Chromosome	HGNC_symbol	Ensembl_gene_id	Ensembl_transcript_id	Biotype	Transcript_status	CCDS_id	HGNC_id	CDS_length	Protein_length	transcript_start	transcript_end	strand	Previous_symbol	Synonymous
HSCHR6_MHC_MANN	None	ENSG00000266142	ENST00000578939	miRNA	NOVEL	None	None	None	None	30051790	30051922	-1	None	None
HSCHR6_MHC_MANN	TRIM31-AS1	ENSG00000237050	ENST00000412479	processed_transcript	KNOWN	None	39761	None	None	30068180	30077657	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000263589	ENST00000581565	snoRNA	NOVEL	None	None	None	None	30145745	30145906	-1	None	None
HSCHR6_MHC_MANN	PAIP1P1	ENSG00000226175	ENST00000418072	processed_pseudogene	KNOWN	None	18240	None	None	30199679	30201500	-1	None	bQB44E15.5, bPG254M11.3, bCX300M20.3
HSCHR6_MHC_MANN	HCG17	ENSG00000240924	ENST00000453243	processed_transcript	PUTATIVE	None	31339	None	None	30246907	30247345	-1	None	NCRNA00046, LINC00046
HSCHR6_MHC_MANN	HCG17	ENSG00000240924	ENST00000437311	processed_transcript	KNOWN	None	31339	None	None	30246907	30338582	-1	None	NCRNA00046, LINC00046
21	LINC00307	ENSG00000227342	ENST00000451410	lincRNA	KNOWN	None	16727	None	None	31581469	31584101	-1	NCRNA00307	D21S2091E
HSCHR6_MHC_MANN	TRIM26BP	ENSG00000231928	ENST00000434024	unprocessed_pseudogene	KNOWN	None	31338	None	None	30251169	30254730	1	TRIM26P	Em:AB023053.1, TRIM26P1
21	RPL8P2	ENSG00000225267	ENST00000430538	processed_pseudogene	KNOWN	None	17220	None	None	31635698	31636199	-1	None	None
HSCHR6_MHC_DBB	None	ENSG00000257399	ENST00000547734	pseudogene	NOVEL	None	None	None	None	30490906	30491030	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000257451	ENST00000553062	pseudogene	NOVEL	None	None	None	None	30496687	30496907	1	None	None
HSCHR6_MHC_MANN	HLA-L	ENSG00000239618	ENST00000491405	processed_transcript	KNOWN	None	4970	None	None	30272057	30279407	1	HLA92, HLAL	HLA-92
HSCHR6_MHC_MANN	HLA-L	ENSG00000239618	ENST00000475416	transcribed_unprocessed_pseudogene	KNOWN	None	4970	None	None	30272075	30274791	1	HLA92, HLAL	HLA-92
HSCHR6_MHC_MANN	HLA-L	ENSG00000239618	ENST00000550855	unprocessed_pseudogene	KNOWN	None	4970	None	None	30272044	30305476	1	HLA92, HLAL	HLA-92
HSCHR6_MHC_DBB	None	ENSG00000263866	ENST00000583429	miRNA	KNOWN	None	None	None	None	30542353	30542438	1	None	None
22	DDT	ENSG00000099977	ENST00000398344	protein_coding	KNOWN	CCDS13820	2732	357	118	24313554	24316773	-1	None	DDCT
22	DDT	ENSG00000099977	ENST00000350608	protein_coding	KNOWN	CCDS13820	2732	357	118	24313554	24322019	-1	None	DDCT
22	DDT	ENSG00000099977	ENST00000428792	protein_coding	PUTATIVE	None	2732	152	49	24313559	24315372	-1	None	DDCT
22	DDT	ENSG00000099977	ENST00000404092	protein_coding	PUTATIVE	None	2732	399	132	24313567	24322660	-1	None	DDCT
22	DDT	ENSG00000099977	ENST00000444947	retained_intron	KNOWN	None	2732	None	None	24315270	24316680	-1	None	DDCT
22	DDT	ENSG00000099977	ENST00000403754	protein_coding	PUTATIVE	None	2732	501	166	24315293	24316648	-1	None	DDCT
22	DDT	ENSG00000099977	ENST00000430101	protein_coding	PUTATIVE	None	2732	324	107	24315293	24316648	-1	None	DDCT
HSCHR6_MHC_MANN	HCG18	ENSG00000230660	ENST00000426671	processed_transcript	KNOWN	None	31337	None	None	30303261	30338835	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
HSCHR6_MHC_MANN	HCG18	ENSG00000230660	ENST00000431304	processed_transcript	KNOWN	None	31337	None	None	30303473	30338782	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
HSCHR6_MHC_MANN	HCG18	ENSG00000230660	ENST00000425304	processed_transcript	KNOWN	None	31337	None	None	30303473	30338795	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
HSCHR6_MHC_MANN	HCG18	ENSG00000230660	ENST00000445913	processed_transcript	KNOWN	None	31337	None	None	30303473	30338824	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
HSCHR6_MHC_MANN	HCG18	ENSG00000230660	ENST00000413527	processed_transcript	KNOWN	None	31337	None	None	30303473	30338834	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
HSCHR6_MHC_MANN	HCG18	ENSG00000230660	ENST00000414930	processed_transcript	KNOWN	None	31337	None	None	30303473	30339299	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
HSCHR6_MHC_MANN	HCG18	ENSG00000230660	ENST00000442807	processed_transcript	KNOWN	None	31337	None	None	30303473	30339345	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
HSCHR6_MHC_MANN	HCG18	ENSG00000230660	ENST00000443079	processed_transcript	KNOWN	None	31337	None	None	30303473	30339598	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
HSCHR5_1_CTG1	None	ENSG00000264351	ENST00000577736	snoRNA	NOVEL	None	None	None	None	69531524	69531627	1	None	None
HSCHR5_1_CTG1	None	ENSG00000262915	ENST00000576567	unprocessed_pseudogene	KNOWN	None	None	None	None	69545807	69571649	-1	None	None
21	KRTAP13-6P	ENSG00000250973	ENST00000508999	unprocessed_pseudogene	KNOWN	None	18930	None	None	31728833	31729203	-1	KRTAP13P2	KAP13B
21	MIR4327	ENSG00000265007	ENST00000581194	miRNA	KNOWN	None	38355	None	None	31747612	31747696	-1	None	hsa-mir-4327
HSCHR5_1_CTG1	CDH12P4	ENSG00000263188	ENST00000570430	unprocessed_pseudogene	KNOWN	None	37700	None	None	69575889	69576183	1	None	None
21	KRTAP13-5P	ENSG00000233640	ENST00000418755	unprocessed_pseudogene	KNOWN	None	18929	None	None	31808784	31809282	-1	KRTAP13P1	KAP13A
HSCHR5_1_CTG1	None	ENSG00000262641	ENST00000571229	unprocessed_pseudogene	KNOWN	None	None	None	None	69640521	69650987	-1	None	None
13	ARL11	ENSG00000152213	ENST00000282026	protein_coding	KNOWN	CCDS9419	24046	591	196	50202435	50208008	1	None	ARLTS1, FLJ33930
13	ARL11	ENSG00000152213	ENST00000490932	processed_transcript	KNOWN	None	24046	None	None	50202659	50206373	1	None	ARLTS1, FLJ33930
18	METTL4	ENSG00000101574	ENST00000319888	protein_coding	PUTATIVE	None	24726	1260	419	2537524	2571508	-1	None	FLJ23017, HsT661
18	METTL4	ENSG00000101574	ENST00000573134	retained_intron	KNOWN	None	24726	None	None	2537529	2567612	-1	None	FLJ23017, HsT661
18	METTL4	ENSG00000101574	ENST00000576251	protein_coding	PUTATIVE	None	24726	278	91	2537530	2554691	-1	None	FLJ23017, HsT661
18	METTL4	ENSG00000101574	ENST00000574538	protein_coding	KNOWN	CCDS11826	24726	1419	472	2538452	2571485	-1	None	FLJ23017, HsT661
18	METTL4	ENSG00000101574	ENST00000577166	protein_coding	PUTATIVE	None	24726	271	89	2554785	2571232	-1	None	FLJ23017, HsT661
18	METTL4	ENSG00000101574	ENST00000574676	protein_coding	PUTATIVE	None	24726	63	20	2567006	2571470	-1	None	FLJ23017, HsT661
HSCHR6_MHC_APD	ZNF311	ENSG00000225351	ENST00000426120	protein_coding	KNOWN	None	13847	2001	666	28962606	28973082	-1	None	None
HSCHR6_MHC_APD	ZNF311	ENSG00000225351	ENST00000481554	processed_transcript	KNOWN	None	13847	None	None	28962606	28973138	-1	None	None
HSCHR5_1_CTG1	None	ENSG00000262417	ENST00000575749	processed_transcript	PUTATIVE	None	None	None	None	69863007	69957472	-1	None	None
HSCHR5_1_CTG1	None	ENSG00000262417	ENST00000575020	processed_transcript	PUTATIVE	None	None	None	None	69864637	69957466	-1	None	None
HSCHR5_1_CTG1	None	ENSG00000263095	ENST00000572313	lincRNA	KNOWN	None	None	None	None	69883824	69886046	-1	None	None
HSCHR6_MHC_DBB	None	ENSG00000264822	ENST00000583939	miRNA	KNOWN	None	None	None	None	30574247	30574323	-1	None	None
HSCHR5_1_CTG1	None	ENSG00000263349	ENST00000573162	processed_transcript	KNOWN	None	None	None	None	69886934	69896943	1	None	None
HSCHR5_1_CTG1	None	ENSG00000263349	ENST00000571982	processed_transcript	KNOWN	None	None	None	None	69886934	69897142	1	None	None
HSCHR5_1_CTG1	None	ENSG00000263349	ENST00000573329	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	69886978	69887484	1	None	None
HSCHR5_1_CTG1	None	ENSG00000263349	ENST00000571374	processed_transcript	PUTATIVE	None	None	None	None	69888651	69890380	1	None	None
HSCHR6_MHC_DBB	PTMAP1	ENSG00000237156	ENST00000411648	processed_pseudogene	KNOWN	None	9624	None	None	30591649	30591915	1	None	Em:AB023049.6
HSCHR6_MHC_DBB	PTMAP1	ENSG00000237156	ENST00000547756	pseudogene	KNOWN	None	9624	None	None	30591649	30591893	1	None	Em:AB023049.6
HSCHR6_MHC_DBB	None	ENSG00000263550	ENST00000584599	miRNA	NOVEL	None	None	None	None	30606683	30606776	1	None	None
20	ITPA	ENSG00000125877	ENST00000483354	processed_transcript	KNOWN	None	6176	None	None	3189514	3204516	1	C20orf37	HLC14-06-P, dJ794I6.3
20	ITPA	ENSG00000125877	ENST00000460676	processed_transcript	KNOWN	None	6176	None	None	3189544	3199242	1	C20orf37	HLC14-06-P, dJ794I6.3
20	ITPA	ENSG00000125877	ENST00000380113	protein_coding	KNOWN	CCDS13051	6176	585	194	3190006	3204516	1	C20orf37	HLC14-06-P, dJ794I6.3
20	ITPA	ENSG00000125877	ENST00000490838	processed_transcript	KNOWN	None	6176	None	None	3190135	3204516	1	C20orf37	HLC14-06-P, dJ794I6.3
20	ITPA	ENSG00000125877	ENST00000460550	processed_transcript	KNOWN	None	6176	None	None	3190159	3204516	1	C20orf37	HLC14-06-P, dJ794I6.3
20	ITPA	ENSG00000125877	ENST00000399838	protein_coding	KNOWN	CCDS58762	6176	462	153	3190171	3204516	1	C20orf37	HLC14-06-P, dJ794I6.3
20	ITPA	ENSG00000125877	ENST00000461029	processed_transcript	KNOWN	None	6176	None	None	3195858	3204095	1	C20orf37	HLC14-06-P, dJ794I6.3
20	ITPA	ENSG00000125877	ENST00000472295	processed_transcript	KNOWN	None	6176	None	None	3202399	3204516	1	C20orf37	HLC14-06-P, dJ794I6.3
20	ITPA	ENSG00000125877	ENST00000455664	protein_coding	KNOWN	CCDS46576	6176	534	177	3190056	3204504	1	C20orf37	HLC14-06-P, dJ794I6.3
HSCHR5_1_CTG1	None	ENSG00000264498	ENST00000578192	miRNA	NOVEL	None	None	None	None	69898425	69898512	-1	None	None
HSCHR6_MHC_DBB	RPL7P4	ENSG00000233091	ENST00000445134	processed_pseudogene	KNOWN	None	21634	None	None	30654846	30655575	-1	None	Em:AB023049.2
18	ANKRD29	ENSG00000154065	ENST00000592179	protein_coding	KNOWN	CCDS11879	27110	906	301	21178890	21242849	-1	None	FLJ25053
18	ANKRD29	ENSG00000154065	ENST00000591280	retained_intron	KNOWN	None	27110	None	None	21179974	21227961	-1	None	FLJ25053
18	ANKRD29	ENSG00000154065	ENST00000322980	protein_coding	KNOWN	None	27110	807	268	21180424	21242779	-1	None	FLJ25053
18	ANKRD29	ENSG00000154065	ENST00000587763	nonsense_mediated_decay	KNOWN	None	27110	380	125	21181010	21209884	-1	None	FLJ25053
18	ANKRD29	ENSG00000154065	ENST00000591617	retained_intron	KNOWN	None	27110	None	None	21181241	21199788	-1	None	FLJ25053
18	ANKRD29	ENSG00000154065	ENST00000586511	processed_transcript	KNOWN	None	27110	None	None	21198505	21199687	-1	None	FLJ25053
18	ANKRD29	ENSG00000154065	ENST00000586087	protein_coding	NOVEL	None	27110	430	142	21209816	21242847	-1	None	FLJ25053
18	ANKRD29	ENSG00000154065	ENST00000585908	retained_intron	KNOWN	None	27110	None	None	21228459	21242736	-1	None	FLJ25053
18	ANKRD29	ENSG00000154065	ENST00000284207	protein_coding	KNOWN	None	27110	807	268	21179980	21229486	-1	None	FLJ25053
HSCHR5_1_CTG1	None	ENSG00000261989	ENST00000574392	lincRNA	KNOWN	None	None	None	None	69956746	69957699	1	None	None
HSCHR6_MHC_DBB	MDC1-AS1	ENSG00000229681	ENST00000454912	processed_transcript	KNOWN	None	39764	None	None	30661107	30671223	1	None	None
HSCHR5_1_CTG1	None	ENSG00000262726	ENST00000570456	processed_pseudogene	KNOWN	None	None	None	None	69986891	69987446	-1	None	None
HSCHR5_1_CTG1	HMGN1P12	ENSG00000262274	ENST00000575227	processed_pseudogene	KNOWN	None	39356	None	None	70048782	70048976	-1	None	None
HSCHR6_MHC_DBB	None	ENSG00000263950	ENST00000581716	misc_RNA	NOVEL	None	None	None	None	30694343	30694453	-1	None	None
HSCHR6_MHC_APD	OR2W1	ENSG00000226463	ENST00000421027	protein_coding	KNOWN	None	8281	963	320	29012035	29013062	-1	None	hs6M1-15
HSCHR6_MHC_APD	OR2B3	ENSG00000233054	ENST00000420178	protein_coding	KNOWN	None	8238	942	313	29054028	29055133	-1	OR2B3P	OR6-4
HSCHR6_MHC_APD	OR2J3	ENSG00000226271	ENST00000428081	protein_coding	KNOWN	None	8261	936	311	29079708	29080643	1	None	OR6-6
HG325_PATCH	RASSF1	ENSG00000263005	ENST00000575029	protein_coding	KNOWN	None	9882	813	270	50367220	50374896	-1	None	NORE2A, REH3P21, RDA32, 123F2
HG325_PATCH	RASSF1	ENSG00000263005	ENST00000574064	protein_coding	KNOWN	None	9882	570	189	50367220	50375665	-1	None	NORE2A, REH3P21, RDA32, 123F2
HG325_PATCH	RASSF1	ENSG00000263005	ENST00000573573	protein_coding	KNOWN	None	9882	1035	344	50367220	50378273	-1	None	NORE2A, REH3P21, RDA32, 123F2
HG325_PATCH	RASSF1	ENSG00000263005	ENST00000575676	nonsense_mediated_decay	KNOWN	None	9882	279	92	50367220	50378273	-1	None	NORE2A, REH3P21, RDA32, 123F2
HG325_PATCH	RASSF1	ENSG00000263005	ENST00000571713	protein_coding	KNOWN	None	9882	1023	340	50367220	50378344	-1	None	NORE2A, REH3P21, RDA32, 123F2
HG325_PATCH	RASSF1	ENSG00000263005	ENST00000576813	nonsense_mediated_decay	KNOWN	None	9882	459	152	50367220	50378344	-1	None	NORE2A, REH3P21, RDA32, 123F2
HG325_PATCH	RASSF1	ENSG00000263005	ENST00000576255	retained_intron	KNOWN	None	9882	None	None	50373809	50378412	-1	None	NORE2A, REH3P21, RDA32, 123F2
HG325_PATCH	RASSF1	ENSG00000263005	ENST00000574282	processed_transcript	KNOWN	None	9882	None	None	50374002	50378262	-1	None	NORE2A, REH3P21, RDA32, 123F2
HG325_PATCH	RASSF1	ENSG00000263005	ENST00000575781	retained_intron	KNOWN	None	9882	None	None	50374232	50375720	-1	None	NORE2A, REH3P21, RDA32, 123F2
HSCHR6_MHC_MANN	ABHD16A	ENSG00000224552	ENST00000492968	retained_intron	KNOWN	None	13921	None	None	31694225	31695659	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_MANN	ABHD16A	ENSG00000224552	ENST00000495991	retained_intron	KNOWN	None	13921	None	None	31694225	31697872	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_MANN	ABHD16A	ENSG00000224552	ENST00000475067	processed_transcript	KNOWN	None	13921	None	None	31694225	31710344	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_MANN	ABHD16A	ENSG00000224552	ENST00000461585	processed_transcript	KNOWN	None	13921	None	None	31694225	31710611	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_MANN	ABHD16A	ENSG00000224552	ENST00000429735	protein_coding	KNOWN	None	13921	1806	601	31694225	31710687	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_MANN	ABHD16A	ENSG00000224552	ENST00000482324	retained_intron	KNOWN	None	13921	None	None	31694657	31695591	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_MANN	ABHD16A	ENSG00000224552	ENST00000484108	retained_intron	KNOWN	None	13921	None	None	31694845	31695573	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_MANN	ABHD16A	ENSG00000224552	ENST00000497782	processed_transcript	KNOWN	None	13921	None	None	31694923	31697515	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_MANN	ABHD16A	ENSG00000224552	ENST00000463288	retained_intron	KNOWN	None	13921	None	None	31695043	31698916	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_MANN	ABHD16A	ENSG00000224552	ENST00000496614	processed_transcript	KNOWN	None	13921	None	None	31696285	31710604	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_MANN	ABHD16A	ENSG00000224552	ENST00000414591	protein_coding	KNOWN	None	13921	791	262	31697826	31710137	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_MANN	ABHD16A	ENSG00000224552	ENST00000467696	processed_transcript	KNOWN	None	13921	None	None	31698716	31700326	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_MANN	ABHD16A	ENSG00000224552	ENST00000496223	retained_intron	KNOWN	None	13921	None	None	31698859	31699564	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_MANN	ABHD16A	ENSG00000224552	ENST00000546528	protein_coding	KNOWN	None	13921	1677	558	31694219	31710631	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_MANN	ABHD16A	ENSG00000224552	ENST00000552042	protein_coding	KNOWN	None	13921	1578	525	31694219	31710344	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_APD	OR2J2	ENSG00000225550	ENST00000440124	protein_coding	KNOWN	None	8260	939	312	29141357	29142397	1	None	OR6-8, hs6M1-6, dJ80I19.4
21	KRTAP19-9P	ENSG00000237841	ENST00000421795	unprocessed_pseudogene	KNOWN	None	18950	None	None	31882625	31882815	-1	KRTAP19P1	KAP19A
13	USPL1	ENSG00000132952	ENST00000465952	processed_transcript	KNOWN	None	20294	None	None	31191830	31205611	1	C13orf22	bA121O19.1, D13S106E
13	USPL1	ENSG00000132952	ENST00000255304	protein_coding	KNOWN	CCDS9336	20294	3279	1092	31191920	31233686	1	C13orf22	bA121O19.1, D13S106E
21	KRTAP19-10P	ENSG00000235312	ENST00000445258	unprocessed_pseudogene	KNOWN	None	18951	None	None	31886931	31887117	-1	KRTAP19P2	KAP19B
HSCHR6_MHC_APD	OR14J1	ENSG00000236927	ENST00000420495	protein_coding	KNOWN	None	13971	966	321	29274489	29275605	1	OR5U1	hs6M1-28
21	None	ENSG00000218125	ENST00000406413	unprocessed_pseudogene	KNOWN	None	None	None	None	31898864	31899019	-1	None	None
21	KRTAP19-11P	ENSG00000236612	ENST00000439851	unprocessed_pseudogene	KNOWN	None	18952	None	None	31909597	31909700	-1	KRTAP19P3	KAP19C
21	None	ENSG00000256818	ENST00000537053	pseudogene	NOVEL	None	None	None	None	31964786	31965076	1	None	None
13	EBPL	ENSG00000123179	ENST00000473576	processed_transcript	KNOWN	None	18061	None	None	50234859	50265574	-1	None	EBRP
13	EBPL	ENSG00000123179	ENST00000378284	protein_coding	PUTATIVE	None	18061	405	134	50234859	50265599	-1	None	EBRP
13	EBPL	ENSG00000123179	ENST00000378272	protein_coding	PUTATIVE	None	18061	294	97	50234859	50265599	-1	None	EBRP
13	EBPL	ENSG00000123179	ENST00000495963	processed_transcript	KNOWN	None	18061	None	None	50234859	50265599	-1	None	EBRP
13	EBPL	ENSG00000123179	ENST00000242827	protein_coding	KNOWN	CCDS9420	18061	621	206	50234862	50265611	-1	None	EBRP
13	EBPL	ENSG00000123179	ENST00000378270	protein_coding	KNOWN	None	18061	309	102	50234970	50265593	-1	None	EBRP
13	EBPL	ENSG00000123179	ENST00000378268	protein_coding	PUTATIVE	None	18061	459	152	50242306	50265599	-1	None	EBRP
13	EBPL	ENSG00000123179	ENST00000378282	protein_coding	KNOWN	None	18061	387	128	50236039	50265611	-1	None	EBRP
HSCHR6_MHC_DBB	None	ENSG00000264417	ENST00000584009	misc_RNA	NOVEL	None	None	None	None	30709197	30709444	1	None	None
HSCHR6_MHC_APD	OR11A1	ENSG00000232289	ENST00000440485	protein_coding	KNOWN	None	8176	948	315	29393366	29396328	-1	OR11A2	hs6M1-18
HSCHR6_MHC_APD	OR11A1	ENSG00000232289	ENST00000435232	protein_coding	KNOWN	None	8176	948	315	29393366	29424928	-1	OR11A2	hs6M1-18
HSCHR6_MHC_APD	OR11A1	ENSG00000232289	ENST00000549749	protein_coding	KNOWN	None	8176	948	315	29393366	29395594	-1	OR11A2	hs6M1-18
HSCHR6_MHC_DBB	HCG20	ENSG00000224923	ENST00000423317	processed_transcript	KNOWN	None	31334	None	None	30724987	30750718	1	None	AB023051.1, NCRNA00149
HSCHR6_MHC_DBB	HCG20	ENSG00000224923	ENST00000430862	processed_transcript	KNOWN	None	31334	None	None	30740115	30750718	1	None	AB023051.1, NCRNA00149
HG1308_PATCH	None	ENSG00000264307	ENST00000581464	processed_pseudogene	KNOWN	None	None	None	None	130503858	130507379	-1	None	None
HSCHR6_MHC_APD	OR10C1	ENSG00000230505	ENST00000455234	protein_coding	KNOWN	None	8165	939	312	29407167	29408815	1	OR10C2	hs6M1-17, OR10C1P
HSCHR6_MHC_APD	OR10C1	ENSG00000230505	ENST00000552057	protein_coding	KNOWN	None	8165	912	303	29407787	29408782	1	OR10C2	hs6M1-17, OR10C1P
22	GP1BB	ENSG00000203618	ENST00000366425	protein_coding	KNOWN	CCDS42980	4440	621	206	19710468	19712294	1	None	CD42c
HG7_PATCH	OR9A4	ENSG00000261301	ENST00000562967	protein_coding	KNOWN	None	15095	945	314	141618617	141619709	1	None	None
HSCHR17_1	None	ENSG00000257318	ENST00000551609	protein_coding	NOVEL	None	None	354	117	43752301	43767276	1	None	None
13	IFT88	ENSG00000032742	ENST00000351808	protein_coding	KNOWN	CCDS31945	20606	2475	824	21141208	21265501	1	TTC10	hTg737, Tg737, D13S1056E, MGC26259
13	IFT88	ENSG00000032742	ENST00000319980	protein_coding	KNOWN	CCDS31944	20606	2502	833	21141277	21265503	1	TTC10	hTg737, Tg737, D13S1056E, MGC26259
13	IFT88	ENSG00000032742	ENST00000389373	protein_coding	NOVEL	None	20606	150	49	21141305	21157155	1	TTC10	hTg737, Tg737, D13S1056E, MGC26259
13	IFT88	ENSG00000032742	ENST00000461115	processed_transcript	KNOWN	None	20606	None	None	21179195	21206278	1	TTC10	hTg737, Tg737, D13S1056E, MGC26259
13	IFT88	ENSG00000032742	ENST00000482172	processed_transcript	KNOWN	None	20606	None	None	21189930	21265356	1	TTC10	hTg737, Tg737, D13S1056E, MGC26259
13	IFT88	ENSG00000032742	ENST00000460931	processed_transcript	KNOWN	None	20606	None	None	21205156	21215855	1	TTC10	hTg737, Tg737, D13S1056E, MGC26259
13	IFT88	ENSG00000032742	ENST00000470695	processed_transcript	KNOWN	None	20606	None	None	21237404	21245178	1	TTC10	hTg737, Tg737, D13S1056E, MGC26259
13	IFT88	ENSG00000032742	ENST00000382778	protein_coding	KNOWN	None	20606	2388	795	21140585	21265501	1	TTC10	hTg737, Tg737, D13S1056E, MGC26259
13	IFT88	ENSG00000032742	ENST00000537103	protein_coding	KNOWN	None	20606	2418	805	21141291	21265501	1	TTC10	hTg737, Tg737, D13S1056E, MGC26259
HSCHR6_MHC_APD	OR2H1	ENSG00000229125	ENST00000453467	protein_coding	KNOWN	None	8252	951	316	29425038	29432186	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_APD	OR2H1	ENSG00000229125	ENST00000454071	protein_coding	KNOWN	None	8252	951	316	29425045	29432186	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_APD	OR2H1	ENSG00000229125	ENST00000493120	processed_transcript	KNOWN	None	8252	None	None	29425060	29428944	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_APD	OR2H1	ENSG00000229125	ENST00000440557	protein_coding	KNOWN	None	8252	951	316	29427628	29432186	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_APD	OR2H1	ENSG00000229125	ENST00000416582	protein_coding	KNOWN	None	8252	951	316	29429298	29430591	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_APD	OR2H1	ENSG00000229125	ENST00000493309	processed_transcript	KNOWN	None	8252	None	None	29429353	29430578	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_APD	OR2H1	ENSG00000229125	ENST00000489416	processed_transcript	KNOWN	None	8252	None	None	29429353	29430578	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_APD	OR2H1	ENSG00000229125	ENST00000552011	protein_coding	KNOWN	None	8252	951	316	29426310	29432178	1	OR2H6, OR2H8	OR6-2
HSCHR12_3_CTG2_1	ANO4	ENSG00000262139	ENST00000573650	protein_coding	KNOWN	None	23837	530	175	101505377	101522065	1	TMEM16D	FLJ34221, FLJ34272, FLJ35277
HSCHR12_3_CTG2_1	ANO4	ENSG00000262139	ENST00000575847	protein_coding	KNOWN	None	23837	530	175	101505377	101522405	1	TMEM16D	FLJ34221, FLJ34272, FLJ35277
HSCHR12_3_CTG2_1	ANO4	ENSG00000262139	ENST00000570509	protein_coding	KNOWN	None	23837	530	175	101505377	101522419	1	TMEM16D	FLJ34221, FLJ34272, FLJ35277
HSCHR6_MHC_APD	MAS1L	ENSG00000234954	ENST00000418003	protein_coding	KNOWN	None	13961	1137	378	29454555	29455819	-1	None	MAS-L, MRG, dJ994E9.2
21	AIRE	ENSG00000160224	ENST00000530812	retained_intron	KNOWN	None	360	None	None	45705721	45718531	1	APECED	PGA1, APS1
21	AIRE	ENSG00000160224	ENST00000527919	retained_intron	KNOWN	None	360	None	None	45705729	45717622	1	APECED	PGA1, APS1
21	AIRE	ENSG00000160224	ENST00000291582	protein_coding	KNOWN	CCDS13706	360	1638	545	45705763	45718102	1	APECED	PGA1, APS1
21	AIRE	ENSG00000160224	ENST00000397994	retained_intron	KNOWN	None	360	None	None	45710638	45717872	1	APECED	PGA1, APS1
21	AIRE	ENSG00000160224	ENST00000337909	retained_intron	KNOWN	None	360	None	None	45710638	45717872	1	APECED	PGA1, APS1
21	AIRE	ENSG00000160224	ENST00000355347	protein_coding	KNOWN	None	360	1017	338	45710690	45718102	1	APECED	PGA1, APS1
21	AIRE	ENSG00000160224	ENST00000329347	protein_coding	KNOWN	None	360	735	244	45710690	45718102	1	APECED	PGA1, APS1
HSCHR12_3_CTG2_1	SLC5A8	ENSG00000262217	ENST00000572861	protein_coding	KNOWN	None	19119	1833	610	101555447	101610166	-1	None	AIT
HSCHR12_3_CTG2_1	None	ENSG00000261867	ENST00000575271	snRNA	NOVEL	None	None	None	None	101599226	101599332	-1	None	None
HSCHR12_3_CTG2_1	None	ENSG00000263114	ENST00000572071	processed_pseudogene	KNOWN	None	None	None	None	101628096	101628831	-1	None	None
HG706_PATCH	BTC	ENSG00000261530	ENST00000567516	protein_coding	NOVEL	None	1121	326	107	75612096	75635873	-1	None	None
HG706_PATCH	BTC	ENSG00000261530	ENST00000566356	protein_coding	KNOWN	None	1121	537	178	75610476	75660403	-1	None	None
HG706_PATCH	None	ENSG00000260666	ENST00000568277	antisense	KNOWN	None	None	None	None	75418301	75455198	-1	None	None
13	DZIP1	ENSG00000134874	ENST00000361396	protein_coding	KNOWN	CCDS9477	20908	2547	848	96233371	96296944	-1	None	KIAA0996, DZIP
13	DZIP1	ENSG00000134874	ENST00000376829	protein_coding	KNOWN	CCDS9478	20908	2604	867	96234206	96296957	-1	None	KIAA0996, DZIP
13	DZIP1	ENSG00000134874	ENST00000485031	processed_transcript	KNOWN	None	20908	None	None	96234224	96240387	-1	None	KIAA0996, DZIP
13	DZIP1	ENSG00000134874	ENST00000479518	processed_transcript	KNOWN	None	20908	None	None	96236832	96239928	-1	None	KIAA0996, DZIP
13	DZIP1	ENSG00000134874	ENST00000466569	nonsense_mediated_decay	KNOWN	None	20908	834	277	96251611	96294283	-1	None	KIAA0996, DZIP
13	DZIP1	ENSG00000134874	ENST00000466027	processed_transcript	KNOWN	None	20908	None	None	96289263	96296920	-1	None	KIAA0996, DZIP
13	DZIP1	ENSG00000134874	ENST00000347108	protein_coding	KNOWN	CCDS9478	20908	2604	867	96230457	96295517	-1	None	KIAA0996, DZIP
13	DZIP1	ENSG00000134874	ENST00000361156	protein_coding	KNOWN	CCDS9477	20908	2547	848	96230457	96295517	-1	None	KIAA0996, DZIP
HG243_PATCH	ADCK5	ENSG00000261694	ENST00000564001	protein_coding	PUTATIVE	None	21738	342	113	145428004	145445959	1	None	FLJ35454
HG243_PATCH	ADCK5	ENSG00000261694	ENST00000561985	nonsense_mediated_decay	KNOWN	None	21738	189	62	145428740	145448062	1	None	FLJ35454
HG243_PATCH	ADCK5	ENSG00000261694	ENST00000569475	protein_coding	PUTATIVE	None	21738	595	197	145428945	145446375	1	None	FLJ35454
HG243_PATCH	ADCK5	ENSG00000261694	ENST00000566603	nonsense_mediated_decay	KNOWN	None	21738	390	129	145428949	145448145	1	None	FLJ35454
HG243_PATCH	ADCK5	ENSG00000261694	ENST00000563699	protein_coding	KNOWN	None	21738	1743	580	145428955	145448139	1	None	FLJ35454
HG243_PATCH	ADCK5	ENSG00000261694	ENST00000563384	processed_transcript	PUTATIVE	None	21738	None	None	145428958	145434324	1	None	FLJ35454
HG243_PATCH	ADCK5	ENSG00000261694	ENST00000565998	retained_intron	KNOWN	None	21738	None	None	145428964	145445787	1	None	FLJ35454
HG243_PATCH	ADCK5	ENSG00000261694	ENST00000569837	nonsense_mediated_decay	KNOWN	None	21738	348	115	145428979	145445958	1	None	FLJ35454
HSCHR6_MHC_QBL	RGL2	ENSG00000206282	ENST00000383204	protein_coding	KNOWN	None	9769	2334	777	33188277	33195944	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_QBL	RGL2	ENSG00000206282	ENST00000480471	processed_transcript	KNOWN	None	9769	None	None	33188277	33195550	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_QBL	RGL2	ENSG00000206282	ENST00000472307	retained_intron	KNOWN	None	9769	None	None	33188277	33195141	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_QBL	RGL2	ENSG00000206282	ENST00000480078	processed_transcript	KNOWN	None	9769	None	None	33188277	33193723	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_QBL	RGL2	ENSG00000206282	ENST00000487403	processed_transcript	PUTATIVE	None	9769	None	None	33188286	33195595	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_QBL	RGL2	ENSG00000206282	ENST00000487756	processed_transcript	PUTATIVE	None	9769	None	None	33188729	33190550	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_QBL	RGL2	ENSG00000206282	ENST00000484659	retained_intron	KNOWN	None	9769	None	None	33189715	33192243	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_QBL	RGL2	ENSG00000206282	ENST00000486721	retained_intron	KNOWN	None	9769	None	None	33192307	33194606	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_QBL	RGL2	ENSG00000206282	ENST00000481011	retained_intron	KNOWN	None	9769	None	None	33192426	33194613	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_QBL	RGL2	ENSG00000206282	ENST00000493047	processed_transcript	KNOWN	None	9769	None	None	33192719	33194312	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_QBL	RGL2	ENSG00000206282	ENST00000489840	retained_intron	KNOWN	None	9769	None	None	33192777	33194006	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_QBL	RGL2	ENSG00000206282	ENST00000455072	protein_coding	KNOWN	None	9769	440	145	33193064	33195430	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_QBL	RGL2	ENSG00000206282	ENST00000547127	protein_coding	KNOWN	None	9769	1977	658	33188670	33196019	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_MCF	HLA-DOA	ENSG00000230141	ENST00000438987	protein_coding	KNOWN	None	4936	753	250	33005421	33010855	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
HSCHR6_MHC_MCF	HLA-DOA	ENSG00000230141	ENST00000492839	processed_transcript	KNOWN	None	4936	None	None	33007850	33008627	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
HSCHR6_MHC_MCF	HLA-DOA	ENSG00000230141	ENST00000485411	retained_intron	KNOWN	None	4936	None	None	33008044	33009297	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
HSCHR6_MHC_MCF	HLA-DOA	ENSG00000230141	ENST00000489297	processed_transcript	KNOWN	None	4936	None	None	33008688	33009367	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
HSCHR6_MHC_MCF	HLA-DOA	ENSG00000230141	ENST00000444109	protein_coding	KNOWN	None	4936	260	85	33008740	33010822	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
HSCHR6_MHC_MCF	HLA-DOA	ENSG00000230141	ENST00000494729	processed_transcript	KNOWN	None	4936	None	None	33009304	33010825	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
HSCHR6_MHC_MCF	HLA-DOA	ENSG00000230141	ENST00000549845	protein_coding	KNOWN	None	4936	186	61	33007989	33010803	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
22	TBX1	ENSG00000184058	ENST00000332710	protein_coding	PUTATIVE	CCDS13767	11592	1488	495	19744226	19754855	1	None	None
22	TBX1	ENSG00000184058	ENST00000329705	protein_coding	KNOWN	CCDS13766	11592	1197	398	19744226	19767069	1	None	None
22	TBX1	ENSG00000184058	ENST00000359500	protein_coding	KNOWN	CCDS13765	11592	1119	372	19744226	19771116	1	None	None
22	TBX1	ENSG00000184058	ENST00000475303	retained_intron	KNOWN	None	11592	None	None	19748720	19751225	1	None	None
22	TBX1	ENSG00000184058	ENST00000484336	retained_intron	KNOWN	None	11592	None	None	19752602	19753850	1	None	None
21	KRTAP21-4P	ENSG00000236400	ENST00000454921	unprocessed_pseudogene	KNOWN	None	18954	None	None	32114098	32114913	-1	KRTAP21P1	KAP21A
HSCHR6_MHC_SSTO	TNXB	ENSG00000236236	ENST00000472274	retained_intron	KNOWN	None	11976	None	None	32000782	32005755	-1	TNXB1, TNXB2	TNXBS, XBS, XB
HSCHR6_MHC_SSTO	TNXB	ENSG00000236236	ENST00000464376	processed_transcript	KNOWN	None	11976	None	None	32000782	32006234	-1	TNXB1, TNXB2	TNXBS, XBS, XB
HSCHR6_MHC_SSTO	TNXB	ENSG00000236236	ENST00000412618	protein_coding	KNOWN	None	11976	6449	2148	32000782	32027628	-1	TNXB1, TNXB2	TNXBS, XBS, XB
HSCHR6_MHC_SSTO	TNXB	ENSG00000236236	ENST00000460385	retained_intron	KNOWN	None	11976	None	None	32001893	32003079	-1	TNXB1, TNXB2	TNXBS, XBS, XB
HSCHR6_MHC_SSTO	TNXB	ENSG00000236236	ENST00000546684	protein_coding	KNOWN	None	11976	2022	673	32000781	32007606	-1	TNXB1, TNXB2	TNXBS, XBS, XB
HSCHR6_MHC_SSTO	TNXB	ENSG00000236236	ENST00000552149	protein_coding	KNOWN	None	11976	939	312	32012298	32016495	-1	TNXB1, TNXB2	TNXBS, XBS, XB
HSCHR6_MHC_SSTO	TNXB	ENSG00000236236	ENST00000551201	protein_coding	KNOWN	None	11976	651	216	32021025	32022111	-1	TNXB1, TNXB2	TNXBS, XBS, XB
21	None	ENSG00000238257	ENST00000424582	unprocessed_pseudogene	KNOWN	None	None	None	None	32135000	32135200	-1	None	None
21	KRTAP8-2P	ENSG00000233036	ENST00000440620	unprocessed_pseudogene	KNOWN	None	18948	None	None	32174560	32174745	-1	KRTAP8P1	KAP8A
21	SOD1	ENSG00000142168	ENST00000270142	protein_coding	KNOWN	CCDS33536	11179	465	154	33031935	33041244	1	ALS, ALS1	IPOA
21	SOD1	ENSG00000142168	ENST00000389995	protein_coding	PUTATIVE	None	11179	408	135	33031979	33041244	1	ALS, ALS1	IPOA
21	SOD1	ENSG00000142168	ENST00000476106	processed_transcript	KNOWN	None	11179	None	None	33032006	33039654	1	ALS, ALS1	IPOA
21	SOD1	ENSG00000142168	ENST00000470944	processed_transcript	KNOWN	None	11179	None	None	33032022	33041244	1	ALS, ALS1	IPOA
22	GSTT2	ENSG00000099984	ENST00000215780	protein_coding	KNOWN	CCDS13821	4642	735	244	24322339	24326106	1	None	None
22	GSTT2	ENSG00000099984	ENST00000402588	protein_coding	NOVEL	None	4642	693	230	24322387	24325797	1	None	None
18	None	ENSG00000267501	ENST00000586383	lincRNA	KNOWN	None	None	None	None	56422091	56425074	-1	None	None
18	RN7SL112P	ENSG00000265229	ENST00000584096	misc_RNA	KNOWN	None	46128	None	None	56470253	56470561	1	None	None
18	RNU6-219P	ENSG00000201598	ENST00000364728	snRNA	KNOWN	None	47182	None	None	56472500	56472606	1	None	None
21	KRTAP8-3P	ENSG00000227840	ENST00000423658	unprocessed_pseudogene	KNOWN	None	18949	None	None	32179250	32179437	-1	KRTAP8P2	KAP8B
18	None	ENSG00000267593	ENST00000589476	lincRNA	KNOWN	None	None	None	None	56481112	56501596	1	None	None
HG7_PATCH	CLEC5A	ENSG00000261180	ENST00000567443	protein_coding	KNOWN	None	2054	567	188	141627157	141646783	-1	CLECSF5	MDL-1
HG7_PATCH	CLEC5A	ENSG00000261180	ENST00000566156	nonsense_mediated_decay	KNOWN	None	2054	162	53	141628931	141646807	-1	CLECSF5	MDL-1
HG7_PATCH	CLEC5A	ENSG00000261180	ENST00000566964	protein_coding	NOVEL	None	2054	498	165	141629140	141646744	-1	CLECSF5	MDL-1
HG7_PATCH	CLEC5A	ENSG00000261180	ENST00000565526	protein_coding	PUTATIVE	None	2054	255	84	141629815	141646736	-1	CLECSF5	MDL-1
HG7_PATCH	CLEC5A	ENSG00000261180	ENST00000562401	protein_coding	NOVEL	None	2054	468	155	141631307	141646733	-1	CLECSF5	MDL-1
HG7_PATCH	CLEC5A	ENSG00000261180	ENST00000567766	processed_transcript	PUTATIVE	None	2054	None	None	141631308	141646687	-1	CLECSF5	MDL-1
HG7_PATCH	CLEC5A	ENSG00000261180	ENST00000565231	retained_intron	KNOWN	None	2054	None	None	141631567	141636131	-1	CLECSF5	MDL-1
21	KRTAP7-1	ENSG00000184586	ENST00000452750	processed_transcript	KNOWN	None	18934	None	None	32201357	32202078	-1	None	KAP7.1
18	None	ENSG00000199713	ENST00000362843	snoRNA	NOVEL	None	None	None	None	56486115	56486248	-1	None	None
18	RNU2-69P	ENSG00000251870	ENST00000516061	snRNA	KNOWN	None	48562	None	None	56593429	56593528	-1	None	None
21	None	ENSG00000256386	ENST00000539876	pseudogene	NOVEL	None	None	None	None	32201362	32202051	-1	None	None
HSCHR5_1_CTG2	MCTP1	ENSG00000262742	ENST00000573031	processed_transcript	KNOWN	None	26183	None	None	94039446	94120602	-1	None	FLJ22344
HSCHR5_1_CTG2	MCTP1	ENSG00000262742	ENST00000575480	protein_coding	KNOWN	None	26183	3000	999	94040805	94636885	-1	None	FLJ22344
HSCHR5_1_CTG2	MCTP1	ENSG00000262742	ENST00000573439	protein_coding	KNOWN	None	26183	2079	692	94042284	94417349	-1	None	FLJ22344
HSCHR5_1_CTG2	MCTP1	ENSG00000262742	ENST00000574707	protein_coding	KNOWN	None	26183	1548	515	94042296	94265406	-1	None	FLJ22344
HSCHR5_1_CTG2	MCTP1	ENSG00000262742	ENST00000573142	protein_coding	KNOWN	None	26183	2337	778	94043201	94417186	-1	None	FLJ22344
HSCHR5_1_CTG2	MCTP1	ENSG00000262742	ENST00000575675	retained_intron	KNOWN	None	26183	None	None	94043230	94046398	-1	None	FLJ22344
HSCHR5_1_CTG2	MCTP1	ENSG00000262742	ENST00000577136	protein_coding	NOVEL	None	26183	2051	682	94044254	94417349	-1	None	FLJ22344
HSCHR5_1_CTG2	MCTP1	ENSG00000262742	ENST00000575385	protein_coding	PUTATIVE	None	26183	1467	488	94134790	94417276	-1	None	FLJ22344
HSCHR5_1_CTG2	MCTP1	ENSG00000262742	ENST00000573975	protein_coding	KNOWN	None	26183	1803	600	94202848	94417331	-1	None	FLJ22344
HSCHR5_1_CTG2	MCTP1	ENSG00000262742	ENST00000572563	protein_coding	NOVEL	None	26183	1245	414	94203358	94275880	-1	None	FLJ22344
HSCHR5_1_CTG2	MCTP1	ENSG00000262742	ENST00000574764	protein_coding	NOVEL	None	26183	874	290	94245021	94636310	-1	None	FLJ22344
HSCHR5_1_CTG2	MCTP1	ENSG00000262742	ENST00000576548	protein_coding	NOVEL	None	26183	575	190	94248563	94353191	-1	None	FLJ22344
HSCHR5_1_CTG2	MCTP1	ENSG00000262742	ENST00000574929	protein_coding	NOVEL	None	26183	510	169	94266448	94353188	-1	None	FLJ22344
HSCHR5_1_CTG2	MCTP1	ENSG00000262742	ENST00000575295	processed_transcript	KNOWN	None	26183	None	None	94278054	94314770	-1	None	FLJ22344
HSCHR5_1_CTG2	MCTP1	ENSG00000262742	ENST00000571964	protein_coding	NOVEL	None	26183	406	134	94278089	94417350	-1	None	FLJ22344
HSCHR5_1_CTG2	MCTP1	ENSG00000262742	ENST00000575696	processed_transcript	KNOWN	None	26183	None	None	94278098	94501879	-1	None	FLJ22344
HSCHR5_1_CTG2	MCTP1	ENSG00000262742	ENST00000571099	protein_coding	KNOWN	None	26183	244	80	94288997	94417588	-1	None	FLJ22344
HSCHR5_1_CTG2	MCTP1	ENSG00000262742	ENST00000576763	processed_transcript	KNOWN	None	26183	None	None	94353071	94417286	-1	None	FLJ22344
21	UBE3AP2	ENSG00000228941	ENST00000429033	processed_pseudogene	KNOWN	None	12498	None	None	32432919	32435487	-1	None	None
18	OACYLP	ENSG00000224367	ENST00000417918	unitary_pseudogene	KNOWN	None	44362	None	None	56663966	56736570	1	None	ACYL3P
18	OACYLP	ENSG00000224367	ENST00000587790	processed_transcript	KNOWN	None	44362	None	None	56688464	56726849	1	None	ACYL3P
18	OACYLP	ENSG00000224367	ENST00000587689	retained_intron	KNOWN	None	44362	None	None	56720364	56725174	1	None	ACYL3P
18	OACYLP	ENSG00000224367	ENST00000587906	retained_intron	KNOWN	None	44362	None	None	56734441	56736539	1	None	ACYL3P
22	SYCE3	ENSG00000217442	ENST00000406915	protein_coding	PUTATIVE	CCDS46733	35245	267	88	50989541	51001334	-1	C22orf41	None
22	SYCE3	ENSG00000217442	ENST00000402753	protein_coding	PUTATIVE	CCDS46733	35245	267	88	50989626	50994861	-1	C22orf41	None
HSCHR6_MHC_DBB	LINC00243	ENSG00000227596	ENST00000324858	processed_transcript	KNOWN	None	30956	None	None	30771341	30789111	-1	C6orf214, NCRNA00243	bQB230F21.2, FLJ40693, bQB10J12.2
HSCHR6_MHC_DBB	LINC00243	ENSG00000227596	ENST00000415307	processed_transcript	KNOWN	None	30956	None	None	30757111	30789111	-1	C6orf214, NCRNA00243	bQB230F21.2, FLJ40693, bQB10J12.2
21	None	ENSG00000237325	ENST00000490865	processed_pseudogene	KNOWN	None	None	None	None	32824779	32825536	1	None	None
21	None	ENSG00000237594	ENST00000433071	lincRNA	KNOWN	None	None	None	None	32931537	32932800	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000231733	ENST00000426068	processed_transcript	KNOWN	None	None	None	None	30797975	30806609	-1	None	None
21	FBXW11P1	ENSG00000230870	ENST00000393804	processed_pseudogene	KNOWN	None	1145	None	None	32999440	33000913	-1	BTRC2P, FBXW1BP1, FBXW1BP	None
HSCHR6_MHC_DBB	None	ENSG00000265255	ENST00000581605	misc_RNA	NOVEL	None	None	None	None	30822711	30823013	1	None	None
HSCHR6_MHC_DBB	DDR1-AS1	ENSG00000236492	ENST00000415153	processed_transcript	KNOWN	None	28694	None	None	30825443	30834387	-1	TIGD1L	bPG70P20.2, bCX111D4.7, bQB10J12.1
21	None	ENSG00000234509	ENST00000449339	processed_transcript	PUTATIVE	None	None	None	None	33025906	33031813	-1	None	None
HSCHR6_MHC_DBB	MIR4640	ENSG00000265505	ENST00000577651	miRNA	KNOWN	None	41561	None	None	30849365	30849454	1	None	hsa-mir-4640
HSCHR6_MHC_DBB	None	ENSG00000264264	ENST00000577196	misc_RNA	NOVEL	None	None	None	None	30865366	30865629	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000266841	ENST00000579435	misc_RNA	NOVEL	None	None	None	None	30891109	30891200	-1	None	None
HSCHR6_MHC_DBB	HCG21	ENSG00000235747	ENST00000419547	processed_transcript	KNOWN	None	31335	None	None	30904474	30913356	-1	None	AB023048.2, NCRNA00150
HSCHR6_MHC_DBB	None	ENSG00000258014	ENST00000549245	pseudogene	NOVEL	None	None	None	None	30956227	30956528	-1	None	None
HSCHR6_MHC_DBB	None	ENSG00000234461	ENST00000431128	processed_transcript	PUTATIVE	None	None	None	None	30988743	30993542	1	None	None
HSCHR17_1_CTG1	DOC2B	ENSG00000187939	ENST00000496357	protein_coding	KNOWN	None	2986	923	306	6011	31427	-1	DOC2BL	None
HSCHR17_1	None	ENSG00000258372	ENST00000549904	protein_coding	KNOWN	None	None	378	125	43776446	43839462	1	None	None
HSCHR17_1	None	ENSG00000258372	ENST00000549665	protein_coding	KNOWN	None	None	612	203	43776486	43839018	1	None	None
HSCHR17_1	None	ENSG00000258372	ENST00000550273	protein_coding	KNOWN	None	None	534	177	43776486	43802079	1	None	None
HSCHR17_1	None	ENSG00000258372	ENST00000553155	protein_coding	KNOWN	None	None	330	109	43785311	43829071	1	None	None
HSCHR17_1_CTG1	RPH3AL	ENSG00000262334	ENST00000574223	protein_coding	KNOWN	None	10296	948	315	62293	220721	-1	None	Noc2
13	ALOX5AP	ENSG00000132965	ENST00000380490	protein_coding	KNOWN	CCDS9337	436	486	161	31309645	31338556	1	None	FLAP
13	ALOX5AP	ENSG00000132965	ENST00000479597	processed_transcript	KNOWN	None	436	None	None	31316473	31318533	1	None	FLAP
14	ZFP36L1	ENSG00000185650	ENST00000555997	protein_coding	PUTATIVE	None	1107	210	69	69254377	69257960	-1	BRF1	RNF162B, Berg36, ERF1, TIS11B, cMG1
14	ZFP36L1	ENSG00000185650	ENST00000439696	protein_coding	KNOWN	CCDS9791	1107	1017	338	69254379	69259957	-1	BRF1	RNF162B, Berg36, ERF1, TIS11B, cMG1
14	ZFP36L1	ENSG00000185650	ENST00000336440	protein_coding	KNOWN	CCDS9791	1107	1017	338	69255322	69261453	-1	BRF1	RNF162B, Berg36, ERF1, TIS11B, cMG1
14	ZFP36L1	ENSG00000185650	ENST00000557086	protein_coding	PUTATIVE	None	1107	623	206	69256662	69262970	-1	BRF1	RNF162B, Berg36, ERF1, TIS11B, cMG1
14	ZFP36L1	ENSG00000185650	ENST00000557022	protein_coding	PUTATIVE	None	1107	529	175	69256672	69262798	-1	BRF1	RNF162B, Berg36, ERF1, TIS11B, cMG1
14	ZFP36L1	ENSG00000185650	ENST00000553375	protein_coding	PUTATIVE	None	1107	568	188	69256906	69262931	-1	BRF1	RNF162B, Berg36, ERF1, TIS11B, cMG1
14	ZFP36L1	ENSG00000185650	ENST00000408913	protein_coding	KNOWN	None	1107	501	166	69261464	69263190	-1	BRF1	RNF162B, Berg36, ERF1, TIS11B, cMG1
HSCHR17_1_CTG1	None	ENSG00000266762	ENST00000583926	miRNA	NOVEL	None	None	None	None	4961	5048	-1	None	None
HSCHR17_1_CTG1	None	ENSG00000240468	ENST00000477499	lincRNA	KNOWN	None	None	None	None	33615	37038	-1	None	None
HSCHR6_MHC_DBB	HCG22	ENSG00000229501	ENST00000412408	processed_transcript	KNOWN	None	27780	None	None	31015766	31021436	1	None	FLJ37114, PBMUCL2
22	GSTT1	ENSG00000184674	ENST00000436103	protein_coding	PUTATIVE	None	4641	327	108	24376133	24379492	-1	None	None
22	GSTT1	ENSG00000184674	ENST00000417831	nonsense_mediated_decay	KNOWN	None	4641	138	45	24376133	24384258	-1	None	None
22	GSTT1	ENSG00000184674	ENST00000248935	protein_coding	KNOWN	CCDS13822	4641	723	240	24376133	24384284	-1	None	None
22	GSTT1	ENSG00000184674	ENST00000426209	nonsense_mediated_decay	KNOWN	None	4641	141	46	24376139	24384252	-1	None	None
22	GSTT1	ENSG00000184674	ENST00000458231	nonsense_mediated_decay	KNOWN	None	4641	294	97	24376139	24384259	-1	None	None
22	GSTT1	ENSG00000184674	ENST00000417489	nonsense_mediated_decay	KNOWN	None	4641	135	44	24376139	24384267	-1	None	None
22	GSTT1	ENSG00000184674	ENST00000417870	protein_coding	PUTATIVE	None	4641	197	64	24376533	24384252	-1	None	None
22	GSTT1	ENSG00000184674	ENST00000418883	nonsense_mediated_decay	KNOWN	None	4641	345	114	24376915	24384271	-1	None	None
22	GSTT1	ENSG00000184674	ENST00000480898	retained_intron	KNOWN	None	4641	None	None	24379874	24384271	-1	None	None
22	GSTT1	ENSG00000184674	ENST00000428175	retained_intron	KNOWN	None	4641	None	None	24381521	24384271	-1	None	None
22	GSTT1	ENSG00000184674	ENST00000447865	protein_coding	KNOWN	None	4641	195	64	24381705	24384680	-1	None	None
22	GSTT1	ENSG00000184674	ENST00000486544	retained_intron	KNOWN	None	4641	None	None	24382933	24384271	-1	None	None
22	GSTT1	ENSG00000184674	ENST00000439996	protein_coding	KNOWN	None	4641	369	122	24376291	24384242	-1	None	None
GL000228.1	None	ENSG00000148828	ENST00000368515	protein_coding	KNOWN	None	None	840	279	30530	32226	-1	None	None
8	ZNF704	ENSG00000164684	ENST00000327835	protein_coding	KNOWN	CCDS34913	32291	1239	412	81540686	81787016	-1	None	FLJ16218, Gig1
8	ZNF704	ENSG00000164684	ENST00000517379	processed_transcript	PUTATIVE	None	32291	None	None	81550769	81552930	-1	None	FLJ16218, Gig1
8	ZNF704	ENSG00000164684	ENST00000517986	processed_transcript	PUTATIVE	None	32291	None	None	81570903	81571899	-1	None	FLJ16218, Gig1
8	ZNF704	ENSG00000164684	ENST00000522040	processed_transcript	KNOWN	None	32291	None	None	81577077	81585574	-1	None	FLJ16218, Gig1
8	ZNF704	ENSG00000164684	ENST00000520336	processed_transcript	KNOWN	None	32291	None	None	81577302	81726494	-1	None	FLJ16218, Gig1
8	ZNF704	ENSG00000164684	ENST00000519936	protein_coding	KNOWN	None	32291	569	188	81582828	81785900	-1	None	FLJ16218, Gig1
13	None	ENSG00000226619	ENST00000450212	antisense	KNOWN	None	None	None	None	19601977	19602841	1	None	None
13	RNA5SP24	ENSG00000252287	ENST00000516478	rRNA	KNOWN	None	42600	None	None	19662627	19662721	1	RN5S24	None
13	CENPIP1	ENSG00000224778	ENST00000425713	unprocessed_pseudogene	KNOWN	None	39575	None	None	19700539	19713751	1	None	None
13	RNU6-52P	ENSG00000252675	ENST00000516866	snRNA	KNOWN	None	42542	None	None	19717122	19717217	1	RNU6-52	None
13	PCDH9-AS1	ENSG00000234527	ENST00000430861	antisense	KNOWN	None	39897	None	None	66878003	66897693	1	None	None
21	None	ENSG00000238390	ENST00000458922	snoRNA	NOVEL	None	None	None	None	33036619	33036795	1	None	None
13	None	ENSG00000234894	ENST00000433721	unprocessed_pseudogene	KNOWN	None	None	None	None	19725694	19726447	-1	None	None
13	RNU7-87P	ENSG00000238500	ENST00000459343	snRNA	KNOWN	None	42616	None	None	67204847	67204908	-1	None	None
21	HMGN1P2	ENSG00000229046	ENST00000445197	processed_pseudogene	KNOWN	None	4985	None	None	33078868	33079177	1	HMG14P, HMGN1L2	None
13	SMPD4P2	ENSG00000229147	ENST00000440167	unprocessed_pseudogene	KNOWN	None	39674	None	None	19726707	19745334	-1	None	None
13	PCDH9-AS2	ENSG00000228842	ENST00000419371	antisense	KNOWN	None	39896	None	None	67399301	67489163	1	None	None
21	TPT1P1	ENSG00000234107	ENST00000458495	processed_pseudogene	KNOWN	None	16742	None	None	33212653	33213170	1	TPT1P	None
HSCHR2_1_CTG12	G6PC2	ENSG00000262563	ENST00000573192	protein_coding	KNOWN	None	28906	1068	355	169774739	169781632	1	None	IGRP
HSCHR2_1_CTG12	G6PC2	ENSG00000262563	ENST00000572378	protein_coding	PUTATIVE	None	28906	465	154	169774790	169781230	1	None	IGRP
HSCHR2_1_CTG12	G6PC2	ENSG00000262563	ENST00000571993	nonsense_mediated_decay	KNOWN	None	28906	309	102	169774792	169783494	1	None	IGRP
HSCHR2_1_CTG12	G6PC2	ENSG00000262563	ENST00000574012	protein_coding	PUTATIVE	None	28906	243	80	169774824	169781335	1	None	IGRP
HSCHR2_1_CTG12	G6PC2	ENSG00000262563	ENST00000576368	processed_transcript	KNOWN	None	28906	None	None	169776448	169782194	1	None	IGRP
21	None	ENSG00000237138	ENST00000437109	antisense	KNOWN	None	None	None	None	33393279	33394095	-1	None	None
13	PCDH9-AS3	ENSG00000225263	ENST00000434073	antisense	KNOWN	None	40427	None	None	67551564	67559908	1	None	None
13	PSPC1P1	ENSG00000227879	ENST00000442352	unprocessed_pseudogene	KNOWN	None	42033	None	None	19775777	19801572	-1	None	None
HSCHR6_MHC_MCF	VARS	ENSG00000224264	ENST00000473229	processed_transcript	PUTATIVE	None	12651	None	None	31821595	31822259	-1	VARS2	None
HSCHR6_MHC_MCF	VARS	ENSG00000224264	ENST00000422694	protein_coding	KNOWN	None	12651	3795	1264	31821595	31840030	-1	VARS2	None
HSCHR6_MHC_MCF	VARS	ENSG00000224264	ENST00000461227	retained_intron	KNOWN	None	12651	None	None	31823307	31824128	-1	VARS2	None
HSCHR6_MHC_MCF	VARS	ENSG00000224264	ENST00000435299	protein_coding	KNOWN	None	12651	863	286	31824532	31826666	-1	VARS2	None
HSCHR6_MHC_MCF	VARS	ENSG00000224264	ENST00000491232	processed_transcript	KNOWN	None	12651	None	None	31824628	31826271	-1	VARS2	None
HSCHR6_MHC_MCF	VARS	ENSG00000224264	ENST00000482300	retained_intron	KNOWN	None	12651	None	None	31824954	31826002	-1	VARS2	None
HSCHR6_MHC_MCF	VARS	ENSG00000224264	ENST00000485047	retained_intron	KNOWN	None	12651	None	None	31824955	31825827	-1	VARS2	None
HSCHR6_MHC_MCF	VARS	ENSG00000224264	ENST00000459886	retained_intron	KNOWN	None	12651	None	None	31825435	31826497	-1	VARS2	None
HSCHR6_MHC_MCF	VARS	ENSG00000224264	ENST00000461265	retained_intron	KNOWN	None	12651	None	None	31825770	31827316	-1	VARS2	None
HSCHR6_MHC_MCF	VARS	ENSG00000224264	ENST00000478838	processed_transcript	KNOWN	None	12651	None	None	31825777	31826506	-1	VARS2	None
HSCHR6_MHC_MCF	VARS	ENSG00000224264	ENST00000463326	retained_intron	KNOWN	None	12651	None	None	31826489	31828513	-1	VARS2	None
HSCHR6_MHC_MCF	VARS	ENSG00000224264	ENST00000482057	retained_intron	KNOWN	None	12651	None	None	31828676	31837037	-1	VARS2	None
HSCHR6_MHC_MCF	VARS	ENSG00000224264	ENST00000460877	retained_intron	KNOWN	None	12651	None	None	31829324	31836355	-1	VARS2	None
HSCHR6_MHC_MCF	VARS	ENSG00000224264	ENST00000419375	protein_coding	KNOWN	None	12651	522	173	31837063	31839576	-1	VARS2	None
13	PCDH9-AS4	ENSG00000233840	ENST00000456459	antisense	KNOWN	None	40428	None	None	67565018	67576139	1	None	None
21	LINC00159	ENSG00000230323	ENST00000411605	lincRNA	KNOWN	None	1285	None	None	33452629	33458608	-1	C21orf44, NCRNA00159	None
21	LINC00159	ENSG00000230323	ENST00000414877	lincRNA	KNOWN	None	1285	None	None	33452629	33570125	-1	C21orf44, NCRNA00159	None
13	RPSAP53	ENSG00000214263	ENST00000433498	processed_pseudogene	KNOWN	None	36641	None	None	67840977	67841838	-1	None	None
18	NDC80	ENSG00000080986	ENST00000261597	protein_coding	KNOWN	CCDS11827	16909	1929	642	2571510	2616634	1	KNTC2	HEC, HEC1, hsNDC80, TID3
18	NDC80	ENSG00000080986	ENST00000575515	protein_coding	NOVEL	None	16909	425	140	2571564	2577868	1	KNTC2	HEC, HEC1, hsNDC80, TID3
18	NDC80	ENSG00000080986	ENST00000576274	processed_transcript	KNOWN	None	16909	None	None	2577848	2582525	1	KNTC2	HEC, HEC1, hsNDC80, TID3
18	NDC80	ENSG00000080986	ENST00000574567	retained_intron	KNOWN	None	16909	None	None	2578122	2579195	1	KNTC2	HEC, HEC1, hsNDC80, TID3
18	NDC80	ENSG00000080986	ENST00000574096	protein_coding	PUTATIVE	None	16909	99	32	2610780	2615313	1	KNTC2	HEC, HEC1, hsNDC80, TID3
13	None	ENSG00000232243	ENST00000428785	lincRNA	KNOWN	None	None	None	None	19836937	19837285	-1	None	None
13	None	ENSG00000232243	ENST00000437057	lincRNA	KNOWN	None	None	None	None	19836937	19838013	-1	None	None
21	None	ENSG00000264055	ENST00000581586	miRNA	NOVEL	None	None	None	None	33524217	33524320	1	None	None
13	LINC00364	ENSG00000230040	ENST00000415120	lincRNA	KNOWN	None	42686	None	None	67946519	67954108	1	None	None
21	None	ENSG00000261610	ENST00000565959	lincRNA	KNOWN	None	None	None	None	33632115	33633896	-1	None	None
13	None	ENSG00000271287	ENST00000605312	processed_pseudogene	KNOWN	None	None	None	None	68364539	68364926	1	None	None
21	MIS18A-AS1	ENSG00000227256	ENST00000453549	antisense	KNOWN	None	40106	None	None	33650174	33653299	1	None	None
13	ANKRD26P3	ENSG00000237636	ENST00000454044	unprocessed_pseudogene	KNOWN	None	39689	None	None	19864733	19918965	-1	LINC00414	None
13	NPM1P22	ENSG00000227969	ENST00000427761	processed_pseudogene	KNOWN	None	39679	None	None	68406008	68406959	-1	None	None
21	None	ENSG00000232623	ENST00000450936	antisense	KNOWN	None	None	None	None	33678775	33681048	-1	None	None
HSCHR21_3_CTG1_1	PAXBP1	ENSG00000263141	ENST00000574159	protein_coding	KNOWN	None	13579	2754	917	34106210	34144169	-1	C21orf66, GCFC1	GCFC, fSAP105
HSCHR21_3_CTG1_1	PAXBP1	ENSG00000263141	ENST00000571682	retained_intron	KNOWN	None	13579	None	None	34106211	34129105	-1	C21orf66, GCFC1	GCFC, fSAP105
HSCHR21_3_CTG1_1	PAXBP1	ENSG00000263141	ENST00000575264	nonsense_mediated_decay	KNOWN	None	13579	1536	511	34107131	34143998	-1	C21orf66, GCFC1	GCFC, fSAP105
HSCHR21_3_CTG1_1	PAXBP1	ENSG00000263141	ENST00000570467	retained_intron	KNOWN	None	13579	None	None	34107137	34124435	-1	C21orf66, GCFC1	GCFC, fSAP105
HSCHR21_3_CTG1_1	PAXBP1	ENSG00000263141	ENST00000573680	protein_coding	PUTATIVE	None	13579	2448	815	34113704	34143979	-1	C21orf66, GCFC1	GCFC, fSAP105
HSCHR21_3_CTG1_1	PAXBP1	ENSG00000263141	ENST00000574463	nonsense_mediated_decay	KNOWN	None	13579	78	25	34113730	34115579	-1	C21orf66, GCFC1	GCFC, fSAP105
HSCHR21_3_CTG1_1	PAXBP1	ENSG00000263141	ENST00000570370	nonsense_mediated_decay	KNOWN	None	13579	111	36	34120870	34127622	-1	C21orf66, GCFC1	GCFC, fSAP105
HSCHR21_3_CTG1_1	PAXBP1	ENSG00000263141	ENST00000575821	processed_transcript	KNOWN	None	13579	None	None	34128653	34143979	-1	C21orf66, GCFC1	GCFC, fSAP105
HSCHR21_3_CTG1_1	PAXBP1	ENSG00000263141	ENST00000575419	retained_intron	KNOWN	None	13579	None	None	34131713	34144103	-1	C21orf66, GCFC1	GCFC, fSAP105
13	OR7E111P	ENSG00000231667	ENST00000442229	processed_pseudogene	KNOWN	None	15344	None	None	68476487	68477374	1	None	None
21	RN7SL109P	ENSG00000242871	ENST00000493105	misc_RNA	KNOWN	None	46125	None	None	33714826	33715062	-1	None	None
13	OR7E33P	ENSG00000226537	ENST00000437705	processed_pseudogene	KNOWN	None	8406	None	None	68485219	68486080	1	None	hg688
21	SNORA80	ENSG00000200792	ENST00000363922	snoRNA	KNOWN	None	32666	None	None	33749496	33749631	-1	None	ACA67
13	MRPL3P1	ENSG00000215349	ENST00000400109	processed_pseudogene	KNOWN	None	29701	None	None	19878733	19879765	-1	None	None
13	ELL2P3	ENSG00000234765	ENST00000457883	processed_pseudogene	KNOWN	None	39345	None	None	68863811	68865412	-1	None	None
13	LINC00421	ENSG00000236834	ENST00000413833	lincRNA	KNOWN	None	42755	None	None	19919189	19920889	1	None	None
HSCHR6_MHC_QBL	TNXB	ENSG00000229353	ENST00000488124	retained_intron	KNOWN	None	11976	None	None	31966589	31971562	-1	TNXB1, TNXB2	TNXBS, XBS, XB
HSCHR6_MHC_QBL	TNXB	ENSG00000229353	ENST00000471059	processed_transcript	KNOWN	None	11976	None	None	31966589	31972041	-1	TNXB1, TNXB2	TNXBS, XBS, XB
HSCHR6_MHC_QBL	TNXB	ENSG00000229353	ENST00000424713	protein_coding	KNOWN	None	11976	9890	3295	31966589	32011521	-1	TNXB1, TNXB2	TNXBS, XBS, XB
HSCHR6_MHC_QBL	TNXB	ENSG00000229353	ENST00000466115	retained_intron	KNOWN	None	11976	None	None	31967700	31968886	-1	TNXB1, TNXB2	TNXBS, XBS, XB
HSCHR6_MHC_QBL	TNXB	ENSG00000229353	ENST00000550539	protein_coding	KNOWN	None	11976	2022	673	31966588	31973413	-1	TNXB1, TNXB2	TNXBS, XBS, XB
HSCHR6_MHC_QBL	TNXB	ENSG00000229353	ENST00000551808	protein_coding	KNOWN	None	11976	939	312	31981286	31983789	-1	TNXB1, TNXB2	TNXBS, XBS, XB
HSCHR6_MHC_QBL	TNXB	ENSG00000229353	ENST00000548628	protein_coding	KNOWN	None	11976	651	216	31986831	31987917	-1	TNXB1, TNXB2	TNXBS, XBS, XB
HSCHR6_MHC_QBL	TNXB	ENSG00000229353	ENST00000549652	protein_coding	KNOWN	None	11976	840	279	31990514	32006828	-1	TNXB1, TNXB2	TNXBS, XBS, XB
13	PARP4P2	ENSG00000224976	ENST00000446672	unprocessed_pseudogene	KNOWN	None	37760	None	None	19923277	19982102	1	None	None
HG75_PATCH	DHRS11	ENSG00000261508	ENST00000568873	protein_coding	KNOWN	None	28639	783	260	34919858	34928764	1	None	MGC4172, SDR24C1
HG75_PATCH	DHRS11	ENSG00000261508	ENST00000564611	processed_transcript	KNOWN	None	28639	None	None	34919874	34924971	1	None	MGC4172, SDR24C1
HG75_PATCH	DHRS11	ENSG00000261508	ENST00000562521	retained_intron	KNOWN	None	28639	None	None	34922579	34926200	1	None	MGC4172, SDR24C1
GL000228.1	None	ENSG00000239156	ENST00000459052	rRNA	NOVEL	None	None	None	None	20113	20230	1	None	None
20	ID1	ENSG00000125968	ENST00000376112	protein_coding	KNOWN	CCDS13185	5360	468	155	30193086	30194318	1	None	dJ857M17.1.2, bHLHb24
20	ID1	ENSG00000125968	ENST00000376105	protein_coding	KNOWN	CCDS13186	5360	450	149	30193092	30194313	1	None	dJ857M17.1.2, bHLHb24
GL000228.1	None	ENSG00000238762	ENST00000458805	rRNA	NOVEL	None	None	None	None	22673	22791	1	None	None
GL000228.1	None	ENSG00000238720	ENST00000459195	miRNA	NOVEL	None	None	None	None	65370	65465	-1	None	None
GL000228.1	None	ENSG00000256490	ENST00000535364	pseudogene	NOVEL	None	None	None	None	72627	74249	1	None	None
GL000228.1	None	ENSG00000256631	ENST00000378762	pseudogene	NOVEL	None	None	None	None	75933	77555	1	None	None
13	HNRNPA1P18	ENSG00000229910	ENST00000433537	processed_pseudogene	KNOWN	None	39445	None	None	68875737	68877434	-1	None	None
GL000228.1	None	ENSG00000256344	ENST00000537684	pseudogene	NOVEL	None	None	None	None	79239	80861	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000263467	ENST00000579598	snRNA	NOVEL	None	None	None	None	31044569	31044668	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000257626	ENST00000546825	pseudogene	NOVEL	None	None	None	None	31084165	31084334	-1	None	None
HSCHR4_1	None	ENSG00000257679	ENST00000547910	protein_coding	KNOWN	None	None	1584	527	69676504	69699836	-1	None	None
HSCHR6_MHC_DBB	None	ENSG00000258281	ENST00000552709	pseudogene	NOVEL	None	None	None	None	31091816	31092136	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000257739	ENST00000547873	pseudogene	NOVEL	None	None	None	None	31095845	31096065	1	None	None
HSCHR6_MHC_DBB	POLR2LP	ENSG00000232007	ENST00000413367	processed_pseudogene	KNOWN	None	31340	None	None	31102242	31102428	1	None	AB023060.6
HG325_PATCH	None	ENSG00000263323	ENST00000571719	processed_transcript	KNOWN	None	None	None	None	50297735	50300790	1	None	None
HG325_PATCH	None	ENSG00000263323	ENST00000575099	processed_transcript	PUTATIVE	None	None	None	None	50297846	50298839	1	None	None
HG325_PATCH	None	ENSG00000263323	ENST00000572206	processed_transcript	PUTATIVE	None	None	None	None	50298665	50300744	1	None	None
HSCHR6_MHC_DBB	PSORS1C3	ENSG00000231450	ENST00000450562	processed_transcript	KNOWN	None	17203	None	None	31135256	31139421	-1	None	NCRNA00196
HG7_PATCH	TAS2R38	ENSG00000260696	ENST00000567903	protein_coding	KNOWN	None	9584	1002	333	141672431	141673573	-1	PTC	T2R61
HSCHR9_3_CTG35	None	ENSG00000263169	ENST00000576849	processed_pseudogene	KNOWN	None	None	None	None	90795584	90796324	1	None	None
13	MEDAG	ENSG00000102802	ENST00000380482	protein_coding	KNOWN	CCDS9338	25926	912	303	31480328	31499709	1	C13orf33	FLJ14834, AWMS3, MEDA-4
13	MEDAG	ENSG00000102802	ENST00000428944	protein_coding	NOVEL	None	25926	320	105	31480843	31498586	1	C13orf33	FLJ14834, AWMS3, MEDA-4
22	CSNK1E	ENSG00000213923	ENST00000359867	protein_coding	KNOWN	CCDS13970	2453	1251	416	38686697	38714089	-1	None	HCKIE, CKIE, CKIepsilon
22	CSNK1E	ENSG00000213923	ENST00000400206	protein_coding	KNOWN	CCDS13970	2453	1251	416	38687373	38794527	-1	None	HCKIE, CKIE, CKIepsilon
22	CSNK1E	ENSG00000213923	ENST00000366216	protein_coding	KNOWN	None	2453	359	118	38687936	38690533	-1	None	HCKIE, CKIE, CKIepsilon
22	CSNK1E	ENSG00000213923	ENST00000431632	protein_coding	KNOWN	None	2453	433	143	38688320	38694857	-1	None	HCKIE, CKIE, CKIepsilon
22	CSNK1E	ENSG00000213923	ENST00000495232	retained_intron	KNOWN	None	2453	None	None	38688915	38690465	-1	None	HCKIE, CKIE, CKIepsilon
22	CSNK1E	ENSG00000213923	ENST00000403904	protein_coding	KNOWN	CCDS13970	2453	1251	416	38689256	38713444	-1	None	HCKIE, CKIE, CKIepsilon
22	CSNK1E	ENSG00000213923	ENST00000431611	nonsense_mediated_decay	KNOWN	None	2453	355	117	38689266	38696768	-1	None	HCKIE, CKIE, CKIepsilon
22	CSNK1E	ENSG00000213923	ENST00000494610	retained_intron	KNOWN	None	2453	None	None	38689909	38690540	-1	None	HCKIE, CKIE, CKIepsilon
22	CSNK1E	ENSG00000213923	ENST00000413574	protein_coding	PUTATIVE	None	2453	1011	336	38692211	38713416	-1	None	HCKIE, CKIE, CKIepsilon
22	CSNK1E	ENSG00000213923	ENST00000405675	protein_coding	PUTATIVE	None	2453	936	311	38692212	38713444	-1	None	HCKIE, CKIE, CKIepsilon
22	CSNK1E	ENSG00000213923	ENST00000498529	processed_transcript	KNOWN	None	2453	None	None	38692632	38696070	-1	None	HCKIE, CKIE, CKIepsilon
22	CSNK1E	ENSG00000213923	ENST00000442216	nonsense_mediated_decay	KNOWN	None	2453	275	90	38693608	38696030	-1	None	HCKIE, CKIE, CKIepsilon
22	CSNK1E	ENSG00000213923	ENST00000451964	protein_coding	PUTATIVE	None	2453	812	269	38694035	38699014	-1	None	HCKIE, CKIE, CKIepsilon
22	CSNK1E	ENSG00000213923	ENST00000467976	retained_intron	KNOWN	None	2453	None	None	38694586	38698995	-1	None	HCKIE, CKIE, CKIepsilon
22	CSNK1E	ENSG00000213923	ENST00000430335	protein_coding	KNOWN	None	2453	675	224	38695961	38712978	-1	None	HCKIE, CKIE, CKIepsilon
22	CSNK1E	ENSG00000213923	ENST00000396832	protein_coding	KNOWN	CCDS13970	2453	1251	416	38686698	38713413	-1	None	HCKIE, CKIE, CKIepsilon
X	MAGT1	ENSG00000102158	ENST00000358075	protein_coding	KNOWN	CCDS14436	28880	1104	367	77081861	77151090	-1	None	DKFZp564K142, IAP, OST3B, MRX95
X	MAGT1	ENSG00000102158	ENST00000476168	retained_intron	KNOWN	None	28880	None	None	77111957	77150921	-1	None	DKFZp564K142, IAP, OST3B, MRX95
X	MAGT1	ENSG00000102158	ENST00000373336	protein_coding	PUTATIVE	None	28880	405	134	77123605	77150937	-1	None	DKFZp564K142, IAP, OST3B, MRX95
HSCHR6_MHC_DBB	HCG27	ENSG00000234079	ENST00000416945	processed_transcript	KNOWN	None	27366	None	None	31159280	31165485	1	None	bPG299F13.9, bCX101P6.9, bQB115I13.2, FLJ40123
HSCHR6_MHC_DBB	HCG27	ENSG00000234079	ENST00000458660	processed_transcript	PUTATIVE	None	27366	None	None	31159658	31164739	1	None	bPG299F13.9, bCX101P6.9, bQB115I13.2, FLJ40123
HSCHR6_MHC_DBB	HCG27	ENSG00000234079	ENST00000430277	processed_transcript	PUTATIVE	None	27366	None	None	31163530	31164518	1	None	bPG299F13.9, bCX101P6.9, bQB115I13.2, FLJ40123
HSCHR6_MHC_APD	GABBR1	ENSG00000232569	ENST00000449163	protein_coding	KNOWN	None	4070	2535	844	29523504	29595953	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_APD	GABBR1	ENSG00000232569	ENST00000439457	protein_coding	KNOWN	None	4070	2886	961	29570152	29601074	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_APD	GABBR1	ENSG00000232569	ENST00000452300	protein_coding	KNOWN	None	4070	2535	844	29570152	29595928	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_APD	GABBR1	ENSG00000232569	ENST00000419674	protein_coding	KNOWN	None	4070	2700	899	29570152	29601049	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_APD	GABBR1	ENSG00000232569	ENST00000489750	processed_transcript	KNOWN	None	4070	None	None	29570152	29600848	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_APD	GABBR1	ENSG00000232569	ENST00000461230	processed_transcript	KNOWN	None	4070	None	None	29570152	29576656	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_APD	GABBR1	ENSG00000232569	ENST00000486592	processed_transcript	KNOWN	None	4070	None	None	29571236	29573071	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_APD	GABBR1	ENSG00000232569	ENST00000481198	processed_transcript	KNOWN	None	4070	None	None	29572835	29600300	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_APD	GABBR1	ENSG00000232569	ENST00000477417	processed_transcript	KNOWN	None	4070	None	None	29573332	29574511	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_APD	GABBR1	ENSG00000232569	ENST00000481333	processed_transcript	KNOWN	None	4070	None	None	29576377	29580522	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_APD	GABBR1	ENSG00000232569	ENST00000491396	processed_transcript	KNOWN	None	4070	None	None	29589714	29592171	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_APD	GABBR1	ENSG00000232569	ENST00000467296	processed_transcript	KNOWN	None	4070	None	None	29597814	29600981	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_APD	GABBR1	ENSG00000232569	ENST00000546913	protein_coding	KNOWN	None	4070	2886	961	29570152	29600300	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_APD	GABBR1	ENSG00000232569	ENST00000550428	protein_coding	KNOWN	None	4070	2700	899	29570152	29600300	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_APD	GABBR1	ENSG00000232569	ENST00000547410	protein_coding	KNOWN	None	4070	1737	578	29570152	29600300	-1	None	hGB1a, GPRC3A
HG414_PATCH	ACER3	ENSG00000262970	ENST00000573549	protein_coding	PUTATIVE	None	16066	615	204	76571911	76730811	1	PHCA	FLJ11238, APHC
HG414_PATCH	ACER3	ENSG00000262970	ENST00000571623	protein_coding	KNOWN	None	16066	804	267	76571917	76737841	1	PHCA	FLJ11238, APHC
HG414_PATCH	ACER3	ENSG00000262970	ENST00000574905	processed_transcript	KNOWN	None	16066	None	None	76571965	76705256	1	PHCA	FLJ11238, APHC
HG414_PATCH	ACER3	ENSG00000262970	ENST00000570666	nonsense_mediated_decay	KNOWN	None	16066	156	51	76571968	76727733	1	PHCA	FLJ11238, APHC
HG414_PATCH	ACER3	ENSG00000262970	ENST00000575224	nonsense_mediated_decay	KNOWN	None	16066	243	80	76571979	76732390	1	PHCA	FLJ11238, APHC
HG414_PATCH	ACER3	ENSG00000262970	ENST00000572348	nonsense_mediated_decay	KNOWN	None	16066	225	74	76571980	76731871	1	PHCA	FLJ11238, APHC
HG414_PATCH	ACER3	ENSG00000262970	ENST00000576059	nonsense_mediated_decay	KNOWN	None	16066	216	71	76571981	76726305	1	PHCA	FLJ11238, APHC
HG414_PATCH	ACER3	ENSG00000262970	ENST00000571561	protein_coding	PUTATIVE	None	16066	519	172	76571983	76731744	1	PHCA	FLJ11238, APHC
HG414_PATCH	ACER3	ENSG00000262970	ENST00000576339	protein_coding	NOVEL	None	16066	693	230	76571986	76731572	1	PHCA	FLJ11238, APHC
HG414_PATCH	ACER3	ENSG00000262970	ENST00000570595	nonsense_mediated_decay	KNOWN	None	16066	156	51	76571987	76732589	1	PHCA	FLJ11238, APHC
HG414_PATCH	ACER3	ENSG00000262970	ENST00000573858	nonsense_mediated_decay	KNOWN	None	16066	231	76	76571994	76733969	1	PHCA	FLJ11238, APHC
HG414_PATCH	ACER3	ENSG00000262970	ENST00000572657	protein_coding	PUTATIVE	None	16066	572	189	76631731	76727817	1	PHCA	FLJ11238, APHC
HG414_PATCH	ACER3	ENSG00000262970	ENST00000571974	processed_transcript	KNOWN	None	16066	None	None	76637601	76726150	1	PHCA	FLJ11238, APHC
HG414_PATCH	ACER3	ENSG00000262970	ENST00000574817	retained_intron	KNOWN	None	16066	None	None	76709598	76731356	1	PHCA	FLJ11238, APHC
HG414_PATCH	ACER3	ENSG00000262970	ENST00000571951	retained_intron	KNOWN	None	16066	None	None	76730581	76731644	1	PHCA	FLJ11238, APHC
18	CDH19	ENSG00000071991	ENST00000262150	protein_coding	KNOWN	CCDS11994	1758	2319	772	64168320	64271371	-1	None	CDH7
18	CDH19	ENSG00000071991	ENST00000579658	nonsense_mediated_decay	KNOWN	None	1758	1626	541	64172049	64271375	-1	None	CDH7
18	CDH19	ENSG00000071991	ENST00000540086	protein_coding	PUTATIVE	CCDS59325	1758	1473	490	64172282	64271325	-1	None	CDH7
18	CDH19	ENSG00000071991	ENST00000454642	protein_coding	PUTATIVE	None	1758	1305	434	64199576	64239408	-1	None	CDH7
18	CDH19	ENSG00000071991	ENST00000580157	protein_coding	KNOWN	None	1758	198	65	64235945	64271325	-1	None	CDH7
HSCHR6_MHC_DBB	None	ENSG00000228469	ENST00000411898	processed_transcript	PUTATIVE	None	None	None	None	31161685	31163437	-1	None	None
20	SLC4A11	ENSG00000088836	ENST00000380056	protein_coding	KNOWN	CCDS13052	16438	2676	891	3208063	3218373	-1	CHED2, CDPD1	dJ794I6.2, BTR1, NaBC1
20	SLC4A11	ENSG00000088836	ENST00000380059	protein_coding	KNOWN	CCDS54445	16438	2757	918	3208063	3218812	-1	CHED2, CDPD1	dJ794I6.2, BTR1, NaBC1
20	SLC4A11	ENSG00000088836	ENST00000474451	processed_transcript	KNOWN	None	16438	None	None	3208144	3219836	-1	CHED2, CDPD1	dJ794I6.2, BTR1, NaBC1
20	SLC4A11	ENSG00000088836	ENST00000488544	processed_transcript	KNOWN	None	16438	None	None	3209574	3210422	-1	CHED2, CDPD1	dJ794I6.2, BTR1, NaBC1
20	SLC4A11	ENSG00000088836	ENST00000470631	processed_transcript	KNOWN	None	16438	None	None	3210317	3211206	-1	CHED2, CDPD1	dJ794I6.2, BTR1, NaBC1
20	SLC4A11	ENSG00000088836	ENST00000437836	protein_coding	KNOWN	None	16438	948	315	3211976	3219855	-1	CHED2, CDPD1	dJ794I6.2, BTR1, NaBC1
20	SLC4A11	ENSG00000088836	ENST00000539553	protein_coding	KNOWN	CCDS54446	16438	2628	875	3208064	3219887	-1	CHED2, CDPD1	dJ794I6.2, BTR1, NaBC1
HSCHR6_MHC_DBB	None	ENSG00000257245	ENST00000546693	pseudogene	NOVEL	None	None	None	None	31223320	31223661	-1	None	None
HSCHR6_MHC_DBB	USP8P1	ENSG00000236374	ENST00000438377	processed_pseudogene	KNOWN	None	13987	None	None	31235517	31238689	1	USP8P	KIAA0055-hom, D84394.7
HSCHR6_MHC_DBB	RPL3P2	ENSG00000229430	ENST00000449035	processed_pseudogene	KNOWN	None	17834	None	None	31240245	31241447	1	None	RPL3-Hom
HSCHR6_MHC_MANN	HLA-N	ENSG00000234095	ENST00000416846	unprocessed_pseudogene	KNOWN	None	19406	None	None	30363873	30364007	1	None	HLA-30
HSCHR6_MHC_MANN	None	ENSG00000257168	ENST00000549535	pseudogene	NOVEL	None	None	None	None	30368691	30368778	-1	None	None
HSCHR6_MHC_MANN	HCG19P	ENSG00000236422	ENST00000434495	processed_pseudogene	KNOWN	None	31336	None	None	30371736	30372369	-1	None	AB014085.4
GL000228.1	None	ENSG00000256521	ENST00000543836	pseudogene	NOVEL	None	None	None	None	82545	84167	1	None	None
HSCHR6_MHC_MANN	UBQLN1P1	ENSG00000231659	ENST00000425710	processed_pseudogene	KNOWN	None	21633	None	None	30375568	30376736	-1	UBQLN1P	None
13	RPL37P21	ENSG00000236433	ENST00000435890	processed_pseudogene	KNOWN	None	36256	None	None	68905470	68905745	-1	None	None
GL000228.1	None	ENSG00000255638	ENST00000227666	pseudogene	NOVEL	None	None	None	None	85851	87473	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000257295	ENST00000547366	pseudogene	NOVEL	None	None	None	None	30376935	30377058	1	None	None
13	RPS3AP52	ENSG00000230405	ENST00000435639	processed_pseudogene	KNOWN	None	42004	None	None	69208322	69208618	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000258032	ENST00000549012	pseudogene	NOVEL	None	None	None	None	30380635	30380743	-1	None	None
13	TEX26	ENSG00000175664	ENST00000479195	processed_transcript	PUTATIVE	None	28622	None	None	31506840	31507327	1	C13orf26	MGC40178
13	TEX26	ENSG00000175664	ENST00000380473	protein_coding	KNOWN	CCDS9339	28622	870	289	31506840	31549639	1	C13orf26	MGC40178
13	TEX26	ENSG00000175664	ENST00000531960	nonsense_mediated_decay	KNOWN	None	28622	186	61	31506862	31549153	1	C13orf26	MGC40178
13	TEX26	ENSG00000175664	ENST00000530916	processed_transcript	PUTATIVE	None	28622	None	None	31531095	31549637	1	C13orf26	MGC40178
HSCHR6_MHC_MANN	None	ENSG00000257819	ENST00000552181	pseudogene	NOVEL	None	None	None	None	30394980	30395064	-1	None	None
13	RPL12P34	ENSG00000229824	ENST00000424532	processed_pseudogene	KNOWN	None	36168	None	None	69228704	69229182	1	None	None
GL000228.1	None	ENSG00000256252	ENST00000422561	pseudogene	NOVEL	None	None	None	None	89157	90779	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000258124	ENST00000547129	pseudogene	NOVEL	None	None	None	None	30404947	30405034	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000257934	ENST00000547438	pseudogene	NOVEL	None	None	None	None	30405462	30405549	-1	None	None
22	CPT1B	ENSG00000205560	ENST00000405237	protein_coding	KNOWN	CCDS14098	2329	2319	772	51007290	51016449	-1	None	M-CPT1, CPT1-M
22	CPT1B	ENSG00000205560	ENST00000312108	protein_coding	KNOWN	CCDS14098	2329	2319	772	51007291	51016846	-1	None	M-CPT1, CPT1-M
22	CPT1B	ENSG00000205560	ENST00000395650	protein_coding	KNOWN	CCDS14098	2329	2319	772	51007513	51016884	-1	None	M-CPT1, CPT1-M
22	CPT1B	ENSG00000205560	ENST00000497224	retained_intron	KNOWN	None	2329	None	None	51008777	51010726	-1	None	M-CPT1, CPT1-M
22	CPT1B	ENSG00000205560	ENST00000475238	retained_intron	KNOWN	None	2329	None	None	51010312	51011529	-1	None	M-CPT1, CPT1-M
22	CPT1B	ENSG00000205560	ENST00000423069	nonsense_mediated_decay	KNOWN	None	2329	279	92	51011304	51014493	-1	None	M-CPT1, CPT1-M
22	CPT1B	ENSG00000205560	ENST00000479886	retained_intron	KNOWN	None	2329	None	None	51012794	51013411	-1	None	M-CPT1, CPT1-M
22	CPT1B	ENSG00000205560	ENST00000476790	retained_intron	KNOWN	None	2329	None	None	51014485	51015332	-1	None	M-CPT1, CPT1-M
22	CPT1B	ENSG00000205560	ENST00000460853	retained_intron	KNOWN	None	2329	None	None	51015055	51016894	-1	None	M-CPT1, CPT1-M
22	CPT1B	ENSG00000205560	ENST00000461117	retained_intron	KNOWN	None	2329	None	None	51015136	51016297	-1	None	M-CPT1, CPT1-M
22	CPT1B	ENSG00000205560	ENST00000417176	protein_coding	KNOWN	None	2329	376	124	51015369	51016675	-1	None	M-CPT1, CPT1-M
22	CPT1B	ENSG00000205560	ENST00000360719	protein_coding	KNOWN	CCDS14098	2329	2319	772	51007291	51017096	-1	None	M-CPT1, CPT1-M
22	CPT1B	ENSG00000205560	ENST00000457250	protein_coding	KNOWN	CCDS46734	2329	2217	738	51007291	51017096	-1	None	M-CPT1, CPT1-M
22	CPT1B	ENSG00000205560	ENST00000440709	protein_coding	KNOWN	CCDS46735	2329	2076	691	51007291	51017096	-1	None	M-CPT1, CPT1-M
22	CPT1B	ENSG00000205560	ENST00000434492	protein_coding	KNOWN	None	2329	1704	567	51007424	51017899	-1	None	M-CPT1, CPT1-M
HSCHR6_MHC_MANN	MICC	ENSG00000229187	ENST00000458181	unprocessed_pseudogene	KNOWN	None	7092	None	None	30427175	30431779	1	None	PERB11.3
20	COX4I2	ENSG00000131055	ENST00000376075	protein_coding	KNOWN	CCDS13187	16232	516	171	30225691	30232809	1	COX4L2	COXIV-2, COX4B, dJ857M17.2, COX4-2
20	COX4I2	ENSG00000131055	ENST00000490030	processed_transcript	KNOWN	None	16232	None	None	30225736	30232631	1	COX4L2	COXIV-2, COX4B, dJ857M17.2, COX4-2
HSCHR6_MHC_DBB	WASF5P	ENSG00000229103	ENST00000441826	processed_pseudogene	KNOWN	None	21665	None	None	31247438	31248892	-1	None	Em:D84394.5
HSCHR6_MHC_MANN	None	ENSG00000258219	ENST00000553180	pseudogene	NOVEL	None	None	None	None	30469421	30469544	1	None	None
HSCHR6_MHC_MANN	TMPOP1	ENSG00000233700	ENST00000457971	processed_pseudogene	KNOWN	None	21364	None	None	30478910	30480452	1	TMPOL1	Em:AB014080.3
13	RN7SL761P	ENSG00000243671	ENST00000463259	misc_RNA	KNOWN	None	46777	None	None	69267938	69268213	-1	None	None
HSCHR6_MHC_DBB	None	ENSG00000258020	ENST00000551385	pseudogene	NOVEL	None	None	None	None	31266959	31267173	-1	None	None
21	EXOSC3P1	ENSG00000229007	ENST00000448649	processed_pseudogene	KNOWN	None	33989	None	None	33869122	33869621	1	None	None
HSCHR21_3_CTG1_1	C21orf49	ENSG00000263140	ENST00000575401	protein_coding	KNOWN	None	1290	240	79	34144411	34171279	1	None	None
HSCHR21_3_CTG1_1	C21orf49	ENSG00000263140	ENST00000571181	processed_transcript	KNOWN	None	1290	None	None	34144436	34170017	1	None	None
HSCHR21_3_CTG1_1	C21orf49	ENSG00000263140	ENST00000572066	nonsense_mediated_decay	KNOWN	None	1290	96	31	34144461	34271837	1	None	None
HSCHR21_3_CTG1_1	C21orf49	ENSG00000263140	ENST00000574347	protein_coding	PUTATIVE	None	1290	75	24	34144472	34230573	1	None	None
HSCHR21_3_CTG1_1	C21orf49	ENSG00000263140	ENST00000575623	protein_coding	KNOWN	None	1290	240	79	34144473	34169478	1	None	None
HSCHR21_3_CTG1_1	C21orf49	ENSG00000263140	ENST00000573397	processed_transcript	KNOWN	None	1290	None	None	34144485	34169756	1	None	None
HSCHR21_3_CTG1_1	C21orf49	ENSG00000263140	ENST00000571434	protein_coding	NOVEL	None	1290	150	49	34144499	34169404	1	None	None
13	ZDHHC20P4	ENSG00000232380	ENST00000411421	processed_pseudogene	KNOWN	None	39776	None	None	69559190	69560196	1	None	None
15	MYZAP	ENSG00000263155	ENST00000267853	protein_coding	KNOWN	CCDS10162	43444	1401	466	57884139	57977562	1	None	MYOZAP, Gup, Gup1, GCOM1
15	MYZAP	ENSG00000263155	ENST00000380565	protein_coding	KNOWN	CCDS42044	43444	1317	438	57884231	57977558	1	None	MYOZAP, Gup, Gup1, GCOM1
15	MYZAP	ENSG00000263155	ENST00000569089	protein_coding	PUTATIVE	None	43444	397	131	57891609	57918007	1	None	MYOZAP, Gup, Gup1, GCOM1
15	MYZAP	ENSG00000263155	ENST00000461709	protein_coding	NOVEL	None	43444	369	122	57925862	57976989	1	None	MYOZAP, Gup, Gup1, GCOM1
HSCHR6_MHC_DBB	None	ENSG00000231710	ENST00000421079	unprocessed_pseudogene	KNOWN	None	None	None	None	31267737	31268471	-1	None	None
21	None	ENSG00000252045	ENST00000516236	snoRNA	NOVEL	None	None	None	None	33910609	33910744	1	None	None
HSCHR6_MHC_COX	DHX16	ENSG00000233561	ENST00000449861	protein_coding	KNOWN	None	2739	1683	560	30610735	30619629	-1	DDX16	DBP2, Prp2, PRPF2
HSCHR6_MHC_COX	DHX16	ENSG00000233561	ENST00000417308	protein_coding	KNOWN	None	2739	3126	1041	30610735	30630683	-1	DDX16	DBP2, Prp2, PRPF2
HSCHR6_MHC_COX	DHX16	ENSG00000233561	ENST00000492529	processed_transcript	KNOWN	None	2739	None	None	30617119	30618223	-1	DDX16	DBP2, Prp2, PRPF2
HSCHR6_MHC_COX	DHX16	ENSG00000233561	ENST00000427297	protein_coding	KNOWN	None	2739	886	294	30622776	30630634	-1	DDX16	DBP2, Prp2, PRPF2
21	RNA5SP490	ENSG00000252950	ENST00000517141	rRNA	KNOWN	None	43390	None	None	33935385	33935520	1	RN5S490	None
13	SNRPFP3	ENSG00000225501	ENST00000457792	processed_pseudogene	KNOWN	None	39666	None	None	69675964	69676188	-1	None	None
21	LINC00846	ENSG00000186842	ENST00000334165	lincRNA	KNOWN	None	16080	None	None	33944548	33948191	-1	C21orf77	FLJ10932
13	None	ENSG00000237534	ENST00000433664	lincRNA	KNOWN	None	None	None	None	69796478	69866286	1	None	None
21	OR7E23P	ENSG00000228433	ENST00000435600	processed_pseudogene	KNOWN	None	8395	None	None	33993359	33994406	1	OR7E92P	OR21-3
13	None	ENSG00000235221	ENST00000431686	lincRNA	KNOWN	None	None	None	None	69885465	69896233	1	None	None
HG7_PATCH	None	ENSG00000261791	ENST00000564429	protein_coding	PUTATIVE	None	None	1449	482	141811549	141843783	1	None	None
HG7_PATCH	None	ENSG00000261791	ENST00000570144	protein_coding	PUTATIVE	None	None	6777	2258	141811549	141921088	1	None	None
HG7_PATCH	None	ENSG00000261791	ENST00000565933	retained_intron	KNOWN	None	None	None	None	141870970	141921088	1	None	None
GL000228.1	None	ENSG00000256024	ENST00000417395	pseudogene	NOVEL	None	None	None	None	92463	94085	1	None	None
13	SRSF1P1	ENSG00000224640	ENST00000424058	processed_pseudogene	KNOWN	None	39417	None	None	69982348	69982867	-1	None	None
GL000228.1	None	ENSG00000256868	ENST00000422870	pseudogene	NOVEL	None	None	None	None	95769	97391	1	None	None
GL000228.1	None	ENSG00000256619	ENST00000437360	pseudogene	NOVEL	None	None	None	None	99075	100697	1	None	None
18	None	ENSG00000267215	ENST00000591900	lincRNA	KNOWN	None	None	None	None	56749156	56751729	1	None	None
18	None	ENSG00000267215	ENST00000589729	lincRNA	KNOWN	None	None	None	None	56750987	56752213	1	None	None
18	None	ENSG00000267677	ENST00000591331	lincRNA	KNOWN	None	None	None	None	57027932	57053981	1	None	None
18	None	ENSG00000267000	ENST00000589242	antisense	KNOWN	None	None	None	None	57126304	57132914	1	None	None
18	None	ENSG00000267061	ENST00000586841	antisense	KNOWN	None	None	None	None	57230941	57235847	1	None	None
18	None	ENSG00000267269	ENST00000588298	antisense	KNOWN	None	None	None	None	57353052	57355632	1	None	None
HSCHR9_3_CTG35	None	ENSG00000263283	ENST00000573378	processed_pseudogene	KNOWN	None	None	None	None	90802650	90805117	-1	None	None
18	None	ENSG00000267774	ENST00000588946	antisense	KNOWN	None	None	None	None	57363691	57364644	1	None	None
18	None	ENSG00000221471	ENST00000408544	miRNA	NOVEL	None	None	None	None	57416909	57416989	1	None	None
HG1308_PATCH	None	ENSG00000263619	ENST00000584325	processed_transcript	KNOWN	None	None	None	None	130517374	130592303	1	None	None
HSCHR21_3_CTG1_1	C21orf62	ENSG00000262938	ENST00000576372	protein_coding	KNOWN	None	1305	660	219	34165875	34186038	-1	C21orf120	B37, PRED81
HSCHR21_3_CTG1_1	C21orf62	ENSG00000262938	ENST00000576061	protein_coding	KNOWN	None	1305	660	219	34165876	34185974	-1	C21orf120	B37, PRED81
HSCHR21_3_CTG1_1	C21orf62	ENSG00000262938	ENST00000573131	protein_coding	PUTATIVE	None	1305	801	266	34165996	34185984	-1	C21orf120	B37, PRED81
HSCHR21_3_CTG1_1	C21orf62	ENSG00000262938	ENST00000571812	protein_coding	KNOWN	None	1305	660	219	34166032	34185929	-1	C21orf120	B37, PRED81
21	CLIC6	ENSG00000159212	ENST00000360731	protein_coding	KNOWN	None	2065	2115	704	36041688	36090525	1	CLIC1L	CLIC5
21	CLIC6	ENSG00000159212	ENST00000349499	protein_coding	KNOWN	CCDS13638	2065	2061	686	36041688	36090525	1	CLIC1L	CLIC5
18	RPS26P54	ENSG00000224161	ENST00000473094	processed_pseudogene	KNOWN	None	36868	None	None	57428790	57429137	1	None	None
18	GLUD1P4	ENSG00000267486	ENST00000590914	processed_pseudogene	KNOWN	None	4339	None	None	57445804	57446221	1	GLUDP4	None
18	None	ENSG00000267669	ENST00000588088	processed_transcript	PUTATIVE	None	None	None	None	57488272	57491693	1	None	None
18	None	ENSG00000267669	ENST00000592549	transcribed_processed_pseudogene	KNOWN	None	None	None	None	57491257	57492493	1	None	None
HSCHR4_1	None	ENSG00000257578	ENST00000552086	pseudogene	NOVEL	None	None	None	None	69242120	69242246	1	None	None
18	None	ENSG00000267066	ENST00000590415	processed_pseudogene	KNOWN	None	None	None	None	57596458	57597562	1	None	None
22	SMTN	ENSG00000183963	ENST00000432777	protein_coding	PUTATIVE	None	11126	274	90	31460091	31484011	1	None	None
22	SMTN	ENSG00000183963	ENST00000422839	protein_coding	KNOWN	None	11126	111	36	31460104	31484010	1	None	None
22	SMTN	ENSG00000183963	ENST00000426927	protein_coding	PUTATIVE	None	11126	424	140	31477304	31484560	1	None	None
22	SMTN	ENSG00000183963	ENST00000482444	processed_transcript	KNOWN	None	11126	None	None	31477304	31484577	1	None	None
22	SMTN	ENSG00000183963	ENST00000440425	protein_coding	PUTATIVE	None	11126	455	150	31477304	31484591	1	None	None
22	SMTN	ENSG00000183963	ENST00000475548	processed_transcript	KNOWN	None	11126	None	None	31477304	31484710	1	None	None
22	SMTN	ENSG00000183963	ENST00000497697	retained_intron	KNOWN	None	11126	None	None	31477305	31484239	1	None	None
22	SMTN	ENSG00000183963	ENST00000358743	protein_coding	NOVEL	CCDS13887	11126	2823	940	31477305	31500609	1	None	None
22	SMTN	ENSG00000183963	ENST00000347557	protein_coding	KNOWN	CCDS13886	11126	2754	917	31477305	31500610	1	None	None
22	SMTN	ENSG00000183963	ENST00000333137	protein_coding	KNOWN	CCDS13888	11126	2748	915	31477305	31500610	1	None	None
22	SMTN	ENSG00000183963	ENST00000489337	retained_intron	KNOWN	None	11126	None	None	31477306	31500609	1	None	None
22	SMTN	ENSG00000183963	ENST00000438223	protein_coding	PUTATIVE	None	11126	545	180	31478471	31484866	1	None	None
22	SMTN	ENSG00000183963	ENST00000416786	protein_coding	PUTATIVE	None	11126	294	97	31481080	31485771	1	None	None
22	SMTN	ENSG00000183963	ENST00000431481	protein_coding	PUTATIVE	None	11126	474	157	31483864	31485711	1	None	None
22	SMTN	ENSG00000183963	ENST00000460658	retained_intron	KNOWN	None	11126	None	None	31484088	31497769	1	None	None
22	SMTN	ENSG00000183963	ENST00000466272	retained_intron	KNOWN	None	11126	None	None	31485642	31487013	1	None	None
22	SMTN	ENSG00000183963	ENST00000455608	protein_coding	PUTATIVE	None	11126	648	215	31488454	31495159	1	None	None
22	SMTN	ENSG00000183963	ENST00000404574	protein_coding	PUTATIVE	None	11126	1317	438	31489344	31500609	1	None	None
22	SMTN	ENSG00000183963	ENST00000493335	retained_intron	KNOWN	None	11126	None	None	31489354	31500609	1	None	None
22	SMTN	ENSG00000183963	ENST00000472911	retained_intron	KNOWN	None	11126	None	None	31495648	31500609	1	None	None
GL000228.1	None	ENSG00000255707	ENST00000436064	pseudogene	NOVEL	None	None	None	None	102381	104003	1	None	None
18	NFE2L3P1	ENSG00000267497	ENST00000588207	processed_pseudogene	KNOWN	None	22278	None	None	57636670	57638628	1	None	None
20	BCL2L1	ENSG00000171552	ENST00000376062	protein_coding	KNOWN	CCDS13189	992	702	233	30252255	30310400	-1	None	BCLX, BCL2L, Bcl-X, bcl-xL, bcl-xS, PPP1R52
20	BCL2L1	ENSG00000171552	ENST00000376055	protein_coding	KNOWN	CCDS13188	992	513	170	30252255	30310663	-1	None	BCLX, BCL2L, Bcl-X, bcl-xL, bcl-xS, PPP1R52
20	BCL2L1	ENSG00000171552	ENST00000307677	protein_coding	KNOWN	CCDS13189	992	702	233	30252255	30310701	-1	None	BCLX, BCL2L, Bcl-X, bcl-xL, bcl-xS, PPP1R52
20	BCL2L1	ENSG00000171552	ENST00000450273	protein_coding	KNOWN	None	992	616	204	30253838	30311703	-1	None	BCLX, BCL2L, Bcl-X, bcl-xL, bcl-xS, PPP1R52
20	BCL2L1	ENSG00000171552	ENST00000422920	protein_coding	KNOWN	None	992	564	187	30309458	30310901	-1	None	BCLX, BCL2L, Bcl-X, bcl-xL, bcl-xS, PPP1R52
20	BCL2L1	ENSG00000171552	ENST00000456404	protein_coding	KNOWN	None	992	564	187	30309458	30311757	-1	None	BCLX, BCL2L, Bcl-X, bcl-xL, bcl-xS, PPP1R52
20	BCL2L1	ENSG00000171552	ENST00000420488	protein_coding	KNOWN	None	992	564	187	30309458	30311792	-1	None	BCLX, BCL2L, Bcl-X, bcl-xL, bcl-xS, PPP1R52
20	BCL2L1	ENSG00000171552	ENST00000439267	protein_coding	KNOWN	None	992	543	180	30309479	30311792	-1	None	BCLX, BCL2L, Bcl-X, bcl-xL, bcl-xS, PPP1R52
20	BCL2L1	ENSG00000171552	ENST00000434194	protein_coding	KNOWN	None	992	146	47	30309876	30310351	-1	None	BCLX, BCL2L, Bcl-X, bcl-xL, bcl-xS, PPP1R52
20	BCL2L1	ENSG00000171552	ENST00000420653	protein_coding	KNOWN	CCDS13189	992	702	233	30252263	30310705	-1	None	BCLX, BCL2L, Bcl-X, bcl-xL, bcl-xS, PPP1R52
18	RN7SL342P	ENSG00000239398	ENST00000479616	misc_RNA	KNOWN	None	46358	None	None	57640146	57640437	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000263833	ENST00000581780	misc_RNA	NOVEL	None	None	None	None	31446485	31446586	-1	None	None
18	SDCCAG3P1	ENSG00000256704	ENST00000589292	processed_pseudogene	KNOWN	None	29375	None	None	57677226	57678375	-1	SDCCAG3L	None
18	SDCCAG3P1	ENSG00000256704	ENST00000412063	processed_pseudogene	KNOWN	None	29375	None	None	57677224	57678291	-1	SDCCAG3L	None
HSCHR6_MHC_DBB	PPIAP9	ENSG00000231118	ENST00000447554	processed_pseudogene	KNOWN	None	9272	None	None	31469457	31470268	-1	PPIP9	Em:AC006046.3
HG1308_PATCH	None	ENSG00000265410	ENST00000579235	lincRNA	KNOWN	None	None	None	None	130544646	130576964	-1	None	None
HG1308_PATCH	None	ENSG00000265410	ENST00000580851	lincRNA	KNOWN	None	None	None	None	130545416	130576830	-1	None	None
HG1308_PATCH	None	ENSG00000265410	ENST00000577311	retained_intron	KNOWN	None	None	None	None	130547763	130576851	-1	None	None
18	None	ENSG00000267462	ENST00000585691	lincRNA	KNOWN	None	None	None	None	57677513	57681490	1	None	None
HSCHR6_MHC_DBB	RPL15P4	ENSG00000229535	ENST00000456043	processed_pseudogene	KNOWN	None	21663	None	None	31478075	31478654	1	None	Em:AC006046.2
18	FAM60CP	ENSG00000267742	ENST00000591086	processed_pseudogene	KNOWN	None	31737	None	None	57684010	57684673	-1	None	None
18	RNU6-567P	ENSG00000252555	ENST00000516746	snRNA	KNOWN	None	47530	None	None	57685857	57685963	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000266419	ENST00000581427	snoRNA	KNOWN	None	None	None	None	31486334	31486409	-1	None	None
HG414_PATCH	B3GNT6	ENSG00000262264	ENST00000586959	protein_coding	KNOWN	None	24141	364	120	76745442	76750959	1	None	B3Gn-T6
HG414_PATCH	B3GNT6	ENSG00000262264	ENST00000576779	protein_coding	KNOWN	None	24141	1155	384	76745442	76753017	1	None	B3Gn-T6
HG325_PATCH	None	ENSG00000261891	ENST00000572878	antisense	KNOWN	None	None	None	None	50304073	50304803	-1	None	None
18	None	ENSG00000267686	ENST00000588794	processed_transcript	PUTATIVE	None	None	None	None	57792265	57828428	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000264591	ENST00000579171	snoRNA	KNOWN	None	None	None	None	31491059	31491136	-1	None	None
18	RPS3AP49	ENSG00000242060	ENST00000472161	processed_pseudogene	KNOWN	None	36810	None	None	57816808	57817597	1	None	None
18	RNU4-17P	ENSG00000202468	ENST00000365598	snRNA	KNOWN	None	46953	None	None	57830800	57830940	1	None	None
18	None	ENSG00000267620	ENST00000585803	processed_pseudogene	KNOWN	None	None	None	None	57863788	57865405	1	None	None
GL000228.1	None	ENSG00000256840	ENST00000457877	pseudogene	NOVEL	None	None	None	None	105687	107309	1	None	None
18	None	ENSG00000267401	ENST00000592121	processed_transcript	PUTATIVE	None	None	None	None	57961384	57968351	1	None	None
18	None	ENSG00000267400	ENST00000588017	processed_pseudogene	KNOWN	None	None	None	None	58163101	58163569	-1	None	None
GL000228.1	None	ENSG00000256456	ENST00000455167	pseudogene	NOVEL	None	None	None	None	108993	110615	1	None	None
18	MRPS5P4	ENSG00000266915	ENST00000592830	processed_pseudogene	KNOWN	None	29779	None	None	58187074	58187398	1	None	None
18	None	ENSG00000267687	ENST00000587712	processed_pseudogene	KNOWN	None	None	None	None	58192849	58193389	-1	None	None
18	None	ENSG00000253011	ENST00000517202	miRNA	NOVEL	None	None	None	None	58222376	58222457	1	None	None
13	RNY3P10	ENSG00000207495	ENST00000384764	misc_RNA	KNOWN	None	42494	None	None	70377072	70377173	1	None	None
13	PSMC1P13	ENSG00000232314	ENST00000458195	processed_pseudogene	KNOWN	None	39788	None	None	70468233	70469217	-1	None	None
18	None	ENSG00000267382	ENST00000592477	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	58279006	58313322	1	None	None
18	None	ENSG00000267382	ENST00000589354	processed_transcript	KNOWN	None	None	None	None	58307652	58321856	1	None	None
13	ATXN8OS	ENSG00000230223	ENST00000414504	antisense	KNOWN	None	10561	None	None	70681345	70713561	1	SCA8, KLHL1AS	NCRNA00003
13	ATXN8OS	ENSG00000230223	ENST00000424524	antisense	KNOWN	None	10561	None	None	70682044	70705678	1	SCA8, KLHL1AS	NCRNA00003
13	RNU6-54P	ENSG00000202433	ENST00000365563	snRNA	KNOWN	None	42544	None	None	71033596	71033702	1	RNU6-54	None
18	KIAA1328	ENSG00000150477	ENST00000592611	nonsense_mediated_decay	KNOWN	None	29248	246	81	34409069	34811481	1	None	None
18	KIAA1328	ENSG00000150477	ENST00000280020	protein_coding	KNOWN	CCDS45855	29248	1734	577	34409080	34805287	1	None	None
18	KIAA1328	ENSG00000150477	ENST00000592521	protein_coding	NOVEL	None	29248	492	163	34409092	34466367	1	None	None
18	KIAA1328	ENSG00000150477	ENST00000590617	nonsense_mediated_decay	KNOWN	None	29248	246	81	34409094	34802270	1	None	None
18	KIAA1328	ENSG00000150477	ENST00000587139	protein_coding	PUTATIVE	None	29248	1805	600	34409203	34803641	1	None	None
18	KIAA1328	ENSG00000150477	ENST00000591619	protein_coding	KNOWN	None	29248	1722	573	34412637	34809848	1	None	None
18	KIAA1328	ENSG00000150477	ENST00000591911	protein_coding	KNOWN	None	29248	36	11	34503868	34647164	1	None	None
18	KIAA1328	ENSG00000150477	ENST00000590456	processed_transcript	KNOWN	None	29248	None	None	34503874	34535815	1	None	None
18	KIAA1328	ENSG00000150477	ENST00000586135	protein_coding	KNOWN	None	29248	840	279	34503903	34802265	1	None	None
18	KIAA1328	ENSG00000150477	ENST00000586501	protein_coding	KNOWN	None	29248	390	129	34646829	34655611	1	None	None
18	KIAA1328	ENSG00000150477	ENST00000599493	processed_transcript	KNOWN	None	29248	None	None	34647303	34664388	1	None	None
18	KIAA1328	ENSG00000150477	ENST00000601437	processed_transcript	KNOWN	None	29248	None	None	34809542	34812135	1	None	None
18	KIAA1328	ENSG00000150477	ENST00000543923	protein_coding	KNOWN	None	29248	1353	450	34409069	34811481	1	None	None
18	KIAA1328	ENSG00000150477	ENST00000435985	protein_coding	KNOWN	None	29248	840	279	34409080	34773614	1	None	None
18	None	ENSG00000267098	ENST00000591869	lincRNA	KNOWN	None	None	None	None	58297400	58569959	-1	None	None
13	SOGA2P1	ENSG00000226554	ENST00000446207	processed_pseudogene	KNOWN	None	42040	None	None	71497796	71498587	1	CCDC165P1	None
HG75_PATCH	MRM1	ENSG00000262595	ENST00000574604	protein_coding	KNOWN	None	26202	1062	353	34929530	34936936	1	None	FLJ22578
HG75_PATCH	MRM1	ENSG00000262595	ENST00000581301	protein_coding	NOVEL	None	26202	438	145	34929625	34930248	1	None	FLJ22578
HG75_PATCH	MRM1	ENSG00000262595	ENST00000579429	nonsense_mediated_decay	KNOWN	None	26202	287	94	34929920	34936929	1	None	FLJ22578
13	LINC00348	ENSG00000226846	ENST00000428761	lincRNA	KNOWN	None	42658	None	None	71589273	71742549	1	None	None
18	CTBP2P3	ENSG00000267153	ENST00000585629	processed_pseudogene	KNOWN	None	45195	None	None	58330348	58331602	1	None	None
13	RABEPKP1	ENSG00000225801	ENST00000440529	processed_pseudogene	KNOWN	None	39791	None	None	71870342	71871367	1	None	None
18	None	ENSG00000267513	ENST00000590085	processed_pseudogene	KNOWN	None	None	None	None	58461846	58462149	-1	None	None
18	None	ENSG00000267513	ENST00000600163	processed_pseudogene	KNOWN	None	None	None	None	58461841	58462149	-1	None	None
13	H3F3BP1	ENSG00000236534	ENST00000440551	processed_pseudogene	KNOWN	None	42030	None	None	72249199	72249601	1	None	None
18	RNU6-116P	ENSG00000206769	ENST00000384042	snRNA	KNOWN	None	47079	None	None	59058828	59058936	1	None	None
18	RPL30P14	ENSG00000243256	ENST00000482744	processed_pseudogene	KNOWN	None	36257	None	None	59072091	59072438	-1	None	None
HG1308_PATCH	None	ENSG00000270932	ENST00000603756	lincRNA	KNOWN	None	None	None	None	130593863	130595860	-1	None	None
18	None	ENSG00000267316	ENST00000587138	lincRNA	KNOWN	None	None	None	None	59238575	59244384	-1	None	None
18	None	ENSG00000267316	ENST00000585706	lincRNA	KNOWN	None	None	None	None	59238581	59246689	-1	None	None
HSCHR6_MHC_SSTO	PRRT1	ENSG00000235956	ENST00000475758	processed_transcript	KNOWN	None	13943	None	None	32123003	32124501	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_SSTO	PRRT1	ENSG00000235956	ENST00000479455	retained_intron	KNOWN	None	13943	None	None	32123003	32126567	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_SSTO	PRRT1	ENSG00000235956	ENST00000459890	processed_transcript	KNOWN	None	13943	None	None	32123003	32126581	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_SSTO	PRRT1	ENSG00000235956	ENST00000414687	protein_coding	KNOWN	None	13943	921	306	32123003	32126596	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_SSTO	PRRT1	ENSG00000235956	ENST00000452030	protein_coding	KNOWN	None	13943	678	225	32123003	32127727	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_SSTO	PRRT1	ENSG00000235956	ENST00000457819	protein_coding	KNOWN	None	13943	188	61	32125139	32129017	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_SSTO	PRRT1	ENSG00000235956	ENST00000490407	processed_transcript	KNOWN	None	13943	None	None	32126625	32128604	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_SSTO	PRRT1	ENSG00000235956	ENST00000461462	processed_transcript	KNOWN	None	13943	None	None	32127446	32128552	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_SSTO	PRRT1	ENSG00000235956	ENST00000485360	processed_transcript	KNOWN	None	13943	None	None	32127446	32128977	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_SSTO	PRRT1	ENSG00000235956	ENST00000482409	processed_transcript	KNOWN	None	13943	None	None	32127446	32129009	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_SSTO	PRRT1	ENSG00000235956	ENST00000462634	processed_transcript	KNOWN	None	13943	None	None	32127984	32128983	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_SSTO	PRRT1	ENSG00000235956	ENST00000464533	processed_transcript	PUTATIVE	None	13943	None	None	32128029	32128970	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_SSTO	PRRT1	ENSG00000235956	ENST00000547412	protein_coding	KNOWN	None	13943	678	225	32123008	32126746	-1	C6orf31	NG5, IFITMD7
18	None	ENSG00000267279	ENST00000587754	lincRNA	KNOWN	None	None	None	None	59252979	59273890	-1	None	None
18	None	ENSG00000267279	ENST00000586949	lincRNA	KNOWN	None	None	None	None	59273301	59274149	-1	None	None
22	C22orf42	ENSG00000205856	ENST00000382097	protein_coding	KNOWN	CCDS33639	27160	756	251	32544993	32555275	-1	None	None
22	C22orf42	ENSG00000205856	ENST00000467813	retained_intron	KNOWN	None	27160	None	None	32544993	32555309	-1	None	None
22	C22orf42	ENSG00000205856	ENST00000490640	processed_transcript	KNOWN	None	27160	None	None	32545167	32545913	-1	None	None
21	SCAF4	ENSG00000156304	ENST00000286835	protein_coding	KNOWN	CCDS33537	19304	3444	1147	33043346	33104388	-1	SFRS15	KIAA1172, DKFZp434E098, SRA4
21	SCAF4	ENSG00000156304	ENST00000399804	protein_coding	KNOWN	CCDS46644	19304	3378	1125	33043346	33104388	-1	SFRS15	KIAA1172, DKFZp434E098, SRA4
21	SCAF4	ENSG00000156304	ENST00000434667	protein_coding	KNOWN	CCDS54482	19304	3399	1132	33043541	33104281	-1	SFRS15	KIAA1172, DKFZp434E098, SRA4
21	SCAF4	ENSG00000156304	ENST00000467731	retained_intron	KNOWN	None	19304	None	None	33056308	33074136	-1	SFRS15	KIAA1172, DKFZp434E098, SRA4
21	SCAF4	ENSG00000156304	ENST00000472318	retained_intron	KNOWN	None	19304	None	None	33063134	33065643	-1	SFRS15	KIAA1172, DKFZp434E098, SRA4
21	SCAF4	ENSG00000156304	ENST00000485790	retained_intron	KNOWN	None	19304	None	None	33073072	33104274	-1	SFRS15	KIAA1172, DKFZp434E098, SRA4
18	None	ENSG00000267175	ENST00000590199	lincRNA	KNOWN	None	None	None	None	59259608	59415987	-1	None	None
18	None	ENSG00000267175	ENST00000590968	lincRNA	KNOWN	None	None	None	None	59259608	59416065	-1	None	None
18	None	ENSG00000267175	ENST00000590357	lincRNA	KNOWN	None	None	None	None	59278870	59295305	-1	None	None
X	KAL1	ENSG00000011201	ENST00000262648	protein_coding	KNOWN	CCDS14130	6211	2043	680	8496915	8700227	-1	KAL, ADMLX	KALIG-1, WFDC19
X	KAL1	ENSG00000011201	ENST00000481896	processed_transcript	KNOWN	None	6211	None	None	8503222	8504977	-1	KAL, ADMLX	KALIG-1, WFDC19
X	KAL1	ENSG00000011201	ENST00000488294	processed_transcript	KNOWN	None	6211	None	None	8533847	8538691	-1	KAL, ADMLX	KALIG-1, WFDC19
18	None	ENSG00000267038	ENST00000588245	lincRNA	KNOWN	None	None	None	None	59348886	59349928	1	None	None
14	ACTN1	ENSG00000072110	ENST00000193403	protein_coding	KNOWN	CCDS9792	163	2679	892	69340860	69446157	-1	None	None
14	ACTN1	ENSG00000072110	ENST00000556083	retained_intron	KNOWN	None	163	None	None	69341035	69354980	-1	None	None
14	ACTN1	ENSG00000072110	ENST00000553882	retained_intron	KNOWN	None	163	None	None	69341040	69345739	-1	None	None
14	ACTN1	ENSG00000072110	ENST00000394419	protein_coding	KNOWN	CCDS45130	163	2745	914	69341040	69445956	-1	None	None
14	ACTN1	ENSG00000072110	ENST00000438964	protein_coding	KNOWN	CCDS45129	163	2664	887	69341403	69445979	-1	None	None
14	ACTN1	ENSG00000072110	ENST00000376839	protein_coding	PUTATIVE	None	163	2469	822	69341500	69444283	-1	None	None
14	ACTN1	ENSG00000072110	ENST00000555075	protein_coding	PUTATIVE	None	163	755	250	69341503	69349284	-1	None	None
14	ACTN1	ENSG00000072110	ENST00000538545	protein_coding	NOVEL	None	163	2793	930	69341576	69445793	-1	None	None
14	ACTN1	ENSG00000072110	ENST00000544964	protein_coding	PUTATIVE	None	163	891	296	69345763	69356859	-1	None	None
14	ACTN1	ENSG00000072110	ENST00000553290	protein_coding	PUTATIVE	None	163	619	205	69345766	69351020	-1	None	None
14	ACTN1	ENSG00000072110	ENST00000556432	retained_intron	KNOWN	None	163	None	None	69346581	69347839	-1	None	None
14	ACTN1	ENSG00000072110	ENST00000556343	processed_transcript	PUTATIVE	None	163	None	None	69349982	69351012	-1	None	None
14	ACTN1	ENSG00000072110	ENST00000555616	protein_coding	PUTATIVE	None	163	716	237	69358945	69445006	-1	None	None
14	ACTN1	ENSG00000072110	ENST00000556433	protein_coding	PUTATIVE	None	163	782	259	69360382	69445452	-1	None	None
14	ACTN1	ENSG00000072110	ENST00000554508	processed_transcript	KNOWN	None	163	None	None	69360420	69387755	-1	None	None
14	ACTN1	ENSG00000072110	ENST00000554158	processed_transcript	KNOWN	None	163	None	None	69369260	69388076	-1	None	None
14	ACTN1	ENSG00000072110	ENST00000553370	protein_coding	PUTATIVE	None	163	434	143	69371419	69444371	-1	None	None
14	ACTN1	ENSG00000072110	ENST00000553779	protein_coding	PUTATIVE	None	163	255	84	69376737	69414265	-1	None	None
14	ACTN1	ENSG00000072110	ENST00000556571	protein_coding	PUTATIVE	None	163	379	125	69376739	69444957	-1	None	None
14	ACTN1	ENSG00000072110	ENST00000553659	protein_coding	PUTATIVE	None	163	216	71	69392276	69444986	-1	None	None
14	ACTN1	ENSG00000072110	ENST00000556203	processed_transcript	PUTATIVE	None	163	None	None	69440498	69445748	-1	None	None
13	RPL21P109	ENSG00000237816	ENST00000422213	processed_pseudogene	KNOWN	None	36388	None	None	72278313	72278787	1	None	None
18	None	ENSG00000260440	ENST00000567801	lincRNA	KNOWN	None	None	None	None	59415409	59421928	1	None	None
8	SDCBP	ENSG00000137575	ENST00000522243	processed_transcript	KNOWN	None	10662	None	None	59465483	59484860	1	None	SYCL
8	SDCBP	ENSG00000137575	ENST00000260130	protein_coding	KNOWN	CCDS6172	10662	897	298	59465728	59495419	1	None	SYCL
8	SDCBP	ENSG00000137575	ENST00000447182	protein_coding	KNOWN	CCDS47862	10662	894	297	59465775	59495405	1	None	SYCL
8	SDCBP	ENSG00000137575	ENST00000413219	protein_coding	KNOWN	CCDS6172	10662	897	298	59465776	59495389	1	None	SYCL
8	SDCBP	ENSG00000137575	ENST00000424270	protein_coding	KNOWN	CCDS47863	10662	879	292	59465796	59494615	1	None	SYCL
8	SDCBP	ENSG00000137575	ENST00000523483	protein_coding	PUTATIVE	None	10662	957	318	59465813	59495417	1	None	SYCL
8	SDCBP	ENSG00000137575	ENST00000520168	protein_coding	NOVEL	None	10662	720	239	59465814	59494612	1	None	SYCL
8	SDCBP	ENSG00000137575	ENST00000519115	retained_intron	KNOWN	None	10662	None	None	59465820	59490943	1	None	SYCL
8	SDCBP	ENSG00000137575	ENST00000522843	retained_intron	KNOWN	None	10662	None	None	59465821	59488925	1	None	SYCL
8	SDCBP	ENSG00000137575	ENST00000447267	protein_coding	PUTATIVE	None	10662	735	244	59477575	59494318	1	None	SYCL
8	SDCBP	ENSG00000137575	ENST00000520228	retained_intron	KNOWN	None	10662	None	None	59483271	59490629	1	None	SYCL
8	SDCBP	ENSG00000137575	ENST00000523441	retained_intron	KNOWN	None	10662	None	None	59490552	59492508	1	None	SYCL
8	SDCBP	ENSG00000137575	ENST00000422546	protein_coding	KNOWN	CCDS47862	10662	894	297	59465728	59495418	1	None	SYCL
18	RPIAP1	ENSG00000267597	ENST00000587900	processed_pseudogene	KNOWN	None	27250	None	None	59624506	59625247	-1	None	None
18	LAMA3	ENSG00000053747	ENST00000313654	protein_coding	KNOWN	CCDS42419	6483	10002	3333	21269407	21535030	1	LAMNA	nicein-150kDa, kalinin-165kDa, BM600-150kDa, epiligrin
18	LAMA3	ENSG00000053747	ENST00000585600	non_stop_decay	KNOWN	None	6483	1729	575	21269562	21376112	1	LAMNA	nicein-150kDa, kalinin-165kDa, BM600-150kDa, epiligrin
18	LAMA3	ENSG00000053747	ENST00000399516	protein_coding	KNOWN	CCDS45838	6483	9834	3277	21269648	21534612	1	LAMNA	nicein-150kDa, kalinin-165kDa, BM600-150kDa, epiligrin
18	LAMA3	ENSG00000053747	ENST00000591749	retained_intron	KNOWN	None	6483	None	None	21407368	21417276	1	LAMNA	nicein-150kDa, kalinin-165kDa, BM600-150kDa, epiligrin
18	LAMA3	ENSG00000053747	ENST00000592519	protein_coding	PUTATIVE	None	6483	178	58	21413917	21414801	1	LAMNA	nicein-150kDa, kalinin-165kDa, BM600-150kDa, epiligrin
18	LAMA3	ENSG00000053747	ENST00000269217	protein_coding	KNOWN	CCDS11880	6483	5175	1724	21452804	21534903	1	LAMNA	nicein-150kDa, kalinin-165kDa, BM600-150kDa, epiligrin
18	LAMA3	ENSG00000053747	ENST00000587184	protein_coding	KNOWN	CCDS59307	6483	5007	1668	21453009	21534612	1	LAMNA	nicein-150kDa, kalinin-165kDa, BM600-150kDa, epiligrin
18	LAMA3	ENSG00000053747	ENST00000586751	protein_coding	PUTATIVE	None	6483	3442	1146	21464737	21511523	1	LAMNA	nicein-150kDa, kalinin-165kDa, BM600-150kDa, epiligrin
18	LAMA3	ENSG00000053747	ENST00000588770	processed_transcript	KNOWN	None	6483	None	None	21478225	21534953	1	LAMNA	nicein-150kDa, kalinin-165kDa, BM600-150kDa, epiligrin
18	LAMA3	ENSG00000053747	ENST00000586709	retained_intron	KNOWN	None	6483	None	None	21478701	21479664	1	LAMNA	nicein-150kDa, kalinin-165kDa, BM600-150kDa, epiligrin
18	LAMA3	ENSG00000053747	ENST00000588164	protein_coding	PUTATIVE	None	6483	287	94	21508203	21511655	1	LAMNA	nicein-150kDa, kalinin-165kDa, BM600-150kDa, epiligrin
18	LAMA3	ENSG00000053747	ENST00000592442	retained_intron	KNOWN	None	6483	None	None	21511119	21512549	1	LAMNA	nicein-150kDa, kalinin-165kDa, BM600-150kDa, epiligrin
18	LAMA3	ENSG00000053747	ENST00000590104	protein_coding	PUTATIVE	None	6483	112	36	21526148	21526801	1	LAMNA	nicein-150kDa, kalinin-165kDa, BM600-150kDa, epiligrin
18	LAMA3	ENSG00000053747	ENST00000588004	protein_coding	PUTATIVE	None	6483	403	133	21529857	21534763	1	LAMNA	nicein-150kDa, kalinin-165kDa, BM600-150kDa, epiligrin
HG414_PATCH	CAPN5	ENSG00000262875	ENST00000572669	protein_coding	PUTATIVE	None	1482	159	52	76777976	76834959	1	None	nCL-3, HTRA3
HG414_PATCH	CAPN5	ENSG00000262875	ENST00000571230	protein_coding	KNOWN	None	1482	1923	640	76777985	76835592	1	None	nCL-3, HTRA3
HG414_PATCH	CAPN5	ENSG00000262875	ENST00000572720	protein_coding	KNOWN	None	1482	291	96	76778015	76804850	1	None	nCL-3, HTRA3
HG414_PATCH	CAPN5	ENSG00000262875	ENST00000576267	protein_coding	KNOWN	None	1482	1923	640	76778021	76835097	1	None	nCL-3, HTRA3
HG414_PATCH	CAPN5	ENSG00000262875	ENST00000574625	protein_coding	NOVEL	None	1482	2043	680	76778037	76835538	1	None	nCL-3, HTRA3
HG414_PATCH	CAPN5	ENSG00000262875	ENST00000570643	retained_intron	KNOWN	None	1482	None	None	76796008	76823954	1	None	nCL-3, HTRA3
HG414_PATCH	CAPN5	ENSG00000262875	ENST00000572522	retained_intron	KNOWN	None	1482	None	None	76830450	76835538	1	None	nCL-3, HTRA3
18	None	ENSG00000266900	ENST00000588561	sense_intronic	KNOWN	None	None	None	None	59913043	59914645	1	None	None
18	None	ENSG00000267560	ENST00000591014	antisense	KNOWN	None	None	None	None	59967269	59968231	-1	None	None
HSCHR6_MHC_APD	UBD	ENSG00000226898	ENST00000414436	protein_coding	KNOWN	None	18795	498	165	29523504	29527818	-1	None	FAT10
HSCHR6_MHC_MANN	None	ENSG00000257782	ENST00000550976	protein_coding	NOVEL	None	None	111	36	31697638	31859776	1	None	None
22	KCNJ4	ENSG00000168135	ENST00000303592	protein_coding	KNOWN	CCDS13971	6265	1338	445	38822332	38851205	-1	None	Kir2.3, HIR, HRK1, hIRK2, IRK3
21	None	ENSG00000238220	ENST00000411943	processed_pseudogene	KNOWN	None	None	None	None	33996726	33997406	-1	None	None
18	DSEL	ENSG00000171451	ENST00000310045	protein_coding	KNOWN	CCDS11995	18144	3669	1222	65173819	65184217	-1	C18orf4	NCAG1, FLJ11477
HSCHR6_MHC_APD	OR2H2	ENSG00000224319	ENST00000453513	protein_coding	KNOWN	None	8253	939	312	29555796	29556858	1	None	hs6M1-12
21	PAXBP1-AS1	ENSG00000238197	ENST00000458479	processed_transcript	KNOWN	None	39603	None	None	34100426	34105227	1	GCFC1-AS1	None
21	PAXBP1-AS1	ENSG00000238197	ENST00000440052	processed_transcript	KNOWN	None	39603	None	None	34100450	34115433	1	GCFC1-AS1	None
21	PAXBP1-AS1	ENSG00000238197	ENST00000455170	processed_transcript	KNOWN	None	39603	None	None	34102663	34109784	1	GCFC1-AS1	None
18	None	ENSG00000199867	ENST00000362997	misc_RNA	NOVEL	None	None	None	None	59998045	59998146	1	None	None
18	None	ENSG00000267341	ENST00000589084	antisense	KNOWN	None	None	None	None	60040127	60045363	-1	None	None
18	LINC00526	ENSG00000264575	ENST00000581067	lincRNA	KNOWN	None	28278	None	None	5236723	5238597	-1	C18orf18	MGC17515, HsT959
20	STX16-NPEPL1	ENSG00000254995	ENST00000530122	nonsense_mediated_decay	KNOWN	None	41993	1149	382	57226490	57290466	1	None	None
20	STX16-NPEPL1	ENSG00000254995	ENST00000413559	retained_intron	KNOWN	None	41993	None	None	57248694	57267262	1	None	None
18	RPL17P44	ENSG00000241088	ENST00000475372	processed_pseudogene	KNOWN	None	36396	None	None	60082911	60083460	1	None	None
HSCHR6_MHC_MANN	LY6G6F	ENSG00000239741	ENST00000446062	protein_coding	KNOWN	None	13933	894	297	31714157	31717870	1	LY6G6D, C6orf21	G6f, NG32
HSCHR6_MHC_MANN	LY6G6F	ENSG00000239741	ENST00000557698	protein_coding	KNOWN	None	13933	1149	382	31714135	31725073	1	LY6G6D, C6orf21	G6f, NG32
13	FAM58DP	ENSG00000231184	ENST00000428076	processed_pseudogene	KNOWN	None	42022	None	None	19956594	19957212	1	None	None
13	FAM58DP	ENSG00000231184	ENST00000457899	processed_pseudogene	KNOWN	None	42022	None	None	19956348	19957525	1	None	None
18	LINC00667	ENSG00000263753	ENST00000581471	lincRNA	KNOWN	None	27906	None	None	5237825	5239388	1	None	None
18	LINC00667	ENSG00000263753	ENST00000582363	lincRNA	KNOWN	None	27906	None	None	5238083	5243935	1	None	None
18	LINC00667	ENSG00000263753	ENST00000582008	lincRNA	KNOWN	None	27906	None	None	5238099	5246507	1	None	None
18	LINC00667	ENSG00000263753	ENST00000580082	lincRNA	KNOWN	None	27906	None	None	5238127	5240712	1	None	None
18	LINC00667	ENSG00000263753	ENST00000580684	lincRNA	KNOWN	None	27906	None	None	5238549	5243910	1	None	None
18	LINC00667	ENSG00000263753	ENST00000577439	lincRNA	KNOWN	None	27906	None	None	5240989	5246507	1	None	None
18	LINC00667	ENSG00000263753	ENST00000458396	lincRNA	KNOWN	None	27906	None	None	5232875	5238332	1	None	None
13	None	ENSG00000229791	ENST00000443554	lincRNA	KNOWN	None	None	None	None	19982182	19983669	-1	None	None
13	SLC25A15P2	ENSG00000237164	ENST00000457292	unprocessed_pseudogene	KNOWN	None	39843	None	None	19985371	19990328	1	None	None
13	CYCSP32	ENSG00000223625	ENST00000440548	processed_pseudogene	KNOWN	None	24406	None	None	20032538	20032858	-1	None	HCP32
18	None	ENSG00000265188	ENST00000580230	processed_pseudogene	KNOWN	None	None	None	None	5240254	5241166	-1	None	None
13	MRPS31P2	ENSG00000232894	ENST00000451581	unprocessed_pseudogene	KNOWN	None	39252	None	None	20126711	20144428	-1	None	None
22	KDELR3	ENSG00000100196	ENST00000216014	protein_coding	KNOWN	CCDS13972	6306	645	214	38864067	38879452	1	None	None
22	KDELR3	ENSG00000100196	ENST00000409006	protein_coding	KNOWN	CCDS46705	6306	663	220	38864083	38877640	1	None	None
22	KDELR3	ENSG00000100196	ENST00000471268	processed_transcript	KNOWN	None	6306	None	None	38870334	38878927	1	None	None
18	None	ENSG00000264254	ENST00000579113	lincRNA	KNOWN	None	None	None	None	5310395	5317663	1	None	None
13	ESRRAP1	ENSG00000215572	ENST00000400596	processed_pseudogene	KNOWN	None	3472	None	None	20134153	20135409	-1	ESRRAP	None
18	None	ENSG00000266288	ENST00000581798	lincRNA	KNOWN	None	None	None	None	5381640	5385329	-1	None	None
HSCHR6_MHC_MANN	None	ENSG00000258635	ENST00000439683	protein_coding	PUTATIVE	None	None	1149	382	31714176	31725187	1	None	None
13	CASC4P1	ENSG00000238132	ENST00000456608	processed_pseudogene	KNOWN	None	39251	None	None	20137729	20139040	-1	None	None
18	None	ENSG00000265316	ENST00000577527	antisense	KNOWN	None	None	None	None	5463626	5480974	1	None	None
18	None	ENSG00000252576	ENST00000516767	snoRNA	NOVEL	None	None	None	None	5558188	5558272	-1	None	None
13	LINC00350	ENSG00000225316	ENST00000438640	lincRNA	KNOWN	None	42668	None	None	20161258	20162490	1	None	None
18	None	ENSG00000264000	ENST00000578391	antisense	KNOWN	None	None	None	None	5567129	5570941	1	None	None
13	None	ENSG00000257110	ENST00000542012	pseudogene	NOVEL	None	None	None	None	20247071	20247197	-1	None	None
13	None	ENSG00000226352	ENST00000423023	antisense	KNOWN	None	None	None	None	20248764	20250024	1	None	None
13	RN7SL166P	ENSG00000265624	ENST00000489872	misc_RNA	KNOWN	None	46182	None	None	20311117	20311394	-1	None	None
13	ST6GALNAC4P1	ENSG00000233469	ENST00000435385	processed_pseudogene	KNOWN	None	39660	None	None	20392261	20392759	-1	None	None
13	None	ENSG00000223576	ENST00000422148	antisense	KNOWN	None	None	None	None	20415967	20417812	1	None	None
18	None	ENSG00000267487	ENST00000591796	processed_pseudogene	KNOWN	None	None	None	None	60085551	60085809	1	None	None
13	None	ENSG00000238665	ENST00000459056	snoRNA	NOVEL	None	None	None	None	20449327	20449425	1	None	None
13	None	ENSG00000266230	ENST00000578762	miRNA	NOVEL	None	None	None	None	20504944	20505031	-1	None	None
18	ACTBP9	ENSG00000266920	ENST00000587663	processed_pseudogene	KNOWN	None	142	None	None	60109261	60110359	1	None	None
15	AP3B2	ENSG00000103723	ENST00000261722	protein_coding	KNOWN	CCDS45331	567	3249	1082	83328033	83378666	-1	None	NAPTB
15	AP3B2	ENSG00000103723	ENST00000543938	retained_intron	KNOWN	None	567	None	None	83328034	83349159	-1	None	NAPTB
15	AP3B2	ENSG00000103723	ENST00000537735	retained_intron	KNOWN	None	567	None	None	83328037	83331448	-1	None	NAPTB
15	AP3B2	ENSG00000103723	ENST00000535348	protein_coding	NOVEL	None	567	3153	1050	83328284	83378531	-1	None	NAPTB
15	AP3B2	ENSG00000103723	ENST00000535359	protein_coding	NOVEL	None	567	3306	1101	83328289	83378531	-1	None	NAPTB
15	AP3B2	ENSG00000103723	ENST00000545315	retained_intron	KNOWN	None	567	None	None	83331221	83332001	-1	None	NAPTB
15	AP3B2	ENSG00000103723	ENST00000538592	nonsense_mediated_decay	KNOWN	None	567	69	22	83331622	83332336	-1	None	NAPTB
15	AP3B2	ENSG00000103723	ENST00000559888	retained_intron	KNOWN	None	567	None	None	83349484	83350353	-1	None	NAPTB
15	AP3B2	ENSG00000103723	ENST00000541693	protein_coding	PUTATIVE	None	567	579	192	83349649	83367992	-1	None	NAPTB
15	AP3B2	ENSG00000103723	ENST00000535385	retained_intron	KNOWN	None	567	None	None	83350262	83378635	-1	None	NAPTB
15	AP3B2	ENSG00000103723	ENST00000542200	protein_coding	PUTATIVE	None	567	426	141	83355195	83378611	-1	None	NAPTB
15	AP3B2	ENSG00000103723	ENST00000561455	processed_transcript	KNOWN	None	567	None	None	83355567	83377603	-1	None	NAPTB
15	AP3B2	ENSG00000103723	ENST00000535513	retained_intron	KNOWN	None	567	None	None	83357180	83378625	-1	None	NAPTB
15	AP3B2	ENSG00000103723	ENST00000560529	processed_transcript	KNOWN	None	567	None	None	83358152	83378617	-1	None	NAPTB
HSCHR6_MHC_MCF	LSM2	ENSG00000225998	ENST00000493146	processed_transcript	KNOWN	None	13940	None	None	31841473	31850737	-1	C6orf28	G7b, YBL026W
HSCHR6_MHC_MCF	LSM2	ENSG00000225998	ENST00000464983	processed_transcript	KNOWN	None	13940	None	None	31841473	31850738	-1	C6orf28	G7b, YBL026W
HSCHR6_MHC_MCF	LSM2	ENSG00000225998	ENST00000482379	processed_transcript	KNOWN	None	13940	None	None	31841473	31850895	-1	C6orf28	G7b, YBL026W
HSCHR6_MHC_MCF	LSM2	ENSG00000225998	ENST00000486802	processed_transcript	KNOWN	None	13940	None	None	31841473	31850930	-1	C6orf28	G7b, YBL026W
HSCHR6_MHC_MCF	LSM2	ENSG00000225998	ENST00000466001	processed_transcript	KNOWN	None	13940	None	None	31841473	31851044	-1	C6orf28	G7b, YBL026W
HSCHR6_MHC_MCF	LSM2	ENSG00000225998	ENST00000434125	protein_coding	KNOWN	None	13940	288	95	31841473	31851062	-1	C6orf28	G7b, YBL026W
HSCHR6_MHC_MCF	LSM2	ENSG00000225998	ENST00000487213	processed_transcript	KNOWN	None	13940	None	None	31846829	31850680	-1	C6orf28	G7b, YBL026W
13	KRR1P1	ENSG00000237672	ENST00000419430	processed_pseudogene	KNOWN	None	39580	None	None	20644390	20646276	-1	None	None
18	RN7SL705P	ENSG00000243549	ENST00000481678	misc_RNA	KNOWN	None	46721	None	None	60317543	60317834	-1	None	None
18	RNU6-142P	ENSG00000206746	ENST00000384019	snRNA	KNOWN	None	47105	None	None	60398459	60398565	-1	None	None
13	None	ENSG00000236076	ENST00000455848	lincRNA	KNOWN	None	None	None	None	20676840	20677369	1	None	None
18	None	ENSG00000267766	ENST00000587475	sense_intronic	KNOWN	None	None	None	None	60818347	60818553	-1	None	None
22	SSTR3	ENSG00000183473	ENST00000328544	protein_coding	KNOWN	CCDS13944	11332	1257	418	37600278	37608362	-1	None	None
22	SSTR3	ENSG00000183473	ENST00000402501	protein_coding	KNOWN	CCDS13944	11332	1257	418	37602520	37607005	-1	None	None
13	PPIAP28	ENSG00000226633	ENST00000458378	processed_pseudogene	KNOWN	None	39902	None	None	20753117	20753601	-1	None	None
18	None	ENSG00000238988	ENST00000458827	snoRNA	NOVEL	None	None	None	None	60861822	60861898	-1	None	None
18	None	ENSG00000267701	ENST00000588307	sense_intronic	KNOWN	None	None	None	None	60981035	60981315	-1	None	None
HSCHR6_MHC_MANN	SUCLA2P1	ENSG00000227754	ENST00000430272	processed_pseudogene	KNOWN	None	21632	None	None	30481340	30482709	1	SUCLA2P	Em:AB014080.4
HSCHR6_MHC_MANN	SUCLA2P1	ENSG00000227754	ENST00000549508	pseudogene	KNOWN	None	21632	None	None	30482081	30482709	1	SUCLA2P	Em:AB014080.4
13	LINC00556	ENSG00000260131	ENST00000569603	antisense	KNOWN	None	43700	None	None	20755670	20756081	1	None	None
18	None	ENSG00000267390	ENST00000589905	antisense	KNOWN	None	None	None	None	61034561	61048862	1	None	None
13	MIR4499	ENSG00000263978	ENST00000584834	miRNA	KNOWN	None	41739	None	None	21007917	21007985	-1	None	hsa-mir-4499
18	None	ENSG00000252572	ENST00000516763	snoRNA	NOVEL	None	None	None	None	5579413	5579484	1	None	None
13	SLC35E1P1	ENSG00000238286	ENST00000419313	processed_pseudogene	KNOWN	None	42046	None	None	21181407	21182270	1	None	None
15	PRC1	ENSG00000198901	ENST00000394249	protein_coding	KNOWN	CCDS32334	9341	1863	620	91509270	91537725	-1	None	ASE1
15	PRC1	ENSG00000198901	ENST00000556972	protein_coding	PUTATIVE	None	9341	141	46	91509280	91513657	-1	None	ASE1
15	PRC1	ENSG00000198901	ENST00000361188	protein_coding	KNOWN	CCDS45352	9341	1821	606	91509307	91538859	-1	None	ASE1
15	PRC1	ENSG00000198901	ENST00000555455	protein_coding	PUTATIVE	None	9341	716	237	91509695	91519958	-1	None	ASE1
15	PRC1	ENSG00000198901	ENST00000560423	protein_coding	PUTATIVE	None	9341	194	63	91509894	91513707	-1	None	ASE1
15	PRC1	ENSG00000198901	ENST00000442656	protein_coding	KNOWN	CCDS45353	9341	1578	525	91510030	91537755	-1	None	ASE1
15	PRC1	ENSG00000198901	ENST00000559828	protein_coding	NOVEL	None	9341	584	193	91512806	91523516	-1	None	ASE1
15	PRC1	ENSG00000198901	ENST00000559326	retained_intron	KNOWN	None	9341	None	None	91517241	91519998	-1	None	ASE1
15	PRC1	ENSG00000198901	ENST00000560914	retained_intron	KNOWN	None	9341	None	None	91517804	91523753	-1	None	ASE1
15	PRC1	ENSG00000198901	ENST00000556982	retained_intron	KNOWN	None	9341	None	None	91522438	91524461	-1	None	ASE1
15	PRC1	ENSG00000198901	ENST00000553494	retained_intron	KNOWN	None	9341	None	None	91524167	91537766	-1	None	ASE1
15	PRC1	ENSG00000198901	ENST00000557763	retained_intron	KNOWN	None	9341	None	None	91524168	91537734	-1	None	ASE1
15	PRC1	ENSG00000198901	ENST00000417173	retained_intron	KNOWN	None	9341	None	None	91524173	91537767	-1	None	ASE1
15	PRC1	ENSG00000198901	ENST00000560605	retained_intron	KNOWN	None	9341	None	None	91524740	91537740	-1	None	ASE1
15	PRC1	ENSG00000198901	ENST00000557905	protein_coding	NOVEL	None	9341	463	153	91524815	91537755	-1	None	ASE1
15	PRC1	ENSG00000198901	ENST00000555791	retained_intron	KNOWN	None	9341	None	None	91525116	91537832	-1	None	ASE1
15	PRC1	ENSG00000198901	ENST00000555745	processed_transcript	KNOWN	None	9341	None	None	91525139	91537765	-1	None	ASE1
15	PRC1	ENSG00000198901	ENST00000559811	protein_coding	NOVEL	None	9341	331	109	91525193	91537730	-1	None	ASE1
15	PRC1	ENSG00000198901	ENST00000556129	processed_transcript	KNOWN	None	9341	None	None	91527287	91537739	-1	None	ASE1
15	PRC1	ENSG00000198901	ENST00000361919	protein_coding	KNOWN	None	9341	1701	566	91509275	91537804	-1	None	ASE1
18	None	ENSG00000252432	ENST00000516623	miRNA	NOVEL	None	None	None	None	5661944	5662049	-1	None	None
18	None	ENSG00000267430	ENST00000589763	processed_pseudogene	KNOWN	None	None	None	None	61082550	61083702	-1	None	None
14	STYX	ENSG00000198252	ENST00000442123	protein_coding	KNOWN	CCDS9711	11447	672	223	53196898	53241659	1	None	None
14	STYX	ENSG00000198252	ENST00000354586	protein_coding	KNOWN	CCDS9711	11447	672	223	53196900	53241716	1	None	None
14	STYX	ENSG00000198252	ENST00000556861	processed_transcript	PUTATIVE	None	11447	None	None	53198312	53241054	1	None	None
13	RNU2-7P	ENSG00000222726	ENST00000410794	snRNA	KNOWN	None	42505	None	None	21186300	21186477	1	None	None
20	NPEPL1	ENSG00000215440	ENST00000525967	protein_coding	PUTATIVE	CCDS56200	16244	1488	495	57264187	57290689	1	None	FLJ11583, bA261P9.2
20	NPEPL1	ENSG00000215440	ENST00000525817	protein_coding	PUTATIVE	CCDS56201	16244	1428	475	57264191	57290606	1	None	FLJ11583, bA261P9.2
20	NPEPL1	ENSG00000215440	ENST00000356091	protein_coding	KNOWN	CCDS46621	16244	1572	523	57267669	57290900	1	None	FLJ11583, bA261P9.2
20	NPEPL1	ENSG00000215440	ENST00000529976	retained_intron	KNOWN	None	16244	None	None	57268225	57290900	1	None	FLJ11583, bA261P9.2
20	NPEPL1	ENSG00000215440	ENST00000527587	retained_intron	KNOWN	None	16244	None	None	57268235	57294294	1	None	FLJ11583, bA261P9.2
20	NPEPL1	ENSG00000215440	ENST00000533788	nonsense_mediated_decay	KNOWN	None	16244	541	179	57269477	57288636	1	None	FLJ11583, bA261P9.2
20	NPEPL1	ENSG00000215440	ENST00000527081	retained_intron	KNOWN	None	16244	None	None	57287877	57290900	1	None	FLJ11583, bA261P9.2
20	NPEPL1	ENSG00000215440	ENST00000525068	retained_intron	KNOWN	None	16244	None	None	57288787	57290020	1	None	FLJ11583, bA261P9.2
20	NPEPL1	ENSG00000215440	ENST00000532531	retained_intron	KNOWN	None	16244	None	None	57292420	57294287	1	None	FLJ11583, bA261P9.2
13	None	ENSG00000265710	ENST00000581760	miRNA	NOVEL	None	None	None	None	21277842	21277922	1	None	None
18	None	ENSG00000261738	ENST00000566533	lincRNA	KNOWN	None	None	None	None	5748818	5795900	1	None	None
18	None	ENSG00000261738	ENST00000562452	lincRNA	KNOWN	None	None	None	None	5748818	5876327	1	None	None
18	None	ENSG00000261738	ENST00000580378	lincRNA	KNOWN	None	None	None	None	5762441	5793795	1	None	None
13	None	ENSG00000203614	ENST00000366421	pseudogene	KNOWN	None	None	None	None	21286570	21288285	1	None	None
18	None	ENSG00000269989	ENST00000602456	sense_intronic	KNOWN	None	None	None	None	61152834	61153251	1	None	None
18	ATP5G1P6	ENSG00000214318	ENST00000451206	processed_pseudogene	KNOWN	None	39509	None	None	61164222	61164633	1	None	None
13	RANP8	ENSG00000233524	ENST00000444720	processed_pseudogene	KNOWN	None	39863	None	None	21321174	21322196	-1	None	None
18	RPL12P39	ENSG00000237314	ENST00000455456	processed_pseudogene	KNOWN	None	35976	None	None	61739392	61739887	1	None	None
HSCHR6_MHC_MANN	LY6G6E	ENSG00000236210	ENST00000488740	processed_transcript	KNOWN	None	13934	None	None	31719609	31721085	-1	C6orf22	G6e
HSCHR6_MHC_MANN	LY6G6E	ENSG00000236210	ENST00000435369	protein_coding	KNOWN	None	13934	201	66	31719614	31721085	-1	C6orf22	G6e
HSCHR6_MHC_MANN	LY6G6E	ENSG00000236210	ENST00000434670	protein_coding	KNOWN	None	13934	303	100	31719614	31721085	-1	C6orf22	G6e
HSCHR6_MHC_MANN	LY6G6E	ENSG00000236210	ENST00000547676	protein_coding	KNOWN	None	13934	378	125	31719609	31721085	-1	C6orf22	G6e
X	COX7B	ENSG00000131174	ENST00000373335	processed_transcript	KNOWN	None	2291	None	None	77154935	77160772	1	None	None
X	COX7B	ENSG00000131174	ENST00000481445	protein_coding	KNOWN	CCDS14437	2291	243	80	77154935	77162870	1	None	None
X	COX7B	ENSG00000131174	ENST00000475465	processed_transcript	KNOWN	None	2291	None	None	77154960	77158693	1	None	None
20	INSM1	ENSG00000173404	ENST00000310227	protein_coding	KNOWN	CCDS13143	6090	1533	510	20348765	20351590	1	None	IA-1, IA1
HSCHR6_MHC_MCF	HLA-DPA1	ENSG00000168384	ENST00000374808	protein_coding	KNOWN	None	4938	783	260	33065822	33081951	-1	HLA-DP1A	None
HSCHR6_MHC_MCF	HLA-DPA1	ENSG00000168384	ENST00000480689	retained_intron	KNOWN	None	4938	None	None	33066260	33074850	-1	HLA-DP1A	None
HSCHR6_MHC_MCF	HLA-DPA1	ENSG00000168384	ENST00000429960	protein_coding	KNOWN	None	4938	385	127	33068913	33070501	-1	HLA-DP1A	None
HSCHR6_MHC_MCF	HLA-DPA1	ENSG00000168384	ENST00000441306	protein_coding	KNOWN	None	4938	636	211	33069951	33074872	-1	HLA-DP1A	None
HSCHR6_MHC_MCF	HLA-DPA1	ENSG00000168384	ENST00000414177	protein_coding	KNOWN	None	4938	628	208	33070272	33082008	-1	HLA-DP1A	None
HSCHR6_MHC_MCF	HLA-DPA1	ENSG00000168384	ENST00000480481	processed_transcript	KNOWN	None	4938	None	None	33070357	33081996	-1	HLA-DP1A	None
HSCHR6_MHC_MCF	HLA-DPA1	ENSG00000168384	ENST00000488565	processed_transcript	KNOWN	None	4938	None	None	33070415	33074868	-1	HLA-DP1A	None
HSCHR6_MHC_MCF	HLA-DPA1	ENSG00000168384	ENST00000432811	protein_coding	KNOWN	None	4938	69	22	33074737	33082016	-1	HLA-DP1A	None
HSCHR6_MHC_MCF	HLA-DPA1	ENSG00000168384	ENST00000552158	protein_coding	KNOWN	None	4938	783	260	33066270	33074836	-1	HLA-DP1A	None
18	TMX3	ENSG00000166479	ENST00000299608	protein_coding	KNOWN	CCDS32840	24718	1365	454	66340925	66382535	-1	TXNDC10	FLJ20793, KIAA1830, PDIA13
18	TMX3	ENSG00000166479	ENST00000578816	retained_intron	KNOWN	None	24718	None	None	66343947	66346814	-1	TXNDC10	FLJ20793, KIAA1830, PDIA13
18	TMX3	ENSG00000166479	ENST00000564631	nonsense_mediated_decay	KNOWN	None	24718	270	89	66344076	66382314	-1	TXNDC10	FLJ20793, KIAA1830, PDIA13
18	TMX3	ENSG00000166479	ENST00000566135	processed_transcript	KNOWN	None	24718	None	None	66344265	66348559	-1	TXNDC10	FLJ20793, KIAA1830, PDIA13
18	TMX3	ENSG00000166479	ENST00000578765	retained_intron	KNOWN	None	24718	None	None	66350162	66355214	-1	TXNDC10	FLJ20793, KIAA1830, PDIA13
18	TMX3	ENSG00000166479	ENST00000566887	processed_transcript	PUTATIVE	None	24718	None	None	66355654	66358590	-1	TXNDC10	FLJ20793, KIAA1830, PDIA13
18	TMX3	ENSG00000166479	ENST00000569053	nonsense_mediated_decay	KNOWN	None	24718	270	89	66356924	66382272	-1	TXNDC10	FLJ20793, KIAA1830, PDIA13
18	TMX3	ENSG00000166479	ENST00000443099	protein_coding	PUTATIVE	None	24718	594	197	66358251	66382294	-1	TXNDC10	FLJ20793, KIAA1830, PDIA13
18	TMX3	ENSG00000166479	ENST00000562706	protein_coding	KNOWN	None	24718	588	195	66364173	66382295	-1	TXNDC10	FLJ20793, KIAA1830, PDIA13
18	TMX3	ENSG00000166479	ENST00000564008	nonsense_mediated_decay	KNOWN	None	24718	192	63	66364463	66382302	-1	TXNDC10	FLJ20793, KIAA1830, PDIA13
18	TMX3	ENSG00000166479	ENST00000565918	nonsense_mediated_decay	KNOWN	None	24718	387	128	66364463	66382306	-1	TXNDC10	FLJ20793, KIAA1830, PDIA13
18	TMX3	ENSG00000166479	ENST00000580785	retained_intron	KNOWN	None	24718	None	None	66364613	66367660	-1	TXNDC10	FLJ20793, KIAA1830, PDIA13
18	TMX3	ENSG00000166479	ENST00000569982	nonsense_mediated_decay	KNOWN	None	24718	210	69	66365168	66381680	-1	TXNDC10	FLJ20793, KIAA1830, PDIA13
18	TMX3	ENSG00000166479	ENST00000544714	protein_coding	NOVEL	None	24718	394	130	66373517	66382329	-1	TXNDC10	FLJ20793, KIAA1830, PDIA13
13	CNOT4P1	ENSG00000236704	ENST00000417432	processed_pseudogene	KNOWN	None	39272	None	None	21495803	21497372	-1	None	None
13	HNRNPA1P30	ENSG00000233780	ENST00000424329	processed_transcript	KNOWN	None	39548	None	None	21512703	21523567	-1	None	None
13	HNRNPA1P30	ENSG00000233780	ENST00000440699	transcribed_processed_pseudogene	KNOWN	None	39548	None	None	21522433	21523738	-1	None	None
X	CT45A6	ENSG00000226907	ENST00000491002	nonsense_mediated_decay	KNOWN	CCDS35407	33271	570	189	134961634	134971244	-1	None	CT45-6, CT45.6
X	CT45A6	ENSG00000226907	ENST00000448053	protein_coding	KNOWN	CCDS35407	33271	570	189	134963213	134971244	-1	None	CT45-6, CT45.6
X	CT45A6	ENSG00000226907	ENST00000472834	protein_coding	KNOWN	CCDS35407	33271	570	189	134963224	134971059	-1	None	CT45-6, CT45.6
22	RAC2	ENSG00000128340	ENST00000249071	protein_coding	KNOWN	CCDS13945	9802	579	192	37621301	37640310	-1	None	EN-7
22	RAC2	ENSG00000128340	ENST00000406508	protein_coding	KNOWN	None	9802	447	148	37621892	37640488	-1	None	EN-7
22	RAC2	ENSG00000128340	ENST00000481215	retained_intron	KNOWN	None	9802	None	None	37622006	37627543	-1	None	EN-7
22	RAC2	ENSG00000128340	ENST00000405484	protein_coding	NOVEL	None	9802	558	185	37622713	37640472	-1	None	EN-7
22	RAC2	ENSG00000128340	ENST00000441619	protein_coding	KNOWN	None	9802	499	165	37622793	37640481	-1	None	EN-7
22	RAC2	ENSG00000128340	ENST00000469532	retained_intron	KNOWN	None	9802	None	None	37628444	37640318	-1	None	EN-7
22	RAC2	ENSG00000128340	ENST00000401529	protein_coding	PUTATIVE	None	9802	261	86	37636845	37640288	-1	None	EN-7
HSCHR6_MHC_MANN	RANP1	ENSG00000224554	ENST00000414129	processed_pseudogene	KNOWN	None	21631	None	None	30498398	30499048	1	None	Em:AB014080.2
HSCHR17_1	None	ENSG00000257211	ENST00000549322	protein_coding	NOVEL	None	None	2262	753	43800487	43865069	-1	None	None
HSCHR17_1	None	ENSG00000257211	ENST00000549105	protein_coding	NOVEL	None	None	4908	1635	43800487	43843467	-1	None	None
HSCHR17_1	None	ENSG00000257211	ENST00000597888	protein_coding	NOVEL	None	None	5103	1700	43800487	43843467	-1	None	None
HSCHR17_1	None	ENSG00000257211	ENST00000549001	protein_coding	NOVEL	None	None	2025	674	43800487	43816019	-1	None	None
HSCHR6_MHC_MANN	None	ENSG00000257559	ENST00000549952	pseudogene	NOVEL	None	None	None	None	30500762	30500846	1	None	None
13	HSPH1	ENSG00000120694	ENST00000435381	protein_coding	PUTATIVE	None	16969	348	115	31710762	31712705	-1	None	HSP105B, KIAA0201, HSP105A, NY-CO-25
13	HSPH1	ENSG00000120694	ENST00000320027	protein_coding	KNOWN	CCDS9340	16969	2577	858	31710765	31736064	-1	None	HSP105B, KIAA0201, HSP105A, NY-CO-25
13	HSPH1	ENSG00000120694	ENST00000380405	protein_coding	NOVEL	None	16969	2445	814	31710765	31736064	-1	None	HSP105B, KIAA0201, HSP105A, NY-CO-25
13	HSPH1	ENSG00000120694	ENST00000602786	nonsense_mediated_decay	KNOWN	None	16969	348	115	31710765	31736064	-1	None	HSP105B, KIAA0201, HSP105A, NY-CO-25
13	HSPH1	ENSG00000120694	ENST00000469538	retained_intron	KNOWN	None	16969	None	None	31712676	31713319	-1	None	HSP105B, KIAA0201, HSP105A, NY-CO-25
13	HSPH1	ENSG00000120694	ENST00000445273	protein_coding	KNOWN	None	16969	2583	860	31711058	31736525	-1	None	HSP105B, KIAA0201, HSP105A, NY-CO-25
13	HSPH1	ENSG00000120694	ENST00000380406	protein_coding	KNOWN	None	16969	2454	817	31710765	31736056	-1	None	HSP105B, KIAA0201, HSP105A, NY-CO-25
13	HSPH1	ENSG00000120694	ENST00000429785	protein_coding	KNOWN	None	16969	2034	677	31711403	31736176	-1	None	HSP105B, KIAA0201, HSP105A, NY-CO-25
HSCHR6_MHC_MANN	None	ENSG00000257273	ENST00000547359	pseudogene	NOVEL	None	None	None	None	30501183	30501309	-1	None	None
X	FAM9A	ENSG00000183304	ENST00000381003	protein_coding	KNOWN	CCDS14131	18403	999	332	8758836	8769424	-1	None	TEX39A
X	FAM9A	ENSG00000183304	ENST00000543214	protein_coding	KNOWN	CCDS14131	18403	999	332	8758836	8769378	-1	None	TEX39A
HSCHR6_MHC_MANN	None	ENSG00000258353	ENST00000549819	pseudogene	NOVEL	None	None	None	None	30504298	30504382	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000258054	ENST00000547727	pseudogene	NOVEL	None	None	None	None	30516378	30516499	-1	None	None
HSCHR6_MHC_MANN	None	ENSG00000257170	ENST00000548683	pseudogene	NOVEL	None	None	None	None	30522150	30522222	1	None	None
8	PAG1	ENSG00000076641	ENST00000220597	protein_coding	KNOWN	CCDS6227	30043	1299	432	81880045	82024303	-1	None	PAG, CBP
8	PAG1	ENSG00000076641	ENST00000523463	processed_transcript	KNOWN	None	30043	None	None	81882526	81888015	-1	None	PAG, CBP
8	PAG1	ENSG00000076641	ENST00000522811	retained_intron	KNOWN	None	30043	None	None	81897463	81899769	-1	None	PAG, CBP
8	PAG1	ENSG00000076641	ENST00000519326	processed_transcript	KNOWN	None	30043	None	None	81942026	81982411	-1	None	PAG, CBP
HSCHR6_MHC_MANN	None	ENSG00000257911	ENST00000551955	pseudogene	NOVEL	None	None	None	None	30523872	30523956	-1	None	None
HSCHR6_MHC_MANN	None	ENSG00000235801	ENST00000422235	processed_transcript	PUTATIVE	None	None	None	None	30528710	30531661	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000258155	ENST00000550225	pseudogene	NOVEL	None	None	None	None	30529912	30529999	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000257602	ENST00000550430	pseudogene	NOVEL	None	None	None	None	30542942	30544028	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000257182	ENST00000550930	pseudogene	NOVEL	None	None	None	None	30545347	30545471	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000257362	ENST00000550278	pseudogene	NOVEL	None	None	None	None	30551130	30551350	1	None	None
18	MIR3976	ENSG00000272380	ENST00000606807	miRNA	KNOWN	None	41578	None	None	5840694	5840832	1	None	hsa-mir-3976
HSCHR6_MHC_MANN	None	ENSG00000257984	ENST00000547142	pseudogene	NOVEL	None	None	None	None	30560530	30560602	-1	None	None
18	None	ENSG00000264449	ENST00000582939	antisense	KNOWN	None	None	None	None	5887486	5889462	1	None	None
18	None	ENSG00000264449	ENST00000580845	antisense	KNOWN	None	None	None	None	5887541	5889517	1	None	None
18	None	ENSG00000264449	ENST00000577694	antisense	KNOWN	None	None	None	None	5887617	5909121	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000257190	ENST00000549609	pseudogene	NOVEL	None	None	None	None	30561459	30561580	1	None	None
X	ASMTL-AS1	ENSG00000236017	ENST00000443929	antisense	KNOWN	None	25811	None	None	1520662	1522386	1	CXYorf2, NCRNA00105, ASMTLAS, ASMTL-AS	FLJ13330
X	ASMTL-AS1	ENSG00000236017	ENST00000425740	antisense	KNOWN	None	25811	None	None	1520704	1532808	1	CXYorf2, NCRNA00105, ASMTLAS, ASMTL-AS	FLJ13330
X	ASMTL-AS1	ENSG00000236017	ENST00000420411	antisense	KNOWN	None	25811	None	None	1520936	1532024	1	CXYorf2, NCRNA00105, ASMTLAS, ASMTL-AS	FLJ13330
X	ASMTL-AS1	ENSG00000236017	ENST00000419737	antisense	KNOWN	None	25811	None	None	1522352	1532921	1	CXYorf2, NCRNA00105, ASMTLAS, ASMTL-AS	FLJ13330
X	ASMTL-AS1	ENSG00000236017	ENST00000602357	antisense	KNOWN	None	25811	None	None	1522403	1532917	1	CXYorf2, NCRNA00105, ASMTLAS, ASMTL-AS	FLJ13330
HSCHR6_MHC_MANN	None	ENSG00000266785	ENST00000581470	miRNA	KNOWN	None	None	None	None	30596784	30596869	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000265473	ENST00000577377	miRNA	KNOWN	None	None	None	None	30628681	30628757	-1	None	None
18	None	ENSG00000265487	ENST00000577704	antisense	KNOWN	None	None	None	None	5956100	5960784	1	None	None
18	RNU5F-3P	ENSG00000200637	ENST00000363767	snRNA	KNOWN	None	42514	None	None	6017722	6017838	-1	None	None
HSCHR6_MHC_MANN	PTMAP1	ENSG00000223851	ENST00000444251	processed_pseudogene	KNOWN	None	9624	None	None	30646084	30646350	1	None	Em:AB023049.6
HSCHR6_MHC_MANN	PTMAP1	ENSG00000223851	ENST00000547723	pseudogene	KNOWN	None	9624	None	None	30646084	30646328	1	None	Em:AB023049.6
18	None	ENSG00000266846	ENST00000577935	antisense	KNOWN	None	None	None	None	6025090	6082454	1	None	None
HSCHR4_1	None	ENSG00000258287	ENST00000553088	processed_pseudogene	NOVEL	None	None	None	None	69752901	69753179	-1	None	None
HSCHR6_MHC_MANN	RPL7P4	ENSG00000226494	ENST00000436666	processed_pseudogene	KNOWN	None	21634	None	None	30709281	30710010	-1	None	Em:AB023049.2
18	None	ENSG00000264707	ENST00000578427	lincRNA	KNOWN	None	None	None	None	6256746	6260933	1	None	None
X	ATP7A	ENSG00000165240	ENST00000341514	protein_coding	KNOWN	CCDS35339	869	4503	1500	77166199	77305892	1	MNK	None
X	ATP7A	ENSG00000165240	ENST00000343533	protein_coding	KNOWN	None	869	4269	1422	77166194	77305892	1	MNK	None
X	ATP7A	ENSG00000165240	ENST00000350425	protein_coding	KNOWN	None	869	1512	503	77166194	77305892	1	MNK	None
15	FEM1B	ENSG00000169018	ENST00000306917	protein_coding	KNOWN	CCDS10228	3649	1884	627	68570141	68588203	1	None	None
15	FEM1B	ENSG00000169018	ENST00000570067	protein_coding	PUTATIVE	None	3649	13	3	68572297	68582183	1	None	None
15	FEM1B	ENSG00000169018	ENST00000566739	protein_coding	PUTATIVE	None	3649	241	79	68581593	68582411	1	None	None
15	FEM1B	ENSG00000169018	ENST00000566008	protein_coding	NOVEL	None	3649	809	268	68582550	68583649	1	None	None
GL000209.1	KIR2DL2	ENSG00000215764	ENST00000391731	protein_coding	KNOWN	None	6330	1128	375	7891	96032	1	None	cl-43, nkat6, CD158B1, CD158k
GL000209.1	KIR2DL2	ENSG00000215764	ENST00000400847	protein_coding	KNOWN	None	6330	1164	387	7904	84658	1	None	cl-43, nkat6, CD158B1, CD158k
GL000209.1	KIR2DL2	ENSG00000215764	ENST00000400851	protein_coding	KNOWN	None	6330	1194	397	7915	68119	1	None	cl-43, nkat6, CD158B1, CD158k
GL000209.1	KIR2DL2	ENSG00000215764	ENST00000400875	protein_coding	KNOWN	None	6330	1233	410	7897	19915	1	None	cl-43, nkat6, CD158B1, CD158k
GL000209.1	KIR2DL2	ENSG00000215764	ENST00000344867	protein_coding	KNOWN	None	6330	1047	348	21911	36449	1	None	cl-43, nkat6, CD158B1, CD158k
GL000209.1	KIR2DL2	ENSG00000215764	ENST00000400854	protein_coding	KNOWN	None	6330	1134	377	57208	68122	1	None	cl-43, nkat6, CD158B1, CD158k
GL000209.1	KIR2DL2	ENSG00000215764	ENST00000400853	protein_coding	KNOWN	None	6330	1083	360	57208	68122	1	None	cl-43, nkat6, CD158B1, CD158k
GL000209.1	KIR2DL2	ENSG00000215764	ENST00000400852	protein_coding	KNOWN	None	6330	1029	342	57208	68122	1	None	cl-43, nkat6, CD158B1, CD158k
GL000209.1	KIR2DL2	ENSG00000215764	ENST00000400848	protein_coding	KNOWN	None	6330	1149	382	70097	84658	1	None	cl-43, nkat6, CD158B1, CD158k
GL000209.1	KIR2DL2	ENSG00000215764	ENST00000400846	protein_coding	KNOWN	None	6330	1128	375	86746	96246	1	None	cl-43, nkat6, CD158B1, CD158k
GL000209.1	KIR3DS1	ENSG00000215764	ENST00000391731	protein_coding	KNOWN	None	6340	1128	375	7891	96032	1	None	nkat10
GL000209.1	KIR3DS1	ENSG00000215764	ENST00000400847	protein_coding	KNOWN	None	6340	1164	387	7904	84658	1	None	nkat10
GL000209.1	KIR3DS1	ENSG00000215764	ENST00000400851	protein_coding	KNOWN	None	6340	1194	397	7915	68119	1	None	nkat10
GL000209.1	KIR3DS1	ENSG00000215764	ENST00000400875	protein_coding	KNOWN	None	6340	1233	410	7897	19915	1	None	nkat10
GL000209.1	KIR3DS1	ENSG00000215764	ENST00000344867	protein_coding	KNOWN	None	6340	1047	348	21911	36449	1	None	nkat10
GL000209.1	KIR3DS1	ENSG00000215764	ENST00000400854	protein_coding	KNOWN	None	6340	1134	377	57208	68122	1	None	nkat10
GL000209.1	KIR3DS1	ENSG00000215764	ENST00000400853	protein_coding	KNOWN	None	6340	1083	360	57208	68122	1	None	nkat10
GL000209.1	KIR3DS1	ENSG00000215764	ENST00000400852	protein_coding	KNOWN	None	6340	1029	342	57208	68122	1	None	nkat10
GL000209.1	KIR3DS1	ENSG00000215764	ENST00000400848	protein_coding	KNOWN	None	6340	1149	382	70097	84658	1	None	nkat10
GL000209.1	KIR3DS1	ENSG00000215764	ENST00000400846	protein_coding	KNOWN	None	6340	1128	375	86746	96246	1	None	nkat10
HSCHR6_MHC_MANN	MDC1-AS1	ENSG00000224508	ENST00000447707	processed_transcript	KNOWN	None	39764	None	None	30715542	30725658	1	None	None
22	CABIN1	ENSG00000099991	ENST00000454754	protein_coding	NOVEL	None	24187	1071	356	24407642	24452767	1	None	KIAA0330, PPP3IN
22	CABIN1	ENSG00000099991	ENST00000263119	protein_coding	KNOWN	CCDS13823	24187	6663	2220	24407765	24574596	1	None	KIAA0330, PPP3IN
22	CABIN1	ENSG00000099991	ENST00000405822	protein_coding	NOVEL	None	24187	6426	2141	24407798	24574596	1	None	KIAA0330, PPP3IN
22	CABIN1	ENSG00000099991	ENST00000445422	protein_coding	NOVEL	None	24187	1085	360	24407866	24452781	1	None	KIAA0330, PPP3IN
22	CABIN1	ENSG00000099991	ENST00000398319	protein_coding	KNOWN	CCDS13823	24187	6663	2220	24407868	24574596	1	None	KIAA0330, PPP3IN
22	CABIN1	ENSG00000099991	ENST00000474981	retained_intron	KNOWN	None	24187	None	None	24451531	24452988	1	None	KIAA0330, PPP3IN
22	CABIN1	ENSG00000099991	ENST00000484593	retained_intron	KNOWN	None	24187	None	None	24462956	24467134	1	None	KIAA0330, PPP3IN
22	CABIN1	ENSG00000099991	ENST00000496016	retained_intron	KNOWN	None	24187	None	None	24483541	24487967	1	None	KIAA0330, PPP3IN
22	CABIN1	ENSG00000099991	ENST00000467937	retained_intron	KNOWN	None	24187	None	None	24494076	24515573	1	None	KIAA0330, PPP3IN
22	CABIN1	ENSG00000099991	ENST00000337989	protein_coding	PUTATIVE	None	24187	1773	590	24551806	24574595	1	None	KIAA0330, PPP3IN
22	CABIN1	ENSG00000099991	ENST00000495121	processed_transcript	KNOWN	None	24187	None	None	24552501	24560457	1	None	KIAA0330, PPP3IN
22	CABIN1	ENSG00000099991	ENST00000485008	processed_transcript	KNOWN	None	24187	None	None	24563191	24569366	1	None	KIAA0330, PPP3IN
22	CABIN1	ENSG00000099991	ENST00000459824	retained_intron	KNOWN	None	24187	None	None	24571747	24573506	1	None	KIAA0330, PPP3IN
HSCHR6_MHC_MANN	None	ENSG00000263671	ENST00000577251	misc_RNA	NOVEL	None	None	None	None	30763502	30763749	1	None	None
18	RN7SL723P	ENSG00000265628	ENST00000580618	misc_RNA	KNOWN	None	46739	None	None	6437063	6437337	-1	None	None
18	RNU6-349P	ENSG00000199272	ENST00000362402	snRNA	KNOWN	None	47312	None	None	6454961	6455067	1	None	None
HSCHR6_MHC_MANN	HCG20	ENSG00000228762	ENST00000413396	processed_transcript	KNOWN	None	31334	None	None	30779290	30804715	1	None	AB023051.1, NCRNA00149
HSCHR6_MHC_MANN	HCG20	ENSG00000228762	ENST00000443680	processed_transcript	KNOWN	None	31334	None	None	30794423	30804715	1	None	AB023051.1, NCRNA00149
18	RPL6P27	ENSG00000235552	ENST00000489915	transcribed_processed_pseudogene	KNOWN	None	36133	None	None	6462143	6463009	-1	None	None
18	RPL6P27	ENSG00000235552	ENST00000583065	processed_transcript	KNOWN	None	36133	None	None	6462151	6463014	-1	None	None
HSCHR6_MHC_APD	MOG	ENSG00000234096	ENST00000417019	protein_coding	KNOWN	None	7197	744	247	29624905	29640277	1	None	None
HSCHR6_MHC_APD	MOG	ENSG00000234096	ENST00000476989	processed_transcript	KNOWN	None	7197	None	None	29624954	29634161	1	None	None
HSCHR6_MHC_APD	MOG	ENSG00000234096	ENST00000449096	protein_coding	KNOWN	None	7197	888	295	29624998	29640277	1	None	None
HSCHR6_MHC_APD	MOG	ENSG00000234096	ENST00000477366	processed_transcript	KNOWN	None	7197	None	None	29625036	29627828	1	None	None
HSCHR6_MHC_APD	MOG	ENSG00000234096	ENST00000430351	protein_coding	KNOWN	None	7197	396	131	29625116	29640277	1	None	None
HSCHR6_MHC_APD	MOG	ENSG00000234096	ENST00000418693	protein_coding	KNOWN	None	7197	759	252	29625116	29640277	1	None	None
HSCHR6_MHC_APD	MOG	ENSG00000234096	ENST00000420045	protein_coding	KNOWN	None	7197	642	213	29625116	29640277	1	None	None
HSCHR6_MHC_APD	MOG	ENSG00000234096	ENST00000439634	protein_coding	KNOWN	None	7197	690	229	29625116	29640277	1	None	None
HSCHR6_MHC_APD	MOG	ENSG00000234096	ENST00000415546	protein_coding	KNOWN	None	7197	675	224	29625116	29640277	1	None	None
HSCHR6_MHC_APD	MOG	ENSG00000234096	ENST00000428719	protein_coding	KNOWN	None	7197	615	204	29625122	29640277	1	None	None
HSCHR6_MHC_APD	MOG	ENSG00000234096	ENST00000450851	protein_coding	KNOWN	None	7197	539	178	29627223	29640277	1	None	None
HSCHR6_MHC_APD	MOG	ENSG00000234096	ENST00000494200	processed_transcript	KNOWN	None	7197	None	None	29627223	29640277	1	None	None
HSCHR6_MHC_APD	MOG	ENSG00000234096	ENST00000477504	processed_transcript	KNOWN	None	7197	None	None	29627223	29640277	1	None	None
HSCHR6_MHC_APD	MOG	ENSG00000234096	ENST00000547913	protein_coding	KNOWN	None	7197	621	206	29624887	29640275	1	None	None
HSCHR6_MHC_APD	MOG	ENSG00000234096	ENST00000548017	protein_coding	KNOWN	None	7197	627	208	29624887	29640275	1	None	None
HSCHR6_MHC_APD	MOG	ENSG00000234096	ENST00000551072	protein_coding	KNOWN	None	7197	174	57	29624968	29632636	1	None	None
HSCHR6_MHC_APD	MOG	ENSG00000234096	ENST00000551392	protein_coding	KNOWN	None	7197	516	171	29624887	29640275	1	None	None
10	GPRIN2	ENSG00000204175	ENST00000374317	protein_coding	KNOWN	CCDS31192	23730	1377	458	46994087	47000573	1	KIAA0514	MGC15171
10	GPRIN2	ENSG00000204175	ENST00000374314	protein_coding	KNOWN	CCDS31192	23730	1377	458	46997926	47005643	1	KIAA0514	MGC15171
18	None	ENSG00000266065	ENST00000582033	lincRNA	KNOWN	None	None	None	None	6493419	6495667	1	None	None
18	None	ENSG00000265174	ENST00000582386	sense_intronic	KNOWN	None	None	None	None	6557821	6558653	1	None	None
X	FAM9B	ENSG00000177138	ENST00000362066	protein_coding	PUTATIVE	None	18404	681	226	8992273	9001351	-1	None	TEX39B
X	FAM9B	ENSG00000177138	ENST00000327220	protein_coding	KNOWN	CCDS14132	18404	561	186	8993036	9002168	-1	None	TEX39B
X	FAM9B	ENSG00000177138	ENST00000472522	nonsense_mediated_decay	KNOWN	None	18404	273	90	8993146	9132647	-1	None	TEX39B
X	FAM9B	ENSG00000177138	ENST00000461107	retained_intron	KNOWN	None	18404	None	None	8993146	9132680	-1	None	TEX39B
X	FAM9B	ENSG00000177138	ENST00000494744	processed_transcript	KNOWN	None	18404	None	None	9128655	9131242	-1	None	TEX39B
X	FAM9B	ENSG00000177138	ENST00000428477	protein_coding	KNOWN	CCDS14132	18404	561	186	8993036	9001116	-1	None	TEX39B
13	RPL35AP31	ENSG00000233460	ENST00000418340	processed_pseudogene	KNOWN	None	36284	None	None	72420113	72420449	1	None	None
18	RN7SL282P	ENSG00000243591	ENST00000479676	misc_RNA	KNOWN	None	46298	None	None	6601539	6601834	1	None	None
18	None	ENSG00000261627	ENST00000563503	lincRNA	KNOWN	None	None	None	None	6641970	6642477	-1	None	None
13	RPS10P21	ENSG00000232881	ENST00000430654	processed_pseudogene	KNOWN	None	35906	None	None	72487842	72488316	-1	None	None
18	None	ENSG00000266441	ENST00000577327	antisense	KNOWN	None	None	None	None	6728820	6729861	-1	None	None
22	DDX17	ENSG00000100201	ENST00000396821	protein_coding	KNOWN	CCDS46706	2740	2196	731	38879445	38902342	-1	None	P72
22	DDX17	ENSG00000100201	ENST00000431312	retained_intron	KNOWN	None	2740	None	None	38881682	38884966	-1	None	P72
22	DDX17	ENSG00000100201	ENST00000216019	retained_intron	KNOWN	None	2740	None	None	38881686	38902299	-1	None	P72
22	DDX17	ENSG00000100201	ENST00000403230	protein_coding	KNOWN	CCDS33646	2740	2190	729	38881883	38902317	-1	None	P72
22	DDX17	ENSG00000100201	ENST00000475004	processed_transcript	KNOWN	None	2740	None	None	38885182	38889776	-1	None	P72
22	DDX17	ENSG00000100201	ENST00000432525	processed_transcript	KNOWN	None	2740	None	None	38886318	38903665	-1	None	P72
22	DDX17	ENSG00000100201	ENST00000497196	retained_intron	KNOWN	None	2740	None	None	38889366	38891051	-1	None	P72
22	DDX17	ENSG00000100201	ENST00000477112	retained_intron	KNOWN	None	2740	None	None	38890315	38891051	-1	None	P72
22	DDX17	ENSG00000100201	ENST00000467279	processed_transcript	KNOWN	None	2740	None	None	38894558	38901906	-1	None	P72
22	DDX17	ENSG00000100201	ENST00000479734	processed_transcript	KNOWN	None	2740	None	None	38901170	38902311	-1	None	P72
22	DDX17	ENSG00000100201	ENST00000381633	protein_coding	KNOWN	None	2740	1959	652	38879469	38902345	-1	None	P72
22	DDX17	ENSG00000100201	ENST00000444597	protein_coding	KNOWN	None	2740	546	181	38879469	38884535	-1	None	P72
13	RNA5SP32	ENSG00000200037	ENST00000363167	rRNA	KNOWN	None	42608	None	None	72552226	72552344	1	RN5S32	None
18	None	ENSG00000263797	ENST00000583659	antisense	KNOWN	None	None	None	None	6873398	6875023	-1	None	None
13	None	ENSG00000212377	ENST00000391075	snoRNA	NOVEL	None	None	None	None	73028040	73028105	-1	None	None
8	FABP5	ENSG00000164687	ENST00000297258	protein_coding	KNOWN	CCDS6228	3560	408	135	82192598	82197012	1	None	E-FABP, PA-FABP, KFABP
8	FABP5	ENSG00000164687	ENST00000396359	protein_coding	PUTATIVE	None	3560	306	101	82193102	82197012	1	None	E-FABP, PA-FABP, KFABP
8	FABP5	ENSG00000164687	ENST00000486269	retained_intron	KNOWN	None	3560	None	None	82195263	82196175	1	None	E-FABP, PA-FABP, KFABP
8	FABP5	ENSG00000164687	ENST00000481695	retained_intron	KNOWN	None	3560	None	None	82195561	82196650	1	None	E-FABP, PA-FABP, KFABP
10	NPY4R	ENSG00000204174	ENST00000395716	protein_coding	KNOWN	CCDS31193	9329	1128	375	47085664	47088320	1	PPYR1	Y4, PP1
10	NPY4R	ENSG00000204174	ENST00000374312	protein_coding	KNOWN	CCDS31193	9329	1128	375	47083534	47088320	1	PPYR1	Y4, PP1
13	RPL18AP17	ENSG00000227952	ENST00000455326	processed_pseudogene	KNOWN	None	39850	None	None	73034270	73034467	-1	None	None
X	None	ENSG00000249358	ENST00000509780	processed_transcript	PUTATIVE	None	None	None	None	1746639	1755356	1	None	None
18	LINC00668	ENSG00000265933	ENST00000581725	lincRNA	KNOWN	None	44328	None	None	6919495	6929804	-1	None	None
18	LINC00668	ENSG00000265933	ENST00000578278	lincRNA	KNOWN	None	44328	None	None	6925476	6926989	-1	None	None
18	LINC00668	ENSG00000265933	ENST00000581571	lincRNA	KNOWN	None	44328	None	None	6925476	6929868	-1	None	None
18	LINC00668	ENSG00000265933	ENST00000580197	lincRNA	KNOWN	None	44328	None	None	6925477	6928571	-1	None	None
18	LINC00668	ENSG00000265933	ENST00000578497	lincRNA	KNOWN	None	44328	None	None	6927305	6929961	-1	None	None
18	LINC00668	ENSG00000265933	ENST00000583316	lincRNA	KNOWN	None	44328	None	None	6927307	6929804	-1	None	None
18	LINC00668	ENSG00000265933	ENST00000579012	lincRNA	KNOWN	None	44328	None	None	6928348	6929965	-1	None	None
18	LINC00668	ENSG00000265933	ENST00000583840	lincRNA	KNOWN	None	44328	None	None	6929250	6929835	-1	None	None
HSCHR2_1_CTG12	ABCB11	ENSG00000263298	ENST00000576612	protein_coding	KNOWN	None	42	3966	1321	169796437	169904821	-1	BSEP, PFIC2	ABC16, SPGP, PFIC-2, PGY4
HSCHR2_1_CTG12	ABCB11	ENSG00000263298	ENST00000572076	nonsense_mediated_decay	KNOWN	None	42	219	72	169796882	169845531	-1	BSEP, PFIC2	ABC16, SPGP, PFIC-2, PGY4
HSCHR2_1_CTG12	ABCB11	ENSG00000263298	ENST00000574862	retained_intron	KNOWN	None	42	None	None	169843022	169844090	-1	BSEP, PFIC2	ABC16, SPGP, PFIC-2, PGY4
22	RFPL2	ENSG00000128253	ENST00000400237	protein_coding	KNOWN	CCDS43009	9979	1137	378	32586425	32599464	-1	None	RNF79
22	RFPL2	ENSG00000128253	ENST00000489846	processed_transcript	PUTATIVE	None	9979	None	None	32586691	32589388	-1	None	RNF79
22	RFPL2	ENSG00000128253	ENST00000248980	protein_coding	KNOWN	CCDS46694	9979	954	317	32586422	32589466	-1	None	RNF79
22	RFPL2	ENSG00000128253	ENST00000248983	protein_coding	KNOWN	CCDS54521	9979	867	288	32586422	32600718	-1	None	RNF79
22	RFPL2	ENSG00000128253	ENST00000400236	protein_coding	KNOWN	CCDS54521	9979	867	288	32586422	32599464	-1	None	RNF79
GL000196.1	None	ENSG00000266316	ENST00000578546	miRNA	NOVEL	None	None	None	None	24523	24637	-1	None	None
HG75_PATCH	None	ENSG00000261545	ENST00000562223	processed_pseudogene	KNOWN	None	None	None	None	34561825	34561930	-1	None	None
15	None	ENSG00000230856	ENST00000458160	processed_pseudogene	KNOWN	None	None	None	None	23157871	23158157	-1	None	None
HSCHR6_MHC_MCF	HLA-DPB1	ENSG00000230763	ENST00000425130	protein_coding	KNOWN	None	4940	777	258	33077161	33088426	1	HLA-DP1B	None
HSCHR6_MHC_MCF	HLA-DPB1	ENSG00000230763	ENST00000411558	protein_coding	KNOWN	None	4940	687	228	33077207	33088426	1	HLA-DP1B	None
HSCHR6_MHC_MCF	HLA-DPB1	ENSG00000230763	ENST00000487219	retained_intron	KNOWN	None	4940	None	None	33077245	33082473	1	HLA-DP1B	None
HSCHR6_MHC_MCF	HLA-DPB1	ENSG00000230763	ENST00000481615	processed_transcript	KNOWN	None	4940	None	None	33081627	33085253	1	HLA-DP1B	None
HSCHR6_MHC_MCF	HLA-DPB1	ENSG00000230763	ENST00000491374	processed_transcript	KNOWN	None	4940	None	None	33081627	33086182	1	HLA-DP1B	None
HSCHR6_MHC_MCF	HLA-DPB1	ENSG00000230763	ENST00000494240	processed_transcript	KNOWN	None	4940	None	None	33081684	33086456	1	HLA-DP1B	None
HSCHR6_MHC_MCF	HLA-DPB1	ENSG00000230763	ENST00000445702	protein_coding	KNOWN	None	4940	688	228	33081728	33087114	1	HLA-DP1B	None
HSCHR6_MHC_MCF	HLA-DPB1	ENSG00000230763	ENST00000455122	protein_coding	KNOWN	None	4940	707	234	33081913	33088426	1	HLA-DP1B	None
HSCHR6_MHC_MCF	HLA-DPB1	ENSG00000230763	ENST00000493369	processed_transcript	KNOWN	None	4940	None	None	33082182	33085131	1	HLA-DP1B	None
HSCHR6_MHC_MCF	HLA-DPB1	ENSG00000230763	ENST00000553195	protein_coding	KNOWN	None	4940	198	65	33081915	33087994	1	HLA-DP1B	None
15	None	ENSG00000259174	ENST00000559896	processed_pseudogene	KNOWN	None	None	None	None	23181938	23182642	1	None	None
X	None	ENSG00000252069	ENST00000516260	misc_RNA	NOVEL	None	None	None	None	108987872	108987978	-1	None	None
HSCHR6_MHC_DBB	DDX39B-AS1	ENSG00000236019	ENST00000429221	processed_transcript	PUTATIVE	None	39771	None	None	31492262	31493085	1	None	None
HSCHR6_MHC_DBB	DDX39B-AS1	ENSG00000236019	ENST00000453815	processed_transcript	PUTATIVE	None	39771	None	None	31492331	31493096	1	None	None
20	RALGAPA2	ENSG00000188559	ENST00000417022	protein_coding	KNOWN	None	16207	912	303	20370196	20493302	-1	C20orf74	dJ1049G11.4, AS250, KIAA1272, RapGAPalpha2
20	RALGAPA2	ENSG00000188559	ENST00000430436	protein_coding	KNOWN	None	16207	5222	1739	20370196	20620544	-1	C20orf74	dJ1049G11.4, AS250, KIAA1272, RapGAPalpha2
20	RALGAPA2	ENSG00000188559	ENST00000427175	protein_coding	KNOWN	None	16207	752	249	20452081	20493244	-1	C20orf74	dJ1049G11.4, AS250, KIAA1272, RapGAPalpha2
20	RALGAPA2	ENSG00000188559	ENST00000495793	processed_transcript	KNOWN	None	16207	None	None	20579428	20586056	-1	C20orf74	dJ1049G11.4, AS250, KIAA1272, RapGAPalpha2
20	RALGAPA2	ENSG00000188559	ENST00000432524	protein_coding	KNOWN	None	16207	681	226	20610113	20621448	-1	C20orf74	dJ1049G11.4, AS250, KIAA1272, RapGAPalpha2
20	RALGAPA2	ENSG00000188559	ENST00000424981	protein_coding	KNOWN	None	16207	603	200	20615995	20621450	-1	C20orf74	dJ1049G11.4, AS250, KIAA1272, RapGAPalpha2
20	RALGAPA2	ENSG00000188559	ENST00000438161	protein_coding	KNOWN	None	16207	851	282	20616216	20693131	-1	C20orf74	dJ1049G11.4, AS250, KIAA1272, RapGAPalpha2
20	RALGAPA2	ENSG00000188559	ENST00000202677	protein_coding	KNOWN	CCDS46584	16207	5622	1873	20373411	20693266	-1	C20orf74	dJ1049G11.4, AS250, KIAA1272, RapGAPalpha2
HSCHR6_MHC_DBB	UQCRHP1	ENSG00000232683	ENST00000416317	processed_pseudogene	KNOWN	None	31341	None	None	31561042	31561315	-1	UQCRHP5	Em:AF129756.18
13	None	ENSG00000251715	ENST00000515906	snoRNA	NOVEL	None	None	None	None	73034657	73034739	-1	None	None
13	None	ENSG00000199282	ENST00000362412	snoRNA	NOVEL	None	None	None	None	73160818	73160948	1	None	None
14	None	ENSG00000251002	ENST00000514473	antisense	KNOWN	None	None	None	None	22849083	22951948	-1	None	None
14	None	ENSG00000251002	ENST00000545498	lincRNA	KNOWN	None	None	None	None	22849897	22851572	-1	None	None
14	None	ENSG00000251002	ENST00000541008	antisense	KNOWN	None	None	None	None	22849969	22901731	-1	None	None
14	None	ENSG00000251002	ENST00000545670	antisense	KNOWN	None	None	None	None	22850513	22901731	-1	None	None
14	None	ENSG00000251002	ENST00000535351	antisense	KNOWN	None	None	None	None	22850773	22901719	-1	None	None
14	None	ENSG00000251002	ENST00000537850	antisense	KNOWN	None	None	None	None	22887345	22901731	-1	None	None
14	None	ENSG00000251002	ENST00000556777	antisense	KNOWN	None	None	None	None	22931900	22950278	-1	None	None
HSCHR6_MHC_DBB	None	ENSG00000266004	ENST00000583823	snoRNA	NOVEL	None	None	None	None	31573034	31573165	1	None	None
13	RPL21P110	ENSG00000226617	ENST00000433345	processed_pseudogene	KNOWN	None	35627	None	None	73277831	73278276	1	None	None
HG7_PATCH	None	ENSG00000260736	ENST00000567315	protein_coding	KNOWN	None	None	726	241	141951963	141957878	-1	None	None
HG7_PATCH	None	ENSG00000260736	ENST00000566852	protein_coding	KNOWN	None	None	726	241	141951964	141957847	-1	None	None
HSCHR6_MHC_DBB	C6orf47-AS1	ENSG00000227665	ENST00000455151	processed_transcript	PUTATIVE	None	39767	None	None	31608288	31610680	1	None	None
13	KPNA3	ENSG00000102753	ENST00000261667	protein_coding	KNOWN	CCDS9421	6396	1566	521	50273447	50367057	-1	None	SRP1gamma, SRP4, hSRP1, IPOA4
13	KPNA3	ENSG00000102753	ENST00000436760	protein_coding	PUTATIVE	None	6396	275	90	50275346	50279888	-1	None	SRP1gamma, SRP4, hSRP1, IPOA4
13	RNU6-80P	ENSG00000206922	ENST00000384195	snRNA	KNOWN	None	42570	None	None	73280155	73280261	-1	RNU6-80	None
21	None	ENSG00000224427	ENST00000444036	processed_pseudogene	KNOWN	None	None	None	None	34213806	34214121	-1	None	None
HSCHR6_MHC_COX	C6orf48	ENSG00000226710	ENST00000444974	protein_coding	KNOWN	None	19078	228	75	31789757	31794907	1	None	D6S57, G8
HSCHR6_MHC_COX	C6orf48	ENSG00000226710	ENST00000439865	protein_coding	KNOWN	None	19078	228	75	31789776	31794907	1	None	D6S57, G8
HSCHR6_MHC_COX	C6orf48	ENSG00000226710	ENST00000413638	protein_coding	KNOWN	None	19078	228	75	31790057	31794907	1	None	D6S57, G8
HSCHR6_MHC_COX	C6orf48	ENSG00000226710	ENST00000423640	protein_coding	KNOWN	None	19078	228	75	31790057	31794907	1	None	D6S57, G8
HSCHR6_MHC_COX	C6orf48	ENSG00000226710	ENST00000444192	protein_coding	KNOWN	None	19078	228	75	31790057	31794907	1	None	D6S57, G8
HSCHR6_MHC_COX	C6orf48	ENSG00000226710	ENST00000440361	protein_coding	KNOWN	None	19078	228	75	31790067	31794907	1	None	D6S57, G8
HSCHR6_MHC_COX	C6orf48	ENSG00000226710	ENST00000443974	protein_coding	KNOWN	None	19078	228	75	31790081	31794907	1	None	D6S57, G8
HSCHR6_MHC_COX	C6orf48	ENSG00000226710	ENST00000416886	protein_coding	KNOWN	None	19078	228	75	31790434	31794907	1	None	D6S57, G8
HSCHR6_MHC_COX	C6orf48	ENSG00000226710	ENST00000436205	protein_coding	KNOWN	None	19078	228	75	31791990	31794910	1	None	D6S57, G8
HSCHR6_MHC_COX	C6orf48	ENSG00000226710	ENST00000551797	protein_coding	KNOWN	None	19078	378	125	31790065	31794903	1	None	D6S57, G8
HSCHR6_MHC_COX	C6orf48	ENSG00000226710	ENST00000552514	protein_coding	KNOWN	None	19078	297	98	31790065	31794903	1	None	D6S57, G8
13	None	ENSG00000220981	ENST00000408054	miRNA	NOVEL	None	None	None	None	73425226	73425307	1	None	None
13	RNU6-79P	ENSG00000199381	ENST00000362511	snRNA	KNOWN	None	42569	None	None	73455246	73455352	-1	RNU6-79	None
21	None	ENSG00000207098	ENST00000384370	snoRNA	NOVEL	None	None	None	None	34214171	34214305	-1	None	None
21	None	ENSG00000232360	ENST00000427911	antisense	KNOWN	None	None	None	None	34216677	34222244	-1	None	None
13	PSMD10P3	ENSG00000232041	ENST00000437000	processed_pseudogene	KNOWN	None	30152	None	None	73610539	73610986	1	None	None
21	None	ENSG00000227757	ENST00000454622	antisense	KNOWN	None	None	None	None	34285957	34443410	-1	None	None
21	None	ENSG00000227757	ENST00000420356	antisense	KNOWN	None	None	None	None	34285957	34443410	-1	None	None
HG75_PATCH	None	ENSG00000261032	ENST00000567184	processed_pseudogene	KNOWN	None	None	None	None	34569075	34569182	1	None	None
13	FABP5P1	ENSG00000236972	ENST00000423401	processed_pseudogene	KNOWN	None	31059	None	None	73674713	73675123	-1	FABP5L1	FABP5
13	FABP5P1	ENSG00000236972	ENST00000420287	processed_pseudogene	KNOWN	None	31059	None	None	73674716	73675123	-1	FABP5L1	FABP5
15	POLR2M	ENSG00000255529	ENST00000299638	protein_coding	KNOWN	CCDS32252	14862	1107	368	57998827	58009755	1	GRINL1A	Gdown, Gdown1, GCOM1
15	POLR2M	ENSG00000255529	ENST00000494490	nonsense_mediated_decay	KNOWN	None	14862	117	38	57998893	58007080	1	GRINL1A	Gdown, Gdown1, GCOM1
15	POLR2M	ENSG00000255529	ENST00000464277	nonsense_mediated_decay	KNOWN	None	14862	117	38	57998901	58001382	1	GRINL1A	Gdown, Gdown1, GCOM1
15	POLR2M	ENSG00000255529	ENST00000482852	nonsense_mediated_decay	KNOWN	None	14862	1092	363	57998910	58074960	1	GRINL1A	Gdown, Gdown1, GCOM1
15	POLR2M	ENSG00000255529	ENST00000567643	nonsense_mediated_decay	KNOWN	None	14862	177	58	57998912	58001160	1	GRINL1A	Gdown, Gdown1, GCOM1
15	POLR2M	ENSG00000255529	ENST00000380557	protein_coding	KNOWN	CCDS42045	14862	636	211	57998923	58009752	1	GRINL1A	Gdown, Gdown1, GCOM1
15	POLR2M	ENSG00000255529	ENST00000464308	processed_transcript	KNOWN	None	14862	None	None	57999286	58001531	1	GRINL1A	Gdown, Gdown1, GCOM1
15	POLR2M	ENSG00000255529	ENST00000562260	processed_transcript	KNOWN	None	14862	None	None	58038305	58043672	1	GRINL1A	Gdown, Gdown1, GCOM1
15	POLR2M	ENSG00000255529	ENST00000380563	protein_coding	KNOWN	None	14862	1092	363	57884231	58027793	1	GRINL1A	Gdown, Gdown1, GCOM1
HG75_PATCH	None	ENSG00000261499	ENST00000569955	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	34601602	34647923	1	None	None
X	FCF1P9	ENSG00000231478	ENST00000412546	transcribed_processed_pseudogene	KNOWN	None	44621	None	None	85736535	85736816	1	None	None
20	None	ENSG00000268457	ENST00000597287	protein_coding	NOVEL	None	None	51	16	30309001	30309134	1	None	None
15	ITGA11	ENSG00000137809	ENST00000423218	protein_coding	NOVEL	None	6136	3570	1189	68594050	68724501	-1	None	HsT18964
15	ITGA11	ENSG00000137809	ENST00000569346	retained_intron	KNOWN	None	6136	None	None	68623416	68628438	-1	None	HsT18964
15	ITGA11	ENSG00000137809	ENST00000566429	processed_transcript	KNOWN	None	6136	None	None	68624289	68633181	-1	None	HsT18964
15	ITGA11	ENSG00000137809	ENST00000562826	processed_transcript	KNOWN	None	6136	None	None	68643594	68657860	-1	None	HsT18964
15	ITGA11	ENSG00000137809	ENST00000565868	retained_intron	KNOWN	None	6136	None	None	68649417	68653979	-1	None	HsT18964
15	ITGA11	ENSG00000137809	ENST00000568677	retained_intron	KNOWN	None	6136	None	None	68649483	68654295	-1	None	HsT18964
15	ITGA11	ENSG00000137809	ENST00000315757	protein_coding	KNOWN	CCDS45291	6136	3567	1188	68594050	68724492	-1	None	HsT18964
X	RNU6-722P	ENSG00000223309	ENST00000411377	snRNA	KNOWN	None	47685	None	None	48816440	48816543	-1	None	None
X	RN7SL139P	ENSG00000264065	ENST00000584238	misc_RNA	KNOWN	None	46155	None	None	48863969	48864276	-1	None	None
HG75_PATCH	None	ENSG00000265889	ENST00000476024	misc_RNA	NOVEL	None	None	None	None	34612688	34612789	1	None	None
X	RNU4-52P	ENSG00000206936	ENST00000384209	snRNA	KNOWN	None	46988	None	None	48939686	48939823	1	None	None
14	IGHV4-4	ENSG00000211936	ENST00000390596	IG_V_gene	KNOWN	None	5652	348	115	106478110	106478603	-1	None	None
X	RN7SL262P	ENSG00000265033	ENST00000584590	misc_RNA	KNOWN	None	46278	None	None	49008986	49009277	1	None	None
13	DNAJC3	ENSG00000102580	ENST00000602402	protein_coding	KNOWN	CCDS9479	9439	1515	504	96329393	96447243	1	PRKRI	P58, P58IPK, HP58
13	DNAJC3	ENSG00000102580	ENST00000376795	protein_coding	NOVEL	None	9439	1362	453	96329412	96444097	1	PRKRI	P58, P58IPK, HP58
X	None	ENSG00000271290	ENST00000603834	processed_pseudogene	KNOWN	None	None	None	None	86053601	86054229	-1	None	None
X	None	ENSG00000236190	ENST00000440037	processed_pseudogene	KNOWN	None	None	None	None	86143589	86143819	1	None	None
X	None	ENSG00000223511	ENST00000427886	lincRNA	KNOWN	None	None	None	None	1851477	1860881	1	None	None
X	None	ENSG00000223511	ENST00000432272	lincRNA	KNOWN	None	None	None	None	1853010	1874878	1	None	None
HG75_PATCH	None	ENSG00000261099	ENST00000569671	processed_transcript	KNOWN	None	None	None	None	34624739	34654989	1	None	None
HSCHR6_MHC_APD	ZFP57	ENSG00000227858	ENST00000432222	protein_coding	KNOWN	None	18791	634	210	29640388	29641038	-1	C6orf40	ZNF698, bA145L22, bA145L22.2
10	BICC1	ENSG00000122870	ENST00000373886	protein_coding	KNOWN	CCDS31206	19351	2925	974	60272900	60591195	1	None	None
10	BICC1	ENSG00000122870	ENST00000476684	processed_transcript	KNOWN	None	19351	None	None	60380609	60410627	1	None	None
10	BICC1	ENSG00000122870	ENST00000263103	protein_coding	KNOWN	None	19351	1521	506	60553295	60574074	1	None	None
14	IGHV2-5	ENSG00000211937	ENST00000390597	IG_V_gene	KNOWN	None	5576	357	118	106494135	106494597	-1	None	None
22	CYTH4	ENSG00000100055	ENST00000457992	protein_coding	KNOWN	None	9505	353	116	37678068	37693723	1	PSCD4	CYT4
22	CYTH4	ENSG00000100055	ENST00000248901	protein_coding	KNOWN	CCDS13946	9505	1185	394	37678424	37711382	1	PSCD4	CYT4
22	CYTH4	ENSG00000100055	ENST00000402997	protein_coding	PUTATIVE	None	9505	465	154	37678516	37696214	1	PSCD4	CYT4
22	CYTH4	ENSG00000100055	ENST00000405206	protein_coding	PUTATIVE	None	9505	474	157	37678528	37696312	1	PSCD4	CYT4
22	CYTH4	ENSG00000100055	ENST00000469886	retained_intron	KNOWN	None	9505	None	None	37678556	37694443	1	PSCD4	CYT4
22	CYTH4	ENSG00000100055	ENST00000462927	retained_intron	KNOWN	None	9505	None	None	37678566	37711382	1	PSCD4	CYT4
22	CYTH4	ENSG00000100055	ENST00000480510	retained_intron	KNOWN	None	9505	None	None	37678568	37692644	1	PSCD4	CYT4
22	CYTH4	ENSG00000100055	ENST00000439667	processed_transcript	KNOWN	None	9505	None	None	37678572	37698060	1	PSCD4	CYT4
22	CYTH4	ENSG00000100055	ENST00000467664	retained_intron	KNOWN	None	9505	None	None	37688185	37690733	1	PSCD4	CYT4
22	CYTH4	ENSG00000100055	ENST00000447919	processed_transcript	KNOWN	None	9505	None	None	37696923	37699336	1	PSCD4	CYT4
22	CYTH4	ENSG00000100055	ENST00000446506	protein_coding	KNOWN	None	9505	442	146	37706009	37709679	1	PSCD4	CYT4
14	GSTZ1	ENSG00000100577	ENST00000216465	protein_coding	KNOWN	CCDS9858	4643	651	216	77787227	77797940	1	None	GSTZ1-1, MAAI, MAI
14	GSTZ1	ENSG00000100577	ENST00000361389	protein_coding	KNOWN	CCDS9860	4643	486	161	77787339	77797538	1	None	GSTZ1-1, MAAI, MAI
14	GSTZ1	ENSG00000100577	ENST00000553838	retained_intron	KNOWN	None	4643	None	None	77787342	77794641	1	None	GSTZ1-1, MAAI, MAI
14	GSTZ1	ENSG00000100577	ENST00000554279	protein_coding	NOVEL	None	4643	609	202	77787358	77797570	1	None	GSTZ1-1, MAAI, MAI
14	GSTZ1	ENSG00000100577	ENST00000557639	protein_coding	KNOWN	CCDS9860	4643	486	161	77787363	77797663	1	None	GSTZ1-1, MAAI, MAI
14	GSTZ1	ENSG00000100577	ENST00000349555	protein_coding	KNOWN	CCDS9859	4643	525	174	77787368	77797736	1	None	GSTZ1-1, MAAI, MAI
14	GSTZ1	ENSG00000100577	ENST00000553770	retained_intron	KNOWN	None	4643	None	None	77787375	77791623	1	None	GSTZ1-1, MAAI, MAI
14	GSTZ1	ENSG00000100577	ENST00000553431	retained_intron	KNOWN	None	4643	None	None	77787381	77795840	1	None	GSTZ1-1, MAAI, MAI
14	GSTZ1	ENSG00000100577	ENST00000556627	protein_coding	NOVEL	None	4643	570	189	77787381	77797756	1	None	GSTZ1-1, MAAI, MAI
14	GSTZ1	ENSG00000100577	ENST00000557053	protein_coding	NOVEL	None	4643	360	119	77787421	77797554	1	None	GSTZ1-1, MAAI, MAI
14	GSTZ1	ENSG00000100577	ENST00000553268	retained_intron	KNOWN	None	4643	None	None	77787437	77793589	1	None	GSTZ1-1, MAAI, MAI
14	GSTZ1	ENSG00000100577	ENST00000554846	protein_coding	KNOWN	None	4643	177	58	77787706	77794380	1	None	GSTZ1-1, MAAI, MAI
14	GSTZ1	ENSG00000100577	ENST00000556914	retained_intron	KNOWN	None	4643	None	None	77787812	77794129	1	None	GSTZ1-1, MAAI, MAI
14	GSTZ1	ENSG00000100577	ENST00000555093	retained_intron	KNOWN	None	4643	None	None	77789065	77797835	1	None	GSTZ1-1, MAAI, MAI
14	GSTZ1	ENSG00000100577	ENST00000553586	protein_coding	PUTATIVE	None	4643	654	217	77790912	77797827	1	None	GSTZ1-1, MAAI, MAI
14	GSTZ1	ENSG00000100577	ENST00000555583	protein_coding	KNOWN	None	4643	114	37	77790913	77794317	1	None	GSTZ1-1, MAAI, MAI
14	GSTZ1	ENSG00000100577	ENST00000554381	nonsense_mediated_decay	KNOWN	None	4643	213	70	77794333	77797831	1	None	GSTZ1-1, MAAI, MAI
14	GSTZ1	ENSG00000100577	ENST00000555208	retained_intron	KNOWN	None	4643	None	None	77794783	77797829	1	None	GSTZ1-1, MAAI, MAI
14	GSTZ1	ENSG00000100577	ENST00000393734	protein_coding	KNOWN	CCDS9860	4643	486	161	77787706	77797939	1	None	GSTZ1-1, MAAI, MAI
X	None	ENSG00000271457	ENST00000603497	processed_pseudogene	KNOWN	None	None	None	None	86398857	86399751	-1	None	None
HG7_PATCH	TRBV2	ENSG00000260309	ENST00000563469	TR_V_gene	KNOWN	None	12195	248	81	142000747	142001255	1	None	TCRBV22S1A2N1T, TCRBV2S1
14	IGHV3-7	ENSG00000211938	ENST00000390598	IG_V_gene	KNOWN	None	5620	351	116	106518400	106518932	-1	None	None
21	None	ENSG00000228961	ENST00000424837	lincRNA	KNOWN	None	None	None	None	34331196	34332874	1	None	None
X	None	ENSG00000200422	ENST00000363552	snoRNA	NOVEL	None	None	None	None	86401736	86401807	1	None	None
18	LINC00305	ENSG00000179676	ENST00000323355	lincRNA	KNOWN	None	28597	None	None	61747243	61816264	-1	C18orf20, NCRNA00305	MGC39571, HsT1235
18	LINC00305	ENSG00000179676	ENST00000454647	lincRNA	KNOWN	None	28597	None	None	61747536	61765844	-1	C18orf20, NCRNA00305	MGC39571, HsT1235
18	LINC00305	ENSG00000179676	ENST00000456505	lincRNA	KNOWN	None	28597	None	None	61806687	61816108	-1	C18orf20, NCRNA00305	MGC39571, HsT1235
21	LINC00945	ENSG00000232539	ENST00000453716	lincRNA	KNOWN	None	48643	None	None	34430135	34437289	1	None	TCONS_00028834
X	None	ENSG00000230478	ENST00000445880	processed_pseudogene	KNOWN	None	None	None	None	86680586	86680693	-1	None	None
21	None	ENSG00000226527	ENST00000421051	lincRNA	KNOWN	None	None	None	None	34484005	34496009	-1	None	None
14	IGHV1-8	ENSG00000211939	ENST00000390599	IG_V_gene	KNOWN	None	5559	351	116	106539079	106539577	-1	None	None
21	None	ENSG00000226433	ENST00000450830	antisense	KNOWN	None	None	None	None	34528938	34531416	1	None	None
18	None	ENSG00000267134	ENST00000589376	lincRNA	KNOWN	None	None	None	None	61771325	62090836	1	None	None
21	IL10RB-AS1	ENSG00000223799	ENST00000411998	processed_transcript	KNOWN	None	44303	None	None	34636178	34638565	-1	None	IFNAR2-AS1
X	None	ENSG00000264366	ENST00000582504	miRNA	NOVEL	None	None	None	None	86740882	86740963	-1	None	None
20	TPX2	ENSG00000088325	ENST00000300403	protein_coding	KNOWN	CCDS13190	1249	2244	747	30327074	30389608	1	C20orf2, C20orf1	p100, DIL-2
20	TPX2	ENSG00000088325	ENST00000340513	protein_coding	KNOWN	None	1249	2352	783	30327074	30389608	1	C20orf2, C20orf1	p100, DIL-2
X	RPSAP15	ENSG00000237506	ENST00000448168	processed_pseudogene	KNOWN	None	31464	None	None	86958343	86959203	-1	LAMR1P15	LAMRL5
X	RPSAP15	ENSG00000237506	ENST00000339991	processed_pseudogene	KNOWN	None	31464	None	None	86958277	86959307	-1	LAMR1P15	LAMRL5
18	None	ENSG00000236392	ENST00000417298	lincRNA	KNOWN	None	None	None	None	61814443	61826528	1	None	None
18	None	ENSG00000236392	ENST00000452004	lincRNA	KNOWN	None	None	None	None	61823449	61826533	1	None	None
HSCHR6_MHC_COX	CDSN	ENSG00000137197	ENST00000259726	protein_coding	KNOWN	None	1802	1587	528	31075367	31080724	-1	None	D6S586E
X	None	ENSG00000271205	ENST00000603584	processed_pseudogene	KNOWN	None	None	None	None	86978089	86978238	-1	None	None
21	USF1P1	ENSG00000226501	ENST00000451645	processed_pseudogene	KNOWN	None	23773	None	None	34706877	34707402	1	USF1P	None
18	None	ENSG00000266952	ENST00000588074	lincRNA	KNOWN	None	None	None	None	61880317	61927290	-1	None	None
14	IGHV3-9	ENSG00000211940	ENST00000390600	IG_V_gene	KNOWN	None	5628	354	117	106552285	106552809	-1	None	None
21	None	ENSG00000266892	ENST00000581654	miRNA	NOVEL	None	None	None	None	34836773	34836865	1	None	None
X	RPS5P7	ENSG00000225381	ENST00000456664	processed_pseudogene	KNOWN	None	36881	None	None	109096541	109097148	1	None	None
21	RPS5P3	ENSG00000215088	ENST00000414617	processed_pseudogene	KNOWN	None	10427	None	None	34853887	34854502	-1	RPS5L	None
18	RNU7-146P	ENSG00000252818	ENST00000517009	snRNA	KNOWN	None	45680	None	None	62216690	62216742	-1	None	None
X	None	ENSG00000270446	ENST00000605349	processed_pseudogene	KNOWN	None	None	None	None	87061433	87061769	-1	None	None
18	None	ENSG00000263863	ENST00000581632	lincRNA	KNOWN	None	None	None	None	62773109	62792946	-1	None	None
4	ADH6	ENSG00000172955	ENST00000394897	protein_coding	NOVEL	None	255	888	295	100123795	100140392	-1	None	ADH-5
4	ADH6	ENSG00000172955	ENST00000394899	protein_coding	KNOWN	CCDS43255	255	1128	375	100123796	100140403	-1	None	ADH-5
4	ADH6	ENSG00000172955	ENST00000512708	nonsense_mediated_decay	KNOWN	None	255	207	68	100125176	100129971	-1	None	ADH-5
4	ADH6	ENSG00000172955	ENST00000507484	nonsense_mediated_decay	KNOWN	None	255	177	58	100125176	100140331	-1	None	ADH-5
4	ADH6	ENSG00000172955	ENST00000237653	protein_coding	KNOWN	CCDS3647	255	1107	368	100125879	100140694	-1	None	ADH-5
4	ADH6	ENSG00000172955	ENST00000508558	protein_coding	PUTATIVE	None	255	772	256	100128603	100140400	-1	None	ADH-5
4	ADH6	ENSG00000172955	ENST00000504257	processed_transcript	PUTATIVE	None	255	None	None	100129565	100131448	-1	None	ADH-5
4	ADH6	ENSG00000172955	ENST00000513262	processed_transcript	PUTATIVE	None	255	None	None	100136952	100140403	-1	None	ADH-5
4	ADH6	ENSG00000172955	ENST00000407820	protein_coding	KNOWN	None	255	501	166	100125176	100140331	-1	None	ADH-5
21	None	ENSG00000231355	ENST00000450928	antisense	KNOWN	None	None	None	None	34854806	34856565	-1	None	None
X	None	ENSG00000271056	ENST00000604173	processed_pseudogene	KNOWN	None	None	None	None	87062549	87064883	-1	None	None
18	None	ENSG00000264131	ENST00000578545	lincRNA	KNOWN	None	None	None	None	62853395	62854254	1	None	None
GL000228.1	None	ENSG00000255619	ENST00000400869	pseudogene	NOVEL	None	None	None	None	112299	113921	1	None	None
21	BTF3P6	ENSG00000233956	ENST00000448054	processed_pseudogene	KNOWN	None	23765	None	None	34890917	34891415	-1	None	None
15	WHAMMP3	ENSG00000187667	ENST00000400153	processed_transcript	KNOWN	None	27892	None	None	23187728	23208417	-1	WHDC1L1, WHAMML1	None
15	WHAMMP3	ENSG00000187667	ENST00000558484	retained_intron	KNOWN	None	27892	None	None	23191211	23192002	-1	WHDC1L1, WHAMML1	None
15	WHAMMP3	ENSG00000187667	ENST00000340286	transcribed_unprocessed_pseudogene	KNOWN	None	27892	None	None	23191491	23208737	-1	WHDC1L1, WHAMML1	None
15	WHAMMP3	ENSG00000187667	ENST00000560810	retained_intron	KNOWN	None	27892	None	None	23197978	23207968	-1	WHDC1L1, WHAMML1	None
9	C9orf92	ENSG00000205549	ENST00000380685	protein_coding	KNOWN	None	19054	234	77	16203933	16276311	-1	None	Em:AL513424.1
9	C9orf92	ENSG00000205549	ENST00000380683	protein_coding	KNOWN	None	19054	327	108	16203945	16253112	-1	None	Em:AL513424.1
9	C9orf92	ENSG00000205549	ENST00000433347	protein_coding	KNOWN	None	19054	219	72	16203946	16215897	-1	None	Em:AL513424.1
18	None	ENSG00000264232	ENST00000582028	lincRNA	KNOWN	None	None	None	None	63091249	63114748	1	None	None
14	IGHV3-11	ENSG00000211941	ENST00000390601	IG_V_gene	KNOWN	None	5580	351	116	106573233	106573800	-1	None	None
18	None	ENSG00000265217	ENST00000579862	lincRNA	KNOWN	None	None	None	None	63273326	63319289	1	None	None
18	None	ENSG00000263720	ENST00000581987	sense_intronic	KNOWN	None	None	None	None	63532498	63533633	1	None	None
18	None	ENSG00000263622	ENST00000578673	lincRNA	KNOWN	None	None	None	None	63585018	63588178	-1	None	None
X	MIR652	ENSG00000208013	ENST00000385278	miRNA	KNOWN	None	32908	None	None	109298557	109298654	1	MIRN652	hsa-mir-652
18	PRPF19P1	ENSG00000264685	ENST00000584766	processed_pseudogene	KNOWN	None	23182	None	None	63735986	63736883	-1	PRP19P, PRPF19P	HsT1682
X	MIR3978	ENSG00000265584	ENST00000585195	miRNA	KNOWN	None	41630	None	None	109325346	109325446	1	None	hsa-mir-3978
18	None	ENSG00000221536	ENST00000408609	miRNA	NOVEL	None	None	None	None	64320646	64320738	-1	None	None
18	RNU6-1037P	ENSG00000238680	ENST00000459571	snRNA	KNOWN	None	48000	None	None	64613353	64613459	1	None	None
10	ANXA8L1	ENSG00000150165	ENST00000358140	protein_coding	NOVEL	None	23334	831	276	47157983	47174093	-1	None	bA301J7.3
10	ANXA8L1	ENSG00000150165	ENST00000359178	protein_coding	KNOWN	CCDS41511	23334	984	327	47157989	47174040	-1	None	bA301J7.3
10	ANXA8L1	ENSG00000150165	ENST00000414655	protein_coding	KNOWN	None	23334	798	265	47158532	47173994	-1	None	bA301J7.3
10	ANXA8L1	ENSG00000150165	ENST00000545298	protein_coding	KNOWN	None	23334	426	141	47158531	47174001	-1	None	bA301J7.3
18	None	ENSG00000264409	ENST00000583185	miRNA	NOVEL	None	None	None	None	64710604	64710681	1	None	None
18	MIR5011	ENSG00000263354	ENST00000578054	miRNA	KNOWN	None	43496	None	None	64748821	64748923	1	None	hsa-mir-5011
9	BARX1	ENSG00000131668	ENST00000253968	protein_coding	KNOWN	CCDS35070	955	765	254	96713905	96717654	-1	None	None
9	BARX1	ENSG00000131668	ENST00000401724	protein_coding	KNOWN	None	955	303	100	96713909	96715713	-1	None	None
8	FAM90A3P	ENSG00000233132	ENST00000506444	unprocessed_pseudogene	KNOWN	None	32251	None	None	7122048	7125058	1	FAM90A3	None
8	FAM90A3P	ENSG00000233132	ENST00000545881	unprocessed_pseudogene	KNOWN	None	32251	None	None	7122048	7132680	1	FAM90A3	None
8	FAM90A3P	ENSG00000233132	ENST00000444103	unprocessed_pseudogene	KNOWN	None	32251	None	None	7122048	7125058	1	FAM90A3	None
18	RPL31P9	ENSG00000264054	ENST00000579952	processed_pseudogene	KNOWN	None	31893	None	None	64804848	64804988	-1	None	None
18	None	ENSG00000265580	ENST00000583172	miRNA	NOVEL	None	None	None	None	64963519	64963619	1	None	None
18	None	ENSG00000265936	ENST00000579213	processed_pseudogene	KNOWN	None	None	None	None	65042370	65042542	1	None	None
18	None	ENSG00000260578	ENST00000562669	lincRNA	KNOWN	None	None	None	None	65149028	65152203	-1	None	None
X	SNORD96B	ENSG00000208883	ENST00000386148	snoRNA	KNOWN	None	32759	None	None	109468213	109468291	-1	None	U96b
18	None	ENSG00000263424	ENST00000581951	antisense	KNOWN	None	None	None	None	65173826	65178533	1	None	None
18	None	ENSG00000263424	ENST00000583493	antisense	KNOWN	None	None	None	None	65173826	65181267	1	None	None
X	None	ENSG00000230706	ENST00000433554	processed_pseudogene	KNOWN	None	None	None	None	87316591	87317845	-1	None	None
18	None	ENSG00000265533	ENST00000583687	lincRNA	KNOWN	None	None	None	None	65183783	65566856	1	None	None
22	GNB1L	ENSG00000185838	ENST00000329517	protein_coding	KNOWN	CCDS13768	4397	984	327	19770747	19842462	-1	None	GY2, WDR14
22	GNB1L	ENSG00000185838	ENST00000403325	protein_coding	KNOWN	CCDS13768	4397	984	327	19775938	19842366	-1	None	GY2, WDR14
22	GNB1L	ENSG00000185838	ENST00000405009	protein_coding	KNOWN	None	4397	639	212	19775941	19842462	-1	None	GY2, WDR14
22	GNB1L	ENSG00000185838	ENST00000460402	processed_transcript	KNOWN	None	4397	None	None	19775987	19842329	-1	None	GY2, WDR14
22	GNB1L	ENSG00000185838	ENST00000481086	processed_transcript	PUTATIVE	None	4397	None	None	19789522	19842339	-1	None	GY2, WDR14
22	GNB1L	ENSG00000185838	ENST00000453108	protein_coding	NOVEL	None	4397	281	92	19799818	19842366	-1	None	GY2, WDR14
18	None	ENSG00000264040	ENST00000580252	processed_pseudogene	KNOWN	None	None	None	None	65269929	65270259	-1	None	None
X	SYP-AS1	ENSG00000237341	ENST00000433499	antisense	KNOWN	None	40571	None	None	49055425	49058913	1	None	None
18	None	ENSG00000263594	ENST00000578039	lincRNA	KNOWN	None	None	None	None	65339458	65343315	-1	None	None
18	None	ENSG00000265472	ENST00000577280	processed_pseudogene	KNOWN	None	None	None	None	65375166	65375483	-1	None	None
21	RUNX1	ENSG00000159216	ENST00000344691	protein_coding	KNOWN	CCDS42922	10471	1362	453	36160098	36260987	-1	AML1, CBFA2	PEBP2A2, AMLCR1
21	RUNX1	ENSG00000159216	ENST00000300305	protein_coding	KNOWN	CCDS13639	10471	1443	480	36160098	36421641	-1	AML1, CBFA2	PEBP2A2, AMLCR1
21	RUNX1	ENSG00000159216	ENST00000482318	processed_transcript	KNOWN	None	10471	None	None	36164052	36421585	-1	AML1, CBFA2	PEBP2A2, AMLCR1
21	RUNX1	ENSG00000159216	ENST00000399240	protein_coding	NOVEL	None	10471	1170	389	36164083	36259480	-1	AML1, CBFA2	PEBP2A2, AMLCR1
21	RUNX1	ENSG00000159216	ENST00000479325	processed_transcript	KNOWN	None	10471	None	None	36193576	36202267	-1	AML1, CBFA2	PEBP2A2, AMLCR1
21	RUNX1	ENSG00000159216	ENST00000358356	protein_coding	PUTATIVE	CCDS46646	10471	753	250	36193576	36260987	-1	AML1, CBFA2	PEBP2A2, AMLCR1
21	RUNX1	ENSG00000159216	ENST00000469087	retained_intron	KNOWN	None	10471	None	None	36205258	36228744	-1	AML1, CBFA2	PEBP2A2, AMLCR1
21	RUNX1	ENSG00000159216	ENST00000399237	protein_coding	PUTATIVE	None	10471	769	255	36206707	36262087	-1	AML1, CBFA2	PEBP2A2, AMLCR1
21	RUNX1	ENSG00000159216	ENST00000467577	processed_transcript	KNOWN	None	10471	None	None	36228586	36231875	-1	AML1, CBFA2	PEBP2A2, AMLCR1
21	RUNX1	ENSG00000159216	ENST00000455571	protein_coding	NOVEL	None	10471	420	139	36252903	36421595	-1	AML1, CBFA2	PEBP2A2, AMLCR1
21	RUNX1	ENSG00000159216	ENST00000475045	processed_transcript	KNOWN	None	10471	None	None	36259343	37357008	-1	AML1, CBFA2	PEBP2A2, AMLCR1
21	RUNX1	ENSG00000159216	ENST00000416754	protein_coding	KNOWN	None	10471	97	31	36265222	36421567	-1	AML1, CBFA2	PEBP2A2, AMLCR1
21	RUNX1	ENSG00000159216	ENST00000468726	processed_transcript	KNOWN	None	10471	None	None	36437013	36437369	-1	AML1, CBFA2	PEBP2A2, AMLCR1
21	RUNX1	ENSG00000159216	ENST00000467692	processed_transcript	KNOWN	None	10471	None	None	36744805	36953058	-1	AML1, CBFA2	PEBP2A2, AMLCR1
21	RUNX1	ENSG00000159216	ENST00000494829	processed_transcript	KNOWN	None	10471	None	None	36807959	36837627	-1	AML1, CBFA2	PEBP2A2, AMLCR1
21	RUNX1	ENSG00000159216	ENST00000460207	processed_transcript	KNOWN	None	10471	None	None	37326958	37357047	-1	AML1, CBFA2	PEBP2A2, AMLCR1
21	RUNX1	ENSG00000159216	ENST00000437180	protein_coding	KNOWN	CCDS13639	10471	1443	480	36160098	36421595	-1	AML1, CBFA2	PEBP2A2, AMLCR1
21	RUNX1	ENSG00000159216	ENST00000325074	protein_coding	KNOWN	None	10471	1407	468	36160098	36262034	-1	AML1, CBFA2	PEBP2A2, AMLCR1
21	RUNX1	ENSG00000159216	ENST00000486278	protein_coding	KNOWN	None	10471	576	191	36228710	36421462	-1	AML1, CBFA2	PEBP2A2, AMLCR1
14	GNPNAT1	ENSG00000100522	ENST00000216410	protein_coding	KNOWN	CCDS9712	19980	555	184	53241912	53258319	-1	None	Gpnat1, FLJ10607
14	GNPNAT1	ENSG00000100522	ENST00000554421	processed_transcript	PUTATIVE	None	19980	None	None	53242582	53243799	-1	None	Gpnat1, FLJ10607
14	GNPNAT1	ENSG00000100522	ENST00000554230	protein_coding	NOVEL	None	19980	342	113	53243275	53258228	-1	None	Gpnat1, FLJ10607
14	GNPNAT1	ENSG00000100522	ENST00000557604	protein_coding	KNOWN	None	19980	491	162	53245093	53258386	-1	None	Gpnat1, FLJ10607
14	GNPNAT1	ENSG00000100522	ENST00000553987	retained_intron	KNOWN	None	19980	None	None	53248459	53250203	-1	None	Gpnat1, FLJ10607
18	None	ENSG00000264104	ENST00000578727	processed_pseudogene	KNOWN	None	None	None	None	65455505	65458272	-1	None	None
4	CXXC4	ENSG00000168772	ENST00000394767	protein_coding	KNOWN	CCDS3665	24593	1104	367	105389469	105416051	-1	None	IDAX
4	CXXC4	ENSG00000168772	ENST00000466963	processed_transcript	KNOWN	None	24593	None	None	105390671	105416058	-1	None	IDAX
4	CXXC4	ENSG00000168772	ENST00000515509	processed_transcript	KNOWN	None	24593	None	None	105393332	105396415	-1	None	IDAX
4	CXXC4	ENSG00000168772	ENST00000426831	protein_coding	KNOWN	None	24593	597	198	105393345	105412467	-1	None	IDAX
X	None	ENSG00000266813	ENST00000583131	miRNA	NOVEL	None	None	None	None	49059702	49059788	-1	None	None
18	ALPK2	ENSG00000198796	ENST00000361673	protein_coding	KNOWN	CCDS11966	20565	6513	2170	56148479	56296189	-1	None	HAK
18	ALPK2	ENSG00000198796	ENST00000589204	retained_intron	KNOWN	None	20565	None	None	56195984	56204351	-1	None	HAK
18	ALPK2	ENSG00000198796	ENST00000587842	processed_transcript	KNOWN	None	20565	None	None	56205372	56246256	-1	None	HAK
18	ALPK2	ENSG00000198796	ENST00000587399	processed_transcript	KNOWN	None	20565	None	None	56211460	56246444	-1	None	HAK
18	ALPK2	ENSG00000198796	ENST00000590662	retained_intron	KNOWN	None	20565	None	None	56245176	56247401	-1	None	HAK
18	ALPK2	ENSG00000198796	ENST00000590642	processed_transcript	KNOWN	None	20565	None	None	56247492	56248205	-1	None	HAK
18	None	ENSG00000265555	ENST00000580659	lincRNA	KNOWN	None	None	None	None	65475742	65482059	-1	None	None
13	RNU6-66P	ENSG00000200267	ENST00000363397	snRNA	KNOWN	None	42556	None	None	73687052	73687155	-1	RNU6-66	None
13	None	ENSG00000265959	ENST00000581553	miRNA	NOVEL	None	None	None	None	73698849	73698947	-1	None	None
18	None	ENSG00000265240	ENST00000584299	processed_pseudogene	KNOWN	None	None	None	None	65497908	65499204	-1	None	None
X	HSPB1P2	ENSG00000230216	ENST00000448722	processed_pseudogene	KNOWN	None	5252	None	None	49090415	49090960	-1	HSPBL3	None
13	RNU4-10P	ENSG00000201253	ENST00000364383	snRNA	KNOWN	None	42508	None	None	73765665	73765804	1	None	None
18	None	ENSG00000264634	ENST00000580622	lincRNA	KNOWN	None	None	None	None	65608186	65623663	1	None	None
13	RNY1P8	ENSG00000206697	ENST00000383970	misc_RNA	KNOWN	None	42485	None	None	73801284	73801397	1	None	None
X	None	ENSG00000270012	ENST00000602455	lincRNA	KNOWN	None	None	None	None	49129517	49132231	1	None	None
13	MARK2P12	ENSG00000229708	ENST00000420129	processed_pseudogene	KNOWN	None	39803	None	None	73981905	73982489	-1	None	None
HSCHR6_MHC_DBB	ATF6B	ENSG00000168468	ENST00000293709	protein_coding	KNOWN	None	2349	2112	703	32058818	32071792	-1	CREBL1	G13
HSCHR6_MHC_DBB	ATF6B	ENSG00000168468	ENST00000383156	protein_coding	KNOWN	None	2349	2103	700	32058818	32071805	-1	CREBL1	G13
HSCHR6_MHC_DBB	ATF6B	ENSG00000168468	ENST00000413319	protein_coding	KNOWN	None	2349	425	140	32060262	32061445	-1	CREBL1	G13
HSCHR6_MHC_DBB	ATF6B	ENSG00000168468	ENST00000465333	retained_intron	KNOWN	None	2349	None	None	32062331	32063573	-1	CREBL1	G13
HSCHR6_MHC_DBB	ATF6B	ENSG00000168468	ENST00000491968	retained_intron	KNOWN	None	2349	None	None	32062385	32063974	-1	CREBL1	G13
HSCHR6_MHC_DBB	ATF6B	ENSG00000168468	ENST00000463669	retained_intron	KNOWN	None	2349	None	None	32063996	32071774	-1	CREBL1	G13
HSCHR6_MHC_DBB	ATF6B	ENSG00000168468	ENST00000465377	retained_intron	KNOWN	None	2349	None	None	32064063	32071319	-1	CREBL1	G13
HSCHR6_MHC_DBB	ATF6B	ENSG00000168468	ENST00000467437	processed_transcript	KNOWN	None	2349	None	None	32069594	32071770	-1	CREBL1	G13
HSCHR6_MHC_DBB	ATF6B	ENSG00000168468	ENST00000547111	protein_coding	KNOWN	None	2349	669	222	32041705	32071763	-1	CREBL1	G13
18	None	ENSG00000264869	ENST00000580057	lincRNA	KNOWN	None	None	None	None	65769353	65781614	1	None	None
X	AMMECR1-IT1	ENSG00000224142	ENST00000418848	sense_intronic	KNOWN	None	41306	None	None	109548648	109550449	-1	None	None
4	FRAS1	ENSG00000138759	ENST00000325942	protein_coding	NOVEL	CCDS54772	19185	5931	1976	78978724	79367712	1	None	FLJ22031, FLJ14927, KIAA1500
4	FRAS1	ENSG00000138759	ENST00000508909	nonsense_mediated_decay	KNOWN	None	19185	120	39	78978758	78993261	1	None	FLJ22031, FLJ14927, KIAA1500
4	FRAS1	ENSG00000138759	ENST00000502446	protein_coding	PUTATIVE	None	19185	2000	665	79166385	79240807	1	None	FLJ22031, FLJ14927, KIAA1500
4	FRAS1	ENSG00000138759	ENST00000508900	protein_coding	PUTATIVE	None	19185	1957	651	79176400	79259191	1	None	FLJ22031, FLJ14927, KIAA1500
4	FRAS1	ENSG00000138759	ENST00000510944	protein_coding	NOVEL	None	19185	1279	425	79340192	79367787	1	None	FLJ22031, FLJ14927, KIAA1500
4	FRAS1	ENSG00000138759	ENST00000512123	protein_coding	NOVEL	None	19185	6724	2240	79359822	79465423	1	None	FLJ22031, FLJ14927, KIAA1500
4	FRAS1	ENSG00000138759	ENST00000509802	retained_intron	KNOWN	None	19185	None	None	79369212	79371609	1	None	FLJ22031, FLJ14927, KIAA1500
4	FRAS1	ENSG00000138759	ENST00000264895	protein_coding	KNOWN	CCDS54771	19185	12039	4012	78978724	79462278	1	None	FLJ22031, FLJ14927, KIAA1500
4	FRAS1	ENSG00000138759	ENST00000264899	protein_coding	KNOWN	None	19185	2214	737	78978724	79240590	1	None	FLJ22031, FLJ14927, KIAA1500
13	LINC00393	ENSG00000224853	ENST00000443621	lincRNA	KNOWN	None	42721	None	None	73987610	74120978	-1	None	None
13	LINC00393	ENSG00000224853	ENST00000452852	lincRNA	KNOWN	None	42721	None	None	74120525	74222390	-1	None	None
X	TDGF1P3	ENSG00000225366	ENST00000602699	processed_transcript	KNOWN	None	11703	None	None	109763540	109766249	1	TDGF3	TDGF2, CR-3, CRIPTO-3, CRIPTO3
X	TDGF1P3	ENSG00000225366	ENST00000493351	transcribed_processed_pseudogene	KNOWN	None	11703	None	None	109764358	109764924	1	TDGF3	TDGF2, CR-3, CRIPTO-3, CRIPTO3
18	None	ENSG00000264699	ENST00000581844	lincRNA	KNOWN	None	None	None	None	65925576	65932064	-1	None	None
18	None	ENSG00000260747	ENST00000567372	processed_pseudogene	KNOWN	None	None	None	None	65945039	65945480	-1	None	None
15	RN7SL495P	ENSG00000244736	ENST00000461817	misc_RNA	KNOWN	None	46511	None	None	23263708	23263986	1	None	None
15	None	ENSG00000239124	ENST00000459619	miRNA	NOVEL	None	None	None	None	23264866	23264948	1	None	None
18	None	ENSG00000265425	ENST00000577835	lincRNA	KNOWN	None	None	None	None	66094267	66104155	1	None	None
20	GSS	ENSG00000100983	ENST00000216951	protein_coding	KNOWN	CCDS13245	4624	1425	474	33516236	33543620	-1	None	None
20	GSS	ENSG00000100983	ENST00000451957	protein_coding	KNOWN	None	4624	1092	363	33516631	33539655	-1	None	None
20	GSS	ENSG00000100983	ENST00000541098	protein_coding	KNOWN	None	4624	1041	346	33516553	33534532	-1	None	None
18	AKR1B10P2	ENSG00000263355	ENST00000577332	processed_pseudogene	KNOWN	None	45063	None	None	66123188	66124114	1	None	None
4	HMX1	ENSG00000215612	ENST00000506970	protein_coding	PUTATIVE	None	5017	573	190	8847802	8873348	-1	None	H6, NKX5-3
4	HMX1	ENSG00000215612	ENST00000400677	protein_coding	KNOWN	CCDS47018	5017	1047	348	8868776	8873543	-1	None	H6, NKX5-3
4	TMPRSS11E	ENSG00000087128	ENST00000305363	protein_coding	KNOWN	CCDS33993	24465	1272	423	69313167	69363322	1	TMPRSS11E2	DESC1
4	TMPRSS11E	ENSG00000087128	ENST00000510647	nonsense_mediated_decay	KNOWN	None	24465	376	124	69327539	69343348	1	TMPRSS11E2	DESC1
18	None	ENSG00000264697	ENST00000583846	processed_pseudogene	KNOWN	None	None	None	None	66195207	66195360	1	None	None
HG388_HG400_PATCH	PPP2R1B	ENSG00000262764	ENST00000571959	protein_coding	KNOWN	None	9303	2004	667	111597632	111637106	-1	None	PR65B, PP2A-Abeta
HG388_HG400_PATCH	PPP2R1B	ENSG00000262764	ENST00000571902	protein_coding	NOVEL	None	9303	1812	603	111597638	111637110	-1	None	PR65B, PP2A-Abeta
HG388_HG400_PATCH	PPP2R1B	ENSG00000262764	ENST00000570563	processed_transcript	PUTATIVE	None	9303	None	None	111597694	111606047	-1	None	PR65B, PP2A-Abeta
HG388_HG400_PATCH	PPP2R1B	ENSG00000262764	ENST00000576953	processed_transcript	PUTATIVE	None	9303	None	None	111606005	111608227	-1	None	PR65B, PP2A-Abeta
HG388_HG400_PATCH	PPP2R1B	ENSG00000262764	ENST00000576276	protein_coding	KNOWN	None	9303	1806	601	111608605	111637151	-1	None	PR65B, PP2A-Abeta
HG388_HG400_PATCH	PPP2R1B	ENSG00000262764	ENST00000575589	nonsense_mediated_decay	KNOWN	None	9303	408	135	111611779	111637092	-1	None	PR65B, PP2A-Abeta
HG388_HG400_PATCH	PPP2R1B	ENSG00000262764	ENST00000575443	protein_coding	NOVEL	None	9303	1671	556	111612045	111637092	-1	None	PR65B, PP2A-Abeta
HG388_HG400_PATCH	PPP2R1B	ENSG00000262764	ENST00000573946	protein_coding	NOVEL	None	9303	1425	474	111612241	111637106	-1	None	PR65B, PP2A-Abeta
HG388_HG400_PATCH	PPP2R1B	ENSG00000262764	ENST00000572328	retained_intron	KNOWN	None	9303	None	None	111612272	111618718	-1	None	PR65B, PP2A-Abeta
HG388_HG400_PATCH	PPP2R1B	ENSG00000262764	ENST00000575933	protein_coding	NOVEL	None	9303	670	222	111612781	111625762	-1	None	PR65B, PP2A-Abeta
HG388_HG400_PATCH	PPP2R1B	ENSG00000262764	ENST00000576802	nonsense_mediated_decay	KNOWN	None	9303	252	83	111630538	111637091	-1	None	PR65B, PP2A-Abeta
HG388_HG400_PATCH	PPP2R1B	ENSG00000262764	ENST00000573243	protein_coding	PUTATIVE	None	9303	357	118	111631680	111636786	-1	None	PR65B, PP2A-Abeta
18	None	ENSG00000263637	ENST00000579923	antisense	KNOWN	None	None	None	None	66420416	66421820	-1	None	None
22	SLC5A4	ENSG00000100191	ENST00000266086	protein_coding	KNOWN	CCDS13903	11039	1980	659	32614465	32651328	-1	None	SAAT1, SGLT3, DJ90G24.4
13	PPIAP27	ENSG00000234363	ENST00000453800	processed_pseudogene	KNOWN	None	42646	None	None	21530318	21530582	-1	None	None
18	RNU6-39P	ENSG00000207072	ENST00000384344	snRNA	KNOWN	None	34283	None	None	66526171	66526277	1	RNU6-39	None
13	RPSAP54	ENSG00000213621	ENST00000454001	processed_pseudogene	KNOWN	None	36373	None	None	21535449	21536334	1	None	None
18	SDHCP1	ENSG00000264444	ENST00000577676	processed_pseudogene	KNOWN	None	31734	None	None	66533754	66534265	1	None	None
18	None	ENSG00000264236	ENST00000584419	processed_pseudogene	KNOWN	None	None	None	None	66659955	66660612	-1	None	None
13	None	ENSG00000238893	ENST00000458989	snoRNA	NOVEL	None	None	None	None	21543457	21543555	1	None	None
13	RNU6-51P	ENSG00000251902	ENST00000516093	snRNA	KNOWN	None	42541	None	None	21573506	21573606	-1	RNU6-51	None
18	None	ENSG00000264705	ENST00000579651	lincRNA	KNOWN	None	None	None	None	66879514	66881587	1	None	None
13	LATS2-AS1	ENSG00000233851	ENST00000422510	antisense	KNOWN	None	39912	None	None	21579296	21592261	1	None	None
15	HERC2P2	ENSG00000140181	ENST00000560464	processed_transcript	KNOWN	None	4870	None	None	23282281	23378228	-1	None	D15F37S3
15	HERC2P2	ENSG00000140181	ENST00000558398	processed_transcript	KNOWN	None	4870	None	None	23285220	23293417	-1	None	D15F37S3
15	HERC2P2	ENSG00000140181	ENST00000559650	transcribed_unprocessed_pseudogene	KNOWN	None	4870	None	None	23293373	23356223	-1	None	D15F37S3
15	HERC2P2	ENSG00000140181	ENST00000559970	processed_transcript	KNOWN	None	4870	None	None	23295562	23299693	-1	None	D15F37S3
15	HERC2P2	ENSG00000140181	ENST00000559248	processed_transcript	KNOWN	None	4870	None	None	23308629	23311662	-1	None	D15F37S3
15	HERC2P2	ENSG00000140181	ENST00000422607	unprocessed_pseudogene	KNOWN	None	4870	None	None	23325195	23335196	-1	None	D15F37S3
15	HERC2P2	ENSG00000140181	ENST00000454333	unprocessed_pseudogene	KNOWN	None	4870	None	None	23282281	23326653	-1	None	D15F37S3
13	RNU4-9P	ENSG00000201821	ENST00000364951	snRNA	KNOWN	None	42507	None	None	21612668	21612806	-1	None	None
13	UGGT2	ENSG00000102595	ENST00000376747	protein_coding	KNOWN	CCDS9480	15664	4551	1516	96453834	96705637	-1	UGCGL2	FLJ11485, HUGT2, FLJ10873, MGC150689, MGC87276, MGC117360
13	UGGT2	ENSG00000102595	ENST00000462472	processed_transcript	KNOWN	None	15664	None	None	96506706	96512149	-1	UGCGL2	FLJ11485, HUGT2, FLJ10873, MGC150689, MGC87276, MGC117360
13	UGGT2	ENSG00000102595	ENST00000476866	processed_transcript	KNOWN	None	15664	None	None	96515688	96529594	-1	UGCGL2	FLJ11485, HUGT2, FLJ10873, MGC150689, MGC87276, MGC117360
13	UGGT2	ENSG00000102595	ENST00000491509	processed_transcript	KNOWN	None	15664	None	None	96519593	96546824	-1	UGCGL2	FLJ11485, HUGT2, FLJ10873, MGC150689, MGC87276, MGC117360
13	UGGT2	ENSG00000102595	ENST00000463054	retained_intron	KNOWN	None	15664	None	None	96529156	96547502	-1	UGCGL2	FLJ11485, HUGT2, FLJ10873, MGC150689, MGC87276, MGC117360
13	UGGT2	ENSG00000102595	ENST00000465196	processed_transcript	KNOWN	None	15664	None	None	96635777	96665665	-1	UGCGL2	FLJ11485, HUGT2, FLJ10873, MGC150689, MGC87276, MGC117360
13	UGGT2	ENSG00000102595	ENST00000461329	processed_transcript	KNOWN	None	15664	None	None	96637158	96651561	-1	UGCGL2	FLJ11485, HUGT2, FLJ10873, MGC150689, MGC87276, MGC117360
13	UGGT2	ENSG00000102595	ENST00000467305	processed_transcript	KNOWN	None	15664	None	None	96637301	96665730	-1	UGCGL2	FLJ11485, HUGT2, FLJ10873, MGC150689, MGC87276, MGC117360
13	UGGT2	ENSG00000102595	ENST00000397618	protein_coding	KNOWN	None	15664	1119	372	96637164	96705654	-1	UGCGL2	FLJ11485, HUGT2, FLJ10873, MGC150689, MGC87276, MGC117360
13	UGGT2	ENSG00000102595	ENST00000376714	protein_coding	KNOWN	None	15664	837	278	96635778	96705736	-1	UGCGL2	FLJ11485, HUGT2, FLJ10873, MGC150689, MGC87276, MGC117360
13	UGGT2	ENSG00000102595	ENST00000376712	protein_coding	KNOWN	None	15664	843	280	96642399	96705647	-1	UGCGL2	FLJ11485, HUGT2, FLJ10873, MGC150689, MGC87276, MGC117360
HSCHR6_MHC_APD	HLA-A	ENSG00000229215	ENST00000431930	protein_coding	KNOWN	None	4931	1098	365	29845529	29850151	1	None	None
HSCHR6_MHC_APD	HLA-A	ENSG00000229215	ENST00000444289	protein_coding	KNOWN	None	4931	1116	371	29846511	29850151	1	None	None
HSCHR6_MHC_APD	HLA-A	ENSG00000229215	ENST00000464610	retained_intron	KNOWN	None	4931	None	None	29846814	29850151	1	None	None
HSCHR6_MHC_APD	HLA-A	ENSG00000229215	ENST00000416096	protein_coding	KNOWN	None	4931	900	299	29846815	29850151	1	None	None
HSCHR6_MHC_APD	HLA-A	ENSG00000229215	ENST00000485166	retained_intron	KNOWN	None	4931	None	None	29846818	29850151	1	None	None
HSCHR6_MHC_APD	HLA-A	ENSG00000229215	ENST00000468995	retained_intron	KNOWN	None	4931	None	None	29846820	29849548	1	None	None
HSCHR6_MHC_APD	HLA-A	ENSG00000229215	ENST00000465498	retained_intron	KNOWN	None	4931	None	None	29846820	29849548	1	None	None
HSCHR6_MHC_APD	HLA-A	ENSG00000229215	ENST00000552193	protein_coding	KNOWN	None	4931	1098	365	29846798	29850150	1	None	None
HSCHR6_MHC_APD	HLA-A	ENSG00000229215	ENST00000551578	protein_coding	KNOWN	None	4931	462	153	29846776	29847728	1	None	None
HSCHR6_MHC_APD	HLA-A	ENSG00000229215	ENST00000551120	protein_coding	KNOWN	None	4931	345	114	29846776	29850107	1	None	None
13	LINC00392	ENSG00000228295	ENST00000430033	lincRNA	KNOWN	None	42720	None	None	74138381	74162207	1	None	None
18	None	ENSG00000264845	ENST00000579307	transcribed_processed_pseudogene	KNOWN	None	None	None	None	67136753	67137237	1	None	None
18	None	ENSG00000264845	ENST00000584741	processed_transcript	PUTATIVE	None	None	None	None	67137167	67138972	1	None	None
14	PLD4	ENSG00000166428	ENST00000540372	protein_coding	PUTATIVE	None	23792	1542	513	105391153	105399574	1	C14orf175	None
14	PLD4	ENSG00000166428	ENST00000392593	protein_coding	KNOWN	CCDS9995	23792	1521	506	105391160	105399573	1	C14orf175	None
14	PLD4	ENSG00000166428	ENST00000557573	protein_coding	NOVEL	None	23792	771	256	105391216	105397138	1	C14orf175	None
14	PLD4	ENSG00000166428	ENST00000472901	retained_intron	KNOWN	None	23792	None	None	105391217	105395381	1	C14orf175	None
14	PLD4	ENSG00000166428	ENST00000472702	retained_intron	KNOWN	None	23792	None	None	105396958	105398514	1	C14orf175	None
14	PLD4	ENSG00000166428	ENST00000553861	protein_coding	PUTATIVE	None	23792	228	75	105398497	105399572	1	C14orf175	None
13	RPS12P23	ENSG00000180172	ENST00000419579	processed_pseudogene	KNOWN	None	35573	None	None	21668457	21668853	-1	None	None
13	RPS12P23	ENSG00000180172	ENST00000315012	processed_pseudogene	KNOWN	None	35573	None	None	21668458	21668853	-1	None	None
13	LINC00402	ENSG00000235532	ENST00000419499	lincRNA	KNOWN	None	42732	None	None	74805594	74834113	1	None	None
X	None	ENSG00000234622	ENST00000453953	lincRNA	KNOWN	None	None	None	None	1886240	1887669	1	None	None
13	IPPKP1	ENSG00000225585	ENST00000422501	processed_pseudogene	KNOWN	None	39390	None	None	21677142	21678510	-1	None	None
13	RNY1P5	ENSG00000206617	ENST00000383890	misc_RNA	KNOWN	None	42482	None	None	74863237	74863351	-1	None	None
X	DHRSX-IT1	ENSG00000223571	ENST00000437244	sense_intronic	KNOWN	None	38713	None	None	2252336	2254451	-1	DHRSXIT1	DHRSX-IT
18	None	ENSG00000265643	ENST00000583991	antisense	KNOWN	None	None	None	None	67150863	67285930	-1	None	None
13	None	ENSG00000252128	ENST00000516319	snoRNA	NOVEL	None	None	None	None	21714025	21714096	-1	None	None
13	RPL21P108	ENSG00000232701	ENST00000413857	processed_pseudogene	KNOWN	None	35496	None	None	74951300	74952088	-1	None	None
13	RN7SL80P	ENSG00000263607	ENST00000580631	misc_RNA	KNOWN	None	46096	None	None	21716330	21716629	-1	None	None
13	None	ENSG00000271250	ENST00000605401	processed_pseudogene	KNOWN	None	None	None	None	21790694	21790799	1	None	None
18	None	ENSG00000266840	ENST00000584753	antisense	KNOWN	None	None	None	None	67372214	67392211	-1	None	None
13	None	ENSG00000233405	ENST00000443719	lincRNA	KNOWN	None	None	None	None	21808707	21809343	1	None	None
13	LINC00381	ENSG00000226240	ENST00000423629	antisense	KNOWN	None	42708	None	None	74993310	75009296	1	None	None
18	None	ENSG00000266304	ENST00000578633	lincRNA	KNOWN	None	None	None	None	68003165	68004546	-1	None	None
18	SCML2P1	ENSG00000264127	ENST00000584511	processed_pseudogene	KNOWN	None	44329	None	None	6926943	6928209	1	None	None
18	None	ENSG00000264059	ENST00000581042	miRNA	NOVEL	None	None	None	None	68029359	68029459	-1	None	None
18	RNU6-916P	ENSG00000251897	ENST00000516088	snRNA	KNOWN	None	47879	None	None	6936911	6937019	-1	None	None
13	ESRRAP2	ENSG00000235438	ENST00000606337	processed_transcript	KNOWN	None	24647	None	None	21834154	21843224	1	None	ESTRRA
13	ESRRAP2	ENSG00000235438	ENST00000427890	processed_transcript	KNOWN	None	24647	None	None	21834168	21867568	1	None	ESTRRA
13	ESRRAP2	ENSG00000235438	ENST00000418437	transcribed_processed_pseudogene	KNOWN	None	24647	None	None	21834171	21835719	1	None	ESTRRA
18	None	ENSG00000266278	ENST00000582251	lincRNA	KNOWN	None	None	None	None	68047376	68051827	-1	None	None
18	None	ENSG00000265069	ENST00000584722	antisense	KNOWN	None	None	None	None	6954676	6957418	1	None	None
13	LINC00347	ENSG00000236678	ENST00000595711	lincRNA	KNOWN	None	27890	None	None	75126640	75129598	1	None	None
13	LINC00347	ENSG00000236678	ENST00000594461	lincRNA	KNOWN	None	27890	None	None	75126693	75131236	1	None	None
13	LINC00347	ENSG00000236678	ENST00000596240	lincRNA	KNOWN	None	27890	None	None	75126980	75129490	1	None	None
13	LINC00347	ENSG00000236678	ENST00000446691	lincRNA	KNOWN	None	27890	None	None	75126980	75129652	1	None	None
13	LINC00347	ENSG00000236678	ENST00000451336	lincRNA	KNOWN	None	27890	None	None	75126980	75129875	1	None	None
13	LINC00347	ENSG00000236678	ENST00000601480	lincRNA	KNOWN	None	27890	None	None	75128102	75129659	1	None	None
13	LINC00347	ENSG00000236678	ENST00000600832	lincRNA	KNOWN	None	27890	None	None	75129470	75130467	1	None	None
13	LINC00347	ENSG00000236678	ENST00000597518	lincRNA	KNOWN	None	27890	None	None	75130673	75139582	1	None	None
18	None	ENSG00000265698	ENST00000579888	processed_pseudogene	KNOWN	None	None	None	None	68079291	68079627	1	None	None
18	RN7SL537P	ENSG00000265890	ENST00000584392	misc_RNA	KNOWN	None	46553	None	None	6972707	6972988	-1	None	None
HSCHR6_MHC_DBB	None	ENSG00000258330	ENST00000546657	pseudogene	NOVEL	None	None	None	None	31608967	31609906	-1	None	None
18	None	ENSG00000265869	ENST00000578682	processed_pseudogene	KNOWN	None	None	None	None	7064031	7064196	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000264353	ENST00000582374	misc_RNA	NOVEL	None	None	None	None	31613247	31613360	1	None	None
18	RPS2P6	ENSG00000214255	ENST00000479476	processed_pseudogene	KNOWN	None	25485	None	None	68097467	68098361	1	None	None
18	RPS2P6	ENSG00000214255	ENST00000397939	processed_pseudogene	KNOWN	None	25485	None	None	68096396	68098198	1	None	None
18	None	ENSG00000264475	ENST00000581502	antisense	KNOWN	None	None	None	None	7076816	7080122	1	None	None
HSCHR6_MHC_DBB	MIR4646	ENSG00000265989	ENST00000583279	miRNA	KNOWN	None	41543	None	None	31650981	31651043	-1	None	hsa-mir-4646
14	None	ENSG00000259042	ENST00000555460	lincRNA	KNOWN	None	None	None	None	22886826	22887645	1	None	None
18	SLC25A51P2	ENSG00000263716	ENST00000535708	processed_pseudogene	KNOWN	None	23327	None	None	7134930	7135818	1	MCART4P	None
HSCHR6_MHC_DBB	None	ENSG00000263896	ENST00000581939	snRNA	NOVEL	None	None	None	None	31706913	31707015	-1	None	None
X	None	ENSG00000228042	ENST00000436086	processed_pseudogene	KNOWN	None	None	None	None	109880069	109880900	1	None	None
HSCHR6_MHC_DBB	SAPCD1-AS1	ENSG00000227856	ENST00000415710	processed_transcript	PUTATIVE	None	39824	None	None	31714272	31715550	-1	C6orf26-AS1	None
18	None	ENSG00000212626	ENST00000391324	snoRNA	NOVEL	None	None	None	None	7301018	7301151	-1	None	None
5	SLC6A18	ENSG00000164363	ENST00000324642	protein_coding	KNOWN	CCDS3860	26441	1887	628	1225470	1246304	1	None	FLJ31236, Xtrp2
5	SLC6A18	ENSG00000164363	ENST00000513607	retained_intron	KNOWN	None	26441	None	None	1225524	1232954	1	None	FLJ31236, Xtrp2
5	SLC6A18	ENSG00000164363	ENST00000296821	protein_coding	KNOWN	None	26441	1194	397	1225470	1244492	1	None	FLJ31236, Xtrp2
18	None	ENSG00000221631	ENST00000408704	miRNA	NOVEL	None	None	None	None	7738109	7738223	-1	None	None
HSCHR6_MHC_DBB	None	ENSG00000266113	ENST00000583189	misc_RNA	NOVEL	None	None	None	None	31728779	31728867	-1	None	None
14	TRAJ60	ENSG00000249446	ENST00000442641	TR_J_pseudogene	KNOWN	None	12093	None	None	22945296	22945352	1	None	None
X	VDAC1P2	ENSG00000213856	ENST00000423609	processed_pseudogene	KNOWN	None	12670	None	None	49397103	49397952	-1	VDAC1LP	None
18	None	ENSG00000266767	ENST00000579509	antisense	KNOWN	None	None	None	None	7741308	7749441	-1	None	None
18	None	ENSG00000266767	ENST00000579332	antisense	KNOWN	None	None	None	None	7747531	7754829	-1	None	None
HG7_PATCH	TRBV3-1	ENSG00000260222	ENST00000564780	TR_V_gene	KNOWN	None	12212	344	113	142008365	142008871	1	None	TRBV31, TCRBV3S1, TCRBV9S1A1T
HSCHR6_MHC_DBB	None	ENSG00000264086	ENST00000582400	snoRNA	KNOWN	None	None	None	None	31785230	31785292	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000265707	ENST00000582902	snoRNA	KNOWN	None	None	None	None	31787042	31787108	1	None	None
X	SALL1P1	ENSG00000227391	ENST00000438101	processed_pseudogene	KNOWN	None	10525	None	None	49429447	49433283	-1	SALL1P	None
8	FAM90A4P	ENSG00000249005	ENST00000509856	unprocessed_pseudogene	KNOWN	None	32252	None	None	7129670	7132680	1	FAM90A4	None
18	None	ENSG00000264596	ENST00000584036	sense_intronic	KNOWN	None	None	None	None	7814116	7815728	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000236903	ENST00000458196	processed_transcript	PUTATIVE	None	None	None	None	31833723	31834016	1	None	None
HG75_PATCH	None	ENSG00000263315	ENST00000571426	snRNA	NOVEL	None	None	None	None	34732197	34732303	-1	None	None
18	None	ENSG00000263827	ENST00000580097	miRNA	NOVEL	None	None	None	None	7840935	7841058	1	None	None
9	BNC2	ENSG00000173068	ENST00000380672	protein_coding	KNOWN	CCDS6482	30988	3300	1099	16409501	16870704	-1	None	BSN2, FLJ20043
9	BNC2	ENSG00000173068	ENST00000484726	nonsense_mediated_decay	KNOWN	None	30988	2712	903	16418292	16870758	-1	None	BSN2, FLJ20043
9	BNC2	ENSG00000173068	ENST00000411752	protein_coding	PUTATIVE	None	30988	984	327	16418541	16436370	-1	None	BSN2, FLJ20043
9	BNC2	ENSG00000173068	ENST00000418777	protein_coding	PUTATIVE	None	30988	2583	860	16418541	16727995	-1	None	BSN2, FLJ20043
9	BNC2	ENSG00000173068	ENST00000380667	protein_coding	NOVEL	None	30988	3099	1032	16418808	16870729	-1	None	BSN2, FLJ20043
9	BNC2	ENSG00000173068	ENST00000603713	protein_coding	PUTATIVE	None	30988	735	244	16437223	16728163	-1	None	BSN2, FLJ20043
9	BNC2	ENSG00000173068	ENST00000486514	protein_coding	NOVEL	None	30988	493	163	16552578	16870841	-1	None	BSN2, FLJ20043
9	BNC2	ENSG00000173068	ENST00000603313	protein_coding	PUTATIVE	None	30988	365	120	16552598	16728212	-1	None	BSN2, FLJ20043
9	BNC2	ENSG00000173068	ENST00000468187	protein_coding	PUTATIVE	None	30988	330	109	16579789	16727995	-1	None	BSN2, FLJ20043
9	BNC2	ENSG00000173068	ENST00000471301	protein_coding	PUTATIVE	None	30988	132	43	16579835	16705080	-1	None	BSN2, FLJ20043
9	BNC2	ENSG00000173068	ENST00000545497	protein_coding	KNOWN	None	30988	3015	1004	16418987	16832286	-1	None	BSN2, FLJ20043
9	BNC2	ENSG00000173068	ENST00000380666	protein_coding	KNOWN	None	30988	2712	903	16429925	16870786	-1	None	BSN2, FLJ20043
18	None	ENSG00000199856	ENST00000362986	snoRNA	NOVEL	None	None	None	None	7995568	7995782	1	None	None
HSCHR6_MHC_DBB	C4B-AS1	ENSG00000233692	ENST00000442802	processed_transcript	PUTATIVE	None	39752	None	None	31884416	31891690	-1	None	None
X	USP27X-AS1	ENSG00000234390	ENST00000437322	lincRNA	KNOWN	None	27249	None	None	49641892	49643844	-1	None	None
18	None	ENSG00000212067	ENST00000390778	miRNA	NOVEL	None	None	None	None	8227101	8227183	-1	None	None
14	TRAJ55	ENSG00000250688	ENST00000509135	TR_J_pseudogene	KNOWN	None	12087	None	None	22950686	22950742	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000265895	ENST00000584324	miRNA	KNOWN	None	None	None	None	31906802	31906903	-1	None	None
HG7_PATCH	TRBV4-1	ENSG00000260745	ENST00000562440	TR_V_gene	KNOWN	None	12215	344	113	142013007	142013489	1	None	TRBV41, TCRBV4S1, TCRBV7S1A1N2T, BV07S1J2.7
18	None	ENSG00000266149	ENST00000580491	antisense	KNOWN	None	None	None	None	8360818	8367032	-1	None	None
HSCHR6_MHC_MANN	LINC00243	ENSG00000229170	ENST00000431091	processed_transcript	KNOWN	None	30956	None	None	30825331	30843127	-1	C6orf214, NCRNA00243	bQB230F21.2, FLJ40693, bQB10J12.2
HSCHR6_MHC_MANN	LINC00243	ENSG00000229170	ENST00000430758	processed_transcript	KNOWN	None	30956	None	None	30811119	30843127	-1	C6orf214, NCRNA00243	bQB230F21.2, FLJ40693, bQB10J12.2
X	FCF1P4	ENSG00000226112	ENST00000448326	processed_pseudogene	KNOWN	None	44616	None	None	110412449	110412631	1	None	None
X	None	ENSG00000220132	ENST00000402231	processed_pseudogene	KNOWN	None	None	None	None	49676227	49676969	-1	None	None
22	RFPL3	ENSG00000128276	ENST00000397468	protein_coding	NOVEL	CCDS13904	9980	867	288	32750872	32757148	1	None	None
22	RFPL3	ENSG00000128276	ENST00000249007	protein_coding	KNOWN	CCDS43011	9980	954	317	32753854	32757148	1	None	None
22	RFPL3	ENSG00000128276	ENST00000382088	protein_coding	KNOWN	CCDS13904	9980	867	288	32754139	32757148	1	None	None
HSCHR6_MHC_DBB	C4A-AS1	ENSG00000232565	ENST00000452819	processed_transcript	PUTATIVE	None	39753	None	None	31949954	31953483	-1	None	None
14	TRAJ51	ENSG00000248366	ENST00000504127	TR_J_pseudogene	KNOWN	None	12083	None	None	22956171	22956233	1	None	None
18	None	ENSG00000265413	ENST00000578897	sense_intronic	KNOWN	None	None	None	None	8402845	8405159	1	None	None
X	RNU6-421P	ENSG00000201341	ENST00000364471	snRNA	KNOWN	None	47384	None	None	49709947	49710053	-1	None	None
X	GLUD1P9	ENSG00000234349	ENST00000420997	processed_pseudogene	KNOWN	None	37696	None	None	110473117	110474289	-1	None	None
X	MIR532	ENSG00000207758	ENST00000385025	miRNA	KNOWN	None	32795	None	None	49767754	49767844	1	MIRN532	hsa-mir-532
18	None	ENSG00000263970	ENST00000579805	antisense	KNOWN	None	None	None	None	8406759	8406951	-1	None	None
HSCHR6_MHC_MANN	None	ENSG00000231854	ENST00000438645	processed_transcript	KNOWN	None	None	None	None	30851993	30860627	-1	None	None
14	TRAJ15	ENSG00000211874	ENST00000390522	TR_J_pseudogene	KNOWN	None	12043	None	None	22998580	22998641	1	None	None
X	MIR188	ENSG00000207768	ENST00000385034	miRNA	KNOWN	None	31559	None	None	49768109	49768194	1	MIRN188	hsa-mir-188
18	RFWD2P1	ENSG00000266613	ENST00000579008	processed_pseudogene	KNOWN	None	31900	None	None	8412127	8414302	1	RFWD2P	None
HG75_PATCH	None	ENSG00000261152	ENST00000567839	unprocessed_pseudogene	KNOWN	None	None	None	None	34777516	34784896	-1	None	None
X	RNU6-496P	ENSG00000251954	ENST00000516145	snRNA	KNOWN	None	47459	None	None	110664738	110664836	-1	None	None
HSCHR6_MHC_DBB	CYP21A1P	ENSG00000231759	ENST00000474537	retained_intron	KNOWN	None	2599	None	None	31955599	31958414	1	CYP21P, CYP21A	P450c21A
HSCHR6_MHC_DBB	CYP21A1P	ENSG00000231759	ENST00000495969	transcribed_unprocessed_pseudogene	KNOWN	None	2599	None	None	31955652	31958362	1	CYP21P, CYP21A	P450c21A
X	None	ENSG00000265152	ENST00000582167	miRNA	NOVEL	None	None	None	None	49771262	49771344	1	None	None
X	MIR500A	ENSG00000207785	ENST00000385051	miRNA	KNOWN	None	32134	None	None	49773039	49773122	1	MIRN500, MIR500	hsa-mir-500
18	RN7SL50P	ENSG00000242985	ENST00000461146	misc_RNA	KNOWN	None	46066	None	None	8471829	8472124	1	None	None
14	None	ENSG00000259054	ENST00000557232	antisense	KNOWN	None	None	None	None	23025205	23025956	-1	None	None
X	None	ENSG00000248421	ENST00000515319	processed_transcript	PUTATIVE	None	None	None	None	2405023	2407012	-1	None	None
HSCHR6_MHC_MANN	None	ENSG00000266263	ENST00000583754	misc_RNA	NOVEL	None	None	None	None	30876718	30877020	1	None	None
18	None	ENSG00000229442	ENST00000416112	unitary_pseudogene	KNOWN	None	None	None	None	8486995	8513847	1	None	None
13	RIOK3P1	ENSG00000225944	ENST00000418778	processed_pseudogene	KNOWN	None	39714	None	None	75402690	75404217	1	None	None
X	MIR362	ENSG00000208015	ENST00000385280	miRNA	KNOWN	None	32022	None	None	49773572	49773636	1	MIRN362	hsa-mir-362
HG747_PATCH	BPTF	ENSG00000262858	ENST00000573838	protein_coding	NOVEL	None	3581	7372	2456	65821640	65942007	1	FALZ	FAC1, NURF301
HG747_PATCH	BPTF	ENSG00000262858	ENST00000573834	protein_coding	KNOWN	None	3581	8763	2920	65821781	65979269	1	FALZ	FAC1, NURF301
HG747_PATCH	BPTF	ENSG00000262858	ENST00000574648	protein_coding	NOVEL	None	3581	8295	2764	65822258	65978404	1	FALZ	FAC1, NURF301
HG747_PATCH	BPTF	ENSG00000262858	ENST00000574652	protein_coding	NOVEL	None	3581	409	135	65871036	65888078	1	FALZ	FAC1, NURF301
HG747_PATCH	BPTF	ENSG00000262858	ENST00000577366	retained_intron	KNOWN	None	3581	None	None	65887568	65889672	1	FALZ	FAC1, NURF301
HG747_PATCH	BPTF	ENSG00000262858	ENST00000574809	retained_intron	KNOWN	None	3581	None	None	65889337	65890194	1	FALZ	FAC1, NURF301
HG747_PATCH	BPTF	ENSG00000262858	ENST00000578871	protein_coding	NOVEL	None	3581	1015	337	65916216	65936661	1	FALZ	FAC1, NURF301
HG747_PATCH	BPTF	ENSG00000262858	ENST00000583799	processed_transcript	KNOWN	None	3581	None	None	65932725	65940449	1	FALZ	FAC1, NURF301
HG747_PATCH	BPTF	ENSG00000262858	ENST00000578781	retained_intron	KNOWN	None	3581	None	None	65936644	65940707	1	FALZ	FAC1, NURF301
HG747_PATCH	BPTF	ENSG00000262858	ENST00000579610	protein_coding	PUTATIVE	None	3581	1453	483	65936679	65956493	1	FALZ	FAC1, NURF301
HG747_PATCH	BPTF	ENSG00000262858	ENST00000575874	protein_coding	NOVEL	None	3581	1951	649	65940346	65980494	1	FALZ	FAC1, NURF301
HG747_PATCH	BPTF	ENSG00000262858	ENST00000577416	processed_transcript	KNOWN	None	3581	None	None	65940386	65941687	1	FALZ	FAC1, NURF301
HG747_PATCH	BPTF	ENSG00000262858	ENST00000582576	protein_coding	PUTATIVE	None	3581	1262	419	65943870	65977878	1	FALZ	FAC1, NURF301
HG747_PATCH	BPTF	ENSG00000262858	ENST00000579359	protein_coding	PUTATIVE	None	3581	208	68	65960460	65978685	1	FALZ	FAC1, NURF301
HG747_PATCH	BPTF	ENSG00000262858	ENST00000584149	retained_intron	KNOWN	None	3581	None	None	65961139	65978667	1	FALZ	FAC1, NURF301
HG747_PATCH	BPTF	ENSG00000262858	ENST00000583056	protein_coding	PUTATIVE	None	3581	194	63	65971918	65978685	1	FALZ	FAC1, NURF301
HSCHR6_MHC_MANN	DDR1-AS1	ENSG00000231444	ENST00000455945	processed_transcript	KNOWN	None	28694	None	None	30879450	30888383	-1	TIGD1L	bPG70P20.2, bCX111D4.7, bQB10J12.1
13	RNU6-38P	ENSG00000206812	ENST00000384085	snRNA	KNOWN	None	34282	None	None	75683724	75683830	1	RNU6-38	None
18	AKR1B1P6	ENSG00000225212	ENST00000584733	processed_pseudogene	KNOWN	None	33498	None	None	8545633	8546815	1	None	None
18	AKR1B1P6	ENSG00000225212	ENST00000411881	processed_pseudogene	KNOWN	None	33498	None	None	8545638	8546003	1	None	None
HSCHR6_MHC_MANN	MIR4640	ENSG00000272188	ENST00000607451	miRNA	KNOWN	None	41561	None	None	30903348	30903437	1	None	hsa-mir-4640
X	MIR501	ENSG00000211538	ENST00000390204	miRNA	KNOWN	None	32135	None	None	49774330	49774413	1	MIRN501	hsa-mir-501
8	FAM90A13P	ENSG00000223885	ENST00000534703	unprocessed_pseudogene	KNOWN	None	32261	None	None	7137292	7140302	1	FAM90A13	None
8	FAM90A13P	ENSG00000223885	ENST00000420657	unprocessed_pseudogene	KNOWN	None	32261	None	None	7137292	7140766	1	FAM90A13	None
HSCHR6_MHC_MANN	None	ENSG00000263402	ENST00000584187	misc_RNA	NOVEL	None	None	None	None	30919337	30919595	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000265323	ENST00000577348	misc_RNA	NOVEL	None	None	None	None	30945079	30945170	-1	None	None
X	MIR500B	ENSG00000239057	ENST00000458843	miRNA	KNOWN	None	38223	None	None	49775279	49775357	1	None	hsa-mir-500b
HSCHR6_MHC_MANN	None	ENSG00000231474	ENST00000432263	processed_transcript	PUTATIVE	None	None	None	None	31042650	31047446	1	None	None
X	MIR660	ENSG00000207970	ENST00000385235	miRNA	KNOWN	None	32916	None	None	49777849	49777945	1	MIRN660	hsa-mir-660
X	CD99P1	ENSG00000223773	ENST00000431582	processed_transcript	KNOWN	None	7083	None	None	2527389	2534212	1	MIC2R, NCRNA00103, CXYorf12, CD99L1	None
X	CD99P1	ENSG00000223773	ENST00000435581	processed_transcript	KNOWN	None	7083	None	None	2527433	2575270	1	MIC2R, NCRNA00103, CXYorf12, CD99L1	None
X	CD99P1	ENSG00000223773	ENST00000430562	processed_transcript	KNOWN	None	7083	None	None	2527435	2556370	1	MIC2R, NCRNA00103, CXYorf12, CD99L1	None
X	CD99P1	ENSG00000223773	ENST00000527459	transcribed_unprocessed_pseudogene	KNOWN	None	7083	None	None	2527456	2541494	1	MIC2R, NCRNA00103, CXYorf12, CD99L1	None
X	CD99P1	ENSG00000223773	ENST00000414513	processed_transcript	KNOWN	None	7083	None	None	2534660	2556735	1	MIC2R, NCRNA00103, CXYorf12, CD99L1	None
X	MIR502	ENSG00000272080	ENST00000606349	miRNA	KNOWN	None	32136	None	None	49779206	49779291	1	MIRN502	hsa-mir-502
HSCHR6_MHC_MANN	HCG22	ENSG00000237894	ENST00000458106	processed_transcript	KNOWN	None	27780	None	None	31066942	31072606	1	None	FLJ37114, PBMUCL2
X	HMGB1P12	ENSG00000223904	ENST00000438594	processed_pseudogene	KNOWN	None	13317	None	None	110677655	110678252	1	HMGB1L12	None
X	PYY3	ENSG00000181977	ENST00000419078	processed_pseudogene	KNOWN	None	31855	None	None	49920807	49921019	1	None	OTTHUMG00000021515
22	RFPL3S	ENSG00000205853	ENST00000382084	protein_coding	PUTATIVE	None	9981	210	69	32755893	32766972	-1	RFPL3-AS1	RFPL3-AS, NCRNA00005
22	RFPL3S	ENSG00000205853	ENST00000400234	protein_coding	PUTATIVE	None	9981	297	98	32755893	32767063	-1	RFPL3-AS1	RFPL3-AS, NCRNA00005
22	RFPL3S	ENSG00000205853	ENST00000461833	processed_transcript	PUTATIVE	None	9981	None	None	32756639	32759104	-1	RFPL3-AS1	RFPL3-AS, NCRNA00005
22	RFPL3S	ENSG00000205853	ENST00000382086	protein_coding	PUTATIVE	None	9981	231	76	32758788	32766986	-1	RFPL3-AS1	RFPL3-AS, NCRNA00005
22	RFPL3S	ENSG00000205853	ENST00000577714	protein_coding	PUTATIVE	None	9981	209	68	32758961	32778039	-1	RFPL3-AS1	RFPL3-AS, NCRNA00005
HSCHR6_MHC_MANN	None	ENSG00000263367	ENST00000577293	snRNA	NOVEL	None	None	None	None	31095736	31095835	1	None	None
X	None	ENSG00000202495	ENST00000365625	misc_RNA	NOVEL	None	None	None	None	49935841	49935941	-1	None	None
HSCHR6_MHC_MANN	None	ENSG00000257709	ENST00000552482	pseudogene	NOVEL	None	None	None	None	31135350	31135519	-1	None	None
HSCHR6_MHC_MANN	None	ENSG00000258298	ENST00000552113	pseudogene	NOVEL	None	None	None	None	31143168	31143430	1	None	None
HSCHR6_MHC_MANN	POLR2LP	ENSG00000225714	ENST00000434921	processed_pseudogene	KNOWN	None	31340	None	None	31153467	31153653	1	None	AB023060.6
18	MALT1	ENSG00000172175	ENST00000348428	protein_coding	KNOWN	CCDS11967	6819	2475	824	56338618	56417371	1	MLT	None
18	MALT1	ENSG00000172175	ENST00000345724	protein_coding	KNOWN	CCDS11968	6819	2442	813	56338764	56415386	1	MLT	None
18	MALT1	ENSG00000172175	ENST00000591792	protein_coding	PUTATIVE	None	6819	359	118	56339439	56367818	1	MLT	None
18	MALT1	ENSG00000172175	ENST00000589873	retained_intron	KNOWN	None	6819	None	None	56400742	56415263	1	MLT	None
18	MALT1	ENSG00000172175	ENST00000587438	retained_intron	KNOWN	None	6819	None	None	56408663	56413024	1	MLT	None
X	LINC00102	ENSG00000230542	ENST00000445785	lincRNA	KNOWN	None	30470	None	None	2531029	2533388	-1	NCRNA00102	OTTHUMT00000055623
HSCHR6_MHC_MANN	PSORS1C3	ENSG00000226422	ENST00000376242	processed_transcript	KNOWN	None	17203	None	None	31186478	31190647	-1	None	NCRNA00196
X	None	ENSG00000251848	ENST00000516039	snoRNA	NOVEL	None	None	None	None	2729941	2730021	1	None	None
13	SSR1P2	ENSG00000226665	ENST00000415208	processed_pseudogene	KNOWN	None	39274	None	None	75710291	75711077	1	None	None
X	GYG2-AS1	ENSG00000235483	ENST00000445107	antisense	KNOWN	None	40270	None	None	2770781	2771801	-1	None	None
HG414_PATCH	OMP	ENSG00000261941	ENST00000572986	protein_coding	KNOWN	None	8136	492	163	76813883	76814375	1	None	None
13	None	ENSG00000266534	ENST00000579276	miRNA	NOVEL	None	None	None	None	75783114	75783173	-1	None	None
HSCHR6_MHC_MANN	HCG27	ENSG00000238148	ENST00000458434	processed_transcript	PUTATIVE	None	27366	None	None	31210906	31210949	1	None	bPG299F13.9, bCX101P6.9, bQB115I13.2, FLJ40123
HSCHR6_MHC_MANN	HCG27	ENSG00000238148	ENST00000438084	processed_transcript	KNOWN	None	27366	None	None	31210528	31210650	1	None	bPG299F13.9, bCX101P6.9, bQB115I13.2, FLJ40123
X	ARSD-AS1	ENSG00000229851	ENST00000414053	antisense	KNOWN	None	40085	None	None	2822945	2824122	1	None	None
13	CTAGE11P	ENSG00000214249	ENST00000451540	processed_pseudogene	KNOWN	None	37293	None	None	75812080	75814432	-1	None	None
21	PFKL	ENSG00000141959	ENST00000349048	protein_coding	KNOWN	CCDS33582	8876	2343	780	45719934	45747259	1	None	None
21	PFKL	ENSG00000141959	ENST00000397961	nonsense_mediated_decay	KNOWN	None	8876	129	42	45719934	45747259	1	None	None
21	PFKL	ENSG00000141959	ENST00000496824	processed_transcript	KNOWN	None	8876	None	None	45719950	45736222	1	None	None
21	PFKL	ENSG00000141959	ENST00000466134	retained_intron	KNOWN	None	8876	None	None	45719979	45747259	1	None	None
21	PFKL	ENSG00000141959	ENST00000491298	processed_transcript	KNOWN	None	8876	None	None	45725077	45733837	1	None	None
21	PFKL	ENSG00000141959	ENST00000474114	retained_intron	KNOWN	None	8876	None	None	45735410	45747259	1	None	None
21	PFKL	ENSG00000141959	ENST00000498841	retained_intron	KNOWN	None	8876	None	None	45739506	45747259	1	None	None
21	PFKL	ENSG00000141959	ENST00000460020	retained_intron	KNOWN	None	8876	None	None	45739724	45744426	1	None	None
21	PFKL	ENSG00000141959	ENST00000467315	retained_intron	KNOWN	None	8876	None	None	45739750	45747259	1	None	None
21	PFKL	ENSG00000141959	ENST00000460521	retained_intron	KNOWN	None	8876	None	None	45740460	45747259	1	None	None
21	PFKL	ENSG00000141959	ENST00000495274	retained_intron	KNOWN	None	8876	None	None	45742845	45745518	1	None	None
21	PFKL	ENSG00000141959	ENST00000403390	protein_coding	KNOWN	None	8876	2484	827	45725211	45747253	1	None	None
HG414_PATCH	None	ENSG00000262925	ENST00000575279	antisense	KNOWN	None	None	None	None	76835714	76837198	-1	None	None
HSCHR6_MHC_MANN	None	ENSG00000229823	ENST00000445397	processed_transcript	PUTATIVE	None	None	None	None	31212937	31213410	-1	None	None
9	None	ENSG00000269295	ENST00000600472	protein_coding	KNOWN	None	None	312	103	71869331	71869642	-1	None	None
8	PMP2	ENSG00000147588	ENST00000256103	protein_coding	KNOWN	CCDS6229	9117	399	132	82352561	82359758	-1	None	MP2, FABP8, M-FABP
8	PMP2	ENSG00000147588	ENST00000519260	protein_coding	PUTATIVE	None	9117	183	60	82354648	82359674	-1	None	MP2, FABP8, M-FABP
13	None	ENSG00000223880	ENST00000434832	lincRNA	KNOWN	None	None	None	None	75824616	75826148	1	None	None
X	MAGEA7P	ENSG00000224732	ENST00000436482	unprocessed_pseudogene	KNOWN	None	6805	None	None	148889876	148890817	1	MAGE7, MAGEA7	None
13	TBC1D4-AS1	ENSG00000225203	ENST00000440094	antisense	KNOWN	None	40874	None	None	75949647	75951430	-1	None	None
21	None	ENSG00000240368	ENST00000439593	processed_transcript	KNOWN	None	None	None	None	34931848	34950669	-1	None	None
HSCHR6_MHC_MANN	None	ENSG00000257412	ENST00000549148	pseudogene	NOVEL	None	None	None	None	31274582	31274949	-1	None	None
HG747_PATCH	C17orf58	ENSG00000263085	ENST00000576875	protein_coding	KNOWN	None	27568	294	97	65987217	65989640	-1	None	None
HG747_PATCH	C17orf58	ENSG00000263085	ENST00000577131	protein_coding	KNOWN	None	27568	228	75	65987218	65989668	-1	None	None
HG747_PATCH	C17orf58	ENSG00000263085	ENST00000576607	protein_coding	KNOWN	None	27568	228	75	65987246	65989765	-1	None	None
8	None	ENSG00000188512	ENST00000523393	processed_pseudogene	KNOWN	None	None	None	None	33827085	33827397	-1	None	None
8	None	ENSG00000188512	ENST00000341045	processed_pseudogene	KNOWN	None	None	None	None	33827079	33827396	-1	None	None
HSCHR6_MHC_MANN	USP8P1	ENSG00000229265	ENST00000415606	processed_pseudogene	KNOWN	None	13987	None	None	31286806	31289978	1	USP8P	KIAA0055-hom, D84394.7
13	None	ENSG00000261553	ENST00000563635	processed_transcript	KNOWN	None	None	None	None	76123909	76381256	1	None	None
13	None	ENSG00000261553	ENST00000570285	processed_transcript	KNOWN	None	None	None	None	76140968	76197456	1	None	None
X	DGKK	ENSG00000204466	ENST00000376025	processed_transcript	KNOWN	None	32395	None	None	50108408	50213737	-1	None	None
X	DGKK	ENSG00000204466	ENST00000546288	processed_transcript	KNOWN	None	32395	None	None	50111897	50213737	-1	None	None
HSCHR6_MHC_MANN	RPL3P2	ENSG00000237448	ENST00000414649	processed_pseudogene	KNOWN	None	17834	None	None	31291541	31292743	1	None	RPL3-Hom
HSCHR6_MHC_MANN	WASF5P	ENSG00000234980	ENST00000411428	processed_pseudogene	KNOWN	None	21665	None	None	31298730	31300181	-1	None	Em:D84394.5
8	FABP9	ENSG00000205186	ENST00000379071	protein_coding	KNOWN	None	3563	399	132	82370576	82373814	-1	None	PERF, T-FABP, PERF15
21	LINC00649	ENSG00000237945	ENST00000596365	antisense	KNOWN	None	44305	None	None	35287838	35341887	1	None	None
21	LINC00649	ENSG00000237945	ENST00000597626	antisense	KNOWN	None	44305	None	None	35287852	35341659	1	None	None
21	LINC00649	ENSG00000237945	ENST00000598119	antisense	KNOWN	None	44305	None	None	35287854	35341899	1	None	None
21	LINC00649	ENSG00000237945	ENST00000601471	antisense	KNOWN	None	44305	None	None	35295737	35315434	1	None	None
21	LINC00649	ENSG00000237945	ENST00000427447	antisense	KNOWN	None	44305	None	None	35303464	35349992	1	None	None
21	LINC00649	ENSG00000237945	ENST00000599421	antisense	KNOWN	None	44305	None	None	35303467	35310676	1	None	None
21	LINC00649	ENSG00000237945	ENST00000400353	antisense	KNOWN	None	44305	None	None	35303518	35343487	1	None	None
21	LINC00649	ENSG00000237945	ENST00000594752	antisense	KNOWN	None	44305	None	None	35315860	35341899	1	None	None
21	LINC00649	ENSG00000237945	ENST00000594370	antisense	KNOWN	None	44305	None	None	35315929	35341899	1	None	None
21	LINC00649	ENSG00000237945	ENST00000595747	antisense	KNOWN	None	44305	None	None	35316892	35341899	1	None	None
21	LINC00649	ENSG00000237945	ENST00000593977	antisense	KNOWN	None	44305	None	None	35321030	35341891	1	None	None
21	LINC00649	ENSG00000237945	ENST00000600155	antisense	KNOWN	None	44305	None	None	35321092	35341899	1	None	None
21	LINC00649	ENSG00000237945	ENST00000381181	antisense	KNOWN	None	44305	None	None	35321230	35336260	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000228954	ENST00000453916	unprocessed_pseudogene	KNOWN	None	None	None	None	31319022	31319755	-1	None	None
HSCHR6_MHC_MANN	None	ENSG00000257967	ENST00000551362	pseudogene	NOVEL	None	None	None	None	31347552	31347678	-1	None	None
HSCHR6_MHC_MANN	DHFRP2	ENSG00000233604	ENST00000430561	processed_pseudogene	KNOWN	None	2863	None	None	31377183	31377729	-1	None	None
9	FAM214B	ENSG00000005238	ENST00000378566	protein_coding	KNOWN	None	25666	702	233	35104109	35115847	-1	KIAA1539	FLJ11560, bA182N22.6
9	FAM214B	ENSG00000005238	ENST00000603301	protein_coding	KNOWN	CCDS6578	25666	1617	538	35104118	35111585	-1	KIAA1539	FLJ11560, bA182N22.6
9	FAM214B	ENSG00000005238	ENST00000488109	protein_coding	KNOWN	CCDS6578	25666	1617	538	35104118	35112389	-1	KIAA1539	FLJ11560, bA182N22.6
9	FAM214B	ENSG00000005238	ENST00000322813	protein_coding	KNOWN	CCDS6578	25666	1617	538	35104118	35115893	-1	KIAA1539	FLJ11560, bA182N22.6
9	FAM214B	ENSG00000005238	ENST00000605244	protein_coding	KNOWN	CCDS6578	25666	1617	538	35104118	35116338	-1	KIAA1539	FLJ11560, bA182N22.6
9	FAM214B	ENSG00000005238	ENST00000378561	protein_coding	KNOWN	CCDS6578	25666	1617	538	35104120	35111571	-1	KIAA1539	FLJ11560, bA182N22.6
9	FAM214B	ENSG00000005238	ENST00000378557	protein_coding	KNOWN	CCDS6578	25666	1617	538	35104139	35111420	-1	KIAA1539	FLJ11560, bA182N22.6
9	FAM214B	ENSG00000005238	ENST00000378554	protein_coding	KNOWN	None	25666	1329	442	35104166	35115875	-1	KIAA1539	FLJ11560, bA182N22.6
9	FAM214B	ENSG00000005238	ENST00000605104	processed_transcript	KNOWN	None	25666	None	None	35108232	35115859	-1	KIAA1539	FLJ11560, bA182N22.6
9	FAM214B	ENSG00000005238	ENST00000605392	processed_transcript	KNOWN	None	25666	None	None	35108342	35115859	-1	KIAA1539	FLJ11560, bA182N22.6
HSCHR6_MHC_MANN	None	ENSG00000263701	ENST00000577780	snRNA	NOVEL	None	None	None	None	31380966	31381072	1	None	None
8	FABP4	ENSG00000170323	ENST00000256104	protein_coding	KNOWN	CCDS6230	3559	399	132	82390654	82395498	-1	None	A-FABP, aP2
8	FABP4	ENSG00000170323	ENST00000518669	processed_transcript	KNOWN	None	3559	None	None	82390924	82395471	-1	None	A-FABP, aP2
8	FABP4	ENSG00000170323	ENST00000522659	nonsense_mediated_decay	KNOWN	None	3559	120	39	82390934	82395468	-1	None	A-FABP, aP2
8	FABP4	ENSG00000170323	ENST00000521734	retained_intron	KNOWN	None	3559	None	None	82390947	82392205	-1	None	A-FABP, aP2
20	MYH7B	ENSG00000078814	ENST00000262873	protein_coding	NOVEL	CCDS42869	15906	5952	1983	33563206	33590240	1	None	KIAA1512, dJ756N5.1, MYH14, MHC14
20	MYH7B	ENSG00000078814	ENST00000470929	retained_intron	KNOWN	None	15906	None	None	33565470	33569828	1	None	KIAA1512, dJ756N5.1, MYH14, MHC14
20	MYH7B	ENSG00000078814	ENST00000481922	processed_transcript	KNOWN	None	15906	None	None	33567850	33569078	1	None	KIAA1512, dJ756N5.1, MYH14, MHC14
20	MYH7B	ENSG00000078814	ENST00000446156	protein_coding	PUTATIVE	None	15906	435	144	33589048	33590240	1	None	KIAA1512, dJ756N5.1, MYH14, MHC14
20	MYH7B	ENSG00000078814	ENST00000453028	protein_coding	PUTATIVE	None	15906	369	122	33589048	33590240	1	None	KIAA1512, dJ756N5.1, MYH14, MHC14
20	MYH7B	ENSG00000078814	ENST00000435272	protein_coding	PUTATIVE	None	15906	450	149	33589048	33590240	1	None	KIAA1512, dJ756N5.1, MYH14, MHC14
20	MYH7B	ENSG00000078814	ENST00000433934	protein_coding	PUTATIVE	None	15906	432	143	33589048	33590240	1	None	KIAA1512, dJ756N5.1, MYH14, MHC14
20	MYH7B	ENSG00000078814	ENST00000456649	protein_coding	PUTATIVE	None	15906	450	149	33589048	33590240	1	None	KIAA1512, dJ756N5.1, MYH14, MHC14
9	FAM189A2	ENSG00000135063	ENST00000257515	protein_coding	KNOWN	CCDS6629	24820	1353	450	71944241	72007370	1	C9orf61	X123
9	FAM189A2	ENSG00000135063	ENST00000303068	protein_coding	KNOWN	None	24820	858	285	71986182	72007371	1	C9orf61	X123
9	FAM189A2	ENSG00000135063	ENST00000460871	processed_transcript	KNOWN	None	24820	None	None	71990699	72007370	1	C9orf61	X123
9	FAM189A2	ENSG00000135063	ENST00000469179	processed_transcript	KNOWN	None	24820	None	None	72000736	72006629	1	C9orf61	X123
9	FAM189A2	ENSG00000135063	ENST00000377216	protein_coding	KNOWN	None	24820	714	237	72002837	72007371	1	C9orf61	X123
9	FAM189A2	ENSG00000135063	ENST00000455972	protein_coding	KNOWN	CCDS6629	24820	1353	450	71939488	72007370	1	C9orf61	X123
HSCHR6_MHC_MANN	None	ENSG00000224131	ENST00000430251	processed_pseudogene	NOVEL	None	None	None	None	31388244	31388845	1	None	None
HSCHR6_MHC_MANN	ZDHHC20P2	ENSG00000226732	ENST00000433773	processed_pseudogene	KNOWN	None	33457	None	None	31391241	31391669	1	None	OTTHUMG00000133740
HG747_PATCH	KPNA2	ENSG00000262472	ENST00000571293	protein_coding	KNOWN	None	6395	1590	529	66031635	66042958	1	RCH1	SRP1alpha, IPOA1, QIP2
HG747_PATCH	KPNA2	ENSG00000262472	ENST00000579288	nonsense_mediated_decay	KNOWN	None	6395	153	50	66031824	66038325	1	RCH1	SRP1alpha, IPOA1, QIP2
HG747_PATCH	KPNA2	ENSG00000262472	ENST00000581493	protein_coding	KNOWN	None	6395	402	133	66031851	66038300	1	RCH1	SRP1alpha, IPOA1, QIP2
HG747_PATCH	KPNA2	ENSG00000262472	ENST00000574083	protein_coding	KNOWN	None	6395	1590	529	66032076	66042958	1	RCH1	SRP1alpha, IPOA1, QIP2
HG747_PATCH	KPNA2	ENSG00000262472	ENST00000582771	protein_coding	KNOWN	None	6395	430	142	66033110	66038328	1	RCH1	SRP1alpha, IPOA1, QIP2
HG747_PATCH	KPNA2	ENSG00000262472	ENST00000579452	retained_intron	KNOWN	None	6395	None	None	66039028	66040008	1	RCH1	SRP1alpha, IPOA1, QIP2
HG747_PATCH	KPNA2	ENSG00000262472	ENST00000585022	processed_transcript	KNOWN	None	6395	None	None	66041584	66042745	1	RCH1	SRP1alpha, IPOA1, QIP2
14	FERMT2	ENSG00000073712	ENST00000395631	protein_coding	KNOWN	CCDS9713	15767	2043	680	53323986	53417753	-1	PLEKHC1	mig-2, KIND2, UNC112B
14	FERMT2	ENSG00000073712	ENST00000341590	protein_coding	KNOWN	CCDS9713	15767	2043	680	53323986	53417815	-1	PLEKHC1	mig-2, KIND2, UNC112B
14	FERMT2	ENSG00000073712	ENST00000557255	processed_transcript	KNOWN	None	15767	None	None	53323989	53330395	-1	PLEKHC1	mig-2, KIND2, UNC112B
14	FERMT2	ENSG00000073712	ENST00000554152	protein_coding	NOVEL	None	15767	1923	640	53323989	53386057	-1	PLEKHC1	mig-2, KIND2, UNC112B
14	FERMT2	ENSG00000073712	ENST00000555546	retained_intron	KNOWN	None	15767	None	None	53323990	53328021	-1	PLEKHC1	mig-2, KIND2, UNC112B
14	FERMT2	ENSG00000073712	ENST00000553373	protein_coding	KNOWN	CCDS45107	15767	2064	687	53325095	53417286	-1	PLEKHC1	mig-2, KIND2, UNC112B
14	FERMT2	ENSG00000073712	ENST00000553663	protein_coding	NOVEL	None	15767	400	132	53326024	53331239	-1	PLEKHC1	mig-2, KIND2, UNC112B
14	FERMT2	ENSG00000073712	ENST00000399304	protein_coding	KNOWN	CCDS45108	15767	1902	633	53326206	53417736	-1	PLEKHC1	mig-2, KIND2, UNC112B
14	FERMT2	ENSG00000073712	ENST00000553768	processed_transcript	KNOWN	None	15767	None	None	53326291	53340428	-1	PLEKHC1	mig-2, KIND2, UNC112B
14	FERMT2	ENSG00000073712	ENST00000554288	protein_coding	PUTATIVE	None	15767	467	154	53347827	53395138	-1	PLEKHC1	mig-2, KIND2, UNC112B
14	FERMT2	ENSG00000073712	ENST00000555692	protein_coding	PUTATIVE	None	15767	399	132	53360006	53395117	-1	PLEKHC1	mig-2, KIND2, UNC112B
14	FERMT2	ENSG00000073712	ENST00000554712	protein_coding	KNOWN	None	15767	460	152	53360077	53419153	-1	PLEKHC1	mig-2, KIND2, UNC112B
14	FERMT2	ENSG00000073712	ENST00000557562	nonsense_mediated_decay	KNOWN	None	15767	198	65	53360094	53417629	-1	PLEKHC1	mig-2, KIND2, UNC112B
14	FERMT2	ENSG00000073712	ENST00000343279	protein_coding	KNOWN	CCDS45107	15767	2064	687	53323993	53417815	-1	PLEKHC1	mig-2, KIND2, UNC112B
HSCHR6_MHC_MANN	HLA-S	ENSG00000228179	ENST00000440712	unprocessed_pseudogene	KNOWN	None	19395	None	None	31392904	31393118	-1	None	HLA-17
8	FABP12	ENSG00000197416	ENST00000519696	nonsense_mediated_decay	KNOWN	None	34524	271	89	82437216	82443503	-1	None	None
8	FABP12	ENSG00000197416	ENST00000360464	protein_coding	KNOWN	CCDS47882	34524	423	140	82437216	82443613	-1	None	None
20	PHF20	ENSG00000025293	ENST00000461122	processed_transcript	KNOWN	None	16098	None	None	34359896	34451322	1	C20orf104	dJ1121G12.1, TDRD20A
20	PHF20	ENSG00000025293	ENST00000374012	protein_coding	KNOWN	CCDS13268	16098	3039	1012	34359905	34538303	1	C20orf104	dJ1121G12.1, TDRD20A
20	PHF20	ENSG00000025293	ENST00000461405	retained_intron	KNOWN	None	16098	None	None	34359934	34389894	1	C20orf104	dJ1121G12.1, TDRD20A
20	PHF20	ENSG00000025293	ENST00000452270	nonsense_mediated_decay	KNOWN	None	16098	312	103	34359944	34435352	1	C20orf104	dJ1121G12.1, TDRD20A
20	PHF20	ENSG00000025293	ENST00000339089	protein_coding	KNOWN	None	16098	1629	542	34359948	34501238	1	C20orf104	dJ1121G12.1, TDRD20A
20	PHF20	ENSG00000025293	ENST00000481202	processed_transcript	KNOWN	None	16098	None	None	34359948	34501238	1	C20orf104	dJ1121G12.1, TDRD20A
20	PHF20	ENSG00000025293	ENST00000374000	protein_coding	KNOWN	None	16098	1648	548	34359948	34501257	1	C20orf104	dJ1121G12.1, TDRD20A
20	PHF20	ENSG00000025293	ENST00000449988	protein_coding	PUTATIVE	None	16098	463	153	34437311	34451298	1	C20orf104	dJ1121G12.1, TDRD20A
20	PHF20	ENSG00000025293	ENST00000486408	processed_transcript	KNOWN	None	16098	None	None	34443153	34459042	1	C20orf104	dJ1121G12.1, TDRD20A
20	PHF20	ENSG00000025293	ENST00000495338	processed_transcript	KNOWN	None	16098	None	None	34443176	34487447	1	C20orf104	dJ1121G12.1, TDRD20A
20	PHF20	ENSG00000025293	ENST00000496305	processed_transcript	KNOWN	None	16098	None	None	34443223	34451170	1	C20orf104	dJ1121G12.1, TDRD20A
20	PHF20	ENSG00000025293	ENST00000480940	processed_transcript	KNOWN	None	16098	None	None	34444278	34451322	1	C20orf104	dJ1121G12.1, TDRD20A
20	PHF20	ENSG00000025293	ENST00000485604	retained_intron	KNOWN	None	16098	None	None	34457452	34459815	1	C20orf104	dJ1121G12.1, TDRD20A
20	PHF20	ENSG00000025293	ENST00000420233	protein_coding	PUTATIVE	None	16098	192	63	34505102	34505581	1	C20orf104	dJ1121G12.1, TDRD20A
20	PHF20	ENSG00000025293	ENST00000473943	retained_intron	KNOWN	None	16098	None	None	34526554	34528851	1	C20orf104	dJ1121G12.1, TDRD20A
20	PHF20	ENSG00000025293	ENST00000439301	protein_coding	KNOWN	None	16098	819	272	34359923	34538288	1	C20orf104	dJ1121G12.1, TDRD20A
13	None	ENSG00000229137	ENST00000453309	lincRNA	KNOWN	None	None	None	None	21861545	21868998	1	None	None
13	IL17D	ENSG00000172458	ENST00000498088	processed_transcript	KNOWN	None	5984	None	None	21276266	21278225	1	None	IL-22, IL-27, IL-17D, IL27, FLJ30846
13	IL17D	ENSG00000172458	ENST00000304920	protein_coding	KNOWN	CCDS9292	5984	609	202	21277482	21297237	1	None	IL-22, IL-27, IL-17D, IL27, FLJ30846
13	IL17D	ENSG00000172458	ENST00000468605	processed_transcript	KNOWN	None	5984	None	None	21278218	21295824	1	None	IL-22, IL-27, IL-17D, IL27, FLJ30846
13	MIPEPP3	ENSG00000233325	ENST00000424756	processed_transcript	KNOWN	None	39458	None	None	21872278	21878694	1	None	None
13	MIPEPP3	ENSG00000233325	ENST00000412105	transcribed_unprocessed_pseudogene	KNOWN	None	39458	None	None	21872398	21880512	1	None	None
22	RTCB	ENSG00000100220	ENST00000216038	protein_coding	KNOWN	CCDS13905	26935	1518	505	32783569	32808242	-1	C22orf28	HSPC117, FAAP
22	RTCB	ENSG00000100220	ENST00000498434	retained_intron	KNOWN	None	26935	None	None	32793935	32795972	-1	C22orf28	HSPC117, FAAP
22	RTCB	ENSG00000100220	ENST00000476619	processed_transcript	KNOWN	None	26935	None	None	32794029	32803513	-1	C22orf28	HSPC117, FAAP
22	RTCB	ENSG00000100220	ENST00000485373	processed_transcript	KNOWN	None	26935	None	None	32794035	32803396	-1	C22orf28	HSPC117, FAAP
22	RTCB	ENSG00000100220	ENST00000487704	retained_intron	KNOWN	None	26935	None	None	32797549	32808228	-1	C22orf28	HSPC117, FAAP
22	RTCB	ENSG00000100220	ENST00000463455	retained_intron	KNOWN	None	26935	None	None	32803866	32808235	-1	C22orf28	HSPC117, FAAP
22	RTCB	ENSG00000100220	ENST00000451746	protein_coding	KNOWN	None	26935	528	175	32783588	32808224	-1	C22orf28	HSPC117, FAAP
HSCHR6_MHC_MANN	None	ENSG00000266747	ENST00000577206	misc_RNA	NOVEL	None	None	None	None	31412966	31413064	-1	None	None
HG243_PATCH	CPSF1	ENSG00000261230	ENST00000563070	retained_intron	KNOWN	None	2324	None	None	145448132	145449319	-1	None	None
HG243_PATCH	CPSF1	ENSG00000261230	ENST00000562358	protein_coding	NOVEL	None	2324	615	204	145448132	145449344	-1	None	None
HG243_PATCH	CPSF1	ENSG00000261230	ENST00000568627	protein_coding	KNOWN	None	2324	4332	1443	145448221	145464191	-1	None	None
HG243_PATCH	CPSF1	ENSG00000261230	ENST00000567182	retained_intron	KNOWN	None	2324	None	None	145448468	145449140	-1	None	None
HG243_PATCH	CPSF1	ENSG00000261230	ENST00000569521	retained_intron	KNOWN	None	2324	None	None	145448602	145449619	-1	None	None
HG243_PATCH	CPSF1	ENSG00000261230	ENST00000564412	protein_coding	NOVEL	None	2324	506	167	145448786	145449664	-1	None	None
HG243_PATCH	CPSF1	ENSG00000261230	ENST00000565252	nonsense_mediated_decay	KNOWN	None	2324	447	148	145449672	145464084	-1	None	None
HG243_PATCH	CPSF1	ENSG00000261230	ENST00000567814	retained_intron	KNOWN	None	2324	None	None	145450216	145450882	-1	None	None
HG243_PATCH	CPSF1	ENSG00000261230	ENST00000568220	retained_intron	KNOWN	None	2324	None	None	145450918	145451633	-1	None	None
HG243_PATCH	CPSF1	ENSG00000261230	ENST00000564339	retained_intron	KNOWN	None	2324	None	None	145453426	145454249	-1	None	None
HG243_PATCH	CPSF1	ENSG00000261230	ENST00000563089	retained_intron	KNOWN	None	2324	None	None	145454123	145454710	-1	None	None
HG243_PATCH	CPSF1	ENSG00000261230	ENST00000566867	retained_intron	KNOWN	None	2324	None	None	145454703	145455889	-1	None	None
HG243_PATCH	CPSF1	ENSG00000261230	ENST00000564740	retained_intron	KNOWN	None	2324	None	None	145454712	145456578	-1	None	None
13	None	ENSG00000224429	ENST00000434601	lincRNA	KNOWN	None	None	None	None	21877651	21922860	-1	None	None
13	None	ENSG00000224429	ENST00000423575	lincRNA	KNOWN	None	None	None	None	21897408	21918984	-1	None	None
13	None	ENSG00000224429	ENST00000411525	lincRNA	KNOWN	None	None	None	None	21899764	21922860	-1	None	None
HSCHR6_MHC_MANN	None	ENSG00000258113	ENST00000552504	pseudogene	NOVEL	None	None	None	None	31428753	31429053	1	None	None
8	ZNF572	ENSG00000180938	ENST00000319286	protein_coding	KNOWN	CCDS6354	26758	1590	529	125985540	125991631	1	None	FLJ38002
HSCHR6_MHC_MANN	None	ENSG00000231836	ENST00000413634	processed_transcript	KNOWN	None	None	None	None	31451929	31457226	1	None	None
HSCHR6_MHC_MANN	PPIAP9	ENSG00000229216	ENST00000420447	processed_pseudogene	KNOWN	None	9272	None	None	31526785	31527596	-1	PPIP9	Em:AC006046.3
13	GRK6P1	ENSG00000215571	ENST00000400595	processed_pseudogene	KNOWN	None	4547	None	None	21893295	21895005	1	GPRK6L, GPRK6P, GRK6PS	None
13	GRK6P1	ENSG00000215571	ENST00000505183	processed_pseudogene	KNOWN	None	4547	None	None	21893231	21894745	1	GPRK6L, GPRK6P, GRK6PS	None
HSCHR6_MHC_DBB	BAG6	ENSG00000227761	ENST00000464904	processed_transcript	PUTATIVE	None	13919	None	None	31588979	31589739	-1	BAT3	G3, D6S52E
HSCHR6_MHC_DBB	BAG6	ENSG00000227761	ENST00000483249	processed_transcript	PUTATIVE	None	13919	None	None	31588979	31590490	-1	BAT3	G3, D6S52E
HSCHR6_MHC_DBB	BAG6	ENSG00000227761	ENST00000434874	protein_coding	KNOWN	None	13919	410	135	31588979	31590888	-1	BAT3	G3, D6S52E
HSCHR6_MHC_DBB	BAG6	ENSG00000227761	ENST00000423989	protein_coding	KNOWN	None	13919	680	225	31588979	31591179	-1	BAT3	G3, D6S52E
HSCHR6_MHC_DBB	BAG6	ENSG00000227761	ENST00000422756	protein_coding	KNOWN	None	13919	3381	1126	31588979	31602352	-1	BAT3	G3, D6S52E
HSCHR6_MHC_DBB	BAG6	ENSG00000227761	ENST00000425649	protein_coding	KNOWN	None	13919	3399	1132	31588979	31602594	-1	BAT3	G3, D6S52E
HSCHR6_MHC_DBB	BAG6	ENSG00000227761	ENST00000434446	protein_coding	KNOWN	None	13919	3381	1126	31588979	31602664	-1	BAT3	G3, D6S52E
HSCHR6_MHC_DBB	BAG6	ENSG00000227761	ENST00000465191	retained_intron	KNOWN	None	13919	None	None	31590776	31592096	-1	BAT3	G3, D6S52E
HSCHR6_MHC_DBB	BAG6	ENSG00000227761	ENST00000463220	processed_transcript	PUTATIVE	None	13919	None	None	31591799	31594270	-1	BAT3	G3, D6S52E
HSCHR6_MHC_DBB	BAG6	ENSG00000227761	ENST00000415170	protein_coding	KNOWN	None	13919	2228	741	31592170	31602637	-1	BAT3	G3, D6S52E
HSCHR6_MHC_DBB	BAG6	ENSG00000227761	ENST00000491914	processed_transcript	PUTATIVE	None	13919	None	None	31592631	31594154	-1	BAT3	G3, D6S52E
HSCHR6_MHC_DBB	BAG6	ENSG00000227761	ENST00000419635	protein_coding	KNOWN	None	13919	714	237	31592779	31595023	-1	BAT3	G3, D6S52E
HSCHR6_MHC_DBB	BAG6	ENSG00000227761	ENST00000435543	protein_coding	KNOWN	None	13919	736	244	31592817	31595444	-1	BAT3	G3, D6S52E
HSCHR6_MHC_DBB	BAG6	ENSG00000227761	ENST00000488142	processed_transcript	KNOWN	None	13919	None	None	31592906	31595515	-1	BAT3	G3, D6S52E
HSCHR6_MHC_DBB	BAG6	ENSG00000227761	ENST00000455689	protein_coding	KNOWN	None	13919	554	183	31593060	31595457	-1	BAT3	G3, D6S52E
HSCHR6_MHC_DBB	BAG6	ENSG00000227761	ENST00000449874	protein_coding	KNOWN	None	13919	1545	514	31594271	31602320	-1	BAT3	G3, D6S52E
HSCHR6_MHC_DBB	BAG6	ENSG00000227761	ENST00000497585	processed_transcript	KNOWN	None	13919	None	None	31594448	31595139	-1	BAT3	G3, D6S52E
HSCHR6_MHC_DBB	BAG6	ENSG00000227761	ENST00000432174	protein_coding	KNOWN	None	13919	734	243	31597546	31601875	-1	BAT3	G3, D6S52E
HSCHR6_MHC_DBB	BAG6	ENSG00000227761	ENST00000420075	protein_coding	KNOWN	None	13919	788	261	31597546	31602113	-1	BAT3	G3, D6S52E
HSCHR6_MHC_DBB	BAG6	ENSG00000227761	ENST00000438330	protein_coding	KNOWN	None	13919	734	243	31597546	31602313	-1	BAT3	G3, D6S52E
HSCHR6_MHC_DBB	BAG6	ENSG00000227761	ENST00000456223	protein_coding	KNOWN	None	13919	786	261	31597548	31602108	-1	BAT3	G3, D6S52E
HSCHR6_MHC_DBB	BAG6	ENSG00000227761	ENST00000428271	protein_coding	KNOWN	None	13919	731	242	31597549	31602607	-1	BAT3	G3, D6S52E
HSCHR6_MHC_DBB	BAG6	ENSG00000227761	ENST00000431345	protein_coding	KNOWN	None	13919	779	258	31597555	31601930	-1	BAT3	G3, D6S52E
HSCHR6_MHC_DBB	BAG6	ENSG00000227761	ENST00000452627	protein_coding	KNOWN	None	13919	775	257	31597559	31602626	-1	BAT3	G3, D6S52E
HSCHR6_MHC_DBB	BAG6	ENSG00000227761	ENST00000436859	protein_coding	KNOWN	None	13919	645	214	31597635	31602278	-1	BAT3	G3, D6S52E
HSCHR6_MHC_DBB	BAG6	ENSG00000227761	ENST00000446133	protein_coding	KNOWN	None	13919	698	231	31597654	31602604	-1	BAT3	G3, D6S52E
HSCHR6_MHC_DBB	BAG6	ENSG00000227761	ENST00000431989	protein_coding	KNOWN	None	13919	619	205	31597661	31602404	-1	BAT3	G3, D6S52E
HSCHR6_MHC_DBB	BAG6	ENSG00000227761	ENST00000416755	protein_coding	KNOWN	None	13919	591	196	31597743	31601934	-1	BAT3	G3, D6S52E
HSCHR6_MHC_DBB	BAG6	ENSG00000227761	ENST00000483830	processed_transcript	PUTATIVE	None	13919	None	None	31598683	31602277	-1	BAT3	G3, D6S52E
HSCHR6_MHC_DBB	BAG6	ENSG00000227761	ENST00000420098	protein_coding	KNOWN	None	13919	476	157	31598867	31602070	-1	BAT3	G3, D6S52E
HSCHR6_MHC_DBB	BAG6	ENSG00000227761	ENST00000466934	processed_transcript	PUTATIVE	None	13919	None	None	31599185	31602597	-1	BAT3	G3, D6S52E
HSCHR6_MHC_DBB	BAG6	ENSG00000227761	ENST00000552467	protein_coding	KNOWN	None	13919	3489	1162	31588980	31602659	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MANN	RPL15P4	ENSG00000236273	ENST00000419391	processed_pseudogene	KNOWN	None	21663	None	None	31535410	31535989	1	None	Em:AC006046.2
HSCHR6_MHC_MANN	None	ENSG00000265116	ENST00000579412	snoRNA	KNOWN	None	None	None	None	31543668	31543743	-1	None	None
HSCHR6_MHC_MANN	None	ENSG00000265325	ENST00000582411	snoRNA	KNOWN	None	None	None	None	31548377	31548454	-1	None	None
18	None	ENSG00000266708	ENST00000580267	antisense	KNOWN	None	None	None	None	8635177	8636345	-1	None	None
9	CTSL	ENSG00000135047	ENST00000343150	protein_coding	KNOWN	CCDS6675	2537	1002	333	90340434	90346307	1	CTSL1	FLJ31037
9	CTSL	ENSG00000135047	ENST00000340342	protein_coding	KNOWN	CCDS6675	2537	1002	333	90341024	90346301	1	CTSL1	FLJ31037
9	CTSL	ENSG00000135047	ENST00000375894	processed_transcript	KNOWN	None	2537	None	None	90341029	90345988	1	CTSL1	FLJ31037
9	CTSL	ENSG00000135047	ENST00000495822	processed_transcript	KNOWN	None	2537	None	None	90341049	90346308	1	CTSL1	FLJ31037
9	CTSL	ENSG00000135047	ENST00000342020	protein_coding	KNOWN	None	2537	678	225	90341055	90343912	1	CTSL1	FLJ31037
9	CTSL	ENSG00000135047	ENST00000482054	processed_transcript	KNOWN	None	2537	None	None	90341055	90344595	1	CTSL1	FLJ31037
20	C20orf194	ENSG00000088854	ENST00000252032	protein_coding	KNOWN	CCDS42851	17721	3534	1177	3229951	3388272	-1	None	DKFZp434N061
20	C20orf194	ENSG00000088854	ENST00000498079	processed_transcript	KNOWN	None	17721	None	None	3276140	3296737	-1	None	DKFZp434N061
20	C20orf194	ENSG00000088854	ENST00000453730	protein_coding	KNOWN	None	17721	1488	495	3233026	3321608	-1	None	DKFZp434N061
18	None	ENSG00000263935	ENST00000579772	processed_pseudogene	KNOWN	None	None	None	None	8688020	8688408	-1	None	None
18	None	ENSG00000265962	ENST00000579368	antisense	KNOWN	None	None	None	None	8695854	8707619	-1	None	None
13	GAPDHP52	ENSG00000235076	ENST00000449535	processed_pseudogene	KNOWN	None	38558	None	None	21932512	21933453	1	None	None
14	None	ENSG00000258694	ENST00000555852	lincRNA	KNOWN	None	None	None	None	52577840	52596343	-1	None	None
6	EXOC2	ENSG00000112685	ENST00000230449	protein_coding	KNOWN	CCDS34327	24968	2775	924	485133	693111	-1	SEC5L1	FLJ11026, Sec5p
6	EXOC2	ENSG00000112685	ENST00000443083	protein_coding	KNOWN	None	24968	422	139	629835	693111	-1	SEC5L1	FLJ11026, Sec5p
6	EXOC2	ENSG00000112685	ENST00000475028	processed_transcript	KNOWN	None	24968	None	None	679143	693108	-1	SEC5L1	FLJ11026, Sec5p
6	EXOC2	ENSG00000112685	ENST00000448181	protein_coding	KNOWN	None	24968	1560	519	486518	693117	-1	SEC5L1	FLJ11026, Sec5p
18	None	ENSG00000252319	ENST00000516510	misc_RNA	NOVEL	None	None	None	None	8720032	8720130	-1	None	None
18	RPS4XP19	ENSG00000242058	ENST00000460237	processed_pseudogene	KNOWN	None	36872	None	None	9020027	9020762	1	RPS4P19	None
8	None	ENSG00000246582	ENST00000517774	antisense	KNOWN	None	None	None	None	23081984	23083395	1	None	None
8	None	ENSG00000246582	ENST00000500853	antisense	KNOWN	None	None	None	None	23082734	23088439	1	None	None
8	None	ENSG00000246582	ENST00000522600	retained_intron	KNOWN	None	None	None	None	23083147	23085720	1	None	None
9	APBA1	ENSG00000107282	ENST00000265381	protein_coding	KNOWN	CCDS6630	578	2514	837	72042446	72287222	-1	MINT1	D9S411E, X11
9	APBA1	ENSG00000107282	ENST00000470082	processed_transcript	KNOWN	None	578	None	None	72071195	72082864	-1	MINT1	D9S411E, X11
18	None	ENSG00000265257	ENST00000579126	processed_transcript	KNOWN	None	None	None	None	9102734	9182522	1	None	None
18	None	ENSG00000265257	ENST00000578850	processed_transcript	KNOWN	None	None	None	None	9102734	9254344	1	None	None
13	N6AMT2	ENSG00000150456	ENST00000382758	protein_coding	KNOWN	CCDS9293	27351	645	214	21302870	21348088	-1	None	None
13	N6AMT2	ENSG00000150456	ENST00000382754	protein_coding	KNOWN	CCDS9293	27351	645	214	21303070	21348057	-1	None	None
13	N6AMT2	ENSG00000150456	ENST00000460374	processed_transcript	KNOWN	None	27351	None	None	21331368	21348097	-1	None	None
14	COX5AP2	ENSG00000258981	ENST00000554418	processed_pseudogene	KNOWN	None	20005	None	None	52584320	52584713	1	None	None
X	RANP4	ENSG00000225125	ENST00000413361	processed_pseudogene	KNOWN	None	39859	None	None	135889382	135890036	-1	None	None
HSCHR6_MHC_APD	ZNRD1	ENSG00000235443	ENST00000465992	retained_intron	KNOWN	None	13182	None	None	29963516	29969520	1	None	hZR14, HTEX-6, tctex-6, RPA12
HSCHR6_MHC_APD	ZNRD1	ENSG00000235443	ENST00000443494	protein_coding	KNOWN	None	13182	381	126	29965871	29969520	1	None	hZR14, HTEX-6, tctex-6, RPA12
HSCHR6_MHC_APD	ZNRD1	ENSG00000235443	ENST00000437507	protein_coding	KNOWN	None	13182	381	126	29965874	29969520	1	None	hZR14, HTEX-6, tctex-6, RPA12
HSCHR6_MHC_APD	ZNRD1	ENSG00000235443	ENST00000443142	protein_coding	KNOWN	None	13182	381	126	29965876	29969520	1	None	hZR14, HTEX-6, tctex-6, RPA12
HSCHR6_MHC_APD	ZNRD1	ENSG00000235443	ENST00000453694	protein_coding	KNOWN	None	13182	381	126	29965880	29969520	1	None	hZR14, HTEX-6, tctex-6, RPA12
HSCHR6_MHC_APD	ZNRD1	ENSG00000235443	ENST00000471263	processed_transcript	KNOWN	None	13182	None	None	29965947	29969520	1	None	hZR14, HTEX-6, tctex-6, RPA12
18	None	ENSG00000263847	ENST00000579467	antisense	KNOWN	None	None	None	None	9112402	9115875	-1	None	None
14	None	ENSG00000258440	ENST00000554408	processed_pseudogene	KNOWN	None	None	None	None	52622458	52622897	1	None	None
X	None	ENSG00000202279	ENST00000365409	misc_RNA	NOVEL	None	None	None	None	135898636	135898733	-1	None	None
18	None	ENSG00000266053	ENST00000582375	antisense	KNOWN	None	None	None	None	9121263	9136643	-1	None	None
18	None	ENSG00000266053	ENST00000583081	antisense	KNOWN	None	None	None	None	9121275	9133420	-1	None	None
8	None	ENSG00000250714	ENST00000511929	antisense	KNOWN	None	None	None	None	23082746	23088428	-1	None	None
14	None	ENSG00000261208	ENST00000565135	processed_pseudogene	KNOWN	None	None	None	None	52753515	52755986	1	None	None
18	None	ENSG00000200883	ENST00000364013	misc_RNA	NOVEL	None	None	None	None	9249647	9249744	-1	None	None
X	None	ENSG00000232611	ENST00000435597	lincRNA	KNOWN	None	None	None	None	135923090	135929956	-1	None	None
13	RNA5SP25	ENSG00000222747	ENST00000410815	rRNA	KNOWN	None	42601	None	None	21943929	21944038	-1	RN5S25	None
8	None	ENSG00000253837	ENST00000517420	retained_intron	KNOWN	None	None	None	None	23193684	23199049	1	None	None
8	None	ENSG00000253837	ENST00000519692	antisense	KNOWN	None	None	None	None	23193721	23223638	1	None	None
HSCHR6_MHC_MANN	DDX39B-AS1	ENSG00000231647	ENST00000428170	processed_transcript	PUTATIVE	None	39771	None	None	31549580	31550403	1	None	None
HSCHR6_MHC_MANN	DDX39B-AS1	ENSG00000231647	ENST00000446935	processed_transcript	PUTATIVE	None	39771	None	None	31549649	31550414	1	None	None
13	ZDHHC20-IT1	ENSG00000236953	ENST00000417513	sense_intronic	KNOWN	None	39900	None	None	21951116	21952013	-1	None	None
13	HIST1H2BPS3	ENSG00000226908	ENST00000419683	processed_pseudogene	KNOWN	None	42633	None	None	22057973	22058313	-1	None	None
HSCHR6_MHC_MANN	None	ENSG00000266847	ENST00000580626	snoRNA	KNOWN	None	None	None	None	31630340	31630471	1	None	None
13	None	ENSG00000238878	ENST00000459621	snoRNA	NOVEL	None	None	None	None	22101939	22102039	-1	None	None
HG747_PATCH	AMZ2	ENSG00000262747	ENST00000575682	protein_coding	KNOWN	None	28041	1083	360	66243690	66253272	1	None	None
HG747_PATCH	AMZ2	ENSG00000262747	ENST00000577232	protein_coding	KNOWN	None	28041	586	194	66244046	66247294	1	None	None
HG747_PATCH	AMZ2	ENSG00000262747	ENST00000583572	protein_coding	KNOWN	None	28041	1083	360	66244151	66253255	1	None	None
HG747_PATCH	AMZ2	ENSG00000262747	ENST00000573646	protein_coding	KNOWN	None	28041	1083	360	66244159	66253270	1	None	None
HG747_PATCH	AMZ2	ENSG00000262747	ENST00000574972	protein_coding	KNOWN	None	28041	909	302	66244167	66253243	1	None	None
HG747_PATCH	AMZ2	ENSG00000262747	ENST00000583653	protein_coding	PUTATIVE	None	28041	665	220	66244174	66250682	1	None	None
HG747_PATCH	AMZ2	ENSG00000262747	ENST00000580857	retained_intron	KNOWN	None	28041	None	None	66244186	66253269	1	None	None
HG747_PATCH	AMZ2	ENSG00000262747	ENST00000581253	protein_coding	KNOWN	None	28041	620	205	66244191	66250553	1	None	None
HG747_PATCH	AMZ2	ENSG00000262747	ENST00000582454	protein_coding	KNOWN	None	28041	745	247	66244193	66250678	1	None	None
HG747_PATCH	AMZ2	ENSG00000262747	ENST00000578870	protein_coding	KNOWN	None	28041	591	196	66244218	66250524	1	None	None
HG747_PATCH	AMZ2	ENSG00000262747	ENST00000584964	protein_coding	KNOWN	None	28041	1083	360	66244620	66253206	1	None	None
HG747_PATCH	AMZ2	ENSG00000262747	ENST00000585147	processed_transcript	KNOWN	None	28041	None	None	66244651	66253042	1	None	None
HG747_PATCH	AMZ2	ENSG00000262747	ENST00000580324	processed_transcript	KNOWN	None	28041	None	None	66245127	66247181	1	None	None
HG747_PATCH	AMZ2	ENSG00000262747	ENST00000582462	protein_coding	KNOWN	None	28041	1083	360	66245316	66253271	1	None	None
HG747_PATCH	AMZ2	ENSG00000262747	ENST00000581496	protein_coding	PUTATIVE	None	28041	606	201	66246303	66253237	1	None	None
HG747_PATCH	AMZ2	ENSG00000262747	ENST00000584233	nonsense_mediated_decay	KNOWN	None	28041	229	75	66246399	66251933	1	None	None
HG747_PATCH	AMZ2	ENSG00000262747	ENST00000582148	nonsense_mediated_decay	KNOWN	None	28041	72	23	66246562	66253269	1	None	None
HG747_PATCH	AMZ2	ENSG00000262747	ENST00000579073	processed_transcript	KNOWN	None	28041	None	None	66247402	66253271	1	None	None
13	FNTAP2	ENSG00000230022	ENST00000430308	processed_pseudogene	KNOWN	None	3784	None	None	22104829	22105462	1	FNTAL2	None
HSCHR6_MHC_MANN	None	ENSG00000257516	ENST00000552117	pseudogene	NOVEL	None	None	None	None	31665567	31668003	-1	None	None
5	RXFP3	ENSG00000182631	ENST00000330120	protein_coding	KNOWN	CCDS3900	24883	1410	469	33936491	33939023	1	RLN3R1	SALPR, GPCR135, RXFPR3
4	TET2	ENSG00000168769	ENST00000305737	protein_coding	KNOWN	CCDS3666	25941	3498	1165	106067032	106163928	1	KIAA1546	FLJ20032
4	TET2	ENSG00000168769	ENST00000513237	protein_coding	PUTATIVE	None	25941	6072	2023	106067450	106200973	1	KIAA1546	FLJ20032
4	TET2	ENSG00000168769	ENST00000380013	protein_coding	KNOWN	CCDS47120	25941	6009	2002	106067943	106200960	1	KIAA1546	FLJ20032
4	TET2	ENSG00000168769	ENST00000265149	nonsense_mediated_decay	KNOWN	None	25941	3585	1194	106067943	106200960	1	KIAA1546	FLJ20032
4	TET2	ENSG00000168769	ENST00000504042	processed_transcript	KNOWN	None	25941	None	None	106068035	106123703	1	KIAA1546	FLJ20032
4	TET2	ENSG00000168769	ENST00000413648	protein_coding	PUTATIVE	None	25941	3504	1167	106068043	106163919	1	KIAA1546	FLJ20032
4	TET2	ENSG00000168769	ENST00000505801	retained_intron	KNOWN	None	25941	None	None	106068090	106111860	1	KIAA1546	FLJ20032
4	TET2	ENSG00000168769	ENST00000514870	protein_coding	KNOWN	None	25941	330	109	106068614	106155429	1	KIAA1546	FLJ20032
4	TET2	ENSG00000168769	ENST00000540549	protein_coding	KNOWN	CCDS47120	25941	6009	2002	106067450	106200973	1	KIAA1546	FLJ20032
4	TET2	ENSG00000168769	ENST00000545826	protein_coding	KNOWN	None	25941	3585	1194	106067450	106200973	1	KIAA1546	FLJ20032
4	TET2	ENSG00000168769	ENST00000394764	protein_coding	KNOWN	CCDS3666	25941	3498	1165	106067943	106163928	1	KIAA1546	FLJ20032
13	RNU6-59P	ENSG00000207518	ENST00000384787	snRNA	KNOWN	None	42549	None	None	22125443	22125549	-1	RNU6-59	None
HSCHR6_MHC_MANN	C6orf47-AS1	ENSG00000233169	ENST00000440820	processed_transcript	PUTATIVE	None	39767	None	None	31665598	31667991	1	None	None
X	None	ENSG00000225400	ENST00000427490	processed_pseudogene	KNOWN	None	None	None	None	135929543	135930193	1	None	None
13	RPS7P10	ENSG00000226525	ENST00000464254	processed_pseudogene	KNOWN	None	39903	None	None	22202552	22203154	-1	None	None
13	RPS7P10	ENSG00000226525	ENST00000599601	processed_pseudogene	KNOWN	None	39903	None	None	22202573	22203154	-1	None	None
14	None	ENSG00000258757	ENST00000554055	antisense	KNOWN	None	None	None	None	53107557	53108284	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000264915	ENST00000580495	misc_RNA	NOVEL	None	None	None	None	31670558	31670671	1	None	None
15	None	ENSG00000207430	ENST00000384699	snoRNA	NOVEL	None	None	None	None	30873387	30873519	1	None	None
HSCHR6_MHC_MANN	MIR4646	ENSG00000266418	ENST00000584593	miRNA	KNOWN	None	41543	None	None	31708300	31708362	-1	None	hsa-mir-4646
22	ELFN2	ENSG00000166897	ENST00000349653	protein_coding	KNOWN	CCDS33642	29396	2463	820	37764000	37771579	-1	LRRC62, PPP1R29	dJ63G5.3, KIAA1904
22	ELFN2	ENSG00000166897	ENST00000402918	protein_coding	KNOWN	CCDS33642	29396	2463	820	37764001	37823505	-1	LRRC62, PPP1R29	dJ63G5.3, KIAA1904
X	SAGE1	ENSG00000181433	ENST00000370709	protein_coding	KNOWN	CCDS14652	30369	2715	904	134978402	134995220	1	None	SAGE, CT14
X	SAGE1	ENSG00000181433	ENST00000324447	protein_coding	KNOWN	CCDS14652	30369	2715	904	134971374	134995175	1	None	SAGE, CT14
X	SAGE1	ENSG00000181433	ENST00000535938	protein_coding	KNOWN	CCDS14652	30369	2715	904	134975785	134995219	1	None	SAGE, CT14
X	SAGE1	ENSG00000181433	ENST00000537770	protein_coding	KNOWN	None	30369	1587	528	134975885	134995175	1	None	SAGE, CT14
14	None	ENSG00000259049	ENST00000555969	antisense	KNOWN	None	None	None	None	53241955	53244458	1	None	None
14	None	ENSG00000259049	ENST00000555689	antisense	KNOWN	None	None	None	None	53243070	53243858	1	None	None
13	None	ENSG00000261105	ENST00000568302	antisense	KNOWN	None	None	None	None	76178836	76210130	-1	None	None
13	None	ENSG00000261105	ENST00000568735	antisense	KNOWN	None	None	None	None	76178962	76210130	-1	None	None
HSCHR6_MHC_MANN	SLC44A4	ENSG00000203463	ENST00000366281	processed_transcript	KNOWN	None	13941	None	None	31870631	31870874	-1	C6orf29	NG22, CTL4, FLJ14491
18	None	ENSG00000207092	ENST00000384364	misc_RNA	NOVEL	None	None	None	None	9250108	9250209	1	None	None
13	None	ENSG00000228444	ENST00000422931	sense_intronic	KNOWN	None	None	None	None	76205407	76206271	1	None	None
18	None	ENSG00000239087	ENST00000459594	snoRNA	NOVEL	None	None	None	None	9277977	9278077	1	None	None
4	FAM90A26	ENSG00000229924	ENST00000512047	protein_coding	KNOWN	None	43746	1395	464	9172135	9178453	1	FAM90A26P	None
4	FAM90A26	ENSG00000229924	ENST00000432515	protein_coding	KNOWN	None	43746	1395	464	9174899	9177893	1	FAM90A26P	None
8	DGAT1	ENSG00000185000	ENST00000527438	processed_transcript	PUTATIVE	None	2843	None	None	145539954	145540916	-1	None	ARGP1, DGAT
8	DGAT1	ENSG00000185000	ENST00000526479	processed_transcript	KNOWN	None	2843	None	None	145539954	145542002	-1	None	ARGP1, DGAT
8	DGAT1	ENSG00000185000	ENST00000332324	protein_coding	KNOWN	CCDS6420	2843	1467	488	145539954	145550573	-1	None	ARGP1, DGAT
8	DGAT1	ENSG00000185000	ENST00000524965	retained_intron	KNOWN	None	2843	None	None	145539983	145542387	-1	None	ARGP1, DGAT
8	DGAT1	ENSG00000185000	ENST00000528718	retained_intron	KNOWN	None	2843	None	None	145539988	145541253	-1	None	ARGP1, DGAT
8	DGAT1	ENSG00000185000	ENST00000527885	retained_intron	KNOWN	None	2843	None	None	145540506	145541296	-1	None	ARGP1, DGAT
8	DGAT1	ENSG00000185000	ENST00000524844	processed_transcript	KNOWN	None	2843	None	None	145540738	145541984	-1	None	ARGP1, DGAT
8	DGAT1	ENSG00000185000	ENST00000531896	protein_coding	PUTATIVE	None	2843	942	313	145541580	145550337	-1	None	ARGP1, DGAT
8	DGAT1	ENSG00000185000	ENST00000525371	retained_intron	KNOWN	None	2843	None	None	145541757	145550330	-1	None	ARGP1, DGAT
18	None	ENSG00000264964	ENST00000584509	lincRNA	KNOWN	None	None	None	None	9315192	9334439	-1	None	None
13	FAM204CP	ENSG00000230902	ENST00000424489	processed_pseudogene	KNOWN	None	42012	None	None	76262692	76263333	-1	None	None
18	None	ENSG00000266805	ENST00000580891	sense_intronic	KNOWN	None	None	None	None	9506240	9509724	1	None	None
13	None	ENSG00000223458	ENST00000436872	sense_intronic	KNOWN	None	None	None	None	76452849	76455263	1	None	None
13	LINC00561	ENSG00000261206	ENST00000565815	lincRNA	KNOWN	None	43705	None	None	76506531	76509268	-1	None	None
13	None	ENSG00000224933	ENST00000448806	lincRNA	KNOWN	None	None	None	None	76587159	76588637	-1	None	None
13	RN7SL571P	ENSG00000243274	ENST00000468302	misc_RNA	KNOWN	None	46587	None	None	76709067	76709360	1	None	None
22	None	ENSG00000198832	ENST00000402395	protein_coding	KNOWN	CCDS43003	None	438	145	31500758	31516055	-1	None	None
22	None	ENSG00000198832	ENST00000490967	retained_intron	KNOWN	None	None	None	None	31500763	31503519	-1	None	None
22	None	ENSG00000198832	ENST00000400299	protein_coding	KNOWN	CCDS43003	None	438	145	31500763	31503554	-1	None	None
22	None	ENSG00000198832	ENST00000465536	processed_transcript	KNOWN	None	None	None	None	31500912	31503514	-1	None	None
22	None	ENSG00000198832	ENST00000491958	processed_transcript	KNOWN	None	None	None	None	31500987	31503539	-1	None	None
22	None	ENSG00000198832	ENST00000495533	retained_intron	KNOWN	None	None	None	None	31500999	31501750	-1	None	None
22	None	ENSG00000198832	ENST00000460642	processed_transcript	KNOWN	None	None	None	None	31501011	31503527	-1	None	None
22	None	ENSG00000198832	ENST00000469262	retained_intron	KNOWN	None	None	None	None	31501100	31503452	-1	None	None
22	None	ENSG00000198832	ENST00000465447	retained_intron	KNOWN	None	None	None	None	31501425	31503542	-1	None	None
8	IMPA1	ENSG00000133731	ENST00000256108	protein_coding	KNOWN	CCDS6231	6050	834	277	82570196	82598928	-1	IMPA	None
8	IMPA1	ENSG00000133731	ENST00000311489	protein_coding	KNOWN	CCDS47884	6050	597	198	82571279	82598536	-1	IMPA	None
8	IMPA1	ENSG00000133731	ENST00000449740	protein_coding	KNOWN	CCDS47883	6050	1011	336	82571497	82598518	-1	IMPA	None
8	IMPA1	ENSG00000133731	ENST00000523942	protein_coding	PUTATIVE	None	6050	793	263	82572749	82598067	-1	IMPA	None
8	IMPA1	ENSG00000133731	ENST00000518188	nonsense_mediated_decay	KNOWN	None	6050	306	101	82572751	82598563	-1	IMPA	None
8	IMPA1	ENSG00000133731	ENST00000523710	processed_transcript	KNOWN	None	6050	None	None	82572808	82598550	-1	IMPA	None
8	IMPA1	ENSG00000133731	ENST00000519964	protein_coding	PUTATIVE	None	6050	542	179	82583174	82598553	-1	IMPA	None
8	IMPA1	ENSG00000133731	ENST00000521360	protein_coding	KNOWN	None	6050	460	152	82583175	82598545	-1	IMPA	None
8	IMPA1	ENSG00000133731	ENST00000520065	retained_intron	KNOWN	None	6050	None	None	82583213	82586656	-1	IMPA	None
8	IMPA1	ENSG00000133731	ENST00000521979	nonsense_mediated_decay	KNOWN	None	6050	330	109	82583243	82598545	-1	IMPA	None
8	IMPA1	ENSG00000133731	ENST00000522997	protein_coding	KNOWN	None	6050	634	210	82586076	82598286	-1	IMPA	None
8	IMPA1	ENSG00000133731	ENST00000518202	protein_coding	PUTATIVE	None	6050	523	173	82586103	82598566	-1	IMPA	None
8	IMPA1	ENSG00000133731	ENST00000519816	nonsense_mediated_decay	KNOWN	None	6050	381	126	82586131	82598517	-1	IMPA	None
13	None	ENSG00000264908	ENST00000579275	miRNA	NOVEL	None	None	None	None	77460456	77460535	-1	None	None
13	BTF3P11	ENSG00000118903	ENST00000426582	processed_pseudogene	KNOWN	None	1126	None	None	77502200	77502970	1	BTF3L1	HUMBTFB, TNFRSF11B, OPG, OCIF
22	C22orf29	ENSG00000215012	ENST00000407472	protein_coding	KNOWN	CCDS13769	26112	1095	364	19833661	19842419	-1	None	FLJ21125
22	C22orf29	ENSG00000215012	ENST00000328554	protein_coding	KNOWN	CCDS13769	26112	1095	364	19833669	19842363	-1	None	FLJ21125
22	C22orf29	ENSG00000215012	ENST00000484072	processed_transcript	KNOWN	None	26112	None	None	19833669	19842386	-1	None	FLJ21125
22	C22orf29	ENSG00000215012	ENST00000405640	protein_coding	KNOWN	CCDS13769	26112	1095	364	19833669	19842409	-1	None	FLJ21125
22	C22orf29	ENSG00000215012	ENST00000416337	protein_coding	NOVEL	None	26112	273	90	19839512	19842339	-1	None	FLJ21125
18	SMCHD1	ENSG00000101596	ENST00000320876	protein_coding	KNOWN	CCDS45822	29090	6018	2005	2655737	2805015	1	None	KIAA0650
18	SMCHD1	ENSG00000101596	ENST00000581226	retained_intron	KNOWN	None	29090	None	None	2688639	2697214	1	None	KIAA0650
18	SMCHD1	ENSG00000101596	ENST00000585229	nonsense_mediated_decay	KNOWN	None	29090	148	48	2700775	2702290	1	None	KIAA0650
18	SMCHD1	ENSG00000101596	ENST00000577880	nonsense_mediated_decay	KNOWN	None	29090	4167	1388	2700857	2802927	1	None	KIAA0650
18	SMCHD1	ENSG00000101596	ENST00000577300	retained_intron	KNOWN	None	29090	None	None	2703692	2706560	1	None	KIAA0650
18	SMCHD1	ENSG00000101596	ENST00000584897	nonsense_mediated_decay	KNOWN	None	29090	452	149	2706441	2802926	1	None	KIAA0650
18	SMCHD1	ENSG00000101596	ENST00000581711	retained_intron	KNOWN	None	29090	None	None	2707442	2722548	1	None	KIAA0650
18	SMCHD1	ENSG00000101596	ENST00000581383	retained_intron	KNOWN	None	29090	None	None	2724900	2727161	1	None	KIAA0650
18	SMCHD1	ENSG00000101596	ENST00000581631	retained_intron	KNOWN	None	29090	None	None	2728412	2739463	1	None	KIAA0650
18	SMCHD1	ENSG00000101596	ENST00000583441	retained_intron	KNOWN	None	29090	None	None	2751377	2753127	1	None	KIAA0650
18	SMCHD1	ENSG00000101596	ENST00000583344	retained_intron	KNOWN	None	29090	None	None	2760399	2769805	1	None	KIAA0650
18	SMCHD1	ENSG00000101596	ENST00000583800	protein_coding	PUTATIVE	None	29090	146	47	2796097	2801261	1	None	KIAA0650
18	SMCHD1	ENSG00000101596	ENST00000261598	protein_coding	KNOWN	None	29090	5754	1917	2655886	2784877	1	None	KIAA0650
13	RPL7P44	ENSG00000233873	ENST00000424827	processed_pseudogene	KNOWN	None	36143	None	None	77555310	77556051	-1	None	None
HSCHR6_MHC_APD	PPP1R11	ENSG00000233314	ENST00000441553	protein_coding	KNOWN	None	9285	225	74	29971320	29974944	1	TCTE5	HCGV, Tctex5, HCG-V
HSCHR6_MHC_APD	PPP1R11	ENSG00000233314	ENST00000437937	protein_coding	KNOWN	None	9285	381	126	29971699	29974944	1	TCTE5	HCGV, Tctex5, HCG-V
HSCHR6_MHC_APD	PPP1R11	ENSG00000233314	ENST00000446310	protein_coding	KNOWN	None	9285	225	74	29971816	29974944	1	TCTE5	HCGV, Tctex5, HCG-V
HSCHR6_MHC_APD	PPP1R11	ENSG00000233314	ENST00000414618	protein_coding	KNOWN	None	9285	225	74	29972154	29974944	1	TCTE5	HCGV, Tctex5, HCG-V
HSCHR6_MHC_APD	PPP1R11	ENSG00000233314	ENST00000434591	protein_coding	KNOWN	None	9285	225	74	29972187	29974944	1	TCTE5	HCGV, Tctex5, HCG-V
HSCHR6_MHC_APD	PPP1R11	ENSG00000233314	ENST00000452227	protein_coding	KNOWN	None	9285	225	74	29972817	29974944	1	TCTE5	HCGV, Tctex5, HCG-V
21	RN7SL740P	ENSG00000244294	ENST00000467060	misc_RNA	KNOWN	None	46756	None	None	35291350	35291642	-1	None	None
8	SQLE	ENSG00000104549	ENST00000523430	protein_coding	PUTATIVE	None	11279	1440	479	126010739	126034523	1	None	None
8	SQLE	ENSG00000104549	ENST00000265896	protein_coding	KNOWN	CCDS47918	11279	1725	574	126010748	126034525	1	None	None
8	SQLE	ENSG00000104549	ENST00000521232	protein_coding	PUTATIVE	None	11279	553	183	126010786	126017949	1	None	None
8	SQLE	ENSG00000104549	ENST00000518931	protein_coding	PUTATIVE	None	11279	492	163	126021522	126033179	1	None	None
8	SQLE	ENSG00000104549	ENST00000520493	retained_intron	KNOWN	None	11279	None	None	126023187	126030349	1	None	None
8	SQLE	ENSG00000104549	ENST00000518604	retained_intron	KNOWN	None	11279	None	None	126030184	126031355	1	None	None
4	USP17L13	ENSG00000232399	ENST00000429667	protein_coding	NOVEL	CCDS59457	44441	1593	530	9226622	9228214	1	None	None
4	USP17L13	ENSG00000232399	ENST00000421288	protein_coding	KNOWN	None	44441	1593	530	9212383	9228214	1	None	None
13	DHX9P1	ENSG00000228002	ENST00000436565	processed_pseudogene	KNOWN	None	2751	None	None	77559003	77562078	1	DDX9P, DHX9P	None
21	None	ENSG00000214955	ENST00000362077	processed_transcript	KNOWN	None	None	None	None	35445892	35732332	1	None	None
21	None	ENSG00000214955	ENST00000427022	processed_transcript	KNOWN	None	None	None	None	35577356	35697334	1	None	None
16	PKD1	ENSG00000008710	ENST00000262304	protein_coding	KNOWN	CCDS32369	9008	12912	4303	2138711	2185899	-1	None	PBP, Pc-1, TRPP1
16	PKD1	ENSG00000008710	ENST00000423118	protein_coding	KNOWN	CCDS45385	9008	12909	4302	2138711	2185899	-1	None	PBP, Pc-1, TRPP1
16	PKD1	ENSG00000008710	ENST00000472577	retained_intron	KNOWN	None	9008	None	None	2139528	2140840	-1	None	PBP, Pc-1, TRPP1
16	PKD1	ENSG00000008710	ENST00000564313	retained_intron	KNOWN	None	9008	None	None	2140766	2142014	-1	None	PBP, Pc-1, TRPP1
16	PKD1	ENSG00000008710	ENST00000561668	nonsense_mediated_decay	KNOWN	None	9008	137	44	2140884	2142171	-1	None	PBP, Pc-1, TRPP1
16	PKD1	ENSG00000008710	ENST00000487932	nonsense_mediated_decay	KNOWN	None	9008	3369	1122	2140986	2159854	-1	None	PBP, Pc-1, TRPP1
16	PKD1	ENSG00000008710	ENST00000485120	retained_intron	KNOWN	None	9008	None	None	2141429	2142598	-1	None	PBP, Pc-1, TRPP1
16	PKD1	ENSG00000008710	ENST00000562425	nonsense_mediated_decay	KNOWN	None	9008	275	90	2141824	2143885	-1	None	PBP, Pc-1, TRPP1
16	PKD1	ENSG00000008710	ENST00000567355	retained_intron	KNOWN	None	9008	None	None	2142047	2142912	-1	None	PBP, Pc-1, TRPP1
16	PKD1	ENSG00000008710	ENST00000472659	retained_intron	KNOWN	None	9008	None	None	2142887	2144147	-1	None	PBP, Pc-1, TRPP1
16	PKD1	ENSG00000008710	ENST00000568796	retained_intron	KNOWN	None	9008	None	None	2143356	2143874	-1	None	PBP, Pc-1, TRPP1
16	PKD1	ENSG00000008710	ENST00000570253	retained_intron	KNOWN	None	9008	None	None	2147729	2150301	-1	None	PBP, Pc-1, TRPP1
16	PKD1	ENSG00000008710	ENST00000562297	retained_intron	KNOWN	None	9008	None	None	2147729	2153790	-1	None	PBP, Pc-1, TRPP1
16	PKD1	ENSG00000008710	ENST00000567946	protein_coding	NOVEL	None	9008	1822	606	2147729	2155399	-1	None	PBP, Pc-1, TRPP1
16	PKD1	ENSG00000008710	ENST00000486339	retained_intron	KNOWN	None	9008	None	None	2147729	2157760	-1	None	PBP, Pc-1, TRPP1
16	PKD1	ENSG00000008710	ENST00000415938	retained_intron	KNOWN	None	9008	None	None	2147729	2162964	-1	None	PBP, Pc-1, TRPP1
16	PKD1	ENSG00000008710	ENST00000483731	retained_intron	KNOWN	None	9008	None	None	2147729	2164125	-1	None	PBP, Pc-1, TRPP1
16	PKD1	ENSG00000008710	ENST00000566905	processed_transcript	KNOWN	None	9008	None	None	2147753	2150454	-1	None	PBP, Pc-1, TRPP1
16	PKD1	ENSG00000008710	ENST00000496574	retained_intron	KNOWN	None	9008	None	None	2147853	2158017	-1	None	PBP, Pc-1, TRPP1
16	PKD1	ENSG00000008710	ENST00000566784	processed_transcript	PUTATIVE	None	9008	None	None	2147860	2149894	-1	None	PBP, Pc-1, TRPP1
16	PKD1	ENSG00000008710	ENST00000471603	retained_intron	KNOWN	None	9008	None	None	2148834	2153688	-1	None	PBP, Pc-1, TRPP1
16	PKD1	ENSG00000008710	ENST00000480227	retained_intron	KNOWN	None	9008	None	None	2149079	2153794	-1	None	PBP, Pc-1, TRPP1
16	PKD1	ENSG00000008710	ENST00000570193	processed_transcript	KNOWN	None	9008	None	None	2149463	2150408	-1	None	PBP, Pc-1, TRPP1
16	PKD1	ENSG00000008710	ENST00000469851	retained_intron	KNOWN	None	9008	None	None	2149933	2150687	-1	None	PBP, Pc-1, TRPP1
16	PKD1	ENSG00000008710	ENST00000483814	retained_intron	KNOWN	None	9008	None	None	2150024	2150766	-1	None	PBP, Pc-1, TRPP1
16	PKD1	ENSG00000008710	ENST00000474088	retained_intron	KNOWN	None	9008	None	None	2151952	2153178	-1	None	PBP, Pc-1, TRPP1
16	PKD1	ENSG00000008710	ENST00000475889	processed_transcript	PUTATIVE	None	9008	None	None	2152381	2153532	-1	None	PBP, Pc-1, TRPP1
16	PKD1	ENSG00000008710	ENST00000561991	processed_transcript	KNOWN	None	9008	None	None	2153518	2156409	-1	None	PBP, Pc-1, TRPP1
16	PKD1	ENSG00000008710	ENST00000565639	retained_intron	KNOWN	None	9008	None	None	2153790	2164482	-1	None	PBP, Pc-1, TRPP1
16	PKD1	ENSG00000008710	ENST00000564865	processed_transcript	PUTATIVE	None	9008	None	None	2155358	2156105	-1	None	PBP, Pc-1, TRPP1
16	PKD1	ENSG00000008710	ENST00000564890	retained_intron	KNOWN	None	9008	None	None	2155379	2156408	-1	None	PBP, Pc-1, TRPP1
16	PKD1	ENSG00000008710	ENST00000483558	processed_transcript	KNOWN	None	9008	None	None	2156277	2157757	-1	None	PBP, Pc-1, TRPP1
16	PKD1	ENSG00000008710	ENST00000568591	nonsense_mediated_decay	KNOWN	None	9008	603	200	2156504	2167960	-1	None	PBP, Pc-1, TRPP1
16	PKD1	ENSG00000008710	ENST00000569983	retained_intron	KNOWN	None	9008	None	None	2156522	2163075	-1	None	PBP, Pc-1, TRPP1
16	PKD1	ENSG00000008710	ENST00000483024	protein_coding	NOVEL	None	9008	465	154	2156591	2162831	-1	None	PBP, Pc-1, TRPP1
16	PKD1	ENSG00000008710	ENST00000488185	protein_coding	NOVEL	None	9008	737	244	2156942	2168079	-1	None	PBP, Pc-1, TRPP1
16	PKD1	ENSG00000008710	ENST00000473780	processed_transcript	PUTATIVE	None	9008	None	None	2157586	2158549	-1	None	PBP, Pc-1, TRPP1
16	PKD1	ENSG00000008710	ENST00000468674	processed_transcript	KNOWN	None	9008	None	None	2159292	2163281	-1	None	PBP, Pc-1, TRPP1
16	PKD1	ENSG00000008710	ENST00000469241	retained_intron	KNOWN	None	9008	None	None	2161459	2162899	-1	None	PBP, Pc-1, TRPP1
16	PKD1	ENSG00000008710	ENST00000570150	processed_transcript	KNOWN	None	9008	None	None	2166593	2168125	-1	None	PBP, Pc-1, TRPP1
21	RPS5P2	ENSG00000224598	ENST00000415238	processed_pseudogene	KNOWN	None	17222	None	None	35507732	35508371	-1	None	None
18	RN7SL795P	ENSG00000239748	ENST00000469617	misc_RNA	KNOWN	None	46811	None	None	68179963	68180241	1	None	None
18	None	ENSG00000265781	ENST00000584078	lincRNA	KNOWN	None	None	None	None	68667713	68678726	-1	None	None
X	PGAM4	ENSG00000226784	ENST00000458128	protein_coding	KNOWN	CCDS35338	21731	765	254	77223458	77225135	-1	None	dJ1000K24.1, PGAM3, PGAM-B, PGAM1
HSCHR6_MHC_QBL	PRRT1	ENSG00000206331	ENST00000493794	processed_transcript	KNOWN	None	13943	None	None	32073755	32075253	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_QBL	PRRT1	ENSG00000206331	ENST00000480261	retained_intron	KNOWN	None	13943	None	None	32073755	32077319	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_QBL	PRRT1	ENSG00000206331	ENST00000495127	processed_transcript	KNOWN	None	13943	None	None	32073755	32077333	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_QBL	PRRT1	ENSG00000206331	ENST00000454112	protein_coding	KNOWN	None	13943	921	306	32073755	32077348	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_QBL	PRRT1	ENSG00000206331	ENST00000383309	protein_coding	KNOWN	None	13943	678	225	32073755	32078476	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_QBL	PRRT1	ENSG00000206331	ENST00000423003	protein_coding	KNOWN	None	13943	188	61	32075891	32079766	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_QBL	PRRT1	ENSG00000206331	ENST00000491691	processed_transcript	KNOWN	None	13943	None	None	32077375	32079353	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_QBL	PRRT1	ENSG00000206331	ENST00000484089	processed_transcript	KNOWN	None	13943	None	None	32078196	32079301	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_QBL	PRRT1	ENSG00000206331	ENST00000480799	processed_transcript	KNOWN	None	13943	None	None	32078196	32079726	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_QBL	PRRT1	ENSG00000206331	ENST00000459795	processed_transcript	KNOWN	None	13943	None	None	32078196	32079758	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_QBL	PRRT1	ENSG00000206331	ENST00000462841	processed_transcript	KNOWN	None	13943	None	None	32078733	32079732	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_QBL	PRRT1	ENSG00000206331	ENST00000473568	processed_transcript	PUTATIVE	None	13943	None	None	32078778	32079719	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_QBL	PRRT1	ENSG00000206331	ENST00000549696	protein_coding	KNOWN	None	13943	678	225	32073760	32077496	-1	C6orf31	NG5, IFITMD7
HG747_PATCH	ARSG	ENSG00000263074	ENST00000570630	protein_coding	KNOWN	None	24102	1578	525	66255298	66418847	1	None	KIAA1001
HG747_PATCH	ARSG	ENSG00000263074	ENST00000583952	processed_transcript	KNOWN	None	24102	None	None	66255517	66270680	1	None	KIAA1001
HG747_PATCH	ARSG	ENSG00000263074	ENST00000577754	protein_coding	KNOWN	None	24102	86	27	66287607	66303695	1	None	KIAA1001
HG747_PATCH	ARSG	ENSG00000263074	ENST00000575915	protein_coding	PUTATIVE	None	24102	1086	361	66287634	66416901	1	None	KIAA1001
HG747_PATCH	ARSG	ENSG00000263074	ENST00000578014	processed_transcript	KNOWN	None	24102	None	None	66342863	66416641	1	None	KIAA1001
HG747_PATCH	ARSG	ENSG00000263074	ENST00000577665	processed_transcript	KNOWN	None	24102	None	None	66343261	66355902	1	None	KIAA1001
HG747_PATCH	ARSG	ENSG00000263074	ENST00000578678	processed_transcript	KNOWN	None	24102	None	None	66396272	66416781	1	None	KIAA1001
HG747_PATCH	ARSG	ENSG00000263074	ENST00000588793	retained_intron	KNOWN	None	24102	None	None	66397158	66416686	1	None	KIAA1001
18	None	ENSG00000265639	ENST00000581877	processed_pseudogene	KNOWN	None	None	None	None	68696006	68700292	1	None	None
13	RN7SL766P	ENSG00000244197	ENST00000494719	misc_RNA	KNOWN	None	46782	None	None	22364676	22364982	1	None	None
14	None	ENSG00000228313	ENST00000536432	antisense	KNOWN	None	None	None	None	23064715	23067855	-1	None	None
13	LINC00424	ENSG00000226722	ENST00000413124	processed_transcript	KNOWN	None	42815	None	None	22446909	22449705	-1	None	None
21	LINC00310	ENSG00000227456	ENST00000428914	lincRNA	KNOWN	None	16414	None	None	35552978	35555546	1	C21orf82, NCRNA00310	None
21	LINC00310	ENSG00000227456	ENST00000416145	lincRNA	KNOWN	None	16414	None	None	35553045	35560863	1	C21orf82, NCRNA00310	None
21	LINC00310	ENSG00000227456	ENST00000430922	lincRNA	KNOWN	None	16414	None	None	35553049	35562220	1	C21orf82, NCRNA00310	None
21	LINC00310	ENSG00000227456	ENST00000419881	lincRNA	KNOWN	None	16414	None	None	35560649	35561498	1	C21orf82, NCRNA00310	None
18	None	ENSG00000265484	ENST00000581940	lincRNA	KNOWN	None	None	None	None	68883940	68904338	-1	None	None
14	None	ENSG00000242061	ENST00000490836	processed_pseudogene	KNOWN	None	None	None	None	23163307	23163744	-1	None	None
13	NME1P1	ENSG00000237175	ENST00000420914	processed_pseudogene	KNOWN	None	39904	None	None	22673302	22673683	-1	None	None
18	None	ENSG00000263733	ENST00000583587	processed_pseudogene	KNOWN	None	None	None	None	68892940	68893957	1	None	None
X	LINC00890	ENSG00000260802	ENST00000569275	lincRNA	KNOWN	None	48576	None	None	110754890	110765627	1	None	None
X	LINC00890	ENSG00000260802	ENST00000563467	lincRNA	KNOWN	None	48576	None	None	110755008	110761394	1	None	None
13	MTND3P1	ENSG00000226118	ENST00000441336	processed_pseudogene	KNOWN	None	39856	None	None	22687258	22687477	-1	None	None
18	None	ENSG00000260676	ENST00000568095	lincRNA	KNOWN	None	None	None	None	69187198	69246192	-1	None	None
18	None	ENSG00000260676	ENST00000566582	lincRNA	KNOWN	None	None	None	None	69187485	69246173	-1	None	None
13	FTH1P7	ENSG00000232187	ENST00000450676	processed_pseudogene	KNOWN	None	3994	None	None	23270162	23270713	-1	FTHL7	None
14	OR6E1P	ENSG00000235213	ENST00000414424	unprocessed_pseudogene	KNOWN	None	14739	None	None	23171352	23172274	1	None	None
13	SPRYD7	ENSG00000123178	ENST00000361840	protein_coding	KNOWN	CCDS9422	14297	591	196	50486842	50510476	-1	C13orf1	CLLD6
13	SPRYD7	ENSG00000123178	ENST00000492258	processed_transcript	KNOWN	None	14297	None	None	50505154	50509889	-1	C13orf1	CLLD6
13	SPRYD7	ENSG00000123178	ENST00000378195	protein_coding	KNOWN	CCDS45046	14297	474	157	50486842	50510626	-1	C13orf1	CLLD6
18	None	ENSG00000264388	ENST00000580637	processed_pseudogene	KNOWN	None	None	None	None	69255773	69256120	1	None	None
13	DDX39AP1	ENSG00000225777	ENST00000445147	processed_pseudogene	KNOWN	None	39664	None	None	23278878	23280345	-1	None	None
HG7_PATCH	TRBV5-1	ENSG00000260227	ENST00000568724	TR_V_gene	KNOWN	None	12218	343	113	142020496	142021363	1	None	TRBV51, TCRBV5S1, TCRBV5S1A1T
20	MYLK2	ENSG00000101306	ENST00000375994	protein_coding	KNOWN	CCDS13191	16243	1791	596	30407111	30422492	1	None	skMLCK, KMLC, MLCK2
20	MYLK2	ENSG00000101306	ENST00000375985	protein_coding	KNOWN	CCDS13191	16243	1791	596	30407176	30422492	1	None	skMLCK, KMLC, MLCK2
20	MYLK2	ENSG00000101306	ENST00000468730	processed_transcript	KNOWN	None	16243	None	None	30414580	30422492	1	None	skMLCK, KMLC, MLCK2
22	MFNG	ENSG00000100060	ENST00000356998	protein_coding	KNOWN	CCDS13947	7038	966	321	37865103	37882439	-1	None	None
22	MFNG	ENSG00000100060	ENST00000489515	retained_intron	KNOWN	None	7038	None	None	37865106	37868762	-1	None	None
22	MFNG	ENSG00000100060	ENST00000454291	protein_coding	NOVEL	None	7038	263	86	37865551	37870602	-1	None	None
22	MFNG	ENSG00000100060	ENST00000438891	nonsense_mediated_decay	KNOWN	None	7038	393	130	37870550	37882417	-1	None	None
22	MFNG	ENSG00000100060	ENST00000436341	protein_coding	KNOWN	None	7038	396	131	37870601	37877409	-1	None	None
22	MFNG	ENSG00000100060	ENST00000430411	nonsense_mediated_decay	KNOWN	None	7038	384	127	37872934	37882425	-1	None	None
22	MFNG	ENSG00000100060	ENST00000442496	protein_coding	KNOWN	None	7038	128	41	37875450	37880667	-1	None	None
22	MFNG	ENSG00000100060	ENST00000466943	retained_intron	KNOWN	None	7038	None	None	37876249	37877105	-1	None	None
22	MFNG	ENSG00000100060	ENST00000424765	protein_coding	PUTATIVE	None	7038	354	117	37876317	37882431	-1	None	None
22	MFNG	ENSG00000100060	ENST00000416983	protein_coding	KNOWN	CCDS54525	7038	924	307	37865101	37882425	-1	None	None
18	None	ENSG00000265946	ENST00000582687	processed_pseudogene	KNOWN	None	None	None	None	69332384	69332761	1	None	None
5	SLC45A2	ENSG00000164175	ENST00000296589	protein_coding	KNOWN	CCDS3901	16472	1593	530	33944721	33984835	-1	MATP	AIM-1, OCA4
5	SLC45A2	ENSG00000164175	ENST00000382102	protein_coding	KNOWN	CCDS43308	16472	1383	460	33945971	33984746	-1	MATP	AIM-1, OCA4
5	SLC45A2	ENSG00000164175	ENST00000510600	protein_coding	KNOWN	None	16472	738	245	33947373	33984342	-1	MATP	AIM-1, OCA4
5	SLC45A2	ENSG00000164175	ENST00000509381	protein_coding	KNOWN	None	16472	732	243	33951510	33984749	-1	MATP	AIM-1, OCA4
5	SLC45A2	ENSG00000164175	ENST00000505056	retained_intron	KNOWN	None	16472	None	None	33963747	33984667	-1	MATP	AIM-1, OCA4
5	SLC45A2	ENSG00000164175	ENST00000342059	protein_coding	KNOWN	None	16472	1416	471	33944724	33984780	-1	MATP	AIM-1, OCA4
5	SLC45A2	ENSG00000164175	ENST00000345083	protein_coding	KNOWN	None	16472	897	298	33951594	33984780	-1	MATP	AIM-1, OCA4
8	FAM90A5P	ENSG00000215373	ENST00000528738	unprocessed_pseudogene	KNOWN	None	32253	None	None	7144914	7147924	1	FAM90A5	None
8	FAM90A5P	ENSG00000215373	ENST00000400158	unprocessed_pseudogene	KNOWN	None	32253	None	None	7144914	7148476	1	FAM90A5	None
18	None	ENSG00000260457	ENST00000563639	lincRNA	KNOWN	None	None	None	None	69504275	69538024	1	None	None
HG7_PATCH	TRBV6-1	ENSG00000261506	ENST00000563832	TR_V_gene	KNOWN	None	12226	344	113	142028121	142028610	1	None	TRBV61, TCRBV13S3, TCRBV6S1
HSCHR6_MHC_APD	RNF39	ENSG00000236967	ENST00000441449	protein_coding	KNOWN	None	18064	1065	354	29974877	29980460	-1	None	HZFw1, LIRF
HSCHR6_MHC_APD	RNF39	ENSG00000236967	ENST00000450015	protein_coding	KNOWN	None	18064	1263	420	29974877	29980498	-1	None	HZFw1, LIRF
HSCHR6_MHC_APD	RNF39	ENSG00000236967	ENST00000550271	protein_coding	KNOWN	None	18064	756	251	29975395	29980400	-1	None	HZFw1, LIRF
HG747_PATCH	SLC16A6	ENSG00000262275	ENST00000571465	protein_coding	KNOWN	None	10927	1572	523	66263142	66287232	-1	None	MCT6, MCT7
HG747_PATCH	SLC16A6	ENSG00000262275	ENST00000579895	protein_coding	KNOWN	None	10927	1572	523	66264313	66287382	-1	None	MCT6, MCT7
HG747_PATCH	SLC16A6	ENSG00000262275	ENST00000580590	protein_coding	NOVEL	None	10927	388	128	66267744	66287383	-1	None	MCT6, MCT7
HG747_PATCH	SLC16A6	ENSG00000262275	ENST00000578439	protein_coding	KNOWN	None	10927	255	84	66270164	66287298	-1	None	MCT6, MCT7
14	None	ENSG00000258458	ENST00000554857	antisense	KNOWN	None	None	None	None	23171820	23235771	-1	None	None
14	None	ENSG00000258458	ENST00000553792	antisense	KNOWN	None	None	None	None	23172202	23235769	-1	None	None
14	None	ENSG00000258458	ENST00000554194	retained_intron	KNOWN	None	None	None	None	23175424	23235756	-1	None	None
14	None	ENSG00000258458	ENST00000554730	antisense	KNOWN	None	None	None	None	23233594	23235739	-1	None	None
HG7_PATCH	TRBV7-1	ENSG00000260407	ENST00000565028	TR_V_gene	KNOWN	None	12235	347	114	142032006	142032527	1	None	TRBV71, TCRBV6S7P, TCRBV7S1
HSCHR6_MHC_MANN	C4B-AS1	ENSG00000223747	ENST00000424095	processed_transcript	PUTATIVE	None	39752	None	None	31941638	31948914	-1	None	None
X	RN7SL661P	ENSG00000266829	ENST00000581107	misc_RNA	KNOWN	None	46677	None	None	110859125	110859401	1	None	None
HG7_PATCH	TRBV4-2	ENSG00000259829	ENST00000569652	TR_V_gene	KNOWN	None	12216	344	113	142045252	142045816	1	None	TRBV42, TCRBV4S2, TCRBV7S3A2T
X	None	ENSG00000229939	ENST00000448271	processed_pseudogene	KNOWN	None	None	None	None	110862036	110862322	1	None	None
HG75_PATCH	None	ENSG00000262017	ENST00000573481	rRNA	NOVEL	None	None	None	None	34818569	34818692	-1	None	None
9	None	ENSG00000268926	ENST00000600140	protein_coding	KNOWN	None	None	351	116	98534605	98537013	1	None	None
15	None	ENSG00000270016	ENST00000602595	antisense	KNOWN	None	None	None	None	30899898	30900396	-1	None	None
HSCHR6_MHC_COX	MICB	ENSG00000234218	ENST00000438954	protein_coding	KNOWN	None	7091	1023	340	31453328	31466366	1	None	PERB11.2
HSCHR6_MHC_COX	MICB	ENSG00000234218	ENST00000458032	protein_coding	KNOWN	None	7091	1152	383	31453357	31466366	1	None	PERB11.2
HSCHR6_MHC_COX	MICB	ENSG00000234218	ENST00000469155	retained_intron	KNOWN	None	7091	None	None	31461179	31462775	1	None	PERB11.2
HSCHR6_MHC_COX	MICB	ENSG00000234218	ENST00000551950	protein_coding	KNOWN	None	7091	126	41	31453387	31453933	1	None	PERB11.2
X	EIF4BP7	ENSG00000225031	ENST00000432307	processed_pseudogene	KNOWN	None	37940	None	None	110862905	110864717	-1	None	None
X	SNORD61	ENSG00000206979	ENST00000384252	snoRNA	KNOWN	None	10218	None	None	135961358	135961430	-1	RNU61	U61, HBII-342
HG75_PATCH	None	ENSG00000261688	ENST00000568852	processed_pseudogene	KNOWN	None	None	None	None	34901830	34902693	-1	None	None
13	MYCBP2-AS1	ENSG00000236051	ENST00000422231	antisense	KNOWN	None	41023	None	None	77649649	77661913	1	None	None
13	MYCBP2-AS1	ENSG00000236051	ENST00000450627	antisense	KNOWN	None	41023	None	None	77649649	77661913	1	None	None
13	MYCBP2-AS1	ENSG00000236051	ENST00000448470	antisense	KNOWN	None	41023	None	None	77649653	77661834	1	None	None
13	MYCBP2-AS1	ENSG00000236051	ENST00000593933	antisense	KNOWN	None	41023	None	None	77649672	77672677	1	None	None
13	MYCBP2-AS1	ENSG00000236051	ENST00000596342	antisense	KNOWN	None	41023	None	None	77649673	77651737	1	None	None
14	None	ENSG00000259010	ENST00000556933	processed_pseudogene	KNOWN	None	None	None	None	65066961	65068362	-1	None	None
8	None	ENSG00000253390	ENST00000521021	lincRNA	KNOWN	None	None	None	None	23316114	23342484	1	None	None
GL000209.1	None	ENSG00000217792	ENST00000400829	protein_coding	KNOWN	None	None	999	332	147649	156325	1	None	None
GL000209.1	None	ENSG00000217792	ENST00000400827	protein_coding	KNOWN	None	None	663	220	147649	156298	1	None	None
X	DUTP4	ENSG00000229829	ENST00000424782	processed_pseudogene	KNOWN	None	39517	None	None	148898832	148899306	1	None	None
22	DMC1	ENSG00000100206	ENST00000216024	protein_coding	KNOWN	CCDS13973	2927	1023	340	38914954	38966291	-1	None	LIM15
22	DMC1	ENSG00000100206	ENST00000439567	protein_coding	KNOWN	None	2927	610	202	38934300	38966136	-1	None	LIM15
22	DMC1	ENSG00000100206	ENST00000478820	retained_intron	KNOWN	None	2927	None	None	38945503	38966189	-1	None	LIM15
22	DMC1	ENSG00000100206	ENST00000415483	protein_coding	KNOWN	None	2927	416	137	38948676	38964414	-1	None	LIM15
22	DMC1	ENSG00000100206	ENST00000464842	processed_transcript	KNOWN	None	2927	None	None	38965289	38966209	-1	None	LIM15
22	DMC1	ENSG00000100206	ENST00000428462	protein_coding	KNOWN	None	2927	858	285	38915980	38964414	-1	None	LIM15
HG7_PATCH	TRBV6-2	ENSG00000260885	ENST00000562386	TR_V_gene	KNOWN	None	12227	344	113	142049015	142049495	1	None	TRBV62, TCRBV13S2A1T, TCRBV6S2
HSCHR6_MHC_APD	TRIM31	ENSG00000224542	ENST00000422484	protein_coding	KNOWN	None	16289	744	247	30015058	30017715	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_APD	TRIM31	ENSG00000224542	ENST00000492151	processed_transcript	KNOWN	None	16289	None	None	30015058	30017499	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_APD	TRIM31	ENSG00000224542	ENST00000482869	processed_transcript	KNOWN	None	16289	None	None	30015058	30016795	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_APD	TRIM31	ENSG00000224542	ENST00000486639	processed_transcript	KNOWN	None	16289	None	None	30015058	30015131	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_APD	TRIM31	ENSG00000224542	ENST00000483556	retained_intron	KNOWN	None	16289	None	None	30015058	30016315	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_APD	TRIM31	ENSG00000224542	ENST00000486990	retained_intron	KNOWN	None	16289	None	None	30015827	30017084	-1	None	RNF, HCGI, C6orf13, HCG1
15	None	ENSG00000259278	ENST00000560709	lincRNA	KNOWN	None	None	None	None	39311434	39317119	1	None	None
16	None	ENSG00000260272	ENST00000564543	protein_coding	PUTATIVE	None	None	1131	376	2546033	2570219	1	None	None
13	MYCBP2-AS2	ENSG00000229521	ENST00000428716	sense_intronic	KNOWN	None	41024	None	None	77654646	77655325	-1	None	None
14	RPPH1-2P	ENSG00000252497	ENST00000516688	misc_RNA	KNOWN	None	47029	None	None	65376206	65376498	-1	None	None
15	RN7SL628P	ENSG00000243928	ENST00000473920	misc_RNA	KNOWN	None	46644	None	None	30904916	30905194	1	None	None
15	FAM219B	ENSG00000178761	ENST00000357635	protein_coding	KNOWN	CCDS32295	24695	597	198	75192328	75199462	-1	C15orf17	FLJ00005
15	FAM219B	ENSG00000178761	ENST00000566132	nonsense_mediated_decay	KNOWN	None	24695	33	10	75192333	75197366	-1	C15orf17	FLJ00005
15	FAM219B	ENSG00000178761	ENST00000563671	nonsense_mediated_decay	KNOWN	None	24695	590	195	75192333	75199134	-1	C15orf17	FLJ00005
15	FAM219B	ENSG00000178761	ENST00000563119	protein_coding	KNOWN	CCDS32295	24695	597	198	75192333	75199178	-1	C15orf17	FLJ00005
15	FAM219B	ENSG00000178761	ENST00000569524	nonsense_mediated_decay	KNOWN	None	24695	222	73	75192333	75199224	-1	C15orf17	FLJ00005
15	FAM219B	ENSG00000178761	ENST00000564723	processed_transcript	PUTATIVE	None	24695	None	None	75192334	75192912	-1	C15orf17	FLJ00005
15	FAM219B	ENSG00000178761	ENST00000566894	retained_intron	KNOWN	None	24695	None	None	75192334	75199137	-1	C15orf17	FLJ00005
15	FAM219B	ENSG00000178761	ENST00000563069	nonsense_mediated_decay	KNOWN	None	24695	447	148	75194163	75199221	-1	C15orf17	FLJ00005
15	FAM219B	ENSG00000178761	ENST00000563413	nonsense_mediated_decay	KNOWN	None	24695	222	73	75194261	75199146	-1	C15orf17	FLJ00005
15	FAM219B	ENSG00000178761	ENST00000565772	protein_coding	PUTATIVE	None	24695	339	112	75194342	75198954	-1	C15orf17	FLJ00005
15	FAM219B	ENSG00000178761	ENST00000570143	nonsense_mediated_decay	KNOWN	None	24695	222	73	75194441	75199183	-1	C15orf17	FLJ00005
15	FAM219B	ENSG00000178761	ENST00000563877	nonsense_mediated_decay	KNOWN	None	24695	222	73	75194810	75199224	-1	C15orf17	FLJ00005
15	FAM219B	ENSG00000178761	ENST00000566194	nonsense_mediated_decay	KNOWN	None	24695	264	87	75194857	75199189	-1	C15orf17	FLJ00005
15	FAM219B	ENSG00000178761	ENST00000564857	retained_intron	KNOWN	None	24695	None	None	75194871	75199071	-1	C15orf17	FLJ00005
15	FAM219B	ENSG00000178761	ENST00000567388	nonsense_mediated_decay	KNOWN	None	24695	209	68	75194945	75198682	-1	C15orf17	FLJ00005
15	FAM219B	ENSG00000178761	ENST00000569761	nonsense_mediated_decay	KNOWN	None	24695	222	73	75194967	75199221	-1	C15orf17	FLJ00005
15	FAM219B	ENSG00000178761	ENST00000563706	processed_transcript	KNOWN	None	24695	None	None	75195045	75198561	-1	C15orf17	FLJ00005
15	FAM219B	ENSG00000178761	ENST00000562698	protein_coding	NOVEL	None	24695	504	167	75195050	75199224	-1	C15orf17	FLJ00005
15	FAM219B	ENSG00000178761	ENST00000564019	nonsense_mediated_decay	KNOWN	None	24695	396	131	75195051	75199148	-1	C15orf17	FLJ00005
15	FAM219B	ENSG00000178761	ENST00000457294	protein_coding	KNOWN	None	24695	447	148	75197334	75199178	-1	C15orf17	FLJ00005
14	GOLGA5	ENSG00000066455	ENST00000163416	protein_coding	KNOWN	CCDS9905	4428	2196	731	93260576	93306308	1	None	ret-II, golgin-84, rfg5, GOLIM5
14	GOLGA5	ENSG00000066455	ENST00000555793	retained_intron	KNOWN	None	4428	None	None	93275729	93277048	1	None	ret-II, golgin-84, rfg5, GOLIM5
14	GOLGA5	ENSG00000066455	ENST00000554700	protein_coding	PUTATIVE	None	4428	353	116	93299471	93306141	1	None	ret-II, golgin-84, rfg5, GOLIM5
14	GOLGA5	ENSG00000066455	ENST00000355976	protein_coding	KNOWN	None	4428	2076	691	93260650	93306304	1	None	ret-II, golgin-84, rfg5, GOLIM5
8	None	ENSG00000253483	ENST00000523257	processed_pseudogene	KNOWN	None	None	None	None	23340529	23341047	-1	None	None
HG7_PATCH	TRBV4-3	ENSG00000259825	ENST00000563669	TR_V_gene	KNOWN	None	12217	344	113	142062481	142062934	1	None	TRBV43, TCRBV4S3, TCRBV7S2A1N4T
8	None	ENSG00000254194	ENST00000518163	lincRNA	KNOWN	None	None	None	None	33831219	33867110	-1	None	None
8	None	ENSG00000254194	ENST00000521714	lincRNA	KNOWN	None	None	None	None	33831219	33867113	-1	None	None
18	RNU2-27P	ENSG00000251994	ENST00000516185	snRNA	KNOWN	None	48520	None	None	9518117	9518258	-1	None	None
HG747_PATCH	None	ENSG00000264988	ENST00000579370	antisense	KNOWN	None	None	None	None	65947001	65947862	-1	None	None
18	None	ENSG00000266541	ENST00000584109	antisense	KNOWN	None	None	None	None	9587384	9590180	1	None	None
X	None	ENSG00000234062	ENST00000424306	processed_transcript	KNOWN	None	None	None	None	135991554	136075814	1	None	None
X	None	ENSG00000234062	ENST00000431464	processed_transcript	KNOWN	None	None	None	None	135991634	136103777	1	None	None
X	None	ENSG00000234062	ENST00000438602	processed_transcript	KNOWN	None	None	None	None	136075646	136103789	1	None	None
X	None	ENSG00000234062	ENST00000440604	processed_transcript	KNOWN	None	None	None	None	136075713	136103777	1	None	None
HG747_PATCH	None	ENSG00000264027	ENST00000578075	misc_RNA	NOVEL	None	None	None	None	65973814	65974084	1	None	None
14	None	ENSG00000272158	ENST00000606934	antisense	KNOWN	None	None	None	None	65470043	65470485	-1	None	None
18	None	ENSG00000263627	ENST00000582435	lincRNA	KNOWN	None	None	None	None	9615262	9619361	1	None	None
X	RN7SL578P	ENSG00000239228	ENST00000477781	misc_RNA	KNOWN	None	46594	None	None	2976264	2976543	-1	None	None
HG747_PATCH	None	ENSG00000266812	ENST00000580700	lincRNA	KNOWN	None	None	None	None	65989996	65992547	-1	None	None
HG7_PATCH	TRBV6-3	ENSG00000261626	ENST00000564083	TR_V_gene	KNOWN	None	12228	344	113	142070668	142071148	1	None	TRBV63, TCRBV13S9/13S2A1T, TCRBV6S3
18	RNU6-903P	ENSG00000212572	ENST00000391270	snRNA	KNOWN	None	47866	None	None	9617962	9618070	-1	None	None
X	MAGEA8-AS1	ENSG00000230899	ENST00000427671	antisense	KNOWN	None	45093	None	None	149007636	149009870	-1	None	RP5-869M20.2
X	None	ENSG00000230249	ENST00000443851	processed_pseudogene	KNOWN	None	None	None	None	3030941	3031637	-1	None	None
HG747_PATCH	None	ENSG00000264917	ENST00000583714	processed_pseudogene	KNOWN	None	None	None	None	66091184	66091873	1	None	None
18	KRT18P8	ENSG00000264644	ENST00000581937	processed_pseudogene	KNOWN	None	31093	None	None	9678245	9679490	-1	None	None
18	None	ENSG00000266891	ENST00000578806	processed_pseudogene	KNOWN	None	None	None	None	9734879	9735599	-1	None	None
HG747_PATCH	None	ENSG00000263777	ENST00000578827	lincRNA	KNOWN	None	None	None	None	66092162	66097590	-1	None	None
HG747_PATCH	None	ENSG00000263777	ENST00000582067	lincRNA	KNOWN	None	None	None	None	66092218	66097585	-1	None	None
15	None	ENSG00000221358	ENST00000408431	miRNA	NOVEL	None	None	None	None	30906074	30906156	1	None	None
15	None	ENSG00000259423	ENST00000558255	lincRNA	KNOWN	None	None	None	None	39459940	39472127	1	None	None
15	None	ENSG00000259423	ENST00000560259	lincRNA	KNOWN	None	None	None	None	39460009	39462008	1	None	None
15	None	ENSG00000259423	ENST00000560129	lincRNA	KNOWN	None	None	None	None	39468966	39472231	1	None	None
HSCHR17_1	None	ENSG00000257887	ENST00000552547	protein_coding	NOVEL	None	None	456	151	43886503	43890161	1	None	None
14	RN7SL588P	ENSG00000264700	ENST00000583393	misc_RNA	KNOWN	None	46604	None	None	53252295	53252581	1	None	None
18	None	ENSG00000266127	ENST00000582279	processed_pseudogene	KNOWN	None	None	None	None	9785105	9787802	1	None	None
HG747_PATCH	LINC00674	ENSG00000262206	ENST00000592933	transcribed_unprocessed_pseudogene	KNOWN	None	44355	None	None	66098024	66110646	1	None	None
HG747_PATCH	LINC00674	ENSG00000262206	ENST00000573794	processed_transcript	KNOWN	None	44355	None	None	66099059	66111634	1	None	None
HSCHR17_1	None	ENSG00000258270	ENST00000547091	protein_coding	NOVEL	None	None	279	92	43904776	43906058	-1	None	None
18	RN7SL862P	ENSG00000242651	ENST00000491550	misc_RNA	KNOWN	None	46878	None	None	9830329	9830624	-1	None	None
13	None	ENSG00000253094	ENST00000517285	snoRNA	NOVEL	None	None	None	None	23377284	23377363	1	None	None
14	None	ENSG00000264620	ENST00000577601	miRNA	NOVEL	None	None	None	None	65481433	65481532	1	None	None
18	RNA5SP449	ENSG00000252680	ENST00000516871	rRNA	KNOWN	None	43349	None	None	9844714	9844843	-1	RN5S449	None
14	MIR4706	ENSG00000266531	ENST00000582134	miRNA	KNOWN	None	41576	None	None	65511406	65511487	1	None	hsa-mir-4706
13	RPL7AP73	ENSG00000237952	ENST00000413490	processed_pseudogene	KNOWN	None	41968	None	None	23377435	23377787	1	None	None
18	PIGPP4	ENSG00000265564	ENST00000584447	processed_pseudogene	KNOWN	None	45156	None	None	9880577	9880883	-1	None	None
HSCHR6_MHC_APD	TRIM40	ENSG00000224496	ENST00000433713	protein_coding	KNOWN	None	18736	777	258	30040743	30053350	1	None	RNF35
HSCHR6_MHC_APD	TRIM40	ENSG00000224496	ENST00000497688	processed_transcript	KNOWN	None	18736	None	None	30040743	30041813	1	None	RNF35
HSCHR6_MHC_APD	TRIM40	ENSG00000224496	ENST00000436951	protein_coding	KNOWN	None	18736	690	229	30041625	30053350	1	None	RNF35
8	None	ENSG00000254302	ENST00000518217	lincRNA	KNOWN	None	None	None	None	34032404	34042413	1	None	None
HG747_PATCH	LRRC37A16P	ENSG00000267297	ENST00000587548	transcribed_unprocessed_pseudogene	KNOWN	None	43820	None	None	66121893	66148584	-1	None	None
HG747_PATCH	LRRC37A16P	ENSG00000267297	ENST00000585585	processed_transcript	KNOWN	None	43820	None	None	66124456	66143639	-1	None	None
HG747_PATCH	LRRC37A16P	ENSG00000267297	ENST00000586909	processed_transcript	KNOWN	None	43820	None	None	66126366	66141711	-1	None	None
HG7_PATCH	TRBV7-2	ENSG00000261785	ENST00000567755	TR_V_gene	KNOWN	None	12236	347	114	142074311	142074850	1	None	TRBV72, TCRBV6S5A1N1, TCRBV7S2
18	RNA5SP450	ENSG00000223138	ENST00000411206	rRNA	KNOWN	None	43350	None	None	9923917	9924018	1	RN5S450	None
15	None	ENSG00000218052	ENST00000561209	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	85798600	85814123	-1	None	None
15	None	ENSG00000218052	ENST00000559518	processed_transcript	KNOWN	None	None	None	None	85813535	85873459	-1	None	None
15	None	ENSG00000218052	ENST00000558015	processed_transcript	PUTATIVE	None	None	None	None	85857898	85858747	-1	None	None
15	None	ENSG00000218052	ENST00000558365	processed_transcript	PUTATIVE	None	None	None	None	85858154	85873560	-1	None	None
15	None	ENSG00000218052	ENST00000560651	processed_transcript	KNOWN	None	None	None	None	85858818	85873565	-1	None	None
15	None	ENSG00000218052	ENST00000559337	processed_transcript	PUTATIVE	None	None	None	None	85869625	85873461	-1	None	None
15	None	ENSG00000218052	ENST00000406685	processed_pseudogene	KNOWN	None	None	None	None	85805026	85805364	-1	None	None
18	None	ENSG00000263630	ENST00000582159	miRNA	NOVEL	None	None	None	None	10005097	10005194	-1	None	None
18	None	ENSG00000265554	ENST00000582470	lincRNA	KNOWN	None	None	None	None	10125337	10144403	1	None	None
14	None	ENSG00000259118	ENST00000556127	antisense	KNOWN	None	None	None	None	65548752	65558583	1	None	None
14	None	ENSG00000259118	ENST00000553633	antisense	KNOWN	None	None	None	None	65556636	65560930	1	None	None
14	None	ENSG00000259118	ENST00000555898	antisense	KNOWN	None	None	None	None	65556699	65560588	1	None	None
14	None	ENSG00000259118	ENST00000555261	antisense	KNOWN	None	None	None	None	65556715	65560646	1	None	None
18	None	ENSG00000265995	ENST00000580927	lincRNA	KNOWN	None	None	None	None	69557645	69611813	-1	None	None
HSCHR17_1	None	ENSG00000257888	ENST00000552358	protein_coding	KNOWN	None	None	177	58	43977151	43980249	-1	None	None
16	ATP6V0C	ENSG00000185883	ENST00000330398	protein_coding	KNOWN	CCDS10470	855	468	155	2563871	2570219	1	ATPL, ATP6C, ATP6L	VATL, Vma3
16	ATP6V0C	ENSG00000185883	ENST00000568562	protein_coding	PUTATIVE	None	855	192	63	2563977	2569680	1	ATPL, ATP6C, ATP6L	VATL, Vma3
16	ATP6V0C	ENSG00000185883	ENST00000565223	protein_coding	PUTATIVE	None	855	339	112	2564295	2569921	1	ATPL, ATP6C, ATP6L	VATL, Vma3
16	ATP6V0C	ENSG00000185883	ENST00000564973	protein_coding	PUTATIVE	None	855	339	112	2569000	2570219	1	ATPL, ATP6C, ATP6L	VATL, Vma3
18	None	ENSG00000264876	ENST00000582531	lincRNA	KNOWN	None	None	None	None	10323129	10372377	-1	None	None
18	None	ENSG00000271313	ENST00000604699	processed_pseudogene	KNOWN	None	None	None	None	69599729	69600032	1	None	None
18	HNRNPA1P11	ENSG00000264315	ENST00000580106	processed_pseudogene	KNOWN	None	39129	None	None	70285502	70286457	1	None	None
HG747_PATCH	SH3GL1P3	ENSG00000267294	ENST00000586219	processed_pseudogene	KNOWN	None	10837	None	None	66130791	66131720	-1	SH3GLP3	CNSA-P3
18	None	ENSG00000266102	ENST00000580258	lincRNA	KNOWN	None	None	None	None	10375100	10378111	1	None	None
18	None	ENSG00000265579	ENST00000584727	sense_intronic	KNOWN	None	None	None	None	70410991	70413196	-1	None	None
HG747_PATCH	None	ENSG00000267071	ENST00000592008	unprocessed_pseudogene	KNOWN	None	None	None	None	66148892	66155159	-1	None	None
X	None	ENSG00000224871	ENST00000457775	antisense	KNOWN	None	None	None	None	149097880	149098916	1	None	None
18	None	ENSG00000239031	ENST00000458971	snoRNA	NOVEL	None	None	None	None	10389895	10389997	-1	None	None
18	RNA5SP460	ENSG00000252598	ENST00000516789	rRNA	KNOWN	None	43360	None	None	70419187	70419286	1	RN5S460	None
18	None	ENSG00000260913	ENST00000567609	lincRNA	KNOWN	None	None	None	None	10405130	10414367	-1	None	None
18	None	ENSG00000260913	ENST00000566225	lincRNA	KNOWN	None	None	None	None	10411605	10414512	-1	None	None
18	MIR548AV	ENSG00000263750	ENST00000583040	miRNA	KNOWN	None	43537	None	None	70520556	70520617	-1	None	hsa-mir-548av
HG747_PATCH	None	ENSG00000267087	ENST00000591506	lincRNA	KNOWN	None	None	None	None	66186000	66188918	1	None	None
8	MIR3686	ENSG00000263763	ENST00000577904	miRNA	KNOWN	None	38887	None	None	130496303	130496388	-1	None	hsa-mir-3686
HG747_PATCH	None	ENSG00000267451	ENST00000592579	processed_pseudogene	KNOWN	None	None	None	None	66195037	66195712	1	None	None
18	None	ENSG00000263958	ENST00000580564	lincRNA	KNOWN	None	None	None	None	70535623	70548634	1	None	None
18	None	ENSG00000263958	ENST00000578967	lincRNA	KNOWN	None	None	None	None	70536275	70548632	1	None	None
18	None	ENSG00000265728	ENST00000579385	lincRNA	KNOWN	None	None	None	None	10594587	10604795	1	None	None
8	None	ENSG00000265513	ENST00000579056	miRNA	KNOWN	None	None	None	None	130508088	130508189	-1	None	None
HG747_PATCH	None	ENSG00000264506	ENST00000579532	antisense	KNOWN	None	None	None	None	66242745	66244054	-1	None	None
13	XPO4	ENSG00000132953	ENST00000255305	protein_coding	KNOWN	CCDS41872	17796	3456	1151	21353014	21476949	-1	None	FLJ13046, KIAA1721
13	XPO4	ENSG00000132953	ENST00000490513	processed_transcript	KNOWN	None	17796	None	None	21429773	21477187	-1	None	FLJ13046, KIAA1721
13	XPO4	ENSG00000132953	ENST00000465018	processed_transcript	KNOWN	None	17796	None	None	21442552	21476886	-1	None	FLJ13046, KIAA1721
13	XPO4	ENSG00000132953	ENST00000400602	protein_coding	KNOWN	None	17796	3456	1151	21351469	21476913	-1	None	FLJ13046, KIAA1721
8	None	ENSG00000266096	ENST00000577793	miRNA	NOVEL	None	None	None	None	130508468	130508569	-1	None	None
GL000241.1	None	ENSG00000222670	ENST00000410738	miRNA	KNOWN	None	None	None	None	11451	11589	-1	None	None
8	None	ENSG00000265219	ENST00000584102	miRNA	NOVEL	None	None	None	None	130508758	130508857	-1	None	None
9	ERCC6L2	ENSG00000182150	ENST00000288985	protein_coding	NOVEL	CCDS35072	26922	2139	712	98637983	98731122	1	C9orf102	FLJ37706, RAD26L
9	ERCC6L2	ENSG00000182150	ENST00000466840	processed_transcript	KNOWN	None	26922	None	None	98638425	98729442	1	C9orf102	FLJ37706, RAD26L
9	ERCC6L2	ENSG00000182150	ENST00000456993	nonsense_mediated_decay	KNOWN	None	26922	1098	365	98678083	98729444	1	C9orf102	FLJ37706, RAD26L
9	ERCC6L2	ENSG00000182150	ENST00000479391	nonsense_mediated_decay	KNOWN	None	26922	164	53	98684684	98767137	1	C9orf102	FLJ37706, RAD26L
9	ERCC6L2	ENSG00000182150	ENST00000426805	protein_coding	PUTATIVE	None	26922	249	82	98685635	98691399	1	C9orf102	FLJ37706, RAD26L
9	ERCC6L2	ENSG00000182150	ENST00000470362	processed_transcript	KNOWN	None	26922	None	None	98703786	98734250	1	C9orf102	FLJ37706, RAD26L
9	ERCC6L2	ENSG00000182150	ENST00000402838	protein_coding	PUTATIVE	None	26922	546	181	98728932	98734614	1	C9orf102	FLJ37706, RAD26L
9	ERCC6L2	ENSG00000182150	ENST00000320486	protein_coding	PUTATIVE	None	26922	1568	521	98735119	98776842	1	C9orf102	FLJ37706, RAD26L
9	ERCC6L2	ENSG00000182150	ENST00000437817	protein_coding	KNOWN	None	26922	1572	523	98668933	98731121	1	C9orf102	FLJ37706, RAD26L
9	ERCC6L2	ENSG00000182150	ENST00000407474	protein_coding	KNOWN	None	26922	1596	531	98734578	98775485	1	C9orf102	FLJ37706, RAD26L
HSCHR6_MHC_DBB	TNXA	ENSG00000248352	ENST00000515427	unprocessed_pseudogene	KNOWN	None	11975	None	None	31958577	31962435	-1	TNX	XA, D6S103E, HXBL
18	CCDC102B	ENSG00000150636	ENST00000582077	processed_transcript	PUTATIVE	None	26295	None	None	66382446	66385367	1	C18orf14, ACY1L	FLJ23594, HsT1731, AN
18	CCDC102B	ENSG00000150636	ENST00000578970	protein_coding	KNOWN	None	26295	277	91	66382472	66504277	1	C18orf14, ACY1L	FLJ23594, HsT1731, AN
18	CCDC102B	ENSG00000150636	ENST00000582371	protein_coding	KNOWN	None	26295	372	123	66382512	66504372	1	C18orf14, ACY1L	FLJ23594, HsT1731, AN
18	CCDC102B	ENSG00000150636	ENST00000584775	protein_coding	KNOWN	None	26295	977	324	66382512	66541946	1	C18orf14, ACY1L	FLJ23594, HsT1731, AN
18	CCDC102B	ENSG00000150636	ENST00000580292	retained_intron	KNOWN	None	26295	None	None	66382550	66422236	1	C18orf14, ACY1L	FLJ23594, HsT1731, AN
18	CCDC102B	ENSG00000150636	ENST00000360242	protein_coding	KNOWN	CCDS11996	26295	1542	513	66465317	66722426	1	C18orf14, ACY1L	FLJ23594, HsT1731, AN
18	CCDC102B	ENSG00000150636	ENST00000581520	protein_coding	KNOWN	None	26295	412	136	66465652	66504412	1	C18orf14, ACY1L	FLJ23594, HsT1731, AN
18	CCDC102B	ENSG00000150636	ENST00000577772	processed_transcript	KNOWN	None	26295	None	None	66490611	66565030	1	C18orf14, ACY1L	FLJ23594, HsT1731, AN
18	CCDC102B	ENSG00000150636	ENST00000584156	protein_coding	KNOWN	None	26295	1452	483	66504001	66678461	1	C18orf14, ACY1L	FLJ23594, HsT1731, AN
18	CCDC102B	ENSG00000150636	ENST00000577800	retained_intron	KNOWN	None	26295	None	None	66513601	66564869	1	C18orf14, ACY1L	FLJ23594, HsT1731, AN
18	CCDC102B	ENSG00000150636	ENST00000581103	retained_intron	KNOWN	None	26295	None	None	66513632	66542202	1	C18orf14, ACY1L	FLJ23594, HsT1731, AN
18	CCDC102B	ENSG00000150636	ENST00000319445	protein_coding	KNOWN	CCDS11996	26295	1542	513	66401969	66722426	1	C18orf14, ACY1L	FLJ23594, HsT1731, AN
18	CCDC102B	ENSG00000150636	ENST00000358653	protein_coding	KNOWN	None	26295	1275	424	66465317	66564826	1	C18orf14, ACY1L	FLJ23594, HsT1731, AN
18	None	ENSG00000261780	ENST00000563172	lincRNA	KNOWN	None	None	None	None	70992176	71017113	1	None	None
18	None	ENSG00000261780	ENST00000583942	lincRNA	KNOWN	None	None	None	None	70993976	71016598	1	None	None
18	None	ENSG00000261780	ENST00000577634	retained_intron	KNOWN	None	None	None	None	70999507	71001077	1	None	None
8	None	ENSG00000265687	ENST00000580804	miRNA	NOVEL	None	None	None	None	130509216	130509296	-1	None	None
8	None	ENSG00000264680	ENST00000582899	miRNA	KNOWN	None	None	None	None	130509594	130509674	-1	None	None
19	ODF3L2	ENSG00000181781	ENST00000315489	protein_coding	KNOWN	CCDS12027	26841	870	289	463346	474983	-1	C19orf19	FLJ40059
19	ODF3L2	ENSG00000181781	ENST00000382696	protein_coding	KNOWN	None	26841	762	253	463467	474880	-1	C19orf19	FLJ40059
19	ODF3L2	ENSG00000181781	ENST00000591681	retained_intron	KNOWN	None	26841	None	None	464146	472631	-1	C19orf19	FLJ40059
HSCHR17_1	None	ENSG00000257382	ENST00000552923	protein_coding	KNOWN	None	None	3318	1105	44001606	44145324	1	None	None
8	None	ENSG00000266387	ENST00000582296	miRNA	NOVEL	None	None	None	None	130509833	130509913	-1	None	None
15	None	ENSG00000269930	ENST00000602594	lincRNA	KNOWN	None	None	None	None	30909161	30909952	1	None	None
8	None	ENSG00000254223	ENST00000522667	lincRNA	KNOWN	None	None	None	None	130691381	130695925	-1	None	None
HG736_PATCH	ZNF479	ENSG00000260513	ENST00000569383	protein_coding	KNOWN	None	23258	1575	524	57187307	57207557	-1	None	KR19
18	None	ENSG00000265380	ENST00000578740	lincRNA	KNOWN	None	None	None	None	71378564	71382725	-1	None	None
8	None	ENSG00000253986	ENST00000518590	lincRNA	KNOWN	None	None	None	None	23350522	23351711	-1	None	None
14	AHNAK2	ENSG00000185567	ENST00000555122	retained_intron	KNOWN	None	20125	None	None	105403581	105436818	-1	C14orf78	None
14	AHNAK2	ENSG00000185567	ENST00000557457	protein_coding	PUTATIVE	None	20125	2382	793	105403590	105420241	-1	C14orf78	None
14	AHNAK2	ENSG00000185567	ENST00000333244	protein_coding	KNOWN	CCDS45177	20125	17388	5795	105403654	105444694	-1	C14orf78	None
14	AHNAK2	ENSG00000185567	ENST00000555544	retained_intron	KNOWN	None	20125	None	None	105419874	105421739	-1	C14orf78	None
8	None	ENSG00000224110	ENST00000506027	processed_pseudogene	KNOWN	None	None	None	None	130740990	130742691	1	None	None
18	RN7SL401P	ENSG00000241866	ENST00000470065	misc_RNA	KNOWN	None	46417	None	None	71412170	71412464	1	None	None
14	None	ENSG00000258698	ENST00000554548	lincRNA	KNOWN	None	None	None	None	53259593	53286752	-1	None	None
X	PGK1	ENSG00000102144	ENST00000477335	processed_transcript	KNOWN	None	8896	None	None	77320685	77369341	1	None	None
X	PGK1	ENSG00000102144	ENST00000491291	processed_transcript	KNOWN	None	8896	None	None	77320713	77378400	1	None	None
X	PGK1	ENSG00000102144	ENST00000373316	protein_coding	KNOWN	CCDS14438	8896	1254	417	77359671	77384793	1	None	None
X	PGK1	ENSG00000102144	ENST00000474281	processed_transcript	KNOWN	None	8896	None	None	77378336	77378835	1	None	None
X	PGK1	ENSG00000102144	ENST00000476531	processed_transcript	KNOWN	None	8896	None	None	77380441	77381764	1	None	None
X	PGK1	ENSG00000102144	ENST00000442431	protein_coding	KNOWN	None	8896	846	281	77359752	77381761	1	None	None
X	PGK1	ENSG00000102144	ENST00000537456	protein_coding	KNOWN	None	8896	1170	389	77361859	77381597	1	None	None
18	None	ENSG00000263655	ENST00000581541	lincRNA	KNOWN	None	None	None	None	71581640	71701396	-1	None	None
HSCHR6_MHC_DBB	STK19P	ENSG00000249480	ENST00000511358	unprocessed_pseudogene	KNOWN	None	21668	None	None	31963233	31963750	1	None	bPG116M5.10, RP2
18	None	ENSG00000260569	ENST00000562795	lincRNA	KNOWN	None	None	None	None	71878626	71879804	-1	None	None
18	None	ENSG00000260569	ENST00000580403	lincRNA	KNOWN	None	None	None	None	71878626	71907790	-1	None	None
HSCHR6_MHC_DBB	None	ENSG00000225512	ENST00000437141	processed_transcript	PUTATIVE	None	None	None	None	31976325	31979854	-1	None	None
9	CNTLN	ENSG00000044459	ENST00000484374	processed_transcript	KNOWN	None	23432	None	None	17134980	17168554	1	C9orf101, C9orf39	FLJ20276, bA340N12.1, OTTHUMG00000019597
9	CNTLN	ENSG00000044459	ENST00000380647	protein_coding	KNOWN	CCDS43789	23432	4221	1406	17134980	17503921	1	C9orf101, C9orf39	FLJ20276, bA340N12.1, OTTHUMG00000019597
9	CNTLN	ENSG00000044459	ENST00000380641	protein_coding	KNOWN	CCDS47953	23432	1176	391	17135038	17302049	1	C9orf101, C9orf39	FLJ20276, bA340N12.1, OTTHUMG00000019597
9	CNTLN	ENSG00000044459	ENST00000461247	processed_transcript	KNOWN	None	23432	None	None	17415816	17462982	1	C9orf101, C9orf39	FLJ20276, bA340N12.1, OTTHUMG00000019597
9	CNTLN	ENSG00000044459	ENST00000425824	protein_coding	KNOWN	None	23432	4221	1406	17135034	17503915	1	C9orf101, C9orf39	FLJ20276, bA340N12.1, OTTHUMG00000019597
9	CNTLN	ENSG00000044459	ENST00000262360	protein_coding	KNOWN	None	23432	4218	1405	17135034	17495003	1	C9orf101, C9orf39	FLJ20276, bA340N12.1, OTTHUMG00000019597
HSCHR6_MHC_APD	TRIM10	ENSG00000237703	ENST00000449208	protein_coding	KNOWN	None	10072	1446	481	30056560	30065548	-1	RNF9	RFB30, HERF1
HSCHR6_MHC_APD	TRIM10	ENSG00000237703	ENST00000446013	protein_coding	KNOWN	None	10072	1188	395	30056560	30065548	-1	RNF9	RFB30, HERF1
HSCHR6_MHC_APD	TRIM10	ENSG00000237703	ENST00000553167	protein_coding	KNOWN	None	10072	1446	481	30058584	30065548	-1	RNF9	RFB30, HERF1
18	RN7SL551P	ENSG00000243856	ENST00000480810	misc_RNA	KNOWN	None	46567	None	None	71894741	71895036	1	None	None
8	None	ENSG00000253108	ENST00000522460	lincRNA	KNOWN	None	None	None	None	34085957	34204249	1	None	None
4	UGT2B17	ENSG00000197888	ENST00000317746	protein_coding	KNOWN	CCDS3523	12547	1593	530	69402902	69434245	-1	None	None
HSCHR6_MHC_DBB	None	ENSG00000258261	ENST00000546551	pseudogene	NOVEL	None	None	None	None	32016306	32016556	-1	None	None
18	FAUP1	ENSG00000235297	ENST00000474180	processed_pseudogene	KNOWN	None	17984	None	None	72057119	72057532	-1	None	FAU1P
HG989_PATCH	SERINC2	ENSG00000260384	ENST00000562991	protein_coding	KNOWN	None	23231	1395	464	31882412	31907524	1	TDE2L	FKSG84, PRO0899, TDE2
HG989_PATCH	SERINC2	ENSG00000260384	ENST00000563947	processed_transcript	KNOWN	None	23231	None	None	31883064	31898705	1	TDE2L	FKSG84, PRO0899, TDE2
HG989_PATCH	SERINC2	ENSG00000260384	ENST00000564235	protein_coding	KNOWN	None	23231	1368	455	31885963	31907525	1	TDE2L	FKSG84, PRO0899, TDE2
HG989_PATCH	SERINC2	ENSG00000260384	ENST00000568450	processed_transcript	KNOWN	None	23231	None	None	31886660	31907524	1	TDE2L	FKSG84, PRO0899, TDE2
HSCHR6_MHC_DBB	None	ENSG00000266615	ENST00000577302	rRNA	NOVEL	None	None	None	None	32022103	32022223	-1	None	None
HSCHR6_MHC_DBB	None	ENSG00000257276	ENST00000548967	pseudogene	NOVEL	None	None	None	None	32258940	32259089	1	None	None
8	None	ENSG00000254366	ENST00000518706	lincRNA	KNOWN	None	None	None	None	78311308	78449526	1	None	None
8	None	ENSG00000254366	ENST00000524014	lincRNA	KNOWN	None	None	None	None	78362933	78388617	1	None	None
18	None	ENSG00000259779	ENST00000562582	lincRNA	KNOWN	None	None	None	None	72076650	72077368	1	None	None
18	None	ENSG00000259779	ENST00000567168	lincRNA	KNOWN	None	None	None	None	72076683	72080444	1	None	None
HG7_PATCH	TRBV6-4	ENSG00000261287	ENST00000565091	TR_V_gene	KNOWN	None	12229	344	113	142102303	142102758	1	None	TRBV64, TCRBV13S5, TCRBV6S4
HSCHR6_MHC_DBB	HNRNPA1P2	ENSG00000230209	ENST00000414732	processed_pseudogene	KNOWN	None	13958	None	None	32268872	32269831	1	HNRPA1P2	dJ372B18.1
16	C16orf90	ENSG00000215131	ENST00000437192	protein_coding	KNOWN	CCDS45397	34455	549	182	3543484	3545424	-1	None	LOC646174
16	C16orf90	ENSG00000215131	ENST00000399645	protein_coding	PUTATIVE	None	34455	574	190	3543484	3545480	-1	None	LOC646174
18	None	ENSG00000264340	ENST00000583702	antisense	KNOWN	None	None	None	None	72228616	72229335	-1	None	None
14	None	ENSG00000271780	ENST00000607414	lincRNA	KNOWN	None	None	None	None	102414684	102415762	1	None	None
HG736_PATCH	None	ENSG00000264537	ENST00000583135	miRNA	NOVEL	None	None	None	None	56933773	56933842	-1	None	None
HSCHR6_MHC_DBB	None	ENSG00000265351	ENST00000581728	snRNA	NOVEL	None	None	None	None	32296178	32296284	1	None	None
HG736_PATCH	None	ENSG00000261676	ENST00000567800	processed_transcript	KNOWN	None	None	None	None	56943078	56949839	-1	None	None
HG736_PATCH	None	ENSG00000261676	ENST00000567792	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	56944193	56945245	-1	None	None
HSCHR6_MHC_DBB	HCG23	ENSG00000226228	ENST00000445536	processed_transcript	KNOWN	None	19713	None	None	32333789	32336965	1	None	dJ1077I5.3
18	LINC00909	ENSG00000264247	ENST00000580048	lincRNA	KNOWN	None	44331	None	None	72259010	72265060	-1	None	None
18	LINC00909	ENSG00000264247	ENST00000585279	lincRNA	KNOWN	None	44331	None	None	72260385	72265036	-1	None	None
18	LINC00909	ENSG00000264247	ENST00000577806	lincRNA	KNOWN	None	44331	None	None	72260437	72264805	-1	None	None
18	LINC00909	ENSG00000264247	ENST00000581192	lincRNA	KNOWN	None	44331	None	None	72260932	72265744	-1	None	None
14	None	ENSG00000272444	ENST00000607122	lincRNA	KNOWN	None	None	None	None	102418753	102419400	1	None	None
X	LINC00894	ENSG00000235703	ENST00000449111	processed_transcript	KNOWN	None	48579	None	None	149106846	149392815	1	None	None
X	LINC00894	ENSG00000235703	ENST00000458274	processed_transcript	PUTATIVE	None	48579	None	None	149107957	149109050	1	None	None
X	LINC00894	ENSG00000235703	ENST00000444489	processed_transcript	KNOWN	None	48579	None	None	149108374	149185018	1	None	None
X	LINC00894	ENSG00000235703	ENST00000450989	processed_transcript	KNOWN	None	48579	None	None	149113851	149121124	1	None	None
X	LINC00894	ENSG00000235703	ENST00000452864	processed_transcript	KNOWN	None	48579	None	None	149114194	149115156	1	None	None
X	LINC00894	ENSG00000235703	ENST00000432696	processed_transcript	KNOWN	None	48579	None	None	149114564	149115435	1	None	None
X	LINC00894	ENSG00000235703	ENST00000425602	processed_transcript	KNOWN	None	48579	None	None	149115589	149121270	1	None	None
X	LINC00894	ENSG00000235703	ENST00000455777	processed_transcript	KNOWN	None	48579	None	None	149129100	149131017	1	None	None
X	LINC00894	ENSG00000235703	ENST00000413076	processed_transcript	KNOWN	None	48579	None	None	149184313	149185875	1	None	None
X	MMGT1	ENSG00000169446	ENST00000305963	protein_coding	KNOWN	CCDS14653	28100	396	131	135044229	135056222	-1	TMEM32	EMC5
X	MMGT1	ENSG00000169446	ENST00000433339	protein_coding	KNOWN	None	28100	591	196	135044237	135056106	-1	TMEM32	EMC5
HG989_PATCH	None	ENSG00000261006	ENST00000563725	processed_pseudogene	KNOWN	None	None	None	None	31960438	31961608	-1	None	None
HSCHR6_MHC_DBB	HLA-DRB9	ENSG00000237591	ENST00000424335	unprocessed_pseudogene	KNOWN	None	4957	None	None	32402298	32415953	-1	HLA-DRB1L, HLA-DR1BL	D6S206, D6S206E
8	None	ENSG00000270077	ENST00000602771	sense_intronic	KNOWN	None	None	None	None	98156398	98156951	1	None	None
8	None	ENSG00000254001	ENST00000521879	lincRNA	KNOWN	None	None	None	None	79060336	79066148	1	None	None
8	None	ENSG00000254001	ENST00000520603	lincRNA	KNOWN	None	None	None	None	79064557	79066148	1	None	None
HSCHR6_MHC_MANN	LY6G6D	ENSG00000225993	ENST00000440095	protein_coding	KNOWN	None	13935	402	133	31722629	31725073	1	C6orf23	MEGT1, Ly6-D, G6D, LY6-D, NG25
HSCHR6_MHC_MANN	LY6G6D	ENSG00000225993	ENST00000456155	protein_coding	NOVEL	None	13935	523	173	31722629	31725073	1	C6orf23	MEGT1, Ly6-D, G6D, LY6-D, NG25
HSCHR6_MHC_MANN	LY6G6D	ENSG00000225993	ENST00000492867	retained_intron	KNOWN	None	13935	None	None	31722629	31725073	1	C6orf23	MEGT1, Ly6-D, G6D, LY6-D, NG25
HG736_PATCH	None	ENSG00000261137	ENST00000567492	unprocessed_pseudogene	KNOWN	None	None	None	None	57008034	57012046	-1	None	None
HSCHR6_MHC_DBB	None	ENSG00000235577	ENST00000420379	unprocessed_pseudogene	KNOWN	None	None	None	None	32428191	32428286	-1	None	None
8	None	ENSG00000260640	ENST00000569849	lincRNA	KNOWN	None	None	None	None	98253970	98254432	-1	None	None
14	None	ENSG00000259013	ENST00000556294	processed_pseudogene	KNOWN	None	None	None	None	102435701	102435938	-1	None	None
HSCHR6_MHC_DBB	None	ENSG00000234470	ENST00000457987	processed_pseudogene	KNOWN	None	None	None	None	32469329	32469736	-1	None	None
HG989_PATCH	None	ENSG00000263147	ENST00000575910	snRNA	NOVEL	None	None	None	None	31970424	31970530	-1	None	None
HSCHR6_MHC_DBB	HLA-DRB7	ENSG00000233240	ENST00000437595	unprocessed_pseudogene	KNOWN	None	4955	None	None	32472044	32491190	-1	None	None
15	None	ENSG00000260139	ENST00000567704	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	78187026	78197016	1	None	None
15	None	ENSG00000260139	ENST00000565545	processed_transcript	KNOWN	None	None	None	None	78194003	78196703	1	None	None
15	None	ENSG00000260139	ENST00000594231	unprocessed_pseudogene	KNOWN	None	None	None	None	78187058	78188546	1	None	None
13	SCEL-AS1	ENSG00000224347	ENST00000457528	antisense	KNOWN	None	39895	None	None	78173890	78180686	-1	None	None
13	SCEL-AS1	ENSG00000224347	ENST00000456280	antisense	KNOWN	None	39895	None	None	78173932	78180651	-1	None	None
16	OR1F1	ENSG00000168124	ENST00000304646	protein_coding	KNOWN	CCDS10496	8194	939	312	3254247	3255188	1	OR1F4, OR1F6, OR1F7, OR1F8, OR1F9, OR1F5, OR1F10, OR1F13P	Olfmf, OR16-36, OR16-37, OR16-88, OR16-89, OR16-90, OLFMF, OR3-145
HSCHR6_MHC_DBB	FAM8A5P	ENSG00000235391	ENST00000447076	processed_pseudogene	KNOWN	None	16376	None	None	32474891	32476022	1	None	None
5	TERT	ENSG00000164362	ENST00000484238	retained_intron	KNOWN	None	11730	None	None	1253262	1283125	-1	None	TRT, TP2, TCS1, hEST2, EST2
5	TERT	ENSG00000164362	ENST00000310581	protein_coding	KNOWN	CCDS3861	11730	3399	1132	1253282	1295162	-1	None	TRT, TP2, TCS1, hEST2, EST2
5	TERT	ENSG00000164362	ENST00000460137	nonsense_mediated_decay	KNOWN	None	11730	2388	795	1253843	1295104	-1	None	TRT, TP2, TCS1, hEST2, EST2
5	TERT	ENSG00000164362	ENST00000334602	protein_coding	KNOWN	CCDS54831	11730	3210	1069	1253843	1295104	-1	None	TRT, TP2, TCS1, hEST2, EST2
5	TERT	ENSG00000164362	ENST00000503656	retained_intron	KNOWN	None	11730	None	None	1264363	1266639	-1	None	TRT, TP2, TCS1, hEST2, EST2
5	TERT	ENSG00000164362	ENST00000508104	protein_coding	KNOWN	None	11730	2424	807	1266565	1295104	-1	None	TRT, TP2, TCS1, hEST2, EST2
5	TERT	ENSG00000164362	ENST00000522877	processed_transcript	PUTATIVE	None	11730	None	None	1294673	1295184	-1	None	TRT, TP2, TCS1, hEST2, EST2
5	TERT	ENSG00000164362	ENST00000296820	protein_coding	KNOWN	None	11730	2424	807	1253289	1295162	-1	None	TRT, TP2, TCS1, hEST2, EST2
13	RNY3P7	ENSG00000206800	ENST00000384073	misc_RNA	KNOWN	None	42491	None	None	78197507	78197607	1	None	None
15	None	ENSG00000261529	ENST00000565581	sense_intronic	KNOWN	None	None	None	None	25590780	25592382	-1	None	None
HSCHR6_MHC_DBB	None	ENSG00000265983	ENST00000577618	snRNA	NOVEL	None	None	None	None	32514190	32514338	-1	None	None
15	None	ENSG00000259450	ENST00000560743	lincRNA	KNOWN	None	None	None	None	39480639	39486510	-1	None	None
8	RNU6-1220P	ENSG00000252935	ENST00000517126	snRNA	KNOWN	None	48183	None	None	79310750	79310857	-1	None	None
13	SPTLC1P5	ENSG00000227922	ENST00000450718	processed_pseudogene	KNOWN	None	39672	None	None	78233548	78233799	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000257240	ENST00000550989	pseudogene	NOVEL	None	None	None	None	32552037	32552223	1	None	None
8	None	ENSG00000254033	ENST00000518178	lincRNA	KNOWN	None	None	None	None	34086812	34106464	-1	None	None
8	None	ENSG00000207215	ENST00000384486	snoRNA	NOVEL	None	None	None	None	98370493	98370702	1	None	None
13	MIR3665	ENSG00000266325	ENST00000578708	miRNA	KNOWN	None	38939	None	None	78272147	78272251	-1	None	hsa-mir-3665
10	MCU	ENSG00000156026	ENST00000373053	protein_coding	KNOWN	CCDS7317	23526	1056	351	74451889	74647452	1	C10orf42, CCDC109A	FLJ46135
10	MCU	ENSG00000156026	ENST00000603649	nonsense_mediated_decay	KNOWN	None	23526	276	91	74451901	74594178	1	C10orf42, CCDC109A	FLJ46135
10	MCU	ENSG00000156026	ENST00000604372	nonsense_mediated_decay	KNOWN	None	23526	165	54	74451901	74631191	1	C10orf42, CCDC109A	FLJ46135
10	MCU	ENSG00000156026	ENST00000604679	nonsense_mediated_decay	KNOWN	None	23526	306	101	74451901	74631303	1	C10orf42, CCDC109A	FLJ46135
10	MCU	ENSG00000156026	ENST00000357157	protein_coding	NOVEL	CCDS59218	23526	993	330	74451901	74647452	1	C10orf42, CCDC109A	FLJ46135
10	MCU	ENSG00000156026	ENST00000605597	nonsense_mediated_decay	KNOWN	None	23526	267	88	74452377	74647450	1	C10orf42, CCDC109A	FLJ46135
10	MCU	ENSG00000156026	ENST00000604152	protein_coding	PUTATIVE	None	23526	501	166	74472062	74628570	1	C10orf42, CCDC109A	FLJ46135
10	MCU	ENSG00000156026	ENST00000483185	retained_intron	KNOWN	None	23526	None	None	74619753	74628564	1	C10orf42, CCDC109A	FLJ46135
10	MCU	ENSG00000156026	ENST00000603118	processed_transcript	KNOWN	None	23526	None	None	74628448	74644189	1	C10orf42, CCDC109A	FLJ46135
10	MCU	ENSG00000156026	ENST00000605416	processed_transcript	KNOWN	None	23526	None	None	74628602	74647449	1	C10orf42, CCDC109A	FLJ46135
10	MCU	ENSG00000156026	ENST00000536019	protein_coding	KNOWN	CCDS59219	23526	909	302	74452377	74647450	1	C10orf42, CCDC109A	FLJ46135
HSCHR6_MHC_DBB	None	ENSG00000257223	ENST00000552196	pseudogene	NOVEL	None	None	None	None	32576333	32577190	-1	None	None
15	None	ENSG00000206957	ENST00000384230	misc_RNA	NOVEL	None	None	None	None	44989531	44989628	-1	None	None
14	None	ENSG00000258959	ENST00000557551	antisense	KNOWN	None	None	None	None	102502652	102510740	-1	None	None
14	None	ENSG00000258959	ENST00000557242	antisense	KNOWN	None	None	None	None	102502984	102519191	-1	None	None
14	None	ENSG00000258959	ENST00000553701	antisense	KNOWN	None	None	None	None	102503006	102532565	-1	None	None
8	None	ENSG00000213750	ENST00000492365	processed_pseudogene	KNOWN	None	None	None	None	98636431	98637307	-1	None	None
13	None	ENSG00000225579	ENST00000422405	lincRNA	KNOWN	None	None	None	None	78402357	78408085	1	None	None
9	TSTD2	ENSG00000136925	ENST00000375173	protein_coding	KNOWN	None	30087	339	112	100362362	100365437	-1	C9orf97	PP4189
9	TSTD2	ENSG00000136925	ENST00000375172	protein_coding	KNOWN	None	30087	765	254	100362363	100395583	-1	C9orf97	PP4189
9	TSTD2	ENSG00000136925	ENST00000341170	protein_coding	KNOWN	CCDS6727	30087	1551	516	100362365	100395857	-1	C9orf97	PP4189
9	TSTD2	ENSG00000136925	ENST00000375165	protein_coding	KNOWN	None	30087	504	167	100366351	100389686	-1	C9orf97	PP4189
9	TSTD2	ENSG00000136925	ENST00000375163	protein_coding	KNOWN	None	30087	219	72	100372492	100388057	-1	C9orf97	PP4189
9	TSTD2	ENSG00000136925	ENST00000484708	processed_transcript	KNOWN	None	30087	None	None	100373127	100380134	-1	C9orf97	PP4189
9	TSTD2	ENSG00000136925	ENST00000354801	protein_coding	KNOWN	None	30087	504	167	100366977	100395962	-1	C9orf97	PP4189
HSCHR6_MHC_DBB	HLA-DQB1-AS1	ENSG00000237455	ENST00000444506	processed_transcript	PUTATIVE	None	39762	None	None	32602897	32603747	1	None	None
8	None	ENSG00000202399	ENST00000365529	misc_RNA	NOVEL	None	None	None	None	98784541	98784653	1	None	None
8	RNU7-177P	ENSG00000252910	ENST00000517101	snRNA	KNOWN	None	45711	None	None	98786206	98786261	1	None	None
22	TXNRD2	ENSG00000184470	ENST00000400518	protein_coding	KNOWN	None	18155	1485	494	19863040	19920076	-1	None	TR, TRXR2, TR3
22	TXNRD2	ENSG00000184470	ENST00000494454	retained_intron	KNOWN	None	18155	None	None	19863041	19903889	-1	None	TR, TRXR2, TR3
22	TXNRD2	ENSG00000184470	ENST00000474308	processed_transcript	KNOWN	None	18155	None	None	19863042	19929330	-1	None	TR, TRXR2, TR3
22	TXNRD2	ENSG00000184470	ENST00000462330	processed_transcript	KNOWN	None	18155	None	None	19863045	19868892	-1	None	TR, TRXR2, TR3
22	TXNRD2	ENSG00000184470	ENST00000487165	retained_intron	KNOWN	None	18155	None	None	19863045	19872027	-1	None	TR, TRXR2, TR3
22	TXNRD2	ENSG00000184470	ENST00000400521	protein_coding	KNOWN	CCDS42981	18155	1575	524	19863045	19929333	-1	None	TR, TRXR2, TR3
22	TXNRD2	ENSG00000184470	ENST00000400525	protein_coding	NOVEL	None	18155	1506	501	19863045	19929341	-1	None	TR, TRXR2, TR3
22	TXNRD2	ENSG00000184470	ENST00000495655	retained_intron	KNOWN	None	18155	None	None	19863047	19868870	-1	None	TR, TRXR2, TR3
22	TXNRD2	ENSG00000184470	ENST00000400519	protein_coding	NOVEL	None	18155	1572	523	19863070	19929326	-1	None	TR, TRXR2, TR3
22	TXNRD2	ENSG00000184470	ENST00000485358	processed_transcript	KNOWN	None	18155	None	None	19863164	19868687	-1	None	TR, TRXR2, TR3
22	TXNRD2	ENSG00000184470	ENST00000462843	processed_transcript	KNOWN	None	18155	None	None	19863215	19868677	-1	None	TR, TRXR2, TR3
22	TXNRD2	ENSG00000184470	ENST00000491939	processed_transcript	KNOWN	None	18155	None	None	19881783	19921049	-1	None	TR, TRXR2, TR3
22	TXNRD2	ENSG00000184470	ENST00000475995	processed_transcript	PUTATIVE	None	18155	None	None	19882539	19885653	-1	None	TR, TRXR2, TR3
22	TXNRD2	ENSG00000184470	ENST00000484672	processed_transcript	PUTATIVE	None	18155	None	None	19898458	19905744	-1	None	TR, TRXR2, TR3
22	TXNRD2	ENSG00000184470	ENST00000471835	retained_intron	KNOWN	None	18155	None	None	19898781	19903360	-1	None	TR, TRXR2, TR3
22	TXNRD2	ENSG00000184470	ENST00000496729	retained_intron	KNOWN	None	18155	None	None	19902423	19929331	-1	None	TR, TRXR2, TR3
22	TXNRD2	ENSG00000184470	ENST00000535882	protein_coding	KNOWN	None	18155	1566	521	19863070	19929326	-1	None	TR, TRXR2, TR3
22	TXNRD2	ENSG00000184470	ENST00000542719	protein_coding	KNOWN	None	18155	1479	492	19863126	19919951	-1	None	TR, TRXR2, TR3
22	TXNRD2	ENSG00000184470	ENST00000334363	protein_coding	KNOWN	None	18155	1017	338	19881781	19929327	-1	None	TR, TRXR2, TR3
HSCHR6_MHC_DBB	None	ENSG00000240684	ENST00000415151	processed_transcript	PUTATIVE	None	None	None	None	32602903	32605491	-1	None	None
8	None	ENSG00000270682	ENST00000604497	processed_pseudogene	KNOWN	None	None	None	None	98800438	98800585	-1	None	None
14	None	ENSG00000257826	ENST00000546376	lincRNA	KNOWN	None	None	None	None	36530232	36536396	-1	None	None
20	RNU7-173P	ENSG00000238950	ENST00000458903	snRNA	KNOWN	None	45707	None	None	46455713	46455788	-1	None	None
8	None	ENSG00000254266	ENST00000522807	lincRNA	KNOWN	None	None	None	None	79338338	79470728	-1	None	None
8	None	ENSG00000254266	ENST00000522302	lincRNA	KNOWN	None	None	None	None	79446127	79470738	-1	None	None
8	None	ENSG00000254266	ENST00000519242	lincRNA	KNOWN	None	None	None	None	79447261	79470732	-1	None	None
HSCHR6_MHC_DBB	MTCO3P1	ENSG00000236629	ENST00000439071	unprocessed_pseudogene	KNOWN	None	31342	None	None	32652915	32653747	-1	None	U92032.1
15	None	ENSG00000259479	ENST00000562107	retained_intron	KNOWN	None	None	None	None	45118569	45120929	-1	None	None
15	None	ENSG00000259479	ENST00000564140	processed_transcript	PUTATIVE	None	None	None	None	45119149	45122635	-1	None	None
15	None	ENSG00000259479	ENST00000558556	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	45119258	45154048	-1	None	None
15	None	ENSG00000259479	ENST00000561384	processed_transcript	PUTATIVE	None	None	None	None	45119398	45176892	-1	None	None
X	None	ENSG00000263886	ENST00000580355	miRNA	NOVEL	None	None	None	None	124421625	124421692	1	None	None
HG996_PATCH	GALNT9	ENSG00000259919	ENST00000562730	protein_coding	KNOWN	None	4131	714	237	132680924	132690573	-1	None	GALNAC-T9
HG996_PATCH	GALNT9	ENSG00000259919	ENST00000570102	protein_coding	NOVEL	None	4131	1129	375	132681054	132838773	-1	None	GALNAC-T9
HG996_PATCH	GALNT9	ENSG00000259919	ENST00000566593	protein_coding	KNOWN	None	4131	1812	603	132681054	132910234	-1	None	GALNAC-T9
HG996_PATCH	GALNT9	ENSG00000259919	ENST00000566342	protein_coding	KNOWN	None	4131	714	237	132681618	132690337	-1	None	GALNAC-T9
HG996_PATCH	GALNT9	ENSG00000259919	ENST00000567412	protein_coding	KNOWN	None	4131	290	95	132685682	132690704	-1	None	GALNAC-T9
HG996_PATCH	GALNT9	ENSG00000259919	ENST00000569633	protein_coding	KNOWN	None	4131	163	53	132688052	132690347	-1	None	GALNAC-T9
HG996_PATCH	GALNT9	ENSG00000259919	ENST00000569676	retained_intron	KNOWN	None	4131	None	None	132828471	132910380	-1	None	GALNAC-T9
HG996_PATCH	GALNT9	ENSG00000259919	ENST00000562160	processed_transcript	KNOWN	None	4131	None	None	132838882	132856249	-1	None	GALNAC-T9
HG996_PATCH	GALNT9	ENSG00000259919	ENST00000568253	retained_intron	KNOWN	None	4131	None	None	132864195	132867502	-1	None	GALNAC-T9
HSCHR6_MHC_DBB	None	ENSG00000256920	ENST00000545573	pseudogene	NOVEL	None	None	None	None	32663186	32663364	1	None	None
15	None	ENSG00000235731	ENST00000422117	lincRNA	KNOWN	None	None	None	None	25729978	25823938	-1	None	None
X	RPL18AP15	ENSG00000236189	ENST00000430258	processed_pseudogene	KNOWN	None	36010	None	None	110867438	110867954	-1	None	None
X	None	ENSG00000213489	ENST00000394467	processed_pseudogene	KNOWN	None	None	None	None	124460746	124461870	-1	None	None
HSCHR6_MHC_DBB	None	ENSG00000234331	ENST00000457126	processed_transcript	KNOWN	None	None	None	None	32664299	32665125	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000234331	ENST00000436246	processed_transcript	PUTATIVE	None	None	None	None	32664324	32665130	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000234331	ENST00000418011	processed_transcript	PUTATIVE	None	None	None	None	32664679	32665133	1	None	None
14	None	ENSG00000258823	ENST00000556041	unprocessed_pseudogene	KNOWN	None	None	None	None	23192685	23195781	-1	None	None
14	LINC00609	ENSG00000257585	ENST00000546508	lincRNA	KNOWN	None	43960	None	None	36539633	36634494	1	None	None
13	RNF219-AS1	ENSG00000234377	ENST00000607862	antisense	KNOWN	None	42700	None	None	78493824	79158297	1	POU4F1-AS1	None
13	RNF219-AS1	ENSG00000234377	ENST00000605996	antisense	KNOWN	None	42700	None	None	78628980	79152849	1	POU4F1-AS1	None
13	RNF219-AS1	ENSG00000234377	ENST00000606187	antisense	KNOWN	None	42700	None	None	78628982	78937866	1	POU4F1-AS1	None
13	RNF219-AS1	ENSG00000234377	ENST00000607205	antisense	KNOWN	None	42700	None	None	78628990	79181141	1	POU4F1-AS1	None
13	RNF219-AS1	ENSG00000234377	ENST00000606124	antisense	KNOWN	None	42700	None	None	78628990	79181151	1	POU4F1-AS1	None
13	RNF219-AS1	ENSG00000234377	ENST00000606429	antisense	KNOWN	None	42700	None	None	78628990	79191460	1	POU4F1-AS1	None
13	RNF219-AS1	ENSG00000234377	ENST00000607860	antisense	KNOWN	None	42700	None	None	78629003	79179513	1	POU4F1-AS1	None
13	RNF219-AS1	ENSG00000234377	ENST00000607220	antisense	KNOWN	None	42700	None	None	78629124	79181217	1	POU4F1-AS1	None
13	RNF219-AS1	ENSG00000234377	ENST00000430549	antisense	KNOWN	None	42700	None	None	78629132	79179489	1	POU4F1-AS1	None
13	RNF219-AS1	ENSG00000234377	ENST00000606376	antisense	KNOWN	None	42700	None	None	78629132	79179692	1	POU4F1-AS1	None
13	RNF219-AS1	ENSG00000234377	ENST00000560209	antisense	KNOWN	None	42700	None	None	78629132	79190097	1	POU4F1-AS1	None
13	RNF219-AS1	ENSG00000234377	ENST00000444769	antisense	KNOWN	None	42700	None	None	78629158	79181137	1	POU4F1-AS1	None
13	RNF219-AS1	ENSG00000234377	ENST00000606803	antisense	KNOWN	None	42700	None	None	78629290	79152948	1	POU4F1-AS1	None
13	RNF219-AS1	ENSG00000234377	ENST00000560584	antisense	KNOWN	None	42700	None	None	79152611	79191463	1	POU4F1-AS1	None
15	None	ENSG00000223628	ENST00000454464	processed_pseudogene	KNOWN	None	None	None	None	25826116	25826269	1	None	None
8	FAM90A20P	ENSG00000233295	ENST00000528221	unprocessed_pseudogene	KNOWN	None	32268	None	None	7152536	7155546	1	FAM90A20	None
20	SRMP1	ENSG00000215448	ENST00000398959	processed_pseudogene	KNOWN	None	16552	None	None	46488532	46489416	1	None	dJ1057D4.1
8	None	ENSG00000264094	ENST00000583014	miRNA	NOVEL	None	None	None	None	43221856	43221930	-1	None	None
X	None	ENSG00000222518	ENST00000410586	miRNA	NOVEL	None	None	None	None	124796899	124796989	1	None	None
14	None	ENSG00000212371	ENST00000391069	snoRNA	NOVEL	None	None	None	None	77932627	77932779	1	None	None
14	PTCSC3	ENSG00000259104	ENST00000556013	lincRNA	KNOWN	None	43959	None	None	36605314	36645674	-1	None	None
14	RN7SL587P	ENSG00000240233	ENST00000459853	misc_RNA	KNOWN	None	46603	None	None	78013911	78014212	-1	None	None
8	None	ENSG00000254342	ENST00000520479	processed_pseudogene	KNOWN	None	None	None	None	43227702	43227820	1	None	None
X	RNA5SP512	ENSG00000201420	ENST00000364550	rRNA	KNOWN	None	43412	None	None	110913057	110913176	-1	RN5S512	None
X	None	ENSG00000237208	ENST00000438994	lincRNA	KNOWN	None	None	None	None	125243745	125249545	1	None	None
14	None	ENSG00000212302	ENST00000391000	snoRNA	NOVEL	None	None	None	None	23225970	23226038	-1	None	None
HSCHR6_MHC_APD	TRIM15	ENSG00000235259	ENST00000414873	protein_coding	KNOWN	None	16284	1398	465	30067815	30077295	1	ZNF178	ZNFB7, RNF93
HSCHR6_MHC_APD	TRIM15	ENSG00000235259	ENST00000425255	protein_coding	KNOWN	None	16284	491	162	30072912	30076554	1	ZNF178	ZNFB7, RNF93
HSCHR6_MHC_APD	TRIM15	ENSG00000235259	ENST00000485505	processed_transcript	KNOWN	None	16284	None	None	30072956	30077295	1	ZNF178	ZNFB7, RNF93
HSCHR6_MHC_APD	TRIM15	ENSG00000235259	ENST00000479130	retained_intron	KNOWN	None	16284	None	None	30074912	30075696	1	ZNF178	ZNFB7, RNF93
HSCHR6_MHC_APD	TRIM15	ENSG00000235259	ENST00000551636	protein_coding	KNOWN	None	16284	348	115	30068284	30077206	1	ZNF178	ZNFB7, RNF93
HSCHR6_MHC_APD	TRIM15	ENSG00000235259	ENST00000552062	protein_coding	KNOWN	None	16284	1191	396	30067805	30077288	1	ZNF178	ZNFB7, RNF93
14	None	ENSG00000258668	ENST00000555293	processed_pseudogene	KNOWN	None	None	None	None	78119170	78119398	-1	None	None
15	RNA5SP390	ENSG00000222123	ENST00000410191	rRNA	KNOWN	None	43290	None	None	25983655	25983767	1	RN5S390	None
14	None	ENSG00000212335	ENST00000391033	misc_RNA	NOVEL	None	None	None	None	23321825	23321937	-1	None	None
14	None	ENSG00000212071	ENST00000390782	miRNA	NOVEL	None	None	None	None	36665686	36665774	-1	None	None
5	RAD1	ENSG00000113456	ENST00000382038	protein_coding	KNOWN	CCDS3905	9806	849	282	34905369	34916871	-1	None	HRAD1, REC1
5	RAD1	ENSG00000113456	ENST00000341754	protein_coding	KNOWN	CCDS3905	9806	849	282	34908277	34919094	-1	None	HRAD1, REC1
5	RAD1	ENSG00000113456	ENST00000325577	nonsense_mediated_decay	KNOWN	None	9806	207	68	34908659	34915653	-1	None	HRAD1, REC1
5	RAD1	ENSG00000113456	ENST00000513914	nonsense_mediated_decay	KNOWN	None	9806	255	84	34908760	34915720	-1	None	HRAD1, REC1
5	RAD1	ENSG00000113456	ENST00000511456	nonsense_mediated_decay	KNOWN	None	9806	255	84	34911723	34915622	-1	None	HRAD1, REC1
5	RAD1	ENSG00000113456	ENST00000512192	retained_intron	KNOWN	None	9806	None	None	34913976	34914906	-1	None	HRAD1, REC1
5	RAD1	ENSG00000113456	ENST00000506311	retained_intron	KNOWN	None	9806	None	None	34914582	34915609	-1	None	HRAD1, REC1
X	ALG13-AS1	ENSG00000229487	ENST00000430794	antisense	KNOWN	None	41277	None	None	110949877	110954329	-1	None	None
20	RNA5SP486	ENSG00000251770	ENST00000515961	rRNA	KNOWN	None	43386	None	None	46501935	46502017	1	RN5S486	None
22	FAM227A	ENSG00000184949	ENST00000543828	processed_transcript	KNOWN	None	44197	None	None	38978174	38982150	-1	None	None
22	FAM227A	ENSG00000184949	ENST00000355830	protein_coding	NOVEL	None	44197	1941	646	38978174	39052308	-1	None	None
22	FAM227A	ENSG00000184949	ENST00000540952	processed_transcript	KNOWN	None	44197	None	None	38982029	39052634	-1	None	None
22	FAM227A	ENSG00000184949	ENST00000544346	processed_transcript	KNOWN	None	44197	None	None	38987439	39052308	-1	None	None
22	FAM227A	ENSG00000184949	ENST00000541689	processed_transcript	KNOWN	None	44197	None	None	38993212	39049858	-1	None	None
22	FAM227A	ENSG00000184949	ENST00000543295	processed_transcript	KNOWN	None	44197	None	None	39016221	39025007	-1	None	None
22	FAM227A	ENSG00000184949	ENST00000424706	processed_transcript	KNOWN	None	44197	None	None	39032562	39052283	-1	None	None
22	FAM227A	ENSG00000184949	ENST00000484582	retained_intron	KNOWN	None	44197	None	None	39034777	39052286	-1	None	None
22	FAM227A	ENSG00000184949	ENST00000490082	retained_intron	KNOWN	None	44197	None	None	39045950	39052367	-1	None	None
22	FAM227A	ENSG00000184949	ENST00000406767	protein_coding	KNOWN	None	44197	1941	646	38978354	39052634	-1	None	None
22	FAM227A	ENSG00000184949	ENST00000535113	protein_coding	KNOWN	None	44197	1713	570	38974125	39052634	-1	None	None
8	None	ENSG00000201329	ENST00000364459	snoRNA	NOVEL	None	None	None	None	43233441	43233652	1	None	None
8	RN7SKP41	ENSG00000222630	ENST00000410698	misc_RNA	KNOWN	None	45765	None	None	43236787	43237091	1	None	None
18	CELF4	ENSG00000101489	ENST00000586009	protein_coding	PUTATIVE	None	14015	347	114	34823010	34850883	-1	BRUNOL4	None
18	CELF4	ENSG00000101489	ENST00000588591	protein_coding	NOVEL	None	14015	456	151	34823010	34853006	-1	BRUNOL4	None
18	CELF4	ENSG00000101489	ENST00000334919	protein_coding	KNOWN	CCDS45858	14015	1347	448	34823010	35145604	-1	BRUNOL4	None
18	CELF4	ENSG00000101489	ENST00000591287	protein_coding	KNOWN	None	14015	1455	484	34823010	35145711	-1	BRUNOL4	None
18	CELF4	ENSG00000101489	ENST00000590112	nonsense_mediated_decay	KNOWN	None	14015	753	250	34824577	35065539	-1	BRUNOL4	None
18	CELF4	ENSG00000101489	ENST00000590011	processed_transcript	KNOWN	None	14015	None	None	34824797	34833944	-1	BRUNOL4	None
18	CELF4	ENSG00000101489	ENST00000601019	protein_coding	KNOWN	None	14015	1455	484	34824931	35145711	-1	BRUNOL4	None
18	CELF4	ENSG00000101489	ENST00000361795	protein_coding	KNOWN	CCDS45857	14015	1455	484	34824931	35145728	-1	BRUNOL4	None
18	CELF4	ENSG00000101489	ENST00000603232	protein_coding	PUTATIVE	None	14015	1458	485	34824943	35145790	-1	BRUNOL4	None
18	CELF4	ENSG00000101489	ENST00000587911	protein_coding	PUTATIVE	None	14015	209	68	34824967	34844717	-1	BRUNOL4	None
18	CELF4	ENSG00000101489	ENST00000591282	protein_coding	KNOWN	CCDS32818	14015	1461	486	34833774	35145604	-1	BRUNOL4	None
18	CELF4	ENSG00000101489	ENST00000593271	protein_coding	PUTATIVE	None	14015	414	137	34833801	34853006	-1	BRUNOL4	None
18	CELF4	ENSG00000101489	ENST00000589386	protein_coding	PUTATIVE	None	14015	544	180	34833818	34853006	-1	BRUNOL4	None
18	CELF4	ENSG00000101489	ENST00000588597	protein_coding	NOVEL	None	14015	1365	454	34839007	35145614	-1	BRUNOL4	None
18	CELF4	ENSG00000101489	ENST00000587657	protein_coding	PUTATIVE	None	14015	398	131	34839143	34853006	-1	BRUNOL4	None
18	CELF4	ENSG00000101489	ENST00000591421	retained_intron	KNOWN	None	14015	None	None	34846180	34853121	-1	BRUNOL4	None
18	CELF4	ENSG00000101489	ENST00000587074	processed_transcript	KNOWN	None	14015	None	None	34846496	34853547	-1	BRUNOL4	None
18	CELF4	ENSG00000101489	ENST00000601392	protein_coding	PUTATIVE	None	14015	882	293	34853016	35145711	-1	BRUNOL4	None
18	CELF4	ENSG00000101489	ENST00000587819	protein_coding	NOVEL	None	14015	462	153	34853064	35065820	-1	BRUNOL4	None
18	CELF4	ENSG00000101489	ENST00000589229	protein_coding	PUTATIVE	None	14015	487	161	34853072	35065710	-1	BRUNOL4	None
18	CELF4	ENSG00000101489	ENST00000587924	protein_coding	PUTATIVE	None	14015	201	66	34854828	35065997	-1	BRUNOL4	None
18	CELF4	ENSG00000101489	ENST00000587449	processed_transcript	KNOWN	None	14015	None	None	35108930	35145571	-1	BRUNOL4	None
18	CELF4	ENSG00000101489	ENST00000420428	protein_coding	KNOWN	CCDS32818	14015	1461	486	34823010	35146000	-1	BRUNOL4	None
18	CELF4	ENSG00000101489	ENST00000412753	protein_coding	KNOWN	CCDS45856	14015	1458	485	34823010	35146000	-1	BRUNOL4	None
10	ANKRD26	ENSG00000107890	ENST00000445828	protein_coding	PUTATIVE	None	29186	640	212	27280843	27303608	-1	None	KIAA1074
10	ANKRD26	ENSG00000107890	ENST00000376087	protein_coding	KNOWN	CCDS41499	29186	5133	1710	27293227	27389421	-1	None	KIAA1074
10	ANKRD26	ENSG00000107890	ENST00000490015	processed_transcript	KNOWN	None	29186	None	None	27326925	27335222	-1	None	KIAA1074
10	ANKRD26	ENSG00000107890	ENST00000473304	processed_transcript	KNOWN	None	29186	None	None	27355170	27366353	-1	None	KIAA1074
10	ANKRD26	ENSG00000107890	ENST00000466890	processed_transcript	KNOWN	None	29186	None	None	27365952	27369649	-1	None	KIAA1074
10	ANKRD26	ENSG00000107890	ENST00000436985	protein_coding	KNOWN	None	29186	5181	1726	27294478	27389320	-1	None	KIAA1074
10	ANKRD26	ENSG00000107890	ENST00000376070	protein_coding	KNOWN	None	29186	3804	1267	27293045	27340293	-1	None	KIAA1074
8	None	ENSG00000250637	ENST00000511619	unprocessed_pseudogene	KNOWN	None	None	None	None	43298045	43308055	1	None	None
HG989_PATCH	None	ENSG00000260386	ENST00000562339	processed_transcript	KNOWN	None	None	None	None	31972932	31981413	1	None	None
HG989_PATCH	None	ENSG00000260386	ENST00000563550	unitary_pseudogene	KNOWN	None	None	None	None	31974246	31982495	1	None	None
HG989_PATCH	None	ENSG00000260386	ENST00000566792	processed_transcript	KNOWN	None	None	None	None	31979062	31981066	1	None	None
HG989_PATCH	None	ENSG00000260386	ENST00000570127	processed_transcript	KNOWN	None	None	None	None	31979062	31981066	1	None	None
HG989_PATCH	None	ENSG00000260386	ENST00000562069	processed_transcript	KNOWN	None	None	None	None	31979073	32013732	1	None	None
HG989_PATCH	None	ENSG00000260386	ENST00000563302	processed_transcript	KNOWN	None	None	None	None	31979122	32009256	1	None	None
HG989_PATCH	None	ENSG00000260386	ENST00000562271	processed_transcript	KNOWN	None	None	None	None	31979143	31981412	1	None	None
15	None	ENSG00000199214	ENST00000362344	misc_RNA	NOVEL	None	None	None	None	26063130	26063217	1	None	None
X	None	ENSG00000230916	ENST00000441633	processed_pseudogene	KNOWN	None	None	None	None	125605688	125606386	1	None	None
20	FOXS1	ENSG00000179772	ENST00000375978	protein_coding	KNOWN	CCDS13192	3735	993	330	30432103	30433420	-1	FKHL18	FREAC10
14	RPL21P10	ENSG00000239272	ENST00000463521	processed_pseudogene	KNOWN	None	19795	None	None	78149545	78150332	-1	None	None
20	RNU7-92P	ENSG00000238785	ENST00000458830	snRNA	KNOWN	None	45626	None	None	46533092	46533167	1	None	None
14	None	ENSG00000258844	ENST00000556542	lincRNA	KNOWN	None	None	None	None	36683813	36704814	1	None	None
8	None	ENSG00000254317	ENST00000524100	antisense	KNOWN	None	None	None	None	130844547	130856750	1	None	None
14	ZMYND19P1	ENSG00000258917	ENST00000554267	processed_pseudogene	KNOWN	None	44540	None	None	78162934	78163720	1	None	None
8	None	ENSG00000243402	ENST00000490340	processed_pseudogene	KNOWN	None	None	None	None	130876724	130877298	1	None	None
15	MIR4715	ENSG00000266517	ENST00000584117	miRNA	KNOWN	None	41666	None	None	26093894	26093972	-1	None	hsa-mir-4715
20	XRN2	ENSG00000088930	ENST00000377191	protein_coding	KNOWN	CCDS13144	12836	2853	950	21283942	21370463	1	None	None
20	XRN2	ENSG00000088930	ENST00000539513	protein_coding	KNOWN	None	12836	2691	896	21284432	21370463	1	None	None
20	XRN2	ENSG00000088930	ENST00000430571	protein_coding	KNOWN	None	12836	2625	874	21283983	21370263	1	None	None
HG736_PATCH	MIR4283-1	ENSG00000266788	ENST00000583019	miRNA	KNOWN	None	38238	None	None	57023478	57023557	-1	None	hsa-mir-4283-1
HG736_PATCH	MIR4283-2	ENSG00000266788	ENST00000583019	miRNA	KNOWN	None	38296	None	None	57023478	57023557	-1	None	hsa-mir-4283-2
8	None	ENSG00000200075	ENST00000363205	snoRNA	NOVEL	None	None	None	None	130880836	130880962	-1	None	None
20	TRPC4AP	ENSG00000100991	ENST00000252015	protein_coding	KNOWN	CCDS13246	16181	2394	797	33590207	33680674	-1	C20orf188	DKFZP727M231, DKFZp586C1223, dJ756N5.2, TRRP4AP
20	TRPC4AP	ENSG00000100991	ENST00000451813	protein_coding	KNOWN	CCDS46591	16181	2370	789	33590215	33680618	-1	C20orf188	DKFZP727M231, DKFZp586C1223, dJ756N5.2, TRRP4AP
20	TRPC4AP	ENSG00000100991	ENST00000432634	protein_coding	KNOWN	None	16181	2277	758	33590763	33680610	-1	C20orf188	DKFZP727M231, DKFZp586C1223, dJ756N5.2, TRRP4AP
20	TRPC4AP	ENSG00000100991	ENST00000539834	protein_coding	KNOWN	None	16181	1200	399	33590548	33623094	-1	C20orf188	DKFZP727M231, DKFZp586C1223, dJ756N5.2, TRRP4AP
X	MTND4LP1	ENSG00000231501	ENST00000446263	processed_pseudogene	KNOWN	None	31347	None	None	125606711	125606867	1	None	MTND4L2
8	None	ENSG00000254263	ENST00000521014	lincRNA	KNOWN	None	None	None	None	130902711	130914004	1	None	None
HG736_PATCH	None	ENSG00000264816	ENST00000584890	misc_RNA	NOVEL	None	None	None	None	57032941	57033200	1	None	None
8	None	ENSG00000253720	ENST00000520146	lincRNA	KNOWN	None	None	None	None	130952102	130961640	1	None	None
HG736_PATCH	TNRC18P3	ENSG00000260039	ENST00000564052	unprocessed_pseudogene	KNOWN	None	34015	None	None	57059581	57076842	1	TNRC18C	None
15	None	ENSG00000259317	ENST00000559957	unprocessed_pseudogene	KNOWN	None	None	None	None	85815758	85816205	1	None	None
10	PHYHIPL	ENSG00000165443	ENST00000373880	protein_coding	KNOWN	CCDS7254	29378	1131	376	60936350	61007534	1	None	KIAA1796, Em:AC025038.1
10	PHYHIPL	ENSG00000165443	ENST00000486074	nonsense_mediated_decay	KNOWN	None	29378	150	49	60936421	61005907	1	None	KIAA1796, Em:AC025038.1
10	PHYHIPL	ENSG00000165443	ENST00000373878	protein_coding	KNOWN	CCDS44405	29378	1053	350	60937018	61007534	1	None	KIAA1796, Em:AC025038.1
10	PHYHIPL	ENSG00000165443	ENST00000472199	processed_transcript	KNOWN	None	29378	None	None	60996287	60998528	1	None	KIAA1796, Em:AC025038.1
10	PHYHIPL	ENSG00000165443	ENST00000433653	protein_coding	KNOWN	None	29378	150	49	60936558	60966557	1	None	KIAA1796, Em:AC025038.1
HG388_HG400_PATCH	ALG9	ENSG00000262577	ENST00000571337	protein_coding	PUTATIVE	None	15672	623	206	111652919	111709028	-1	DIBD1	None
HG388_HG400_PATCH	ALG9	ENSG00000262577	ENST00000585965	processed_transcript	KNOWN	None	15672	None	None	111656876	111685445	-1	DIBD1	None
HG388_HG400_PATCH	ALG9	ENSG00000262577	ENST00000585430	protein_coding	KNOWN	None	15672	1836	611	111656980	111742256	-1	DIBD1	None
HG388_HG400_PATCH	ALG9	ENSG00000262577	ENST00000590355	processed_transcript	KNOWN	None	15672	None	None	111657000	111707438	-1	DIBD1	None
HG388_HG400_PATCH	ALG9	ENSG00000262577	ENST00000587733	nonsense_mediated_decay	KNOWN	None	15672	309	102	111657005	111742283	-1	DIBD1	None
HG388_HG400_PATCH	ALG9	ENSG00000262577	ENST00000592130	nonsense_mediated_decay	KNOWN	None	15672	107	34	111657008	111680433	-1	DIBD1	None
HG388_HG400_PATCH	ALG9	ENSG00000262577	ENST00000587827	protein_coding	KNOWN	None	15672	1344	447	111657008	111741588	-1	DIBD1	None
HG388_HG400_PATCH	ALG9	ENSG00000262577	ENST00000592795	protein_coding	KNOWN	None	15672	1323	440	111657008	111742024	-1	DIBD1	None
HG388_HG400_PATCH	ALG9	ENSG00000262577	ENST00000586097	protein_coding	KNOWN	None	15672	1857	618	111657008	111742304	-1	DIBD1	None
HG388_HG400_PATCH	ALG9	ENSG00000262577	ENST00000586586	nonsense_mediated_decay	KNOWN	None	15672	73	23	111657010	111680414	-1	DIBD1	None
HG388_HG400_PATCH	ALG9	ENSG00000262577	ENST00000587031	nonsense_mediated_decay	KNOWN	None	15672	234	77	111680367	111739459	-1	DIBD1	None
HG388_HG400_PATCH	ALG9	ENSG00000262577	ENST00000589848	nonsense_mediated_decay	KNOWN	None	15672	507	168	111708262	111742269	-1	DIBD1	None
HG388_HG400_PATCH	ALG9	ENSG00000262577	ENST00000593018	processed_transcript	KNOWN	None	15672	None	None	111708266	111716114	-1	DIBD1	None
HG388_HG400_PATCH	ALG9	ENSG00000262577	ENST00000591644	retained_intron	KNOWN	None	15672	None	None	111711489	111728667	-1	DIBD1	None
HG388_HG400_PATCH	ALG9	ENSG00000262577	ENST00000588006	processed_transcript	KNOWN	None	15672	None	None	111720187	111742266	-1	DIBD1	None
HG388_HG400_PATCH	ALG9	ENSG00000262577	ENST00000587104	nonsense_mediated_decay	KNOWN	None	15672	405	134	111728325	111742304	-1	DIBD1	None
HG388_HG400_PATCH	ALG9	ENSG00000262577	ENST00000586766	processed_transcript	KNOWN	None	15672	None	None	111739357	111742006	-1	DIBD1	None
21	HUNK	ENSG00000142149	ENST00000270112	protein_coding	KNOWN	CCDS13610	13326	2145	714	33245628	33376377	1	None	None
21	HUNK	ENSG00000142149	ENST00000430354	protein_coding	PUTATIVE	None	13326	486	161	33296864	33340646	1	None	None
21	HUNK	ENSG00000142149	ENST00000465574	processed_transcript	PUTATIVE	None	13326	None	None	33346490	33368240	1	None	None
21	HUNK	ENSG00000142149	ENST00000439107	protein_coding	PUTATIVE	None	13326	339	112	33347015	33416946	1	None	None
15	CORO2B	ENSG00000103647	ENST00000261861	protein_coding	KNOWN	CCDS53952	2256	1428	475	68871308	69020145	1	None	ClipinC, KIAA0925
15	CORO2B	ENSG00000103647	ENST00000566799	protein_coding	KNOWN	CCDS10229	2256	1443	480	68871573	69020142	1	None	ClipinC, KIAA0925
15	CORO2B	ENSG00000103647	ENST00000540068	protein_coding	KNOWN	CCDS53952	2256	1428	475	68908879	69020142	1	None	ClipinC, KIAA0925
15	CORO2B	ENSG00000103647	ENST00000543950	protein_coding	KNOWN	CCDS53952	2256	1428	475	68924327	69020142	1	None	ClipinC, KIAA0925
4	None	ENSG00000226757	ENST00000424958	protein_coding	KNOWN	None	None	300	99	122685740	122687962	1	None	None
15	None	ENSG00000259379	ENST00000560711	processed_pseudogene	KNOWN	None	None	None	None	58444805	58446606	1	None	None
15	None	ENSG00000247728	ENST00000501830	antisense	KNOWN	None	None	None	None	30909201	30917976	-1	None	None
14	None	ENSG00000258802	ENST00000556998	processed_pseudogene	KNOWN	None	None	None	None	53265622	53265779	-1	None	None
14	None	ENSG00000259036	ENST00000554769	antisense	KNOWN	None	None	None	None	96699768	96700438	-1	None	None
X	None	ENSG00000230956	ENST00000449217	processed_pseudogene	KNOWN	None	None	None	None	87351394	87352226	-1	None	None
8	RNU4-71P	ENSG00000252067	ENST00000516258	snRNA	KNOWN	None	47007	None	None	23457539	23457651	-1	None	None
8	None	ENSG00000255289	ENST00000373384	lincRNA	KNOWN	None	None	None	None	61573379	61577089	1	None	None
8	None	ENSG00000253488	ENST00000524174	processed_pseudogene	KNOWN	None	None	None	None	23492389	23493020	-1	None	None
8	None	ENSG00000254432	ENST00000534670	antisense	KNOWN	None	None	None	None	61721294	61722165	-1	None	None
14	IGHV3-13	ENSG00000211942	ENST00000390602	IG_V_gene	KNOWN	None	5581	348	115	106586137	106586667	-1	None	None
14	None	ENSG00000271075	ENST00000605879	processed_pseudogene	KNOWN	None	None	None	None	53338176	53338935	1	None	None
14	None	ENSG00000258793	ENST00000553638	antisense	KNOWN	None	None	None	None	96725748	96734961	-1	None	None
8	None	ENSG00000215264	ENST00000462503	processed_pseudogene	KNOWN	None	None	None	None	34180510	34181160	-1	None	None
X	GPKOW	ENSG00000068394	ENST00000156109	protein_coding	KNOWN	CCDS35251	30677	1431	476	48970334	48980151	-1	None	T54, GPATC5, GPATCH5, Spp2
15	None	ENSG00000252602	ENST00000516793	snoRNA	NOVEL	None	None	None	None	30935128	30935255	1	None	None
HG730_PATCH	ZNF90	ENSG00000261352	ENST00000569546	nonsense_mediated_decay	KNOWN	None	13165	339	112	20188803	20237827	1	None	HTF9
HG730_PATCH	ZNF90	ENSG00000261352	ENST00000570240	processed_transcript	KNOWN	None	13165	None	None	20188803	20237885	1	None	HTF9
HG730_PATCH	ZNF90	ENSG00000261352	ENST00000563015	nonsense_mediated_decay	KNOWN	None	13165	231	76	20188814	20228853	1	None	HTF9
HG730_PATCH	ZNF90	ENSG00000261352	ENST00000563337	protein_coding	KNOWN	None	13165	1806	601	20188830	20230561	1	None	HTF9
HG730_PATCH	ZNF90	ENSG00000261352	ENST00000568935	processed_transcript	KNOWN	None	13165	None	None	20188846	20191128	1	None	HTF9
HG730_PATCH	ZNF90	ENSG00000261352	ENST00000562689	retained_intron	KNOWN	None	13165	None	None	20231633	20235952	1	None	HTF9
X	None	ENSG00000252016	ENST00000516207	snoRNA	NOVEL	None	None	None	None	87403793	87403919	1	None	None
15	None	ENSG00000259671	ENST00000558717	processed_pseudogene	KNOWN	None	None	None	None	58447159	58448260	1	None	None
15	None	ENSG00000269974	ENST00000602684	lincRNA	KNOWN	None	None	None	None	30941000	30941732	1	None	None
X	None	ENSG00000271693	ENST00000603096	processed_pseudogene	KNOWN	None	None	None	None	87624344	87624460	1	None	None
15	None	ENSG00000259447	ENST00000558245	lincRNA	KNOWN	None	None	None	None	39592619	39602983	-1	None	None
15	None	ENSG00000259447	ENST00000558948	lincRNA	KNOWN	None	None	None	None	39599397	39602960	-1	None	None
18	None	ENSG00000266774	ENST00000579278	lincRNA	KNOWN	None	None	None	None	73144658	73148912	-1	None	None
16	ZNF200	ENSG00000010539	ENST00000396868	protein_coding	KNOWN	CCDS42112	12993	1185	394	3272325	3285360	-1	None	None
16	ZNF200	ENSG00000010539	ENST00000414144	protein_coding	KNOWN	CCDS10497	12993	1188	395	3272325	3285456	-1	None	None
16	ZNF200	ENSG00000010539	ENST00000396871	protein_coding	KNOWN	CCDS45395	12993	1185	394	3272342	3285457	-1	None	None
16	ZNF200	ENSG00000010539	ENST00000431561	protein_coding	KNOWN	CCDS10497	12993	1188	395	3272345	3285167	-1	None	None
16	ZNF200	ENSG00000010539	ENST00000396870	protein_coding	KNOWN	CCDS45395	12993	1185	394	3273336	3285186	-1	None	None
16	ZNF200	ENSG00000010539	ENST00000575285	retained_intron	KNOWN	None	12993	None	None	3273498	3277805	-1	None	None
16	ZNF200	ENSG00000010539	ENST00000575948	protein_coding	KNOWN	CCDS45395	12993	1185	394	3273892	3285070	-1	None	None
16	ZNF200	ENSG00000010539	ENST00000575630	retained_intron	KNOWN	None	12993	None	None	3282431	3284195	-1	None	None
16	ZNF200	ENSG00000010539	ENST00000575617	protein_coding	KNOWN	None	12993	129	42	3283627	3286221	-1	None	None
16	ZNF200	ENSG00000010539	ENST00000577015	retained_intron	KNOWN	None	12993	None	None	3284795	3286003	-1	None	None
14	None	ENSG00000258503	ENST00000554238	processed_pseudogene	KNOWN	None	None	None	None	53478689	53478985	1	None	None
14	None	ENSG00000238776	ENST00000458931	snoRNA	NOVEL	None	None	None	None	96790045	96790124	-1	None	None
18	None	ENSG00000261194	ENST00000564156	lincRNA	KNOWN	None	None	None	None	73408034	73424340	-1	None	None
8	None	ENSG00000254344	ENST00000519189	lincRNA	KNOWN	None	None	None	None	34641570	34722316	1	None	None
8	None	ENSG00000271377	ENST00000603849	processed_pseudogene	KNOWN	None	None	None	None	61818618	61819011	1	None	None
14	IGHV3-15	ENSG00000211943	ENST00000390603	IG_V_gene	KNOWN	None	5582	357	118	106610313	106610852	-1	None	None
14	RNU2-33P	ENSG00000222276	ENST00000410344	snRNA	KNOWN	None	48526	None	None	96850961	96851152	1	None	None
10	MCM10	ENSG00000065328	ENST00000378714	protein_coding	KNOWN	CCDS7095	18043	2625	874	13203554	13253104	1	None	PRO2249, CNA43, DNA43
10	MCM10	ENSG00000065328	ENST00000479669	protein_coding	PUTATIVE	None	18043	208	68	13203579	13214474	1	None	PRO2249, CNA43, DNA43
10	MCM10	ENSG00000065328	ENST00000484800	protein_coding	KNOWN	CCDS7096	18043	2628	875	13203579	13251736	1	None	PRO2249, CNA43, DNA43
10	MCM10	ENSG00000065328	ENST00000378694	protein_coding	KNOWN	None	18043	2568	855	13206128	13253104	1	None	PRO2249, CNA43, DNA43
10	MCM10	ENSG00000065328	ENST00000459751	retained_intron	KNOWN	None	18043	None	None	13234491	13237580	1	None	PRO2249, CNA43, DNA43
10	MCM10	ENSG00000065328	ENST00000481292	retained_intron	KNOWN	None	18043	None	None	13237086	13243872	1	None	PRO2249, CNA43, DNA43
10	MCM10	ENSG00000065328	ENST00000485659	retained_intron	KNOWN	None	18043	None	None	13240763	13246526	1	None	PRO2249, CNA43, DNA43
18	None	ENSG00000266460	ENST00000581971	lincRNA	KNOWN	None	None	None	None	73556880	73580207	-1	None	None
8	None	ENSG00000253471	ENST00000523874	antisense	KNOWN	None	None	None	None	23564654	23647000	1	None	None
14	RNU2-14P	ENSG00000222985	ENST00000411053	snRNA	KNOWN	None	48507	None	None	65591070	65591260	-1	None	None
18	None	ENSG00000264108	ENST00000579775	lincRNA	KNOWN	None	None	None	None	73720073	73727816	-1	None	None
14	None	ENSG00000255002	ENST00000531609	lincRNA	KNOWN	None	None	None	None	65679611	65689065	-1	None	None
15	None	ENSG00000206846	ENST00000384119	misc_RNA	NOVEL	None	None	None	None	30965953	30966046	1	None	None
HSCHR6_MHC_MCF	None	ENSG00000257637	ENST00000552647	protein_coding	NOVEL	None	None	99	32	33078411	33080790	-1	None	None
HSCHR6_1_CTG5	None	ENSG00000262508	ENST00000576576	processed_pseudogene	KNOWN	None	None	None	None	80064160	80064430	-1	None	None
18	None	ENSG00000263547	ENST00000584677	lincRNA	KNOWN	None	None	None	None	73834953	73857210	1	None	None
18	None	ENSG00000263547	ENST00000578560	retained_intron	KNOWN	None	None	None	None	73835380	73836100	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000257975	ENST00000549541	pseudogene	NOVEL	None	None	None	None	32079929	32080179	-1	None	None
HSCHR6_MHC_MANN	None	ENSG00000263418	ENST00000577378	rRNA	NOVEL	None	None	None	None	32085737	32085857	-1	None	None
15	GOLGA8UP	ENSG00000103832	ENST00000527159	unprocessed_pseudogene	KNOWN	None	44411	None	None	31083776	31094062	1	None	None
15	None	ENSG00000259269	ENST00000558846	lincRNA	KNOWN	None	None	None	None	39764904	39765805	1	None	None
15	None	ENSG00000259269	ENST00000560552	lincRNA	KNOWN	None	None	None	None	39765474	39771579	1	None	None
15	None	ENSG00000259269	ENST00000560815	lincRNA	KNOWN	None	None	None	None	39771537	39773407	1	None	None
14	None	ENSG00000199716	ENST00000362846	misc_RNA	NOVEL	None	None	None	None	23337027	23337126	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000257697	ENST00000552841	pseudogene	NOVEL	None	None	None	None	32273522	32273689	1	None	None
18	None	ENSG00000266743	ENST00000578035	lincRNA	KNOWN	None	None	None	None	73885259	73889693	-1	None	None
9	STX17	ENSG00000136874	ENST00000259400	protein_coding	KNOWN	CCDS6745	11432	909	302	102668915	102732618	1	None	FLJ20651
9	STX17	ENSG00000136874	ENST00000529340	nonsense_mediated_decay	KNOWN	None	11432	138	45	102668953	102730802	1	None	FLJ20651
9	STX17	ENSG00000136874	ENST00000533696	retained_intron	KNOWN	None	11432	None	None	102668955	102691451	1	None	FLJ20651
9	STX17	ENSG00000136874	ENST00000531035	protein_coding	KNOWN	None	11432	123	40	102668959	102713466	1	None	FLJ20651
9	STX17	ENSG00000136874	ENST00000525342	nonsense_mediated_decay	KNOWN	None	11432	207	68	102668960	102722235	1	None	FLJ20651
9	STX17	ENSG00000136874	ENST00000524405	nonsense_mediated_decay	KNOWN	None	11432	426	141	102668978	102731030	1	None	FLJ20651
9	STX17	ENSG00000136874	ENST00000525640	protein_coding	KNOWN	CCDS6745	11432	909	302	102668991	102731822	1	None	FLJ20651
9	STX17	ENSG00000136874	ENST00000534052	protein_coding	KNOWN	CCDS6745	11432	909	302	102668994	102731822	1	None	FLJ20651
9	STX17	ENSG00000136874	ENST00000526607	protein_coding	KNOWN	None	11432	123	40	102669024	102677644	1	None	FLJ20651
9	STX17	ENSG00000136874	ENST00000525579	processed_transcript	PUTATIVE	None	11432	None	None	102691060	102716325	1	None	FLJ20651
9	STX17	ENSG00000136874	ENST00000525847	processed_transcript	PUTATIVE	None	11432	None	None	102700190	102730894	1	None	FLJ20651
9	STX17	ENSG00000136874	ENST00000529385	retained_intron	KNOWN	None	11432	None	None	102729552	102731103	1	None	FLJ20651
18	None	ENSG00000264260	ENST00000581750	lincRNA	KNOWN	None	None	None	None	73921465	73927657	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000257978	ENST00000546779	pseudogene	NOVEL	None	None	None	None	32322510	32322659	1	None	None
HG686_PATCH	None	ENSG00000259916	ENST00000561882	protein_coding	NOVEL	None	None	1044	347	95352269	95368320	1	None	None
14	PRMT5-AS1	ENSG00000237054	ENST00000424245	antisense	KNOWN	None	40533	None	None	23388665	23392616	1	None	None
14	PRMT5-AS1	ENSG00000237054	ENST00000457443	antisense	KNOWN	None	40533	None	None	23390213	23392610	1	None	None
14	PRMT5-AS1	ENSG00000237054	ENST00000595662	antisense	KNOWN	None	40533	None	None	23390247	23395828	1	None	None
14	PRMT5-AS1	ENSG00000237054	ENST00000587245	antisense	KNOWN	None	40533	None	None	23390247	23396034	1	None	None
14	PRMT5-AS1	ENSG00000237054	ENST00000599580	antisense	KNOWN	None	40533	None	None	23390247	23396039	1	None	None
14	PRMT5-AS1	ENSG00000237054	ENST00000590290	antisense	KNOWN	None	40533	None	None	23390250	23396105	1	None	None
9	TMEM246	ENSG00000165152	ENST00000374847	protein_coding	KNOWN	CCDS6757	28180	1212	403	104235453	104249399	-1	C9orf125	MGC12992
9	TMEM246	ENSG00000165152	ENST00000374848	protein_coding	KNOWN	CCDS6757	28180	1212	403	104235453	104249475	-1	C9orf125	MGC12992
9	TMEM246	ENSG00000165152	ENST00000374851	protein_coding	KNOWN	CCDS6757	28180	1212	403	104235453	104295730	-1	C9orf125	MGC12992
9	TMEM246	ENSG00000165152	ENST00000482920	processed_transcript	KNOWN	None	28180	None	None	104293517	104295819	-1	C9orf125	MGC12992
18	None	ENSG00000264595	ENST00000582755	lincRNA	KNOWN	None	None	None	None	73939945	73945342	-1	None	None
HSCHR6_MHC_MANN	HNRNPA1P2	ENSG00000233160	ENST00000452727	processed_pseudogene	KNOWN	None	13958	None	None	32332438	32333397	1	HNRPA1P2	dJ372B18.1
20	DUSP15	ENSG00000149599	ENST00000447647	protein_coding	KNOWN	None	16236	281	92	30435440	30437361	-1	None	bA243J16.6, VHY
20	DUSP15	ENSG00000149599	ENST00000278979	protein_coding	KNOWN	None	16236	888	295	30435440	30458467	-1	None	bA243J16.6, VHY
20	DUSP15	ENSG00000149599	ENST00000486996	protein_coding	KNOWN	CCDS42862	16236	399	132	30448870	30458028	-1	None	bA243J16.6, VHY
20	DUSP15	ENSG00000149599	ENST00000398084	protein_coding	KNOWN	CCDS42862	16236	399	132	30448870	30458083	-1	None	bA243J16.6, VHY
20	DUSP15	ENSG00000149599	ENST00000375966	protein_coding	KNOWN	None	16236	699	232	30448870	30458432	-1	None	bA243J16.6, VHY
20	DUSP15	ENSG00000149599	ENST00000339738	protein_coding	KNOWN	CCDS13193	16236	708	235	30448870	30458550	-1	None	bA243J16.6, VHY
20	DUSP15	ENSG00000149599	ENST00000459848	processed_transcript	KNOWN	None	16236	None	None	30450390	30458004	-1	None	bA243J16.6, VHY
20	DUSP15	ENSG00000149599	ENST00000493115	processed_transcript	KNOWN	None	16236	None	None	30451430	30458304	-1	None	bA243J16.6, VHY
20	DUSP15	ENSG00000149599	ENST00000428829	protein_coding	PUTATIVE	None	16236	229	75	30451710	30458375	-1	None	bA243J16.6, VHY
20	DUSP15	ENSG00000149599	ENST00000398083	protein_coding	KNOWN	CCDS42862	16236	399	132	30448870	30457801	-1	None	bA243J16.6, VHY
18	None	ENSG00000266014	ENST00000577258	lincRNA	KNOWN	None	None	None	None	73959680	73963343	1	None	None
14	None	ENSG00000258993	ENST00000553515	processed_pseudogene	KNOWN	None	None	None	None	53489773	53490315	1	None	None
18	None	ENSG00000265717	ENST00000579714	lincRNA	KNOWN	None	None	None	None	73966247	73967169	-1	None	None
HSCHR6_1_CTG5	None	ENSG00000262286	ENST00000572323	processed_pseudogene	KNOWN	None	None	None	None	80094501	80095390	1	None	None
8	None	ENSG00000254002	ENST00000520375	lincRNA	KNOWN	None	None	None	None	23583844	23600555	-1	None	None
18	None	ENSG00000264212	ENST00000579833	lincRNA	KNOWN	None	None	None	None	73968846	73970292	1	None	None
X	TRPC5OS	ENSG00000204025	ENST00000371970	antisense	KNOWN	None	40593	None	None	111125125	111147218	1	TRPC5-AS1	None
14	None	ENSG00000258985	ENST00000556988	antisense	KNOWN	None	None	None	None	53503473	53504969	1	None	None
14	PEBP1P1	ENSG00000259059	ENST00000554856	processed_pseudogene	KNOWN	None	20054	None	None	96890037	96890546	-1	PBPP1	None
18	None	ENSG00000263982	ENST00000583287	antisense	KNOWN	None	None	None	None	74084672	74090230	1	None	None
HSCHR6_MHC_DBB	FKBPL	ENSG00000224200	ENST00000456854	protein_coding	KNOWN	None	13949	1050	349	32072259	32073843	-1	None	DIR1, NG7
X	None	ENSG00000232379	ENST00000439143	processed_pseudogene	KNOWN	None	None	None	None	136029907	136030292	-1	None	None
18	None	ENSG00000265778	ENST00000581996	antisense	KNOWN	None	None	None	None	74203608	74205487	1	None	None
10	CDK1	ENSG00000170312	ENST00000519078	protein_coding	KNOWN	None	1722	569	188	62538089	62551727	1	CDC2	CDC28A
10	CDK1	ENSG00000170312	ENST00000475504	retained_intron	KNOWN	None	1722	None	None	62538123	62546827	1	CDC2	CDC28A
10	CDK1	ENSG00000170312	ENST00000395284	protein_coding	KNOWN	CCDS44408	1722	894	297	62538212	62554610	1	CDC2	CDC28A
10	CDK1	ENSG00000170312	ENST00000519760	processed_transcript	KNOWN	None	1722	None	None	62538215	62543351	1	CDC2	CDC28A
10	CDK1	ENSG00000170312	ENST00000448257	protein_coding	KNOWN	None	1722	894	297	62538251	62554586	1	CDC2	CDC28A
10	CDK1	ENSG00000170312	ENST00000373809	protein_coding	KNOWN	CCDS7260	1722	723	240	62539911	62554610	1	CDC2	CDC28A
10	CDK1	ENSG00000170312	ENST00000487784	retained_intron	KNOWN	None	1722	None	None	62547429	62551685	1	CDC2	CDC28A
10	CDK1	ENSG00000170312	ENST00000316629	protein_coding	KNOWN	CCDS7260	1722	723	240	62538212	62554601	1	CDC2	CDC28A
8	FAM66B	ENSG00000215374	ENST00000529456	lincRNA	KNOWN	None	28890	None	None	7159133	7212876	-1	None	None
8	FAM66B	ENSG00000215374	ENST00000606573	lincRNA	KNOWN	None	28890	None	None	7176062	7212861	-1	None	None
8	None	ENSG00000254777	ENST00000526936	lincRNA	KNOWN	None	None	None	None	61822612	61879015	1	None	None
8	None	ENSG00000254777	ENST00000529234	lincRNA	KNOWN	None	None	None	None	61823149	61875984	1	None	None
8	None	ENSG00000254777	ENST00000527672	lincRNA	KNOWN	None	None	None	None	61831540	61879116	1	None	None
18	LINC00683	ENSG00000266256	ENST00000579781	lincRNA	KNOWN	None	44467	None	None	74327169	74337897	1	None	None
18	LINC00683	ENSG00000266256	ENST00000578803	lincRNA	KNOWN	None	44467	None	None	74331734	74335516	1	None	None
8	None	ENSG00000216123	ENST00000401304	miRNA	NOVEL	None	None	None	None	23626069	23626158	-1	None	None
HG7_PATCH	TRBV7-3	ENSG00000260080	ENST00000561716	TR_V_gene	KNOWN	None	12237	347	114	142105845	142106351	1	None	TRBV73, TCRBV6S1A1N1, TCRBV7S3
16	CLUAP1	ENSG00000103351	ENST00000576634	protein_coding	KNOWN	CCDS32381	19009	1242	413	3550924	3589048	1	None	FLJ13297, KIAA0643, FAP22
16	CLUAP1	ENSG00000103351	ENST00000573370	nonsense_mediated_decay	KNOWN	None	19009	153	50	3550976	3565551	1	None	FLJ13297, KIAA0643, FAP22
16	CLUAP1	ENSG00000103351	ENST00000574369	protein_coding	NOVEL	None	19009	605	200	3550981	3573229	1	None	FLJ13297, KIAA0643, FAP22
16	CLUAP1	ENSG00000103351	ENST00000574592	nonsense_mediated_decay	KNOWN	None	19009	126	41	3550982	3573196	1	None	FLJ13297, KIAA0643, FAP22
16	CLUAP1	ENSG00000103351	ENST00000575134	nonsense_mediated_decay	KNOWN	None	19009	108	35	3551007	3580609	1	None	FLJ13297, KIAA0643, FAP22
16	CLUAP1	ENSG00000103351	ENST00000341633	protein_coding	NOVEL	None	19009	1299	432	3551012	3586559	1	None	FLJ13297, KIAA0643, FAP22
16	CLUAP1	ENSG00000103351	ENST00000571025	protein_coding	PUTATIVE	None	19009	1164	387	3551018	3586825	1	None	FLJ13297, KIAA0643, FAP22
16	CLUAP1	ENSG00000103351	ENST00000576117	protein_coding	PUTATIVE	None	19009	362	119	3552044	3558464	1	None	FLJ13297, KIAA0643, FAP22
16	CLUAP1	ENSG00000103351	ENST00000572600	protein_coding	KNOWN	CCDS45398	19009	744	247	3559894	3587669	1	None	FLJ13297, KIAA0643, FAP22
16	CLUAP1	ENSG00000103351	ENST00000574551	protein_coding	KNOWN	None	19009	453	150	3565376	3580590	1	None	FLJ13297, KIAA0643, FAP22
16	CLUAP1	ENSG00000103351	ENST00000572632	nonsense_mediated_decay	KNOWN	None	19009	86	27	3569969	3586470	1	None	FLJ13297, KIAA0643, FAP22
16	CLUAP1	ENSG00000103351	ENST00000575323	retained_intron	KNOWN	None	19009	None	None	3580462	3583111	1	None	FLJ13297, KIAA0643, FAP22
16	CLUAP1	ENSG00000103351	ENST00000417763	protein_coding	KNOWN	CCDS45398	19009	744	247	3551017	3586581	1	None	FLJ13297, KIAA0643, FAP22
16	CLUAP1	ENSG00000103351	ENST00000445795	protein_coding	KNOWN	None	19009	576	191	3569929	3586501	1	None	FLJ13297, KIAA0643, FAP22
18	None	ENSG00000266312	ENST00000582231	lincRNA	KNOWN	None	None	None	None	74334963	74350968	-1	None	None
HSCHR6_MHC_APD	TRIM26	ENSG00000228881	ENST00000425523	protein_coding	KNOWN	None	12962	1620	539	30089025	30118001	-1	ZNF173	RNF95
HSCHR6_MHC_APD	TRIM26	ENSG00000228881	ENST00000439094	protein_coding	KNOWN	None	12962	1620	539	30089025	30117940	-1	ZNF173	RNF95
HSCHR6_MHC_APD	TRIM26	ENSG00000228881	ENST00000456770	protein_coding	KNOWN	None	12962	1620	539	30089025	30109345	-1	ZNF173	RNF95
HSCHR6_MHC_APD	TRIM26	ENSG00000228881	ENST00000471458	retained_intron	KNOWN	None	12962	None	None	30089025	30094971	-1	ZNF173	RNF95
HSCHR6_MHC_APD	TRIM26	ENSG00000228881	ENST00000422802	protein_coding	KNOWN	None	12962	745	247	30101116	30117993	-1	ZNF173	RNF95
HSCHR6_MHC_APD	TRIM26	ENSG00000228881	ENST00000438064	protein_coding	KNOWN	None	12962	477	158	30101159	30109301	-1	ZNF173	RNF95
HSCHR6_MHC_APD	TRIM26	ENSG00000228881	ENST00000453442	protein_coding	KNOWN	None	12962	472	156	30103071	30117959	-1	ZNF173	RNF95
HSCHR6_MHC_APD	TRIM26	ENSG00000228881	ENST00000440149	protein_coding	KNOWN	None	12962	366	121	30103318	30117940	-1	ZNF173	RNF95
HSCHR6_MHC_APD	TRIM26	ENSG00000228881	ENST00000484938	processed_transcript	KNOWN	None	12962	None	None	30103344	30117939	-1	ZNF173	RNF95
X	None	ENSG00000271421	ENST00000603950	processed_pseudogene	KNOWN	None	None	None	None	111173963	111174320	1	None	None
HG729_PATCH	MYO1F	ENSG00000262149	ENST00000572880	protein_coding	KNOWN	None	7600	3297	1098	8585996	8642307	-1	None	None
14	RPL23AP10	ENSG00000240051	ENST00000489946	processed_pseudogene	KNOWN	None	19804	None	None	96922913	96923378	-1	None	None
HSCHR6_MHC_QBL	TAPBP	ENSG00000206281	ENST00000461837	processed_transcript	PUTATIVE	None	11566	None	None	33196314	33210870	-1	None	TAPA
HSCHR6_MHC_QBL	TAPBP	ENSG00000206281	ENST00000412144	protein_coding	KNOWN	None	11566	1401	466	33196314	33210877	-1	None	TAPA
HSCHR6_MHC_QBL	TAPBP	ENSG00000206281	ENST00000383198	protein_coding	KNOWN	None	11566	1347	448	33196314	33211013	-1	None	TAPA
HSCHR6_MHC_QBL	TAPBP	ENSG00000206281	ENST00000470016	processed_transcript	PUTATIVE	None	11566	None	None	33196351	33210682	-1	None	TAPA
HSCHR6_MHC_QBL	TAPBP	ENSG00000206281	ENST00000383197	protein_coding	KNOWN	None	11566	1515	504	33200267	33210838	-1	None	TAPA
HSCHR6_MHC_QBL	TAPBP	ENSG00000206281	ENST00000493747	retained_intron	KNOWN	None	11566	None	None	33200293	33210675	-1	None	TAPA
HSCHR6_MHC_QBL	TAPBP	ENSG00000206281	ENST00000462962	processed_transcript	PUTATIVE	None	11566	None	None	33200898	33210667	-1	None	TAPA
HSCHR6_MHC_QBL	TAPBP	ENSG00000206281	ENST00000451696	protein_coding	KNOWN	None	11566	607	201	33201619	33210672	-1	None	TAPA
HSCHR6_MHC_QBL	TAPBP	ENSG00000206281	ENST00000490325	processed_transcript	PUTATIVE	None	11566	None	None	33209640	33210581	-1	None	TAPA
HSCHR6_MHC_QBL	TAPBP	ENSG00000206281	ENST00000550915	protein_coding	KNOWN	None	11566	1347	448	33200405	33210985	-1	None	TAPA
HSCHR6_MHC_QBL	TAPBP	ENSG00000206281	ENST00000549142	protein_coding	KNOWN	None	11566	1086	361	33200405	33210985	-1	None	TAPA
HSCHR6_MHC_QBL	TAPBP	ENSG00000206281	ENST00000548408	protein_coding	KNOWN	None	11566	471	156	33196317	33210870	-1	None	TAPA
18	None	ENSG00000229055	ENST00000415242	lincRNA	KNOWN	None	None	None	None	74401986	74405592	1	None	None
18	None	ENSG00000229055	ENST00000600589	lincRNA	KNOWN	None	None	None	None	74402046	74403498	1	None	None
HG7_PATCH	TRBV5-3	ENSG00000261237	ENST00000566862	TR_V_gene	KNOWN	None	12220	343	113	142110713	142111179	1	None	TRBV53, TCRBV5S3, TCRBV5S5P
HSCHR6_MHC_COX	PSORS1C2	ENSG00000224544	ENST00000458589	protein_coding	KNOWN	None	17199	411	136	31097829	31099645	-1	C6orf17	SPR1
15	None	ENSG00000240934	ENST00000486795	processed_pseudogene	KNOWN	None	None	None	None	58492805	58493217	1	None	None
8	DEFB109P1B	ENSG00000206034	ENST00000382656	unprocessed_pseudogene	KNOWN	None	33469	None	None	7170368	7177473	1	None	None
14	None	ENSG00000260806	ENST00000569214	antisense	KNOWN	None	None	None	None	96967147	96968658	-1	None	None
4	RPL34	ENSG00000109475	ENST00000394667	protein_coding	KNOWN	CCDS3680	10340	354	117	109541722	109546411	1	None	L34
4	RPL34	ENSG00000109475	ENST00000502534	protein_coding	KNOWN	CCDS3680	10340	354	117	109541725	109546710	1	None	L34
4	RPL34	ENSG00000109475	ENST00000394665	protein_coding	KNOWN	CCDS3680	10340	354	117	109541746	109546411	1	None	L34
4	RPL34	ENSG00000109475	ENST00000503574	retained_intron	KNOWN	None	10340	None	None	109541782	109544488	1	None	L34
4	RPL34	ENSG00000109475	ENST00000506397	protein_coding	KNOWN	CCDS3680	10340	354	117	109541789	109546408	1	None	L34
4	RPL34	ENSG00000109475	ENST00000394668	protein_coding	KNOWN	CCDS3680	10340	354	117	109541812	109551568	1	None	L34
4	RPL34	ENSG00000109475	ENST00000504231	retained_intron	KNOWN	None	10340	None	None	109543199	109546336	1	None	L34
HG736_PATCH	SLC29A4P1	ENSG00000261756	ENST00000563685	unprocessed_pseudogene	KNOWN	None	43783	None	None	57081978	57087966	-1	None	None
18	ARL2BPP1	ENSG00000265934	ENST00000584870	processed_pseudogene	KNOWN	None	17742	None	None	74415400	74416210	-1	None	HsT2883
4	MMRN1	ENSG00000138722	ENST00000394980	protein_coding	KNOWN	CCDS3635	7178	3687	1228	90800683	90875780	1	MMRN	ECM, EMILIN4, GPIa*
4	MMRN1	ENSG00000138722	ENST00000508372	protein_coding	PUTATIVE	None	7178	2913	970	90823134	90874606	1	MMRN	ECM, EMILIN4, GPIa*
4	MMRN1	ENSG00000138722	ENST00000506328	retained_intron	KNOWN	None	7178	None	None	90872596	90874606	1	MMRN	ECM, EMILIN4, GPIa*
4	MMRN1	ENSG00000138722	ENST00000264790	protein_coding	KNOWN	CCDS3635	7178	3687	1228	90816052	90875778	1	MMRN	ECM, EMILIN4, GPIa*
4	MMRN1	ENSG00000138722	ENST00000394981	protein_coding	KNOWN	None	7178	1596	531	90816123	90875778	1	MMRN	ECM, EMILIN4, GPIa*
15	HERC2P7	ENSG00000259414	ENST00000559033	unprocessed_pseudogene	KNOWN	None	4875	None	None	23388289	23392657	1	None	None
15	None	ENSG00000259293	ENST00000561083	antisense	KNOWN	None	None	None	None	58727089	58790934	-1	None	None
HG7_PATCH	TRBV9	ENSG00000261031	ENST00000569470	TR_V_gene	KNOWN	None	12246	343	113	142113402	142113923	1	None	TCRBV1S1A1N1, TCRBV9S1
18	None	ENSG00000266604	ENST00000584734	lincRNA	KNOWN	None	None	None	None	10612301	10626350	-1	None	None
18	None	ENSG00000266604	ENST00000583691	lincRNA	KNOWN	None	None	None	None	10612399	10617010	-1	None	None
HSCHR6_1_CTG5	None	ENSG00000263060	ENST00000576396	lincRNA	KNOWN	None	None	None	None	80157846	80158854	1	None	None
14	None	ENSG00000257285	ENST00000548819	antisense	KNOWN	None	None	None	None	23398818	23423901	1	None	None
14	None	ENSG00000257285	ENST00000548322	antisense	KNOWN	None	None	None	None	23398854	23424771	1	None	None
14	None	ENSG00000258702	ENST00000553378	lincRNA	KNOWN	None	None	None	None	97059070	97062099	1	None	None
14	None	ENSG00000258702	ENST00000555496	lincRNA	KNOWN	None	None	None	None	97059105	97061097	1	None	None
18	None	ENSG00000265836	ENST00000579393	processed_pseudogene	KNOWN	None	None	None	None	74463261	74463797	1	None	None
HG989_PATCH	None	ENSG00000265961	ENST00000578934	misc_RNA	NOVEL	None	None	None	None	31976478	31976591	-1	None	None
14	RN7SL472P	ENSG00000240457	ENST00000492799	misc_RNA	KNOWN	None	46488	None	None	102543520	102543810	-1	None	None
HSCHR6_MHC_COX	CLIC1	ENSG00000230685	ENST00000457485	protein_coding	KNOWN	None	2062	726	241	31685771	31691761	-1	None	NCC27, p64CLCP
HSCHR6_MHC_COX	CLIC1	ENSG00000230685	ENST00000423804	protein_coding	KNOWN	None	2062	726	241	31685771	31691766	-1	None	NCC27, p64CLCP
HSCHR6_MHC_COX	CLIC1	ENSG00000230685	ENST00000447369	protein_coding	KNOWN	None	2062	726	241	31685771	31692512	-1	None	NCC27, p64CLCP
HSCHR6_MHC_COX	CLIC1	ENSG00000230685	ENST00000447338	protein_coding	KNOWN	None	2062	726	241	31685771	31694945	-1	None	NCC27, p64CLCP
14	None	ENSG00000265677	ENST00000577622	miRNA	NOVEL	None	None	None	None	102807306	102807406	1	None	None
4	USP17L10	ENSG00000231396	ENST00000417945	protein_coding	NOVEL	CCDS59454	44438	1593	530	9212383	9213975	1	None	None
X	None	ENSG00000265858	ENST00000581701	miRNA	NOVEL	None	None	None	None	111502721	111502802	-1	None	None
15	None	ENSG00000259476	ENST00000561202	sense_intronic	KNOWN	None	None	None	None	58813510	58815570	1	None	None
18	None	ENSG00000265626	ENST00000582716	processed_pseudogene	KNOWN	None	None	None	None	74471641	74471822	-1	None	None
8	None	ENSG00000260398	ENST00000565862	sense_overlapping	KNOWN	None	None	None	None	79518187	79521940	1	None	None
8	USP17L1P	ENSG00000230549	ENST00000529559	unprocessed_pseudogene	KNOWN	None	37182	None	None	7189909	7191501	1	None	USP17L1
18	None	ENSG00000264503	ENST00000582221	processed_pseudogene	KNOWN	None	None	None	None	10622120	10622264	-1	None	None
15	TARSL2	ENSG00000185418	ENST00000335968	protein_coding	KNOWN	CCDS10394	24728	2409	802	102193801	102264807	-1	None	FLJ25005
15	TARSL2	ENSG00000185418	ENST00000558533	nonsense_mediated_decay	KNOWN	None	24728	447	148	102194416	102249031	-1	None	FLJ25005
15	TARSL2	ENSG00000185418	ENST00000539112	nonsense_mediated_decay	KNOWN	None	24728	2301	766	102194597	102264613	-1	None	FLJ25005
15	TARSL2	ENSG00000185418	ENST00000559492	processed_transcript	KNOWN	None	24728	None	None	102194672	102204645	-1	None	FLJ25005
15	TARSL2	ENSG00000185418	ENST00000557811	processed_transcript	PUTATIVE	None	24728	None	None	102235963	102241368	-1	None	FLJ25005
15	TARSL2	ENSG00000185418	ENST00000560150	retained_intron	KNOWN	None	24728	None	None	102254881	102261377	-1	None	FLJ25005
8	None	ENSG00000255397	ENST00000529239	processed_pseudogene	KNOWN	None	None	None	None	61850264	61852430	-1	None	None
14	None	ENSG00000239061	ENST00000458912	snoRNA	NOVEL	None	None	None	None	102825136	102825239	-1	None	None
15	None	ENSG00000259233	ENST00000558260	unprocessed_pseudogene	KNOWN	None	None	None	None	23417958	23421818	-1	None	None
18	CCDC58P1	ENSG00000264311	ENST00000578567	processed_pseudogene	KNOWN	None	32457	None	None	10623873	10624302	-1	None	None
14	RNU6-244P	ENSG00000212330	ENST00000391028	snRNA	KNOWN	None	47207	None	None	102968013	102968116	1	None	None
15	None	ENSG00000259250	ENST00000560594	antisense	KNOWN	None	None	None	None	58879706	58883875	1	None	None
4	USP17L11	ENSG00000233136	ENST00000457736	protein_coding	NOVEL	CCDS59455	44439	1593	530	9217131	9218723	1	None	None
14	MIR4309	ENSG00000266015	ENST00000582498	miRNA	KNOWN	None	38336	None	None	103005981	103006063	1	None	hsa-mir-4309
X	DPRXP7	ENSG00000271464	ENST00000604554	processed_pseudogene	KNOWN	None	32173	None	None	111563180	111563645	-1	None	None
14	RN7SKP108	ENSG00000223299	ENST00000411367	misc_RNA	KNOWN	None	45832	None	None	97104524	97104851	-1	None	None
18	None	ENSG00000264072	ENST00000579413	lincRNA	KNOWN	None	None	None	None	10627643	10628843	-1	None	None
4	AIMP1	ENSG00000164022	ENST00000510207	protein_coding	KNOWN	None	10648	450	149	107236701	107252887	1	SCYE1	EMAPII, EMAP-2, p43
4	AIMP1	ENSG00000164022	ENST00000358008	protein_coding	KNOWN	CCDS3674	10648	939	312	107236853	107269648	1	SCYE1	EMAPII, EMAP-2, p43
4	AIMP1	ENSG00000164022	ENST00000394701	protein_coding	KNOWN	CCDS47121	10648	1011	336	107237664	107270383	1	SCYE1	EMAPII, EMAP-2, p43
4	AIMP1	ENSG00000164022	ENST00000442366	protein_coding	KNOWN	CCDS3674	10648	939	312	107236767	107270377	1	SCYE1	EMAPII, EMAP-2, p43
8	None	ENSG00000254352	ENST00000520351	processed_pseudogene	KNOWN	None	None	None	None	79636031	79636371	-1	None	None
14	None	ENSG00000199440	ENST00000362570	misc_RNA	NOVEL	None	None	None	None	78287373	78287485	-1	None	None
8	USP17L4	ENSG00000236125	ENST00000526929	unprocessed_pseudogene	KNOWN	None	37176	None	None	7194637	7196229	1	None	None
18	None	ENSG00000266470	ENST00000584918	unprocessed_pseudogene	KNOWN	None	None	None	None	10632235	10632393	1	None	None
14	None	ENSG00000258421	ENST00000555153	processed_pseudogene	KNOWN	None	None	None	None	78526285	78526621	-1	None	None
14	None	ENSG00000259230	ENST00000559946	lincRNA	KNOWN	None	None	None	None	103011591	103022163	1	None	None
14	MIR4707	ENSG00000265037	ENST00000579686	miRNA	KNOWN	None	41531	None	None	23426159	23426238	-1	None	hsa-mir-4707
4	USP17L12	ENSG00000227551	ENST00000415041	protein_coding	NOVEL	CCDS59456	44440	1593	530	9221878	9223470	1	None	None
14	RNA5SP388	ENSG00000199454	ENST00000362584	rRNA	KNOWN	None	43288	None	None	78644146	78644264	-1	RN5S388	None
18	PMM2P1	ENSG00000265038	ENST00000581948	processed_pseudogene	KNOWN	None	9116	None	None	10636667	10637396	1	None	None
X	None	ENSG00000271400	ENST00000605115	processed_pseudogene	KNOWN	None	None	None	None	111624620	111625448	1	None	None
8	PRKRIRP7	ENSG00000253919	ENST00000520248	processed_pseudogene	KNOWN	None	39574	None	None	79672377	79674666	-1	None	None
8	None	ENSG00000254069	ENST00000523451	processed_pseudogene	KNOWN	None	None	None	None	43349080	43349905	1	None	None
8	None	ENSG00000261618	ENST00000565297	lincRNA	KNOWN	None	None	None	None	79749764	79752757	1	None	None
21	None	ENSG00000266007	ENST00000582110	miRNA	NOVEL	None	None	None	None	35677430	35677493	1	None	None
15	None	ENSG00000259187	ENST00000558419	lincRNA	KNOWN	None	None	None	None	45118738	45119292	1	None	None
8	None	ENSG00000243181	ENST00000477341	processed_pseudogene	KNOWN	None	None	None	None	34731677	34732151	1	None	None
21	None	ENSG00000225555	ENST00000440403	antisense	KNOWN	None	None	None	None	35743101	35747647	-1	None	None
14	RN7SL546P	ENSG00000239224	ENST00000479428	misc_RNA	KNOWN	None	46562	None	None	103049227	103049514	-1	None	None
4	USP17L15	ENSG00000223569	ENST00000456464	protein_coding	NOVEL	None	44443	1590	529	9236111	9237700	1	None	None
14	None	ENSG00000239438	ENST00000491713	processed_pseudogene	KNOWN	None	None	None	None	78697624	78697962	-1	None	None
4	EXOSC9	ENSG00000123737	ENST00000243498	protein_coding	KNOWN	CCDS3722	9137	1320	439	122722472	122738064	1	PMSCL1	PM/Scl-75, Rrp45p, RRP45, p5, p6
4	EXOSC9	ENSG00000123737	ENST00000509980	processed_transcript	KNOWN	None	9137	None	None	122722473	122736558	1	PMSCL1	PM/Scl-75, Rrp45p, RRP45, p5, p6
4	EXOSC9	ENSG00000123737	ENST00000379663	protein_coding	KNOWN	CCDS34057	9137	1371	456	122722475	122738064	1	PMSCL1	PM/Scl-75, Rrp45p, RRP45, p5, p6
4	EXOSC9	ENSG00000123737	ENST00000513654	nonsense_mediated_decay	KNOWN	None	9137	729	242	122722478	122738176	1	PMSCL1	PM/Scl-75, Rrp45p, RRP45, p5, p6
4	EXOSC9	ENSG00000123737	ENST00000511454	nonsense_mediated_decay	KNOWN	None	9137	261	86	122722480	122732796	1	PMSCL1	PM/Scl-75, Rrp45p, RRP45, p5, p6
4	EXOSC9	ENSG00000123737	ENST00000509800	protein_coding	PUTATIVE	None	9137	678	225	122722501	122732815	1	PMSCL1	PM/Scl-75, Rrp45p, RRP45, p5, p6
4	EXOSC9	ENSG00000123737	ENST00000512454	protein_coding	PUTATIVE	None	9137	1272	423	122722748	122738066	1	PMSCL1	PM/Scl-75, Rrp45p, RRP45, p5, p6
4	EXOSC9	ENSG00000123737	ENST00000508212	processed_transcript	KNOWN	None	9137	None	None	122723893	122734448	1	PMSCL1	PM/Scl-75, Rrp45p, RRP45, p5, p6
4	EXOSC9	ENSG00000123737	ENST00000506201	retained_intron	KNOWN	None	9137	None	None	122725654	122729023	1	PMSCL1	PM/Scl-75, Rrp45p, RRP45, p5, p6
4	EXOSC9	ENSG00000123737	ENST00000511132	protein_coding	PUTATIVE	None	9137	515	170	122725887	122735202	1	PMSCL1	PM/Scl-75, Rrp45p, RRP45, p5, p6
4	EXOSC9	ENSG00000123737	ENST00000503139	processed_transcript	KNOWN	None	9137	None	None	122725889	122735782	1	PMSCL1	PM/Scl-75, Rrp45p, RRP45, p5, p6
4	EXOSC9	ENSG00000123737	ENST00000503236	processed_transcript	KNOWN	None	9137	None	None	122731141	122737995	1	PMSCL1	PM/Scl-75, Rrp45p, RRP45, p5, p6
14	None	ENSG00000230988	ENST00000475260	processed_pseudogene	KNOWN	None	None	None	None	103128577	103129045	-1	None	None
8	None	ENSG00000265560	ENST00000584085	miRNA	NOVEL	None	None	None	None	34827724	34827817	1	None	None
21	None	ENSG00000221398	ENST00000408471	snoRNA	NOVEL	None	None	None	None	35828408	35828535	-1	None	None
8	None	ENSG00000253319	ENST00000523880	processed_pseudogene	KNOWN	None	None	None	None	43366963	43367176	-1	None	None
8	None	ENSG00000264969	ENST00000577494	miRNA	NOVEL	None	None	None	None	80009598	80009688	1	None	None
13	None	ENSG00000233379	ENST00000435281	lincRNA	KNOWN	None	None	None	None	78513297	78519009	-1	None	None
14	None	ENSG00000258878	ENST00000555838	processed_pseudogene	KNOWN	None	None	None	None	65701233	65701819	-1	None	None
21	LINC00160	ENSG00000230978	ENST00000430635	lincRNA	KNOWN	None	1294	None	None	36096105	36109478	-1	C21orf52, NCRNA00160	None
14	None	ENSG00000202459	ENST00000365589	misc_RNA	NOVEL	None	None	None	None	103161725	103161832	1	None	None
15	None	ENSG00000238845	ENST00000459006	misc_RNA	NOVEL	None	None	None	None	45135810	45135922	1	None	None
13	RN7SL810P	ENSG00000243035	ENST00000493031	misc_RNA	KNOWN	None	46826	None	None	78521628	78521907	-1	None	None
15	RNU1-119P	ENSG00000212424	ENST00000391122	snRNA	KNOWN	None	48461	None	None	45176814	45176978	1	None	None
15	None	ENSG00000259457	ENST00000558010	lincRNA	KNOWN	None	None	None	None	69857063	69858129	-1	None	None
8	LSM12P1	ENSG00000232024	ENST00000411836	processed_pseudogene	KNOWN	None	32453	None	None	35382694	35383281	-1	LSM12P	None
4	USP17L17	ENSG00000249104	ENST00000511568	protein_coding	NOVEL	CCDS59458	44445	1593	530	9245605	9247197	1	None	None
13	None	ENSG00000236133	ENST00000452933	lincRNA	KNOWN	None	None	None	None	78563507	78564781	-1	None	None
22	CBY1	ENSG00000100211	ENST00000475924	retained_intron	KNOWN	None	1307	None	None	39052641	39064472	1	C22orf2, PGEA1	PIGEA14, PIGEA-14, Chibby, Cby
22	CBY1	ENSG00000100211	ENST00000485501	retained_intron	KNOWN	None	1307	None	None	39052641	39067240	1	C22orf2, PGEA1	PIGEA14, PIGEA-14, Chibby, Cby
22	CBY1	ENSG00000100211	ENST00000411557	protein_coding	KNOWN	None	1307	184	60	39052645	39066994	1	C22orf2, PGEA1	PIGEA14, PIGEA-14, Chibby, Cby
22	CBY1	ENSG00000100211	ENST00000396811	protein_coding	KNOWN	CCDS13974	1307	381	126	39052656	39069851	1	C22orf2, PGEA1	PIGEA14, PIGEA-14, Chibby, Cby
22	CBY1	ENSG00000100211	ENST00000216029	protein_coding	KNOWN	CCDS13974	1307	381	126	39052660	39069859	1	C22orf2, PGEA1	PIGEA14, PIGEA-14, Chibby, Cby
22	CBY1	ENSG00000100211	ENST00000492537	retained_intron	KNOWN	None	1307	None	None	39052676	39067314	1	C22orf2, PGEA1	PIGEA14, PIGEA-14, Chibby, Cby
22	CBY1	ENSG00000100211	ENST00000492576	retained_intron	KNOWN	None	1307	None	None	39052681	39067141	1	C22orf2, PGEA1	PIGEA14, PIGEA-14, Chibby, Cby
22	CBY1	ENSG00000100211	ENST00000416285	protein_coding	KNOWN	None	1307	303	100	39052681	39067193	1	C22orf2, PGEA1	PIGEA14, PIGEA-14, Chibby, Cby
22	CBY1	ENSG00000100211	ENST00000489847	retained_intron	KNOWN	None	1307	None	None	39052693	39069418	1	C22orf2, PGEA1	PIGEA14, PIGEA-14, Chibby, Cby
22	CBY1	ENSG00000100211	ENST00000467118	retained_intron	KNOWN	None	1307	None	None	39063901	39066950	1	C22orf2, PGEA1	PIGEA14, PIGEA-14, Chibby, Cby
14	None	ENSG00000258723	ENST00000554219	antisense	KNOWN	None	None	None	None	78745915	78749719	-1	None	None
8	None	ENSG00000253659	ENST00000519983	lincRNA	KNOWN	None	None	None	None	80209952	80226706	1	None	None
HSCHR6_MHC_SSTO	PPT2	ENSG00000227600	ENST00000525601	protein_coding	KNOWN	None	9326	909	302	32127544	32138324	1	None	None
HSCHR6_MHC_SSTO	PPT2	ENSG00000227600	ENST00000419970	protein_coding	KNOWN	None	9326	541	179	32128085	32130622	1	None	None
HSCHR6_MHC_SSTO	PPT2	ENSG00000227600	ENST00000488435	nonsense_mediated_decay	KNOWN	None	9326	294	97	32128186	32132494	1	None	None
HSCHR6_MHC_SSTO	PPT2	ENSG00000227600	ENST00000422988	protein_coding	KNOWN	None	9326	909	302	32128204	32138324	1	None	None
HSCHR6_MHC_SSTO	PPT2	ENSG00000227600	ENST00000465052	processed_transcript	KNOWN	None	9326	None	None	32128489	32142924	1	None	None
HSCHR6_MHC_SSTO	PPT2	ENSG00000227600	ENST00000527704	nonsense_mediated_decay	KNOWN	None	9326	906	301	32128489	32142928	1	None	None
HSCHR6_MHC_SSTO	PPT2	ENSG00000227600	ENST00000438385	protein_coding	KNOWN	None	9326	909	302	32128662	32138324	1	None	None
HSCHR6_MHC_SSTO	PPT2	ENSG00000227600	ENST00000429696	nonsense_mediated_decay	KNOWN	None	9326	294	97	32128714	32140879	1	None	None
HSCHR6_MHC_SSTO	PPT2	ENSG00000227600	ENST00000456497	protein_coding	KNOWN	None	9326	909	302	32128739	32138324	1	None	None
HSCHR6_MHC_SSTO	PPT2	ENSG00000227600	ENST00000431338	protein_coding	NOVEL	None	9326	476	157	32128811	32132569	1	None	None
HSCHR6_MHC_SSTO	PPT2	ENSG00000227600	ENST00000485053	nonsense_mediated_decay	KNOWN	None	9326	399	132	32128841	32137242	1	None	None
HSCHR6_MHC_SSTO	PPT2	ENSG00000227600	ENST00000493809	nonsense_mediated_decay	KNOWN	None	9326	906	301	32128866	32146625	1	None	None
HSCHR6_MHC_SSTO	PPT2	ENSG00000227600	ENST00000442463	protein_coding	KNOWN	None	9326	601	199	32129110	32132341	1	None	None
HSCHR6_MHC_SSTO	PPT2	ENSG00000227600	ENST00000462416	retained_intron	KNOWN	None	9326	None	None	32129662	32130403	1	None	None
HSCHR6_MHC_SSTO	PPT2	ENSG00000227600	ENST00000491353	retained_intron	KNOWN	None	9326	None	None	32131755	32139301	1	None	None
HSCHR6_MHC_SSTO	PPT2	ENSG00000227600	ENST00000497207	retained_intron	KNOWN	None	9326	None	None	32132135	32132967	1	None	None
HSCHR6_MHC_SSTO	PPT2	ENSG00000227600	ENST00000493225	nonsense_mediated_decay	KNOWN	None	9326	383	126	32132288	32141652	1	None	None
HSCHR6_MHC_SSTO	PPT2	ENSG00000227600	ENST00000547508	protein_coding	KNOWN	None	9326	927	308	32128168	32138320	1	None	None
HSCHR6_MHC_SSTO	PPT2	ENSG00000227600	ENST00000552076	protein_coding	KNOWN	None	9326	906	301	32128489	32140846	1	None	None
HSCHR6_MHC_SSTO	PPT2	ENSG00000227600	ENST00000547309	protein_coding	KNOWN	None	9326	909	302	32128489	32138321	1	None	None
HSCHR6_MHC_SSTO	PPT2	ENSG00000227600	ENST00000547558	protein_coding	KNOWN	None	9326	882	293	32139274	32142932	1	None	None
X	ASS1P4	ENSG00000213487	ENST00000439462	processed_pseudogene	KNOWN	None	767	None	None	3285190	3286423	1	ASSP4	None
8	SNX18P27	ENSG00000253418	ENST00000523611	processed_pseudogene	KNOWN	None	39635	None	None	43368786	43369564	1	None	None
10	WDFY4	ENSG00000128815	ENST00000360890	protein_coding	KNOWN	None	29323	1965	654	49892921	49944287	1	C10orf64	KIAA1607, Em:AC060234.3, FLJ45748
10	WDFY4	ENSG00000128815	ENST00000374161	protein_coding	KNOWN	None	29323	1657	551	50010783	50032214	1	C10orf64	KIAA1607, Em:AC060234.3, FLJ45748
10	WDFY4	ENSG00000128815	ENST00000265453	protein_coding	KNOWN	None	29323	3815	1270	50029138	50191001	1	C10orf64	KIAA1607, Em:AC060234.3, FLJ45748
10	WDFY4	ENSG00000128815	ENST00000465910	processed_transcript	KNOWN	None	29323	None	None	50154092	50191001	1	C10orf64	KIAA1607, Em:AC060234.3, FLJ45748
10	WDFY4	ENSG00000128815	ENST00000497480	processed_transcript	KNOWN	None	29323	None	None	50177029	50185004	1	C10orf64	KIAA1607, Em:AC060234.3, FLJ45748
10	WDFY4	ENSG00000128815	ENST00000490507	processed_transcript	KNOWN	None	29323	None	None	50186390	50191001	1	C10orf64	KIAA1607, Em:AC060234.3, FLJ45748
10	WDFY4	ENSG00000128815	ENST00000325239	protein_coding	KNOWN	CCDS44385	29323	9555	3184	49917751	50191000	1	C10orf64	KIAA1607, Em:AC060234.3, FLJ45748
10	WDFY4	ENSG00000128815	ENST00000413659	protein_coding	KNOWN	None	29323	3129	1042	49917751	50191000	1	C10orf64	KIAA1607, Em:AC060234.3, FLJ45748
21	None	ENSG00000234380	ENST00000420877	antisense	KNOWN	None	None	None	None	36118054	36157183	1	None	None
21	None	ENSG00000234380	ENST00000419921	antisense	KNOWN	None	None	None	None	36118134	36120664	1	None	None
14	None	ENSG00000258760	ENST00000555736	lincRNA	KNOWN	None	None	None	None	65703198	65769398	-1	None	None
14	None	ENSG00000258760	ENST00000553754	lincRNA	KNOWN	None	None	None	None	65720419	65785508	-1	None	None
13	LINC00446	ENSG00000229249	ENST00000414743	lincRNA	KNOWN	None	42783	None	None	78587018	78611354	1	None	None
13	LINC00446	ENSG00000229249	ENST00000438327	lincRNA	KNOWN	None	42783	None	None	78605071	78627730	1	None	None
14	None	ENSG00000259508	ENST00000559675	lincRNA	KNOWN	None	None	None	None	103236377	103241128	-1	None	None
14	None	ENSG00000259508	ENST00000559402	lincRNA	KNOWN	None	None	None	None	103237472	103241102	-1	None	None
15	GOLGA8EP	ENSG00000175676	ENST00000526079	processed_transcript	KNOWN	None	32377	None	None	23435096	23448420	1	GOLGA8E	None
15	GOLGA8EP	ENSG00000175676	ENST00000530246	transcribed_unprocessed_pseudogene	KNOWN	None	32377	None	None	23435158	23445459	1	GOLGA8E	None
X	None	ENSG00000212214	ENST00000390912	snoRNA	NOVEL	None	None	None	None	3450158	3450292	-1	None	None
15	None	ENSG00000259742	ENST00000558917	unprocessed_pseudogene	KNOWN	None	None	None	None	45207000	45222820	-1	None	None
4	USP17L18	ENSG00000250844	ENST00000504209	protein_coding	NOVEL	CCDS59459	44446	1593	530	9250356	9251948	1	None	None
15	None	ENSG00000259011	ENST00000557558	lincRNA	KNOWN	None	None	None	None	26110442	26122358	1	None	None
X	RNU6-114P	ENSG00000207435	ENST00000384704	snRNA	KNOWN	None	47077	None	None	3490898	3491002	1	None	None
8	None	ENSG00000253391	ENST00000522035	processed_pseudogene	KNOWN	None	None	None	None	80432380	80432884	1	None	None
X	RNU6-146P	ENSG00000207332	ENST00000384602	snRNA	KNOWN	None	47109	None	None	3525299	3525406	-1	None	None
13	None	ENSG00000235625	ENST00000435156	lincRNA	KNOWN	None	None	None	None	78849855	78851649	-1	None	None
14	RN7SKP21	ENSG00000252312	ENST00000516503	misc_RNA	KNOWN	None	45745	None	None	36700761	36700980	-1	None	None
X	None	ENSG00000207320	ENST00000384590	misc_RNA	NOVEL	None	None	None	None	3559484	3559596	-1	None	None
15	None	ENSG00000259390	ENST00000558818	lincRNA	KNOWN	None	None	None	None	39804607	39806326	-1	None	None
15	None	ENSG00000259390	ENST00000559570	lincRNA	KNOWN	None	None	None	None	39804683	39812055	-1	None	None
21	None	ENSG00000234703	ENST00000455028	lincRNA	KNOWN	None	None	None	None	36508935	36511519	1	None	None
8	None	ENSG00000254145	ENST00000519444	processed_pseudogene	KNOWN	None	None	None	None	43394280	43394615	1	None	None
13	TRIM13	ENSG00000204977	ENST00000442421	protein_coding	KNOWN	None	9976	387	128	50570024	50586463	1	RFP2	Leu5, RNF77, DLEU5
13	TRIM13	ENSG00000204977	ENST00000378183	protein_coding	KNOWN	None	9976	800	265	50570639	50586876	1	RFP2	Leu5, RNF77, DLEU5
13	TRIM13	ENSG00000204977	ENST00000474805	processed_transcript	KNOWN	None	9976	None	None	50570949	50594617	1	RFP2	Leu5, RNF77, DLEU5
13	TRIM13	ENSG00000204977	ENST00000420995	protein_coding	KNOWN	CCDS9423	9976	1224	407	50571155	50588467	1	RFP2	Leu5, RNF77, DLEU5
13	TRIM13	ENSG00000204977	ENST00000478111	processed_transcript	KNOWN	None	9976	None	None	50571155	50594617	1	RFP2	Leu5, RNF77, DLEU5
13	TRIM13	ENSG00000204977	ENST00000378182	protein_coding	KNOWN	CCDS9423	9976	1224	407	50571168	50592587	1	RFP2	Leu5, RNF77, DLEU5
13	TRIM13	ENSG00000204977	ENST00000356017	protein_coding	KNOWN	CCDS41888	9976	1233	410	50571173	50587316	1	RFP2	Leu5, RNF77, DLEU5
13	TRIM13	ENSG00000204977	ENST00000457662	protein_coding	KNOWN	CCDS9423	9976	1224	407	50571195	50587304	1	RFP2	Leu5, RNF77, DLEU5
13	TRIM13	ENSG00000204977	ENST00000298772	protein_coding	KNOWN	CCDS41888	9976	1233	410	50575242	50587305	1	RFP2	Leu5, RNF77, DLEU5
X	PRKX-AS1	ENSG00000236188	ENST00000414074	antisense	KNOWN	None	40479	None	None	3577528	3586233	1	None	None
13	None	ENSG00000271386	ENST00000603392	processed_pseudogene	KNOWN	None	None	None	None	78859973	78860423	1	None	None
4	UGT2B15	ENSG00000196620	ENST00000338206	protein_coding	KNOWN	CCDS3524	12546	1593	530	69512348	69536346	-1	None	UGT2B8
14	DPPA3P2	ENSG00000188831	ENST00000557188	processed_transcript	KNOWN	None	20417	None	None	36840370	36841588	1	None	STELLAR
14	DPPA3P2	ENSG00000188831	ENST00000553589	transcribed_unprocessed_pseudogene	KNOWN	None	20417	None	None	36840617	36841094	1	None	STELLAR
14	DPPA3P2	ENSG00000188831	ENST00000340350	unprocessed_pseudogene	KNOWN	None	20417	None	None	36840370	36841574	1	None	STELLAR
14	None	ENSG00000239163	ENST00000459199	miRNA	NOVEL	None	None	None	None	78864221	78864302	-1	None	None
21	RPL34P3	ENSG00000223671	ENST00000421454	processed_pseudogene	KNOWN	None	10343	None	None	36844393	36844730	-1	None	None
13	RNY3P3	ENSG00000200686	ENST00000363816	misc_RNA	KNOWN	None	42487	None	None	78929362	78929463	-1	None	None
X	None	ENSG00000182888	ENST00000329806	processed_pseudogene	KNOWN	None	None	None	None	3635190	3635641	1	None	None
15	None	ENSG00000259641	ENST00000558411	lincRNA	KNOWN	None	None	None	None	69884468	69905229	1	None	None
15	None	ENSG00000259641	ENST00000560655	lincRNA	KNOWN	None	None	None	None	69884552	69988069	1	None	None
15	None	ENSG00000259641	ENST00000558941	lincRNA	KNOWN	None	None	None	None	69962469	69988087	1	None	None
15	None	ENSG00000259641	ENST00000559212	lincRNA	KNOWN	None	None	None	None	69964087	69988089	1	None	None
13	RPL31P54	ENSG00000229865	ENST00000429803	processed_pseudogene	KNOWN	None	36077	None	None	78996958	78997327	1	None	None
4	USP17L19	ENSG00000248920	ENST00000515566	protein_coding	NOVEL	CCDS59460	44447	1593	530	9255104	9256696	1	None	None
14	None	ENSG00000258613	ENST00000557463	processed_pseudogene	KNOWN	None	None	None	None	65733356	65734408	-1	None	None
14	None	ENSG00000266552	ENST00000584587	miRNA	NOVEL	None	None	None	None	53619767	53619833	-1	None	None
HG729_PATCH	ADAMTS10	ENSG00000261964	ENST00000591706	protein_coding	PUTATIVE	None	13201	1773	590	8645126	8657080	-1	None	ADAM-TS10
HG729_PATCH	ADAMTS10	ENSG00000261964	ENST00000575175	protein_coding	KNOWN	None	13201	3312	1103	8645136	8675583	-1	None	ADAM-TS10
HG729_PATCH	ADAMTS10	ENSG00000261964	ENST00000585963	nonsense_mediated_decay	KNOWN	None	13201	870	289	8649847	8675565	-1	None	ADAM-TS10
HG729_PATCH	ADAMTS10	ENSG00000261964	ENST00000604502	retained_intron	KNOWN	None	13201	None	None	8651506	8654573	-1	None	ADAM-TS10
HG729_PATCH	ADAMTS10	ENSG00000261964	ENST00000604575	nonsense_mediated_decay	KNOWN	None	13201	381	126	8651540	8657111	-1	None	ADAM-TS10
HG729_PATCH	ADAMTS10	ENSG00000261964	ENST00000588296	nonsense_mediated_decay	KNOWN	None	13201	870	289	8654311	8670663	-1	None	ADAM-TS10
HG729_PATCH	ADAMTS10	ENSG00000261964	ENST00000589044	retained_intron	KNOWN	None	13201	None	None	8654685	8657058	-1	None	ADAM-TS10
HG729_PATCH	ADAMTS10	ENSG00000261964	ENST00000586647	retained_intron	KNOWN	None	13201	None	None	8656684	8658398	-1	None	ADAM-TS10
HG729_PATCH	ADAMTS10	ENSG00000261964	ENST00000589315	retained_intron	KNOWN	None	13201	None	None	8656684	8662149	-1	None	ADAM-TS10
HG729_PATCH	ADAMTS10	ENSG00000261964	ENST00000590195	retained_intron	KNOWN	None	13201	None	None	8660497	8661241	-1	None	ADAM-TS10
HG729_PATCH	ADAMTS10	ENSG00000261964	ENST00000587669	processed_transcript	KNOWN	None	13201	None	None	8662118	8675564	-1	None	ADAM-TS10
HG729_PATCH	ADAMTS10	ENSG00000261964	ENST00000603410	processed_transcript	KNOWN	None	13201	None	None	8662168	8675584	-1	None	ADAM-TS10
HG729_PATCH	ADAMTS10	ENSG00000261964	ENST00000586070	retained_intron	KNOWN	None	13201	None	None	8669820	8675619	-1	None	ADAM-TS10
21	EZH2P1	ENSG00000231300	ENST00000431167	processed_pseudogene	KNOWN	None	39918	None	None	36972030	36972320	-1	None	None
8	None	ENSG00000271118	ENST00000603184	processed_pseudogene	KNOWN	None	None	None	None	23663446	23663667	-1	None	None
13	TCEB1P23	ENSG00000224686	ENST00000452014	processed_pseudogene	KNOWN	None	38159	None	None	79062317	79062648	1	None	None
X	None	ENSG00000264338	ENST00000580761	miRNA	NOVEL	None	None	None	None	125606792	125606865	-1	None	None
X	None	ENSG00000234449	ENST00000381108	processed_transcript	KNOWN	None	None	None	None	3771051	3781615	-1	None	None
X	None	ENSG00000234449	ENST00000456563	processed_transcript	KNOWN	None	None	None	None	3772390	3785176	-1	None	None
X	None	ENSG00000234449	ENST00000438107	processed_transcript	KNOWN	None	None	None	None	3782439	3800358	-1	None	None
13	None	ENSG00000271776	ENST00000607269	antisense	KNOWN	None	None	None	None	79170264	79173754	1	None	None
14	None	ENSG00000258731	ENST00000554235	antisense	KNOWN	None	None	None	None	53620072	53624246	1	None	None
15	None	ENSG00000206187	ENST00000383019	lincRNA	KNOWN	None	None	None	None	26147507	26298267	1	None	None
15	None	ENSG00000206187	ENST00000557171	lincRNA	KNOWN	None	None	None	None	26147580	26177899	1	None	None
9	RNF20	ENSG00000155827	ENST00000389120	protein_coding	KNOWN	CCDS35084	10062	2928	975	104296133	104325622	1	None	FLJ20382, FLJ11189, KAIA2779, BRE1A, hBRE1, BRE1
9	RNF20	ENSG00000155827	ENST00000374819	protein_coding	KNOWN	None	10062	543	180	104296170	104303172	1	None	FLJ20382, FLJ11189, KAIA2779, BRE1A, hBRE1, BRE1
9	RNF20	ENSG00000155827	ENST00000479306	protein_coding	KNOWN	None	10062	297	98	104296187	104302652	1	None	FLJ20382, FLJ11189, KAIA2779, BRE1A, hBRE1, BRE1
9	RNF20	ENSG00000155827	ENST00000481046	processed_transcript	KNOWN	None	10062	None	None	104296240	104302561	1	None	FLJ20382, FLJ11189, KAIA2779, BRE1A, hBRE1, BRE1
9	RNF20	ENSG00000155827	ENST00000466817	protein_coding	KNOWN	None	10062	436	144	104296261	104302910	1	None	FLJ20382, FLJ11189, KAIA2779, BRE1A, hBRE1, BRE1
9	RNF20	ENSG00000155827	ENST00000478072	retained_intron	KNOWN	None	10062	None	None	104322963	104323734	1	None	FLJ20382, FLJ11189, KAIA2779, BRE1A, hBRE1, BRE1
4	USP17L20	ENSG00000250745	ENST00000506151	protein_coding	NOVEL	CCDS59461	44448	1593	530	9259850	9261442	1	None	None
13	None	ENSG00000263868	ENST00000580901	miRNA	NOVEL	None	None	None	None	79239973	79240065	1	None	None
8	None	ENSG00000207027	ENST00000384300	snoRNA	NOVEL	None	None	None	None	23663742	23663890	-1	None	None
13	IPMKP1	ENSG00000226507	ENST00000425988	processed_pseudogene	KNOWN	None	39354	None	None	23411165	23412019	-1	None	None
10	NEUROG3	ENSG00000122859	ENST00000242462	protein_coding	KNOWN	CCDS31212	13806	645	214	71331454	71332994	-1	None	Atoh5, Math4B, ngn3, bHLHa7
8	RNU1-148P	ENSG00000207201	ENST00000384472	snRNA	KNOWN	None	48490	None	None	23934510	23934671	-1	None	None
13	RPL21P111	ENSG00000237109	ENST00000418453	processed_pseudogene	KNOWN	None	36564	None	None	79335310	79335786	1	None	None
13	RFESDP1	ENSG00000231650	ENST00000422350	processed_pseudogene	KNOWN	None	39420	None	None	23424240	23424700	1	None	None
X	MTND4P24	ENSG00000232177	ENST00000424002	processed_pseudogene	KNOWN	None	42220	None	None	125606868	125607264	1	None	None
X	None	ENSG00000205663	ENST00000424415	processed_transcript	KNOWN	None	None	None	None	3809479	3820041	-1	None	None
X	None	ENSG00000205663	ENST00000451781	processed_transcript	KNOWN	None	None	None	None	3811333	3823750	-1	None	None
X	None	ENSG00000205663	ENST00000381106	processed_transcript	KNOWN	None	None	None	None	3823728	3838787	-1	None	None
14	None	ENSG00000237356	ENST00000454942	lincRNA	KNOWN	None	None	None	None	53635772	53793429	1	None	None
14	None	ENSG00000237356	ENST00000456100	lincRNA	KNOWN	None	None	None	None	53684430	54153976	1	None	None
14	None	ENSG00000237356	ENST00000435322	lincRNA	KNOWN	None	None	None	None	53684609	53836219	1	None	None
14	None	ENSG00000237356	ENST00000425648	lincRNA	KNOWN	None	None	None	None	53836099	53992960	1	None	None
8	RPL3P9	ENSG00000240540	ENST00000463217	processed_pseudogene	KNOWN	None	36839	None	None	80483388	80484570	-1	None	None
18	None	ENSG00000264472	ENST00000584226	processed_transcript	PUTATIVE	None	None	None	None	66567018	66569492	-1	None	None
18	None	ENSG00000264472	ENST00000579678	protein_coding	PUTATIVE	None	None	207	68	66567022	66569492	-1	None	None
4	USP17L21	ENSG00000249811	ENST00000506414	protein_coding	NOVEL	CCDS59462	44449	1593	530	9264598	9266190	1	None	None
22	SUSD2	ENSG00000099994	ENST00000358321	protein_coding	KNOWN	CCDS13824	30667	2469	822	24577227	24585078	1	None	BK65A6.2, FLJ22778
22	SUSD2	ENSG00000099994	ENST00000463101	retained_intron	KNOWN	None	30667	None	None	24578545	24585074	1	None	BK65A6.2, FLJ22778
X	None	ENSG00000226414	ENST00000417160	processed_pseudogene	KNOWN	None	None	None	None	125863087	125864209	1	None	None
14	None	ENSG00000238853	ENST00000459024	snoRNA	NOVEL	None	None	None	None	103255828	103255928	-1	None	None
14	RNU6-1316P	ENSG00000206969	ENST00000384242	snRNA	KNOWN	None	48279	None	None	103332193	103332300	1	None	None
8	None	ENSG00000253891	ENST00000521681	lincRNA	KNOWN	None	None	None	None	24027470	24034593	-1	None	None
13	LINC00331	ENSG00000225427	ENST00000446391	lincRNA	KNOWN	None	42048	None	None	79361454	79366442	-1	NCRNA00331	None
X	None	ENSG00000205662	ENST00000381105	lincRNA	KNOWN	None	None	None	None	3847910	3855896	-1	None	None
14	None	ENSG00000211990	ENST00000390701	miRNA	NOVEL	None	None	None	None	103345958	103346075	1	None	None
HSCHR6_MHC_DBB	HLA-DQB3	ENSG00000231596	ENST00000439012	unprocessed_pseudogene	KNOWN	None	4946	None	None	32677706	32678642	-1	HLA-DVB	D6S205, D6S205E, DVB, DQB3
18	RNU6-346P	ENSG00000252097	ENST00000516288	snRNA	KNOWN	None	47309	None	None	74512620	74512730	-1	None	None
14	None	ENSG00000259515	ENST00000560931	antisense	KNOWN	None	None	None	None	103399911	103403514	1	None	None
18	RPL26P35	ENSG00000244229	ENST00000481064	processed_pseudogene	KNOWN	None	36278	None	None	74546385	74546844	-1	None	None
14	RNU7-93P	ENSG00000238540	ENST00000459520	snRNA	KNOWN	None	45627	None	None	36874419	36874479	1	None	None
4	USP17L22	ENSG00000248933	ENST00000511280	protein_coding	NOVEL	CCDS59463	44450	1593	530	9269345	9270937	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000264244	ENST00000581730	miRNA	NOVEL	None	None	None	None	32696850	32696917	-1	None	None
19	MADCAM1	ENSG00000099866	ENST00000587541	protein_coding	PUTATIVE	None	6765	492	163	489176	505342	1	None	MACAM1
19	MADCAM1	ENSG00000099866	ENST00000346144	protein_coding	KNOWN	CCDS12029	6765	888	295	496454	505347	1	None	MACAM1
19	MADCAM1	ENSG00000099866	ENST00000215637	protein_coding	KNOWN	CCDS12028	6765	1149	382	496454	505347	1	None	MACAM1
19	MADCAM1	ENSG00000099866	ENST00000382683	protein_coding	NOVEL	None	6765	603	200	496500	504965	1	None	MACAM1
13	HSPD1P8	ENSG00000215357	ENST00000400121	processed_pseudogene	KNOWN	None	35145	None	None	79423366	79425343	1	None	HSPD1-12P
8	None	ENSG00000235778	ENST00000425489	unprocessed_pseudogene	KNOWN	None	None	None	None	7199348	7200464	1	None	None
14	None	ENSG00000257520	ENST00000521945	processed_transcript	KNOWN	None	None	None	None	36942412	36988726	-1	None	None
X	None	ENSG00000241150	ENST00000426943	unprocessed_pseudogene	KNOWN	None	None	None	None	136041042	136103638	1	None	None
6	PPP1R3G	ENSG00000219607	ENST00000405617	protein_coding	NOVEL	CCDS47366	14945	1077	358	5085720	5087455	1	None	None
X	None	ENSG00000271157	ENST00000604698	processed_pseudogene	KNOWN	None	None	None	None	88082555	88084859	-1	None	None
4	USP17L23	ENSG00000250913	ENST00000506619	protein_coding	NOVEL	None	44451	551	182	9274090	9274640	1	None	None
8	None	ENSG00000255020	ENST00000525867	antisense	KNOWN	None	None	None	None	11203257	11205011	-1	None	None
14	None	ENSG00000258457	ENST00000557615	antisense	KNOWN	None	None	None	None	23451907	23463360	1	None	None
14	None	ENSG00000258457	ENST00000556503	antisense	KNOWN	None	None	None	None	23451907	23468287	1	None	None
14	None	ENSG00000258457	ENST00000555294	antisense	KNOWN	None	None	None	None	23452107	23467632	1	None	None
X	None	ENSG00000232576	ENST00000440519	processed_pseudogene	KNOWN	None	None	None	None	88163404	88163764	1	None	None
8	None	ENSG00000272138	ENST00000607172	lincRNA	KNOWN	None	None	None	None	80680377	80715077	1	None	None
8	None	ENSG00000272138	ENST00000607754	lincRNA	KNOWN	None	None	None	None	80695964	80715034	1	None	None
20	SCAND1	ENSG00000171222	ENST00000305978	protein_coding	KNOWN	CCDS13269	10566	540	179	34541539	34542548	-1	None	SDP1, RAZ1
20	SCAND1	ENSG00000171222	ENST00000373991	protein_coding	KNOWN	CCDS13269	10566	540	179	34541551	34547394	-1	None	SDP1, RAZ1
4	CFI	ENSG00000205403	ENST00000504853	retained_intron	KNOWN	None	5394	None	None	110661852	110683747	-1	IF	FI, C3b-INA, KAF
4	CFI	ENSG00000205403	ENST00000394635	protein_coding	NOVEL	None	5394	1776	591	110661852	110723207	-1	IF	FI, C3b-INA, KAF
4	CFI	ENSG00000205403	ENST00000512148	protein_coding	KNOWN	None	5394	1731	576	110661880	110723141	-1	IF	FI, C3b-INA, KAF
4	CFI	ENSG00000205403	ENST00000515512	retained_intron	KNOWN	None	5394	None	None	110663032	110667448	-1	IF	FI, C3b-INA, KAF
4	CFI	ENSG00000205403	ENST00000510800	protein_coding	PUTATIVE	None	5394	486	161	110685515	110723134	-1	IF	FI, C3b-INA, KAF
4	CFI	ENSG00000205403	ENST00000394634	protein_coding	KNOWN	CCDS34049	5394	1752	583	110661852	110723335	-1	IF	FI, C3b-INA, KAF
HSCHR6_MHC_DBB	None	ENSG00000206232	ENST00000421382	processed_transcript	KNOWN	None	None	None	None	32789844	32792253	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000206232	ENST00000448799	processed_transcript	KNOWN	None	None	None	None	32789866	32791577	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000206232	ENST00000438856	processed_transcript	KNOWN	None	None	None	None	32789891	32791968	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000206232	ENST00000432582	processed_transcript	KNOWN	None	None	None	None	32789891	32791744	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000206232	ENST00000455652	processed_transcript	KNOWN	None	None	None	None	32789892	32791453	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000206232	ENST00000429749	processed_transcript	KNOWN	None	None	None	None	32789896	32791836	1	None	None
15	None	ENSG00000258965	ENST00000557200	processed_pseudogene	KNOWN	None	None	None	None	26173293	26173722	-1	None	None
21	None	ENSG00000230794	ENST00000412240	processed_transcript	PUTATIVE	None	None	None	None	37085437	37105240	-1	None	None
4	USP17L24	ENSG00000232264	ENST00000504481	protein_coding	KNOWN	CCDS59464	44453	1593	530	9326891	9328483	1	None	None
14	IGHV3-16	ENSG00000211944	ENST00000390604	IG_V_gene	KNOWN	None	5583	351	116	106621894	106622419	-1	None	None
14	RPL13P6	ENSG00000213176	ENST00000488133	processed_pseudogene	KNOWN	None	19809	None	None	103507806	103508431	1	RPL13AP4	None
X	None	ENSG00000200436	ENST00000363566	misc_RNA	NOVEL	None	None	None	None	111904885	111904996	1	None	None
21	MIR802	ENSG00000211590	ENST00000390235	miRNA	KNOWN	None	33140	None	None	37093013	37093106	1	MIRN802	hsa-mir-802
HG989_PATCH	None	ENSG00000260529	ENST00000567972	lincRNA	KNOWN	None	None	None	None	31991282	31997092	1	None	None
HG989_PATCH	None	ENSG00000260529	ENST00000569392	lincRNA	KNOWN	None	None	None	None	31995210	31996436	1	None	None
14	NKX2-1-AS1	ENSG00000253563	ENST00000521292	antisense	KNOWN	None	40585	None	None	36988483	36992221	1	None	None
13	KCNRG	ENSG00000198553	ENST00000360473	protein_coding	PUTATIVE	CCDS41889	18893	690	229	50589390	50595056	1	None	None
13	KCNRG	ENSG00000198553	ENST00000312942	protein_coding	KNOWN	CCDS9424	18893	819	272	50589390	50595058	1	None	None
X	HMGB3P30	ENSG00000213652	ENST00000457863	processed_pseudogene	KNOWN	None	39333	None	None	111933143	111933748	1	None	None
X	HMGB3P30	ENSG00000213652	ENST00000395427	processed_pseudogene	KNOWN	None	39333	None	None	111933149	111933748	1	None	None
21	RPS20P1	ENSG00000229761	ENST00000434853	processed_pseudogene	KNOWN	None	10408	None	None	37097045	37097398	-1	RPS20P	None
4	USP17L25	ENSG00000230430	ENST00000509271	protein_coding	KNOWN	CCDS59465	44452	1593	530	9331637	9333229	1	None	None
HSCHR6_1_CTG5	None	ENSG00000263118	ENST00000571860	processed_pseudogene	KNOWN	None	None	None	None	80174457	80174716	-1	None	None
8	None	ENSG00000253535	ENST00000518988	antisense	KNOWN	None	None	None	None	24153327	24245028	-1	None	None
8	None	ENSG00000253535	ENST00000523700	antisense	KNOWN	None	None	None	None	24153404	24244837	-1	None	None
8	None	ENSG00000253535	ENST00000523578	antisense	KNOWN	None	None	None	None	24158398	24406131	-1	None	None
8	None	ENSG00000253535	ENST00000519689	antisense	KNOWN	None	None	None	None	24158398	24769586	-1	None	None
18	None	ENSG00000265261	ENST00000583058	processed_pseudogene	KNOWN	None	None	None	None	74596891	74600680	-1	None	None
15	None	ENSG00000212604	ENST00000391302	snoRNA	NOVEL	None	None	None	None	26254087	26254221	-1	None	None
X	None	ENSG00000270745	ENST00000603124	processed_pseudogene	KNOWN	None	None	None	None	88237216	88237354	-1	None	None
15	ANP32A	ENSG00000140350	ENST00000465139	protein_coding	KNOWN	CCDS45292	13233	750	249	69070874	69113234	-1	C15orf1	LANP, PP32, I1PP2A, PHAPI, MAPM, mapmodulin
15	ANP32A	ENSG00000140350	ENST00000409628	nonsense_mediated_decay	KNOWN	None	13233	240	79	69071246	69113207	-1	C15orf1	LANP, PP32, I1PP2A, PHAPI, MAPM, mapmodulin
15	ANP32A	ENSG00000140350	ENST00000486054	retained_intron	KNOWN	None	13233	None	None	69071663	69073944	-1	C15orf1	LANP, PP32, I1PP2A, PHAPI, MAPM, mapmodulin
15	ANP32A	ENSG00000140350	ENST00000267918	processed_transcript	KNOWN	None	13233	None	None	69072082	69109938	-1	C15orf1	LANP, PP32, I1PP2A, PHAPI, MAPM, mapmodulin
15	ANP32A	ENSG00000140350	ENST00000483551	processed_transcript	KNOWN	None	13233	None	None	69072411	69084587	-1	C15orf1	LANP, PP32, I1PP2A, PHAPI, MAPM, mapmodulin
15	ANP32A	ENSG00000140350	ENST00000560303	protein_coding	PUTATIVE	None	13233	534	177	69072759	69113225	-1	C15orf1	LANP, PP32, I1PP2A, PHAPI, MAPM, mapmodulin
15	ANP32A	ENSG00000140350	ENST00000480858	retained_intron	KNOWN	None	13233	None	None	69075111	69076805	-1	C15orf1	LANP, PP32, I1PP2A, PHAPI, MAPM, mapmodulin
15	ANP32A	ENSG00000140350	ENST00000561430	retained_intron	KNOWN	None	13233	None	None	69076610	69080168	-1	C15orf1	LANP, PP32, I1PP2A, PHAPI, MAPM, mapmodulin
15	ANP32A	ENSG00000140350	ENST00000495420	retained_intron	KNOWN	None	13233	None	None	69079518	69113236	-1	C15orf1	LANP, PP32, I1PP2A, PHAPI, MAPM, mapmodulin
15	ANP32A	ENSG00000140350	ENST00000495764	processed_transcript	KNOWN	None	13233	None	None	69079752	69109954	-1	C15orf1	LANP, PP32, I1PP2A, PHAPI, MAPM, mapmodulin
15	ANP32A	ENSG00000140350	ENST00000483221	processed_transcript	PUTATIVE	None	13233	None	None	69105285	69110054	-1	C15orf1	LANP, PP32, I1PP2A, PHAPI, MAPM, mapmodulin
21	PPP1R2P2	ENSG00000234008	ENST00000440405	processed_pseudogene	KNOWN	None	9290	None	None	37259493	37260105	1	None	None
21	PPP1R2P2	ENSG00000234008	ENST00000597910	processed_pseudogene	KNOWN	None	9290	None	None	37259365	37260724	1	None	None
X	None	ENSG00000263686	ENST00000408477	miRNA	NOVEL	None	None	None	None	125866419	125866503	-1	None	None
8	DEFB108P2	ENSG00000215371	ENST00000400154	unprocessed_pseudogene	KNOWN	None	30847	None	None	7230636	7235022	1	None	None
10	C10orf35	ENSG00000171224	ENST00000491890	processed_transcript	KNOWN	None	23519	None	None	71390007	71392868	1	None	None
10	C10orf35	ENSG00000171224	ENST00000373279	protein_coding	KNOWN	CCDS7295	23519	366	121	71390014	71393352	1	None	None
10	C10orf35	ENSG00000171224	ENST00000421716	protein_coding	KNOWN	None	23519	310	102	71390300	71392633	1	None	None
15	None	ENSG00000258931	ENST00000557426	lincRNA	KNOWN	None	None	None	None	26295685	26297423	-1	None	None
8	None	ENSG00000270861	ENST00000603405	processed_pseudogene	KNOWN	None	None	None	None	98865249	98865481	-1	None	None
18	DOK6	ENSG00000206052	ENST00000382713	protein_coding	KNOWN	CCDS32841	28301	996	331	67068291	67516323	1	DOK5L	MGC20785, HsT3226
18	DOK6	ENSG00000206052	ENST00000582172	processed_transcript	KNOWN	None	28301	None	None	67310911	67365761	1	DOK5L	MGC20785, HsT3226
18	DOK6	ENSG00000206052	ENST00000584435	processed_transcript	KNOWN	None	28301	None	None	67310924	67406316	1	DOK5L	MGC20785, HsT3226
18	DOK6	ENSG00000206052	ENST00000582992	protein_coding	PUTATIVE	None	28301	470	155	67344970	67406396	1	DOK5L	MGC20785, HsT3226
18	DOK6	ENSG00000206052	ENST00000577609	processed_transcript	KNOWN	None	28301	None	None	67406221	67448658	1	DOK5L	MGC20785, HsT3226
14	IGHV1-18	ENSG00000211945	ENST00000390605	IG_V_gene	KNOWN	None	5549	351	116	106641563	106642056	-1	None	None
8	HSPD1P3	ENSG00000255128	ENST00000533477	processed_pseudogene	KNOWN	None	5264	None	None	7276513	7278068	1	HSPDP3, HSPDP1, HSPDP4	HSP60P3, HSP60P1, HSP60P4, HSPD1-7P
21	None	ENSG00000231106	ENST00000457157	lincRNA	KNOWN	None	None	None	None	37377636	37379899	1	None	None
8	RN7SL293P	ENSG00000242483	ENST00000481765	misc_RNA	KNOWN	None	46309	None	None	11236904	11237200	1	None	None
15	RN7SL82P	ENSG00000241266	ENST00000463782	misc_RNA	KNOWN	None	46098	None	None	31092352	31092630	1	None	None
15	None	ENSG00000259279	ENST00000560769	antisense	KNOWN	None	None	None	None	39885781	39886432	-1	None	None
4	USP17L26	ENSG00000229579	ENST00000509660	protein_coding	KNOWN	CCDS59466	44454	1593	530	9336384	9337976	1	None	None
8	None	ENSG00000253639	ENST00000518873	processed_pseudogene	KNOWN	None	None	None	None	98870277	98871175	-1	None	None
18	None	ENSG00000266844	ENST00000583326	antisense	KNOWN	None	None	None	None	74686646	74689221	1	None	None
18	None	ENSG00000266844	ENST00000583889	antisense	KNOWN	None	None	None	None	74688898	74690817	1	None	None
18	None	ENSG00000266844	ENST00000577364	antisense	KNOWN	None	None	None	None	74690789	74691509	1	None	None
18	None	ENSG00000266844	ENST00000582763	antisense	KNOWN	None	None	None	None	74690922	74695709	1	None	None
18	None	ENSG00000266844	ENST00000580580	antisense	KNOWN	None	None	None	None	74693272	74696118	1	None	None
18	None	ENSG00000266844	ENST00000582546	antisense	KNOWN	None	None	None	None	74693668	74696038	1	None	None
15	None	ENSG00000221379	ENST00000408452	miRNA	NOVEL	None	None	None	None	31093509	31093591	1	None	None
X	None	ENSG00000230538	ENST00000422141	processed_pseudogene	KNOWN	None	None	None	None	126524324	126526508	1	None	None
14	None	ENSG00000252114	ENST00000516305	snoRNA	NOVEL	None	None	None	None	23486367	23486590	-1	None	None
14	None	ENSG00000214759	ENST00000484315	processed_pseudogene	KNOWN	None	None	None	None	65735547	65735816	1	None	None
21	None	ENSG00000267812	ENST00000599809	protein_coding	KNOWN	None	None	375	124	37270353	37270727	-1	None	None
21	RPL23AP3	ENSG00000214914	ENST00000453844	processed_pseudogene	KNOWN	None	10320	None	None	37388377	37388844	-1	None	None
8	None	ENSG00000216194	ENST00000401375	miRNA	NOVEL	None	None	None	None	7315478	7315572	1	None	None
15	None	ENSG00000259580	ENST00000558616	processed_transcript	KNOWN	None	None	None	None	40062760	40093534	-1	None	None
X	MIR4329	ENSG00000263351	ENST00000582643	miRNA	KNOWN	None	38290	None	None	112023946	112024016	-1	None	hsa-mir-4329
21	None	ENSG00000268098	ENST00000600312	protein_coding	NOVEL	None	None	114	37	37402368	37417818	1	None	None
15	HERC2P10	ENSG00000259845	ENST00000570209	unprocessed_pseudogene	KNOWN	None	39056	None	None	31107474	31136356	1	None	None
21	RIMKLBP1	ENSG00000189089	ENST00000408914	processed_pseudogene	KNOWN	None	34034	None	None	37422512	37423675	1	FAM80C, RIMKLP, FAM80B2, RIMKLB2	None
21	RIMKLBP1	ENSG00000189089	ENST00000341022	processed_pseudogene	KNOWN	None	34034	None	None	37422527	37423582	1	FAM80C, RIMKLP, FAM80B2, RIMKLB2	None
4	USP17L5	ENSG00000227140	ENST00000507227	protein_coding	NOVEL	CCDS59467	37177	1593	530	9341129	9342721	1	None	None
14	None	ENSG00000207765	ENST00000385031	miRNA	NOVEL	None	None	None	None	23502739	23502847	-1	None	None
14	PTBP1P	ENSG00000259078	ENST00000554374	processed_pseudogene	KNOWN	None	20030	None	None	65745985	65747884	1	None	None
21	None	ENSG00000236677	ENST00000436303	antisense	KNOWN	None	None	None	None	37432730	37436706	1	None	None
8	FAM90A6P	ENSG00000248944	ENST00000515148	unprocessed_pseudogene	KNOWN	None	32254	None	None	7406575	7409584	-1	None	None
14	RNU6-1138P	ENSG00000202229	ENST00000365359	snRNA	KNOWN	None	48101	None	None	23625518	23625623	-1	None	None
15	None	ENSG00000261136	ENST00000564211	antisense	KNOWN	None	None	None	None	40074772	40077818	1	None	None
X	RN7SL266P	ENSG00000243011	ENST00000465140	misc_RNA	KNOWN	None	46282	None	None	112099102	112099388	1	None	None
4	USP17L27	ENSG00000235780	ENST00000515574	protein_coding	KNOWN	CCDS59468	44455	1593	530	9345874	9347466	1	None	None
14	None	ENSG00000240131	ENST00000465411	processed_pseudogene	KNOWN	None	None	None	None	23699170	23699325	-1	None	None
14	None	ENSG00000225680	ENST00000436530	lincRNA	KNOWN	None	None	None	None	54066550	54080744	-1	None	None
14	MIR4708	ENSG00000266740	ENST00000584635	miRNA	KNOWN	None	41824	None	None	65801835	65801901	-1	None	hsa-mir-4708
14	None	ENSG00000221178	ENST00000408251	miRNA	NOVEL	None	None	None	None	79084209	79084318	1	None	None
14	RPS3AP46	ENSG00000226132	ENST00000448352	processed_pseudogene	KNOWN	None	36338	None	None	54079442	54080123	1	None	None
8	FAM90A7P	ENSG00000236660	ENST00000382628	unprocessed_pseudogene	KNOWN	None	32255	None	None	7414222	7417234	-1	FAM90A7	None
15	None	ENSG00000259432	ENST00000559899	sense_intronic	KNOWN	None	None	None	None	40105424	40107630	-1	None	None
8	CYP4F44P	ENSG00000253748	ENST00000520423	unprocessed_pseudogene	KNOWN	None	39957	None	None	43395116	43396070	1	None	CYP4F-se12[6:8]
4	USP17L28	ENSG00000231051	ENST00000504543	protein_coding	KNOWN	CCDS59469	44456	1593	530	9350619	9352211	1	None	None
HG339_PATCH	ZNF518A	ENSG00000261900	ENST00000572626	protein_coding	KNOWN	None	29009	4452	1483	97889472	97922491	1	ZNF518	KIAA0335
HG339_PATCH	ZNF518A	ENSG00000261900	ENST00000591012	processed_transcript	KNOWN	None	29009	None	None	97889492	97915776	1	ZNF518	KIAA0335
HG339_PATCH	ZNF518A	ENSG00000261900	ENST00000589682	processed_transcript	KNOWN	None	29009	None	None	97889813	97911323	1	ZNF518	KIAA0335
HG339_PATCH	ZNF518A	ENSG00000261900	ENST00000588069	protein_coding	KNOWN	None	29009	1015	337	97889813	97917094	1	ZNF518	KIAA0335
HG339_PATCH	ZNF518A	ENSG00000261900	ENST00000586181	processed_transcript	KNOWN	None	29009	None	None	97889829	97965046	1	ZNF518	KIAA0335
HG339_PATCH	ZNF518A	ENSG00000261900	ENST00000586756	retained_intron	KNOWN	None	29009	None	None	97890436	97892666	1	ZNF518	KIAA0335
HG339_PATCH	ZNF518A	ENSG00000261900	ENST00000586116	retained_intron	KNOWN	None	29009	None	None	97915100	97920306	1	ZNF518	KIAA0335
HG339_PATCH	ZNF518A	ENSG00000261900	ENST00000585758	processed_transcript	KNOWN	None	29009	None	None	97915770	97963886	1	ZNF518	KIAA0335
14	RPL21P8	ENSG00000180662	ENST00000465083	processed_pseudogene	KNOWN	None	19779	None	None	65934525	65935059	-1	None	None
14	None	ENSG00000258719	ENST00000555954	antisense	KNOWN	None	None	None	None	79161664	79164465	-1	None	None
8	None	ENSG00000253643	ENST00000519364	antisense	KNOWN	None	None	None	None	24347825	24372341	-1	None	None
8	None	ENSG00000253643	ENST00000517428	antisense	KNOWN	None	None	None	None	24369135	24372101	-1	None	None
8	None	ENSG00000253643	ENST00000520256	antisense	KNOWN	None	None	None	None	24369135	24372342	-1	None	None
8	None	ENSG00000253643	ENST00000519893	antisense	KNOWN	None	None	None	None	24369143	24372326	-1	None	None
X	None	ENSG00000232025	ENST00000441559	processed_pseudogene	KNOWN	None	None	None	None	112160864	112160989	1	None	None
8	None	ENSG00000253452	ENST00000524167	lincRNA	KNOWN	None	None	None	None	35719641	35788228	1	None	None
8	None	ENSG00000253452	ENST00000523748	lincRNA	KNOWN	None	None	None	None	35720025	35828183	1	None	None
X	SRPK3	ENSG00000184343	ENST00000489426	protein_coding	PUTATIVE	None	11402	1905	634	153041867	153051183	1	STK23	MSSK1
X	SRPK3	ENSG00000184343	ENST00000370104	protein_coding	NOVEL	CCDS55538	11402	1701	566	153046494	153050979	1	STK23	MSSK1
X	SRPK3	ENSG00000184343	ENST00000370108	protein_coding	NOVEL	None	11402	1605	534	153046494	153051185	1	STK23	MSSK1
X	SRPK3	ENSG00000184343	ENST00000370101	protein_coding	KNOWN	CCDS35441	11402	1704	567	153046496	153051183	1	STK23	MSSK1
X	SRPK3	ENSG00000184343	ENST00000430541	protein_coding	PUTATIVE	None	11402	614	203	153046571	153048324	1	STK23	MSSK1
X	SRPK3	ENSG00000184343	ENST00000370100	protein_coding	NOVEL	None	11402	1479	492	153046571	153051183	1	STK23	MSSK1
X	SRPK3	ENSG00000184343	ENST00000458681	protein_coding	PUTATIVE	None	11402	386	127	153050159	153050859	1	STK23	MSSK1
X	SRPK3	ENSG00000184343	ENST00000393786	protein_coding	KNOWN	CCDS55537	11402	1602	533	153046456	153051187	1	STK23	MSSK1
4	USP17L29	ENSG00000231637	ENST00000511681	protein_coding	KNOWN	CCDS59470	44457	1593	530	9355364	9356956	1	None	None
15	None	ENSG00000259231	ENST00000561335	processed_pseudogene	KNOWN	None	None	None	None	45211574	45213018	1	None	None
14	RNU6-1046P	ENSG00000252347	ENST00000516538	snRNA	KNOWN	None	48009	None	None	23728669	23728775	-1	None	None
14	None	ENSG00000270433	ENST00000604456	processed_transcript	KNOWN	None	None	None	None	23763061	23764935	1	None	None
14	None	ENSG00000270433	ENST00000604278	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	23763813	23765007	1	None	None
14	MIR625	ENSG00000207781	ENST00000385047	miRNA	KNOWN	None	32881	None	None	65937820	65937904	1	MIRN625	hsa-mir-625
6	LYRM4	ENSG00000214113	ENST00000330636	protein_coding	KNOWN	CCDS4493	21365	276	91	5102827	5261172	-1	C6orf149	CGI-203, ISD11
6	LYRM4	ENSG00000214113	ENST00000606472	processed_transcript	KNOWN	None	21365	None	None	5103863	5109468	-1	C6orf149	CGI-203, ISD11
6	LYRM4	ENSG00000214113	ENST00000468929	protein_coding	PUTATIVE	None	21365	123	40	5108653	5260975	-1	C6orf149	CGI-203, ISD11
6	LYRM4	ENSG00000214113	ENST00000464010	protein_coding	PUTATIVE	CCDS54961	21365	291	96	5108657	5260966	-1	C6orf149	CGI-203, ISD11
6	LYRM4	ENSG00000214113	ENST00000463032	nonsense_mediated_decay	KNOWN	None	21365	225	74	5108707	5260882	-1	C6orf149	CGI-203, ISD11
6	LYRM4	ENSG00000214113	ENST00000458438	processed_transcript	PUTATIVE	None	21365	None	None	5108962	5133128	-1	C6orf149	CGI-203, ISD11
6	LYRM4	ENSG00000214113	ENST00000480566	protein_coding	PUTATIVE	None	21365	213	70	5136408	5260975	-1	C6orf149	CGI-203, ISD11
6	LYRM4	ENSG00000214113	ENST00000455814	processed_transcript	KNOWN	None	21365	None	None	5236517	5260954	-1	C6orf149	CGI-203, ISD11
6	LYRM4	ENSG00000214113	ENST00000500576	protein_coding	KNOWN	CCDS54962	21365	393	130	5186834	5261172	-1	C6orf149	CGI-203, ISD11
4	CCSER1	ENSG00000184305	ENST00000505073	nonsense_mediated_decay	KNOWN	None	29349	1992	663	91048686	91844681	1	FAM190A	KIAA1680
4	CCSER1	ENSG00000184305	ENST00000509176	protein_coding	KNOWN	CCDS47099	29349	2703	900	91048736	92523064	1	FAM190A	KIAA1680
4	CCSER1	ENSG00000184305	ENST00000432775	protein_coding	KNOWN	CCDS47100	29349	2034	677	91156182	91703155	1	FAM190A	KIAA1680
4	CCSER1	ENSG00000184305	ENST00000508550	nonsense_mediated_decay	KNOWN	None	29349	413	136	91230643	91325282	1	FAM190A	KIAA1680
4	CCSER1	ENSG00000184305	ENST00000514352	retained_intron	KNOWN	None	29349	None	None	91234111	91389599	1	FAM190A	KIAA1680
4	CCSER1	ENSG00000184305	ENST00000508086	retained_intron	KNOWN	None	29349	None	None	91234164	91389773	1	FAM190A	KIAA1680
4	CCSER1	ENSG00000184305	ENST00000502478	nonsense_mediated_decay	KNOWN	None	29349	224	73	91549172	91563622	1	FAM190A	KIAA1680
4	CCSER1	ENSG00000184305	ENST00000513522	nonsense_mediated_decay	KNOWN	None	29349	508	168	91549176	91859983	1	FAM190A	KIAA1680
4	CCSER1	ENSG00000184305	ENST00000504150	processed_transcript	KNOWN	None	29349	None	None	91570659	91701922	1	FAM190A	KIAA1680
4	CCSER1	ENSG00000184305	ENST00000503421	protein_coding	PUTATIVE	None	29349	212	69	91570662	91832464	1	FAM190A	KIAA1680
4	CCSER1	ENSG00000184305	ENST00000509109	nonsense_mediated_decay	KNOWN	None	29349	282	93	91570671	92051191	1	FAM190A	KIAA1680
4	CCSER1	ENSG00000184305	ENST00000510519	nonsense_mediated_decay	KNOWN	None	29349	177	58	91570671	91701719	1	FAM190A	KIAA1680
4	CCSER1	ENSG00000184305	ENST00000515693	processed_transcript	PUTATIVE	None	29349	None	None	91736964	91872463	1	FAM190A	KIAA1680
4	CCSER1	ENSG00000184305	ENST00000333691	protein_coding	KNOWN	CCDS47099	29349	2703	900	91156182	92520208	1	FAM190A	KIAA1680
14	None	ENSG00000235269	ENST00000418927	lincRNA	KNOWN	None	None	None	None	54235660	54317600	-1	None	None
4	USP17L30	ENSG00000228856	ENST00000504104	protein_coding	KNOWN	CCDS59471	44458	1593	530	9364855	9366447	1	None	None
15	None	ENSG00000246863	ENST00000499797	lincRNA	KNOWN	None	None	None	None	40213243	40217100	1	None	None
15	None	ENSG00000246863	ENST00000558675	lincRNA	KNOWN	None	None	None	None	40213271	40218081	1	None	None
14	None	ENSG00000258979	ENST00000556669	lincRNA	KNOWN	None	None	None	None	97207528	97256950	1	None	None
X	RNU6-1015P	ENSG00000252930	ENST00000517121	snRNA	KNOWN	None	47978	None	None	112162360	112162458	1	None	None
22	CARD10	ENSG00000100065	ENST00000488141	retained_intron	KNOWN	None	16422	None	None	37886400	37892787	-1	None	CARMA3, BIMP1
22	CARD10	ENSG00000100065	ENST00000403299	protein_coding	KNOWN	CCDS13948	16422	3099	1032	37886400	37915549	-1	None	CARMA3, BIMP1
22	CARD10	ENSG00000100065	ENST00000467812	retained_intron	KNOWN	None	16422	None	None	37886401	37890583	-1	None	CARMA3, BIMP1
22	CARD10	ENSG00000100065	ENST00000406271	protein_coding	KNOWN	None	16422	2241	746	37886402	37905156	-1	None	CARMA3, BIMP1
22	CARD10	ENSG00000100065	ENST00000251973	protein_coding	KNOWN	CCDS13948	16422	3099	1032	37886402	37915247	-1	None	CARMA3, BIMP1
22	CARD10	ENSG00000100065	ENST00000437756	protein_coding	KNOWN	None	16422	1441	479	37888768	37908248	-1	None	CARMA3, BIMP1
22	CARD10	ENSG00000100065	ENST00000486118	processed_transcript	KNOWN	None	16422	None	None	37891857	37893242	-1	None	CARMA3, BIMP1
22	CARD10	ENSG00000100065	ENST00000433485	protein_coding	PUTATIVE	None	16422	578	191	37891908	37900087	-1	None	CARMA3, BIMP1
22	CARD10	ENSG00000100065	ENST00000476871	retained_intron	KNOWN	None	16422	None	None	37903889	37906572	-1	None	CARMA3, BIMP1
22	CARD10	ENSG00000100065	ENST00000494166	processed_transcript	KNOWN	None	16422	None	None	37904534	37910812	-1	None	CARMA3, BIMP1
X	None	ENSG00000238811	ENST00000459560	snoRNA	NOVEL	None	None	None	None	112244247	112244356	-1	None	None
9	CTSV	ENSG00000136943	ENST00000259470	protein_coding	KNOWN	CCDS6723	2538	1005	334	99794940	99801592	-1	CTSL2	CTSU
9	CTSV	ENSG00000136943	ENST00000479932	processed_transcript	KNOWN	None	2538	None	None	99799573	99801424	-1	CTSL2	CTSU
9	CTSV	ENSG00000136943	ENST00000538255	protein_coding	KNOWN	CCDS6723	2538	1005	334	99795231	99801925	-1	CTSL2	CTSU
14	None	ENSG00000231922	ENST00000426913	processed_pseudogene	KNOWN	None	None	None	None	54383988	54384471	-1	None	None
15	None	ENSG00000239100	ENST00000458913	snoRNA	NOVEL	None	None	None	None	58892331	58892434	-1	None	None
X	None	ENSG00000235329	ENST00000457667	processed_pseudogene	KNOWN	None	None	None	None	112590640	112590846	1	None	None
14	EIF1AXP2	ENSG00000258980	ENST00000555940	processed_pseudogene	KNOWN	None	44295	None	None	65995548	65996292	-1	None	None
8	ZNF517	ENSG00000197363	ENST00000533965	nonsense_mediated_decay	KNOWN	CCDS6434	27984	1479	492	146024261	146035461	1	None	None
8	ZNF517	ENSG00000197363	ENST00000526178	processed_transcript	KNOWN	None	27984	None	None	146024279	146036498	1	None	None
8	ZNF517	ENSG00000197363	ENST00000530879	retained_intron	KNOWN	None	27984	None	None	146024288	146034362	1	None	None
8	ZNF517	ENSG00000197363	ENST00000528012	protein_coding	PUTATIVE	None	27984	390	129	146024302	146032712	1	None	None
8	ZNF517	ENSG00000197363	ENST00000531720	protein_coding	KNOWN	CCDS6434	27984	1479	492	146028255	146033871	1	None	None
8	ZNF517	ENSG00000197363	ENST00000525105	protein_coding	PUTATIVE	None	27984	429	142	146028255	146036554	1	None	None
8	ZNF517	ENSG00000197363	ENST00000529429	protein_coding	PUTATIVE	None	27984	1379	458	146028273	146033861	1	None	None
8	ZNF517	ENSG00000197363	ENST00000359971	protein_coding	KNOWN	CCDS6434	27984	1479	492	146024261	146034529	1	None	None
4	None	ENSG00000219492	ENST00000508324	protein_coding	NOVEL	None	None	723	240	9385743	9390709	-1	None	None
8	None	ENSG00000254802	ENST00000525556	lincRNA	KNOWN	None	None	None	None	61878361	61880334	-1	None	None
14	None	ENSG00000259018	ENST00000554010	antisense	KNOWN	None	None	None	None	23825615	23826212	1	None	None
X	None	ENSG00000183171	ENST00000332359	processed_pseudogene	KNOWN	None	None	None	None	149282609	149284751	1	None	None
15	None	ENSG00000270986	ENST00000605166	processed_pseudogene	KNOWN	None	None	None	None	58964495	58965132	1	None	None
8	None	ENSG00000253524	ENST00000518181	lincRNA	KNOWN	None	None	None	None	35861834	35952564	-1	None	None
8	None	ENSG00000253524	ENST00000523342	lincRNA	KNOWN	None	None	None	None	35861838	35951527	-1	None	None
4	DEFB131	ENSG00000186146	ENST00000334879	protein_coding	KNOWN	CCDS43213	18108	213	70	9446260	9452240	1	None	DEFB-31
8	RNU7-181P	ENSG00000253043	ENST00000517234	snRNA	KNOWN	None	45715	None	None	131016774	131016847	-1	None	None
HG686_PATCH	TEKT4	ENSG00000260842	ENST00000566697	retained_intron	KNOWN	None	31012	None	None	95635180	95640570	1	None	MGC27019
HG686_PATCH	TEKT4	ENSG00000260842	ENST00000563929	protein_coding	KNOWN	None	31012	1308	435	95635190	95640576	1	None	MGC27019
8	MIR5194	ENSG00000264653	ENST00000582634	miRNA	KNOWN	None	43498	None	None	131020580	131020699	-1	None	hsa-mir-5194
15	None	ENSG00000200305	ENST00000363435	misc_RNA	NOVEL	None	None	None	None	40214983	40215087	-1	None	None
15	RNU7-79P	ENSG00000251891	ENST00000516082	snRNA	KNOWN	None	34175	None	None	85933054	85933115	-1	None	U7.79
X	MIR2114	ENSG00000252454	ENST00000516645	miRNA	KNOWN	None	37308	None	None	149396239	149396318	1	None	hsa-mir-2114
8	FAM90A21P	ENSG00000234749	ENST00000510875	unprocessed_pseudogene	KNOWN	None	32269	None	None	7421872	7424882	-1	None	None
8	FAM90A21P	ENSG00000234749	ENST00000413161	unprocessed_pseudogene	KNOWN	None	32269	None	None	7421320	7440175	-1	None	None
8	FAM90A21P	ENSG00000234749	ENST00000535455	unprocessed_pseudogene	KNOWN	None	32269	None	None	7421872	7432528	-1	None	None
8	FAM90A21P	ENSG00000234749	ENST00000425087	unprocessed_pseudogene	KNOWN	None	32269	None	None	7429517	7432528	-1	None	None
8	FAM90A21P	ENSG00000234749	ENST00000400138	unprocessed_pseudogene	KNOWN	None	32269	None	None	7437166	7440175	-1	None	None
20	CNBD2	ENSG00000149646	ENST00000373973	protein_coding	KNOWN	None	16145	1731	576	34556512	34618622	1	C20orf152, CNMPD1	dJ954P9.1
20	CNBD2	ENSG00000149646	ENST00000349339	protein_coding	KNOWN	CCDS13270	16145	1719	572	34556529	34618622	1	C20orf152, CNMPD1	dJ954P9.1
20	CNBD2	ENSG00000149646	ENST00000489667	retained_intron	KNOWN	None	16145	None	None	34556533	34562878	1	C20orf152, CNMPD1	dJ954P9.1
20	CNBD2	ENSG00000149646	ENST00000463258	nonsense_mediated_decay	KNOWN	None	16145	435	144	34556545	34618591	1	C20orf152, CNMPD1	dJ954P9.1
20	CNBD2	ENSG00000149646	ENST00000538900	protein_coding	KNOWN	CCDS56189	16145	1272	423	34556545	34618591	1	C20orf152, CNMPD1	dJ954P9.1
15	None	ENSG00000259630	ENST00000559487	transcribed_processed_pseudogene	KNOWN	None	None	None	None	85958459	85958864	1	None	None
15	None	ENSG00000238564	ENST00000459610	snoRNA	NOVEL	None	None	None	None	40242907	40243009	1	None	None
14	None	ENSG00000258629	ENST00000555712	processed_pseudogene	KNOWN	None	None	None	None	66346310	66347788	-1	None	None
19	FSTL3	ENSG00000070404	ENST00000166139	protein_coding	KNOWN	CCDS12040	3973	792	263	676392	683385	1	None	FLRG, FSRP
19	FSTL3	ENSG00000070404	ENST00000606071	processed_transcript	KNOWN	None	3973	None	None	676397	680333	1	None	FLRG, FSRP
19	FSTL3	ENSG00000070404	ENST00000591552	protein_coding	NOVEL	None	3973	539	178	677942	682054	1	None	FLRG, FSRP
19	FSTL3	ENSG00000070404	ENST00000588773	nonsense_mediated_decay	KNOWN	None	3973	249	82	678061	681794	1	None	FLRG, FSRP
19	FSTL3	ENSG00000070404	ENST00000589185	retained_intron	KNOWN	None	3973	None	None	680034	681756	1	None	FLRG, FSRP
19	FSTL3	ENSG00000070404	ENST00000592058	processed_transcript	KNOWN	None	3973	None	None	680715	681943	1	None	FLRG, FSRP
19	FSTL3	ENSG00000070404	ENST00000592947	processed_transcript	KNOWN	None	3973	None	None	680715	682205	1	None	FLRG, FSRP
19	FSTL3	ENSG00000070404	ENST00000591573	retained_intron	KNOWN	None	3973	None	None	680751	681771	1	None	FLRG, FSRP
19	FSTL3	ENSG00000070404	ENST00000605925	processed_transcript	KNOWN	None	3973	None	None	680751	681809	1	None	FLRG, FSRP
HG736_PATCH	PHKG1P4	ENSG00000261107	ENST00000566970	unprocessed_pseudogene	KNOWN	None	33918	None	None	57128283	57128994	-1	None	None
8	RNU6-1255P	ENSG00000200304	ENST00000363434	snRNA	KNOWN	None	48218	None	None	131081787	131081898	-1	None	None
HSCHR6_MHC_APD	TRIM39	ENSG00000230308	ENST00000416213	protein_coding	KNOWN	None	10065	434	143	30302488	30305761	1	RNF23	None
HSCHR6_MHC_APD	TRIM39	ENSG00000230308	ENST00000412150	protein_coding	KNOWN	None	10065	222	73	30302844	30305549	1	RNF23	None
HSCHR6_MHC_APD	TRIM39	ENSG00000230308	ENST00000458607	protein_coding	KNOWN	None	10065	1467	488	30302853	30319744	1	RNF23	None
HSCHR6_MHC_APD	TRIM39	ENSG00000230308	ENST00000431871	protein_coding	KNOWN	None	10065	782	259	30302914	30311992	1	RNF23	None
HSCHR6_MHC_APD	TRIM39	ENSG00000230308	ENST00000446397	protein_coding	KNOWN	None	10065	1467	488	30302929	30319744	1	RNF23	None
HSCHR6_MHC_APD	TRIM39	ENSG00000230308	ENST00000434862	protein_coding	KNOWN	None	10065	178	58	30302966	30305505	1	RNF23	None
HSCHR6_MHC_APD	TRIM39	ENSG00000230308	ENST00000431272	protein_coding	KNOWN	None	10065	1467	488	30303268	30319744	1	RNF23	None
HSCHR6_MHC_APD	TRIM39	ENSG00000230308	ENST00000421662	protein_coding	KNOWN	None	10065	145	47	30303532	30305472	1	RNF23	None
HSCHR6_MHC_APD	TRIM39	ENSG00000230308	ENST00000424575	protein_coding	KNOWN	None	10065	1557	518	30304899	30319744	1	RNF23	None
HSCHR6_MHC_APD	TRIM39	ENSG00000230308	ENST00000412022	protein_coding	KNOWN	None	10065	683	226	30305539	30317485	1	RNF23	None
HSCHR6_MHC_APD	TRIM39	ENSG00000230308	ENST00000549841	protein_coding	KNOWN	None	10065	1557	518	30302853	30319743	1	RNF23	None
HSCHR6_MHC_APD	TRIM39	ENSG00000230308	ENST00000550432	protein_coding	KNOWN	None	10065	1557	518	30302853	30319743	1	RNF23	None
HSCHR6_MHC_APD	TRIM39	ENSG00000230308	ENST00000552805	protein_coding	KNOWN	None	10065	1467	488	30302853	30319743	1	RNF23	None
HSCHR6_MHC_APD	TRIM39	ENSG00000230308	ENST00000549051	protein_coding	KNOWN	None	10065	1236	411	30302853	30318077	1	RNF23	None
HSCHR6_MHC_APD	TRIM39	ENSG00000230308	ENST00000550581	protein_coding	KNOWN	None	10065	1254	417	30302853	30322825	1	RNF23	None
22	BPIFC	ENSG00000184459	ENST00000397452	protein_coding	KNOWN	CCDS13906	16503	1524	507	32809834	32860471	-1	BPIL2	dJ149A16.7
22	BPIFC	ENSG00000184459	ENST00000397450	protein_coding	PUTATIVE	None	16503	249	82	32849321	32860436	-1	BPIL2	dJ149A16.7
22	BPIFC	ENSG00000184459	ENST00000300399	protein_coding	KNOWN	CCDS13906	16503	1524	507	32809834	32853373	-1	BPIL2	dJ149A16.7
22	BPIFC	ENSG00000184459	ENST00000432451	protein_coding	KNOWN	None	16503	795	264	32810290	32853373	-1	BPIL2	dJ149A16.7
22	BPIFC	ENSG00000184459	ENST00000534972	protein_coding	KNOWN	None	16503	696	231	32810233	32860429	-1	BPIL2	dJ149A16.7
Y	FAM197Y2	ENSG00000234803	ENST00000448006	antisense	KNOWN	None	18848	None	None	9355208	9363096	-1	CYorf16, FAM197Y2P	None
Y	FAM197Y2	ENSG00000234803	ENST00000418016	antisense	KNOWN	None	18848	None	None	9357275	9362877	-1	CYorf16, FAM197Y2P	None
Y	FAM197Y2	ENSG00000234803	ENST00000598351	antisense	KNOWN	None	18848	None	None	9362384	9364506	-1	CYorf16, FAM197Y2P	None
8	None	ENSG00000203377	ENST00000366200	pseudogene	NOVEL	None	None	None	None	131085393	131085648	1	None	None
15	H3F3AP1	ENSG00000259389	ENST00000559984	processed_pseudogene	KNOWN	None	31028	None	None	40243576	40243909	-1	None	HsT18159
16	MMP25	ENSG00000008516	ENST00000336577	protein_coding	KNOWN	CCDS10492	14246	1689	562	3096682	3110727	1	MMPL1, MMP20	MT6-MMP
16	MMP25	ENSG00000008516	ENST00000570755	processed_transcript	KNOWN	None	14246	None	None	3097532	3106163	1	MMPL1, MMP20	MT6-MMP
16	MMP25	ENSG00000008516	ENST00000575441	retained_intron	KNOWN	None	14246	None	None	3106795	3108307	1	MMPL1, MMP20	MT6-MMP
8	None	ENSG00000212342	ENST00000391040	snoRNA	NOVEL	None	None	None	None	131175218	131175373	1	None	None
14	None	ENSG00000259444	ENST00000559843	sense_overlapping	KNOWN	None	None	None	None	103561060	103565222	1	None	None
X	XRCC6P2	ENSG00000234825	ENST00000457831	processed_pseudogene	KNOWN	None	45184	None	None	149399295	149401116	-1	None	None
X	XRCC6P2	ENSG00000234825	ENST00000437286	processed_pseudogene	KNOWN	None	45184	None	None	149399291	149400721	-1	None	None
HG730_PATCH	ZNF486	ENSG00000263255	ENST00000571001	protein_coding	KNOWN	None	20807	1392	463	20278023	20308911	1	KRBO2	MGC2396
X	SRIP2	ENSG00000224065	ENST00000428470	processed_pseudogene	KNOWN	None	38734	None	None	88622434	88622599	-1	None	None
14	LINC00677	ENSG00000259717	ENST00000558224	lincRNA	KNOWN	None	20121	None	None	103587184	103589246	-1	C14orf74	None
14	LINC00677	ENSG00000259717	ENST00000560742	lincRNA	KNOWN	None	20121	None	None	103587190	103589344	-1	C14orf74	None
4	RN7SL558P	ENSG00000243260	ENST00000497468	misc_RNA	KNOWN	None	46574	None	None	39762620	39762919	1	None	None
8	None	ENSG00000254309	ENST00000519431	processed_pseudogene	KNOWN	None	None	None	None	35978916	35979201	-1	None	None
X	None	ENSG00000220541	ENST00000403700	processed_pseudogene	KNOWN	None	None	None	None	112765753	112766260	1	None	None
X	None	ENSG00000220541	ENST00000542405	processed_pseudogene	KNOWN	None	None	None	None	112765762	112766265	1	None	None
HG989_PATCH	None	ENSG00000260636	ENST00000563427	sense_intronic	KNOWN	None	None	None	None	32010891	32013616	1	None	None
X	None	ENSG00000225012	ENST00000420327	lincRNA	KNOWN	None	None	None	None	88678737	88696910	1	None	None
X	None	ENSG00000225012	ENST00000435867	lincRNA	KNOWN	None	None	None	None	88678737	88701982	1	None	None
15	None	ENSG00000238870	ENST00000459204	miRNA	NOVEL	None	None	None	None	70023079	70023161	-1	None	None
14	None	ENSG00000258960	ENST00000557194	processed_pseudogene	KNOWN	None	None	None	None	66367650	66368169	-1	None	None
14	MIR208A	ENSG00000199157	ENST00000362287	miRNA	KNOWN	None	31585	None	None	23857799	23857881	-1	MIRN208, MIRN208A	hsa-mir-208, hsa-mir-208a
HG104_HG975_PATCH	PARP10	ENSG00000261660	ENST00000561759	retained_intron	KNOWN	None	25895	None	None	145059323	145066528	-1	None	FLJ14464
HG104_HG975_PATCH	PARP10	ENSG00000261660	ENST00000565818	protein_coding	NOVEL	None	25895	3051	1016	145059323	145068616	-1	None	FLJ14464
HG104_HG975_PATCH	PARP10	ENSG00000261660	ENST00000568154	protein_coding	KNOWN	None	25895	3078	1025	145059330	145068624	-1	None	FLJ14464
HG104_HG975_PATCH	PARP10	ENSG00000261660	ENST00000562335	protein_coding	PUTATIVE	None	25895	3114	1037	145059553	145068630	-1	None	FLJ14464
HG104_HG975_PATCH	PARP10	ENSG00000261660	ENST00000565565	nonsense_mediated_decay	KNOWN	None	25895	2295	764	145059623	145068592	-1	None	FLJ14464
HG104_HG975_PATCH	PARP10	ENSG00000261660	ENST00000567062	retained_intron	KNOWN	None	25895	None	None	145066012	145066809	-1	None	FLJ14464
HG104_HG975_PATCH	PARP10	ENSG00000261660	ENST00000563476	protein_coding	PUTATIVE	None	25895	1019	338	145066898	145068600	-1	None	FLJ14464
HG104_HG975_PATCH	PARP10	ENSG00000261660	ENST00000568948	processed_transcript	KNOWN	None	25895	None	None	145067153	145068624	-1	None	FLJ14464
HG104_HG975_PATCH	PARP10	ENSG00000261660	ENST00000562508	retained_intron	KNOWN	None	25895	None	None	145067662	145068311	-1	None	FLJ14464
HG104_HG975_PATCH	PARP10	ENSG00000261660	ENST00000567233	protein_coding	KNOWN	None	25895	535	177	145067720	145073103	-1	None	FLJ14464
HG104_HG975_PATCH	PARP10	ENSG00000261660	ENST00000567115	protein_coding	KNOWN	None	25895	516	171	145067739	145072439	-1	None	FLJ14464
HG104_HG975_PATCH	PARP10	ENSG00000261660	ENST00000565461	protein_coding	KNOWN	None	25895	439	145	145067888	145069351	-1	None	FLJ14464
HG104_HG975_PATCH	PARP10	ENSG00000261660	ENST00000569866	protein_coding	KNOWN	None	25895	433	143	145067894	145069314	-1	None	FLJ14464
HG104_HG975_PATCH	PARP10	ENSG00000261660	ENST00000564077	protein_coding	KNOWN	None	25895	432	143	145067895	145069269	-1	None	FLJ14464
HG104_HG975_PATCH	PARP10	ENSG00000261660	ENST00000565651	protein_coding	KNOWN	None	25895	407	134	145067920	145073305	-1	None	FLJ14464
HG104_HG975_PATCH	PARP10	ENSG00000261660	ENST00000563274	protein_coding	KNOWN	None	25895	386	127	145067941	145073209	-1	None	FLJ14464
HG104_HG975_PATCH	PARP10	ENSG00000261660	ENST00000567290	protein_coding	KNOWN	None	25895	320	105	145068007	145071135	-1	None	FLJ14464
HG104_HG975_PATCH	PARP10	ENSG00000261660	ENST00000567378	retained_intron	KNOWN	None	25895	None	None	145068019	145068630	-1	None	FLJ14464
HG104_HG975_PATCH	PARP10	ENSG00000261660	ENST00000562950	protein_coding	KNOWN	None	25895	266	87	145068061	145094942	-1	None	FLJ14464
HG104_HG975_PATCH	PARP10	ENSG00000261660	ENST00000564597	protein_coding	KNOWN	None	25895	249	82	145068078	145073358	-1	None	FLJ14464
HG104_HG975_PATCH	PARP10	ENSG00000261660	ENST00000570048	protein_coding	KNOWN	None	25895	243	80	145068084	145069102	-1	None	FLJ14464
HG104_HG975_PATCH	PARP10	ENSG00000261660	ENST00000564242	processed_transcript	KNOWN	None	25895	None	None	145068527	145072157	-1	None	FLJ14464
HG104_HG975_PATCH	PARP10	ENSG00000261660	ENST00000562476	processed_transcript	KNOWN	None	25895	None	None	145068533	145072155	-1	None	FLJ14464
8	None	ENSG00000249328	ENST00000502766	lincRNA	KNOWN	None	None	None	None	80681607	80783972	-1	None	None
8	None	ENSG00000249328	ENST00000517365	lincRNA	KNOWN	None	None	None	None	80732804	80783994	-1	None	None
HG996_PATCH	None	ENSG00000261091	ENST00000565411	antisense	KNOWN	None	None	None	None	132856422	132857537	1	None	None
HG996_PATCH	None	ENSG00000261091	ENST00000567498	antisense	KNOWN	None	None	None	None	132856475	132859360	1	None	None
8	RN7SKP201	ENSG00000252663	ENST00000516854	misc_RNA	KNOWN	None	45925	None	None	36124003	36124282	1	None	None
14	None	ENSG00000258444	ENST00000557368	antisense	KNOWN	None	None	None	None	23884548	23884895	1	None	None
14	None	ENSG00000238876	ENST00000458915	miRNA	NOVEL	None	None	None	None	66478359	66478451	-1	None	None
14	MIR208B	ENSG00000215991	ENST00000401172	miRNA	KNOWN	None	33669	None	None	23887196	23887272	-1	MIRN208B	hsa-mir-208b
13	DLEU1	ENSG00000176124	ENST00000478860	processed_transcript	KNOWN	None	13747	None	None	50656307	50658107	1	DLB1, BCMS	LEU1, XTP6, NCRNA00021, LINC00021
13	DLEU1	ENSG00000176124	ENST00000378180	protein_coding	KNOWN	None	13747	237	78	50656307	50679433	1	DLB1, BCMS	LEU1, XTP6, NCRNA00021, LINC00021
13	DLEU1	ENSG00000176124	ENST00000469754	processed_transcript	KNOWN	None	13747	None	None	50656307	50679433	1	DLB1, BCMS	LEU1, XTP6, NCRNA00021, LINC00021
13	DLEU1	ENSG00000176124	ENST00000486895	processed_transcript	KNOWN	None	13747	None	None	50656307	50964427	1	DLB1, BCMS	LEU1, XTP6, NCRNA00021, LINC00021
13	DLEU1	ENSG00000176124	ENST00000461527	processed_transcript	KNOWN	None	13747	None	None	50656307	51066897	1	DLB1, BCMS	LEU1, XTP6, NCRNA00021, LINC00021
13	DLEU1	ENSG00000176124	ENST00000463474	processed_transcript	KNOWN	None	13747	None	None	50656307	51102200	1	DLB1, BCMS	LEU1, XTP6, NCRNA00021, LINC00021
13	DLEU1	ENSG00000176124	ENST00000476738	processed_transcript	KNOWN	None	13747	None	None	50656307	51102200	1	DLB1, BCMS	LEU1, XTP6, NCRNA00021, LINC00021
13	DLEU1	ENSG00000176124	ENST00000468168	processed_transcript	KNOWN	None	13747	None	None	50656307	51102200	1	DLB1, BCMS	LEU1, XTP6, NCRNA00021, LINC00021
13	DLEU1	ENSG00000176124	ENST00000491341	processed_transcript	KNOWN	None	13747	None	None	50656307	51102670	1	DLB1, BCMS	LEU1, XTP6, NCRNA00021, LINC00021
13	DLEU1	ENSG00000176124	ENST00000468522	processed_transcript	KNOWN	None	13747	None	None	50656307	51102670	1	DLB1, BCMS	LEU1, XTP6, NCRNA00021, LINC00021
13	DLEU1	ENSG00000176124	ENST00000491615	processed_transcript	KNOWN	None	13747	None	None	50656307	51102670	1	DLB1, BCMS	LEU1, XTP6, NCRNA00021, LINC00021
13	DLEU1	ENSG00000176124	ENST00000490577	processed_transcript	KNOWN	None	13747	None	None	50656307	51102670	1	DLB1, BCMS	LEU1, XTP6, NCRNA00021, LINC00021
13	DLEU1	ENSG00000176124	ENST00000467721	processed_transcript	KNOWN	None	13747	None	None	50656307	51102670	1	DLB1, BCMS	LEU1, XTP6, NCRNA00021, LINC00021
13	DLEU1	ENSG00000176124	ENST00000484529	processed_transcript	KNOWN	None	13747	None	None	50760016	50964427	1	DLB1, BCMS	LEU1, XTP6, NCRNA00021, LINC00021
13	DLEU1	ENSG00000176124	ENST00000475913	processed_transcript	KNOWN	None	13747	None	None	50760016	51066897	1	DLB1, BCMS	LEU1, XTP6, NCRNA00021, LINC00021
13	DLEU1	ENSG00000176124	ENST00000485007	processed_transcript	KNOWN	None	13747	None	None	50760016	51102200	1	DLB1, BCMS	LEU1, XTP6, NCRNA00021, LINC00021
13	DLEU1	ENSG00000176124	ENST00000473075	processed_transcript	KNOWN	None	13747	None	None	50795409	50910540	1	DLB1, BCMS	LEU1, XTP6, NCRNA00021, LINC00021
13	DLEU1	ENSG00000176124	ENST00000483444	processed_transcript	KNOWN	None	13747	None	None	50798417	50975502	1	DLB1, BCMS	LEU1, XTP6, NCRNA00021, LINC00021
13	DLEU1	ENSG00000176124	ENST00000469127	processed_transcript	KNOWN	None	13747	None	None	50867558	50989338	1	DLB1, BCMS	LEU1, XTP6, NCRNA00021, LINC00021
13	DLEU1	ENSG00000176124	ENST00000463357	processed_transcript	KNOWN	None	13747	None	None	50884298	50964427	1	DLB1, BCMS	LEU1, XTP6, NCRNA00021, LINC00021
13	DLEU1	ENSG00000176124	ENST00000489542	processed_transcript	KNOWN	None	13747	None	None	50903770	50975502	1	DLB1, BCMS	LEU1, XTP6, NCRNA00021, LINC00021
13	DLEU1	ENSG00000176124	ENST00000474630	processed_transcript	KNOWN	None	13747	None	None	50964334	51102200	1	DLB1, BCMS	LEU1, XTP6, NCRNA00021, LINC00021
13	DLEU1	ENSG00000176124	ENST00000491482	processed_transcript	KNOWN	None	13747	None	None	50964334	51102200	1	DLB1, BCMS	LEU1, XTP6, NCRNA00021, LINC00021
13	DLEU1	ENSG00000176124	ENST00000479420	processed_transcript	KNOWN	None	13747	None	None	50964334	51222778	1	DLB1, BCMS	LEU1, XTP6, NCRNA00021, LINC00021
13	DLEU1	ENSG00000176124	ENST00000470726	processed_transcript	KNOWN	None	13747	None	None	50964334	51297372	1	DLB1, BCMS	LEU1, XTP6, NCRNA00021, LINC00021
13	DLEU1	ENSG00000176124	ENST00000480262	processed_transcript	KNOWN	None	13747	None	None	50971580	50989338	1	DLB1, BCMS	LEU1, XTP6, NCRNA00021, LINC00021
13	DLEU1	ENSG00000176124	ENST00000483169	processed_transcript	KNOWN	None	13747	None	None	50975362	50983258	1	DLB1, BCMS	LEU1, XTP6, NCRNA00021, LINC00021
13	DLEU1	ENSG00000176124	ENST00000469095	processed_transcript	KNOWN	None	13747	None	None	50975362	51102670	1	DLB1, BCMS	LEU1, XTP6, NCRNA00021, LINC00021
13	DLEU1	ENSG00000176124	ENST00000484869	processed_transcript	KNOWN	None	13747	None	None	50975362	51205735	1	DLB1, BCMS	LEU1, XTP6, NCRNA00021, LINC00021
13	DLEU1	ENSG00000176124	ENST00000498557	processed_transcript	KNOWN	None	13747	None	None	50989225	51049702	1	DLB1, BCMS	LEU1, XTP6, NCRNA00021, LINC00021
13	DLEU1	ENSG00000176124	ENST00000472136	processed_transcript	KNOWN	None	13747	None	None	50989225	51069605	1	DLB1, BCMS	LEU1, XTP6, NCRNA00021, LINC00021
13	DLEU1	ENSG00000176124	ENST00000470593	processed_transcript	KNOWN	None	13747	None	None	50989225	51102670	1	DLB1, BCMS	LEU1, XTP6, NCRNA00021, LINC00021
13	DLEU1	ENSG00000176124	ENST00000460525	processed_transcript	KNOWN	None	13747	None	None	50989225	51107997	1	DLB1, BCMS	LEU1, XTP6, NCRNA00021, LINC00021
13	DLEU1	ENSG00000176124	ENST00000462427	processed_transcript	KNOWN	None	13747	None	None	50989225	51107997	1	DLB1, BCMS	LEU1, XTP6, NCRNA00021, LINC00021
13	DLEU1	ENSG00000176124	ENST00000484606	processed_transcript	KNOWN	None	13747	None	None	51066780	51087029	1	DLB1, BCMS	LEU1, XTP6, NCRNA00021, LINC00021
8	None	ENSG00000253504	ENST00000517463	unprocessed_pseudogene	KNOWN	None	None	None	None	36135281	36136404	-1	None	None
15	None	ENSG00000215958	ENST00000401139	miRNA	NOVEL	None	None	None	None	70077754	70077843	-1	None	None
8	YWHAZ	ENSG00000164924	ENST00000395957	protein_coding	KNOWN	CCDS6290	12855	738	245	101928753	101965211	-1	YWHAD	KCIP-1, 14-3-3-zeta
8	YWHAZ	ENSG00000164924	ENST00000395956	protein_coding	KNOWN	CCDS6290	12855	738	245	101930911	101963677	-1	YWHAD	KCIP-1, 14-3-3-zeta
8	YWHAZ	ENSG00000164924	ENST00000353245	protein_coding	KNOWN	CCDS6290	12855	738	245	101930914	101965569	-1	YWHAD	KCIP-1, 14-3-3-zeta
8	YWHAZ	ENSG00000164924	ENST00000523848	nonsense_mediated_decay	KNOWN	None	12855	393	130	101931290	101937216	-1	YWHAD	KCIP-1, 14-3-3-zeta
8	YWHAZ	ENSG00000164924	ENST00000522542	protein_coding	PUTATIVE	None	12855	513	170	101932057	101960390	-1	YWHAD	KCIP-1, 14-3-3-zeta
8	YWHAZ	ENSG00000164924	ENST00000521309	protein_coding	PUTATIVE	None	12855	378	125	101932057	101964247	-1	YWHAD	KCIP-1, 14-3-3-zeta
8	YWHAZ	ENSG00000164924	ENST00000522819	protein_coding	PUTATIVE	None	12855	378	125	101932754	101947283	-1	YWHAD	KCIP-1, 14-3-3-zeta
8	YWHAZ	ENSG00000164924	ENST00000395953	protein_coding	KNOWN	CCDS6290	12855	738	245	101932815	101963822	-1	YWHAD	KCIP-1, 14-3-3-zeta
8	YWHAZ	ENSG00000164924	ENST00000395948	protein_coding	PUTATIVE	None	12855	507	168	101932831	101965218	-1	YWHAD	KCIP-1, 14-3-3-zeta
8	YWHAZ	ENSG00000164924	ENST00000395951	protein_coding	KNOWN	CCDS6290	12855	738	245	101932858	101962785	-1	YWHAD	KCIP-1, 14-3-3-zeta
8	YWHAZ	ENSG00000164924	ENST00000419477	protein_coding	KNOWN	CCDS6290	12855	738	245	101932870	101963504	-1	YWHAD	KCIP-1, 14-3-3-zeta
8	YWHAZ	ENSG00000164924	ENST00000521607	protein_coding	NOVEL	None	12855	739	245	101932944	101961128	-1	YWHAD	KCIP-1, 14-3-3-zeta
8	YWHAZ	ENSG00000164924	ENST00000480304	retained_intron	KNOWN	None	12855	None	None	101934666	101964197	-1	YWHAD	KCIP-1, 14-3-3-zeta
8	YWHAZ	ENSG00000164924	ENST00000518736	retained_intron	KNOWN	None	12855	None	None	101936213	101963823	-1	YWHAD	KCIP-1, 14-3-3-zeta
8	YWHAZ	ENSG00000164924	ENST00000517727	retained_intron	KNOWN	None	12855	None	None	101936215	101962768	-1	YWHAD	KCIP-1, 14-3-3-zeta
8	YWHAZ	ENSG00000164924	ENST00000521328	protein_coding	KNOWN	None	12855	412	136	101937150	101963224	-1	YWHAD	KCIP-1, 14-3-3-zeta
8	YWHAZ	ENSG00000164924	ENST00000418997	protein_coding	KNOWN	None	12855	294	97	101960824	101964847	-1	YWHAD	KCIP-1, 14-3-3-zeta
8	YWHAZ	ENSG00000164924	ENST00000437293	protein_coding	KNOWN	None	12855	276	91	101960842	101965111	-1	YWHAD	KCIP-1, 14-3-3-zeta
8	YWHAZ	ENSG00000164924	ENST00000523131	protein_coding	KNOWN	None	12855	227	74	101960891	101964832	-1	YWHAD	KCIP-1, 14-3-3-zeta
8	YWHAZ	ENSG00000164924	ENST00000523938	protein_coding	KNOWN	None	12855	155	50	101960963	101964780	-1	YWHAD	KCIP-1, 14-3-3-zeta
8	YWHAZ	ENSG00000164924	ENST00000492736	processed_transcript	KNOWN	None	12855	None	None	101964184	101965616	-1	YWHAD	KCIP-1, 14-3-3-zeta
8	YWHAZ	ENSG00000164924	ENST00000457309	protein_coding	KNOWN	CCDS6290	12855	738	245	101930807	101965221	-1	YWHAD	KCIP-1, 14-3-3-zeta
8	YWHAZ	ENSG00000164924	ENST00000395958	protein_coding	KNOWN	CCDS6290	12855	738	245	101930807	101964357	-1	YWHAD	KCIP-1, 14-3-3-zeta
X	None	ENSG00000241743	ENST00000468762	lincRNA	KNOWN	None	None	None	None	112859587	113181506	-1	None	None
X	None	ENSG00000263713	ENST00000401364	miRNA	NOVEL	None	None	None	None	149657798	149657884	-1	None	None
15	None	ENSG00000259496	ENST00000560960	processed_pseudogene	KNOWN	None	None	None	None	70095655	70096385	-1	None	None
14	YBX1P1	ENSG00000224861	ENST00000445822	processed_pseudogene	KNOWN	None	8015	None	None	66479548	66480507	-1	NSEP1P	PSDBPB1
15	C15orf57	ENSG00000128891	ENST00000560305	protein_coding	PUTATIVE	None	28295	450	149	40820882	40857210	-1	CCDC32	MGC20481
15	C15orf57	ENSG00000128891	ENST00000559153	nonsense_mediated_decay	KNOWN	CCDS10060	28295	558	185	40823530	40855226	-1	CCDC32	MGC20481
15	C15orf57	ENSG00000128891	ENST00000561011	protein_coding	PUTATIVE	None	28295	405	134	40823540	40857191	-1	CCDC32	MGC20481
15	C15orf57	ENSG00000128891	ENST00000559291	nonsense_mediated_decay	KNOWN	CCDS10060	28295	558	185	40826542	40857188	-1	CCDC32	MGC20481
15	C15orf57	ENSG00000128891	ENST00000559911	protein_coding	PUTATIVE	None	28295	612	203	40827099	40857210	-1	CCDC32	MGC20481
15	C15orf57	ENSG00000128891	ENST00000558113	protein_coding	PUTATIVE	None	28295	522	173	40831428	40857210	-1	CCDC32	MGC20481
15	C15orf57	ENSG00000128891	ENST00000358005	protein_coding	KNOWN	CCDS10060	28295	558	185	40845298	40857251	-1	CCDC32	MGC20481
15	C15orf57	ENSG00000128891	ENST00000416810	protein_coding	KNOWN	CCDS10060	28295	558	185	40845303	40857256	-1	CCDC32	MGC20481
15	C15orf57	ENSG00000128891	ENST00000558750	protein_coding	KNOWN	CCDS42022	28295	585	194	40846141	40857179	-1	CCDC32	MGC20481
15	C15orf57	ENSG00000128891	ENST00000558918	protein_coding	PUTATIVE	None	28295	252	83	40846179	40857218	-1	CCDC32	MGC20481
15	C15orf57	ENSG00000128891	ENST00000559103	protein_coding	KNOWN	None	28295	511	169	40846217	40857213	-1	CCDC32	MGC20481
15	C15orf57	ENSG00000128891	ENST00000558871	protein_coding	KNOWN	None	28295	405	134	40848820	40857241	-1	CCDC32	MGC20481
15	C15orf57	ENSG00000128891	ENST00000560109	processed_transcript	KNOWN	None	28295	None	None	40854180	40857234	-1	CCDC32	MGC20481
15	C15orf57	ENSG00000128891	ENST00000560535	processed_transcript	KNOWN	None	28295	None	None	40854198	40855002	-1	CCDC32	MGC20481
14	None	ENSG00000259374	ENST00000560510	transcribed_processed_pseudogene	KNOWN	None	None	None	None	103606012	103606406	1	None	None
14	None	ENSG00000259374	ENST00000600530	processed_transcript	KNOWN	None	None	None	None	103606218	103608296	1	None	None
8	RNU6-1084P	ENSG00000199368	ENST00000362498	snRNA	KNOWN	None	48047	None	None	11249920	11250026	-1	None	None
8	None	ENSG00000269954	ENST00000602626	lincRNA	KNOWN	None	None	None	None	11409997	11410500	-1	None	None
X	None	ENSG00000225722	ENST00000427883	processed_pseudogene	KNOWN	None	None	None	None	3871097	3871602	1	None	None
15	SRP14-AS1	ENSG00000248508	ENST00000504245	lincRNA	KNOWN	None	48619	None	None	40331512	40359491	1	None	None
15	SRP14-AS1	ENSG00000248508	ENST00000560341	lincRNA	KNOWN	None	48619	None	None	40331550	40349184	1	None	None
15	SRP14-AS1	ENSG00000248508	ENST00000559012	lincRNA	KNOWN	None	48619	None	None	40356588	40357906	1	None	None
HG730_PATCH	None	ENSG00000259816	ENST00000562085	protein_coding	PUTATIVE	None	None	336	111	20506764	20535765	-1	None	None
HG730_PATCH	None	ENSG00000259816	ENST00000568747	protein_coding	NOVEL	None	None	543	180	20509531	20535597	-1	None	None
14	None	ENSG00000157306	ENST00000556354	antisense	KNOWN	None	None	None	None	23980969	24028369	1	None	None
14	None	ENSG00000157306	ENST00000556613	antisense	KNOWN	None	None	None	None	23981981	23983762	1	None	None
14	None	ENSG00000157306	ENST00000553985	antisense	KNOWN	None	None	None	None	23982026	24029987	1	None	None
14	None	ENSG00000157306	ENST00000557568	antisense	KNOWN	None	None	None	None	23982396	23983719	1	None	None
14	None	ENSG00000157306	ENST00000554403	antisense	KNOWN	None	None	None	None	23982558	24013485	1	None	None
14	None	ENSG00000157306	ENST00000555446	antisense	KNOWN	None	None	None	None	24025197	24028118	1	None	None
14	None	ENSG00000258874	ENST00000555680	antisense	KNOWN	None	None	None	None	79169958	79176277	-1	None	None
14	None	ENSG00000258478	ENST00000553628	antisense	KNOWN	None	None	None	None	79210741	79220221	-1	None	None
22	GGT5	ENSG00000099998	ENST00000263112	protein_coding	KNOWN	CCDS42989	4260	1665	554	24615622	24641046	-1	GGTLA1	GGT-REL
22	GGT5	ENSG00000099998	ENST00000327365	protein_coding	KNOWN	CCDS13825	4260	1761	586	24615622	24641110	-1	GGTLA1	GGT-REL
22	GGT5	ENSG00000099998	ENST00000425408	protein_coding	PUTATIVE	None	4260	662	219	24615628	24622080	-1	GGTLA1	GGT-REL
22	GGT5	ENSG00000099998	ENST00000398292	protein_coding	KNOWN	CCDS42990	4260	1764	587	24615628	24641027	-1	GGTLA1	GGT-REL
22	GGT5	ENSG00000099998	ENST00000424217	protein_coding	PUTATIVE	None	4260	219	72	24628941	24641050	-1	GGTLA1	GGT-REL
22	GGT5	ENSG00000099998	ENST00000418439	protein_coding	KNOWN	None	4260	1533	510	24615708	24641050	-1	GGTLA1	GGT-REL
X	None	ENSG00000264861	ENST00000584731	miRNA	NOVEL	None	None	None	None	4501463	4501541	-1	None	None
8	MTND6P19	ENSG00000254384	ENST00000519399	unprocessed_pseudogene	KNOWN	None	39482	None	None	36136478	36137001	1	None	None
15	RNU6-1108P	ENSG00000252117	ENST00000516308	snRNA	KNOWN	None	48071	None	None	45219798	45219901	-1	None	None
13	CCT5P2	ENSG00000230584	ENST00000432974	processed_pseudogene	KNOWN	None	35139	None	None	79483054	79484677	1	None	None
X	None	ENSG00000236513	ENST00000420725	lincRNA	KNOWN	None	None	None	None	4545241	4551613	-1	None	None
18	ZNF532	ENSG00000074657	ENST00000336078	protein_coding	KNOWN	CCDS11969	30940	3906	1301	56529832	56653712	1	None	FLJ10697
18	ZNF532	ENSG00000074657	ENST00000591083	protein_coding	KNOWN	CCDS11969	30940	3906	1301	56530180	56652770	1	None	FLJ10697
18	ZNF532	ENSG00000074657	ENST00000588601	protein_coding	KNOWN	None	30940	281	92	56530715	56585800	1	None	FLJ10697
18	ZNF532	ENSG00000074657	ENST00000590285	protein_coding	KNOWN	None	30940	244	80	56530794	56585763	1	None	FLJ10697
18	ZNF532	ENSG00000074657	ENST00000586085	protein_coding	KNOWN	None	30940	205	67	56530836	56585724	1	None	FLJ10697
18	ZNF532	ENSG00000074657	ENST00000589288	protein_coding	KNOWN	CCDS11969	30940	3906	1301	56530845	56653176	1	None	FLJ10697
18	ZNF532	ENSG00000074657	ENST00000591230	protein_coding	KNOWN	CCDS11969	30940	3906	1301	56531323	56651888	1	None	FLJ10697
18	ZNF532	ENSG00000074657	ENST00000588543	protein_coding	KNOWN	None	30940	220	72	56531325	56585739	1	None	FLJ10697
18	ZNF532	ENSG00000074657	ENST00000590287	protein_coding	KNOWN	None	30940	321	106	56531641	56585840	1	None	FLJ10697
18	ZNF532	ENSG00000074657	ENST00000591808	protein_coding	KNOWN	CCDS11969	30940	3906	1301	56531856	56652074	1	None	FLJ10697
18	ZNF532	ENSG00000074657	ENST00000592452	protein_coding	KNOWN	None	30940	356	117	56532053	56585875	1	None	FLJ10697
18	ZNF532	ENSG00000074657	ENST00000588456	protein_coding	KNOWN	None	30940	374	123	56532109	56585893	1	None	FLJ10697
18	ZNF532	ENSG00000074657	ENST00000589481	protein_coding	KNOWN	None	30940	364	120	56532120	56585883	1	None	FLJ10697
18	ZNF532	ENSG00000074657	ENST00000591049	protein_coding	KNOWN	None	30940	481	159	56532126	56586000	1	None	FLJ10697
18	ZNF532	ENSG00000074657	ENST00000587755	protein_coding	PUTATIVE	None	30940	408	135	56532786	56585840	1	None	FLJ10697
18	ZNF532	ENSG00000074657	ENST00000590157	nonsense_mediated_decay	KNOWN	None	30940	355	117	56587562	56601810	1	None	FLJ10697
18	ZNF532	ENSG00000074657	ENST00000589156	nonsense_mediated_decay	KNOWN	None	30940	351	116	56587566	56599747	1	None	FLJ10697
18	ZNF532	ENSG00000074657	ENST00000586997	protein_coding	NOVEL	None	30940	372	123	56587755	56648849	1	None	FLJ10697
18	ZNF532	ENSG00000074657	ENST00000586158	retained_intron	KNOWN	None	30940	None	None	56601464	56615313	1	None	FLJ10697
18	ZNF532	ENSG00000074657	ENST00000589403	processed_transcript	KNOWN	None	30940	None	None	56606745	56607662	1	None	FLJ10697
18	ZNF532	ENSG00000074657	ENST00000585662	nonsense_mediated_decay	KNOWN	None	30940	388	128	56615416	56648757	1	None	FLJ10697
18	ZNF532	ENSG00000074657	ENST00000592249	processed_transcript	KNOWN	None	30940	None	None	56620416	56652031	1	None	FLJ10697
18	ZNF532	ENSG00000074657	ENST00000589131	processed_transcript	KNOWN	None	30940	None	None	56631318	56651326	1	None	FLJ10697
18	ZNF532	ENSG00000074657	ENST00000586723	retained_intron	KNOWN	None	30940	None	None	56631349	56646723	1	None	FLJ10697
18	ZNF532	ENSG00000074657	ENST00000588956	processed_transcript	KNOWN	None	30940	None	None	56644722	56652298	1	None	FLJ10697
18	ZNF532	ENSG00000074657	ENST00000590442	retained_intron	KNOWN	None	30940	None	None	56646799	56653176	1	None	FLJ10697
HG686_PATCH	None	ENSG00000261522	ENST00000562821	processed_transcript	KNOWN	None	None	None	None	95339723	95350930	-1	None	None
HG686_PATCH	None	ENSG00000261522	ENST00000562856	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	95346620	95349220	-1	None	None
15	LINC00929	ENSG00000259150	ENST00000556213	lincRNA	KNOWN	None	48615	None	None	26360960	26378173	1	None	None
15	LINC00929	ENSG00000259150	ENST00000556159	lincRNA	KNOWN	None	48615	None	None	26360972	26371518	1	None	None
15	LINC00929	ENSG00000259150	ENST00000557523	lincRNA	KNOWN	None	48615	None	None	26361058	26361819	1	None	None
15	LINC00929	ENSG00000259150	ENST00000557672	lincRNA	KNOWN	None	48615	None	None	26363855	26378184	1	None	None
15	LINC00929	ENSG00000259150	ENST00000553382	lincRNA	KNOWN	None	48615	None	None	26376819	26378172	1	None	None
6	DSP	ENSG00000096696	ENST00000379802	protein_coding	KNOWN	CCDS4501	3052	8616	2871	7541808	7586950	1	None	KPPS2, PPKS2, DPI, DPII
6	DSP	ENSG00000096696	ENST00000418664	protein_coding	KNOWN	CCDS47368	3052	6819	2272	7541850	7586805	1	None	KPPS2, PPKS2, DPI, DPII
6	DSP	ENSG00000096696	ENST00000506617	retained_intron	KNOWN	None	3052	None	None	7559519	7566050	1	None	KPPS2, PPKS2, DPI, DPII
X	None	ENSG00000228728	ENST00000430535	processed_pseudogene	KNOWN	None	None	None	None	149987226	149987719	1	None	None
X	IL13RA1	ENSG00000131724	ENST00000371666	protein_coding	KNOWN	CCDS14573	5974	1284	427	117861535	117928502	1	None	IL-13Ra, NR4, CD213a1
X	IL13RA1	ENSG00000131724	ENST00000371642	protein_coding	KNOWN	None	5974	840	279	117861565	117895483	1	None	IL-13Ra, NR4, CD213a1
X	IL13RA1	ENSG00000131724	ENST00000481868	processed_transcript	KNOWN	None	5974	None	None	117883666	117900860	1	None	IL-13Ra, NR4, CD213a1
X	IL13RA1	ENSG00000131724	ENST00000371637	protein_coding	KNOWN	None	5974	681	226	117903619	117926324	1	None	IL-13Ra, NR4, CD213a1
14	None	ENSG00000258829	ENST00000553348	antisense	KNOWN	None	None	None	None	79538475	79541105	-1	None	None
14	None	ENSG00000258829	ENST00000556145	antisense	KNOWN	None	None	None	None	79538510	79541110	-1	None	None
X	None	ENSG00000222834	ENST00000410902	miRNA	NOVEL	None	None	None	None	4636834	4636955	-1	None	None
HSCHR6_MHC_MANN	C6orf25	ENSG00000228090	ENST00000494970	retained_intron	KNOWN	None	13937	None	None	31725863	31733980	1	None	G6b, NG31
HSCHR6_MHC_MANN	C6orf25	ENSG00000228090	ENST00000438769	protein_coding	KNOWN	None	13937	714	237	31730642	31733980	1	None	G6b, NG31
HSCHR6_MHC_MANN	C6orf25	ENSG00000228090	ENST00000442871	protein_coding	KNOWN	None	13937	654	217	31730653	31733980	1	None	G6b, NG31
HSCHR6_MHC_MANN	C6orf25	ENSG00000228090	ENST00000411608	protein_coding	KNOWN	None	13937	582	193	31730653	31733980	1	None	G6b, NG31
HSCHR6_MHC_MANN	C6orf25	ENSG00000228090	ENST00000433769	protein_coding	KNOWN	None	13937	594	197	31730653	31733980	1	None	G6b, NG31
HSCHR6_MHC_MANN	C6orf25	ENSG00000228090	ENST00000464826	retained_intron	KNOWN	None	13937	None	None	31730653	31733980	1	None	G6b, NG31
HSCHR6_MHC_MANN	C6orf25	ENSG00000228090	ENST00000475000	retained_intron	KNOWN	None	13937	None	None	31730653	31733980	1	None	G6b, NG31
HSCHR6_MHC_MANN	C6orf25	ENSG00000228090	ENST00000441161	protein_coding	KNOWN	None	13937	726	241	31730653	31733980	1	None	G6b, NG31
13	NIPA2P5	ENSG00000236277	ENST00000452282	processed_pseudogene	KNOWN	None	42045	None	None	79664918	79668254	1	None	None
X	MTND6P12	ENSG00000235039	ENST00000428247	processed_pseudogene	KNOWN	None	39475	None	None	5086959	5087480	-1	None	None
8	None	ENSG00000253195	ENST00000519172	unprocessed_pseudogene	KNOWN	None	None	None	None	43397219	43399200	1	None	None
GL000205.1	None	ENSG00000212884	ENST00000391571	protein_coding	KNOWN	None	None	450	149	117169	119085	1	None	None
14	None	ENSG00000258502	ENST00000554187	lincRNA	KNOWN	None	None	None	None	66578299	66590424	1	None	None
14	None	ENSG00000258502	ENST00000556662	lincRNA	KNOWN	None	None	None	None	66578349	66589911	1	None	None
14	None	ENSG00000258502	ENST00000556291	lincRNA	KNOWN	None	None	None	None	66578349	66590477	1	None	None
14	None	ENSG00000258502	ENST00000557723	lincRNA	KNOWN	None	None	None	None	66578349	66592565	1	None	None
14	None	ENSG00000258502	ENST00000557050	lincRNA	KNOWN	None	None	None	None	66578353	66589917	1	None	None
13	BCAS2P3	ENSG00000226670	ENST00000416374	processed_pseudogene	KNOWN	None	39596	None	None	79740254	79741020	1	None	None
15	RNU6-1332P	ENSG00000252475	ENST00000516666	snRNA	KNOWN	None	48295	None	None	45255028	45255131	1	None	None
GL000205.1	None	ENSG00000206750	ENST00000384023	misc_RNA	NOVEL	None	None	None	None	81439	81539	1	None	None
18	None	ENSG00000265844	ENST00000584843	lincRNA	KNOWN	None	None	None	None	74892062	74947386	1	None	None
15	None	ENSG00000259304	ENST00000559765	processed_pseudogene	KNOWN	None	None	None	None	45262233	45263376	-1	None	None
13	RNA5SP33	ENSG00000252496	ENST00000516687	rRNA	KNOWN	None	42609	None	None	79963669	79963766	-1	RN5S33	None
5	AMACR	ENSG00000242110	ENST00000335606	protein_coding	KNOWN	CCDS3902	451	1149	382	33986283	34008213	-1	None	RACE
5	AMACR	ENSG00000242110	ENST00000382072	protein_coding	KNOWN	CCDS3903	451	597	198	33987279	34008136	-1	None	RACE
5	AMACR	ENSG00000242110	ENST00000506639	nonsense_mediated_decay	KNOWN	None	451	690	229	33988189	34008136	-1	None	RACE
5	AMACR	ENSG00000242110	ENST00000514195	processed_transcript	PUTATIVE	None	451	None	None	33988189	34008136	-1	None	RACE
5	AMACR	ENSG00000242110	ENST00000382085	protein_coding	PUTATIVE	CCDS54836	451	1185	394	33988412	34008133	-1	None	RACE
5	AMACR	ENSG00000242110	ENST00000502637	protein_coding	NOVEL	None	451	1104	367	33988789	34008209	-1	None	RACE
5	AMACR	ENSG00000242110	ENST00000426255	processed_transcript	KNOWN	None	451	None	None	33997112	34008189	-1	None	RACE
5	AMACR	ENSG00000242110	ENST00000512079	processed_transcript	KNOWN	None	451	None	None	33997309	34008133	-1	None	RACE
5	AMACR	ENSG00000242110	ENST00000382068	processed_transcript	KNOWN	None	451	None	None	33997349	34008133	-1	None	RACE
5	AMACR	ENSG00000242110	ENST00000441713	protein_coding	KNOWN	None	451	690	229	33994114	34008220	-1	None	RACE
HG686_PATCH	CNN2P11	ENSG00000261381	ENST00000569660	processed_pseudogene	KNOWN	None	39536	None	None	95489421	95489682	-1	None	None
X	None	ENSG00000226313	ENST00000440559	processed_pseudogene	KNOWN	None	None	None	None	5087553	5088686	1	None	None
9	DENND1A	ENSG00000119522	ENST00000473039	processed_transcript	KNOWN	None	29324	None	None	126141933	126560794	-1	KIAA1608	FLJ21129, FAM31A
9	DENND1A	ENSG00000119522	ENST00000373624	protein_coding	KNOWN	CCDS35133	29324	3030	1009	126141933	126692386	-1	KIAA1608	FLJ21129, FAM31A
9	DENND1A	ENSG00000119522	ENST00000373620	protein_coding	KNOWN	CCDS35134	29324	1680	559	126162378	126692405	-1	KIAA1608	FLJ21129, FAM31A
9	DENND1A	ENSG00000119522	ENST00000475421	processed_transcript	KNOWN	None	29324	None	None	126163827	126165852	-1	KIAA1608	FLJ21129, FAM31A
9	DENND1A	ENSG00000119522	ENST00000491650	processed_transcript	KNOWN	None	29324	None	None	126165754	126371732	-1	KIAA1608	FLJ21129, FAM31A
9	DENND1A	ENSG00000119522	ENST00000497135	processed_transcript	KNOWN	None	29324	None	None	126173572	126345496	-1	KIAA1608	FLJ21129, FAM31A
9	DENND1A	ENSG00000119522	ENST00000373618	protein_coding	KNOWN	None	29324	1401	466	126175550	126692431	-1	KIAA1608	FLJ21129, FAM31A
9	DENND1A	ENSG00000119522	ENST00000479305	processed_transcript	KNOWN	None	29324	None	None	126199926	126224302	-1	KIAA1608	FLJ21129, FAM31A
9	DENND1A	ENSG00000119522	ENST00000462245	processed_transcript	KNOWN	None	29324	None	None	126202006	126219657	-1	KIAA1608	FLJ21129, FAM31A
9	DENND1A	ENSG00000119522	ENST00000474676	processed_transcript	KNOWN	None	29324	None	None	126331824	126520038	-1	KIAA1608	FLJ21129, FAM31A
9	DENND1A	ENSG00000119522	ENST00000475615	processed_transcript	KNOWN	None	29324	None	None	126392675	126414570	-1	KIAA1608	FLJ21129, FAM31A
9	DENND1A	ENSG00000119522	ENST00000394219	protein_coding	KNOWN	None	29324	3063	1020	126143616	126692393	-1	KIAA1608	FLJ21129, FAM31A
9	DENND1A	ENSG00000119522	ENST00000542603	protein_coding	KNOWN	None	29324	2385	794	126143608	126414330	-1	KIAA1608	FLJ21129, FAM31A
9	DENND1A	ENSG00000119522	ENST00000394215	protein_coding	KNOWN	None	29324	1590	529	126163870	126692417	-1	KIAA1608	FLJ21129, FAM31A
18	None	ENSG00000264015	ENST00000583629	lincRNA	KNOWN	None	None	None	None	75133575	75272719	1	None	None
9	PTPDC1	ENSG00000158079	ENST00000375360	protein_coding	KNOWN	CCDS6707	30184	2265	754	96793076	96872138	1	None	PTP9Q22, FLJ37312
9	PTPDC1	ENSG00000158079	ENST00000288976	protein_coding	PUTATIVE	CCDS6708	30184	2421	806	96846746	96872136	1	None	PTP9Q22, FLJ37312
9	PTPDC1	ENSG00000158079	ENST00000467049	processed_transcript	KNOWN	None	30184	None	None	96862369	96870194	1	None	PTP9Q22, FLJ37312
10	LZTS2	ENSG00000107816	ENST00000426584	protein_coding	KNOWN	None	29381	720	239	102756375	102763575	1	None	KIAA1813, LAPSER1
10	LZTS2	ENSG00000107816	ENST00000370223	protein_coding	KNOWN	CCDS7507	29381	2010	669	102756829	102767593	1	None	KIAA1813, LAPSER1
10	LZTS2	ENSG00000107816	ENST00000489526	retained_intron	KNOWN	None	29381	None	None	102756871	102762934	1	None	KIAA1813, LAPSER1
10	LZTS2	ENSG00000107816	ENST00000429732	protein_coding	KNOWN	None	29381	596	197	102758105	102763451	1	None	KIAA1813, LAPSER1
10	LZTS2	ENSG00000107816	ENST00000481129	protein_coding	KNOWN	None	29381	408	135	102758444	102762703	1	None	KIAA1813, LAPSER1
10	LZTS2	ENSG00000107816	ENST00000370220	protein_coding	KNOWN	CCDS7507	29381	2010	669	102759233	102767593	1	None	KIAA1813, LAPSER1
10	LZTS2	ENSG00000107816	ENST00000454422	protein_coding	KNOWN	None	29381	662	219	102759610	102763517	1	None	KIAA1813, LAPSER1
14	PHKBP2	ENSG00000258467	ENST00000555180	unprocessed_pseudogene	KNOWN	None	8929	None	None	37002711	37003743	-1	None	None
14	None	ENSG00000258419	ENST00000555291	sense_intronic	KNOWN	None	None	None	None	79666325	79667975	1	None	None
18	None	ENSG00000199392	ENST00000362522	snoRNA	NOVEL	None	None	None	None	75143519	75143645	-1	None	None
13	RBM26-AS1	ENSG00000227354	ENST00000456602	antisense	KNOWN	None	39805	None	None	79980444	79997090	1	None	None
13	RBM26-AS1	ENSG00000227354	ENST00000606584	antisense	KNOWN	None	39805	None	None	79980452	79996852	1	None	None
13	RBM26-AS1	ENSG00000227354	ENST00000606049	antisense	KNOWN	None	39805	None	None	79980483	79998463	1	None	None
13	RBM26-AS1	ENSG00000227354	ENST00000607864	antisense	KNOWN	None	39805	None	None	79980499	79992001	1	None	None
8	None	ENSG00000253685	ENST00000517498	unprocessed_pseudogene	KNOWN	None	None	None	None	36137009	36137214	-1	None	None
8	None	ENSG00000221295	ENST00000408368	miRNA	NOVEL	None	None	None	None	43415811	43415916	1	None	None
18	BDP1P	ENSG00000264736	ENST00000582658	processed_pseudogene	KNOWN	None	31044	None	None	75147209	75149198	-1	None	None
X	None	ENSG00000260683	ENST00000561587	lincRNA	KNOWN	None	None	None	None	126794612	126796511	-1	None	None
X	None	ENSG00000253009	ENST00000517200	snoRNA	NOVEL	None	None	None	None	150070594	150070709	1	None	None
HG730_PATCH	ZNF737	ENSG00000262578	ENST00000571873	protein_coding	KNOWN	None	32468	1611	536	20655401	20676449	-1	None	ZNF102
8	None	ENSG00000253610	ENST00000522549	processed_pseudogene	KNOWN	None	None	None	None	36165763	36165882	1	None	None
8	None	ENSG00000254774	ENST00000527922	antisense	KNOWN	None	None	None	None	11410733	11411716	-1	None	None
18	None	ENSG00000264693	ENST00000581626	lincRNA	KNOWN	None	None	None	None	75334508	75336471	1	None	None
HG996_PATCH	None	ENSG00000260901	ENST00000562093	antisense	KNOWN	None	None	None	None	132858380	132859892	1	None	None
X	None	ENSG00000235274	ENST00000417272	processed_pseudogene	KNOWN	None	None	None	None	126862715	126864839	-1	None	None
X	None	ENSG00000230153	ENST00000437772	lincRNA	KNOWN	None	None	None	None	150084286	150089411	1	None	None
X	None	ENSG00000230153	ENST00000424539	lincRNA	KNOWN	None	None	None	None	150085636	150089411	1	None	None
18	None	ENSG00000271702	ENST00000603459	processed_pseudogene	KNOWN	None	None	None	None	75344884	75345316	-1	None	None
13	NDFIP2-AS1	ENSG00000232132	ENST00000457171	antisense	KNOWN	None	40844	None	None	80051499	80055366	-1	None	None
19	PCSK4	ENSG00000115257	ENST00000591201	nonsense_mediated_decay	KNOWN	None	8746	955	317	1481427	1490334	-1	None	PC4, SPC5, DKFZp434B217, MGC34749
19	PCSK4	ENSG00000115257	ENST00000441747	retained_intron	KNOWN	None	8746	None	None	1481427	1490341	-1	None	PC4, SPC5, DKFZp434B217, MGC34749
19	PCSK4	ENSG00000115257	ENST00000300954	protein_coding	KNOWN	CCDS12069	8746	2268	755	1481427	1490407	-1	None	PC4, SPC5, DKFZp434B217, MGC34749
19	PCSK4	ENSG00000115257	ENST00000586616	retained_intron	KNOWN	None	8746	None	None	1481427	1490410	-1	None	PC4, SPC5, DKFZp434B217, MGC34749
19	PCSK4	ENSG00000115257	ENST00000586074	retained_intron	KNOWN	None	8746	None	None	1481985	1482666	-1	None	PC4, SPC5, DKFZp434B217, MGC34749
19	PCSK4	ENSG00000115257	ENST00000588195	nonsense_mediated_decay	KNOWN	None	8746	1578	525	1482410	1490404	-1	None	PC4, SPC5, DKFZp434B217, MGC34749
19	PCSK4	ENSG00000115257	ENST00000591303	nonsense_mediated_decay	KNOWN	None	8746	396	131	1482438	1483843	-1	None	PC4, SPC5, DKFZp434B217, MGC34749
19	PCSK4	ENSG00000115257	ENST00000586002	retained_intron	KNOWN	None	8746	None	None	1483497	1484126	-1	None	PC4, SPC5, DKFZp434B217, MGC34749
19	PCSK4	ENSG00000115257	ENST00000587784	processed_transcript	KNOWN	None	8746	None	None	1487197	1490751	-1	None	PC4, SPC5, DKFZp434B217, MGC34749
19	PCSK4	ENSG00000115257	ENST00000588671	protein_coding	NOVEL	None	8746	689	228	1487217	1490404	-1	None	PC4, SPC5, DKFZp434B217, MGC34749
19	PCSK4	ENSG00000115257	ENST00000590057	processed_transcript	KNOWN	None	8746	None	None	1487783	1490736	-1	None	PC4, SPC5, DKFZp434B217, MGC34749
19	PCSK4	ENSG00000115257	ENST00000591687	processed_transcript	KNOWN	None	8746	None	None	1487962	1490445	-1	None	PC4, SPC5, DKFZp434B217, MGC34749
8	None	ENSG00000255518	ENST00000528629	antisense	KNOWN	None	None	None	None	11413760	11415531	-1	None	None
GL000205.1	None	ENSG00000215705	ENST00000389974	pseudogene	NOVEL	None	None	None	None	122920	123169	1	None	None
18	RNA5SP461	ENSG00000252260	ENST00000516451	rRNA	KNOWN	None	43361	None	None	75575420	75575523	-1	RN5S461	None
10	FAM25B	ENSG00000189090	ENST00000481177	processed_transcript	KNOWN	None	23584	None	None	47177204	47180395	-1	None	bA144G6.8
10	FAM25B	ENSG00000189090	ENST00000452267	protein_coding	KNOWN	CCDS44378	23584	270	89	47177204	47181681	-1	None	bA144G6.8
13	None	ENSG00000227676	ENST00000450187	lincRNA	KNOWN	None	None	None	None	80140881	80144983	1	None	None
5	WDR70	ENSG00000082068	ENST00000265107	protein_coding	KNOWN	CCDS34147	25495	1965	654	37379314	37753537	1	None	FLJ10233
5	WDR70	ENSG00000082068	ENST00000504564	protein_coding	PUTATIVE	None	25495	1164	387	37379387	37698009	1	None	FLJ10233
5	WDR70	ENSG00000082068	ENST00000511906	retained_intron	KNOWN	None	25495	None	None	37379390	37752774	1	None	FLJ10233
5	WDR70	ENSG00000082068	ENST00000505799	retained_intron	KNOWN	None	25495	None	None	37379404	37381911	1	None	FLJ10233
5	WDR70	ENSG00000082068	ENST00000510699	processed_transcript	KNOWN	None	25495	None	None	37479572	37703106	1	None	FLJ10233
5	WDR70	ENSG00000082068	ENST00000507136	retained_intron	KNOWN	None	25495	None	None	37722745	37752774	1	None	FLJ10233
5	WDR70	ENSG00000082068	ENST00000508730	retained_intron	KNOWN	None	25495	None	None	37724945	37752772	1	None	FLJ10233
8	RNU6-533P	ENSG00000206871	ENST00000384144	snRNA	KNOWN	None	47496	None	None	36167102	36167208	-1	None	None
HG686_PATCH	None	ENSG00000260813	ENST00000565856	processed_pseudogene	KNOWN	None	None	None	None	95498403	95499591	-1	None	None
5	SLC1A3	ENSG00000079215	ENST00000265113	protein_coding	KNOWN	CCDS3919	10941	1629	542	36606457	36688436	1	None	EAAT1, GLAST, EA6
5	SLC1A3	ENSG00000079215	ENST00000513903	protein_coding	KNOWN	None	10941	304	100	36606541	36629674	1	None	EAAT1, GLAST, EA6
5	SLC1A3	ENSG00000079215	ENST00000504121	retained_intron	KNOWN	None	10941	None	None	36606713	36608800	1	None	EAAT1, GLAST, EA6
5	SLC1A3	ENSG00000079215	ENST00000512374	retained_intron	KNOWN	None	10941	None	None	36606713	36609401	1	None	EAAT1, GLAST, EA6
5	SLC1A3	ENSG00000079215	ENST00000416645	protein_coding	PUTATIVE	None	10941	344	113	36606719	36613010	1	None	EAAT1, GLAST, EA6
5	SLC1A3	ENSG00000079215	ENST00000506725	processed_transcript	KNOWN	None	10941	None	None	36606719	36613589	1	None	EAAT1, GLAST, EA6
5	SLC1A3	ENSG00000079215	ENST00000505202	protein_coding	KNOWN	None	10941	320	105	36606992	36629690	1	None	EAAT1, GLAST, EA6
5	SLC1A3	ENSG00000079215	ENST00000513646	protein_coding	KNOWN	None	10941	320	105	36608280	36629690	1	None	EAAT1, GLAST, EA6
5	SLC1A3	ENSG00000079215	ENST00000502864	processed_transcript	KNOWN	None	10941	None	None	36608592	36630575	1	None	EAAT1, GLAST, EA6
5	SLC1A3	ENSG00000079215	ENST00000514563	processed_transcript	KNOWN	None	10941	None	None	36612912	36671286	1	None	EAAT1, GLAST, EA6
5	SLC1A3	ENSG00000079215	ENST00000509272	processed_transcript	KNOWN	None	10941	None	None	36613201	36671336	1	None	EAAT1, GLAST, EA6
5	SLC1A3	ENSG00000079215	ENST00000505376	processed_transcript	KNOWN	None	10941	None	None	36670923	36677229	1	None	EAAT1, GLAST, EA6
5	SLC1A3	ENSG00000079215	ENST00000506178	retained_intron	KNOWN	None	10941	None	None	36680449	36686335	1	None	EAAT1, GLAST, EA6
5	SLC1A3	ENSG00000079215	ENST00000381918	protein_coding	KNOWN	CCDS54844	10941	1494	497	36608431	36688434	1	None	EAAT1, GLAST, EA6
14	RPL29P3	ENSG00000243730	ENST00000486611	processed_pseudogene	KNOWN	None	23565	None	None	37046748	37047210	-1	None	None
15	None	ENSG00000259584	ENST00000560376	lincRNA	KNOWN	None	None	None	None	40367405	40370905	-1	None	None
18	None	ENSG00000265843	ENST00000577408	lincRNA	KNOWN	None	None	None	None	75683250	75684498	-1	None	None
18	None	ENSG00000265843	ENST00000583106	lincRNA	KNOWN	None	None	None	None	75683460	75694795	-1	None	None
18	None	ENSG00000265843	ENST00000582805	lincRNA	KNOWN	None	None	None	None	75683770	75705678	-1	None	None
18	None	ENSG00000265843	ENST00000578833	lincRNA	KNOWN	None	None	None	None	75698830	75705654	-1	None	None
GL000205.1	None	ENSG00000221666	ENST00000408739	miRNA	NOVEL	None	None	None	None	136235	136317	-1	None	None
18	None	ENSG00000260779	ENST00000562202	antisense	KNOWN	None	None	None	None	10661930	10666884	1	None	None
8	None	ENSG00000255354	ENST00000533322	antisense	KNOWN	None	None	None	None	11415975	11417529	-1	None	None
10	SLC25A16	ENSG00000122912	ENST00000265870	protein_coding	KNOWN	CCDS7280	10986	999	332	70242521	70287231	-1	None	GDA, D10S105E, HGT.1, ML7
10	SLC25A16	ENSG00000122912	ENST00000493963	processed_transcript	KNOWN	None	10986	None	None	70243232	70287195	-1	None	GDA, D10S105E, HGT.1, ML7
10	SLC25A16	ENSG00000122912	ENST00000474927	processed_transcript	KNOWN	None	10986	None	None	70252931	70266362	-1	None	GDA, D10S105E, HGT.1, ML7
10	SLC25A16	ENSG00000122912	ENST00000491102	processed_transcript	KNOWN	None	10986	None	None	70266399	70277099	-1	None	GDA, D10S105E, HGT.1, ML7
10	SLC25A16	ENSG00000122912	ENST00000539557	protein_coding	KNOWN	None	10986	705	234	70242767	70287173	-1	None	GDA, D10S105E, HGT.1, ML7
14	RN7SKP257	ENSG00000201395	ENST00000364525	misc_RNA	KNOWN	None	45981	None	None	37063044	37063352	-1	None	None
18	None	ENSG00000264843	ENST00000584167	antisense	KNOWN	None	None	None	None	10704295	10709597	1	None	None
X	None	ENSG00000224548	ENST00000446793	processed_pseudogene	KNOWN	None	None	None	None	126930105	126930714	1	None	None
HG730_PATCH	ZNF626	ENSG00000262249	ENST00000576839	protein_coding	KNOWN	None	30461	1587	528	20735099	20772255	-1	None	None
HG730_PATCH	ZNF626	ENSG00000262249	ENST00000575791	protein_coding	KNOWN	None	30461	279	92	20755511	20772405	-1	None	None
18	None	ENSG00000264714	ENST00000584346	transcribed_processed_pseudogene	KNOWN	None	None	None	None	10724617	10726934	1	None	None
18	None	ENSG00000264714	ENST00000581724	processed_transcript	KNOWN	None	None	None	None	10726630	10728537	1	None	None
8	LINC00208	ENSG00000170983	ENST00000304233	lincRNA	KNOWN	None	15535	None	None	11433822	11438851	1	C8orf14, NCRNA00208	None
GL000205.1	None	ENSG00000221397	ENST00000408470	miRNA	NOVEL	None	None	None	None	138777	138857	-1	None	None
4	OSTC	ENSG00000198856	ENST00000361564	protein_coding	KNOWN	CCDS3681	24448	450	149	109571740	109588976	1	None	DC2
4	OSTC	ENSG00000198856	ENST00000510556	processed_transcript	KNOWN	None	24448	None	None	109571783	109578768	1	None	DC2
4	OSTC	ENSG00000198856	ENST00000505745	processed_transcript	KNOWN	None	24448	None	None	109571789	109572652	1	None	DC2
4	OSTC	ENSG00000198856	ENST00000512478	protein_coding	PUTATIVE	CCDS58921	24448	516	171	109571803	109588551	1	None	DC2
14	None	ENSG00000258661	ENST00000555107	antisense	KNOWN	None	None	None	None	37116288	37128006	-1	None	None
22	TOMM22	ENSG00000100216	ENST00000216034	protein_coding	KNOWN	CCDS13975	18002	429	142	39077953	39080818	1	None	TOM22
22	TOMM22	ENSG00000100216	ENST00000492561	retained_intron	KNOWN	None	18002	None	None	39078177	39080165	1	None	TOM22
HG996_PATCH	None	ENSG00000261148	ENST00000567280	antisense	PUTATIVE	None	None	None	None	132910881	132912606	1	None	None
18	None	ENSG00000263952	ENST00000579321	antisense	KNOWN	None	None	None	None	10893615	10894803	1	None	None
18	None	ENSG00000263952	ENST00000584321	antisense	KNOWN	None	None	None	None	10893615	10908781	1	None	None
X	None	ENSG00000236042	ENST00000436514	processed_pseudogene	KNOWN	None	None	None	None	127232011	127232508	-1	None	None
HG686_PATCH	CNN2P8	ENSG00000260998	ENST00000569791	processed_pseudogene	KNOWN	None	39533	None	None	95501084	95501996	1	None	None
8	SUB1P1	ENSG00000227203	ENST00000524415	processed_pseudogene	KNOWN	None	32300	None	None	11647514	11647895	1	None	None
8	SUB1P1	ENSG00000227203	ENST00000424509	processed_pseudogene	KNOWN	None	32300	None	None	11647514	11647897	1	None	None
4	ZBTB12P1	ENSG00000180610	ENST00000314232	processed_pseudogene	KNOWN	None	37702	None	None	39771701	39772991	-1	ZBTB12B	ZNF920
4	ZBTB12P1	ENSG00000180610	ENST00000535877	processed_pseudogene	KNOWN	None	37702	None	None	39771710	39773000	-1	ZBTB12B	ZNF920
18	None	ENSG00000263682	ENST00000580702	unprocessed_pseudogene	KNOWN	None	None	None	None	11326269	11328831	1	None	None
GL000205.1	None	ENSG00000266596	ENST00000581664	miRNA	NOVEL	None	None	None	None	139016	139098	-1	None	None
GL000205.1	None	ENSG00000265703	ENST00000580527	miRNA	NOVEL	None	None	None	None	144571	144653	-1	None	None
18	None	ENSG00000267051	ENST00000592198	lincRNA	KNOWN	None	None	None	None	11366912	11378408	-1	None	None
16	PTX4	ENSG00000251692	ENST00000447419	protein_coding	KNOWN	None	14171	1437	478	1535887	1538936	-1	C16orf38	None
16	PTX4	ENSG00000251692	ENST00000440447	protein_coding	PUTATIVE	None	14171	579	192	1535887	1538982	-1	C16orf38	None
16	PTX4	ENSG00000251692	ENST00000293922	protein_coding	KNOWN	CCDS32362	14171	1422	473	1535940	1538468	-1	C16orf38	None
GL000205.1	None	ENSG00000220994	ENST00000408067	miRNA	NOVEL	None	None	None	None	152040	152122	-1	None	None
4	None	ENSG00000271278	ENST00000603716	processed_pseudogene	KNOWN	None	None	None	None	39934074	39935181	1	None	None
14	None	ENSG00000258690	ENST00000557761	antisense	KNOWN	None	None	None	None	37257849	37276368	1	None	None
18	None	ENSG00000267564	ENST00000587114	lincRNA	KNOWN	None	None	None	None	11447755	11489368	-1	None	None
HG730_PATCH	None	ENSG00000261503	ENST00000563982	transcribed_processed_pseudogene	KNOWN	None	None	None	None	20235853	20236293	1	None	None
18	None	ENSG00000267425	ENST00000591029	processed_transcript	KNOWN	None	None	None	None	11454477	11465995	1	None	None
HG686_PATCH	None	ENSG00000259893	ENST00000565654	processed_pseudogene	KNOWN	None	None	None	None	95514329	95515040	1	None	None
14	None	ENSG00000258601	ENST00000557642	antisense	KNOWN	None	None	None	None	37278076	37297934	1	None	None
X	None	ENSG00000238193	ENST00000434972	processed_pseudogene	KNOWN	None	None	None	None	5223755	5225169	-1	None	None
HSCHR6_MHC_QBL	ATP6V1G2	ENSG00000206445	ENST00000383503	protein_coding	KNOWN	None	862	357	118	31502517	31504658	-1	ATP6G, ATP6G2	Vma10, NG38, Em:AC004181.3
HSCHR6_MHC_QBL	ATP6V1G2	ENSG00000206445	ENST00000452453	protein_coding	KNOWN	None	862	237	78	31502517	31504688	-1	ATP6G, ATP6G2	Vma10, NG38, Em:AC004181.3
HSCHR6_MHC_QBL	ATP6V1G2	ENSG00000206445	ENST00000482649	processed_transcript	KNOWN	None	862	None	None	31503339	31504806	-1	ATP6G, ATP6G2	Vma10, NG38, Em:AC004181.3
HSCHR6_MHC_QBL	ATP6V1G2	ENSG00000206445	ENST00000473489	processed_transcript	KNOWN	None	862	None	None	31503472	31504899	-1	ATP6G, ATP6G2	Vma10, NG38, Em:AC004181.3
GL000205.1	None	ENSG00000221692	ENST00000408765	miRNA	NOVEL	None	None	None	None	164643	164725	-1	None	None
HSCHR6_MHC_APD	RPP21	ENSG00000241779	ENST00000412659	protein_coding	KNOWN	None	21300	489	162	30321146	30322872	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_APD	RPP21	ENSG00000241779	ENST00000463825	processed_transcript	KNOWN	None	21300	None	None	30321149	30322508	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_APD	RPP21	ENSG00000241779	ENST00000476358	retained_intron	KNOWN	None	21300	None	None	30321157	30322872	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_APD	RPP21	ENSG00000241779	ENST00000484944	processed_transcript	KNOWN	None	21300	None	None	30321166	30322872	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_APD	RPP21	ENSG00000241779	ENST00000471153	processed_transcript	KNOWN	None	21300	None	None	30321168	30322899	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_APD	RPP21	ENSG00000241779	ENST00000460847	retained_intron	KNOWN	None	21300	None	None	30321170	30322872	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_APD	RPP21	ENSG00000241779	ENST00000416977	protein_coding	KNOWN	None	21300	465	154	30321174	30322872	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_APD	RPP21	ENSG00000241779	ENST00000439624	protein_coding	KNOWN	None	21300	534	177	30321174	30322872	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_APD	RPP21	ENSG00000241779	ENST00000427637	protein_coding	KNOWN	None	21300	435	144	30321184	30322872	1	C6orf135	FLJ22638, Em:AB014085.3
X	None	ENSG00000235334	ENST00000435859	processed_pseudogene	KNOWN	None	None	None	None	127256712	127257474	1	None	None
9	PTAR1	ENSG00000188647	ENST00000377200	protein_coding	NOVEL	None	30449	1053	350	72324438	72374857	-1	None	None
9	PTAR1	ENSG00000188647	ENST00000415701	protein_coding	NOVEL	None	30449	505	167	72332937	72338487	-1	None	None
9	PTAR1	ENSG00000188647	ENST00000340434	protein_coding	KNOWN	CCDS47978	30449	1209	402	72333054	72374858	-1	None	None
9	PTAR1	ENSG00000188647	ENST00000467511	retained_intron	KNOWN	None	30449	None	None	72346848	72349174	-1	None	None
9	PTAR1	ENSG00000188647	ENST00000474925	retained_intron	KNOWN	None	30449	None	None	72356432	72374871	-1	None	None
9	PTAR1	ENSG00000188647	ENST00000472967	protein_coding	PUTATIVE	None	30449	90	29	72372039	72374875	-1	None	None
8	None	ENSG00000253845	ENST00000517972	processed_pseudogene	KNOWN	None	None	None	None	43527966	43528218	1	None	None
GL000205.1	None	ENSG00000221570	ENST00000408643	miRNA	NOVEL	None	None	None	None	165363	165438	-1	None	None
GL000205.1	None	ENSG00000263455	ENST00000580657	miRNA	NOVEL	None	None	None	None	168185	168260	-1	None	None
18	None	ENSG00000267252	ENST00000587189	lincRNA	KNOWN	None	None	None	None	11488569	11506975	1	None	None
18	None	ENSG00000267252	ENST00000591318	lincRNA	KNOWN	None	None	None	None	11490047	11490892	1	None	None
18	None	ENSG00000267252	ENST00000589566	lincRNA	KNOWN	None	None	None	None	11490073	11505058	1	None	None
18	None	ENSG00000267252	ENST00000586947	lincRNA	KNOWN	None	None	None	None	11490109	11506982	1	None	None
18	None	ENSG00000267252	ENST00000591431	lincRNA	KNOWN	None	None	None	None	11490223	11491788	1	None	None
18	None	ENSG00000267252	ENST00000586145	lincRNA	KNOWN	None	None	None	None	11505778	11506967	1	None	None
18	None	ENSG00000264334	ENST00000579480	lincRNA	KNOWN	None	None	None	None	75694976	75698566	-1	None	None
15	ALDH1A2	ENSG00000128918	ENST00000249750	protein_coding	KNOWN	CCDS10163	15472	1557	518	58245622	58358616	-1	None	RALDH2
15	ALDH1A2	ENSG00000128918	ENST00000558384	nonsense_mediated_decay	KNOWN	None	15472	73	23	58245623	58247467	-1	None	RALDH2
15	ALDH1A2	ENSG00000128918	ENST00000560312	retained_intron	KNOWN	None	15472	None	None	58245627	58256989	-1	None	RALDH2
15	ALDH1A2	ENSG00000128918	ENST00000347587	protein_coding	KNOWN	CCDS10164	15472	1443	480	58245629	58357936	-1	None	RALDH2
15	ALDH1A2	ENSG00000128918	ENST00000430119	nonsense_mediated_decay	KNOWN	None	15472	123	40	58246018	58357866	-1	None	RALDH2
15	ALDH1A2	ENSG00000128918	ENST00000558231	protein_coding	PUTATIVE	None	15472	1470	489	58247261	58571462	-1	None	RALDH2
15	ALDH1A2	ENSG00000128918	ENST00000559517	protein_coding	KNOWN	CCDS45266	15472	1269	422	58247365	58306299	-1	None	RALDH2
15	ALDH1A2	ENSG00000128918	ENST00000560923	processed_transcript	KNOWN	None	15472	None	None	58283622	58287337	-1	None	RALDH2
15	ALDH1A2	ENSG00000128918	ENST00000559266	processed_transcript	KNOWN	None	15472	None	None	58284981	58330780	-1	None	RALDH2
15	ALDH1A2	ENSG00000128918	ENST00000561070	protein_coding	KNOWN	None	15472	255	84	58287288	58328921	-1	None	RALDH2
15	ALDH1A2	ENSG00000128918	ENST00000558595	processed_transcript	KNOWN	None	15472	None	None	58304287	58357909	-1	None	RALDH2
15	ALDH1A2	ENSG00000128918	ENST00000558239	protein_coding	KNOWN	None	15472	75	24	58306056	58766112	-1	None	RALDH2
15	ALDH1A2	ENSG00000128918	ENST00000557967	protein_coding	KNOWN	None	15472	27	8	58306104	58431024	-1	None	RALDH2
15	ALDH1A2	ENSG00000128918	ENST00000558073	processed_transcript	KNOWN	None	15472	None	None	58306136	58571469	-1	None	RALDH2
15	ALDH1A2	ENSG00000128918	ENST00000559297	processed_transcript	KNOWN	None	15472	None	None	58306184	58571520	-1	None	RALDH2
15	ALDH1A2	ENSG00000128918	ENST00000560122	processed_transcript	KNOWN	None	15472	None	None	58306459	58571479	-1	None	RALDH2
15	ALDH1A2	ENSG00000128918	ENST00000560863	processed_transcript	KNOWN	None	15472	None	None	58399616	58790065	-1	None	RALDH2
15	ALDH1A2	ENSG00000128918	ENST00000558504	processed_transcript	KNOWN	None	15472	None	None	58430646	58571426	-1	None	RALDH2
15	ALDH1A2	ENSG00000128918	ENST00000559579	processed_transcript	KNOWN	None	15472	None	None	58506253	58571520	-1	None	RALDH2
15	ALDH1A2	ENSG00000128918	ENST00000559625	processed_transcript	KNOWN	None	15472	None	None	58534099	58538464	-1	None	RALDH2
15	ALDH1A2	ENSG00000128918	ENST00000558524	processed_transcript	KNOWN	None	15472	None	None	58538382	58551250	-1	None	RALDH2
15	ALDH1A2	ENSG00000128918	ENST00000558946	processed_transcript	KNOWN	None	15472	None	None	58538382	58623829	-1	None	RALDH2
15	ALDH1A2	ENSG00000128918	ENST00000558603	processed_transcript	KNOWN	None	15472	None	None	58549647	58623578	-1	None	RALDH2
15	ALDH1A2	ENSG00000128918	ENST00000561098	processed_transcript	KNOWN	None	15472	None	None	58549647	58623663	-1	None	RALDH2
15	ALDH1A2	ENSG00000128918	ENST00000537372	protein_coding	KNOWN	CCDS55968	15472	1494	497	58246018	58357866	-1	None	RALDH2
14	IGHV3-20	ENSG00000211946	ENST00000390606	IG_V_gene	KNOWN	None	5585	351	116	106667581	106668095	-1	None	None
8	None	ENSG00000254320	ENST00000522004	processed_pseudogene	KNOWN	None	None	None	None	36178557	36178922	-1	None	None
18	RNU6-655P	ENSG00000199728	ENST00000362858	snRNA	KNOWN	None	47618	None	None	75796739	75796845	1	None	None
HG686_PATCH	CYP4F32P	ENSG00000261165	ENST00000570250	unprocessed_pseudogene	KNOWN	None	39951	None	None	95523006	95524026	-1	None	CYP4F-se5[6:8]
18	None	ENSG00000266213	ENST00000577382	lincRNA	KNOWN	None	None	None	None	75897223	75900887	1	None	None
21	SETD4	ENSG00000185917	ENST00000399215	protein_coding	KNOWN	CCDS13640	1258	1323	440	37406839	37432559	-1	C21orf27, C21orf18	None
21	SETD4	ENSG00000185917	ENST00000481477	processed_transcript	KNOWN	None	1258	None	None	37406839	37432683	-1	C21orf27, C21orf18	None
21	SETD4	ENSG00000185917	ENST00000399212	protein_coding	KNOWN	None	1258	1251	416	37406839	37432824	-1	C21orf27, C21orf18	None
21	SETD4	ENSG00000185917	ENST00000332131	protein_coding	KNOWN	CCDS13640	1258	1323	440	37406839	37432848	-1	C21orf27, C21orf18	None
21	SETD4	ENSG00000185917	ENST00000487297	retained_intron	KNOWN	None	1258	None	None	37406840	37415671	-1	C21orf27, C21orf18	None
21	SETD4	ENSG00000185917	ENST00000469482	processed_transcript	KNOWN	None	1258	None	None	37408383	37415946	-1	C21orf27, C21orf18	None
21	SETD4	ENSG00000185917	ENST00000399205	protein_coding	KNOWN	None	1258	852	283	37415984	37432611	-1	C21orf27, C21orf18	None
21	SETD4	ENSG00000185917	ENST00000399208	protein_coding	KNOWN	CCDS42923	1258	924	307	37415984	37432662	-1	C21orf27, C21orf18	None
21	SETD4	ENSG00000185917	ENST00000399201	protein_coding	KNOWN	None	1258	852	283	37415984	37451687	-1	C21orf27, C21orf18	None
21	SETD4	ENSG00000185917	ENST00000399207	protein_coding	KNOWN	CCDS42923	1258	924	307	37415996	37432543	-1	C21orf27, C21orf18	None
21	SETD4	ENSG00000185917	ENST00000424303	protein_coding	KNOWN	None	1258	694	230	37417912	37432661	-1	C21orf27, C21orf18	None
21	SETD4	ENSG00000185917	ENST00000429161	protein_coding	KNOWN	None	1258	677	224	37417929	37432611	-1	C21orf27, C21orf18	None
21	SETD4	ENSG00000185917	ENST00000485865	retained_intron	KNOWN	None	1258	None	None	37418081	37429599	-1	C21orf27, C21orf18	None
21	SETD4	ENSG00000185917	ENST00000446166	protein_coding	KNOWN	None	1258	372	123	37418162	37432824	-1	C21orf27, C21orf18	None
21	SETD4	ENSG00000185917	ENST00000442559	protein_coding	KNOWN	None	1258	210	69	37420620	37432598	-1	C21orf27, C21orf18	None
21	SETD4	ENSG00000185917	ENST00000460704	retained_intron	KNOWN	None	1258	None	None	37425215	37429497	-1	C21orf27, C21orf18	None
21	SETD4	ENSG00000185917	ENST00000443703	protein_coding	KNOWN	None	1258	201	66	37425887	37432540	-1	C21orf27, C21orf18	None
X	None	ENSG00000221005	ENST00000408078	miRNA	NOVEL	None	None	None	None	89045334	89045450	1	None	None
5	TAS2R1	ENSG00000169777	ENST00000514078	protein_coding	KNOWN	None	14909	467	154	9629558	9712490	-1	None	T2R1, TRB7
5	TAS2R1	ENSG00000169777	ENST00000506620	protein_coding	PUTATIVE	None	14909	184	60	9629841	9712312	-1	None	T2R1, TRB7
5	TAS2R1	ENSG00000169777	ENST00000382492	protein_coding	KNOWN	CCDS3876	14909	900	299	9629109	9630463	-1	None	T2R1, TRB7
8	None	ENSG00000253363	ENST00000524132	lincRNA	KNOWN	None	None	None	None	36394909	36636682	-1	None	None
8	None	ENSG00000253363	ENST00000519451	lincRNA	KNOWN	None	None	None	None	36622472	36636682	-1	None	None
18	None	ENSG00000265644	ENST00000579769	lincRNA	KNOWN	None	None	None	None	76240549	76244867	1	None	None
14	IGHV3-21	ENSG00000211947	ENST00000390607	IG_V_gene	KNOWN	None	5586	351	116	106691673	106692203	-1	None	None
18	None	ENSG00000265378	ENST00000581634	lincRNA	KNOWN	None	None	None	None	76265165	76266410	1	None	None
15	None	ENSG00000259409	ENST00000559022	antisense	KNOWN	None	None	None	None	40381033	40381587	1	None	None
X	None	ENSG00000227581	ENST00000453704	processed_pseudogene	KNOWN	None	None	None	None	89294212	89294833	-1	None	None
12	TAPBPL	ENSG00000139192	ENST00000539384	processed_transcript	KNOWN	None	30683	None	None	6560856	6571488	1	None	TAPBP-R, FLJ10143, TAPBPR
12	TAPBPL	ENSG00000139192	ENST00000544826	processed_transcript	PUTATIVE	None	30683	None	None	6561208	6562839	1	None	TAPBP-R, FLJ10143, TAPBPR
12	TAPBPL	ENSG00000139192	ENST00000544021	protein_coding	NOVEL	None	30683	558	185	6561238	6567857	1	None	TAPBP-R, FLJ10143, TAPBPR
12	TAPBPL	ENSG00000139192	ENST00000266556	protein_coding	KNOWN	CCDS8546	30683	1407	468	6561250	6571484	1	None	TAPBP-R, FLJ10143, TAPBPR
12	TAPBPL	ENSG00000139192	ENST00000545700	processed_transcript	KNOWN	None	30683	None	None	6561397	6575683	1	None	TAPBP-R, FLJ10143, TAPBPR
12	TAPBPL	ENSG00000139192	ENST00000543567	processed_transcript	KNOWN	None	30683	None	None	6561652	6571443	1	None	TAPBP-R, FLJ10143, TAPBPR
12	TAPBPL	ENSG00000139192	ENST00000542160	processed_transcript	PUTATIVE	None	30683	None	None	6566872	6571472	1	None	TAPBP-R, FLJ10143, TAPBPR
12	TAPBPL	ENSG00000139192	ENST00000544289	processed_transcript	PUTATIVE	None	30683	None	None	6570201	6571464	1	None	TAPBP-R, FLJ10143, TAPBPR
18	None	ENSG00000267371	ENST00000591378	processed_pseudogene	KNOWN	None	None	None	None	11552365	11552846	1	None	None
18	None	ENSG00000201723	ENST00000364853	misc_RNA	NOVEL	None	None	None	None	76304096	76304188	-1	None	None
20	TTLL9	ENSG00000131044	ENST00000375938	protein_coding	KNOWN	CCDS42863	16118	1320	439	30458505	30532764	1	C20orf125	dJ310O13.1
20	TTLL9	ENSG00000131044	ENST00000535842	protein_coding	KNOWN	CCDS42863	16118	1320	439	30458505	30530858	1	C20orf125	dJ310O13.1
20	TTLL9	ENSG00000131044	ENST00000375934	protein_coding	KNOWN	None	16118	840	279	30467632	30530810	1	C20orf125	dJ310O13.1
20	TTLL9	ENSG00000131044	ENST00000375922	protein_coding	KNOWN	None	16118	1068	355	30467632	30532101	1	C20orf125	dJ310O13.1
20	TTLL9	ENSG00000131044	ENST00000310998	protein_coding	KNOWN	None	16118	1044	347	30458505	30526015	1	C20orf125	dJ310O13.1
20	TTLL9	ENSG00000131044	ENST00000375921	protein_coding	KNOWN	None	16118	693	230	30458505	30532764	1	C20orf125	dJ310O13.1
X	USP12PX	ENSG00000226081	ENST00000432383	processed_pseudogene	KNOWN	None	21410	None	None	89367649	89368705	1	USP12P2	None
18	None	ENSG00000266273	ENST00000580487	lincRNA	KNOWN	None	None	None	None	76555612	76556672	-1	None	None
HSCHR6_MHC_MCF	None	ENSG00000257383	ENST00000548061	protein_coding	NOVEL	None	None	375	124	31897466	31898321	1	None	None
18	None	ENSG00000236396	ENST00000588001	processed_pseudogene	KNOWN	None	None	None	None	11609544	11610677	1	None	None
18	None	ENSG00000236396	ENST00000424015	processed_pseudogene	KNOWN	None	None	None	None	11609712	11610687	1	None	None
19	TPGS1	ENSG00000141933	ENST00000359315	protein_coding	KNOWN	CCDS42454	25058	873	290	507299	519654	1	C19orf20	GTRGEO22, PGs1
19	TPGS1	ENSG00000141933	ENST00000588278	retained_intron	KNOWN	None	25058	None	None	507500	510372	1	C19orf20	GTRGEO22, PGs1
4	None	ENSG00000199530	ENST00000362660	misc_RNA	NOVEL	None	None	None	None	83865891	83865998	-1	None	None
4	None	ENSG00000252834	ENST00000517025	snoRNA	NOVEL	None	None	None	None	83870321	83870397	1	None	None
HSCHR6_MHC_MCF	None	ENSG00000257601	ENST00000535433	protein_coding	NOVEL	None	None	459	152	31897853	31898542	-1	None	None
18	None	ENSG00000267794	ENST00000590231	processed_pseudogene	KNOWN	None	None	None	None	11618207	11618314	1	None	None
4	RNU6-615P	ENSG00000251874	ENST00000516065	snRNA	KNOWN	None	47578	None	None	83924565	83924670	1	None	None
4	None	ENSG00000250057	ENST00000515670	lincRNA	KNOWN	None	None	None	None	84154665	84168366	-1	None	None
4	ADH1A	ENSG00000187758	ENST00000209668	protein_coding	KNOWN	CCDS3648	249	1128	375	100197524	100212185	-1	ADH1	None
4	ADH1A	ENSG00000187758	ENST00000503461	retained_intron	KNOWN	None	249	None	None	100202972	100212160	-1	ADH1	None
4	ADH1A	ENSG00000187758	ENST00000511656	processed_transcript	PUTATIVE	None	249	None	None	100207822	100212140	-1	ADH1	None
X	RNU6-383P	ENSG00000222796	ENST00000410864	snRNA	KNOWN	None	47346	None	None	150123967	150124060	-1	None	None
18	NPIPB1P	ENSG00000257513	ENST00000547442	processed_transcript	KNOWN	None	37452	None	None	11619508	11639698	-1	None	None
18	NPIPB1P	ENSG00000257513	ENST00000588786	transcribed_unprocessed_pseudogene	KNOWN	None	37452	None	None	11619714	11639460	-1	None	None
13	None	ENSG00000229556	ENST00000445646	lincRNA	KNOWN	None	None	None	None	23425912	23428277	1	None	None
HG339_PATCH	BLNK	ENSG00000262509	ENST00000574984	protein_coding	NOVEL	None	14211	1302	433	97951459	98031297	-1	None	SLP65, Ly57, SLP-65, BLNK-s, BASH, bca
HG339_PATCH	BLNK	ENSG00000262509	ENST00000574329	protein_coding	KNOWN	None	14211	1371	456	97951459	98031303	-1	None	SLP65, Ly57, SLP-65, BLNK-s, BASH, bca
HG339_PATCH	BLNK	ENSG00000262509	ENST00000576195	retained_intron	KNOWN	None	14211	None	None	97959723	97964611	-1	None	SLP65, Ly57, SLP-65, BLNK-s, BASH, bca
HG339_PATCH	BLNK	ENSG00000262509	ENST00000570770	retained_intron	KNOWN	None	14211	None	None	97960764	97970067	-1	None	SLP65, Ly57, SLP-65, BLNK-s, BASH, bca
HG339_PATCH	BLNK	ENSG00000262509	ENST00000570590	nonsense_mediated_decay	KNOWN	None	14211	354	117	97964289	98031266	-1	None	SLP65, Ly57, SLP-65, BLNK-s, BASH, bca
HG339_PATCH	BLNK	ENSG00000262509	ENST00000571927	retained_intron	KNOWN	None	14211	None	None	97976111	97987254	-1	None	SLP65, Ly57, SLP-65, BLNK-s, BASH, bca
HG339_PATCH	BLNK	ENSG00000262509	ENST00000570697	protein_coding	PUTATIVE	None	14211	198	65	97998645	98031156	-1	None	SLP65, Ly57, SLP-65, BLNK-s, BASH, bca
4	None	ENSG00000250677	ENST00000512083	processed_pseudogene	KNOWN	None	None	None	None	84158456	84158597	1	None	None
15	None	ENSG00000259239	ENST00000559747	processed_pseudogene	KNOWN	None	None	None	None	40425969	40427415	-1	None	None
4	None	ENSG00000248206	ENST00000505025	sense_intronic	KNOWN	None	None	None	None	184908831	184909903	1	None	None
13	None	ENSG00000240341	ENST00000468851	miRNA	NOVEL	None	None	None	None	23453264	23453338	-1	None	None
21	RNU6-992P	ENSG00000200213	ENST00000363343	snRNA	KNOWN	None	47955	None	None	37438843	37438950	1	None	None
13	LINC00621	ENSG00000262619	ENST00000577004	lincRNA	KNOWN	None	44227	None	None	23468795	23490508	-1	None	None
14	None	ENSG00000258825	ENST00000557090	sense_overlapping	KNOWN	None	None	None	None	97397704	97409917	1	None	None
4	None	ENSG00000248401	ENST00000450559	processed_pseudogene	KNOWN	None	None	None	None	84168332	84169359	1	None	None
15	None	ENSG00000259309	ENST00000561316	lincRNA	KNOWN	None	None	None	None	70113095	70115195	-1	None	None
HG7_PATCH	TRBV10-1	ENSG00000261700	ENST00000569366	TR_V_gene	KNOWN	None	12177	344	113	142121373	142121890	1	None	TRBV101, TCRBV10S1, TCRBV12S2A1T, TCRBV12S2
21	None	ENSG00000230212	ENST00000535199	sense_intronic	KNOWN	None	None	None	None	37441940	37498938	-1	None	None
21	None	ENSG00000230212	ENST00000415147	sense_intronic	KNOWN	None	None	None	None	37447179	37447900	-1	None	None
4	UGT2B10	ENSG00000109181	ENST00000265403	protein_coding	KNOWN	None	12544	1587	528	69681711	69696914	1	None	None
4	UGT2B10	ENSG00000109181	ENST00000458688	protein_coding	NOVEL	None	12544	1335	444	69681713	69696661	1	None	None
13	BASP1P1	ENSG00000230535	ENST00000430708	processed_pseudogene	KNOWN	None	39418	None	None	23471480	23472144	-1	None	None
X	RPL19P21	ENSG00000230508	ENST00000424919	processed_pseudogene	KNOWN	None	35868	None	None	150161974	150162564	1	None	None
15	None	ENSG00000182625	ENST00000331871	processed_pseudogene	KNOWN	None	None	None	None	58978610	58978816	1	None	None
16	None	ENSG00000259784	ENST00000569317	protein_coding	PUTATIVE	None	None	457	151	2563966	2577956	1	None	None
8	RNU7-85P	ENSG00000238884	ENST00000458851	snRNA	KNOWN	None	34181	None	None	80712368	80712430	-1	None	U7.85
13	NUS1P2	ENSG00000234685	ENST00000417358	processed_pseudogene	KNOWN	None	38473	None	None	23489790	23490662	1	None	None
18	None	ENSG00000267143	ENST00000589395	lincRNA	KNOWN	None	None	None	None	11620716	11621157	-1	None	None
14	IGHV3-23	ENSG00000211949	ENST00000390609	IG_V_gene	KNOWN	None	5588	351	116	106725201	106725733	-1	None	None
14	None	ENSG00000200860	ENST00000363990	misc_RNA	NOVEL	None	None	None	None	66644245	66644353	-1	None	None
4	None	ENSG00000251647	ENST00000513707	processed_pseudogene	KNOWN	None	None	None	None	84298516	84299229	-1	None	None
3	ARPC4	ENSG00000241553	ENST00000498623	protein_coding	KNOWN	CCDS46743	707	237	78	9834179	9848126	1	None	p20-Arc, ARC20
3	ARPC4	ENSG00000241553	ENST00000397261	protein_coding	KNOWN	CCDS43047	707	507	168	9834242	9849410	1	None	p20-Arc, ARC20
3	ARPC4	ENSG00000241553	ENST00000479956	retained_intron	KNOWN	None	707	None	None	9834766	9839805	1	None	p20-Arc, ARC20
3	ARPC4	ENSG00000241553	ENST00000417500	nonsense_mediated_decay	KNOWN	None	707	135	44	9834766	9848120	1	None	p20-Arc, ARC20
3	ARPC4	ENSG00000241553	ENST00000424442	nonsense_mediated_decay	KNOWN	None	707	546	181	9834766	9855035	1	None	p20-Arc, ARC20
3	ARPC4	ENSG00000241553	ENST00000440787	nonsense_mediated_decay	KNOWN	None	707	342	113	9834777	9848101	1	None	p20-Arc, ARC20
3	ARPC4	ENSG00000241553	ENST00000467289	retained_intron	KNOWN	None	707	None	None	9834779	9845898	1	None	p20-Arc, ARC20
3	ARPC4	ENSG00000241553	ENST00000485273	protein_coding	PUTATIVE	None	707	231	76	9834780	9845697	1	None	p20-Arc, ARC20
3	ARPC4	ENSG00000241553	ENST00000433034	protein_coding	PUTATIVE	CCDS56238	707	564	187	9834801	9848256	1	None	p20-Arc, ARC20
3	ARPC4	ENSG00000241553	ENST00000287613	protein_coding	KNOWN	CCDS46743	707	237	78	9834227	9848789	1	None	p20-Arc, ARC20
8	NPM1P6	ENSG00000213881	ENST00000521088	processed_pseudogene	KNOWN	None	7926	None	None	62114909	62115779	1	NPMP6	NG6-4
15	LINC00593	ENSG00000259703	ENST00000560853	lincRNA	KNOWN	None	32382	None	None	70127573	70135459	1	C15orf50	MGC42951
15	LINC00593	ENSG00000259703	ENST00000558385	lincRNA	KNOWN	None	32382	None	None	70127578	70134369	1	C15orf50	MGC42951
13	None	ENSG00000262198	ENST00000575845	lincRNA	KNOWN	None	None	None	None	23492730	23498741	1	None	None
18	None	ENSG00000267773	ENST00000585729	processed_pseudogene	KNOWN	None	None	None	None	11644335	11644823	1	None	None
HG7_PATCH	TRBV11-1	ENSG00000260437	ENST00000563245	TR_V_gene	KNOWN	None	12180	347	114	142129179	142129643	1	None	TRBV111, TCRBV11S1, TCRBV21S1
21	None	ENSG00000236119	ENST00000445464	lincRNA	KNOWN	None	None	None	None	37455157	37462712	1	None	None
HG730_PATCH	None	ENSG00000261228	ENST00000565386	processed_pseudogene	KNOWN	None	None	None	None	20368529	20370227	1	None	None
X	RNF19BPX	ENSG00000227434	ENST00000426224	processed_pseudogene	KNOWN	None	38484	None	None	89464795	89465419	-1	None	RNF19BX
14	LINC00618	ENSG00000225163	ENST00000435624	lincRNA	KNOWN	None	20110	None	None	97409916	97411731	1	C14orf63	None
14	LINC00618	ENSG00000225163	ENST00000495064	lincRNA	KNOWN	None	20110	None	None	97409976	97411731	1	C14orf63	None
13	None	ENSG00000223116	ENST00000411184	miRNA	NOVEL	None	None	None	None	23551994	23552136	-1	None	None
21	None	ENSG00000233393	ENST00000422473	lincRNA	KNOWN	None	None	None	None	37477179	37481988	1	None	None
19	None	ENSG00000267179	ENST00000590798	protein_coding	PUTATIVE	None	None	1245	414	12035890	12090105	1	None	None
19	None	ENSG00000267179	ENST00000591944	protein_coding	PUTATIVE	None	None	348	115	12035926	12089060	1	None	None
19	None	ENSG00000267179	ENST00000591441	nonsense_mediated_decay	KNOWN	None	None	192	63	12035935	12089167	1	None	None
19	None	ENSG00000267179	ENST00000586354	nonsense_mediated_decay	KNOWN	None	None	12	3	12061057	12088013	1	None	None
15	None	ENSG00000259375	ENST00000561409	antisense	KNOWN	None	None	None	None	86122277	86123409	-1	None	None
14	None	ENSG00000259535	ENST00000559810	processed_pseudogene	KNOWN	None	None	None	None	103614934	103615745	1	None	None
X	UBE2V1P9	ENSG00000229667	ENST00000414760	processed_pseudogene	KNOWN	None	44894	None	None	89544535	89544902	-1	None	None
HSCHR17_6_CTG4	KRTAP9-2	ENSG00000262573	ENST00000571104	protein_coding	KNOWN	None	16926	525	174	39382879	39383883	1	None	KAP9.2
8	None	ENSG00000253656	ENST00000523502	lincRNA	KNOWN	None	None	None	None	131607545	131667958	-1	None	None
12	FGF23	ENSG00000118972	ENST00000237837	protein_coding	KNOWN	CCDS8526	3680	756	251	4477393	4488894	-1	None	None
21	MEMO1P1	ENSG00000226054	ENST00000452572	processed_pseudogene	KNOWN	None	23274	None	None	37502787	37503674	1	MEMO1P, C21orf19	None
21	MEMO1P1	ENSG00000226054	ENST00000412073	processed_pseudogene	KNOWN	None	23274	None	None	37502669	37504208	1	MEMO1P, C21orf19	None
HG730_PATCH	None	ENSG00000264053	ENST00000580236	miRNA	NOVEL	None	None	None	None	20413399	20413481	1	None	None
HSCHR6_MHC_MCF	NEU1	ENSG00000227129	ENST00000479695	retained_intron	KNOWN	None	7758	None	None	31901917	31907054	-1	NEU	None
HSCHR6_MHC_MCF	NEU1	ENSG00000227129	ENST00000489619	retained_intron	KNOWN	None	7758	None	None	31903310	31907063	-1	NEU	None
HSCHR6_MHC_MCF	NEU1	ENSG00000227129	ENST00000473255	nonsense_mediated_decay	KNOWN	None	7758	219	72	31903310	31907074	-1	NEU	None
HSCHR6_MHC_MCF	NEU1	ENSG00000227129	ENST00000464056	nonsense_mediated_decay	KNOWN	None	7758	804	267	31903310	31907080	-1	NEU	None
HSCHR6_MHC_MCF	NEU1	ENSG00000227129	ENST00000422978	protein_coding	KNOWN	None	7758	1248	415	31903310	31907164	-1	NEU	None
8	None	ENSG00000272518	ENST00000606512	sense_intronic	KNOWN	None	None	None	None	80868700	80869616	-1	None	None
14	IGHV1-24	ENSG00000211950	ENST00000390610	IG_V_gene	KNOWN	None	5551	351	116	106733144	106733639	-1	None	None
HG730_PATCH	None	ENSG00000262288	ENST00000574525	miRNA	NOVEL	None	None	None	None	20473327	20473432	-1	None	None
10	REEP3	ENSG00000165476	ENST00000298249	protein_coding	KNOWN	None	23711	723	240	65281123	65384881	1	C10orf74	None
10	REEP3	ENSG00000165476	ENST00000373758	protein_coding	KNOWN	CCDS44411	23711	768	255	65281123	65384883	1	C10orf74	None
8	None	ENSG00000272264	ENST00000607017	lincRNA	KNOWN	None	None	None	None	80944959	80945535	-1	None	None
HG686_PATCH	None	ENSG00000260138	ENST00000566698	processed_pseudogene	KNOWN	None	None	None	None	95524521	95524863	-1	None	None
X	MAGIX	ENSG00000017621	ENST00000376339	protein_coding	KNOWN	None	30006	813	270	49019061	49022972	1	None	PDZX, JM10, FLJ21687
X	MAGIX	ENSG00000017621	ENST00000425661	protein_coding	KNOWN	CCDS48107	30006	777	258	49019181	49022971	1	None	PDZX, JM10, FLJ21687
X	MAGIX	ENSG00000017621	ENST00000458388	protein_coding	KNOWN	None	30006	602	199	49019212	49022562	1	None	PDZX, JM10, FLJ21687
X	MAGIX	ENSG00000017621	ENST00000412696	protein_coding	KNOWN	CCDS48106	30006	1005	334	49019228	49022971	1	None	PDZX, JM10, FLJ21687
X	MAGIX	ENSG00000017621	ENST00000415364	protein_coding	KNOWN	None	30006	711	236	49020121	49022553	1	None	PDZX, JM10, FLJ21687
X	MAGIX	ENSG00000017621	ENST00000376338	protein_coding	KNOWN	None	30006	828	275	49020243	49024822	1	None	PDZX, JM10, FLJ21687
X	MAGIX	ENSG00000017621	ENST00000498742	processed_transcript	KNOWN	None	30006	None	None	49020270	49022971	1	None	PDZX, JM10, FLJ21687
X	MAGIX	ENSG00000017621	ENST00000425285	protein_coding	KNOWN	None	30006	642	213	49020334	49022552	1	None	PDZX, JM10, FLJ21687
X	MAGIX	ENSG00000017621	ENST00000454342	protein_coding	KNOWN	None	30006	430	142	49020882	49022562	1	None	PDZX, JM10, FLJ21687
9	SH3GL2	ENSG00000107295	ENST00000467085	processed_transcript	KNOWN	None	10831	None	None	17579080	17630427	1	None	SH3P4, SH3D2A, CNSA2, EEN-B1
9	SH3GL2	ENSG00000107295	ENST00000380607	protein_coding	KNOWN	CCDS6483	10831	1059	352	17579121	17797127	1	None	SH3P4, SH3D2A, CNSA2, EEN-B1
9	SH3GL2	ENSG00000107295	ENST00000537391	protein_coding	KNOWN	None	10831	918	305	17735713	17795822	1	None	SH3P4, SH3D2A, CNSA2, EEN-B1
6	NQO2	ENSG00000124588	ENST00000426637	protein_coding	KNOWN	None	7856	190	62	2988221	3012795	1	NMOR2	QR2, DHQV, DIA6
6	NQO2	ENSG00000124588	ENST00000380472	protein_coding	KNOWN	None	7856	417	138	2988880	3015877	1	NMOR2	QR2, DHQV, DIA6
6	NQO2	ENSG00000124588	ENST00000397717	protein_coding	KNOWN	None	7856	417	138	3000110	3015877	1	NMOR2	QR2, DHQV, DIA6
6	NQO2	ENSG00000124588	ENST00000338130	protein_coding	KNOWN	CCDS4481	7856	696	231	3000208	3019996	1	NMOR2	QR2, DHQV, DIA6
6	NQO2	ENSG00000124588	ENST00000380441	protein_coding	KNOWN	None	7856	582	193	3000223	3019989	1	NMOR2	QR2, DHQV, DIA6
6	NQO2	ENSG00000124588	ENST00000380455	protein_coding	KNOWN	CCDS4481	7856	696	231	3000231	3019996	1	NMOR2	QR2, DHQV, DIA6
6	NQO2	ENSG00000124588	ENST00000380454	protein_coding	KNOWN	None	7856	582	193	3000236	3019989	1	NMOR2	QR2, DHQV, DIA6
6	NQO2	ENSG00000124588	ENST00000380430	protein_coding	KNOWN	CCDS4481	7856	696	231	3000392	3019996	1	NMOR2	QR2, DHQV, DIA6
6	NQO2	ENSG00000124588	ENST00000606474	protein_coding	NOVEL	None	7856	108	35	3004401	3010423	1	NMOR2	QR2, DHQV, DIA6
4	None	ENSG00000250726	ENST00000510899	processed_pseudogene	KNOWN	None	None	None	None	184993556	184994192	1	None	None
14	GCSHP2	ENSG00000259525	ENST00000560971	processed_pseudogene	KNOWN	None	43927	None	None	103650541	103651376	1	None	None
20	None	ENSG00000234967	ENST00000431915	lincRNA	KNOWN	None	None	None	None	46579543	46580799	1	None	None
5	C5orf51	ENSG00000205765	ENST00000505931	processed_transcript	KNOWN	None	27750	None	None	41904290	41911281	1	None	LOC285636
5	C5orf51	ENSG00000205765	ENST00000381647	protein_coding	KNOWN	CCDS34151	27750	885	294	41904451	41921738	1	None	LOC285636
5	C5orf51	ENSG00000205765	ENST00000509976	retained_intron	KNOWN	None	27750	None	None	41904473	41911435	1	None	LOC285636
HSCHR17_6_CTG4	KRTAP9-4	ENSG00000262896	ENST00000570861	protein_coding	KNOWN	None	18902	465	154	39394569	39395535	1	None	KAP9.4
15	None	ENSG00000260776	ENST00000563349	processed_transcript	KNOWN	None	None	None	None	78206559	78208268	-1	None	None
15	None	ENSG00000260776	ENST00000568307	retained_intron	KNOWN	None	None	None	None	78207067	78208143	-1	None	None
15	None	ENSG00000260776	ENST00000562938	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	78207526	78219167	-1	None	None
15	None	ENSG00000260776	ENST00000567226	processed_transcript	KNOWN	None	None	None	None	78210762	78219188	-1	None	None
4	None	ENSG00000240159	ENST00000479841	processed_pseudogene	KNOWN	None	None	None	None	185175662	185176483	1	None	None
10	CSTF2T	ENSG00000177613	ENST00000331173	protein_coding	KNOWN	CCDS7245	17086	1851	616	53455247	53459355	-1	None	DKFZp434C1013, KIAA0689, CstF-64T
21	CBR3-AS1	ENSG00000236830	ENST00000453159	antisense	KNOWN	None	43664	None	None	37504065	37528605	-1	None	PlncRNA-1
21	CBR3-AS1	ENSG00000236830	ENST00000413862	antisense	KNOWN	None	43664	None	None	37504084	37528593	-1	None	PlncRNA-1
21	CBR3-AS1	ENSG00000236830	ENST00000427491	antisense	KNOWN	None	43664	None	None	37513694	37528604	-1	None	PlncRNA-1
21	CBR3-AS1	ENSG00000236830	ENST00000432988	retained_intron	KNOWN	None	43664	None	None	37513705	37523008	-1	None	PlncRNA-1
HG79_PATCH	OBP2B	ENSG00000261059	ENST00000562137	protein_coding	KNOWN	None	23381	513	170	136080664	136084628	-1	None	hOBPIIb
HG79_PATCH	OBP2B	ENSG00000261059	ENST00000562329	nonsense_mediated_decay	KNOWN	None	23381	498	165	136080664	136084628	-1	None	hOBPIIb
HG79_PATCH	OBP2B	ENSG00000261059	ENST00000569987	processed_transcript	KNOWN	None	23381	None	None	136080664	136084628	-1	None	hOBPIIb
8	NRBP2	ENSG00000185189	ENST00000533093	retained_intron	KNOWN	None	19339	None	None	144915764	144923123	-1	None	DKFZp434P086
8	NRBP2	ENSG00000185189	ENST00000529747	retained_intron	KNOWN	None	19339	None	None	144915770	144922201	-1	None	DKFZp434P086
8	NRBP2	ENSG00000185189	ENST00000442628	protein_coding	NOVEL	CCDS34959	19339	1506	501	144915891	144923146	-1	None	DKFZp434P086
8	NRBP2	ENSG00000185189	ENST00000423469	retained_intron	KNOWN	None	19339	None	None	144915912	144920246	-1	None	DKFZp434P086
8	NRBP2	ENSG00000185189	ENST00000527545	retained_intron	KNOWN	None	19339	None	None	144915917	144919322	-1	None	DKFZp434P086
8	NRBP2	ENSG00000185189	ENST00000530123	protein_coding	PUTATIVE	None	19339	505	167	144917188	144919304	-1	None	DKFZp434P086
8	NRBP2	ENSG00000185189	ENST00000532940	retained_intron	KNOWN	None	19339	None	None	144917700	144922385	-1	None	DKFZp434P086
8	NRBP2	ENSG00000185189	ENST00000533846	retained_intron	KNOWN	None	19339	None	None	144917700	144922385	-1	None	DKFZp434P086
8	NRBP2	ENSG00000185189	ENST00000531729	retained_intron	KNOWN	None	19339	None	None	144917832	144920234	-1	None	DKFZp434P086
8	NRBP2	ENSG00000185189	ENST00000530347	protein_coding	PUTATIVE	None	19339	697	231	144920851	144922802	-1	None	DKFZp434P086
8	NRBP2	ENSG00000185189	ENST00000327830	protein_coding	KNOWN	None	19339	777	258	144915917	144924200	-1	None	DKFZp434P086
HG730_PATCH	MIR1270-1	ENSG00000262269	ENST00000573964	miRNA	KNOWN	None	35338	None	None	20510081	20510163	-1	MIRN1270, MIR1270	hsa-mir-1270
8	None	ENSG00000254205	ENST00000522494	antisense	KNOWN	None	None	None	None	81035087	81039905	1	None	None
X	RNU6-555P	ENSG00000207515	ENST00000384784	snRNA	KNOWN	None	47518	None	None	89852234	89852339	-1	None	None
10	KIAA1279	ENSG00000198954	ENST00000361983	protein_coding	KNOWN	CCDS7284	23419	1866	621	70748487	70776738	1	None	DKFZP586B0923, TTC20
10	KIAA1279	ENSG00000198954	ENST00000481912	processed_transcript	KNOWN	None	23419	None	None	70767411	70771025	1	None	DKFZP586B0923, TTC20
15	MIR629	ENSG00000207965	ENST00000385230	miRNA	KNOWN	None	32885	None	None	70371711	70371807	-1	MIRN629	hsa-mir-629
X	None	ENSG00000206062	ENST00000418369	lincRNA	KNOWN	None	None	None	None	90562780	90563877	1	None	None
HSCHR6_MHC_APD	GNL1	ENSG00000206412	ENST00000383450	protein_coding	KNOWN	None	4413	1224	407	30517400	30529581	-1	None	HSR1
HSCHR6_MHC_APD	GNL1	ENSG00000206412	ENST00000478748	retained_intron	KNOWN	None	4413	None	None	30522508	30528570	-1	None	HSR1
HSCHR6_MHC_APD	GNL1	ENSG00000206412	ENST00000496960	retained_intron	KNOWN	None	4413	None	None	30523219	30523840	-1	None	HSR1
HSCHR6_MHC_APD	GNL1	ENSG00000206412	ENST00000497332	retained_intron	KNOWN	None	4413	None	None	30528201	30529144	-1	None	HSR1
HSCHR6_MHC_APD	GNL1	ENSG00000206412	ENST00000456550	protein_coding	KNOWN	None	4413	198	65	30529384	30529581	-1	None	HSR1
HG686_PATCH	SNX18P14	ENSG00000261531	ENST00000567863	processed_pseudogene	KNOWN	None	39622	None	None	95550435	95551008	-1	None	None
8	RN7SL41P	ENSG00000241550	ENST00000476144	misc_RNA	KNOWN	None	46057	None	None	81116841	81117135	1	None	None
9	GABBR2	ENSG00000136928	ENST00000259455	protein_coding	KNOWN	CCDS6736	4507	2826	941	101050391	101471479	-1	GPR51	HG20, GABABR2, GPRC3B
9	GABBR2	ENSG00000136928	ENST00000477471	processed_transcript	KNOWN	None	4507	None	None	101235512	101318180	-1	GPR51	HG20, GABABR2, GPRC3B
14	IGHV2-26	ENSG00000211951	ENST00000390611	IG_V_gene	KNOWN	None	5575	357	118	106757650	106758116	-1	None	None
HSCHR17_6_CTG4	KRTAP9-9	ENSG00000262594	ENST00000570825	protein_coding	KNOWN	None	16773	510	169	39400266	39401246	1	KRTAP9-5	KAP9.9, KAP9.5
10	None	ENSG00000235645	ENST00000434931	protein_coding	PUTATIVE	None	None	384	127	71444655	71452208	1	None	None
5	FAM173B	ENSG00000150756	ENST00000280330	protein_coding	PUTATIVE	None	27029	210	69	10226442	10250008	-1	None	None
5	FAM173B	ENSG00000150756	ENST00000511437	protein_coding	KNOWN	CCDS43301	27029	702	233	10226845	10249998	-1	None	None
5	FAM173B	ENSG00000150756	ENST00000510047	protein_coding	NOVEL	CCDS58942	27029	651	216	10227068	10250009	-1	None	None
5	FAM173B	ENSG00000150756	ENST00000504390	nonsense_mediated_decay	KNOWN	None	27029	330	109	10227670	10249997	-1	None	None
5	FAM173B	ENSG00000150756	ENST00000510052	processed_transcript	KNOWN	None	27029	None	None	10227692	10250000	-1	None	None
5	FAM173B	ENSG00000150756	ENST00000506108	nonsense_mediated_decay	KNOWN	None	27029	450	149	10227722	10250000	-1	None	None
5	FAM173B	ENSG00000150756	ENST00000508553	retained_intron	KNOWN	None	27029	None	None	10236260	10250000	-1	None	None
20	None	ENSG00000228503	ENST00000416646	lincRNA	KNOWN	None	None	None	None	46586766	46587347	1	None	None
8	MIR5708	ENSG00000265588	ENST00000579723	miRNA	KNOWN	None	43511	None	None	81153624	81153708	1	None	hsa-mir-5708
HG686_PATCH	None	ENSG00000260713	ENST00000562294	unprocessed_pseudogene	KNOWN	None	None	None	None	95559555	95570199	-1	None	None
21	RPS9P1	ENSG00000214889	ENST00000419943	processed_pseudogene	KNOWN	None	10443	None	None	37504748	37505330	1	RPS9P	None
14	MIR5580	ENSG00000266431	ENST00000580850	miRNA	KNOWN	None	43482	None	None	54415145	54415202	-1	None	hsa-mir-5580
14	LINC00605	ENSG00000251533	ENST00000514902	lincRNA	KNOWN	None	43928	None	None	103653558	103655365	-1	None	None
10	FAM13C	ENSG00000148541	ENST00000373868	protein_coding	KNOWN	CCDS7255	19371	1758	585	61005893	61122308	-1	FAM13C1	None
10	FAM13C	ENSG00000148541	ENST00000442566	protein_coding	NOVEL	None	19371	1821	606	61005894	61122305	-1	FAM13C1	None
10	FAM13C	ENSG00000148541	ENST00000277705	protein_coding	NOVEL	None	19371	1818	605	61005896	61122322	-1	FAM13C1	None
10	FAM13C	ENSG00000148541	ENST00000513059	nonsense_mediated_decay	KNOWN	None	19371	153	50	61005896	61122348	-1	FAM13C1	None
10	FAM13C	ENSG00000148541	ENST00000419214	protein_coding	KNOWN	CCDS31207	19371	1464	487	61005939	61122352	-1	FAM13C1	None
10	FAM13C	ENSG00000148541	ENST00000468840	protein_coding	KNOWN	CCDS44406	19371	1509	502	61007327	61122661	-1	FAM13C1	None
10	FAM13C	ENSG00000148541	ENST00000489341	processed_transcript	KNOWN	None	19371	None	None	61007452	61062616	-1	FAM13C1	None
10	FAM13C	ENSG00000148541	ENST00000435852	protein_coding	PUTATIVE	None	19371	1722	573	61010929	61122268	-1	FAM13C1	None
10	FAM13C	ENSG00000148541	ENST00000422313	protein_coding	KNOWN	None	19371	1377	458	61013477	61122220	-1	FAM13C1	None
10	FAM13C	ENSG00000148541	ENST00000468696	protein_coding	PUTATIVE	None	19371	405	134	61023642	61029795	-1	FAM13C1	None
10	FAM13C	ENSG00000148541	ENST00000507568	retained_intron	KNOWN	None	19371	None	None	61028352	61030081	-1	FAM13C1	None
10	FAM13C	ENSG00000148541	ENST00000513377	retained_intron	KNOWN	None	19371	None	None	61028416	61043441	-1	FAM13C1	None
10	FAM13C	ENSG00000148541	ENST00000477101	processed_transcript	PUTATIVE	None	19371	None	None	61029707	61057018	-1	FAM13C1	None
10	FAM13C	ENSG00000148541	ENST00000510215	processed_transcript	KNOWN	None	19371	None	None	61060466	61083866	-1	FAM13C1	None
10	FAM13C	ENSG00000148541	ENST00000470220	processed_transcript	KNOWN	None	19371	None	None	61060912	61122459	-1	FAM13C1	None
10	FAM13C	ENSG00000148541	ENST00000507862	processed_transcript	PUTATIVE	None	19371	None	None	61082990	61112113	-1	FAM13C1	None
10	FAM13C	ENSG00000148541	ENST00000504410	nonsense_mediated_decay	KNOWN	None	19371	153	50	61083831	61122280	-1	FAM13C1	None
10	FAM13C	ENSG00000148541	ENST00000512919	protein_coding	KNOWN	None	19371	75	24	61112030	61122939	-1	FAM13C1	None
10	FAM13C	ENSG00000148541	ENST00000503444	protein_coding	KNOWN	None	19371	16	4	61112089	61122588	-1	FAM13C1	None
10	FAM13C	ENSG00000148541	ENST00000373867	protein_coding	KNOWN	CCDS53538	19371	1506	501	61005890	61122352	-1	FAM13C1	None
21	RPL3P1	ENSG00000228149	ENST00000437106	processed_pseudogene	KNOWN	None	10352	None	None	37541268	37542478	-1	RPL3P	None
HSCHR17_6_CTG4	KRTAP9-6	ENSG00000263263	ENST00000576511	protein_coding	KNOWN	None	18914	483	160	39410221	39411523	1	KRTAP9L2	KAP9.6
15	RNU6-745P	ENSG00000200216	ENST00000363346	snRNA	KNOWN	None	47708	None	None	70485575	70485683	1	None	None
21	RN7SL73P	ENSG00000265882	ENST00000585239	misc_RNA	KNOWN	None	46089	None	None	37585858	37586136	-1	None	None
10	DKK1	ENSG00000107984	ENST00000373970	protein_coding	KNOWN	CCDS7246	2891	801	266	54074056	54077417	1	None	SK, DKK-1
10	DKK1	ENSG00000107984	ENST00000467359	processed_transcript	KNOWN	None	2891	None	None	54074440	54076195	1	None	SK, DKK-1
10	DKK1	ENSG00000107984	ENST00000494277	processed_transcript	KNOWN	None	2891	None	None	54074817	54077802	1	None	SK, DKK-1
10	DKK1	ENSG00000107984	ENST00000476752	processed_transcript	KNOWN	None	2891	None	None	54075012	54076661	1	None	SK, DKK-1
15	None	ENSG00000259367	ENST00000558980	antisense	KNOWN	None	None	None	None	86162854	86214179	-1	None	None
8	None	ENSG00000241746	ENST00000478813	processed_pseudogene	KNOWN	None	None	None	None	81177763	81178390	-1	None	None
21	None	ENSG00000238851	ENST00000459290	snoRNA	NOVEL	None	None	None	None	37630724	37630829	-1	None	None
X	SRRM1P3	ENSG00000237307	ENST00000426911	processed_pseudogene	KNOWN	None	38164	None	None	136058576	136067864	-1	None	None
8	None	ENSG00000253259	ENST00000520785	sense_intronic	KNOWN	None	None	None	None	131904316	131905031	-1	None	None
HG7_PATCH	TRBV10-2	ENSG00000260546	ENST00000563791	TR_V_gene	KNOWN	None	12178	344	113	142146452	142146952	1	None	TRBV102, TCRBV10S2, TCRBV12S3
21	SRSF9P1	ENSG00000214867	ENST00000399149	processed_pseudogene	KNOWN	None	10792	None	None	37667471	37668000	-1	SFRS9P1	None
15	None	ENSG00000259252	ENST00000561310	lincRNA	KNOWN	None	None	None	None	70487977	70490848	-1	None	None
20	None	ENSG00000237423	ENST00000428999	lincRNA	KNOWN	None	None	None	None	46609232	46617488	-1	None	None
8	None	ENSG00000253992	ENST00000523318	antisense	KNOWN	None	None	None	None	131947655	131961911	1	None	None
HG686_PATCH	None	ENSG00000260691	ENST00000562196	unprocessed_pseudogene	KNOWN	None	None	None	None	95578783	95620920	-1	None	None
14	None	ENSG00000239117	ENST00000459487	miRNA	NOVEL	None	None	None	None	103669523	103669601	1	None	None
20	None	ENSG00000229876	ENST00000415932	lincRNA	KNOWN	None	None	None	None	6427370	6509106	1	None	None
5	PJA2	ENSG00000198961	ENST00000361189	protein_coding	KNOWN	CCDS4099	17481	2127	708	108670410	108745695	-1	RNF131	KIAA0438, Neurodap1
5	PJA2	ENSG00000198961	ENST00000511624	processed_transcript	KNOWN	None	17481	None	None	108714868	108745017	-1	RNF131	KIAA0438, Neurodap1
5	PJA2	ENSG00000198961	ENST00000512822	processed_transcript	KNOWN	None	17481	None	None	108719097	108745015	-1	RNF131	KIAA0438, Neurodap1
5	PJA2	ENSG00000198961	ENST00000361557	protein_coding	KNOWN	CCDS4099	17481	2127	708	108670414	108719226	-1	RNF131	KIAA0438, Neurodap1
14	ATP5C1P1	ENSG00000224004	ENST00000441945	processed_pseudogene	KNOWN	None	834	None	None	54457819	54458713	-1	ATP5CL2, ATP5C2	None
HG7_PATCH	TRBV6-5	ENSG00000261412	ENST00000567630	TR_V_gene	KNOWN	None	12230	344	113	142172447	142172948	1	None	TRBV65, TCRBV13S1, TCRBV6S5
13	HS6ST3	ENSG00000185352	ENST00000376705	protein_coding	KNOWN	CCDS9481	19134	1416	471	96743093	97485671	1	None	None
15	None	ENSG00000259276	ENST00000560712	antisense	KNOWN	None	None	None	None	86164495	86170920	-1	None	None
15	None	ENSG00000260382	ENST00000561684	processed_pseudogene	KNOWN	None	None	None	None	31174470	31175434	-1	None	None
15	RNU6-1280P	ENSG00000202081	ENST00000365211	snRNA	KNOWN	None	48243	None	None	86194753	86194859	-1	None	None
8	None	ENSG00000253407	ENST00000521490	lincRNA	KNOWN	None	None	None	None	132142635	132157128	-1	None	None
HSCHR17_1	None	ENSG00000258037	ENST00000551523	protein_coding	NOVEL	None	None	387	128	44008114	44023958	-1	None	None
8	None	ENSG00000272163	ENST00000607058	antisense	KNOWN	None	None	None	None	24769678	24772230	-1	None	None
20	None	ENSG00000229522	ENST00000425385	lincRNA	KNOWN	None	None	None	None	46612148	46613057	1	None	None
X	PABPC5-AS1	ENSG00000234161	ENST00000456187	antisense	KNOWN	None	31845	None	None	90669877	90689998	-1	CXorf46	OTTHUMG00000021960
15	None	ENSG00000259453	ENST00000558757	sense_intronic	KNOWN	None	None	None	None	86244340	86246002	1	None	None
18	CD226	ENSG00000150637	ENST00000578928	nonsense_mediated_decay	KNOWN	None	16961	114	37	67498394	67563045	-1	None	DNAM-1, DNAM1, PTA1, TLiSA1
18	CD226	ENSG00000150637	ENST00000581982	protein_coding	PUTATIVE	None	16961	546	181	67530192	67624160	-1	None	DNAM-1, DNAM1, PTA1, TLiSA1
18	CD226	ENSG00000150637	ENST00000280200	protein_coding	KNOWN	CCDS11997	16961	1011	336	67530192	67624232	-1	None	DNAM-1, DNAM1, PTA1, TLiSA1
18	CD226	ENSG00000150637	ENST00000577287	protein_coding	PUTATIVE	None	16961	546	181	67531351	67614655	-1	None	DNAM-1, DNAM1, PTA1, TLiSA1
18	CD226	ENSG00000150637	ENST00000582621	protein_coding	KNOWN	CCDS11997	16961	1011	336	67531550	67615089	-1	None	DNAM-1, DNAM1, PTA1, TLiSA1
18	CD226	ENSG00000150637	ENST00000579496	protein_coding	KNOWN	None	16961	830	275	67540380	67629039	-1	None	DNAM-1, DNAM1, PTA1, TLiSA1
18	CD226	ENSG00000150637	ENST00000583955	protein_coding	KNOWN	None	16961	396	131	67563268	67623906	-1	None	DNAM-1, DNAM1, PTA1, TLiSA1
18	CD226	ENSG00000150637	ENST00000580335	protein_coding	KNOWN	None	16961	382	126	67613970	67624412	-1	None	DNAM-1, DNAM1, PTA1, TLiSA1
HG7_PATCH	TRBV7-4	ENSG00000259913	ENST00000566285	TR_V_gene	KNOWN	None	12238	347	114	142176673	142177134	1	None	TRBV74, TCRBV6S8A2T, TCRBV7S4
14	IGHV4-28	ENSG00000211952	ENST00000390612	IG_V_gene	KNOWN	None	5645	351	116	106780513	106781017	-1	None	None
HSCHR17_6_CTG4	KRTAP9-7	ENSG00000262221	ENST00000573531	protein_coding	KNOWN	None	18915	510	169	39420541	39421579	1	KRTAP9L1	KAP9.7
HSCHR6_MHC_COX	CCHCR1	ENSG00000234114	ENST00000451470	protein_coding	KNOWN	None	13930	769	255	31102772	31105569	-1	C6orf18	HCR
HSCHR6_MHC_COX	CCHCR1	ENSG00000234114	ENST00000416163	protein_coding	KNOWN	None	13930	2349	782	31102772	31118119	-1	C6orf18	HCR
HSCHR6_MHC_COX	CCHCR1	ENSG00000234114	ENST00000400351	protein_coding	KNOWN	None	13930	2190	729	31102772	31118530	-1	C6orf18	HCR
HSCHR6_MHC_COX	CCHCR1	ENSG00000234114	ENST00000425620	protein_coding	KNOWN	None	13930	2349	782	31102772	31118543	-1	C6orf18	HCR
HSCHR6_MHC_COX	CCHCR1	ENSG00000234114	ENST00000494515	retained_intron	KNOWN	None	13930	None	None	31103393	31105635	-1	C6orf18	HCR
HSCHR6_MHC_COX	CCHCR1	ENSG00000234114	ENST00000488698	processed_transcript	KNOWN	None	13930	None	None	31103429	31105448	-1	C6orf18	HCR
HSCHR6_MHC_COX	CCHCR1	ENSG00000234114	ENST00000466904	processed_transcript	KNOWN	None	13930	None	None	31109479	31118521	-1	C6orf18	HCR
HSCHR6_MHC_COX	CCHCR1	ENSG00000234114	ENST00000444737	protein_coding	KNOWN	None	13930	948	315	31110424	31117416	-1	C6orf18	HCR
HSCHR6_MHC_COX	CCHCR1	ENSG00000234114	ENST00000463211	retained_intron	KNOWN	None	13930	None	None	31111186	31115065	-1	C6orf18	HCR
HSCHR6_MHC_COX	CCHCR1	ENSG00000234114	ENST00000454570	protein_coding	KNOWN	None	13930	565	187	31111411	31118412	-1	C6orf18	HCR
HSCHR6_MHC_COX	CCHCR1	ENSG00000234114	ENST00000455669	protein_coding	KNOWN	None	13930	458	151	31114886	31118517	-1	C6orf18	HCR
HSCHR6_MHC_COX	CCHCR1	ENSG00000234114	ENST00000450631	protein_coding	KNOWN	None	13930	514	170	31114908	31118399	-1	C6orf18	HCR
HSCHR6_MHC_COX	CCHCR1	ENSG00000234114	ENST00000451337	protein_coding	KNOWN	None	13930	356	117	31114988	31118118	-1	C6orf18	HCR
HSCHR6_MHC_COX	CCHCR1	ENSG00000234114	ENST00000452419	protein_coding	KNOWN	None	13930	380	125	31115042	31118535	-1	C6orf18	HCR
HSCHR6_MHC_COX	CCHCR1	ENSG00000234114	ENST00000461293	retained_intron	KNOWN	None	13930	None	None	31116558	31117415	-1	C6orf18	HCR
X	SLC9A6	ENSG00000198689	ENST00000370701	protein_coding	KNOWN	CCDS55504	11079	1950	649	135067598	135129298	1	None	NHE6, KIAA0267
X	SLC9A6	ENSG00000198689	ENST00000370698	protein_coding	KNOWN	CCDS14654	11079	2010	669	135067627	135129423	1	None	NHE6, KIAA0267
X	SLC9A6	ENSG00000198689	ENST00000370695	protein_coding	KNOWN	CCDS44003	11079	2106	701	135067627	135129423	1	None	NHE6, KIAA0267
15	RN7SKP95	ENSG00000199730	ENST00000362860	misc_RNA	KNOWN	None	45819	None	None	58996051	58996353	-1	None	None
8	None	ENSG00000254222	ENST00000521378	antisense	KNOWN	None	None	None	None	62177183	62204598	-1	None	None
HSCHR17_1	None	ENSG00000257149	ENST00000546641	protein_coding	NOVEL	None	None	342	113	44008191	44023986	1	None	None
X	None	ENSG00000236413	ENST00000426065	processed_pseudogene	KNOWN	None	None	None	None	90677308	90677537	1	None	None
4	RNA5SP159	ENSG00000252970	ENST00000517161	rRNA	KNOWN	None	43059	None	None	39938373	39938475	1	RN5S159	None
15	None	ENSG00000259173	ENST00000560431	processed_pseudogene	KNOWN	None	None	None	None	59047824	59048446	-1	None	None
20	None	ENSG00000252227	ENST00000516418	snoRNA	NOVEL	None	None	None	None	46764686	46764766	-1	None	None
4	RNU6-569P	ENSG00000207188	ENST00000384459	snRNA	KNOWN	None	47532	None	None	136236573	136236677	-1	None	None
14	IGHV3-30	ENSG00000211953	ENST00000390613	IG_V_gene	KNOWN	None	5591	351	116	106791005	106791536	-1	None	None
HG7_PATCH	TRBV5-4	ENSG00000260843	ENST00000568011	TR_V_gene	KNOWN	None	12221	343	113	142184418	142185083	1	None	TRBV54, TCRBV5S4, TCRBV5S6A3N2T
16	HS3ST6	ENSG00000162040	ENST00000454677	protein_coding	NOVEL	None	14178	1080	359	1961464	1968441	-1	HS3ST5	None
16	HS3ST6	ENSG00000162040	ENST00000293937	protein_coding	KNOWN	None	14178	1029	342	1961464	1968324	-1	HS3ST5	None
16	HS3ST6	ENSG00000162040	ENST00000443547	protein_coding	KNOWN	CCDS45381	14178	936	311	1961464	1968231	-1	HS3ST5	None
8	None	ENSG00000253711	ENST00000518064	antisense	KNOWN	None	None	None	None	62212723	62213628	-1	None	None
8	None	ENSG00000253711	ENST00000521801	antisense	KNOWN	None	None	None	None	62213078	62213577	-1	None	None
11	None	ENSG00000255284	ENST00000526588	processed_transcript	KNOWN	None	None	None	None	777578	778285	1	None	None
11	None	ENSG00000255284	ENST00000530083	protein_coding	PUTATIVE	None	None	384	127	777582	784180	1	None	None
11	None	ENSG00000255284	ENST00000525941	processed_transcript	KNOWN	None	None	None	None	777608	784297	1	None	None
14	None	ENSG00000258662	ENST00000554759	antisense	KNOWN	None	None	None	None	79713011	79715366	-1	None	None
HSCHR12_1_CTG2_1	XRCC6BP1	ENSG00000262145	ENST00000576795	processed_transcript	KNOWN	None	29452	None	None	58335324	58345667	1	None	KUB3
HSCHR12_1_CTG2_1	XRCC6BP1	ENSG00000262145	ENST00000571490	protein_coding	KNOWN	None	29452	741	246	58335360	58351052	1	None	KUB3
HSCHR12_1_CTG2_1	XRCC6BP1	ENSG00000262145	ENST00000570321	nonsense_mediated_decay	KNOWN	None	29452	113	36	58335579	58350673	1	None	KUB3
HSCHR12_1_CTG2_1	XRCC6BP1	ENSG00000262145	ENST00000574747	processed_transcript	KNOWN	None	29452	None	None	58343524	58350723	1	None	KUB3
8	KIAA0196	ENSG00000164961	ENST00000519042	retained_intron	KNOWN	None	28984	None	None	126036502	126044956	-1	SPG8	None
8	KIAA0196	ENSG00000164961	ENST00000318410	protein_coding	KNOWN	CCDS6355	28984	3480	1159	126036502	126104082	-1	SPG8	None
8	KIAA0196	ENSG00000164961	ENST00000517845	protein_coding	PUTATIVE	None	28984	3036	1011	126036509	126104025	-1	SPG8	None
8	KIAA0196	ENSG00000164961	ENST00000530856	retained_intron	KNOWN	None	28984	None	None	126056728	126061273	-1	SPG8	None
8	KIAA0196	ENSG00000164961	ENST00000523297	protein_coding	PUTATIVE	None	28984	491	162	126087283	126103966	-1	SPG8	None
8	KIAA0196	ENSG00000164961	ENST00000519340	processed_transcript	KNOWN	None	28984	None	None	126094664	126104061	-1	SPG8	None
8	KIAA0196	ENSG00000164961	ENST00000521109	processed_transcript	KNOWN	None	28984	None	None	126094675	126104032	-1	SPG8	None
8	KIAA0196	ENSG00000164961	ENST00000523397	processed_transcript	KNOWN	None	28984	None	None	126095128	126096098	-1	SPG8	None
19	C19orf26	ENSG00000099625	ENST00000590083	protein_coding	KNOWN	CCDS12057	28617	1362	453	1228286	1238026	-1	None	MGC40084, DOS
19	C19orf26	ENSG00000099625	ENST00000591127	nonsense_mediated_decay	KNOWN	None	28617	275	90	1229947	1235084	-1	None	MGC40084, DOS
19	C19orf26	ENSG00000099625	ENST00000589260	nonsense_mediated_decay	KNOWN	None	28617	327	108	1234573	1237845	-1	None	MGC40084, DOS
19	C19orf26	ENSG00000099625	ENST00000382477	protein_coding	KNOWN	None	28617	2178	725	1229178	1237990	-1	None	MGC40084, DOS
19	C19orf26	ENSG00000099625	ENST00000215376	protein_coding	KNOWN	None	28617	1344	447	1229947	1237990	-1	None	MGC40084, DOS
5	CXCL14	ENSG00000145824	ENST00000512158	protein_coding	KNOWN	None	10640	300	99	134906376	134914754	-1	SCYB14	BRAK, NJAC, bolekine, Kec, MIP-2g, BMAC, KS1
5	CXCL14	ENSG00000145824	ENST00000337225	protein_coding	KNOWN	CCDS4188	10640	336	111	134906373	134914969	-1	SCYB14	BRAK, NJAC, bolekine, Kec, MIP-2g, BMAC, KS1
X	SERBP1P4	ENSG00000230275	ENST00000446711	processed_pseudogene	KNOWN	None	44631	None	None	90815435	90816596	-1	None	None
8	SLC10A5	ENSG00000253598	ENST00000518568	protein_coding	KNOWN	CCDS34915	22981	1317	438	82605842	82608409	-1	None	None
15	RNU6-966P	ENSG00000252288	ENST00000516479	snRNA	KNOWN	None	47929	None	None	45265756	45265859	1	None	None
HG7_PATCH	TRBV6-6	ENSG00000260116	ENST00000565578	TR_V_gene	KNOWN	None	12231	344	113	142191056	142191532	1	None	TRBV66, TCRBV13S6A2T, TCRBV6S6
14	None	ENSG00000259026	ENST00000557211	lincRNA	KNOWN	None	None	None	None	97576753	97584223	-1	None	None
14	None	ENSG00000259026	ENST00000556773	lincRNA	KNOWN	None	None	None	None	97584122	97585584	-1	None	None
16	MT1G	ENSG00000125144	ENST00000444837	protein_coding	KNOWN	CCDS10766	7399	186	61	56700643	56701977	-1	MT1	MT1K
16	MT1G	ENSG00000125144	ENST00000569500	protein_coding	PUTATIVE	None	7399	120	39	56700647	56701946	-1	MT1	MT1K
16	MT1G	ENSG00000125144	ENST00000379811	protein_coding	KNOWN	None	7399	189	62	56700647	56701977	-1	MT1	MT1K
16	MT1G	ENSG00000125144	ENST00000568675	protein_coding	PUTATIVE	None	7399	207	68	56700718	56701933	-1	MT1	MT1K
8	None	ENSG00000253198	ENST00000519417	processed_pseudogene	KNOWN	None	None	None	None	43529413	43529734	-1	None	None
15	RNU1-78P	ENSG00000212550	ENST00000391248	snRNA	KNOWN	None	48420	None	None	45295062	45295226	-1	None	None
15	None	ENSG00000200318	ENST00000363448	snoRNA	NOVEL	None	None	None	None	59052666	59052880	-1	None	None
X	MAGEB6	ENSG00000176746	ENST00000379034	protein_coding	KNOWN	CCDS14217	23796	1224	407	26210557	26213763	1	None	FLJ40242, MAGE-B6, MAGEB6A, CT3.4
20	EDEM2	ENSG00000088298	ENST00000374492	protein_coding	KNOWN	CCDS13247	15877	1737	578	33703167	33735167	-1	C20orf49, C20orf31	FLJ10783, bA4204.1
20	EDEM2	ENSG00000088298	ENST00000374491	protein_coding	KNOWN	CCDS46592	15877	1626	541	33703160	33735161	-1	C20orf49, C20orf31	FLJ10783, bA4204.1
20	EDEM2	ENSG00000088298	ENST00000541621	protein_coding	KNOWN	None	15877	1074	357	33703168	33732959	-1	C20orf49, C20orf31	FLJ10783, bA4204.1
20	EDEM2	ENSG00000088298	ENST00000542871	protein_coding	KNOWN	None	15877	909	302	33703170	33735141	-1	C20orf49, C20orf31	FLJ10783, bA4204.1
20	EDEM2	ENSG00000088298	ENST00000540582	protein_coding	KNOWN	None	15877	1215	404	33705828	33865928	-1	C20orf49, C20orf31	FLJ10783, bA4204.1
16	RABEP2	ENSG00000177548	ENST00000357573	protein_coding	KNOWN	None	24817	1602	533	28915742	28936535	-1	None	FRA, FLJ23282
16	RABEP2	ENSG00000177548	ENST00000358201	protein_coding	KNOWN	CCDS42140	24817	1710	569	28915742	28937073	-1	None	FRA, FLJ23282
16	RABEP2	ENSG00000177548	ENST00000544477	protein_coding	NOVEL	None	24817	1497	498	28916149	28936517	-1	None	FRA, FLJ23282
16	RABEP2	ENSG00000177548	ENST00000562590	retained_intron	KNOWN	None	24817	None	None	28921608	28937005	-1	None	FRA, FLJ23282
16	RABEP2	ENSG00000177548	ENST00000568703	protein_coding	PUTATIVE	None	24817	735	244	28925557	28936148	-1	None	FRA, FLJ23282
16	RABEP2	ENSG00000177548	ENST00000567483	protein_coding	PUTATIVE	None	24817	841	279	28925580	28936258	-1	None	FRA, FLJ23282
16	RABEP2	ENSG00000177548	ENST00000561501	protein_coding	PUTATIVE	None	24817	217	71	28925811	28935521	-1	None	FRA, FLJ23282
16	RABEP2	ENSG00000177548	ENST00000566762	protein_coding	PUTATIVE	None	24817	133	43	28925895	28947847	-1	None	FRA, FLJ23282
16	RABEP2	ENSG00000177548	ENST00000561803	processed_transcript	KNOWN	None	24817	None	None	28927497	28936535	-1	None	FRA, FLJ23282
16	RABEP2	ENSG00000177548	ENST00000564473	processed_transcript	KNOWN	None	24817	None	None	28929144	28936498	-1	None	FRA, FLJ23282
16	RABEP2	ENSG00000177548	ENST00000562475	processed_transcript	KNOWN	None	24817	None	None	28929158	28936032	-1	None	FRA, FLJ23282
16	RABEP2	ENSG00000177548	ENST00000570030	retained_intron	KNOWN	None	24817	None	None	28931009	28936537	-1	None	FRA, FLJ23282
16	RABEP2	ENSG00000177548	ENST00000564579	retained_intron	KNOWN	None	24817	None	None	28931016	28936031	-1	None	FRA, FLJ23282
16	RABEP2	ENSG00000177548	ENST00000563577	nonsense_mediated_decay	KNOWN	None	24817	144	47	28931107	28936003	-1	None	FRA, FLJ23282
16	CORO7-PAM16	ENSG00000103426	ENST00000572467	protein_coding	KNOWN	CCDS58418	44424	3147	1048	4390252	4466588	-1	None	None
16	CORO7-PAM16	ENSG00000103426	ENST00000575334	nonsense_mediated_decay	KNOWN	None	44424	1608	535	4390252	4470495	-1	None	None
16	CORO7-PAM16	ENSG00000103426	ENST00000572274	processed_transcript	KNOWN	None	44424	None	None	4390942	4409354	-1	None	None
4	None	ENSG00000250568	ENST00000510152	processed_pseudogene	KNOWN	None	None	None	None	39974748	39975062	-1	None	None
15	None	ENSG00000259418	ENST00000560324	antisense	KNOWN	None	None	None	None	45333914	45350905	-1	None	None
15	None	ENSG00000245975	ENST00000500929	lincRNA	KNOWN	None	None	None	None	59060271	59063173	-1	None	None
10	None	ENSG00000226163	ENST00000431638	antisense	KNOWN	None	None	None	None	74261504	74262714	1	None	None
HSCHR6_MHC_APD	DHX16	ENSG00000227222	ENST00000456005	protein_coding	KNOWN	None	2739	564	187	30635497	30638008	-1	DDX16	DBP2, Prp2, PRPF2
HSCHR6_MHC_APD	DHX16	ENSG00000227222	ENST00000450902	protein_coding	KNOWN	None	2739	2007	668	30635497	30649062	-1	DDX16	DBP2, Prp2, PRPF2
HSCHR6_MHC_APD	DHX16	ENSG00000227222	ENST00000477800	processed_transcript	KNOWN	None	2739	None	None	30635498	30636602	-1	DDX16	DBP2, Prp2, PRPF2
HSCHR6_MHC_APD	DHX16	ENSG00000227222	ENST00000449252	protein_coding	KNOWN	None	2739	886	294	30641155	30649013	-1	DDX16	DBP2, Prp2, PRPF2
HSCHR6_MHC_APD	DHX16	ENSG00000227222	ENST00000548461	protein_coding	KNOWN	None	2739	441	146	30647066	30649001	-1	DDX16	DBP2, Prp2, PRPF2
8	None	ENSG00000255915	ENST00000539774	pseudogene	NOVEL	None	None	None	None	47172182	47172472	1	None	None
GL000243.1	None	ENSG00000240396	ENST00000482332	miRNA	NOVEL	None	None	None	None	4607	4688	1	None	None
22	None	ENSG00000231495	ENST00000422833	lincRNA	KNOWN	None	None	None	None	28103578	28105929	1	None	None
4	PABPC1P1	ENSG00000231707	ENST00000506347	processed_pseudogene	KNOWN	None	8558	None	None	39975064	39975958	1	PABPCP1	PABP1
8	KRT8P3	ENSG00000254285	ENST00000519669	processed_pseudogene	KNOWN	None	31056	None	None	62490779	62492227	1	None	None
8	KRT8P3	ENSG00000254285	ENST00000394813	processed_pseudogene	KNOWN	None	31056	None	None	62491130	62492230	1	None	None
20	LINC00494	ENSG00000235621	ENST00000416742	processed_transcript	KNOWN	None	27657	None	None	46988693	46999372	1	None	None
20	LINC00494	ENSG00000235621	ENST00000425021	processed_transcript	KNOWN	None	27657	None	None	46988755	46989647	1	None	None
20	LINC00494	ENSG00000235621	ENST00000433094	processed_transcript	KNOWN	None	27657	None	None	46994390	46999372	1	None	None
20	LINC00494	ENSG00000235621	ENST00000545181	processed_transcript	KNOWN	None	27657	None	None	46997418	46998074	1	None	None
10	None	ENSG00000230609	ENST00000425543	processed_pseudogene	KNOWN	None	None	None	None	74320022	74320214	1	None	None
14	None	ENSG00000259106	ENST00000553812	antisense	KNOWN	None	None	None	None	80077761	80099654	-1	None	None
HSCHR6_MHC_QBL	NFKBIL1	ENSG00000206440	ENST00000400279	protein_coding	KNOWN	None	7800	1077	358	31504921	31516872	1	NFKBIL	IKBL
HSCHR6_MHC_QBL	NFKBIL1	ENSG00000206440	ENST00000400285	protein_coding	KNOWN	None	7800	1146	381	31505631	31516872	1	NFKBIL	IKBL
HSCHR6_MHC_QBL	NFKBIL1	ENSG00000206440	ENST00000383500	protein_coding	KNOWN	None	7800	1101	366	31505663	31516872	1	NFKBIL	IKBL
HSCHR6_MHC_QBL	NFKBIL1	ENSG00000206440	ENST00000466313	processed_transcript	KNOWN	None	7800	None	None	31505690	31515748	1	NFKBIL	IKBL
HSCHR6_MHC_QBL	NFKBIL1	ENSG00000206440	ENST00000490890	retained_intron	KNOWN	None	7800	None	None	31505711	31516002	1	NFKBIL	IKBL
6	HLA-DPA1	ENSG00000231389	ENST00000419277	protein_coding	KNOWN	CCDS4764	4938	783	260	33032346	33048487	-1	HLA-DP1A	None
6	HLA-DPA1	ENSG00000231389	ENST00000479107	retained_intron	KNOWN	None	4938	None	None	33032784	33041392	-1	HLA-DP1A	None
6	HLA-DPA1	ENSG00000231389	ENST00000437811	protein_coding	KNOWN	None	4938	385	127	33035437	33037025	-1	HLA-DP1A	None
6	HLA-DPA1	ENSG00000231389	ENST00000453337	protein_coding	KNOWN	None	4938	628	208	33036796	33048544	-1	HLA-DP1A	None
6	HLA-DPA1	ENSG00000231389	ENST00000476642	processed_transcript	KNOWN	None	4938	None	None	33036881	33048532	-1	HLA-DP1A	None
6	HLA-DPA1	ENSG00000231389	ENST00000463066	processed_transcript	KNOWN	None	4938	None	None	33036939	33041410	-1	HLA-DP1A	None
6	HLA-DPA1	ENSG00000231389	ENST00000417724	protein_coding	KNOWN	None	4938	69	22	33041279	33048552	-1	HLA-DP1A	None
6	HLA-DPA1	ENSG00000231389	ENST00000428995	protein_coding	KNOWN	CCDS4764	4938	783	260	33032794	33041378	-1	HLA-DP1A	None
10	None	ENSG00000226447	ENST00000412789	lincRNA	KNOWN	None	None	None	None	38265753	38281395	1	None	None
15	None	ENSG00000252171	ENST00000516362	misc_RNA	NOVEL	None	None	None	None	45339301	45339413	-1	None	None
HSCHR17_6_CTG4	KRTAP29-1	ENSG00000262542	ENST00000574737	protein_coding	KNOWN	None	34211	1026	341	39446708	39447733	-1	None	KAP29.2
4	KRT18P25	ENSG00000249064	ENST00000508931	processed_pseudogene	KNOWN	None	33394	None	None	40021860	40023137	1	None	None
13	None	ENSG00000229011	ENST00000457858	lincRNA	KNOWN	None	None	None	None	80378553	80379820	1	None	None
14	None	ENSG00000258393	ENST00000557745	lincRNA	KNOWN	None	None	None	None	97582692	97587838	1	None	None
9	None	ENSG00000234586	ENST00000414531	processed_pseudogene	KNOWN	None	None	None	None	13021693	13022891	-1	None	None
8	HSPA8P13	ENSG00000253425	ENST00000523715	unprocessed_pseudogene	KNOWN	None	44928	None	None	47460711	47462424	1	None	None
HG339_PATCH	None	ENSG00000263132	ENST00000571295	snRNA	NOVEL	None	None	None	None	97872504	97872608	1	None	None
13	None	ENSG00000229175	ENST00000427918	lincRNA	KNOWN	None	None	None	None	80446721	80492079	1	None	None
10	None	ENSG00000206840	ENST00000384113	misc_RNA	NOVEL	None	None	None	None	38283791	38283903	1	None	None
19	MYO1F	ENSG00000142347	ENST00000338257	protein_coding	KNOWN	CCDS42494	7600	3297	1098	8585674	8642461	-1	None	None
19	MYO1F	ENSG00000142347	ENST00000600885	retained_intron	KNOWN	None	7600	None	None	8587694	8592271	-1	None	None
19	MYO1F	ENSG00000142347	ENST00000596245	retained_intron	KNOWN	None	7600	None	None	8590110	8591506	-1	None	None
19	MYO1F	ENSG00000142347	ENST00000598005	nonsense_mediated_decay	KNOWN	None	7600	888	295	8591336	8606840	-1	None	None
19	MYO1F	ENSG00000142347	ENST00000597459	retained_intron	KNOWN	None	7600	None	None	8594693	8595346	-1	None	None
19	MYO1F	ENSG00000142347	ENST00000598797	retained_intron	KNOWN	None	7600	None	None	8594924	8595368	-1	None	None
19	MYO1F	ENSG00000142347	ENST00000597222	retained_intron	KNOWN	None	7600	None	None	8595083	8604936	-1	None	None
19	MYO1F	ENSG00000142347	ENST00000602136	nonsense_mediated_decay	KNOWN	None	7600	357	118	8605203	8612931	-1	None	None
19	MYO1F	ENSG00000142347	ENST00000601502	retained_intron	KNOWN	None	7600	None	None	8608952	8610602	-1	None	None
19	MYO1F	ENSG00000142347	ENST00000594977	retained_intron	KNOWN	None	7600	None	None	8610327	8642319	-1	None	None
19	MYO1F	ENSG00000142347	ENST00000600825	retained_intron	KNOWN	None	7600	None	None	8612738	8615216	-1	None	None
19	MYO1F	ENSG00000142347	ENST00000596937	retained_intron	KNOWN	None	7600	None	None	8613182	8615297	-1	None	None
19	MYO1F	ENSG00000142347	ENST00000595191	retained_intron	KNOWN	None	7600	None	None	8614464	8615540	-1	None	None
19	MYO1F	ENSG00000142347	ENST00000598529	retained_intron	KNOWN	None	7600	None	None	8616307	8619448	-1	None	None
19	MYO1F	ENSG00000142347	ENST00000595325	retained_intron	KNOWN	None	7600	None	None	8616550	8642322	-1	None	None
19	MYO1F	ENSG00000142347	ENST00000594774	retained_intron	KNOWN	None	7600	None	None	8616714	8642322	-1	None	None
19	MYO1F	ENSG00000142347	ENST00000598321	nonsense_mediated_decay	KNOWN	None	7600	231	76	8618096	8642322	-1	None	None
19	MYO1F	ENSG00000142347	ENST00000599123	retained_intron	KNOWN	None	7600	None	None	8618106	8620661	-1	None	None
19	MYO1F	ENSG00000142347	ENST00000596675	protein_coding	PUTATIVE	None	7600	402	133	8618234	8642322	-1	None	None
19	MYO1F	ENSG00000142347	ENST00000596645	retained_intron	KNOWN	None	7600	None	None	8620276	8642317	-1	None	None
19	MYO1F	ENSG00000142347	ENST00000595046	processed_transcript	KNOWN	None	7600	None	None	8641326	8642326	-1	None	None
9	None	ENSG00000234740	ENST00000442428	sense_intronic	KNOWN	None	None	None	None	13274509	13279186	-1	None	None
GL000243.1	None	ENSG00000263953	ENST00000582285	miRNA	NOVEL	None	None	None	None	5755	5838	1	None	None
15	None	ENSG00000259402	ENST00000560378	sense_intronic	KNOWN	None	None	None	None	59107471	59109927	1	None	None
20	GNAS	ENSG00000087460	ENST00000313949	protein_coding	KNOWN	CCDS13471	4392	738	245	57414773	57486247	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000371098	protein_coding	KNOWN	CCDS13471	4392	738	245	57414803	57475465	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000371075	protein_coding	KNOWN	CCDS13471	4392	738	245	57414803	57486247	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000453292	protein_coding	KNOWN	None	4392	501	166	57415399	57478598	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000419558	protein_coding	KNOWN	None	4392	341	112	57415559	57480535	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000491348	processed_transcript	KNOWN	None	4392	None	None	57416398	57475465	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000603534	protein_coding	PUTATIVE	None	4392	87	28	57416398	57475465	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000472183	processed_transcript	KNOWN	None	4392	None	None	57416540	57484478	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000462499	processed_transcript	KNOWN	None	4392	None	None	57416673	57478829	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000482112	processed_transcript	KNOWN	None	4392	None	None	57416673	57484449	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000490374	processed_transcript	KNOWN	None	4392	None	None	57416677	57484243	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000493744	processed_transcript	KNOWN	None	4392	None	None	57416699	57475465	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000467227	processed_transcript	KNOWN	None	4392	None	None	57418380	57484421	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000371100	protein_coding	PUTATIVE	CCDS46622	4392	3114	1037	57427769	57486247	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000371099	protein_coding	PUTATIVE	None	4392	2163	720	57428318	57432246	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000371102	protein_coding	PUTATIVE	None	4392	3072	1023	57428318	57486247	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000464624	processed_transcript	KNOWN	None	4392	None	None	57428318	57486247	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000306120	protein_coding	PUTATIVE	None	4392	1878	625	57428511	57430388	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000481768	processed_transcript	KNOWN	None	4392	None	None	57429224	57475465	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000450130	protein_coding	PUTATIVE	None	4392	595	197	57430162	57484238	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000349036	protein_coding	PUTATIVE	None	4392	581	192	57430202	57480535	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000423897	protein_coding	PUTATIVE	None	4392	281	92	57430233	57475465	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000464960	processed_transcript	KNOWN	None	4392	None	None	57463468	57475465	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000603291	protein_coding	PUTATIVE	None	4392	109	35	57463468	57478614	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000605439	protein_coding	PUTATIVE	None	4392	87	28	57463776	57475213	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000488546	processed_transcript	KNOWN	None	4392	None	None	57463834	57485456	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000481039	processed_transcript	KNOWN	None	4392	None	None	57463904	57484859	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000468895	processed_transcript	KNOWN	None	4392	None	None	57463914	57484630	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000605724	protein_coding	PUTATIVE	None	4392	495	164	57463914	57484630	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000467321	processed_transcript	KNOWN	None	4392	None	None	57463948	57484634	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000605560	protein_coding	PUTATIVE	None	4392	541	179	57463948	57484634	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000477931	processed_transcript	KNOWN	None	4392	None	None	57464155	57486247	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000603560	protein_coding	PUTATIVE	None	4392	213	70	57464179	57478846	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000485673	processed_transcript	KNOWN	None	4392	None	None	57464179	57480475	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000605324	protein_coding	PUTATIVE	None	4392	258	85	57464198	57478846	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000470512	processed_transcript	KNOWN	None	4392	None	None	57464199	57484859	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000464788	processed_transcript	KNOWN	None	4392	None	None	57464202	57484474	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000605058	protein_coding	PUTATIVE	None	4392	247	81	57464206	57478838	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000469431	processed_transcript	KNOWN	None	4392	None	None	57464206	57484271	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000478585	processed_transcript	KNOWN	None	4392	None	None	57464215	57480535	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000604005	protein_coding	PUTATIVE	None	4392	482	159	57464215	57484478	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000480975	processed_transcript	KNOWN	None	4392	None	None	57464226	57486234	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000605722	protein_coding	PUTATIVE	None	4392	356	117	57464235	57480535	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000480232	processed_transcript	KNOWN	None	4392	None	None	57464278	57485040	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000484504	processed_transcript	KNOWN	None	4392	None	None	57464282	57475465	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000461152	processed_transcript	KNOWN	None	4392	None	None	57465698	57478640	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000371095	protein_coding	KNOWN	CCDS46624	4392	1143	380	57466357	57486247	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000371085	protein_coding	KNOWN	CCDS13472	4392	1185	394	57466358	57486247	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000354359	protein_coding	KNOWN	CCDS46623	4392	1188	395	57466358	57486247	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000265620	protein_coding	KNOWN	CCDS42892	4392	1140	379	57466419	57486247	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000371081	protein_coding	PUTATIVE	None	4392	264	87	57466771	57475465	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000338783	protein_coding	PUTATIVE	None	4392	186	61	57466815	57475465	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000488652	processed_transcript	KNOWN	None	4392	None	None	57467036	57485029	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000603023	protein_coding	PUTATIVE	None	4392	480	159	57467090	57484618	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000476935	processed_transcript	KNOWN	None	4392	None	None	57467092	57484859	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000492907	processed_transcript	KNOWN	None	4392	None	None	57467133	57484859	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000603546	protein_coding	PUTATIVE	None	4392	361	119	57467388	57484224	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000483387	retained_intron	KNOWN	None	4392	None	None	57470218	57478611	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000487862	retained_intron	KNOWN	None	4392	None	None	57470252	57486247	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000496934	retained_intron	KNOWN	None	4392	None	None	57472495	57486247	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000476196	retained_intron	KNOWN	None	4392	None	None	57478036	57486245	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000494081	processed_transcript	KNOWN	None	4392	None	None	57478586	57485420	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000487981	retained_intron	KNOWN	None	4392	None	None	57478592	57484767	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000493958	processed_transcript	KNOWN	None	4392	None	None	57478796	57484831	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000479025	retained_intron	KNOWN	None	4392	None	None	57483971	57484770	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000475610	retained_intron	KNOWN	None	4392	None	None	57485063	57485836	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
20	GNAS	ENSG00000087460	ENST00000306090	protein_coding	KNOWN	CCDS46624	4392	1143	380	57466466	57486241	1	GNAS1	NESP55, NESP, GNASXL, GPSA, SCG6
10	RNU6-795P	ENSG00000252132	ENST00000516323	snRNA	KNOWN	None	47758	None	None	38332801	38332903	-1	None	None
8	RN7SKP97	ENSG00000222898	ENST00000410966	misc_RNA	KNOWN	None	45821	None	None	62544239	62544571	-1	None	None
13	RNU6-61P	ENSG00000202398	ENST00000365528	snRNA	KNOWN	None	42551	None	None	80943561	80943669	-1	RNU6-61	None
11	CEND1	ENSG00000184524	ENST00000330106	protein_coding	KNOWN	CCDS7714	24153	450	149	787104	790123	-1	None	FLJ90066, BM88
11	CEND1	ENSG00000184524	ENST00000524587	processed_transcript	PUTATIVE	None	24153	None	None	788178	790113	-1	None	FLJ90066, BM88
HSCHR6_MHC_DBB	PPP1R2P1	ENSG00000227435	ENST00000411707	processed_transcript	KNOWN	None	9289	None	None	32824882	32825559	-1	PPP1R2P	IPP-2P
HSCHR6_MHC_DBB	PPP1R2P1	ENSG00000227435	ENST00000446715	transcribed_processed_pseudogene	KNOWN	None	9289	None	None	32824927	32825544	-1	PPP1R2P	IPP-2P
15	None	ENSG00000259352	ENST00000560967	antisense	KNOWN	None	None	None	None	45365690	45366246	-1	None	None
9	None	ENSG00000223672	ENST00000433817	processed_pseudogene	KNOWN	None	None	None	None	13322805	13323449	-1	None	None
8	MIR4470	ENSG00000264408	ENST00000583453	miRNA	KNOWN	None	41833	None	None	62627347	62627418	1	None	hsa-mir-4470
13	HNRNPA1P31	ENSG00000227862	ENST00000448627	processed_pseudogene	KNOWN	None	39549	None	None	81193233	81194202	-1	None	None
15	None	ENSG00000259353	ENST00000558042	antisense	KNOWN	None	None	None	None	59149030	59157262	-1	None	None
14	None	ENSG00000258637	ENST00000553322	antisense	KNOWN	None	None	None	None	80128009	80257606	-1	None	None
9	None	ENSG00000270547	ENST00000604724	lincRNA	KNOWN	None	None	None	None	13406379	13431328	-1	None	None
9	None	ENSG00000270547	ENST00000605459	lincRNA	KNOWN	None	None	None	None	13416398	13433052	-1	None	None
5	MARVELD2	ENSG00000152939	ENST00000325631	protein_coding	KNOWN	CCDS34175	26401	1677	558	68710939	68737883	1	MRVLDC2, DFNB49	FLJ30532, TRIC
5	MARVELD2	ENSG00000152939	ENST00000454295	protein_coding	KNOWN	CCDS58956	26401	1641	546	68710954	68740157	1	MRVLDC2, DFNB49	FLJ30532, TRIC
5	MARVELD2	ENSG00000152939	ENST00000515844	protein_coding	KNOWN	None	26401	436	144	68711056	68715648	1	MRVLDC2, DFNB49	FLJ30532, TRIC
5	MARVELD2	ENSG00000152939	ENST00000512803	protein_coding	KNOWN	None	26401	1550	515	68711209	68736323	1	MRVLDC2, DFNB49	FLJ30532, TRIC
5	MARVELD2	ENSG00000152939	ENST00000436532	protein_coding	NOVEL	None	26401	1329	442	68715195	68737697	1	MRVLDC2, DFNB49	FLJ30532, TRIC
5	MARVELD2	ENSG00000152939	ENST00000413223	protein_coding	KNOWN	None	26401	1329	442	68715195	68738984	1	MRVLDC2, DFNB49	FLJ30532, TRIC
14	C14orf79	ENSG00000140104	ENST00000551606	protein_coding	PUTATIVE	None	20126	659	218	105452112	105461227	1	None	None
14	C14orf79	ENSG00000140104	ENST00000551046	retained_intron	KNOWN	None	20126	None	None	105452126	105456049	1	None	None
14	C14orf79	ENSG00000140104	ENST00000547315	protein_coding	KNOWN	CCDS42000	20126	978	325	105452130	105461849	1	None	None
14	C14orf79	ENSG00000140104	ENST00000389964	nonsense_mediated_decay	KNOWN	None	20126	594	197	105452616	105461851	1	None	None
14	C14orf79	ENSG00000140104	ENST00000548641	nonsense_mediated_decay	KNOWN	None	20126	558	185	105452673	105461681	1	None	None
14	C14orf79	ENSG00000140104	ENST00000549584	processed_transcript	KNOWN	None	20126	None	None	105453033	105465864	1	None	None
14	C14orf79	ENSG00000140104	ENST00000550614	protein_coding	PUTATIVE	None	20126	252	83	105455301	105461855	1	None	None
14	C14orf79	ENSG00000140104	ENST00000549240	protein_coding	PUTATIVE	None	20126	252	83	105456177	105461539	1	None	None
14	C14orf79	ENSG00000140104	ENST00000548178	processed_transcript	KNOWN	None	20126	None	None	105457859	105476819	1	None	None
10	EIF3LP3	ENSG00000226086	ENST00000495197	processed_pseudogene	KNOWN	None	44976	None	None	38368984	38369805	-1	None	None
16	CORO1A	ENSG00000102879	ENST00000563778	protein_coding	NOVEL	None	2252	749	248	30194148	30198815	1	None	HCORO1, p57, coronin-1
16	CORO1A	ENSG00000102879	ENST00000561815	protein_coding	PUTATIVE	None	2252	654	217	30194308	30198454	1	None	HCORO1, p57, coronin-1
16	CORO1A	ENSG00000102879	ENST00000219150	protein_coding	KNOWN	CCDS10673	2252	1386	461	30194743	30200397	1	None	HCORO1, p57, coronin-1
16	CORO1A	ENSG00000102879	ENST00000564446	processed_transcript	KNOWN	None	2252	None	None	30194835	30195742	1	None	HCORO1, p57, coronin-1
16	CORO1A	ENSG00000102879	ENST00000568763	retained_intron	KNOWN	None	2252	None	None	30194926	30200396	1	None	HCORO1, p57, coronin-1
16	CORO1A	ENSG00000102879	ENST00000566619	processed_transcript	KNOWN	None	2252	None	None	30194930	30197439	1	None	HCORO1, p57, coronin-1
16	CORO1A	ENSG00000102879	ENST00000568982	retained_intron	KNOWN	None	2252	None	None	30194930	30198453	1	None	HCORO1, p57, coronin-1
16	CORO1A	ENSG00000102879	ENST00000570045	protein_coding	KNOWN	CCDS10673	2252	1386	461	30194930	30200285	1	None	HCORO1, p57, coronin-1
16	CORO1A	ENSG00000102879	ENST00000569469	processed_transcript	KNOWN	None	2252	None	None	30194938	30198488	1	None	HCORO1, p57, coronin-1
16	CORO1A	ENSG00000102879	ENST00000565497	protein_coding	NOVEL	None	2252	1170	389	30194940	30200355	1	None	HCORO1, p57, coronin-1
16	CORO1A	ENSG00000102879	ENST00000570244	protein_coding	NOVEL	None	2252	738	245	30194942	30199150	1	None	HCORO1, p57, coronin-1
16	CORO1A	ENSG00000102879	ENST00000569203	protein_coding	KNOWN	None	2252	444	147	30195146	30198259	1	None	HCORO1, p57, coronin-1
16	CORO1A	ENSG00000102879	ENST00000561849	retained_intron	KNOWN	None	2252	None	None	30195539	30196969	1	None	HCORO1, p57, coronin-1
16	CORO1A	ENSG00000102879	ENST00000569970	protein_coding	KNOWN	None	2252	496	164	30196069	30198404	1	None	HCORO1, p57, coronin-1
16	CORO1A	ENSG00000102879	ENST00000567034	retained_intron	KNOWN	None	2252	None	None	30197253	30200396	1	None	HCORO1, p57, coronin-1
16	CORO1A	ENSG00000102879	ENST00000564768	retained_intron	KNOWN	None	2252	None	None	30198003	30200396	1	None	HCORO1, p57, coronin-1
16	CORO1A	ENSG00000102879	ENST00000562129	retained_intron	KNOWN	None	2252	None	None	30199396	30199893	1	None	HCORO1, p57, coronin-1
HSCHR6_MHC_DBB	HLA-Z	ENSG00000237871	ENST00000432847	unprocessed_pseudogene	KNOWN	None	19394	None	None	32842122	32842196	1	None	HLA-Z1
14	None	ENSG00000259110	ENST00000554445	lincRNA	KNOWN	None	None	None	None	97621194	97625073	1	None	None
22	None	ENSG00000226169	ENST00000417957	antisense	KNOWN	None	None	None	None	28112468	28117665	1	None	None
15	None	ENSG00000259539	ENST00000558039	lincRNA	KNOWN	None	None	None	None	45444862	45459724	-1	None	None
13	PWWP2AP1	ENSG00000226683	ENST00000429776	processed_pseudogene	KNOWN	None	39709	None	None	81228890	81231162	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000264962	ENST00000584563	miRNA	NOVEL	None	None	None	None	32882633	32882727	-1	None	None
8	None	ENSG00000251127	ENST00000505627	lincRNA	KNOWN	None	None	None	None	62671653	62678528	-1	None	None
5	ECSCR	ENSG00000249751	ENST00000510908	protein_coding	KNOWN	None	35454	106	34	138784245	138784863	-1	None	ECSM2, ARIA
5	ECSCR	ENSG00000249751	ENST00000515823	protein_coding	KNOWN	None	35454	217	71	138837130	138842328	-1	None	ECSM2, ARIA
10	FXYD6P2	ENSG00000235964	ENST00000444174	processed_pseudogene	KNOWN	None	4032	None	None	38380692	38380979	-1	None	None
14	None	ENSG00000258561	ENST00000556361	lincRNA	KNOWN	None	None	None	None	66679528	66963043	-1	None	None
14	None	ENSG00000258561	ENST00000556874	lincRNA	KNOWN	None	None	None	None	66697051	66976112	-1	None	None
14	None	ENSG00000258561	ENST00000555377	lincRNA	KNOWN	None	None	None	None	66961362	66963052	-1	None	None
HSCHR6_MHC_DBB	RPL32P1	ENSG00000226879	ENST00000418583	processed_pseudogene	KNOWN	None	10339	None	None	33025170	33025579	1	RPL32P	RPL32-L
14	None	ENSG00000258416	ENST00000554307	lincRNA	KNOWN	None	None	None	None	80359423	80440512	-1	None	None
12	CLEC4C	ENSG00000198178	ENST00000542353	protein_coding	KNOWN	CCDS8583	13258	642	213	7882011	7902069	-1	CLECSF11, CLECSF7	HECL, DLEC, BDCA2, CD303
12	CLEC4C	ENSG00000198178	ENST00000354629	protein_coding	KNOWN	CCDS8584	13258	549	182	7882011	7904201	-1	CLECSF11, CLECSF7	HECL, DLEC, BDCA2, CD303
12	CLEC4C	ENSG00000198178	ENST00000360345	protein_coding	KNOWN	CCDS8583	13258	642	213	7882038	7900118	-1	CLECSF11, CLECSF7	HECL, DLEC, BDCA2, CD303
12	CLEC4C	ENSG00000198178	ENST00000537530	protein_coding	PUTATIVE	None	13258	267	88	7882039	7890171	-1	CLECSF11, CLECSF7	HECL, DLEC, BDCA2, CD303
12	CLEC4C	ENSG00000198178	ENST00000543765	protein_coding	NOVEL	None	13258	414	137	7882300	7899935	-1	CLECSF11, CLECSF7	HECL, DLEC, BDCA2, CD303
12	CLEC4C	ENSG00000198178	ENST00000540085	protein_coding	KNOWN	CCDS8584	13258	549	182	7882011	7902069	-1	CLECSF11, CLECSF7	HECL, DLEC, BDCA2, CD303
6	None	ENSG00000214732	ENST00000372963	protein_coding	PUTATIVE	None	None	383	126	42123279	42131156	1	None	None
10	None	ENSG00000225965	ENST00000430475	processed_pseudogene	KNOWN	None	None	None	None	38450498	38450677	1	None	None
9	None	ENSG00000204818	ENST00000423199	unprocessed_pseudogene	KNOWN	None	None	None	None	44170447	44175727	-1	None	None
9	None	ENSG00000204818	ENST00000377553	unprocessed_pseudogene	KNOWN	None	None	None	None	44174401	44175541	-1	None	None
9	None	ENSG00000252985	ENST00000517176	snoRNA	NOVEL	None	None	None	None	129189172	129189249	1	None	None
HSCHR6_MHC_DBB	HLA-DPA2	ENSG00000223894	ENST00000454142	unprocessed_pseudogene	KNOWN	None	4939	None	None	33037464	33043006	-1	HLA-DP2A	None
10	None	ENSG00000241125	ENST00000419779	lincRNA	KNOWN	None	None	None	None	38453576	38466958	1	None	None
14	None	ENSG00000246084	ENST00000554862	lincRNA	KNOWN	None	None	None	None	97925153	98047938	1	None	None
14	None	ENSG00000246084	ENST00000554260	lincRNA	KNOWN	None	None	None	None	97925168	97935722	1	None	None
14	None	ENSG00000246084	ENST00000499910	lincRNA	KNOWN	None	None	None	None	97925207	97930496	1	None	None
9	None	ENSG00000233721	ENST00000454034	lincRNA	KNOWN	None	None	None	None	129278696	129281087	1	None	None
8	RPS23P1	ENSG00000243504	ENST00000491662	processed_pseudogene	KNOWN	None	16043	None	None	98877282	98877713	1	None	None
4	None	ENSG00000205794	ENST00000381811	processed_transcript	KNOWN	None	None	None	None	40044537	40058819	-1	None	None
4	None	ENSG00000205794	ENST00000507914	transcribed_processed_pseudogene	KNOWN	None	None	None	None	40044819	40045755	-1	None	None
8	None	ENSG00000244708	ENST00000468780	processed_pseudogene	KNOWN	None	None	None	None	36438698	36439109	-1	None	None
9	None	ENSG00000226197	ENST00000428006	lincRNA	KNOWN	None	None	None	None	13446490	13487510	1	None	None
8	ASNSP1	ENSG00000248498	ENST00000518311	unprocessed_pseudogene	KNOWN	None	754	None	None	47490835	47526145	-1	ASNSL1	None
20	None	ENSG00000236874	ENST00000446280	lincRNA	KNOWN	None	None	None	None	47012066	47013638	-1	None	None
9	None	ENSG00000233424	ENST00000439824	lincRNA	KNOWN	None	None	None	None	44256580	44263319	-1	None	None
HSCHR6_MHC_DBB	COL11A2P1	ENSG00000232802	ENST00000447348	unprocessed_pseudogene	KNOWN	None	13947	None	None	33049479	33049682	-1	COL11A2P	cD0826Q1.1
9	None	ENSG00000226078	ENST00000425153	lincRNA	KNOWN	None	None	None	None	129289897	129292622	1	None	None
X	None	ENSG00000270916	ENST00000603116	processed_pseudogene	KNOWN	None	None	None	None	150192080	150192195	-1	None	None
9	LINC00583	ENSG00000205636	ENST00000381010	lincRNA	KNOWN	None	31437	None	None	13927970	13945609	1	C9orf146	None
8	RNA5SP264	ENSG00000199985	ENST00000363115	rRNA	KNOWN	None	43164	None	None	36621963	36622069	1	RN5S264	None
9	None	ENSG00000214645	ENST00000398726	protein_coding	NOVEL	None	None	375	124	110539471	110540419	-1	None	None
HSCHR6_MHC_DBB	HLA-DPB2	ENSG00000225429	ENST00000457050	unprocessed_pseudogene	KNOWN	None	4941	None	None	33073504	33074770	1	HLA-DP2B	DP2B, DPB2
15	ZNF444P1	ENSG00000259738	ENST00000559497	processed_pseudogene	KNOWN	None	35157	None	None	59157205	59157502	1	ZNF864P	None
4	NPNT	ENSG00000168743	ENST00000504304	protein_coding	PUTATIVE	None	27405	184	60	106815932	106859568	1	None	EGFL6L, POEM
4	NPNT	ENSG00000168743	ENST00000379987	protein_coding	KNOWN	CCDS34046	27405	1698	565	106816594	106892831	1	None	EGFL6L, POEM
4	NPNT	ENSG00000168743	ENST00000453617	protein_coding	NOVEL	CCDS54784	27405	1749	582	106816597	106890604	1	None	EGFL6L, POEM
4	NPNT	ENSG00000168743	ENST00000427316	protein_coding	NOVEL	CCDS54785	27405	1788	595	106816598	106890628	1	None	EGFL6L, POEM
4	NPNT	ENSG00000168743	ENST00000514622	protein_coding	NOVEL	CCDS54787	27405	1611	536	106816598	106890686	1	None	EGFL6L, POEM
4	NPNT	ENSG00000168743	ENST00000305572	protein_coding	KNOWN	None	27405	1530	509	106816608	106892827	1	None	EGFL6L, POEM
4	NPNT	ENSG00000168743	ENST00000506666	protein_coding	NOVEL	CCDS54786	27405	1701	566	106816650	106890473	1	None	EGFL6L, POEM
4	NPNT	ENSG00000168743	ENST00000503451	protein_coding	NOVEL	None	27405	1829	608	106816810	106890137	1	None	EGFL6L, POEM
4	NPNT	ENSG00000168743	ENST00000514837	protein_coding	PUTATIVE	None	27405	1360	452	106819058	106892373	1	None	EGFL6L, POEM
4	NPNT	ENSG00000168743	ENST00000513430	processed_transcript	KNOWN	None	27405	None	None	106819259	106859471	1	None	EGFL6L, POEM
4	NPNT	ENSG00000168743	ENST00000506056	retained_intron	KNOWN	None	27405	None	None	106833020	106859505	1	None	EGFL6L, POEM
4	NPNT	ENSG00000168743	ENST00000511518	retained_intron	KNOWN	None	27405	None	None	106833305	106848735	1	None	EGFL6L, POEM
4	NPNT	ENSG00000168743	ENST00000505821	processed_transcript	KNOWN	None	27405	None	None	106833333	106861295	1	None	EGFL6L, POEM
4	NPNT	ENSG00000168743	ENST00000514632	retained_intron	KNOWN	None	27405	None	None	106880056	106890102	1	None	EGFL6L, POEM
4	NPNT	ENSG00000168743	ENST00000504787	protein_coding	PUTATIVE	None	27405	313	103	106880216	106892827	1	None	EGFL6L, POEM
4	NPNT	ENSG00000168743	ENST00000505917	protein_coding	PUTATIVE	None	27405	80	25	106880245	106925184	1	None	EGFL6L, POEM
20	EPB41L1	ENSG00000088367	ENST00000202028	protein_coding	KNOWN	CCDS13272	3378	2340	779	34679426	34818263	1	None	KIAA0338
20	EPB41L1	ENSG00000088367	ENST00000432589	protein_coding	KNOWN	None	3378	112	36	34679764	34763593	1	None	KIAA0338
20	EPB41L1	ENSG00000088367	ENST00000406771	protein_coding	KNOWN	None	3378	504	167	34680602	34770207	1	None	KIAA0338
20	EPB41L1	ENSG00000088367	ENST00000430276	protein_coding	KNOWN	None	3378	771	256	34680620	34776352	1	None	KIAA0338
20	EPB41L1	ENSG00000088367	ENST00000373950	protein_coding	NOVEL	None	3378	2319	772	34680632	34818249	1	None	KIAA0338
20	EPB41L1	ENSG00000088367	ENST00000452261	protein_coding	KNOWN	None	3378	566	187	34680654	34770269	1	None	KIAA0338
20	EPB41L1	ENSG00000088367	ENST00000447825	protein_coding	KNOWN	None	3378	342	113	34680759	34763637	1	None	KIAA0338
20	EPB41L1	ENSG00000088367	ENST00000427533	protein_coding	KNOWN	None	3378	177	58	34709644	34761876	1	None	KIAA0338
20	EPB41L1	ENSG00000088367	ENST00000373945	protein_coding	KNOWN	None	3378	599	198	34742664	34773257	1	None	KIAA0338
20	EPB41L1	ENSG00000088367	ENST00000338074	protein_coding	KNOWN	CCDS13271	3378	2646	881	34742672	34820721	1	None	KIAA0338
20	EPB41L1	ENSG00000088367	ENST00000373941	protein_coding	NOVEL	CCDS58771	3378	2643	880	34761691	34817262	1	None	KIAA0338
20	EPB41L1	ENSG00000088367	ENST00000451082	protein_coding	NOVEL	None	3378	803	266	34778687	34809866	1	None	KIAA0338
20	EPB41L1	ENSG00000088367	ENST00000454226	protein_coding	NOVEL	None	3378	593	196	34785802	34809856	1	None	KIAA0338
20	EPB41L1	ENSG00000088367	ENST00000479336	processed_transcript	KNOWN	None	3378	None	None	34795373	34800298	1	None	KIAA0338
20	EPB41L1	ENSG00000088367	ENST00000432603	protein_coding	NOVEL	None	3378	359	118	34802295	34817767	1	None	KIAA0338
20	EPB41L1	ENSG00000088367	ENST00000373946	protein_coding	KNOWN	CCDS58770	3378	2106	701	34713366	34820721	1	None	KIAA0338
20	EPB41L1	ENSG00000088367	ENST00000441639	protein_coding	KNOWN	CCDS13272	3378	2340	779	34700348	34820721	1	None	KIAA0338
8	None	ENSG00000219491	ENST00000510120	unprocessed_pseudogene	KNOWN	None	None	None	None	36746000	36746825	1	None	None
9	None	ENSG00000216829	ENST00000509595	unprocessed_pseudogene	KNOWN	None	None	None	None	44302232	44303613	1	None	None
9	None	ENSG00000216829	ENST00000441829	unprocessed_pseudogene	KNOWN	None	None	None	None	44302233	44303807	1	None	None
8	None	ENSG00000245970	ENST00000501016	antisense	KNOWN	None	None	None	None	99053954	99056349	1	None	None
10	None	ENSG00000224761	ENST00000423162	processed_transcript	KNOWN	None	None	None	None	38464596	38501285	1	None	None
HSCHR6_MHC_DBB	HLA-DPA3	ENSG00000223696	ENST00000433946	unprocessed_pseudogene	KNOWN	None	19393	None	None	33076902	33089011	-1	None	None
19	None	ENSG00000141979	ENST00000409035	nonsense_mediated_decay	KNOWN	None	None	1284	427	16589878	16739015	-1	None	None
X	None	ENSG00000212595	ENST00000391293	rRNA	NOVEL	None	None	None	None	150194767	150194878	-1	None	None
20	RNU7-144P	ENSG00000238452	ENST00000459405	snRNA	KNOWN	None	45678	None	None	47122480	47122555	-1	None	None
8	None	ENSG00000253507	ENST00000519695	lincRNA	KNOWN	None	None	None	None	132320792	132329830	1	None	None
8	None	ENSG00000253507	ENST00000524275	lincRNA	KNOWN	None	None	None	None	132320792	132329879	1	None	None
8	None	ENSG00000253507	ENST00000519005	lincRNA	KNOWN	None	None	None	None	132322719	132329753	1	None	None
10	None	ENSG00000236309	ENST00000453482	processed_pseudogene	KNOWN	None	None	None	None	38475598	38475699	1	None	None
15	None	ENSG00000260648	ENST00000568093	sense_intronic	KNOWN	None	None	None	None	40524283	40528308	1	None	None
15	None	ENSG00000259519	ENST00000560034	antisense	KNOWN	None	None	None	None	45462542	45492156	1	None	None
22	INPP5J	ENSG00000185133	ENST00000463528	processed_transcript	KNOWN	None	8956	None	None	31518717	31520867	1	PIB5PA	INPP5
22	INPP5J	ENSG00000185133	ENST00000412985	protein_coding	PUTATIVE	None	8956	433	143	31518952	31521359	1	PIB5PA	INPP5
22	INPP5J	ENSG00000185133	ENST00000331075	protein_coding	KNOWN	None	8956	3021	1006	31518952	31530682	1	PIB5PA	INPP5
22	INPP5J	ENSG00000185133	ENST00000461241	retained_intron	KNOWN	None	8956	None	None	31518961	31530682	1	PIB5PA	INPP5
22	INPP5J	ENSG00000185133	ENST00000420017	protein_coding	PUTATIVE	None	8956	306	101	31518970	31523023	1	PIB5PA	INPP5
22	INPP5J	ENSG00000185133	ENST00000400294	protein_coding	KNOWN	None	8956	1920	639	31518980	31530682	1	PIB5PA	INPP5
22	INPP5J	ENSG00000185133	ENST00000405300	protein_coding	KNOWN	None	8956	1920	639	31518980	31530682	1	PIB5PA	INPP5
22	INPP5J	ENSG00000185133	ENST00000404390	protein_coding	KNOWN	CCDS46687	8956	1917	638	31518980	31530682	1	PIB5PA	INPP5
22	INPP5J	ENSG00000185133	ENST00000402238	protein_coding	PUTATIVE	None	8956	1038	345	31523746	31530622	1	PIB5PA	INPP5
22	INPP5J	ENSG00000185133	ENST00000404453	protein_coding	PUTATIVE	None	8956	1116	371	31523775	31530622	1	PIB5PA	INPP5
22	INPP5J	ENSG00000185133	ENST00000401755	protein_coding	PUTATIVE	None	8956	1116	371	31523788	31530622	1	PIB5PA	INPP5
22	INPP5J	ENSG00000185133	ENST00000412277	protein_coding	KNOWN	None	8956	2820	939	31518952	31530425	1	PIB5PA	INPP5
20	None	ENSG00000228482	ENST00000445589	lincRNA	KNOWN	None	None	None	None	6711905	6716783	-1	None	None
9	ACTL7B	ENSG00000148156	ENST00000374667	protein_coding	KNOWN	CCDS6771	162	1248	415	111616871	111619239	-1	None	Tact1
X	MIR4330	ENSG00000265789	ENST00000579077	miRNA	KNOWN	None	38273	None	None	150336694	150336798	1	None	hsa-mir-4330
8	None	ENSG00000254119	ENST00000520862	lincRNA	KNOWN	None	None	None	None	62697606	62765324	1	None	None
8	None	ENSG00000254119	ENST00000523042	lincRNA	KNOWN	None	None	None	None	62737887	62765264	1	None	None
8	None	ENSG00000254119	ENST00000518593	lincRNA	KNOWN	None	None	None	None	62737907	62856739	1	None	None
8	None	ENSG00000254119	ENST00000519452	lincRNA	KNOWN	None	None	None	None	62737996	62835382	1	None	None
8	None	ENSG00000254119	ENST00000519967	lincRNA	KNOWN	None	None	None	None	62738028	62786738	1	None	None
8	None	ENSG00000254119	ENST00000517953	lincRNA	KNOWN	None	None	None	None	62747476	62768411	1	None	None
8	None	ENSG00000254119	ENST00000520097	lincRNA	KNOWN	None	None	None	None	62747507	62807294	1	None	None
8	None	ENSG00000254119	ENST00000519766	lincRNA	KNOWN	None	None	None	None	62747515	62852093	1	None	None
8	None	ENSG00000254119	ENST00000523728	lincRNA	KNOWN	None	None	None	None	62765212	62798118	1	None	None
8	None	ENSG00000254119	ENST00000521501	lincRNA	KNOWN	None	None	None	None	62765213	62774599	1	None	None
8	None	ENSG00000254119	ENST00000519990	lincRNA	KNOWN	None	None	None	None	62791441	62798121	1	None	None
4	KRT18P54	ENSG00000250834	ENST00000513396	processed_pseudogene	KNOWN	None	39425	None	None	136292332	136293079	-1	None	None
14	DIO2-AS1	ENSG00000258766	ENST00000553979	antisense	KNOWN	None	44153	None	None	80677762	80921812	1	None	None
10	None	ENSG00000226113	ENST00000450980	lincRNA	KNOWN	None	None	None	None	38536850	38622083	1	None	None
X	None	ENSG00000201660	ENST00000364790	snoRNA	NOVEL	None	None	None	None	5328163	5328292	1	None	None
20	None	ENSG00000251876	ENST00000516067	miRNA	NOVEL	None	None	None	None	47355867	47355985	-1	None	None
4	None	ENSG00000207849	ENST00000385114	miRNA	NOVEL	None	None	None	None	136292745	136292836	-1	None	None
8	SNORA72	ENSG00000207067	ENST00000384339	snoRNA	KNOWN	None	10234	None	None	99054314	99054445	-1	RNU72	U72
15	None	ENSG00000259932	ENST00000568314	sense_intronic	KNOWN	None	None	None	None	45490715	45491337	-1	None	None
10	None	ENSG00000234941	ENST00000418733	processed_pseudogene	KNOWN	None	None	None	None	38539370	38539531	-1	None	None
HSCHR6_MHC_MANN	LY6G6C	ENSG00000235452	ENST00000470881	protein_coding	PUTATIVE	None	13936	210	69	31725917	31728948	-1	C6orf24	G6c, NG24
HSCHR6_MHC_MANN	LY6G6C	ENSG00000235452	ENST00000419939	protein_coding	KNOWN	None	13936	378	125	31725917	31729114	-1	C6orf24	G6c, NG24
4	TARS2P1	ENSG00000248104	ENST00000506124	processed_pseudogene	KNOWN	None	43712	None	None	136486272	136488312	-1	None	None
20	ATRN	ENSG00000088812	ENST00000262919	protein_coding	KNOWN	CCDS13053	885	4290	1429	3451687	3631769	1	None	DPPT-L, MGCA
20	ATRN	ENSG00000088812	ENST00000446916	protein_coding	KNOWN	CCDS13054	885	3819	1272	3451755	3596594	1	None	DPPT-L, MGCA
6	None	ENSG00000272162	ENST00000480294	nonsense_mediated_decay	KNOWN	None	None	129	42	10748027	10930656	1	None	None
6	GUCA1B	ENSG00000112599	ENST00000230361	protein_coding	KNOWN	CCDS4865	4679	603	200	42152139	42162654	-1	None	GCAP2, RP48
20	SNAP23P	ENSG00000230758	ENST00000433229	processed_pseudogene	KNOWN	None	16561	None	None	47654894	47655139	-1	None	dJ155G6.3
5	PCDHGA4	ENSG00000262576	ENST00000571252	protein_coding	KNOWN	CCDS58979	8702	2796	931	140734768	140892546	1	None	PCDH-GAMMA-A4
16	AMDHD2	ENSG00000162066	ENST00000568263	protein_coding	PUTATIVE	None	24262	809	268	2570358	2580492	1	None	CGI-14
16	AMDHD2	ENSG00000162066	ENST00000293971	protein_coding	KNOWN	None	24262	1230	409	2570366	2579699	1	None	CGI-14
16	AMDHD2	ENSG00000162066	ENST00000302956	protein_coding	KNOWN	CCDS10471	24262	1320	439	2570366	2581423	1	None	CGI-14
16	AMDHD2	ENSG00000162066	ENST00000565963	retained_intron	KNOWN	None	24262	None	None	2570391	2578055	1	None	CGI-14
16	AMDHD2	ENSG00000162066	ENST00000413459	protein_coding	KNOWN	CCDS53984	24262	1785	594	2570391	2580955	1	None	CGI-14
16	AMDHD2	ENSG00000162066	ENST00000563633	nonsense_mediated_decay	KNOWN	None	24262	498	165	2570394	2579061	1	None	CGI-14
16	AMDHD2	ENSG00000162066	ENST00000567475	retained_intron	KNOWN	None	24262	None	None	2570402	2578014	1	None	CGI-14
16	AMDHD2	ENSG00000162066	ENST00000569219	retained_intron	KNOWN	None	24262	None	None	2570404	2577880	1	None	CGI-14
16	AMDHD2	ENSG00000162066	ENST00000566706	protein_coding	NOVEL	None	24262	902	299	2570422	2579518	1	None	CGI-14
16	AMDHD2	ENSG00000162066	ENST00000569879	protein_coding	NOVEL	None	24262	890	295	2570426	2578693	1	None	CGI-14
16	AMDHD2	ENSG00000162066	ENST00000563556	protein_coding	NOVEL	None	24262	467	154	2570437	2577837	1	None	CGI-14
16	AMDHD2	ENSG00000162066	ENST00000565570	processed_transcript	KNOWN	None	24262	None	None	2577081	2581423	1	None	CGI-14
16	AMDHD2	ENSG00000162066	ENST00000570028	retained_intron	KNOWN	None	24262	None	None	2577571	2578496	1	None	CGI-14
16	AMDHD2	ENSG00000162066	ENST00000566947	retained_intron	KNOWN	None	24262	None	None	2577880	2578490	1	None	CGI-14
16	AMDHD2	ENSG00000162066	ENST00000561487	retained_intron	KNOWN	None	24262	None	None	2577910	2578842	1	None	CGI-14
16	AMDHD2	ENSG00000162066	ENST00000563444	retained_intron	KNOWN	None	24262	None	None	2578353	2579625	1	None	CGI-14
16	AMDHD2	ENSG00000162066	ENST00000563145	retained_intron	KNOWN	None	24262	None	None	2578447	2579684	1	None	CGI-14
16	AMDHD2	ENSG00000162066	ENST00000563453	retained_intron	KNOWN	None	24262	None	None	2578704	2579533	1	None	CGI-14
HSCHR1_1_CTG31	INTS3	ENSG00000262826	ENST00000576030	protein_coding	KNOWN	None	26153	3129	1042	153717774	153763786	1	C1orf60	FLJ21919, INT3, SOSS-A
HSCHR1_1_CTG31	INTS3	ENSG00000262826	ENST00000571768	protein_coding	KNOWN	None	26153	3129	1042	153717798	153763242	1	C1orf60	FLJ21919, INT3, SOSS-A
HSCHR1_1_CTG31	INTS3	ENSG00000262826	ENST00000575952	retained_intron	KNOWN	None	26153	None	None	153718190	153763786	1	C1orf60	FLJ21919, INT3, SOSS-A
HSCHR1_1_CTG31	INTS3	ENSG00000262826	ENST00000576422	protein_coding	KNOWN	None	26153	2709	902	153740561	153763435	1	C1orf60	FLJ21919, INT3, SOSS-A
HSCHR1_1_CTG31	INTS3	ENSG00000262826	ENST00000575774	processed_transcript	KNOWN	None	26153	None	None	153740842	153763786	1	C1orf60	FLJ21919, INT3, SOSS-A
HSCHR1_1_CTG31	INTS3	ENSG00000262826	ENST00000576641	retained_intron	KNOWN	None	26153	None	None	153741784	153750609	1	C1orf60	FLJ21919, INT3, SOSS-A
HSCHR1_1_CTG31	INTS3	ENSG00000262826	ENST00000575708	nonsense_mediated_decay	KNOWN	None	26153	148	48	153747344	153763026	1	C1orf60	FLJ21919, INT3, SOSS-A
HSCHR1_1_CTG31	INTS3	ENSG00000262826	ENST00000574879	retained_intron	KNOWN	None	26153	None	None	153749381	153752547	1	C1orf60	FLJ21919, INT3, SOSS-A
HSCHR1_1_CTG31	INTS3	ENSG00000262826	ENST00000573844	retained_intron	KNOWN	None	26153	None	None	153756182	153763786	1	C1orf60	FLJ21919, INT3, SOSS-A
HSCHR1_1_CTG31	INTS3	ENSG00000262826	ENST00000571829	retained_intron	KNOWN	None	26153	None	None	153756538	153763786	1	C1orf60	FLJ21919, INT3, SOSS-A
4	None	ENSG00000250865	ENST00000511234	lincRNA	KNOWN	None	None	None	None	136713539	136727059	-1	None	None
13	B3GALTL	ENSG00000187676	ENST00000343307	protein_coding	KNOWN	CCDS9341	20207	1497	498	31774073	31906413	1	None	B3GTL, B3Glc-T
13	B3GALTL	ENSG00000187676	ENST00000461652	processed_transcript	KNOWN	None	20207	None	None	31834544	31858892	1	None	B3GTL, B3Glc-T
6	DEFB133	ENSG00000214643	ENST00000398721	protein_coding	KNOWN	None	31331	186	61	49913814	49917157	-1	None	None
4	LINC00613	ENSG00000248330	ENST00000505952	lincRNA	KNOWN	None	44060	None	None	136788138	136789059	-1	None	None
4	LINC00613	ENSG00000248330	ENST00000508714	lincRNA	KNOWN	None	44060	None	None	136788145	136834835	-1	None	None
4	LINC00613	ENSG00000248330	ENST00000504365	lincRNA	KNOWN	None	44060	None	None	136788158	136809245	-1	None	None
HSCHR6_MHC_COX	None	ENSG00000258059	ENST00000551028	pseudogene	NOVEL	None	None	None	None	29263741	29264280	1	None	None
15	None	ENSG00000242747	ENST00000465295	processed_pseudogene	KNOWN	None	None	None	None	59161858	59162333	1	None	None
15	None	ENSG00000259544	ENST00000561417	antisense	KNOWN	None	None	None	None	86269346	86270458	-1	None	None
15	None	ENSG00000225798	ENST00000452467	antisense	KNOWN	None	None	None	None	59182166	59186281	1	None	None
4	SLC2A9	ENSG00000109667	ENST00000508585	processed_transcript	KNOWN	None	13446	None	None	9772777	9828224	-1	None	Glut9, GLUTX, URATv1
4	SLC2A9	ENSG00000109667	ENST00000503803	processed_transcript	KNOWN	None	13446	None	None	9781431	9889266	-1	None	Glut9, GLUTX, URATv1
4	SLC2A9	ENSG00000109667	ENST00000512342	processed_transcript	KNOWN	None	13446	None	None	9800284	9889266	-1	None	Glut9, GLUTX, URATv1
4	SLC2A9	ENSG00000109667	ENST00000503280	processed_transcript	KNOWN	None	13446	None	None	9800702	9909969	-1	None	Glut9, GLUTX, URATv1
4	SLC2A9	ENSG00000109667	ENST00000264784	protein_coding	KNOWN	CCDS3407	13446	1623	540	9827848	10023107	-1	None	Glut9, GLUTX, URATv1
4	SLC2A9	ENSG00000109667	ENST00000506583	protein_coding	KNOWN	CCDS3406	13446	1536	511	9827848	10056499	-1	None	Glut9, GLUTX, URATv1
4	SLC2A9	ENSG00000109667	ENST00000505104	processed_transcript	KNOWN	None	13446	None	None	9881830	10041834	-1	None	Glut9, GLUTX, URATv1
4	SLC2A9	ENSG00000109667	ENST00000513129	protein_coding	KNOWN	None	13446	594	197	9982216	10056560	-1	None	Glut9, GLUTX, URATv1
4	SLC2A9	ENSG00000109667	ENST00000506839	processed_transcript	KNOWN	None	13446	None	None	9987292	10020918	-1	None	Glut9, GLUTX, URATv1
4	SLC2A9	ENSG00000109667	ENST00000505506	processed_transcript	KNOWN	None	13446	None	None	9997293	10020699	-1	None	Glut9, GLUTX, URATv1
4	SLC2A9	ENSG00000109667	ENST00000509214	processed_transcript	KNOWN	None	13446	None	None	10027348	10030924	-1	None	Glut9, GLUTX, URATv1
4	SLC2A9	ENSG00000109667	ENST00000481042	processed_transcript	KNOWN	None	13446	None	None	10035849	10042012	-1	None	Glut9, GLUTX, URATv1
4	SLC2A9	ENSG00000109667	ENST00000309065	protein_coding	KNOWN	CCDS3406	13446	1536	511	9827850	10041872	-1	None	Glut9, GLUTX, URATv1
15	None	ENSG00000259407	ENST00000558375	antisense	KNOWN	None	None	None	None	86287340	86293512	-1	None	None
14	RN7SL710P	ENSG00000240730	ENST00000495675	misc_RNA	KNOWN	None	46726	None	None	97996228	97996510	-1	None	None
4	RNU1-89P	ENSG00000207322	ENST00000384592	snRNA	KNOWN	None	48431	None	None	136917084	136917247	-1	None	None
20	None	ENSG00000251833	ENST00000516024	snoRNA	NOVEL	None	None	None	None	6841661	6841755	1	None	None
15	None	ENSG00000259393	ENST00000558683	processed_pseudogene	KNOWN	None	None	None	None	59259245	59260007	-1	None	None
5	PCDHGB2	ENSG00000253910	ENST00000522605	protein_coding	KNOWN	CCDS54924	8709	2796	931	140739703	140892546	1	None	PCDH-GAMMA-B2
4	None	ENSG00000251492	ENST00000512969	processed_pseudogene	KNOWN	None	None	None	None	136925664	136926057	-1	None	None
15	None	ENSG00000259762	ENST00000558637	antisense	KNOWN	None	None	None	None	86293567	86296132	-1	None	None
5	KIAA1024L	ENSG00000186367	ENST00000564719	protein_coding	KNOWN	CCDS58966	33914	573	190	129083772	129102425	1	None	None
5	KIAA1024L	ENSG00000186367	ENST00000334562	protein_coding	KNOWN	None	33914	324	107	129096155	129100756	1	None	None
5	BRIX1	ENSG00000113460	ENST00000336767	protein_coding	KNOWN	CCDS34143	24170	1062	353	34915481	34926101	1	BXDC2	BRIX, FLJ11100
5	BRIX1	ENSG00000113460	ENST00000510960	retained_intron	KNOWN	None	24170	None	None	34915782	34923462	1	BXDC2	BRIX, FLJ11100
5	BRIX1	ENSG00000113460	ENST00000515798	retained_intron	KNOWN	None	24170	None	None	34915815	34925785	1	BXDC2	BRIX, FLJ11100
5	BRIX1	ENSG00000113460	ENST00000510834	retained_intron	KNOWN	None	24170	None	None	34915821	34922030	1	BXDC2	BRIX, FLJ11100
5	BRIX1	ENSG00000113460	ENST00000506023	processed_transcript	KNOWN	None	24170	None	None	34915857	34925450	1	BXDC2	BRIX, FLJ11100
HSCHR6_MHC_APD	PPP1R18	ENSG00000230341	ENST00000490538	processed_transcript	KNOWN	None	29413	None	None	30652415	30663184	-1	KIAA1949	phostensin
HSCHR6_MHC_APD	PPP1R18	ENSG00000230341	ENST00000498031	processed_transcript	KNOWN	None	29413	None	None	30652415	30663219	-1	KIAA1949	phostensin
HSCHR6_MHC_APD	PPP1R18	ENSG00000230341	ENST00000444206	protein_coding	KNOWN	None	29413	1842	613	30652415	30663242	-1	KIAA1949	phostensin
HSCHR6_MHC_APD	PPP1R18	ENSG00000230341	ENST00000438815	protein_coding	KNOWN	None	29413	1842	613	30652415	30663921	-1	KIAA1949	phostensin
HSCHR6_MHC_APD	PPP1R18	ENSG00000230341	ENST00000552716	protein_coding	KNOWN	None	29413	1134	377	30653084	30662044	-1	KIAA1949	phostensin
8	None	ENSG00000252158	ENST00000516349	snoRNA	NOVEL	None	None	None	None	132445023	132445116	-1	None	None
4	None	ENSG00000261166	ENST00000569694	lincRNA	KNOWN	None	None	None	None	137018952	137020395	-1	None	None
8	None	ENSG00000254255	ENST00000521318	processed_pseudogene	KNOWN	None	None	None	None	132724759	132725227	1	None	None
14	None	ENSG00000197176	ENST00000355909	lincRNA	KNOWN	None	None	None	None	98098984	98152995	-1	None	None
14	None	ENSG00000197176	ENST00000556163	lincRNA	KNOWN	None	None	None	None	98099681	98152964	-1	None	None
14	None	ENSG00000197176	ENST00000554197	lincRNA	KNOWN	None	None	None	None	98112384	98152995	-1	None	None
6	RNF39	ENSG00000204618	ENST00000376751	protein_coding	KNOWN	CCDS4674	18064	1065	354	30038043	30043626	-1	None	HZFw1, LIRF
6	RNF39	ENSG00000204618	ENST00000244360	protein_coding	KNOWN	CCDS4673	18064	1263	420	30038043	30043664	-1	None	HZFw1, LIRF
10	OR7E26P	ENSG00000228547	ENST00000502808	unprocessed_pseudogene	KNOWN	None	8398	None	None	15041102	15042077	-1	OR7E67P, OR7E69P, OR7E70P, OR7E68P	OR1-51, OR1-72, OR1-73, OR912-95
15	None	ENSG00000259416	ENST00000557908	antisense	KNOWN	None	None	None	None	86298172	86299468	-1	None	None
14	TMED8	ENSG00000100580	ENST00000216468	protein_coding	KNOWN	CCDS32125	18633	978	325	77801364	77843452	-1	FAM15B	None
16	MSRB1	ENSG00000198736	ENST00000361871	protein_coding	KNOWN	CCDS42100	14133	351	116	1988211	1993327	-1	SEPX1	SelR, SepR, SelX
16	MSRB1	ENSG00000198736	ENST00000473663	protein_coding	PUTATIVE	None	14133	169	55	1988943	1993124	-1	SEPX1	SelR, SepR, SelX
16	MSRB1	ENSG00000198736	ENST00000399753	protein_coding	PUTATIVE	None	14133	681	226	1989020	1993196	-1	SEPX1	SelR, SepR, SelX
16	MSRB1	ENSG00000198736	ENST00000564908	protein_coding	PUTATIVE	None	14133	456	151	1989096	1993200	-1	SEPX1	SelR, SepR, SelX
16	MSRB1	ENSG00000198736	ENST00000489198	processed_transcript	PUTATIVE	None	14133	None	None	1990979	1991940	-1	SEPX1	SelR, SepR, SelX
HSCHR6_MHC_COX	DDX6P1	ENSG00000229045	ENST00000445549	processed_pseudogene	KNOWN	None	13948	None	None	29294120	29295554	-1	DDX6P	DDX6-Lp, bA150A6.3
10	HSD17B7P2	ENSG00000099251	ENST00000494540	processed_transcript	KNOWN	None	28120	None	None	38645308	38667433	1	None	HSD17B7, bA291L22.1
10	HSD17B7P2	ENSG00000099251	ENST00000471365	transcribed_unprocessed_pseudogene	KNOWN	None	28120	None	None	38645383	38667035	1	None	HSD17B7, bA291L22.1
10	HSD17B7P2	ENSG00000099251	ENST00000356314	unprocessed_pseudogene	KNOWN	None	28120	None	None	38645328	38667124	1	None	HSD17B7, bA291L22.1
10	HSD17B7P2	ENSG00000099251	ENST00000374560	unprocessed_pseudogene	KNOWN	None	28120	None	None	38645306	38667124	1	None	HSD17B7, bA291L22.1
10	HSD17B7P2	ENSG00000099251	ENST00000277668	unprocessed_pseudogene	KNOWN	None	28120	None	None	38645305	38667124	1	None	HSD17B7, bA291L22.1
8	HPYR1	ENSG00000253521	ENST00000520457	lincRNA	KNOWN	None	16071	None	None	133572745	133573726	-1	None	HPRG1, NCRNA00027, LINC00027
8	None	ENSG00000222570	ENST00000410638	miRNA	NOVEL	None	None	None	None	133693146	133693248	-1	None	None
15	None	ENSG00000241640	ENST00000467293	processed_pseudogene	KNOWN	None	None	None	None	59341598	59342584	-1	None	None
8	ZNF7	ENSG00000147789	ENST00000532777	protein_coding	PUTATIVE	None	13139	724	240	146052849	146067216	1	None	KOX4, HF.16
8	ZNF7	ENSG00000147789	ENST00000532382	retained_intron	KNOWN	None	13139	None	None	146052940	146066860	1	None	KOX4, HF.16
8	ZNF7	ENSG00000147789	ENST00000446747	protein_coding	PUTATIVE	None	13139	2094	697	146052944	146068605	1	None	KOX4, HF.16
8	ZNF7	ENSG00000147789	ENST00000525266	protein_coding	PUTATIVE	None	13139	447	148	146052944	146072894	1	None	KOX4, HF.16
8	ZNF7	ENSG00000147789	ENST00000530776	processed_transcript	KNOWN	None	13139	None	None	146052945	146067121	1	None	KOX4, HF.16
8	ZNF7	ENSG00000147789	ENST00000325217	protein_coding	PUTATIVE	None	13139	480	159	146052945	146071580	1	None	KOX4, HF.16
8	ZNF7	ENSG00000147789	ENST00000530682	retained_intron	KNOWN	None	13139	None	None	146052962	146055362	1	None	KOX4, HF.16
8	ZNF7	ENSG00000147789	ENST00000529767	retained_intron	KNOWN	None	13139	None	None	146052962	146066909	1	None	KOX4, HF.16
8	ZNF7	ENSG00000147789	ENST00000532051	processed_transcript	KNOWN	None	13139	None	None	146052964	146066779	1	None	KOX4, HF.16
8	ZNF7	ENSG00000147789	ENST00000533314	protein_coding	PUTATIVE	None	13139	440	145	146052964	146066833	1	None	KOX4, HF.16
8	ZNF7	ENSG00000147789	ENST00000527218	protein_coding	PUTATIVE	None	13139	469	155	146052964	146066964	1	None	KOX4, HF.16
8	ZNF7	ENSG00000147789	ENST00000529819	protein_coding	PUTATIVE	None	13139	261	86	146052965	146067351	1	None	KOX4, HF.16
8	ZNF7	ENSG00000147789	ENST00000532393	processed_transcript	KNOWN	None	13139	None	None	146052968	146067167	1	None	KOX4, HF.16
8	ZNF7	ENSG00000147789	ENST00000530082	retained_intron	KNOWN	None	13139	None	None	146052982	146066860	1	None	KOX4, HF.16
8	ZNF7	ENSG00000147789	ENST00000528372	protein_coding	KNOWN	CCDS6435	13139	2061	686	146053003	146069157	1	None	KOX4, HF.16
8	ZNF7	ENSG00000147789	ENST00000528130	protein_coding	PUTATIVE	None	13139	405	134	146054427	146064233	1	None	KOX4, HF.16
8	ZNF7	ENSG00000147789	ENST00000528017	retained_intron	KNOWN	None	13139	None	None	146059118	146068605	1	None	KOX4, HF.16
8	ZNF7	ENSG00000147789	ENST00000325241	protein_coding	KNOWN	CCDS6435	13139	2061	686	146052903	146068605	1	None	KOX4, HF.16
8	ZNF7	ENSG00000147789	ENST00000544249	protein_coding	KNOWN	None	13139	1773	590	146052944	146068605	1	None	KOX4, HF.16
15	MIR1276	ENSG00000221634	ENST00000408707	miRNA	KNOWN	None	35347	None	None	86313727	86313809	-1	MIRN1276	hsa-mir-1276
16	TELO2	ENSG00000100726	ENST00000497339	nonsense_mediated_decay	KNOWN	None	29099	1281	426	1543345	1557326	1	None	KIAA0683, hCLK2, TEL2
16	TELO2	ENSG00000100726	ENST00000262319	protein_coding	KNOWN	CCDS32363	29099	2514	837	1543364	1560458	1	None	KIAA0683, hCLK2, TEL2
16	TELO2	ENSG00000100726	ENST00000564507	processed_transcript	KNOWN	None	29099	None	None	1551708	1556666	1	None	KIAA0683, hCLK2, TEL2
16	TELO2	ENSG00000100726	ENST00000567423	protein_coding	NOVEL	None	29099	479	158	1551766	1556263	1	None	KIAA0683, hCLK2, TEL2
16	TELO2	ENSG00000100726	ENST00000567427	processed_transcript	KNOWN	None	29099	None	None	1552963	1556780	1	None	KIAA0683, hCLK2, TEL2
16	TELO2	ENSG00000100726	ENST00000569744	retained_intron	KNOWN	None	29099	None	None	1555140	1556972	1	None	KIAA0683, hCLK2, TEL2
16	TELO2	ENSG00000100726	ENST00000563676	retained_intron	KNOWN	None	29099	None	None	1555442	1556632	1	None	KIAA0683, hCLK2, TEL2
16	TELO2	ENSG00000100726	ENST00000568240	retained_intron	KNOWN	None	29099	None	None	1556535	1560458	1	None	KIAA0683, hCLK2, TEL2
6	DEFB114	ENSG00000177684	ENST00000322066	protein_coding	KNOWN	CCDS34474	18095	210	69	49927962	49931818	-1	None	DEFB-14
5	CHSY3	ENSG00000198108	ENST00000305031	protein_coding	KNOWN	CCDS34223	24293	2649	882	129240165	129522327	1	None	CSS3, CHSY-2
5	CHSY3	ENSG00000198108	ENST00000507545	processed_transcript	KNOWN	None	24293	None	None	129243780	129520195	1	None	CSS3, CHSY-2
8	None	ENSG00000270137	ENST00000602328	sense_intronic	KNOWN	None	None	None	None	133838424	133839148	1	None	None
20	None	ENSG00000232271	ENST00000425900	lincRNA	KNOWN	None	None	None	None	7050261	7127303	1	None	None
HSCHR6_MHC_COX	PBX2	ENSG00000237344	ENST00000453961	protein_coding	KNOWN	None	8633	1293	430	32100987	32106437	-1	None	G17, HOX12, PBX2MHC
HSCHR6_MHC_COX	PBX2	ENSG00000237344	ENST00000461857	retained_intron	KNOWN	None	8633	None	None	32102507	32103766	-1	None	G17, HOX12, PBX2MHC
HSCHR6_MHC_COX	PBX2	ENSG00000237344	ENST00000485304	retained_intron	KNOWN	None	8633	None	None	32103224	32106193	-1	None	G17, HOX12, PBX2MHC
HSCHR6_MHC_COX	PBX2	ENSG00000237344	ENST00000488105	retained_intron	KNOWN	None	8633	None	None	32103484	32105067	-1	None	G17, HOX12, PBX2MHC
HSCHR6_MHC_COX	PBX2	ENSG00000237344	ENST00000476638	retained_intron	KNOWN	None	8633	None	None	32104531	32105328	-1	None	G17, HOX12, PBX2MHC
HSCHR6_MHC_COX	PBX2	ENSG00000237344	ENST00000553136	protein_coding	KNOWN	None	8633	1332	443	32101953	32106207	-1	None	G17, HOX12, PBX2MHC
HSCHR6_MHC_COX	PBX2	ENSG00000237344	ENST00000552094	protein_coding	KNOWN	None	8633	1392	463	32101953	32106427	-1	None	G17, HOX12, PBX2MHC
HSCHR6_MHC_COX	PBX2	ENSG00000237344	ENST00000547363	protein_coding	KNOWN	None	8633	1317	438	32101953	32106427	-1	None	G17, HOX12, PBX2MHC
22	FBXO7	ENSG00000100225	ENST00000266087	protein_coding	KNOWN	CCDS13907	13586	1569	522	32870663	32894816	1	None	FBX7, Fbx, PARK15
22	FBXO7	ENSG00000100225	ENST00000420700	nonsense_mediated_decay	KNOWN	None	13586	126	41	32870663	32894816	1	None	FBX7, Fbx, PARK15
22	FBXO7	ENSG00000100225	ENST00000425028	nonsense_mediated_decay	KNOWN	None	13586	150	49	32870785	32894816	1	None	FBX7, Fbx, PARK15
22	FBXO7	ENSG00000100225	ENST00000492535	retained_intron	KNOWN	None	13586	None	None	32871002	32894816	1	None	FBX7, Fbx, PARK15
22	FBXO7	ENSG00000100225	ENST00000452138	protein_coding	NOVEL	None	13586	389	128	32871224	32880092	1	None	FBX7, Fbx, PARK15
22	FBXO7	ENSG00000100225	ENST00000397426	protein_coding	PUTATIVE	CCDS58806	13586	1227	408	32871244	32894816	1	None	FBX7, Fbx, PARK15
22	FBXO7	ENSG00000100225	ENST00000444207	protein_coding	PUTATIVE	None	13586	162	53	32871580	32879970	1	None	FBX7, Fbx, PARK15
22	FBXO7	ENSG00000100225	ENST00000465418	processed_transcript	PUTATIVE	None	13586	None	None	32874022	32875218	1	None	FBX7, Fbx, PARK15
22	FBXO7	ENSG00000100225	ENST00000484607	retained_intron	KNOWN	None	13586	None	None	32883275	32887100	1	None	FBX7, Fbx, PARK15
22	FBXO7	ENSG00000100225	ENST00000382058	protein_coding	KNOWN	CCDS46695	13586	1332	443	32871224	32894818	1	None	FBX7, Fbx, PARK15
HG339_PATCH	None	ENSG00000263228	ENST00000576987	processed_pseudogene	KNOWN	None	None	None	None	97949117	97949976	-1	None	None
12	DERA	ENSG00000023697	ENST00000428559	protein_coding	KNOWN	CCDS44838	24269	957	318	16064106	16190220	1	None	CGI-26, DEOC
12	DERA	ENSG00000023697	ENST00000526521	nonsense_mediated_decay	KNOWN	None	24269	183	60	16064236	16189226	1	None	CGI-26, DEOC
12	DERA	ENSG00000023697	ENST00000524480	protein_coding	PUTATIVE	None	24269	295	97	16064263	16135292	1	None	CGI-26, DEOC
12	DERA	ENSG00000023697	ENST00000531803	protein_coding	NOVEL	None	24269	710	235	16064293	16185485	1	None	CGI-26, DEOC
12	DERA	ENSG00000023697	ENST00000528821	nonsense_mediated_decay	KNOWN	None	24269	201	66	16064297	16185982	1	None	CGI-26, DEOC
12	DERA	ENSG00000023697	ENST00000532964	protein_coding	NOVEL	None	24269	828	275	16064297	16189685	1	None	CGI-26, DEOC
12	DERA	ENSG00000023697	ENST00000533447	protein_coding	PUTATIVE	None	24269	489	162	16104295	16185591	1	None	CGI-26, DEOC
12	DERA	ENSG00000023697	ENST00000526530	protein_coding	PUTATIVE	None	24269	693	230	16109522	16190214	1	None	CGI-26, DEOC
12	DERA	ENSG00000023697	ENST00000530274	retained_intron	KNOWN	None	24269	None	None	16115686	16189747	1	None	CGI-26, DEOC
12	DERA	ENSG00000023697	ENST00000532573	processed_transcript	PUTATIVE	None	24269	None	None	16138106	16189274	1	None	CGI-26, DEOC
5	TMCO6	ENSG00000113119	ENST00000394671	protein_coding	KNOWN	CCDS4233	28814	1482	493	140019012	140024987	1	None	FLJ39769, PRO1580
5	TMCO6	ENSG00000113119	ENST00000513002	nonsense_mediated_decay	KNOWN	None	28814	87	28	140019020	140021650	1	None	FLJ39769, PRO1580
5	TMCO6	ENSG00000113119	ENST00000509217	nonsense_mediated_decay	KNOWN	None	28814	132	43	140019033	140021312	1	None	FLJ39769, PRO1580
5	TMCO6	ENSG00000113119	ENST00000511410	protein_coding	PUTATIVE	None	28814	357	118	140019038	140021970	1	None	FLJ39769, PRO1580
5	TMCO6	ENSG00000113119	ENST00000394669	nonsense_mediated_decay	KNOWN	None	28814	132	43	140019048	140021365	1	None	FLJ39769, PRO1580
5	TMCO6	ENSG00000113119	ENST00000504069	nonsense_mediated_decay	KNOWN	None	28814	132	43	140019054	140022597	1	None	FLJ39769, PRO1580
5	TMCO6	ENSG00000113119	ENST00000515653	nonsense_mediated_decay	KNOWN	None	28814	306	101	140019075	140022574	1	None	FLJ39769, PRO1580
5	TMCO6	ENSG00000113119	ENST00000514449	retained_intron	KNOWN	None	28814	None	None	140019076	140021998	1	None	FLJ39769, PRO1580
5	TMCO6	ENSG00000113119	ENST00000505086	nonsense_mediated_decay	KNOWN	None	28814	132	43	140019080	140021922	1	None	FLJ39769, PRO1580
5	TMCO6	ENSG00000113119	ENST00000252100	protein_coding	KNOWN	None	28814	1500	499	140019089	140024993	1	None	FLJ39769, PRO1580
5	TMCO6	ENSG00000113119	ENST00000510336	retained_intron	KNOWN	None	28814	None	None	140020891	140024993	1	None	FLJ39769, PRO1580
5	TMCO6	ENSG00000113119	ENST00000509605	retained_intron	KNOWN	None	28814	None	None	140021483	140023768	1	None	FLJ39769, PRO1580
5	TMCO6	ENSG00000113119	ENST00000515265	retained_intron	KNOWN	None	28814	None	None	140022157	140024896	1	None	FLJ39769, PRO1580
5	TMCO6	ENSG00000113119	ENST00000509269	retained_intron	KNOWN	None	28814	None	None	140022948	140023497	1	None	FLJ39769, PRO1580
5	TMCO6	ENSG00000113119	ENST00000537378	protein_coding	KNOWN	None	28814	762	253	140019054	140024987	1	None	FLJ39769, PRO1580
HSCHR17_6_CTG4	KRTAP9-12P	ENSG00000262214	ENST00000576740	unprocessed_pseudogene	KNOWN	None	48873	None	None	39368962	39369493	1	None	None
7	MEOX2	ENSG00000106511	ENST00000262041	protein_coding	KNOWN	CCDS34605	7014	915	304	15650837	15726437	-1	GAX	MOX2
HSCHR6_MHC_DBB	HCG24	ENSG00000230134	ENST00000430288	processed_transcript	PUTATIVE	None	23500	None	None	33090473	33093457	1	None	dJ1033B10.15
5	SLC25A48	ENSG00000145832	ENST00000425402	protein_coding	NOVEL	None	30451	216	71	135170338	135212069	1	None	FLJ44862, HDMCP
5	SLC25A48	ENSG00000145832	ENST00000274513	protein_coding	KNOWN	None	30451	876	291	135170365	135208436	1	None	FLJ44862, HDMCP
5	SLC25A48	ENSG00000145832	ENST00000433282	protein_coding	KNOWN	None	30451	774	257	135170403	135215820	1	None	FLJ44862, HDMCP
5	SLC25A48	ENSG00000145832	ENST00000412661	protein_coding	KNOWN	CCDS43366	30451	474	157	135170416	135224326	1	None	FLJ44862, HDMCP
5	SLC25A48	ENSG00000145832	ENST00000462340	nonsense_mediated_decay	KNOWN	None	30451	204	67	135170793	135207314	1	None	FLJ44862, HDMCP
5	SLC25A48	ENSG00000145832	ENST00000510147	processed_transcript	PUTATIVE	None	30451	None	None	135215662	135219139	1	None	FLJ44862, HDMCP
5	SLC25A48	ENSG00000145832	ENST00000471980	processed_transcript	PUTATIVE	None	30451	None	None	135215718	135219139	1	None	FLJ44862, HDMCP
5	SLC25A48	ENSG00000145832	ENST00000420621	protein_coding	KNOWN	None	30451	936	311	135170365	135215779	1	None	FLJ44862, HDMCP
HSCHR6_MHC_DBB	None	ENSG00000266410	ENST00000577883	misc_RNA	NOVEL	None	None	None	None	33145288	33145382	1	None	None
GL000243.1	None	ENSG00000241559	ENST00000476361	miRNA	NOVEL	None	None	None	None	8050	8132	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000264836	ENST00000580138	miRNA	KNOWN	None	None	None	None	33153522	33153631	1	None	None
HSCHR17_6_CTG4	KRTAP9-11P	ENSG00000262946	ENST00000575382	unprocessed_pseudogene	KNOWN	None	18918	None	None	39416193	39416717	1	KRTAP9P1	KAP9A
HSCHR6_MHC_DBB	ZNF70P1	ENSG00000229394	ENST00000412392	processed_pseudogene	KNOWN	None	13846	None	None	33161392	33162015	1	ZNF314P	dJ1033B10.7, bCX269C15.3
4	SLC25A14P1	ENSG00000213608	ENST00000502867	processed_pseudogene	KNOWN	None	43856	None	None	84398677	84399577	1	None	None
5	MAN2A1	ENSG00000112893	ENST00000261483	protein_coding	KNOWN	CCDS34209	6824	3435	1144	109025067	109202879	1	MANA2	GOLIM7
5	MAN2A1	ENSG00000112893	ENST00000502261	processed_transcript	PUTATIVE	None	6824	None	None	109129876	109155588	1	MANA2	GOLIM7
5	MAN2A1	ENSG00000112893	ENST00000508043	processed_transcript	KNOWN	None	6824	None	None	109139877	109155979	1	MANA2	GOLIM7
5	MAN2A1	ENSG00000112893	ENST00000513921	retained_intron	KNOWN	None	6824	None	None	109189282	109202874	1	MANA2	GOLIM7
5	MAN2A1	ENSG00000112893	ENST00000505313	processed_transcript	PUTATIVE	None	6824	None	None	109190623	109201116	1	MANA2	GOLIM7
5	MAN2A1	ENSG00000112893	ENST00000503970	retained_intron	KNOWN	None	6824	None	None	109198029	109205326	1	MANA2	GOLIM7
X	None	ENSG00000270524	ENST00000604344	processed_pseudogene	KNOWN	None	None	None	None	113125873	113126950	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000224052	ENST00000422268	processed_pseudogene	NOVEL	None	None	None	None	33183491	33185382	1	None	None
X	None	ENSG00000201674	ENST00000364804	snoRNA	NOVEL	None	None	None	None	113187479	113187691	-1	None	None
HG729_PATCH	ACTL9	ENSG00000263000	ENST00000573102	protein_coding	KNOWN	None	28494	1251	416	8762287	8763706	-1	None	MGC33407
X	RNU1-57P	ENSG00000207220	ENST00000384491	snRNA	KNOWN	None	48399	None	None	113193202	113193367	1	None	None
16	KREMEN2	ENSG00000131650	ENST00000303746	protein_coding	KNOWN	CCDS10483	18797	1389	462	3013945	3018381	1	None	MGC10791, KRM2
16	KREMEN2	ENSG00000131650	ENST00000572045	protein_coding	KNOWN	None	18797	1200	399	3014217	3018381	1	None	MGC10791, KRM2
16	KREMEN2	ENSG00000131650	ENST00000575885	protein_coding	NOVEL	CCDS58413	18797	1146	381	3014276	3018380	1	None	MGC10791, KRM2
16	KREMEN2	ENSG00000131650	ENST00000571007	protein_coding	NOVEL	CCDS58412	18797	1272	423	3014276	3018380	1	None	MGC10791, KRM2
16	KREMEN2	ENSG00000131650	ENST00000319500	protein_coding	KNOWN	CCDS10484	18797	1263	420	3014313	3018384	1	None	MGC10791, KRM2
16	KREMEN2	ENSG00000131650	ENST00000575769	protein_coding	KNOWN	None	18797	1275	424	3014522	3018349	1	None	MGC10791, KRM2
X	RN7SL93P	ENSG00000240327	ENST00000463035	misc_RNA	KNOWN	None	46109	None	None	113219603	113219893	-1	None	None
HSCHR17_6_CTG4	KRTAP9-10P	ENSG00000263115	ENST00000573261	unprocessed_pseudogene	KNOWN	None	34210	None	None	39425486	39425692	1	None	None
X	None	ENSG00000212611	ENST00000391309	snoRNA	NOVEL	None	None	None	None	113260261	113260330	1	None	None
X	None	ENSG00000230502	ENST00000423016	processed_pseudogene	KNOWN	None	None	None	None	113623441	113623608	-1	None	None
4	UGT2A3	ENSG00000135220	ENST00000251566	protein_coding	KNOWN	CCDS3525	28528	1584	527	69794181	69817509	-1	None	FLJ21934
4	UGT2A3	ENSG00000135220	ENST00000503012	nonsense_mediated_decay	KNOWN	None	28528	519	172	69795168	69817079	-1	None	FLJ21934
4	UGT2A3	ENSG00000135220	ENST00000420231	protein_coding	KNOWN	None	28528	717	238	69795175	69817079	-1	None	FLJ21934
HSCHR5_1_CTG5	None	ENSG00000262513	ENST00000571196	lincRNA	PUTATIVE	None	None	None	None	161851384	161854351	-1	None	None
HSCHR6_MHC_MANN	DDAH2	ENSG00000233076	ENST00000413287	protein_coding	KNOWN	None	2716	565	187	31734308	31736147	-1	None	None
HSCHR6_MHC_MANN	DDAH2	ENSG00000233076	ENST00000487443	retained_intron	KNOWN	None	2716	None	None	31734308	31736777	-1	None	None
HSCHR6_MHC_MANN	DDAH2	ENSG00000233076	ENST00000413655	protein_coding	KNOWN	None	2716	858	285	31734308	31737062	-1	None	None
HSCHR6_MHC_MANN	DDAH2	ENSG00000233076	ENST00000494351	processed_transcript	KNOWN	None	2716	None	None	31734308	31737497	-1	None	None
HSCHR6_MHC_MANN	DDAH2	ENSG00000233076	ENST00000495450	processed_transcript	KNOWN	None	2716	None	None	31734308	31737532	-1	None	None
HSCHR6_MHC_MANN	DDAH2	ENSG00000233076	ENST00000424790	protein_coding	KNOWN	None	2716	858	285	31734308	31737533	-1	None	None
HSCHR6_MHC_MANN	DDAH2	ENSG00000233076	ENST00000447101	protein_coding	KNOWN	None	2716	858	285	31734308	31737887	-1	None	None
HSCHR6_MHC_MANN	DDAH2	ENSG00000233076	ENST00000449216	protein_coding	KNOWN	None	2716	709	235	31734845	31737066	-1	None	None
HSCHR6_MHC_MANN	DDAH2	ENSG00000233076	ENST00000427351	protein_coding	KNOWN	None	2716	678	225	31734876	31736771	-1	None	None
HSCHR6_MHC_MANN	DDAH2	ENSG00000233076	ENST00000460151	retained_intron	KNOWN	None	2716	None	None	31735451	31737515	-1	None	None
8	FAM90A22P	ENSG00000215365	ENST00000400142	unprocessed_pseudogene	KNOWN	None	32270	None	None	7429517	7432528	-1	FAM90A22	None
10	ANKRD1	ENSG00000148677	ENST00000371697	protein_coding	KNOWN	CCDS7412	15819	960	319	92671853	92681033	-1	None	C-193, ALRP, CARP, CVARP, MCARP
HSCHR6_MHC_DBB	HCG25	ENSG00000233772	ENST00000425404	processed_transcript	KNOWN	None	20196	None	None	33195234	33200644	1	None	dJ1033B10.16
HSCHR6_MHC_DBB	HCG25	ENSG00000233772	ENST00000427541	processed_transcript	KNOWN	None	20196	None	None	33195284	33197639	1	None	dJ1033B10.16
HSCHR6_MHC_DBB	HCG25	ENSG00000233772	ENST00000444679	processed_transcript	KNOWN	None	20196	None	None	33195296	33200689	1	None	dJ1033B10.16
HSCHR6_MHC_DBB	HCG25	ENSG00000233772	ENST00000442595	processed_transcript	KNOWN	None	20196	None	None	33195979	33197335	1	None	dJ1033B10.16
HG729_PATCH	OR2Z1	ENSG00000263211	ENST00000574760	protein_coding	KNOWN	None	15391	945	314	8795838	8796893	1	OR2Z2	None
X	None	ENSG00000271686	ENST00000603089	processed_pseudogene	KNOWN	None	None	None	None	113623588	113624407	1	None	None
5	PCDHGA5	ENSG00000253485	ENST00000518069	protein_coding	KNOWN	CCDS54925	8703	2796	931	140743898	140892546	1	None	CDH-GAMMA-A5, ME3, PCDH-GAMMA-A5
5	HINT1	ENSG00000169567	ENST00000304043	protein_coding	KNOWN	CCDS4147	4912	381	126	130494720	130501178	-1	PRKCNH1, HINT	PKCI-1
5	HINT1	ENSG00000169567	ENST00000511475	nonsense_mediated_decay	KNOWN	None	4912	312	103	130494978	130500933	-1	PRKCNH1, HINT	PKCI-1
5	HINT1	ENSG00000169567	ENST00000508495	nonsense_mediated_decay	KNOWN	None	4912	237	78	130494981	130500994	-1	PRKCNH1, HINT	PKCI-1
5	HINT1	ENSG00000169567	ENST00000513345	nonsense_mediated_decay	KNOWN	None	4912	198	65	130495028	130501026	-1	PRKCNH1, HINT	PKCI-1
5	HINT1	ENSG00000169567	ENST00000506207	processed_transcript	KNOWN	None	4912	None	None	130495171	130507428	-1	PRKCNH1, HINT	PKCI-1
5	HINT1	ENSG00000169567	ENST00000504202	nonsense_mediated_decay	KNOWN	None	4912	198	65	130495297	130500913	-1	PRKCNH1, HINT	PKCI-1
5	HINT1	ENSG00000169567	ENST00000508488	protein_coding	PUTATIVE	None	4912	312	103	130497804	130501018	-1	PRKCNH1, HINT	PKCI-1
5	HINT1	ENSG00000169567	ENST00000506908	protein_coding	PUTATIVE	None	4912	237	78	130497936	130501034	-1	PRKCNH1, HINT	PKCI-1
5	HINT1	ENSG00000169567	ENST00000513012	protein_coding	PUTATIVE	None	4912	198	65	130497984	130500949	-1	PRKCNH1, HINT	PKCI-1
5	HINT1	ENSG00000169567	ENST00000520028	protein_coding	PUTATIVE	None	4912	82	26	130498171	130498320	-1	PRKCNH1, HINT	PKCI-1
HSCHR5_1_CTG5	None	ENSG00000262922	ENST00000574861	snRNA	NOVEL	None	None	None	None	161904897	161904999	1	None	None
HSCHR12_1_CTG2_1	None	ENSG00000262349	ENST00000574619	processed_transcript	KNOWN	None	None	None	None	58325311	58329862	-1	None	None
HSCHR12_1_CTG2_1	None	ENSG00000262349	ENST00000575935	processed_transcript	KNOWN	None	None	None	None	58325352	58329842	-1	None	None
HSCHR12_1_CTG2_1	None	ENSG00000262349	ENST00000576521	processed_transcript	KNOWN	None	None	None	None	58325371	58329958	-1	None	None
HSCHR12_1_CTG2_1	None	ENSG00000262349	ENST00000570447	processed_transcript	KNOWN	None	None	None	None	58328857	58329846	-1	None	None
HSCHR6_MHC_COX	OR12D1P	ENSG00000249030	ENST00000509004	unprocessed_pseudogene	KNOWN	None	8177	None	None	29381633	29382579	1	OR12D1P	hs6M1-19
HSCHR6_MHC_DBB	MYL8P	ENSG00000229342	ENST00000412044	processed_pseudogene	KNOWN	None	7589	None	None	33284682	33285199	1	None	BING3
HSCHR6_MHC_DBB	MYL8P	ENSG00000229342	ENST00000546831	pseudogene	KNOWN	None	7589	None	None	33284684	33285199	1	None	BING3
8	ZFAND1	ENSG00000104231	ENST00000524305	retained_intron	KNOWN	None	25858	None	None	82613569	82627274	-1	None	FLJ14007
8	ZFAND1	ENSG00000104231	ENST00000523096	protein_coding	NOVEL	CCDS55251	25858	786	261	82613957	82633535	-1	None	FLJ14007
8	ZFAND1	ENSG00000104231	ENST00000220669	protein_coding	KNOWN	CCDS6232	25858	807	268	82613958	82633535	-1	None	FLJ14007
8	ZFAND1	ENSG00000104231	ENST00000522520	protein_coding	KNOWN	None	25858	486	161	82614000	82633524	-1	None	FLJ14007
8	ZFAND1	ENSG00000104231	ENST00000519338	processed_transcript	KNOWN	None	25858	None	None	82614394	82615363	-1	None	FLJ14007
8	ZFAND1	ENSG00000104231	ENST00000522032	nonsense_mediated_decay	KNOWN	None	25858	186	61	82614559	82626275	-1	None	FLJ14007
8	ZFAND1	ENSG00000104231	ENST00000519464	nonsense_mediated_decay	KNOWN	None	25858	498	165	82614779	82633522	-1	None	FLJ14007
8	ZFAND1	ENSG00000104231	ENST00000521895	protein_coding	NOVEL	None	25858	381	126	82614783	82633517	-1	None	FLJ14007
8	ZFAND1	ENSG00000104231	ENST00000521287	protein_coding	KNOWN	None	25858	486	161	82614917	82633530	-1	None	FLJ14007
8	ZFAND1	ENSG00000104231	ENST00000523431	nonsense_mediated_decay	KNOWN	None	25858	177	58	82614964	82633525	-1	None	FLJ14007
8	ZFAND1	ENSG00000104231	ENST00000520635	protein_coding	KNOWN	None	25858	356	117	82615060	82644642	-1	None	FLJ14007
8	ZFAND1	ENSG00000104231	ENST00000517588	protein_coding	PUTATIVE	None	25858	363	120	82615149	82633498	-1	None	FLJ14007
8	ZFAND1	ENSG00000104231	ENST00000519523	protein_coding	PUTATIVE	CCDS55250	25858	684	227	82615149	82633523	-1	None	FLJ14007
8	ZFAND1	ENSG00000104231	ENST00000520604	protein_coding	KNOWN	None	25858	291	96	82615228	82644580	-1	None	FLJ14007
8	ZFAND1	ENSG00000104231	ENST00000523361	protein_coding	KNOWN	None	25858	185	60	82615334	82645116	-1	None	FLJ14007
8	ZFAND1	ENSG00000104231	ENST00000517450	protein_coding	KNOWN	None	25858	159	52	82626153	82633535	-1	None	FLJ14007
8	ZFAND1	ENSG00000104231	ENST00000521742	protein_coding	KNOWN	None	25858	159	52	82626153	82644622	-1	None	FLJ14007
8	ZFAND1	ENSG00000104231	ENST00000518419	protein_coding	KNOWN	None	25858	129	42	82626183	82633476	-1	None	FLJ14007
8	ZFAND1	ENSG00000104231	ENST00000520076	protein_coding	KNOWN	None	25858	126	41	82626186	82633518	-1	None	FLJ14007
8	ZFAND1	ENSG00000104231	ENST00000524339	retained_intron	KNOWN	None	25858	None	None	82626560	82633530	-1	None	FLJ14007
8	ZFAND1	ENSG00000104231	ENST00000517353	retained_intron	KNOWN	None	25858	None	None	82626675	82645138	-1	None	FLJ14007
8	ZFAND1	ENSG00000104231	ENST00000519820	retained_intron	KNOWN	None	25858	None	None	82626834	82633535	-1	None	FLJ14007
8	ZFAND1	ENSG00000104231	ENST00000521885	retained_intron	KNOWN	None	25858	None	None	82626909	82644608	-1	None	FLJ14007
8	ZFAND1	ENSG00000104231	ENST00000520941	processed_transcript	KNOWN	None	25858	None	None	82627222	82644854	-1	None	FLJ14007
8	ZFAND1	ENSG00000104231	ENST00000523012	processed_transcript	KNOWN	None	25858	None	None	82629487	82633479	-1	None	FLJ14007
10	None	ENSG00000182531	ENST00000382617	unprocessed_pseudogene	KNOWN	None	None	None	None	15049812	15055672	-1	None	None
HG729_PATCH	None	ENSG00000262658	ENST00000572613	processed_pseudogene	KNOWN	None	None	None	None	8741728	8741952	1	None	None
HSCHR6_MHC_APD	NRM	ENSG00000228854	ENST00000467546	processed_transcript	KNOWN	None	8003	None	None	30664073	30666379	-1	None	NRM29
HSCHR6_MHC_APD	NRM	ENSG00000228854	ENST00000446443	protein_coding	KNOWN	None	8003	787	261	30664073	30666749	-1	None	NRM29
HSCHR6_MHC_APD	NRM	ENSG00000228854	ENST00000485103	processed_transcript	KNOWN	None	8003	None	None	30664073	30666993	-1	None	NRM29
HSCHR6_MHC_APD	NRM	ENSG00000228854	ENST00000464436	processed_transcript	KNOWN	None	8003	None	None	30664073	30667000	-1	None	NRM29
HSCHR6_MHC_APD	NRM	ENSG00000228854	ENST00000422664	protein_coding	KNOWN	None	8003	612	203	30664073	30667002	-1	None	NRM29
HSCHR6_MHC_APD	NRM	ENSG00000228854	ENST00000477315	processed_transcript	KNOWN	None	8003	None	None	30664073	30667012	-1	None	NRM29
HSCHR6_MHC_APD	NRM	ENSG00000228854	ENST00000461144	processed_transcript	KNOWN	None	8003	None	None	30664073	30667028	-1	None	NRM29
HSCHR6_MHC_APD	NRM	ENSG00000228854	ENST00000427944	protein_coding	KNOWN	None	8003	789	262	30664073	30667446	-1	None	NRM29
HG686_PATCH	None	ENSG00000262971	ENST00000571478	snRNA	NOVEL	None	None	None	None	95610280	95610386	-1	None	None
X	MAGEB5	ENSG00000188408	ENST00000602297	protein_coding	KNOWN	None	23795	828	275	26234286	26236387	1	None	MAGE-B5, CT3.3
X	MAGEB5	ENSG00000188408	ENST00000379029	protein_coding	KNOWN	None	23795	828	275	26235419	26236246	1	None	MAGE-B5, CT3.3
6	DEFB113	ENSG00000214642	ENST00000398718	protein_coding	KNOWN	CCDS43472	18094	249	82	49936390	49937338	-1	None	DEFB-13
HG686_PATCH	None	ENSG00000262689	ENST00000572191	processed_transcript	KNOWN	None	None	None	None	95632416	95711088	-1	None	None
HG686_PATCH	None	ENSG00000262689	ENST00000578246	processed_transcript	KNOWN	None	None	None	None	95632432	95711088	-1	None	None
HG686_PATCH	None	ENSG00000262689	ENST00000561997	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	95650608	95656502	-1	None	None
9	PES1P2	ENSG00000229268	ENST00000449745	processed_pseudogene	KNOWN	None	44059	None	None	13986174	13987908	1	None	None
16	HSF4	ENSG00000102878	ENST00000518227	retained_intron	KNOWN	None	5227	None	None	67197611	67199545	1	CTM	None
16	HSF4	ENSG00000102878	ENST00000518603	retained_intron	KNOWN	None	5227	None	None	67197709	67198364	1	CTM	None
16	HSF4	ENSG00000102878	ENST00000522870	retained_intron	KNOWN	None	5227	None	None	67198584	67202786	1	CTM	None
16	HSF4	ENSG00000102878	ENST00000522295	nonsense_mediated_decay	KNOWN	None	5227	585	194	67198646	67203842	1	CTM	None
16	HSF4	ENSG00000102878	ENST00000434833	nonsense_mediated_decay	KNOWN	None	5227	948	315	67198647	67203813	1	CTM	None
16	HSF4	ENSG00000102878	ENST00000522023	retained_intron	KNOWN	None	5227	None	None	67198648	67200057	1	CTM	None
16	HSF4	ENSG00000102878	ENST00000521314	nonsense_mediated_decay	KNOWN	None	5227	144	47	67198674	67203832	1	CTM	None
16	HSF4	ENSG00000102878	ENST00000521624	nonsense_mediated_decay	KNOWN	None	5227	957	318	67198693	67203844	1	CTM	None
16	HSF4	ENSG00000102878	ENST00000523562	nonsense_mediated_decay	KNOWN	None	5227	948	315	67198693	67203848	1	CTM	None
16	HSF4	ENSG00000102878	ENST00000517685	protein_coding	KNOWN	None	5227	1249	415	67198715	67203686	1	CTM	None
16	HSF4	ENSG00000102878	ENST00000521374	protein_coding	KNOWN	CCDS42175	5227	1479	492	67198715	67203724	1	CTM	None
16	HSF4	ENSG00000102878	ENST00000584272	protein_coding	KNOWN	CCDS45510	5227	1389	462	67198715	67203848	1	CTM	None
16	HSF4	ENSG00000102878	ENST00000523077	retained_intron	KNOWN	None	5227	None	None	67198803	67199718	1	CTM	None
16	HSF4	ENSG00000102878	ENST00000517729	protein_coding	NOVEL	None	5227	556	184	67199428	67201393	1	CTM	None
16	HSF4	ENSG00000102878	ENST00000519224	nonsense_mediated_decay	KNOWN	None	5227	233	76	67199742	67201820	1	CTM	None
16	HSF4	ENSG00000102878	ENST00000517750	protein_coding	NOVEL	None	5227	546	181	67199950	67202943	1	CTM	None
16	HSF4	ENSG00000102878	ENST00000517680	retained_intron	KNOWN	None	5227	None	None	67200088	67201382	1	CTM	None
16	HSF4	ENSG00000102878	ENST00000522027	retained_intron	KNOWN	None	5227	None	None	67200160	67201446	1	CTM	None
16	HSF4	ENSG00000102878	ENST00000522459	retained_intron	KNOWN	None	5227	None	None	67200179	67201195	1	CTM	None
16	HSF4	ENSG00000102878	ENST00000519105	retained_intron	KNOWN	None	5227	None	None	67200214	67201125	1	CTM	None
16	HSF4	ENSG00000102878	ENST00000517867	processed_transcript	KNOWN	None	5227	None	None	67200236	67201284	1	CTM	None
16	HSF4	ENSG00000102878	ENST00000519601	protein_coding	NOVEL	None	5227	669	222	67201074	67203684	1	CTM	None
16	HSF4	ENSG00000102878	ENST00000520833	retained_intron	KNOWN	None	5227	None	None	67201091	67203613	1	CTM	None
16	HSF4	ENSG00000102878	ENST00000520528	nonsense_mediated_decay	KNOWN	None	5227	52	16	67201283	67203806	1	CTM	None
16	HSF4	ENSG00000102878	ENST00000520247	retained_intron	KNOWN	None	5227	None	None	67201324	67201707	1	CTM	None
16	HSF4	ENSG00000102878	ENST00000520304	protein_coding	PUTATIVE	None	5227	425	140	67201742	67203844	1	CTM	None
16	HSF4	ENSG00000102878	ENST00000521916	protein_coding	PUTATIVE	None	5227	190	62	67202977	67203844	1	CTM	None
16	HSF4	ENSG00000102878	ENST00000264009	protein_coding	KNOWN	CCDS42175	5227	1479	492	67197288	67203848	1	CTM	None
16	HSF4	ENSG00000102878	ENST00000421453	protein_coding	KNOWN	CCDS45510	5227	1389	462	67197288	67203848	1	CTM	None
9	None	ENSG00000235533	ENST00000442260	lincRNA	KNOWN	None	None	None	None	14025970	14030114	1	None	None
HSCHR6_MHC_COX	UBDP1	ENSG00000227228	ENST00000436751	unprocessed_pseudogene	KNOWN	None	18796	None	None	29428950	29434162	-1	None	dJ994E9.3
HSCHR17_1	None	ENSG00000257437	ENST00000550493	protein_coding	NOVEL	None	None	1152	383	44150125	44212878	-1	None	None
HSCHR17_1	None	ENSG00000257437	ENST00000553101	protein_coding	KNOWN	None	None	1233	410	44150125	44212878	-1	None	None
HSCHR17_1	None	ENSG00000257437	ENST00000549598	protein_coding	KNOWN	None	None	651	216	44150125	44212858	-1	None	None
HSCHR17_1	None	ENSG00000257437	ENST00000552974	protein_coding	NOVEL	None	None	2331	776	44150125	44212878	-1	None	None
HSCHR17_1	None	ENSG00000257437	ENST00000546644	protein_coding	NOVEL	None	None	1239	412	44150125	44212878	-1	None	None
HSCHR17_1	None	ENSG00000257437	ENST00000552530	protein_coding	NOVEL	None	None	2277	758	44150125	44212878	-1	None	None
HSCHR17_1	None	ENSG00000257437	ENST00000547239	protein_coding	NOVEL	None	None	1326	441	44150125	44212878	-1	None	None
HSCHR17_1	None	ENSG00000257437	ENST00000447599	protein_coding	NOVEL	None	None	1152	383	44151286	44280402	-1	None	None
HSCHR17_1	None	ENSG00000257437	ENST00000550769	protein_coding	KNOWN	None	None	951	316	44150125	44203388	-1	None	None
HSCHR17_1	None	ENSG00000257437	ENST00000549053	protein_coding	KNOWN	None	None	795	264	44150125	44185705	-1	None	None
HG729_PATCH	None	ENSG00000262301	ENST00000570363	processed_pseudogene	KNOWN	None	None	None	None	8793619	8794088	-1	None	None
11	TOLLIP	ENSG00000078902	ENST00000317204	protein_coding	KNOWN	CCDS7723	16476	825	274	1295601	1330852	-1	None	IL-1RAcPIP
11	TOLLIP	ENSG00000078902	ENST00000527886	protein_coding	PUTATIVE	None	16476	618	205	1295602	1324020	-1	None	IL-1RAcPIP
11	TOLLIP	ENSG00000078902	ENST00000525159	protein_coding	NOVEL	None	16476	642	213	1295603	1330849	-1	None	IL-1RAcPIP
11	TOLLIP	ENSG00000078902	ENST00000263646	protein_coding	NOVEL	None	16476	741	246	1296883	1330884	-1	None	IL-1RAcPIP
11	TOLLIP	ENSG00000078902	ENST00000530506	nonsense_mediated_decay	KNOWN	None	16476	540	179	1298047	1330813	-1	None	IL-1RAcPIP
11	TOLLIP	ENSG00000078902	ENST00000527938	protein_coding	PUTATIVE	None	16476	243	80	1298243	1330853	-1	None	IL-1RAcPIP
11	TOLLIP	ENSG00000078902	ENST00000530541	protein_coding	NOVEL	None	16476	559	185	1298385	1330853	-1	None	IL-1RAcPIP
11	TOLLIP	ENSG00000078902	ENST00000528719	processed_transcript	PUTATIVE	None	16476	None	None	1309866	1313400	-1	None	IL-1RAcPIP
11	TOLLIP	ENSG00000078902	ENST00000527746	retained_intron	KNOWN	None	16476	None	None	1311325	1330820	-1	None	IL-1RAcPIP
11	TOLLIP	ENSG00000078902	ENST00000527638	processed_transcript	PUTATIVE	None	16476	None	None	1312145	1330827	-1	None	IL-1RAcPIP
11	TOLLIP	ENSG00000078902	ENST00000532551	retained_intron	KNOWN	None	16476	None	None	1316607	1330853	-1	None	IL-1RAcPIP
11	TOLLIP	ENSG00000078902	ENST00000530821	processed_transcript	PUTATIVE	None	16476	None	None	1316969	1327424	-1	None	IL-1RAcPIP
11	TOLLIP	ENSG00000078902	ENST00000527085	processed_transcript	PUTATIVE	None	16476	None	None	1319379	1330874	-1	None	IL-1RAcPIP
11	TOLLIP	ENSG00000078902	ENST00000542915	protein_coding	KNOWN	None	16476	675	224	1296886	1330853	-1	None	IL-1RAcPIP
HSCHR12_1_CTG2_1	None	ENSG00000262819	ENST00000572683	processed_pseudogene	KNOWN	None	None	None	None	58360841	58362182	1	None	None
9	None	ENSG00000230245	ENST00000418155	processed_pseudogene	KNOWN	None	None	None	None	44333923	44334382	1	None	None
6	MAK	ENSG00000111837	ENST00000313243	protein_coding	KNOWN	CCDS4516	6816	1872	623	10762956	10838728	-1	None	dJ417M14.2
6	MAK	ENSG00000111837	ENST00000474039	protein_coding	KNOWN	CCDS4516	6816	1872	623	10762956	10838764	-1	None	dJ417M14.2
6	MAK	ENSG00000111837	ENST00000354489	protein_coding	KNOWN	CCDS4516	6816	1872	623	10762956	10831110	-1	None	dJ417M14.2
6	MAK	ENSG00000111837	ENST00000538030	protein_coding	KNOWN	None	6816	1374	457	10764434	10831112	-1	None	dJ417M14.2
6	MAK	ENSG00000111837	ENST00000536370	protein_coding	KNOWN	None	6816	867	288	10791940	10838752	-1	None	dJ417M14.2
5	PCDHGB3	ENSG00000262209	ENST00000576222	protein_coding	KNOWN	CCDS58980	8710	2790	929	140749831	140892546	1	None	PCDH-GAMMA-B3
12	NANOGNB	ENSG00000205857	ENST00000382119	protein_coding	KNOWN	CCDS44826	24958	567	188	7917812	7926717	1	None	None
9	None	ENSG00000204816	ENST00000377549	unprocessed_pseudogene	KNOWN	None	None	None	None	44343366	44345689	-1	None	None
HSCHR12_1_CTG2_1	None	ENSG00000262776	ENST00000576643	misc_RNA	NOVEL	None	None	None	None	58371748	58372060	-1	None	None
4	None	ENSG00000221523	ENST00000408596	miRNA	NOVEL	None	None	None	None	185188510	185188584	-1	None	None
18	None	ENSG00000260759	ENST00000561598	lincRNA	KNOWN	None	None	None	None	11666455	11670164	-1	None	None
4	RN7SL28P	ENSG00000244512	ENST00000488836	misc_RNA	KNOWN	None	46044	None	None	185200089	185200384	1	None	None
7	TRGV11	ENSG00000211693	ENST00000390340	TR_V_gene	KNOWN	None	12286	309	102	38331217	38331679	-1	TCRGV11	V4P
HG686_PATCH	None	ENSG00000261328	ENST00000564913	processed_pseudogene	KNOWN	None	None	None	None	95663313	95664408	-1	None	None
18	None	ENSG00000267333	ENST00000592770	processed_pseudogene	KNOWN	None	None	None	None	11745625	11747580	1	None	None
4	None	ENSG00000227765	ENST00000503948	processed_pseudogene	KNOWN	None	None	None	None	185220282	185220793	-1	None	None
4	None	ENSG00000227765	ENST00000430005	processed_pseudogene	KNOWN	None	None	None	None	185220282	185220800	-1	None	None
21	C21orf2	ENSG00000160226	ENST00000339818	protein_coding	KNOWN	CCDS13709	1260	771	256	45748827	45759285	-1	None	YF5, A2
21	C21orf2	ENSG00000160226	ENST00000470196	processed_transcript	KNOWN	None	1260	None	None	45749774	45751851	-1	None	YF5, A2
21	C21orf2	ENSG00000160226	ENST00000496321	processed_transcript	KNOWN	None	1260	None	None	45749774	45758221	-1	None	YF5, A2
21	C21orf2	ENSG00000160226	ENST00000462742	retained_intron	KNOWN	None	1260	None	None	45749774	45758667	-1	None	YF5, A2
21	C21orf2	ENSG00000160226	ENST00000397956	protein_coding	NOVEL	CCDS59444	1260	1128	375	45749774	45759276	-1	None	YF5, A2
21	C21orf2	ENSG00000160226	ENST00000325223	protein_coding	NOVEL	CCDS59445	1260	768	255	45749774	45759285	-1	None	YF5, A2
21	C21orf2	ENSG00000160226	ENST00000478674	retained_intron	KNOWN	None	1260	None	None	45751845	45753347	-1	None	YF5, A2
10	DCLRE1CP1	ENSG00000237470	ENST00000454630	unprocessed_pseudogene	KNOWN	None	44877	None	None	15057369	15063862	-1	None	None
10	DCLRE1CP1	ENSG00000237470	ENST00000378211	unprocessed_pseudogene	KNOWN	None	44877	None	None	15057071	15130775	-1	None	None
7	TWIST1	ENSG00000122691	ENST00000443687	nonsense_mediated_decay	KNOWN	None	12428	212	69	19060614	19156547	-1	ACS3, BPES3, TWIST	SCS, H-twist, BPES2, bHLHa38
7	TWIST1	ENSG00000122691	ENST00000354571	nonsense_mediated_decay	KNOWN	None	12428	406	134	19152670	19156741	-1	ACS3, BPES3, TWIST	SCS, H-twist, BPES2, bHLHa38
7	TWIST1	ENSG00000122691	ENST00000242261	protein_coding	KNOWN	CCDS5367	12428	609	202	19155091	19157295	-1	ACS3, BPES3, TWIST	SCS, H-twist, BPES2, bHLHa38
7	TRGV10	ENSG00000211694	ENST00000390341	TR_V_gene	KNOWN	None	12285	353	116	38339412	38339923	-1	TCRGV10	V3P
HSCHR12_1_CTG2_1	None	ENSG00000262082	ENST00000573097	processed_pseudogene	KNOWN	None	None	None	None	58377578	58378544	-1	None	None
18	None	ENSG00000267455	ENST00000586453	antisense	KNOWN	None	None	None	None	11810405	11811483	-1	None	None
18	None	ENSG00000267165	ENST00000586474	antisense	KNOWN	None	None	None	None	11851413	11852750	-1	None	None
13	RXFP2	ENSG00000133105	ENST00000298386	protein_coding	KNOWN	CCDS9342	17318	2265	754	32313679	32377009	1	LGR8	GREAT, GPR106, INSL3R, RXFPR2
13	RXFP2	ENSG00000133105	ENST00000380314	protein_coding	KNOWN	CCDS53862	17318	2193	730	32313674	32377009	1	LGR8	GREAT, GPR106, INSL3R, RXFPR2
18	None	ENSG00000267079	ENST00000590055	lincRNA	KNOWN	None	None	None	None	11910633	11914343	-1	None	None
HSCHR12_1_CTG2_1	None	ENSG00000262201	ENST00000576472	processed_transcript	KNOWN	None	None	None	None	58490834	58496304	1	None	None
18	None	ENSG00000267661	ENST00000588718	processed_pseudogene	KNOWN	None	None	None	None	11928837	11929475	1	None	None
HG686_PATCH	None	ENSG00000260667	ENST00000567061	processed_pseudogene	KNOWN	None	None	None	None	95664737	95665349	1	None	None
10	FAM175B	ENSG00000165660	ENST00000298492	protein_coding	KNOWN	CCDS31308	28975	1248	415	126490354	126525239	1	KIAA0157	Em:AC068896.4, ABRO1
18	None	ENSG00000266955	ENST00000592820	antisense	KNOWN	None	None	None	None	11993987	11994937	-1	None	None
19	ASF1B	ENSG00000105011	ENST00000263382	protein_coding	KNOWN	CCDS12306	20996	609	202	14230321	14247768	-1	None	FLJ10604
19	ASF1B	ENSG00000105011	ENST00000592798	protein_coding	NOVEL	None	20996	432	143	14231031	14247365	-1	None	FLJ10604
19	ASF1B	ENSG00000105011	ENST00000590835	nonsense_mediated_decay	KNOWN	None	20996	246	81	14231260	14247425	-1	None	FLJ10604
19	ASF1B	ENSG00000105011	ENST00000589468	nonsense_mediated_decay	KNOWN	None	20996	147	48	14231310	14247401	-1	None	FLJ10604
19	ASF1B	ENSG00000105011	ENST00000474890	protein_coding	PUTATIVE	None	20996	498	165	14232099	14247386	-1	None	FLJ10604
18	None	ENSG00000267480	ENST00000587619	antisense	KNOWN	None	None	None	None	12031177	12032180	-1	None	None
19	C19orf44	ENSG00000105072	ENST00000221671	protein_coding	KNOWN	CCDS12345	26141	1974	657	16607122	16632161	1	None	FLJ21742
19	C19orf44	ENSG00000105072	ENST00000594035	protein_coding	NOVEL	None	26141	1878	625	16607205	16629430	1	None	FLJ21742
19	C19orf44	ENSG00000105072	ENST00000596592	nonsense_mediated_decay	KNOWN	None	26141	771	256	16607217	16620486	1	None	FLJ21742
19	C19orf44	ENSG00000105072	ENST00000593380	nonsense_mediated_decay	KNOWN	None	26141	1857	618	16607250	16632163	1	None	FLJ21742
19	C19orf44	ENSG00000105072	ENST00000599550	protein_coding	KNOWN	None	26141	184	60	16607267	16611787	1	None	FLJ21742
19	C19orf44	ENSG00000105072	ENST00000594813	protein_coding	KNOWN	None	26141	334	110	16607274	16611937	1	None	FLJ21742
19	C19orf44	ENSG00000105072	ENST00000601109	nonsense_mediated_decay	KNOWN	None	26141	108	35	16623844	16631327	1	None	FLJ21742
19	C19orf44	ENSG00000105072	ENST00000601288	protein_coding	KNOWN	None	26141	280	92	16623880	16628931	1	None	FLJ21742
GL000204.1	None	ENSG00000215635	ENST00000400710	protein_coding	NOVEL	None	None	570	189	44537	47211	-1	None	None
5	PCDHGA6	ENSG00000253731	ENST00000517434	protein_coding	KNOWN	CCDS54926	8704	2799	932	140753651	140892546	1	None	PCDH-GAMMA-A6
14	MIR4503	ENSG00000266327	ENST00000582187	miRNA	KNOWN	None	41675	None	None	37421514	37421596	-1	None	hsa-mir-4503
18	None	ENSG00000266995	ENST00000591314	processed_pseudogene	KNOWN	None	None	None	None	12040100	12040299	-1	None	None
18	None	ENSG00000266586	ENST00000578030	lincRNA	KNOWN	None	None	None	None	76668629	76678993	-1	None	None
19	CDC34	ENSG00000099804	ENST00000215574	protein_coding	KNOWN	CCDS12030	1734	711	236	531714	542092	1	None	E2-CDC34, UBE2R1, UBC3
19	CDC34	ENSG00000099804	ENST00000586788	retained_intron	KNOWN	None	1734	None	None	531769	536715	1	None	E2-CDC34, UBE2R1, UBC3
19	CDC34	ENSG00000099804	ENST00000606136	protein_coding	PUTATIVE	None	1734	412	136	532060	541585	1	None	E2-CDC34, UBE2R1, UBC3
19	CDC34	ENSG00000099804	ENST00000607527	protein_coding	NOVEL	None	1734	315	104	535837	541585	1	None	E2-CDC34, UBE2R1, UBC3
19	CDC34	ENSG00000099804	ENST00000606065	protein_coding	PUTATIVE	None	1734	360	119	535837	541585	1	None	E2-CDC34, UBE2R1, UBC3
19	CDC34	ENSG00000099804	ENST00000586283	protein_coding	NOVEL	None	1734	411	136	536951	542086	1	None	E2-CDC34, UBE2R1, UBC3
19	CDC34	ENSG00000099804	ENST00000606400	nonsense_mediated_decay	KNOWN	None	1734	215	70	536994	542097	1	None	E2-CDC34, UBE2R1, UBC3
19	CDC34	ENSG00000099804	ENST00000607629	protein_coding	PUTATIVE	None	1734	307	101	537010	539032	1	None	E2-CDC34, UBE2R1, UBC3
19	CDC34	ENSG00000099804	ENST00000593036	protein_coding	NOVEL	None	1734	26	7	541219	541585	1	None	E2-CDC34, UBE2R1, UBC3
15	None	ENSG00000235160	ENST00000451579	lincRNA	KNOWN	None	None	None	None	26640219	26691921	1	None	None
15	None	ENSG00000235160	ENST00000450324	lincRNA	KNOWN	None	None	None	None	26678521	26691748	1	None	None
18	None	ENSG00000265101	ENST00000580639	lincRNA	KNOWN	None	None	None	None	76685064	76687441	-1	None	None
14	DDHD1	ENSG00000100523	ENST00000323669	protein_coding	KNOWN	CCDS53895	19714	2703	900	53510686	53619816	-1	SPG28	KIAA1705, PA-PLA1
14	DDHD1	ENSG00000100523	ENST00000395606	protein_coding	NOVEL	CCDS53896	19714	2640	879	53510686	53619922	-1	SPG28	KIAA1705, PA-PLA1
14	DDHD1	ENSG00000100523	ENST00000357758	protein_coding	KNOWN	CCDS9714	19714	2619	872	53510686	53620000	-1	SPG28	KIAA1705, PA-PLA1
14	DDHD1	ENSG00000100523	ENST00000556027	retained_intron	KNOWN	None	19714	None	None	53512745	53560382	-1	SPG28	KIAA1705, PA-PLA1
14	DDHD1	ENSG00000100523	ENST00000555621	processed_transcript	PUTATIVE	None	19714	None	None	53515266	53519804	-1	SPG28	KIAA1705, PA-PLA1
14	DDHD1	ENSG00000100523	ENST00000555400	retained_intron	KNOWN	None	19714	None	None	53519228	53528042	-1	SPG28	KIAA1705, PA-PLA1
14	DDHD1	ENSG00000100523	ENST00000553406	retained_intron	KNOWN	None	19714	None	None	53558629	53560569	-1	SPG28	KIAA1705, PA-PLA1
14	DDHD1	ENSG00000100523	ENST00000556910	protein_coding	PUTATIVE	None	19714	277	91	53560040	53616804	-1	SPG28	KIAA1705, PA-PLA1
14	DDHD1	ENSG00000100523	ENST00000557445	retained_intron	KNOWN	None	19714	None	None	53570017	53619118	-1	SPG28	KIAA1705, PA-PLA1
14	CHGA	ENSG00000100604	ENST00000216492	protein_coding	KNOWN	CCDS9906	1929	1374	457	93389425	93401638	1	None	None
14	CHGA	ENSG00000100604	ENST00000556076	nonsense_mediated_decay	KNOWN	None	1929	117	38	93389502	93398026	1	None	None
14	CHGA	ENSG00000100604	ENST00000334654	protein_coding	NOVEL	None	1929	921	306	93389521	93401598	1	None	None
14	CHGA	ENSG00000100604	ENST00000553866	processed_transcript	KNOWN	None	1929	None	None	93389708	93398613	1	None	None
14	CHGA	ENSG00000100604	ENST00000556098	retained_intron	KNOWN	None	1929	None	None	93392446	93393934	1	None	None
14	CHGA	ENSG00000100604	ENST00000556876	retained_intron	KNOWN	None	1929	None	None	93398022	93399600	1	None	None
8	None	ENSG00000269899	ENST00000602711	sense_intronic	KNOWN	None	None	None	None	11703663	11703900	-1	None	None
14	None	ENSG00000258753	ENST00000554046	lincRNA	KNOWN	None	None	None	None	54937427	54937936	1	None	None
22	TTC28-AS1	ENSG00000235954	ENST00000430853	processed_transcript	KNOWN	None	29336	None	None	28315364	28389280	1	TTC28AS, TTC28-AS	KIAA1648
22	TTC28-AS1	ENSG00000235954	ENST00000424161	processed_transcript	PUTATIVE	None	29336	None	None	28315380	28393619	1	TTC28AS, TTC28-AS	KIAA1648
22	TTC28-AS1	ENSG00000235954	ENST00000419253	processed_transcript	KNOWN	None	29336	None	None	28315389	28382380	1	TTC28AS, TTC28-AS	KIAA1648
22	TTC28-AS1	ENSG00000235954	ENST00000454741	processed_transcript	KNOWN	None	29336	None	None	28315409	28398667	1	TTC28AS, TTC28-AS	KIAA1648
22	TTC28-AS1	ENSG00000235954	ENST00000453632	processed_transcript	PUTATIVE	None	29336	None	None	28315417	28393763	1	TTC28AS, TTC28-AS	KIAA1648
22	TTC28-AS1	ENSG00000235954	ENST00000436996	retained_intron	KNOWN	None	29336	None	None	28315425	28318558	1	TTC28AS, TTC28-AS	KIAA1648
22	TTC28-AS1	ENSG00000235954	ENST00000454996	processed_transcript	PUTATIVE	None	29336	None	None	28315428	28382330	1	TTC28AS, TTC28-AS	KIAA1648
22	TTC28-AS1	ENSG00000235954	ENST00000428818	processed_transcript	KNOWN	None	29336	None	None	28315445	28320951	1	TTC28AS, TTC28-AS	KIAA1648
22	TTC28-AS1	ENSG00000235954	ENST00000435348	processed_transcript	KNOWN	None	29336	None	None	28315445	28393655	1	TTC28AS, TTC28-AS	KIAA1648
22	TTC28-AS1	ENSG00000235954	ENST00000434221	processed_transcript	KNOWN	None	29336	None	None	28315445	28393688	1	TTC28AS, TTC28-AS	KIAA1648
22	TTC28-AS1	ENSG00000235954	ENST00000437713	processed_transcript	KNOWN	None	29336	None	None	28315458	28320951	1	TTC28AS, TTC28-AS	KIAA1648
22	TTC28-AS1	ENSG00000235954	ENST00000428858	retained_intron	KNOWN	None	29336	None	None	28315460	28318075	1	TTC28AS, TTC28-AS	KIAA1648
22	TTC28-AS1	ENSG00000235954	ENST00000417381	processed_transcript	PUTATIVE	None	29336	None	None	28315472	28318251	1	TTC28AS, TTC28-AS	KIAA1648
22	TTC28-AS1	ENSG00000235954	ENST00000430525	processed_transcript	PUTATIVE	None	29336	None	None	28315472	28389493	1	TTC28AS, TTC28-AS	KIAA1648
22	TTC28-AS1	ENSG00000235954	ENST00000452612	processed_transcript	KNOWN	None	29336	None	None	28315479	28395464	1	TTC28AS, TTC28-AS	KIAA1648
22	TTC28-AS1	ENSG00000235954	ENST00000425112	processed_transcript	KNOWN	None	29336	None	None	28315506	28382217	1	TTC28AS, TTC28-AS	KIAA1648
22	TTC28-AS1	ENSG00000235954	ENST00000417497	processed_transcript	PUTATIVE	None	29336	None	None	28331149	28395645	1	TTC28AS, TTC28-AS	KIAA1648
22	TTC28-AS1	ENSG00000235954	ENST00000428584	processed_transcript	KNOWN	None	29336	None	None	28388457	28404569	1	TTC28AS, TTC28-AS	KIAA1648
22	TTC28-AS1	ENSG00000235954	ENST00000433317	processed_transcript	KNOWN	None	29336	None	None	28389101	28396711	1	TTC28AS, TTC28-AS	KIAA1648
22	TTC28-AS1	ENSG00000235954	ENST00000426594	processed_transcript	PUTATIVE	None	29336	None	None	28393565	28394770	1	TTC28AS, TTC28-AS	KIAA1648
22	TTC28-AS1	ENSG00000235954	ENST00000540665	processed_transcript	KNOWN	None	29336	None	None	28388916	28393411	1	TTC28AS, TTC28-AS	KIAA1648
X	None	ENSG00000235239	ENST00000428208	processed_pseudogene	KNOWN	None	None	None	None	127261068	127262190	-1	None	None
16	TANGO6	ENSG00000103047	ENST00000564180	retained_intron	KNOWN	None	25749	None	None	68877507	68901879	1	TMCO7	FLJ12688, KIAA1746
16	TANGO6	ENSG00000103047	ENST00000261778	protein_coding	KNOWN	CCDS45516	25749	3285	1094	68877509	69119083	1	TMCO7	FLJ12688, KIAA1746
16	TANGO6	ENSG00000103047	ENST00000565037	processed_transcript	KNOWN	None	25749	None	None	68877517	68880796	1	TMCO7	FLJ12688, KIAA1746
16	TANGO6	ENSG00000103047	ENST00000561566	retained_intron	KNOWN	None	25749	None	None	68894068	68897063	1	TMCO7	FLJ12688, KIAA1746
16	TANGO6	ENSG00000103047	ENST00000565852	nonsense_mediated_decay	KNOWN	None	25749	112	36	68909127	68936345	1	TMCO7	FLJ12688, KIAA1746
16	TANGO6	ENSG00000103047	ENST00000562491	retained_intron	KNOWN	None	25749	None	None	68934141	68941436	1	TMCO7	FLJ12688, KIAA1746
16	TANGO6	ENSG00000103047	ENST00000561856	nonsense_mediated_decay	KNOWN	None	25749	83	26	68943283	68961672	1	TMCO7	FLJ12688, KIAA1746
16	TANGO6	ENSG00000103047	ENST00000562000	processed_transcript	KNOWN	None	25749	None	None	69006943	69117418	1	TMCO7	FLJ12688, KIAA1746
16	TANGO6	ENSG00000103047	ENST00000568361	retained_intron	KNOWN	None	25749	None	None	69007775	69117446	1	TMCO7	FLJ12688, KIAA1746
16	TANGO6	ENSG00000103047	ENST00000561931	processed_transcript	PUTATIVE	None	25749	None	None	69060478	69117749	1	TMCO7	FLJ12688, KIAA1746
20	None	ENSG00000228888	ENST00000449581	lincRNA	KNOWN	None	None	None	None	7127114	7234849	-1	None	None
X	None	ENSG00000263845	ENST00000584720	miRNA	NOVEL	None	None	None	None	136071175	136071263	-1	None	None
15	None	ENSG00000261628	ENST00000565492	unprocessed_pseudogene	KNOWN	None	None	None	None	31191683	31192530	1	None	None
14	None	ENSG00000258827	ENST00000554595	sense_intronic	KNOWN	None	None	None	None	37566267	37567768	-1	None	None
22	CDC42EP1	ENSG00000128283	ENST00000249014	protein_coding	KNOWN	CCDS13949	17014	1176	391	37956454	37965412	1	None	MSE55, CEP1, Borg5
22	CDC42EP1	ENSG00000128283	ENST00000430687	protein_coding	KNOWN	None	17014	210	69	37956487	37962566	1	None	MSE55, CEP1, Borg5
22	CDC42EP1	ENSG00000128283	ENST00000415670	protein_coding	KNOWN	None	17014	181	59	37959661	37962537	1	None	MSE55, CEP1, Borg5
22	CDC42EP1	ENSG00000128283	ENST00000434728	protein_coding	KNOWN	None	17014	146	47	37960413	37962502	1	None	MSE55, CEP1, Borg5
9	None	ENSG00000229311	ENST00000425493	lincRNA	KNOWN	None	None	None	None	44384585	44391705	1	None	None
15	None	ENSG00000260035	ENST00000563103	sense_intronic	KNOWN	None	None	None	None	45492523	45492830	-1	None	None
16	None	ENSG00000167970	ENST00000454671	protein_coding	NOVEL	None	None	537	178	2303738	2312343	1	None	None
8	NEFL	ENSG00000104725	ENST00000221169	processed_transcript	KNOWN	None	7739	None	None	24808468	24814624	-1	None	NFL, CMT1F, CMT2E, NF68
13	HMGA1P6	ENSG00000233440	ENST00000418454	processed_pseudogene	KNOWN	None	19121	None	None	23708313	23708703	1	HMGA1L6	None
10	CCDC147-AS1	ENSG00000231233	ENST00000435434	antisense	KNOWN	None	45243	None	None	106111349	106113333	-1	None	None
X	RNU2-26P	ENSG00000222440	ENST00000410508	snRNA	KNOWN	None	48519	None	None	91053092	91053282	1	None	None
14	None	ENSG00000258452	ENST00000555320	processed_pseudogene	KNOWN	None	None	None	None	81288868	81289140	1	None	None
4	None	ENSG00000251567	ENST00000513332	lincRNA	KNOWN	None	None	None	None	137039830	137202449	-1	None	None
4	None	ENSG00000251567	ENST00000500324	lincRNA	KNOWN	None	None	None	None	137094354	137316626	-1	None	None
10	AGAP10	ENSG00000204172	ENST00000452145	protein_coding	KNOWN	None	23462	1977	658	47191844	47213626	-1	CTGLF7	bA144G6.2
10	AGAP10	ENSG00000204172	ENST00000413193	protein_coding	KNOWN	None	23462	2112	703	47191844	47239738	-1	CTGLF7	bA144G6.2
10	AGAP10	ENSG00000204172	ENST00000355232	protein_coding	KNOWN	None	23462	1992	663	47192142	47222824	-1	CTGLF7	bA144G6.2
HG946_PATCH	TMEM130	ENSG00000261149	ENST00000567425	protein_coding	KNOWN	None	25429	1308	435	98475800	98499178	-1	None	DKFZp761L1417, FLJ42643
HG946_PATCH	TMEM130	ENSG00000261149	ENST00000564372	protein_coding	KNOWN	None	25429	1272	423	98475800	98499348	-1	None	DKFZp761L1417, FLJ42643
HG946_PATCH	TMEM130	ENSG00000261149	ENST00000565289	protein_coding	NOVEL	None	25429	1020	339	98475813	98496258	-1	None	DKFZp761L1417, FLJ42643
HG946_PATCH	TMEM130	ENSG00000261149	ENST00000569371	processed_transcript	PUTATIVE	None	25429	None	None	98475861	98477040	-1	None	DKFZp761L1417, FLJ42643
HG946_PATCH	TMEM130	ENSG00000261149	ENST00000563014	protein_coding	KNOWN	None	25429	966	321	98476169	98499269	-1	None	DKFZp761L1417, FLJ42643
HG946_PATCH	TMEM130	ENSG00000261149	ENST00000561944	processed_transcript	KNOWN	None	25429	None	None	98480837	98499326	-1	None	DKFZp761L1417, FLJ42643
HG946_PATCH	TMEM130	ENSG00000261149	ENST00000564483	processed_transcript	KNOWN	None	25429	None	None	98489500	98498606	-1	None	DKFZp761L1417, FLJ42643
HG946_PATCH	TMEM130	ENSG00000261149	ENST00000563696	protein_coding	NOVEL	None	25429	139	45	98492407	98500083	-1	None	DKFZp761L1417, FLJ42643
13	RNY3P4	ENSG00000207157	ENST00000384428	misc_RNA	KNOWN	None	42488	None	None	23726725	23726825	-1	None	None
HSCHR6_MHC_QBL	HLA-A	ENSG00000206505	ENST00000383605	protein_coding	KNOWN	None	4931	1098	365	29898417	29903057	1	None	None
HSCHR6_MHC_QBL	HLA-A	ENSG00000206505	ENST00000383619	protein_coding	KNOWN	None	4931	1116	371	29899403	29903057	1	None	None
HSCHR6_MHC_QBL	HLA-A	ENSG00000206505	ENST00000478740	retained_intron	KNOWN	None	4931	None	None	29899706	29903057	1	None	None
HSCHR6_MHC_QBL	HLA-A	ENSG00000206505	ENST00000376822	protein_coding	KNOWN	None	4931	900	299	29899707	29903057	1	None	None
HSCHR6_MHC_QBL	HLA-A	ENSG00000206505	ENST00000462536	retained_intron	KNOWN	None	4931	None	None	29899710	29903057	1	None	None
HSCHR6_MHC_QBL	HLA-A	ENSG00000206505	ENST00000461996	retained_intron	KNOWN	None	4931	None	None	29899712	29902454	1	None	None
HSCHR6_MHC_QBL	HLA-A	ENSG00000206505	ENST00000492107	retained_intron	KNOWN	None	4931	None	None	29899712	29902454	1	None	None
HSCHR6_MHC_QBL	HLA-A	ENSG00000206505	ENST00000549224	protein_coding	KNOWN	None	4931	1098	365	29899659	29902943	1	None	None
10	None	ENSG00000238620	ENST00000458914	snoRNA	NOVEL	None	None	None	None	106159563	106159661	1	None	None
14	IGHV4-31	ENSG00000231475	ENST00000438142	IG_V_gene	KNOWN	None	5649	354	117	106805209	106805716	-1	None	None
3	TOPAZ1	ENSG00000173769	ENST00000309765	protein_coding	KNOWN	CCDS46809	24746	5079	1692	44283378	44373590	1	C3orf77	FLJ36157
13	LINC00362	ENSG00000229483	ENST00000414345	lincRNA	KNOWN	None	42682	None	None	23743974	23744736	-1	None	None
22	JOSD1	ENSG00000100221	ENST00000216039	protein_coding	KNOWN	CCDS13976	28953	609	202	39081548	39096672	-1	None	KIAA0063
22	JOSD1	ENSG00000100221	ENST00000545590	protein_coding	NOVEL	None	28953	463	153	39083723	39095975	-1	None	KIAA0063
22	JOSD1	ENSG00000100221	ENST00000482442	retained_intron	KNOWN	None	28953	None	None	39083929	39085328	-1	None	KIAA0063
22	JOSD1	ENSG00000100221	ENST00000427389	protein_coding	PUTATIVE	None	28953	370	122	39085079	39097035	-1	None	KIAA0063
22	JOSD1	ENSG00000100221	ENST00000412832	protein_coding	KNOWN	None	28953	314	103	39085301	39096945	-1	None	KIAA0063
22	JOSD1	ENSG00000100221	ENST00000417712	protein_coding	KNOWN	None	28953	187	61	39095806	39097561	-1	None	KIAA0063
22	JOSD1	ENSG00000100221	ENST00000456626	protein_coding	KNOWN	None	28953	185	60	39095808	39096935	-1	None	KIAA0063
22	JOSD1	ENSG00000100221	ENST00000462610	processed_transcript	KNOWN	None	28953	None	None	39096166	39097037	-1	None	KIAA0063
22	JOSD1	ENSG00000100221	ENST00000490169	processed_transcript	KNOWN	None	28953	None	None	39096281	39097423	-1	None	KIAA0063
22	JOSD1	ENSG00000100221	ENST00000493939	processed_transcript	KNOWN	None	28953	None	None	39096287	39096947	-1	None	KIAA0063
10	None	ENSG00000225768	ENST00000447860	lincRNA	KNOWN	None	None	None	None	106234697	106240032	-1	None	None
16	MT1H	ENSG00000205358	ENST00000332374	protein_coding	KNOWN	CCDS10767	7400	186	61	56703726	56705041	1	MT1	None
16	MT1H	ENSG00000205358	ENST00000569155	protein_coding	PUTATIVE	None	7400	258	85	56703752	56705041	1	MT1	None
9	None	ENSG00000237422	ENST00000457976	lincRNA	KNOWN	None	None	None	None	93881420	93925369	-1	None	None
8	None	ENSG00000255144	ENST00000525252	unprocessed_pseudogene	KNOWN	None	None	None	None	11753359	11754379	-1	None	None
15	None	ENSG00000261709	ENST00000564565	lincRNA	KNOWN	None	None	None	None	45506646	45507242	-1	None	None
15	None	ENSG00000261709	ENST00000408163	snoRNA	NOVEL	None	None	None	None	45507104	45507231	-1	None	None
4	None	ENSG00000250665	ENST00000511749	lincRNA	KNOWN	None	None	None	None	137047064	137060029	1	None	None
X	None	ENSG00000234702	ENST00000434069	processed_pseudogene	KNOWN	None	None	None	None	91237654	91238504	-1	None	None
13	RNU6-58P	ENSG00000252952	ENST00000517143	snRNA	KNOWN	None	42548	None	None	23791571	23791673	-1	RNU6-58	None
15	LRRC28	ENSG00000168904	ENST00000558879	protein_coding	PUTATIVE	None	28355	183	60	99791567	99926407	1	None	MGC24976, FLJ34269, FLJ45242
15	LRRC28	ENSG00000168904	ENST00000301981	protein_coding	KNOWN	CCDS10380	28355	1104	367	99791567	99930934	1	None	MGC24976, FLJ34269, FLJ45242
15	LRRC28	ENSG00000168904	ENST00000559399	processed_transcript	KNOWN	None	28355	None	None	99791591	99874335	1	None	MGC24976, FLJ34269, FLJ45242
15	LRRC28	ENSG00000168904	ENST00000560213	retained_intron	KNOWN	None	28355	None	None	99791654	99796561	1	None	MGC24976, FLJ34269, FLJ45242
15	LRRC28	ENSG00000168904	ENST00000559433	nonsense_mediated_decay	KNOWN	None	28355	186	61	99791665	99903383	1	None	MGC24976, FLJ34269, FLJ45242
15	LRRC28	ENSG00000168904	ENST00000558471	nonsense_mediated_decay	KNOWN	None	28355	183	60	99791668	99901716	1	None	MGC24976, FLJ34269, FLJ45242
15	LRRC28	ENSG00000168904	ENST00000561253	nonsense_mediated_decay	KNOWN	None	28355	225	74	99791691	99874183	1	None	MGC24976, FLJ34269, FLJ45242
15	LRRC28	ENSG00000168904	ENST00000558500	processed_transcript	KNOWN	None	28355	None	None	99791698	99837543	1	None	MGC24976, FLJ34269, FLJ45242
15	LRRC28	ENSG00000168904	ENST00000447360	protein_coding	KNOWN	None	28355	939	312	99791710	99926501	1	None	MGC24976, FLJ34269, FLJ45242
15	LRRC28	ENSG00000168904	ENST00000558172	protein_coding	NOVEL	None	28355	557	184	99791720	99901714	1	None	MGC24976, FLJ34269, FLJ45242
15	LRRC28	ENSG00000168904	ENST00000561276	protein_coding	PUTATIVE	None	28355	902	299	99791725	99926240	1	None	MGC24976, FLJ34269, FLJ45242
15	LRRC28	ENSG00000168904	ENST00000331450	protein_coding	NOVEL	None	28355	282	93	99791746	99926501	1	None	MGC24976, FLJ34269, FLJ45242
15	LRRC28	ENSG00000168904	ENST00000558861	protein_coding	KNOWN	None	28355	510	169	99792016	99874252	1	None	MGC24976, FLJ34269, FLJ45242
15	LRRC28	ENSG00000168904	ENST00000558771	processed_transcript	KNOWN	None	28355	None	None	99826907	99892662	1	None	MGC24976, FLJ34269, FLJ45242
15	LRRC28	ENSG00000168904	ENST00000558248	retained_intron	KNOWN	None	28355	None	None	99860808	99892732	1	None	MGC24976, FLJ34269, FLJ45242
15	LRRC28	ENSG00000168904	ENST00000558890	retained_intron	KNOWN	None	28355	None	None	99866718	99903598	1	None	MGC24976, FLJ34269, FLJ45242
15	LRRC28	ENSG00000168904	ENST00000559819	retained_intron	KNOWN	None	28355	None	None	99873820	99930932	1	None	MGC24976, FLJ34269, FLJ45242
15	LRRC28	ENSG00000168904	ENST00000559774	processed_transcript	KNOWN	None	28355	None	None	99874128	99895924	1	None	MGC24976, FLJ34269, FLJ45242
15	LRRC28	ENSG00000168904	ENST00000558911	processed_transcript	KNOWN	None	28355	None	None	99874288	99894205	1	None	MGC24976, FLJ34269, FLJ45242
15	LRRC28	ENSG00000168904	ENST00000560483	retained_intron	KNOWN	None	28355	None	None	99901201	99903329	1	None	MGC24976, FLJ34269, FLJ45242
15	LRRC28	ENSG00000168904	ENST00000560236	nonsense_mediated_decay	KNOWN	None	28355	114	37	99903430	99928474	1	None	MGC24976, FLJ34269, FLJ45242
15	LRRC28	ENSG00000168904	ENST00000561431	processed_transcript	KNOWN	None	28355	None	None	99924499	99926500	1	None	MGC24976, FLJ34269, FLJ45242
15	LRRC28	ENSG00000168904	ENST00000422500	protein_coding	KNOWN	None	28355	897	298	99791693	99926639	1	None	MGC24976, FLJ34269, FLJ45242
15	LRRC28	ENSG00000168904	ENST00000442993	protein_coding	KNOWN	None	28355	456	151	99791710	99903438	1	None	MGC24976, FLJ34269, FLJ45242
4	SEC24D	ENSG00000150961	ENST00000280551	protein_coding	KNOWN	CCDS3710	10706	3099	1032	119643978	119757293	-1	None	KIAA0755
4	SEC24D	ENSG00000150961	ENST00000505134	processed_transcript	KNOWN	None	10706	None	None	119643985	119687718	-1	None	KIAA0755
4	SEC24D	ENSG00000150961	ENST00000511481	protein_coding	PUTATIVE	None	10706	1992	663	119644179	119690995	-1	None	KIAA0755
4	SEC24D	ENSG00000150961	ENST00000502830	retained_intron	KNOWN	None	10706	None	None	119644676	119650002	-1	None	KIAA0755
4	SEC24D	ENSG00000150961	ENST00000511715	retained_intron	KNOWN	None	10706	None	None	119650277	119654470	-1	None	KIAA0755
4	SEC24D	ENSG00000150961	ENST00000514561	nonsense_mediated_decay	KNOWN	None	10706	204	67	119657184	119759825	-1	None	KIAA0755
4	SEC24D	ENSG00000150961	ENST00000502526	retained_intron	KNOWN	None	10706	None	None	119659259	119660378	-1	None	KIAA0755
4	SEC24D	ENSG00000150961	ENST00000511033	processed_transcript	KNOWN	None	10706	None	None	119665229	119675275	-1	None	KIAA0755
4	SEC24D	ENSG00000150961	ENST00000509818	nonsense_mediated_decay	KNOWN	None	10706	636	211	119673901	119759827	-1	None	KIAA0755
4	SEC24D	ENSG00000150961	ENST00000514418	retained_intron	KNOWN	None	10706	None	None	119685568	119689402	-1	None	KIAA0755
4	SEC24D	ENSG00000150961	ENST00000506622	nonsense_mediated_decay	KNOWN	None	10706	918	305	119718838	119759838	-1	None	KIAA0755
4	SEC24D	ENSG00000150961	ENST00000503683	protein_coding	PUTATIVE	None	10706	497	164	119736782	119757769	-1	None	KIAA0755
4	SEC24D	ENSG00000150961	ENST00000505280	processed_transcript	KNOWN	None	10706	None	None	119754432	119759808	-1	None	KIAA0755
4	SEC24D	ENSG00000150961	ENST00000379735	protein_coding	KNOWN	None	10706	3102	1033	119643979	119757326	-1	None	KIAA0755
4	SEC24D	ENSG00000150961	ENST00000429811	protein_coding	KNOWN	None	10706	1182	393	119643985	119679797	-1	None	KIAA0755
4	SEC24D	ENSG00000150961	ENST00000419654	protein_coding	KNOWN	None	10706	1182	393	119657200	119759825	-1	None	KIAA0755
14	None	ENSG00000258915	ENST00000553845	processed_pseudogene	KNOWN	None	None	None	None	81448332	81449982	1	None	None
10	None	ENSG00000237761	ENST00000450054	lincRNA	KNOWN	None	None	None	None	106375860	106376731	1	None	None
13	TATDN2P3	ENSG00000235205	ENST00000452855	processed_pseudogene	KNOWN	None	39256	None	None	23817659	23821323	1	None	None
4	TERF1P3	ENSG00000249311	ENST00000505638	processed_pseudogene	KNOWN	None	38499	None	None	137276265	137277491	-1	None	None
4	TERF1P3	ENSG00000249311	ENST00000536659	processed_pseudogene	KNOWN	None	38499	None	None	137276268	137277304	-1	None	None
15	None	ENSG00000259338	ENST00000559063	processed_pseudogene	KNOWN	None	None	None	None	45507745	45508141	1	None	None
10	SORCS3-AS1	ENSG00000226387	ENST00000449805	antisense	KNOWN	None	45244	None	None	106424366	106425958	-1	None	None
14	IGHV3-33	ENSG00000211955	ENST00000390615	IG_V_gene	KNOWN	None	5596	351	116	106815722	106816253	-1	None	None
13	SDAD1P4	ENSG00000236803	ENST00000418445	processed_pseudogene	KNOWN	None	39261	None	None	23841645	23843289	1	None	None
HSCHR6_MHC_QBL	LTA	ENSG00000173503	ENST00000400272	protein_coding	KNOWN	None	6709	618	205	31530070	31532342	1	TNFB	TNFSF1, LT
HSCHR6_MHC_QBL	LTA	ENSG00000173503	ENST00000481446	retained_intron	KNOWN	None	6709	None	None	31530286	31532342	1	TNFB	TNFSF1, LT
HSCHR6_MHC_QBL	LTA	ENSG00000173503	ENST00000383499	protein_coding	KNOWN	None	6709	618	205	31530299	31532342	1	TNFB	TNFSF1, LT
HSCHR6_MHC_QBL	LTA	ENSG00000173503	ENST00000498217	retained_intron	KNOWN	None	6709	None	None	31530310	31532342	1	TNFB	TNFSF1, LT
HSCHR6_MHC_QBL	LTA	ENSG00000173503	ENST00000550546	protein_coding	KNOWN	None	6709	414	137	31530332	31531868	1	TNFB	TNFSF1, LT
14	None	ENSG00000271705	ENST00000605695	unprocessed_pseudogene	KNOWN	None	None	None	None	81467510	81468130	-1	None	None
10	RNU6-463P	ENSG00000207068	ENST00000384340	snRNA	KNOWN	None	47426	None	None	107294417	107294523	1	None	None
9	None	ENSG00000221768	ENST00000408841	miRNA	NOVEL	None	None	None	None	129293194	129293270	-1	None	None
4	None	ENSG00000264362	ENST00000584609	miRNA	NOVEL	None	None	None	None	137628333	137628416	-1	None	None
13	RPLP1P13	ENSG00000232163	ENST00000434567	processed_pseudogene	KNOWN	None	41973	None	None	23947562	23948200	1	None	None
8	None	ENSG00000254070	ENST00000524225	processed_pseudogene	KNOWN	None	None	None	None	47583461	47583548	1	None	None
9	None	ENSG00000221173	ENST00000408246	miRNA	NOVEL	None	None	None	None	129338809	129338909	-1	None	None
12	GYS2	ENSG00000111713	ENST00000261195	protein_coding	KNOWN	CCDS8690	4707	2112	703	21689123	21757781	-1	None	None
X	EIF4A1P10	ENSG00000229132	ENST00000428832	processed_pseudogene	KNOWN	None	37930	None	None	91368245	91369460	-1	None	None
4	None	ENSG00000248869	ENST00000505736	lincRNA	KNOWN	None	None	None	None	137717877	138133953	-1	None	None
4	None	ENSG00000248869	ENST00000512039	lincRNA	KNOWN	None	None	None	None	137730224	137842536	-1	None	None
X	None	ENSG00000214748	ENST00000442158	processed_pseudogene	KNOWN	None	None	None	None	136407131	136407208	-1	None	None
13	SACS-AS1	ENSG00000229558	ENST00000443092	lincRNA	KNOWN	None	39835	None	None	23993110	24002818	1	None	None
5	CPEB4	ENSG00000113742	ENST00000265085	protein_coding	KNOWN	CCDS4390	21747	2190	729	173315283	173388979	1	None	KIAA1673
5	CPEB4	ENSG00000113742	ENST00000520867	protein_coding	NOVEL	None	21747	2115	704	173316343	173383238	1	None	KIAA1673
5	CPEB4	ENSG00000113742	ENST00000334035	protein_coding	KNOWN	None	21747	2139	712	173316343	173387312	1	None	KIAA1673
5	CPEB4	ENSG00000113742	ENST00000519835	protein_coding	PUTATIVE	None	21747	1920	639	173316534	173380442	1	None	KIAA1673
5	CPEB4	ENSG00000113742	ENST00000518141	processed_transcript	PUTATIVE	None	21747	None	None	173317669	173318610	1	None	KIAA1673
5	CPEB4	ENSG00000113742	ENST00000522344	retained_intron	KNOWN	None	21747	None	None	173317677	173337821	1	None	KIAA1673
5	CPEB4	ENSG00000113742	ENST00000519152	protein_coding	NOVEL	None	21747	441	146	173317680	173372095	1	None	KIAA1673
5	CPEB4	ENSG00000113742	ENST00000522336	protein_coding	PUTATIVE	None	21747	1020	339	173320054	173383517	1	None	KIAA1673
5	CPEB4	ENSG00000113742	ENST00000517880	protein_coding	PUTATIVE	None	21747	969	322	173320081	173383460	1	None	KIAA1673
5	CPEB4	ENSG00000113742	ENST00000519467	processed_transcript	KNOWN	None	21747	None	None	173345219	173383517	1	None	KIAA1673
9	None	ENSG00000224842	ENST00000451449	antisense	KNOWN	None	None	None	None	129351873	129375979	-1	None	None
9	None	ENSG00000224842	ENST00000432418	antisense	KNOWN	None	None	None	None	129370392	129374798	-1	None	None
9	None	ENSG00000224842	ENST00000425370	antisense	KNOWN	None	None	None	None	129370557	129375978	-1	None	None
15	None	ENSG00000259520	ENST00000559003	antisense	KNOWN	None	None	None	None	45543884	45548200	-1	None	None
15	None	ENSG00000259520	ENST00000560344	antisense	KNOWN	None	None	None	None	45545704	45571425	-1	None	None
15	None	ENSG00000259520	ENST00000561404	antisense	KNOWN	None	None	None	None	45547322	45571449	-1	None	None
14	RNU6ATAC9P	ENSG00000252019	ENST00000516210	snRNA	KNOWN	None	46908	None	None	55325933	55326048	1	None	None
14	MIR4308	ENSG00000265432	ENST00000580634	miRNA	KNOWN	None	38206	None	None	55344831	55344911	-1	None	hsa-mir-4308
21	None	ENSG00000228107	ENST00000397184	processed_transcript	PUTATIVE	None	None	None	None	37732928	37734338	1	None	None
20	None	ENSG00000238102	ENST00000428954	lincRNA	KNOWN	None	None	None	None	7237227	7238861	-1	None	None
4	None	ENSG00000250341	ENST00000509798	lincRNA	KNOWN	None	None	None	None	138114910	138119521	1	None	None
13	LINC00327	ENSG00000232977	ENST00000575689	lincRNA	KNOWN	None	42009	None	None	24040710	24044781	1	NCRNA00327	None
13	LINC00327	ENSG00000232977	ENST00000576696	lincRNA	KNOWN	None	42009	None	None	24040710	24044781	1	NCRNA00327	None
13	LINC00327	ENSG00000232977	ENST00000443778	lincRNA	KNOWN	None	42009	None	None	24043651	24061603	1	NCRNA00327	None
18	None	ENSG00000267292	ENST00000593141	processed_pseudogene	KNOWN	None	None	None	None	12050308	12050671	-1	None	None
X	RAC1P4	ENSG00000237584	ENST00000419413	processed_pseudogene	KNOWN	None	31113	None	None	136523417	136523995	-1	RAC4	Psi4Rac1
21	ATP5J2LP	ENSG00000224421	ENST00000444161	processed_pseudogene	KNOWN	None	849	None	None	37761176	37761410	-1	None	None
10	MBL2	ENSG00000165471	ENST00000373968	protein_coding	KNOWN	CCDS7247	6922	747	248	54525140	54531460	-1	MBL	COLEC1
10	MBL2	ENSG00000165471	ENST00000493043	processed_transcript	KNOWN	None	6922	None	None	54528050	54531222	-1	MBL	COLEC1
14	None	ENSG00000271656	ENST00000604099	processed_pseudogene	KNOWN	None	None	None	None	81469669	81469989	-1	None	None
18	None	ENSG00000212712	ENST00000391405	processed_pseudogene	KNOWN	None	None	None	None	12056675	12057821	-1	None	None
13	DLEU7	ENSG00000186047	ENST00000443723	processed_transcript	KNOWN	None	17567	None	None	51285144	51289619	-1	None	FLJ44882
13	DLEU7	ENSG00000186047	ENST00000400393	protein_coding	KNOWN	CCDS53869	17567	483	160	51286037	51418075	-1	None	FLJ44882
13	DLEU7	ENSG00000186047	ENST00000504404	protein_coding	KNOWN	None	17567	666	221	51397044	51417832	-1	None	FLJ44882
8	ASNSP4	ENSG00000251470	ENST00000511103	unprocessed_pseudogene	KNOWN	None	39400	None	None	47609252	47610310	1	None	None
HG686_PATCH	None	ENSG00000260875	ENST00000565200	processed_pseudogene	KNOWN	None	None	None	None	95676179	95676578	1	None	None
18	None	ENSG00000267533	ENST00000589764	processed_pseudogene	KNOWN	None	None	None	None	12067172	12068416	-1	None	None
16	None	ENSG00000201075	ENST00000364205	misc_RNA	NOVEL	None	None	None	None	14369362	14369457	1	None	None
15	None	ENSG00000270015	ENST00000602886	sense_intronic	KNOWN	None	None	None	None	31218717	31220610	1	None	None
X	None	ENSG00000236120	ENST00000444185	lincRNA	KNOWN	None	None	None	None	5571462	5643998	-1	None	None
X	None	ENSG00000236120	ENST00000422914	lincRNA	KNOWN	None	None	None	None	5571462	5644346	-1	None	None
5	MCTP1	ENSG00000175471	ENST00000514040	processed_transcript	KNOWN	None	26183	None	None	94039446	94120602	-1	None	FLJ22344
5	MCTP1	ENSG00000175471	ENST00000515393	protein_coding	KNOWN	CCDS34203	26183	3000	999	94040805	94620279	-1	None	FLJ22344
5	MCTP1	ENSG00000175471	ENST00000429576	protein_coding	KNOWN	None	26183	2079	692	94042284	94417349	-1	None	FLJ22344
5	MCTP1	ENSG00000175471	ENST00000505078	protein_coding	KNOWN	None	26183	1548	515	94042296	94265406	-1	None	FLJ22344
5	MCTP1	ENSG00000175471	ENST00000312216	protein_coding	KNOWN	CCDS47247	26183	2337	778	94043201	94417186	-1	None	FLJ22344
5	MCTP1	ENSG00000175471	ENST00000509850	retained_intron	KNOWN	None	26183	None	None	94043230	94046398	-1	None	FLJ22344
5	MCTP1	ENSG00000175471	ENST00000508509	protein_coding	NOVEL	None	26183	2051	682	94044254	94417349	-1	None	FLJ22344
5	MCTP1	ENSG00000175471	ENST00000512425	protein_coding	PUTATIVE	None	26183	1467	488	94134790	94417276	-1	None	FLJ22344
5	MCTP1	ENSG00000175471	ENST00000505208	protein_coding	KNOWN	None	26183	1803	600	94202848	94417331	-1	None	FLJ22344
5	MCTP1	ENSG00000175471	ENST00000506568	protein_coding	NOVEL	None	26183	1245	414	94202927	94275880	-1	None	FLJ22344
5	MCTP1	ENSG00000175471	ENST00000503301	protein_coding	NOVEL	None	26183	874	290	94245021	94619704	-1	None	FLJ22344
5	MCTP1	ENSG00000175471	ENST00000507214	protein_coding	NOVEL	None	26183	575	190	94248563	94353191	-1	None	FLJ22344
5	MCTP1	ENSG00000175471	ENST00000514780	protein_coding	NOVEL	None	26183	510	169	94266448	94353188	-1	None	FLJ22344
5	MCTP1	ENSG00000175471	ENST00000512568	processed_transcript	KNOWN	None	26183	None	None	94278054	94314770	-1	None	FLJ22344
5	MCTP1	ENSG00000175471	ENST00000510732	protein_coding	NOVEL	None	26183	406	134	94278089	94417350	-1	None	FLJ22344
5	MCTP1	ENSG00000175471	ENST00000513695	processed_transcript	KNOWN	None	26183	None	None	94278098	94501879	-1	None	FLJ22344
5	MCTP1	ENSG00000175471	ENST00000505465	protein_coding	KNOWN	None	26183	244	80	94288997	94417588	-1	None	FLJ22344
5	MCTP1	ENSG00000175471	ENST00000513857	processed_transcript	KNOWN	None	26183	None	None	94353071	94417286	-1	None	FLJ22344
13	LINC00352	ENSG00000227893	ENST00000425800	lincRNA	KNOWN	None	42670	None	None	24072935	24077013	1	None	None
5	ACOT12	ENSG00000172497	ENST00000307624	protein_coding	KNOWN	CCDS4055	24436	1668	555	80625824	80689962	-1	None	Cach, THEAL, STARD15
5	ACOT12	ENSG00000172497	ENST00000508234	processed_transcript	KNOWN	None	24436	None	None	80626181	80640022	-1	None	Cach, THEAL, STARD15
5	ACOT12	ENSG00000172497	ENST00000506440	retained_intron	KNOWN	None	24436	None	None	80626272	80631721	-1	None	Cach, THEAL, STARD15
5	ACOT12	ENSG00000172497	ENST00000513751	protein_coding	PUTATIVE	None	24436	504	167	80655671	80689998	-1	None	Cach, THEAL, STARD15
16	None	ENSG00000262454	ENST00000570945	lincRNA	KNOWN	None	None	None	None	14396145	14420210	1	None	None
16	None	ENSG00000262454	ENST00000571639	lincRNA	KNOWN	None	None	None	None	14396362	14420142	1	None	None
16	None	ENSG00000262454	ENST00000575792	lincRNA	KNOWN	None	None	None	None	14417151	14420141	1	None	None
14	None	ENSG00000258872	ENST00000556903	transcribed_processed_pseudogene	KNOWN	None	None	None	None	55351567	55352931	-1	None	None
15	PLCB2-AS1	ENSG00000259307	ENST00000559520	antisense	KNOWN	None	43662	None	None	40592871	40594021	1	None	None
13	MTCO3P2	ENSG00000232102	ENST00000457365	processed_pseudogene	KNOWN	None	39681	None	None	24340073	24340243	-1	None	None
14	None	ENSG00000259167	ENST00000554095	processed_pseudogene	KNOWN	None	None	None	None	81498873	81499748	1	None	None
4	RPL30P5	ENSG00000239525	ENST00000494923	processed_pseudogene	KNOWN	None	36302	None	None	84423852	84424187	1	None	None
15	None	ENSG00000259195	ENST00000559631	processed_pseudogene	KNOWN	None	None	None	None	86314221	86314394	1	None	None
18	None	ENSG00000256616	ENST00000591780	processed_transcript	KNOWN	None	None	None	None	12073231	12076595	-1	None	None
18	None	ENSG00000256616	ENST00000590929	transcribed_processed_pseudogene	KNOWN	None	None	None	None	12075204	12076653	-1	None	None
18	None	ENSG00000256616	ENST00000540614	processed_pseudogene	KNOWN	None	None	None	None	12075700	12076653	-1	None	None
9	RPL3P11	ENSG00000223568	ENST00000434028	processed_pseudogene	KNOWN	None	35521	None	None	14040715	14041860	-1	None	None
8	None	ENSG00000223697	ENST00000429151	antisense	KNOWN	None	None	None	None	133850375	133856543	-1	None	None
14	None	ENSG00000258999	ENST00000557775	antisense	KNOWN	None	None	None	None	81573377	81636758	-1	None	None
13	OXGR1	ENSG00000165621	ENST00000298440	protein_coding	KNOWN	CCDS9482	4531	1014	337	97637973	97646604	-1	GPR99, GPR80	P2RY15, P2Y15
13	OXGR1	ENSG00000165621	ENST00000543457	protein_coding	KNOWN	CCDS9482	4531	1014	337	97639000	97646623	-1	GPR99, GPR80	P2RY15, P2Y15
13	OXGR1	ENSG00000165621	ENST00000541518	protein_coding	KNOWN	None	4531	207	68	97639807	97646984	-1	GPR99, GPR80	P2RY15, P2Y15
13	OXGR1	ENSG00000165621	ENST00000541038	protein_coding	KNOWN	None	4531	187	61	97639827	97646730	-1	GPR99, GPR80	P2RY15, P2Y15
18	EMILIN2	ENSG00000132205	ENST00000254528	protein_coding	KNOWN	CCDS11828	19881	3162	1053	2847028	2915991	1	None	FLJ33200, FOAP-10
18	EMILIN2	ENSG00000132205	ENST00000308080	processed_transcript	KNOWN	None	19881	None	None	2906213	2914039	1	None	FLJ33200, FOAP-10
18	EMILIN2	ENSG00000132205	ENST00000583776	retained_intron	KNOWN	None	19881	None	None	2906567	2913160	1	None	FLJ33200, FOAP-10
18	None	ENSG00000267722	ENST00000591853	lincRNA	KNOWN	None	None	None	None	12081539	12085266	1	None	None
15	RNU6-466P	ENSG00000212526	ENST00000391224	snRNA	KNOWN	None	47429	None	None	31248451	31248553	-1	None	None
9	None	ENSG00000213954	ENST00000396994	processed_pseudogene	KNOWN	None	None	None	None	14068931	14069416	1	None	None
8	None	ENSG00000228984	ENST00000523498	processed_pseudogene	KNOWN	None	None	None	None	47696422	47697550	1	None	None
5	None	ENSG00000248884	ENST00000507733	lincRNA	KNOWN	None	None	None	None	67726254	67730308	-1	None	None
X	KRT18P11	ENSG00000215089	ENST00000435214	processed_pseudogene	KNOWN	None	6431	None	None	91714669	91715951	1	KRT18L1	None
5	CTBP2P4	ENSG00000251102	ENST00000513884	processed_pseudogene	KNOWN	None	45196	None	None	97912045	97912964	1	None	None
13	C1QTNF9B-AS1	ENSG00000205861	ENST00000382133	antisense	KNOWN	None	39839	None	None	24463028	24466243	1	None	PCOTH
13	C1QTNF9B-AS1	ENSG00000205861	ENST00000417034	antisense	KNOWN	None	39839	None	None	24465598	24471402	1	None	PCOTH
13	C1QTNF9B-AS1	ENSG00000205861	ENST00000435039	antisense	KNOWN	None	39839	None	None	24463592	24466242	1	None	PCOTH
15	None	ENSG00000259720	ENST00000561299	antisense	KNOWN	None	None	None	None	31294216	31334505	1	None	None
15	None	ENSG00000259720	ENST00000558755	antisense	KNOWN	None	None	None	None	31318409	31328173	1	None	None
18	None	ENSG00000267478	ENST00000589352	processed_pseudogene	KNOWN	None	None	None	None	12091673	12093140	-1	None	None
7	RPA3	ENSG00000106399	ENST00000223129	protein_coding	KNOWN	CCDS5356	10291	366	121	7676149	7758238	-1	None	REPA3
7	RPA3	ENSG00000106399	ENST00000406109	protein_coding	PUTATIVE	None	10291	249	82	7676558	7680447	-1	None	REPA3
7	RPA3	ENSG00000106399	ENST00000396682	protein_coding	KNOWN	CCDS5356	10291	366	121	7676563	7680603	-1	None	REPA3
7	RPA3	ENSG00000106399	ENST00000401447	protein_coding	PUTATIVE	None	10291	249	82	7676606	7679657	-1	None	REPA3
7	RPA3	ENSG00000106399	ENST00000483031	retained_intron	KNOWN	None	10291	None	None	7676616	7678037	-1	None	REPA3
7	RPA3	ENSG00000106399	ENST00000462723	retained_intron	KNOWN	None	10291	None	None	7678045	7680208	-1	None	REPA3
7	RPA3	ENSG00000106399	ENST00000463632	retained_intron	KNOWN	None	10291	None	None	7678210	7680580	-1	None	REPA3
8	R3HCC1	ENSG00000104679	ENST00000517633	processed_transcript	KNOWN	None	27329	None	None	23127633	23146547	1	None	DKFZp564N123
8	R3HCC1	ENSG00000104679	ENST00000522012	processed_transcript	KNOWN	None	27329	None	None	23145421	23153634	1	None	DKFZp564N123
8	R3HCC1	ENSG00000104679	ENST00000518454	protein_coding	KNOWN	CCDS47826	27329	762	253	23145421	23153634	1	None	DKFZp564N123
8	R3HCC1	ENSG00000104679	ENST00000265806	protein_coding	KNOWN	CCDS47826	27329	762	253	23145421	23153792	1	None	DKFZp564N123
8	R3HCC1	ENSG00000104679	ENST00000519952	protein_coding	KNOWN	None	27329	399	132	23145637	23148981	1	None	DKFZp564N123
8	R3HCC1	ENSG00000104679	ENST00000518840	protein_coding	KNOWN	None	27329	110	35	23145697	23147801	1	None	DKFZp564N123
8	R3HCC1	ENSG00000104679	ENST00000521588	protein_coding	KNOWN	None	27329	290	95	23145935	23147981	1	None	DKFZp564N123
8	R3HCC1	ENSG00000104679	ENST00000520480	protein_coding	PUTATIVE	None	27329	447	148	23147926	23153143	1	None	DKFZp564N123
8	R3HCC1	ENSG00000104679	ENST00000523720	processed_transcript	KNOWN	None	27329	None	None	23148489	23150886	1	None	DKFZp564N123
8	R3HCC1	ENSG00000104679	ENST00000411463	protein_coding	KNOWN	None	27329	1443	480	23145442	23153791	1	None	DKFZp564N123
9	LINC00484	ENSG00000235641	ENST00000423719	lincRNA	KNOWN	None	27862	None	None	93922051	93927858	1	C9orf73	None
9	LINC00484	ENSG00000235641	ENST00000588550	lincRNA	KNOWN	None	27862	None	None	93924780	93925613	1	C9orf73	None
11	CDC42EP2	ENSG00000149798	ENST00000279249	protein_coding	KNOWN	CCDS8099	16263	633	210	65082289	65089900	1	None	CEP2, BORG1
11	CDC42EP2	ENSG00000149798	ENST00000533419	protein_coding	KNOWN	CCDS8099	16263	633	210	65084513	65089092	1	None	CEP2, BORG1
11	CDC42EP2	ENSG00000149798	ENST00000544348	protein_coding	KNOWN	CCDS8099	16263	633	210	65084691	65089891	1	None	CEP2, BORG1
HSCHR6_MHC_COX	MAS1LP1	ENSG00000224444	ENST00000415487	unprocessed_pseudogene	KNOWN	None	33448	None	None	29439379	29440425	-1	MAS1LP	OTTHUMG00000086553
11	C11orf83	ENSG00000204922	ENST00000531323	protein_coding	KNOWN	CCDS41658	34399	282	93	62437745	62441049	1	None	UNQ655
11	C11orf83	ENSG00000204922	ENST00000377953	protein_coding	KNOWN	CCDS41658	34399	282	93	62439126	62441159	1	None	UNQ655
9	None	ENSG00000234982	ENST00000435137	processed_pseudogene	KNOWN	None	None	None	None	14204247	14205038	1	None	None
18	RNU6-324P	ENSG00000200827	ENST00000363957	snRNA	KNOWN	None	47287	None	None	12098426	12098531	1	None	None
15	None	ENSG00000235390	ENST00000560007	processed_pseudogene	KNOWN	None	None	None	None	45613275	45613890	-1	None	None
15	None	ENSG00000235390	ENST00000424825	processed_pseudogene	KNOWN	None	None	None	None	45613312	45613584	-1	None	None
16	None	ENSG00000261399	ENST00000570022	antisense	KNOWN	None	None	None	None	1763528	1764209	-1	None	None
18	None	ENSG00000263146	ENST00000575722	lincRNA	KNOWN	None	None	None	None	76736555	76738843	-1	None	None
18	None	ENSG00000263146	ENST00000583511	lincRNA	KNOWN	None	None	None	None	76737095	76738843	-1	None	None
18	None	ENSG00000263146	ENST00000572007	lincRNA	KNOWN	None	None	None	None	76737288	76737883	-1	None	None
18	None	ENSG00000263146	ENST00000573860	lincRNA	KNOWN	None	None	None	None	76738351	76739074	-1	None	None
9	None	ENSG00000230147	ENST00000430315	processed_pseudogene	KNOWN	None	None	None	None	93931867	93932327	-1	None	None
9	None	ENSG00000225472	ENST00000416996	antisense	KNOWN	None	None	None	None	14317084	14357853	1	None	None
9	None	ENSG00000225472	ENST00000440947	antisense	KNOWN	None	None	None	None	14347319	14357907	1	None	None
18	None	ENSG00000267162	ENST00000588055	processed_pseudogene	KNOWN	None	None	None	None	12101996	12102469	-1	None	None
14	IGHV4-34	ENSG00000211956	ENST00000390616	IG_V_gene	KNOWN	None	5650	369	122	106829594	106830076	-1	None	None
X	None	ENSG00000224765	ENST00000456631	antisense	KNOWN	None	None	None	None	136638350	136646084	-1	None	None
X	None	ENSG00000224765	ENST00000442841	antisense	KNOWN	None	None	None	None	136642828	136646546	-1	None	None
16	C16orf58	ENSG00000140688	ENST00000570164	protein_coding	PUTATIVE	None	25848	1401	466	31500792	31519712	-1	None	FLJ13868
16	C16orf58	ENSG00000140688	ENST00000327237	protein_coding	KNOWN	CCDS10715	25848	1407	468	31500810	31519734	-1	None	FLJ13868
16	C16orf58	ENSG00000140688	ENST00000568491	retained_intron	KNOWN	None	25848	None	None	31500815	31505059	-1	None	FLJ13868
16	C16orf58	ENSG00000140688	ENST00000567994	protein_coding	NOVEL	None	25848	1272	423	31501594	31519705	-1	None	FLJ13868
16	C16orf58	ENSG00000140688	ENST00000567673	retained_intron	KNOWN	None	25848	None	None	31504518	31508273	-1	None	FLJ13868
16	C16orf58	ENSG00000140688	ENST00000541442	retained_intron	KNOWN	None	25848	None	None	31504776	31519705	-1	None	FLJ13868
16	C16orf58	ENSG00000140688	ENST00000565128	nonsense_mediated_decay	KNOWN	None	25848	423	140	31505057	31519707	-1	None	FLJ13868
16	C16orf58	ENSG00000140688	ENST00000567578	nonsense_mediated_decay	KNOWN	None	25848	408	135	31505220	31519705	-1	None	FLJ13868
16	C16orf58	ENSG00000140688	ENST00000564807	protein_coding	PUTATIVE	None	25848	246	81	31508200	31520630	-1	None	FLJ13868
16	C16orf58	ENSG00000140688	ENST00000566148	retained_intron	KNOWN	None	25848	None	None	31510563	31519475	-1	None	FLJ13868
16	C16orf58	ENSG00000140688	ENST00000430477	protein_coding	KNOWN	None	25848	585	194	31504797	31519705	-1	None	FLJ13868
4	FGB	ENSG00000171564	ENST00000302068	protein_coding	KNOWN	CCDS3786	3662	1476	491	155484108	155492238	1	None	None
4	FGB	ENSG00000171564	ENST00000498375	retained_intron	KNOWN	None	3662	None	None	155484163	155487674	1	None	None
4	FGB	ENSG00000171564	ENST00000497097	retained_intron	KNOWN	None	3662	None	None	155484164	155487901	1	None	None
4	FGB	ENSG00000171564	ENST00000425838	nonsense_mediated_decay	KNOWN	None	3662	138	45	155484169	155488767	1	None	None
4	FGB	ENSG00000171564	ENST00000509493	protein_coding	PUTATIVE	None	3662	819	272	155484178	155491873	1	None	None
4	FGB	ENSG00000171564	ENST00000502545	processed_transcript	KNOWN	None	3662	None	None	155484190	155491951	1	None	None
4	FGB	ENSG00000171564	ENST00000473984	retained_intron	KNOWN	None	3662	None	None	155486933	155489006	1	None	None
6	DEFB110	ENSG00000203970	ENST00000393660	protein_coding	KNOWN	CCDS43473	18091	189	62	49976851	49989648	-1	None	DEFB-10, DEFB-11, DEFB111
6	DEFB110	ENSG00000203970	ENST00000371148	protein_coding	KNOWN	CCDS34475	18091	204	67	49986556	49989694	-1	None	DEFB-10, DEFB-11, DEFB111
17	DHX33	ENSG00000005100	ENST00000225296	protein_coding	KNOWN	CCDS11072	16718	2124	707	5344232	5372380	-1	DDX33	FLJ21972, DKFZp762F2011
17	DHX33	ENSG00000005100	ENST00000575153	retained_intron	KNOWN	None	16718	None	None	5346809	5364683	-1	DDX33	FLJ21972, DKFZp762F2011
17	DHX33	ENSG00000005100	ENST00000433302	protein_coding	NOVEL	None	16718	1452	483	5346809	5372236	-1	DDX33	FLJ21972, DKFZp762F2011
17	DHX33	ENSG00000005100	ENST00000572490	protein_coding	NOVEL	None	16718	1852	616	5346813	5372068	-1	DDX33	FLJ21972, DKFZp762F2011
17	DHX33	ENSG00000005100	ENST00000574023	nonsense_mediated_decay	KNOWN	None	16718	282	93	5347418	5372149	-1	DDX33	FLJ21972, DKFZp762F2011
5	None	ENSG00000223053	ENST00000411121	miRNA	NOVEL	None	None	None	None	97974801	97974935	-1	None	None
14	SNORA79	ENSG00000221303	ENST00000408376	snoRNA	KNOWN	None	32665	None	None	81669039	81669178	-1	None	ACA65
18	None	ENSG00000267116	ENST00000586747	processed_pseudogene	KNOWN	None	None	None	None	12192202	12192933	-1	None	None
13	ARF4P4	ENSG00000231222	ENST00000439608	processed_pseudogene	KNOWN	None	37628	None	None	81462483	81463002	1	None	None
HSCHR1_1_CTG31	SLC27A3	ENSG00000263163	ENST00000575439	protein_coding	NOVEL	None	10997	2436	811	153764061	153769864	1	None	FATP3, MGC4365, ACSVL3
HSCHR1_1_CTG31	SLC27A3	ENSG00000263163	ENST00000574889	processed_transcript	KNOWN	None	10997	None	None	153765020	153769863	1	None	FATP3, MGC4365, ACSVL3
HSCHR1_1_CTG31	SLC27A3	ENSG00000263163	ENST00000575951	retained_intron	KNOWN	None	10997	None	None	153765026	153769863	1	None	FATP3, MGC4365, ACSVL3
HSCHR1_1_CTG31	SLC27A3	ENSG00000263163	ENST00000573307	retained_intron	KNOWN	None	10997	None	None	153765457	153769831	1	None	FATP3, MGC4365, ACSVL3
HSCHR1_1_CTG31	SLC27A3	ENSG00000263163	ENST00000570870	protein_coding	NOVEL	None	10997	1202	399	153766303	153769864	1	None	FATP3, MGC4365, ACSVL3
HSCHR1_1_CTG31	SLC27A3	ENSG00000263163	ENST00000576845	retained_intron	KNOWN	None	10997	None	None	153766307	153767792	1	None	FATP3, MGC4365, ACSVL3
HSCHR1_1_CTG31	SLC27A3	ENSG00000263163	ENST00000574182	retained_intron	KNOWN	None	10997	None	None	153767694	153768503	1	None	FATP3, MGC4365, ACSVL3
HSCHR1_1_CTG31	SLC27A3	ENSG00000263163	ENST00000573411	protein_coding	NOVEL	None	10997	433	143	153767904	153769094	1	None	FATP3, MGC4365, ACSVL3
HSCHR1_1_CTG31	SLC27A3	ENSG00000263163	ENST00000575532	protein_coding	NOVEL	None	10997	457	151	153768219	153769590	1	None	FATP3, MGC4365, ACSVL3
HSCHR1_1_CTG31	SLC27A3	ENSG00000263163	ENST00000576109	retained_intron	KNOWN	None	10997	None	None	153768347	153769341	1	None	FATP3, MGC4365, ACSVL3
HSCHR1_1_CTG31	SLC27A3	ENSG00000263163	ENST00000573508	retained_intron	KNOWN	None	10997	None	None	153768758	153769858	1	None	FATP3, MGC4365, ACSVL3
HSCHR1_1_CTG31	SLC27A3	ENSG00000263163	ENST00000574381	retained_intron	KNOWN	None	10997	None	None	153768908	153769831	1	None	FATP3, MGC4365, ACSVL3
5	None	ENSG00000269071	ENST00000593907	protein_coding	NOVEL	None	None	399	132	138852108	138852506	1	None	None
14	IGHV3-35	ENSG00000211957	ENST00000390617	IG_V_gene	KNOWN	None	5598	351	116	106845323	106845789	-1	None	None
14	None	ENSG00000233924	ENST00000415189	processed_pseudogene	KNOWN	None	None	None	None	55471531	55472405	-1	None	None
14	LINC00238	ENSG00000196553	ENST00000389594	lincRNA	KNOWN	None	20100	None	None	66953072	66965270	1	C14orf53, NCRNA00238	None
14	LINC00238	ENSG00000196553	ENST00000359454	lincRNA	KNOWN	None	20100	None	None	66953089	66965271	1	C14orf53, NCRNA00238	None
14	LINC00238	ENSG00000196553	ENST00000411796	lincRNA	KNOWN	None	20100	None	None	66953109	66965270	1	C14orf53, NCRNA00238	None
14	LINC00238	ENSG00000196553	ENST00000450299	lincRNA	KNOWN	None	20100	None	None	66953125	66965118	1	C14orf53, NCRNA00238	None
14	LINC00238	ENSG00000196553	ENST00000432289	lincRNA	KNOWN	None	20100	None	None	66953385	66965271	1	C14orf53, NCRNA00238	None
14	LINC00238	ENSG00000196553	ENST00000436570	retained_intron	KNOWN	None	20100	None	None	66963401	66965271	1	C14orf53, NCRNA00238	None
14	DYNLL1P1	ENSG00000205579	ENST00000595442	processed_pseudogene	KNOWN	None	20723	None	None	81712639	81712907	-1	DNCL1P1	None
14	DYNLL1P1	ENSG00000205579	ENST00000380761	processed_pseudogene	KNOWN	None	20723	None	None	81712638	81712907	-1	DNCL1P1	None
18	None	ENSG00000267655	ENST00000586389	sense_intronic	KNOWN	None	None	None	None	76877207	76877920	1	None	None
16	MIR193B	ENSG00000207639	ENST00000384907	miRNA	KNOWN	None	32087	None	None	14397824	14397906	1	MIRN193B	hsa-mir-193b
X	None	ENSG00000211526	ENST00000390192	miRNA	NOVEL	None	None	None	None	91715451	91715544	1	None	None
14	None	ENSG00000258050	ENST00000555643	lincRNA	KNOWN	None	None	None	None	55663445	55665731	-1	None	None
12	CREBL2	ENSG00000111269	ENST00000540224	processed_transcript	KNOWN	None	2350	None	None	12764761	12790508	1	None	None
12	CREBL2	ENSG00000111269	ENST00000228865	protein_coding	KNOWN	CCDS8651	2350	363	120	12764826	12798042	1	None	None
6	HLA-DPB1	ENSG00000223865	ENST00000418931	protein_coding	KNOWN	CCDS4765	4940	777	258	33043703	33054978	1	HLA-DP1B	None
6	HLA-DPB1	ENSG00000223865	ENST00000469120	retained_intron	KNOWN	None	4940	None	None	33043787	33049009	1	HLA-DP1B	None
6	HLA-DPB1	ENSG00000223865	ENST00000471184	processed_transcript	KNOWN	None	4940	None	None	33048163	33051789	1	HLA-DP1B	None
6	HLA-DPB1	ENSG00000223865	ENST00000488575	processed_transcript	KNOWN	None	4940	None	None	33048163	33052734	1	HLA-DP1B	None
6	HLA-DPB1	ENSG00000223865	ENST00000498038	processed_transcript	KNOWN	None	4940	None	None	33048220	33053008	1	HLA-DP1B	None
6	HLA-DPB1	ENSG00000223865	ENST00000428835	protein_coding	KNOWN	None	4940	688	228	33048264	33053666	1	HLA-DP1B	None
6	HLA-DPB1	ENSG00000223865	ENST00000416804	protein_coding	KNOWN	None	4940	707	234	33048449	33054978	1	HLA-DP1B	None
6	HLA-DPB1	ENSG00000223865	ENST00000478189	processed_transcript	KNOWN	None	4940	None	None	33048718	33051667	1	HLA-DP1B	None
6	HLA-DPB1	ENSG00000223865	ENST00000535465	protein_coding	KNOWN	None	4940	372	123	33043743	33049922	1	HLA-DP1B	None
16	MIR365A	ENSG00000199130	ENST00000362260	miRNA	KNOWN	None	33692	None	None	14403142	14403228	1	MIRN365-1, MIR365-1	hsa-mir-365-1
21	None	ENSG00000230479	ENST00000429588	antisense	KNOWN	None	None	None	None	37802658	37853368	1	None	None
X	SNX3P1X	ENSG00000230543	ENST00000414887	processed_pseudogene	KNOWN	None	41516	None	None	91770322	91770496	-1	None	None
3	FGD5	ENSG00000154783	ENST00000285046	protein_coding	KNOWN	CCDS46767	19117	4389	1462	14860469	14975895	1	None	ZFYVE23, FLJ39957, FLJ00274
3	FGD5	ENSG00000154783	ENST00000457774	protein_coding	PUTATIVE	None	19117	755	250	14862939	14941960	1	None	ZFYVE23, FLJ39957, FLJ00274
3	FGD5	ENSG00000154783	ENST00000468662	processed_transcript	KNOWN	None	19117	None	None	14923812	14974945	1	None	ZFYVE23, FLJ39957, FLJ00274
3	FGD5	ENSG00000154783	ENST00000476851	processed_transcript	KNOWN	None	19117	None	None	14938469	14974946	1	None	ZFYVE23, FLJ39957, FLJ00274
3	FGD5	ENSG00000154783	ENST00000487605	retained_intron	KNOWN	None	19117	None	None	14972270	14974945	1	None	ZFYVE23, FLJ39957, FLJ00274
3	FGD5	ENSG00000154783	ENST00000543601	protein_coding	KNOWN	None	19117	3537	1178	14860831	14975774	1	None	ZFYVE23, FLJ39957, FLJ00274
15	MIR211	ENSG00000207702	ENST00000384969	miRNA	KNOWN	None	31588	None	None	31357235	31357344	-1	MIRN211	hsa-mir-211
18	None	ENSG00000267628	ENST00000591742	antisense	KNOWN	None	None	None	None	77013577	77014856	-1	None	None
HSCHR6_MHC_MCF	COL11A2	ENSG00000235708	ENST00000447349	protein_coding	KNOWN	None	2187	4953	1650	33300827	33330643	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_MCF	COL11A2	ENSG00000235708	ENST00000496392	processed_transcript	KNOWN	None	2187	None	None	33300841	33316038	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_MCF	COL11A2	ENSG00000235708	ENST00000452730	protein_coding	NOVEL	None	2187	1872	623	33316277	33330611	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_MCF	COL11A2	ENSG00000235708	ENST00000447741	protein_coding	KNOWN	None	2187	873	290	33324589	33330598	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_MCF	COL11A2	ENSG00000235708	ENST00000549885	protein_coding	KNOWN	None	2187	5211	1736	33300838	33330612	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_MCF	COL11A2	ENSG00000235708	ENST00000552765	protein_coding	KNOWN	None	2187	5148	1715	33300838	33330612	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_MCF	COL11A2	ENSG00000235708	ENST00000549088	protein_coding	KNOWN	None	2187	5133	1710	33300838	33330612	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_MCF	COL11A2	ENSG00000235708	ENST00000550955	protein_coding	KNOWN	None	2187	5070	1689	33300838	33330612	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_MCF	COL11A2	ENSG00000235708	ENST00000547846	protein_coding	KNOWN	None	2187	5031	1676	33300838	33330612	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_MCF	COL11A2	ENSG00000235708	ENST00000553210	protein_coding	KNOWN	None	2187	4968	1655	33300838	33330612	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_MCF	COL11A2	ENSG00000235708	ENST00000552473	protein_coding	KNOWN	None	2187	4890	1629	33300838	33330612	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_MCF	COL11A2	ENSG00000235708	ENST00000551637	protein_coding	KNOWN	None	2187	921	306	33300838	33315958	-1	DFNA13, DFNB53	HKE5
X	None	ENSG00000225912	ENST00000443413	processed_pseudogene	KNOWN	None	None	None	None	91931518	91931953	-1	None	None
8	TRIM60P15	ENSG00000250857	ENST00000509929	processed_pseudogene	KNOWN	None	38487	None	None	47703687	47704686	1	None	None
16	None	ENSG00000260009	ENST00000566054	lincRNA	KNOWN	None	None	None	None	14456966	14464123	-1	None	None
13	None	ENSG00000229246	ENST00000456588	lincRNA	KNOWN	None	None	None	None	81617805	81618577	1	None	None
21	None	ENSG00000233818	ENST00000428667	antisense	KNOWN	None	None	None	None	37818029	37904706	1	None	None
21	None	ENSG00000233818	ENST00000454980	antisense	KNOWN	None	None	None	None	37818120	37833050	1	None	None
14	None	ENSG00000271180	ENST00000605294	processed_pseudogene	KNOWN	None	None	None	None	55707340	55707798	-1	None	None
18	None	ENSG00000267015	ENST00000592906	antisense	KNOWN	None	None	None	None	77100258	77103972	-1	None	None
HSCHR6_MHC_COX	RPS17P1	ENSG00000232302	ENST00000445762	processed_pseudogene	KNOWN	None	13982	None	None	29453625	29454030	-1	None	RPS17p, dJ994E9.1
HSCHR6_MHC_COX	RPS17P1	ENSG00000232302	ENST00000550320	pseudogene	KNOWN	None	13982	None	None	29453625	29453988	-1	None	RPS17p, dJ994E9.1
16	None	ENSG00000263257	ENST00000572479	lincRNA	KNOWN	None	None	None	None	14501896	14512729	-1	None	None
13	None	ENSG00000270415	ENST00000603842	processed_pseudogene	KNOWN	None	None	None	None	81689001	81689430	-1	None	None
X	RN7SL325P	ENSG00000239579	ENST00000460434	misc_RNA	KNOWN	None	46341	None	None	136677424	136677710	1	None	None
18	None	ENSG00000267287	ENST00000586798	retained_intron	KNOWN	None	None	None	None	77336460	77339808	1	None	None
18	None	ENSG00000267287	ENST00000589723	lincRNA	KNOWN	None	None	None	None	77338063	77349010	1	None	None
13	ANKRD20A19P	ENSG00000196593	ENST00000442969	processed_transcript	KNOWN	None	42737	None	None	24513696	24520921	-1	None	None
13	ANKRD20A19P	ENSG00000196593	ENST00000420143	processed_transcript	KNOWN	None	42737	None	None	24515108	24520363	-1	None	None
13	ANKRD20A19P	ENSG00000196593	ENST00000602724	transcribed_unprocessed_pseudogene	KNOWN	None	42737	None	None	24515429	24515879	-1	None	None
14	IGHV3-38	ENSG00000211958	ENST00000390618	IG_V_gene	KNOWN	None	5601	348	115	106866406	106866934	-1	None	None
16	None	ENSG00000198388	ENST00000358014	pseudogene	NOVEL	None	None	None	None	14548061	14548155	-1	None	None
15	None	ENSG00000259448	ENST00000559292	lincRNA	KNOWN	None	None	None	None	31508223	31512923	1	None	None
15	None	ENSG00000259448	ENST00000557928	lincRNA	KNOWN	None	None	None	None	31508224	31516648	1	None	None
13	None	ENSG00000238980	ENST00000401112	miRNA	NOVEL	None	None	None	None	81778398	81778491	-1	None	None
7	TRGV9	ENSG00000211695	ENST00000444775	TR_V_gene	KNOWN	None	12295	366	121	38356618	38358462	-1	TCRGV9	V2
16	RN7SL274P	ENSG00000242430	ENST00000492268	misc_RNA	KNOWN	None	46290	None	None	14695684	14695951	-1	None	None
13	LINC00564	ENSG00000260094	ENST00000567258	lincRNA	KNOWN	None	43708	None	None	81800000	81801118	-1	None	None
HG7_PATCH	TRBV5-5	ENSG00000260732	ENST00000567655	TR_V_gene	KNOWN	None	12222	343	113	142204064	142204535	1	None	TRBV55, TCRBV5S3A2T, TCRBV5S5
21	PSMD4P1	ENSG00000223741	ENST00000433951	processed_pseudogene	KNOWN	None	9562	None	None	37858281	37859709	-1	PSMD4P, PSMD15	None
5	FBXO4	ENSG00000151876	ENST00000513496	nonsense_mediated_decay	KNOWN	None	13583	195	64	41925356	41934411	1	None	FBX4
5	FBXO4	ENSG00000151876	ENST00000296812	protein_coding	KNOWN	CCDS3939	13583	924	307	41925356	41935187	1	None	FBX4
5	FBXO4	ENSG00000151876	ENST00000281623	protein_coding	KNOWN	CCDS3938	13583	1164	387	41925356	41941845	1	None	FBX4
5	FBXO4	ENSG00000151876	ENST00000504463	nonsense_mediated_decay	KNOWN	None	13583	465	154	41925401	41930019	1	None	FBX4
5	FBXO4	ENSG00000151876	ENST00000509134	protein_coding	NOVEL	None	13583	918	305	41925403	41941670	1	None	FBX4
5	FBXO4	ENSG00000151876	ENST00000506496	retained_intron	KNOWN	None	13583	None	None	41925423	41930257	1	None	FBX4
5	FBXO4	ENSG00000151876	ENST00000505566	retained_intron	KNOWN	None	13583	None	None	41939400	41941672	1	None	FBX4
X	ZFYVE9P1	ENSG00000229562	ENST00000416133	processed_pseudogene	KNOWN	None	33359	None	None	136742678	136744401	1	None	None
14	IGHV4-39	ENSG00000211959	ENST00000390619	IG_V_gene	KNOWN	None	5651	375	124	106877619	106878126	-1	None	None
13	None	ENSG00000229309	ENST00000458480	lincRNA	KNOWN	None	None	None	None	81824573	81876542	1	None	None
18	None	ENSG00000267409	ENST00000587527	lincRNA	KNOWN	None	None	None	None	77370747	77372303	1	None	None
5	C5orf60	ENSG00000204661	ENST00000514664	retained_intron	KNOWN	None	27753	None	None	179068545	179072008	-1	None	None
5	C5orf60	ENSG00000204661	ENST00000448248	protein_coding	KNOWN	CCDS47353	27753	834	277	179068545	179072047	-1	None	None
5	C5orf60	ENSG00000204661	ENST00000511063	retained_intron	KNOWN	None	27753	None	None	179068547	179072008	-1	None	None
5	C5orf60	ENSG00000204661	ENST00000512899	nonsense_mediated_decay	KNOWN	None	27753	714	237	179068791	179072047	-1	None	None
5	C5orf60	ENSG00000204661	ENST00000506142	processed_transcript	KNOWN	None	27753	None	None	179069896	179072008	-1	None	None
5	C5orf60	ENSG00000204661	ENST00000513845	nonsense_mediated_decay	KNOWN	None	27753	245	80	179069936	179072008	-1	None	None
5	C5orf60	ENSG00000204661	ENST00000513142	retained_intron	KNOWN	None	27753	None	None	179070726	179072008	-1	None	None
5	C5orf60	ENSG00000204661	ENST00000503358	retained_intron	KNOWN	None	27753	None	None	179071332	179072008	-1	None	None
5	PCDHGA7	ENSG00000253537	ENST00000518325	protein_coding	KNOWN	CCDS54927	8705	2799	932	140762467	140892546	1	None	PCDH-GAMMA-A7
6	MRPS10	ENSG00000048544	ENST00000053468	protein_coding	KNOWN	CCDS4866	14502	606	201	42174539	42185603	-1	None	FLJ10567
22	LGALS2	ENSG00000100079	ENST00000215886	protein_coding	KNOWN	CCDS13950	6562	399	132	37966255	37976087	-1	None	HL14
22	LGALS2	ENSG00000100079	ENST00000416480	protein_coding	KNOWN	None	6562	89	28	37967856	37978623	-1	None	HL14
13	RNU6-77P	ENSG00000222486	ENST00000410554	snRNA	KNOWN	None	42567	None	None	81839882	81839972	1	RNU6-77	None
18	None	ENSG00000178412	ENST00000317008	lincRNA	KNOWN	None	None	None	None	77398928	77439745	-1	None	None
21	None	ENSG00000231324	ENST00000457669	lincRNA	KNOWN	None	None	None	None	38004979	38009331	-1	None	None
X	None	ENSG00000237873	ENST00000441503	processed_pseudogene	KNOWN	None	None	None	None	92297489	92297941	1	None	None
13	HIGD1AP2	ENSG00000237148	ENST00000446367	processed_pseudogene	KNOWN	None	42642	None	None	81847026	81847305	1	None	None
19	None	ENSG00000267120	ENST00000589807	nonsense_mediated_decay	KNOWN	None	None	294	97	36230153	36236333	-1	None	None
19	None	ENSG00000267120	ENST00000591057	nonsense_mediated_decay	KNOWN	None	None	156	51	36233365	36236319	-1	None	None
10	TET1	ENSG00000138336	ENST00000373644	protein_coding	KNOWN	CCDS7281	29484	6411	2136	70320413	70454239	1	CXXC6	LCX, KIAA1676, bA119F7.1
HG79_PATCH	ABO	ENSG00000256062	ENST00000319878	protein_coding	KNOWN	None	79	1065	354	136125799	136150736	-1	None	A3GALNT, A3GALT1
21	None	ENSG00000224269	ENST00000430607	antisense	KNOWN	None	None	None	None	38071073	38073864	-1	None	None
13	PTMAP5	ENSG00000214182	ENST00000607242	processed_transcript	KNOWN	None	9628	None	None	82264046	82265207	1	None	None
13	PTMAP5	ENSG00000214182	ENST00000393073	transcribed_processed_pseudogene	KNOWN	None	9628	None	None	82264203	82264535	1	None	None
9	C9orf135	ENSG00000204711	ENST00000377197	protein_coding	KNOWN	CCDS35041	31422	690	229	72435709	72521148	1	None	None
9	C9orf135	ENSG00000204711	ENST00000527647	protein_coding	PUTATIVE	None	31422	480	159	72435743	72521115	1	None	None
9	C9orf135	ENSG00000204711	ENST00000529446	nonsense_mediated_decay	KNOWN	None	31422	153	50	72435743	72521115	1	None	None
9	C9orf135	ENSG00000204711	ENST00000529131	nonsense_mediated_decay	KNOWN	None	31422	153	50	72435744	72521110	1	None	None
9	C9orf135	ENSG00000204711	ENST00000466872	processed_transcript	KNOWN	None	31422	None	None	72435744	72521143	1	None	None
9	C9orf135	ENSG00000204711	ENST00000495399	nonsense_mediated_decay	KNOWN	None	31422	113	36	72435836	72473095	1	None	None
9	C9orf135	ENSG00000204711	ENST00000480564	protein_coding	PUTATIVE	None	31422	448	148	72435876	72473074	1	None	None
13	None	ENSG00000228741	ENST00000439928	lincRNA	KNOWN	None	None	None	None	24553949	24609166	1	None	None
X	DCAF8L2	ENSG00000189186	ENST00000578111	processed_transcript	KNOWN	None	31811	None	None	27608499	27730753	1	WDR42C	None
X	DCAF8L2	ENSG00000189186	ENST00000583068	processed_transcript	KNOWN	None	31811	None	None	27608499	27765000	1	WDR42C	None
X	DCAF8L2	ENSG00000189186	ENST00000451261	protein_coding	KNOWN	CCDS59162	31811	1896	631	27608500	27766908	1	WDR42C	None
X	DCAF8L2	ENSG00000189186	ENST00000431122	protein_coding	KNOWN	None	31811	88	28	27608517	27765100	1	WDR42C	None
X	DCAF8L2	ENSG00000189186	ENST00000580017	processed_transcript	KNOWN	None	31811	None	None	27608530	27651912	1	WDR42C	None
18	None	ENSG00000266901	ENST00000587315	antisense	KNOWN	None	None	None	None	77462721	77463651	-1	None	None
9	None	ENSG00000238010	ENST00000457964	sense_intronic	KNOWN	None	None	None	None	129403035	129403572	1	None	None
18	None	ENSG00000266924	ENST00000587174	lincRNA	KNOWN	None	None	None	None	77547121	77551432	1	None	None
4	DRD5	ENSG00000169676	ENST00000304374	protein_coding	KNOWN	CCDS3405	3026	1434	477	9783258	9785632	1	DRD1L2	DRD1B
9	None	ENSG00000269909	ENST00000602859	lincRNA	KNOWN	None	None	None	None	129462577	129463312	1	None	None
5	TMEM173	ENSG00000184584	ENST00000507297	retained_intron	KNOWN	None	27962	None	None	138855119	138862283	-1	None	FLJ38577, NET23
5	TMEM173	ENSG00000184584	ENST00000330794	protein_coding	KNOWN	CCDS4215	27962	1140	379	138855549	138862375	-1	None	FLJ38577, NET23
5	TMEM173	ENSG00000184584	ENST00000509573	retained_intron	KNOWN	None	27962	None	None	138855611	138860953	-1	None	FLJ38577, NET23
5	TMEM173	ENSG00000184584	ENST00000512606	processed_transcript	KNOWN	None	27962	None	None	138855886	138861214	-1	None	FLJ38577, NET23
5	TMEM173	ENSG00000184584	ENST00000503287	retained_intron	KNOWN	None	27962	None	None	138855930	138861046	-1	None	FLJ38577, NET23
5	TMEM173	ENSG00000184584	ENST00000511886	processed_transcript	KNOWN	None	27962	None	None	138857040	138862274	-1	None	FLJ38577, NET23
5	TMEM173	ENSG00000184584	ENST00000502825	retained_intron	KNOWN	None	27962	None	None	138857068	138860672	-1	None	FLJ38577, NET23
5	TMEM173	ENSG00000184584	ENST00000510817	protein_coding	KNOWN	None	27962	759	252	138857855	138861936	-1	None	FLJ38577, NET23
5	TMEM173	ENSG00000184584	ENST00000514119	retained_intron	KNOWN	None	27962	None	None	138857937	138862343	-1	None	FLJ38577, NET23
5	TMEM173	ENSG00000184584	ENST00000515507	processed_transcript	KNOWN	None	27962	None	None	138857953	138861895	-1	None	FLJ38577, NET23
5	TMEM173	ENSG00000184584	ENST00000511850	processed_transcript	KNOWN	None	27962	None	None	138858047	138861881	-1	None	FLJ38577, NET23
5	TMEM173	ENSG00000184584	ENST00000503838	retained_intron	KNOWN	None	27962	None	None	138858755	138860934	-1	None	FLJ38577, NET23
5	TMEM173	ENSG00000184584	ENST00000502362	retained_intron	KNOWN	None	27962	None	None	138860831	138861895	-1	None	FLJ38577, NET23
5	TMEM173	ENSG00000184584	ENST00000514348	retained_intron	KNOWN	None	27962	None	None	138861004	138862520	-1	None	FLJ38577, NET23
5	TMEM173	ENSG00000184584	ENST00000514542	processed_transcript	KNOWN	None	27962	None	None	138861431	138862305	-1	None	FLJ38577, NET23
18	None	ENSG00000267780	ENST00000592499	lincRNA	KNOWN	None	None	None	None	77552726	77576365	1	None	None
13	IPO7P2	ENSG00000225674	ENST00000451446	processed_pseudogene	KNOWN	None	39838	None	None	24696204	24697953	-1	None	None
9	UNC13B	ENSG00000198722	ENST00000396787	protein_coding	NOVEL	None	12566	4869	1622	35161999	35404172	1	UNC13	hmunc13, Unc13h2
9	UNC13B	ENSG00000198722	ENST00000378495	protein_coding	KNOWN	CCDS6579	12566	4776	1591	35162059	35405335	1	UNC13	hmunc13, Unc13h2
9	UNC13B	ENSG00000198722	ENST00000485086	processed_transcript	KNOWN	None	12566	None	None	35227795	35243347	1	UNC13	hmunc13, Unc13h2
9	UNC13B	ENSG00000198722	ENST00000481299	processed_transcript	KNOWN	None	12566	None	None	35396535	35399166	1	UNC13	hmunc13, Unc13h2
9	UNC13B	ENSG00000198722	ENST00000378496	protein_coding	KNOWN	None	12566	4833	1610	35162101	35404051	1	UNC13	hmunc13, Unc13h2
HSCHR6_MHC_APD	MDC1	ENSG00000234012	ENST00000427406	protein_coding	KNOWN	None	21163	6270	2089	30675831	30693912	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_APD	MDC1	ENSG00000234012	ENST00000470134	retained_intron	KNOWN	None	21163	None	None	30676339	30680105	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_APD	MDC1	ENSG00000234012	ENST00000444412	protein_coding	KNOWN	None	21163	916	304	30681472	30687937	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_APD	MDC1	ENSG00000234012	ENST00000469905	retained_intron	KNOWN	None	21163	None	None	30681606	30683708	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_APD	MDC1	ENSG00000234012	ENST00000481026	processed_transcript	KNOWN	None	21163	None	None	30687495	30687954	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_APD	MDC1	ENSG00000234012	ENST00000424507	protein_coding	KNOWN	None	21163	487	161	30689856	30693198	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_APD	MDC1	ENSG00000234012	ENST00000438165	protein_coding	KNOWN	None	21163	380	125	30689963	30693470	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_APD	MDC1	ENSG00000234012	ENST00000456589	protein_coding	KNOWN	None	21163	340	112	30690003	30693144	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_APD	MDC1	ENSG00000234012	ENST00000547874	protein_coding	KNOWN	None	21163	5478	1825	30675832	30693704	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_APD	MDC1	ENSG00000234012	ENST00000551460	protein_coding	KNOWN	None	21163	5409	1802	30675832	30693704	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_APD	MDC1	ENSG00000234012	ENST00000547700	protein_coding	KNOWN	None	21163	735	244	30676419	30693704	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_APD	MDC1	ENSG00000234012	ENST00000552522	protein_coding	KNOWN	None	21163	732	243	30689231	30693704	-1	None	NFBD1, KIAA0170, Em:AB023051.5
4	DKK2	ENSG00000155011	ENST00000285311	protein_coding	NOVEL	CCDS3675	2892	780	259	107842959	107957454	-1	None	None
4	DKK2	ENSG00000155011	ENST00000513208	protein_coding	NOVEL	None	2892	480	159	107844900	108204846	-1	None	None
4	DKK2	ENSG00000155011	ENST00000510534	retained_intron	KNOWN	None	2892	None	None	107844978	107956969	-1	None	None
4	DKK2	ENSG00000155011	ENST00000510463	protein_coding	NOVEL	None	2892	642	213	107845102	108204963	-1	None	None
17	ZZEF1	ENSG00000074755	ENST00000381638	protein_coding	KNOWN	CCDS11043	29027	8886	2961	3907739	4046314	-1	None	KIAA0399, ZZZ4, FLJ10821
17	ZZEF1	ENSG00000074755	ENST00000573536	retained_intron	KNOWN	None	29027	None	None	3911554	3920874	-1	None	KIAA0399, ZZZ4, FLJ10821
17	ZZEF1	ENSG00000074755	ENST00000572831	nonsense_mediated_decay	KNOWN	None	29027	200	65	3917672	3920798	-1	None	KIAA0399, ZZZ4, FLJ10821
17	ZZEF1	ENSG00000074755	ENST00000575428	retained_intron	KNOWN	None	29027	None	None	3920942	3923306	-1	None	KIAA0399, ZZZ4, FLJ10821
17	ZZEF1	ENSG00000074755	ENST00000571436	nonsense_mediated_decay	KNOWN	None	29027	658	218	3925710	3967828	-1	None	KIAA0399, ZZZ4, FLJ10821
17	ZZEF1	ENSG00000074755	ENST00000573183	protein_coding	PUTATIVE	None	29027	2438	811	3925711	3966092	-1	None	KIAA0399, ZZZ4, FLJ10821
17	ZZEF1	ENSG00000074755	ENST00000573606	retained_intron	KNOWN	None	29027	None	None	3928213	3936653	-1	None	KIAA0399, ZZZ4, FLJ10821
17	ZZEF1	ENSG00000074755	ENST00000572426	retained_intron	KNOWN	None	29027	None	None	3936825	3974210	-1	None	KIAA0399, ZZZ4, FLJ10821
17	ZZEF1	ENSG00000074755	ENST00000570365	retained_intron	KNOWN	None	29027	None	None	3968093	3976121	-1	None	KIAA0399, ZZZ4, FLJ10821
17	ZZEF1	ENSG00000074755	ENST00000572699	nonsense_mediated_decay	KNOWN	None	29027	447	148	3974073	3978474	-1	None	KIAA0399, ZZZ4, FLJ10821
17	ZZEF1	ENSG00000074755	ENST00000574474	processed_transcript	KNOWN	None	29027	None	None	3979246	4046314	-1	None	KIAA0399, ZZZ4, FLJ10821
13	MIR2276	ENSG00000252695	ENST00000516886	miRNA	KNOWN	None	37313	None	None	24736555	24736643	1	None	hsa-mir-2276
5	None	ENSG00000250715	ENST00000508480	processed_pseudogene	KNOWN	None	None	None	None	17670277	17670680	-1	None	None
7	ISPD	ENSG00000214960	ENST00000407010	protein_coding	KNOWN	None	37276	1356	451	16130817	16460947	-1	None	hCG_1745121, IspD, Nip
7	ISPD	ENSG00000214960	ENST00000399310	protein_coding	NOVEL	None	37276	1206	401	16130817	16460947	-1	None	hCG_1745121, IspD, Nip
7	ISPD	ENSG00000214960	ENST00000479493	processed_transcript	KNOWN	None	37276	None	None	16316202	16341091	-1	None	hCG_1745121, IspD, Nip
13	SPATA13-AS1	ENSG00000227213	ENST00000430733	antisense	KNOWN	None	39905	None	None	24826887	24828577	-1	None	None
7	TRGV8	ENSG00000211696	ENST00000390343	TR_V_gene	KNOWN	None	12294	354	117	38369944	38370536	-1	TCRGV8	V1S8
7	SEMA3E	ENSG00000170381	ENST00000307792	protein_coding	KNOWN	CCDS34674	10727	2328	775	82993222	83278326	-1	SEMAH	M-SemaK, KIAA0331, coll-5
7	SEMA3E	ENSG00000170381	ENST00000427262	protein_coding	PUTATIVE	CCDS55121	10727	2148	715	82996801	83270747	-1	SEMAH	M-SemaK, KIAA0331, coll-5
7	SEMA3E	ENSG00000170381	ENST00000442159	protein_coding	PUTATIVE	None	10727	490	162	83037684	83241964	-1	SEMAH	M-SemaK, KIAA0331, coll-5
7	SEMA3E	ENSG00000170381	ENST00000453333	nonsense_mediated_decay	KNOWN	None	10727	120	39	83119504	83278126	-1	SEMAH	M-SemaK, KIAA0331, coll-5
18	None	ENSG00000267643	ENST00000592203	lincRNA	KNOWN	None	None	None	None	12200778	12201978	1	None	None
HSCHR6_MHC_QBL	ZBTB22	ENSG00000206280	ENST00000383196	protein_coding	KNOWN	None	13085	1905	634	33211044	33214362	-1	ZNF297	BING1, ZNF297A, fruitless, fru, ZBTB22A
HSCHR6_MHC_QBL	ZBTB22	ENSG00000206280	ENST00000426244	protein_coding	KNOWN	None	13085	448	148	33213095	33214568	-1	ZNF297	BING1, ZNF297A, fruitless, fru, ZBTB22A
HSCHR6_MHC_QBL	ZBTB22	ENSG00000206280	ENST00000552144	protein_coding	KNOWN	None	13085	1905	634	33211032	33214569	-1	ZNF297	BING1, ZNF297A, fruitless, fru, ZBTB22A
13	C1QTNF9-AS1	ENSG00000240868	ENST00000449656	antisense	KNOWN	None	39906	None	None	24889863	24895736	-1	None	None
16	ABCA3	ENSG00000167972	ENST00000301732	protein_coding	KNOWN	CCDS10466	33	5115	1704	2325882	2390736	-1	ABC3	ABC-C, EST111653, LBM180
16	ABCA3	ENSG00000167972	ENST00000382381	protein_coding	NOVEL	None	33	4941	1646	2325882	2390747	-1	ABC3	ABC-C, EST111653, LBM180
16	ABCA3	ENSG00000167972	ENST00000566200	retained_intron	KNOWN	None	33	None	None	2328296	2333742	-1	ABC3	ABC-C, EST111653, LBM180
16	ABCA3	ENSG00000167972	ENST00000569062	retained_intron	KNOWN	None	33	None	None	2331394	2333973	-1	ABC3	ABC-C, EST111653, LBM180
16	ABCA3	ENSG00000167972	ENST00000563623	retained_intron	KNOWN	None	33	None	None	2339049	2390598	-1	ABC3	ABC-C, EST111653, LBM180
16	ABCA3	ENSG00000167972	ENST00000567910	protein_coding	PUTATIVE	None	33	630	209	2373340	2379725	-1	ABC3	ABC-C, EST111653, LBM180
22	COMT	ENSG00000093010	ENST00000361682	protein_coding	KNOWN	CCDS13770	2228	816	271	19929130	19957498	1	None	None
22	COMT	ENSG00000093010	ENST00000403184	protein_coding	PUTATIVE	None	2228	708	235	19929256	19953168	1	None	None
22	COMT	ENSG00000093010	ENST00000403710	protein_coding	KNOWN	CCDS13770	2228	816	271	19929296	19956481	1	None	None
22	COMT	ENSG00000093010	ENST00000407537	protein_coding	KNOWN	CCDS46663	2228	666	221	19929311	19956521	1	None	None
22	COMT	ENSG00000093010	ENST00000467943	retained_intron	KNOWN	None	2228	None	None	19929316	19950399	1	None	None
22	COMT	ENSG00000093010	ENST00000412786	protein_coding	KNOWN	None	2228	669	222	19938465	19956112	1	None	None
22	COMT	ENSG00000093010	ENST00000207636	nonsense_mediated_decay	KNOWN	None	2228	600	199	19938502	19956539	1	None	None
22	COMT	ENSG00000093010	ENST00000406520	protein_coding	KNOWN	CCDS13770	2228	816	271	19939026	19956539	1	None	None
22	COMT	ENSG00000093010	ENST00000493893	processed_transcript	PUTATIVE	None	2228	None	None	19950868	19951823	1	None	None
22	COMT	ENSG00000093010	ENST00000428707	protein_coding	PUTATIVE	None	2228	457	151	19951222	19955217	1	None	None
22	COMT	ENSG00000093010	ENST00000449653	protein_coding	KNOWN	CCDS46663	2228	666	221	19950070	19957498	1	None	None
9	None	ENSG00000237137	ENST00000421119	processed_pseudogene	KNOWN	None	None	None	None	14531914	14532040	-1	None	None
7	TRGV5	ENSG00000211697	ENST00000390344	TR_V_gene	KNOWN	None	12290	354	117	38388956	38389623	-1	TCRGV5	V1S5
9	None	ENSG00000229029	ENST00000442667	processed_pseudogene	KNOWN	None	None	None	None	14593575	14594198	1	None	None
HG7_PATCH	TRBV6-7	ENSG00000260429	ENST00000569960	TR_V_gene	KNOWN	None	12232	344	113	142209379	142209811	1	None	TRBV67, TCRBV13S8P, TCRBV6S7
5	None	ENSG00000249937	ENST00000511596	lincRNA	KNOWN	None	None	None	None	17684693	17955966	1	None	None
5	None	ENSG00000249937	ENST00000514771	lincRNA	KNOWN	None	None	None	None	17850368	17929745	1	None	None
5	None	ENSG00000249937	ENST00000510648	lincRNA	KNOWN	None	None	None	None	17919337	17955946	1	None	None
13	NUS1P3	ENSG00000234627	ENST00000423502	processed_pseudogene	KNOWN	None	30934	None	None	24902349	24903210	1	None	YDD19
13	NUS1P3	ENSG00000234627	ENST00000540358	processed_pseudogene	KNOWN	None	30934	None	None	24902376	24903210	1	None	YDD19
8	None	ENSG00000243503	ENST00000495560	processed_pseudogene	KNOWN	None	None	None	None	36845495	36845930	-1	None	None
9	RNU6-1260P	ENSG00000199814	ENST00000362944	snRNA	KNOWN	None	48223	None	None	14850427	14850533	1	None	None
18	None	ENSG00000267733	ENST00000592801	processed_transcript	KNOWN	None	None	None	None	12201981	12212071	1	None	None
18	None	ENSG00000267733	ENST00000586642	processed_transcript	KNOWN	None	None	None	None	12208397	12212464	1	None	None
18	None	ENSG00000267733	ENST00000586882	processed_transcript	KNOWN	None	None	None	None	12209335	12223538	1	None	None
18	None	ENSG00000267733	ENST00000588436	transcribed_processed_pseudogene	KNOWN	None	None	None	None	12213406	12222997	1	None	None
18	None	ENSG00000267733	ENST00000588744	processed_transcript	KNOWN	None	None	None	None	12218651	12223250	1	None	None
9	LDHAP4	ENSG00000214110	ENST00000397561	processed_pseudogene	KNOWN	None	6539	None	None	14921335	14922332	-1	LDHAL4	None
13	LINC00566	ENSG00000261498	ENST00000561557	lincRNA	KNOWN	None	43710	None	None	24905588	24911259	1	None	None
11	PLEKHA7	ENSG00000166689	ENST00000531066	protein_coding	PUTATIVE	None	27049	3816	1271	16799842	17035990	-1	None	DKFZp686M22243
11	PLEKHA7	ENSG00000166689	ENST00000529049	processed_transcript	KNOWN	None	27049	None	None	16802570	16807913	-1	None	DKFZp686M22243
11	PLEKHA7	ENSG00000166689	ENST00000533901	processed_transcript	KNOWN	None	27049	None	None	16807840	16811404	-1	None	DKFZp686M22243
11	PLEKHA7	ENSG00000166689	ENST00000355661	protein_coding	KNOWN	CCDS31434	27049	3366	1121	16809031	17035959	-1	None	DKFZp686M22243
11	PLEKHA7	ENSG00000166689	ENST00000531776	retained_intron	KNOWN	None	27049	None	None	16809207	16812892	-1	None	DKFZp686M22243
11	PLEKHA7	ENSG00000166689	ENST00000332954	processed_transcript	KNOWN	None	27049	None	None	16809207	16813275	-1	None	DKFZp686M22243
11	PLEKHA7	ENSG00000166689	ENST00000530489	protein_coding	KNOWN	None	27049	2261	752	16809207	16847901	-1	None	DKFZp686M22243
11	PLEKHA7	ENSG00000166689	ENST00000525781	retained_intron	KNOWN	None	27049	None	None	16810362	16838962	-1	None	DKFZp686M22243
11	PLEKHA7	ENSG00000166689	ENST00000532079	protein_coding	PUTATIVE	None	27049	234	77	16810530	17035959	-1	None	DKFZp686M22243
11	PLEKHA7	ENSG00000166689	ENST00000533251	retained_intron	KNOWN	None	27049	None	None	16810815	16811642	-1	None	DKFZp686M22243
11	PLEKHA7	ENSG00000166689	ENST00000525177	retained_intron	KNOWN	None	27049	None	None	16812718	16816870	-1	None	DKFZp686M22243
11	PLEKHA7	ENSG00000166689	ENST00000525581	protein_coding	PUTATIVE	None	27049	458	151	16816510	16834030	-1	None	DKFZp686M22243
11	PLEKHA7	ENSG00000166689	ENST00000525049	retained_intron	KNOWN	None	27049	None	None	16822563	16834862	-1	None	DKFZp686M22243
11	PLEKHA7	ENSG00000166689	ENST00000531079	retained_intron	KNOWN	None	27049	None	None	16822572	16825080	-1	None	DKFZp686M22243
11	PLEKHA7	ENSG00000166689	ENST00000528376	protein_coding	PUTATIVE	None	27049	371	122	16872745	16902905	-1	None	DKFZp686M22243
11	PLEKHA7	ENSG00000166689	ENST00000528637	processed_transcript	KNOWN	None	27049	None	None	16876436	16903166	-1	None	DKFZp686M22243
11	PLEKHA7	ENSG00000166689	ENST00000529213	processed_transcript	KNOWN	None	27049	None	None	16876441	17034889	-1	None	DKFZp686M22243
11	PLEKHA7	ENSG00000166689	ENST00000448080	protein_coding	KNOWN	None	27049	3369	1122	16809215	17035963	-1	None	DKFZp686M22243
X	GPR50-AS1	ENSG00000234696	ENST00000454196	antisense	KNOWN	None	40259	None	None	150343664	150346308	-1	None	None
6	RCAN2	ENSG00000172348	ENST00000330430	protein_coding	KNOWN	CCDS43469	3041	594	197	46188475	46293405	-1	DSCR1L1	ZAKI-4
6	RCAN2	ENSG00000172348	ENST00000371374	protein_coding	KNOWN	CCDS59023	3041	732	243	46188475	46459099	-1	DSCR1L1	ZAKI-4
6	RCAN2	ENSG00000172348	ENST00000306764	protein_coding	KNOWN	CCDS59023	3041	732	243	46188475	46459709	-1	DSCR1L1	ZAKI-4
6	RCAN2	ENSG00000172348	ENST00000405162	protein_coding	KNOWN	CCDS59023	3041	732	243	46190878	46424713	-1	DSCR1L1	ZAKI-4
HG7_PATCH	TRBV7-6	ENSG00000260216	ENST00000564119	TR_V_gene	KNOWN	None	12240	347	114	142213648	142214185	1	None	TRBV76, TCRBV6S3A1N1T, TCRBV7S6
8	LINC00293	ENSG00000253314	ENST00000519008	lincRNA	KNOWN	None	39078	None	None	47733859	47759688	1	NCRNA00293	BEYLA
8	LINC00293	ENSG00000253314	ENST00000518278	lincRNA	KNOWN	None	39078	None	None	47752438	47759631	1	NCRNA00293	BEYLA
8	LINC00293	ENSG00000253314	ENST00000521715	lincRNA	KNOWN	None	39078	None	None	47752497	47765929	1	NCRNA00293	BEYLA
8	LINC00293	ENSG00000253314	ENST00000518962	lincRNA	KNOWN	None	39078	None	None	47752517	47765833	1	NCRNA00293	BEYLA
13	CYCSP33	ENSG00000233545	ENST00000414485	processed_pseudogene	KNOWN	None	24407	None	None	24974841	24975167	1	None	HCP33
7	GSAP	ENSG00000186088	ENST00000491796	retained_intron	KNOWN	None	28042	None	None	76940068	76956801	-1	PION	LOC54103
7	GSAP	ENSG00000186088	ENST00000449779	retained_intron	KNOWN	None	28042	None	None	76940068	76984947	-1	PION	LOC54103
7	GSAP	ENSG00000186088	ENST00000257626	protein_coding	KNOWN	CCDS34672	28042	2565	854	76940068	77045717	-1	PION	LOC54103
7	GSAP	ENSG00000186088	ENST00000482866	retained_intron	KNOWN	None	28042	None	None	76940069	76945631	-1	PION	LOC54103
7	GSAP	ENSG00000186088	ENST00000474686	retained_intron	KNOWN	None	28042	None	None	76940652	76944132	-1	PION	LOC54103
7	GSAP	ENSG00000186088	ENST00000440473	processed_transcript	KNOWN	None	28042	None	None	76941483	76961261	-1	PION	LOC54103
7	GSAP	ENSG00000186088	ENST00000415112	protein_coding	NOVEL	None	28042	564	187	76943691	76959684	-1	PION	LOC54103
7	GSAP	ENSG00000186088	ENST00000426477	processed_transcript	KNOWN	None	28042	None	None	76950656	76957802	-1	PION	LOC54103
7	GSAP	ENSG00000186088	ENST00000489920	retained_intron	KNOWN	None	28042	None	None	76957932	76960035	-1	PION	LOC54103
7	GSAP	ENSG00000186088	ENST00000334003	retained_intron	KNOWN	None	28042	None	None	76958844	77035422	-1	PION	LOC54103
7	GSAP	ENSG00000186088	ENST00000434084	processed_transcript	KNOWN	None	28042	None	None	76980914	76984601	-1	PION	LOC54103
7	GSAP	ENSG00000186088	ENST00000430584	protein_coding	PUTATIVE	None	28042	177	58	77026318	77045184	-1	PION	LOC54103
7	GSAP	ENSG00000186088	ENST00000441833	protein_coding	KNOWN	None	28042	528	175	76940640	76955563	-1	PION	LOC54103
11	DPF2	ENSG00000133884	ENST00000528416	protein_coding	KNOWN	CCDS8100	9964	1176	391	65101225	65120720	1	REQ	ubi-d4
11	DPF2	ENSG00000133884	ENST00000444314	retained_intron	KNOWN	None	9964	None	None	65101323	65109473	1	REQ	ubi-d4
11	DPF2	ENSG00000133884	ENST00000415073	protein_coding	NOVEL	None	9964	624	207	65101326	65120659	1	REQ	ubi-d4
11	DPF2	ENSG00000133884	ENST00000530993	processed_transcript	KNOWN	None	9964	None	None	65101333	65113217	1	REQ	ubi-d4
11	DPF2	ENSG00000133884	ENST00000252268	protein_coding	NOVEL	None	9964	1218	405	65101338	65120454	1	REQ	ubi-d4
11	DPF2	ENSG00000133884	ENST00000524666	retained_intron	KNOWN	None	9964	None	None	65101344	65120452	1	REQ	ubi-d4
11	DPF2	ENSG00000133884	ENST00000532264	processed_transcript	KNOWN	None	9964	None	None	65101346	65113500	1	REQ	ubi-d4
11	DPF2	ENSG00000133884	ENST00000532102	nonsense_mediated_decay	KNOWN	None	9964	321	106	65101348	65113177	1	REQ	ubi-d4
11	DPF2	ENSG00000133884	ENST00000530973	retained_intron	KNOWN	None	9964	None	None	65108958	65113590	1	REQ	ubi-d4
11	DPF2	ENSG00000133884	ENST00000532492	retained_intron	KNOWN	None	9964	None	None	65110976	65111566	1	REQ	ubi-d4
11	DPF2	ENSG00000133884	ENST00000532052	retained_intron	KNOWN	None	9964	None	None	65111731	65120450	1	REQ	ubi-d4
11	DPF2	ENSG00000133884	ENST00000531989	protein_coding	PUTATIVE	None	9964	351	116	65113212	65120452	1	REQ	ubi-d4
12	SLC2A13	ENSG00000151229	ENST00000280871	protein_coding	KNOWN	CCDS8736	15956	1947	648	40148823	40499661	-1	None	HMIT
12	SLC2A13	ENSG00000151229	ENST00000465517	retained_intron	KNOWN	None	15956	None	None	40223210	40265683	-1	None	HMIT
12	SLC2A13	ENSG00000151229	ENST00000505338	retained_intron	KNOWN	None	15956	None	None	40223927	40229562	-1	None	HMIT
12	SLC2A13	ENSG00000151229	ENST00000380858	protein_coding	PUTATIVE	None	15956	1074	357	40343292	40499891	-1	None	HMIT
HG7_PATCH	TRBV5-6	ENSG00000260106	ENST00000563598	TR_V_gene	KNOWN	None	12223	343	113	142221545	142222051	1	None	TRBV56, TCRBV5S2, TCRBV5S6
HSCHR6_MHC_MCF	SLC44A4	ENSG00000229077	ENST00000415517	protein_coding	KNOWN	None	13941	2133	710	31907450	31923254	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_MCF	SLC44A4	ENSG00000229077	ENST00000459749	processed_transcript	PUTATIVE	None	13941	None	None	31907835	31908938	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_MCF	SLC44A4	ENSG00000229077	ENST00000441920	protein_coding	KNOWN	None	13941	1233	410	31909948	31923220	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_MCF	SLC44A4	ENSG00000229077	ENST00000460693	retained_intron	KNOWN	None	13941	None	None	31910317	31915454	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_MCF	SLC44A4	ENSG00000229077	ENST00000481664	retained_intron	KNOWN	None	13941	None	None	31913850	31915496	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_MCF	SLC44A4	ENSG00000229077	ENST00000463111	processed_transcript	KNOWN	None	13941	None	None	31918778	31923250	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_MCF	SLC44A4	ENSG00000229077	ENST00000485731	processed_transcript	KNOWN	None	13941	None	None	31919075	31923250	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_MCF	SLC44A4	ENSG00000229077	ENST00000547493	protein_coding	KNOWN	None	13941	2007	668	31907453	31923299	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_MCF	SLC44A4	ENSG00000229077	ENST00000547288	protein_coding	KNOWN	None	13941	1905	634	31907453	31921924	-1	C6orf29	NG22, CTL4, FLJ14491
15	None	ENSG00000244705	ENST00000471253	processed_pseudogene	KNOWN	None	None	None	None	40604553	40605490	-1	None	None
13	None	ENSG00000243008	ENST00000445572	unprocessed_pseudogene	KNOWN	None	None	None	None	24982295	25171798	1	None	None
8	None	ENSG00000254038	ENST00000523411	lincRNA	KNOWN	None	None	None	None	36924959	36926936	-1	None	None
14	BMP4	ENSG00000125378	ENST00000559087	protein_coding	KNOWN	CCDS9715	1071	1227	408	54416454	54423529	-1	BMP2B	None
14	BMP4	ENSG00000125378	ENST00000245451	protein_coding	KNOWN	CCDS9715	1071	1227	408	54416454	54423529	-1	BMP2B	None
14	BMP4	ENSG00000125378	ENST00000558984	protein_coding	KNOWN	CCDS9715	1071	1227	408	54416459	54420173	-1	BMP2B	None
14	BMP4	ENSG00000125378	ENST00000559501	protein_coding	PUTATIVE	None	1071	815	270	54416973	54420147	-1	BMP2B	None
14	BMP4	ENSG00000125378	ENST00000558961	protein_coding	PUTATIVE	None	1071	315	104	54417340	54418865	-1	BMP2B	None
14	BMP4	ENSG00000125378	ENST00000559642	protein_coding	KNOWN	None	1071	331	109	54418610	54425479	-1	BMP2B	None
14	BMP4	ENSG00000125378	ENST00000558489	processed_transcript	PUTATIVE	None	1071	None	None	54422184	54423366	-1	BMP2B	None
14	BMP4	ENSG00000125378	ENST00000417573	protein_coding	KNOWN	CCDS9715	1071	1227	408	54416457	54421270	-1	BMP2B	None
8	SMARCE1P4	ENSG00000253650	ENST00000523647	processed_pseudogene	KNOWN	None	39735	None	None	36952668	36952908	1	None	None
15	VPS33B	ENSG00000184056	ENST00000333371	protein_coding	KNOWN	CCDS10369	12712	1854	617	91541646	91565833	-1	None	FLJ14848
15	VPS33B	ENSG00000184056	ENST00000557470	retained_intron	KNOWN	None	12712	None	None	91541903	91544663	-1	None	FLJ14848
15	VPS33B	ENSG00000184056	ENST00000574755	nonsense_mediated_decay	KNOWN	None	12712	243	80	91541905	91565743	-1	None	FLJ14848
15	VPS33B	ENSG00000184056	ENST00000535906	protein_coding	NOVEL	None	12712	1773	590	91541905	91565826	-1	None	FLJ14848
15	VPS33B	ENSG00000184056	ENST00000554660	retained_intron	KNOWN	None	12712	None	None	91542561	91544235	-1	None	FLJ14848
15	VPS33B	ENSG00000184056	ENST00000556096	retained_intron	KNOWN	None	12712	None	None	91549231	91565833	-1	None	FLJ14848
15	VPS33B	ENSG00000184056	ENST00000554264	retained_intron	KNOWN	None	12712	None	None	91551132	91561266	-1	None	FLJ14848
15	VPS33B	ENSG00000184056	ENST00000557358	processed_transcript	KNOWN	None	12712	None	None	91557034	91565826	-1	None	FLJ14848
15	VPS33B	ENSG00000184056	ENST00000535843	protein_coding	KNOWN	None	12712	1581	526	91541905	91565743	-1	None	FLJ14848
HG7_PATCH	TRBV6-8	ENSG00000261463	ENST00000569944	TR_V_gene	KNOWN	None	12233	341	112	142228898	142229326	1	None	TRBV68, TCRBV13S7P, TCRBV6S8
15	None	ENSG00000259198	ENST00000559030	lincRNA	KNOWN	None	None	None	None	40604816	40608835	1	None	None
HSCHR6_MHC_COX	None	ENSG00000232652	ENST00000427808	processed_transcript	KNOWN	None	None	None	None	29461863	29474910	1	None	None
X	None	ENSG00000269993	ENST00000602313	lincRNA	KNOWN	None	None	None	None	150350858	150351327	1	None	None
15	None	ENSG00000259433	ENST00000560646	processed_pseudogene	KNOWN	None	None	None	None	45622407	45624832	-1	None	None
22	GTPBP1	ENSG00000100226	ENST00000216044	protein_coding	KNOWN	CCDS13977	4669	2010	669	39101728	39129592	1	None	GP-1, HSPC018
22	GTPBP1	ENSG00000100226	ENST00000484657	protein_coding	PUTATIVE	None	4669	458	151	39101747	39112872	1	None	GP-1, HSPC018
22	GTPBP1	ENSG00000100226	ENST00000418601	nonsense_mediated_decay	KNOWN	None	4669	213	70	39101954	39117827	1	None	GP-1, HSPC018
22	GTPBP1	ENSG00000100226	ENST00000461428	retained_intron	KNOWN	None	4669	None	None	39102123	39112245	1	None	GP-1, HSPC018
22	GTPBP1	ENSG00000100226	ENST00000488787	protein_coding	PUTATIVE	None	4669	260	85	39102516	39112674	1	None	GP-1, HSPC018
22	GTPBP1	ENSG00000100226	ENST00000470836	protein_coding	PUTATIVE	None	4669	117	38	39102525	39111967	1	None	GP-1, HSPC018
22	GTPBP1	ENSG00000100226	ENST00000460605	processed_transcript	KNOWN	None	4669	None	None	39121181	39122433	1	None	GP-1, HSPC018
22	GTPBP1	ENSG00000100226	ENST00000475959	retained_intron	KNOWN	None	4669	None	None	39121812	39122393	1	None	GP-1, HSPC018
22	GTPBP1	ENSG00000100226	ENST00000458073	protein_coding	PUTATIVE	None	4669	1050	349	39122311	39134304	1	None	GP-1, HSPC018
22	GTPBP1	ENSG00000100226	ENST00000462332	retained_intron	KNOWN	None	4669	None	None	39124261	39128244	1	None	GP-1, HSPC018
22	GTPBP1	ENSG00000100226	ENST00000484971	nonsense_mediated_decay	KNOWN	None	4669	92	29	39126618	39132189	1	None	GP-1, HSPC018
22	GTPBP1	ENSG00000100226	ENST00000487538	nonsense_mediated_decay	KNOWN	None	4669	273	90	39130329	39132180	1	None	GP-1, HSPC018
22	GTPBP1	ENSG00000100226	ENST00000489527	protein_coding	PUTATIVE	None	4669	122	39	39130330	39134300	1	None	GP-1, HSPC018
15	LINC00984	ENSG00000259330	ENST00000560415	antisense	KNOWN	None	35165	None	None	40617417	40618916	1	None	OGU1
14	None	ENSG00000270343	ENST00000603734	processed_pseudogene	KNOWN	None	None	None	None	81725909	81726583	-1	None	None
12	GPR19	ENSG00000183150	ENST00000540510	protein_coding	KNOWN	CCDS8652	4473	1248	415	12813825	12837455	-1	None	None
12	GPR19	ENSG00000183150	ENST00000540796	protein_coding	KNOWN	None	4473	178	58	12815205	12849141	-1	None	None
12	GPR19	ENSG00000183150	ENST00000545876	processed_transcript	KNOWN	None	4473	None	None	12837029	12849117	-1	None	None
12	GPR19	ENSG00000183150	ENST00000537507	processed_transcript	KNOWN	None	4473	None	None	12837332	12849121	-1	None	None
12	GPR19	ENSG00000183150	ENST00000332427	protein_coding	KNOWN	CCDS8652	4473	1248	415	12813995	12849121	-1	None	None
8	None	ENSG00000253123	ENST00000518765	lincRNA	KNOWN	None	None	None	None	37188190	37189502	-1	None	None
17	RPL26	ENSG00000161970	ENST00000293842	protein_coding	KNOWN	CCDS11142	10327	438	145	8280838	8286511	-1	None	L26
17	RPL26	ENSG00000161970	ENST00000584164	protein_coding	KNOWN	CCDS11142	10327	438	145	8280839	8286485	-1	None	L26
17	RPL26	ENSG00000161970	ENST00000578069	retained_intron	KNOWN	None	10327	None	None	8280844	8283402	-1	None	L26
17	RPL26	ENSG00000161970	ENST00000584441	protein_coding	NOVEL	None	10327	192	63	8280856	8283254	-1	None	L26
17	RPL26	ENSG00000161970	ENST00000582485	protein_coding	NOVEL	None	10327	407	134	8280862	8285627	-1	None	L26
17	RPL26	ENSG00000161970	ENST00000582556	protein_coding	KNOWN	CCDS11142	10327	438	145	8280867	8286484	-1	None	L26
17	RPL26	ENSG00000161970	ENST00000584906	nonsense_mediated_decay	KNOWN	None	10327	192	63	8280881	8285633	-1	None	L26
17	RPL26	ENSG00000161970	ENST00000583011	protein_coding	KNOWN	CCDS11142	10327	438	145	8280881	8286531	-1	None	L26
17	RPL26	ENSG00000161970	ENST00000585176	processed_transcript	KNOWN	None	10327	None	None	8280928	8286510	-1	None	L26
17	RPL26	ENSG00000161970	ENST00000584343	protein_coding	KNOWN	None	10327	323	106	8280997	8286511	-1	None	L26
17	RPL26	ENSG00000161970	ENST00000578812	protein_coding	PUTATIVE	None	10327	333	110	8282463	8286511	-1	None	L26
17	RPL26	ENSG00000161970	ENST00000583515	protein_coding	KNOWN	None	10327	290	95	8283133	8285872	-1	None	L26
17	RPL26	ENSG00000161970	ENST00000578115	retained_intron	KNOWN	None	10327	None	None	8285102	8286511	-1	None	L26
8	None	ENSG00000272157	ENST00000607735	antisense	KNOWN	None	None	None	None	24814135	24814624	1	None	None
13	None	ENSG00000266216	ENST00000582879	miRNA	NOVEL	None	None	None	None	25129366	25129451	-1	None	None
13	MBNL2	ENSG00000139793	ENST00000397601	protein_coding	KNOWN	CCDS9483	16746	1086	361	97873688	98046374	1	None	MBLL, MBLL39
13	MBNL2	ENSG00000139793	ENST00000469707	nonsense_mediated_decay	KNOWN	None	16746	768	255	97874609	98044262	1	None	MBLL, MBLL39
13	MBNL2	ENSG00000139793	ENST00000345429	protein_coding	KNOWN	CCDS9484	16746	1104	367	97874609	98046374	1	None	MBLL, MBLL39
13	MBNL2	ENSG00000139793	ENST00000449284	protein_coding	PUTATIVE	None	16746	318	105	98009050	98043853	1	None	MBLL, MBLL39
13	MBNL2	ENSG00000139793	ENST00000343600	protein_coding	KNOWN	CCDS9483	16746	1086	361	97874574	98046373	1	None	MBLL, MBLL39
13	MBNL2	ENSG00000139793	ENST00000376673	protein_coding	KNOWN	None	16746	1122	373	97874609	98046374	1	None	MBLL, MBLL39
13	MBNL2	ENSG00000139793	ENST00000445661	protein_coding	KNOWN	None	16746	621	206	97928458	98043867	1	None	MBLL, MBLL39
5	PCDHGB4	ENSG00000253953	ENST00000519479	protein_coding	KNOWN	CCDS54928	8711	2772	923	140767452	140892546	1	None	FIB2, CDH20, PCDH-GAMMA-B4
13	PSPC1P2	ENSG00000244615	ENST00000455130	unprocessed_pseudogene	KNOWN	None	42643	None	None	25140981	25144866	1	None	None
6	VWA7	ENSG00000204396	ENST00000375688	protein_coding	NOVEL	CCDS4721	13939	2676	891	31733367	31745071	-1	C6orf27	G7c, NG37
6	VWA7	ENSG00000204396	ENST00000486423	retained_intron	KNOWN	None	13939	None	None	31733814	31735464	-1	C6orf27	G7c, NG37
6	VWA7	ENSG00000204396	ENST00000467576	processed_transcript	KNOWN	None	13939	None	None	31734066	31745049	-1	C6orf27	G7c, NG37
6	VWA7	ENSG00000204396	ENST00000487013	processed_transcript	KNOWN	None	13939	None	None	31739047	31740784	-1	C6orf27	G7c, NG37
6	VWA7	ENSG00000204396	ENST00000497645	processed_transcript	PUTATIVE	None	13939	None	None	31743836	31744696	-1	C6orf27	G7c, NG37
6	VWA7	ENSG00000204396	ENST00000375686	protein_coding	KNOWN	None	13939	2559	852	31733371	31745108	-1	C6orf27	G7c, NG37
6	VWA7	ENSG00000204396	ENST00000447450	protein_coding	KNOWN	None	13939	2067	688	31734337	31745108	-1	C6orf27	G7c, NG37
X	None	ENSG00000228717	ENST00000458074	processed_pseudogene	KNOWN	None	None	None	None	150394701	150396187	-1	None	None
15	RNU6-231P	ENSG00000252931	ENST00000517122	snRNA	KNOWN	None	47194	None	None	86365086	86365188	1	None	None
HG79_PATCH	SURF6	ENSG00000261306	ENST00000561828	protein_coding	KNOWN	None	11478	1086	361	136206251	136211933	-1	None	FLJ30322, RRP14
HG79_PATCH	SURF6	ENSG00000261306	ENST00000566800	processed_transcript	KNOWN	None	11478	None	None	136207341	136208474	-1	None	FLJ30322, RRP14
8	None	ENSG00000240237	ENST00000485217	processed_pseudogene	KNOWN	None	None	None	None	134014850	134015320	-1	None	None
15	RNA5SP392	ENSG00000252714	ENST00000516905	rRNA	KNOWN	None	43292	None	None	40623738	40623849	-1	RN5S392	None
15	MIR548AP	ENSG00000264406	ENST00000584739	miRNA	KNOWN	None	43465	None	None	86368866	86368961	1	None	hsa-mir-548ap
8	None	ENSG00000253746	ENST00000520431	lincRNA	KNOWN	None	None	None	None	37262957	37264242	-1	None	None
13	TPTE2P6	ENSG00000205822	ENST00000453498	processed_transcript	KNOWN	None	42644	None	None	25141011	25171814	1	None	None
13	TPTE2P6	ENSG00000205822	ENST00000440905	processed_transcript	KNOWN	None	42644	None	None	25160142	25171814	1	None	None
13	TPTE2P6	ENSG00000205822	ENST00000450973	processed_transcript	KNOWN	None	42644	None	None	25161362	25171814	1	None	None
10	GAPDHP45	ENSG00000228312	ENST00000452090	processed_pseudogene	KNOWN	None	37802	None	None	15135262	15135610	-1	None	None
8	None	ENSG00000270132	ENST00000602893	sense_intronic	KNOWN	None	None	None	None	134241299	134241940	1	None	None
15	None	ENSG00000259368	ENST00000558421	antisense	KNOWN	None	None	None	None	40661126	40661841	-1	None	None
9	None	ENSG00000266403	ENST00000579759	miRNA	NOVEL	None	None	None	None	129480522	129480612	-1	None	None
4	GAR1	ENSG00000109534	ENST00000394631	protein_coding	KNOWN	CCDS34050	14264	654	217	110736666	110745893	1	NOLA1	None
4	GAR1	ENSG00000109534	ENST00000226796	protein_coding	KNOWN	CCDS34050	14264	654	217	110736709	110745893	1	NOLA1	None
4	GAR1	ENSG00000109534	ENST00000506840	retained_intron	KNOWN	None	14264	None	None	110736791	110743722	1	NOLA1	None
4	GAR1	ENSG00000109534	ENST00000503671	retained_intron	KNOWN	None	14264	None	None	110736984	110740743	1	NOLA1	None
10	None	ENSG00000233477	ENST00000450091	processed_pseudogene	KNOWN	None	None	None	None	107445141	107445623	-1	None	None
9	None	ENSG00000228487	ENST00000453199	antisense	KNOWN	None	None	None	None	129976314	129984186	-1	None	None
15	None	ENSG00000259608	ENST00000561364	processed_pseudogene	KNOWN	None	None	None	None	86501948	86502202	-1	None	None
X	None	ENSG00000270052	ENST00000602419	lincRNA	KNOWN	None	None	None	None	150666198	150666826	1	None	None
10	YWHAZP5	ENSG00000213260	ENST00000419975	processed_pseudogene	KNOWN	None	30564	None	None	107446080	107446809	1	None	None
14	DCAF5	ENSG00000139990	ENST00000341516	protein_coding	KNOWN	CCDS32106	20224	2829	942	69517598	69619843	-1	WDR22	BCRP2, D14S1461E, BCRG2, KIAA1824
14	DCAF5	ENSG00000139990	ENST00000554215	protein_coding	KNOWN	None	20224	2583	860	69518572	69619316	-1	WDR22	BCRP2, D14S1461E, BCRG2, KIAA1824
14	DCAF5	ENSG00000139990	ENST00000556847	protein_coding	KNOWN	None	20224	2583	860	69520519	69619326	-1	WDR22	BCRP2, D14S1461E, BCRG2, KIAA1824
14	DCAF5	ENSG00000139990	ENST00000557386	protein_coding	NOVEL	None	20224	2826	941	69520542	69619720	-1	WDR22	BCRP2, D14S1461E, BCRG2, KIAA1824
14	DCAF5	ENSG00000139990	ENST00000553293	processed_transcript	KNOWN	None	20224	None	None	69521927	69584911	-1	WDR22	BCRP2, D14S1461E, BCRG2, KIAA1824
14	DCAF5	ENSG00000139990	ENST00000556111	nonsense_mediated_decay	KNOWN	None	20224	252	83	69529145	69619716	-1	WDR22	BCRP2, D14S1461E, BCRG2, KIAA1824
14	DCAF5	ENSG00000139990	ENST00000389997	protein_coding	PUTATIVE	None	20224	981	326	69555921	69619700	-1	WDR22	BCRP2, D14S1461E, BCRG2, KIAA1824
14	DCAF5	ENSG00000139990	ENST00000554681	protein_coding	KNOWN	None	20224	630	209	69558391	69619757	-1	WDR22	BCRP2, D14S1461E, BCRG2, KIAA1824
14	DCAF5	ENSG00000139990	ENST00000553943	retained_intron	KNOWN	None	20224	None	None	69585815	69619867	-1	WDR22	BCRP2, D14S1461E, BCRG2, KIAA1824
9	None	ENSG00000215237	ENST00000502889	unprocessed_pseudogene	KNOWN	None	None	None	None	14993310	15019727	1	None	None
9	None	ENSG00000215237	ENST00000399862	unprocessed_pseudogene	KNOWN	None	None	None	None	14993345	15019713	1	None	None
9	None	ENSG00000229369	ENST00000439400	processed_pseudogene	KNOWN	None	None	None	None	130062372	130063261	-1	None	None
8	None	ENSG00000243537	ENST00000479066	processed_pseudogene	KNOWN	None	None	None	None	134338240	134338647	1	None	None
10	None	ENSG00000229466	ENST00000447757	lincRNA	KNOWN	None	None	None	None	107568533	107578955	-1	None	None
4	PPA2	ENSG00000138777	ENST00000341695	protein_coding	KNOWN	CCDS3667	28883	1005	334	106290234	106395238	-1	None	FLJ20459
4	PPA2	ENSG00000138777	ENST00000348706	protein_coding	KNOWN	CCDS3668	28883	918	305	106290400	106395221	-1	None	FLJ20459
4	PPA2	ENSG00000138777	ENST00000509031	nonsense_mediated_decay	KNOWN	None	28883	192	63	106290718	106395171	-1	None	FLJ20459
4	PPA2	ENSG00000138777	ENST00000513605	retained_intron	KNOWN	None	28883	None	None	106290722	106320793	-1	None	FLJ20459
4	PPA2	ENSG00000138777	ENST00000515567	protein_coding	NOVEL	None	28883	208	68	106290722	106370528	-1	None	FLJ20459
4	PPA2	ENSG00000138777	ENST00000354147	protein_coding	KNOWN	CCDS34043	28883	507	168	106290722	106395207	-1	None	FLJ20459
4	PPA2	ENSG00000138777	ENST00000432483	protein_coding	PUTATIVE	CCDS3669	28883	699	232	106290722	106395207	-1	None	FLJ20459
4	PPA2	ENSG00000138777	ENST00000351450	nonsense_mediated_decay	KNOWN	None	28883	168	55	106290722	106395224	-1	None	FLJ20459
4	PPA2	ENSG00000138777	ENST00000503171	processed_transcript	KNOWN	None	28883	None	None	106307770	106375065	-1	None	FLJ20459
4	PPA2	ENSG00000138777	ENST00000510015	protein_coding	NOVEL	None	28883	573	190	106317483	106395216	-1	None	FLJ20459
4	PPA2	ENSG00000138777	ENST00000509426	processed_transcript	KNOWN	None	28883	None	None	106319461	106395216	-1	None	FLJ20459
4	PPA2	ENSG00000138777	ENST00000508518	protein_coding	NOVEL	None	28883	677	224	106320236	106395197	-1	None	FLJ20459
4	PPA2	ENSG00000138777	ENST00000514209	nonsense_mediated_decay	KNOWN	None	28883	168	55	106320308	106395216	-1	None	FLJ20459
4	PPA2	ENSG00000138777	ENST00000506815	nonsense_mediated_decay	KNOWN	None	28883	129	42	106326794	106395144	-1	None	FLJ20459
4	PPA2	ENSG00000138777	ENST00000457404	processed_transcript	KNOWN	None	28883	None	None	106326995	106395219	-1	None	FLJ20459
4	PPA2	ENSG00000138777	ENST00000502833	processed_transcript	KNOWN	None	28883	None	None	106344361	106395216	-1	None	FLJ20459
4	PPA2	ENSG00000138777	ENST00000504028	protein_coding	NOVEL	None	28883	587	194	106345406	106395216	-1	None	FLJ20459
4	PPA2	ENSG00000138777	ENST00000502596	protein_coding	PUTATIVE	None	28883	264	87	106359134	106394866	-1	None	FLJ20459
4	PPA2	ENSG00000138777	ENST00000513649	nonsense_mediated_decay	KNOWN	None	28883	342	113	106359172	106395216	-1	None	FLJ20459
4	PPA2	ENSG00000138777	ENST00000499847	retained_intron	KNOWN	None	28883	None	None	106367359	106395216	-1	None	FLJ20459
4	PPA2	ENSG00000138777	ENST00000502610	retained_intron	KNOWN	None	28883	None	None	106377238	106395189	-1	None	FLJ20459
4	PPA2	ENSG00000138777	ENST00000505713	processed_transcript	KNOWN	None	28883	None	None	106394515	106395216	-1	None	FLJ20459
4	PPA2	ENSG00000138777	ENST00000357415	protein_coding	KNOWN	None	28883	1050	349	106290725	106395221	-1	None	FLJ20459
4	PPA2	ENSG00000138777	ENST00000380004	protein_coding	KNOWN	None	28883	951	316	106290725	106395221	-1	None	FLJ20459
4	PPA2	ENSG00000138777	ENST00000310267	protein_coding	KNOWN	None	28883	609	202	106326794	106395144	-1	None	FLJ20459
6	DCBLD1	ENSG00000164465	ENST00000528138	processed_transcript	KNOWN	None	21479	None	None	117774980	117816029	1	None	MGC46341, dJ94G16.1
6	DCBLD1	ENSG00000164465	ENST00000525483	processed_transcript	KNOWN	None	21479	None	None	117774980	117825127	1	None	MGC46341, dJ94G16.1
6	DCBLD1	ENSG00000164465	ENST00000533950	processed_transcript	KNOWN	None	21479	None	None	117774997	117806205	1	None	MGC46341, dJ94G16.1
6	DCBLD1	ENSG00000164465	ENST00000528162	processed_transcript	KNOWN	None	21479	None	None	117803803	117825062	1	None	MGC46341, dJ94G16.1
6	DCBLD1	ENSG00000164465	ENST00000296955	protein_coding	KNOWN	CCDS34522	21479	1620	539	117803820	117891021	1	None	MGC46341, dJ94G16.1
6	DCBLD1	ENSG00000164465	ENST00000338728	protein_coding	KNOWN	None	21479	2148	715	117803825	117870960	1	None	MGC46341, dJ94G16.1
6	DCBLD1	ENSG00000164465	ENST00000533453	retained_intron	KNOWN	None	21479	None	None	117824722	117891021	1	None	MGC46341, dJ94G16.1
6	DCBLD1	ENSG00000164465	ENST00000481630	processed_transcript	KNOWN	None	21479	None	None	117824947	117829278	1	None	MGC46341, dJ94G16.1
6	DCBLD1	ENSG00000164465	ENST00000424717	nonsense_mediated_decay	KNOWN	None	21479	300	99	117859938	117869091	1	None	MGC46341, dJ94G16.1
6	DCBLD1	ENSG00000164465	ENST00000534777	processed_transcript	KNOWN	None	21479	None	None	117860472	117869142	1	None	MGC46341, dJ94G16.1
6	DCBLD1	ENSG00000164465	ENST00000478345	processed_transcript	KNOWN	None	21479	None	None	117862081	117869094	1	None	MGC46341, dJ94G16.1
6	DCBLD1	ENSG00000164465	ENST00000487076	processed_transcript	KNOWN	None	21479	None	None	117865433	117866719	1	None	MGC46341, dJ94G16.1
6	DCBLD1	ENSG00000164465	ENST00000368503	protein_coding	KNOWN	None	21479	1551	516	117803820	117869602	1	None	MGC46341, dJ94G16.1
HSCHR6_MHC_COX	None	ENSG00000230674	ENST00000438483	processed_transcript	KNOWN	None	None	None	None	29493785	29497933	1	None	None
HSCHR6_MHC_COX	None	ENSG00000230674	ENST00000445541	processed_transcript	KNOWN	None	None	None	None	29493841	29496522	1	None	None
15	None	ENSG00000260758	ENST00000562495	lincRNA	KNOWN	None	None	None	None	86621974	86623023	-1	None	None
9	None	ENSG00000271833	ENST00000607259	sense_intronic	KNOWN	None	None	None	None	130129049	130129676	1	None	None
8	None	ENSG00000253161	ENST00000522718	lincRNA	KNOWN	None	None	None	None	37278859	37351431	-1	None	None
8	None	ENSG00000253161	ENST00000520422	lincRNA	KNOWN	None	None	None	None	37278922	37351352	-1	None	None
8	None	ENSG00000253161	ENST00000519738	lincRNA	KNOWN	None	None	None	None	37308281	37411701	-1	None	None
8	None	ENSG00000253161	ENST00000517363	lincRNA	KNOWN	None	None	None	None	37333472	37411585	-1	None	None
8	None	ENSG00000253638	ENST00000517470	processed_pseudogene	KNOWN	None	None	None	None	134404454	134404933	-1	None	None
9	SNORA65	ENSG00000201302	ENST00000364432	snoRNA	KNOWN	None	10222	None	None	130210780	130210909	-1	RNU65	U65
15	FSD2	ENSG00000186628	ENST00000334574	protein_coding	KNOWN	CCDS45332	18024	2250	749	83424114	83474821	-1	SPRYD1	RP11-127F21
15	FSD2	ENSG00000186628	ENST00000541889	protein_coding	NOVEL	None	18024	2115	704	83428026	83474806	-1	SPRYD1	RP11-127F21
15	FSD2	ENSG00000186628	ENST00000561368	protein_coding	KNOWN	None	18024	303	100	83455840	83474822	-1	SPRYD1	RP11-127F21
9	None	ENSG00000200788	ENST00000363918	misc_RNA	NOVEL	None	None	None	None	130233154	130233266	1	None	None
8	ST13P6	ENSG00000225259	ENST00000522430	processed_pseudogene	KNOWN	None	18557	None	None	134420249	134421350	1	FAM10A6	FAM10A6P
8	ST13P6	ENSG00000225259	ENST00000393673	processed_pseudogene	KNOWN	None	18557	None	None	134420249	134421471	1	FAM10A6	FAM10A6P
9	MIR3911	ENSG00000264329	ENST00000577791	miRNA	KNOWN	None	38962	None	None	130452966	130453074	-1	None	hsa-mir-3911
13	None	ENSG00000211508	ENST00000390174	miRNA	NOVEL	None	None	None	None	25183217	25183313	1	None	None
11	CHST1	ENSG00000175264	ENST00000308064	protein_coding	KNOWN	CCDS7913	1969	1236	411	45670427	45687172	-1	None	C6ST, KSGal6ST
11	CHST1	ENSG00000175264	ENST00000533673	processed_transcript	KNOWN	None	1969	None	None	45670429	45671184	-1	None	C6ST, KSGal6ST
11	CHST1	ENSG00000175264	ENST00000531322	retained_intron	KNOWN	None	1969	None	None	45672783	45687144	-1	None	C6ST, KSGal6ST
13	RNY1P7	ENSG00000207474	ENST00000384743	misc_RNA	KNOWN	None	42484	None	None	25277694	25277803	-1	None	None
9	MIR3960	ENSG00000266070	ENST00000583311	miRNA	KNOWN	None	41595	None	None	130548112	130548202	1	None	hsa-mir-3960
10	COL13A1	ENSG00000197467	ENST00000479733	nonsense_mediated_decay	KNOWN	None	2190	1749	582	71561687	71718656	1	None	None
10	COL13A1	ENSG00000197467	ENST00000398978	protein_coding	KNOWN	CCDS44419	2190	2154	717	71561688	71718904	1	None	None
10	COL13A1	ENSG00000197467	ENST00000354547	protein_coding	KNOWN	CCDS44424	2190	2088	695	71561688	71718904	1	None	None
10	COL13A1	ENSG00000197467	ENST00000357811	protein_coding	KNOWN	None	2190	2052	683	71561688	71718904	1	None	None
10	COL13A1	ENSG00000197467	ENST00000520267	protein_coding	NOVEL	CCDS44427	2190	1938	645	71561874	71718489	1	None	None
10	COL13A1	ENSG00000197467	ENST00000517713	protein_coding	KNOWN	CCDS44423	2190	2007	668	71562180	71718457	1	None	None
10	COL13A1	ENSG00000197467	ENST00000522165	protein_coding	KNOWN	CCDS44425	2190	2061	686	71562180	71718457	1	None	None
10	COL13A1	ENSG00000197467	ENST00000520133	protein_coding	KNOWN	CCDS44428	2190	1833	610	71562180	71718457	1	None	None
10	COL13A1	ENSG00000197467	ENST00000484990	processed_transcript	PUTATIVE	None	2190	None	None	71637052	71639183	1	None	None
10	COL13A1	ENSG00000197467	ENST00000398975	protein_coding	NOVEL	None	2190	743	246	71686844	71718771	1	None	None
10	COL13A1	ENSG00000197467	ENST00000456019	protein_coding	NOVEL	None	2190	523	173	71690209	71718683	1	None	None
10	COL13A1	ENSG00000197467	ENST00000518052	processed_transcript	KNOWN	None	2190	None	None	71703881	71724031	1	None	None
10	COL13A1	ENSG00000197467	ENST00000478219	retained_intron	KNOWN	None	2190	None	None	71714657	71718898	1	None	None
10	COL13A1	ENSG00000197467	ENST00000398974	protein_coding	KNOWN	None	2190	2118	705	71561644	71718904	1	None	None
10	COL13A1	ENSG00000197467	ENST00000398971	protein_coding	KNOWN	None	2190	2109	702	71561644	71718904	1	None	None
10	COL13A1	ENSG00000197467	ENST00000398968	protein_coding	KNOWN	None	2190	2097	698	71561644	71718904	1	None	None
10	COL13A1	ENSG00000197467	ENST00000398966	protein_coding	KNOWN	None	2190	2088	695	71561644	71718904	1	None	None
10	COL13A1	ENSG00000197467	ENST00000398964	protein_coding	KNOWN	None	2190	2067	688	71561644	71718904	1	None	None
10	COL13A1	ENSG00000197467	ENST00000398969	protein_coding	KNOWN	None	2190	1938	645	71561644	71718904	1	None	None
10	COL13A1	ENSG00000197467	ENST00000356340	protein_coding	KNOWN	None	2190	2154	717	71561644	71718903	1	None	None
10	COL13A1	ENSG00000197467	ENST00000398972	protein_coding	KNOWN	None	2190	2112	703	71561644	71718903	1	None	None
10	COL13A1	ENSG00000197467	ENST00000398973	protein_coding	KNOWN	None	2190	2076	691	71561644	71718903	1	None	None
HSCHR6_MHC_QBL	DAXX	ENSG00000206279	ENST00000399344	protein_coding	KNOWN	None	2681	2223	740	33215186	33219639	-1	None	DAP6
HSCHR6_MHC_QBL	DAXX	ENSG00000206279	ENST00000383194	protein_coding	KNOWN	None	2681	2223	740	33215186	33219643	-1	None	DAP6
HSCHR6_MHC_QBL	DAXX	ENSG00000206279	ENST00000471954	processed_transcript	KNOWN	None	2681	None	None	33216162	33219559	-1	None	DAP6
HSCHR6_MHC_QBL	DAXX	ENSG00000206279	ENST00000494562	processed_transcript	KNOWN	None	2681	None	None	33216214	33218498	-1	None	DAP6
HSCHR6_MHC_QBL	DAXX	ENSG00000206279	ENST00000466908	retained_intron	KNOWN	None	2681	None	None	33216293	33217089	-1	None	DAP6
HSCHR6_MHC_QBL	DAXX	ENSG00000206279	ENST00000496639	processed_transcript	KNOWN	None	2681	None	None	33217498	33219547	-1	None	DAP6
HSCHR6_MHC_QBL	DAXX	ENSG00000206279	ENST00000429531	protein_coding	KNOWN	None	2681	535	177	33217869	33219574	-1	None	DAP6
HSCHR6_MHC_QBL	DAXX	ENSG00000206279	ENST00000438332	protein_coding	KNOWN	None	2681	389	128	33218015	33225864	-1	None	DAP6
HSCHR6_MHC_QBL	DAXX	ENSG00000206279	ENST00000494997	retained_intron	KNOWN	None	2681	None	None	33218240	33219586	-1	None	DAP6
HSCHR6_MHC_QBL	DAXX	ENSG00000206279	ENST00000419051	protein_coding	KNOWN	None	2681	144	47	33218411	33219432	-1	None	DAP6
HSCHR6_MHC_QBL	DAXX	ENSG00000206279	ENST00000497962	processed_transcript	KNOWN	None	2681	None	None	33220257	33225897	-1	None	DAP6
13	RPL26P34	ENSG00000225404	ENST00000431005	processed_pseudogene	KNOWN	None	36249	None	None	25278476	25278926	-1	None	None
15	None	ENSG00000260477	ENST00000563990	lincRNA	KNOWN	None	None	None	None	86626576	86659948	-1	None	None
15	None	ENSG00000260477	ENST00000567981	lincRNA	KNOWN	None	None	None	None	86626662	86650872	-1	None	None
15	None	ENSG00000260477	ENST00000570008	lincRNA	KNOWN	None	None	None	None	86631339	86659936	-1	None	None
15	None	ENSG00000260477	ENST00000567231	lincRNA	KNOWN	None	None	None	None	86648271	86659903	-1	None	None
9	None	ENSG00000225032	ENST00000439298	antisense	KNOWN	None	None	None	None	130578345	130584799	1	None	None
9	None	ENSG00000225032	ENST00000425991	antisense	KNOWN	None	None	None	None	130580398	130583710	1	None	None
9	None	ENSG00000233081	ENST00000442072	lincRNA	KNOWN	None	None	None	None	94188520	94189426	1	None	None
15	LINC00594	ENSG00000259714	ENST00000561261	lincRNA	KNOWN	None	32358	None	None	40664026	40664677	1	C15orf36	None
4	None	ENSG00000222526	ENST00000410594	miRNA	NOVEL	None	None	None	None	138149282	138149385	1	None	None
9	PAICSP2	ENSG00000228595	ENST00000429118	processed_pseudogene	KNOWN	None	8589	None	None	94373625	94374774	1	None	None
X	None	ENSG00000214915	ENST00000454307	lincRNA	KNOWN	None	None	None	None	150684023	150684717	1	None	None
9	MIR3910-2	ENSG00000266855	ENST00000580936	miRNA	KNOWN	None	38952	None	None	94398533	94398643	1	None	hsa-mir-3910-2
9	MIR3910-1	ENSG00000266855	ENST00000580936	miRNA	KNOWN	None	38966	None	None	94398533	94398643	1	None	hsa-mir-3910-1
8	None	ENSG00000261220	ENST00000561761	lincRNA	KNOWN	None	None	None	None	134585426	134586104	1	None	None
11	UBXN1	ENSG00000162191	ENST00000294119	protein_coding	KNOWN	CCDS8029	18402	939	312	62443970	62446527	-1	None	LOC51035, 2B28, UBXD10, SAKS1
11	UBXN1	ENSG00000162191	ENST00000532904	retained_intron	KNOWN	None	18402	None	None	62443970	62446530	-1	None	LOC51035, 2B28, UBXD10, SAKS1
11	UBXN1	ENSG00000162191	ENST00000301935	protein_coding	KNOWN	None	18402	894	297	62443970	62446562	-1	None	LOC51035, 2B28, UBXD10, SAKS1
11	UBXN1	ENSG00000162191	ENST00000533000	protein_coding	PUTATIVE	None	18402	303	100	62443971	62445455	-1	None	LOC51035, 2B28, UBXD10, SAKS1
11	UBXN1	ENSG00000162191	ENST00000533476	retained_intron	KNOWN	None	18402	None	None	62443973	62446545	-1	None	LOC51035, 2B28, UBXD10, SAKS1
11	UBXN1	ENSG00000162191	ENST00000529640	protein_coding	NOVEL	None	18402	882	293	62443976	62446537	-1	None	LOC51035, 2B28, UBXD10, SAKS1
11	UBXN1	ENSG00000162191	ENST00000525717	retained_intron	KNOWN	None	18402	None	None	62443989	62446539	-1	None	LOC51035, 2B28, UBXD10, SAKS1
11	UBXN1	ENSG00000162191	ENST00000534176	protein_coding	KNOWN	None	18402	871	289	62444085	62446553	-1	None	LOC51035, 2B28, UBXD10, SAKS1
11	UBXN1	ENSG00000162191	ENST00000525004	processed_transcript	KNOWN	None	18402	None	None	62444369	62446009	-1	None	LOC51035, 2B28, UBXD10, SAKS1
11	UBXN1	ENSG00000162191	ENST00000524762	processed_transcript	KNOWN	None	18402	None	None	62444452	62446552	-1	None	LOC51035, 2B28, UBXD10, SAKS1
11	UBXN1	ENSG00000162191	ENST00000527421	retained_intron	KNOWN	None	18402	None	None	62444453	62446537	-1	None	LOC51035, 2B28, UBXD10, SAKS1
11	UBXN1	ENSG00000162191	ENST00000526919	retained_intron	KNOWN	None	18402	None	None	62445010	62446482	-1	None	LOC51035, 2B28, UBXD10, SAKS1
11	UBXN1	ENSG00000162191	ENST00000533908	retained_intron	KNOWN	None	18402	None	None	62445277	62446530	-1	None	LOC51035, 2B28, UBXD10, SAKS1
11	UBXN1	ENSG00000162191	ENST00000528907	retained_intron	KNOWN	None	18402	None	None	62445390	62446545	-1	None	LOC51035, 2B28, UBXD10, SAKS1
11	UBXN1	ENSG00000162191	ENST00000531056	retained_intron	KNOWN	None	18402	None	None	62445561	62446549	-1	None	LOC51035, 2B28, UBXD10, SAKS1
11	UBXN1	ENSG00000162191	ENST00000436354	retained_intron	KNOWN	None	18402	None	None	62445681	62446567	-1	None	LOC51035, 2B28, UBXD10, SAKS1
11	UBXN1	ENSG00000162191	ENST00000531625	retained_intron	KNOWN	None	18402	None	None	62445916	62446545	-1	None	LOC51035, 2B28, UBXD10, SAKS1
17	None	ENSG00000262304	ENST00000572705	protein_coding	KNOWN	CCDS45576	None	2520	839	3468738	3512705	-1	None	None
17	None	ENSG00000262304	ENST00000572919	nonsense_mediated_decay	KNOWN	CCDS11030	None	1437	478	3488443	3539543	-1	None	None
9	None	ENSG00000227399	ENST00000422570	processed_pseudogene	KNOWN	None	None	None	None	94768344	94768826	1	None	None
15	None	ENSG00000261374	ENST00000567002	sense_overlapping	KNOWN	None	None	None	None	40666599	40668192	1	None	None
8	None	ENSG00000212273	ENST00000390971	snoRNA	NOVEL	None	None	None	None	134656841	134656968	-1	None	None
8	MTND2P7	ENSG00000253970	ENST00000521337	processed_pseudogene	KNOWN	None	42141	None	None	134767054	134767693	1	None	None
7	None	ENSG00000219545	ENST00000493246	processed_transcript	KNOWN	None	None	None	None	7680342	7778453	1	None	None
7	None	ENSG00000219545	ENST00000463725	processed_transcript	KNOWN	None	None	None	None	7680383	7917074	1	None	None
7	None	ENSG00000219545	ENST00000469183	processed_transcript	KNOWN	None	None	None	None	7680383	8043683	1	None	None
7	None	ENSG00000219545	ENST00000468567	processed_transcript	KNOWN	None	None	None	None	7680394	8043689	1	None	None
7	None	ENSG00000219545	ENST00000471760	processed_transcript	KNOWN	None	None	None	None	7680415	7732139	1	None	None
7	None	ENSG00000219545	ENST00000482067	processed_transcript	KNOWN	None	None	None	None	7680425	8007651	1	None	None
7	None	ENSG00000219545	ENST00000406829	protein_coding	NOVEL	None	None	309	102	7811992	7918854	1	None	None
10	CTNNA3	ENSG00000183230	ENST00000433211	protein_coding	KNOWN	CCDS7269	2511	2688	895	67679719	69455927	-1	None	VR22, MGC26194
10	CTNNA3	ENSG00000183230	ENST00000373735	protein_coding	KNOWN	None	2511	705	234	67679869	67838861	-1	None	VR22, MGC26194
10	CTNNA3	ENSG00000183230	ENST00000494580	processed_transcript	KNOWN	None	2511	None	None	68525913	68940201	-1	None	VR22, MGC26194
10	CTNNA3	ENSG00000183230	ENST00000330298	protein_coding	KNOWN	None	2511	580	192	69281599	69425410	-1	None	VR22, MGC26194
10	CTNNA3	ENSG00000183230	ENST00000373744	protein_coding	KNOWN	CCDS7269	2511	2688	895	67679777	69407271	-1	None	VR22, MGC26194
10	CTNNA3	ENSG00000183230	ENST00000545309	protein_coding	KNOWN	None	2511	1131	376	68936659	69407271	-1	None	VR22, MGC26194
9	None	ENSG00000237306	ENST00000456856	processed_pseudogene	KNOWN	None	None	None	None	94789780	94790106	1	None	None
10	None	ENSG00000229775	ENST00000449761	lincRNA	KNOWN	None	None	None	None	107900022	107948480	1	None	None
10	None	ENSG00000229775	ENST00000424701	lincRNA	KNOWN	None	None	None	None	107900049	107917903	1	None	None
10	None	ENSG00000229775	ENST00000452286	lincRNA	KNOWN	None	None	None	None	107923106	107948378	1	None	None
10	None	ENSG00000229775	ENST00000426752	lincRNA	KNOWN	None	None	None	None	107944143	107947553	1	None	None
8	None	ENSG00000253916	ENST00000523429	processed_pseudogene	KNOWN	None	None	None	None	134768088	134768889	1	None	None
10	None	ENSG00000238766	ENST00000459103	miRNA	NOVEL	None	None	None	None	74336482	74336553	-1	None	None
10	None	ENSG00000272536	ENST00000606883	misc_RNA	NOVEL	None	None	None	None	74342561	74342842	1	None	None
15	RNA5SP400	ENSG00000252964	ENST00000517155	rRNA	KNOWN	None	43300	None	None	86681500	86681610	-1	RN5S400	None
4	ADH1B	ENSG00000196616	ENST00000305046	protein_coding	KNOWN	CCDS34033	250	1128	375	100226121	100242556	-1	ADH2	None
4	ADH1B	ENSG00000196616	ENST00000515694	retained_intron	KNOWN	None	250	None	None	100228400	100242555	-1	ADH2	None
4	ADH1B	ENSG00000196616	ENST00000506651	nonsense_mediated_decay	KNOWN	None	250	42	13	100228650	100242558	-1	ADH2	None
4	ADH1B	ENSG00000196616	ENST00000504498	processed_transcript	PUTATIVE	None	250	None	None	100238822	100242542	-1	ADH2	None
4	ADH1B	ENSG00000196616	ENST00000394887	protein_coding	KNOWN	None	250	1008	335	100226134	100242556	-1	ADH2	None
10	HMGN2P34	ENSG00000231471	ENST00000437647	processed_pseudogene	KNOWN	None	39405	None	None	74396255	74396523	-1	None	None
8	None	ENSG00000253561	ENST00000517695	lincRNA	KNOWN	None	None	None	None	134783652	134826780	1	None	None
18	SEC11C	ENSG00000166562	ENST00000587834	protein_coding	KNOWN	CCDS11970	23400	579	192	56806709	56826068	1	SEC11L3	SPC21, SPCS4C
18	SEC11C	ENSG00000166562	ENST00000509791	retained_intron	KNOWN	None	23400	None	None	56807098	56823688	1	SEC11L3	SPC21, SPCS4C
18	SEC11C	ENSG00000166562	ENST00000299714	nonsense_mediated_decay	KNOWN	None	23400	300	99	56807107	56826064	1	SEC11L3	SPC21, SPCS4C
18	SEC11C	ENSG00000166562	ENST00000585864	retained_intron	KNOWN	None	23400	None	None	56807116	56820593	1	SEC11L3	SPC21, SPCS4C
18	SEC11C	ENSG00000166562	ENST00000593132	processed_transcript	KNOWN	None	23400	None	None	56807120	56814964	1	SEC11L3	SPC21, SPCS4C
18	SEC11C	ENSG00000166562	ENST00000592774	processed_transcript	KNOWN	None	23400	None	None	56807125	56815244	1	SEC11L3	SPC21, SPCS4C
18	SEC11C	ENSG00000166562	ENST00000588875	protein_coding	NOVEL	None	23400	486	161	56807131	56826064	1	SEC11L3	SPC21, SPCS4C
18	SEC11C	ENSG00000166562	ENST00000591406	retained_intron	KNOWN	None	23400	None	None	56822837	56826064	1	SEC11L3	SPC21, SPCS4C
20	None	ENSG00000261249	ENST00000569178	lincRNA	KNOWN	None	None	None	None	7282703	7288079	-1	None	None
6	AGER	ENSG00000204305	ENST00000469940	retained_intron	KNOWN	None	320	None	None	32148745	32149412	-1	None	RAGE
6	AGER	ENSG00000204305	ENST00000488669	retained_intron	KNOWN	None	320	None	None	32148745	32150708	-1	None	RAGE
6	AGER	ENSG00000204305	ENST00000473619	retained_intron	KNOWN	None	320	None	None	32148745	32150708	-1	None	RAGE
6	AGER	ENSG00000204305	ENST00000375067	protein_coding	KNOWN	CCDS4747	320	1029	342	32148745	32152014	-1	None	RAGE
6	AGER	ENSG00000204305	ENST00000375055	protein_coding	KNOWN	CCDS56418	320	1044	347	32148745	32152023	-1	None	RAGE
6	AGER	ENSG00000204305	ENST00000484849	retained_intron	KNOWN	None	320	None	None	32148745	32152023	-1	None	RAGE
6	AGER	ENSG00000204305	ENST00000375076	protein_coding	KNOWN	CCDS4746	320	1215	404	32148745	32152101	-1	None	RAGE
6	AGER	ENSG00000204305	ENST00000450110	protein_coding	KNOWN	None	320	703	233	32150645	32152012	-1	None	RAGE
6	AGER	ENSG00000204305	ENST00000375056	protein_coding	KNOWN	None	320	700	232	32150657	32152014	-1	None	RAGE
6	AGER	ENSG00000204305	ENST00000375070	protein_coding	KNOWN	None	320	1308	435	32148747	32152101	-1	None	RAGE
6	AGER	ENSG00000204305	ENST00000375069	protein_coding	KNOWN	None	320	885	294	32148920	32151999	-1	None	RAGE
6	AGER	ENSG00000204305	ENST00000438221	protein_coding	KNOWN	CCDS56417	320	1092	363	32148899	32152009	-1	None	RAGE
6	AGER	ENSG00000204305	ENST00000375065	protein_coding	KNOWN	None	320	366	121	32148899	32152009	-1	None	RAGE
6	AGER	ENSG00000204305	ENST00000538695	protein_coding	KNOWN	None	320	387	128	32151186	32151999	-1	None	RAGE
6	RRAGD	ENSG00000025039	ENST00000369415	protein_coding	KNOWN	CCDS5022	19903	1203	400	90074355	90121989	-1	None	DKFZP761H171, bA11D8.2.1
6	RRAGD	ENSG00000025039	ENST00000359203	protein_coding	KNOWN	None	19903	750	249	90074717	90121771	-1	None	DKFZP761H171, bA11D8.2.1
6	RRAGD	ENSG00000025039	ENST00000492783	processed_transcript	KNOWN	None	19903	None	None	90087424	90121224	-1	None	DKFZP761H171, bA11D8.2.1
HG7_PATCH	TRBV7-7	ENSG00000261022	ENST00000568405	TR_V_gene	KNOWN	None	12241	347	114	142233142	142233643	1	None	TRBV77, TCRBV6S6A2T, TCRBV7S7
HG946_PATCH	TRRAP	ENSG00000261023	ENST00000566399	protein_coding	KNOWN	None	12347	215	70	98507245	98519711	1	None	TR-AP, PAF400, Tra1
HG946_PATCH	TRRAP	ENSG00000261023	ENST00000565218	protein_coding	KNOWN	None	12347	11580	3859	98507802	98642555	1	None	TR-AP, PAF400, Tra1
HG946_PATCH	TRRAP	ENSG00000261023	ENST00000562259	protein_coding	KNOWN	None	12347	11493	3830	98507802	98642555	1	None	TR-AP, PAF400, Tra1
HG946_PATCH	TRRAP	ENSG00000261023	ENST00000562468	protein_coding	NOVEL	None	12347	11544	3847	98510402	98642551	1	None	TR-AP, PAF400, Tra1
HG946_PATCH	TRRAP	ENSG00000261023	ENST00000561982	protein_coding	NOVEL	None	12347	10766	3587	98529992	98642555	1	None	TR-AP, PAF400, Tra1
HG946_PATCH	TRRAP	ENSG00000261023	ENST00000569447	retained_intron	KNOWN	None	12347	None	None	98605272	98607592	1	None	TR-AP, PAF400, Tra1
9	None	ENSG00000222421	ENST00000410489	misc_RNA	NOVEL	None	None	None	None	130594914	130595022	-1	None	None
5	PCDHGA8	ENSG00000253767	ENST00000398604	protein_coding	KNOWN	CCDS47291	8706	2799	932	140772381	140892546	1	None	KIAA0327, PCDH-GAMMA-A8
9	None	ENSG00000222296	ENST00000410364	misc_RNA	NOVEL	None	None	None	None	130596230	130596321	-1	None	None
9	RNA5SP296	ENSG00000222455	ENST00000410523	rRNA	KNOWN	None	43196	None	None	130603391	130603501	-1	RN5S296	None
10	OIT3	ENSG00000138315	ENST00000334011	protein_coding	KNOWN	CCDS7318	29953	1638	545	74653339	74692791	1	None	LZP, FLJ39116
HG7_PATCH	TRBV5-7	ENSG00000261484	ENST00000563141	TR_V_gene	KNOWN	None	12224	343	113	142241604	142242070	1	None	TRBV57, TCRBV5S7, TCRBV5S7P
19	PRSS57	ENSG00000185198	ENST00000329267	protein_coding	KNOWN	CCDS12041	31397	852	283	685521	695460	-1	PRSSL1	UNQ782
13	RNASEH2B	ENSG00000136104	ENST00000336617	protein_coding	KNOWN	CCDS9425	25671	939	312	51483814	51530901	1	DLEU8, AGS2	FLJ11712
13	RNASEH2B	ENSG00000136104	ENST00000459983	processed_transcript	KNOWN	None	25671	None	None	51483927	51517529	1	DLEU8, AGS2	FLJ11712
13	RNASEH2B	ENSG00000136104	ENST00000495244	processed_transcript	KNOWN	None	25671	None	None	51502498	51530631	1	DLEU8, AGS2	FLJ11712
13	RNASEH2B	ENSG00000136104	ENST00000459681	processed_transcript	KNOWN	None	25671	None	None	51504250	51504895	1	DLEU8, AGS2	FLJ11712
13	RNASEH2B	ENSG00000136104	ENST00000465541	processed_transcript	KNOWN	None	25671	None	None	51523618	51530638	1	DLEU8, AGS2	FLJ11712
13	RNASEH2B	ENSG00000136104	ENST00000422660	protein_coding	KNOWN	CCDS45047	25671	774	257	51483892	51544592	1	DLEU8, AGS2	FLJ11712
12	NANOG	ENSG00000111704	ENST00000541267	protein_coding	PUTATIVE	None	20857	559	185	7940390	7947404	1	None	FLJ12581, FLJ40451
12	NANOG	ENSG00000111704	ENST00000229307	protein_coding	KNOWN	CCDS31736	20857	918	305	7941992	7948655	1	None	FLJ12581, FLJ40451
12	NANOG	ENSG00000111704	ENST00000526434	nonsense_mediated_decay	KNOWN	None	20857	162	53	7942029	7947055	1	None	FLJ12581, FLJ40451
12	NANOG	ENSG00000111704	ENST00000526286	protein_coding	KNOWN	None	20857	870	289	7942211	7947691	1	None	FLJ12581, FLJ40451
HG7_PATCH	TRBV6-9	ENSG00000260074	ENST00000562511	TR_V_gene	KNOWN	None	12234	344	113	142248910	142249342	1	None	TRBV69, TCRBV13S4, TCRBV6S9
6	DEFB112	ENSG00000180872	ENST00000322246	protein_coding	KNOWN	CCDS34476	18093	342	113	50011288	50016364	-1	None	DEFB-12
5	None	ENSG00000251553	ENST00000511690	processed_pseudogene	KNOWN	None	None	None	None	98015106	98017071	1	None	None
5	KDELC1P1	ENSG00000250329	ENST00000512118	processed_pseudogene	KNOWN	None	39193	None	None	127445178	127446686	1	None	None
6	CYP39A1	ENSG00000146233	ENST00000275016	protein_coding	KNOWN	CCDS4916	17449	1410	469	46517541	46620523	-1	None	None
6	CYP39A1	ENSG00000146233	ENST00000489657	processed_transcript	KNOWN	None	17449	None	None	46550880	46554880	-1	None	None
6	CYP39A1	ENSG00000146233	ENST00000476076	processed_transcript	KNOWN	None	17449	None	None	46554002	46554862	-1	None	None
6	CYP39A1	ENSG00000146233	ENST00000480804	processed_transcript	KNOWN	None	17449	None	None	46555840	46605622	-1	None	None
20	None	ENSG00000224711	ENST00000455299	lincRNA	KNOWN	None	None	None	None	7328114	7348279	1	None	None
HG7_PATCH	TRBV7-8	ENSG00000261571	ENST00000567144	TR_V_gene	KNOWN	None	12242	347	114	142253486	142254008	1	None	TRBV78, TCRBV6S2A1N1T, TCRBV7S8
16	RNU7-125P	ENSG00000238964	ENST00000458760	snRNA	KNOWN	None	45659	None	None	14737645	14737706	1	None	None
16	None	ENSG00000261523	ENST00000568317	antisense	KNOWN	None	None	None	None	14789424	14800912	-1	None	None
12	LDHB	ENSG00000111716	ENST00000542765	retained_intron	KNOWN	None	6541	None	None	21788276	21790308	-1	None	None
12	LDHB	ENSG00000111716	ENST00000470985	retained_intron	KNOWN	None	6541	None	None	21788276	21791472	-1	None	None
12	LDHB	ENSG00000111716	ENST00000396076	protein_coding	KNOWN	CCDS8691	6541	1005	334	21788276	21810728	-1	None	None
12	LDHB	ENSG00000111716	ENST00000350669	protein_coding	KNOWN	CCDS8691	6541	1005	334	21788276	21810776	-1	None	None
12	LDHB	ENSG00000111716	ENST00000396075	protein_coding	KNOWN	None	6541	698	231	21791302	21810296	-1	None	None
12	LDHB	ENSG00000111716	ENST00000470280	retained_intron	KNOWN	None	6541	None	None	21796479	21807504	-1	None	None
12	LDHB	ENSG00000111716	ENST00000450584	protein_coding	KNOWN	None	6541	410	135	21796880	21810773	-1	None	None
12	LDHB	ENSG00000111716	ENST00000539782	protein_coding	KNOWN	None	6541	306	101	21796984	21910791	-1	None	None
12	LDHB	ENSG00000111716	ENST00000544151	retained_intron	KNOWN	None	6541	None	None	21807289	21810905	-1	None	None
12	LDHB	ENSG00000111716	ENST00000535112	processed_transcript	KNOWN	None	6541	None	None	21807591	21910765	-1	None	None
16	MIR3177	ENSG00000265820	ENST00000578255	miRNA	KNOWN	None	38364	None	None	1784986	1785067	1	None	hsa-mir-3177
5	None	ENSG00000207290	ENST00000384560	misc_RNA	NOVEL	None	None	None	None	127706792	127706905	-1	None	None
15	SPESP1	ENSG00000258484	ENST00000560188	processed_transcript	KNOWN	None	15570	None	None	69110560	69238461	1	None	SP-ESP
15	SPESP1	ENSG00000258484	ENST00000310673	protein_coding	KNOWN	CCDS10230	15570	1053	350	69222839	69239150	1	None	SP-ESP
15	SPESP1	ENSG00000258484	ENST00000561467	processed_transcript	KNOWN	None	15570	None	None	69232133	69238342	1	None	SP-ESP
16	None	ENSG00000254609	ENST00000526173	unprocessed_pseudogene	KNOWN	None	None	None	None	14821139	14827204	-1	None	None
16	None	ENSG00000261207	ENST00000569670	antisense	KNOWN	None	None	None	None	1801560	1802263	-1	None	None
14	None	ENSG00000242163	ENST00000469473	processed_pseudogene	KNOWN	None	None	None	None	81799305	81799705	-1	None	None
5	None	ENSG00000248634	ENST00000514867	sense_intronic	KNOWN	None	None	None	None	127999671	128078522	1	None	None
15	RNU6-953P	ENSG00000238941	ENST00000459154	snRNA	KNOWN	None	47916	None	None	45646977	45647083	-1	None	None
18	None	ENSG00000261126	ENST00000564012	sense_overlapping	KNOWN	None	None	None	None	77797387	77838211	1	None	None
18	None	ENSG00000261126	ENST00000568911	lincRNA	KNOWN	None	None	None	None	77822752	77830758	1	None	None
18	None	ENSG00000261126	ENST00000564686	lincRNA	KNOWN	None	None	None	None	77826911	77853362	1	None	None
18	None	ENSG00000261126	ENST00000566810	lincRNA	KNOWN	None	None	None	None	77827256	77839140	1	None	None
18	None	ENSG00000261126	ENST00000564555	lincRNA	KNOWN	None	None	None	None	77840060	77853337	1	None	None
15	None	ENSG00000259342	ENST00000559553	antisense	KNOWN	None	None	None	None	45722850	45734006	-1	None	None
5	MIR4633	ENSG00000264563	ENST00000584064	miRNA	KNOWN	None	41822	None	None	128433381	128433459	1	None	hsa-mir-4633
16	None	ENSG00000261695	ENST00000568759	antisense	KNOWN	None	None	None	None	14828542	14840034	-1	None	None
14	None	ENSG00000258605	ENST00000554807	processed_pseudogene	KNOWN	None	None	None	None	81879314	81879583	1	None	None
5	MIR4460	ENSG00000265691	ENST00000577862	miRNA	KNOWN	None	41795	None	None	128732755	128732840	-1	None	hsa-mir-4460
5	RGMB-AS1	ENSG00000246763	ENST00000501938	antisense	KNOWN	None	48666	None	None	98105322	98108792	-1	None	None
5	RGMB-AS1	ENSG00000246763	ENST00000498871	antisense	KNOWN	None	48666	None	None	98105322	98108829	-1	None	None
5	RGMB-AS1	ENSG00000246763	ENST00000505362	antisense	KNOWN	None	48666	None	None	98106462	98108776	-1	None	None
5	RGMB-AS1	ENSG00000246763	ENST00000505677	antisense	KNOWN	None	48666	None	None	98106654	98109173	-1	None	None
5	RGMB-AS1	ENSG00000246763	ENST00000515003	antisense	KNOWN	None	48666	None	None	98106784	98108482	-1	None	None
15	MIR147B	ENSG00000211519	ENST00000390185	miRNA	KNOWN	None	33655	None	None	45725248	45725327	1	MIRN147B	hsa-mir-147b
16	None	ENSG00000255037	ENST00000528546	unprocessed_pseudogene	KNOWN	None	None	None	None	14860259	14863932	-1	None	None
6	MYO6	ENSG00000196586	ENST00000369985	protein_coding	KNOWN	None	7605	3789	1262	76458926	76629253	1	DFNA22, DFNB37	KIAA0389
6	MYO6	ENSG00000196586	ENST00000369977	protein_coding	KNOWN	CCDS34487	7605	3858	1285	76459049	76626329	1	DFNA22, DFNB37	KIAA0389
6	MYO6	ENSG00000196586	ENST00000369975	protein_coding	KNOWN	None	7605	3762	1253	76527240	76626329	1	DFNA22, DFNB37	KIAA0389
6	MYO6	ENSG00000196586	ENST00000462633	processed_transcript	KNOWN	None	7605	None	None	76576777	76591535	1	DFNA22, DFNB37	KIAA0389
6	MYO6	ENSG00000196586	ENST00000430435	protein_coding	KNOWN	None	7605	522	173	76599927	76618277	1	DFNA22, DFNB37	KIAA0389
6	MYO6	ENSG00000196586	ENST00000369981	protein_coding	KNOWN	None	7605	3861	1286	76458909	76629254	1	DFNA22, DFNB37	KIAA0389
14	None	ENSG00000258675	ENST00000555001	lincRNA	KNOWN	None	None	None	None	81908331	81916501	-1	None	None
11	KIF18A	ENSG00000121621	ENST00000263181	protein_coding	KNOWN	CCDS7867	29441	2697	898	28042167	28129855	-1	None	DKFZP434G2226
11	KIF18A	ENSG00000121621	ENST00000533466	retained_intron	KNOWN	None	29441	None	None	28098029	28119434	-1	None	DKFZP434G2226
11	KIF18A	ENSG00000121621	ENST00000531047	retained_intron	KNOWN	None	29441	None	None	28105821	28110127	-1	None	DKFZP434G2226
11	KIF18A	ENSG00000121621	ENST00000526288	retained_intron	KNOWN	None	29441	None	None	28118879	28129692	-1	None	DKFZP434G2226
5	ADAMTS19-AS1	ENSG00000249421	ENST00000502827	antisense	KNOWN	None	40797	None	None	128795252	128796382	-1	None	RP11-346A9.1
HG388_HG400_PATCH	None	ENSG00000267229	ENST00000585398	protein_coding	NOVEL	None	None	2535	844	111657010	111750144	-1	None	None
HG388_HG400_PATCH	None	ENSG00000267229	ENST00000591209	protein_coding	PUTATIVE	None	None	668	221	111728325	111747301	-1	None	None
HG388_HG400_PATCH	None	ENSG00000267229	ENST00000572309	nonsense_mediated_decay	KNOWN	None	None	641	212	111741018	111747567	-1	None	None
5	None	ENSG00000240785	ENST00000490372	processed_pseudogene	KNOWN	None	None	None	None	18049659	18049981	1	None	None
4	PHOX2B	ENSG00000109132	ENST00000226382	protein_coding	KNOWN	CCDS3463	9143	945	314	41746099	41750987	-1	PMX2B	Phox2b, NBPhox
4	PHOX2B	ENSG00000109132	ENST00000510424	protein_coding	NOVEL	None	9143	538	178	41748050	41749724	-1	PMX2B	Phox2b, NBPhox
21	HLCS-IT1	ENSG00000237646	ENST00000434195	sense_intronic	KNOWN	None	41343	None	None	38176285	38178585	-1	None	None
15	RNU7-5P	ENSG00000252285	ENST00000516476	snRNA	KNOWN	None	34101	None	None	45738661	45738722	-1	None	U7.5
16	ABCC6P2	ENSG00000255277	ENST00000526069	unprocessed_pseudogene	KNOWN	None	33353	None	None	14914649	14918526	-1	None	None
16	ABCC6P2	ENSG00000255277	ENST00000542005	unprocessed_pseudogene	KNOWN	None	33353	None	None	14916282	14918563	-1	None	None
5	None	ENSG00000212278	ENST00000390976	snoRNA	NOVEL	None	None	None	None	18236232	18236305	1	None	None
6	TRERF1	ENSG00000124496	ENST00000372922	protein_coding	KNOWN	CCDS4867	18273	3603	1200	42192963	42419783	-1	BCAR2	TReP-132, HSA277276, RAPA, dJ139D8.5
6	TRERF1	ENSG00000124496	ENST00000340840	protein_coding	NOVEL	None	18273	3390	1129	42195887	42418999	-1	BCAR2	TReP-132, HSA277276, RAPA, dJ139D8.5
6	TRERF1	ENSG00000124496	ENST00000354325	protein_coding	NOVEL	None	18273	3354	1117	42195887	42418999	-1	BCAR2	TReP-132, HSA277276, RAPA, dJ139D8.5
6	TRERF1	ENSG00000124496	ENST00000541110	protein_coding	KNOWN	None	18273	3663	1220	42192669	42419789	-1	BCAR2	TReP-132, HSA277276, RAPA, dJ139D8.5
6	TRERF1	ENSG00000124496	ENST00000372917	protein_coding	KNOWN	None	18273	3390	1129	42192669	42419789	-1	BCAR2	TReP-132, HSA277276, RAPA, dJ139D8.5
21	RNA5SP491	ENSG00000199806	ENST00000362936	rRNA	KNOWN	None	43391	None	None	38224211	38224328	1	RN5S491	None
20	RN7SL547P	ENSG00000240584	ENST00000490793	misc_RNA	KNOWN	None	46563	None	None	7614211	7614498	-1	None	None
5	RN7SL58P	ENSG00000241552	ENST00000473445	misc_RNA	KNOWN	None	46074	None	None	18547421	18547712	1	None	None
21	DPRXP5	ENSG00000270652	ENST00000604662	processed_pseudogene	KNOWN	None	32171	None	None	38315567	38316425	1	None	None
5	None	ENSG00000248693	ENST00000512978	lincRNA	KNOWN	None	None	None	None	18704542	18746282	-1	None	None
15	None	ENSG00000259354	ENST00000559869	antisense	KNOWN	None	None	None	None	45740625	45753588	1	None	None
15	None	ENSG00000259354	ENST00000558536	antisense	KNOWN	None	None	None	None	45740960	45789479	1	None	None
15	None	ENSG00000259354	ENST00000560647	antisense	KNOWN	None	None	None	None	45742316	45805965	1	None	None
15	None	ENSG00000259354	ENST00000560077	antisense	KNOWN	None	None	None	None	45742448	45771942	1	None	None
15	None	ENSG00000259354	ENST00000559960	antisense	KNOWN	None	None	None	None	45751208	45753154	1	None	None
11	SLC1A2	ENSG00000110436	ENST00000278379	protein_coding	KNOWN	CCDS31459	10940	1725	574	35272753	35440796	-1	None	GLT-1, EAAT2
11	SLC1A2	ENSG00000110436	ENST00000395750	protein_coding	PUTATIVE	CCDS55756	10940	1698	565	35272772	35441524	-1	None	GLT-1, EAAT2
11	SLC1A2	ENSG00000110436	ENST00000395753	protein_coding	KNOWN	CCDS55756	10940	1698	565	35272772	35441610	-1	None	GLT-1, EAAT2
11	SLC1A2	ENSG00000110436	ENST00000464522	protein_coding	PUTATIVE	None	10940	276	91	35275968	35287292	-1	None	GLT-1, EAAT2
11	SLC1A2	ENSG00000110436	ENST00000479543	processed_transcript	KNOWN	None	10940	None	None	35282418	35308334	-1	None	GLT-1, EAAT2
11	SLC1A2	ENSG00000110436	ENST00000606205	protein_coding	PUTATIVE	None	10940	1692	563	35286941	35440617	-1	None	GLT-1, EAAT2
11	SLC1A2	ENSG00000110436	ENST00000531628	protein_coding	NOVEL	None	10940	597	198	35287148	35323075	-1	None	GLT-1, EAAT2
11	SLC1A2	ENSG00000110436	ENST00000449068	protein_coding	PUTATIVE	None	10940	599	198	35327740	35441573	-1	None	GLT-1, EAAT2
19	KCTD15	ENSG00000153885	ENST00000587658	protein_coding	KNOWN	None	23297	338	111	34286838	34297863	1	None	MGC25497
19	KCTD15	ENSG00000153885	ENST00000587559	protein_coding	KNOWN	None	23297	386	127	34287321	34297911	1	None	MGC25497
19	KCTD15	ENSG00000153885	ENST00000588637	protein_coding	KNOWN	None	23297	248	81	34287359	34297773	1	None	MGC25497
19	KCTD15	ENSG00000153885	ENST00000590771	protein_coding	KNOWN	None	23297	185	60	34287751	34292190	1	None	MGC25497
19	KCTD15	ENSG00000153885	ENST00000589786	protein_coding	KNOWN	CCDS46039	23297	852	283	34287767	34304377	1	None	MGC25497
19	KCTD15	ENSG00000153885	ENST00000284006	protein_coding	KNOWN	CCDS12434	23297	705	234	34287767	34306666	1	None	MGC25497
19	KCTD15	ENSG00000153885	ENST00000588881	protein_coding	KNOWN	CCDS46039	23297	852	283	34287807	34303875	1	None	MGC25497
19	KCTD15	ENSG00000153885	ENST00000590906	protein_coding	KNOWN	None	23297	232	76	34289242	34292237	1	None	MGC25497
19	KCTD15	ENSG00000153885	ENST00000430256	protein_coding	KNOWN	CCDS46039	23297	852	283	34289291	34305144	1	None	MGC25497
19	KCTD15	ENSG00000153885	ENST00000592210	retained_intron	KNOWN	None	23297	None	None	34289604	34292653	1	None	MGC25497
19	KCTD15	ENSG00000153885	ENST00000590385	retained_intron	KNOWN	None	23297	None	None	34297829	34302655	1	None	MGC25497
19	KCTD15	ENSG00000153885	ENST00000592363	processed_transcript	PUTATIVE	None	23297	None	None	34304716	34305081	1	None	MGC25497
18	SLC25A6P4	ENSG00000266909	ENST00000586535	processed_pseudogene	KNOWN	None	43853	None	None	77835609	77836161	1	None	None
5	None	ENSG00000238674	ENST00000458972	snoRNA	NOVEL	None	None	None	None	18844006	18844109	1	None	None
5	None	ENSG00000251680	ENST00000503616	antisense	KNOWN	None	None	None	None	128836054	129241610	-1	None	None
5	None	ENSG00000251680	ENST00000515569	antisense	KNOWN	None	None	None	None	129098186	129241354	-1	None	None
21	None	ENSG00000224790	ENST00000430068	lincRNA	KNOWN	None	None	None	None	38338812	38344128	1	None	None
10	MYPN	ENSG00000138347	ENST00000354393	protein_coding	KNOWN	None	23246	3138	1045	69865912	69971456	1	None	MYOP
10	MYPN	ENSG00000138347	ENST00000358913	protein_coding	KNOWN	CCDS7275	23246	3963	1320	69868994	69971774	1	None	MYOP
10	MYPN	ENSG00000138347	ENST00000373675	protein_coding	KNOWN	None	23246	1524	507	69869253	69921923	1	None	MYOP
10	MYPN	ENSG00000138347	ENST00000540630	protein_coding	KNOWN	None	23246	3963	1320	69868994	69971458	1	None	MYOP
18	None	ENSG00000267251	ENST00000588950	antisense	KNOWN	None	None	None	None	77941563	77960875	1	None	None
3	TMEM40	ENSG00000088726	ENST00000314124	protein_coding	KNOWN	CCDS2613	25620	702	233	12775024	12801038	-1	None	FLJ11036
3	TMEM40	ENSG00000088726	ENST00000435575	protein_coding	NOVEL	None	25620	474	157	12775057	12800776	-1	None	FLJ11036
3	TMEM40	ENSG00000088726	ENST00000435218	protein_coding	KNOWN	None	25620	612	203	12775415	12800758	-1	None	FLJ11036
3	TMEM40	ENSG00000088726	ENST00000476331	processed_transcript	KNOWN	None	25620	None	None	12776136	12782855	-1	None	FLJ11036
3	TMEM40	ENSG00000088726	ENST00000428020	protein_coding	PUTATIVE	None	25620	294	97	12776136	12784016	-1	None	FLJ11036
3	TMEM40	ENSG00000088726	ENST00000480698	retained_intron	KNOWN	None	25620	None	None	12776158	12779367	-1	None	FLJ11036
3	TMEM40	ENSG00000088726	ENST00000264728	protein_coding	KNOWN	CCDS2613	25620	702	233	12776206	12810956	-1	None	FLJ11036
3	TMEM40	ENSG00000088726	ENST00000485124	retained_intron	KNOWN	None	25620	None	None	12779017	12780708	-1	None	FLJ11036
3	TMEM40	ENSG00000088726	ENST00000431022	protein_coding	KNOWN	None	25620	750	249	12776206	12810951	-1	None	FLJ11036
HSCHR6_MHC_QBL	TNF	ENSG00000206439	ENST00000383496	protein_coding	KNOWN	None	11892	702	233	31533585	31536356	1	TNFA	TNFSF2, DIF, TNF-alpha
16	None	ENSG00000260541	ENST00000570247	sense_overlapping	KNOWN	None	None	None	None	1891021	1893548	-1	None	None
16	None	ENSG00000265999	ENST00000584905	miRNA	NOVEL	None	None	None	None	1925658	1925735	-1	None	None
21	None	ENSG00000207416	ENST00000384685	misc_RNA	NOVEL	None	None	None	None	38359039	38359151	-1	None	None
16	None	ENSG00000259947	ENST00000570087	lincRNA	KNOWN	None	None	None	None	1939115	1940435	1	None	None
16	None	ENSG00000270734	ENST00000603741	processed_pseudogene	KNOWN	None	None	None	None	14956237	14956606	-1	None	None
4	RNU6-1112P	ENSG00000200455	ENST00000363585	snRNA	KNOWN	None	48075	None	None	40079504	40079602	1	None	None
15	None	ENSG00000261077	ENST00000567945	processed_pseudogene	KNOWN	None	None	None	None	86683069	86683471	-1	None	None
HG7_PATCH	TRBV5-8	ENSG00000261563	ENST00000565894	TR_V_gene	KNOWN	None	12225	343	113	142261249	142262208	1	None	TRBV58, TCRBV5S4A2T, TCRBV5S8
21	MRPL20P1	ENSG00000215734	ENST00000400819	processed_pseudogene	KNOWN	None	29699	None	None	38366943	38367375	1	None	None
11	PPP1R14B	ENSG00000173457	ENST00000392210	protein_coding	PUTATIVE	None	9057	138	45	64011956	64013665	-1	PLCB3N	SOM172, PNG, PHI-1
11	PPP1R14B	ENSG00000173457	ENST00000309318	protein_coding	KNOWN	CCDS31596	9057	444	147	64011956	64014413	-1	PLCB3N	SOM172, PNG, PHI-1
11	PPP1R14B	ENSG00000173457	ENST00000542235	protein_coding	PUTATIVE	None	9057	219	72	64012021	64013288	-1	PLCB3N	SOM172, PNG, PHI-1
13	IRX1P1	ENSG00000231417	ENST00000438849	unprocessed_pseudogene	KNOWN	None	33315	None	None	25316815	25320322	1	None	None
4	None	ENSG00000201863	ENST00000364993	snoRNA	NOVEL	None	None	None	None	40084603	40084726	1	None	None
9	C8G	ENSG00000176919	ENST00000371634	protein_coding	KNOWN	None	1354	492	163	139839698	139840813	1	None	None
9	C8G	ENSG00000176919	ENST00000224181	protein_coding	KNOWN	CCDS7017	1354	609	202	139839713	139841419	1	None	None
9	C8G	ENSG00000176919	ENST00000484376	processed_transcript	KNOWN	None	1354	None	None	139840591	139841426	1	None	None
9	C8G	ENSG00000176919	ENST00000465773	processed_transcript	KNOWN	None	1354	None	None	139840886	139841426	1	None	None
20	None	ENSG00000221726	ENST00000408799	miRNA	NOVEL	None	None	None	None	7677533	7677624	-1	None	None
9	None	ENSG00000237357	ENST00000435586	lincRNA	KNOWN	None	None	None	None	44401766	44404440	1	None	None
9	None	ENSG00000237357	ENST00000428895	lincRNA	KNOWN	None	None	None	None	44401809	44404126	1	None	None
9	None	ENSG00000237357	ENST00000425309	lincRNA	KNOWN	None	None	None	None	44402460	44403260	1	None	None
4	None	ENSG00000248977	ENST00000507583	processed_pseudogene	KNOWN	None	None	None	None	40143818	40143985	-1	None	None
16	RN7SL367P	ENSG00000263769	ENST00000584097	misc_RNA	KNOWN	None	46383	None	None	1944686	1944937	-1	None	None
8	None	ENSG00000253165	ENST00000517380	lincRNA	KNOWN	None	None	None	None	134787794	134789595	-1	None	None
21	RNU6-696P	ENSG00000212136	ENST00000390834	snRNA	KNOWN	None	47659	None	None	38417830	38417936	1	None	None
16	SNORA10	ENSG00000206811	ENST00000384084	snoRNA	KNOWN	None	32598	None	None	2012335	2012467	-1	None	ACA10
HG7_PATCH	TRBV7-9	ENSG00000260890	ENST00000564548	TR_V_gene	KNOWN	None	12243	347	114	142270879	142271415	1	None	TRBV79, TCRBV6S4A1, TCRBV7S9
21	None	ENSG00000270116	ENST00000602568	sense_intronic	KNOWN	None	None	None	None	38473114	38473643	1	None	None
15	None	ENSG00000200206	ENST00000363336	snoRNA	NOVEL	None	None	None	None	86716429	86716501	-1	None	None
9	None	ENSG00000257524	ENST00000476274	processed_transcript	KNOWN	None	None	None	None	130630143	130649066	-1	None	None
9	None	ENSG00000257524	ENST00000548587	processed_transcript	KNOWN	None	None	None	None	130634991	130647711	-1	None	None
22	GGA1	ENSG00000100083	ENST00000343632	protein_coding	KNOWN	CCDS13951	17842	1920	639	38004482	38029571	1	None	None
22	GGA1	ENSG00000100083	ENST00000381756	protein_coding	NOVEL	None	17842	1971	656	38004732	38028718	1	None	None
22	GGA1	ENSG00000100083	ENST00000489772	retained_intron	KNOWN	None	17842	None	None	38004837	38014153	1	None	None
22	GGA1	ENSG00000100083	ENST00000405147	protein_coding	PUTATIVE	None	17842	318	105	38004841	38016051	1	None	None
22	GGA1	ENSG00000100083	ENST00000429218	protein_coding	KNOWN	None	17842	325	107	38004842	38017638	1	None	None
22	GGA1	ENSG00000100083	ENST00000325180	protein_coding	KNOWN	CCDS33643	17842	1659	552	38004852	38029571	1	None	None
22	GGA1	ENSG00000100083	ENST00000439161	protein_coding	KNOWN	None	17842	179	58	38004942	38016339	1	None	None
22	GGA1	ENSG00000100083	ENST00000449944	protein_coding	NOVEL	None	17842	739	245	38004955	38019571	1	None	None
22	GGA1	ENSG00000100083	ENST00000411501	protein_coding	KNOWN	None	17842	122	39	38004967	38016282	1	None	None
22	GGA1	ENSG00000100083	ENST00000453208	protein_coding	KNOWN	None	17842	212	69	38004984	38016823	1	None	None
22	GGA1	ENSG00000100083	ENST00000447515	protein_coding	KNOWN	None	17842	84	27	38005047	38014553	1	None	None
22	GGA1	ENSG00000100083	ENST00000406772	protein_coding	KNOWN	CCDS54526	17842	1701	566	38005047	38029570	1	None	None
22	GGA1	ENSG00000100083	ENST00000431745	protein_coding	KNOWN	None	17842	53	16	38005067	38014522	1	None	None
22	GGA1	ENSG00000100083	ENST00000484804	processed_transcript	KNOWN	None	17842	None	None	38005073	38010281	1	None	None
22	GGA1	ENSG00000100083	ENST00000488672	processed_transcript	KNOWN	None	17842	None	None	38006149	38010202	1	None	None
22	GGA1	ENSG00000100083	ENST00000326597	protein_coding	KNOWN	None	17842	114	37	38008543	38016274	1	None	None
22	GGA1	ENSG00000100083	ENST00000413251	protein_coding	KNOWN	None	17842	326	107	38009977	38017639	1	None	None
22	GGA1	ENSG00000100083	ENST00000423024	protein_coding	KNOWN	None	17842	326	107	38010140	38017639	1	None	None
22	GGA1	ENSG00000100083	ENST00000491295	retained_intron	KNOWN	None	17842	None	None	38014410	38016256	1	None	None
22	GGA1	ENSG00000100083	ENST00000481613	retained_intron	KNOWN	None	17842	None	None	38016861	38019923	1	None	None
22	GGA1	ENSG00000100083	ENST00000475445	retained_intron	KNOWN	None	17842	None	None	38019836	38023169	1	None	None
22	GGA1	ENSG00000100083	ENST00000463672	retained_intron	KNOWN	None	17842	None	None	38025469	38026306	1	None	None
22	GGA1	ENSG00000100083	ENST00000460957	retained_intron	KNOWN	None	17842	None	None	38026675	38028684	1	None	None
22	GGA1	ENSG00000100083	ENST00000337437	protein_coding	KNOWN	None	17842	1821	606	38004853	38029570	1	None	None
22	GGA1	ENSG00000100083	ENST00000414350	protein_coding	KNOWN	CCDS46704	17842	270	89	38004481	38014127	1	None	None
9	ERP44	ENSG00000023318	ENST00000262455	protein_coding	KNOWN	CCDS35082	18311	1221	406	102741461	102861322	-1	TXNDC4	KIAA0573, PDIA10
14	None	ENSG00000258413	ENST00000554650	lincRNA	KNOWN	None	None	None	None	55729485	55738026	-1	None	None
14	None	ENSG00000258413	ENST00000556183	lincRNA	KNOWN	None	None	None	None	55729626	55738793	-1	None	None
21	TTC3-AS1	ENSG00000228677	ENST00000424733	antisense	KNOWN	None	40595	None	None	38559967	38566227	-1	None	None
18	RTTN	ENSG00000176225	ENST00000255674	protein_coding	KNOWN	CCDS42443	18654	6681	2226	67671029	67873181	-1	None	DKFZP434G145
18	RTTN	ENSG00000176225	ENST00000578780	protein_coding	KNOWN	None	18654	554	183	67671040	67687954	-1	None	DKFZP434G145
18	RTTN	ENSG00000176225	ENST00000583043	nonsense_mediated_decay	KNOWN	None	18654	2010	669	67671040	67864922	-1	None	DKFZP434G145
18	RTTN	ENSG00000176225	ENST00000581161	nonsense_mediated_decay	KNOWN	None	18654	1503	500	67671205	67872936	-1	None	DKFZP434G145
18	RTTN	ENSG00000176225	ENST00000580034	retained_intron	KNOWN	None	18654	None	None	67673710	67688396	-1	None	DKFZP434G145
18	RTTN	ENSG00000176225	ENST00000579986	processed_transcript	KNOWN	None	18654	None	None	67684811	67698626	-1	None	DKFZP434G145
18	RTTN	ENSG00000176225	ENST00000579021	processed_transcript	KNOWN	None	18654	None	None	67684827	67687110	-1	None	DKFZP434G145
18	RTTN	ENSG00000176225	ENST00000583765	processed_transcript	KNOWN	None	18654	None	None	67686738	67695993	-1	None	DKFZP434G145
18	RTTN	ENSG00000176225	ENST00000581709	processed_transcript	KNOWN	None	18654	None	None	67758781	67776929	-1	None	DKFZP434G145
18	RTTN	ENSG00000176225	ENST00000584659	processed_transcript	KNOWN	None	18654	None	None	67817357	67843982	-1	None	DKFZP434G145
18	RTTN	ENSG00000176225	ENST00000581583	retained_intron	KNOWN	None	18654	None	None	67833670	67872962	-1	None	DKFZP434G145
18	RTTN	ENSG00000176225	ENST00000437017	protein_coding	KNOWN	None	18654	4782	1593	67728602	67872962	-1	None	DKFZP434G145
18	RTTN	ENSG00000176225	ENST00000454359	protein_coding	KNOWN	None	18654	2640	879	67671045	67872962	-1	None	DKFZP434G145
HG7_PATCH	TRBV13	ENSG00000260143	ENST00000563042	TR_V_gene	KNOWN	None	12188	374	123	142277448	142277943	1	None	TCRBV13S1, TCRBV23S1A2T
13	ANKRD20A10P	ENSG00000226695	ENST00000457591	processed_pseudogene	KNOWN	None	39707	None	None	25324795	25326309	-1	ANKRD20A4P1	None
8	None	ENSG00000253832	ENST00000522570	lincRNA	KNOWN	None	None	None	None	24849516	24867292	1	None	None
20	None	ENSG00000215586	ENST00000400616	processed_pseudogene	KNOWN	None	None	None	None	7812445	7812969	-1	None	None
HG7_PATCH	TRBV10-3	ENSG00000261601	ENST00000566578	TR_V_gene	KNOWN	None	12179	344	113	142285819	142286316	1	None	TRBV103, TCRBV10S3, TCRBV12S1A1N2
X	RNU6-985P	ENSG00000222114	ENST00000410182	snRNA	KNOWN	None	47948	None	None	136770050	136770153	-1	None	None
14	REC8	ENSG00000100918	ENST00000311457	protein_coding	KNOWN	CCDS41932	16879	1641	546	24641062	24649463	1	REC8L1	Rec8p, kleisin-alpha
14	REC8	ENSG00000100918	ENST00000557806	protein_coding	KNOWN	None	16879	223	73	24641224	24642205	1	REC8L1	Rec8p, kleisin-alpha
14	REC8	ENSG00000100918	ENST00000559919	protein_coding	KNOWN	CCDS41932	16879	1641	546	24641234	24649460	1	REC8L1	Rec8p, kleisin-alpha
14	REC8	ENSG00000100918	ENST00000557979	retained_intron	KNOWN	None	16879	None	None	24641344	24649460	1	REC8L1	Rec8p, kleisin-alpha
14	REC8	ENSG00000100918	ENST00000560032	retained_intron	KNOWN	None	16879	None	None	24641491	24642372	1	REC8L1	Rec8p, kleisin-alpha
14	REC8	ENSG00000100918	ENST00000560501	protein_coding	PUTATIVE	None	16879	280	92	24641820	24646093	1	REC8L1	Rec8p, kleisin-alpha
14	REC8	ENSG00000100918	ENST00000558782	retained_intron	KNOWN	None	16879	None	None	24641958	24646956	1	REC8L1	Rec8p, kleisin-alpha
14	REC8	ENSG00000100918	ENST00000558697	retained_intron	KNOWN	None	16879	None	None	24644527	24647124	1	REC8L1	Rec8p, kleisin-alpha
14	REC8	ENSG00000100918	ENST00000560823	retained_intron	KNOWN	None	16879	None	None	24646716	24647306	1	REC8L1	Rec8p, kleisin-alpha
14	REC8	ENSG00000100918	ENST00000559797	non_stop_decay	KNOWN	None	16879	1007	334	24647332	24649460	1	REC8L1	Rec8p, kleisin-alpha
14	REC8	ENSG00000100918	ENST00000558191	retained_intron	KNOWN	None	16879	None	None	24647389	24648894	1	REC8L1	Rec8p, kleisin-alpha
14	REC8	ENSG00000100918	ENST00000559939	processed_transcript	KNOWN	None	16879	None	None	24648642	24649459	1	REC8L1	Rec8p, kleisin-alpha
14	REC8	ENSG00000100918	ENST00000558381	retained_intron	KNOWN	None	16879	None	None	24648734	24649241	1	REC8L1	Rec8p, kleisin-alpha
21	DSCR9	ENSG00000230366	ENST00000581640	lincRNA	KNOWN	None	16301	None	None	38580804	38592989	1	None	NCRNA00038
21	DSCR9	ENSG00000230366	ENST00000578829	lincRNA	KNOWN	None	16301	None	None	38580804	38592996	1	None	NCRNA00038
21	DSCR9	ENSG00000230366	ENST00000585273	lincRNA	KNOWN	None	16301	None	None	38580804	38592997	1	None	NCRNA00038
21	DSCR9	ENSG00000230366	ENST00000584840	lincRNA	KNOWN	None	16301	None	None	38580804	38592998	1	None	NCRNA00038
21	DSCR9	ENSG00000230366	ENST00000454482	lincRNA	KNOWN	None	16301	None	None	38580804	38594037	1	None	NCRNA00038
21	DSCR9	ENSG00000230366	ENST00000543267	lincRNA	KNOWN	None	16301	None	None	38592889	38593843	1	None	NCRNA00038
HSCHR15_1_CTG4	HERC2	ENSG00000263162	ENST00000576337	nonsense_mediated_decay	KNOWN	None	4868	910	302	28356186	28567298	-1	None	jdf2, p528, D15F37S1
HSCHR15_1_CTG4	HERC2	ENSG00000263162	ENST00000576092	protein_coding	KNOWN	None	4868	14505	4834	28356186	28567298	-1	None	jdf2, p528, D15F37S1
HSCHR15_1_CTG4	HERC2	ENSG00000263162	ENST00000574661	retained_intron	KNOWN	None	4868	None	None	28356425	28362697	-1	None	jdf2, p528, D15F37S1
HSCHR15_1_CTG4	HERC2	ENSG00000263162	ENST00000572196	retained_intron	KNOWN	None	4868	None	None	28360427	28363567	-1	None	jdf2, p528, D15F37S1
HSCHR15_1_CTG4	HERC2	ENSG00000263162	ENST00000572577	retained_intron	KNOWN	None	4868	None	None	28435347	28449082	-1	None	jdf2, p528, D15F37S1
HSCHR15_1_CTG4	HERC2	ENSG00000263162	ENST00000575725	nonsense_mediated_decay	KNOWN	None	4868	243	80	28501018	28567295	-1	None	jdf2, p528, D15F37S1
HSCHR15_1_CTG4	HERC2	ENSG00000263162	ENST00000575299	retained_intron	KNOWN	None	4868	None	None	28517190	28518314	-1	None	jdf2, p528, D15F37S1
HSCHR15_1_CTG4	HERC2	ENSG00000263162	ENST00000577060	processed_transcript	KNOWN	None	4868	None	None	28565268	28567265	-1	None	jdf2, p528, D15F37S1
14	ITPK1	ENSG00000100605	ENST00000267615	protein_coding	KNOWN	CCDS9907	6177	1245	414	93403259	93582148	-1	None	None
14	ITPK1	ENSG00000100605	ENST00000354313	protein_coding	KNOWN	CCDS45157	6177	945	314	93403259	93582263	-1	None	None
14	ITPK1	ENSG00000100605	ENST00000556603	protein_coding	KNOWN	CCDS9907	6177	1245	414	93406098	93582216	-1	None	None
14	ITPK1	ENSG00000100605	ENST00000555495	protein_coding	PUTATIVE	None	6177	888	295	93406207	93581624	-1	None	None
14	ITPK1	ENSG00000100605	ENST00000556954	processed_transcript	KNOWN	None	6177	None	None	93412676	93503225	-1	None	None
14	ITPK1	ENSG00000100605	ENST00000553695	processed_transcript	KNOWN	None	6177	None	None	93412804	93465284	-1	None	None
14	ITPK1	ENSG00000100605	ENST00000554999	protein_coding	NOVEL	None	6177	544	180	93424546	93581631	-1	None	None
14	ITPK1	ENSG00000100605	ENST00000556185	protein_coding	NOVEL	None	6177	691	229	93424579	93532703	-1	None	None
14	ITPK1	ENSG00000100605	ENST00000555553	protein_coding	NOVEL	None	6177	618	205	93424616	93581617	-1	None	None
14	ITPK1	ENSG00000100605	ENST00000553452	protein_coding	KNOWN	None	6177	504	167	93428700	93582167	-1	None	None
14	ITPK1	ENSG00000100605	ENST00000557309	protein_coding	KNOWN	None	6177	504	167	93428700	93582665	-1	None	None
14	ITPK1	ENSG00000100605	ENST00000553655	processed_transcript	KNOWN	None	6177	None	None	93429177	93503319	-1	None	None
15	None	ENSG00000259772	ENST00000560812	lincRNA	KNOWN	None	None	None	None	31514202	31521587	-1	None	None
15	None	ENSG00000259772	ENST00000558388	lincRNA	KNOWN	None	None	None	None	31514970	31523041	-1	None	None
15	None	ENSG00000259772	ENST00000559853	lincRNA	KNOWN	None	None	None	None	31514979	31521608	-1	None	None
15	None	ENSG00000259772	ENST00000559094	lincRNA	KNOWN	None	None	None	None	31514999	31523036	-1	None	None
15	None	ENSG00000259772	ENST00000558109	lincRNA	KNOWN	None	None	None	None	31515166	31521613	-1	None	None
4	None	ENSG00000180712	ENST00000317596	lincRNA	KNOWN	None	None	None	None	185261909	185275130	-1	None	None
4	None	ENSG00000180712	ENST00000511465	lincRNA	KNOWN	None	None	None	None	185262843	185269065	-1	None	None
13	TPTE2P1	ENSG00000253771	ENST00000434100	processed_transcript	KNOWN	None	35196	None	None	25498815	25542415	-1	None	None
13	TPTE2P1	ENSG00000253771	ENST00000429698	processed_transcript	KNOWN	None	35196	None	None	25514740	25542625	-1	None	None
13	TPTE2P1	ENSG00000253771	ENST00000435256	transcribed_unprocessed_pseudogene	KNOWN	None	35196	None	None	25525526	25541592	-1	None	None
13	TPTE2P1	ENSG00000253771	ENST00000381871	processed_transcript	KNOWN	None	35196	None	None	25541380	25542593	-1	None	None
9	None	ENSG00000232179	ENST00000415057	unprocessed_pseudogene	KNOWN	None	None	None	None	94871140	94871271	1	None	None
10	ZRANB1	ENSG00000019995	ENST00000359653	protein_coding	KNOWN	CCDS7642	18224	2127	708	126630692	126676758	1	None	TRABID
10	ZRANB1	ENSG00000019995	ENST00000471421	processed_transcript	KNOWN	None	18224	None	None	126669980	126672065	1	None	TRABID
5	UBE2V1P12	ENSG00000249191	ENST00000503954	processed_pseudogene	KNOWN	None	44897	None	None	18886731	18887204	-1	None	None
19	ZNF229	ENSG00000167383	ENST00000591289	processed_transcript	KNOWN	None	13022	None	None	44921685	44952660	-1	None	None
19	ZNF229	ENSG00000167383	ENST00000291187	protein_coding	NOVEL	None	13022	2460	819	44930423	44952766	-1	None	None
19	ZNF229	ENSG00000167383	ENST00000591604	nonsense_mediated_decay	KNOWN	None	13022	252	83	44930427	44952634	-1	None	None
19	ZNF229	ENSG00000167383	ENST00000588931	protein_coding	KNOWN	CCDS42574	13022	2478	825	44930880	44952665	-1	None	None
19	ZNF229	ENSG00000167383	ENST00000592308	protein_coding	PUTATIVE	None	13022	37	11	44936514	44952649	-1	None	None
5	None	ENSG00000249927	ENST00000510057	processed_pseudogene	KNOWN	None	None	None	None	18894011	18894277	-1	None	None
4	WDR1	ENSG00000071127	ENST00000499869	protein_coding	KNOWN	CCDS54740	12754	1821	606	10075963	10118484	-1	None	None
4	WDR1	ENSG00000071127	ENST00000515743	processed_transcript	KNOWN	None	12754	None	None	10076773	10094643	-1	None	None
4	WDR1	ENSG00000071127	ENST00000502702	protein_coding	KNOWN	CCDS54739	12754	1401	466	10076773	10118351	-1	None	None
4	WDR1	ENSG00000071127	ENST00000502962	processed_transcript	KNOWN	None	12754	None	None	10076967	10094779	-1	None	None
4	WDR1	ENSG00000071127	ENST00000506246	processed_transcript	KNOWN	None	12754	None	None	10086048	10094563	-1	None	None
4	WDR1	ENSG00000071127	ENST00000504739	processed_transcript	KNOWN	None	12754	None	None	10086048	10094658	-1	None	None
4	WDR1	ENSG00000071127	ENST00000508949	processed_transcript	KNOWN	None	12754	None	None	10089330	10098202	-1	None	None
4	WDR1	ENSG00000071127	ENST00000505543	processed_transcript	KNOWN	None	12754	None	None	10089330	10098242	-1	None	None
4	WDR1	ENSG00000071127	ENST00000510848	processed_transcript	KNOWN	None	12754	None	None	10089400	10097798	-1	None	None
4	WDR1	ENSG00000071127	ENST00000509695	processed_transcript	KNOWN	None	12754	None	None	10089466	10096520	-1	None	None
4	WDR1	ENSG00000071127	ENST00000508079	protein_coding	PUTATIVE	None	12754	735	244	10089911	10117963	-1	None	None
4	WDR1	ENSG00000071127	ENST00000264785	processed_transcript	KNOWN	None	12754	None	None	10099334	10108180	-1	None	None
4	WDR1	ENSG00000071127	ENST00000505851	processed_transcript	KNOWN	None	12754	None	None	10099336	10118128	-1	None	None
4	WDR1	ENSG00000071127	ENST00000514319	processed_transcript	KNOWN	None	12754	None	None	10099468	10118086	-1	None	None
4	WDR1	ENSG00000071127	ENST00000515018	processed_transcript	KNOWN	None	12754	None	None	10100614	10108123	-1	None	None
4	WDR1	ENSG00000071127	ENST00000509600	retained_intron	KNOWN	None	12754	None	None	10117518	10118492	-1	None	None
4	WDR1	ENSG00000071127	ENST00000382452	protein_coding	KNOWN	None	12754	1821	606	10075964	10118573	-1	None	None
4	WDR1	ENSG00000071127	ENST00000382451	protein_coding	KNOWN	None	12754	1401	466	10075964	10118573	-1	None	None
21	RN7SL678P	ENSG00000263969	ENST00000579533	misc_RNA	KNOWN	None	46694	None	None	38587906	38588202	1	None	None
HG388_HG400_PATCH	FDXACB1	ENSG00000262028	ENST00000573902	protein_coding	KNOWN	None	25110	1875	624	111744779	111749903	-1	None	LOC91893, hCG_2033039
HG388_HG400_PATCH	FDXACB1	ENSG00000262028	ENST00000575366	nonsense_mediated_decay	KNOWN	None	25110	318	105	111745482	111750180	-1	None	LOC91893, hCG_2033039
HG388_HG400_PATCH	FDXACB1	ENSG00000262028	ENST00000575855	protein_coding	PUTATIVE	None	25110	1188	395	111746065	111751966	-1	None	LOC91893, hCG_2033039
21	None	ENSG00000242553	ENST00000440629	processed_transcript	PUTATIVE	None	None	None	None	38593720	38610045	1	None	None
20	None	ENSG00000227431	ENST00000417781	antisense	KNOWN	None	None	None	None	47657000	47662581	-1	None	None
20	None	ENSG00000227431	ENST00000428190	antisense	KNOWN	None	None	None	None	47657000	47662581	-1	None	None
20	None	ENSG00000229766	ENST00000457707	processed_transcript	KNOWN	None	None	None	None	8000549	8008603	1	None	None
HSCHR6_MHC_QBL	LTB	ENSG00000206437	ENST00000383493	protein_coding	KNOWN	None	6711	735	244	31538575	31540445	-1	TNFC	p33, TNFSF3
HSCHR6_MHC_QBL	LTB	ENSG00000206437	ENST00000474845	processed_transcript	KNOWN	None	6711	None	None	31538575	31540447	-1	TNFC	p33, TNFSF3
HSCHR6_MHC_QBL	LTB	ENSG00000206437	ENST00000496326	processed_transcript	KNOWN	None	6711	None	None	31538575	31540542	-1	TNFC	p33, TNFSF3
5	None	ENSG00000249285	ENST00000503897	processed_pseudogene	KNOWN	None	None	None	None	18908975	18909652	1	None	None
21	KCNJ6-IT1	ENSG00000233213	ENST00000435001	sense_intronic	KNOWN	None	41352	None	None	39089405	39091872	-1	None	None
8	None	ENSG00000253670	ENST00000519036	processed_pseudogene	KNOWN	None	None	None	None	24998909	24999483	-1	None	None
21	None	ENSG00000264691	ENST00000584697	miRNA	NOVEL	None	None	None	None	39334968	39335068	1	None	None
7	GLCCI1	ENSG00000106415	ENST00000223145	protein_coding	KNOWN	CCDS34601	18713	1644	547	8008425	8128710	1	None	GIG18, FAM117C, TSSN1
7	GLCCI1	ENSG00000106415	ENST00000414914	protein_coding	PUTATIVE	None	18713	575	190	8009318	8110585	1	None	GIG18, FAM117C, TSSN1
7	GLCCI1	ENSG00000106415	ENST00000430798	protein_coding	PUTATIVE	None	18713	581	192	8009318	8110640	1	None	GIG18, FAM117C, TSSN1
7	GLCCI1	ENSG00000106415	ENST00000492797	retained_intron	KNOWN	None	18713	None	None	8009338	8062354	1	None	GIG18, FAM117C, TSSN1
7	GLCCI1	ENSG00000106415	ENST00000460897	retained_intron	KNOWN	None	18713	None	None	8009367	8043877	1	None	GIG18, FAM117C, TSSN1
7	GLCCI1	ENSG00000106415	ENST00000470583	processed_transcript	KNOWN	None	18713	None	None	8010072	8099862	1	None	GIG18, FAM117C, TSSN1
7	GLCCI1	ENSG00000106415	ENST00000474269	processed_transcript	KNOWN	None	18713	None	None	8010083	8110578	1	None	GIG18, FAM117C, TSSN1
7	GLCCI1	ENSG00000106415	ENST00000489405	retained_intron	KNOWN	None	18713	None	None	8043527	8126569	1	None	GIG18, FAM117C, TSSN1
7	GLCCI1	ENSG00000106415	ENST00000438949	nonsense_mediated_decay	KNOWN	None	18713	574	190	8095137	8133902	1	None	GIG18, FAM117C, TSSN1
7	GLCCI1	ENSG00000106415	ENST00000496617	processed_transcript	KNOWN	None	18713	None	None	8095362	8118372	1	None	GIG18, FAM117C, TSSN1
7	GLCCI1	ENSG00000106415	ENST00000482540	retained_intron	KNOWN	None	18713	None	None	8109705	8128707	1	None	GIG18, FAM117C, TSSN1
7	GLCCI1	ENSG00000106415	ENST00000491947	retained_intron	KNOWN	None	18713	None	None	8124269	8125870	1	None	GIG18, FAM117C, TSSN1
21	DSCR4-IT1	ENSG00000223608	ENST00000417138	sense_intronic	KNOWN	None	41328	None	None	39378846	39382920	-1	None	None
HSCHR18_1_CTG2_1	None	ENSG00000262104	ENST00000573043	misc_RNA	NOVEL	None	None	None	None	76304096	76304188	-1	None	None
21	None	ENSG00000238581	ENST00000459411	snoRNA	NOVEL	None	None	None	None	39559551	39559656	-1	None	None
14	None	ENSG00000239686	ENST00000488313	processed_pseudogene	KNOWN	None	None	None	None	55749014	55749361	-1	None	None
6	None	ENSG00000227844	ENST00000419926	antisense	KNOWN	None	None	None	None	136364990	136393965	-1	None	None
6	None	ENSG00000227844	ENST00000413745	antisense	KNOWN	None	None	None	None	136365602	136385776	-1	None	None
6	RPL7P26	ENSG00000184612	ENST00000333817	processed_pseudogene	KNOWN	None	36630	None	None	17531130	17531883	-1	None	None
21	None	ENSG00000270835	ENST00000605450	processed_pseudogene	KNOWN	None	None	None	None	39576638	39577700	-1	None	None
GL000236.1	None	ENSG00000215713	ENST00000400789	processed_pseudogene	NOVEL	None	None	None	None	5815	7152	1	None	None
X	RN7SKP31	ENSG00000252163	ENST00000516354	misc_RNA	KNOWN	None	45755	None	None	137479510	137479787	1	None	None
5	None	ENSG00000250765	ENST00000509192	lincRNA	KNOWN	None	None	None	None	180756242	180769214	1	None	None
13	SLC25A15P3	ENSG00000251299	ENST00000505530	unprocessed_pseudogene	KNOWN	None	39844	None	None	25517713	25518636	1	None	None
21	DSCR10	ENSG00000233316	ENST00000432141	lincRNA	KNOWN	None	16302	None	None	39578250	39580738	1	None	None
21	DSCR10	ENSG00000233316	ENST00000538415	lincRNA	KNOWN	None	16302	None	None	39580229	39580554	1	None	None
X	MAGEA13P	ENSG00000183981	ENST00000418272	processed_pseudogene	KNOWN	None	35154	None	None	137564903	137565853	1	None	LOC139363
X	MAGEA13P	ENSG00000183981	ENST00000340794	processed_pseudogene	KNOWN	None	35154	None	None	137564903	137565955	1	None	LOC139363
6	None	ENSG00000218359	ENST00000403109	processed_pseudogene	KNOWN	None	None	None	None	17582265	17582536	1	None	None
18	LPIN2	ENSG00000101577	ENST00000261596	protein_coding	KNOWN	CCDS11829	14450	2691	896	2916992	3011945	-1	None	KIAA0249
18	LPIN2	ENSG00000101577	ENST00000584294	protein_coding	KNOWN	None	14450	698	231	2940603	3013313	-1	None	KIAA0249
18	LPIN2	ENSG00000101577	ENST00000584915	protein_coding	PUTATIVE	None	14450	387	128	2954514	2982871	-1	None	KIAA0249
18	LPIN2	ENSG00000101577	ENST00000581568	processed_transcript	PUTATIVE	None	14450	None	None	2972358	2982807	-1	None	KIAA0249
20	ARPC3P1	ENSG00000226284	ENST00000437218	processed_pseudogene	KNOWN	None	16092	None	None	47751017	47751549	1	ARPC3B	dJ470L14.3
5	WBP1LP4	ENSG00000251035	ENST00000505043	processed_pseudogene	KNOWN	None	43951	None	None	180805696	180806039	-1	None	None
19	CLEC11A	ENSG00000105472	ENST00000250340	protein_coding	KNOWN	CCDS12800	10576	972	323	51226586	51228974	1	SCGF	P47, LSLCL, CLECSF3
19	CLEC11A	ENSG00000105472	ENST00000599973	protein_coding	NOVEL	None	10576	954	317	51226780	51228726	1	SCGF	P47, LSLCL, CLECSF3
6	RNU6-190P	ENSG00000206881	ENST00000384154	snRNA	KNOWN	None	47153	None	None	17619764	17619865	1	None	None
14	RNU6-273P	ENSG00000252746	ENST00000516937	snRNA	KNOWN	None	47236	None	None	37656424	37656519	1	None	None
21	None	ENSG00000226012	ENST00000444977	lincRNA	KNOWN	None	None	None	None	39609139	39610123	-1	None	None
HG7_PATCH	TRBV11-3	ENSG00000260705	ENST00000565202	TR_V_gene	KNOWN	None	12182	347	114	142296465	142296947	1	None	TRBV113, TCRBV11S3, TCRBV21S2A2
13	RPL34P27	ENSG00000232858	ENST00000428810	processed_pseudogene	KNOWN	None	36369	None	None	25562715	25563063	-1	None	None
20	PHKBP1	ENSG00000226262	ENST00000450951	processed_pseudogene	KNOWN	None	8928	None	None	8078471	8080421	-1	None	None
HSCHR1_1_CTG31	GATAD2B	ENSG00000261992	ENST00000576342	protein_coding	KNOWN	None	30778	1782	593	153794432	153912682	-1	None	P66beta
15	None	ENSG00000235518	ENST00000451816	lincRNA	KNOWN	None	None	None	None	26902177	26903910	-1	None	None
21	SPATA20P1	ENSG00000231123	ENST00000423089	processed_pseudogene	KNOWN	None	39636	None	None	39610149	39610586	-1	None	None
3	COL8A1	ENSG00000144810	ENST00000463753	processed_transcript	KNOWN	None	2215	None	None	99357319	99399306	1	C3orf7	MGC9568
3	COL8A1	ENSG00000144810	ENST00000483969	processed_transcript	KNOWN	None	2215	None	None	99357319	99410715	1	C3orf7	MGC9568
3	COL8A1	ENSG00000144810	ENST00000474648	processed_transcript	KNOWN	None	2215	None	None	99357319	99422462	1	C3orf7	MGC9568
3	COL8A1	ENSG00000144810	ENST00000452013	protein_coding	KNOWN	None	2215	341	112	99357319	99513086	1	C3orf7	MGC9568
3	COL8A1	ENSG00000144810	ENST00000261037	protein_coding	KNOWN	CCDS2934	2215	2235	744	99357319	99518070	1	C3orf7	MGC9568
3	COL8A1	ENSG00000144810	ENST00000462604	processed_transcript	PUTATIVE	None	2215	None	None	99425915	99463831	1	C3orf7	MGC9568
3	COL8A1	ENSG00000144810	ENST00000273342	protein_coding	KNOWN	CCDS2934	2215	2235	744	99357454	99515158	1	C3orf7	MGC9568
14	None	ENSG00000258977	ENST00000554211	lincRNA	KNOWN	None	None	None	None	82071691	82089405	-1	None	None
5	None	ENSG00000249588	ENST00000515504	lincRNA	KNOWN	None	None	None	None	67819705	67825834	1	None	None
14	CHMP4BP1	ENSG00000258469	ENST00000556017	processed_pseudogene	KNOWN	None	43616	None	None	55765362	55765949	1	None	None
HG7_PATCH	TRBV12-3	ENSG00000260904	ENST00000566020	TR_V_gene	KNOWN	None	12185	347	114	142302038	142302543	1	None	TRBV123, TCRBV12S3, TCRBV8S1
X	RPL7AP72	ENSG00000235735	ENST00000417266	processed_pseudogene	KNOWN	None	36442	None	None	127447259	127448026	1	None	None
13	None	ENSG00000256305	ENST00000545020	pseudogene	NOVEL	None	None	None	None	25715794	25716046	1	None	None
8	RN7SL651P	ENSG00000241811	ENST00000492765	misc_RNA	KNOWN	None	46667	None	None	25038946	25039235	-1	None	None
21	None	ENSG00000231231	ENST00000414189	lincRNA	KNOWN	None	None	None	None	39695557	39705286	-1	None	None
21	None	ENSG00000231231	ENST00000436845	lincRNA	KNOWN	None	None	None	None	39698274	39705343	-1	None	None
19	ZNF433	ENSG00000197647	ENST00000419886	protein_coding	KNOWN	None	20811	1917	638	12125547	12146503	-1	None	FLJ40981
19	ZNF433	ENSG00000197647	ENST00000344980	protein_coding	KNOWN	CCDS45983	20811	2022	673	12125573	12146525	-1	None	FLJ40981
19	ZNF433	ENSG00000197647	ENST00000550507	protein_coding	NOVEL	None	20811	621	206	12127052	12146518	-1	None	FLJ40981
19	ZNF433	ENSG00000197647	ENST00000455504	protein_coding	PUTATIVE	None	20811	498	165	12127217	12146484	-1	None	FLJ40981
19	ZNF433	ENSG00000197647	ENST00000552904	protein_coding	KNOWN	None	20811	358	118	12127219	12146493	-1	None	FLJ40981
19	ZNF433	ENSG00000197647	ENST00000548669	nonsense_mediated_decay	KNOWN	None	20811	126	41	12127227	12146511	-1	None	FLJ40981
19	ZNF433	ENSG00000197647	ENST00000478765	protein_coding	PUTATIVE	None	20811	352	116	12127363	12129492	-1	None	FLJ40981
19	ZNF433	ENSG00000197647	ENST00000547560	protein_coding	KNOWN	None	20811	157	51	12127420	12146491	-1	None	FLJ40981
19	ZNF433	ENSG00000197647	ENST00000550745	protein_coding	PUTATIVE	None	20811	232	76	12127447	12146527	-1	None	FLJ40981
19	ZNF433	ENSG00000197647	ENST00000411841	protein_coding	PUTATIVE	None	20811	231	76	12129006	12146556	-1	None	FLJ40981
6	PNPLA1	ENSG00000180316	ENST00000312917	protein_coding	NOVEL	CCDS47416	21246	1341	446	36210980	36275531	1	None	FLJ38755, dJ50J22.1
6	PNPLA1	ENSG00000180316	ENST00000388715	protein_coding	KNOWN	CCDS34438	21246	1314	437	36210980	36276372	1	None	FLJ38755, dJ50J22.1
6	PNPLA1	ENSG00000180316	ENST00000457797	protein_coding	KNOWN	None	21246	1602	533	36238237	36275493	1	None	FLJ38755, dJ50J22.1
6	PNPLA1	ENSG00000180316	ENST00000394571	protein_coding	KNOWN	CCDS54997	21246	1599	532	36238237	36276372	1	None	FLJ38755, dJ50J22.1
14	None	ENSG00000258455	ENST00000555514	antisense	KNOWN	None	None	None	None	55792552	55806219	-1	None	None
HSCHR6_MHC_COX	GPR53P	ENSG00000237698	ENST00000458553	processed_pseudogene	KNOWN	None	4509	None	None	29502069	29503152	-1	None	PsiGPR53, dJ271M21.8
10	PPIAP30	ENSG00000206448	ENST00000415473	processed_pseudogene	KNOWN	None	44878	None	None	15196801	15197319	-1	None	None
8	RNU6-703P	ENSG00000252755	ENST00000516946	snRNA	KNOWN	None	47666	None	None	99061084	99061190	1	None	None
14	RNU6-886P	ENSG00000207046	ENST00000384319	snRNA	KNOWN	None	47849	None	None	37903674	37903778	-1	None	None
16	APRT	ENSG00000198931	ENST00000378364	protein_coding	KNOWN	CCDS32511	626	543	180	88875747	88878352	-1	None	None
16	APRT	ENSG00000198931	ENST00000567713	protein_coding	PUTATIVE	None	626	446	147	88875819	88878331	-1	None	None
16	APRT	ENSG00000198931	ENST00000567057	retained_intron	KNOWN	None	626	None	None	88875877	88876676	-1	None	None
16	APRT	ENSG00000198931	ENST00000426324	protein_coding	KNOWN	CCDS45546	626	405	134	88875877	88878333	-1	None	None
16	APRT	ENSG00000198931	ENST00000567391	nonsense_mediated_decay	KNOWN	None	626	192	63	88875877	88878336	-1	None	None
16	APRT	ENSG00000198931	ENST00000568319	nonsense_mediated_decay	KNOWN	None	626	192	63	88875877	88878345	-1	None	None
16	APRT	ENSG00000198931	ENST00000563655	protein_coding	PUTATIVE	None	626	462	153	88875880	88878328	-1	None	None
16	APRT	ENSG00000198931	ENST00000569616	protein_coding	PUTATIVE	None	626	487	161	88875926	88878305	-1	None	None
16	APRT	ENSG00000198931	ENST00000568575	retained_intron	KNOWN	None	626	None	None	88876088	88876806	-1	None	None
16	APRT	ENSG00000198931	ENST00000562464	retained_intron	KNOWN	None	626	None	None	88876144	88878288	-1	None	None
16	APRT	ENSG00000198931	ENST00000564858	retained_intron	KNOWN	None	626	None	None	88877582	88878328	-1	None	None
8	None	ENSG00000253476	ENST00000523840	lincRNA	KNOWN	None	None	None	None	25283037	25284096	-1	None	None
16	SNORA64	ENSG00000207405	ENST00000384674	snoRNA	KNOWN	None	10221	None	None	2012974	2013107	-1	RNU64	U64
3	MSL2	ENSG00000174579	ENST00000309993	protein_coding	KNOWN	CCDS33861	25544	1734	577	135867764	135914688	-1	RNF184, MSL2L1	FLJ10546, KIAA1585, msl-2
3	MSL2	ENSG00000174579	ENST00000434835	protein_coding	NOVEL	CCDS46922	25544	1512	503	135869469	135913396	-1	RNF184, MSL2L1	FLJ10546, KIAA1585, msl-2
3	MSL2	ENSG00000174579	ENST00000481989	protein_coding	PUTATIVE	None	25544	463	153	135871038	135916083	-1	RNF184, MSL2L1	FLJ10546, KIAA1585, msl-2
3	MSL2	ENSG00000174579	ENST00000491050	protein_coding	PUTATIVE	None	25544	447	148	135871054	135915431	-1	RNF184, MSL2L1	FLJ10546, KIAA1585, msl-2
3	MSL2	ENSG00000174579	ENST00000473093	protein_coding	PUTATIVE	None	25544	285	94	135871216	135915169	-1	RNF184, MSL2L1	FLJ10546, KIAA1585, msl-2
8	OR7E158P	ENSG00000254948	ENST00000524483	processed_pseudogene	KNOWN	None	31232	None	None	11777409	11778318	-1	None	None
16	None	ENSG00000255513	ENST00000530779	transcribed_processed_pseudogene	KNOWN	None	None	None	None	2013746	2014096	-1	None	None
8	None	ENSG00000253100	ENST00000517964	lincRNA	KNOWN	None	None	None	None	25543314	25545040	1	None	None
9	ACTL7A	ENSG00000187003	ENST00000333999	protein_coding	KNOWN	CCDS6772	161	1308	435	111624603	111626035	1	None	None
9	RBPJP6	ENSG00000227924	ENST00000411556	processed_pseudogene	KNOWN	None	37486	None	None	44471985	44473415	1	None	None
11	MMP13	ENSG00000137745	ENST00000260302	protein_coding	NOVEL	CCDS8324	7159	1416	471	102813724	102826463	-1	None	CLG3
11	MMP13	ENSG00000137745	ENST00000340273	protein_coding	NOVEL	None	7159	1470	489	102815059	102826434	-1	None	CLG3
5	CCT5	ENSG00000150753	ENST00000280326	protein_coding	KNOWN	CCDS3877	1618	1626	541	10250033	10266524	1	None	KIAA0098
5	CCT5	ENSG00000150753	ENST00000503026	protein_coding	PUTATIVE	None	1618	1563	520	10250041	10265190	1	None	KIAA0098
5	CCT5	ENSG00000150753	ENST00000515390	protein_coding	NOVEL	None	1618	1461	486	10250328	10265037	1	None	KIAA0098
5	CCT5	ENSG00000150753	ENST00000511700	nonsense_mediated_decay	KNOWN	None	1618	267	88	10250355	10258359	1	None	KIAA0098
5	CCT5	ENSG00000150753	ENST00000508451	retained_intron	KNOWN	None	1618	None	None	10250421	10255142	1	None	KIAA0098
5	CCT5	ENSG00000150753	ENST00000510326	retained_intron	KNOWN	None	1618	None	None	10250431	10254696	1	None	KIAA0098
5	CCT5	ENSG00000150753	ENST00000512975	nonsense_mediated_decay	KNOWN	None	1618	135	44	10250431	10261011	1	None	KIAA0098
5	CCT5	ENSG00000150753	ENST00000423695	retained_intron	KNOWN	None	1618	None	None	10250431	10262313	1	None	KIAA0098
5	CCT5	ENSG00000150753	ENST00000503454	nonsense_mediated_decay	KNOWN	None	1618	188	61	10250472	10258647	1	None	KIAA0098
5	CCT5	ENSG00000150753	ENST00000515676	protein_coding	PUTATIVE	None	1618	1512	503	10250649	10265014	1	None	KIAA0098
5	CCT5	ENSG00000150753	ENST00000506600	protein_coding	PUTATIVE	None	1618	1347	448	10250651	10265123	1	None	KIAA0098
5	CCT5	ENSG00000150753	ENST00000514674	retained_intron	KNOWN	None	1618	None	None	10257998	10258647	1	None	KIAA0098
5	CCT5	ENSG00000150753	ENST00000509846	retained_intron	KNOWN	None	1618	None	None	10258498	10261299	1	None	KIAA0098
5	CCT5	ENSG00000150753	ENST00000511995	retained_intron	KNOWN	None	1618	None	None	10262087	10265033	1	None	KIAA0098
22	PLA2G3	ENSG00000100078	ENST00000215885	protein_coding	KNOWN	CCDS13889	17934	1530	509	31530795	31536593	-1	None	GIII-SPLA2
14	None	ENSG00000259087	ENST00000553425	lincRNA	KNOWN	None	None	None	None	38025363	38028689	-1	None	None
14	None	ENSG00000259087	ENST00000556024	lincRNA	KNOWN	None	None	None	None	38025363	38036300	-1	None	None
6	None	ENSG00000224345	ENST00000420494	antisense	KNOWN	None	None	None	None	88410228	88411243	1	None	None
7	LRRD1	ENSG00000240720	ENST00000422722	processed_transcript	KNOWN	None	34300	None	None	91741473	91808825	-1	None	IMAGE:4798971
7	LRRD1	ENSG00000240720	ENST00000343318	protein_coding	KNOWN	None	34300	351	116	91770957	91808845	-1	None	IMAGE:4798971
7	LRRD1	ENSG00000240720	ENST00000458448	protein_coding	KNOWN	CCDS55124	34300	2583	860	91774156	91808447	-1	None	IMAGE:4798971
7	LRRD1	ENSG00000240720	ENST00000437357	protein_coding	KNOWN	None	34300	177	58	91794340	91808441	-1	None	IMAGE:4798971
7	LRRD1	ENSG00000240720	ENST00000430130	protein_coding	KNOWN	CCDS55124	34300	2583	860	91774198	91794590	-1	None	IMAGE:4798971
7	LRRD1	ENSG00000240720	ENST00000454089	protein_coding	KNOWN	None	34300	354	117	91779221	91794590	-1	None	IMAGE:4798971
16	SNHG9	ENSG00000255198	ENST00000531523	lincRNA	KNOWN	None	33102	None	None	2014960	2015510	1	None	DKFZp686N06141, NCRNA00062
16	SNHG9	ENSG00000255198	ENST00000564014	lincRNA	KNOWN	None	33102	None	None	2015035	2015505	1	None	DKFZp686N06141, NCRNA00062
16	SNHG9	ENSG00000255198	ENST00000459373	snoRNA	KNOWN	None	33102	None	None	2015185	2015311	1	None	DKFZp686N06141, NCRNA00062
14	None	ENSG00000259318	ENST00000559320	processed_pseudogene	KNOWN	None	None	None	None	55861658	55861951	-1	None	None
9	None	ENSG00000227353	ENST00000448325	processed_pseudogene	KNOWN	None	None	None	None	44477549	44478456	-1	None	None
8	RNU6-914P	ENSG00000252558	ENST00000516749	snRNA	KNOWN	None	47877	None	None	99204433	99204541	-1	None	None
19	CLASRP	ENSG00000104859	ENST00000221455	protein_coding	KNOWN	CCDS12652	17731	2025	674	45542298	45574214	1	SFRS16	SWAP2, CLASP
19	CLASRP	ENSG00000104859	ENST00000391953	protein_coding	NOVEL	None	17731	1839	612	45542304	45574113	1	SFRS16	SWAP2, CLASP
19	CLASRP	ENSG00000104859	ENST00000592056	retained_intron	KNOWN	None	17731	None	None	45542308	45556345	1	SFRS16	SWAP2, CLASP
19	CLASRP	ENSG00000104859	ENST00000591410	nonsense_mediated_decay	KNOWN	None	17731	246	81	45542308	45563700	1	SFRS16	SWAP2, CLASP
19	CLASRP	ENSG00000104859	ENST00000391952	nonsense_mediated_decay	KNOWN	None	17731	1785	594	45542323	45574214	1	SFRS16	SWAP2, CLASP
19	CLASRP	ENSG00000104859	ENST00000588247	retained_intron	KNOWN	None	17731	None	None	45542332	45544005	1	SFRS16	SWAP2, CLASP
19	CLASRP	ENSG00000104859	ENST00000588936	protein_coding	KNOWN	None	17731	260	85	45542332	45556111	1	SFRS16	SWAP2, CLASP
19	CLASRP	ENSG00000104859	ENST00000544944	protein_coding	NOVEL	None	17731	1968	655	45542779	45574212	1	SFRS16	SWAP2, CLASP
19	CLASRP	ENSG00000104859	ENST00000587112	nonsense_mediated_decay	KNOWN	None	17731	567	188	45543528	45567304	1	SFRS16	SWAP2, CLASP
19	CLASRP	ENSG00000104859	ENST00000588016	retained_intron	KNOWN	None	17731	None	None	45556058	45561511	1	SFRS16	SWAP2, CLASP
19	CLASRP	ENSG00000104859	ENST00000585432	retained_intron	KNOWN	None	17731	None	None	45570729	45571438	1	SFRS16	SWAP2, CLASP
19	CLASRP	ENSG00000104859	ENST00000585615	retained_intron	KNOWN	None	17731	None	None	45571460	45574200	1	SFRS16	SWAP2, CLASP
19	CLASRP	ENSG00000104859	ENST00000591904	protein_coding	NOVEL	None	17731	396	131	45571678	45574213	1	SFRS16	SWAP2, CLASP
19	CLASRP	ENSG00000104859	ENST00000587472	retained_intron	KNOWN	None	17731	None	None	45572341	45574131	1	SFRS16	SWAP2, CLASP
19	CLASRP	ENSG00000104859	ENST00000592876	retained_intron	KNOWN	None	17731	None	None	45572904	45574086	1	SFRS16	SWAP2, CLASP
19	CLASRP	ENSG00000104859	ENST00000588070	retained_intron	KNOWN	None	17731	None	None	45573097	45574214	1	SFRS16	SWAP2, CLASP
6	None	ENSG00000200706	ENST00000363836	snoRNA	NOVEL	None	None	None	None	38175050	38175121	1	None	None
15	None	ENSG00000242793	ENST00000478962	processed_pseudogene	KNOWN	None	None	None	None	27096279	27096757	-1	None	None
6	None	ENSG00000238628	ENST00000459219	snoRNA	NOVEL	None	None	None	None	88430633	88430736	1	None	None
6	TFAP2D	ENSG00000008197	ENST00000008391	protein_coding	KNOWN	CCDS4933	15581	1359	452	50681541	50740701	1	TFAP2BL1	None
6	TFAP2D	ENSG00000008197	ENST00000492804	processed_transcript	KNOWN	None	15581	None	None	50685755	50718987	1	TFAP2BL1	None
8	None	ENSG00000254267	ENST00000518704	lincRNA	KNOWN	None	None	None	None	99383583	99400475	-1	None	None
11	PSMD13	ENSG00000185627	ENST00000532097	protein_coding	KNOWN	CCDS7692	9558	1131	376	236546	252956	1	None	p40.5, Rpn9
11	PSMD13	ENSG00000185627	ENST00000529372	nonsense_mediated_decay	KNOWN	None	9558	342	113	236966	248791	1	None	p40.5, Rpn9
11	PSMD13	ENSG00000185627	ENST00000534590	retained_intron	KNOWN	None	9558	None	None	236977	247300	1	None	p40.5, Rpn9
11	PSMD13	ENSG00000185627	ENST00000431206	protein_coding	KNOWN	CCDS44504	9558	1137	378	236977	252981	1	None	p40.5, Rpn9
11	PSMD13	ENSG00000185627	ENST00000528906	protein_coding	NOVEL	None	9558	789	262	236981	251611	1	None	p40.5, Rpn9
11	PSMD13	ENSG00000185627	ENST00000525665	nonsense_mediated_decay	KNOWN	None	9558	213	70	237000	252966	1	None	p40.5, Rpn9
11	PSMD13	ENSG00000185627	ENST00000527047	retained_intron	KNOWN	None	9558	None	None	237004	248197	1	None	p40.5, Rpn9
11	PSMD13	ENSG00000185627	ENST00000352303	protein_coding	NOVEL	None	9558	1050	349	237026	252953	1	None	p40.5, Rpn9
11	PSMD13	ENSG00000185627	ENST00000382671	nonsense_mediated_decay	KNOWN	None	9558	219	72	237038	252981	1	None	p40.5, Rpn9
11	PSMD13	ENSG00000185627	ENST00000526783	protein_coding	NOVEL	None	9558	665	220	244429	252827	1	None	p40.5, Rpn9
11	PSMD13	ENSG00000185627	ENST00000533717	retained_intron	KNOWN	None	9558	None	None	248607	251894	1	None	p40.5, Rpn9
11	PSMD13	ENSG00000185627	ENST00000527982	retained_intron	KNOWN	None	9558	None	None	250784	252983	1	None	p40.5, Rpn9
11	PSMD13	ENSG00000185627	ENST00000532025	processed_transcript	KNOWN	None	9558	None	None	251227	252845	1	None	p40.5, Rpn9
11	PSMD13	ENSG00000185627	ENST00000529679	retained_intron	KNOWN	None	9558	None	None	251543	252617	1	None	p40.5, Rpn9
14	RPL21P6	ENSG00000239199	ENST00000479171	processed_pseudogene	KNOWN	None	23542	None	None	55880274	55880777	-1	None	None
6	None	ENSG00000238716	ENST00000458769	miRNA	NOVEL	None	None	None	None	38326924	38327005	-1	None	None
6	None	ENSG00000207131	ENST00000384402	misc_RNA	NOVEL	None	None	None	None	88535891	88536003	-1	None	None
19	GPR32	ENSG00000142511	ENST00000270590	protein_coding	KNOWN	CCDS12801	4487	1071	356	51273721	51274989	1	None	RVDR1
6	RN7SL183P	ENSG00000240997	ENST00000488870	misc_RNA	KNOWN	None	46199	None	None	88555368	88555663	1	None	None
6	BTBD9-AS1	ENSG00000226533	ENST00000412822	antisense	KNOWN	None	40959	None	None	38449468	38450307	1	None	None
8	None	ENSG00000253468	ENST00000518956	processed_pseudogene	KNOWN	None	None	None	None	99425110	99426012	-1	None	None
8	OR7E161P	ENSG00000206014	ENST00000533722	processed_pseudogene	KNOWN	None	31234	None	None	11786106	11787072	-1	None	None
8	OR7E161P	ENSG00000206014	ENST00000341827	processed_pseudogene	KNOWN	None	31234	None	None	11786101	11787015	-1	None	None
X	KRT8P6	ENSG00000214930	ENST00000399259	processed_pseudogene	KNOWN	None	33360	None	None	137569824	137571030	-1	None	None
6	None	ENSG00000211983	ENST00000390694	miRNA	NOVEL	None	None	None	None	88557263	88557350	-1	None	None
6	None	ENSG00000199938	ENST00000363068	misc_RNA	NOVEL	None	None	None	None	38533726	38533831	1	None	None
X	None	ENSG00000252291	ENST00000516482	snoRNA	NOVEL	None	None	None	None	5979685	5979790	-1	None	None
6	None	ENSG00000217227	ENST00000404701	processed_pseudogene	KNOWN	None	None	None	None	38555099	38556305	1	None	None
X	None	ENSG00000229818	ENST00000453006	processed_pseudogene	KNOWN	None	None	None	None	6299196	6299350	-1	None	None
8	None	ENSG00000253342	ENST00000522524	lincRNA	KNOWN	None	None	None	None	25634195	25634972	1	None	None
X	None	ENSG00000225689	ENST00000449485	lincRNA	KNOWN	None	None	None	None	127457598	127734446	-1	None	None
5	CSNK1A1P3	ENSG00000250162	ENST00000504105	processed_pseudogene	KNOWN	None	38669	None	None	98169086	98169415	1	None	None
X	None	ENSG00000225962	ENST00000430377	processed_pseudogene	KNOWN	None	None	None	None	6299515	6299685	-1	None	None
X	MAGEB10	ENSG00000177689	ENST00000356790	protein_coding	KNOWN	CCDS35221	25377	1044	347	27826107	27841131	1	None	FLJ32965
16	MT1X	ENSG00000187193	ENST00000394485	protein_coding	KNOWN	CCDS10768	7405	186	61	56716336	56718108	1	MT1	MT-1l
16	MT1X	ENSG00000187193	ENST00000562939	protein_coding	PUTATIVE	None	7405	141	46	56716382	56717515	1	MT1	MT-1l
16	MT1X	ENSG00000187193	ENST00000568370	retained_intron	KNOWN	None	7405	None	None	56716382	56718108	1	MT1	MT-1l
16	MT1X	ENSG00000187193	ENST00000564974	nonsense_mediated_decay	KNOWN	None	7405	141	46	56716393	56718108	1	MT1	MT-1l
10	None	ENSG00000215002	ENST00000399415	processed_pseudogene	KNOWN	None	None	None	None	108309864	108310879	1	None	None
19	PALM	ENSG00000099864	ENST00000264560	protein_coding	KNOWN	CCDS32858	8594	1032	343	708953	748328	1	None	KIAA0270
19	PALM	ENSG00000099864	ENST00000587219	retained_intron	KNOWN	None	8594	None	None	708975	727390	1	None	KIAA0270
19	PALM	ENSG00000099864	ENST00000592870	retained_intron	KNOWN	None	8594	None	None	709097	735048	1	None	KIAA0270
19	PALM	ENSG00000099864	ENST00000338448	protein_coding	KNOWN	CCDS32857	8594	1164	387	709101	748329	1	None	KIAA0270
19	PALM	ENSG00000099864	ENST00000586055	processed_transcript	KNOWN	None	8594	None	None	719078	726173	1	None	KIAA0270
19	PALM	ENSG00000099864	ENST00000586776	processed_transcript	KNOWN	None	8594	None	None	722504	727088	1	None	KIAA0270
19	PALM	ENSG00000099864	ENST00000589012	retained_intron	KNOWN	None	8594	None	None	726138	736139	1	None	KIAA0270
19	PALM	ENSG00000099864	ENST00000606643	processed_transcript	KNOWN	None	8594	None	None	726139	748326	1	None	KIAA0270
19	PALM	ENSG00000099864	ENST00000593172	processed_transcript	KNOWN	None	8594	None	None	727786	747298	1	None	KIAA0270
19	PALM	ENSG00000099864	ENST00000592155	processed_transcript	KNOWN	None	8594	None	None	735030	746771	1	None	KIAA0270
19	PALM	ENSG00000099864	ENST00000590161	processed_transcript	KNOWN	None	8594	None	None	735033	746771	1	None	KIAA0270
19	PALM	ENSG00000099864	ENST00000587513	processed_transcript	KNOWN	None	8594	None	None	735055	746609	1	None	KIAA0270
X	MIR4770	ENSG00000265284	ENST00000579149	miRNA	KNOWN	None	41542	None	None	6301947	6302004	-1	None	hsa-mir-4770
13	None	ENSG00000234056	ENST00000413501	lincRNA	KNOWN	None	None	None	None	25746966	25754217	-1	None	None
5	RNU6-402P	ENSG00000222610	ENST00000410678	snRNA	KNOWN	None	47365	None	None	98225435	98225537	1	None	None
14	None	ENSG00000258414	ENST00000554829	lincRNA	KNOWN	None	None	None	None	38033252	38048330	1	None	None
6	None	ENSG00000272269	ENST00000606771	antisense	KNOWN	None	None	None	None	17706488	17707575	1	None	None
X	None	ENSG00000237730	ENST00000437297	processed_pseudogene	KNOWN	None	None	None	None	6340133	6340742	-1	None	None
9	MIR4672	ENSG00000263979	ENST00000583126	miRNA	KNOWN	None	41662	None	None	130631694	130631774	-1	None	hsa-mir-4672
5	None	ENSG00000248489	ENST00000513175	lincRNA	KNOWN	None	None	None	None	98264875	98330717	1	None	None
19	ACPT	ENSG00000142513	ENST00000270593	protein_coding	NOVEL	CCDS12802	14376	1281	426	51293672	51298481	1	None	None
19	ACPT	ENSG00000142513	ENST00000270594	protein_coding	KNOWN	None	14376	1002	333	51293672	51298481	1	None	None
14	SAMD15	ENSG00000100583	ENST00000533095	protein_coding	PUTATIVE	None	18631	267	88	77843032	77857611	1	FAM15A, C14orf174	FLJ35963
14	SAMD15	ENSG00000100583	ENST00000216471	protein_coding	KNOWN	CCDS32126	18631	2025	674	77843476	77857840	1	FAM15A, C14orf174	FLJ35963
15	TVP23BP1	ENSG00000259122	ENST00000557500	unprocessed_pseudogene	KNOWN	None	31127	None	None	27210064	27215532	1	FAM18B3P	None
13	None	ENSG00000238169	ENST00000457628	antisense	KNOWN	None	None	None	None	25755579	25763898	1	None	None
6	RNA5SP204	ENSG00000201415	ENST00000364545	rRNA	KNOWN	None	43104	None	None	17722017	17722134	-1	RN5S204	None
5	None	ENSG00000200351	ENST00000363481	misc_RNA	NOVEL	None	None	None	None	98272342	98272451	-1	None	None
6	None	ENSG00000201442	ENST00000364572	misc_RNA	NOVEL	None	None	None	None	17737689	17737790	-1	None	None
11	None	ENSG00000205106	ENST00000378779	protein_coding	PUTATIVE	None	None	363	120	45792983	45793909	1	None	None
HG79_PATCH	MED22	ENSG00000261579	ENST00000570094	protein_coding	KNOWN	None	11477	423	140	136216440	136223652	-1	SURF5	Med24
HG79_PATCH	MED22	ENSG00000261579	ENST00000567581	protein_coding	KNOWN	None	11477	603	200	136216440	136223652	-1	SURF5	Med24
HG79_PATCH	MED22	ENSG00000261579	ENST00000565731	protein_coding	KNOWN	None	11477	603	200	136217040	136222197	-1	SURF5	Med24
HG79_PATCH	MED22	ENSG00000261579	ENST00000568551	processed_transcript	KNOWN	None	11477	None	None	136219225	136223610	-1	SURF5	Med24
HG79_PATCH	MED22	ENSG00000261579	ENST00000565708	protein_coding	NOVEL	None	11477	405	134	136219282	136223652	-1	SURF5	Med24
HG79_PATCH	MED22	ENSG00000261579	ENST00000566494	protein_coding	KNOWN	None	11477	423	140	136219650	136222197	-1	SURF5	Med24
HG79_PATCH	MED22	ENSG00000261579	ENST00000564120	protein_coding	KNOWN	None	11477	423	140	136219650	136222197	-1	SURF5	Med24
HG79_PATCH	MED22	ENSG00000261579	ENST00000565395	protein_coding	KNOWN	None	11477	413	136	136219660	136223557	-1	SURF5	Med24
HG79_PATCH	MED22	ENSG00000261579	ENST00000569078	protein_coding	KNOWN	None	11477	405	134	136219668	136223658	-1	SURF5	Med24
HG79_PATCH	MED22	ENSG00000261579	ENST00000569933	protein_coding	KNOWN	None	11477	333	110	136219740	136223666	-1	SURF5	Med24
HG79_PATCH	MED22	ENSG00000261579	ENST00000565319	retained_intron	KNOWN	None	11477	None	None	136221942	136223653	-1	SURF5	Med24
14	None	ENSG00000200385	ENST00000363515	snoRNA	KNOWN	None	None	None	None	38189630	38189766	1	None	None
13	None	ENSG00000225105	ENST00000435725	lincRNA	KNOWN	None	None	None	None	25767245	25784433	-1	None	None
5	None	ENSG00000241597	ENST00000484584	processed_pseudogene	KNOWN	None	None	None	None	98290098	98290676	1	None	None
6	None	ENSG00000203518	ENST00000359815	pseudogene	NOVEL	None	None	None	None	17894075	17894300	1	None	None
8	None	ENSG00000255174	ENST00000533272	processed_pseudogene	KNOWN	None	None	None	None	11856596	11856977	1	None	None
X	None	ENSG00000231217	ENST00000438499	lincRNA	KNOWN	None	None	None	None	6585906	6639585	-1	None	None
5	None	ENSG00000222086	ENST00000410154	miRNA	NOVEL	None	None	None	None	156662195	156662309	-1	None	None
13	RPL23AP69	ENSG00000235315	ENST00000431134	processed_pseudogene	KNOWN	None	36625	None	None	25780187	25780644	1	None	None
7	BCL7B	ENSG00000106635	ENST00000486818	retained_intron	KNOWN	None	1005	None	None	72950686	72954275	-1	None	None
7	BCL7B	ENSG00000106635	ENST00000493671	retained_intron	KNOWN	None	1005	None	None	72950686	72954898	-1	None	None
7	BCL7B	ENSG00000106635	ENST00000223368	protein_coding	KNOWN	CCDS5550	1005	609	202	72950686	72972332	-1	None	None
7	BCL7B	ENSG00000106635	ENST00000411832	protein_coding	NOVEL	CCDS56489	1005	438	145	72950701	72972001	-1	None	None
7	BCL7B	ENSG00000106635	ENST00000482231	processed_transcript	KNOWN	None	1005	None	None	72950718	72971581	-1	None	None
7	BCL7B	ENSG00000106635	ENST00000454871	nonsense_mediated_decay	KNOWN	None	1005	267	88	72951284	72971939	-1	None	None
7	BCL7B	ENSG00000106635	ENST00000463858	processed_transcript	KNOWN	None	1005	None	None	72951431	72971541	-1	None	None
7	BCL7B	ENSG00000106635	ENST00000448175	nonsense_mediated_decay	KNOWN	None	1005	237	78	72951446	72971984	-1	None	None
7	BCL7B	ENSG00000106635	ENST00000455335	nonsense_mediated_decay	KNOWN	None	1005	93	30	72951472	72972006	-1	None	None
7	BCL7B	ENSG00000106635	ENST00000493679	processed_transcript	KNOWN	None	1005	None	None	72951489	72957931	-1	None	None
7	BCL7B	ENSG00000106635	ENST00000464288	processed_transcript	KNOWN	None	1005	None	None	72951596	72971571	-1	None	None
7	BCL7B	ENSG00000106635	ENST00000416906	nonsense_mediated_decay	KNOWN	None	1005	93	30	72951654	72972017	-1	None	None
7	BCL7B	ENSG00000106635	ENST00000493592	retained_intron	KNOWN	None	1005	None	None	72954046	72971442	-1	None	None
7	BCL7B	ENSG00000106635	ENST00000481667	retained_intron	KNOWN	None	1005	None	None	72954214	72958223	-1	None	None
9	None	ENSG00000227218	ENST00000592240	antisense	KNOWN	None	None	None	None	130696782	130703134	1	None	None
9	None	ENSG00000227218	ENST00000588890	antisense	KNOWN	None	None	None	None	130700162	130703122	1	None	None
9	None	ENSG00000227218	ENST00000587978	antisense	KNOWN	None	None	None	None	130700162	130703130	1	None	None
9	None	ENSG00000227218	ENST00000586374	antisense	KNOWN	None	None	None	None	130700192	130703134	1	None	None
9	None	ENSG00000227218	ENST00000590283	antisense	KNOWN	None	None	None	None	130700198	130703134	1	None	None
9	None	ENSG00000227218	ENST00000587355	antisense	KNOWN	None	None	None	None	130700201	130703134	1	None	None
9	None	ENSG00000227218	ENST00000591408	antisense	KNOWN	None	None	None	None	130700410	130703101	1	None	None
9	None	ENSG00000227218	ENST00000415141	antisense	KNOWN	None	None	None	None	130702015	130703231	1	None	None
HSCHR15_1_CTG4	GOLGA8F	ENSG00000261967	ENST00000576650	protein_coding	NOVEL	None	32378	1947	648	28623776	28634174	1	None	DKFZp434P162
HSCHR15_1_CTG4	GOLGA8F	ENSG00000261967	ENST00000574075	processed_transcript	KNOWN	None	32378	None	None	28623776	28637136	1	None	DKFZp434P162
HSCHR15_1_CTG4	GOLGA8F	ENSG00000261967	ENST00000571126	retained_intron	KNOWN	None	32378	None	None	28624523	28627618	1	None	DKFZp434P162
6	None	ENSG00000220920	ENST00000407932	unprocessed_pseudogene	KNOWN	None	None	None	None	17953803	17954161	1	None	None
16	RN7SL557P	ENSG00000266166	ENST00000581047	misc_RNA	KNOWN	None	46573	None	None	25196528	25196808	1	None	None
14	RNU6-1277P	ENSG00000201431	ENST00000364561	snRNA	KNOWN	None	48240	None	None	38297003	38297109	-1	None	None
16	None	ENSG00000261790	ENST00000564438	lincRNA	KNOWN	None	None	None	None	2034878	2036854	-1	None	None
16	None	ENSG00000261790	ENST00000565041	lincRNA	KNOWN	None	None	None	None	2036267	2040358	-1	None	None
5	None	ENSG00000253653	ENST00000517634	antisense	KNOWN	None	None	None	None	156687132	156693635	-1	None	None
10	RNA5SP325	ENSG00000200626	ENST00000363756	rRNA	KNOWN	None	43225	None	None	108729779	108729908	1	RN5S325	None
X	None	ENSG00000226802	ENST00000429864	processed_pseudogene	KNOWN	None	None	None	None	127574907	127575763	1	None	None
6	None	ENSG00000199715	ENST00000362845	misc_RNA	NOVEL	None	None	None	None	18273396	18273497	-1	None	None
16	None	ENSG00000259955	ENST00000569456	antisense	KNOWN	None	None	None	None	25249639	25250608	1	None	None
6	RNU6-263P	ENSG00000200681	ENST00000363811	snRNA	KNOWN	None	47226	None	None	18307204	18307310	-1	None	None
5	None	ENSG00000249444	ENST00000510435	processed_transcript	KNOWN	None	None	None	None	98825263	98835071	1	None	None
5	None	ENSG00000249444	ENST00000503812	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	98834774	98834907	1	None	None
6	None	ENSG00000217414	ENST00000404856	processed_pseudogene	KNOWN	None	None	None	None	18363648	18365654	-1	None	None
5	None	ENSG00000251405	ENST00000519499	sense_overlapping	KNOWN	None	None	None	None	156789623	156887086	-1	None	None
5	None	ENSG00000251405	ENST00000509655	sense_overlapping	KNOWN	None	None	None	None	156790390	156792509	-1	None	None
HSCHR6_MHC_APD	TUBB	ENSG00000224156	ENST00000421473	protein_coding	KNOWN	None	20778	1335	444	30696223	30701448	1	None	OK/SW-cl.56, MGC16435, M40, Tubb5
HSCHR6_MHC_APD	TUBB	ENSG00000224156	ENST00000413547	protein_coding	KNOWN	None	20778	1119	372	30697596	30701448	1	None	OK/SW-cl.56, MGC16435, M40, Tubb5
HSCHR6_MHC_APD	TUBB	ENSG00000224156	ENST00000419551	protein_coding	KNOWN	None	20778	1281	426	30697689	30701448	1	None	OK/SW-cl.56, MGC16435, M40, Tubb5
HSCHR6_MHC_APD	TUBB	ENSG00000224156	ENST00000454620	protein_coding	KNOWN	None	20778	1119	372	30697721	30701448	1	None	OK/SW-cl.56, MGC16435, M40, Tubb5
HSCHR6_MHC_APD	TUBB	ENSG00000224156	ENST00000549614	protein_coding	KNOWN	None	20778	1305	434	30696379	30700550	1	None	OK/SW-cl.56, MGC16435, M40, Tubb5
3	IGSF11	ENSG00000144847	ENST00000425327	protein_coding	KNOWN	CCDS2983	16669	1293	430	118619404	118864915	-1	None	BT-IgSF, MGC35227, Igsf13, VSIG3, CT119
3	IGSF11	ENSG00000144847	ENST00000393775	protein_coding	KNOWN	CCDS46891	16669	1296	431	118619474	118753735	-1	None	BT-IgSF, MGC35227, Igsf13, VSIG3, CT119
3	IGSF11	ENSG00000144847	ENST00000489689	protein_coding	NOVEL	None	16669	1224	407	118619481	118753639	-1	None	BT-IgSF, MGC35227, Igsf13, VSIG3, CT119
3	IGSF11	ENSG00000144847	ENST00000441144	protein_coding	NOVEL	None	16669	1221	406	118621001	118864882	-1	None	BT-IgSF, MGC35227, Igsf13, VSIG3, CT119
3	IGSF11	ENSG00000144847	ENST00000491903	protein_coding	NOVEL	None	16669	1212	403	118621238	118753575	-1	None	BT-IgSF, MGC35227, Igsf13, VSIG3, CT119
3	IGSF11	ENSG00000144847	ENST00000459718	processed_transcript	PUTATIVE	None	16669	None	None	118644770	118649100	-1	None	BT-IgSF, MGC35227, Igsf13, VSIG3, CT119
3	IGSF11	ENSG00000144847	ENST00000483401	protein_coding	PUTATIVE	None	16669	178	58	118647425	118732084	-1	None	BT-IgSF, MGC35227, Igsf13, VSIG3, CT119
3	IGSF11	ENSG00000144847	ENST00000480431	protein_coding	PUTATIVE	None	16669	98	31	118647505	118753802	-1	None	BT-IgSF, MGC35227, Igsf13, VSIG3, CT119
3	IGSF11	ENSG00000144847	ENST00000494802	processed_transcript	KNOWN	None	16669	None	None	118667167	118864840	-1	None	BT-IgSF, MGC35227, Igsf13, VSIG3, CT119
3	IGSF11	ENSG00000144847	ENST00000354673	protein_coding	KNOWN	CCDS2983	16669	1293	430	118619483	118864898	-1	None	BT-IgSF, MGC35227, Igsf13, VSIG3, CT119
19	ZNF681	ENSG00000196172	ENST00000402377	protein_coding	KNOWN	CCDS12414	26457	1938	645	23921997	23941693	-1	None	FLJ31526
19	ZNF681	ENSG00000196172	ENST00000528059	protein_coding	PUTATIVE	None	26457	457	151	23927688	23941642	-1	None	FLJ31526
19	ZNF681	ENSG00000196172	ENST00000531570	protein_coding	PUTATIVE	None	26457	379	125	23927766	23941639	-1	None	FLJ31526
19	ZNF681	ENSG00000196172	ENST00000395385	protein_coding	KNOWN	None	26457	1731	576	23926160	23941639	-1	None	FLJ31526
14	LINC00517	ENSG00000259091	ENST00000554257	antisense	KNOWN	None	19831	None	None	38365265	38371329	-1	C14orf26	None
14	LINC00517	ENSG00000259091	ENST00000553396	antisense	KNOWN	None	19831	None	None	38370081	38371577	-1	C14orf26	None
6	None	ENSG00000218976	ENST00000407347	unprocessed_pseudogene	KNOWN	None	None	None	None	18366967	18368875	-1	None	None
22	SPECC1L	ENSG00000100014	ENST00000421374	protein_coding	KNOWN	None	29022	2366	787	24666790	24726369	1	None	KIAA0376, CYTSA
22	SPECC1L	ENSG00000100014	ENST00000314328	protein_coding	KNOWN	CCDS33619	29022	3354	1117	24666808	24813708	1	None	KIAA0376, CYTSA
22	SPECC1L	ENSG00000100014	ENST00000416735	processed_transcript	KNOWN	None	29022	None	None	24666851	24720272	1	None	KIAA0376, CYTSA
22	SPECC1L	ENSG00000100014	ENST00000440893	protein_coding	PUTATIVE	None	29022	525	174	24700364	24717656	1	None	KIAA0376, CYTSA
22	SPECC1L	ENSG00000100014	ENST00000472799	retained_intron	KNOWN	None	29022	None	None	24808128	24810720	1	None	KIAA0376, CYTSA
22	SPECC1L	ENSG00000100014	ENST00000437398	protein_coding	KNOWN	CCDS33619	29022	3354	1117	24666786	24813707	1	None	KIAA0376, CYTSA
22	SPECC1L	ENSG00000100014	ENST00000541492	protein_coding	KNOWN	CCDS58797	29022	3237	1078	24666851	24810741	1	None	KIAA0376, CYTSA
9	ATP5A1P6	ENSG00000234861	ENST00000454088	processed_pseudogene	KNOWN	None	37664	None	None	44558938	44560285	1	None	None
16	None	ENSG00000260107	ENST00000567515	lincRNA	KNOWN	None	None	None	None	2047655	2048375	1	None	None
16	None	ENSG00000261636	ENST00000568036	lincRNA	KNOWN	None	None	None	None	25431135	25435490	-1	None	None
5	None	ENSG00000256301	ENST00000541796	pseudogene	NOVEL	None	None	None	None	180878878	180878968	-1	None	None
5	None	ENSG00000206356	ENST00000504077	processed_pseudogene	KNOWN	None	None	None	None	98858015	98861166	-1	None	None
3	ZBTB11-AS1	ENSG00000256628	ENST00000536865	protein_coding	KNOWN	None	48573	267	88	101395274	101396431	1	None	None
3	GORASP1	ENSG00000114745	ENST00000441302	retained_intron	KNOWN	None	16769	None	None	39138150	39149129	-1	GOLPH5	GRASP65, P65, FLJ23443
3	GORASP1	ENSG00000114745	ENST00000319283	protein_coding	KNOWN	CCDS2681	16769	1323	440	39138150	39149854	-1	GOLPH5	GRASP65, P65, FLJ23443
3	GORASP1	ENSG00000114745	ENST00000453680	nonsense_mediated_decay	KNOWN	None	16769	951	316	39138156	39149060	-1	GOLPH5	GRASP65, P65, FLJ23443
3	GORASP1	ENSG00000114745	ENST00000452389	nonsense_mediated_decay	KNOWN	None	16769	648	215	39138156	39149112	-1	GOLPH5	GRASP65, P65, FLJ23443
3	GORASP1	ENSG00000114745	ENST00000422110	protein_coding	NOVEL	None	16769	858	285	39138159	39149129	-1	GOLPH5	GRASP65, P65, FLJ23443
3	GORASP1	ENSG00000114745	ENST00000431601	nonsense_mediated_decay	KNOWN	None	16769	741	246	39138950	39148827	-1	GOLPH5	GRASP65, P65, FLJ23443
3	GORASP1	ENSG00000114745	ENST00000479927	protein_coding	NOVEL	None	16769	1038	345	39139519	39149131	-1	GOLPH5	GRASP65, P65, FLJ23443
3	GORASP1	ENSG00000114745	ENST00000476334	processed_transcript	PUTATIVE	None	16769	None	None	39139878	39140700	-1	GOLPH5	GRASP65, P65, FLJ23443
3	GORASP1	ENSG00000114745	ENST00000427459	protein_coding	PUTATIVE	None	16769	486	161	39140659	39149099	-1	GOLPH5	GRASP65, P65, FLJ23443
3	GORASP1	ENSG00000114745	ENST00000470910	retained_intron	KNOWN	None	16769	None	None	39140890	39149070	-1	GOLPH5	GRASP65, P65, FLJ23443
3	GORASP1	ENSG00000114745	ENST00000419156	nonsense_mediated_decay	KNOWN	None	16769	426	141	39140902	39145002	-1	GOLPH5	GRASP65, P65, FLJ23443
3	GORASP1	ENSG00000114745	ENST00000489587	processed_transcript	PUTATIVE	None	16769	None	None	39140926	39142127	-1	GOLPH5	GRASP65, P65, FLJ23443
3	GORASP1	ENSG00000114745	ENST00000466443	retained_intron	KNOWN	None	16769	None	None	39141926	39149129	-1	GOLPH5	GRASP65, P65, FLJ23443
3	GORASP1	ENSG00000114745	ENST00000488479	retained_intron	KNOWN	None	16769	None	None	39141948	39149105	-1	GOLPH5	GRASP65, P65, FLJ23443
3	GORASP1	ENSG00000114745	ENST00000473827	retained_intron	KNOWN	None	16769	None	None	39142153	39149102	-1	GOLPH5	GRASP65, P65, FLJ23443
3	GORASP1	ENSG00000114745	ENST00000479124	processed_transcript	PUTATIVE	None	16769	None	None	39142283	39142963	-1	GOLPH5	GRASP65, P65, FLJ23443
3	GORASP1	ENSG00000114745	ENST00000437458	protein_coding	PUTATIVE	None	16769	581	192	39142343	39148672	-1	GOLPH5	GRASP65, P65, FLJ23443
3	GORASP1	ENSG00000114745	ENST00000416741	protein_coding	PUTATIVE	None	16769	209	68	39142514	39148631	-1	GOLPH5	GRASP65, P65, FLJ23443
3	GORASP1	ENSG00000114745	ENST00000411813	protein_coding	PUTATIVE	None	16769	474	157	39142514	39149126	-1	GOLPH5	GRASP65, P65, FLJ23443
3	GORASP1	ENSG00000114745	ENST00000493851	retained_intron	KNOWN	None	16769	None	None	39143971	39149076	-1	GOLPH5	GRASP65, P65, FLJ23443
3	GORASP1	ENSG00000114745	ENST00000492064	retained_intron	KNOWN	None	16769	None	None	39144089	39149102	-1	GOLPH5	GRASP65, P65, FLJ23443
3	GORASP1	ENSG00000114745	ENST00000413243	nonsense_mediated_decay	KNOWN	None	16769	147	48	39144168	39149124	-1	GOLPH5	GRASP65, P65, FLJ23443
3	GORASP1	ENSG00000114745	ENST00000441081	protein_coding	PUTATIVE	None	16769	266	87	39144245	39149354	-1	GOLPH5	GRASP65, P65, FLJ23443
3	GORASP1	ENSG00000114745	ENST00000493938	processed_transcript	PUTATIVE	None	16769	None	None	39144274	39149118	-1	GOLPH5	GRASP65, P65, FLJ23443
3	GORASP1	ENSG00000114745	ENST00000493751	processed_transcript	PUTATIVE	None	16769	None	None	39144319	39149118	-1	GOLPH5	GRASP65, P65, FLJ23443
3	GORASP1	ENSG00000114745	ENST00000486133	processed_transcript	PUTATIVE	None	16769	None	None	39144331	39145216	-1	GOLPH5	GRASP65, P65, FLJ23443
3	GORASP1	ENSG00000114745	ENST00000469471	retained_intron	KNOWN	None	16769	None	None	39144665	39149121	-1	GOLPH5	GRASP65, P65, FLJ23443
15	None	ENSG00000228740	ENST00000439938	antisense	KNOWN	None	None	None	None	27402762	27406466	-1	None	None
11	ART1	ENSG00000129744	ENST00000529556	processed_transcript	KNOWN	None	723	None	None	3666358	3680842	1	None	ART2, CD296
11	ART1	ENSG00000129744	ENST00000250693	protein_coding	KNOWN	CCDS7744	723	984	327	3666361	3685646	1	None	ART2, CD296
5	None	ENSG00000213285	ENST00000476406	processed_pseudogene	KNOWN	None	None	None	None	180898964	180899431	1	None	None
16	None	ENSG00000187185	ENST00000566652	processed_transcript	PUTATIVE	None	None	None	None	57832098	57847715	1	None	None
16	None	ENSG00000187185	ENST00000568697	processed_transcript	PUTATIVE	None	None	None	None	57832177	57841864	1	None	None
16	None	ENSG00000187185	ENST00000564282	protein_coding	PUTATIVE	None	None	690	229	57844549	57850850	1	None	None
16	None	ENSG00000187185	ENST00000335616	protein_coding	KNOWN	None	None	690	229	57847684	57850831	1	None	None
9	None	ENSG00000223664	ENST00000416356	processed_pseudogene	KNOWN	None	None	None	None	44562093	44562588	1	None	None
11	SLC25A22	ENSG00000177542	ENST00000320230	protein_coding	KNOWN	CCDS7715	19954	972	323	790475	796361	-1	None	GC1, FLJ13044, NET44, EIEE3
11	SLC25A22	ENSG00000177542	ENST00000531214	protein_coding	KNOWN	CCDS7715	19954	972	323	791644	797995	-1	None	GC1, FLJ13044, NET44, EIEE3
11	SLC25A22	ENSG00000177542	ENST00000481290	protein_coding	NOVEL	None	19954	779	258	792342	795175	-1	None	GC1, FLJ13044, NET44, EIEE3
11	SLC25A22	ENSG00000177542	ENST00000531437	protein_coding	NOVEL	None	19954	589	195	792445	798271	-1	None	GC1, FLJ13044, NET44, EIEE3
11	SLC25A22	ENSG00000177542	ENST00000529351	nonsense_mediated_decay	KNOWN	None	19954	219	72	792870	797998	-1	None	GC1, FLJ13044, NET44, EIEE3
11	SLC25A22	ENSG00000177542	ENST00000533385	protein_coding	KNOWN	None	19954	404	133	792878	795286	-1	None	GC1, FLJ13044, NET44, EIEE3
11	SLC25A22	ENSG00000177542	ENST00000526152	protein_coding	KNOWN	None	19954	382	126	792900	795419	-1	None	GC1, FLJ13044, NET44, EIEE3
11	SLC25A22	ENSG00000177542	ENST00000528606	protein_coding	KNOWN	None	19954	369	122	792913	796250	-1	None	GC1, FLJ13044, NET44, EIEE3
11	SLC25A22	ENSG00000177542	ENST00000527734	nonsense_mediated_decay	KNOWN	None	19954	219	72	792922	795394	-1	None	GC1, FLJ13044, NET44, EIEE3
11	SLC25A22	ENSG00000177542	ENST00000527723	protein_coding	KNOWN	None	19954	358	118	792924	795336	-1	None	GC1, FLJ13044, NET44, EIEE3
11	SLC25A22	ENSG00000177542	ENST00000531514	protein_coding	KNOWN	None	19954	342	113	792940	798316	-1	None	GC1, FLJ13044, NET44, EIEE3
11	SLC25A22	ENSG00000177542	ENST00000528936	protein_coding	KNOWN	None	19954	339	112	792943	795458	-1	None	GC1, FLJ13044, NET44, EIEE3
11	SLC25A22	ENSG00000177542	ENST00000456706	protein_coding	KNOWN	None	19954	329	108	792953	795438	-1	None	GC1, FLJ13044, NET44, EIEE3
11	SLC25A22	ENSG00000177542	ENST00000532484	protein_coding	KNOWN	None	19954	319	105	792963	797994	-1	None	GC1, FLJ13044, NET44, EIEE3
11	SLC25A22	ENSG00000177542	ENST00000524891	retained_intron	KNOWN	None	19954	None	None	793478	795006	-1	None	GC1, FLJ13044, NET44, EIEE3
11	SLC25A22	ENSG00000177542	ENST00000529066	protein_coding	KNOWN	None	19954	235	77	793587	795677	-1	None	GC1, FLJ13044, NET44, EIEE3
11	SLC25A22	ENSG00000177542	ENST00000531534	protein_coding	KNOWN	None	19954	233	76	793589	795705	-1	None	GC1, FLJ13044, NET44, EIEE3
11	SLC25A22	ENSG00000177542	ENST00000532361	retained_intron	KNOWN	None	19954	None	None	793905	796255	-1	None	GC1, FLJ13044, NET44, EIEE3
11	SLC25A22	ENSG00000177542	ENST00000527127	retained_intron	KNOWN	None	19954	None	None	794261	795193	-1	None	GC1, FLJ13044, NET44, EIEE3
11	SLC25A22	ENSG00000177542	ENST00000525010	retained_intron	KNOWN	None	19954	None	None	794369	795419	-1	None	GC1, FLJ13044, NET44, EIEE3
11	SLC25A22	ENSG00000177542	ENST00000532459	retained_intron	KNOWN	None	19954	None	None	794403	796200	-1	None	GC1, FLJ13044, NET44, EIEE3
11	SLC25A22	ENSG00000177542	ENST00000525644	retained_intron	KNOWN	None	19954	None	None	794406	795419	-1	None	GC1, FLJ13044, NET44, EIEE3
11	SLC25A22	ENSG00000177542	ENST00000530360	protein_coding	KNOWN	None	19954	179	58	794481	796240	-1	None	GC1, FLJ13044, NET44, EIEE3
5	PCDHGA9	ENSG00000261934	ENST00000573521	protein_coding	KNOWN	CCDS58981	8707	2799	932	140782520	140892546	1	None	PCDH-GAMMA-A9
16	RN7SL219P	ENSG00000265386	ENST00000582872	misc_RNA	KNOWN	None	46235	None	None	2063182	2063475	1	None	None
5	None	ENSG00000249174	ENST00000504827	lincRNA	KNOWN	None	None	None	None	18965970	19142455	-1	None	None
7	SND1	ENSG00000197157	ENST00000354725	protein_coding	KNOWN	CCDS34747	30646	2733	910	127292234	127732659	1	None	TDRD11, p100
7	SND1	ENSG00000197157	ENST00000463020	retained_intron	KNOWN	None	30646	None	None	127292248	127327201	1	None	TDRD11, p100
7	SND1	ENSG00000197157	ENST00000461056	processed_transcript	KNOWN	None	30646	None	None	127319099	127338991	1	None	TDRD11, p100
7	SND1	ENSG00000197157	ENST00000468621	processed_transcript	KNOWN	None	30646	None	None	127325995	127341267	1	None	TDRD11, p100
7	SND1	ENSG00000197157	ENST00000483503	processed_transcript	KNOWN	None	30646	None	None	127332541	127343245	1	None	TDRD11, p100
7	SND1	ENSG00000197157	ENST00000492772	processed_transcript	KNOWN	None	30646	None	None	127334746	127343279	1	None	TDRD11, p100
7	SND1	ENSG00000197157	ENST00000468166	processed_transcript	KNOWN	None	30646	None	None	127358608	127528002	1	None	TDRD11, p100
7	SND1	ENSG00000197157	ENST00000465900	processed_transcript	KNOWN	None	30646	None	None	127358712	127569280	1	None	TDRD11, p100
7	SND1	ENSG00000197157	ENST00000486037	protein_coding	PUTATIVE	None	30646	695	230	127527965	127724902	1	None	TDRD11, p100
7	SND1	ENSG00000197157	ENST00000484767	processed_transcript	KNOWN	None	30646	None	None	127544408	127714674	1	None	TDRD11, p100
7	SND1	ENSG00000197157	ENST00000492840	processed_transcript	KNOWN	None	30646	None	None	127544679	127631008	1	None	TDRD11, p100
7	SND1	ENSG00000197157	ENST00000470723	processed_transcript	KNOWN	None	30646	None	None	127589169	127721464	1	None	TDRD11, p100
7	SND1	ENSG00000197157	ENST00000467238	processed_transcript	KNOWN	None	30646	None	None	127630999	127638129	1	None	TDRD11, p100
7	SND1	ENSG00000197157	ENST00000470463	processed_transcript	KNOWN	None	30646	None	None	127682355	127724811	1	None	TDRD11, p100
7	SND1	ENSG00000197157	ENST00000489417	retained_intron	KNOWN	None	30646	None	None	127726523	127732661	1	None	TDRD11, p100
7	SND1	ENSG00000197157	ENST00000485871	processed_transcript	KNOWN	None	30646	None	None	127729541	127732259	1	None	TDRD11, p100
9	None	ENSG00000232000	ENST00000423965	unprocessed_pseudogene	KNOWN	None	None	None	None	15034178	15048059	-1	None	None
8	None	ENSG00000254507	ENST00000602581	processed_transcript	KNOWN	None	None	None	None	11860909	11861591	-1	None	None
8	None	ENSG00000254507	ENST00000532329	transcribed_processed_pseudogene	KNOWN	None	None	None	None	11861063	11861216	-1	None	None
16	MIR1225	ENSG00000221656	ENST00000408729	miRNA	KNOWN	None	33931	None	None	2140196	2140285	-1	MIRN1225	hsa-mir-1225
9	None	ENSG00000268234	ENST00000457486	processed_pseudogene	KNOWN	None	None	None	None	44584983	44586314	-1	None	None
12	SCYL2	ENSG00000136021	ENST00000549687	protein_coding	KNOWN	None	19286	2043	680	100660918	100731182	1	None	KIAA1360
12	SCYL2	ENSG00000136021	ENST00000548392	protein_coding	PUTATIVE	None	19286	228	75	100660955	100706326	1	None	KIAA1360
12	SCYL2	ENSG00000136021	ENST00000550067	processed_transcript	KNOWN	None	19286	None	None	100661027	100690585	1	None	KIAA1360
12	SCYL2	ENSG00000136021	ENST00000360820	protein_coding	KNOWN	CCDS9076	19286	2790	929	100661162	100735502	1	None	KIAA1360
12	SCYL2	ENSG00000136021	ENST00000549486	retained_intron	KNOWN	None	19286	None	None	100676910	100685767	1	None	KIAA1360
12	SCYL2	ENSG00000136021	ENST00000550251	nonsense_mediated_decay	KNOWN	None	19286	346	114	100709335	100720423	1	None	KIAA1360
12	SCYL2	ENSG00000136021	ENST00000553148	retained_intron	KNOWN	None	19286	None	None	100711493	100717614	1	None	KIAA1360
12	SCYL2	ENSG00000136021	ENST00000548871	nonsense_mediated_decay	KNOWN	None	19286	182	59	100717376	100728029	1	None	KIAA1360
12	SCYL2	ENSG00000136021	ENST00000547202	retained_intron	KNOWN	None	19286	None	None	100727425	100731275	1	None	KIAA1360
12	SCYL2	ENSG00000136021	ENST00000547735	retained_intron	KNOWN	None	19286	None	None	100729369	100732411	1	None	KIAA1360
16	None	ENSG00000260891	ENST00000569088	antisense	KNOWN	None	None	None	None	68246304	68255574	-1	None	None
5	None	ENSG00000251487	ENST00000513955	lincRNA	KNOWN	None	None	None	None	19035306	19038849	-1	None	None
5	None	ENSG00000251487	ENST00000515123	lincRNA	KNOWN	None	None	None	None	19036015	19038908	-1	None	None
HSCHR6_MHC_COX	OR2I1P	ENSG00000229467	ENST00000455758	unprocessed_pseudogene	KNOWN	None	8258	None	None	29517602	29518549	1	OR2I1, OR2I3P, OR2I4P, OR2I2	HS6M1-14
22	RNF185	ENSG00000138942	ENST00000494514	retained_intron	KNOWN	None	26783	None	None	31556169	31600557	1	None	FLJ38628
22	RNF185	ENSG00000138942	ENST00000326132	protein_coding	KNOWN	CCDS13890	26783	579	192	31556179	31602999	1	None	FLJ38628
22	RNF185	ENSG00000138942	ENST00000471384	retained_intron	KNOWN	None	26783	None	None	31556194	31602999	1	None	FLJ38628
22	RNF185	ENSG00000138942	ENST00000518626	nonsense_mediated_decay	KNOWN	CCDS13890	26783	579	192	31556197	31602999	1	None	FLJ38628
22	RNF185	ENSG00000138942	ENST00000468921	retained_intron	KNOWN	None	26783	None	None	31556229	31593031	1	None	FLJ38628
22	RNF185	ENSG00000138942	ENST00000266252	protein_coding	NOVEL	CCDS46689	26783	411	136	31556229	31602998	1	None	FLJ38628
22	RNF185	ENSG00000138942	ENST00000426256	protein_coding	KNOWN	None	26783	393	130	31556168	31600930	1	None	FLJ38628
14	NOXRED1	ENSG00000165555	ENST00000380835	protein_coding	KNOWN	CCDS45142	20487	1080	359	77860364	77889399	-1	C14orf148	FLJ32809
14	NOXRED1	ENSG00000165555	ENST00000555901	retained_intron	KNOWN	None	20487	None	None	77860786	77889399	-1	C14orf148	FLJ32809
14	NOXRED1	ENSG00000165555	ENST00000555603	protein_coding	KNOWN	None	20487	670	222	77873079	77889860	-1	C14orf148	FLJ32809
14	NOXRED1	ENSG00000165555	ENST00000298358	protein_coding	KNOWN	None	20487	753	250	77872996	77889232	-1	C14orf148	FLJ32809
10	ANTXRL	ENSG00000198250	ENST00000441923	protein_coding	PUTATIVE	None	27277	183	60	47657581	47667330	1	None	None
10	ANTXRL	ENSG00000198250	ENST00000424375	nonsense_mediated_decay	KNOWN	None	27277	774	257	47658234	47701443	1	None	None
10	ANTXRL	ENSG00000198250	ENST00000447511	protein_coding	NOVEL	None	27277	1896	631	47658234	47701443	1	None	None
10	ANTXRL	ENSG00000198250	ENST00000564569	retained_intron	KNOWN	None	27277	None	None	47664046	47665346	1	None	None
10	ANTXRL	ENSG00000198250	ENST00000434908	nonsense_mediated_decay	KNOWN	None	27277	336	111	47668642	47681735	1	None	None
10	ANTXRL	ENSG00000198250	ENST00000537271	protein_coding	KNOWN	None	27277	1698	565	47658249	47701342	1	None	None
16	None	ENSG00000263276	ENST00000571975	sense_overlapping	KNOWN	None	None	None	None	68258616	68261637	1	None	None
14	None	ENSG00000258696	ENST00000554029	antisense	KNOWN	None	None	None	None	38472318	38474052	-1	None	None
16	None	ENSG00000259933	ENST00000570072	sense_overlapping	KNOWN	None	None	None	None	2141437	2145018	1	None	None
16	None	ENSG00000259933	ENST00000563284	sense_overlapping	KNOWN	None	None	None	None	2141540	2145426	1	None	None
7	STEAP4	ENSG00000127954	ENST00000380079	protein_coding	KNOWN	CCDS43611	21923	1380	459	87905744	87936206	-1	TNFAIP9	FLJ23153, TIARP, STAMP2
7	STEAP4	ENSG00000127954	ENST00000301959	protein_coding	KNOWN	CCDS56494	21923	852	283	87907343	87936203	-1	TNFAIP9	FLJ23153, TIARP, STAMP2
7	STEAP4	ENSG00000127954	ENST00000414498	protein_coding	PUTATIVE	None	21923	1020	339	87910798	87936195	-1	TNFAIP9	FLJ23153, TIARP, STAMP2
10	None	ENSG00000228181	ENST00000450788	processed_pseudogene	KNOWN	None	None	None	None	15213035	15213277	-1	None	None
5	None	ENSG00000242654	ENST00000463196	processed_pseudogene	KNOWN	None	None	None	None	19041118	19041495	1	None	None
X	KRT18P44	ENSG00000218728	ENST00000416086	processed_pseudogene	KNOWN	None	33414	None	None	127848484	127849768	1	None	None
16	None	ENSG00000262160	ENST00000571197	antisense	KNOWN	None	None	None	None	68259872	68263048	-1	None	None
5	HSPD1P15	ENSG00000249557	ENST00000505573	processed_pseudogene	KNOWN	None	35130	None	None	19233475	19234596	1	None	HSPD1-15P
10	None	ENSG00000238215	ENST00000433335	processed_pseudogene	KNOWN	None	None	None	None	74402769	74404408	1	None	None
HG946_PATCH	None	ENSG00000262608	ENST00000570558	snRNA	NOVEL	None	None	None	None	98424030	98424136	-1	None	None
3	RPL24	ENSG00000114391	ENST00000464595	retained_intron	KNOWN	None	10325	None	None	101399935	101405556	-1	None	L24
3	RPL24	ENSG00000114391	ENST00000394077	protein_coding	KNOWN	CCDS33809	10325	474	157	101399936	101405626	-1	None	L24
3	RPL24	ENSG00000114391	ENST00000495401	protein_coding	PUTATIVE	None	10325	366	121	101399940	101405549	-1	None	L24
3	RPL24	ENSG00000114391	ENST00000488288	retained_intron	KNOWN	None	10325	None	None	101399967	101404733	-1	None	L24
3	RPL24	ENSG00000114391	ENST00000469605	protein_coding	PUTATIVE	None	10325	453	150	101400886	101405539	-1	None	L24
3	RPL24	ENSG00000114391	ENST00000470961	retained_intron	KNOWN	None	10325	None	None	101404873	101405558	-1	None	L24
9	None	ENSG00000228920	ENST00000430172	unprocessed_pseudogene	KNOWN	None	None	None	None	44672800	44676450	-1	None	None
HSCHR6_MHC_MANN	CLIC1	ENSG00000226651	ENST00000456863	protein_coding	KNOWN	None	2062	726	241	31737851	31743841	-1	None	NCC27, p64CLCP
HSCHR6_MHC_MANN	CLIC1	ENSG00000226651	ENST00000434202	protein_coding	KNOWN	None	2062	726	241	31737851	31743846	-1	None	NCC27, p64CLCP
HSCHR6_MHC_MANN	CLIC1	ENSG00000226651	ENST00000420458	protein_coding	KNOWN	None	2062	726	241	31737851	31744592	-1	None	NCC27, p64CLCP
HSCHR6_MHC_MANN	CLIC1	ENSG00000226651	ENST00000433916	protein_coding	KNOWN	None	2062	726	241	31737851	31747033	-1	None	NCC27, p64CLCP
HSCHR5_3_CTG1	None	ENSG00000261955	ENST00000574449	snoRNA	NOVEL	None	None	None	None	29079491	29079605	1	None	None
10	None	ENSG00000232739	ENST00000433455	antisense	KNOWN	None	None	None	None	15279491	15283766	1	None	None
4	None	ENSG00000249096	ENST00000512674	lincRNA	KNOWN	None	None	None	None	185286341	185291024	-1	None	None
10	None	ENSG00000201881	ENST00000365011	misc_RNA	NOVEL	None	None	None	None	74413923	74414034	-1	None	None
HG946_PATCH	MIR3609	ENSG00000266022	ENST00000583603	miRNA	KNOWN	None	38956	None	None	98510962	98511041	1	None	hsa-mir-3609
10	MIR4676	ENSG00000266719	ENST00000583078	miRNA	KNOWN	None	41691	None	None	74480787	74480858	1	None	hsa-mir-4676
15	None	ENSG00000214254	ENST00000438334	processed_pseudogene	KNOWN	None	None	None	None	27453236	27453782	-1	None	None
HSCHR5_3_CTG1	None	ENSG00000262399	ENST00000571251	processed_pseudogene	KNOWN	None	None	None	None	29113866	29114424	1	None	None
10	NPM1P24	ENSG00000215086	ENST00000428039	processed_pseudogene	KNOWN	None	45097	None	None	74677399	74678292	-1	None	None
5	PCDHGB6	ENSG00000253305	ENST00000520790	protein_coding	KNOWN	CCDS54929	8713	2793	930	140787770	140892546	1	None	PCDH-GAMMA-B6
4	None	ENSG00000251878	ENST00000516069	snoRNA	NOVEL	None	None	None	None	185353120	185353203	1	None	None
8	None	ENSG00000255016	ENST00000530817	processed_pseudogene	KNOWN	None	None	None	None	11882753	11883107	-1	None	None
4	None	ENSG00000270426	ENST00000605082	sense_intronic	KNOWN	None	None	None	None	185393078	185393763	-1	None	None
HG946_PATCH	None	ENSG00000261990	ENST00000572025	snoRNA	NOVEL	None	None	None	None	98514302	98514402	-1	None	None
10	RPL17P50	ENSG00000213700	ENST00000396131	processed_pseudogene	KNOWN	None	45098	None	None	74765591	74766353	-1	None	None
19	C19orf48	ENSG00000167747	ENST00000598463	protein_coding	KNOWN	CCDS12803	29667	354	117	51300961	51307132	-1	None	MGC13170
19	C19orf48	ENSG00000167747	ENST00000345523	protein_coding	KNOWN	CCDS12803	29667	354	117	51300961	51308186	-1	None	MGC13170
19	C19orf48	ENSG00000167747	ENST00000596655	protein_coding	KNOWN	CCDS12803	29667	354	117	51301018	51305515	-1	None	MGC13170
19	C19orf48	ENSG00000167747	ENST00000596287	protein_coding	KNOWN	None	29667	246	81	51301460	51305514	-1	None	MGC13170
19	C19orf48	ENSG00000167747	ENST00000597705	protein_coding	KNOWN	None	29667	243	80	51301463	51307926	-1	None	MGC13170
19	C19orf48	ENSG00000167747	ENST00000597493	protein_coding	KNOWN	None	29667	146	47	51301560	51307877	-1	None	MGC13170
19	C19orf48	ENSG00000167747	ENST00000593287	protein_coding	PUTATIVE	None	29667	37	11	51301577	51307852	-1	None	MGC13170
19	C19orf48	ENSG00000167747	ENST00000600373	protein_coding	KNOWN	None	29667	114	37	51301592	51305506	-1	None	MGC13170
19	C19orf48	ENSG00000167747	ENST00000601267	protein_coding	KNOWN	None	29667	75	24	51301631	51307815	-1	None	MGC13170
19	C19orf48	ENSG00000167747	ENST00000595794	processed_transcript	KNOWN	None	29667	None	None	51301773	51305907	-1	None	MGC13170
19	C19orf48	ENSG00000167747	ENST00000596554	processed_transcript	KNOWN	None	29667	None	None	51301922	51305871	-1	None	MGC13170
19	C19orf48	ENSG00000167747	ENST00000599004	processed_transcript	KNOWN	None	29667	None	None	51301961	51307132	-1	None	MGC13170
19	C19orf48	ENSG00000167747	ENST00000602125	processed_transcript	KNOWN	None	29667	None	None	51305246	51307851	-1	None	MGC13170
19	C19orf48	ENSG00000167747	ENST00000391812	protein_coding	KNOWN	CCDS12803	29667	354	117	51300962	51307974	-1	None	MGC13170
14	None	ENSG00000259048	ENST00000554687	antisense	KNOWN	None	None	None	None	38503492	38663486	-1	None	None
14	None	ENSG00000259048	ENST00000555342	antisense	KNOWN	None	None	None	None	38508183	38560363	-1	None	None
HSCHR5_3_CTG1	None	ENSG00000263134	ENST00000574628	lincRNA	KNOWN	None	None	None	None	29152548	29181345	1	None	None
20	ZFAS1	ENSG00000177410	ENST00000371743	antisense	KNOWN	None	33101	None	None	47894715	47905797	1	C20orf199, NCRNA00275, ZNFX1-AS1	HSUP1, HSUP2
20	ZFAS1	ENSG00000177410	ENST00000441722	antisense	KNOWN	None	33101	None	None	47894715	47905797	1	C20orf199, NCRNA00275, ZNFX1-AS1	HSUP1, HSUP2
20	ZFAS1	ENSG00000177410	ENST00000417721	antisense	KNOWN	None	33101	None	None	47894715	47905797	1	C20orf199, NCRNA00275, ZNFX1-AS1	HSUP1, HSUP2
20	ZFAS1	ENSG00000177410	ENST00000450535	antisense	KNOWN	None	33101	None	None	47894715	47905797	1	C20orf199, NCRNA00275, ZNFX1-AS1	HSUP1, HSUP2
20	ZFAS1	ENSG00000177410	ENST00000458653	antisense	KNOWN	None	33101	None	None	47894808	47905797	1	C20orf199, NCRNA00275, ZNFX1-AS1	HSUP1, HSUP2
20	ZFAS1	ENSG00000177410	ENST00000326677	antisense	KNOWN	None	33101	None	None	47895179	47905797	1	C20orf199, NCRNA00275, ZNFX1-AS1	HSUP1, HSUP2
20	ZFAS1	ENSG00000177410	ENST00000428008	antisense	KNOWN	None	33101	None	None	47895179	47905797	1	C20orf199, NCRNA00275, ZNFX1-AS1	HSUP1, HSUP2
5	IL9	ENSG00000145839	ENST00000274520	protein_coding	KNOWN	CCDS4189	6029	435	144	135227935	135231516	-1	None	IL-9, HP40, P40
3	CNTN3	ENSG00000113805	ENST00000263665	protein_coding	KNOWN	CCDS33790	2173	3087	1028	74311719	74570291	-1	PANG	BIG-1
3	CNTN3	ENSG00000113805	ENST00000477856	processed_transcript	KNOWN	None	2173	None	None	74313536	74316690	-1	PANG	BIG-1
19	None	ENSG00000225868	ENST00000592640	lincRNA	KNOWN	None	None	None	None	38314362	38345836	-1	None	None
19	None	ENSG00000225868	ENST00000433142	lincRNA	KNOWN	None	None	None	None	38324008	38345855	-1	None	None
19	None	ENSG00000225868	ENST00000587395	lincRNA	KNOWN	None	None	None	None	38324103	38344187	-1	None	None
19	None	ENSG00000225868	ENST00000592714	lincRNA	KNOWN	None	None	None	None	38327458	38344165	-1	None	None
8	OR7E160P	ENSG00000254817	ENST00000528715	processed_pseudogene	KNOWN	None	31233	None	None	11891155	11892121	-1	None	None
17	FAM215A	ENSG00000267496	ENST00000588043	protein_coding	KNOWN	None	17505	345	114	41994576	41995326	1	C17orf88	APR-2, LINC00530
10	None	ENSG00000232646	ENST00000442202	processed_pseudogene	KNOWN	None	None	None	None	74824884	74825225	1	None	None
11	CHRNA10	ENSG00000129749	ENST00000250699	protein_coding	KNOWN	CCDS7745	13800	1353	450	3686817	3692614	-1	None	None
11	CHRNA10	ENSG00000129749	ENST00000534359	protein_coding	PUTATIVE	None	13800	372	123	3687266	3692597	-1	None	None
11	CHRNA10	ENSG00000129749	ENST00000526599	nonsense_mediated_decay	KNOWN	None	13800	291	96	3687266	3692597	-1	None	None
11	CHRNA10	ENSG00000129749	ENST00000493827	processed_transcript	PUTATIVE	None	13800	None	None	3689730	3691117	-1	None	None
Y	TSPY15P	ENSG00000236786	ENST00000457163	unprocessed_pseudogene	KNOWN	None	37474	None	None	9385717	9388290	1	None	None
10	None	ENSG00000237768	ENST00000431293	antisense	KNOWN	None	None	None	None	74831053	74833766	1	None	None
X	CDKL5	ENSG00000008086	ENST00000379996	protein_coding	KNOWN	CCDS14186	11411	3093	1030	18443703	18671749	1	STK9	EIEE2
X	CDKL5	ENSG00000008086	ENST00000379989	protein_coding	KNOWN	CCDS14186	11411	3093	1030	18460308	18671745	1	STK9	EIEE2
X	CDKL5	ENSG00000008086	ENST00000463994	processed_transcript	KNOWN	None	11411	None	None	18622067	18638077	1	STK9	EIEE2
X	RPL32P35	ENSG00000223995	ENST00000415214	processed_pseudogene	KNOWN	None	36547	None	None	127972419	127972812	-1	None	None
17	None	ENSG00000261514	ENST00000565120	protein_coding	PUTATIVE	None	None	189	62	42015731	42016327	1	None	None
HG7_PATCH	TRBV12-4	ENSG00000259824	ENST00000565836	TR_V_gene	KNOWN	None	12186	347	114	142305349	142305854	1	None	TRBV124, TCRBV12S4, TCRBV8S2A1T
7	TAS2R60	ENSG00000185899	ENST00000332690	protein_coding	KNOWN	CCDS5885	20639	957	318	143140546	143141502	1	None	T2R60
12	RASSF8	ENSG00000123094	ENST00000381352	protein_coding	KNOWN	CCDS8705	13232	1179	392	26111962	26232825	1	C12orf2	HoJ-1
12	RASSF8	ENSG00000123094	ENST00000538081	processed_transcript	KNOWN	None	13232	None	None	26111991	26173401	1	C12orf2	HoJ-1
12	RASSF8	ENSG00000123094	ENST00000535907	protein_coding	KNOWN	None	13232	273	90	26111991	26217600	1	C12orf2	HoJ-1
12	RASSF8	ENSG00000123094	ENST00000405154	protein_coding	KNOWN	CCDS53765	13232	1260	419	26111991	26225802	1	C12orf2	HoJ-1
12	RASSF8	ENSG00000123094	ENST00000542865	protein_coding	KNOWN	CCDS53765	13232	1260	419	26126688	26222418	1	C12orf2	HoJ-1
12	RASSF8	ENSG00000123094	ENST00000542004	protein_coding	KNOWN	None	13232	659	218	26164669	26217986	1	C12orf2	HoJ-1
12	RASSF8	ENSG00000123094	ENST00000538365	processed_transcript	KNOWN	None	13232	None	None	26164711	26173433	1	C12orf2	HoJ-1
12	RASSF8	ENSG00000123094	ENST00000542315	protein_coding	KNOWN	None	13232	368	121	26174373	26217695	1	C12orf2	HoJ-1
12	RASSF8	ENSG00000123094	ENST00000537946	protein_coding	KNOWN	None	13232	89	28	26205497	26208365	1	C12orf2	HoJ-1
12	RASSF8	ENSG00000123094	ENST00000541218	protein_coding	KNOWN	None	13232	625	207	26205497	26217952	1	C12orf2	HoJ-1
12	RASSF8	ENSG00000123094	ENST00000282884	protein_coding	KNOWN	CCDS53765	13232	1260	419	26205497	26221944	1	C12orf2	HoJ-1
12	RASSF8	ENSG00000123094	ENST00000545413	protein_coding	KNOWN	None	13232	478	158	26205502	26217805	1	C12orf2	HoJ-1
12	RASSF8	ENSG00000123094	ENST00000539545	nonsense_mediated_decay	KNOWN	None	13232	627	208	26217961	26224645	1	C12orf2	HoJ-1
12	RASSF8	ENSG00000123094	ENST00000541490	protein_coding	KNOWN	CCDS53765	13232	1260	419	26147937	26225804	1	C12orf2	HoJ-1
19	RPSAP58	ENSG00000205246	ENST00000486528	protein_coding	PUTATIVE	None	36809	219	72	23945807	24010182	1	None	None
19	RPSAP58	ENSG00000205246	ENST00000496398	protein_coding	PUTATIVE	None	36809	888	295	23945816	24010937	1	None	None
19	RPSAP58	ENSG00000205246	ENST00000462186	processed_transcript	KNOWN	None	36809	None	None	23964883	23992317	1	None	None
19	RPSAP58	ENSG00000205246	ENST00000354585	protein_coding	KNOWN	None	36809	888	295	24009921	24010917	1	None	None
HG7_PATCH	TRBV12-5	ENSG00000260481	ENST00000568728	TR_V_gene	KNOWN	None	12187	347	114	142322555	142323065	1	None	TRBV125, TCRBV12S5, TCRBV8S3
16	None	ENSG00000214614	ENST00000566260	lincRNA	KNOWN	None	None	None	None	32896515	32900195	1	None	None
16	None	ENSG00000214614	ENST00000398669	lincRNA	KNOWN	None	None	None	None	32897547	32899949	1	None	None
16	None	ENSG00000214614	ENST00000562241	lincRNA	KNOWN	None	None	None	None	32897778	32898850	1	None	None
19	LPHN1	ENSG00000072071	ENST00000340736	protein_coding	KNOWN	CCDS32928	20973	4425	1474	14260750	14316999	-1	None	KIAA0821, CIRL1, LEC2
19	LPHN1	ENSG00000072071	ENST00000361434	protein_coding	KNOWN	CCDS12307	20973	4410	1469	14260765	14316981	-1	None	KIAA0821, CIRL1, LEC2
19	LPHN1	ENSG00000072071	ENST00000593005	protein_coding	PUTATIVE	None	20973	729	242	14261981	14263651	-1	None	KIAA0821, CIRL1, LEC2
19	LPHN1	ENSG00000072071	ENST00000592164	protein_coding	PUTATIVE	None	20973	791	262	14262020	14263662	-1	None	KIAA0821, CIRL1, LEC2
19	LPHN1	ENSG00000072071	ENST00000589616	protein_coding	PUTATIVE	None	20973	675	224	14269987	14272348	-1	None	KIAA0821, CIRL1, LEC2
19	LPHN1	ENSG00000072071	ENST00000588677	retained_intron	KNOWN	None	20973	None	None	14270301	14271392	-1	None	KIAA0821, CIRL1, LEC2
19	LPHN1	ENSG00000072071	ENST00000591528	processed_transcript	KNOWN	None	20973	None	None	14273760	14281546	-1	None	KIAA0821, CIRL1, LEC2
19	LPHN1	ENSG00000072071	ENST00000590223	retained_intron	KNOWN	None	20973	None	None	14281300	14288462	-1	None	KIAA0821, CIRL1, LEC2
19	None	ENSG00000269044	ENST00000598112	sense_intronic	KNOWN	None	None	None	None	16744614	16746080	-1	None	None
7	TAS2R41	ENSG00000221855	ENST00000408916	protein_coding	KNOWN	CCDS43663	18883	924	307	143174966	143175889	1	None	T2R59
HG7_PATCH	TRBV14	ENSG00000260915	ENST00000565754	TR_V_gene	KNOWN	None	12189	347	114	142329504	142329995	1	None	TCRBV14S1, TCRBV16S1A1N1
13	FRY	ENSG00000073910	ENST00000380250	protein_coding	KNOWN	CCDS41875	20367	9042	3013	32605437	32870794	1	C13orf14	bA37E23.1, 13CDNA73, CG003
13	FRY	ENSG00000073910	ENST00000463566	processed_transcript	KNOWN	None	20367	None	None	32605692	32612757	1	C13orf14	bA37E23.1, 13CDNA73, CG003
13	FRY	ENSG00000073910	ENST00000436046	protein_coding	KNOWN	None	20367	452	149	32635001	32691607	1	C13orf14	bA37E23.1, 13CDNA73, CG003
13	FRY	ENSG00000073910	ENST00000602645	retained_intron	KNOWN	None	20367	None	None	32828285	32852982	1	C13orf14	bA37E23.1, 13CDNA73, CG003
13	FRY	ENSG00000073910	ENST00000477712	nonsense_mediated_decay	KNOWN	None	20367	399	132	32836526	32863776	1	C13orf14	bA37E23.1, 13CDNA73, CG003
13	FRY	ENSG00000073910	ENST00000380217	protein_coding	KNOWN	None	20367	588	195	32861988	32869640	1	C13orf14	bA37E23.1, 13CDNA73, CG003
13	FRY	ENSG00000073910	ENST00000542859	protein_coding	KNOWN	None	20367	1152	383	32838805	32869779	1	C13orf14	bA37E23.1, 13CDNA73, CG003
4	SERF1AP1	ENSG00000250813	ENST00000514575	processed_pseudogene	KNOWN	None	44061	None	None	138222155	138222341	-1	None	None
4	ANXA3	ENSG00000138772	ENST00000264908	protein_coding	KNOWN	CCDS3584	541	972	323	79472673	79531575	1	ANX3	None
4	ANXA3	ENSG00000138772	ENST00000512884	protein_coding	PUTATIVE	None	541	855	284	79472901	79531569	1	ANX3	None
4	ANXA3	ENSG00000138772	ENST00000512542	protein_coding	PUTATIVE	None	541	166	54	79472911	79517041	1	ANX3	None
4	ANXA3	ENSG00000138772	ENST00000503570	protein_coding	PUTATIVE	None	541	855	284	79472912	79531540	1	ANX3	None
4	ANXA3	ENSG00000138772	ENST00000510502	retained_intron	KNOWN	None	541	None	None	79472924	79503575	1	ANX3	None
4	ANXA3	ENSG00000138772	ENST00000512373	protein_coding	KNOWN	None	541	313	103	79472981	79503445	1	ANX3	None
4	ANXA3	ENSG00000138772	ENST00000514171	protein_coding	KNOWN	None	541	463	153	79473121	79512757	1	ANX3	None
4	ANXA3	ENSG00000138772	ENST00000508214	protein_coding	KNOWN	None	541	403	133	79475074	79507504	1	ANX3	None
4	ANXA3	ENSG00000138772	ENST00000505805	retained_intron	KNOWN	None	541	None	None	79518227	79531517	1	ANX3	None
4	ANXA3	ENSG00000138772	ENST00000503776	retained_intron	KNOWN	None	541	None	None	79523018	79531597	1	ANX3	None
19	None	ENSG00000267904	ENST00000596816	sense_intronic	KNOWN	None	None	None	None	16750778	16751479	-1	None	None
19	None	ENSG00000229481	ENST00000443870	lincRNA	KNOWN	None	None	None	None	38320191	38322797	1	None	None
4	STMN1P2	ENSG00000251440	ENST00000508435	processed_pseudogene	KNOWN	None	44063	None	None	138346580	138347018	-1	None	None
15	NOX5	ENSG00000255346	ENST00000448182	protein_coding	PUTATIVE	None	14874	2160	719	69222864	69349073	1	None	NOX5A, NOX5B
15	NOX5	ENSG00000255346	ENST00000260364	protein_coding	PUTATIVE	None	14874	2244	747	69222864	69355083	1	None	NOX5A, NOX5B
15	NOX5	ENSG00000255346	ENST00000455873	protein_coding	KNOWN	CCDS53953	14874	2193	730	69222973	69349065	1	None	NOX5A, NOX5B
15	NOX5	ENSG00000255346	ENST00000388866	protein_coding	KNOWN	CCDS32276	14874	2298	765	69307034	69349501	1	None	NOX5A, NOX5B
15	NOX5	ENSG00000255346	ENST00000530406	protein_coding	KNOWN	CCDS53954	14874	2214	737	69307037	69349073	1	None	NOX5A, NOX5B
15	NOX5	ENSG00000255346	ENST00000527315	retained_intron	KNOWN	None	14874	None	None	69307071	69349462	1	None	NOX5A, NOX5B
15	NOX5	ENSG00000255346	ENST00000525143	nonsense_mediated_decay	KNOWN	None	14874	885	294	69324133	69349036	1	None	NOX5A, NOX5B
15	NOX5	ENSG00000255346	ENST00000525163	processed_transcript	KNOWN	None	14874	None	None	69338298	69341398	1	None	NOX5A, NOX5B
15	NOX5	ENSG00000255346	ENST00000529367	retained_intron	KNOWN	None	14874	None	None	69339429	69347840	1	None	NOX5A, NOX5B
7	None	ENSG00000271079	ENST00000420911	protein_coding	KNOWN	None	None	2334	777	143268894	143271480	1	None	None
Y	RBMY3AP	ENSG00000231436	ENST00000449381	unprocessed_pseudogene	KNOWN	None	23286	None	None	9448180	9458885	-1	None	SPATA14, RBMY4P, RBMY3P
4	RPS23P2	ENSG00000213448	ENST00000463671	processed_pseudogene	KNOWN	None	36568	None	None	138369241	138369655	1	None	None
15	COX5A	ENSG00000178741	ENST00000322347	protein_coding	KNOWN	CCDS10273	2267	453	150	75212132	75230509	-1	None	None
15	COX5A	ENSG00000178741	ENST00000562233	protein_coding	PUTATIVE	None	2267	255	84	75212616	75230411	-1	None	None
15	COX5A	ENSG00000178741	ENST00000567270	protein_coding	NOVEL	None	2267	336	111	75212616	75230421	-1	None	None
15	COX5A	ENSG00000178741	ENST00000568783	protein_coding	PUTATIVE	None	2267	462	153	75212621	75230424	-1	None	None
15	COX5A	ENSG00000178741	ENST00000568517	protein_coding	PUTATIVE	None	2267	210	69	75212653	75230117	-1	None	None
15	COX5A	ENSG00000178741	ENST00000564811	protein_coding	KNOWN	CCDS10273	2267	453	150	75215935	75230407	-1	None	None
10	None	ENSG00000201047	ENST00000364177	misc_RNA	NOVEL	None	None	None	None	74842252	74842353	-1	None	None
10	RHOBTB1	ENSG00000072422	ENST00000337910	protein_coding	KNOWN	CCDS7261	18738	2091	696	62629196	62704005	-1	None	KIAA0740
10	RHOBTB1	ENSG00000072422	ENST00000357917	protein_coding	KNOWN	CCDS7261	18738	2091	696	62629196	62761198	-1	None	KIAA0740
10	RHOBTB1	ENSG00000072422	ENST00000496237	processed_transcript	KNOWN	None	18738	None	None	62630932	62631425	-1	None	KIAA0740
10	RHOBTB1	ENSG00000072422	ENST00000461910	processed_transcript	KNOWN	None	18738	None	None	62630936	62632033	-1	None	KIAA0740
10	RHOBTB1	ENSG00000072422	ENST00000490827	processed_transcript	KNOWN	None	18738	None	None	62631230	62634801	-1	None	KIAA0740
10	RHOBTB1	ENSG00000072422	ENST00000483488	processed_transcript	KNOWN	None	18738	None	None	62636876	62648227	-1	None	KIAA0740
4	None	ENSG00000251632	ENST00000507365	lincRNA	KNOWN	None	None	None	None	138466885	138524584	1	None	None
10	None	ENSG00000221164	ENST00000408237	snoRNA	NOVEL	None	None	None	None	74885838	74885965	-1	None	None
22	SUN2	ENSG00000100242	ENST00000405510	protein_coding	KNOWN	CCDS13978	14210	2154	717	39130730	39151533	-1	UNC84B	None
22	SUN2	ENSG00000100242	ENST00000405018	protein_coding	NOVEL	CCDS56231	14210	2217	738	39130741	39152004	-1	UNC84B	None
22	SUN2	ENSG00000100242	ENST00000406622	protein_coding	KNOWN	CCDS13978	14210	2154	717	39131914	39190148	-1	UNC84B	None
22	SUN2	ENSG00000100242	ENST00000455125	protein_coding	PUTATIVE	None	14210	597	198	39133765	39135428	-1	UNC84B	None
22	SUN2	ENSG00000100242	ENST00000470642	retained_intron	KNOWN	None	14210	None	None	39134243	39135252	-1	UNC84B	None
22	SUN2	ENSG00000100242	ENST00000477262	retained_intron	KNOWN	None	14210	None	None	39134931	39138443	-1	UNC84B	None
22	SUN2	ENSG00000100242	ENST00000469086	retained_intron	KNOWN	None	14210	None	None	39135346	39138486	-1	UNC84B	None
22	SUN2	ENSG00000100242	ENST00000464202	retained_intron	KNOWN	None	14210	None	None	39136297	39138583	-1	UNC84B	None
22	SUN2	ENSG00000100242	ENST00000430185	protein_coding	PUTATIVE	None	14210	431	142	39141080	39146319	-1	UNC84B	None
22	SUN2	ENSG00000100242	ENST00000438058	protein_coding	KNOWN	None	14210	672	223	39141692	39152005	-1	UNC84B	None
22	SUN2	ENSG00000100242	ENST00000456894	protein_coding	KNOWN	None	14210	615	204	39145770	39150998	-1	UNC84B	None
22	SUN2	ENSG00000100242	ENST00000480307	retained_intron	KNOWN	None	14210	None	None	39145771	39147446	-1	UNC84B	None
22	SUN2	ENSG00000100242	ENST00000420859	protein_coding	KNOWN	None	14210	382	126	39146230	39150956	-1	UNC84B	None
22	SUN2	ENSG00000100242	ENST00000452294	protein_coding	KNOWN	None	14210	434	143	39146893	39150987	-1	UNC84B	None
22	SUN2	ENSG00000100242	ENST00000494273	retained_intron	KNOWN	None	14210	None	None	39146903	39150948	-1	UNC84B	None
22	SUN2	ENSG00000100242	ENST00000433561	protein_coding	KNOWN	None	14210	330	109	39146997	39151639	-1	UNC84B	None
22	SUN2	ENSG00000100242	ENST00000417332	protein_coding	KNOWN	None	14210	374	123	39147012	39150780	-1	UNC84B	None
22	SUN2	ENSG00000100242	ENST00000439339	protein_coding	KNOWN	None	14210	302	99	39147025	39151434	-1	UNC84B	None
22	SUN2	ENSG00000100242	ENST00000411587	protein_coding	KNOWN	None	14210	2121	706	39131958	39150956	-1	UNC84B	None
22	SUN2	ENSG00000100242	ENST00000216064	protein_coding	KNOWN	CCDS13978	14210	2154	717	39130735	39151947	-1	UNC84B	None
16	CYCSP39	ENSG00000260690	ENST00000565821	processed_pseudogene	KNOWN	None	24412	None	None	25465660	25465968	-1	None	HC1, HCP39
10	None	ENSG00000199201	ENST00000362331	misc_RNA	NOVEL	None	None	None	None	74951981	74952083	-1	None	None
7	ZC3HC1	ENSG00000091732	ENST00000358303	protein_coding	KNOWN	CCDS34753	29913	1509	502	129658126	129691291	-1	None	NIPA
7	ZC3HC1	ENSG00000091732	ENST00000360708	protein_coding	KNOWN	None	29913	1296	431	129658132	129691214	-1	None	NIPA
7	ZC3HC1	ENSG00000091732	ENST00000467642	nonsense_mediated_decay	KNOWN	None	29913	162	53	129658133	129691214	-1	None	NIPA
7	ZC3HC1	ENSG00000091732	ENST00000481503	protein_coding	NOVEL	None	29913	1380	459	129658166	129691229	-1	None	NIPA
7	ZC3HC1	ENSG00000091732	ENST00000477578	retained_intron	KNOWN	None	29913	None	None	129663404	129679466	-1	None	NIPA
7	ZC3HC1	ENSG00000091732	ENST00000471022	retained_intron	KNOWN	None	29913	None	None	129663517	129691209	-1	None	NIPA
7	ZC3HC1	ENSG00000091732	ENST00000483827	nonsense_mediated_decay	KNOWN	None	29913	150	49	129666076	129691214	-1	None	NIPA
7	ZC3HC1	ENSG00000091732	ENST00000480193	protein_coding	NOVEL	None	29913	560	185	129679115	129691209	-1	None	NIPA
7	ZC3HC1	ENSG00000091732	ENST00000470651	nonsense_mediated_decay	KNOWN	None	29913	153	50	129679347	129691217	-1	None	NIPA
7	ZC3HC1	ENSG00000091732	ENST00000484432	nonsense_mediated_decay	KNOWN	None	29913	288	95	129679359	129691225	-1	None	NIPA
7	ZC3HC1	ENSG00000091732	ENST00000311873	protein_coding	KNOWN	None	29913	1446	481	129658133	129691214	-1	None	NIPA
6	IFNGR1	ENSG00000027697	ENST00000367739	protein_coding	KNOWN	CCDS5185	5439	1470	489	137518621	137540586	-1	IFNGR	CD119
6	IFNGR1	ENSG00000027697	ENST00000458076	protein_coding	KNOWN	None	5439	631	209	137524636	137540586	-1	IFNGR	CD119
6	IFNGR1	ENSG00000027697	ENST00000414770	protein_coding	KNOWN	None	5439	485	160	137525500	137540586	-1	IFNGR	CD119
6	IFNGR1	ENSG00000027697	ENST00000478333	processed_transcript	KNOWN	None	5439	None	None	137527779	137540586	-1	IFNGR	CD119
6	IFNGR1	ENSG00000027697	ENST00000543628	protein_coding	KNOWN	None	5439	1386	461	137518969	137539651	-1	IFNGR	CD119
6	IFNGR1	ENSG00000027697	ENST00000367735	protein_coding	KNOWN	None	5439	561	186	137524684	137540499	-1	IFNGR	CD119
4	None	ENSG00000271646	ENST00000605834	lincRNA	KNOWN	None	None	None	None	185395956	185398458	1	None	None
10	EIF4A2P2	ENSG00000227382	ENST00000455776	processed_pseudogene	KNOWN	None	45099	None	None	74959584	74960983	1	None	None
8	MTND1P7	ENSG00000253828	ENST00000522536	processed_pseudogene	KNOWN	None	42102	None	None	47738850	47740031	-1	None	None
4	ETNPPL	ENSG00000164089	ENST00000296486	protein_coding	KNOWN	CCDS3682	14404	1500	499	109663196	109684209	-1	AGXT2L1	None
4	ETNPPL	ENSG00000164089	ENST00000411864	protein_coding	KNOWN	CCDS54793	14404	1482	493	109663204	109684164	-1	AGXT2L1	None
4	ETNPPL	ENSG00000164089	ENST00000512646	protein_coding	PUTATIVE	CCDS54792	14404	1326	441	109663548	109684120	-1	AGXT2L1	None
4	ETNPPL	ENSG00000164089	ENST00000510706	protein_coding	PUTATIVE	None	14404	1380	459	109663625	109684209	-1	AGXT2L1	None
4	ETNPPL	ENSG00000164089	ENST00000503912	retained_intron	KNOWN	None	14404	None	None	109668938	109672162	-1	AGXT2L1	None
4	ETNPPL	ENSG00000164089	ENST00000505233	nonsense_mediated_decay	KNOWN	None	14404	195	64	109670512	109684085	-1	AGXT2L1	None
4	ETNPPL	ENSG00000164089	ENST00000511923	retained_intron	KNOWN	None	14404	None	None	109674079	109675946	-1	AGXT2L1	None
4	ETNPPL	ENSG00000164089	ENST00000509402	nonsense_mediated_decay	KNOWN	None	14404	150	49	109674130	109684210	-1	AGXT2L1	None
4	ETNPPL	ENSG00000164089	ENST00000512320	protein_coding	PUTATIVE	None	14404	180	59	109677585	109683691	-1	AGXT2L1	None
4	ETNPPL	ENSG00000164089	ENST00000510723	protein_coding	PUTATIVE	None	14404	212	69	109677598	109683873	-1	AGXT2L1	None
HG388_HG400_PATCH	C11orf1	ENSG00000262176	ENST00000570777	protein_coding	PUTATIVE	None	1163	315	104	111749658	111754603	1	None	FLJ23499
HG388_HG400_PATCH	C11orf1	ENSG00000262176	ENST00000570851	protein_coding	KNOWN	None	1163	453	150	111749947	111756698	1	None	FLJ23499
HG388_HG400_PATCH	C11orf1	ENSG00000262176	ENST00000573000	protein_coding	PUTATIVE	None	1163	366	121	111750271	111754797	1	None	FLJ23499
HG388_HG400_PATCH	C11orf1	ENSG00000262176	ENST00000571998	protein_coding	PUTATIVE	None	1163	426	141	111750284	111754528	1	None	FLJ23499
HG388_HG400_PATCH	C11orf1	ENSG00000262176	ENST00000573356	protein_coding	PUTATIVE	None	1163	501	166	111751499	111754799	1	None	FLJ23499
5	None	ENSG00000248544	ENST00000508443	antisense	KNOWN	None	None	None	None	156802749	156811947	-1	None	None
5	None	ENSG00000248544	ENST00000520658	antisense	KNOWN	None	None	None	None	156807022	156811958	-1	None	None
14	None	ENSG00000258841	ENST00000553854	processed_pseudogene	KNOWN	None	None	None	None	82127772	82129218	1	None	None
6	NCOA7	ENSG00000111912	ENST00000368357	protein_coding	KNOWN	CCDS5132	21081	2829	942	126102307	126252257	1	None	ERAP140, dJ187J11.3, TLDC4
6	NCOA7	ENSG00000111912	ENST00000453302	protein_coding	KNOWN	None	21081	271	89	126112086	126176386	1	None	ERAP140, dJ187J11.3, TLDC4
6	NCOA7	ENSG00000111912	ENST00000417494	protein_coding	KNOWN	None	21081	573	190	126112086	126202349	1	None	ERAP140, dJ187J11.3, TLDC4
6	NCOA7	ENSG00000111912	ENST00000428318	protein_coding	KNOWN	None	21081	271	89	126131281	126176386	1	None	ERAP140, dJ187J11.3, TLDC4
6	NCOA7	ENSG00000111912	ENST00000487635	processed_transcript	KNOWN	None	21081	None	None	126136364	126176736	1	None	ERAP140, dJ187J11.3, TLDC4
6	NCOA7	ENSG00000111912	ENST00000419660	protein_coding	KNOWN	None	21081	351	116	126136364	126196114	1	None	ERAP140, dJ187J11.3, TLDC4
6	NCOA7	ENSG00000111912	ENST00000413085	protein_coding	KNOWN	None	21081	1321	439	126203572	126211127	1	None	ERAP140, dJ187J11.3, TLDC4
6	NCOA7	ENSG00000111912	ENST00000433571	protein_coding	KNOWN	None	21081	549	182	126221055	126248904	1	None	ERAP140, dJ187J11.3, TLDC4
6	NCOA7	ENSG00000111912	ENST00000448104	protein_coding	KNOWN	None	21081	567	188	126240451	126249393	1	None	ERAP140, dJ187J11.3, TLDC4
6	NCOA7	ENSG00000111912	ENST00000438495	protein_coding	KNOWN	None	21081	712	236	126240451	126252257	1	None	ERAP140, dJ187J11.3, TLDC4
6	NCOA7	ENSG00000111912	ENST00000444128	protein_coding	KNOWN	None	21081	532	176	126240451	126252257	1	None	ERAP140, dJ187J11.3, TLDC4
6	NCOA7	ENSG00000111912	ENST00000392477	protein_coding	KNOWN	CCDS5132	21081	2829	942	126112001	126252266	1	None	ERAP140, dJ187J11.3, TLDC4
6	NCOA7	ENSG00000111912	ENST00000229634	protein_coding	KNOWN	CCDS56448	21081	2484	827	126112111	126250173	1	None	ERAP140, dJ187J11.3, TLDC4
16	None	ENSG00000260255	ENST00000564266	processed_pseudogene	KNOWN	None	None	None	None	25836031	25837651	-1	None	None
10	DNAJC9-AS1	ENSG00000236756	ENST00000440197	antisense	KNOWN	None	31432	None	None	75007118	75036742	1	C10orf103	bA537A6.3
10	DNAJC9-AS1	ENSG00000236756	ENST00000513954	antisense	KNOWN	None	31432	None	None	75008141	75009116	1	C10orf103	bA537A6.3
11	CSTF3	ENSG00000176102	ENST00000528865	nonsense_mediated_decay	KNOWN	None	2485	274	90	33098734	33107450	-1	None	CstF-77
11	CSTF3	ENSG00000176102	ENST00000323959	protein_coding	KNOWN	CCDS7883	2485	2154	717	33106130	33183011	-1	None	CstF-77
11	CSTF3	ENSG00000176102	ENST00000524827	protein_coding	NOVEL	None	2485	558	185	33127425	33183006	-1	None	CstF-77
11	CSTF3	ENSG00000176102	ENST00000526480	processed_transcript	KNOWN	None	2485	None	None	33155959	33182967	-1	None	CstF-77
11	CSTF3	ENSG00000176102	ENST00000438862	protein_coding	KNOWN	CCDS44563	2485	312	103	33162512	33183077	-1	None	CstF-77
11	CSTF3	ENSG00000176102	ENST00000431742	protein_coding	KNOWN	CCDS44564	2485	135	44	33163011	33183037	-1	None	CstF-77
11	CSTF3	ENSG00000176102	ENST00000524556	nonsense_mediated_decay	KNOWN	None	2485	159	52	33163154	33183041	-1	None	CstF-77
11	CSTF3	ENSG00000176102	ENST00000524775	protein_coding	KNOWN	None	2485	184	60	33163254	33183917	-1	None	CstF-77
5	None	ENSG00000253155	ENST00000521237	processed_pseudogene	KNOWN	None	None	None	None	156849447	156849881	1	None	None
5	None	ENSG00000253519	ENST00000518054	antisense	KNOWN	None	None	None	None	156992972	156996106	1	None	None
21	TRPM2	ENSG00000142185	ENST00000300482	protein_coding	KNOWN	CCDS13710	12339	4512	1503	45770046	45862964	1	TRPC7	KNP3, LTRPC2, NUDT9L1, NUDT9H, EREG1
21	TRPM2	ENSG00000142185	ENST00000431901	protein_coding	KNOWN	None	12339	431	142	45770187	45786644	1	TRPC7	KNP3, LTRPC2, NUDT9L1, NUDT9H, EREG1
21	TRPM2	ENSG00000142185	ENST00000397928	protein_coding	KNOWN	CCDS13710	12339	4512	1503	45773139	45862964	1	TRPC7	KNP3, LTRPC2, NUDT9L1, NUDT9H, EREG1
21	TRPM2	ENSG00000142185	ENST00000397932	protein_coding	NOVEL	None	12339	4662	1553	45773571	45862241	1	TRPC7	KNP3, LTRPC2, NUDT9L1, NUDT9H, EREG1
21	TRPM2	ENSG00000142185	ENST00000300481	protein_coding	KNOWN	None	12339	4350	1449	45773571	45862964	1	TRPC7	KNP3, LTRPC2, NUDT9L1, NUDT9H, EREG1
21	TRPM2	ENSG00000142185	ENST00000498430	processed_transcript	PUTATIVE	None	12339	None	None	45789004	45862964	1	TRPC7	KNP3, LTRPC2, NUDT9L1, NUDT9H, EREG1
21	TRPM2	ENSG00000142185	ENST00000490982	processed_transcript	PUTATIVE	None	12339	None	None	45845439	45861757	1	TRPC7	KNP3, LTRPC2, NUDT9L1, NUDT9H, EREG1
16	MIR548W	ENSG00000265005	ENST00000581970	miRNA	KNOWN	None	38255	None	None	26036558	26036631	1	None	hsa-mir-548w
16	ASPHD1	ENSG00000174939	ENST00000563177	protein_coding	PUTATIVE	None	27380	320	105	29911696	29917208	1	None	None
16	ASPHD1	ENSG00000174939	ENST00000483405	protein_coding	PUTATIVE	None	27380	330	109	29911700	29917377	1	None	None
16	ASPHD1	ENSG00000174939	ENST00000308748	protein_coding	KNOWN	CCDS10660	27380	1173	390	29912041	29917377	1	None	None
16	ASPHD1	ENSG00000174939	ENST00000414952	nonsense_mediated_decay	KNOWN	CCDS10660	27380	1173	390	29912179	29930953	1	None	None
16	ASPHD1	ENSG00000174939	ENST00000566693	nonsense_mediated_decay	KNOWN	CCDS10660	27380	1173	390	29912179	29931185	1	None	None
21	SNRPGP13	ENSG00000231480	ENST00000442212	processed_pseudogene	KNOWN	None	39332	None	None	39874369	39874545	1	None	None
X	None	ENSG00000237490	ENST00000463344	processed_pseudogene	KNOWN	None	None	None	None	6907370	6907824	1	None	None
5	RNU6-390P	ENSG00000252068	ENST00000516259	snRNA	KNOWN	None	47353	None	None	157006505	157006607	1	None	None
X	None	ENSG00000228550	ENST00000447553	processed_pseudogene	KNOWN	None	None	None	None	7031046	7031445	-1	None	None
16	RNA5SP405	ENSG00000199929	ENST00000363059	rRNA	KNOWN	None	43305	None	None	26040233	26040346	1	RN5S405	None
7	TRBV11-2	ENSG00000241657	ENST00000471935	lincRNA	KNOWN	None	12181	None	None	142197570	142198069	-1	None	TRBV112, TCRBV11S2, TCRBV21S3A2N2T
5	None	ENSG00000254336	ENST00000517591	processed_pseudogene	KNOWN	None	None	None	None	157031715	157032645	-1	None	None
21	LINC00114	ENSG00000223806	ENST00000448579	lincRNA	KNOWN	None	1265	None	None	40110945	40113977	-1	C21orf24, NCRNA00114	None
21	LINC00114	ENSG00000223806	ENST00000411989	lincRNA	KNOWN	None	1265	None	None	40110945	40114441	-1	C21orf24, NCRNA00114	None
21	LINC00114	ENSG00000223806	ENST00000429621	lincRNA	KNOWN	None	1265	None	None	40110945	40119384	-1	C21orf24, NCRNA00114	None
14	None	ENSG00000270705	ENST00000605531	processed_pseudogene	KNOWN	None	None	None	None	103674085	103674126	1	None	None
7	TRBV12-1	ENSG00000244661	ENST00000479785	TR_V_pseudogene	KNOWN	None	12183	None	None	142216290	142216732	-1	None	TRBV121, TCRBV12S1, TCRBV8S4P
3	CEP97	ENSG00000182504	ENST00000341893	protein_coding	KNOWN	CCDS2944	26244	2598	865	101442769	101489406	1	LRRIQ2	FLJ23047
3	CEP97	ENSG00000182504	ENST00000489172	retained_intron	KNOWN	None	26244	None	None	101443437	101478356	1	LRRIQ2	FLJ23047
3	CEP97	ENSG00000182504	ENST00000494050	protein_coding	NOVEL	None	26244	2421	806	101443499	101484822	1	LRRIQ2	FLJ23047
3	CEP97	ENSG00000182504	ENST00000465011	nonsense_mediated_decay	KNOWN	None	26244	387	128	101443502	101451498	1	LRRIQ2	FLJ23047
3	CEP97	ENSG00000182504	ENST00000467655	nonsense_mediated_decay	KNOWN	None	26244	528	175	101446314	101483886	1	LRRIQ2	FLJ23047
3	CEP97	ENSG00000182504	ENST00000462076	processed_transcript	KNOWN	None	26244	None	None	101451455	101474322	1	LRRIQ2	FLJ23047
3	CEP97	ENSG00000182504	ENST00000327230	protein_coding	KNOWN	None	26244	2676	891	101443487	101489405	1	LRRIQ2	FLJ23047
4	None	ENSG00000249049	ENST00000502368	protein_coding	PUTATIVE	None	None	270	89	92240185	92246457	-1	None	None
8	None	ENSG00000253238	ENST00000522044	lincRNA	KNOWN	None	None	None	None	81178389	81252075	1	None	None
11	PLCB3	ENSG00000149782	ENST00000279230	protein_coding	KNOWN	CCDS8064	9056	3705	1234	64018995	64035393	1	None	None
11	PLCB3	ENSG00000149782	ENST00000540288	protein_coding	KNOWN	CCDS8064	9056	3705	1234	64019019	64036622	1	None	None
11	PLCB3	ENSG00000149782	ENST00000325234	protein_coding	NOVEL	CCDS53654	9056	3504	1167	64019047	64035395	1	None	None
11	PLCB3	ENSG00000149782	ENST00000536243	retained_intron	KNOWN	None	9056	None	None	64030852	64032478	1	None	None
12	PPP1CC	ENSG00000186298	ENST00000335007	protein_coding	KNOWN	CCDS9150	9283	972	323	111157485	111180703	-1	None	PP1C, PP1gamma
12	PPP1CC	ENSG00000186298	ENST00000340766	protein_coding	KNOWN	CCDS58279	9283	1014	337	111157713	111180744	-1	None	PP1C, PP1gamma
12	PPP1CC	ENSG00000186298	ENST00000550261	nonsense_mediated_decay	KNOWN	None	9283	163	53	111157788	111168560	-1	None	PP1C, PP1gamma
12	PPP1CC	ENSG00000186298	ENST00000546904	retained_intron	KNOWN	None	9283	None	None	111158171	111160272	-1	None	PP1C, PP1gamma
12	PPP1CC	ENSG00000186298	ENST00000551582	protein_coding	PUTATIVE	None	9283	252	83	111158535	111162519	-1	None	PP1C, PP1gamma
12	PPP1CC	ENSG00000186298	ENST00000553024	retained_intron	KNOWN	None	9283	None	None	111158553	111164484	-1	None	PP1C, PP1gamma
12	PPP1CC	ENSG00000186298	ENST00000546933	protein_coding	PUTATIVE	None	9283	999	332	111158726	111170788	-1	None	PP1C, PP1gamma
12	PPP1CC	ENSG00000186298	ENST00000550991	protein_coding	PUTATIVE	None	9283	915	304	111159106	111180678	-1	None	PP1C, PP1gamma
12	PPP1CC	ENSG00000186298	ENST00000551676	protein_coding	PUTATIVE	None	9283	813	270	111159575	111180644	-1	None	PP1C, PP1gamma
12	PPP1CC	ENSG00000186298	ENST00000551690	processed_transcript	KNOWN	None	9283	None	None	111169621	111180705	-1	None	PP1C, PP1gamma
11	None	ENSG00000254857	ENST00000524640	processed_pseudogene	KNOWN	None	None	None	None	18174824	18175802	1	None	None
15	None	ENSG00000259503	ENST00000558226	lincRNA	KNOWN	None	None	None	None	70613915	70619081	1	None	None
16	HSDL1	ENSG00000103160	ENST00000219439	protein_coding	KNOWN	CCDS10942	16475	993	330	84155886	84178793	-1	None	SDR12C3
16	HSDL1	ENSG00000103160	ENST00000565275	processed_transcript	KNOWN	None	16475	None	None	84156283	84156949	-1	None	SDR12C3
16	HSDL1	ENSG00000103160	ENST00000434463	protein_coding	KNOWN	CCDS54046	16475	828	275	84157728	84178774	-1	None	SDR12C3
16	HSDL1	ENSG00000103160	ENST00000568857	protein_coding	KNOWN	None	16475	333	110	84163924	84178043	-1	None	SDR12C3
16	HSDL1	ENSG00000103160	ENST00000562224	protein_coding	KNOWN	None	16475	324	107	84163933	84178761	-1	None	SDR12C3
16	HSDL1	ENSG00000103160	ENST00000567294	retained_intron	KNOWN	None	16475	None	None	84164566	84178797	-1	None	SDR12C3
16	HSDL1	ENSG00000103160	ENST00000564998	protein_coding	KNOWN	None	16475	211	69	84164716	84178780	-1	None	SDR12C3
5	GUSBP8	ENSG00000227762	ENST00000502652	unprocessed_pseudogene	KNOWN	None	42322	None	None	98868332	98870315	1	None	None
16	HMGN2P3	ENSG00000230330	ENST00000433603	processed_pseudogene	KNOWN	None	33566	None	None	26043860	26044132	-1	HMGN2L3	None
19	ZNF544	ENSG00000198131	ENST00000599227	protein_coding	PUTATIVE	None	16759	228	75	58739960	58775010	1	None	AF020591
19	ZNF544	ENSG00000198131	ENST00000602260	retained_intron	KNOWN	None	16759	None	None	58740280	58741352	1	None	AF020591
19	ZNF544	ENSG00000198131	ENST00000597564	processed_transcript	KNOWN	None	16759	None	None	58740280	58741662	1	None	AF020591
19	ZNF544	ENSG00000198131	ENST00000597240	protein_coding	PUTATIVE	None	16759	291	96	58740280	58758694	1	None	AF020591
19	ZNF544	ENSG00000198131	ENST00000594384	protein_coding	PUTATIVE	None	16759	228	75	58740280	58772331	1	None	AF020591
19	ZNF544	ENSG00000198131	ENST00000596597	processed_transcript	KNOWN	None	16759	None	None	58740285	58758182	1	None	AF020591
19	ZNF544	ENSG00000198131	ENST00000594303	processed_transcript	KNOWN	None	16759	None	None	58740307	58741438	1	None	AF020591
19	ZNF544	ENSG00000198131	ENST00000596825	protein_coding	PUTATIVE	None	16759	228	75	58740341	58775010	1	None	AF020591
19	ZNF544	ENSG00000198131	ENST00000600775	processed_transcript	KNOWN	None	16759	None	None	58740831	58758977	1	None	AF020591
19	ZNF544	ENSG00000198131	ENST00000598880	processed_transcript	KNOWN	None	16759	None	None	58740831	58772618	1	None	AF020591
19	ZNF544	ENSG00000198131	ENST00000599953	protein_coding	PUTATIVE	None	16759	1722	573	58740831	58774322	1	None	AF020591
19	ZNF544	ENSG00000198131	ENST00000596652	protein_coding	KNOWN	CCDS12973	16759	2148	715	58740831	58774556	1	None	AF020591
19	ZNF544	ENSG00000198131	ENST00000600044	protein_coding	NOVEL	None	16759	2064	687	58740831	58774571	1	None	AF020591
19	ZNF544	ENSG00000198131	ENST00000600220	protein_coding	NOVEL	None	16759	2064	687	58740831	58774659	1	None	AF020591
19	ZNF544	ENSG00000198131	ENST00000596677	nonsense_mediated_decay	KNOWN	None	16759	225	74	58740831	58774845	1	None	AF020591
19	ZNF544	ENSG00000198131	ENST00000596929	protein_coding	PUTATIVE	None	16759	294	97	58740831	58788613	1	None	AF020591
19	ZNF544	ENSG00000198131	ENST00000595981	protein_coding	PUTATIVE	None	16759	420	139	58740834	58788815	1	None	AF020591
19	ZNF544	ENSG00000198131	ENST00000599714	processed_transcript	KNOWN	None	16759	None	None	58740837	58743186	1	None	AF020591
19	ZNF544	ENSG00000198131	ENST00000269829	protein_coding	KNOWN	CCDS12973	16759	2148	715	58740070	58775010	1	None	AF020591
19	ZNF544	ENSG00000198131	ENST00000415203	protein_coding	KNOWN	None	16759	2064	687	58755328	58774659	1	None	AF020591
19	ZNF544	ENSG00000198131	ENST00000333581	protein_coding	KNOWN	None	16759	321	106	58740831	58763067	1	None	AF020591
HG7_PATCH	TRBV15	ENSG00000261414	ENST00000562412	TR_V_gene	KNOWN	None	12190	344	113	142334564	142335109	1	None	TCRBV15S1, TCRBV24S1A3T
14	RPL21P13	ENSG00000242837	ENST00000488305	processed_pseudogene	KNOWN	None	19812	None	None	103707829	103708309	1	None	None
19	ZNF726	ENSG00000213967	ENST00000525354	protein_coding	KNOWN	None	32462	270	89	24097678	24106695	1	None	None
19	ZNF726	ENSG00000213967	ENST00000334589	protein_coding	PUTATIVE	None	32462	327	108	24097679	24127961	1	None	None
19	ZNF726	ENSG00000213967	ENST00000531821	protein_coding	KNOWN	None	32462	234	77	24097684	24104343	1	None	None
19	ZNF726	ENSG00000213967	ENST00000594466	protein_coding	PUTATIVE	CCDS59372	32462	1851	616	24097692	24117286	1	None	None
19	ZNF726	ENSG00000213967	ENST00000575986	protein_coding	PUTATIVE	None	32462	330	109	24097721	24127515	1	None	None
19	ZNF726	ENSG00000213967	ENST00000322487	protein_coding	KNOWN	None	32462	2217	738	24097712	24118276	1	None	None
8	None	ENSG00000213791	ENST00000472088	processed_pseudogene	KNOWN	None	None	None	None	81213104	81213716	1	None	None
11	C11orf72	ENSG00000184224	ENST00000333139	protein_coding	KNOWN	None	26915	756	251	67370351	67374177	-1	None	FLJ90834
11	C11orf72	ENSG00000184224	ENST00000446232	protein_coding	KNOWN	None	26915	756	251	67371524	67373435	-1	None	FLJ90834
5	None	ENSG00000253798	ENST00000522076	antisense	KNOWN	None	None	None	None	157109993	157117274	-1	None	None
20	NKX2-4	ENSG00000125816	ENST00000351817	protein_coding	KNOWN	CCDS42855	7837	1065	354	21376005	21378666	-1	NKX2D	NKX2.4
HG7_PATCH	TRBV16	ENSG00000260028	ENST00000563122	TR_V_gene	KNOWN	None	12191	347	114	142339652	142340105	1	None	TCRBV16S1, TCRBV25S1A2PT
7	TRBV8-2	ENSG00000239944	ENST00000475637	TR_V_pseudogene	KNOWN	None	12245	None	None	142245303	142245572	-1	None	TRBV82, TCRBV32S1P
16	None	ENSG00000237140	ENST00000426640	processed_pseudogene	KNOWN	None	None	None	None	26074071	26074418	-1	None	None
7	TRBV5-2	ENSG00000242771	ENST00000489095	TR_V_pseudogene	KNOWN	None	12219	None	None	142259059	142259331	-1	None	TRBV52, TCRBV31S1, TCRBV5S2P
15	None	ENSG00000259473	ENST00000559752	lincRNA	KNOWN	None	None	None	None	70796246	70798267	-1	None	None
11	None	ENSG00000254579	ENST00000526618	processed_pseudogene	KNOWN	None	None	None	None	40466854	40468691	-1	None	None
HG7_PATCH	TRBV17	ENSG00000261112	ENST00000568296	TR_V_gene	KNOWN	None	12192	344	113	142343262	142343994	1	None	TCRBV17S1, TCRBV26S1P
11	None	ENSG00000221037	ENST00000408110	miRNA	NOVEL	None	None	None	None	18204623	18204712	1	None	None
14	None	ENSG00000270938	ENST00000605103	transcribed_processed_pseudogene	KNOWN	None	None	None	None	103745560	103746037	1	None	None
14	None	ENSG00000270938	ENST00000605179	processed_transcript	KNOWN	None	None	None	None	103745650	103746292	1	None	None
9	IKBKAP	ENSG00000070061	ENST00000495759	nonsense_mediated_decay	KNOWN	None	5959	1040	345	111629797	111655363	-1	DYS	IKAP, TOT1, ELP1, IKI3
9	IKBKAP	ENSG00000070061	ENST00000374647	protein_coding	KNOWN	CCDS6773	5959	3999	1332	111629797	111696396	-1	DYS	IKAP, TOT1, ELP1, IKI3
9	IKBKAP	ENSG00000070061	ENST00000467959	processed_transcript	KNOWN	None	5959	None	None	111641741	111651964	-1	DYS	IKAP, TOT1, ELP1, IKI3
9	IKBKAP	ENSG00000070061	ENST00000537196	protein_coding	KNOWN	None	5959	2952	983	111630921	111696233	-1	DYS	IKAP, TOT1, ELP1, IKI3
13	None	ENSG00000221324	ENST00000408397	miRNA	NOVEL	None	None	None	None	25820669	25820753	1	None	None
11	None	ENSG00000224002	ENST00000413843	pseudogene	NOVEL	None	None	None	None	18210435	18211041	-1	None	None
5	None	ENSG00000253630	ENST00000518369	unprocessed_pseudogene	KNOWN	None	None	None	None	157174512	157174715	-1	None	None
13	None	ENSG00000260509	ENST00000568856	lincRNA	KNOWN	None	None	None	None	25874262	25875576	-1	None	None
7	TRBV8-1	ENSG00000243889	ENST00000481590	TR_V_pseudogene	KNOWN	None	12244	None	None	142273056	142273334	-1	None	TRBV81, TCRBV30S1P, TCRBV8S1P
15	None	ENSG00000259227	ENST00000558111	processed_pseudogene	KNOWN	None	None	None	None	70894463	70894855	1	None	None
HG185_PATCH	GAST	ENSG00000260334	ENST00000561776	protein_coding	KNOWN	None	4164	306	101	39868578	39872221	1	GAS	None
12	SCARNA10	ENSG00000239002	ENST00000541782	sense_intronic	KNOWN	None	32567	None	None	6619441	6619688	1	None	U85
12	SCARNA10	ENSG00000239002	ENST00000459255	snoRNA	KNOWN	None	32567	None	None	6619388	6619717	1	None	U85
4	UGT2B7	ENSG00000171234	ENST00000502942	protein_coding	PUTATIVE	None	12554	468	155	69917081	69973945	1	None	UGT2B9
4	UGT2B7	ENSG00000171234	ENST00000509763	processed_transcript	KNOWN	None	12554	None	None	69917194	69978290	1	None	UGT2B9
4	UGT2B7	ENSG00000171234	ENST00000305231	protein_coding	KNOWN	CCDS3526	12554	1590	529	69962193	69978705	1	None	UGT2B9
4	UGT2B7	ENSG00000171234	ENST00000508661	protein_coding	PUTATIVE	None	12554	1110	369	69962212	69978690	1	None	UGT2B9
13	TCEB2P1	ENSG00000234152	ENST00000447693	processed_pseudogene	KNOWN	None	39719	None	None	25939937	25940293	-1	None	None
8	None	ENSG00000206649	ENST00000383922	snoRNA	NOVEL	None	None	None	None	81229174	81229304	-1	None	None
16	NUP93	ENSG00000102900	ENST00000308159	protein_coding	KNOWN	CCDS10769	28958	2460	819	56764017	56878681	1	None	KIAA0095
16	NUP93	ENSG00000102900	ENST00000563858	protein_coding	PUTATIVE	None	28958	689	228	56764030	56866265	1	None	KIAA0095
16	NUP93	ENSG00000102900	ENST00000566315	protein_coding	KNOWN	None	28958	454	150	56764041	56839509	1	None	KIAA0095
16	NUP93	ENSG00000102900	ENST00000569842	protein_coding	PUTATIVE	None	28958	2643	880	56764042	56878681	1	None	KIAA0095
16	NUP93	ENSG00000102900	ENST00000569863	protein_coding	KNOWN	None	28958	377	124	56764061	56857710	1	None	KIAA0095
16	NUP93	ENSG00000102900	ENST00000562496	protein_coding	KNOWN	None	28958	409	135	56774626	56839464	1	None	KIAA0095
16	NUP93	ENSG00000102900	ENST00000568656	protein_coding	KNOWN	None	28958	535	177	56781823	56852621	1	None	KIAA0095
16	NUP93	ENSG00000102900	ENST00000566678	protein_coding	PUTATIVE	None	28958	397	131	56782261	56839598	1	None	KIAA0095
16	NUP93	ENSG00000102900	ENST00000564887	protein_coding	KNOWN	CCDS55996	28958	2091	696	56815570	56878676	1	None	KIAA0095
16	NUP93	ENSG00000102900	ENST00000569595	processed_transcript	PUTATIVE	None	28958	None	None	56815741	56839527	1	None	KIAA0095
16	NUP93	ENSG00000102900	ENST00000566727	processed_transcript	KNOWN	None	28958	None	None	56815741	56855454	1	None	KIAA0095
16	NUP93	ENSG00000102900	ENST00000567641	protein_coding	KNOWN	None	28958	470	155	56816158	56862933	1	None	KIAA0095
16	NUP93	ENSG00000102900	ENST00000568283	protein_coding	KNOWN	None	28958	120	39	56816162	56839544	1	None	KIAA0095
16	NUP93	ENSG00000102900	ENST00000567081	protein_coding	KNOWN	None	28958	50	15	56817292	56839474	1	None	KIAA0095
16	NUP93	ENSG00000102900	ENST00000542526	protein_coding	KNOWN	CCDS55996	28958	2091	696	56817368	56878797	1	None	KIAA0095
16	NUP93	ENSG00000102900	ENST00000563437	retained_intron	KNOWN	None	28958	None	None	56865427	56867301	1	None	KIAA0095
16	NUP93	ENSG00000102900	ENST00000563405	protein_coding	PUTATIVE	None	28958	354	117	56870537	56873128	1	None	KIAA0095
16	NUP93	ENSG00000102900	ENST00000563486	protein_coding	PUTATIVE	None	28958	421	139	56871537	56873847	1	None	KIAA0095
16	NUP93	ENSG00000102900	ENST00000569322	protein_coding	PUTATIVE	None	28958	255	84	56872922	56878676	1	None	KIAA0095
16	NUP93	ENSG00000102900	ENST00000564278	retained_intron	KNOWN	None	28958	None	None	56873312	56878664	1	None	KIAA0095
16	NUP93	ENSG00000102900	ENST00000563465	retained_intron	KNOWN	None	28958	None	None	56875553	56878675	1	None	KIAA0095
11	GLTPP1	ENSG00000255138	ENST00000528859	processed_pseudogene	KNOWN	None	33991	None	None	18210547	18211168	1	None	None
9	None	ENSG00000230848	ENST00000414976	antisense	KNOWN	None	None	None	None	130801414	130819641	-1	None	None
7	None	ENSG00000261462	ENST00000561473	lincRNA	KNOWN	None	None	None	None	86738855	86740598	1	None	None
7	NMD3P2	ENSG00000231504	ENST00000421815	processed_pseudogene	KNOWN	None	37820	None	None	56569977	56570737	-1	None	None
8	None	ENSG00000253237	ENST00000520293	processed_pseudogene	KNOWN	None	None	None	None	81263367	81263651	1	None	None
11	None	ENSG00000266526	ENST00000583526	miRNA	NOVEL	None	None	None	None	40635652	40635765	1	None	None
16	None	ENSG00000231876	ENST00000595007	lincRNA	KNOWN	None	None	None	None	26329428	26333865	1	None	None
16	None	ENSG00000231876	ENST00000598600	lincRNA	KNOWN	None	None	None	None	26329450	26333865	1	None	None
16	None	ENSG00000231876	ENST00000452511	lincRNA	KNOWN	None	None	None	None	26329467	26334302	1	None	None
16	None	ENSG00000231876	ENST00000417476	lincRNA	KNOWN	None	None	None	None	26329467	26345749	1	None	None
16	None	ENSG00000231876	ENST00000432973	lincRNA	KNOWN	None	None	None	None	26333549	26345711	1	None	None
16	None	ENSG00000231876	ENST00000596241	lincRNA	KNOWN	None	None	None	None	26333833	26334382	1	None	None
7	TRBV21-1	ENSG00000251578	ENST00000453262	TR_V_pseudogene	KNOWN	None	12198	None	None	142344427	142344887	1	None	TRBV211, TCRBV10S1P, TCRBV21S1
20	NKX2-2	ENSG00000125820	ENST00000377142	protein_coding	KNOWN	CCDS13145	7835	822	273	21491648	21494664	-1	NKX2B	NKX2.2
14	None	ENSG00000240624	ENST00000494237	processed_pseudogene	KNOWN	None	None	None	None	103749270	103749805	1	None	None
9	WDR31	ENSG00000148225	ENST00000341761	protein_coding	KNOWN	CCDS6792	21421	1101	366	116075502	116102549	-1	None	FLJ35921
9	WDR31	ENSG00000148225	ENST00000374193	protein_coding	KNOWN	CCDS35110	21421	1104	367	116075502	116102562	-1	None	FLJ35921
9	WDR31	ENSG00000148225	ENST00000461942	processed_transcript	KNOWN	None	21421	None	None	116077951	116102536	-1	None	FLJ35921
9	WDR31	ENSG00000148225	ENST00000465205	nonsense_mediated_decay	KNOWN	None	21421	156	51	116077964	116102534	-1	None	FLJ35921
9	WDR31	ENSG00000148225	ENST00000465979	protein_coding	PUTATIVE	None	21421	423	140	116083802	116102578	-1	None	FLJ35921
9	WDR31	ENSG00000148225	ENST00000374195	protein_coding	KNOWN	None	21421	729	242	116077964	116102534	-1	None	FLJ35921
12	None	ENSG00000255966	ENST00000537921	antisense	KNOWN	None	None	None	None	6641456	6642664	-1	None	None
15	None	ENSG00000259532	ENST00000558429	lincRNA	KNOWN	None	None	None	None	71041271	71046516	1	None	None
18	CCDC58P3	ENSG00000267076	ENST00000590792	processed_pseudogene	KNOWN	None	45026	None	None	12211377	12211806	1	None	None
11	None	ENSG00000254546	ENST00000529793	processed_pseudogene	KNOWN	None	None	None	None	18218204	18218884	1	None	None
7	None	ENSG00000224046	ENST00000433446	processed_transcript	KNOWN	None	None	None	None	86780739	86781598	-1	None	None
7	None	ENSG00000224046	ENST00000446309	processed_transcript	PUTATIVE	None	None	None	None	86780756	86781736	-1	None	None
11	None	ENSG00000221357	ENST00000408430	miRNA	NOVEL	None	None	None	None	40781072	40781155	1	None	None
HG7_PATCH	TRBV18	ENSG00000260204	ENST00000566373	TR_V_gene	KNOWN	None	12193	347	114	142357299	142357998	1	None	TCRBV18S1
12	None	ENSG00000269968	ENST00000602946	antisense	KNOWN	None	None	None	None	6646960	6647536	-1	None	None
18	None	ENSG00000267247	ENST00000592370	lincRNA	KNOWN	None	None	None	None	12230410	12231572	-1	None	None
3	C3orf37	ENSG00000183624	ENST00000509042	protein_coding	PUTATIVE	None	24446	847	281	128997671	129023594	1	C3orf37	DC12, SRAPD1
3	C3orf37	ENSG00000183624	ENST00000383463	protein_coding	KNOWN	CCDS33852	24446	1065	354	128997683	129025029	1	C3orf37	DC12, SRAPD1
3	C3orf37	ENSG00000183624	ENST00000417226	protein_coding	NOVEL	None	24446	939	312	128997689	129024136	1	C3orf37	DC12, SRAPD1
3	C3orf37	ENSG00000183624	ENST00000510314	protein_coding	PUTATIVE	None	24446	550	182	128997723	129020977	1	C3orf37	DC12, SRAPD1
3	C3orf37	ENSG00000183624	ENST00000502878	protein_coding	KNOWN	CCDS33852	24446	1065	354	128997799	129024284	1	C3orf37	DC12, SRAPD1
3	C3orf37	ENSG00000183624	ENST00000389735	protein_coding	KNOWN	CCDS33852	24446	1065	354	128997817	129024105	1	C3orf37	DC12, SRAPD1
3	C3orf37	ENSG00000183624	ENST00000509551	protein_coding	PUTATIVE	None	24446	700	232	128997836	129020857	1	C3orf37	DC12, SRAPD1
3	C3orf37	ENSG00000183624	ENST00000511665	protein_coding	PUTATIVE	None	24446	421	139	128997848	129020848	1	C3orf37	DC12, SRAPD1
8	RNU6-1213P	ENSG00000252884	ENST00000517075	snRNA	KNOWN	None	48176	None	None	81317751	81317844	1	None	None
6	None	ENSG00000236355	ENST00000439844	lincRNA	KNOWN	None	None	None	None	38681827	38682993	-1	None	None
10	None	ENSG00000227540	ENST00000457147	antisense	KNOWN	None	None	None	None	75012549	75014107	1	None	None
10	None	ENSG00000227540	ENST00000457758	antisense	KNOWN	None	None	None	None	75012790	75014102	1	None	None
10	None	ENSG00000227540	ENST00000394864	antisense	KNOWN	None	None	None	None	75012927	75014107	1	None	None
15	RNA5SP391	ENSG00000200326	ENST00000363456	rRNA	KNOWN	None	43291	None	None	27525465	27525583	-1	RN5S391	None
5	RNU6-260P	ENSG00000206819	ENST00000384092	snRNA	KNOWN	None	47223	None	None	157236106	157236212	1	None	None
14	None	ENSG00000259775	ENST00000563989	antisense	KNOWN	None	None	None	None	103798011	103798704	-1	None	None
19	ZNF180	ENSG00000167384	ENST00000391956	protein_coding	NOVEL	None	12970	2004	667	44979854	45004572	-1	None	HHZ168
19	ZNF180	ENSG00000167384	ENST00000221327	protein_coding	KNOWN	CCDS12639	12970	2079	692	44979854	45004574	-1	None	HHZ168
19	ZNF180	ENSG00000167384	ENST00000592095	nonsense_mediated_decay	KNOWN	None	12970	153	50	44979856	45004547	-1	None	HHZ168
19	ZNF180	ENSG00000167384	ENST00000590088	nonsense_mediated_decay	KNOWN	None	12970	198	65	44979856	45004576	-1	None	HHZ168
19	ZNF180	ENSG00000167384	ENST00000592529	protein_coding	PUTATIVE	None	12970	1998	665	44979861	45004575	-1	None	HHZ168
19	ZNF180	ENSG00000167384	ENST00000586637	protein_coding	PUTATIVE	None	12970	417	138	44982007	45004574	-1	None	HHZ168
19	ZNF180	ENSG00000167384	ENST00000591064	protein_coding	PUTATIVE	None	12970	551	182	44982066	45004574	-1	None	HHZ168
19	ZNF180	ENSG00000167384	ENST00000587047	protein_coding	NOVEL	None	12970	198	65	44982321	45004562	-1	None	HHZ168
19	ZNF180	ENSG00000167384	ENST00000585514	processed_transcript	KNOWN	None	12970	None	None	44983627	45004574	-1	None	HHZ168
19	ZNF180	ENSG00000167384	ENST00000592140	processed_transcript	KNOWN	None	12970	None	None	45000609	45004571	-1	None	HHZ168
19	ZNF180	ENSG00000167384	ENST00000590366	processed_transcript	KNOWN	None	12970	None	None	45000609	45004575	-1	None	HHZ168
18	None	ENSG00000267663	ENST00000590066	processed_pseudogene	KNOWN	None	None	None	None	12246588	12247054	1	None	None
7	TRBV22-1	ENSG00000240578	ENST00000424543	TR_V_pseudogene	KNOWN	None	12200	None	None	142349249	142349699	1	TRBV22	TCRBV22S1, TCRBV29S1P
11	RNU6-365P	ENSG00000252922	ENST00000517113	snRNA	KNOWN	None	47328	None	None	41144457	41144562	-1	None	None
15	None	ENSG00000258624	ENST00000554978	processed_pseudogene	KNOWN	None	None	None	None	27585671	27585951	1	None	None
7	None	ENSG00000219445	ENST00000420224	processed_transcript	KNOWN	None	None	None	None	124869633	124904345	-1	None	None
HG7_PATCH	TRBV19	ENSG00000260424	ENST00000566680	TR_V_gene	KNOWN	None	12194	344	113	142360432	142361115	1	None	TCRBV17S1A1T, TCRBV19S1
8	None	ENSG00000251867	ENST00000605948	antisense	KNOWN	None	None	None	None	81396796	81397854	-1	None	None
8	None	ENSG00000251867	ENST00000516058	misc_RNA	NOVEL	None	None	None	None	81396824	81396918	-1	None	None
14	PNP	ENSG00000198805	ENST00000553418	protein_coding	KNOWN	None	7892	281	92	20937113	20942730	1	NP	PUNP
14	PNP	ENSG00000198805	ENST00000361505	protein_coding	KNOWN	CCDS9552	7892	870	289	20937538	20945253	1	NP	PUNP
14	PNP	ENSG00000198805	ENST00000556293	retained_intron	KNOWN	None	7892	None	None	20937565	20941359	1	NP	PUNP
14	PNP	ENSG00000198805	ENST00000557229	retained_intron	KNOWN	None	7892	None	None	20937565	20943322	1	NP	PUNP
14	PNP	ENSG00000198805	ENST00000554056	retained_intron	KNOWN	None	7892	None	None	20937573	20945217	1	NP	PUNP
14	PNP	ENSG00000198805	ENST00000553591	protein_coding	PUTATIVE	None	7892	663	220	20937700	20943305	1	NP	PUNP
14	PNP	ENSG00000198805	ENST00000554065	protein_coding	PUTATIVE	None	7892	184	60	20938685	20943067	1	NP	PUNP
14	PNP	ENSG00000198805	ENST00000556754	retained_intron	KNOWN	None	7892	None	None	20941543	20945246	1	NP	PUNP
3	RNU6-243P	ENSG00000212442	ENST00000391140	snRNA	KNOWN	None	47206	None	None	35298332	35298438	-1	None	None
18	None	ENSG00000267069	ENST00000586226	lincRNA	KNOWN	None	None	None	None	12288307	12291487	1	None	None
4	None	ENSG00000201633	ENST00000364763	misc_RNA	NOVEL	None	None	None	None	84557349	84557443	-1	None	None
11	None	ENSG00000255132	ENST00000524493	lincRNA	KNOWN	None	None	None	None	41416145	41448054	1	None	None
11	SAA2-SAA4	ENSG00000255071	ENST00000524555	processed_transcript	KNOWN	None	39550	None	None	18252970	18270182	-1	None	None
14	None	ENSG00000258649	ENST00000555655	lincRNA	KNOWN	None	None	None	None	38660188	38672128	1	None	None
HG115_PATCH	CUX1	ENSG00000259938	ENST00000561974	protein_coding	KNOWN	None	2557	2031	676	101459219	101927238	1	CUTL1	CDP, CDP1, CUX, CUT, Clox, CDP/Cut, CDP/Cux, Cux/CDP, CASP, GOLIM6
HG115_PATCH	CUX1	ENSG00000259938	ENST00000568902	retained_intron	KNOWN	None	2557	None	None	101459240	101755290	1	CUTL1	CDP, CDP1, CUX, CUT, Clox, CDP/Cut, CDP/Cux, Cux/CDP, CASP, GOLIM6
HG115_PATCH	CUX1	ENSG00000259938	ENST00000562243	protein_coding	KNOWN	None	2557	2037	678	101459285	101927237	1	CUTL1	CDP, CDP1, CUX, CUT, Clox, CDP/Cut, CDP/Cux, Cux/CDP, CASP, GOLIM6
HG115_PATCH	CUX1	ENSG00000259938	ENST00000565172	protein_coding	NOVEL	None	2557	1920	639	101459288	101926758	1	CUTL1	CDP, CDP1, CUX, CUT, Clox, CDP/Cut, CDP/Cux, Cux/CDP, CASP, GOLIM6
HG115_PATCH	CUX1	ENSG00000259938	ENST00000567764	protein_coding	NOVEL	None	2557	1989	662	101459289	101927237	1	CUTL1	CDP, CDP1, CUX, CUT, Clox, CDP/Cut, CDP/Cux, Cux/CDP, CASP, GOLIM6
HG115_PATCH	CUX1	ENSG00000259938	ENST00000569498	protein_coding	KNOWN	None	2557	4551	1516	101459291	101901513	1	CUTL1	CDP, CDP1, CUX, CUT, Clox, CDP/Cut, CDP/Cux, Cux/CDP, CASP, GOLIM6
HG115_PATCH	CUX1	ENSG00000259938	ENST00000562858	protein_coding	PUTATIVE	None	2557	1899	632	101459301	101927237	1	CUTL1	CDP, CDP1, CUX, CUT, Clox, CDP/Cut, CDP/Cux, Cux/CDP, CASP, GOLIM6
HG115_PATCH	CUX1	ENSG00000259938	ENST00000568166	protein_coding	KNOWN	None	2557	4518	1505	101460882	101901513	1	CUTL1	CDP, CDP1, CUX, CUT, Clox, CDP/Cut, CDP/Cux, Cux/CDP, CASP, GOLIM6
HG115_PATCH	CUX1	ENSG00000259938	ENST00000565244	protein_coding	KNOWN	None	2557	4452	1483	101460920	101892322	1	CUTL1	CDP, CDP1, CUX, CUT, Clox, CDP/Cut, CDP/Cux, Cux/CDP, CASP, GOLIM6
HG115_PATCH	CUX1	ENSG00000259938	ENST00000566988	protein_coding	KNOWN	None	2557	4350	1449	101460920	101892322	1	CUTL1	CDP, CDP1, CUX, CUT, Clox, CDP/Cut, CDP/Cux, Cux/CDP, CASP, GOLIM6
HG115_PATCH	CUX1	ENSG00000259938	ENST00000568052	protein_coding	KNOWN	None	2557	4212	1403	101460920	101892322	1	CUTL1	CDP, CDP1, CUX, CUT, Clox, CDP/Cut, CDP/Cux, Cux/CDP, CASP, GOLIM6
HG115_PATCH	CUX1	ENSG00000259938	ENST00000562419	protein_coding	KNOWN	None	2557	4044	1347	101460920	101892322	1	CUTL1	CDP, CDP1, CUX, CUT, Clox, CDP/Cut, CDP/Cux, Cux/CDP, CASP, GOLIM6
HG115_PATCH	CUX1	ENSG00000259938	ENST00000569379	processed_transcript	KNOWN	None	2557	None	None	101462201	101755006	1	CUTL1	CDP, CDP1, CUX, CUT, Clox, CDP/Cut, CDP/Cux, Cux/CDP, CASP, GOLIM6
HG115_PATCH	CUX1	ENSG00000259938	ENST00000566145	protein_coding	PUTATIVE	None	2557	2079	692	101556068	101927237	1	CUTL1	CDP, CDP1, CUX, CUT, Clox, CDP/Cut, CDP/Cux, Cux/CDP, CASP, GOLIM6
HG115_PATCH	CUX1	ENSG00000259938	ENST00000569587	protein_coding	PUTATIVE	None	2557	1902	633	101575623	101927192	1	CUTL1	CDP, CDP1, CUX, CUT, Clox, CDP/Cut, CDP/Cux, Cux/CDP, CASP, GOLIM6
HG115_PATCH	CUX1	ENSG00000259938	ENST00000565033	processed_transcript	KNOWN	None	2557	None	None	101747616	101769058	1	CUTL1	CDP, CDP1, CUX, CUT, Clox, CDP/Cut, CDP/Cux, Cux/CDP, CASP, GOLIM6
HG115_PATCH	CUX1	ENSG00000259938	ENST00000562502	retained_intron	KNOWN	None	2557	None	None	101747717	101758950	1	CUTL1	CDP, CDP1, CUX, CUT, Clox, CDP/Cut, CDP/Cux, Cux/CDP, CASP, GOLIM6
HG115_PATCH	CUX1	ENSG00000259938	ENST00000566089	protein_coding	PUTATIVE	None	2557	724	240	101917454	101927212	1	CUTL1	CDP, CDP1, CUX, CUT, Clox, CDP/Cut, CDP/Cux, Cux/CDP, CASP, GOLIM6
15	RPUSD2	ENSG00000166133	ENST00000315616	protein_coding	KNOWN	CCDS10061	24180	1638	545	40861499	40866659	1	C15orf19	C18B11, FLJ31409
15	RPUSD2	ENSG00000166133	ENST00000559271	protein_coding	NOVEL	None	24180	1455	484	40861531	40866557	1	C15orf19	C18B11, FLJ31409
4	None	ENSG00000249171	ENST00000510169	lincRNA	KNOWN	None	None	None	None	84589663	84652908	-1	None	None
18	RNU6-170P	ENSG00000199702	ENST00000362832	snRNA	KNOWN	None	47133	None	None	12304090	12304193	-1	None	None
15	None	ENSG00000259624	ENST00000557828	antisense	KNOWN	None	None	None	None	71060350	71071207	-1	None	None
3	ARPP21-AS1	ENSG00000230830	ENST00000415706	antisense	KNOWN	None	40785	None	None	35691689	35693453	-1	None	None
8	None	ENSG00000254700	ENST00000528817	processed_pseudogene	KNOWN	None	None	None	None	11901015	11901179	-1	None	None
11	OR51H2P	ENSG00000198217	ENST00000413036	unprocessed_pseudogene	KNOWN	None	15199	None	None	4897787	4898692	1	None	None
18	RNU7-129P	ENSG00000251937	ENST00000516128	snRNA	KNOWN	None	45663	None	None	12400411	12400472	1	None	None
14	SNORA28	ENSG00000272533	ENST00000606769	snoRNA	KNOWN	None	32618	None	None	103804186	103804311	1	None	ACA28
18	None	ENSG00000256786	ENST00000430510	pseudogene	NOVEL	None	None	None	None	12431581	12432232	1	None	None
12	None	ENSG00000245667	ENST00000499202	antisense	KNOWN	None	None	None	None	6652670	6654097	1	None	None
19	ELL	ENSG00000105656	ENST00000262809	protein_coding	KNOWN	CCDS12380	23114	1866	621	18553473	18632937	-1	C19orf17	Men, ELL1, PPP1R68
19	ELL	ENSG00000105656	ENST00000594635	nonsense_mediated_decay	KNOWN	None	23114	218	71	18553475	18632858	-1	C19orf17	Men, ELL1, PPP1R68
19	ELL	ENSG00000105656	ENST00000596124	nonsense_mediated_decay	KNOWN	None	23114	211	69	18555561	18632848	-1	C19orf17	Men, ELL1, PPP1R68
19	ELL	ENSG00000105656	ENST00000599451	nonsense_mediated_decay	KNOWN	None	23114	504	167	18569131	18632877	-1	C19orf17	Men, ELL1, PPP1R68
19	ELL	ENSG00000105656	ENST00000596915	retained_intron	KNOWN	None	23114	None	None	18583217	18632877	-1	C19orf17	Men, ELL1, PPP1R68
X	None	ENSG00000234592	ENST00000458202	processed_pseudogene	KNOWN	None	None	None	None	128175513	128177160	-1	None	None
14	HMGB3P26	ENSG00000259428	ENST00000560051	processed_pseudogene	KNOWN	None	39318	None	None	103830576	103831157	-1	None	None
18	None	ENSG00000267108	ENST00000589843	lincRNA	KNOWN	None	None	None	None	12432896	12437634	1	None	None
3	RBP1	ENSG00000114115	ENST00000474490	retained_intron	KNOWN	None	9919	None	None	139236276	139237477	-1	None	CRABP-I, CRBP1, CRBP, RBPC, CRBPI
3	RBP1	ENSG00000114115	ENST00000232219	protein_coding	KNOWN	CCDS3110	9919	594	197	139236276	139258671	-1	None	CRABP-I, CRBP1, CRBP, RBPC, CRBPI
3	RBP1	ENSG00000114115	ENST00000483943	protein_coding	PUTATIVE	CCDS46925	9919	462	153	139243249	139258561	-1	None	CRABP-I, CRBP1, CRBP, RBPC, CRBPI
3	RBP1	ENSG00000114115	ENST00000487424	nonsense_mediated_decay	KNOWN	None	9919	453	150	139244541	139258530	-1	None	CRABP-I, CRBP1, CRBP, RBPC, CRBPI
3	RBP1	ENSG00000114115	ENST00000492918	protein_coding	KNOWN	CCDS46926	9919	474	157	139245247	139258671	-1	None	CRABP-I, CRBP1, CRBP, RBPC, CRBPI
7	TRBVA	ENSG00000239992	ENST00000498804	TR_V_pseudogene	KNOWN	None	12247	None	None	142389237	142389691	1	None	TCRBV33S1
4	None	ENSG00000250126	ENST00000505454	lincRNA	KNOWN	None	None	None	None	138566419	138576328	-1	None	None
10	RNU6-833P	ENSG00000200356	ENST00000363486	snRNA	KNOWN	None	47796	None	None	75038820	75038926	1	None	None
15	None	ENSG00000261426	ENST00000567953	sense_intronic	KNOWN	None	None	None	None	27607456	27611544	1	None	None
11	None	ENSG00000255388	ENST00000526978	lincRNA	KNOWN	None	None	None	None	41540445	41735998	-1	None	None
11	None	ENSG00000255388	ENST00000531210	lincRNA	KNOWN	None	None	None	None	41608285	41733958	-1	None	None
12	FGF6	ENSG00000111241	ENST00000535390	processed_transcript	KNOWN	None	3684	None	None	4537321	4537881	-1	None	None
12	FGF6	ENSG00000111241	ENST00000543077	protein_coding	PUTATIVE	None	3684	96	31	4537322	4553385	-1	None	None
12	FGF6	ENSG00000111241	ENST00000228837	protein_coding	KNOWN	CCDS8527	3684	627	208	4543309	4554780	-1	None	None
15	None	ENSG00000259452	ENST00000559892	processed_pseudogene	KNOWN	None	None	None	None	71083352	71083825	1	None	None
7	TRBV26	ENSG00000249912	ENST00000456572	TR_V_pseudogene	KNOWN	None	12207	None	None	142403511	142403995	1	None	TCRBV26S1, TCRBV28S1P
10	None	ENSG00000238983	ENST00000459292	snoRNA	NOVEL	None	None	None	None	75061539	75061642	-1	None	None
18	None	ENSG00000267199	ENST00000586591	antisense	KNOWN	None	None	None	None	12438889	12443535	1	None	None
18	None	ENSG00000267199	ENST00000588197	antisense	KNOWN	None	None	None	None	12442971	12447797	1	None	None
18	None	ENSG00000267199	ENST00000589795	antisense	KNOWN	None	None	None	None	12443295	12448204	1	None	None
14	None	ENSG00000264234	ENST00000584790	miRNA	NOVEL	None	None	None	None	38716912	38716980	1	None	None
18	GRP	ENSG00000134443	ENST00000256857	protein_coding	KNOWN	CCDS11971	4605	447	148	56887400	56898003	1	None	None
18	GRP	ENSG00000134443	ENST00000529320	protein_coding	KNOWN	CCDS45878	4605	417	138	56887404	56898002	1	None	None
18	GRP	ENSG00000134443	ENST00000420468	protein_coding	KNOWN	CCDS45877	4605	426	141	56887498	56897853	1	None	None
18	GRP	ENSG00000134443	ENST00000456142	protein_coding	NOVEL	None	4605	290	95	56892724	56898006	1	None	None
18	GRP	ENSG00000134443	ENST00000530323	protein_coding	NOVEL	None	4605	107	34	56892899	56897998	1	None	None
4	None	ENSG00000250777	ENST00000510922	lincRNA	KNOWN	None	None	None	None	138611631	138656131	-1	None	None
12	CCDC91	ENSG00000123106	ENST00000540794	protein_coding	PUTATIVE	None	24855	362	119	28286182	28605460	1	None	p56, FLJ11088, DKFZp779L1558
12	CCDC91	ENSG00000123106	ENST00000538586	protein_coding	KNOWN	None	24855	255	84	28299016	28458727	1	None	p56, FLJ11088, DKFZp779L1558
12	CCDC91	ENSG00000123106	ENST00000536154	protein_coding	PUTATIVE	None	24855	380	125	28299020	28637043	1	None	p56, FLJ11088, DKFZp779L1558
12	CCDC91	ENSG00000123106	ENST00000535520	nonsense_mediated_decay	KNOWN	None	24855	168	55	28332210	28702124	1	None	p56, FLJ11088, DKFZp779L1558
12	CCDC91	ENSG00000123106	ENST00000539107	protein_coding	KNOWN	None	24855	1218	405	28343360	28703099	1	None	p56, FLJ11088, DKFZp779L1558
12	CCDC91	ENSG00000123106	ENST00000536442	non_stop_decay	KNOWN	None	24855	1083	360	28343371	28605569	1	None	p56, FLJ11088, DKFZp779L1558
12	CCDC91	ENSG00000123106	ENST00000544649	processed_transcript	KNOWN	None	24855	None	None	28343377	28460682	1	None	p56, FLJ11088, DKFZp779L1558
12	CCDC91	ENSG00000123106	ENST00000545336	protein_coding	KNOWN	CCDS8716	24855	1326	441	28343379	28703099	1	None	p56, FLJ11088, DKFZp779L1558
12	CCDC91	ENSG00000123106	ENST00000544780	processed_transcript	KNOWN	None	24855	None	None	28343399	28408770	1	None	p56, FLJ11088, DKFZp779L1558
12	CCDC91	ENSG00000123106	ENST00000543534	protein_coding	KNOWN	None	24855	275	90	28344178	28459682	1	None	p56, FLJ11088, DKFZp779L1558
12	CCDC91	ENSG00000123106	ENST00000543809	nonsense_mediated_decay	KNOWN	None	24855	804	267	28408937	28702173	1	None	p56, FLJ11088, DKFZp779L1558
12	CCDC91	ENSG00000123106	ENST00000545737	non_stop_decay	KNOWN	None	24855	1087	361	28409658	28605573	1	None	p56, FLJ11088, DKFZp779L1558
12	CCDC91	ENSG00000123106	ENST00000540401	processed_transcript	KNOWN	None	24855	None	None	28421536	28702127	1	None	p56, FLJ11088, DKFZp779L1558
12	CCDC91	ENSG00000123106	ENST00000539904	processed_transcript	KNOWN	None	24855	None	None	28455567	28603192	1	None	p56, FLJ11088, DKFZp779L1558
12	CCDC91	ENSG00000123106	ENST00000535212	protein_coding	PUTATIVE	None	24855	327	108	28603331	28637162	1	None	p56, FLJ11088, DKFZp779L1558
12	CCDC91	ENSG00000123106	ENST00000542801	protein_coding	PUTATIVE	None	24855	368	121	28605475	28726379	1	None	p56, FLJ11088, DKFZp779L1558
12	CCDC91	ENSG00000123106	ENST00000542814	protein_coding	PUTATIVE	None	24855	93	30	28701996	28726792	1	None	p56, FLJ11088, DKFZp779L1558
12	CCDC91	ENSG00000123106	ENST00000539270	nonsense_mediated_decay	KNOWN	None	24855	93	30	28701996	28732875	1	None	p56, FLJ11088, DKFZp779L1558
12	CCDC91	ENSG00000123106	ENST00000541792	protein_coding	PUTATIVE	None	24855	141	46	28701996	28732876	1	None	p56, FLJ11088, DKFZp779L1558
12	CCDC91	ENSG00000123106	ENST00000543019	protein_coding	PUTATIVE	None	24855	83	26	28701997	28732883	1	None	p56, FLJ11088, DKFZp779L1558
12	CCDC91	ENSG00000123106	ENST00000381259	protein_coding	KNOWN	CCDS8716	24855	1326	441	28410133	28703098	1	None	p56, FLJ11088, DKFZp779L1558
12	CCDC91	ENSG00000123106	ENST00000381256	protein_coding	KNOWN	None	24855	1218	405	28410133	28703098	1	None	p56, FLJ11088, DKFZp779L1558
12	CCDC91	ENSG00000123106	ENST00000306172	protein_coding	KNOWN	None	24855	1236	411	28457626	28703098	1	None	p56, FLJ11088, DKFZp779L1558
HSCHR6_MHC_MANN	None	ENSG00000266660	ENST00000579550	snRNA	NOVEL	None	None	None	None	32360104	32360210	1	None	None
11	OR4A50P	ENSG00000255294	ENST00000526321	unprocessed_pseudogene	KNOWN	None	31269	None	None	55243419	55243904	1	None	None
11	RNA5SP333	ENSG00000200336	ENST00000363466	rRNA	KNOWN	None	43233	None	None	18269936	18270053	-1	RN5S333	None
14	None	ENSG00000259072	ENST00000555636	lincRNA	KNOWN	None	None	None	None	38760157	38781134	1	None	None
12	C12orf65	ENSG00000130921	ENST00000253233	protein_coding	KNOWN	CCDS9244	26784	501	166	123717463	123742506	1	None	FLJ38663, SPG55
12	C12orf65	ENSG00000130921	ENST00000538888	retained_intron	KNOWN	None	26784	None	None	123717984	123741438	1	None	FLJ38663, SPG55
12	C12orf65	ENSG00000130921	ENST00000425637	retained_intron	KNOWN	None	26784	None	None	123717984	123741509	1	None	FLJ38663, SPG55
12	C12orf65	ENSG00000130921	ENST00000536130	protein_coding	KNOWN	None	26784	109	35	123718005	123738330	1	None	FLJ38663, SPG55
12	C12orf65	ENSG00000130921	ENST00000546132	protein_coding	KNOWN	None	26784	290	95	123718009	123738511	1	None	FLJ38663, SPG55
12	C12orf65	ENSG00000130921	ENST00000543139	protein_coding	KNOWN	None	26784	415	137	123732825	123741492	1	None	FLJ38663, SPG55
12	C12orf65	ENSG00000130921	ENST00000429587	protein_coding	KNOWN	CCDS9244	26784	501	166	123737937	123742118	1	None	FLJ38663, SPG55
12	C12orf65	ENSG00000130921	ENST00000366329	protein_coding	KNOWN	CCDS9244	26784	501	166	123718302	123742484	1	None	FLJ38663, SPG55
7	None	ENSG00000213291	ENST00000455434	processed_pseudogene	KNOWN	None	None	None	None	124940558	124940932	-1	None	None
HSCHR6_MHC_MANN	HCG23	ENSG00000229903	ENST00000416228	processed_transcript	KNOWN	None	19713	None	None	32397725	32400902	1	None	dJ1077I5.3
8	None	ENSG00000254162	ENST00000523871	lincRNA	KNOWN	None	None	None	None	81447241	81451370	-1	None	None
11	ST13P5	ENSG00000212789	ENST00000526214	processed_pseudogene	KNOWN	None	18556	None	None	18283529	18284638	1	FAM10A5	None
11	ST13P5	ENSG00000212789	ENST00000545963	pseudogene	KNOWN	None	18556	None	None	18283529	18283896	1	FAM10A5	None
11	OR4A14P	ENSG00000254962	ENST00000525705	unprocessed_pseudogene	KNOWN	None	15151	None	None	55245027	55245985	1	None	None
3	MIR128-2	ENSG00000207625	ENST00000384893	miRNA	KNOWN	None	31511	None	None	35785968	35786051	1	MIRN128B, MIRN128-2	hsa-mir-128b, hsa-mir-128-2
18	None	ENSG00000267515	ENST00000588063	processed_pseudogene	KNOWN	None	None	None	None	12450446	12451041	1	None	None
15	None	ENSG00000258970	ENST00000557025	antisense	KNOWN	None	None	None	None	27663942	27665881	-1	None	None
12	None	ENSG00000247853	ENST00000501075	antisense	KNOWN	None	None	None	None	6687788	6693905	1	None	None
14	None	ENSG00000243904	ENST00000485258	processed_pseudogene	KNOWN	None	None	None	None	103840370	103841253	-1	None	None
HSCHR6_MHC_MANN	HLA-DRB9	ENSG00000234164	ENST00000419273	unprocessed_pseudogene	KNOWN	None	4957	None	None	32466296	32479952	-1	HLA-DRB1L, HLA-DR1BL	D6S206, D6S206E
4	None	ENSG00000250034	ENST00000506420	lincRNA	KNOWN	None	None	None	None	138728860	138737556	1	None	None
18	None	ENSG00000238309	ENST00000459256	snoRNA	NOVEL	None	None	None	None	12533423	12533524	-1	None	None
8	RNA5SP253	ENSG00000252029	ENST00000516220	rRNA	KNOWN	None	43153	None	None	11944905	11944954	-1	RN5S253	None
11	OR4A21P	ENSG00000181943	ENST00000532759	unprocessed_pseudogene	KNOWN	None	15158	None	None	55258628	55259618	1	None	None
7	None	ENSG00000251060	ENST00000506718	processed_transcript	KNOWN	None	None	None	None	142413074	142426272	1	None	None
8	None	ENSG00000260317	ENST00000569134	lincRNA	KNOWN	None	None	None	None	81453535	81455339	1	None	None
3	None	ENSG00000226489	ENST00000454621	processed_pseudogene	KNOWN	None	None	None	None	35913358	35913690	1	None	None
X	RPS26P56	ENSG00000226339	ENST00000444468	processed_pseudogene	KNOWN	None	35858	None	None	128542359	128542598	1	None	None
3	CMSS1	ENSG00000184220	ENST00000421999	protein_coding	KNOWN	CCDS2935	28666	840	279	99536678	99897447	1	C3orf26	MGC4308
3	CMSS1	ENSG00000184220	ENST00000463526	protein_coding	PUTATIVE	None	28666	77	24	99536681	99879299	1	C3orf26	MGC4308
3	CMSS1	ENSG00000184220	ENST00000491299	nonsense_mediated_decay	KNOWN	None	28666	117	38	99536727	99891248	1	C3orf26	MGC4308
3	CMSS1	ENSG00000184220	ENST00000496116	processed_transcript	KNOWN	None	28666	None	None	99536756	99760240	1	C3orf26	MGC4308
3	CMSS1	ENSG00000184220	ENST00000489081	protein_coding	PUTATIVE	CCDS54618	28666	786	261	99833774	99897443	1	C3orf26	MGC4308
3	CMSS1	ENSG00000184220	ENST00000478909	protein_coding	PUTATIVE	None	28666	675	224	99878662	99897199	1	C3orf26	MGC4308
3	CMSS1	ENSG00000184220	ENST00000497345	protein_coding	PUTATIVE	None	28666	247	81	99881197	99897443	1	C3orf26	MGC4308
3	CMSS1	ENSG00000184220	ENST00000479555	retained_intron	KNOWN	None	28666	None	None	99885177	99891171	1	C3orf26	MGC4308
3	CMSS1	ENSG00000184220	ENST00000494412	processed_transcript	KNOWN	None	28666	None	None	99895082	99897447	1	C3orf26	MGC4308
11	OR4C1P	ENSG00000254576	ENST00000530880	unprocessed_pseudogene	KNOWN	None	8292	None	None	55277217	55278147	1	OR4C1	HTPCRX11, HSHTPCRX11
5	CLPTM1L	ENSG00000049656	ENST00000320895	protein_coding	KNOWN	CCDS3862	24308	1617	538	1317859	1345214	-1	None	FLJ14400, CRR9
5	CLPTM1L	ENSG00000049656	ENST00000507807	protein_coding	PUTATIVE	None	24308	1110	369	1317868	1341853	-1	None	FLJ14400, CRR9
5	CLPTM1L	ENSG00000049656	ENST00000503042	retained_intron	KNOWN	None	24308	None	None	1317983	1331959	-1	None	FLJ14400, CRR9
5	CLPTM1L	ENSG00000049656	ENST00000503534	retained_intron	KNOWN	None	24308	None	None	1318290	1325942	-1	None	FLJ14400, CRR9
5	CLPTM1L	ENSG00000049656	ENST00000515719	retained_intron	KNOWN	None	24308	None	None	1318414	1321944	-1	None	FLJ14400, CRR9
5	CLPTM1L	ENSG00000049656	ENST00000506641	processed_transcript	KNOWN	None	24308	None	None	1318470	1326370	-1	None	FLJ14400, CRR9
5	CLPTM1L	ENSG00000049656	ENST00000511268	retained_intron	KNOWN	None	24308	None	None	1320323	1323945	-1	None	FLJ14400, CRR9
5	CLPTM1L	ENSG00000049656	ENST00000512451	retained_intron	KNOWN	None	24308	None	None	1320730	1323030	-1	None	FLJ14400, CRR9
5	CLPTM1L	ENSG00000049656	ENST00000507195	processed_transcript	KNOWN	None	24308	None	None	1320731	1326551	-1	None	FLJ14400, CRR9
5	CLPTM1L	ENSG00000049656	ENST00000505914	retained_intron	KNOWN	None	24308	None	None	1320799	1324152	-1	None	FLJ14400, CRR9
5	CLPTM1L	ENSG00000049656	ENST00000505605	retained_intron	KNOWN	None	24308	None	None	1321762	1324972	-1	None	FLJ14400, CRR9
5	CLPTM1L	ENSG00000049656	ENST00000503151	retained_intron	KNOWN	None	24308	None	None	1322949	1335236	-1	None	FLJ14400, CRR9
5	CLPTM1L	ENSG00000049656	ENST00000508765	retained_intron	KNOWN	None	24308	None	None	1323902	1335270	-1	None	FLJ14400, CRR9
5	CLPTM1L	ENSG00000049656	ENST00000513250	processed_transcript	KNOWN	None	24308	None	None	1323948	1332453	-1	None	FLJ14400, CRR9
5	CLPTM1L	ENSG00000049656	ENST00000511786	retained_intron	KNOWN	None	24308	None	None	1334473	1338433	-1	None	FLJ14400, CRR9
5	CLPTM1L	ENSG00000049656	ENST00000320927	protein_coding	KNOWN	None	24308	1509	502	1317983	1344999	-1	None	FLJ14400, CRR9
11	OR51A6P	ENSG00000197023	ENST00000418680	unprocessed_pseudogene	KNOWN	None	15187	None	None	4910823	4911826	-1	None	None
18	None	ENSG00000267411	ENST00000585331	processed_transcript	KNOWN	None	None	None	None	12658709	12725739	1	None	None
18	None	ENSG00000267411	ENST00000589405	processed_transcript	PUTATIVE	None	None	None	None	12658737	12686490	1	None	None
18	None	ENSG00000267411	ENST00000586445	processed_transcript	PUTATIVE	None	None	None	None	12686652	12724519	1	None	None
4	None	ENSG00000250546	ENST00000513489	lincRNA	KNOWN	None	None	None	None	84717589	85205480	-1	None	None
4	None	ENSG00000250546	ENST00000508406	lincRNA	KNOWN	None	None	None	None	84889235	85214565	-1	None	None
4	None	ENSG00000250546	ENST00000510016	antisense	KNOWN	None	None	None	None	85068886	85070441	-1	None	None
14	None	ENSG00000244691	ENST00000490023	processed_pseudogene	KNOWN	None	None	None	None	103878456	103879098	-1	None	None
12	ING4	ENSG00000111653	ENST00000341550	protein_coding	KNOWN	CCDS8555	19423	747	248	6759446	6772314	-1	None	p29ING4, my036
12	ING4	ENSG00000111653	ENST00000396807	protein_coding	KNOWN	CCDS44813	19423	750	249	6759757	6772306	-1	None	p29ING4, my036
12	ING4	ENSG00000111653	ENST00000446105	protein_coding	PUTATIVE	CCDS44815	19423	738	245	6759792	6772308	-1	None	p29ING4, my036
12	ING4	ENSG00000111653	ENST00000486287	processed_transcript	KNOWN	None	19423	None	None	6759957	6765923	-1	None	p29ING4, my036
12	ING4	ENSG00000111653	ENST00000484795	retained_intron	KNOWN	None	19423	None	None	6759990	6762563	-1	None	p29ING4, my036
12	ING4	ENSG00000111653	ENST00000482489	nonsense_mediated_decay	KNOWN	None	19423	111	36	6760131	6765956	-1	None	p29ING4, my036
12	ING4	ENSG00000111653	ENST00000469749	nonsense_mediated_decay	KNOWN	None	19423	156	51	6760178	6772280	-1	None	p29ING4, my036
12	ING4	ENSG00000111653	ENST00000472002	retained_intron	KNOWN	None	19423	None	None	6760180	6772280	-1	None	p29ING4, my036
12	ING4	ENSG00000111653	ENST00000488381	nonsense_mediated_decay	KNOWN	None	19423	144	47	6760262	6772295	-1	None	p29ING4, my036
12	ING4	ENSG00000111653	ENST00000423703	protein_coding	KNOWN	CCDS44816	19423	540	179	6760361	6772267	-1	None	p29ING4, my036
12	ING4	ENSG00000111653	ENST00000412586	protein_coding	KNOWN	CCDS44814	19423	741	246	6760361	6772267	-1	None	p29ING4, my036
12	ING4	ENSG00000111653	ENST00000444704	protein_coding	KNOWN	CCDS44812	19423	678	225	6760361	6772267	-1	None	p29ING4, my036
12	ING4	ENSG00000111653	ENST00000437149	processed_transcript	KNOWN	None	19423	None	None	6760488	6772285	-1	None	p29ING4, my036
12	ING4	ENSG00000111653	ENST00000467678	protein_coding	PUTATIVE	None	19423	153	50	6760531	6772249	-1	None	p29ING4, my036
12	ING4	ENSG00000111653	ENST00000479301	nonsense_mediated_decay	KNOWN	None	19423	144	47	6761478	6772295	-1	None	p29ING4, my036
12	ING4	ENSG00000111653	ENST00000493873	protein_coding	PUTATIVE	None	19423	64	20	6761505	6772251	-1	None	p29ING4, my036
12	ING4	ENSG00000111653	ENST00000493267	retained_intron	KNOWN	None	19423	None	None	6765604	6772270	-1	None	p29ING4, my036
11	RNA5SP334	ENSG00000201695	ENST00000364825	rRNA	KNOWN	None	43234	None	None	18287940	18288057	1	RN5S334	None
11	OR4C14P	ENSG00000233301	ENST00000440929	unprocessed_pseudogene	KNOWN	None	15170	None	None	55304478	55305400	1	None	None
11	MIR3159	ENSG00000264603	ENST00000584572	miRNA	KNOWN	None	38181	None	None	18409334	18409407	1	None	hsa-mir-3159
HG185_PATCH	HAP1	ENSG00000261125	ENST00000567371	protein_coding	PUTATIVE	None	4812	336	111	39873994	39881333	-1	HAP2	HLP, hHLP1, HIP5
HG185_PATCH	HAP1	ENSG00000261125	ENST00000568084	protein_coding	PUTATIVE	None	4812	222	73	39873994	39881393	-1	HAP2	HLP, hHLP1, HIP5
HG185_PATCH	HAP1	ENSG00000261125	ENST00000567419	protein_coding	PUTATIVE	None	4812	121	39	39873994	39882149	-1	HAP2	HLP, hHLP1, HIP5
HG185_PATCH	HAP1	ENSG00000261125	ENST00000562865	protein_coding	KNOWN	None	4812	1785	594	39877065	39890896	-1	HAP2	HLP, hHLP1, HIP5
HG185_PATCH	HAP1	ENSG00000261125	ENST00000568643	protein_coding	KNOWN	None	4812	2016	671	39878892	39890896	-1	HAP2	HLP, hHLP1, HIP5
HG185_PATCH	HAP1	ENSG00000261125	ENST00000568276	protein_coding	KNOWN	None	4812	1860	619	39878892	39890896	-1	HAP2	HLP, hHLP1, HIP5
HG185_PATCH	HAP1	ENSG00000261125	ENST00000568474	protein_coding	KNOWN	None	4812	1809	602	39878892	39890896	-1	HAP2	HLP, hHLP1, HIP5
15	RPL29P30	ENSG00000235420	ENST00000470368	processed_transcript	KNOWN	None	36601	None	None	71088936	71095023	-1	None	None
15	RPL29P30	ENSG00000235420	ENST00000484381	transcribed_processed_pseudogene	KNOWN	None	36601	None	None	71088970	71089438	-1	None	None
15	RPL29P30	ENSG00000235420	ENST00000496414	processed_transcript	KNOWN	None	36601	None	None	71088996	71095027	-1	None	None
15	RPL29P30	ENSG00000235420	ENST00000425100	processed_pseudogene	KNOWN	None	36601	None	None	71088974	71089438	-1	None	None
11	None	ENSG00000256006	ENST00000496975	sense_intronic	KNOWN	None	None	None	None	18427156	18428278	1	None	None
19	SPHK2	ENSG00000063176	ENST00000245222	protein_coding	KNOWN	CCDS12727	18859	1965	654	49122548	49133662	1	None	None
19	SPHK2	ENSG00000063176	ENST00000601712	protein_coding	PUTATIVE	None	18859	768	255	49122707	49131908	1	None	None
19	SPHK2	ENSG00000063176	ENST00000600537	protein_coding	NOVEL	CCDS59404	18859	1788	595	49122709	49133173	1	None	None
19	SPHK2	ENSG00000063176	ENST00000598088	protein_coding	KNOWN	CCDS12727	18859	1965	654	49122791	49133662	1	None	None
19	SPHK2	ENSG00000063176	ENST00000426514	nonsense_mediated_decay	KNOWN	None	18859	150	49	49123772	49133030	1	None	None
19	SPHK2	ENSG00000063176	ENST00000597434	non_stop_decay	KNOWN	None	18859	1048	348	49127263	49133974	1	None	None
19	SPHK2	ENSG00000063176	ENST00000601704	protein_coding	PUTATIVE	None	18859	399	132	49127600	49129615	1	None	None
19	SPHK2	ENSG00000063176	ENST00000593308	protein_coding	PUTATIVE	None	18859	216	71	49127685	49129432	1	None	None
19	SPHK2	ENSG00000063176	ENST00000599033	processed_transcript	KNOWN	None	18859	None	None	49127729	49129558	1	None	None
19	SPHK2	ENSG00000063176	ENST00000599748	protein_coding	KNOWN	CCDS59405	18859	1857	618	49128209	49133662	1	None	None
19	SPHK2	ENSG00000063176	ENST00000599029	protein_coding	PUTATIVE	None	18859	1992	663	49128226	49133974	1	None	None
19	SPHK2	ENSG00000063176	ENST00000598574	retained_intron	KNOWN	None	18859	None	None	49128286	49130071	1	None	None
19	SPHK2	ENSG00000063176	ENST00000443164	protein_coding	KNOWN	None	18859	2286	761	49128218	49133973	1	None	None
19	SPHK2	ENSG00000063176	ENST00000340932	protein_coding	KNOWN	None	18859	1851	616	49122548	49133030	1	None	None
8	DEFB108P3	ENSG00000255544	ENST00000527787	unprocessed_pseudogene	KNOWN	None	26227	None	None	11952685	11957045	-1	None	None
16	RPGRIP1L	ENSG00000103494	ENST00000262135	protein_coding	KNOWN	CCDS45486	29168	3708	1235	53631595	53737801	-1	None	KIAA1005, CORS3, JBTS7, MKS5, NPHP8, FTM
16	RPGRIP1L	ENSG00000103494	ENST00000379925	protein_coding	KNOWN	CCDS32447	29168	3948	1315	53634690	53737758	-1	None	KIAA1005, CORS3, JBTS7, MKS5, NPHP8, FTM
16	RPGRIP1L	ENSG00000103494	ENST00000563746	protein_coding	NOVEL	None	29168	3846	1281	53635693	53737759	-1	None	KIAA1005, CORS3, JBTS7, MKS5, NPHP8, FTM
16	RPGRIP1L	ENSG00000103494	ENST00000564374	protein_coding	PUTATIVE	None	29168	3762	1253	53639307	53737801	-1	None	KIAA1005, CORS3, JBTS7, MKS5, NPHP8, FTM
16	RPGRIP1L	ENSG00000103494	ENST00000568009	processed_transcript	KNOWN	None	29168	None	None	53669353	53672286	-1	None	KIAA1005, CORS3, JBTS7, MKS5, NPHP8, FTM
16	RPGRIP1L	ENSG00000103494	ENST00000565343	retained_intron	KNOWN	None	29168	None	None	53687363	53693805	-1	None	KIAA1005, CORS3, JBTS7, MKS5, NPHP8, FTM
16	RPGRIP1L	ENSG00000103494	ENST00000562230	protein_coding	PUTATIVE	None	29168	1062	353	53705463	53737756	-1	None	KIAA1005, CORS3, JBTS7, MKS5, NPHP8, FTM
16	RPGRIP1L	ENSG00000103494	ENST00000562588	protein_coding	KNOWN	None	29168	368	121	53726139	53737742	-1	None	KIAA1005, CORS3, JBTS7, MKS5, NPHP8, FTM
16	RPGRIP1L	ENSG00000103494	ENST00000568653	protein_coding	PUTATIVE	None	29168	378	125	53727224	53737759	-1	None	KIAA1005, CORS3, JBTS7, MKS5, NPHP8, FTM
16	RPGRIP1L	ENSG00000103494	ENST00000566096	protein_coding	PUTATIVE	None	29168	237	78	53729543	53737850	-1	None	KIAA1005, CORS3, JBTS7, MKS5, NPHP8, FTM
16	RPGRIP1L	ENSG00000103494	ENST00000569716	protein_coding	KNOWN	None	29168	168	55	53730125	53737722	-1	None	KIAA1005, CORS3, JBTS7, MKS5, NPHP8, FTM
11	OR4V1P	ENSG00000254841	ENST00000525394	unprocessed_pseudogene	KNOWN	None	14736	None	None	55441012	55442151	1	None	None
7	TRGV4	ENSG00000211698	ENST00000390345	TR_V_gene	KNOWN	None	12289	354	117	38393316	38394118	-1	TCRGV4	V1S4
12	SCARNA11	ENSG00000251898	ENST00000516089	snoRNA	KNOWN	None	32568	None	None	6690640	6690775	-1	None	ACA57
14	None	ENSG00000268156	ENST00000595520	protein_coding	KNOWN	None	None	375	124	77882741	77883115	1	None	None
12	None	ENSG00000257807	ENST00000550956	processed_pseudogene	KNOWN	None	None	None	None	47878472	47879505	1	None	None
11	OR4P1P	ENSG00000188439	ENST00000530808	unprocessed_pseudogene	KNOWN	None	14754	None	None	55450715	55451850	1	None	None
14	None	ENSG00000271468	ENST00000603845	processed_pseudogene	KNOWN	None	None	None	None	39074459	39075302	1	None	None
3	RNU6-425P	ENSG00000206604	ENST00000383877	snRNA	KNOWN	None	47388	None	None	141864296	141864397	1	None	None
15	None	ENSG00000259152	ENST00000553919	sense_intronic	KNOWN	None	None	None	None	27667527	27673484	1	None	None
4	RNU6-774P	ENSG00000200108	ENST00000363238	snRNA	KNOWN	None	47737	None	None	85154810	85154916	1	None	None
12	None	ENSG00000219410	ENST00000589924	antisense	KNOWN	None	None	None	None	6772426	6777103	1	None	None
12	None	ENSG00000219410	ENST00000586338	antisense	KNOWN	None	None	None	None	6777194	6781235	1	None	None
3	RNU6-1294P	ENSG00000251804	ENST00000515995	snRNA	KNOWN	None	48257	None	None	142126499	142126579	-1	None	None
7	None	ENSG00000234071	ENST00000423896	processed_pseudogene	KNOWN	None	None	None	None	124985023	124985431	1	None	None
3	None	ENSG00000213600	ENST00000395152	pseudogene	NOVEL	None	None	None	None	50277054	50277416	1	None	None
4	None	ENSG00000214980	ENST00000510707	processed_pseudogene	KNOWN	None	None	None	None	85165156	85166641	1	None	None
3	RNU1-100P	ENSG00000202125	ENST00000365255	snRNA	KNOWN	None	48442	None	None	142139047	142139211	-1	None	None
14	KRT8P1	ENSG00000258948	ENST00000557533	processed_pseudogene	KNOWN	None	20281	None	None	39196479	39197685	1	None	None
18	PIK3C3	ENSG00000078142	ENST00000262039	protein_coding	KNOWN	CCDS11920	8974	2664	887	39535171	39667794	1	None	Vps34
18	PIK3C3	ENSG00000078142	ENST00000398870	protein_coding	NOVEL	None	8974	2475	824	39535219	39667794	1	None	Vps34
18	PIK3C3	ENSG00000078142	ENST00000586545	protein_coding	PUTATIVE	None	8974	606	201	39535221	39551402	1	None	Vps34
18	PIK3C3	ENSG00000078142	ENST00000590220	processed_transcript	KNOWN	None	8974	None	None	39535227	39537723	1	None	Vps34
18	PIK3C3	ENSG00000078142	ENST00000585528	protein_coding	PUTATIVE	None	8974	533	176	39535383	39550463	1	None	Vps34
18	PIK3C3	ENSG00000078142	ENST00000591011	nonsense_mediated_decay	KNOWN	None	8974	403	133	39537604	39567839	1	None	Vps34
18	PIK3C3	ENSG00000078142	ENST00000589550	retained_intron	KNOWN	None	8974	None	None	39537632	39570566	1	None	Vps34
18	PIK3C3	ENSG00000078142	ENST00000593098	protein_coding	PUTATIVE	None	8974	1119	372	39605295	39661443	1	None	Vps34
18	PIK3C3	ENSG00000078142	ENST00000590013	protein_coding	PUTATIVE	None	8974	420	139	39605746	39617781	1	None	Vps34
18	PIK3C3	ENSG00000078142	ENST00000596052	protein_coding	PUTATIVE	None	8974	152	49	39606982	39609395	1	None	Vps34
18	PIK3C3	ENSG00000078142	ENST00000597477	protein_coding	PUTATIVE	None	8974	551	182	39613806	39629647	1	None	Vps34
18	PIK3C3	ENSG00000078142	ENST00000589056	protein_coding	PUTATIVE	None	8974	315	104	39617714	39631276	1	None	Vps34
18	PIK3C3	ENSG00000078142	ENST00000587402	protein_coding	PUTATIVE	None	8974	312	103	39617736	39629939	1	None	Vps34
18	PIK3C3	ENSG00000078142	ENST00000588631	retained_intron	KNOWN	None	8974	None	None	39629256	39661148	1	None	Vps34
18	PIK3C3	ENSG00000078142	ENST00000587261	protein_coding	PUTATIVE	None	8974	140	45	39637602	39647374	1	None	Vps34
18	PIK3C3	ENSG00000078142	ENST00000588156	protein_coding	PUTATIVE	None	8974	336	111	39637799	39661385	1	None	Vps34
18	PIK3C3	ENSG00000078142	ENST00000587328	protein_coding	PUTATIVE	None	8974	198	65	39644659	39661360	1	None	Vps34
14	None	ENSG00000260285	ENST00000568177	antisense	KNOWN	None	None	None	None	103991347	103995409	-1	None	None
HSCHR6_MHC_SSTO	EGFL8	ENSG00000239974	ENST00000452189	protein_coding	KNOWN	None	13944	882	293	32139229	32142928	1	C6orf8	NG3
HSCHR6_MHC_SSTO	EGFL8	ENSG00000239974	ENST00000413733	protein_coding	KNOWN	None	13944	882	293	32139251	32142928	1	C6orf8	NG3
HSCHR6_MHC_SSTO	EGFL8	ENSG00000239974	ENST00000411747	protein_coding	KNOWN	None	13944	775	257	32139306	32142303	1	C6orf8	NG3
HSCHR6_MHC_SSTO	EGFL8	ENSG00000239974	ENST00000492749	retained_intron	KNOWN	None	13944	None	None	32139882	32142928	1	C6orf8	NG3
HSCHR6_MHC_SSTO	EGFL8	ENSG00000239974	ENST00000489401	retained_intron	KNOWN	None	13944	None	None	32140840	32141816	1	C6orf8	NG3
HSCHR6_MHC_SSTO	EGFL8	ENSG00000239974	ENST00000496701	processed_transcript	KNOWN	None	13944	None	None	32142190	32142928	1	C6orf8	NG3
11	None	ENSG00000242729	ENST00000489849	processed_pseudogene	KNOWN	None	None	None	None	41559984	41560536	1	None	None
15	WHAMM	ENSG00000156232	ENST00000286760	protein_coding	KNOWN	CCDS45333	30493	2430	809	83478380	83503611	1	WHDC1	KIAA1971
15	WHAMM	ENSG00000156232	ENST00000560964	retained_intron	KNOWN	None	30493	None	None	83486672	83495546	1	WHDC1	KIAA1971
12	None	ENSG00000203585	ENST00000538573	lincRNA	KNOWN	None	None	None	None	67913609	67942943	1	None	None
12	None	ENSG00000203585	ENST00000400306	lincRNA	KNOWN	None	None	None	None	67913862	67960906	1	None	None
3	None	ENSG00000239632	ENST00000468320	unprocessed_pseudogene	KNOWN	None	None	None	None	106614576	106615255	-1	None	None
16	RPL3L	ENSG00000140986	ENST00000268661	protein_coding	KNOWN	CCDS10450	10351	1224	407	1993975	2004727	-1	None	None
16	RPL3L	ENSG00000140986	ENST00000565426	protein_coding	PUTATIVE	None	10351	129	42	2002955	2007607	-1	None	None
16	RPL3L	ENSG00000140986	ENST00000566484	processed_transcript	PUTATIVE	None	10351	None	None	2004658	2007598	-1	None	None
3	None	ENSG00000230454	ENST00000439898	lincRNA	KNOWN	None	None	None	None	50297735	50300790	1	None	None
3	None	ENSG00000230454	ENST00000453717	lincRNA	KNOWN	None	None	None	None	50297846	50298839	1	None	None
3	None	ENSG00000230454	ENST00000426302	lincRNA	KNOWN	None	None	None	None	50298665	50300744	1	None	None
HSCHR6_MHC_DBB	PRRT1	ENSG00000225141	ENST00000467781	processed_transcript	KNOWN	None	13943	None	None	32091910	32093408	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_DBB	PRRT1	ENSG00000225141	ENST00000483352	retained_intron	KNOWN	None	13943	None	None	32091910	32095474	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_DBB	PRRT1	ENSG00000225141	ENST00000488159	processed_transcript	KNOWN	None	13943	None	None	32091910	32095488	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_DBB	PRRT1	ENSG00000225141	ENST00000444466	protein_coding	KNOWN	None	13943	921	306	32091910	32095503	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_DBB	PRRT1	ENSG00000225141	ENST00000418753	protein_coding	KNOWN	None	13943	678	225	32091910	32096636	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_DBB	PRRT1	ENSG00000225141	ENST00000425067	protein_coding	KNOWN	None	13943	188	61	32094046	32097926	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_DBB	PRRT1	ENSG00000225141	ENST00000489899	processed_transcript	KNOWN	None	13943	None	None	32095534	32097513	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_DBB	PRRT1	ENSG00000225141	ENST00000477433	processed_transcript	KNOWN	None	13943	None	None	32096355	32097461	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_DBB	PRRT1	ENSG00000225141	ENST00000471078	processed_transcript	KNOWN	None	13943	None	None	32096355	32097886	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_DBB	PRRT1	ENSG00000225141	ENST00000489854	processed_transcript	KNOWN	None	13943	None	None	32096355	32097918	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_DBB	PRRT1	ENSG00000225141	ENST00000487441	processed_transcript	KNOWN	None	13943	None	None	32096893	32097892	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_DBB	PRRT1	ENSG00000225141	ENST00000469199	processed_transcript	PUTATIVE	None	13943	None	None	32096938	32097879	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_DBB	PRRT1	ENSG00000225141	ENST00000552325	protein_coding	KNOWN	None	13943	678	225	32091915	32095655	-1	C6orf31	NG5, IFITMD7
8	KBTBD11	ENSG00000176595	ENST00000320248	protein_coding	KNOWN	CCDS34795	29104	1872	623	1922044	1955102	1	None	KIAA0711, KLHDC7C
12	VAMP1	ENSG00000139190	ENST00000400911	protein_coding	KNOWN	CCDS44809	12642	351	116	6571403	6579819	-1	SYB1	VAMP-1
12	VAMP1	ENSG00000139190	ENST00000361716	protein_coding	KNOWN	CCDS31731	12642	354	117	6571403	6580153	-1	SYB1	VAMP-1
12	VAMP1	ENSG00000139190	ENST00000544432	processed_transcript	KNOWN	None	12642	None	None	6571546	6579780	-1	SYB1	VAMP-1
12	VAMP1	ENSG00000139190	ENST00000535180	protein_coding	PUTATIVE	None	12642	351	116	6571843	6579811	-1	SYB1	VAMP-1
12	VAMP1	ENSG00000139190	ENST00000396308	protein_coding	KNOWN	CCDS41740	12642	357	118	6573026	6579843	-1	SYB1	VAMP-1
12	VAMP1	ENSG00000139190	ENST00000538970	retained_intron	KNOWN	None	12642	None	None	6573748	6575438	-1	SYB1	VAMP-1
12	VAMP1	ENSG00000139190	ENST00000535927	retained_intron	KNOWN	None	12642	None	None	6573837	6579843	-1	SYB1	VAMP-1
12	VAMP1	ENSG00000139190	ENST00000539047	processed_transcript	KNOWN	None	12642	None	None	6574369	6579843	-1	SYB1	VAMP-1
15	None	ENSG00000259168	ENST00000556642	antisense	KNOWN	None	None	None	None	27728181	27786343	-1	None	None
15	None	ENSG00000259168	ENST00000557170	antisense	KNOWN	None	None	None	None	27782046	27787137	-1	None	None
7	None	ENSG00000227847	ENST00000443177	processed_pseudogene	KNOWN	None	None	None	None	124985879	124986251	1	None	None
11	None	ENSG00000255563	ENST00000530771	processed_pseudogene	KNOWN	None	None	None	None	41681580	41681771	1	None	None
3	None	ENSG00000255637	ENST00000536193	pseudogene	NOVEL	None	None	None	None	142160528	142160604	1	None	None
12	None	ENSG00000257534	ENST00000551732	lincRNA	KNOWN	None	None	None	None	54555849	54558236	-1	None	None
11	None	ENSG00000255415	ENST00000524675	processed_pseudogene	KNOWN	None	None	None	None	71340091	71340467	1	None	None
6	RN7SL465P	ENSG00000244297	ENST00000468411	misc_RNA	KNOWN	None	46481	None	None	38711862	38712159	1	None	None
11	MIR3920	ENSG00000263885	ENST00000581751	miRNA	KNOWN	None	38974	None	None	101390551	101390636	-1	None	hsa-mir-3920
12	RNU6-781P	ENSG00000252186	ENST00000516377	snRNA	KNOWN	None	47744	None	None	6818618	6818718	1	None	None
12	None	ENSG00000248576	ENST00000504210	antisense	KNOWN	None	None	None	None	54556923	54562379	1	None	None
16	None	ENSG00000261469	ENST00000564147	sense_intronic	KNOWN	None	None	None	None	68270748	68271570	-1	None	None
6	None	ENSG00000219273	ENST00000404462	processed_pseudogene	KNOWN	None	None	None	None	38730681	38732470	1	None	None
3	MTND3P6	ENSG00000242214	ENST00000485242	unprocessed_pseudogene	KNOWN	None	42146	None	None	106615330	106615668	-1	None	None
11	C11orf68	ENSG00000175573	ENST00000438576	protein_coding	KNOWN	CCDS44652	28801	882	293	65684279	65686588	-1	None	P5326, BLES03
11	C11orf68	ENSG00000175573	ENST00000449692	protein_coding	KNOWN	CCDS8122	28801	879	292	65684281	65686533	-1	None	P5326, BLES03
11	C11orf68	ENSG00000175573	ENST00000530188	protein_coding	PUTATIVE	None	28801	756	251	65684304	65685831	-1	None	P5326, BLES03
3	None	ENSG00000242479	ENST00000481134	processed_pseudogene	KNOWN	None	None	None	None	142168944	142170991	1	None	None
11	None	ENSG00000254804	ENST00000528000	lincRNA	KNOWN	None	None	None	None	55451617	55453636	-1	None	None
12	AMHR2	ENSG00000135409	ENST00000257863	protein_coding	KNOWN	CCDS8858	465	1722	573	53817639	53825318	1	None	MISR2, MISRII
12	AMHR2	ENSG00000135409	ENST00000550311	protein_coding	NOVEL	CCDS55829	465	1437	478	53817650	53825257	1	None	MISR2, MISRII
12	AMHR2	ENSG00000135409	ENST00000379791	protein_coding	NOVEL	CCDS53798	465	1437	478	53817719	53825257	1	None	MISR2, MISRII
12	AMHR2	ENSG00000135409	ENST00000553037	retained_intron	KNOWN	None	465	None	None	53818062	53818907	1	None	MISR2, MISRII
12	AMHR2	ENSG00000135409	ENST00000548303	retained_intron	KNOWN	None	465	None	None	53818860	53822708	1	None	MISR2, MISRII
12	AMHR2	ENSG00000135409	ENST00000552233	retained_intron	KNOWN	None	465	None	None	53818866	53825048	1	None	MISR2, MISRII
12	AMHR2	ENSG00000135409	ENST00000550839	protein_coding	PUTATIVE	None	465	517	171	53818900	53824067	1	None	MISR2, MISRII
6	None	ENSG00000271114	ENST00000604960	processed_pseudogene	KNOWN	None	None	None	None	88601142	88601587	1	None	None
8	FAM66D	ENSG00000255052	ENST00000530099	antisense	KNOWN	None	24159	None	None	11973292	11979872	1	None	None
8	FAM66D	ENSG00000255052	ENST00000434078	antisense	KNOWN	None	24159	None	None	11973291	12008698	1	None	None
3	RFC3P1	ENSG00000236158	ENST00000454568	processed_pseudogene	KNOWN	None	44531	None	None	36211259	36211940	-1	None	None
11	None	ENSG00000221458	ENST00000408531	miRNA	NOVEL	None	None	None	None	71373593	71373741	-1	None	None
16	None	ENSG00000260441	ENST00000569843	antisense	KNOWN	None	None	None	None	68290065	68292770	-1	None	None
16	None	ENSG00000260441	ENST00000563175	antisense	KNOWN	None	None	None	None	68290065	68294346	-1	None	None
11	OR5D2P	ENSG00000254457	ENST00000524390	unprocessed_pseudogene	KNOWN	None	8335	None	None	55482472	55483108	1	OR5D6P, OR5D10P, OR5D1P, OR5D5P, OR5D12P, OR5D8P, OR5D7P, OR5D9P, OR5D12, OR5D11P, OR5D11	OR11-7a, OR912-91, OR8-127, OR912-47, OR18-44, R5D9P, OR18-17, OR18-42, OR18-43, OR912-94, OR8-125
3	None	ENSG00000242836	ENST00000485582	unprocessed_pseudogene	KNOWN	None	None	None	None	106615738	106616518	-1	None	None
11	None	ENSG00000254629	ENST00000528055	processed_pseudogene	KNOWN	None	None	None	None	83501020	83502621	-1	None	None
6	None	ENSG00000220131	ENST00000404250	processed_pseudogene	KNOWN	None	None	None	None	88974877	88975230	1	None	None
8	FAM90A23P	ENSG00000241737	ENST00000400136	unprocessed_pseudogene	KNOWN	None	32271	None	None	7437166	7440175	-1	FAM90A23	None
12	PIWIL1	ENSG00000125207	ENST00000245255	protein_coding	KNOWN	CCDS9268	9007	2586	861	130822432	130857182	1	None	PIWI, HIWI
12	PIWIL1	ENSG00000125207	ENST00000546060	protein_coding	KNOWN	None	9007	495	164	130822653	130831093	1	None	PIWI, HIWI
12	PIWIL1	ENSG00000125207	ENST00000539400	protein_coding	KNOWN	None	9007	367	121	130822681	130830965	1	None	PIWI, HIWI
12	PIWIL1	ENSG00000125207	ENST00000539995	protein_coding	KNOWN	None	9007	451	149	130824007	130831049	1	None	PIWI, HIWI
12	PIWIL1	ENSG00000125207	ENST00000535956	protein_coding	PUTATIVE	None	9007	352	116	130824044	130830950	1	None	PIWI, HIWI
12	PIWIL1	ENSG00000125207	ENST00000542723	protein_coding	KNOWN	None	9007	518	171	130826776	130831116	1	None	PIWI, HIWI
12	PIWIL1	ENSG00000125207	ENST00000540672	protein_coding	PUTATIVE	None	9007	377	124	130829851	130833843	1	None	PIWI, HIWI
12	PIWIL1	ENSG00000125207	ENST00000541480	processed_transcript	KNOWN	None	9007	None	None	130850982	130855928	1	None	PIWI, HIWI
HSCHR6_MHC_COX	EHMT2	ENSG00000236759	ENST00000481372	processed_transcript	KNOWN	None	14129	None	None	31835086	31840133	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_COX	EHMT2	ENSG00000236759	ENST00000479567	retained_intron	KNOWN	None	14129	None	None	31835086	31840468	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_COX	EHMT2	ENSG00000236759	ENST00000477385	retained_intron	KNOWN	None	14129	None	None	31835086	31841764	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_COX	EHMT2	ENSG00000236759	ENST00000497104	processed_transcript	KNOWN	None	14129	None	None	31835086	31851831	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_COX	EHMT2	ENSG00000236759	ENST00000436403	protein_coding	KNOWN	None	14129	3804	1267	31835086	31852529	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_COX	EHMT2	ENSG00000236759	ENST00000443951	protein_coding	KNOWN	None	14129	3702	1233	31835086	31852549	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_COX	EHMT2	ENSG00000236759	ENST00000420874	protein_coding	KNOWN	None	14129	3531	1176	31835086	31853004	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_COX	EHMT2	ENSG00000236759	ENST00000450075	protein_coding	KNOWN	None	14129	3633	1210	31835086	31853011	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_COX	EHMT2	ENSG00000236759	ENST00000420623	protein_coding	KNOWN	None	14129	894	297	31839146	31842391	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_COX	EHMT2	ENSG00000236759	ENST00000459733	retained_intron	KNOWN	None	14129	None	None	31840000	31842446	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_COX	EHMT2	ENSG00000236759	ENST00000495133	retained_intron	KNOWN	None	14129	None	None	31847745	31848513	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_COX	EHMT2	ENSG00000236759	ENST00000495902	retained_intron	KNOWN	None	14129	None	None	31850728	31853014	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_COX	EHMT2	ENSG00000236759	ENST00000552339	protein_coding	KNOWN	None	14129	3096	1031	31835092	31848712	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
6	None	ENSG00000212586	ENST00000391284	snoRNA	NOVEL	None	None	None	None	38790083	38790180	-1	None	None
12	None	ENSG00000257905	ENST00000546846	processed_pseudogene	KNOWN	None	None	None	None	47986991	47987223	1	None	None
19	RASGRP4	ENSG00000171777	ENST00000586305	protein_coding	KNOWN	CCDS59382	18958	1980	659	38899695	38916827	-1	None	None
19	RASGRP4	ENSG00000171777	ENST00000588708	retained_intron	KNOWN	None	18958	None	None	38899697	38907787	-1	None	None
19	RASGRP4	ENSG00000171777	ENST00000589474	nonsense_mediated_decay	KNOWN	CCDS59382	18958	1980	659	38899698	38916945	-1	None	None
19	RASGRP4	ENSG00000171777	ENST00000433821	protein_coding	KNOWN	CCDS54264	18958	1746	581	38899698	38916945	-1	None	None
19	RASGRP4	ENSG00000171777	ENST00000426920	protein_coding	KNOWN	CCDS54262	18958	1455	484	38899698	38916945	-1	None	None
19	RASGRP4	ENSG00000171777	ENST00000587753	protein_coding	NOVEL	CCDS59384	18958	1815	604	38899698	38916945	-1	None	None
19	RASGRP4	ENSG00000171777	ENST00000454404	protein_coding	NOVEL	CCDS59383	18958	1920	639	38899698	38916945	-1	None	None
19	RASGRP4	ENSG00000171777	ENST00000293062	protein_coding	KNOWN	CCDS54263	18958	1731	576	38899698	38916945	-1	None	None
19	RASGRP4	ENSG00000171777	ENST00000589358	nonsense_mediated_decay	KNOWN	CCDS46068	18958	2022	673	38899698	38916945	-1	None	None
19	RASGRP4	ENSG00000171777	ENST00000592322	retained_intron	KNOWN	None	18958	None	None	38899698	38916945	-1	None	None
19	RASGRP4	ENSG00000171777	ENST00000588404	retained_intron	KNOWN	None	18958	None	None	38899698	38916945	-1	None	None
19	RASGRP4	ENSG00000171777	ENST00000587287	retained_intron	KNOWN	None	18958	None	None	38899755	38902036	-1	None	None
19	RASGRP4	ENSG00000171777	ENST00000587738	protein_coding	KNOWN	CCDS46068	18958	2022	673	38900480	38916802	-1	None	None
19	RASGRP4	ENSG00000171777	ENST00000589100	retained_intron	KNOWN	None	18958	None	None	38903055	38916837	-1	None	None
6	FARS2	ENSG00000145982	ENST00000324331	protein_coding	KNOWN	CCDS4494	21062	1356	451	5261277	5771662	1	FARS1	dJ236A3.1
6	FARS2	ENSG00000145982	ENST00000602691	protein_coding	KNOWN	None	21062	142	46	5261559	5368945	1	FARS1	dJ236A3.1
6	FARS2	ENSG00000145982	ENST00000274680	protein_coding	KNOWN	CCDS4494	21062	1356	451	5261759	5771813	1	FARS1	dJ236A3.1
6	FARS2	ENSG00000145982	ENST00000445533	protein_coding	KNOWN	None	21062	306	101	5404775	5432043	1	FARS1	dJ236A3.1
11	LDHAL6DP	ENSG00000250257	ENST00000513668	unprocessed_pseudogene	KNOWN	None	44239	None	None	83525614	83526306	-1	None	None
20	PROCR	ENSG00000101000	ENST00000216968	protein_coding	KNOWN	CCDS13248	9452	717	238	33759876	33765165	1	None	EPCR, CCD41, CD201
2	CGREF1	ENSG00000138028	ENST00000440612	nonsense_mediated_decay	KNOWN	None	16962	174	57	27321757	27341965	-1	None	CGR11
2	CGREF1	ENSG00000138028	ENST00000402550	protein_coding	NOVEL	CCDS54339	16962	399	132	27321757	27341983	-1	None	CGR11
2	CGREF1	ENSG00000138028	ENST00000402394	protein_coding	KNOWN	CCDS33162	16962	957	318	27323466	27341971	-1	None	CGR11
2	CGREF1	ENSG00000138028	ENST00000405600	protein_coding	KNOWN	CCDS33162	16962	957	318	27323895	27341773	-1	None	CGR11
2	CGREF1	ENSG00000138028	ENST00000312734	protein_coding	KNOWN	CCDS33162	16962	957	318	27323981	27341898	-1	None	CGR11
2	CGREF1	ENSG00000138028	ENST00000404694	protein_coding	NOVEL	None	16962	1323	440	27324094	27327605	-1	None	CGR11
2	CGREF1	ENSG00000138028	ENST00000467539	retained_intron	KNOWN	None	16962	None	None	27324985	27327227	-1	None	CGR11
2	CGREF1	ENSG00000138028	ENST00000452318	protein_coding	KNOWN	CCDS54338	16962	339	112	27322221	27333970	-1	None	CGR11
2	CGREF1	ENSG00000138028	ENST00000260595	protein_coding	KNOWN	None	16962	906	301	27324142	27341995	-1	None	CGR11
11	None	ENSG00000239481	ENST00000462701	processed_pseudogene	KNOWN	None	None	None	None	71380566	71381343	1	None	None
17	RYKP1	ENSG00000263219	ENST00000575880	processed_pseudogene	KNOWN	None	10482	None	None	4125386	4127123	1	RYKL1, JTK5B, RYKP	JTK5
6	ACTBP8	ENSG00000220267	ENST00000403258	processed_pseudogene	KNOWN	None	141	None	None	88985601	88986708	-1	None	ACTBP2
X	RNA5SP513	ENSG00000201518	ENST00000364648	rRNA	KNOWN	None	43413	None	None	128570507	128570624	-1	RN5S513	None
6	None	ENSG00000231150	ENST00000418399	antisense	KNOWN	None	None	None	None	38890805	38899147	-1	None	None
6	None	ENSG00000231150	ENST00000416948	antisense	KNOWN	None	None	None	None	38890805	38920875	-1	None	None
6	None	ENSG00000231150	ENST00000453417	antisense	KNOWN	None	None	None	None	38897126	38900693	-1	None	None
11	OR5D3P	ENSG00000186886	ENST00000530327	unprocessed_pseudogene	KNOWN	None	8336	None	None	55493889	55494537	1	OR5D3, OR5D4	OR11-8b, OR11-8c
11	OR5D3P	ENSG00000186886	ENST00000333984	unprocessed_pseudogene	KNOWN	None	8336	None	None	55493696	55494628	1	OR5D3, OR5D4	OR11-8b, OR11-8c
7	None	ENSG00000223740	ENST00000426027	processed_pseudogene	KNOWN	None	None	None	None	56593121	56593806	-1	None	None
X	None	ENSG00000240143	ENST00000432513	processed_transcript	PUTATIVE	None	None	None	None	128928970	128930939	1	None	None
11	None	ENSG00000254506	ENST00000527374	processed_transcript	KNOWN	None	None	None	None	101455026	101465887	1	None	None
11	None	ENSG00000254506	ENST00000526526	transcribed_processed_pseudogene	KNOWN	None	None	None	None	101464751	101465665	1	None	None
13	RN7SL289P	ENSG00000265546	ENST00000577303	misc_RNA	KNOWN	None	46305	None	None	26027137	26027428	-1	None	None
12	MIR3198-2	ENSG00000265371	ENST00000577868	miRNA	KNOWN	None	41766	None	None	54625181	54625260	-1	None	hsa-mir-3198-2
17	PPY	ENSG00000108849	ENST00000587926	retained_intron	KNOWN	None	9327	None	None	42018172	42018667	-1	None	PNP
17	PPY	ENSG00000108849	ENST00000587070	retained_intron	KNOWN	None	9327	None	None	42018172	42018882	-1	None	PNP
17	PPY	ENSG00000108849	ENST00000591703	nonsense_mediated_decay	KNOWN	None	9327	240	79	42018172	42019833	-1	None	PNP
17	PPY	ENSG00000108849	ENST00000225992	protein_coding	KNOWN	CCDS11472	9327	288	95	42018172	42019836	-1	None	PNP
17	PPY	ENSG00000108849	ENST00000591228	protein_coding	KNOWN	CCDS11472	9327	288	95	42018173	42019642	-1	None	PNP
17	PPY	ENSG00000108849	ENST00000587006	protein_coding	NOVEL	None	9327	318	105	42018183	42019022	-1	None	PNP
11	OR51A3P	ENSG00000227023	ENST00000413596	unprocessed_pseudogene	KNOWN	None	14794	None	None	4958601	4959524	-1	None	None
13	RNU6-78P	ENSG00000199767	ENST00000362897	snRNA	KNOWN	None	42568	None	None	26091257	26091363	1	RNU6-78	None
6	None	ENSG00000234426	ENST00000429137	lincRNA	KNOWN	None	None	None	None	89008669	89130752	-1	None	None
4	None	ENSG00000260296	ENST00000567102	sense_overlapping	KNOWN	None	None	None	None	40168295	40169451	1	None	None
7	FERD3L	ENSG00000146618	ENST00000275461	protein_coding	KNOWN	CCDS5368	16660	501	166	19184405	19185044	-1	None	NATO3, N-TWIST, bHLHa31
9	None	ENSG00000228069	ENST00000432119	unprocessed_pseudogene	KNOWN	None	None	None	None	94871295	94872377	1	None	None
11	None	ENSG00000256940	ENST00000544553	antisense	KNOWN	None	None	None	None	64013436	64015689	1	None	None
11	None	ENSG00000256940	ENST00000538355	antisense	KNOWN	None	None	None	None	64014526	64015649	1	None	None
11	None	ENSG00000264838	ENST00000581857	miRNA	NOVEL	None	None	None	None	83940603	83940692	1	None	None
12	None	ENSG00000257433	ENST00000547799	lincRNA	KNOWN	None	None	None	None	48099868	48136077	1	None	None
12	None	ENSG00000257433	ENST00000552502	lincRNA	KNOWN	None	None	None	None	48111374	48114229	1	None	None
12	None	ENSG00000257433	ENST00000553045	lincRNA	KNOWN	None	None	None	None	48112941	48122986	1	None	None
12	None	ENSG00000257433	ENST00000552133	lincRNA	KNOWN	None	None	None	None	48113384	48113899	1	None	None
19	NLRP13	ENSG00000173572	ENST00000588751	protein_coding	NOVEL	None	22937	3111	1036	56403065	56443702	-1	NALP13	NOD14, PAN13, CLR19.7
19	NLRP13	ENSG00000173572	ENST00000342929	protein_coding	KNOWN	CCDS33119	22937	3132	1043	56407311	56443677	-1	NALP13	NOD14, PAN13, CLR19.7
13	None	ENSG00000180803	ENST00000447435	processed_pseudogene	KNOWN	None	None	None	None	26437388	26437805	-1	None	None
13	None	ENSG00000180803	ENST00000320572	pseudogene	KNOWN	None	None	None	None	26437388	26437805	-1	None	None
12	RN7SL390P	ENSG00000241785	ENST00000470634	misc_RNA	KNOWN	None	46406	None	None	54649415	54649694	-1	None	None
6	None	ENSG00000222145	ENST00000410213	snoRNA	NOVEL	None	None	None	None	89423961	89424149	-1	None	None
7	None	ENSG00000233288	ENST00000429367	lincRNA	KNOWN	None	None	None	None	56601923	56605823	-1	None	None
12	None	ENSG00000212432	ENST00000391130	snoRNA	NOVEL	None	None	None	None	9597654	9597801	1	None	None
17	None	ENSG00000261868	ENST00000576210	processed_pseudogene	KNOWN	None	None	None	None	4204667	4205993	1	None	None
6	None	ENSG00000220130	ENST00000401460	processed_pseudogene	KNOWN	None	None	None	None	89711267	89711533	1	None	None
4	None	ENSG00000250338	ENST00000515422	lincRNA	KNOWN	None	None	None	None	40267092	40268077	1	None	None
3	None	ENSG00000232352	ENST00000421735	antisense	KNOWN	None	None	None	None	50304073	50304803	-1	None	None
11	OR51A5P	ENSG00000225003	ENST00000415429	unprocessed_pseudogene	KNOWN	None	14801	None	None	4994173	4995114	-1	None	None
12	C12orf4	ENSG00000047621	ENST00000261250	protein_coding	KNOWN	CCDS8528	1184	1659	552	4596894	4647637	-1	None	None
12	C12orf4	ENSG00000047621	ENST00000545746	protein_coding	KNOWN	CCDS8528	1184	1659	552	4598581	4647674	-1	None	None
12	C12orf4	ENSG00000047621	ENST00000544258	nonsense_mediated_decay	KNOWN	None	1184	144	47	4598961	4626272	-1	None	None
12	C12orf4	ENSG00000047621	ENST00000509318	processed_transcript	KNOWN	None	1184	None	None	4609481	4618516	-1	None	None
12	C12orf4	ENSG00000047621	ENST00000541014	protein_coding	PUTATIVE	None	1184	612	203	4626258	4647670	-1	None	None
12	C12orf4	ENSG00000047621	ENST00000544697	nonsense_mediated_decay	KNOWN	None	1184	234	77	4626272	4647609	-1	None	None
12	C12orf4	ENSG00000047621	ENST00000535887	retained_intron	KNOWN	None	1184	None	None	4634101	4639061	-1	None	None
12	C12orf4	ENSG00000047621	ENST00000542080	protein_coding	PUTATIVE	None	1184	432	143	4634683	4647674	-1	None	None
12	C12orf4	ENSG00000047621	ENST00000535030	retained_intron	KNOWN	None	1184	None	None	4643211	4647674	-1	None	None
17	RN7SL774P	ENSG00000263882	ENST00000577467	misc_RNA	KNOWN	None	46790	None	None	4267463	4267748	-1	None	None
12	None	ENSG00000256077	ENST00000540761	lincRNA	KNOWN	None	None	None	None	67964977	67983767	-1	None	None
12	None	ENSG00000256077	ENST00000537732	lincRNA	KNOWN	None	None	None	None	67980370	67981086	-1	None	None
6	None	ENSG00000220960	ENST00000403367	processed_pseudogene	KNOWN	None	None	None	None	89769347	89769828	1	None	None
13	RN7SL741P	ENSG00000242381	ENST00000482473	misc_RNA	KNOWN	None	46757	None	None	26518632	26518891	1	None	None
19	U2AF1L4	ENSG00000161265	ENST00000591084	nonsense_mediated_decay	KNOWN	None	23020	123	40	36233428	36235600	-1	U2AF1L3	MGC33901, U2af26
19	U2AF1L4	ENSG00000161265	ENST00000590135	retained_intron	KNOWN	None	23020	None	None	36233430	36235561	-1	U2AF1L3	MGC33901, U2af26
19	U2AF1L4	ENSG00000161265	ENST00000585554	retained_intron	KNOWN	None	23020	None	None	36233430	36236298	-1	U2AF1L3	MGC33901, U2af26
19	U2AF1L4	ENSG00000161265	ENST00000591855	retained_intron	KNOWN	None	23020	None	None	36233432	36235464	-1	U2AF1L3	MGC33901, U2af26
19	U2AF1L4	ENSG00000161265	ENST00000594792	nonsense_mediated_decay	KNOWN	None	23020	102	33	36233432	36236058	-1	U2AF1L3	MGC33901, U2af26
19	U2AF1L4	ENSG00000161265	ENST00000600296	nonsense_mediated_decay	KNOWN	None	23020	214	70	36233432	36236077	-1	U2AF1L3	MGC33901, U2af26
19	U2AF1L4	ENSG00000161265	ENST00000587987	nonsense_mediated_decay	KNOWN	None	23020	120	39	36233432	36236315	-1	U2AF1L3	MGC33901, U2af26
19	U2AF1L4	ENSG00000161265	ENST00000589429	nonsense_mediated_decay	KNOWN	None	23020	111	36	36233433	36235588	-1	U2AF1L3	MGC33901, U2af26
19	U2AF1L4	ENSG00000161265	ENST00000588980	retained_intron	KNOWN	None	23020	None	None	36233433	36236303	-1	U2AF1L3	MGC33901, U2af26
19	U2AF1L4	ENSG00000161265	ENST00000378975	protein_coding	NOVEL	CCDS42551	23020	546	181	36233433	36236306	-1	U2AF1L3	MGC33901, U2af26
19	U2AF1L4	ENSG00000161265	ENST00000592913	retained_intron	KNOWN	None	23020	None	None	36233433	36236327	-1	U2AF1L3	MGC33901, U2af26
19	U2AF1L4	ENSG00000161265	ENST00000292879	protein_coding	NOVEL	CCDS12473	23020	609	202	36233433	36236346	-1	U2AF1L3	MGC33901, U2af26
19	U2AF1L4	ENSG00000161265	ENST00000588892	retained_intron	KNOWN	None	23020	None	None	36233434	36236315	-1	U2AF1L3	MGC33901, U2af26
19	U2AF1L4	ENSG00000161265	ENST00000586476	retained_intron	KNOWN	None	23020	None	None	36233912	36236343	-1	U2AF1L3	MGC33901, U2af26
19	U2AF1L4	ENSG00000161265	ENST00000601236	nonsense_mediated_decay	KNOWN	None	23020	201	66	36234750	36236317	-1	U2AF1L3	MGC33901, U2af26
19	U2AF1L4	ENSG00000161265	ENST00000585771	retained_intron	KNOWN	None	23020	None	None	36235005	36236299	-1	U2AF1L3	MGC33901, U2af26
19	U2AF1L4	ENSG00000161265	ENST00000587886	nonsense_mediated_decay	KNOWN	None	23020	57	18	36235248	36236323	-1	U2AF1L3	MGC33901, U2af26
19	U2AF1L4	ENSG00000161265	ENST00000588100	processed_transcript	KNOWN	None	23020	None	None	36235564	36236342	-1	U2AF1L3	MGC33901, U2af26
19	U2AF1L4	ENSG00000161265	ENST00000590650	retained_intron	KNOWN	None	23020	None	None	36235696	36236254	-1	U2AF1L3	MGC33901, U2af26
19	U2AF1L4	ENSG00000161265	ENST00000412391	protein_coding	KNOWN	None	23020	663	220	36233433	36236306	-1	U2AF1L3	MGC33901, U2af26
12	None	ENSG00000270068	ENST00000602759	antisense	KNOWN	None	None	None	None	6832399	6832853	1	None	None
6	None	ENSG00000220076	ENST00000407768	processed_pseudogene	KNOWN	None	None	None	None	38895807	38895929	1	None	None
4	None	ENSG00000249241	ENST00000510551	lincRNA	KNOWN	None	None	None	None	40318502	40332436	1	None	None
13	RNY1P3	ENSG00000223158	ENST00000411226	misc_RNA	KNOWN	None	42480	None	None	26524842	26524959	-1	None	None
17	None	ENSG00000262823	ENST00000576086	antisense	KNOWN	None	None	None	None	4385261	4389648	-1	None	None
17	None	ENSG00000262823	ENST00000577176	antisense	KNOWN	None	None	None	None	4385314	4386951	-1	None	None
17	None	ENSG00000262823	ENST00000577064	antisense	KNOWN	None	None	None	None	4385443	4386879	-1	None	None
7	VN1R25P	ENSG00000224947	ENST00000443385	processed_pseudogene	KNOWN	None	37345	None	None	56626914	56627651	1	None	None
7	TWISTNB	ENSG00000105849	ENST00000222567	protein_coding	KNOWN	CCDS34606	18027	1017	338	19735085	19748710	-1	None	None
7	TWISTNB	ENSG00000105849	ENST00000462263	retained_intron	KNOWN	None	18027	None	None	19738188	19739958	-1	None	None
11	None	ENSG00000255171	ENST00000528720	lincRNA	KNOWN	None	None	None	None	41736118	41857992	1	None	None
11	None	ENSG00000255171	ENST00000529282	lincRNA	KNOWN	None	None	None	None	41736540	41847772	1	None	None
11	None	ENSG00000255171	ENST00000530379	lincRNA	KNOWN	None	None	None	None	41741993	41756304	1	None	None
12	LRRK2	ENSG00000188906	ENST00000416796	protein_coding	PUTATIVE	None	18618	1563	520	40590546	40677754	1	PARK8	ROCO2, DKFZp434H2111, FLJ45829, RIPK7
12	LRRK2	ENSG00000188906	ENST00000343742	protein_coding	PUTATIVE	None	18618	3816	1271	40618813	40698778	1	PARK8	ROCO2, DKFZp434H2111, FLJ45829, RIPK7
12	LRRK2	ENSG00000188906	ENST00000298910	protein_coding	KNOWN	CCDS31774	18618	7584	2527	40618876	40763083	1	PARK8	ROCO2, DKFZp434H2111, FLJ45829, RIPK7
12	LRRK2	ENSG00000188906	ENST00000474202	retained_intron	KNOWN	None	18618	None	None	40619397	40626585	1	PARK8	ROCO2, DKFZp434H2111, FLJ45829, RIPK7
12	LRRK2	ENSG00000188906	ENST00000430804	nonsense_mediated_decay	KNOWN	None	18618	623	206	40689307	40763087	1	PARK8	ROCO2, DKFZp434H2111, FLJ45829, RIPK7
12	LRRK2	ENSG00000188906	ENST00000479187	retained_intron	KNOWN	None	18618	None	None	40692268	40763087	1	PARK8	ROCO2, DKFZp434H2111, FLJ45829, RIPK7
12	LRRK2	ENSG00000188906	ENST00000481256	processed_transcript	KNOWN	None	18618	None	None	40706516	40713864	1	PARK8	ROCO2, DKFZp434H2111, FLJ45829, RIPK7
14	None	ENSG00000258727	ENST00000555968	antisense	KNOWN	None	None	None	None	24030306	24037282	1	None	None
3	None	ENSG00000244327	ENST00000460977	sense_overlapping	KNOWN	None	None	None	None	142184157	142191179	-1	None	None
7	None	ENSG00000227869	ENST00000453278	lincRNA	KNOWN	None	None	None	None	125071401	125101665	1	None	None
7	None	ENSG00000227869	ENST00000458437	lincRNA	KNOWN	None	None	None	None	125078165	125106455	1	None	None
7	None	ENSG00000227869	ENST00000415896	lincRNA	KNOWN	None	None	None	None	125078276	125101923	1	None	None
3	None	ENSG00000249580	ENST00000507369	unprocessed_pseudogene	KNOWN	None	None	None	None	106616518	106617115	-1	None	None
6	RNU2-61P	ENSG00000223001	ENST00000411069	snRNA	KNOWN	None	48554	None	None	89773219	89773409	-1	None	None
18	None	ENSG00000267249	ENST00000585877	sense_intronic	KNOWN	None	None	None	None	12670425	12671144	-1	None	None
11	None	ENSG00000254534	ENST00000530032	unprocessed_pseudogene	KNOWN	None	None	None	None	101636666	101640692	-1	None	None
12	None	ENSG00000214776	ENST00000518709	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	9620148	9727568	1	None	None
12	None	ENSG00000214776	ENST00000520314	processed_transcript	KNOWN	None	None	None	None	9709910	9728864	1	None	None
4	RNU7-74P	ENSG00000239010	ENST00000459104	snRNA	KNOWN	None	34170	None	None	40379469	40379530	-1	None	U7.74
6	None	ENSG00000271931	ENST00000606729	antisense	KNOWN	None	None	None	None	89789883	89790386	-1	None	None
11	None	ENSG00000254805	ENST00000524498	processed_pseudogene	KNOWN	None	None	None	None	71401499	71401703	-1	None	None
7	None	ENSG00000213650	ENST00000435487	processed_pseudogene	KNOWN	None	None	None	None	56635599	56636551	-1	None	None
17	None	ENSG00000229782	ENST00000416958	antisense	KNOWN	None	None	None	None	4400689	4402969	-1	None	None
11	None	ENSG00000187066	ENST00000528029	retained_intron	KNOWN	None	None	None	None	64852451	64856579	-1	None	None
11	None	ENSG00000187066	ENST00000524632	protein_coding	PUTATIVE	None	None	339	112	64855844	64856497	-1	None	None
11	None	ENSG00000187066	ENST00000334821	retained_intron	KNOWN	None	None	None	None	64855844	64856542	-1	None	None
11	None	ENSG00000187066	ENST00000530719	protein_coding	PUTATIVE	None	None	351	116	64855844	64856563	-1	None	None
11	None	ENSG00000187066	ENST00000525544	processed_transcript	KNOWN	None	None	None	None	64855847	64856563	-1	None	None
11	None	ENSG00000187066	ENST00000524603	protein_coding	PUTATIVE	None	None	319	105	64855959	64856847	-1	None	None
18	None	ENSG00000266961	ENST00000587889	lincRNA	KNOWN	None	None	None	None	12738964	12750067	-1	None	None
6	RN7SL336P	ENSG00000264017	ENST00000580171	misc_RNA	KNOWN	None	46352	None	None	89800665	89800959	1	None	None
20	PAX1	ENSG00000125813	ENST00000398485	protein_coding	KNOWN	CCDS13146	8615	1605	534	21686297	21696620	1	None	None
20	PAX1	ENSG00000125813	ENST00000460221	processed_transcript	KNOWN	None	8615	None	None	21686325	21690062	1	None	None
20	PAX1	ENSG00000125813	ENST00000444366	protein_coding	NOVEL	None	8615	1302	433	21686861	21695747	1	None	None
20	PAX1	ENSG00000125813	ENST00000485038	retained_intron	KNOWN	None	8615	None	None	21688908	21689915	1	None	None
X	SSU72P1	ENSG00000226547	ENST00000449911	processed_pseudogene	KNOWN	None	43620	None	None	113625127	113625709	1	None	None
3	MTND5P16	ENSG00000243658	ENST00000460269	unprocessed_pseudogene	KNOWN	None	42278	None	None	106617736	106619438	1	None	None
9	LCN12	ENSG00000184925	ENST00000484304	processed_transcript	KNOWN	None	28733	None	None	139844003	139847526	1	None	MGC48935
9	LCN12	ENSG00000184925	ENST00000470501	retained_intron	KNOWN	None	28733	None	None	139846768	139849949	1	None	MGC48935
9	LCN12	ENSG00000184925	ENST00000371633	protein_coding	KNOWN	CCDS7018	28733	579	192	139846780	139849851	1	None	MGC48935
9	LCN12	ENSG00000184925	ENST00000492820	processed_transcript	KNOWN	None	28733	None	None	139846828	139848857	1	None	MGC48935
9	LCN12	ENSG00000184925	ENST00000491316	processed_transcript	KNOWN	None	28733	None	None	139846855	139849949	1	None	MGC48935
9	LCN12	ENSG00000184925	ENST00000495410	processed_transcript	KNOWN	None	28733	None	None	139847119	139847943	1	None	MGC48935
9	LCN12	ENSG00000184925	ENST00000491603	processed_transcript	KNOWN	None	28733	None	None	139847344	139848707	1	None	MGC48935
9	LCN12	ENSG00000184925	ENST00000463714	processed_transcript	KNOWN	None	28733	None	None	139847344	139848907	1	None	MGC48935
9	LCN12	ENSG00000184925	ENST00000496895	processed_transcript	KNOWN	None	28733	None	None	139847373	139848866	1	None	MGC48935
9	LCN12	ENSG00000184925	ENST00000471615	nonsense_mediated_decay	KNOWN	None	28733	309	102	139847404	139849949	1	None	MGC48935
9	LCN12	ENSG00000184925	ENST00000371632	protein_coding	KNOWN	None	28733	273	90	139847428	139849949	1	None	MGC48935
9	LCN12	ENSG00000184925	ENST00000494713	processed_transcript	KNOWN	None	28733	None	None	139848040	139849949	1	None	MGC48935
9	LCN12	ENSG00000184925	ENST00000476751	processed_transcript	KNOWN	None	28733	None	None	139848069	139849949	1	None	MGC48935
9	LCN12	ENSG00000184925	ENST00000466277	processed_transcript	KNOWN	None	28733	None	None	139848086	139849878	1	None	MGC48935
9	LCN12	ENSG00000184925	ENST00000480204	processed_transcript	KNOWN	None	28733	None	None	139848313	139849949	1	None	MGC48935
6	TUBB3P1	ENSG00000220418	ENST00000405796	processed_pseudogene	KNOWN	None	42339	None	None	90011502	90012833	1	None	None
11	OR51P1P	ENSG00000224300	ENST00000447547	unprocessed_pseudogene	KNOWN	None	14762	None	None	5036368	5037309	1	OR51P2P	None
18	None	ENSG00000267654	ENST00000589930	lincRNA	KNOWN	None	None	None	None	12739489	12749420	-1	None	None
11	None	ENSG00000254972	ENST00000532530	lincRNA	KNOWN	None	None	None	None	71412314	71416450	-1	None	None
HG243_PATCH	SLC39A4	ENSG00000261297	ENST00000562134	processed_transcript	KNOWN	None	17129	None	None	145464645	145468474	-1	AEZ	ZIP4, AWMS2
HG243_PATCH	SLC39A4	ENSG00000261297	ENST00000563735	retained_intron	KNOWN	None	17129	None	None	145465298	145468488	-1	AEZ	ZIP4, AWMS2
HG243_PATCH	SLC39A4	ENSG00000261297	ENST00000567569	processed_transcript	PUTATIVE	None	17129	None	None	145467317	145468472	-1	AEZ	ZIP4, AWMS2
HG243_PATCH	SLC39A4	ENSG00000261297	ENST00000561601	retained_intron	KNOWN	None	17129	None	None	145467317	145468489	-1	AEZ	ZIP4, AWMS2
HG243_PATCH	SLC39A4	ENSG00000261297	ENST00000565606	protein_coding	KNOWN	None	17129	1869	622	145467317	145471415	-1	AEZ	ZIP4, AWMS2
HG243_PATCH	SLC39A4	ENSG00000261297	ENST00000569401	protein_coding	KNOWN	None	17129	1944	647	145467317	145471798	-1	AEZ	ZIP4, AWMS2
HG243_PATCH	SLC39A4	ENSG00000261297	ENST00000562198	retained_intron	KNOWN	None	17129	None	None	145467318	145468494	-1	AEZ	ZIP4, AWMS2
HG243_PATCH	SLC39A4	ENSG00000261297	ENST00000562427	protein_coding	PUTATIVE	None	17129	553	183	145469769	145471722	-1	AEZ	ZIP4, AWMS2
3	LINC00877	ENSG00000241163	ENST00000468646	lincRNA	KNOWN	None	27706	None	None	72084451	72149578	-1	None	None
3	LINC00877	ENSG00000241163	ENST00000470712	lincRNA	KNOWN	None	27706	None	None	72108973	72149263	-1	None	None
3	LINC00877	ENSG00000241163	ENST00000498432	lincRNA	KNOWN	None	27706	None	None	72109915	72149454	-1	None	None
3	LINC00877	ENSG00000241163	ENST00000469218	lincRNA	KNOWN	None	27706	None	None	72109948	72283395	-1	None	None
3	LINC00877	ENSG00000241163	ENST00000481148	lincRNA	KNOWN	None	27706	None	None	72109992	72291716	-1	None	None
3	LINC00877	ENSG00000241163	ENST00000464271	lincRNA	KNOWN	None	27706	None	None	72110084	72149606	-1	None	None
3	LINC00877	ENSG00000241163	ENST00000462492	lincRNA	KNOWN	None	27706	None	None	72141580	72150020	-1	None	None
3	LINC00877	ENSG00000241163	ENST00000488545	lincRNA	KNOWN	None	27706	None	None	72146879	72150108	-1	None	None
X	None	ENSG00000239429	ENST00000413236	unprocessed_pseudogene	KNOWN	None	None	None	None	150780136	150839668	1	None	None
14	None	ENSG00000258464	ENST00000554526	lincRNA	KNOWN	None	None	None	None	24198247	24198950	-1	None	None
14	None	ENSG00000258464	ENST00000554382	retained_intron	KNOWN	None	None	None	None	24198362	24198906	-1	None	None
3	MTND6P6	ENSG00000240034	ENST00000478031	unprocessed_pseudogene	KNOWN	None	39469	None	None	106619440	106619702	-1	None	None
7	None	ENSG00000234716	ENST00000414578	processed_pseudogene	KNOWN	None	None	None	None	56645541	56646559	1	None	None
7	None	ENSG00000197462	ENST00000411856	lincRNA	KNOWN	None	None	None	None	125557925	125573886	1	None	None
7	ABCB4	ENSG00000005471	ENST00000440025	protein_coding	PUTATIVE	None	45	298	98	87031013	87032517	-1	PGY3, MDR3	MDR2, PFIC-3, GBD1
7	ABCB4	ENSG00000005471	ENST00000359206	protein_coding	KNOWN	CCDS5605	45	3840	1279	87031361	87104975	-1	PGY3, MDR3	MDR2, PFIC-3, GBD1
7	ABCB4	ENSG00000005471	ENST00000265723	protein_coding	KNOWN	CCDS5606	45	3861	1286	87031365	87105055	-1	PGY3, MDR3	MDR2, PFIC-3, GBD1
7	ABCB4	ENSG00000005471	ENST00000453593	protein_coding	KNOWN	CCDS5607	45	3699	1232	87031412	87104781	-1	PGY3, MDR3	MDR2, PFIC-3, GBD1
7	ABCB4	ENSG00000005471	ENST00000467983	retained_intron	KNOWN	None	45	None	None	87031450	87032695	-1	PGY3, MDR3	MDR2, PFIC-3, GBD1
7	ABCB4	ENSG00000005471	ENST00000467079	retained_intron	KNOWN	None	45	None	None	87035236	87037550	-1	PGY3, MDR3	MDR2, PFIC-3, GBD1
7	ABCB4	ENSG00000005471	ENST00000469770	retained_intron	KNOWN	None	45	None	None	87052891	87060816	-1	PGY3, MDR3	MDR2, PFIC-3, GBD1
7	ABCB4	ENSG00000005471	ENST00000473795	retained_intron	KNOWN	None	45	None	None	87081688	87104788	-1	PGY3, MDR3	MDR2, PFIC-3, GBD1
7	ABCB4	ENSG00000005471	ENST00000417608	protein_coding	KNOWN	None	45	183	60	87092177	87109751	-1	PGY3, MDR3	MDR2, PFIC-3, GBD1
7	ABCB4	ENSG00000005471	ENST00000358400	protein_coding	KNOWN	CCDS5607	45	3699	1232	87031361	87105019	-1	PGY3, MDR3	MDR2, PFIC-3, GBD1
7	ABCB4	ENSG00000005471	ENST00000545634	protein_coding	KNOWN	CCDS5605	45	3840	1279	87031412	87104781	-1	PGY3, MDR3	MDR2, PFIC-3, GBD1
11	None	ENSG00000223235	ENST00000411303	miRNA	NOVEL	None	None	None	None	71417525	71417624	-1	None	None
2	REG1B	ENSG00000172023	ENST00000454188	protein_coding	PUTATIVE	None	9952	450	149	79312156	79313973	-1	None	REGL, PSPS2, REGH, REGI-BETA
2	REG1B	ENSG00000172023	ENST00000305089	protein_coding	KNOWN	CCDS1963	9952	501	166	79312157	79315119	-1	None	REGL, PSPS2, REGH, REGI-BETA
2	REG1B	ENSG00000172023	ENST00000479258	retained_intron	KNOWN	None	9952	None	None	79312666	79315145	-1	None	REGL, PSPS2, REGH, REGI-BETA
2	REG1B	ENSG00000172023	ENST00000476554	retained_intron	KNOWN	None	9952	None	None	79313001	79315143	-1	None	REGL, PSPS2, REGH, REGI-BETA
2	REG1B	ENSG00000172023	ENST00000469052	retained_intron	KNOWN	None	9952	None	None	79314241	79315119	-1	None	REGL, PSPS2, REGH, REGI-BETA
11	OR52J2P	ENSG00000230261	ENST00000427973	unprocessed_pseudogene	KNOWN	None	14797	None	None	5058243	5059181	1	OR52J4P	None
3	None	ENSG00000242390	ENST00000466502	processed_pseudogene	KNOWN	None	None	None	None	142299752	142301241	1	None	None
16	CORO7	ENSG00000262246	ENST00000251166	protein_coding	KNOWN	CCDS10513	26161	2778	925	4404543	4466665	-1	None	FLJ22021
16	CORO7	ENSG00000262246	ENST00000571227	nonsense_mediated_decay	KNOWN	None	26161	141	46	4404545	4466628	-1	None	FLJ22021
16	CORO7	ENSG00000262246	ENST00000537233	protein_coding	NOVEL	CCDS58417	26161	2724	907	4404602	4466630	-1	None	FLJ22021
16	CORO7	ENSG00000262246	ENST00000574025	protein_coding	KNOWN	CCDS55982	26161	2523	840	4404965	4466628	-1	None	FLJ22021
16	CORO7	ENSG00000262246	ENST00000576637	nonsense_mediated_decay	KNOWN	None	26161	358	118	4404969	4409628	-1	None	FLJ22021
16	CORO7	ENSG00000262246	ENST00000570779	protein_coding	PUTATIVE	None	26161	573	190	4405081	4408451	-1	None	FLJ22021
16	CORO7	ENSG00000262246	ENST00000575531	retained_intron	KNOWN	None	26161	None	None	4406433	4413229	-1	None	FLJ22021
16	CORO7	ENSG00000262246	ENST00000575714	retained_intron	KNOWN	None	26161	None	None	4407376	4457578	-1	None	FLJ22021
16	CORO7	ENSG00000262246	ENST00000574849	retained_intron	KNOWN	None	26161	None	None	4407765	4409329	-1	None	FLJ22021
16	CORO7	ENSG00000262246	ENST00000572666	retained_intron	KNOWN	None	26161	None	None	4408443	4411903	-1	None	FLJ22021
16	CORO7	ENSG00000262246	ENST00000572125	retained_intron	KNOWN	None	26161	None	None	4408851	4409625	-1	None	FLJ22021
16	CORO7	ENSG00000262246	ENST00000574311	nonsense_mediated_decay	KNOWN	None	26161	1104	367	4410279	4466597	-1	None	FLJ22021
16	CORO7	ENSG00000262246	ENST00000576437	nonsense_mediated_decay	KNOWN	None	26161	327	108	4410446	4466627	-1	None	FLJ22021
16	CORO7	ENSG00000262246	ENST00000573773	retained_intron	KNOWN	None	26161	None	None	4411651	4414572	-1	None	FLJ22021
16	CORO7	ENSG00000262246	ENST00000571756	nonsense_mediated_decay	KNOWN	None	26161	660	219	4411691	4466597	-1	None	FLJ22021
16	CORO7	ENSG00000262246	ENST00000572549	protein_coding	PUTATIVE	None	26161	617	204	4414653	4466930	-1	None	FLJ22021
16	CORO7	ENSG00000262246	ENST00000572044	protein_coding	NOVEL	None	26161	485	160	4414831	4466597	-1	None	FLJ22021
16	CORO7	ENSG00000262246	ENST00000573245	retained_intron	KNOWN	None	26161	None	None	4437766	4445341	-1	None	FLJ22021
16	CORO7	ENSG00000262246	ENST00000571059	protein_coding	NOVEL	None	26161	470	155	4438014	4466630	-1	None	FLJ22021
16	CORO7	ENSG00000262246	ENST00000571052	protein_coding	PUTATIVE	None	26161	172	56	4438577	4466598	-1	None	FLJ22021
16	CORO7	ENSG00000262246	ENST00000575038	protein_coding	KNOWN	None	26161	604	200	4438583	4466931	-1	None	FLJ22021
16	CORO7	ENSG00000262246	ENST00000570645	protein_coding	PUTATIVE	None	26161	141	46	4438608	4466627	-1	None	FLJ22021
16	CORO7	ENSG00000262246	ENST00000570928	nonsense_mediated_decay	KNOWN	None	26161	345	114	4445320	4466596	-1	None	FLJ22021
16	CORO7	ENSG00000262246	ENST00000575850	protein_coding	PUTATIVE	None	26161	620	205	4445324	4466930	-1	None	FLJ22021
16	CORO7	ENSG00000262246	ENST00000572153	nonsense_mediated_decay	KNOWN	None	26161	141	46	4455472	4466580	-1	None	FLJ22021
16	CORO7	ENSG00000262246	ENST00000572898	protein_coding	NOVEL	None	26161	484	160	4455511	4466628	-1	None	FLJ22021
16	CORO7	ENSG00000262246	ENST00000576051	protein_coding	PUTATIVE	None	26161	33	10	4455524	4463490	-1	None	FLJ22021
16	CORO7	ENSG00000262246	ENST00000576457	processed_transcript	KNOWN	None	26161	None	None	4455545	4464427	-1	None	FLJ22021
16	CORO7	ENSG00000262246	ENST00000577144	processed_transcript	KNOWN	None	26161	None	None	4455546	4465934	-1	None	FLJ22021
16	CORO7	ENSG00000262246	ENST00000572026	processed_transcript	KNOWN	None	26161	None	None	4457526	4465898	-1	None	FLJ22021
16	CORO7	ENSG00000262246	ENST00000572518	processed_transcript	PUTATIVE	None	26161	None	None	4458187	4462937	-1	None	FLJ22021
16	CORO7	ENSG00000262246	ENST00000573165	protein_coding	KNOWN	None	26161	58	18	4466462	4475706	-1	None	FLJ22021
16	CORO7	ENSG00000262246	ENST00000572140	processed_transcript	PUTATIVE	None	26161	None	None	4466726	4475524	-1	None	FLJ22021
16	CORO7	ENSG00000262246	ENST00000539968	protein_coding	KNOWN	None	26161	2118	705	4404545	4465898	-1	None	FLJ22021
16	CORO7	ENSG00000262246	ENST00000423908	protein_coding	KNOWN	None	26161	1104	367	4410474	4466597	-1	None	FLJ22021
15	RN7SL106P	ENSG00000242962	ENST00000488468	misc_RNA	KNOWN	None	46122	None	None	23443616	23443894	1	None	None
11	ENPP7P8	ENSG00000255319	ENST00000529093	processed_transcript	KNOWN	None	48691	None	None	71422786	71433273	1	None	None
11	ENPP7P8	ENSG00000255319	ENST00000527856	transcribed_unprocessed_pseudogene	KNOWN	None	48691	None	None	71433098	71492229	1	None	None
11	ENPP7P8	ENSG00000255319	ENST00000524615	processed_transcript	KNOWN	None	48691	None	None	71433328	71442565	1	None	None
HSCHR1_1_CTG31	None	ENSG00000264632	ENST00000583838	misc_RNA	NOVEL	None	None	None	None	153673135	153673430	1	None	None
X	RPL36AP53	ENSG00000224664	ENST00000432891	processed_pseudogene	KNOWN	None	36517	None	None	113824088	113824403	1	None	None
5	None	ENSG00000249515	ENST00000510302	lincRNA	KNOWN	None	None	None	None	98885136	98913661	1	None	None
19	None	ENSG00000269419	ENST00000599446	processed_pseudogene	KNOWN	None	None	None	None	16823128	16823245	1	None	None
HSCHR1_1_CTG31	None	ENSG00000262767	ENST00000572295	processed_pseudogene	KNOWN	None	None	None	None	153686309	153687353	-1	None	None
20	MMP24	ENSG00000125966	ENST00000246186	protein_coding	KNOWN	CCDS46593	7172	1938	645	33814457	33864801	1	None	MT5-MMP
10	PDZD7	ENSG00000186862	ENST00000474125	nonsense_mediated_decay	KNOWN	None	26257	402	133	102767567	102790862	-1	PDZK7	FLJ23209, bA108L7.8
10	PDZD7	ENSG00000186862	ENST00000433616	protein_coding	NOVEL	None	26257	624	207	102771715	102778626	-1	PDZK7	FLJ23209, bA108L7.8
10	PDZD7	ENSG00000186862	ENST00000370215	protein_coding	KNOWN	CCDS31269	26257	1554	517	102777089	102790890	-1	PDZK7	FLJ23209, bA108L7.8
10	PDZD7	ENSG00000186862	ENST00000476306	retained_intron	KNOWN	None	26257	None	None	102782372	102789887	-1	PDZK7	FLJ23209, bA108L7.8
10	PDZD7	ENSG00000186862	ENST00000470414	protein_coding	NOVEL	None	26257	546	181	102782885	102790871	-1	PDZK7	FLJ23209, bA108L7.8
16	None	ENSG00000261123	ENST00000565937	sense_intronic	KNOWN	None	None	None	None	2144831	2147027	-1	None	None
6	None	ENSG00000237596	ENST00000417643	antisense	KNOWN	None	None	None	None	136415853	136546733	-1	None	None
6	None	ENSG00000237596	ENST00000585946	antisense	KNOWN	None	None	None	None	136417098	136513013	-1	None	None
6	None	ENSG00000237596	ENST00000591521	antisense	KNOWN	None	None	None	None	136417291	136513312	-1	None	None
19	None	ENSG00000269799	ENST00000601661	sense_intronic	KNOWN	None	None	None	None	16912237	16912525	1	None	None
19	KLK1	ENSG00000167748	ENST00000593859	retained_intron	KNOWN	None	6357	None	None	51322404	51327043	-1	None	Klk6
19	KLK1	ENSG00000167748	ENST00000593325	nonsense_mediated_decay	KNOWN	None	6357	171	56	51322404	51327043	-1	None	Klk6
19	KLK1	ENSG00000167748	ENST00000301420	protein_coding	KNOWN	CCDS12804	6357	789	262	51322409	51327040	-1	None	Klk6
19	KLK1	ENSG00000167748	ENST00000596300	retained_intron	KNOWN	None	6357	None	None	51322527	51324105	-1	None	Klk6
19	KLK1	ENSG00000167748	ENST00000448701	protein_coding	KNOWN	None	6357	483	160	51322404	51327043	-1	None	Klk6
7	None	ENSG00000221418	ENST00000408491	miRNA	NOVEL	None	None	None	None	125680283	125680354	1	None	None
5	None	ENSG00000248236	ENST00000511513	processed_pseudogene	KNOWN	None	None	None	None	98930033	98930444	-1	None	None
12	None	ENSG00000235872	ENST00000425371	antisense	KNOWN	None	None	None	None	68052771	68064699	-1	None	None
11	OR5D17P	ENSG00000181837	ENST00000531492	unprocessed_pseudogene	KNOWN	None	15284	None	None	55522452	55523429	1	None	None
11	OR5D17P	ENSG00000181837	ENST00000328673	unprocessed_pseudogene	KNOWN	None	15284	None	None	55522501	55523433	1	None	None
HSCHR1_1_CTG31	None	ENSG00000266380	ENST00000578047	misc_RNA	NOVEL	None	None	None	None	153693804	153694099	1	None	None
7	None	ENSG00000241921	ENST00000488818	antisense	KNOWN	None	None	None	None	126019024	126064239	1	None	None
3	None	ENSG00000250630	ENST00000515270	unprocessed_pseudogene	KNOWN	None	None	None	None	106619701	106619928	-1	None	None
HSCHR1_1_CTG31	None	ENSG00000262994	ENST00000576223	processed_pseudogene	KNOWN	None	None	None	None	153706999	153708022	-1	None	None
3	RNA5SP143	ENSG00000252745	ENST00000516936	rRNA	KNOWN	None	43043	None	None	142310519	142310633	-1	RN5S143	None
X	TBL1X	ENSG00000101849	ENST00000441088	protein_coding	KNOWN	None	11585	177	58	9431360	9622328	1	TBL1	EBI
X	TBL1X	ENSG00000101849	ENST00000380961	protein_coding	KNOWN	CCDS48078	11585	1581	526	9431369	9686902	1	TBL1	EBI
X	TBL1X	ENSG00000101849	ENST00000415293	protein_coding	KNOWN	None	11585	225	74	9431371	9656077	1	TBL1	EBI
X	TBL1X	ENSG00000101849	ENST00000217964	protein_coding	KNOWN	CCDS14133	11585	1734	577	9433048	9687778	1	TBL1	EBI
X	TBL1X	ENSG00000101849	ENST00000422314	protein_coding	KNOWN	None	11585	134	43	9433334	9652158	1	TBL1	EBI
X	TBL1X	ENSG00000101849	ENST00000452824	protein_coding	KNOWN	None	11585	239	78	9502983	9652110	1	TBL1	EBI
X	TBL1X	ENSG00000101849	ENST00000497555	processed_transcript	KNOWN	None	11585	None	None	9607860	9613435	1	TBL1	EBI
X	TBL1X	ENSG00000101849	ENST00000407597	protein_coding	KNOWN	CCDS14133	11585	1734	577	9431335	9687780	1	TBL1	EBI
X	TBL1X	ENSG00000101849	ENST00000424279	protein_coding	KNOWN	CCDS48078	11585	1581	526	9431335	9687780	1	TBL1	EBI
X	TBL1X	ENSG00000101849	ENST00000536365	protein_coding	KNOWN	CCDS48078	11585	1581	526	9431352	9684302	1	TBL1	EBI
16	None	ENSG00000261240	ENST00000568795	antisense	KNOWN	None	None	None	None	2162336	2163343	1	None	None
6	None	ENSG00000216519	ENST00000403956	processed_pseudogene	KNOWN	None	None	None	None	136639099	136639374	1	None	None
12	None	ENSG00000255970	ENST00000542219	lincRNA	KNOWN	None	None	None	None	68102827	68123255	-1	None	None
14	CDKN3	ENSG00000100526	ENST00000555837	processed_transcript	KNOWN	None	1791	None	None	54863567	54884669	1	None	KAP, CDI1
14	CDKN3	ENSG00000100526	ENST00000335183	protein_coding	KNOWN	CCDS9716	1791	639	212	54863673	54886936	1	None	KAP, CDI1
14	CDKN3	ENSG00000100526	ENST00000543789	protein_coding	PUTATIVE	None	1791	447	148	54863697	54884669	1	None	KAP, CDI1
14	CDKN3	ENSG00000100526	ENST00000442975	protein_coding	NOVEL	CCDS45109	1791	519	172	54863713	54886930	1	None	KAP, CDI1
14	CDKN3	ENSG00000100526	ENST00000458126	protein_coding	NOVEL	None	1791	636	211	54863718	54886936	1	None	KAP, CDI1
14	CDKN3	ENSG00000100526	ENST00000556102	protein_coding	NOVEL	None	1791	612	203	54863721	54886936	1	None	KAP, CDI1
14	CDKN3	ENSG00000100526	ENST00000541304	protein_coding	NOVEL	None	1791	441	146	54863747	54880937	1	None	KAP, CDI1
14	CDKN3	ENSG00000100526	ENST00000216414	processed_transcript	KNOWN	None	1791	None	None	54866607	54886834	1	None	KAP, CDI1
14	CDKN3	ENSG00000100526	ENST00000556305	processed_transcript	KNOWN	None	1791	None	None	54866644	54885132	1	None	KAP, CDI1
14	CDKN3	ENSG00000100526	ENST00000395577	protein_coding	KNOWN	None	1791	501	166	54875282	54886932	1	None	KAP, CDI1
HSCHR6_MHC_MANN	None	ENSG00000223359	ENST00000412151	unprocessed_pseudogene	KNOWN	None	None	None	None	32492184	32492279	-1	None	None
15	None	ENSG00000238347	ENST00000458911	miRNA	NOVEL	None	None	None	None	23444768	23444850	1	None	None
22	MIR3199-2	ENSG00000264073	ENST00000582434	miRNA	KNOWN	None	38205	None	None	28316513	28316600	-1	None	hsa-mir-3199-2
22	MIR3199-1	ENSG00000264073	ENST00000582434	miRNA	KNOWN	None	38294	None	None	28316513	28316600	-1	None	hsa-mir-3199-1
16	IL32	ENSG00000008517	ENST00000325568	protein_coding	KNOWN	CCDS32377	16830	567	188	3115298	3119668	1	None	NK4, TAIF, TAIFb, TAIFd
16	IL32	ENSG00000008517	ENST00000534507	protein_coding	KNOWN	None	16830	705	234	3115313	3119552	1	None	NK4, TAIF, TAIFb, TAIFd
16	IL32	ENSG00000008517	ENST00000531965	protein_coding	KNOWN	None	16830	537	178	3115323	3119377	1	None	NK4, TAIF, TAIFb, TAIFd
16	IL32	ENSG00000008517	ENST00000396887	protein_coding	KNOWN	CCDS32378	16830	396	131	3115323	3119548	1	None	NK4, TAIF, TAIFb, TAIFd
16	IL32	ENSG00000008517	ENST00000532086	retained_intron	KNOWN	None	16830	None	None	3115356	3117835	1	None	NK4, TAIF, TAIFb, TAIFd
16	IL32	ENSG00000008517	ENST00000529699	protein_coding	NOVEL	None	16830	507	168	3115359	3119356	1	None	NK4, TAIF, TAIFb, TAIFd
16	IL32	ENSG00000008517	ENST00000526464	protein_coding	KNOWN	CCDS32377	16830	567	188	3115370	3119544	1	None	NK4, TAIF, TAIFb, TAIFd
16	IL32	ENSG00000008517	ENST00000440815	protein_coding	KNOWN	CCDS32377	16830	567	188	3115370	3119552	1	None	NK4, TAIF, TAIFb, TAIFd
16	IL32	ENSG00000008517	ENST00000529550	protein_coding	KNOWN	CCDS32377	16830	567	188	3115378	3119369	1	None	NK4, TAIF, TAIFb, TAIFd
16	IL32	ENSG00000008517	ENST00000551122	protein_coding	KNOWN	CCDS32378	16830	396	131	3115381	3119547	1	None	NK4, TAIF, TAIFb, TAIFd
16	IL32	ENSG00000008517	ENST00000525643	protein_coding	KNOWN	CCDS32377	16830	567	188	3115385	3119729	1	None	NK4, TAIF, TAIFb, TAIFd
16	IL32	ENSG00000008517	ENST00000548807	protein_coding	KNOWN	None	16830	676	224	3115393	3119327	1	None	NK4, TAIF, TAIFb, TAIFd
16	IL32	ENSG00000008517	ENST00000528163	protein_coding	KNOWN	CCDS32377	16830	567	188	3115405	3119553	1	None	NK4, TAIF, TAIFb, TAIFd
16	IL32	ENSG00000008517	ENST00000530890	protein_coding	KNOWN	CCDS45394	16830	507	168	3115611	3119549	1	None	NK4, TAIF, TAIFb, TAIFd
16	IL32	ENSG00000008517	ENST00000444393	protein_coding	KNOWN	CCDS32377	16830	567	188	3115611	3119552	1	None	NK4, TAIF, TAIFb, TAIFd
16	IL32	ENSG00000008517	ENST00000533097	protein_coding	KNOWN	CCDS32377	16830	567	188	3115615	3119533	1	None	NK4, TAIF, TAIFb, TAIFd
16	IL32	ENSG00000008517	ENST00000534748	retained_intron	KNOWN	None	16830	None	None	3115632	3117889	1	None	NK4, TAIF, TAIFb, TAIFd
16	IL32	ENSG00000008517	ENST00000008180	protein_coding	KNOWN	CCDS45394	16830	507	168	3115632	3119820	1	None	NK4, TAIF, TAIFb, TAIFd
16	IL32	ENSG00000008517	ENST00000532247	retained_intron	KNOWN	None	16830	None	None	3115640	3118666	1	None	NK4, TAIF, TAIFb, TAIFd
16	IL32	ENSG00000008517	ENST00000396890	protein_coding	KNOWN	None	16830	705	234	3115640	3119641	1	None	NK4, TAIF, TAIFb, TAIFd
16	IL32	ENSG00000008517	ENST00000525228	protein_coding	NOVEL	None	16830	394	130	3115641	3119270	1	None	NK4, TAIF, TAIFb, TAIFd
16	IL32	ENSG00000008517	ENST00000548652	protein_coding	KNOWN	CCDS32379	16830	540	179	3115641	3119552	1	None	NK4, TAIF, TAIFb, TAIFd
16	IL32	ENSG00000008517	ENST00000525377	protein_coding	PUTATIVE	None	16830	614	203	3115642	3131908	1	None	NK4, TAIF, TAIFb, TAIFd
16	IL32	ENSG00000008517	ENST00000530538	protein_coding	KNOWN	CCDS32377	16830	567	188	3115654	3119397	1	None	NK4, TAIF, TAIFb, TAIFd
16	IL32	ENSG00000008517	ENST00000549213	protein_coding	KNOWN	CCDS32378	16830	396	131	3115655	3119552	1	None	NK4, TAIF, TAIFb, TAIFd
16	IL32	ENSG00000008517	ENST00000552936	protein_coding	NOVEL	None	16830	639	212	3115663	3119376	1	None	NK4, TAIF, TAIFb, TAIFd
16	IL32	ENSG00000008517	ENST00000548476	protein_coding	KNOWN	None	16830	705	234	3115663	3119515	1	None	NK4, TAIF, TAIFb, TAIFd
16	IL32	ENSG00000008517	ENST00000552664	protein_coding	KNOWN	CCDS32377	16830	567	188	3115664	3119441	1	None	NK4, TAIF, TAIFb, TAIFd
16	IL32	ENSG00000008517	ENST00000552356	protein_coding	KNOWN	CCDS45394	16830	507	168	3115678	3119410	1	None	NK4, TAIF, TAIFb, TAIFd
16	IL32	ENSG00000008517	ENST00000551513	protein_coding	NOVEL	None	16830	678	225	3115713	3119369	1	None	NK4, TAIF, TAIFb, TAIFd
16	IL32	ENSG00000008517	ENST00000548246	protein_coding	NOVEL	None	16830	447	148	3115813	3119356	1	None	NK4, TAIF, TAIFb, TAIFd
16	IL32	ENSG00000008517	ENST00000528652	retained_intron	KNOWN	None	16830	None	None	3117805	3119413	1	None	NK4, TAIF, TAIFb, TAIFd
16	IL32	ENSG00000008517	ENST00000525003	retained_intron	KNOWN	None	16830	None	None	3118119	3119412	1	None	NK4, TAIF, TAIFb, TAIFd
16	IL32	ENSG00000008517	ENST00000382213	protein_coding	KNOWN	CCDS32379	16830	540	179	3115785	3119668	1	None	NK4, TAIF, TAIFb, TAIFd
HSCHR6_MHC_MANN	None	ENSG00000265059	ENST00000582199	snRNA	NOVEL	None	None	None	None	32517759	32517906	-1	None	None
5	None	ENSG00000248928	ENST00000513076	processed_pseudogene	KNOWN	None	None	None	None	98930584	98931001	1	None	None
11	OR52E1	ENSG00000236621	ENST00000445557	unprocessed_pseudogene	KNOWN	None	14766	None	None	5090802	5091727	1	OR52E1P	None
11	OR52E1	ENSG00000236621	ENST00000417789	pseudogene	KNOWN	None	14766	None	None	5090802	5091691	1	OR52E1P	None
15	SPATA31E3P	ENSG00000259325	ENST00000559508	unprocessed_pseudogene	KNOWN	None	43828	None	None	23466152	23471888	-1	FAM75E3P	None
HSCHR6_MHC_MANN	None	ENSG00000224230	ENST00000455159	unprocessed_pseudogene	KNOWN	None	None	None	None	32523182	32523277	-1	None	None
3	PLS1-AS1	ENSG00000239641	ENST00000485338	antisense	KNOWN	None	40451	None	None	142373626	142375587	-1	None	None
12	B4GALNT1	ENSG00000135454	ENST00000553142	retained_intron	KNOWN	None	4117	None	None	58017193	58026934	-1	GALGT, SPG26	beta1-4GalNAc-T
12	B4GALNT1	ENSG00000135454	ENST00000341156	protein_coding	KNOWN	CCDS8950	4117	1602	533	58019678	58027138	-1	GALGT, SPG26	beta1-4GalNAc-T
12	B4GALNT1	ENSG00000135454	ENST00000552468	retained_intron	KNOWN	None	4117	None	None	58019955	58023148	-1	GALGT, SPG26	beta1-4GalNAc-T
12	B4GALNT1	ENSG00000135454	ENST00000418555	protein_coding	NOVEL	None	4117	1437	478	58020211	58026430	-1	GALGT, SPG26	beta1-4GalNAc-T
12	B4GALNT1	ENSG00000135454	ENST00000552798	nonsense_mediated_decay	KNOWN	None	4117	696	231	58020259	58026438	-1	GALGT, SPG26	beta1-4GalNAc-T
12	B4GALNT1	ENSG00000135454	ENST00000547741	protein_coding	NOVEL	None	4117	453	150	58020724	58022512	-1	GALGT, SPG26	beta1-4GalNAc-T
12	B4GALNT1	ENSG00000135454	ENST00000549391	nonsense_mediated_decay	KNOWN	None	4117	383	126	58021950	58024870	-1	GALGT, SPG26	beta1-4GalNAc-T
12	B4GALNT1	ENSG00000135454	ENST00000449184	protein_coding	PUTATIVE	None	4117	915	304	58022235	58027022	-1	GALGT, SPG26	beta1-4GalNAc-T
12	B4GALNT1	ENSG00000135454	ENST00000550764	protein_coding	PUTATIVE	None	4117	987	328	58023112	58026985	-1	GALGT, SPG26	beta1-4GalNAc-T
12	B4GALNT1	ENSG00000135454	ENST00000552350	protein_coding	PUTATIVE	None	4117	987	328	58023127	58026451	-1	GALGT, SPG26	beta1-4GalNAc-T
12	B4GALNT1	ENSG00000135454	ENST00000548888	protein_coding	KNOWN	None	4117	712	236	58023935	58026451	-1	GALGT, SPG26	beta1-4GalNAc-T
12	B4GALNT1	ENSG00000135454	ENST00000552219	nonsense_mediated_decay	KNOWN	None	4117	291	96	58024290	58026432	-1	GALGT, SPG26	beta1-4GalNAc-T
12	B4GALNT1	ENSG00000135454	ENST00000548487	nonsense_mediated_decay	KNOWN	None	4117	246	81	58024780	58026726	-1	GALGT, SPG26	beta1-4GalNAc-T
12	B4GALNT1	ENSG00000135454	ENST00000551925	retained_intron	KNOWN	None	4117	None	None	58024911	58026463	-1	GALGT, SPG26	beta1-4GalNAc-T
12	B4GALNT1	ENSG00000135454	ENST00000550943	processed_transcript	KNOWN	None	4117	None	None	58024940	58026462	-1	GALGT, SPG26	beta1-4GalNAc-T
12	B4GALNT1	ENSG00000135454	ENST00000551220	protein_coding	KNOWN	None	4117	361	119	58025005	58026988	-1	GALGT, SPG26	beta1-4GalNAc-T
5	None	ENSG00000250391	ENST00000511386	processed_pseudogene	KNOWN	None	None	None	None	99283999	99285287	-1	None	None
HSCHR6_MHC_MANN	None	ENSG00000266081	ENST00000584937	snRNA	NOVEL	None	None	None	None	32539880	32540023	-1	None	None
2	SLC30A3	ENSG00000115194	ENST00000497341	retained_intron	KNOWN	None	11014	None	None	27476552	27481451	-1	ZNT3	None
2	SLC30A3	ENSG00000115194	ENST00000482990	retained_intron	KNOWN	None	11014	None	None	27476715	27480688	-1	ZNT3	None
2	SLC30A3	ENSG00000115194	ENST00000233535	protein_coding	KNOWN	CCDS1743	11014	1167	388	27477440	27486127	-1	ZNT3	None
2	SLC30A3	ENSG00000115194	ENST00000445870	protein_coding	PUTATIVE	None	11014	904	300	27478254	27485739	-1	ZNT3	None
2	SLC30A3	ENSG00000115194	ENST00000432351	protein_coding	KNOWN	None	11014	720	239	27479672	27487004	-1	ZNT3	None
2	SLC30A3	ENSG00000115194	ENST00000426924	protein_coding	NOVEL	None	11014	690	229	27480070	27498685	-1	ZNT3	None
2	SLC30A3	ENSG00000115194	ENST00000424577	protein_coding	NOVEL	None	11014	511	169	27480774	27498209	-1	ZNT3	None
2	SLC30A3	ENSG00000115194	ENST00000486309	retained_intron	KNOWN	None	11014	None	None	27480865	27481912	-1	ZNT3	None
2	SLC30A3	ENSG00000115194	ENST00000450118	protein_coding	KNOWN	None	11014	332	109	27480872	27485028	-1	ZNT3	None
2	SLC30A3	ENSG00000115194	ENST00000426569	protein_coding	KNOWN	None	11014	296	97	27480908	27498213	-1	ZNT3	None
2	SLC30A3	ENSG00000115194	ENST00000447008	protein_coding	KNOWN	None	11014	1152	383	27477965	27498188	-1	ZNT3	None
15	None	ENSG00000259364	ENST00000558601	antisense	KNOWN	None	None	None	None	40745643	40746838	-1	None	None
14	BRD7P1	ENSG00000259043	ENST00000557705	processed_pseudogene	KNOWN	None	19923	None	None	24218445	24220359	1	BRD7P	None
11	None	ENSG00000252679	ENST00000516870	snoRNA	NOVEL	None	None	None	None	101927694	101927748	1	None	None
5	SUB1	ENSG00000113387	ENST00000506237	protein_coding	KNOWN	CCDS3897	19985	384	127	32531739	32601429	1	None	PC4, p15, p14
5	SUB1	ENSG00000113387	ENST00000512913	protein_coding	KNOWN	CCDS3897	19985	384	127	32531924	32601306	1	None	PC4, p15, p14
5	SUB1	ENSG00000113387	ENST00000513013	processed_transcript	KNOWN	None	19985	None	None	32531955	32601161	1	None	PC4, p15, p14
5	SUB1	ENSG00000113387	ENST00000265073	protein_coding	KNOWN	CCDS3897	19985	384	127	32585605	32604185	1	None	PC4, p15, p14
5	SUB1	ENSG00000113387	ENST00000511615	nonsense_mediated_decay	KNOWN	None	19985	255	84	32585665	32602094	1	None	PC4, p15, p14
5	SUB1	ENSG00000113387	ENST00000515355	protein_coding	KNOWN	CCDS3897	19985	384	127	32585677	32601388	1	None	PC4, p15, p14
5	SUB1	ENSG00000113387	ENST00000502897	protein_coding	KNOWN	CCDS3897	19985	384	127	32585694	32601256	1	None	PC4, p15, p14
5	SUB1	ENSG00000113387	ENST00000510442	protein_coding	KNOWN	None	19985	197	64	32585706	32591793	1	None	PC4, p15, p14
5	SUB1	ENSG00000113387	ENST00000504789	processed_transcript	KNOWN	None	19985	None	None	32585993	32601363	1	None	PC4, p15, p14
5	SUB1	ENSG00000113387	ENST00000511988	retained_intron	KNOWN	None	19985	None	None	32586220	32591791	1	None	PC4, p15, p14
5	SUB1	ENSG00000113387	ENST00000504016	processed_transcript	KNOWN	None	19985	None	None	32588643	32601448	1	None	PC4, p15, p14
5	SUB1	ENSG00000113387	ENST00000511175	retained_intron	KNOWN	None	19985	None	None	32591354	32601199	1	None	PC4, p15, p14
5	SUB1	ENSG00000113387	ENST00000502453	retained_intron	KNOWN	None	19985	None	None	32595029	32601236	1	None	PC4, p15, p14
HSCHR6_MHC_MANN	None	ENSG00000264640	ENST00000577825	snRNA	NOVEL	None	None	None	None	32579307	32579454	-1	None	None
17	ANKFN1	ENSG00000153930	ENST00000575594	retained_intron	KNOWN	None	26766	None	None	54188319	54305911	1	None	FLJ38335
17	ANKFN1	ENSG00000153930	ENST00000574292	processed_transcript	KNOWN	None	26766	None	None	54230832	54305318	1	None	FLJ38335
17	ANKFN1	ENSG00000153930	ENST00000318698	protein_coding	KNOWN	CCDS32686	26766	2292	763	54230836	54560007	1	None	FLJ38335
17	ANKFN1	ENSG00000153930	ENST00000566473	protein_coding	NOVEL	None	26766	3450	1149	54230871	54589020	1	None	FLJ38335
17	ANKFN1	ENSG00000153930	ENST00000572945	protein_coding	PUTATIVE	None	26766	519	172	54251536	54431256	1	None	FLJ38335
17	ANKFN1	ENSG00000153930	ENST00000573365	processed_transcript	KNOWN	None	26766	None	None	54305278	54335720	1	None	FLJ38335
17	ANKFN1	ENSG00000153930	ENST00000572312	processed_transcript	PUTATIVE	None	26766	None	None	54400584	54403694	1	None	FLJ38335
17	ANKFN1	ENSG00000153930	ENST00000572321	processed_transcript	KNOWN	None	26766	None	None	54534308	54541267	1	None	FLJ38335
2	None	ENSG00000257277	ENST00000552220	antisense	KNOWN	None	None	None	None	144433734	144498863	-1	None	None
2	None	ENSG00000257277	ENST00000552418	antisense	KNOWN	None	None	None	None	144433888	144440508	-1	None	None
16	None	ENSG00000260447	ENST00000562027	antisense	KNOWN	None	None	None	None	2169208	2170249	1	None	None
11	NNMT	ENSG00000166741	ENST00000535185	processed_transcript	PUTATIVE	None	7861	None	None	114128509	114141239	1	None	None
11	NNMT	ENSG00000166741	ENST00000535401	protein_coding	KNOWN	CCDS8368	7861	795	264	114128553	114184007	1	None	None
11	NNMT	ENSG00000166741	ENST00000541090	processed_transcript	PUTATIVE	None	7861	None	None	114133610	114182930	1	None	None
11	NNMT	ENSG00000166741	ENST00000299964	protein_coding	KNOWN	CCDS8368	7861	795	264	114166547	114183282	1	None	None
11	NNMT	ENSG00000166741	ENST00000546313	retained_intron	KNOWN	None	7861	None	None	114167145	114169049	1	None	None
11	NNMT	ENSG00000166741	ENST00000541754	protein_coding	PUTATIVE	None	7861	210	69	114168085	114183238	1	None	None
11	NNMT	ENSG00000166741	ENST00000542647	protein_coding	PUTATIVE	None	7861	210	69	114168818	114183237	1	None	None
11	NNMT	ENSG00000166741	ENST00000545255	protein_coding	PUTATIVE	None	7861	210	69	114168873	114183237	1	None	None
11	None	ENSG00000239154	ENST00000459415	snoRNA	NOVEL	None	None	None	None	101929036	101929139	-1	None	None
HSCHR6_MHC_MANN	HLA-DRB8	ENSG00000233853	ENST00000417532	unprocessed_pseudogene	KNOWN	None	4956	None	None	32589233	32591694	-1	None	None
2	RNU6-474P	ENSG00000206970	ENST00000384243	snRNA	KNOWN	None	47437	None	None	204646760	204646866	1	None	None
11	None	ENSG00000260008	ENST00000566440	sense_overlapping	KNOWN	None	None	None	None	101978617	101980573	1	None	None
22	RN7SL757P	ENSG00000239249	ENST00000466709	misc_RNA	KNOWN	None	46773	None	None	28452143	28452441	-1	None	None
17	None	ENSG00000250286	ENST00000513017	antisense	KNOWN	None	None	None	None	48614655	48616115	-1	None	None
17	None	ENSG00000250286	ENST00000509260	retained_intron	KNOWN	None	None	None	None	48614660	48615801	-1	None	None
3	None	ENSG00000268175	ENST00000593416	protein_coding	KNOWN	None	None	462	153	149689066	149690535	1	None	None
5	EEF1A1P20	ENSG00000249963	ENST00000514852	processed_pseudogene	KNOWN	None	37893	None	None	99332251	99333636	1	None	None
2	None	ENSG00000257226	ENST00000548756	antisense	KNOWN	None	None	None	None	144524189	144533642	-1	None	None
15	None	ENSG00000259211	ENST00000559730	antisense	KNOWN	None	None	None	None	40756392	40758925	-1	None	None
12	None	ENSG00000256056	ENST00000538759	unprocessed_pseudogene	KNOWN	None	None	None	None	27745394	27746972	-1	None	None
2	None	ENSG00000235951	ENST00000425328	processed_pseudogene	KNOWN	None	None	None	None	204930429	204932086	1	None	None
13	LINC00415	ENSG00000231983	ENST00000439079	lincRNA	KNOWN	None	42748	None	None	26626414	26627523	-1	None	None
11	PIWIL4	ENSG00000134627	ENST00000543336	nonsense_mediated_decay	KNOWN	None	18444	1362	453	94277006	94349730	1	None	FLJ36156, HIWI2, Miwi2
11	PIWIL4	ENSG00000134627	ENST00000446230	nonsense_mediated_decay	KNOWN	None	18444	1488	495	94278452	94354587	1	None	FLJ36156, HIWI2, Miwi2
11	PIWIL4	ENSG00000134627	ENST00000299001	protein_coding	KNOWN	CCDS31656	18444	2559	852	94300474	94354587	1	None	FLJ36156, HIWI2, Miwi2
11	PIWIL4	ENSG00000134627	ENST00000545603	protein_coding	PUTATIVE	None	18444	355	117	94300857	94316662	1	None	FLJ36156, HIWI2, Miwi2
11	PIWIL4	ENSG00000134627	ENST00000537419	protein_coding	PUTATIVE	None	18444	612	203	94350955	94354279	1	None	FLJ36156, HIWI2, Miwi2
15	None	ENSG00000259401	ENST00000558708	processed_pseudogene	KNOWN	None	None	None	None	23499526	23501360	-1	None	None
HSCHR15_1_CTG4	GOLGA8G	ENSG00000262872	ENST00000574105	retained_intron	KNOWN	None	25328	None	None	28776381	28789736	-1	None	DKFZp434K052
HSCHR15_1_CTG4	GOLGA8G	ENSG00000262872	ENST00000574802	retained_intron	KNOWN	None	25328	None	None	28776381	28789737	-1	None	DKFZp434K052
HSCHR15_1_CTG4	GOLGA8G	ENSG00000262872	ENST00000575075	retained_intron	KNOWN	None	25328	None	None	28777529	28787178	-1	None	DKFZp434K052
HSCHR15_1_CTG4	GOLGA8G	ENSG00000262872	ENST00000576467	protein_coding	KNOWN	None	25328	1947	648	28779339	28789675	-1	None	DKFZp434K052
HSCHR15_1_CTG4	GOLGA8G	ENSG00000262872	ENST00000571511	retained_intron	KNOWN	None	25328	None	None	28785784	28788669	-1	None	DKFZp434K052
HSCHR15_1_CTG4	GOLGA8G	ENSG00000262872	ENST00000571166	retained_intron	KNOWN	None	25328	None	None	28785918	28788997	-1	None	DKFZp434K052
HSCHR15_1_CTG4	GOLGA8G	ENSG00000262872	ENST00000573904	retained_intron	KNOWN	None	25328	None	None	28785956	28788968	-1	None	DKFZp434K052
12	None	ENSG00000256557	ENST00000542428	processed_pseudogene	KNOWN	None	None	None	None	27761666	27761979	-1	None	None
2	None	ENSG00000236356	ENST00000426716	lincRNA	KNOWN	None	None	None	None	144557036	144577168	1	None	None
8	None	ENSG00000253388	ENST00000517897	lincRNA	KNOWN	None	None	None	None	37337607	37338327	1	None	None
7	None	ENSG00000227249	ENST00000434698	processed_pseudogene	KNOWN	None	None	None	None	126151189	126152933	1	None	None
3	RN7SKP25	ENSG00000199319	ENST00000362449	misc_RNA	KNOWN	None	45749	None	None	142392439	142392746	1	None	None
5	None	ENSG00000244331	ENST00000460082	processed_pseudogene	KNOWN	None	None	None	None	157358266	157358571	-1	None	None
22	None	ENSG00000201209	ENST00000364339	snoRNA	NOVEL	None	None	None	None	28628744	28628811	-1	None	None
14	CDCA4	ENSG00000170779	ENST00000336219	protein_coding	KNOWN	CCDS9996	14625	726	241	105475910	105487485	-1	None	FLJ20764, Hepp
14	CDCA4	ENSG00000170779	ENST00000392590	protein_coding	KNOWN	CCDS9996	14625	726	241	105476273	105487397	-1	None	FLJ20764, Hepp
3	RNU7-47P	ENSG00000251787	ENST00000515978	snRNA	KNOWN	None	34143	None	None	142520049	142520110	1	None	U7.47
2	CAPN13	ENSG00000162949	ENST00000450650	nonsense_mediated_decay	KNOWN	None	16663	377	124	30945637	30966384	-1	None	FLJ23523
2	CAPN13	ENSG00000162949	ENST00000295055	protein_coding	KNOWN	CCDS46252	16663	2010	669	30945637	31030312	-1	None	FLJ23523
2	CAPN13	ENSG00000162949	ENST00000490786	processed_transcript	KNOWN	None	16663	None	None	30952407	30955350	-1	None	FLJ23523
2	CAPN13	ENSG00000162949	ENST00000458085	nonsense_mediated_decay	KNOWN	None	16663	1272	423	30964240	31030292	-1	None	FLJ23523
2	CAPN13	ENSG00000162949	ENST00000465450	retained_intron	KNOWN	None	16663	None	None	30966010	30974092	-1	None	FLJ23523
2	CAPN13	ENSG00000162949	ENST00000465960	processed_transcript	KNOWN	None	16663	None	None	30980912	31043408	-1	None	FLJ23523
2	CAPN13	ENSG00000162949	ENST00000485248	nonsense_mediated_decay	KNOWN	None	16663	309	102	30987114	31030292	-1	None	FLJ23523
2	CAPN13	ENSG00000162949	ENST00000534090	protein_coding	KNOWN	None	16663	2010	669	30945642	31030311	-1	None	FLJ23523
16	None	ENSG00000200059	ENST00000363189	misc_RNA	NOVEL	None	None	None	None	2181852	2181951	1	None	None
8	OR7E157P	ENSG00000233176	ENST00000494376	unprocessed_pseudogene	KNOWN	None	31231	None	None	7449528	7450438	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000265074	ENST00000580475	snRNA	NOVEL	None	None	None	None	32640268	32640431	-1	None	None
15	None	ENSG00000244251	ENST00000489027	processed_pseudogene	KNOWN	None	None	None	None	40772951	40773514	-1	None	None
2	None	ENSG00000200287	ENST00000363417	misc_RNA	NOVEL	None	None	None	None	144654831	144654929	1	None	None
17	CACNA1G-AS1	ENSG00000250107	ENST00000505793	antisense	KNOWN	None	27377	None	None	48633568	48639469	-1	None	None
17	CACNA1G-AS1	ENSG00000250107	ENST00000505495	antisense	KNOWN	None	27377	None	None	48633965	48636811	-1	None	None
17	CACNA1G-AS1	ENSG00000250107	ENST00000508920	antisense	KNOWN	None	27377	None	None	48634535	48636771	-1	None	None
5	RNU2-48P	ENSG00000222626	ENST00000410694	snRNA	KNOWN	None	48541	None	None	157403774	157403964	-1	None	None
16	MIR4516	ENSG00000265867	ENST00000583451	miRNA	KNOWN	None	41617	None	None	2183120	2183205	1	None	hsa-mir-4516
13	ATP8A2P3	ENSG00000233963	ENST00000426792	unprocessed_pseudogene	KNOWN	None	42641	None	None	26688547	26728313	-1	None	None
12	None	ENSG00000256377	ENST00000536317	antisense	KNOWN	None	None	None	None	27849321	27863703	-1	None	None
12	None	ENSG00000256377	ENST00000536922	antisense	KNOWN	None	None	None	None	27849489	27857344	-1	None	None
12	None	ENSG00000256377	ENST00000542660	antisense	KNOWN	None	None	None	None	27849834	27863664	-1	None	None
2	None	ENSG00000232377	ENST00000422799	antisense	KNOWN	None	None	None	None	144694640	144721723	1	None	None
12	None	ENSG00000255772	ENST00000545520	lincRNA	KNOWN	None	None	None	None	68323015	68326728	1	None	None
12	None	ENSG00000255772	ENST00000546170	lincRNA	KNOWN	None	None	None	None	68323043	68363797	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000238248	ENST00000442762	processed_pseudogene	KNOWN	None	None	None	None	32642476	32643415	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000238248	ENST00000547642	pseudogene	KNOWN	None	None	None	None	32642476	32643415	1	None	None
22	None	ENSG00000199797	ENST00000362927	misc_RNA	NOVEL	None	None	None	None	28699742	28699838	1	None	None
16	MIR3180-5	ENSG00000264397	ENST00000583743	miRNA	KNOWN	None	38969	None	None	2185978	2186130	-1	None	hsa-mir-3180-5
2	None	ENSG00000237510	ENST00000471661	retained_intron	KNOWN	None	None	None	None	96455402	96463594	1	None	None
2	None	ENSG00000237510	ENST00000444924	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	96457968	96465914	1	None	None
8	RPSAP47	ENSG00000188856	ENST00000479228	processed_pseudogene	KNOWN	None	36162	None	None	81471105	81471992	1	None	None
14	None	ENSG00000270618	ENST00000604114	unprocessed_pseudogene	KNOWN	None	None	None	None	24236871	24238207	1	None	None
2	None	ENSG00000233845	ENST00000422201	antisense	KNOWN	None	None	None	None	47262418	47267663	-1	None	None
2	None	ENSG00000234714	ENST00000411436	lincRNA	KNOWN	None	None	None	None	204955180	204974572	1	None	None
2	None	ENSG00000213410	ENST00000393968	pseudogene	NOVEL	None	None	None	None	145208235	145208545	1	None	None
5	None	ENSG00000199378	ENST00000362508	misc_RNA	NOVEL	None	None	None	None	99357508	99357610	1	None	None
8	None	ENSG00000253414	ENST00000521989	sense_intronic	KNOWN	None	None	None	None	37373928	37374539	-1	None	None
17	RPL9P30	ENSG00000240074	ENST00000478775	processed_pseudogene	KNOWN	None	36316	None	None	28182777	28183350	1	None	None
2	None	ENSG00000225187	ENST00000421759	antisense	KNOWN	None	None	None	None	47294961	47298343	1	None	None
7	None	ENSG00000224981	ENST00000452711	processed_pseudogene	KNOWN	None	None	None	None	126508821	126510586	-1	None	None
2	None	ENSG00000176824	ENST00000314501	pseudogene	NOVEL	None	None	None	None	145218679	145221645	-1	None	None
15	None	ENSG00000259145	ENST00000566255	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	23572032	23579274	-1	None	None
15	None	ENSG00000259145	ENST00000557760	processed_transcript	PUTATIVE	None	None	None	None	23573960	23577500	-1	None	None
3	PLXNB1	ENSG00000164050	ENST00000296440	protein_coding	KNOWN	CCDS2765	9103	6408	2135	48445261	48471460	-1	PLXN5	SEP, KIAA0407
3	PLXNB1	ENSG00000164050	ENST00000485535	retained_intron	KNOWN	None	9103	None	None	48445263	48455415	-1	PLXN5	SEP, KIAA0407
3	PLXNB1	ENSG00000164050	ENST00000358536	protein_coding	KNOWN	CCDS2765	9103	6408	2135	48445263	48470872	-1	PLXN5	SEP, KIAA0407
3	PLXNB1	ENSG00000164050	ENST00000456774	protein_coding	NOVEL	None	9103	5859	1952	48445893	48466020	-1	PLXN5	SEP, KIAA0407
3	PLXNB1	ENSG00000164050	ENST00000483753	retained_intron	KNOWN	None	9103	None	None	48445916	48447472	-1	PLXN5	SEP, KIAA0407
3	PLXNB1	ENSG00000164050	ENST00000497627	retained_intron	KNOWN	None	9103	None	None	48448130	48450812	-1	PLXN5	SEP, KIAA0407
3	PLXNB1	ENSG00000164050	ENST00000483676	retained_intron	KNOWN	None	9103	None	None	48448429	48451127	-1	PLXN5	SEP, KIAA0407
3	PLXNB1	ENSG00000164050	ENST00000478171	retained_intron	KNOWN	None	9103	None	None	48450807	48451774	-1	PLXN5	SEP, KIAA0407
3	PLXNB1	ENSG00000164050	ENST00000470525	retained_intron	KNOWN	None	9103	None	None	48451424	48453376	-1	PLXN5	SEP, KIAA0407
3	PLXNB1	ENSG00000164050	ENST00000461261	retained_intron	KNOWN	None	9103	None	None	48452415	48454349	-1	PLXN5	SEP, KIAA0407
3	PLXNB1	ENSG00000164050	ENST00000473996	retained_intron	KNOWN	None	9103	None	None	48454629	48456389	-1	PLXN5	SEP, KIAA0407
3	PLXNB1	ENSG00000164050	ENST00000449094	nonsense_mediated_decay	KNOWN	None	9103	2190	729	48455168	48466020	-1	PLXN5	SEP, KIAA0407
3	PLXNB1	ENSG00000164050	ENST00000465117	processed_transcript	KNOWN	None	9103	None	None	48455317	48457075	-1	PLXN5	SEP, KIAA0407
3	PLXNB1	ENSG00000164050	ENST00000467913	retained_intron	KNOWN	None	9103	None	None	48455396	48456944	-1	PLXN5	SEP, KIAA0407
3	PLXNB1	ENSG00000164050	ENST00000464294	retained_intron	KNOWN	None	9103	None	None	48456400	48458242	-1	PLXN5	SEP, KIAA0407
3	PLXNB1	ENSG00000164050	ENST00000484485	processed_transcript	KNOWN	None	9103	None	None	48459598	48461153	-1	PLXN5	SEP, KIAA0407
3	PLXNB1	ENSG00000164050	ENST00000462738	retained_intron	KNOWN	None	9103	None	None	48459696	48461021	-1	PLXN5	SEP, KIAA0407
3	PLXNB1	ENSG00000164050	ENST00000466353	processed_transcript	KNOWN	None	9103	None	None	48461488	48470890	-1	PLXN5	SEP, KIAA0407
3	PLXNB1	ENSG00000164050	ENST00000473683	processed_transcript	KNOWN	None	9103	None	None	48463822	48464983	-1	PLXN5	SEP, KIAA0407
3	PLXNB1	ENSG00000164050	ENST00000358459	protein_coding	KNOWN	None	9103	5859	1952	48445262	48470872	-1	PLXN5	SEP, KIAA0407
3	PLXNB1	ENSG00000164050	ENST00000448774	protein_coding	KNOWN	None	9103	2241	746	48445852	48471594	-1	PLXN5	SEP, KIAA0407
17	None	ENSG00000250976	ENST00000513378	antisense	KNOWN	None	None	None	None	48640564	48641144	-1	None	None
16	COQ9	ENSG00000088682	ENST00000566388	retained_intron	KNOWN	None	25302	None	None	57481337	57488216	1	C16orf49	DKFZP434K046
16	COQ9	ENSG00000088682	ENST00000262507	protein_coding	KNOWN	CCDS32459	25302	957	318	57481349	57495187	1	C16orf49	DKFZP434K046
16	COQ9	ENSG00000088682	ENST00000565964	protein_coding	NOVEL	None	25302	516	171	57481353	57493509	1	C16orf49	DKFZP434K046
16	COQ9	ENSG00000088682	ENST00000562734	retained_intron	KNOWN	None	25302	None	None	57481394	57491052	1	C16orf49	DKFZP434K046
16	COQ9	ENSG00000088682	ENST00000568790	retained_intron	KNOWN	None	25302	None	None	57481394	57491324	1	C16orf49	DKFZP434K046
16	COQ9	ENSG00000088682	ENST00000564655	protein_coding	NOVEL	None	25302	911	302	57481394	57493994	1	C16orf49	DKFZP434K046
16	COQ9	ENSG00000088682	ENST00000564115	nonsense_mediated_decay	KNOWN	None	25302	567	188	57481399	57494006	1	C16orf49	DKFZP434K046
16	COQ9	ENSG00000088682	ENST00000567072	protein_coding	NOVEL	None	25302	852	283	57481406	57495154	1	C16orf49	DKFZP434K046
16	COQ9	ENSG00000088682	ENST00000567933	protein_coding	NOVEL	None	25302	624	207	57481409	57494785	1	C16orf49	DKFZP434K046
16	COQ9	ENSG00000088682	ENST00000562426	retained_intron	KNOWN	None	25302	None	None	57481415	57491314	1	C16orf49	DKFZP434K046
16	COQ9	ENSG00000088682	ENST00000563166	protein_coding	PUTATIVE	None	25302	309	102	57481472	57495179	1	C16orf49	DKFZP434K046
16	COQ9	ENSG00000088682	ENST00000563391	protein_coding	PUTATIVE	None	25302	269	88	57481641	57492228	1	C16orf49	DKFZP434K046
16	COQ9	ENSG00000088682	ENST00000567384	processed_transcript	PUTATIVE	None	25302	None	None	57484697	57486748	1	C16orf49	DKFZP434K046
16	COQ9	ENSG00000088682	ENST00000567480	retained_intron	KNOWN	None	25302	None	None	57484949	57490659	1	C16orf49	DKFZP434K046
16	COQ9	ENSG00000088682	ENST00000567576	retained_intron	KNOWN	None	25302	None	None	57490315	57491301	1	C16orf49	DKFZP434K046
16	COQ9	ENSG00000088682	ENST00000569980	retained_intron	KNOWN	None	25302	None	None	57492037	57495182	1	C16orf49	DKFZP434K046
2	None	ENSG00000237271	ENST00000419860	lincRNA	KNOWN	None	None	None	None	205092860	205099708	-1	None	None
22	RN7SL162P	ENSG00000266503	ENST00000579233	misc_RNA	KNOWN	None	46178	None	None	29038969	29039258	-1	None	None
11	OR52S1P	ENSG00000237354	ENST00000427016	unprocessed_pseudogene	KNOWN	None	14805	None	None	5097360	5098296	-1	None	None
2	MRPS9	ENSG00000135972	ENST00000258455	protein_coding	KNOWN	CCDS2065	14501	1191	396	105654441	105716418	1	None	RPMS9, MRP-S9, S9mt
2	MRPS9	ENSG00000135972	ENST00000413583	nonsense_mediated_decay	KNOWN	None	14501	173	56	105705476	105713746	1	None	RPMS9, MRP-S9, S9mt
2	MRPS9	ENSG00000135972	ENST00000472220	retained_intron	KNOWN	None	14501	None	None	105708556	105716358	1	None	RPMS9, MRP-S9, S9mt
11	None	ENSG00000257086	ENST00000545800	lincRNA	KNOWN	None	None	None	None	64014411	64016966	-1	None	None
8	None	ENSG00000254111	ENST00000522643	lincRNA	KNOWN	None	None	None	None	37417884	37422884	1	None	None
17	None	ENSG00000251239	ENST00000502435	antisense	KNOWN	None	None	None	None	48704393	48709301	-1	None	None
3	TSC22D2	ENSG00000196428	ENST00000361875	protein_coding	KNOWN	CCDS3149	29095	2343	780	150126122	150177903	1	None	KIAA0669, TILZ4a, TILZ4b, TILZ4c
3	TSC22D2	ENSG00000196428	ENST00000480589	protein_coding	PUTATIVE	None	29095	350	115	150128756	150176648	1	None	KIAA0669, TILZ4a, TILZ4b, TILZ4c
3	TSC22D2	ENSG00000196428	ENST00000466814	protein_coding	NOVEL	None	29095	613	203	150128796	150177903	1	None	KIAA0669, TILZ4a, TILZ4b, TILZ4c
3	TSC22D2	ENSG00000196428	ENST00000485421	nonsense_mediated_decay	KNOWN	None	29095	245	80	150128966	150176466	1	None	KIAA0669, TILZ4a, TILZ4b, TILZ4c
3	TSC22D2	ENSG00000196428	ENST00000492828	processed_transcript	PUTATIVE	None	29095	None	None	150140826	150141238	1	None	KIAA0669, TILZ4a, TILZ4b, TILZ4c
3	TSC22D2	ENSG00000196428	ENST00000460316	retained_intron	KNOWN	None	29095	None	None	150174738	150176915	1	None	KIAA0669, TILZ4a, TILZ4b, TILZ4c
3	TSC22D2	ENSG00000196428	ENST00000361136	protein_coding	KNOWN	None	29095	2271	756	150126122	150177613	1	None	KIAA0669, TILZ4a, TILZ4b, TILZ4c
14	RNU7-160P	ENSG00000252469	ENST00000516660	snRNA	KNOWN	None	45694	None	None	104016682	104016743	1	None	None
2	DSTNP5	ENSG00000236681	ENST00000427921	processed_pseudogene	KNOWN	None	44549	None	None	205171565	205172087	1	None	None
3	None	ENSG00000240950	ENST00000489462	processed_pseudogene	KNOWN	None	None	None	None	142545938	142546570	-1	None	None
14	None	ENSG00000258851	ENST00000556332	antisense	KNOWN	None	None	None	None	104019758	104028214	1	None	None
2	ZEB2-AS1	ENSG00000238057	ENST00000427278	antisense	KNOWN	None	37149	None	None	145275664	145279058	1	ZEB2AS, ZEB2-AS	ZEB2NAT
2	ZEB2-AS1	ENSG00000238057	ENST00000595109	antisense	KNOWN	None	37149	None	None	145275973	145277652	1	ZEB2AS, ZEB2-AS	ZEB2NAT
2	ZEB2-AS1	ENSG00000238057	ENST00000602006	antisense	KNOWN	None	37149	None	None	145275973	145278389	1	ZEB2AS, ZEB2-AS	ZEB2NAT
2	ZEB2-AS1	ENSG00000238057	ENST00000428623	antisense	KNOWN	None	37149	None	None	145277181	145278466	1	ZEB2AS, ZEB2-AS	ZEB2NAT
2	ZEB2-AS1	ENSG00000238057	ENST00000421083	antisense	KNOWN	None	37149	None	None	145277421	145278445	1	ZEB2AS, ZEB2-AS	ZEB2NAT
2	ZEB2-AS1	ENSG00000238057	ENST00000595449	antisense	KNOWN	None	37149	None	None	145278173	145279044	1	ZEB2AS, ZEB2-AS	ZEB2NAT
2	None	ENSG00000234690	ENST00000448713	lincRNA	KNOWN	None	None	None	None	47419544	47572128	-1	None	None
2	None	ENSG00000234690	ENST00000441997	lincRNA	KNOWN	None	None	None	None	47419863	47572213	-1	None	None
2	None	ENSG00000234690	ENST00000419035	lincRNA	KNOWN	None	None	None	None	47441088	47572105	-1	None	None
2	None	ENSG00000234690	ENST00000450550	lincRNA	KNOWN	None	None	None	None	47550560	47572128	-1	None	None
2	None	ENSG00000234690	ENST00000413185	lincRNA	KNOWN	None	None	None	None	47558519	47572128	-1	None	None
17	None	ENSG00000262967	ENST00000574246	antisense	KNOWN	None	None	None	None	48770809	48772810	1	None	None
8	None	ENSG00000253760	ENST00000517657	processed_pseudogene	KNOWN	None	None	None	None	81480285	81480741	-1	None	None
2	PRSS56	ENSG00000237412	ENST00000449534	protein_coding	KNOWN	None	39433	1815	604	233385173	233390422	1	None	None
2	PRSS56	ENSG00000237412	ENST00000602410	retained_intron	KNOWN	None	39433	None	None	233387211	233388040	1	None	None
2	None	ENSG00000225304	ENST00000425086	processed_pseudogene	KNOWN	None	None	None	None	205243818	205244515	1	None	None
15	None	ENSG00000259536	ENST00000561460	antisense	KNOWN	None	None	None	None	40780240	40850183	1	None	None
15	None	ENSG00000259536	ENST00000561039	antisense	KNOWN	None	None	None	None	40800223	40845449	1	None	None
17	None	ENSG00000263477	ENST00000584258	antisense	KNOWN	None	None	None	None	28190420	28193110	1	None	None
11	None	ENSG00000257069	ENST00000539086	processed_transcript	KNOWN	None	None	None	None	64059194	64072241	1	None	None
1	FBXO42	ENSG00000037637	ENST00000375592	protein_coding	KNOWN	CCDS30613	29249	2154	717	16573334	16678949	-1	None	KIAA1332, Fbx42
1	FBXO42	ENSG00000037637	ENST00000456164	protein_coding	KNOWN	None	29249	896	297	16577577	16579922	-1	None	KIAA1332, Fbx42
1	FBXO42	ENSG00000037637	ENST00000444116	protein_coding	KNOWN	None	29249	896	297	16577577	16580088	-1	None	KIAA1332, Fbx42
1	FBXO42	ENSG00000037637	ENST00000478089	processed_transcript	KNOWN	None	29249	None	None	16618809	16641862	-1	None	KIAA1332, Fbx42
17	None	ENSG00000201340	ENST00000364470	misc_RNA	NOVEL	None	None	None	None	48774005	48774121	1	None	None
21	MIS18A	ENSG00000159055	ENST00000290130	protein_coding	KNOWN	CCDS13611	1286	702	233	33640530	33651380	-1	C21orf46, C21orf45	B28, FASP1, hMis18alpha
21	MIS18A	ENSG00000159055	ENST00000486363	processed_transcript	PUTATIVE	None	1286	None	None	33641919	33642889	-1	C21orf46, C21orf45	B28, FASP1, hMis18alpha
11	None	ENSG00000254422	ENST00000526310	antisense	KNOWN	None	None	None	None	102100582	102101653	-1	None	None
17	None	ENSG00000262921	ENST00000574133	lincRNA	KNOWN	None	None	None	None	4469047	4475055	1	None	None
17	None	ENSG00000239129	ENST00000459235	snoRNA	NOVEL	None	None	None	None	28210024	28210127	1	None	None
14	RNU4-68P	ENSG00000201184	ENST00000364314	snRNA	KNOWN	None	47004	None	None	104033742	104033882	1	None	None
5	None	ENSG00000228259	ENST00000418535	protein_coding	KNOWN	None	None	561	186	179078298	179079445	1	None	None
5	None	ENSG00000228259	ENST00000425471	protein_coding	KNOWN	None	None	777	258	179078298	179079294	1	None	None
14	None	ENSG00000264904	ENST00000583855	miRNA	NOVEL	None	None	None	None	104042305	104042396	-1	None	None
3	None	ENSG00000243818	ENST00000476385	antisense	KNOWN	None	None	None	None	142645517	142661376	1	None	None
3	None	ENSG00000243818	ENST00000479792	antisense	KNOWN	None	None	None	None	142657082	142660613	1	None	None
17	None	ENSG00000264435	ENST00000581995	transcribed_processed_pseudogene	KNOWN	None	None	None	None	28299532	28300045	1	None	None
8	None	ENSG00000254290	ENST00000519691	lincRNA	KNOWN	None	None	None	None	37454998	37457376	-1	None	None
8	None	ENSG00000254290	ENST00000522471	lincRNA	KNOWN	None	None	None	None	37455153	37456296	-1	None	None
17	LINC00483	ENSG00000167117	ENST00000300458	retained_intron	KNOWN	None	26080	None	None	48838390	48844879	-1	C17orf73	FLJ20694
17	LINC00483	ENSG00000167117	ENST00000450727	lincRNA	KNOWN	None	26080	None	None	48838535	48844877	-1	C17orf73	FLJ20694
17	LINC00483	ENSG00000167117	ENST00000502517	lincRNA	KNOWN	None	26080	None	None	48840212	48844918	-1	C17orf73	FLJ20694
17	LINC00483	ENSG00000167117	ENST00000419688	lincRNA	KNOWN	None	26080	None	None	48842140	48844878	-1	C17orf73	FLJ20694
17	LINC00483	ENSG00000167117	ENST00000576150	retained_intron	KNOWN	None	26080	None	None	48843920	48844879	-1	C17orf73	FLJ20694
17	None	ENSG00000262519	ENST00000575018	processed_pseudogene	KNOWN	None	None	None	None	4475501	4475810	1	None	None
20	BHLHE23	ENSG00000125533	ENST00000370346	protein_coding	KNOWN	CCDS33507	16093	678	225	61637331	61638387	-1	BHLHB4	bA305P22.3, Beta4, bHLHe23
12	HSD17B6	ENSG00000025423	ENST00000555159	protein_coding	KNOWN	CCDS8925	23316	954	317	57145945	57181520	1	None	HSE, RODH, SDR9C6
12	HSD17B6	ENSG00000025423	ENST00000555805	protein_coding	KNOWN	CCDS8925	23316	954	317	57145945	57181520	1	None	HSE, RODH, SDR9C6
12	HSD17B6	ENSG00000025423	ENST00000554643	protein_coding	KNOWN	CCDS8925	23316	954	317	57146233	57181574	1	None	HSE, RODH, SDR9C6
12	HSD17B6	ENSG00000025423	ENST00000556650	protein_coding	KNOWN	None	23316	226	74	57146237	57167862	1	None	HSE, RODH, SDR9C6
12	HSD17B6	ENSG00000025423	ENST00000554150	protein_coding	KNOWN	CCDS8925	23316	954	317	57146237	57181360	1	None	HSE, RODH, SDR9C6
12	HSD17B6	ENSG00000025423	ENST00000556481	processed_transcript	PUTATIVE	None	23316	None	None	57146241	57164328	1	None	HSE, RODH, SDR9C6
12	HSD17B6	ENSG00000025423	ENST00000554155	protein_coding	KNOWN	None	23316	266	87	57146271	57167902	1	None	HSE, RODH, SDR9C6
12	HSD17B6	ENSG00000025423	ENST00000322165	protein_coding	KNOWN	CCDS8925	23316	954	317	57157108	57181574	1	None	HSE, RODH, SDR9C6
12	HSD17B6	ENSG00000025423	ENST00000556875	processed_transcript	PUTATIVE	None	23316	None	None	57178723	57181129	1	None	HSE, RODH, SDR9C6
12	HSD17B6	ENSG00000025423	ENST00000553476	processed_transcript	PUTATIVE	None	23316	None	None	57179713	57181129	1	None	HSE, RODH, SDR9C6
11	None	ENSG00000256734	ENST00000535082	processed_pseudogene	KNOWN	None	None	None	None	18471659	18472415	-1	None	None
14	None	ENSG00000246451	ENST00000498989	antisense	KNOWN	None	None	None	None	104148699	104150352	-1	None	None
2	None	ENSG00000236634	ENST00000444017	lincRNA	KNOWN	None	None	None	None	205334799	205338560	-1	None	None
2	LINC00342	ENSG00000232931	ENST00000412393	lincRNA	KNOWN	None	42470	None	None	96472866	96480524	-1	NCRNA00342	None
2	LINC00342	ENSG00000232931	ENST00000448494	lincRNA	KNOWN	None	42470	None	None	96472866	96481963	-1	NCRNA00342	None
17	None	ENSG00000264715	ENST00000578347	miRNA	NOVEL	None	None	None	None	28339051	28339136	1	None	None
17	NACA2	ENSG00000253506	ENST00000521764	protein_coding	KNOWN	CCDS11630	23290	648	215	59667794	59668563	-1	NACAL	MGC71999
17	RNY4P13	ENSG00000207011	ENST00000384284	misc_RNA	KNOWN	None	34063	None	None	28386070	28386165	-1	None	None
7	TRBVB	ENSG00000241911	ENST00000477100	TR_V_pseudogene	KNOWN	None	12248	None	None	142419212	142419752	1	None	TCRBV34S1
2	None	ENSG00000237843	ENST00000456384	lincRNA	KNOWN	None	None	None	None	205340079	205372395	1	None	None
2	None	ENSG00000232606	ENST00000413525	lincRNA	KNOWN	None	None	None	None	145324002	145337001	1	None	None
8	RNU2-71P	ENSG00000223327	ENST00000411395	snRNA	KNOWN	None	48564	None	None	81497820	81498008	-1	None	None
17	None	ENSG00000261863	ENST00000573270	lincRNA	KNOWN	None	None	None	None	4513744	4520945	1	None	None
17	None	ENSG00000267482	ENST00000590718	unprocessed_pseudogene	KNOWN	None	None	None	None	28386072	28386165	-1	None	None
11	None	ENSG00000256464	ENST00000540201	processed_pseudogene	KNOWN	None	None	None	None	18511790	18512502	-1	None	None
2	None	ENSG00000223890	ENST00000395058	processed_pseudogene	KNOWN	None	None	None	None	206118028	206118227	-1	None	None
15	None	ENSG00000267539	ENST00000592096	lincRNA	KNOWN	None	None	None	None	71121469	71123745	-1	None	None
17	None	ENSG00000265289	ENST00000583250	antisense	KNOWN	None	None	None	None	28386357	28392695	-1	None	None
5	CBY3	ENSG00000204659	ENST00000376974	protein_coding	KNOWN	CCDS47354	33278	729	242	179105584	179107975	-1	None	None
7	None	ENSG00000230820	ENST00000433725	processed_pseudogene	KNOWN	None	None	None	None	126621021	126621832	1	None	None
17	RNU6-955P	ENSG00000222429	ENST00000410497	snRNA	KNOWN	None	47918	None	None	4523044	4523147	-1	None	None
15	RNU6-516P	ENSG00000223313	ENST00000411381	snRNA	KNOWN	None	47479	None	None	40821769	40821872	1	None	None
13	PRUNEP1	ENSG00000234706	ENST00000425846	processed_pseudogene	KNOWN	None	39723	None	None	26691686	26693102	-1	None	None
2	None	ENSG00000226087	ENST00000444361	lincRNA	KNOWN	None	None	None	None	47452933	47466346	1	None	None
2	None	ENSG00000226087	ENST00000426892	lincRNA	KNOWN	None	None	None	None	47454056	47466364	1	None	None
11	None	ENSG00000243777	ENST00000463969	processed_pseudogene	KNOWN	None	None	None	None	102165791	102166537	1	None	None
17	None	ENSG00000266876	ENST00000583091	transcribed_processed_pseudogene	KNOWN	None	None	None	None	28395650	28396649	1	None	None
17	None	ENSG00000235085	ENST00000441700	antisense	KNOWN	None	None	None	None	4578674	4600126	1	None	None
2	None	ENSG00000225216	ENST00000598710	antisense	KNOWN	None	None	None	None	206621193	206628677	-1	None	None
2	None	ENSG00000225216	ENST00000596616	antisense	KNOWN	None	None	None	None	206621208	206628677	-1	None	None
2	None	ENSG00000225216	ENST00000423425	antisense	KNOWN	None	None	None	None	206624221	206628730	-1	None	None
14	RN7SKP205	ENSG00000222931	ENST00000410999	misc_RNA	KNOWN	None	45929	None	None	24261139	24261445	1	None	None
7	NUP205	ENSG00000155561	ENST00000285968	protein_coding	KNOWN	CCDS34759	18658	6039	2012	135242667	135333505	1	C7orf14	KIAA0225
7	NUP205	ENSG00000155561	ENST00000489493	processed_transcript	KNOWN	None	18658	None	None	135242680	135258525	1	C7orf14	KIAA0225
7	NUP205	ENSG00000155561	ENST00000462316	retained_intron	KNOWN	None	18658	None	None	135281987	135286198	1	C7orf14	KIAA0225
7	NUP205	ENSG00000155561	ENST00000607647	retained_intron	KNOWN	None	18658	None	None	135282488	135333505	1	C7orf14	KIAA0225
7	NUP205	ENSG00000155561	ENST00000472132	protein_coding	NOVEL	None	18658	553	183	135290897	135300745	1	C7orf14	KIAA0225
7	NUP205	ENSG00000155561	ENST00000463247	nonsense_mediated_decay	KNOWN	None	18658	215	70	135291619	135301449	1	C7orf14	KIAA0225
7	NUP205	ENSG00000155561	ENST00000477620	nonsense_mediated_decay	KNOWN	None	18658	821	272	135304562	135333472	1	C7orf14	KIAA0225
7	NUP205	ENSG00000155561	ENST00000461255	retained_intron	KNOWN	None	18658	None	None	135320063	135333505	1	C7orf14	KIAA0225
7	NUP205	ENSG00000155561	ENST00000490439	nonsense_mediated_decay	KNOWN	None	18658	128	41	135329647	135333473	1	C7orf14	KIAA0225
7	NUP205	ENSG00000155561	ENST00000491089	retained_intron	KNOWN	None	18658	None	None	135330773	135333497	1	C7orf14	KIAA0225
7	NUP205	ENSG00000155561	ENST00000440390	protein_coding	KNOWN	None	18658	750	249	135242679	135285702	1	C7orf14	KIAA0225
7	PGBD4P1	ENSG00000244273	ENST00000473644	processed_pseudogene	KNOWN	None	44066	None	None	142430182	142430588	1	None	None
X	SNORA35	ENSG00000208839	ENST00000386104	snoRNA	KNOWN	None	32625	None	None	113865259	113865386	1	None	HBI-36
X	None	ENSG00000229967	ENST00000411474	antisense	KNOWN	None	None	None	None	151072903	151079927	-1	None	None
X	None	ENSG00000229967	ENST00000445330	antisense	KNOWN	None	None	None	None	151072904	151079671	-1	None	None
X	None	ENSG00000229967	ENST00000424126	antisense	KNOWN	None	None	None	None	151077925	151082440	-1	None	None
16	CNGB1	ENSG00000070729	ENST00000564448	protein_coding	NOVEL	None	2151	3738	1245	57917503	58005016	-1	CNCG2, CNCG3L	RCNC2, RCNCb, GARP, GAR1, CNGB1B, RP45
16	CNGB1	ENSG00000070729	ENST00000251102	protein_coding	KNOWN	CCDS42169	2151	3756	1251	57917706	58005016	-1	CNCG2, CNCG3L	RCNC2, RCNCb, GARP, GAR1, CNGB1B, RP45
16	CNGB1	ENSG00000070729	ENST00000565942	protein_coding	PUTATIVE	None	2151	378	125	57918272	57935277	-1	CNCG2, CNCG3L	RCNC2, RCNCb, GARP, GAR1, CNGB1B, RP45
16	CNGB1	ENSG00000070729	ENST00000569643	retained_intron	KNOWN	None	2151	None	None	57931760	57945805	-1	CNCG2, CNCG3L	RCNC2, RCNCb, GARP, GAR1, CNGB1B, RP45
16	CNGB1	ENSG00000070729	ENST00000564450	retained_intron	KNOWN	None	2151	None	None	57957017	57973453	-1	CNCG2, CNCG3L	RCNC2, RCNCb, GARP, GAR1, CNGB1B, RP45
16	CNGB1	ENSG00000070729	ENST00000564654	processed_transcript	KNOWN	None	2151	None	None	57965669	57980529	-1	CNCG2, CNCG3L	RCNC2, RCNCb, GARP, GAR1, CNGB1B, RP45
16	CNGB1	ENSG00000070729	ENST00000311183	protein_coding	KNOWN	CCDS45495	2151	900	299	57988579	58005020	-1	CNCG2, CNCG3L	RCNC2, RCNCb, GARP, GAR1, CNGB1B, RP45
16	CNGB1	ENSG00000070729	ENST00000562761	protein_coding	KNOWN	None	2151	643	213	57993910	58001256	-1	CNCG2, CNCG3L	RCNC2, RCNCb, GARP, GAR1, CNGB1B, RP45
16	CNGB1	ENSG00000070729	ENST00000567568	retained_intron	KNOWN	None	2151	None	None	57997829	58005013	-1	CNCG2, CNCG3L	RCNC2, RCNCb, GARP, GAR1, CNGB1B, RP45
8	SLC25A51P3	ENSG00000254181	ENST00000521814	processed_pseudogene	KNOWN	None	31051	None	None	81507050	81507938	-1	MCART5P	None
2	RN7SL210P	ENSG00000243039	ENST00000484688	misc_RNA	KNOWN	None	46226	None	None	96670313	96670601	-1	None	None
17	None	ENSG00000244184	ENST00000497885	antisense	KNOWN	None	None	None	None	4607525	4608824	1	None	None
12	None	ENSG00000230519	ENST00000418882	processed_pseudogene	KNOWN	None	None	None	None	27855271	27855839	1	None	None
X	None	ENSG00000265211	ENST00000583959	miRNA	NOVEL	None	None	None	None	50388118	50388209	1	None	None
12	None	ENSG00000256835	ENST00000355509	processed_pseudogene	KNOWN	None	None	None	None	68371887	68372167	-1	None	None
8	None	ENSG00000254796	ENST00000533883	processed_pseudogene	KNOWN	None	None	None	None	7458526	7458789	1	None	None
17	None	ENSG00000265394	ENST00000582938	antisense	KNOWN	None	None	None	None	28417384	28444515	-1	None	None
2	BCYRN1	ENSG00000236824	ENST00000418539	lincRNA	KNOWN	None	1022	None	None	47558199	47571656	1	None	BC200, BC200a, NCRNA00004, LINC00004
7	PRSS3P1	ENSG00000250591	ENST00000503996	unprocessed_pseudogene	KNOWN	None	43787	None	None	142468264	142471792	1	None	TRY5
7	PRSS3P1	ENSG00000250591	ENST00000539842	unprocessed_pseudogene	KNOWN	None	43787	None	None	142470544	142471794	1	None	TRY5
17	ICAM2	ENSG00000108622	ENST00000578379	protein_coding	PUTATIVE	None	5345	525	174	62079954	62097985	-1	None	CD102
17	ICAM2	ENSG00000108622	ENST00000583684	nonsense_mediated_decay	KNOWN	None	5345	162	53	62079954	62097985	-1	None	CD102
17	ICAM2	ENSG00000108622	ENST00000578892	protein_coding	NOVEL	None	5345	756	251	62079954	62097985	-1	None	CD102
17	ICAM2	ENSG00000108622	ENST00000449662	protein_coding	KNOWN	CCDS11657	5345	828	275	62079955	62084292	-1	None	CD102
17	ICAM2	ENSG00000108622	ENST00000579788	protein_coding	KNOWN	CCDS11657	5345	828	275	62079956	62097962	-1	None	CD102
17	ICAM2	ENSG00000108622	ENST00000581417	processed_transcript	KNOWN	None	5345	None	None	62079992	62084106	-1	None	CD102
17	ICAM2	ENSG00000108622	ENST00000579687	protein_coding	KNOWN	CCDS11657	5345	828	275	62079992	62097967	-1	None	CD102
17	ICAM2	ENSG00000108622	ENST00000578313	protein_coding	KNOWN	None	5345	649	215	62081004	62097939	-1	None	CD102
17	ICAM2	ENSG00000108622	ENST00000583366	protein_coding	KNOWN	None	5345	644	213	62081009	62097911	-1	None	CD102
17	ICAM2	ENSG00000108622	ENST00000584084	protein_coding	KNOWN	None	5345	500	165	62081153	62097939	-1	None	CD102
17	ICAM2	ENSG00000108622	ENST00000584403	processed_transcript	KNOWN	None	5345	None	None	62081230	62097978	-1	None	CD102
17	ICAM2	ENSG00000108622	ENST00000580011	retained_intron	KNOWN	None	5345	None	None	62081615	62097955	-1	None	CD102
17	ICAM2	ENSG00000108622	ENST00000580389	retained_intron	KNOWN	None	5345	None	None	62082287	62084129	-1	None	CD102
17	ICAM2	ENSG00000108622	ENST00000583186	retained_intron	KNOWN	None	5345	None	None	62083299	62097992	-1	None	CD102
17	ICAM2	ENSG00000108622	ENST00000412356	protein_coding	KNOWN	CCDS11657	5345	828	275	62079956	62097994	-1	None	CD102
17	ICAM2	ENSG00000108622	ENST00000418105	protein_coding	KNOWN	CCDS11657	5345	828	275	62079956	62097994	-1	None	CD102
X	RNU6-935P	ENSG00000222303	ENST00000410371	snRNA	KNOWN	None	47898	None	None	50392641	50392740	1	None	None
14	None	ENSG00000270108	ENST00000602827	sense_intronic	KNOWN	None	None	None	None	104153913	104154464	1	None	None
2	None	ENSG00000180672	ENST00000315950	pseudogene	KNOWN	None	None	None	None	206642540	206644433	1	None	None
2	RN7SKP119	ENSG00000222685	ENST00000410753	misc_RNA	KNOWN	None	45843	None	None	47586644	47586916	-1	None	None
12	None	ENSG00000256504	ENST00000538640	lincRNA	KNOWN	None	None	None	None	27857501	27861296	1	None	None
11	None	ENSG00000270868	ENST00000603702	processed_pseudogene	KNOWN	None	None	None	None	102176843	102177002	1	None	None
17	MIR3184	ENSG00000266919	ENST00000586878	sense_intronic	KNOWN	None	38182	None	None	28444097	28444190	-1	None	hsa-mir-3184
17	None	ENSG00000213939	ENST00000466297	processed_pseudogene	KNOWN	None	None	None	None	4608111	4608512	-1	None	None
X	H3F3AP5	ENSG00000226881	ENST00000475267	processed_pseudogene	KNOWN	None	42981	None	None	50648438	50648866	1	None	None
X	H3F3AP5	ENSG00000226881	ENST00000414444	processed_pseudogene	KNOWN	None	42981	None	None	50648438	50648845	1	None	None
14	None	ENSG00000258887	ENST00000556165	unprocessed_pseudogene	KNOWN	None	None	None	None	24294845	24296605	-1	None	None
13	None	ENSG00000271559	ENST00000603212	processed_pseudogene	KNOWN	None	None	None	None	26803469	26803781	-1	None	None
2	MIR559	ENSG00000207923	ENST00000385188	miRNA	KNOWN	None	32815	None	None	47604814	47604909	1	MIRN559	hsa-mir-559
11	None	ENSG00000271600	ENST00000604811	processed_pseudogene	KNOWN	None	None	None	None	102179288	102179528	-1	None	None
17	MIR423	ENSG00000199071	ENST00000362201	miRNA	KNOWN	None	31880	None	None	28444097	28444190	1	MIRN423	hsa-mir-423
17	None	ENSG00000248702	ENST00000510589	processed_pseudogene	KNOWN	None	None	None	None	48874727	48875012	-1	None	None
12	None	ENSG00000252585	ENST00000516776	misc_RNA	NOVEL	None	None	None	None	27905807	27905919	1	None	None
8	RN7SL107P	ENSG00000243424	ENST00000478127	misc_RNA	KNOWN	None	46123	None	None	81525779	81526061	-1	None	None
8	CKS1BP7	ENSG00000254331	ENST00000522230	processed_pseudogene	KNOWN	None	1999	None	None	81557174	81557408	-1	CKS1, CKS1A	None
2	None	ENSG00000236558	ENST00000449451	antisense	KNOWN	None	None	None	None	47713153	47715691	-1	None	None
13	PRKRIRP6	ENSG00000227882	ENST00000431978	processed_pseudogene	KNOWN	None	39570	None	None	26808350	26811266	1	None	None
17	None	ENSG00000265739	ENST00000581946	antisense	KNOWN	None	None	None	None	28449447	28453136	-1	None	None
2	FAHD2CP	ENSG00000231584	ENST00000467292	processed_transcript	KNOWN	None	44135	None	None	96676299	96688997	1	None	None
2	FAHD2CP	ENSG00000231584	ENST00000607780	processed_transcript	KNOWN	None	44135	None	None	96676305	96687582	1	None	None
2	FAHD2CP	ENSG00000231584	ENST00000483000	processed_transcript	KNOWN	None	44135	None	None	96676356	96688480	1	None	None
2	FAHD2CP	ENSG00000231584	ENST00000443258	processed_transcript	KNOWN	None	44135	None	None	96676362	96689128	1	None	None
2	FAHD2CP	ENSG00000231584	ENST00000427863	transcribed_unprocessed_pseudogene	KNOWN	None	44135	None	None	96679478	96687356	1	None	None
2	FAHD2CP	ENSG00000231584	ENST00000535464	unprocessed_pseudogene	KNOWN	None	44135	None	None	96679478	96681130	1	None	None
11	None	ENSG00000207024	ENST00000384297	misc_RNA	NOVEL	None	None	None	None	64063509	64063610	1	None	None
2	RN7SKP178	ENSG00000201875	ENST00000365005	misc_RNA	KNOWN	None	45902	None	None	206765354	206765682	1	None	None
11	VPS51	ENSG00000149823	ENST00000528588	protein_coding	PUTATIVE	None	1172	496	164	64856796	64875100	1	C11orf3, C11orf2	ANG2, ANG3, FFR
11	VPS51	ENSG00000149823	ENST00000530773	protein_coding	NOVEL	None	1172	701	232	64863587	64875791	1	C11orf3, C11orf2	ANG2, ANG3, FFR
11	VPS51	ENSG00000149823	ENST00000279281	protein_coding	KNOWN	CCDS8093	1172	2349	782	64863631	64879332	1	C11orf3, C11orf2	ANG2, ANG3, FFR
11	VPS51	ENSG00000149823	ENST00000528050	retained_intron	KNOWN	None	1172	None	None	64863686	64864630	1	C11orf3, C11orf2	ANG2, ANG3, FFR
11	VPS51	ENSG00000149823	ENST00000533656	retained_intron	KNOWN	None	1172	None	None	64863699	64875199	1	C11orf3, C11orf2	ANG2, ANG3, FFR
11	VPS51	ENSG00000149823	ENST00000534124	nonsense_mediated_decay	KNOWN	None	1172	492	163	64863699	64875822	1	C11orf3, C11orf2	ANG2, ANG3, FFR
11	VPS51	ENSG00000149823	ENST00000529180	protein_coding	NOVEL	None	1172	1003	333	64863699	64875871	1	C11orf3, C11orf2	ANG2, ANG3, FFR
11	VPS51	ENSG00000149823	ENST00000533487	nonsense_mediated_decay	KNOWN	None	1172	246	81	64863716	64875492	1	C11orf3, C11orf2	ANG2, ANG3, FFR
11	VPS51	ENSG00000149823	ENST00000526578	protein_coding	PUTATIVE	None	1172	330	109	64863951	64875357	1	C11orf3, C11orf2	ANG2, ANG3, FFR
11	VPS51	ENSG00000149823	ENST00000534557	protein_coding	PUTATIVE	None	1172	765	254	64864225	64875966	1	C11orf3, C11orf2	ANG2, ANG3, FFR
11	VPS51	ENSG00000149823	ENST00000527646	processed_transcript	KNOWN	None	1172	None	None	64872880	64879179	1	C11orf3, C11orf2	ANG2, ANG3, FFR
11	VPS51	ENSG00000149823	ENST00000531146	retained_intron	KNOWN	None	1172	None	None	64876527	64877329	1	C11orf3, C11orf2	ANG2, ANG3, FFR
11	VPS51	ENSG00000149823	ENST00000533827	nonsense_mediated_decay	KNOWN	None	1172	217	71	64876763	64879146	1	C11orf3, C11orf2	ANG2, ANG3, FFR
11	VPS51	ENSG00000149823	ENST00000534591	retained_intron	KNOWN	None	1172	None	None	64876790	64879136	1	C11orf3, C11orf2	ANG2, ANG3, FFR
11	VPS51	ENSG00000149823	ENST00000526856	protein_coding	PUTATIVE	None	1172	599	198	64876816	64878363	1	C11orf3, C11orf2	ANG2, ANG3, FFR
11	VPS51	ENSG00000149823	ENST00000530673	protein_coding	PUTATIVE	None	1172	300	99	64877954	64879144	1	C11orf3, C11orf2	ANG2, ANG3, FFR
X	None	ENSG00000263653	ENST00000583829	miRNA	NOVEL	None	None	None	None	113870731	113870837	1	None	None
X	HMGB1P15	ENSG00000238190	ENST00000453854	processed_pseudogene	KNOWN	None	39097	None	None	50674114	50674548	-1	None	None
12	None	ENSG00000256747	ENST00000545904	antisense	KNOWN	None	None	None	None	27932754	27934000	-1	None	None
12	IFNG-AS1	ENSG00000255733	ENST00000538665	antisense	KNOWN	None	43910	None	None	68383225	68415107	1	None	Tmevpg1
12	IFNG-AS1	ENSG00000255733	ENST00000541715	antisense	KNOWN	None	43910	None	None	68383236	68414111	1	None	Tmevpg1
12	IFNG-AS1	ENSG00000255733	ENST00000536914	antisense	KNOWN	None	43910	None	None	68383309	68628466	1	None	Tmevpg1
17	None	ENSG00000266987	ENST00000591928	antisense	KNOWN	None	None	None	None	28471080	28471808	-1	None	None
14	None	ENSG00000269910	ENST00000602722	antisense	KNOWN	None	None	None	None	104160853	104161387	-1	None	None
2	None	ENSG00000213739	ENST00000458609	processed_pseudogene	KNOWN	None	None	None	None	206813815	206814869	1	None	None
4	LINC00616	ENSG00000248307	ENST00000514600	lincRNA	KNOWN	None	44065	None	None	138948576	139051839	-1	None	None
4	LINC00616	ENSG00000248307	ENST00000505874	lincRNA	KNOWN	None	44065	None	None	138953508	139012193	-1	None	None
4	LINC00616	ENSG00000248307	ENST00000503208	lincRNA	KNOWN	None	44065	None	None	138953606	138970726	-1	None	None
4	LINC00616	ENSG00000248307	ENST00000512536	lincRNA	KNOWN	None	44065	None	None	139019344	139051863	-1	None	None
4	LINC00616	ENSG00000248307	ENST00000513895	lincRNA	KNOWN	None	44065	None	None	139036605	139051842	-1	None	None
17	None	ENSG00000261898	ENST00000570493	antisense	KNOWN	None	None	None	None	4635051	4635666	-1	None	None
8	None	ENSG00000254889	ENST00000528788	processed_pseudogene	KNOWN	None	None	None	None	7554352	7554615	-1	None	None
15	None	ENSG00000238559	ENST00000459027	snoRNA	NOVEL	None	None	None	None	40899410	40899510	-1	None	None
HSCHR1_1_CTG31	None	ENSG00000262469	ENST00000573630	misc_RNA	NOVEL	None	None	None	None	153715959	153716060	-1	None	None
15	None	ENSG00000259744	ENST00000557800	sense_intronic	KNOWN	None	None	None	None	71141222	71142109	-1	None	None
17	None	ENSG00000264125	ENST00000581633	antisense	KNOWN	None	None	None	None	28531336	28533486	1	None	None
15	RN7SL376P	ENSG00000265814	ENST00000578594	misc_RNA	KNOWN	None	46392	None	None	40907865	40908126	-1	None	None
2	None	ENSG00000235760	ENST00000435331	antisense	KNOWN	None	None	None	None	47754676	47756303	1	None	None
2	None	ENSG00000235760	ENST00000439182	antisense	KNOWN	None	None	None	None	47754910	47762338	1	None	None
5	None	ENSG00000264928	ENST00000578370	miRNA	NOVEL	None	None	None	None	19735619	19735670	-1	None	None
HSCHR1_1_CTG31	None	ENSG00000263130	ENST00000577143	antisense	KNOWN	None	None	None	None	153736558	153740934	-1	None	None
17	None	ENSG00000262165	ENST00000571067	lincRNA	KNOWN	None	None	None	None	4704454	4710308	-1	None	None
11	None	ENSG00000236935	ENST00000447028	antisense	KNOWN	None	None	None	None	64092522	64096976	-1	None	None
X	MIR764	ENSG00000212100	ENST00000390811	miRNA	KNOWN	None	37306	None	None	113873918	113874002	1	None	hsa-mir-764
5	LYRM7	ENSG00000186687	ENST00000379380	protein_coding	KNOWN	CCDS4148	28072	315	104	130506503	130541119	1	C5orf31	FLJ20796, MZM1L
5	LYRM7	ENSG00000186687	ENST00000510516	protein_coding	NOVEL	None	28072	162	53	130506637	130535659	1	C5orf31	FLJ20796, MZM1L
5	LYRM7	ENSG00000186687	ENST00000507584	protein_coding	PUTATIVE	None	28072	192	63	130506682	130535346	1	C5orf31	FLJ20796, MZM1L
5	LYRM7	ENSG00000186687	ENST00000521227	processed_transcript	KNOWN	None	28072	None	None	130538333	130539394	1	C5orf31	FLJ20796, MZM1L
8	None	ENSG00000254306	ENST00000517714	lincRNA	KNOWN	None	None	None	None	37458055	37483391	-1	None	None
HSCHR1_1_CTG31	None	ENSG00000263275	ENST00000576306	antisense	KNOWN	None	None	None	None	153740690	153741883	-1	None	None
5	None	ENSG00000248766	ENST00000514549	processed_pseudogene	KNOWN	None	None	None	None	20158771	20159065	-1	None	None
17	None	ENSG00000266120	ENST00000577420	antisense	KNOWN	None	None	None	None	28565759	28579255	1	None	None
11	None	ENSG00000256588	ENST00000539313	sense_intronic	KNOWN	None	None	None	None	18529155	18530367	-1	None	None
HSCHR1_1_CTG31	None	ENSG00000262698	ENST00000576719	snoRNA	NOVEL	None	None	None	None	153743831	153743934	-1	None	None
14	LINC00596	ENSG00000259334	ENST00000559615	lincRNA	KNOWN	None	23167	None	None	24391456	24403777	-1	C14orf165	CNSLT1I7G
X	None	ENSG00000227493	ENST00000439389	unprocessed_pseudogene	KNOWN	None	None	None	None	50773422	50774357	-1	None	None
14	None	ENSG00000269940	ENST00000602669	sense_intronic	KNOWN	None	None	None	None	104160897	104161507	1	None	None
3	None	ENSG00000239350	ENST00000479379	processed_pseudogene	KNOWN	None	None	None	None	72134240	72134438	1	None	None
17	ATP6V0CP1	ENSG00000230201	ENST00000482495	processed_pseudogene	KNOWN	None	31323	None	None	4760052	4760669	-1	ATCD1	None
17	ATP6V0CP1	ENSG00000230201	ENST00000394174	processed_pseudogene	KNOWN	None	31323	None	None	4760244	4760669	-1	ATCD1	None
2	None	ENSG00000225610	ENST00000422116	antisense	KNOWN	None	None	None	None	206854309	206865582	1	None	None
17	None	ENSG00000252112	ENST00000516303	snoRNA	NOVEL	None	None	None	None	28573775	28573838	-1	None	None
14	VIPAS39	ENSG00000151445	ENST00000343765	protein_coding	KNOWN	CCDS9862	20347	1482	493	77893018	77923904	-1	C14orf133	VIPAR, VPS16B, SPE-39, SPE39, hSPE-39
14	VIPAS39	ENSG00000151445	ENST00000553888	protein_coding	KNOWN	CCDS9862	20347	1482	493	77893018	77923948	-1	C14orf133	VIPAR, VPS16B, SPE-39, SPE39, hSPE-39
14	VIPAS39	ENSG00000151445	ENST00000557658	protein_coding	KNOWN	CCDS9862	20347	1482	493	77893025	77923983	-1	C14orf133	VIPAR, VPS16B, SPE-39, SPE39, hSPE-39
14	VIPAS39	ENSG00000151445	ENST00000448935	protein_coding	KNOWN	CCDS53905	20347	1335	444	77893763	77923929	-1	C14orf133	VIPAR, VPS16B, SPE-39, SPE39, hSPE-39
14	VIPAS39	ENSG00000151445	ENST00000556412	protein_coding	PUTATIVE	None	20347	1560	519	77893857	77923908	-1	C14orf133	VIPAR, VPS16B, SPE-39, SPE39, hSPE-39
14	VIPAS39	ENSG00000151445	ENST00000553576	retained_intron	KNOWN	None	20347	None	None	77901514	77909504	-1	C14orf133	VIPAR, VPS16B, SPE-39, SPE39, hSPE-39
14	VIPAS39	ENSG00000151445	ENST00000553691	retained_intron	KNOWN	None	20347	None	None	77904151	77919727	-1	C14orf133	VIPAR, VPS16B, SPE-39, SPE39, hSPE-39
14	VIPAS39	ENSG00000151445	ENST00000555854	retained_intron	KNOWN	None	20347	None	None	77906603	77910633	-1	C14orf133	VIPAR, VPS16B, SPE-39, SPE39, hSPE-39
14	VIPAS39	ENSG00000151445	ENST00000557466	protein_coding	KNOWN	None	20347	136	44	77919702	77923915	-1	C14orf133	VIPAR, VPS16B, SPE-39, SPE39, hSPE-39
14	VIPAS39	ENSG00000151445	ENST00000556909	processed_transcript	PUTATIVE	None	20347	None	None	77923623	77924295	-1	C14orf133	VIPAR, VPS16B, SPE-39, SPE39, hSPE-39
14	VIPAS39	ENSG00000151445	ENST00000327028	protein_coding	KNOWN	None	20347	1443	480	77893018	77923904	-1	C14orf133	VIPAR, VPS16B, SPE-39, SPE39, hSPE-39
2	None	ENSG00000230979	ENST00000456046	processed_pseudogene	KNOWN	None	None	None	None	47917855	47918385	-1	None	None
HSCHR1_1_CTG31	None	ENSG00000262710	ENST00000570889	misc_RNA	NOVEL	None	None	None	None	153775427	153775528	-1	None	None
14	None	ENSG00000258796	ENST00000556832	processed_pseudogene	KNOWN	None	None	None	None	67227250	67227736	1	None	None
11	None	ENSG00000256361	ENST00000538408	processed_pseudogene	KNOWN	None	None	None	None	18532590	18533022	-1	None	None
4	None	ENSG00000248749	ENST00000504840	lincRNA	KNOWN	None	None	None	None	85292546	85301342	-1	None	None
5	None	ENSG00000214132	ENST00000502634	processed_pseudogene	KNOWN	None	None	None	None	20304154	20305557	-1	None	None
18	None	ENSG00000201466	ENST00000364596	misc_RNA	NOVEL	None	None	None	None	12760716	12760817	1	None	None
17	RNU6-1267P	ENSG00000222679	ENST00000410747	snRNA	KNOWN	None	48230	None	None	28615089	28615195	-1	None	None
12	None	ENSG00000256512	ENST00000543527	antisense	KNOWN	None	None	None	None	27951574	27953641	-1	None	None
8	RNU11-6P	ENSG00000212429	ENST00000391127	snRNA	KNOWN	None	46946	None	None	81661796	81661928	-1	None	None
3	RPL35A	ENSG00000182899	ENST00000464167	protein_coding	KNOWN	CCDS33930	10345	333	110	197676858	197683481	1	None	L35A
3	RPL35A	ENSG00000182899	ENST00000485439	retained_intron	KNOWN	None	10345	None	None	197677061	197681322	1	None	L35A
3	RPL35A	ENSG00000182899	ENST00000496582	retained_intron	KNOWN	None	10345	None	None	197677064	197678536	1	None	L35A
3	RPL35A	ENSG00000182899	ENST00000329092	processed_transcript	KNOWN	None	10345	None	None	197677064	197681018	1	None	L35A
3	RPL35A	ENSG00000182899	ENST00000448864	protein_coding	KNOWN	CCDS33930	10345	333	110	197677065	197682722	1	None	L35A
3	RPL35A	ENSG00000182899	ENST00000429437	nonsense_mediated_decay	KNOWN	None	10345	168	55	197677077	197682688	1	None	L35A
3	RPL35A	ENSG00000182899	ENST00000442341	protein_coding	KNOWN	None	10345	282	93	197677428	197680991	1	None	L35A
3	RPL35A	ENSG00000182899	ENST00000439255	nonsense_mediated_decay	KNOWN	None	10345	174	57	197677825	197682688	1	None	L35A
3	RPL35A	ENSG00000182899	ENST00000474640	retained_intron	KNOWN	None	10345	None	None	197680434	197682722	1	None	L35A
22	None	ENSG00000226471	ENST00000458080	antisense	KNOWN	None	None	None	None	29196671	29244547	1	None	None
22	None	ENSG00000226471	ENST00000418292	antisense	KNOWN	None	None	None	None	29196692	29235021	1	None	None
22	None	ENSG00000226471	ENST00000585003	antisense	KNOWN	None	None	None	None	29196697	29197212	1	None	None
22	None	ENSG00000226471	ENST00000451486	antisense	KNOWN	None	None	None	None	29197880	29218203	1	None	None
22	None	ENSG00000226471	ENST00000422972	antisense	KNOWN	None	None	None	None	29214319	29218203	1	None	None
HSCHR1_1_CTG31	None	ENSG00000262299	ENST00000572320	unprocessed_pseudogene	KNOWN	None	None	None	None	153784880	153791798	1	None	None
8	OR7E154P	ENSG00000254715	ENST00000525174	unprocessed_pseudogene	KNOWN	None	31309	None	None	7562704	7563635	-1	None	None
8	OR7E154P	ENSG00000254715	ENST00000358192	unprocessed_pseudogene	KNOWN	None	31309	None	None	7562793	7564413	-1	None	None
18	None	ENSG00000260302	ENST00000563722	lincRNA	KNOWN	None	None	None	None	12774650	12775922	-1	None	None
2	None	ENSG00000252485	ENST00000516676	misc_RNA	NOVEL	None	None	None	None	206872604	206872698	-1	None	None
17	None	ENSG00000207132	ENST00000384403	misc_RNA	NOVEL	None	None	None	None	28671521	28671622	-1	None	None
21	CBR1	ENSG00000159228	ENST00000466328	processed_transcript	KNOWN	None	1548	None	None	37442239	37443514	1	CBR	SDR21C1
21	CBR1	ENSG00000159228	ENST00000530908	protein_coding	PUTATIVE	None	1548	522	173	37442239	37445464	1	CBR	SDR21C1
21	CBR1	ENSG00000159228	ENST00000290349	protein_coding	KNOWN	CCDS13641	1548	834	277	37442239	37445464	1	CBR	SDR21C1
21	CBR1	ENSG00000159228	ENST00000439427	protein_coding	PUTATIVE	None	1548	537	178	37442313	37443881	1	CBR	SDR21C1
21	CBR1	ENSG00000159228	ENST00000399191	protein_coding	PUTATIVE	None	1548	669	222	37442333	37444831	1	CBR	SDR21C1
8	RN7SL308P	ENSG00000243951	ENST00000464971	misc_RNA	KNOWN	None	46324	None	None	81688901	81689197	-1	None	None
4	RPL3P13	ENSG00000258013	ENST00000550415	processed_pseudogene	KNOWN	None	48494	None	None	85465457	85465672	-1	None	None
2	None	ENSG00000207386	ENST00000384656	misc_RNA	NOVEL	None	None	None	None	206890317	206890421	1	None	None
5	None	ENSG00000249854	ENST00000513573	lincRNA	KNOWN	None	None	None	None	20305674	20331565	1	None	None
11	MIR1237	ENSG00000221273	ENST00000408346	miRNA	KNOWN	None	33927	None	None	64136074	64136175	1	MIRN1237	hsa-mir-1237
19	None	ENSG00000268743	ENST00000600987	sense_intronic	KNOWN	None	None	None	None	16954836	16957284	1	None	None
10	CCAR1	ENSG00000060339	ENST00000536391	protein_coding	KNOWN	None	24236	357	118	70480769	70502165	1	None	FLJ10590, CARP-1, CARP1
10	CCAR1	ENSG00000060339	ENST00000265872	protein_coding	KNOWN	CCDS7282	24236	3453	1150	70480971	70552134	1	None	FLJ10590, CARP-1, CARP1
10	CCAR1	ENSG00000060339	ENST00000538031	protein_coding	KNOWN	None	24236	513	170	70480973	70502321	1	None	FLJ10590, CARP-1, CARP1
10	CCAR1	ENSG00000060339	ENST00000543719	protein_coding	NOVEL	None	24236	3408	1135	70480983	70551023	1	None	FLJ10590, CARP-1, CARP1
10	CCAR1	ENSG00000060339	ENST00000541012	nonsense_mediated_decay	KNOWN	None	24236	1707	568	70480984	70531201	1	None	FLJ10590, CARP-1, CARP1
10	CCAR1	ENSG00000060339	ENST00000543229	nonsense_mediated_decay	KNOWN	None	24236	255	84	70480996	70531175	1	None	FLJ10590, CARP-1, CARP1
10	CCAR1	ENSG00000060339	ENST00000539539	protein_coding	KNOWN	None	24236	3130	1042	70480996	70548073	1	None	FLJ10590, CARP-1, CARP1
10	CCAR1	ENSG00000060339	ENST00000543225	protein_coding	NOVEL	None	24236	2316	771	70480999	70531058	1	None	FLJ10590, CARP-1, CARP1
10	CCAR1	ENSG00000060339	ENST00000536012	protein_coding	PUTATIVE	None	24236	1939	645	70480999	70531188	1	None	FLJ10590, CARP-1, CARP1
10	CCAR1	ENSG00000060339	ENST00000494903	protein_coding	PUTATIVE	None	24236	285	94	70481009	70496667	1	None	FLJ10590, CARP-1, CARP1
10	CCAR1	ENSG00000060339	ENST00000540210	nonsense_mediated_decay	KNOWN	None	24236	1707	568	70481012	70551112	1	None	FLJ10590, CARP-1, CARP1
10	CCAR1	ENSG00000060339	ENST00000483264	processed_transcript	KNOWN	None	24236	None	None	70514939	70517055	1	None	FLJ10590, CARP-1, CARP1
10	CCAR1	ENSG00000060339	ENST00000479143	nonsense_mediated_decay	KNOWN	None	24236	146	47	70515233	70525684	1	None	FLJ10590, CARP-1, CARP1
10	CCAR1	ENSG00000060339	ENST00000543706	protein_coding	NOVEL	None	24236	869	288	70517107	70547804	1	None	FLJ10590, CARP-1, CARP1
10	CCAR1	ENSG00000060339	ENST00000539250	retained_intron	KNOWN	None	24236	None	None	70520567	70531088	1	None	FLJ10590, CARP-1, CARP1
10	CCAR1	ENSG00000060339	ENST00000398676	retained_intron	KNOWN	None	24236	None	None	70532816	70546743	1	None	FLJ10590, CARP-1, CARP1
10	CCAR1	ENSG00000060339	ENST00000480627	retained_intron	KNOWN	None	24236	None	None	70547593	70549629	1	None	FLJ10590, CARP-1, CARP1
10	CCAR1	ENSG00000060339	ENST00000535016	protein_coding	KNOWN	None	24236	3408	1135	70480971	70551309	1	None	FLJ10590, CARP-1, CARP1
17	RNU6-990P	ENSG00000201255	ENST00000364385	snRNA	KNOWN	None	47953	None	None	28687481	28687584	1	None	None
11	None	ENSG00000256282	ENST00000541939	processed_transcript	PUTATIVE	None	None	None	None	18617006	18621230	-1	None	None
11	None	ENSG00000256282	ENST00000540985	transcribed_processed_pseudogene	KNOWN	None	None	None	None	18617176	18618118	-1	None	None
11	None	ENSG00000256282	ENST00000534919	processed_transcript	PUTATIVE	None	None	None	None	18617451	18621141	-1	None	None
1	ZZZ3	ENSG00000036549	ENST00000481346	processed_transcript	KNOWN	None	24523	None	None	78028101	78097606	-1	None	DKFZP564I052, ATAC1
1	ZZZ3	ENSG00000036549	ENST00000370801	protein_coding	KNOWN	CCDS677	24523	2712	903	78030185	78148343	-1	None	DKFZP564I052, ATAC1
1	ZZZ3	ENSG00000036549	ENST00000476275	processed_transcript	KNOWN	None	24523	None	None	78030191	78098561	-1	None	DKFZP564I052, ATAC1
1	ZZZ3	ENSG00000036549	ENST00000370798	protein_coding	KNOWN	None	24523	1230	409	78030573	78149104	-1	None	DKFZP564I052, ATAC1
1	ZZZ3	ENSG00000036549	ENST00000476195	processed_transcript	KNOWN	None	24523	None	None	78046703	78050728	-1	None	DKFZP564I052, ATAC1
1	ZZZ3	ENSG00000036549	ENST00000474746	processed_transcript	KNOWN	None	24523	None	None	78047503	78050744	-1	None	DKFZP564I052, ATAC1
1	ZZZ3	ENSG00000036549	ENST00000433749	protein_coding	KNOWN	None	24523	173	56	78098867	78148360	-1	None	DKFZP564I052, ATAC1
1	ZZZ3	ENSG00000036549	ENST00000414381	protein_coding	KNOWN	None	24523	109	35	78098931	78149059	-1	None	DKFZP564I052, ATAC1
1	ZZZ3	ENSG00000036549	ENST00000463166	processed_transcript	KNOWN	None	24523	None	None	78098997	78149088	-1	None	DKFZP564I052, ATAC1
1	ZZZ3	ENSG00000036549	ENST00000469944	processed_transcript	KNOWN	None	24523	None	None	78106639	78148328	-1	None	DKFZP564I052, ATAC1
1	ZZZ3	ENSG00000036549	ENST00000458763	processed_transcript	PUTATIVE	None	24523	None	None	78142667	78148360	-1	None	DKFZP564I052, ATAC1
2	None	ENSG00000224443	ENST00000419124	processed_pseudogene	KNOWN	None	None	None	None	47932607	47933118	1	None	None
15	KRT8P9	ENSG00000259470	ENST00000558927	processed_pseudogene	KNOWN	None	33363	None	None	71151053	71152501	1	None	None
2	TEX41	ENSG00000226674	ENST00000432608	lincRNA	KNOWN	None	48667	None	None	145425534	145525950	1	None	DKFZp686O1327, LINC00953
2	TEX41	ENSG00000226674	ENST00000597655	lincRNA	KNOWN	None	48667	None	None	145425534	145929645	1	None	DKFZp686O1327, LINC00953
2	TEX41	ENSG00000226674	ENST00000598659	lincRNA	KNOWN	None	48667	None	None	145425534	145939941	1	None	DKFZp686O1327, LINC00953
2	TEX41	ENSG00000226674	ENST00000600679	lincRNA	KNOWN	None	48667	None	None	145425545	145939941	1	None	DKFZp686O1327, LINC00953
2	TEX41	ENSG00000226674	ENST00000601277	lincRNA	KNOWN	None	48667	None	None	145425545	145939941	1	None	DKFZp686O1327, LINC00953
2	TEX41	ENSG00000226674	ENST00000451027	lincRNA	KNOWN	None	48667	None	None	145425552	145802010	1	None	DKFZp686O1327, LINC00953
2	TEX41	ENSG00000226674	ENST00000445791	lincRNA	KNOWN	None	48667	None	None	145425552	145834296	1	None	DKFZp686O1327, LINC00953
2	TEX41	ENSG00000226674	ENST00000596540	lincRNA	KNOWN	None	48667	None	None	145425552	145929652	1	None	DKFZp686O1327, LINC00953
2	TEX41	ENSG00000226674	ENST00000596230	lincRNA	KNOWN	None	48667	None	None	145425552	145939911	1	None	DKFZp686O1327, LINC00953
2	TEX41	ENSG00000226674	ENST00000594471	lincRNA	KNOWN	None	48667	None	None	145425552	145939941	1	None	DKFZp686O1327, LINC00953
2	TEX41	ENSG00000226674	ENST00000598248	lincRNA	KNOWN	None	48667	None	None	145425552	145939941	1	None	DKFZp686O1327, LINC00953
2	TEX41	ENSG00000226674	ENST00000597469	lincRNA	KNOWN	None	48667	None	None	145425552	145939941	1	None	DKFZp686O1327, LINC00953
2	TEX41	ENSG00000226674	ENST00000431734	lincRNA	KNOWN	None	48667	None	None	145425553	145568842	1	None	DKFZp686O1327, LINC00953
2	TEX41	ENSG00000226674	ENST00000595686	lincRNA	KNOWN	None	48667	None	None	145425557	145939941	1	None	DKFZp686O1327, LINC00953
2	TEX41	ENSG00000226674	ENST00000600064	lincRNA	KNOWN	None	48667	None	None	145425579	145939941	1	None	DKFZp686O1327, LINC00953
2	TEX41	ENSG00000226674	ENST00000597670	lincRNA	KNOWN	None	48667	None	None	145425579	145939941	1	None	DKFZp686O1327, LINC00953
2	TEX41	ENSG00000226674	ENST00000414256	lincRNA	KNOWN	None	48667	None	None	145425586	145647781	1	None	DKFZp686O1327, LINC00953
2	TEX41	ENSG00000226674	ENST00000599187	lincRNA	KNOWN	None	48667	None	None	145425587	145939941	1	None	DKFZp686O1327, LINC00953
2	TEX41	ENSG00000226674	ENST00000451774	lincRNA	KNOWN	None	48667	None	None	145425593	145831662	1	None	DKFZp686O1327, LINC00953
2	TEX41	ENSG00000226674	ENST00000599072	lincRNA	KNOWN	None	48667	None	None	145425624	145939941	1	None	DKFZp686O1327, LINC00953
2	TEX41	ENSG00000226674	ENST00000596589	lincRNA	KNOWN	None	48667	None	None	145425654	145939941	1	None	DKFZp686O1327, LINC00953
2	TEX41	ENSG00000226674	ENST00000597893	lincRNA	KNOWN	None	48667	None	None	145425654	145939941	1	None	DKFZp686O1327, LINC00953
2	TEX41	ENSG00000226674	ENST00000594626	lincRNA	KNOWN	None	48667	None	None	145523928	145939941	1	None	DKFZp686O1327, LINC00953
2	TEX41	ENSG00000226674	ENST00000423031	lincRNA	KNOWN	None	48667	None	None	145780662	145830221	1	None	DKFZp686O1327, LINC00953
2	TEX41	ENSG00000226674	ENST00000451478	lincRNA	KNOWN	None	48667	None	None	145780725	145939972	1	None	DKFZp686O1327, LINC00953
2	TEX41	ENSG00000226674	ENST00000597173	lincRNA	KNOWN	None	48667	None	None	145780739	145910069	1	None	DKFZp686O1327, LINC00953
2	TEX41	ENSG00000226674	ENST00000602108	lincRNA	KNOWN	None	48667	None	None	145780739	145940208	1	None	DKFZp686O1327, LINC00953
2	TEX41	ENSG00000226674	ENST00000420472	lincRNA	KNOWN	None	48667	None	None	145780754	145930242	1	None	DKFZp686O1327, LINC00953
2	TEX41	ENSG00000226674	ENST00000599358	lincRNA	KNOWN	None	48667	None	None	145780795	145801512	1	None	DKFZp686O1327, LINC00953
2	TEX41	ENSG00000226674	ENST00000596278	lincRNA	KNOWN	None	48667	None	None	145780795	145830713	1	None	DKFZp686O1327, LINC00953
2	TEX41	ENSG00000226674	ENST00000596747	lincRNA	KNOWN	None	48667	None	None	145780795	145909708	1	None	DKFZp686O1327, LINC00953
2	TEX41	ENSG00000226674	ENST00000596970	lincRNA	KNOWN	None	48667	None	None	145780795	145940040	1	None	DKFZp686O1327, LINC00953
2	TEX41	ENSG00000226674	ENST00000602041	lincRNA	KNOWN	None	48667	None	None	145780795	145940131	1	None	DKFZp686O1327, LINC00953
2	TEX41	ENSG00000226674	ENST00000601578	lincRNA	KNOWN	None	48667	None	None	145780795	145940184	1	None	DKFZp686O1327, LINC00953
2	TEX41	ENSG00000226674	ENST00000596034	lincRNA	KNOWN	None	48667	None	None	145780795	145940208	1	None	DKFZp686O1327, LINC00953
2	TEX41	ENSG00000226674	ENST00000414195	lincRNA	KNOWN	None	48667	None	None	145780795	145940216	1	None	DKFZp686O1327, LINC00953
2	TEX41	ENSG00000226674	ENST00000594837	lincRNA	KNOWN	None	48667	None	None	145780799	145815777	1	None	DKFZp686O1327, LINC00953
2	TEX41	ENSG00000226674	ENST00000604253	lincRNA	KNOWN	None	48667	None	None	145929565	145940076	1	None	DKFZp686O1327, LINC00953
2	TEX41	ENSG00000226674	ENST00000605238	lincRNA	KNOWN	None	48667	None	None	145929565	145940082	1	None	DKFZp686O1327, LINC00953
3	None	ENSG00000241592	ENST00000468434	processed_pseudogene	KNOWN	None	None	None	None	142679214	142679385	1	None	None
15	None	ENSG00000259254	ENST00000559841	sense_intronic	KNOWN	None	None	None	None	40935131	40939055	1	None	None
2	None	ENSG00000237041	ENST00000434035	processed_pseudogene	KNOWN	None	None	None	None	206905156	206905569	1	None	None
18	None	ENSG00000267570	ENST00000585406	processed_pseudogene	KNOWN	None	None	None	None	12911185	12912022	1	None	None
3	None	ENSG00000242609	ENST00000467189	processed_pseudogene	KNOWN	None	None	None	None	72136039	72136876	1	None	None
20	FOXA2	ENSG00000125798	ENST00000419308	protein_coding	KNOWN	CCDS13147	5022	1374	457	22561643	22565101	-1	HNF3B	None
20	FOXA2	ENSG00000125798	ENST00000377115	protein_coding	KNOWN	CCDS13147	5022	1374	457	22561643	22566093	-1	HNF3B	None
20	FOXA2	ENSG00000125798	ENST00000319993	protein_coding	KNOWN	CCDS46585	5022	1392	463	22561645	22565101	-1	HNF3B	None
19	RN7SL835P	ENSG00000264250	ENST00000579920	misc_RNA	KNOWN	None	46851	None	None	17018272	17018531	1	None	None
X	MIR1912	ENSG00000222321	ENST00000410389	miRNA	KNOWN	None	35396	None	None	113886019	113886098	1	MIRN1912	hsa-mir-1912
8	None	ENSG00000253344	ENST00000519978	antisense	KNOWN	None	None	None	None	37483533	37531905	-1	None	None
HSCHR1_1_CTG31	None	ENSG00000262025	ENST00000570973	processed_pseudogene	KNOWN	None	None	None	None	153841813	153843121	-1	None	None
19	RN7SL823P	ENSG00000263595	ENST00000584886	misc_RNA	KNOWN	None	46839	None	None	17021303	17021594	-1	None	None
5	None	ENSG00000251629	ENST00000502427	lincRNA	KNOWN	None	None	None	None	20611949	20937800	1	None	None
5	None	ENSG00000251629	ENST00000514876	lincRNA	KNOWN	None	None	None	None	20611959	20879567	1	None	None
5	None	ENSG00000251629	ENST00000512688	lincRNA	KNOWN	None	None	None	None	20616514	20935145	1	None	None
17	ALOX12P1	ENSG00000264958	ENST00000579299	unprocessed_pseudogene	KNOWN	None	431	None	None	28856706	28869434	1	ALOX12P	None
18	None	ENSG00000267336	ENST00000587313	processed_pseudogene	KNOWN	None	None	None	None	12912843	12913905	1	None	None
12	RN7SKP15	ENSG00000201612	ENST00000364742	misc_RNA	KNOWN	None	45739	None	None	27959015	27959323	-1	None	None
11	RNU6-952P	ENSG00000212466	ENST00000391164	snRNA	KNOWN	None	47915	None	None	102184453	102184560	1	None	None
19	None	ENSG00000268985	ENST00000595134	antisense	KNOWN	None	None	None	None	17119999	17124270	1	None	None
1	None	ENSG00000225011	ENST00000515851	unprocessed_pseudogene	KNOWN	None	None	None	None	29814705	29823405	-1	None	None
11	None	ENSG00000231680	ENST00000457725	lincRNA	KNOWN	None	None	None	None	64161814	64163303	-1	None	None
10	ELOVL3	ENSG00000119915	ENST00000370005	protein_coding	KNOWN	CCDS7531	18047	813	270	103986085	103989346	1	None	CIG-30
15	RAD51-AS1	ENSG00000245849	ENST00000533146	antisense	KNOWN	None	48621	None	None	40978922	40987294	-1	None	None
15	RAD51-AS1	ENSG00000245849	ENST00000526635	antisense	KNOWN	None	48621	None	None	40979921	40987296	-1	None	None
15	RAD51-AS1	ENSG00000245849	ENST00000499988	retained_intron	KNOWN	None	48621	None	None	40985939	40987305	-1	None	None
14	DHRS4-AS1	ENSG00000215256	ENST00000556379	processed_transcript	KNOWN	None	23175	None	None	24407940	24423406	-1	C14orf167	PRO1488, AS1DHRS4
14	DHRS4-AS1	ENSG00000215256	ENST00000555045	processed_transcript	KNOWN	None	23175	None	None	24408822	24423375	-1	C14orf167	PRO1488, AS1DHRS4
14	DHRS4-AS1	ENSG00000215256	ENST00000553454	processed_transcript	PUTATIVE	None	23175	None	None	24409425	24423331	-1	C14orf167	PRO1488, AS1DHRS4
14	DHRS4-AS1	ENSG00000215256	ENST00000399886	processed_transcript	PUTATIVE	None	23175	None	None	24409572	24422578	-1	C14orf167	PRO1488, AS1DHRS4
14	DHRS4-AS1	ENSG00000215256	ENST00000558423	processed_transcript	KNOWN	None	23175	None	None	24409895	24458048	-1	C14orf167	PRO1488, AS1DHRS4
14	DHRS4-AS1	ENSG00000215256	ENST00000554036	retained_intron	KNOWN	None	23175	None	None	24422199	24423061	-1	C14orf167	PRO1488, AS1DHRS4
HSCHR6_MHC_QBL	LST1	ENSG00000206433	ENST00000448441	protein_coding	KNOWN	None	14189	201	66	31544144	31546931	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_QBL	LST1	ENSG00000206433	ENST00000443340	protein_coding	KNOWN	None	14189	294	97	31544199	31546931	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_QBL	LST1	ENSG00000206433	ENST00000477067	retained_intron	KNOWN	None	14189	None	None	31544214	31546931	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_QBL	LST1	ENSG00000206433	ENST00000400255	protein_coding	KNOWN	None	14189	87	28	31544237	31546931	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_QBL	LST1	ENSG00000206433	ENST00000400257	protein_coding	KNOWN	None	14189	42	13	31544237	31546931	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_QBL	LST1	ENSG00000206433	ENST00000400265	protein_coding	KNOWN	None	14189	156	51	31544240	31546931	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_QBL	LST1	ENSG00000206433	ENST00000471940	retained_intron	KNOWN	None	14189	None	None	31544255	31546931	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_QBL	LST1	ENSG00000206433	ENST00000383484	protein_coding	KNOWN	None	14189	201	66	31544719	31546931	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_QBL	LST1	ENSG00000206433	ENST00000400253	protein_coding	KNOWN	None	14189	87	28	31544868	31546931	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_QBL	LST1	ENSG00000206433	ENST00000450047	protein_coding	KNOWN	None	14189	109	35	31544915	31545750	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_QBL	LST1	ENSG00000206433	ENST00000400252	protein_coding	KNOWN	None	14189	87	28	31545029	31546931	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_QBL	LST1	ENSG00000206433	ENST00000400251	protein_coding	KNOWN	None	14189	87	28	31545042	31546931	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_QBL	LST1	ENSG00000206433	ENST00000400264	protein_coding	KNOWN	None	14189	294	97	31545052	31546931	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_QBL	LST1	ENSG00000206433	ENST00000400263	protein_coding	KNOWN	None	14189	201	66	31545086	31546931	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_QBL	LST1	ENSG00000206433	ENST00000400262	protein_coding	KNOWN	None	14189	201	66	31545100	31546931	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_QBL	LST1	ENSG00000206433	ENST00000412931	protein_coding	KNOWN	None	14189	138	45	31545106	31545861	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_QBL	LST1	ENSG00000206433	ENST00000400250	protein_coding	KNOWN	None	14189	180	59	31545117	31546931	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_QBL	LST1	ENSG00000206433	ENST00000400261	protein_coding	KNOWN	None	14189	249	82	31545137	31546931	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_QBL	LST1	ENSG00000206433	ENST00000383486	protein_coding	KNOWN	None	14189	315	104	31545220	31546931	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_QBL	LST1	ENSG00000206433	ENST00000383480	protein_coding	KNOWN	None	14189	222	73	31545220	31546931	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_QBL	LST1	ENSG00000206433	ENST00000383482	protein_coding	KNOWN	None	14189	108	35	31545220	31546931	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_QBL	LST1	ENSG00000206433	ENST00000488804	retained_intron	KNOWN	None	14189	None	None	31545275	31546931	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_QBL	LST1	ENSG00000206433	ENST00000455553	protein_coding	KNOWN	None	14189	131	42	31545324	31546931	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_QBL	LST1	ENSG00000206433	ENST00000551274	protein_coding	KNOWN	None	14189	108	35	31544199	31546607	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_QBL	LST1	ENSG00000206433	ENST00000552592	protein_coding	KNOWN	None	14189	276	91	31545220	31546930	1	None	LST-1, B144, D6S49E
8	HMGB1P41	ENSG00000253516	ENST00000520234	processed_pseudogene	KNOWN	None	39188	None	None	81724377	81724816	-1	None	None
19	None	ENSG00000268289	ENST00000598893	antisense	KNOWN	None	None	None	None	17162804	17165897	1	None	None
2	None	ENSG00000227946	ENST00000420509	lincRNA	KNOWN	None	None	None	None	206949329	206951288	1	None	None
2	None	ENSG00000227946	ENST00000435627	lincRNA	KNOWN	None	None	None	None	206950246	206950880	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000237120	ENST00000451654	processed_pseudogene	KNOWN	None	None	None	None	32644922	32645329	-1	None	None
12	None	ENSG00000256378	ENST00000545989	unprocessed_pseudogene	KNOWN	None	None	None	None	28088456	28088682	-1	None	None
HSCHR15_1_CTG4	None	ENSG00000262581	ENST00000574769	unprocessed_pseudogene	KNOWN	None	None	None	None	28577376	28581745	1	None	None
5	ARHGAP26	ENSG00000145819	ENST00000274498	protein_coding	KNOWN	CCDS4277	17073	2445	814	142149949	142606050	1	None	GRAF, KIAA0621, OPHN1L, OPHN1L1
5	ARHGAP26	ENSG00000145819	ENST00000378004	protein_coding	NOVEL	CCDS47297	17073	2280	759	142149972	142608576	1	None	GRAF, KIAA0621, OPHN1L, OPHN1L1
5	ARHGAP26	ENSG00000145819	ENST00000378013	protein_coding	PUTATIVE	None	17073	500	165	142152282	142273900	1	None	GRAF, KIAA0621, OPHN1L, OPHN1L1
5	ARHGAP26	ENSG00000145819	ENST00000475287	retained_intron	KNOWN	None	17073	None	None	142254458	142281578	1	None	GRAF, KIAA0621, OPHN1L, OPHN1L1
5	ARHGAP26	ENSG00000145819	ENST00000477867	processed_transcript	KNOWN	None	17073	None	None	142283105	142301679	1	None	GRAF, KIAA0621, OPHN1L, OPHN1L1
5	ARHGAP26	ENSG00000145819	ENST00000451259	protein_coding	PUTATIVE	None	17073	275	90	142286887	142416788	1	None	GRAF, KIAA0621, OPHN1L, OPHN1L1
5	ARHGAP26	ENSG00000145819	ENST00000461314	processed_transcript	KNOWN	None	17073	None	None	142286926	142311690	1	None	GRAF, KIAA0621, OPHN1L, OPHN1L1
5	ARHGAP26	ENSG00000145819	ENST00000469131	retained_intron	KNOWN	None	17073	None	None	142287143	142434091	1	None	GRAF, KIAA0621, OPHN1L, OPHN1L1
5	ARHGAP26	ENSG00000145819	ENST00000469396	processed_transcript	KNOWN	None	17073	None	None	142288287	142421455	1	None	GRAF, KIAA0621, OPHN1L, OPHN1L1
5	ARHGAP26	ENSG00000145819	ENST00000464838	processed_transcript	PUTATIVE	None	17073	None	None	142390301	142393962	1	None	GRAF, KIAA0621, OPHN1L, OPHN1L1
5	ARHGAP26	ENSG00000145819	ENST00000470032	processed_transcript	KNOWN	None	17073	None	None	142393645	142421279	1	None	GRAF, KIAA0621, OPHN1L, OPHN1L1
5	ARHGAP26	ENSG00000145819	ENST00000443674	protein_coding	NOVEL	None	17073	1166	387	142416761	142603715	1	None	GRAF, KIAA0621, OPHN1L, OPHN1L1
5	ARHGAP26	ENSG00000145819	ENST00000418236	protein_coding	NOVEL	None	17073	884	293	142434004	142602759	1	None	GRAF, KIAA0621, OPHN1L, OPHN1L1
5	ARHGAP26	ENSG00000145819	ENST00000443045	protein_coding	PUTATIVE	None	17073	294	97	142435648	142437724	1	None	GRAF, KIAA0621, OPHN1L, OPHN1L1
5	ARHGAP26	ENSG00000145819	ENST00000419676	nonsense_mediated_decay	KNOWN	None	17073	384	127	142500677	142601978	1	None	GRAF, KIAA0621, OPHN1L, OPHN1L1
5	ARHGAP26	ENSG00000145819	ENST00000424007	nonsense_mediated_decay	KNOWN	None	17073	384	127	142500680	142587038	1	None	GRAF, KIAA0621, OPHN1L, OPHN1L1
5	ARHGAP26	ENSG00000145819	ENST00000489924	retained_intron	KNOWN	None	17073	None	None	142513550	142527081	1	None	GRAF, KIAA0621, OPHN1L, OPHN1L1
5	ARHGAP26	ENSG00000145819	ENST00000486650	processed_transcript	KNOWN	None	17073	None	None	142544478	142606050	1	None	GRAF, KIAA0621, OPHN1L, OPHN1L1
5	ARHGAP26	ENSG00000145819	ENST00000421521	protein_coding	PUTATIVE	None	17073	463	153	142586763	142596166	1	None	GRAF, KIAA0621, OPHN1L, OPHN1L1
5	ARHGAP26	ENSG00000145819	ENST00000425417	protein_coding	PUTATIVE	None	17073	296	97	142586765	142596335	1	None	GRAF, KIAA0621, OPHN1L, OPHN1L1
2	REG1A	ENSG00000115386	ENST00000488524	retained_intron	KNOWN	None	9951	None	None	79347488	79349325	1	REG	PSP, PTP, PSPS, PSPS1
2	REG1A	ENSG00000115386	ENST00000233735	protein_coding	KNOWN	CCDS1964	9951	501	166	79347584	79350545	1	REG	PSP, PTP, PSPS, PSPS1
2	REG1A	ENSG00000115386	ENST00000461579	retained_intron	KNOWN	None	9951	None	None	79347616	79348816	1	REG	PSP, PTP, PSPS, PSPS1
2	REG1A	ENSG00000115386	ENST00000485184	retained_intron	KNOWN	None	9951	None	None	79347961	79350217	1	REG	PSP, PTP, PSPS, PSPS1
4	None	ENSG00000250893	ENST00000514187	antisense	KNOWN	None	None	None	None	40428136	40429602	1	None	None
17	C1QL1	ENSG00000131094	ENST00000253407	protein_coding	KNOWN	CCDS11492	24182	777	258	43037061	43045439	-1	None	CRF, C1QRF, C1QTNF14
3	None	ENSG00000241570	ENST00000594095	antisense	KNOWN	None	None	None	None	142681796	142683686	1	None	None
3	None	ENSG00000241570	ENST00000497652	antisense	KNOWN	None	None	None	None	142682900	142719932	1	None	None
3	None	ENSG00000241570	ENST00000478823	antisense	KNOWN	None	None	None	None	142683002	142683745	1	None	None
3	None	ENSG00000241570	ENST00000493825	antisense	KNOWN	None	None	None	None	142683282	142683966	1	None	None
3	None	ENSG00000241570	ENST00000593321	antisense	KNOWN	None	None	None	None	142683339	142686308	1	None	None
3	None	ENSG00000241570	ENST00000598139	antisense	KNOWN	None	None	None	None	142683339	142709429	1	None	None
3	None	ENSG00000241570	ENST00000598787	antisense	KNOWN	None	None	None	None	142683339	142713659	1	None	None
3	None	ENSG00000241570	ENST00000595774	antisense	KNOWN	None	None	None	None	142683339	142720107	1	None	None
3	None	ENSG00000241570	ENST00000595248	antisense	KNOWN	None	None	None	None	142683339	142720401	1	None	None
12	ZNF891	ENSG00000214029	ENST00000537226	protein_coding	KNOWN	CCDS59238	38709	1635	544	133694740	133707059	-1	None	None
12	ZNF891	ENSG00000214029	ENST00000397313	protein_coding	KNOWN	CCDS59238	38709	1635	544	133696870	133698504	-1	None	None
14	None	ENSG00000269958	ENST00000602422	sense_intronic	KNOWN	None	None	None	None	104162690	104163500	1	None	None
2	None	ENSG00000224058	ENST00000420788	processed_pseudogene	KNOWN	None	None	None	None	47958541	47959174	-1	None	None
HSCHR6_MHC_MANN	HLA-DRB7	ENSG00000229099	ENST00000421942	unprocessed_pseudogene	KNOWN	None	4955	None	None	32647649	32666810	-1	None	None
1	None	ENSG00000221126	ENST00000408199	miRNA	NOVEL	None	None	None	None	30117392	30117525	-1	None	None
4	None	ENSG00000221122	ENST00000408195	miRNA	NOVEL	None	None	None	None	40465733	40465820	1	None	None
9	None	ENSG00000231248	ENST00000419207	lincRNA	KNOWN	None	None	None	None	44823714	44835521	1	None	None
7	None	ENSG00000213067	ENST00000341855	processed_pseudogene	KNOWN	None	None	None	None	56665072	56666035	1	None	None
6	None	ENSG00000260418	ENST00000564248	lincRNA	KNOWN	None	None	None	None	136656852	136657225	-1	None	None
3	LINC00870	ENSG00000243083	ENST00000473713	lincRNA	KNOWN	None	27319	None	None	72200408	72223483	1	None	None
3	LINC00870	ENSG00000243083	ENST00000469178	lincRNA	KNOWN	None	27319	None	None	72201910	72221250	1	None	None
3	LINC00870	ENSG00000243083	ENST00000485404	lincRNA	KNOWN	None	27319	None	None	72202044	72221401	1	None	None
HSCHR15_1_CTG4	None	ENSG00000261951	ENST00000571828	unprocessed_pseudogene	KNOWN	None	None	None	None	28594196	28603160	-1	None	None
18	None	ENSG00000266969	ENST00000588211	antisense	KNOWN	None	None	None	None	12984693	12991172	-1	None	None
1	None	ENSG00000228176	ENST00000422638	lincRNA	KNOWN	None	None	None	None	30181698	30182394	-1	None	None
2	CHRND	ENSG00000135902	ENST00000441621	nonsense_mediated_decay	KNOWN	None	1965	708	235	233390703	233401377	1	ACHRD	None
2	CHRND	ENSG00000135902	ENST00000449596	protein_coding	NOVEL	None	1965	516	171	233390870	233393623	1	ACHRD	None
2	CHRND	ENSG00000135902	ENST00000258385	protein_coding	KNOWN	CCDS2494	1965	1554	517	233390894	233400548	1	ACHRD	None
2	CHRND	ENSG00000135902	ENST00000412233	nonsense_mediated_decay	KNOWN	None	1965	516	171	233390898	233396337	1	ACHRD	None
2	CHRND	ENSG00000135902	ENST00000446616	nonsense_mediated_decay	KNOWN	None	1965	327	108	233390901	233400055	1	ACHRD	None
2	CHRND	ENSG00000135902	ENST00000543200	protein_coding	KNOWN	CCDS58754	1965	1509	502	233390870	233400285	1	ACHRD	None
2	CHRND	ENSG00000135902	ENST00000536614	protein_coding	KNOWN	None	1965	708	235	233390898	233396353	1	ACHRD	None
2	CHRND	ENSG00000135902	ENST00000457943	protein_coding	KNOWN	None	1965	972	323	233390898	233400076	1	ACHRD	None
4	None	ENSG00000242197	ENST00000481627	processed_pseudogene	KNOWN	None	None	None	None	40493750	40494041	1	None	None
2	None	ENSG00000231955	ENST00000453039	antisense	KNOWN	None	None	None	None	206980271	206987047	1	None	None
12	PTPRQ	ENSG00000139304	ENST00000551042	protein_coding	NOVEL	None	9679	996	331	80799774	80839497	1	DFNB84	None
12	PTPRQ	ENSG00000139304	ENST00000547376	protein_coding	NOVEL	None	9679	1061	352	80814531	80839304	1	DFNB84	None
12	PTPRQ	ENSG00000139304	ENST00000551573	protein_coding	NOVEL	None	9679	851	282	80814537	80839304	1	DFNB84	None
12	PTPRQ	ENSG00000139304	ENST00000526956	processed_transcript	KNOWN	None	9679	None	None	80837948	80839497	1	DFNB84	None
12	PTPRQ	ENSG00000139304	ENST00000532722	protein_coding	NOVEL	None	9679	5990	1995	80862489	81074013	1	DFNB84	None
12	PTPRQ	ENSG00000139304	ENST00000547485	processed_transcript	KNOWN	None	9679	None	None	80906421	80933617	1	DFNB84	None
12	PTPRQ	ENSG00000139304	ENST00000551624	retained_intron	KNOWN	None	9679	None	None	80936035	80940902	1	DFNB84	None
12	PTPRQ	ENSG00000139304	ENST00000547881	protein_coding	NOVEL	None	9679	439	145	81026001	81051830	1	DFNB84	None
12	PTPRQ	ENSG00000139304	ENST00000549355	retained_intron	KNOWN	None	9679	None	None	81028449	81046603	1	DFNB84	None
12	PTPRQ	ENSG00000139304	ENST00000266688	protein_coding	KNOWN	None	9679	6888	2295	80838126	81072802	1	DFNB84	None
14	GPR132	ENSG00000183484	ENST00000329797	protein_coding	KNOWN	CCDS9997	17482	1143	380	105515728	105531767	-1	None	G2A
14	GPR132	ENSG00000183484	ENST00000392585	protein_coding	PUTATIVE	None	17482	1116	371	105515734	105531782	-1	None	G2A
14	GPR132	ENSG00000183484	ENST00000551869	nonsense_mediated_decay	KNOWN	None	17482	207	68	105515737	105522128	-1	None	G2A
14	GPR132	ENSG00000183484	ENST00000539291	protein_coding	KNOWN	CCDS9997	17482	1143	380	105516697	105531767	-1	None	G2A
14	GPR132	ENSG00000183484	ENST00000546679	processed_transcript	PUTATIVE	None	17482	None	None	105517944	105531767	-1	None	G2A
14	GPR132	ENSG00000183484	ENST00000549990	protein_coding	KNOWN	None	17482	30	9	105521728	105523819	-1	None	G2A
14	None	ENSG00000258490	ENST00000555850	antisense	KNOWN	None	None	None	None	67435755	67436533	-1	None	None
12	RPH3A	ENSG00000089169	ENST00000549736	protein_coding	KNOWN	None	17056	119	38	113008184	113285536	1	None	KIAA0985, rabphilin, exophilin-1
12	RPH3A	ENSG00000089169	ENST00000548197	protein_coding	KNOWN	None	17056	312	103	113008230	113303300	1	None	KIAA0985, rabphilin, exophilin-1
12	RPH3A	ENSG00000089169	ENST00000547686	protein_coding	KNOWN	None	17056	282	93	113012831	113303270	1	None	KIAA0985, rabphilin, exophilin-1
12	RPH3A	ENSG00000089169	ENST00000543106	protein_coding	KNOWN	CCDS44979	17056	2085	694	113012901	113334719	1	None	KIAA0985, rabphilin, exophilin-1
12	RPH3A	ENSG00000089169	ENST00000551593	protein_coding	KNOWN	None	17056	545	180	113012947	113306335	1	None	KIAA0985, rabphilin, exophilin-1
12	RPH3A	ENSG00000089169	ENST00000546426	protein_coding	KNOWN	None	17056	37	11	113013037	113266160	1	None	KIAA0985, rabphilin, exophilin-1
12	RPH3A	ENSG00000089169	ENST00000551748	protein_coding	KNOWN	None	17056	283	93	113013042	113303271	1	None	KIAA0985, rabphilin, exophilin-1
12	RPH3A	ENSG00000089169	ENST00000546703	protein_coding	KNOWN	None	17056	249	82	113013069	113303237	1	None	KIAA0985, rabphilin, exophilin-1
12	RPH3A	ENSG00000089169	ENST00000547840	protein_coding	KNOWN	None	17056	381	126	113029364	113304582	1	None	KIAA0985, rabphilin, exophilin-1
12	RPH3A	ENSG00000089169	ENST00000547728	protein_coding	KNOWN	None	17056	491	162	113228954	113306281	1	None	KIAA0985, rabphilin, exophilin-1
12	RPH3A	ENSG00000089169	ENST00000549769	protein_coding	KNOWN	None	17056	346	114	113229151	113303334	1	None	KIAA0985, rabphilin, exophilin-1
12	RPH3A	ENSG00000089169	ENST00000552667	protein_coding	KNOWN	None	17056	360	119	113229343	113303348	1	None	KIAA0985, rabphilin, exophilin-1
12	RPH3A	ENSG00000089169	ENST00000389385	protein_coding	KNOWN	CCDS44979	17056	2085	694	113229460	113336682	1	None	KIAA0985, rabphilin, exophilin-1
12	RPH3A	ENSG00000089169	ENST00000550901	protein_coding	PUTATIVE	None	17056	242	79	113229716	113304644	1	None	KIAA0985, rabphilin, exophilin-1
12	RPH3A	ENSG00000089169	ENST00000551198	protein_coding	KNOWN	None	17056	377	124	113229727	113304578	1	None	KIAA0985, rabphilin, exophilin-1
12	RPH3A	ENSG00000089169	ENST00000551052	protein_coding	KNOWN	CCDS31904	17056	2073	690	113229742	113335258	1	None	KIAA0985, rabphilin, exophilin-1
12	RPH3A	ENSG00000089169	ENST00000415485	protein_coding	KNOWN	CCDS44979	17056	2085	694	113229821	113336686	1	None	KIAA0985, rabphilin, exophilin-1
12	RPH3A	ENSG00000089169	ENST00000552679	processed_transcript	KNOWN	None	17056	None	None	113229935	113303392	1	None	KIAA0985, rabphilin, exophilin-1
12	RPH3A	ENSG00000089169	ENST00000553114	protein_coding	KNOWN	None	17056	401	132	113229990	113304602	1	None	KIAA0985, rabphilin, exophilin-1
12	RPH3A	ENSG00000089169	ENST00000548866	protein_coding	NOVEL	None	17056	1938	645	113229993	113334982	1	None	KIAA0985, rabphilin, exophilin-1
12	RPH3A	ENSG00000089169	ENST00000547099	nonsense_mediated_decay	KNOWN	None	17056	183	60	113230052	113304604	1	None	KIAA0985, rabphilin, exophilin-1
12	RPH3A	ENSG00000089169	ENST00000547222	processed_transcript	KNOWN	None	17056	None	None	113288596	113307723	1	None	KIAA0985, rabphilin, exophilin-1
12	RPH3A	ENSG00000089169	ENST00000549913	processed_transcript	KNOWN	None	17056	None	None	113305952	113336686	1	None	KIAA0985, rabphilin, exophilin-1
12	RPH3A	ENSG00000089169	ENST00000552755	processed_transcript	KNOWN	None	17056	None	None	113311675	113321148	1	None	KIAA0985, rabphilin, exophilin-1
12	RPH3A	ENSG00000089169	ENST00000546687	retained_intron	KNOWN	None	17056	None	None	113321164	113328993	1	None	KIAA0985, rabphilin, exophilin-1
12	RPH3A	ENSG00000089169	ENST00000552352	retained_intron	KNOWN	None	17056	None	None	113330673	113335100	1	None	KIAA0985, rabphilin, exophilin-1
12	RPH3A	ENSG00000089169	ENST00000549324	retained_intron	KNOWN	None	17056	None	None	113333218	113336342	1	None	KIAA0985, rabphilin, exophilin-1
12	RPH3A	ENSG00000089169	ENST00000447659	protein_coding	KNOWN	None	17056	1938	645	113229549	113336679	1	None	KIAA0985, rabphilin, exophilin-1
12	RPH3A	ENSG00000089169	ENST00000420983	protein_coding	KNOWN	CCDS44979	17056	2085	694	113266124	113336679	1	None	KIAA0985, rabphilin, exophilin-1
2	RNU6-688P	ENSG00000251872	ENST00000516063	snRNA	KNOWN	None	47651	None	None	48008518	48008604	1	None	None
8	None	ENSG00000254060	ENST00000518302	lincRNA	KNOWN	None	None	None	None	81949199	81953066	1	None	None
6	None	ENSG00000220660	ENST00000407767	transcribed_processed_pseudogene	KNOWN	None	None	None	None	136685267	136685600	1	None	None
6	None	ENSG00000220660	ENST00000571188	processed_transcript	KNOWN	None	None	None	None	136685557	136686217	1	None	None
2	None	ENSG00000228873	ENST00000449242	lincRNA	KNOWN	None	None	None	None	96811341	96812751	-1	None	None
7	None	ENSG00000271047	ENST00000603395	processed_pseudogene	KNOWN	None	None	None	None	56671103	56671246	1	None	None
8	RNU6-607P	ENSG00000223215	ENST00000411283	snRNA	KNOWN	None	47570	None	None	37526416	37526523	1	None	None
1	None	ENSG00000222787	ENST00000410855	miRNA	NOVEL	None	None	None	None	30357749	30357852	1	None	None
12	None	ENSG00000258311	ENST00000551946	nonsense_mediated_decay	KNOWN	None	None	165	54	56109820	56116202	1	None	None
12	None	ENSG00000258311	ENST00000550412	protein_coding	PUTATIVE	None	None	369	122	56109820	56118487	1	None	None
12	None	ENSG00000258311	ENST00000549424	protein_coding	PUTATIVE	None	None	135	44	56110374	56115578	1	None	None
2	GCSHP3	ENSG00000237580	ENST00000431120	processed_pseudogene	KNOWN	None	43929	None	None	206980834	206981224	-1	None	None
4	MIR4802	ENSG00000263642	ENST00000581881	miRNA	KNOWN	None	41658	None	None	40504057	40504136	-1	None	hsa-mir-4802
HSCHR6_MHC_MANN	FAM8A5P	ENSG00000223844	ENST00000433558	processed_pseudogene	KNOWN	None	16376	None	None	32650484	32651614	1	None	None
2	RPL36AP15	ENSG00000235369	ENST00000444514	processed_pseudogene	KNOWN	None	36648	None	None	48024965	48025230	-1	None	None
7	TRIM60P16	ENSG00000229909	ENST00000444048	processed_pseudogene	KNOWN	None	38488	None	None	56699432	56700420	-1	None	None
14	None	ENSG00000269963	ENST00000602383	lincRNA	KNOWN	None	None	None	None	104179904	104180586	1	None	None
7	TRGV3	ENSG00000211699	ENST00000390346	TR_V_gene	KNOWN	None	12288	354	117	38398113	38398763	-1	TCRGV3	V1S3
18	None	ENSG00000267656	ENST00000586758	processed_pseudogene	KNOWN	None	None	None	None	13139779	13140488	-1	None	None
14	None	ENSG00000258988	ENST00000553618	processed_pseudogene	KNOWN	None	None	None	None	67665779	67667044	1	None	None
1	None	ENSG00000270927	ENST00000603857	processed_pseudogene	KNOWN	None	None	None	None	30377712	30378204	-1	None	None
4	None	ENSG00000248780	ENST00000507378	processed_pseudogene	KNOWN	None	None	None	None	40788127	40788727	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000263871	ENST00000579987	snRNA	NOVEL	None	None	None	None	32688633	32688781	-1	None	None
HSCHR15_1_CTG4	None	ENSG00000262906	ENST00000573389	unprocessed_pseudogene	KNOWN	None	None	None	None	28606968	28610830	-1	None	None
2	None	ENSG00000204685	ENST00000446816	antisense	KNOWN	None	None	None	None	96874154	96908332	1	None	None
2	None	ENSG00000204685	ENST00000432267	retained_intron	KNOWN	None	None	None	None	96905451	96908359	1	None	None
11	None	ENSG00000231492	ENST00000569737	lincRNA	KNOWN	None	None	None	None	64187863	64188529	1	None	None
11	None	ENSG00000231492	ENST00000449694	lincRNA	KNOWN	None	None	None	None	64188007	64200142	1	None	None
19	None	ENSG00000269066	ENST00000597045	antisense	KNOWN	None	None	None	None	17206228	17210117	-1	None	None
15	RPL5P3	ENSG00000242276	ENST00000493817	processed_pseudogene	KNOWN	None	31034	None	None	71355440	71356328	-1	None	HsT18216
HSCHR6_MHC_MANN	None	ENSG00000257314	ENST00000547783	pseudogene	NOVEL	None	None	None	None	32726470	32726656	1	None	None
11	SPTY2D1-AS1	ENSG00000247595	ENST00000501599	antisense	KNOWN	None	44122	None	None	18621334	18631802	1	None	None
11	SPTY2D1-AS1	ENSG00000247595	ENST00000511927	antisense	KNOWN	None	44122	None	None	18621336	18623311	1	None	None
11	SPTY2D1-AS1	ENSG00000247595	ENST00000542172	retained_intron	KNOWN	None	44122	None	None	18624534	18625440	1	None	None
12	None	ENSG00000269892	ENST00000602431	lincRNA	KNOWN	None	None	None	None	6852151	6852807	1	None	None
18	None	ENSG00000267032	ENST00000586304	processed_pseudogene	KNOWN	None	None	None	None	13151636	13152688	-1	None	None
2	SNORD51	ENSG00000207047	ENST00000384320	snoRNA	KNOWN	None	10201	None	None	207026602	207026681	1	RNU51	U51
2	GPR45	ENSG00000135973	ENST00000258456	protein_coding	KNOWN	CCDS2066	4503	1119	372	105858200	105859924	1	None	PSP24, PSP24A
9	GFI1B	ENSG00000165702	ENST00000339463	protein_coding	KNOWN	CCDS6957	4238	993	330	135820938	135867074	1	None	None
9	GFI1B	ENSG00000165702	ENST00000372123	protein_coding	KNOWN	CCDS48049	4238	855	284	135862043	135867074	1	None	None
9	GFI1B	ENSG00000165702	ENST00000372122	protein_coding	KNOWN	CCDS6957	4238	993	330	135862043	135867074	1	None	None
9	GFI1B	ENSG00000165702	ENST00000372124	protein_coding	KNOWN	CCDS48049	4238	855	284	135820932	135867071	1	None	None
9	GFI1B	ENSG00000165702	ENST00000450530	protein_coding	KNOWN	CCDS6957	4238	993	330	135854098	135867083	1	None	None
9	GFI1B	ENSG00000165702	ENST00000534944	protein_coding	KNOWN	CCDS48049	4238	855	284	135854098	135867083	1	None	None
1	SZRD1	ENSG00000055070	ENST00000475078	processed_transcript	KNOWN	None	30232	None	None	16679070	16719850	1	C1orf144	DKFZp566C0424
1	SZRD1	ENSG00000055070	ENST00000401088	protein_coding	KNOWN	CCDS44065	30232	459	152	16693578	16724637	1	C1orf144	DKFZp566C0424
1	SZRD1	ENSG00000055070	ENST00000471507	protein_coding	NOVEL	None	30232	456	151	16693583	16721901	1	C1orf144	DKFZp566C0424
1	SZRD1	ENSG00000055070	ENST00000401089	protein_coding	NOVEL	None	30232	402	133	16693720	16724640	1	C1orf144	DKFZp566C0424
1	SZRD1	ENSG00000055070	ENST00000486763	processed_transcript	KNOWN	None	30232	None	None	16693730	16721634	1	C1orf144	DKFZp566C0424
1	SZRD1	ENSG00000055070	ENST00000476423	nonsense_mediated_decay	KNOWN	None	30232	255	84	16693738	16719880	1	C1orf144	DKFZp566C0424
1	SZRD1	ENSG00000055070	ENST00000475554	processed_transcript	KNOWN	None	30232	None	None	16693738	16721667	1	C1orf144	DKFZp566C0424
1	SZRD1	ENSG00000055070	ENST00000472351	processed_transcript	KNOWN	None	30232	None	None	16693742	16721885	1	C1orf144	DKFZp566C0424
1	SZRD1	ENSG00000055070	ENST00000492354	protein_coding	NOVEL	None	30232	399	132	16693760	16724637	1	C1orf144	DKFZp566C0424
1	SZRD1	ENSG00000055070	ENST00000472461	processed_transcript	KNOWN	None	30232	None	None	16694206	16721768	1	C1orf144	DKFZp566C0424
1	SZRD1	ENSG00000055070	ENST00000375590	protein_coding	KNOWN	None	30232	477	158	16693738	16722607	1	C1orf144	DKFZp566C0424
4	None	ENSG00000250906	ENST00000513127	antisense	KNOWN	None	None	None	None	40814796	40828168	1	None	None
19	None	ENSG00000268056	ENST00000597216	antisense	KNOWN	None	None	None	None	17263398	17278857	-1	None	None
19	None	ENSG00000268056	ENST00000599360	antisense	KNOWN	None	None	None	None	17263426	17278861	-1	None	None
11	None	ENSG00000255337	ENST00000528717	antisense	KNOWN	None	None	None	None	102323650	102332739	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000257361	ENST00000549093	pseudogene	NOVEL	None	None	None	None	32750766	32751623	-1	None	None
8	None	ENSG00000253181	ENST00000523507	antisense	KNOWN	None	None	None	None	37575097	37591274	1	None	None
2	SNORA41	ENSG00000207406	ENST00000384675	snoRNA	KNOWN	None	32634	None	None	207026952	207027083	1	None	ACA41
12	None	ENSG00000257042	ENST00000538113	antisense	KNOWN	None	None	None	None	28111450	28122746	1	None	None
7	TRGV2	ENSG00000233306	ENST00000426402	TR_V_gene	KNOWN	None	12287	354	117	38402465	38403119	-1	TCRGV2	VIS2
8	None	ENSG00000254177	ENST00000519107	lincRNA	KNOWN	None	None	None	None	81970758	81979979	1	None	None
HSCHR15_1_CTG4	None	ENSG00000270043	ENST00000602902	misc_RNA	NOVEL	None	None	None	None	28632285	28632589	1	None	None
12	RN7SL380P	ENSG00000244532	ENST00000461702	misc_RNA	KNOWN	None	46396	None	None	6893020	6893327	-1	None	None
12	SLC15A5	ENSG00000188991	ENST00000344941	protein_coding	NOVEL	None	33455	1740	579	16341419	16430619	-1	None	None
18	None	ENSG00000267286	ENST00000593121	lincRNA	KNOWN	None	None	None	None	13183401	13185616	-1	None	None
5	MARK2P11	ENSG00000253743	ENST00000518523	unprocessed_pseudogene	KNOWN	None	39802	None	None	157411666	157416998	-1	None	None
2	RN7SKP200	ENSG00000222496	ENST00000410564	misc_RNA	KNOWN	None	45924	None	None	207086039	207086358	1	None	None
HSCHR15_1_CTG4	None	ENSG00000263579	ENST00000578988	miRNA	NOVEL	None	None	None	None	28633480	28633562	1	None	None
4	None	ENSG00000207195	ENST00000384466	misc_RNA	NOVEL	None	None	None	None	40828672	40828782	-1	None	None
12	None	ENSG00000247934	ENST00000473753	antisense	KNOWN	None	None	None	None	28316231	28343299	-1	None	None
2	None	ENSG00000159186	ENST00000445875	processed_pseudogene	KNOWN	None	None	None	None	207100960	207101595	-1	None	None
HSCHR15_1_CTG4	None	ENSG00000262627	ENST00000577130	processed_pseudogene	KNOWN	None	None	None	None	28647912	28650069	1	None	None
4	None	ENSG00000238351	ENST00000459305	snoRNA	NOVEL	None	None	None	None	40870886	40870987	-1	None	None
5	None	ENSG00000249490	ENST00000504244	lincRNA	KNOWN	None	None	None	None	20612734	20614874	-1	None	None
1	None	ENSG00000233399	ENST00000445180	lincRNA	KNOWN	None	None	None	None	30486799	30510459	-1	None	None
11	None	ENSG00000232500	ENST00000444862	lincRNA	KNOWN	None	None	None	None	64268325	64272858	1	None	None
HG7_PATCH	TRBV20-1	ENSG00000260050	ENST00000563174	TR_V_gene	KNOWN	None	12196	335	110	142368231	142368981	1	None	TRBV201, TCRBV20S1, TCRBV2S1
4	RNA5SP160	ENSG00000201736	ENST00000364866	rRNA	KNOWN	None	43060	None	None	40992171	40992290	1	RN5S160	None
HSCHR6_MHC_COX	OR2H5P	ENSG00000226796	ENST00000419298	unprocessed_pseudogene	KNOWN	None	8256	None	None	29538291	29539218	1	None	OR2H5, hs6M1-13, HS271M21
18	None	ENSG00000267239	ENST00000586278	antisense	KNOWN	None	None	None	None	13203773	13216366	-1	None	None
18	None	ENSG00000267239	ENST00000589601	antisense	KNOWN	None	None	None	None	13214082	13216324	-1	None	None
1	FCRL6	ENSG00000181036	ENST00000540741	retained_intron	KNOWN	None	31910	None	None	159770301	159779069	1	None	IFGP6, FLJ16056, FcRH6
1	FCRL6	ENSG00000181036	ENST00000536257	protein_coding	NOVEL	None	31910	474	157	159770302	159779212	1	None	IFGP6, FLJ16056, FcRH6
1	FCRL6	ENSG00000181036	ENST00000321935	protein_coding	NOVEL	None	31910	1242	413	159770302	159786041	1	None	IFGP6, FLJ16056, FcRH6
1	FCRL6	ENSG00000181036	ENST00000541729	retained_intron	KNOWN	None	31910	None	None	159770336	159778438	1	None	IFGP6, FLJ16056, FcRH6
1	FCRL6	ENSG00000181036	ENST00000339348	protein_coding	KNOWN	None	31910	1194	397	159772207	159785592	1	None	IFGP6, FLJ16056, FcRH6
1	FCRL6	ENSG00000181036	ENST00000392235	protein_coding	KNOWN	None	31910	936	311	159772214	159785382	1	None	IFGP6, FLJ16056, FcRH6
1	FCRL6	ENSG00000181036	ENST00000368106	protein_coding	KNOWN	CCDS30912	31910	1305	434	159772214	159785451	1	None	IFGP6, FLJ16056, FcRH6
11	None	ENSG00000256916	ENST00000544115	antisense	KNOWN	None	None	None	None	102477647	102478853	1	None	None
11	None	ENSG00000256916	ENST00000542119	antisense	KNOWN	None	None	None	None	102478098	102498801	1	None	None
12	RPL13P5	ENSG00000240370	ENST00000412023	processed_transcript	KNOWN	None	30363	None	None	6982553	6993780	1	RPL13L	RPL13-2
12	RPL13P5	ENSG00000240370	ENST00000451612	processed_transcript	KNOWN	None	30363	None	None	6982643	6993602	1	RPL13L	RPL13-2
12	RPL13P5	ENSG00000240370	ENST00000274820	processed_transcript	KNOWN	None	30363	None	None	6982817	6984886	1	RPL13L	RPL13-2
12	RPL13P5	ENSG00000240370	ENST00000421824	processed_transcript	KNOWN	None	30363	None	None	6982820	6993905	1	RPL13L	RPL13-2
12	RPL13P5	ENSG00000240370	ENST00000441655	transcribed_processed_pseudogene	KNOWN	None	30363	None	None	6993160	6993777	1	RPL13L	RPL13-2
4	RNU6-836P	ENSG00000199790	ENST00000362920	snRNA	KNOWN	None	47799	None	None	41086624	41086730	1	None	None
HSCHR15_1_CTG4	None	ENSG00000265006	ENST00000580167	miRNA	NOVEL	None	None	None	None	28682937	28683030	1	None	None
5	None	ENSG00000248308	ENST00000515431	processed_pseudogene	KNOWN	None	None	None	None	20830275	20831056	-1	None	None
X	None	ENSG00000264120	ENST00000582865	miRNA	NOVEL	None	None	None	None	151125155	151125250	-1	None	None
X	MIR1298	ENSG00000221710	ENST00000408783	miRNA	KNOWN	None	35258	None	None	113949650	113949761	1	MIRN1298	hsa-mir-1298
3	None	ENSG00000242618	ENST00000491567	lincRNA	KNOWN	None	None	None	None	72252095	72259043	-1	None	None
2	HMGN1P6	ENSG00000224070	ENST00000438508	processed_pseudogene	KNOWN	None	39349	None	None	207124352	207124642	-1	None	None
3	SEMA3B	ENSG00000012171	ENST00000419213	processed_transcript	KNOWN	None	10724	None	None	50304990	50308889	1	SEMAA	SemA, semaV, LUCA-1, sema5
3	SEMA3B	ENSG00000012171	ENST00000454939	retained_intron	KNOWN	None	10724	None	None	50306306	50314570	1	SEMAA	SemA, semaV, LUCA-1, sema5
3	SEMA3B	ENSG00000012171	ENST00000418948	processed_transcript	KNOWN	None	10724	None	None	50306438	50314610	1	SEMAA	SemA, semaV, LUCA-1, sema5
3	SEMA3B	ENSG00000012171	ENST00000454314	retained_intron	KNOWN	None	10724	None	None	50306597	50311111	1	SEMAA	SemA, semaV, LUCA-1, sema5
3	SEMA3B	ENSG00000012171	ENST00000426144	processed_transcript	KNOWN	None	10724	None	None	50306646	50314137	1	SEMAA	SemA, semaV, LUCA-1, sema5
3	SEMA3B	ENSG00000012171	ENST00000441915	retained_intron	KNOWN	None	10724	None	None	50307992	50314601	1	SEMAA	SemA, semaV, LUCA-1, sema5
3	SEMA3B	ENSG00000012171	ENST00000456560	processed_transcript	KNOWN	None	10724	None	None	50310550	50314596	1	SEMAA	SemA, semaV, LUCA-1, sema5
3	SEMA3B	ENSG00000012171	ENST00000439487	retained_intron	KNOWN	None	10724	None	None	50310561	50311961	1	SEMAA	SemA, semaV, LUCA-1, sema5
3	SEMA3B	ENSG00000012171	ENST00000434030	retained_intron	KNOWN	None	10724	None	None	50310583	50311771	1	SEMAA	SemA, semaV, LUCA-1, sema5
3	SEMA3B	ENSG00000012171	ENST00000456210	processed_transcript	KNOWN	None	10724	None	None	50310588	50314977	1	SEMAA	SemA, semaV, LUCA-1, sema5
3	SEMA3B	ENSG00000012171	ENST00000418576	processed_transcript	KNOWN	None	10724	None	None	50310591	50314307	1	SEMAA	SemA, semaV, LUCA-1, sema5
3	SEMA3B	ENSG00000012171	ENST00000419007	retained_intron	KNOWN	None	10724	None	None	50310777	50314592	1	SEMAA	SemA, semaV, LUCA-1, sema5
3	SEMA3B	ENSG00000012171	ENST00000433753	processed_transcript	KNOWN	None	10724	None	None	50310956	50313040	1	SEMAA	SemA, semaV, LUCA-1, sema5
3	SEMA3B	ENSG00000012171	ENST00000416295	retained_intron	KNOWN	None	10724	None	None	50312065	50313875	1	SEMAA	SemA, semaV, LUCA-1, sema5
3	SEMA3B	ENSG00000012171	ENST00000316347	processed_transcript	KNOWN	None	10724	None	None	50305040	50314570	1	SEMAA	SemA, semaV, LUCA-1, sema5
3	SEMA3B	ENSG00000012171	ENST00000414456	processed_transcript	KNOWN	None	10724	None	None	50306617	50314570	1	SEMAA	SemA, semaV, LUCA-1, sema5
4	RNU6-1195P	ENSG00000207198	ENST00000384469	snRNA	KNOWN	None	48158	None	None	41115959	41116062	1	None	None
10	YME1L1	ENSG00000136758	ENST00000326799	protein_coding	KNOWN	CCDS7152	12843	2322	773	27399383	27443288	-1	None	None
10	YME1L1	ENSG00000136758	ENST00000376016	protein_coding	KNOWN	CCDS7151	12843	2151	716	27399383	27443321	-1	None	None
10	YME1L1	ENSG00000136758	ENST00000463270	processed_transcript	KNOWN	None	12843	None	None	27412476	27425266	-1	None	None
10	YME1L1	ENSG00000136758	ENST00000491542	protein_coding	NOVEL	None	12843	730	242	27412476	27443321	-1	None	None
10	YME1L1	ENSG00000136758	ENST00000427324	protein_coding	KNOWN	None	12843	759	252	27420788	27443155	-1	None	None
10	YME1L1	ENSG00000136758	ENST00000396296	protein_coding	KNOWN	None	12843	746	247	27422973	27443300	-1	None	None
10	YME1L1	ENSG00000136758	ENST00000477432	protein_coding	PUTATIVE	None	12843	411	136	27434348	27444195	-1	None	None
10	YME1L1	ENSG00000136758	ENST00000375972	protein_coding	KNOWN	CCDS58072	12843	2052	683	27400663	27443313	-1	None	None
2	None	ENSG00000236549	ENST00000422792	processed_pseudogene	KNOWN	None	None	None	None	48110594	48111048	1	None	None
2	None	ENSG00000268556	ENST00000595481	protein_coding	NOVEL	None	None	30	9	105867759	105869601	1	None	None
14	None	ENSG00000199755	ENST00000362885	misc_RNA	NOVEL	None	None	None	None	67806785	67806893	1	None	None
HSCHR15_1_CTG4	None	ENSG00000262353	ENST00000574869	unprocessed_pseudogene	KNOWN	None	None	None	None	28711609	28714548	-1	None	None
2	None	ENSG00000230747	ENST00000421534	antisense	KNOWN	None	None	None	None	96973001	96987469	-1	None	None
5	SSBP2	ENSG00000145687	ENST00000320672	protein_coding	KNOWN	CCDS4056	15831	1086	361	80708840	81047072	-1	None	HSPC116
5	SSBP2	ENSG00000145687	ENST00000509053	protein_coding	NOVEL	CCDS58960	15831	897	298	80715692	81046867	-1	None	HSPC116
5	SSBP2	ENSG00000145687	ENST00000514493	protein_coding	NOVEL	CCDS58961	15831	996	331	80715737	81047069	-1	None	HSPC116
5	SSBP2	ENSG00000145687	ENST00000504985	protein_coding	NOVEL	None	15831	828	275	80715755	80809536	-1	None	HSPC116
5	SSBP2	ENSG00000145687	ENST00000512923	protein_coding	NOVEL	None	15831	795	264	80715782	80809536	-1	None	HSPC116
5	SSBP2	ENSG00000145687	ENST00000510060	processed_transcript	KNOWN	None	15831	None	None	80715798	80743882	-1	None	HSPC116
5	SSBP2	ENSG00000145687	ENST00000505980	protein_coding	NOVEL	CCDS58963	15831	1026	341	80715833	81046866	-1	None	HSPC116
5	SSBP2	ENSG00000145687	ENST00000515395	protein_coding	NOVEL	CCDS58962	15831	1020	339	80716000	81046916	-1	None	HSPC116
5	SSBP2	ENSG00000145687	ENST00000513785	retained_intron	KNOWN	None	15831	None	None	80716107	80733649	-1	None	HSPC116
5	SSBP2	ENSG00000145687	ENST00000504136	retained_intron	KNOWN	None	15831	None	None	80716254	80739092	-1	None	HSPC116
5	SSBP2	ENSG00000145687	ENST00000509743	processed_transcript	KNOWN	None	15831	None	None	80738470	80912292	-1	None	HSPC116
5	SSBP2	ENSG00000145687	ENST00000507655	processed_transcript	KNOWN	None	15831	None	None	80742688	81047616	-1	None	HSPC116
5	SSBP2	ENSG00000145687	ENST00000507472	processed_transcript	KNOWN	None	15831	None	None	80762792	81046939	-1	None	HSPC116
5	SSBP2	ENSG00000145687	ENST00000509013	protein_coding	PUTATIVE	None	15831	626	207	80762793	81046841	-1	None	HSPC116
5	SSBP2	ENSG00000145687	ENST00000504174	processed_transcript	KNOWN	None	15831	None	None	80762836	81046720	-1	None	HSPC116
5	SSBP2	ENSG00000145687	ENST00000512098	processed_transcript	KNOWN	None	15831	None	None	80769519	81046576	-1	None	HSPC116
5	SSBP2	ENSG00000145687	ENST00000506960	retained_intron	KNOWN	None	15831	None	None	80910875	81046847	-1	None	HSPC116
5	SSBP2	ENSG00000145687	ENST00000507968	processed_transcript	KNOWN	None	15831	None	None	80911305	80912404	-1	None	HSPC116
5	SSBP2	ENSG00000145687	ENST00000508912	retained_intron	KNOWN	None	15831	None	None	80932291	81046835	-1	None	HSPC116
HG7_PATCH	TRBV23-1	ENSG00000260076	ENST00000564695	TR_V_gene	KNOWN	None	12201	347	114	142387533	142388029	1	None	TRBV231, TCRBV19S1P, TCRBV23S1
X	MIR224	ENSG00000207621	ENST00000384889	miRNA	KNOWN	None	31604	None	None	151127050	151127130	-1	MIRN224	hsa-mir-224
2	RN7SKP260	ENSG00000252716	ENST00000516907	misc_RNA	KNOWN	None	45984	None	None	207124790	207124938	-1	None	None
4	UCHL1-AS1	ENSG00000251173	ENST00000507190	antisense	KNOWN	None	40600	None	None	41222091	41258744	-1	None	None
4	UCHL1-AS1	ENSG00000251173	ENST00000510073	antisense	KNOWN	None	40600	None	None	41255900	41258738	-1	None	None
18	None	ENSG00000267177	ENST00000592655	antisense	KNOWN	None	None	None	None	13234944	13236469	-1	None	None
10	None	ENSG00000239130	ENST00000459622	snoRNA	NOVEL	None	None	None	None	15928357	15928464	1	None	None
1	None	ENSG00000233372	ENST00000441046	lincRNA	PUTATIVE	None	None	None	None	30613110	30614454	1	None	None
5	None	ENSG00000248286	ENST00000502928	processed_pseudogene	KNOWN	None	None	None	None	21196829	21196969	1	None	None
2	None	ENSG00000180105	ENST00000420063	processed_pseudogene	KNOWN	None	None	None	None	207274811	207275633	-1	None	None
4	RN7SL552P	ENSG00000239466	ENST00000462094	misc_RNA	KNOWN	None	46568	None	None	85608881	85609171	-1	None	None
14	MIR5694	ENSG00000265993	ENST00000581190	miRNA	KNOWN	None	43530	None	None	67908572	67908647	-1	None	hsa-mir-5694
8	FAM90A14P	ENSG00000189393	ENST00000530386	unprocessed_pseudogene	KNOWN	None	32262	None	None	7572965	7575975	1	FAM90A14	None
18	None	ENSG00000267393	ENST00000588204	antisense	KNOWN	None	None	None	None	13362202	13366242	-1	None	None
HSCHR15_1_CTG4	None	ENSG00000262733	ENST00000572885	processed_pseudogene	KNOWN	None	None	None	None	28730092	28730212	-1	None	None
12	None	ENSG00000255951	ENST00000457963	processed_pseudogene	KNOWN	None	None	None	None	28317891	28318595	1	None	None
2	HNRNPA1P51	ENSG00000234491	ENST00000450405	processed_pseudogene	KNOWN	None	48781	None	None	207284016	207284962	-1	None	None
4	WDFY3-AS1	ENSG00000251260	ENST00000510449	antisense	KNOWN	None	40935	None	None	85724411	85731544	1	None	None
1	None	ENSG00000231251	ENST00000442774	processed_pseudogene	KNOWN	None	None	None	None	30699370	30699462	1	None	None
17	None	ENSG00000263860	ENST00000579378	lincRNA	KNOWN	None	None	None	None	28877511	28878207	-1	None	None
15	CASC5	ENSG00000137812	ENST00000346991	protein_coding	KNOWN	CCDS42023	24054	7029	2342	40886218	40956540	1	None	D40, AF15Q14, CT29, hKNL-1, KNL1, hSpc105, PPP1R55, Spc7
15	CASC5	ENSG00000137812	ENST00000528975	protein_coding	PUTATIVE	None	24054	23	6	40886232	40902487	1	None	D40, AF15Q14, CT29, hKNL-1, KNL1, hSpc105, PPP1R55, Spc7
15	CASC5	ENSG00000137812	ENST00000527044	protein_coding	PUTATIVE	None	24054	342	113	40886233	40915357	1	None	D40, AF15Q14, CT29, hKNL-1, KNL1, hSpc105, PPP1R55, Spc7
15	CASC5	ENSG00000137812	ENST00000532056	protein_coding	PUTATIVE	None	24054	31	9	40886447	40902495	1	None	D40, AF15Q14, CT29, hKNL-1, KNL1, hSpc105, PPP1R55, Spc7
15	CASC5	ENSG00000137812	ENST00000399668	protein_coding	KNOWN	CCDS42024	24054	6951	2316	40886447	40954881	1	None	D40, AF15Q14, CT29, hKNL-1, KNL1, hSpc105, PPP1R55, Spc7
15	CASC5	ENSG00000137812	ENST00000533001	retained_intron	KNOWN	None	24054	None	None	40886463	40918240	1	None	D40, AF15Q14, CT29, hKNL-1, KNL1, hSpc105, PPP1R55, Spc7
15	CASC5	ENSG00000137812	ENST00000534204	nonsense_mediated_decay	KNOWN	None	24054	243	80	40886470	40937910	1	None	D40, AF15Q14, CT29, hKNL-1, KNL1, hSpc105, PPP1R55, Spc7
15	CASC5	ENSG00000137812	ENST00000526913	nonsense_mediated_decay	KNOWN	None	24054	4084	1360	40915330	40956537	1	None	D40, AF15Q14, CT29, hKNL-1, KNL1, hSpc105, PPP1R55, Spc7
15	CASC5	ENSG00000137812	ENST00000532406	protein_coding	NOVEL	None	24054	579	192	40920272	40939236	1	None	D40, AF15Q14, CT29, hKNL-1, KNL1, hSpc105, PPP1R55, Spc7
15	CASC5	ENSG00000137812	ENST00000528967	retained_intron	KNOWN	None	24054	None	None	40939084	40942563	1	None	D40, AF15Q14, CT29, hKNL-1, KNL1, hSpc105, PPP1R55, Spc7
15	CASC5	ENSG00000137812	ENST00000532347	retained_intron	KNOWN	None	24054	None	None	40942325	40947175	1	None	D40, AF15Q14, CT29, hKNL-1, KNL1, hSpc105, PPP1R55, Spc7
15	CASC5	ENSG00000137812	ENST00000531626	processed_transcript	PUTATIVE	None	24054	None	None	40954771	40956102	1	None	D40, AF15Q14, CT29, hKNL-1, KNL1, hSpc105, PPP1R55, Spc7
8	None	ENSG00000233170	ENST00000521192	processed_pseudogene	KNOWN	None	None	None	None	37604856	37605522	-1	None	None
8	None	ENSG00000233170	ENST00000453751	processed_pseudogene	KNOWN	None	None	None	None	37604854	37605522	-1	None	None
13	RPS3AP44	ENSG00000234031	ENST00000425466	processed_pseudogene	KNOWN	None	36761	None	None	27151023	27151812	1	None	None
4	None	ENSG00000207481	ENST00000384750	misc_RNA	NOVEL	None	None	None	None	41305254	41305354	-1	None	None
5	None	ENSG00000248359	ENST00000515199	lincRNA	KNOWN	None	None	None	None	67827517	67829357	-1	None	None
2	NEURL3	ENSG00000163121	ENST00000310865	processed_transcript	KNOWN	None	25162	None	None	97163383	97171082	-1	None	Lincr, LOC93082
2	NEURL3	ENSG00000163121	ENST00000435380	processed_transcript	KNOWN	None	25162	None	None	97163383	97173846	-1	None	Lincr, LOC93082
2	NEURL3	ENSG00000163121	ENST00000444588	transcribed_unprocessed_pseudogene	KNOWN	None	25162	None	None	97163987	97166661	-1	None	Lincr, LOC93082
2	NEURL3	ENSG00000163121	ENST00000451794	unprocessed_pseudogene	KNOWN	None	25162	None	None	97163385	97171023	-1	None	Lincr, LOC93082
GL000193.1	None	ENSG00000215689	ENST00000400767	protein_coding	NOVEL	None	None	165	54	49252	88375	-1	None	None
4	RNU6-469P	ENSG00000252062	ENST00000516253	snRNA	KNOWN	None	47432	None	None	85807539	85807639	-1	None	None
1	None	ENSG00000236335	ENST00000427319	lincRNA	KNOWN	None	None	None	None	30882407	30884485	-1	None	None
12	RPL39P28	ENSG00000244432	ENST00000465655	processed_pseudogene	KNOWN	None	35619	None	None	68395174	68395328	-1	None	None
4	None	ENSG00000239627	ENST00000475538	processed_pseudogene	KNOWN	None	None	None	None	41391132	41391610	1	None	None
5	None	ENSG00000249335	ENST00000503268	lincRNA	KNOWN	None	None	None	None	68128412	68257985	-1	None	None
17	None	ENSG00000264242	ENST00000578471	unprocessed_pseudogene	KNOWN	None	None	None	None	28880715	28885980	1	None	None
1	None	ENSG00000231949	ENST00000420354	lincRNA	KNOWN	None	None	None	None	30888672	30893955	1	None	None
3	RNU6-905P	ENSG00000207163	ENST00000384434	snRNA	KNOWN	None	47868	None	None	14572489	14572595	-1	None	None
5	VWA8P1	ENSG00000250289	ENST00000510889	processed_pseudogene	KNOWN	None	44271	None	None	68150737	68150912	-1	None	None
12	HNRNPA1P70	ENSG00000236946	ENST00000420836	processed_pseudogene	KNOWN	None	48800	None	None	68429547	68430633	1	None	None
HSCHR15_1_CTG4	MIR4509-2	ENSG00000264457	ENST00000582207	miRNA	KNOWN	None	41537	None	None	28747518	28747611	-1	None	hsa-mir-4509-2
HSCHR15_1_CTG4	MIR4509-3	ENSG00000264457	ENST00000582207	miRNA	KNOWN	None	41610	None	None	28747518	28747611	-1	None	hsa-mir-4509-3
HSCHR15_1_CTG4	MIR4509-1	ENSG00000264457	ENST00000582207	miRNA	KNOWN	None	41860	None	None	28747518	28747611	-1	None	hsa-mir-4509-1
2	None	ENSG00000228577	ENST00000415275	antisense	KNOWN	None	None	None	None	207471221	207474536	-1	None	None
15	None	ENSG00000271236	ENST00000604285	processed_pseudogene	KNOWN	None	None	None	None	41052795	41053072	1	None	None
17	DCAKD	ENSG00000172992	ENST00000452796	protein_coding	KNOWN	CCDS11493	26238	696	231	43100708	43112509	-1	None	FLJ22955
17	DCAKD	ENSG00000172992	ENST00000342350	protein_coding	KNOWN	CCDS11493	26238	696	231	43100712	43138386	-1	None	FLJ22955
17	DCAKD	ENSG00000172992	ENST00000588499	protein_coding	KNOWN	CCDS11493	26238	696	231	43101679	43128978	-1	None	FLJ22955
17	DCAKD	ENSG00000172992	ENST00000593094	protein_coding	KNOWN	None	26238	627	208	43101870	43128987	-1	None	FLJ22955
17	DCAKD	ENSG00000172992	ENST00000592902	processed_transcript	KNOWN	None	26238	None	None	43109412	43112257	-1	None	FLJ22955
17	DCAKD	ENSG00000172992	ENST00000588295	processed_transcript	KNOWN	None	26238	None	None	43111223	43129029	-1	None	FLJ22955
17	DCAKD	ENSG00000172992	ENST00000310604	protein_coding	KNOWN	None	26238	399	132	43111328	43138473	-1	None	FLJ22955
4	None	ENSG00000249216	ENST00000506475	antisense	KNOWN	None	None	None	None	41690875	41694814	-1	None	None
5	None	ENSG00000212249	ENST00000390947	snoRNA	NOVEL	None	None	None	None	68169781	68169914	1	None	None
3	RHBDF1P1	ENSG00000234123	ENST00000427504	processed_pseudogene	KNOWN	None	44499	None	None	14614359	14616299	-1	None	None
11	None	ENSG00000237363	ENST00000446065	unprocessed_pseudogene	KNOWN	None	None	None	None	64298516	64300442	1	None	None
2	TGFBRAP1	ENSG00000135966	ENST00000393359	protein_coding	KNOWN	CCDS2067	16836	2583	860	105880871	105946491	-1	None	TRAP-1, TRAP1
2	TGFBRAP1	ENSG00000135966	ENST00000258449	protein_coding	KNOWN	CCDS2067	16836	2583	860	105883542	105924778	-1	None	TRAP-1, TRAP1
16	ABCC1	ENSG00000103222	ENST00000399410	protein_coding	KNOWN	CCDS42122	51	4596	1531	16043434	16236919	1	MRP, MRP1	GS-X
16	ABCC1	ENSG00000103222	ENST00000572882	protein_coding	NOVEL	None	51	4321	1439	16103713	16235382	1	MRP, MRP1	GS-X
16	ABCC1	ENSG00000103222	ENST00000574224	retained_intron	KNOWN	None	51	None	None	16108397	16150418	1	MRP, MRP1	GS-X
16	ABCC1	ENSG00000103222	ENST00000575422	retained_intron	KNOWN	None	51	None	None	16170031	16205318	1	MRP, MRP1	GS-X
16	ABCC1	ENSG00000103222	ENST00000576557	processed_transcript	KNOWN	None	51	None	None	16191849	16200725	1	MRP, MRP1	GS-X
16	ABCC1	ENSG00000103222	ENST00000572053	nonsense_mediated_decay	KNOWN	None	51	69	22	16196540	16208926	1	MRP, MRP1	GS-X
16	ABCC1	ENSG00000103222	ENST00000574761	retained_intron	KNOWN	None	51	None	None	16200383	16215960	1	MRP, MRP1	GS-X
16	ABCC1	ENSG00000103222	ENST00000399408	protein_coding	KNOWN	None	51	4626	1541	16043434	16236931	1	MRP, MRP1	GS-X
16	ABCC1	ENSG00000103222	ENST00000346370	protein_coding	KNOWN	None	51	4428	1475	16043434	16236931	1	MRP, MRP1	GS-X
16	ABCC1	ENSG00000103222	ENST00000351154	protein_coding	KNOWN	None	51	4419	1472	16043434	16236931	1	MRP, MRP1	GS-X
16	ABCC1	ENSG00000103222	ENST00000345148	protein_coding	KNOWN	None	51	4401	1466	16043434	16236931	1	MRP, MRP1	GS-X
16	ABCC1	ENSG00000103222	ENST00000349029	protein_coding	KNOWN	None	51	4251	1416	16043434	16236931	1	MRP, MRP1	GS-X
GL000193.1	None	ENSG00000229510	ENST00000421727	protein_coding	NOVEL	None	None	81	26	86545	86855	-1	None	None
5	None	ENSG00000250066	ENST00000513197	lincRNA	KNOWN	None	None	None	None	68259073	68263672	1	None	None
6	SLC18B1	ENSG00000146409	ENST00000275227	protein_coding	KNOWN	CCDS5163	21573	1371	456	133090509	133119692	-1	C6orf192	dJ55C23.6
6	SLC18B1	ENSG00000146409	ENST00000367918	protein_coding	KNOWN	None	21573	324	107	133095381	133119661	-1	C6orf192	dJ55C23.6
6	SLC18B1	ENSG00000146409	ENST00000460518	processed_transcript	KNOWN	None	21573	None	None	133108616	133118260	-1	C6orf192	dJ55C23.6
6	SLC18B1	ENSG00000146409	ENST00000538764	protein_coding	KNOWN	None	21573	711	236	133093554	133119701	-1	C6orf192	dJ55C23.6
3	None	ENSG00000212070	ENST00000390781	miRNA	NOVEL	None	None	None	None	72311473	72311579	-1	None	None
12	BLOC1S1	ENSG00000135441	ENST00000548925	protein_coding	KNOWN	CCDS8889	4200	462	153	56109821	56113487	1	GCN5L1	BLOS1
12	BLOC1S1	ENSG00000135441	ENST00000549147	protein_coding	PUTATIVE	None	4200	429	142	56109822	56113871	1	GCN5L1	BLOS1
12	BLOC1S1	ENSG00000135441	ENST00000553100	nonsense_mediated_decay	KNOWN	None	4200	136	44	56109865	56113454	1	GCN5L1	BLOS1
12	BLOC1S1	ENSG00000135441	ENST00000547076	protein_coding	PUTATIVE	None	4200	228	75	56110076	56113487	1	GCN5L1	BLOS1
12	BLOC1S1	ENSG00000135441	ENST00000551926	protein_coding	PUTATIVE	None	4200	195	64	56110297	56113127	1	GCN5L1	BLOS1
12	BLOC1S1	ENSG00000135441	ENST00000548556	protein_coding	PUTATIVE	None	4200	228	75	56110315	56113487	1	GCN5L1	BLOS1
12	BLOC1S1	ENSG00000135441	ENST00000257899	protein_coding	KNOWN	None	4200	378	125	56109820	56113487	1	GCN5L1	BLOS1
2	None	ENSG00000231653	ENST00000415029	antisense	KNOWN	None	None	None	None	207504797	207506006	1	None	None
2	None	ENSG00000233230	ENST00000432064	antisense	KNOWN	None	None	None	None	48132817	48134774	1	None	None
2	None	ENSG00000233230	ENST00000439870	antisense	KNOWN	None	None	None	None	48133221	48134795	1	None	None
2	None	ENSG00000233230	ENST00000417692	antisense	KNOWN	None	None	None	None	48133969	48134949	1	None	None
19	NLRP8	ENSG00000179709	ENST00000291971	protein_coding	KNOWN	CCDS12937	22940	3147	1048	56459198	56499995	1	NALP8	NOD16, PAN4, CLR19.2
19	NLRP8	ENSG00000179709	ENST00000590542	protein_coding	KNOWN	None	22940	3090	1029	56459269	56499279	1	NALP8	NOD16, PAN4, CLR19.2
4	WDFY3-AS2	ENSG00000180769	ENST00000451762	processed_transcript	KNOWN	None	21603	None	None	85887538	85932430	1	C4orf12, NCRNA00247	FBI4
4	WDFY3-AS2	ENSG00000180769	ENST00000318186	processed_transcript	KNOWN	None	21603	None	None	85887946	85928168	1	C4orf12, NCRNA00247	FBI4
4	OR5M14P	ENSG00000249081	ENST00000506803	unprocessed_pseudogene	KNOWN	None	15057	None	None	41724555	41725529	-1	OR5M15P	None
1	MATN1-AS1	ENSG00000186056	ENST00000414532	antisense	KNOWN	None	40364	None	None	31191351	31199591	1	None	None
1	MATN1-AS1	ENSG00000186056	ENST00000454613	antisense	KNOWN	None	40364	None	None	31191619	31199674	1	None	None
1	MATN1-AS1	ENSG00000186056	ENST00000414763	antisense	KNOWN	None	40364	None	None	31191629	31194570	1	None	None
1	MATN1-AS1	ENSG00000186056	ENST00000443076	antisense	KNOWN	None	40364	None	None	31198567	31199211	1	None	None
3	None	ENSG00000260670	ENST00000570082	lincRNA	KNOWN	None	None	None	None	72370202	72373178	-1	None	None
HSCHR15_1_CTG4	ABCB10P4	ENSG00000262250	ENST00000572620	processed_pseudogene	KNOWN	None	31130	None	None	28763390	28765572	-1	None	None
11	WTAPP1	ENSG00000255282	ENST00000371455	processed_transcript	PUTATIVE	None	44115	None	None	102617699	102702242	1	None	None
11	WTAPP1	ENSG00000255282	ENST00000544820	processed_transcript	PUTATIVE	None	44115	None	None	102617741	102622522	1	None	None
11	WTAPP1	ENSG00000255282	ENST00000525739	processed_transcript	PUTATIVE	None	44115	None	None	102654407	102707497	1	None	None
11	WTAPP1	ENSG00000255282	ENST00000544704	processed_transcript	PUTATIVE	None	44115	None	None	102654452	102702264	1	None	None
11	WTAPP1	ENSG00000255282	ENST00000537774	transcribed_processed_pseudogene	KNOWN	None	44115	None	None	102702434	102702833	1	None	None
11	None	ENSG00000237410	ENST00000433606	antisense	KNOWN	None	None	None	None	64413871	64427153	1	None	None
GL000193.1	None	ENSG00000220823	ENST00000402833	pseudogene	NOVEL	None	None	None	None	92420	92496	-1	None	None
2	None	ENSG00000235118	ENST00000453816	lincRNA	KNOWN	None	None	None	None	207508145	207513571	1	None	None
2	None	ENSG00000235118	ENST00000441223	lincRNA	KNOWN	None	None	None	None	207508951	207513735	1	None	None
2	None	ENSG00000235118	ENST00000543490	lincRNA	KNOWN	None	None	None	None	207507142	207514173	1	None	None
5	None	ENSG00000249352	ENST00000505371	lincRNA	KNOWN	None	None	None	None	68266519	68325754	-1	None	None
5	None	ENSG00000249352	ENST00000504280	lincRNA	KNOWN	None	None	None	None	68322582	68325992	-1	None	None
5	None	ENSG00000249352	ENST00000410830	misc_RNA	KNOWN	None	None	None	None	68266266	68266579	-1	None	None
5	CANX	ENSG00000127022	ENST00000514383	protein_coding	KNOWN	None	1473	432	143	179105629	179135367	1	None	CNX, IP90, P90
5	CANX	ENSG00000127022	ENST00000502296	protein_coding	KNOWN	None	1473	402	133	179125407	179135337	1	None	CNX, IP90, P90
5	CANX	ENSG00000127022	ENST00000504734	protein_coding	KNOWN	CCDS4447	1473	1779	592	179125418	179155908	1	None	CNX, IP90, P90
5	CANX	ENSG00000127022	ENST00000247461	protein_coding	KNOWN	CCDS4447	1473	1779	592	179125907	179157926	1	None	CNX, IP90, P90
5	CANX	ENSG00000127022	ENST00000452673	protein_coding	KNOWN	CCDS4447	1473	1779	592	179125907	179157926	1	None	CNX, IP90, P90
5	CANX	ENSG00000127022	ENST00000502498	protein_coding	KNOWN	None	1473	505	167	179125945	179136037	1	None	CNX, IP90, P90
5	CANX	ENSG00000127022	ENST00000507307	protein_coding	KNOWN	None	1473	236	77	179125957	179133323	1	None	CNX, IP90, P90
5	CANX	ENSG00000127022	ENST00000504579	nonsense_mediated_decay	KNOWN	None	1473	186	61	179125969	179136060	1	None	CNX, IP90, P90
5	CANX	ENSG00000127022	ENST00000513246	protein_coding	KNOWN	None	1473	322	106	179125978	179135257	1	None	CNX, IP90, P90
5	CANX	ENSG00000127022	ENST00000502673	protein_coding	NOVEL	None	1473	924	307	179125978	179147495	1	None	CNX, IP90, P90
5	CANX	ENSG00000127022	ENST00000506654	protein_coding	NOVEL	None	1473	394	130	179125985	179137063	1	None	CNX, IP90, P90
5	CANX	ENSG00000127022	ENST00000514032	nonsense_mediated_decay	KNOWN	None	1473	291	96	179125989	179155683	1	None	CNX, IP90, P90
5	CANX	ENSG00000127022	ENST00000510810	protein_coding	NOVEL	None	1473	511	169	179126027	179136950	1	None	CNX, IP90, P90
5	CANX	ENSG00000127022	ENST00000509563	protein_coding	KNOWN	None	1473	96	31	179127187	179132778	1	None	CNX, IP90, P90
5	CANX	ENSG00000127022	ENST00000503126	processed_transcript	KNOWN	None	1473	None	None	179133308	179143242	1	None	CNX, IP90, P90
5	CANX	ENSG00000127022	ENST00000508787	protein_coding	NOVEL	None	1473	568	188	179135288	179143202	1	None	CNX, IP90, P90
5	CANX	ENSG00000127022	ENST00000506298	retained_intron	KNOWN	None	1473	None	None	179136695	179143282	1	None	CNX, IP90, P90
5	CANX	ENSG00000127022	ENST00000505090	retained_intron	KNOWN	None	1473	None	None	179150479	179153736	1	None	CNX, IP90, P90
5	CANX	ENSG00000127022	ENST00000503303	processed_transcript	PUTATIVE	None	1473	None	None	179153706	179156650	1	None	CNX, IP90, P90
5	CANX	ENSG00000127022	ENST00000415618	protein_coding	KNOWN	None	1473	1884	627	179125428	179155908	1	None	CNX, IP90, P90
5	CANX	ENSG00000127022	ENST00000512607	protein_coding	KNOWN	None	1473	1455	484	179125989	179155683	1	None	CNX, IP90, P90
18	RAX	ENSG00000134438	ENST00000256852	protein_coding	NOVEL	None	18662	315	104	56934267	56940617	-1	None	RX
18	RAX	ENSG00000134438	ENST00000334889	protein_coding	KNOWN	CCDS11972	18662	1041	346	56934267	56940625	-1	None	RX
18	RAX	ENSG00000134438	ENST00000591550	retained_intron	KNOWN	None	18662	None	None	56939650	56940152	-1	None	RX
18	RAX	ENSG00000134438	ENST00000555288	protein_coding	KNOWN	None	18662	222	73	56940217	56941318	-1	None	RX
20	None	ENSG00000269650	ENST00000597622	protein_coding	NOVEL	None	None	66	21	34756461	34758180	-1	None	None
19	GZMM	ENSG00000197540	ENST00000592501	protein_coding	PUTATIVE	None	4712	748	248	544034	549731	1	None	MET1, LMET1
19	GZMM	ENSG00000197540	ENST00000264553	protein_coding	KNOWN	CCDS12031	4712	774	257	544034	549919	1	None	MET1, LMET1
HSCHR6_MHC_APD	FLOT1	ENSG00000223654	ENST00000420604	protein_coding	KNOWN	None	3757	271	89	30703731	30706525	-1	None	None
HSCHR6_MHC_APD	FLOT1	ENSG00000223654	ENST00000463265	retained_intron	KNOWN	None	3757	None	None	30703731	30706525	-1	None	None
3	None	ENSG00000244345	ENST00000478745	lincRNA	KNOWN	None	None	None	None	72553957	72599703	-1	None	None
HSCHR15_1_CTG4	None	ENSG00000266882	ENST00000579353	miRNA	NOVEL	None	None	None	None	28779951	28780033	-1	None	None
17	None	ENSG00000266775	ENST00000582125	antisense	KNOWN	None	None	None	None	28884750	28885520	-1	None	None
GL000193.1	None	ENSG00000255783	ENST00000536753	pseudogene	NOVEL	None	None	None	None	95248	95324	-1	None	None
4	None	ENSG00000250467	ENST00000508038	antisense	KNOWN	None	None	None	None	41750310	41826136	1	None	None
3	NBPF21P	ENSG00000231382	ENST00000425093	unprocessed_pseudogene	KNOWN	None	32001	None	None	36657498	36678949	-1	None	None
11	None	ENSG00000269038	ENST00000594089	lincRNA	KNOWN	None	None	None	None	64546426	64546877	1	None	None
2	None	ENSG00000226473	ENST00000429993	processed_pseudogene	KNOWN	None	None	None	None	48166877	48167357	-1	None	None
3	PCCB	ENSG00000114054	ENST00000251654	protein_coding	KNOWN	CCDS3089	8654	1620	539	135969148	136049011	1	None	None
3	PCCB	ENSG00000114054	ENST00000490504	protein_coding	PUTATIVE	None	8654	1449	482	135969197	136049011	1	None	None
3	PCCB	ENSG00000114054	ENST00000483687	protein_coding	PUTATIVE	None	8654	1563	520	135969197	136049011	1	None	None
3	PCCB	ENSG00000114054	ENST00000468777	protein_coding	PUTATIVE	None	8654	1713	570	135969197	136049011	1	None	None
3	PCCB	ENSG00000114054	ENST00000462637	protein_coding	PUTATIVE	None	8654	1551	516	135969197	136049011	1	None	None
3	PCCB	ENSG00000114054	ENST00000466072	protein_coding	PUTATIVE	None	8654	1680	559	135969197	136049011	1	None	None
3	PCCB	ENSG00000114054	ENST00000484181	nonsense_mediated_decay	KNOWN	None	8654	1218	405	135969197	136049011	1	None	None
3	PCCB	ENSG00000114054	ENST00000482086	protein_coding	PUTATIVE	None	8654	1272	423	135969197	136049011	1	None	None
3	PCCB	ENSG00000114054	ENST00000471595	protein_coding	NOVEL	None	8654	1653	550	135969200	136056737	1	None	None
3	PCCB	ENSG00000114054	ENST00000469217	protein_coding	NOVEL	CCDS54643	8654	1680	559	135969201	136049012	1	None	None
3	PCCB	ENSG00000114054	ENST00000465423	protein_coding	PUTATIVE	None	8654	575	190	135969211	135980852	1	None	None
3	PCCB	ENSG00000114054	ENST00000478469	protein_coding	PUTATIVE	None	8654	912	303	135969217	136056738	1	None	None
3	PCCB	ENSG00000114054	ENST00000474833	processed_transcript	KNOWN	None	8654	None	None	135969233	136046573	1	None	None
3	PCCB	ENSG00000114054	ENST00000462542	protein_coding	PUTATIVE	None	8654	488	161	135970085	136002756	1	None	None
3	PCCB	ENSG00000114054	ENST00000494742	protein_coding	PUTATIVE	None	8654	254	83	135974149	135980867	1	None	None
3	PCCB	ENSG00000114054	ENST00000459873	protein_coding	PUTATIVE	None	8654	401	132	135974160	136002785	1	None	None
3	PCCB	ENSG00000114054	ENST00000475214	retained_intron	KNOWN	None	8654	None	None	135974163	136045935	1	None	None
3	PCCB	ENSG00000114054	ENST00000465176	processed_transcript	KNOWN	None	8654	None	None	135974699	136002743	1	None	None
3	PCCB	ENSG00000114054	ENST00000473073	retained_intron	KNOWN	None	8654	None	None	135978992	136049011	1	None	None
HSCHR15_1_CTG4	None	ENSG00000262127	ENST00000575846	misc_RNA	NOVEL	None	None	None	None	28780919	28781197	-1	None	None
17	None	ENSG00000259928	ENST00000563063	lincRNA	KNOWN	None	None	None	None	28891075	28892594	-1	None	None
12	RNU4-54P	ENSG00000252237	ENST00000516428	snRNA	KNOWN	None	46990	None	None	28472268	28472396	-1	None	None
4	None	ENSG00000249122	ENST00000510602	lincRNA	KNOWN	None	None	None	None	41752362	41759358	1	None	None
3	None	ENSG00000238568	ENST00000459245	snoRNA	NOVEL	None	None	None	None	72622116	72622219	1	None	None
HG388_HG400_PATCH	CRYAB	ENSG00000263007	ENST00000574550	protein_coding	KNOWN	None	2389	528	175	111779288	111782737	-1	CRYA2	HSPB5
HG388_HG400_PATCH	CRYAB	ENSG00000263007	ENST00000576920	protein_coding	PUTATIVE	None	2389	319	105	111779342	111779990	-1	CRYA2	HSPB5
HG388_HG400_PATCH	CRYAB	ENSG00000263007	ENST00000573572	protein_coding	PUTATIVE	None	2389	327	108	111779343	111781467	-1	CRYA2	HSPB5
HG388_HG400_PATCH	CRYAB	ENSG00000263007	ENST00000571265	protein_coding	PUTATIVE	None	2389	327	108	111779343	111781616	-1	CRYA2	HSPB5
HG388_HG400_PATCH	CRYAB	ENSG00000263007	ENST00000572605	protein_coding	KNOWN	None	2389	528	175	111779346	111784572	-1	CRYA2	HSPB5
HG388_HG400_PATCH	CRYAB	ENSG00000263007	ENST00000573313	protein_coding	KNOWN	None	2389	528	175	111779346	111794445	-1	CRYA2	HSPB5
HG388_HG400_PATCH	CRYAB	ENSG00000263007	ENST00000571634	protein_coding	KNOWN	None	2389	528	175	111779352	111782733	-1	CRYA2	HSPB5
HG388_HG400_PATCH	CRYAB	ENSG00000263007	ENST00000576088	protein_coding	KNOWN	None	2389	528	175	111779369	111783920	-1	CRYA2	HSPB5
HG388_HG400_PATCH	CRYAB	ENSG00000263007	ENST00000573284	protein_coding	PUTATIVE	None	2389	325	107	111779489	111781583	-1	CRYA2	HSPB5
HG388_HG400_PATCH	CRYAB	ENSG00000263007	ENST00000576695	protein_coding	KNOWN	None	2389	524	173	111779491	111784070	-1	CRYA2	HSPB5
HG388_HG400_PATCH	CRYAB	ENSG00000263007	ENST00000576663	protein_coding	PUTATIVE	None	2389	320	105	111779494	111781553	-1	CRYA2	HSPB5
HG388_HG400_PATCH	CRYAB	ENSG00000263007	ENST00000574729	protein_coding	KNOWN	None	2389	389	128	111779626	111784302	-1	CRYA2	HSPB5
HG388_HG400_PATCH	CRYAB	ENSG00000263007	ENST00000575699	protein_coding	PUTATIVE	None	2389	468	155	111780485	111782539	-1	CRYA2	HSPB5
HG388_HG400_PATCH	CRYAB	ENSG00000263007	ENST00000572167	protein_coding	KNOWN	None	2389	232	76	111781142	111783650	-1	CRYA2	HSPB5
HG388_HG400_PATCH	CRYAB	ENSG00000263007	ENST00000574757	protein_coding	KNOWN	None	2389	206	67	111781168	111783936	-1	CRYA2	HSPB5
17	PLSCR3	ENSG00000187838	ENST00000324822	protein_coding	KNOWN	CCDS42253	16495	888	295	7293046	7297889	-1	None	None
17	PLSCR3	ENSG00000187838	ENST00000573070	nonsense_mediated_decay	KNOWN	None	16495	447	148	7293046	7298161	-1	None	None
17	PLSCR3	ENSG00000187838	ENST00000571541	retained_intron	KNOWN	None	16495	None	None	7293049	7297827	-1	None	None
17	PLSCR3	ENSG00000187838	ENST00000573774	retained_intron	KNOWN	None	16495	None	None	7293049	7297884	-1	None	None
17	PLSCR3	ENSG00000187838	ENST00000576201	protein_coding	KNOWN	CCDS42253	16495	888	295	7293052	7297854	-1	None	None
17	PLSCR3	ENSG00000187838	ENST00000574401	protein_coding	KNOWN	CCDS42253	16495	888	295	7293052	7298126	-1	None	None
17	PLSCR3	ENSG00000187838	ENST00000575543	retained_intron	KNOWN	None	16495	None	None	7293054	7297834	-1	None	None
17	PLSCR3	ENSG00000187838	ENST00000576362	protein_coding	NOVEL	None	16495	816	271	7293073	7297587	-1	None	None
17	PLSCR3	ENSG00000187838	ENST00000575434	protein_coding	NOVEL	None	16495	516	171	7293369	7296801	-1	None	None
17	PLSCR3	ENSG00000187838	ENST00000571078	protein_coding	PUTATIVE	None	16495	510	169	7293767	7297593	-1	None	None
17	PLSCR3	ENSG00000187838	ENST00000571802	protein_coding	PUTATIVE	None	16495	107	34	7296165	7297843	-1	None	None
17	PLSCR3	ENSG00000187838	ENST00000573213	protein_coding	NOVEL	None	16495	355	117	7296203	7297864	-1	None	None
17	PLSCR3	ENSG00000187838	ENST00000535512	protein_coding	KNOWN	CCDS42253	16495	888	295	7293053	7307416	-1	None	None
20	AAR2	ENSG00000131043	ENST00000397286	protein_coding	PUTATIVE	None	15886	1197	398	34824381	34858840	1	C20orf4	bA234K24.2
20	AAR2	ENSG00000131043	ENST00000320849	protein_coding	KNOWN	CCDS13273	15886	1155	384	34824387	34844855	1	C20orf4	bA234K24.2
20	AAR2	ENSG00000131043	ENST00000373932	protein_coding	KNOWN	CCDS13273	15886	1155	384	34824407	34844855	1	C20orf4	bA234K24.2
12	RNA5SP355	ENSG00000202187	ENST00000365317	rRNA	KNOWN	None	43255	None	None	28658327	28658461	1	RN5S355	None
2	None	ENSG00000213083	ENST00000426087	processed_pseudogene	KNOWN	None	None	None	None	207551241	207552086	-1	None	None
17	KRT17P3	ENSG00000231870	ENST00000420566	unprocessed_pseudogene	KNOWN	None	33697	None	None	28894718	28898766	-1	None	None
2	None	ENSG00000230773	ENST00000447571	lincRNA	KNOWN	None	None	None	None	48168835	48468122	-1	None	None
2	None	ENSG00000230773	ENST00000587616	lincRNA	KNOWN	None	None	None	None	48172395	48392073	-1	None	None
HSCHR15_1_CTG4	None	ENSG00000262080	ENST00000573996	retained_intron	KNOWN	None	None	None	None	28846258	28847889	1	None	None
HSCHR15_1_CTG4	None	ENSG00000262080	ENST00000576373	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	28846955	28930793	1	None	None
HSCHR15_1_CTG4	None	ENSG00000262080	ENST00000575200	processed_transcript	KNOWN	None	None	None	None	28868908	28890040	1	None	None
HSCHR15_1_CTG4	None	ENSG00000262080	ENST00000571111	retained_intron	KNOWN	None	None	None	None	28889889	28898331	1	None	None
HSCHR15_1_CTG4	None	ENSG00000262080	ENST00000572280	processed_transcript	KNOWN	None	None	None	None	28889891	28899187	1	None	None
HSCHR15_1_CTG4	None	ENSG00000262080	ENST00000571956	retained_intron	KNOWN	None	None	None	None	28908187	28930681	1	None	None
HSCHR15_1_CTG4	None	ENSG00000262080	ENST00000574004	processed_transcript	KNOWN	None	None	None	None	28911208	28942030	1	None	None
11	None	ENSG00000269290	ENST00000598393	lincRNA	KNOWN	None	None	None	None	64552393	64553092	-1	None	None
1	MIR4420	ENSG00000264773	ENST00000583944	miRNA	KNOWN	None	41772	None	None	31212003	31212079	-1	None	hsa-mir-4420
13	GYG1P2	ENSG00000237099	ENST00000426437	processed_pseudogene	KNOWN	None	39710	None	None	83397266	83398271	1	None	None
9	IER5L	ENSG00000188483	ENST00000372491	protein_coding	KNOWN	CCDS43888	23679	1215	404	131937835	131940540	-1	None	bA247A12.2
2	None	ENSG00000235480	ENST00000425578	antisense	KNOWN	None	None	None	None	97193677	97198043	-1	None	None
1	None	ENSG00000269554	ENST00000597060	protein_coding	KNOWN	None	None	543	180	2121237	2123179	1	None	None
1	None	ENSG00000224493	ENST00000440382	processed_pseudogene	KNOWN	None	None	None	None	75987247	75987916	1	None	None
1	None	ENSG00000229607	ENST00000440358	lincRNA	KNOWN	None	None	None	None	31283225	31288400	-1	None	None
19	LILRB1	ENSG00000104972	ENST00000396331	protein_coding	KNOWN	CCDS42617	6605	1953	650	55128612	55148979	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
19	LILRB1	ENSG00000104972	ENST00000396327	protein_coding	NOVEL	CCDS42615	6605	1956	651	55141861	55148979	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
19	LILRB1	ENSG00000104972	ENST00000396332	protein_coding	NOVEL	CCDS42616	6605	1956	651	55141963	55148979	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
19	LILRB1	ENSG00000104972	ENST00000427581	protein_coding	NOVEL	None	6605	2106	701	55142084	55148641	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
19	LILRB1	ENSG00000104972	ENST00000396317	protein_coding	NOVEL	None	6605	1905	634	55142525	55148527	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
19	LILRB1	ENSG00000104972	ENST00000396315	protein_coding	NOVEL	CCDS42614	6605	1959	652	55142525	55148527	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
19	LILRB1	ENSG00000104972	ENST00000421584	nonsense_mediated_decay	KNOWN	None	6605	1533	510	55142525	55148527	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
19	LILRB1	ENSG00000104972	ENST00000480257	processed_transcript	KNOWN	None	6605	None	None	55142713	55143506	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
19	LILRB1	ENSG00000104972	ENST00000473412	processed_transcript	PUTATIVE	None	6605	None	None	55144577	55145634	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
19	LILRB1	ENSG00000104972	ENST00000462628	processed_transcript	KNOWN	None	6605	None	None	55144594	55148979	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
19	LILRB1	ENSG00000104972	ENST00000487425	retained_intron	KNOWN	None	6605	None	None	55145822	55147067	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
19	LILRB1	ENSG00000104972	ENST00000480375	retained_intron	KNOWN	None	6605	None	None	55146344	55147556	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
19	LILRB1	ENSG00000104972	ENST00000396321	protein_coding	KNOWN	None	6605	1953	650	55085346	55148470	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
19	LILRB1	ENSG00000104972	ENST00000418536	protein_coding	KNOWN	None	6605	1905	634	55085346	55148470	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
19	LILRB1	ENSG00000104972	ENST00000448689	protein_coding	KNOWN	None	6605	1533	510	55085346	55148470	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
19	LILRB1	ENSG00000104972	ENST00000324602	protein_coding	KNOWN	CCDS42614	6605	1959	652	55141908	55148979	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
19	LILRB1	ENSG00000104972	ENST00000434867	protein_coding	KNOWN	CCDS42617	6605	1953	650	55141908	55148979	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
3	RNU1-62P	ENSG00000199469	ENST00000362599	snRNA	KNOWN	None	48404	None	None	72625842	72626005	1	None	None
12	None	ENSG00000244712	ENST00000463466	processed_pseudogene	KNOWN	None	None	None	None	28717611	28718074	-1	None	None
1	None	ENSG00000203301	ENST00000545087	protein_coding	NOVEL	None	None	654	217	2143360	2145620	-1	None	None
17	RN7SL171P	ENSG00000263599	ENST00000579185	misc_RNA	KNOWN	None	46187	None	None	4778921	4779205	1	None	None
X	HTR2C-IT1	ENSG00000223444	ENST00000435767	sense_intronic	KNOWN	None	41344	None	None	113992533	113995378	1	None	None
12	None	ENSG00000256708	ENST00000542812	processed_pseudogene	KNOWN	None	None	None	None	68537098	68537470	1	None	None
2	RN7SKP224	ENSG00000201010	ENST00000364140	misc_RNA	KNOWN	None	45948	None	None	48444714	48445038	1	None	None
1	RNU6-503P	ENSG00000252338	ENST00000516529	snRNA	KNOWN	None	47466	None	None	76003700	76003804	-1	None	None
20	EIF6	ENSG00000242372	ENST00000440766	nonsense_mediated_decay	KNOWN	None	6159	180	59	33866714	33872326	-1	EIF3A, ITGB4BP	p27BBP, b(2)gcn
20	EIF6	ENSG00000242372	ENST00000374436	protein_coding	KNOWN	CCDS13249	6159	738	245	33866714	33872518	-1	EIF3A, ITGB4BP	p27BBP, b(2)gcn
20	EIF6	ENSG00000242372	ENST00000374443	protein_coding	KNOWN	CCDS13250	6159	681	226	33866714	33872573	-1	EIF3A, ITGB4BP	p27BBP, b(2)gcn
20	EIF6	ENSG00000242372	ENST00000447927	nonsense_mediated_decay	KNOWN	None	6159	327	108	33866714	33872607	-1	EIF3A, ITGB4BP	p27BBP, b(2)gcn
20	EIF6	ENSG00000242372	ENST00000374450	protein_coding	KNOWN	CCDS13249	6159	738	245	33866714	33872788	-1	EIF3A, ITGB4BP	p27BBP, b(2)gcn
20	EIF6	ENSG00000242372	ENST00000415116	nonsense_mediated_decay	KNOWN	None	6159	561	186	33867543	33872589	-1	EIF3A, ITGB4BP	p27BBP, b(2)gcn
20	EIF6	ENSG00000242372	ENST00000462894	processed_transcript	PUTATIVE	None	6159	None	None	33867877	33872505	-1	EIF3A, ITGB4BP	p27BBP, b(2)gcn
20	EIF6	ENSG00000242372	ENST00000456600	protein_coding	KNOWN	None	6159	325	107	33868501	33872788	-1	EIF3A, ITGB4BP	p27BBP, b(2)gcn
16	RNU6-1262P	ENSG00000252026	ENST00000516217	snRNA	KNOWN	None	48225	None	None	68318126	68318221	-1	None	None
2	None	ENSG00000207319	ENST00000384589	misc_RNA	NOVEL	None	None	None	None	207565789	207565909	-1	None	None
17	RN7SL784P	ENSG00000264113	ENST00000577319	misc_RNA	KNOWN	None	46800	None	None	4786270	4786591	1	None	None
1	None	ENSG00000223382	ENST00000430320	lincRNA	KNOWN	None	None	None	None	31297075	31307131	1	None	None
1	None	ENSG00000223382	ENST00000438790	lincRNA	KNOWN	None	None	None	None	31297522	31306580	1	None	None
GL000193.1	None	ENSG00000256974	ENST00000539902	pseudogene	NOVEL	None	None	None	None	96645	96721	-1	None	None
2	RNU4-49P	ENSG00000251889	ENST00000516080	snRNA	KNOWN	None	46985	None	None	48567826	48567965	-1	None	None
16	None	ENSG00000238343	ENST00000458872	snoRNA	NOVEL	None	None	None	None	68347142	68347243	-1	None	None
1	None	ENSG00000213579	ENST00000413677	processed_pseudogene	KNOWN	None	None	None	None	76047784	76048240	1	None	None
17	None	ENSG00000262429	ENST00000576752	antisense	KNOWN	None	None	None	None	4871290	4872117	1	None	None
3	None	ENSG00000239568	ENST00000483483	processed_pseudogene	KNOWN	None	None	None	None	72632521	72632686	1	None	None
15	None	ENSG00000260399	ENST00000562736	unprocessed_pseudogene	KNOWN	None	None	None	None	23583132	23586995	-1	None	None
1	RNVU1-7	ENSG00000207418	ENST00000384687	snRNA	KNOWN	None	37500	None	None	145969270	145969433	-1	RNU1-9, RNU1-9P	vU1.7
2	RNU6-282P	ENSG00000202227	ENST00000365357	snRNA	KNOWN	None	47245	None	None	48729061	48729163	-1	None	None
GL000193.1	None	ENSG00000264723	ENST00000577479	misc_RNA	NOVEL	None	None	None	None	169660	169941	-1	None	None
13	None	ENSG00000270400	ENST00000603093	processed_pseudogene	KNOWN	None	None	None	None	83719675	83720038	1	None	None
13	RAP2A	ENSG00000125249	ENST00000245304	protein_coding	KNOWN	CCDS9485	9861	552	183	98086476	98121382	1	RAP2	K-REV
13	RAP2A	ENSG00000125249	ENST00000476869	nonsense_mediated_decay	KNOWN	None	9861	327	108	98086725	98116964	1	RAP2	K-REV
12	None	ENSG00000257752	ENST00000549191	processed_pseudogene	KNOWN	None	None	None	None	88451653	88452355	-1	None	None
GL000193.1	None	ENSG00000252127	ENST00000516318	snoRNA	NOVEL	None	None	None	None	175230	175324	1	None	None
17	None	ENSG00000234203	ENST00000430920	antisense	KNOWN	None	None	None	None	4876146	4877976	1	None	None
2	None	ENSG00000239995	ENST00000458482	processed_pseudogene	KNOWN	None	None	None	None	48859995	48860492	-1	None	None
13	WASF3-AS1	ENSG00000237001	ENST00000586418	antisense	KNOWN	None	39841	None	None	27180681	27215501	-1	None	None
13	WASF3-AS1	ENSG00000237001	ENST00000413063	antisense	KNOWN	None	39841	None	None	27212586	27215501	-1	None	None
13	WASF3-AS1	ENSG00000237001	ENST00000585599	antisense	KNOWN	None	39841	None	None	27214658	27215501	-1	None	None
16	None	ENSG00000259797	ENST00000563203	sense_intronic	KNOWN	None	None	None	None	68350704	68352939	1	None	None
1	None	ENSG00000229828	ENST00000420737	unprocessed_pseudogene	KNOWN	None	None	None	None	146011091	146025308	1	None	None
10	PITX3	ENSG00000107859	ENST00000370002	protein_coding	KNOWN	CCDS7532	9006	909	302	103989943	104001231	-1	None	None
10	PITX3	ENSG00000107859	ENST00000539804	protein_coding	KNOWN	CCDS7532	9006	909	302	103989943	103991840	-1	None	None
16	MEFV	ENSG00000103313	ENST00000219596	protein_coding	KNOWN	CCDS10498	6998	2346	781	3292028	3306627	-1	MEF	FMF, TRIM20
16	MEFV	ENSG00000103313	ENST00000339854	protein_coding	PUTATIVE	None	6998	1806	601	3292028	3306627	-1	MEF	FMF, TRIM20
16	MEFV	ENSG00000103313	ENST00000537682	nonsense_mediated_decay	KNOWN	None	6998	1842	613	3292028	3306627	-1	MEF	FMF, TRIM20
16	MEFV	ENSG00000103313	ENST00000542898	nonsense_mediated_decay	KNOWN	None	6998	1935	644	3292028	3306627	-1	MEF	FMF, TRIM20
16	MEFV	ENSG00000103313	ENST00000536980	nonsense_mediated_decay	KNOWN	None	6998	1209	402	3292028	3306627	-1	MEF	FMF, TRIM20
16	MEFV	ENSG00000103313	ENST00000538326	nonsense_mediated_decay	KNOWN	None	6998	1473	490	3292028	3306627	-1	MEF	FMF, TRIM20
16	MEFV	ENSG00000103313	ENST00000541159	protein_coding	PUTATIVE	CCDS55981	6998	1338	445	3293141	3306587	-1	MEF	FMF, TRIM20
16	MEFV	ENSG00000103313	ENST00000539145	nonsense_mediated_decay	KNOWN	None	6998	288	95	3293141	3306587	-1	MEF	FMF, TRIM20
16	MEFV	ENSG00000103313	ENST00000536379	protein_coding	PUTATIVE	None	6998	1713	570	3293141	3306587	-1	MEF	FMF, TRIM20
16	MEFV	ENSG00000103313	ENST00000570511	nonsense_mediated_decay	KNOWN	None	6998	921	306	3293141	3306587	-1	MEF	FMF, TRIM20
16	MEFV	ENSG00000103313	ENST00000572244	nonsense_mediated_decay	KNOWN	None	6998	306	101	3293141	3306587	-1	MEF	FMF, TRIM20
16	MEFV	ENSG00000103313	ENST00000576315	nonsense_mediated_decay	KNOWN	None	6998	288	95	3293141	3306587	-1	MEF	FMF, TRIM20
16	MEFV	ENSG00000103313	ENST00000574583	nonsense_mediated_decay	KNOWN	None	6998	288	95	3293141	3306587	-1	MEF	FMF, TRIM20
16	MEFV	ENSG00000103313	ENST00000539154	retained_intron	KNOWN	None	6998	None	None	3296410	3297967	-1	MEF	FMF, TRIM20
13	RNU6-67P	ENSG00000222791	ENST00000410859	snRNA	KNOWN	None	42557	None	None	83872206	83872302	-1	RNU6-67	None
17	None	ENSG00000262678	ENST00000575985	antisense	KNOWN	None	None	None	None	4889761	4890619	1	None	None
1	None	ENSG00000230863	ENST00000446582	processed_pseudogene	KNOWN	None	None	None	None	76107031	76107772	-1	None	None
X	None	ENSG00000230926	ENST00000447309	unprocessed_pseudogene	KNOWN	None	None	None	None	50825664	50834074	1	None	None
1	FTH1P2	ENSG00000234975	ENST00000466086	processed_pseudogene	KNOWN	None	3989	None	None	228823162	228823573	1	FTHL2	None
1	FTH1P2	ENSG00000234975	ENST00000413500	processed_pseudogene	KNOWN	None	3989	None	None	228823164	228823574	1	FTHL2	None
2	TCEB2P3	ENSG00000232285	ENST00000416023	processed_pseudogene	KNOWN	None	39721	None	None	49007741	49008034	1	None	None
12	None	ENSG00000251301	ENST00000541707	lincRNA	KNOWN	None	None	None	None	68726668	68729561	-1	None	None
12	None	ENSG00000251301	ENST00000539404	lincRNA	KNOWN	None	None	None	None	68726728	68797580	-1	None	None
12	None	ENSG00000251301	ENST00000546086	lincRNA	KNOWN	None	None	None	None	68727033	68835996	-1	None	None
12	None	ENSG00000251301	ENST00000536094	lincRNA	KNOWN	None	None	None	None	68774215	68777385	-1	None	None
12	None	ENSG00000251301	ENST00000441255	lincRNA	KNOWN	None	None	None	None	68777100	68845264	-1	None	None
12	None	ENSG00000251301	ENST00000360485	lincRNA	KNOWN	None	None	None	None	68825626	68845165	-1	None	None
12	None	ENSG00000251301	ENST00000536112	lincRNA	KNOWN	None	None	None	None	68825635	68826434	-1	None	None
12	None	ENSG00000251301	ENST00000542875	lincRNA	KNOWN	None	None	None	None	68835668	68845443	-1	None	None
16	RNU4-30P	ENSG00000222177	ENST00000410245	snRNA	KNOWN	None	46966	None	None	68363290	68363432	-1	None	None
13	VENTXP2	ENSG00000215037	ENST00000399480	processed_pseudogene	KNOWN	None	30901	None	None	84481436	84481916	-1	None	None
9	None	ENSG00000234297	ENST00000422292	processed_pseudogene	KNOWN	None	None	None	None	15055055	15056050	1	None	None
1	RN7SKP91	ENSG00000222784	ENST00000410852	misc_RNA	KNOWN	None	45815	None	None	31316670	31316957	1	None	None
17	None	ENSG00000203562	ENST00000366373	pseudogene	KNOWN	None	None	None	None	4890302	4890972	1	None	None
12	ZNF10	ENSG00000256223	ENST00000538918	protein_coding	KNOWN	None	12879	129	42	133707161	133727709	1	None	KOX1
12	ZNF10	ENSG00000256223	ENST00000540609	protein_coding	KNOWN	None	12879	141	46	133707174	133727721	1	None	KOX1
12	ZNF10	ENSG00000256223	ENST00000248211	protein_coding	KNOWN	CCDS9283	12879	1722	573	133707178	133736051	1	None	KOX1
12	ZNF10	ENSG00000256223	ENST00000543271	protein_coding	NOVEL	None	12879	96	31	133707197	133721552	1	None	KOX1
12	ZNF10	ENSG00000256223	ENST00000540927	processed_transcript	KNOWN	None	12879	None	None	133707197	133727727	1	None	KOX1
12	ZNF10	ENSG00000256223	ENST00000536704	processed_transcript	KNOWN	None	12879	None	None	133707197	133727740	1	None	KOX1
12	ZNF10	ENSG00000256223	ENST00000536877	protein_coding	KNOWN	None	12879	218	71	133707197	133728452	1	None	KOX1
12	ZNF10	ENSG00000256223	ENST00000426665	protein_coding	KNOWN	CCDS9283	12879	1722	573	133707213	133733554	1	None	KOX1
12	ZNF10	ENSG00000256223	ENST00000402932	protein_coding	PUTATIVE	None	12879	1320	439	133720455	133733577	1	None	KOX1
12	ZNF10	ENSG00000256223	ENST00000537119	protein_coding	PUTATIVE	None	12879	577	191	133727573	133732535	1	None	KOX1
X	MIR1911	ENSG00000222715	ENST00000410783	miRNA	KNOWN	None	35395	None	None	113997744	113997823	1	MIRN1911	hsa-mir-1911
1	SKI	ENSG00000157933	ENST00000378536	protein_coding	KNOWN	CCDS39	10896	2187	728	2160134	2241558	1	None	None
1	SKI	ENSG00000157933	ENST00000508416	processed_transcript	PUTATIVE	None	10896	None	None	2163918	2234477	1	None	None
1	SKI	ENSG00000157933	ENST00000478223	processed_transcript	PUTATIVE	None	10896	None	None	2179435	2234815	1	None	None
1	SKI	ENSG00000157933	ENST00000507179	retained_intron	KNOWN	None	10896	None	None	2235085	2235807	1	None	None
13	UBE2D3P4	ENSG00000224188	ENST00000441973	processed_pseudogene	KNOWN	None	39391	None	None	84594462	84594897	1	None	None
5	None	ENSG00000249359	ENST00000503488	lincRNA	KNOWN	None	None	None	None	21323982	21341484	-1	None	None
1	None	ENSG00000235143	ENST00000431202	antisense	KNOWN	None	None	None	None	31331005	31333101	1	None	None
HG115_PATCH	SH2B2	ENSG00000259885	ENST00000563740	protein_coding	KNOWN	None	17381	1899	632	101928441	101964991	1	None	APS
HG115_PATCH	SH2B2	ENSG00000259885	ENST00000566766	protein_coding	KNOWN	None	17381	729	242	101930203	101944559	1	None	APS
X	None	ENSG00000230317	ENST00000442994	lincRNA	KNOWN	None	None	None	None	50838690	50914232	-1	None	None
13	FGFR1OP2P1	ENSG00000230256	ENST00000395943	processed_pseudogene	KNOWN	None	39706	None	None	27479499	27479998	1	None	None
1	None	ENSG00000178193	ENST00000433521	antisense	KNOWN	None	None	None	None	76175688	76189696	-1	None	None
17	None	ENSG00000262227	ENST00000574260	antisense	KNOWN	None	None	None	None	4891001	4891741	1	None	None
X	HSPA8P7	ENSG00000224773	ENST00000443628	processed_pseudogene	KNOWN	None	44922	None	None	114009387	114011334	-1	None	None
11	None	ENSG00000230835	ENST00000428947	processed_pseudogene	KNOWN	None	None	None	None	64649007	64649417	1	None	None
17	MFAP4	ENSG00000166482	ENST00000497081	protein_coding	PUTATIVE	None	7035	843	280	19286755	19290245	-1	None	None
17	MFAP4	ENSG00000166482	ENST00000395592	protein_coding	KNOWN	CCDS56023	7035	840	279	19286755	19290503	-1	None	None
17	MFAP4	ENSG00000166482	ENST00000299610	protein_coding	KNOWN	CCDS11208	7035	768	255	19286755	19290553	-1	None	None
17	MFAP4	ENSG00000166482	ENST00000574313	processed_transcript	KNOWN	None	7035	None	None	19286759	19287542	-1	None	None
17	MFAP4	ENSG00000166482	ENST00000571210	retained_intron	KNOWN	None	7035	None	None	19287728	19290503	-1	None	None
1	PFN1P5	ENSG00000227216	ENST00000433399	processed_pseudogene	KNOWN	None	42990	None	None	146059926	146060343	1	None	None
2	SNRNP200	ENSG00000144028	ENST00000323853	protein_coding	KNOWN	CCDS2020	30859	6411	2136	96940074	96971253	-1	ASCC3L1, RP33	U5-200KD, HELIC2, KIAA0788, BRR2
2	SNRNP200	ENSG00000144028	ENST00000497539	retained_intron	KNOWN	None	30859	None	None	96940469	96950461	-1	ASCC3L1, RP33	U5-200KD, HELIC2, KIAA0788, BRR2
2	SNRNP200	ENSG00000144028	ENST00000429650	nonsense_mediated_decay	KNOWN	None	30859	1788	595	96940755	96951114	-1	ASCC3L1, RP33	U5-200KD, HELIC2, KIAA0788, BRR2
2	SNRNP200	ENSG00000144028	ENST00000480835	retained_intron	KNOWN	None	30859	None	None	96943272	96944097	-1	ASCC3L1, RP33	U5-200KD, HELIC2, KIAA0788, BRR2
2	SNRNP200	ENSG00000144028	ENST00000484372	retained_intron	KNOWN	None	30859	None	None	96944416	96945545	-1	ASCC3L1, RP33	U5-200KD, HELIC2, KIAA0788, BRR2
2	SNRNP200	ENSG00000144028	ENST00000493271	retained_intron	KNOWN	None	30859	None	None	96944925	96947763	-1	ASCC3L1, RP33	U5-200KD, HELIC2, KIAA0788, BRR2
2	SNRNP200	ENSG00000144028	ENST00000480242	retained_intron	KNOWN	None	30859	None	None	96946923	96950612	-1	ASCC3L1, RP33	U5-200KD, HELIC2, KIAA0788, BRR2
2	SNRNP200	ENSG00000144028	ENST00000480615	retained_intron	KNOWN	None	30859	None	None	96950553	96955593	-1	ASCC3L1, RP33	U5-200KD, HELIC2, KIAA0788, BRR2
2	SNRNP200	ENSG00000144028	ENST00000349783	protein_coding	KNOWN	None	30859	1878	625	96940077	96971297	-1	ASCC3L1, RP33	U5-200KD, HELIC2, KIAA0788, BRR2
12	None	ENSG00000256513	ENST00000537327	lincRNA	KNOWN	None	None	None	None	28974908	28978764	-1	None	None
19	PRR24	ENSG00000257704	ENST00000552360	protein_coding	KNOWN	CCDS46131	27406	429	142	47778142	47778979	1	None	None
13	RPS21P8	ENSG00000223782	ENST00000413365	processed_pseudogene	KNOWN	None	39705	None	None	27551680	27551926	1	None	None
1	SNORD103A	ENSG00000200154	ENST00000363284	snoRNA	KNOWN	None	32766	None	None	31408535	31408620	-1	None	U103
17	None	ENSG00000227495	ENST00000438266	antisense	KNOWN	None	None	None	None	4922509	4923388	-1	None	None
1	None	ENSG00000181227	ENST00000444241	processed_pseudogene	KNOWN	None	None	None	None	76209108	76210461	-1	None	None
1	None	ENSG00000181227	ENST00000320606	pseudogene	KNOWN	None	None	None	None	76209103	76210459	-1	None	None
1	MXRA8	ENSG00000162576	ENST00000474033	retained_intron	KNOWN	None	7542	None	None	1288069	1289644	-1	None	DKFZp586E2023
1	MXRA8	ENSG00000162576	ENST00000309212	protein_coding	KNOWN	CCDS24	7542	1329	442	1288071	1293915	-1	None	DKFZp586E2023
1	MXRA8	ENSG00000162576	ENST00000445648	protein_coding	KNOWN	None	7542	1353	450	1288072	1293923	-1	None	DKFZp586E2023
1	MXRA8	ENSG00000162576	ENST00000477278	nonsense_mediated_decay	KNOWN	None	7542	1302	433	1288072	1297157	-1	None	DKFZp586E2023
1	MXRA8	ENSG00000162576	ENST00000473097	retained_intron	KNOWN	None	7542	None	None	1288572	1289854	-1	None	DKFZp586E2023
1	MXRA8	ENSG00000162576	ENST00000478517	retained_intron	KNOWN	None	7542	None	None	1288595	1289627	-1	None	DKFZp586E2023
1	MXRA8	ENSG00000162576	ENST00000476718	retained_intron	KNOWN	None	7542	None	None	1288819	1290396	-1	None	DKFZp586E2023
1	MXRA8	ENSG00000162576	ENST00000464351	retained_intron	KNOWN	None	7542	None	None	1290384	1290892	-1	None	DKFZp586E2023
1	MXRA8	ENSG00000162576	ENST00000460473	retained_intron	KNOWN	None	7542	None	None	1290463	1290892	-1	None	DKFZp586E2023
1	MXRA8	ENSG00000162576	ENST00000342753	protein_coding	KNOWN	None	7542	1026	341	1288072	1293920	-1	None	DKFZp586E2023
1	None	ENSG00000271475	ENST00000605063	processed_pseudogene	KNOWN	None	None	None	None	228912059	228912612	1	None	None
4	TMEM33	ENSG00000109133	ENST00000504986	protein_coding	KNOWN	CCDS3464	25541	744	247	41937137	41962589	1	None	FLJ10525
4	TMEM33	ENSG00000109133	ENST00000508448	protein_coding	KNOWN	None	25541	667	221	41937146	41956139	1	None	FLJ10525
4	TMEM33	ENSG00000109133	ENST00000513702	protein_coding	KNOWN	CCDS3464	25541	744	247	41937146	41956412	1	None	FLJ10525
4	TMEM33	ENSG00000109133	ENST00000264452	nonsense_mediated_decay	KNOWN	None	25541	207	68	41937146	41956874	1	None	FLJ10525
4	TMEM33	ENSG00000109133	ENST00000510383	retained_intron	KNOWN	None	25541	None	None	41937401	41946219	1	None	FLJ10525
4	TMEM33	ENSG00000109133	ENST00000506794	nonsense_mediated_decay	KNOWN	None	25541	207	68	41937461	41951401	1	None	FLJ10525
4	TMEM33	ENSG00000109133	ENST00000513558	protein_coding	PUTATIVE	None	25541	467	154	41941272	41956038	1	None	FLJ10525
4	TMEM33	ENSG00000109133	ENST00000325094	protein_coding	KNOWN	CCDS3464	25541	744	247	41937169	41962580	1	None	FLJ10525
11	None	ENSG00000203400	ENST00000366222	pseudogene	KNOWN	None	None	None	None	64657298	64657758	-1	None	None
HSCHR6_MHC_QBL	PPT2	ENSG00000206329	ENST00000425475	protein_coding	KNOWN	None	9326	541	179	32078834	32081373	1	None	None
HSCHR6_MHC_QBL	PPT2	ENSG00000206329	ENST00000383301	protein_coding	KNOWN	None	9326	927	308	32078916	32089078	1	None	None
HSCHR6_MHC_QBL	PPT2	ENSG00000206329	ENST00000494953	nonsense_mediated_decay	KNOWN	None	9326	294	97	32078935	32083244	1	None	None
HSCHR6_MHC_QBL	PPT2	ENSG00000206329	ENST00000399860	protein_coding	KNOWN	None	9326	909	302	32078970	32089078	1	None	None
HSCHR6_MHC_QBL	PPT2	ENSG00000206329	ENST00000399859	protein_coding	KNOWN	None	9326	909	302	32079488	32089078	1	None	None
HSCHR6_MHC_QBL	PPT2	ENSG00000206329	ENST00000399856	protein_coding	KNOWN	None	9326	909	302	32079531	32089078	1	None	None
HSCHR6_MHC_QBL	PPT2	ENSG00000206329	ENST00000433658	protein_coding	KNOWN	None	9326	476	157	32079560	32083319	1	None	None
HSCHR6_MHC_QBL	PPT2	ENSG00000206329	ENST00000469411	nonsense_mediated_decay	KNOWN	None	9326	399	132	32079590	32087996	1	None	None
HSCHR6_MHC_QBL	PPT2	ENSG00000206329	ENST00000427642	protein_coding	KNOWN	None	9326	601	199	32079859	32083091	1	None	None
HSCHR6_MHC_QBL	PPT2	ENSG00000206329	ENST00000453393	protein_coding	KNOWN	None	9326	279	92	32079871	32081178	1	None	None
HSCHR6_MHC_QBL	PPT2	ENSG00000206329	ENST00000475020	protein_coding	PUTATIVE	None	9326	118	38	32080411	32081154	1	None	None
HSCHR6_MHC_QBL	PPT2	ENSG00000206329	ENST00000480789	retained_intron	KNOWN	None	9326	None	None	32082885	32083717	1	None	None
HSCHR6_MHC_QBL	PPT2	ENSG00000206329	ENST00000546871	protein_coding	KNOWN	None	9326	909	302	32079238	32089075	1	None	None
16	MIR3179-1	ENSG00000257264	ENST00000546674	lincRNA	KNOWN	None	38353	None	None	14995356	14996031	1	None	hsa-mir-3179-1
16	MIR3179-1	ENSG00000257264	ENST00000578940	miRNA	KNOWN	None	38353	None	None	14995365	14995448	1	None	hsa-mir-3179-1
1	SNORD103B	ENSG00000202107	ENST00000365237	snoRNA	KNOWN	None	32767	None	None	31421964	31422049	-1	None	U103B
13	MTND4P1	ENSG00000228597	ENST00000457501	processed_pseudogene	KNOWN	None	42035	None	None	85094238	85095703	1	None	None
8	STAR	ENSG00000147465	ENST00000276449	protein_coding	KNOWN	CCDS6102	11359	858	285	38001167	38008783	-1	None	StAR, STARD1
8	STAR	ENSG00000147465	ENST00000520114	retained_intron	KNOWN	None	11359	None	None	38001170	38008510	-1	None	StAR, STARD1
8	STAR	ENSG00000147465	ENST00000522050	protein_coding	NOVEL	None	11359	748	248	38001743	38006272	-1	None	StAR, STARD1
8	STAR	ENSG00000147465	ENST00000521236	protein_coding	PUTATIVE	None	11359	145	47	38003881	38006636	-1	None	StAR, STARD1
3	ARPC4-TTLL3	ENSG00000250151	ENST00000418163	nonsense_mediated_decay	KNOWN	None	38830	144	47	9834766	9854755	1	None	None
3	ARPC4-TTLL3	ENSG00000250151	ENST00000397256	protein_coding	KNOWN	CCDS56237	38830	1878	625	9834798	9877085	1	None	None
3	ARPC4-TTLL3	ENSG00000250151	ENST00000453882	protein_coding	PUTATIVE	None	38830	499	165	9839342	9854722	1	None	None
11	FOXRED1	ENSG00000110074	ENST00000533839	processed_transcript	KNOWN	None	26927	None	None	126138950	126146372	1	None	H17
11	FOXRED1	ENSG00000110074	ENST00000263578	protein_coding	KNOWN	CCDS8471	26927	1461	486	126139028	126148019	1	None	H17
11	FOXRED1	ENSG00000110074	ENST00000534011	processed_transcript	KNOWN	None	26927	None	None	126139030	126148026	1	None	H17
11	FOXRED1	ENSG00000110074	ENST00000529802	retained_intron	KNOWN	None	26927	None	None	126139052	126141776	1	None	H17
11	FOXRED1	ENSG00000110074	ENST00000526525	retained_intron	KNOWN	None	26927	None	None	126139066	126143204	1	None	H17
11	FOXRED1	ENSG00000110074	ENST00000525083	retained_intron	KNOWN	None	26927	None	None	126139066	126147558	1	None	H17
11	FOXRED1	ENSG00000110074	ENST00000525770	nonsense_mediated_decay	KNOWN	None	26927	147	48	126139066	126147735	1	None	H17
11	FOXRED1	ENSG00000110074	ENST00000527004	nonsense_mediated_decay	KNOWN	None	26927	558	185	126139085	126147964	1	None	H17
11	FOXRED1	ENSG00000110074	ENST00000526366	processed_transcript	KNOWN	None	26927	None	None	126139087	126144907	1	None	H17
11	FOXRED1	ENSG00000110074	ENST00000524751	retained_intron	KNOWN	None	26927	None	None	126139089	126145244	1	None	H17
11	FOXRED1	ENSG00000110074	ENST00000532101	retained_intron	KNOWN	None	26927	None	None	126139096	126145762	1	None	H17
11	FOXRED1	ENSG00000110074	ENST00000532125	protein_coding	KNOWN	None	26927	1419	472	126139104	126147826	1	None	H17
11	FOXRED1	ENSG00000110074	ENST00000534315	retained_intron	KNOWN	None	26927	None	None	126140840	126148021	1	None	H17
11	FOXRED1	ENSG00000110074	ENST00000531257	retained_intron	KNOWN	None	26927	None	None	126142929	126143984	1	None	H17
11	FOXRED1	ENSG00000110074	ENST00000527875	retained_intron	KNOWN	None	26927	None	None	126142984	126145038	1	None	H17
11	FOXRED1	ENSG00000110074	ENST00000533395	retained_intron	KNOWN	None	26927	None	None	126142986	126146114	1	None	H17
11	FOXRED1	ENSG00000110074	ENST00000530642	retained_intron	KNOWN	None	26927	None	None	126143809	126148021	1	None	H17
11	FOXRED1	ENSG00000110074	ENST00000532590	retained_intron	KNOWN	None	26927	None	None	126146807	126147739	1	None	H17
11	FOXRED1	ENSG00000110074	ENST00000442061	protein_coding	KNOWN	None	26927	951	316	126139066	126147735	1	None	H17
4	None	ENSG00000248511	ENST00000504213	protein_coding	PUTATIVE	None	None	174	57	93218402	93225329	-1	None	None
11	NDUFV1	ENSG00000167792	ENST00000322776	protein_coding	KNOWN	CCDS8173	7716	1395	464	67374323	67379977	1	None	CI-51K
11	NDUFV1	ENSG00000167792	ENST00000532303	protein_coding	PUTATIVE	None	7716	1092	363	67374371	67380005	1	None	CI-51K
11	NDUFV1	ENSG00000167792	ENST00000532244	protein_coding	PUTATIVE	None	7716	409	135	67374398	67378053	1	None	CI-51K
11	NDUFV1	ENSG00000167792	ENST00000528328	protein_coding	PUTATIVE	None	7716	227	74	67374404	67376145	1	None	CI-51K
11	NDUFV1	ENSG00000167792	ENST00000529927	protein_coding	KNOWN	CCDS53669	7716	1368	455	67374411	67379999	1	None	CI-51K
11	NDUFV1	ENSG00000167792	ENST00000524876	processed_transcript	KNOWN	None	7716	None	None	67374415	67376139	1	None	CI-51K
11	NDUFV1	ENSG00000167792	ENST00000524838	retained_intron	KNOWN	None	7716	None	None	67374415	67377739	1	None	CI-51K
11	NDUFV1	ENSG00000167792	ENST00000532343	protein_coding	PUTATIVE	None	7716	287	94	67374415	67377931	1	None	CI-51K
11	NDUFV1	ENSG00000167792	ENST00000415352	protein_coding	NOVEL	None	7716	1374	457	67374415	67380006	1	None	CI-51K
11	NDUFV1	ENSG00000167792	ENST00000528548	processed_transcript	KNOWN	None	7716	None	None	67374425	67376077	1	None	CI-51K
11	NDUFV1	ENSG00000167792	ENST00000532260	retained_intron	KNOWN	None	7716	None	None	67374429	67375905	1	None	CI-51K
11	NDUFV1	ENSG00000167792	ENST00000530014	retained_intron	KNOWN	None	7716	None	None	67374429	67377067	1	None	CI-51K
11	NDUFV1	ENSG00000167792	ENST00000530103	nonsense_mediated_decay	KNOWN	None	7716	132	43	67374429	67377067	1	None	CI-51K
11	NDUFV1	ENSG00000167792	ENST00000525086	processed_transcript	KNOWN	None	7716	None	None	67374429	67377098	1	None	CI-51K
11	NDUFV1	ENSG00000167792	ENST00000534139	retained_intron	KNOWN	None	7716	None	None	67374429	67377106	1	None	CI-51K
11	NDUFV1	ENSG00000167792	ENST00000533075	protein_coding	NOVEL	None	7716	535	177	67374429	67377897	1	None	CI-51K
11	NDUFV1	ENSG00000167792	ENST00000529867	protein_coding	NOVEL	None	7716	535	177	67374429	67377912	1	None	CI-51K
11	NDUFV1	ENSG00000167792	ENST00000526138	retained_intron	KNOWN	None	7716	None	None	67374432	67375989	1	None	CI-51K
11	NDUFV1	ENSG00000167792	ENST00000530638	protein_coding	PUTATIVE	None	7716	433	143	67374432	67377891	1	None	CI-51K
11	NDUFV1	ENSG00000167792	ENST00000528314	protein_coding	PUTATIVE	None	7716	158	51	67375697	67377057	1	None	CI-51K
11	NDUFV1	ENSG00000167792	ENST00000528377	retained_intron	KNOWN	None	7716	None	None	67375697	67377323	1	None	CI-51K
11	NDUFV1	ENSG00000167792	ENST00000526770	retained_intron	KNOWN	None	7716	None	None	67376009	67379999	1	None	CI-51K
11	NDUFV1	ENSG00000167792	ENST00000526169	processed_transcript	KNOWN	None	7716	None	None	67376126	67379438	1	None	CI-51K
11	NDUFV1	ENSG00000167792	ENST00000533919	nonsense_mediated_decay	KNOWN	None	7716	402	133	67377864	67379904	1	None	CI-51K
11	NDUFV1	ENSG00000167792	ENST00000527355	nonsense_mediated_decay	KNOWN	None	7716	384	127	67378477	67380006	1	None	CI-51K
11	NDUFV1	ENSG00000167792	ENST00000527923	retained_intron	KNOWN	None	7716	None	None	67378619	67379680	1	None	CI-51K
11	NDUFV1	ENSG00000167792	ENST00000531250	retained_intron	KNOWN	None	7716	None	None	67379024	67380006	1	None	CI-51K
11	NDUFV1	ENSG00000167792	ENST00000534352	retained_intron	KNOWN	None	7716	None	None	67379190	67379868	1	None	CI-51K
11	None	ENSG00000267804	ENST00000601517	lincRNA	KNOWN	None	None	None	None	64658158	64658547	-1	None	None
1	ABHD17AP2	ENSG00000198658	ENST00000358206	unprocessed_pseudogene	KNOWN	None	33538	None	None	146076838	146080009	1	FAM108A3, FAM108A11P, FAM108A3P	None
13	RPS20P32	ENSG00000218198	ENST00000456044	processed_pseudogene	KNOWN	None	36444	None	None	27591691	27592046	-1	None	None
13	RPS20P32	ENSG00000218198	ENST00000402278	processed_pseudogene	KNOWN	None	36444	None	None	27591688	27591990	-1	None	None
13	MTND5P3	ENSG00000232447	ENST00000438536	processed_pseudogene	KNOWN	None	42034	None	None	85095860	85098050	1	None	None
1	SNORD85	ENSG00000200181	ENST00000363311	snoRNA	KNOWN	None	32744	None	None	31441011	31441083	-1	None	HBII-251
12	CDKN1B	ENSG00000111276	ENST00000477087	processed_transcript	KNOWN	None	1785	None	None	12867992	12874138	1	None	KIP1, P27KIP1
12	CDKN1B	ENSG00000111276	ENST00000228872	protein_coding	KNOWN	CCDS8653	1785	597	198	12870058	12875305	1	None	KIP1, P27KIP1
12	CDKN1B	ENSG00000111276	ENST00000396340	protein_coding	PUTATIVE	None	1785	618	205	12870756	12874402	1	None	KIP1, P27KIP1
12	CDKN1B	ENSG00000111276	ENST00000442489	protein_coding	PUTATIVE	None	1785	315	104	12870795	12874223	1	None	KIP1, P27KIP1
20	YTHDF1	ENSG00000149658	ENST00000370339	protein_coding	KNOWN	CCDS13511	15867	1680	559	61826781	61847586	-1	C20orf21	FLJ20391
20	YTHDF1	ENSG00000149658	ENST00000370334	protein_coding	PUTATIVE	None	15867	159	52	61827719	61847491	-1	C20orf21	FLJ20391
20	YTHDF1	ENSG00000149658	ENST00000370333	protein_coding	KNOWN	None	15867	1530	509	61827831	61839970	-1	C20orf21	FLJ20391
2	CTBP2P5	ENSG00000214602	ENST00000454986	processed_pseudogene	KNOWN	None	45197	None	None	49142406	49143669	-1	None	None
6	None	ENSG00000218965	ENST00000407371	processed_pseudogene	KNOWN	None	None	None	None	90131818	90132767	-1	None	None
12	None	ENSG00000222481	ENST00000410549	miRNA	NOVEL	None	None	None	None	29273716	29273815	-1	None	None
17	None	ENSG00000262495	ENST00000576545	processed_pseudogene	KNOWN	None	None	None	None	4963651	4965418	1	None	None
16	None	ENSG00000199263	ENST00000362393	misc_RNA	NOVEL	None	None	None	None	68508456	68508567	-1	None	None
1	None	ENSG00000271399	ENST00000604004	processed_pseudogene	KNOWN	None	None	None	None	228993757	228994303	1	None	None
17	None	ENSG00000231421	ENST00000582291	retained_intron	KNOWN	None	None	None	None	28900489	28901270	-1	None	None
17	None	ENSG00000231421	ENST00000436477	lincRNA	KNOWN	None	None	None	None	28900490	28904018	-1	None	None
17	None	ENSG00000231421	ENST00000584763	lincRNA	KNOWN	None	None	None	None	28900491	28901438	-1	None	None
1	None	ENSG00000237329	ENST00000417263	processed_pseudogene	KNOWN	None	None	None	None	31509581	31510087	1	None	None
3	None	ENSG00000224153	ENST00000478780	processed_transcript	PUTATIVE	None	None	None	None	184119325	184144624	1	None	None
3	None	ENSG00000224153	ENST00000419960	protein_coding	PUTATIVE	None	None	615	204	184119418	184157436	1	None	None
3	RNA5SP136	ENSG00000222838	ENST00000410906	rRNA	KNOWN	None	43036	None	None	72740856	72740962	-1	RN5S136	None
3	MTND1P16	ENSG00000239586	ENST00000465177	unprocessed_pseudogene	KNOWN	None	42065	None	None	106619915	106620812	1	None	None
1	ISCA1P2	ENSG00000229840	ENST00000438679	processed_pseudogene	KNOWN	None	38023	None	None	229177918	229178338	1	None	None
X	MIR452	ENSG00000207753	ENST00000385020	miRNA	KNOWN	None	32054	None	None	151128100	151128184	-1	MIRN452	hsa-mir-452
1	SNORD45C	ENSG00000206620	ENST00000383893	snoRNA	KNOWN	None	32720	None	None	76252757	76252835	1	None	U45C
5	RNU6ATAC10P	ENSG00000221562	ENST00000408635	snRNA	KNOWN	None	46909	None	None	129310584	129310694	1	None	None
11	None	ENSG00000254668	ENST00000531247	processed_pseudogene	KNOWN	None	None	None	None	41819093	41819514	1	None	None
12	None	ENSG00000257258	ENST00000553075	lincRNA	KNOWN	None	None	None	None	29296129	29301608	-1	None	None
5	RNA5SP191	ENSG00000199455	ENST00000362585	rRNA	KNOWN	None	43091	None	None	129450102	129450203	1	RN5S191	None
3	None	ENSG00000268129	ENST00000597953	lincRNA	KNOWN	None	None	None	None	142719749	142720309	-1	None	None
HSCHR6_MHC_APD	DDR1	ENSG00000229767	ENST00000433393	protein_coding	KNOWN	None	2730	417	138	30861248	30865452	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_APD	DDR1	ENSG00000229767	ENST00000421499	protein_coding	KNOWN	None	2730	417	138	30861647	30865452	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_APD	DDR1	ENSG00000229767	ENST00000422275	protein_coding	KNOWN	None	2730	417	138	30861647	30865452	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_APD	DDR1	ENSG00000229767	ENST00000434428	protein_coding	KNOWN	None	2730	417	138	30864411	30865452	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_APD	DDR1	ENSG00000229767	ENST00000445749	protein_coding	KNOWN	None	2730	417	138	30864710	30865452	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_APD	DDR1	ENSG00000229767	ENST00000413115	protein_coding	KNOWN	None	2730	417	138	30864710	30865452	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_APD	DDR1	ENSG00000229767	ENST00000483193	processed_transcript	KNOWN	None	2730	None	None	30864710	30865452	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_APD	DDR1	ENSG00000229767	ENST00000470720	processed_transcript	KNOWN	None	2730	None	None	30864710	30865452	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_APD	DDR1	ENSG00000229767	ENST00000429955	protein_coding	KNOWN	None	2730	417	138	30864710	30865452	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_APD	DDR1	ENSG00000229767	ENST00000458576	protein_coding	KNOWN	None	2730	417	138	30864710	30865452	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_APD	DDR1	ENSG00000229767	ENST00000444160	protein_coding	KNOWN	None	2730	417	138	30864710	30865452	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_APD	DDR1	ENSG00000229767	ENST00000430486	protein_coding	KNOWN	None	2730	190	62	30864710	30865034	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
1	SNORD45A	ENSG00000207241	ENST00000384512	snoRNA	KNOWN	None	10184	None	None	76253574	76253657	1	RNU45A	U45a
14	None	ENSG00000259502	ENST00000559594	processed_pseudogene	KNOWN	None	None	None	None	68077703	68080581	1	None	None
11	MIR192	ENSG00000207648	ENST00000384915	miRNA	KNOWN	None	31562	None	None	64658609	64658718	-1	MIRN192	hsa-mir-192
HG7_PATCH	TRBV24-1	ENSG00000260767	ENST00000566736	TR_V_gene	KNOWN	None	12203	345	114	142396838	142397350	1	None	TRBV241, TCRBV15S1, TCRBV24S1
1	None	ENSG00000232768	ENST00000429616	processed_pseudogene	KNOWN	None	None	None	None	31523719	31523881	1	None	None
3	None	ENSG00000243733	ENST00000492307	lincRNA	KNOWN	None	None	None	None	142830644	142831201	1	None	None
5	HSPA8P4	ENSG00000248610	ENST00000511877	processed_pseudogene	KNOWN	None	44919	None	None	129475724	129477643	1	None	None
X	MIR4767	ENSG00000264268	ENST00000582827	miRNA	KNOWN	None	41548	None	None	7065901	7065978	1	None	hsa-mir-4767
20	SSTR4	ENSG00000132671	ENST00000255008	protein_coding	KNOWN	CCDS42856	11333	1167	388	23016057	23017314	1	None	None
1	SNORD45B	ENSG00000201487	ENST00000364617	snoRNA	KNOWN	None	10185	None	None	76255162	76255233	1	RNU45B	U45b
12	SLC2A14	ENSG00000173262	ENST00000340749	protein_coding	KNOWN	None	18301	1494	497	7965108	8025448	-1	SLC2A3P3	GLUT14
12	SLC2A14	ENSG00000173262	ENST00000543909	protein_coding	KNOWN	CCDS8585	18301	1563	520	7965110	8025420	-1	SLC2A3P3	GLUT14
12	SLC2A14	ENSG00000173262	ENST00000431042	protein_coding	KNOWN	None	18301	1494	497	7965115	8025512	-1	SLC2A3P3	GLUT14
12	SLC2A14	ENSG00000173262	ENST00000542505	protein_coding	KNOWN	None	18301	486	161	7966125	8025847	-1	SLC2A3P3	GLUT14
12	SLC2A14	ENSG00000173262	ENST00000396589	protein_coding	KNOWN	CCDS8585	18301	1563	520	7966397	8025635	-1	SLC2A3P3	GLUT14
12	SLC2A14	ENSG00000173262	ENST00000535295	protein_coding	PUTATIVE	None	18301	1236	411	7966616	8025448	-1	SLC2A3P3	GLUT14
12	SLC2A14	ENSG00000173262	ENST00000539924	protein_coding	PUTATIVE	None	18301	1608	535	7966668	8043744	-1	SLC2A3P3	GLUT14
12	SLC2A14	ENSG00000173262	ENST00000546234	protein_coding	KNOWN	None	18301	507	168	7982368	8025470	-1	SLC2A3P3	GLUT14
12	SLC2A14	ENSG00000173262	ENST00000542782	protein_coding	KNOWN	None	18301	457	151	7982418	8025623	-1	SLC2A3P3	GLUT14
12	SLC2A14	ENSG00000173262	ENST00000535344	protein_coding	KNOWN	None	18301	423	140	7982452	8025398	-1	SLC2A3P3	GLUT14
12	SLC2A14	ENSG00000173262	ENST00000537557	protein_coding	KNOWN	None	18301	424	140	7982520	8025479	-1	SLC2A3P3	GLUT14
12	SLC2A14	ENSG00000173262	ENST00000535266	protein_coding	KNOWN	None	18301	360	119	7982584	8025710	-1	SLC2A3P3	GLUT14
12	SLC2A14	ENSG00000173262	ENST00000539738	retained_intron	KNOWN	None	18301	None	None	7983860	7985361	-1	SLC2A3P3	GLUT14
12	SLC2A14	ENSG00000173262	ENST00000542916	protein_coding	KNOWN	None	18301	253	83	7984219	8024976	-1	SLC2A3P3	GLUT14
12	SLC2A14	ENSG00000173262	ENST00000536594	nonsense_mediated_decay	KNOWN	None	18301	117	38	7984245	8025457	-1	SLC2A3P3	GLUT14
12	SLC2A14	ENSG00000173262	ENST00000535383	protein_coding	KNOWN	None	18301	142	46	7984330	8026080	-1	SLC2A3P3	GLUT14
12	SLC2A14	ENSG00000173262	ENST00000535587	protein_coding	KNOWN	None	18301	67	21	7985362	8025476	-1	SLC2A3P3	GLUT14
12	SLC2A14	ENSG00000173262	ENST00000539234	protein_coding	NOVEL	None	18301	39	12	8016033	8025448	-1	SLC2A3P3	GLUT14
12	SLC2A14	ENSG00000173262	ENST00000544749	processed_transcript	KNOWN	None	18301	None	None	8023446	8025460	-1	SLC2A3P3	GLUT14
12	SLC2A14	ENSG00000173262	ENST00000542546	protein_coding	KNOWN	None	18301	1236	411	7966616	7985412	-1	SLC2A3P3	GLUT14
11	None	ENSG00000255279	ENST00000532199	lincRNA	KNOWN	None	None	None	None	41877470	41883380	1	None	None
11	None	ENSG00000255279	ENST00000526179	lincRNA	KNOWN	None	None	None	None	41877896	41897547	1	None	None
11	None	ENSG00000255279	ENST00000530946	lincRNA	KNOWN	None	None	None	None	41881393	41883880	1	None	None
6	RN7SL11P	ENSG00000239316	ENST00000471305	misc_RNA	KNOWN	None	46027	None	None	90187860	90188150	1	None	None
3	None	ENSG00000241537	ENST00000495088	processed_pseudogene	KNOWN	None	None	None	None	72821690	72822622	1	None	None
1	None	ENSG00000236975	ENST00000433734	lincRNA	KNOWN	None	None	None	None	229228562	229230652	-1	None	None
4	RN7SKP48	ENSG00000201901	ENST00000365031	misc_RNA	KNOWN	None	45772	None	None	86021649	86021976	1	None	None
6	None	ENSG00000216613	ENST00000405850	processed_pseudogene	KNOWN	None	None	None	None	136740985	136741563	-1	None	None
13	LINC00333	ENSG00000233349	ENST00000446314	lincRNA	KNOWN	None	42050	None	None	85136499	85137371	1	NCRNA00333	None
12	None	ENSG00000257488	ENST00000550684	lincRNA	KNOWN	None	None	None	None	48220637	48228304	1	None	None
12	None	ENSG00000257488	ENST00000546523	lincRNA	KNOWN	None	None	None	None	48223277	48228337	1	None	None
12	None	ENSG00000257488	ENST00000550909	lincRNA	KNOWN	None	None	None	None	48225132	48228498	1	None	None
12	None	ENSG00000257488	ENST00000550720	lincRNA	KNOWN	None	None	None	None	48225158	48228319	1	None	None
12	None	ENSG00000257488	ENST00000548564	lincRNA	KNOWN	None	None	None	None	48225158	48231681	1	None	None
X	None	ENSG00000230394	ENST00000422160	lincRNA	KNOWN	None	None	None	None	7975419	7986201	1	None	None
1	None	ENSG00000266832	ENST00000577710	miRNA	NOVEL	None	None	None	None	76308317	76308402	1	None	None
21	None	ENSG00000229986	ENST00000416842	lincRNA	KNOWN	None	None	None	None	40218171	40220568	1	None	None
6	None	ENSG00000237027	ENST00000438267	antisense	KNOWN	None	None	None	None	90270594	90276763	-1	None	None
6	None	ENSG00000237027	ENST00000425588	antisense	KNOWN	None	None	None	None	90272109	90276690	-1	None	None
3	None	ENSG00000241679	ENST00000483262	lincRNA	KNOWN	None	None	None	None	142842204	142850735	1	None	None
3	None	ENSG00000241679	ENST00000465880	lincRNA	KNOWN	None	None	None	None	142850116	142850733	1	None	None
4	None	ENSG00000248725	ENST00000507834	processed_pseudogene	KNOWN	None	None	None	None	86167310	86168065	1	None	None
1	None	ENSG00000233920	ENST00000430677	antisense	KNOWN	None	None	None	None	229359208	229363309	-1	None	None
1	None	ENSG00000225605	ENST00000436121	lincRNA	KNOWN	None	None	None	None	76477009	76485041	1	None	None
17	NUFIP2	ENSG00000108256	ENST00000225388	protein_coding	KNOWN	CCDS32600	17634	2088	695	27582854	27621136	-1	None	KIAA1321, MGC117262, PIG1, 182-FIP, FIP-82, 82-FIP
17	NUFIP2	ENSG00000108256	ENST00000579665	protein_coding	PUTATIVE	None	17634	363	120	27591417	27621133	-1	None	KIAA1321, MGC117262, PIG1, 182-FIP, FIP-82, 82-FIP
13	USP12-AS1	ENSG00000232162	ENST00000440657	antisense	KNOWN	None	39961	None	None	27736992	27743272	1	None	None
2	RNU6-439P	ENSG00000206915	ENST00000384188	snRNA	KNOWN	None	47402	None	None	49460933	49461038	-1	None	None
1	SEPW1P	ENSG00000215900	ENST00000322792	processed_pseudogene	KNOWN	None	10753	None	None	31567834	31568405	-1	None	None
15	None	ENSG00000261183	ENST00000565315	antisense	KNOWN	None	None	None	None	41128006	41136530	-1	None	None
15	None	ENSG00000261183	ENST00000564302	antisense	KNOWN	None	None	None	None	41128191	41136585	-1	None	None
15	None	ENSG00000261183	ENST00000568419	antisense	KNOWN	None	None	None	None	41128195	41136482	-1	None	None
15	None	ENSG00000261183	ENST00000568525	antisense	KNOWN	None	None	None	None	41130537	41136498	-1	None	None
15	None	ENSG00000261183	ENST00000563217	antisense	KNOWN	None	None	None	None	41130749	41132691	-1	None	None
13	None	ENSG00000226370	ENST00000433074	lincRNA	KNOWN	None	None	None	None	85639222	85653055	-1	None	None
12	None	ENSG00000257176	ENST00000553105	antisense	KNOWN	None	None	None	None	29433351	29470781	-1	None	None
21	None	ENSG00000205622	ENST00000380931	lincRNA	KNOWN	None	None	None	None	40249215	40310353	-1	None	None
21	None	ENSG00000205622	ENST00000415824	lincRNA	KNOWN	None	None	None	None	40252231	40328392	-1	None	None
2	None	ENSG00000234253	ENST00000415103	processed_pseudogene	KNOWN	None	None	None	None	50105761	50106501	1	None	None
2	None	ENSG00000268809	ENST00000595531	protein_coding	KNOWN	None	None	96	31	105882490	105882585	-1	None	None
HG7_PATCH	MTRNR2L6	ENSG00000261913	ENST00000570419	protein_coding	KNOWN	None	37163	75	24	142406772	142408166	1	None	None
13	USP12-AS2	ENSG00000230641	ENST00000452222	antisense	KNOWN	None	39962	None	None	27746396	27757135	1	None	None
1	None	ENSG00000177788	ENST00000429227	lincRNA	KNOWN	None	None	None	None	229394028	229406750	-1	None	None
1	None	ENSG00000177788	ENST00000436334	lincRNA	KNOWN	None	None	None	None	229405113	229406775	-1	None	None
11	None	ENSG00000254822	ENST00000526455	lincRNA	KNOWN	None	None	None	None	41898184	41898628	1	None	None
4	RNU1-49P	ENSG00000200338	ENST00000363468	snRNA	KNOWN	None	48391	None	None	41773962	41774120	-1	None	None
17	None	ENSG00000262693	ENST00000574352	antisense	KNOWN	None	None	None	None	4978973	4981408	-1	None	None
16	MIR3670-1	ENSG00000263918	ENST00000584160	miRNA	KNOWN	None	38997	None	None	15001574	15001638	1	MIR3670	hsa-mir-3670
4	ADH1C	ENSG00000248144	ENST00000515683	polymorphic_pseudogene	KNOWN	None	251	1128	375	100257649	100274184	-1	ADH3	None
4	ADH1C	ENSG00000248144	ENST00000510055	processed_transcript	KNOWN	None	251	None	None	100264083	100273887	-1	ADH3	None
4	ADH1C	ENSG00000248144	ENST00000511397	processed_transcript	KNOWN	None	251	None	None	100264168	100273903	-1	ADH3	None
4	ADH1C	ENSG00000248144	ENST00000505942	processed_transcript	KNOWN	None	251	None	None	100266045	100273901	-1	ADH3	None
6	None	ENSG00000228124	ENST00000438877	antisense	KNOWN	None	None	None	None	90383188	90385502	1	None	None
14	LINC00639	ENSG00000259070	ENST00000553932	lincRNA	KNOWN	None	27502	None	None	39218545	39417477	-1	None	None
14	LINC00639	ENSG00000259070	ENST00000554732	lincRNA	KNOWN	None	27502	None	None	39218547	39417443	-1	None	None
14	LINC00639	ENSG00000259070	ENST00000557440	lincRNA	KNOWN	None	27502	None	None	39218562	39307662	-1	None	None
14	LINC00639	ENSG00000259070	ENST00000557019	lincRNA	KNOWN	None	27502	None	None	39308050	39417410	-1	None	None
14	LINC00639	ENSG00000259070	ENST00000556116	lincRNA	KNOWN	None	27502	None	None	39308093	39417441	-1	None	None
11	None	ENSG00000225678	ENST00000540293	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	102621801	102625674	-1	None	None
11	None	ENSG00000225678	ENST00000416164	processed_transcript	KNOWN	None	None	None	None	102622854	102624183	-1	None	None
1	None	ENSG00000230027	ENST00000434540	lincRNA	KNOWN	None	None	None	None	76507376	76531913	1	None	None
HG7_PATCH	TRBV25-1	ENSG00000260486	ENST00000562278	TR_V_gene	KNOWN	None	12205	344	113	142411213	142411717	1	None	TRBV251, TCRBV11S1A1T, TCRBV25S1
4	HMGB1P28	ENSG00000249745	ENST00000507778	unprocessed_pseudogene	KNOWN	None	39119	None	None	41844171	41845967	-1	None	None
4	MIR4451	ENSG00000266421	ENST00000580577	miRNA	KNOWN	None	41858	None	None	86643621	86643686	1	None	hsa-mir-4451
HG115_PATCH	PRKRIP1	ENSG00000261283	ENST00000565595	processed_transcript	KNOWN	None	21894	None	None	102007152	102047905	1	None	C114, FLJ13902, KRBOX3
HG115_PATCH	PRKRIP1	ENSG00000261283	ENST00000563152	processed_transcript	KNOWN	None	21894	None	None	102007174	102068726	1	None	C114, FLJ13902, KRBOX3
HG115_PATCH	PRKRIP1	ENSG00000261283	ENST00000565621	processed_transcript	KNOWN	None	21894	None	None	102007175	102068729	1	None	C114, FLJ13902, KRBOX3
HG115_PATCH	PRKRIP1	ENSG00000261283	ENST00000569623	protein_coding	KNOWN	None	21894	555	184	102007177	102069956	1	None	C114, FLJ13902, KRBOX3
HG115_PATCH	PRKRIP1	ENSG00000261283	ENST00000567424	processed_transcript	KNOWN	None	21894	None	None	102009322	102069946	1	None	C114, FLJ13902, KRBOX3
HG115_PATCH	PRKRIP1	ENSG00000261283	ENST00000568201	protein_coding	PUTATIVE	None	21894	384	127	102019499	102068821	1	None	C114, FLJ13902, KRBOX3
HG115_PATCH	PRKRIP1	ENSG00000261283	ENST00000564985	protein_coding	KNOWN	None	21894	555	184	102039643	102069946	1	None	C114, FLJ13902, KRBOX3
HG115_PATCH	PRKRIP1	ENSG00000261283	ENST00000567878	retained_intron	KNOWN	None	21894	None	None	102047637	102069946	1	None	C114, FLJ13902, KRBOX3
11	TMPRSS4-AS1	ENSG00000255274	ENST00000606951	antisense	KNOWN	None	44179	None	None	117886487	117957508	-1	None	None
11	TMPRSS4-AS1	ENSG00000255274	ENST00000527329	antisense	KNOWN	None	44179	None	None	117886487	117957508	-1	None	None
11	TMPRSS4-AS1	ENSG00000255274	ENST00000527695	antisense	KNOWN	None	44179	None	None	117886487	117957508	-1	None	None
16	MIR3180-1	ENSG00000258354	ENST00000548268	lincRNA	KNOWN	None	38382	None	None	15003744	15005202	-1	None	hsa-mir-3180-1
2	None	ENSG00000212580	ENST00000391278	snoRNA	NOVEL	None	None	None	None	50116006	50116124	-1	None	None
1	None	ENSG00000227733	ENST00000488578	sense_intronic	KNOWN	None	None	None	None	146093234	146130539	-1	None	None
1	None	ENSG00000227733	ENST00000482381	sense_intronic	KNOWN	None	None	None	None	146126404	146136197	-1	None	None
1	None	ENSG00000227733	ENST00000438173	sense_intronic	KNOWN	None	None	None	None	146126404	146159102	-1	None	None
1	None	ENSG00000227733	ENST00000596091	sense_intronic	KNOWN	None	None	None	None	146130445	146147524	-1	None	None
1	None	ENSG00000227733	ENST00000599387	sense_intronic	KNOWN	None	None	None	None	146136447	146147524	-1	None	None
1	None	ENSG00000227733	ENST00000596220	sense_intronic	KNOWN	None	None	None	None	146138288	146147524	-1	None	None
1	None	ENSG00000227733	ENST00000496508	sense_intronic	KNOWN	None	None	None	None	146138539	146149334	-1	None	None
1	None	ENSG00000227733	ENST00000464343	sense_intronic	KNOWN	None	None	None	None	146138683	146157067	-1	None	None
1	None	ENSG00000227733	ENST00000596181	sense_intronic	KNOWN	None	None	None	None	146138749	146159103	-1	None	None
1	None	ENSG00000227733	ENST00000594892	sense_intronic	KNOWN	None	None	None	None	146139033	146158477	-1	None	None
1	None	ENSG00000227733	ENST00000597236	sense_intronic	KNOWN	None	None	None	None	146147393	146159103	-1	None	None
1	None	ENSG00000227733	ENST00000598804	sense_intronic	KNOWN	None	None	None	None	146147430	146157213	-1	None	None
1	None	ENSG00000227733	ENST00000476063	sense_intronic	KNOWN	None	None	None	None	146157081	146159102	-1	None	None
11	None	ENSG00000255300	ENST00000527828	lincRNA	KNOWN	None	None	None	None	42014935	42107008	-1	None	None
11	None	ENSG00000255300	ENST00000534059	lincRNA	KNOWN	None	None	None	None	42090125	42185401	-1	None	None
4	None	ENSG00000265774	ENST00000584475	miRNA	NOVEL	None	None	None	None	86831631	86831696	-1	None	None
21	None	ENSG00000229925	ENST00000434589	processed_transcript	PUTATIVE	None	None	None	None	40260696	40275829	1	None	None
8	RN7SL709P	ENSG00000241032	ENST00000478855	misc_RNA	KNOWN	None	46725	None	None	37766259	37766553	1	None	None
5	None	ENSG00000263954	ENST00000578911	miRNA	NOVEL	None	None	None	None	129613318	129613386	-1	None	None
10	CTBP2	ENSG00000175029	ENST00000337195	protein_coding	KNOWN	CCDS7643	2495	1338	445	126676421	126849082	-1	None	ribeye
10	CTBP2	ENSG00000175029	ENST00000309035	protein_coding	KNOWN	CCDS7644	2495	2958	985	126677507	126716459	-1	None	ribeye
10	CTBP2	ENSG00000175029	ENST00000334808	protein_coding	PUTATIVE	None	2495	1542	513	126677704	126694582	-1	None	ribeye
10	CTBP2	ENSG00000175029	ENST00000531469	protein_coding	KNOWN	CCDS7643	2495	1338	445	126677794	126847285	-1	None	ribeye
10	CTBP2	ENSG00000175029	ENST00000494626	protein_coding	KNOWN	CCDS7643	2495	1338	445	126677794	126849068	-1	None	ribeye
10	CTBP2	ENSG00000175029	ENST00000411419	protein_coding	KNOWN	CCDS7643	2495	1338	445	126677794	126849595	-1	None	ribeye
10	CTBP2	ENSG00000175029	ENST00000395705	processed_transcript	KNOWN	None	2495	None	None	126681836	126691569	-1	None	ribeye
10	CTBP2	ENSG00000175029	ENST00000486955	retained_intron	KNOWN	None	2495	None	None	126686361	126691953	-1	None	ribeye
10	CTBP2	ENSG00000175029	ENST00000460976	processed_transcript	KNOWN	None	2495	None	None	126691907	126848714	-1	None	ribeye
10	CTBP2	ENSG00000175029	ENST00000493552	processed_transcript	KNOWN	None	2495	None	None	126692033	126716597	-1	None	ribeye
10	CTBP2	ENSG00000175029	ENST00000476817	processed_transcript	KNOWN	None	2495	None	None	126727566	126849739	-1	None	ribeye
10	CTBP2	ENSG00000175029	ENST00000530884	protein_coding	KNOWN	None	2495	9	2	126727615	126849630	-1	None	ribeye
10	CTBP2	ENSG00000175029	ENST00000530930	processed_transcript	KNOWN	None	2495	None	None	126789156	126826819	-1	None	ribeye
10	CTBP2	ENSG00000175029	ENST00000467395	processed_transcript	KNOWN	None	2495	None	None	126799566	126848526	-1	None	ribeye
3	MTND2P14	ENSG00000240796	ENST00000482139	unprocessed_pseudogene	KNOWN	None	42115	None	None	106621020	106621370	1	None	None
1	None	ENSG00000223905	ENST00000394513	processed_pseudogene	KNOWN	None	None	None	None	76819268	76819931	-1	None	None
20	THBD	ENSG00000178726	ENST00000377103	protein_coding	KNOWN	CCDS13148	11784	1728	575	23026270	23030378	-1	None	CD141
1	None	ENSG00000240524	ENST00000434404	transcribed_processed_pseudogene	KNOWN	None	None	None	None	229406674	229407346	-1	None	None
2	None	ENSG00000230327	ENST00000457379	processed_pseudogene	KNOWN	None	None	None	None	50815828	50816553	-1	None	None
21	None	ENSG00000272015	ENST00000606322	snoRNA	NOVEL	None	None	None	None	40266709	40266791	1	None	None
4	None	ENSG00000261496	ENST00000564854	sense_overlapping	KNOWN	None	None	None	None	86933449	86935027	-1	None	None
1	None	ENSG00000225142	ENST00000441274	processed_pseudogene	KNOWN	None	None	None	None	31581035	31581470	-1	None	None
16	None	ENSG00000265537	ENST00000580374	miRNA	KNOWN	None	None	None	None	15005077	15005170	1	None	None
20	PDRG1	ENSG00000088356	ENST00000202017	protein_coding	KNOWN	CCDS13194	16119	402	133	30532758	30539895	-1	C20orf126	dJ310O13.3
X	None	ENSG00000228965	ENST00000415403	processed_pseudogene	KNOWN	None	None	None	None	151213786	151214665	-1	None	None
3	RNU6-1308P	ENSG00000252626	ENST00000516817	snRNA	KNOWN	None	48271	None	None	106726415	106726517	1	None	None
1	None	ENSG00000237481	ENST00000418348	antisense	KNOWN	None	None	None	None	229455150	229458834	1	None	None
17	BRIP1	ENSG00000136492	ENST00000259008	protein_coding	KNOWN	CCDS11631	20473	3750	1249	59758627	59940882	-1	None	OF, BACH1, FANCJ
17	BRIP1	ENSG00000136492	ENST00000577598	protein_coding	NOVEL	None	20473	2985	994	59762133	59938900	-1	None	OF, BACH1, FANCJ
17	BRIP1	ENSG00000136492	ENST00000584322	protein_coding	PUTATIVE	None	20473	542	179	59816418	59853841	-1	None	OF, BACH1, FANCJ
17	BRIP1	ENSG00000136492	ENST00000583837	processed_transcript	KNOWN	None	20473	None	None	59853239	59857638	-1	None	OF, BACH1, FANCJ
17	BRIP1	ENSG00000136492	ENST00000579028	nonsense_mediated_decay	KNOWN	None	20473	254	83	59853762	59871034	-1	None	OF, BACH1, FANCJ
17	BRIP1	ENSG00000136492	ENST00000577913	protein_coding	KNOWN	None	20473	209	68	59934589	59940705	-1	None	OF, BACH1, FANCJ
5	RNU7-53P	ENSG00000252514	ENST00000516705	snRNA	KNOWN	None	34149	None	None	129722314	129722373	-1	None	U7.53
11	MIR194-2	ENSG00000229719	ENST00000413053	lincRNA	KNOWN	None	31565	None	None	64658898	64660921	-1	MIRN194-2	hsa-mir-194-2
11	MIR194-2	ENSG00000229719	ENST00000384864	miRNA	KNOWN	None	31565	None	None	64658827	64658911	-1	MIRN194-2	hsa-mir-194-2
1	RNU6-180P	ENSG00000252506	ENST00000516697	snRNA	KNOWN	None	47143	None	None	229518875	229518935	1	None	None
8	None	ENSG00000264965	ENST00000581217	miRNA	NOVEL	None	None	None	None	37807254	37807349	-1	None	None
7	TAS2R2P	ENSG00000203523	ENST00000421146	processed_pseudogene	KNOWN	None	20615	None	None	12530721	12531630	1	TAS2R2	T2R02, T2R2
2	C2orf49	ENSG00000135974	ENST00000258457	protein_coding	KNOWN	CCDS2068	28772	699	232	105953816	105965668	1	None	MGC5509, asw
2	C2orf49	ENSG00000135974	ENST00000410049	protein_coding	NOVEL	None	28772	573	190	105953989	105962053	1	None	MGC5509, asw
2	C2orf49	ENSG00000135974	ENST00000437250	protein_coding	KNOWN	None	28772	687	228	105953816	105962053	1	None	MGC5509, asw
1	RN7SKP276	ENSG00000252051	ENST00000516242	misc_RNA	KNOWN	None	46000	None	None	229546247	229546514	-1	None	None
11	None	ENSG00000248671	ENST00000511954	processed_transcript	KNOWN	None	None	None	None	71505409	71524891	-1	None	None
11	None	ENSG00000248671	ENST00000524714	processed_transcript	KNOWN	None	None	None	None	71507008	71524492	-1	None	None
11	None	ENSG00000248671	ENST00000508969	processed_transcript	KNOWN	None	None	None	None	71521347	71524905	-1	None	None
2	REG3A	ENSG00000172016	ENST00000409839	protein_coding	KNOWN	CCDS1965	8601	528	175	79384132	79386879	-1	PAP	HIP, REG-III, REG3, PBCGF, PAP1
2	REG3A	ENSG00000172016	ENST00000305165	protein_coding	KNOWN	CCDS1965	8601	528	175	79384218	79386875	-1	PAP	HIP, REG-III, REG3, PBCGF, PAP1
2	REG3A	ENSG00000172016	ENST00000490901	retained_intron	KNOWN	None	8601	None	None	79385774	79386879	-1	PAP	HIP, REG-III, REG3, PBCGF, PAP1
2	REG3A	ENSG00000172016	ENST00000464746	retained_intron	KNOWN	None	8601	None	None	79385975	79386870	-1	PAP	HIP, REG-III, REG3, PBCGF, PAP1
2	REG3A	ENSG00000172016	ENST00000393878	protein_coding	KNOWN	CCDS1965	8601	528	175	79384133	79386786	-1	PAP	HIP, REG-III, REG3, PBCGF, PAP1
14	None	ENSG00000259648	ENST00000559968	processed_transcript	KNOWN	None	None	None	None	68081646	68083343	1	None	None
14	None	ENSG00000259648	ENST00000559732	transcribed_processed_pseudogene	KNOWN	None	None	None	None	68082201	68082814	1	None	None
1	None	ENSG00000230331	ENST00000432935	processed_pseudogene	KNOWN	None	None	None	None	229560767	229561397	1	None	None
17	None	ENSG00000214719	ENST00000583030	processed_transcript	KNOWN	None	None	None	None	28903482	28906700	1	None	None
17	None	ENSG00000214719	ENST00000398849	processed_transcript	KNOWN	None	None	None	None	28903526	28961341	1	None	None
17	None	ENSG00000214719	ENST00000431308	processed_transcript	KNOWN	None	None	None	None	28934664	28961180	1	None	None
17	None	ENSG00000214719	ENST00000440026	processed_transcript	KNOWN	None	None	None	None	28934676	28962484	1	None	None
17	None	ENSG00000214719	ENST00000417404	processed_transcript	KNOWN	None	None	None	None	28959140	28964482	1	None	None
2	FER1L5	ENSG00000249715	ENST00000505256	retained_intron	KNOWN	None	19044	None	None	97308474	97320635	1	None	DKFZp434I0121
2	FER1L5	ENSG00000249715	ENST00000424961	unitary_pseudogene	KNOWN	None	19044	None	None	97308574	97370429	1	None	DKFZp434I0121
2	FER1L5	ENSG00000249715	ENST00000457909	retained_intron	KNOWN	None	19044	None	None	97335955	97370622	1	None	DKFZp434I0121
2	FER1L5	ENSG00000249715	ENST00000414152	unitary_pseudogene	KNOWN	None	19044	None	None	97308574	97370624	1	None	DKFZp434I0121
2	FER1L5	ENSG00000249715	ENST00000436930	unitary_pseudogene	KNOWN	None	19044	None	None	97308574	97370429	1	None	DKFZp434I0121
2	FER1L5	ENSG00000249715	ENST00000397978	unitary_pseudogene	KNOWN	None	19044	None	None	97361194	97370480	1	None	DKFZp434I0121
1	TPI1P1	ENSG00000226415	ENST00000420977	processed_pseudogene	KNOWN	None	35449	None	None	77165474	77166223	1	None	None
7	HIP1	ENSG00000127946	ENST00000336926	protein_coding	KNOWN	CCDS34669	4913	3114	1037	75162621	75368265	-1	None	ILWEQ
7	HIP1	ENSG00000127946	ENST00000434438	protein_coding	NOVEL	CCDS59060	4913	2961	986	75163409	75368259	-1	None	ILWEQ
7	HIP1	ENSG00000127946	ENST00000404944	retained_intron	KNOWN	None	4913	None	None	75187526	75192689	-1	None	ILWEQ
7	HIP1	ENSG00000127946	ENST00000420909	protein_coding	PUTATIVE	None	4913	438	145	75211408	75241161	-1	None	ILWEQ
7	HIP1	ENSG00000127946	ENST00000485723	processed_transcript	KNOWN	None	4913	None	None	75283731	75368253	-1	None	ILWEQ
7	HIP1	ENSG00000127946	ENST00000479835	processed_transcript	KNOWN	None	4913	None	None	75362778	75368280	-1	None	ILWEQ
12	DSTNP2	ENSG00000248593	ENST00000602547	processed_transcript	KNOWN	None	34546	None	None	6993846	6994950	1	None	None
12	DSTNP2	ENSG00000248593	ENST00000504533	transcribed_unprocessed_pseudogene	KNOWN	None	34546	None	None	6994062	6994848	1	None	None
3	PSMD12P	ENSG00000240135	ENST00000490962	unprocessed_pseudogene	KNOWN	None	30153	None	None	72925888	72927253	-1	None	None
17	TRPV1	ENSG00000196689	ENST00000399759	protein_coding	KNOWN	CCDS45576	12716	2520	839	3468738	3499125	-1	VR1	None
17	TRPV1	ENSG00000196689	ENST00000571088	protein_coding	KNOWN	CCDS45576	12716	2520	839	3468738	3500392	-1	VR1	None
17	TRPV1	ENSG00000196689	ENST00000399756	protein_coding	KNOWN	CCDS45576	12716	2520	839	3469088	3496171	-1	VR1	None
17	TRPV1	ENSG00000196689	ENST00000425167	protein_coding	NOVEL	None	12716	2553	850	3470072	3495661	-1	VR1	None
17	TRPV1	ENSG00000196689	ENST00000574085	retained_intron	KNOWN	None	12716	None	None	3470072	3495661	-1	VR1	None
17	TRPV1	ENSG00000196689	ENST00000576351	protein_coding	NOVEL	None	12716	2490	829	3470107	3495677	-1	VR1	None
17	TRPV1	ENSG00000196689	ENST00000310522	protein_coding	NOVEL	None	12716	2340	779	3470109	3495644	-1	VR1	None
17	TRPV1	ENSG00000196689	ENST00000570742	retained_intron	KNOWN	None	12716	None	None	3477116	3481182	-1	VR1	None
17	TRPV1	ENSG00000196689	ENST00000174621	protein_coding	KNOWN	None	12716	2514	837	3468743	3500392	-1	VR1	None
2	None	ENSG00000216191	ENST00000401372	miRNA	NOVEL	None	None	None	None	50923310	50923400	-1	None	None
2	MIR3130-1	ENSG00000263468	ENST00000579223	miRNA	KNOWN	None	38275	None	None	207647958	207648032	1	MIR3130-3	hsa-mir-3130-1, hsa-mir-3130-3
2	MIR3130-2	ENSG00000263468	ENST00000579223	miRNA	KNOWN	None	38363	None	None	207647958	207648032	1	MIR3130-4	hsa-mir-3130-2, hsa-mir-3130-4
16	None	ENSG00000183458	ENST00000534164	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	15005408	15029565	1	None	None
16	None	ENSG00000183458	ENST00000537889	processed_transcript	KNOWN	None	None	None	None	15014193	15015944	1	None	None
16	None	ENSG00000183458	ENST00000545628	unprocessed_pseudogene	KNOWN	None	None	None	None	15012815	15020009	1	None	None
8	None	ENSG00000270865	ENST00000605620	processed_pseudogene	KNOWN	None	None	None	None	37840588	37840891	1	None	None
2	None	ENSG00000215968	ENST00000401149	miRNA	NOVEL	None	None	None	None	51026102	51026193	-1	None	None
5	C5orf22	ENSG00000082213	ENST00000325366	protein_coding	KNOWN	CCDS3895	25639	1329	442	31532373	31555165	1	None	FLJ11193
5	C5orf22	ENSG00000082213	ENST00000510659	nonsense_mediated_decay	KNOWN	None	25639	411	136	31532394	31554915	1	None	FLJ11193
5	C5orf22	ENSG00000082213	ENST00000513967	nonsense_mediated_decay	KNOWN	None	25639	411	136	31532396	31551501	1	None	FLJ11193
5	C5orf22	ENSG00000082213	ENST00000515409	retained_intron	KNOWN	None	25639	None	None	31532402	31534704	1	None	FLJ11193
5	C5orf22	ENSG00000082213	ENST00000507818	protein_coding	PUTATIVE	None	25639	470	155	31532402	31536000	1	None	FLJ11193
5	C5orf22	ENSG00000082213	ENST00000517780	processed_transcript	KNOWN	None	25639	None	None	31532402	31538793	1	None	FLJ11193
5	C5orf22	ENSG00000082213	ENST00000511208	nonsense_mediated_decay	KNOWN	None	25639	150	49	31532406	31538791	1	None	FLJ11193
5	C5orf22	ENSG00000082213	ENST00000504464	nonsense_mediated_decay	KNOWN	None	25639	411	136	31532423	31545821	1	None	FLJ11193
5	C5orf22	ENSG00000082213	ENST00000510530	retained_intron	KNOWN	None	25639	None	None	31538280	31545821	1	None	FLJ11193
5	C5orf22	ENSG00000082213	ENST00000504866	processed_transcript	KNOWN	None	25639	None	None	31545778	31554946	1	None	FLJ11193
5	C5orf22	ENSG00000082213	ENST00000355907	protein_coding	KNOWN	None	25639	492	163	31532373	31555154	1	None	FLJ11193
1	None	ENSG00000229447	ENST00000452686	processed_pseudogene	KNOWN	None	None	None	None	31736092	31736528	-1	None	None
2	None	ENSG00000260171	ENST00000561915	lincRNA	KNOWN	None	None	None	None	207685914	207687018	-1	None	None
2	None	ENSG00000238165	ENST00000426912	processed_pseudogene	KNOWN	None	None	None	None	51056580	51056816	-1	None	None
X	MAGEA5	ENSG00000242520	ENST00000446757	transcribed_unprocessed_pseudogene	KNOWN	None	6803	None	None	151283071	151284012	-1	MAGE5	MGC129526, CT1.5
X	MAGEA5	ENSG00000242520	ENST00000427663	unprocessed_pseudogene	KNOWN	None	6803	None	None	151282526	151286444	-1	MAGE5	MGC129526, CT1.5
1	RNA5SP69	ENSG00000201347	ENST00000364477	rRNA	KNOWN	None	42846	None	None	178530048	178530164	1	RN5S69	None
7	BRAF	ENSG00000157764	ENST00000496384	protein_coding	PUTATIVE	None	1097	1127	374	140424943	140482957	-1	None	BRAF1
7	BRAF	ENSG00000157764	ENST00000288602	protein_coding	KNOWN	CCDS5863	1097	2301	766	140434279	140624564	-1	None	BRAF1
7	BRAF	ENSG00000157764	ENST00000479537	nonsense_mediated_decay	KNOWN	None	1097	309	102	140434321	140454011	-1	None	BRAF1
7	BRAF	ENSG00000157764	ENST00000497784	nonsense_mediated_decay	KNOWN	None	1097	585	194	140434397	140624458	-1	None	BRAF1
7	BRAF	ENSG00000157764	ENST00000469930	retained_intron	KNOWN	None	1097	None	None	140533861	140624509	-1	None	BRAF1
1	None	ENSG00000264686	ENST00000578124	miRNA	NOVEL	None	None	None	None	77183825	77183926	1	None	None
HG115_PATCH	None	ENSG00000261535	ENST00000566572	antisense	KNOWN	None	None	None	None	101796635	101797743	-1	None	None
2	None	ENSG00000229321	ENST00000438070	lincRNA	KNOWN	None	None	None	None	207731519	207733013	1	None	None
11	CD81	ENSG00000110651	ENST00000475945	protein_coding	PUTATIVE	None	1701	278	91	2397407	2417130	1	TAPA1	TAPA-1, TSPAN28
11	CD81	ENSG00000110651	ENST00000530648	protein_coding	PUTATIVE	None	1701	155	50	2397432	2416659	1	TAPA1	TAPA-1, TSPAN28
11	CD81	ENSG00000110651	ENST00000263645	protein_coding	KNOWN	CCDS7734	1701	711	236	2398524	2418649	1	TAPA1	TAPA-1, TSPAN28
11	CD81	ENSG00000110651	ENST00000533417	protein_coding	PUTATIVE	None	1701	444	147	2400386	2416750	1	TAPA1	TAPA-1, TSPAN28
11	CD81	ENSG00000110651	ENST00000492627	protein_coding	PUTATIVE	None	1701	498	165	2403690	2418246	1	TAPA1	TAPA-1, TSPAN28
11	CD81	ENSG00000110651	ENST00000527343	protein_coding	PUTATIVE	None	1701	678	225	2405880	2418138	1	TAPA1	TAPA-1, TSPAN28
11	CD81	ENSG00000110651	ENST00000464784	protein_coding	PUTATIVE	None	1701	665	220	2405893	2418136	1	TAPA1	TAPA-1, TSPAN28
11	CD81	ENSG00000110651	ENST00000493525	protein_coding	PUTATIVE	None	1701	297	98	2406896	2416243	1	TAPA1	TAPA-1, TSPAN28
11	CD81	ENSG00000110651	ENST00000381036	protein_coding	PUTATIVE	None	1701	825	274	2407287	2418146	1	TAPA1	TAPA-1, TSPAN28
11	CD81	ENSG00000110651	ENST00000492252	protein_coding	PUTATIVE	None	1701	627	208	2407316	2417944	1	TAPA1	TAPA-1, TSPAN28
11	CD81	ENSG00000110651	ENST00000526072	protein_coding	PUTATIVE	None	1701	498	165	2411325	2418534	1	TAPA1	TAPA-1, TSPAN28
11	CD81	ENSG00000110651	ENST00000524805	processed_transcript	KNOWN	None	1701	None	None	2411333	2417198	1	TAPA1	TAPA-1, TSPAN28
11	CD81	ENSG00000110651	ENST00000530239	retained_intron	KNOWN	None	1701	None	None	2411676	2416816	1	TAPA1	TAPA-1, TSPAN28
11	CD81	ENSG00000110651	ENST00000531840	retained_intron	KNOWN	None	1701	None	None	2412613	2418626	1	TAPA1	TAPA-1, TSPAN28
11	CD81	ENSG00000110651	ENST00000481687	protein_coding	PUTATIVE	None	1701	729	242	2415078	2418209	1	TAPA1	TAPA-1, TSPAN28
11	CD81	ENSG00000110651	ENST00000468153	retained_intron	KNOWN	None	1701	None	None	2416080	2418482	1	TAPA1	TAPA-1, TSPAN28
11	CD81	ENSG00000110651	ENST00000481386	retained_intron	KNOWN	None	1701	None	None	2417543	2418529	1	TAPA1	TAPA-1, TSPAN28
9	RNU6-559P	ENSG00000251960	ENST00000516151	snRNA	KNOWN	None	47522	None	None	15143287	15143384	1	None	None
1	MIR4424	ENSG00000266417	ENST00000585257	miRNA	KNOWN	None	41805	None	None	178646884	178646969	1	None	hsa-mir-4424
1	RNU6-161P	ENSG00000199921	ENST00000363051	snRNA	KNOWN	None	47124	None	None	77218820	77218925	1	None	None
1	None	ENSG00000226920	ENST00000434311	lincRNA	KNOWN	None	None	None	None	229576031	229576767	-1	None	None
3	None	ENSG00000239455	ENST00000483126	processed_pseudogene	KNOWN	None	None	None	None	106823758	106825847	-1	None	None
5	None	ENSG00000270232	ENST00000603788	processed_pseudogene	KNOWN	None	None	None	None	99381632	99382078	-1	None	None
9	RN7SL157P	ENSG00000263817	ENST00000581504	misc_RNA	KNOWN	None	46173	None	None	15348166	15348453	1	None	None
HG115_PATCH	None	ENSG00000260294	ENST00000562603	processed_transcript	KNOWN	None	None	None	None	101816779	101818248	1	None	None
1	None	ENSG00000237552	ENST00000427806	lincRNA	KNOWN	None	None	None	None	77223809	77244952	-1	None	None
2	MIR2355	ENSG00000253008	ENST00000517199	miRNA	KNOWN	None	38328	None	None	207974711	207974797	-1	None	hsa-mir-2355
13	None	ENSG00000234772	ENST00000444744	antisense	KNOWN	None	None	None	None	27810419	27810948	-1	None	None
1	None	ENSG00000223635	ENST00000417605	antisense	KNOWN	None	None	None	None	229644248	229650019	1	None	None
1	PTPN2P1	ENSG00000228196	ENST00000423212	processed_pseudogene	KNOWN	None	9653	None	None	178715818	178716889	-1	PTPN2P, PTPTP1	None
16	None	ENSG00000260260	ENST00000563192	lincRNA	KNOWN	None	None	None	None	2204798	2205359	-1	None	None
HG115_PATCH	None	ENSG00000262778	ENST00000577153	snoRNA	NOVEL	None	None	None	None	101837356	101837444	-1	None	None
2	KLF7-IT1	ENSG00000237892	ENST00000428777	sense_intronic	KNOWN	None	41355	None	None	207985608	207986768	-1	None	None
8	None	ENSG00000260949	ENST00000563059	sense_overlapping	KNOWN	None	None	None	None	37920399	37921309	1	None	None
4	GRID2	ENSG00000152208	ENST00000282020	protein_coding	KNOWN	CCDS3637	4576	3024	1007	93225550	94695707	1	None	GluD2, GluR-delta-2
4	GRID2	ENSG00000152208	ENST00000505687	processed_transcript	KNOWN	None	4576	None	None	93225636	94138418	1	None	GluD2, GluR-delta-2
4	GRID2	ENSG00000152208	ENST00000510992	protein_coding	NOVEL	None	4576	2739	912	93225808	94693649	1	None	GluD2, GluR-delta-2
4	GRID2	ENSG00000152208	ENST00000515744	processed_transcript	KNOWN	None	4576	None	None	93744100	94033398	1	None	GluD2, GluR-delta-2
4	GRID2	ENSG00000152208	ENST00000502699	nonsense_mediated_decay	KNOWN	None	4576	492	163	93744100	94087312	1	None	GluD2, GluR-delta-2
4	GRID2	ENSG00000152208	ENST00000512631	protein_coding	PUTATIVE	None	4576	219	72	94125100	94159572	1	None	GluD2, GluR-delta-2
4	GRID2	ENSG00000152208	ENST00000513976	nonsense_mediated_decay	KNOWN	None	4576	189	62	94159522	94227473	1	None	GluD2, GluR-delta-2
3	RPL6P8	ENSG00000242285	ENST00000490136	processed_pseudogene	KNOWN	None	37044	None	None	160302733	160303575	1	None	None
HG115_PATCH	None	ENSG00000266484	ENST00000578858	miRNA	NOVEL	None	None	None	None	101881601	101881686	-1	None	None
3	C3orf58	ENSG00000181744	ENST00000315691	protein_coding	KNOWN	CCDS3130	28490	1293	430	143690640	143711201	1	None	MGC33365, DIA1
3	C3orf58	ENSG00000181744	ENST00000493396	processed_transcript	PUTATIVE	None	28490	None	None	143691479	143767561	1	None	MGC33365, DIA1
3	C3orf58	ENSG00000181744	ENST00000491798	processed_transcript	PUTATIVE	None	28490	None	None	143691497	143704404	1	None	MGC33365, DIA1
3	C3orf58	ENSG00000181744	ENST00000483808	retained_intron	KNOWN	None	28490	None	None	143691719	143704997	1	None	MGC33365, DIA1
3	C3orf58	ENSG00000181744	ENST00000495414	protein_coding	PUTATIVE	CCDS46929	28490	666	221	143691923	143709441	1	None	MGC33365, DIA1
3	C3orf58	ENSG00000181744	ENST00000492452	protein_coding	PUTATIVE	None	28490	639	212	143691932	143708611	1	None	MGC33365, DIA1
3	C3orf58	ENSG00000181744	ENST00000441925	protein_coding	PUTATIVE	None	28490	579	192	143692450	143711209	1	None	MGC33365, DIA1
1	RNU4-21P	ENSG00000199672	ENST00000362802	snRNA	KNOWN	None	46957	None	None	229670811	229670936	-1	None	None
2	None	ENSG00000216011	ENST00000401192	miRNA	NOVEL	None	None	None	None	51170430	51170524	-1	None	None
1	None	ENSG00000229044	ENST00000430143	antisense	KNOWN	None	None	None	None	31805914	31819646	-1	None	None
14	None	ENSG00000201529	ENST00000364659	misc_RNA	NOVEL	None	None	None	None	68084019	68084132	-1	None	None
12	None	ENSG00000257456	ENST00000549070	antisense	KNOWN	None	None	None	None	29672664	29682907	1	None	None
1	RNA5SP78	ENSG00000201492	ENST00000364622	rRNA	KNOWN	None	42855	None	None	229685652	229685769	1	RN5S78	None
HG115_PATCH	None	ENSG00000263739	ENST00000581766	miRNA	NOVEL	None	None	None	None	101936383	101936467	1	None	None
2	None	ENSG00000272385	ENST00000606281	miRNA	NOVEL	None	None	None	None	51188383	51188471	1	None	None
8	None	ENSG00000272128	ENST00000607091	processed_transcript	KNOWN	None	None	None	None	37956989	37957449	1	None	None
1	None	ENSG00000221720	ENST00000408793	miRNA	NOVEL	None	None	None	None	77473429	77473500	1	None	None
3	LINC00883	ENSG00000243701	ENST00000466734	lincRNA	KNOWN	None	48569	None	None	106959539	106967195	1	None	None
3	LINC00883	ENSG00000243701	ENST00000463143	lincRNA	KNOWN	None	48569	None	None	106959539	107045548	1	None	None
3	LINC00883	ENSG00000243701	ENST00000490441	lincRNA	KNOWN	None	48569	None	None	106959539	107045811	1	None	None
3	LINC00883	ENSG00000243701	ENST00000473550	lincRNA	KNOWN	None	48569	None	None	106959568	106964355	1	None	None
3	LINC00883	ENSG00000243701	ENST00000495228	lincRNA	KNOWN	None	48569	None	None	106959869	107004511	1	None	None
2	None	ENSG00000224342	ENST00000435643	lincRNA	KNOWN	None	None	None	None	208038358	208087514	1	None	None
3	None	ENSG00000211483	ENST00000390149	miRNA	NOVEL	None	None	None	None	142884490	142884579	1	None	None
1	HMGN2P19	ENSG00000229367	ENST00000425149	processed_pseudogene	KNOWN	None	39383	None	None	229706279	229706543	1	None	None
7	None	ENSG00000226690	ENST00000418428	lincRNA	KNOWN	None	None	None	None	12536055	12581536	1	None	None
7	None	ENSG00000226690	ENST00000443874	lincRNA	KNOWN	None	None	None	None	12544025	12568554	1	None	None
7	None	ENSG00000226690	ENST00000424453	lincRNA	KNOWN	None	None	None	None	12544050	12580761	1	None	None
1	None	ENSG00000215899	ENST00000401075	processed_pseudogene	KNOWN	None	None	None	None	31960436	31961777	-1	None	None
HG115_PATCH	None	ENSG00000261518	ENST00000563165	unprocessed_pseudogene	KNOWN	None	None	None	None	101970536	101972810	-1	None	None
8	MYOM2	ENSG00000036448	ENST00000262113	protein_coding	KNOWN	CCDS5957	7614	4398	1465	1993155	2093380	1	None	None
8	MYOM2	ENSG00000036448	ENST00000523438	protein_coding	PUTATIVE	None	7614	2673	890	1993184	2093379	1	None	None
8	MYOM2	ENSG00000036448	ENST00000519518	processed_transcript	KNOWN	None	7614	None	None	2029921	2037887	1	None	None
8	MYOM2	ENSG00000036448	ENST00000518803	processed_transcript	KNOWN	None	7614	None	None	2033132	2041852	1	None	None
8	MYOM2	ENSG00000036448	ENST00000519372	processed_transcript	KNOWN	None	7614	None	None	2045875	2054088	1	None	None
8	MYOM2	ENSG00000036448	ENST00000518203	processed_transcript	KNOWN	None	7614	None	None	2048234	2054341	1	None	None
8	MYOM2	ENSG00000036448	ENST00000517520	processed_transcript	KNOWN	None	7614	None	None	2049793	2054306	1	None	None
8	MYOM2	ENSG00000036448	ENST00000523443	retained_intron	KNOWN	None	7614	None	None	2057078	2077163	1	None	None
8	MYOM2	ENSG00000036448	ENST00000520072	processed_transcript	KNOWN	None	7614	None	None	2066654	2088741	1	None	None
8	MYOM2	ENSG00000036448	ENST00000519631	processed_transcript	KNOWN	None	7614	None	None	2067047	2088749	1	None	None
8	MYOM2	ENSG00000036448	ENST00000523595	processed_transcript	KNOWN	None	7614	None	None	2075723	2092834	1	None	None
8	MYOM2	ENSG00000036448	ENST00000519268	processed_transcript	KNOWN	None	7614	None	None	2075785	2092767	1	None	None
8	MYOM2	ENSG00000036448	ENST00000520298	processed_transcript	KNOWN	None	7614	None	None	2088666	2093362	1	None	None
8	MYOM2	ENSG00000036448	ENST00000520779	processed_transcript	KNOWN	None	7614	None	None	2088772	2113475	1	None	None
8	MYOM2	ENSG00000036448	ENST00000518513	retained_intron	KNOWN	None	7614	None	None	2091273	2092690	1	None	None
9	NTMT1	ENSG00000148335	ENST00000372486	protein_coding	KNOWN	CCDS35160	23373	672	223	132371163	132398209	1	C9orf32, METTL11A	AD-003, HOMT1A
9	NTMT1	ENSG00000148335	ENST00000372483	protein_coding	KNOWN	CCDS35160	23373	672	223	132388452	132398209	1	C9orf32, METTL11A	AD-003, HOMT1A
9	NTMT1	ENSG00000148335	ENST00000481189	nonsense_mediated_decay	KNOWN	None	23373	213	70	132388454	132397536	1	C9orf32, METTL11A	AD-003, HOMT1A
9	NTMT1	ENSG00000148335	ENST00000459968	protein_coding	PUTATIVE	None	23373	330	109	132388479	132395955	1	C9orf32, METTL11A	AD-003, HOMT1A
9	NTMT1	ENSG00000148335	ENST00000482347	protein_coding	PUTATIVE	None	23373	408	135	132388479	132398209	1	C9orf32, METTL11A	AD-003, HOMT1A
9	NTMT1	ENSG00000148335	ENST00000372481	protein_coding	NOVEL	None	23373	438	145	132388484	132397752	1	C9orf32, METTL11A	AD-003, HOMT1A
9	NTMT1	ENSG00000148335	ENST00000372480	protein_coding	KNOWN	CCDS35160	23373	672	223	132388723	132397771	1	C9orf32, METTL11A	AD-003, HOMT1A
9	NTMT1	ENSG00000148335	ENST00000486391	processed_transcript	KNOWN	None	23373	None	None	132390796	132397550	1	C9orf32, METTL11A	AD-003, HOMT1A
1	None	ENSG00000230498	ENST00000454305	antisense	KNOWN	None	None	None	None	77533605	77544167	1	None	None
14	COX7A2P1	ENSG00000258626	ENST00000553847	processed_pseudogene	KNOWN	None	20006	None	None	68119017	68119331	-1	COX7A3P, COX7AP1	None
X	None	ENSG00000237926	ENST00000428996	unprocessed_pseudogene	KNOWN	None	None	None	None	50905696	50906509	1	None	None
1	RNU6-40P	ENSG00000206981	ENST00000384254	snRNA	KNOWN	None	34248	None	None	31970419	31970525	-1	RNU6-40	None
2	None	ENSG00000231918	ENST00000440698	lincRNA	KNOWN	None	None	None	None	51259739	52635055	1	None	None
15	None	ENSG00000258594	ENST00000553822	lincRNA	KNOWN	None	None	None	None	27866680	27874435	1	None	None
X	None	ENSG00000229151	ENST00000425150	antisense	KNOWN	None	None	None	None	51099796	51139314	-1	None	None
3	PBX2P1	ENSG00000244171	ENST00000560287	processed_transcript	KNOWN	None	8635	None	None	142895127	142897305	1	PBX2, PBXP1	None
3	PBX2P1	ENSG00000244171	ENST00000493219	transcribed_processed_pseudogene	KNOWN	None	8635	None	None	142895169	142896459	1	PBX2, PBXP1	None
3	PBX2P1	ENSG00000244171	ENST00000538741	processed_pseudogene	KNOWN	None	8635	None	None	142895127	142897307	1	PBX2, PBXP1	None
1	None	ENSG00000228682	ENST00000418618	lincRNA	KNOWN	None	None	None	None	31971841	31974167	1	None	None
5	None	ENSG00000270230	ENST00000604233	processed_pseudogene	KNOWN	None	None	None	None	99382154	99382674	1	None	None
11	None	ENSG00000270775	ENST00000605239	processed_pseudogene	KNOWN	None	None	None	None	64792862	64793987	-1	None	None
3	None	ENSG00000207084	ENST00000384356	snoRNA	NOVEL	None	None	None	None	160414717	160414848	1	None	None
8	None	ENSG00000253437	ENST00000519081	sense_intronic	KNOWN	None	None	None	None	37979892	37979998	1	None	None
1	None	ENSG00000213028	ENST00000434580	processed_pseudogene	KNOWN	None	None	None	None	229824746	229825651	-1	None	None
1	None	ENSG00000201791	ENST00000364921	snoRNA	NOVEL	None	None	None	None	178722789	178722907	-1	None	None
8	None	ENSG00000254923	ENST00000526505	processed_pseudogene	KNOWN	None	None	None	None	11985616	11986807	-1	None	None
7	None	ENSG00000200397	ENST00000363527	misc_RNA	NOVEL	None	None	None	None	86847927	86848028	-1	None	None
1	None	ENSG00000223907	ENST00000412068	lincRNA	KNOWN	None	None	None	None	31984036	31989846	1	None	None
1	None	ENSG00000223907	ENST00000417514	lincRNA	KNOWN	None	None	None	None	31987964	31989190	1	None	None
5	MTND5P10	ENSG00000271687	ENST00000603719	processed_pseudogene	KNOWN	None	42272	None	None	99382681	99384489	-1	None	None
3	None	ENSG00000271266	ENST00000604542	processed_pseudogene	KNOWN	None	None	None	None	72933385	72933830	1	None	None
HG115_PATCH	None	ENSG00000263152	ENST00000573916	misc_RNA	NOVEL	None	None	None	None	101980149	101980250	1	None	None
15	None	ENSG00000264256	ENST00000582049	miRNA	NOVEL	None	None	None	None	41167511	41167608	1	None	None
2	None	ENSG00000234902	ENST00000417096	lincRNA	KNOWN	None	None	None	None	208051441	208100607	-1	None	None
2	None	ENSG00000234902	ENST00000448786	lincRNA	KNOWN	None	None	None	None	208084575	208100790	-1	None	None
1	None	ENSG00000226084	ENST00000471722	processed_pseudogene	KNOWN	None	None	None	None	77594799	77595353	1	None	None
1	None	ENSG00000226084	ENST00000535687	processed_pseudogene	KNOWN	None	None	None	None	77594768	77595384	1	None	None
HG104_HG975_PATCH	GRINA	ENSG00000261721	ENST00000562033	protein_coding	KNOWN	None	4589	822	273	145072253	145074543	1	NMDARA1	HNRGW, TMBIM3, LFG1
HG104_HG975_PATCH	GRINA	ENSG00000261721	ENST00000569564	protein_coding	KNOWN	None	4589	1116	371	145072270	145075585	1	NMDARA1	HNRGW, TMBIM3, LFG1
HG104_HG975_PATCH	GRINA	ENSG00000261721	ENST00000565663	protein_coding	KNOWN	None	4589	303	100	145072847	145073696	1	NMDARA1	HNRGW, TMBIM3, LFG1
HG104_HG975_PATCH	GRINA	ENSG00000261721	ENST00000563820	retained_intron	KNOWN	None	4589	None	None	145073464	145074133	1	NMDARA1	HNRGW, TMBIM3, LFG1
HG104_HG975_PATCH	GRINA	ENSG00000261721	ENST00000569797	protein_coding	PUTATIVE	None	4589	1050	349	145073624	145075009	1	NMDARA1	HNRGW, TMBIM3, LFG1
HG104_HG975_PATCH	GRINA	ENSG00000261721	ENST00000563950	retained_intron	KNOWN	None	4589	None	None	145073703	145074678	1	NMDARA1	HNRGW, TMBIM3, LFG1
HG104_HG975_PATCH	GRINA	ENSG00000261721	ENST00000569361	protein_coding	PUTATIVE	None	4589	564	187	145073726	145074992	1	NMDARA1	HNRGW, TMBIM3, LFG1
HG104_HG975_PATCH	GRINA	ENSG00000261721	ENST00000566404	protein_coding	PUTATIVE	None	4589	553	183	145073917	145075264	1	NMDARA1	HNRGW, TMBIM3, LFG1
HG104_HG975_PATCH	GRINA	ENSG00000261721	ENST00000565285	retained_intron	KNOWN	None	4589	None	None	145074344	145075144	1	NMDARA1	HNRGW, TMBIM3, LFG1
1	RNA5SP57	ENSG00000238765	ENST00000459463	rRNA	KNOWN	None	42834	None	None	146124161	146124283	1	RN5S57	None
1	None	ENSG00000232750	ENST00000431587	processed_pseudogene	KNOWN	None	None	None	None	179004444	179004787	-1	None	None
16	SNORD60	ENSG00000206630	ENST00000383903	snoRNA	KNOWN	None	10217	None	None	2205024	2205106	-1	RNU60	U60
14	None	ENSG00000272253	ENST00000607639	rRNA	NOVEL	None	None	None	None	68123822	68123928	-1	None	None
1	None	ENSG00000229167	ENST00000435872	antisense	KNOWN	None	None	None	None	32037186	32041174	-1	None	None
8	SCRT1	ENSG00000170616	ENST00000332135	protein_coding	KNOWN	CCDS6421	15950	1047	348	145554228	145559943	-1	None	DKFZp547F072, ZNF898
HG115_PATCH	None	ENSG00000259965	ENST00000567187	unprocessed_pseudogene	KNOWN	None	None	None	None	101980596	101982395	1	None	None
1	HMGB1P26	ENSG00000225984	ENST00000452520	processed_pseudogene	KNOWN	None	39117	None	None	229840981	229841608	-1	None	None
11	RN7SL114P	ENSG00000266123	ENST00000582042	misc_RNA	KNOWN	None	46130	None	None	64817249	64817511	-1	None	None
3	None	ENSG00000260572	ENST00000566372	antisense	KNOWN	None	None	None	None	160471216	160472930	-1	None	None
5	None	ENSG00000270906	ENST00000604257	processed_pseudogene	KNOWN	None	None	None	None	99384692	99386066	-1	None	None
20	DLGAP4	ENSG00000080845	ENST00000373913	protein_coding	KNOWN	CCDS13274	24476	2970	989	34894258	35157040	1	None	DAP4, KIAA0964, SAPAP4
20	DLGAP4	ENSG00000080845	ENST00000373907	protein_coding	KNOWN	None	24476	2979	992	34995552	35155593	1	None	DAP4, KIAA0964, SAPAP4
20	DLGAP4	ENSG00000080845	ENST00000475894	processed_transcript	KNOWN	None	24476	None	None	35089741	35157040	1	None	DAP4, KIAA0964, SAPAP4
20	DLGAP4	ENSG00000080845	ENST00000482872	processed_transcript	KNOWN	None	24476	None	None	35089871	35128763	1	None	DAP4, KIAA0964, SAPAP4
20	DLGAP4	ENSG00000080845	ENST00000495241	processed_transcript	KNOWN	None	24476	None	None	35089881	35129000	1	None	DAP4, KIAA0964, SAPAP4
20	DLGAP4	ENSG00000080845	ENST00000491207	processed_transcript	KNOWN	None	24476	None	None	35089883	35127720	1	None	DAP4, KIAA0964, SAPAP4
20	DLGAP4	ENSG00000080845	ENST00000482037	processed_transcript	KNOWN	None	24476	None	None	35089895	35128606	1	None	DAP4, KIAA0964, SAPAP4
20	DLGAP4	ENSG00000080845	ENST00000340491	protein_coding	KNOWN	CCDS13275	24476	1362	453	35090150	35155642	1	None	DAP4, KIAA0964, SAPAP4
20	DLGAP4	ENSG00000080845	ENST00000479220	processed_transcript	KNOWN	None	24476	None	None	35101522	35128673	1	None	DAP4, KIAA0964, SAPAP4
20	DLGAP4	ENSG00000080845	ENST00000489701	nonsense_mediated_decay	KNOWN	None	24476	735	244	35120786	35155634	1	None	DAP4, KIAA0964, SAPAP4
20	DLGAP4	ENSG00000080845	ENST00000479951	processed_transcript	KNOWN	None	24476	None	None	35125398	35128930	1	None	DAP4, KIAA0964, SAPAP4
20	DLGAP4	ENSG00000080845	ENST00000478910	retained_intron	KNOWN	None	24476	None	None	35126220	35155634	1	None	DAP4, KIAA0964, SAPAP4
20	DLGAP4	ENSG00000080845	ENST00000497862	processed_transcript	KNOWN	None	24476	None	None	35128600	35155250	1	None	DAP4, KIAA0964, SAPAP4
20	DLGAP4	ENSG00000080845	ENST00000477195	processed_transcript	KNOWN	None	24476	None	None	35152729	35155462	1	None	DAP4, KIAA0964, SAPAP4
20	DLGAP4	ENSG00000080845	ENST00000401952	protein_coding	KNOWN	CCDS13274	24476	2970	989	34995444	35157038	1	None	DAP4, KIAA0964, SAPAP4
20	DLGAP4	ENSG00000080845	ENST00000339266	protein_coding	KNOWN	None	24476	2979	992	35060121	35157038	1	None	DAP4, KIAA0964, SAPAP4
HSCHR6_MHC_APD	None	ENSG00000231350	ENST00000460396	processed_transcript	NOVEL	None	None	None	None	30959737	30962403	1	None	None
HSCHR6_MHC_APD	None	ENSG00000231350	ENST00000430305	protein_coding	NOVEL	None	None	1701	566	30959737	30965917	1	None	None
HSCHR6_MHC_APD	None	ENSG00000231350	ENST00000547796	protein_coding	KNOWN	None	None	1251	416	30959727	30965912	1	None	None
11	HNRNPA1P72	ENSG00000254713	ENST00000529511	processed_pseudogene	KNOWN	None	48802	None	None	84256174	84257889	-1	None	None
2	None	ENSG00000237374	ENST00000416262	lincRNA	KNOWN	None	None	None	None	51429219	51448902	-1	None	None
2	None	ENSG00000237374	ENST00000447773	lincRNA	KNOWN	None	None	None	None	51429219	51448902	-1	None	None
12	None	ENSG00000242986	ENST00000480369	processed_pseudogene	KNOWN	None	None	None	None	29811309	29811731	-1	None	None
17	SMURF2P1	ENSG00000248121	ENST00000579301	processed_transcript	KNOWN	None	44402	None	None	28927814	28942998	1	None	None
17	SMURF2P1	ENSG00000248121	ENST00000514992	transcribed_unprocessed_pseudogene	KNOWN	None	44402	None	None	28927883	28942998	1	None	None
17	SMURF2P1	ENSG00000248121	ENST00000578265	processed_transcript	KNOWN	None	44402	None	None	28934584	28999807	1	None	None
X	None	ENSG00000266440	ENST00000582964	miRNA	NOVEL	None	None	None	None	128955798	128955898	1	None	None
1	None	ENSG00000264078	ENST00000581333	antisense	KNOWN	None	None	None	None	32110295	32114972	1	None	None
X	None	ENSG00000266560	ENST00000583636	processed_transcript	KNOWN	None	None	None	None	151283466	151306965	-1	None	None
X	None	ENSG00000266560	ENST00000509345	processed_transcript	KNOWN	None	None	None	None	151283466	151306993	-1	None	None
X	None	ENSG00000266560	ENST00000577437	processed_transcript	KNOWN	None	None	None	None	151296813	151307028	-1	None	None
7	TP53TG1	ENSG00000182165	ENST00000359941	processed_transcript	KNOWN	None	17026	None	None	86954541	86974831	-1	TP53AP1	H_RG012D21.9, LINC00096
7	TP53TG1	ENSG00000182165	ENST00000416560	processed_transcript	KNOWN	None	17026	None	None	86954615	86974831	-1	TP53AP1	H_RG012D21.9, LINC00096
7	TP53TG1	ENSG00000182165	ENST00000432193	processed_transcript	KNOWN	None	17026	None	None	86954666	86974802	-1	TP53AP1	H_RG012D21.9, LINC00096
7	TP53TG1	ENSG00000182165	ENST00000421293	processed_transcript	KNOWN	None	17026	None	None	86954666	86974802	-1	TP53AP1	H_RG012D21.9, LINC00096
7	TP53TG1	ENSG00000182165	ENST00000542586	processed_transcript	KNOWN	None	17026	None	None	86974513	86974802	-1	TP53AP1	H_RG012D21.9, LINC00096
16	None	ENSG00000252958	ENST00000517149	miRNA	NOVEL	None	None	None	None	2255031	2255137	-1	None	None
15	None	ENSG00000258853	ENST00000553644	lincRNA	KNOWN	None	None	None	None	27929644	27930914	-1	None	None
2	None	ENSG00000225916	ENST00000454444	lincRNA	KNOWN	None	None	None	None	208091673	208093032	1	None	None
1	None	ENSG00000234041	ENST00000424885	processed_pseudogene	KNOWN	None	None	None	None	179106899	179107069	1	None	None
1	None	ENSG00000227043	ENST00000435973	lincRNA	KNOWN	None	None	None	None	230011297	230021499	-1	None	None
5	None	ENSG00000270350	ENST00000605152	processed_pseudogene	KNOWN	None	None	None	None	99386063	99386354	-1	None	None
11	None	ENSG00000254501	ENST00000528887	antisense	KNOWN	None	None	None	None	64878186	64879167	-1	None	None
3	None	ENSG00000240888	ENST00000491347	sense_intronic	KNOWN	None	None	None	None	143031909	143033271	-1	None	None
1	None	ENSG00000228187	ENST00000458048	processed_pseudogene	KNOWN	None	None	None	None	77660510	77661080	1	None	None
16	None	ENSG00000261532	ENST00000561544	lincRNA	KNOWN	None	None	None	None	2261998	2262864	1	None	None
1	SETP10	ENSG00000231905	ENST00000424368	processed_pseudogene	KNOWN	None	42929	None	None	179152869	179153682	1	None	None
17	FOXN1	ENSG00000109101	ENST00000577936	protein_coding	KNOWN	None	12765	352	116	26833261	26851749	1	WHN, RONU	FKHL20
17	FOXN1	ENSG00000109101	ENST00000579795	protein_coding	KNOWN	CCDS11232	12765	1947	648	26833278	26864454	1	WHN, RONU	FKHL20
17	FOXN1	ENSG00000109101	ENST00000226247	protein_coding	KNOWN	CCDS11232	12765	1947	648	26850959	26865914	1	WHN, RONU	FKHL20
HG115_PATCH	SPDYE6	ENSG00000260097	ENST00000563237	unprocessed_pseudogene	KNOWN	None	35465	None	None	101991668	101998241	-1	None	None
2	None	ENSG00000222692	ENST00000410760	miRNA	NOVEL	None	None	None	None	51662260	51662356	-1	None	None
12	None	ENSG00000256273	ENST00000544089	lincRNA	KNOWN	None	None	None	None	68738444	68743739	1	None	None
1	None	ENSG00000235790	ENST00000585660	antisense	KNOWN	None	None	None	None	32110590	32125383	1	None	None
1	None	ENSG00000235790	ENST00000591592	antisense	KNOWN	None	None	None	None	32110612	32125417	1	None	None
1	None	ENSG00000235790	ENST00000585413	antisense	KNOWN	None	None	None	None	32110854	32125530	1	None	None
1	None	ENSG00000235790	ENST00000589462	antisense	KNOWN	None	None	None	None	32110864	32125527	1	None	None
1	None	ENSG00000235790	ENST00000593188	antisense	KNOWN	None	None	None	None	32110889	32125530	1	None	None
1	None	ENSG00000235790	ENST00000587445	antisense	KNOWN	None	None	None	None	32110897	32125527	1	None	None
1	None	ENSG00000235790	ENST00000591929	antisense	KNOWN	None	None	None	None	32110920	32125529	1	None	None
1	None	ENSG00000235790	ENST00000445166	antisense	KNOWN	None	None	None	None	32121710	32125539	1	None	None
1	None	ENSG00000235790	ENST00000588288	antisense	KNOWN	None	None	None	None	32122859	32125530	1	None	None
3	FTH1P23	ENSG00000242960	ENST00000492727	processed_pseudogene	KNOWN	None	37641	None	None	72978195	72978744	1	FTHL23	None
5	None	ENSG00000264839	ENST00000579607	miRNA	NOVEL	None	None	None	None	99386069	99386142	1	None	None
10	GBF1	ENSG00000107862	ENST00000369983	protein_coding	KNOWN	CCDS7533	4181	5580	1859	104005289	104142656	1	None	KIAA0248, ARF1GEF
10	GBF1	ENSG00000107862	ENST00000476019	processed_transcript	KNOWN	None	4181	None	None	104118856	104120944	1	None	KIAA0248, ARF1GEF
5	ARL2BPP4	ENSG00000249312	ENST00000506854	processed_pseudogene	KNOWN	None	39448	None	None	129865112	129865582	1	None	None
2	KNOP1P3	ENSG00000224344	ENST00000446933	processed_pseudogene	KNOWN	None	48921	None	None	51738196	51738621	1	None	None
1	None	ENSG00000228058	ENST00000445339	lincRNA	KNOWN	None	None	None	None	230138477	230142909	1	None	None
5	None	ENSG00000271480	ENST00000603825	processed_pseudogene	KNOWN	None	None	None	None	99386423	99386767	-1	None	None
12	None	ENSG00000256075	ENST00000216407	processed_pseudogene	KNOWN	None	None	None	None	68867521	68868682	1	None	None
1	None	ENSG00000232637	ENST00000491285	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	146214651	146253110	-1	None	None
1	None	ENSG00000232637	ENST00000436832	unprocessed_pseudogene	KNOWN	None	None	None	None	146032648	146215986	-1	None	None
1	None	ENSG00000232637	ENST00000423459	unprocessed_pseudogene	KNOWN	None	None	None	None	146234449	146240537	-1	None	None
1	None	ENSG00000232637	ENST00000429672	unprocessed_pseudogene	KNOWN	None	None	None	None	146244509	146251009	-1	None	None
12	None	ENSG00000257596	ENST00000547177	antisense	KNOWN	None	None	None	None	54656399	54672847	1	None	None
1	None	ENSG00000233099	ENST00000436206	antisense	KNOWN	None	None	None	None	77811731	77815270	-1	None	None
1	None	ENSG00000212338	ENST00000391036	snoRNA	NOVEL	None	None	None	None	179165608	179165714	1	None	None
16	None	ENSG00000259780	ENST00000564055	lincRNA	KNOWN	None	None	None	None	2285690	2286914	-1	None	None
16	None	ENSG00000259780	ENST00000594097	lincRNA	KNOWN	None	None	None	None	2286719	2286913	-1	None	None
17	SH3GL1P2	ENSG00000264943	ENST00000582245	processed_pseudogene	KNOWN	None	10836	None	None	28951431	28952512	1	SH3GLP2	CNSA-P2
13	LINC00351	ENSG00000226317	ENST00000424926	lincRNA	KNOWN	None	42669	None	None	85937736	86118705	1	None	None
9	None	ENSG00000238288	ENST00000431980	unprocessed_pseudogene	KNOWN	None	None	None	None	94872450	94872796	1	None	None
2	CRYGGP	ENSG00000223710	ENST00000443337	unprocessed_pseudogene	KNOWN	None	2414	None	None	52002396	52002540	-1	CRYGGP1	None
12	None	ENSG00000199245	ENST00000362375	misc_RNA	NOVEL	None	None	None	None	88824219	88824327	1	None	None
1	None	ENSG00000201619	ENST00000364749	snoRNA	NOVEL	None	None	None	None	179170622	179170762	1	None	None
14	RN7SL369P	ENSG00000241542	ENST00000477138	misc_RNA	KNOWN	None	46385	None	None	68172671	68172972	1	None	None
1	SLAMF8	ENSG00000158714	ENST00000289707	protein_coding	KNOWN	CCDS1188	21391	858	285	159796540	159807039	1	None	BLAME, SBBI42, CD353
1	SLAMF8	ENSG00000158714	ENST00000368104	protein_coding	KNOWN	None	21391	531	176	159796601	159805469	1	None	BLAME, SBBI42, CD353
1	SLAMF8	ENSG00000158714	ENST00000471286	processed_transcript	KNOWN	None	21391	None	None	159799798	159807039	1	None	BLAME, SBBI42, CD353
1	SLAMF8	ENSG00000158714	ENST00000497141	processed_transcript	KNOWN	None	21391	None	None	159802795	159807039	1	None	BLAME, SBBI42, CD353
5	TRIM36	ENSG00000152503	ENST00000282369	protein_coding	KNOWN	CCDS4115	16280	2187	728	114460459	114515856	-1	None	RBCC728, RNF98, HAPRIN
5	TRIM36	ENSG00000152503	ENST00000513154	protein_coding	PUTATIVE	None	16280	2151	716	114460460	114505658	-1	None	RBCC728, RNF98, HAPRIN
5	TRIM36	ENSG00000152503	ENST00000514154	protein_coding	PUTATIVE	None	16280	1722	573	114462200	114515734	-1	None	RBCC728, RNF98, HAPRIN
5	TRIM36	ENSG00000152503	ENST00000513485	processed_transcript	KNOWN	None	16280	None	None	114477021	114489508	-1	None	RBCC728, RNF98, HAPRIN
5	TRIM36	ENSG00000152503	ENST00000515104	processed_transcript	KNOWN	None	16280	None	None	114482765	114505427	-1	None	RBCC728, RNF98, HAPRIN
5	TRIM36	ENSG00000152503	ENST00000510222	processed_transcript	PUTATIVE	None	16280	None	None	114482766	114505563	-1	None	RBCC728, RNF98, HAPRIN
5	TRIM36	ENSG00000152503	ENST00000508894	protein_coding	PUTATIVE	None	16280	511	169	114482873	114505606	-1	None	RBCC728, RNF98, HAPRIN
5	TRIM36	ENSG00000152503	ENST00000379618	protein_coding	KNOWN	CCDS34211	16280	183	60	114506799	114516243	-1	None	RBCC728, RNF98, HAPRIN
5	TRIM36	ENSG00000152503	ENST00000511701	processed_transcript	PUTATIVE	None	16280	None	None	114506803	114509978	-1	None	RBCC728, RNF98, HAPRIN
5	TRIM36	ENSG00000152503	ENST00000379617	protein_coding	KNOWN	CCDS34212	16280	186	61	114512820	114516243	-1	None	RBCC728, RNF98, HAPRIN
1	None	ENSG00000221664	ENST00000408737	miRNA	NOVEL	None	None	None	None	77857107	77857213	-1	None	None
3	SLC9A9-AS1	ENSG00000240012	ENST00000479030	antisense	KNOWN	None	40928	None	None	143061088	143065913	1	None	None
5	None	ENSG00000249418	ENST00000511094	processed_pseudogene	KNOWN	None	None	None	None	129934041	129934472	1	None	None
3	None	ENSG00000248850	ENST00000503372	processed_pseudogene	KNOWN	None	None	None	None	126390949	126392066	-1	None	None
1	EIF4A1P11	ENSG00000231564	ENST00000451239	processed_pseudogene	KNOWN	None	37932	None	None	179170840	179171061	1	None	None
15	None	ENSG00000251161	ENST00000503052	lincRNA	KNOWN	None	None	None	None	41199009	41201540	1	None	None
5	None	ENSG00000270388	ENST00000603219	processed_pseudogene	KNOWN	None	None	None	None	99386837	99387620	-1	None	None
11	ALG1L9P	ENSG00000254978	ENST00000532875	transcribed_unprocessed_pseudogene	KNOWN	None	44378	None	None	71511587	71515686	-1	None	None
3	H1FX	ENSG00000184897	ENST00000333762	protein_coding	KNOWN	CCDS3057	4722	642	213	129033615	129035120	-1	None	MGC15959, MGC8350, H1X
13	RNU6-72P	ENSG00000207012	ENST00000384285	snRNA	KNOWN	None	42562	None	None	86158883	86158988	-1	RNU6-72	None
1	RNU7-8P	ENSG00000251767	ENST00000515958	snRNA	KNOWN	None	34104	None	None	77886010	77886071	1	RNU7-139P	U7.8
HSCHR6_MHC_DBB	TRIM39	ENSG00000232839	ENST00000430414	protein_coding	KNOWN	None	10065	434	143	30284507	30287780	1	RNF23	None
HSCHR6_MHC_DBB	TRIM39	ENSG00000232839	ENST00000426676	protein_coding	KNOWN	None	10065	222	73	30284863	30287568	1	RNF23	None
HSCHR6_MHC_DBB	TRIM39	ENSG00000232839	ENST00000438076	protein_coding	KNOWN	None	10065	1467	488	30284872	30301763	1	RNF23	None
HSCHR6_MHC_DBB	TRIM39	ENSG00000232839	ENST00000449396	protein_coding	KNOWN	None	10065	782	259	30284933	30294011	1	RNF23	None
HSCHR6_MHC_DBB	TRIM39	ENSG00000232839	ENST00000430502	protein_coding	KNOWN	None	10065	1467	488	30284948	30301763	1	RNF23	None
HSCHR6_MHC_DBB	TRIM39	ENSG00000232839	ENST00000434118	protein_coding	KNOWN	None	10065	178	58	30284985	30287524	1	RNF23	None
HSCHR6_MHC_DBB	TRIM39	ENSG00000232839	ENST00000433900	protein_coding	KNOWN	None	10065	1467	488	30285287	30301763	1	RNF23	None
HSCHR6_MHC_DBB	TRIM39	ENSG00000232839	ENST00000457343	protein_coding	KNOWN	None	10065	145	47	30285551	30287491	1	RNF23	None
HSCHR6_MHC_DBB	TRIM39	ENSG00000232839	ENST00000451715	protein_coding	KNOWN	None	10065	1557	518	30286918	30301763	1	RNF23	None
HSCHR6_MHC_DBB	TRIM39	ENSG00000232839	ENST00000438168	protein_coding	KNOWN	None	10065	683	226	30287558	30299504	1	RNF23	None
HSCHR6_MHC_DBB	TRIM39	ENSG00000232839	ENST00000548002	protein_coding	KNOWN	None	10065	1557	518	30284872	30301762	1	RNF23	None
HSCHR6_MHC_DBB	TRIM39	ENSG00000232839	ENST00000548680	protein_coding	KNOWN	None	10065	1557	518	30284872	30301762	1	RNF23	None
HSCHR6_MHC_DBB	TRIM39	ENSG00000232839	ENST00000547272	protein_coding	KNOWN	None	10065	1467	488	30284872	30301762	1	RNF23	None
HSCHR6_MHC_DBB	TRIM39	ENSG00000232839	ENST00000552165	protein_coding	KNOWN	None	10065	1236	411	30284872	30300096	1	RNF23	None
HSCHR6_MHC_DBB	TRIM39	ENSG00000232839	ENST00000551862	protein_coding	KNOWN	None	10065	1254	417	30284872	30304844	1	RNF23	None
1	None	ENSG00000211525	ENST00000390191	miRNA	NOVEL	None	None	None	None	230184929	230184997	-1	None	None
17	LRRC37BP1	ENSG00000250462	ENST00000398851	transcribed_unprocessed_pseudogene	KNOWN	None	25390	None	None	28956698	28964320	1	LRRC37B2	DKFZp667M2411
17	LRRC37BP1	ENSG00000250462	ENST00000412831	processed_transcript	KNOWN	None	25390	None	None	28958773	28961188	1	LRRC37B2	DKFZp667M2411
1	MIR4254	ENSG00000266580	ENST00000581063	miRNA	KNOWN	None	38193	None	None	32224261	32224336	-1	None	hsa-mir-4254
16	None	ENSG00000261663	ENST00000565709	antisense	KNOWN	None	None	None	None	2290488	2291819	1	None	None
11	None	ENSG00000272075	ENST00000607615	misc_RNA	NOVEL	None	None	None	None	117937952	117938252	1	None	None
8	None	ENSG00000240015	ENST00000476186	antisense	KNOWN	None	None	None	None	37980792	37982169	1	None	None
13	MOB1AP1	ENSG00000228241	ENST00000430903	processed_pseudogene	KNOWN	None	42638	None	None	86543134	86543668	1	MOBKL1BP1	None
1	RNA5SP20	ENSG00000251785	ENST00000515976	rRNA	KNOWN	None	42588	None	None	78080554	78080637	1	RN5S20	None
11	None	ENSG00000256254	ENST00000535634	processed_pseudogene	KNOWN	None	None	None	None	102637532	102638658	-1	None	None
10	None	ENSG00000189275	ENST00000341866	protein_coding	KNOWN	None	None	477	158	133604734	133622535	-1	None	None
1	None	ENSG00000227006	ENST00000440729	antisense	KNOWN	None	None	None	None	230394440	230404229	-1	None	None
5	MTATP6P2	ENSG00000270307	ENST00000603319	processed_pseudogene	KNOWN	None	44576	None	None	99387624	99388301	-1	None	None
5	None	ENSG00000244192	ENST00000498453	processed_pseudogene	KNOWN	None	None	None	None	130325590	130326121	1	None	None
1	None	ENSG00000254545	ENST00000527035	antisense	KNOWN	None	None	None	None	32254731	32256923	1	None	None
1	RN7SL370P	ENSG00000243437	ENST00000470869	misc_RNA	KNOWN	None	46386	None	None	78111009	78111301	1	None	None
1	None	ENSG00000225711	ENST00000443050	processed_pseudogene	KNOWN	None	None	None	None	179190073	179191260	1	None	None
13	None	ENSG00000232252	ENST00000445967	lincRNA	KNOWN	None	None	None	None	86634948	86745025	1	None	None
19	CHERP	ENSG00000085872	ENST00000546361	protein_coding	KNOWN	CCDS42518	16930	2751	916	16628700	16653341	-1	None	ERPROT213-21, DAN16
19	CHERP	ENSG00000085872	ENST00000198939	protein_coding	NOVEL	None	16930	2784	927	16628707	16653226	-1	None	ERPROT213-21, DAN16
19	CHERP	ENSG00000085872	ENST00000597261	retained_intron	KNOWN	None	16930	None	None	16629695	16630636	-1	None	ERPROT213-21, DAN16
19	CHERP	ENSG00000085872	ENST00000544299	processed_transcript	KNOWN	None	16930	None	None	16629768	16637085	-1	None	ERPROT213-21, DAN16
19	CHERP	ENSG00000085872	ENST00000600432	retained_intron	KNOWN	None	16930	None	None	16630715	16631684	-1	None	ERPROT213-21, DAN16
19	CHERP	ENSG00000085872	ENST00000546538	retained_intron	KNOWN	None	16930	None	None	16642795	16653020	-1	None	ERPROT213-21, DAN16
19	CHERP	ENSG00000085872	ENST00000551747	retained_intron	KNOWN	None	16930	None	None	16652016	16653211	-1	None	ERPROT213-21, DAN16
12	None	ENSG00000256917	ENST00000542626	processed_pseudogene	KNOWN	None	None	None	None	68881467	68881643	1	None	None
HG115_PATCH	None	ENSG00000259875	ENST00000568504	lincRNA	KNOWN	None	None	None	None	101996513	101998642	1	None	None
14	None	ENSG00000258618	ENST00000556149	processed_pseudogene	KNOWN	None	None	None	None	68181262	68181921	1	None	None
12	None	ENSG00000258344	ENST00000553061	sense_overlapping	KNOWN	None	None	None	None	54670415	54738867	1	None	None
13	DDX6P2	ENSG00000214181	ENST00000397726	processed_pseudogene	KNOWN	None	37806	None	None	86927755	86929524	1	None	None
2	None	ENSG00000230840	ENST00000421074	processed_pseudogene	KNOWN	None	None	None	None	52152830	52152971	-1	None	None
1	None	ENSG00000232672	ENST00000431536	processed_pseudogene	KNOWN	None	None	None	None	78239550	78240549	-1	None	None
1	None	ENSG00000203620	ENST00000453837	lincRNA	KNOWN	None	None	None	None	32307620	32321169	-1	None	None
5	None	ENSG00000250405	ENST00000508316	processed_pseudogene	KNOWN	None	None	None	None	130329946	130331857	1	None	None
12	RNU1-117P	ENSG00000252850	ENST00000517041	snRNA	KNOWN	None	48459	None	None	88975416	88975573	1	None	None
2	None	ENSG00000226366	ENST00000447288	processed_pseudogene	KNOWN	None	None	None	None	52154020	52154500	-1	None	None
16	NDUFB10	ENSG00000140990	ENST00000268668	protein_coding	KNOWN	CCDS10451	7696	519	172	2009509	2011976	1	None	PDSW
16	NDUFB10	ENSG00000140990	ENST00000543683	protein_coding	PUTATIVE	None	7696	507	168	2009544	2011976	1	None	PDSW
16	NDUFB10	ENSG00000140990	ENST00000565031	retained_intron	KNOWN	None	7696	None	None	2009545	2011900	1	None	PDSW
16	NDUFB10	ENSG00000140990	ENST00000569148	protein_coding	NOVEL	None	7696	486	161	2009553	2011976	1	None	PDSW
16	NDUFB10	ENSG00000140990	ENST00000570172	protein_coding	NOVEL	None	7696	428	141	2009559	2011841	1	None	PDSW
12	RNU6-950P	ENSG00000207381	ENST00000384651	snRNA	KNOWN	None	47913	None	None	54711565	54711671	-1	None	None
3	SLC9A9-AS2	ENSG00000244493	ENST00000490153	antisense	KNOWN	None	40929	None	None	143100180	143101003	1	None	None
12	None	ENSG00000205537	ENST00000380601	antisense	KNOWN	None	None	None	None	48276432	48295308	1	None	None
1	None	ENSG00000224407	ENST00000414640	antisense	KNOWN	None	None	None	None	230416058	230417639	-1	None	None
HG115_PATCH	None	ENSG00000261073	ENST00000562766	processed_transcript	KNOWN	None	None	None	None	102007442	102023913	1	None	None
HG115_PATCH	None	ENSG00000261073	ENST00000569424	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	102007448	102019598	1	None	None
HG115_PATCH	None	ENSG00000261073	ENST00000564756	processed_transcript	KNOWN	None	None	None	None	102007578	102023911	1	None	None
1	None	ENSG00000269967	ENST00000602889	lincRNA	KNOWN	None	None	None	None	32317514	32387442	-1	None	None
11	None	ENSG00000240174	ENST00000472460	processed_pseudogene	KNOWN	None	None	None	None	84351036	84351608	1	None	None
12	None	ENSG00000253052	ENST00000517243	snoRNA	NOVEL	None	None	None	None	30052836	30052940	1	None	None
17	RN7SL316P	ENSG00000241631	ENST00000483452	misc_RNA	KNOWN	None	46332	None	None	29029526	29029793	-1	None	None
11	None	ENSG00000256035	ENST00000546014	processed_pseudogene	KNOWN	None	None	None	None	102677679	102678647	-1	None	None
1	None	ENSG00000228634	ENST00000447478	lincRNA	KNOWN	None	None	None	None	32398621	32399576	1	None	None
5	None	ENSG00000248955	ENST00000505749	processed_pseudogene	KNOWN	None	None	None	None	130344276	130344435	1	None	None
1	None	ENSG00000203257	ENST00000366088	pseudogene	KNOWN	None	None	None	None	230451438	230451976	-1	None	None
17	None	ENSG00000234327	ENST00000571138	antisense	KNOWN	None	None	None	None	5014763	5017674	1	None	None
17	None	ENSG00000234327	ENST00000413077	antisense	KNOWN	None	None	None	None	5015227	5017672	1	None	None
17	None	ENSG00000234327	ENST00000570712	antisense	KNOWN	None	None	None	None	5017068	5017671	1	None	None
11	None	ENSG00000264091	ENST00000581755	miRNA	NOVEL	None	None	None	None	71513631	71513695	-1	None	None
11	None	ENSG00000255173	ENST00000527789	antisense	KNOWN	None	None	None	None	64884629	64884930	1	None	None
3	RCC2P4	ENSG00000249558	ENST00000513160	processed_pseudogene	KNOWN	None	42380	None	None	126485277	126486318	-1	None	None
1	COX5BP8	ENSG00000223794	ENST00000416911	processed_pseudogene	KNOWN	None	39083	None	None	179224868	179225216	1	None	None
12	None	ENSG00000258203	ENST00000552958	lincRNA	KNOWN	None	None	None	None	48399060	48405010	-1	None	None
12	None	ENSG00000258203	ENST00000546804	lincRNA	KNOWN	None	None	None	None	48401764	48405010	-1	None	None
11	None	ENSG00000255163	ENST00000517602	processed_pseudogene	KNOWN	None	None	None	None	118079647	118079926	-1	None	None
1	None	ENSG00000203325	ENST00000366152	antisense	KNOWN	None	None	None	None	32517892	32539075	-1	None	None
13	TXNL1P1	ENSG00000231879	ENST00000429528	processed_pseudogene	KNOWN	None	39459	None	None	87377755	87378308	1	None	None
1	None	ENSG00000232964	ENST00000412647	lincRNA	KNOWN	None	None	None	None	230728406	230731329	1	None	None
2	ZNF863P	ENSG00000236538	ENST00000426746	processed_pseudogene	KNOWN	None	35156	None	None	52298493	52304335	1	None	None
1	RNA5SP21	ENSG00000222849	ENST00000410917	rRNA	KNOWN	None	42589	None	None	78245589	78245684	1	RN5S21	None
HG115_PATCH	None	ENSG00000260993	ENST00000562643	unprocessed_pseudogene	KNOWN	None	None	None	None	102023745	102026017	-1	None	None
12	None	ENSG00000255945	ENST00000535247	lincRNA	KNOWN	None	None	None	None	128082713	128084260	1	None	None
12	None	ENSG00000257262	ENST00000549055	lincRNA	KNOWN	None	None	None	None	30353916	30370849	1	None	None
22	ARVCF	ENSG00000099889	ENST00000263207	protein_coding	KNOWN	CCDS13771	728	2889	962	19957419	20004331	-1	None	None
22	ARVCF	ENSG00000099889	ENST00000495096	retained_intron	KNOWN	None	728	None	None	19957421	19966939	-1	None	None
22	ARVCF	ENSG00000099889	ENST00000401994	protein_coding	KNOWN	None	728	2700	899	19958751	19974616	-1	None	None
22	ARVCF	ENSG00000099889	ENST00000406522	protein_coding	KNOWN	None	728	2682	893	19958751	19974616	-1	None	None
22	ARVCF	ENSG00000099889	ENST00000406259	protein_coding	KNOWN	None	728	2871	956	19958751	19978317	-1	None	None
22	ARVCF	ENSG00000099889	ENST00000480792	processed_transcript	KNOWN	None	728	None	None	19960685	19963285	-1	None	None
22	ARVCF	ENSG00000099889	ENST00000473551	retained_intron	KNOWN	None	728	None	None	19967520	19978315	-1	None	None
22	ARVCF	ENSG00000099889	ENST00000487793	processed_transcript	PUTATIVE	None	728	None	None	19968675	19974713	-1	None	None
22	ARVCF	ENSG00000099889	ENST00000492625	processed_transcript	PUTATIVE	None	728	None	None	19968905	19974678	-1	None	None
22	ARVCF	ENSG00000099889	ENST00000462319	processed_transcript	PUTATIVE	None	728	None	None	19969068	19971276	-1	None	None
22	ARVCF	ENSG00000099889	ENST00000467828	processed_transcript	PUTATIVE	None	728	None	None	19969514	20004268	-1	None	None
22	ARVCF	ENSG00000099889	ENST00000344269	protein_coding	KNOWN	None	728	2700	899	19957421	19974616	-1	None	None
1	MORN1	ENSG00000116151	ENST00000378531	protein_coding	KNOWN	CCDS40	25852	1494	497	2252692	2323146	-1	None	FLJ13941
1	MORN1	ENSG00000116151	ENST00000606372	processed_transcript	KNOWN	None	25852	None	None	2263565	2323126	-1	None	FLJ13941
1	MORN1	ENSG00000116151	ENST00000378529	protein_coding	PUTATIVE	None	25852	1053	350	2286616	2323146	-1	None	FLJ13941
1	MORN1	ENSG00000116151	ENST00000607342	processed_transcript	KNOWN	None	25852	None	None	2290077	2307317	-1	None	FLJ13941
1	MORN1	ENSG00000116151	ENST00000469374	retained_intron	KNOWN	None	25852	None	None	2302604	2318968	-1	None	FLJ13941
1	MORN1	ENSG00000116151	ENST00000419785	retained_intron	KNOWN	None	25852	None	None	2303115	2316560	-1	None	FLJ13941
1	MORN1	ENSG00000116151	ENST00000378525	nonsense_mediated_decay	KNOWN	None	25852	471	156	2309494	2323110	-1	None	FLJ13941
1	MORN1	ENSG00000116151	ENST00000449373	protein_coding	PUTATIVE	None	25852	558	185	2310430	2319776	-1	None	FLJ13941
1	MORN1	ENSG00000116151	ENST00000607031	retained_intron	KNOWN	None	25852	None	None	2316811	2319948	-1	None	FLJ13941
1	MORN1	ENSG00000116151	ENST00000475812	retained_intron	KNOWN	None	25852	None	None	2318495	2319755	-1	None	FLJ13941
1	MORN1	ENSG00000116151	ENST00000494279	protein_coding	PUTATIVE	None	25852	182	59	2319443	2321435	-1	None	FLJ13941
7	LRRC17	ENSG00000128606	ENST00000339431	protein_coding	KNOWN	CCDS34721	16895	1326	441	102553438	102585396	1	None	P37NB, H_RG318M05.3
7	LRRC17	ENSG00000128606	ENST00000498487	processed_transcript	PUTATIVE	None	16895	None	None	102553447	102573897	1	None	P37NB, H_RG318M05.3
7	LRRC17	ENSG00000128606	ENST00000249377	protein_coding	KNOWN	CCDS5727	16895	942	313	102553452	102585396	1	None	P37NB, H_RG318M05.3
7	LRRC17	ENSG00000128606	ENST00000455453	protein_coding	KNOWN	None	16895	313	103	102573677	102574673	1	None	P37NB, H_RG318M05.3
7	LRRC17	ENSG00000128606	ENST00000485478	processed_transcript	KNOWN	None	16895	None	None	102576631	102585117	1	None	P37NB, H_RG318M05.3
1	None	ENSG00000235817	ENST00000444423	processed_pseudogene	KNOWN	None	None	None	None	230747755	230748158	-1	None	None
5	None	ENSG00000239642	ENST00000439905	processed_transcript	KNOWN	None	None	None	None	131142816	131214713	-1	None	None
5	None	ENSG00000239642	ENST00000442687	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	131142924	131281198	-1	None	None
5	None	ENSG00000239642	ENST00000446743	processed_transcript	KNOWN	None	None	None	None	131214598	131257631	-1	None	None
5	None	ENSG00000239642	ENST00000425320	processed_transcript	KNOWN	None	None	None	None	131252590	131280485	-1	None	None
5	None	ENSG00000239642	ENST00000411822	processed_transcript	KNOWN	None	None	None	None	131280363	131281391	-1	None	None
1	MIR5585	ENSG00000266203	ENST00000577515	miRNA	KNOWN	None	43452	None	None	32552550	32552608	1	None	hsa-mir-5585
HG115_PATCH	None	ENSG00000263329	ENST00000571116	miRNA	KNOWN	None	None	None	None	102049022	102049135	-1	None	None
12	None	ENSG00000240087	ENST00000435879	processed_pseudogene	KNOWN	None	None	None	None	68946775	68947662	-1	None	None
1	None	ENSG00000219201	ENST00000427577	processed_pseudogene	KNOWN	None	None	None	None	78276546	78277466	-1	None	None
1	None	ENSG00000219201	ENST00000406534	processed_pseudogene	KNOWN	None	None	None	None	78276507	78277621	-1	None	None
1	None	ENSG00000228191	ENST00000426359	processed_pseudogene	KNOWN	None	None	None	None	179240251	179240401	-1	None	None
12	MIR148B	ENSG00000199122	ENST00000362252	miRNA	KNOWN	None	31761	None	None	54731000	54731098	1	MIRN148B	hsa-mir-148b
15	ISCA1P4	ENSG00000259405	ENST00000560114	processed_pseudogene	KNOWN	None	38025	None	None	41240934	41241067	-1	None	None
11	HIGD1AP10	ENSG00000254455	ENST00000527837	processed_pseudogene	KNOWN	None	43005	None	None	64913162	64913443	-1	None	None
20	XKR7	ENSG00000101321	ENST00000217299	protein_coding	KNOWN	CCDS33459	23062	1740	579	30555805	30586256	1	C20orf159	dJ310O13.4
HG115_PATCH	None	ENSG00000259872	ENST00000568939	antisense	PUTATIVE	None	None	None	None	102070098	102078060	-1	None	None
1	None	ENSG00000250135	ENST00000515055	sense_intronic	KNOWN	None	None	None	None	32636334	32642169	1	None	None
1	RN7SL374P	ENSG00000263633	ENST00000577343	misc_RNA	KNOWN	None	46390	None	None	179333448	179333743	1	None	None
11	None	ENSG00000254787	ENST00000534275	antisense	KNOWN	None	None	None	None	84431869	84511744	1	None	None
GL000247.1	None	ENSG00000264728	ENST00000580872	miRNA	NOVEL	None	None	None	None	10271	10353	-1	None	None
1	MEF2AP1	ENSG00000224620	ENST00000454867	processed_pseudogene	KNOWN	None	6994	None	None	179416713	179417575	-1	MEF2AP	None
12	None	ENSG00000257141	ENST00000552154	lincRNA	KNOWN	None	None	None	None	108226635	108228807	-1	None	None
17	None	ENSG00000264538	ENST00000578070	processed_transcript	KNOWN	None	None	None	None	29036317	29097052	1	None	None
17	None	ENSG00000264538	ENST00000579526	processed_transcript	KNOWN	None	None	None	None	29036626	29095894	1	None	None
17	None	ENSG00000264538	ENST00000497969	processed_transcript	KNOWN	None	None	None	None	29058724	29085353	1	None	None
17	None	ENSG00000264538	ENST00000578195	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	29058904	29103420	1	None	None
17	None	ENSG00000264538	ENST00000582557	processed_transcript	KNOWN	None	None	None	None	29061081	29097068	1	None	None
17	None	ENSG00000264538	ENST00000582329	processed_transcript	KNOWN	None	None	None	None	29093521	29114729	1	None	None
17	None	ENSG00000264538	ENST00000583950	processed_transcript	KNOWN	None	None	None	None	29111664	29117926	1	None	None
8	None	ENSG00000253356	ENST00000520598	antisense	KNOWN	None	None	None	None	38006259	38021290	1	None	None
22	LIMK2	ENSG00000182541	ENST00000462625	retained_intron	KNOWN	None	6614	None	None	31608225	31655032	1	None	None
22	LIMK2	ENSG00000182541	ENST00000406516	protein_coding	NOVEL	None	6614	1890	629	31608260	31673624	1	None	None
22	LIMK2	ENSG00000182541	ENST00000331728	protein_coding	KNOWN	CCDS13891	6614	1917	638	31608281	31676066	1	None	None
22	LIMK2	ENSG00000182541	ENST00000425203	protein_coding	PUTATIVE	None	6614	247	81	31644344	31654470	1	None	None
22	LIMK2	ENSG00000182541	ENST00000333611	protein_coding	KNOWN	CCDS13892	6614	1854	617	31644388	31675720	1	None	None
22	LIMK2	ENSG00000182541	ENST00000340552	protein_coding	PUTATIVE	CCDS33637	6614	2061	686	31644473	31673624	1	None	None
22	LIMK2	ENSG00000182541	ENST00000465937	retained_intron	KNOWN	None	6614	None	None	31654945	31662118	1	None	None
22	LIMK2	ENSG00000182541	ENST00000482270	retained_intron	KNOWN	None	6614	None	None	31668457	31671651	1	None	None
22	LIMK2	ENSG00000182541	ENST00000467301	processed_transcript	KNOWN	None	6614	None	None	31668660	31674572	1	None	None
22	LIMK2	ENSG00000182541	ENST00000444929	protein_coding	KNOWN	None	6614	1179	392	31608265	31676057	1	None	None
11	ZNF705E	ENSG00000214534	ENST00000525473	processed_transcript	KNOWN	None	33203	None	None	71518637	71529284	-1	None	None
11	ZNF705E	ENSG00000214534	ENST00000525199	processed_transcript	KNOWN	None	33203	None	None	71525091	71532594	-1	None	None
11	ZNF705E	ENSG00000214534	ENST00000531320	transcribed_unprocessed_pseudogene	KNOWN	None	33203	None	None	71527565	71530833	-1	None	None
3	None	ENSG00000235629	ENST00000424242	antisense	KNOWN	None	None	None	None	14689701	14690939	-1	None	None
12	None	ENSG00000257756	ENST00000552182	lincRNA	KNOWN	None	None	None	None	30383712	30449616	-1	None	None
12	None	ENSG00000257756	ENST00000551202	lincRNA	KNOWN	None	None	None	None	30383718	30449597	-1	None	None
12	None	ENSG00000257756	ENST00000551287	lincRNA	KNOWN	None	None	None	None	30447380	30449640	-1	None	None
12	RN7SL744P	ENSG00000264028	ENST00000577604	misc_RNA	KNOWN	None	46760	None	None	54738394	54738645	1	None	None
1	HNRNPA1P54	ENSG00000236539	ENST00000411857	processed_pseudogene	KNOWN	None	48784	None	None	179416737	179426450	-1	None	None
1	NSRP1P1	ENSG00000235613	ENST00000444067	processed_pseudogene	KNOWN	None	38087	None	None	78312795	78314487	1	CCDC55P1	None
3	GAPDHP47	ENSG00000243033	ENST00000489113	processed_pseudogene	KNOWN	None	37803	None	None	143222117	143223115	-1	None	None
17	None	ENSG00000262855	ENST00000575546	processed_pseudogene	KNOWN	None	None	None	None	5030035	5030305	-1	None	None
8	None	ENSG00000253739	ENST00000521915	sense_intronic	KNOWN	None	None	None	None	38023530	38023636	-1	None	None
3	None	ENSG00000212556	ENST00000391254	misc_RNA	NOVEL	None	None	None	None	126921215	126921316	-1	None	None
7	SGCE	ENSG00000127990	ENST00000522045	protein_coding	PUTATIVE	None	10808	126	41	94214542	94230052	-1	DYT11	None
7	SGCE	ENSG00000127990	ENST00000265735	protein_coding	KNOWN	CCDS5637	10808	1314	437	94214542	94285521	-1	DYT11	None
7	SGCE	ENSG00000127990	ENST00000445866	protein_coding	KNOWN	CCDS47643	10808	1389	462	94214560	94285436	-1	DYT11	None
7	SGCE	ENSG00000127990	ENST00000437425	protein_coding	NOVEL	None	10808	1191	396	94214562	94285478	-1	DYT11	None
7	SGCE	ENSG00000127990	ENST00000447873	protein_coding	NOVEL	None	10808	1287	428	94214569	94285478	-1	DYT11	None
7	SGCE	ENSG00000127990	ENST00000428696	protein_coding	KNOWN	CCDS47642	10808	1356	451	94214724	94285410	-1	DYT11	None
7	SGCE	ENSG00000127990	ENST00000472326	retained_intron	KNOWN	None	10808	None	None	94214782	94228449	-1	DYT11	None
7	SGCE	ENSG00000127990	ENST00000415788	protein_coding	PUTATIVE	None	10808	1416	471	94217623	94285498	-1	DYT11	None
7	SGCE	ENSG00000127990	ENST00000462731	retained_intron	KNOWN	None	10808	None	None	94229937	94232719	-1	DYT11	None
7	SGCE	ENSG00000127990	ENST00000450385	nonsense_mediated_decay	KNOWN	None	10808	132	43	94248116	94285439	-1	DYT11	None
7	SGCE	ENSG00000127990	ENST00000425444	nonsense_mediated_decay	KNOWN	None	10808	132	43	94252640	94285485	-1	DYT11	None
1	None	ENSG00000224066	ENST00000373604	antisense	KNOWN	None	None	None	None	32670370	32671786	-1	None	None
1	None	ENSG00000224066	ENST00000421616	antisense	KNOWN	None	None	None	None	32671099	32672415	-1	None	None
GL000219.1	None	ENSG00000220023	ENST00000346061	protein_coding	KNOWN	None	None	372	123	53831	99541	-1	None	None
GL000219.1	None	ENSG00000220023	ENST00000418749	protein_coding	KNOWN	None	None	405	134	57414	99642	-1	None	None
18	MYOM1	ENSG00000101605	ENST00000356443	protein_coding	KNOWN	CCDS45824	7613	5058	1685	3066805	3220106	-1	None	None
18	MYOM1	ENSG00000101605	ENST00000261606	protein_coding	KNOWN	CCDS45823	7613	4770	1589	3066951	3219847	-1	None	None
18	MYOM1	ENSG00000101605	ENST00000581804	processed_transcript	PUTATIVE	None	7613	None	None	3067263	3075649	-1	None	None
18	MYOM1	ENSG00000101605	ENST00000581075	nonsense_mediated_decay	KNOWN	None	7613	366	121	3075736	3090764	-1	None	None
18	MYOM1	ENSG00000101605	ENST00000582016	processed_transcript	PUTATIVE	None	7613	None	None	3119970	3129579	-1	None	None
18	MYOM1	ENSG00000101605	ENST00000577294	retained_intron	KNOWN	None	7613	None	None	3135056	3142017	-1	None	None
18	MYOM1	ENSG00000101605	ENST00000400569	protein_coding	KNOWN	None	7613	5058	1685	3066805	3220106	-1	None	None
1	None	ENSG00000244137	ENST00000412344	antisense	KNOWN	None	None	None	None	230846444	230931238	-1	None	None
1	None	ENSG00000244137	ENST00000452640	antisense	KNOWN	None	None	None	None	230911827	230930899	-1	None	None
1	None	ENSG00000244137	ENST00000428480	antisense	KNOWN	None	None	None	None	230911847	230930883	-1	None	None
1	None	ENSG00000261250	ENST00000569644	antisense	KNOWN	None	None	None	None	179512336	179518057	-1	None	None
15	None	ENSG00000259617	ENST00000561388	antisense	KNOWN	None	None	None	None	41291472	41297063	1	None	None
12	None	ENSG00000199584	ENST00000362714	misc_RNA	NOVEL	None	None	None	None	128103881	128103992	-1	None	None
12	None	ENSG00000246363	ENST00000500381	lincRNA	KNOWN	None	None	None	None	89404458	89413456	-1	None	None
15	AQP9	ENSG00000103569	ENST00000558772	protein_coding	PUTATIVE	None	643	693	230	58430368	58476778	1	None	SSC1, HsT17287
15	AQP9	ENSG00000103569	ENST00000219919	protein_coding	KNOWN	CCDS10165	643	888	295	58430395	58478110	1	None	SSC1, HsT17287
15	AQP9	ENSG00000103569	ENST00000559443	processed_transcript	PUTATIVE	None	643	None	None	58430462	58439094	1	None	SSC1, HsT17287
15	AQP9	ENSG00000103569	ENST00000536493	protein_coding	KNOWN	CCDS10165	643	888	295	58430580	58478110	1	None	SSC1, HsT17287
12	None	ENSG00000258137	ENST00000550474	processed_transcript	KNOWN	None	None	None	None	54747445	54891472	1	None	None
12	None	ENSG00000258137	ENST00000552053	lincRNA	KNOWN	None	None	None	None	54813569	54830888	1	None	None
17	None	ENSG00000261879	ENST00000575601	antisense	KNOWN	None	None	None	None	5095379	5126938	1	None	None
17	None	ENSG00000261879	ENST00000571689	antisense	KNOWN	None	None	None	None	5095399	5138938	1	None	None
17	None	ENSG00000261879	ENST00000573772	antisense	KNOWN	None	None	None	None	5126666	5151364	1	None	None
5	HSPB3	ENSG00000169271	ENST00000302005	protein_coding	KNOWN	CCDS3961	5248	453	150	53751445	53752207	1	None	HSPL27
8	None	ENSG00000248585	ENST00000503480	processed_pseudogene	KNOWN	None	None	None	None	38059217	38061756	-1	None	None
1	RNU5F-2P	ENSG00000251875	ENST00000516066	snRNA	KNOWN	None	42510	None	None	179545403	179545484	1	None	None
11	RNU2-23P	ENSG00000222477	ENST00000410545	snRNA	KNOWN	None	48516	None	None	64915055	64915249	1	None	None
1	None	ENSG00000232015	ENST00000455484	processed_pseudogene	KNOWN	None	None	None	None	78319040	78319578	1	None	None
11	None	ENSG00000255058	ENST00000533651	processed_pseudogene	KNOWN	None	None	None	None	64927665	64927853	-1	None	None
11	MMP12	ENSG00000110347	ENST00000532855	processed_transcript	KNOWN	None	7158	None	None	102733467	102745764	-1	None	HME
11	MMP12	ENSG00000110347	ENST00000326227	processed_transcript	KNOWN	None	7158	None	None	102733476	102745764	-1	None	HME
1	None	ENSG00000227141	ENST00000427215	processed_pseudogene	KNOWN	None	None	None	None	179555840	179558310	1	None	None
1	RN7SL467P	ENSG00000263779	ENST00000583007	misc_RNA	KNOWN	None	46483	None	None	230865626	230865915	1	None	None
11	RN7SL351P	ENSG00000240098	ENST00000469306	misc_RNA	KNOWN	None	46367	None	None	126114930	126115175	1	None	None
3	None	ENSG00000243016	ENST00000492080	unprocessed_pseudogene	KNOWN	None	None	None	None	126940037	126940724	-1	None	None
15	None	ENSG00000259463	ENST00000558101	antisense	KNOWN	None	None	None	None	41303795	41305498	1	None	None
3	RNU6-821P	ENSG00000212297	ENST00000390995	snRNA	KNOWN	None	47784	None	None	197798182	197798288	-1	None	None
1	RNA5SP79	ENSG00000202063	ENST00000365193	rRNA	KNOWN	None	42856	None	None	230955996	230956104	1	RN5S79	None
9	None	ENSG00000230536	ENST00000453870	antisense	KNOWN	None	None	None	None	130853248	130856736	-1	None	None
7	PRSS3P2	ENSG00000250606	ENST00000605380	retained_intron	KNOWN	None	43788	None	None	142478827	142480412	1	None	TRY6
7	PRSS3P2	ENSG00000250606	ENST00000603901	processed_transcript	KNOWN	None	43788	None	None	142478840	142482412	1	None	TRY6
7	PRSS3P2	ENSG00000250606	ENST00000507847	transcribed_unprocessed_pseudogene	KNOWN	None	43788	None	None	142478840	142482416	1	None	TRY6
7	PRSS3P2	ENSG00000250606	ENST00000361585	unprocessed_pseudogene	KNOWN	None	43788	None	None	142478064	142482400	1	None	TRY6
7	PRSS3P2	ENSG00000250606	ENST00000290968	unprocessed_pseudogene	KNOWN	None	43788	None	None	142478757	142482400	1	None	TRY6
7	PRSS3P2	ENSG00000250606	ENST00000438955	unprocessed_pseudogene	KNOWN	None	43788	None	None	142481131	142482400	1	None	TRY6
3	RNU7-19P	ENSG00000238959	ENST00000459135	snRNA	KNOWN	None	34115	None	None	73076959	73077024	1	None	U7.19
11	None	ENSG00000255555	ENST00000532123	antisense	KNOWN	None	None	None	None	84647733	84666749	1	None	None
4	LINC00682	ENSG00000245870	ENST00000504870	lincRNA	KNOWN	None	44466	None	None	41878498	41884628	-1	None	None
4	LINC00682	ENSG00000245870	ENST00000499082	lincRNA	KNOWN	None	44466	None	None	41881538	41884587	-1	None	None
4	LINC00682	ENSG00000245870	ENST00000498940	lincRNA	KNOWN	None	44466	None	None	41881564	41883860	-1	None	None
2	None	ENSG00000202195	ENST00000365325	misc_RNA	NOVEL	None	None	None	None	52525133	52525234	1	None	None
1	None	ENSG00000225656	ENST00000436739	lincRNA	KNOWN	None	None	None	None	230959387	230960453	-1	None	None
13	None	ENSG00000233528	ENST00000457672	lincRNA	KNOWN	None	None	None	None	87564173	87589271	1	None	None
17	PSME3	ENSG00000131467	ENST00000592458	processed_transcript	KNOWN	None	9570	None	None	40976402	40985043	1	None	Ki, PA28-gamma, REG-GAMMA, PA28G
17	PSME3	ENSG00000131467	ENST00000545225	protein_coding	PUTATIVE	None	9570	582	193	40976443	40995256	1	None	Ki, PA28-gamma, REG-GAMMA, PA28G
17	PSME3	ENSG00000131467	ENST00000586114	protein_coding	PUTATIVE	None	9570	332	109	40985416	40991002	1	None	Ki, PA28-gamma, REG-GAMMA, PA28G
17	PSME3	ENSG00000131467	ENST00000590720	protein_coding	KNOWN	CCDS45689	9570	765	254	40985416	40993595	1	None	Ki, PA28-gamma, REG-GAMMA, PA28G
17	PSME3	ENSG00000131467	ENST00000585805	protein_coding	PUTATIVE	None	9570	290	95	40985428	40990815	1	None	Ki, PA28-gamma, REG-GAMMA, PA28G
17	PSME3	ENSG00000131467	ENST00000592578	processed_transcript	KNOWN	None	9570	None	None	40985435	40986821	1	None	Ki, PA28-gamma, REG-GAMMA, PA28G
17	PSME3	ENSG00000131467	ENST00000441946	protein_coding	PUTATIVE	CCDS59290	9570	798	265	40985435	40995233	1	None	Ki, PA28-gamma, REG-GAMMA, PA28G
17	PSME3	ENSG00000131467	ENST00000591152	protein_coding	PUTATIVE	None	9570	356	117	40985436	40991026	1	None	Ki, PA28-gamma, REG-GAMMA, PA28G
17	PSME3	ENSG00000131467	ENST00000589469	protein_coding	NOVEL	None	9570	538	178	40985454	40991320	1	None	Ki, PA28-gamma, REG-GAMMA, PA28G
17	PSME3	ENSG00000131467	ENST00000591722	retained_intron	KNOWN	None	9570	None	None	40985462	40989772	1	None	Ki, PA28-gamma, REG-GAMMA, PA28G
17	PSME3	ENSG00000131467	ENST00000543428	nonsense_mediated_decay	KNOWN	None	9570	393	130	40985462	40993712	1	None	Ki, PA28-gamma, REG-GAMMA, PA28G
17	PSME3	ENSG00000131467	ENST00000293362	protein_coding	KNOWN	CCDS11442	9570	804	267	40985488	40995774	1	None	Ki, PA28-gamma, REG-GAMMA, PA28G
17	PSME3	ENSG00000131467	ENST00000592169	protein_coding	NOVEL	None	9570	597	198	40985513	40993688	1	None	Ki, PA28-gamma, REG-GAMMA, PA28G
17	PSME3	ENSG00000131467	ENST00000586312	nonsense_mediated_decay	KNOWN	None	9570	129	42	40985566	40990993	1	None	Ki, PA28-gamma, REG-GAMMA, PA28G
17	PSME3	ENSG00000131467	ENST00000593111	retained_intron	KNOWN	None	9570	None	None	40986559	40991141	1	None	Ki, PA28-gamma, REG-GAMMA, PA28G
17	PSME3	ENSG00000131467	ENST00000541124	protein_coding	KNOWN	None	9570	48	15	40985433	40995228	1	None	Ki, PA28-gamma, REG-GAMMA, PA28G
14	None	ENSG00000271697	ENST00000604500	processed_pseudogene	KNOWN	None	None	None	None	68201912	68202067	1	None	None
2	CHRNG	ENSG00000196811	ENST00000485094	retained_intron	KNOWN	None	1967	None	None	233404437	233406592	1	ACHRG	None
2	CHRNG	ENSG00000196811	ENST00000389494	protein_coding	KNOWN	CCDS33400	1967	1554	517	233404437	233411113	1	ACHRG	None
2	CHRNG	ENSG00000196811	ENST00000389492	protein_coding	NOVEL	None	1967	1398	465	233404458	233410426	1	ACHRG	None
16	None	ENSG00000207425	ENST00000384694	misc_RNA	NOVEL	None	None	None	None	15009314	15009413	-1	None	None
3	None	ENSG00000238416	ENST00000458782	snoRNA	NOVEL	None	None	None	None	73131138	73131241	1	None	None
5	None	ENSG00000213414	ENST00000519230	processed_pseudogene	KNOWN	None	None	None	None	157413154	157414714	-1	None	None
2	None	ENSG00000225444	ENST00000435357	lincRNA	KNOWN	None	None	None	None	52600256	52617150	1	None	None
14	None	ENSG00000253096	ENST00000517287	misc_RNA	NOVEL	None	None	None	None	104192065	104192162	-1	None	None
17	None	ENSG00000263164	ENST00000575056	lincRNA	KNOWN	None	None	None	None	5143803	5144838	-1	None	None
16	None	ENSG00000261819	ENST00000567634	processed_pseudogene	KNOWN	None	None	None	None	15082116	15084017	-1	None	None
3	RNU6-1047P	ENSG00000201288	ENST00000364418	snRNA	KNOWN	None	48010	None	None	126959811	126959917	-1	None	None
1	SPATA21	ENSG00000187144	ENST00000491418	protein_coding	PUTATIVE	None	28026	483	160	16713612	16730469	-1	None	spergen-2, spergen2
1	SPATA21	ENSG00000187144	ENST00000466212	processed_transcript	KNOWN	None	28026	None	None	16722176	16763888	-1	None	spergen-2, spergen2
1	SPATA21	ENSG00000187144	ENST00000335496	protein_coding	KNOWN	CCDS172	28026	1410	469	16725138	16763919	-1	None	spergen-2, spergen2
1	SPATA21	ENSG00000187144	ENST00000375577	protein_coding	KNOWN	None	28026	603	200	16751399	16763911	-1	None	spergen-2, spergen2
1	SPATA21	ENSG00000187144	ENST00000540400	protein_coding	KNOWN	None	28026	1341	446	16725162	16763685	-1	None	spergen-2, spergen2
1	None	ENSG00000223393	ENST00000439341	antisense	KNOWN	None	None	None	None	231010592	231014761	1	None	None
13	UBBP5	ENSG00000228074	ENST00000446970	processed_pseudogene	KNOWN	None	42645	None	None	87871259	87871524	1	None	None
7	SEMA3A	ENSG00000075213	ENST00000265362	protein_coding	KNOWN	CCDS5599	10723	2316	771	83587659	83824217	-1	SEMAD	SEMA1, SemD, coll-1, Hsema-I
7	SEMA3A	ENSG00000075213	ENST00000436949	protein_coding	KNOWN	CCDS5599	10723	2316	771	83590617	83824761	-1	SEMAD	SEMA1, SemD, coll-1, Hsema-I
7	SEMA3A	ENSG00000075213	ENST00000420047	protein_coding	KNOWN	None	10723	447	148	83739792	83824477	-1	SEMAD	SEMA1, SemD, coll-1, Hsema-I
7	SEMA3A	ENSG00000075213	ENST00000448879	protein_coding	KNOWN	None	10723	112	36	83823791	84121865	-1	SEMAD	SEMA1, SemD, coll-1, Hsema-I
7	SEMA3A	ENSG00000075213	ENST00000424555	protein_coding	KNOWN	None	10723	58	18	83823845	84122040	-1	SEMAD	SEMA1, SemD, coll-1, Hsema-I
7	SEMA3A	ENSG00000075213	ENST00000471474	processed_transcript	KNOWN	None	10723	None	None	83935698	84001607	-1	SEMAD	SEMA1, SemD, coll-1, Hsema-I
7	SEMA3A	ENSG00000075213	ENST00000490883	processed_transcript	KNOWN	None	10723	None	None	83936523	84001584	-1	SEMAD	SEMA1, SemD, coll-1, Hsema-I
11	None	ENSG00000255200	ENST00000534819	processed_transcript	KNOWN	None	None	None	None	64941588	64943941	-1	None	None
11	None	ENSG00000255200	ENST00000526979	transcribed_processed_pseudogene	KNOWN	None	None	None	None	64942506	64942958	-1	None	None
6	DNAJC19P6	ENSG00000220871	ENST00000401853	processed_pseudogene	KNOWN	None	45069	None	None	90507317	90507596	1	None	None
8	None	ENSG00000253214	ENST00000519412	lincRNA	KNOWN	None	None	None	None	82066514	82071318	1	None	None
8	None	ENSG00000253214	ENST00000521953	lincRNA	KNOWN	None	None	None	None	82066565	82076834	1	None	None
3	None	ENSG00000239620	ENST00000465482	processed_pseudogene	KNOWN	None	None	None	None	127002924	127003524	-1	None	None
17	None	ENSG00000263220	ENST00000572792	antisense	KNOWN	None	None	None	None	5267610	5274921	-1	None	None
1	MTMR9LP	ENSG00000220785	ENST00000423995	processed_transcript	KNOWN	None	27920	None	None	32697259	32706391	-1	MTMR9L	None
1	MTMR9LP	ENSG00000220785	ENST00000403496	processed_transcript	KNOWN	None	27920	None	None	32697261	32706023	-1	MTMR9L	None
1	MTMR9LP	ENSG00000220785	ENST00000441044	processed_transcript	KNOWN	None	27920	None	None	32697261	32707221	-1	MTMR9L	None
1	MTMR9LP	ENSG00000220785	ENST00000426597	transcribed_unprocessed_pseudogene	KNOWN	None	27920	None	None	32697448	32707193	-1	MTMR9L	None
1	NEXN-AS1	ENSG00000235927	ENST00000421331	antisense	KNOWN	None	31983	None	None	78347033	78355224	-1	C1orf118	FLJ90637
1	NEXN-AS1	ENSG00000235927	ENST00000597757	antisense	KNOWN	None	31983	None	None	78347044	78353374	-1	C1orf118	FLJ90637
2	None	ENSG00000225842	ENST00000424302	processed_pseudogene	KNOWN	None	None	None	None	52701211	52701549	-1	None	None
12	None	ENSG00000257035	ENST00000537470	unprocessed_pseudogene	KNOWN	None	None	None	None	128108698	128110812	1	None	None
11	None	ENSG00000255396	ENST00000532151	processed_pseudogene	KNOWN	None	None	None	None	84708270	84708812	-1	None	None
13	LIN28AP2	ENSG00000228473	ENST00000445283	processed_pseudogene	KNOWN	None	38056	None	None	88031727	88032513	-1	None	None
3	STX19	ENSG00000178750	ENST00000315099	protein_coding	KNOWN	CCDS33793	19300	885	294	93733213	93747454	-1	None	MGC21382
6	None	ENSG00000217653	ENST00000405081	processed_pseudogene	KNOWN	None	None	None	None	90524428	90525182	1	None	None
GL000247.1	None	ENSG00000238667	ENST00000459271	miRNA	NOVEL	None	None	None	None	11746	11828	-1	None	None
1	None	ENSG00000261060	ENST00000567150	sense_overlapping	KNOWN	None	None	None	None	179559507	179560440	1	None	None
17	None	ENSG00000263272	ENST00000575890	antisense	KNOWN	None	None	None	None	5328459	5336196	-1	None	None
GL000247.1	None	ENSG00000238477	ENST00000458778	miRNA	NOVEL	None	None	None	None	11986	12067	-1	None	None
1	None	ENSG00000221547	ENST00000408620	miRNA	NOVEL	None	None	None	None	179679385	179679481	-1	None	None
3	EPHB3	ENSG00000182580	ENST00000330394	protein_coding	KNOWN	CCDS3268	3394	2997	998	184279572	184300197	1	ETK2	Hek2, Tyro6
3	EPHB3	ENSG00000182580	ENST00000482987	retained_intron	KNOWN	None	3394	None	None	184295400	184295961	1	ETK2	Hek2, Tyro6
3	EPHB3	ENSG00000182580	ENST00000473079	retained_intron	KNOWN	None	3394	None	None	184297536	184298488	1	ETK2	Hek2, Tyro6
3	RNU6-557P	ENSG00000252651	ENST00000516842	snRNA	KNOWN	None	47520	None	None	73141299	73141408	-1	None	None
6	None	ENSG00000238747	ENST00000458799	snoRNA	NOVEL	None	None	None	None	90533014	90533115	1	None	None
13	None	ENSG00000232636	ENST00000607309	lincRNA	KNOWN	None	None	None	None	88079455	88099490	-1	None	None
17	None	ENSG00000262099	ENST00000571506	lincRNA	KNOWN	None	None	None	None	5372412	5373680	1	None	None
GL000247.1	None	ENSG00000271726	ENST00000606635	miRNA	NOVEL	None	None	None	None	12803	12884	-1	None	None
3	RNU2-64P	ENSG00000223247	ENST00000411315	snRNA	KNOWN	None	48557	None	None	73160143	73160333	1	None	None
14	None	ENSG00000270591	ENST00000604583	transcribed_processed_pseudogene	KNOWN	None	None	None	None	104229140	104229484	1	None	None
14	None	ENSG00000270591	ENST00000603373	processed_transcript	KNOWN	None	None	None	None	104229336	104229614	1	None	None
12	None	ENSG00000258086	ENST00000552785	antisense	KNOWN	None	None	None	None	54747576	54860769	1	None	None
2	None	ENSG00000236837	ENST00000443926	lincRNA	KNOWN	None	None	None	None	52721826	52727890	-1	None	None
HSCHR19LRC_PGF2_CTG1	None	ENSG00000262719	ENST00000573050	snRNA	NOVEL	None	None	None	None	54767831	54767939	-1	None	None
12	RNA5SP356	ENSG00000251781	ENST00000515972	rRNA	KNOWN	None	43256	None	None	30459364	30459457	-1	RN5S356	None
1	RN7SL837P	ENSG00000240502	ENST00000463010	misc_RNA	KNOWN	None	46853	None	None	231029887	231030173	1	None	None
7	ZNF804B	ENSG00000182348	ENST00000333190	protein_coding	KNOWN	CCDS5613	21958	4050	1349	88388682	88966346	1	None	FLJ32110
17	STRADA	ENSG00000266173	ENST00000245865	protein_coding	PUTATIVE	None	30172	705	234	61780192	61819121	-1	None	NY-BR-96, LYK5, Stlk, STRAD
17	STRADA	ENSG00000266173	ENST00000375840	protein_coding	KNOWN	CCDS42367	30172	1122	373	61780192	61819143	-1	None	NY-BR-96, LYK5, Stlk, STRAD
17	STRADA	ENSG00000266173	ENST00000583085	retained_intron	KNOWN	None	30172	None	None	61780200	61783884	-1	None	NY-BR-96, LYK5, Stlk, STRAD
17	STRADA	ENSG00000266173	ENST00000392950	protein_coding	KNOWN	CCDS11642	30172	1047	348	61780202	61819330	-1	None	NY-BR-96, LYK5, Stlk, STRAD
17	STRADA	ENSG00000266173	ENST00000336174	protein_coding	KNOWN	CCDS32703	30172	1296	431	61780225	61819169	-1	None	NY-BR-96, LYK5, Stlk, STRAD
17	STRADA	ENSG00000266173	ENST00000582026	protein_coding	PUTATIVE	None	30172	167	54	61780562	61781815	-1	None	NY-BR-96, LYK5, Stlk, STRAD
17	STRADA	ENSG00000266173	ENST00000447001	protein_coding	KNOWN	CCDS54156	30172	900	299	61780816	61819238	-1	None	NY-BR-96, LYK5, Stlk, STRAD
17	STRADA	ENSG00000266173	ENST00000582137	protein_coding	NOVEL	CCDS58585	30172	945	314	61781018	61819156	-1	None	NY-BR-96, LYK5, Stlk, STRAD
17	STRADA	ENSG00000266173	ENST00000580039	processed_transcript	KNOWN	None	30172	None	None	61781060	61800734	-1	None	NY-BR-96, LYK5, Stlk, STRAD
17	STRADA	ENSG00000266173	ENST00000579340	protein_coding	PUTATIVE	None	30172	522	173	61781568	61819192	-1	None	NY-BR-96, LYK5, Stlk, STRAD
17	STRADA	ENSG00000266173	ENST00000578008	protein_coding	PUTATIVE	None	30172	504	167	61781945	61788160	-1	None	NY-BR-96, LYK5, Stlk, STRAD
17	STRADA	ENSG00000266173	ENST00000578801	protein_coding	PUTATIVE	None	30172	396	131	61782086	61790804	-1	None	NY-BR-96, LYK5, Stlk, STRAD
17	STRADA	ENSG00000266173	ENST00000581243	nonsense_mediated_decay	KNOWN	None	30172	123	40	61784607	61819190	-1	None	NY-BR-96, LYK5, Stlk, STRAD
17	STRADA	ENSG00000266173	ENST00000581505	processed_transcript	KNOWN	None	30172	None	None	61784767	61800733	-1	None	NY-BR-96, LYK5, Stlk, STRAD
17	STRADA	ENSG00000266173	ENST00000577375	retained_intron	KNOWN	None	30172	None	None	61787722	61805744	-1	None	NY-BR-96, LYK5, Stlk, STRAD
17	STRADA	ENSG00000266173	ENST00000580338	protein_coding	KNOWN	None	30172	236	77	61788135	61819197	-1	None	NY-BR-96, LYK5, Stlk, STRAD
17	STRADA	ENSG00000266173	ENST00000579549	protein_coding	KNOWN	None	30172	217	71	61790786	61819156	-1	None	NY-BR-96, LYK5, Stlk, STRAD
17	STRADA	ENSG00000266173	ENST00000582030	protein_coding	KNOWN	None	30172	151	49	61790789	61819156	-1	None	NY-BR-96, LYK5, Stlk, STRAD
17	STRADA	ENSG00000266173	ENST00000579318	retained_intron	KNOWN	None	30172	None	None	61790814	61791914	-1	None	NY-BR-96, LYK5, Stlk, STRAD
17	STRADA	ENSG00000266173	ENST00000579350	processed_transcript	KNOWN	None	30172	None	None	61790868	61792911	-1	None	NY-BR-96, LYK5, Stlk, STRAD
17	STRADA	ENSG00000266173	ENST00000584110	protein_coding	KNOWN	None	30172	31	9	61791387	61819156	-1	None	NY-BR-96, LYK5, Stlk, STRAD
17	STRADA	ENSG00000266173	ENST00000580288	protein_coding	KNOWN	None	30172	136	44	61791456	61819158	-1	None	NY-BR-96, LYK5, Stlk, STRAD
17	STRADA	ENSG00000266173	ENST00000578507	retained_intron	KNOWN	None	30172	None	None	61805272	61819178	-1	None	NY-BR-96, LYK5, Stlk, STRAD
17	GDPD1	ENSG00000153982	ENST00000578026	nonsense_mediated_decay	KNOWN	None	20883	393	130	57297828	57351099	1	None	FLJ37451, GDE4
17	GDPD1	ENSG00000153982	ENST00000284116	protein_coding	KNOWN	CCDS11616	20883	945	314	57297834	57351873	1	None	FLJ37451, GDE4
17	GDPD1	ENSG00000153982	ENST00000581140	protein_coding	KNOWN	CCDS58583	20883	870	289	57297883	57352866	1	None	FLJ37451, GDE4
17	GDPD1	ENSG00000153982	ENST00000579020	nonsense_mediated_decay	KNOWN	None	20883	633	210	57297891	57351077	1	None	FLJ37451, GDE4
17	GDPD1	ENSG00000153982	ENST00000581276	protein_coding	KNOWN	CCDS58584	20883	873	290	57297923	57350382	1	None	FLJ37451, GDE4
17	GDPD1	ENSG00000153982	ENST00000583543	retained_intron	KNOWN	None	20883	None	None	57298043	57326589	1	None	FLJ37451, GDE4
17	GDPD1	ENSG00000153982	ENST00000579076	nonsense_mediated_decay	KNOWN	None	20883	366	121	57344405	57353328	1	None	FLJ37451, GDE4
16	MIR1972-1	ENSG00000238728	ENST00000459337	miRNA	KNOWN	None	37060	None	None	15104178	15104254	-1	MIR1972	hsa-mir-1972
HSCHR19LRC_PGF2_CTG1	None	ENSG00000263702	ENST00000578874	miRNA	NOVEL	None	None	None	None	54785989	54786060	1	None	None
15	None	ENSG00000261746	ENST00000564862	3prime_overlapping_ncrna	KNOWN	None	None	None	None	71402899	71403766	-1	None	None
3	CCDC75P1	ENSG00000182921	ENST00000469247	processed_pseudogene	KNOWN	None	42659	None	None	73231652	73232442	-1	None	None
1	None	ENSG00000238985	ENST00000459395	snoRNA	NOVEL	None	None	None	None	231031178	231031250	-1	None	None
1	None	ENSG00000243062	ENST00000423879	lincRNA	KNOWN	None	None	None	None	179699352	179711832	1	None	None
1	None	ENSG00000243062	ENST00000451471	lincRNA	KNOWN	None	None	None	None	179711144	179711832	1	None	None
GL000219.1	None	ENSG00000263936	ENST00000577276	miRNA	NOVEL	None	None	None	None	47191	47266	-1	None	None
3	None	ENSG00000244215	ENST00000488425	lincRNA	KNOWN	None	None	None	None	127041150	127109513	-1	None	None
HSCHR6_MHC_APD	MICB	ENSG00000231179	ENST00000442104	protein_coding	NOVEL	None	7091	1023	340	31477173	31490193	1	None	PERB11.2
HSCHR6_MHC_APD	MICB	ENSG00000231179	ENST00000451603	protein_coding	KNOWN	None	7091	1152	383	31477202	31490193	1	None	PERB11.2
HSCHR6_MHC_APD	MICB	ENSG00000231179	ENST00000472772	retained_intron	KNOWN	None	7091	None	None	31485004	31486600	1	None	PERB11.2
HSCHR6_MHC_APD	MICB	ENSG00000231179	ENST00000546706	protein_coding	KNOWN	None	7091	126	41	31477232	31477774	1	None	PERB11.2
3	None	ENSG00000271052	ENST00000603703	processed_pseudogene	KNOWN	None	None	None	None	160940699	160940935	-1	None	None
16	None	ENSG00000260872	ENST00000565178	antisense	KNOWN	None	None	None	None	15111963	15114345	-1	None	None
1	None	ENSG00000252131	ENST00000516322	miRNA	NOVEL	None	None	None	None	231124735	231124869	-1	None	None
HSCHR19LRC_PGF2_CTG1	None	ENSG00000266167	ENST00000577472	miRNA	NOVEL	None	None	None	None	54961459	54961528	1	None	None
12	None	ENSG00000257932	ENST00000546558	lincRNA	KNOWN	None	None	None	None	30473767	30474550	1	None	None
1	MIR1182	ENSG00000221290	ENST00000408363	miRNA	KNOWN	None	35263	None	None	231155574	231155670	-1	MIRN1182	hsa-mir-1182
11	HNRNPCP6	ENSG00000213305	ENST00000525816	processed_pseudogene	KNOWN	None	48817	None	None	84731829	84732699	-1	None	None
1	None	ENSG00000213561	ENST00000265259	processed_pseudogene	KNOWN	None	None	None	None	78509067	78509832	-1	None	None
GL000219.1	None	ENSG00000239150	ENST00000458758	miRNA	NOVEL	None	None	None	None	163853	163928	1	None	None
2	None	ENSG00000204993	ENST00000378256	processed_pseudogene	KNOWN	None	None	None	None	52797786	52799660	1	None	None
1	None	ENSG00000227934	ENST00000413346	processed_pseudogene	KNOWN	None	None	None	None	231157357	231157929	1	None	None
15	None	ENSG00000259964	ENST00000561571	antisense	KNOWN	None	None	None	None	71439989	71481368	-1	None	None
15	None	ENSG00000259964	ENST00000569258	antisense	KNOWN	None	None	None	None	71459347	71481381	-1	None	None
15	None	ENSG00000259964	ENST00000566268	antisense	KNOWN	None	None	None	None	71459364	71481355	-1	None	None
15	None	ENSG00000259964	ENST00000564562	antisense	KNOWN	None	None	None	None	71476278	71481355	-1	None	None
15	None	ENSG00000259964	ENST00000562634	antisense	KNOWN	None	None	None	None	71477960	71481364	-1	None	None
GL000219.1	None	ENSG00000238303	ENST00000459252	miRNA	NOVEL	None	None	None	None	164278	164360	1	None	None
11	PGAM1P8	ENSG00000249251	ENST00000505544	processed_pseudogene	KNOWN	None	42455	None	None	64942506	64942973	-1	None	None
12	None	ENSG00000257477	ENST00000548617	lincRNA	KNOWN	None	None	None	None	54822087	54823187	1	None	None
HSCHR20_1_CTG1	None	ENSG00000262517	ENST00000574649	lincRNA	KNOWN	None	None	None	None	17795253	17795683	-1	None	None
1	None	ENSG00000229595	ENST00000435008	processed_pseudogene	KNOWN	None	None	None	None	231253577	231254071	-1	None	None
GL000219.1	None	ENSG00000238600	ENST00000459323	miRNA	NOVEL	None	None	None	None	168106	168180	1	None	None
11	None	ENSG00000254992	ENST00000525856	processed_pseudogene	KNOWN	None	None	None	None	118193504	118193798	-1	None	None
1	None	ENSG00000229407	ENST00000453051	antisense	KNOWN	None	None	None	None	179785319	179786559	-1	None	None
1	None	ENSG00000229407	ENST00000415218	antisense	KNOWN	None	None	None	None	179785319	179787326	-1	None	None
3	DHFRL1	ENSG00000178700	ENST00000481631	processed_transcript	KNOWN	None	27309	None	None	93766680	93781685	-1	DHFRP4	FLJ16119
3	DHFRL1	ENSG00000178700	ENST00000314636	protein_coding	KNOWN	CCDS2926	27309	564	187	93776766	93781831	-1	DHFRP4	FLJ16119
3	DHFRL1	ENSG00000178700	ENST00000394221	protein_coding	KNOWN	CCDS2926	27309	564	187	93776768	93782067	-1	DHFRP4	FLJ16119
3	DHFRL1	ENSG00000178700	ENST00000461173	nonsense_mediated_decay	KNOWN	CCDS2926	27309	564	187	93777569	93781743	-1	DHFRP4	FLJ16119
3	DHFRL1	ENSG00000178700	ENST00000496983	protein_coding	KNOWN	None	27309	343	113	93780013	93782233	-1	DHFRP4	FLJ16119
3	None	ENSG00000239921	ENST00000461398	lincRNA	KNOWN	None	None	None	None	127199533	127255655	-1	None	None
3	RNU6-1270P	ENSG00000252937	ENST00000517128	snRNA	KNOWN	None	48233	None	None	73290940	73291047	-1	None	None
HSCHR20_1_CTG1	None	ENSG00000263259	ENST00000571400	miRNA	NOVEL	None	None	None	None	17823227	17823372	1	None	None
3	RNU7-119P	ENSG00000239119	ENST00000459279	snRNA	KNOWN	None	45653	None	None	73643091	73643153	-1	None	None
20	CCM2L	ENSG00000101331	ENST00000262659	protein_coding	KNOWN	CCDS13195	16153	1302	433	30598253	30619983	1	C20orf160	dJ310O13.5
20	CCM2L	ENSG00000101331	ENST00000452892	protein_coding	KNOWN	None	16153	975	324	30607021	30619983	1	C20orf160	dJ310O13.5
20	CCM2L	ENSG00000101331	ENST00000300415	protein_coding	KNOWN	None	16153	1716	571	30598245	30619984	1	C20orf160	dJ310O13.5
GL000219.1	None	ENSG00000239060	ENST00000459365	miRNA	NOVEL	None	None	None	None	171364	171439	1	None	None
2	FHL2	ENSG00000115641	ENST00000409177	protein_coding	PUTATIVE	None	3703	1188	395	105974169	106016124	-1	None	SLIM3, DRAL
2	FHL2	ENSG00000115641	ENST00000344213	protein_coding	NOVEL	None	3703	1170	389	105977269	106015681	-1	None	SLIM3, DRAL
2	FHL2	ENSG00000115641	ENST00000393353	protein_coding	KNOWN	CCDS2070	3703	840	279	105977283	106015508	-1	None	SLIM3, DRAL
2	FHL2	ENSG00000115641	ENST00000530340	nonsense_mediated_decay	KNOWN	None	3703	435	144	105977283	106015681	-1	None	SLIM3, DRAL
2	FHL2	ENSG00000115641	ENST00000393352	protein_coding	KNOWN	CCDS2070	3703	840	279	105977283	106054960	-1	None	SLIM3, DRAL
2	FHL2	ENSG00000115641	ENST00000322142	protein_coding	KNOWN	CCDS2070	3703	840	279	105977285	106015518	-1	None	SLIM3, DRAL
2	FHL2	ENSG00000115641	ENST00000409807	protein_coding	KNOWN	CCDS2070	3703	840	279	105977314	106013414	-1	None	SLIM3, DRAL
2	FHL2	ENSG00000115641	ENST00000408995	protein_coding	KNOWN	CCDS2070	3703	840	279	105977318	106015507	-1	None	SLIM3, DRAL
2	FHL2	ENSG00000115641	ENST00000452732	nonsense_mediated_decay	KNOWN	None	3703	165	54	105979741	106013154	-1	None	SLIM3, DRAL
2	FHL2	ENSG00000115641	ENST00000607522	protein_coding	PUTATIVE	None	3703	198	65	106002354	106054970	-1	None	SLIM3, DRAL
2	FHL2	ENSG00000115641	ENST00000447958	protein_coding	KNOWN	None	3703	59	18	106002915	106013242	-1	None	SLIM3, DRAL
2	FHL2	ENSG00000115641	ENST00000358129	protein_coding	KNOWN	CCDS2070	3703	840	279	105977287	106015681	-1	None	SLIM3, DRAL
2	FHL2	ENSG00000115641	ENST00000336660	protein_coding	KNOWN	None	3703	456	151	105977285	106054952	-1	None	SLIM3, DRAL
1	C1orf204	ENSG00000188004	ENST00000368102	protein_coding	NOVEL	CCDS44253	27647	708	235	159804264	159825137	-1	None	FLJ39187
1	C1orf204	ENSG00000188004	ENST00000491974	processed_transcript	KNOWN	None	27647	None	None	159805140	159824693	-1	None	FLJ39187
10	None	ENSG00000207473	ENST00000384742	misc_RNA	NOVEL	None	None	None	None	75106694	75106806	1	None	None
HSCHR20_1_CTG1	None	ENSG00000262640	ENST00000574969	lincRNA	KNOWN	None	None	None	None	17853225	17853851	1	None	None
HSCHR20_1_CTG1	None	ENSG00000262640	ENST00000572209	lincRNA	KNOWN	None	None	None	None	17853272	17858989	1	None	None
1	None	ENSG00000235710	ENST00000425559	antisense	KNOWN	None	None	None	None	231319844	231323373	-1	None	None
1	None	ENSG00000235710	ENST00000541173	antisense	KNOWN	None	None	None	None	231319851	231322143	-1	None	None
1	RNU6-1102P	ENSG00000251958	ENST00000516149	snRNA	KNOWN	None	48065	None	None	78554672	78554767	-1	None	None
22	None	ENSG00000224256	ENST00000447099	processed_pseudogene	KNOWN	None	None	None	None	29231881	29232125	-1	None	None
6	CASP8AP2	ENSG00000118412	ENST00000552401	processed_transcript	KNOWN	None	1510	None	None	90539613	90572512	1	None	FLASH, CED-4, RIP25, FLJ11208, KIAA1315
6	CASP8AP2	ENSG00000118412	ENST00000419040	processed_transcript	KNOWN	None	1510	None	None	90539619	90572512	1	None	FLASH, CED-4, RIP25, FLJ11208, KIAA1315
6	CASP8AP2	ENSG00000118412	ENST00000547893	processed_transcript	KNOWN	None	1510	None	None	90539650	90567068	1	None	FLASH, CED-4, RIP25, FLJ11208, KIAA1315
6	CASP8AP2	ENSG00000118412	ENST00000237177	processed_transcript	KNOWN	None	1510	None	None	90539658	90584155	1	None	FLASH, CED-4, RIP25, FLJ11208, KIAA1315
6	CASP8AP2	ENSG00000118412	ENST00000548224	processed_transcript	KNOWN	None	1510	None	None	90539660	90584153	1	None	FLASH, CED-4, RIP25, FLJ11208, KIAA1315
6	CASP8AP2	ENSG00000118412	ENST00000551025	processed_transcript	KNOWN	None	1510	None	None	90539650	90581122	1	None	FLASH, CED-4, RIP25, FLJ11208, KIAA1315
6	CASP8AP2	ENSG00000118412	ENST00000444163	processed_transcript	KNOWN	None	1510	None	None	90539650	90570561	1	None	FLASH, CED-4, RIP25, FLJ11208, KIAA1315
11	None	ENSG00000254684	ENST00000528836	processed_pseudogene	KNOWN	None	None	None	None	85047119	85047616	-1	None	None
10	None	ENSG00000233144	ENST00000427492	antisense	KNOWN	None	None	None	None	75141191	75143254	1	None	None
2	FTH1P6	ENSG00000233083	ENST00000430768	processed_pseudogene	KNOWN	None	39088	None	None	52856881	52857216	1	None	None
1	None	ENSG00000213560	ENST00000448345	processed_pseudogene	KNOWN	None	None	None	None	78557183	78557738	1	None	None
HSCHR17_1	None	ENSG00000257882	ENST00000549783	protein_coding	NOVEL	None	None	2055	684	44327965	44330147	-1	None	None
1	None	ENSG00000231966	ENST00000442108	lincRNA	KNOWN	None	None	None	None	179798744	179805259	-1	None	None
12	None	ENSG00000234040	ENST00000427342	processed_pseudogene	KNOWN	None	None	None	None	69020650	69020967	-1	None	None
GL000219.1	None	ENSG00000238664	ENST00000459486	miRNA	NOVEL	None	None	None	None	173994	174069	1	None	None
6	SLC25A27	ENSG00000153291	ENST00000371347	protein_coding	KNOWN	CCDS43470	21065	972	323	46620678	46645930	1	None	UCP4, FLJ33552
6	SLC25A27	ENSG00000153291	ENST00000603486	protein_coding	KNOWN	None	21065	448	148	46626400	46636484	1	None	UCP4, FLJ33552
6	SLC25A27	ENSG00000153291	ENST00000604908	processed_transcript	KNOWN	None	21065	None	None	46626490	46637945	1	None	UCP4, FLJ33552
6	SLC25A27	ENSG00000153291	ENST00000604217	protein_coding	KNOWN	None	21065	433	143	46630197	46638965	1	None	UCP4, FLJ33552
6	SLC25A27	ENSG00000153291	ENST00000604127	nonsense_mediated_decay	KNOWN	None	21065	436	144	46630197	46645654	1	None	UCP4, FLJ33552
6	SLC25A27	ENSG00000153291	ENST00000604616	protein_coding	KNOWN	None	21065	296	97	46632612	46644740	1	None	UCP4, FLJ33552
6	SLC25A27	ENSG00000153291	ENST00000603501	processed_transcript	KNOWN	None	21065	None	None	46644250	46645471	1	None	UCP4, FLJ33552
6	SLC25A27	ENSG00000153291	ENST00000411689	protein_coding	KNOWN	CCDS56431	21065	738	245	46620679	46644750	1	None	UCP4, FLJ33552
6	SLC25A27	ENSG00000153291	ENST00000452689	protein_coding	KNOWN	None	21065	714	237	46620722	46644513	1	None	UCP4, FLJ33552
3	None	ENSG00000242512	ENST00000482787	lincRNA	KNOWN	None	None	None	None	181670131	181728466	1	None	None
3	None	ENSG00000242512	ENST00000600750	lincRNA	KNOWN	None	None	None	None	181670137	181690285	1	None	None
3	None	ENSG00000242512	ENST00000596820	lincRNA	KNOWN	None	None	None	None	181670158	181690285	1	None	None
3	None	ENSG00000242512	ENST00000490001	lincRNA	KNOWN	None	None	None	None	181670161	181718050	1	None	None
3	None	ENSG00000242512	ENST00000467313	lincRNA	KNOWN	None	None	None	None	181670162	181691133	1	None	None
3	None	ENSG00000242512	ENST00000474045	lincRNA	KNOWN	None	None	None	None	181670174	181720910	1	None	None
3	None	ENSG00000242512	ENST00000476815	lincRNA	KNOWN	None	None	None	None	181670192	181689667	1	None	None
2	TRMT61B	ENSG00000171103	ENST00000419999	protein_coding	NOVEL	None	26070	307	101	29072687	29074149	-1	None	FLJ20628
2	TRMT61B	ENSG00000171103	ENST00000306108	protein_coding	KNOWN	CCDS1768	26070	1434	477	29072687	29093167	-1	None	FLJ20628
2	TRMT61B	ENSG00000171103	ENST00000439947	nonsense_mediated_decay	KNOWN	None	26070	1101	366	29072706	29093161	-1	None	FLJ20628
2	TRMT61B	ENSG00000171103	ENST00000490390	retained_intron	KNOWN	None	26070	None	None	29074057	29084356	-1	None	FLJ20628
2	TRMT61B	ENSG00000171103	ENST00000484060	processed_transcript	KNOWN	None	26070	None	None	29074135	29084815	-1	None	FLJ20628
2	None	ENSG00000234940	ENST00000432431	lincRNA	KNOWN	None	None	None	None	145445980	145447752	-1	None	None
1	RNA5SP80	ENSG00000222407	ENST00000410475	rRNA	KNOWN	None	42857	None	None	231417160	231417270	-1	RN5S80	None
12	None	ENSG00000257824	ENST00000547942	antisense	KNOWN	None	None	None	None	54936895	54937889	-1	None	None
10	None	ENSG00000229659	ENST00000440913	processed_pseudogene	KNOWN	None	None	None	None	75182017	75182454	-1	None	None
GL000213.1	None	ENSG00000269725	ENST00000594210	protein_coding	KNOWN	None	None	420	139	68442	70280	1	None	None
1	RN7SL230P	ENSG00000264916	ENST00000580835	misc_RNA	KNOWN	None	46246	None	None	179869397	179869697	1	None	None
1	RNA5SP22	ENSG00000202263	ENST00000365393	rRNA	KNOWN	None	42590	None	None	78560491	78560599	-1	RN5S22	None
16	None	ENSG00000228480	ENST00000416201	unprocessed_pseudogene	KNOWN	None	None	None	None	26366117	26369676	-1	None	None
3	ST13P15	ENSG00000243759	ENST00000460666	processed_pseudogene	KNOWN	None	38850	None	None	143235965	143237071	-1	None	None
1	SNRPD2P2	ENSG00000223982	ENST00000473818	processed_pseudogene	KNOWN	None	38598	None	None	231611702	231612034	-1	None	None
3	EEF1GP4	ENSG00000240138	ENST00000467631	processed_pseudogene	KNOWN	None	44559	None	None	161042701	161044007	-1	None	None
5	DNAJC21	ENSG00000168724	ENST00000342382	protein_coding	KNOWN	CCDS34144	27030	1596	531	34929698	34955305	1	None	GS3, DNAJA5, JJJ1
5	DNAJC21	ENSG00000168724	ENST00000382021	protein_coding	KNOWN	CCDS3907	27030	1731	576	34929698	34959069	1	None	GS3, DNAJA5, JJJ1
5	DNAJC21	ENSG00000168724	ENST00000514237	processed_transcript	KNOWN	None	27030	None	None	34936309	34954046	1	None	GS3, DNAJA5, JJJ1
5	DNAJC21	ENSG00000168724	ENST00000512136	processed_transcript	KNOWN	None	27030	None	None	34945866	34952848	1	None	GS3, DNAJA5, JJJ1
5	DNAJC21	ENSG00000168724	ENST00000506762	retained_intron	KNOWN	None	27030	None	None	34950312	34954296	1	None	GS3, DNAJA5, JJJ1
5	DNAJC21	ENSG00000168724	ENST00000509626	retained_intron	KNOWN	None	27030	None	None	34953631	34954960	1	None	GS3, DNAJA5, JJJ1
5	DNAJC21	ENSG00000168724	ENST00000303525	protein_coding	KNOWN	None	27030	1635	544	34929698	34959068	1	None	GS3, DNAJA5, JJJ1
14	None	ENSG00000202275	ENST00000365405	snoRNA	NOVEL	None	None	None	None	104263609	104263685	-1	None	None
3	None	ENSG00000232783	ENST00000422555	retained_intron	KNOWN	None	None	None	None	197836983	197837809	1	None	None
3	None	ENSG00000232783	ENST00000419104	processed_transcript	KNOWN	None	None	None	None	197836983	197838437	1	None	None
3	None	ENSG00000232783	ENST00000411596	processed_transcript	KNOWN	None	None	None	None	197836995	197838291	1	None	None
3	None	ENSG00000232783	ENST00000453982	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	197837077	197838749	1	None	None
1	None	ENSG00000271783	ENST00000606911	lincRNA	KNOWN	None	None	None	None	179890139	179894128	1	None	None
1	RNFT1P2	ENSG00000233333	ENST00000443064	processed_pseudogene	KNOWN	None	44388	None	None	78636165	78636921	-1	None	None
20	PLCB1-IT1	ENSG00000225479	ENST00000441231	sense_intronic	KNOWN	None	41414	None	None	8229351	8230389	1	None	None
20	PLCB1-IT1	ENSG00000225479	ENST00000451443	sense_intronic	KNOWN	None	41414	None	None	8229372	8237564	1	None	None
14	LINC00637	ENSG00000258735	ENST00000556586	lincRNA	KNOWN	None	27069	None	None	104314058	104324386	1	None	None
18	LDLRAD4-AS1	ENSG00000267690	ENST00000588672	antisense	KNOWN	None	48592	None	None	13419420	13427479	-1	None	None
2	None	ENSG00000235352	ENST00000420880	processed_pseudogene	KNOWN	None	None	None	None	145512343	145513565	-1	None	None
11	None	ENSG00000254897	ENST00000533748	processed_pseudogene	KNOWN	None	None	None	None	85163326	85164742	-1	None	None
10	None	ENSG00000266344	ENST00000584907	miRNA	NOVEL	None	None	None	None	75188425	75188494	1	None	None
12	SNORA70G	ENSG00000206650	ENST00000383923	snoRNA	KNOWN	None	34359	None	None	69021014	69021155	-1	None	U70G
2	MIR4431	ENSG00000264975	ENST00000579990	miRNA	KNOWN	None	41738	None	None	52929660	52929753	-1	None	hsa-mir-4431
GL000213.1	None	ENSG00000237375	ENST00000327822	protein_coding	KNOWN	None	None	1755	584	108007	139339	-1	None	None
1	None	ENSG00000261831	ENST00000567486	lincRNA	KNOWN	None	None	None	None	179895776	179910931	-1	None	None
11	SLC22A20	ENSG00000197847	ENST00000525437	processed_transcript	KNOWN	None	29867	None	None	64981311	65010228	1	None	Oat6, FLJ16331
11	SLC22A20	ENSG00000197847	ENST00000525264	processed_transcript	KNOWN	None	29867	None	None	64981319	64993511	1	None	Oat6, FLJ16331
11	SLC22A20	ENSG00000197847	ENST00000530038	unitary_pseudogene	KNOWN	None	29867	None	None	64981344	65009557	1	None	Oat6, FLJ16331
11	SLC22A20	ENSG00000197847	ENST00000529062	processed_transcript	KNOWN	None	29867	None	None	64981347	65009826	1	None	Oat6, FLJ16331
11	SLC22A20	ENSG00000197847	ENST00000534471	retained_intron	KNOWN	None	29867	None	None	64988632	64991323	1	None	Oat6, FLJ16331
11	SLC22A20	ENSG00000197847	ENST00000454680	unitary_pseudogene	KNOWN	None	29867	None	None	64981311	65010228	1	None	Oat6, FLJ16331
1	None	ENSG00000237413	ENST00000436742	lincRNA	KNOWN	None	None	None	None	78695283	78759574	1	None	None
1	None	ENSG00000237413	ENST00000413519	sense_overlapping	KNOWN	None	None	None	None	78695306	78835149	1	None	None
8	None	ENSG00000254014	ENST00000519351	processed_pseudogene	KNOWN	None	None	None	None	82156391	82156573	1	None	None
7	NOS3	ENSG00000164867	ENST00000297494	protein_coding	KNOWN	CCDS5912	7876	3612	1203	150688083	150711676	1	None	ECNOS, eNOS
7	NOS3	ENSG00000164867	ENST00000461406	protein_coding	KNOWN	None	7876	2994	997	150688192	150711562	1	None	ECNOS, eNOS
7	NOS3	ENSG00000164867	ENST00000484524	protein_coding	NOVEL	CCDS55182	7876	1890	629	150690892	150701023	1	None	ECNOS, eNOS
7	NOS3	ENSG00000164867	ENST00000467517	protein_coding	NOVEL	CCDS55183	7876	1845	614	150690892	150701023	1	None	ECNOS, eNOS
7	NOS3	ENSG00000164867	ENST00000460603	processed_transcript	KNOWN	None	7876	None	None	150698955	150700051	1	None	ECNOS, eNOS
7	NOS3	ENSG00000164867	ENST00000473057	processed_transcript	KNOWN	None	7876	None	None	150705962	150706658	1	None	ECNOS, eNOS
7	NOS3	ENSG00000164867	ENST00000475017	protein_coding	PUTATIVE	None	7876	920	305	150706025	150709153	1	None	ECNOS, eNOS
7	NOS3	ENSG00000164867	ENST00000468293	processed_transcript	KNOWN	None	7876	None	None	150707608	150710466	1	None	ECNOS, eNOS
7	NOS3	ENSG00000164867	ENST00000477227	processed_transcript	KNOWN	None	7876	None	None	150707621	150711377	1	None	ECNOS, eNOS
7	NOS3	ENSG00000164867	ENST00000475454	retained_intron	KNOWN	None	7876	None	None	150709494	150710617	1	None	ECNOS, eNOS
3	None	ENSG00000248374	ENST00000505671	unprocessed_pseudogene	KNOWN	None	None	None	None	143339370	143346532	1	None	None
2	None	ENSG00000228033	ENST00000421575	lincRNA	KNOWN	None	None	None	None	52949815	53137158	-1	None	None
2	None	ENSG00000228033	ENST00000443237	lincRNA	KNOWN	None	None	None	None	52949815	53137158	-1	None	None
2	None	ENSG00000268580	ENST00000595809	lincRNA	KNOWN	None	None	None	None	145635301	145639600	-1	None	None
1	None	ENSG00000260360	ENST00000567904	lincRNA	KNOWN	None	None	None	None	179922319	179923575	-1	None	None
22	ZNRF3-IT1	ENSG00000235786	ENST00000412798	sense_intronic	KNOWN	None	41440	None	None	29388709	29414608	1	None	None
1	None	ENSG00000233461	ENST00000416221	antisense	KNOWN	None	None	None	None	231658134	231664302	-1	None	None
1	None	ENSG00000233461	ENST00000440665	antisense	KNOWN	None	None	None	None	231658207	231664001	-1	None	None
1	None	ENSG00000233461	ENST00000450783	antisense	KNOWN	None	None	None	None	231658207	231664042	-1	None	None
1	None	ENSG00000233461	ENST00000454631	antisense	KNOWN	None	None	None	None	231658263	231664302	-1	None	None
1	None	ENSG00000233461	ENST00000425412	antisense	KNOWN	None	None	None	None	231662852	231664247	-1	None	None
3	None	ENSG00000240562	ENST00000479610	lincRNA	KNOWN	None	None	None	None	127208396	127209630	1	None	None
2	None	ENSG00000235435	ENST00000454965	lincRNA	KNOWN	None	None	None	None	146051845	146089415	-1	None	None
18	MIR5190	ENSG00000266146	ENST00000581537	miRNA	KNOWN	None	43549	None	None	13459946	13460025	1	None	hsa-mir-5190
14	None	ENSG00000258534	ENST00000555967	lincRNA	KNOWN	None	None	None	None	104320703	104346448	-1	None	None
1	None	ENSG00000235145	ENST00000447583	processed_pseudogene	KNOWN	None	None	None	None	179937821	179938641	1	None	None
10	None	ENSG00000221817	ENST00000422977	antisense	KNOWN	None	None	None	None	75255283	75256536	1	None	None
10	None	ENSG00000221817	ENST00000442133	antisense	KNOWN	None	None	None	None	75256041	75265320	1	None	None
10	None	ENSG00000221817	ENST00000596320	antisense	KNOWN	None	None	None	None	75256045	75265182	1	None	None
10	None	ENSG00000221817	ENST00000597958	antisense	KNOWN	None	None	None	None	75256045	75279658	1	None	None
10	None	ENSG00000221817	ENST00000600206	antisense	KNOWN	None	None	None	None	75256045	75279828	1	None	None
10	None	ENSG00000221817	ENST00000595069	antisense	KNOWN	None	None	None	None	75256048	75279518	1	None	None
10	None	ENSG00000221817	ENST00000593790	antisense	KNOWN	None	None	None	None	75256049	75279519	1	None	None
10	None	ENSG00000221817	ENST00000595935	antisense	KNOWN	None	None	None	None	75256367	75264495	1	None	None
10	None	ENSG00000221817	ENST00000600887	antisense	KNOWN	None	None	None	None	75256508	75259684	1	None	None
10	None	ENSG00000221817	ENST00000600607	antisense	KNOWN	None	None	None	None	75256572	75273232	1	None	None
10	None	ENSG00000221817	ENST00000439792	retained_intron	KNOWN	None	None	None	None	75258314	75259585	1	None	None
18	None	ENSG00000267694	ENST00000585817	antisense	KNOWN	None	None	None	None	13461019	13470822	-1	None	None
5	None	ENSG00000250237	ENST00000479830	lincRNA	KNOWN	None	None	None	None	68334345	68339648	-1	None	None
8	UBE2HP1	ENSG00000253677	ENST00000517466	processed_pseudogene	KNOWN	None	31079	None	None	82167105	82167464	1	UBE2HP	None
X	None	ENSG00000226530	ENST00000418775	processed_transcript	PUTATIVE	None	None	None	None	51139363	51141382	1	None	None
X	None	ENSG00000226530	ENST00000455931	processed_transcript	PUTATIVE	None	None	None	None	51139383	51208513	1	None	None
2	None	ENSG00000253036	ENST00000517227	snoRNA	NOVEL	None	None	None	None	146092638	146092740	1	None	None
1	None	ENSG00000223450	ENST00000424289	processed_pseudogene	KNOWN	None	None	None	None	179969573	179969943	-1	None	None
2	None	ENSG00000214064	ENST00000445678	processed_pseudogene	KNOWN	None	None	None	None	146094798	146095625	1	None	None
12	GLYCAM1	ENSG00000257780	ENST00000550226	processed_transcript	KNOWN	None	18023	None	None	55001971	55004246	-1	None	None
12	GLYCAM1	ENSG00000257780	ENST00000546607	processed_transcript	KNOWN	None	18023	None	None	55001971	55004246	-1	None	None
12	GLYCAM1	ENSG00000257780	ENST00000552698	processed_transcript	KNOWN	None	18023	None	None	55002017	55004213	-1	None	None
12	GLYCAM1	ENSG00000257780	ENST00000547350	processed_transcript	KNOWN	None	18023	None	None	55002017	55004213	-1	None	None
12	GLYCAM1	ENSG00000257780	ENST00000546596	unitary_pseudogene	KNOWN	None	18023	None	None	55002057	55004189	-1	None	None
14	None	ENSG00000258914	ENST00000556653	lincRNA	KNOWN	None	None	None	None	104341392	104343815	1	None	None
16	None	ENSG00000260259	ENST00000567544	protein_coding	PUTATIVE	None	None	393	130	89749028	89752977	-1	None	None
2	None	ENSG00000232604	ENST00000418451	lincRNA	KNOWN	None	None	None	None	53091373	53093769	1	None	None
1	None	ENSG00000252450	ENST00000516641	misc_RNA	NOVEL	None	None	None	None	32752053	32752162	-1	None	None
1	None	ENSG00000227556	ENST00000419107	unprocessed_pseudogene	KNOWN	None	None	None	None	78782841	78782947	-1	None	None
8	LSM1	ENSG00000175324	ENST00000311351	protein_coding	KNOWN	CCDS6103	20472	402	133	38020839	38034234	-1	None	CASM, YJL124C
8	LSM1	ENSG00000175324	ENST00000520755	protein_coding	PUTATIVE	None	20472	135	44	38020853	38034192	-1	None	CASM, YJL124C
8	LSM1	ENSG00000175324	ENST00000522515	processed_transcript	KNOWN	None	20472	None	None	38020877	38034234	-1	None	CASM, YJL124C
8	LSM1	ENSG00000175324	ENST00000520286	processed_transcript	KNOWN	None	20472	None	None	38020946	38034248	-1	None	CASM, YJL124C
8	LSM1	ENSG00000175324	ENST00000523511	nonsense_mediated_decay	KNOWN	None	20472	135	44	38021128	38034006	-1	None	CASM, YJL124C
18	None	ENSG00000267529	ENST00000590468	antisense	KNOWN	None	None	None	None	13471849	13472669	-1	None	None
16	None	ENSG00000260735	ENST00000569858	antisense	KNOWN	None	None	None	None	15188268	15203054	1	None	None
12	None	ENSG00000234925	ENST00000414313	processed_pseudogene	KNOWN	None	None	None	None	69036299	69036773	-1	None	None
8	None	ENSG00000272425	ENST00000606235	lincRNA	KNOWN	None	None	None	None	82187634	82189805	-1	None	None
3	EFCAB12	ENSG00000172771	ENST00000505956	protein_coding	KNOWN	CCDS54638	28061	1719	572	129120164	129147494	-1	C3orf25	None
3	EFCAB12	ENSG00000172771	ENST00000514900	retained_intron	KNOWN	None	28061	None	None	129120165	129137366	-1	C3orf25	None
3	EFCAB12	ENSG00000172771	ENST00000503498	retained_intron	KNOWN	None	28061	None	None	129120169	129140426	-1	C3orf25	None
3	EFCAB12	ENSG00000172771	ENST00000503957	protein_coding	PUTATIVE	None	28061	476	157	129130110	129147460	-1	C3orf25	None
3	EFCAB12	ENSG00000172771	ENST00000326085	protein_coding	KNOWN	None	28061	1719	572	129120165	129147494	-1	C3orf25	None
1	None	ENSG00000233775	ENST00000448134	lincRNA	KNOWN	None	None	None	None	32814795	32816264	-1	None	None
5	SUMO2P4	ENSG00000249183	ENST00000504193	processed_pseudogene	KNOWN	None	39014	None	None	68364752	68365027	-1	None	None
2	None	ENSG00000225107	ENST00000420548	lincRNA	KNOWN	None	None	None	None	146326862	146345592	-1	None	None
5	None	ENSG00000253422	ENST00000519146	processed_pseudogene	KNOWN	None	None	None	None	157505107	157505772	-1	None	None
18	None	ENSG00000267702	ENST00000587344	sense_intronic	KNOWN	None	None	None	None	13486461	13490675	1	None	None
1	None	ENSG00000261817	ENST00000566904	lincRNA	KNOWN	None	None	None	None	180086275	180093025	-1	None	None
1	RNA5SP23	ENSG00000212308	ENST00000391006	rRNA	KNOWN	None	42591	None	None	78840849	78840953	-1	RN5S23	None
2	None	ENSG00000232668	ENST00000438648	processed_pseudogene	KNOWN	None	None	None	None	53110381	53110593	1	None	None
HSCHR20_1_CTG1	None	ENSG00000262802	ENST00000574066	lincRNA	KNOWN	None	None	None	None	17874023	17874820	-1	None	None
11	None	ENSG00000269944	ENST00000602598	sense_intronic	KNOWN	None	None	None	None	118286692	118287236	1	None	None
19	None	ENSG00000269836	ENST00000594678	antisense	KNOWN	None	None	None	None	17288320	17289285	-1	None	None
5	None	ENSG00000234758	ENST00000446275	antisense	KNOWN	None	None	None	None	131280101	131303913	1	None	None
18	None	ENSG00000267366	ENST00000589045	antisense	KNOWN	None	None	None	None	13500640	13501288	-1	None	None
5	SNX18	ENSG00000178996	ENST00000381410	protein_coding	KNOWN	CCDS43317	19245	1875	624	53813593	53842415	1	SNAG1	SH3PX2, SH3PXD3B
5	SNX18	ENSG00000178996	ENST00000343017	protein_coding	KNOWN	CCDS54851	19245	1776	591	53813589	53842415	1	SNAG1	SH3PX2, SH3PXD3B
5	SNX18	ENSG00000178996	ENST00000326277	protein_coding	KNOWN	CCDS3962	19245	1887	628	53813593	53816833	1	SNAG1	SH3PX2, SH3PXD3B
1	GAPDHP20	ENSG00000224333	ENST00000444107	processed_pseudogene	KNOWN	None	37772	None	None	32867710	32868716	-1	None	None
1	None	ENSG00000238015	ENST00000427236	processed_pseudogene	KNOWN	None	None	None	None	79131957	79132380	1	None	None
5	None	ENSG00000253792	ENST00000522769	lincRNA	KNOWN	None	None	None	None	157600609	157603430	-1	None	None
12	None	ENSG00000247363	ENST00000500695	lincRNA	KNOWN	None	None	None	None	69068151	69080639	-1	None	None
12	None	ENSG00000247363	ENST00000502102	lincRNA	KNOWN	None	None	None	None	69069130	69081535	-1	None	None
12	None	ENSG00000247363	ENST00000433116	lincRNA	KNOWN	None	None	None	None	69079349	69080617	-1	None	None
19	None	ENSG00000269480	ENST00000601929	antisense	KNOWN	None	None	None	None	17317947	17318819	-1	None	None
14	None	ENSG00000264439	ENST00000580575	miRNA	NOVEL	None	None	None	None	104447135	104447220	-1	None	None
8	TMEM249	ENSG00000214597	ENST00000526503	retained_intron	KNOWN	None	44155	None	None	145575878	145577730	-1	None	C8orfK29
8	TMEM249	ENSG00000214597	ENST00000398633	protein_coding	KNOWN	CCDS59117	44155	708	235	145576888	145578574	-1	None	C8orfK29
8	TMEM249	ENSG00000214597	ENST00000526263	protein_coding	NOVEL	None	44155	647	214	145576974	145578505	-1	None	C8orfK29
2	None	ENSG00000226218	ENST00000418416	lincRNA	KNOWN	None	None	None	None	146358475	146360991	-1	None	None
2	None	ENSG00000251942	ENST00000516133	snoRNA	NOVEL	None	None	None	None	53697585	53697767	-1	None	None
5	None	ENSG00000253673	ENST00000522975	lincRNA	KNOWN	None	None	None	None	157602404	157627024	1	None	None
14	RN7SL634P	ENSG00000242894	ENST00000485467	misc_RNA	KNOWN	None	46650	None	None	104479979	104480268	1	None	None
12	FKBP11	ENSG00000134285	ENST00000553027	retained_intron	KNOWN	None	18624	None	None	49315301	49320257	-1	None	FKBP19
12	FKBP11	ENSG00000134285	ENST00000551094	retained_intron	KNOWN	None	18624	None	None	49315742	49318512	-1	None	FKBP19
12	FKBP11	ENSG00000134285	ENST00000444214	protein_coding	KNOWN	CCDS44870	18624	300	99	49315742	49318750	-1	None	FKBP19
12	FKBP11	ENSG00000134285	ENST00000550765	protein_coding	KNOWN	CCDS8773	18624	606	201	49315742	49319610	-1	None	FKBP19
12	FKBP11	ENSG00000134285	ENST00000546847	nonsense_mediated_decay	KNOWN	None	18624	192	63	49315743	49318398	-1	None	FKBP19
12	FKBP11	ENSG00000134285	ENST00000551694	retained_intron	KNOWN	None	18624	None	None	49315744	49319293	-1	None	FKBP19
12	FKBP11	ENSG00000134285	ENST00000256680	nonsense_mediated_decay	KNOWN	None	18624	279	92	49315760	49319268	-1	None	FKBP19
12	FKBP11	ENSG00000134285	ENST00000552878	protein_coding	PUTATIVE	None	18624	549	182	49316565	49319294	-1	None	FKBP19
12	FKBP11	ENSG00000134285	ENST00000453172	protein_coding	KNOWN	CCDS44871	18624	441	146	49316909	49319303	-1	None	FKBP19
12	FKBP11	ENSG00000134285	ENST00000546671	retained_intron	KNOWN	None	18624	None	None	49317025	49318571	-1	None	FKBP19
12	FKBP11	ENSG00000134285	ENST00000547789	nonsense_mediated_decay	KNOWN	None	18624	219	72	49317546	49319275	-1	None	FKBP19
12	FKBP11	ENSG00000134285	ENST00000549084	retained_intron	KNOWN	None	18624	None	None	49317722	49318939	-1	None	FKBP19
12	FKBP11	ENSG00000134285	ENST00000551807	retained_intron	KNOWN	None	18624	None	None	49318609	49319293	-1	None	FKBP19
2	TIGD1	ENSG00000221944	ENST00000408957	protein_coding	KNOWN	CCDS2495	14523	1776	591	233412779	233415226	-1	None	EEYORE
19	None	ENSG00000269815	ENST00000594077	sense_intronic	KNOWN	None	None	None	None	17407005	17407504	-1	None	None
18	None	ENSG00000267136	ENST00000585366	antisense	KNOWN	None	None	None	None	13514519	13522887	-1	None	None
2	None	ENSG00000223897	ENST00000421749	processed_pseudogene	KNOWN	None	None	None	None	53713282	53713418	-1	None	None
2	CHMP3	ENSG00000115561	ENST00000263856	protein_coding	KNOWN	CCDS33236	29865	669	222	86730554	86790600	-1	VPS24	NEDF, CGI-149
2	CHMP3	ENSG00000115561	ENST00000409727	protein_coding	PUTATIVE	CCDS54375	29865	549	182	86731651	86790497	-1	VPS24	NEDF, CGI-149
2	CHMP3	ENSG00000115561	ENST00000409225	protein_coding	KNOWN	CCDS42707	29865	471	156	86732567	86790602	-1	VPS24	NEDF, CGI-149
2	CHMP3	ENSG00000115561	ENST00000393773	processed_transcript	KNOWN	None	29865	None	None	86732898	86790289	-1	VPS24	NEDF, CGI-149
2	CHMP3	ENSG00000115561	ENST00000409810	processed_transcript	KNOWN	None	29865	None	None	86733052	86769970	-1	VPS24	NEDF, CGI-149
2	CHMP3	ENSG00000115561	ENST00000494623	processed_transcript	KNOWN	None	29865	None	None	86734171	86739658	-1	VPS24	NEDF, CGI-149
2	CHMP3	ENSG00000115561	ENST00000486404	processed_transcript	KNOWN	None	29865	None	None	86737501	86789064	-1	VPS24	NEDF, CGI-149
2	CHMP3	ENSG00000115561	ENST00000466032	processed_transcript	PUTATIVE	None	29865	None	None	86754171	86769436	-1	VPS24	NEDF, CGI-149
2	CHMP3	ENSG00000115561	ENST00000485465	processed_transcript	PUTATIVE	None	29865	None	None	86767766	86790563	-1	VPS24	NEDF, CGI-149
2	CHMP3	ENSG00000115561	ENST00000439940	protein_coding	KNOWN	CCDS56128	29865	756	251	86732791	86948245	-1	VPS24	NEDF, CGI-149
1	LINC00582	ENSG00000229228	ENST00000448058	antisense	KNOWN	None	43842	None	None	231727038	231747836	-1	None	None
HSCHR19_3_CTG3	ZNF676	ENSG00000262942	ENST00000577063	protein_coding	KNOWN	None	20429	1767	588	22362752	22379435	-1	None	None
8	None	ENSG00000254027	ENST00000518880	antisense	KNOWN	None	None	None	None	82192106	82193681	-1	None	None
8	None	ENSG00000254027	ENST00000517670	antisense	KNOWN	None	None	None	None	82192122	82192910	-1	None	None
7	MIR592	ENSG00000207692	ENST00000384959	miRNA	KNOWN	None	32848	None	None	126698142	126698238	-1	MIRN592	hsa-mir-592
1	None	ENSG00000221683	ENST00000408756	miRNA	NOVEL	None	None	None	None	79152745	79152845	1	None	None
5	None	ENSG00000254047	ENST00000518624	processed_pseudogene	KNOWN	None	None	None	None	157615985	157616919	-1	None	None
1	None	ENSG00000230124	ENST00000415414	antisense	KNOWN	None	None	None	None	180238788	180243816	-1	None	None
1	None	ENSG00000230124	ENST00000440959	antisense	KNOWN	None	None	None	None	180241737	180245359	-1	None	None
18	None	ENSG00000267503	ENST00000590042	antisense	KNOWN	None	None	None	None	13561398	13565034	-1	None	None
11	OR52E3P	ENSG00000226157	ENST00000452083	unprocessed_pseudogene	KNOWN	None	14793	None	None	5113906	5114841	1	None	None
2	RNU6-997P	ENSG00000207456	ENST00000384725	snRNA	KNOWN	None	47960	None	None	53797511	53797617	-1	None	None
GL000233.1	None	ENSG00000239624	ENST00000478760	miRNA	NOVEL	None	None	None	None	28800	28881	1	None	None
2	None	ENSG00000234119	ENST00000427568	processed_pseudogene	KNOWN	None	None	None	None	146583853	146585398	-1	None	None
16	SPATA2L	ENSG00000158792	ENST00000289805	protein_coding	KNOWN	CCDS10985	28393	1275	424	89762751	89768103	-1	C16orf76	MGC26885, tamo
16	SPATA2L	ENSG00000158792	ENST00000335360	protein_coding	KNOWN	None	28393	459	152	89762765	89768113	-1	C16orf76	MGC26885, tamo
16	SPATA2L	ENSG00000158792	ENST00000569918	protein_coding	KNOWN	None	28393	541	179	89764476	89768048	-1	C16orf76	MGC26885, tamo
X	TAF9B	ENSG00000187325	ENST00000341864	protein_coding	KNOWN	CCDS35340	17306	756	251	77385245	77395203	-1	TAF9L	TAFII31L, DN-7, DN7, TFIID-31
X	TAF9B	ENSG00000187325	ENST00000480681	retained_intron	KNOWN	None	17306	None	None	77387218	77395119	-1	TAF9L	TAFII31L, DN-7, DN7, TFIID-31
12	None	ENSG00000257629	ENST00000548728	processed_pseudogene	KNOWN	None	None	None	None	89421534	89422299	1	None	None
16	None	ENSG00000236481	ENST00000443373	lincRNA	KNOWN	None	None	None	None	26596076	26606134	-1	None	None
2	None	ENSG00000264740	ENST00000583374	miRNA	NOVEL	None	None	None	None	53878538	53878610	-1	None	None
3	None	ENSG00000230172	ENST00000422657	antisense	KNOWN	None	None	None	None	14806459	14808947	-1	None	None
18	MIR4526	ENSG00000263527	ENST00000583168	miRNA	KNOWN	None	41618	None	None	13611113	13611199	1	None	hsa-mir-4526
1	None	ENSG00000235400	ENST00000444644	processed_pseudogene	KNOWN	None	None	None	None	79214758	79216344	1	None	None
GL000233.1	None	ENSG00000240688	ENST00000466802	miRNA	NOVEL	None	None	None	None	35214	35296	1	None	None
2	None	ENSG00000238756	ENST00000459138	snoRNA	NOVEL	None	None	None	None	54066862	54066966	-1	None	None
1	RNU5A-5P	ENSG00000222986	ENST00000411054	snRNA	KNOWN	None	42525	None	None	231806381	231806496	1	None	None
1	VSIG8	ENSG00000243284	ENST00000368100	protein_coding	KNOWN	CCDS30913	32063	1245	414	159824106	159832447	-1	None	None
18	None	ENSG00000266954	ENST00000588397	antisense	KNOWN	None	None	None	None	13644814	13645684	-1	None	None
2	MIR3682	ENSG00000265452	ENST00000581338	miRNA	KNOWN	None	38916	None	None	54076259	54076342	-1	None	hsa-mir-3682
1	DISC1-IT1	ENSG00000226758	ENST00000456782	sense_intronic	KNOWN	None	41325	None	None	232061580	232080979	1	None	None
1	PSAT1P3	ENSG00000230787	ENST00000439132	processed_pseudogene	KNOWN	None	43989	None	None	79520630	79521740	-1	None	None
7	C7orf62	ENSG00000164645	ENST00000297203	protein_coding	KNOWN	CCDS34678	22402	762	253	88423420	88425035	-1	None	MGC26647
X	DCAF8L1	ENSG00000226372	ENST00000441525	protein_coding	KNOWN	CCDS35222	31810	1803	600	27996110	27999566	-1	WDR42B	None
11	None	ENSG00000257043	ENST00000537438	processed_pseudogene	KNOWN	None	None	None	None	18686597	18687095	1	None	None
14	MIR203	ENSG00000207568	ENST00000384836	miRNA	KNOWN	None	31581	None	None	104583742	104583851	1	MIRN203	hsa-mir-203
4	SLC7A11-AS1	ENSG00000250033	ENST00000510066	antisense	KNOWN	None	44064	None	None	138978618	139019871	1	None	None
4	SLC7A11-AS1	ENSG00000250033	ENST00000510767	antisense	KNOWN	None	44064	None	None	139010168	139099331	1	None	None
4	SLC7A11-AS1	ENSG00000250033	ENST00000512786	antisense	KNOWN	None	44064	None	None	139026549	139095731	1	None	None
4	SLC7A11-AS1	ENSG00000250033	ENST00000514752	retained_intron	KNOWN	None	44064	None	None	139026873	139090561	1	None	None
4	SLC7A11-AS1	ENSG00000250033	ENST00000512538	antisense	KNOWN	None	44064	None	None	139092784	139095924	1	None	None
18	None	ENSG00000266606	ENST00000580433	miRNA	NOVEL	None	None	None	None	13665114	13665165	1	None	None
2	None	ENSG00000235937	ENST00000418851	processed_pseudogene	KNOWN	None	None	None	None	54256689	54257819	-1	None	None
1	None	ENSG00000235152	ENST00000428673	lincRNA	KNOWN	None	None	None	None	232295837	232321389	1	None	None
18	RN7SL362P	ENSG00000242707	ENST00000494228	misc_RNA	KNOWN	None	46378	None	None	13715099	13715367	-1	None	None
1	None	ENSG00000266388	ENST00000577685	miRNA	NOVEL	None	None	None	None	79600818	79600911	-1	None	None
14	None	ENSG00000258748	ENST00000557610	antisense	KNOWN	None	None	None	None	104603487	104604235	-1	None	None
7	None	ENSG00000230206	ENST00000423518	processed_transcript	KNOWN	None	None	None	None	126720747	126730972	-1	None	None
1	VDAC1P4	ENSG00000235060	ENST00000450197	processed_pseudogene	KNOWN	None	12675	None	None	180403935	180405071	1	VDAC4, VDAC4P	None
16	NPIPP1	ENSG00000188599	ENST00000534799	processed_transcript	KNOWN	None	35407	None	None	15198178	15215759	-1	None	None
16	NPIPP1	ENSG00000188599	ENST00000547107	transcribed_unprocessed_pseudogene	KNOWN	None	35407	None	None	15198187	15217355	-1	None	None
16	NPIPP1	ENSG00000188599	ENST00000448011	processed_transcript	KNOWN	None	35407	None	None	15204359	15213071	-1	None	None
16	NPIPP1	ENSG00000188599	ENST00000448014	unprocessed_pseudogene	KNOWN	None	35407	None	None	15198580	15225458	-1	None	None
16	NPIPP1	ENSG00000188599	ENST00000358815	unprocessed_pseudogene	KNOWN	None	35407	None	None	15198580	15225458	-1	None	None
1	None	ENSG00000236372	ENST00000441459	lincRNA	KNOWN	None	None	None	None	232310678	232315859	-1	None	None
18	None	ENSG00000211528	ENST00000390194	miRNA	NOVEL	None	None	None	None	13823914	13823985	-1	None	None
HSCHR18_1_CTG1_1	SKA1	ENSG00000262634	ENST00000571751	protein_coding	KNOWN	None	28109	768	255	47901365	47920543	1	C18orf24	MGC10200
HSCHR18_1_CTG1_1	SKA1	ENSG00000262634	ENST00000571318	processed_transcript	KNOWN	None	28109	None	None	47901431	47918530	1	C18orf24	MGC10200
HSCHR18_1_CTG1_1	SKA1	ENSG00000262634	ENST00000576078	processed_transcript	KNOWN	None	28109	None	None	47901416	47918621	1	C18orf24	MGC10200
1	None	ENSG00000235011	ENST00000415629	lincRNA	KNOWN	None	None	None	None	79789454	79790548	1	None	None
3	None	ENSG00000235110	ENST00000477300	processed_pseudogene	KNOWN	None	None	None	None	143574581	143574984	-1	None	None
3	None	ENSG00000235110	ENST00000392125	processed_pseudogene	KNOWN	None	None	None	None	143574581	143574985	-1	None	None
1	ADH5P2	ENSG00000232676	ENST00000425922	processed_pseudogene	KNOWN	None	22976	None	None	79986765	79987888	1	None	None
15	None	ENSG00000259781	ENST00000569046	processed_pseudogene	KNOWN	None	None	None	None	71457109	71457754	-1	None	None
18	None	ENSG00000243779	ENST00000494882	processed_pseudogene	KNOWN	None	None	None	None	13919602	13919922	-1	None	None
2	None	ENSG00000233842	ENST00000414967	lincRNA	KNOWN	None	None	None	None	146672658	146688714	1	None	None
7	None	ENSG00000236340	ENST00000450061	antisense	KNOWN	None	None	None	None	126855181	126869087	1	None	None
7	None	ENSG00000236340	ENST00000413812	antisense	KNOWN	None	None	None	None	126855181	126869975	1	None	None
1	None	ENSG00000224436	ENST00000412876	processed_pseudogene	KNOWN	None	None	None	None	232357684	232357920	-1	None	None
3	None	ENSG00000260902	ENST00000566553	lincRNA	KNOWN	None	None	None	None	14840838	14852921	-1	None	None
1	RN7SL299P	ENSG00000242794	ENST00000464573	misc_RNA	KNOWN	None	46315	None	None	232358612	232358891	1	None	None
1	RNU6-1211P	ENSG00000238382	ENST00000459179	snRNA	KNOWN	None	48174	None	None	232835950	232836054	1	None	None
11	None	ENSG00000254966	ENST00000527285	antisense	KNOWN	None	None	None	None	18728084	18762115	1	None	None
5	None	ENSG00000253449	ENST00000523178	lincRNA	KNOWN	None	None	None	None	157652360	157661384	-1	None	None
2	RNU7-2P	ENSG00000251905	ENST00000516096	snRNA	KNOWN	None	34098	None	None	146902724	146902785	1	None	U7.2
18	None	ENSG00000270469	ENST00000603126	processed_pseudogene	KNOWN	None	None	None	None	14053950	14054760	1	None	None
2	CTNNA2	ENSG00000066032	ENST00000466387	protein_coding	KNOWN	CCDS42703	2510	2718	905	79412357	80875904	1	None	CAP-R, CT114
2	CTNNA2	ENSG00000066032	ENST00000496251	processed_transcript	KNOWN	None	2510	None	None	79508590	79567289	1	None	CAP-R, CT114
2	CTNNA2	ENSG00000066032	ENST00000467488	retained_intron	KNOWN	None	2510	None	None	79520102	79547019	1	None	CAP-R, CT114
2	CTNNA2	ENSG00000066032	ENST00000497804	processed_transcript	KNOWN	None	2510	None	None	79539836	79567297	1	None	CAP-R, CT114
2	CTNNA2	ENSG00000066032	ENST00000496558	protein_coding	KNOWN	CCDS42703	2510	2718	905	79740126	80875905	1	None	CAP-R, CT114
2	CTNNA2	ENSG00000066032	ENST00000451966	protein_coding	KNOWN	None	2510	199	65	79740160	79971609	1	None	CAP-R, CT114
2	CTNNA2	ENSG00000066032	ENST00000409971	protein_coding	KNOWN	None	2510	352	116	79741748	80085192	1	None	CAP-R, CT114
2	CTNNA2	ENSG00000066032	ENST00000409266	protein_coding	PUTATIVE	None	2510	135	44	79861667	79914855	1	None	CAP-R, CT114
2	CTNNA2	ENSG00000066032	ENST00000402739	protein_coding	PUTATIVE	None	2510	2862	953	79878678	80875814	1	None	CAP-R, CT114
2	CTNNA2	ENSG00000066032	ENST00000508970	processed_transcript	KNOWN	None	2510	None	None	79924972	80004227	1	None	CAP-R, CT114
2	CTNNA2	ENSG00000066032	ENST00000493024	processed_transcript	KNOWN	None	2510	None	None	80532243	80773111	1	None	CAP-R, CT114
2	CTNNA2	ENSG00000066032	ENST00000343114	protein_coding	PUTATIVE	None	2510	1755	584	80540504	80875905	1	None	CAP-R, CT114
2	CTNNA2	ENSG00000066032	ENST00000409550	protein_coding	PUTATIVE	None	2510	571	189	80555400	80782853	1	None	CAP-R, CT114
2	CTNNA2	ENSG00000066032	ENST00000465616	processed_transcript	KNOWN	None	2510	None	None	80605812	80773179	1	None	CAP-R, CT114
2	CTNNA2	ENSG00000066032	ENST00000467892	retained_intron	KNOWN	None	2510	None	None	80816464	80835614	1	None	CAP-R, CT114
2	CTNNA2	ENSG00000066032	ENST00000361291	protein_coding	KNOWN	None	2510	2820	939	79750339	80874997	1	None	CAP-R, CT114
2	CTNNA2	ENSG00000066032	ENST00000541047	protein_coding	KNOWN	CCDS42703	2510	2718	905	79878683	80875904	1	None	CAP-R, CT114
2	CTNNA2	ENSG00000066032	ENST00000540488	protein_coding	KNOWN	CCDS54371	2510	2583	860	79878683	80874997	1	None	CAP-R, CT114
3	PSMC1P7	ENSG00000243838	ENST00000495689	processed_pseudogene	KNOWN	None	39782	None	None	161046712	161048026	-1	None	None
1	None	ENSG00000225919	ENST00000430921	lincRNA	PUTATIVE	None	None	None	None	232853817	232857996	1	None	None
11	OR52J1P	ENSG00000203560	ENST00000450596	unprocessed_pseudogene	KNOWN	None	14760	None	None	5125383	5126314	1	None	None
11	OR52J1P	ENSG00000203560	ENST00000366371	pseudogene	KNOWN	None	14760	None	None	5125401	5126136	1	None	None
1	None	ENSG00000235756	ENST00000416270	processed_pseudogene	KNOWN	None	None	None	None	80557788	80558922	-1	None	None
1	None	ENSG00000270850	ENST00000604085	processed_pseudogene	KNOWN	None	None	None	None	32887580	32887920	1	None	None
18	None	ENSG00000267756	ENST00000585516	unprocessed_pseudogene	KNOWN	None	None	None	None	14074911	14075740	-1	None	None
2	None	ENSG00000230559	ENST00000413391	processed_pseudogene	KNOWN	None	None	None	None	146951864	146952389	1	None	None
2	HMGB1P31	ENSG00000233266	ENST00000437242	processed_pseudogene	KNOWN	None	39122	None	None	54278471	54278897	1	None	None
HSCHR17_1	None	ENSG00000257793	ENST00000550606	protein_coding	NOVEL	None	None	1128	375	44339179	44390746	-1	None	None
HSCHR17_1	None	ENSG00000257793	ENST00000548791	protein_coding	NOVEL	None	None	1206	401	44339179	44390746	-1	None	None
HSCHR17_1	None	ENSG00000257793	ENST00000551817	protein_coding	NOVEL	None	None	1248	415	44339179	44390746	-1	None	None
HSCHR17_1	None	ENSG00000257793	ENST00000552724	protein_coding	NOVEL	None	None	1335	444	44339179	44390746	-1	None	None
HSCHR17_1	None	ENSG00000257793	ENST00000547258	protein_coding	KNOWN	None	None	111	36	44340243	44341844	-1	None	None
HSCHR17_1	None	ENSG00000257793	ENST00000551221	protein_coding	KNOWN	None	None	378	125	44349508	44390746	-1	None	None
16	None	ENSG00000260580	ENST00000562900	lincRNA	KNOWN	None	None	None	None	26733195	26740447	1	None	None
14	None	ENSG00000258913	ENST00000553757	lincRNA	KNOWN	None	None	None	None	104689921	104754406	1	None	None
14	None	ENSG00000258913	ENST00000556528	lincRNA	KNOWN	None	None	None	None	104689931	104741966	1	None	None
14	None	ENSG00000258913	ENST00000555282	lincRNA	KNOWN	None	None	None	None	104689951	104710084	1	None	None
1	MIR3121	ENSG00000265435	ENST00000579680	miRNA	KNOWN	None	38259	None	None	180407449	180407525	-1	None	hsa-mir-3121
1	None	ENSG00000260322	ENST00000567886	lincRNA	KNOWN	None	None	None	None	80580628	80582603	1	None	None
HSCHR6_MHC_MANN	HLA-DQB1-AS1	ENSG00000238226	ENST00000445002	processed_transcript	PUTATIVE	None	39762	None	None	32779553	32780404	1	None	None
X	MIR651	ENSG00000207628	ENST00000384896	miRNA	KNOWN	None	32907	None	None	8095006	8095102	1	MIRN651	hsa-mir-651
1	None	ENSG00000236497	ENST00000457698	lincRNA	KNOWN	None	None	None	None	232863000	232878461	-1	None	None
3	FGD5-AS1	ENSG00000225733	ENST00000430166	antisense	KNOWN	None	40410	None	None	14961854	14989931	-1	None	None
3	FGD5-AS1	ENSG00000225733	ENST00000424349	antisense	KNOWN	None	40410	None	None	14984291	14989014	-1	None	None
3	FGD5-AS1	ENSG00000225733	ENST00000417835	antisense	KNOWN	None	40410	None	None	14986187	14989400	-1	None	None
3	FGD5-AS1	ENSG00000225733	ENST00000426200	antisense	KNOWN	None	40410	None	None	14986200	14989931	-1	None	None
3	FGD5-AS1	ENSG00000225733	ENST00000440079	antisense	KNOWN	None	40410	None	None	14986531	14989012	-1	None	None
5	None	ENSG00000253424	ENST00000518103	lincRNA	KNOWN	None	None	None	None	157683145	157685444	1	None	None
18	None	ENSG00000267150	ENST00000591211	antisense	KNOWN	None	None	None	None	14089934	14091018	1	None	None
1	None	ENSG00000206905	ENST00000384178	misc_RNA	NOVEL	None	None	None	None	180488152	180488255	-1	None	None
1	LRRC37A12P	ENSG00000229259	ENST00000454917	unprocessed_pseudogene	KNOWN	None	43816	None	None	32888815	32892390	-1	None	None
X	DRAXINP1	ENSG00000225574	ENST00000437611	processed_pseudogene	KNOWN	None	44334	None	None	8751555	8752502	-1	None	None
1	HMGB1P18	ENSG00000236407	ENST00000438801	processed_pseudogene	KNOWN	None	39100	None	None	80749037	80749655	1	None	None
2	None	ENSG00000227134	ENST00000424233	processed_pseudogene	KNOWN	None	None	None	None	147234995	147235681	1	None	None
16	None	ENSG00000264935	ENST00000583324	miRNA	NOVEL	None	None	None	None	26747550	26747638	1	None	None
1	None	ENSG00000266683	ENST00000584462	miRNA	NOVEL	None	None	None	None	180514968	180515067	1	None	None
12	None	ENSG00000256022	ENST00000544251	lincRNA	KNOWN	None	None	None	None	128115793	128120664	-1	None	None
12	None	ENSG00000256022	ENST00000540490	lincRNA	KNOWN	None	None	None	None	128118641	128120640	-1	None	None
12	None	ENSG00000256022	ENST00000546180	lincRNA	KNOWN	None	None	None	None	128118641	128121012	-1	None	None
HSCHR6_MHC_MANN	None	ENSG00000242138	ENST00000435264	processed_transcript	PUTATIVE	None	None	None	None	32779559	32782154	-1	None	None
9	ADAMTSL1	ENSG00000178031	ENST00000380548	protein_coding	NOVEL	CCDS47954	14632	5289	1762	18473892	18910948	1	C9orf94	ADAMTSR1, FLJ35283
9	ADAMTSL1	ENSG00000178031	ENST00000327883	protein_coding	KNOWN	CCDS6485	14632	1578	525	18474098	18684955	1	C9orf94	ADAMTSR1, FLJ35283
9	ADAMTSL1	ENSG00000178031	ENST00000431052	protein_coding	PUTATIVE	None	14632	558	185	18474142	18574525	1	C9orf94	ADAMTSR1, FLJ35283
9	ADAMTSL1	ENSG00000178031	ENST00000380570	protein_coding	PUTATIVE	None	14632	660	219	18474151	18622617	1	C9orf94	ADAMTSR1, FLJ35283
9	ADAMTSL1	ENSG00000178031	ENST00000380566	protein_coding	KNOWN	None	14632	1320	439	18474167	18681481	1	C9orf94	ADAMTSR1, FLJ35283
9	ADAMTSL1	ENSG00000178031	ENST00000276935	protein_coding	NOVEL	None	14632	2052	683	18474231	18723915	1	C9orf94	ADAMTSR1, FLJ35283
9	ADAMTSL1	ENSG00000178031	ENST00000546040	retained_intron	KNOWN	None	14632	None	None	18657613	18684955	1	C9orf94	ADAMTSR1, FLJ35283
9	ADAMTSL1	ENSG00000178031	ENST00000380559	retained_intron	KNOWN	None	14632	None	None	18706639	18910945	1	C9orf94	ADAMTSR1, FLJ35283
9	ADAMTSL1	ENSG00000178031	ENST00000496521	processed_transcript	KNOWN	None	14632	None	None	18793223	18796760	1	C9orf94	ADAMTSR1, FLJ35283
9	ADAMTSL1	ENSG00000178031	ENST00000380545	protein_coding	PUTATIVE	None	14632	1392	463	18826136	18908607	1	C9orf94	ADAMTSR1, FLJ35283
9	ADAMTSL1	ENSG00000178031	ENST00000542621	nonsense_mediated_decay	KNOWN	None	14632	777	258	18826136	18910292	1	C9orf94	ADAMTSR1, FLJ35283
9	ADAMTSL1	ENSG00000178031	ENST00000388710	nonsense_mediated_decay	KNOWN	None	14632	828	275	18826146	18908607	1	C9orf94	ADAMTSR1, FLJ35283
9	ADAMTSL1	ENSG00000178031	ENST00000380538	protein_coding	PUTATIVE	None	14632	453	150	18829921	18890788	1	C9orf94	ADAMTSR1, FLJ35283
9	ADAMTSL1	ENSG00000178031	ENST00000489062	retained_intron	KNOWN	None	14632	None	None	18905489	18910945	1	C9orf94	ADAMTSR1, FLJ35283
1	RNU1-74P	ENSG00000206835	ENST00000384108	snRNA	KNOWN	None	48416	None	None	232967763	232967933	-1	None	None
X	None	ENSG00000231619	ENST00000422795	processed_pseudogene	KNOWN	None	None	None	None	8824706	8825100	-1	None	None
1	None	ENSG00000236719	ENST00000442621	lincRNA	KNOWN	None	None	None	None	180528112	180535654	1	None	None
5	None	ENSG00000253134	ENST00000523820	lincRNA	KNOWN	None	None	None	None	157702719	157705821	1	None	None
1	None	ENSG00000266033	ENST00000578271	miRNA	NOVEL	None	None	None	None	80795064	80795173	-1	None	None
18	None	ENSG00000267356	ENST00000592926	antisense	KNOWN	None	None	None	None	14104541	14105225	1	None	None
1	HYDIN2	ENSG00000239475	ENST00000478377	transcribed_unprocessed_pseudogene	KNOWN	None	33129	None	None	146310555	146334210	1	HYDINP1	None
1	HYDIN2	ENSG00000239475	ENST00000496036	processed_transcript	KNOWN	None	33129	None	None	146334061	146335442	1	HYDINP1	None
1	HYDIN2	ENSG00000239475	ENST00000493714	processed_transcript	KNOWN	None	33129	None	None	146334178	146349531	1	HYDINP1	None
1	None	ENSG00000232175	ENST00000435206	processed_pseudogene	KNOWN	None	None	None	None	233052981	233053764	1	None	None
2	None	ENSG00000241114	ENST00000455473	processed_pseudogene	KNOWN	None	None	None	None	54307111	54307417	-1	None	None
11	RN7SL86P	ENSG00000263889	ENST00000580489	misc_RNA	KNOWN	None	46102	None	None	118301123	118301419	1	None	None
HSCHR6_MHC_MANN	MTCO3P1	ENSG00000237145	ENST00000415326	unprocessed_pseudogene	KNOWN	None	31342	None	None	32828155	32828985	-1	None	U92032.1
8	None	ENSG00000253859	ENST00000524085	antisense	KNOWN	None	None	None	None	82351671	82434053	1	None	None
1	None	ENSG00000225598	ENST00000458146	lincRNA	KNOWN	None	None	None	None	80839049	80840306	-1	None	None
X	None	ENSG00000229012	ENST00000440430	lincRNA	KNOWN	None	None	None	None	8831902	8835642	-1	None	None
18	None	ENSG00000252234	ENST00000516425	miRNA	NOVEL	None	None	None	None	14118593	14118701	-1	None	None
19	C19orf80	ENSG00000130173	ENST00000591200	protein_coding	PUTATIVE	None	24933	300	99	11348178	11352494	1	None	TD26, RIFL, ANGPTL8
19	C19orf80	ENSG00000130173	ENST00000252453	protein_coding	KNOWN	CCDS54220	24933	597	198	11350295	11352619	1	None	TD26, RIFL, ANGPTL8
19	C19orf80	ENSG00000130173	ENST00000587543	protein_coding	NOVEL	None	24933	176	57	11350573	11352619	1	None	TD26, RIFL, ANGPTL8
2	PABPC1P2	ENSG00000198526	ENST00000471997	processed_pseudogene	KNOWN	None	8559	None	None	147345074	147346878	1	PABPCP4, PABPCP2	PABP2, PABP4
2	PABPC1P2	ENSG00000198526	ENST00000449222	processed_pseudogene	KNOWN	None	8559	None	None	147345012	147346632	1	PABPCP4, PABPCP2	PABP2, PABP4
18	None	ENSG00000267704	ENST00000586090	processed_pseudogene	KNOWN	None	None	None	None	14137709	14139271	1	None	None
5	None	ENSG00000248664	ENST00000504129	antisense	KNOWN	None	None	None	None	68408939	68432221	-1	None	None
3	PTX3	ENSG00000163661	ENST00000295927	protein_coding	KNOWN	CCDS3180	9692	1146	381	157154578	157161417	1	TNFAIP5	TSG-14
16	DNAAF1	ENSG00000154099	ENST00000570298	retained_intron	KNOWN	None	30539	None	None	84178892	84211524	1	LRRC50	FLJ25330, ODA7, CILD13
16	DNAAF1	ENSG00000154099	ENST00000567918	nonsense_mediated_decay	KNOWN	None	30539	744	247	84178915	84193353	1	LRRC50	FLJ25330, ODA7, CILD13
16	DNAAF1	ENSG00000154099	ENST00000563093	nonsense_mediated_decay	KNOWN	None	30539	1257	418	84178915	84208453	1	LRRC50	FLJ25330, ODA7, CILD13
16	DNAAF1	ENSG00000154099	ENST00000378553	protein_coding	KNOWN	CCDS10943	30539	2178	725	84178922	84211524	1	LRRC50	FLJ25330, ODA7, CILD13
16	DNAAF1	ENSG00000154099	ENST00000563818	processed_transcript	KNOWN	None	30539	None	None	84192447	84211523	1	LRRC50	FLJ25330, ODA7, CILD13
16	DNAAF1	ENSG00000154099	ENST00000567666	processed_transcript	KNOWN	None	30539	None	None	84192687	84203582	1	LRRC50	FLJ25330, ODA7, CILD13
16	DNAAF1	ENSG00000154099	ENST00000562024	retained_intron	KNOWN	None	30539	None	None	84209369	84211524	1	LRRC50	FLJ25330, ODA7, CILD13
16	DNAAF1	ENSG00000154099	ENST00000569735	protein_coding	NOVEL	None	30539	573	190	84209539	84211523	1	LRRC50	FLJ25330, ODA7, CILD13
16	DNAAF1	ENSG00000154099	ENST00000564928	protein_coding	PUTATIVE	None	30539	176	57	84209747	84212373	1	LRRC50	FLJ25330, ODA7, CILD13
16	DNAAF1	ENSG00000154099	ENST00000334315	protein_coding	KNOWN	None	30539	1257	418	84178865	84203879	1	LRRC50	FLJ25330, ODA7, CILD13
1	RPS7P3	ENSG00000231940	ENST00000443360	processed_pseudogene	KNOWN	None	36518	None	None	233424614	233425193	-1	None	None
8	None	ENSG00000253374	ENST00000523380	antisense	KNOWN	None	None	None	None	82433853	82445510	1	None	None
8	None	ENSG00000253374	ENST00000518637	antisense	KNOWN	None	None	None	None	82433870	82438760	1	None	None
3	LRRC34	ENSG00000171757	ENST00000446859	protein_coding	KNOWN	CCDS54672	28408	1395	464	169511216	169530452	-1	None	MGC27085
3	LRRC34	ENSG00000171757	ENST00000522596	retained_intron	KNOWN	None	28408	None	None	169511261	169530478	-1	None	MGC27085
3	LRRC34	ENSG00000171757	ENST00000522830	protein_coding	PUTATIVE	None	28408	1212	403	169511261	169530720	-1	None	MGC27085
3	LRRC34	ENSG00000171757	ENST00000522526	protein_coding	KNOWN	CCDS3208	28408	1299	432	169511261	169530774	-1	None	MGC27085
3	LRRC34	ENSG00000171757	ENST00000518252	processed_transcript	KNOWN	None	28408	None	None	169511273	169514134	-1	None	MGC27085
3	LRRC34	ENSG00000171757	ENST00000522329	processed_transcript	KNOWN	None	28408	None	None	169511276	169514689	-1	None	MGC27085
3	LRRC34	ENSG00000171757	ENST00000528597	protein_coding	PUTATIVE	None	28408	171	56	169511315	169514687	-1	None	MGC27085
3	LRRC34	ENSG00000171757	ENST00000522080	retained_intron	KNOWN	None	28408	None	None	169513568	169530313	-1	None	MGC27085
3	LRRC34	ENSG00000171757	ENST00000524327	processed_transcript	KNOWN	None	28408	None	None	169513953	169525867	-1	None	MGC27085
3	LRRC34	ENSG00000171757	ENST00000602774	processed_transcript	KNOWN	None	28408	None	None	169514248	169514826	-1	None	MGC27085
3	LRRC34	ENSG00000171757	ENST00000524054	processed_transcript	KNOWN	None	28408	None	None	169514533	169530302	-1	None	MGC27085
3	LRRC34	ENSG00000171757	ENST00000520726	retained_intron	KNOWN	None	28408	None	None	169521759	169526507	-1	None	MGC27085
3	LRRC34	ENSG00000171757	ENST00000316515	protein_coding	KNOWN	None	28408	1260	419	169511216	169530574	-1	None	MGC27085
1	None	ENSG00000272292	ENST00000606404	snRNA	NOVEL	None	None	None	None	180727858	180727953	1	None	None
1	RN7SL122P	ENSG00000263529	ENST00000579362	misc_RNA	KNOWN	None	46138	None	None	32923436	32923733	1	None	None
1	HNRNPA1P64	ENSG00000213559	ENST00000411674	processed_pseudogene	KNOWN	None	48794	None	None	80916768	80917689	-1	None	None
1	None	ENSG00000266825	ENST00000579998	miRNA	NOVEL	None	None	None	None	180797031	180797128	-1	None	None
9	CCDC180	ENSG00000197816	ENST00000472746	retained_intron	KNOWN	None	29303	None	None	100069586	100071775	1	KIAA1529, C9orf174	DKFZp434I2420, BDAG1
9	CCDC180	ENSG00000197816	ENST00000494917	retained_intron	KNOWN	None	29303	None	None	100069603	100105925	1	KIAA1529, C9orf174	DKFZp434I2420, BDAG1
9	CCDC180	ENSG00000197816	ENST00000460482	processed_transcript	KNOWN	None	29303	None	None	100069643	100108095	1	KIAA1529, C9orf174	DKFZp434I2420, BDAG1
9	CCDC180	ENSG00000197816	ENST00000529487	protein_coding	KNOWN	CCDS35077	29303	5106	1701	100069941	100139215	1	KIAA1529, C9orf174	DKFZp434I2420, BDAG1
9	CCDC180	ENSG00000197816	ENST00000528678	processed_transcript	KNOWN	None	29303	None	None	100092680	100112785	1	KIAA1529, C9orf174	DKFZp434I2420, BDAG1
9	CCDC180	ENSG00000197816	ENST00000530011	processed_transcript	KNOWN	None	29303	None	None	100092815	100112836	1	KIAA1529, C9orf174	DKFZp434I2420, BDAG1
9	CCDC180	ENSG00000197816	ENST00000471314	processed_transcript	KNOWN	None	29303	None	None	100116899	100120308	1	KIAA1529, C9orf174	DKFZp434I2420, BDAG1
9	CCDC180	ENSG00000197816	ENST00000527182	processed_transcript	KNOWN	None	29303	None	None	100124577	100126941	1	KIAA1529, C9orf174	DKFZp434I2420, BDAG1
9	CCDC180	ENSG00000197816	ENST00000483504	processed_transcript	KNOWN	None	29303	None	None	100127447	100132226	1	KIAA1529, C9orf174	DKFZp434I2420, BDAG1
9	CCDC180	ENSG00000197816	ENST00000526038	retained_intron	KNOWN	None	29303	None	None	100131560	100140806	1	KIAA1529, C9orf174	DKFZp434I2420, BDAG1
9	CCDC180	ENSG00000197816	ENST00000534189	retained_intron	KNOWN	None	29303	None	None	100132295	100134257	1	KIAA1529, C9orf174	DKFZp434I2420, BDAG1
9	CCDC180	ENSG00000197816	ENST00000530551	retained_intron	KNOWN	None	29303	None	None	100133622	100139100	1	KIAA1529, C9orf174	DKFZp434I2420, BDAG1
9	CCDC180	ENSG00000197816	ENST00000487976	retained_intron	KNOWN	None	29303	None	None	100134154	100139215	1	KIAA1529, C9orf174	DKFZp434I2420, BDAG1
9	CCDC180	ENSG00000197816	ENST00000357054	protein_coding	KNOWN	None	29303	4941	1646	100000779	100139569	1	KIAA1529, C9orf174	DKFZp434I2420, BDAG1
9	CCDC180	ENSG00000197816	ENST00000395220	protein_coding	KNOWN	None	29303	2049	682	100000779	100139569	1	KIAA1529, C9orf174	DKFZp434I2420, BDAG1
9	CCDC180	ENSG00000197816	ENST00000375205	protein_coding	KNOWN	None	29303	663	220	100000765	100058282	1	KIAA1529, C9orf174	DKFZp434I2420, BDAG1
9	CCDC180	ENSG00000197816	ENST00000375202	protein_coding	KNOWN	CCDS35077	29303	5106	1701	100000779	100139569	1	KIAA1529, C9orf174	DKFZp434I2420, BDAG1
9	CCDC180	ENSG00000197816	ENST00000411667	protein_coding	KNOWN	None	29303	2712	903	100000779	100107978	1	KIAA1529, C9orf174	DKFZp434I2420, BDAG1
1	None	ENSG00000200591	ENST00000363721	misc_RNA	NOVEL	None	None	None	None	33105552	33105653	1	None	None
20	None	ENSG00000221201	ENST00000408274	miRNA	NOVEL	None	None	None	None	8589827	8589912	1	None	None
X	None	ENSG00000225271	ENST00000436419	processed_pseudogene	KNOWN	None	None	None	None	8948466	8950546	-1	None	None
2	None	ENSG00000240440	ENST00000440545	lincRNA	KNOWN	None	None	None	None	208100023	208102599	-1	None	None
1	None	ENSG00000224409	ENST00000421619	antisense	KNOWN	None	None	None	None	33183335	33190838	-1	None	None
7	STEAP1	ENSG00000164647	ENST00000297205	protein_coding	KNOWN	CCDS5614	11378	1020	339	89783689	89794141	1	STEAP	PRSS24
7	STEAP1	ENSG00000164647	ENST00000475789	retained_intron	KNOWN	None	11378	None	None	89783770	89791565	1	STEAP	PRSS24
7	STEAP1	ENSG00000164647	ENST00000412573	nonsense_mediated_decay	KNOWN	None	11378	304	100	89790580	89794143	1	STEAP	PRSS24
1	None	ENSG00000225857	ENST00000434447	lincRNA	KNOWN	None	None	None	None	180875787	180878302	1	None	None
1	None	ENSG00000225857	ENST00000422858	lincRNA	KNOWN	None	None	None	None	180876937	180878078	1	None	None
2	None	ENSG00000271583	ENST00000603476	processed_pseudogene	KNOWN	None	None	None	None	147591069	147591606	-1	None	None
7	None	ENSG00000236105	ENST00000431957	processed_pseudogene	KNOWN	None	None	None	None	126935674	126936257	1	None	None
1	None	ENSG00000221423	ENST00000408496	miRNA	NOVEL	None	None	None	None	33391895	33392000	1	None	None
2	None	ENSG00000231040	ENST00000450667	lincRNA	KNOWN	None	None	None	None	147595317	147607878	1	None	None
2	None	ENSG00000229647	ENST00000440326	lincRNA	KNOWN	None	None	None	None	208104374	208110312	1	None	None
2	None	ENSG00000229647	ENST00000430494	lincRNA	KNOWN	None	None	None	None	208104535	208110611	1	None	None
5	RN7SL103P	ENSG00000265968	ENST00000579642	misc_RNA	KNOWN	None	46119	None	None	68455863	68456123	-1	None	None
18	None	ENSG00000267324	ENST00000592985	processed_pseudogene	KNOWN	None	None	None	None	14143595	14151138	-1	None	None
16	ATXN1L	ENSG00000224470	ENST00000427980	protein_coding	KNOWN	CCDS45523	33279	2070	689	71879894	71891231	1	None	BOAT1
16	ATXN1L	ENSG00000224470	ENST00000565676	retained_intron	KNOWN	None	33279	None	None	71879972	71882321	1	None	BOAT1
1	None	ENSG00000251508	ENST00000506013	unprocessed_pseudogene	KNOWN	None	None	None	None	233431071	233431473	-1	None	None
5	None	ENSG00000220986	ENST00000408059	snoRNA	NOVEL	None	None	None	None	68456633	68456766	1	None	None
2	None	ENSG00000272156	ENST00000606436	lincRNA	KNOWN	None	None	None	None	54309691	54312203	1	None	None
1	None	ENSG00000217644	ENST00000401937	processed_pseudogene	KNOWN	None	None	None	None	33445548	33446073	1	None	None
1	None	ENSG00000217644	ENST00000395888	processed_pseudogene	KNOWN	None	None	None	None	33445543	33446073	1	None	None
1	None	ENSG00000227062	ENST00000434465	processed_pseudogene	KNOWN	None	None	None	None	80929986	80930403	-1	None	None
21	MRAP	ENSG00000170262	ENST00000399784	protein_coding	KNOWN	CCDS13613	1304	519	172	33664124	33684601	1	C21orf61	B27, FALP
21	MRAP	ENSG00000170262	ENST00000497833	processed_transcript	KNOWN	None	1304	None	None	33664124	33684601	1	C21orf61	B27, FALP
21	MRAP	ENSG00000170262	ENST00000303645	protein_coding	KNOWN	CCDS13613	1304	519	172	33671161	33684601	1	C21orf61	B27, FALP
21	MRAP	ENSG00000170262	ENST00000339944	protein_coding	KNOWN	CCDS13612	1304	309	102	33671283	33687095	1	C21orf61	B27, FALP
21	MRAP	ENSG00000170262	ENST00000399786	protein_coding	KNOWN	CCDS13612	1304	309	102	33664124	33687092	1	C21orf61	B27, FALP
X	RNA5SP499	ENSG00000200852	ENST00000363982	rRNA	KNOWN	None	43399	None	None	9101869	9101987	1	RN5S499	None
1	RNU4-77P	ENSG00000252501	ENST00000516692	snRNA	KNOWN	None	47013	None	None	233584372	233584527	-1	None	None
7	None	ENSG00000224138	ENST00000418215	antisense	KNOWN	None	None	None	None	126990182	126991577	1	None	None
5	None	ENSG00000238334	ENST00000459230	snoRNA	NOVEL	None	None	None	None	68471651	68471754	-1	None	None
15	RPP25	ENSG00000178718	ENST00000322177	protein_coding	KNOWN	CCDS10274	30361	600	199	75246757	75249805	-1	None	FLJ20374
15	RPP25	ENSG00000178718	ENST00000499788	protein_coding	KNOWN	CCDS10274	30361	600	199	75247647	75248954	-1	None	FLJ20374
20	None	ENSG00000222298	ENST00000410366	miRNA	NOVEL	None	None	None	None	8590801	8590887	-1	None	None
X	None	ENSG00000219870	ENST00000434191	processed_pseudogene	KNOWN	None	None	None	None	9147426	9147647	1	None	None
5	CFL1P5	ENSG00000213830	ENST00000508046	processed_pseudogene	KNOWN	None	1877	None	None	68609198	68609699	-1	CFLL1, CFLP5	None
1	MIR4427	ENSG00000265744	ENST00000585213	miRNA	KNOWN	None	41678	None	None	233759898	233759965	1	None	hsa-mir-4427
2	RNU7-172P	ENSG00000252934	ENST00000517125	snRNA	KNOWN	None	45706	None	None	54394081	54394144	-1	None	None
11	None	ENSG00000255435	ENST00000532597	antisense	KNOWN	None	None	None	None	118382626	118401292	-1	None	None
11	None	ENSG00000255435	ENST00000525992	antisense	KNOWN	None	None	None	None	118390100	118401285	-1	None	None
11	None	ENSG00000255435	ENST00000554407	antisense	KNOWN	None	None	None	None	118390154	118401490	-1	None	None
11	None	ENSG00000255435	ENST00000528578	antisense	KNOWN	None	None	None	None	118390211	118401284	-1	None	None
11	None	ENSG00000255435	ENST00000556583	antisense	KNOWN	None	None	None	None	118390331	118401809	-1	None	None
X	None	ENSG00000234766	ENST00000448761	lincRNA	KNOWN	None	None	None	None	51244942	51253857	-1	None	None
2	None	ENSG00000227902	ENST00000436245	lincRNA	KNOWN	None	None	None	None	147637477	147655786	1	None	None
11	None	ENSG00000236897	ENST00000428160	lincRNA	KNOWN	None	None	None	None	5127292	5128760	-1	None	None
1	None	ENSG00000256029	ENST00000536764	nonsense_mediated_decay	KNOWN	None	None	174	57	159827690	159842843	-1	None	None
1	None	ENSG00000256029	ENST00000536779	nonsense_mediated_decay	KNOWN	None	None	186	61	159827722	159842804	-1	None	None
1	None	ENSG00000256029	ENST00000544342	nonsense_mediated_decay	KNOWN	None	None	135	44	159827722	159842804	-1	None	None
1	None	ENSG00000256029	ENST00000537167	retained_intron	KNOWN	None	None	None	None	159827722	159842804	-1	None	None
1	None	ENSG00000256029	ENST00000543372	retained_intron	KNOWN	None	None	None	None	159827722	159842804	-1	None	None
X	None	ENSG00000228543	ENST00000432442	lincRNA	KNOWN	None	None	None	None	9217960	9243246	1	None	None
2	None	ENSG00000223725	ENST00000432413	antisense	KNOWN	None	None	None	None	208104588	208118976	-1	None	None
2	None	ENSG00000223725	ENST00000412387	antisense	KNOWN	None	None	None	None	208104845	208394519	-1	None	None
2	None	ENSG00000223725	ENST00000418850	antisense	KNOWN	None	None	None	None	208192614	208394515	-1	None	None
1	None	ENSG00000225486	ENST00000453379	processed_pseudogene	KNOWN	None	None	None	None	233971826	233972178	-1	None	None
15	RN7SL536P	ENSG00000242502	ENST00000491146	misc_RNA	KNOWN	None	46552	None	None	23608428	23608706	1	None	None
2	None	ENSG00000228108	ENST00000433475	antisense	KNOWN	None	None	None	None	54743185	54767834	-1	None	None
17	LRRC37A3	ENSG00000176809	ENST00000339474	protein_coding	PUTATIVE	None	32427	2259	752	62850430	62915586	-1	None	FLJ34306, KIAA0563
17	LRRC37A3	ENSG00000176809	ENST00000400877	protein_coding	PUTATIVE	None	32427	2019	672	62850480	62895219	-1	None	FLJ34306, KIAA0563
17	LRRC37A3	ENSG00000176809	ENST00000334962	protein_coding	PUTATIVE	None	32427	1836	611	62850482	62859703	-1	None	FLJ34306, KIAA0563
17	LRRC37A3	ENSG00000176809	ENST00000584306	protein_coding	KNOWN	CCDS32708	32427	4905	1634	62850488	62914903	-1	None	FLJ34306, KIAA0563
17	LRRC37A3	ENSG00000176809	ENST00000583510	protein_coding	PUTATIVE	None	32427	282	93	62850489	62855745	-1	None	FLJ34306, KIAA0563
17	LRRC37A3	ENSG00000176809	ENST00000579305	processed_transcript	KNOWN	None	32427	None	None	62856904	62873148	-1	None	FLJ34306, KIAA0563
17	LRRC37A3	ENSG00000176809	ENST00000581368	protein_coding	PUTATIVE	None	32427	708	235	62856970	62915598	-1	None	FLJ34306, KIAA0563
17	LRRC37A3	ENSG00000176809	ENST00000584788	protein_coding	NOVEL	None	32427	692	229	62859051	62891075	-1	None	FLJ34306, KIAA0563
17	LRRC37A3	ENSG00000176809	ENST00000580464	protein_coding	NOVEL	None	32427	589	195	62864618	62891174	-1	None	FLJ34306, KIAA0563
17	LRRC37A3	ENSG00000176809	ENST00000580439	processed_transcript	KNOWN	None	32427	None	None	62893507	62894726	-1	None	FLJ34306, KIAA0563
17	LRRC37A3	ENSG00000176809	ENST00000577487	processed_transcript	KNOWN	None	32427	None	None	62893747	62901920	-1	None	FLJ34306, KIAA0563
17	LRRC37A3	ENSG00000176809	ENST00000319651	protein_coding	KNOWN	CCDS32708	32427	4905	1634	62850488	62893778	-1	None	FLJ34306, KIAA0563
15	None	ENSG00000238737	ENST00000459602	miRNA	NOVEL	None	None	None	None	23609591	23609673	1	None	None
11	None	ENSG00000265940	ENST00000580894	miRNA	NOVEL	None	None	None	None	18825955	18826033	-1	None	None
X	CENPVP3	ENSG00000224109	ENST00000417339	processed_pseudogene	KNOWN	None	43880	None	None	51360961	51361446	-1	None	None
2	None	ENSG00000238860	ENST00000458959	snoRNA	NOVEL	None	None	None	None	148081539	148081643	1	None	None
7	TMEM196	ENSG00000173452	ENST00000405844	protein_coding	NOVEL	None	22431	540	179	19758933	19813015	-1	None	MGC42090
7	TMEM196	ENSG00000173452	ENST00000405764	protein_coding	KNOWN	CCDS34607	22431	519	172	19758939	19813016	-1	None	MGC42090
7	TMEM196	ENSG00000173452	ENST00000422233	protein_coding	PUTATIVE	None	22431	336	111	19761401	19813221	-1	None	MGC42090
7	TMEM196	ENSG00000173452	ENST00000493519	protein_coding	PUTATIVE	None	22431	315	104	19761476	19812817	-1	None	MGC42090
7	TMEM196	ENSG00000173452	ENST00000433641	protein_coding	KNOWN	None	22431	270	89	19761406	19813221	-1	None	MGC42090
15	None	ENSG00000261418	ENST00000569537	unprocessed_pseudogene	KNOWN	None	None	None	None	23675986	23680359	1	None	None
1	None	ENSG00000243155	ENST00000358073	antisense	KNOWN	None	None	None	None	180913178	180945618	-1	None	None
11	None	ENSG00000254529	ENST00000524957	unprocessed_pseudogene	KNOWN	None	None	None	None	18885105	18886056	-1	None	None
1	None	ENSG00000234453	ENST00000452766	antisense	KNOWN	None	None	None	None	234086184	234086853	-1	None	None
11	LDHA	ENSG00000134333	ENST00000422447	protein_coding	KNOWN	CCDS7839	6535	999	332	18415935	18429972	1	None	None
11	LDHA	ENSG00000134333	ENST00000543445	protein_coding	KNOWN	None	6535	470	155	18416107	18424438	1	None	None
11	LDHA	ENSG00000134333	ENST00000469976	retained_intron	KNOWN	None	6535	None	None	18416108	18418945	1	None	None
11	LDHA	ENSG00000134333	ENST00000545467	nonsense_mediated_decay	KNOWN	None	6535	129	42	18416109	18422419	1	None	None
11	LDHA	ENSG00000134333	ENST00000430553	protein_coding	KNOWN	CCDS44549	6535	825	274	18416109	18429214	1	None	None
11	LDHA	ENSG00000134333	ENST00000396222	protein_coding	PUTATIVE	CCDS53610	6535	825	274	18416109	18429765	1	None	None
11	LDHA	ENSG00000134333	ENST00000535451	protein_coding	KNOWN	None	6535	217	71	18416110	18421068	1	None	None
11	LDHA	ENSG00000134333	ENST00000494573	retained_intron	KNOWN	None	6535	None	None	18416110	18421907	1	None	None
11	LDHA	ENSG00000134333	ENST00000539814	nonsense_mediated_decay	KNOWN	None	6535	285	94	18416110	18422481	1	None	None
11	LDHA	ENSG00000134333	ENST00000543695	nonsense_mediated_decay	KNOWN	None	6535	141	46	18416110	18425306	1	None	None
11	LDHA	ENSG00000134333	ENST00000536528	nonsense_mediated_decay	KNOWN	None	6535	138	45	18416110	18425358	1	None	None
11	LDHA	ENSG00000134333	ENST00000541097	nonsense_mediated_decay	KNOWN	None	6535	270	89	18416110	18428705	1	None	None
11	LDHA	ENSG00000134333	ENST00000545215	nonsense_mediated_decay	KNOWN	None	6535	138	45	18416110	18429189	1	None	None
11	LDHA	ENSG00000134333	ENST00000227157	protein_coding	PUTATIVE	CCDS53611	6535	726	241	18416133	18429765	1	None	None
11	LDHA	ENSG00000134333	ENST00000478970	protein_coding	KNOWN	None	6535	433	143	18416159	18422572	1	None	None
11	LDHA	ENSG00000134333	ENST00000495052	protein_coding	KNOWN	None	6535	344	113	18416251	18422483	1	None	None
11	LDHA	ENSG00000134333	ENST00000379412	protein_coding	KNOWN	CCDS7839	6535	999	332	18417825	18429394	1	None	None
11	LDHA	ENSG00000134333	ENST00000542179	protein_coding	KNOWN	CCDS7839	6535	999	332	18418101	18428828	1	None	None
11	LDHA	ENSG00000134333	ENST00000486690	nonsense_mediated_decay	KNOWN	None	6535	138	45	18418365	18427042	1	None	None
11	LDHA	ENSG00000134333	ENST00000537296	retained_intron	KNOWN	None	6535	None	None	18420177	18427121	1	None	None
11	LDHA	ENSG00000134333	ENST00000460405	retained_intron	KNOWN	None	6535	None	None	18420413	18425331	1	None	None
11	LDHA	ENSG00000134333	ENST00000375710	retained_intron	KNOWN	None	6535	None	None	18421273	18429131	1	None	None
11	LDHA	ENSG00000134333	ENST00000538451	retained_intron	KNOWN	None	6535	None	None	18424082	18429287	1	None	None
11	LDHA	ENSG00000134333	ENST00000540430	protein_coding	KNOWN	CCDS53609	6535	1086	361	18417813	18429765	1	None	None
17	PSMD12	ENSG00000197170	ENST00000356126	protein_coding	KNOWN	CCDS11669	9557	1371	456	65334032	65362743	-1	None	p55, Rpn5
17	PSMD12	ENSG00000197170	ENST00000357146	protein_coding	NOVEL	CCDS11670	9557	1311	436	65335919	65362721	-1	None	p55, Rpn5
17	PSMD12	ENSG00000197170	ENST00000584008	nonsense_mediated_decay	KNOWN	None	9557	129	42	65336890	65362663	-1	None	p55, Rpn5
17	PSMD12	ENSG00000197170	ENST00000577724	retained_intron	KNOWN	None	9557	None	None	65337091	65338600	-1	None	p55, Rpn5
17	PSMD12	ENSG00000197170	ENST00000584289	retained_intron	KNOWN	None	9557	None	None	65341728	65362684	-1	None	p55, Rpn5
17	PSMD12	ENSG00000197170	ENST00000581618	processed_transcript	KNOWN	None	9557	None	None	65346374	65362703	-1	None	p55, Rpn5
17	PSMD12	ENSG00000197170	ENST00000579365	nonsense_mediated_decay	KNOWN	None	9557	117	38	65346415	65362693	-1	None	p55, Rpn5
17	PSMD12	ENSG00000197170	ENST00000578015	retained_intron	KNOWN	None	9557	None	None	65353268	65362635	-1	None	p55, Rpn5
2	RNU6-692P	ENSG00000207225	ENST00000384496	snRNA	KNOWN	None	47655	None	None	148165910	148166016	1	None	None
X	CENPVP2	ENSG00000227997	ENST00000491883	processed_pseudogene	KNOWN	None	43879	None	None	51425000	51425485	-1	None	None
1	None	ENSG00000234108	ENST00000447525	processed_pseudogene	KNOWN	None	None	None	None	80961588	80961918	1	None	None
20	RNU105B	ENSG00000201348	ENST00000364478	snoRNA	KNOWN	None	10103	None	None	8811833	8812040	1	None	E1-2
13	MIR4500HG	ENSG00000228824	ENST00000450888	lincRNA	KNOWN	None	42773	None	None	88079469	88113224	-1	None	None
13	MIR4500HG	ENSG00000228824	ENST00000436290	lincRNA	KNOWN	None	42773	None	None	88096242	88323218	-1	None	None
13	MIR4500HG	ENSG00000228824	ENST00000441617	lincRNA	KNOWN	None	42773	None	None	88237113	88323514	-1	None	None
13	MIR4500HG	ENSG00000228824	ENST00000453832	lincRNA	KNOWN	None	42773	None	None	88264528	88323361	-1	None	None
13	MIR4500HG	ENSG00000228824	ENST00000606590	lincRNA	KNOWN	None	42773	None	None	88267847	88323374	-1	None	None
2	None	ENSG00000221289	ENST00000408362	miRNA	NOVEL	None	None	None	None	148224198	148224282	-1	None	None
1	RAC1P7	ENSG00000236101	ENST00000445367	processed_pseudogene	KNOWN	None	42007	None	None	234162597	234162973	-1	None	None
11	None	ENSG00000255511	ENST00000525272	processed_pseudogene	KNOWN	None	None	None	None	18892536	18895009	-1	None	None
X	CENPVP1	ENSG00000223591	ENST00000480752	transcribed_processed_pseudogene	KNOWN	None	31851	None	None	51453887	51454372	1	CENPVL1	PRR6L1
X	CENPVP1	ENSG00000223591	ENST00000602548	processed_transcript	KNOWN	None	31851	None	None	51453925	51455227	1	CENPVL1	PRR6L1
2	None	ENSG00000237887	ENST00000395315	processed_pseudogene	KNOWN	None	None	None	None	54756480	54756938	1	None	None
X	None	ENSG00000232111	ENST00000416620	processed_pseudogene	KNOWN	None	None	None	None	9370791	9382606	1	None	None
2	EIF4E2	ENSG00000135930	ENST00000258416	protein_coding	KNOWN	CCDS2496	3293	738	245	233414762	233433920	1	EIF4EL3	IF4e, 4EHP
2	EIF4E2	ENSG00000135930	ENST00000463074	retained_intron	KNOWN	None	3293	None	None	233415384	233421306	1	EIF4EL3	IF4e, 4EHP
2	EIF4E2	ENSG00000135930	ENST00000409514	protein_coding	PUTATIVE	None	3293	711	236	233415393	233448352	1	EIF4EL3	IF4e, 4EHP
2	EIF4E2	ENSG00000135930	ENST00000409098	protein_coding	PUTATIVE	None	3293	705	234	233415393	233448354	1	EIF4EL3	IF4e, 4EHP
2	EIF4E2	ENSG00000135930	ENST00000409495	protein_coding	PUTATIVE	None	3293	702	233	233415399	233432237	1	EIF4EL3	IF4e, 4EHP
2	EIF4E2	ENSG00000135930	ENST00000409167	protein_coding	PUTATIVE	None	3293	567	188	233415399	233432730	1	EIF4EL3	IF4e, 4EHP
2	EIF4E2	ENSG00000135930	ENST00000498242	retained_intron	KNOWN	None	3293	None	None	233415401	233423534	1	EIF4EL3	IF4e, 4EHP
2	EIF4E2	ENSG00000135930	ENST00000409322	protein_coding	NOVEL	None	3293	603	200	233415402	233433888	1	EIF4EL3	IF4e, 4EHP
2	EIF4E2	ENSG00000135930	ENST00000409394	protein_coding	PUTATIVE	None	3293	570	189	233415414	233445666	1	EIF4EL3	IF4e, 4EHP
2	EIF4E2	ENSG00000135930	ENST00000479834	processed_transcript	KNOWN	None	3293	None	None	233415516	233422358	1	EIF4EL3	IF4e, 4EHP
2	EIF4E2	ENSG00000135930	ENST00000454501	protein_coding	PUTATIVE	None	3293	641	212	233415517	233431915	1	EIF4EL3	IF4e, 4EHP
2	EIF4E2	ENSG00000135930	ENST00000478878	processed_transcript	PUTATIVE	None	3293	None	None	233431654	233434543	1	EIF4EL3	IF4e, 4EHP
2	EIF4E2	ENSG00000135930	ENST00000459714	processed_transcript	PUTATIVE	None	3293	None	None	233438431	233445772	1	EIF4EL3	IF4e, 4EHP
2	EIF4E2	ENSG00000135930	ENST00000444113	protein_coding	PUTATIVE	None	3293	366	121	233438784	233446042	1	EIF4EL3	IF4e, 4EHP
2	None	ENSG00000207161	ENST00000384432	misc_RNA	NOVEL	None	None	None	None	148229701	148229811	-1	None	None
18	NF1P5	ENSG00000175319	ENST00000588287	processed_pseudogene	KNOWN	None	7770	None	None	14153000	14157341	-1	NF1L5	None
18	NF1P5	ENSG00000175319	ENST00000309251	processed_pseudogene	KNOWN	None	7770	None	None	14152998	14153075	-1	NF1L5	None
1	None	ENSG00000239670	ENST00000447420	unprocessed_pseudogene	KNOWN	None	None	None	None	33452553	33453834	1	None	None
15	GOLGA8M	ENSG00000188626	ENST00000563027	protein_coding	NOVEL	None	44404	1899	632	28947100	28957469	-1	None	None
15	GOLGA8M	ENSG00000188626	ENST00000563213	processed_transcript	KNOWN	None	44404	None	None	28954413	28983530	-1	None	None
15	GOLGA8M	ENSG00000188626	ENST00000340249	protein_coding	KNOWN	None	44404	1116	371	28949905	28957567	-1	None	None
HSCHR19_3_CTG3	ZNF92P2	ENSG00000262774	ENST00000577120	unprocessed_pseudogene	KNOWN	None	39554	None	None	22311550	22313125	-1	None	None
2	RNU6-715P	ENSG00000202074	ENST00000365204	snRNA	KNOWN	None	47678	None	None	148253006	148253108	-1	None	None
11	None	ENSG00000254541	ENST00000527164	unprocessed_pseudogene	KNOWN	None	None	None	None	18908480	18909467	-1	None	None
3	TUBB8P8	ENSG00000213113	ENST00000458717	unprocessed_pseudogene	KNOWN	None	42346	None	None	197846592	197847649	1	None	None
2	RNA5SP106	ENSG00000253083	ENST00000517274	rRNA	KNOWN	None	42904	None	None	148471024	148471123	-1	RN5S106	None
1	None	ENSG00000232586	ENST00000415647	antisense	KNOWN	None	None	None	None	180918835	180924023	-1	None	None
1	None	ENSG00000233332	ENST00000412483	antisense	KNOWN	None	None	None	None	234348352	234350834	-1	None	None
X	MIR448	ENSG00000199001	ENST00000362131	miRNA	KNOWN	None	26069	None	None	114058017	114058127	1	MIRN448	hsa-mir-448
7	None	ENSG00000226770	ENST00000448311	lincRNA	KNOWN	None	None	None	None	127116937	127125858	1	None	None
11	None	ENSG00000255536	ENST00000532712	unprocessed_pseudogene	KNOWN	None	None	None	None	18931983	18932943	-1	None	None
GL000213.1	MIR3118-5	ENSG00000265283	ENST00000578976	miRNA	KNOWN	None	38351	None	None	104742	104817	1	None	hsa-mir-3118-5
2	None	ENSG00000229143	ENST00000422916	processed_pseudogene	KNOWN	None	None	None	None	148567915	148568346	1	None	None
4	None	ENSG00000271538	ENST00000605270	lincRNA	KNOWN	None	None	None	None	185427614	185458708	-1	None	None
4	None	ENSG00000271538	ENST00000604660	lincRNA	KNOWN	None	None	None	None	185428072	185430842	-1	None	None
1	None	ENSG00000231272	ENST00000456078	sense_intronic	KNOWN	None	None	None	None	234397452	234410211	1	None	None
12	None	ENSG00000258202	ENST00000551867	unprocessed_pseudogene	KNOWN	None	None	None	None	30607852	30645235	1	None	None
2	None	ENSG00000234943	ENST00000431130	antisense	KNOWN	None	None	None	None	54772505	54773814	-1	None	None
2	None	ENSG00000225064	ENST00000438824	lincRNA	KNOWN	None	None	None	None	208125169	208135414	1	None	None
20	None	ENSG00000228438	ENST00000439121	processed_pseudogene	KNOWN	None	None	None	None	8910542	8910685	-1	None	None
1	None	ENSG00000236244	ENST00000446433	antisense	KNOWN	None	None	None	None	234404329	234408246	-1	None	None
1	None	ENSG00000224326	ENST00000437080	lincRNA	KNOWN	None	None	None	None	81000663	81050048	-1	None	None
GL000218.1	None	ENSG00000215615	ENST00000400681	protein_coding	KNOWN	None	None	669	222	38792	97421	-1	None	None
13	IPO5	ENSG00000065150	ENST00000482642	retained_intron	KNOWN	None	6402	None	None	98605912	98622159	1	KPNB3, RANBP5	IMB3, MGC2068, Pse1
13	IPO5	ENSG00000065150	ENST00000460070	protein_coding	KNOWN	None	6402	427	141	98605912	98637876	1	KPNB3, RANBP5	IMB3, MGC2068, Pse1
13	IPO5	ENSG00000065150	ENST00000481455	protein_coding	KNOWN	None	6402	359	118	98605929	98637808	1	KPNB3, RANBP5	IMB3, MGC2068, Pse1
13	IPO5	ENSG00000065150	ENST00000261574	protein_coding	KNOWN	CCDS31999	6402	3348	1115	98605929	98676551	1	KPNB3, RANBP5	IMB3, MGC2068, Pse1
13	IPO5	ENSG00000065150	ENST00000493281	protein_coding	KNOWN	None	6402	192	63	98605937	98634804	1	KPNB3, RANBP5	IMB3, MGC2068, Pse1
13	IPO5	ENSG00000065150	ENST00000490369	nonsense_mediated_decay	KNOWN	None	6402	192	63	98605937	98634823	1	KPNB3, RANBP5	IMB3, MGC2068, Pse1
13	IPO5	ENSG00000065150	ENST00000463157	protein_coding	KNOWN	None	6402	264	87	98605937	98637713	1	KPNB3, RANBP5	IMB3, MGC2068, Pse1
13	IPO5	ENSG00000065150	ENST00000471898	protein_coding	NOVEL	None	6402	223	73	98605937	98637726	1	KPNB3, RANBP5	IMB3, MGC2068, Pse1
13	IPO5	ENSG00000065150	ENST00000489058	protein_coding	KNOWN	None	6402	150	49	98605948	98629046	1	KPNB3, RANBP5	IMB3, MGC2068, Pse1
13	IPO5	ENSG00000065150	ENST00000481689	protein_coding	PUTATIVE	None	6402	386	127	98605968	98637745	1	KPNB3, RANBP5	IMB3, MGC2068, Pse1
13	IPO5	ENSG00000065150	ENST00000480611	protein_coding	KNOWN	None	6402	352	116	98606180	98637801	1	KPNB3, RANBP5	IMB3, MGC2068, Pse1
13	IPO5	ENSG00000065150	ENST00000485433	protein_coding	KNOWN	None	6402	226	74	98606213	98634838	1	KPNB3, RANBP5	IMB3, MGC2068, Pse1
13	IPO5	ENSG00000065150	ENST00000496368	protein_coding	KNOWN	None	6402	294	97	98612446	98637743	1	KPNB3, RANBP5	IMB3, MGC2068, Pse1
13	IPO5	ENSG00000065150	ENST00000421861	protein_coding	KNOWN	None	6402	320	105	98612472	98637769	1	KPNB3, RANBP5	IMB3, MGC2068, Pse1
13	IPO5	ENSG00000065150	ENST00000357602	protein_coding	NOVEL	None	6402	3294	1097	98612503	98674743	1	KPNB3, RANBP5	IMB3, MGC2068, Pse1
13	IPO5	ENSG00000065150	ENST00000475420	protein_coding	NOVEL	None	6402	512	169	98627885	98642424	1	KPNB3, RANBP5	IMB3, MGC2068, Pse1
13	IPO5	ENSG00000065150	ENST00000480641	protein_coding	PUTATIVE	None	6402	232	76	98628719	98641363	1	KPNB3, RANBP5	IMB3, MGC2068, Pse1
13	IPO5	ENSG00000065150	ENST00000490680	protein_coding	NOVEL	None	6402	3294	1097	98628886	98674136	1	KPNB3, RANBP5	IMB3, MGC2068, Pse1
13	IPO5	ENSG00000065150	ENST00000497270	nonsense_mediated_decay	KNOWN	None	6402	381	126	98628929	98641353	1	KPNB3, RANBP5	IMB3, MGC2068, Pse1
13	IPO5	ENSG00000065150	ENST00000403772	protein_coding	PUTATIVE	None	6402	547	181	98628957	98642756	1	KPNB3, RANBP5	IMB3, MGC2068, Pse1
13	IPO5	ENSG00000065150	ENST00000469360	protein_coding	PUTATIVE	None	6402	3299	1098	98629217	98674282	1	KPNB3, RANBP5	IMB3, MGC2068, Pse1
13	IPO5	ENSG00000065150	ENST00000473582	protein_coding	PUTATIVE	None	6402	495	164	98632124	98642464	1	KPNB3, RANBP5	IMB3, MGC2068, Pse1
13	IPO5	ENSG00000065150	ENST00000470493	retained_intron	KNOWN	None	6402	None	None	98645404	98653176	1	KPNB3, RANBP5	IMB3, MGC2068, Pse1
13	IPO5	ENSG00000065150	ENST00000491555	retained_intron	KNOWN	None	6402	None	None	98653900	98674757	1	KPNB3, RANBP5	IMB3, MGC2068, Pse1
13	IPO5	ENSG00000065150	ENST00000479736	retained_intron	KNOWN	None	6402	None	None	98654730	98658579	1	KPNB3, RANBP5	IMB3, MGC2068, Pse1
13	IPO5	ENSG00000065150	ENST00000493492	processed_transcript	KNOWN	None	6402	None	None	98655263	98659841	1	KPNB3, RANBP5	IMB3, MGC2068, Pse1
13	IPO5	ENSG00000065150	ENST00000468620	retained_intron	KNOWN	None	6402	None	None	98670840	98672195	1	KPNB3, RANBP5	IMB3, MGC2068, Pse1
13	IPO5	ENSG00000065150	ENST00000493122	retained_intron	KNOWN	None	6402	None	None	98671833	98673665	1	KPNB3, RANBP5	IMB3, MGC2068, Pse1
13	IPO5	ENSG00000065150	ENST00000539640	protein_coding	KNOWN	None	6402	2919	972	98628929	98674131	1	KPNB3, RANBP5	IMB3, MGC2068, Pse1
2	None	ENSG00000238018	ENST00000456363	antisense	KNOWN	None	None	None	None	54888148	54889929	-1	None	None
11	RPL35AP26	ENSG00000243607	ENST00000476981	processed_pseudogene	KNOWN	None	36465	None	None	126148152	126148472	-1	None	None
11	None	ENSG00000255244	ENST00000528646	antisense	KNOWN	None	None	None	None	18956532	18961268	1	None	None
3	None	ENSG00000239828	ENST00000496943	lincRNA	KNOWN	None	None	None	None	106991458	107041611	-1	None	None
3	None	ENSG00000239828	ENST00000599431	lincRNA	KNOWN	None	None	None	None	106991477	107099497	-1	None	None
3	None	ENSG00000239828	ENST00000597514	lincRNA	KNOWN	None	None	None	None	107007959	107041582	-1	None	None
3	None	ENSG00000239828	ENST00000594608	lincRNA	KNOWN	None	None	None	None	107008050	107041589	-1	None	None
3	None	ENSG00000239828	ENST00000596305	lincRNA	KNOWN	None	None	None	None	107011404	107041591	-1	None	None
3	None	ENSG00000239828	ENST00000597154	lincRNA	KNOWN	None	None	None	None	107036828	107041591	-1	None	None
3	None	ENSG00000239828	ENST00000601383	lincRNA	KNOWN	None	None	None	None	107037227	107041591	-1	None	None
3	None	ENSG00000239828	ENST00000599131	lincRNA	KNOWN	None	None	None	None	107039904	107041591	-1	None	None
3	None	ENSG00000239828	ENST00000593837	lincRNA	KNOWN	None	None	None	None	107041316	107099454	-1	None	None
3	None	ENSG00000239828	ENST00000595232	lincRNA	KNOWN	None	None	None	None	107099491	107101007	-1	None	None
4	None	ENSG00000249056	ENST00000513481	processed_pseudogene	KNOWN	None	None	None	None	185480329	185480937	-1	None	None
2	MIR1302-4	ENSG00000221628	ENST00000408701	miRNA	KNOWN	None	35296	None	None	208133999	208134148	-1	MIRN1302-4	hsa-mir-1302-4
3	PDZRN3-AS1	ENSG00000239677	ENST00000478988	antisense	KNOWN	None	40814	None	None	73672719	73674658	1	None	None
1	None	ENSG00000236065	ENST00000427524	antisense	KNOWN	None	None	None	None	33452676	33498070	1	None	None
1	None	ENSG00000251520	ENST00000503142	unprocessed_pseudogene	KNOWN	None	None	None	None	180933647	180935045	1	None	None
1	None	ENSG00000232166	ENST00000412915	processed_pseudogene	KNOWN	None	None	None	None	234420718	234421287	1	None	None
12	None	ENSG00000256922	ENST00000541797	lincRNA	KNOWN	None	None	None	None	128278072	128305728	-1	None	None
2	None	ENSG00000223433	ENST00000440360	processed_pseudogene	KNOWN	None	None	None	None	208519505	208519675	1	None	None
13	None	ENSG00000272515	ENST00000607405	lincRNA	KNOWN	None	None	None	None	88260162	88261489	-1	None	None
4	None	ENSG00000254233	ENST00000522554	lincRNA	KNOWN	None	None	None	None	185505247	185546184	-1	None	None
4	None	ENSG00000254233	ENST00000520280	lincRNA	KNOWN	None	None	None	None	185540043	185546033	-1	None	None
4	None	ENSG00000254233	ENST00000519173	lincRNA	KNOWN	None	None	None	None	185540200	185546096	-1	None	None
1	MIR4671	ENSG00000264377	ENST00000583284	miRNA	KNOWN	None	41598	None	None	234442213	234442285	1	None	hsa-mir-4671
7	None	ENSG00000224667	ENST00000453438	processed_pseudogene	KNOWN	None	None	None	None	12545633	12547104	1	None	None
3	None	ENSG00000242364	ENST00000495472	processed_pseudogene	KNOWN	None	None	None	None	73697550	73697958	-1	None	None
2	None	ENSG00000231334	ENST00000449838	antisense	KNOWN	None	None	None	None	54974240	54975541	-1	None	None
10	CALHM2	ENSG00000138172	ENST00000369788	protein_coding	KNOWN	CCDS7549	23493	972	323	105206543	105212159	-1	FAM26B	None
10	CALHM2	ENSG00000138172	ENST00000260743	protein_coding	KNOWN	CCDS7549	23493	972	323	105206546	105212075	-1	FAM26B	None
10	CALHM2	ENSG00000138172	ENST00000494180	processed_transcript	KNOWN	None	23493	None	None	105209382	105211329	-1	FAM26B	None
10	CALHM2	ENSG00000138172	ENST00000463878	processed_transcript	KNOWN	None	23493	None	None	105209456	105212093	-1	FAM26B	None
10	CALHM2	ENSG00000138172	ENST00000480642	processed_transcript	KNOWN	None	23493	None	None	105209782	105212044	-1	FAM26B	None
10	CALHM2	ENSG00000138172	ENST00000461631	processed_transcript	KNOWN	None	23493	None	None	105210053	105212148	-1	FAM26B	None
10	CALHM2	ENSG00000138172	ENST00000474797	processed_transcript	KNOWN	None	23493	None	None	105210169	105211345	-1	FAM26B	None
10	CALHM2	ENSG00000138172	ENST00000393235	protein_coding	KNOWN	None	23493	657	218	105208871	105212660	-1	FAM26B	None
1	None	ENSG00000270115	ENST00000602618	lincRNA	KNOWN	None	None	None	None	33726813	33727281	1	None	None
16	None	ENSG00000261750	ENST00000568581	protein_coding	KNOWN	None	None	317	104	71879899	71950997	1	None	None
16	None	ENSG00000261750	ENST00000568341	processed_transcript	KNOWN	None	None	None	None	71879943	71917104	1	None	None
16	None	ENSG00000261750	ENST00000569119	processed_transcript	KNOWN	None	None	None	None	71879951	71919171	1	None	None
13	MIR4500	ENSG00000266052	ENST00000579472	miRNA	KNOWN	None	41853	None	None	88270920	88270995	-1	None	hsa-mir-4500
1	USP33	ENSG00000077254	ENST00000370794	protein_coding	KNOWN	CCDS679	20059	2736	911	78161672	78225537	-1	None	KIAA1097, VDU1
1	USP33	ENSG00000077254	ENST00000481579	protein_coding	PUTATIVE	None	20059	1370	455	78161676	78194021	-1	None	KIAA1097, VDU1
1	USP33	ENSG00000077254	ENST00000370793	protein_coding	KNOWN	CCDS678	20059	2829	942	78161676	78225537	-1	None	KIAA1097, VDU1
1	USP33	ENSG00000077254	ENST00000533928	retained_intron	KNOWN	None	20059	None	None	78163294	78167336	-1	None	KIAA1097, VDU1
1	USP33	ENSG00000077254	ENST00000477949	retained_intron	KNOWN	None	20059	None	None	78177187	78179193	-1	None	KIAA1097, VDU1
1	USP33	ENSG00000077254	ENST00000370792	protein_coding	KNOWN	CCDS680	20059	2487	828	78177337	78225537	-1	None	KIAA1097, VDU1
1	USP33	ENSG00000077254	ENST00000527390	nonsense_mediated_decay	KNOWN	None	20059	419	138	78177350	78186890	-1	None	KIAA1097, VDU1
1	USP33	ENSG00000077254	ENST00000472462	retained_intron	KNOWN	None	20059	None	None	78177470	78180602	-1	None	KIAA1097, VDU1
1	USP33	ENSG00000077254	ENST00000498328	retained_intron	KNOWN	None	20059	None	None	78183225	78184397	-1	None	KIAA1097, VDU1
1	USP33	ENSG00000077254	ENST00000461986	retained_intron	KNOWN	None	20059	None	None	78183330	78188084	-1	None	KIAA1097, VDU1
1	USP33	ENSG00000077254	ENST00000531637	retained_intron	KNOWN	None	20059	None	None	78183463	78186924	-1	None	KIAA1097, VDU1
1	USP33	ENSG00000077254	ENST00000462192	retained_intron	KNOWN	None	20059	None	None	78183709	78187423	-1	None	KIAA1097, VDU1
1	USP33	ENSG00000077254	ENST00000524536	protein_coding	KNOWN	None	20059	607	201	78200042	78225374	-1	None	KIAA1097, VDU1
1	USP33	ENSG00000077254	ENST00000525113	processed_transcript	KNOWN	None	20059	None	None	78204996	78225531	-1	None	KIAA1097, VDU1
1	USP33	ENSG00000077254	ENST00000528150	processed_transcript	KNOWN	None	20059	None	None	78205016	78225496	-1	None	KIAA1097, VDU1
1	USP33	ENSG00000077254	ENST00000530709	protein_coding	KNOWN	None	20059	332	109	78205062	78225073	-1	None	KIAA1097, VDU1
1	USP33	ENSG00000077254	ENST00000524778	protein_coding	KNOWN	None	20059	218	71	78205083	78225505	-1	None	KIAA1097, VDU1
1	USP33	ENSG00000077254	ENST00000357428	protein_coding	KNOWN	CCDS678	20059	2829	942	78161676	78211147	-1	None	KIAA1097, VDU1
1	None	ENSG00000235605	ENST00000422958	processed_pseudogene	KNOWN	None	None	None	None	234492450	234492887	-1	None	None
1	PFN1P8	ENSG00000244371	ENST00000497012	processed_pseudogene	KNOWN	None	42986	None	None	146392310	146392852	-1	None	None
1	None	ENSG00000234184	ENST00000418041	lincRNA	KNOWN	None	None	None	None	81001440	81112473	1	None	None
1	None	ENSG00000234184	ENST00000443104	lincRNA	KNOWN	None	None	None	None	81001440	81112473	1	None	None
1	None	ENSG00000234184	ENST00000443565	lincRNA	KNOWN	None	None	None	None	81106969	81112473	1	None	None
9	HSD17B3	ENSG00000130948	ENST00000467499	processed_transcript	KNOWN	None	5212	None	None	98997588	99002186	-1	None	SDR12C2
9	HSD17B3	ENSG00000130948	ENST00000494814	processed_transcript	KNOWN	None	5212	None	None	98997588	99012200	-1	None	SDR12C2
9	HSD17B3	ENSG00000130948	ENST00000464104	processed_transcript	KNOWN	None	5212	None	None	98997588	99012752	-1	None	SDR12C2
9	HSD17B3	ENSG00000130948	ENST00000375263	protein_coding	KNOWN	CCDS6716	5212	933	310	98997588	99064434	-1	None	SDR12C2
9	HSD17B3	ENSG00000130948	ENST00000484816	processed_transcript	KNOWN	None	5212	None	None	99001609	99006632	-1	None	SDR12C2
9	HSD17B3	ENSG00000130948	ENST00000463517	processed_transcript	KNOWN	None	5212	None	None	99012680	99017183	-1	None	SDR12C2
9	HSD17B3	ENSG00000130948	ENST00000375262	protein_coding	KNOWN	None	5212	783	260	98997742	99064386	-1	None	SDR12C2
13	None	ENSG00000223404	ENST00000422074	lincRNA	KNOWN	None	None	None	None	88453291	88456063	-1	None	None
13	None	ENSG00000223404	ENST00000606785	lincRNA	KNOWN	None	None	None	None	88453481	88455619	-1	None	None
2	RNU7-81P	ENSG00000252507	ENST00000516698	snRNA	KNOWN	None	34177	None	None	55077426	55077489	1	None	U7.81
3	C3orf55	ENSG00000174899	ENST00000312275	protein_coding	KNOWN	CCDS46944	25146	357	118	157261035	157296674	1	None	None
3	C3orf55	ENSG00000174899	ENST00000498159	processed_transcript	PUTATIVE	None	25146	None	None	157261129	157287625	1	None	None
3	C3orf55	ENSG00000174899	ENST00000468043	protein_coding	PUTATIVE	None	25146	102	33	157261133	157287701	1	None	None
3	C3orf55	ENSG00000174899	ENST00000459838	protein_coding	PUTATIVE	CCDS58859	25146	219	72	157261166	157296543	1	None	None
3	C3orf55	ENSG00000174899	ENST00000461040	protein_coding	PUTATIVE	None	25146	171	56	157261179	157395538	1	None	None
3	C3orf55	ENSG00000174899	ENST00000449199	protein_coding	KNOWN	CCDS46943	25146	408	135	157261186	157319022	1	None	None
3	C3orf55	ENSG00000174899	ENST00000426338	protein_coding	KNOWN	CCDS46942	25146	402	133	157261233	157318871	1	None	None
2	None	ENSG00000224137	ENST00000429730	lincRNA	KNOWN	None	None	None	None	208527099	208531748	1	None	None
HSCHR6_MHC_APD	MCCD1	ENSG00000225228	ENST00000424816	protein_coding	KNOWN	None	20668	360	119	31507785	31509300	1	None	None
1	None	ENSG00000256142	ENST00000543783	pseudogene	NOVEL	None	None	None	None	33764975	33766320	1	None	None
2	RNU6-433P	ENSG00000200086	ENST00000363216	snRNA	KNOWN	None	47396	None	None	55241554	55241657	-1	None	None
4	None	ENSG00000249138	ENST00000506741	processed_transcript	KNOWN	None	None	None	None	185719450	185720200	-1	None	None
4	None	ENSG00000249138	ENST00000512051	transcribed_processed_pseudogene	KNOWN	None	None	None	None	185719666	185720045	-1	None	None
1	None	ENSG00000234225	ENST00000425109	lincRNA	KNOWN	None	None	None	None	146473490	146475177	-1	None	None
1	None	ENSG00000234225	ENST00000455718	lincRNA	KNOWN	None	None	None	None	146473841	146474743	-1	None	None
18	ANKRD20A5P	ENSG00000186481	ENST00000581935	processed_transcript	KNOWN	None	33833	None	None	14179096	14185400	1	ANKRD20A5	MGC26718
18	ANKRD20A5P	ENSG00000186481	ENST00000581181	processed_transcript	KNOWN	None	33833	None	None	14179142	14187773	1	ANKRD20A5	MGC26718
18	ANKRD20A5P	ENSG00000186481	ENST00000581363	processed_transcript	KNOWN	None	33833	None	None	14179369	14205211	1	ANKRD20A5	MGC26718
18	ANKRD20A5P	ENSG00000186481	ENST00000431648	transcribed_unprocessed_pseudogene	KNOWN	None	33833	None	None	14179394	14226111	1	ANKRD20A5	MGC26718
18	ANKRD20A5P	ENSG00000186481	ENST00000580195	processed_transcript	KNOWN	None	33833	None	None	14205164	14215543	1	ANKRD20A5	MGC26718
18	ANKRD20A5P	ENSG00000186481	ENST00000580995	processed_transcript	KNOWN	None	33833	None	None	14211310	14219970	1	ANKRD20A5	MGC26718
18	ANKRD20A5P	ENSG00000186481	ENST00000583348	processed_transcript	KNOWN	None	33833	None	None	14219913	14221383	1	ANKRD20A5	MGC26718
18	ANKRD20A5P	ENSG00000186481	ENST00000577614	processed_transcript	KNOWN	None	33833	None	None	14225566	14234796	1	ANKRD20A5	MGC26718
18	ANKRD20A5P	ENSG00000186481	ENST00000399814	unprocessed_pseudogene	KNOWN	None	33833	None	None	14179096	14185368	1	ANKRD20A5	MGC26718
18	ANKRD20A5P	ENSG00000186481	ENST00000427989	unprocessed_pseudogene	KNOWN	None	33833	None	None	14225765	14249455	1	ANKRD20A5	MGC26718
GL000233.1	None	ENSG00000265117	ENST00000579938	miRNA	NOVEL	None	None	None	None	35452	35534	1	None	None
2	None	ENSG00000266376	ENST00000583669	miRNA	NOVEL	None	None	None	None	55335846	55335939	1	None	None
2	RNU6-664P	ENSG00000199251	ENST00000362381	snRNA	KNOWN	None	47627	None	None	208545257	208545363	-1	None	None
5	None	ENSG00000270225	ENST00000603246	processed_pseudogene	KNOWN	None	None	None	None	99388563	99389243	-1	None	None
1	None	ENSG00000225313	ENST00000588828	antisense	KNOWN	None	None	None	None	33772967	33791499	1	None	None
1	None	ENSG00000225313	ENST00000457957	antisense	KNOWN	None	None	None	None	33772972	33791644	1	None	None
1	None	ENSG00000225313	ENST00000587696	antisense	KNOWN	None	None	None	None	33780348	33791504	1	None	None
11	OR52A4	ENSG00000205494	ENST00000472867	transcribed_unprocessed_pseudogene	KNOWN	None	19579	None	None	5141894	5142808	-1	None	None
11	OR52A4	ENSG00000205494	ENST00000498233	processed_transcript	KNOWN	None	19579	None	None	5142385	5145743	-1	None	None
11	OR52A4	ENSG00000205494	ENST00000481634	processed_transcript	KNOWN	None	19579	None	None	5142385	5145743	-1	None	None
11	OR52A4	ENSG00000205494	ENST00000380369	unprocessed_pseudogene	KNOWN	None	19579	None	None	5141849	5142847	-1	None	None
12	None	ENSG00000257985	ENST00000546738	antisense	KNOWN	None	None	None	None	48405087	48419252	1	None	None
GL000213.1	None	ENSG00000238432	ENST00000459553	snRNA	NOVEL	None	None	None	None	127840	127946	-1	None	None
12	None	ENSG00000246331	ENST00000500076	lincRNA	KNOWN	None	None	None	None	30908008	30933673	1	None	None
2	None	ENSG00000203327	ENST00000366153	antisense	KNOWN	None	None	None	None	55441523	55443262	-1	None	None
2	PPP1R14BP2	ENSG00000213082	ENST00000426284	processed_pseudogene	KNOWN	None	16329	None	None	208546314	208546757	1	None	None
16	RPL35AP33	ENSG00000241334	ENST00000482557	processed_pseudogene	KNOWN	None	36950	None	None	68511140	68511473	-1	None	None
13	None	ENSG00000272046	ENST00000606221	lincRNA	KNOWN	None	None	None	None	88459889	88463487	-1	None	None
16	None	ENSG00000207715	ENST00000384982	miRNA	NOVEL	None	None	None	None	2317788	2317881	-1	None	None
3	None	ENSG00000236246	ENST00000451150	processed_pseudogene	KNOWN	None	None	None	None	197848259	197850145	-1	None	None
1	AURKAIP1	ENSG00000175756	ENST00000338370	protein_coding	KNOWN	CCDS25	24114	600	199	1309110	1310537	-1	None	AKIP, AIP, FLJ20608
1	AURKAIP1	ENSG00000175756	ENST00000338338	protein_coding	KNOWN	CCDS25	24114	600	199	1309110	1310875	-1	None	AKIP, AIP, FLJ20608
1	AURKAIP1	ENSG00000175756	ENST00000321751	protein_coding	KNOWN	CCDS25	24114	600	199	1309112	1310549	-1	None	AKIP, AIP, FLJ20608
1	AURKAIP1	ENSG00000175756	ENST00000378853	protein_coding	KNOWN	CCDS25	24114	600	199	1309117	1310553	-1	None	AKIP, AIP, FLJ20608
1	AURKAIP1	ENSG00000175756	ENST00000489799	processed_transcript	PUTATIVE	None	24114	None	None	1309624	1310524	-1	None	AKIP, AIP, FLJ20608
1	AURKAIP1	ENSG00000175756	ENST00000496905	processed_transcript	KNOWN	None	24114	None	None	1309818	1310539	-1	None	AKIP, AIP, FLJ20608
HSCHR19_3_CTG3	PCGF7P	ENSG00000262856	ENST00000576851	processed_pseudogene	KNOWN	None	30341	None	None	22320733	22321783	1	RNF134P1	None
4	None	ENSG00000251230	ENST00000511703	lincRNA	KNOWN	None	None	None	None	185765739	185776905	-1	None	None
4	None	ENSG00000251230	ENST00000510284	lincRNA	KNOWN	None	None	None	None	185767432	185776836	-1	None	None
HSCHR6_MHC_MANN	None	ENSG00000226139	ENST00000431942	processed_transcript	KNOWN	None	None	None	None	32839531	32840353	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000226139	ENST00000426042	processed_transcript	PUTATIVE	None	None	None	None	32839556	32840358	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000226139	ENST00000453801	processed_transcript	PUTATIVE	None	None	None	None	32839911	32840361	1	None	None
1	MIR3605	ENSG00000266239	ENST00000583214	miRNA	KNOWN	None	38922	None	None	33797994	33798093	-1	None	hsa-mir-3605
13	TET1P1	ENSG00000232204	ENST00000426627	processed_pseudogene	KNOWN	None	33586	None	None	88542427	88544727	-1	CXXC6P1	None
1	None	ENSG00000236358	ENST00000425104	antisense	KNOWN	None	None	None	None	234492752	234501574	1	None	None
1	None	ENSG00000270711	ENST00000604674	processed_pseudogene	KNOWN	None	None	None	None	180939973	180940383	1	None	None
12	None	ENSG00000240399	ENST00000468202	processed_transcript	KNOWN	None	None	None	None	48448596	48449374	-1	None	None
12	None	ENSG00000240399	ENST00000463559	transcribed_processed_pseudogene	KNOWN	None	None	None	None	48448754	48449036	-1	None	None
1	MTND2P30	ENSG00000227937	ENST00000456663	processed_pseudogene	KNOWN	None	42131	None	None	81546475	81546856	1	None	None
5	CDC42SE2	ENSG00000158985	ENST00000502840	processed_transcript	KNOWN	None	18547	None	None	130581186	130695029	1	None	FLJ21967, SPEC2
5	CDC42SE2	ENSG00000158985	ENST00000511432	processed_transcript	KNOWN	None	18547	None	None	130588720	130694915	1	None	FLJ21967, SPEC2
5	CDC42SE2	ENSG00000158985	ENST00000515533	processed_transcript	KNOWN	None	18547	None	None	130588746	130591276	1	None	FLJ21967, SPEC2
5	CDC42SE2	ENSG00000158985	ENST00000506419	processed_transcript	KNOWN	None	18547	None	None	130599359	130694955	1	None	FLJ21967, SPEC2
5	CDC42SE2	ENSG00000158985	ENST00000504701	processed_transcript	KNOWN	None	18547	None	None	130599755	130695075	1	None	FLJ21967, SPEC2
5	CDC42SE2	ENSG00000158985	ENST00000503291	protein_coding	PUTATIVE	None	18547	174	57	130599761	130728799	1	None	FLJ21967, SPEC2
5	CDC42SE2	ENSG00000158985	ENST00000360515	protein_coding	KNOWN	CCDS34224	18547	255	84	130599768	130730383	1	None	FLJ21967, SPEC2
5	CDC42SE2	ENSG00000158985	ENST00000505065	protein_coding	KNOWN	CCDS34224	18547	255	84	130599793	130730360	1	None	FLJ21967, SPEC2
5	CDC42SE2	ENSG00000158985	ENST00000502582	protein_coding	PUTATIVE	None	18547	165	54	130721299	130734139	1	None	FLJ21967, SPEC2
5	CDC42SE2	ENSG00000158985	ENST00000506929	processed_transcript	KNOWN	None	18547	None	None	130727894	130734138	1	None	FLJ21967, SPEC2
5	CDC42SE2	ENSG00000158985	ENST00000502639	processed_transcript	KNOWN	None	18547	None	None	130732099	130734140	1	None	FLJ21967, SPEC2
5	CDC42SE2	ENSG00000158985	ENST00000395246	protein_coding	KNOWN	CCDS34224	18547	255	84	130599702	130730380	1	None	FLJ21967, SPEC2
1	RN7SKP16	ENSG00000222112	ENST00000410180	misc_RNA	KNOWN	None	45740	None	None	33802167	33802465	-1	None	None
13	None	ENSG00000231019	ENST00000430214	lincRNA	KNOWN	None	None	None	None	88795122	88888337	1	None	None
19	KLK15	ENSG00000174562	ENST00000601680	retained_intron	KNOWN	None	20453	None	None	51328545	51334748	-1	None	HSRNASPH, ACO, prostinogen
19	KLK15	ENSG00000174562	ENST00000326856	protein_coding	NOVEL	None	20453	768	255	51328561	51340469	-1	None	HSRNASPH, ACO, prostinogen
19	KLK15	ENSG00000174562	ENST00000596531	retained_intron	KNOWN	None	20453	None	None	51328989	51330407	-1	None	HSRNASPH, ACO, prostinogen
19	KLK15	ENSG00000174562	ENST00000598239	protein_coding	KNOWN	CCDS12805	20453	771	256	51328999	51334779	-1	None	HSRNASPH, ACO, prostinogen
19	KLK15	ENSG00000174562	ENST00000596931	protein_coding	NOVEL	None	20453	483	160	51329012	51334769	-1	None	HSRNASPH, ACO, prostinogen
19	KLK15	ENSG00000174562	ENST00000602114	nonsense_mediated_decay	KNOWN	None	20453	363	120	51329012	51334769	-1	None	HSRNASPH, ACO, prostinogen
19	KLK15	ENSG00000174562	ENST00000598673	protein_coding	PUTATIVE	None	20453	130	42	51330284	51336443	-1	None	HSRNASPH, ACO, prostinogen
19	KLK15	ENSG00000174562	ENST00000416184	protein_coding	KNOWN	None	20453	516	171	51328545	51334779	-1	None	HSRNASPH, ACO, prostinogen
19	KLK15	ENSG00000174562	ENST00000301421	protein_coding	KNOWN	CCDS12806	20453	486	161	51328545	51334779	-1	None	HSRNASPH, ACO, prostinogen
16	MIR940	ENSG00000260778	ENST00000563734	lincRNA	KNOWN	None	33683	None	None	2318156	2323419	1	MIRN940	hsa-mir-940
16	MIR940	ENSG00000260778	ENST00000567888	lincRNA	KNOWN	None	33683	None	None	2318624	2323040	1	MIRN940	hsa-mir-940
16	MIR940	ENSG00000260778	ENST00000562838	lincRNA	KNOWN	None	33683	None	None	2318664	2323125	1	MIRN940	hsa-mir-940
16	MIR940	ENSG00000260778	ENST00000401276	miRNA	KNOWN	None	33683	None	None	2321748	2321841	1	MIRN940	hsa-mir-940
2	None	ENSG00000227799	ENST00000430010	processed_pseudogene	KNOWN	None	None	None	None	55451416	55453044	1	None	None
1	None	ENSG00000229752	ENST00000417407	processed_pseudogene	KNOWN	None	None	None	None	81563952	81564690	-1	None	None
1	None	ENSG00000231663	ENST00000451795	antisense	KNOWN	None	None	None	None	234508553	234509339	-1	None	None
7	None	ENSG00000225606	ENST00000433040	antisense	KNOWN	None	None	None	None	12609751	12611017	-1	None	None
12	None	ENSG00000257398	ENST00000547452	lincRNA	KNOWN	None	None	None	None	108233068	108257744	-1	None	None
12	None	ENSG00000257398	ENST00000551629	lincRNA	KNOWN	None	None	None	None	108233127	108258339	-1	None	None
1	None	ENSG00000233246	ENST00000432703	antisense	KNOWN	None	None	None	None	33815953	33828846	1	None	None
1	None	ENSG00000272198	ENST00000606938	lincRNA	KNOWN	None	None	None	None	181060245	181062035	1	None	None
2	None	ENSG00000200764	ENST00000363894	misc_RNA	NOVEL	None	None	None	None	208552684	208552783	1	None	None
19	PSG9	ENSG00000183668	ENST00000595404	retained_intron	KNOWN	None	9526	None	None	43715943	43764898	-1	PSG11	PSGII
19	PSG9	ENSG00000183668	ENST00000418820	protein_coding	PUTATIVE	None	9526	981	326	43715943	43773682	-1	PSG11	PSGII
19	PSG9	ENSG00000183668	ENST00000593948	protein_coding	NOVEL	None	9526	1002	333	43757431	43773680	-1	PSG11	PSGII
19	PSG9	ENSG00000183668	ENST00000270077	protein_coding	KNOWN	CCDS12618	9526	1281	426	43757434	43773680	-1	PSG11	PSGII
19	PSG9	ENSG00000183668	ENST00000291752	protein_coding	NOVEL	None	9526	723	240	43757435	43773589	-1	PSG11	PSGII
19	PSG9	ENSG00000183668	ENST00000443718	protein_coding	NOVEL	None	9526	1002	333	43757439	43773680	-1	PSG11	PSGII
19	PSG9	ENSG00000183668	ENST00000244293	protein_coding	PUTATIVE	None	9526	1209	402	43761312	43773650	-1	PSG11	PSGII
19	PSG9	ENSG00000183668	ENST00000596730	protein_coding	PUTATIVE	None	9526	930	309	43761317	43773673	-1	PSG11	PSGII
3	None	ENSG00000232013	ENST00000422482	protein_coding	NOVEL	None	None	183	60	145782358	145784156	1	None	None
2	MIR4775	ENSG00000264900	ENST00000581168	miRNA	KNOWN	None	41885	None	None	208619531	208619605	1	None	hsa-mir-4775
13	None	ENSG00000223059	ENST00000411127	miRNA	NOVEL	None	None	None	None	88840114	88840175	-1	None	None
11	RNA5SP342	ENSG00000252902	ENST00000517093	rRNA	KNOWN	None	43242	None	None	71556242	71556291	-1	RN5S342	None
1	NBPF13P	ENSG00000227242	ENST00000444082	unprocessed_pseudogene	KNOWN	None	31995	None	None	146492879	146596107	-1	None	None
1	NBPF13P	ENSG00000227242	ENST00000444680	unprocessed_pseudogene	KNOWN	None	31995	None	None	146490895	146514599	-1	None	None
12	RNU6-1203P	ENSG00000222635	ENST00000410703	snRNA	KNOWN	None	48166	None	None	48475102	48475211	1	None	None
13	RPL29P29	ENSG00000225289	ENST00000448725	processed_pseudogene	KNOWN	None	36577	None	None	88888802	88889224	-1	None	None
2	None	ENSG00000244567	ENST00000343987	lincRNA	KNOWN	None	None	None	None	208686014	208687493	-1	None	None
4	ADH7	ENSG00000196344	ENST00000437033	protein_coding	KNOWN	None	256	1125	374	100333418	100356894	-1	None	ADH-4
4	ADH7	ENSG00000196344	ENST00000482593	protein_coding	PUTATIVE	None	256	954	317	100334163	100356430	-1	None	ADH-4
4	ADH7	ENSG00000196344	ENST00000485660	retained_intron	KNOWN	None	256	None	None	100334171	100337031	-1	None	ADH-4
4	ADH7	ENSG00000196344	ENST00000476959	protein_coding	NOVEL	CCDS54781	256	1185	394	100334195	100356291	-1	None	ADH-4
4	ADH7	ENSG00000196344	ENST00000474027	protein_coding	PUTATIVE	None	256	323	106	100349000	100351448	-1	None	ADH-4
4	ADH7	ENSG00000196344	ENST00000209665	protein_coding	KNOWN	CCDS34034	256	1161	386	100333418	100356667	-1	None	ADH-4
5	GUSBP1	ENSG00000183666	ENST00000508260	processed_transcript	KNOWN	None	13670	None	None	21341942	21544886	1	None	None
5	GUSBP1	ENSG00000183666	ENST00000509649	processed_transcript	KNOWN	None	13670	None	None	21459606	21462099	1	None	None
5	GUSBP1	ENSG00000183666	ENST00000508973	processed_transcript	KNOWN	None	13670	None	None	21459622	21474548	1	None	None
5	GUSBP1	ENSG00000183666	ENST00000607545	processed_transcript	KNOWN	None	13670	None	None	21459665	21589481	1	None	None
5	GUSBP1	ENSG00000183666	ENST00000449061	transcribed_unprocessed_pseudogene	KNOWN	None	13670	None	None	21459669	21501935	1	None	None
5	GUSBP1	ENSG00000183666	ENST00000328346	unprocessed_pseudogene	KNOWN	None	13670	None	None	21459589	21497305	1	None	None
1	None	ENSG00000237292	ENST00000435023	lincRNA	KNOWN	None	None	None	None	181143620	181151344	1	None	None
1	None	ENSG00000237292	ENST00000438428	lincRNA	KNOWN	None	None	None	None	181144473	181151343	1	None	None
1	None	ENSG00000231768	ENST00000435574	lincRNA	KNOWN	None	None	None	None	234663637	234667525	-1	None	None
1	None	ENSG00000231768	ENST00000421207	lincRNA	KNOWN	None	None	None	None	234665688	234667511	-1	None	None
7	None	ENSG00000240790	ENST00000490314	antisense	KNOWN	None	None	None	None	127284739	127292066	-1	None	None
1	None	ENSG00000221225	ENST00000408298	miRNA	NOVEL	None	None	None	None	33907626	33907712	-1	None	None
12	None	ENSG00000226138	ENST00000549557	processed_pseudogene	KNOWN	None	None	None	None	48478845	48479204	1	None	None
12	None	ENSG00000226138	ENST00000419998	processed_pseudogene	KNOWN	None	None	None	None	48478833	48479204	1	None	None
1	None	ENSG00000235089	ENST00000426688	processed_pseudogene	KNOWN	None	None	None	None	81674253	81674895	1	None	None
12	None	ENSG00000255757	ENST00000538359	processed_pseudogene	KNOWN	None	None	None	None	128361544	128362061	-1	None	None
2	None	ENSG00000225111	ENST00000421964	sense_intronic	KNOWN	None	None	None	None	208733306	208734639	-1	None	None
20	MYL9	ENSG00000101335	ENST00000279022	protein_coding	KNOWN	CCDS13276	15754	519	172	35169887	35178228	1	None	MYRL2, MLC2, LC20, MRLC1
20	MYL9	ENSG00000101335	ENST00000346786	protein_coding	KNOWN	CCDS13277	15754	357	118	35169900	35178228	1	None	MYRL2, MLC2, LC20, MRLC1
HSCHR6_MHC_MANN	HLA-DQB3	ENSG00000228684	ENST00000444445	unprocessed_pseudogene	KNOWN	None	4946	None	None	32852287	32853223	-1	HLA-DVB	D6S205, D6S205E, DVB, DQB3
3	TTLL3	ENSG00000214021	ENST00000414814	protein_coding	PUTATIVE	None	24483	336	111	9849770	9857778	1	None	DKFZP434B103, HOTTL
3	TTLL3	ENSG00000214021	ENST00000452597	protein_coding	PUTATIVE	None	24483	421	139	9850201	9857863	1	None	DKFZP434B103, HOTTL
3	TTLL3	ENSG00000214021	ENST00000419081	protein_coding	PUTATIVE	None	24483	327	108	9851384	9859340	1	None	DKFZP434B103, HOTTL
3	TTLL3	ENSG00000214021	ENST00000438596	protein_coding	PUTATIVE	None	24483	455	150	9851405	9859342	1	None	DKFZP434B103, HOTTL
3	TTLL3	ENSG00000214021	ENST00000459758	retained_intron	KNOWN	None	24483	None	None	9851405	9859483	1	None	DKFZP434B103, HOTTL
3	TTLL3	ENSG00000214021	ENST00000417065	protein_coding	PUTATIVE	None	24483	480	159	9851405	9860555	1	None	DKFZP434B103, HOTTL
3	TTLL3	ENSG00000214021	ENST00000439814	protein_coding	PUTATIVE	None	24483	347	114	9851424	9857789	1	None	DKFZP434B103, HOTTL
3	TTLL3	ENSG00000214021	ENST00000418745	protein_coding	PUTATIVE	None	24483	367	121	9851424	9857809	1	None	DKFZP434B103, HOTTL
3	TTLL3	ENSG00000214021	ENST00000430718	protein_coding	PUTATIVE	None	24483	446	147	9851558	9857888	1	None	DKFZP434B103, HOTTL
3	TTLL3	ENSG00000214021	ENST00000427220	nonsense_mediated_decay	KNOWN	None	24483	612	203	9851619	9877088	1	None	DKFZP434B103, HOTTL
3	TTLL3	ENSG00000214021	ENST00000426895	protein_coding	KNOWN	CCDS43048	24483	2748	915	9851672	9877173	1	None	DKFZP434B103, HOTTL
3	TTLL3	ENSG00000214021	ENST00000426827	protein_coding	PUTATIVE	None	24483	567	188	9851931	9859451	1	None	DKFZP434B103, HOTTL
3	TTLL3	ENSG00000214021	ENST00000431204	nonsense_mediated_decay	KNOWN	None	24483	351	116	9851931	9870936	1	None	DKFZP434B103, HOTTL
3	TTLL3	ENSG00000214021	ENST00000422738	protein_coding	PUTATIVE	None	24483	485	160	9852286	9860605	1	None	DKFZP434B103, HOTTL
3	TTLL3	ENSG00000214021	ENST00000430390	nonsense_mediated_decay	KNOWN	None	24483	355	117	9852354	9877088	1	None	DKFZP434B103, HOTTL
3	TTLL3	ENSG00000214021	ENST00000483051	retained_intron	KNOWN	None	24483	None	None	9854932	9877999	1	None	DKFZP434B103, HOTTL
3	TTLL3	ENSG00000214021	ENST00000310252	protein_coding	PUTATIVE	None	24483	1561	519	9854978	9876505	1	None	DKFZP434B103, HOTTL
3	TTLL3	ENSG00000214021	ENST00000496526	retained_intron	KNOWN	None	24483	None	None	9854987	9877087	1	None	DKFZP434B103, HOTTL
3	TTLL3	ENSG00000214021	ENST00000496246	nonsense_mediated_decay	KNOWN	None	24483	84	27	9854991	9862331	1	None	DKFZP434B103, HOTTL
3	TTLL3	ENSG00000214021	ENST00000474948	nonsense_mediated_decay	KNOWN	None	24483	211	69	9854993	9862300	1	None	DKFZP434B103, HOTTL
3	TTLL3	ENSG00000214021	ENST00000452823	protein_coding	PUTATIVE	None	24483	579	192	9854993	9867585	1	None	DKFZP434B103, HOTTL
3	TTLL3	ENSG00000214021	ENST00000443148	protein_coding	PUTATIVE	None	24483	1860	619	9857758	9876780	1	None	DKFZP434B103, HOTTL
3	TTLL3	ENSG00000214021	ENST00000383827	protein_coding	KNOWN	None	24483	1059	352	9860056	9877999	1	None	DKFZP434B103, HOTTL
3	TTLL3	ENSG00000214021	ENST00000473661	nonsense_mediated_decay	KNOWN	None	24483	327	108	9860245	9877088	1	None	DKFZP434B103, HOTTL
3	TTLL3	ENSG00000214021	ENST00000455274	protein_coding	NOVEL	None	24483	981	326	9860987	9896822	1	None	DKFZP434B103, HOTTL
3	TTLL3	ENSG00000214021	ENST00000438141	nonsense_mediated_decay	KNOWN	None	24483	1059	352	9861978	9877016	1	None	DKFZP434B103, HOTTL
3	TTLL3	ENSG00000214021	ENST00000430793	protein_coding	KNOWN	None	24483	1305	434	9861978	9877042	1	None	DKFZP434B103, HOTTL
3	TTLL3	ENSG00000214021	ENST00000602338	retained_intron	KNOWN	None	24483	None	None	9862033	9862725	1	None	DKFZP434B103, HOTTL
3	TTLL3	ENSG00000214021	ENST00000482269	retained_intron	KNOWN	None	24483	None	None	9867090	9870738	1	None	DKFZP434B103, HOTTL
3	TTLL3	ENSG00000214021	ENST00000492440	retained_intron	KNOWN	None	24483	None	None	9867250	9869846	1	None	DKFZP434B103, HOTTL
3	TTLL3	ENSG00000214021	ENST00000466245	processed_transcript	KNOWN	None	24483	None	None	9867545	9871019	1	None	DKFZP434B103, HOTTL
3	TTLL3	ENSG00000214021	ENST00000471058	protein_coding	PUTATIVE	None	24483	543	180	9870847	9877087	1	None	DKFZP434B103, HOTTL
3	TTLL3	ENSG00000214021	ENST00000493241	retained_intron	KNOWN	None	24483	None	None	9875768	9876892	1	None	DKFZP434B103, HOTTL
3	TTLL3	ENSG00000214021	ENST00000547186	protein_coding	KNOWN	None	24483	2319	772	9851904	9878037	1	None	DKFZP434B103, HOTTL
3	TTLL3	ENSG00000214021	ENST00000397241	protein_coding	KNOWN	None	24483	1059	352	9851904	9878037	1	None	DKFZP434B103, HOTTL
3	TTLL3	ENSG00000214021	ENST00000427853	protein_coding	KNOWN	None	24483	1059	352	9854978	9876505	1	None	DKFZP434B103, HOTTL
1	TLR12P	ENSG00000234512	ENST00000413515	unitary_pseudogene	KNOWN	None	31754	None	None	33931850	33934555	1	None	None
2	PRORSD1P	ENSG00000162997	ENST00000563365	processed_transcript	KNOWN	None	34379	None	None	55509455	55511608	1	NCRNA00117, PRDXDD1P	Prdxdd1, Ybakd1
2	PRORSD1P	ENSG00000162997	ENST00000295112	unitary_pseudogene	KNOWN	None	34379	None	None	55509465	55511573	1	NCRNA00117, PRDXDD1P	Prdxdd1, Ybakd1
2	PRORSD1P	ENSG00000162997	ENST00000579162	processed_transcript	KNOWN	None	34379	None	None	55509465	55511658	1	NCRNA00117, PRDXDD1P	Prdxdd1, Ybakd1
5	None	ENSG00000271207	ENST00000604619	processed_pseudogene	KNOWN	None	None	None	None	99389390	99390749	-1	None	None
HG991_PATCH	SLC25A26	ENSG00000261657	ENST00000566782	protein_coding	KNOWN	None	20661	825	274	66119285	66456619	1	None	None
HG991_PATCH	SLC25A26	ENSG00000261657	ENST00000562780	protein_coding	NOVEL	None	20661	707	234	66320895	66455748	1	None	None
HG991_PATCH	SLC25A26	ENSG00000261657	ENST00000569579	nonsense_mediated_decay	KNOWN	None	20661	275	90	66320895	66456619	1	None	None
HG991_PATCH	SLC25A26	ENSG00000261657	ENST00000568242	nonsense_mediated_decay	KNOWN	None	20661	335	110	66320895	66465398	1	None	None
HG991_PATCH	SLC25A26	ENSG00000261657	ENST00000565530	processed_transcript	KNOWN	None	20661	None	None	66339287	66448276	1	None	None
13	LINC00433	ENSG00000229443	ENST00000424165	lincRNA	KNOWN	None	42768	None	None	89193119	89194761	1	None	None
13	LINC00433	ENSG00000229443	ENST00000448425	lincRNA	KNOWN	None	42768	None	None	89194540	89197764	1	None	None
7	None	ENSG00000240579	ENST00000459978	processed_pseudogene	KNOWN	None	None	None	None	127497905	127498541	-1	None	None
19	C5AR1	ENSG00000197405	ENST00000595501	processed_transcript	KNOWN	None	1338	None	None	47793280	47811011	1	C5R1	C5A, C5AR, CD88
19	C5AR1	ENSG00000197405	ENST00000594787	protein_coding	PUTATIVE	None	1338	52	16	47800332	47823443	1	C5R1	C5A, C5AR, CD88
19	C5AR1	ENSG00000197405	ENST00000355085	protein_coding	KNOWN	CCDS33063	1338	1053	350	47813131	47825323	1	C5R1	C5A, C5AR, CD88
20	SNORD12C	ENSG00000209042	ENST00000386307	snoRNA	KNOWN	None	10105	None	None	47895477	47895565	1	RNU106, SNORD106	U106
1	None	ENSG00000235907	ENST00000424879	processed_pseudogene	KNOWN	None	None	None	None	33977608	33978343	-1	None	None
5	RNU6-1119P	ENSG00000207077	ENST00000384349	snRNA	KNOWN	None	48082	None	None	99489376	99489483	1	None	None
16	C16orf82	ENSG00000234186	ENST00000505035	lincRNA	KNOWN	None	30755	None	None	27078028	27080486	1	None	TNT
16	C16orf82	ENSG00000234186	ENST00000418886	lincRNA	KNOWN	None	30755	None	None	27078219	27080486	1	None	TNT
1	NECAP2	ENSG00000157191	ENST00000337132	protein_coding	KNOWN	CCDS173	25528	792	263	16767167	16786573	1	None	FLJ10420
1	NECAP2	ENSG00000157191	ENST00000504551	protein_coding	NOVEL	None	25528	609	202	16767216	16785503	1	None	FLJ10420
1	NECAP2	ENSG00000157191	ENST00000457722	protein_coding	KNOWN	CCDS44067	25528	714	237	16767219	16785568	1	None	FLJ10420
1	NECAP2	ENSG00000157191	ENST00000486390	processed_transcript	KNOWN	None	25528	None	None	16767231	16768114	1	None	FLJ10420
1	NECAP2	ENSG00000157191	ENST00000443980	protein_coding	KNOWN	CCDS44066	25528	822	273	16767231	16786572	1	None	FLJ10420
1	NECAP2	ENSG00000157191	ENST00000504858	nonsense_mediated_decay	KNOWN	None	25528	306	101	16767232	16778510	1	None	FLJ10420
1	NECAP2	ENSG00000157191	ENST00000508680	processed_transcript	KNOWN	None	25528	None	None	16767237	16774845	1	None	FLJ10420
1	NECAP2	ENSG00000157191	ENST00000492095	nonsense_mediated_decay	KNOWN	CCDS173	25528	792	263	16767238	16786572	1	None	FLJ10420
1	NECAP2	ENSG00000157191	ENST00000459640	nonsense_mediated_decay	KNOWN	None	25528	585	194	16767251	16785451	1	None	FLJ10420
1	NECAP2	ENSG00000157191	ENST00000496239	retained_intron	KNOWN	None	25528	None	None	16767253	16786572	1	None	FLJ10420
1	NECAP2	ENSG00000157191	ENST00000513161	nonsense_mediated_decay	KNOWN	None	25528	191	62	16767267	16785503	1	None	FLJ10420
1	NECAP2	ENSG00000157191	ENST00000509727	retained_intron	KNOWN	None	25528	None	None	16782016	16785513	1	None	FLJ10420
1	NECAP2	ENSG00000157191	ENST00000406746	protein_coding	KNOWN	CCDS173	25528	792	263	16767219	16786572	1	None	FLJ10420
7	MIR593	ENSG00000207588	ENST00000384856	miRNA	KNOWN	None	32849	None	None	127721913	127722012	1	MIRN593	hsa-mir-593
5	None	ENSG00000249787	ENST00000511468	lincRNA	KNOWN	None	None	None	None	99737145	99744603	1	None	None
1	None	ENSG00000225359	ENST00000456771	lincRNA	KNOWN	None	None	None	None	181159607	181160285	-1	None	None
HSCHR6_MHC_MANN	None	ENSG00000265207	ENST00000578857	miRNA	NOVEL	None	None	None	None	32871477	32871544	-1	None	None
2	RNU6-360P	ENSG00000212246	ENST00000390944	snRNA	KNOWN	None	47323	None	None	208884362	208884465	-1	None	None
11	None	ENSG00000255157	ENST00000530001	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	71567323	71574699	1	None	None
11	None	ENSG00000255157	ENST00000528518	processed_transcript	KNOWN	None	None	None	None	71567323	71574704	1	None	None
20	SNORD12B	ENSG00000222365	ENST00000410433	snoRNA	KNOWN	None	33573	None	None	47896856	47896946	1	None	None
1	CCDC19	ENSG00000213085	ENST00000479861	processed_transcript	KNOWN	None	17229	None	None	159842154	159843204	-1	None	NESG1
1	CCDC19	ENSG00000213085	ENST00000476696	processed_transcript	KNOWN	None	17229	None	None	159842154	159869915	-1	None	NESG1
1	CCDC19	ENSG00000213085	ENST00000368099	protein_coding	KNOWN	CCDS30914	17229	1656	551	159842154	159869953	-1	None	NESG1
1	CCDC19	ENSG00000213085	ENST00000475911	processed_transcript	KNOWN	None	17229	None	None	159846053	159850490	-1	None	NESG1
1	CCDC19	ENSG00000213085	ENST00000479940	processed_transcript	KNOWN	None	17229	None	None	159856389	159869902	-1	None	NESG1
1	CCDC19	ENSG00000213085	ENST00000426543	protein_coding	KNOWN	None	17229	1401	466	159842156	159868059	-1	None	NESG1
9	None	ENSG00000238933	ENST00000459194	misc_RNA	NOVEL	None	None	None	None	44850221	44850332	1	None	None
9	SLC44A1	ENSG00000070214	ENST00000374723	protein_coding	KNOWN	None	18798	1959	652	108006903	108159627	1	CDW92	CDw92, CTL1, CHTL1, CD92
9	SLC44A1	ENSG00000070214	ENST00000470972	nonsense_mediated_decay	KNOWN	CCDS6763	18798	1974	657	108006903	108159627	1	CDW92	CDw92, CTL1, CHTL1, CD92
9	SLC44A1	ENSG00000070214	ENST00000374720	protein_coding	KNOWN	CCDS6763	18798	1974	657	108006903	108159627	1	CDW92	CDw92, CTL1, CHTL1, CD92
9	SLC44A1	ENSG00000070214	ENST00000374724	protein_coding	KNOWN	None	18798	1965	654	108006903	108201452	1	CDW92	CDw92, CTL1, CHTL1, CD92
9	SLC44A1	ENSG00000070214	ENST00000607692	processed_transcript	KNOWN	None	18798	None	None	108056947	108097868	1	CDW92	CDw92, CTL1, CHTL1, CD92
9	SLC44A1	ENSG00000070214	ENST00000607701	retained_intron	KNOWN	None	18798	None	None	108118198	108119524	1	CDW92	CDw92, CTL1, CHTL1, CD92
9	SLC44A1	ENSG00000070214	ENST00000436716	processed_transcript	PUTATIVE	None	18798	None	None	108148969	108158299	1	CDW92	CDw92, CTL1, CHTL1, CD92
9	SLC44A1	ENSG00000070214	ENST00000343170	protein_coding	KNOWN	None	18798	1341	446	108117757	108200782	1	CDW92	CDw92, CTL1, CHTL1, CD92
11	OR51A1P	ENSG00000176752	ENST00000511110	unprocessed_pseudogene	KNOWN	None	8316	None	None	5191581	5192526	-1	None	None
2	None	ENSG00000185078	ENST00000423843	processed_pseudogene	KNOWN	None	None	None	None	208896107	208896677	-1	None	None
1	None	ENSG00000230404	ENST00000429507	lincRNA	KNOWN	None	None	None	None	234701044	234705834	1	None	None
1	RN7SKP247	ENSG00000223026	ENST00000411094	misc_RNA	KNOWN	None	45971	None	None	81717474	81717781	1	None	None
13	LINC00560	ENSG00000261666	ENST00000564593	lincRNA	KNOWN	None	43704	None	None	89279107	89282651	1	None	None
2	SUPT7L	ENSG00000119760	ENST00000337768	protein_coding	KNOWN	CCDS42667	30632	1245	414	27873679	27886676	-1	None	STAF65, gamma, KIAA0764, SPT7L
2	SUPT7L	ENSG00000119760	ENST00000406540	protein_coding	KNOWN	None	30632	1239	412	27875919	27886507	-1	None	STAF65, gamma, KIAA0764, SPT7L
2	SUPT7L	ENSG00000119760	ENST00000405491	protein_coding	KNOWN	None	30632	1239	412	27875930	27886506	-1	None	STAF65, gamma, KIAA0764, SPT7L
2	SUPT7L	ENSG00000119760	ENST00000464789	protein_coding	KNOWN	None	30632	1239	412	27875937	27886506	-1	None	STAF65, gamma, KIAA0764, SPT7L
2	SUPT7L	ENSG00000119760	ENST00000404798	protein_coding	KNOWN	None	30632	840	279	27875938	27886490	-1	None	STAF65, gamma, KIAA0764, SPT7L
7	None	ENSG00000229233	ENST00000437088	lincRNA	KNOWN	None	None	None	None	12693804	12694610	1	None	None
1	HSPD1P14	ENSG00000227000	ENST00000432666	processed_pseudogene	KNOWN	None	35143	None	None	34304124	34305741	1	None	HSPD1-17P
9	None	ENSG00000231454	ENST00000450729	processed_pseudogene	KNOWN	None	None	None	None	44873417	44874224	1	None	None
9	None	ENSG00000231454	ENST00000453570	processed_pseudogene	KNOWN	None	None	None	None	44874008	44874226	1	None	None
1	None	ENSG00000179452	ENST00000319701	lincRNA	KNOWN	None	None	None	None	181205524	181207740	1	None	None
16	RNU4-36P	ENSG00000201164	ENST00000364294	snRNA	KNOWN	None	46972	None	None	68569418	68569561	1	None	None
1	HNRNPA3P14	ENSG00000224494	ENST00000444546	processed_pseudogene	KNOWN	None	48760	None	None	81892141	81893290	1	None	None
5	None	ENSG00000247877	ENST00000499025	lincRNA	KNOWN	None	None	None	None	99785458	99870890	-1	None	None
5	None	ENSG00000247877	ENST00000504833	lincRNA	KNOWN	None	None	None	None	99786639	99870966	-1	None	None
HSCHR6_MHC_MANN	None	ENSG00000231591	ENST00000416878	processed_transcript	KNOWN	None	None	None	None	32965662	32968071	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000231591	ENST00000432232	processed_transcript	KNOWN	None	None	None	None	32965684	32967395	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000231591	ENST00000424715	processed_transcript	KNOWN	None	None	None	None	32965709	32967562	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000231591	ENST00000452167	processed_transcript	KNOWN	None	None	None	None	32965709	32967786	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000231591	ENST00000428607	processed_transcript	KNOWN	None	None	None	None	32965710	32967271	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000231591	ENST00000416355	processed_transcript	KNOWN	None	None	None	None	32965714	32967654	1	None	None
13	GRPEL2P1	ENSG00000233211	ENST00000453145	processed_pseudogene	KNOWN	None	41969	None	None	89630701	89631039	-1	None	None
1	None	ENSG00000212144	ENST00000390842	snoRNA	NOVEL	None	None	None	None	234729021	234729148	1	None	None
16	None	ENSG00000262820	ENST00000571720	3prime_overlapping_ncrna	KNOWN	None	None	None	None	68595964	68601032	1	None	None
7	TRGV1	ENSG00000211701	ENST00000390348	TR_V_gene	KNOWN	None	12284	351	116	38407187	38407770	-1	TCRGV1	V1S1P
11	None	ENSG00000238855	ENST00000459062	snoRNA	NOVEL	None	None	None	None	126151552	126151649	1	None	None
11	None	ENSG00000225805	ENST00000533289	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	71589499	71595604	1	None	None
11	None	ENSG00000225805	ENST00000530210	processed_transcript	KNOWN	None	None	None	None	71589499	71595607	1	None	None
2	RNA5SP116	ENSG00000251941	ENST00000516132	rRNA	KNOWN	None	42914	None	None	208918885	208918982	-1	RN5S116	None
1	None	ENSG00000228830	ENST00000436039	antisense	KNOWN	None	None	None	None	234742754	234745229	1	None	None
20	SNORD12	ENSG00000212304	ENST00000391002	snoRNA	KNOWN	None	32708	None	None	47897220	47897309	1	MIR1259, MIRN1259	HBII-99, hsa-mir-1259
2	None	ENSG00000224839	ENST00000432393	processed_pseudogene	KNOWN	None	None	None	None	208921972	208922469	-1	None	None
16	None	ENSG00000260084	ENST00000569654	antisense	KNOWN	None	None	None	None	68607685	68623415	-1	None	None
1	RNA5SP70	ENSG00000252977	ENST00000517168	rRNA	KNOWN	None	42847	None	None	181740702	181740780	1	RN5S70	None
GL000237.1	BAGE	ENSG00000268590	ENST00000602027	protein_coding	KNOWN	None	942	120	39	899	2487	-1	None	CT2.1
1	LINC00184	ENSG00000224939	ENST00000429269	lincRNA	KNOWN	None	37192	None	None	234765057	234770526	1	NCRNA00184	HANC
1	None	ENSG00000227288	ENST00000448213	processed_pseudogene	KNOWN	None	None	None	None	81967479	81969153	1	None	None
7	MIR129-1	ENSG00000207705	ENST00000384972	miRNA	KNOWN	None	31512	None	None	127847924	127847996	1	MIRN129-1	hsa-mir-129-1
2	None	ENSG00000206964	ENST00000384237	misc_RNA	NOVEL	None	None	None	None	55513154	55513264	1	None	None
1	RN7SKP229	ENSG00000222397	ENST00000410465	misc_RNA	KNOWN	None	45953	None	None	181808608	181808909	-1	None	None
15	LIPC	ENSG00000166035	ENST00000356113	protein_coding	KNOWN	CCDS10166	6619	1500	499	58702768	58861072	1	None	HL, HTGL
15	LIPC	ENSG00000166035	ENST00000414170	protein_coding	PUTATIVE	None	6619	1500	499	58702771	58858670	1	None	HL, HTGL
15	LIPC	ENSG00000166035	ENST00000560257	retained_intron	KNOWN	None	6619	None	None	58702780	58724562	1	None	HL, HTGL
15	LIPC	ENSG00000166035	ENST00000299022	protein_coding	KNOWN	CCDS10166	6619	1500	499	58723997	58861073	1	None	HL, HTGL
15	LIPC	ENSG00000166035	ENST00000559845	retained_intron	KNOWN	None	6619	None	None	58724190	58856207	1	None	HL, HTGL
15	LIPC	ENSG00000166035	ENST00000433326	protein_coding	NOVEL	None	6619	1317	438	58724190	58861151	1	None	HL, HTGL
15	LIPC	ENSG00000166035	ENST00000560664	retained_intron	KNOWN	None	6619	None	None	58833947	58840771	1	None	HL, HTGL
12	None	ENSG00000257951	ENST00000550420	unprocessed_pseudogene	KNOWN	None	None	None	None	108275019	108277159	1	None	None
7	None	ENSG00000221429	ENST00000408502	miRNA	NOVEL	None	None	None	None	127930057	127930144	1	None	None
2	None	ENSG00000238582	ENST00000459385	snoRNA	NOVEL	None	None	None	None	208938785	208938886	-1	None	None
7	None	ENSG00000271253	ENST00000604949	processed_pseudogene	KNOWN	None	None	None	None	12725262	12725658	1	None	None
1	None	ENSG00000224810	ENST00000411509	lincRNA	KNOWN	None	None	None	None	182031812	182038388	-1	None	None
12	None	ENSG00000258051	ENST00000551045	processed_pseudogene	KNOWN	None	None	None	None	48554028	48554661	-1	None	None
20	None	ENSG00000265225	ENST00000583835	miRNA	NOVEL	None	None	None	None	48203218	48203311	1	None	None
7	None	ENSG00000242261	ENST00000468292	processed_pseudogene	KNOWN	None	None	None	None	127946702	127947731	1	None	None
3	FAM157A	ENSG00000236438	ENST00000437428	lincRNA	KNOWN	None	34079	None	None	197880121	197925886	1	None	None
3	FAM157A	ENSG00000236438	ENST00000431569	lincRNA	KNOWN	None	34079	None	None	197879237	197896723	1	None	None
2	None	ENSG00000240401	ENST00000366287	antisense	KNOWN	None	None	None	None	55535628	55541797	1	None	None
2	None	ENSG00000240401	ENST00000599475	antisense	KNOWN	None	None	None	None	55541218	55567446	1	None	None
2	None	ENSG00000240401	ENST00000599352	antisense	KNOWN	None	None	None	None	55541298	55566931	1	None	None
2	None	ENSG00000240401	ENST00000600219	antisense	KNOWN	None	None	None	None	55541298	55567304	1	None	None
2	None	ENSG00000240401	ENST00000594078	antisense	KNOWN	None	None	None	None	55541298	55573185	1	None	None
1	None	ENSG00000227960	ENST00000439024	sense_intronic	KNOWN	None	None	None	None	81970784	81971981	1	None	None
2	CRYGEP	ENSG00000229150	ENST00000412192	transcribed_unprocessed_pseudogene	KNOWN	None	2412	None	None	208972957	208977235	-1	CRYG5, CCL, CRYGEP1	G2
2	CRYGEP	ENSG00000229150	ENST00000440809	processed_transcript	KNOWN	None	2412	None	None	208973041	208977232	-1	CRYG5, CCL, CRYGEP1	G2
3	KIF9	ENSG00000088727	ENST00000265529	protein_coding	KNOWN	CCDS2752	16666	2373	790	47269885	47324941	-1	None	MGC104186
3	KIF9	ENSG00000088727	ENST00000444589	protein_coding	KNOWN	CCDS2751	16666	2178	725	47269887	47324337	-1	None	MGC104186
3	KIF9	ENSG00000088727	ENST00000452770	protein_coding	KNOWN	CCDS2752	16666	2373	790	47270142	47324067	-1	None	MGC104186
3	KIF9	ENSG00000088727	ENST00000487440	processed_transcript	KNOWN	None	16666	None	None	47281053	47324337	-1	None	MGC104186
3	KIF9	ENSG00000088727	ENST00000443784	nonsense_mediated_decay	KNOWN	None	16666	1002	333	47287687	47324027	-1	None	MGC104186
3	KIF9	ENSG00000088727	ENST00000489391	retained_intron	KNOWN	None	16666	None	None	47305129	47307278	-1	None	MGC104186
3	KIF9	ENSG00000088727	ENST00000484629	processed_transcript	KNOWN	None	16666	None	None	47307354	47318870	-1	None	MGC104186
3	KIF9	ENSG00000088727	ENST00000456548	protein_coding	PUTATIVE	None	16666	478	158	47308531	47324242	-1	None	MGC104186
3	KIF9	ENSG00000088727	ENST00000425853	protein_coding	PUTATIVE	None	16666	276	91	47316718	47324008	-1	None	MGC104186
3	KIF9	ENSG00000088727	ENST00000432493	protein_coding	PUTATIVE	None	16666	276	91	47316718	47324256	-1	None	MGC104186
3	KIF9	ENSG00000088727	ENST00000425452	protein_coding	PUTATIVE	None	16666	318	105	47316742	47323688	-1	None	MGC104186
3	KIF9	ENSG00000088727	ENST00000498584	retained_intron	KNOWN	None	16666	None	None	47318584	47324256	-1	None	MGC104186
3	KIF9	ENSG00000088727	ENST00000335044	protein_coding	KNOWN	CCDS2752	16666	2373	790	47269516	47324337	-1	None	MGC104186
3	KIF9	ENSG00000088727	ENST00000352910	protein_coding	KNOWN	None	16666	1704	567	47277006	47324088	-1	None	MGC104186
1	None	ENSG00000272362	ENST00000607759	lincRNA	KNOWN	None	None	None	None	234780412	234783317	1	None	None
12	None	ENSG00000257885	ENST00000546648	processed_pseudogene	KNOWN	None	None	None	None	48562630	48563442	-1	None	None
1	None	ENSG00000225603	ENST00000435000	processed_pseudogene	KNOWN	None	None	None	None	146522379	146524043	1	None	None
11	OR52Z1	ENSG00000176748	ENST00000510471	unprocessed_pseudogene	KNOWN	None	19596	None	None	5198944	5199891	-1	OR52Z1P	None
1	None	ENSG00000234953	ENST00000443939	antisense	KNOWN	None	None	None	None	81979565	82023387	-1	None	None
20	RN7SL197P	ENSG00000264946	ENST00000466981	misc_RNA	KNOWN	None	46213	None	None	48338486	48338782	1	None	None
5	None	ENSG00000223548	ENST00000424244	antisense	KNOWN	None	None	None	None	131339285	131342715	1	None	None
15	SCAMP5	ENSG00000198794	ENST00000568423	nonsense_mediated_decay	KNOWN	None	30386	138	45	75249560	75311618	1	None	MGC24969
15	SCAMP5	ENSG00000198794	ENST00000425597	protein_coding	KNOWN	CCDS45306	30386	708	235	75287873	75313837	1	None	MGC24969
15	SCAMP5	ENSG00000198794	ENST00000562327	protein_coding	KNOWN	None	30386	349	115	75287883	75310266	1	None	MGC24969
15	SCAMP5	ENSG00000198794	ENST00000568018	protein_coding	KNOWN	None	30386	294	97	75287897	75309091	1	None	MGC24969
15	SCAMP5	ENSG00000198794	ENST00000562212	protein_coding	KNOWN	None	30386	732	243	75287905	75313834	1	None	MGC24969
15	SCAMP5	ENSG00000198794	ENST00000565923	processed_transcript	KNOWN	None	30386	None	None	75287911	75310282	1	None	MGC24969
15	SCAMP5	ENSG00000198794	ENST00000567920	protein_coding	KNOWN	None	30386	371	122	75287914	75310288	1	None	MGC24969
15	SCAMP5	ENSG00000198794	ENST00000562765	nonsense_mediated_decay	KNOWN	None	30386	138	45	75287914	75311830	1	None	MGC24969
15	SCAMP5	ENSG00000198794	ENST00000567535	retained_intron	KNOWN	None	30386	None	None	75287925	75305465	1	None	MGC24969
15	SCAMP5	ENSG00000198794	ENST00000566872	protein_coding	KNOWN	None	30386	286	94	75287939	75309083	1	None	MGC24969
15	SCAMP5	ENSG00000198794	ENST00000564491	nonsense_mediated_decay	KNOWN	None	30386	138	45	75287939	75310878	1	None	MGC24969
15	SCAMP5	ENSG00000198794	ENST00000361900	protein_coding	KNOWN	CCDS45306	30386	708	235	75287939	75313836	1	None	MGC24969
15	SCAMP5	ENSG00000198794	ENST00000564141	processed_transcript	KNOWN	None	30386	None	None	75288308	75310287	1	None	MGC24969
15	SCAMP5	ENSG00000198794	ENST00000568119	protein_coding	KNOWN	None	30386	140	45	75288361	75305150	1	None	MGC24969
15	SCAMP5	ENSG00000198794	ENST00000565989	protein_coding	KNOWN	None	30386	208	68	75288364	75309005	1	None	MGC24969
15	SCAMP5	ENSG00000198794	ENST00000564779	protein_coding	KNOWN	None	30386	445	147	75303999	75310808	1	None	MGC24969
15	SCAMP5	ENSG00000198794	ENST00000567529	nonsense_mediated_decay	KNOWN	None	30386	138	45	75304148	75311682	1	None	MGC24969
15	SCAMP5	ENSG00000198794	ENST00000568081	protein_coding	PUTATIVE	None	30386	507	168	75309994	75311402	1	None	MGC24969
15	SCAMP5	ENSG00000198794	ENST00000545456	protein_coding	KNOWN	None	30386	495	164	75287939	75313836	1	None	MGC24969
17	None	ENSG00000265443	ENST00000582841	lincRNA	KNOWN	None	None	None	None	29053323	29054582	-1	None	None
3	FRG2C	ENSG00000172969	ENST00000308062	protein_coding	KNOWN	CCDS43108	33626	849	282	75713481	75716371	1	None	None
3	FRG2C	ENSG00000172969	ENST00000464571	protein_coding	NOVEL	None	33626	846	281	75713481	75716371	1	None	None
1	None	ENSG00000228044	ENST00000417805	lincRNA	KNOWN	None	None	None	None	234782035	234796670	1	None	None
1	None	ENSG00000228044	ENST00000449012	retained_intron	KNOWN	None	None	None	None	234791871	234816868	1	None	None
1	None	ENSG00000228044	ENST00000453568	lincRNA	KNOWN	None	None	None	None	234809842	234818922	1	None	None
3	None	ENSG00000241218	ENST00000464192	processed_pseudogene	KNOWN	None	None	None	None	107046677	107048044	-1	None	None
7	None	ENSG00000199470	ENST00000362600	snoRNA	NOVEL	None	None	None	None	12740383	12740514	-1	None	None
17	None	ENSG00000263603	ENST00000581019	lincRNA	KNOWN	None	None	None	None	29056487	29057409	1	None	None
17	None	ENSG00000263603	ENST00000579639	lincRNA	KNOWN	None	None	None	None	29056961	29058220	1	None	None
2	BTF3P5	ENSG00000233594	ENST00000457252	processed_pseudogene	KNOWN	None	38565	None	None	55662292	55662758	-1	None	None
5	None	ENSG00000231585	ENST00000432558	antisense	KNOWN	None	None	None	None	131347141	131348892	1	None	None
11	None	ENSG00000254905	ENST00000533378	antisense	KNOWN	None	None	None	None	126162817	126164149	-1	None	None
1	None	ENSG00000225982	ENST00000428646	lincRNA	KNOWN	None	None	None	None	182055686	182059247	1	None	None
HSCHR9_2_CTG35	MAMDC2	ENSG00000262783	ENST00000572859	processed_transcript	KNOWN	None	23673	None	None	72659114	72847028	1	None	MGC21981
HSCHR9_2_CTG35	MAMDC2	ENSG00000262783	ENST00000570878	processed_transcript	KNOWN	None	23673	None	None	72789613	72791778	1	None	MGC21981
2	None	ENSG00000224529	ENST00000415505	processed_pseudogene	KNOWN	None	None	None	None	209000118	209002421	-1	None	None
20	SNRPFP1	ENSG00000231878	ENST00000414761	processed_pseudogene	KNOWN	None	16551	None	None	48346128	48346379	-1	None	dJ1041C10.2
1	RNVU1-8	ENSG00000201142	ENST00000364272	snRNA	KNOWN	None	48315	None	None	146551295	146551419	1	None	vU1.8, RNU1-145
9	None	ENSG00000269988	ENST00000602939	antisense	KNOWN	None	None	None	None	130870860	130871604	-1	None	None
1	None	ENSG00000231163	ENST00000425631	antisense	KNOWN	None	None	None	None	34334554	34351059	1	None	None
1	None	ENSG00000231163	ENST00000434181	antisense	KNOWN	None	None	None	None	34335798	34339368	1	None	None
1	None	ENSG00000231163	ENST00000432447	antisense	KNOWN	None	None	None	None	34335827	34339309	1	None	None
1	None	ENSG00000231163	ENST00000414868	antisense	KNOWN	None	None	None	None	34335827	34339412	1	None	None
1	None	ENSG00000231163	ENST00000438719	antisense	KNOWN	None	None	None	None	34336152	34339248	1	None	None
1	None	ENSG00000231163	ENST00000431046	antisense	KNOWN	None	None	None	None	34341067	34351024	1	None	None
5	None	ENSG00000253067	ENST00000517258	snoRNA	NOVEL	None	None	None	None	131415759	131415826	1	None	None
17	None	ENSG00000265791	ENST00000585212	sense_intronic	KNOWN	None	None	None	None	29108511	29109239	-1	None	None
7	RNU7-27P	ENSG00000238750	ENST00000459281	snRNA	KNOWN	None	34123	None	None	127984135	127984196	1	None	U7.27
1	None	ENSG00000230832	ENST00000438469	processed_pseudogene	KNOWN	None	None	None	None	146553887	146555127	-1	None	None
11	None	ENSG00000228915	ENST00000532736	unprocessed_pseudogene	KNOWN	None	None	None	None	71604456	71605479	1	None	None
3	ABHD10	ENSG00000144827	ENST00000491580	nonsense_mediated_decay	KNOWN	None	25656	228	75	111697857	111711118	1	None	FLJ11342
3	ABHD10	ENSG00000144827	ENST00000497293	retained_intron	KNOWN	None	25656	None	None	111697865	111701168	1	None	FLJ11342
3	ABHD10	ENSG00000144827	ENST00000273359	protein_coding	KNOWN	CCDS2963	25656	921	306	111697882	111712210	1	None	FLJ11342
3	ABHD10	ENSG00000144827	ENST00000493784	nonsense_mediated_decay	KNOWN	None	25656	159	52	111697899	111710823	1	None	FLJ11342
3	ABHD10	ENSG00000144827	ENST00000494817	protein_coding	PUTATIVE	None	25656	618	205	111697900	111710387	1	None	FLJ11342
3	ABHD10	ENSG00000144827	ENST00000534857	protein_coding	KNOWN	None	25656	450	149	111697857	111711118	1	None	FLJ11342
1	MED28P8	ENSG00000242598	ENST00000454831	processed_pseudogene	KNOWN	None	45085	None	None	82022806	82023517	-1	None	None
5	None	ENSG00000227616	ENST00000426849	unprocessed_pseudogene	KNOWN	None	None	None	None	131483184	131485252	-1	None	None
7	None	ENSG00000228700	ENST00000449336	processed_pseudogene	KNOWN	None	None	None	None	128073476	128073767	-1	None	None
7	RN7SKP228	ENSG00000222974	ENST00000411042	misc_RNA	KNOWN	None	45952	None	None	12916309	12916571	1	None	None
17	None	ENSG00000266490	ENST00000580085	lincRNA	KNOWN	None	None	None	None	29119390	29119851	1	None	None
1	None	ENSG00000232309	ENST00000412174	lincRNA	KNOWN	None	None	None	None	182096432	182097800	-1	None	None
9	None	ENSG00000234771	ENST00000418747	antisense	KNOWN	None	None	None	None	130873450	130880972	-1	None	None
9	None	ENSG00000234771	ENST00000536815	antisense	KNOWN	None	None	None	None	130875641	130881013	-1	None	None
X	PLP2	ENSG00000102007	ENST00000376322	protein_coding	KNOWN	None	9087	438	145	49028273	49030030	1	None	A4, A4-LSB, MGC126187
X	PLP2	ENSG00000102007	ENST00000376327	protein_coding	KNOWN	CCDS14319	9087	459	152	49028273	49031588	1	None	A4, A4-LSB, MGC126187
7	RNU7-54P	ENSG00000238590	ENST00000459236	snRNA	KNOWN	None	34150	None	None	128083503	128083564	-1	None	U7.54
10	SEPT7P9	ENSG00000120555	ENST00000475691	processed_transcript	KNOWN	None	30810	None	None	38671997	38691521	-1	CDC10L, SEPT7L	bA291L22.2
10	SEPT7P9	ENSG00000120555	ENST00000489259	processed_transcript	KNOWN	None	30810	None	None	38674074	38691844	-1	CDC10L, SEPT7L	bA291L22.2
10	SEPT7P9	ENSG00000120555	ENST00000604116	transcribed_unprocessed_pseudogene	KNOWN	None	30810	None	None	38680911	38688658	-1	CDC10L, SEPT7L	bA291L22.2
10	SEPT7P9	ENSG00000120555	ENST00000328105	unprocessed_pseudogene	KNOWN	None	30810	None	None	38671997	38682040	-1	CDC10L, SEPT7L	bA291L22.2
10	TBATA	ENSG00000166220	ENST00000299290	protein_coding	KNOWN	CCDS7308	23511	1056	351	72530995	72545157	-1	C10orf27	FLJ32820, spatial
10	TBATA	ENSG00000166220	ENST00000394982	processed_transcript	KNOWN	None	23511	None	None	72530996	72532095	-1	C10orf27	FLJ32820, spatial
10	TBATA	ENSG00000166220	ENST00000456372	protein_coding	KNOWN	None	23511	753	250	72533980	72543135	-1	C10orf27	FLJ32820, spatial
10	TBATA	ENSG00000166220	ENST00000545575	protein_coding	KNOWN	None	23511	498	165	72538074	72542388	-1	C10orf27	FLJ32820, spatial
12	None	ENSG00000257848	ENST00000552531	processed_pseudogene	KNOWN	None	None	None	None	48565373	48567136	1	None	None
11	None	ENSG00000224091	ENST00000418080	antisense	KNOWN	None	None	None	None	5226271	5228538	1	None	None
1	None	ENSG00000236676	ENST00000430748	antisense	KNOWN	None	None	None	None	82051626	82091398	-1	None	None
1	None	ENSG00000241475	ENST00000441360	lincRNA	KNOWN	None	None	None	None	234796017	234802850	1	None	None
2	RNU6-775P	ENSG00000238619	ENST00000459318	snRNA	KNOWN	None	47738	None	None	55678140	55678235	-1	None	None
12	None	ENSG00000257392	ENST00000551839	unprocessed_pseudogene	KNOWN	None	None	None	None	108281507	108283663	1	None	None
17	None	ENSG00000242439	ENST00000490847	processed_pseudogene	KNOWN	None	None	None	None	29157919	29158336	1	None	None
1	None	ENSG00000230628	ENST00000442382	lincRNA	KNOWN	None	None	None	None	234805269	234831900	-1	None	None
2	RNU6-221P	ENSG00000238493	ENST00000459541	snRNA	KNOWN	None	47184	None	None	55683242	55683340	-1	None	None
7	RBMX2P4	ENSG00000230879	ENST00000441256	processed_pseudogene	KNOWN	None	39926	None	None	12962170	12962545	-1	None	None
5	None	ENSG00000235775	ENST00000421971	unprocessed_pseudogene	KNOWN	None	None	None	None	131499296	131499458	-1	None	None
7	None	ENSG00000240758	ENST00000493710	processed_transcript	KNOWN	None	None	None	None	128095991	128109251	1	None	None
7	None	ENSG00000240758	ENST00000478818	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	128106617	128109225	1	None	None
2	None	ENSG00000264849	ENST00000583779	miRNA	NOVEL	None	None	None	None	55699880	55699977	1	None	None
5	None	ENSG00000224015	ENST00000457890	lincRNA	KNOWN	None	None	None	None	131514927	131516821	-1	None	None
2	None	ENSG00000233869	ENST00000442177	processed_pseudogene	KNOWN	None	None	None	None	209072859	209073708	1	None	None
1	None	ENSG00000232096	ENST00000419731	processed_pseudogene	KNOWN	None	None	None	None	182151865	182152231	-1	None	None
1	None	ENSG00000237188	ENST00000440377	lincRNA	KNOWN	None	None	None	None	146644350	146646784	1	None	None
1	None	ENSG00000237188	ENST00000606856	processed_transcript	KNOWN	None	None	None	None	146644765	146724314	1	None	None
1	None	ENSG00000237188	ENST00000607149	lincRNA	KNOWN	None	None	None	None	146644951	146683136	1	None	None
1	None	ENSG00000237188	ENST00000606757	lincRNA	KNOWN	None	None	None	None	146644964	146681643	1	None	None
1	None	ENSG00000224037	ENST00000422414	lincRNA	KNOWN	None	None	None	None	234845135	234855723	1	None	None
2	RNU6-634P	ENSG00000239189	ENST00000459134	snRNA	KNOWN	None	47597	None	None	55727086	55727191	1	None	None
3	TFRC	ENSG00000072274	ENST00000426789	protein_coding	PUTATIVE	None	11763	354	117	195754054	195782085	-1	None	CD71, TFR1, p90
3	TFRC	ENSG00000072274	ENST00000420415	protein_coding	PUTATIVE	None	11763	2040	679	195776155	195808965	-1	None	CD71, TFR1, p90
3	TFRC	ENSG00000072274	ENST00000360110	protein_coding	KNOWN	CCDS3312	11763	2283	760	195776155	195809060	-1	None	CD71, TFR1, p90
3	TFRC	ENSG00000072274	ENST00000392396	protein_coding	KNOWN	CCDS3312	11763	2283	760	195776347	195808961	-1	None	CD71, TFR1, p90
3	TFRC	ENSG00000072274	ENST00000463047	retained_intron	KNOWN	None	11763	None	None	195780363	195782432	-1	None	CD71, TFR1, p90
3	TFRC	ENSG00000072274	ENST00000475593	retained_intron	KNOWN	None	11763	None	None	195780380	195789846	-1	None	CD71, TFR1, p90
3	TFRC	ENSG00000072274	ENST00000483983	retained_intron	KNOWN	None	11763	None	None	195781982	195787475	-1	None	CD71, TFR1, p90
3	TFRC	ENSG00000072274	ENST00000463356	processed_transcript	KNOWN	None	11763	None	None	195784833	195787120	-1	None	CD71, TFR1, p90
3	TFRC	ENSG00000072274	ENST00000482479	retained_intron	KNOWN	None	11763	None	None	195785082	195785829	-1	None	CD71, TFR1, p90
3	TFRC	ENSG00000072274	ENST00000465288	processed_transcript	KNOWN	None	11763	None	None	195785154	195790295	-1	None	CD71, TFR1, p90
3	TFRC	ENSG00000072274	ENST00000477148	retained_intron	KNOWN	None	11763	None	None	195785197	195790063	-1	None	CD71, TFR1, p90
3	TFRC	ENSG00000072274	ENST00000464368	retained_intron	KNOWN	None	11763	None	None	195789262	195792421	-1	None	CD71, TFR1, p90
3	TFRC	ENSG00000072274	ENST00000491658	retained_intron	KNOWN	None	11763	None	None	195794478	195796571	-1	None	CD71, TFR1, p90
3	TFRC	ENSG00000072274	ENST00000421258	nonsense_mediated_decay	KNOWN	None	11763	246	81	195798311	195808967	-1	None	CD71, TFR1, p90
3	TFRC	ENSG00000072274	ENST00000464011	processed_transcript	KNOWN	None	11763	None	None	195801068	195808961	-1	None	CD71, TFR1, p90
3	TFRC	ENSG00000072274	ENST00000535031	protein_coding	KNOWN	None	11763	1437	478	195778633	195808962	-1	None	CD71, TFR1, p90
3	TFRC	ENSG00000072274	ENST00000540528	protein_coding	KNOWN	None	11763	42	13	195776156	195808961	-1	None	CD71, TFR1, p90
9	MIR199B	ENSG00000207581	ENST00000384849	miRNA	KNOWN	None	31573	None	None	131007000	131007109	-1	MIRN199B	hsa-mir-199b
20	RNU6-919P	ENSG00000252540	ENST00000516731	snRNA	KNOWN	None	47882	None	None	48411348	48411451	1	None	None
2	None	ENSG00000228111	ENST00000413105	processed_pseudogene	KNOWN	None	None	None	None	209079448	209087349	-1	None	None
2	None	ENSG00000212175	ENST00000390873	snoRNA	NOVEL	None	None	None	None	55792839	55792986	1	None	None
16	MIR3677	ENSG00000266643	ENST00000578964	miRNA	KNOWN	None	38932	None	None	2320714	2320773	1	None	hsa-mir-3677
17	SLC16A6	ENSG00000108932	ENST00000327268	protein_coding	KNOWN	CCDS11675	10927	1572	523	66263167	66287257	-1	None	MCT6, MCT7
17	SLC16A6	ENSG00000108932	ENST00000580666	protein_coding	KNOWN	CCDS11675	10927	1572	523	66264338	66287407	-1	None	MCT6, MCT7
17	SLC16A6	ENSG00000108932	ENST00000583477	protein_coding	NOVEL	None	10927	388	128	66267769	66287408	-1	None	MCT6, MCT7
17	SLC16A6	ENSG00000108932	ENST00000582867	protein_coding	KNOWN	None	10927	255	84	66270189	66287323	-1	None	MCT6, MCT7
1	None	ENSG00000228918	ENST00000420760	lincRNA	KNOWN	None	None	None	None	182159255	182173160	-1	None	None
1	None	ENSG00000228918	ENST00000449842	lincRNA	KNOWN	None	None	None	None	182173080	182283196	-1	None	None
1	None	ENSG00000234683	ENST00000438968	processed_pseudogene	KNOWN	None	None	None	None	82061842	82062191	-1	None	None
9	MIR3154	ENSG00000264823	ENST00000577829	miRNA	KNOWN	None	38176	None	None	131007226	131007309	-1	None	hsa-mir-3154
2	RN7SKP208	ENSG00000202344	ENST00000365474	misc_RNA	KNOWN	None	45932	None	None	56178789	56179149	-1	None	None
11	None	ENSG00000254593	ENST00000526217	unprocessed_pseudogene	KNOWN	None	None	None	None	71614240	71615127	1	None	None
1	None	ENSG00000227630	ENST00000437601	lincRNA	KNOWN	None	None	None	None	234859789	234867390	1	None	None
17	None	ENSG00000266202	ENST00000582441	protein_coding	PUTATIVE	None	None	480	159	26125832	26220391	-1	None	None
2	None	ENSG00000263524	ENST00000582859	miRNA	NOVEL	None	None	None	None	209098168	209098229	-1	None	None
16	MIR4717	ENSG00000264004	ENST00000584656	miRNA	KNOWN	None	41571	None	None	2324621	2324692	1	None	hsa-mir-4717
9	None	ENSG00000221297	ENST00000408370	miRNA	NOVEL	None	None	None	None	131019986	131020068	-1	None	None
2	None	ENSG00000272180	ENST00000606639	lincRNA	KNOWN	None	None	None	None	56179293	56408787	1	None	None
10	PCDH15	ENSG00000150275	ENST00000373965	protein_coding	NOVEL	None	14674	5055	1684	55562531	56561051	-1	USH1F, DFNB23	CDHR15
10	PCDH15	ENSG00000150275	ENST00000495484	processed_transcript	KNOWN	None	14674	None	None	55566085	56561051	-1	USH1F, DFNB23	CDHR15
10	PCDH15	ENSG00000150275	ENST00000476074	retained_intron	KNOWN	None	14674	None	None	55566746	55578144	-1	USH1F, DFNB23	CDHR15
10	PCDH15	ENSG00000150275	ENST00000395438	protein_coding	NOVEL	CCDS44400	14674	4620	1539	55568211	56561051	-1	USH1F, DFNB23	CDHR15
10	PCDH15	ENSG00000150275	ENST00000409834	protein_coding	PUTATIVE	None	14674	3453	1150	55568211	56561051	-1	USH1F, DFNB23	CDHR15
10	PCDH15	ENSG00000150275	ENST00000414367	nonsense_mediated_decay	KNOWN	None	14674	990	329	55568343	56561051	-1	USH1F, DFNB23	CDHR15
10	PCDH15	ENSG00000150275	ENST00000395445	protein_coding	NOVEL	None	14674	5358	1785	55568343	56561051	-1	USH1F, DFNB23	CDHR15
10	PCDH15	ENSG00000150275	ENST00000395446	protein_coding	NOVEL	None	14674	2946	981	55568343	56561051	-1	USH1F, DFNB23	CDHR15
10	PCDH15	ENSG00000150275	ENST00000395442	protein_coding	NOVEL	None	14674	1953	650	55568343	56561051	-1	USH1F, DFNB23	CDHR15
10	PCDH15	ENSG00000150275	ENST00000395440	protein_coding	NOVEL	None	14674	2160	719	55568343	56561051	-1	USH1F, DFNB23	CDHR15
10	PCDH15	ENSG00000150275	ENST00000361849	protein_coding	NOVEL	CCDS44404	14674	5874	1957	55580930	56561051	-1	USH1F, DFNB23	CDHR15
10	PCDH15	ENSG00000150275	ENST00000395433	protein_coding	NOVEL	CCDS44401	14674	5799	1932	55580930	56561051	-1	USH1F, DFNB23	CDHR15
10	PCDH15	ENSG00000150275	ENST00000373957	protein_coding	NOVEL	None	14674	2430	809	55580939	57387702	-1	USH1F, DFNB23	CDHR15
10	PCDH15	ENSG00000150275	ENST00000463095	processed_transcript	KNOWN	None	14674	None	None	55581036	55666977	-1	USH1F, DFNB23	CDHR15
10	PCDH15	ENSG00000150275	ENST00000320301	protein_coding	KNOWN	CCDS7248	14674	5868	1955	55581036	56561051	-1	USH1F, DFNB23	CDHR15
10	PCDH15	ENSG00000150275	ENST00000395430	protein_coding	NOVEL	CCDS44403	14674	5859	1952	55581036	56561051	-1	USH1F, DFNB23	CDHR15
10	PCDH15	ENSG00000150275	ENST00000448885	nonsense_mediated_decay	KNOWN	None	14674	1965	654	55581036	56561051	-1	USH1F, DFNB23	CDHR15
10	PCDH15	ENSG00000150275	ENST00000373956	nonsense_mediated_decay	KNOWN	None	14674	165	54	55581036	56561051	-1	USH1F, DFNB23	CDHR15
10	PCDH15	ENSG00000150275	ENST00000373955	protein_coding	NOVEL	None	14674	2886	961	55754339	56560948	-1	USH1F, DFNB23	CDHR15
10	PCDH15	ENSG00000150275	ENST00000458638	protein_coding	KNOWN	None	14674	277	91	56138583	57079374	-1	USH1F, DFNB23	CDHR15
10	PCDH15	ENSG00000150275	ENST00000414778	protein_coding	KNOWN	None	14674	5046	1681	55562531	56561051	-1	USH1F, DFNB23	CDHR15
10	PCDH15	ENSG00000150275	ENST00000395432	protein_coding	KNOWN	CCDS44402	14674	5748	1915	55580860	56561051	-1	USH1F, DFNB23	CDHR15
10	PCDH15	ENSG00000150275	ENST00000437009	protein_coding	KNOWN	None	14674	5661	1886	55581618	56561051	-1	USH1F, DFNB23	CDHR15
14	KTN1-AS1	ENSG00000186615	ENST00000554558	antisense	KNOWN	None	19842	None	None	55965996	56046810	-1	C14orf33	None
14	KTN1-AS1	ENSG00000186615	ENST00000412224	antisense	KNOWN	None	19842	None	None	56024690	56046828	-1	C14orf33	None
14	KTN1-AS1	ENSG00000186615	ENST00000335142	antisense	KNOWN	None	19842	None	None	56042904	56046792	-1	C14orf33	None
14	KTN1-AS1	ENSG00000186615	ENST00000535211	antisense	KNOWN	None	19842	None	None	56042905	56046814	-1	C14orf33	None
10	None	ENSG00000252537	ENST00000516728	snoRNA	NOVEL	None	None	None	None	16047807	16047922	1	None	None
20	RNU7-72P	ENSG00000252123	ENST00000516314	snRNA	KNOWN	None	34168	None	None	48444529	48444590	1	None	U7.72
6	C6orf222	ENSG00000189325	ENST00000437635	protein_coding	KNOWN	CCDS34439	33769	1959	652	36283534	36304662	-1	None	DKFZp779B1540
9	TMSB4XP4	ENSG00000223551	ENST00000323496	processed_pseudogene	KNOWN	None	11886	None	None	131104432	131105049	1	TMSL4	None
2	IDH1-AS1	ENSG00000231908	ENST00000440574	antisense	KNOWN	None	40292	None	None	209119971	209120905	1	None	None
2	IDH1-AS1	ENSG00000231908	ENST00000448588	antisense	KNOWN	None	40292	None	None	209120124	209120892	1	None	None
X	IL1RAPL1	ENSG00000169306	ENST00000378993	protein_coding	KNOWN	CCDS14218	5996	2091	696	28605516	29974840	1	IL1RAPL, MRX34, MRX21, MRX10	OPHN4, TIGIRR-2, IL1R8
X	IL1RAPL1	ENSG00000169306	ENST00000302196	protein_coding	KNOWN	CCDS14218	5996	2091	696	28807461	29973937	1	IL1RAPL, MRX34, MRX21, MRX10	OPHN4, TIGIRR-2, IL1R8
5	None	ENSG00000250806	ENST00000511592	lincRNA	KNOWN	None	None	None	None	99989816	99993674	-1	None	None
HSCHR6_MHC_MCF	EHMT2	ENSG00000238134	ENST00000495830	processed_transcript	KNOWN	None	14129	None	None	31924012	31929059	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_MCF	EHMT2	ENSG00000238134	ENST00000478629	retained_intron	KNOWN	None	14129	None	None	31924012	31929394	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_MCF	EHMT2	ENSG00000238134	ENST00000478205	retained_intron	KNOWN	None	14129	None	None	31924012	31930690	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_MCF	EHMT2	ENSG00000238134	ENST00000467139	processed_transcript	KNOWN	None	14129	None	None	31924012	31940764	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_MCF	EHMT2	ENSG00000238134	ENST00000446303	protein_coding	KNOWN	None	14129	3804	1267	31924012	31941462	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_MCF	EHMT2	ENSG00000238134	ENST00000427405	protein_coding	KNOWN	None	14129	3702	1233	31924012	31941482	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_MCF	EHMT2	ENSG00000238134	ENST00000454705	protein_coding	KNOWN	None	14129	3531	1176	31924012	31941937	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_MCF	EHMT2	ENSG00000238134	ENST00000420336	protein_coding	KNOWN	None	14129	3633	1210	31924012	31941944	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_MCF	EHMT2	ENSG00000238134	ENST00000424396	protein_coding	KNOWN	None	14129	894	297	31928072	31931317	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_MCF	EHMT2	ENSG00000238134	ENST00000484911	retained_intron	KNOWN	None	14129	None	None	31928926	31931372	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_MCF	EHMT2	ENSG00000238134	ENST00000462925	retained_intron	KNOWN	None	14129	None	None	31936675	31937443	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_MCF	EHMT2	ENSG00000238134	ENST00000475991	retained_intron	KNOWN	None	14129	None	None	31939661	31941947	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_MCF	EHMT2	ENSG00000238134	ENST00000546877	protein_coding	KNOWN	None	14129	3096	1031	31924018	31937642	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
11	KIRREL3-AS1	ENSG00000257271	ENST00000548204	antisense	KNOWN	None	42655	None	None	126413842	126480843	1	None	None
2	None	ENSG00000226702	ENST00000446139	lincRNA	KNOWN	None	None	None	None	56190326	56274461	-1	None	None
5	P4HA2-AS1	ENSG00000237714	ENST00000417667	antisense	KNOWN	None	43560	None	None	131520569	131528501	1	None	None
2	RNU6-1275P	ENSG00000212389	ENST00000391087	snRNA	KNOWN	None	48238	None	None	148634991	148635097	1	None	None
1	RNY4P16	ENSG00000201638	ENST00000364768	misc_RNA	KNOWN	None	34066	None	None	234973720	234973820	1	None	None
1	RN7SL668P	ENSG00000239690	ENST00000493933	misc_RNA	KNOWN	None	46684	None	None	235039933	235040233	1	None	None
1	RNA5SP42	ENSG00000201148	ENST00000364278	rRNA	KNOWN	None	42818	None	None	34578550	34578664	1	RN5S42	None
2	None	ENSG00000223911	ENST00000402410	antisense	KNOWN	None	None	None	None	148656970	148660525	-1	None	None
16	None	ENSG00000243445	ENST00000468708	processed_pseudogene	KNOWN	None	None	None	None	2382314	2382733	-1	None	None
1	RNU6-152P	ENSG00000206764	ENST00000384037	snRNA	KNOWN	None	47115	None	None	182296203	182296309	1	None	None
1	None	ENSG00000271721	ENST00000606152	antisense	KNOWN	None	None	None	None	146647181	146649319	1	None	None
2	MIR217	ENSG00000207548	ENST00000384817	miRNA	KNOWN	None	31594	None	None	56210102	56210211	-1	MIRN217	hsa-mir-217, miR-217
14	None	ENSG00000256500	ENST00000472726	protein_coding	PUTATIVE	None	None	2199	732	104029299	104152261	1	None	None
1	ST13P20	ENSG00000215875	ENST00000447996	transcribed_processed_pseudogene	KNOWN	None	38863	None	None	82187378	82188753	1	None	None
7	None	ENSG00000229618	ENST00000443947	lincRNA	KNOWN	None	None	None	None	13141016	13142014	1	None	None
7	None	ENSG00000229618	ENST00000411542	lincRNA	KNOWN	None	None	None	None	13141097	13743774	1	None	None
3	None	ENSG00000220989	ENST00000408062	miRNA	NOVEL	None	None	None	None	107084029	107084134	1	None	None
1	None	ENSG00000237520	ENST00000423963	lincRNA	KNOWN	None	None	None	None	235092978	235095736	1	None	None
1	None	ENSG00000221053	ENST00000408126	miRNA	NOVEL	None	None	None	None	34641467	34641550	-1	None	None
7	SOSTDC1	ENSG00000171243	ENST00000307068	protein_coding	KNOWN	CCDS5360	21748	621	206	16501106	16505474	-1	None	DKFZp564D206, USAG1
7	SOSTDC1	ENSG00000171243	ENST00000396652	protein_coding	NOVEL	None	21748	693	230	16501168	16570205	-1	None	DKFZp564D206, USAG1
1	None	ENSG00000228664	ENST00000451731	processed_pseudogene	KNOWN	None	None	None	None	182297632	182298142	1	None	None
20	None	ENSG00000237788	ENST00000429893	processed_pseudogene	KNOWN	None	None	None	None	48445662	48447622	1	None	None
1	PDIA3P	ENSG00000180867	ENST00000471856	processed_pseudogene	KNOWN	None	4607	None	None	146649692	146651201	1	None	GRP58P
1	PDIA3P	ENSG00000180867	ENST00000544222	pseudogene	NOVEL	None	4607	None	None	146650371	146651206	1	None	GRP58P
2	MIR216A	ENSG00000207798	ENST00000385063	miRNA	KNOWN	None	31593	None	None	56216085	56216194	-1	MIRN216, MIRN216A	hsa-mir-216, hsa-mir-216a
2	None	ENSG00000265049	ENST00000584553	miRNA	NOVEL	None	None	None	None	148698549	148698640	-1	None	None
1	None	ENSG00000270241	ENST00000604298	processed_pseudogene	KNOWN	None	None	None	None	34742460	34742893	-1	None	None
X	None	ENSG00000270413	ENST00000603215	processed_pseudogene	KNOWN	None	None	None	None	114134922	114135137	-1	None	None
5	RN7SKP62	ENSG00000207269	ENST00000384539	misc_RNA	KNOWN	None	45786	None	None	100068762	100069090	1	None	None
2	NCK2	ENSG00000071051	ENST00000233154	protein_coding	KNOWN	CCDS33266	7665	1143	380	106361354	106510730	1	None	NCKbeta
2	NCK2	ENSG00000071051	ENST00000393348	protein_coding	KNOWN	None	7665	433	143	106362188	106497990	1	None	NCKbeta
2	NCK2	ENSG00000071051	ENST00000522586	protein_coding	KNOWN	None	7665	252	83	106433015	106509632	1	None	NCKbeta
2	NCK2	ENSG00000071051	ENST00000425756	protein_coding	KNOWN	None	7665	331	109	106468204	106497888	1	None	NCKbeta
2	NCK2	ENSG00000071051	ENST00000393349	protein_coding	KNOWN	CCDS33266	7665	1143	380	106468238	106510728	1	None	NCKbeta
2	NCK2	ENSG00000071051	ENST00000451463	protein_coding	KNOWN	None	7665	252	83	106361520	106510730	1	None	NCKbeta
1	None	ENSG00000269753	ENST00000600779	protein_coding	NOVEL	None	None	462	153	2258581	2259042	1	None	None
19	RTN2	ENSG00000125744	ENST00000245923	protein_coding	KNOWN	CCDS12665	10468	1638	545	45988547	46000319	-1	SPG12	NSP2, NSPL1
19	RTN2	ENSG00000125744	ENST00000430715	protein_coding	KNOWN	CCDS46114	10468	618	205	45988552	45996525	-1	SPG12	NSP2, NSPL1
19	RTN2	ENSG00000125744	ENST00000587597	nonsense_mediated_decay	KNOWN	None	10468	1386	461	45988552	46000313	-1	SPG12	NSP2, NSPL1
19	RTN2	ENSG00000125744	ENST00000590526	protein_coding	PUTATIVE	None	10468	816	271	45988552	46000313	-1	SPG12	NSP2, NSPL1
19	RTN2	ENSG00000125744	ENST00000344680	protein_coding	KNOWN	CCDS12666	10468	1419	472	45988552	46000313	-1	SPG12	NSP2, NSPL1
19	RTN2	ENSG00000125744	ENST00000591286	nonsense_mediated_decay	KNOWN	None	10468	831	276	45988552	46000313	-1	SPG12	NSP2, NSPL1
19	RTN2	ENSG00000125744	ENST00000588036	processed_transcript	KNOWN	None	10468	None	None	45988896	45996496	-1	SPG12	NSP2, NSPL1
19	RTN2	ENSG00000125744	ENST00000593187	retained_intron	KNOWN	None	10468	None	None	45988907	45991827	-1	SPG12	NSP2, NSPL1
19	RTN2	ENSG00000125744	ENST00000590746	processed_transcript	KNOWN	None	10468	None	None	45988940	45996478	-1	SPG12	NSP2, NSPL1
19	RTN2	ENSG00000125744	ENST00000593129	retained_intron	KNOWN	None	10468	None	None	45988954	45992361	-1	SPG12	NSP2, NSPL1
19	RTN2	ENSG00000125744	ENST00000591789	retained_intron	KNOWN	None	10468	None	None	45989193	45992231	-1	SPG12	NSP2, NSPL1
19	RTN2	ENSG00000125744	ENST00000589628	retained_intron	KNOWN	None	10468	None	None	45992018	45992811	-1	SPG12	NSP2, NSPL1
19	RTN2	ENSG00000125744	ENST00000592064	retained_intron	KNOWN	None	10468	None	None	45997144	45998163	-1	SPG12	NSP2, NSPL1
19	RTN2	ENSG00000125744	ENST00000589384	processed_transcript	KNOWN	None	10468	None	None	45997813	45999941	-1	SPG12	NSP2, NSPL1
2	None	ENSG00000212181	ENST00000390879	snoRNA	NOVEL	None	None	None	None	149018143	149018277	-1	None	None
2	MIR216B	ENSG00000211520	ENST00000390186	miRNA	KNOWN	None	33668	None	None	56227849	56227930	-1	MIRN216B	hsa-mir-216b
13	FAM124A	ENSG00000150510	ENST00000322475	protein_coding	NOVEL	CCDS55900	26413	1641	546	51796503	51858377	1	None	FLJ30707
13	FAM124A	ENSG00000150510	ENST00000280057	protein_coding	KNOWN	CCDS9427	26413	1749	582	51796507	51855616	1	None	FLJ30707
13	FAM124A	ENSG00000150510	ENST00000497449	processed_transcript	KNOWN	None	26413	None	None	51796513	51801565	1	None	FLJ30707
5	MIR548P	ENSG00000221263	ENST00000408336	miRNA	KNOWN	None	35351	None	None	100152186	100152269	-1	MIRN548P	hsa-mir-548p
2	None	ENSG00000228380	ENST00000429485	processed_pseudogene	KNOWN	None	None	None	None	209134067	209134681	-1	None	None
8	RNU6-656P	ENSG00000252594	ENST00000516785	snRNA	KNOWN	None	47619	None	None	47742672	47742778	1	None	None
12	None	ENSG00000257426	ENST00000549599	unprocessed_pseudogene	KNOWN	None	None	None	None	108293415	108293592	1	None	None
1	None	ENSG00000231684	ENST00000423841	processed_pseudogene	KNOWN	None	None	None	None	182305136	182305469	1	None	None
1	None	ENSG00000231684	ENST00000445515	processed_pseudogene	KNOWN	None	None	None	None	182305137	182305475	1	None	None
17	None	ENSG00000265334	ENST00000580873	antisense	KNOWN	None	None	None	None	29161343	29190046	-1	None	None
2	None	ENSG00000224007	ENST00000415008	processed_pseudogene	KNOWN	None	None	None	None	149053225	149054248	-1	None	None
2	None	ENSG00000229805	ENST00000451034	lincRNA	KNOWN	None	None	None	None	56304552	56317517	-1	None	None
1	None	ENSG00000238005	ENST00000418557	lincRNA	KNOWN	None	None	None	None	235093089	235099746	-1	None	None
1	None	ENSG00000238005	ENST00000423988	lincRNA	KNOWN	None	None	None	None	235095408	235099574	-1	None	None
1	None	ENSG00000238005	ENST00000423175	lincRNA	KNOWN	None	None	None	None	235095410	235098935	-1	None	None
1	None	ENSG00000238005	ENST00000451766	lincRNA	KNOWN	None	None	None	None	235095413	235105809	-1	None	None
1	None	ENSG00000238005	ENST00000458044	lincRNA	KNOWN	None	None	None	None	235097123	235098873	-1	None	None
11	RNU6-1292P	ENSG00000206583	ENST00000383856	snRNA	KNOWN	None	48255	None	None	85220982	85221088	1	None	None
8	None	ENSG00000254178	ENST00000520386	lincRNA	KNOWN	None	None	None	None	25691645	25697651	-1	None	None
14	None	ENSG00000258718	ENST00000556819	lincRNA	KNOWN	None	None	None	None	82194124	82206616	-1	None	None
14	None	ENSG00000258718	ENST00000556144	lincRNA	KNOWN	None	None	None	None	82200956	82209482	-1	None	None
3	NSUN3	ENSG00000178694	ENST00000314622	protein_coding	KNOWN	CCDS2927	26208	1023	340	93781760	93847389	1	None	FLJ22609
3	NSUN3	ENSG00000178694	ENST00000477077	processed_transcript	KNOWN	None	26208	None	None	93781824	93783247	1	None	FLJ22609
3	NSUN3	ENSG00000178694	ENST00000483378	nonsense_mediated_decay	KNOWN	None	26208	234	77	93781824	93813938	1	None	FLJ22609
3	NSUN3	ENSG00000178694	ENST00000476588	retained_intron	KNOWN	None	26208	None	None	93781834	93804226	1	None	FLJ22609
3	NSUN3	ENSG00000178694	ENST00000485793	processed_transcript	KNOWN	None	26208	None	None	93781842	93801017	1	None	FLJ22609
3	NSUN3	ENSG00000178694	ENST00000461625	processed_transcript	KNOWN	None	26208	None	None	93781855	93783362	1	None	FLJ22609
3	NSUN3	ENSG00000178694	ENST00000468555	processed_transcript	KNOWN	None	26208	None	None	93781905	93803020	1	None	FLJ22609
3	NSUN3	ENSG00000178694	ENST00000494128	processed_transcript	PUTATIVE	None	26208	None	None	93795186	93800665	1	None	FLJ22609
3	None	ENSG00000221413	ENST00000408486	miRNA	NOVEL	None	None	None	None	127383547	127383653	1	None	None
12	None	ENSG00000256597	ENST00000536342	lincRNA	KNOWN	None	None	None	None	128366162	128367536	1	None	None
1	CCT8P1	ENSG00000226015	ENST00000413611	processed_pseudogene	KNOWN	None	35144	None	None	146674857	146676513	-1	None	None
1	MIR552	ENSG00000207941	ENST00000385206	miRNA	KNOWN	None	32808	None	None	35135200	35135295	-1	MIRN552	hsa-mir-552
2	None	ENSG00000232238	ENST00000445109	processed_pseudogene	KNOWN	None	None	None	None	149352727	149352897	1	None	None
20	FAM83C	ENSG00000125998	ENST00000374408	protein_coding	KNOWN	CCDS13251	16121	2244	747	33873534	33880204	-1	C20orf128	dJ614O4.7
X	None	ENSG00000232183	ENST00000411940	antisense	KNOWN	None	None	None	None	137709238	137709504	1	None	None
2	None	ENSG00000271894	ENST00000607540	processed_transcript	KNOWN	None	None	None	None	56374765	56613306	1	None	None
11	None	ENSG00000255005	ENST00000531414	antisense	KNOWN	None	None	None	None	85627545	85634725	-1	None	None
1	None	ENSG00000233290	ENST00000420549	lincRNA	KNOWN	None	None	None	None	82680904	82726817	-1	None	None
17	RNU6-298P	ENSG00000212190	ENST00000390888	snRNA	KNOWN	None	47261	None	None	29188861	29188956	1	None	None
17	PYY	ENSG00000131096	ENST00000360085	protein_coding	KNOWN	CCDS32662	9748	294	97	42030106	42081837	-1	None	PYY1
17	PYY	ENSG00000131096	ENST00000592796	protein_coding	PUTATIVE	None	9748	273	90	42030257	42031308	-1	None	PYY1
1	None	ENSG00000255811	ENST00000542839	antisense	KNOWN	None	None	None	None	35227027	35253698	-1	None	None
17	None	ENSG00000263531	ENST00000584157	antisense	KNOWN	None	None	None	None	29190939	29191958	-1	None	None
HSCHR6_MHC_APD	DDX39B	ENSG00000237889	ENST00000462334	retained_intron	KNOWN	None	13917	None	None	31509287	31510812	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_APD	DDX39B	ENSG00000237889	ENST00000493350	nonsense_mediated_decay	KNOWN	None	13917	424	140	31509287	31514543	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_APD	DDX39B	ENSG00000237889	ENST00000448800	protein_coding	KNOWN	None	13917	986	327	31509287	31518252	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_APD	DDX39B	ENSG00000237889	ENST00000426766	protein_coding	KNOWN	None	13917	986	327	31509287	31518252	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_APD	DDX39B	ENSG00000237889	ENST00000420337	protein_coding	KNOWN	None	13917	986	327	31509287	31518252	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_APD	DDX39B	ENSG00000237889	ENST00000487410	retained_intron	KNOWN	None	13917	None	None	31509287	31518252	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_APD	DDX39B	ENSG00000237889	ENST00000437943	protein_coding	KNOWN	None	13917	977	324	31509287	31518252	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_APD	DDX39B	ENSG00000237889	ENST00000463430	processed_transcript	PUTATIVE	None	13917	None	None	31509311	31510003	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_APD	DDX39B	ENSG00000237889	ENST00000412386	protein_coding	KNOWN	None	13917	561	186	31509847	31513579	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_APD	DDX39B	ENSG00000237889	ENST00000460622	retained_intron	KNOWN	None	13917	None	None	31510184	31510739	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_APD	DDX39B	ENSG00000237889	ENST00000467581	processed_transcript	KNOWN	None	13917	None	None	31510342	31515751	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_APD	DDX39B	ENSG00000237889	ENST00000432549	protein_coding	KNOWN	None	13917	539	178	31510370	31515751	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_APD	DDX39B	ENSG00000237889	ENST00000471062	retained_intron	KNOWN	None	13917	None	None	31511481	31518252	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_APD	DDX39B	ENSG00000237889	ENST00000416325	protein_coding	KNOWN	None	13917	566	187	31511848	31518252	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_APD	DDX39B	ENSG00000237889	ENST00000455806	protein_coding	KNOWN	None	13917	413	136	31514456	31518252	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_APD	DDX39B	ENSG00000237889	ENST00000427927	protein_coding	KNOWN	None	13917	406	134	31514463	31518252	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_APD	DDX39B	ENSG00000237889	ENST00000427652	protein_coding	KNOWN	None	13917	394	130	31514475	31518252	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_APD	DDX39B	ENSG00000237889	ENST00000457121	protein_coding	KNOWN	None	13917	290	95	31515677	31518252	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_APD	DDX39B	ENSG00000237889	ENST00000433789	protein_coding	KNOWN	None	13917	192	63	31515691	31518252	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_APD	DDX39B	ENSG00000237889	ENST00000433987	protein_coding	KNOWN	None	13917	75	24	31517887	31518252	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_APD	DDX39B	ENSG00000237889	ENST00000434740	protein_coding	KNOWN	None	13917	63	20	31517899	31518252	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_APD	DDX39B	ENSG00000237889	ENST00000451465	protein_coding	KNOWN	None	13917	96	31	31517950	31518252	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_APD	DDX39B	ENSG00000237889	ENST00000552820	protein_coding	KNOWN	None	13917	552	183	31509307	31511976	-1	BAT1	D6S81E, UAP56
3	LINC00635	ENSG00000241469	ENST00000464359	lincRNA	KNOWN	None	27184	None	None	107560150	107596915	-1	None	None
3	LINC00635	ENSG00000241469	ENST00000488852	lincRNA	KNOWN	None	27184	None	None	107560509	107596923	-1	None	None
3	LINC00635	ENSG00000241469	ENST00000497811	lincRNA	KNOWN	None	27184	None	None	107560952	107574076	-1	None	None
3	LINC00635	ENSG00000241469	ENST00000461121	lincRNA	KNOWN	None	27184	None	None	107560952	107574076	-1	None	None
3	LINC00635	ENSG00000241469	ENST00000464823	lincRNA	KNOWN	None	27184	None	None	107572727	107596915	-1	None	None
3	LINC00635	ENSG00000241469	ENST00000466155	lincRNA	KNOWN	None	27184	None	None	107572845	107596915	-1	None	None
3	LINC00635	ENSG00000241469	ENST00000601930	lincRNA	KNOWN	None	27184	None	None	107574011	107591873	-1	None	None
3	LINC00635	ENSG00000241469	ENST00000596110	lincRNA	KNOWN	None	27184	None	None	107574011	107596333	-1	None	None
3	LINC00635	ENSG00000241469	ENST00000601385	lincRNA	KNOWN	None	27184	None	None	107574011	107596924	-1	None	None
3	LINC00635	ENSG00000241469	ENST00000600749	lincRNA	KNOWN	None	27184	None	None	107574011	107596940	-1	None	None
3	LINC00635	ENSG00000241469	ENST00000475362	lincRNA	KNOWN	None	27184	None	None	107575934	107596926	-1	None	None
3	LINC00635	ENSG00000241469	ENST00000600240	lincRNA	KNOWN	None	27184	None	None	107575968	107596926	-1	None	None
3	LINC00635	ENSG00000241469	ENST00000473528	lincRNA	KNOWN	None	27184	None	None	107591815	107596915	-1	None	None
8	None	ENSG00000254118	ENST00000524239	processed_pseudogene	KNOWN	None	None	None	None	47749200	47750328	-1	None	None
15	UBE2CP4	ENSG00000259179	ENST00000561405	processed_pseudogene	KNOWN	None	43553	None	None	31712331	31712865	1	None	None
3	RNA5SP139	ENSG00000201210	ENST00000364340	rRNA	KNOWN	None	43039	None	None	127682451	127682567	1	RN5S139	None
2	None	ENSG00000233251	ENST00000596663	antisense	KNOWN	None	None	None	None	56400669	56412043	-1	None	None
2	None	ENSG00000233251	ENST00000432793	antisense	KNOWN	None	None	None	None	56401875	56412905	-1	None	None
2	None	ENSG00000233251	ENST00000447423	antisense	KNOWN	None	None	None	None	56402686	56412048	-1	None	None
16	ABCA17P	ENSG00000238098	ENST00000512848	processed_transcript	KNOWN	None	32972	None	None	2389151	2411678	1	None	None
16	ABCA17P	ENSG00000238098	ENST00000469908	processed_transcript	KNOWN	None	32972	None	None	2390923	2476700	1	None	None
16	ABCA17P	ENSG00000238098	ENST00000482286	retained_intron	KNOWN	None	32972	None	None	2390972	2412667	1	None	None
16	ABCA17P	ENSG00000238098	ENST00000505660	processed_transcript	KNOWN	None	32972	None	None	2391120	2395934	1	None	None
16	ABCA17P	ENSG00000238098	ENST00000466730	processed_transcript	KNOWN	None	32972	None	None	2392980	2411513	1	None	None
16	ABCA17P	ENSG00000238098	ENST00000494925	unitary_pseudogene	KNOWN	None	32972	None	None	2411145	2475686	1	None	None
17	None	ENSG00000230113	ENST00000442757	antisense	KNOWN	None	None	None	None	29283298	29283979	-1	None	None
1	LINC00272	ENSG00000203729	ENST00000367563	lincRNA	KNOWN	None	26898	None	None	182376756	182383950	1	C1orf120, NCRNA00272	RP1-223H12.3
1	None	ENSG00000230817	ENST00000452901	lincRNA	KNOWN	None	None	None	None	83368866	83632498	1	None	None
1	None	ENSG00000230817	ENST00000419658	lincRNA	KNOWN	None	None	None	None	83373245	83463244	1	None	None
1	None	ENSG00000216162	ENST00000401343	miRNA	NOVEL	None	None	None	None	35244162	35244245	-1	None	None
11	SLC25A1P1	ENSG00000254479	ENST00000528351	processed_pseudogene	KNOWN	None	43845	None	None	85645780	85646706	1	None	None
2	RNU2-9P	ENSG00000222126	ENST00000410194	snRNA	KNOWN	None	48502	None	None	149583260	149583404	-1	None	None
7	AMPH	ENSG00000078053	ENST00000325590	protein_coding	KNOWN	CCDS47574	471	1962	653	38423305	38671020	-1	None	None
7	AMPH	ENSG00000078053	ENST00000356264	protein_coding	KNOWN	CCDS5456	471	2088	695	38423305	38671167	-1	None	None
7	AMPH	ENSG00000078053	ENST00000441628	protein_coding	NOVEL	None	471	1735	577	38424419	38502713	-1	None	None
7	AMPH	ENSG00000078053	ENST00000460887	processed_transcript	KNOWN	None	471	None	None	38429449	38432319	-1	None	None
7	AMPH	ENSG00000078053	ENST00000475581	retained_intron	KNOWN	None	471	None	None	38431492	38457631	-1	None	None
7	AMPH	ENSG00000078053	ENST00000471913	processed_transcript	KNOWN	None	471	None	None	38431589	38468885	-1	None	None
7	AMPH	ENSG00000078053	ENST00000467580	processed_transcript	KNOWN	None	471	None	None	38431589	38468885	-1	None	None
7	AMPH	ENSG00000078053	ENST00000450124	nonsense_mediated_decay	KNOWN	None	471	338	111	38431589	38468885	-1	None	None
7	AMPH	ENSG00000078053	ENST00000462072	retained_intron	KNOWN	None	471	None	None	38433670	38469655	-1	None	None
7	AMPH	ENSG00000078053	ENST00000428293	protein_coding	KNOWN	None	471	1962	653	38423307	38671020	-1	None	None
18	CPLX4	ENSG00000166569	ENST00000587244	protein_coding	PUTATIVE	None	24330	294	97	56942388	56985776	-1	None	CPX-IV
18	CPLX4	ENSG00000166569	ENST00000299721	protein_coding	KNOWN	CCDS11973	24330	483	160	56962634	56985881	-1	None	CPX-IV
17	RN7SL138P	ENSG00000266274	ENST00000577405	misc_RNA	KNOWN	None	46154	None	None	29286583	29286867	1	None	None
1	None	ENSG00000230163	ENST00000429293	antisense	KNOWN	None	None	None	None	35316295	35317156	1	None	None
16	ZNF821	ENSG00000102984	ENST00000568961	nonsense_mediated_decay	KNOWN	None	28043	189	62	71893583	71918075	-1	None	None
16	ZNF821	ENSG00000102984	ENST00000566987	nonsense_mediated_decay	KNOWN	None	28043	189	62	71893588	71914379	-1	None	None
16	ZNF821	ENSG00000102984	ENST00000446827	protein_coding	KNOWN	CCDS32481	28043	1113	370	71893588	71917412	-1	None	None
16	ZNF821	ENSG00000102984	ENST00000564134	protein_coding	NOVEL	None	28043	417	138	71893679	71918107	-1	None	None
16	ZNF821	ENSG00000102984	ENST00000565601	protein_coding	KNOWN	CCDS56006	28043	1239	412	71893710	71917444	-1	None	None
16	ZNF821	ENSG00000102984	ENST00000562808	nonsense_mediated_decay	KNOWN	None	28043	189	62	71893890	71917178	-1	None	None
16	ZNF821	ENSG00000102984	ENST00000568666	protein_coding	KNOWN	None	28043	1210	402	71893950	71918061	-1	None	None
16	ZNF821	ENSG00000102984	ENST00000563827	nonsense_mediated_decay	KNOWN	None	28043	201	66	71894204	71917390	-1	None	None
16	ZNF821	ENSG00000102984	ENST00000565516	protein_coding	KNOWN	None	28043	752	249	71894282	71913968	-1	None	None
16	ZNF821	ENSG00000102984	ENST00000562797	protein_coding	NOVEL	None	28043	638	211	71894396	71918064	-1	None	None
16	ZNF821	ENSG00000102984	ENST00000563878	nonsense_mediated_decay	KNOWN	None	28043	189	62	71894501	71918061	-1	None	None
16	ZNF821	ENSG00000102984	ENST00000562985	nonsense_mediated_decay	KNOWN	None	28043	189	62	71895682	71918544	-1	None	None
16	ZNF821	ENSG00000102984	ENST00000564943	processed_transcript	KNOWN	None	28043	None	None	71898042	71918028	-1	None	None
16	ZNF821	ENSG00000102984	ENST00000569186	retained_intron	KNOWN	None	28043	None	None	71898657	71918056	-1	None	None
16	ZNF821	ENSG00000102984	ENST00000565843	protein_coding	KNOWN	None	28043	316	104	71898802	71917488	-1	None	None
16	ZNF821	ENSG00000102984	ENST00000568322	protein_coding	KNOWN	None	28043	316	104	71898802	71918712	-1	None	None
16	ZNF821	ENSG00000102984	ENST00000562677	retained_intron	KNOWN	None	28043	None	None	71913780	71918040	-1	None	None
16	ZNF821	ENSG00000102984	ENST00000561700	processed_transcript	PUTATIVE	None	28043	None	None	71913911	71929239	-1	None	None
16	ZNF821	ENSG00000102984	ENST00000425432	protein_coding	KNOWN	CCDS56006	28043	1239	412	71893589	71918050	-1	None	None
16	ZNF821	ENSG00000102984	ENST00000313565	protein_coding	KNOWN	CCDS32481	28043	1113	370	71893589	71918050	-1	None	None
15	MIR4508	ENSG00000265673	ENST00000584178	miRNA	KNOWN	None	41659	None	None	23807209	23807278	-1	None	hsa-mir-4508
2	UBBP3	ENSG00000223962	ENST00000445497	processed_pseudogene	KNOWN	None	12466	None	None	149621133	149621373	-1	None	None
8	None	ENSG00000248731	ENST00000401453	pseudogene	KNOWN	None	None	None	None	25798739	25801385	-1	None	None
20	TGIF2	ENSG00000118707	ENST00000373874	protein_coding	KNOWN	CCDS13278	15764	714	237	35201891	35222353	1	None	None
20	TGIF2	ENSG00000118707	ENST00000373872	protein_coding	KNOWN	CCDS13278	15764	714	237	35202010	35222353	1	None	None
20	TGIF2	ENSG00000118707	ENST00000558028	protein_coding	KNOWN	None	15764	522	173	35202957	35219642	1	None	None
20	TGIF2	ENSG00000118707	ENST00000560025	protein_coding	KNOWN	None	15764	712	236	35203075	35219832	1	None	None
20	TGIF2	ENSG00000118707	ENST00000561398	protein_coding	PUTATIVE	None	15764	277	91	35207210	35220544	1	None	None
20	TGIF2	ENSG00000118707	ENST00000557885	protein_coding	PUTATIVE	None	15764	335	110	35207230	35220326	1	None	None
20	TGIF2	ENSG00000118707	ENST00000558465	protein_coding	PUTATIVE	None	15764	108	35	35207328	35220701	1	None	None
17	None	ENSG00000265743	ENST00000579561	lincRNA	KNOWN	None	None	None	None	29291953	29292518	-1	None	None
6	VARS	ENSG00000204394	ENST00000470953	processed_transcript	PUTATIVE	None	12651	None	None	31745295	31745959	-1	VARS2	None
6	VARS	ENSG00000204394	ENST00000375663	protein_coding	KNOWN	CCDS34412	12651	3795	1264	31745295	31763730	-1	VARS2	None
6	VARS	ENSG00000204394	ENST00000463184	retained_intron	KNOWN	None	12651	None	None	31747007	31747828	-1	VARS2	None
6	VARS	ENSG00000204394	ENST00000428445	protein_coding	KNOWN	None	12651	863	286	31748232	31750366	-1	VARS2	None
6	VARS	ENSG00000204394	ENST00000482996	processed_transcript	KNOWN	None	12651	None	None	31748328	31749971	-1	VARS2	None
6	VARS	ENSG00000204394	ENST00000479051	retained_intron	KNOWN	None	12651	None	None	31748654	31749702	-1	VARS2	None
6	VARS	ENSG00000204394	ENST00000459667	retained_intron	KNOWN	None	12651	None	None	31748655	31749527	-1	VARS2	None
6	VARS	ENSG00000204394	ENST00000461874	retained_intron	KNOWN	None	12651	None	None	31749135	31750197	-1	VARS2	None
6	VARS	ENSG00000204394	ENST00000474643	retained_intron	KNOWN	None	12651	None	None	31749470	31751016	-1	VARS2	None
6	VARS	ENSG00000204394	ENST00000483275	processed_transcript	KNOWN	None	12651	None	None	31749477	31750206	-1	VARS2	None
6	VARS	ENSG00000204394	ENST00000461328	retained_intron	KNOWN	None	12651	None	None	31750189	31752212	-1	VARS2	None
6	VARS	ENSG00000204394	ENST00000495010	retained_intron	KNOWN	None	12651	None	None	31752375	31760737	-1	VARS2	None
6	VARS	ENSG00000204394	ENST00000489979	retained_intron	KNOWN	None	12651	None	None	31753023	31760055	-1	VARS2	None
6	VARS	ENSG00000204394	ENST00000440048	protein_coding	KNOWN	None	12651	522	173	31760763	31763276	-1	VARS2	None
6	VARS	ENSG00000204394	ENST00000444930	protein_coding	KNOWN	None	12651	894	297	31749526	31763441	-1	VARS2	None
1	None	ENSG00000236806	ENST00000446956	processed_pseudogene	KNOWN	None	None	None	None	146695146	146695940	1	None	None
3	RNU2-37P	ENSG00000222627	ENST00000410695	snRNA	KNOWN	None	48530	None	None	127793916	127794092	-1	None	None
20	None	ENSG00000199490	ENST00000362620	misc_RNA	KNOWN	None	None	None	None	48537134	48537231	-1	None	None
15	None	ENSG00000238583	ENST00000459592	snoRNA	NOVEL	None	None	None	None	45783782	45783885	-1	None	None
16	KCTD13	ENSG00000174943	ENST00000308768	nonsense_mediated_decay	KNOWN	CCDS10661	22234	990	329	29916333	29937530	-1	None	PDIP1, FKSG86, POLDIP1
16	KCTD13	ENSG00000174943	ENST00000568000	protein_coding	PUTATIVE	CCDS10661	22234	990	329	29917657	29938356	-1	None	PDIP1, FKSG86, POLDIP1
16	KCTD13	ENSG00000174943	ENST00000566842	nonsense_mediated_decay	KNOWN	None	22234	363	120	29917663	29937156	-1	None	PDIP1, FKSG86, POLDIP1
16	KCTD13	ENSG00000174943	ENST00000568995	protein_coding	PUTATIVE	None	22234	423	140	29917674	29934558	-1	None	PDIP1, FKSG86, POLDIP1
16	KCTD13	ENSG00000174943	ENST00000563955	retained_intron	KNOWN	None	22234	None	None	29918284	29923691	-1	None	PDIP1, FKSG86, POLDIP1
16	KCTD13	ENSG00000174943	ENST00000563264	processed_transcript	KNOWN	None	22234	None	None	29922754	29934682	-1	None	PDIP1, FKSG86, POLDIP1
16	KCTD13	ENSG00000174943	ENST00000566413	protein_coding	PUTATIVE	None	22234	245	80	29930822	29934641	-1	None	PDIP1, FKSG86, POLDIP1
16	KCTD13	ENSG00000174943	ENST00000561540	protein_coding	PUTATIVE	None	22234	630	209	29933355	29937557	-1	None	PDIP1, FKSG86, POLDIP1
16	KCTD13	ENSG00000174943	ENST00000568721	processed_transcript	KNOWN	None	22234	None	None	29934558	29937533	-1	None	PDIP1, FKSG86, POLDIP1
3	RUVBL1-AS1	ENSG00000239608	ENST00000485218	antisense	KNOWN	None	40514	None	None	127794653	127797899	1	None	None
8	RNA5SP258	ENSG00000199620	ENST00000362750	rRNA	KNOWN	None	43158	None	None	25994396	25994514	1	RN5S258	None
1	None	ENSG00000252728	ENST00000516919	snoRNA	NOVEL	None	None	None	None	35409357	35409425	1	None	None
3	LIMD1	ENSG00000144791	ENST00000465039	processed_transcript	KNOWN	None	6612	None	None	45596886	45714998	1	None	None
3	LIMD1	ENSG00000144791	ENST00000440097	protein_coding	NOVEL	None	6612	1863	620	45635816	45715390	1	None	None
3	LIMD1	ENSG00000144791	ENST00000273317	protein_coding	KNOWN	CCDS2729	6612	2031	676	45636351	45727830	1	None	None
3	LIMD1	ENSG00000144791	ENST00000474665	retained_intron	KNOWN	None	6612	None	None	45707167	45716058	1	None	None
1	None	ENSG00000270443	ENST00000605228	processed_pseudogene	KNOWN	None	None	None	None	182403028	182403596	-1	None	None
17	None	ENSG00000264456	ENST00000580979	sense_intronic	KNOWN	None	None	None	None	29298670	29300330	1	None	None
3	MAGEF1	ENSG00000177383	ENST00000317897	protein_coding	KNOWN	CCDS3269	29639	924	307	184428156	184429836	-1	None	None
X	MIR504	ENSG00000207800	ENST00000385065	miRNA	KNOWN	None	32139	None	None	137749872	137749954	-1	MIRN504	hsa-mir-504
2	None	ENSG00000231079	ENST00000601658	antisense	KNOWN	None	None	None	None	149624039	149646351	-1	None	None
2	None	ENSG00000231079	ENST00000446781	antisense	KNOWN	None	None	None	None	149635444	149643156	-1	None	None
1	None	ENSG00000213226	ENST00000435270	processed_pseudogene	KNOWN	None	None	None	None	146790828	146791942	1	None	None
11	None	ENSG00000238666	ENST00000458907	snoRNA	NOVEL	None	None	None	None	85805234	85805337	1	None	None
17	DPRXP4	ENSG00000264743	ENST00000578053	processed_pseudogene	KNOWN	None	32170	None	None	29302405	29302972	1	None	None
1	TEDDM1P1	ENSG00000233537	ENST00000414169	unitary_pseudogene	KNOWN	None	42447	None	None	182410712	182411497	1	None	None
3	FHIT	ENSG00000189283	ENST00000476844	protein_coding	KNOWN	CCDS2894	3701	444	147	59735036	61237087	-1	None	FRA3B, AP3Aase
3	FHIT	ENSG00000189283	ENST00000492590	protein_coding	KNOWN	CCDS2894	3701	444	147	59735036	61237124	-1	None	FRA3B, AP3Aase
3	FHIT	ENSG00000189283	ENST00000466788	processed_transcript	KNOWN	None	3701	None	None	59735428	60066566	-1	None	FRA3B, AP3Aase
3	FHIT	ENSG00000189283	ENST00000468189	protein_coding	KNOWN	CCDS2894	3701	444	147	59737133	61237133	-1	None	FRA3B, AP3Aase
3	FHIT	ENSG00000189283	ENST00000488467	protein_coding	KNOWN	None	3701	236	77	59999746	61237087	-1	None	FRA3B, AP3Aase
3	FHIT	ENSG00000189283	ENST00000490952	retained_intron	KNOWN	None	3701	None	None	60521543	61237058	-1	None	FRA3B, AP3Aase
3	FHIT	ENSG00000189283	ENST00000465330	processed_transcript	KNOWN	None	3701	None	None	61229684	61237086	-1	None	FRA3B, AP3Aase
3	FHIT	ENSG00000189283	ENST00000341848	protein_coding	KNOWN	CCDS2894	3701	444	147	59737952	60522695	-1	None	FRA3B, AP3Aase
1	None	ENSG00000241014	ENST00000417456	sense_overlapping	KNOWN	None	None	None	None	35439957	35450914	-1	None	None
1	None	ENSG00000241014	ENST00000311990	lincRNA	KNOWN	None	None	None	None	35441300	35444307	-1	None	None
3	PLOD2	ENSG00000152952	ENST00000461497	protein_coding	PUTATIVE	None	9082	1257	418	145787227	145803676	-1	None	LH2
3	PLOD2	ENSG00000152952	ENST00000282903	protein_coding	KNOWN	CCDS3132	9082	2277	758	145787227	145878954	-1	None	LH2
3	PLOD2	ENSG00000152952	ENST00000360060	protein_coding	KNOWN	CCDS3131	9082	2214	737	145787231	145878954	-1	None	LH2
3	PLOD2	ENSG00000152952	ENST00000494950	protein_coding	PUTATIVE	None	9082	2112	703	145787968	145878779	-1	None	LH2
3	PLOD2	ENSG00000152952	ENST00000495700	retained_intron	KNOWN	None	9082	None	None	145788028	145788957	-1	None	LH2
3	PLOD2	ENSG00000152952	ENST00000475505	retained_intron	KNOWN	None	9082	None	None	145790344	145791444	-1	None	LH2
3	PLOD2	ENSG00000152952	ENST00000478436	retained_intron	KNOWN	None	9082	None	None	145793712	145804522	-1	None	LH2
3	PLOD2	ENSG00000152952	ENST00000460520	retained_intron	KNOWN	None	9082	None	None	145799578	145806602	-1	None	LH2
3	PLOD2	ENSG00000152952	ENST00000469350	protein_coding	PUTATIVE	None	9082	688	228	145820547	145881440	-1	None	LH2
3	PLOD2	ENSG00000152952	ENST00000480704	nonsense_mediated_decay	KNOWN	None	9082	297	98	145828087	145878778	-1	None	LH2
20	None	ENSG00000239157	ENST00000459122	snoRNA	NOVEL	None	None	None	None	48556833	48556937	-1	None	None
11	RNU6-560P	ENSG00000200877	ENST00000364007	snRNA	KNOWN	None	47523	None	None	85864269	85864376	1	None	None
12	LINC00941	ENSG00000235884	ENST00000550292	lincRNA	KNOWN	None	48635	None	None	30948615	30952942	1	None	None
12	LINC00941	ENSG00000235884	ENST00000547804	lincRNA	KNOWN	None	48635	None	None	30948865	30955645	1	None	None
12	LINC00941	ENSG00000235884	ENST00000551972	lincRNA	KNOWN	None	48635	None	None	30953145	30954931	1	None	None
12	LINC00941	ENSG00000235884	ENST00000415632	lincRNA	KNOWN	None	48635	None	None	30947977	30949140	1	None	None
14	DHRS4L1	ENSG00000225766	ENST00000559270	processed_transcript	KNOWN	None	19732	None	None	24505662	24520237	1	None	SDR25C4
14	DHRS4L1	ENSG00000225766	ENST00000558293	processed_transcript	KNOWN	None	19732	None	None	24505662	24520237	1	None	SDR25C4
14	DHRS4L1	ENSG00000225766	ENST00000558682	processed_transcript	KNOWN	None	19732	None	None	24505686	24507263	1	None	SDR25C4
14	DHRS4L1	ENSG00000225766	ENST00000558622	processed_transcript	KNOWN	None	19732	None	None	24505710	24520110	1	None	SDR25C4
14	DHRS4L1	ENSG00000225766	ENST00000397065	transcribed_unprocessed_pseudogene	KNOWN	None	19732	None	None	24505710	24520177	1	None	SDR25C4
14	DHRS4L1	ENSG00000225766	ENST00000606840	unprocessed_pseudogene	NOVEL	None	19732	None	None	24505710	24520580	1	None	SDR25C4
8	None	ENSG00000249213	ENST00000512187	processed_pseudogene	KNOWN	None	None	None	None	26112399	26114144	-1	None	None
2	RNA5SP93	ENSG00000199395	ENST00000362525	rRNA	KNOWN	None	42891	None	None	56462352	56462465	-1	RN5S93	None
3	RNU6-823P	ENSG00000212344	ENST00000391042	snRNA	KNOWN	None	47786	None	None	127860718	127860820	-1	None	None
1	None	ENSG00000258082	ENST00000549744	lincRNA	KNOWN	None	None	None	None	235115394	235116551	-1	None	None
1	None	ENSG00000236268	ENST00000452834	lincRNA	KNOWN	None	None	None	None	83439565	83450605	-1	None	None
1	None	ENSG00000236268	ENST00000421931	lincRNA	KNOWN	None	None	None	None	83439612	83451891	-1	None	None
15	HMGN2P46	ENSG00000179362	ENST00000409454	processed_transcript	KNOWN	None	26817	None	None	45803334	45848928	1	C15orf21	FLJ39426, D-PCa-2
15	HMGN2P46	ENSG00000179362	ENST00000396644	processed_transcript	KNOWN	None	26817	None	None	45803349	45848300	1	C15orf21	FLJ39426, D-PCa-2
15	HMGN2P46	ENSG00000179362	ENST00000313559	processed_transcript	KNOWN	None	26817	None	None	45803349	45848300	1	C15orf21	FLJ39426, D-PCa-2
15	HMGN2P46	ENSG00000179362	ENST00000396645	processed_transcript	KNOWN	None	26817	None	None	45803349	45848300	1	C15orf21	FLJ39426, D-PCa-2
15	HMGN2P46	ENSG00000179362	ENST00000495658	processed_transcript	KNOWN	None	26817	None	None	45803351	45811862	1	C15orf21	FLJ39426, D-PCa-2
15	HMGN2P46	ENSG00000179362	ENST00000568669	processed_transcript	KNOWN	None	26817	None	None	45814034	45878488	1	C15orf21	FLJ39426, D-PCa-2
15	HMGN2P46	ENSG00000179362	ENST00000564594	processed_transcript	KNOWN	None	26817	None	None	45821932	45848098	1	C15orf21	FLJ39426, D-PCa-2
15	HMGN2P46	ENSG00000179362	ENST00000598619	transcribed_processed_pseudogene	KNOWN	None	26817	None	None	45847680	45848169	1	C15orf21	FLJ39426, D-PCa-2
11	None	ENSG00000254699	ENST00000530126	lincRNA	KNOWN	None	None	None	None	85903829	85904524	-1	None	None
2	None	ENSG00000231570	ENST00000418901	processed_pseudogene	KNOWN	None	None	None	None	56977435	56977698	1	None	None
17	FAM211A	ENSG00000181350	ENST00000409887	retained_intron	KNOWN	None	32403	None	None	16344891	16351608	-1	C17orf76	FLJ35696
17	FAM211A	ENSG00000181350	ENST00000409083	protein_coding	NOVEL	CCDS11178	32403	639	212	16345328	16395467	-1	C17orf76	FLJ35696
17	FAM211A	ENSG00000181350	ENST00000470794	protein_coding	KNOWN	CCDS45620	32403	1035	344	16346575	16395332	-1	C17orf76	FLJ35696
2	None	ENSG00000238690	ENST00000459315	snoRNA	NOVEL	None	None	None	None	57243196	57243299	-1	None	None
1	None	ENSG00000233018	ENST00000426692	processed_pseudogene	KNOWN	None	None	None	None	235260502	235260727	-1	None	None
2	None	ENSG00000228848	ENST00000438503	processed_pseudogene	KNOWN	None	None	None	None	149627593	149627950	-1	None	None
2	None	ENSG00000228848	ENST00000536526	processed_pseudogene	KNOWN	None	None	None	None	149627593	149627904	-1	None	None
19	None	ENSG00000269350	ENST00000597592	antisense	KNOWN	None	None	None	None	17471741	17473562	1	None	None
2	RNF103-CHMP3	ENSG00000249884	ENST00000604011	protein_coding	KNOWN	CCDS56128	38847	756	251	86732791	86948245	-1	RNF103-VPS24	None
2	RNF103-CHMP3	ENSG00000249884	ENST00000440757	protein_coding	NOVEL	None	38847	663	220	86737547	86850151	-1	RNF103-VPS24	None
1	None	ENSG00000261504	ENST00000566297	lincRNA	KNOWN	None	None	None	None	182584389	182585764	1	None	None
20	HCK	ENSG00000101336	ENST00000375862	protein_coding	KNOWN	CCDS54453	4840	1578	525	30640000	30689322	1	None	JTK9
20	HCK	ENSG00000101336	ENST00000486475	nonsense_mediated_decay	KNOWN	None	4840	186	61	30640045	30689463	1	None	JTK9
20	HCK	ENSG00000101336	ENST00000262651	nonsense_mediated_decay	KNOWN	None	4840	126	41	30640045	30689652	1	None	JTK9
20	HCK	ENSG00000101336	ENST00000520553	protein_coding	KNOWN	CCDS54455	4840	1518	505	30640045	30689659	1	None	JTK9
20	HCK	ENSG00000101336	ENST00000518730	protein_coding	KNOWN	CCDS54456	4840	1515	504	30640064	30689322	1	None	JTK9
20	HCK	ENSG00000101336	ENST00000375852	protein_coding	KNOWN	CCDS33460	4840	1581	526	30640064	30689659	1	None	JTK9
20	HCK	ENSG00000101336	ENST00000470092	retained_intron	KNOWN	None	4840	None	None	30640091	30660392	1	None	JTK9
20	HCK	ENSG00000101336	ENST00000534862	protein_coding	KNOWN	CCDS54454	4840	1521	506	30639991	30689655	1	None	JTK9
20	HCK	ENSG00000101336	ENST00000538448	protein_coding	KNOWN	CCDS54455	4840	1518	505	30639991	30689655	1	None	JTK9
3	MIR1280	ENSG00000221067	ENST00000408140	miRNA	KNOWN	None	35368	None	None	128081008	128081101	1	MIRN1280	hsa-mir-1280
2	None	ENSG00000271115	ENST00000604970	processed_pseudogene	KNOWN	None	None	None	None	57275485	57276471	-1	None	None
12	LINC00507	ENSG00000256193	ENST00000544645	lincRNA	KNOWN	None	43558	None	None	128399917	128436055	1	None	None
12	LINC00507	ENSG00000256193	ENST00000540882	lincRNA	KNOWN	None	43558	None	None	128399987	128435995	1	None	None
12	LINC00507	ENSG00000256193	ENST00000542089	lincRNA	KNOWN	None	43558	None	None	128400017	128436097	1	None	None
1	None	ENSG00000231364	ENST00000446227	lincRNA	KNOWN	None	None	None	None	83911736	83920454	1	None	None
HG19_PATCH	MYOM2	ENSG00000260130	ENST00000566299	protein_coding	KNOWN	None	7614	4398	1465	1993155	2093380	1	None	None
HG19_PATCH	MYOM2	ENSG00000260130	ENST00000569555	protein_coding	PUTATIVE	None	7614	2673	890	1993184	2093379	1	None	None
HG19_PATCH	MYOM2	ENSG00000260130	ENST00000563020	processed_transcript	KNOWN	None	7614	None	None	2029921	2037887	1	None	None
HG19_PATCH	MYOM2	ENSG00000260130	ENST00000565597	processed_transcript	KNOWN	None	7614	None	None	2033132	2041852	1	None	None
HG19_PATCH	MYOM2	ENSG00000260130	ENST00000567433	processed_transcript	KNOWN	None	7614	None	None	2045875	2054088	1	None	None
HG19_PATCH	MYOM2	ENSG00000260130	ENST00000569202	processed_transcript	KNOWN	None	7614	None	None	2048234	2054341	1	None	None
HG19_PATCH	MYOM2	ENSG00000260130	ENST00000561917	processed_transcript	KNOWN	None	7614	None	None	2049793	2054306	1	None	None
HG19_PATCH	MYOM2	ENSG00000260130	ENST00000567746	retained_intron	KNOWN	None	7614	None	None	2057078	2077163	1	None	None
HG19_PATCH	MYOM2	ENSG00000260130	ENST00000564157	processed_transcript	KNOWN	None	7614	None	None	2066654	2088741	1	None	None
HG19_PATCH	MYOM2	ENSG00000260130	ENST00000569917	processed_transcript	KNOWN	None	7614	None	None	2067047	2088749	1	None	None
HG19_PATCH	MYOM2	ENSG00000260130	ENST00000562010	processed_transcript	KNOWN	None	7614	None	None	2075723	2092834	1	None	None
HG19_PATCH	MYOM2	ENSG00000260130	ENST00000568173	processed_transcript	KNOWN	None	7614	None	None	2075785	2092767	1	None	None
HG19_PATCH	MYOM2	ENSG00000260130	ENST00000568159	processed_transcript	KNOWN	None	7614	None	None	2088666	2093362	1	None	None
HG19_PATCH	MYOM2	ENSG00000260130	ENST00000563738	processed_transcript	KNOWN	None	7614	None	None	2088772	2113475	1	None	None
HG19_PATCH	MYOM2	ENSG00000260130	ENST00000561842	retained_intron	KNOWN	None	7614	None	None	2091273	2092690	1	None	None
19	None	ENSG00000269720	ENST00000597169	lincRNA	KNOWN	None	None	None	None	17502238	17503093	-1	None	None
3	DNAJB8-AS1	ENSG00000242049	ENST00000471626	antisense	KNOWN	None	41029	None	None	128182437	128191160	1	None	None
2	None	ENSG00000270569	ENST00000605793	processed_pseudogene	KNOWN	None	None	None	None	57656683	57657828	-1	None	None
22	CHKB-CPT1B	ENSG00000254413	ENST00000492556	retained_intron	KNOWN	None	41998	None	None	51007298	51021394	-1	None	None
22	CHKB-CPT1B	ENSG00000254413	ENST00000453634	nonsense_mediated_decay	KNOWN	None	41998	183	60	51007424	51018181	-1	None	None
22	CHKB-CPT1B	ENSG00000254413	ENST00000452668	processed_transcript	KNOWN	None	41998	None	None	51016248	51018428	-1	None	None
1	None	ENSG00000261185	ENST00000570153	lincRNA	KNOWN	None	None	None	None	182610951	182612442	-1	None	None
3	None	ENSG00000242741	ENST00000498832	lincRNA	KNOWN	None	None	None	None	73857752	73952017	1	None	None
1	SNORA14B	ENSG00000207181	ENST00000384452	snoRNA	KNOWN	None	32603	None	None	235291118	235291252	-1	None	ACA14b
HSCHR6_MHC_COX	TMEM183AP1	ENSG00000225248	ENST00000443476	processed_pseudogene	KNOWN	None	33458	None	None	29541841	29542130	1	None	BPG126D10.10, OTTHUMG00000086663
15	None	ENSG00000259696	ENST00000559109	processed_pseudogene	KNOWN	None	None	None	None	31745404	31746342	-1	None	None
1	OR13Z1P	ENSG00000226653	ENST00000416141	unitary_pseudogene	KNOWN	None	31240	None	None	146890777	146891610	1	None	None
2	None	ENSG00000226340	ENST00000413336	processed_pseudogene	KNOWN	None	None	None	None	149629822	149630366	-1	None	None
2	None	ENSG00000212168	ENST00000390866	snoRNA	NOVEL	None	None	None	None	57771670	57771734	1	None	None
1	None	ENSG00000227181	ENST00000435492	lincRNA	KNOWN	None	None	None	None	182681997	182683679	1	None	None
1	ARID4B-IT1	ENSG00000232686	ENST00000357671	sense_intronic	KNOWN	None	41407	None	None	235333435	235334206	-1	None	None
3	None	ENSG00000239454	ENST00000494761	lincRNA	KNOWN	None	None	None	None	74048956	74054760	1	None	None
11	None	ENSG00000254502	ENST00000530657	processed_pseudogene	KNOWN	None	None	None	None	85906174	85907308	1	None	None
2	None	ENSG00000271615	ENST00000605503	processed_transcript	KNOWN	None	None	None	None	57982563	57992345	1	None	None
2	None	ENSG00000271615	ENST00000603793	transcribed_processed_pseudogene	KNOWN	None	None	None	None	57992089	57993187	1	None	None
1	None	ENSG00000233008	ENST00000417975	lincRNA	KNOWN	None	None	None	None	84041459	84326679	-1	None	None
1	None	ENSG00000233008	ENST00000457273	lincRNA	KNOWN	None	None	None	None	84267199	84326229	-1	None	None
1	None	ENSG00000233008	ENST00000417565	lincRNA	KNOWN	None	None	None	None	84297304	84326626	-1	None	None
1	None	ENSG00000233008	ENST00000413975	lincRNA	KNOWN	None	None	None	None	84297304	84326653	-1	None	None
1	None	ENSG00000233008	ENST00000419733	lincRNA	KNOWN	None	None	None	None	84297304	84326706	-1	None	None
1	MIR4753	ENSG00000263439	ENST00000585119	miRNA	KNOWN	None	41527	None	None	235353349	235353431	-1	None	hsa-mir-4753
1	None	ENSG00000233940	ENST00000428087	processed_pseudogene	KNOWN	None	None	None	None	35519069	35524872	1	None	None
12	None	ENSG00000257634	ENST00000552524	lincRNA	KNOWN	None	None	None	None	55076757	55081218	1	None	None
1	None	ENSG00000271269	ENST00000603149	processed_pseudogene	KNOWN	None	None	None	None	182702927	182703914	1	None	None
X	FGF13-AS1	ENSG00000226031	ENST00000446383	processed_transcript	KNOWN	None	44264	None	None	137793614	137798254	1	None	None
X	FGF13-AS1	ENSG00000226031	ENST00000438238	processed_transcript	KNOWN	None	44264	None	None	137794269	137798779	1	None	None
3	None	ENSG00000223738	ENST00000468766	processed_pseudogene	KNOWN	None	None	None	None	74150500	74152704	1	None	None
17	None	ENSG00000266340	ENST00000584499	antisense	KNOWN	None	None	None	None	29305628	29307268	-1	None	None
1	RER1	ENSG00000157916	ENST00000378518	protein_coding	KNOWN	None	30309	354	117	2323267	2333764	1	None	None
1	RER1	ENSG00000157916	ENST00000605895	protein_coding	KNOWN	CCDS41232	30309	591	196	2323272	2336883	1	None	None
1	RER1	ENSG00000157916	ENST00000306256	protein_coding	KNOWN	None	30309	531	176	2323282	2334503	1	None	None
1	RER1	ENSG00000157916	ENST00000493207	retained_intron	KNOWN	None	30309	None	None	2323296	2327806	1	None	None
1	RER1	ENSG00000157916	ENST00000378512	protein_coding	KNOWN	None	30309	564	187	2323329	2335190	1	None	None
1	RER1	ENSG00000157916	ENST00000443438	protein_coding	KNOWN	None	30309	475	157	2324613	2333755	1	None	None
1	RER1	ENSG00000157916	ENST00000488353	protein_coding	KNOWN	CCDS41232	30309	591	196	2325444	2334655	1	None	None
1	RER1	ENSG00000157916	ENST00000462129	retained_intron	KNOWN	None	30309	None	None	2333390	2334666	1	None	None
1	RER1	ENSG00000157916	ENST00000378513	protein_coding	KNOWN	None	30309	354	117	2323279	2335188	1	None	None
1	RPL23AP23	ENSG00000236863	ENST00000452590	processed_pseudogene	KNOWN	None	36272	None	None	235459180	235459650	1	None	None
1	None	ENSG00000207209	ENST00000384480	misc_RNA	NOVEL	None	None	None	None	146891926	146892027	-1	None	None
17	None	ENSG00000264148	ENST00000585289	processed_pseudogene	KNOWN	None	None	None	None	29335172	29335337	-1	None	None
2	None	ENSG00000251738	ENST00000515929	miRNA	NOVEL	None	None	None	None	58289716	58289800	-1	None	None
1	None	ENSG00000264809	ENST00000580448	miRNA	NOVEL	None	None	None	None	182726054	182726153	1	None	None
7	None	ENSG00000228303	ENST00000429248	unprocessed_pseudogene	KNOWN	None	None	None	None	56706636	56718389	-1	None	None
11	None	ENSG00000254783	ENST00000524828	processed_pseudogene	KNOWN	None	None	None	None	85994969	85995710	1	None	None
1	OR13Z2P	ENSG00000272443	ENST00000606338	unprocessed_pseudogene	KNOWN	None	31241	None	None	146917312	146917866	1	None	None
1	HMGN1P4	ENSG00000224040	ENST00000419500	processed_pseudogene	KNOWN	None	39336	None	None	182911250	182911539	-1	None	None
2	EIF3FP3	ENSG00000233426	ENST00000434851	processed_pseudogene	KNOWN	None	37625	None	None	58478575	58479660	1	None	None
2	EIF3FP3	ENSG00000233426	ENST00000537260	processed_pseudogene	KNOWN	None	37625	None	None	58479021	58479703	1	None	None
HSCHR6_MHC_DBB	PPT2	ENSG00000228116	ENST00000458042	protein_coding	KNOWN	None	9326	541	179	32096994	32099541	1	None	None
HSCHR6_MHC_DBB	PPT2	ENSG00000228116	ENST00000427896	protein_coding	KNOWN	None	9326	728	241	32097076	32101487	1	None	None
HSCHR6_MHC_DBB	PPT2	ENSG00000228116	ENST00000496715	processed_transcript	KNOWN	None	9326	None	None	32097095	32101412	1	None	None
HSCHR6_MHC_DBB	PPT2	ENSG00000228116	ENST00000429189	protein_coding	KNOWN	None	9326	710	235	32097130	32101487	1	None	None
HSCHR6_MHC_DBB	PPT2	ENSG00000228116	ENST00000467040	protein_coding	KNOWN	None	9326	710	235	32097398	32101487	1	None	None
HSCHR6_MHC_DBB	PPT2	ENSG00000228116	ENST00000424667	protein_coding	KNOWN	None	9326	710	235	32097648	32101487	1	None	None
HSCHR6_MHC_DBB	PPT2	ENSG00000228116	ENST00000425659	protein_coding	KNOWN	None	9326	710	235	32097691	32101487	1	None	None
HSCHR6_MHC_DBB	PPT2	ENSG00000228116	ENST00000416489	protein_coding	KNOWN	None	9326	476	157	32097720	32101487	1	None	None
HSCHR6_MHC_DBB	PPT2	ENSG00000228116	ENST00000487203	processed_transcript	KNOWN	None	9326	None	None	32097750	32101283	1	None	None
HSCHR6_MHC_DBB	PPT2	ENSG00000228116	ENST00000478621	protein_coding	KNOWN	None	9326	710	235	32097775	32101487	1	None	None
HSCHR6_MHC_DBB	PPT2	ENSG00000228116	ENST00000415972	protein_coding	KNOWN	None	9326	601	199	32098019	32101259	1	None	None
HSCHR6_MHC_DBB	PPT2	ENSG00000228116	ENST00000458738	protein_coding	KNOWN	None	9326	279	92	32098031	32099346	1	None	None
HSCHR6_MHC_DBB	PPT2	ENSG00000228116	ENST00000496405	processed_transcript	PUTATIVE	None	9326	None	None	32098571	32099322	1	None	None
HSCHR6_MHC_DBB	PPT2	ENSG00000228116	ENST00000486179	retained_intron	KNOWN	None	9326	None	None	32100674	32101487	1	None	None
HSCHR6_MHC_DBB	PPT2	ENSG00000228116	ENST00000483096	retained_intron	KNOWN	None	9326	None	None	32101053	32101885	1	None	None
HSCHR6_MHC_DBB	PPT2	ENSG00000228116	ENST00000469283	protein_coding	KNOWN	None	9326	163	53	32101206	32101487	1	None	None
13	SNORD102	ENSG00000207500	ENST00000384769	snoRNA	KNOWN	None	10099	None	None	27829201	27829272	1	RNU102	U102
17	ACE	ENSG00000159640	ENST00000583336	processed_transcript	KNOWN	None	2707	None	None	61554422	61556259	1	DCP1	ACE1, CD143
17	ACE	ENSG00000159640	ENST00000584529	processed_transcript	KNOWN	None	2707	None	None	61554422	61561212	1	DCP1	ACE1, CD143
17	ACE	ENSG00000159640	ENST00000582678	nonsense_mediated_decay	KNOWN	None	2707	507	168	61554422	61563133	1	DCP1	ACE1, CD143
17	ACE	ENSG00000159640	ENST00000579462	retained_intron	KNOWN	None	2707	None	None	61554431	61555878	1	DCP1	ACE1, CD143
17	ACE	ENSG00000159640	ENST00000290866	protein_coding	KNOWN	CCDS11637	2707	3921	1306	61554432	61574981	1	DCP1	ACE1, CD143
17	ACE	ENSG00000159640	ENST00000582627	protein_coding	PUTATIVE	None	2707	942	313	61554843	61558546	1	DCP1	ACE1, CD143
17	ACE	ENSG00000159640	ENST00000580318	nonsense_mediated_decay	KNOWN	None	2707	348	115	61554854	61557786	1	DCP1	ACE1, CD143
17	ACE	ENSG00000159640	ENST00000579726	nonsense_mediated_decay	KNOWN	None	2707	359	118	61561699	61564434	1	DCP1	ACE1, CD143
17	ACE	ENSG00000159640	ENST00000290863	protein_coding	KNOWN	CCDS45755	2707	2199	732	61562201	61574979	1	DCP1	ACE1, CD143
17	ACE	ENSG00000159640	ENST00000582005	nonsense_mediated_decay	KNOWN	None	2707	438	145	61562205	61566452	1	DCP1	ACE1, CD143
17	ACE	ENSG00000159640	ENST00000578839	nonsense_mediated_decay	KNOWN	None	2707	133	43	61562207	61574799	1	DCP1	ACE1, CD143
17	ACE	ENSG00000159640	ENST00000413513	protein_coding	NOVEL	CCDS54155	2707	2076	691	61562207	61574866	1	DCP1	ACE1, CD143
17	ACE	ENSG00000159640	ENST00000579314	nonsense_mediated_decay	KNOWN	None	2707	627	208	61562207	61574979	1	DCP1	ACE1, CD143
17	ACE	ENSG00000159640	ENST00000579204	nonsense_mediated_decay	KNOWN	None	2707	111	36	61562229	61566401	1	DCP1	ACE1, CD143
17	ACE	ENSG00000159640	ENST00000584865	retained_intron	KNOWN	None	2707	None	None	61564184	61571018	1	DCP1	ACE1, CD143
17	ACE	ENSG00000159640	ENST00000582761	protein_coding	NOVEL	None	2707	846	281	61564362	61571766	1	DCP1	ACE1, CD143
17	ACE	ENSG00000159640	ENST00000577418	processed_transcript	KNOWN	None	2707	None	None	61567244	61574524	1	DCP1	ACE1, CD143
17	ACE	ENSG00000159640	ENST00000583645	retained_intron	KNOWN	None	2707	None	None	61567709	61570807	1	DCP1	ACE1, CD143
17	ACE	ENSG00000159640	ENST00000578679	retained_intron	KNOWN	None	2707	None	None	61571117	61571828	1	DCP1	ACE1, CD143
17	ACE	ENSG00000159640	ENST00000579409	protein_coding	PUTATIVE	None	2707	416	137	61571765	61574514	1	DCP1	ACE1, CD143
17	ACE	ENSG00000159640	ENST00000582244	retained_intron	KNOWN	None	2707	None	None	61573501	61574346	1	DCP1	ACE1, CD143
17	ACE	ENSG00000159640	ENST00000428043	protein_coding	KNOWN	None	2707	3438	1145	61554434	61574921	1	DCP1	ACE1, CD143
17	ACE	ENSG00000159640	ENST00000538928	protein_coding	KNOWN	None	2707	1428	475	61554422	61560922	1	DCP1	ACE1, CD143
17	ACE	ENSG00000159640	ENST00000490216	protein_coding	KNOWN	None	2707	2220	739	61562184	61599205	1	DCP1	ACE1, CD143
17	ACE	ENSG00000159640	ENST00000421982	protein_coding	KNOWN	None	2707	1536	511	61562207	61574799	1	DCP1	ACE1, CD143
12	None	ENSG00000258118	ENST00000550612	processed_pseudogene	KNOWN	None	None	None	None	31014855	31015113	1	None	None
5	PCDHGA10	ENSG00000253846	ENST00000398610	protein_coding	KNOWN	CCDS47292	8697	2811	936	140792743	140892546	1	None	PCDH-GAMMA-A10
1	None	ENSG00000234086	ENST00000439516	pseudogene	NOVEL	None	None	None	None	235472935	235473313	-1	None	None
1	OR13Z3P	ENSG00000272480	ENST00000606810	unprocessed_pseudogene	KNOWN	None	31242	None	None	146953988	146954378	1	None	None
17	RNU7-31P	ENSG00000253071	ENST00000517262	snRNA	KNOWN	None	34127	None	None	5417529	5417590	-1	None	U7.31
13	SNORA27	ENSG00000207051	ENST00000384323	snoRNA	KNOWN	None	32617	None	None	27829538	27829663	1	None	ACA27
X	NYX	ENSG00000188937	ENST00000342595	protein_coding	KNOWN	CCDS14256	8082	1446	481	41306687	41334963	1	CSNB1, CSNB4	CLRP
X	NYX	ENSG00000188937	ENST00000378220	protein_coding	KNOWN	CCDS14256	8082	1446	481	41306713	41334905	1	CSNB1, CSNB4	CLRP
X	NYX	ENSG00000188937	ENST00000486842	processed_transcript	KNOWN	None	8082	None	None	41331434	41332962	1	CSNB1, CSNB4	CLRP
17	None	ENSG00000266865	ENST00000579692	processed_transcript	KNOWN	None	None	None	None	29335515	29349359	1	None	None
17	None	ENSG00000266865	ENST00000580190	processed_transcript	KNOWN	None	None	None	None	29335623	29372567	1	None	None
17	None	ENSG00000266865	ENST00000582483	processed_transcript	KNOWN	None	None	None	None	29335692	29356489	1	None	None
17	None	ENSG00000266865	ENST00000579588	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	29335772	29358964	1	None	None
17	None	ENSG00000266865	ENST00000578883	processed_transcript	KNOWN	None	None	None	None	29351359	29361180	1	None	None
17	None	ENSG00000266865	ENST00000580053	processed_transcript	KNOWN	None	None	None	None	29372425	29420145	1	None	None
15	None	ENSG00000259358	ENST00000559530	processed_pseudogene	KNOWN	None	None	None	None	32057946	32060404	-1	None	None
17	NAGS	ENSG00000161653	ENST00000293404	protein_coding	KNOWN	CCDS11473	17996	1605	534	42081914	42086428	1	None	AGAS, ARGA, NAT7
17	NAGS	ENSG00000161653	ENST00000589767	protein_coding	NOVEL	None	17996	1536	511	42082125	42086428	1	None	AGAS, ARGA, NAT7
17	NAGS	ENSG00000161653	ENST00000592915	retained_intron	KNOWN	None	17996	None	None	42083416	42086431	1	None	AGAS, ARGA, NAT7
1	LINC00624	ENSG00000234610	ENST00000437831	lincRNA	KNOWN	None	44254	None	None	146986158	146989699	-1	None	None
1	None	ENSG00000227962	ENST00000254724	processed_pseudogene	KNOWN	None	None	None	None	235500121	235500402	1	None	None
17	None	ENSG00000262961	ENST00000576249	processed_pseudogene	KNOWN	None	None	None	None	5633609	5634405	1	None	None
3	None	ENSG00000244300	ENST00000464242	antisense	KNOWN	None	None	None	None	128208055	128216209	1	None	None
3	None	ENSG00000244300	ENST00000468377	antisense	KNOWN	None	None	None	None	128208075	128221191	1	None	None
3	None	ENSG00000244300	ENST00000473958	antisense	KNOWN	None	None	None	None	128208100	128208929	1	None	None
1	None	ENSG00000237076	ENST00000439186	lincRNA	KNOWN	None	None	None	None	84255963	84267148	1	None	None
1	RNA5SP71	ENSG00000199837	ENST00000362967	rRNA	KNOWN	None	42848	None	None	182913500	182913625	-1	RN5S71	None
19	None	ENSG00000269640	ENST00000534306	lincRNA	KNOWN	None	None	None	None	17516503	17525973	1	None	None
19	None	ENSG00000269640	ENST00000595892	lincRNA	KNOWN	None	None	None	None	17516550	17524112	1	None	None
19	None	ENSG00000269640	ENST00000500836	lincRNA	KNOWN	None	None	None	None	17516552	17526547	1	None	None
19	None	ENSG00000269640	ENST00000598546	lincRNA	KNOWN	None	None	None	None	17516553	17525258	1	None	None
19	None	ENSG00000269640	ENST00000600369	lincRNA	KNOWN	None	None	None	None	17516572	17525813	1	None	None
19	None	ENSG00000269640	ENST00000598356	lincRNA	KNOWN	None	None	None	None	17516587	17517168	1	None	None
19	None	ENSG00000269640	ENST00000594426	lincRNA	KNOWN	None	None	None	None	17516587	17525549	1	None	None
19	None	ENSG00000269640	ENST00000596322	lincRNA	KNOWN	None	None	None	None	17516633	17524003	1	None	None
19	None	ENSG00000269640	ENST00000600008	lincRNA	KNOWN	None	None	None	None	17516633	17525277	1	None	None
19	None	ENSG00000269640	ENST00000601885	lincRNA	KNOWN	None	None	None	None	17516633	17525763	1	None	None
19	None	ENSG00000269640	ENST00000601007	lincRNA	KNOWN	None	None	None	None	17516913	17529713	1	None	None
19	None	ENSG00000269640	ENST00000594913	lincRNA	KNOWN	None	None	None	None	17516924	17525156	1	None	None
19	None	ENSG00000269640	ENST00000599975	lincRNA	KNOWN	None	None	None	None	17516946	17529710	1	None	None
2	None	ENSG00000225226	ENST00000454367	lincRNA	KNOWN	None	None	None	None	58503012	58523683	1	None	None
19	None	ENSG00000268051	ENST00000601752	sense_intronic	KNOWN	None	None	None	None	38454493	38455430	1	None	None
7	None	ENSG00000233437	ENST00000448242	processed_transcript	KNOWN	None	None	None	None	56943078	56949839	-1	None	None
7	None	ENSG00000233437	ENST00000454719	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	56944193	56945245	-1	None	None
3	AKR1B1P2	ENSG00000213452	ENST00000494640	processed_pseudogene	KNOWN	None	425	None	None	74185110	74186043	1	ALDRP	None
3	LMLN	ENSG00000185621	ENST00000482695	protein_coding	KNOWN	None	15991	1923	640	197687071	197765568	1	None	Gp63, Msp
3	LMLN	ENSG00000185621	ENST00000330198	protein_coding	KNOWN	CCDS3332	15991	1968	655	197687071	197770591	1	None	Gp63, Msp
3	LMLN	ENSG00000185621	ENST00000419117	protein_coding	PUTATIVE	None	15991	454	150	197687073	197707317	1	None	Gp63, Msp
3	LMLN	ENSG00000185621	ENST00000451139	retained_intron	KNOWN	None	15991	None	None	197687088	197768966	1	None	Gp63, Msp
3	LMLN	ENSG00000185621	ENST00000420910	protein_coding	NOVEL	CCDS46988	15991	2079	692	197687093	197765882	1	None	Gp63, Msp
3	LMLN	ENSG00000185621	ENST00000332636	protein_coding	NOVEL	None	15991	1812	603	197687128	197765538	1	None	Gp63, Msp
3	LMLN	ENSG00000185621	ENST00000482837	retained_intron	KNOWN	None	15991	None	None	197703458	197707617	1	None	Gp63, Msp
3	LMLN	ENSG00000185621	ENST00000473676	retained_intron	KNOWN	None	15991	None	None	197707190	197726167	1	None	Gp63, Msp
3	LMLN	ENSG00000185621	ENST00000472063	retained_intron	KNOWN	None	15991	None	None	197712522	197723411	1	None	Gp63, Msp
3	LMLN	ENSG00000185621	ENST00000476356	retained_intron	KNOWN	None	15991	None	None	197712631	197746256	1	None	Gp63, Msp
3	LMLN	ENSG00000185621	ENST00000480813	retained_intron	KNOWN	None	15991	None	None	197717485	197726613	1	None	Gp63, Msp
1	None	ENSG00000226570	ENST00000418657	processed_pseudogene	KNOWN	None	None	None	None	182924525	182925283	-1	None	None
1	EFCAB14P1	ENSG00000228348	ENST00000442409	processed_pseudogene	KNOWN	None	44648	None	None	35587623	35588085	1	None	None
9	None	ENSG00000215236	ENST00000444159	processed_pseudogene	KNOWN	None	None	None	None	15361391	15362132	1	None	None
1	None	ENSG00000223231	ENST00000411299	miRNA	NOVEL	None	None	None	None	84259560	84259653	1	None	None
20	CD93	ENSG00000125810	ENST00000246006	protein_coding	KNOWN	CCDS13149	15855	1959	652	23059986	23066977	-1	MXRA4, C1QR1	C1qRP, C1qR(P), dJ737E23.1, CDw93, ECSM3
1	None	ENSG00000230026	ENST00000421884	processed_pseudogene	KNOWN	None	None	None	None	235524468	235525855	1	None	None
17	None	ENSG00000262231	ENST00000571062	retained_intron	KNOWN	None	None	None	None	6092681	6093183	-1	None	None
17	None	ENSG00000262231	ENST00000573698	lincRNA	KNOWN	None	None	None	None	6092774	6093861	-1	None	None
5	RN7SL802P	ENSG00000264318	ENST00000577858	misc_RNA	KNOWN	None	46818	None	None	100917534	100917830	1	None	None
1	TTLL7-IT1	ENSG00000233061	ENST00000455929	sense_intronic	KNOWN	None	41486	None	None	84444801	84449983	-1	None	None
1	None	ENSG00000201868	ENST00000364998	misc_RNA	NOVEL	None	None	None	None	35661570	35661663	1	None	None
17	KRT9	ENSG00000171403	ENST00000246662	protein_coding	KNOWN	CCDS32654	6447	1872	623	39722096	39728310	-1	None	EPPK, K9, CK-9
17	KRT9	ENSG00000171403	ENST00000588431	protein_coding	PUTATIVE	None	6447	1173	390	39722356	39728305	-1	None	EPPK, K9, CK-9
8	SDAD1P1	ENSG00000228451	ENST00000519902	processed_transcript	KNOWN	None	31403	None	None	26236775	26240469	-1	None	None
8	SDAD1P1	ENSG00000228451	ENST00000524156	transcribed_processed_pseudogene	KNOWN	None	31403	None	None	26236908	26239035	-1	None	None
5	None	ENSG00000251261	ENST00000513483	unprocessed_pseudogene	KNOWN	None	None	None	None	101152179	101152484	-1	None	None
5	None	ENSG00000251261	ENST00000342275	unprocessed_pseudogene	KNOWN	None	None	None	None	101152206	101152484	-1	None	None
1	RN7SL136P	ENSG00000263591	ENST00000583196	misc_RNA	KNOWN	None	46152	None	None	35729823	35730083	-1	None	None
1	RN7SL261P	ENSG00000242379	ENST00000460294	misc_RNA	KNOWN	None	46277	None	None	147161375	147161681	1	None	None
13	SERPINE3	ENSG00000253309	ENST00000524365	protein_coding	KNOWN	None	24774	1215	404	51909909	51938871	1	None	None
13	SERPINE3	ENSG00000253309	ENST00000419898	protein_coding	KNOWN	None	24774	143	46	51913826	51915370	1	None	None
13	SERPINE3	ENSG00000253309	ENST00000521255	protein_coding	KNOWN	CCDS53870	24774	1275	424	51915168	51936237	1	None	None
13	SERPINE3	ENSG00000253309	ENST00000400389	protein_coding	KNOWN	None	24774	1215	404	51915168	51938418	1	None	None
11	None	ENSG00000266859	ENST00000583110	miRNA	NOVEL	None	None	None	None	71616153	71616240	1	None	None
1	RN7SL503P	ENSG00000240374	ENST00000475222	misc_RNA	KNOWN	None	46519	None	None	35757801	35758099	-1	None	None
1	KRT18P28	ENSG00000176855	ENST00000453838	processed_pseudogene	KNOWN	None	33397	None	None	182928209	182929540	-1	None	None
1	None	ENSG00000229486	ENST00000421341	processed_pseudogene	KNOWN	None	None	None	None	84481548	84484054	-1	None	None
1	None	ENSG00000227139	ENST00000431525	lincRNA	KNOWN	None	None	None	None	147169914	147171461	1	None	None
2	C2orf40	ENSG00000119147	ENST00000493478	processed_transcript	KNOWN	None	24642	None	None	106679702	106688857	1	None	ECRG4, augurin
2	C2orf40	ENSG00000119147	ENST00000489174	processed_transcript	KNOWN	None	24642	None	None	106679713	106690695	1	None	ECRG4, augurin
2	C2orf40	ENSG00000119147	ENST00000409944	protein_coding	PUTATIVE	None	24642	339	112	106679750	106694611	1	None	ECRG4, augurin
2	C2orf40	ENSG00000119147	ENST00000238044	protein_coding	KNOWN	CCDS2072	24642	447	148	106682112	106694615	1	None	ECRG4, augurin
2	C2orf40	ENSG00000119147	ENST00000437659	protein_coding	PUTATIVE	None	24642	427	141	106682256	106694356	1	None	ECRG4, augurin
2	C2orf40	ENSG00000119147	ENST00000479337	retained_intron	KNOWN	None	24642	None	None	106690274	106694611	1	None	ECRG4, augurin
2	None	ENSG00000233723	ENST00000422723	lincRNA	KNOWN	None	None	None	None	58654934	59152836	1	None	None
2	None	ENSG00000233723	ENST00000429095	lincRNA	KNOWN	None	None	None	None	58655473	59152836	1	None	None
2	None	ENSG00000233723	ENST00000429664	lincRNA	KNOWN	None	None	None	None	58655473	59152836	1	None	None
2	None	ENSG00000233723	ENST00000452840	lincRNA	KNOWN	None	None	None	None	58655473	59290901	1	None	None
2	None	ENSG00000233723	ENST00000455219	lincRNA	KNOWN	None	None	None	None	58655520	58923190	1	None	None
2	None	ENSG00000233723	ENST00000449448	lincRNA	KNOWN	None	None	None	None	58655520	59231127	1	None	None
2	None	ENSG00000233723	ENST00000427421	lincRNA	KNOWN	None	None	None	None	58747888	59288788	1	None	None
2	None	ENSG00000233723	ENST00000422793	lincRNA	KNOWN	None	None	None	None	59151737	59158211	1	None	None
1	None	ENSG00000201542	ENST00000364672	snoRNA	NOVEL	None	None	None	None	35775875	35776026	1	None	None
12	None	ENSG00000226472	ENST00000222396	lincRNA	KNOWN	None	None	None	None	31149973	31158938	-1	None	None
12	None	ENSG00000226472	ENST00000418254	lincRNA	KNOWN	None	None	None	None	31150189	31158921	-1	None	None
12	None	ENSG00000226472	ENST00000544329	lincRNA	KNOWN	None	None	None	None	31151851	31158907	-1	None	None
14	None	ENSG00000259035	ENST00000554814	lincRNA	KNOWN	None	None	None	None	82207346	82496693	1	None	None
12	None	ENSG00000258234	ENST00000547523	lincRNA	KNOWN	None	None	None	None	48624881	48677993	-1	None	None
1	None	ENSG00000243533	ENST00000430613	antisense	KNOWN	None	None	None	None	235582830	235590298	-1	None	None
HG7_PATCH	TRBV27	ENSG00000261110	ENST00000564229	TR_V_gene	KNOWN	None	12208	344	113	142455848	142456363	1	None	TCRBV14S1, TCRBV27S1
20	TGIF2-C20orf24	ENSG00000259399	ENST00000558530	protein_coding	KNOWN	CCDS58772	44664	468	155	35202956	35240787	1	None	None
17	RNU6-1264P	ENSG00000206618	ENST00000383891	snRNA	KNOWN	None	48227	None	None	6110483	6110589	1	None	None
1	None	ENSG00000234482	ENST00000428911	antisense	KNOWN	None	None	None	None	147229426	147230517	1	None	None
1	RPL5P4	ENSG00000229994	ENST00000434805	processed_pseudogene	KNOWN	None	36095	None	None	35816323	35817208	1	None	None
19	BABAM1	ENSG00000105393	ENST00000598188	protein_coding	KNOWN	CCDS46012	25008	990	329	17378159	17390146	1	C19orf62	FLJ20571, HSPC142, NBA1, MERIT40
19	BABAM1	ENSG00000105393	ENST00000594247	nonsense_mediated_decay	KNOWN	None	25008	327	108	17378185	17392058	1	C19orf62	FLJ20571, HSPC142, NBA1, MERIT40
19	BABAM1	ENSG00000105393	ENST00000359435	protein_coding	KNOWN	CCDS46012	25008	990	329	17378195	17390146	1	C19orf62	FLJ20571, HSPC142, NBA1, MERIT40
19	BABAM1	ENSG00000105393	ENST00000599474	protein_coding	KNOWN	None	25008	600	199	17378246	17387334	1	C19orf62	FLJ20571, HSPC142, NBA1, MERIT40
19	BABAM1	ENSG00000105393	ENST00000599057	protein_coding	KNOWN	None	25008	544	180	17378252	17384994	1	C19orf62	FLJ20571, HSPC142, NBA1, MERIT40
19	BABAM1	ENSG00000105393	ENST00000595393	retained_intron	KNOWN	None	25008	None	None	17378252	17388332	1	C19orf62	FLJ20571, HSPC142, NBA1, MERIT40
19	BABAM1	ENSG00000105393	ENST00000601043	protein_coding	KNOWN	CCDS46012	25008	990	329	17378252	17390146	1	C19orf62	FLJ20571, HSPC142, NBA1, MERIT40
19	BABAM1	ENSG00000105393	ENST00000601171	nonsense_mediated_decay	KNOWN	None	25008	183	60	17378266	17384982	1	C19orf62	FLJ20571, HSPC142, NBA1, MERIT40
19	BABAM1	ENSG00000105393	ENST00000596335	protein_coding	NOVEL	None	25008	655	217	17378280	17387365	1	C19orf62	FLJ20571, HSPC142, NBA1, MERIT40
19	BABAM1	ENSG00000105393	ENST00000601436	protein_coding	NOVEL	None	25008	581	192	17378283	17386634	1	C19orf62	FLJ20571, HSPC142, NBA1, MERIT40
19	BABAM1	ENSG00000105393	ENST00000448635	processed_transcript	KNOWN	None	25008	None	None	17378287	17387364	1	C19orf62	FLJ20571, HSPC142, NBA1, MERIT40
19	BABAM1	ENSG00000105393	ENST00000595632	protein_coding	NOVEL	None	25008	765	254	17378311	17389981	1	C19orf62	FLJ20571, HSPC142, NBA1, MERIT40
19	BABAM1	ENSG00000105393	ENST00000601938	protein_coding	PUTATIVE	None	25008	712	236	17379368	17387359	1	C19orf62	FLJ20571, HSPC142, NBA1, MERIT40
19	BABAM1	ENSG00000105393	ENST00000602066	protein_coding	KNOWN	None	25008	677	224	17379494	17387411	1	C19orf62	FLJ20571, HSPC142, NBA1, MERIT40
19	BABAM1	ENSG00000105393	ENST00000598567	protein_coding	PUTATIVE	None	25008	293	96	17379806	17390148	1	C19orf62	FLJ20571, HSPC142, NBA1, MERIT40
19	BABAM1	ENSG00000105393	ENST00000598382	retained_intron	KNOWN	None	25008	None	None	17387237	17389793	1	C19orf62	FLJ20571, HSPC142, NBA1, MERIT40
19	BABAM1	ENSG00000105393	ENST00000601232	nonsense_mediated_decay	KNOWN	None	25008	99	32	17387623	17390151	1	C19orf62	FLJ20571, HSPC142, NBA1, MERIT40
19	BABAM1	ENSG00000105393	ENST00000447614	protein_coding	KNOWN	None	25008	990	329	17378252	17390144	1	C19orf62	FLJ20571, HSPC142, NBA1, MERIT40
3	RNU6-860P	ENSG00000222792	ENST00000410860	snRNA	KNOWN	None	47823	None	None	197923617	197923720	1	None	None
8	MTND6P20	ENSG00000254156	ENST00000522986	transcribed_processed_pseudogene	KNOWN	None	39483	None	None	47750410	47750827	1	None	None
8	None	ENSG00000272321	ENST00000605923	antisense	KNOWN	None	None	None	None	99448897	99451518	1	None	None
17	BTF3P14	ENSG00000262609	ENST00000571142	processed_pseudogene	KNOWN	None	38571	None	None	6225733	6226548	-1	None	None
12	None	ENSG00000270858	ENST00000603132	processed_pseudogene	KNOWN	None	None	None	None	55196530	55197373	-1	None	None
11	None	ENSG00000255296	ENST00000524791	processed_pseudogene	KNOWN	None	None	None	None	71649717	71650590	-1	None	None
8	FAM90A18P	ENSG00000231656	ENST00000527117	unprocessed_pseudogene	KNOWN	None	32266	None	None	7580613	7583623	1	FAM90A18	None
8	FAM90A18P	ENSG00000231656	ENST00000451412	unprocessed_pseudogene	KNOWN	None	32266	None	None	7580613	7591271	1	FAM90A18	None
8	FAM90A18P	ENSG00000231656	ENST00000452529	unprocessed_pseudogene	KNOWN	None	32266	None	None	7588261	7591823	1	FAM90A18	None
1	None	ENSG00000229795	ENST00000434479	processed_pseudogene	KNOWN	None	None	None	None	235596300	235596546	1	None	None
1	None	ENSG00000264768	ENST00000580734	miRNA	NOVEL	None	None	None	None	182928620	182928710	-1	None	None
1	None	ENSG00000234190	ENST00000426504	lincRNA	KNOWN	None	None	None	None	147249700	147261065	1	None	None
1	None	ENSG00000269620	ENST00000599780	protein_coding	KNOWN	None	None	276	91	159879884	159880159	-1	None	None
1	RNU6-41P	ENSG00000207472	ENST00000384741	snRNA	KNOWN	None	34247	None	None	182951347	182951453	-1	RNU6-41	None
8	RNU6-748P	ENSG00000207378	ENST00000384648	snRNA	KNOWN	None	47711	None	None	99475172	99475278	-1	None	None
3	None	ENSG00000212585	ENST00000391283	misc_RNA	NOVEL	None	None	None	None	74215203	74215290	1	None	None
5	LECT2	ENSG00000145826	ENST00000522943	protein_coding	PUTATIVE	None	6550	396	131	135257968	135290651	-1	None	chm-II, chm2
5	LECT2	ENSG00000145826	ENST00000471827	processed_transcript	KNOWN	None	6550	None	None	135274273	135288805	-1	None	chm-II, chm2
5	LECT2	ENSG00000145826	ENST00000274507	protein_coding	KNOWN	CCDS4190	6550	456	151	135282600	135290723	-1	None	chm-II, chm2
5	LECT2	ENSG00000145826	ENST00000512872	protein_coding	PUTATIVE	None	6550	240	79	135282839	135288827	-1	None	chm-II, chm2
5	LECT2	ENSG00000145826	ENST00000514447	protein_coding	PUTATIVE	None	6550	336	111	135286561	135290671	-1	None	chm-II, chm2
1	ZMYM4-AS1	ENSG00000227409	ENST00000432683	antisense	KNOWN	None	40624	None	None	35824423	35831678	-1	None	None
14	None	ENSG00000213641	ENST00000483820	processed_pseudogene	KNOWN	None	None	None	None	56010119	56010887	1	None	None
8	None	ENSG00000253911	ENST00000517397	antisense	KNOWN	None	None	None	None	99615481	99618568	1	None	None
1	None	ENSG00000224468	ENST00000457852	antisense	KNOWN	None	None	None	None	183107514	183110439	-1	None	None
1	None	ENSG00000223728	ENST00000458399	processed_pseudogene	KNOWN	None	None	None	None	147313096	147314493	1	None	None
11	SETP17	ENSG00000255222	ENST00000534163	processed_pseudogene	KNOWN	None	42936	None	None	86005802	86006618	1	None	None
3	None	ENSG00000263689	ENST00000581245	miRNA	NOVEL	None	None	None	None	74583934	74584022	-1	None	None
22	ZNRF3-AS1	ENSG00000177993	ENST00000325660	processed_transcript	KNOWN	None	41927	None	None	29420987	29427464	-1	None	None
3	CICP6	ENSG00000230304	ENST00000457191	processed_pseudogene	KNOWN	None	37755	None	None	197950368	197953181	-1	None	None
14	None	ENSG00000271484	ENST00000603375	unprocessed_pseudogene	KNOWN	None	None	None	None	56013392	56014841	1	None	None
8	None	ENSG00000254112	ENST00000520175	processed_pseudogene	KNOWN	None	None	None	None	99645775	99646093	1	None	None
10	FTLP19	ENSG00000237913	ENST00000433300	processed_pseudogene	KNOWN	None	37969	None	None	16113415	16113808	-1	None	None
1	None	ENSG00000238236	ENST00000457471	processed_pseudogene	KNOWN	None	None	None	None	235683269	235683983	1	None	None
3	NIPA2P2	ENSG00000241022	ENST00000496376	processed_pseudogene	KNOWN	None	42042	None	None	75133306	75134388	1	None	None
14	None	ENSG00000241891	ENST00000492764	processed_pseudogene	KNOWN	None	None	None	None	82243360	82243957	-1	None	None
17	None	ENSG00000262818	ENST00000570978	processed_pseudogene	KNOWN	None	None	None	None	6321005	6321584	1	None	None
12	CDK2AP1	ENSG00000111328	ENST00000261692	protein_coding	KNOWN	CCDS9245	14002	348	115	123745528	123756687	-1	None	DORC1, doc-1, DOC1, ST19, p12DOC-1
12	CDK2AP1	ENSG00000111328	ENST00000538446	protein_coding	PUTATIVE	CCDS58289	14002	264	87	123745550	123753786	-1	None	DORC1, doc-1, DOC1, ST19, p12DOC-1
12	CDK2AP1	ENSG00000111328	ENST00000535979	protein_coding	PUTATIVE	CCDS58289	14002	264	87	123745550	123755688	-1	None	DORC1, doc-1, DOC1, ST19, p12DOC-1
12	CDK2AP1	ENSG00000111328	ENST00000542174	protein_coding	PUTATIVE	CCDS58289	14002	264	87	123745559	123752624	-1	None	DORC1, doc-1, DOC1, ST19, p12DOC-1
12	CDK2AP1	ENSG00000111328	ENST00000544658	protein_coding	PUTATIVE	CCDS58289	14002	264	87	123745823	123756881	-1	None	DORC1, doc-1, DOC1, ST19, p12DOC-1
12	CDK2AP1	ENSG00000111328	ENST00000535796	protein_coding	PUTATIVE	None	14002	199	65	123749740	123752831	-1	None	DORC1, doc-1, DOC1, ST19, p12DOC-1
1	None	ENSG00000271576	ENST00000605506	lincRNA	KNOWN	None	None	None	None	84542014	84543614	-1	None	None
1	MTND6P14	ENSG00000235638	ENST00000433044	processed_pseudogene	KNOWN	None	39477	None	None	235700820	235701341	1	None	None
12	None	ENSG00000257870	ENST00000547559	lincRNA	KNOWN	None	None	None	None	55403530	55408031	1	None	None
17	OMG	ENSG00000126861	ENST00000584094	processed_transcript	PUTATIVE	None	8135	None	None	29599031	29600640	-1	None	OMGP
17	OMG	ENSG00000126861	ENST00000580156	processed_transcript	PUTATIVE	None	8135	None	None	29599467	29624248	-1	None	OMGP
17	OMG	ENSG00000126861	ENST00000582029	retained_intron	KNOWN	None	8135	None	None	29621593	29624557	-1	None	OMGP
17	OMG	ENSG00000126861	ENST00000247271	protein_coding	KNOWN	CCDS11265	8135	1323	440	29621665	29624429	-1	None	OMGP
1	RNY5P1	ENSG00000202129	ENST00000365259	misc_RNA	KNOWN	None	34082	None	None	35893417	35893494	-1	None	None
3	RN7SL294P	ENSG00000242638	ENST00000477271	misc_RNA	KNOWN	None	46310	None	None	75231907	75232199	-1	None	None
14	EIF3LP1	ENSG00000258501	ENST00000554099	processed_pseudogene	KNOWN	None	20010	None	None	82382575	82384232	1	EIF3S6IPP, EIF3EIPP1	None
8	RPL19P14	ENSG00000240870	ENST00000495884	processed_pseudogene	KNOWN	None	35684	None	None	99794283	99794856	1	None	None
1	None	ENSG00000233562	ENST00000454879	processed_pseudogene	KNOWN	None	None	None	None	183235737	183236420	1	None	None
5	None	ENSG00000224431	ENST00000425667	processed_pseudogene	KNOWN	None	None	None	None	131535149	131539180	1	None	None
12	None	ENSG00000258273	ENST00000549699	unprocessed_pseudogene	KNOWN	None	None	None	None	48727538	48727684	-1	None	None
3	MIR4444-1	ENSG00000266780	ENST00000584390	miRNA	KNOWN	None	41710	None	None	75263627	75263700	1	MIR4444	hsa-mir-4444
11	RN7SL225P	ENSG00000239856	ENST00000464648	misc_RNA	KNOWN	None	46241	None	None	86035056	86035351	-1	None	None
8	BAG4	ENSG00000156735	ENST00000521282	processed_transcript	KNOWN	None	940	None	None	38034051	38065259	1	None	SODD
8	BAG4	ENSG00000156735	ENST00000432471	protein_coding	NOVEL	CCDS56533	940	1266	421	38034106	38068406	1	None	SODD
8	BAG4	ENSG00000156735	ENST00000287322	protein_coding	KNOWN	CCDS6104	940	1374	457	38034117	38070819	1	None	SODD
8	BAG4	ENSG00000156735	ENST00000521311	protein_coding	PUTATIVE	None	940	468	155	38065111	38067075	1	None	SODD
12	None	ENSG00000257156	ENST00000549278	lincRNA	KNOWN	None	None	None	None	89441964	89703330	-1	None	None
12	None	ENSG00000257735	ENST00000548257	antisense	KNOWN	None	None	None	None	48744728	48836194	1	None	None
15	None	ENSG00000206849	ENST00000384122	snoRNA	NOVEL	None	None	None	None	32220506	32220637	1	None	None
1	None	ENSG00000213540	ENST00000448052	processed_pseudogene	KNOWN	None	None	None	None	84551424	84551916	1	None	None
1	None	ENSG00000236274	ENST00000442276	processed_pseudogene	KNOWN	None	None	None	None	35975343	35977039	1	None	None
17	RNA5SP435	ENSG00000200914	ENST00000364044	rRNA	KNOWN	None	43335	None	None	6504264	6504371	-1	RN5S435	None
12	None	ENSG00000256984	ENST00000537555	lincRNA	KNOWN	None	None	None	None	31165437	31168601	1	None	None
11	None	ENSG00000254733	ENST00000524610	antisense	KNOWN	None	None	None	None	86142632	86333909	1	None	None
1	SMG7-AS1	ENSG00000232860	ENST00000421703	lincRNA	KNOWN	None	24518	None	None	183430009	183440881	-1	None	DKFZP564C196
1	SMG7-AS1	ENSG00000232860	ENST00000432837	lincRNA	KNOWN	None	24518	None	None	183430881	183440864	-1	None	DKFZP564C196
1	MTND5P19	ENSG00000231199	ENST00000424872	processed_pseudogene	KNOWN	None	42301	None	None	235701352	235703145	-1	None	None
8	None	ENSG00000253415	ENST00000522128	processed_pseudogene	KNOWN	None	None	None	None	99916831	99917899	-1	None	None
20	KRT18P4	ENSG00000229222	ENST00000422599	processed_pseudogene	KNOWN	None	16604	None	None	48573282	48574569	1	None	dJ963K23.1, OTTHUMG00000032705
X	None	ENSG00000235975	ENST00000433780	processed_pseudogene	KNOWN	None	None	None	None	137888536	137889253	1	None	None
17	None	ENSG00000256806	ENST00000542475	pseudogene	NOVEL	None	None	None	None	6555059	6556617	1	None	None
1	TAGLN2	ENSG00000158710	ENST00000368096	protein_coding	KNOWN	None	11554	663	220	159887897	159893507	-1	None	KIAA0120, HA1756
1	TAGLN2	ENSG00000158710	ENST00000368097	protein_coding	KNOWN	CCDS1189	11554	600	199	159887897	159895522	-1	None	KIAA0120, HA1756
1	TAGLN2	ENSG00000158710	ENST00000478033	processed_transcript	KNOWN	None	11554	None	None	159888541	159895281	-1	None	KIAA0120, HA1756
1	TAGLN2	ENSG00000158710	ENST00000320307	protein_coding	KNOWN	CCDS1189	11554	600	199	159888567	159894341	-1	None	KIAA0120, HA1756
1	TAGLN2	ENSG00000158710	ENST00000397334	protein_coding	KNOWN	None	11554	562	186	159888628	159895019	-1	None	KIAA0120, HA1756
11	None	ENSG00000251143	ENST00000502284	antisense	KNOWN	None	None	None	None	71725337	71731956	1	None	None
2	RNF103	ENSG00000239305	ENST00000237455	protein_coding	KNOWN	CCDS33237	12859	2058	685	86830516	86850978	-1	ZFP103	hkf-1, KF1
2	RNF103	ENSG00000239305	ENST00000472030	retained_intron	KNOWN	None	12859	None	None	86830523	86841822	-1	ZFP103	hkf-1, KF1
2	RNF103	ENSG00000239305	ENST00000463333	processed_transcript	KNOWN	None	12859	None	None	86831443	86849951	-1	ZFP103	hkf-1, KF1
2	RNF103	ENSG00000239305	ENST00000477307	processed_transcript	KNOWN	None	12859	None	None	86831723	86850989	-1	ZFP103	hkf-1, KF1
2	RNF103	ENSG00000239305	ENST00000465629	retained_intron	KNOWN	None	12859	None	None	86843554	86850168	-1	ZFP103	hkf-1, KF1
2	RNF103	ENSG00000239305	ENST00000472680	processed_transcript	KNOWN	None	12859	None	None	86843832	86850988	-1	ZFP103	hkf-1, KF1
3	HNRNPA3P6	ENSG00000213300	ENST00000472163	processed_pseudogene	KNOWN	None	48495	None	None	75263782	75264787	1	None	None
3	HNRNPA3P6	ENSG00000213300	ENST00000393361	processed_pseudogene	KNOWN	None	48495	None	None	75264592	75264783	1	None	None
12	OR9K1P	ENSG00000196534	ENST00000326513	unprocessed_pseudogene	KNOWN	None	15338	None	None	55509317	55510257	1	None	None
12	OR9K1P	ENSG00000196534	ENST00000540374	unprocessed_pseudogene	KNOWN	None	15338	None	None	55509317	55510081	1	None	None
11	CTSF	ENSG00000174080	ENST00000310325	protein_coding	KNOWN	CCDS8144	2531	1455	484	66330934	66336067	-1	None	CATSF, CLN13
11	CTSF	ENSG00000174080	ENST00000527141	retained_intron	KNOWN	None	2531	None	None	66330935	66334966	-1	None	CATSF, CLN13
11	CTSF	ENSG00000174080	ENST00000525733	nonsense_mediated_decay	KNOWN	None	2531	247	81	66332008	66333628	-1	None	CATSF, CLN13
11	CTSF	ENSG00000174080	ENST00000524994	protein_coding	PUTATIVE	None	2531	846	281	66332046	66334990	-1	None	CATSF, CLN13
11	CTSF	ENSG00000174080	ENST00000530565	retained_intron	KNOWN	None	2531	None	None	66332213	66333605	-1	None	CATSF, CLN13
11	CTSF	ENSG00000174080	ENST00000529199	retained_intron	KNOWN	None	2531	None	None	66332269	66333619	-1	None	CATSF, CLN13
11	CTSF	ENSG00000174080	ENST00000529561	processed_transcript	KNOWN	None	2531	None	None	66333762	66335298	-1	None	CATSF, CLN13
11	CTSF	ENSG00000174080	ENST00000533168	processed_transcript	KNOWN	None	2531	None	None	66333762	66335300	-1	None	CATSF, CLN13
11	CTSF	ENSG00000174080	ENST00000526010	protein_coding	PUTATIVE	None	2531	361	119	66333846	66336312	-1	None	CATSF, CLN13
19	BSG	ENSG00000172270	ENST00000346916	protein_coding	KNOWN	CCDS12032	1116	618	205	571297	583493	1	OK	EMMPRIN, CD147
19	BSG	ENSG00000172270	ENST00000545507	protein_coding	KNOWN	CCDS58635	1116	531	176	571305	583493	1	OK	EMMPRIN, CD147
19	BSG	ENSG00000172270	ENST00000333511	protein_coding	KNOWN	CCDS12033	1116	1158	385	572565	583490	1	OK	EMMPRIN, CD147
19	BSG	ENSG00000172270	ENST00000576925	retained_intron	KNOWN	None	1116	None	None	572572	579979	1	OK	EMMPRIN, CD147
19	BSG	ENSG00000172270	ENST00000573216	protein_coding	NOVEL	None	1116	482	159	572572	581376	1	OK	EMMPRIN, CD147
19	BSG	ENSG00000172270	ENST00000353555	protein_coding	KNOWN	CCDS12034	1116	810	269	572578	583493	1	OK	EMMPRIN, CD147
19	BSG	ENSG00000172270	ENST00000590218	retained_intron	KNOWN	None	1116	None	None	572596	578212	1	OK	EMMPRIN, CD147
19	BSG	ENSG00000172270	ENST00000572899	retained_intron	KNOWN	None	1116	None	None	572596	580695	1	OK	EMMPRIN, CD147
19	BSG	ENSG00000172270	ENST00000573784	protein_coding	KNOWN	None	1116	253	83	575047	581402	1	OK	EMMPRIN, CD147
19	BSG	ENSG00000172270	ENST00000574970	processed_transcript	KNOWN	None	1116	None	None	575052	579629	1	OK	EMMPRIN, CD147
19	BSG	ENSG00000172270	ENST00000576984	protein_coding	KNOWN	None	1116	158	51	575221	580775	1	OK	EMMPRIN, CD147
19	BSG	ENSG00000172270	ENST00000571735	retained_intron	KNOWN	None	1116	None	None	578848	583492	1	OK	EMMPRIN, CD147
8	None	ENSG00000253803	ENST00000518269	processed_pseudogene	KNOWN	None	None	None	None	47782524	47783667	-1	None	None
3	None	ENSG00000226008	ENST00000439401	unprocessed_pseudogene	KNOWN	None	None	None	None	197955065	197955247	1	None	None
1	None	ENSG00000215859	ENST00000401008	lincRNA	KNOWN	None	None	None	None	147466094	147484331	-1	None	None
1	MTND4P10	ENSG00000226663	ENST00000446199	processed_pseudogene	KNOWN	None	42225	None	None	235703353	235704715	-1	None	None
13	None	ENSG00000221756	ENST00000408829	miRNA	NOVEL	None	None	None	None	27894150	27894296	1	None	None
6	GPR6	ENSG00000146360	ENST00000414000	protein_coding	KNOWN	None	4515	1134	377	110299514	110301742	1	None	None
6	GPR6	ENSG00000146360	ENST00000275169	protein_coding	KNOWN	CCDS5079	4515	1089	362	110300298	110301921	1	None	None
3	ZNF717	ENSG00000227124	ENST00000491507	processed_transcript	KNOWN	None	29448	None	None	75758794	75834670	-1	ZNF838	X17
3	ZNF717	ENSG00000227124	ENST00000477374	protein_coding	PUTATIVE	None	29448	345	114	75779112	75834704	-1	ZNF838	X17
3	ZNF717	ENSG00000227124	ENST00000478296	protein_coding	NOVEL	None	29448	2595	864	75785026	75834718	-1	ZNF838	X17
3	ZNF717	ENSG00000227124	ENST00000468296	protein_coding	NOVEL	None	29448	331	109	75788443	75834209	-1	ZNF838	X17
3	ZNF717	ENSG00000227124	ENST00000471541	protein_coding	NOVEL	None	29448	181	59	75788443	75834734	-1	ZNF838	X17
3	ZNF717	ENSG00000227124	ENST00000422325	protein_coding	KNOWN	None	29448	2745	914	75786029	75834255	-1	ZNF838	X17
3	ZNF717	ENSG00000227124	ENST00000400845	protein_coding	KNOWN	None	29448	2724	907	75786029	75834670	-1	ZNF838	X17
12	DDX11-AS1	ENSG00000245614	ENST00000500527	antisense	KNOWN	None	44176	None	None	31173697	31226781	-1	None	None
12	DDX11-AS1	ENSG00000245614	ENST00000535870	antisense	KNOWN	None	44176	None	None	31203850	31213684	-1	None	None
12	None	ENSG00000257763	ENST00000550421	unprocessed_pseudogene	KNOWN	None	None	None	None	48749575	48750397	-1	None	None
1	None	ENSG00000226970	ENST00000441775	processed_pseudogene	KNOWN	None	None	None	None	84710017	84710260	1	None	None
13	RNU6-70P	ENSG00000252247	ENST00000516438	snRNA	KNOWN	None	42560	None	None	27917785	27917883	-1	RNU6-70	None
15	None	ENSG00000261244	ENST00000565869	lincRNA	KNOWN	None	None	None	None	78208864	78214361	1	None	None
8	None	ENSG00000253745	ENST00000524012	lincRNA	KNOWN	None	None	None	None	47834183	47840454	1	None	None
13	None	ENSG00000229609	ENST00000431171	lincRNA	KNOWN	None	None	None	None	27947485	27948503	1	None	None
3	TMED10P2	ENSG00000239405	ENST00000474255	processed_pseudogene	KNOWN	None	38105	None	None	128256863	128257474	1	None	None
6	None	ENSG00000220556	ENST00000490892	processed_pseudogene	KNOWN	None	None	None	None	39007379	39007761	-1	None	None
17	EVPLL	ENSG00000214860	ENST00000399134	protein_coding	NOVEL	CCDS45626	35236	906	301	18280976	18292961	1	None	None
17	EVPLL	ENSG00000214860	ENST00000583003	processed_transcript	PUTATIVE	None	35236	None	None	18289718	18292691	1	None	None
22	None	ENSG00000226772	ENST00000456740	antisense	KNOWN	None	None	None	None	29495029	29507671	-1	None	None
5	CHCHD2P2	ENSG00000215006	ENST00000503744	processed_pseudogene	KNOWN	None	39586	None	None	68629756	68630076	1	None	None
7	ARMC10	ENSG00000170632	ENST00000428183	protein_coding	KNOWN	CCDS55145	21706	855	284	102715328	102740198	1	None	MGC3195, SVH
7	ARMC10	ENSG00000170632	ENST00000323716	protein_coding	KNOWN	CCDS5728	21706	1032	343	102715328	102740205	1	None	MGC3195, SVH
7	ARMC10	ENSG00000170632	ENST00000441711	protein_coding	KNOWN	CCDS55146	21706	927	308	102715328	102740205	1	None	MGC3195, SVH
7	ARMC10	ENSG00000170632	ENST00000454559	protein_coding	KNOWN	CCDS55148	21706	750	249	102715328	102740205	1	None	MGC3195, SVH
7	ARMC10	ENSG00000170632	ENST00000323735	nonsense_mediated_decay	KNOWN	None	21706	582	193	102715373	102739310	1	None	MGC3195, SVH
7	ARMC10	ENSG00000170632	ENST00000306450	nonsense_mediated_decay	KNOWN	None	21706	246	81	102715397	102739092	1	None	MGC3195, SVH
7	ARMC10	ENSG00000170632	ENST00000434153	protein_coding	NOVEL	None	21706	700	232	102715615	102738884	1	None	MGC3195, SVH
7	ARMC10	ENSG00000170632	ENST00000431642	protein_coding	NOVEL	None	21706	558	185	102727086	102739130	1	None	MGC3195, SVH
7	ARMC10	ENSG00000170632	ENST00000479145	retained_intron	KNOWN	None	21706	None	None	102736174	102739361	1	None	MGC3195, SVH
7	ARMC10	ENSG00000170632	ENST00000425331	protein_coding	KNOWN	CCDS55147	21706	855	284	102715328	102740196	1	None	MGC3195, SVH
7	ARMC10	ENSG00000170632	ENST00000541300	protein_coding	KNOWN	CCDS55149	21706	678	225	102715328	102740196	1	None	MGC3195, SVH
8	MRP63P7	ENSG00000254312	ENST00000518583	processed_pseudogene	KNOWN	None	29690	None	None	99918488	99918745	-1	None	None
11	RNU6-292P	ENSG00000206783	ENST00000384056	snRNA	KNOWN	None	47255	None	None	71758919	71758997	-1	None	None
17	None	ENSG00000261996	ENST00000576138	antisense	KNOWN	None	None	None	None	6556783	6558328	-1	None	None
3	MYLKP1	ENSG00000228868	ENST00000509077	unprocessed_pseudogene	KNOWN	None	7591	None	None	75377700	75388222	-1	MYLKP	None
3	None	ENSG00000240567	ENST00000473595	lincRNA	KNOWN	None	None	None	None	161144215	161166030	1	None	None
10	RNU6-1118P	ENSG00000222314	ENST00000410382	snRNA	KNOWN	None	48081	None	None	38712553	38712656	1	None	None
11	MIR3165	ENSG00000263742	ENST00000579874	miRNA	KNOWN	None	38335	None	None	71783274	71783348	-1	None	hsa-mir-3165
6	ANKRD18EP	ENSG00000217165	ENST00000405487	processed_pseudogene	KNOWN	None	43609	None	None	39078097	39080728	1	None	None
5	None	ENSG00000271045	ENST00000604683	processed_pseudogene	KNOWN	None	None	None	None	68645763	68646272	1	None	None
13	RNY1P1	ENSG00000201242	ENST00000364372	misc_RNA	KNOWN	None	42478	None	None	27976613	27976724	-1	None	None
15	None	ENSG00000201084	ENST00000364214	misc_RNA	NOVEL	None	None	None	None	32467448	32467552	-1	None	None
17	MIR4520A	ENSG00000264468	ENST00000582609	miRNA	KNOWN	None	41775	None	None	6558759	6558828	-1	None	hsa-mir-4520a
17	MIR4520B	ENSG00000264468	ENST00000582609	miRNA	KNOWN	None	41839	None	None	6558759	6558828	-1	None	hsa-mir-4520b
11	PTP4A1P6	ENSG00000254727	ENST00000531034	transcribed_processed_pseudogene	KNOWN	None	41933	None	None	86143140	86143617	1	None	None
1	None	ENSG00000265042	ENST00000577540	miRNA	NOVEL	None	None	None	None	183479810	183479899	-1	None	None
10	CICP9	ENSG00000228882	ENST00000444451	processed_pseudogene	KNOWN	None	37758	None	None	38741915	38744293	-1	None	None
1	PDZK1P2	ENSG00000244211	ENST00000425209	unprocessed_pseudogene	KNOWN	None	31975	None	None	147466533	147481824	-1	None	OTTHUMG00000074107
12	None	ENSG00000258024	ENST00000553218	unprocessed_pseudogene	KNOWN	None	None	None	None	48779200	48780048	-1	None	None
2	MIR3127	ENSG00000264157	ENST00000583925	miRNA	KNOWN	None	38269	None	None	97464015	97464090	1	None	hsa-mir-3127
4	None	ENSG00000250062	ENST00000509322	antisense	KNOWN	None	None	None	None	87039065	87048841	1	None	None
4	None	ENSG00000250062	ENST00000511917	antisense	KNOWN	None	None	None	None	87040867	87141079	1	None	None
5	RN7SL476P	ENSG00000263737	ENST00000579812	misc_RNA	KNOWN	None	46492	None	None	68751402	68751659	1	None	None
13	None	ENSG00000203602	ENST00000366409	pseudogene	NOVEL	None	None	None	None	28008286	28008752	-1	None	None
12	LINC00508	ENSG00000256971	ENST00000538901	lincRNA	KNOWN	None	43559	None	None	128425140	128434705	-1	None	None
1	None	ENSG00000199959	ENST00000363089	snoRNA	KNOWN	None	None	None	None	84743004	84743140	1	None	None
14	None	ENSG00000238978	ENST00000459196	snoRNA	NOVEL	None	None	None	None	82928432	82928532	1	None	None
1	None	ENSG00000231582	ENST00000415303	processed_pseudogene	KNOWN	None	None	None	None	235704712	235705006	-1	None	None
1	None	ENSG00000270009	ENST00000602484	lincRNA	KNOWN	None	None	None	None	183589981	183590626	-1	None	None
11	None	ENSG00000212089	ENST00000390800	miRNA	NOVEL	None	None	None	None	71789376	71789466	-1	None	None
20	RNU6-147P	ENSG00000206710	ENST00000383983	snRNA	KNOWN	None	47110	None	None	48588643	48588749	1	None	None
12	None	ENSG00000212533	ENST00000391231	snoRNA	NOVEL	None	None	None	None	31229801	31229950	-1	None	None
17	None	ENSG00000262990	ENST00000576277	processed_pseudogene	KNOWN	None	None	None	None	6653004	6653297	-1	None	None
15	RN7SL214P	ENSG00000242066	ENST00000487317	misc_RNA	KNOWN	None	46230	None	None	78209065	78209324	-1	None	None
5	RPS27P14	ENSG00000244717	ENST00000496370	processed_pseudogene	KNOWN	None	35923	None	None	68765710	68765963	1	None	None
2	RNA5SP101	ENSG00000252845	ENST00000517036	rRNA	KNOWN	None	42899	None	None	97622445	97622552	-1	RN5S101	None
13	RNU6-63P	ENSG00000252499	ENST00000516690	snRNA	KNOWN	None	42553	None	None	28062275	28062369	1	RNU6-63	None
2	None	ENSG00000231043	ENST00000434096	processed_pseudogene	KNOWN	None	None	None	None	58687427	58689167	-1	None	None
2	None	ENSG00000231043	ENST00000536694	processed_pseudogene	KNOWN	None	None	None	None	58688509	58689123	-1	None	None
11	None	ENSG00000238768	ENST00000459046	snoRNA	NOVEL	None	None	None	None	71815120	71815216	1	None	None
19	SF3A2	ENSG00000104897	ENST00000221494	protein_coding	KNOWN	CCDS12084	10766	1395	464	2236520	2248713	1	None	SF3a66, SAP62, PRPF11, Prp11
19	SF3A2	ENSG00000104897	ENST00000591121	protein_coding	KNOWN	None	10766	405	134	2236840	2246801	1	None	SF3a66, SAP62, PRPF11, Prp11
19	SF3A2	ENSG00000104897	ENST00000592314	nonsense_mediated_decay	KNOWN	None	10766	489	162	2236859	2247877	1	None	SF3a66, SAP62, PRPF11, Prp11
19	SF3A2	ENSG00000104897	ENST00000586396	protein_coding	KNOWN	None	10766	408	135	2237793	2246804	1	None	SF3a66, SAP62, PRPF11, Prp11
19	SF3A2	ENSG00000104897	ENST00000592839	retained_intron	KNOWN	None	10766	None	None	2243367	2245757	1	None	SF3a66, SAP62, PRPF11, Prp11
19	SF3A2	ENSG00000104897	ENST00000590034	retained_intron	KNOWN	None	10766	None	None	2243388	2244952	1	None	SF3a66, SAP62, PRPF11, Prp11
19	SF3A2	ENSG00000104897	ENST00000589118	retained_intron	KNOWN	None	10766	None	None	2243481	2245185	1	None	SF3a66, SAP62, PRPF11, Prp11
19	SF3A2	ENSG00000104897	ENST00000587637	retained_intron	KNOWN	None	10766	None	None	2245508	2247191	1	None	SF3a66, SAP62, PRPF11, Prp11
7	ICA1	ENSG00000003147	ENST00000402384	protein_coding	KNOWN	CCDS34602	5343	1452	483	8152814	8301911	-1	None	ICAp69
7	ICA1	ENSG00000003147	ENST00000265577	protein_coding	NOVEL	None	5343	1449	482	8152885	8301836	-1	None	ICAp69
7	ICA1	ENSG00000003147	ENST00000396675	protein_coding	KNOWN	CCDS34602	5343	1452	483	8152939	8301682	-1	None	ICAp69
7	ICA1	ENSG00000003147	ENST00000455539	nonsense_mediated_decay	KNOWN	None	5343	264	87	8153402	8301783	-1	None	ICAp69
7	ICA1	ENSG00000003147	ENST00000339809	nonsense_mediated_decay	KNOWN	None	5343	774	257	8153402	8302157	-1	None	ICAp69
7	ICA1	ENSG00000003147	ENST00000401396	protein_coding	PUTATIVE	None	5343	1416	471	8153409	8276524	-1	None	ICAp69
7	ICA1	ENSG00000003147	ENST00000486677	processed_transcript	KNOWN	None	5343	None	None	8167503	8301775	-1	None	ICAp69
7	ICA1	ENSG00000003147	ENST00000470696	retained_intron	KNOWN	None	5343	None	None	8181395	8197394	-1	None	ICAp69
7	ICA1	ENSG00000003147	ENST00000407906	protein_coding	PUTATIVE	None	5343	1053	350	8196187	8302242	-1	None	ICAp69
7	ICA1	ENSG00000003147	ENST00000317367	protein_coding	PUTATIVE	None	5343	768	255	8196746	8276524	-1	None	ICAp69
7	ICA1	ENSG00000003147	ENST00000490041	retained_intron	KNOWN	None	5343	None	None	8197961	8258089	-1	None	ICAp69
7	ICA1	ENSG00000003147	ENST00000447326	protein_coding	KNOWN	None	5343	486	161	8258028	8302173	-1	None	ICAp69
7	ICA1	ENSG00000003147	ENST00000476942	processed_transcript	KNOWN	None	5343	None	None	8258071	8258581	-1	None	ICAp69
7	ICA1	ENSG00000003147	ENST00000430867	protein_coding	KNOWN	None	5343	402	133	8258109	8301699	-1	None	ICAp69
7	ICA1	ENSG00000003147	ENST00000457755	nonsense_mediated_decay	KNOWN	None	5343	258	85	8260983	8301800	-1	None	ICAp69
7	ICA1	ENSG00000003147	ENST00000446305	protein_coding	NOVEL	None	5343	212	69	8268272	8302317	-1	None	ICAp69
7	ICA1	ENSG00000003147	ENST00000406470	protein_coding	KNOWN	CCDS34602	5343	1452	483	8152817	8302185	-1	None	ICAp69
7	ICA1	ENSG00000003147	ENST00000422063	protein_coding	KNOWN	None	5343	1539	512	8153553	8275556	-1	None	ICAp69
3	None	ENSG00000263782	ENST00000581859	miRNA	NOVEL	None	None	None	None	75395290	75395366	-1	None	None
20	C20orf24	ENSG00000101084	ENST00000344795	protein_coding	KNOWN	CCDS13280	15870	390	129	35234137	35240960	1	None	PNAS-11, RIP5
20	C20orf24	ENSG00000101084	ENST00000492721	nonsense_mediated_decay	KNOWN	None	15870	264	87	35234188	35240960	1	None	PNAS-11, RIP5
20	C20orf24	ENSG00000101084	ENST00000483815	nonsense_mediated_decay	KNOWN	None	15870	264	87	35234192	35240960	1	None	PNAS-11, RIP5
20	C20orf24	ENSG00000101084	ENST00000491113	retained_intron	KNOWN	None	15870	None	None	35234214	35236596	1	None	PNAS-11, RIP5
20	C20orf24	ENSG00000101084	ENST00000373852	protein_coding	KNOWN	CCDS56190	15870	414	137	35234220	35240960	1	None	PNAS-11, RIP5
20	C20orf24	ENSG00000101084	ENST00000342422	protein_coding	PUTATIVE	CCDS13279	15870	432	143	35234225	35240960	1	None	PNAS-11, RIP5
20	C20orf24	ENSG00000101084	ENST00000494506	retained_intron	KNOWN	None	15870	None	None	35236208	35240960	1	None	PNAS-11, RIP5
1	None	ENSG00000270994	ENST00000604110	processed_pseudogene	KNOWN	None	None	None	None	183678440	183679375	-1	None	None
2	None	ENSG00000238760	ENST00000459481	snoRNA	NOVEL	None	None	None	None	97647019	97647121	-1	None	None
1	None	ENSG00000249237	ENST00000510918	unitary_pseudogene	KNOWN	None	None	None	None	84810361	84815344	1	None	None
1	None	ENSG00000249237	ENST00000505585	processed_transcript	KNOWN	None	None	None	None	84810361	84815622	1	None	None
1	None	ENSG00000249237	ENST00000506295	processed_transcript	KNOWN	None	None	None	None	84810361	84815622	1	None	None
14	None	ENSG00000258743	ENST00000555798	lincRNA	KNOWN	None	None	None	None	83108964	83118001	1	None	None
14	None	ENSG00000258743	ENST00000553760	lincRNA	KNOWN	None	None	None	None	83108971	83124110	1	None	None
14	None	ENSG00000258743	ENST00000555150	lincRNA	KNOWN	None	None	None	None	83108976	83173169	1	None	None
14	None	ENSG00000258743	ENST00000556970	lincRNA	KNOWN	None	None	None	None	83108980	83153714	1	None	None
7	FAM115C	ENSG00000170379	ENST00000444908	protein_coding	KNOWN	CCDS34769	26878	2538	845	143318043	143422176	1	FAM139A	FLJ40722
7	FAM115C	ENSG00000170379	ENST00000518791	protein_coding	PUTATIVE	None	26878	1981	659	143318048	143422174	1	FAM139A	FLJ40722
7	FAM115C	ENSG00000170379	ENST00000357344	protein_coding	KNOWN	CCDS34769	26878	2538	845	143318542	143422174	1	FAM139A	FLJ40722
7	FAM115C	ENSG00000170379	ENST00000441159	protein_coding	KNOWN	None	26878	2760	919	143318545	143427502	1	FAM139A	FLJ40722
7	FAM115C	ENSG00000170379	ENST00000411935	protein_coding	NOVEL	CCDS47735	26878	2448	815	143411868	143425091	1	FAM139A	FLJ40722
7	FAM115C	ENSG00000170379	ENST00000409703	protein_coding	KNOWN	CCDS47735	26878	2448	815	143412939	143427173	1	FAM139A	FLJ40722
7	FAM115C	ENSG00000170379	ENST00000411497	protein_coding	KNOWN	None	26878	1695	564	143318048	143422174	1	FAM139A	FLJ40722
7	FAM115C	ENSG00000170379	ENST00000425618	protein_coding	KNOWN	None	26878	1695	564	143412939	143421823	1	FAM139A	FLJ40722
12	None	ENSG00000257792	ENST00000548060	unprocessed_pseudogene	KNOWN	None	None	None	None	48788293	48789175	-1	None	None
13	NPM1P4	ENSG00000226703	ENST00000414095	processed_pseudogene	KNOWN	None	7924	None	None	28270530	28271341	-1	NPMP4	NG4-5
17	RPL23AP73	ENSG00000244283	ENST00000492507	processed_pseudogene	KNOWN	None	36443	None	None	6653037	6653507	1	None	None
20	LINC00651	ENSG00000231265	ENST00000431460	lincRNA	KNOWN	None	44307	None	None	48657253	48658041	-1	LINC00651	ncRNA-a7, treRNA
12	None	ENSG00000270926	ENST00000605711	unprocessed_pseudogene	KNOWN	None	None	None	None	31258039	31259764	-1	None	None
2	None	ENSG00000248134	ENST00000510981	unprocessed_pseudogene	KNOWN	None	None	None	None	97684080	97684341	-1	None	None
1	MTND3P8	ENSG00000232714	ENST00000412909	processed_pseudogene	KNOWN	None	42153	None	None	235705059	235705397	-1	None	None
15	None	ENSG00000214646	ENST00000563867	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	78233784	78235089	-1	None	None
15	None	ENSG00000214646	ENST00000568184	processed_transcript	KNOWN	None	None	None	None	78234241	78236924	-1	None	None
15	None	ENSG00000214646	ENST00000398727	unprocessed_pseudogene	KNOWN	None	None	None	None	78232253	78235091	-1	None	None
2	NLRC4	ENSG00000091106	ENST00000360906	protein_coding	KNOWN	CCDS33174	16412	3075	1024	32449522	32490801	-1	CARD12	CLAN1, ipaf, CLANA, CLANB, CLANC, CLAND, CLR2.1, CLAN
2	NLRC4	ENSG00000091106	ENST00000402280	protein_coding	KNOWN	CCDS33174	16412	3075	1024	32449523	32489949	-1	CARD12	CLAN1, ipaf, CLANA, CLANB, CLANC, CLAND, CLR2.1, CLAN
2	NLRC4	ENSG00000091106	ENST00000342905	protein_coding	KNOWN	None	16412	1080	359	32449524	32490801	-1	CARD12	CLAN1, ipaf, CLANA, CLANB, CLANC, CLAND, CLR2.1, CLAN
2	NLRC4	ENSG00000091106	ENST00000404025	protein_coding	KNOWN	CCDS33174	16412	3075	1024	32449525	32490923	-1	CARD12	CLAN1, ipaf, CLANA, CLANB, CLANC, CLAND, CLR2.1, CLAN
X	CYSLTR1	ENSG00000173198	ENST00000373304	protein_coding	KNOWN	CCDS14439	17451	1014	337	77526961	77582980	-1	None	CysLT1, CysLT(1), CYSLT1R
X	CYSLTR1	ENSG00000173198	ENST00000493254	processed_transcript	KNOWN	None	17451	None	None	77574394	77583048	-1	None	CysLT1, CysLT(1), CYSLT1R
22	RNU6-810P	ENSG00000200871	ENST00000364001	snRNA	KNOWN	None	47773	None	None	29530002	29530108	1	None	None
12	None	ENSG00000256643	ENST00000543651	lincRNA	KNOWN	None	None	None	None	128508333	128511711	-1	None	None
12	None	ENSG00000257350	ENST00000553115	processed_pseudogene	KNOWN	None	None	None	None	55516452	55517904	-1	None	None
9	MAMDC2	ENSG00000165072	ENST00000377182	protein_coding	KNOWN	CCDS6631	23673	2061	686	72658497	72841886	1	None	MGC21981
9	MAMDC2	ENSG00000165072	ENST00000460688	processed_transcript	KNOWN	None	23673	None	None	72783531	72785698	1	None	MGC21981
6	None	ENSG00000218986	ENST00000305491	processed_pseudogene	KNOWN	None	None	None	None	39321523	39321948	1	None	None
12	RNU7-120P	ENSG00000238302	ENST00000459334	snRNA	KNOWN	None	45654	None	None	89676000	89676062	-1	None	None
2	TRIM43CP	ENSG00000144188	ENST00000422468	unprocessed_pseudogene	KNOWN	None	43981	None	None	97691718	97697373	-1	None	None
11	RPEP6	ENSG00000257075	ENST00000546228	processed_pseudogene	KNOWN	None	44525	None	None	71842328	71842953	1	None	None
4	RN7SKP96	ENSG00000252757	ENST00000516948	misc_RNA	KNOWN	None	45820	None	None	87257471	87257767	-1	None	None
1	None	ENSG00000239636	ENST00000425881	antisense	KNOWN	None	None	None	None	36035414	36039348	-1	None	None
1	None	ENSG00000239636	ENST00000444348	antisense	KNOWN	None	None	None	None	36035416	36043330	-1	None	None
3	OR7E66P	ENSG00000243674	ENST00000479200	unprocessed_pseudogene	KNOWN	None	8442	None	None	75396984	75397938	-1	OR7E6P, OR7E20P	hg630, HG630, OR3DG, OR3.3
1	None	ENSG00000235761	ENST00000425787	processed_pseudogene	KNOWN	None	None	None	None	235705459	235705690	-1	None	None
4	MIR4452	ENSG00000266515	ENST00000583004	miRNA	KNOWN	None	41539	None	None	87463635	87463705	-1	None	hsa-mir-4452
12	None	ENSG00000268028	ENST00000594966	protein_coding	KNOWN	None	None	141	46	65090189	65090329	-1	None	None
11	None	ENSG00000256518	ENST00000544535	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	71869866	71870778	1	None	None
11	None	ENSG00000256518	ENST00000542477	processed_transcript	KNOWN	None	None	None	None	71869877	71870905	1	None	None
1	None	ENSG00000227554	ENST00000451829	antisense	KNOWN	None	None	None	None	183723553	183724072	-1	None	None
3	None	ENSG00000269888	ENST00000602890	lincRNA	KNOWN	None	None	None	None	161146900	161147401	1	None	None
1	RNU1-129P	ENSG00000206791	ENST00000384064	snRNA	KNOWN	None	48471	None	None	147486649	147486815	-1	None	None
3	POU5F1P6	ENSG00000242551	ENST00000466990	unprocessed_pseudogene	KNOWN	None	33312	None	None	128393578	128395848	-1	None	None
4	None	ENSG00000243312	ENST00000480094	processed_pseudogene	KNOWN	None	None	None	None	87791344	87792557	1	None	None
8	None	ENSG00000253782	ENST00000519032	lincRNA	KNOWN	None	None	None	None	47842462	47846068	-1	None	None
1	None	ENSG00000229952	ENST00000446766	lincRNA	KNOWN	None	None	None	None	147494090	147498172	1	None	None
1	None	ENSG00000229952	ENST00000422157	lincRNA	KNOWN	None	None	None	None	147496676	147498172	1	None	None
20	None	ENSG00000237595	ENST00000435301	lincRNA	KNOWN	None	None	None	None	48780001	48782639	-1	None	None
17	LYRM9	ENSG00000232859	ENST00000379103	protein_coding	KNOWN	CCDS45631	27314	237	78	26205340	26219347	-1	C17orf108	HSD24
17	LYRM9	ENSG00000232859	ENST00000460380	protein_coding	PUTATIVE	None	27314	261	86	26205384	26220385	-1	C17orf108	HSD24
17	LYRM9	ENSG00000232859	ENST00000508862	protein_coding	NOVEL	None	27314	279	92	26206077	26220409	-1	C17orf108	HSD24
17	LYRM9	ENSG00000232859	ENST00000379102	protein_coding	KNOWN	CCDS45631	27314	237	78	26206320	26220409	-1	C17orf108	HSD24
17	LYRM9	ENSG00000232859	ENST00000503642	protein_coding	PUTATIVE	None	27314	261	86	26207217	26219537	-1	C17orf108	HSD24
17	LYRM9	ENSG00000232859	ENST00000508816	protein_coding	KNOWN	None	27314	83	26	26209638	26210323	-1	C17orf108	HSD24
17	LYRM9	ENSG00000232859	ENST00000582343	retained_intron	KNOWN	None	27314	None	None	26218955	26221778	-1	C17orf108	HSD24
1	None	ENSG00000199840	ENST00000362970	misc_RNA	NOVEL	None	None	None	None	184140848	184140957	-1	None	None
1	None	ENSG00000270710	ENST00000603908	processed_pseudogene	KNOWN	None	None	None	None	235729061	235730237	1	None	None
9	RNU6-319P	ENSG00000251834	ENST00000516025	snRNA	KNOWN	None	47282	None	None	15431897	15432004	-1	None	None
14	JAG2	ENSG00000184916	ENST00000331782	protein_coding	KNOWN	CCDS9998	6189	3717	1238	105607318	105635161	-1	None	None
14	JAG2	ENSG00000184916	ENST00000347004	protein_coding	KNOWN	CCDS9999	6189	3603	1200	105607319	105635161	-1	None	None
14	JAG2	ENSG00000184916	ENST00000546616	retained_intron	KNOWN	None	6189	None	None	105608092	105613695	-1	None	None
14	JAG2	ENSG00000184916	ENST00000553244	retained_intron	KNOWN	None	6189	None	None	105613299	105614731	-1	None	None
14	JAG2	ENSG00000184916	ENST00000553051	retained_intron	KNOWN	None	6189	None	None	105617977	105624146	-1	None	None
3	OR7E22P	ENSG00000179799	ENST00000478335	unprocessed_pseudogene	KNOWN	None	8394	None	None	75405667	75406654	-1	None	OR6DG, OR3.6
3	OR7E22P	ENSG00000179799	ENST00000331736	unprocessed_pseudogene	KNOWN	None	8394	None	None	75405678	75406574	-1	None	OR6DG, OR3.6
2	EFHD1	ENSG00000115468	ENST00000409613	protein_coding	PUTATIVE	CCDS58755	29556	432	143	233470767	233547050	1	None	FLJ13612
2	EFHD1	ENSG00000115468	ENST00000264059	protein_coding	KNOWN	CCDS2497	29556	720	239	233497938	233547491	1	None	FLJ13612
2	EFHD1	ENSG00000115468	ENST00000442845	nonsense_mediated_decay	KNOWN	None	29556	298	98	233498426	233546484	1	None	FLJ13612
2	EFHD1	ENSG00000115468	ENST00000409708	protein_coding	PUTATIVE	None	29556	384	127	233502851	233547484	1	None	FLJ13612
2	EFHD1	ENSG00000115468	ENST00000427698	protein_coding	PUTATIVE	None	29556	244	80	233526405	233537148	1	None	FLJ13612
2	EFHD1	ENSG00000115468	ENST00000410095	protein_coding	PUTATIVE	None	29556	384	127	233527443	233547480	1	None	FLJ13612
1	None	ENSG00000207080	ENST00000384352	misc_RNA	NOVEL	None	None	None	None	184284792	184284899	1	None	None
8	MAPK6PS4	ENSG00000215179	ENST00000517873	processed_pseudogene	KNOWN	None	18456	None	None	47884099	47886240	-1	None	Erk3ps4
9	RN7SL98P	ENSG00000240613	ENST00000462271	misc_RNA	KNOWN	None	46114	None	None	15525782	15526079	-1	None	None
1	UOX	ENSG00000240520	ENST00000471089	unitary_pseudogene	KNOWN	None	12575	None	None	84831111	84863514	-1	None	UOXP
1	UOX	ENSG00000240520	ENST00000483236	processed_transcript	KNOWN	None	12575	None	None	84833344	84850435	-1	None	UOXP
2	None	ENSG00000222030	ENST00000409590	lincRNA	KNOWN	None	None	None	None	59444843	59506535	1	None	None
HSCHR18_1_CTG1_1	None	ENSG00000262132	ENST00000576449	rRNA	NOVEL	None	None	None	None	47845372	47845490	1	None	None
1	None	ENSG00000231791	ENST00000449525	lincRNA	KNOWN	None	None	None	None	184298205	184301960	1	None	None
12	None	ENSG00000256551	ENST00000540745	lincRNA	KNOWN	None	None	None	None	128571530	128602677	-1	None	None
12	None	ENSG00000256551	ENST00000536341	lincRNA	KNOWN	None	None	None	None	128596774	128602675	-1	None	None
1	RNVU1-9	ENSG00000206585	ENST00000383858	snRNA	KNOWN	None	37499	None	None	147511004	147511167	-1	RNU1-6P, RNU1-26P	vU1.9
1	RN7SL281P	ENSG00000239859	ENST00000464618	misc_RNA	KNOWN	None	46297	None	None	36171626	36171875	-1	None	None
4	PAPSS1	ENSG00000138801	ENST00000514815	processed_transcript	KNOWN	None	8603	None	None	108511433	108552960	-1	None	ATPSK1, PAPSS
4	PAPSS1	ENSG00000138801	ENST00000265174	protein_coding	KNOWN	CCDS3676	8603	1875	624	108534822	108641608	-1	None	ATPSK1, PAPSS
4	PAPSS1	ENSG00000138801	ENST00000511304	processed_transcript	KNOWN	None	8603	None	None	108574649	108641378	-1	None	ATPSK1, PAPSS
4	PAPSS1	ENSG00000138801	ENST00000502431	processed_transcript	KNOWN	None	8603	None	None	108581116	108641179	-1	None	ATPSK1, PAPSS
4	PAPSS1	ENSG00000138801	ENST00000514489	processed_transcript	KNOWN	None	8603	None	None	108608268	108641382	-1	None	ATPSK1, PAPSS
4	PAPSS1	ENSG00000138801	ENST00000506544	retained_intron	KNOWN	None	8603	None	None	108608285	108615454	-1	None	ATPSK1, PAPSS
4	PAPSS1	ENSG00000138801	ENST00000512641	processed_transcript	KNOWN	None	8603	None	None	108614926	108641273	-1	None	ATPSK1, PAPSS
4	PAPSS1	ENSG00000138801	ENST00000504987	processed_transcript	KNOWN	None	8603	None	None	108614996	108641369	-1	None	ATPSK1, PAPSS
9	FTH1P12	ENSG00000213362	ENST00000432137	processed_pseudogene	KNOWN	None	3982	None	None	15527131	15527681	-1	FTHL12	None
HSCHR18_1_CTG1_1	None	ENSG00000262326	ENST00000577029	miRNA	NOVEL	None	None	None	None	47927311	47927418	-1	None	None
X	GPR143	ENSG00000101850	ENST00000467482	protein_coding	KNOWN	CCDS14134	20145	1215	404	9693386	9734004	-1	OA1	None
X	GPR143	ENSG00000101850	ENST00000487206	processed_transcript	KNOWN	None	20145	None	None	9706269	9707759	-1	OA1	None
X	GPR143	ENSG00000101850	ENST00000447366	protein_coding	KNOWN	None	20145	859	285	9707592	9754337	-1	OA1	None
X	GPR143	ENSG00000101850	ENST00000431126	protein_coding	KNOWN	None	20145	515	170	9711605	9734229	-1	OA1	None
X	GPR143	ENSG00000101850	ENST00000480178	processed_transcript	KNOWN	None	20145	None	None	9715873	9727434	-1	OA1	None
X	GPR143	ENSG00000101850	ENST00000380929	protein_coding	KNOWN	None	20145	1275	424	9693454	9734005	-1	OA1	None
12	MRPS6P4	ENSG00000257820	ENST00000553035	processed_pseudogene	KNOWN	None	29782	None	None	89713141	89713426	1	None	None
2	None	ENSG00000230343	ENST00000451098	unprocessed_pseudogene	KNOWN	None	None	None	None	97700179	97700443	1	None	None
16	VPS9D1	ENSG00000075399	ENST00000561976	protein_coding	PUTATIVE	None	13526	1686	561	89773542	89785777	-1	C16orf7	ATP-BL
16	VPS9D1	ENSG00000075399	ENST00000389386	protein_coding	KNOWN	CCDS42220	13526	1896	631	89773542	89787394	-1	C16orf7	ATP-BL
16	VPS9D1	ENSG00000075399	ENST00000565023	protein_coding	NOVEL	None	13526	698	231	89774192	89777050	-1	C16orf7	ATP-BL
16	VPS9D1	ENSG00000075399	ENST00000568691	retained_intron	KNOWN	None	13526	None	None	89777341	89779488	-1	C16orf7	ATP-BL
16	VPS9D1	ENSG00000075399	ENST00000565452	processed_transcript	KNOWN	None	13526	None	None	89777373	89778052	-1	C16orf7	ATP-BL
16	VPS9D1	ENSG00000075399	ENST00000567379	retained_intron	KNOWN	None	13526	None	None	89777767	89779448	-1	C16orf7	ATP-BL
16	VPS9D1	ENSG00000075399	ENST00000563798	nonsense_mediated_decay	KNOWN	None	13526	159	52	89777801	89787293	-1	C16orf7	ATP-BL
1	None	ENSG00000232335	ENST00000373226	antisense	KNOWN	None	None	None	None	36204990	36209177	1	None	None
1	None	ENSG00000227236	ENST00000424229	processed_pseudogene	KNOWN	None	None	None	None	235777974	235779697	1	None	None
11	None	ENSG00000254731	ENST00000526206	lincRNA	KNOWN	None	None	None	None	86414141	86425134	1	None	None
2	None	ENSG00000236847	ENST00000457656	unprocessed_pseudogene	KNOWN	None	None	None	None	97701198	97703286	-1	None	None
1	RN7SL654P	ENSG00000244568	ENST00000479178	misc_RNA	KNOWN	None	46670	None	None	184304792	184305081	1	None	None
1	None	ENSG00000227778	ENST00000436798	unprocessed_pseudogene	KNOWN	None	None	None	None	147552868	147566056	1	None	None
1	None	ENSG00000227778	ENST00000545119	unprocessed_pseudogene	KNOWN	None	None	None	None	147560784	147566198	1	None	None
2	None	ENSG00000271955	ENST00000606382	lincRNA	KNOWN	None	None	None	None	59445815	60327335	-1	None	None
1	CCNL2	ENSG00000221978	ENST00000480479	retained_intron	KNOWN	None	20570	None	None	1321091	1326476	-1	CCNM	ania-6b, PCEE, SB138, HLA-ISO
1	CCNL2	ENSG00000221978	ENST00000482621	nonsense_mediated_decay	KNOWN	None	20570	139	45	1321862	1333684	-1	CCNM	ania-6b, PCEE, SB138, HLA-ISO
1	CCNL2	ENSG00000221978	ENST00000463260	retained_intron	KNOWN	None	20570	None	None	1321875	1324093	-1	CCNM	ania-6b, PCEE, SB138, HLA-ISO
1	CCNL2	ENSG00000221978	ENST00000400809	protein_coding	KNOWN	CCDS30557	20570	1563	520	1321875	1334692	-1	CCNM	ania-6b, PCEE, SB138, HLA-ISO
1	CCNL2	ENSG00000221978	ENST00000496007	retained_intron	KNOWN	None	20570	None	None	1321879	1334689	-1	CCNM	ania-6b, PCEE, SB138, HLA-ISO
1	CCNL2	ENSG00000221978	ENST00000482365	retained_intron	KNOWN	None	20570	None	None	1321882	1327134	-1	CCNM	ania-6b, PCEE, SB138, HLA-ISO
1	CCNL2	ENSG00000221978	ENST00000481223	nonsense_mediated_decay	KNOWN	None	20570	711	236	1322088	1334691	-1	CCNM	ania-6b, PCEE, SB138, HLA-ISO
1	CCNL2	ENSG00000221978	ENST00000418865	retained_intron	KNOWN	None	20570	None	None	1322093	1327905	-1	CCNM	ania-6b, PCEE, SB138, HLA-ISO
1	CCNL2	ENSG00000221978	ENST00000505849	processed_transcript	KNOWN	None	20570	None	None	1322502	1327029	-1	CCNM	ania-6b, PCEE, SB138, HLA-ISO
1	CCNL2	ENSG00000221978	ENST00000488340	nonsense_mediated_decay	KNOWN	None	20570	684	227	1322612	1334708	-1	CCNM	ania-6b, PCEE, SB138, HLA-ISO
1	CCNL2	ENSG00000221978	ENST00000492998	retained_intron	KNOWN	None	20570	None	None	1322923	1326280	-1	CCNM	ania-6b, PCEE, SB138, HLA-ISO
1	CCNL2	ENSG00000221978	ENST00000469113	processed_transcript	KNOWN	None	20570	None	None	1323403	1328096	-1	CCNM	ania-6b, PCEE, SB138, HLA-ISO
1	CCNL2	ENSG00000221978	ENST00000480646	retained_intron	KNOWN	None	20570	None	None	1324726	1326384	-1	CCNM	ania-6b, PCEE, SB138, HLA-ISO
1	CCNL2	ENSG00000221978	ENST00000471930	processed_transcript	KNOWN	None	20570	None	None	1326533	1333746	-1	CCNM	ania-6b, PCEE, SB138, HLA-ISO
1	CCNL2	ENSG00000221978	ENST00000408918	protein_coding	KNOWN	CCDS30558	20570	681	226	1327668	1334697	-1	CCNM	ania-6b, PCEE, SB138, HLA-ISO
1	CCNL2	ENSG00000221978	ENST00000473872	retained_intron	KNOWN	None	20570	None	None	1328460	1333667	-1	CCNM	ania-6b, PCEE, SB138, HLA-ISO
1	CCNL2	ENSG00000221978	ENST00000425598	nonsense_mediated_decay	KNOWN	None	20570	543	180	1328824	1334705	-1	CCNM	ania-6b, PCEE, SB138, HLA-ISO
1	CCNL2	ENSG00000221978	ENST00000463895	retained_intron	KNOWN	None	20570	None	None	1330565	1333667	-1	CCNM	ania-6b, PCEE, SB138, HLA-ISO
1	CCNL2	ENSG00000221978	ENST00000497013	protein_coding	PUTATIVE	None	20570	257	84	1330817	1334336	-1	CCNM	ania-6b, PCEE, SB138, HLA-ISO
1	CCNL2	ENSG00000221978	ENST00000408952	protein_coding	KNOWN	None	20570	897	298	1321862	1333684	-1	CCNM	ania-6b, PCEE, SB138, HLA-ISO
1	None	ENSG00000271387	ENST00000605589	lincRNA	KNOWN	None	None	None	None	184354887	184355838	-1	None	None
5	None	ENSG00000249495	ENST00000515228	processed_pseudogene	KNOWN	None	None	None	None	101312000	101312502	1	None	None
1	None	ENSG00000271164	ENST00000604465	processed_pseudogene	KNOWN	None	None	None	None	36338871	36339353	-1	None	None
12	OR9R1P	ENSG00000224622	ENST00000412200	unprocessed_pseudogene	KNOWN	None	15340	None	None	55552631	55553507	1	None	None
9	RNU6-246P	ENSG00000207433	ENST00000384702	snRNA	KNOWN	None	47209	None	None	15544186	15544292	1	None	None
4	None	ENSG00000250202	ENST00000512654	processed_pseudogene	KNOWN	None	None	None	None	87797491	87797805	1	None	None
12	OR8T1P	ENSG00000226413	ENST00000421347	unprocessed_pseudogene	KNOWN	None	19630	None	None	48835813	48836730	-1	None	None
7	MACC1	ENSG00000183742	ENST00000400331	protein_coding	KNOWN	CCDS5369	30215	2559	852	20174278	20257013	-1	None	7A5, SH3BP4L
7	MACC1	ENSG00000183742	ENST00000332878	protein_coding	KNOWN	CCDS5369	30215	2559	852	20180248	20257027	-1	None	7A5, SH3BP4L
7	MACC1	ENSG00000183742	ENST00000589011	protein_coding	KNOWN	CCDS5369	30215	2559	852	20180540	20224701	-1	None	7A5, SH3BP4L
7	MACC1	ENSG00000183742	ENST00000471019	processed_transcript	KNOWN	None	30215	None	None	20203992	20256980	-1	None	7A5, SH3BP4L
7	MACC1	ENSG00000183742	ENST00000483317	retained_intron	KNOWN	None	30215	None	None	20209851	20256975	-1	None	7A5, SH3BP4L
8	RN7SKP85	ENSG00000223281	ENST00000411349	misc_RNA	KNOWN	None	45809	None	None	99933461	99933778	-1	None	None
9	HMGN2P16	ENSG00000231376	ENST00000456802	processed_pseudogene	KNOWN	None	31330	None	None	15588353	15588613	1	HMGN2L	Em:AL513423.2
11	C11orf71	ENSG00000180425	ENST00000325636	protein_coding	KNOWN	CCDS8369	25937	444	147	114262165	114271139	-1	None	FLJ20010
HG185_PATCH	JUP	ENSG00000261577	ENST00000565220	protein_coding	KNOWN	None	6207	2238	745	39910856	39941407	-1	CTNNG	DP3, PDGB, PKGB, DPIII
HG185_PATCH	JUP	ENSG00000261577	ENST00000562805	protein_coding	KNOWN	None	6207	2238	745	39910856	39942950	-1	CTNNG	DP3, PDGB, PKGB, DPIII
HG185_PATCH	JUP	ENSG00000261577	ENST00000565780	protein_coding	KNOWN	None	6207	2238	745	39910856	39942950	-1	CTNNG	DP3, PDGB, PKGB, DPIII
HG185_PATCH	JUP	ENSG00000261577	ENST00000563199	protein_coding	KNOWN	None	6207	893	296	39923647	39942322	-1	CTNNG	DP3, PDGB, PKGB, DPIII
HG185_PATCH	JUP	ENSG00000261577	ENST00000563935	protein_coding	KNOWN	None	6207	887	294	39923653	39943183	-1	CTNNG	DP3, PDGB, PKGB, DPIII
HG185_PATCH	JUP	ENSG00000261577	ENST00000569590	protein_coding	KNOWN	None	6207	830	275	39923710	39928521	-1	CTNNG	DP3, PDGB, PKGB, DPIII
HG185_PATCH	JUP	ENSG00000261577	ENST00000567112	protein_coding	KNOWN	None	6207	707	234	39925221	39942964	-1	CTNNG	DP3, PDGB, PKGB, DPIII
HG185_PATCH	JUP	ENSG00000261577	ENST00000562657	protein_coding	KNOWN	None	6207	260	85	39925878	39941407	-1	CTNNG	DP3, PDGB, PKGB, DPIII
HG185_PATCH	JUP	ENSG00000261577	ENST00000563461	processed_transcript	KNOWN	None	6207	None	None	39928099	39942461	-1	CTNNG	DP3, PDGB, PKGB, DPIII
18	LMAN1	ENSG00000074695	ENST00000251047	protein_coding	KNOWN	CCDS11974	6631	1533	510	56995055	57027194	-1	F5F8D	MR60, ERGIC-53, ERGIC53, gp58, MCFD1, FMFD1
18	LMAN1	ENSG00000074695	ENST00000592562	retained_intron	KNOWN	None	6631	None	None	56998008	56998871	-1	F5F8D	MR60, ERGIC-53, ERGIC53, gp58, MCFD1, FMFD1
18	LMAN1	ENSG00000074695	ENST00000587918	retained_intron	KNOWN	None	6631	None	None	56998695	57000923	-1	F5F8D	MR60, ERGIC-53, ERGIC53, gp58, MCFD1, FMFD1
18	LMAN1	ENSG00000074695	ENST00000587940	processed_transcript	KNOWN	None	6631	None	None	57013203	57018821	-1	F5F8D	MR60, ERGIC-53, ERGIC53, gp58, MCFD1, FMFD1
18	LMAN1	ENSG00000074695	ENST00000587561	retained_intron	KNOWN	None	6631	None	None	57019913	57026497	-1	F5F8D	MR60, ERGIC-53, ERGIC53, gp58, MCFD1, FMFD1
1	None	ENSG00000271914	ENST00000606838	lincRNA	KNOWN	None	None	None	None	36395321	36395716	-1	None	None
8	None	ENSG00000271930	ENST00000606778	lincRNA	KNOWN	None	None	None	None	99955823	99956326	1	None	None
2	IGKV2OR2-1	ENSG00000270748	ENST00000605129	IG_V_pseudogene	KNOWN	None	5805	None	None	97712325	97712628	1	IGKV2OR2-1A	IGKV2/OR2-1, IGKV2/OR2-1A
3	None	ENSG00000207130	ENST00000384401	snoRNA	NOVEL	None	None	None	None	128433414	128433548	-1	None	None
2	None	ENSG00000233891	ENST00000451416	lincRNA	KNOWN	None	None	None	None	59465851	59476646	-1	None	None
2	None	ENSG00000233891	ENST00000440521	lincRNA	KNOWN	None	None	None	None	59465851	59476702	-1	None	None
2	None	ENSG00000233891	ENST00000443306	lincRNA	KNOWN	None	None	None	None	59465851	59476807	-1	None	None
2	None	ENSG00000233891	ENST00000444001	lincRNA	KNOWN	None	None	None	None	59465857	59615500	-1	None	None
2	None	ENSG00000233891	ENST00000412409	lincRNA	KNOWN	None	None	None	None	59468077	59960531	-1	None	None
2	None	ENSG00000233891	ENST00000434611	lincRNA	KNOWN	None	None	None	None	59522515	59615294	-1	None	None
2	None	ENSG00000233891	ENST00000435557	lincRNA	KNOWN	None	None	None	None	59896351	59960466	-1	None	None
8	None	ENSG00000229625	ENST00000420417	lincRNA	KNOWN	None	None	None	None	99973656	99980512	1	None	None
11	None	ENSG00000255250	ENST00000532979	lincRNA	KNOWN	None	None	None	None	86438397	86476307	1	None	None
1	None	ENSG00000271554	ENST00000466576	antisense	KNOWN	None	None	None	None	36457710	36479118	-1	None	None
1	None	ENSG00000271554	ENST00000479395	antisense	KNOWN	None	None	None	None	36474982	36479231	-1	None	None
12	None	ENSG00000177359	ENST00000542490	processed_transcript	KNOWN	None	None	None	None	31264586	31270405	-1	None	None
12	None	ENSG00000177359	ENST00000542925	processed_transcript	KNOWN	None	None	None	None	31264591	31269394	-1	None	None
12	None	ENSG00000177359	ENST00000398963	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	31264591	31359088	-1	None	None
12	None	ENSG00000177359	ENST00000391394	processed_transcript	KNOWN	None	None	None	None	31264593	31270405	-1	None	None
12	None	ENSG00000177359	ENST00000518559	unprocessed_pseudogene	KNOWN	None	None	None	None	31264587	31359088	-1	None	None
12	None	ENSG00000177359	ENST00000535072	unprocessed_pseudogene	KNOWN	None	None	None	None	31264592	31272540	-1	None	None
4	RRH	ENSG00000180245	ENST00000317735	protein_coding	KNOWN	CCDS3687	10450	1014	337	110749150	110765760	1	None	peropsin
9	RNU6-14P	ENSG00000207360	ENST00000384630	snRNA	KNOWN	None	34258	None	None	15776179	15776284	-1	RNU6-14	None
4	None	ENSG00000249091	ENST00000507220	lincRNA	KNOWN	None	None	None	None	139198269	139202938	-1	None	None
2	IGKV2OR2-2	ENSG00000271402	ENST00000605025	IG_V_pseudogene	KNOWN	None	5808	None	None	97716466	97716765	1	None	IGKV2/OR2-2
X	ZCCHC5	ENSG00000179300	ENST00000321110	protein_coding	KNOWN	CCDS14440	22997	1428	475	77911566	77914825	-1	None	FLJ38865, Mar3, Mart3, ZHC5
4	None	ENSG00000251411	ENST00000514631	processed_pseudogene	KNOWN	None	None	None	None	87834419	87835970	-1	None	None
1	None	ENSG00000230470	ENST00000414377	sense_intronic	KNOWN	None	None	None	None	184377471	184381494	1	None	None
5	None	ENSG00000254106	ENST00000523446	protein_coding	PUTATIVE	None	None	111	36	109218883	109220452	1	None	None
17	ALOX12P2	ENSG00000262943	ENST00000607063	processed_transcript	KNOWN	None	432	None	None	6756895	6803668	1	None	None
17	ALOX12P2	ENSG00000262943	ENST00000574727	processed_transcript	KNOWN	None	432	None	None	6757180	6805511	1	None	None
17	ALOX12P2	ENSG00000262943	ENST00000573104	processed_transcript	KNOWN	None	432	None	None	6757240	6762752	1	None	None
17	ALOX12P2	ENSG00000262943	ENST00000576636	processed_transcript	KNOWN	None	432	None	None	6757249	6798421	1	None	None
17	ALOX12P2	ENSG00000262943	ENST00000574271	processed_transcript	KNOWN	None	432	None	None	6757260	6798801	1	None	None
17	ALOX12P2	ENSG00000262943	ENST00000570835	processed_transcript	KNOWN	None	432	None	None	6757262	6797807	1	None	None
17	ALOX12P2	ENSG00000262943	ENST00000571201	processed_transcript	KNOWN	None	432	None	None	6797096	6798435	1	None	None
17	ALOX12P2	ENSG00000262943	ENST00000570921	transcribed_unprocessed_pseudogene	KNOWN	None	432	None	None	6797101	6803351	1	None	None
17	ALOX12P2	ENSG00000262943	ENST00000570890	processed_transcript	KNOWN	None	432	None	None	6797101	6803661	1	None	None
17	ALOX12P2	ENSG00000262943	ENST00000572215	retained_intron	KNOWN	None	432	None	None	6799495	6800125	1	None	None
17	ALOX12P2	ENSG00000262943	ENST00000572357	processed_transcript	KNOWN	None	432	None	None	6799906	6801016	1	None	None
17	ALOX12P2	ENSG00000262943	ENST00000575787	processed_transcript	KNOWN	None	432	None	None	6802229	6803664	1	None	None
17	ALOX12P2	ENSG00000262943	ENST00000574183	processed_transcript	KNOWN	None	432	None	None	6803233	6857426	1	None	None
8	None	ENSG00000253948	ENST00000521696	lincRNA	KNOWN	None	None	None	None	100008991	100025272	-1	None	None
HG418_PATCH	JRK	ENSG00000262023	ENST00000585837	protein_coding	PUTATIVE	None	6199	1671	556	143738824	143751331	-1	None	JH8
HG418_PATCH	JRK	ENSG00000262023	ENST00000571961	protein_coding	PUTATIVE	None	6199	1671	556	143739726	143751355	-1	None	JH8
HG418_PATCH	JRK	ENSG00000262023	ENST00000592696	protein_coding	KNOWN	None	6199	1707	568	143739743	143747881	-1	None	JH8
HG418_PATCH	JRK	ENSG00000262023	ENST00000585713	protein_coding	KNOWN	None	6199	77	24	143747343	143751349	-1	None	JH8
HG418_PATCH	JRK	ENSG00000262023	ENST00000589850	processed_transcript	KNOWN	None	6199	None	None	143747776	143763329	-1	None	JH8
HG418_PATCH	JRK	ENSG00000262023	ENST00000589535	processed_transcript	KNOWN	None	6199	None	None	143757260	143763195	-1	None	JH8
HG418_PATCH	JRK	ENSG00000262023	ENST00000591970	processed_transcript	KNOWN	None	6199	None	None	143757260	143763329	-1	None	JH8
HG418_PATCH	JRK	ENSG00000262023	ENST00000592289	processed_transcript	KNOWN	None	6199	None	None	143761335	143763306	-1	None	JH8
HG418_PATCH	JRK	ENSG00000262023	ENST00000585337	processed_transcript	KNOWN	None	6199	None	None	143761507	143763165	-1	None	JH8
3	MARK2P8	ENSG00000239503	ENST00000476069	processed_pseudogene	KNOWN	None	39799	None	None	128467381	128468332	-1	None	None
1	PFN1P4	ENSG00000225080	ENST00000450970	processed_pseudogene	KNOWN	None	42992	None	None	147601780	147602181	1	None	None
3	None	ENSG00000234851	ENST00000471152	processed_pseudogene	KNOWN	None	None	None	None	161146915	161147385	-1	None	None
3	None	ENSG00000234851	ENST00000438478	processed_pseudogene	KNOWN	None	None	None	None	161146915	161147398	-1	None	None
1	None	ENSG00000232036	ENST00000245811	processed_pseudogene	KNOWN	None	None	None	None	184535645	184536969	1	None	None
2	IGKV1OR2-3	ENSG00000204670	ENST00000411475	IG_V_pseudogene	KNOWN	None	5769	None	None	97725865	97726152	1	None	IGKV1/OR2-3
2	IGKV1OR2-3	ENSG00000204670	ENST00000377032	IG_V_pseudogene	KNOWN	None	5769	None	None	97725682	97726126	1	None	IGKV1/OR2-3
12	OR10U1P	ENSG00000227423	ENST00000414690	unitary_pseudogene	KNOWN	None	15332	None	None	55587666	55588570	-1	None	None
4	LINC00498	ENSG00000248397	ENST00000504369	lincRNA	KNOWN	None	43435	None	None	139220010	139233812	-1	None	None
1	LDHAP2	ENSG00000235674	ENST00000437325	processed_pseudogene	KNOWN	None	6537	None	None	235901305	235902289	1	LDHAL2	None
19	IGSF23	ENSG00000216588	ENST00000402988	protein_coding	KNOWN	CCDS54277	40040	579	192	45116940	45140081	1	None	None
19	IGSF23	ENSG00000216588	ENST00000592507	protein_coding	PUTATIVE	None	40040	199	65	45117092	45127074	1	None	None
19	IGSF23	ENSG00000216588	ENST00000428245	protein_coding	PUTATIVE	None	40040	637	211	45117240	45139754	1	None	None
19	IGSF23	ENSG00000216588	ENST00000441389	protein_coding	KNOWN	None	40040	415	137	45127043	45138792	1	None	None
1	None	ENSG00000268674	ENST00000601199	protein_coding	KNOWN	None	None	510	169	16865561	16866070	1	None	None
1	None	ENSG00000232862	ENST00000602765	processed_transcript	KNOWN	None	None	None	None	36545667	36546121	-1	None	None
1	None	ENSG00000232862	ENST00000437804	transcribed_processed_pseudogene	KNOWN	None	None	None	None	36545921	36546818	-1	None	None
1	None	ENSG00000232862	ENST00000446354	processed_transcript	KNOWN	None	None	None	None	36546712	36547923	-1	None	None
1	ABHD17AP1	ENSG00000203835	ENST00000457740	unprocessed_pseudogene	KNOWN	None	28394	None	None	147618673	147621845	1	FAM108A2	C1orf47
11	MICALCL	ENSG00000133808	ENST00000529028	processed_transcript	PUTATIVE	None	25933	None	None	12297627	12308861	1	None	FLJ14966
11	MICALCL	ENSG00000133808	ENST00000533534	protein_coding	KNOWN	None	25933	87	28	12302492	12313802	1	None	FLJ14966
11	MICALCL	ENSG00000133808	ENST00000256186	protein_coding	KNOWN	CCDS41620	25933	2088	695	12308447	12380691	1	None	FLJ14966
3	FTH1P4	ENSG00000242992	ENST00000480365	processed_pseudogene	KNOWN	None	3991	None	None	128483309	128483861	-1	FTHL4	None
3	FTH1P4	ENSG00000242992	ENST00000421542	processed_pseudogene	KNOWN	None	3991	None	None	128483309	128483860	-1	FTHL4	None
1	None	ENSG00000252790	ENST00000516981	snoRNA	NOVEL	None	None	None	None	184647068	184647141	1	None	None
3	NMNAT3	ENSG00000163864	ENST00000506254	nonsense_mediated_decay	KNOWN	None	20989	297	98	139279022	139396859	-1	None	PNAT3
3	NMNAT3	ENSG00000163864	ENST00000339837	protein_coding	KNOWN	CCDS3111	20989	648	215	139279033	139396840	-1	None	PNAT3
3	NMNAT3	ENSG00000163864	ENST00000413939	protein_coding	NOVEL	CCDS56282	20989	492	163	139279034	139396807	-1	None	PNAT3
3	NMNAT3	ENSG00000163864	ENST00000296202	protein_coding	KNOWN	None	20989	759	252	139279424	139396788	-1	None	PNAT3
3	NMNAT3	ENSG00000163864	ENST00000511444	protein_coding	PUTATIVE	None	20989	192	63	139279684	139396584	-1	None	PNAT3
3	NMNAT3	ENSG00000163864	ENST00000507242	processed_transcript	KNOWN	None	20989	None	None	139279929	139301919	-1	None	PNAT3
3	NMNAT3	ENSG00000163864	ENST00000509447	processed_transcript	KNOWN	None	20989	None	None	139279993	139294490	-1	None	PNAT3
3	NMNAT3	ENSG00000163864	ENST00000512391	protein_coding	PUTATIVE	None	20989	303	100	139280175	139396847	-1	None	PNAT3
3	NMNAT3	ENSG00000163864	ENST00000509291	protein_coding	KNOWN	None	20989	341	112	139292475	139396794	-1	None	PNAT3
3	NMNAT3	ENSG00000163864	ENST00000514703	protein_coding	PUTATIVE	None	20989	297	98	139317990	139396560	-1	None	PNAT3
3	NMNAT3	ENSG00000163864	ENST00000505779	processed_transcript	PUTATIVE	None	20989	None	None	139353202	139396578	-1	None	PNAT3
3	NMNAT3	ENSG00000163864	ENST00000509737	processed_transcript	KNOWN	None	20989	None	None	139353202	139396670	-1	None	PNAT3
3	NMNAT3	ENSG00000163864	ENST00000509034	processed_transcript	KNOWN	None	20989	None	None	139353202	139396760	-1	None	PNAT3
3	NMNAT3	ENSG00000163864	ENST00000511003	retained_intron	KNOWN	None	20989	None	None	139353202	139396846	-1	None	PNAT3
3	NMNAT3	ENSG00000163864	ENST00000406164	protein_coding	KNOWN	CCDS3111	20989	648	215	139279027	139396859	-1	None	PNAT3
3	NMNAT3	ENSG00000163864	ENST00000406824	protein_coding	KNOWN	None	20989	429	142	139279027	139396859	-1	None	PNAT3
1	RNU7-13P	ENSG00000252222	ENST00000516413	snRNA	KNOWN	None	34109	None	None	184790562	184790623	-1	None	U7.13
1	LYST-AS1	ENSG00000229463	ENST00000412098	antisense	KNOWN	None	41320	None	None	236002783	236003482	1	LYST-IT2	None
1	None	ENSG00000260976	ENST00000566476	lincRNA	KNOWN	None	None	None	None	184970659	184977815	1	None	None
X	LPAR4	ENSG00000147145	ENST00000373301	protein_coding	KNOWN	CCDS14441	4478	1113	370	78010301	78012591	1	GPR23	P2Y9, P2Y5-LIKE, P2RY9, LPA4
X	LPAR4	ENSG00000147145	ENST00000435339	protein_coding	KNOWN	CCDS14441	4478	1113	370	78003206	78012572	1	GPR23	P2Y9, P2Y5-LIKE, P2RY9, LPA4
1	RNA5SP72	ENSG00000201312	ENST00000364442	rRNA	KNOWN	None	42849	None	None	184984083	184984199	-1	RN5S72	None
1	MIR1537	ENSG00000222831	ENST00000410899	miRNA	KNOWN	None	35381	None	None	236016300	236016360	-1	MIRN1537	hsa-mir-1537
2	None	ENSG00000188383	ENST00000445404	unprocessed_pseudogene	KNOWN	None	None	None	None	97746835	97748986	1	None	None
2	None	ENSG00000188383	ENST00000340118	unprocessed_pseudogene	KNOWN	None	None	None	None	97747330	97748385	1	None	None
6	WASF1	ENSG00000112290	ENST00000392587	protein_coding	KNOWN	CCDS5080	12732	1680	559	110421022	110500905	-1	None	WAVE1, SCAR1, KIAA0269, WAVE
6	WASF1	ENSG00000112290	ENST00000392586	protein_coding	KNOWN	CCDS5080	12732	1680	559	110421022	110501204	-1	None	WAVE1, SCAR1, KIAA0269, WAVE
6	WASF1	ENSG00000112290	ENST00000444391	protein_coding	KNOWN	None	12732	540	179	110428280	110500873	-1	None	WAVE1, SCAR1, KIAA0269, WAVE
6	WASF1	ENSG00000112290	ENST00000265601	protein_coding	KNOWN	None	12732	422	139	110429731	110500852	-1	None	WAVE1, SCAR1, KIAA0269, WAVE
6	WASF1	ENSG00000112290	ENST00000368938	protein_coding	KNOWN	None	12732	422	139	110429731	110501126	-1	None	WAVE1, SCAR1, KIAA0269, WAVE
6	WASF1	ENSG00000112290	ENST00000447287	protein_coding	KNOWN	None	12732	268	88	110434529	110500852	-1	None	WAVE1, SCAR1, KIAA0269, WAVE
6	WASF1	ENSG00000112290	ENST00000419252	protein_coding	KNOWN	None	12732	268	88	110434529	110501204	-1	None	WAVE1, SCAR1, KIAA0269, WAVE
6	WASF1	ENSG00000112290	ENST00000392589	protein_coding	KNOWN	CCDS5080	12732	1680	559	110421022	110501207	-1	None	WAVE1, SCAR1, KIAA0269, WAVE
6	WASF1	ENSG00000112290	ENST00000392588	protein_coding	KNOWN	CCDS5080	12732	1680	559	110421022	110501207	-1	None	WAVE1, SCAR1, KIAA0269, WAVE
6	WASF1	ENSG00000112290	ENST00000359451	protein_coding	KNOWN	CCDS5080	12732	1680	559	110421022	110501207	-1	None	WAVE1, SCAR1, KIAA0269, WAVE
2	WDR43	ENSG00000163811	ENST00000407426	protein_coding	KNOWN	CCDS46251	28945	2034	677	29117509	29171088	1	None	KIAA0007, NET12, UTP5
2	WDR43	ENSG00000163811	ENST00000434238	protein_coding	PUTATIVE	None	28945	76	24	29117952	29124970	1	None	KIAA0007, NET12, UTP5
2	WDR43	ENSG00000163811	ENST00000440983	protein_coding	PUTATIVE	None	28945	441	146	29118670	29137036	1	None	KIAA0007, NET12, UTP5
2	WDR43	ENSG00000163811	ENST00000296126	protein_coding	PUTATIVE	None	28945	561	186	29127872	29149351	1	None	KIAA0007, NET12, UTP5
2	WDR43	ENSG00000163811	ENST00000466067	retained_intron	KNOWN	None	28945	None	None	29147963	29158606	1	None	KIAA0007, NET12, UTP5
2	WDR43	ENSG00000163811	ENST00000446643	protein_coding	PUTATIVE	None	28945	579	192	29152924	29169535	1	None	KIAA0007, NET12, UTP5
12	None	ENSG00000271327	ENST00000605595	lincRNA	KNOWN	None	None	None	None	89761584	89763078	1	None	None
11	None	ENSG00000271318	ENST00000605633	processed_pseudogene	KNOWN	None	None	None	None	86532185	86532770	-1	None	None
15	None	ENSG00000260978	ENST00000563044	antisense	KNOWN	None	None	None	None	23812411	23814804	-1	None	None
1	RNU5E-2P	ENSG00000252056	ENST00000516247	snRNA	KNOWN	None	42511	None	None	236026688	236026737	-1	None	None
1	FTH1P25	ENSG00000232792	ENST00000447665	processed_pseudogene	KNOWN	None	37643	None	None	185040699	185041167	-1	FTHL25	None
19	ATP5D	ENSG00000099624	ENST00000215375	protein_coding	KNOWN	CCDS12058	837	507	168	1241749	1244824	1	None	None
19	ATP5D	ENSG00000099624	ENST00000592624	retained_intron	KNOWN	None	837	None	None	1241767	1243353	1	None	None
19	ATP5D	ENSG00000099624	ENST00000590265	retained_intron	KNOWN	None	837	None	None	1241769	1244824	1	None	None
19	ATP5D	ENSG00000099624	ENST00000588538	retained_intron	KNOWN	None	837	None	None	1241816	1244824	1	None	None
19	ATP5D	ENSG00000099624	ENST00000591660	protein_coding	KNOWN	CCDS12058	837	507	168	1241819	1244785	1	None	None
19	ATP5D	ENSG00000099624	ENST00000591249	retained_intron	KNOWN	None	837	None	None	1242327	1244540	1	None	None
19	ATP5D	ENSG00000099624	ENST00000589478	retained_intron	KNOWN	None	837	None	None	1244056	1244824	1	None	None
19	ATP5D	ENSG00000099624	ENST00000395633	protein_coding	KNOWN	CCDS12058	837	507	168	1241749	1244823	1	None	None
1	RNU6-968P	ENSG00000206803	ENST00000384076	snRNA	KNOWN	None	47931	None	None	236078715	236078821	1	None	None
1	RN7SL131P	ENSG00000264592	ENST00000579043	misc_RNA	KNOWN	None	46147	None	None	36657516	36657769	1	None	None
12	OR6C69P	ENSG00000213451	ENST00000394268	unitary_pseudogene	KNOWN	None	31298	None	None	55656323	55657215	1	None	None
15	None	ENSG00000179449	ENST00000314233	pseudogene	NOVEL	None	None	None	None	23888695	23890979	-1	None	None
1	None	ENSG00000237845	ENST00000438371	lincRNA	KNOWN	None	None	None	None	236105853	236107105	-1	None	None
1	UBE2V2P4	ENSG00000231849	ENST00000447495	processed_pseudogene	KNOWN	None	44892	None	None	36707499	36707757	-1	None	None
11	OR5D15P	ENSG00000255019	ENST00000531671	unprocessed_pseudogene	KNOWN	None	15282	None	None	55554440	55555381	1	None	None
11	None	ENSG00000267950	ENST00000598274	protein_coding	KNOWN	None	None	222	73	1295809	1296033	1	None	None
20	None	ENSG00000252819	ENST00000517010	miRNA	NOVEL	None	None	None	None	9047481	9047555	-1	None	None
19	TSPAN16	ENSG00000130167	ENST00000316737	protein_coding	KNOWN	CCDS12256	30725	738	245	11406824	11437672	1	TM4SF16	TM4-B, TM-8
19	TSPAN16	ENSG00000130167	ENST00000592955	protein_coding	PUTATIVE	None	30725	660	219	11406836	11426643	1	TM4SF16	TM4-B, TM-8
19	TSPAN16	ENSG00000130167	ENST00000590327	protein_coding	PUTATIVE	None	30725	735	244	11406843	11426645	1	TM4SF16	TM4-B, TM-8
19	TSPAN16	ENSG00000130167	ENST00000337994	nonsense_mediated_decay	KNOWN	None	30725	483	160	11406845	11426643	1	TM4SF16	TM4-B, TM-8
19	TSPAN16	ENSG00000130167	ENST00000589928	nonsense_mediated_decay	KNOWN	None	30725	117	38	11417400	11422998	1	TM4SF16	TM4-B, TM-8
2	RN7SL313P	ENSG00000242421	ENST00000497618	misc_RNA	KNOWN	None	46329	None	None	97766321	97766609	1	None	None
3	TCAIM	ENSG00000179152	ENST00000383746	protein_coding	KNOWN	CCDS43076	25241	213	70	44379611	44401294	1	C3orf23	DKFZp313N0621, TOAG-1
3	TCAIM	ENSG00000179152	ENST00000417237	protein_coding	KNOWN	CCDS2712	25241	1491	496	44379611	44449282	1	C3orf23	DKFZp313N0621, TOAG-1
3	TCAIM	ENSG00000179152	ENST00000494638	processed_transcript	KNOWN	None	25241	None	None	44379614	44409116	1	C3orf23	DKFZp313N0621, TOAG-1
3	TCAIM	ENSG00000179152	ENST00000396078	protein_coding	KNOWN	CCDS43076	25241	213	70	44379944	44401294	1	C3orf23	DKFZp313N0621, TOAG-1
3	TCAIM	ENSG00000179152	ENST00000342649	protein_coding	KNOWN	CCDS2712	25241	1491	496	44379944	44450943	1	C3orf23	DKFZp313N0621, TOAG-1
3	TCAIM	ENSG00000179152	ENST00000462230	retained_intron	KNOWN	None	25241	None	None	44380244	44409371	1	C3orf23	DKFZp313N0621, TOAG-1
3	TCAIM	ENSG00000179152	ENST00000412611	nonsense_mediated_decay	KNOWN	None	25241	348	115	44380249	44450943	1	C3orf23	DKFZp313N0621, TOAG-1
3	TCAIM	ENSG00000179152	ENST00000444602	processed_transcript	KNOWN	None	25241	None	None	44380252	44404175	1	C3orf23	DKFZp313N0621, TOAG-1
3	TCAIM	ENSG00000179152	ENST00000431657	nonsense_mediated_decay	KNOWN	None	25241	348	115	44380268	44450366	1	C3orf23	DKFZp313N0621, TOAG-1
3	TCAIM	ENSG00000179152	ENST00000462612	processed_transcript	PUTATIVE	None	25241	None	None	44380275	44382917	1	C3orf23	DKFZp313N0621, TOAG-1
3	TCAIM	ENSG00000179152	ENST00000417768	nonsense_mediated_decay	KNOWN	None	25241	348	115	44380298	44442042	1	C3orf23	DKFZp313N0621, TOAG-1
3	TCAIM	ENSG00000179152	ENST00000469246	processed_transcript	KNOWN	None	25241	None	None	44438279	44449232	1	C3orf23	DKFZp313N0621, TOAG-1
1	None	ENSG00000229291	ENST00000443207	lincRNA	KNOWN	None	None	None	None	236121179	236135125	-1	None	None
5	None	ENSG00000233006	ENST00000417795	antisense	KNOWN	None	None	None	None	131646978	131705608	-1	None	None
5	None	ENSG00000233006	ENST00000437091	antisense	KNOWN	None	None	None	None	131667882	131695828	-1	None	None
5	None	ENSG00000233006	ENST00000453876	retained_intron	KNOWN	None	None	None	None	131685126	131688243	-1	None	None
5	None	ENSG00000233006	ENST00000457998	antisense	KNOWN	None	None	None	None	131701973	131705340	-1	None	None
1	None	ENSG00000232265	ENST00000432038	lincRNA	KNOWN	None	None	None	None	147634989	147635692	1	None	None
1	None	ENSG00000232265	ENST00000411978	lincRNA	KNOWN	None	None	None	None	147635092	147635692	1	None	None
1	None	ENSG00000232265	ENST00000594189	lincRNA	KNOWN	None	None	None	None	147635156	147636119	1	None	None
1	None	ENSG00000232265	ENST00000594699	lincRNA	KNOWN	None	None	None	None	147635156	147636867	1	None	None
1	None	ENSG00000232265	ENST00000595367	lincRNA	KNOWN	None	None	None	None	147635156	147647136	1	None	None
1	None	ENSG00000232265	ENST00000597931	lincRNA	KNOWN	None	None	None	None	147635156	147647162	1	None	None
1	None	ENSG00000232265	ENST00000599864	lincRNA	KNOWN	None	None	None	None	147635156	147647175	1	None	None
1	None	ENSG00000232265	ENST00000595668	lincRNA	KNOWN	None	None	None	None	147635156	147647206	1	None	None
1	None	ENSG00000232265	ENST00000598757	lincRNA	KNOWN	None	None	None	None	147635156	147658907	1	None	None
1	RNU4-27P	ENSG00000222821	ENST00000410889	snRNA	KNOWN	None	46963	None	None	36868322	36868460	-1	None	None
2	IGKV1OR2-11	ENSG00000270187	ENST00000604120	IG_V_pseudogene	KNOWN	None	5768	None	None	97987331	97987617	-1	None	IGKV1/OR2-11
11	OR9M1P	ENSG00000186124	ENST00000459641	unitary_pseudogene	KNOWN	None	15327	None	None	55623068	55623988	1	OR5BG1P	None
11	OR7E13P	ENSG00000197882	ENST00000526052	processed_pseudogene	KNOWN	None	8384	None	None	86543582	86544491	-1	None	OR11-4
11	OR7E13P	ENSG00000197882	ENST00000332590	pseudogene	KNOWN	None	8384	None	None	86543630	86544143	-1	None	OR11-4
11	RBM7	ENSG00000076053	ENST00000540163	protein_coding	KNOWN	CCDS8370	9904	801	266	114270752	114281329	1	None	None
11	RBM7	ENSG00000076053	ENST00000375490	protein_coding	NOVEL	None	9904	804	267	114271251	114279646	1	None	None
11	RBM7	ENSG00000076053	ENST00000541475	protein_coding	PUTATIVE	None	9904	450	149	114271329	114282740	1	None	None
11	RBM7	ENSG00000076053	ENST00000544313	nonsense_mediated_decay	KNOWN	None	9904	213	70	114271335	114278541	1	None	None
11	RBM7	ENSG00000076053	ENST00000542140	nonsense_mediated_decay	KNOWN	None	9904	372	123	114271388	114279631	1	None	None
11	RBM7	ENSG00000076053	ENST00000544582	protein_coding	PUTATIVE	None	9904	663	220	114271388	114284925	1	None	None
11	RBM7	ENSG00000076053	ENST00000545678	protein_coding	PUTATIVE	None	9904	441	146	114271396	114278845	1	None	None
11	RBM7	ENSG00000076053	ENST00000538134	retained_intron	KNOWN	None	9904	None	None	114271422	114272917	1	None	None
1	None	ENSG00000252822	ENST00000517013	misc_RNA	NOVEL	None	None	None	None	236223977	236224072	1	None	None
1	None	ENSG00000201448	ENST00000364578	snoRNA	NOVEL	None	None	None	None	36884051	36884179	-1	None	None
3	None	ENSG00000240354	ENST00000497285	lincRNA	KNOWN	None	None	None	None	161534697	161539696	-1	None	None
1	None	ENSG00000231084	ENST00000413694	processed_pseudogene	KNOWN	None	None	None	None	185140467	185140842	-1	None	None
1	FTLP18	ENSG00000230214	ENST00000453860	processed_pseudogene	KNOWN	None	37968	None	None	37095936	37096458	1	None	None
X	RNU6-648P	ENSG00000222122	ENST00000410190	snRNA	KNOWN	None	47611	None	None	114266990	114267096	1	None	None
2	None	ENSG00000221653	ENST00000408726	miRNA	NOVEL	None	None	None	None	59468756	59468837	-1	None	None
17	None	ENSG00000265798	ENST00000579164	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	29365593	29378044	-1	None	None
17	None	ENSG00000265798	ENST00000583112	processed_transcript	KNOWN	None	None	None	None	29368106	29374738	-1	None	None
17	None	ENSG00000265798	ENST00000581652	processed_transcript	KNOWN	None	None	None	None	29368989	29386139	-1	None	None
1	None	ENSG00000235371	ENST00000446607	processed_pseudogene	KNOWN	None	None	None	None	236273361	236275670	1	None	None
X	P2RY10	ENSG00000078589	ENST00000461541	processed_transcript	KNOWN	None	19906	None	None	78200918	78216368	1	None	P2Y10
X	P2RY10	ENSG00000078589	ENST00000475374	processed_transcript	KNOWN	None	19906	None	None	78200918	78216577	1	None	P2Y10
X	P2RY10	ENSG00000078589	ENST00000171757	protein_coding	KNOWN	CCDS14442	19906	1020	339	78200918	78217451	1	None	P2Y10
X	P2RY10	ENSG00000078589	ENST00000544091	protein_coding	KNOWN	CCDS14442	19906	1020	339	78200829	78217437	1	None	P2Y10
2	IGKV2OR2-10	ENSG00000271226	ENST00000605328	IG_V_pseudogene	KNOWN	None	5806	None	None	97996726	97997025	-1	None	IGKV2/OR2-10
HSCHR9_2_CTG35	MAMDC2-AS1	ENSG00000262817	ENST00000571762	antisense	PUTATIVE	None	48719	None	None	72702213	72728782	-1	None	None
3	RN7SKP227	ENSG00000201315	ENST00000364445	misc_RNA	KNOWN	None	45951	None	None	36726531	36726860	1	None	None
2	None	ENSG00000231815	ENST00000415159	lincRNA	KNOWN	None	None	None	None	59662348	59669396	1	None	None
11	None	ENSG00000255204	ENST00000533247	unprocessed_pseudogene	KNOWN	None	None	None	None	55631408	55648719	1	None	None
X	None	ENSG00000238223	ENST00000418638	processed_pseudogene	KNOWN	None	None	None	None	114298499	114299357	-1	None	None
20	UQCC	ENSG00000101019	ENST00000472559	retained_intron	KNOWN	None	15891	None	None	33890369	33894885	-1	C20orf44, UQCC	FLJ10850, CBP3, BFZB
20	UQCC	ENSG00000101019	ENST00000457259	nonsense_mediated_decay	KNOWN	None	15891	166	54	33890369	33999761	-1	C20orf44, UQCC	FLJ10850, CBP3, BFZB
20	UQCC	ENSG00000101019	ENST00000349714	protein_coding	KNOWN	None	15891	819	272	33890369	33999766	-1	C20orf44, UQCC	FLJ10850, CBP3, BFZB
20	UQCC	ENSG00000101019	ENST00000359226	protein_coding	PUTATIVE	None	15891	660	219	33890369	33999773	-1	C20orf44, UQCC	FLJ10850, CBP3, BFZB
20	UQCC	ENSG00000101019	ENST00000374394	nonsense_mediated_decay	KNOWN	None	15891	69	22	33890369	33999776	-1	C20orf44, UQCC	FLJ10850, CBP3, BFZB
20	UQCC	ENSG00000101019	ENST00000374384	protein_coding	KNOWN	CCDS13253	15891	822	273	33890369	33999776	-1	C20orf44, UQCC	FLJ10850, CBP3, BFZB
20	UQCC	ENSG00000101019	ENST00000374380	protein_coding	NOVEL	CCDS54458	15891	696	231	33890369	33999834	-1	C20orf44, UQCC	FLJ10850, CBP3, BFZB
20	UQCC	ENSG00000101019	ENST00000374385	protein_coding	KNOWN	CCDS13252	15891	900	299	33890369	33999944	-1	C20orf44, UQCC	FLJ10850, CBP3, BFZB
20	UQCC	ENSG00000101019	ENST00000453855	nonsense_mediated_decay	KNOWN	None	15891	381	126	33891236	33999763	-1	C20orf44, UQCC	FLJ10850, CBP3, BFZB
20	UQCC	ENSG00000101019	ENST00000496812	processed_transcript	KNOWN	None	15891	None	None	33891257	33894858	-1	C20orf44, UQCC	FLJ10850, CBP3, BFZB
20	UQCC	ENSG00000101019	ENST00000482440	processed_transcript	PUTATIVE	None	15891	None	None	33891597	33892459	-1	C20orf44, UQCC	FLJ10850, CBP3, BFZB
20	UQCC	ENSG00000101019	ENST00000473982	processed_transcript	KNOWN	None	15891	None	None	33891774	33903239	-1	C20orf44, UQCC	FLJ10850, CBP3, BFZB
20	UQCC	ENSG00000101019	ENST00000424405	protein_coding	NOVEL	None	15891	748	248	33891794	33999776	-1	C20orf44, UQCC	FLJ10850, CBP3, BFZB
20	UQCC	ENSG00000101019	ENST00000497717	retained_intron	KNOWN	None	15891	None	None	33894253	33935029	-1	C20orf44, UQCC	FLJ10850, CBP3, BFZB
20	UQCC	ENSG00000101019	ENST00000443429	nonsense_mediated_decay	KNOWN	None	15891	375	124	33894476	33999773	-1	C20orf44, UQCC	FLJ10850, CBP3, BFZB
20	UQCC	ENSG00000101019	ENST00000438533	protein_coding	NOVEL	None	15891	730	242	33894546	33999772	-1	C20orf44, UQCC	FLJ10850, CBP3, BFZB
20	UQCC	ENSG00000101019	ENST00000397554	protein_coding	PUTATIVE	None	15891	666	221	33931913	33999777	-1	C20orf44, UQCC	FLJ10850, CBP3, BFZB
20	UQCC	ENSG00000101019	ENST00000498651	processed_transcript	PUTATIVE	None	15891	None	None	33933519	33934992	-1	C20orf44, UQCC	FLJ10850, CBP3, BFZB
20	UQCC	ENSG00000101019	ENST00000491125	processed_transcript	KNOWN	None	15891	None	None	33933823	33999779	-1	C20orf44, UQCC	FLJ10850, CBP3, BFZB
20	UQCC	ENSG00000101019	ENST00000491040	nonsense_mediated_decay	KNOWN	None	15891	135	44	33934550	33999776	-1	C20orf44, UQCC	FLJ10850, CBP3, BFZB
20	UQCC	ENSG00000101019	ENST00000397553	nonsense_mediated_decay	KNOWN	None	15891	150	49	33935070	33999776	-1	C20orf44, UQCC	FLJ10850, CBP3, BFZB
20	UQCC	ENSG00000101019	ENST00000495752	processed_transcript	KNOWN	None	15891	None	None	33969721	33997958	-1	C20orf44, UQCC	FLJ10850, CBP3, BFZB
20	UQCC	ENSG00000101019	ENST00000407996	protein_coding	KNOWN	None	15891	489	162	33890998	33999776	-1	C20orf44, UQCC	FLJ10850, CBP3, BFZB
20	UQCC	ENSG00000101019	ENST00000374377	protein_coding	KNOWN	None	15891	564	187	33890383	33999776	-1	C20orf44, UQCC	FLJ10850, CBP3, BFZB
20	UQCC	ENSG00000101019	ENST00000397556	protein_coding	KNOWN	None	15891	603	200	33890939	33981974	-1	C20orf44, UQCC	FLJ10850, CBP3, BFZB
20	UQCC	ENSG00000101019	ENST00000540457	protein_coding	KNOWN	None	15891	435	144	33891167	33999790	-1	C20orf44, UQCC	FLJ10850, CBP3, BFZB
20	UQCC	ENSG00000101019	ENST00000542501	protein_coding	KNOWN	None	15891	447	148	33894112	33999776	-1	C20orf44, UQCC	FLJ10850, CBP3, BFZB
12	GNS	ENSG00000135677	ENST00000418919	protein_coding	PUTATIVE	None	4422	1491	496	65107225	65146651	-1	None	None
12	GNS	ENSG00000135677	ENST00000258145	protein_coding	KNOWN	CCDS8970	4422	1659	552	65107229	65153227	-1	None	None
12	GNS	ENSG00000135677	ENST00000543646	protein_coding	NOVEL	None	4422	1755	584	65110242	65153186	-1	None	None
12	GNS	ENSG00000135677	ENST00000542058	protein_coding	NOVEL	None	4422	1599	532	65110255	65153211	-1	None	None
12	GNS	ENSG00000135677	ENST00000541781	retained_intron	KNOWN	None	4422	None	None	65110389	65140018	-1	None	None
12	GNS	ENSG00000135677	ENST00000537823	retained_intron	KNOWN	None	4422	None	None	65113819	65122934	-1	None	None
12	GNS	ENSG00000135677	ENST00000540196	protein_coding	NOVEL	None	4422	907	301	65113831	65138670	-1	None	None
12	GNS	ENSG00000135677	ENST00000540883	retained_intron	KNOWN	None	4422	None	None	65116613	65122998	-1	None	None
12	GNS	ENSG00000135677	ENST00000545273	protein_coding	PUTATIVE	None	4422	743	246	65133184	65146751	-1	None	None
1	None	ENSG00000234481	ENST00000451375	antisense	KNOWN	None	None	None	None	37238741	37241369	1	None	None
HSCHR18_1_CTG1_1	None	ENSG00000262892	ENST00000572768	processed_pseudogene	KNOWN	None	None	None	None	47991472	47992380	1	None	None
1	NBPF1	ENSG00000219481	ENST00000430580	protein_coding	NOVEL	None	26088	3420	1139	16888814	16939982	-1	None	FLJ20719, KIAA1693
1	NBPF1	ENSG00000219481	ENST00000392963	nonsense_mediated_decay	KNOWN	None	26088	216	71	16891348	16931429	-1	None	FLJ20719, KIAA1693
1	NBPF1	ENSG00000219481	ENST00000420513	processed_transcript	KNOWN	None	26088	None	None	16920057	16935145	-1	None	FLJ20719, KIAA1693
1	NBPF1	ENSG00000219481	ENST00000599069	processed_transcript	KNOWN	None	26088	None	None	16926084	16940057	-1	None	FLJ20719, KIAA1693
1	NBPF1	ENSG00000219481	ENST00000599908	processed_transcript	KNOWN	None	26088	None	None	16926098	16929544	-1	None	FLJ20719, KIAA1693
1	NBPF1	ENSG00000219481	ENST00000449853	processed_transcript	KNOWN	None	26088	None	None	16931901	16940029	-1	None	FLJ20719, KIAA1693
1	NBPF1	ENSG00000219481	ENST00000432949	protein_coding	KNOWN	None	26088	900	299	16892935	16905862	-1	None	FLJ20719, KIAA1693
1	NBPF1	ENSG00000219481	ENST00000420031	protein_coding	KNOWN	None	26088	102	33	16892935	16901051	-1	None	FLJ20719, KIAA1693
1	NBPF1	ENSG00000219481	ENST00000287968	protein_coding	KNOWN	None	26088	492	163	16895583	16902975	-1	None	FLJ20719, KIAA1693
4	UGT2B11	ENSG00000213759	ENST00000446444	protein_coding	KNOWN	CCDS3527	12545	1590	529	70065669	70080449	-1	None	None
4	UGT2B11	ENSG00000213759	ENST00000513315	retained_intron	KNOWN	None	12545	None	None	70070022	70071411	-1	None	None
20	None	ENSG00000225988	ENST00000443469	antisense	KNOWN	None	None	None	None	9485827	9495645	-1	None	None
2	None	ENSG00000270447	ENST00000604976	processed_pseudogene	KNOWN	None	None	None	None	59742025	59742259	1	None	None
2	IGKV2OR2-7	ENSG00000271015	ENST00000603664	IG_V_pseudogene	KNOWN	None	5810	None	None	98000864	98001167	-1	None	IGKV2/OR2-7
3	HSPD1P6	ENSG00000230067	ENST00000388967	transcribed_processed_pseudogene	KNOWN	None	5267	None	None	36808608	36810290	-1	HSPDP6	HSPD1-6P
3	HSPD1P6	ENSG00000230067	ENST00000424886	processed_transcript	KNOWN	None	5267	None	None	36810216	36825658	-1	HSPDP6	HSPD1-6P
5	RNA5SP188	ENSG00000199786	ENST00000362916	rRNA	KNOWN	None	43088	None	None	101466711	101466839	-1	RN5S188	None
6	NDUFS5P1	ENSG00000218424	ENST00000405668	processed_pseudogene	KNOWN	None	44039	None	None	136797000	136797288	-1	None	None
1	MIR4255	ENSG00000264698	ENST00000579351	miRNA	KNOWN	None	38187	None	None	37627164	37627235	1	None	hsa-mir-4255
1	RPL5P5	ENSG00000213051	ENST00000392009	processed_pseudogene	KNOWN	None	35564	None	None	185195940	185196832	-1	None	None
2	None	ENSG00000252455	ENST00000516646	miRNA	NOVEL	None	None	None	None	59760119	59760210	-1	None	None
12	OR6C72P	ENSG00000205331	ENST00000451403	unitary_pseudogene	KNOWN	None	31301	None	None	55677534	55678425	1	None	None
12	OR6C72P	ENSG00000205331	ENST00000379669	unitary_pseudogene	KNOWN	None	31301	None	None	55677534	55706860	1	None	None
7	None	ENSG00000225244	ENST00000438030	unprocessed_pseudogene	KNOWN	None	None	None	None	57008048	57012060	-1	None	None
5	None	ENSG00000248261	ENST00000506058	lincRNA	KNOWN	None	None	None	None	101479781	101482276	1	None	None
1	RNU6-636P	ENSG00000207328	ENST00000384598	snRNA	KNOWN	None	47599	None	None	37669211	37669317	1	None	None
2	RNU6-508P	ENSG00000200101	ENST00000363231	snRNA	KNOWN	None	47471	None	None	59874756	59874858	1	None	None
12	None	ENSG00000271259	ENST00000605051	lincRNA	KNOWN	None	None	None	None	89765597	89766136	1	None	None
1	IGSF9	ENSG00000085552	ENST00000496645	processed_transcript	KNOWN	None	18132	None	None	159896829	159902259	-1	None	KIAA1355, Nrt1, IGSF9A
1	IGSF9	ENSG00000085552	ENST00000493195	processed_transcript	KNOWN	None	18132	None	None	159896829	159903724	-1	None	KIAA1355, Nrt1, IGSF9A
1	IGSF9	ENSG00000085552	ENST00000476102	processed_transcript	KNOWN	None	18132	None	None	159896829	159915383	-1	None	KIAA1355, Nrt1, IGSF9A
1	IGSF9	ENSG00000085552	ENST00000361509	protein_coding	KNOWN	CCDS1190	18132	3492	1163	159896829	159915386	-1	None	KIAA1355, Nrt1, IGSF9A
1	IGSF9	ENSG00000085552	ENST00000368094	protein_coding	KNOWN	CCDS44254	18132	3540	1179	159896829	159915386	-1	None	KIAA1355, Nrt1, IGSF9A
2	IGKV1OR2-6	ENSG00000271569	ENST00000603485	IG_V_pseudogene	KNOWN	None	5770	None	None	98018364	98018640	-1	None	IGKV1/OR2-6
5	RN7SKP68	ENSG00000222987	ENST00000411055	misc_RNA	KNOWN	None	45792	None	None	101638208	101638514	1	None	None
1	None	ENSG00000223944	ENST00000413901	lincRNA	KNOWN	None	None	None	None	37728340	37790701	-1	None	None
15	None	ENSG00000212664	ENST00000498103	processed_pseudogene	KNOWN	None	None	None	None	71633497	71634051	-1	None	None
15	None	ENSG00000212664	ENST00000401798	pseudogene	KNOWN	None	None	None	None	71633466	71634086	-1	None	None
2	RNA5SP94	ENSG00000252726	ENST00000516917	rRNA	KNOWN	None	42892	None	None	59921897	59922004	1	RN5S94	None
5	MIR3936	ENSG00000263597	ENST00000584304	miRNA	KNOWN	None	38947	None	None	131701182	131701291	-1	None	hsa-mir-3936
2	IGKV3OR2-5	ENSG00000270252	ENST00000605851	IG_V_pseudogene	KNOWN	None	5832	None	None	98024520	98024800	-1	None	IGKV3/OR2-5
5	None	ENSG00000249017	ENST00000502494	antisense	KNOWN	None	None	None	None	101836245	101841372	1	None	None
5	None	ENSG00000249017	ENST00000509656	antisense	KNOWN	None	None	None	None	101840973	101841374	1	None	None
1	RNU2-70P	ENSG00000222650	ENST00000410718	snRNA	KNOWN	None	48563	None	None	236431080	236431258	1	None	None
2	None	ENSG00000228590	ENST00000457668	lincRNA	KNOWN	None	None	None	None	60577730	60580151	-1	None	None
15	RNU6-741P	ENSG00000206616	ENST00000383889	snRNA	KNOWN	None	47704	None	None	24022584	24022690	-1	None	None
1	SPATA1	ENSG00000122432	ENST00000370638	processed_transcript	KNOWN	None	14682	None	None	84971974	84992571	1	None	SP-2
1	SPATA1	ENSG00000122432	ENST00000484939	processed_transcript	KNOWN	None	14682	None	None	84971983	84973003	1	None	SP-2
1	SPATA1	ENSG00000122432	ENST00000490879	processed_transcript	KNOWN	None	14682	None	None	84972013	85016213	1	None	SP-2
1	SPATA1	ENSG00000122432	ENST00000468437	processed_transcript	KNOWN	None	14682	None	None	84972065	84972684	1	None	SP-2
1	SPATA1	ENSG00000122432	ENST00000431031	processed_transcript	KNOWN	None	14682	None	None	84972080	85014531	1	None	SP-2
1	SPATA1	ENSG00000122432	ENST00000554297	transcribed_unprocessed_pseudogene	KNOWN	None	14682	None	None	84982043	85018808	1	None	SP-2
1	SPATA1	ENSG00000122432	ENST00000485121	processed_transcript	KNOWN	None	14682	None	None	84985798	84991759	1	None	SP-2
1	SPATA1	ENSG00000122432	ENST00000473108	processed_transcript	KNOWN	None	14682	None	None	84988101	84993336	1	None	SP-2
1	SPATA1	ENSG00000122432	ENST00000460286	processed_transcript	KNOWN	None	14682	None	None	85009885	85031877	1	None	SP-2
1	SPATA1	ENSG00000122432	ENST00000263717	unprocessed_pseudogene	KNOWN	None	14682	None	None	84971974	85031875	1	None	SP-2
5	None	ENSG00000238160	ENST00000454380	antisense	KNOWN	None	None	None	None	131755108	131762406	-1	None	None
5	None	ENSG00000238160	ENST00000422204	antisense	KNOWN	None	None	None	None	131761073	131762146	-1	None	None
1	RNA5SP43	ENSG00000252368	ENST00000516559	rRNA	KNOWN	None	42819	None	None	37730278	37730387	-1	RN5S43	None
1	None	ENSG00000237922	ENST00000423792	processed_pseudogene	KNOWN	None	None	None	None	236449276	236450260	-1	None	None
15	None	ENSG00000261622	ENST00000562975	lincRNA	KNOWN	None	None	None	None	24157556	24186863	1	None	None
7	MIR4283-1	ENSG00000264426	ENST00000582960	miRNA	KNOWN	None	38238	None	None	57023492	57023571	-1	None	hsa-mir-4283-1
7	MIR4283-2	ENSG00000264426	ENST00000582960	miRNA	KNOWN	None	38296	None	None	57023492	57023571	-1	None	hsa-mir-4283-2
2	IGKV2OR2-7D	ENSG00000270450	ENST00000604652	IG_V_pseudogene	KNOWN	None	37489	None	None	98037725	98038028	1	None	IGKV2/OR2-7D
1	None	ENSG00000226335	ENST00000443671	lincRNA	KNOWN	None	None	None	None	147635066	147672830	-1	None	None
1	None	ENSG00000226335	ENST00000424741	lincRNA	KNOWN	None	None	None	None	147668530	147700929	-1	None	None
1	None	ENSG00000230451	ENST00000438196	processed_pseudogene	KNOWN	None	None	None	None	37796453	37796597	1	None	None
7	RN7SL816P	ENSG00000263803	ENST00000580766	misc_RNA	KNOWN	None	46832	None	None	57032955	57033214	1	None	None
5	LINC00492	ENSG00000250958	ENST00000504436	lincRNA	KNOWN	None	43429	None	None	101917072	101953293	1	None	None
2	None	ENSG00000223929	ENST00000453476	lincRNA	KNOWN	None	None	None	None	60586351	60618510	-1	None	None
2	None	ENSG00000223929	ENST00000441598	lincRNA	KNOWN	None	None	None	None	60586855	60610171	-1	None	None
3	RN7SL698P	ENSG00000244232	ENST00000480095	misc_RNA	KNOWN	None	46714	None	None	128503990	128504288	1	None	None
7	TNRC18P3	ENSG00000189166	ENST00000441896	unprocessed_pseudogene	KNOWN	None	34015	None	None	57059595	57076856	1	TNRC18C	None
2	IGKV2OR2-8	ENSG00000271630	ENST00000605673	IG_V_pseudogene	KNOWN	None	5811	None	None	98041867	98042166	1	None	IGKV2/OR2-8
1	None	ENSG00000201421	ENST00000364551	misc_RNA	NOVEL	None	None	None	None	185220445	185220543	1	None	None
16	None	ENSG00000270580	ENST00000605794	lincRNA	KNOWN	None	None	None	None	15198580	15225458	-1	None	None
16	None	ENSG00000270580	ENST00000340301	processed_transcript	KNOWN	None	None	None	None	15204648	15219805	-1	None	None
X	YAP1P2	ENSG00000236080	ENST00000455104	processed_pseudogene	KNOWN	None	38017	None	None	114303800	114304409	1	None	None
3	RPS15AP16	ENSG00000239483	ENST00000472521	processed_pseudogene	KNOWN	None	36764	None	None	128517684	128518044	-1	None	None
5	None	ENSG00000247402	ENST00000501405	lincRNA	KNOWN	None	None	None	None	101941339	101941901	1	None	None
1	None	ENSG00000252638	ENST00000516829	snoRNA	NOVEL	None	None	None	None	236464280	236464351	1	None	None
HG858_PATCH	IQSEC3	ENSG00000261772	ENST00000568103	protein_coding	KNOWN	None	29193	3549	1182	116765	228460	1	None	KIAA1110, MGC30156
HG858_PATCH	IQSEC3	ENSG00000261772	ENST00000567353	protein_coding	KNOWN	None	29193	2280	759	127376	221330	1	None	KIAA1110, MGC30156
HG858_PATCH	IQSEC3	ENSG00000261772	ENST00000565007	retained_intron	KNOWN	None	29193	None	None	218978	221466	1	None	KIAA1110, MGC30156
HG858_PATCH	IQSEC3	ENSG00000261772	ENST00000565527	processed_transcript	KNOWN	None	29193	None	None	219055	225359	1	None	KIAA1110, MGC30156
HG858_PATCH	IQSEC3	ENSG00000261772	ENST00000569705	processed_transcript	PUTATIVE	None	29193	None	None	226482	228454	1	None	KIAA1110, MGC30156
1	None	ENSG00000206640	ENST00000383913	misc_RNA	NOVEL	None	None	None	None	185227043	185227147	-1	None	None
6	NRN1	ENSG00000124785	ENST00000244766	protein_coding	KNOWN	CCDS4495	17972	429	142	5998232	6007200	-1	None	NRN
6	NRN1	ENSG00000124785	ENST00000495850	processed_transcript	KNOWN	None	17972	None	None	5998948	6003196	-1	None	NRN
3	TOMM22P6	ENSG00000241874	ENST00000465035	processed_pseudogene	KNOWN	None	38742	None	None	162204329	162204737	-1	None	None
1	ENO1P1	ENSG00000244457	ENST00000366587	transcribed_processed_pseudogene	KNOWN	None	3352	None	None	236646465	236647768	1	ENO1P	None
5	None	ENSG00000249295	ENST00000514270	antisense	KNOWN	None	None	None	None	68773299	68798293	-1	None	None
5	None	ENSG00000249295	ENST00000508118	antisense	KNOWN	None	None	None	None	68773307	68781439	-1	None	None
1	None	ENSG00000233621	ENST00000424989	antisense	KNOWN	None	None	None	None	37920480	37940012	-1	None	None
11	None	ENSG00000269895	ENST00000602510	lincRNA	KNOWN	None	None	None	None	86544110	86548657	1	None	None
2	None	ENSG00000213081	ENST00000434906	processed_pseudogene	KNOWN	None	None	None	None	209225356	209226094	-1	None	None
2	ZNF513	ENSG00000163795	ENST00000323703	protein_coding	KNOWN	CCDS1751	26498	1626	541	27600098	27603592	-1	None	FLJ32203
2	ZNF513	ENSG00000163795	ENST00000407879	protein_coding	NOVEL	CCDS56114	26498	1440	479	27600102	27603311	-1	None	FLJ32203
2	ZNF513	ENSG00000163795	ENST00000491924	processed_transcript	KNOWN	None	26498	None	None	27600591	27601860	-1	None	FLJ32203
2	ZNF513	ENSG00000163795	ENST00000436006	protein_coding	NOVEL	None	26498	349	115	27601598	27603657	-1	None	FLJ32203
2	RNU1-32P	ENSG00000200807	ENST00000363937	snRNA	KNOWN	None	48374	None	None	60611740	60611898	1	None	None
1	None	ENSG00000233583	ENST00000441261	processed_pseudogene	KNOWN	None	None	None	None	185231418	185233488	-1	None	None
X	GPR174	ENSG00000147138	ENST00000276077	protein_coding	KNOWN	CCDS14443	30245	1002	333	78426469	78427726	1	None	FKSG79
2	UXS1	ENSG00000115652	ENST00000283148	protein_coding	KNOWN	CCDS58721	17729	1278	425	106709759	106810795	-1	None	FLJ23591, UGD, SDR6E1
2	UXS1	ENSG00000115652	ENST00000497604	retained_intron	KNOWN	None	17729	None	None	106709764	106719408	-1	None	FLJ23591, UGD, SDR6E1
2	UXS1	ENSG00000115652	ENST00000409501	protein_coding	KNOWN	CCDS46378	17729	1263	420	106709964	106810755	-1	None	FLJ23591, UGD, SDR6E1
2	UXS1	ENSG00000115652	ENST00000473338	retained_intron	KNOWN	None	17729	None	None	106710060	106714166	-1	None	FLJ23591, UGD, SDR6E1
2	UXS1	ENSG00000115652	ENST00000409032	protein_coding	KNOWN	CCDS58720	17729	759	252	106710060	106755337	-1	None	FLJ23591, UGD, SDR6E1
2	UXS1	ENSG00000115652	ENST00000470053	retained_intron	KNOWN	None	17729	None	None	106717229	106721280	-1	None	FLJ23591, UGD, SDR6E1
2	UXS1	ENSG00000115652	ENST00000441952	protein_coding	PUTATIVE	None	17729	512	169	106717503	106810755	-1	None	FLJ23591, UGD, SDR6E1
2	UXS1	ENSG00000115652	ENST00000416298	protein_coding	KNOWN	None	17729	404	133	106721250	106777081	-1	None	FLJ23591, UGD, SDR6E1
2	UXS1	ENSG00000115652	ENST00000444193	protein_coding	KNOWN	None	17729	363	120	106729099	106777040	-1	None	FLJ23591, UGD, SDR6E1
2	UXS1	ENSG00000115652	ENST00000457835	protein_coding	PUTATIVE	None	17729	572	189	106739427	106810755	-1	None	FLJ23591, UGD, SDR6E1
2	UXS1	ENSG00000115652	ENST00000436241	protein_coding	KNOWN	None	17729	158	51	106739508	106755242	-1	None	FLJ23591, UGD, SDR6E1
2	UXS1	ENSG00000115652	ENST00000479774	processed_transcript	KNOWN	None	17729	None	None	106761646	106776568	-1	None	FLJ23591, UGD, SDR6E1
2	UXS1	ENSG00000115652	ENST00000479621	processed_transcript	KNOWN	None	17729	None	None	106761646	106776853	-1	None	FLJ23591, UGD, SDR6E1
2	UXS1	ENSG00000115652	ENST00000483426	processed_transcript	KNOWN	None	17729	None	None	106761725	106810755	-1	None	FLJ23591, UGD, SDR6E1
2	UXS1	ENSG00000115652	ENST00000474920	processed_transcript	KNOWN	None	17729	None	None	106774514	106782935	-1	None	FLJ23591, UGD, SDR6E1
2	UXS1	ENSG00000115652	ENST00000540130	protein_coding	KNOWN	None	17729	1092	363	106709771	106810759	-1	None	FLJ23591, UGD, SDR6E1
2	UXS1	ENSG00000115652	ENST00000428048	protein_coding	KNOWN	None	17729	558	185	106717107	106810755	-1	None	FLJ23591, UGD, SDR6E1
1	RNA5SP58	ENSG00000238677	ENST00000459025	rRNA	KNOWN	None	42835	None	None	147665993	147666115	1	RN5S58	None
20	BIRC7	ENSG00000101197	ENST00000342412	protein_coding	KNOWN	CCDS13512	13702	843	280	61867235	61871847	1	None	mliap, ML-IAP, KIAP, RNF50
20	BIRC7	ENSG00000101197	ENST00000217169	protein_coding	KNOWN	CCDS13513	13702	897	298	61867235	61871859	1	None	mliap, ML-IAP, KIAP, RNF50
20	BIRC7	ENSG00000101197	ENST00000395306	protein_coding	PUTATIVE	None	13702	582	193	61869554	61870962	1	None	mliap, ML-IAP, KIAP, RNF50
2	MIR4432	ENSG00000266078	ENST00000581823	miRNA	KNOWN	None	41649	None	None	60614497	60614580	-1	None	hsa-mir-4432
2	IGKV1OR2-9	ENSG00000271351	ENST00000603957	IG_V_pseudogene	KNOWN	None	5771	None	None	98051276	98051562	1	None	IGKV1/OR2-9
5	LINC00491	ENSG00000250682	ENST00000510145	lincRNA	KNOWN	None	43428	None	None	101944860	102007263	-1	None	None
5	LINC00491	ENSG00000250682	ENST00000505527	lincRNA	KNOWN	None	43428	None	None	101944964	102007011	-1	None	None
5	LINC00491	ENSG00000250682	ENST00000513815	lincRNA	KNOWN	None	43428	None	None	101945095	102006987	-1	None	None
5	LINC00491	ENSG00000250682	ENST00000508339	lincRNA	KNOWN	None	43428	None	None	101945261	102007168	-1	None	None
2	None	ENSG00000265454	ENST00000580006	miRNA	NOVEL	None	None	None	None	209234286	209234347	-1	None	None
1	None	ENSG00000224335	ENST00000450470	unprocessed_pseudogene	KNOWN	None	None	None	None	147706573	147706607	1	None	None
20	None	ENSG00000232738	ENST00000428769	antisense	KNOWN	None	None	None	None	9556255	9558336	1	None	None
1	LGALS8-AS1	ENSG00000223776	ENST00000487567	antisense	KNOWN	None	40340	None	None	236686369	236687808	-1	None	None
1	LGALS8-AS1	ENSG00000223776	ENST00000493812	antisense	KNOWN	None	40340	None	None	236686371	236687800	-1	None	None
1	None	ENSG00000227700	ENST00000415381	processed_pseudogene	KNOWN	None	None	None	None	147718440	147718956	1	None	None
2	None	ENSG00000233953	ENST00000444873	antisense	KNOWN	None	None	None	None	60722821	60727099	1	None	None
2	None	ENSG00000227430	ENST00000442718	processed_pseudogene	KNOWN	None	None	None	None	209330963	209331351	-1	None	None
3	None	ENSG00000244065	ENST00000498560	processed_pseudogene	KNOWN	None	None	None	None	128562407	128563247	-1	None	None
1	MIR5581	ENSG00000263675	ENST00000580821	miRNA	KNOWN	None	43527	None	None	37966536	37966595	-1	None	hsa-mir-5581
17	None	ENSG00000264107	ENST00000583377	antisense	KNOWN	None	None	None	None	29417805	29422468	-1	None	None
11	NUP98	ENSG00000110713	ENST00000533346	protein_coding	PUTATIVE	None	8068	281	92	3692313	3700917	-1	None	NUP96
11	NUP98	ENSG00000110713	ENST00000324932	protein_coding	KNOWN	CCDS7746	8068	5403	1800	3696240	3819022	-1	None	NUP96
11	NUP98	ENSG00000110713	ENST00000355260	protein_coding	KNOWN	CCDS31347	8068	5181	1726	3697029	3818688	-1	None	NUP96
11	NUP98	ENSG00000110713	ENST00000429801	protein_coding	NOVEL	None	8068	2260	752	3697108	3727765	-1	None	NUP96
11	NUP98	ENSG00000110713	ENST00000469881	retained_intron	KNOWN	None	8068	None	None	3697247	3700998	-1	None	NUP96
11	NUP98	ENSG00000110713	ENST00000482690	retained_intron	KNOWN	None	8068	None	None	3697499	3697940	-1	None	NUP96
11	NUP98	ENSG00000110713	ENST00000524563	nonsense_mediated_decay	KNOWN	None	8068	698	231	3700868	3716788	-1	None	NUP96
11	NUP98	ENSG00000110713	ENST00000530345	retained_intron	KNOWN	None	8068	None	None	3714287	3716795	-1	None	NUP96
11	NUP98	ENSG00000110713	ENST00000488828	processed_transcript	PUTATIVE	None	8068	None	None	3716701	3718490	-1	None	NUP96
11	NUP98	ENSG00000110713	ENST00000529063	nonsense_mediated_decay	KNOWN	None	8068	226	74	3716749	3723881	-1	None	NUP96
11	NUP98	ENSG00000110713	ENST00000483285	retained_intron	KNOWN	None	8068	None	None	3720239	3722044	-1	None	NUP96
11	NUP98	ENSG00000110713	ENST00000397004	protein_coding	KNOWN	CCDS41606	8068	2763	920	3732783	3818771	-1	None	NUP96
11	NUP98	ENSG00000110713	ENST00000397007	protein_coding	KNOWN	CCDS41605	8068	2814	937	3733065	3818777	-1	None	NUP96
11	NUP98	ENSG00000110713	ENST00000530516	retained_intron	KNOWN	None	8068	None	None	3740718	3742269	-1	None	NUP96
11	NUP98	ENSG00000110713	ENST00000527104	protein_coding	NOVEL	None	8068	705	234	3746333	3781824	-1	None	NUP96
11	NUP98	ENSG00000110713	ENST00000529379	protein_coding	NOVEL	None	8068	536	177	3752620	3784163	-1	None	NUP96
11	NUP98	ENSG00000110713	ENST00000397013	nonsense_mediated_decay	KNOWN	None	8068	409	135	3752713	3789910	-1	None	NUP96
11	NUP98	ENSG00000110713	ENST00000461047	retained_intron	KNOWN	None	8068	None	None	3781371	3784190	-1	None	NUP96
11	NUP98	ENSG00000110713	ENST00000532475	protein_coding	NOVEL	None	8068	372	123	3797124	3818782	-1	None	NUP96
11	NUP98	ENSG00000110713	ENST00000359171	protein_coding	KNOWN	None	8068	4917	1638	3696241	3819022	-1	None	NUP96
2	None	ENSG00000231896	ENST00000424628	sense_intronic	KNOWN	None	None	None	None	209334575	209405138	1	None	None
1	RNU1-120P	ENSG00000199879	ENST00000363009	snRNA	KNOWN	None	48462	None	None	147735751	147735907	1	None	None
2	None	ENSG00000237837	ENST00000422600	lincRNA	KNOWN	None	None	None	None	98069548	98071970	-1	None	None
15	None	ENSG00000260232	ENST00000563016	lincRNA	KNOWN	None	None	None	None	24220319	24248582	1	None	None
11	OR7E2P	ENSG00000255203	ENST00000533071	processed_pseudogene	KNOWN	None	8402	None	None	86568101	86568989	-1	OR7F2P, OR7E51P	OR11-6, hg94
2	RN7SL361P	ENSG00000242158	ENST00000470785	misc_RNA	KNOWN	None	46377	None	None	60867840	60868135	1	None	None
1	FTH1P1	ENSG00000232273	ENST00000437933	processed_pseudogene	KNOWN	None	3979	None	None	38010364	38010895	1	FTHL1	None
17	MIR4733	ENSG00000265444	ENST00000578268	miRNA	KNOWN	None	41638	None	None	29421368	29421443	-1	None	hsa-mir-4733
1	None	ENSG00000230325	ENST00000433131	antisense	KNOWN	None	None	None	None	236703394	236713580	-1	None	None
1	None	ENSG00000234283	ENST00000428035	lincRNA	KNOWN	None	None	None	None	147744014	147752855	-1	None	None
5	IL7R	ENSG00000168685	ENST00000508941	protein_coding	KNOWN	None	6024	179	58	35852797	35861050	1	None	CD127
5	IL7R	ENSG00000168685	ENST00000511031	processed_transcript	PUTATIVE	None	6024	None	None	35852825	35867567	1	None	CD127
5	IL7R	ENSG00000168685	ENST00000515665	protein_coding	KNOWN	None	6024	157	51	35856397	35861028	1	None	CD127
5	IL7R	ENSG00000168685	ENST00000303115	protein_coding	KNOWN	CCDS3911	6024	1380	459	35856951	35879705	1	None	CD127
5	IL7R	ENSG00000168685	ENST00000514217	nonsense_mediated_decay	KNOWN	None	6024	543	180	35856991	35876669	1	None	CD127
5	IL7R	ENSG00000168685	ENST00000506850	protein_coding	KNOWN	None	6024	786	261	35856993	35875824	1	None	CD127
5	IL7R	ENSG00000168685	ENST00000511982	protein_coding	PUTATIVE	None	6024	453	150	35856994	35867712	1	None	CD127
5	IL7R	ENSG00000168685	ENST00000509668	retained_intron	KNOWN	None	6024	None	None	35873303	35875623	1	None	CD127
5	IL7R	ENSG00000168685	ENST00000505093	protein_coding	PUTATIVE	None	6024	198	65	35873636	35876810	1	None	CD127
5	IL7R	ENSG00000168685	ENST00000505875	protein_coding	PUTATIVE	None	6024	626	207	35875516	35876536	1	None	CD127
5	IL7R	ENSG00000168685	ENST00000343305	protein_coding	KNOWN	None	6024	789	262	35856991	35876921	1	None	CD127
2	None	ENSG00000271134	ENST00000604586	processed_pseudogene	KNOWN	None	None	None	None	60910008	60910379	-1	None	None
2	None	ENSG00000232409	ENST00000438805	processed_pseudogene	KNOWN	None	None	None	None	209381633	209381955	1	None	None
2	None	ENSG00000213495	ENST00000424037	processed_pseudogene	KNOWN	None	None	None	None	60938619	60939055	1	None	None
9	None	ENSG00000231756	ENST00000430640	antisense	KNOWN	None	None	None	None	16473186	16476235	1	None	None
1	None	ENSG00000226498	ENST00000414293	transcribed_processed_pseudogene	KNOWN	None	None	None	None	236982934	236983818	1	None	None
1	None	ENSG00000228626	ENST00000441281	unprocessed_pseudogene	KNOWN	None	None	None	None	147760107	147761057	-1	None	None
2	RNA5SP117	ENSG00000202164	ENST00000365294	rRNA	KNOWN	None	42915	None	None	209785271	209785388	-1	RN5S117	None
12	OR6C5P	ENSG00000230307	ENST00000452388	unitary_pseudogene	KNOWN	None	31292	None	None	55705619	55706541	1	None	None
16	GALNS	ENSG00000141012	ENST00000268695	protein_coding	KNOWN	CCDS10970	4122	1569	522	88880142	88923374	-1	None	GAS, GALNAC6S
16	GALNS	ENSG00000141012	ENST00000562593	retained_intron	KNOWN	None	4122	None	None	88880143	88912032	-1	None	GAS, GALNAC6S
16	GALNS	ENSG00000141012	ENST00000567525	nonsense_mediated_decay	KNOWN	None	4122	210	69	88880144	88923234	-1	None	GAS, GALNAC6S
16	GALNS	ENSG00000141012	ENST00000568613	nonsense_mediated_decay	KNOWN	None	4122	156	51	88880731	88923234	-1	None	GAS, GALNAC6S
16	GALNS	ENSG00000141012	ENST00000564263	retained_intron	KNOWN	None	4122	None	None	88891197	88893524	-1	None	GAS, GALNAC6S
16	GALNS	ENSG00000141012	ENST00000562931	processed_transcript	KNOWN	None	4122	None	None	88898442	88904257	-1	None	GAS, GALNAC6S
16	GALNS	ENSG00000141012	ENST00000566563	retained_intron	KNOWN	None	4122	None	None	88902137	88904297	-1	None	GAS, GALNAC6S
16	GALNS	ENSG00000141012	ENST00000562831	protein_coding	PUTATIVE	None	4122	512	169	88902163	88922983	-1	None	GAS, GALNAC6S
16	GALNS	ENSG00000141012	ENST00000561812	processed_transcript	KNOWN	None	4122	None	None	88902649	88905330	-1	None	GAS, GALNAC6S
16	GALNS	ENSG00000141012	ENST00000565364	processed_transcript	KNOWN	None	4122	None	None	88906743	88923250	-1	None	GAS, GALNAC6S
16	GALNS	ENSG00000141012	ENST00000567779	retained_intron	KNOWN	None	4122	None	None	88907106	88908453	-1	None	GAS, GALNAC6S
16	GALNS	ENSG00000141012	ENST00000568311	protein_coding	PUTATIVE	None	4122	351	116	88921536	88923378	-1	None	GAS, GALNAC6S
16	GALNS	ENSG00000141012	ENST00000569433	protein_coding	PUTATIVE	None	4122	237	78	88922161	88923339	-1	None	GAS, GALNAC6S
16	GALNS	ENSG00000141012	ENST00000542788	protein_coding	KNOWN	None	4122	1344	447	88880143	88923285	-1	None	GAS, GALNAC6S
1	None	ENSG00000252612	ENST00000516803	misc_RNA	NOVEL	None	None	None	None	185235667	185235759	1	None	None
2	RNU6-612P	ENSG00000252718	ENST00000516909	snRNA	KNOWN	None	47575	None	None	60946775	60946876	1	None	None
11	RPL5P30	ENSG00000243431	ENST00000465511	processed_pseudogene	KNOWN	None	35837	None	None	118431405	118432295	1	None	None
X	PRICKLE3	ENSG00000012211	ENST00000376317	protein_coding	KNOWN	CCDS14320	6645	1848	615	49031151	49042845	-1	LMO6	None
X	PRICKLE3	ENSG00000012211	ENST00000453382	protein_coding	KNOWN	None	6645	1885	627	49031970	49041242	-1	LMO6	None
X	PRICKLE3	ENSG00000012211	ENST00000432913	protein_coding	KNOWN	None	6645	990	329	49034338	49041351	-1	LMO6	None
X	PRICKLE3	ENSG00000012211	ENST00000376310	protein_coding	KNOWN	None	6645	522	173	49035754	49042842	-1	LMO6	None
X	PRICKLE3	ENSG00000012211	ENST00000417014	protein_coding	KNOWN	None	6645	450	149	49040049	49042845	-1	LMO6	None
X	PRICKLE3	ENSG00000012211	ENST00000538114	protein_coding	KNOWN	None	6645	1320	439	49032022	49042822	-1	LMO6	None
X	PRICKLE3	ENSG00000012211	ENST00000536904	protein_coding	KNOWN	None	6645	1605	534	49031613	49041346	-1	LMO6	None
X	PRICKLE3	ENSG00000012211	ENST00000540849	protein_coding	KNOWN	None	6645	1644	547	49031731	49041329	-1	LMO6	None
10	None	ENSG00000203496	ENST00000428915	lincRNA	KNOWN	None	None	None	None	38742109	38755104	1	None	None
2	HSPA8P6	ENSG00000235864	ENST00000451965	processed_pseudogene	KNOWN	None	44921	None	None	209937321	209938872	-1	None	None
11	None	ENSG00000255109	ENST00000525641	lincRNA	KNOWN	None	None	None	None	42204842	42261369	-1	None	None
11	None	ENSG00000255109	ENST00000530387	lincRNA	KNOWN	None	None	None	None	42204847	42261285	-1	None	None
11	None	ENSG00000255109	ENST00000527757	lincRNA	KNOWN	None	None	None	None	42236345	42275262	-1	None	None
1	None	ENSG00000238061	ENST00000413701	processed_pseudogene	KNOWN	None	None	None	None	185249976	185250948	1	None	None
9	None	ENSG00000230694	ENST00000439447	antisense	KNOWN	None	None	None	None	16625674	16626388	1	None	None
15	PWRN2	ENSG00000260551	ENST00000566245	lincRNA	KNOWN	None	33236	None	None	24407901	24415021	-1	None	NCRNA00199
15	PWRN2	ENSG00000260551	ENST00000567854	lincRNA	KNOWN	None	33236	None	None	24407902	24415004	-1	None	NCRNA00199
15	PWRN2	ENSG00000260551	ENST00000567246	lincRNA	KNOWN	None	33236	None	None	24409924	24415095	-1	None	NCRNA00199
2	ATP1B3P1	ENSG00000271707	ENST00000605365	processed_pseudogene	KNOWN	None	807	None	None	60962030	60962850	-1	None	None
1	None	ENSG00000231196	ENST00000434245	lincRNA	KNOWN	None	None	None	None	147762996	147767966	-1	None	None
11	TIGD3	ENSG00000173825	ENST00000309880	protein_coding	KNOWN	CCDS8101	18334	1416	471	65122238	65125084	1	None	None
2	None	ENSG00000230606	ENST00000492960	lincRNA	KNOWN	None	None	None	None	98081083	98091049	-1	None	None
2	None	ENSG00000230606	ENST00000411738	lincRNA	KNOWN	None	None	None	None	98081774	98089122	-1	None	None
2	None	ENSG00000230606	ENST00000594834	lincRNA	KNOWN	None	None	None	None	98081774	98091637	-1	None	None
2	None	ENSG00000230606	ENST00000598560	lincRNA	KNOWN	None	None	None	None	98081774	98091784	-1	None	None
2	None	ENSG00000230606	ENST00000598512	lincRNA	KNOWN	None	None	None	None	98081833	98089662	-1	None	None
2	None	ENSG00000230606	ENST00000593408	lincRNA	KNOWN	None	None	None	None	98081851	98088912	-1	None	None
2	None	ENSG00000230606	ENST00000594981	lincRNA	KNOWN	None	None	None	None	98081922	98089511	-1	None	None
2	None	ENSG00000230606	ENST00000594050	lincRNA	KNOWN	None	None	None	None	98088032	98089496	-1	None	None
2	None	ENSG00000230606	ENST00000431244	lincRNA	KNOWN	None	None	None	None	98088089	98088849	-1	None	None
2	None	ENSG00000230606	ENST00000600957	lincRNA	KNOWN	None	None	None	None	98088548	98091651	-1	None	None
2	None	ENSG00000230606	ENST00000604397	lincRNA	KNOWN	None	None	None	None	98088576	98095220	-1	None	None
2	None	ENSG00000230606	ENST00000596026	lincRNA	KNOWN	None	None	None	None	98088578	98089994	-1	None	None
2	None	ENSG00000230606	ENST00000430893	lincRNA	KNOWN	None	None	None	None	98088652	98089794	-1	None	None
HSCHR9_2_CTG35	None	ENSG00000263297	ENST00000574040	antisense	PUTATIVE	None	None	None	None	72768036	72772443	-1	None	None
HSCHR9_2_CTG35	None	ENSG00000263297	ENST00000571946	antisense	KNOWN	None	None	None	None	72768036	72796828	-1	None	None
HSCHR9_2_CTG35	None	ENSG00000263297	ENST00000572119	antisense	PUTATIVE	None	None	None	None	72790639	72796884	-1	None	None
HSCHR9_2_CTG35	None	ENSG00000263297	ENST00000572602	antisense	PUTATIVE	None	None	None	None	72792995	72793763	-1	None	None
2	None	ENSG00000228414	ENST00000439412	lincRNA	KNOWN	None	None	None	None	61052267	61108449	-1	None	None
2	None	ENSG00000228414	ENST00000452343	lincRNA	KNOWN	None	None	None	None	61074895	61108449	-1	None	None
1	None	ENSG00000238107	ENST00000427169	lincRNA	KNOWN	None	None	None	None	147767287	147769663	1	None	None
2	NDUFAF7	ENSG00000003509	ENST00000455230	nonsense_mediated_decay	KNOWN	None	28816	414	137	37458774	37474719	1	C2orf56	PRO1853, MidA
2	NDUFAF7	ENSG00000003509	ENST00000474154	retained_intron	KNOWN	None	28816	None	None	37458806	37476303	1	C2orf56	PRO1853, MidA
2	NDUFAF7	ENSG00000003509	ENST00000002125	protein_coding	KNOWN	CCDS1788	28816	1326	441	37458809	37476303	1	C2orf56	PRO1853, MidA
2	NDUFAF7	ENSG00000003509	ENST00000336237	protein_coding	NOVEL	CCDS42673	28816	1032	343	37458822	37476303	1	C2orf56	PRO1853, MidA
2	NDUFAF7	ENSG00000003509	ENST00000431821	protein_coding	PUTATIVE	None	28816	690	229	37458832	37473329	1	C2orf56	PRO1853, MidA
2	NDUFAF7	ENSG00000003509	ENST00000416653	protein_coding	PUTATIVE	None	28816	333	110	37458910	37468771	1	C2orf56	PRO1853, MidA
2	NDUFAF7	ENSG00000003509	ENST00000469831	retained_intron	KNOWN	None	28816	None	None	37458910	37469099	1	C2orf56	PRO1853, MidA
2	NDUFAF7	ENSG00000003509	ENST00000483999	processed_transcript	KNOWN	None	28816	None	None	37458919	37473338	1	C2orf56	PRO1853, MidA
2	NDUFAF7	ENSG00000003509	ENST00000439218	protein_coding	PUTATIVE	None	28816	803	266	37458963	37473331	1	C2orf56	PRO1853, MidA
2	NDUFAF7	ENSG00000003509	ENST00000432075	protein_coding	PUTATIVE	None	28816	444	147	37458985	37468882	1	C2orf56	PRO1853, MidA
2	NDUFAF7	ENSG00000003509	ENST00000474257	retained_intron	KNOWN	None	28816	None	None	37469082	37475563	1	C2orf56	PRO1853, MidA
2	NDUFAF7	ENSG00000003509	ENST00000419278	processed_transcript	KNOWN	None	28816	None	None	37471064	37475530	1	C2orf56	PRO1853, MidA
2	NDUFAF7	ENSG00000003509	ENST00000441905	nonsense_mediated_decay	KNOWN	None	28816	267	88	37474599	37480546	1	C2orf56	PRO1853, MidA
2	CRYGFP	ENSG00000232799	ENST00000418459	unprocessed_pseudogene	KNOWN	None	2413	None	None	210009965	210012411	1	CRYG6, CRYGFP1	p1
3	None	ENSG00000243022	ENST00000484446	processed_pseudogene	KNOWN	None	None	None	None	128567516	128568242	-1	None	None
1	None	ENSG00000237749	ENST00000423216	processed_pseudogene	KNOWN	None	None	None	None	38021848	38022100	1	None	None
1	None	ENSG00000237749	ENST00000368565	processed_pseudogene	KNOWN	None	None	None	None	38021843	38022108	1	None	None
10	ABCD1P2	ENSG00000215151	ENST00000429313	unprocessed_pseudogene	KNOWN	None	63	None	None	38894549	38898740	1	None	bA453N3.6
19	None	ENSG00000221258	ENST00000408331	miRNA	NOVEL	None	None	None	None	38544518	38544605	-1	None	None
14	None	ENSG00000258598	ENST00000557687	lincRNA	KNOWN	None	None	None	None	104842867	104845288	-1	None	None
1	None	ENSG00000244252	ENST00000445201	lincRNA	KNOWN	None	None	None	None	147767899	147769378	-1	None	None
2	MEAF6P1	ENSG00000240286	ENST00000416092	processed_pseudogene	KNOWN	None	42660	None	None	210043528	210046742	1	None	None
12	None	ENSG00000255661	ENST00000540583	nonsense_mediated_decay	KNOWN	None	None	123	40	12878851	12967133	1	None	None
12	None	ENSG00000255661	ENST00000534843	nonsense_mediated_decay	KNOWN	None	None	123	40	12878863	12982909	1	None	None
12	None	ENSG00000255661	ENST00000588943	retained_intron	KNOWN	None	None	None	None	12878960	12965584	1	None	None
2	RMND5A	ENSG00000153561	ENST00000283632	protein_coding	KNOWN	CCDS1991	25850	1176	391	86947296	87005164	1	None	FLJ13910, RMD5, GID2, GID2A
2	RMND5A	ENSG00000153561	ENST00000466417	processed_transcript	PUTATIVE	None	25850	None	None	86975351	86980668	1	None	FLJ13910, RMD5, GID2, GID2A
2	RMND5A	ENSG00000153561	ENST00000472843	processed_transcript	KNOWN	None	25850	None	None	86992636	87000548	1	None	FLJ13910, RMD5, GID2, GID2A
2	RMND5A	ENSG00000153561	ENST00000471113	processed_transcript	PUTATIVE	None	25850	None	None	86998424	87000720	1	None	FLJ13910, RMD5, GID2, GID2A
1	RPL35P1	ENSG00000237991	ENST00000450819	processed_pseudogene	KNOWN	None	36695	None	None	237144639	237145008	1	None	None
1	RPL35P1	ENSG00000237991	ENST00000593917	processed_pseudogene	KNOWN	None	36695	None	None	237144637	237145008	1	None	None
11	None	ENSG00000255471	ENST00000528660	antisense	KNOWN	None	None	None	None	86603256	86633146	-1	None	None
11	None	ENSG00000255471	ENST00000533672	antisense	KNOWN	None	None	None	None	86632964	86636079	-1	None	None
14	CNIH	ENSG00000100528	ENST00000395573	protein_coding	NOVEL	None	19431	291	96	54893654	54908109	-1	CNIH	TGAM77, CNIL
14	CNIH	ENSG00000100528	ENST00000216416	protein_coding	KNOWN	CCDS9717	19431	435	144	54893654	54908149	-1	CNIH	TGAM77, CNIL
14	CNIH	ENSG00000100528	ENST00000557659	nonsense_mediated_decay	KNOWN	None	19431	162	53	54894047	54908094	-1	CNIH	TGAM77, CNIL
14	CNIH	ENSG00000100528	ENST00000553660	protein_coding	PUTATIVE	None	19431	366	121	54894143	54908075	-1	CNIH	TGAM77, CNIL
14	CNIH	ENSG00000100528	ENST00000557690	protein_coding	NOVEL	None	19431	483	160	54894241	54908109	-1	CNIH	TGAM77, CNIL
14	CNIH	ENSG00000100528	ENST00000554683	nonsense_mediated_decay	KNOWN	None	19431	102	33	54894313	54908062	-1	CNIH	TGAM77, CNIL
14	CNIH	ENSG00000100528	ENST00000556113	protein_coding	PUTATIVE	None	19431	411	136	54896876	54908058	-1	CNIH	TGAM77, CNIL
20	None	ENSG00000243961	ENST00000449270	processed_transcript	PUTATIVE	None	None	None	None	9966736	9987764	1	None	None
20	None	ENSG00000243961	ENST00000437504	processed_transcript	PUTATIVE	None	None	None	None	9966774	10023864	1	None	None
14	RNU6-684P	ENSG00000222761	ENST00000410829	snRNA	KNOWN	None	47647	None	None	104867280	104867385	-1	None	None
11	None	ENSG00000255478	ENST00000533886	antisense	KNOWN	None	None	None	None	65134909	65142770	1	None	None
1	None	ENSG00000261024	ENST00000562817	lincRNA	KNOWN	None	None	None	None	185290288	185302200	-1	None	None
1	None	ENSG00000261024	ENST00000563533	lincRNA	KNOWN	None	None	None	None	185292978	185304139	-1	None	None
1	None	ENSG00000261024	ENST00000565520	lincRNA	KNOWN	None	None	None	None	185300389	185304171	-1	None	None
2	PKP4P1	ENSG00000229670	ENST00000426801	unprocessed_pseudogene	KNOWN	None	42661	None	None	210043690	210045847	1	None	None
19	None	ENSG00000268764	ENST00000599092	antisense	KNOWN	None	None	None	None	38599140	38600173	-1	None	None
1	None	ENSG00000235988	ENST00000452108	processed_pseudogene	KNOWN	None	None	None	None	147789799	147790129	-1	None	None
14	CEND1P1	ENSG00000213159	ENST00000451006	processed_pseudogene	KNOWN	None	43674	None	None	104917316	104917770	1	None	None
1	OR2G2	ENSG00000177489	ENST00000320065	protein_coding	KNOWN	CCDS31092	15007	954	317	247751662	247752615	1	None	None
11	DCUN1D5	ENSG00000137692	ENST00000527260	protein_coding	NOVEL	None	28409	586	194	102932805	102960047	-1	None	MGC2714, FLJ32431
11	DCUN1D5	ENSG00000137692	ENST00000260247	protein_coding	KNOWN	CCDS8325	28409	714	237	102932808	102962944	-1	None	MGC2714, FLJ32431
11	DCUN1D5	ENSG00000137692	ENST00000531571	nonsense_mediated_decay	KNOWN	None	28409	204	67	102932827	102962890	-1	None	MGC2714, FLJ32431
11	DCUN1D5	ENSG00000137692	ENST00000531543	protein_coding	NOVEL	None	28409	459	152	102932834	102962918	-1	None	MGC2714, FLJ32431
11	DCUN1D5	ENSG00000137692	ENST00000529281	nonsense_mediated_decay	KNOWN	None	28409	216	71	102932900	102962906	-1	None	MGC2714, FLJ32431
11	DCUN1D5	ENSG00000137692	ENST00000529294	nonsense_mediated_decay	KNOWN	None	28409	205	67	102933075	102962590	-1	None	MGC2714, FLJ32431
11	DCUN1D5	ENSG00000137692	ENST00000527576	nonsense_mediated_decay	KNOWN	None	28409	93	30	102933110	102962883	-1	None	MGC2714, FLJ32431
11	DCUN1D5	ENSG00000137692	ENST00000527779	nonsense_mediated_decay	KNOWN	None	28409	255	84	102935004	102962877	-1	None	MGC2714, FLJ32431
11	DCUN1D5	ENSG00000137692	ENST00000583974	nonsense_mediated_decay	KNOWN	None	28409	129	42	102937188	102953568	-1	None	MGC2714, FLJ32431
11	DCUN1D5	ENSG00000137692	ENST00000525420	nonsense_mediated_decay	KNOWN	None	28409	93	30	102937217	102962923	-1	None	MGC2714, FLJ32431
11	DCUN1D5	ENSG00000137692	ENST00000529076	processed_transcript	PUTATIVE	None	28409	None	None	102960000	102962855	-1	None	MGC2714, FLJ32431
12	CENPCP1	ENSG00000226982	ENST00000533085	processed_pseudogene	KNOWN	None	1855	None	None	89893870	89896447	1	CENPC, CENPC2, CENPC1P1	None
12	None	ENSG00000272173	ENST00000607421	antisense	KNOWN	None	None	None	None	7052671	7053767	-1	None	None
2	RNA5SP118	ENSG00000222317	ENST00000410385	rRNA	KNOWN	None	42916	None	None	210586637	210586745	-1	RN5S118	None
2	RN7SL632P	ENSG00000241524	ENST00000489734	misc_RNA	KNOWN	None	46648	None	None	61058800	61059063	-1	None	None
5	None	ENSG00000202533	ENST00000365663	misc_RNA	NOVEL	None	None	None	None	131803839	131803949	1	None	None
19	None	ENSG00000269653	ENST00000594299	sense_intronic	KNOWN	None	None	None	None	38675016	38676905	1	None	None
1	None	ENSG00000224481	ENST00000452996	lincRNA	KNOWN	None	None	None	None	147801124	147816764	1	None	None
1	None	ENSG00000200421	ENST00000363551	misc_RNA	NOVEL	None	None	None	None	38203627	38203726	-1	None	None
HSCHR9_2_CTG35	None	ENSG00000262278	ENST00000577078	snRNA	NOVEL	None	None	None	None	72809567	72809746	-1	None	None
5	None	ENSG00000234290	ENST00000443093	antisense	KNOWN	None	None	None	None	131804582	131808735	-1	None	None
3	MARK2P6	ENSG00000242062	ENST00000494974	processed_pseudogene	KNOWN	None	39797	None	None	128570955	128571851	-1	None	None
2	SNAI1P1	ENSG00000237194	ENST00000428587	processed_pseudogene	KNOWN	None	11129	None	None	210673528	210674304	1	SNAI1P, SNAI1L1	SNAI1L
2	None	ENSG00000237024	ENST00000444831	processed_pseudogene	KNOWN	None	None	None	None	61079395	61079878	1	None	None
8	FTH1P11	ENSG00000237264	ENST00000517577	processed_pseudogene	KNOWN	None	3981	None	None	82433917	82434467	-1	FTHL11	None
1	None	ENSG00000238871	ENST00000459008	snoRNA	NOVEL	None	None	None	None	38215874	38215974	1	None	None
19	None	ENSG00000268499	ENST00000598146	sense_intronic	KNOWN	None	None	None	None	38690476	38691574	1	None	None
8	LOXL2	ENSG00000134013	ENST00000389131	protein_coding	KNOWN	CCDS34864	6666	2325	774	23154702	23261753	-1	None	WS9-14
8	LOXL2	ENSG00000134013	ENST00000520617	retained_intron	KNOWN	None	6666	None	None	23174247	23177518	-1	None	WS9-14
8	LOXL2	ENSG00000134013	ENST00000523833	protein_coding	PUTATIVE	None	6666	303	100	23174497	23261639	-1	None	WS9-14
8	LOXL2	ENSG00000134013	ENST00000520349	protein_coding	NOVEL	None	6666	620	205	23177398	23191008	-1	None	WS9-14
8	LOXL2	ENSG00000134013	ENST00000518878	nonsense_mediated_decay	KNOWN	None	6666	204	67	23177398	23198689	-1	None	WS9-14
8	LOXL2	ENSG00000134013	ENST00000522446	retained_intron	KNOWN	None	6666	None	None	23177440	23186281	-1	None	WS9-14
8	LOXL2	ENSG00000134013	ENST00000519809	processed_transcript	KNOWN	None	6666	None	None	23177474	23186628	-1	None	WS9-14
8	LOXL2	ENSG00000134013	ENST00000520925	retained_intron	KNOWN	None	6666	None	None	23179250	23191149	-1	None	WS9-14
8	LOXL2	ENSG00000134013	ENST00000518472	processed_transcript	PUTATIVE	None	6666	None	None	23188950	23191066	-1	None	WS9-14
8	LOXL2	ENSG00000134013	ENST00000524144	protein_coding	PUTATIVE	None	6666	774	257	23217603	23282804	-1	None	WS9-14
8	LOXL2	ENSG00000134013	ENST00000520871	protein_coding	PUTATIVE	None	6666	654	217	23217603	23282841	-1	None	WS9-14
8	LOXL2	ENSG00000134013	ENST00000518083	protein_coding	KNOWN	None	6666	455	150	23217679	23228639	-1	None	WS9-14
8	LOXL2	ENSG00000134013	ENST00000524168	protein_coding	KNOWN	None	6666	417	138	23217717	23261589	-1	None	WS9-14
8	LOXL2	ENSG00000134013	ENST00000519243	protein_coding	KNOWN	None	6666	287	94	23225578	23261739	-1	None	WS9-14
8	LOXL2	ENSG00000134013	ENST00000524075	retained_intron	KNOWN	None	6666	None	None	23261419	23282814	-1	None	WS9-14
HG858_PATCH	DDX11L8	ENSG00000271747	ENST00000575871	unprocessed_pseudogene	KNOWN	None	37101	None	None	62310	63501	1	None	None
2	None	ENSG00000229127	ENST00000452057	antisense	KNOWN	None	None	None	None	210895457	210929080	1	None	None
6	TRIM31	ENSG00000204616	ENST00000471695	retained_intron	KNOWN	None	16289	None	None	30070674	30073434	-1	None	RNF, HCGI, C6orf13, HCG1
6	TRIM31	ENSG00000204616	ENST00000376734	protein_coding	KNOWN	CCDS34374	16289	1278	425	30070674	30080883	-1	None	RNF, HCGI, C6orf13, HCG1
6	TRIM31	ENSG00000204616	ENST00000468264	retained_intron	KNOWN	None	16289	None	None	30071650	30075976	-1	None	RNF, HCGI, C6orf13, HCG1
6	TRIM31	ENSG00000204616	ENST00000484583	retained_intron	KNOWN	None	16289	None	None	30071708	30073217	-1	None	RNF, HCGI, C6orf13, HCG1
6	TRIM31	ENSG00000204616	ENST00000485864	processed_transcript	KNOWN	None	16289	None	None	30072973	30079963	-1	None	RNF, HCGI, C6orf13, HCG1
6	TRIM31	ENSG00000204616	ENST00000480808	retained_intron	KNOWN	None	16289	None	None	30076523	30079483	-1	None	RNF, HCGI, C6orf13, HCG1
6	TRIM31	ENSG00000204616	ENST00000493404	retained_intron	KNOWN	None	16289	None	None	30078995	30080252	-1	None	RNF, HCGI, C6orf13, HCG1
6	TRIM31	ENSG00000204616	ENST00000540829	protein_coding	KNOWN	CCDS34374	16289	1278	425	30070827	30080867	-1	None	RNF, HCGI, C6orf13, HCG1
1	None	ENSG00000252744	ENST00000516935	misc_RNA	NOVEL	None	None	None	None	147802396	147802519	1	None	None
12	OR6C7P	ENSG00000257757	ENST00000547875	unprocessed_pseudogene	KNOWN	None	31306	None	None	55736625	55737558	1	None	None
1	ACTN4P2	ENSG00000214141	ENST00000473049	processed_pseudogene	KNOWN	None	44032	None	None	38242342	38245090	1	None	None
19	RN7SL663P	ENSG00000266428	ENST00000578592	misc_RNA	KNOWN	None	46679	None	None	38690874	38691170	1	None	None
15	None	ENSG00000260586	ENST00000562681	sense_intronic	KNOWN	None	None	None	None	71634663	71640810	1	None	None
X	None	ENSG00000271907	ENST00000607417	snoRNA	NOVEL	None	None	None	None	114360879	114361007	-1	None	None
1	RNU1-122P	ENSG00000202408	ENST00000365538	snRNA	KNOWN	None	48464	None	None	147806736	147806886	-1	None	None
12	RNU7-1	ENSG00000238923	ENST00000458811	snRNA	KNOWN	None	34033	None	None	7052979	7053041	1	RNU7	U7.1
1	RN7SKP195	ENSG00000252396	ENST00000516587	misc_RNA	KNOWN	None	45919	None	None	237284107	237284409	1	None	None
3	None	ENSG00000243044	ENST00000475129	processed_pseudogene	KNOWN	None	None	None	None	162319415	162319580	1	None	None
19	None	ENSG00000200209	ENST00000363339	misc_RNA	NOVEL	None	None	None	None	38785184	38785276	1	None	None
2	None	ENSG00000231063	ENST00000438212	processed_pseudogene	KNOWN	None	None	None	None	210952950	210953788	1	None	None
X	None	ENSG00000212241	ENST00000390939	misc_RNA	NOVEL	None	None	None	None	114373593	114373686	-1	None	None
1	RNVU1-10	ENSG00000207340	ENST00000384610	snRNA	KNOWN	None	48316	None	None	147834502	147834665	-1	None	vU1.10, RNU1-53
1	MIR4428	ENSG00000266262	ENST00000584884	miRNA	KNOWN	None	41667	None	None	237634419	237634491	1	None	hsa-mir-4428
10	UCMA	ENSG00000165623	ENST00000378681	protein_coding	KNOWN	CCDS31147	25205	417	138	13263767	13276331	-1	C10orf49	None
10	UCMA	ENSG00000165623	ENST00000463405	protein_coding	NOVEL	None	25205	351	116	13263767	13276334	-1	C10orf49	None
19	None	ENSG00000268913	ENST00000602211	lincRNA	KNOWN	None	None	None	None	38822274	38822716	1	None	None
14	None	ENSG00000259321	ENST00000558478	lincRNA	KNOWN	None	None	None	None	24608654	24609653	1	None	None
11	None	ENSG00000255499	ENST00000526389	processed_pseudogene	KNOWN	None	None	None	None	55633185	55633296	1	None	None
6	GCM1	ENSG00000137270	ENST00000259803	protein_coding	KNOWN	CCDS4950	4197	1311	436	52991762	53013627	-1	GCMA	hGCMa
1	None	ENSG00000252290	ENST00000516481	snoRNA	NOVEL	None	None	None	None	237718340	237718471	-1	None	None
3	RNA5SP144	ENSG00000222778	ENST00000410846	rRNA	KNOWN	None	43044	None	None	143905747	143905862	-1	RN5S144	None
1	None	ENSG00000215863	ENST00000381475	lincRNA	KNOWN	None	None	None	None	147835127	147931933	-1	None	None
1	None	ENSG00000215863	ENST00000417554	lincRNA	KNOWN	None	None	None	None	147930762	147931881	-1	None	None
19	None	ENSG00000238838	ENST00000459333	snoRNA	NOVEL	None	None	None	None	38839649	38839750	-1	None	None
12	None	ENSG00000272062	ENST00000607161	lincRNA	KNOWN	None	None	None	None	7072408	7085065	1	None	None
12	None	ENSG00000272062	ENST00000261406	lincRNA	KNOWN	None	None	None	None	7079944	7085165	1	None	None
HSCHR6_MHC_APD	TNF	ENSG00000228978	ENST00000445232	protein_coding	KNOWN	None	11892	516	171	31555632	31557434	1	TNFA	TNFSF2, DIF, TNF-alpha
1	None	ENSG00000237250	ENST00000450451	antisense	KNOWN	None	None	None	None	238025475	238091621	1	None	None
11	None	ENSG00000255469	ENST00000530713	processed_pseudogene	KNOWN	None	None	None	None	102751222	102751576	1	None	None
2	RNU4-51P	ENSG00000201076	ENST00000364206	snRNA	KNOWN	None	46987	None	None	61138438	61138577	1	None	None
12	None	ENSG00000256975	ENST00000545710	processed_pseudogene	KNOWN	None	None	None	None	9658943	9661036	-1	None	None
X	RPL36P18	ENSG00000235656	ENST00000419316	processed_pseudogene	KNOWN	None	36856	None	None	114432995	114433312	1	None	None
Y	TSPY25P	ENSG00000234110	ENST00000429463	unprocessed_pseudogene	KNOWN	None	38726	None	None	9461792	9463961	1	None	None
1	RNU7-183P	ENSG00000252407	ENST00000516598	snRNA	KNOWN	None	45717	None	None	185403376	185403437	1	None	None
3	None	ENSG00000244024	ENST00000481075	processed_pseudogene	KNOWN	None	None	None	None	145241325	145242202	1	None	None
2	None	ENSG00000267520	ENST00000589496	lincRNA	KNOWN	None	None	None	None	61153044	61155287	1	None	None
2	None	ENSG00000263530	ENST00000583251	miRNA	NOVEL	None	None	None	None	211036020	211036115	-1	None	None
9	None	ENSG00000234779	ENST00000450445	antisense	KNOWN	None	None	None	None	16726812	16727522	1	None	None
1	None	ENSG00000270920	ENST00000605276	processed_pseudogene	KNOWN	None	None	None	None	185404971	185405179	1	None	None
12	None	ENSG00000270344	ENST00000605233	antisense	KNOWN	None	None	None	None	89919431	89934079	1	None	None
2	SLC4A1AP	ENSG00000163798	ENST00000326019	protein_coding	KNOWN	CCDS33166	13813	2391	796	27886338	27917836	1	None	kanadaptin, HLC3
2	SLC4A1AP	ENSG00000163798	ENST00000427424	nonsense_mediated_decay	KNOWN	None	13813	474	157	27887334	27898559	1	None	kanadaptin, HLC3
2	SLC4A1AP	ENSG00000163798	ENST00000492196	retained_intron	KNOWN	None	13813	None	None	27914425	27917840	1	None	kanadaptin, HLC3
8	None	ENSG00000263842	ENST00000581071	miRNA	NOVEL	None	None	None	None	100011512	100011629	1	None	None
3	None	ENSG00000261159	ENST00000567253	lincRNA	KNOWN	None	None	None	None	128578559	128579369	-1	None	None
2	None	ENSG00000231294	ENST00000412065	antisense	KNOWN	None	None	None	None	211036242	211095107	1	None	None
19	PVR	ENSG00000073008	ENST00000425690	protein_coding	KNOWN	CCDS12640	9705	1254	417	45147098	45166850	1	PVS	CD155, HVED, Necl-5, NECL5, Tage4
19	PVR	ENSG00000073008	ENST00000344956	protein_coding	KNOWN	CCDS46106	9705	1095	364	45147098	45166850	1	PVS	CD155, HVED, Necl-5, NECL5, Tage4
19	PVR	ENSG00000073008	ENST00000403059	protein_coding	KNOWN	CCDS46105	9705	1119	372	45147210	45166850	1	PVS	CD155, HVED, Necl-5, NECL5, Tage4
19	PVR	ENSG00000073008	ENST00000187830	nonsense_mediated_decay	KNOWN	None	9705	135	44	45147214	45166850	1	PVS	CD155, HVED, Necl-5, NECL5, Tage4
19	PVR	ENSG00000073008	ENST00000406449	protein_coding	KNOWN	CCDS46107	9705	1179	392	45147397	45162362	1	PVS	CD155, HVED, Necl-5, NECL5, Tage4
19	PVR	ENSG00000073008	ENST00000587785	protein_coding	PUTATIVE	None	9705	211	69	45153313	45165147	1	PVS	CD155, HVED, Necl-5, NECL5, Tage4
1	RNU1-135P	ENSG00000252842	ENST00000517033	snRNA	KNOWN	None	48477	None	None	147857985	147858119	-1	None	None
8	None	ENSG00000253180	ENST00000517978	processed_pseudogene	KNOWN	None	None	None	None	100015635	100016070	-1	None	None
11	RNU7-159P	ENSG00000238562	ENST00000459284	snRNA	KNOWN	None	45693	None	None	102774622	102774683	-1	None	None
14	RNA5SP383	ENSG00000199804	ENST00000362934	rRNA	KNOWN	None	43283	None	None	24627812	24627931	1	RN5S383	None
1	None	ENSG00000228309	ENST00000439633	lincRNA	KNOWN	None	None	None	None	185527511	185534763	1	None	None
1	RNVU1-11	ENSG00000202064	ENST00000365194	snRNA	KNOWN	None	10134	None	None	147860642	147860803	-1	RNU1P2, RNU1-12P	vU1.11, U1P2A
17	None	ENSG00000262503	ENST00000572223	processed_pseudogene	KNOWN	None	None	None	None	6830791	6831510	-1	None	None
2	None	ENSG00000199203	ENST00000362333	misc_RNA	NOVEL	None	None	None	None	211130687	211130798	1	None	None
12	None	ENSG00000241825	ENST00000481005	processed_pseudogene	KNOWN	None	None	None	None	69078375	69080088	1	None	None
2	None	ENSG00000241481	ENST00000480208	lincRNA	KNOWN	None	None	None	None	98086678	98100408	1	None	None
2	None	ENSG00000241481	ENST00000598371	lincRNA	KNOWN	None	None	None	None	98086771	98088902	1	None	None
2	None	ENSG00000241481	ENST00000600136	lincRNA	KNOWN	None	None	None	None	98086771	98089158	1	None	None
1	RNVU1-12	ENSG00000201183	ENST00000364313	snRNA	KNOWN	None	48317	None	None	147874868	147875028	1	None	vU1.12, RNU1-151
1	None	ENSG00000243781	ENST00000450208	transcribed_processed_pseudogene	KNOWN	None	None	None	None	238090131	238090905	1	None	None
5	GDNF	ENSG00000168621	ENST00000326524	protein_coding	KNOWN	CCDS3922	4232	636	211	37812779	37839782	-1	None	ATF1, ATF2, HFB1-GDNF
5	GDNF	ENSG00000168621	ENST00000381826	protein_coding	PUTATIVE	CCDS54846	4232	609	202	37815753	37835929	-1	None	ATF1, ATF2, HFB1-GDNF
5	GDNF	ENSG00000168621	ENST00000427982	protein_coding	PUTATIVE	CCDS54845	4232	687	228	37815753	37835929	-1	None	ATF1, ATF2, HFB1-GDNF
5	GDNF	ENSG00000168621	ENST00000515058	protein_coding	KNOWN	CCDS3923	4232	558	185	37815753	37839788	-1	None	ATF1, ATF2, HFB1-GDNF
5	GDNF	ENSG00000168621	ENST00000510177	protein_coding	KNOWN	None	4232	183	60	37816128	37835010	-1	None	ATF1, ATF2, HFB1-GDNF
5	GDNF	ENSG00000168621	ENST00000502572	protein_coding	KNOWN	None	4232	183	60	37816128	37835593	-1	None	ATF1, ATF2, HFB1-GDNF
5	GDNF	ENSG00000168621	ENST00000344622	protein_coding	KNOWN	CCDS3923	4232	558	185	37812779	37835593	-1	None	ATF1, ATF2, HFB1-GDNF
11	None	ENSG00000254547	ENST00000533973	unprocessed_pseudogene	KNOWN	None	None	None	None	55635045	55642013	-1	None	None
14	None	ENSG00000260669	ENST00000565988	retained_intron	KNOWN	None	None	None	None	24678852	24685180	-1	None	None
14	None	ENSG00000260669	ENST00000528804	retained_intron	KNOWN	None	None	None	None	24681945	24685193	-1	None	None
1	None	ENSG00000227416	ENST00000417484	processed_pseudogene	KNOWN	None	None	None	None	38248129	38248557	-1	None	None
10	ANXA8L2	ENSG00000186807	ENST00000340243	protein_coding	NOVEL	None	23335	831	276	47746936	47763041	1	None	bA145E20.2
10	ANXA8L2	ENSG00000186807	ENST00000374277	protein_coding	KNOWN	CCDS7216	23335	984	327	47746990	47763035	1	None	bA145E20.2
10	ANXA8L2	ENSG00000186807	ENST00000538825	protein_coding	KNOWN	None	23335	798	265	47747036	47762492	1	None	bA145E20.2
10	ANXA8L2	ENSG00000186807	ENST00000449464	protein_coding	KNOWN	None	23335	426	141	47747029	47762493	1	None	bA145E20.2
17	NLK	ENSG00000087095	ENST00000583517	processed_transcript	KNOWN	None	29858	None	None	26368763	26375350	1	None	None
17	NLK	ENSG00000087095	ENST00000407008	protein_coding	KNOWN	CCDS11224	29858	1584	527	26369182	26523407	1	None	None
17	NLK	ENSG00000087095	ENST00000582037	protein_coding	PUTATIVE	None	29858	546	181	26369865	26375950	1	None	None
17	NLK	ENSG00000087095	ENST00000496808	nonsense_mediated_decay	KNOWN	None	29858	1428	475	26370056	26523407	1	None	None
17	NLK	ENSG00000087095	ENST00000584188	processed_transcript	KNOWN	None	29858	None	None	26498259	26518198	1	None	None
17	NLK	ENSG00000087095	ENST00000584878	retained_intron	KNOWN	None	29858	None	None	26517967	26522011	1	None	None
17	None	ENSG00000263316	ENST00000573755	antisense	KNOWN	None	None	None	None	6857417	6882279	-1	None	None
2	None	ENSG00000234281	ENST00000433296	antisense	KNOWN	None	None	None	None	211189483	211325606	1	None	None
2	None	ENSG00000234281	ENST00000420418	antisense	KNOWN	None	None	None	None	211189490	211333418	1	None	None
2	None	ENSG00000234281	ENST00000416344	antisense	KNOWN	None	None	None	None	211325199	211333970	1	None	None
3	LPP	ENSG00000145012	ENST00000448637	protein_coding	PUTATIVE	None	6679	1287	428	187871072	188430630	1	None	None
3	LPP	ENSG00000145012	ENST00000416784	protein_coding	KNOWN	None	6679	453	150	187871660	188326972	1	None	None
3	LPP	ENSG00000145012	ENST00000430340	protein_coding	KNOWN	None	6679	158	51	187871663	188124066	1	None	None
3	LPP	ENSG00000145012	ENST00000414139	protein_coding	KNOWN	None	6679	279	92	187871719	188202465	1	None	None
3	LPP	ENSG00000145012	ENST00000454789	protein_coding	KNOWN	None	6679	197	64	187871730	188202383	1	None	None
3	LPP	ENSG00000145012	ENST00000426274	protein_coding	KNOWN	None	6679	199	65	187925986	188202385	1	None	None
3	LPP	ENSG00000145012	ENST00000420410	protein_coding	KNOWN	None	6679	335	110	187930429	188242481	1	None	None
3	LPP	ENSG00000145012	ENST00000443217	protein_coding	KNOWN	None	6679	140	45	187930492	188124048	1	None	None
3	LPP	ENSG00000145012	ENST00000312675	protein_coding	KNOWN	CCDS3291	6679	1839	612	187930721	188608460	1	None	None
3	LPP	ENSG00000145012	ENST00000457242	protein_coding	KNOWN	None	6679	171	56	187957652	188124079	1	None	None
3	LPP	ENSG00000145012	ENST00000494233	processed_transcript	KNOWN	None	6679	None	None	188059451	188327067	1	None	None
3	LPP	ENSG00000145012	ENST00000474472	processed_transcript	PUTATIVE	None	6679	None	None	188190361	188242575	1	None	None
3	LPP	ENSG00000145012	ENST00000484468	processed_transcript	PUTATIVE	None	6679	None	None	188202378	188271889	1	None	None
3	LPP	ENSG00000145012	ENST00000462758	processed_transcript	PUTATIVE	None	6679	None	None	188285938	188327339	1	None	None
3	LPP	ENSG00000145012	ENST00000471917	processed_transcript	KNOWN	None	6679	None	None	188286819	188477989	1	None	None
3	LPP	ENSG00000145012	ENST00000487347	processed_transcript	PUTATIVE	None	6679	None	None	188302135	188327394	1	None	None
3	LPP	ENSG00000145012	ENST00000415906	protein_coding	PUTATIVE	None	6679	759	252	188327009	188464412	1	None	None
3	LPP	ENSG00000145012	ENST00000483938	processed_transcript	PUTATIVE	None	6679	None	None	188443056	188464406	1	None	None
3	LPP	ENSG00000145012	ENST00000494044	processed_transcript	PUTATIVE	None	6679	None	None	188461435	188464402	1	None	None
3	LPP	ENSG00000145012	ENST00000459897	processed_transcript	KNOWN	None	6679	None	None	188476527	188584097	1	None	None
3	LPP	ENSG00000145012	ENST00000543006	protein_coding	KNOWN	CCDS3291	6679	1839	612	187943193	188608460	1	None	None
2	NONOP2	ENSG00000237522	ENST00000414613	processed_pseudogene	KNOWN	None	42032	None	None	61163954	61165184	-1	None	None
1	None	ENSG00000231551	ENST00000426101	lincRNA	KNOWN	None	None	None	None	147887350	147901125	1	None	None
1	None	ENSG00000231551	ENST00000445243	lincRNA	KNOWN	None	None	None	None	147887350	147901508	1	None	None
15	None	ENSG00000261403	ENST00000569892	lincRNA	KNOWN	None	None	None	None	78246417	78255996	-1	None	None
5	None	ENSG00000254350	ENST00000517595	lincRNA	KNOWN	None	None	None	None	157851593	157879766	1	None	None
1	None	ENSG00000232279	ENST00000436955	lincRNA	KNOWN	None	None	None	None	185576316	185597659	-1	None	None
11	None	ENSG00000246523	ENST00000499504	lincRNA	KNOWN	None	None	None	None	86666661	86712001	1	None	None
11	None	ENSG00000246523	ENST00000531827	lincRNA	KNOWN	None	None	None	None	86667133	86711532	1	None	None
1	None	ENSG00000233728	ENST00000433474	antisense	KNOWN	None	None	None	None	38265392	38266551	-1	None	None
1	OR2G3	ENSG00000177476	ENST00000320002	protein_coding	KNOWN	CCDS31093	15008	930	309	247768856	247769838	1	None	None
7	COX19	ENSG00000240230	ENST00000457254	nonsense_mediated_decay	KNOWN	None	28074	369	122	938415	1015185	-1	None	MGC104475
7	COX19	ENSG00000240230	ENST00000344111	protein_coding	KNOWN	CCDS34582	28074	273	90	1005711	1015235	-1	None	MGC104475
7	COX19	ENSG00000240230	ENST00000466146	retained_intron	KNOWN	None	28074	None	None	1012337	1015185	-1	None	MGC104475
7	COX19	ENSG00000240230	ENST00000466853	retained_intron	KNOWN	None	28074	None	None	1012578	1014752	-1	None	MGC104475
8	None	ENSG00000253562	ENST00000520844	antisense	KNOWN	None	None	None	None	100103966	100106288	-1	None	None
Y	TSPY16P	ENSG00000226223	ENST00000449843	unprocessed_pseudogene	KNOWN	None	37712	None	None	9477858	9478325	-1	None	None
1	None	ENSG00000232154	ENST00000433123	processed_pseudogene	KNOWN	None	None	None	None	238111317	238112443	-1	None	None
17	None	ENSG00000267047	ENST00000572547	antisense	KNOWN	None	None	None	None	6888813	6922733	-1	None	None
5	None	ENSG00000272085	ENST00000607514	lincRNA	KNOWN	None	None	None	None	157891473	157891686	1	None	None
11	None	ENSG00000239861	ENST00000463339	processed_pseudogene	KNOWN	None	None	None	None	102915966	102916441	1	None	None
1	None	ENSG00000235673	ENST00000447422	processed_pseudogene	KNOWN	None	None	None	None	38306658	38307348	1	None	None
11	RNU6-1157P	ENSG00000207185	ENST00000384456	snRNA	KNOWN	None	48120	None	None	118464703	118464808	1	None	None
1	None	ENSG00000207108	ENST00000384380	misc_RNA	NOVEL	None	None	None	None	185599560	185599660	-1	None	None
HSCHR6_MHC_APD	LTB	ENSG00000231314	ENST00000457552	protein_coding	KNOWN	None	6711	735	244	31559653	31561523	-1	TNFC	p33, TNFSF3
HSCHR6_MHC_APD	LTB	ENSG00000231314	ENST00000474599	processed_transcript	KNOWN	None	6711	None	None	31559653	31561525	-1	TNFC	p33, TNFSF3
HSCHR6_MHC_APD	LTB	ENSG00000231314	ENST00000495669	processed_transcript	KNOWN	None	6711	None	None	31559653	31561620	-1	TNFC	p33, TNFSF3
12	None	ENSG00000266633	ENST00000580721	miRNA	NOVEL	None	None	None	None	9699564	9699633	1	None	None
11	SLC35C1	ENSG00000181830	ENST00000442528	protein_coding	KNOWN	CCDS44575	20197	1056	351	45825623	45833109	1	None	FUCT1, FLJ11320
11	SLC35C1	ENSG00000181830	ENST00000526817	protein_coding	KNOWN	None	20197	216	71	45825637	45827607	1	None	FUCT1, FLJ11320
11	SLC35C1	ENSG00000181830	ENST00000314134	protein_coding	KNOWN	CCDS7914	20197	1095	364	45825957	45834566	1	None	FUCT1, FLJ11320
11	SLC35C1	ENSG00000181830	ENST00000530471	protein_coding	KNOWN	None	20197	496	164	45826700	45827887	1	None	FUCT1, FLJ11320
11	SLC35C1	ENSG00000181830	ENST00000456334	protein_coding	KNOWN	CCDS44575	20197	1056	351	45825623	45834561	1	None	FUCT1, FLJ11320
1	None	ENSG00000201596	ENST00000364726	misc_RNA	NOVEL	None	None	None	None	185603205	185603314	-1	None	None
12	OR6C71P	ENSG00000203408	ENST00000432580	unitary_pseudogene	KNOWN	None	31300	None	None	55770608	55771520	-1	None	None
12	OR6C71P	ENSG00000203408	ENST00000366229	pseudogene	KNOWN	None	31300	None	None	55770582	55771520	-1	None	None
2	None	ENSG00000232713	ENST00000451515	processed_pseudogene	KNOWN	None	None	None	None	61165339	61165739	-1	None	None
12	RNU6-700P	ENSG00000212345	ENST00000391043	snRNA	KNOWN	None	47663	None	None	9776718	9776824	-1	None	None
17	None	ENSG00000262089	ENST00000573222	lincRNA	KNOWN	None	None	None	None	6897961	6898508	-1	None	None
1	None	ENSG00000230955	ENST00000419993	antisense	KNOWN	None	None	None	None	38326369	38327252	1	None	None
3	GM2AP1	ENSG00000241695	ENST00000491450	processed_pseudogene	KNOWN	None	4368	None	None	145402359	145402879	1	GM2AP	None
16	None	ENSG00000261482	ENST00000565783	antisense	KNOWN	None	None	None	None	27078249	27079179	-1	None	None
1	None	ENSG00000261729	ENST00000569292	lincRNA	KNOWN	None	None	None	None	185624134	185626300	1	None	None
11	OR5W1P	ENSG00000227806	ENST00000423705	unprocessed_pseudogene	KNOWN	None	15298	None	None	55670817	55671754	-1	None	None
15	None	ENSG00000261143	ENST00000566116	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	78268384	78285399	1	None	None
15	None	ENSG00000261143	ENST00000568041	processed_transcript	KNOWN	None	None	None	None	78280334	78280932	1	None	None
1	None	ENSG00000252448	ENST00000516639	snoRNA	NOVEL	None	None	None	None	38349909	38349989	1	None	None
1	MTND6P15	ENSG00000225723	ENST00000441157	processed_pseudogene	KNOWN	None	39478	None	None	238112514	238113034	1	None	None
1	None	ENSG00000224691	ENST00000428391	antisense	KNOWN	None	None	None	None	186145946	186146434	-1	None	None
17	MIR497HG	ENSG00000267532	ENST00000443997	antisense	KNOWN	None	39523	None	None	6919137	6922949	-1	None	None
17	MIR497HG	ENSG00000267532	ENST00000572453	antisense	KNOWN	None	39523	None	None	6919141	6922978	-1	None	None
17	MIR497HG	ENSG00000267532	ENST00000385194	miRNA	KNOWN	None	39523	None	None	6920934	6921020	-1	None	None
17	MIR497HG	ENSG00000267532	ENST00000385056	miRNA	KNOWN	None	39523	None	None	6921230	6921341	-1	None	None
3	None	ENSG00000241168	ENST00000490357	lincRNA	KNOWN	None	None	None	None	162744184	162949937	1	None	None
11	None	ENSG00000260966	ENST00000561652	sense_overlapping	KNOWN	None	None	None	None	102921416	102926528	-1	None	None
1	RNU6-584P	ENSG00000222282	ENST00000410350	snRNA	KNOWN	None	47547	None	None	38350695	38350789	1	None	None
5	None	ENSG00000254135	ENST00000522704	lincRNA	KNOWN	None	None	None	None	157912198	157930400	1	None	None
5	None	ENSG00000254135	ENST00000519609	lincRNA	KNOWN	None	None	None	None	157912308	157961446	1	None	None
5	TMEM232	ENSG00000186952	ENST00000507188	processed_transcript	KNOWN	None	37270	None	None	109624934	109765802	-1	None	FLJ43080
5	TMEM232	ENSG00000186952	ENST00000508571	retained_intron	KNOWN	None	37270	None	None	109665428	109961298	-1	None	FLJ43080
5	TMEM232	ENSG00000186952	ENST00000515518	processed_transcript	KNOWN	None	37270	None	None	109753379	110062372	-1	None	FLJ43080
5	TMEM232	ENSG00000186952	ENST00000455884	protein_coding	NOVEL	CCDS47253	37270	1974	657	109755805	110062366	-1	None	FLJ43080
5	TMEM232	ENSG00000186952	ENST00000512003	nonsense_mediated_decay	KNOWN	None	37270	180	59	109755812	110062372	-1	None	FLJ43080
5	TMEM232	ENSG00000186952	ENST00000515363	processed_transcript	KNOWN	None	37270	None	None	109904196	109964642	-1	None	FLJ43080
5	TMEM232	ENSG00000186952	ENST00000511883	protein_coding	PUTATIVE	None	37270	743	246	109960993	110062359	-1	None	FLJ43080
5	TMEM232	ENSG00000186952	ENST00000515278	protein_coding	NOVEL	None	37270	492	163	109973908	110074657	-1	None	FLJ43080
5	TMEM232	ENSG00000186952	ENST00000512886	protein_coding	NOVEL	None	37270	358	118	109976577	110073792	-1	None	FLJ43080
5	TMEM232	ENSG00000186952	ENST00000502857	processed_transcript	KNOWN	None	37270	None	None	110002347	110062406	-1	None	FLJ43080
5	TMEM232	ENSG00000186952	ENST00000503527	processed_transcript	KNOWN	None	37270	None	None	110002469	110074619	-1	None	FLJ43080
5	TMEM232	ENSG00000186952	ENST00000512577	processed_transcript	PUTATIVE	None	37270	None	None	110002929	110062372	-1	None	FLJ43080
5	TMEM232	ENSG00000186952	ENST00000506890	processed_transcript	PUTATIVE	None	37270	None	None	110056251	110062372	-1	None	FLJ43080
5	TMEM232	ENSG00000186952	ENST00000429839	protein_coding	KNOWN	None	37270	1521	506	109755197	110062450	-1	None	FLJ43080
1	RNU6-510P	ENSG00000212541	ENST00000391239	snRNA	KNOWN	None	47473	None	None	38457134	38457241	1	None	None
X	None	ENSG00000237332	ENST00000450104	processed_pseudogene	KNOWN	None	None	None	None	114658576	114660070	-1	None	None
2	RNA5SP95	ENSG00000222251	ENST00000410319	rRNA	KNOWN	None	42893	None	None	61225887	61226023	1	RN5S95	None
3	RPL21P39	ENSG00000239797	ENST00000463605	processed_pseudogene	KNOWN	None	36127	None	None	145542044	145542526	-1	None	None
1	RNU6-1240P	ENSG00000202025	ENST00000365155	snRNA	KNOWN	None	48203	None	None	186280957	186281060	-1	None	None
21	URB1	ENSG00000142207	ENST00000382751	protein_coding	KNOWN	CCDS46645	17344	6816	2271	33683329	33765335	-1	C21orf108	KIAA0539, NPA1
21	URB1	ENSG00000142207	ENST00000480196	retained_intron	KNOWN	None	17344	None	None	33705422	33709404	-1	C21orf108	KIAA0539, NPA1
21	URB1	ENSG00000142207	ENST00000492603	processed_transcript	PUTATIVE	None	17344	None	None	33706518	33707939	-1	C21orf108	KIAA0539, NPA1
1	None	ENSG00000229739	ENST00000429768	antisense	KNOWN	None	None	None	None	186420213	186420881	1	None	None
6	E2F4P1	ENSG00000231276	ENST00000422443	processed_pseudogene	KNOWN	None	38684	None	None	39521587	39522719	1	None	None
2	None	ENSG00000271074	ENST00000605674	processed_pseudogene	KNOWN	None	None	None	None	211969658	211970456	1	None	None
1	None	ENSG00000225871	ENST00000454544	processed_pseudogene	KNOWN	None	None	None	None	147907215	147909036	1	None	None
1	None	ENSG00000224592	ENST00000432922	lincRNA	KNOWN	None	None	None	None	38512986	38571406	1	None	None
1	None	ENSG00000224592	ENST00000428151	lincRNA	KNOWN	None	None	None	None	38513097	38584697	1	None	None
1	MTND5P18	ENSG00000227860	ENST00000445624	processed_pseudogene	KNOWN	None	42302	None	None	238113036	238114836	-1	None	None
3	None	ENSG00000231305	ENST00000498297	antisense	KNOWN	None	None	None	None	128580156	128590383	-1	None	None
3	None	ENSG00000231305	ENST00000480931	antisense	KNOWN	None	None	None	None	128580389	128584447	-1	None	None
2	None	ENSG00000231017	ENST00000413068	processed_pseudogene	KNOWN	None	None	None	None	212163666	212163914	-1	None	None
12	KRT8P39	ENSG00000233560	ENST00000396270	processed_pseudogene	KNOWN	None	39873	None	None	69099414	69100846	1	None	None
2	None	ENSG00000212978	ENST00000420918	lincRNA	KNOWN	None	None	None	None	61368732	61372085	-1	None	None
2	None	ENSG00000212978	ENST00000417691	retained_intron	KNOWN	None	None	None	None	61370690	61372087	-1	None	None
2	None	ENSG00000212978	ENST00000422740	lincRNA	KNOWN	None	None	None	None	61370703	61372026	-1	None	None
2	None	ENSG00000212978	ENST00000443946	lincRNA	KNOWN	None	None	None	None	61371541	61372104	-1	None	None
2	None	ENSG00000212978	ENST00000542553	processed_transcript	KNOWN	None	None	None	None	61368732	61369778	-1	None	None
1	None	ENSG00000228238	ENST00000456921	processed_pseudogene	KNOWN	None	None	None	None	186547411	186548431	1	None	None
15	None	ENSG00000260780	ENST00000568541	lincRNA	KNOWN	None	None	None	None	24451931	24471001	1	None	None
22	DNAL4	ENSG00000100246	ENST00000216068	protein_coding	KNOWN	CCDS13979	2955	318	105	39174513	39190178	-1	None	dJ327J16, PIG27
22	DNAL4	ENSG00000100246	ENST00000486019	processed_transcript	KNOWN	None	2955	None	None	39174858	39190153	-1	None	dJ327J16, PIG27
22	DNAL4	ENSG00000100246	ENST00000406199	protein_coding	PUTATIVE	None	2955	207	68	39176723	39190203	-1	None	dJ327J16, PIG27
22	DNAL4	ENSG00000100246	ENST00000475512	processed_transcript	KNOWN	None	2955	None	None	39181315	39190137	-1	None	dJ327J16, PIG27
3	NLGN1	ENSG00000169760	ENST00000423427	protein_coding	KNOWN	None	14291	39	12	173114074	173322427	1	None	KIAA1070
3	NLGN1	ENSG00000169760	ENST00000413821	protein_coding	KNOWN	None	14291	31	9	173115570	173322419	1	None	KIAA1070
3	NLGN1	ENSG00000169760	ENST00000482120	processed_transcript	PUTATIVE	None	14291	None	None	173115572	173117661	1	None	KIAA1070
3	NLGN1	ENSG00000169760	ENST00000457714	protein_coding	KNOWN	CCDS3222	14291	2472	823	173116238	174004434	1	None	KIAA1070
3	NLGN1	ENSG00000169760	ENST00000361589	protein_coding	KNOWN	CCDS3222	14291	2472	823	173302345	174000913	1	None	KIAA1070
3	NLGN1	ENSG00000169760	ENST00000415045	protein_coding	NOVEL	None	14291	1101	366	173302710	173996772	1	None	KIAA1070
3	NLGN1	ENSG00000169760	ENST00000466350	processed_transcript	PUTATIVE	None	14291	None	None	173854225	173997152	1	None	KIAA1070
3	NLGN1	ENSG00000169760	ENST00000469564	processed_transcript	PUTATIVE	None	14291	None	None	173854238	173996882	1	None	KIAA1070
3	NLGN1	ENSG00000169760	ENST00000490929	processed_transcript	PUTATIVE	None	14291	None	None	173854252	173993303	1	None	KIAA1070
3	NLGN1	ENSG00000169760	ENST00000469727	processed_transcript	KNOWN	None	14291	None	None	173854252	173996845	1	None	KIAA1070
3	NLGN1	ENSG00000169760	ENST00000545397	protein_coding	KNOWN	CCDS3222	14291	2472	823	173322389	174000913	1	None	KIAA1070
3	NLGN1	ENSG00000169760	ENST00000401917	protein_coding	KNOWN	None	14291	2592	863	173322389	173999093	1	None	KIAA1070
16	EEF1A1P38	ENSG00000261557	ENST00000567658	processed_pseudogene	KNOWN	None	37916	None	None	27144804	27146500	-1	None	None
10	PABPC1P12	ENSG00000225638	ENST00000428454	processed_pseudogene	KNOWN	None	37994	None	None	38929039	38931213	1	None	None
1	OR13G1	ENSG00000197437	ENST00000359688	protein_coding	KNOWN	CCDS31094	14999	924	307	247835320	247836365	-1	None	None
12	None	ENSG00000256594	ENST00000576948	processed_transcript	KNOWN	None	None	None	None	9787188	9809898	1	None	None
12	None	ENSG00000256594	ENST00000573622	processed_transcript	KNOWN	None	None	None	None	9795468	9809666	1	None	None
12	None	ENSG00000256594	ENST00000575094	processed_transcript	KNOWN	None	None	None	None	9800643	9811008	1	None	None
12	None	ENSG00000256594	ENST00000545363	processed_transcript	KNOWN	None	None	None	None	9800698	9809683	1	None	None
12	None	ENSG00000256594	ENST00000574035	processed_transcript	KNOWN	None	None	None	None	9800763	9809578	1	None	None
12	None	ENSG00000256594	ENST00000537668	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	9806279	9809639	1	None	None
X	None	ENSG00000271021	ENST00000603201	processed_pseudogene	KNOWN	None	None	None	None	114689494	114689955	-1	None	None
22	CHKB	ENSG00000100288	ENST00000406938	protein_coding	KNOWN	CCDS14099	1938	1188	395	51017378	51021428	-1	CHKL	CHETK
22	CHKB	ENSG00000100288	ENST00000492582	retained_intron	KNOWN	None	1938	None	None	51017388	51021283	-1	CHKL	CHETK
22	CHKB	ENSG00000100288	ENST00000464225	processed_transcript	KNOWN	None	1938	None	None	51017392	51018682	-1	CHKL	CHETK
22	CHKB	ENSG00000100288	ENST00000471515	processed_transcript	KNOWN	None	1938	None	None	51017392	51019032	-1	CHKL	CHETK
22	CHKB	ENSG00000100288	ENST00000484266	retained_intron	KNOWN	None	1938	None	None	51017392	51021253	-1	CHKL	CHETK
22	CHKB	ENSG00000100288	ENST00000481673	retained_intron	KNOWN	None	1938	None	None	51017392	51021274	-1	CHKL	CHETK
22	CHKB	ENSG00000100288	ENST00000479003	retained_intron	KNOWN	None	1938	None	None	51017395	51021249	-1	CHKL	CHETK
22	CHKB	ENSG00000100288	ENST00000468532	retained_intron	KNOWN	None	1938	None	None	51017879	51020887	-1	CHKL	CHETK
22	CHKB	ENSG00000100288	ENST00000489453	retained_intron	KNOWN	None	1938	None	None	51018233	51019209	-1	CHKL	CHETK
22	CHKB	ENSG00000100288	ENST00000476289	retained_intron	KNOWN	None	1938	None	None	51018786	51021283	-1	CHKL	CHETK
22	CHKB	ENSG00000100288	ENST00000463053	processed_transcript	KNOWN	None	1938	None	None	51018786	51039884	-1	CHKL	CHETK
22	CHKB	ENSG00000100288	ENST00000465842	retained_intron	KNOWN	None	1938	None	None	51020036	51020849	-1	CHKL	CHETK
1	None	ENSG00000223589	ENST00000424719	processed_pseudogene	KNOWN	None	None	None	None	38546244	38546583	-1	None	None
1	YWHAQP9	ENSG00000230019	ENST00000445891	processed_pseudogene	KNOWN	None	37688	None	None	238271036	238271867	-1	None	None
11	None	ENSG00000221031	ENST00000408104	misc_RNA	NOVEL	None	None	None	None	5245678	5245869	-1	None	None
Y	None	ENSG00000232617	ENST00000426129	unprocessed_pseudogene	KNOWN	None	None	None	None	9502838	9506619	1	None	None
2	RNA5SP119	ENSG00000199585	ENST00000362715	rRNA	KNOWN	None	42917	None	None	212400378	212400494	1	RN5S119	None
11	None	ENSG00000254914	ENST00000534066	processed_pseudogene	KNOWN	None	None	None	None	42961325	42961548	1	None	None
1	None	ENSG00000270656	ENST00000605529	processed_pseudogene	KNOWN	None	None	None	None	147983307	147983593	-1	None	None
1	None	ENSG00000233196	ENST00000450032	processed_pseudogene	KNOWN	None	None	None	None	186549647	186550323	-1	None	None
1	None	ENSG00000232989	ENST00000456364	processed_pseudogene	KNOWN	None	None	None	None	238431794	238431895	-1	None	None
17	KRT14	ENSG00000186847	ENST00000167586	protein_coding	KNOWN	CCDS11400	6416	1419	472	39738531	39743173	-1	EBS3, EBS4	None
17	KRT14	ENSG00000186847	ENST00000441550	retained_intron	KNOWN	None	6416	None	None	39738561	39739707	-1	EBS3, EBS4	None
17	KRT14	ENSG00000186847	ENST00000476662	retained_intron	KNOWN	None	6416	None	None	39739501	39740723	-1	EBS3, EBS4	None
11	None	ENSG00000254895	ENST00000526563	processed_pseudogene	KNOWN	None	None	None	None	103272741	103273326	-1	None	None
14	EXD2	ENSG00000081177	ENST00000409018	protein_coding	PUTATIVE	CCDS53902	20217	1866	621	69658228	69709075	1	C14orf114, EXDL2	FLJ10738
14	EXD2	ENSG00000081177	ENST00000492815	processed_transcript	KNOWN	None	20217	None	None	69658246	69709074	1	C14orf114, EXDL2	FLJ10738
14	EXD2	ENSG00000081177	ENST00000409014	protein_coding	KNOWN	CCDS9793	20217	1491	496	69658248	69709073	1	C14orf114, EXDL2	FLJ10738
14	EXD2	ENSG00000081177	ENST00000487724	processed_transcript	KNOWN	None	20217	None	None	69658250	69676288	1	C14orf114, EXDL2	FLJ10738
14	EXD2	ENSG00000081177	ENST00000409675	protein_coding	KNOWN	CCDS9793	20217	1491	496	69658272	69709075	1	C14orf114, EXDL2	FLJ10738
14	EXD2	ENSG00000081177	ENST00000409949	protein_coding	KNOWN	CCDS9793	20217	1491	496	69658483	69708234	1	C14orf114, EXDL2	FLJ10738
14	EXD2	ENSG00000081177	ENST00000409242	protein_coding	KNOWN	CCDS9793	20217	1491	496	69658523	69708166	1	C14orf114, EXDL2	FLJ10738
14	EXD2	ENSG00000081177	ENST00000461908	processed_transcript	KNOWN	None	20217	None	None	69658530	69676155	1	C14orf114, EXDL2	FLJ10738
14	EXD2	ENSG00000081177	ENST00000413191	protein_coding	KNOWN	None	20217	342	113	69658552	69697315	1	C14orf114, EXDL2	FLJ10738
14	EXD2	ENSG00000081177	ENST00000489133	processed_transcript	KNOWN	None	20217	None	None	69690847	69697302	1	C14orf114, EXDL2	FLJ10738
14	EXD2	ENSG00000081177	ENST00000494629	processed_transcript	KNOWN	None	20217	None	None	69694667	69701462	1	C14orf114, EXDL2	FLJ10738
14	EXD2	ENSG00000081177	ENST00000465286	retained_intron	KNOWN	None	20217	None	None	69702329	69703260	1	C14orf114, EXDL2	FLJ10738
14	EXD2	ENSG00000081177	ENST00000312994	protein_coding	KNOWN	CCDS53902	20217	1866	621	69658523	69708166	1	C14orf114, EXDL2	FLJ10738
14	EXD2	ENSG00000081177	ENST00000449989	protein_coding	KNOWN	CCDS9793	20217	1491	496	69676478	69709072	1	C14orf114, EXDL2	FLJ10738
15	None	ENSG00000261621	ENST00000561964	lincRNA	KNOWN	None	None	None	None	24480225	24520162	1	None	None
15	None	ENSG00000261621	ENST00000566676	lincRNA	KNOWN	None	None	None	None	24506426	24521976	1	None	None
8	None	ENSG00000254313	ENST00000523552	processed_pseudogene	KNOWN	None	None	None	None	134798336	134798511	-1	None	None
2	MTND2P23	ENSG00000232631	ENST00000422990	processed_pseudogene	KNOWN	None	42124	None	None	212641931	212642581	1	None	None
11	HBBP1	ENSG00000229988	ENST00000454892	processed_transcript	KNOWN	None	4828	None	None	5263184	5264496	-1	None	None
11	HBBP1	ENSG00000229988	ENST00000433329	transcribed_unprocessed_pseudogene	KNOWN	None	4828	None	None	5263350	5264767	-1	None	None
1	MIR3659	ENSG00000265596	ENST00000582606	miRNA	KNOWN	None	38882	None	None	38554903	38555001	1	None	hsa-mir-3659
1	RNVU1-13	ENSG00000212456	ENST00000391154	snRNA	KNOWN	None	48318	None	None	147994146	147994313	1	None	vU1.13, RNU1-147
11	HNRNPCP8	ENSG00000254748	ENST00000528764	unprocessed_pseudogene	KNOWN	None	48819	None	None	86735625	86736819	1	None	None
1	None	ENSG00000236030	ENST00000458683	lincRNA	KNOWN	None	None	None	None	187061974	187329455	1	None	None
1	None	ENSG00000234464	ENST00000422844	lincRNA	KNOWN	None	None	None	None	238439337	238450316	1	None	None
15	AGBL1-AS1	ENSG00000260125	ENST00000564487	antisense	KNOWN	None	48617	None	None	86838880	86848212	-1	None	None
15	AGBL1-AS1	ENSG00000260125	ENST00000566878	antisense	KNOWN	None	48617	None	None	86840099	86860194	-1	None	None
15	AGBL1-AS1	ENSG00000260125	ENST00000563472	antisense	KNOWN	None	48617	None	None	86848282	86860404	-1	None	None
1	None	ENSG00000223491	ENST00000416378	processed_pseudogene	KNOWN	None	None	None	None	148000213	148000494	1	None	None
1	None	ENSG00000237290	ENST00000431311	lincRNA	KNOWN	None	None	None	None	38674706	38680439	-1	None	None
11	None	ENSG00000255176	ENST00000530198	antisense	KNOWN	None	None	None	None	118507338	118508815	1	None	None
HG7_PATCH	TRBV28	ENSG00000259851	ENST00000567778	TR_V_gene	KNOWN	None	12209	344	113	142461162	142461662	1	None	TCRBV28S1, TCRBV3S1
1	RNU6-725P	ENSG00000252371	ENST00000516562	snRNA	KNOWN	None	47688	None	None	238488987	238489088	-1	None	None
3	None	ENSG00000234073	ENST00000441346	processed_pseudogene	KNOWN	None	None	None	None	36921675	36922220	-1	None	None
1	None	ENSG00000223612	ENST00000433527	processed_pseudogene	KNOWN	None	None	None	None	148193338	148193856	1	None	None
1	None	ENSG00000223612	ENST00000545938	processed_pseudogene	KNOWN	None	None	None	None	148193172	148193875	1	None	None
1	None	ENSG00000215808	ENST00000400946	lincRNA	KNOWN	None	None	None	None	238643684	238649323	-1	None	None
X	None	ENSG00000271826	ENST00000607680	antisense	KNOWN	None	None	None	None	114752490	114797058	-1	None	None
X	None	ENSG00000271826	ENST00000606397	antisense	KNOWN	None	None	None	None	114754818	114797034	-1	None	None
12	None	ENSG00000258121	ENST00000551847	antisense	KNOWN	None	None	None	None	48877070	48894744	-1	None	None
15	HOMER2	ENSG00000103942	ENST00000558090	protein_coding	KNOWN	None	17513	13	3	83509838	83518479	-1	None	CPD, Cupidin, Vesl-2, HOMER-2B, HOMER-2, HOMER-2A
15	HOMER2	ENSG00000103942	ENST00000450735	protein_coding	KNOWN	CCDS45336	17513	1032	343	83517735	83621473	-1	None	CPD, Cupidin, Vesl-2, HOMER-2B, HOMER-2, HOMER-2A
15	HOMER2	ENSG00000103942	ENST00000304231	protein_coding	KNOWN	CCDS45334	17513	1065	354	83517735	83621480	-1	None	CPD, Cupidin, Vesl-2, HOMER-2B, HOMER-2, HOMER-2A
15	HOMER2	ENSG00000103942	ENST00000558552	retained_intron	KNOWN	None	17513	None	None	83518431	83521535	-1	None	CPD, Cupidin, Vesl-2, HOMER-2B, HOMER-2, HOMER-2A
15	HOMER2	ENSG00000103942	ENST00000558817	protein_coding	NOVEL	None	17513	555	184	83519948	83533011	-1	None	CPD, Cupidin, Vesl-2, HOMER-2B, HOMER-2, HOMER-2A
15	HOMER2	ENSG00000103942	ENST00000561345	processed_transcript	KNOWN	None	17513	None	None	83523447	83567205	-1	None	CPD, Cupidin, Vesl-2, HOMER-2B, HOMER-2, HOMER-2A
15	HOMER2	ENSG00000103942	ENST00000560374	processed_transcript	KNOWN	None	17513	None	None	83532965	83654661	-1	None	CPD, Cupidin, Vesl-2, HOMER-2B, HOMER-2, HOMER-2A
15	HOMER2	ENSG00000103942	ENST00000500334	processed_transcript	KNOWN	None	17513	None	None	83626882	83654620	-1	None	CPD, Cupidin, Vesl-2, HOMER-2B, HOMER-2, HOMER-2A
15	HOMER2	ENSG00000103942	ENST00000426485	protein_coding	KNOWN	None	17513	900	299	83517738	83621473	-1	None	CPD, Cupidin, Vesl-2, HOMER-2B, HOMER-2, HOMER-2A
15	HOMER2	ENSG00000103942	ENST00000399166	protein_coding	KNOWN	None	17513	867	288	83517738	83621473	-1	None	CPD, Cupidin, Vesl-2, HOMER-2B, HOMER-2, HOMER-2A
3	None	ENSG00000244358	ENST00000495382	lincRNA	KNOWN	None	None	None	None	145657699	145679323	1	None	None
3	None	ENSG00000244358	ENST00000482351	lincRNA	KNOWN	None	None	None	None	145657755	145675618	1	None	None
1	RNU6-753P	ENSG00000200796	ENST00000363926	snRNA	KNOWN	None	47716	None	None	38862331	38862437	1	None	None
1	None	ENSG00000231599	ENST00000444887	lincRNA	KNOWN	None	None	None	None	187412738	187439371	1	None	None
1	None	ENSG00000231599	ENST00000427337	lincRNA	KNOWN	None	None	None	None	187412760	187446354	1	None	None
1	None	ENSG00000231877	ENST00000442726	lincRNA	KNOWN	None	None	None	None	238648745	238701605	1	None	None
2	None	ENSG00000236007	ENST00000451639	processed_pseudogene	KNOWN	None	None	None	None	212642998	212644488	1	None	None
HG7_PATCH	TRBV29-1	ENSG00000261450	ENST00000566487	TR_V_gene	KNOWN	None	12210	335	110	142480719	142481407	1	None	TRBV291, TCRBV29S1, TCRBV4S1A1T
12	RPS10P20	ENSG00000240443	ENST00000494130	transcribed_processed_pseudogene	KNOWN	None	35829	None	None	48881729	48882191	1	None	None
12	OR6C66P	ENSG00000233606	ENST00000414917	unitary_pseudogene	KNOWN	None	31296	None	None	55782229	55783158	1	None	None
1	None	ENSG00000238063	ENST00000452971	lincRNA	KNOWN	None	None	None	None	38940868	38942156	1	None	None
10	SLC9B1P3	ENSG00000233867	ENST00000452667	unprocessed_pseudogene	KNOWN	None	43582	None	None	38934102	38982199	-1	None	None
11	None	ENSG00000204971	ENST00000378140	antisense	KNOWN	None	None	None	None	71874366	71920285	-1	None	None
1	KRT18P32	ENSG00000215149	ENST00000424695	processed_pseudogene	KNOWN	None	33401	None	None	238654658	238655944	1	None	None
13	INTS6	ENSG00000102786	ENST00000476666	processed_transcript	KNOWN	None	14879	None	None	51928213	51943267	-1	DDX26	DICE1, HDB, Notchl2, DBI-1, DDX26A, INT6
13	INTS6	ENSG00000102786	ENST00000469430	nonsense_mediated_decay	KNOWN	None	14879	456	151	51939335	52026927	-1	DDX26	DICE1, HDB, Notchl2, DBI-1, DDX26A, INT6
13	INTS6	ENSG00000102786	ENST00000311234	protein_coding	KNOWN	CCDS9428	14879	2664	887	51939363	52027134	-1	DDX26	DICE1, HDB, Notchl2, DBI-1, DDX26A, INT6
13	INTS6	ENSG00000102786	ENST00000398119	protein_coding	KNOWN	CCDS41890	14879	2625	874	51939363	52027343	-1	DDX26	DICE1, HDB, Notchl2, DBI-1, DDX26A, INT6
13	INTS6	ENSG00000102786	ENST00000497989	protein_coding	PUTATIVE	None	14879	2130	709	51939364	51995510	-1	DDX26	DICE1, HDB, Notchl2, DBI-1, DDX26A, INT6
13	INTS6	ENSG00000102786	ENST00000483441	retained_intron	KNOWN	None	14879	None	None	51939639	51958827	-1	DDX26	DICE1, HDB, Notchl2, DBI-1, DDX26A, INT6
13	INTS6	ENSG00000102786	ENST00000490542	protein_coding	PUTATIVE	None	14879	1716	571	51939872	51959400	-1	DDX26	DICE1, HDB, Notchl2, DBI-1, DDX26A, INT6
13	INTS6	ENSG00000102786	ENST00000493153	retained_intron	KNOWN	None	14879	None	None	51953645	51957877	-1	DDX26	DICE1, HDB, Notchl2, DBI-1, DDX26A, INT6
13	INTS6	ENSG00000102786	ENST00000483746	protein_coding	PUTATIVE	None	14879	463	153	51953678	51958843	-1	DDX26	DICE1, HDB, Notchl2, DBI-1, DDX26A, INT6
13	INTS6	ENSG00000102786	ENST00000460868	processed_transcript	KNOWN	None	14879	None	None	51956165	51958831	-1	DDX26	DICE1, HDB, Notchl2, DBI-1, DDX26A, INT6
13	INTS6	ENSG00000102786	ENST00000486195	processed_transcript	KNOWN	None	14879	None	None	51961522	52026468	-1	DDX26	DICE1, HDB, Notchl2, DBI-1, DDX26A, INT6
13	INTS6	ENSG00000102786	ENST00000491189	protein_coding	PUTATIVE	None	14879	395	130	51969435	52025703	-1	DDX26	DICE1, HDB, Notchl2, DBI-1, DDX26A, INT6
13	INTS6	ENSG00000102786	ENST00000466784	processed_transcript	KNOWN	None	14879	None	None	51976665	51997226	-1	DDX26	DICE1, HDB, Notchl2, DBI-1, DDX26A, INT6
13	INTS6	ENSG00000102786	ENST00000491723	processed_transcript	KNOWN	None	14879	None	None	51995312	52026786	-1	DDX26	DICE1, HDB, Notchl2, DBI-1, DDX26A, INT6
13	INTS6	ENSG00000102786	ENST00000461515	processed_transcript	KNOWN	None	14879	None	None	51997139	52026387	-1	DDX26	DICE1, HDB, Notchl2, DBI-1, DDX26A, INT6
13	INTS6	ENSG00000102786	ENST00000491997	nonsense_mediated_decay	KNOWN	None	14879	237	78	51997166	52025703	-1	DDX26	DICE1, HDB, Notchl2, DBI-1, DDX26A, INT6
13	INTS6	ENSG00000102786	ENST00000488009	protein_coding	PUTATIVE	None	14879	269	88	52004371	52025710	-1	DDX26	DICE1, HDB, Notchl2, DBI-1, DDX26A, INT6
13	INTS6	ENSG00000102786	ENST00000485178	protein_coding	KNOWN	None	14879	390	129	52004430	52027728	-1	DDX26	DICE1, HDB, Notchl2, DBI-1, DDX26A, INT6
13	INTS6	ENSG00000102786	ENST00000483288	protein_coding	KNOWN	None	14879	379	125	52004441	52028400	-1	DDX26	DICE1, HDB, Notchl2, DBI-1, DDX26A, INT6
13	INTS6	ENSG00000102786	ENST00000478566	retained_intron	KNOWN	None	14879	None	None	52023620	52027151	-1	DDX26	DICE1, HDB, Notchl2, DBI-1, DDX26A, INT6
13	INTS6	ENSG00000102786	ENST00000425000	protein_coding	KNOWN	None	14879	1368	455	51939783	52027172	-1	DDX26	DICE1, HDB, Notchl2, DBI-1, DDX26A, INT6
13	INTS6	ENSG00000102786	ENST00000463928	protein_coding	KNOWN	None	14879	870	289	51941997	52027172	-1	DDX26	DICE1, HDB, Notchl2, DBI-1, DDX26A, INT6
13	INTS6	ENSG00000102786	ENST00000420668	protein_coding	KNOWN	None	14879	513	170	51957790	52026766	-1	DDX26	DICE1, HDB, Notchl2, DBI-1, DDX26A, INT6
13	INTS6	ENSG00000102786	ENST00000442263	protein_coding	KNOWN	CCDS45048	14879	348	115	52023620	52027275	-1	DDX26	DICE1, HDB, Notchl2, DBI-1, DDX26A, INT6
8	None	ENSG00000253593	ENST00000520149	lincRNA	KNOWN	None	None	None	None	134898739	134914650	1	None	None
1	None	ENSG00000271291	ENST00000603689	processed_pseudogene	KNOWN	None	None	None	None	148229952	148230238	-1	None	None
1	None	ENSG00000271558	ENST00000603098	processed_pseudogene	KNOWN	None	None	None	None	187475970	187476251	-1	None	None
8	FAM90A16P	ENSG00000229477	ENST00000526662	unprocessed_pseudogene	KNOWN	None	32264	None	None	7588261	7591271	1	FAM90A16	None
11	None	ENSG00000271028	ENST00000603543	processed_pseudogene	KNOWN	None	None	None	None	43085187	43087482	-1	None	None
12	None	ENSG00000198678	ENST00000328207	unprocessed_pseudogene	KNOWN	None	None	None	None	48953665	48956739	1	None	None
2	LRRTM1	ENSG00000162951	ENST00000417012	nonsense_mediated_decay	KNOWN	CCDS1966	19408	1569	522	80515483	80531518	-1	None	FLJ32082
2	LRRTM1	ENSG00000162951	ENST00000433224	nonsense_mediated_decay	KNOWN	CCDS1966	19408	1569	522	80525306	80531855	-1	None	FLJ32082
2	LRRTM1	ENSG00000162951	ENST00000295057	protein_coding	KNOWN	CCDS1966	19408	1569	522	80529003	80531874	-1	None	FLJ32082
2	LRRTM1	ENSG00000162951	ENST00000409148	protein_coding	KNOWN	CCDS1966	19408	1569	522	80529005	80531399	-1	None	FLJ32082
2	LRRTM1	ENSG00000162951	ENST00000416268	protein_coding	KNOWN	None	19408	669	222	80530276	80531720	-1	None	FLJ32082
2	LRRTM1	ENSG00000162951	ENST00000452811	protein_coding	KNOWN	None	19408	551	182	80530394	80531565	-1	None	FLJ32082
2	LRRTM1	ENSG00000162951	ENST00000415098	protein_coding	KNOWN	None	19408	327	108	80530618	80531446	-1	None	FLJ32082
11	None	ENSG00000254843	ENST00000527404	processed_pseudogene	KNOWN	None	None	None	None	86805776	86807627	-1	None	None
10	RNA5SP326	ENSG00000200079	ENST00000363209	rRNA	KNOWN	None	43226	None	None	109221318	109221427	1	RN5S326	None
12	None	ENSG00000258302	ENST00000552778	3prime_overlapping_ncrna	KNOWN	None	None	None	None	89954906	89987798	1	None	None
2	ANKRD36B	ENSG00000196912	ENST00000497329	processed_transcript	KNOWN	None	29333	None	None	98108978	98127712	-1	KIAA1641	FLJ21281
2	ANKRD36B	ENSG00000196912	ENST00000488634	retained_intron	KNOWN	None	29333	None	None	98109130	98128072	-1	KIAA1641	FLJ21281
2	ANKRD36B	ENSG00000196912	ENST00000359901	transcribed_unprocessed_pseudogene	KNOWN	None	29333	None	None	98123505	98206184	-1	KIAA1641	FLJ21281
2	ANKRD36B	ENSG00000196912	ENST00000443455	processed_transcript	KNOWN	None	29333	None	None	98164028	98206327	-1	KIAA1641	FLJ21281
2	ANKRD36B	ENSG00000196912	ENST00000419390	processed_transcript	KNOWN	None	29333	None	None	98167775	98206278	-1	KIAA1641	FLJ21281
2	ANKRD36B	ENSG00000196912	ENST00000377003	unprocessed_pseudogene	KNOWN	None	29333	None	None	98111412	98206428	-1	KIAA1641	FLJ21281
2	ANKRD36B	ENSG00000196912	ENST00000258459	unprocessed_pseudogene	KNOWN	None	29333	None	None	98121261	98206428	-1	KIAA1641	FLJ21281
2	ANKRD36B	ENSG00000196912	ENST00000438709	unprocessed_pseudogene	KNOWN	None	29333	None	None	98121261	98206428	-1	KIAA1641	FLJ21281
2	ANKRD36B	ENSG00000196912	ENST00000447597	unprocessed_pseudogene	KNOWN	None	29333	None	None	98125899	98161140	-1	KIAA1641	FLJ21281
8	None	ENSG00000271240	ENST00000605278	processed_pseudogene	KNOWN	None	None	None	None	134975235	134975502	-1	None	None
11	None	ENSG00000254725	ENST00000532030	processed_pseudogene	KNOWN	None	None	None	None	43087236	43087626	-1	None	None
1	RNVU1-14	ENSG00000207501	ENST00000384770	snRNA	KNOWN	None	48319	None	None	148241465	148241628	1	None	vU1.14, RNU1-37
1	OR6F1	ENSG00000169214	ENST00000302084	protein_coding	KNOWN	CCDS31095	15027	927	308	247875045	247876105	-1	None	OST731
1	None	ENSG00000215895	ENST00000442006	processed_pseudogene	KNOWN	None	None	None	None	39174603	39176562	1	None	None
1	MIPEPP2	ENSG00000224783	ENST00000422560	processed_pseudogene	KNOWN	None	39457	None	None	238940349	238942500	-1	None	None
3	RNU6ATAC4P	ENSG00000210181	ENST00000387446	snRNA	KNOWN	None	34094	None	None	37009682	37009807	-1	None	None
8	None	ENSG00000253627	ENST00000523317	lincRNA	KNOWN	None	None	None	None	135224108	135332690	-1	None	None
1	None	ENSG00000236140	ENST00000427732	lincRNA	KNOWN	None	None	None	None	148246959	148248104	-1	None	None
8	None	ENSG00000253532	ENST00000523226	sense_intronic	KNOWN	None	None	None	None	100131580	100132809	1	None	None
1	None	ENSG00000228012	ENST00000443251	processed_pseudogene	KNOWN	None	None	None	None	187505233	187505431	-1	None	None
17	UNC119	ENSG00000109103	ENST00000335765	protein_coding	KNOWN	CCDS11233	12565	723	240	26873725	26879686	-1	None	HRG4, POC7, POC7A
17	UNC119	ENSG00000109103	ENST00000484980	protein_coding	PUTATIVE	None	12565	438	145	26873726	26878820	-1	None	HRG4, POC7, POC7A
17	UNC119	ENSG00000109103	ENST00000301032	protein_coding	KNOWN	CCDS11234	12565	663	220	26873726	26879649	-1	None	HRG4, POC7, POC7A
17	UNC119	ENSG00000109103	ENST00000470125	protein_coding	PUTATIVE	None	12565	378	125	26873729	26876417	-1	None	HRG4, POC7, POC7A
17	UNC119	ENSG00000109103	ENST00000581945	protein_coding	NOVEL	None	12565	259	85	26874542	26879567	-1	None	HRG4, POC7, POC7A
17	UNC119	ENSG00000109103	ENST00000444148	protein_coding	NOVEL	None	12565	624	207	26874660	26879627	-1	None	HRG4, POC7, POC7A
17	UNC119	ENSG00000109103	ENST00000487844	retained_intron	KNOWN	None	12565	None	None	26874706	26875191	-1	None	HRG4, POC7, POC7A
17	UNC119	ENSG00000109103	ENST00000578434	retained_intron	KNOWN	None	12565	None	None	26878843	26879643	-1	None	HRG4, POC7, POC7A
15	None	ENSG00000259734	ENST00000558699	antisense	KNOWN	None	None	None	None	87173497	87174367	-1	None	None
HG306_PATCH	NCAM1	ENSG00000262279	ENST00000589067	protein_coding	NOVEL	None	7656	2655	884	112831997	113146109	1	None	NCAM, CD56
HG306_PATCH	NCAM1	ENSG00000262279	ENST00000586493	protein_coding	NOVEL	None	7656	2178	725	112832090	113133734	1	None	NCAM, CD56
HG306_PATCH	NCAM1	ENSG00000262279	ENST00000592855	protein_coding	KNOWN	None	7656	2181	726	112832090	113135919	1	None	NCAM, CD56
HG306_PATCH	NCAM1	ENSG00000262279	ENST00000587364	protein_coding	NOVEL	None	7656	399	132	112832124	113102944	1	None	NCAM, CD56
HG306_PATCH	NCAM1	ENSG00000262279	ENST00000576604	protein_coding	KNOWN	None	7656	2577	858	112832124	113149158	1	None	NCAM, CD56
HG306_PATCH	NCAM1	ENSG00000262279	ENST00000591845	protein_coding	NOVEL	None	7656	407	134	112832157	113140961	1	None	NCAM, CD56
HG306_PATCH	NCAM1	ENSG00000262279	ENST00000590031	protein_coding	KNOWN	None	7656	2547	848	112832158	113146211	1	None	NCAM, CD56
HG306_PATCH	NCAM1	ENSG00000262279	ENST00000591218	protein_coding	KNOWN	None	7656	1095	364	112832159	113092625	1	None	NCAM, CD56
HG306_PATCH	NCAM1	ENSG00000262279	ENST00000587766	processed_transcript	KNOWN	None	7656	None	None	112832161	113004673	1	None	NCAM, CD56
HG306_PATCH	NCAM1	ENSG00000262279	ENST00000593059	protein_coding	KNOWN	None	7656	2286	761	112832202	113134015	1	None	NCAM, CD56
HG306_PATCH	NCAM1	ENSG00000262279	ENST00000586162	protein_coding	PUTATIVE	None	7656	481	159	113001416	113076388	1	None	NCAM, CD56
HG306_PATCH	NCAM1	ENSG00000262279	ENST00000591454	protein_coding	PUTATIVE	None	7656	2202	733	113003650	113146286	1	None	NCAM, CD56
HG306_PATCH	NCAM1	ENSG00000262279	ENST00000588322	retained_intron	KNOWN	None	7656	None	None	113102102	113103470	1	None	NCAM, CD56
HG306_PATCH	NCAM1	ENSG00000262279	ENST00000591347	protein_coding	NOVEL	None	7656	686	227	113102984	113130920	1	None	NCAM, CD56
HG306_PATCH	NCAM1	ENSG00000262279	ENST00000593207	protein_coding	NOVEL	None	7656	918	305	113103047	113133989	1	None	NCAM, CD56
HG306_PATCH	NCAM1	ENSG00000262279	ENST00000592004	nonsense_mediated_decay	KNOWN	None	7656	498	165	113103515	113134015	1	None	NCAM, CD56
HG306_PATCH	NCAM1	ENSG00000262279	ENST00000587370	protein_coding	NOVEL	None	7656	1072	356	113103517	113146685	1	None	NCAM, CD56
HG306_PATCH	NCAM1	ENSG00000262279	ENST00000585602	protein_coding	NOVEL	None	7656	1124	373	113103531	113146170	1	None	NCAM, CD56
HG306_PATCH	NCAM1	ENSG00000262279	ENST00000591324	retained_intron	KNOWN	None	7656	None	None	113103980	113131109	1	None	NCAM, CD56
HG306_PATCH	NCAM1	ENSG00000262279	ENST00000593080	retained_intron	KNOWN	None	7656	None	None	113111229	113130997	1	None	NCAM, CD56
HG306_PATCH	NCAM1	ENSG00000262279	ENST00000587550	retained_intron	KNOWN	None	7656	None	None	113116830	113131039	1	None	NCAM, CD56
HG306_PATCH	NCAM1	ENSG00000262279	ENST00000592986	protein_coding	NOVEL	None	7656	253	83	113126672	113133896	1	None	NCAM, CD56
HG306_PATCH	NCAM1	ENSG00000262279	ENST00000586595	retained_intron	KNOWN	None	7656	None	None	113130813	113133899	1	None	NCAM, CD56
HG306_PATCH	NCAM1	ENSG00000262279	ENST00000576230	protein_coding	NOVEL	None	7656	1328	441	113130980	113148588	1	None	NCAM, CD56
HG306_PATCH	NCAM1	ENSG00000262279	ENST00000589746	retained_intron	KNOWN	None	7656	None	None	113140691	113146004	1	None	NCAM, CD56
1	None	ENSG00000227854	ENST00000422215	processed_pseudogene	KNOWN	None	None	None	None	239216048	239216203	-1	None	None
11	None	ENSG00000255860	ENST00000539482	processed_transcript	KNOWN	None	None	None	None	71883483	71889086	1	None	None
11	None	ENSG00000255860	ENST00000538934	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	71883499	71888998	1	None	None
1	None	ENSG00000237847	ENST00000434336	protein_coding	KNOWN	None	None	510	169	16999498	17000007	1	None	None
2	None	ENSG00000271889	ENST00000605902	lincRNA	KNOWN	None	None	None	None	61378568	61389231	-1	None	None
2	None	ENSG00000271889	ENST00000607743	lincRNA	KNOWN	None	None	None	None	61378951	61389168	-1	None	None
2	None	ENSG00000271889	ENST00000606876	lincRNA	KNOWN	None	None	None	None	61388833	61389240	-1	None	None
3	None	ENSG00000250796	ENST00000505910	processed_pseudogene	KNOWN	None	None	None	None	128588467	128588869	1	None	None
1	FDPSP1	ENSG00000225462	ENST00000424976	processed_pseudogene	KNOWN	None	3632	None	None	187532193	187533263	1	CHR39A, FPSL1, FDPSL1	None
HSCHR6_MHC_QBL	KIFC1	ENSG00000204197	ENST00000374523	protein_coding	KNOWN	None	6389	2022	673	33288143	33306509	1	KNSL2	HSET
HSCHR6_MHC_QBL	KIFC1	ENSG00000204197	ENST00000411963	protein_coding	KNOWN	None	6389	609	202	33288468	33300456	1	KNSL2	HSET
HSCHR6_MHC_QBL	KIFC1	ENSG00000204197	ENST00000492999	processed_transcript	KNOWN	None	6389	None	None	33296689	33300463	1	KNSL2	HSET
HSCHR6_MHC_QBL	KIFC1	ENSG00000204197	ENST00000480346	retained_intron	KNOWN	None	6389	None	None	33302818	33303687	1	KNSL2	HSET
11	HNRNPKP3	ENSG00000251557	ENST00000533565	processed_transcript	PUTATIVE	None	42376	None	None	43142312	43290943	-1	None	None
11	HNRNPKP3	ENSG00000251557	ENST00000511537	processed_transcript	KNOWN	None	42376	None	None	43283054	43290919	-1	None	None
11	HNRNPKP3	ENSG00000251557	ENST00000534639	transcribed_processed_pseudogene	KNOWN	None	42376	None	None	43283657	43284977	-1	None	None
8	None	ENSG00000236583	ENST00000440915	processed_pseudogene	KNOWN	None	None	None	None	100245276	100246687	-1	None	None
12	None	ENSG00000256678	ENST00000541551	processed_pseudogene	KNOWN	None	None	None	None	69198791	69199259	-1	None	None
7	None	ENSG00000242588	ENST00000605862	processed_transcript	KNOWN	None	None	None	None	128171752	128269512	1	None	None
7	None	ENSG00000242588	ENST00000479267	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	128173706	128256024	1	None	None
8	ZFAT-AS1	ENSG00000248492	ENST00000505776	antisense	KNOWN	None	33992	None	None	135610314	135612932	1	ZFATAS, ZFAT-AS	SAS-ZFAT, NCRNA00070
1	None	ENSG00000268991	ENST00000600179	protein_coding	KNOWN	None	None	510	169	17060447	17060956	-1	None	None
1	None	ENSG00000259776	ENST00000561926	lincRNA	KNOWN	None	None	None	None	239411108	239414118	-1	None	None
8	IMPA1P	ENSG00000251521	ENST00000510718	transcribed_unprocessed_pseudogene	KNOWN	None	33956	None	None	82517804	82539184	-1	None	None
8	IMPA1P	ENSG00000251521	ENST00000522318	processed_transcript	KNOWN	None	33956	None	None	82538292	82543369	-1	None	None
11	OR10AF1P	ENSG00000255416	ENST00000528901	unprocessed_pseudogene	KNOWN	None	19606	None	None	55715596	55716400	-1	None	None
12	OR6C73P	ENSG00000257414	ENST00000546432	unprocessed_pseudogene	KNOWN	None	31302	None	None	55790124	55790481	1	None	None
14	RNU6-802P	ENSG00000207141	ENST00000384412	snRNA	KNOWN	None	47765	None	None	24821263	24821363	-1	None	None
1	None	ENSG00000227185	ENST00000442410	lincRNA	KNOWN	None	None	None	None	239433025	239461237	-1	None	None
2	None	ENSG00000271146	ENST00000605372	processed_pseudogene	KNOWN	None	None	None	None	61476915	61477756	1	None	None
9	None	ENSG00000233551	ENST00000438629	processed_pseudogene	KNOWN	None	None	None	None	16775571	16775843	-1	None	None
11	None	ENSG00000254931	ENST00000527233	processed_pseudogene	KNOWN	None	None	None	None	103273316	103273989	-1	None	None
15	None	ENSG00000259636	ENST00000560696	sense_intronic	KNOWN	None	None	None	None	87476111	87489562	1	None	None
1	PFN1P3	ENSG00000234367	ENST00000443612	processed_pseudogene	KNOWN	None	42987	None	None	148349256	148349657	1	None	None
11	None	ENSG00000255239	ENST00000531328	unprocessed_pseudogene	KNOWN	None	None	None	None	118558748	118561309	-1	None	None
17	NMT1	ENSG00000136448	ENST00000592782	protein_coding	KNOWN	CCDS11494	7857	1491	496	43128978	43186384	1	None	NMT
17	NMT1	ENSG00000136448	ENST00000588975	processed_transcript	KNOWN	None	7857	None	None	43138674	43163903	1	None	NMT
17	NMT1	ENSG00000136448	ENST00000543908	nonsense_mediated_decay	KNOWN	None	7857	414	137	43138688	43176211	1	None	NMT
17	NMT1	ENSG00000136448	ENST00000585561	nonsense_mediated_decay	KNOWN	None	7857	266	87	43138702	43174612	1	None	NMT
17	NMT1	ENSG00000136448	ENST00000590114	processed_transcript	KNOWN	None	7857	None	None	43138702	43175823	1	None	NMT
17	NMT1	ENSG00000136448	ENST00000592654	protein_coding	PUTATIVE	None	7857	217	71	43139047	43171124	1	None	NMT
17	NMT1	ENSG00000136448	ENST00000588455	retained_intron	KNOWN	None	7857	None	None	43170999	43176804	1	None	NMT
17	NMT1	ENSG00000136448	ENST00000590310	retained_intron	KNOWN	None	7857	None	None	43174496	43177188	1	None	NMT
17	NMT1	ENSG00000136448	ENST00000587014	retained_intron	KNOWN	None	7857	None	None	43180331	43181690	1	None	NMT
17	NMT1	ENSG00000136448	ENST00000591931	retained_intron	KNOWN	None	7857	None	None	43181985	43183354	1	None	NMT
17	NMT1	ENSG00000136448	ENST00000587120	processed_transcript	KNOWN	None	7857	None	None	43183012	43186384	1	None	NMT
17	NMT1	ENSG00000136448	ENST00000587670	processed_transcript	KNOWN	None	7857	None	None	43183133	43185502	1	None	NMT
17	NMT1	ENSG00000136448	ENST00000258960	protein_coding	KNOWN	CCDS11494	7857	1491	496	43138680	43186377	1	None	NMT
10	None	ENSG00000229981	ENST00000598903	lincRNA	KNOWN	None	None	None	None	109517591	109800952	-1	None	None
10	None	ENSG00000229981	ENST00000593666	lincRNA	KNOWN	None	None	None	None	109520581	109800952	-1	None	None
10	None	ENSG00000229981	ENST00000596263	lincRNA	KNOWN	None	None	None	None	109565696	109800952	-1	None	None
10	None	ENSG00000229981	ENST00000594566	lincRNA	KNOWN	None	None	None	None	109604087	109800952	-1	None	None
10	None	ENSG00000229981	ENST00000601410	lincRNA	KNOWN	None	None	None	None	109612916	109800952	-1	None	None
10	None	ENSG00000229981	ENST00000425050	lincRNA	KNOWN	None	None	None	None	109631334	109829052	-1	None	None
10	None	ENSG00000229981	ENST00000597243	lincRNA	KNOWN	None	None	None	None	109631340	109800952	-1	None	None
10	None	ENSG00000229981	ENST00000594427	lincRNA	KNOWN	None	None	None	None	109631399	109800952	-1	None	None
10	None	ENSG00000229981	ENST00000597234	lincRNA	KNOWN	None	None	None	None	109691996	109800952	-1	None	None
10	None	ENSG00000229981	ENST00000601212	lincRNA	KNOWN	None	None	None	None	109722662	109800952	-1	None	None
10	None	ENSG00000229981	ENST00000596000	lincRNA	KNOWN	None	None	None	None	109760769	109800952	-1	None	None
10	None	ENSG00000229981	ENST00000601466	lincRNA	KNOWN	None	None	None	None	109798370	109800952	-1	None	None
10	None	ENSG00000229981	ENST00000601505	lincRNA	KNOWN	None	None	None	None	109799603	109800952	-1	None	None
10	None	ENSG00000229981	ENST00000595603	lincRNA	KNOWN	None	None	None	None	109800139	109829051	-1	None	None
10	None	ENSG00000229981	ENST00000600953	lincRNA	KNOWN	None	None	None	None	109800814	109871360	-1	None	None
14	None	ENSG00000258657	ENST00000557736	antisense	KNOWN	None	None	None	None	25064929	25103698	1	None	None
14	None	ENSG00000258657	ENST00000555300	antisense	KNOWN	None	None	None	None	25065191	25126980	1	None	None
6	ANKRD6	ENSG00000135299	ENST00000369408	protein_coding	KNOWN	CCDS56442	17280	2079	692	90142889	90343553	1	None	KIAA0957
6	ANKRD6	ENSG00000135299	ENST00000520886	processed_transcript	KNOWN	None	17280	None	None	90142923	90322089	1	None	KIAA0957
6	ANKRD6	ENSG00000135299	ENST00000339746	protein_coding	KNOWN	CCDS56441	17280	2184	727	90142928	90341302	1	None	KIAA0957
6	ANKRD6	ENSG00000135299	ENST00000447838	protein_coding	KNOWN	CCDS47460	17280	2169	722	90142932	90341216	1	None	KIAA0957
6	ANKRD6	ENSG00000135299	ENST00000520458	protein_coding	KNOWN	None	17280	240	79	90193122	90312768	1	None	KIAA0957
6	ANKRD6	ENSG00000135299	ENST00000465722	protein_coding	KNOWN	None	17280	526	174	90214676	90323520	1	None	KIAA0957
6	ANKRD6	ENSG00000135299	ENST00000523798	protein_coding	KNOWN	None	17280	306	101	90218872	90312834	1	None	KIAA0957
6	ANKRD6	ENSG00000135299	ENST00000522441	protein_coding	KNOWN	CCDS56441	17280	2184	727	90272120	90341055	1	None	KIAA0957
6	ANKRD6	ENSG00000135299	ENST00000522779	protein_coding	NOVEL	None	17280	163	53	90272350	90312790	1	None	KIAA0957
6	ANKRD6	ENSG00000135299	ENST00000485637	protein_coding	PUTATIVE	None	17280	924	307	90272505	90328129	1	None	KIAA0957
6	ANKRD6	ENSG00000135299	ENST00000522705	protein_coding	KNOWN	None	17280	354	117	90272564	90315761	1	None	KIAA0957
6	ANKRD6	ENSG00000135299	ENST00000518150	protein_coding	NOVEL	None	17280	690	229	90276649	90337397	1	None	KIAA0957
6	ANKRD6	ENSG00000135299	ENST00000520793	protein_coding	NOVEL	CCDS56443	17280	1992	663	90276695	90341219	1	None	KIAA0957
6	ANKRD6	ENSG00000135299	ENST00000518253	retained_intron	KNOWN	None	17280	None	None	90312712	90341196	1	None	KIAA0957
6	ANKRD6	ENSG00000135299	ENST00000524056	nonsense_mediated_decay	KNOWN	None	17280	230	75	90323512	90333179	1	None	KIAA0957
6	ANKRD6	ENSG00000135299	ENST00000520839	retained_intron	KNOWN	None	17280	None	None	90326117	90333232	1	None	KIAA0957
6	ANKRD6	ENSG00000135299	ENST00000415924	retained_intron	KNOWN	None	17280	None	None	90330933	90343373	1	None	KIAA0957
6	ANKRD6	ENSG00000135299	ENST00000479572	retained_intron	KNOWN	None	17280	None	None	90331585	90341217	1	None	KIAA0957
6	ANKRD6	ENSG00000135299	ENST00000492158	protein_coding	NOVEL	None	17280	455	150	90333686	90340274	1	None	KIAA0957
6	ANKRD6	ENSG00000135299	ENST00000521004	protein_coding	PUTATIVE	None	17280	393	130	90334375	90339194	1	None	KIAA0957
6	ANKRD6	ENSG00000135299	ENST00000483473	processed_transcript	KNOWN	None	17280	None	None	90338005	90339195	1	None	KIAA0957
6	ANKRD6	ENSG00000135299	ENST00000521240	retained_intron	KNOWN	None	17280	None	None	90338501	90340228	1	None	KIAA0957
1	None	ENSG00000228436	ENST00000433671	antisense	KNOWN	None	None	None	None	39325672	39385068	1	None	None
1	None	ENSG00000228436	ENST00000456813	antisense	KNOWN	None	None	None	None	39325755	39341896	1	None	None
1	None	ENSG00000228436	ENST00000443161	antisense	KNOWN	None	None	None	None	39339114	39341898	1	None	None
11	OR10AK1P	ENSG00000254807	ENST00000527244	unprocessed_pseudogene	KNOWN	None	31236	None	None	55724692	55725106	-1	None	None
1	CHRM3-AS2	ENSG00000233355	ENST00000596999	antisense	KNOWN	None	43725	None	None	239866684	239867454	-1	None	None
1	CHRM3-AS2	ENSG00000233355	ENST00000427859	antisense	KNOWN	None	43725	None	None	239867192	239882366	-1	None	None
1	CHRM3-AS2	ENSG00000233355	ENST00000428176	antisense	KNOWN	None	43725	None	None	239869622	239870822	-1	None	None
1	CHRM3-AS2	ENSG00000233355	ENST00000600831	antisense	KNOWN	None	43725	None	None	239869725	239893765	-1	None	None
1	CHRM3-AS2	ENSG00000233355	ENST00000458325	retained_intron	KNOWN	None	43725	None	None	239870424	239882419	-1	None	None
1	CHRM3-AS2	ENSG00000233355	ENST00000593855	antisense	KNOWN	None	43725	None	None	239870651	239893765	-1	None	None
8	None	ENSG00000271048	ENST00000605856	processed_pseudogene	KNOWN	None	None	None	None	135685374	135685755	1	None	None
3	None	ENSG00000249505	ENST00000510422	processed_pseudogene	KNOWN	None	None	None	None	128764606	128765764	1	None	None
5	NIPAL4	ENSG00000172548	ENST00000435489	protein_coding	KNOWN	CCDS54944	28018	1344	447	156887027	156900108	1	None	ICHYN
5	NIPAL4	ENSG00000172548	ENST00000311946	protein_coding	KNOWN	CCDS47328	28018	1401	466	156887027	156901725	1	None	ICHYN
5	NIPAL4	ENSG00000172548	ENST00000521390	processed_transcript	KNOWN	None	28018	None	None	156887224	156894976	1	None	ICHYN
5	NIPAL4	ENSG00000172548	ENST00000519150	nonsense_mediated_decay	KNOWN	None	28018	399	132	156887263	156899443	1	None	ICHYN
5	NIPAL4	ENSG00000172548	ENST00000519946	processed_transcript	KNOWN	None	28018	None	None	156887337	156895748	1	None	ICHYN
2	None	ENSG00000234624	ENST00000444364	processed_pseudogene	KNOWN	None	None	None	None	61644022	61644332	-1	None	None
1	None	ENSG00000229002	ENST00000440916	unprocessed_pseudogene	KNOWN	None	None	None	None	148542873	148545128	1	None	None
9	None	ENSG00000237153	ENST00000430545	lincRNA	KNOWN	None	None	None	None	17048917	17112813	1	None	None
15	None	ENSG00000259620	ENST00000558587	antisense	KNOWN	None	None	None	None	87482028	87531657	-1	None	None
X	None	ENSG00000252441	ENST00000516632	snoRNA	NOVEL	None	None	None	None	114779969	114780049	1	None	None
12	OR11M1P	ENSG00000224709	ENST00000415975	unprocessed_pseudogene	KNOWN	None	15333	None	None	49021671	49022565	1	None	None
15	None	ENSG00000260959	ENST00000565943	lincRNA	KNOWN	None	None	None	None	24483292	24485339	-1	None	None
1	PFN1P7	ENSG00000227212	ENST00000476786	processed_pseudogene	KNOWN	None	42993	None	None	148574653	148575051	-1	None	None
1	ERVMER61-1	ENSG00000230426	ENST00000429725	lincRNA	KNOWN	None	27919	None	None	187610358	187612992	1	C1orf99	None
12	PHC1P1	ENSG00000179899	ENST00000554937	processed_pseudogene	KNOWN	None	34502	None	None	55805511	55808571	-1	PHC1B	None
12	PHC1P1	ENSG00000179899	ENST00000326184	processed_pseudogene	KNOWN	None	34502	None	None	55805030	55808633	-1	PHC1B	None
12	PHC1P1	ENSG00000179899	ENST00000379664	processed_pseudogene	KNOWN	None	34502	None	None	55805506	55808571	-1	PHC1B	None
12	PHC1P1	ENSG00000179899	ENST00000539230	processed_pseudogene	KNOWN	None	34502	None	None	55805506	55807857	-1	PHC1B	None
12	PHC1P1	ENSG00000179899	ENST00000541780	processed_pseudogene	KNOWN	None	34502	None	None	55804263	55806195	-1	PHC1B	None
6	PXDC1	ENSG00000168994	ENST00000477592	processed_transcript	KNOWN	None	21361	None	None	3722848	3751766	-1	C6orf145	None
6	PXDC1	ENSG00000168994	ENST00000380277	protein_coding	KNOWN	None	21361	539	178	3722854	3739128	-1	C6orf145	None
6	PXDC1	ENSG00000168994	ENST00000380283	protein_coding	KNOWN	CCDS4486	21361	696	231	3722854	3752260	-1	C6orf145	None
6	PXDC1	ENSG00000168994	ENST00000485986	processed_transcript	KNOWN	None	21361	None	None	3739030	3751763	-1	C6orf145	None
X	None	ENSG00000270431	ENST00000605468	processed_pseudogene	KNOWN	None	None	None	None	114894033	114894342	1	None	None
8	None	ENSG00000272456	ENST00000606279	lincRNA	KNOWN	None	None	None	None	135735190	135736192	1	None	None
10	SGPL1	ENSG00000166224	ENST00000486993	processed_transcript	KNOWN	None	10817	None	None	72575717	72580240	1	None	SPL
10	SGPL1	ENSG00000166224	ENST00000373202	protein_coding	KNOWN	CCDS31216	10817	1707	568	72575726	72640930	1	None	SPL
10	SGPL1	ENSG00000166224	ENST00000299297	protein_coding	KNOWN	None	10817	609	202	72604254	72620243	1	None	SPL
10	SGPL1	ENSG00000166224	ENST00000409118	protein_coding	KNOWN	None	10817	407	134	72614463	72619362	1	None	SPL
Y	TTTY8	ENSG00000183385	ENST00000329684	lincRNA	KNOWN	None	18489	None	None	9528709	9531308	1	None	TTY8, NCRNA00130, LINC00130
Y	TTTY8	ENSG00000183385	ENST00000426035	lincRNA	KNOWN	None	18489	None	None	9528709	9531566	1	None	TTY8, NCRNA00130, LINC00130
1	OR14A2	ENSG00000241128	ENST00000366485	protein_coding	KNOWN	None	15024	945	314	247886401	247887345	-1	OR5AX1P, OR5AX1	None
1	None	ENSG00000236401	ENST00000424054	unprocessed_pseudogene	KNOWN	None	None	None	None	187675692	187678029	1	None	None
12	SNORA34	ENSG00000221491	ENST00000408564	snoRNA	KNOWN	None	32624	None	None	49048165	49048301	-1	None	ACA34
16	None	ENSG00000252040	ENST00000516231	snoRNA	NOVEL	None	None	None	None	68664126	68664257	-1	None	None
3	None	ENSG00000272334	ENST00000607089	lincRNA	KNOWN	None	None	None	None	37014608	37015163	-1	None	None
3	CHDH	ENSG00000016391	ENST00000315251	protein_coding	KNOWN	CCDS2873	24288	1785	594	53850387	53880417	-1	None	None
3	CHDH	ENSG00000016391	ENST00000481668	protein_coding	KNOWN	None	24288	465	154	53857571	53878644	-1	None	None
3	CHDH	ENSG00000016391	ENST00000467802	protein_coding	KNOWN	None	24288	378	125	53857658	53878796	-1	None	None
16	None	ENSG00000252640	ENST00000516831	snoRNA	NOVEL	None	None	None	None	68664754	68664871	-1	None	None
14	None	ENSG00000259037	ENST00000556073	antisense	KNOWN	None	None	None	None	105055358	105056184	-1	None	None
7	HNRNPA1P9	ENSG00000231956	ENST00000450624	processed_pseudogene	KNOWN	None	39127	None	None	87150777	87151726	1	None	None
3	LINC00636	ENSG00000240423	ENST00000494231	lincRNA	KNOWN	None	27702	None	None	107602095	107647754	1	None	None
20	None	ENSG00000269407	ENST00000596205	protein_coding	NOVEL	None	None	57	18	23330015	23334066	-1	None	None
3	PRADC1P1	ENSG00000236165	ENST00000412317	processed_pseudogene	KNOWN	None	44534	None	None	37017807	37018331	1	None	None
8	FAM90A8P	ENSG00000224710	ENST00000528334	unprocessed_pseudogene	KNOWN	None	32256	None	None	7595909	7598918	1	FAM90A8	None
8	None	ENSG00000259820	ENST00000568248	lincRNA	KNOWN	None	None	None	None	135804263	135810515	-1	None	None
1	RNU6-605P	ENSG00000199963	ENST00000363093	snRNA	KNOWN	None	47568	None	None	39392542	39392649	1	None	None
1	None	ENSG00000237253	ENST00000415104	lincRNA	KNOWN	None	None	None	None	148598398	148599531	1	None	None
1	None	ENSG00000223847	ENST00000451797	processed_pseudogene	KNOWN	None	None	None	None	187683374	187683866	-1	None	None
1	CHRM3-AS1	ENSG00000234601	ENST00000444721	antisense	KNOWN	None	40150	None	None	240061316	240063172	-1	None	None
2	SNORA70B	ENSG00000206937	ENST00000384210	snoRNA	KNOWN	None	33618	None	None	61644379	61644513	-1	None	None
1	None	ENSG00000207466	ENST00000384735	misc_RNA	NOVEL	None	None	None	None	39416497	39416597	-1	None	None
5	FBXL21	ENSG00000164616	ENST00000495672	processed_transcript	KNOWN	None	13600	None	None	135266006	135272390	1	FBXL3B, FBXL3P	FBL3B, Fbl21
5	FBXL21	ENSG00000164616	ENST00000475169	processed_transcript	KNOWN	None	13600	None	None	135266025	135272529	1	FBXL3B, FBXL3P	FBL3B, Fbl21
5	FBXL21	ENSG00000164616	ENST00000472159	processed_transcript	KNOWN	None	13600	None	None	135266092	135276560	1	FBXL3B, FBXL3P	FBL3B, Fbl21
5	FBXL21	ENSG00000164616	ENST00000467490	processed_transcript	KNOWN	None	13600	None	None	135266092	135287280	1	FBXL3B, FBXL3P	FBL3B, Fbl21
5	FBXL21	ENSG00000164616	ENST00000297158	polymorphic_pseudogene	KNOWN	None	13600	1305	434	135272284	135277360	1	FBXL3B, FBXL3P	FBL3B, Fbl21
5	FBXL21	ENSG00000164616	ENST00000478939	retained_intron	KNOWN	None	13600	None	None	135272484	135277367	1	FBXL3B, FBXL3P	FBL3B, Fbl21
5	FBXL21	ENSG00000164616	ENST00000498734	processed_transcript	KNOWN	None	13600	None	None	135277012	135287121	1	FBXL3B, FBXL3P	FBL3B, Fbl21
13	RNU6-73P	ENSG00000207330	ENST00000384600	snRNA	KNOWN	None	42563	None	None	28402900	28403006	1	RNU6-73	None
3	MBD4	ENSG00000129071	ENST00000429544	protein_coding	KNOWN	None	6919	1725	574	129149787	129158872	-1	None	MED1
3	MBD4	ENSG00000129071	ENST00000249910	protein_coding	KNOWN	CCDS3058	6919	1743	580	129149793	129158852	-1	None	MED1
3	MBD4	ENSG00000129071	ENST00000503197	protein_coding	NOVEL	None	6919	1623	540	129150109	129158850	-1	None	MED1
3	MBD4	ENSG00000129071	ENST00000509828	nonsense_mediated_decay	KNOWN	None	6919	159	52	129150298	129158770	-1	None	MED1
3	MBD4	ENSG00000129071	ENST00000507208	protein_coding	NOVEL	None	6919	1719	572	129151019	129158878	-1	None	MED1
3	MBD4	ENSG00000129071	ENST00000511009	retained_intron	KNOWN	None	6919	None	None	129151376	129152396	-1	None	MED1
3	MBD4	ENSG00000129071	ENST00000515266	retained_intron	KNOWN	None	6919	None	None	129151420	129152946	-1	None	MED1
3	MBD4	ENSG00000129071	ENST00000509587	processed_transcript	KNOWN	None	6919	None	None	129152702	129158783	-1	None	MED1
3	MBD4	ENSG00000129071	ENST00000505883	processed_transcript	KNOWN	None	6919	None	None	129155890	129158780	-1	None	MED1
3	MBD4	ENSG00000129071	ENST00000393278	protein_coding	KNOWN	None	6919	789	262	129150329	129158676	-1	None	MED1
1	None	ENSG00000235549	ENST00000428233	processed_pseudogene	KNOWN	None	None	None	None	39423947	39424597	-1	None	None
22	NPTXR	ENSG00000221890	ENST00000333039	protein_coding	KNOWN	CCDS33647	7954	1503	500	39214457	39239987	-1	None	None
1	None	ENSG00000226675	ENST00000430618	processed_pseudogene	KNOWN	None	None	None	None	148598464	148598976	-1	None	None
2	None	ENSG00000270820	ENST00000603652	antisense	KNOWN	None	None	None	None	61698323	61709855	1	None	None
2	None	ENSG00000270820	ENST00000603028	antisense	KNOWN	None	None	None	None	61698491	61710061	1	None	None
2	None	ENSG00000270820	ENST00000603199	antisense	KNOWN	None	None	None	None	61698515	61707545	1	None	None
2	None	ENSG00000270820	ENST00000578974	antisense	KNOWN	None	None	None	None	61698590	61711265	1	None	None
2	None	ENSG00000270820	ENST00000605437	antisense	KNOWN	None	None	None	None	61710508	61711076	1	None	None
3	None	ENSG00000271835	ENST00000606942	lincRNA	KNOWN	None	None	None	None	37026534	37026975	-1	None	None
20	NXT1	ENSG00000132661	ENST00000254998	protein_coding	KNOWN	CCDS13150	15913	423	140	23331373	23335414	1	None	P15, MTR2
1	RNVU1-15	ENSG00000207205	ENST00000384476	snRNA	KNOWN	None	48320	None	None	148604908	148605072	-1	None	vU1.15, RNU1-66
3	None	ENSG00000272127	ENST00000607164	lincRNA	KNOWN	None	None	None	None	37027357	37028273	-1	None	None
19	C5AR2	ENSG00000134830	ENST00000595464	protein_coding	KNOWN	CCDS12699	4527	1014	337	47835404	47846606	1	GPR77	C5L2
19	C5AR2	ENSG00000134830	ENST00000600626	protein_coding	KNOWN	CCDS12699	4527	1014	337	47840371	47845272	1	GPR77	C5L2
19	C5AR2	ENSG00000134830	ENST00000257267	protein_coding	KNOWN	CCDS12699	4527	1014	337	47844040	47845272	1	GPR77	C5L2
17	None	ENSG00000262067	ENST00000571520	processed_pseudogene	KNOWN	None	None	None	None	6962253	6962523	1	None	None
X	ITM2A	ENSG00000078596	ENST00000373298	protein_coding	KNOWN	CCDS14444	6173	792	263	78615881	78622856	-1	None	BRICD2A, E25A
X	ITM2A	ENSG00000078596	ENST00000469541	processed_transcript	KNOWN	None	6173	None	None	78616459	78622424	-1	None	BRICD2A, E25A
X	ITM2A	ENSG00000078596	ENST00000482194	processed_transcript	KNOWN	None	6173	None	None	78618078	78622815	-1	None	BRICD2A, E25A
X	ITM2A	ENSG00000078596	ENST00000462038	processed_transcript	KNOWN	None	6173	None	None	78618609	78619053	-1	None	BRICD2A, E25A
X	ITM2A	ENSG00000078596	ENST00000461357	processed_transcript	KNOWN	None	6173	None	None	78622601	78623164	-1	None	BRICD2A, E25A
X	ITM2A	ENSG00000078596	ENST00000434584	protein_coding	KNOWN	CCDS55455	6173	660	219	78615885	78623049	-1	None	BRICD2A, E25A
1	None	ENSG00000271439	ENST00000605374	processed_pseudogene	KNOWN	None	None	None	None	148616292	148616578	1	None	None
1	None	ENSG00000150732	ENST00000403060	processed_pseudogene	KNOWN	None	None	None	None	188036429	188036656	-1	None	None
HG79_PATCH	RPL7A	ENSG00000260501	ENST00000564892	protein_coding	KNOWN	None	10364	801	266	136223749	136226961	1	None	SURF3, TRUP, L7A
HG79_PATCH	RPL7A	ENSG00000260501	ENST00000564301	processed_transcript	KNOWN	None	10364	None	None	136223753	136226230	1	None	SURF3, TRUP, L7A
HG79_PATCH	RPL7A	ENSG00000260501	ENST00000563801	processed_transcript	KNOWN	None	10364	None	None	136223753	136226961	1	None	SURF3, TRUP, L7A
HG79_PATCH	RPL7A	ENSG00000260501	ENST00000563769	protein_coding	KNOWN	None	10364	575	190	136223787	136225853	1	None	SURF3, TRUP, L7A
HG79_PATCH	RPL7A	ENSG00000260501	ENST00000563814	processed_transcript	KNOWN	None	10364	None	None	136223787	136226907	1	None	SURF3, TRUP, L7A
HG79_PATCH	RPL7A	ENSG00000260501	ENST00000563398	processed_transcript	KNOWN	None	10364	None	None	136224457	136225918	1	None	SURF3, TRUP, L7A
HG79_PATCH	RPL7A	ENSG00000260501	ENST00000569194	protein_coding	KNOWN	None	10364	456	151	136224457	136226961	1	None	SURF3, TRUP, L7A
HG79_PATCH	RPL7A	ENSG00000260501	ENST00000564081	processed_transcript	KNOWN	None	10364	None	None	136224472	136226920	1	None	SURF3, TRUP, L7A
HG79_PATCH	RPL7A	ENSG00000260501	ENST00000567864	processed_transcript	KNOWN	None	10364	None	None	136226385	136226948	1	None	SURF3, TRUP, L7A
1	None	ENSG00000231979	ENST00000430542	lincRNA	KNOWN	None	None	None	None	240078739	240080255	-1	None	None
3	None	ENSG00000244571	ENST00000494693	processed_pseudogene	KNOWN	None	None	None	None	162833217	162833974	1	None	None
12	SNORA2A	ENSG00000206612	ENST00000383885	snoRNA	KNOWN	None	32584	None	None	49050431	49050565	-1	None	ACA2A
7	None	ENSG00000238587	ENST00000459484	snoRNA	NOVEL	None	None	None	None	87253473	87253574	1	None	None
1	None	ENSG00000215805	ENST00000400943	processed_pseudogene	KNOWN	None	None	None	None	240136087	240137545	1	None	None
1	PPIAL4E	ENSG00000231267	ENST00000427485	processed_pseudogene	KNOWN	None	33997	None	None	148644086	148644574	1	None	None
1	PPIAL4E	ENSG00000231267	ENST00000538306	processed_pseudogene	KNOWN	None	33997	None	None	148644011	148644795	1	None	None
15	None	ENSG00000259761	ENST00000560803	lincRNA	KNOWN	None	None	None	None	87585285	87590392	1	None	None
12	None	ENSG00000256325	ENST00000544710	antisense	KNOWN	None	None	None	None	69221898	69222333	1	None	None
11	None	ENSG00000228286	ENST00000542775	processed_pseudogene	KNOWN	None	None	None	None	71960900	71962332	-1	None	None
11	None	ENSG00000228286	ENST00000441510	processed_pseudogene	KNOWN	None	None	None	None	71961617	71961916	-1	None	None
11	None	ENSG00000260629	ENST00000564523	sense_overlapping	KNOWN	None	None	None	None	5265784	5266777	-1	None	None
7	None	ENSG00000254003	ENST00000520993	antisense	KNOWN	None	None	None	None	87845975	87848541	1	None	None
11	None	ENSG00000254907	ENST00000526220	antisense	KNOWN	None	None	None	None	43350298	43380846	-1	None	None
17	RPL7AP64	ENSG00000213876	ENST00000483947	processed_pseudogene	KNOWN	None	35821	None	None	7044249	7044911	1	None	None
2	PPM1G	ENSG00000115241	ENST00000344034	protein_coding	KNOWN	CCDS1752	9278	1641	546	27604061	27632554	-1	None	PP2CG, PP2Cgamma
2	PPM1G	ENSG00000115241	ENST00000472077	retained_intron	KNOWN	None	9278	None	None	27604062	27632422	-1	None	PP2CG, PP2Cgamma
2	PPM1G	ENSG00000115241	ENST00000484925	retained_intron	KNOWN	None	9278	None	None	27609463	27632442	-1	None	PP2CG, PP2Cgamma
2	PPM1G	ENSG00000115241	ENST00000350803	protein_coding	KNOWN	CCDS1752	9278	1641	546	27604068	27632449	-1	None	PP2CG, PP2Cgamma
15	None	ENSG00000259560	ENST00000560439	lincRNA	KNOWN	None	None	None	None	87975289	88247083	-1	None	None
1	RN7SKP156	ENSG00000222240	ENST00000410308	misc_RNA	KNOWN	None	45880	None	None	188124970	188125311	-1	None	None
4	TLR3	ENSG00000164342	ENST00000296795	protein_coding	KNOWN	CCDS3846	11849	2715	904	186990306	187006255	1	None	CD283
4	TLR3	ENSG00000164342	ENST00000513189	protein_coding	NOVEL	None	11849	1055	350	186990309	187004087	1	None	CD283
4	TLR3	ENSG00000164342	ENST00000512264	retained_intron	KNOWN	None	11849	None	None	187002765	187006178	1	None	CD283
4	TLR3	ENSG00000164342	ENST00000504367	protein_coding	PUTATIVE	None	11849	1884	627	187002771	187006043	1	None	CD283
4	TLR3	ENSG00000164342	ENST00000508051	processed_transcript	PUTATIVE	None	11849	None	None	187002773	187003871	1	None	CD283
3	None	ENSG00000240095	ENST00000494509	lincRNA	KNOWN	None	None	None	None	145679542	145681410	1	None	None
1	RNU6-608P	ENSG00000206654	ENST00000383927	snRNA	KNOWN	None	47571	None	None	39586612	39586715	-1	None	None
1	None	ENSG00000261182	ENST00000569873	lincRNA	KNOWN	None	None	None	None	188187531	188189807	1	None	None
12	None	ENSG00000257084	ENST00000537269	lincRNA	KNOWN	None	None	None	None	7072409	7073610	1	None	None
17	TTYH2	ENSG00000141540	ENST00000269346	protein_coding	KNOWN	CCDS32717	13877	1605	534	72209653	72258155	1	None	C17orf29
17	TTYH2	ENSG00000141540	ENST00000529107	protein_coding	PUTATIVE	None	13877	1542	513	72211755	72256790	1	None	C17orf29
17	TTYH2	ENSG00000141540	ENST00000578825	retained_intron	KNOWN	None	13877	None	None	72218783	72240212	1	None	C17orf29
17	TTYH2	ENSG00000141540	ENST00000534346	processed_transcript	KNOWN	None	13877	None	None	72236939	72246153	1	None	C17orf29
17	TTYH2	ENSG00000141540	ENST00000528128	nonsense_mediated_decay	KNOWN	None	13877	415	137	72239513	72248427	1	None	C17orf29
17	TTYH2	ENSG00000141540	ENST00000441391	protein_coding	KNOWN	CCDS45770	13877	642	213	72244097	72258155	1	None	C17orf29
17	TTYH2	ENSG00000141540	ENST00000528152	retained_intron	KNOWN	None	13877	None	None	72245463	72249385	1	None	C17orf29
17	TTYH2	ENSG00000141540	ENST00000534039	retained_intron	KNOWN	None	13877	None	None	72245504	72246869	1	None	C17orf29
17	TTYH2	ENSG00000141540	ENST00000526858	nonsense_mediated_decay	KNOWN	None	13877	414	137	72246096	72256345	1	None	C17orf29
4	None	ENSG00000249771	ENST00000510772	lincRNA	KNOWN	None	None	None	None	41885077	41896596	-1	None	None
1	RNA5SP44	ENSG00000222378	ENST00000410446	rRNA	KNOWN	None	42820	None	None	39619836	39619968	-1	RN5S44	None
2	None	ENSG00000266768	ENST00000578597	miRNA	NOVEL	None	None	None	None	61782495	61782593	1	None	None
17	MIR324	ENSG00000199053	ENST00000362183	miRNA	KNOWN	None	31767	None	None	7126616	7126698	-1	MIRN324	hsa-mir-324
8	MIR30B	ENSG00000207582	ENST00000384850	miRNA	KNOWN	None	31625	None	None	135812763	135812850	-1	MIRN30B	hsa-mir-30b
1	PEX10	ENSG00000157911	ENST00000288774	protein_coding	KNOWN	CCDS41	8851	1041	346	2336236	2343969	-1	None	RNF69
1	PEX10	ENSG00000157911	ENST00000447513	protein_coding	KNOWN	CCDS44045	8851	981	326	2336258	2344010	-1	None	RNF69
1	PEX10	ENSG00000157911	ENST00000507596	protein_coding	NOVEL	None	8851	975	324	2336277	2343979	-1	None	RNF69
1	PEX10	ENSG00000157911	ENST00000510434	nonsense_mediated_decay	KNOWN	None	8851	630	209	2337957	2343974	-1	None	RNF69
1	PEX10	ENSG00000157911	ENST00000508384	protein_coding	PUTATIVE	None	8851	90	29	2339969	2345236	-1	None	RNF69
1	PEX10	ENSG00000157911	ENST00000515760	processed_transcript	KNOWN	None	8851	None	None	2340022	2341443	-1	None	RNF69
1	PEX10	ENSG00000157911	ENST00000502666	nonsense_mediated_decay	KNOWN	None	8851	78	25	2340043	2342275	-1	None	RNF69
1	PEX10	ENSG00000157911	ENST00000504111	processed_transcript	KNOWN	None	8851	None	None	2340074	2342312	-1	None	RNF69
1	PEX10	ENSG00000157911	ENST00000514502	nonsense_mediated_decay	KNOWN	None	8851	222	73	2340194	2343953	-1	None	RNF69
12	None	ENSG00000257181	ENST00000553141	processed_transcript	PUTATIVE	None	None	None	None	69235068	69237017	-1	None	None
1	None	ENSG00000224278	ENST00000447592	processed_pseudogene	KNOWN	None	None	None	None	188211270	188211809	-1	None	None
1	PFN1P6	ENSG00000237533	ENST00000457353	processed_pseudogene	KNOWN	None	42988	None	None	148736689	148737087	-1	None	None
1	RPS7P5	ENSG00000217327	ENST00000441482	processed_pseudogene	KNOWN	None	37037	None	None	240175946	240176526	1	None	None
1	None	ENSG00000270040	ENST00000602528	sense_intronic	KNOWN	None	None	None	None	39672184	39672629	1	None	None
11	None	ENSG00000213287	ENST00000528959	processed_pseudogene	KNOWN	None	None	None	None	86969893	86970301	-1	None	None
2	None	ENSG00000271243	ENST00000603988	processed_pseudogene	KNOWN	None	None	None	None	61802909	61803529	1	None	None
17	None	ENSG00000202251	ENST00000365381	misc_RNA	NOVEL	None	None	None	None	7169374	7169485	-1	None	None
15	RNU6-185P	ENSG00000207150	ENST00000384421	snRNA	KNOWN	None	47148	None	None	88017414	88017520	-1	None	None
1	None	ENSG00000226438	ENST00000289890	antisense	KNOWN	None	None	None	None	39715510	39723321	-1	None	None
17	None	ENSG00000263342	ENST00000576271	antisense	KNOWN	None	None	None	None	7186266	7187390	-1	None	None
1	None	ENSG00000232622	ENST00000418010	processed_pseudogene	KNOWN	None	None	None	None	85101841	85102789	-1	None	None
13	None	ENSG00000232225	ENST00000415193	lincRNA	KNOWN	None	None	None	None	89867101	89889144	-1	None	None
13	None	ENSG00000232225	ENST00000445027	lincRNA	KNOWN	None	None	None	None	89867150	89872813	-1	None	None
16	None	ENSG00000260577	ENST00000562172	antisense	KNOWN	None	None	None	None	68679283	68680071	-1	None	None
3	None	ENSG00000261051	ENST00000567714	sense_overlapping	KNOWN	None	None	None	None	145777372	145779466	-1	None	None
7	None	ENSG00000228113	ENST00000594469	antisense	KNOWN	None	None	None	None	87848674	87906518	1	None	None
7	None	ENSG00000228113	ENST00000447058	antisense	KNOWN	None	None	None	None	87858974	87861089	1	None	None
7	None	ENSG00000228113	ENST00000591739	antisense	KNOWN	None	None	None	None	87860889	87870751	1	None	None
7	None	ENSG00000228113	ENST00000447758	antisense	KNOWN	None	None	None	None	87861326	87921775	1	None	None
7	None	ENSG00000228113	ENST00000595121	antisense	KNOWN	None	None	None	None	87873088	87921648	1	None	None
7	None	ENSG00000228113	ENST00000600908	antisense	KNOWN	None	None	None	None	87873100	87921667	1	None	None
7	None	ENSG00000228113	ENST00000434733	antisense	KNOWN	None	None	None	None	87906316	87921781	1	None	None
15	LINC00052	ENSG00000259527	ENST00000560153	lincRNA	KNOWN	None	26455	None	None	88120160	88122917	1	TMEM83, NCRNA00052	FLJ31461
11	OR51AB1P	ENSG00000229093	ENST00000429046	unprocessed_pseudogene	KNOWN	None	31278	None	None	5312991	5313610	-1	None	None
3	None	ENSG00000252435	ENST00000516626	snoRNA	NOVEL	None	None	None	None	128792139	128792241	1	None	None
1	None	ENSG00000237343	ENST00000455105	lincRNA	KNOWN	None	None	None	None	148760504	148761583	1	None	None
2	None	ENSG00000226884	ENST00000439197	processed_pseudogene	KNOWN	None	None	None	None	61816633	61816798	-1	None	None
17	None	ENSG00000224647	ENST00000429771	unitary_pseudogene	KNOWN	None	None	None	None	7233771	7238732	1	None	None
16	None	ENSG00000260860	ENST00000562089	processed_pseudogene	KNOWN	None	None	None	None	68684959	68685851	-1	None	None
1	None	ENSG00000217897	ENST00000406997	processed_pseudogene	KNOWN	None	None	None	None	39769966	39770570	-1	None	None
1	None	ENSG00000228818	ENST00000451892	processed_pseudogene	KNOWN	None	None	None	None	240305970	240308689	-1	None	None
3	None	ENSG00000238874	ENST00000459112	snoRNA	NOVEL	None	None	None	None	128792938	128793045	1	None	None
12	None	ENSG00000266347	ENST00000585304	miRNA	KNOWN	None	None	None	None	89986604	89986704	1	None	None
8	MIR30D	ENSG00000199153	ENST00000362283	miRNA	KNOWN	None	31628	None	None	135817119	135817188	-1	MIRN30D	hsa-mir-30d
1	OR14K1	ENSG00000153230	ENST00000283225	protein_coding	KNOWN	None	15025	945	314	247901917	247902861	1	OR5AY1	None
11	None	ENSG00000270510	ENST00000603803	processed_pseudogene	KNOWN	None	None	None	None	87034751	87035401	-1	None	None
3	RPS27P12	ENSG00000241673	ENST00000464146	processed_pseudogene	KNOWN	None	35843	None	None	128936936	128937193	-1	None	None
1	None	ENSG00000233586	ENST00000432512	processed_pseudogene	KNOWN	None	None	None	None	148760506	148761018	-1	None	None
8	None	ENSG00000254028	ENST00000521444	lincRNA	KNOWN	None	None	None	None	135844990	135846725	1	None	None
17	None	ENSG00000263171	ENST00000572417	antisense	KNOWN	None	None	None	None	7256006	7258263	-1	None	None
12	None	ENSG00000256664	ENST00000537570	processed_pseudogene	KNOWN	None	None	None	None	69235726	69236164	1	None	None
X	ASS1P5	ENSG00000227881	ENST00000435496	processed_pseudogene	KNOWN	None	768	None	None	114899215	114900453	1	ASSP5	None
16	None	ENSG00000261395	ENST00000561489	transcribed_processed_pseudogene	KNOWN	None	None	None	None	68720302	68720573	1	None	None
X	FHL1	ENSG00000022267	ENST00000370690	protein_coding	KNOWN	CCDS14655	3702	843	280	135229624	135293518	1	None	SLIM1, KYO-T, bA535K18.1, FHL1B, XMPMA, FLH1A, MGC111107
X	FHL1	ENSG00000022267	ENST00000420362	protein_coding	KNOWN	None	3702	613	203	135229825	135290725	1	None	SLIM1, KYO-T, bA535K18.1, FHL1B, XMPMA, FLH1A, MGC111107
X	FHL1	ENSG00000022267	ENST00000458357	protein_coding	KNOWN	None	3702	465	154	135230270	135290084	1	None	SLIM1, KYO-T, bA535K18.1, FHL1B, XMPMA, FLH1A, MGC111107
X	FHL1	ENSG00000022267	ENST00000452016	protein_coding	KNOWN	None	3702	622	206	135249163	135290734	1	None	SLIM1, KYO-T, bA535K18.1, FHL1B, XMPMA, FLH1A, MGC111107
X	FHL1	ENSG00000022267	ENST00000434885	protein_coding	KNOWN	None	3702	622	206	135250353	135290734	1	None	SLIM1, KYO-T, bA535K18.1, FHL1B, XMPMA, FLH1A, MGC111107
X	FHL1	ENSG00000022267	ENST00000456445	protein_coding	KNOWN	None	3702	617	204	135251835	135290729	1	None	SLIM1, KYO-T, bA535K18.1, FHL1B, XMPMA, FLH1A, MGC111107
X	FHL1	ENSG00000022267	ENST00000449474	protein_coding	KNOWN	None	3702	423	140	135252050	135290042	1	None	SLIM1, KYO-T, bA535K18.1, FHL1B, XMPMA, FLH1A, MGC111107
X	FHL1	ENSG00000022267	ENST00000345434	protein_coding	KNOWN	CCDS55507	3702	972	323	135252085	135293518	1	None	SLIM1, KYO-T, bA535K18.1, FHL1B, XMPMA, FLH1A, MGC111107
X	FHL1	ENSG00000022267	ENST00000370683	protein_coding	KNOWN	CCDS55506	3702	891	296	135278932	135293518	1	None	SLIM1, KYO-T, bA535K18.1, FHL1B, XMPMA, FLH1A, MGC111107
X	FHL1	ENSG00000022267	ENST00000370676	protein_coding	KNOWN	None	3702	633	210	135279185	135292226	1	None	SLIM1, KYO-T, bA535K18.1, FHL1B, XMPMA, FLH1A, MGC111107
X	FHL1	ENSG00000022267	ENST00000477204	processed_transcript	KNOWN	None	3702	None	None	135279222	135289710	1	None	SLIM1, KYO-T, bA535K18.1, FHL1B, XMPMA, FLH1A, MGC111107
X	FHL1	ENSG00000022267	ENST00000370674	protein_coding	KNOWN	None	3702	772	256	135286880	135292113	1	None	SLIM1, KYO-T, bA535K18.1, FHL1B, XMPMA, FLH1A, MGC111107
X	FHL1	ENSG00000022267	ENST00000477080	processed_transcript	KNOWN	None	3702	None	None	135287068	135289820	1	None	SLIM1, KYO-T, bA535K18.1, FHL1B, XMPMA, FLH1A, MGC111107
X	FHL1	ENSG00000022267	ENST00000539015	protein_coding	KNOWN	CCDS55505	3702	930	309	135278913	135293518	1	None	SLIM1, KYO-T, bA535K18.1, FHL1B, XMPMA, FLH1A, MGC111107
X	FHL1	ENSG00000022267	ENST00000535737	protein_coding	KNOWN	CCDS14655	3702	843	280	135230737	135293518	1	None	SLIM1, KYO-T, bA535K18.1, FHL1B, XMPMA, FLH1A, MGC111107
X	FHL1	ENSG00000022267	ENST00000543669	protein_coding	KNOWN	CCDS14655	3702	843	280	135251455	135293518	1	None	SLIM1, KYO-T, bA535K18.1, FHL1B, XMPMA, FLH1A, MGC111107
X	FHL1	ENSG00000022267	ENST00000394153	protein_coding	KNOWN	CCDS14655	3702	843	280	135251796	135293518	1	None	SLIM1, KYO-T, bA535K18.1, FHL1B, XMPMA, FLH1A, MGC111107
X	FHL1	ENSG00000022267	ENST00000394155	protein_coding	KNOWN	CCDS55507	3702	972	323	135229559	135293518	1	None	SLIM1, KYO-T, bA535K18.1, FHL1B, XMPMA, FLH1A, MGC111107
1	RNVU1-16	ENSG00000206968	ENST00000384241	snRNA	KNOWN	None	48321	None	None	148766938	148767102	-1	None	vU1.16, RNU1-121
17	None	ENSG00000266371	ENST00000584382	sense_intronic	KNOWN	None	None	None	None	29460200	29465536	1	None	None
17	ERN1	ENSG00000178607	ENST00000433197	protein_coding	KNOWN	CCDS45762	3449	2934	977	62120353	62207485	-1	None	IRE1, IRE1P
17	ERN1	ENSG00000178607	ENST00000583077	retained_intron	KNOWN	None	3449	None	None	62131327	62132127	-1	None	IRE1, IRE1P
17	ERN1	ENSG00000178607	ENST00000583896	retained_intron	KNOWN	None	3449	None	None	62137936	62144344	-1	None	IRE1, IRE1P
17	ERN1	ENSG00000178607	ENST00000579249	retained_intron	KNOWN	None	3449	None	None	62145220	62149456	-1	None	IRE1, IRE1P
17	ERN1	ENSG00000178607	ENST00000577567	processed_transcript	KNOWN	None	3449	None	None	62145597	62157834	-1	None	IRE1, IRE1P
17	ERN1	ENSG00000178607	ENST00000584041	retained_intron	KNOWN	None	3449	None	None	62152437	62207502	-1	None	IRE1, IRE1P
17	ERN1	ENSG00000178607	ENST00000583028	retained_intron	KNOWN	None	3449	None	None	62175248	62207504	-1	None	IRE1, IRE1P
17	ERN1	ENSG00000178607	ENST00000606895	protein_coding	PUTATIVE	None	3449	213	70	62206112	62208179	-1	None	IRE1, IRE1P
1	None	ENSG00000225006	ENST00000426262	lincRNA	KNOWN	None	None	None	None	188477669	188505596	1	None	None
15	MED28P6	ENSG00000259183	ENST00000558776	processed_pseudogene	KNOWN	None	45083	None	None	88687166	88687396	-1	None	None
13	TRIM60P13	ENSG00000227247	ENST00000432350	processed_pseudogene	KNOWN	None	38485	None	None	89901072	89902354	-1	None	None
1	None	ENSG00000202041	ENST00000365171	misc_RNA	NOVEL	None	None	None	None	240317951	240318072	-1	None	None
1	None	ENSG00000270239	ENST00000605072	processed_pseudogene	KNOWN	None	None	None	None	148778320	148778606	1	None	None
1	CROCC	ENSG00000058453	ENST00000466256	processed_transcript	KNOWN	None	21299	None	None	17066768	17267929	1	None	rootletin, ROLT
1	CROCC	ENSG00000058453	ENST00000375541	protein_coding	KNOWN	CCDS30616	21299	6054	2017	17248445	17299474	1	None	rootletin, ROLT
1	CROCC	ENSG00000058453	ENST00000445545	protein_coding	NOVEL	None	21299	3931	1309	17249250	17287573	1	None	rootletin, ROLT
1	CROCC	ENSG00000058453	ENST00000467938	processed_transcript	KNOWN	None	21299	None	None	17249262	17280857	1	None	rootletin, ROLT
1	CROCC	ENSG00000058453	ENST00000492631	processed_transcript	KNOWN	None	21299	None	None	17256630	17272900	1	None	rootletin, ROLT
1	CROCC	ENSG00000058453	ENST00000467715	processed_transcript	KNOWN	None	21299	None	None	17263286	17266588	1	None	rootletin, ROLT
1	CROCC	ENSG00000058453	ENST00000494191	retained_intron	KNOWN	None	21299	None	None	17265404	17280852	1	None	rootletin, ROLT
1	CROCC	ENSG00000058453	ENST00000486318	processed_transcript	KNOWN	None	21299	None	None	17270620	17278450	1	None	rootletin, ROLT
1	CROCC	ENSG00000058453	ENST00000498688	processed_transcript	KNOWN	None	21299	None	None	17273362	17279710	1	None	rootletin, ROLT
1	CROCC	ENSG00000058453	ENST00000477773	processed_transcript	KNOWN	None	21299	None	None	17274886	17277833	1	None	rootletin, ROLT
1	CROCC	ENSG00000058453	ENST00000497654	retained_intron	KNOWN	None	21299	None	None	17279652	17281276	1	None	rootletin, ROLT
1	CROCC	ENSG00000058453	ENST00000465021	processed_transcript	KNOWN	None	21299	None	None	17292523	17297237	1	None	rootletin, ROLT
1	CROCC	ENSG00000058453	ENST00000465291	processed_transcript	KNOWN	None	21299	None	None	17296280	17297462	1	None	rootletin, ROLT
17	AK4P1	ENSG00000263535	ENST00000581275	processed_pseudogene	KNOWN	None	364	None	None	29672539	29673205	1	AK3P1	None
13	LINC00440	ENSG00000234660	ENST00000446579	lincRNA	KNOWN	None	42777	None	None	89925457	89932494	1	None	None
15	NTRK3-AS1	ENSG00000260305	ENST00000569588	lincRNA	KNOWN	None	27532	None	None	88795961	88814297	1	None	None
13	PDX1-AS1	ENSG00000247381	ENST00000499662	antisense	KNOWN	None	43698	None	None	28407581	28495541	-1	None	None
2	RNU6-1145P	ENSG00000206973	ENST00000384246	snRNA	KNOWN	None	48108	None	None	61832751	61832857	1	None	None
1	ADH5P3	ENSG00000223694	ENST00000433842	processed_pseudogene	KNOWN	None	22991	None	None	240333455	240334591	1	None	None
12	LINC00936	ENSG00000271614	ENST00000605386	lincRNA	KNOWN	None	27883	None	None	90102736	90106367	1	None	None
11	None	ENSG00000254958	ENST00000527650	processed_pseudogene	KNOWN	None	None	None	None	103273944	103274150	-1	None	None
11	CRY2	ENSG00000121671	ENST00000417225	protein_coding	KNOWN	CCDS44576	2385	1599	532	45868669	45902784	1	None	None
11	CRY2	ENSG00000121671	ENST00000443527	protein_coding	KNOWN	CCDS7915	2385	1845	614	45868957	45904798	1	None	None
11	CRY2	ENSG00000121671	ENST00000496571	retained_intron	KNOWN	None	2385	None	None	45869029	45877867	1	None	None
11	CRY2	ENSG00000121671	ENST00000532390	processed_transcript	KNOWN	None	2385	None	None	45869029	45882505	1	None	None
11	CRY2	ENSG00000121671	ENST00000473199	processed_transcript	KNOWN	None	2385	None	None	45869029	45883666	1	None	None
11	CRY2	ENSG00000121671	ENST00000533779	processed_transcript	KNOWN	None	2385	None	None	45879826	45883699	1	None	None
11	CRY2	ENSG00000121671	ENST00000525110	retained_intron	KNOWN	None	2385	None	None	45882531	45889491	1	None	None
11	CRY2	ENSG00000121671	ENST00000495237	retained_intron	KNOWN	None	2385	None	None	45882713	45891222	1	None	None
11	CRY2	ENSG00000121671	ENST00000496667	retained_intron	KNOWN	None	2385	None	None	45888979	45891274	1	None	None
11	CRY2	ENSG00000121671	ENST00000488962	retained_intron	KNOWN	None	2385	None	None	45892164	45902543	1	None	None
1	OXCT2P1	ENSG00000237624	ENST00000447263	unprocessed_pseudogene	KNOWN	None	21627	None	None	39980628	39982162	1	OXCT2P	None
11	None	ENSG00000167355	ENST00000420465	processed_transcript	KNOWN	None	None	None	None	5326206	5526843	-1	None	None
11	None	ENSG00000167355	ENST00000415970	processed_transcript	KNOWN	None	None	None	None	5361768	5526882	-1	None	None
11	None	ENSG00000167355	ENST00000420726	processed_transcript	KNOWN	None	None	None	None	5362397	5526882	-1	None	None
11	None	ENSG00000167355	ENST00000418729	processed_transcript	KNOWN	None	None	None	None	5364172	5526882	-1	None	None
1	PPIAL4F	ENSG00000230582	ENST00000441419	processed_pseudogene	KNOWN	None	33999	None	None	148806093	148806578	1	None	None
1	PPIAL4F	ENSG00000230582	ENST00000541527	processed_pseudogene	KNOWN	None	33999	None	None	148806015	148806799	1	None	None
1	None	ENSG00000235083	ENST00000446368	processed_pseudogene	KNOWN	None	None	None	None	188640484	188640890	1	None	None
6	None	ENSG00000238458	ENST00000459328	snoRNA	NOVEL	None	None	None	None	18402182	18402283	-1	None	None
2	DNAJC5G	ENSG00000163793	ENST00000296097	protein_coding	KNOWN	CCDS1744	24844	570	189	27498289	27504298	1	None	FLJ40417, CSP-gamma
2	DNAJC5G	ENSG00000163793	ENST00000420191	protein_coding	NOVEL	None	24844	187	61	27498301	27501129	1	None	FLJ40417, CSP-gamma
2	DNAJC5G	ENSG00000163793	ENST00000402462	protein_coding	KNOWN	CCDS1744	24844	570	189	27498331	27504298	1	None	FLJ40417, CSP-gamma
2	DNAJC5G	ENSG00000163793	ENST00000404433	protein_coding	NOVEL	None	24844	522	173	27498343	27504298	1	None	FLJ40417, CSP-gamma
2	DNAJC5G	ENSG00000163793	ENST00000406962	protein_coding	NOVEL	None	24844	315	104	27498343	27504367	1	None	FLJ40417, CSP-gamma
2	DNAJC5G	ENSG00000163793	ENST00000460358	retained_intron	KNOWN	None	24844	None	None	27500800	27503585	1	None	FLJ40417, CSP-gamma
17	RN7SL79P	ENSG00000239595	ENST00000484117	misc_RNA	KNOWN	None	46095	None	None	29792561	29792848	1	None	None
2	None	ENSG00000213486	ENST00000456719	processed_pseudogene	KNOWN	None	None	None	None	61937211	61938113	-1	None	None
1	None	ENSG00000251899	ENST00000516090	miRNA	NOVEL	None	None	None	None	85258751	85258882	-1	None	None
8	None	ENSG00000253433	ENST00000519500	lincRNA	KNOWN	None	None	None	None	135850312	135854880	1	None	None
11	BRSK2	ENSG00000174672	ENST00000308219	protein_coding	KNOWN	CCDS41590	11405	2007	668	1411129	1483915	1	C11orf7, STK29	PEN11B
11	BRSK2	ENSG00000174672	ENST00000529433	nonsense_mediated_decay	KNOWN	CCDS58106	11405	2025	674	1411131	1482944	1	C11orf7, STK29	PEN11B
11	BRSK2	ENSG00000174672	ENST00000528841	protein_coding	KNOWN	CCDS58107	11405	2211	736	1411131	1482944	1	C11orf7, STK29	PEN11B
11	BRSK2	ENSG00000174672	ENST00000531197	protein_coding	KNOWN	CCDS58106	11405	2025	674	1411131	1482944	1	C11orf7, STK29	PEN11B
11	BRSK2	ENSG00000174672	ENST00000526678	protein_coding	KNOWN	None	11405	2091	696	1411515	1478270	1	C11orf7, STK29	PEN11B
11	BRSK2	ENSG00000174672	ENST00000528596	protein_coding	PUTATIVE	None	11405	260	85	1430630	1463746	1	C11orf7, STK29	PEN11B
11	BRSK2	ENSG00000174672	ENST00000524702	protein_coding	PUTATIVE	None	11405	390	129	1430989	1464570	1	C11orf7, STK29	PEN11B
11	BRSK2	ENSG00000174672	ENST00000528710	protein_coding	PUTATIVE	None	11405	1845	614	1431673	1483320	1	C11orf7, STK29	PEN11B
11	BRSK2	ENSG00000174672	ENST00000382179	protein_coding	KNOWN	CCDS58108	11405	2301	766	1432382	1482975	1	C11orf7, STK29	PEN11B
11	BRSK2	ENSG00000174672	ENST00000529951	nonsense_mediated_decay	KNOWN	None	11405	512	169	1462029	1482366	1	C11orf7, STK29	PEN11B
11	BRSK2	ENSG00000174672	ENST00000531078	retained_intron	KNOWN	None	11405	None	None	1463675	1466823	1	C11orf7, STK29	PEN11B
11	BRSK2	ENSG00000174672	ENST00000533606	protein_coding	PUTATIVE	None	11405	601	199	1471915	1483919	1	C11orf7, STK29	PEN11B
11	BRSK2	ENSG00000174672	ENST00000526768	retained_intron	KNOWN	None	11405	None	None	1475068	1482970	1	C11orf7, STK29	PEN11B
11	BRSK2	ENSG00000174672	ENST00000531932	retained_intron	KNOWN	None	11405	None	None	1475657	1480677	1	C11orf7, STK29	PEN11B
11	BRSK2	ENSG00000174672	ENST00000308230	protein_coding	KNOWN	None	11405	2091	696	1411131	1482944	1	C11orf7, STK29	PEN11B
11	BRSK2	ENSG00000174672	ENST00000544817	protein_coding	KNOWN	None	11405	1110	369	1463760	1482366	1	C11orf7, STK29	PEN11B
6	MIR548A1	ENSG00000207775	ENST00000385041	miRNA	KNOWN	None	32796	None	None	18572015	18572111	1	MIRN548A1	hsa-mir-548a-1
3	None	ENSG00000243415	ENST00000491932	antisense	KNOWN	None	None	None	None	145781829	145782909	1	None	None
3	None	ENSG00000243415	ENST00000480247	antisense	KNOWN	None	None	None	None	145781906	145822991	1	None	None
3	None	ENSG00000243415	ENST00000494745	antisense	KNOWN	None	None	None	None	145782680	145786044	1	None	None
17	RN7SL45P	ENSG00000264862	ENST00000578050	misc_RNA	KNOWN	None	46061	None	None	29845450	29845745	1	None	None
14	None	ENSG00000258098	ENST00000552425	lincRNA	KNOWN	None	None	None	None	25593693	25596204	-1	None	None
13	LINC00543	ENSG00000260704	ENST00000567234	lincRNA	KNOWN	None	43678	None	None	28527663	28529507	1	None	None
13	SP3P	ENSG00000225530	ENST00000414049	processed_pseudogene	KNOWN	None	35430	None	None	90013414	90015478	-1	None	None
1	MIR4423	ENSG00000266110	ENST00000580922	miRNA	KNOWN	None	41784	None	None	85599477	85599556	1	None	hsa-mir-4423
10	SFXN3	ENSG00000107819	ENST00000393459	protein_coding	KNOWN	None	16087	966	321	102790991	102800998	1	None	SFX3
10	SFXN3	ENSG00000107819	ENST00000489434	nonsense_mediated_decay	KNOWN	None	16087	534	177	102792237	102796924	1	None	SFX3
10	SFXN3	ENSG00000107819	ENST00000465383	processed_transcript	KNOWN	None	16087	None	None	102795819	102797357	1	None	SFX3
10	SFXN3	ENSG00000107819	ENST00000487721	processed_transcript	KNOWN	None	16087	None	None	102796485	102797766	1	None	SFX3
10	SFXN3	ENSG00000107819	ENST00000466982	processed_transcript	KNOWN	None	16087	None	None	102797149	102800386	1	None	SFX3
10	SFXN3	ENSG00000107819	ENST00000470252	processed_transcript	KNOWN	None	16087	None	None	102797709	102800997	1	None	SFX3
10	SFXN3	ENSG00000107819	ENST00000224807	protein_coding	KNOWN	CCDS7508	16087	978	325	102790996	102800997	1	None	SFX3
17	MIR4724	ENSG00000266459	ENST00000579485	miRNA	KNOWN	None	41590	None	None	29861901	29861989	1	None	hsa-mir-4724
6	None	ENSG00000217379	ENST00000402485	processed_pseudogene	KNOWN	None	None	None	None	19143926	19144391	1	None	None
1	None	ENSG00000223254	ENST00000411322	misc_RNA	NOVEL	None	None	None	None	85729979	85730085	1	None	None
15	None	ENSG00000261598	ENST00000570105	lincRNA	KNOWN	None	None	None	None	24544896	24545785	1	None	None
17	MIR193A	ENSG00000207614	ENST00000384882	miRNA	KNOWN	None	31563	None	None	29887015	29887102	1	MIRN193, MIRN193A	hsa-mir-193, hsa-mir-193a
1	None	ENSG00000235887	ENST00000456469	lincRNA	KNOWN	None	None	None	None	148852393	148853717	1	None	None
8	LGI3	ENSG00000168481	ENST00000306317	protein_coding	KNOWN	CCDS6025	18711	1647	548	22004338	22014345	-1	None	None
8	LGI3	ENSG00000168481	ENST00000424267	protein_coding	NOVEL	None	18711	1575	524	22004343	22014264	-1	None	None
8	LGI3	ENSG00000168481	ENST00000520124	retained_intron	KNOWN	None	18711	None	None	22004343	22014346	-1	None	None
8	LGI3	ENSG00000168481	ENST00000517694	protein_coding	PUTATIVE	None	18711	663	220	22009051	22014597	-1	None	None
8	LGI3	ENSG00000168481	ENST00000518365	nonsense_mediated_decay	KNOWN	None	18711	405	134	22009405	22014190	-1	None	None
1	None	ENSG00000233735	ENST00000412311	antisense	KNOWN	None	None	None	None	240341139	240342944	-1	None	None
1	None	ENSG00000233735	ENST00000444308	antisense	KNOWN	None	None	None	None	240341139	240342944	-1	None	None
22	CBX6	ENSG00000183741	ENST00000407418	protein_coding	KNOWN	CCDS13980	1556	1239	412	39257455	39268319	-1	None	None
22	CBX6	ENSG00000183741	ENST00000216083	protein_coding	NOVEL	None	1556	1185	394	39260234	39268221	-1	None	None
22	CBX6	ENSG00000183741	ENST00000469420	retained_intron	KNOWN	None	1556	None	None	39265577	39268254	-1	None	None
9	RN7SL720P	ENSG00000241152	ENST00000488178	misc_RNA	KNOWN	None	46736	None	None	17053899	17054200	1	None	None
1	None	ENSG00000223653	ENST00000427819	antisense	KNOWN	None	None	None	None	85742398	85865646	1	None	None
1	None	ENSG00000223653	ENST00000426125	antisense	KNOWN	None	None	None	None	85743355	85913807	1	None	None
13	None	ENSG00000226037	ENST00000425048	lincRNA	KNOWN	None	None	None	None	90129862	90152763	-1	None	None
1	None	ENSG00000182109	ENST00000441741	antisense	KNOWN	None	None	None	None	39987952	39990548	-1	None	None
1	None	ENSG00000182109	ENST00000331856	antisense	KNOWN	None	None	None	None	39987952	39991357	-1	None	None
1	None	ENSG00000182109	ENST00000458207	antisense	KNOWN	None	None	None	None	39987952	40002954	-1	None	None
1	None	ENSG00000182109	ENST00000450157	antisense	KNOWN	None	None	None	None	39987952	40007432	-1	None	None
1	None	ENSG00000182109	ENST00000431553	antisense	KNOWN	None	None	None	None	39987952	40007513	-1	None	None
1	None	ENSG00000182109	ENST00000417869	antisense	KNOWN	None	None	None	None	39987952	40011433	-1	None	None
1	None	ENSG00000182109	ENST00000440190	antisense	KNOWN	None	None	None	None	39987952	40011859	-1	None	None
17	RNU6ATAC7P	ENSG00000221038	ENST00000408111	snRNA	KNOWN	None	46906	None	None	29890787	29890913	-1	None	None
1	None	ENSG00000231022	ENST00000417027	processed_pseudogene	KNOWN	None	None	None	None	188663451	188664242	1	None	None
9	None	ENSG00000226470	ENST00000456717	processed_pseudogene	KNOWN	None	None	None	None	17096299	17096444	-1	None	None
14	HMGN2P6	ENSG00000257179	ENST00000551091	processed_pseudogene	KNOWN	None	33574	None	None	25736270	25736542	-1	HMGN2L6	None
13	RN7SL272P	ENSG00000242360	ENST00000487762	misc_RNA	KNOWN	None	46288	None	None	28563435	28563721	-1	None	None
5	None	ENSG00000223442	ENST00000457489	antisense	KNOWN	None	None	None	None	131966281	131977465	-1	None	None
5	None	ENSG00000223442	ENST00000458509	antisense	KNOWN	None	None	None	None	131973740	131991846	-1	None	None
5	None	ENSG00000223442	ENST00000417516	antisense	KNOWN	None	None	None	None	131973742	131991584	-1	None	None
5	None	ENSG00000223442	ENST00000435042	antisense	KNOWN	None	None	None	None	131973768	131999964	-1	None	None
6	RNU1-54P	ENSG00000252990	ENST00000517181	snRNA	KNOWN	None	48396	None	None	39588121	39588240	-1	None	None
8	None	ENSG00000253430	ENST00000522547	sense_intronic	KNOWN	None	None	None	None	26280109	26281445	1	None	None
6	RIPK1	ENSG00000137275	ENST00000479389	processed_transcript	KNOWN	None	10019	None	None	3064225	3106285	1	None	RIP
6	RIPK1	ENSG00000137275	ENST00000259808	protein_coding	KNOWN	CCDS4482	10019	2016	671	3068658	3115419	1	None	RIP
6	RIPK1	ENSG00000137275	ENST00000541791	protein_coding	KNOWN	None	10019	1878	625	3077032	3114802	1	None	RIP
6	RIPK1	ENSG00000137275	ENST00000380409	protein_coding	KNOWN	CCDS4482	10019	2016	671	3077058	3115421	1	None	RIP
11	None	ENSG00000255417	ENST00000532655	processed_pseudogene	KNOWN	None	None	None	None	103274240	103274895	-1	None	None
1	None	ENSG00000223495	ENST00000444165	processed_pseudogene	KNOWN	None	None	None	None	148853803	148854120	-1	None	None
15	None	ENSG00000259732	ENST00000559026	sense_overlapping	KNOWN	None	None	None	None	59413233	59425449	1	None	None
17	MIR4725	ENSG00000265976	ENST00000581700	miRNA	KNOWN	None	41608	None	None	29902288	29902377	1	None	hsa-mir-4725
13	None	ENSG00000271026	ENST00000605192	processed_pseudogene	KNOWN	None	None	None	None	28641724	28642471	1	None	None
13	LINC00353	ENSG00000236176	ENST00000435401	lincRNA	KNOWN	None	42671	None	None	90200945	90206058	-1	None	None
1	OR1C1	ENSG00000221888	ENST00000408896	protein_coding	KNOWN	CCDS41481	8182	945	314	247920676	247921982	-1	None	TPCR27, HSTPCR27
15	None	ENSG00000221096	ENST00000408169	miRNA	NOVEL	None	None	None	None	59443177	59443267	-1	None	None
17	MIR365B	ENSG00000199187	ENST00000362317	miRNA	KNOWN	None	33693	None	None	29902430	29902540	1	MIRN365-2, MIR365-2	hsa-mir-365-2
15	None	ENSG00000271078	ENST00000605648	processed_pseudogene	KNOWN	None	None	None	None	32542503	32548326	-1	None	None
15	None	ENSG00000260760	ENST00000566797	lincRNA	KNOWN	None	None	None	None	24686274	24693114	1	None	None
13	CHCHD2P8	ENSG00000235115	ENST00000429873	processed_pseudogene	KNOWN	None	39592	None	None	28681568	28682014	1	None	None
13	CHCHD2P8	ENSG00000235115	ENST00000420602	processed_pseudogene	KNOWN	None	39592	None	None	28681586	28682014	1	None	None
14	None	ENSG00000258379	ENST00000555889	lincRNA	KNOWN	None	None	None	None	98252902	98255593	-1	None	None
6	None	ENSG00000235033	ENST00000607675	antisense	KNOWN	None	None	None	None	39849580	39856707	-1	None	None
6	None	ENSG00000235033	ENST00000607215	antisense	KNOWN	None	None	None	None	39851292	39854344	-1	None	None
6	None	ENSG00000235033	ENST00000606829	antisense	KNOWN	None	None	None	None	39856346	39865028	-1	None	None
6	None	ENSG00000235033	ENST00000430595	antisense	KNOWN	None	None	None	None	39856566	39865129	-1	None	None
6	None	ENSG00000235033	ENST00000420293	antisense	KNOWN	None	None	None	None	39856650	39865156	-1	None	None
6	None	ENSG00000235033	ENST00000437947	antisense	KNOWN	None	None	None	None	39865116	39867847	-1	None	None
1	None	ENSG00000231448	ENST00000444424	unprocessed_pseudogene	KNOWN	None	None	None	None	148854138	148891740	1	None	None
9	None	ENSG00000237083	ENST00000435405	processed_pseudogene	KNOWN	None	None	None	None	17108302	17108602	-1	None	None
1	None	ENSG00000252317	ENST00000516508	misc_RNA	NOVEL	None	None	None	None	240504685	240504777	1	None	None
13	None	ENSG00000271395	ENST00000434117	lincRNA	KNOWN	None	None	None	None	90203487	90204643	1	None	None
17	None	ENSG00000266877	ENST00000578650	lincRNA	KNOWN	None	None	None	None	29910181	29964562	1	None	None
1	None	ENSG00000264380	ENST00000584375	miRNA	NOVEL	None	None	None	None	85750293	85750356	1	None	None
15	MIR2116	ENSG00000253030	ENST00000517221	miRNA	KNOWN	None	37310	None	None	59463382	59463461	-1	None	hsa-mir-2116
1	None	ENSG00000233519	ENST00000455599	antisense	KNOWN	None	None	None	None	240563971	240564423	-1	None	None
22	RNU6-1219P	ENSG00000251952	ENST00000516143	snRNA	KNOWN	None	48182	None	None	29587685	29587796	-1	None	None
1	None	ENSG00000199459	ENST00000362589	misc_RNA	NOVEL	None	None	None	None	85900858	85900967	-1	None	None
Y	TTTY7B	ENSG00000147761	ENST00000447655	lincRNA	KNOWN	None	37463	None	None	9544433	9548434	-1	None	NCRNA00215
Y	TTTY7B	ENSG00000147761	ENST00000276779	lincRNA	KNOWN	None	37463	None	None	9544433	9552871	-1	None	NCRNA00215
Y	TTTY7B	ENSG00000147761	ENST00000415405	lincRNA	KNOWN	None	37463	None	None	9544433	9552871	-1	None	NCRNA00215
13	RPL7L1P1	ENSG00000234227	ENST00000448259	processed_pseudogene	KNOWN	None	39455	None	None	90485411	90486195	-1	None	None
17	None	ENSG00000266448	ENST00000578645	processed_pseudogene	KNOWN	None	None	None	None	30036587	30036878	1	None	None
2	SUCLG1	ENSG00000163541	ENST00000393868	protein_coding	KNOWN	CCDS1967	11449	1041	346	84650647	84686604	-1	None	None
2	SUCLG1	ENSG00000163541	ENST00000484365	retained_intron	KNOWN	None	11449	None	None	84650654	84654060	-1	None	None
2	SUCLG1	ENSG00000163541	ENST00000491123	processed_transcript	KNOWN	None	11449	None	None	84650684	84659960	-1	None	None
2	SUCLG1	ENSG00000163541	ENST00000487809	retained_intron	KNOWN	None	11449	None	None	84652538	84660895	-1	None	None
2	SUCLG1	ENSG00000163541	ENST00000488234	processed_transcript	KNOWN	None	11449	None	None	84660331	84668216	-1	None	None
2	SUCLG1	ENSG00000163541	ENST00000483605	processed_transcript	KNOWN	None	11449	None	None	84668184	84686360	-1	None	None
2	SUCLG1	ENSG00000163541	ENST00000442240	nonsense_mediated_decay	KNOWN	None	11449	316	104	84668203	84686385	-1	None	None
2	SUCLG1	ENSG00000163541	ENST00000491642	processed_transcript	KNOWN	None	11449	None	None	84668357	84687169	-1	None	None
2	SUCLG1	ENSG00000163541	ENST00000430989	processed_transcript	KNOWN	None	11449	None	None	84668371	84686370	-1	None	None
14	None	ENSG00000259097	ENST00000555776	lincRNA	KNOWN	None	None	None	None	98534577	98671480	-1	None	None
17	None	ENSG00000262633	ENST00000571841	nonsense_mediated_decay	KNOWN	None	None	699	232	45000499	45124520	1	None	None
1	None	ENSG00000199934	ENST00000363064	snoRNA	NOVEL	None	None	None	None	86057963	86058039	1	None	None
X	EEF1GP5	ENSG00000234785	ENST00000434365	processed_pseudogene	KNOWN	None	44560	None	None	114937131	114938440	1	None	None
1	None	ENSG00000224359	ENST00000457477	lincRNA	KNOWN	None	None	None	None	240693752	240694162	1	None	None
12	UBE3B	ENSG00000151148	ENST00000434735	protein_coding	KNOWN	CCDS9129	13478	3207	1068	109915207	109974507	1	None	None
12	UBE3B	ENSG00000151148	ENST00000539843	retained_intron	KNOWN	None	13478	None	None	109915433	109921826	1	None	None
12	UBE3B	ENSG00000151148	ENST00000536398	protein_coding	KNOWN	CCDS58277	13478	735	244	109915440	109928527	1	None	None
12	UBE3B	ENSG00000151148	ENST00000539599	protein_coding	KNOWN	None	13478	2615	870	109915443	109964209	1	None	None
12	UBE3B	ENSG00000151148	ENST00000342494	protein_coding	KNOWN	CCDS9129	13478	3207	1068	109915447	109974507	1	None	None
12	UBE3B	ENSG00000151148	ENST00000340074	protein_coding	KNOWN	CCDS58277	13478	735	244	109915457	109928527	1	None	None
12	UBE3B	ENSG00000151148	ENST00000540230	protein_coding	KNOWN	CCDS58277	13478	735	244	109915458	109928954	1	None	None
12	UBE3B	ENSG00000151148	ENST00000449510	nonsense_mediated_decay	KNOWN	None	13478	2127	708	109915458	109972459	1	None	None
12	UBE3B	ENSG00000151148	ENST00000537063	protein_coding	PUTATIVE	None	13478	744	247	109915460	109930542	1	None	None
12	UBE3B	ENSG00000151148	ENST00000535900	processed_transcript	KNOWN	None	13478	None	None	109939230	109949120	1	None	None
12	UBE3B	ENSG00000151148	ENST00000539584	retained_intron	KNOWN	None	13478	None	None	109946255	109961900	1	None	None
12	UBE3B	ENSG00000151148	ENST00000538070	retained_intron	KNOWN	None	13478	None	None	109957361	109972876	1	None	None
12	UBE3B	ENSG00000151148	ENST00000605142	protein_coding	PUTATIVE	None	13478	528	175	109967735	109972343	1	None	None
12	UBE3B	ENSG00000151148	ENST00000280774	protein_coding	KNOWN	None	13478	2127	708	109915439	109955772	1	None	None
12	UBE3B	ENSG00000151148	ENST00000535089	protein_coding	KNOWN	None	13478	456	151	109967735	109972343	1	None	None
13	None	ENSG00000200733	ENST00000363863	snoRNA	NOVEL	None	None	None	None	90489424	90489491	1	None	None
1	None	ENSG00000237283	ENST00000432976	lincRNA	PUTATIVE	None	None	None	None	188674754	188680011	-1	None	None
1	None	ENSG00000230285	ENST00000426794	lincRNA	KNOWN	None	None	None	None	86064814	86066417	1	None	None
14	None	ENSG00000200742	ENST00000363872	misc_RNA	NOVEL	None	None	None	None	56118252	56118352	1	None	None
15	RNU4-80P	ENSG00000200070	ENST00000363200	snRNA	KNOWN	None	47016	None	None	59504847	59504987	-1	None	None
13	PEX12P1	ENSG00000215418	ENST00000400284	processed_pseudogene	KNOWN	None	39678	None	None	90644085	90645132	1	None	None
6	None	ENSG00000231662	ENST00000443504	lincRNA	KNOWN	None	None	None	None	19290550	19321252	-1	None	None
HG858_PATCH	None	ENSG00000261605	ENST00000566608	unprocessed_pseudogene	KNOWN	None	None	None	None	64522	82015	-1	None	None
1	None	ENSG00000238054	ENST00000414765	lincRNA	PUTATIVE	None	None	None	None	188838608	188856565	-1	None	None
1	RNA5SP51	ENSG00000201620	ENST00000364750	rRNA	KNOWN	None	42828	None	None	86349363	86349481	-1	RN5S51	None
17	RNU6-1134P	ENSG00000202026	ENST00000365156	snRNA	KNOWN	None	48097	None	None	30040772	30040872	1	None	None
14	None	ENSG00000258511	ENST00000557072	lincRNA	KNOWN	None	None	None	None	98602411	98605579	1	None	None
22	None	ENSG00000237015	ENST00000433125	antisense	KNOWN	None	None	None	None	29656878	29658026	1	None	None
6	RPL5P20	ENSG00000218643	ENST00000403848	processed_pseudogene	KNOWN	None	36660	None	None	19348412	19349307	1	None	None
19	DHX34	ENSG00000134815	ENST00000328771	protein_coding	KNOWN	CCDS12700	16719	3432	1143	47852538	47885961	1	DDX34	KIAA0134
19	DHX34	ENSG00000134815	ENST00000471451	processed_transcript	KNOWN	None	16719	None	None	47861271	47876027	1	DDX34	KIAA0134
19	DHX34	ENSG00000134815	ENST00000486327	retained_intron	KNOWN	None	16719	None	None	47870370	47884828	1	DDX34	KIAA0134
19	DHX34	ENSG00000134815	ENST00000460681	nonsense_mediated_decay	KNOWN	None	16719	817	271	47876054	47885536	1	DDX34	KIAA0134
1	None	ENSG00000226486	ENST00000445072	lincRNA	PUTATIVE	None	None	None	None	188874819	189006393	1	None	None
12	RNU7-4P	ENSG00000252770	ENST00000516961	snRNA	KNOWN	None	34100	None	None	69305701	69305762	1	RNU7-132P	U7.4
14	OR7K1P	ENSG00000258275	ENST00000546439	processed_pseudogene	KNOWN	None	15366	None	None	25826970	25827895	1	None	None
17	None	ENSG00000265863	ENST00000584218	processed_pseudogene	KNOWN	None	None	None	None	30086814	30088404	1	None	None
1	None	ENSG00000226014	ENST00000425769	processed_pseudogene	KNOWN	None	None	None	None	240713167	240713678	-1	None	None
5	GHR	ENSG00000112964	ENST00000230882	protein_coding	KNOWN	CCDS3940	4263	1917	638	42423879	42721979	1	None	GHBP
5	GHR	ENSG00000112964	ENST00000513671	nonsense_mediated_decay	KNOWN	None	4263	189	62	42424620	42659466	1	None	GHBP
5	GHR	ENSG00000112964	ENST00000505006	processed_transcript	KNOWN	None	4263	None	None	42514249	42619923	1	None	GHBP
5	GHR	ENSG00000112964	ENST00000511135	nonsense_mediated_decay	KNOWN	None	4263	258	85	42565958	42719893	1	None	GHBP
5	GHR	ENSG00000112964	ENST00000513625	processed_transcript	KNOWN	None	4263	None	None	42713969	42718916	1	None	GHBP
5	GHR	ENSG00000112964	ENST00000357703	protein_coding	KNOWN	CCDS56364	4263	1851	616	42424026	42721925	1	None	GHBP
5	GHR	ENSG00000112964	ENST00000537449	protein_coding	KNOWN	None	4263	1356	451	42565958	42719893	1	None	GHBP
1	None	ENSG00000229505	ENST00000417340	processed_pseudogene	KNOWN	None	None	None	None	86495537	86496272	1	None	None
12	APOLD1	ENSG00000178878	ENST00000326765	protein_coding	KNOWN	CCDS44833	25268	840	279	12878865	12944316	1	None	FLJ25138, DKFZP434F0318
12	APOLD1	ENSG00000178878	ENST00000356591	protein_coding	KNOWN	CCDS8654	25268	747	248	12938541	12944400	1	None	FLJ25138, DKFZP434F0318
19	None	ENSG00000266963	ENST00000590304	antisense	KNOWN	None	None	None	None	38852435	38853124	-1	None	None
2	None	ENSG00000227361	ENST00000416921	processed_pseudogene	KNOWN	None	None	None	None	62030278	62030523	1	None	None
12	None	ENSG00000257289	ENST00000550230	processed_pseudogene	KNOWN	None	None	None	None	69307584	69307802	1	None	None
15	None	ENSG00000215983	ENST00000401164	miRNA	NOVEL	None	None	None	None	59508845	59508925	1	None	None
1	None	ENSG00000271036	ENST00000604519	processed_pseudogene	KNOWN	None	None	None	None	189005092	189005575	-1	None	None
1	None	ENSG00000231349	ENST00000454884	processed_pseudogene	KNOWN	None	None	None	None	86869859	86870549	-1	None	None
8	None	ENSG00000253834	ENST00000518489	lincRNA	KNOWN	None	None	None	None	62734040	62737811	-1	None	None
1	FAM73A	ENSG00000180488	ENST00000370791	protein_coding	KNOWN	CCDS681	24741	1899	632	78245309	78344106	1	None	FLJ35093
1	FAM73A	ENSG00000180488	ENST00000477627	protein_coding	PUTATIVE	None	24741	200	65	78245593	78267116	1	None	FLJ35093
1	FAM73A	ENSG00000180488	ENST00000476203	retained_intron	KNOWN	None	24741	None	None	78269074	78327900	1	None	FLJ35093
1	FAM73A	ENSG00000180488	ENST00000443751	protein_coding	KNOWN	None	24741	1788	595	78245334	78340825	1	None	FLJ35093
2	None	ENSG00000229831	ENST00000440214	processed_pseudogene	KNOWN	None	None	None	None	62047343	62047701	1	None	None
12	None	ENSG00000263910	ENST00000581203	miRNA	NOVEL	None	None	None	None	69350186	69350266	-1	None	None
1	OR14A16	ENSG00000196772	ENST00000357627	protein_coding	KNOWN	CCDS31097	15022	930	309	247978102	247979031	-1	OR5AT1	None
16	None	ENSG00000260095	ENST00000561653	antisense	KNOWN	None	None	None	None	2502582	2502978	-1	None	None
11	FXYD6-FXYD2	ENSG00000255245	ENST00000532984	protein_coding	KNOWN	CCDS58184	39978	339	112	117690878	117747382	-1	None	None
6	RNA5SP205	ENSG00000201523	ENST00000364653	rRNA	KNOWN	None	43105	None	None	19438514	19438649	1	RN5S205	None
6	None	ENSG00000271765	ENST00000606679	misc_RNA	NOVEL	None	None	None	None	136866330	136866630	1	None	None
3	None	ENSG00000240032	ENST00000490375	antisense	KNOWN	None	None	None	None	145784131	145786972	-1	None	None
6	None	ENSG00000180211	ENST00000325612	processed_pseudogene	KNOWN	None	None	None	None	39926153	39926572	-1	None	None
17	None	ENSG00000263567	ENST00000577970	lincRNA	KNOWN	None	None	None	None	30089459	30096067	1	None	None
8	None	ENSG00000237704	ENST00000444413	processed_pseudogene	KNOWN	None	None	None	None	100352533	100353989	-1	None	None
19	None	ENSG00000232220	ENST00000413496	antisense	KNOWN	None	None	None	None	54377880	54379303	-1	None	None
14	None	ENSG00000222066	ENST00000410134	miRNA	NOVEL	None	None	None	None	98797969	98798087	-1	None	None
17	None	ENSG00000265046	ENST00000585025	lincRNA	KNOWN	None	None	None	None	30157750	30158769	1	None	None
6	None	ENSG00000226786	ENST00000432171	antisense	KNOWN	None	None	None	None	19535175	19839311	-1	None	None
2	None	ENSG00000230702	ENST00000414975	processed_pseudogene	KNOWN	None	None	None	None	62083830	62084190	1	None	None
1	NKAIN1P1	ENSG00000242943	ENST00000435754	processed_pseudogene	KNOWN	None	38593	None	None	148864594	148865175	-1	None	None
6	None	ENSG00000272189	ENST00000607749	antisense	KNOWN	None	None	None	None	136871799	136873692	1	None	None
15	None	ENSG00000259771	ENST00000560248	sense_intronic	KNOWN	None	None	None	None	59558919	59563361	-1	None	None
12	PRELID2P1	ENSG00000257336	ENST00000552837	processed_pseudogene	KNOWN	None	43892	None	None	69351157	69351457	-1	None	None
17	None	ENSG00000263990	ENST00000583236	lincRNA	KNOWN	None	None	None	None	30200945	30213685	1	None	None
6	TUBBP9	ENSG00000220586	ENST00000405234	processed_pseudogene	KNOWN	None	42178	None	None	39960554	39967972	1	None	None
11	HIPK3	ENSG00000110422	ENST00000525975	protein_coding	KNOWN	CCDS41634	4915	3585	1194	33278218	33375114	1	None	PKY, DYRK6, YAK1, FIST3
11	HIPK3	ENSG00000110422	ENST00000303296	protein_coding	KNOWN	CCDS7884	4915	3648	1215	33279133	33378569	1	None	PKY, DYRK6, YAK1, FIST3
11	HIPK3	ENSG00000110422	ENST00000379016	protein_coding	KNOWN	CCDS41634	4915	3585	1194	33279133	33378569	1	None	PKY, DYRK6, YAK1, FIST3
11	HIPK3	ENSG00000110422	ENST00000531504	protein_coding	KNOWN	None	4915	229	75	33279877	33308189	1	None	PKY, DYRK6, YAK1, FIST3
11	HIPK3	ENSG00000110422	ENST00000534262	processed_transcript	KNOWN	None	4915	None	None	33350146	33360388	1	None	PKY, DYRK6, YAK1, FIST3
11	HIPK3	ENSG00000110422	ENST00000456517	protein_coding	KNOWN	CCDS41634	4915	3585	1194	33279877	33375645	1	None	PKY, DYRK6, YAK1, FIST3
2	None	ENSG00000236498	ENST00000425779	antisense	KNOWN	None	None	None	None	62095567	62113217	1	None	None
14	RN7SL714P	ENSG00000241757	ENST00000487050	misc_RNA	KNOWN	None	46730	None	None	98817706	98818001	-1	None	None
7	SLC29A4P1	ENSG00000214668	ENST00000398760	unprocessed_pseudogene	KNOWN	None	43783	None	None	57081992	57087980	-1	None	None
HSCHR6_MHC_APD	LST1	ENSG00000235915	ENST00000433676	protein_coding	KNOWN	None	14189	201	66	31565222	31568007	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_APD	LST1	ENSG00000235915	ENST00000443741	protein_coding	KNOWN	None	14189	294	97	31565277	31568007	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_APD	LST1	ENSG00000235915	ENST00000478511	retained_intron	KNOWN	None	14189	None	None	31565292	31568007	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_APD	LST1	ENSG00000235915	ENST00000447141	protein_coding	KNOWN	None	14189	42	13	31565315	31568007	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_APD	LST1	ENSG00000235915	ENST00000414821	protein_coding	KNOWN	None	14189	87	28	31565315	31568007	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_APD	LST1	ENSG00000235915	ENST00000415419	protein_coding	KNOWN	None	14189	156	51	31565318	31568007	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_APD	LST1	ENSG00000235915	ENST00000471920	retained_intron	KNOWN	None	14189	None	None	31565333	31568007	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_APD	LST1	ENSG00000235915	ENST00000430680	protein_coding	KNOWN	None	14189	201	66	31565797	31568007	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_APD	LST1	ENSG00000235915	ENST00000453818	protein_coding	KNOWN	None	14189	87	28	31565946	31568007	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_APD	LST1	ENSG00000235915	ENST00000444783	protein_coding	KNOWN	None	14189	109	35	31565993	31566828	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_APD	LST1	ENSG00000235915	ENST00000443931	protein_coding	KNOWN	None	14189	87	28	31566107	31568007	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_APD	LST1	ENSG00000235915	ENST00000427164	protein_coding	KNOWN	None	14189	87	28	31566120	31568007	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_APD	LST1	ENSG00000235915	ENST00000411490	protein_coding	KNOWN	None	14189	294	97	31566130	31568007	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_APD	LST1	ENSG00000235915	ENST00000436185	protein_coding	KNOWN	None	14189	201	66	31566164	31568007	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_APD	LST1	ENSG00000235915	ENST00000420797	protein_coding	KNOWN	None	14189	201	66	31566178	31568007	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_APD	LST1	ENSG00000235915	ENST00000441641	protein_coding	KNOWN	None	14189	138	45	31566184	31566939	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_APD	LST1	ENSG00000235915	ENST00000430997	protein_coding	KNOWN	None	14189	180	59	31566195	31568007	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_APD	LST1	ENSG00000235915	ENST00000448381	protein_coding	KNOWN	None	14189	249	82	31566215	31568007	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_APD	LST1	ENSG00000235915	ENST00000457549	protein_coding	KNOWN	None	14189	222	73	31566298	31568007	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_APD	LST1	ENSG00000235915	ENST00000427186	protein_coding	KNOWN	None	14189	108	35	31566298	31568007	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_APD	LST1	ENSG00000235915	ENST00000438335	protein_coding	KNOWN	None	14189	315	104	31566298	31568007	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_APD	LST1	ENSG00000235915	ENST00000462154	retained_intron	KNOWN	None	14189	None	None	31566353	31568007	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_APD	LST1	ENSG00000235915	ENST00000418796	protein_coding	KNOWN	None	14189	131	42	31566402	31568007	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_APD	LST1	ENSG00000235915	ENST00000549530	protein_coding	KNOWN	None	14189	108	35	31565277	31567683	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_APD	LST1	ENSG00000235915	ENST00000549008	protein_coding	KNOWN	None	14189	276	91	31566298	31568006	1	None	LST-1, B144, D6S49E
1	None	ENSG00000226196	ENST00000433910	processed_pseudogene	KNOWN	None	None	None	None	189101481	189102423	-1	None	None
22	SNORD125	ENSG00000239127	ENST00000459538	snoRNA	KNOWN	None	33564	None	None	29729152	29729247	-1	None	None
17	RNA5SP437	ENSG00000253058	ENST00000517249	rRNA	KNOWN	None	43337	None	None	30290824	30290952	-1	RN5S437	None
1	None	ENSG00000231440	ENST00000428891	sense_intronic	KNOWN	None	None	None	None	240751822	240754048	-1	None	None
17	SRR	ENSG00000167720	ENST00000572709	protein_coding	KNOWN	None	14398	199	65	2206677	2221194	1	None	ILV1, ISO1
17	SRR	ENSG00000167720	ENST00000344595	protein_coding	KNOWN	CCDS11017	14398	1023	340	2206998	2228554	1	None	ILV1, ISO1
17	SRR	ENSG00000167720	ENST00000575840	protein_coding	KNOWN	None	14398	280	92	2207244	2221275	1	None	ILV1, ISO1
17	SRR	ENSG00000167720	ENST00000576620	protein_coding	PUTATIVE	None	14398	450	149	2207244	2226543	1	None	ILV1, ISO1
17	SRR	ENSG00000167720	ENST00000576848	processed_transcript	PUTATIVE	None	14398	None	None	2207244	2227258	1	None	ILV1, ISO1
17	SRR	ENSG00000167720	ENST00000574987	protein_coding	PUTATIVE	None	14398	234	77	2207248	2226516	1	None	ILV1, ISO1
17	SRR	ENSG00000167720	ENST00000570662	protein_coding	KNOWN	None	14398	300	99	2210330	2222124	1	None	ILV1, ISO1
17	SRR	ENSG00000167720	ENST00000574229	protein_coding	NOVEL	None	14398	199	65	2218672	2221194	1	None	ILV1, ISO1
8	None	ENSG00000225017	ENST00000436307	processed_pseudogene	KNOWN	None	None	None	None	100358280	100360484	-1	None	None
6	KRT18P38	ENSG00000214012	ENST00000449496	processed_pseudogene	KNOWN	None	33407	None	None	19612986	19614267	1	None	None
1	None	ENSG00000224466	ENST00000441182	processed_pseudogene	KNOWN	None	None	None	None	87018308	87019025	-1	None	None
14	None	ENSG00000258795	ENST00000554515	lincRNA	KNOWN	None	None	None	None	98963469	98981135	1	None	None
1	DRD5P2	ENSG00000175658	ENST00000421395	processed_pseudogene	KNOWN	None	3028	None	None	148900615	148903715	1	None	None
1	DRD5P2	ENSG00000175658	ENST00000535197	processed_pseudogene	KNOWN	None	3028	None	None	148901743	148903103	1	None	None
1	DRD5P2	ENSG00000175658	ENST00000309892	processed_pseudogene	KNOWN	None	3028	None	None	148902342	148902913	1	None	None
11	None	ENSG00000255350	ENST00000529569	processed_pseudogene	KNOWN	None	None	None	None	103275037	103276562	-1	None	None
17	None	ENSG00000264300	ENST00000582184	transcribed_processed_pseudogene	KNOWN	None	None	None	None	30330129	30330345	-1	None	None
17	None	ENSG00000264300	ENST00000583346	processed_transcript	KNOWN	None	None	None	None	30330222	30333707	-1	None	None
1	PPIEL	ENSG00000243970	ENST00000427240	unprocessed_pseudogene	KNOWN	None	33195	None	None	39997510	40024379	-1	None	PPIEP1
19	None	ENSG00000267090	ENST00000585411	antisense	KNOWN	None	None	None	None	38876162	38877399	1	None	None
20	GZF1	ENSG00000125812	ENST00000338121	protein_coding	KNOWN	CCDS13151	15808	2136	711	23342819	23353700	1	ZNF336	dJ322G13.2, ZBTB23
20	GZF1	ENSG00000125812	ENST00000424216	protein_coding	KNOWN	None	15808	146	47	23342957	23345166	1	ZNF336	dJ322G13.2, ZBTB23
20	GZF1	ENSG00000125812	ENST00000461789	processed_transcript	KNOWN	None	15808	None	None	23345856	23349544	1	ZNF336	dJ322G13.2, ZBTB23
20	GZF1	ENSG00000125812	ENST00000477239	processed_transcript	KNOWN	None	15808	None	None	23349508	23351058	1	ZNF336	dJ322G13.2, ZBTB23
20	GZF1	ENSG00000125812	ENST00000377051	protein_coding	KNOWN	CCDS13151	15808	2136	711	23345021	23353682	1	ZNF336	dJ322G13.2, ZBTB23
20	GZF1	ENSG00000125812	ENST00000544236	protein_coding	KNOWN	None	15808	708	235	23342787	23351207	1	ZNF336	dJ322G13.2, ZBTB23
20	GZF1	ENSG00000125812	ENST00000542987	protein_coding	KNOWN	None	15808	663	220	23342819	23351296	1	ZNF336	dJ322G13.2, ZBTB23
HG418_PATCH	PSCA	ENSG00000262150	ENST00000574339	processed_transcript	KNOWN	None	9500	None	None	143751669	143763277	1	None	None
HG418_PATCH	PSCA	ENSG00000262150	ENST00000573859	processed_transcript	KNOWN	None	9500	None	None	143751682	143763660	1	None	None
HG418_PATCH	PSCA	ENSG00000262150	ENST00000571412	protein_coding	KNOWN	None	9500	345	114	143761817	143764085	1	None	None
HG418_PATCH	PSCA	ENSG00000262150	ENST00000575167	protein_coding	PUTATIVE	None	9500	165	54	143761818	143763131	1	None	None
15	PWRN1	ENSG00000259905	ENST00000565893	lincRNA	KNOWN	None	33235	None	None	24738284	24758291	1	None	NCRNA00198
15	PWRN1	ENSG00000259905	ENST00000565512	lincRNA	KNOWN	None	33235	None	None	24758217	24779055	1	None	NCRNA00198
15	PWRN1	ENSG00000259905	ENST00000562244	lincRNA	KNOWN	None	33235	None	None	24766828	24779055	1	None	NCRNA00198
15	PWRN1	ENSG00000259905	ENST00000568045	lincRNA	KNOWN	None	33235	None	None	24778842	24832924	1	None	NCRNA00198
15	PWRN1	ENSG00000259905	ENST00000565295	lincRNA	KNOWN	None	33235	None	None	24792943	24811927	1	None	NCRNA00198
15	PWRN1	ENSG00000259905	ENST00000568609	lincRNA	KNOWN	None	33235	None	None	24803299	24832926	1	None	NCRNA00198
15	PWRN1	ENSG00000259905	ENST00000569908	lincRNA	KNOWN	None	33235	None	None	24803305	24804739	1	None	NCRNA00198
15	PWRN1	ENSG00000259905	ENST00000567647	lincRNA	KNOWN	None	33235	None	None	24803319	24819674	1	None	NCRNA00198
15	PWRN1	ENSG00000259905	ENST00000565241	lincRNA	KNOWN	None	33235	None	None	24803364	24813268	1	None	NCRNA00198
15	PWRN1	ENSG00000259905	ENST00000562501	lincRNA	KNOWN	None	33235	None	None	24815173	24832920	1	None	NCRNA00198
15	PWRN1	ENSG00000259905	ENST00000564898	lincRNA	KNOWN	None	33235	None	None	24820099	24897277	1	None	NCRNA00198
15	PWRN1	ENSG00000259905	ENST00000568019	lincRNA	KNOWN	None	33235	None	None	24832744	24897263	1	None	NCRNA00198
1	None	ENSG00000228844	ENST00000420757	processed_pseudogene	KNOWN	None	None	None	None	240799899	240800352	-1	None	None
1	None	ENSG00000236915	ENST00000456587	antisense	KNOWN	None	None	None	None	87036864	87158886	-1	None	None
8	None	ENSG00000254120	ENST00000519215	lincRNA	KNOWN	None	None	None	None	62802398	62806765	1	None	None
2	None	ENSG00000229839	ENST00000425966	antisense	KNOWN	None	None	None	None	62296582	62374016	-1	None	None
2	None	ENSG00000229839	ENST00000421323	antisense	KNOWN	None	None	None	None	62306850	62374016	-1	None	None
19	MIR935	ENSG00000215998	ENST00000401179	miRNA	KNOWN	None	33678	None	None	54485561	54485651	1	MIRN935	hsa-mir-935
19	None	ENSG00000267473	ENST00000588453	lincRNA	KNOWN	None	None	None	None	38888821	38890521	1	None	None
5	OCLN	ENSG00000197822	ENST00000355237	protein_coding	KNOWN	CCDS4006	8104	1569	522	68788119	68853931	1	None	None
5	OCLN	ENSG00000197822	ENST00000396442	protein_coding	KNOWN	CCDS4006	8104	1569	522	68788617	68849498	1	None	None
5	OCLN	ENSG00000197822	ENST00000514370	processed_transcript	KNOWN	None	8104	None	None	68840519	68849826	1	None	None
5	OCLN	ENSG00000197822	ENST00000510666	retained_intron	KNOWN	None	8104	None	None	68840571	68849538	1	None	None
5	OCLN	ENSG00000197822	ENST00000380766	protein_coding	KNOWN	None	8104	1407	468	68788618	68850131	1	None	None
5	OCLN	ENSG00000197822	ENST00000538151	protein_coding	KNOWN	CCDS54864	8104	816	271	68800028	68849539	1	None	None
5	OCLN	ENSG00000197822	ENST00000542132	protein_coding	KNOWN	None	8104	603	200	68800028	68849539	1	None	None
8	None	ENSG00000206699	ENST00000383972	misc_RNA	NOVEL	None	None	None	None	100540054	100540155	1	None	None
6	None	ENSG00000227131	ENST00000444731	lincRNA	KNOWN	None	None	None	None	40239305	40243976	-1	None	None
17	None	ENSG00000264497	ENST00000448026	processed_pseudogene	KNOWN	None	None	None	None	30351488	30351602	-1	None	None
15	RNU6-212P	ENSG00000199512	ENST00000362642	snRNA	KNOWN	None	47175	None	None	59633513	59633616	-1	None	None
17	RPRML	ENSG00000179673	ENST00000322329	protein_coding	KNOWN	CCDS11508	32422	363	120	45055523	45056614	-1	None	MGC43894
17	EVI2B	ENSG00000185862	ENST00000330927	protein_coding	KNOWN	CCDS11266	3500	1347	448	29630784	29641130	-1	None	D17S376, EVDB, CD361
17	EVI2B	ENSG00000185862	ENST00000577894	protein_coding	KNOWN	CCDS11266	3500	1347	448	29631252	29641123	-1	None	D17S376, EVDB, CD361
17	EVI2B	ENSG00000185862	ENST00000544462	protein_coding	KNOWN	None	3500	1392	463	29631252	29641102	-1	None	D17S376, EVDB, CD361
8	MIR599	ENSG00000207804	ENST00000385069	miRNA	KNOWN	None	32855	None	None	100548864	100548958	-1	MIRN599	hsa-mir-599
1	RNU5F-8P	ENSG00000251750	ENST00000515941	snRNA	KNOWN	None	42531	None	None	240816667	240816777	1	None	None
15	None	ENSG00000259735	ENST00000558749	sense_intronic	KNOWN	None	None	None	None	59640847	59652088	-1	None	None
1	RNA5SP73	ENSG00000252553	ENST00000516744	rRNA	KNOWN	None	42850	None	None	189635279	189635386	-1	RN5S73	None
17	SH3GL1P1	ENSG00000266777	ENST00000582640	processed_transcript	KNOWN	None	10835	None	None	30366993	30367713	1	SH3GLP1	CNSA-P1
17	SH3GL1P1	ENSG00000266777	ENST00000583601	transcribed_processed_pseudogene	KNOWN	None	10835	None	None	30367456	30368543	1	SH3GLP1	CNSA-P1
17	SH3GL1P1	ENSG00000266777	ENST00000579186	processed_transcript	KNOWN	None	10835	None	None	30367903	30369847	1	SH3GLP1	CNSA-P1
1	None	ENSG00000221702	ENST00000408775	miRNA	NOVEL	None	None	None	None	87071953	87072040	-1	None	None
19	NLRP5	ENSG00000171487	ENST00000390649	protein_coding	KNOWN	CCDS12938	21269	3603	1200	56511092	56573179	1	NALP5	PYPAF8, MATER, PAN11, CLR19.8
19	NLRP5	ENSG00000171487	ENST00000597673	nonsense_mediated_decay	KNOWN	None	21269	537	178	56515101	56531789	1	NALP5	PYPAF8, MATER, PAN11, CLR19.8
HG999_2_PATCH	None	ENSG00000260191	ENST00000568719	processed_pseudogene	KNOWN	None	None	None	None	249074513	249076670	-1	None	None
7	PHKG1P4	ENSG00000229508	ENST00000430144	unprocessed_pseudogene	KNOWN	None	33918	None	None	57128297	57129008	-1	None	None
1	SLAMF9	ENSG00000162723	ENST00000466773	processed_transcript	KNOWN	None	18430	None	None	159921282	159923282	-1	None	CD2F-10, CD84-H1, SF2001
1	SLAMF9	ENSG00000162723	ENST00000489098	processed_transcript	KNOWN	None	18430	None	None	159921282	159923974	-1	None	CD2F-10, CD84-H1, SF2001
1	SLAMF9	ENSG00000162723	ENST00000368092	protein_coding	KNOWN	CCDS53392	18430	597	198	159921282	159924010	-1	None	CD2F-10, CD84-H1, SF2001
1	SLAMF9	ENSG00000162723	ENST00000368093	protein_coding	KNOWN	CCDS1191	18430	870	289	159921282	159924044	-1	None	CD2F-10, CD84-H1, SF2001
1	None	ENSG00000234872	ENST00000442611	processed_pseudogene	KNOWN	None	None	None	None	240817541	240817925	1	None	None
16	HAS3	ENSG00000103044	ENST00000569188	protein_coding	KNOWN	CCDS10871	4820	1662	553	69139467	69149453	1	None	None
16	HAS3	ENSG00000103044	ENST00000568321	processed_transcript	PUTATIVE	None	4820	None	None	69140157	69140891	1	None	None
16	HAS3	ENSG00000103044	ENST00000219322	protein_coding	KNOWN	CCDS10870	4820	846	281	69140160	69152622	1	None	None
16	HAS3	ENSG00000103044	ENST00000566118	protein_coding	KNOWN	None	4820	793	263	69140512	69148300	1	None	None
16	HAS3	ENSG00000103044	ENST00000306560	protein_coding	KNOWN	CCDS10871	4820	1662	553	69141443	69151571	1	None	None
1	None	ENSG00000232212	ENST00000419614	lincRNA	KNOWN	None	None	None	None	189744595	189784048	1	None	None
6	UQCRFS1P3	ENSG00000217314	ENST00000407697	processed_pseudogene	KNOWN	None	39173	None	None	19638271	19639039	-1	None	None
9	NCBP1	ENSG00000136937	ENST00000375147	protein_coding	KNOWN	CCDS6728	7658	2373	790	100395908	100436030	1	NCBP	CBP80, Sto1
9	NCBP1	ENSG00000136937	ENST00000478100	nonsense_mediated_decay	KNOWN	None	7658	249	82	100395950	100412844	1	NCBP	CBP80, Sto1
9	NCBP1	ENSG00000136937	ENST00000375130	protein_coding	PUTATIVE	None	7658	466	154	100429045	100432358	1	NCBP	CBP80, Sto1
9	NCBP1	ENSG00000136937	ENST00000491445	processed_transcript	KNOWN	None	7658	None	None	100434993	100436022	1	NCBP	CBP80, Sto1
7	TBL2	ENSG00000106638	ENST00000305632	protein_coding	KNOWN	CCDS5551	11586	1344	447	72983262	72993121	-1	None	WS-betaTRP, WBSCR13, DKFZP43N024
7	TBL2	ENSG00000106638	ENST00000459913	processed_transcript	KNOWN	None	11586	None	None	72983990	72992599	-1	None	WS-betaTRP, WBSCR13, DKFZP43N024
7	TBL2	ENSG00000106638	ENST00000424598	nonsense_mediated_decay	KNOWN	None	11586	141	46	72983990	72992906	-1	None	WS-betaTRP, WBSCR13, DKFZP43N024
7	TBL2	ENSG00000106638	ENST00000450285	nonsense_mediated_decay	KNOWN	None	11586	531	176	72983990	72992920	-1	None	WS-betaTRP, WBSCR13, DKFZP43N024
7	TBL2	ENSG00000106638	ENST00000417008	nonsense_mediated_decay	KNOWN	None	11586	132	43	72984338	72992884	-1	None	WS-betaTRP, WBSCR13, DKFZP43N024
7	TBL2	ENSG00000106638	ENST00000432538	protein_coding	PUTATIVE	None	11586	1236	411	72984525	72992666	-1	None	WS-betaTRP, WBSCR13, DKFZP43N024
7	TBL2	ENSG00000106638	ENST00000433464	nonsense_mediated_decay	KNOWN	None	11586	324	107	72984741	72992929	-1	None	WS-betaTRP, WBSCR13, DKFZP43N024
7	TBL2	ENSG00000106638	ENST00000488915	retained_intron	KNOWN	None	11586	None	None	72984801	72985724	-1	None	WS-betaTRP, WBSCR13, DKFZP43N024
7	TBL2	ENSG00000106638	ENST00000426966	nonsense_mediated_decay	KNOWN	None	11586	228	75	72985216	72992949	-1	None	WS-betaTRP, WBSCR13, DKFZP43N024
7	TBL2	ENSG00000106638	ENST00000452475	protein_coding	PUTATIVE	None	11586	813	270	72985914	72992964	-1	None	WS-betaTRP, WBSCR13, DKFZP43N024
7	TBL2	ENSG00000106638	ENST00000495885	retained_intron	KNOWN	None	11586	None	None	72986312	72987662	-1	None	WS-betaTRP, WBSCR13, DKFZP43N024
7	TBL2	ENSG00000106638	ENST00000437521	nonsense_mediated_decay	KNOWN	None	11586	120	39	72987178	72992701	-1	None	WS-betaTRP, WBSCR13, DKFZP43N024
7	TBL2	ENSG00000106638	ENST00000435792	nonsense_mediated_decay	KNOWN	None	11586	165	54	72987208	72993006	-1	None	WS-betaTRP, WBSCR13, DKFZP43N024
7	TBL2	ENSG00000106638	ENST00000452125	nonsense_mediated_decay	KNOWN	None	11586	195	64	72987651	72992684	-1	None	WS-betaTRP, WBSCR13, DKFZP43N024
7	TBL2	ENSG00000106638	ENST00000476136	processed_transcript	KNOWN	None	11586	None	None	72987671	72992749	-1	None	WS-betaTRP, WBSCR13, DKFZP43N024
7	TBL2	ENSG00000106638	ENST00000479892	processed_transcript	KNOWN	None	11586	None	None	72987673	72993121	-1	None	WS-betaTRP, WBSCR13, DKFZP43N024
7	TBL2	ENSG00000106638	ENST00000465279	processed_transcript	KNOWN	None	11586	None	None	72987731	72992677	-1	None	WS-betaTRP, WBSCR13, DKFZP43N024
7	TBL2	ENSG00000106638	ENST00000496056	retained_intron	KNOWN	None	11586	None	None	72988162	72992906	-1	None	WS-betaTRP, WBSCR13, DKFZP43N024
7	TBL2	ENSG00000106638	ENST00000469518	retained_intron	KNOWN	None	11586	None	None	72988209	72991078	-1	None	WS-betaTRP, WBSCR13, DKFZP43N024
7	TBL2	ENSG00000106638	ENST00000468669	processed_transcript	KNOWN	None	11586	None	None	72988775	72992647	-1	None	WS-betaTRP, WBSCR13, DKFZP43N024
7	TBL2	ENSG00000106638	ENST00000458466	nonsense_mediated_decay	KNOWN	None	11586	132	43	72988807	72992929	-1	None	WS-betaTRP, WBSCR13, DKFZP43N024
6	TDRG1	ENSG00000204091	ENST00000451810	antisense	KNOWN	None	43642	None	None	40302693	40347624	1	None	LINC00532
6	TDRG1	ENSG00000204091	ENST00000448559	antisense	KNOWN	None	43642	None	None	40308204	40347624	1	None	LINC00532
6	TDRG1	ENSG00000204091	ENST00000448433	antisense	KNOWN	None	43642	None	None	40346076	40347624	1	None	LINC00532
6	TDRG1	ENSG00000204091	ENST00000373170	antisense	KNOWN	None	43642	None	None	40346076	40347624	1	None	LINC00532
19	None	ENSG00000237017	ENST00000452097	antisense	KNOWN	None	None	None	None	54622891	54628722	-1	None	None
7	None	ENSG00000235095	ENST00000433031	unprocessed_pseudogene	KNOWN	None	None	None	None	57215693	57218054	-1	None	None
X	ZCCHC12	ENSG00000174460	ENST00000310164	protein_coding	KNOWN	CCDS14574	27273	1209	402	117957753	117960931	1	None	FLJ16123, SIZN, SIZN1, PNMA7A
1	OR11L1	ENSG00000197591	ENST00000355784	protein_coding	KNOWN	CCDS31098	14998	969	322	248004199	248005254	-1	None	None
10	SRGN	ENSG00000122862	ENST00000462445	processed_transcript	KNOWN	None	9361	None	None	70847862	70864297	1	PRG, PRG1	PPG
10	SRGN	ENSG00000122862	ENST00000242465	protein_coding	KNOWN	CCDS7285	9361	477	158	70847874	70864567	1	PRG, PRG1	PPG
1	None	ENSG00000228060	ENST00000415255	antisense	KNOWN	None	None	None	None	40030832	40038875	1	None	None
3	None	ENSG00000266685	ENST00000579789	miRNA	NOVEL	None	None	None	None	75418410	75418497	-1	None	None
1	None	ENSG00000199241	ENST00000362371	misc_RNA	NOVEL	None	None	None	None	240861620	240861729	1	None	None
2	None	ENSG00000242735	ENST00000442699	processed_pseudogene	KNOWN	None	None	None	None	62373548	62374288	1	None	None
HG858_PATCH	None	ENSG00000263087	ENST00000572505	miRNA	NOVEL	None	None	None	None	82418	82555	1	None	None
22	SYN3	ENSG00000185666	ENST00000358763	protein_coding	KNOWN	CCDS13908	11496	1743	580	32908539	33454358	-1	None	None
22	SYN3	ENSG00000185666	ENST00000483062	retained_intron	KNOWN	None	11496	None	None	32909563	32925058	-1	None	None
22	SYN3	ENSG00000185666	ENST00000467095	processed_transcript	KNOWN	None	11496	None	None	32909662	32915673	-1	None	None
22	SYN3	ENSG00000185666	ENST00000461446	retained_intron	KNOWN	None	11496	None	None	32910426	32925069	-1	None	None
22	SYN3	ENSG00000185666	ENST00000459990	processed_transcript	KNOWN	None	11496	None	None	32914039	32926189	-1	None	None
22	SYN3	ENSG00000185666	ENST00000468922	processed_transcript	KNOWN	None	11496	None	None	32914180	32926175	-1	None	None
22	SYN3	ENSG00000185666	ENST00000462268	processed_transcript	PUTATIVE	None	11496	None	None	33025592	33265087	-1	None	None
22	SYN3	ENSG00000185666	ENST00000467824	retained_intron	KNOWN	None	11496	None	None	33260562	33265045	-1	None	None
22	SYN3	ENSG00000185666	ENST00000472027	retained_intron	KNOWN	None	11496	None	None	33326980	33343564	-1	None	None
22	SYN3	ENSG00000185666	ENST00000441821	protein_coding	KNOWN	None	11496	369	122	33376630	33453844	-1	None	None
22	SYN3	ENSG00000185666	ENST00000412575	protein_coding	KNOWN	None	11496	341	112	33376658	33410514	-1	None	None
22	SYN3	ENSG00000185666	ENST00000332840	protein_coding	KNOWN	CCDS13908	11496	1743	580	32908542	33402806	-1	None	None
1	None	ENSG00000230015	ENST00000431139	lincRNA	KNOWN	None	None	None	None	240902719	240906911	-1	None	None
6	RNU6-801P	ENSG00000200957	ENST00000364087	snRNA	KNOWN	None	47764	None	None	19642656	19642760	-1	None	None
1	None	ENSG00000238270	ENST00000450681	lincRNA	PUTATIVE	None	None	None	None	189837131	189837658	-1	None	None
1	RNA5SP59	ENSG00000222854	ENST00000410922	rRNA	KNOWN	None	42836	None	None	148913273	148913382	-1	RN5S59	None
11	NEAT1	ENSG00000245532	ENST00000499732	lincRNA	KNOWN	None	30815	None	None	65190245	65192232	1	NCRNA00084	TncRNA, MENepsilon/beta, LINC00084
11	NEAT1	ENSG00000245532	ENST00000501122	lincRNA	KNOWN	None	30815	None	None	65190269	65213011	1	NCRNA00084	TncRNA, MENepsilon/beta, LINC00084
11	NEAT1	ENSG00000245532	ENST00000384994	miRNA	KNOWN	None	30815	None	None	65211929	65212028	1	NCRNA00084	TncRNA, MENepsilon/beta, LINC00084
11	NEAT1	ENSG00000245532	ENST00000601801	lincRNA	KNOWN	None	30815	None	None	65190286	65191742	1	NCRNA00084	TncRNA, MENepsilon/beta, LINC00084
1	CLCA3P	ENSG00000153923	ENST00000284054	processed_transcript	KNOWN	None	2017	None	None	87099956	87117349	1	CLCA3	None
1	CLCA3P	ENSG00000153923	ENST00000490028	transcribed_unprocessed_pseudogene	KNOWN	None	2017	None	None	87099959	87120428	1	CLCA3	None
1	CLCA3P	ENSG00000153923	ENST00000466454	processed_transcript	KNOWN	None	2017	None	None	87099959	87121059	1	CLCA3	None
HG858_PATCH	None	ENSG00000261001	ENST00000566972	lincRNA	KNOWN	None	None	None	None	86602	88133	-1	None	None
HG858_PATCH	None	ENSG00000261001	ENST00000566743	lincRNA	KNOWN	None	None	None	None	86661	88102	-1	None	None
4	LINC00499	ENSG00000251372	ENST00000502757	lincRNA	KNOWN	None	43436	None	None	139230865	139234874	1	None	None
4	LINC00499	ENSG00000251372	ENST00000507145	lincRNA	KNOWN	None	43436	None	None	139230866	139345498	1	None	None
4	LINC00499	ENSG00000251372	ENST00000515282	lincRNA	KNOWN	None	43436	None	None	139230896	139270987	1	None	None
4	LINC00499	ENSG00000251372	ENST00000510736	lincRNA	KNOWN	None	43436	None	None	139230896	139345303	1	None	None
2	None	ENSG00000271657	ENST00000605375	processed_pseudogene	KNOWN	None	None	None	None	62395997	62398298	1	None	None
6	None	ENSG00000237404	ENST00000450310	lincRNA	KNOWN	None	None	None	None	19690056	19753344	-1	None	None
6	None	ENSG00000237404	ENST00000424083	lincRNA	KNOWN	None	None	None	None	19740408	19749924	-1	None	None
19	None	ENSG00000268816	ENST00000594382	lincRNA	KNOWN	None	None	None	None	54697731	54698394	1	None	None
1	None	ENSG00000230987	ENST00000418655	processed_pseudogene	KNOWN	None	None	None	None	189958700	189962227	-1	None	None
3	RPL29P11	ENSG00000224858	ENST00000494408	processed_pseudogene	KNOWN	None	36905	None	None	37058014	37058505	-1	None	None
3	RPL29P11	ENSG00000224858	ENST00000600290	processed_pseudogene	KNOWN	None	36905	None	None	37058011	37058478	-1	None	None
17	INTS2	ENSG00000108506	ENST00000444766	protein_coding	KNOWN	CCDS45750	29241	3615	1204	59942731	60005377	-1	KIAA1287	INT2
17	INTS2	ENSG00000108506	ENST00000251334	protein_coding	NOVEL	None	29241	3591	1196	59944610	60005352	-1	KIAA1287	INT2
17	INTS2	ENSG00000108506	ENST00000583822	retained_intron	KNOWN	None	29241	None	None	59949384	59962366	-1	KIAA1287	INT2
17	INTS2	ENSG00000108506	ENST00000584967	retained_intron	KNOWN	None	29241	None	None	59955342	59962651	-1	KIAA1287	INT2
17	INTS2	ENSG00000108506	ENST00000578805	retained_intron	KNOWN	None	29241	None	None	59968938	59971547	-1	KIAA1287	INT2
17	INTS2	ENSG00000108506	ENST00000583076	protein_coding	NOVEL	None	29241	237	78	60003769	60004787	-1	KIAA1287	INT2
2	MIR5192	ENSG00000266097	ENST00000579892	miRNA	KNOWN	None	43473	None	None	62432961	62433052	1	None	hsa-mir-5192
16	None	ENSG00000261045	ENST00000564381	lincRNA	KNOWN	None	None	None	None	27169775	27187908	-1	None	None
1	None	ENSG00000232527	ENST00000420597	lincRNA	KNOWN	None	None	None	None	148928322	148932920	1	None	None
1	None	ENSG00000232527	ENST00000452399	lincRNA	KNOWN	None	None	None	None	148928322	148951594	1	None	None
1	None	ENSG00000232527	ENST00000294715	lincRNA	KNOWN	None	None	None	None	148928331	148933368	1	None	None
1	None	ENSG00000232527	ENST00000457390	lincRNA	KNOWN	None	None	None	None	148932785	148933579	1	None	None
1	None	ENSG00000232527	ENST00000539543	lincRNA	KNOWN	None	None	None	None	148928345	148951595	1	None	None
1	SNORA55	ENSG00000201457	ENST00000364587	snoRNA	KNOWN	None	32649	None	None	40033046	40033180	-1	None	ACA55
17	NOG	ENSG00000183691	ENST00000332822	protein_coding	KNOWN	CCDS11589	7866	699	232	54671060	54672951	1	SYNS1, SYM1	None
2	RN7SL51P	ENSG00000239958	ENST00000468230	misc_RNA	KNOWN	None	46067	None	None	62489524	62489806	-1	None	None
1	None	ENSG00000225903	ENST00000424418	antisense	KNOWN	None	None	None	None	40099088	40099575	1	None	None
5	None	ENSG00000253811	ENST00000522582	antisense	KNOWN	None	None	None	None	158410014	158411797	1	None	None
6	None	ENSG00000227116	ENST00000445568	lincRNA	KNOWN	None	None	None	None	19730658	19734798	-1	None	None
1	None	ENSG00000226919	ENST00000413801	antisense	KNOWN	None	None	None	None	240928857	240931980	1	None	None
2	None	ENSG00000238809	ENST00000459127	snoRNA	NOVEL	None	None	None	None	62492130	62492233	1	None	None
2	None	ENSG00000270335	ENST00000603429	processed_pseudogene	KNOWN	None	None	None	None	62576083	62577874	-1	None	None
10	BTBD16	ENSG00000138152	ENST00000260723	protein_coding	KNOWN	CCDS31301	26340	1521	506	124030821	124097677	1	C10orf87	FLJ25359, Em:AC061711.1
10	BTBD16	ENSG00000138152	ENST00000507495	processed_transcript	KNOWN	None	26340	None	None	124050596	124051205	1	C10orf87	FLJ25359, Em:AC061711.1
10	BTBD16	ENSG00000138152	ENST00000495370	processed_transcript	KNOWN	None	26340	None	None	124091482	124096137	1	C10orf87	FLJ25359, Em:AC061711.1
10	BTBD16	ENSG00000138152	ENST00000368994	protein_coding	KNOWN	None	26340	1524	507	124030821	124097676	1	C10orf87	FLJ25359, Em:AC061711.1
1	PRKRIRP8	ENSG00000223963	ENST00000447914	processed_pseudogene	KNOWN	None	39572	None	None	240932720	240934834	-1	None	None
1	None	ENSG00000225811	ENST00000452178	antisense	KNOWN	None	None	None	None	190234028	190331400	1	None	None
1	None	ENSG00000225333	ENST00000497982	processed_pseudogene	KNOWN	None	None	None	None	40183700	40184267	1	None	None
1	None	ENSG00000225333	ENST00000536963	processed_pseudogene	KNOWN	None	None	None	None	40183700	40183828	1	None	None
X	RS1	ENSG00000102104	ENST00000379984	protein_coding	KNOWN	CCDS14187	10457	675	224	18658030	18690229	-1	RS	XLRS1
X	RS1	ENSG00000102104	ENST00000476595	processed_transcript	KNOWN	None	10457	None	None	18660044	18668657	-1	RS	XLRS1
3	OR7E55P	ENSG00000230655	ENST00000504027	unprocessed_pseudogene	KNOWN	None	8430	None	None	75419599	75420493	-1	OR7E56P	OR2DG, OR3.2, OST013
19	None	ENSG00000223660	ENST00000426213	antisense	KNOWN	None	None	None	None	54703321	54703838	-1	None	None
11	None	ENSG00000252652	ENST00000516843	misc_RNA	NOVEL	None	None	None	None	43352811	43352906	1	None	None
2	None	ENSG00000228541	ENST00000416845	lincRNA	KNOWN	None	None	None	None	62690262	62691205	1	None	None
4	LINC00500	ENSG00000249381	ENST00000515860	lincRNA	KNOWN	None	43437	None	None	139346677	139358023	1	None	None
12	MIR200C	ENSG00000207713	ENST00000384980	miRNA	KNOWN	None	31580	None	None	7072862	7072929	1	MIRN200C	hsa-mir-200c
1	RNU7-121P	ENSG00000252413	ENST00000516604	snRNA	KNOWN	None	45655	None	None	40189238	40189299	-1	None	None
3	None	ENSG00000243596	ENST00000464158	processed_pseudogene	KNOWN	None	None	None	None	146060783	146066267	-1	None	None
21	CBR3	ENSG00000159231	ENST00000290354	protein_coding	KNOWN	CCDS13642	1549	834	277	37507210	37518864	1	None	SDR21C2
7	None	ENSG00000231537	ENST00000455912	unprocessed_pseudogene	KNOWN	None	None	None	None	57235587	57236358	1	None	None
4	None	ENSG00000248305	ENST00000506991	processed_pseudogene	KNOWN	None	None	None	None	139402409	139403250	-1	None	None
2	RN7SL18P	ENSG00000241625	ENST00000466851	misc_RNA	KNOWN	None	46034	None	None	62718313	62718601	1	None	None
1	None	ENSG00000261798	ENST00000566366	antisense	KNOWN	None	None	None	None	40254648	40255843	1	None	None
11	None	ENSG00000255340	ENST00000530042	antisense	KNOWN	None	None	None	None	43400432	43407221	-1	None	None
1	RFKP1	ENSG00000215802	ENST00000400940	transcribed_processed_pseudogene	KNOWN	None	39181	None	None	240986306	240986733	-1	None	None
2	None	ENSG00000233702	ENST00000439643	processed_pseudogene	KNOWN	None	None	None	None	62734680	62734958	-1	None	None
1	None	ENSG00000229213	ENST00000446772	unprocessed_pseudogene	KNOWN	None	None	None	None	40261515	40261668	-1	None	None
HSCHR12_2_CTG2	TAS2R7	ENSG00000271906	ENST00000574656	protein_coding	KNOWN	None	14913	957	318	10954131	10955226	-1	None	T2R7, TRB4
1	None	ENSG00000237457	ENST00000436905	lincRNA	KNOWN	None	None	None	None	190447681	190449865	1	None	None
1	None	ENSG00000237457	ENST00000424735	lincRNA	KNOWN	None	None	None	None	190448136	190449865	1	None	None
12	MIR141	ENSG00000207708	ENST00000384975	miRNA	KNOWN	None	31528	None	None	7073260	7073354	1	MIRN141	hsa-mir-141
Y	TTTY21	ENSG00000228890	ENST00000430228	lincRNA	KNOWN	None	18845	None	None	9555262	9558905	-1	None	NCRNA00146
3	None	ENSG00000244699	ENST00000493276	unprocessed_pseudogene	KNOWN	None	None	None	None	75433210	75440961	-1	None	None
1	None	ENSG00000202222	ENST00000365352	misc_RNA	NOVEL	None	None	None	None	40347238	40347350	-1	None	None
11	SF1	ENSG00000168066	ENST00000377387	protein_coding	PUTATIVE	CCDS53661	12950	2022	673	64532078	64545941	-1	ZNF162	ZFM1, ZCCHC25
11	SF1	ENSG00000168066	ENST00000377390	protein_coding	KNOWN	CCDS31599	12950	1920	639	64532078	64546202	-1	ZNF162	ZFM1, ZCCHC25
11	SF1	ENSG00000168066	ENST00000227503	protein_coding	KNOWN	CCDS8081	12950	1647	548	64532078	64546219	-1	ZNF162	ZFM1, ZCCHC25
11	SF1	ENSG00000168066	ENST00000448404	nonsense_mediated_decay	KNOWN	None	12950	333	110	64532078	64546219	-1	ZNF162	ZFM1, ZCCHC25
11	SF1	ENSG00000168066	ENST00000377394	protein_coding	KNOWN	CCDS44642	12950	1716	571	64532078	64546219	-1	ZNF162	ZFM1, ZCCHC25
11	SF1	ENSG00000168066	ENST00000334944	protein_coding	KNOWN	CCDS8080	12950	1917	638	64532078	64546258	-1	ZNF162	ZFM1, ZCCHC25
11	SF1	ENSG00000168066	ENST00000443908	protein_coding	NOVEL	None	12950	603	200	64532762	64535316	-1	ZNF162	ZFM1, ZCCHC25
11	SF1	ENSG00000168066	ENST00000413725	protein_coding	PUTATIVE	None	12950	541	179	64533076	64535089	-1	ZNF162	ZFM1, ZCCHC25
11	SF1	ENSG00000168066	ENST00000433274	protein_coding	PUTATIVE	CCDS53660	12950	1842	613	64533124	64545232	-1	ZNF162	ZFM1, ZCCHC25
11	SF1	ENSG00000168066	ENST00000486867	protein_coding	PUTATIVE	None	12950	875	290	64533493	64536543	-1	ZNF162	ZFM1, ZCCHC25
11	SF1	ENSG00000168066	ENST00000477596	retained_intron	KNOWN	None	12950	None	None	64533886	64535118	-1	ZNF162	ZFM1, ZCCHC25
11	SF1	ENSG00000168066	ENST00000489544	processed_transcript	KNOWN	None	12950	None	None	64535643	64537141	-1	ZNF162	ZFM1, ZCCHC25
11	SF1	ENSG00000168066	ENST00000486960	retained_intron	KNOWN	None	12950	None	None	64536750	64538111	-1	ZNF162	ZFM1, ZCCHC25
11	SF1	ENSG00000168066	ENST00000496969	processed_transcript	KNOWN	None	12950	None	None	64537014	64539079	-1	ZNF162	ZFM1, ZCCHC25
11	SF1	ENSG00000168066	ENST00000413951	nonsense_mediated_decay	KNOWN	None	12950	156	51	64537769	64545979	-1	ZNF162	ZFM1, ZCCHC25
11	SF1	ENSG00000168066	ENST00000432725	protein_coding	PUTATIVE	None	12950	187	61	64537852	64545233	-1	ZNF162	ZFM1, ZCCHC25
11	SF1	ENSG00000168066	ENST00000482693	retained_intron	KNOWN	None	12950	None	None	64540495	64545976	-1	ZNF162	ZFM1, ZCCHC25
11	SF1	ENSG00000168066	ENST00000472725	retained_intron	KNOWN	None	12950	None	None	64543518	64545509	-1	ZNF162	ZFM1, ZCCHC25
11	SF1	ENSG00000168066	ENST00000463343	retained_intron	KNOWN	None	12950	None	None	64543518	64546235	-1	ZNF162	ZFM1, ZCCHC25
11	SF1	ENSG00000168066	ENST00000422298	protein_coding	KNOWN	None	12950	1302	433	64532565	64546241	-1	ZNF162	ZFM1, ZCCHC25
11	None	ENSG00000254577	ENST00000394183	processed_transcript	PUTATIVE	None	None	None	None	43411833	43417045	1	None	None
2	None	ENSG00000229503	ENST00000454675	processed_pseudogene	KNOWN	None	None	None	None	62759718	62760194	-1	None	None
12	None	ENSG00000252547	ENST00000516738	miRNA	NOVEL	None	None	None	None	69511348	69511432	-1	None	None
HSCHR12_2_CTG2	TAS2R8	ENSG00000271940	ENST00000572823	protein_coding	KNOWN	None	14915	930	309	10958650	10959892	-1	None	T2R8, TRB5
1	None	ENSG00000236546	ENST00000418255	antisense	KNOWN	None	None	None	None	40363417	40364770	1	None	None
1	None	ENSG00000264022	ENST00000581702	miRNA	NOVEL	None	None	None	None	149036312	149036377	-1	None	None
3	None	ENSG00000206645	ENST00000383918	misc_RNA	NOVEL	None	None	None	None	37134624	37134725	-1	None	None
1	HNRNPA1P42	ENSG00000233615	ENST00000458678	processed_pseudogene	KNOWN	None	48771	None	None	241082953	241083909	1	None	None
7	MTND4P4	ENSG00000225295	ENST00000439033	unprocessed_pseudogene	KNOWN	None	42191	None	None	57237113	57238478	1	None	None
12	None	ENSG00000258140	ENST00000548266	lincRNA	KNOWN	None	None	None	None	69605903	69618022	1	None	None
20	SLA2	ENSG00000101082	ENST00000262866	protein_coding	KNOWN	CCDS13282	17329	786	261	35240721	35274619	-1	C20orf156	FLJ21992, SLAP-2
20	SLA2	ENSG00000101082	ENST00000360672	protein_coding	KNOWN	CCDS13283	17329	633	210	35240922	35274284	-1	C20orf156	FLJ21992, SLAP-2
12	None	ENSG00000271969	ENST00000606539	lincRNA	KNOWN	None	None	None	None	7074112	7074545	1	None	None
11	SLC25A45	ENSG00000162241	ENST00000534338	retained_intron	KNOWN	None	27442	None	None	65142663	65145496	-1	None	None
11	SLC25A45	ENSG00000162241	ENST00000527174	protein_coding	KNOWN	CCDS41670	27442	867	288	65142663	65149478	-1	None	None
11	SLC25A45	ENSG00000162241	ENST00000534028	protein_coding	NOVEL	None	27442	795	264	65142663	65149844	-1	None	None
11	SLC25A45	ENSG00000162241	ENST00000294187	protein_coding	KNOWN	CCDS41671	27442	741	246	65142665	65150109	-1	None	None
11	SLC25A45	ENSG00000162241	ENST00000531791	retained_intron	KNOWN	None	27442	None	None	65142665	65150117	-1	None	None
11	SLC25A45	ENSG00000162241	ENST00000526898	nonsense_mediated_decay	KNOWN	None	27442	144	47	65142666	65151172	-1	None	None
11	SLC25A45	ENSG00000162241	ENST00000526432	protein_coding	NOVEL	None	27442	681	226	65143665	65149422	-1	None	None
11	SLC25A45	ENSG00000162241	ENST00000533629	nonsense_mediated_decay	KNOWN	None	27442	111	36	65144028	65150102	-1	None	None
11	SLC25A45	ENSG00000162241	ENST00000526259	nonsense_mediated_decay	KNOWN	None	27442	111	36	65144382	65149449	-1	None	None
11	SLC25A45	ENSG00000162241	ENST00000530936	protein_coding	KNOWN	None	27442	354	117	65144533	65150145	-1	None	None
11	SLC25A45	ENSG00000162241	ENST00000529962	nonsense_mediated_decay	KNOWN	None	27442	153	50	65146924	65150116	-1	None	None
11	SLC25A45	ENSG00000162241	ENST00000524438	nonsense_mediated_decay	KNOWN	None	27442	144	47	65146928	65150144	-1	None	None
11	SLC25A45	ENSG00000162241	ENST00000525944	retained_intron	KNOWN	None	27442	None	None	65146929	65148460	-1	None	None
11	SLC25A45	ENSG00000162241	ENST00000529431	retained_intron	KNOWN	None	27442	None	None	65149059	65150113	-1	None	None
11	SLC25A45	ENSG00000162241	ENST00000398802	protein_coding	KNOWN	CCDS41670	27442	867	288	65142663	65150142	-1	None	None
11	SLC25A45	ENSG00000162241	ENST00000360662	protein_coding	KNOWN	None	27442	795	264	65142663	65150142	-1	None	None
11	SLC25A45	ENSG00000162241	ENST00000377152	protein_coding	KNOWN	None	27442	555	184	65142663	65150142	-1	None	None
11	SLC25A45	ENSG00000162241	ENST00000417511	protein_coding	KNOWN	CCDS41671	27442	741	246	65142666	65151172	-1	None	None
3	None	ENSG00000271856	ENST00000607746	lincRNA	KNOWN	None	None	None	None	107844668	107857457	1	None	None
1	None	ENSG00000203825	ENST00000449715	unprocessed_pseudogene	KNOWN	None	None	None	None	149036435	149067496	1	None	None
1	None	ENSG00000207356	ENST00000384626	misc_RNA	NOVEL	None	None	None	None	40410562	40410670	-1	None	None
3	LSP1P2	ENSG00000240665	ENST00000479042	processed_pseudogene	KNOWN	None	39717	None	None	75444339	75444471	1	None	None
3	UBE2D3P2	ENSG00000225558	ENST00000424409	processed_pseudogene	KNOWN	None	39010	None	None	37176149	37176593	1	None	None
1	None	ENSG00000228477	ENST00000438210	processed_pseudogene	KNOWN	None	None	None	None	40428352	40429076	1	None	None
17	KRT16	ENSG00000186832	ENST00000301653	protein_coding	KNOWN	CCDS11401	6423	1422	473	39766030	39769005	-1	None	NEPPK
17	KRT16	ENSG00000186832	ENST00000593067	protein_coding	PUTATIVE	None	6423	488	161	39766661	39769151	-1	None	NEPPK
17	KRT16	ENSG00000186832	ENST00000588319	retained_intron	KNOWN	None	6423	None	None	39768018	39769017	-1	None	NEPPK
17	KRT16	ENSG00000186832	ENST00000590990	protein_coding	KNOWN	None	6423	146	47	39768795	39772151	-1	None	NEPPK
1	None	ENSG00000238085	ENST00000437248	processed_pseudogene	KNOWN	None	None	None	None	241161751	241162094	-1	None	None
2	PSAT1P2	ENSG00000232144	ENST00000426107	processed_pseudogene	KNOWN	None	43988	None	None	62779598	62780569	-1	None	None
1	None	ENSG00000241505	ENST00000417409	lincRNA	KNOWN	None	None	None	None	190449509	190463427	1	None	None
2	CD8A	ENSG00000153563	ENST00000352580	protein_coding	KNOWN	CCDS1993	1706	597	198	87011733	87018018	-1	CD8	None
2	CD8A	ENSG00000153563	ENST00000283635	protein_coding	KNOWN	CCDS1992	1706	708	235	87011733	87018803	-1	CD8	None
2	CD8A	ENSG00000153563	ENST00000409511	protein_coding	KNOWN	CCDS1992	1706	708	235	87011734	87035519	-1	CD8	None
2	CD8A	ENSG00000153563	ENST00000409781	protein_coding	KNOWN	None	1706	597	198	87013043	87017948	-1	CD8	None
2	CD8A	ENSG00000153563	ENST00000538832	protein_coding	KNOWN	None	1706	831	276	87012962	87018803	-1	CD8	None
2	CD8A	ENSG00000153563	ENST00000456996	protein_coding	KNOWN	CCDS1993	1706	597	198	87011729	87035519	-1	CD8	None
11	MALAT1	ENSG00000251562	ENST00000534336	lincRNA	KNOWN	None	29665	None	None	65265233	65273940	1	None	PRO1073, MALAT-1, NCRNA00047, HCN, NEAT2, LINC00047
11	MALAT1	ENSG00000251562	ENST00000508832	lincRNA	KNOWN	None	29665	None	None	65269807	65271080	1	None	PRO1073, MALAT-1, NCRNA00047, HCN, NEAT2, LINC00047
11	MALAT1	ENSG00000251562	ENST00000544868	lincRNA	KNOWN	None	29665	None	None	65266516	65271100	1	None	PRO1073, MALAT-1, NCRNA00047, HCN, NEAT2, LINC00047
9	None	ENSG00000240791	ENST00000431728	unprocessed_pseudogene	KNOWN	None	None	None	None	94872857	94873150	1	None	None
3	None	ENSG00000241358	ENST00000490344	processed_transcript	KNOWN	None	None	None	None	146109150	146134390	-1	None	None
3	None	ENSG00000241358	ENST00000482888	transcribed_processed_pseudogene	KNOWN	None	None	None	None	146113527	146134364	-1	None	None
HG418_PATCH	LY6K	ENSG00000262378	ENST00000572300	protein_coding	KNOWN	None	24225	498	165	143781472	143786488	1	None	HSJ001348, FLJ35226, CT97
HG418_PATCH	LY6K	ENSG00000262378	ENST00000571924	protein_coding	PUTATIVE	None	24225	303	100	143781474	143784083	1	None	HSJ001348, FLJ35226, CT97
HG418_PATCH	LY6K	ENSG00000262378	ENST00000574968	protein_coding	PUTATIVE	None	24225	318	105	143781475	143784815	1	None	HSJ001348, FLJ35226, CT97
HG418_PATCH	LY6K	ENSG00000262378	ENST00000570580	protein_coding	PUTATIVE	None	24225	258	85	143781833	143785525	1	None	HSJ001348, FLJ35226, CT97
HG418_PATCH	LY6K	ENSG00000262378	ENST00000574492	processed_transcript	PUTATIVE	None	24225	None	None	143782960	143784821	1	None	HSJ001348, FLJ35226, CT97
1	TRIM58	ENSG00000162722	ENST00000366481	protein_coding	KNOWN	CCDS1636	24150	1461	486	248020501	248041507	1	None	BIA2
1	None	ENSG00000231175	ENST00000413356	lincRNA	KNOWN	None	None	None	None	190594020	190770788	1	None	None
12	SNORA2B	ENSG00000207313	ENST00000384583	snoRNA	KNOWN	None	32585	None	None	49061240	49061376	-1	None	ACA2b
1	None	ENSG00000226745	ENST00000430724	processed_pseudogene	KNOWN	None	None	None	None	40598436	40599120	1	None	None
Y	TTTY2	ENSG00000212855	ENST00000417072	lincRNA	KNOWN	None	14023	None	None	9578193	9596085	1	None	TTY2, lINC00109
17	None	ENSG00000265118	ENST00000578584	protein_coding	PUTATIVE	None	None	562	186	29632231	29645849	-1	None	None
17	None	ENSG00000265118	ENST00000578021	nonsense_mediated_decay	KNOWN	None	None	371	122	29632361	29645658	-1	None	None
17	None	ENSG00000265118	ENST00000584948	protein_coding	PUTATIVE	None	None	353	116	29632374	29645658	-1	None	None
17	None	ENSG00000265118	ENST00000581884	nonsense_mediated_decay	KNOWN	None	None	460	152	29632402	29645657	-1	None	None
11	None	ENSG00000213365	ENST00000393668	processed_pseudogene	KNOWN	None	None	None	None	71991195	71992222	1	None	None
2	RSL24D1P2	ENSG00000230595	ENST00000445584	processed_pseudogene	KNOWN	None	37867	None	None	62788193	62788558	-1	None	None
1	None	ENSG00000236025	ENST00000412675	processed_pseudogene	KNOWN	None	None	None	None	190750917	190751125	1	None	None
17	C17orf67	ENSG00000214226	ENST00000570754	retained_intron	KNOWN	None	27900	None	None	54869274	54872653	-1	None	None
17	C17orf67	ENSG00000214226	ENST00000397861	protein_coding	KNOWN	CCDS42364	27900	273	90	54869274	54911257	-1	None	None
17	C17orf67	ENSG00000214226	ENST00000487705	processed_transcript	KNOWN	None	27900	None	None	54902108	54916134	-1	None	None
17	C17orf67	ENSG00000214226	ENST00000575658	protein_coding	KNOWN	None	27900	345	114	54869275	54911256	-1	None	None
17	C17orf67	ENSG00000214226	ENST00000397862	protein_coding	KNOWN	None	27900	345	114	54869275	54893250	-1	None	None
2	MIR548F2	ENSG00000221782	ENST00000408855	miRNA	KNOWN	None	35306	None	None	213290987	213291084	-1	MIRN548F2	hsa-mir-548f-2
3	None	ENSG00000242953	ENST00000487255	processed_pseudogene	KNOWN	None	None	None	None	75444555	75444687	-1	None	None
10	HPSE2	ENSG00000172987	ENST00000370552	protein_coding	KNOWN	CCDS7477	18374	1779	592	100218875	100995619	-1	UFS	HPA2, HPR2
10	HPSE2	ENSG00000172987	ENST00000370549	protein_coding	KNOWN	CCDS53567	18374	1605	534	100218875	100995619	-1	UFS	HPA2, HPR2
10	HPSE2	ENSG00000172987	ENST00000370546	protein_coding	KNOWN	CCDS53568	18374	1647	548	100219331	100995559	-1	UFS	HPA2, HPR2
10	HPSE2	ENSG00000172987	ENST00000404542	protein_coding	KNOWN	CCDS53566	18374	1443	480	100219331	100995559	-1	UFS	HPA2, HPR2
2	GALNT14	ENSG00000158089	ENST00000324589	protein_coding	NOVEL	CCDS58706	22946	1674	557	31133333	31361013	-1	None	GalNac-T10, FLJ12691, GalNac-T14
2	GALNT14	ENSG00000158089	ENST00000349752	protein_coding	KNOWN	CCDS1773	22946	1659	552	31133333	31361592	-1	None	GalNac-T10, FLJ12691, GalNac-T14
2	GALNT14	ENSG00000158089	ENST00000406653	protein_coding	PUTATIVE	CCDS58705	22946	1599	532	31133334	31352490	-1	None	GalNac-T10, FLJ12691, GalNac-T14
2	GALNT14	ENSG00000158089	ENST00000475320	processed_transcript	KNOWN	None	22946	None	None	31133465	31147689	-1	None	GalNac-T10, FLJ12691, GalNac-T14
2	GALNT14	ENSG00000158089	ENST00000486564	processed_transcript	KNOWN	None	22946	None	None	31133565	31178550	-1	None	GalNac-T10, FLJ12691, GalNac-T14
2	GALNT14	ENSG00000158089	ENST00000430167	protein_coding	NOVEL	None	22946	1202	399	31147064	31361369	-1	None	GalNac-T10, FLJ12691, GalNac-T14
2	GALNT14	ENSG00000158089	ENST00000455477	nonsense_mediated_decay	KNOWN	None	22946	212	69	31147651	31360921	-1	None	GalNac-T10, FLJ12691, GalNac-T14
2	GALNT14	ENSG00000158089	ENST00000464038	processed_transcript	KNOWN	None	22946	None	None	31154983	31378068	-1	None	GalNac-T10, FLJ12691, GalNac-T14
2	GALNT14	ENSG00000158089	ENST00000481023	processed_transcript	KNOWN	None	22946	None	None	31155033	31214075	-1	None	GalNac-T10, FLJ12691, GalNac-T14
2	GALNT14	ENSG00000158089	ENST00000424136	nonsense_mediated_decay	KNOWN	None	22946	116	37	31168708	31360921	-1	None	GalNac-T10, FLJ12691, GalNac-T14
2	GALNT14	ENSG00000158089	ENST00000496397	processed_transcript	KNOWN	None	22946	None	None	31178596	31352243	-1	None	GalNac-T10, FLJ12691, GalNac-T14
2	GALNT14	ENSG00000158089	ENST00000461193	processed_transcript	KNOWN	None	22946	None	None	31178795	31360887	-1	None	GalNac-T10, FLJ12691, GalNac-T14
2	GALNT14	ENSG00000158089	ENST00000490212	processed_transcript	KNOWN	None	22946	None	None	31189138	31352506	-1	None	GalNac-T10, FLJ12691, GalNac-T14
2	GALNT14	ENSG00000158089	ENST00000498206	processed_transcript	KNOWN	None	22946	None	None	31189143	31349727	-1	None	GalNac-T10, FLJ12691, GalNac-T14
2	GALNT14	ENSG00000158089	ENST00000485468	processed_transcript	KNOWN	None	22946	None	None	31287991	31369844	-1	None	GalNac-T10, FLJ12691, GalNac-T14
2	GALNT14	ENSG00000158089	ENST00000356174	protein_coding	KNOWN	None	22946	1560	519	31133341	31360962	-1	None	GalNac-T10, FLJ12691, GalNac-T14
2	GALNT14	ENSG00000158089	ENST00000420311	protein_coding	KNOWN	None	22946	1554	517	31133663	31360887	-1	None	GalNac-T10, FLJ12691, GalNac-T14
14	None	ENSG00000237342	ENST00000421617	lincRNA	KNOWN	None	None	None	None	99311233	99311934	1	None	None
2	None	ENSG00000226622	ENST00000444672	antisense	KNOWN	None	None	None	None	62817390	62889789	-1	None	None
2	None	ENSG00000226622	ENST00000416111	antisense	KNOWN	None	None	None	None	62839007	62889763	-1	None	None
1	None	ENSG00000238108	ENST00000445040	processed_pseudogene	KNOWN	None	None	None	None	190766654	190767086	1	None	None
1	RNU6-1237P	ENSG00000207508	ENST00000384777	snRNA	KNOWN	None	48200	None	None	40643515	40643621	1	None	None
2	None	ENSG00000236193	ENST00000415387	sense_overlapping	KNOWN	None	None	None	None	213446081	213886269	-1	None	None
2	None	ENSG00000236193	ENST00000426870	lincRNA	KNOWN	None	None	None	None	214020530	214032436	-1	None	None
3	ALG1L6P	ENSG00000238278	ENST00000515248	unprocessed_pseudogene	KNOWN	None	44375	None	None	75464221	75471294	1	None	None
7	AMZ1	ENSG00000174945	ENST00000312371	protein_coding	KNOWN	CCDS34589	22231	1497	498	2719156	2756163	1	None	KIAA1950
7	AMZ1	ENSG00000174945	ENST00000407112	protein_coding	PUTATIVE	None	22231	894	297	2727836	2752734	1	None	KIAA1950
7	AMZ1	ENSG00000174945	ENST00000485540	processed_transcript	KNOWN	None	22231	None	None	2741655	2748823	1	None	KIAA1950
7	AMZ1	ENSG00000174945	ENST00000480560	retained_intron	KNOWN	None	22231	None	None	2742110	2748748	1	None	KIAA1950
7	AMZ1	ENSG00000174945	ENST00000489665	processed_transcript	KNOWN	None	22231	None	None	2742164	2804759	1	None	KIAA1950
7	AMZ1	ENSG00000174945	ENST00000433945	processed_transcript	PUTATIVE	None	22231	None	None	2804242	2815134	1	None	KIAA1950
1	PIGM	ENSG00000143315	ENST00000368090	protein_coding	KNOWN	CCDS1192	18858	1272	423	159997462	160001783	-1	None	GPI-MT-I
1	None	ENSG00000259943	ENST00000567508	antisense	KNOWN	None	None	None	None	40722099	40723639	-1	None	None
4	None	ENSG00000249887	ENST00000503681	processed_pseudogene	KNOWN	None	None	None	None	41926197	41926397	1	None	None
3	None	ENSG00000221724	ENST00000408797	miRNA	KNOWN	None	None	None	None	108039239	108039325	1	None	None
8	None	ENSG00000253544	ENST00000522049	processed_pseudogene	KNOWN	None	None	None	None	62822543	62823361	-1	None	None
1	None	ENSG00000231296	ENST00000447743	processed_pseudogene	KNOWN	None	None	None	None	40728344	40728656	-1	None	None
11	RN7SKP287	ENSG00000252355	ENST00000516546	misc_RNA	KNOWN	None	46011	None	None	43456682	43456947	-1	None	None
12	None	ENSG00000257653	ENST00000548742	antisense	KNOWN	None	None	None	None	49159977	49161106	1	None	None
1	NBPF23	ENSG00000179571	ENST00000401087	unprocessed_pseudogene	KNOWN	None	37075	None	None	149089875	149130302	-1	None	None
1	NBPF23	ENSG00000179571	ENST00000392971	unprocessed_pseudogene	KNOWN	None	37075	None	None	149094536	149101294	-1	None	None
8	None	ENSG00000255487	ENST00000529325	antisense	KNOWN	None	None	None	None	38133406	38134198	1	None	None
1	HNRNPA1P46	ENSG00000228020	ENST00000411735	processed_pseudogene	KNOWN	None	48776	None	None	191115155	191116091	-1	None	None
12	SCARNA12	ENSG00000238795	ENST00000459155	snoRNA	KNOWN	None	32569	None	None	7076500	7076769	-1	None	U89
15	None	ENSG00000238767	ENST00000458787	snoRNA	NOVEL	None	None	None	None	59682407	59682516	1	None	None
HSCHR4_1_CTG6	None	ENSG00000263270	ENST00000570815	lincRNA	KNOWN	None	None	None	None	34659228	34670362	1	None	None
HSCHR4_1_CTG6	None	ENSG00000263270	ENST00000574620	lincRNA	KNOWN	None	None	None	None	34659228	34671018	1	None	None
HSCHR4_1_CTG6	None	ENSG00000263270	ENST00000572477	lincRNA	KNOWN	None	None	None	None	34670388	34671054	1	None	None
2	None	ENSG00000221388	ENST00000408461	miRNA	NOVEL	None	None	None	None	213628294	213628399	-1	None	None
1	MIR3123	ENSG00000265831	ENST00000583417	miRNA	KNOWN	None	38330	None	None	241295572	241295646	1	None	hsa-mir-3123
12	None	ENSG00000257818	ENST00000548895	processed_pseudogene	KNOWN	None	None	None	None	69678177	69679265	1	None	None
1	None	ENSG00000227311	ENST00000600955	processed_pseudogene	KNOWN	None	None	None	None	40798750	40799229	-1	None	None
1	None	ENSG00000227311	ENST00000430225	processed_pseudogene	KNOWN	None	None	None	None	40798748	40799230	-1	None	None
11	None	ENSG00000254463	ENST00000529659	processed_pseudogene	KNOWN	None	None	None	None	43487942	43488421	1	None	None
10	PPP2R2D	ENSG00000175470	ENST00000455566	protein_coding	KNOWN	None	23732	1269	422	133747955	133773331	1	None	MDS026
10	PPP2R2D	ENSG00000175470	ENST00000482010	nonsense_mediated_decay	KNOWN	None	23732	136	44	133747960	133770059	1	None	MDS026
10	PPP2R2D	ENSG00000175470	ENST00000517472	retained_intron	KNOWN	None	23732	None	None	133753280	133757510	1	None	MDS026
10	PPP2R2D	ENSG00000175470	ENST00000490777	retained_intron	KNOWN	None	23732	None	None	133753663	133769746	1	None	MDS026
10	PPP2R2D	ENSG00000175470	ENST00000470416	processed_transcript	KNOWN	None	23732	None	None	133754105	133769284	1	None	MDS026
10	PPP2R2D	ENSG00000175470	ENST00000472664	retained_intron	KNOWN	None	23732	None	None	133754111	133759429	1	None	MDS026
10	PPP2R2D	ENSG00000175470	ENST00000422256	protein_coding	KNOWN	None	23732	408	135	133753533	133770019	1	None	MDS026
14	None	ENSG00000252792	ENST00000516983	snoRNA	NOVEL	None	None	None	None	68212084	68212191	-1	None	None
17	None	ENSG00000261976	ENST00000572491	antisense	KNOWN	None	None	None	None	48917418	48918987	-1	None	None
8	None	ENSG00000253789	ENST00000518524	transcribed_processed_pseudogene	KNOWN	None	None	None	None	63023083	63023761	1	None	None
8	None	ENSG00000253789	ENST00000522022	processed_transcript	KNOWN	None	None	None	None	63023611	63032457	1	None	None
1	None	ENSG00000224348	ENST00000424448	processed_pseudogene	KNOWN	None	None	None	None	241468880	241469182	-1	None	None
2	None	ENSG00000234308	ENST00000434559	lincRNA	KNOWN	None	None	None	None	213660055	213661444	1	None	None
2	None	ENSG00000234308	ENST00000453965	lincRNA	KNOWN	None	None	None	None	213660064	213683986	1	None	None
9	SLC35D2	ENSG00000130958	ENST00000490599	processed_transcript	KNOWN	None	20799	None	None	99082988	99086451	-1	None	UGTrel8, SQV7L
9	SLC35D2	ENSG00000130958	ENST00000253270	protein_coding	KNOWN	CCDS6717	20799	1014	337	99082988	99145979	-1	None	UGTrel8, SQV7L
9	SLC35D2	ENSG00000130958	ENST00000375257	protein_coding	KNOWN	None	20799	492	163	99113032	99145964	-1	None	UGTrel8, SQV7L
9	SLC35D2	ENSG00000130958	ENST00000482643	processed_transcript	KNOWN	None	20799	None	None	99113389	99145962	-1	None	UGTrel8, SQV7L
9	SLC35D2	ENSG00000130958	ENST00000375259	protein_coding	KNOWN	None	20799	750	249	99082989	99145992	-1	None	UGTrel8, SQV7L
3	HNRNPA1P17	ENSG00000243188	ENST00000496620	unprocessed_pseudogene	KNOWN	None	39135	None	None	108044367	108045661	-1	None	None
15	None	ENSG00000259521	ENST00000558967	antisense	KNOWN	None	None	None	None	41309005	41316740	1	None	None
15	None	ENSG00000259521	ENST00000560178	antisense	KNOWN	None	None	None	None	41316697	41320091	1	None	None
4	ATP1B1P1	ENSG00000249212	ENST00000509767	unprocessed_pseudogene	KNOWN	None	809	None	None	42031226	42032140	1	ATP1BL1	None
2	None	ENSG00000252436	ENST00000516627	misc_RNA	NOVEL	None	None	None	None	62953771	62953875	-1	None	None
1	None	ENSG00000261642	ENST00000563320	lincRNA	KNOWN	None	None	None	None	191120640	191123764	1	None	None
11	SIPA1	ENSG00000213445	ENST00000534313	protein_coding	KNOWN	CCDS8108	10885	3129	1042	65405568	65418401	1	None	SPA1
11	SIPA1	ENSG00000213445	ENST00000533361	protein_coding	KNOWN	None	10885	308	101	65405607	65408700	1	None	SPA1
11	SIPA1	ENSG00000213445	ENST00000526137	protein_coding	KNOWN	None	10885	19	5	65405623	65408411	1	None	SPA1
11	SIPA1	ENSG00000213445	ENST00000527525	protein_coding	NOVEL	None	10885	2823	940	65407337	65418351	1	None	SPA1
11	SIPA1	ENSG00000213445	ENST00000394224	protein_coding	KNOWN	CCDS8108	10885	3129	1042	65407592	65418389	1	None	SPA1
11	SIPA1	ENSG00000213445	ENST00000534406	retained_intron	KNOWN	None	10885	None	None	65409589	65410024	1	None	SPA1
11	SIPA1	ENSG00000213445	ENST00000530226	retained_intron	KNOWN	None	10885	None	None	65413282	65414181	1	None	SPA1
11	SIPA1	ENSG00000213445	ENST00000531339	retained_intron	KNOWN	None	10885	None	None	65414837	65417950	1	None	SPA1
11	SIPA1	ENSG00000213445	ENST00000529725	retained_intron	KNOWN	None	10885	None	None	65417157	65418058	1	None	SPA1
11	SIPA1	ENSG00000213445	ENST00000528699	retained_intron	KNOWN	None	10885	None	None	65417753	65418389	1	None	SPA1
11	SIPA1	ENSG00000213445	ENST00000394227	protein_coding	KNOWN	None	10885	2823	940	65408299	65418351	1	None	SPA1
17	RPL5P33	ENSG00000243521	ENST00000487833	processed_pseudogene	KNOWN	None	36703	None	None	48925311	48926631	1	None	None
HSCHR12_2_CTG2	TAS2R9	ENSG00000271839	ENST00000573524	protein_coding	KNOWN	None	14917	939	312	10961736	10962767	-1	None	T2R9, TRB6
11	None	ENSG00000270117	ENST00000602344	lincRNA	KNOWN	None	None	None	None	65265481	65265876	-1	None	None
2	None	ENSG00000226605	ENST00000452397	antisense	KNOWN	None	None	None	None	63053199	63085573	-1	None	None
1	None	ENSG00000261737	ENST00000565575	antisense	KNOWN	None	None	None	None	87169185	87170145	-1	None	None
3	SERP1	ENSG00000120742	ENST00000479209	protein_coding	KNOWN	CCDS3150	10759	201	66	150259785	150320961	-1	None	RAMP4, FLJ43424
3	SERP1	ENSG00000120742	ENST00000487153	protein_coding	PUTATIVE	None	10759	168	55	150262079	150264288	-1	None	RAMP4, FLJ43424
3	SERP1	ENSG00000120742	ENST00000491660	protein_coding	PUTATIVE	None	10759	237	78	150263184	150264286	-1	None	RAMP4, FLJ43424
3	SERP1	ENSG00000120742	ENST00000491195	processed_transcript	PUTATIVE	None	10759	None	None	150264577	150320957	-1	None	RAMP4, FLJ43424
3	SERP1	ENSG00000120742	ENST00000490945	processed_transcript	KNOWN	None	10759	None	None	150283583	150321015	-1	None	RAMP4, FLJ43424
3	SERP1	ENSG00000120742	ENST00000463647	processed_transcript	PUTATIVE	None	10759	None	None	150284172	150300942	-1	None	RAMP4, FLJ43424
3	SERP1	ENSG00000120742	ENST00000484608	processed_transcript	PUTATIVE	None	10759	None	None	150284586	150320955	-1	None	RAMP4, FLJ43424
3	SERP1	ENSG00000120742	ENST00000239944	protein_coding	KNOWN	CCDS3150	10759	201	66	150259781	150264428	-1	None	RAMP4, FLJ43424
12	None	ENSG00000257764	ENST00000548900	antisense	KNOWN	None	None	None	None	69747273	69748005	-1	None	None
1	None	ENSG00000271187	ENST00000603579	processed_pseudogene	KNOWN	None	None	None	None	191148651	191148869	-1	None	None
5	SOX30	ENSG00000039600	ENST00000311371	protein_coding	KNOWN	CCDS4340	30635	1506	501	157052687	157079372	-1	None	None
5	SOX30	ENSG00000039600	ENST00000265007	protein_coding	KNOWN	CCDS4339	30635	2262	753	157052687	157079428	-1	None	None
5	SOX30	ENSG00000039600	ENST00000519442	protein_coding	PUTATIVE	None	30635	1347	448	157053183	157098488	-1	None	None
11	None	ENSG00000270526	ENST00000603826	processed_pseudogene	KNOWN	None	None	None	None	65281874	65282394	-1	None	None
HG858_PATCH	None	ENSG00000261718	ENST00000564599	antisense	KNOWN	None	None	None	None	156524	161850	-1	None	None
1	None	ENSG00000230721	ENST00000447415	processed_pseudogene	KNOWN	None	None	None	None	87250596	87251150	1	None	None
2	None	ENSG00000237162	ENST00000420122	processed_pseudogene	KNOWN	None	None	None	None	63167051	63167417	1	None	None
1	KCNJ10	ENSG00000177807	ENST00000368089	protein_coding	KNOWN	CCDS1193	6256	1140	379	160007257	160040038	-1	None	Kir4.1, Kir1.2
1	KCNJ10	ENSG00000177807	ENST00000509700	processed_transcript	PUTATIVE	None	6256	None	None	160010261	160012085	-1	None	Kir4.1, Kir1.2
12	RN7SL804P	ENSG00000266185	ENST00000582466	misc_RNA	KNOWN	None	46820	None	None	69794683	69794978	1	None	None
X	None	ENSG00000231937	ENST00000453915	antisense	KNOWN	None	None	None	None	151307355	151355329	1	None	None
6	SAMD3	ENSG00000164483	ENST00000368134	protein_coding	KNOWN	CCDS34539	21574	1563	520	130465460	130686570	-1	None	bA73O6.2, FLJ34032
6	SAMD3	ENSG00000164483	ENST00000457563	protein_coding	PUTATIVE	None	21574	1635	544	130465463	130537032	-1	None	bA73O6.2, FLJ34032
6	SAMD3	ENSG00000164483	ENST00000439090	protein_coding	KNOWN	CCDS34539	21574	1563	520	130465463	130544099	-1	None	bA73O6.2, FLJ34032
6	SAMD3	ENSG00000164483	ENST00000437477	protein_coding	KNOWN	CCDS34539	21574	1563	520	130465526	130543958	-1	None	bA73O6.2, FLJ34032
6	SAMD3	ENSG00000164483	ENST00000463253	protein_coding	PUTATIVE	None	21574	233	76	130465829	130475998	-1	None	bA73O6.2, FLJ34032
6	SAMD3	ENSG00000164483	ENST00000532763	protein_coding	NOVEL	None	21574	828	275	130480677	130536787	-1	None	bA73O6.2, FLJ34032
6	SAMD3	ENSG00000164483	ENST00000528422	processed_transcript	KNOWN	None	21574	None	None	130496903	130530678	-1	None	bA73O6.2, FLJ34032
6	SAMD3	ENSG00000164483	ENST00000526886	retained_intron	KNOWN	None	21574	None	None	130496980	130505777	-1	None	bA73O6.2, FLJ34032
6	SAMD3	ENSG00000164483	ENST00000533296	processed_transcript	KNOWN	None	21574	None	None	130497049	130537003	-1	None	bA73O6.2, FLJ34032
6	SAMD3	ENSG00000164483	ENST00000324172	protein_coding	KNOWN	None	21574	666	221	130504133	130536435	-1	None	bA73O6.2, FLJ34032
6	SAMD3	ENSG00000164483	ENST00000524930	nonsense_mediated_decay	KNOWN	None	21574	114	37	130504371	130536435	-1	None	bA73O6.2, FLJ34032
6	SAMD3	ENSG00000164483	ENST00000532309	protein_coding	NOVEL	None	21574	631	209	130505268	130537055	-1	None	bA73O6.2, FLJ34032
6	SAMD3	ENSG00000164483	ENST00000531544	protein_coding	KNOWN	None	21574	520	172	130505632	130537079	-1	None	bA73O6.2, FLJ34032
6	SAMD3	ENSG00000164483	ENST00000529723	protein_coding	NOVEL	None	21574	497	164	130505646	130537055	-1	None	bA73O6.2, FLJ34032
6	SAMD3	ENSG00000164483	ENST00000529119	processed_transcript	KNOWN	None	21574	None	None	130542671	130607390	-1	None	bA73O6.2, FLJ34032
1	None	ENSG00000225554	ENST00000444330	lincRNA	KNOWN	None	None	None	None	241587592	241596628	1	None	None
1	None	ENSG00000225554	ENST00000413994	lincRNA	KNOWN	None	None	None	None	241587698	241596792	1	None	None
15	None	ENSG00000259750	ENST00000560515	processed_pseudogene	KNOWN	None	None	None	None	59693420	59694203	-1	None	None
HG858_PATCH	None	ENSG00000261358	ENST00000566958	antisense	KNOWN	None	None	None	None	187411	199169	-1	None	None
HG858_PATCH	None	ENSG00000261358	ENST00000562016	antisense	KNOWN	None	None	None	None	189534	199115	-1	None	None
1	None	ENSG00000213172	ENST00000392713	processed_pseudogene	KNOWN	None	None	None	None	40830438	40830855	1	None	None
2	PCED1CP	ENSG00000231254	ENST00000419887	processed_pseudogene	KNOWN	None	44083	None	None	213696885	213697669	1	None	None
4	None	ENSG00000250781	ENST00000503321	antisense	KNOWN	None	None	None	None	42283847	42393250	-1	None	None
4	None	ENSG00000250781	ENST00000508911	antisense	KNOWN	None	None	None	None	42301029	42393285	-1	None	None
4	None	ENSG00000250781	ENST00000515392	antisense	KNOWN	None	None	None	None	42354521	42393276	-1	None	None
1	None	ENSG00000233882	ENST00000434983	lincRNA	KNOWN	None	None	None	None	191190289	191197597	1	None	None
11	MTND2P26	ENSG00000254565	ENST00000528255	processed_pseudogene	KNOWN	None	42127	None	None	103276941	103277969	-1	None	None
13	PAN3-AS1	ENSG00000261485	ENST00000563843	antisense	KNOWN	None	39932	None	None	28710980	28712330	-1	None	None
14	RN7SL213P	ENSG00000239820	ENST00000463482	misc_RNA	KNOWN	None	46229	None	None	68217947	68218261	-1	None	None
Y	TTTY1	ENSG00000129845	ENST00000250805	lincRNA	KNOWN	None	14022	None	None	9590765	9611898	-1	None	TTY1, NCRNA00033, LINC00033
2	None	ENSG00000231609	ENST00000429952	antisense	KNOWN	None	None	None	None	63271057	63274846	-1	None	None
2	None	ENSG00000231609	ENST00000437346	antisense	KNOWN	None	None	None	None	63272196	63275775	-1	None	None
2	None	ENSG00000231609	ENST00000412297	antisense	KNOWN	None	None	None	None	63272311	63273744	-1	None	None
2	None	ENSG00000231609	ENST00000413549	antisense	KNOWN	None	None	None	None	63272446	63275656	-1	None	None
13	EEF1A1P3	ENSG00000232587	ENST00000417549	processed_pseudogene	KNOWN	None	3194	None	None	28788650	28790034	1	EEF1AL, EEF1AL1	None
12	EMG1	ENSG00000126749	ENST00000546220	processed_transcript	KNOWN	None	16912	None	None	7080056	7085781	1	None	C2F, NEP1, Grcc2f
12	EMG1	ENSG00000126749	ENST00000539440	retained_intron	KNOWN	None	16912	None	None	7080076	7084735	1	None	C2F, NEP1, Grcc2f
12	EMG1	ENSG00000126749	ENST00000451846	retained_intron	KNOWN	None	16912	None	None	7080098	7084063	1	None	C2F, NEP1, Grcc2f
12	EMG1	ENSG00000126749	ENST00000541016	processed_transcript	KNOWN	None	16912	None	None	7080123	7084541	1	None	C2F, NEP1, Grcc2f
12	EMG1	ENSG00000126749	ENST00000539196	processed_transcript	KNOWN	None	16912	None	None	7080223	7085139	1	None	C2F, NEP1, Grcc2f
14	None	ENSG00000258759	ENST00000557141	processed_pseudogene	KNOWN	None	None	None	None	68265721	68266326	1	None	None
1	None	ENSG00000229022	ENST00000414898	processed_pseudogene	KNOWN	None	None	None	None	241995237	241996089	1	None	None
14	None	ENSG00000259119	ENST00000554025	lincRNA	KNOWN	None	None	None	None	99391474	99394142	-1	None	None
1	None	ENSG00000260920	ENST00000565390	sense_overlapping	KNOWN	None	None	None	None	40929991	40932436	1	None	None
11	None	ENSG00000255843	ENST00000546065	antisense	KNOWN	None	None	None	None	72013183	72014009	1	None	None
5	FYB	ENSG00000082074	ENST00000351578	protein_coding	KNOWN	CCDS47200	4036	2352	783	39105338	39219708	-1	None	SLAP-130, FYB-120/130
5	FYB	ENSG00000082074	ENST00000515010	protein_coding	KNOWN	CCDS47200	4036	2352	783	39107386	39203129	-1	None	SLAP-130, FYB-120/130
5	FYB	ENSG00000082074	ENST00000505428	protein_coding	NOVEL	CCDS54848	4036	2490	829	39107404	39219675	-1	None	SLAP-130, FYB-120/130
5	FYB	ENSG00000082074	ENST00000512982	protein_coding	NOVEL	CCDS54848	4036	2490	829	39107404	39270759	-1	None	SLAP-130, FYB-120/130
5	FYB	ENSG00000082074	ENST00000510188	protein_coding	KNOWN	None	4036	523	173	39202540	39274630	-1	None	SLAP-130, FYB-120/130
5	FYB	ENSG00000082074	ENST00000512138	protein_coding	KNOWN	None	4036	344	113	39202719	39270746	-1	None	SLAP-130, FYB-120/130
5	FYB	ENSG00000082074	ENST00000506557	protein_coding	KNOWN	None	4036	63	20	39202876	39219678	-1	None	SLAP-130, FYB-120/130
5	FYB	ENSG00000082074	ENST00000509072	protein_coding	KNOWN	None	4036	67	21	39202996	39219665	-1	None	SLAP-130, FYB-120/130
5	FYB	ENSG00000082074	ENST00000504542	protein_coding	KNOWN	None	4036	5	0	39203058	39219665	-1	None	SLAP-130, FYB-120/130
5	FYB	ENSG00000082074	ENST00000503065	processed_transcript	KNOWN	None	4036	None	None	39269747	39274574	-1	None	SLAP-130, FYB-120/130
5	FYB	ENSG00000082074	ENST00000540520	protein_coding	KNOWN	CCDS58945	4036	2520	839	39107404	39270759	-1	None	SLAP-130, FYB-120/130
1	None	ENSG00000223344	ENST00000432083	lincRNA	PUTATIVE	None	None	None	None	191827837	191836090	-1	None	None
1	None	ENSG00000223344	ENST00000428569	lincRNA	PUTATIVE	None	None	None	None	191827893	191859359	-1	None	None
6	NUS1	ENSG00000153989	ENST00000368494	protein_coding	KNOWN	CCDS5118	21042	882	293	117996665	118031803	1	C6orf68	MGC7199, NgBR, TANGO14
8	None	ENSG00000254898	ENST00000527912	antisense	KNOWN	None	None	None	None	38193499	38195069	1	None	None
1	None	ENSG00000267734	ENST00000585888	lincRNA	KNOWN	None	None	None	None	87397882	87400574	-1	None	None
11	OR7E5P	ENSG00000214880	ENST00000529916	unprocessed_pseudogene	KNOWN	None	8435	None	None	55746874	55747579	-1	OR7F5P	OR11-12, FLJ31393
11	OR7E5P	ENSG00000214880	ENST00000399170	unprocessed_pseudogene	KNOWN	None	8435	None	None	55746179	55753881	-1	OR7F5P	OR11-12, FLJ31393
14	RPL3P4	ENSG00000232573	ENST00000417615	processed_pseudogene	KNOWN	None	19805	None	None	99439216	99439638	-1	None	None
4	None	ENSG00000266058	ENST00000582816	miRNA	NOVEL	None	None	None	None	42448007	42448089	1	None	None
1	None	ENSG00000235990	ENST00000447965	processed_pseudogene	KNOWN	None	None	None	None	242079425	242079845	1	None	None
X	None	ENSG00000236576	ENST00000422654	processed_pseudogene	KNOWN	None	None	None	None	51600064	51601162	1	None	None
1	None	ENSG00000224198	ENST00000422417	antisense	KNOWN	None	None	None	None	87409368	87410425	-1	None	None
17	TOB1-AS1	ENSG00000229980	ENST00000416263	antisense	KNOWN	None	44340	None	None	48944040	48945668	1	None	None
17	TOB1-AS1	ENSG00000229980	ENST00000523470	antisense	KNOWN	None	44340	None	None	48944120	48986284	1	None	None
17	TOB1-AS1	ENSG00000229980	ENST00000514358	antisense	KNOWN	None	44340	None	None	48944509	48987098	1	None	None
17	TOB1-AS1	ENSG00000229980	ENST00000519432	retained_intron	KNOWN	None	44340	None	None	48986039	48986778	1	None	None
4	RPS7P7	ENSG00000240167	ENST00000463499	processed_pseudogene	KNOWN	None	35690	None	None	42473827	42474397	1	None	None
10	PLA2G12B	ENSG00000138308	ENST00000373032	protein_coding	KNOWN	CCDS7319	18555	588	195	74694928	74714536	-1	PLA2G13	None
12	MIR4701	ENSG00000264201	ENST00000583094	miRNA	KNOWN	None	41627	None	None	49165758	49165820	-1	None	hsa-mir-4701
2	None	ENSG00000263656	ENST00000582845	miRNA	NOVEL	None	None	None	None	149649447	149649513	1	None	None
X	LONRF3	ENSG00000175556	ENST00000481285	nonsense_mediated_decay	KNOWN	None	21152	1833	610	118108581	118151946	1	RNF127	FLJ22612
X	LONRF3	ENSG00000175556	ENST00000365713	protein_coding	KNOWN	CCDS14575	21152	2157	718	118108581	118156888	1	RNF127	FLJ22612
X	LONRF3	ENSG00000175556	ENST00000371628	protein_coding	KNOWN	CCDS35374	21152	2280	759	118108713	118151892	1	RNF127	FLJ22612
X	LONRF3	ENSG00000175556	ENST00000439603	protein_coding	KNOWN	None	21152	1576	524	118109325	118151950	1	RNF127	FLJ22612
X	LONRF3	ENSG00000175556	ENST00000472173	processed_transcript	KNOWN	None	21152	None	None	118110295	118151946	1	RNF127	FLJ22612
X	LONRF3	ENSG00000175556	ENST00000304778	protein_coding	KNOWN	CCDS14575	21152	2157	718	118108581	118152318	1	RNF127	FLJ22612
X	LONRF3	ENSG00000175556	ENST00000422289	protein_coding	KNOWN	None	21152	1512	503	118110295	118151947	1	RNF127	FLJ22612
17	STAT3	ENSG00000168610	ENST00000264657	protein_coding	KNOWN	CCDS32656	11364	2313	770	40465342	40540586	-1	None	APRF
17	STAT3	ENSG00000168610	ENST00000585517	protein_coding	PUTATIVE	CCDS59288	11364	2169	722	40466872	40540457	-1	None	APRF
17	STAT3	ENSG00000168610	ENST00000462286	retained_intron	KNOWN	None	11364	None	None	40466890	40468871	-1	None	APRF
17	STAT3	ENSG00000168610	ENST00000389272	protein_coding	PUTATIVE	None	11364	2019	672	40467486	40540449	-1	None	APRF
17	STAT3	ENSG00000168610	ENST00000588969	protein_coding	KNOWN	CCDS32656	11364	2313	770	40467509	40540500	-1	None	APRF
17	STAT3	ENSG00000168610	ENST00000491272	retained_intron	KNOWN	None	11364	None	None	40467529	40469241	-1	None	APRF
17	STAT3	ENSG00000168610	ENST00000404395	protein_coding	KNOWN	CCDS32657	11364	2310	769	40467577	40540432	-1	None	APRF
17	STAT3	ENSG00000168610	ENST00000462269	retained_intron	KNOWN	None	11364	None	None	40467615	40469580	-1	None	APRF
17	STAT3	ENSG00000168610	ENST00000471989	retained_intron	KNOWN	None	11364	None	None	40475053	40477079	-1	None	APRF
17	STAT3	ENSG00000168610	ENST00000498330	retained_intron	KNOWN	None	11364	None	None	40475082	40477175	-1	None	APRF
17	STAT3	ENSG00000168610	ENST00000478276	retained_intron	KNOWN	None	11364	None	None	40481676	40483556	-1	None	APRF
17	STAT3	ENSG00000168610	ENST00000585360	retained_intron	KNOWN	None	11364	None	None	40497432	40500534	-1	None	APRF
17	STAT3	ENSG00000168610	ENST00000588065	protein_coding	PUTATIVE	None	11364	252	83	40498614	40540472	-1	None	APRF
17	STAT3	ENSG00000168610	ENST00000590776	processed_transcript	KNOWN	None	11364	None	None	40538957	40540439	-1	None	APRF
X	RNU6-764P	ENSG00000252205	ENST00000516396	snRNA	KNOWN	None	47727	None	None	151419044	151419148	-1	None	None
2	None	ENSG00000223373	ENST00000437261	lincRNA	KNOWN	None	None	None	None	213775727	213784533	1	None	None
1	None	ENSG00000238287	ENST00000450713	antisense	KNOWN	None	None	None	None	40958829	40974333	-1	None	None
2	None	ENSG00000228236	ENST00000441043	processed_pseudogene	KNOWN	None	None	None	None	149925110	149925424	-1	None	None
3	FAM86DP	ENSG00000244026	ENST00000497543	processed_transcript	KNOWN	None	32659	None	None	75470703	75484199	-1	FAM86D	None
3	FAM86DP	ENSG00000244026	ENST00000484945	processed_transcript	KNOWN	None	32659	None	None	75470711	75484108	-1	FAM86D	None
3	FAM86DP	ENSG00000244026	ENST00000459803	processed_transcript	KNOWN	None	32659	None	None	75470717	75484199	-1	FAM86D	None
3	FAM86DP	ENSG00000244026	ENST00000478666	processed_transcript	KNOWN	None	32659	None	None	75471570	75484197	-1	FAM86D	None
3	FAM86DP	ENSG00000244026	ENST00000489609	processed_transcript	KNOWN	None	32659	None	None	75471869	75484186	-1	FAM86D	None
3	FAM86DP	ENSG00000244026	ENST00000477247	transcribed_unprocessed_pseudogene	KNOWN	None	32659	None	None	75472112	75484261	-1	FAM86D	None
3	FAM86DP	ENSG00000244026	ENST00000491583	processed_transcript	KNOWN	None	32659	None	None	75474427	75484120	-1	FAM86D	None
15	None	ENSG00000259674	ENST00000557949	processed_pseudogene	KNOWN	None	None	None	None	59699162	59700353	-1	None	None
X	RNU6-504P	ENSG00000252377	ENST00000516568	snRNA	KNOWN	None	47467	None	None	51613802	51613905	-1	None	None
14	None	ENSG00000258837	ENST00000554679	antisense	KNOWN	None	None	None	None	68591721	68596913	-1	None	None
13	RNU6-82P	ENSG00000200840	ENST00000363970	snRNA	KNOWN	None	42572	None	None	28806638	28806744	1	RNU6-82	None
4	None	ENSG00000248283	ENST00000512846	processed_pseudogene	KNOWN	None	None	None	None	42563474	42564442	-1	None	None
12	None	ENSG00000257660	ENST00000547774	lincRNA	KNOWN	None	None	None	None	49182930	49184318	1	None	None
12	None	ENSG00000257660	ENST00000549864	lincRNA	KNOWN	None	None	None	None	49183359	49184318	1	None	None
X	None	ENSG00000228827	ENST00000428250	unprocessed_pseudogene	KNOWN	None	None	None	None	51646434	51646946	-1	None	None
1	None	ENSG00000227278	ENST00000453437	antisense	KNOWN	None	None	None	None	40980133	40980729	-1	None	None
2	MIR4776-2	ENSG00000266354	ENST00000580204	miRNA	KNOWN	None	41631	None	None	213790981	213791060	1	None	hsa-mir-4776-2
2	MIR4776-1	ENSG00000266354	ENST00000580204	miRNA	KNOWN	None	41641	None	None	213790981	213791060	1	None	hsa-mir-4776-1
1	None	ENSG00000235251	ENST00000420734	processed_pseudogene	KNOWN	None	None	None	None	87510618	87511554	-1	None	None
13	EIF4A1P7	ENSG00000235472	ENST00000421800	processed_pseudogene	KNOWN	None	37926	None	None	29172970	29174189	1	None	None
15	CYCSP2	ENSG00000259547	ENST00000558168	processed_pseudogene	KNOWN	None	24410	None	None	41401076	41401376	1	None	HCP37
14	ENSAP2	ENSG00000259032	ENST00000554405	processed_pseudogene	KNOWN	None	20011	None	None	83159048	83159399	-1	None	None
2	TRIB2	ENSG00000071575	ENST00000155926	protein_coding	KNOWN	CCDS1683	30809	1032	343	12857015	12882860	1	None	TRB2, GS3955
2	TRIB2	ENSG00000071575	ENST00000483034	processed_transcript	KNOWN	None	30809	None	None	12857036	12857876	1	None	TRB2, GS3955
2	TRIB2	ENSG00000071575	ENST00000381465	protein_coding	PUTATIVE	None	30809	624	207	12857061	12882860	1	None	TRB2, GS3955
2	TRIB2	ENSG00000071575	ENST00000405331	protein_coding	PUTATIVE	None	30809	759	252	12858364	12864951	1	None	TRB2, GS3955
2	FAM8A3P	ENSG00000224337	ENST00000427218	processed_pseudogene	KNOWN	None	16374	None	None	150177107	150177950	1	None	None
3	VPS8	ENSG00000156931	ENST00000436792	protein_coding	KNOWN	CCDS46972	29122	4281	1426	184529959	184770400	1	KIAA0804	FLJ32099
3	VPS8	ENSG00000156931	ENST00000446204	protein_coding	KNOWN	None	29122	4011	1336	184529971	184770392	1	KIAA0804	FLJ32099
3	VPS8	ENSG00000156931	ENST00000422105	protein_coding	KNOWN	None	29122	606	201	184529983	184566929	1	KIAA0804	FLJ32099
3	VPS8	ENSG00000156931	ENST00000485024	processed_transcript	PUTATIVE	None	29122	None	None	184529984	184534018	1	KIAA0804	FLJ32099
3	VPS8	ENSG00000156931	ENST00000453056	protein_coding	KNOWN	None	29122	222	73	184530227	184544019	1	KIAA0804	FLJ32099
3	VPS8	ENSG00000156931	ENST00000475580	processed_transcript	PUTATIVE	None	29122	None	None	184530297	184533608	1	KIAA0804	FLJ32099
3	VPS8	ENSG00000156931	ENST00000471655	processed_transcript	PUTATIVE	None	29122	None	None	184530304	184533608	1	KIAA0804	FLJ32099
3	VPS8	ENSG00000156931	ENST00000441141	protein_coding	KNOWN	None	29122	422	139	184534994	184552505	1	KIAA0804	FLJ32099
3	VPS8	ENSG00000156931	ENST00000445089	protein_coding	KNOWN	None	29122	365	120	184535094	184552448	1	KIAA0804	FLJ32099
3	VPS8	ENSG00000156931	ENST00000424721	nonsense_mediated_decay	KNOWN	None	29122	207	68	184542333	184552530	1	KIAA0804	FLJ32099
3	VPS8	ENSG00000156931	ENST00000424463	protein_coding	PUTATIVE	None	29122	495	164	184542333	184558325	1	KIAA0804	FLJ32099
3	VPS8	ENSG00000156931	ENST00000452666	nonsense_mediated_decay	KNOWN	None	29122	489	162	184543951	184570326	1	KIAA0804	FLJ32099
3	VPS8	ENSG00000156931	ENST00000469479	retained_intron	KNOWN	None	29122	None	None	184550484	184567135	1	KIAA0804	FLJ32099
3	VPS8	ENSG00000156931	ENST00000460158	retained_intron	KNOWN	None	29122	None	None	184550545	184552739	1	KIAA0804	FLJ32099
3	VPS8	ENSG00000156931	ENST00000426319	protein_coding	NOVEL	None	29122	185	60	184552463	184556534	1	KIAA0804	FLJ32099
3	VPS8	ENSG00000156931	ENST00000465818	retained_intron	KNOWN	None	29122	None	None	184566817	184573534	1	KIAA0804	FLJ32099
3	VPS8	ENSG00000156931	ENST00000469713	retained_intron	KNOWN	None	29122	None	None	184567241	184571674	1	KIAA0804	FLJ32099
3	VPS8	ENSG00000156931	ENST00000465213	retained_intron	KNOWN	None	29122	None	None	184573565	184586098	1	KIAA0804	FLJ32099
3	VPS8	ENSG00000156931	ENST00000458721	nonsense_mediated_decay	KNOWN	None	29122	326	107	184586777	184633196	1	KIAA0804	FLJ32099
3	VPS8	ENSG00000156931	ENST00000421069	nonsense_mediated_decay	KNOWN	None	29122	180	59	184587311	184618719	1	KIAA0804	FLJ32099
3	VPS8	ENSG00000156931	ENST00000492449	retained_intron	KNOWN	None	29122	None	None	184603757	184770099	1	KIAA0804	FLJ32099
3	VPS8	ENSG00000156931	ENST00000495190	retained_intron	KNOWN	None	29122	None	None	184612491	184619151	1	KIAA0804	FLJ32099
3	VPS8	ENSG00000156931	ENST00000452140	nonsense_mediated_decay	KNOWN	None	29122	173	56	184633171	184644434	1	KIAA0804	FLJ32099
3	VPS8	ENSG00000156931	ENST00000463687	processed_transcript	KNOWN	None	29122	None	None	184636844	184648348	1	KIAA0804	FLJ32099
3	VPS8	ENSG00000156931	ENST00000488255	retained_intron	KNOWN	None	29122	None	None	184700206	184714289	1	KIAA0804	FLJ32099
3	VPS8	ENSG00000156931	ENST00000287546	protein_coding	KNOWN	None	29122	4287	1428	184529931	184770402	1	KIAA0804	FLJ32099
3	VPS8	ENSG00000156931	ENST00000437079	protein_coding	KNOWN	CCDS46971	29122	4287	1428	184529931	184770402	1	KIAA0804	FLJ32099
X	IPO7P1	ENSG00000232951	ENST00000442031	processed_pseudogene	KNOWN	None	39837	None	None	51664960	51665595	-1	None	None
19	ZNF254	ENSG00000213096	ENST00000594886	nonsense_mediated_decay	KNOWN	None	13047	162	53	24269978	24309347	1	ZNF91L, ZNF539	HD-ZNF1, BMZF-5
19	ZNF254	ENSG00000213096	ENST00000339642	protein_coding	PUTATIVE	None	13047	276	91	24269986	24290151	1	ZNF91L, ZNF539	HD-ZNF1, BMZF-5
19	ZNF254	ENSG00000213096	ENST00000357002	protein_coding	KNOWN	CCDS32983	13047	1980	659	24269995	24312654	1	ZNF91L, ZNF539	HD-ZNF1, BMZF-5
19	ZNF254	ENSG00000213096	ENST00000595187	nonsense_mediated_decay	KNOWN	None	13047	228	75	24270055	24309122	1	ZNF91L, ZNF539	HD-ZNF1, BMZF-5
19	ZNF254	ENSG00000213096	ENST00000593783	retained_intron	KNOWN	None	13047	None	None	24286988	24290154	1	ZNF91L, ZNF539	HD-ZNF1, BMZF-5
19	ZNF254	ENSG00000213096	ENST00000342944	protein_coding	KNOWN	None	13047	1725	574	24216276	24312643	1	ZNF91L, ZNF539	HD-ZNF1, BMZF-5
HSCHR6_MHC_MANN	PPP1R2P1	ENSG00000236488	ENST00000418810	processed_transcript	KNOWN	None	9289	None	None	33000747	33001424	-1	PPP1R2P	IPP-2P
HSCHR6_MHC_MANN	PPP1R2P1	ENSG00000236488	ENST00000453519	transcribed_processed_pseudogene	KNOWN	None	9289	None	None	33000792	33001409	-1	PPP1R2P	IPP-2P
1	None	ENSG00000228215	ENST00000430776	lincRNA	KNOWN	None	None	None	None	191844625	191980390	1	None	None
7	ZNF789	ENSG00000198556	ENST00000331410	protein_coding	KNOWN	CCDS34693	27801	1278	425	99070464	99085217	1	None	None
7	ZNF789	ENSG00000198556	ENST00000483089	protein_coding	PUTATIVE	None	27801	171	56	99070513	99079949	1	None	None
7	ZNF789	ENSG00000198556	ENST00000481472	processed_transcript	KNOWN	None	27801	None	None	99070513	99081769	1	None	None
7	ZNF789	ENSG00000198556	ENST00000448667	protein_coding	PUTATIVE	None	27801	357	118	99070513	99084423	1	None	None
7	ZNF789	ENSG00000198556	ENST00000488485	retained_intron	KNOWN	None	27801	None	None	99070515	99078924	1	None	None
7	ZNF789	ENSG00000198556	ENST00000493485	protein_coding	PUTATIVE	None	27801	171	56	99070516	99101273	1	None	None
7	ZNF789	ENSG00000198556	ENST00000447047	nonsense_mediated_decay	KNOWN	None	27801	168	55	99070534	99084277	1	None	None
7	ZNF789	ENSG00000198556	ENST00000379724	protein_coding	KNOWN	CCDS34694	27801	189	62	99070535	99079945	1	None	None
7	ZNF789	ENSG00000198556	ENST00000465438	retained_intron	KNOWN	None	27801	None	None	99070558	99079949	1	None	None
7	ZNF789	ENSG00000198556	ENST00000468705	retained_intron	KNOWN	None	27801	None	None	99073863	99077526	1	None	None
7	ZNF789	ENSG00000198556	ENST00000481108	retained_intron	KNOWN	None	27801	None	None	99081278	99084627	1	None	None
7	ZNF789	ENSG00000198556	ENST00000494186	processed_transcript	KNOWN	None	27801	None	None	99081653	99098642	1	None	None
2	None	ENSG00000270659	ENST00000604818	lincRNA	KNOWN	None	None	None	None	214017694	214018383	1	None	None
11	OR5F2P	ENSG00000182365	ENST00000532761	unprocessed_pseudogene	KNOWN	None	15286	None	None	55782493	55783433	-1	None	None
11	OR5F2P	ENSG00000182365	ENST00000331916	pseudogene	KNOWN	None	15286	None	None	55782514	55783433	-1	None	None
21	RPSAP64	ENSG00000227721	ENST00000451820	processed_pseudogene	KNOWN	None	39642	None	None	40266841	40267176	1	None	None
1	None	ENSG00000238186	ENST00000437060	antisense	KNOWN	None	None	None	None	40981426	40982846	-1	None	None
1	None	ENSG00000225568	ENST00000440164	processed_pseudogene	KNOWN	None	None	None	None	87511558	87512383	1	None	None
13	RNU6-53P	ENSG00000202237	ENST00000365367	snRNA	KNOWN	None	42543	None	None	29277839	29277944	-1	RNU6-53	None
8	RN7SKP32	ENSG00000222099	ENST00000410167	misc_RNA	KNOWN	None	45756	None	None	47979644	47979946	-1	None	None
2	NCOA1	ENSG00000084676	ENST00000496333	processed_transcript	PUTATIVE	None	7668	None	None	24714783	24866924	1	None	SRC1, F-SRC-1, NCoA-1, KAT13A, RIP160, bHLHe74
2	NCOA1	ENSG00000084676	ENST00000406961	protein_coding	KNOWN	CCDS1712	7668	4326	1441	24714801	24993571	1	None	SRC1, F-SRC-1, NCoA-1, KAT13A, RIP160, bHLHe74
2	NCOA1	ENSG00000084676	ENST00000469850	processed_transcript	KNOWN	None	7668	None	None	24714892	24807353	1	None	SRC1, F-SRC-1, NCoA-1, KAT13A, RIP160, bHLHe74
2	NCOA1	ENSG00000084676	ENST00000405141	protein_coding	KNOWN	CCDS1713	7668	4200	1399	24714927	24993571	1	None	SRC1, F-SRC-1, NCoA-1, KAT13A, RIP160, bHLHe74
2	NCOA1	ENSG00000084676	ENST00000407230	protein_coding	NOVEL	None	7668	3747	1248	24787179	24991412	1	None	SRC1, F-SRC-1, NCoA-1, KAT13A, RIP160, bHLHe74
2	NCOA1	ENSG00000084676	ENST00000483904	retained_intron	KNOWN	None	7668	None	None	24807345	24881998	1	None	SRC1, F-SRC-1, NCoA-1, KAT13A, RIP160, bHLHe74
2	NCOA1	ENSG00000084676	ENST00000395856	protein_coding	KNOWN	CCDS42660	7668	4323	1440	24807410	24993571	1	None	SRC1, F-SRC-1, NCoA-1, KAT13A, RIP160, bHLHe74
2	NCOA1	ENSG00000084676	ENST00000486198	retained_intron	KNOWN	None	7668	None	None	24930596	24934352	1	None	SRC1, F-SRC-1, NCoA-1, KAT13A, RIP160, bHLHe74
2	NCOA1	ENSG00000084676	ENST00000493773	retained_intron	KNOWN	None	7668	None	None	24990640	24991257	1	None	SRC1, F-SRC-1, NCoA-1, KAT13A, RIP160, bHLHe74
2	NCOA1	ENSG00000084676	ENST00000348332	protein_coding	KNOWN	CCDS1712	7668	4326	1441	24807346	24993571	1	None	SRC1, F-SRC-1, NCoA-1, KAT13A, RIP160, bHLHe74
2	NCOA1	ENSG00000084676	ENST00000538539	protein_coding	KNOWN	CCDS1713	7668	4200	1399	24787271	24991186	1	None	SRC1, F-SRC-1, NCoA-1, KAT13A, RIP160, bHLHe74
2	NCOA1	ENSG00000084676	ENST00000288599	protein_coding	KNOWN	CCDS1713	7668	4200	1399	24807346	24993571	1	None	SRC1, F-SRC-1, NCoA-1, KAT13A, RIP160, bHLHe74
1	BECN1P1	ENSG00000196289	ENST00000419583	processed_pseudogene	KNOWN	None	38606	None	None	242121039	242122359	1	None	None
1	BECN1P1	ENSG00000196289	ENST00000356052	processed_pseudogene	KNOWN	None	38606	None	None	242121042	242122364	1	None	None
8	None	ENSG00000237810	ENST00000518921	processed_pseudogene	KNOWN	None	None	None	None	63055870	63057328	-1	None	None
2	None	ENSG00000272519	ENST00000606960	lincRNA	KNOWN	None	None	None	None	214131719	214140876	-1	None	None
8	None	ENSG00000272092	ENST00000607047	lincRNA	KNOWN	None	None	None	None	38239882	38240979	1	None	None
12	None	ENSG00000241765	ENST00000471748	processed_pseudogene	KNOWN	None	None	None	None	69816436	69816775	1	None	None
13	CYP51P2	ENSG00000233588	ENST00000419457	processed_pseudogene	KNOWN	None	20251	None	None	29296523	29298158	-1	None	None
21	None	ENSG00000234035	ENST00000440379	lincRNA	KNOWN	None	None	None	None	40285093	40287072	-1	None	None
1	None	ENSG00000236505	ENST00000414105	unprocessed_pseudogene	KNOWN	None	None	None	None	41029206	41029331	1	None	None
2	None	ENSG00000223604	ENST00000421941	processed_pseudogene	KNOWN	None	None	None	None	150296411	150296941	1	None	None
17	None	ENSG00000262006	ENST00000573301	lincRNA	KNOWN	None	None	None	None	48986998	48987593	-1	None	None
5	None	ENSG00000249016	ENST00000505950	protein_coding	PUTATIVE	None	None	309	102	54252063	54253674	-1	None	None
6	LINC00951	ENSG00000204092	ENST00000373171	lincRNA	KNOWN	None	48662	None	None	40312083	40313890	-1	None	lincRNA-uc003opf.1, FLJ41649
2	None	ENSG00000270437	ENST00000605001	processed_pseudogene	KNOWN	None	None	None	None	63310143	63314457	1	None	None
X	None	ENSG00000237528	ENST00000451170	processed_pseudogene	KNOWN	None	None	None	None	51666648	51666836	1	None	None
2	None	ENSG00000196096	ENST00000360083	lincRNA	KNOWN	None	None	None	None	214141276	214148929	-1	None	None
HSCHR6_MHC_MANN	HLA-Z	ENSG00000225459	ENST00000438437	unprocessed_pseudogene	KNOWN	None	19394	None	None	33017988	33018062	1	None	HLA-Z1
8	DDHD2	ENSG00000085788	ENST00000527834	protein_coding	KNOWN	None	29106	469	155	38082736	38095113	1	SAMWD1	KIAA0725, SPG54
8	DDHD2	ENSG00000085788	ENST00000397166	protein_coding	KNOWN	CCDS34883	29106	2136	711	38088861	38120351	1	SAMWD1	KIAA0725, SPG54
8	DDHD2	ENSG00000085788	ENST00000533100	protein_coding	KNOWN	None	29106	412	136	38089002	38092103	1	SAMWD1	KIAA0725, SPG54
8	DDHD2	ENSG00000085788	ENST00000519857	retained_intron	KNOWN	None	29106	None	None	38089189	38096576	1	SAMWD1	KIAA0725, SPG54
8	DDHD2	ENSG00000085788	ENST00000526237	nonsense_mediated_decay	KNOWN	None	29106	252	83	38089213	38097885	1	SAMWD1	KIAA0725, SPG54
8	DDHD2	ENSG00000085788	ENST00000526370	processed_transcript	KNOWN	None	29106	None	None	38089233	38095140	1	SAMWD1	KIAA0725, SPG54
8	DDHD2	ENSG00000085788	ENST00000528358	protein_coding	NOVEL	None	29106	484	160	38089270	38095134	1	SAMWD1	KIAA0725, SPG54
8	DDHD2	ENSG00000085788	ENST00000529642	protein_coding	PUTATIVE	None	29106	171	56	38089335	38095103	1	SAMWD1	KIAA0725, SPG54
8	DDHD2	ENSG00000085788	ENST00000532222	protein_coding	NOVEL	None	29106	667	221	38089357	38099812	1	SAMWD1	KIAA0725, SPG54
8	DDHD2	ENSG00000085788	ENST00000520272	protein_coding	KNOWN	CCDS34883	29106	2136	711	38089471	38120287	1	SAMWD1	KIAA0725, SPG54
8	DDHD2	ENSG00000085788	ENST00000527415	nonsense_mediated_decay	KNOWN	None	29106	429	142	38090517	38105354	1	SAMWD1	KIAA0725, SPG54
8	DDHD2	ENSG00000085788	ENST00000532106	protein_coding	NOVEL	None	29106	548	181	38097793	38109474	1	SAMWD1	KIAA0725, SPG54
8	DDHD2	ENSG00000085788	ENST00000528888	processed_transcript	KNOWN	None	29106	None	None	38099483	38107265	1	SAMWD1	KIAA0725, SPG54
8	DDHD2	ENSG00000085788	ENST00000531344	retained_intron	KNOWN	None	29106	None	None	38099746	38103675	1	SAMWD1	KIAA0725, SPG54
8	DDHD2	ENSG00000085788	ENST00000528504	retained_intron	KNOWN	None	29106	None	None	38103702	38110592	1	SAMWD1	KIAA0725, SPG54
8	DDHD2	ENSG00000085788	ENST00000517385	protein_coding	PUTATIVE	None	29106	993	330	38104322	38120284	1	SAMWD1	KIAA0725, SPG54
8	DDHD2	ENSG00000085788	ENST00000529845	protein_coding	PUTATIVE	None	29106	489	162	38107293	38118235	1	SAMWD1	KIAA0725, SPG54
8	DDHD2	ENSG00000085788	ENST00000520176	retained_intron	KNOWN	None	29106	None	None	38107297	38118331	1	SAMWD1	KIAA0725, SPG54
8	DDHD2	ENSG00000085788	ENST00000528148	retained_intron	KNOWN	None	29106	None	None	38109616	38110315	1	SAMWD1	KIAA0725, SPG54
8	DDHD2	ENSG00000085788	ENST00000526144	protein_coding	PUTATIVE	None	29106	641	212	38109684	38117772	1	SAMWD1	KIAA0725, SPG54
8	DDHD2	ENSG00000085788	ENST00000524545	retained_intron	KNOWN	None	29106	None	None	38109729	38110993	1	SAMWD1	KIAA0725, SPG54
8	DDHD2	ENSG00000085788	ENST00000528613	protein_coding	PUTATIVE	None	29106	240	79	38111079	38118419	1	SAMWD1	KIAA0725, SPG54
8	DDHD2	ENSG00000085788	ENST00000526071	processed_transcript	PUTATIVE	None	29106	None	None	38117579	38128911	1	SAMWD1	KIAA0725, SPG54
8	DDHD2	ENSG00000085788	ENST00000529872	processed_transcript	KNOWN	None	29106	None	None	38117591	38133076	1	SAMWD1	KIAA0725, SPG54
6	None	ENSG00000226070	ENST00000447315	lincRNA	KNOWN	None	None	None	None	40326483	40337213	-1	None	None
1	None	ENSG00000226723	ENST00000431492	processed_pseudogene	KNOWN	None	None	None	None	192215838	192216617	-1	None	None
15	ADAM10	ENSG00000137845	ENST00000260408	protein_coding	KNOWN	CCDS10167	188	2247	748	58887403	59042177	-1	None	kuz, MADM, HsT18717, CD156c
15	ADAM10	ENSG00000137845	ENST00000402627	protein_coding	PUTATIVE	None	188	216	71	58889071	59041793	-1	None	kuz, MADM, HsT18717, CD156c
15	ADAM10	ENSG00000137845	ENST00000561288	protein_coding	PUTATIVE	None	188	117	38	58889363	59041906	-1	None	kuz, MADM, HsT18717, CD156c
15	ADAM10	ENSG00000137845	ENST00000482945	retained_intron	KNOWN	None	188	None	None	58889364	58913703	-1	None	kuz, MADM, HsT18717, CD156c
15	ADAM10	ENSG00000137845	ENST00000396136	nonsense_mediated_decay	KNOWN	None	188	176	57	58889401	58971481	-1	None	kuz, MADM, HsT18717, CD156c
15	ADAM10	ENSG00000137845	ENST00000470269	retained_intron	KNOWN	None	188	None	None	58901357	58913709	-1	None	kuz, MADM, HsT18717, CD156c
15	ADAM10	ENSG00000137845	ENST00000462061	retained_intron	KNOWN	None	188	None	None	58903126	58913740	-1	None	kuz, MADM, HsT18717, CD156c
15	ADAM10	ENSG00000137845	ENST00000481164	retained_intron	KNOWN	None	188	None	None	58903475	58913703	-1	None	kuz, MADM, HsT18717, CD156c
15	ADAM10	ENSG00000137845	ENST00000475898	processed_transcript	KNOWN	None	188	None	None	58904053	58921663	-1	None	kuz, MADM, HsT18717, CD156c
15	ADAM10	ENSG00000137845	ENST00000559053	protein_coding	NOVEL	None	188	445	147	58919911	59041829	-1	None	kuz, MADM, HsT18717, CD156c
15	ADAM10	ENSG00000137845	ENST00000558733	processed_transcript	KNOWN	None	188	None	None	58947442	59041969	-1	None	kuz, MADM, HsT18717, CD156c
15	ADAM10	ENSG00000137845	ENST00000439637	protein_coding	PUTATIVE	None	188	377	124	58957345	59041957	-1	None	kuz, MADM, HsT18717, CD156c
15	ADAM10	ENSG00000137845	ENST00000497846	processed_transcript	KNOWN	None	188	None	None	58957351	59041165	-1	None	kuz, MADM, HsT18717, CD156c
15	ADAM10	ENSG00000137845	ENST00000558004	protein_coding	NOVEL	None	188	347	114	58957381	59041973	-1	None	kuz, MADM, HsT18717, CD156c
15	ADAM10	ENSG00000137845	ENST00000560608	processed_transcript	KNOWN	None	188	None	None	58971358	59041990	-1	None	kuz, MADM, HsT18717, CD156c
15	ADAM10	ENSG00000137845	ENST00000561149	processed_transcript	KNOWN	None	188	None	None	58974451	59041919	-1	None	kuz, MADM, HsT18717, CD156c
15	ADAM10	ENSG00000137845	ENST00000461408	processed_transcript	KNOWN	None	188	None	None	59040679	59041918	-1	None	kuz, MADM, HsT18717, CD156c
15	ADAM10	ENSG00000137845	ENST00000396140	protein_coding	KNOWN	None	188	1344	447	58889663	59041829	-1	None	kuz, MADM, HsT18717, CD156c
X	MIR105-1	ENSG00000207957	ENST00000385222	miRNA	KNOWN	None	31492	None	None	151560691	151560771	-1	MIRN105-1	hsa-mir-105-1
HSCHR12_2_CTG2	PRR4	ENSG00000263247	ENST00000573991	processed_transcript	KNOWN	None	18020	None	None	10977559	11035256	-1	PROL4	LPRP
HSCHR12_2_CTG2	PRR4	ENSG00000263247	ENST00000570404	processed_transcript	KNOWN	None	18020	None	None	10998448	11001533	-1	PROL4	LPRP
HSCHR12_2_CTG2	PRR4	ENSG00000263247	ENST00000576999	protein_coding	PUTATIVE	None	18020	198	65	10998448	11002069	-1	PROL4	LPRP
HSCHR12_2_CTG2	PRR4	ENSG00000263247	ENST00000574424	protein_coding	KNOWN	None	18020	405	134	10998448	11002074	-1	PROL4	LPRP
HSCHR12_2_CTG2	PRR4	ENSG00000263247	ENST00000576262	processed_transcript	KNOWN	None	18020	None	None	10998448	11356145	-1	PROL4	LPRP
HSCHR12_2_CTG2	PRR4	ENSG00000263247	ENST00000573913	processed_transcript	KNOWN	None	18020	None	None	10998448	11356160	-1	PROL4	LPRP
HSCHR12_2_CTG2	PRR4	ENSG00000263247	ENST00000574037	protein_coding	NOVEL	None	18020	237	78	10998450	11002074	-1	PROL4	LPRP
HSCHR12_2_CTG2	PRR4	ENSG00000263247	ENST00000576680	processed_transcript	KNOWN	None	18020	None	None	10998483	11001574	-1	PROL4	LPRP
HSCHR12_2_CTG2	PRR4	ENSG00000263247	ENST00000572366	retained_intron	KNOWN	None	18020	None	None	10999591	11002060	-1	PROL4	LPRP
HSCHR12_2_CTG2	PRR4	ENSG00000263247	ENST00000573883	processed_transcript	KNOWN	None	18020	None	None	10999805	11001158	-1	PROL4	LPRP
HSCHR12_2_CTG2	PRR4	ENSG00000263247	ENST00000576644	processed_transcript	KNOWN	None	18020	None	None	11000964	11002074	-1	PROL4	LPRP
HSCHR12_2_CTG2	PRR4	ENSG00000263247	ENST00000575317	processed_transcript	KNOWN	None	18020	None	None	11033567	11035697	-1	PROL4	LPRP
HSCHR12_2_CTG2	PRR4	ENSG00000263247	ENST00000575512	processed_transcript	KNOWN	None	18020	None	None	11034821	11199789	-1	PROL4	LPRP
HSCHR12_2_CTG2	PRR4	ENSG00000263247	ENST00000576292	processed_transcript	KNOWN	None	18020	None	None	11034835	11036816	-1	PROL4	LPRP
HSCHR12_2_CTG2	PRR4	ENSG00000263247	ENST00000572448	processed_transcript	KNOWN	None	18020	None	None	11035186	11356091	-1	PROL4	LPRP
HSCHR12_2_CTG2	PRR4	ENSG00000263247	ENST00000573721	processed_transcript	KNOWN	None	18020	None	None	11044060	11199640	-1	PROL4	LPRP
HSCHR12_2_CTG2	PRR4	ENSG00000263247	ENST00000576428	processed_transcript	KNOWN	None	18020	None	None	11047700	11126305	-1	PROL4	LPRP
HSCHR12_2_CTG2	PRR4	ENSG00000263247	ENST00000571255	processed_transcript	KNOWN	None	18020	None	None	11125883	11199713	-1	PROL4	LPRP
HSCHR12_2_CTG2	PRR4	ENSG00000263247	ENST00000570524	processed_transcript	KNOWN	None	18020	None	None	11158533	11199736	-1	PROL4	LPRP
HSCHR12_2_CTG2	PRR4	ENSG00000263247	ENST00000576937	processed_transcript	KNOWN	None	18020	None	None	11199612	11356155	-1	PROL4	LPRP
HSCHR12_2_CTG2	PRR4	ENSG00000263247	ENST00000576734	processed_transcript	KNOWN	None	18020	None	None	11305391	11356007	-1	PROL4	LPRP
HSCHR6_MHC_MANN	None	ENSG00000266600	ENST00000579999	miRNA	NOVEL	None	None	None	None	33058507	33058601	-1	None	None
3	RNU6-428P	ENSG00000199812	ENST00000362942	snRNA	KNOWN	None	47391	None	None	146289264	146289370	1	None	None
21	None	ENSG00000232837	ENST00000433952	lincRNA	KNOWN	None	None	None	None	40346355	40349700	-1	None	None
17	None	ENSG00000247011	ENST00000501718	lincRNA	KNOWN	None	None	None	None	49012350	49022074	-1	None	None
11	FXYD6	ENSG00000137726	ENST00000260282	protein_coding	KNOWN	CCDS8387	4030	288	95	117707696	117747448	-1	None	None
11	FXYD6	ENSG00000137726	ENST00000527717	protein_coding	KNOWN	CCDS8387	4030	288	95	117707696	117748201	-1	None	None
11	FXYD6	ENSG00000137726	ENST00000526014	protein_coding	KNOWN	CCDS8387	4030	288	95	117707727	117747897	-1	None	None
11	FXYD6	ENSG00000137726	ENST00000524656	protein_coding	PUTATIVE	CCDS8387	4030	288	95	117708566	117739905	-1	None	None
11	FXYD6	ENSG00000137726	ENST00000584394	protein_coding	PUTATIVE	None	4030	273	90	117708661	117747379	-1	None	None
11	FXYD6	ENSG00000137726	ENST00000529335	protein_coding	NOVEL	None	4030	336	111	117708699	117747434	-1	None	None
11	FXYD6	ENSG00000137726	ENST00000583233	processed_transcript	KNOWN	None	4030	None	None	117708715	117712976	-1	None	None
11	FXYD6	ENSG00000137726	ENST00000583660	retained_intron	KNOWN	None	4030	None	None	117708923	117712976	-1	None	None
11	FXYD6	ENSG00000137726	ENST00000524841	nonsense_mediated_decay	KNOWN	None	4030	273	90	117708950	117748145	-1	None	None
11	FXYD6	ENSG00000137726	ENST00000527429	protein_coding	PUTATIVE	None	4030	273	90	117709738	117747358	-1	None	None
11	FXYD6	ENSG00000137726	ENST00000530956	protein_coding	PUTATIVE	CCDS8387	4030	288	95	117710292	117747444	-1	None	None
11	FXYD6	ENSG00000137726	ENST00000579486	processed_transcript	KNOWN	None	4030	None	None	117710496	117747448	-1	None	None
11	FXYD6	ENSG00000137726	ENST00000584230	protein_coding	PUTATIVE	None	4030	273	90	117710863	117747340	-1	None	None
11	FXYD6	ENSG00000137726	ENST00000534125	retained_intron	KNOWN	None	4030	None	None	117712283	117713499	-1	None	None
11	FXYD6	ENSG00000137726	ENST00000527053	retained_intron	KNOWN	None	4030	None	None	117712705	117714822	-1	None	None
11	FXYD6	ENSG00000137726	ENST00000540359	protein_coding	KNOWN	CCDS8387	4030	288	95	117707693	117747746	-1	None	None
11	FXYD6	ENSG00000137726	ENST00000539526	protein_coding	KNOWN	CCDS8387	4030	288	95	117707693	117747746	-1	None	None
2	None	ENSG00000231969	ENST00000449714	antisense	KNOWN	None	None	None	None	150443710	150704747	1	None	None
13	POM121L13P	ENSG00000236339	ENST00000422362	processed_pseudogene	KNOWN	None	42635	None	None	29352695	29353074	1	None	None
1	CFL1P4	ENSG00000213026	ENST00000451536	processed_pseudogene	KNOWN	None	1880	None	None	242156487	242156984	1	CFLL4, CFLP4	None
11	None	ENSG00000256739	ENST00000544195	antisense	KNOWN	None	None	None	None	72062391	72064254	1	None	None
6	RNU6-250P	ENSG00000252767	ENST00000516958	snRNA	KNOWN	None	47213	None	None	40375592	40375694	1	None	None
2	MIR4438	ENSG00000265734	ENST00000585271	miRNA	KNOWN	None	41555	None	None	214622791	214622883	1	None	hsa-mir-4438
Y	TTTY22	ENSG00000224075	ENST00000445253	lincRNA	KNOWN	None	18846	None	None	9638762	9650854	1	None	NCRNA00147
3	PLSCR5-AS1	ENSG00000241457	ENST00000473817	antisense	KNOWN	None	40907	None	None	146307389	146308112	1	None	None
11	OR5AQ1P	ENSG00000184741	ENST00000527596	unprocessed_pseudogene	KNOWN	None	15259	None	None	55821840	55822775	1	None	None
11	OR5AQ1P	ENSG00000184741	ENST00000331596	unprocessed_pseudogene	KNOWN	None	15259	None	None	55821841	55822779	1	None	None
HSCHR6_MHC_MANN	BRD2-IT1	ENSG00000236657	ENST00000438557	processed_transcript	PUTATIVE	None	41311	None	None	33091910	33092424	1	None	None
2	None	ENSG00000232403	ENST00000428700	processed_pseudogene	KNOWN	None	None	None	None	63335253	63335564	-1	None	None
14	RN7SL706P	ENSG00000244677	ENST00000460079	misc_RNA	KNOWN	None	46722	None	None	68616337	68616625	-1	None	None
13	None	ENSG00000221670	ENST00000408743	miRNA	NOVEL	None	None	None	None	29796699	29796778	1	None	None
6	None	ENSG00000236075	ENST00000414505	sense_intronic	KNOWN	None	None	None	None	40469370	40470132	-1	None	None
3	None	ENSG00000241634	ENST00000489433	processed_pseudogene	KNOWN	None	None	None	None	108262214	108262722	-1	None	None
1	KCNJ9	ENSG00000162728	ENST00000368088	protein_coding	KNOWN	CCDS1194	6270	1182	393	160051360	160060353	1	None	Kir3.3, GIRK3
2	RNU6-601P	ENSG00000207270	ENST00000384540	snRNA	KNOWN	None	47564	None	None	150467182	150467288	-1	None	None
2	None	ENSG00000197585	ENST00000412896	antisense	KNOWN	None	None	None	None	215114764	215548970	-1	None	None
2	None	ENSG00000197585	ENST00000437883	antisense	KNOWN	None	None	None	None	215176326	215548970	-1	None	None
2	DBIL5P2	ENSG00000242412	ENST00000491724	processed_transcript	KNOWN	None	38518	None	None	63344986	63346677	-1	None	ELP1P
2	DBIL5P2	ENSG00000242412	ENST00000443827	transcribed_processed_pseudogene	KNOWN	None	38518	None	None	63346146	63346398	-1	None	ELP1P
8	None	ENSG00000271698	ENST00000531225	nonsense_mediated_decay	KNOWN	None	None	79	25	145576888	145579269	-1	None	None
12	None	ENSG00000257507	ENST00000549261	lincRNA	KNOWN	None	None	None	None	69843250	69854504	1	None	None
3	DCUN1D1	ENSG00000043093	ENST00000292782	protein_coding	KNOWN	CCDS3240	18184	780	259	182655862	182698431	-1	None	RP42, SCRO, DCUN1L1, Tes3, SCCRO
3	DCUN1D1	ENSG00000043093	ENST00000469954	protein_coding	PUTATIVE	None	18184	735	244	182662822	182703741	-1	None	RP42, SCRO, DCUN1L1, Tes3, SCCRO
3	DCUN1D1	ENSG00000043093	ENST00000492563	nonsense_mediated_decay	KNOWN	None	18184	108	35	182662892	182698308	-1	None	RP42, SCRO, DCUN1L1, Tes3, SCCRO
3	DCUN1D1	ENSG00000043093	ENST00000497606	protein_coding	KNOWN	None	18184	386	127	182679103	182697939	-1	None	RP42, SCRO, DCUN1L1, Tes3, SCCRO
3	DCUN1D1	ENSG00000043093	ENST00000460412	protein_coding	PUTATIVE	None	18184	294	97	182681719	182703720	-1	None	RP42, SCRO, DCUN1L1, Tes3, SCCRO
3	DCUN1D1	ENSG00000043093	ENST00000487822	protein_coding	PUTATIVE	None	18184	277	91	182681736	182703719	-1	None	RP42, SCRO, DCUN1L1, Tes3, SCCRO
3	DCUN1D1	ENSG00000043093	ENST00000466812	protein_coding	PUTATIVE	None	18184	225	74	182681788	182703701	-1	None	RP42, SCRO, DCUN1L1, Tes3, SCCRO
HSCHR6_MHC_MANN	RPL32P1	ENSG00000233972	ENST00000457701	processed_pseudogene	KNOWN	None	10339	None	None	33201377	33201786	1	RPL32P	RPL32-L
17	None	ENSG00000251665	ENST00000506394	lincRNA	KNOWN	None	None	None	None	49021465	49025188	1	None	None
17	None	ENSG00000251665	ENST00000512717	lincRNA	KNOWN	None	None	None	None	49021475	49026111	1	None	None
13	MTUS2-AS2	ENSG00000236758	ENST00000434779	antisense	KNOWN	None	40923	None	None	29813516	29824691	-1	None	None
13	MTUS2-AS2	ENSG00000236758	ENST00000417624	antisense	KNOWN	None	40923	None	None	29813760	29824691	-1	None	None
13	MTUS2-AS2	ENSG00000236758	ENST00000452602	antisense	KNOWN	None	40923	None	None	29813924	29824691	-1	None	None
14	None	ENSG00000234648	ENST00000448875	processed_pseudogene	KNOWN	None	None	None	None	99439651	99439808	1	None	None
21	None	ENSG00000235888	ENST00000417335	lincRNA	KNOWN	None	None	None	None	40360633	40378079	-1	None	None
11	None	ENSG00000255672	ENST00000537727	antisense	KNOWN	None	None	None	None	72065560	72074599	1	None	None
1	GTF2F2P2	ENSG00000233910	ENST00000445825	processed_pseudogene	KNOWN	None	39092	None	None	41059305	41060025	-1	None	None
12	MIR3913-1	ENSG00000264405	ENST00000577744	miRNA	KNOWN	None	38884	None	None	69978502	69978603	-1	None	hsa-mir-3913-1
12	MIR3913-2	ENSG00000264405	ENST00000577744	miRNA	KNOWN	None	38953	None	None	69978502	69978603	-1	None	hsa-mir-3913-2
1	RNU6-1139P	ENSG00000223119	ENST00000411187	snRNA	KNOWN	None	48102	None	None	242187251	242187356	-1	None	None
2	None	ENSG00000162947	ENST00000295052	lincRNA	KNOWN	None	None	None	None	150624020	150715705	-1	None	None
2	None	ENSG00000162947	ENST00000433174	lincRNA	KNOWN	None	None	None	None	150672978	150714199	-1	None	None
1	None	ENSG00000236792	ENST00000422071	processed_pseudogene	KNOWN	None	None	None	None	192216635	192217077	1	None	None
12	GOT2P3	ENSG00000233719	ENST00000426641	transcribed_processed_pseudogene	KNOWN	None	4436	None	None	9794398	9795603	1	GOT2L3, GOT2L3P	None
12	GOT2P3	ENSG00000233719	ENST00000442004	processed_pseudogene	KNOWN	None	4436	None	None	9794775	9795203	1	GOT2L3, GOT2L3P	None
11	None	ENSG00000254738	ENST00000531736	unprocessed_pseudogene	KNOWN	None	None	None	None	18977602	18978562	-1	None	None
HSCHR6_MHC_MANN	HLA-DPA2	ENSG00000235528	ENST00000425823	unprocessed_pseudogene	KNOWN	None	4939	None	None	33213679	33219221	-1	HLA-DP2A	None
3	None	ENSG00000202379	ENST00000365509	snoRNA	NOVEL	None	None	None	None	108293412	108293545	1	None	None
10	PTGES3P5	ENSG00000234544	ENST00000455109	processed_pseudogene	KNOWN	None	43826	None	None	110055857	110056290	1	None	None
2	None	ENSG00000233716	ENST00000438685	processed_pseudogene	KNOWN	None	None	None	None	63459588	63460712	-1	None	None
21	None	ENSG00000237721	ENST00000419664	lincRNA	KNOWN	None	None	None	None	40378574	40383255	-1	None	None
1	TUBB8P6	ENSG00000224625	ENST00000436895	unprocessed_pseudogene	KNOWN	None	42343	None	None	242220387	242223544	1	None	None
17	None	ENSG00000249870	ENST00000509833	antisense	KNOWN	None	None	None	None	49119885	49162832	1	None	None
2	RPL5P8	ENSG00000213917	ENST00000396820	processed_pseudogene	KNOWN	None	36290	None	None	215145362	215146176	-1	None	None
X	TPMTP3	ENSG00000232562	ENST00000411928	processed_pseudogene	KNOWN	None	44566	None	None	51722319	51723108	-1	None	None
21	DOPEY2	ENSG00000142197	ENST00000270190	protein_coding	KNOWN	None	1291	435	144	37529080	37572743	1	C21orf5	KIAA0933
21	DOPEY2	ENSG00000142197	ENST00000399151	protein_coding	KNOWN	CCDS13643	1291	6897	2298	37536833	37666572	1	C21orf5	KIAA0933
21	DOPEY2	ENSG00000142197	ENST00000492760	processed_transcript	KNOWN	None	1291	None	None	37537134	37584346	1	C21orf5	KIAA0933
21	DOPEY2	ENSG00000142197	ENST00000463668	retained_intron	KNOWN	None	1291	None	None	37618599	37634213	1	C21orf5	KIAA0933
3	None	ENSG00000228874	ENST00000445502	processed_pseudogene	KNOWN	None	None	None	None	15173355	15173715	-1	None	None
3	None	ENSG00000241777	ENST00000491371	unprocessed_pseudogene	KNOWN	None	None	None	None	108444287	108444383	-1	None	None
15	None	ENSG00000200252	ENST00000363382	misc_RNA	NOVEL	None	None	None	None	59701104	59701214	1	None	None
14	None	ENSG00000229402	ENST00000423922	antisense	KNOWN	None	None	None	None	99624753	99626006	1	None	None
17	None	ENSG00000238815	ENST00000459088	snoRNA	NOVEL	None	None	None	None	49175535	49175639	-1	None	None
1	None	ENSG00000221145	ENST00000408218	miRNA	NOVEL	None	None	None	None	192460258	192460350	-1	None	None
10	None	ENSG00000203434	ENST00000366253	lincRNA	KNOWN	None	None	None	None	110307733	110321573	-1	None	None
11	OR5J1P	ENSG00000181780	ENST00000313544	unprocessed_pseudogene	KNOWN	None	8348	None	None	55838587	55839525	1	OR5J1	HTPCRH02
11	OR5J1P	ENSG00000181780	ENST00000544912	unprocessed_pseudogene	KNOWN	None	8348	None	None	55838506	55839276	1	OR5J1	HTPCRH02
11	None	ENSG00000256403	ENST00000544959	antisense	KNOWN	None	None	None	None	72121760	72123123	1	None	None
13	GAPDHP69	ENSG00000223460	ENST00000425504	processed_pseudogene	KNOWN	None	4147	None	None	29880915	29881922	1	GAPDL14, GAPDHL14	None
21	None	ENSG00000237609	ENST00000440714	lincRNA	KNOWN	None	None	None	None	40400461	40401053	-1	None	None
17	None	ENSG00000264895	ENST00000581917	sense_intronic	KNOWN	None	None	None	None	49326940	49329109	-1	None	None
HG7_PATCH	PRSS1	ENSG00000261473	ENST00000570031	protein_coding	NOVEL	None	9475	786	261	142489985	142493537	1	TRY1	None
HG7_PATCH	PRSS1	ENSG00000261473	ENST00000566623	retained_intron	KNOWN	None	9475	None	None	142489989	142492525	1	TRY1	None
HG7_PATCH	PRSS1	ENSG00000261473	ENST00000561535	protein_coding	KNOWN	None	9475	744	247	142489996	142493587	1	TRY1	None
HG7_PATCH	PRSS1	ENSG00000261473	ENST00000563620	retained_intron	KNOWN	None	9475	None	None	142489998	142491608	1	TRY1	None
HG7_PATCH	PRSS1	ENSG00000261473	ENST00000567590	protein_coding	PUTATIVE	None	9475	429	142	142491182	142493586	1	TRY1	None
HG7_PATCH	PRSS1	ENSG00000261473	ENST00000564889	retained_intron	KNOWN	None	9475	None	None	142491627	142493589	1	TRY1	None
1	None	ENSG00000232498	ENST00000434300	antisense	KNOWN	None	None	None	None	192486769	192536347	-1	None	None
15	None	ENSG00000243780	ENST00000463506	processed_pseudogene	KNOWN	None	None	None	None	59817621	59818080	-1	None	None
2	YIPF4	ENSG00000119820	ENST00000238831	protein_coding	KNOWN	CCDS1781	28145	735	244	32502979	32537002	1	None	MGC11061, FinGER4
2	YIPF4	ENSG00000119820	ENST00000495355	retained_intron	KNOWN	None	28145	None	None	32503198	32515989	1	None	MGC11061, FinGER4
2	YIPF4	ENSG00000119820	ENST00000437765	nonsense_mediated_decay	KNOWN	None	28145	177	58	32503300	32530935	1	None	MGC11061, FinGER4
2	YIPF4	ENSG00000119820	ENST00000441084	protein_coding	PUTATIVE	None	28145	101	32	32526512	32532431	1	None	MGC11061, FinGER4
2	None	ENSG00000203415	ENST00000366235	pseudogene	KNOWN	None	None	None	None	63745026	63746647	-1	None	None
HSCHR6_MHC_MANN	COL11A2P1	ENSG00000226591	ENST00000440096	unprocessed_pseudogene	KNOWN	None	13947	None	None	33225722	33229258	-1	COL11A2P	cD0826Q1.1
3	None	ENSG00000221633	ENST00000408706	snoRNA	NOVEL	None	None	None	None	108737757	108737963	-1	None	None
1	None	ENSG00000267272	ENST00000469312	lincRNA	KNOWN	None	None	None	None	87595448	87634188	1	None	None
1	None	ENSG00000267272	ENST00000490006	lincRNA	KNOWN	None	None	None	None	87595457	87634881	1	None	None
1	None	ENSG00000267272	ENST00000471417	lincRNA	KNOWN	None	None	None	None	87595537	87600152	1	None	None
1	None	ENSG00000267272	ENST00000461990	lincRNA	KNOWN	None	None	None	None	87595553	87602352	1	None	None
1	None	ENSG00000267272	ENST00000590653	lincRNA	KNOWN	None	None	None	None	87597638	87602352	1	None	None
1	None	ENSG00000267272	ENST00000476432	lincRNA	KNOWN	None	None	None	None	87597652	87599814	1	None	None
1	None	ENSG00000267272	ENST00000467438	lincRNA	KNOWN	None	None	None	None	87597658	87600278	1	None	None
1	None	ENSG00000267272	ENST00000484933	lincRNA	KNOWN	None	None	None	None	87597686	87602352	1	None	None
1	None	ENSG00000267272	ENST00000589455	lincRNA	KNOWN	None	None	None	None	87597738	87599875	1	None	None
1	None	ENSG00000267272	ENST00000587165	lincRNA	KNOWN	None	None	None	None	87597738	87627820	1	None	None
17	None	ENSG00000249383	ENST00000514726	lincRNA	KNOWN	None	None	None	None	49389970	49412526	-1	None	None
1	None	ENSG00000237899	ENST00000440100	lincRNA	KNOWN	None	None	None	None	41134761	41153260	-1	None	None
10	None	ENSG00000223381	ENST00000421481	lincRNA	KNOWN	None	None	None	None	110470276	110599121	1	None	None
1	None	ENSG00000236069	ENST00000457321	lincRNA	KNOWN	None	None	None	None	192498709	192507232	1	None	None
11	None	ENSG00000237408	ENST00000453501	unitary_pseudogene	KNOWN	None	None	None	None	72189265	72190281	1	None	None
HSCHR6_MHC_COX	None	ENSG00000266672	ENST00000578860	snoRNA	KNOWN	None	None	None	None	29546631	29546714	1	None	None
21	RPL23AP12	ENSG00000228861	ENST00000467573	processed_pseudogene	KNOWN	None	23840	None	None	40499494	40499966	1	None	None
21	RPL23AP12	ENSG00000228861	ENST00000599796	processed_pseudogene	KNOWN	None	23840	None	None	40499496	40499966	1	None	None
10	MAPKAPK5P1	ENSG00000224498	ENST00000431810	processed_pseudogene	KNOWN	None	45246	None	None	110607944	110609319	1	None	None
2	None	ENSG00000228305	ENST00000436998	processed_pseudogene	KNOWN	None	None	None	None	63849312	63849965	-1	None	None
2	None	ENSG00000228305	ENST00000425312	processed_pseudogene	KNOWN	None	None	None	None	63849309	63849965	-1	None	None
12	None	ENSG00000256442	ENST00000546259	antisense	KNOWN	None	None	None	None	9799610	9800605	-1	None	None
12	SLC17A8	ENSG00000179520	ENST00000323346	protein_coding	KNOWN	CCDS9077	20151	1770	589	100750857	100815837	1	DFNA25	VGLUT3
12	SLC17A8	ENSG00000179520	ENST00000392989	protein_coding	KNOWN	CCDS44957	20151	1620	539	100751146	100814030	1	DFNA25	VGLUT3
12	SLC17A8	ENSG00000179520	ENST00000547922	retained_intron	KNOWN	None	20151	None	None	100796396	100798158	1	DFNA25	VGLUT3
12	SLC17A8	ENSG00000179520	ENST00000552697	processed_transcript	KNOWN	None	20151	None	None	100804399	100813867	1	DFNA25	VGLUT3
17	None	ENSG00000249982	ENST00000505978	lincRNA	KNOWN	None	None	None	None	49410040	49411451	1	None	None
13	None	ENSG00000270680	ENST00000605701	processed_pseudogene	KNOWN	None	None	None	None	29913703	29914006	-1	None	None
HSCHR6_MHC_COX	RPL13AP	ENSG00000230181	ENST00000441745	processed_pseudogene	KNOWN	None	13977	None	None	29546890	29547407	1	None	RPL13Ap, dJ271M21.3
3	MORC1-AS1	ENSG00000239314	ENST00000480826	antisense	KNOWN	None	40377	None	None	108820303	108829189	1	None	None
1	None	ENSG00000272145	ENST00000606277	antisense	KNOWN	None	None	None	None	41156052	41157738	-1	None	None
2	None	ENSG00000230645	ENST00000437118	lincRNA	KNOWN	None	None	None	None	151027937	151157594	1	None	None
9	C9orf50	ENSG00000179058	ENST00000372478	protein_coding	KNOWN	CCDS35159	23677	1296	431	132374504	132383055	-1	None	FLJ35803
8	None	ENSG00000254050	ENST00000518078	antisense	KNOWN	None	None	None	None	63385776	63386828	-1	None	None
1	MIR4426	ENSG00000231767	ENST00000443181	processed_pseudogene	KNOWN	None	41848	None	None	192685313	192685778	1	None	hsa-mir-4426
1	MIR4426	ENSG00000231767	ENST00000497083	processed_pseudogene	KNOWN	None	41848	None	None	192685313	192685783	1	None	hsa-mir-4426
10	RN7SKP278	ENSG00000222436	ENST00000410504	misc_RNA	KNOWN	None	46002	None	None	110700727	110701068	-1	None	None
17	None	ENSG00000249658	ENST00000510059	lincRNA	KNOWN	None	None	None	None	49412622	49413601	1	None	None
13	MTUS2-AS1	ENSG00000179141	ENST00000323380	antisense	KNOWN	None	40924	None	None	30050652	30061887	-1	None	None
13	MTUS2-AS1	ENSG00000179141	ENST00000587588	antisense	KNOWN	None	40924	None	None	30056257	30061654	-1	None	None
2	None	ENSG00000231420	ENST00000429317	lincRNA	KNOWN	None	None	None	None	151091406	151113521	-1	None	None
1	MIR30E	ENSG00000198974	ENST00000362104	miRNA	KNOWN	None	31629	None	None	41220027	41220118	1	MIRN30E	hsa-mir-30e
10	RNU5B-6P	ENSG00000252574	ENST00000516765	snRNA	KNOWN	None	34186	None	None	110944651	110944765	-1	None	None
22	None	ENSG00000242156	ENST00000439655	unprocessed_pseudogene	KNOWN	None	None	None	None	29815144	29819182	-1	None	None
Y	None	ENSG00000228379	ENST00000449963	lincRNA	KNOWN	None	None	None	None	9650924	9655122	1	None	None
17	None	ENSG00000225860	ENST00000441895	lincRNA	KNOWN	None	None	None	None	49414076	49419932	1	None	None
10	RNU6-839P	ENSG00000200217	ENST00000363347	snRNA	KNOWN	None	47802	None	None	110999397	110999504	1	None	None
10	RNU6-1075P	ENSG00000201260	ENST00000364390	snRNA	KNOWN	None	48038	None	None	16249820	16249926	-1	None	None
1	MIR30C1	ENSG00000207962	ENST00000385227	miRNA	KNOWN	None	31626	None	None	41222956	41223044	1	MIRN30C1	hsa-mir-30c-1
12	None	ENSG00000271547	ENST00000605409	processed_pseudogene	KNOWN	None	None	None	None	49194359	49194869	-1	None	None
2	RPS4XP5	ENSG00000229920	ENST00000449995	processed_transcript	KNOWN	None	36670	None	None	63869589	63870922	-1	RPS4P5	None
2	RPS4XP5	ENSG00000229920	ENST00000419038	transcribed_processed_pseudogene	KNOWN	None	36670	None	None	63870405	63871172	-1	RPS4P5	None
2	None	ENSG00000236049	ENST00000441356	lincRNA	KNOWN	None	None	None	None	151409046	151428735	-1	None	None
10	PHB2P1	ENSG00000232728	ENST00000434943	processed_pseudogene	KNOWN	None	45249	None	None	111287877	111288766	1	None	None
21	PCBP2P1	ENSG00000235701	ENST00000437262	processed_pseudogene	KNOWN	None	8649	None	None	40543056	40544032	-1	None	None
6	FAM50B	ENSG00000145945	ENST00000380274	protein_coding	KNOWN	CCDS4487	18789	978	325	3849620	3851551	1	None	D6S2654E, X5L
6	FAM50B	ENSG00000145945	ENST00000380272	protein_coding	KNOWN	CCDS4487	18789	978	325	3849622	3851551	1	None	D6S2654E, X5L
HSCHR6_MHC_MANN	HLA-DPB2	ENSG00000233584	ENST00000448990	processed_transcript	KNOWN	None	4941	None	None	33234379	33241115	1	HLA-DP2B	DP2B, DPB2
HSCHR6_MHC_MANN	HLA-DPB2	ENSG00000233584	ENST00000489543	transcribed_unprocessed_pseudogene	KNOWN	None	4941	None	None	33234444	33250727	1	HLA-DP2B	DP2B, DPB2
1	RN7SL326P	ENSG00000264582	ENST00000477493	misc_RNA	KNOWN	None	46342	None	None	41270518	41270811	1	None	None
16	WASH4P	ENSG00000234769	ENST00000326592	protein_coding	NOVEL	None	14126	1434	477	64043	69448	-1	FAM39CP	FLJ31670
16	WASH4P	ENSG00000234769	ENST00000474799	retained_intron	KNOWN	None	14126	None	None	64044	64965	-1	FAM39CP	FLJ31670
16	WASH4P	ENSG00000234769	ENST00000470283	retained_intron	KNOWN	None	14126	None	None	64085	66383	-1	FAM39CP	FLJ31670
16	WASH4P	ENSG00000234769	ENST00000468574	retained_intron	KNOWN	None	14126	None	None	64085	67083	-1	FAM39CP	FLJ31670
16	WASH4P	ENSG00000234769	ENST00000564273	retained_intron	KNOWN	None	14126	None	None	64085	68797	-1	FAM39CP	FLJ31670
16	WASH4P	ENSG00000234769	ENST00000477365	retained_intron	KNOWN	None	14126	None	None	64085	68940	-1	FAM39CP	FLJ31670
16	WASH4P	ENSG00000234769	ENST00000495251	nonsense_mediated_decay	KNOWN	None	14126	192	63	64085	69409	-1	FAM39CP	FLJ31670
16	WASH4P	ENSG00000234769	ENST00000462860	nonsense_mediated_decay	KNOWN	None	14126	192	63	64085	69452	-1	FAM39CP	FLJ31670
16	WASH4P	ENSG00000234769	ENST00000470725	retained_intron	KNOWN	None	14126	None	None	64088	68422	-1	FAM39CP	FLJ31670
16	WASH4P	ENSG00000234769	ENST00000487568	retained_intron	KNOWN	None	14126	None	None	64117	66241	-1	FAM39CP	FLJ31670
16	WASH4P	ENSG00000234769	ENST00000483390	nonsense_mediated_decay	KNOWN	None	14126	901	299	65739	68764	-1	FAM39CP	FLJ31670
16	WASH4P	ENSG00000234769	ENST00000538848	nonsense_mediated_decay	KNOWN	None	14126	498	165	66411	68843	-1	FAM39CP	FLJ31670
16	WASH4P	ENSG00000234769	ENST00000494585	retained_intron	KNOWN	None	14126	None	None	67711	68508	-1	FAM39CP	FLJ31670
HSCHR19_1_CTG3	None	ENSG00000262037	ENST00000572604	protein_coding	PUTATIVE	None	None	174	57	20959110	20977403	1	None	None
HSCHR19_1_CTG3	None	ENSG00000262037	ENST00000576815	protein_coding	NOVEL	None	None	1806	601	20959254	20990226	1	None	None
10	None	ENSG00000226140	ENST00000434386	lincRNA	KNOWN	None	None	None	None	16320700	16331047	1	None	None
10	None	ENSG00000226140	ENST00000417542	lincRNA	KNOWN	None	None	None	None	16320700	16337857	1	None	None
11	None	ENSG00000254720	ENST00000527463	unprocessed_pseudogene	KNOWN	None	None	None	None	18993293	18994250	-1	None	None
X	None	ENSG00000235189	ENST00000432062	antisense	KNOWN	None	None	None	None	129003040	129091504	-1	None	None
13	TIMM8BP1	ENSG00000236258	ENST00000452384	processed_pseudogene	KNOWN	None	39211	None	None	30440096	30440306	-1	None	None
7	MTND5P6	ENSG00000228440	ENST00000422338	unprocessed_pseudogene	KNOWN	None	42268	None	None	57238681	57240478	1	None	None
11	None	ENSG00000238048	ENST00000415521	unprocessed_pseudogene	KNOWN	None	None	None	None	72231030	72232777	1	None	None
1	None	ENSG00000229528	ENST00000414199	antisense	KNOWN	None	None	None	None	41329586	41342342	1	None	None
6	None	ENSG00000234263	ENST00000432477	antisense	KNOWN	None	None	None	None	136950310	136969137	1	None	None
17	None	ENSG00000267452	ENST00000592081	lincRNA	KNOWN	None	None	None	None	49512788	49521163	1	None	None
17	None	ENSG00000267452	ENST00000588341	lincRNA	KNOWN	None	None	None	None	49517014	49523163	1	None	None
1	None	ENSG00000228687	ENST00000454090	unprocessed_pseudogene	KNOWN	None	None	None	None	192765663	192766335	1	None	None
6	RNA5SP219	ENSG00000212242	ENST00000390940	rRNA	KNOWN	None	43119	None	None	136951381	136951493	1	RN5S219	None
11	OR5BE1P	ENSG00000225538	ENST00000425977	unprocessed_pseudogene	KNOWN	None	15273	None	None	55850277	55851215	1	None	None
8	USP17L7	ENSG00000226430	ENST00000530447	processed_pseudogene	KNOWN	None	37180	None	None	11989928	11991953	-1	None	None
8	USP17L7	ENSG00000226430	ENST00000416902	processed_pseudogene	KNOWN	None	37180	None	None	11989926	11991518	-1	None	None
2	None	ENSG00000234488	ENST00000411843	processed_pseudogene	KNOWN	None	None	None	None	63911439	63911844	1	None	None
12	RDH5	ENSG00000135437	ENST00000553160	processed_transcript	KNOWN	None	9940	None	None	56114151	56116095	1	RDH1	HSD17B9, SDR9C5
12	RDH5	ENSG00000135437	ENST00000547072	protein_coding	PUTATIVE	None	9940	666	221	56114151	56118390	1	RDH1	HSD17B9, SDR9C5
12	RDH5	ENSG00000135437	ENST00000552930	protein_coding	PUTATIVE	None	9940	167	54	56114177	56115620	1	RDH1	HSD17B9, SDR9C5
12	RDH5	ENSG00000135437	ENST00000553187	retained_intron	KNOWN	None	9940	None	None	56114177	56115777	1	RDH1	HSD17B9, SDR9C5
12	RDH5	ENSG00000135437	ENST00000548486	retained_intron	KNOWN	None	9940	None	None	56114177	56116123	1	RDH1	HSD17B9, SDR9C5
12	RDH5	ENSG00000135437	ENST00000257895	protein_coding	KNOWN	CCDS31829	9940	957	318	56114182	56118489	1	RDH1	HSD17B9, SDR9C5
12	RDH5	ENSG00000135437	ENST00000550608	retained_intron	KNOWN	None	9940	None	None	56114195	56116442	1	RDH1	HSD17B9, SDR9C5
12	RDH5	ENSG00000135437	ENST00000548082	protein_coding	KNOWN	CCDS31829	9940	957	318	56114197	56118489	1	RDH1	HSD17B9, SDR9C5
12	RDH5	ENSG00000135437	ENST00000547301	retained_intron	KNOWN	None	9940	None	None	56114273	56115612	1	RDH1	HSD17B9, SDR9C5
12	RDH5	ENSG00000135437	ENST00000548123	nonsense_mediated_decay	KNOWN	None	9940	311	102	56114979	56118222	1	RDH1	HSD17B9, SDR9C5
12	RDH5	ENSG00000135437	ENST00000551444	retained_intron	KNOWN	None	9940	None	None	56117151	56118398	1	RDH1	HSD17B9, SDR9C5
6	None	ENSG00000201807	ENST00000364937	snoRNA	NOVEL	None	None	None	None	137176836	137176969	-1	None	None
6	C6orf57	ENSG00000154079	ENST00000468640	processed_transcript	KNOWN	None	20957	None	None	71276620	71277362	1	None	None
6	C6orf57	ENSG00000154079	ENST00000370474	protein_coding	KNOWN	CCDS4972	20957	327	108	71276620	71299272	1	None	None
10	None	ENSG00000268882	ENST00000597657	protein_coding	NOVEL	None	None	105	34	135192720	135193102	-1	None	None
3	None	ENSG00000241224	ENST00000467240	lincRNA	KNOWN	None	None	None	None	108855561	108868970	1	None	None
3	None	ENSG00000241224	ENST00000477643	lincRNA	KNOWN	None	None	None	None	108855688	108868973	1	None	None
3	None	ENSG00000241224	ENST00000479039	lincRNA	KNOWN	None	None	None	None	108855689	108868960	1	None	None
3	None	ENSG00000241224	ENST00000593799	lincRNA	KNOWN	None	None	None	None	108855733	108868970	1	None	None
1	None	ENSG00000228940	ENST00000413739	unprocessed_pseudogene	KNOWN	None	None	None	None	41403776	41405435	-1	None	None
HG858_PATCH	None	ENSG00000261322	ENST00000562498	antisense	KNOWN	None	None	None	None	214664	216321	-1	None	None
2	None	ENSG00000237220	ENST00000416350	lincRNA	KNOWN	None	None	None	None	151422648	151424594	1	None	None
8	None	ENSG00000251218	ENST00000505083	lincRNA	KNOWN	None	None	None	None	135862178	135894142	1	None	None
21	TIMM9P2	ENSG00000232608	ENST00000419324	processed_pseudogene	KNOWN	None	39929	None	None	40588550	40589432	1	None	None
7	None	ENSG00000224880	ENST00000436327	unprocessed_pseudogene	KNOWN	None	None	None	None	57241064	57242069	1	None	None
6	None	ENSG00000213109	ENST00000574864	processed_transcript	KNOWN	None	None	None	None	137221371	137222667	-1	None	None
6	None	ENSG00000213109	ENST00000425027	transcribed_processed_pseudogene	KNOWN	None	None	None	None	137221516	137222295	-1	None	None
1	None	ENSG00000226814	ENST00000429211	processed_pseudogene	KNOWN	None	None	None	None	192769701	192770271	1	None	None
2	VWC2L-IT1	ENSG00000224257	ENST00000416430	sense_intronic	KNOWN	None	41508	None	None	215374920	215401614	1	None	None
15	None	ENSG00000232394	ENST00000419100	antisense	KNOWN	None	None	None	None	28020767	28021944	1	None	None
11	CTBP2P6	ENSG00000213697	ENST00000526402	processed_pseudogene	KNOWN	None	45198	None	None	43543586	43544814	1	None	None
9	None	ENSG00000170152	ENST00000441025	processed_pseudogene	KNOWN	None	None	None	None	44998005	44998719	-1	None	None
9	None	ENSG00000170152	ENST00000305671	processed_pseudogene	KNOWN	None	None	None	None	44998000	44998719	-1	None	None
2	None	ENSG00000221085	ENST00000408158	miRNA	NOVEL	None	None	None	None	63922527	63922669	-1	None	None
11	OR8I4P	ENSG00000254524	ENST00000526965	unprocessed_pseudogene	KNOWN	None	31316	None	None	55864720	55864860	-1	None	None
11	PPME1	ENSG00000214517	ENST00000328257	protein_coding	KNOWN	CCDS44678	30178	1161	386	73882144	73965748	1	None	PME-1
11	PPME1	ENSG00000214517	ENST00000542710	processed_transcript	KNOWN	None	30178	None	None	73882312	73916968	1	None	PME-1
11	PPME1	ENSG00000214517	ENST00000398427	protein_coding	NOVEL	None	30178	1203	400	73882367	73965748	1	None	PME-1
11	PPME1	ENSG00000214517	ENST00000544401	protein_coding	NOVEL	None	30178	409	135	73882388	73933778	1	None	PME-1
11	PPME1	ENSG00000214517	ENST00000543525	protein_coding	KNOWN	None	30178	600	199	73941830	73965748	1	None	PME-1
11	PPME1	ENSG00000214517	ENST00000535205	retained_intron	KNOWN	None	30178	None	None	73946770	73962722	1	None	PME-1
11	PPME1	ENSG00000214517	ENST00000541340	retained_intron	KNOWN	None	30178	None	None	73948833	73965748	1	None	PME-1
11	PPME1	ENSG00000214517	ENST00000538501	retained_intron	KNOWN	None	30178	None	None	73949938	73964608	1	None	PME-1
11	PPME1	ENSG00000214517	ENST00000539021	retained_intron	KNOWN	None	30178	None	None	73959288	73965747	1	None	PME-1
17	RPL7P48	ENSG00000187504	ENST00000461513	processed_pseudogene	KNOWN	None	35540	None	None	49579849	49580594	-1	None	None
9	MIR219-2	ENSG00000207955	ENST00000385220	miRNA	KNOWN	None	31598	None	None	131154897	131154993	-1	MIRN219-2	hsa-mir-219-2
2	None	ENSG00000232359	ENST00000421624	lincRNA	KNOWN	None	None	None	None	151451616	151476581	-1	None	None
9	GTF3C5	ENSG00000148308	ENST00000372097	protein_coding	KNOWN	CCDS6958	4668	1560	519	135906076	135933888	1	None	TFiiiC2-63, TFIIIC63, TFIIICepsilon
9	GTF3C5	ENSG00000148308	ENST00000440319	protein_coding	KNOWN	None	4668	732	243	135906098	135927551	1	None	TFiiiC2-63, TFIIIC63, TFIIICepsilon
9	GTF3C5	ENSG00000148308	ENST00000372108	protein_coding	KNOWN	CCDS48050	4668	1581	526	135906391	135933888	1	None	TFiiiC2-63, TFIIIC63, TFIIICepsilon
9	GTF3C5	ENSG00000148308	ENST00000342018	protein_coding	KNOWN	None	4668	1374	457	135906391	135933890	1	None	TFiiiC2-63, TFIIIC63, TFIIICepsilon
9	GTF3C5	ENSG00000148308	ENST00000439697	protein_coding	KNOWN	None	4668	673	223	135906404	135929854	1	None	TFiiiC2-63, TFIIIC63, TFIIICepsilon
9	GTF3C5	ENSG00000148308	ENST00000485692	processed_transcript	KNOWN	None	4668	None	None	135906405	135919794	1	None	TFiiiC2-63, TFIIIC63, TFIIICepsilon
9	GTF3C5	ENSG00000148308	ENST00000461871	processed_transcript	KNOWN	None	4668	None	None	135929290	135930734	1	None	TFiiiC2-63, TFIIIC63, TFIIICepsilon
9	GTF3C5	ENSG00000148308	ENST00000435745	protein_coding	KNOWN	None	4668	272	89	135929306	135930729	1	None	TFiiiC2-63, TFIIIC63, TFIIICepsilon
9	GTF3C5	ENSG00000148308	ENST00000489842	processed_transcript	KNOWN	None	4668	None	None	135931246	135933517	1	None	TFiiiC2-63, TFIIIC63, TFIIICepsilon
9	GTF3C5	ENSG00000148308	ENST00000372099	protein_coding	KNOWN	None	4668	1533	510	135906387	135933888	1	None	TFiiiC2-63, TFIIIC63, TFIIICepsilon
9	GTF3C5	ENSG00000148308	ENST00000372095	protein_coding	KNOWN	None	4668	1239	412	135906387	135931148	1	None	TFiiiC2-63, TFIIIC63, TFIIICepsilon
2	None	ENSG00000228872	ENST00000393996	processed_pseudogene	KNOWN	None	None	None	None	63944256	63945033	1	None	None
HG418_PATCH	THEM6	ENSG00000263194	ENST00000575946	protein_coding	KNOWN	None	29656	627	208	143808564	143818288	1	C8orf55	DSCD75
HG418_PATCH	THEM6	ENSG00000263194	ENST00000573810	nonsense_mediated_decay	KNOWN	None	29656	251	82	143809084	143818288	1	C8orf55	DSCD75
HG418_PATCH	THEM6	ENSG00000263194	ENST00000571568	retained_intron	KNOWN	None	29656	None	None	143815891	143818286	1	C8orf55	DSCD75
X	SALL4P2	ENSG00000238040	ENST00000423288	processed_pseudogene	KNOWN	None	39819	None	None	129005285	129011543	1	None	None
1	RN7SKP126	ENSG00000223075	ENST00000411143	misc_RNA	KNOWN	None	45850	None	None	192844816	192845115	-1	None	None
1	RNA5SP81	ENSG00000222120	ENST00000410188	rRNA	KNOWN	None	42858	None	None	242297574	242297683	1	RN5S81	None
5	PCDHGB7	ENSG00000254122	ENST00000398594	protein_coding	KNOWN	CCDS47293	8714	2790	929	140797427	140892546	1	None	ME6, PCDH-GAMMA-B7
2	ENSAP3	ENSG00000177261	ENST00000312710	processed_pseudogene	KNOWN	None	37946	None	None	215562451	215562783	1	None	None
2	ENSAP3	ENSG00000177261	ENST00000412989	processed_pseudogene	KNOWN	None	37946	None	None	215562459	215562788	1	None	None
5	ESM1	ENSG00000164283	ENST00000381405	protein_coding	KNOWN	CCDS3963	3466	555	184	54273692	54281491	-1	None	None
5	ESM1	ENSG00000164283	ENST00000381403	protein_coding	KNOWN	CCDS47206	3466	405	134	54274315	54281421	-1	None	None
5	ESM1	ENSG00000164283	ENST00000598310	processed_transcript	KNOWN	None	3466	None	None	54274886	54318499	-1	None	None
5	ESM1	ENSG00000164283	ENST00000601836	protein_coding	KNOWN	None	3466	269	88	54281077	54318499	-1	None	None
12	None	ENSG00000257027	ENST00000537616	sense_intronic	KNOWN	None	None	None	None	9811163	9814681	1	None	None
10	PCGF5	ENSG00000180628	ENST00000496708	processed_transcript	KNOWN	None	28264	None	None	92979934	92982686	1	RNF159	MGC16202
10	PCGF5	ENSG00000180628	ENST00000490164	processed_transcript	KNOWN	None	28264	None	None	92980540	92987717	1	RNF159	MGC16202
10	PCGF5	ENSG00000180628	ENST00000336126	protein_coding	KNOWN	CCDS7413	28264	771	256	92980545	93044088	1	RNF159	MGC16202
10	PCGF5	ENSG00000180628	ENST00000543648	protein_coding	KNOWN	CCDS7413	28264	771	256	92979908	93038341	1	RNF159	MGC16202
10	PCGF5	ENSG00000180628	ENST00000371687	protein_coding	KNOWN	None	28264	150	49	92979908	92987131	1	RNF159	MGC16202
17	RN7SL699P	ENSG00000265171	ENST00000579661	misc_RNA	KNOWN	None	46715	None	None	49672867	49673118	-1	None	None
9	FAM27E4	ENSG00000204805	ENST00000605259	processed_pseudogene	KNOWN	None	44415	None	None	44998147	44998488	1	FAM27E4P	None
9	FAM27E4	ENSG00000204805	ENST00000418795	processed_pseudogene	KNOWN	None	44415	None	None	44997777	44999352	1	FAM27E4P	None
15	None	ENSG00000173867	ENST00000561140	processed_transcript	KNOWN	None	None	None	None	89002948	89054752	-1	None	None
15	None	ENSG00000173867	ENST00000606219	processed_transcript	KNOWN	None	None	None	None	89037671	89055760	-1	None	None
21	BRWD1-IT1	ENSG00000237373	ENST00000435608	processed_transcript	PUTATIVE	None	41920	None	None	40589019	40591731	-1	None	None
10	None	ENSG00000254536	ENST00000468317	protein_coding	PUTATIVE	None	None	1020	339	135204338	135233999	1	None	None
1	RN7SKP12	ENSG00000252084	ENST00000516275	misc_RNA	KNOWN	None	45736	None	None	242351949	242352091	-1	None	None
1	None	ENSG00000234871	ENST00000451690	lincRNA	KNOWN	None	None	None	None	192906430	192917387	-1	None	None
1	IGSF8	ENSG00000162729	ENST00000314485	protein_coding	KNOWN	CCDS1195	17813	1842	613	160061130	160068479	-1	None	CD81P3, EWI2, PGRL, CD316
1	IGSF8	ENSG00000162729	ENST00000368086	protein_coding	KNOWN	CCDS1195	17813	1842	613	160061130	160068479	-1	None	CD81P3, EWI2, PGRL, CD316
1	IGSF8	ENSG00000162729	ENST00000448417	protein_coding	KNOWN	None	17813	904	300	160063500	160068733	-1	None	CD81P3, EWI2, PGRL, CD316
1	IGSF8	ENSG00000162729	ENST00000460351	processed_transcript	KNOWN	None	17813	None	None	160063550	160065122	-1	None	CD81P3, EWI2, PGRL, CD316
17	None	ENSG00000252109	ENST00000516300	snoRNA	NOVEL	None	None	None	None	50303618	50303707	-1	None	None
12	None	ENSG00000207467	ENST00000384736	misc_RNA	NOVEL	None	None	None	None	49203694	49203799	1	None	None
12	None	ENSG00000213443	ENST00000396690	processed_pseudogene	KNOWN	None	None	None	None	9847980	9848823	1	None	None
1	None	ENSG00000232689	ENST00000425514	sense_intronic	PUTATIVE	None	None	None	None	242366857	242373825	-1	None	None
6	None	ENSG00000207247	ENST00000384518	misc_RNA	NOVEL	None	None	None	None	137255903	137256004	1	None	None
HSCHR19LRC_LRC_J_CTG1	None	ENSG00000272538	ENST00000582891	miRNA	NOVEL	None	None	None	None	54530502	54530601	-1	None	None
21	METTL21AP1	ENSG00000229623	ENST00000438852	processed_pseudogene	KNOWN	None	41921	None	None	40607312	40607946	-1	None	None
17	None	ENSG00000263317	ENST00000572848	lincRNA	KNOWN	None	None	None	None	50467875	50613061	1	None	None
11	None	ENSG00000235661	ENST00000446181	unitary_pseudogene	KNOWN	None	None	None	None	43578308	43591483	1	None	None
11	None	ENSG00000235661	ENST00000533531	processed_transcript	PUTATIVE	None	None	None	None	43590856	43591945	1	None	None
14	None	ENSG00000235785	ENST00000429450	antisense	KNOWN	None	None	None	None	99729285	99731072	1	None	None
2	HNRNPA1P66	ENSG00000229221	ENST00000416539	processed_pseudogene	KNOWN	None	48796	None	None	63978831	63979764	-1	None	None
11	None	ENSG00000227467	ENST00000450804	lincRNA	KNOWN	None	None	None	None	72281704	72284273	1	None	None
22	RFPL1S	ENSG00000225465	ENST00000461286	antisense	KNOWN	None	9978	None	None	29832818	29874115	-1	RFPL1-AS1	RFPL1-AS, NCRNA00006
22	RFPL1S	ENSG00000225465	ENST00000419368	antisense	KNOWN	None	9978	None	None	29867930	29874059	-1	RFPL1-AS1	RFPL1-AS, NCRNA00006
22	RFPL1S	ENSG00000225465	ENST00000539579	antisense	KNOWN	None	9978	None	None	29837244	29837827	-1	RFPL1-AS1	RFPL1-AS, NCRNA00006
HG388_HG400_PATCH	None	ENSG00000262852	ENST00000573863	protein_coding	KNOWN	None	None	549	182	111782965	111784816	1	None	None
1	ZNF101P2	ENSG00000234473	ENST00000439152	processed_pseudogene	KNOWN	None	44942	None	None	192962579	192963807	-1	None	None
6	RPL35AP3	ENSG00000230350	ENST00000414680	processed_pseudogene	KNOWN	None	21117	None	None	137295067	137295354	-1	None	bA55K22.4
2	None	ENSG00000224048	ENST00000440668	lincRNA	KNOWN	None	None	None	None	151468895	151491630	1	None	None
2	None	ENSG00000224048	ENST00000413247	lincRNA	KNOWN	None	None	None	None	151485411	151491862	1	None	None
2	None	ENSG00000224048	ENST00000423428	lincRNA	KNOWN	None	None	None	None	151485506	151491484	1	None	None
2	None	ENSG00000224048	ENST00000427615	lincRNA	KNOWN	None	None	None	None	151485569	151491854	1	None	None
2	None	ENSG00000224048	ENST00000443811	lincRNA	KNOWN	None	None	None	None	151485581	151491382	1	None	None
1	None	ENSG00000224525	ENST00000421878	antisense	PUTATIVE	None	None	None	None	242372565	242374129	1	None	None
2	ABHD1	ENSG00000143994	ENST00000489120	retained_intron	KNOWN	None	17553	None	None	27346682	27352138	1	None	LABH1, FLJ36128
2	ABHD1	ENSG00000143994	ENST00000448950	nonsense_mediated_decay	KNOWN	None	17553	918	305	27346691	27353680	1	None	LABH1, FLJ36128
2	ABHD1	ENSG00000143994	ENST00000316470	protein_coding	KNOWN	CCDS1736	17553	1218	405	27346703	27353680	1	None	LABH1, FLJ36128
2	ABHD1	ENSG00000143994	ENST00000420647	nonsense_mediated_decay	KNOWN	None	17553	309	102	27346704	27353680	1	None	LABH1, FLJ36128
2	ABHD1	ENSG00000143994	ENST00000416071	protein_coding	PUTATIVE	None	17553	531	176	27346708	27352724	1	None	LABH1, FLJ36128
2	ABHD1	ENSG00000143994	ENST00000496739	retained_intron	KNOWN	None	17553	None	None	27352983	27353555	1	None	LABH1, FLJ36128
2	None	ENSG00000229267	ENST00000607412	antisense	KNOWN	None	None	None	None	215674953	215827998	1	None	None
2	None	ENSG00000229267	ENST00000420134	antisense	KNOWN	None	None	None	None	215825116	215826786	1	None	None
HG858_PATCH	None	ENSG00000260321	ENST00000569232	lincRNA	KNOWN	None	None	None	None	216856	232396	-1	None	None
HG858_PATCH	None	ENSG00000260321	ENST00000567394	lincRNA	KNOWN	None	None	None	None	217002	232399	-1	None	None
9	ANKS6	ENSG00000165138	ENST00000444472	protein_coding	PUTATIVE	None	26724	1024	340	101493611	101539708	-1	SAMD6, ANKRD14	FLJ36928, NPHP16
9	ANKS6	ENSG00000165138	ENST00000375019	protein_coding	PUTATIVE	None	26724	1755	584	101494278	101559247	-1	SAMD6, ANKRD14	FLJ36928, NPHP16
9	ANKS6	ENSG00000165138	ENST00000353234	protein_coding	KNOWN	CCDS43856	26724	2616	871	101494301	101558821	-1	SAMD6, ANKRD14	FLJ36928, NPHP16
9	ANKS6	ENSG00000165138	ENST00000486778	processed_transcript	KNOWN	None	26724	None	None	101545852	101546750	-1	SAMD6, ANKRD14	FLJ36928, NPHP16
9	ANKS6	ENSG00000165138	ENST00000466120	processed_transcript	KNOWN	None	26724	None	None	101546232	101552778	-1	SAMD6, ANKRD14	FLJ36928, NPHP16
9	ANKS6	ENSG00000165138	ENST00000471846	processed_transcript	PUTATIVE	None	26724	None	None	101552193	101558821	-1	SAMD6, ANKRD14	FLJ36928, NPHP16
9	ANKS6	ENSG00000165138	ENST00000375018	protein_coding	KNOWN	None	26724	2619	872	101494291	101558794	-1	SAMD6, ANKRD14	FLJ36928, NPHP16
9	ANKS6	ENSG00000165138	ENST00000540940	protein_coding	KNOWN	None	26724	2031	676	101494302	101552885	-1	SAMD6, ANKRD14	FLJ36928, NPHP16
8	None	ENSG00000244413	ENST00000460778	processed_pseudogene	KNOWN	None	None	None	None	135991070	135991522	-1	None	None
17	None	ENSG00000262902	ENST00000574371	processed_pseudogene	KNOWN	None	None	None	None	51183095	51183719	1	None	None
8	None	ENSG00000253975	ENST00000518404	processed_pseudogene	KNOWN	None	None	None	None	63394757	63396370	-1	None	None
11	OR5BN2P	ENSG00000255140	ENST00000534395	unprocessed_pseudogene	KNOWN	None	29194	None	None	55884115	55884732	-1	None	None
3	RNU6-1301P	ENSG00000199594	ENST00000362724	snRNA	KNOWN	None	48264	None	None	37181818	37181921	1	None	None
1	None	ENSG00000226750	ENST00000447710	unprocessed_pseudogene	KNOWN	None	None	None	None	242508860	242509020	1	None	None
2	None	ENSG00000251775	ENST00000515966	snoRNA	NOVEL	None	None	None	None	64110383	64110525	-1	None	None
1	PFN1P12	ENSG00000226028	ENST00000455938	processed_pseudogene	KNOWN	None	42995	None	None	149114655	149115188	1	None	None
1	None	ENSG00000221222	ENST00000408295	miRNA	NOVEL	None	None	None	None	87616981	87617128	1	None	None
12	RNU6-600P	ENSG00000199394	ENST00000362524	snRNA	KNOWN	None	47563	None	None	49285913	49286011	-1	None	None
8	None	ENSG00000254083	ENST00000522279	lincRNA	KNOWN	None	None	None	None	136246374	136311962	1	None	None
8	None	ENSG00000254083	ENST00000520101	lincRNA	KNOWN	None	None	None	None	136246479	136308798	1	None	None
8	None	ENSG00000254083	ENST00000524070	lincRNA	KNOWN	None	None	None	None	136246480	136308792	1	None	None
2	None	ENSG00000228079	ENST00000423539	lincRNA	KNOWN	None	None	None	None	64313484	64315380	-1	None	None
22	APOBEC3A	ENSG00000128383	ENST00000495988	processed_transcript	KNOWN	None	17343	None	None	39348746	39349421	1	None	ARP3, PHRBN
22	APOBEC3A	ENSG00000128383	ENST00000402255	protein_coding	KNOWN	CCDS13981	17343	600	199	39348756	39359188	1	None	ARP3, PHRBN
22	APOBEC3A	ENSG00000128383	ENST00000488758	retained_intron	KNOWN	None	17343	None	None	39353527	39355691	1	None	ARP3, PHRBN
22	APOBEC3A	ENSG00000128383	ENST00000249116	protein_coding	KNOWN	CCDS13981	17343	600	199	39353527	39359188	1	None	ARP3, PHRBN
22	None	ENSG00000258555	ENST00000358654	nonsense_mediated_decay	KNOWN	None	None	2736	911	24666866	24838324	1	None	None
3	UBE2FP1	ENSG00000224080	ENST00000416536	processed_pseudogene	KNOWN	None	44535	None	None	37185003	37185449	-1	None	None
1	None	ENSG00000227290	ENST00000452509	lincRNA	KNOWN	None	None	None	None	87819207	87837338	-1	None	None
12	None	ENSG00000239617	ENST00000489971	processed_pseudogene	KNOWN	None	None	None	None	49297201	49297596	-1	None	None
11	SSSCA1-AS1	ENSG00000260233	ENST00000567594	antisense	KNOWN	None	27384	None	None	65337131	65337744	-1	None	None
9	None	ENSG00000228510	ENST00000449048	processed_pseudogene	KNOWN	None	None	None	None	131206866	131208907	1	None	None
9	INVS	ENSG00000119509	ENST00000262457	protein_coding	KNOWN	CCDS6746	17870	3198	1065	102861538	103063282	1	NPHP2	None
9	INVS	ENSG00000119509	ENST00000496467	processed_transcript	KNOWN	None	17870	None	None	102861543	102988516	1	NPHP2	None
9	INVS	ENSG00000119509	ENST00000480309	processed_transcript	KNOWN	None	17870	None	None	102861554	102864299	1	NPHP2	None
9	INVS	ENSG00000119509	ENST00000262456	protein_coding	KNOWN	CCDS6747	17870	2688	895	102861557	103063070	1	NPHP2	None
9	INVS	ENSG00000119509	ENST00000374921	protein_coding	KNOWN	None	17870	306	101	102861570	102893185	1	NPHP2	None
9	INVS	ENSG00000119509	ENST00000466647	processed_transcript	KNOWN	None	17870	None	None	102861585	102988495	1	NPHP2	None
9	INVS	ENSG00000119509	ENST00000460636	processed_transcript	KNOWN	None	17870	None	None	102866821	103002408	1	NPHP2	None
9	INVS	ENSG00000119509	ENST00000541287	protein_coding	KNOWN	None	17870	2967	988	102861542	103060590	1	NPHP2	None
17	None	ENSG00000263252	ENST00000571086	processed_pseudogene	KNOWN	None	None	None	None	51430788	51431495	-1	None	None
1	UBE2V1P8	ENSG00000233118	ENST00000437166	processed_pseudogene	KNOWN	None	44893	None	None	41407923	41408187	-1	None	None
HG388_HG400_PATCH	HSPB2-C11orf52	ENSG00000262978	ENST00000572507	nonsense_mediated_decay	KNOWN	None	41996	549	182	111783459	111789573	1	None	None
HG388_HG400_PATCH	HSPB2-C11orf52	ENSG00000262978	ENST00000571200	nonsense_mediated_decay	KNOWN	None	41996	159	52	111783465	111797594	1	None	None
HSCHR19_1_CTG3	ZNF85	ENSG00000262562	ENST00000571716	protein_coding	KNOWN	None	13160	1788	595	21112510	21139919	1	None	HPF4, HTF1
HSCHR19_1_CTG3	ZNF85	ENSG00000262562	ENST00000571239	processed_transcript	KNOWN	None	13160	None	None	21125904	21139919	1	None	HPF4, HTF1
9	None	ENSG00000224488	ENST00000455403	processed_pseudogene	KNOWN	None	None	None	None	17447143	17448541	-1	None	None
11	OR5BN1P	ENSG00000254848	ENST00000532955	unprocessed_pseudogene	KNOWN	None	15276	None	None	55900142	55900970	-1	None	None
1	None	ENSG00000235467	ENST00000427498	processed_pseudogene	KNOWN	None	None	None	None	242528491	242529124	1	None	None
2	RGPD3	ENSG00000153165	ENST00000409886	protein_coding	KNOWN	CCDS46379	32416	5277	1758	107021446	107084832	-1	None	RGP3
2	RGPD3	ENSG00000153165	ENST00000304514	protein_coding	KNOWN	None	32416	5301	1766	107029217	107084826	-1	None	RGP3
10	BTF3P15	ENSG00000237242	ENST00000455606	processed_pseudogene	KNOWN	None	38567	None	None	111294413	111294748	1	None	None
1	None	ENSG00000238754	ENST00000458806	snoRNA	NOVEL	None	None	None	None	193026411	193026545	-1	None	None
15	None	ENSG00000240238	ENST00000472975	processed_pseudogene	KNOWN	None	None	None	None	59844814	59845292	-1	None	None
11	MIR4690	ENSG00000266041	ENST00000578459	miRNA	KNOWN	None	41707	None	None	65403781	65403840	1	None	hsa-mir-4690
2	None	ENSG00000207274	ENST00000384544	snoRNA	NOVEL	None	None	None	None	215711671	215711805	1	None	None
11	None	ENSG00000256633	ENST00000545254	antisense	KNOWN	None	None	None	None	72295616	72299023	1	None	None
4	None	ENSG00000260519	ENST00000562054	antisense	KNOWN	None	None	None	None	42659513	42659945	1	None	None
1	MIR1278	ENSG00000221680	ENST00000408753	miRNA	KNOWN	None	35356	None	None	193105633	193105713	1	MIRN1278	hsa-mir-1278
11	MIR4489	ENSG00000265874	ENST00000578869	miRNA	KNOWN	None	41685	None	None	65416663	65416724	1	None	hsa-mir-4489
1	NEXN	ENSG00000162614	ENST00000401035	protein_coding	KNOWN	None	29557	964	320	78354198	78399069	1	None	nexilin, NELIN
1	NEXN	ENSG00000162614	ENST00000334785	protein_coding	KNOWN	CCDS41351	29557	2028	675	78354313	78408909	1	None	nexilin, NELIN
1	NEXN	ENSG00000162614	ENST00000440324	protein_coding	KNOWN	None	29557	1306	434	78354347	78401604	1	None	nexilin, NELIN
1	NEXN	ENSG00000162614	ENST00000342754	protein_coding	KNOWN	None	29557	1730	575	78383813	78409580	1	None	nexilin, NELIN
1	NEXN	ENSG00000162614	ENST00000464998	processed_transcript	KNOWN	None	29557	None	None	78392254	78401655	1	None	nexilin, NELIN
1	NEXN	ENSG00000162614	ENST00000480732	processed_transcript	KNOWN	None	29557	None	None	78397347	78408884	1	None	nexilin, NELIN
1	NEXN	ENSG00000162614	ENST00000470735	processed_transcript	PUTATIVE	None	29557	None	None	78407396	78408438	1	None	nexilin, NELIN
1	NEXN	ENSG00000162614	ENST00000457030	protein_coding	KNOWN	None	29557	1989	662	78354200	78408598	1	None	nexilin, NELIN
1	NEXN	ENSG00000162614	ENST00000330010	protein_coding	KNOWN	CCDS53335	29557	1836	611	78354200	78409576	1	None	nexilin, NELIN
1	NEXN	ENSG00000162614	ENST00000294624	protein_coding	KNOWN	None	29557	480	159	78354290	78390082	1	None	nexilin, NELIN
2	None	ENSG00000225889	ENST00000438115	antisense	KNOWN	None	None	None	None	64370373	64456739	1	None	None
2	None	ENSG00000225889	ENST00000413030	antisense	KNOWN	None	None	None	None	64434109	64478489	1	None	None
2	None	ENSG00000225889	ENST00000426365	antisense	KNOWN	None	None	None	None	64454995	64478478	1	None	None
2	None	ENSG00000225889	ENST00000449678	antisense	KNOWN	None	None	None	None	64455557	64479072	1	None	None
2	None	ENSG00000225889	ENST00000436950	antisense	KNOWN	None	None	None	None	64455587	64475672	1	None	None
2	None	ENSG00000225889	ENST00000451350	antisense	KNOWN	None	None	None	None	64455602	64479993	1	None	None
HSCHR6_MHC_COX	SUMO2P1	ENSG00000223771	ENST00000455040	processed_pseudogene	KNOWN	None	13985	None	None	29600438	29600721	-1	SMT3H2P, SUMO2P	SMT3Bp, dJ271M21
HSCHR6_MHC_COX	SUMO2P1	ENSG00000223771	ENST00000551053	pseudogene	KNOWN	None	13985	None	None	29600438	29600721	-1	SMT3H2P, SUMO2P	SMT3Bp, dJ271M21
19	None	ENSG00000269481	ENST00000593957	antisense	KNOWN	None	None	None	None	17525066	17533133	-1	None	None
14	None	ENSG00000258383	ENST00000555595	lincRNA	KNOWN	None	None	None	None	99791136	99798352	-1	None	None
Y	RBMY2NP	ENSG00000229208	ENST00000434454	unprocessed_pseudogene	KNOWN	None	23919	None	None	9669027	9684305	-1	None	None
1	RNU1-114P	ENSG00000202167	ENST00000365297	snRNA	KNOWN	None	48456	None	None	149146714	149146879	-1	None	None
6	None	ENSG00000225391	ENST00000432330	lincRNA	KNOWN	None	None	None	None	137303302	137314371	-1	None	None
6	None	ENSG00000225391	ENST00000418699	lincRNA	KNOWN	None	None	None	None	137303302	137314371	-1	None	None
4	None	ENSG00000251517	ENST00000511279	lincRNA	KNOWN	None	None	None	None	42708124	42709352	1	None	None
12	None	ENSG00000201678	ENST00000364808	misc_RNA	NOVEL	None	None	None	None	49321722	49321816	-1	None	None
15	None	ENSG00000271997	ENST00000606927	sense_intronic	KNOWN	None	None	None	None	89045175	89049018	-1	None	None
9	None	ENSG00000225951	ENST00000420801	antisense	KNOWN	None	None	None	None	131231236	131235291	-1	None	None
9	PABPC1P11	ENSG00000228810	ENST00000428966	processed_pseudogene	KNOWN	None	37993	None	None	17589159	17591316	-1	None	None
1	None	ENSG00000232077	ENST00000420807	lincRNA	KNOWN	None	None	None	None	193273875	193335083	1	None	None
1	None	ENSG00000213690	ENST00000395679	processed_pseudogene	KNOWN	None	None	None	None	242540225	242540734	-1	None	None
11	RN7SL309P	ENSG00000239356	ENST00000491364	misc_RNA	KNOWN	None	46325	None	None	65463006	65463306	1	None	None
1	RNVU1-17	ENSG00000207349	ENST00000384619	snRNA	KNOWN	None	48322	None	None	149194106	149194269	-1	None	vU1.17, RNU1-127
HG19_PATCH	None	ENSG00000260002	ENST00000562620	lincRNA	KNOWN	None	None	None	None	1981650	1983729	1	None	None
1	OR2W3	ENSG00000238243	ENST00000360358	protein_coding	KNOWN	CCDS31099	15021	945	314	248058889	248059833	1	OR2W8P, OR2W3P	OST718
1	OR2W3	ENSG00000238243	ENST00000537741	protein_coding	KNOWN	CCDS31099	15021	945	314	248031277	248060449	1	OR2W8P, OR2W3P	OST718
20	NAPB	ENSG00000125814	ENST00000377026	protein_coding	KNOWN	CCDS13152	15751	897	298	23355159	23402125	-1	None	SNAP-BETA, SNAPB
20	NAPB	ENSG00000125814	ENST00000472855	processed_transcript	KNOWN	None	15751	None	None	23359436	23402051	-1	None	SNAP-BETA, SNAPB
20	NAPB	ENSG00000125814	ENST00000468128	processed_transcript	KNOWN	None	15751	None	None	23360109	23402109	-1	None	SNAP-BETA, SNAPB
20	NAPB	ENSG00000125814	ENST00000487502	processed_transcript	KNOWN	None	15751	None	None	23377375	23402109	-1	None	SNAP-BETA, SNAPB
20	NAPB	ENSG00000125814	ENST00000432543	protein_coding	KNOWN	None	15751	780	259	23357498	23402110	-1	None	SNAP-BETA, SNAPB
20	NAPB	ENSG00000125814	ENST00000398425	protein_coding	KNOWN	None	15751	615	204	23355166	23402098	-1	None	SNAP-BETA, SNAPB
11	MIR139	ENSG00000272036	ENST00000606837	miRNA	KNOWN	None	31526	None	None	72326107	72326174	-1	MIRN139	hsa-mir-139
1	None	ENSG00000215893	ENST00000401064	processed_pseudogene	KNOWN	None	None	None	None	41564310	41564808	1	None	None
14	None	ENSG00000216173	ENST00000401354	miRNA	NOVEL	None	None	None	None	99828628	99828716	1	None	None
1	RNA5SP52	ENSG00000199318	ENST00000362448	rRNA	KNOWN	None	42829	None	None	87918923	87919056	-1	RN5S52	None
19	None	ENSG00000254503	ENST00000526892	processed_pseudogene	KNOWN	None	None	None	None	17527840	17529097	-1	None	None
15	RPL5P32	ENSG00000228992	ENST00000454085	processed_pseudogene	KNOWN	None	36973	None	None	28140850	28141728	1	None	None
3	None	ENSG00000243620	ENST00000473299	antisense	KNOWN	None	None	None	None	146627472	147088443	-1	None	None
9	None	ENSG00000264891	ENST00000580080	miRNA	NOVEL	None	None	None	None	131239184	131239275	1	None	None
1	RNU1-92P	ENSG00000252826	ENST00000517017	snRNA	KNOWN	None	48434	None	None	149215166	149215300	-1	None	None
11	KRT8P26	ENSG00000214659	ENST00000534154	processed_pseudogene	KNOWN	None	33378	None	None	65494410	65495685	1	None	None
HG388_HG400_PATCH	C11orf52	ENSG00000262600	ENST00000575241	protein_coding	KNOWN	None	30531	132	43	111788755	111796437	1	None	MGC14839, FLJ25219
HG388_HG400_PATCH	C11orf52	ENSG00000262600	ENST00000571962	protein_coding	KNOWN	None	30531	372	123	111789600	111797595	1	None	MGC14839, FLJ25219
HG388_HG400_PATCH	C11orf52	ENSG00000262600	ENST00000571536	processed_transcript	KNOWN	None	30531	None	None	111789720	111797201	1	None	MGC14839, FLJ25219
HG388_HG400_PATCH	C11orf52	ENSG00000262600	ENST00000576837	retained_intron	KNOWN	None	30531	None	None	111794968	111797102	1	None	MGC14839, FLJ25219
13	LATS2	ENSG00000150457	ENST00000382592	protein_coding	KNOWN	CCDS9294	6515	3267	1088	21547171	21635686	-1	None	None
13	LATS2	ENSG00000150457	ENST00000472754	processed_transcript	KNOWN	None	6515	None	None	21563149	21597268	-1	None	None
13	LATS2	ENSG00000150457	ENST00000542899	protein_coding	KNOWN	CCDS9294	6515	3267	1088	21549009	21634429	-1	None	None
HG418_PATCH	None	ENSG00000267435	ENST00000587231	antisense	KNOWN	None	None	None	None	143719957	143722009	1	None	None
15	RNA5SP396	ENSG00000201704	ENST00000364834	rRNA	KNOWN	None	43296	None	None	59866302	59866421	-1	RN5S396	None
12	None	ENSG00000238395	ENST00000459531	snoRNA	NOVEL	None	None	None	None	49354521	49354619	-1	None	None
4	RN7SKP82	ENSG00000252595	ENST00000516786	misc_RNA	KNOWN	None	45806	None	None	42894413	42894635	1	None	None
1	RNVU1-18	ENSG00000206737	ENST00000384010	snRNA	KNOWN	None	37496	None	None	149224058	149224221	-1	RNU1P1, RNU1-5, RNU1-25, RNU1-25P	vU1.18, U1P101, U1P15, U1.15
17	None	ENSG00000262271	ENST00000572092	processed_pseudogene	KNOWN	None	None	None	None	51511492	51513190	1	None	None
1	None	ENSG00000224235	ENST00000437598	lincRNA	KNOWN	None	None	None	None	88365592	88371397	-1	None	None
9	None	ENSG00000228395	ENST00000434999	antisense	KNOWN	None	None	None	None	131291180	131314689	-1	None	None
9	None	ENSG00000228395	ENST00000426704	antisense	KNOWN	None	None	None	None	131302817	131305965	-1	None	None
1	None	ENSG00000270859	ENST00000605697	processed_pseudogene	KNOWN	None	None	None	None	242834442	242834878	1	None	None
3	None	ENSG00000261364	ENST00000562158	lincRNA	KNOWN	None	None	None	None	108895285	108896212	-1	None	None
7	ATP6V0E2-AS1	ENSG00000204934	ENST00000488315	processed_transcript	KNOWN	None	44180	None	None	149564786	149570931	-1	None	None
7	ATP6V0E2-AS1	ENSG00000204934	ENST00000461019	processed_transcript	KNOWN	None	44180	None	None	149564861	149570934	-1	None	None
7	ATP6V0E2-AS1	ENSG00000204934	ENST00000464939	processed_transcript	KNOWN	None	44180	None	None	149567387	149577699	-1	None	None
8	XRCC6P4	ENSG00000253517	ENST00000518193	processed_pseudogene	KNOWN	None	45186	None	None	63767627	63769693	-1	None	None
16	CHTF8	ENSG00000168802	ENST00000448552	protein_coding	KNOWN	CCDS42185	24353	366	121	69151913	69166473	-1	None	FLJ20400, CTF8, DERPC
16	CHTF8	ENSG00000168802	ENST00000523421	protein_coding	PUTATIVE	None	24353	228	75	69152025	69166470	-1	None	FLJ20400, CTF8, DERPC
16	CHTF8	ENSG00000168802	ENST00000518041	protein_coding	PUTATIVE	None	24353	177	58	69152037	69155395	-1	None	FLJ20400, CTF8, DERPC
16	CHTF8	ENSG00000168802	ENST00000519534	nonsense_mediated_decay	KNOWN	None	24353	198	65	69152222	69154525	-1	None	FLJ20400, CTF8, DERPC
16	CHTF8	ENSG00000168802	ENST00000398235	protein_coding	KNOWN	CCDS42185	24353	366	121	69153714	69166049	-1	None	FLJ20400, CTF8, DERPC
16	CHTF8	ENSG00000168802	ENST00000519520	protein_coding	PUTATIVE	None	24353	39	12	69153856	69166487	-1	None	FLJ20400, CTF8, DERPC
16	CHTF8	ENSG00000168802	ENST00000567763	protein_coding	PUTATIVE	None	24353	314	103	69153908	69166475	-1	None	FLJ20400, CTF8, DERPC
16	CHTF8	ENSG00000168802	ENST00000522497	protein_coding	PUTATIVE	None	24353	433	143	69153930	69166476	-1	None	FLJ20400, CTF8, DERPC
16	CHTF8	ENSG00000168802	ENST00000520529	protein_coding	PUTATIVE	None	24353	39	12	69154199	69166054	-1	None	FLJ20400, CTF8, DERPC
16	CHTF8	ENSG00000168802	ENST00000522091	protein_coding	PUTATIVE	None	24353	300	99	69154364	69166481	-1	None	FLJ20400, CTF8, DERPC
16	CHTF8	ENSG00000168802	ENST00000306585	protein_coding	KNOWN	None	24353	1575	524	69151913	69166473	-1	None	FLJ20400, CTF8, DERPC
4	None	ENSG00000248939	ENST00000505575	lincRNA	KNOWN	None	None	None	None	43135884	43236973	1	None	None
1	None	ENSG00000226640	ENST00000448412	lincRNA	KNOWN	None	None	None	None	193648024	193696313	1	None	None
8	SLC52A2	ENSG00000185803	ENST00000524541	protein_coding	NOVEL	None	30224	208	68	145577795	145583360	1	GPR172A	FLJ11856, PAR1, GPCR41, D15Ertd747e, RFVT2, hRFT3
8	SLC52A2	ENSG00000185803	ENST00000532815	processed_transcript	KNOWN	None	30224	None	None	145578304	145582957	1	GPR172A	FLJ11856, PAR1, GPCR41, D15Ertd747e, RFVT2, hRFT3
8	SLC52A2	ENSG00000185803	ENST00000530047	protein_coding	KNOWN	CCDS6423	30224	1338	445	145582217	145584930	1	GPR172A	FLJ11856, PAR1, GPCR41, D15Ertd747e, RFVT2, hRFT3
8	SLC52A2	ENSG00000185803	ENST00000527078	protein_coding	KNOWN	CCDS6423	30224	1338	445	145582225	145584681	1	GPR172A	FLJ11856, PAR1, GPCR41, D15Ertd747e, RFVT2, hRFT3
8	SLC52A2	ENSG00000185803	ENST00000526338	protein_coding	NOVEL	None	30224	511	169	145582237	145584155	1	GPR172A	FLJ11856, PAR1, GPCR41, D15Ertd747e, RFVT2, hRFT3
8	SLC52A2	ENSG00000185803	ENST00000402965	protein_coding	KNOWN	CCDS6423	30224	1338	445	145582241	145584930	1	GPR172A	FLJ11856, PAR1, GPCR41, D15Ertd747e, RFVT2, hRFT3
8	SLC52A2	ENSG00000185803	ENST00000534725	protein_coding	NOVEL	None	30224	517	171	145582253	145583669	1	GPR172A	FLJ11856, PAR1, GPCR41, D15Ertd747e, RFVT2, hRFT3
8	SLC52A2	ENSG00000185803	ENST00000532887	protein_coding	KNOWN	CCDS6423	30224	1338	445	145582253	145584901	1	GPR172A	FLJ11856, PAR1, GPCR41, D15Ertd747e, RFVT2, hRFT3
8	SLC52A2	ENSG00000185803	ENST00000329994	protein_coding	KNOWN	CCDS6423	30224	1338	445	145582253	145584932	1	GPR172A	FLJ11856, PAR1, GPCR41, D15Ertd747e, RFVT2, hRFT3
8	SLC52A2	ENSG00000185803	ENST00000533662	retained_intron	KNOWN	None	30224	None	None	145582255	145583559	1	GPR172A	FLJ11856, PAR1, GPCR41, D15Ertd747e, RFVT2, hRFT3
8	SLC52A2	ENSG00000185803	ENST00000526891	processed_transcript	KNOWN	None	30224	None	None	145582650	145583661	1	GPR172A	FLJ11856, PAR1, GPCR41, D15Ertd747e, RFVT2, hRFT3
8	SLC52A2	ENSG00000185803	ENST00000526779	nonsense_mediated_decay	KNOWN	None	30224	264	87	145582672	145584389	1	GPR172A	FLJ11856, PAR1, GPCR41, D15Ertd747e, RFVT2, hRFT3
8	SLC52A2	ENSG00000185803	ENST00000526752	protein_coding	NOVEL	None	30224	336	111	145582843	145584931	1	GPR172A	FLJ11856, PAR1, GPCR41, D15Ertd747e, RFVT2, hRFT3
8	SLC52A2	ENSG00000185803	ENST00000540505	protein_coding	KNOWN	None	30224	1074	357	145582650	145584930	1	GPR172A	FLJ11856, PAR1, GPCR41, D15Ertd747e, RFVT2, hRFT3
2	None	ENSG00000228064	ENST00000425983	antisense	KNOWN	None	None	None	None	151839020	151859988	1	None	None
1	RSL24D1P4	ENSG00000215800	ENST00000400938	processed_pseudogene	KNOWN	None	37884	None	None	242935922	242936405	1	RSL24D1P19	None
12	RNU6-940P	ENSG00000200303	ENST00000363433	snRNA	KNOWN	None	47903	None	None	49369326	49369429	1	None	None
15	None	ENSG00000221391	ENST00000408464	miRNA	NOVEL	None	None	None	None	89081810	89081913	-1	None	None
1	None	ENSG00000232721	ENST00000443018	lincRNA	KNOWN	None	None	None	None	149230716	149232554	1	None	None
21	BRWD1-IT2	ENSG00000255568	ENST00000603064	sense_intronic	KNOWN	None	16423	None	None	40685887	40686886	-1	C21orf87, NCRNA00257	None
21	BRWD1-IT2	ENSG00000255568	ENST00000539811	sense_intronic	KNOWN	None	16423	None	None	40685888	40686369	-1	C21orf87, NCRNA00257	None
12	None	ENSG00000247131	ENST00000501387	antisense	KNOWN	None	None	None	None	70107413	70132348	-1	None	None
12	None	ENSG00000247131	ENST00000501300	antisense	KNOWN	None	None	None	None	70116102	70132342	-1	None	None
2	None	ENSG00000236885	ENST00000447078	lincRNA	KNOWN	None	None	None	None	151974469	152042723	-1	None	None
11	RNU7-105P	ENSG00000251919	ENST00000516110	snRNA	KNOWN	None	45639	None	None	72332810	72332871	1	None	None
15	None	ENSG00000259569	ENST00000558732	processed_pseudogene	KNOWN	None	None	None	None	89111518	89111793	1	None	None
1	None	ENSG00000235358	ENST00000425554	lincRNA	KNOWN	None	None	None	None	41708045	41730230	1	None	None
1	None	ENSG00000235358	ENST00000445073	lincRNA	KNOWN	None	None	None	None	41708247	41750533	1	None	None
1	None	ENSG00000235358	ENST00000422305	lincRNA	KNOWN	None	None	None	None	41726453	41730225	1	None	None
14	None	ENSG00000272439	ENST00000607774	snRNA	NOVEL	None	None	None	None	99910643	99910749	1	None	None
1	None	ENSG00000237011	ENST00000447056	lincRNA	KNOWN	None	None	None	None	193653376	193657559	-1	None	None
19	ZNF787	ENSG00000142409	ENST00000270459	protein_coding	KNOWN	CCDS42634	26998	1152	383	56598732	56632649	-1	None	None
19	ZNF787	ENSG00000142409	ENST00000586787	protein_coding	KNOWN	None	26998	119	38	56600422	56614853	-1	None	None
19	ZNF787	ENSG00000142409	ENST00000587279	protein_coding	PUTATIVE	None	26998	381	126	56613019	56632619	-1	None	None
4	None	ENSG00000250657	ENST00000507388	lincRNA	KNOWN	None	None	None	None	43342892	43347617	1	None	None
4	None	ENSG00000250657	ENST00000508352	retained_intron	KNOWN	None	None	None	None	43344814	43347615	1	None	None
11	None	ENSG00000255557	ENST00000534505	lincRNA	KNOWN	None	None	None	None	65513200	65539056	1	None	None
8	DEFB109P3	ENSG00000254866	ENST00000529497	processed_pseudogene	KNOWN	None	30838	None	None	12008404	12008643	-1	None	None
2	FABP5P10	ENSG00000213201	ENST00000435729	processed_pseudogene	KNOWN	None	31066	None	None	152042702	152043109	1	FABP5L10	None
12	None	ENSG00000258283	ENST00000549516	antisense	KNOWN	None	None	None	None	49388933	49390117	1	None	None
1	None	ENSG00000270507	ENST00000603130	processed_pseudogene	KNOWN	None	None	None	None	88778836	88778985	1	None	None
HG19_PATCH	None	ENSG00000261085	ENST00000564608	processed_transcript	KNOWN	None	None	None	None	2104674	2142690	1	None	None
11	None	ENSG00000255808	ENST00000540912	antisense	KNOWN	None	None	None	None	72354281	72370451	1	None	None
15	None	ENSG00000249487	ENST00000506090	lincRNA	KNOWN	None	None	None	None	89128802	89147834	-1	None	None
15	None	ENSG00000249487	ENST00000560368	lincRNA	KNOWN	None	None	None	None	89130005	89148341	-1	None	None
15	None	ENSG00000249487	ENST00000558835	lincRNA	KNOWN	None	None	None	None	89146614	89147290	-1	None	None
1	None	ENSG00000270818	ENST00000603868	processed_pseudogene	KNOWN	None	None	None	None	243045368	243046777	-1	None	None
10	None	ENSG00000238552	ENST00000459384	snoRNA	NOVEL	None	None	None	None	16440654	16440758	-1	None	None
12	MGST1	ENSG00000008394	ENST00000536371	protein_coding	KNOWN	None	7061	233	76	16500076	16516740	1	GST12	MGST-I
12	MGST1	ENSG00000008394	ENST00000534835	processed_transcript	KNOWN	None	7061	None	None	16500579	16502040	1	GST12	MGST-I
12	MGST1	ENSG00000008394	ENST00000543076	protein_coding	NOVEL	None	7061	318	105	16500579	16516933	1	GST12	MGST-I
12	MGST1	ENSG00000008394	ENST00000396210	protein_coding	KNOWN	CCDS8677	7061	468	155	16500583	16517337	1	GST12	MGST-I
12	MGST1	ENSG00000008394	ENST00000539036	processed_transcript	KNOWN	None	7061	None	None	16500586	16762193	1	GST12	MGST-I
12	MGST1	ENSG00000008394	ENST00000537878	retained_intron	KNOWN	None	7061	None	None	16500588	16507658	1	GST12	MGST-I
12	MGST1	ENSG00000008394	ENST00000542256	processed_transcript	KNOWN	None	7061	None	None	16500588	16523342	1	GST12	MGST-I
12	MGST1	ENSG00000008394	ENST00000539708	processed_transcript	KNOWN	None	7061	None	None	16500598	16516994	1	GST12	MGST-I
12	MGST1	ENSG00000008394	ENST00000535309	protein_coding	PUTATIVE	CCDS58209	7061	264	87	16500628	16530126	1	GST12	MGST-I
12	MGST1	ENSG00000008394	ENST00000540056	protein_coding	PUTATIVE	None	7061	141	46	16500712	16517005	1	GST12	MGST-I
12	MGST1	ENSG00000008394	ENST00000540126	protein_coding	KNOWN	None	7061	241	79	16500731	16516748	1	GST12	MGST-I
12	MGST1	ENSG00000008394	ENST00000538885	protein_coding	KNOWN	None	7061	126	41	16503680	16507312	1	GST12	MGST-I
12	MGST1	ENSG00000008394	ENST00000396207	protein_coding	KNOWN	CCDS8677	7061	468	155	16506351	16517343	1	GST12	MGST-I
12	MGST1	ENSG00000008394	ENST00000538857	processed_transcript	KNOWN	None	7061	None	None	16507165	16742514	1	GST12	MGST-I
12	MGST1	ENSG00000008394	ENST00000535624	retained_intron	KNOWN	None	7061	None	None	16510445	16517194	1	GST12	MGST-I
12	MGST1	ENSG00000008394	ENST00000359720	processed_transcript	KNOWN	None	7061	None	None	16535761	16591695	1	GST12	MGST-I
12	MGST1	ENSG00000008394	ENST00000010404	protein_coding	KNOWN	CCDS8677	7061	468	155	16500076	16517343	1	GST12	MGST-I
12	MGST1	ENSG00000008394	ENST00000396209	protein_coding	KNOWN	CCDS8677	7061	468	155	16500712	16517343	1	GST12	MGST-I
11	None	ENSG00000175827	ENST00000316846	pseudogene	NOVEL	None	None	None	None	65545092	65547316	-1	None	None
21	BRWD1-AS1	ENSG00000238141	ENST00000423274	antisense	KNOWN	None	40614	None	None	40687633	40695144	1	None	None
HSCHR19_1_CTG3	ZNF430	ENSG00000263249	ENST00000573540	protein_coding	KNOWN	None	20808	322	106	21209842	21223406	1	None	FLJ13659
2	MIR4773-1	ENSG00000264684	ENST00000585225	miRNA	KNOWN	None	41699	None	None	152224848	152224925	1	None	hsa-mir-4773-1
2	MIR4773-2	ENSG00000264684	ENST00000585225	miRNA	KNOWN	None	41790	None	None	152224848	152224925	1	None	hsa-mir-4773-2
8	FAM90A2P	ENSG00000205879	ENST00000511144	unprocessed_pseudogene	KNOWN	None	32250	None	None	12029711	12036084	-1	None	None
11	MIR670	ENSG00000211568	ENST00000390142	miRNA	KNOWN	None	37304	None	None	43581206	43581303	1	None	hsa-mir-670
1	RN7SL583P	ENSG00000239504	ENST00000475692	misc_RNA	KNOWN	None	46599	None	None	88943514	88943797	-1	None	None
1	None	ENSG00000264972	ENST00000410702	miRNA	NOVEL	None	None	None	None	243061172	243061255	-1	None	None
HG19_PATCH	None	ENSG00000260893	ENST00000565197	lincRNA	KNOWN	None	None	None	None	2426352	2445053	-1	None	None
22	None	ENSG00000234208	ENST00000411969	processed_transcript	PUTATIVE	None	None	None	None	29909878	29931379	-1	None	None
1	None	ENSG00000252241	ENST00000516432	snoRNA	NOVEL	None	None	None	None	193700988	193701074	-1	None	None
2	RN7SL124P	ENSG00000242113	ENST00000498656	misc_RNA	KNOWN	None	46140	None	None	152228517	152228798	1	None	None
1	None	ENSG00000223779	ENST00000457216	lincRNA	KNOWN	None	None	None	None	149239531	149245181	1	None	None
1	None	ENSG00000223779	ENST00000430442	lincRNA	KNOWN	None	None	None	None	149239868	149255822	1	None	None
1	None	ENSG00000223779	ENST00000325963	lincRNA	KNOWN	None	None	None	None	149239868	149265510	1	None	None
1	None	ENSG00000223779	ENST00000442049	lincRNA	KNOWN	None	None	None	None	149239894	149250552	1	None	None
1	None	ENSG00000223779	ENST00000435115	lincRNA	KNOWN	None	None	None	None	149242295	149245215	1	None	None
1	None	ENSG00000223779	ENST00000439719	lincRNA	KNOWN	None	None	None	None	149245050	149245801	1	None	None
1	None	ENSG00000223779	ENST00000425624	lincRNA	KNOWN	None	None	None	None	149250540	149251326	1	None	None
3	LINC00488	ENSG00000214381	ENST00000494582	lincRNA	KNOWN	None	32675	None	None	108897012	108904104	1	C3orf66	FLJ41232
1	None	ENSG00000230199	ENST00000438481	processed_pseudogene	KNOWN	None	None	None	None	243138307	243138386	1	None	None
1	None	ENSG00000230053	ENST00000415219	processed_pseudogene	KNOWN	None	None	None	None	88963992	88964359	-1	None	None
11	MIR129-2	ENSG00000199077	ENST00000362207	miRNA	KNOWN	None	31513	None	None	43602944	43603033	1	MIRN129-2	hsa-mir-129-2
HG418_PATCH	None	ENSG00000262916	ENST00000575150	antisense	KNOWN	None	None	None	None	143783613	143808334	-1	None	None
1	RPL23AP22	ENSG00000237213	ENST00000437556	processed_pseudogene	KNOWN	None	35505	None	None	193725945	193726397	-1	None	None
21	None	ENSG00000252915	ENST00000517106	misc_RNA	NOVEL	None	None	None	None	40716463	40716554	1	None	None
2	None	ENSG00000225214	ENST00000420365	antisense	KNOWN	None	None	None	None	152954842	152965716	1	None	None
1	None	ENSG00000234116	ENST00000427176	lincRNA	KNOWN	None	None	None	None	243169147	243170770	-1	None	None
17	None	ENSG00000262518	ENST00000575289	processed_pseudogene	KNOWN	None	None	None	None	51515917	51517082	1	None	None
3	None	ENSG00000272258	ENST00000607668	antisense	KNOWN	None	None	None	None	37220579	37220861	1	None	None
7	LRRC72	ENSG00000205858	ENST00000382124	nonsense_mediated_decay	KNOWN	None	42972	174	57	16566505	16577317	1	None	None
7	LRRC72	ENSG00000205858	ENST00000482711	processed_transcript	KNOWN	None	42972	None	None	16566515	16576769	1	None	None
7	LRRC72	ENSG00000205858	ENST00000401542	protein_coding	NOVEL	CCDS56464	42972	864	287	16566521	16621193	1	None	None
8	None	ENSG00000265266	ENST00000577345	miRNA	NOVEL	None	None	None	None	136252033	136252102	1	None	None
HSCHR19_1_CTG3	None	ENSG00000261927	ENST00000571781	unprocessed_pseudogene	KNOWN	None	None	None	None	20857729	20879339	1	None	None
21	None	ENSG00000238556	ENST00000459446	snoRNA	NOVEL	None	None	None	None	40717300	40717383	-1	None	None
11	None	ENSG00000243721	ENST00000498752	processed_pseudogene	KNOWN	None	None	None	None	43740226	43740696	1	None	None
17	None	ENSG00000262880	ENST00000575310	processed_transcript	KNOWN	None	None	None	None	7323422	7347400	1	None	None
11	PAMR1	ENSG00000149090	ENST00000278360	protein_coding	KNOWN	CCDS7898	24554	2214	737	35453370	35547171	-1	None	RAMP, DKFZP586H2123
11	PAMR1	ENSG00000149090	ENST00000378880	protein_coding	KNOWN	CCDS31460	24554	2163	720	35453370	35547579	-1	None	RAMP, DKFZP586H2123
11	PAMR1	ENSG00000149090	ENST00000532848	protein_coding	PUTATIVE	None	24554	2043	680	35453660	35551848	-1	None	RAMP, DKFZP586H2123
11	PAMR1	ENSG00000149090	ENST00000527605	protein_coding	PUTATIVE	None	24554	2025	674	35453973	35547283	-1	None	RAMP, DKFZP586H2123
11	PAMR1	ENSG00000149090	ENST00000531219	retained_intron	KNOWN	None	24554	None	None	35456116	35457773	-1	None	RAMP, DKFZP586H2123
11	PAMR1	ENSG00000149090	ENST00000529303	protein_coding	NOVEL	None	24554	533	176	35463196	35547151	-1	None	RAMP, DKFZP586H2123
11	PAMR1	ENSG00000149090	ENST00000534803	processed_transcript	KNOWN	None	24554	None	None	35473436	35547145	-1	None	RAMP, DKFZP586H2123
11	PAMR1	ENSG00000149090	ENST00000378878	protein_coding	KNOWN	None	24554	1830	609	35453378	35547151	-1	None	RAMP, DKFZP586H2123
1	None	ENSG00000213987	ENST00000427711	processed_pseudogene	KNOWN	None	None	None	None	41730222	41730534	-1	None	None
17	None	ENSG00000221534	ENST00000408607	miRNA	NOVEL	None	None	None	None	51614874	51614965	1	None	None
2	RPL30P2	ENSG00000234272	ENST00000414021	processed_pseudogene	KNOWN	None	35642	None	None	152988069	152988359	1	None	None
1	None	ENSG00000237505	ENST00000458097	antisense	KNOWN	None	None	None	None	89003196	89150887	-1	None	None
1	None	ENSG00000237505	ENST00000425750	antisense	KNOWN	None	None	None	None	89005986	89036543	-1	None	None
13	LINC00559	ENSG00000261446	ENST00000569476	lincRNA	KNOWN	None	43703	None	None	90712506	90771973	-1	None	None
2	LINC00309	ENSG00000230923	ENST00000431020	lincRNA	KNOWN	None	25279	None	None	64412212	64432619	-1	NCRNA00309	None
HG19_PATCH	None	ENSG00000260607	ENST00000566348	lincRNA	KNOWN	None	None	None	None	2451484	2454668	1	None	None
17	None	ENSG00000262384	ENST00000571784	processed_pseudogene	KNOWN	None	None	None	None	51758991	51759472	-1	None	None
17	DERL2	ENSG00000072849	ENST00000158771	protein_coding	KNOWN	CCDS11073	17943	720	239	5374571	5389537	-1	None	F-LAN-1, FLANa, F-LANa, CGI-101, derlin-2
17	DERL2	ENSG00000072849	ENST00000573547	retained_intron	KNOWN	None	17943	None	None	5377629	5383593	-1	None	F-LAN-1, FLANa, F-LANa, CGI-101, derlin-2
17	DERL2	ENSG00000072849	ENST00000572834	protein_coding	PUTATIVE	None	17943	225	74	5377772	5389482	-1	None	F-LAN-1, FLANa, F-LANa, CGI-101, derlin-2
17	DERL2	ENSG00000072849	ENST00000575605	protein_coding	NOVEL	None	17943	477	158	5377930	5386199	-1	None	F-LAN-1, FLANa, F-LANa, CGI-101, derlin-2
17	DERL2	ENSG00000072849	ENST00000570848	protein_coding	PUTATIVE	None	17943	435	144	5377930	5389498	-1	None	F-LAN-1, FLANa, F-LANa, CGI-101, derlin-2
17	DERL2	ENSG00000072849	ENST00000571476	nonsense_mediated_decay	KNOWN	None	17943	239	78	5378047	5389468	-1	None	F-LAN-1, FLANa, F-LANa, CGI-101, derlin-2
17	DERL2	ENSG00000072849	ENST00000576551	nonsense_mediated_decay	KNOWN	None	17943	247	81	5381217	5389479	-1	None	F-LAN-1, FLANa, F-LANa, CGI-101, derlin-2
17	DERL2	ENSG00000072849	ENST00000571971	protein_coding	NOVEL	None	17943	600	199	5383391	5389498	-1	None	F-LAN-1, FLANa, F-LANa, CGI-101, derlin-2
17	DERL2	ENSG00000072849	ENST00000574952	nonsense_mediated_decay	KNOWN	None	17943	312	103	5383444	5389596	-1	None	F-LAN-1, FLANa, F-LANa, CGI-101, derlin-2
17	DERL2	ENSG00000072849	ENST00000573637	nonsense_mediated_decay	KNOWN	None	17943	312	103	5383720	5389485	-1	None	F-LAN-1, FLANa, F-LANa, CGI-101, derlin-2
17	DERL2	ENSG00000072849	ENST00000574700	retained_intron	KNOWN	None	17943	None	None	5383830	5389503	-1	None	F-LAN-1, FLANa, F-LANa, CGI-101, derlin-2
17	DERL2	ENSG00000072849	ENST00000575209	retained_intron	KNOWN	None	17943	None	None	5385590	5389495	-1	None	F-LAN-1, FLANa, F-LANa, CGI-101, derlin-2
17	DERL2	ENSG00000072849	ENST00000571968	processed_transcript	KNOWN	None	17943	None	None	5386130	5390131	-1	None	F-LAN-1, FLANa, F-LANa, CGI-101, derlin-2
HG7_PATCH	PRSS2	ENSG00000262739	ENST00000570842	protein_coding	NOVEL	None	9483	561	186	142531859	142534876	1	None	TRY2
HG7_PATCH	PRSS2	ENSG00000262739	ENST00000570608	protein_coding	KNOWN	None	9483	744	247	142531859	142535452	1	None	TRY2
HG7_PATCH	PRSS2	ENSG00000262739	ENST00000573048	protein_coding	NOVEL	None	9483	741	246	142531859	142535452	1	None	TRY2
HG7_PATCH	PRSS2	ENSG00000262739	ENST00000575472	nonsense_mediated_decay	KNOWN	None	9483	207	68	142531863	142535272	1	None	TRY2
HG7_PATCH	PRSS2	ENSG00000262739	ENST00000572294	nonsense_mediated_decay	KNOWN	None	9483	180	59	142531875	142535322	1	None	TRY2
1	None	ENSG00000227240	ENST00000454538	lincRNA	KNOWN	None	None	None	None	194118603	194167824	1	None	None
3	C3orf30	ENSG00000163424	ENST00000295622	protein_coding	KNOWN	CCDS2984	26553	1611	536	118864997	118870302	1	None	FLJ32859
3	C3orf30	ENSG00000163424	ENST00000494105	nonsense_mediated_decay	KNOWN	None	26553	1608	535	118864998	118878872	1	None	FLJ32859
3	C3orf30	ENSG00000163424	ENST00000460150	protein_coding	PUTATIVE	None	26553	1324	440	118865147	118878889	1	None	FLJ32859
3	C3orf30	ENSG00000163424	ENST00000473121	protein_coding	PUTATIVE	None	26553	862	286	118865660	118870299	1	None	FLJ32859
3	C3orf30	ENSG00000163424	ENST00000492792	protein_coding	NOVEL	None	26553	667	221	118865834	118870160	1	None	FLJ32859
11	MTND1P36	ENSG00000253245	ENST00000522384	processed_pseudogene	KNOWN	None	42086	None	None	103278169	103279104	-1	None	None
HG418_PATCH	None	ENSG00000262232	ENST00000571173	antisense	KNOWN	None	None	None	None	143808644	143809051	-1	None	None
3	None	ENSG00000271993	ENST00000607744	antisense	KNOWN	None	None	None	None	37223598	37224225	1	None	None
4	UGT2B28	ENSG00000135226	ENST00000335568	protein_coding	KNOWN	CCDS3528	13479	1590	529	70146217	70160768	1	None	None
4	UGT2B28	ENSG00000135226	ENST00000511240	protein_coding	KNOWN	CCDS56330	13479	1008	335	70146217	70160768	1	None	None
6	GCM2	ENSG00000124827	ENST00000379491	protein_coding	KNOWN	CCDS4517	4198	1521	506	10873456	10882174	-1	GCMB	hGCMb
9	ASB6	ENSG00000148331	ENST00000277459	protein_coding	PUTATIVE	CCDS6925	17181	594	197	132399171	132404403	-1	None	None
9	ASB6	ENSG00000148331	ENST00000277458	protein_coding	KNOWN	CCDS6924	17181	1266	421	132399171	132404444	-1	None	None
9	ASB6	ENSG00000148331	ENST00000450050	protein_coding	KNOWN	None	17181	1029	342	132399947	132404425	-1	None	None
15	RPL41P2	ENSG00000256338	ENST00000544920	processed_pseudogene	KNOWN	None	10357	None	None	28560798	28561102	1	None	None
HSCHR19_1_CTG3	None	ENSG00000264682	ENST00000581494	miRNA	NOVEL	None	None	None	None	20988332	20988414	1	None	None
1	None	ENSG00000229901	ENST00000429109	antisense	KNOWN	None	None	None	None	41840676	41841341	-1	None	None
12	None	ENSG00000257913	ENST00000552933	antisense	KNOWN	None	None	None	None	49392150	49412988	1	None	None
12	None	ENSG00000257913	ENST00000547866	antisense	KNOWN	None	None	None	None	49392155	49412980	1	None	None
12	None	ENSG00000257913	ENST00000552284	antisense	KNOWN	None	None	None	None	49392160	49412563	1	None	None
12	None	ENSG00000257913	ENST00000547395	antisense	KNOWN	None	None	None	None	49392181	49412502	1	None	None
13	RNA5SP34	ENSG00000252696	ENST00000516887	rRNA	KNOWN	None	42610	None	None	90787966	90788095	-1	RN5S34	None
17	RPS2P48	ENSG00000233380	ENST00000441047	processed_pseudogene	KNOWN	None	35985	None	None	51834350	51835231	-1	None	None
5	None	ENSG00000233974	ENST00000502532	processed_pseudogene	KNOWN	None	None	None	None	21481436	21484120	-1	None	None
2	None	ENSG00000270354	ENST00000604190	processed_pseudogene	KNOWN	None	None	None	None	64435632	64435850	-1	None	None
1	None	ENSG00000231512	ENST00000436756	lincRNA	KNOWN	None	None	None	None	243192814	243211127	-1	None	None
1	None	ENSG00000231512	ENST00000420830	lincRNA	KNOWN	None	None	None	None	243194574	243211171	-1	None	None
1	None	ENSG00000231512	ENST00000450226	lincRNA	KNOWN	None	None	None	None	243202216	243211826	-1	None	None
1	None	ENSG00000231512	ENST00000437691	lincRNA	KNOWN	None	None	None	None	243211039	243215554	-1	None	None
12	CCDC63	ENSG00000173093	ENST00000550317	processed_transcript	KNOWN	None	26669	None	None	111284573	111319076	1	None	ODA5, FLJ35843
12	CCDC63	ENSG00000173093	ENST00000545036	protein_coding	NOVEL	None	26669	1572	523	111284764	111345338	1	None	ODA5, FLJ35843
12	CCDC63	ENSG00000173093	ENST00000308208	protein_coding	KNOWN	CCDS9151	26669	1692	563	111284764	111345339	1	None	ODA5, FLJ35843
12	CCDC63	ENSG00000173093	ENST00000552694	protein_coding	PUTATIVE	None	26669	1455	484	111284831	111345339	1	None	ODA5, FLJ35843
HG480_HG481_PATCH	None	ENSG00000260856	ENST00000568661	lincRNA	KNOWN	None	None	None	None	950956	955100	1	None	None
13	FAR1P1	ENSG00000235879	ENST00000427163	processed_pseudogene	KNOWN	None	39675	None	None	90823120	90824053	1	None	None
11	None	ENSG00000254512	ENST00000532859	processed_pseudogene	KNOWN	None	None	None	None	43755309	43756114	1	None	None
1	RNA5SP45	ENSG00000252563	ENST00000516754	rRNA	KNOWN	None	42821	None	None	41932608	41932699	-1	RN5S45	None
22	RPEP4	ENSG00000233010	ENST00000437636	processed_pseudogene	KNOWN	None	44523	None	None	30004889	30005490	1	None	None
15	None	ENSG00000261401	ENST00000566500	unprocessed_pseudogene	KNOWN	None	None	None	None	28577383	28581755	1	None	None
5	None	ENSG00000203563	ENST00000366374	pseudogene	KNOWN	None	None	None	None	21493692	21494062	1	None	None
6	None	ENSG00000235399	ENST00000458017	antisense	KNOWN	None	None	None	None	137316307	137320641	1	None	None
17	None	ENSG00000262624	ENST00000570444	antisense	KNOWN	None	None	None	None	7339876	7340842	-1	None	None
2	None	ENSG00000238012	ENST00000448204	lincRNA	KNOWN	None	None	None	None	64557620	64559265	-1	None	None
17	None	ENSG00000263189	ENST00000574529	processed_pseudogene	KNOWN	None	None	None	None	52030297	52032685	1	None	None
1	None	ENSG00000230881	ENST00000440249	antisense	KNOWN	None	None	None	None	42001114	42001539	1	None	None
HG19_PATCH	None	ENSG00000260323	ENST00000568127	processed_transcript	KNOWN	None	None	None	None	2522436	2555813	-1	None	None
HG19_PATCH	None	ENSG00000260323	ENST00000566330	processed_transcript	KNOWN	None	None	None	None	2522436	2555813	-1	None	None
5	None	ENSG00000272130	ENST00000606105	lincRNA	KNOWN	None	None	None	None	21569864	21570154	1	None	None
6	None	ENSG00000252476	ENST00000516667	snoRNA	NOVEL	None	None	None	None	137861537	137861608	1	None	None
1	None	ENSG00000237959	ENST00000421785	processed_pseudogene	KNOWN	None	None	None	None	89043563	89043884	1	None	None
17	None	ENSG00000263301	ENST00000576615	antisense	KNOWN	None	None	None	None	7342478	7346646	-1	None	None
17	SMARCD2	ENSG00000108604	ENST00000448276	protein_coding	KNOWN	CCDS45756	11107	1596	531	61909444	61920300	-1	None	BAF60B, Rsc6p, CRACD2, PRO2451
17	SMARCD2	ENSG00000108604	ENST00000323347	protein_coding	KNOWN	None	11107	1452	483	61909862	61916088	-1	None	BAF60B, Rsc6p, CRACD2, PRO2451
17	SMARCD2	ENSG00000108604	ENST00000225742	protein_coding	PUTATIVE	None	11107	1371	456	61909964	61919826	-1	None	BAF60B, Rsc6p, CRACD2, PRO2451
17	SMARCD2	ENSG00000108604	ENST00000450364	protein_coding	NOVEL	None	11107	694	230	61909999	61912104	-1	None	BAF60B, Rsc6p, CRACD2, PRO2451
17	SMARCD2	ENSG00000108604	ENST00000584483	retained_intron	KNOWN	None	11107	None	None	61911065	61912505	-1	None	BAF60B, Rsc6p, CRACD2, PRO2451
17	SMARCD2	ENSG00000108604	ENST00000584400	nonsense_mediated_decay	KNOWN	None	11107	243	80	61911272	61920058	-1	None	BAF60B, Rsc6p, CRACD2, PRO2451
17	SMARCD2	ENSG00000108604	ENST00000578234	retained_intron	KNOWN	None	11107	None	None	61911538	61913017	-1	None	BAF60B, Rsc6p, CRACD2, PRO2451
17	SMARCD2	ENSG00000108604	ENST00000581832	retained_intron	KNOWN	None	11107	None	None	61911722	61912412	-1	None	BAF60B, Rsc6p, CRACD2, PRO2451
17	SMARCD2	ENSG00000108604	ENST00000580054	nonsense_mediated_decay	KNOWN	None	11107	330	109	61912851	61914985	-1	None	BAF60B, Rsc6p, CRACD2, PRO2451
17	SMARCD2	ENSG00000108604	ENST00000577686	retained_intron	KNOWN	None	11107	None	None	61914106	61919870	-1	None	BAF60B, Rsc6p, CRACD2, PRO2451
17	SMARCD2	ENSG00000108604	ENST00000577990	protein_coding	KNOWN	None	11107	209	68	61919826	61920425	-1	None	BAF60B, Rsc6p, CRACD2, PRO2451
11	None	ENSG00000255120	ENST00000534178	antisense	KNOWN	None	None	None	None	65556522	65557346	-1	None	None
11	None	ENSG00000255120	ENST00000527453	antisense	KNOWN	None	None	None	None	65556522	65557492	-1	None	None
11	None	ENSG00000255120	ENST00000532454	antisense	KNOWN	None	None	None	None	65556522	65558339	-1	None	None
1	EEF1A1P14	ENSG00000233057	ENST00000421195	processed_pseudogene	KNOWN	None	3197	None	None	194158097	194159472	1	EEF1AL12	None
2	None	ENSG00000238201	ENST00000424119	lincRNA	KNOWN	None	None	None	None	64565201	64568781	-1	None	None
2	None	ENSG00000199884	ENST00000363014	misc_RNA	NOVEL	None	None	None	None	153140864	153140974	-1	None	None
HSCHR19_1_CTG3	None	ENSG00000262975	ENST00000576240	lincRNA	KNOWN	None	None	None	None	20998050	21005050	1	None	None
17	None	ENSG00000201489	ENST00000364619	misc_RNA	NOVEL	None	None	None	None	7440413	7440513	-1	None	None
19	ZNRF4	ENSG00000105428	ENST00000222033	protein_coding	KNOWN	CCDS42475	17726	1290	429	5455426	5456867	1	None	spzn, Ssrzf1, RNF204
10	MTG1	ENSG00000148824	ENST00000477902	protein_coding	NOVEL	None	32159	882	293	135207598	135233968	1	GTPBP7	None
10	MTG1	ENSG00000148824	ENST00000317502	protein_coding	KNOWN	CCDS31320	32159	1005	334	135207675	135234174	1	GTPBP7	None
10	MTG1	ENSG00000148824	ENST00000432508	protein_coding	NOVEL	None	32159	852	283	135207678	135233723	1	GTPBP7	None
10	MTG1	ENSG00000148824	ENST00000460848	retained_intron	KNOWN	None	32159	None	None	135207700	135234811	1	GTPBP7	None
10	MTG1	ENSG00000148824	ENST00000495014	retained_intron	KNOWN	None	32159	None	None	135207718	135215351	1	GTPBP7	None
10	MTG1	ENSG00000148824	ENST00000498790	retained_intron	KNOWN	None	32159	None	None	135207728	135213308	1	GTPBP7	None
10	MTG1	ENSG00000148824	ENST00000473735	retained_intron	KNOWN	None	32159	None	None	135207777	135234022	1	GTPBP7	None
10	MTG1	ENSG00000148824	ENST00000492266	retained_intron	KNOWN	None	32159	None	None	135214927	135216343	1	GTPBP7	None
11	ARAP1-AS1	ENSG00000256007	ENST00000542022	antisense	KNOWN	None	39993	None	None	72396120	72404853	1	None	None
7	None	ENSG00000224016	ENST00000297369	unprocessed_pseudogene	KNOWN	None	None	None	None	149588280	149606793	-1	None	None
2	MIR4433	ENSG00000264297	ENST00000581329	miRNA	KNOWN	None	41634	None	None	64567893	64567973	1	None	hsa-mir-4433
2	None	ENSG00000213197	ENST00000439252	processed_pseudogene	KNOWN	None	None	None	None	153246451	153247144	1	None	None
1	None	ENSG00000230638	ENST00000434240	processed_pseudogene	KNOWN	None	None	None	None	42007740	42009981	1	None	None
1	None	ENSG00000230638	ENST00000455975	processed_pseudogene	KNOWN	None	None	None	None	42008207	42010258	1	None	None
1	RNU6-125P	ENSG00000207234	ENST00000384505	snRNA	KNOWN	None	47088	None	None	89282462	89282568	1	None	None
19	R3HDM4	ENSG00000198858	ENST00000361574	protein_coding	KNOWN	CCDS12048	28270	807	268	896503	913231	-1	C19orf22	MGC16353
19	R3HDM4	ENSG00000198858	ENST00000589428	nonsense_mediated_decay	KNOWN	None	28270	294	97	896528	913219	-1	C19orf22	MGC16353
19	R3HDM4	ENSG00000198858	ENST00000587975	protein_coding	NOVEL	None	28270	744	247	896554	913240	-1	C19orf22	MGC16353
19	R3HDM4	ENSG00000198858	ENST00000586080	retained_intron	KNOWN	None	28270	None	None	899644	901236	-1	C19orf22	MGC16353
19	R3HDM4	ENSG00000198858	ENST00000590454	nonsense_mediated_decay	KNOWN	None	28270	138	45	900076	913210	-1	C19orf22	MGC16353
19	R3HDM4	ENSG00000198858	ENST00000591829	nonsense_mediated_decay	KNOWN	None	28270	108	35	900820	913204	-1	C19orf22	MGC16353
19	R3HDM4	ENSG00000198858	ENST00000590259	nonsense_mediated_decay	KNOWN	None	28270	138	45	900823	913204	-1	C19orf22	MGC16353
19	R3HDM4	ENSG00000198858	ENST00000589445	retained_intron	KNOWN	None	28270	None	None	901491	913151	-1	C19orf22	MGC16353
22	ADORA2A	ENSG00000128271	ENST00000467385	processed_transcript	KNOWN	None	263	None	None	24813847	24829160	1	ADORA2	RDC8
22	ADORA2A	ENSG00000128271	ENST00000486351	processed_transcript	KNOWN	None	263	None	None	24818456	24829176	1	ADORA2	RDC8
22	ADORA2A	ENSG00000128271	ENST00000424232	protein_coding	KNOWN	None	263	263	86	24819565	24829635	1	ADORA2	RDC8
22	ADORA2A	ENSG00000128271	ENST00000486108	protein_coding	KNOWN	None	263	325	107	24819599	24829697	1	ADORA2	RDC8
22	ADORA2A	ENSG00000128271	ENST00000464977	protein_coding	KNOWN	None	263	19	5	24820366	24829391	1	ADORA2	RDC8
22	ADORA2A	ENSG00000128271	ENST00000444262	protein_coding	KNOWN	None	263	1095	364	24820377	24837313	1	ADORA2	RDC8
22	ADORA2A	ENSG00000128271	ENST00000496258	protein_coding	KNOWN	None	263	250	82	24823530	24829622	1	ADORA2	RDC8
22	ADORA2A	ENSG00000128271	ENST00000337539	protein_coding	KNOWN	CCDS13826	263	1239	412	24823530	24838328	1	ADORA2	RDC8
22	ADORA2A	ENSG00000128271	ENST00000496497	processed_transcript	KNOWN	None	263	None	None	24823595	24837141	1	ADORA2	RDC8
22	ADORA2A	ENSG00000128271	ENST00000472248	protein_coding	KNOWN	None	263	88	28	24828087	24829460	1	ADORA2	RDC8
22	ADORA2A	ENSG00000128271	ENST00000436735	protein_coding	KNOWN	None	263	193	63	24828135	24829565	1	ADORA2	RDC8
22	ADORA2A	ENSG00000128271	ENST00000439591	protein_coding	KNOWN	None	263	230	75	24828808	24829602	1	ADORA2	RDC8
11	None	ENSG00000254938	ENST00000530572	lincRNA	KNOWN	None	None	None	None	126790084	126810555	-1	None	None
HG480_HG481_PATCH	RPL14P5	ENSG00000261370	ENST00000569325	processed_pseudogene	KNOWN	None	37720	None	None	969238	970836	-1	None	None
17	None	ENSG00000265500	ENST00000579777	processed_transcript	KNOWN	None	None	None	None	7466604	7482033	1	None	None
13	KRT18P27	ENSG00000224419	ENST00000427733	processed_pseudogene	KNOWN	None	33396	None	None	90882638	90883936	1	None	None
11	ARAP1-AS2	ENSG00000245148	ENST00000500163	antisense	KNOWN	None	39994	None	None	72411519	72416652	1	None	None
17	ISCA1P3	ENSG00000261965	ENST00000577104	processed_pseudogene	KNOWN	None	38024	None	None	52555157	52555529	1	None	None
2	None	ENSG00000236148	ENST00000479658	processed_pseudogene	KNOWN	None	None	None	None	64574327	64574875	-1	None	None
2	None	ENSG00000236148	ENST00000598937	processed_pseudogene	KNOWN	None	None	None	None	64574400	64574873	-1	None	None
1	TCEB1P19	ENSG00000241975	ENST00000411919	processed_pseudogene	KNOWN	None	38155	None	None	89294785	89295102	1	None	None
14	None	ENSG00000258680	ENST00000554098	processed_pseudogene	KNOWN	None	None	None	None	39304593	39304992	1	None	None
1	OR2T8	ENSG00000177462	ENST00000319968	protein_coding	KNOWN	CCDS31100	15020	939	312	248084320	248085258	1	OR2T8P	None
6	SLC35F1	ENSG00000196376	ENST00000360388	protein_coding	KNOWN	CCDS34524	21483	1227	408	118228689	118638839	1	C6orf169	dJ230I3.1
3	None	ENSG00000242671	ENST00000470860	lincRNA	KNOWN	None	None	None	None	146639710	146641628	1	None	None
3	None	ENSG00000242671	ENST00000471638	lincRNA	KNOWN	None	None	None	None	146639750	146643005	1	None	None
1	None	ENSG00000253326	ENST00000517560	processed_pseudogene	KNOWN	None	None	None	None	243218163	243219696	-1	None	None
2	None	ENSG00000235833	ENST00000448261	processed_pseudogene	KNOWN	None	None	None	None	98140412	98141439	-1	None	None
8	ALG1L11P	ENSG00000249889	ENST00000511660	unprocessed_pseudogene	KNOWN	None	44380	None	None	12036206	12040228	1	None	None
3	RNU6-1236P	ENSG00000252889	ENST00000517080	snRNA	KNOWN	None	48199	None	None	108943976	108944074	1	None	None
11	PARVA	ENSG00000197702	ENST00000334956	protein_coding	KNOWN	CCDS44541	14652	1239	412	12398732	12552348	1	MXRA2	FLJ12254, FLJ10793
11	PARVA	ENSG00000197702	ENST00000530755	retained_intron	KNOWN	None	14652	None	None	12399110	12502356	1	MXRA2	FLJ12254, FLJ10793
11	PARVA	ENSG00000197702	ENST00000533345	retained_intron	KNOWN	None	14652	None	None	12419788	12535351	1	MXRA2	FLJ12254, FLJ10793
11	PARVA	ENSG00000197702	ENST00000528916	protein_coding	PUTATIVE	None	14652	628	208	12474282	12533080	1	MXRA2	FLJ12254, FLJ10793
11	PARVA	ENSG00000197702	ENST00000526746	processed_transcript	KNOWN	None	14652	None	None	12495291	12499471	1	MXRA2	FLJ12254, FLJ10793
11	PARVA	ENSG00000197702	ENST00000533392	processed_transcript	KNOWN	None	14652	None	None	12495291	12525902	1	MXRA2	FLJ12254, FLJ10793
11	PARVA	ENSG00000197702	ENST00000539723	protein_coding	KNOWN	None	14652	1119	372	12399110	12549812	1	MXRA2	FLJ12254, FLJ10793
11	PARVA	ENSG00000197702	ENST00000550549	protein_coding	KNOWN	None	14652	1119	372	12399146	12551410	1	MXRA2	FLJ12254, FLJ10793
11	PARVA	ENSG00000197702	ENST00000538608	protein_coding	KNOWN	None	14652	873	290	12419788	12535351	1	MXRA2	FLJ12254, FLJ10793
7	KLHDC10	ENSG00000128607	ENST00000335420	protein_coding	KNOWN	CCDS5815	22194	1329	442	129710350	129775560	1	None	KIAA0265, slim
7	KLHDC10	ENSG00000128607	ENST00000463413	protein_coding	NOVEL	None	22194	409	135	129710390	129760609	1	None	KIAA0265, slim
7	KLHDC10	ENSG00000128607	ENST00000468226	protein_coding	PUTATIVE	None	22194	434	143	129710612	129764374	1	None	KIAA0265, slim
7	KLHDC10	ENSG00000128607	ENST00000495724	processed_transcript	KNOWN	None	22194	None	None	129756285	129757506	1	None	KIAA0265, slim
3	None	ENSG00000231449	ENST00000447946	processed_pseudogene	KNOWN	None	None	None	None	37237695	37238157	1	None	None
22	APOBEC3B	ENSG00000179750	ENST00000407298	protein_coding	NOVEL	CCDS58807	17352	1074	357	39378352	39388551	1	None	PHRBNL, FLJ21201
22	APOBEC3B	ENSG00000179750	ENST00000402182	protein_coding	PUTATIVE	None	17352	1473	490	39378404	39388809	1	None	PHRBNL, FLJ21201
22	APOBEC3B	ENSG00000179750	ENST00000335760	nonsense_mediated_decay	KNOWN	None	17352	756	251	39378411	39388766	1	None	PHRBNL, FLJ21201
22	APOBEC3B	ENSG00000179750	ENST00000333467	protein_coding	KNOWN	CCDS13982	17352	1149	382	39378414	39388789	1	None	PHRBNL, FLJ21201
3	None	ENSG00000239288	ENST00000478982	processed_pseudogene	KNOWN	None	None	None	None	108960354	108961972	1	None	None
1	None	ENSG00000264896	ENST00000390764	miRNA	NOVEL	None	None	None	None	42224812	42224898	1	None	None
3	None	ENSG00000251800	ENST00000515991	snoRNA	NOVEL	None	None	None	None	146671746	146671865	-1	None	None
GL000194.1	None	ENSG00000215750	ENST00000400839	protein_coding	KNOWN	None	None	507	168	53590	56132	-1	None	None
1	None	ENSG00000235308	ENST00000450381	processed_pseudogene	KNOWN	None	None	None	None	89389053	89389527	1	None	None
17	None	ENSG00000263199	ENST00000576282	processed_pseudogene	KNOWN	None	None	None	None	52780297	52780791	1	None	None
2	None	ENSG00000270776	ENST00000605605	processed_pseudogene	KNOWN	None	None	None	None	153395711	153395941	-1	None	None
1	None	ENSG00000242352	ENST00000456826	transcribed_processed_pseudogene	KNOWN	None	None	None	None	149261186	149263729	1	None	None
1	HNRNPFP1	ENSG00000227538	ENST00000391730	processed_pseudogene	KNOWN	None	48812	None	None	42506268	42507400	1	None	None
9	MTND4P15	ENSG00000227321	ENST00000437913	unprocessed_pseudogene	KNOWN	None	42202	None	None	94873147	94874179	1	None	None
12	None	ENSG00000258072	ENST00000547904	processed_pseudogene	KNOWN	None	None	None	None	108297047	108297725	-1	None	None
3	RNU6-505P	ENSG00000207156	ENST00000384427	snRNA	KNOWN	None	47468	None	None	146714394	146714500	-1	None	None
11	RPS12P20	ENSG00000244134	ENST00000464109	processed_pseudogene	KNOWN	None	36187	None	None	72419231	72419610	1	None	None
12	None	ENSG00000270766	ENST00000605507	processed_pseudogene	KNOWN	None	None	None	None	31397374	31397619	1	None	None
2	None	ENSG00000223935	ENST00000441630	antisense	KNOWN	None	None	None	None	64622354	64680932	-1	None	None
1	None	ENSG00000202385	ENST00000365515	misc_RNA	NOVEL	None	None	None	None	89485929	89486048	-1	None	None
1	None	ENSG00000214837	ENST00000438255	lincRNA	KNOWN	None	None	None	None	243242159	243245427	-1	None	None
1	None	ENSG00000214837	ENST00000427210	lincRNA	KNOWN	None	None	None	None	243242290	243254816	-1	None	None
1	None	ENSG00000214837	ENST00000433986	retained_intron	KNOWN	None	None	None	None	243251337	243255900	-1	None	None
1	None	ENSG00000214837	ENST00000417964	lincRNA	KNOWN	None	None	None	None	243251430	243265020	-1	None	None
1	None	ENSG00000214837	ENST00000415989	retained_intron	KNOWN	None	None	None	None	243254693	243255892	-1	None	None
1	None	ENSG00000214837	ENST00000431528	retained_intron	KNOWN	None	None	None	None	243254768	243255860	-1	None	None
1	None	ENSG00000214837	ENST00000411733	retained_intron	KNOWN	None	None	None	None	243259293	243260889	-1	None	None
1	None	ENSG00000214837	ENST00000435793	retained_intron	KNOWN	None	None	None	None	243260176	243265035	-1	None	None
2	None	ENSG00000234932	ENST00000438726	processed_pseudogene	KNOWN	None	None	None	None	153707167	153707338	-1	None	None
HSCHR19_1_CTG3	None	ENSG00000263102	ENST00000573184	unprocessed_pseudogene	KNOWN	None	None	None	None	21027635	21036574	-1	None	None
12	None	ENSG00000243517	ENST00000495623	processed_pseudogene	KNOWN	None	None	None	None	31404926	31405531	-1	None	None
11	None	ENSG00000254824	ENST00000528866	processed_pseudogene	KNOWN	None	None	None	None	103280308	103280385	-1	None	None
2	UBTFL6	ENSG00000228970	ENST00000477929	unprocessed_pseudogene	KNOWN	None	35406	None	None	98253243	98254266	-1	None	None
2	UBTFL6	ENSG00000228970	ENST00000593671	unprocessed_pseudogene	KNOWN	None	35406	None	None	98253060	98254229	-1	None	None
X	RNU6-1130P	ENSG00000202304	ENST00000365434	snRNA	KNOWN	None	48093	None	None	129444046	129444152	-1	None	None
1	PTGES3P1	ENSG00000234518	ENST00000439531	processed_pseudogene	KNOWN	None	43824	None	None	89569968	89570450	-1	None	None
1	PTGES3P1	ENSG00000234518	ENST00000451566	pseudogene	KNOWN	None	43824	None	None	89569968	89570450	-1	None	None
1	None	ENSG00000231714	ENST00000435554	lincRNA	KNOWN	None	None	None	None	194320073	194321556	1	None	None
2	None	ENSG00000237217	ENST00000425381	processed_pseudogene	KNOWN	None	None	None	None	64677230	64677658	1	None	None
11	None	ENSG00000255404	ENST00000531155	antisense	KNOWN	None	None	None	None	65563417	65564690	-1	None	None
17	ARL2BPP8	ENSG00000263125	ENST00000576706	processed_pseudogene	KNOWN	None	39452	None	None	52831526	52832010	-1	None	None
13	MIR622	ENSG00000207858	ENST00000385123	miRNA	KNOWN	None	32878	None	None	90883436	90883531	1	MIRN622	hsa-mir-622
14	None	ENSG00000270713	ENST00000603120	processed_pseudogene	KNOWN	None	None	None	None	39442603	39443289	-1	None	None
1	RNU6-983P	ENSG00000251813	ENST00000516004	snRNA	KNOWN	None	47946	None	None	194457233	194457335	-1	None	None
17	RN7SKP14	ENSG00000251809	ENST00000516000	misc_RNA	KNOWN	None	45738	None	None	52848310	52848638	1	None	None
1	None	ENSG00000270962	ENST00000603712	processed_pseudogene	KNOWN	None	None	None	None	149279016	149279311	1	None	None
2	UBQLN4P2	ENSG00000226213	ENST00000446233	processed_pseudogene	KNOWN	None	38662	None	None	153733334	153734281	1	None	None
17	None	ENSG00000264164	ENST00000358484	processed_transcript	KNOWN	None	None	None	None	30410198	30424008	1	None	None
17	None	ENSG00000264164	ENST00000584248	transcribed_processed_pseudogene	KNOWN	None	None	None	None	30423863	30424084	1	None	None
2	None	ENSG00000223863	ENST00000436433	lincRNA	KNOWN	None	None	None	None	64713487	64728038	1	None	None
13	None	ENSG00000234384	ENST00000426840	lincRNA	KNOWN	None	None	None	None	91145541	91187334	1	None	None
3	None	ENSG00000241257	ENST00000485133	processed_pseudogene	KNOWN	None	None	None	None	109082894	109083081	-1	None	None
1	None	ENSG00000228776	ENST00000434936	processed_pseudogene	KNOWN	None	None	None	None	42606306	42607062	1	None	None
11	None	ENSG00000246250	ENST00000499066	antisense	KNOWN	None	None	None	None	43851259	43855467	-1	None	None
11	None	ENSG00000246250	ENST00000524643	antisense	KNOWN	None	None	None	None	43854605	43855492	-1	None	None
11	None	ENSG00000246250	ENST00000530450	antisense	KNOWN	None	None	None	None	43854722	43902276	-1	None	None
11	None	ENSG00000246250	ENST00000528765	antisense	KNOWN	None	None	None	None	43896109	43899623	-1	None	None
17	None	ENSG00000261589	ENST00000565472	lincRNA	KNOWN	None	None	None	None	53246184	53250993	1	None	None
3	RPL21P71	ENSG00000239412	ENST00000465598	processed_pseudogene	KNOWN	None	36049	None	None	146994555	146995039	1	None	None
1	None	ENSG00000228167	ENST00000446021	processed_pseudogene	KNOWN	None	None	None	None	194687925	194688366	1	None	None
12	SBNO1	ENSG00000139697	ENST00000602750	protein_coding	KNOWN	CCDS9246	22973	4179	1392	123779077	123849390	-1	None	MOP3, FLJ10701, FLJ10833, Sno
12	SBNO1	ENSG00000139697	ENST00000602398	protein_coding	KNOWN	CCDS53844	22973	4182	1393	123780452	123849375	-1	None	MOP3, FLJ10701, FLJ10833, Sno
12	SBNO1	ENSG00000139697	ENST00000420886	protein_coding	KNOWN	CCDS53844	22973	4182	1393	123773656	123834988	-1	None	MOP3, FLJ10701, FLJ10833, Sno
12	SBNO1	ENSG00000139697	ENST00000267176	protein_coding	KNOWN	CCDS9246	22973	4179	1392	123773656	123834988	-1	None	MOP3, FLJ10701, FLJ10833, Sno
17	SNORA67	ENSG00000264772	ENST00000581621	processed_transcript	KNOWN	None	10224	None	None	7476144	7485342	1	RNU67	U67
17	SNORA67	ENSG00000264772	ENST00000384423	snoRNA	KNOWN	None	10224	None	None	7481273	7481409	1	RNU67	U67
X	None	ENSG00000225046	ENST00000420331	processed_pseudogene	KNOWN	None	None	None	None	129464831	129465043	1	None	None
9	None	ENSG00000234537	ENST00000412768	unprocessed_pseudogene	KNOWN	None	None	None	None	94894680	94900911	1	None	None
12	None	ENSG00000270395	ENST00000604341	processed_pseudogene	KNOWN	None	None	None	None	31407295	31407379	-1	None	None
6	None	ENSG00000226454	ENST00000442781	sense_intronic	KNOWN	None	None	None	None	40484075	40491672	-1	None	None
HSCHR6_MHC_APD	NCR3	ENSG00000236315	ENST00000466965	processed_transcript	KNOWN	None	19077	None	None	31567993	31571910	-1	LY117	1C7, NKp30, CD337
HSCHR6_MHC_APD	NCR3	ENSG00000236315	ENST00000497117	processed_transcript	KNOWN	None	19077	None	None	31567993	31572057	-1	LY117	1C7, NKp30, CD337
HSCHR6_MHC_APD	NCR3	ENSG00000236315	ENST00000420556	protein_coding	KNOWN	None	19077	606	201	31567993	31572083	-1	LY117	1C7, NKp30, CD337
HSCHR6_MHC_APD	NCR3	ENSG00000236315	ENST00000432392	protein_coding	KNOWN	None	19077	534	177	31567993	31572083	-1	LY117	1C7, NKp30, CD337
HSCHR6_MHC_APD	NCR3	ENSG00000236315	ENST00000457547	protein_coding	KNOWN	None	19077	573	190	31568372	31572083	-1	LY117	1C7, NKp30, CD337
HSCHR6_MHC_APD	NCR3	ENSG00000236315	ENST00000419728	protein_coding	KNOWN	None	19077	498	165	31568395	31571847	-1	LY117	1C7, NKp30, CD337
HSCHR6_MHC_APD	NCR3	ENSG00000236315	ENST00000496945	nonsense_mediated_decay	KNOWN	None	19077	348	115	31568395	31571847	-1	LY117	1C7, NKp30, CD337
2	None	ENSG00000260101	ENST00000561559	lincRNA	KNOWN	None	None	None	None	64749321	64751227	-1	None	None
11	KIRREL3-AS2	ENSG00000254960	ENST00000532988	lincRNA	KNOWN	None	42656	None	None	126810642	126814984	1	None	None
11	KIRREL3-AS2	ENSG00000254960	ENST00000578084	lincRNA	KNOWN	None	42656	None	None	126810690	126814986	1	None	None
HSCHR6_MHC_MANN	HLA-DPA3	ENSG00000234372	ENST00000416558	unprocessed_pseudogene	KNOWN	None	19393	None	None	33252858	33264993	-1	None	None
3	ENPP7P2	ENSG00000239959	ENST00000462675	unprocessed_pseudogene	KNOWN	None	48685	None	None	75495920	75540353	-1	None	None
1	None	ENSG00000226067	ENST00000424684	lincRNA	KNOWN	None	None	None	None	149284645	149286975	1	None	None
17	EVI2A	ENSG00000126860	ENST00000461237	protein_coding	KNOWN	CCDS42293	3499	711	236	29644578	29648050	-1	EVI2	EVDA
17	EVI2A	ENSG00000126860	ENST00000247270	protein_coding	KNOWN	CCDS32608	3499	780	259	29644578	29648767	-1	EVI2	EVDA
17	EVI2A	ENSG00000126860	ENST00000462804	protein_coding	KNOWN	CCDS42293	3499	711	236	29644578	29648902	-1	EVI2	EVDA
8	None	ENSG00000266637	ENST00000579282	miRNA	NOVEL	None	None	None	None	12038198	12038263	1	None	None
2	RNU6-100P	ENSG00000252414	ENST00000516605	snRNA	KNOWN	None	47063	None	None	64806026	64806131	1	None	None
HSCHR6_MHC_MANN	HCG24	ENSG00000233043	ENST00000414164	processed_transcript	PUTATIVE	None	23500	None	None	33266458	33269442	1	None	dJ1033B10.15
1	None	ENSG00000237568	ENST00000437128	antisense	KNOWN	None	None	None	None	89726265	89735437	1	None	None
13	RNU6-75P	ENSG00000251753	ENST00000515944	snRNA	KNOWN	None	42565	None	None	91434020	91434123	-1	RNU6-75	None
14	None	ENSG00000199285	ENST00000362415	misc_RNA	NOVEL	None	None	None	None	39456485	39456587	1	None	None
17	None	ENSG00000266379	ENST00000581225	processed_transcript	KNOWN	None	None	None	None	30415179	30421952	-1	None	None
17	None	ENSG00000266379	ENST00000582111	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	30415180	30421951	-1	None	None
17	None	ENSG00000263096	ENST00000574716	antisense	KNOWN	None	None	None	None	53348865	53351014	-1	None	None
1	RNU1-143P	ENSG00000252105	ENST00000516296	snRNA	KNOWN	None	48485	None	None	149286177	149286322	-1	None	None
12	None	ENSG00000257815	ENST00000549419	antisense	KNOWN	None	None	None	None	70297813	70637138	-1	None	None
12	None	ENSG00000257815	ENST00000550216	antisense	KNOWN	None	None	None	None	70618773	70637129	-1	None	None
12	None	ENSG00000257815	ENST00000549651	antisense	KNOWN	None	None	None	None	70636086	70637140	-1	None	None
12	None	ENSG00000257815	ENST00000553135	antisense	KNOWN	None	None	None	None	70636269	70637138	-1	None	None
1	None	ENSG00000238081	ENST00000446360	processed_pseudogene	KNOWN	None	None	None	None	89755359	89756020	-1	None	None
15	None	ENSG00000261561	ENST00000568969	unprocessed_pseudogene	KNOWN	None	None	None	None	28591636	28591793	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000265159	ENST00000578877	misc_RNA	NOVEL	None	None	None	None	33321297	33321391	1	None	None
13	LINC00410	ENSG00000231674	ENST00000419272	lincRNA	KNOWN	None	42742	None	None	91543208	91578851	-1	None	None
1	None	ENSG00000265108	ENST00000581340	miRNA	NOVEL	None	None	None	None	195095811	195095906	1	None	None
1	None	ENSG00000235999	ENST00000433084	lincRNA	KNOWN	None	None	None	None	149287451	149291743	1	None	None
16	None	ENSG00000259940	ENST00000567108	antisense	KNOWN	None	None	None	None	27224631	27226314	-1	None	None
2	None	ENSG00000233694	ENST00000445738	lincRNA	KNOWN	None	None	None	None	64834109	64843133	1	None	None
2	None	ENSG00000233694	ENST00000417695	lincRNA	KNOWN	None	None	None	None	64834495	64843616	1	None	None
1	OR2AJ1	ENSG00000177275	ENST00000318244	protein_coding	KNOWN	None	15001	987	328	248097071	248098057	1	OR2AJ1P	OR2AJ1Q
17	None	ENSG00000262079	ENST00000576751	lincRNA	KNOWN	None	None	None	None	53403118	53405152	-1	None	None
HSCHR6_MHC_MANN	None	ENSG00000266574	ENST00000583906	miRNA	KNOWN	None	None	None	None	33329535	33329644	1	None	None
2	ATP5F1P4	ENSG00000214025	ENST00000397288	processed_pseudogene	KNOWN	None	39745	None	None	154015452	154016197	1	None	None
11	None	ENSG00000255424	ENST00000532323	unprocessed_pseudogene	KNOWN	None	None	None	None	19051244	19051985	-1	None	None
1	None	ENSG00000227421	ENST00000430519	lincRNA	KNOWN	None	None	None	None	196014126	196030203	-1	None	None
1	None	ENSG00000227527	ENST00000436207	sense_overlapping	KNOWN	None	None	None	None	42801057	42804047	-1	None	None
17	TAOK1	ENSG00000160551	ENST00000583121	protein_coding	KNOWN	None	29259	238	78	27717482	27802721	1	None	KIAA1361, MARKK, PSK2, MAP3K16, FLJ14314, TAO1
17	TAOK1	ENSG00000160551	ENST00000261716	protein_coding	KNOWN	CCDS32601	29259	3006	1001	27717618	27878922	1	None	KIAA1361, MARKK, PSK2, MAP3K16, FLJ14314, TAO1
17	TAOK1	ENSG00000160551	ENST00000587277	retained_intron	KNOWN	None	29259	None	None	27717943	27778725	1	None	KIAA1361, MARKK, PSK2, MAP3K16, FLJ14314, TAO1
17	TAOK1	ENSG00000160551	ENST00000536202	protein_coding	KNOWN	CCDS56024	29259	2562	853	27717949	27871358	1	None	KIAA1361, MARKK, PSK2, MAP3K16, FLJ14314, TAO1
17	TAOK1	ENSG00000160551	ENST00000577583	retained_intron	KNOWN	None	29259	None	None	27807089	27842015	1	None	KIAA1361, MARKK, PSK2, MAP3K16, FLJ14314, TAO1
17	TAOK1	ENSG00000160551	ENST00000578653	retained_intron	KNOWN	None	29259	None	None	27849306	27857756	1	None	KIAA1361, MARKK, PSK2, MAP3K16, FLJ14314, TAO1
13	BRK1P2	ENSG00000227983	ENST00000442875	processed_pseudogene	KNOWN	None	42021	None	None	91675986	91676208	-1	None	None
1	None	ENSG00000233430	ENST00000449024	lincRNA	KNOWN	None	None	None	None	149305910	149313076	-1	None	None
12	None	ENSG00000238661	ENST00000459162	snoRNA	NOVEL	None	None	None	None	31456651	31456750	1	None	None
HSCHR6_MHC_MANN	ZNF70P1	ENSG00000236910	ENST00000418706	processed_pseudogene	KNOWN	None	13846	None	None	33337405	33338028	1	ZNF314P	dJ1033B10.7, bCX269C15.3
17	SNORA48	ENSG00000209582	ENST00000386847	snoRNA	KNOWN	None	32641	None	None	7478031	7478165	1	None	ACA48
11	None	ENSG00000255308	ENST00000527978	antisense	KNOWN	None	None	None	None	19218322	19302973	1	None	None
17	None	ENSG00000262395	ENST00000572159	lincRNA	KNOWN	None	None	None	None	53531407	53535811	-1	None	None
5	PCDHGA11	ENSG00000253873	ENST00000398587	protein_coding	KNOWN	CCDS47294	8698	2808	935	140800762	140891835	1	None	PCDH-GAMMA-A11
5	PCDHGA11	ENSG00000253873	ENST00000518882	protein_coding	KNOWN	CCDS54930	8698	2253	750	140800795	140890747	1	None	PCDH-GAMMA-A11
1	MIR4735	ENSG00000265986	ENST00000580028	miRNA	KNOWN	None	41888	None	None	196551543	196551611	-1	None	hsa-mir-4735
1	None	ENSG00000235002	ENST00000411908	processed_pseudogene	KNOWN	None	None	None	None	42878069	42878465	-1	None	None
7	None	ENSG00000260555	ENST00000565102	lincRNA	KNOWN	None	None	None	None	149697841	149702213	1	None	None
17	SNORD10	ENSG00000238917	ENST00000459579	snoRNA	KNOWN	None	32706	None	None	7480129	7480270	1	None	mgU6-77
19	SAFB2	ENSG00000130254	ENST00000252542	protein_coding	KNOWN	CCDS32879	21605	2862	953	5587010	5622991	-1	None	KIAA0138
19	SAFB2	ENSG00000130254	ENST00000587802	processed_transcript	KNOWN	None	21605	None	None	5587121	5589031	-1	None	KIAA0138
19	SAFB2	ENSG00000130254	ENST00000589925	processed_transcript	KNOWN	None	21605	None	None	5587879	5593716	-1	None	KIAA0138
19	SAFB2	ENSG00000130254	ENST00000590000	retained_intron	KNOWN	None	21605	None	None	5591307	5592892	-1	None	KIAA0138
19	SAFB2	ENSG00000130254	ENST00000585449	retained_intron	KNOWN	None	21605	None	None	5598496	5600183	-1	None	KIAA0138
19	SAFB2	ENSG00000130254	ENST00000591123	nonsense_mediated_decay	KNOWN	None	21605	264	87	5598843	5616289	-1	None	KIAA0138
19	SAFB2	ENSG00000130254	ENST00000592599	retained_intron	KNOWN	None	21605	None	None	5600211	5612484	-1	None	KIAA0138
19	SAFB2	ENSG00000130254	ENST00000591101	retained_intron	KNOWN	None	21605	None	None	5600225	5610246	-1	None	KIAA0138
19	SAFB2	ENSG00000130254	ENST00000591310	processed_transcript	KNOWN	None	21605	None	None	5600237	5610622	-1	None	KIAA0138
19	SAFB2	ENSG00000130254	ENST00000591120	nonsense_mediated_decay	KNOWN	None	21605	348	115	5611887	5622787	-1	None	KIAA0138
19	SAFB2	ENSG00000130254	ENST00000590262	protein_coding	PUTATIVE	None	21605	372	123	5612531	5624057	-1	None	KIAA0138
1	PLCH2	ENSG00000149527	ENST00000378483	processed_transcript	KNOWN	None	29037	None	None	2357419	2436969	1	PLCL4	KIAA0450, PLCeta2, RP3-395M20.1, PLC-eta2
1	PLCH2	ENSG00000149527	ENST00000449969	protein_coding	KNOWN	None	29037	3390	1129	2398898	2436965	1	PLCL4	KIAA0450, PLCeta2, RP3-395M20.1, PLC-eta2
1	PLCH2	ENSG00000149527	ENST00000419816	protein_coding	KNOWN	None	29037	4251	1416	2407754	2436964	1	PLCL4	KIAA0450, PLCeta2, RP3-395M20.1, PLC-eta2
1	PLCH2	ENSG00000149527	ENST00000343889	retained_intron	KNOWN	None	29037	None	None	2410529	2436969	1	PLCL4	KIAA0450, PLCeta2, RP3-395M20.1, PLC-eta2
1	PLCH2	ENSG00000149527	ENST00000278878	protein_coding	PUTATIVE	None	29037	3718	1238	2411327	2436715	1	PLCL4	KIAA0450, PLCeta2, RP3-395M20.1, PLC-eta2
1	PLCH2	ENSG00000149527	ENST00000473964	retained_intron	KNOWN	None	29037	None	None	2429221	2436967	1	PLCL4	KIAA0450, PLCeta2, RP3-395M20.1, PLC-eta2
1	PLCH2	ENSG00000149527	ENST00000462379	retained_intron	KNOWN	None	29037	None	None	2430086	2436967	1	PLCL4	KIAA0450, PLCeta2, RP3-395M20.1, PLC-eta2
1	PLCH2	ENSG00000149527	ENST00000378486	protein_coding	KNOWN	None	29037	4251	1416	2407754	2436964	1	PLCL4	KIAA0450, PLCeta2, RP3-395M20.1, PLC-eta2
1	PLCH2	ENSG00000149527	ENST00000378488	protein_coding	KNOWN	None	29037	4143	1380	2407754	2436964	1	PLCL4	KIAA0450, PLCeta2, RP3-395M20.1, PLC-eta2
1	PLCH2	ENSG00000149527	ENST00000288766	protein_coding	KNOWN	None	29037	1500	499	2407754	2434525	1	PLCL4	KIAA0450, PLCeta2, RP3-395M20.1, PLC-eta2
13	None	ENSG00000234625	ENST00000442478	lincRNA	KNOWN	None	None	None	None	91739508	91741847	-1	None	None
2	None	ENSG00000224612	ENST00000413043	lincRNA	KNOWN	None	None	None	None	154028501	154058240	-1	None	None
5	None	ENSG00000253456	ENST00000518425	antisense	KNOWN	None	None	None	None	158412814	158414207	1	None	None
14	None	ENSG00000259121	ENST00000554037	processed_pseudogene	KNOWN	None	None	None	None	39560105	39560305	1	None	None
1	None	ENSG00000233235	ENST00000428912	unprocessed_pseudogene	KNOWN	None	None	None	None	89790205	89800563	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000230012	ENST00000439003	processed_pseudogene	NOVEL	None	None	None	None	33359507	33361398	1	None	None
17	None	ENSG00000261873	ENST00000577089	lincRNA	KNOWN	None	None	None	None	53545427	53588299	-1	None	None
12	RBMS2	ENSG00000076067	ENST00000262031	protein_coding	KNOWN	CCDS8923	9909	1224	407	56915713	56984745	1	None	SCR3
12	RBMS2	ENSG00000076067	ENST00000552247	protein_coding	PUTATIVE	None	9909	1035	344	56915742	56983287	1	None	SCR3
12	RBMS2	ENSG00000076067	ENST00000551369	nonsense_mediated_decay	KNOWN	None	9909	183	60	56915773	56965535	1	None	SCR3
12	RBMS2	ENSG00000076067	ENST00000552916	nonsense_mediated_decay	KNOWN	None	9909	255	84	56915774	56983436	1	None	SCR3
12	RBMS2	ENSG00000076067	ENST00000549945	processed_transcript	KNOWN	None	9909	None	None	56915779	56965500	1	None	SCR3
12	RBMS2	ENSG00000076067	ENST00000550726	protein_coding	NOVEL	None	9909	849	282	56915783	56983287	1	None	SCR3
12	RBMS2	ENSG00000076067	ENST00000542360	protein_coding	NOVEL	None	9909	789	262	56915783	56983379	1	None	SCR3
12	RBMS2	ENSG00000076067	ENST00000552228	processed_transcript	KNOWN	None	9909	None	None	56965482	56975439	1	None	SCR3
11	PCNAP4	ENSG00000254544	ENST00000532690	processed_pseudogene	KNOWN	None	43737	None	None	19296087	19296816	-1	None	None
1	None	ENSG00000235748	ENST00000442280	processed_pseudogene	KNOWN	None	None	None	None	197107878	197108437	-1	None	None
HG104_HG975_PATCH	SPATC1	ENSG00000260319	ENST00000567097	protein_coding	KNOWN	None	30510	1776	591	145094584	145129202	1	None	MGC61633, SPATA15, SPERIOLIN
HG104_HG975_PATCH	SPATC1	ENSG00000260319	ENST00000569368	protein_coding	KNOWN	None	30510	1326	441	145094596	145129195	1	None	MGC61633, SPATA15, SPERIOLIN
1	RNU6-747P	ENSG00000212230	ENST00000390928	snRNA	KNOWN	None	47710	None	None	243244458	243244561	-1	None	None
3	None	ENSG00000238929	ENST00000458918	snoRNA	NOVEL	None	None	None	None	37238232	37238335	1	None	None
17	None	ENSG00000233223	ENST00000415124	antisense	KNOWN	None	None	None	None	7485282	7487390	-1	None	None
17	None	ENSG00000233223	ENST00000572046	antisense	KNOWN	None	None	None	None	7485330	7486328	-1	None	None
17	None	ENSG00000233223	ENST00000417897	antisense	KNOWN	None	None	None	None	7485334	7487386	-1	None	None
17	None	ENSG00000233223	ENST00000573187	antisense	KNOWN	None	None	None	None	7485790	7486836	-1	None	None
8	None	ENSG00000254372	ENST00000518674	antisense	KNOWN	None	None	None	None	136468108	136469195	-1	None	None
2	None	ENSG00000226338	ENST00000443733	processed_pseudogene	KNOWN	None	None	None	None	154064600	154064677	-1	None	None
1	FCGR1C	ENSG00000253193	ENST00000431573	processed_transcript	KNOWN	None	3615	None	None	149320439	149375196	1	None	CD64c
1	FCGR1C	ENSG00000253193	ENST00000453173	processed_transcript	KNOWN	None	3615	None	None	149369328	149370551	1	None	CD64c
1	FCGR1C	ENSG00000253193	ENST00000413317	transcribed_unprocessed_pseudogene	KNOWN	None	3615	None	None	149369357	149377963	1	None	CD64c
1	FCGR1C	ENSG00000253193	ENST00000440993	unprocessed_pseudogene	KNOWN	None	3615	None	None	149369294	149378365	1	None	CD64c
13	LINC00379	ENSG00000229557	ENST00000427717	lincRNA	KNOWN	None	42705	None	None	91779867	91783661	-1	None	None
13	LINC00379	ENSG00000229557	ENST00000438789	lincRNA	KNOWN	None	42705	None	None	91779906	91783619	-1	None	None
1	None	ENSG00000230116	ENST00000426743	processed_pseudogene	KNOWN	None	None	None	None	42957410	42958164	1	None	None
HSCHR15_1_CTG8	MEGF11	ENSG00000263138	ENST00000574557	protein_coding	KNOWN	None	29635	3135	1044	66187417	66558222	-1	None	KIAA1781, DKFZp434L121
HSCHR15_1_CTG8	MEGF11	ENSG00000263138	ENST00000576903	protein_coding	KNOWN	None	29635	2910	969	66187634	66558212	-1	None	KIAA1781, DKFZp434L121
HSCHR15_1_CTG8	MEGF11	ENSG00000263138	ENST00000576105	processed_transcript	KNOWN	None	29635	None	None	66191071	66206456	-1	None	KIAA1781, DKFZp434L121
HSCHR15_1_CTG8	MEGF11	ENSG00000263138	ENST00000573824	nonsense_mediated_decay	KNOWN	None	29635	1740	579	66194110	66263027	-1	None	KIAA1781, DKFZp434L121
HSCHR15_1_CTG8	MEGF11	ENSG00000263138	ENST00000573152	processed_transcript	KNOWN	None	29635	None	None	66194534	66204538	-1	None	KIAA1781, DKFZp434L121
HSCHR15_1_CTG8	MEGF11	ENSG00000263138	ENST00000574634	processed_transcript	KNOWN	None	29635	None	None	66198075	66202109	-1	None	KIAA1781, DKFZp434L121
HSCHR15_1_CTG8	MEGF11	ENSG00000263138	ENST00000574543	processed_transcript	KNOWN	None	29635	None	None	66198122	66204816	-1	None	KIAA1781, DKFZp434L121
HSCHR15_1_CTG8	MEGF11	ENSG00000263138	ENST00000573290	retained_intron	KNOWN	None	29635	None	None	66205864	66207936	-1	None	KIAA1781, DKFZp434L121
HSCHR15_1_CTG8	MEGF11	ENSG00000263138	ENST00000570418	processed_transcript	KNOWN	None	29635	None	None	66214030	66214713	-1	None	KIAA1781, DKFZp434L121
HSCHR15_1_CTG8	MEGF11	ENSG00000263138	ENST00000571199	protein_coding	PUTATIVE	None	29635	683	226	66222059	66263558	-1	None	KIAA1781, DKFZp434L121
HSCHR15_1_CTG8	MEGF11	ENSG00000263138	ENST00000573399	processed_transcript	KNOWN	None	29635	None	None	66257290	66263568	-1	None	KIAA1781, DKFZp434L121
HSCHR15_1_CTG8	MEGF11	ENSG00000263138	ENST00000572682	retained_intron	KNOWN	None	29635	None	None	66257385	66263576	-1	None	KIAA1781, DKFZp434L121
HSCHR15_1_CTG8	MEGF11	ENSG00000263138	ENST00000571384	processed_transcript	KNOWN	None	29635	None	None	66257513	66263602	-1	None	KIAA1781, DKFZp434L121
3	None	ENSG00000221424	ENST00000408497	miRNA	NOVEL	None	None	None	None	15175890	15176037	-1	None	None
1	None	ENSG00000227230	ENST00000439562	antisense	KNOWN	None	None	None	None	243299200	243303890	1	None	None
17	None	ENSG00000236319	ENST00000455347	processed_transcript	PUTATIVE	None	None	None	None	53604325	53638452	-1	None	None
17	None	ENSG00000236319	ENST00000570572	transcribed_processed_pseudogene	KNOWN	None	None	None	None	53638270	53638938	-1	None	None
11	TSGA10IP	ENSG00000175513	ENST00000532620	processed_transcript	KNOWN	None	26555	None	None	65712916	65727434	1	None	FLJ32880, FAM161C
11	TSGA10IP	ENSG00000175513	ENST00000534740	processed_transcript	KNOWN	None	26555	None	None	65713115	65727434	1	None	FLJ32880, FAM161C
11	TSGA10IP	ENSG00000175513	ENST00000533763	processed_transcript	KNOWN	None	26555	None	None	65713115	65727434	1	None	FLJ32880, FAM161C
11	TSGA10IP	ENSG00000175513	ENST00000531518	retained_intron	KNOWN	None	26555	None	None	65713127	65714767	1	None	FLJ32880, FAM161C
11	TSGA10IP	ENSG00000175513	ENST00000528291	processed_transcript	KNOWN	None	26555	None	None	65713162	65714830	1	None	FLJ32880, FAM161C
16	IFT140	ENSG00000187535	ENST00000361339	protein_coding	PUTATIVE	None	29077	1971	656	1560428	1583495	-1	WDTC2	gs114, KIAA0590
16	IFT140	ENSG00000187535	ENST00000426508	protein_coding	KNOWN	CCDS10439	29077	4389	1462	1560428	1662111	-1	WDTC2	gs114, KIAA0590
16	IFT140	ENSG00000187535	ENST00000565298	retained_intron	KNOWN	None	29077	None	None	1560431	1634264	-1	WDTC2	gs114, KIAA0590
16	IFT140	ENSG00000187535	ENST00000397417	nonsense_mediated_decay	KNOWN	None	29077	621	206	1560431	1660694	-1	WDTC2	gs114, KIAA0590
16	IFT140	ENSG00000187535	ENST00000568837	protein_coding	PUTATIVE	None	29077	378	125	1568103	1570039	-1	WDTC2	gs114, KIAA0590
16	IFT140	ENSG00000187535	ENST00000566818	retained_intron	KNOWN	None	29077	None	None	1574775	1577025	-1	WDTC2	gs114, KIAA0590
16	IFT140	ENSG00000187535	ENST00000439987	processed_transcript	KNOWN	None	29077	None	None	1603922	1660694	-1	WDTC2	gs114, KIAA0590
16	IFT140	ENSG00000187535	ENST00000561954	retained_intron	KNOWN	None	29077	None	None	1607556	1614111	-1	WDTC2	gs114, KIAA0590
16	IFT140	ENSG00000187535	ENST00000566052	retained_intron	KNOWN	None	29077	None	None	1652268	1660705	-1	WDTC2	gs114, KIAA0590
16	IFT140	ENSG00000187535	ENST00000569646	protein_coding	KNOWN	None	29077	362	119	1652378	1660667	-1	WDTC2	gs114, KIAA0590
16	IFT140	ENSG00000187535	ENST00000569812	protein_coding	KNOWN	None	29077	341	112	1652399	1660045	-1	WDTC2	gs114, KIAA0590
17	RNF222	ENSG00000189051	ENST00000399398	protein_coding	KNOWN	CCDS45608	34517	663	220	8294027	8301144	-1	None	None
17	RNF222	ENSG00000189051	ENST00000344001	protein_coding	KNOWN	CCDS45608	34517	663	220	8294022	8296807	-1	None	None
5	None	ENSG00000245812	ENST00000517335	lincRNA	KNOWN	None	None	None	None	158527491	158542331	1	None	None
5	None	ENSG00000245812	ENST00000523301	lincRNA	KNOWN	None	None	None	None	158527630	158534225	1	None	None
5	None	ENSG00000245812	ENST00000499583	lincRNA	KNOWN	None	None	None	None	158527690	158544486	1	None	None
7	None	ENSG00000241449	ENST00000492054	lincRNA	KNOWN	None	None	None	None	149737610	149773744	1	None	None
7	None	ENSG00000241449	ENST00000493400	lincRNA	KNOWN	None	None	None	None	149738452	149742181	1	None	None
7	None	ENSG00000241449	ENST00000495144	lincRNA	KNOWN	None	None	None	None	149759178	149771465	1	None	None
2	None	ENSG00000227708	ENST00000429916	lincRNA	KNOWN	None	None	None	None	154194219	154213936	1	None	None
3	RPS3AP53	ENSG00000227578	ENST00000454716	processed_pseudogene	KNOWN	None	44500	None	None	15182887	15183664	1	None	None
19	None	ENSG00000224579	ENST00000413723	unprocessed_pseudogene	KNOWN	None	None	None	None	54712960	54713286	-1	None	None
8	MAPRE1P1	ENSG00000253915	ENST00000522077	processed_pseudogene	KNOWN	None	29624	None	None	136637428	136638224	-1	MAPRE1P	None
8	None	ENSG00000255495	ENST00000528514	antisense	KNOWN	None	None	None	None	12051976	12053789	1	None	None
1	None	ENSG00000232085	ENST00000437499	antisense	KNOWN	None	None	None	None	243327940	243332747	1	None	None
1	None	ENSG00000232085	ENST00000422938	antisense	KNOWN	None	None	None	None	243327974	243332689	1	None	None
17	None	ENSG00000263369	ENST00000583895	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	30433349	30441144	-1	None	None
17	None	ENSG00000263369	ENST00000580412	processed_transcript	KNOWN	None	None	None	None	30433351	30441141	-1	None	None
2	None	ENSG00000214024	ENST00000397284	processed_pseudogene	KNOWN	None	None	None	None	154227126	154227578	1	None	None
1	None	ENSG00000237861	ENST00000417716	processed_pseudogene	KNOWN	None	None	None	None	197191352	197192385	1	None	None
9	None	ENSG00000235659	ENST00000377547	lincRNA	KNOWN	None	None	None	None	45001907	45003117	-1	None	None
X	None	ENSG00000264759	ENST00000580961	miRNA	NOVEL	None	None	None	None	114938132	114938187	1	None	None
X	None	ENSG00000229702	ENST00000458525	processed_transcript	KNOWN	None	None	None	None	129611043	129658231	-1	None	None
2	None	ENSG00000226756	ENST00000439964	lincRNA	KNOWN	None	None	None	None	64871746	64873832	1	None	None
17	None	ENSG00000251860	ENST00000516051	snoRNA	NOVEL	None	None	None	None	7514499	7514591	1	None	None
17	PRKAR1A	ENSG00000108946	ENST00000590353	protein_coding	KNOWN	None	9388	540	179	66409764	66521090	1	PRKAR1, TSE1	None
17	PRKAR1A	ENSG00000108946	ENST00000589017	protein_coding	KNOWN	None	9388	614	203	66507921	66521959	1	PRKAR1, TSE1	None
17	PRKAR1A	ENSG00000108946	ENST00000358598	protein_coding	KNOWN	CCDS11678	9388	1146	381	66508173	66528903	1	PRKAR1, TSE1	None
17	PRKAR1A	ENSG00000108946	ENST00000592194	retained_intron	KNOWN	None	9388	None	None	66508556	66511956	1	PRKAR1, TSE1	None
17	PRKAR1A	ENSG00000108946	ENST00000585427	protein_coding	KNOWN	None	9388	471	156	66508557	66520187	1	PRKAR1, TSE1	None
17	PRKAR1A	ENSG00000108946	ENST00000585608	nonsense_mediated_decay	KNOWN	None	9388	396	131	66508567	66522053	1	PRKAR1, TSE1	None
17	PRKAR1A	ENSG00000108946	ENST00000589228	protein_coding	KNOWN	CCDS11678	9388	1146	381	66508568	66529572	1	PRKAR1, TSE1	None
17	PRKAR1A	ENSG00000108946	ENST00000585460	retained_intron	KNOWN	None	9388	None	None	66508571	66520271	1	PRKAR1, TSE1	None
17	PRKAR1A	ENSG00000108946	ENST00000392710	nonsense_mediated_decay	KNOWN	None	9388	375	124	66508591	66528900	1	PRKAR1, TSE1	None
17	PRKAR1A	ENSG00000108946	ENST00000536854	protein_coding	KNOWN	CCDS11678	9388	1146	381	66508591	66528903	1	PRKAR1, TSE1	None
17	PRKAR1A	ENSG00000108946	ENST00000588702	protein_coding	KNOWN	None	9388	503	166	66508608	66520219	1	PRKAR1, TSE1	None
17	PRKAR1A	ENSG00000108946	ENST00000589309	protein_coding	KNOWN	None	9388	137	44	66508628	66511677	1	PRKAR1, TSE1	None
17	PRKAR1A	ENSG00000108946	ENST00000585981	protein_coding	KNOWN	None	9388	892	296	66509023	66525133	1	PRKAR1, TSE1	None
17	PRKAR1A	ENSG00000108946	ENST00000589480	protein_coding	KNOWN	None	9388	339	112	66509041	66519058	1	PRKAR1, TSE1	None
17	PRKAR1A	ENSG00000108946	ENST00000585815	protein_coding	KNOWN	None	9388	196	64	66509062	66518915	1	PRKAR1, TSE1	None
17	PRKAR1A	ENSG00000108946	ENST00000586397	protein_coding	KNOWN	CCDS11678	9388	1146	381	66510962	66526805	1	PRKAR1, TSE1	None
17	PRKAR1A	ENSG00000108946	ENST00000588178	protein_coding	KNOWN	None	9388	547	181	66511264	66521097	1	PRKAR1, TSE1	None
17	PRKAR1A	ENSG00000108946	ENST00000588188	protein_coding	PUTATIVE	None	9388	1014	337	66511541	66547460	1	PRKAR1, TSE1	None
17	PRKAR1A	ENSG00000108946	ENST00000592800	protein_coding	PUTATIVE	None	9388	460	152	66521936	66526795	1	PRKAR1, TSE1	None
17	PRKAR1A	ENSG00000108946	ENST00000586541	nonsense_mediated_decay	KNOWN	None	9388	106	34	66522023	66526602	1	PRKAR1, TSE1	None
17	PRKAR1A	ENSG00000108946	ENST00000585907	retained_intron	KNOWN	None	9388	None	None	66523725	66526460	1	PRKAR1, TSE1	None
17	PRKAR1A	ENSG00000108946	ENST00000392711	protein_coding	KNOWN	CCDS11678	9388	1146	381	66508543	66528908	1	PRKAR1, TSE1	None
12	None	ENSG00000257129	ENST00000547829	processed_transcript	KNOWN	None	None	None	None	108304180	108306397	-1	None	None
12	None	ENSG00000257129	ENST00000548419	transcribed_processed_pseudogene	KNOWN	None	None	None	None	108305102	108306074	-1	None	None
5	None	ENSG00000253766	ENST00000522350	antisense	KNOWN	None	None	None	None	21616371	21779631	1	None	None
17	None	ENSG00000262135	ENST00000570895	processed_pseudogene	KNOWN	None	None	None	None	53628292	53629010	-1	None	None
13	PPIAP23	ENSG00000214178	ENST00000420099	processed_pseudogene	KNOWN	None	39268	None	None	91924335	91924831	-1	None	None
X	None	ENSG00000255927	ENST00000536192	pseudogene	NOVEL	None	None	None	None	114953100	114953685	-1	None	None
14	None	ENSG00000258784	ENST00000554458	lincRNA	KNOWN	None	None	None	None	56214926	56239921	1	None	None
1	MRPS21P3	ENSG00000221879	ENST00000436696	processed_pseudogene	KNOWN	None	29750	None	None	197332947	197333208	1	None	None
17	None	ENSG00000262251	ENST00000571370	sense_intronic	KNOWN	None	None	None	None	7588578	7589689	-1	None	None
19	None	ENSG00000269524	ENST00000601161	lincRNA	KNOWN	None	None	None	None	54728395	54728753	1	None	None
2	None	ENSG00000242575	ENST00000437634	transcribed_processed_pseudogene	KNOWN	None	None	None	None	154277191	154278471	-1	None	None
3	ZIC4-AS1	ENSG00000241202	ENST00000462168	antisense	KNOWN	None	40920	None	None	147104754	147105240	1	None	None
1	FCF1P7	ENSG00000224727	ENST00000451185	processed_pseudogene	KNOWN	None	44619	None	None	243430559	243431421	-1	None	None
1	TMSB4XP1	ENSG00000236876	ENST00000424567	processed_pseudogene	KNOWN	None	11883	None	None	42965876	42966010	-1	TMSL1	None
1	TMSB4XP1	ENSG00000236876	ENST00000536927	processed_pseudogene	KNOWN	None	11883	None	None	42965876	42966067	-1	TMSL1	None
20	SNAP25-AS1	ENSG00000227906	ENST00000603245	antisense	KNOWN	None	44312	None	None	10002620	10007299	-1	None	None
20	SNAP25-AS1	ENSG00000227906	ENST00000603542	antisense	KNOWN	None	44312	None	None	10004460	10200402	-1	None	None
20	SNAP25-AS1	ENSG00000227906	ENST00000438646	antisense	KNOWN	None	44312	None	None	10006264	10015972	-1	None	None
20	SNAP25-AS1	ENSG00000227906	ENST00000421143	antisense	KNOWN	None	44312	None	None	10006723	10349367	-1	None	None
20	SNAP25-AS1	ENSG00000227906	ENST00000426491	antisense	KNOWN	None	44312	None	None	10055085	10200154	-1	None	None
20	SNAP25-AS1	ENSG00000227906	ENST00000451151	antisense	KNOWN	None	44312	None	None	10084789	10199963	-1	None	None
20	SNAP25-AS1	ENSG00000227906	ENST00000453544	antisense	KNOWN	None	44312	None	None	10084993	10349424	-1	None	None
20	SNAP25-AS1	ENSG00000227906	ENST00000605592	antisense	KNOWN	None	44312	None	None	10085033	10200172	-1	None	None
2	None	ENSG00000228486	ENST00000450072	antisense	KNOWN	None	None	None	None	98280680	98292184	1	None	None
2	None	ENSG00000228486	ENST00000604793	antisense	KNOWN	None	None	None	None	98280702	98287845	1	None	None
2	None	ENSG00000228486	ENST00000605282	antisense	KNOWN	None	None	None	None	98280702	98287975	1	None	None
2	None	ENSG00000228486	ENST00000603172	antisense	KNOWN	None	None	None	None	98280702	98288023	1	None	None
2	None	ENSG00000228486	ENST00000604986	antisense	KNOWN	None	None	None	None	98280710	98287837	1	None	None
2	None	ENSG00000228486	ENST00000605866	antisense	KNOWN	None	None	None	None	98280710	98288192	1	None	None
2	None	ENSG00000228486	ENST00000605017	antisense	KNOWN	None	None	None	None	98282266	98287826	1	None	None
2	None	ENSG00000228486	ENST00000601127	antisense	KNOWN	None	None	None	None	98286176	98288192	1	None	None
2	None	ENSG00000228486	ENST00000428157	antisense	KNOWN	None	None	None	None	98286206	98288251	1	None	None
2	None	ENSG00000228486	ENST00000451384	antisense	KNOWN	None	None	None	None	98286209	98319519	1	None	None
2	None	ENSG00000228486	ENST00000458149	antisense	KNOWN	None	None	None	None	98286239	98319167	1	None	None
2	None	ENSG00000228486	ENST00000597941	antisense	KNOWN	None	None	None	None	98286256	98305403	1	None	None
2	None	ENSG00000228486	ENST00000596529	antisense	KNOWN	None	None	None	None	98286256	98305456	1	None	None
2	None	ENSG00000228486	ENST00000598144	antisense	KNOWN	None	None	None	None	98286256	98315577	1	None	None
2	None	ENSG00000228486	ENST00000599015	antisense	KNOWN	None	None	None	None	98286256	98315599	1	None	None
2	None	ENSG00000228486	ENST00000601499	antisense	KNOWN	None	None	None	None	98286256	98317674	1	None	None
2	None	ENSG00000228486	ENST00000600331	antisense	KNOWN	None	None	None	None	98286256	98317674	1	None	None
2	None	ENSG00000228486	ENST00000598824	antisense	KNOWN	None	None	None	None	98286256	98317760	1	None	None
2	None	ENSG00000228486	ENST00000601580	antisense	KNOWN	None	None	None	None	98286256	98317767	1	None	None
2	None	ENSG00000228486	ENST00000596069	antisense	KNOWN	None	None	None	None	98286256	98319188	1	None	None
2	None	ENSG00000228486	ENST00000599501	antisense	KNOWN	None	None	None	None	98286256	98319237	1	None	None
2	None	ENSG00000228486	ENST00000595492	antisense	KNOWN	None	None	None	None	98286256	98319278	1	None	None
2	None	ENSG00000228486	ENST00000595588	antisense	KNOWN	None	None	None	None	98286256	98319281	1	None	None
2	None	ENSG00000228486	ENST00000599435	antisense	KNOWN	None	None	None	None	98286256	98319424	1	None	None
2	None	ENSG00000228486	ENST00000597654	antisense	KNOWN	None	None	None	None	98286256	98319517	1	None	None
2	None	ENSG00000228486	ENST00000598737	antisense	KNOWN	None	None	None	None	98286256	98319523	1	None	None
2	None	ENSG00000228486	ENST00000601509	antisense	KNOWN	None	None	None	None	98286256	98319527	1	None	None
2	None	ENSG00000228486	ENST00000596356	antisense	KNOWN	None	None	None	None	98286262	98294218	1	None	None
2	None	ENSG00000228486	ENST00000600606	antisense	KNOWN	None	None	None	None	98286263	98319293	1	None	None
2	None	ENSG00000228486	ENST00000599959	antisense	KNOWN	None	None	None	None	98287838	98315595	1	None	None
2	None	ENSG00000228486	ENST00000594273	antisense	KNOWN	None	None	None	None	98290791	98311041	1	None	None
2	None	ENSG00000228486	ENST00000445382	antisense	KNOWN	None	None	None	None	98292284	98319487	1	None	None
2	None	ENSG00000228486	ENST00000603835	antisense	KNOWN	None	None	None	None	98305388	98319378	1	None	None
2	None	ENSG00000228486	ENST00000599666	antisense	KNOWN	None	None	None	None	98307455	98317638	1	None	None
2	None	ENSG00000228486	ENST00000596740	antisense	KNOWN	None	None	None	None	98310919	98319503	1	None	None
2	None	ENSG00000228486	ENST00000605331	antisense	KNOWN	None	None	None	None	98310995	98319324	1	None	None
3	None	ENSG00000271653	ENST00000603982	lincRNA	KNOWN	None	None	None	None	37258270	37259479	1	None	None
4	DCAF4L1	ENSG00000182308	ENST00000333141	protein_coding	KNOWN	CCDS33978	27723	1191	396	41983713	41988476	1	WDR21B	None
17	RNU6-1249P	ENSG00000200107	ENST00000363237	snRNA	KNOWN	None	48212	None	None	53629171	53629281	1	None	None
8	None	ENSG00000251203	ENST00000515686	processed_pseudogene	KNOWN	None	None	None	None	26290545	26291581	-1	None	None
17	RPL29P2	ENSG00000240480	ENST00000498671	processed_transcript	KNOWN	None	17334	None	None	7657638	7658294	1	None	None
17	RPL29P2	ENSG00000240480	ENST00000488409	transcribed_processed_pseudogene	KNOWN	None	17334	None	None	7657712	7658171	1	None	None
16	IL21R-AS1	ENSG00000259954	ENST00000563191	antisense	KNOWN	None	27551	None	None	27458990	27464714	-1	None	None
1	None	ENSG00000230260	ENST00000422250	antisense	KNOWN	None	None	None	None	197407106	197416599	-1	None	None
9	None	ENSG00000223379	ENST00000421848	lincRNA	KNOWN	None	None	None	None	45004879	45023236	1	None	None
3	NPCDR1	ENSG00000269415	ENST00000593377	protein_coding	KNOWN	None	13392	321	106	59957215	59957583	-1	None	NPCR
11	None	ENSG00000254987	ENST00000533459	lincRNA	KNOWN	None	None	None	None	103546722	103765999	-1	None	None
2	None	ENSG00000227400	ENST00000454312	sense_overlapping	KNOWN	None	None	None	None	154278130	154306334	-1	None	None
2	None	ENSG00000227400	ENST00000454537	sense_overlapping	KNOWN	None	None	None	None	154278199	154306332	-1	None	None
2	None	ENSG00000227400	ENST00000424322	sense_overlapping	KNOWN	None	None	None	None	154278321	154449801	-1	None	None
17	None	ENSG00000262052	ENST00000571972	lincRNA	KNOWN	None	None	None	None	53920038	53950300	-1	None	None
2	None	ENSG00000227791	ENST00000428806	processed_pseudogene	KNOWN	None	None	None	None	64892741	64893198	1	None	None
HSCHR6_MHC_MANN	HCG25	ENSG00000231037	ENST00000422493	processed_transcript	KNOWN	None	20196	None	None	33371218	33376628	1	None	dJ1033B10.16
HSCHR6_MHC_MANN	HCG25	ENSG00000231037	ENST00000436369	processed_transcript	KNOWN	None	20196	None	None	33371268	33373623	1	None	dJ1033B10.16
HSCHR6_MHC_MANN	HCG25	ENSG00000231037	ENST00000448868	processed_transcript	KNOWN	None	20196	None	None	33371280	33376673	1	None	dJ1033B10.16
HSCHR6_MHC_MANN	HCG25	ENSG00000231037	ENST00000416414	processed_transcript	KNOWN	None	20196	None	None	33371963	33373319	1	None	dJ1033B10.16
11	None	ENSG00000255160	ENST00000528326	lincRNA	KNOWN	None	None	None	None	19321430	19329905	1	None	None
11	None	ENSG00000255160	ENST00000529082	lincRNA	KNOWN	None	None	None	None	19321549	19329905	1	None	None
9	None	ENSG00000238749	ENST00000459296	misc_RNA	NOVEL	None	None	None	None	45019792	45019903	-1	None	None
5	None	ENSG00000221615	ENST00000408688	miRNA	NOVEL	None	None	None	None	21734320	21734413	1	None	None
14	None	ENSG00000257976	ENST00000547237	processed_pseudogene	KNOWN	None	None	None	None	25900399	25901440	-1	None	None
1	RNU6-536P	ENSG00000200254	ENST00000363384	snRNA	KNOWN	None	47499	None	None	43034704	43034810	1	None	None
1	MFAP2	ENSG00000117122	ENST00000375534	protein_coding	KNOWN	CCDS44071	7033	549	182	17300997	17304771	-1	None	MAGP, MAGP-1
1	MFAP2	ENSG00000117122	ENST00000490075	processed_transcript	KNOWN	None	7033	None	None	17300997	17307116	-1	None	MAGP, MAGP-1
1	MFAP2	ENSG00000117122	ENST00000375535	protein_coding	KNOWN	CCDS174	7033	552	183	17300997	17307330	-1	None	MAGP, MAGP-1
1	MFAP2	ENSG00000117122	ENST00000476788	processed_transcript	KNOWN	None	7033	None	None	17302157	17307127	-1	None	MAGP, MAGP-1
1	MFAP2	ENSG00000117122	ENST00000478684	processed_transcript	KNOWN	None	7033	None	None	17302666	17304809	-1	None	MAGP, MAGP-1
1	MFAP2	ENSG00000117122	ENST00000492598	processed_transcript	KNOWN	None	7033	None	None	17302744	17304809	-1	None	MAGP, MAGP-1
1	MFAP2	ENSG00000117122	ENST00000438542	protein_coding	KNOWN	CCDS44071	7033	549	182	17301003	17307173	-1	None	MAGP, MAGP-1
1	None	ENSG00000207139	ENST00000384410	misc_RNA	NOVEL	None	None	None	None	197654770	197654870	-1	None	None
2	None	ENSG00000200377	ENST00000363507	snoRNA	NOVEL	None	None	None	None	154303327	154303397	-1	None	None
9	None	ENSG00000229697	ENST00000441101	lincRNA	KNOWN	None	None	None	None	45034957	45047145	-1	None	None
17	None	ENSG00000265574	ENST00000583470	processed_pseudogene	KNOWN	None	None	None	None	30438581	30439609	-1	None	None
2	None	ENSG00000253082	ENST00000517273	miRNA	NOVEL	None	None	None	None	65003238	65003321	1	None	None
1	None	ENSG00000236180	ENST00000454425	processed_pseudogene	KNOWN	None	None	None	None	43036641	43037061	1	None	None
5	HSPD1P1	ENSG00000213430	ENST00000503199	processed_pseudogene	KNOWN	None	35133	None	None	21882694	21884419	1	None	HSPD1-2P
5	HSPD1P1	ENSG00000213430	ENST00000537078	pseudogene	KNOWN	None	35133	None	None	21882696	21883362	1	None	HSPD1-2P
5	HSPD1P1	ENSG00000213430	ENST00000548062	processed_pseudogene	KNOWN	None	35133	None	None	21883645	21884421	1	None	HSPD1-2P
16	None	ENSG00000261736	ENST00000569881	sense_intronic	KNOWN	None	None	None	None	27654520	27655984	1	None	None
3	NPM1P28	ENSG00000240804	ENST00000492269	processed_pseudogene	KNOWN	None	45207	None	None	147308783	147309622	-1	None	None
2	FAM179A	ENSG00000189350	ENST00000401723	protein_coding	PUTATIVE	None	33715	487	161	29179477	29256386	1	None	FLJ43249, LOC165186
2	FAM179A	ENSG00000189350	ENST00000420297	protein_coding	KNOWN	None	33715	207	68	29193805	29222114	1	None	FLJ43249, LOC165186
2	FAM179A	ENSG00000189350	ENST00000379558	protein_coding	KNOWN	CCDS1769	33715	3060	1019	29204164	29284239	1	None	FLJ43249, LOC165186
2	FAM179A	ENSG00000189350	ENST00000465300	processed_transcript	KNOWN	None	33715	None	None	29237333	29275096	1	None	FLJ43249, LOC165186
2	FAM179A	ENSG00000189350	ENST00000440012	protein_coding	PUTATIVE	None	33715	338	111	29241127	29247240	1	None	FLJ43249, LOC165186
2	FAM179A	ENSG00000189350	ENST00000460951	retained_intron	KNOWN	None	33715	None	None	29255637	29259453	1	None	FLJ43249, LOC165186
2	FAM179A	ENSG00000189350	ENST00000475900	retained_intron	KNOWN	None	33715	None	None	29256297	29275096	1	None	FLJ43249, LOC165186
2	FAM179A	ENSG00000189350	ENST00000403861	protein_coding	KNOWN	None	33715	2895	964	29204164	29275094	1	None	FLJ43249, LOC165186
2	RN7SL341P	ENSG00000239891	ENST00000465924	misc_RNA	KNOWN	None	46357	None	None	65044512	65044808	1	None	None
2	DNAJA1P2	ENSG00000236917	ENST00000421360	processed_pseudogene	KNOWN	None	39338	None	None	154617963	154619159	-1	None	None
8	ENPP7P12	ENSG00000254527	ENST00000526818	processed_pseudogene	KNOWN	None	48697	None	None	12063268	12063898	-1	None	None
17	None	ENSG00000264277	ENST00000579668	miRNA	NOVEL	None	None	None	None	54132148	54132247	1	None	None
1	EEF1A1P32	ENSG00000213046	ENST00000418613	unprocessed_pseudogene	KNOWN	None	37909	None	None	197657890	197659757	1	None	None
10	RNU2-18P	ENSG00000223156	ENST00000411224	snRNA	KNOWN	None	48511	None	None	16518002	16518163	1	None	None
6	ELOVL5	ENSG00000012660	ENST00000304434	protein_coding	KNOWN	CCDS4951	21308	900	299	53132197	53213805	-1	None	HELO1, dJ483K16.1
6	ELOVL5	ENSG00000012660	ENST00000485336	processed_transcript	KNOWN	None	21308	None	None	53139923	53213771	-1	None	HELO1, dJ483K16.1
6	ELOVL5	ENSG00000012660	ENST00000465983	processed_transcript	KNOWN	None	21308	None	None	53140977	53213748	-1	None	HELO1, dJ483K16.1
6	ELOVL5	ENSG00000012660	ENST00000486973	processed_transcript	KNOWN	None	21308	None	None	53140977	53213748	-1	None	HELO1, dJ483K16.1
6	ELOVL5	ENSG00000012660	ENST00000370913	protein_coding	NOVEL	CCDS56434	21308	267	88	53158886	53213724	-1	None	HELO1, dJ483K16.1
6	ELOVL5	ENSG00000012660	ENST00000370918	protein_coding	KNOWN	None	21308	870	289	53132196	53213947	-1	None	HELO1, dJ483K16.1
6	ELOVL5	ENSG00000012660	ENST00000542638	protein_coding	KNOWN	CCDS4951	21308	900	299	53132203	53213587	-1	None	HELO1, dJ483K16.1
6	ELOVL5	ENSG00000012660	ENST00000541407	protein_coding	KNOWN	CCDS56433	21308	981	326	53133557	53213748	-1	None	HELO1, dJ483K16.1
X	SNURFL	ENSG00000173954	ENST00000309296	processed_pseudogene	KNOWN	None	29543	None	None	138444199	138444541	1	CXorf19	None
X	SNURFL	ENSG00000173954	ENST00000605203	processed_pseudogene	KNOWN	None	29543	None	None	138444259	138444468	1	CXorf19	None
7	None	ENSG00000213280	ENST00000393266	processed_pseudogene	KNOWN	None	None	None	None	128210295	128210742	-1	None	None
2	None	ENSG00000199964	ENST00000363094	misc_RNA	NOVEL	None	None	None	None	65061190	65061291	-1	None	None
1	MIR4677	ENSG00000265201	ENST00000584153	miRNA	KNOWN	None	41844	None	None	243509478	243509557	1	None	hsa-mir-4677
17	None	ENSG00000263985	ENST00000583230	miRNA	NOVEL	None	None	None	None	30462748	30462833	-1	None	None
12	PRR13	ENSG00000205352	ENST00000429243	protein_coding	KNOWN	CCDS44899	24528	447	148	53835389	53840417	1	None	FLJ23818, DKFZP564J157
12	PRR13	ENSG00000205352	ENST00000549924	protein_coding	KNOWN	CCDS44899	24528	447	148	53835462	53839878	1	None	FLJ23818, DKFZP564J157
12	PRR13	ENSG00000205352	ENST00000551003	protein_coding	NOVEL	None	24528	351	116	53835516	53840420	1	None	FLJ23818, DKFZP564J157
12	PRR13	ENSG00000205352	ENST00000552846	retained_intron	KNOWN	None	24528	None	None	53835526	53836834	1	None	FLJ23818, DKFZP564J157
12	PRR13	ENSG00000205352	ENST00000549068	protein_coding	PUTATIVE	None	24528	177	58	53835529	53840259	1	None	FLJ23818, DKFZP564J157
12	PRR13	ENSG00000205352	ENST00000549740	protein_coding	PUTATIVE	None	24528	456	151	53835531	53837875	1	None	FLJ23818, DKFZP564J157
12	PRR13	ENSG00000205352	ENST00000546581	protein_coding	NOVEL	None	24528	159	52	53835532	53840429	1	None	FLJ23818, DKFZP564J157
12	PRR13	ENSG00000205352	ENST00000549581	protein_coding	KNOWN	CCDS31811	24528	297	98	53835533	53840320	1	None	FLJ23818, DKFZP564J157
12	PRR13	ENSG00000205352	ENST00000547368	protein_coding	PUTATIVE	None	24528	489	162	53835540	53840002	1	None	FLJ23818, DKFZP564J157
12	PRR13	ENSG00000205352	ENST00000379786	protein_coding	KNOWN	CCDS31811	24528	297	98	53835546	53840422	1	None	FLJ23818, DKFZP564J157
12	PRR13	ENSG00000205352	ENST00000551945	protein_coding	KNOWN	None	24528	165	54	53835549	53837320	1	None	FLJ23818, DKFZP564J157
12	PRR13	ENSG00000205352	ENST00000551365	retained_intron	KNOWN	None	24528	None	None	53835579	53837061	1	None	FLJ23818, DKFZP564J157
12	PRR13	ENSG00000205352	ENST00000549135	protein_coding	KNOWN	CCDS44899	24528	447	148	53836339	53840099	1	None	FLJ23818, DKFZP564J157
1	OR2L13	ENSG00000196071	ENST00000358120	protein_coding	KNOWN	CCDS1637	19578	939	312	248261951	248264224	1	OR2L14	None
1	OR2L13	ENSG00000196071	ENST00000366478	protein_coding	KNOWN	CCDS1637	19578	939	312	248100493	248264223	1	OR2L14	None
1	CAPNS1P1	ENSG00000215874	ENST00000401029	processed_pseudogene	KNOWN	None	39562	None	None	89859592	89860224	1	None	None
3	None	ENSG00000251012	ENST00000490594	protein_coding	PUTATIVE	None	None	246	81	118866222	118906654	1	None	None
17	None	ENSG00000261882	ENST00000572529	processed_pseudogene	KNOWN	None	None	None	None	54445424	54445576	1	None	None
12	None	ENSG00000257281	ENST00000548873	processed_pseudogene	KNOWN	None	None	None	None	108674880	108676012	-1	None	None
10	None	ENSG00000225213	ENST00000421480	sense_intronic	KNOWN	None	None	None	None	16763351	16790376	-1	None	None
1	None	ENSG00000234917	ENST00000414339	lincRNA	KNOWN	None	None	None	None	43144406	43147325	1	None	None
17	ARGFXP2	ENSG00000265293	ENST00000579304	processed_pseudogene	KNOWN	None	23977	None	None	30477452	30478523	-1	None	None
12	None	ENSG00000255863	ENST00000537495	protein_coding	PUTATIVE	None	None	189	62	49315767	49333446	-1	None	None
1	None	ENSG00000236031	ENST00000439849	antisense	KNOWN	None	None	None	None	243708834	243711631	1	None	None
7	RNU6-177P	ENSG00000223189	ENST00000411257	snRNA	KNOWN	None	47140	None	None	128267226	128267329	1	None	None
2	None	ENSG00000234572	ENST00000445865	lincRNA	KNOWN	None	None	None	None	65073264	65090760	-1	None	None
9	None	ENSG00000231527	ENST00000443347	lincRNA	KNOWN	None	None	None	None	45108392	45112532	1	None	None
9	None	ENSG00000231527	ENST00000399894	lincRNA	KNOWN	None	None	None	None	45108421	45109831	1	None	None
9	None	ENSG00000231527	ENST00000439760	lincRNA	KNOWN	None	None	None	None	45108581	45112467	1	None	None
12	SDR9C7	ENSG00000170426	ENST00000293502	protein_coding	KNOWN	CCDS8926	29958	942	313	57316938	57328189	-1	None	SDR-O, RDHS
7	None	ENSG00000243302	ENST00000465971	processed_pseudogene	KNOWN	None	None	None	None	128291239	128292388	1	None	None
11	MIR4693	ENSG00000264200	ENST00000578405	miRNA	KNOWN	None	41818	None	None	103720634	103720708	1	None	hsa-mir-4693
17	RPL39P33	ENSG00000243058	ENST00000478577	processed_pseudogene	KNOWN	None	36315	None	None	54650401	54650556	1	None	None
17	SCARNA21	ENSG00000252835	ENST00000517026	snoRNA	KNOWN	None	32579	None	None	7809440	7809578	1	None	ACA68
10	PHYH	ENSG00000107537	ENST00000396913	protein_coding	KNOWN	CCDS41489	8940	717	238	13319796	13341763	-1	None	PAHX, RD, PHYH1
10	PHYH	ENSG00000107537	ENST00000263038	protein_coding	KNOWN	CCDS7097	8940	1017	338	13319800	13342101	-1	None	PAHX, RD, PHYH1
10	PHYH	ENSG00000107537	ENST00000396920	protein_coding	PUTATIVE	None	8940	966	321	13319843	13344412	-1	None	PAHX, RD, PHYH1
10	PHYH	ENSG00000107537	ENST00000453759	protein_coding	NOVEL	None	8940	528	175	13325690	13341549	-1	None	PAHX, RD, PHYH1
10	PHYH	ENSG00000107537	ENST00000479604	protein_coding	NOVEL	None	8940	632	209	13330412	13342052	-1	None	PAHX, RD, PHYH1
10	PHYH	ENSG00000107537	ENST00000464049	retained_intron	KNOWN	None	8940	None	None	13333461	13336987	-1	None	PAHX, RD, PHYH1
10	PHYH	ENSG00000107537	ENST00000463730	retained_intron	KNOWN	None	8940	None	None	13337228	13342097	-1	None	PAHX, RD, PHYH1
X	None	ENSG00000229335	ENST00000451869	antisense	KNOWN	None	None	None	None	114957297	114959381	1	None	None
X	None	ENSG00000229335	ENST00000415394	antisense	KNOWN	None	None	None	None	114957343	114959383	1	None	None
1	FABP7P1	ENSG00000226766	ENST00000424004	processed_pseudogene	KNOWN	None	41951	None	None	243787968	243788358	-1	None	None
1	None	ENSG00000228452	ENST00000447572	antisense	KNOWN	None	None	None	None	43241484	43242461	-1	None	None
2	None	ENSG00000266512	ENST00000582975	miRNA	NOVEL	None	None	None	None	155002618	155002720	-1	None	None
3	None	ENSG00000239661	ENST00000470739	lincRNA	KNOWN	None	None	None	None	147561910	147564444	-1	None	None
17	None	ENSG00000179859	ENST00000324348	antisense	KNOWN	None	None	None	None	7816642	7819271	-1	None	None
15	None	ENSG00000237850	ENST00000564897	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	28594197	28603160	-1	None	None
15	None	ENSG00000237850	ENST00000568624	processed_transcript	KNOWN	None	None	None	None	28594197	28603226	-1	None	None
15	None	ENSG00000237850	ENST00000424531	unprocessed_pseudogene	KNOWN	None	None	None	None	28595397	28603226	-1	None	None
17	UBL5P2	ENSG00000266282	ENST00000583788	processed_pseudogene	KNOWN	None	44640	None	None	30554909	30555127	-1	None	None
2	TRIM54	ENSG00000138100	ENST00000380075	protein_coding	KNOWN	CCDS1746	16008	1077	358	27505260	27530303	1	RNF30	MURF, MURF-3
2	TRIM54	ENSG00000138100	ENST00000296098	protein_coding	KNOWN	CCDS1745	16008	1203	400	27505330	27530307	1	RNF30	MURF, MURF-3
2	TRIM54	ENSG00000138100	ENST00000488321	retained_intron	KNOWN	None	16008	None	None	27527559	27528647	1	RNF30	MURF, MURF-3
2	TRIM54	ENSG00000138100	ENST00000485306	retained_intron	KNOWN	None	16008	None	None	27528053	27529129	1	RNF30	MURF, MURF-3
7	None	ENSG00000230715	ENST00000471258	processed_pseudogene	KNOWN	None	None	None	None	128292895	128293297	1	None	None
7	None	ENSG00000230715	ENST00000431746	processed_pseudogene	KNOWN	None	None	None	None	128293213	128293719	1	None	None
1	None	ENSG00000212044	ENST00000390755	miRNA	NOVEL	None	None	None	None	149323331	149323422	1	None	None
13	MIR17HG	ENSG00000215417	ENST00000582141	retained_intron	KNOWN	None	23564	None	None	92000074	92004656	1	C13orf25, MIRHG1	FLJ14178, MIRH1, MIHG1, NCRNA00048, miR-17-92, LINC00048
13	MIR17HG	ENSG00000215417	ENST00000400282	lincRNA	KNOWN	None	23564	None	None	92000074	92006833	1	C13orf25, MIRHG1	FLJ14178, MIRH1, MIHG1, NCRNA00048, miR-17-92, LINC00048
13	MIR17HG	ENSG00000215417	ENST00000581816	lincRNA	KNOWN	None	23564	None	None	92000196	92004350	1	C13orf25, MIRHG1	FLJ14178, MIRH1, MIHG1, NCRNA00048, miR-17-92, LINC00048
13	MIR17HG	ENSG00000215417	ENST00000385012	miRNA	KNOWN	None	23564	None	None	92002859	92002942	1	C13orf25, MIRHG1	FLJ14178, MIRH1, MIHG1, NCRNA00048, miR-17-92, LINC00048
13	MIR17HG	ENSG00000215417	ENST00000362310	miRNA	KNOWN	None	23564	None	None	92002997	92003088	1	C13orf25, MIRHG1	FLJ14178, MIRH1, MIHG1, NCRNA00048, miR-17-92, LINC00048
13	MIR17HG	ENSG00000215417	ENST00000384878	miRNA	KNOWN	None	23564	None	None	92003145	92003226	1	C13orf25, MIRHG1	FLJ14178, MIRH1, MIHG1, NCRNA00048, miR-17-92, LINC00048
13	MIR17HG	ENSG00000215417	ENST00000362279	miRNA	KNOWN	None	23564	None	None	92003319	92003389	1	C13orf25, MIRHG1	FLJ14178, MIRH1, MIHG1, NCRNA00048, miR-17-92, LINC00048
13	MIR17HG	ENSG00000215417	ENST00000384829	miRNA	KNOWN	None	23564	None	None	92003446	92003532	1	C13orf25, MIRHG1	FLJ14178, MIRH1, MIHG1, NCRNA00048, miR-17-92, LINC00048
13	MIR17HG	ENSG00000215417	ENST00000385233	miRNA	KNOWN	None	23564	None	None	92003568	92003647	1	C13orf25, MIRHG1	FLJ14178, MIRH1, MIHG1, NCRNA00048, miR-17-92, LINC00048
HSCHR6_MHC_COX	ZDHHC20P1	ENSG00000235507	ENST00000446512	processed_pseudogene	KNOWN	None	33456	None	None	29672540	29672962	-1	None	OTTHUMG00000086707
21	RNF6P1	ENSG00000227406	ENST00000444889	processed_pseudogene	KNOWN	None	39922	None	None	40745689	40748992	-1	None	None
2	None	ENSG00000212001	ENST00000390712	miRNA	NOVEL	None	None	None	None	155088231	155088342	1	None	None
1	None	ENSG00000243153	ENST00000414798	antisense	KNOWN	None	None	None	None	43300352	43312093	-1	None	None
GL000194.1	None	ENSG00000221485	ENST00000408558	miRNA	NOVEL	None	None	None	None	84477	84559	-1	None	None
1	None	ENSG00000237503	ENST00000454459	processed_pseudogene	KNOWN	None	None	None	None	149340659	149341066	-1	None	None
3	COL6A4P1	ENSG00000230524	ENST00000487147	unitary_pseudogene	KNOWN	None	33484	None	None	15193340	15222468	-1	DVWA	VWA6, DIVA, COL6A4, COL6A4P
3	COL6A4P1	ENSG00000230524	ENST00000508169	processed_transcript	KNOWN	None	33484	None	None	15193350	15198825	-1	DVWA	VWA6, DIVA, COL6A4, COL6A4P
3	COL6A4P1	ENSG00000230524	ENST00000446690	processed_transcript	KNOWN	None	33484	None	None	15206782	15247466	-1	DVWA	VWA6, DIVA, COL6A4, COL6A4P
3	COL6A4P1	ENSG00000230524	ENST00000491915	processed_transcript	KNOWN	None	33484	None	None	15211781	15216610	-1	DVWA	VWA6, DIVA, COL6A4, COL6A4P
3	COL6A4P1	ENSG00000230524	ENST00000518859	unitary_pseudogene	KNOWN	None	33484	None	None	15216276	15222478	-1	DVWA	VWA6, DIVA, COL6A4, COL6A4P
2	PHBP4	ENSG00000230251	ENST00000437447	processed_pseudogene	KNOWN	None	8916	None	None	155143102	155143938	1	None	None
7	None	ENSG00000229413	ENST00000414464	pseudogene	NOVEL	None	None	None	None	128293740	128293989	-1	None	None
11	None	ENSG00000255548	ENST00000527804	antisense	KNOWN	None	None	None	None	103816276	103817274	1	None	None
17	None	ENSG00000263674	ENST00000584815	antisense	KNOWN	None	None	None	None	30607406	30607972	-1	None	None
GL000194.1	None	ENSG00000223061	ENST00000411129	miRNA	NOVEL	None	None	None	None	84813	84895	-1	None	None
6	BTF3L4P3	ENSG00000213108	ENST00000418879	processed_pseudogene	KNOWN	None	39647	None	None	137865034	137865509	-1	None	None
17	None	ENSG00000262492	ENST00000572227	processed_pseudogene	KNOWN	None	None	None	None	7858186	7858940	1	None	None
2	None	ENSG00000237638	ENST00000449259	lincRNA	KNOWN	None	None	None	None	65128974	65132271	-1	None	None
1	None	ENSG00000232184	ENST00000453572	sense_intronic	KNOWN	None	None	None	None	243866159	243904123	-1	None	None
2	GIGYF2	ENSG00000204120	ENST00000476995	processed_transcript	KNOWN	None	11960	None	None	233562009	233600924	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
2	GIGYF2	ENSG00000204120	ENST00000427233	protein_coding	KNOWN	None	11960	40	12	233562015	233599947	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
2	GIGYF2	ENSG00000204120	ENST00000373563	protein_coding	KNOWN	CCDS33401	11960	3900	1299	233562017	233723322	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
2	GIGYF2	ENSG00000204120	ENST00000428883	protein_coding	KNOWN	None	11960	346	114	233562018	233621011	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
2	GIGYF2	ENSG00000204120	ENST00000456491	protein_coding	NOVEL	None	11960	204	67	233562020	233625269	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
2	GIGYF2	ENSG00000204120	ENST00000409480	protein_coding	KNOWN	None	11960	3966	1321	233562020	233723318	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
2	GIGYF2	ENSG00000204120	ENST00000484409	retained_intron	KNOWN	None	11960	None	None	233562033	233600161	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
2	GIGYF2	ENSG00000204120	ENST00000492910	processed_transcript	KNOWN	None	11960	None	None	233562040	233600944	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
2	GIGYF2	ENSG00000204120	ENST00000488629	retained_intron	KNOWN	None	11960	None	None	233562041	233600298	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
2	GIGYF2	ENSG00000204120	ENST00000464402	processed_transcript	KNOWN	None	11960	None	None	233562041	233600671	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
2	GIGYF2	ENSG00000204120	ENST00000490612	processed_transcript	KNOWN	None	11960	None	None	233562041	233600747	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
2	GIGYF2	ENSG00000204120	ENST00000475359	processed_transcript	KNOWN	None	11960	None	None	233562041	233601005	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
2	GIGYF2	ENSG00000204120	ENST00000421433	protein_coding	KNOWN	None	11960	280	92	233562041	233620945	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
2	GIGYF2	ENSG00000204120	ENST00000425040	protein_coding	KNOWN	None	11960	299	98	233562041	233620964	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
2	GIGYF2	ENSG00000204120	ENST00000430720	protein_coding	KNOWN	None	11960	338	111	233562041	233621003	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
2	GIGYF2	ENSG00000204120	ENST00000409547	protein_coding	KNOWN	CCDS33401	11960	3900	1299	233562041	233723337	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
2	GIGYF2	ENSG00000204120	ENST00000423659	protein_coding	NOVEL	None	11960	2160	719	233562043	233681703	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
2	GIGYF2	ENSG00000204120	ENST00000409196	protein_coding	NOVEL	CCDS46543	11960	3882	1293	233562048	233723337	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
2	GIGYF2	ENSG00000204120	ENST00000488734	processed_transcript	KNOWN	None	11960	None	None	233562054	233600978	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
2	GIGYF2	ENSG00000204120	ENST00000409451	protein_coding	NOVEL	CCDS46542	11960	3963	1320	233562056	233723318	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
2	GIGYF2	ENSG00000204120	ENST00000474465	processed_transcript	PUTATIVE	None	11960	None	None	233562059	233570657	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
2	GIGYF2	ENSG00000204120	ENST00000463554	processed_transcript	KNOWN	None	11960	None	None	233562060	233636134	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
2	GIGYF2	ENSG00000204120	ENST00000429187	protein_coding	KNOWN	None	11960	319	105	233562062	233620984	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
2	GIGYF2	ENSG00000204120	ENST00000440945	protein_coding	NOVEL	None	11960	2508	835	233562062	233684692	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
2	GIGYF2	ENSG00000204120	ENST00000482666	processed_transcript	KNOWN	None	11960	None	None	233562072	233601251	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
2	GIGYF2	ENSG00000204120	ENST00000483164	processed_transcript	KNOWN	None	11960	None	None	233562079	233600725	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
2	GIGYF2	ENSG00000204120	ENST00000490229	processed_transcript	KNOWN	None	11960	None	None	233562079	233601052	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
2	GIGYF2	ENSG00000204120	ENST00000464805	processed_transcript	KNOWN	None	11960	None	None	233562080	233601355	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
2	GIGYF2	ENSG00000204120	ENST00000489328	processed_transcript	KNOWN	None	11960	None	None	233562093	233601358	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
2	GIGYF2	ENSG00000204120	ENST00000424038	nonsense_mediated_decay	KNOWN	None	11960	279	92	233568131	233651957	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
2	GIGYF2	ENSG00000204120	ENST00000424414	protein_coding	PUTATIVE	None	11960	214	70	233629146	233655745	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
2	GIGYF2	ENSG00000204120	ENST00000445650	protein_coding	PUTATIVE	None	11960	358	118	233629154	233655560	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
2	GIGYF2	ENSG00000204120	ENST00000436349	protein_coding	PUTATIVE	None	11960	186	61	233629172	233655625	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
2	GIGYF2	ENSG00000204120	ENST00000473170	processed_transcript	PUTATIVE	None	11960	None	None	233630002	233633084	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
2	GIGYF2	ENSG00000204120	ENST00000475530	processed_transcript	PUTATIVE	None	11960	None	None	233630195	233633107	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
2	GIGYF2	ENSG00000204120	ENST00000421778	protein_coding	PUTATIVE	None	11960	270	89	233632809	233655484	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
2	GIGYF2	ENSG00000204120	ENST00000455139	protein_coding	PUTATIVE	None	11960	186	61	233632812	233655625	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
2	GIGYF2	ENSG00000204120	ENST00000427649	protein_coding	PUTATIVE	None	11960	429	142	233641462	233656047	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
2	GIGYF2	ENSG00000204120	ENST00000410033	protein_coding	PUTATIVE	None	11960	530	175	233652816	233656058	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
2	GIGYF2	ENSG00000204120	ENST00000458528	nonsense_mediated_decay	KNOWN	None	11960	180	59	233653174	233659499	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
2	GIGYF2	ENSG00000204120	ENST00000482952	retained_intron	KNOWN	None	11960	None	None	233671324	233680619	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
2	GIGYF2	ENSG00000204120	ENST00000474312	retained_intron	KNOWN	None	11960	None	None	233675021	233723322	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
2	GIGYF2	ENSG00000204120	ENST00000469843	processed_transcript	KNOWN	None	11960	None	None	233697581	233708906	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
2	GIGYF2	ENSG00000204120	ENST00000471011	retained_intron	KNOWN	None	11960	None	None	233704563	233709254	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
2	GIGYF2	ENSG00000204120	ENST00000426102	protein_coding	PUTATIVE	None	11960	448	148	233707670	233710497	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
2	GIGYF2	ENSG00000204120	ENST00000373566	protein_coding	KNOWN	None	11960	3966	1321	233562015	233725285	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
2	GIGYF2	ENSG00000204120	ENST00000452341	protein_coding	KNOWN	None	11960	2619	872	233630584	233709284	1	PERQ2, PERQ3, TNRC15, PARK11	KIAA0642, GYF2
HSCHR19_1_CTG3	None	ENSG00000262059	ENST00000573488	unprocessed_pseudogene	KNOWN	None	None	None	None	21150279	21154362	1	None	None
1	None	ENSG00000241784	ENST00000416809	antisense	KNOWN	None	None	None	None	43302599	43312033	-1	None	None
14	RPL13AP3	ENSG00000177350	ENST00000487479	transcribed_processed_pseudogene	KNOWN	None	23539	None	None	56232895	56233508	1	None	None
14	RPL13AP3	ENSG00000177350	ENST00000494676	processed_transcript	KNOWN	None	23539	None	None	56232963	56234435	1	None	None
11	RNA5SP348	ENSG00000252251	ENST00000516442	rRNA	KNOWN	None	43248	None	None	104123307	104123343	1	RN5S348	None
7	None	ENSG00000243679	ENST00000450885	processed_pseudogene	KNOWN	None	None	None	None	128294023	128294776	1	None	None
11	MIR3167	ENSG00000266215	ENST00000579623	miRNA	KNOWN	None	38242	None	None	126858354	126858438	-1	None	hsa-mir-3167
2	None	ENSG00000224675	ENST00000434635	antisense	KNOWN	None	None	None	None	155292365	155313950	-1	None	None
1	None	ENSG00000234571	ENST00000415338	lincRNA	KNOWN	None	None	None	None	149372292	149379646	-1	None	None
1	None	ENSG00000235582	ENST00000447479	processed_pseudogene	KNOWN	None	None	None	None	197704766	197705237	1	None	None
3	None	ENSG00000221431	ENST00000408504	miRNA	NOVEL	None	None	None	None	147629193	147629288	-1	None	None
17	None	ENSG00000262951	ENST00000576602	lincRNA	KNOWN	None	None	None	None	54946308	54946925	1	None	None
9	None	ENSG00000231838	ENST00000417850	lincRNA	KNOWN	None	None	None	None	45164578	45212501	1	None	None
8	FAM90A17P	ENSG00000223535	ENST00000533716	unprocessed_pseudogene	KNOWN	None	32265	None	None	7603556	7607128	1	FAM90A17	None
8	FAM90A17P	ENSG00000223535	ENST00000412129	unprocessed_pseudogene	KNOWN	None	32265	None	None	7603556	7614214	1	FAM90A17	None
8	FAM90A17P	ENSG00000223535	ENST00000456457	unprocessed_pseudogene	KNOWN	None	32265	None	None	7611204	7614766	1	FAM90A17	None
17	None	ENSG00000265794	ENST00000581915	processed_transcript	KNOWN	None	None	None	None	30651450	30687719	1	None	None
17	None	ENSG00000265794	ENST00000578389	processed_transcript	KNOWN	None	None	None	None	30651497	30687684	1	None	None
7	CICP14	ENSG00000271529	ENST00000604452	processed_pseudogene	KNOWN	None	38542	None	None	128296016	128298845	-1	None	None
12	None	ENSG00000257241	ENST00000547547	antisense	KNOWN	None	None	None	None	70340323	70340861	-1	None	None
1	AKT3-IT1	ENSG00000228939	ENST00000417120	sense_intronic	KNOWN	None	41304	None	None	243956507	243957702	-1	None	None
2	RN7SL211P	ENSG00000244534	ENST00000485246	misc_RNA	KNOWN	None	46227	None	None	65133999	65134272	-1	None	None
1	HIST2H2BB	ENSG00000240929	ENST00000449108	unprocessed_pseudogene	KNOWN	None	20654	None	None	149398799	149399179	-1	None	None
8	None	ENSG00000254362	ENST00000518031	sense_intronic	KNOWN	None	None	None	None	26298007	26300111	1	None	None
1	GBP1P1	ENSG00000225492	ENST00000513638	processed_transcript	KNOWN	None	39561	None	None	89873238	89890493	1	None	None
1	GBP1P1	ENSG00000225492	ENST00000394662	transcribed_unprocessed_pseudogene	KNOWN	None	39561	None	None	89875878	89891802	1	None	None
2	None	ENSG00000238696	ENST00000458947	snoRNA	NOVEL	None	None	None	None	65135721	65135820	-1	None	None
1	None	ENSG00000228192	ENST00000444563	antisense	KNOWN	None	None	None	None	43307569	43312058	-1	None	None
1	None	ENSG00000228192	ENST00000425076	antisense	KNOWN	None	None	None	None	43307569	43312058	-1	None	None
4	SLC30A9	ENSG00000014824	ENST00000264451	protein_coding	KNOWN	CCDS3465	1329	1707	568	41992489	42089551	1	C4orf1	HUEL, ZNT9, GAC63
4	SLC30A9	ENSG00000014824	ENST00000513699	nonsense_mediated_decay	KNOWN	None	1329	360	119	41992519	42088386	1	C4orf1	HUEL, ZNT9, GAC63
4	SLC30A9	ENSG00000014824	ENST00000510460	retained_intron	KNOWN	None	1329	None	None	41992544	42022792	1	C4orf1	HUEL, ZNT9, GAC63
4	SLC30A9	ENSG00000014824	ENST00000509683	retained_intron	KNOWN	None	1329	None	None	42065051	42080868	1	C4orf1	HUEL, ZNT9, GAC63
4	SLC30A9	ENSG00000014824	ENST00000505523	retained_intron	KNOWN	None	1329	None	None	42072206	42088393	1	C4orf1	HUEL, ZNT9, GAC63
17	None	ENSG00000238676	ENST00000459145	snoRNA	NOVEL	None	None	None	None	7937805	7937902	-1	None	None
1	None	ENSG00000226828	ENST00000440494	lincRNA	KNOWN	None	None	None	None	244080704	244210619	1	None	None
2	None	ENSG00000227394	ENST00000455212	processed_pseudogene	KNOWN	None	None	None	None	65187187	65187768	-1	None	None
3	None	ENSG00000239922	ENST00000467198	lincRNA	KNOWN	None	None	None	None	147657791	147660801	1	None	None
3	None	ENSG00000239922	ENST00000485006	lincRNA	KNOWN	None	None	None	None	147657807	147724542	1	None	None
12	WNT10B	ENSG00000169884	ENST00000301061	protein_coding	KNOWN	CCDS8775	12775	1170	389	49359123	49365546	-1	None	WNT-12, SHFM6
12	WNT10B	ENSG00000169884	ENST00000407467	protein_coding	NOVEL	None	12775	576	191	49359188	49365281	-1	None	WNT-12, SHFM6
12	WNT10B	ENSG00000169884	ENST00000403957	protein_coding	PUTATIVE	None	12775	522	173	49359339	49365501	-1	None	WNT-12, SHFM6
12	WNT10B	ENSG00000169884	ENST00000413630	protein_coding	PUTATIVE	None	12775	396	131	49362079	49364539	-1	None	WNT-12, SHFM6
12	WNT10B	ENSG00000169884	ENST00000475740	retained_intron	KNOWN	None	12775	None	None	49363903	49364435	-1	None	WNT-12, SHFM6
12	WNT10B	ENSG00000169884	ENST00000420388	protein_coding	KNOWN	None	12775	306	101	49363903	49364672	-1	None	WNT-12, SHFM6
6	None	ENSG00000230533	ENST00000440397	lincRNA	KNOWN	None	None	None	None	137994597	137995691	1	None	None
9	CDK2AP2P1	ENSG00000234299	ENST00000492018	processed_pseudogene	KNOWN	None	38492	None	None	45363481	45363852	1	None	None
17	RNU6-1158P	ENSG00000212469	ENST00000391167	snRNA	KNOWN	None	48121	None	None	54948531	54948637	1	None	None
15	RNU6-18P	ENSG00000207257	ENST00000384527	snRNA	KNOWN	None	34262	None	None	32576353	32576459	1	RNU6-18	None
1	FAM204BP	ENSG00000233040	ENST00000369171	processed_pseudogene	KNOWN	None	42011	None	None	197715881	197716581	-1	None	None
17	None	ENSG00000263427	ENST00000577807	lincRNA	KNOWN	None	None	None	None	7959543	7960939	-1	None	None
2	None	ENSG00000238004	ENST00000432599	lincRNA	KNOWN	None	None	None	None	155316369	155317332	1	None	None
11	OR51B3P	ENSG00000223735	ENST00000412287	unprocessed_pseudogene	KNOWN	None	14706	None	None	5336002	5336914	-1	None	None
17	None	ENSG00000262408	ENST00000571053	processed_pseudogene	KNOWN	None	None	None	None	54962000	54962180	-1	None	None
3	UPK1B	ENSG00000114638	ENST00000497685	protein_coding	NOVEL	None	12578	543	180	118892364	118922959	1	UPK1	TSPAN20
3	UPK1B	ENSG00000114638	ENST00000264234	protein_coding	KNOWN	CCDS2985	12578	783	260	118892365	118924000	1	UPK1	TSPAN20
3	UPK1B	ENSG00000114638	ENST00000479520	protein_coding	KNOWN	None	12578	508	168	118892447	118913105	1	UPK1	TSPAN20
3	UPK1B	ENSG00000114638	ENST00000494855	protein_coding	KNOWN	None	12578	568	188	118892447	118913165	1	UPK1	TSPAN20
3	UPK1B	ENSG00000114638	ENST00000460625	protein_coding	NOVEL	None	12578	759	252	118905585	118923988	1	UPK1	TSPAN20
15	None	ENSG00000260211	ENST00000568218	processed_pseudogene	KNOWN	None	None	None	None	32605327	32607855	-1	None	None
1	None	ENSG00000230186	ENST00000444624	antisense	KNOWN	None	None	None	None	149400063	149429348	1	None	None
1	None	ENSG00000230186	ENST00000435113	antisense	KNOWN	None	None	None	None	149400063	149429580	1	None	None
2	RNU6-548P	ENSG00000252892	ENST00000517083	snRNA	KNOWN	None	47511	None	None	65221880	65221994	1	None	None
9	MYO5BP1	ENSG00000235130	ENST00000437055	processed_pseudogene	KNOWN	None	38495	None	None	45375910	45377188	1	None	None
19	S1PR2	ENSG00000267534	ENST00000590320	protein_coding	KNOWN	CCDS12229	3169	1062	353	10334520	10341948	-1	EDG5	Gpcr13, H218, AGR16
17	MIR4314	ENSG00000264005	ENST00000583321	miRNA	KNOWN	None	38191	None	None	7991374	7991465	1	None	hsa-mir-4314
5	None	ENSG00000253256	ENST00000521204	antisense	KNOWN	None	None	None	None	158636929	158675804	1	None	None
2	RNA5SP107	ENSG00000223290	ENST00000411358	rRNA	KNOWN	None	42905	None	None	155446919	155447040	1	RN5S107	None
HSCHR6_MHC_SSTO	AGPAT1	ENSG00000228892	ENST00000452393	protein_coding	KNOWN	None	324	852	283	32142859	32147762	-1	None	LPAAT-alpha
HSCHR6_MHC_SSTO	AGPAT1	ENSG00000228892	ENST00000433376	protein_coding	KNOWN	None	324	852	283	32142859	32150769	-1	None	LPAAT-alpha
HSCHR6_MHC_SSTO	AGPAT1	ENSG00000228892	ENST00000415173	protein_coding	KNOWN	None	324	852	283	32142859	32151727	-1	None	LPAAT-alpha
HSCHR6_MHC_SSTO	AGPAT1	ENSG00000228892	ENST00000455898	protein_coding	KNOWN	None	324	852	283	32142859	32151972	-1	None	LPAAT-alpha
HSCHR6_MHC_SSTO	AGPAT1	ENSG00000228892	ENST00000479245	processed_transcript	KNOWN	None	324	None	None	32142859	32151989	-1	None	LPAAT-alpha
HSCHR6_MHC_SSTO	AGPAT1	ENSG00000228892	ENST00000451833	protein_coding	KNOWN	None	324	852	283	32142859	32152433	-1	None	LPAAT-alpha
HSCHR6_MHC_SSTO	AGPAT1	ENSG00000228892	ENST00000417388	protein_coding	KNOWN	None	324	852	283	32142859	32152743	-1	None	LPAAT-alpha
HSCHR6_MHC_SSTO	AGPAT1	ENSG00000228892	ENST00000475368	processed_transcript	KNOWN	None	324	None	None	32144812	32150544	-1	None	LPAAT-alpha
17	None	ENSG00000262112	ENST00000574826	antisense	KNOWN	None	None	None	None	54966241	54969202	1	None	None
13	RNU4ATAC3P	ENSG00000252508	ENST00000516699	snRNA	KNOWN	None	42575	None	None	92712097	92712222	1	None	None
2	None	ENSG00000235949	ENST00000443901	antisense	KNOWN	None	None	None	None	155552974	155554329	-1	None	None
12	None	ENSG00000247213	ENST00000502160	antisense	KNOWN	None	None	None	None	108827907	108886362	-1	None	None
12	None	ENSG00000247213	ENST00000551889	retained_intron	KNOWN	None	None	None	None	108853202	108867466	-1	None	None
17	SNORD118	ENSG00000200463	ENST00000363593	snoRNA	KNOWN	None	32952	None	None	8076772	8076905	-1	None	U8
2	None	ENSG00000232613	ENST00000415327	antisense	KNOWN	None	None	None	None	65257861	65264631	-1	None	None
2	None	ENSG00000232613	ENST00000430134	antisense	KNOWN	None	None	None	None	65257881	65280151	-1	None	None
1	None	ENSG00000224901	ENST00000440885	antisense	KNOWN	None	None	None	None	197726449	197731095	1	None	None
13	FABP5P4	ENSG00000229287	ENST00000437203	processed_pseudogene	KNOWN	None	31061	None	None	92832968	92833138	-1	FABP5L4	None
6	TFAP2B	ENSG00000008196	ENST00000344788	protein_coding	KNOWN	None	11743	595	197	50786436	50796392	1	None	AP2-B
6	TFAP2B	ENSG00000008196	ENST00000393655	protein_coding	KNOWN	CCDS4934	11743	1383	460	50786436	50815326	1	None	AP2-B
6	TFAP2B	ENSG00000008196	ENST00000489228	processed_transcript	KNOWN	None	11743	None	None	50789498	50791578	1	None	AP2-B
6	TFAP2B	ENSG00000008196	ENST00000263046	protein_coding	KNOWN	None	11743	1410	469	50786439	50815326	1	None	AP2-B
12	None	ENSG00000256176	ENST00000538551	processed_pseudogene	KNOWN	None	None	None	None	31464551	31464963	1	None	None
10	None	ENSG00000270333	ENST00000603216	processed_pseudogene	KNOWN	None	None	None	None	111421572	111421808	1	None	None
4	ZNF518B	ENSG00000178163	ENST00000326756	protein_coding	KNOWN	CCDS33960	29365	3225	1074	10441498	10458984	-1	None	KIAA1729
4	ZNF518B	ENSG00000178163	ENST00000507515	protein_coding	KNOWN	None	29365	227	74	10447726	10459029	-1	None	KIAA1729
4	ZNF518B	ENSG00000178163	ENST00000500268	retained_intron	KNOWN	None	29365	None	None	10452511	10458800	-1	None	KIAA1729
4	ZNF518B	ENSG00000178163	ENST00000515072	processed_transcript	KNOWN	None	29365	None	None	10452511	10459032	-1	None	KIAA1729
4	ZNF518B	ENSG00000178163	ENST00000503068	retained_intron	KNOWN	None	29365	None	None	10452511	10459034	-1	None	KIAA1729
17	MIR3614	ENSG00000265238	ENST00000581261	miRNA	KNOWN	None	38995	None	None	54968631	54968716	-1	None	hsa-mir-3614
17	None	ENSG00000266824	ENST00000581248	lincRNA	KNOWN	None	None	None	None	8080130	8086130	1	None	None
2	CBX3P6	ENSG00000228837	ENST00000430257	processed_pseudogene	KNOWN	None	42878	None	None	155797053	155797579	-1	None	None
1	None	ENSG00000229960	ENST00000441338	lincRNA	KNOWN	None	None	None	None	244232122	244256328	-1	None	None
13	GPC5-AS2	ENSG00000232885	ENST00000417589	antisense	KNOWN	None	39887	None	None	92992047	92992856	-1	None	None
10	None	ENSG00000270294	ENST00000603162	processed_pseudogene	KNOWN	None	None	None	None	111440200	111440799	1	None	None
7	None	ENSG00000271553	ENST00000605836	lincRNA	KNOWN	None	None	None	None	128307097	128308210	1	None	None
9	None	ENSG00000235037	ENST00000442207	lincRNA	KNOWN	None	None	None	None	45393845	45415976	-1	None	None
20	GFRA4	ENSG00000125861	ENST00000290417	protein_coding	KNOWN	CCDS13055	13821	810	269	3639939	3644046	-1	None	None
20	GFRA4	ENSG00000125861	ENST00000319242	protein_coding	KNOWN	CCDS13056	13821	900	299	3640556	3644046	-1	None	None
20	GFRA4	ENSG00000125861	ENST00000477160	nonsense_mediated_decay	KNOWN	None	13821	549	182	3641272	3644046	-1	None	None
17	MIR3676	ENSG00000266638	ENST00000579470	miRNA	KNOWN	None	38927	None	None	8090493	8090577	1	None	hsa-mir-3676
1	RN7SL148P	ENSG00000244066	ENST00000467120	misc_RNA	KNOWN	None	46164	None	None	244267234	244267510	1	None	None
17	None	ENSG00000262298	ENST00000572187	antisense	KNOWN	None	None	None	None	55017293	55018636	1	None	None
7	CTTNBP2	ENSG00000077063	ENST00000160373	protein_coding	KNOWN	CCDS5774	15679	4992	1663	117350705	117513561	-1	CORTBP2, C7orf8	KIAA1758, Orf4
7	CTTNBP2	ENSG00000077063	ENST00000446636	protein_coding	NOVEL	None	15679	3454	1150	117350795	117431834	-1	CORTBP2, C7orf8	KIAA1758, Orf4
7	CTTNBP2	ENSG00000077063	ENST00000441556	nonsense_mediated_decay	KNOWN	None	15679	1923	640	117350917	117513483	-1	CORTBP2, C7orf8	KIAA1758, Orf4
7	CTTNBP2	ENSG00000077063	ENST00000445366	nonsense_mediated_decay	KNOWN	None	15679	142	46	117351682	117368262	-1	CORTBP2, C7orf8	KIAA1758, Orf4
7	CTTNBP2	ENSG00000077063	ENST00000435233	protein_coding	NOVEL	None	15679	580	192	117375385	117400701	-1	CORTBP2, C7orf8	KIAA1758, Orf4
7	CTTNBP2	ENSG00000077063	ENST00000482124	retained_intron	KNOWN	None	15679	None	None	117395426	117398166	-1	CORTBP2, C7orf8	KIAA1758, Orf4
7	CTTNBP2	ENSG00000077063	ENST00000416239	protein_coding	PUTATIVE	None	15679	362	119	117395434	117400647	-1	CORTBP2, C7orf8	KIAA1758, Orf4
7	CTTNBP2	ENSG00000077063	ENST00000467088	retained_intron	KNOWN	None	15679	None	None	117400322	117407245	-1	CORTBP2, C7orf8	KIAA1758, Orf4
7	CTTNBP2	ENSG00000077063	ENST00000434890	protein_coding	PUTATIVE	None	15679	484	160	117432640	117511692	-1	CORTBP2, C7orf8	KIAA1758, Orf4
7	CTTNBP2	ENSG00000077063	ENST00000487820	processed_transcript	KNOWN	None	15679	None	None	117432650	117433659	-1	CORTBP2, C7orf8	KIAA1758, Orf4
7	CTTNBP2	ENSG00000077063	ENST00000454375	protein_coding	PUTATIVE	None	15679	408	135	117432716	117512274	-1	CORTBP2, C7orf8	KIAA1758, Orf4
7	CTTNBP2	ENSG00000077063	ENST00000412853	protein_coding	PUTATIVE	None	15679	286	94	117450821	117514193	-1	CORTBP2, C7orf8	KIAA1758, Orf4
1	HIST2H3PS2	ENSG00000203818	ENST00000392948	unprocessed_pseudogene	KNOWN	None	32060	None	None	149400131	149400542	-1	None	p06
7	PMS2	ENSG00000122512	ENST00000265849	protein_coding	KNOWN	CCDS5343	9122	2589	862	6012870	6048756	-1	PMSL2	H_DJ0042M02.9, HNPCC4
7	PMS2	ENSG00000122512	ENST00000382321	protein_coding	KNOWN	None	9122	1386	461	6013030	6048650	-1	PMSL2	H_DJ0042M02.9, HNPCC4
7	PMS2	ENSG00000122512	ENST00000406569	protein_coding	KNOWN	None	9122	1719	572	6017305	6048650	-1	PMSL2	H_DJ0042M02.9, HNPCC4
7	PMS2	ENSG00000122512	ENST00000469652	processed_transcript	KNOWN	None	9122	None	None	6022506	6048650	-1	PMSL2	H_DJ0042M02.9, HNPCC4
7	PMS2	ENSG00000122512	ENST00000380416	retained_intron	KNOWN	None	9122	None	None	6041597	6048729	-1	PMSL2	H_DJ0042M02.9, HNPCC4
7	PMS2	ENSG00000122512	ENST00000415839	retained_intron	KNOWN	None	9122	None	None	6042941	6045697	-1	PMSL2	H_DJ0042M02.9, HNPCC4
7	PMS2	ENSG00000122512	ENST00000441476	protein_coding	KNOWN	None	9122	2271	756	6013030	6043637	-1	PMSL2	H_DJ0042M02.9, HNPCC4
1	None	ENSG00000232824	ENST00000456678	processed_pseudogene	KNOWN	None	None	None	None	198166909	198167316	-1	None	None
14	LINC00520	ENSG00000258791	ENST00000560267	lincRNA	KNOWN	None	19843	None	None	56247864	56263374	-1	C14orf34	None
14	LINC00520	ENSG00000258791	ENST00000560336	lincRNA	KNOWN	None	19843	None	None	56248785	56263406	-1	C14orf34	None
14	LINC00520	ENSG00000258791	ENST00000554221	processed_transcript	KNOWN	None	19843	None	None	56249127	56263406	-1	C14orf34	None
14	LINC00520	ENSG00000258791	ENST00000556417	lincRNA	KNOWN	None	19843	None	None	56249144	56263392	-1	C14orf34	None
14	LINC00520	ENSG00000258791	ENST00000554196	lincRNA	KNOWN	None	19843	None	None	56254645	56260078	-1	C14orf34	None
14	LINC00520	ENSG00000258791	ENST00000554186	lincRNA	KNOWN	None	19843	None	None	56259443	56263357	-1	C14orf34	None
13	GPC5-IT1	ENSG00000236240	ENST00000416664	sense_intronic	KNOWN	None	41340	None	None	93136859	93162347	1	None	None
17	None	ENSG00000265139	ENST00000580360	lincRNA	KNOWN	None	None	None	None	30655460	30656414	1	None	None
1	None	ENSG00000237759	ENST00000440148	lincRNA	KNOWN	None	None	None	None	244270667	244272313	1	None	None
4	None	ENSG00000213851	ENST00000468126	processed_pseudogene	KNOWN	None	None	None	None	43412058	43412954	-1	None	None
2	None	ENSG00000230991	ENST00000442706	lincRNA	KNOWN	None	None	None	None	155822025	155824515	-1	None	None
10	None	ENSG00000224907	ENST00000429231	processed_pseudogene	KNOWN	None	None	None	None	111567409	111567887	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000254875	ENST00000464460	nonsense_mediated_decay	KNOWN	None	None	906	301	32079238	32093681	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000254875	ENST00000459812	nonsense_mediated_decay	KNOWN	None	None	906	301	32079615	32097378	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000254875	ENST00000477913	retained_intron	KNOWN	None	None	None	None	32082506	32090055	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000254875	ENST00000486292	nonsense_mediated_decay	KNOWN	None	None	383	126	32083038	32092405	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000254875	ENST00000551482	protein_coding	KNOWN	None	None	906	301	32079238	32091599	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000254875	ENST00000607581	protein_coding	NOVEL	None	None	882	293	32090028	32093685	1	None	None
17	None	ENSG00000271002	ENST00000603489	processed_pseudogene	KNOWN	None	None	None	None	8102441	8102755	-1	None	None
7	None	ENSG00000241493	ENST00000461273	processed_pseudogene	KNOWN	None	None	None	None	128309141	128309946	-1	None	None
2	None	ENSG00000272025	ENST00000607595	snoRNA	NOVEL	None	None	None	None	65385796	65385994	1	None	None
1	None	ENSG00000233708	ENST00000448759	processed_pseudogene	KNOWN	None	None	None	None	43352268	43354438	-1	None	None
11	None	ENSG00000256422	ENST00000536529	lincRNA	KNOWN	None	None	None	None	104316596	104480024	-1	None	None
11	None	ENSG00000256422	ENST00000538641	lincRNA	KNOWN	None	None	None	None	104410659	104480049	-1	None	None
11	None	ENSG00000256422	ENST00000545630	lincRNA	KNOWN	None	None	None	None	104439258	104480030	-1	None	None
17	None	ENSG00000262623	ENST00000570407	processed_pseudogene	KNOWN	None	None	None	None	55029025	55029765	1	None	None
6	RPS12	ENSG00000112306	ENST00000230050	protein_coding	KNOWN	CCDS5164	10385	399	132	133135580	133138703	1	None	S12
6	RPS12	ENSG00000112306	ENST00000484616	retained_intron	KNOWN	None	10385	None	None	133135708	133138703	1	None	S12
3	None	ENSG00000243794	ENST00000481033	processed_pseudogene	KNOWN	None	None	None	None	75570954	75571163	1	None	None
1	None	ENSG00000223881	ENST00000429469	lincRNA	KNOWN	None	None	None	None	198566854	198567998	-1	None	None
13	MIR548AS	ENSG00000263741	ENST00000579177	miRNA	KNOWN	None	43550	None	None	93142416	93142473	1	None	hsa-mir-548as
17	None	ENSG00000263749	ENST00000579644	processed_pseudogene	KNOWN	None	None	None	None	30670793	30671143	-1	None	None
2	RNU6-1001P	ENSG00000223197	ENST00000411265	snRNA	KNOWN	None	47964	None	None	155945951	155946050	-1	None	None
17	LINC00324	ENSG00000178977	ENST00000315707	lincRNA	KNOWN	None	26628	None	None	8123960	8127361	-1	C17orf44, NCRNA00324	FLJ34790, MGC104931
1	None	ENSG00000240963	ENST00000417765	antisense	KNOWN	None	None	None	None	244538402	244572894	-1	None	None
9	None	ENSG00000236157	ENST00000400805	unprocessed_pseudogene	KNOWN	None	None	None	None	45424050	45424634	-1	None	None
10	None	ENSG00000272160	ENST00000607255	snRNA	NOVEL	None	None	None	None	111629616	111629750	1	None	None
2	None	ENSG00000172974	ENST00000467568	processed_pseudogene	KNOWN	None	None	None	None	65432242	65433122	1	None	None
2	None	ENSG00000172974	ENST00000393177	processed_pseudogene	KNOWN	None	None	None	None	65432137	65433396	1	None	None
2	None	ENSG00000232982	ENST00000431457	processed_pseudogene	KNOWN	None	None	None	None	156119970	156120236	-1	None	None
3	RPS3AP15	ENSG00000244674	ENST00000483874	processed_pseudogene	KNOWN	None	35781	None	None	75591300	75592080	-1	None	None
11	OR51B8P	ENSG00000236359	ENST00000449892	unprocessed_pseudogene	KNOWN	None	31279	None	None	5351822	5352590	-1	None	None
13	GPC5-AS1	ENSG00000235984	ENST00000451897	antisense	KNOWN	None	39886	None	None	93353642	93372228	-1	None	None
13	GPC5-AS1	ENSG00000235984	ENST00000419288	antisense	KNOWN	None	39886	None	None	93353642	93373867	-1	None	None
1	None	ENSG00000261573	ENST00000566394	antisense	KNOWN	None	None	None	None	198626682	198636190	-1	None	None
1	None	ENSG00000268074	ENST00000422106	processed_pseudogene	KNOWN	None	None	None	None	149424566	149424954	-1	None	None
HG388_HG400_PATCH	DIXDC1	ENSG00000262277	ENST00000587558	protein_coding	PUTATIVE	None	23695	657	218	111797867	111846718	1	None	KIAA1735
HG388_HG400_PATCH	DIXDC1	ENSG00000262277	ENST00000577090	protein_coding	KNOWN	None	23695	2052	683	111807926	111893307	1	None	KIAA1735
HG388_HG400_PATCH	DIXDC1	ENSG00000262277	ENST00000587417	retained_intron	KNOWN	None	23695	None	None	111808143	111845090	1	None	KIAA1735
HG388_HG400_PATCH	DIXDC1	ENSG00000262277	ENST00000586968	protein_coding	KNOWN	None	23695	660	219	111808150	111845763	1	None	KIAA1735
HG388_HG400_PATCH	DIXDC1	ENSG00000262277	ENST00000586490	protein_coding	PUTATIVE	None	23695	231	76	111847629	111859778	1	None	KIAA1735
HG388_HG400_PATCH	DIXDC1	ENSG00000262277	ENST00000572808	protein_coding	KNOWN	None	23695	1419	472	111848073	111892719	1	None	KIAA1735
HG388_HG400_PATCH	DIXDC1	ENSG00000262277	ENST00000588836	protein_coding	KNOWN	None	23695	1314	437	111852940	111891778	1	None	KIAA1735
HG388_HG400_PATCH	DIXDC1	ENSG00000262277	ENST00000593182	retained_intron	KNOWN	None	23695	None	None	111859670	111890061	1	None	KIAA1735
HG388_HG400_PATCH	DIXDC1	ENSG00000262277	ENST00000585681	retained_intron	KNOWN	None	23695	None	None	111864439	111867056	1	None	KIAA1735
17	MIR632	ENSG00000207928	ENST00000385193	miRNA	KNOWN	None	32888	None	None	30677128	30677221	1	MIRN632	hsa-mir-632
12	None	ENSG00000256232	ENST00000541749	lincRNA	KNOWN	None	None	None	None	31516415	31522235	-1	None	None
17	NDEL1	ENSG00000166579	ENST00000582812	protein_coding	KNOWN	None	17620	437	144	8316449	8351915	1	None	NUDEL, MITAP1, NDE1L1, NDE2
17	NDEL1	ENSG00000166579	ENST00000579150	processed_transcript	KNOWN	None	17620	None	None	8316450	8335485	1	None	NUDEL, MITAP1, NDE1L1, NDE2
17	NDEL1	ENSG00000166579	ENST00000580237	nonsense_mediated_decay	KNOWN	None	17620	231	76	8316513	8350202	1	None	NUDEL, MITAP1, NDE1L1, NDE2
17	NDEL1	ENSG00000166579	ENST00000582665	protein_coding	KNOWN	None	17620	475	157	8339170	8351953	1	None	NUDEL, MITAP1, NDE1L1, NDE2
17	NDEL1	ENSG00000166579	ENST00000579880	processed_transcript	KNOWN	None	17620	None	None	8339179	8350098	1	None	NUDEL, MITAP1, NDE1L1, NDE2
17	NDEL1	ENSG00000166579	ENST00000334527	protein_coding	KNOWN	CCDS11143	17620	1038	345	8339179	8371478	1	None	NUDEL, MITAP1, NDE1L1, NDE2
17	NDEL1	ENSG00000166579	ENST00000585098	protein_coding	PUTATIVE	None	17620	258	85	8339212	8370587	1	None	NUDEL, MITAP1, NDE1L1, NDE2
17	NDEL1	ENSG00000166579	ENST00000380025	protein_coding	NOVEL	None	17620	810	269	8339218	8371478	1	None	NUDEL, MITAP1, NDE1L1, NDE2
17	NDEL1	ENSG00000166579	ENST00000402554	protein_coding	KNOWN	CCDS32564	17620	987	328	8339226	8370976	1	None	NUDEL, MITAP1, NDE1L1, NDE2
17	NDEL1	ENSG00000166579	ENST00000584866	protein_coding	KNOWN	None	17620	100	32	8339232	8349042	1	None	NUDEL, MITAP1, NDE1L1, NDE2
17	NDEL1	ENSG00000166579	ENST00000582490	protein_coding	KNOWN	None	17620	216	71	8339240	8349158	1	None	NUDEL, MITAP1, NDE1L1, NDE2
17	NDEL1	ENSG00000166579	ENST00000580738	retained_intron	KNOWN	None	17620	None	None	8339245	8349363	1	None	NUDEL, MITAP1, NDE1L1, NDE2
17	NDEL1	ENSG00000166579	ENST00000583066	processed_transcript	KNOWN	None	17620	None	None	8339352	8349065	1	None	NUDEL, MITAP1, NDE1L1, NDE2
17	NDEL1	ENSG00000166579	ENST00000580012	protein_coding	KNOWN	None	17620	177	58	8339412	8349119	1	None	NUDEL, MITAP1, NDE1L1, NDE2
17	NDEL1	ENSG00000166579	ENST00000581189	processed_transcript	KNOWN	None	17620	None	None	8339969	8351895	1	None	NUDEL, MITAP1, NDE1L1, NDE2
17	NDEL1	ENSG00000166579	ENST00000582277	protein_coding	PUTATIVE	None	17620	589	195	8351922	8364702	1	None	NUDEL, MITAP1, NDE1L1, NDE2
17	NDEL1	ENSG00000166579	ENST00000581679	protein_coding	PUTATIVE	None	17620	582	193	8354099	8393729	1	None	NUDEL, MITAP1, NDE1L1, NDE2
17	NDEL1	ENSG00000166579	ENST00000583683	retained_intron	KNOWN	None	17620	None	None	8366095	8371471	1	None	NUDEL, MITAP1, NDE1L1, NDE2
17	NDEL1	ENSG00000166579	ENST00000578172	retained_intron	KNOWN	None	17620	None	None	8367554	8371480	1	None	NUDEL, MITAP1, NDE1L1, NDE2
17	NDEL1	ENSG00000166579	ENST00000299734	protein_coding	KNOWN	None	17620	1104	367	8339179	8383942	1	None	NUDEL, MITAP1, NDE1L1, NDE2
17	None	ENSG00000266385	ENST00000584721	lincRNA	KNOWN	None	None	None	None	30738236	30739439	1	None	None
3	None	ENSG00000221602	ENST00000408675	miRNA	NOVEL	None	None	None	None	75598948	75599096	1	None	None
2	MTND2P20	ENSG00000229701	ENST00000440805	processed_pseudogene	KNOWN	None	42121	None	None	156120675	156121335	-1	None	None
1	OR2L8	ENSG00000196936	ENST00000357191	protein_coding	KNOWN	CCDS31101	15014	939	312	248112160	248113098	1	None	None
2	RNU4-8P	ENSG00000201806	ENST00000364936	snRNA	KNOWN	None	10195	None	None	98281054	98281194	-1	RNU4P2	U4, U4/14
1	TGIF2P1	ENSG00000225401	ENST00000435390	transcribed_processed_pseudogene	KNOWN	None	33317	None	None	244558278	244558962	-1	None	None
17	None	ENSG00000263120	ENST00000572877	sense_intronic	KNOWN	None	None	None	None	55060110	55062465	1	None	None
3	None	ENSG00000239383	ENST00000481669	processed_pseudogene	KNOWN	None	None	None	None	75639449	75639800	-1	None	None
1	PEBP1P3	ENSG00000236278	ENST00000455475	processed_pseudogene	KNOWN	None	44345	None	None	198648268	198649162	-1	None	None
1	None	ENSG00000237090	ENST00000417517	processed_pseudogene	KNOWN	None	None	None	None	43356765	43358101	-1	None	None
13	None	ENSG00000232849	ENST00000443228	lincRNA	KNOWN	None	None	None	None	93708910	93710179	1	None	None
2	HMGN1P36	ENSG00000235734	ENST00000446623	processed_pseudogene	KNOWN	None	39380	None	None	98443711	98444008	1	None	None
2	HMGN1P36	ENSG00000235734	ENST00000453328	processed_pseudogene	KNOWN	None	39380	None	None	98443711	98444013	1	None	None
1	RNVU1-19	ENSG00000212544	ENST00000391242	snRNA	KNOWN	None	48324	None	None	149514090	149514256	-1	None	vU1.19, RNU1-126
17	None	ENSG00000264083	ENST00000584125	lincRNA	KNOWN	None	None	None	None	30757986	30759860	1	None	None
17	None	ENSG00000265809	ENST00000580911	miRNA	NOVEL	None	None	None	None	55080344	55080444	1	None	None
12	RNU6-318P	ENSG00000207477	ENST00000384746	snRNA	KNOWN	None	47281	None	None	31519222	31519300	1	None	None
17	None	ENSG00000264373	ENST00000584353	processed_pseudogene	KNOWN	None	None	None	None	30761958	30762047	-1	None	None
8	None	ENSG00000253208	ENST00000524123	processed_pseudogene	KNOWN	None	None	None	None	26405185	26405979	1	None	None
13	None	ENSG00000252365	ENST00000516556	snoRNA	NOVEL	None	None	None	None	94021100	94021213	-1	None	None
1	None	ENSG00000271594	ENST00000603079	processed_pseudogene	KNOWN	None	None	None	None	149524787	149525073	1	None	None
3	OR7E121P	ENSG00000244222	ENST00000494533	unprocessed_pseudogene	KNOWN	None	15049	None	None	75647803	75648824	-1	None	None
17	RNF126P1	ENSG00000261192	ENST00000567452	processed_transcript	KNOWN	None	30340	None	None	55122839	55124158	1	None	None
17	RNF126P1	ENSG00000261192	ENST00000569893	transcribed_processed_pseudogene	KNOWN	None	30340	None	None	55122882	55123806	1	None	None
2	None	ENSG00000232693	ENST00000419244	sense_intronic	KNOWN	None	None	None	None	65600834	65607819	-1	None	None
7	None	ENSG00000270810	ENST00000605692	lincRNA	KNOWN	None	None	None	None	128327342	128327926	1	None	None
13	HNRNPA1P29	ENSG00000235784	ENST00000426409	processed_pseudogene	KNOWN	None	39547	None	None	94047230	94048108	-1	None	None
17	None	ENSG00000269928	ENST00000602405	lincRNA	KNOWN	None	None	None	None	8128139	8128798	-1	None	None
2	RNU7-96P	ENSG00000238719	ENST00000459535	snRNA	KNOWN	None	45630	None	None	98529517	98529580	-1	None	None
X	SNORA11E	ENSG00000221705	ENST00000408778	snoRNA	KNOWN	None	33623	None	None	51806443	51806570	-1	None	None
17	None	ENSG00000202100	ENST00000365230	misc_RNA	NOVEL	None	None	None	None	30790392	30790500	-1	None	None
1	None	ENSG00000268544	ENST00000596960	lincRNA	KNOWN	None	None	None	None	149575345	149575767	1	None	None
1	None	ENSG00000238952	ENST00000458882	miRNA	NOVEL	None	None	None	None	244752848	244752946	-1	None	None
15	None	ENSG00000260642	ENST00000568289	lincRNA	KNOWN	None	None	None	None	32651739	32659985	1	None	None
12	RNU6-618P	ENSG00000200388	ENST00000363518	snRNA	KNOWN	None	47581	None	None	31549324	31549435	1	None	None
2	ATP5A1P2	ENSG00000227682	ENST00000412323	processed_pseudogene	KNOWN	None	828	None	None	156126145	156126399	1	ATP5AP2	None
2	ATP5BP1	ENSG00000231635	ENST00000411980	processed_pseudogene	KNOWN	None	831	None	None	98822614	98824187	1	ATPSBL1, ATP5BL1	ATPMBL1
17	None	ENSG00000269947	ENST00000602597	lincRNA	KNOWN	None	None	None	None	8181081	8181754	1	None	None
X	SNORA11D	ENSG00000221475	ENST00000408548	snoRNA	KNOWN	None	33622	None	None	51933717	51933844	1	None	None
17	None	ENSG00000266718	ENST00000581360	antisense	KNOWN	None	None	None	None	30822554	30826351	1	None	None
1	MIR181A1HG	ENSG00000229989	ENST00000412162	lincRNA	KNOWN	None	48659	None	None	198776622	198796345	-1	None	None
1	MIR181A1HG	ENSG00000229989	ENST00000432296	lincRNA	KNOWN	None	48659	None	None	198776787	198906539	-1	None	None
1	MIR181A1HG	ENSG00000229989	ENST00000436880	retained_intron	KNOWN	None	48659	None	None	198867595	198906558	-1	None	None
1	None	ENSG00000227735	ENST00000415043	processed_pseudogene	KNOWN	None	None	None	None	244761693	244761989	-1	None	None
12	None	ENSG00000239033	ENST00000458765	snoRNA	NOVEL	None	None	None	None	31603104	31603207	1	None	None
HG104_HG975_PATCH	ZNF707	ENSG00000261516	ENST00000561901	retained_intron	KNOWN	None	27815	None	None	144766622	144773644	1	None	None
HG104_HG975_PATCH	ZNF707	ENSG00000261516	ENST00000563401	nonsense_mediated_decay	KNOWN	None	27815	168	55	144766622	144776000	1	None	None
HG104_HG975_PATCH	ZNF707	ENSG00000261516	ENST00000564532	protein_coding	KNOWN	None	27815	425	140	144766623	144776009	1	None	None
HG104_HG975_PATCH	ZNF707	ENSG00000261516	ENST00000568639	nonsense_mediated_decay	KNOWN	None	27815	168	55	144766626	144777526	1	None	None
HG104_HG975_PATCH	ZNF707	ENSG00000261516	ENST00000567611	retained_intron	KNOWN	None	27815	None	None	144766632	144772589	1	None	None
HG104_HG975_PATCH	ZNF707	ENSG00000261516	ENST00000563828	nonsense_mediated_decay	KNOWN	None	27815	279	92	144766632	144775942	1	None	None
HG104_HG975_PATCH	ZNF707	ENSG00000261516	ENST00000562279	protein_coding	KNOWN	None	27815	237	78	144766643	144773864	1	None	None
HG104_HG975_PATCH	ZNF707	ENSG00000261516	ENST00000566731	protein_coding	PUTATIVE	None	27815	403	133	144766643	144775997	1	None	None
HG104_HG975_PATCH	ZNF707	ENSG00000261516	ENST00000564005	nonsense_mediated_decay	KNOWN	None	27815	168	55	144766649	144775893	1	None	None
HG104_HG975_PATCH	ZNF707	ENSG00000261516	ENST00000563154	nonsense_mediated_decay	KNOWN	None	27815	168	55	144766649	144775926	1	None	None
HG104_HG975_PATCH	ZNF707	ENSG00000261516	ENST00000568518	retained_intron	KNOWN	None	27815	None	None	144766651	144773563	1	None	None
HG104_HG975_PATCH	ZNF707	ENSG00000261516	ENST00000565515	nonsense_mediated_decay	KNOWN	None	27815	168	55	144766651	144773870	1	None	None
HG104_HG975_PATCH	ZNF707	ENSG00000261516	ENST00000567522	retained_intron	KNOWN	None	27815	None	None	144766651	144774084	1	None	None
HG104_HG975_PATCH	ZNF707	ENSG00000261516	ENST00000567310	protein_coding	KNOWN	None	27815	1116	371	144766651	144777555	1	None	None
HG104_HG975_PATCH	ZNF707	ENSG00000261516	ENST00000569701	processed_transcript	KNOWN	None	27815	None	None	144766652	144772269	1	None	None
HG104_HG975_PATCH	ZNF707	ENSG00000261516	ENST00000568889	retained_intron	KNOWN	None	27815	None	None	144766652	144773981	1	None	None
HG104_HG975_PATCH	ZNF707	ENSG00000261516	ENST00000569171	processed_transcript	KNOWN	None	27815	None	None	144766653	144775918	1	None	None
HG104_HG975_PATCH	ZNF707	ENSG00000261516	ENST00000569568	retained_intron	KNOWN	None	27815	None	None	144766654	144777554	1	None	None
HG104_HG975_PATCH	ZNF707	ENSG00000261516	ENST00000564362	processed_transcript	KNOWN	None	27815	None	None	144766654	144794907	1	None	None
HG104_HG975_PATCH	ZNF707	ENSG00000261516	ENST00000567354	protein_coding	KNOWN	None	27815	142	46	144766657	144773369	1	None	None
HG104_HG975_PATCH	ZNF707	ENSG00000261516	ENST00000563379	protein_coding	KNOWN	None	27815	1116	371	144766662	144777527	1	None	None
HG104_HG975_PATCH	ZNF707	ENSG00000261516	ENST00000569836	retained_intron	KNOWN	None	27815	None	None	144766675	144773596	1	None	None
HG104_HG975_PATCH	ZNF707	ENSG00000261516	ENST00000566921	nonsense_mediated_decay	KNOWN	None	27815	312	103	144766677	144775873	1	None	None
HG104_HG975_PATCH	ZNF707	ENSG00000261516	ENST00000566516	protein_coding	PUTATIVE	None	27815	437	144	144766678	144776129	1	None	None
HG104_HG975_PATCH	ZNF707	ENSG00000261516	ENST00000568259	protein_coding	KNOWN	None	27815	1116	371	144766678	144777550	1	None	None
HG104_HG975_PATCH	ZNF707	ENSG00000261516	ENST00000566022	processed_transcript	KNOWN	None	27815	None	None	144766680	144775881	1	None	None
HG104_HG975_PATCH	ZNF707	ENSG00000261516	ENST00000569822	retained_intron	KNOWN	None	27815	None	None	144773685	144776199	1	None	None
HG104_HG975_PATCH	ZNF707	ENSG00000261516	ENST00000563008	processed_transcript	KNOWN	None	27815	None	None	144790221	144796068	1	None	None
14	None	ENSG00000258651	ENST00000557350	lincRNA	KNOWN	None	None	None	None	39572344	39573016	1	None	None
7	None	ENSG00000271344	ENST00000605007	lincRNA	KNOWN	None	None	None	None	128330505	128331771	1	None	None
2	None	ENSG00000269000	ENST00000596204	protein_coding	NOVEL	None	None	45	14	107099728	107103848	-1	None	None
X	None	ENSG00000225957	ENST00000438584	unprocessed_pseudogene	KNOWN	None	None	None	None	52125196	52128757	1	None	None
10	P4HA1	ENSG00000122884	ENST00000307116	protein_coding	KNOWN	None	8546	1605	534	74766975	74856608	-1	P4HA	C-P4Halpha(I)
10	P4HA1	ENSG00000122884	ENST00000373008	protein_coding	KNOWN	None	8546	1605	534	74766975	74856608	-1	P4HA	C-P4Halpha(I)
10	P4HA1	ENSG00000122884	ENST00000464310	retained_intron	KNOWN	None	8546	None	None	74769398	74776619	-1	P4HA	C-P4Halpha(I)
10	P4HA1	ENSG00000122884	ENST00000412021	protein_coding	KNOWN	CCDS41537	8546	1605	534	74766982	74856732	-1	P4HA	C-P4Halpha(I)
10	P4HA1	ENSG00000122884	ENST00000394890	protein_coding	KNOWN	CCDS41537	8546	1605	534	74766982	74856732	-1	P4HA	C-P4Halpha(I)
10	P4HA1	ENSG00000122884	ENST00000263556	protein_coding	KNOWN	CCDS7320	8546	1605	534	74766982	74856732	-1	P4HA	C-P4Halpha(I)
10	P4HA1	ENSG00000122884	ENST00000440381	protein_coding	KNOWN	CCDS44432	8546	1551	516	74766982	74856732	-1	P4HA	C-P4Halpha(I)
3	UNC93B3	ENSG00000172971	ENST00000308076	unprocessed_pseudogene	KNOWN	None	13483	None	None	75668657	75673000	-1	None	UNC93B3P
8	None	ENSG00000240519	ENST00000486251	processed_pseudogene	KNOWN	None	None	None	None	26629307	26629657	1	None	None
2	MTND4P28	ENSG00000233709	ENST00000426217	processed_pseudogene	KNOWN	None	42215	None	None	156167535	156167921	1	None	None
17	None	ENSG00000271029	ENST00000605314	processed_pseudogene	KNOWN	None	None	None	None	8199823	8200534	-1	None	None
7	GNA12	ENSG00000146535	ENST00000275364	protein_coding	KNOWN	CCDS5335	4380	1146	381	2767746	2883958	-1	None	gep
7	GNA12	ENSG00000146535	ENST00000491117	processed_transcript	KNOWN	None	4380	None	None	2768195	2802843	-1	None	gep
7	GNA12	ENSG00000146535	ENST00000407904	protein_coding	PUTATIVE	None	4380	969	322	2768195	2854893	-1	None	gep
7	GNA12	ENSG00000146535	ENST00000407653	protein_coding	PUTATIVE	None	4380	918	305	2768200	2802774	-1	None	gep
7	GNA12	ENSG00000146535	ENST00000496740	processed_transcript	KNOWN	None	4380	None	None	2769458	2802961	-1	None	gep
7	GNA12	ENSG00000146535	ENST00000471281	processed_transcript	KNOWN	None	4380	None	None	2770657	2834779	-1	None	gep
7	GNA12	ENSG00000146535	ENST00000485329	processed_transcript	KNOWN	None	4380	None	None	2770985	2800086	-1	None	gep
7	GNA12	ENSG00000146535	ENST00000447791	protein_coding	PUTATIVE	None	4380	231	76	2834601	2854892	-1	None	gep
7	GNA12	ENSG00000146535	ENST00000544127	protein_coding	KNOWN	None	4380	867	288	2770448	2883650	-1	None	gep
7	GNA12	ENSG00000146535	ENST00000396960	protein_coding	KNOWN	None	4380	702	233	2768200	2802774	-1	None	gep
1	None	ENSG00000232059	ENST00000595491	processed_pseudogene	KNOWN	None	None	None	None	244857734	244858022	-1	None	None
1	None	ENSG00000232059	ENST00000416174	processed_pseudogene	KNOWN	None	None	None	None	244857732	244858022	-1	None	None
13	GPC6-AS2	ENSG00000224394	ENST00000445540	antisense	KNOWN	None	39910	None	None	94470677	94488397	-1	None	None
17	None	ENSG00000265222	ENST00000578408	sense_intronic	KNOWN	None	None	None	None	30836972	30850442	-1	None	None
8	None	ENSG00000237215	ENST00000526803	unprocessed_pseudogene	KNOWN	None	None	None	None	12147580	12153689	-1	None	None
7	MRPS33	ENSG00000090263	ENST00000393008	protein_coding	KNOWN	CCDS5864	16634	321	106	140705854	140714479	-1	None	CGI-139
7	MRPS33	ENSG00000090263	ENST00000324787	protein_coding	KNOWN	CCDS5864	16634	321	106	140705961	140714783	-1	None	CGI-139
7	MRPS33	ENSG00000090263	ENST00000472343	processed_transcript	PUTATIVE	None	16634	None	None	140705968	140709894	-1	None	CGI-139
7	MRPS33	ENSG00000090263	ENST00000496958	protein_coding	KNOWN	CCDS5864	16634	321	106	140705968	140714229	-1	None	CGI-139
7	MRPS33	ENSG00000090263	ENST00000484502	processed_transcript	PUTATIVE	None	16634	None	None	140705968	140714448	-1	None	CGI-139
7	MRPS33	ENSG00000090263	ENST00000469351	protein_coding	KNOWN	CCDS5864	16634	321	106	140705968	140715028	-1	None	CGI-139
7	MRPS33	ENSG00000090263	ENST00000467334	protein_coding	PUTATIVE	None	16634	291	96	140705969	140714766	-1	None	CGI-139
7	MRPS33	ENSG00000090263	ENST00000496641	retained_intron	KNOWN	None	16634	None	None	140709959	140714749	-1	None	CGI-139
7	MRPS33	ENSG00000090263	ENST00000485202	retained_intron	KNOWN	None	16634	None	None	140710028	140714452	-1	None	CGI-139
11	None	ENSG00000255317	ENST00000531585	lincRNA	KNOWN	None	None	None	None	126862348	126865354	1	None	None
11	None	ENSG00000230087	ENST00000450768	processed_pseudogene	KNOWN	None	None	None	None	5375922	5376808	1	None	None
1	ATP6V1E1P1	ENSG00000225099	ENST00000439215	processed_pseudogene	KNOWN	None	859	None	None	43368903	43369583	1	ATP6EP1, ATP6V1EP1	None
17	None	ENSG00000226871	ENST00000458568	antisense	KNOWN	None	None	None	None	8221406	8222030	-1	None	None
2	MTND5P30	ENSG00000233039	ENST00000452896	processed_pseudogene	KNOWN	None	42292	None	None	156168209	156169939	1	None	None
X	SRD5A1P1	ENSG00000232549	ENST00000442297	processed_pseudogene	KNOWN	None	11286	None	None	138529050	138529835	1	SRD5AP1	None
17	None	ENSG00000263004	ENST00000576871	lincRNA	KNOWN	None	None	None	None	55155659	55162383	-1	None	None
17	None	ENSG00000263004	ENST00000576313	lincRNA	KNOWN	None	None	None	None	55156508	55162385	-1	None	None
17	None	ENSG00000263717	ENST00000583156	sense_intronic	KNOWN	None	None	None	None	30839887	30846368	-1	None	None
1	None	ENSG00000269501	ENST00000417986	processed_transcript	KNOWN	None	None	None	None	149575482	149615903	1	None	None
1	None	ENSG00000269501	ENST00000593370	processed_transcript	KNOWN	None	None	None	None	149576149	149577802	1	None	None
1	None	ENSG00000269501	ENST00000434047	processed_transcript	KNOWN	None	None	None	None	149576181	149615975	1	None	None
1	None	ENSG00000269501	ENST00000444581	retained_intron	KNOWN	None	None	None	None	149576450	149616783	1	None	None
1	None	ENSG00000269501	ENST00000455295	processed_transcript	KNOWN	None	None	None	None	149576472	149591238	1	None	None
1	None	ENSG00000269501	ENST00000453293	processed_transcript	KNOWN	None	None	None	None	149576491	149581061	1	None	None
1	None	ENSG00000269501	ENST00000443884	processed_transcript	KNOWN	None	None	None	None	149576555	149616786	1	None	None
1	None	ENSG00000269501	ENST00000452356	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	149576613	149577662	1	None	None
1	None	ENSG00000269501	ENST00000419105	processed_transcript	KNOWN	None	None	None	None	149576633	149592306	1	None	None
1	None	ENSG00000269501	ENST00000594630	processed_transcript	KNOWN	None	None	None	None	149576911	149581550	1	None	None
1	None	ENSG00000269501	ENST00000598569	processed_transcript	KNOWN	None	None	None	None	149580524	149582604	1	None	None
1	None	ENSG00000269501	ENST00000457991	processed_transcript	KNOWN	None	None	None	None	149605701	149616657	1	None	None
2	None	ENSG00000204929	ENST00000606978	lincRNA	KNOWN	None	None	None	None	65663845	66299755	1	None	None
2	None	ENSG00000204929	ENST00000377977	lincRNA	KNOWN	None	None	None	None	65663864	65919319	1	None	None
2	None	ENSG00000204929	ENST00000414811	lincRNA	KNOWN	None	None	None	None	65958809	65997238	1	None	None
2	None	ENSG00000204929	ENST00000441506	lincRNA	KNOWN	None	None	None	None	65960027	65982045	1	None	None
2	None	ENSG00000204929	ENST00000412986	lincRNA	KNOWN	None	None	None	None	66124756	66126649	1	None	None
2	None	ENSG00000204929	ENST00000606556	lincRNA	KNOWN	None	None	None	None	66149063	66311773	1	None	None
2	None	ENSG00000204929	ENST00000607539	lincRNA	KNOWN	None	None	None	None	66305592	66311772	1	None	None
2	None	ENSG00000204929	ENST00000536804	lincRNA	KNOWN	None	None	None	None	65663864	65710280	1	None	None
14	None	ENSG00000258591	ENST00000556877	processed_pseudogene	KNOWN	None	None	None	None	39577546	39577911	1	None	None
2	None	ENSG00000216112	ENST00000401293	miRNA	NOVEL	None	None	None	None	98913401	98913488	1	None	None
11	NAV2-IT1	ENSG00000255270	ENST00000528204	sense_intronic	KNOWN	None	41416	None	None	19402031	19406561	1	None	None
1	MIR181B1	ENSG00000207975	ENST00000385240	miRNA	KNOWN	None	31550	None	None	198828002	198828111	-1	MIRN181B1	hsa-mir-181b-1
22	SH3BP1	ENSG00000100092	ENST00000417536	nonsense_mediated_decay	KNOWN	None	10824	1359	452	38030661	38052049	1	None	ARHGAP43
22	SH3BP1	ENSG00000100092	ENST00000357436	protein_coding	KNOWN	CCDS13952	10824	2106	701	38035482	38052124	1	None	ARHGAP43
22	SH3BP1	ENSG00000100092	ENST00000451997	nonsense_mediated_decay	KNOWN	None	10824	63	20	38035700	38062939	1	None	ARHGAP43
22	SH3BP1	ENSG00000100092	ENST00000469947	retained_intron	KNOWN	None	10824	None	None	38036393	38052048	1	None	ARHGAP43
22	SH3BP1	ENSG00000100092	ENST00000495174	processed_transcript	KNOWN	None	10824	None	None	38037389	38043298	1	None	ARHGAP43
22	SH3BP1	ENSG00000100092	ENST00000471650	retained_intron	KNOWN	None	10824	None	None	38039462	38043513	1	None	ARHGAP43
22	SH3BP1	ENSG00000100092	ENST00000459646	retained_intron	KNOWN	None	10824	None	None	38039721	38041062	1	None	ARHGAP43
22	SH3BP1	ENSG00000100092	ENST00000466097	retained_intron	KNOWN	None	10824	None	None	38042775	38046785	1	None	ARHGAP43
22	SH3BP1	ENSG00000100092	ENST00000442465	protein_coding	KNOWN	None	10824	1482	493	38035702	38046621	1	None	ARHGAP43
22	SH3BP1	ENSG00000100092	ENST00000336738	protein_coding	KNOWN	None	10824	1359	452	38035684	38046135	1	None	ARHGAP43
22	SH3BP1	ENSG00000100092	ENST00000599616	protein_coding	KNOWN	None	10824	1818	605	38037471	38062939	1	None	ARHGAP43
15	DNM1P31	ENSG00000261491	ENST00000564149	unprocessed_pseudogene	KNOWN	None	35178	None	None	32677138	32679685	1	DNM1DN4@	DNM1DN4-2
X	IDH3G	ENSG00000067829	ENST00000370092	protein_coding	NOVEL	CCDS44019	5386	1143	380	153051221	153059967	-1	None	None
X	IDH3G	ENSG00000067829	ENST00000217901	protein_coding	KNOWN	CCDS14730	5386	1182	393	153051221	153059978	-1	None	None
X	IDH3G	ENSG00000067829	ENST00000454076	protein_coding	NOVEL	None	5386	634	210	153051222	153053008	-1	None	None
X	IDH3G	ENSG00000067829	ENST00000424541	protein_coding	PUTATIVE	None	5386	467	154	153051222	153053024	-1	None	None
X	IDH3G	ENSG00000067829	ENST00000370093	protein_coding	PUTATIVE	None	5386	1023	340	153051222	153059836	-1	None	None
X	IDH3G	ENSG00000067829	ENST00000490525	processed_transcript	KNOWN	None	5386	None	None	153051224	153055690	-1	None	None
X	IDH3G	ENSG00000067829	ENST00000427365	protein_coding	PUTATIVE	None	5386	969	322	153051253	153059811	-1	None	None
X	IDH3G	ENSG00000067829	ENST00000479521	processed_transcript	KNOWN	None	5386	None	None	153051412	153055289	-1	None	None
X	IDH3G	ENSG00000067829	ENST00000444450	protein_coding	PUTATIVE	None	5386	855	284	153052256	153059814	-1	None	None
X	IDH3G	ENSG00000067829	ENST00000444338	protein_coding	PUTATIVE	None	5386	597	198	153052506	153055245	-1	None	None
X	IDH3G	ENSG00000067829	ENST00000497043	processed_transcript	KNOWN	None	5386	None	None	153052582	153059811	-1	None	None
X	IDH3G	ENSG00000067829	ENST00000495356	processed_transcript	KNOWN	None	5386	None	None	153052846	153059790	-1	None	None
X	IDH3G	ENSG00000067829	ENST00000461215	processed_transcript	KNOWN	None	5386	None	None	153055166	153059801	-1	None	None
X	IDH3G	ENSG00000067829	ENST00000491235	processed_transcript	KNOWN	None	5386	None	None	153055293	153059780	-1	None	None
2	None	ENSG00000227987	ENST00000413274	sense_intronic	KNOWN	None	None	None	None	98963458	98967603	1	None	None
17	None	ENSG00000266599	ENST00000584219	antisense	KNOWN	None	None	None	None	30845971	30858510	1	None	None
12	TESC	ENSG00000088992	ENST00000470612	nonsense_mediated_decay	KNOWN	None	26065	492	163	117476728	117537284	-1	None	TSC, FLJ20607, CHP3
12	TESC	ENSG00000088992	ENST00000335209	protein_coding	KNOWN	CCDS9183	26065	645	214	117476729	117537274	-1	None	TSC, FLJ20607, CHP3
12	TESC	ENSG00000088992	ENST00000549210	protein_coding	NOVEL	None	26065	246	81	117476762	117484636	-1	None	TSC, FLJ20607, CHP3
12	TESC	ENSG00000088992	ENST00000462502	nonsense_mediated_decay	KNOWN	None	26065	408	135	117484285	117537213	-1	None	TSC, FLJ20607, CHP3
12	TESC	ENSG00000088992	ENST00000535198	processed_transcript	KNOWN	None	26065	None	None	117484374	117491800	-1	None	TSC, FLJ20607, CHP3
12	TESC	ENSG00000088992	ENST00000482176	retained_intron	KNOWN	None	26065	None	None	117486603	117537236	-1	None	TSC, FLJ20607, CHP3
12	TESC	ENSG00000088992	ENST00000552139	processed_transcript	KNOWN	None	26065	None	None	117513102	117536460	-1	None	TSC, FLJ20607, CHP3
12	TESC	ENSG00000088992	ENST00000392545	protein_coding	KNOWN	None	26065	804	267	117476730	117537251	-1	None	TSC, FLJ20607, CHP3
12	TESC	ENSG00000088992	ENST00000541210	protein_coding	KNOWN	CCDS53835	26065	564	187	117476730	117537251	-1	None	TSC, FLJ20607, CHP3
7	None	ENSG00000239722	ENST00000489760	processed_pseudogene	KNOWN	None	None	None	None	128333504	128333978	1	None	None
19	LSM14A	ENSG00000257103	ENST00000589878	nonsense_mediated_decay	KNOWN	None	24489	309	102	34663409	34687571	1	C19orf13, FAM61A	DKFZP434D1335, RAP55A, RAP55
19	LSM14A	ENSG00000257103	ENST00000540746	protein_coding	NOVEL	None	24489	1269	422	34663430	34719001	1	C19orf13, FAM61A	DKFZP434D1335, RAP55A, RAP55
19	LSM14A	ENSG00000257103	ENST00000544216	protein_coding	KNOWN	CCDS12435	24489	1392	463	34663471	34720420	1	C19orf13, FAM61A	DKFZP434D1335, RAP55A, RAP55
19	LSM14A	ENSG00000257103	ENST00000433627	protein_coding	KNOWN	CCDS46040	24489	1392	463	34663473	34720193	1	C19orf13, FAM61A	DKFZP434D1335, RAP55A, RAP55
19	LSM14A	ENSG00000257103	ENST00000586157	protein_coding	NOVEL	None	24489	1001	332	34663563	34717369	1	C19orf13, FAM61A	DKFZP434D1335, RAP55A, RAP55
19	LSM14A	ENSG00000257103	ENST00000588582	retained_intron	KNOWN	None	24489	None	None	34699101	34720184	1	C19orf13, FAM61A	DKFZP434D1335, RAP55A, RAP55
19	LSM14A	ENSG00000257103	ENST00000585887	retained_intron	KNOWN	None	24489	None	None	34710611	34712684	1	C19orf13, FAM61A	DKFZP434D1335, RAP55A, RAP55
19	LSM14A	ENSG00000257103	ENST00000590416	retained_intron	KNOWN	None	24489	None	None	34712255	34718522	1	C19orf13, FAM61A	DKFZP434D1335, RAP55A, RAP55
17	None	ENSG00000263089	ENST00000576014	antisense	KNOWN	None	None	None	None	55169506	55173786	-1	None	None
1	MIR181A1	ENSG00000207759	ENST00000385026	miRNA	KNOWN	None	31590	None	None	198828173	198828282	-1	MIRN213, MIRN181A1	hsa-mir-213
12	None	ENSG00000203437	ENST00000366255	processed_pseudogene	KNOWN	None	None	None	None	31617996	31618776	1	None	None
1	SLC2A1-AS1	ENSG00000227533	ENST00000431759	lincRNA	KNOWN	None	44187	None	None	43424720	43449029	1	None	None
1	SLC2A1-AS1	ENSG00000227533	ENST00000416689	retained_intron	KNOWN	None	44187	None	None	43424775	43442099	1	None	None
2	MTND6P9	ENSG00000233248	ENST00000458075	processed_pseudogene	KNOWN	None	39472	None	None	156169952	156170470	-1	None	None
7	WBP1LP1	ENSG00000243661	ENST00000460451	processed_pseudogene	KNOWN	None	43948	None	None	142486452	142487347	-1	None	None
17	RN7SL437P	ENSG00000263902	ENST00000577587	misc_RNA	KNOWN	None	46453	None	None	55489272	55489562	-1	None	None
14	None	ENSG00000212270	ENST00000390968	snoRNA	NOVEL	None	None	None	None	26275854	26275918	-1	None	None
1	OR2AK2	ENSG00000187080	ENST00000366480	protein_coding	KNOWN	CCDS31102	19569	1008	335	248128535	248129641	1	OR2AK1P	None
1	HNRNPU-AS1	ENSG00000188206	ENST00000366527	retained_intron	KNOWN	None	27651	None	None	245003940	245010205	-1	C1orf199, NCRNA00201	FLJ37978, FLJ30202
1	HNRNPU-AS1	ENSG00000188206	ENST00000475997	antisense	KNOWN	None	27651	None	None	245008469	245018799	-1	C1orf199, NCRNA00201	FLJ37978, FLJ30202
1	HNRNPU-AS1	ENSG00000188206	ENST00000489705	antisense	KNOWN	None	27651	None	None	245008554	245017805	-1	C1orf199, NCRNA00201	FLJ37978, FLJ30202
1	None	ENSG00000227747	ENST00000436136	processed_pseudogene	KNOWN	None	None	None	None	198918145	198918934	1	None	None
2	YWHAQP5	ENSG00000236564	ENST00000415616	processed_pseudogene	KNOWN	None	37684	None	None	99310572	99311953	1	None	None
3	RN7SKP265	ENSG00000252257	ENST00000516448	misc_RNA	KNOWN	None	45989	None	None	181686247	181686469	1	None	None
22	TIMP3	ENSG00000100234	ENST00000266085	protein_coding	KNOWN	CCDS13911	11822	636	211	33197687	33259030	1	SFD	None
12	None	ENSG00000256159	ENST00000544433	processed_pseudogene	KNOWN	None	None	None	None	31630440	31630921	1	None	None
17	LGALS9C	ENSG00000171916	ENST00000581545	protein_coding	NOVEL	None	33874	741	246	18380051	18398132	1	None	None
17	LGALS9C	ENSG00000171916	ENST00000577691	nonsense_mediated_decay	KNOWN	None	33874	228	75	18380070	18398254	1	None	None
17	LGALS9C	ENSG00000171916	ENST00000582333	protein_coding	PUTATIVE	None	33874	525	174	18380079	18395851	1	None	None
17	LGALS9C	ENSG00000171916	ENST00000328114	protein_coding	KNOWN	CCDS32587	33874	1071	356	18380088	18398259	1	None	None
17	LGALS9C	ENSG00000171916	ENST00000579773	nonsense_mediated_decay	KNOWN	None	33874	108	35	18380098	18397748	1	None	None
17	LGALS9C	ENSG00000171916	ENST00000583322	protein_coding	KNOWN	None	33874	972	323	18380110	18398252	1	None	None
17	LGALS9C	ENSG00000171916	ENST00000584941	protein_coding	PUTATIVE	None	33874	705	234	18380112	18397955	1	None	None
17	LGALS9C	ENSG00000171916	ENST00000578983	processed_transcript	KNOWN	None	33874	None	None	18380113	18389706	1	None	None
17	LGALS9C	ENSG00000171916	ENST00000582928	retained_intron	KNOWN	None	33874	None	None	18380114	18387649	1	None	None
17	LGALS9C	ENSG00000171916	ENST00000580674	nonsense_mediated_decay	KNOWN	None	33874	228	75	18380114	18398240	1	None	None
17	LGALS9C	ENSG00000171916	ENST00000584170	retained_intron	KNOWN	None	33874	None	None	18389069	18392311	1	None	None
17	LGALS9C	ENSG00000171916	ENST00000578563	nonsense_mediated_decay	KNOWN	None	33874	162	53	18389366	18391071	1	None	None
17	LGALS9C	ENSG00000171916	ENST00000577265	retained_intron	KNOWN	None	33874	None	None	18392795	18398255	1	None	None
17	LGALS9C	ENSG00000171916	ENST00000584127	retained_intron	KNOWN	None	33874	None	None	18392856	18398254	1	None	None
17	LGALS9C	ENSG00000171916	ENST00000578450	retained_intron	KNOWN	None	33874	None	None	18395483	18396053	1	None	None
17	LGALS9C	ENSG00000171916	ENST00000412421	protein_coding	KNOWN	None	33874	807	268	18380098	18397748	1	None	None
17	None	ENSG00000266100	ENST00000577189	antisense	KNOWN	None	None	None	None	55599609	55600958	-1	None	None
14	None	ENSG00000257986	ENST00000546412	lincRNA	KNOWN	None	None	None	None	26305064	26612511	-1	None	None
11	None	ENSG00000236248	ENST00000445629	processed_pseudogene	KNOWN	None	None	None	None	5383845	5384079	1	None	None
8	COX6B1P4	ENSG00000253813	ENST00000519826	processed_pseudogene	KNOWN	None	2284	None	None	26693334	26693817	-1	COX6BP4	None
2	None	ENSG00000205334	ENST00000379677	protein_coding	PUTATIVE	None	None	585	194	27928653	27938599	-1	None	None
17	None	ENSG00000263499	ENST00000578662	antisense	KNOWN	None	None	None	None	55678217	55685773	-1	None	None
1	ATP1A2	ENSG00000018625	ENST00000472488	processed_transcript	KNOWN	None	800	None	None	160085549	160106992	1	MHP2	FHM2
1	ATP1A2	ENSG00000018625	ENST00000478587	processed_transcript	KNOWN	None	800	None	None	160085553	160091065	1	MHP2	FHM2
1	ATP1A2	ENSG00000018625	ENST00000361216	protein_coding	KNOWN	CCDS1196	800	3063	1020	160085563	160113381	1	MHP2	FHM2
1	ATP1A2	ENSG00000018625	ENST00000392233	protein_coding	KNOWN	None	800	3030	1009	160085567	160111335	1	MHP2	FHM2
1	ATP1A2	ENSG00000018625	ENST00000468587	processed_transcript	KNOWN	None	800	None	None	160093748	160095332	1	MHP2	FHM2
1	ATP1A2	ENSG00000018625	ENST00000447527	protein_coding	KNOWN	None	800	2144	713	160097462	160113381	1	MHP2	FHM2
1	ATP1A2	ENSG00000018625	ENST00000463989	processed_transcript	KNOWN	None	800	None	None	160106461	160109848	1	MHP2	FHM2
1	ATP1A2	ENSG00000018625	ENST00000459972	processed_transcript	KNOWN	None	800	None	None	160109749	160111567	1	MHP2	FHM2
11	RNA5SP335	ENSG00000200687	ENST00000363817	rRNA	KNOWN	None	43235	None	None	19423419	19423528	-1	RN5S335	None
X	None	ENSG00000216114	ENST00000401295	miRNA	NOVEL	None	None	None	None	138681375	138681462	-1	None	None
X	None	ENSG00000235244	ENST00000430756	processed_transcript	KNOWN	None	None	None	None	115032519	115085422	-1	None	None
11	KIRREL3-AS3	ENSG00000218109	ENST00000525678	antisense	KNOWN	None	26855	None	None	126872805	126875953	1	PRR10, NCRNA00288	FLJ40224
8	RNA5SP254	ENSG00000252535	ENST00000516726	rRNA	KNOWN	None	43154	None	None	12191153	12191202	-1	RN5S254	None
2	ST6GAL2	ENSG00000144057	ENST00000361686	protein_coding	KNOWN	CCDS2073	10861	1590	529	107418056	107503563	-1	SIAT2	KIAA1877, St6gal2, St6GalII
2	ST6GAL2	ENSG00000144057	ENST00000409382	protein_coding	KNOWN	CCDS2073	10861	1590	529	107418060	107503102	-1	SIAT2	KIAA1877, St6gal2, St6GalII
2	ST6GAL2	ENSG00000144057	ENST00000361803	protein_coding	KNOWN	None	10861	286	94	107418064	107446535	-1	SIAT2	KIAA1877, St6gal2, St6GalII
2	ST6GAL2	ENSG00000144057	ENST00000409087	protein_coding	KNOWN	CCDS46380	10861	1401	466	107429532	107503564	-1	SIAT2	KIAA1877, St6gal2, St6GalII
2	ST6GAL2	ENSG00000144057	ENST00000419159	protein_coding	KNOWN	None	10861	104	33	107460330	107502469	-1	SIAT2	KIAA1877, St6gal2, St6GalII
1	None	ENSG00000225172	ENST00000422480	lincRNA	KNOWN	None	None	None	None	198952450	198954330	1	None	None
1	None	ENSG00000225172	ENST00000440162	lincRNA	KNOWN	None	None	None	None	198952753	198954529	1	None	None
8	None	ENSG00000215288	ENST00000522530	processed_pseudogene	KNOWN	None	None	None	None	26868664	26869888	-1	None	None
7	RNA5SP242	ENSG00000201041	ENST00000364171	rRNA	KNOWN	None	43142	None	None	128337493	128337610	1	RN5S242	None
11	NAV2-AS5	ENSG00000255043	ENST00000528726	antisense	KNOWN	None	40740	None	None	19524219	19528776	-1	None	None
11	NAV2-AS5	ENSG00000255043	ENST00000530652	antisense	KNOWN	None	40740	None	None	19526438	19527447	-1	None	None
17	RN7SL449P	ENSG00000242889	ENST00000464937	misc_RNA	KNOWN	None	46465	None	None	55695469	55695759	1	None	None
12	None	ENSG00000201228	ENST00000364358	misc_RNA	NOVEL	None	None	None	None	31659237	31659338	-1	None	None
14	RN7SL108P	ENSG00000243546	ENST00000481903	misc_RNA	KNOWN	None	46124	None	None	68702962	68703256	-1	None	None
7	RNA5SP243	ENSG00000252866	ENST00000517057	rRNA	KNOWN	None	43143	None	None	128337764	128337798	1	RN5S243	None
X	FAM45B	ENSG00000221930	ENST00000592932	processed_transcript	KNOWN	None	30886	None	None	129628939	129630562	1	None	HT011
X	FAM45B	ENSG00000221930	ENST00000408950	transcribed_processed_pseudogene	KNOWN	None	30886	None	None	129629133	129630206	1	None	HT011
X	FAM45B	ENSG00000221930	ENST00000539800	pseudogene	KNOWN	None	30886	None	None	129629284	129630206	1	None	HT011
17	RNU7-134P	ENSG00000238447	ENST00000458997	snRNA	KNOWN	None	45668	None	None	55762890	55762953	-1	None	None
14	None	ENSG00000212037	ENST00000390748	miRNA	NOVEL	None	None	None	None	26641372	26641464	-1	None	None
3	None	ENSG00000243422	ENST00000492925	processed_pseudogene	KNOWN	None	None	None	None	75673837	75674304	-1	None	None
1	None	ENSG00000224870	ENST00000448629	protein_coding	PUTATIVE	None	None	414	137	1334902	1336467	1	None	None
1	None	ENSG00000224870	ENST00000444362	protein_coding	PUTATIVE	None	None	267	88	1334907	1337426	1	None	None
1	None	ENSG00000224870	ENST00000418833	retained_intron	KNOWN	None	None	None	None	1334910	1337406	1	None	None
1	None	ENSG00000224870	ENST00000576232	protein_coding	PUTATIVE	None	None	267	88	1334932	1335988	1	None	None
1	None	ENSG00000224870	ENST00000570344	protein_coding	PUTATIVE	None	None	278	91	1334942	1335924	1	None	None
1	None	ENSG00000224870	ENST00000447725	nonsense_mediated_decay	KNOWN	None	None	267	88	1334952	1337386	1	None	None
1	None	ENSG00000224870	ENST00000572242	retained_intron	KNOWN	None	None	None	None	1335186	1337413	1	None	None
1	None	ENSG00000224870	ENST00000453521	processed_transcript	KNOWN	None	None	None	None	1335799	1337426	1	None	None
1	RNU6-880P	ENSG00000207256	ENST00000384526	snRNA	KNOWN	None	47843	None	None	43457109	43457215	1	None	None
8	None	ENSG00000254981	ENST00000533301	antisense	KNOWN	None	None	None	None	38258054	38259201	-1	None	None
7	RN7SL81P	ENSG00000244218	ENST00000493781	misc_RNA	KNOWN	None	46097	None	None	128401391	128401625	1	None	None
X	RN7SL712P	ENSG00000266828	ENST00000579354	misc_RNA	KNOWN	None	46728	None	None	115108801	115109100	-1	None	None
17	None	ENSG00000265542	ENST00000581805	lincRNA	KNOWN	None	None	None	None	55849307	55911970	-1	None	None
17	None	ENSG00000265542	ENST00000580960	lincRNA	KNOWN	None	None	None	None	55849307	55912110	-1	None	None
1	RNU6-870P	ENSG00000252803	ENST00000516994	snRNA	KNOWN	None	47833	None	None	43489220	43489308	-1	None	None
12	None	ENSG00000225349	ENST00000452932	processed_pseudogene	KNOWN	None	None	None	None	31687649	31688181	-1	None	None
14	CYB5AP5	ENSG00000257503	ENST00000549779	processed_pseudogene	KNOWN	None	2576	None	None	26677242	26677630	1	CYB5P5	None
11	OR51K1P	ENSG00000248424	ENST00000510214	unprocessed_pseudogene	KNOWN	None	15202	None	None	5451883	5452832	-1	None	None
X	None	ENSG00000238485	ENST00000458890	snoRNA	NOVEL	None	None	None	None	138784446	138784549	-1	None	None
X	MIR767	ENSG00000211583	ENST00000390228	miRNA	KNOWN	None	33136	None	None	151561893	151562001	-1	MIRN767	hsa-mir-767
1	RNA5SP46	ENSG00000199240	ENST00000362370	rRNA	KNOWN	None	42822	None	None	43662088	43662207	1	RN5S46	None
7	None	ENSG00000224970	ENST00000438839	antisense	KNOWN	None	None	None	None	142573589	142590199	1	None	None
15	None	ENSG00000221444	ENST00000408517	miRNA	NOVEL	None	None	None	None	32685591	32685673	-1	None	None
1	None	ENSG00000234694	ENST00000424948	antisense	KNOWN	None	None	None	None	43820355	43824329	-1	None	None
2	None	ENSG00000226791	ENST00000419865	lincRNA	KNOWN	None	None	None	None	99378401	99388543	-1	None	None
17	RN7SKP94	ENSG00000222976	ENST00000411044	misc_RNA	KNOWN	None	45818	None	None	55866810	55867093	1	None	None
15	FAM92A1P1	ENSG00000157021	ENST00000528023	unprocessed_pseudogene	KNOWN	None	32278	None	None	41455360	41456572	1	FAM92A2	None
X	MAGEB2	ENSG00000099399	ENST00000378988	protein_coding	KNOWN	CCDS14219	6809	960	319	30233677	30238206	1	None	DAM6, MAGE-XP-2, MGC26438, CT3.2
X	RNU6ATAC23P	ENSG00000221375	ENST00000408448	snRNA	KNOWN	None	46922	None	None	138967640	138967762	1	None	None
3	MIR1324	ENSG00000221795	ENST00000408868	miRNA	KNOWN	None	35377	None	None	75679914	75680009	1	MIRN1324	hsa-mir-1324
13	LINC00297	ENSG00000224329	ENST00000453470	lincRNA	KNOWN	None	39210	None	None	30446750	30462542	-1	NCRNA00297	None
7	OR9P1P	ENSG00000239293	ENST00000496431	unprocessed_pseudogene	KNOWN	None	15097	None	None	142744314	142744681	-1	OR9P2P	None
1	None	ENSG00000233410	ENST00000427439	lincRNA	KNOWN	None	None	None	None	198975169	198990166	-1	None	None
19	PSENEN	ENSG00000205155	ENST00000587708	protein_coding	KNOWN	CCDS12474	30100	306	101	36236015	36237911	1	None	PEN2
19	PSENEN	ENSG00000205155	ENST00000591949	protein_coding	PUTATIVE	None	30100	294	97	36236501	36237894	1	None	PEN2
19	PSENEN	ENSG00000205155	ENST00000222266	protein_coding	KNOWN	CCDS12474	30100	306	101	36236520	36237905	1	None	PEN2
19	KLK3	ENSG00000142515	ENST00000601503	protein_coding	NOVEL	None	6364	518	171	51358171	51361796	1	APS	PSA
19	KLK3	ENSG00000142515	ENST00000596185	nonsense_mediated_decay	KNOWN	None	6364	315	104	51358171	51363263	1	APS	PSA
19	KLK3	ENSG00000142515	ENST00000326003	protein_coding	KNOWN	CCDS12807	6364	786	261	51358171	51364019	1	APS	PSA
19	KLK3	ENSG00000142515	ENST00000422986	nonsense_mediated_decay	KNOWN	None	6364	273	90	51358171	51364020	1	APS	PSA
19	KLK3	ENSG00000142515	ENST00000601349	retained_intron	KNOWN	None	6364	None	None	51358171	51364020	1	APS	PSA
19	KLK3	ENSG00000142515	ENST00000595151	retained_intron	KNOWN	None	6364	None	None	51358177	51359985	1	APS	PSA
19	KLK3	ENSG00000142515	ENST00000597286	protein_coding	PUTATIVE	None	6364	517	171	51358177	51361849	1	APS	PSA
19	KLK3	ENSG00000142515	ENST00000596333	retained_intron	KNOWN	None	6364	None	None	51358177	51364018	1	APS	PSA
19	KLK3	ENSG00000142515	ENST00000597483	protein_coding	NOVEL	None	6364	588	195	51358186	51363068	1	APS	PSA
19	KLK3	ENSG00000142515	ENST00000593997	protein_coding	PUTATIVE	None	6364	684	227	51358191	51362235	1	APS	PSA
19	KLK3	ENSG00000142515	ENST00000595392	nonsense_mediated_decay	KNOWN	None	6364	375	124	51358191	51363534	1	APS	PSA
19	KLK3	ENSG00000142515	ENST00000595952	protein_coding	KNOWN	CCDS46155	6364	657	218	51358205	51363688	1	APS	PSA
19	KLK3	ENSG00000142515	ENST00000360617	protein_coding	KNOWN	CCDS33083	6364	717	238	51358212	51363819	1	APS	PSA
19	KLK3	ENSG00000142515	ENST00000598145	protein_coding	NOVEL	None	6364	788	261	51358228	51363460	1	APS	PSA
19	KLK3	ENSG00000142515	ENST00000601812	retained_intron	KNOWN	None	6364	None	None	51360647	51363386	1	APS	PSA
17	None	ENSG00000264914	ENST00000579285	antisense	KNOWN	None	None	None	None	55989694	55999942	1	None	None
17	None	ENSG00000264914	ENST00000580184	antisense	KNOWN	None	None	None	None	55989725	55992500	1	None	None
15	RN7SL185P	ENSG00000241459	ENST00000492212	misc_RNA	KNOWN	None	46201	None	None	32686547	32686825	-1	None	None
1	RN7SKP55	ENSG00000201758	ENST00000364888	misc_RNA	KNOWN	None	45779	None	None	245107212	245107518	1	None	None
X	AKR1B1P8	ENSG00000231371	ENST00000418396	processed_pseudogene	KNOWN	None	33496	None	None	115174736	115175671	1	None	None
11	NAV2-AS4	ENSG00000254622	ENST00000532874	antisense	KNOWN	None	40741	None	None	19532437	19541443	-1	None	None
8	MIR548H4	ENSG00000221616	ENST00000408689	miRNA	KNOWN	None	35345	None	None	26906370	26906480	-1	MIRN548H4	hsa-mir-548h-4
1	RNU6-947P	ENSG00000252073	ENST00000516264	snRNA	KNOWN	None	47910	None	None	245118160	245118265	1	None	None
3	None	ENSG00000240478	ENST00000462382	lincRNA	KNOWN	None	None	None	None	181839672	181859925	1	None	None
8	DEFB108P4	ENSG00000254623	ENST00000524692	unprocessed_pseudogene	KNOWN	None	30174	None	None	12198935	12203285	-1	None	None
1	None	ENSG00000229431	ENST00000436713	antisense	KNOWN	None	None	None	None	43850784	43854826	1	None	None
1	RNU6-1089P	ENSG00000252282	ENST00000516473	snRNA	KNOWN	None	48052	None	None	245186317	245186420	1	None	None
X	None	ENSG00000252719	ENST00000516910	snoRNA	NOVEL	None	None	None	None	138992063	138992193	1	None	None
2	RNU4-84P	ENSG00000201070	ENST00000364200	snRNA	KNOWN	None	47020	None	None	99398873	99399011	1	None	None
1	None	ENSG00000231999	ENST00000443562	antisense	KNOWN	None	None	None	None	90048800	90097750	-1	None	None
1	None	ENSG00000231999	ENST00000415584	antisense	KNOWN	None	None	None	None	90090409	90098453	-1	None	None
1	None	ENSG00000231999	ENST00000526694	antisense	KNOWN	None	None	None	None	90091820	90098306	-1	None	None
1	None	ENSG00000231999	ENST00000528692	antisense	KNOWN	None	None	None	None	90097435	90098320	-1	None	None
1	OR2L5	ENSG00000197454	ENST00000355281	protein_coding	KNOWN	CCDS58068	15011	939	312	248185250	248186188	1	OR2L11, OR2L5P	None
16	TNRC6A	ENSG00000090905	ENST00000315183	protein_coding	KNOWN	None	11969	5742	1913	24741016	24837542	1	TNRC6	CAGH26, KIAA1460, GW182
16	TNRC6A	ENSG00000090905	ENST00000562829	processed_transcript	KNOWN	None	11969	None	None	24741034	24788348	1	TNRC6	CAGH26, KIAA1460, GW182
16	TNRC6A	ENSG00000090905	ENST00000395799	protein_coding	KNOWN	CCDS10624	11969	5889	1962	24741034	24837548	1	TNRC6	CAGH26, KIAA1460, GW182
16	TNRC6A	ENSG00000090905	ENST00000491718	nonsense_mediated_decay	KNOWN	None	11969	122	39	24788569	24837548	1	TNRC6	CAGH26, KIAA1460, GW182
16	TNRC6A	ENSG00000090905	ENST00000450465	protein_coding	NOVEL	None	11969	2721	906	24802808	24836107	1	TNRC6	CAGH26, KIAA1460, GW182
16	TNRC6A	ENSG00000090905	ENST00000568903	retained_intron	KNOWN	None	11969	None	None	24803011	24807689	1	TNRC6	CAGH26, KIAA1460, GW182
16	TNRC6A	ENSG00000090905	ENST00000567232	retained_intron	KNOWN	None	11969	None	None	24804671	24808824	1	TNRC6	CAGH26, KIAA1460, GW182
16	TNRC6A	ENSG00000090905	ENST00000561726	retained_intron	KNOWN	None	11969	None	None	24806965	24815611	1	TNRC6	CAGH26, KIAA1460, GW182
16	TNRC6A	ENSG00000090905	ENST00000568806	retained_intron	KNOWN	None	11969	None	None	24808807	24809448	1	TNRC6	CAGH26, KIAA1460, GW182
16	TNRC6A	ENSG00000090905	ENST00000477487	retained_intron	KNOWN	None	11969	None	None	24815243	24827668	1	TNRC6	CAGH26, KIAA1460, GW182
16	TNRC6A	ENSG00000090905	ENST00000462400	retained_intron	KNOWN	None	11969	None	None	24815655	24827649	1	TNRC6	CAGH26, KIAA1460, GW182
16	TNRC6A	ENSG00000090905	ENST00000568750	protein_coding	NOVEL	None	11969	609	202	24816021	24818075	1	TNRC6	CAGH26, KIAA1460, GW182
16	TNRC6A	ENSG00000090905	ENST00000563201	retained_intron	KNOWN	None	11969	None	None	24817990	24820830	1	TNRC6	CAGH26, KIAA1460, GW182
16	TNRC6A	ENSG00000090905	ENST00000569376	nonsense_mediated_decay	KNOWN	None	11969	290	95	24818040	24831501	1	TNRC6	CAGH26, KIAA1460, GW182
16	TNRC6A	ENSG00000090905	ENST00000569634	retained_intron	KNOWN	None	11969	None	None	24827906	24831531	1	TNRC6	CAGH26, KIAA1460, GW182
16	TNRC6A	ENSG00000090905	ENST00000569098	protein_coding	PUTATIVE	None	11969	483	160	24830000	24838953	1	TNRC6	CAGH26, KIAA1460, GW182
16	TNRC6A	ENSG00000090905	ENST00000464539	retained_intron	KNOWN	None	11969	None	None	24833111	24836107	1	TNRC6	CAGH26, KIAA1460, GW182
16	TNRC6A	ENSG00000090905	ENST00000432286	protein_coding	KNOWN	None	11969	1323	440	24820692	24836780	1	TNRC6	CAGH26, KIAA1460, GW182
13	LINC00572	ENSG00000224405	ENST00000450264	antisense	KNOWN	None	43722	None	None	30492784	30500788	-1	None	None
14	None	ENSG00000240210	ENST00000473054	processed_pseudogene	KNOWN	None	None	None	None	68805445	68806245	-1	None	None
14	None	ENSG00000240210	ENST00000538462	processed_pseudogene	KNOWN	None	None	None	None	68805464	68806258	-1	None	None
1	RNU6-999P	ENSG00000251754	ENST00000515945	snRNA	KNOWN	None	47962	None	None	245207230	245207334	1	None	None
1	None	ENSG00000235492	ENST00000432488	lincRNA	KNOWN	None	None	None	None	198985262	199045864	1	None	None
2	RNU7-46P	ENSG00000238830	ENST00000459066	snRNA	KNOWN	None	34142	None	None	99457138	99457199	-1	None	U7.46
14	None	ENSG00000262119	ENST00000572358	sense_intronic	KNOWN	None	None	None	None	27061953	27063723	-1	None	None
17	None	ENSG00000264112	ENST00000582096	lincRNA	KNOWN	None	None	None	None	56066400	56068882	-1	None	None
17	None	ENSG00000264112	ENST00000577267	lincRNA	KNOWN	None	None	None	None	56066403	56070840	-1	None	None
17	None	ENSG00000264112	ENST00000585065	lincRNA	KNOWN	None	None	None	None	56066405	56072211	-1	None	None
15	None	ENSG00000215304	ENST00000562108	processed_transcript	KNOWN	None	None	None	None	32691157	32727434	-1	None	None
1	SZT2-AS1	ENSG00000229372	ENST00000396885	antisense	KNOWN	None	41225	None	None	43913447	43914315	-1	None	None
1	None	ENSG00000223353	ENST00000412257	processed_pseudogene	KNOWN	None	None	None	None	245286773	245287752	-1	None	None
2	None	ENSG00000231822	ENST00000424783	processed_pseudogene	KNOWN	None	None	None	None	99718481	99719215	1	None	None
2	MRPL33	ENSG00000243147	ENST00000379666	protein_coding	KNOWN	CCDS33167	14487	165	54	27994584	28002601	1	C2orf1	RPL33L
2	MRPL33	ENSG00000243147	ENST00000296102	protein_coding	KNOWN	CCDS1761	14487	198	65	27994584	28002608	1	C2orf1	RPL33L
2	MRPL33	ENSG00000243147	ENST00000448427	nonsense_mediated_decay	KNOWN	None	14487	210	69	27994606	28210954	1	C2orf1	RPL33L
2	MRPL33	ENSG00000243147	ENST00000472192	retained_intron	KNOWN	None	14487	None	None	27994611	27995722	1	C2orf1	RPL33L
2	MRPL33	ENSG00000243147	ENST00000483992	processed_transcript	KNOWN	None	14487	None	None	27994842	28002598	1	C2orf1	RPL33L
2	MRPL33	ENSG00000243147	ENST00000476552	processed_transcript	KNOWN	None	14487	None	None	27995057	28002564	1	C2orf1	RPL33L
1	None	ENSG00000231718	ENST00000452199	lincRNA	KNOWN	None	None	None	None	199117726	199362435	1	None	None
X	API5P1	ENSG00000234558	ENST00000424316	processed_pseudogene	KNOWN	None	595	None	None	115238174	115239683	-1	API5L1	None
7	OR6W1P	ENSG00000179420	ENST00000496192	processed_transcript	KNOWN	None	15091	None	None	142759427	142760526	-1	OR6W1	sdolf
7	OR6W1P	ENSG00000179420	ENST00000490285	transcribed_unprocessed_pseudogene	KNOWN	None	15091	None	None	142759427	142760682	-1	OR6W1	sdolf
7	OR6W1P	ENSG00000179420	ENST00000378175	unprocessed_pseudogene	KNOWN	None	15091	None	None	142759581	142760682	-1	OR6W1	sdolf
7	OR6W1P	ENSG00000179420	ENST00000340373	unprocessed_pseudogene	KNOWN	None	15091	None	None	142759629	142760735	-1	OR6W1	sdolf
1	None	ENSG00000233368	ENST00000447883	lincRNA	KNOWN	None	None	None	None	149576594	149577296	-1	None	None
1	HYI-AS1	ENSG00000229348	ENST00000444386	antisense	KNOWN	None	41173	None	None	43919598	43922666	1	None	None
2	CD8B	ENSG00000172116	ENST00000393759	protein_coding	KNOWN	CCDS42708	1707	666	221	87042470	87089038	-1	CD8B1	None
2	CD8B	ENSG00000172116	ENST00000349455	protein_coding	KNOWN	CCDS1994	1707	642	213	87042573	87089038	-1	CD8B1	None
2	CD8B	ENSG00000172116	ENST00000331469	protein_coding	KNOWN	CCDS1995	1707	732	243	87042680	87089038	-1	CD8B1	None
2	CD8B	ENSG00000172116	ENST00000390655	protein_coding	KNOWN	CCDS1997	1707	633	210	87068705	87089047	-1	CD8B1	None
2	CD8B	ENSG00000172116	ENST00000393761	protein_coding	KNOWN	CCDS54376	1707	597	198	87042462	87089047	-1	CD8B1	None
2	CD8B	ENSG00000172116	ENST00000431506	protein_coding	KNOWN	None	1707	93	30	87071755	87089038	-1	CD8B1	None
2	None	ENSG00000222274	ENST00000410342	miRNA	NOVEL	None	None	None	None	100136565	100136694	1	None	None
13	LINC00544	ENSG00000122043	ENST00000400540	lincRNA	KNOWN	None	43679	None	None	30510042	30524625	1	None	None
13	LINC00544	ENSG00000122043	ENST00000481738	lincRNA	KNOWN	None	43679	None	None	30512043	30516704	1	None	None
13	LINC00544	ENSG00000122043	ENST00000380640	lincRNA	KNOWN	None	43679	None	None	30512061	30524590	1	None	None
1	None	ENSG00000239006	ENST00000410741	miRNA	NOVEL	None	None	None	None	199166208	199166312	-1	None	None
19	MRPL4	ENSG00000105364	ENST00000592514	protein_coding	KNOWN	None	14276	901	299	10362577	10370454	1	None	CGI-28
19	MRPL4	ENSG00000105364	ENST00000591054	nonsense_mediated_decay	KNOWN	None	14276	384	127	10362620	10369343	1	None	CGI-28
19	MRPL4	ENSG00000105364	ENST00000253099	protein_coding	KNOWN	CCDS12230	14276	936	311	10362643	10370721	1	None	CGI-28
19	MRPL4	ENSG00000105364	ENST00000590150	protein_coding	NOVEL	None	14276	491	162	10362674	10368910	1	None	CGI-28
19	MRPL4	ENSG00000105364	ENST00000590669	protein_coding	KNOWN	CCDS42499	14276	792	263	10362686	10369801	1	None	CGI-28
19	MRPL4	ENSG00000105364	ENST00000393733	protein_coding	PUTATIVE	None	14276	1074	357	10362903	10370701	1	None	CGI-28
19	MRPL4	ENSG00000105364	ENST00000592071	retained_intron	KNOWN	None	14276	None	None	10362934	10366393	1	None	CGI-28
19	MRPL4	ENSG00000105364	ENST00000588502	protein_coding	PUTATIVE	None	14276	663	220	10362952	10369299	1	None	CGI-28
19	MRPL4	ENSG00000105364	ENST00000588963	retained_intron	KNOWN	None	14276	None	None	10362981	10363705	1	None	CGI-28
19	MRPL4	ENSG00000105364	ENST00000590702	protein_coding	PUTATIVE	None	14276	360	119	10365296	10369718	1	None	CGI-28
19	MRPL4	ENSG00000105364	ENST00000307422	protein_coding	KNOWN	CCDS12230	14276	936	311	10362640	10370719	1	None	CGI-28
1	None	ENSG00000269614	ENST00000594899	lincRNA	KNOWN	None	None	None	None	149587502	149587988	-1	None	None
3	None	ENSG00000242012	ENST00000473893	lincRNA	KNOWN	None	None	None	None	182082935	182086044	1	None	None
2	None	ENSG00000230393	ENST00000434301	antisense	KNOWN	None	None	None	None	100721381	100723966	1	None	None
7	None	ENSG00000242902	ENST00000469965	processed_transcript	KNOWN	None	None	None	None	128490216	128502680	-1	None	None
8	None	ENSG00000272159	ENST00000606593	antisense	KNOWN	None	None	None	None	38265566	38266260	-1	None	None
1	None	ENSG00000228190	ENST00000441715	processed_pseudogene	KNOWN	None	None	None	None	199341005	199341425	1	None	None
17	None	ENSG00000266290	ENST00000584805	lincRNA	KNOWN	None	None	None	None	56154252	56160565	-1	None	None
14	NOVA1-AS1	ENSG00000257842	ENST00000547786	antisense	KNOWN	None	19827	None	None	27067618	27133613	1	C14orf22	None
14	NOVA1-AS1	ENSG00000257842	ENST00000552826	antisense	KNOWN	None	19827	None	None	27106447	27275587	1	C14orf22	None
14	NOVA1-AS1	ENSG00000257842	ENST00000548328	antisense	KNOWN	None	19827	None	None	27204560	27275673	1	C14orf22	None
14	NOVA1-AS1	ENSG00000257842	ENST00000552101	antisense	KNOWN	None	19827	None	None	27251374	27275673	1	C14orf22	None
2	BIRC6	ENSG00000115760	ENST00000421745	protein_coding	KNOWN	CCDS33175	13516	14574	4857	32582096	32843966	1	None	BRUCE
2	BIRC6	ENSG00000115760	ENST00000466527	retained_intron	KNOWN	None	13516	None	None	32613879	32626487	1	None	BRUCE
2	BIRC6	ENSG00000115760	ENST00000444173	protein_coding	PUTATIVE	None	13516	575	190	32658716	32666503	1	None	BRUCE
2	BIRC6	ENSG00000115760	ENST00000431454	nonsense_mediated_decay	KNOWN	None	13516	331	109	32661143	32667448	1	None	BRUCE
2	BIRC6	ENSG00000115760	ENST00000483194	retained_intron	KNOWN	None	13516	None	None	32668494	32674253	1	None	BRUCE
2	BIRC6	ENSG00000115760	ENST00000462504	retained_intron	KNOWN	None	13516	None	None	32698060	32701349	1	None	BRUCE
2	BIRC6	ENSG00000115760	ENST00000497023	retained_intron	KNOWN	None	13516	None	None	32727927	32730422	1	None	BRUCE
2	BIRC6	ENSG00000115760	ENST00000496555	retained_intron	KNOWN	None	13516	None	None	32734746	32738156	1	None	BRUCE
2	BIRC6	ENSG00000115760	ENST00000461788	retained_intron	KNOWN	None	13516	None	None	32740808	32744286	1	None	BRUCE
2	BIRC6	ENSG00000115760	ENST00000471232	retained_intron	KNOWN	None	13516	None	None	32749825	32843943	1	None	BRUCE
2	BIRC6	ENSG00000115760	ENST00000470250	retained_intron	KNOWN	None	13516	None	None	32800358	32819377	1	None	BRUCE
2	BIRC6	ENSG00000115760	ENST00000465130	retained_intron	KNOWN	None	13516	None	None	32827564	32836648	1	None	BRUCE
HSCHR12_2_CTG2	TAS2R10	ENSG00000271987	ENST00000576159	protein_coding	KNOWN	None	14918	924	307	10977916	10978957	-1	None	T2R10, TRB2
1	None	ENSG00000229801	ENST00000428508	lincRNA	KNOWN	None	None	None	None	149590752	149591762	-1	None	None
X	MIR105-2	ENSG00000207818	ENST00000385083	miRNA	KNOWN	None	31493	None	None	151562884	151562964	-1	MIRN105-2	hsa-mir-105-2
2	None	ENSG00000232084	ENST00000452354	lincRNA	KNOWN	None	None	None	None	100824716	100867946	1	None	None
2	None	ENSG00000232084	ENST00000441036	lincRNA	KNOWN	None	None	None	None	100859093	100865724	1	None	None
17	None	ENSG00000264364	ENST00000579991	lincRNA	KNOWN	None	None	None	None	56168909	56172897	1	None	None
2	None	ENSG00000234255	ENST00000600508	lincRNA	KNOWN	None	None	None	None	65669189	65683462	-1	None	None
2	None	ENSG00000234255	ENST00000604709	lincRNA	KNOWN	None	None	None	None	65669290	65682815	-1	None	None
2	None	ENSG00000234255	ENST00000597541	lincRNA	KNOWN	None	None	None	None	65669453	65683646	-1	None	None
2	None	ENSG00000234255	ENST00000601940	lincRNA	KNOWN	None	None	None	None	65677208	65683685	-1	None	None
2	None	ENSG00000234255	ENST00000453714	lincRNA	KNOWN	None	None	None	None	65677208	65683705	-1	None	None
2	None	ENSG00000234255	ENST00000594228	lincRNA	KNOWN	None	None	None	None	65677651	65683057	-1	None	None
2	None	ENSG00000234255	ENST00000605491	lincRNA	KNOWN	None	None	None	None	65677651	65683440	-1	None	None
2	None	ENSG00000234255	ENST00000593355	lincRNA	KNOWN	None	None	None	None	65677651	65683677	-1	None	None
12	None	ENSG00000256582	ENST00000541404	lincRNA	KNOWN	None	None	None	None	9856673	9861946	1	None	None
8	None	ENSG00000255201	ENST00000528407	antisense	KNOWN	None	None	None	None	38279407	38283614	1	None	None
4	CLNK	ENSG00000109684	ENST00000226951	protein_coding	KNOWN	CCDS47024	17438	1287	428	10488019	10686489	-1	None	MIST
4	CLNK	ENSG00000109684	ENST00000515667	protein_coding	PUTATIVE	None	17438	501	166	10488498	10519089	-1	None	MIST
4	CLNK	ENSG00000109684	ENST00000507719	protein_coding	KNOWN	None	17438	510	169	10533037	10658185	-1	None	MIST
4	CLNK	ENSG00000109684	ENST00000442825	protein_coding	KNOWN	None	17438	510	169	10525580	10686386	-1	None	MIST
HSCHR12_2_CTG2	TAS2R13	ENSG00000272355	ENST00000574870	protein_coding	KNOWN	None	14919	912	303	11060525	11062161	-1	None	T2R13, TRB3
1	None	ENSG00000232151	ENST00000414422	lincRNA	KNOWN	None	None	None	None	149605640	149633208	1	None	None
1	RNU1-132P	ENSG00000201170	ENST00000364300	snRNA	KNOWN	None	48474	None	None	245297229	245297392	-1	None	None
16	None	ENSG00000221528	ENST00000408601	miRNA	NOVEL	None	None	None	None	27673221	27673339	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000272437	ENST00000606989	miRNA	NOVEL	None	None	None	None	28743697	28743804	1	None	None
1	KDM4A-AS1	ENSG00000236200	ENST00000398804	antisense	KNOWN	None	40528	None	None	44165436	44173809	-1	None	None
1	KDM4A-AS1	ENSG00000236200	ENST00000439057	antisense	KNOWN	None	40528	None	None	44165594	44173012	-1	None	None
1	KDM4A-AS1	ENSG00000236200	ENST00000434346	antisense	KNOWN	None	40528	None	None	44167768	44170140	-1	None	None
1	KDM4A-AS1	ENSG00000236200	ENST00000453015	antisense	KNOWN	None	40528	None	None	44169066	44170417	-1	None	None
1	KDM4A-AS1	ENSG00000236200	ENST00000418149	antisense	KNOWN	None	40528	None	None	44169985	44173001	-1	None	None
12	None	ENSG00000256912	ENST00000543168	processed_pseudogene	KNOWN	None	None	None	None	9969946	9970621	-1	None	None
1	None	ENSG00000236468	ENST00000430498	processed_pseudogene	KNOWN	None	None	None	None	199356269	199357603	1	None	None
15	RN7SL497P	ENSG00000240847	ENST00000476341	misc_RNA	KNOWN	None	46513	None	None	41484165	41484463	-1	None	None
17	MSX2P1	ENSG00000229590	ENST00000584100	processed_pseudogene	KNOWN	None	24976	None	None	56234389	56235161	1	MSX2P	HSHPX5, HPX5
17	MSX2P1	ENSG00000229590	ENST00000432896	pseudogene	NOVEL	None	24976	None	None	56234809	56234926	1	MSX2P	HSHPX5, HPX5
HSCHR6_MHC_QBL	None	ENSG00000271950	ENST00000606032	processed_pseudogene	NOVEL	None	None	None	None	28751414	28751785	-1	None	None
1	None	ENSG00000232192	ENST00000446321	antisense	KNOWN	None	None	None	None	245369746	245397803	-1	None	None
16	None	ENSG00000261329	ENST00000564893	antisense	KNOWN	None	None	None	None	27690261	27730104	-1	None	None
16	None	ENSG00000261329	ENST00000568831	antisense	KNOWN	None	None	None	None	27719742	27729615	-1	None	None
16	None	ENSG00000261329	ENST00000563052	antisense	KNOWN	None	None	None	None	27719747	27730097	-1	None	None
11	MIR4486	ENSG00000265210	ENST00000578325	miRNA	KNOWN	None	41566	None	None	19596857	19596919	1	None	hsa-mir-4486
14	PPIAP6	ENSG00000258477	ENST00000557078	processed_pseudogene	KNOWN	None	20028	None	None	68888415	68888913	-1	None	None
11	OR8K4P	ENSG00000254947	ENST00000534608	unprocessed_pseudogene	KNOWN	None	15314	None	None	55909992	55910863	-1	None	None
10	TMEM26	ENSG00000196932	ENST00000503886	nonsense_mediated_decay	KNOWN	CCDS41530	28550	1107	368	63166401	63212996	-1	None	MGC35010, Em:AC068892.1
10	TMEM26	ENSG00000196932	ENST00000399298	protein_coding	KNOWN	CCDS41530	28550	1107	368	63166405	63213208	-1	None	MGC35010, Em:AC068892.1
10	TMEM26	ENSG00000196932	ENST00000507507	processed_transcript	KNOWN	None	28550	None	None	63169205	63174258	-1	None	MGC35010, Em:AC068892.1
10	TMEM26	ENSG00000196932	ENST00000277749	protein_coding	PUTATIVE	None	28550	510	169	63172651	63191090	-1	None	MGC35010, Em:AC068892.1
10	TMEM26	ENSG00000196932	ENST00000488505	nonsense_mediated_decay	KNOWN	None	28550	672	223	63172651	63212925	-1	None	MGC35010, Em:AC068892.1
10	TMEM26	ENSG00000196932	ENST00000399293	protein_coding	KNOWN	None	28550	672	223	63175815	63213208	-1	None	MGC35010, Em:AC068892.1
HSCHR12_2_CTG2	PRH2	ENSG00000271729	ENST00000575657	protein_coding	KNOWN	None	9367	501	166	11081835	11083763	1	None	Pr
HSCHR12_2_CTG2	PRH2	ENSG00000271729	ENST00000572141	protein_coding	KNOWN	None	9367	501	166	11081835	11084940	1	None	Pr
X	MIR505	ENSG00000207633	ENST00000384901	miRNA	KNOWN	None	32140	None	None	139006307	139006390	-1	MIRN505	hsa-mir-505
1	RNVU1-20	ENSG00000202496	ENST00000365626	snRNA	KNOWN	None	48325	None	None	149605917	149606079	1	None	vU1.20, RNU1-110
11	None	ENSG00000207407	ENST00000384676	snoRNA	NOVEL	None	None	None	None	19612703	19612838	-1	None	None
1	OR2L2	ENSG00000203663	ENST00000366479	protein_coding	KNOWN	CCDS31103	8266	939	312	248201474	248202607	1	OR2L4P, OR2L12	HTPCRH07, HSHTPCRH07
HSCHR6_MHC_QBL	None	ENSG00000272313	ENST00000607750	miRNA	NOVEL	None	None	None	None	28763753	28763816	-1	None	None
11	None	ENSG00000256527	ENST00000404882	pseudogene	NOVEL	None	None	None	None	126873298	126874130	1	None	None
11	None	ENSG00000270607	ENST00000603468	lincRNA	KNOWN	None	None	None	None	19732480	19734165	-1	None	None
14	None	ENSG00000259868	ENST00000569625	lincRNA	KNOWN	None	None	None	None	56382445	56383044	1	None	None
2	None	ENSG00000270699	ENST00000604494	processed_pseudogene	KNOWN	None	None	None	None	100993883	100993994	1	None	None
13	None	ENSG00000266505	ENST00000585222	lincRNA	KNOWN	None	None	None	None	30596158	30597937	-1	None	None
20	NDRG3	ENSG00000101079	ENST00000373803	protein_coding	NOVEL	None	14462	1167	388	35280169	35374456	-1	None	None
20	NDRG3	ENSG00000101079	ENST00000359675	protein_coding	KNOWN	CCDS13284	14462	1092	363	35280169	35374470	-1	None	None
20	NDRG3	ENSG00000101079	ENST00000349004	protein_coding	KNOWN	CCDS13285	14462	1128	375	35280169	35374481	-1	None	None
20	NDRG3	ENSG00000101079	ENST00000422536	protein_coding	PUTATIVE	None	14462	563	186	35294794	35329078	-1	None	None
20	NDRG3	ENSG00000101079	ENST00000540765	protein_coding	KNOWN	None	14462	816	271	35281530	35374473	-1	None	None
20	NDRG3	ENSG00000101079	ENST00000373773	protein_coding	KNOWN	None	14462	843	280	35280778	35350190	-1	None	None
X	RNU6-154P	ENSG00000207033	ENST00000384306	snRNA	KNOWN	None	47117	None	None	115532008	115532113	-1	None	None
HSCHR6_MHC_QBL	None	ENSG00000271834	ENST00000607163	processed_transcript	PUTATIVE	None	None	None	None	28805650	28806787	-1	None	None
21	MYL6P2	ENSG00000235808	ENST00000450079	processed_pseudogene	KNOWN	None	23772	None	None	40860253	40860686	1	None	None
1	None	ENSG00000268554	ENST00000600072	processed_transcript	KNOWN	None	None	None	None	149626959	149636207	1	None	None
1	None	ENSG00000268554	ENST00000439906	processed_transcript	KNOWN	None	None	None	None	149627007	149636159	1	None	None
1	None	ENSG00000268554	ENST00000598642	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	149627341	149637707	1	None	None
1	None	ENSG00000268554	ENST00000430052	processed_transcript	KNOWN	None	None	None	None	149636144	149636930	1	None	None
2	None	ENSG00000237979	ENST00000454674	processed_pseudogene	KNOWN	None	None	None	None	65728127	65729272	-1	None	None
X	None	ENSG00000236077	ENST00000428194	unprocessed_pseudogene	KNOWN	None	None	None	None	115803778	115814271	-1	None	None
13	LINC00365	ENSG00000224511	ENST00000413591	lincRNA	KNOWN	None	42687	None	None	30677315	30683005	-1	None	None
13	LINC00365	ENSG00000224511	ENST00000432770	lincRNA	KNOWN	None	42687	None	None	30681736	30683012	-1	None	None
3	None	ENSG00000270194	ENST00000604992	antisense	KNOWN	None	None	None	None	37283280	37285668	-1	None	None
8	None	ENSG00000253899	ENST00000517322	processed_pseudogene	KNOWN	None	None	None	None	26921513	26922795	-1	None	None
12	None	ENSG00000255882	ENST00000545258	antisense	KNOWN	None	None	None	None	10019626	10022407	1	None	None
2	None	ENSG00000229935	ENST00000431021	processed_pseudogene	KNOWN	None	None	None	None	156170578	156170880	1	None	None
5	None	ENSG00000253315	ENST00000520323	lincRNA	KNOWN	None	None	None	None	158654723	158672135	1	None	None
20	None	ENSG00000264599	ENST00000408554	miRNA	NOVEL	None	None	None	None	10036968	10037063	1	None	None
1	DNAJC19P8	ENSG00000232793	ENST00000452887	processed_pseudogene	KNOWN	None	45071	None	None	245446133	245446391	-1	None	None
19	None	ENSG00000269053	ENST00000597028	antisense	KNOWN	None	None	None	None	17530114	17530583	-1	None	None
1	None	ENSG00000230735	ENST00000429074	sense_intronic	KNOWN	None	None	None	None	90095284	90141945	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000272176	ENST00000607672	processed_transcript	KNOWN	None	None	None	None	28827406	28831131	-1	None	None
11	MIR4694	ENSG00000264309	ENST00000578534	miRNA	KNOWN	None	41586	None	None	19781550	19781629	-1	None	hsa-mir-4694
2	None	ENSG00000238029	ENST00000453252	processed_pseudogene	KNOWN	None	None	None	None	101041810	101042569	1	None	None
14	None	ENSG00000213622	ENST00000395298	pseudogene	NOVEL	None	None	None	None	56464932	56465307	-1	None	None
3	None	ENSG00000176354	ENST00000313442	pseudogene	NOVEL	None	None	None	None	37283303	37285686	-1	None	None
19	None	ENSG00000269736	ENST00000598950	lincRNA	KNOWN	None	None	None	None	17563020	17563778	-1	None	None
11	OR5J7P	ENSG00000255217	ENST00000534621	unprocessed_pseudogene	KNOWN	None	31289	None	None	55932976	55933397	1	None	None
X	KRT8P8	ENSG00000223940	ENST00000434750	processed_pseudogene	KNOWN	None	33362	None	None	151648049	151649496	1	None	None
1	None	ENSG00000263805	ENST00000583711	miRNA	NOVEL	None	None	None	None	199584316	199584408	-1	None	None
2	RNU6-546P	ENSG00000206718	ENST00000383991	snRNA	KNOWN	None	47509	None	None	156186933	156187039	1	None	None
17	BZRAP1-AS1	ENSG00000265148	ENST00000579527	antisense	KNOWN	None	44148	None	None	56402811	56430647	1	None	None
17	BZRAP1-AS1	ENSG00000265148	ENST00000580515	antisense	KNOWN	None	44148	None	None	56406299	56429790	1	None	None
17	BZRAP1-AS1	ENSG00000265148	ENST00000578334	antisense	KNOWN	None	44148	None	None	56406376	56429852	1	None	None
17	BZRAP1-AS1	ENSG00000265148	ENST00000580633	antisense	KNOWN	None	44148	None	None	56406966	56429738	1	None	None
17	BZRAP1-AS1	ENSG00000265148	ENST00000583826	antisense	KNOWN	None	44148	None	None	56414564	56429852	1	None	None
17	BZRAP1-AS1	ENSG00000265148	ENST00000578025	antisense	KNOWN	None	44148	None	None	56414576	56431080	1	None	None
17	BZRAP1-AS1	ENSG00000265148	ENST00000583841	antisense	KNOWN	None	44148	None	None	56414607	56493127	1	None	None
17	BZRAP1-AS1	ENSG00000265148	ENST00000580022	antisense	KNOWN	None	44148	None	None	56414669	56431080	1	None	None
17	BZRAP1-AS1	ENSG00000265148	ENST00000582348	antisense	KNOWN	None	44148	None	None	56414697	56429104	1	None	None
17	BZRAP1-AS1	ENSG00000265148	ENST00000585236	antisense	KNOWN	None	44148	None	None	56414710	56430648	1	None	None
17	BZRAP1-AS1	ENSG00000265148	ENST00000579859	antisense	KNOWN	None	44148	None	None	56414719	56430648	1	None	None
HSCHR6_MHC_QBL	RPL13P	ENSG00000272394	ENST00000607602	processed_pseudogene	KNOWN	None	13978	None	None	28829197	28829828	1	None	BBC1p, dJ111M5.1
X	None	ENSG00000233145	ENST00000417426	lincRNA	KNOWN	None	None	None	None	139099427	139100196	1	None	None
2	None	ENSG00000204637	ENST00000376856	processed_pseudogene	KNOWN	None	None	None	None	101125739	101126074	1	None	None
2	None	ENSG00000204637	ENST00000535145	processed_pseudogene	KNOWN	None	None	None	None	101125739	101126077	1	None	None
1	None	ENSG00000226394	ENST00000440817	processed_pseudogene	KNOWN	None	None	None	None	90126771	90126912	-1	None	None
11	SEC14L1P1	ENSG00000213693	ENST00000534767	processed_pseudogene	KNOWN	None	44189	None	None	43919006	43921186	1	None	None
1	None	ENSG00000231984	ENST00000448132	processed_pseudogene	KNOWN	None	None	None	None	199721619	199722018	1	None	None
1	None	ENSG00000221165	ENST00000408238	miRNA	NOVEL	None	None	None	None	245533636	245533721	1	None	None
3	EIF2A	ENSG00000144895	ENST00000463863	retained_intron	KNOWN	None	3254	None	None	150264465	150276516	1	None	EIF-2A
3	EIF2A	ENSG00000144895	ENST00000487799	protein_coding	NOVEL	None	3254	1683	560	150264472	150301810	1	None	EIF-2A
3	EIF2A	ENSG00000144895	ENST00000460851	protein_coding	KNOWN	CCDS46935	3254	1758	585	150264481	150302029	1	None	EIF-2A
3	EIF2A	ENSG00000144895	ENST00000473499	retained_intron	KNOWN	None	3254	None	None	150264512	150270670	1	None	EIF-2A
3	EIF2A	ENSG00000144895	ENST00000494558	nonsense_mediated_decay	KNOWN	None	3254	180	59	150264554	150286061	1	None	EIF-2A
3	EIF2A	ENSG00000144895	ENST00000474505	retained_intron	KNOWN	None	3254	None	None	150264573	150282686	1	None	EIF-2A
3	EIF2A	ENSG00000144895	ENST00000406576	protein_coding	NOVEL	None	3254	1575	524	150264574	150301902	1	None	EIF-2A
3	EIF2A	ENSG00000144895	ENST00000482093	protein_coding	NOVEL	None	3254	710	235	150264575	150285813	1	None	EIF-2A
3	EIF2A	ENSG00000144895	ENST00000469331	retained_intron	KNOWN	None	3254	None	None	150264577	150280695	1	None	EIF-2A
3	EIF2A	ENSG00000144895	ENST00000273435	protein_coding	NOVEL	None	3254	1743	580	150264581	150302029	1	None	EIF-2A
3	EIF2A	ENSG00000144895	ENST00000490505	nonsense_mediated_decay	KNOWN	None	3254	228	75	150264587	150282164	1	None	EIF-2A
3	EIF2A	ENSG00000144895	ENST00000462221	nonsense_mediated_decay	KNOWN	None	3254	123	40	150264601	150289848	1	None	EIF-2A
3	EIF2A	ENSG00000144895	ENST00000477551	nonsense_mediated_decay	KNOWN	None	3254	475	157	150270141	150302029	1	None	EIF-2A
3	EIF2A	ENSG00000144895	ENST00000472926	retained_intron	KNOWN	None	3254	None	None	150285186	150286006	1	None	EIF-2A
3	EIF2A	ENSG00000144895	ENST00000465535	protein_coding	NOVEL	None	3254	950	315	150285819	150302021	1	None	EIF-2A
3	EIF2A	ENSG00000144895	ENST00000482471	processed_transcript	KNOWN	None	3254	None	None	150290283	150301690	1	None	EIF-2A
3	EIF2A	ENSG00000144895	ENST00000383043	protein_coding	KNOWN	None	3254	1116	371	150285699	150302027	1	None	EIF-2A
2	None	ENSG00000226383	ENST00000448255	lincRNA	KNOWN	None	None	None	None	156868129	156881125	-1	None	None
2	None	ENSG00000226383	ENST00000428651	lincRNA	KNOWN	None	None	None	None	156877047	156881088	-1	None	None
1	None	ENSG00000238224	ENST00000418402	antisense	KNOWN	None	None	None	None	245778075	245778447	-1	None	None
2	None	ENSG00000223739	ENST00000434630	processed_pseudogene	KNOWN	None	None	None	None	65738905	65739210	-1	None	None
8	None	ENSG00000221623	ENST00000408696	miRNA	NOVEL	None	None	None	None	27005221	27005309	1	None	None
19	None	ENSG00000222805	ENST00000410873	miRNA	NOVEL	None	None	None	None	17568066	17568166	1	None	None
21	RPS26P4	ENSG00000228349	ENST00000431743	processed_pseudogene	KNOWN	None	23775	None	None	40863470	40863824	-1	None	None
12	None	ENSG00000256659	ENST00000541258	lincRNA	KNOWN	None	None	None	None	128602762	128606497	1	None	None
12	None	ENSG00000225231	ENST00000412084	lincRNA	KNOWN	None	None	None	None	10089178	10096094	-1	None	None
HSCHR2_1_CTG1	CRIM1	ENSG00000261899	ENST00000573225	protein_coding	PUTATIVE	None	2359	167	54	36589647	36612079	1	S52	None
HSCHR2_1_CTG1	CRIM1	ENSG00000261899	ENST00000572381	processed_transcript	KNOWN	None	2359	None	None	36611533	36612389	1	S52	None
HSCHR2_1_CTG1	CRIM1	ENSG00000261899	ENST00000572219	processed_transcript	KNOWN	None	2359	None	None	36611533	36612389	1	S52	None
HSCHR2_1_CTG1	CRIM1	ENSG00000261899	ENST00000575169	processed_transcript	KNOWN	None	2359	None	None	36602291	36612400	1	S52	None
HSCHR2_1_CTG1	CRIM1	ENSG00000261899	ENST00000575470	protein_coding	NOVEL	None	2359	667	221	36589619	36697831	1	S52	None
HSCHR2_1_CTG1	CRIM1	ENSG00000261899	ENST00000573921	retained_intron	KNOWN	None	2359	None	None	36712719	36732588	1	S52	None
HSCHR2_1_CTG1	CRIM1	ENSG00000261899	ENST00000572769	protein_coding	PUTATIVE	None	2359	528	175	36746866	36762688	1	S52	None
HSCHR2_1_CTG1	CRIM1	ENSG00000261899	ENST00000574904	protein_coding	KNOWN	None	2359	3111	1036	36589102	36784311	1	S52	None
14	None	ENSG00000212522	ENST00000391220	misc_RNA	NOVEL	None	None	None	None	56535161	56535245	1	None	None
20	None	ENSG00000230506	ENST00000424931	lincRNA	KNOWN	None	None	None	None	10154168	10177638	1	None	None
13	None	ENSG00000232117	ENST00000437721	lincRNA	KNOWN	None	None	None	None	30726023	30733758	-1	None	None
2	RN7SL635P	ENSG00000243029	ENST00000492123	misc_RNA	KNOWN	None	46651	None	None	65772537	65772830	-1	None	None
HSCHR6_MHC_QBL	ZNF90P2	ENSG00000229714	ENST00000414947	processed_pseudogene	KNOWN	None	21687	None	None	28856613	28857687	-1	ZNF463P	dJ111M5.3
5	FAM53C	ENSG00000120709	ENST00000512180	processed_transcript	KNOWN	None	1336	None	None	137667624	137680747	1	C5orf6	None
5	FAM53C	ENSG00000120709	ENST00000511595	processed_transcript	KNOWN	None	1336	None	None	137667794	137672835	1	C5orf6	None
5	FAM53C	ENSG00000120709	ENST00000506710	processed_transcript	KNOWN	None	1336	None	None	137669366	137672779	1	C5orf6	None
5	FAM53C	ENSG00000120709	ENST00000434981	protein_coding	KNOWN	CCDS4204	1336	1179	392	137673200	137682661	1	C5orf6	None
5	FAM53C	ENSG00000120709	ENST00000507506	processed_transcript	KNOWN	None	1336	None	None	137673243	137681144	1	C5orf6	None
5	FAM53C	ENSG00000120709	ENST00000505768	processed_transcript	KNOWN	None	1336	None	None	137673704	137680934	1	C5orf6	None
5	FAM53C	ENSG00000120709	ENST00000239906	protein_coding	KNOWN	CCDS4204	1336	1179	392	137673721	137685416	1	C5orf6	None
5	FAM53C	ENSG00000120709	ENST00000511024	retained_intron	KNOWN	None	1336	None	None	137673955	137678712	1	C5orf6	None
5	FAM53C	ENSG00000120709	ENST00000513056	protein_coding	PUTATIVE	None	1336	345	114	137673955	137682769	1	C5orf6	None
5	FAM53C	ENSG00000120709	ENST00000511276	protein_coding	PUTATIVE	None	1336	497	164	137673956	137680904	1	C5orf6	None
5	FAM53C	ENSG00000120709	ENST00000505136	processed_transcript	KNOWN	None	1336	None	None	137676870	137680997	1	C5orf6	None
1	None	ENSG00000231612	ENST00000414565	antisense	KNOWN	None	None	None	None	245837034	245839780	-1	None	None
19	None	ENSG00000269439	ENST00000596643	lincRNA	KNOWN	None	None	None	None	17599799	17622698	-1	None	None
19	None	ENSG00000269439	ENST00000598141	lincRNA	KNOWN	None	None	None	None	17600610	17603198	-1	None	None
19	None	ENSG00000269439	ENST00000595116	lincRNA	KNOWN	None	None	None	None	17614245	17622277	-1	None	None
2	RN7SL611P	ENSG00000266005	ENST00000584648	misc_RNA	KNOWN	None	46627	None	None	101172512	101172782	1	None	None
8	None	ENSG00000253888	ENST00000521408	antisense	KNOWN	None	None	None	None	27041838	27068011	1	None	None
1	None	ENSG00000239176	ENST00000459015	snoRNA	NOVEL	None	None	None	None	90233771	90233877	-1	None	None
3	None	ENSG00000241098	ENST00000496220	lincRNA	KNOWN	None	None	None	None	182164758	182204152	-1	None	None
3	TCEA1P2	ENSG00000230409	ENST00000420496	pseudogene	KNOWN	None	29891	None	None	37317087	37318089	1	None	TCEA1
8	MIR875	ENSG00000216069	ENST00000401250	miRNA	KNOWN	None	33652	None	None	100549014	100549089	-1	MIRN875	hsa-mir-875
1	OR2L3	ENSG00000198128	ENST00000359959	protein_coding	KNOWN	CCDS31104	15009	939	312	248223984	248224922	1	None	None
13	None	ENSG00000232643	ENST00000435044	lincRNA	KNOWN	None	None	None	None	30728203	30728723	1	None	None
2	None	ENSG00000251900	ENST00000516091	misc_RNA	NOVEL	None	None	None	None	65782566	65782668	-1	None	None
1	None	ENSG00000239903	ENST00000446265	transcribed_processed_pseudogene	KNOWN	None	None	None	None	149646785	149649302	1	None	None
2	None	ENSG00000238328	ENST00000458824	snoRNA	NOVEL	None	None	None	None	101193931	101194019	1	None	None
1	None	ENSG00000231613	ENST00000432395	sense_intronic	KNOWN	None	None	None	None	90254473	90256051	1	None	None
1	None	ENSG00000228530	ENST00000439946	processed_pseudogene	KNOWN	None	None	None	None	199846106	199846686	1	None	None
2	None	ENSG00000235548	ENST00000450741	processed_pseudogene	KNOWN	None	None	None	None	156889759	156890592	-1	None	None
8	RN7SL350P	ENSG00000243254	ENST00000492591	misc_RNA	KNOWN	None	46366	None	None	100626014	100626306	-1	None	None
2	None	ENSG00000235725	ENST00000420724	lincRNA	KNOWN	None	None	None	None	65816700	65867311	-1	None	None
3	None	ENSG00000244561	ENST00000467527	processed_pseudogene	KNOWN	None	None	None	None	109115463	109116717	1	None	None
2	HMGN2P22	ENSG00000227259	ENST00000427588	processed_pseudogene	KNOWN	None	39387	None	None	101207612	101207786	-1	None	None
14	None	ENSG00000221254	ENST00000408327	miRNA	NOVEL	None	None	None	None	56542198	56542284	1	None	None
1	None	ENSG00000235096	ENST00000426386	antisense	KNOWN	None	None	None	None	246196853	246198905	1	None	None
2	RN7SL360P	ENSG00000265839	ENST00000577384	misc_RNA	KNOWN	None	46376	None	None	101217328	101217618	1	None	None
1	RN7SKP272	ENSG00000252797	ENST00000516988	misc_RNA	KNOWN	None	45996	None	None	90453272	90453503	-1	None	None
15	OIP5-AS1	ENSG00000247556	ENST00000558457	retained_intron	KNOWN	None	43563	None	None	41576188	41578624	1	None	cyrano
15	OIP5-AS1	ENSG00000247556	ENST00000558945	lincRNA	KNOWN	None	43563	None	None	41576188	41590979	1	None	cyrano
15	OIP5-AS1	ENSG00000247556	ENST00000500949	lincRNA	KNOWN	None	43563	None	None	41576203	41598732	1	None	cyrano
15	OIP5-AS1	ENSG00000247556	ENST00000561275	lincRNA	KNOWN	None	43563	None	None	41576204	41589488	1	None	cyrano
15	OIP5-AS1	ENSG00000247556	ENST00000559368	lincRNA	KNOWN	None	43563	None	None	41576206	41580469	1	None	cyrano
15	OIP5-AS1	ENSG00000247556	ENST00000560706	lincRNA	KNOWN	None	43563	None	None	41576206	41590267	1	None	cyrano
15	OIP5-AS1	ENSG00000247556	ENST00000560545	retained_intron	KNOWN	None	43563	None	None	41576208	41577887	1	None	cyrano
15	OIP5-AS1	ENSG00000247556	ENST00000561226	lincRNA	KNOWN	None	43563	None	None	41576219	41579672	1	None	cyrano
15	OIP5-AS1	ENSG00000247556	ENST00000557993	lincRNA	KNOWN	None	43563	None	None	41576229	41580723	1	None	cyrano
15	OIP5-AS1	ENSG00000247556	ENST00000501665	lincRNA	KNOWN	None	43563	None	None	41576230	41601901	1	None	cyrano
8	None	ENSG00000235683	ENST00000421439	processed_pseudogene	KNOWN	None	None	None	None	100708185	100710245	1	None	None
9	RNU7-171P	ENSG00000238406	ENST00000459581	snRNA	KNOWN	None	45705	None	None	131306195	131306256	1	None	None
1	RNU6-778P	ENSG00000200139	ENST00000363269	snRNA	KNOWN	None	47741	None	None	199857287	199857389	1	None	None
X	HNRNPA3P3	ENSG00000214653	ENST00000416838	processed_pseudogene	KNOWN	None	39772	None	None	139114503	139115639	1	None	None
X	HNRNPA3P3	ENSG00000214653	ENST00000412538	processed_pseudogene	KNOWN	None	39772	None	None	139115445	139115665	1	None	None
12	MIR4419B	ENSG00000265061	ENST00000577260	miRNA	KNOWN	None	41724	None	None	128729051	128729118	1	None	hsa-mir-4419b
7	KCP	ENSG00000135253	ENST00000492679	retained_intron	KNOWN	None	17585	None	None	128502505	128520977	-1	CRIM2	FLJ33365, NET67
7	KCP	ENSG00000135253	ENST00000460528	retained_intron	KNOWN	None	17585	None	None	128513869	128519866	-1	CRIM2	FLJ33365, NET67
7	KCP	ENSG00000135253	ENST00000476647	processed_transcript	KNOWN	None	17585	None	None	128516919	128550773	-1	CRIM2	FLJ33365, NET67
7	KCP	ENSG00000135253	ENST00000479474	retained_intron	KNOWN	None	17585	None	None	128530001	128543405	-1	CRIM2	FLJ33365, NET67
7	KCP	ENSG00000135253	ENST00000487494	processed_transcript	KNOWN	None	17585	None	None	128530001	128550773	-1	CRIM2	FLJ33365, NET67
7	KCP	ENSG00000135253	ENST00000297801	processed_transcript	KNOWN	None	17585	None	None	128505029	128550773	-1	CRIM2	FLJ33365, NET67
7	KCP	ENSG00000135253	ENST00000441244	processed_transcript	KNOWN	None	17585	None	None	128516919	128550773	-1	CRIM2	FLJ33365, NET67
2	None	ENSG00000238543	ENST00000459490	snoRNA	NOVEL	None	None	None	None	157266656	157266758	-1	None	None
2	KRT18P33	ENSG00000214533	ENST00000398525	processed_pseudogene	KNOWN	None	33402	None	None	65893829	65894871	1	None	None
16	BRICD5	ENSG00000182685	ENST00000328540	protein_coding	KNOWN	CCDS10463	28309	687	228	2259254	2261951	-1	C16orf79	MGC21830
16	BRICD5	ENSG00000182685	ENST00000562360	protein_coding	KNOWN	None	28309	783	260	2259363	2260834	-1	C16orf79	MGC21830
16	BRICD5	ENSG00000182685	ENST00000566795	retained_intron	KNOWN	None	28309	None	None	2259655	2260146	-1	C16orf79	MGC21830
16	BRICD5	ENSG00000182685	ENST00000566018	protein_coding	PUTATIVE	None	28309	462	153	2259980	2260906	-1	C16orf79	MGC21830
1	None	ENSG00000229444	ENST00000437753	antisense	KNOWN	None	None	None	None	44175063	44193014	-1	None	None
2	None	ENSG00000234988	ENST00000414647	lincRNA	KNOWN	None	None	None	None	101223490	101225813	1	None	None
2	None	ENSG00000234988	ENST00000424342	lincRNA	KNOWN	None	None	None	None	101223706	101225820	1	None	None
21	None	ENSG00000235012	ENST00000411867	processed_pseudogene	KNOWN	None	None	None	None	40897510	40901782	1	None	None
HSCHR6_MHC_QBL	HCG14	ENSG00000227559	ENST00000432275	processed_transcript	KNOWN	None	18323	None	None	28864311	28865103	1	None	dJ111M5.4
11	None	ENSG00000255663	ENST00000544347	nonsense_mediated_decay	KNOWN	None	None	446	147	114271404	114314654	1	None	None
2	None	ENSG00000238481	ENST00000459359	snoRNA	NOVEL	None	None	None	None	157278707	157278811	1	None	None
9	VTI1BP4	ENSG00000227759	ENST00000427516	processed_pseudogene	KNOWN	None	43730	None	None	131413277	131414424	1	None	None
1	None	ENSG00000226876	ENST00000443763	antisense	KNOWN	None	None	None	None	246271928	246277168	1	None	None
1	None	ENSG00000229747	ENST00000458156	processed_pseudogene	KNOWN	None	None	None	None	199878049	199878776	1	None	None
12	None	ENSG00000257346	ENST00000553174	antisense	KNOWN	None	None	None	None	49483991	49486984	1	None	None
12	None	ENSG00000257346	ENST00000548030	antisense	KNOWN	None	None	None	None	49485991	49487095	1	None	None
19	None	ENSG00000269445	ENST00000597015	antisense	KNOWN	None	None	None	None	39017594	39019195	-1	None	None
13	SAP18	ENSG00000150459	ENST00000382533	protein_coding	NOVEL	CCDS9295	10530	519	172	21714653	21723221	1	None	SAP18p, 2HOR0202, MGC27131
13	SAP18	ENSG00000150459	ENST00000607003	protein_coding	PUTATIVE	None	10530	462	153	21714717	21723221	1	None	SAP18p, 2HOR0202, MGC27131
13	SAP18	ENSG00000150459	ENST00000485646	processed_transcript	KNOWN	None	10530	None	None	21714751	21715758	1	None	SAP18p, 2HOR0202, MGC27131
13	SAP18	ENSG00000150459	ENST00000492245	protein_coding	PUTATIVE	None	10530	178	58	21714754	21721552	1	None	SAP18p, 2HOR0202, MGC27131
13	SAP18	ENSG00000150459	ENST00000450573	protein_coding	PUTATIVE	None	10530	430	142	21714913	21721458	1	None	SAP18p, 2HOR0202, MGC27131
13	SAP18	ENSG00000150459	ENST00000467636	protein_coding	PUTATIVE	None	10530	237	78	21715025	21721742	1	None	SAP18p, 2HOR0202, MGC27131
13	SAP18	ENSG00000150459	ENST00000471009	processed_transcript	KNOWN	None	10530	None	None	21720603	21721530	1	None	SAP18p, 2HOR0202, MGC27131
1	GEMIN8P4	ENSG00000228175	ENST00000380526	processed_pseudogene	KNOWN	None	37979	None	None	90459152	90459880	-1	None	None
1	GEMIN8P4	ENSG00000228175	ENST00000394188	processed_pseudogene	KNOWN	None	37979	None	None	90459152	90459868	-1	None	None
7	None	ENSG00000261305	ENST00000563946	sense_overlapping	KNOWN	None	None	None	None	150038860	150039696	1	None	None
15	None	ENSG00000259792	ENST00000562716	antisense	KNOWN	None	None	None	None	78285747	78287631	1	None	None
2	None	ENSG00000238069	ENST00000416050	processed_pseudogene	KNOWN	None	None	None	None	157634218	157634884	-1	None	None
1	None	ENSG00000237168	ENST00000436981	processed_pseudogene	KNOWN	None	None	None	None	149664577	149664889	1	None	None
1	RNU6-1058P	ENSG00000252201	ENST00000516392	snRNA	KNOWN	None	48021	None	None	44182138	44182227	1	None	None
20	None	ENSG00000232448	ENST00000458004	lincRNA	KNOWN	None	None	None	None	10160883	10166423	1	None	None
HSCHR12_2_CTG2	TAS2R14	ENSG00000261984	ENST00000575008	protein_coding	KNOWN	None	14920	954	317	11090005	11091862	-1	None	T2R14, TRB1
HSCHR12_2_CTG2	TAS2R14	ENSG00000261984	ENST00000572837	processed_transcript	KNOWN	None	14920	None	None	11090007	11356120	-1	None	T2R14, TRB1
1	CHCHD4P5	ENSG00000225222	ENST00000436684	processed_pseudogene	KNOWN	None	44493	None	None	246342080	246342506	1	None	None
2	NANOGNBP1	ENSG00000226034	ENST00000448444	processed_pseudogene	KNOWN	None	42158	None	None	101276661	101277140	1	None	None
2	None	ENSG00000265899	ENST00000583614	miRNA	NOVEL	None	None	None	None	65894390	65894480	1	None	None
1	None	ENSG00000233674	ENST00000427515	processed_pseudogene	KNOWN	None	None	None	None	44209142	44209412	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000265795	ENST00000583333	snRNA	NOVEL	None	None	None	None	28883426	28883525	1	None	None
12	MIR3612	ENSG00000265635	ENST00000579753	miRNA	KNOWN	None	38951	None	None	128778637	128778723	1	None	hsa-mir-3612
8	None	ENSG00000253539	ENST00000523658	antisense	KNOWN	None	None	None	None	100808843	100811415	-1	None	None
12	None	ENSG00000255896	ENST00000564245	processed_transcript	KNOWN	None	None	None	None	7080084	7105520	1	None	None
12	None	ENSG00000255896	ENST00000539535	processed_transcript	KNOWN	None	None	None	None	7080105	7096352	1	None	None
2	None	ENSG00000272177	ENST00000606239	lincRNA	KNOWN	None	None	None	None	65958810	65960175	1	None	None
18	CCBE1	ENSG00000183287	ENST00000439986	protein_coding	KNOWN	CCDS32838	29426	1221	406	57098172	57364612	-1	None	FLJ30681, KIAA1983
18	CCBE1	ENSG00000183287	ENST00000589116	retained_intron	KNOWN	None	29426	None	None	57102378	57122444	-1	None	FLJ30681, KIAA1983
18	CCBE1	ENSG00000183287	ENST00000589419	protein_coding	PUTATIVE	None	29426	139	45	57115278	57333394	-1	None	FLJ30681, KIAA1983
18	CCBE1	ENSG00000183287	ENST00000398179	protein_coding	KNOWN	None	29426	408	135	57102442	57147472	-1	None	FLJ30681, KIAA1983
HSCHR6_MHC_MCF	GTF2H4	ENSG00000234370	ENST00000434226	protein_coding	KNOWN	None	4658	1389	462	30954519	30960441	1	None	TFB2, TFIIH, P52
HSCHR6_MHC_MCF	GTF2H4	ENSG00000234370	ENST00000416773	protein_coding	KNOWN	None	4658	1389	462	30954556	30960441	1	None	TFB2, TFIIH, P52
HSCHR6_MHC_MCF	GTF2H4	ENSG00000234370	ENST00000454718	protein_coding	KNOWN	None	4658	414	137	30954558	30956969	1	None	TFB2, TFIIH, P52
HSCHR6_MHC_MCF	GTF2H4	ENSG00000234370	ENST00000484029	retained_intron	KNOWN	None	4658	None	None	30955777	30958728	1	None	TFB2, TFIIH, P52
HSCHR6_MHC_MCF	GTF2H4	ENSG00000234370	ENST00000481309	retained_intron	KNOWN	None	4658	None	None	30958286	30960441	1	None	TFB2, TFIIH, P52
HSCHR6_MHC_MCF	GTF2H4	ENSG00000234370	ENST00000459816	retained_intron	KNOWN	None	4658	None	None	30958558	30960441	1	None	TFB2, TFIIH, P52
19	None	ENSG00000269161	ENST00000596192	antisense	KNOWN	None	None	None	None	17629139	17631374	-1	None	None
11	OR8V1P	ENSG00000230213	ENST00000395193	unprocessed_pseudogene	KNOWN	None	19613	None	None	55955855	55956727	-1	None	None
1	RNU6-695P	ENSG00000212459	ENST00000391157	snRNA	KNOWN	None	47658	None	None	90719014	90719117	-1	None	None
2	None	ENSG00000234169	ENST00000414965	lincRNA	KNOWN	None	None	None	None	101286354	101292500	-1	None	None
12	None	ENSG00000257221	ENST00000550306	antisense	KNOWN	None	None	None	None	109022463	109035094	1	None	None
12	None	ENSG00000257221	ENST00000547282	antisense	KNOWN	None	None	None	None	109029625	109034693	1	None	None
HSCHR6_MHC_QBL	KRT18P1	ENSG00000235541	ENST00000446694	processed_pseudogene	KNOWN	None	6434	None	None	28936910	28938240	-1	None	dJ25J6.3
1	RNU6-716P	ENSG00000202491	ENST00000365621	snRNA	KNOWN	None	47679	None	None	199977633	199977735	-1	None	None
HSCHR6_MHC_COX	HCG4P11	ENSG00000233935	ENST00000420026	unprocessed_pseudogene	KNOWN	None	22930	None	None	29684743	29685733	-1	None	HCGIV-11, HCGIV.10
15	MIR1827	ENSG00000221476	ENST00000408549	miRNA	KNOWN	None	35391	None	None	78330873	78330937	1	MIRN1827	hsa-mir-1827
1	RNU1-68P	ENSG00000252925	ENST00000517116	snRNA	KNOWN	None	48410	None	None	149671723	149671868	-1	None	None
1	RNU6-609P	ENSG00000202329	ENST00000365459	snRNA	KNOWN	None	47572	None	None	199983817	199983923	-1	None	None
1	None	ENSG00000229201	ENST00000435832	lincRNA	KNOWN	None	None	None	None	90976467	90999029	-1	None	None
2	None	ENSG00000221524	ENST00000408597	miRNA	NOVEL	None	None	None	None	66268384	66268524	1	None	None
14	None	ENSG00000259483	ENST00000560296	lincRNA	KNOWN	None	None	None	None	56770208	56777479	-1	None	None
19	None	ENSG00000243771	ENST00000469924	processed_pseudogene	KNOWN	None	None	None	None	17700404	17700880	-1	None	None
9	HMGA1P4	ENSG00000234705	ENST00000428643	antisense	KNOWN	None	39093	None	None	131425413	131425857	-1	None	None
11	RAPSN	ENSG00000165917	ENST00000298854	protein_coding	KNOWN	CCDS7936	9863	1239	412	47459308	47470730	-1	None	RNF205, CMS1D, CMS1E
11	RAPSN	ENSG00000165917	ENST00000528356	processed_transcript	PUTATIVE	None	9863	None	None	47459315	47463283	-1	None	RNF205, CMS1D, CMS1E
11	RAPSN	ENSG00000165917	ENST00000352508	protein_coding	KNOWN	CCDS7937	9863	1062	353	47459315	47470695	-1	None	RNF205, CMS1D, CMS1E
11	RAPSN	ENSG00000165917	ENST00000524487	protein_coding	NOVEL	None	9863	1275	424	47459316	47470605	-1	None	RNF205, CMS1D, CMS1E
11	RAPSN	ENSG00000165917	ENST00000529341	protein_coding	NOVEL	None	9863	1062	353	47460036	47470688	-1	None	RNF205, CMS1D, CMS1E
2	None	ENSG00000228488	ENST00000443030	lincRNA	KNOWN	None	None	None	None	101338683	101339344	-1	None	None
21	None	ENSG00000225330	ENST00000416555	processed_transcript	KNOWN	None	None	None	None	41002198	41098012	1	None	None
11	None	ENSG00000213604	ENST00000532142	processed_pseudogene	KNOWN	None	None	None	None	55972601	55973101	-1	None	None
1	RNU6-1283P	ENSG00000202184	ENST00000365314	snRNA	KNOWN	None	48246	None	None	246352316	246352420	-1	None	None
8	None	ENSG00000253912	ENST00000523025	processed_pseudogene	KNOWN	None	None	None	None	100816387	100816569	-1	None	None
1	None	ENSG00000223759	ENST00000443602	lincRNA	KNOWN	None	None	None	None	149672997	149677289	1	None	None
11	None	ENSG00000202522	ENST00000365652	misc_RNA	NOVEL	None	None	None	None	72477049	72477161	1	None	None
1	RNU6-570P	ENSG00000252860	ENST00000517051	snRNA	KNOWN	None	47533	None	None	200023189	200023293	1	None	None
2	None	ENSG00000227293	ENST00000411785	lincRNA	KNOWN	None	None	None	None	66462509	66463345	-1	None	None
10	VIM-AS1	ENSG00000229124	ENST00000437232	antisense	KNOWN	None	44879	None	None	17256238	17268897	-1	None	None
10	VIM-AS1	ENSG00000229124	ENST00000605833	antisense	KNOWN	None	44879	None	None	17257195	17271984	-1	None	None
1	SHMT1P1	ENSG00000224751	ENST00000419974	processed_pseudogene	KNOWN	None	10851	None	None	44315972	44317283	-1	SHMT1P	None
1	SMYD3-IT1	ENSG00000230184	ENST00000426929	sense_intronic	KNOWN	None	41406	None	None	246484965	246485740	-1	None	None
12	None	ENSG00000238895	ENST00000459586	snoRNA	NOVEL	None	None	None	None	128882977	128883067	1	None	None
11	MIR4692	ENSG00000265064	ENST00000583200	miRNA	KNOWN	None	41856	None	None	72494575	72494637	1	None	hsa-mir-4692
1	None	ENSG00000221403	ENST00000408476	miRNA	NOVEL	None	None	None	None	200113962	200114063	1	None	None
1	OR2M5	ENSG00000162727	ENST00000366476	protein_coding	KNOWN	CCDS31105	19576	939	312	248308450	248309388	1	OR2M5P	None
1	None	ENSG00000197844	ENST00000359348	pseudogene	NOVEL	None	None	None	None	149689368	149689854	1	None	None
11	OR8J2	ENSG00000254658	ENST00000533152	unprocessed_pseudogene	KNOWN	None	15311	None	None	55978334	55979298	-1	OR8J2P	None
3	AGGF1P3	ENSG00000241532	ENST00000493675	processed_pseudogene	KNOWN	None	38053	None	None	75702712	75703924	-1	None	None
2	None	ENSG00000232034	ENST00000430586	sense_intronic	KNOWN	None	None	None	None	101439123	101463682	1	None	None
9	RN7SL560P	ENSG00000264438	ENST00000577943	misc_RNA	KNOWN	None	46576	None	None	131472059	131472318	1	None	None
1	None	ENSG00000229220	ENST00000422446	processed_pseudogene	KNOWN	None	None	None	None	200116659	200117407	-1	None	None
16	RPS2	ENSG00000140988	ENST00000343262	protein_coding	KNOWN	CCDS10452	10404	882	293	2012053	2014861	-1	None	LLREP3, S2
16	RPS2	ENSG00000140988	ENST00000526522	protein_coding	NOVEL	None	10404	708	235	2012061	2014804	-1	None	LLREP3, S2
16	RPS2	ENSG00000140988	ENST00000526586	protein_coding	PUTATIVE	None	10404	468	155	2012062	2013257	-1	None	LLREP3, S2
16	RPS2	ENSG00000140988	ENST00000533186	protein_coding	NOVEL	None	10404	588	195	2012062	2014357	-1	None	LLREP3, S2
16	RPS2	ENSG00000140988	ENST00000532746	nonsense_mediated_decay	KNOWN	None	10404	191	62	2012062	2014368	-1	None	LLREP3, S2
16	RPS2	ENSG00000140988	ENST00000533872	retained_intron	KNOWN	None	10404	None	None	2012062	2014582	-1	None	LLREP3, S2
16	RPS2	ENSG00000140988	ENST00000527109	retained_intron	KNOWN	None	10404	None	None	2012062	2014631	-1	None	LLREP3, S2
16	RPS2	ENSG00000140988	ENST00000527871	retained_intron	KNOWN	None	10404	None	None	2012062	2014632	-1	None	LLREP3, S2
16	RPS2	ENSG00000140988	ENST00000530225	protein_coding	NOVEL	None	10404	594	197	2012062	2014632	-1	None	LLREP3, S2
16	RPS2	ENSG00000140988	ENST00000531065	retained_intron	KNOWN	None	10404	None	None	2012062	2014632	-1	None	LLREP3, S2
16	RPS2	ENSG00000140988	ENST00000533161	retained_intron	KNOWN	None	10404	None	None	2012062	2014814	-1	None	LLREP3, S2
16	RPS2	ENSG00000140988	ENST00000529806	protein_coding	NOVEL	None	10404	630	209	2012080	2014813	-1	None	LLREP3, S2
16	RPS2	ENSG00000140988	ENST00000534461	retained_intron	KNOWN	None	10404	None	None	2012375	2014366	-1	None	LLREP3, S2
16	RPS2	ENSG00000140988	ENST00000527302	protein_coding	NOVEL	None	10404	654	217	2012553	2014807	-1	None	LLREP3, S2
16	RPS2	ENSG00000140988	ENST00000526908	retained_intron	KNOWN	None	10404	None	None	2012644	2014539	-1	None	LLREP3, S2
16	RPS2	ENSG00000140988	ENST00000527826	retained_intron	KNOWN	None	10404	None	None	2012951	2014806	-1	None	LLREP3, S2
16	RPS2	ENSG00000140988	ENST00000563194	protein_coding	PUTATIVE	None	10404	132	43	2013213	2014842	-1	None	LLREP3, S2
10	RNU6-883P	ENSG00000207327	ENST00000384597	snRNA	KNOWN	None	47846	None	None	75288809	75288915	-1	None	None
3	H3F3AP3	ENSG00000230618	ENST00000497682	processed_pseudogene	KNOWN	None	42873	None	None	109128525	109128931	-1	None	p18
15	None	ENSG00000199633	ENST00000362763	snoRNA	NOVEL	None	None	None	None	78383514	78383639	-1	None	None
2	None	ENSG00000222591	ENST00000410659	miRNA	NOVEL	None	None	None	None	66466632	66466786	-1	None	None
21	None	ENSG00000231713	ENST00000457325	lincRNA	KNOWN	None	None	None	None	41099682	41102607	1	None	None
21	None	ENSG00000231713	ENST00000419826	lincRNA	KNOWN	None	None	None	None	41099773	41101611	1	None	None
2	None	ENSG00000263848	ENST00000581968	miRNA	NOVEL	None	None	None	None	157871684	157871769	-1	None	None
11	OR8I1P	ENSG00000255461	ENST00000529291	unprocessed_pseudogene	KNOWN	None	14828	None	None	56064017	56064947	-1	None	None
1	None	ENSG00000234232	ENST00000432978	lincRNA	KNOWN	None	None	None	None	149691432	149698605	-1	None	None
1	None	ENSG00000199666	ENST00000362796	snoRNA	NOVEL	None	None	None	None	91123307	91123520	1	None	None
17	ZNF287	ENSG00000141040	ENST00000395824	protein_coding	KNOWN	CCDS11179	13502	2286	761	16454701	16472483	-1	None	ZKSCAN13, ZSCAN45
17	ZNF287	ENSG00000141040	ENST00000395825	protein_coding	KNOWN	CCDS11179	13502	2286	761	16454701	16472520	-1	None	ZKSCAN13, ZSCAN45
17	ZNF287	ENSG00000141040	ENST00000498796	retained_intron	KNOWN	None	13502	None	None	16456424	16466578	-1	None	ZKSCAN13, ZSCAN45
17	ZNF287	ENSG00000141040	ENST00000578303	processed_transcript	PUTATIVE	None	13502	None	None	16470676	16472518	-1	None	ZKSCAN13, ZSCAN45
17	ZNF287	ENSG00000141040	ENST00000448349	protein_coding	KNOWN	None	13502	172	56	16470874	16472512	-1	None	ZKSCAN13, ZSCAN45
17	ZNF287	ENSG00000141040	ENST00000461555	processed_transcript	PUTATIVE	None	13502	None	None	16471138	16472488	-1	None	ZKSCAN13, ZSCAN45
9	None	ENSG00000223478	ENST00000443631	antisense	KNOWN	None	None	None	None	131486724	131495473	1	None	None
15	None	ENSG00000260988	ENST00000566715	lincRNA	KNOWN	None	None	None	None	78433585	78435515	1	None	None
10	None	ENSG00000237139	ENST00000450370	processed_pseudogene	KNOWN	None	None	None	None	75297561	75298149	1	None	None
11	RNU6-672P	ENSG00000206638	ENST00000383911	snRNA	KNOWN	None	47635	None	None	72580589	72580695	-1	None	None
1	None	ENSG00000207326	ENST00000384596	misc_RNA	NOVEL	None	None	None	None	246589308	246589421	-1	None	None
12	None	ENSG00000257025	ENST00000536216	lincRNA	KNOWN	None	None	None	None	128884523	128889359	1	None	None
2	None	ENSG00000225815	ENST00000412313	lincRNA	KNOWN	None	None	None	None	66554481	66555775	1	None	None
2	None	ENSG00000225815	ENST00000449673	lincRNA	KNOWN	None	None	None	None	66554493	66556116	1	None	None
1	FAM58BP	ENSG00000233827	ENST00000439056	processed_pseudogene	KNOWN	None	27373	None	None	200182806	200183450	1	FAM58B	None
1	FAM58BP	ENSG00000233827	ENST00000424019	processed_pseudogene	KNOWN	None	27373	None	None	200182656	200183643	1	FAM58B	None
16	PKD1P6	ENSG00000250251	ENST00000343738	transcribed_unprocessed_pseudogene	KNOWN	None	30070	None	None	15219099	15248421	-1	None	None
16	PKD1P6	ENSG00000250251	ENST00000424133	processed_transcript	KNOWN	None	30070	None	None	15220516	15225356	-1	None	None
16	PKD1P6	ENSG00000250251	ENST00000546358	processed_transcript	KNOWN	None	30070	None	None	15226577	15227702	-1	None	None
16	PKD1P6	ENSG00000250251	ENST00000540075	processed_transcript	KNOWN	None	30070	None	None	15226700	15227714	-1	None	None
16	PKD1P6	ENSG00000250251	ENST00000540502	processed_transcript	KNOWN	None	30070	None	None	15227345	15229010	-1	None	None
16	PKD1P6	ENSG00000250251	ENST00000538100	processed_transcript	KNOWN	None	30070	None	None	15229161	15231013	-1	None	None
2	None	ENSG00000213194	ENST00000434574	processed_pseudogene	KNOWN	None	None	None	None	158067359	158068051	-1	None	None
12	DENND5B-AS1	ENSG00000255867	ENST00000536397	antisense	KNOWN	None	42517	None	None	31742857	31768285	1	None	None
12	DENND5B-AS1	ENSG00000255867	ENST00000537346	antisense	KNOWN	None	42517	None	None	31744246	31768600	1	None	None
10	LRRTM3	ENSG00000198739	ENST00000361320	protein_coding	KNOWN	CCDS7270	19410	1746	581	68685764	68859588	1	None	None
10	LRRTM3	ENSG00000198739	ENST00000485868	processed_transcript	KNOWN	None	19410	None	None	68772048	68857687	1	None	None
10	LRRTM3	ENSG00000198739	ENST00000472278	processed_transcript	KNOWN	None	19410	None	None	68772076	68775216	1	None	None
2	None	ENSG00000230140	ENST00000439150	antisense	KNOWN	None	None	None	None	101589110	101592162	-1	None	None
2	None	ENSG00000230140	ENST00000446644	antisense	KNOWN	None	None	None	None	101589110	101593262	-1	None	None
2	None	ENSG00000230140	ENST00000433012	antisense	KNOWN	None	None	None	None	101592088	101593623	-1	None	None
1	None	ENSG00000263825	ENST00000390749	miRNA	NOVEL	None	None	None	None	149708860	149708951	-1	None	None
3	None	ENSG00000228980	ENST00000497996	lincRNA	KNOWN	None	None	None	None	109128837	109214014	1	None	None
3	None	ENSG00000228980	ENST00000489670	lincRNA	KNOWN	None	None	None	None	109129009	109137864	1	None	None
1	None	ENSG00000233593	ENST00000435649	lincRNA	KNOWN	None	None	None	None	91248543	91317072	-1	None	None
1	None	ENSG00000233593	ENST00000455680	retained_intron	KNOWN	None	None	None	None	91295104	91301718	-1	None	None
1	None	ENSG00000233593	ENST00000606660	retained_intron	KNOWN	None	None	None	None	91295104	91317175	-1	None	None
1	None	ENSG00000233593	ENST00000443802	lincRNA	KNOWN	None	None	None	None	91297426	91317207	-1	None	None
1	None	ENSG00000227728	ENST00000398739	unprocessed_pseudogene	KNOWN	None	None	None	None	246672340	246685894	-1	None	None
8	ZNF705C	ENSG00000215339	ENST00000530515	unprocessed_pseudogene	KNOWN	None	32283	None	None	12213645	12216900	1	None	ZNF705CP
HSCHR6_MHC_APD	MSH5	ENSG00000233345	ENST00000430216	protein_coding	KNOWN	None	7328	1527	508	31735723	31741807	1	None	None
HSCHR6_MHC_APD	MSH5	ENSG00000233345	ENST00000498391	processed_transcript	KNOWN	None	7328	None	None	31737296	31737739	1	None	None
HSCHR6_MHC_APD	MSH5	ENSG00000233345	ENST00000484258	processed_transcript	KNOWN	None	7328	None	None	31737296	31738265	1	None	None
HSCHR6_MHC_APD	MSH5	ENSG00000233345	ENST00000456436	protein_coding	KNOWN	None	7328	475	157	31737296	31738622	1	None	None
HSCHR6_MHC_APD	MSH5	ENSG00000233345	ENST00000414810	protein_coding	KNOWN	None	7328	1491	496	31737296	31741807	1	None	None
HSCHR6_MHC_APD	MSH5	ENSG00000233345	ENST00000454820	protein_coding	KNOWN	None	7328	1491	496	31737296	31741807	1	None	None
HSCHR6_MHC_APD	MSH5	ENSG00000233345	ENST00000442688	protein_coding	KNOWN	None	7328	1494	497	31737296	31741807	1	None	None
HSCHR6_MHC_APD	MSH5	ENSG00000233345	ENST00000458424	protein_coding	KNOWN	None	7328	1401	466	31737296	31741807	1	None	None
HSCHR6_MHC_APD	MSH5	ENSG00000233345	ENST00000487191	retained_intron	KNOWN	None	7328	None	None	31737326	31738633	1	None	None
HSCHR6_MHC_APD	MSH5	ENSG00000233345	ENST00000471854	nonsense_mediated_decay	KNOWN	None	7328	501	166	31739048	31741807	1	None	None
HSCHR6_MHC_APD	MSH5	ENSG00000233345	ENST00000486924	processed_transcript	KNOWN	None	7328	None	None	31739851	31742275	1	None	None
HSCHR6_MHC_APD	MSH5	ENSG00000233345	ENST00000427687	protein_coding	KNOWN	None	7328	471	156	31740343	31741807	1	None	None
HSCHR6_MHC_APD	MSH5	ENSG00000233345	ENST00000462035	retained_intron	KNOWN	None	7328	None	None	31741054	31741807	1	None	None
8	None	ENSG00000212414	ENST00000391112	snoRNA	NOVEL	None	None	None	None	101016811	101016877	1	None	None
17	RAB11FIP4	ENSG00000131242	ENST00000325874	protein_coding	KNOWN	CCDS11267	30267	1914	637	29718642	29865236	1	None	RAB11-FIP4, KIAA1821, MGC11316, FLJ00131
17	RAB11FIP4	ENSG00000131242	ENST00000581280	processed_transcript	PUTATIVE	None	30267	None	None	29718953	29719676	1	None	RAB11-FIP4, KIAA1821, MGC11316, FLJ00131
17	RAB11FIP4	ENSG00000131242	ENST00000582009	protein_coding	PUTATIVE	None	30267	489	162	29758577	29848241	1	None	RAB11-FIP4, KIAA1821, MGC11316, FLJ00131
17	RAB11FIP4	ENSG00000131242	ENST00000579908	processed_transcript	PUTATIVE	None	30267	None	None	29758831	29775513	1	None	RAB11-FIP4, KIAA1821, MGC11316, FLJ00131
17	RAB11FIP4	ENSG00000131242	ENST00000394744	protein_coding	KNOWN	None	30267	1608	535	29815018	29858867	1	None	RAB11-FIP4, KIAA1821, MGC11316, FLJ00131
17	RAB11FIP4	ENSG00000131242	ENST00000583755	protein_coding	PUTATIVE	None	30267	380	125	29815126	29852134	1	None	RAB11-FIP4, KIAA1821, MGC11316, FLJ00131
17	RAB11FIP4	ENSG00000131242	ENST00000579589	nonsense_mediated_decay	KNOWN	None	30267	153	50	29815136	29844726	1	None	RAB11-FIP4, KIAA1821, MGC11316, FLJ00131
17	RAB11FIP4	ENSG00000131242	ENST00000578694	nonsense_mediated_decay	KNOWN	None	30267	153	50	29815210	29848202	1	None	RAB11-FIP4, KIAA1821, MGC11316, FLJ00131
17	RAB11FIP4	ENSG00000131242	ENST00000585058	retained_intron	KNOWN	None	30267	None	None	29847924	29854611	1	None	RAB11-FIP4, KIAA1821, MGC11316, FLJ00131
17	RAB11FIP4	ENSG00000131242	ENST00000581460	retained_intron	KNOWN	None	30267	None	None	29848884	29854911	1	None	RAB11-FIP4, KIAA1821, MGC11316, FLJ00131
17	RAB11FIP4	ENSG00000131242	ENST00000578148	processed_transcript	PUTATIVE	None	30267	None	None	29857990	29858870	1	None	RAB11-FIP4, KIAA1821, MGC11316, FLJ00131
1	None	ENSG00000226500	ENST00000451620	processed_pseudogene	KNOWN	None	None	None	None	149725851	149726260	-1	None	None
4	TECRP1	ENSG00000235043	ENST00000513307	processed_pseudogene	KNOWN	None	44050	None	None	87870821	87871265	-1	None	None
4	TECRP1	ENSG00000235043	ENST00000444365	processed_pseudogene	KNOWN	None	44050	None	None	87870818	87871276	-1	None	None
13	ZAR1L	ENSG00000189167	ENST00000533490	protein_coding	KNOWN	CCDS45023	37116	966	321	32877837	32889481	-1	None	None
13	ZAR1L	ENSG00000189167	ENST00000345108	protein_coding	KNOWN	CCDS45023	37116	966	321	32877908	32886091	-1	None	None
8	MIR1273A	ENSG00000221753	ENST00000408826	miRNA	KNOWN	None	35340	None	None	101036210	101036312	-1	MIRN1273, MIR1273	hsa-mir-1273
21	MIR4760	ENSG00000263973	ENST00000585040	miRNA	KNOWN	None	41698	None	None	41584279	41584358	-1	None	hsa-mir-4760
16	RNA5SP429	ENSG00000200558	ENST00000363688	rRNA	KNOWN	None	43329	None	None	68776383	68776491	1	RN5S429	None
11	None	ENSG00000255546	ENST00000530177	lincRNA	KNOWN	None	None	None	None	126891649	126923448	1	None	None
3	RARRES2P1	ENSG00000241622	ENST00000474487	processed_pseudogene	KNOWN	None	48700	None	None	75707685	75708165	1	None	None
12	None	ENSG00000231560	ENST00000420905	lincRNA	KNOWN	None	None	None	None	10100736	10105935	-1	None	None
17	MIR142	ENSG00000265206	ENST00000579003	antisense	KNOWN	None	31529	None	None	56408245	56409869	-1	MIRN142	hsa-mir-142
17	MIR142	ENSG00000265206	ENST00000384835	miRNA	KNOWN	None	31529	None	None	56408593	56408679	-1	MIRN142	hsa-mir-142
1	None	ENSG00000213045	ENST00000425737	processed_pseudogene	KNOWN	None	None	None	None	200298289	200298805	1	None	None
15	None	ENSG00000200606	ENST00000363736	misc_RNA	NOVEL	None	None	None	None	59867827	59867922	-1	None	None
2	None	ENSG00000241254	ENST00000437790	lincRNA	KNOWN	None	None	None	None	66554481	66555973	1	None	None
7	STEAP2	ENSG00000157214	ENST00000428074	protein_coding	KNOWN	None	17885	545	180	89796904	89856337	1	PCANAP1	IPCA-1, STAMP1, STMP
7	STEAP2	ENSG00000157214	ENST00000287908	protein_coding	KNOWN	CCDS5615	17885	1473	490	89841000	89866945	1	PCANAP1	IPCA-1, STAMP1, STMP
7	STEAP2	ENSG00000157214	ENST00000394626	protein_coding	KNOWN	CCDS43612	17885	1365	454	89841058	89866992	1	PCANAP1	IPCA-1, STAMP1, STMP
7	STEAP2	ENSG00000157214	ENST00000394622	protein_coding	KNOWN	CCDS5615	17885	1473	490	89841174	89866908	1	PCANAP1	IPCA-1, STAMP1, STMP
7	STEAP2	ENSG00000157214	ENST00000394632	protein_coding	PUTATIVE	CCDS59064	17885	1260	419	89841174	89866922	1	PCANAP1	IPCA-1, STAMP1, STMP
7	STEAP2	ENSG00000157214	ENST00000426158	protein_coding	KNOWN	None	17885	264	87	89841187	89854660	1	PCANAP1	IPCA-1, STAMP1, STMP
7	STEAP2	ENSG00000157214	ENST00000402625	protein_coding	PUTATIVE	None	17885	1212	403	89841245	89867451	1	PCANAP1	IPCA-1, STAMP1, STMP
7	STEAP2	ENSG00000157214	ENST00000394629	protein_coding	KNOWN	CCDS43612	17885	1365	454	89843134	89866945	1	PCANAP1	IPCA-1, STAMP1, STMP
7	STEAP2	ENSG00000157214	ENST00000482369	retained_intron	KNOWN	None	17885	None	None	89844588	89856347	1	PCANAP1	IPCA-1, STAMP1, STMP
7	STEAP2	ENSG00000157214	ENST00000394621	protein_coding	KNOWN	CCDS5615	17885	1473	490	89841200	89861938	1	PCANAP1	IPCA-1, STAMP1, STMP
16	None	ENSG00000260798	ENST00000563916	antisense	KNOWN	None	None	None	None	68848233	68857429	-1	None	None
4	CAMK2D	ENSG00000145349	ENST00000394524	protein_coding	NOVEL	CCDS43263	1462	1437	478	114372188	114682601	-1	CAMKD	None
4	CAMK2D	ENSG00000145349	ENST00000513132	protein_coding	KNOWN	None	1462	547	181	114374117	114434998	-1	CAMKD	None
4	CAMK2D	ENSG00000145349	ENST00000511664	protein_coding	NOVEL	None	1462	1602	533	114375243	114682374	-1	CAMKD	None
4	CAMK2D	ENSG00000145349	ENST00000342666	protein_coding	KNOWN	CCDS3703	1462	1500	499	114375261	114682224	-1	CAMKD	None
4	CAMK2D	ENSG00000145349	ENST00000515496	protein_coding	PUTATIVE	None	1462	1533	510	114376911	114682224	-1	CAMKD	None
4	CAMK2D	ENSG00000145349	ENST00000514328	protein_coding	PUTATIVE	None	1462	1497	498	114376911	114682224	-1	CAMKD	None
4	CAMK2D	ENSG00000145349	ENST00000394522	protein_coding	KNOWN	CCDS47127	1462	1479	492	114377765	114682719	-1	CAMKD	None
4	CAMK2D	ENSG00000145349	ENST00000505990	protein_coding	NOVEL	None	1462	1539	512	114378339	114682339	-1	CAMKD	None
4	CAMK2D	ENSG00000145349	ENST00000379773	protein_coding	KNOWN	CCDS3704	1462	1437	478	114378344	114682286	-1	CAMKD	None
4	CAMK2D	ENSG00000145349	ENST00000508738	protein_coding	KNOWN	CCDS54797	1462	1470	489	114378487	114682224	-1	CAMKD	None
4	CAMK2D	ENSG00000145349	ENST00000509594	protein_coding	NOVEL	None	1462	583	193	114381303	114438799	-1	CAMKD	None
4	CAMK2D	ENSG00000145349	ENST00000509907	processed_transcript	PUTATIVE	None	1462	None	None	114675895	114682572	-1	CAMKD	None
4	CAMK2D	ENSG00000145349	ENST00000505132	retained_intron	KNOWN	None	1462	None	None	114680271	114682607	-1	CAMKD	None
4	CAMK2D	ENSG00000145349	ENST00000454265	protein_coding	KNOWN	None	1462	1575	524	114372188	114683083	-1	CAMKD	None
4	CAMK2D	ENSG00000145349	ENST00000429180	protein_coding	KNOWN	None	1462	1560	519	114372188	114683083	-1	CAMKD	None
4	CAMK2D	ENSG00000145349	ENST00000418639	protein_coding	KNOWN	None	1462	1542	513	114372188	114683083	-1	CAMKD	None
4	CAMK2D	ENSG00000145349	ENST00000394526	protein_coding	KNOWN	None	1462	1533	510	114372188	114683083	-1	CAMKD	None
4	CAMK2D	ENSG00000145349	ENST00000296402	protein_coding	KNOWN	CCDS3704	1462	1437	478	114372188	114683083	-1	CAMKD	None
11	None	ENSG00000254867	ENST00000533995	processed_pseudogene	KNOWN	None	None	None	None	65751150	65751802	-1	None	None
15	None	ENSG00000259708	ENST00000559954	antisense	KNOWN	None	None	None	None	78542844	78556329	-1	None	None
15	None	ENSG00000259708	ENST00000558971	antisense	KNOWN	None	None	None	None	78549887	78556498	-1	None	None
10	None	ENSG00000268584	ENST00000595595	antisense	KNOWN	None	None	None	None	75385754	75386548	1	None	None
12	None	ENSG00000256630	ENST00000535243	unprocessed_pseudogene	KNOWN	None	None	None	None	128922323	128923751	-1	None	None
11	None	ENSG00000238752	ENST00000459530	snoRNA	NOVEL	None	None	None	None	65820615	65820699	1	None	None
2	None	ENSG00000223947	ENST00000452364	antisense	KNOWN	None	None	None	None	101610138	101618706	-1	None	None
12	None	ENSG00000256803	ENST00000544225	antisense	KNOWN	None	None	None	None	10167839	10183205	-1	None	None
2	MIR4778	ENSG00000264525	ENST00000577635	miRNA	KNOWN	None	41648	None	None	66585381	66585460	-1	None	hsa-mir-4778
17	MIR4736	ENSG00000264399	ENST00000581591	miRNA	KNOWN	None	41804	None	None	56413337	56413383	-1	None	hsa-mir-4736
21	DSCAM-AS1	ENSG00000235123	ENST00000427451	antisense	KNOWN	None	40197	None	None	41755010	41757285	1	None	M41
21	DSCAM-AS1	ENSG00000235123	ENST00000422749	antisense	KNOWN	None	40197	None	None	41755010	41757285	1	None	M41
21	DSCAM-AS1	ENSG00000235123	ENST00000444046	antisense	KNOWN	None	40197	None	None	41755010	41757285	1	None	M41
21	DSCAM-AS1	ENSG00000235123	ENST00000455354	antisense	KNOWN	None	40197	None	None	41755010	41757285	1	None	M41
16	FTLP14	ENSG00000260459	ENST00000562087	processed_pseudogene	KNOWN	None	37964	None	None	68856490	68856973	1	None	None
3	None	ENSG00000236138	ENST00000489078	processed_pseudogene	KNOWN	None	None	None	None	75718082	75719336	1	None	None
4	None	ENSG00000248196	ENST00000505836	processed_pseudogene	KNOWN	None	None	None	None	88087996	88088886	1	None	None
1	None	ENSG00000242663	ENST00000420462	antisense	KNOWN	None	None	None	None	149754433	149783312	-1	None	None
2	None	ENSG00000232164	ENST00000428647	lincRNA	KNOWN	None	None	None	None	66610438	66619582	1	None	None
11	FAM8A2P	ENSG00000254722	ENST00000528813	unprocessed_pseudogene	KNOWN	None	16373	None	None	56098823	56099964	-1	None	None
2	None	ENSG00000271532	ENST00000602999	processed_pseudogene	KNOWN	None	None	None	None	101684840	101685118	1	None	None
12	RNU5F-4P	ENSG00000252390	ENST00000516581	snRNA	KNOWN	None	42516	None	None	31747027	31747140	-1	None	None
17	None	ENSG00000266051	ENST00000581197	miRNA	NOVEL	None	None	None	None	56533485	56533575	-1	None	None
9	None	ENSG00000227167	ENST00000443359	lincRNA	KNOWN	None	None	None	None	18360595	18362218	-1	None	None
11	None	ENSG00000234751	ENST00000439829	processed_pseudogene	KNOWN	None	None	None	None	72651543	72652157	1	None	None
8	None	ENSG00000202310	ENST00000365440	misc_RNA	NOVEL	None	None	None	None	101171096	101171203	1	None	None
2	RN7SL548P	ENSG00000265860	ENST00000579970	misc_RNA	KNOWN	None	46564	None	None	101710031	101710285	1	None	None
11	None	ENSG00000255087	ENST00000527317	lincRNA	KNOWN	None	None	None	None	126936897	126971212	1	None	None
11	None	ENSG00000238763	ENST00000459039	snoRNA	NOVEL	None	None	None	None	65920092	65920196	1	None	None
17	None	ENSG00000266648	ENST00000581726	processed_pseudogene	KNOWN	None	None	None	None	56553499	56554311	-1	None	None
1	None	ENSG00000233030	ENST00000428289	antisense	KNOWN	None	None	None	None	149757215	149764576	-1	None	None
12	None	ENSG00000256626	ENST00000538284	unprocessed_pseudogene	KNOWN	None	None	None	None	10193447	10198310	1	None	None
11	ALKBH3-AS1	ENSG00000244926	ENST00000499194	antisense	KNOWN	None	48670	None	None	43930842	43942476	-1	None	None
11	ALKBH3-AS1	ENSG00000244926	ENST00000528285	antisense	KNOWN	None	48670	None	None	43933812	43942494	-1	None	None
11	ALKBH3-AS1	ENSG00000244926	ENST00000534287	antisense	KNOWN	None	48670	None	None	43933866	43942409	-1	None	None
11	ALKBH3-AS1	ENSG00000244926	ENST00000527960	antisense	KNOWN	None	48670	None	None	43933997	43942444	-1	None	None
9	MIR3152	ENSG00000264638	ENST00000579801	miRNA	KNOWN	None	38379	None	None	18573304	18573377	1	None	hsa-mir-3152
4	GAPDHP60	ENSG00000248180	ENST00000513846	processed_pseudogene	KNOWN	None	4153	None	None	88128244	88129238	1	GAPDL4, GAPDHL4	None
8	None	ENSG00000253299	ENST00000517879	processed_pseudogene	KNOWN	None	None	None	None	101177454	101177706	-1	None	None
2	SNORD89	ENSG00000212283	ENST00000390981	snoRNA	KNOWN	None	32750	None	None	101889398	101889511	-1	None	HBII-289
3	LINC00960	ENSG00000242516	ENST00000463183	lincRNA	KNOWN	None	48710	None	None	75721542	75728454	1	None	None
3	LINC00960	ENSG00000242516	ENST00000492922	lincRNA	KNOWN	None	48710	None	None	75723564	75725776	1	None	None
14	None	ENSG00000241984	ENST00000496515	processed_pseudogene	KNOWN	None	None	None	None	39625946	39627056	1	None	None
1	None	ENSG00000237950	ENST00000446167	antisense	KNOWN	None	None	None	None	44410042	44411974	-1	None	None
1	None	ENSG00000237950	ENST00000445226	antisense	KNOWN	None	None	None	None	44410044	44411958	-1	None	None
1	None	ENSG00000237950	ENST00000412378	antisense	KNOWN	None	None	None	None	44410046	44412223	-1	None	None
19	UQCRFS1	ENSG00000169021	ENST00000304863	protein_coding	KNOWN	CCDS12415	12587	825	274	29698173	29704448	-1	None	RIS1, RIP1, UQCR5, RISP
16	None	ENSG00000199979	ENST00000363109	misc_RNA	NOVEL	None	None	None	None	68919479	68919580	-1	None	None
1	OR2M2	ENSG00000198601	ENST00000359682	protein_coding	KNOWN	CCDS31106	8268	1044	347	248343288	248344331	1	None	OST423, OR2M2Q
X	MAGEB3	ENSG00000198798	ENST00000378986	protein_coding	KNOWN	CCDS14220	6810	1041	346	30248553	30255607	1	None	CT3.5
X	MAGEB3	ENSG00000198798	ENST00000361644	protein_coding	KNOWN	CCDS14220	6810	1041	346	30248553	30255607	1	None	CT3.5
1	LINC00862	ENSG00000203721	ENST00000367355	lincRNA	KNOWN	None	21901	None	None	200311672	200342920	-1	C1orf98, SMIM16	None
1	LINC00862	ENSG00000203721	ENST00000367356	lincRNA	KNOWN	None	21901	None	None	200311672	200343482	-1	C1orf98, SMIM16	None
2	MIR5696	ENSG00000264857	ENST00000578474	miRNA	KNOWN	None	43516	None	None	101925912	101925996	1	None	hsa-mir-5696
1	None	ENSG00000264207	ENST00000577853	antisense	KNOWN	None	None	None	None	149802876	149804109	-1	None	None
2	MEIS1-AS3	ENSG00000226819	ENST00000454167	antisense	KNOWN	None	40369	None	None	66653867	66660602	-1	None	None
4	MIR3945	ENSG00000266698	ENST00000581853	miRNA	KNOWN	None	38954	None	None	185772167	185772264	-1	None	hsa-mir-3945
16	None	ENSG00000260999	ENST00000562790	lincRNA	KNOWN	None	None	None	None	68961450	68982164	-1	None	None
17	None	ENSG00000264672	ENST00000580589	antisense	KNOWN	None	None	None	None	56597198	56634286	1	None	None
17	None	ENSG00000264672	ENST00000578022	antisense	KNOWN	None	None	None	None	56602901	56634338	1	None	None
17	None	ENSG00000264672	ENST00000580769	antisense	KNOWN	None	None	None	None	56603030	56621668	1	None	None
14	None	ENSG00000259083	ENST00000556537	lincRNA	KNOWN	None	None	None	None	39644089	39645084	-1	None	None
1	None	ENSG00000242042	ENST00000366308	lincRNA	KNOWN	None	None	None	None	246679341	246687589	-1	None	None
8	None	ENSG00000199667	ENST00000362797	misc_RNA	NOVEL	None	None	None	None	101197366	101197467	1	None	None
11	None	ENSG00000255320	ENST00000531086	antisense	KNOWN	None	None	None	None	66012311	66013710	-1	None	None
2	None	ENSG00000226058	ENST00000414446	processed_pseudogene	KNOWN	None	None	None	None	101992049	101992517	1	None	None
8	GULOP	ENSG00000234770	ENST00000454030	unitary_pseudogene	KNOWN	None	4695	None	None	27417791	27446590	1	None	GULO, scurvy
11	OR8K2P	ENSG00000255134	ENST00000524645	unprocessed_pseudogene	KNOWN	None	14832	None	None	56102618	56103544	1	None	None
3	ROBO2	ENSG00000185008	ENST00000487694	protein_coding	NOVEL	CCDS54609	10250	4185	1394	75955846	77696661	1	None	KIAA1568
3	ROBO2	ENSG00000185008	ENST00000602589	protein_coding	NOVEL	None	10250	3210	1069	75955953	77656962	1	None	KIAA1568
3	ROBO2	ENSG00000185008	ENST00000475034	processed_transcript	PUTATIVE	None	10250	None	None	76360247	77147364	1	None	KIAA1568
3	ROBO2	ENSG00000185008	ENST00000461745	protein_coding	KNOWN	CCDS43109	10250	4137	1378	77089037	77699115	1	None	KIAA1568
3	ROBO2	ENSG00000185008	ENST00000332191	protein_coding	NOVEL	None	10250	4320	1439	77089881	77696267	1	None	KIAA1568
3	ROBO2	ENSG00000185008	ENST00000473767	nonsense_mediated_decay	KNOWN	None	10250	1695	564	77089881	77696267	1	None	KIAA1568
3	ROBO2	ENSG00000185008	ENST00000490991	protein_coding	PUTATIVE	None	10250	1028	341	77637932	77667331	1	None	KIAA1568
3	ROBO2	ENSG00000185008	ENST00000471893	protein_coding	PUTATIVE	None	10250	642	213	77645825	77657105	1	None	KIAA1568
3	ROBO2	ENSG00000185008	ENST00000469233	processed_transcript	KNOWN	None	10250	None	None	77652895	77666988	1	None	KIAA1568
3	ROBO2	ENSG00000185008	ENST00000475334	protein_coding	PUTATIVE	None	10250	625	207	77666877	77695270	1	None	KIAA1568
3	ROBO2	ENSG00000185008	ENST00000470802	retained_intron	KNOWN	None	10250	None	None	77678273	77698651	1	None	KIAA1568
3	ROBO2	ENSG00000185008	ENST00000490534	protein_coding	PUTATIVE	None	10250	595	197	77684076	77695416	1	None	KIAA1568
12	None	ENSG00000258017	ENST00000548149	antisense	KNOWN	None	None	None	None	49521565	49522662	1	None	None
12	None	ENSG00000258017	ENST00000552893	antisense	KNOWN	None	None	None	None	49521569	49522491	1	None	None
12	None	ENSG00000258017	ENST00000547387	antisense	KNOWN	None	None	None	None	49521794	49525145	1	None	None
12	None	ENSG00000258017	ENST00000547712	antisense	KNOWN	None	None	None	None	49524954	49541652	1	None	None
12	None	ENSG00000258017	ENST00000551496	antisense	KNOWN	None	None	None	None	49525493	49541648	1	None	None
15	None	ENSG00000272418	ENST00000558192	sense_intronic	KNOWN	None	None	None	None	78573292	78574532	-1	None	None
4	None	ENSG00000250572	ENST00000503666	lincRNA	KNOWN	None	None	None	None	88183083	88187974	-1	None	None
16	None	ENSG00000266801	ENST00000568179	sense_intronic	KNOWN	None	None	None	None	68967723	68971628	1	None	None
19	None	ENSG00000257355	ENST00000547473	nonsense_mediated_decay	KNOWN	None	None	231	76	12128703	12163782	-1	None	None
1	HIST2H2BD	ENSG00000220323	ENST00000369385	processed_pseudogene	KNOWN	None	20517	None	None	149814608	149815100	1	H2BFO	H2B/s, H2B/o
8	RPS20P22	ENSG00000239218	ENST00000488192	processed_transcript	KNOWN	None	36379	None	None	38291865	38293182	-1	None	None
8	RPS20P22	ENSG00000239218	ENST00000473700	transcribed_processed_pseudogene	KNOWN	None	36379	None	None	38291905	38292261	-1	None	None
12	RPL31P50	ENSG00000231788	ENST00000471002	processed_pseudogene	KNOWN	None	36799	None	None	31750048	31750343	-1	None	None
1	MRPL20	ENSG00000242485	ENST00000344843	protein_coding	KNOWN	CCDS26	14478	450	149	1337288	1342693	-1	None	FLJ10024
1	MRPL20	ENSG00000242485	ENST00000493287	processed_transcript	KNOWN	None	14478	None	None	1337293	1341687	-1	None	FLJ10024
1	MRPL20	ENSG00000242485	ENST00000487659	retained_intron	KNOWN	None	14478	None	None	1337293	1342648	-1	None	FLJ10024
1	MRPL20	ENSG00000242485	ENST00000492508	protein_coding	PUTATIVE	None	14478	201	66	1337562	1342378	-1	None	FLJ10024
1	MRPL20	ENSG00000242485	ENST00000482352	protein_coding	PUTATIVE	None	14478	468	155	1340489	1342670	-1	None	FLJ10024
1	MRPL20	ENSG00000242485	ENST00000477686	processed_transcript	KNOWN	None	14478	None	None	1341629	1342615	-1	None	FLJ10024
X	None	ENSG00000271677	ENST00000604558	unprocessed_pseudogene	KNOWN	None	None	None	None	129679560	129680448	1	None	None
1	None	ENSG00000261716	ENST00000564237	sense_overlapping	KNOWN	None	None	None	None	149816065	149820591	-1	None	None
2	None	ENSG00000223826	ENST00000427042	lincRNA	KNOWN	None	None	None	None	102095852	102103284	1	None	None
8	None	ENSG00000253217	ENST00000519566	lincRNA	KNOWN	None	None	None	None	101349823	101362935	1	None	None
16	RNU6-898P	ENSG00000202497	ENST00000365627	snRNA	KNOWN	None	47861	None	None	69040955	69041058	-1	None	None
2	MEIS1-AS2	ENSG00000230749	ENST00000439433	antisense	KNOWN	None	40370	None	None	66666220	66667444	-1	None	None
1	None	ENSG00000230813	ENST00000412354	unprocessed_pseudogene	KNOWN	None	None	None	None	246690332	246691457	1	None	None
11	RPL5P29	ENSG00000242208	ENST00000482972	processed_pseudogene	KNOWN	None	36335	None	None	56124804	56125697	1	None	None
16	None	ENSG00000271129	ENST00000604510	processed_pseudogene	KNOWN	None	None	None	None	69059763	69060546	-1	None	None
X	None	ENSG00000237860	ENST00000424402	unprocessed_pseudogene	KNOWN	None	None	None	None	115822838	115824153	1	None	None
12	None	ENSG00000221749	ENST00000408822	miRNA	NOVEL	None	None	None	None	129154425	129154519	-1	None	None
2	RGPD4	ENSG00000196862	ENST00000408999	protein_coding	NOVEL	CCDS46381	32417	5277	1758	108443393	108507297	1	None	RGP4, DKFZp686P0288
2	RGPD4	ENSG00000196862	ENST00000354986	protein_coding	KNOWN	None	32417	5301	1766	108443388	108499652	1	None	RGP4, DKFZp686P0288
13	RNA5SP35	ENSG00000212559	ENST00000391257	rRNA	KNOWN	None	42611	None	None	94677724	94677852	-1	RN5S35	None
1	HIST2H2BC	ENSG00000203819	ENST00000498492	processed_pseudogene	KNOWN	None	20516	None	None	149821760	149822339	-1	None	H2B/t
15	None	ENSG00000259562	ENST00000560331	transcribed_processed_pseudogene	KNOWN	None	None	None	None	78582869	78583563	-1	None	None
1	None	ENSG00000230615	ENST00000434244	lincRNA	KNOWN	None	None	None	None	44509600	44570647	1	None	None
1	None	ENSG00000230615	ENST00000431800	lincRNA	KNOWN	None	None	None	None	44514049	44542084	1	None	None
1	None	ENSG00000230615	ENST00000437643	lincRNA	KNOWN	None	None	None	None	44514064	44541950	1	None	None
1	None	ENSG00000230615	ENST00000453688	lincRNA	KNOWN	None	None	None	None	44516786	44541864	1	None	None
1	None	ENSG00000230615	ENST00000447959	lincRNA	KNOWN	None	None	None	None	44516787	44542142	1	None	None
10	None	ENSG00000271848	ENST00000606726	antisense	KNOWN	None	None	None	None	75413797	75427786	1	None	None
10	None	ENSG00000271848	ENST00000607450	antisense	KNOWN	None	None	None	None	75413858	75434477	1	None	None
1	None	ENSG00000225446	ENST00000425185	lincRNA	KNOWN	None	None	None	None	91317316	91319843	1	None	None
2	None	ENSG00000237549	ENST00000420113	processed_pseudogene	KNOWN	None	None	None	None	102125992	102126684	-1	None	None
4	None	ENSG00000249173	ENST00000506479	lincRNA	KNOWN	None	None	None	None	185815025	185819918	-1	None	None
4	None	ENSG00000249173	ENST00000507183	lincRNA	KNOWN	None	None	None	None	185815055	185820608	-1	None	None
4	None	ENSG00000249173	ENST00000515864	lincRNA	KNOWN	None	None	None	None	185815059	185820605	-1	None	None
13	GPC6-AS1	ENSG00000236520	ENST00000436329	antisense	KNOWN	None	39909	None	None	94806447	94840245	-1	None	None
19	None	ENSG00000235081	ENST00000450182	processed_pseudogene	KNOWN	None	None	None	None	54732911	54734088	1	None	None
14	None	ENSG00000258671	ENST00000553698	processed_pseudogene	KNOWN	None	None	None	None	39680985	39681459	1	None	None
X	None	ENSG00000234454	ENST00000435583	unprocessed_pseudogene	KNOWN	None	None	None	None	151851487	151852303	1	None	None
7	CYP2W1	ENSG00000073067	ENST00000308919	protein_coding	KNOWN	CCDS5319	20243	1473	490	1022835	1029276	1	None	FLJ20359, MGC34287
7	CYP2W1	ENSG00000073067	ENST00000340150	protein_coding	NOVEL	None	20243	1227	408	1022994	1029276	1	None	FLJ20359, MGC34287
7	CYP2W1	ENSG00000073067	ENST00000462453	retained_intron	KNOWN	None	20243	None	None	1026037	1026911	1	None	FLJ20359, MGC34287
7	CYP2W1	ENSG00000073067	ENST00000468456	retained_intron	KNOWN	None	20243	None	None	1026050	1027016	1	None	FLJ20359, MGC34287
7	CYP2W1	ENSG00000073067	ENST00000415893	protein_coding	PUTATIVE	None	20243	867	288	1026293	1028440	1	None	FLJ20359, MGC34287
11	None	ENSG00000254461	ENST00000533576	antisense	KNOWN	None	None	None	None	66027038	66029305	-1	None	None
16	RPS2P45	ENSG00000244378	ENST00000490535	transcribed_processed_pseudogene	KNOWN	None	25709	None	None	69067578	69068424	1	None	FLJ12331
16	RPS2P45	ENSG00000244378	ENST00000469997	processed_transcript	KNOWN	None	25709	None	None	69067889	69069945	1	None	FLJ12331
1	None	ENSG00000229112	ENST00000426536	unprocessed_pseudogene	KNOWN	None	None	None	None	246691864	246692143	-1	None	None
2	MEIS1-AS1	ENSG00000244522	ENST00000454595	antisense	KNOWN	None	40371	None	None	66666575	66668968	-1	None	None
HSCHR6_MHC_QBL	None	ENSG00000264866	ENST00000579910	misc_RNA	NOVEL	None	None	None	None	28945253	28945548	1	None	None
17	None	ENSG00000212195	ENST00000390893	snoRNA	NOVEL	None	None	None	None	56709003	56709197	-1	None	None
7	None	ENSG00000264868	ENST00000585152	lincRNA	KNOWN	None	None	None	None	87900207	87903065	-1	None	None
1	None	ENSG00000223945	ENST00000426826	processed_pseudogene	KNOWN	None	None	None	None	150025846	150027020	1	None	None
1	None	ENSG00000272094	ENST00000606898	lincRNA	KNOWN	None	None	None	None	91326107	91328477	-1	None	None
1	None	ENSG00000230623	ENST00000427825	lincRNA	KNOWN	None	None	None	None	200443048	200447421	1	None	None
HG306_PATCH	TTC12	ENSG00000262377	ENST00000570674	protein_coding	KNOWN	None	23700	2118	705	113185251	113237114	1	None	FLJ13859, FLJ20535, TPARM
HG306_PATCH	TTC12	ENSG00000262377	ENST00000575633	protein_coding	KNOWN	None	23700	322	106	113185301	113195404	1	None	FLJ13859, FLJ20535, TPARM
HG306_PATCH	TTC12	ENSG00000262377	ENST00000573323	protein_coding	KNOWN	None	23700	606	201	113185301	113209525	1	None	FLJ13859, FLJ20535, TPARM
HG306_PATCH	TTC12	ENSG00000262377	ENST00000576888	protein_coding	PUTATIVE	None	23700	513	170	113185305	113209507	1	None	FLJ13859, FLJ20535, TPARM
HG306_PATCH	TTC12	ENSG00000262377	ENST00000574419	protein_coding	NOVEL	None	23700	543	180	113185305	113209522	1	None	FLJ13859, FLJ20535, TPARM
HG306_PATCH	TTC12	ENSG00000262377	ENST00000570588	protein_coding	NOVEL	None	23700	764	253	113185313	113211455	1	None	FLJ13859, FLJ20535, TPARM
HG306_PATCH	TTC12	ENSG00000262377	ENST00000572649	nonsense_mediated_decay	KNOWN	None	23700	453	150	113185324	113237108	1	None	FLJ13859, FLJ20535, TPARM
HG306_PATCH	TTC12	ENSG00000262377	ENST00000572987	nonsense_mediated_decay	KNOWN	None	23700	2199	732	113185329	113244019	1	None	FLJ13859, FLJ20535, TPARM
HG306_PATCH	TTC12	ENSG00000262377	ENST00000574319	protein_coding	NOVEL	None	23700	2010	669	113185533	113254266	1	None	FLJ13859, FLJ20535, TPARM
HG306_PATCH	TTC12	ENSG00000262377	ENST00000571625	protein_coding	KNOWN	None	23700	502	166	113185576	113200699	1	None	FLJ13859, FLJ20535, TPARM
HG306_PATCH	TTC12	ENSG00000262377	ENST00000572072	retained_intron	KNOWN	None	23700	None	None	113185786	113194932	1	None	FLJ13859, FLJ20535, TPARM
HG306_PATCH	TTC12	ENSG00000262377	ENST00000570696	retained_intron	KNOWN	None	23700	None	None	113186963	113196425	1	None	FLJ13859, FLJ20535, TPARM
HG306_PATCH	TTC12	ENSG00000262377	ENST00000574586	protein_coding	NOVEL	None	23700	2136	711	113186963	113237109	1	None	FLJ13859, FLJ20535, TPARM
HG306_PATCH	TTC12	ENSG00000262377	ENST00000577086	protein_coding	PUTATIVE	None	23700	269	88	113186965	113210161	1	None	FLJ13859, FLJ20535, TPARM
HG306_PATCH	TTC12	ENSG00000262377	ENST00000572254	nonsense_mediated_decay	KNOWN	None	23700	253	83	113196331	113230730	1	None	FLJ13859, FLJ20535, TPARM
HG306_PATCH	TTC12	ENSG00000262377	ENST00000573317	retained_intron	KNOWN	None	23700	None	None	113200452	113209535	1	None	FLJ13859, FLJ20535, TPARM
HG306_PATCH	TTC12	ENSG00000262377	ENST00000572115	retained_intron	KNOWN	None	23700	None	None	113205749	113210277	1	None	FLJ13859, FLJ20535, TPARM
HG306_PATCH	TTC12	ENSG00000262377	ENST00000575000	processed_transcript	KNOWN	None	23700	None	None	113212377	113230719	1	None	FLJ13859, FLJ20535, TPARM
HG306_PATCH	TTC12	ENSG00000262377	ENST00000575621	nonsense_mediated_decay	KNOWN	None	23700	249	82	113233174	113242263	1	None	FLJ13859, FLJ20535, TPARM
HG306_PATCH	TTC12	ENSG00000262377	ENST00000576717	processed_transcript	KNOWN	None	23700	None	None	113235103	113237109	1	None	FLJ13859, FLJ20535, TPARM
HG306_PATCH	TTC12	ENSG00000262377	ENST00000575184	retained_intron	KNOWN	None	23700	None	None	113235506	113237108	1	None	FLJ13859, FLJ20535, TPARM
8	FAM90A19P	ENSG00000237122	ENST00000533611	unprocessed_pseudogene	KNOWN	None	32267	None	None	7611204	7614214	1	FAM90A19	None
3	None	ENSG00000244199	ENST00000498782	processed_pseudogene	KNOWN	None	None	None	None	182178205	182178860	-1	None	None
12	RN7SKP161	ENSG00000223042	ENST00000411110	misc_RNA	KNOWN	None	45885	None	None	10236785	10237089	1	None	None
17	RNU1-60P	ENSG00000202077	ENST00000365207	snRNA	KNOWN	None	48402	None	None	56736510	56736666	-1	None	None
HSCHR6_MHC_QBL	HCG15	ENSG00000225368	ENST00000448434	processed_transcript	KNOWN	None	18361	None	None	28953980	28955261	1	None	dJ25J6.6
3	RN7SL92P	ENSG00000265592	ENST00000580591	misc_RNA	KNOWN	None	46108	None	None	75762167	75762465	-1	None	None
1	None	ENSG00000225300	ENST00000417786	sense_intronic	KNOWN	None	None	None	None	246769175	246771404	1	None	None
2	None	ENSG00000232556	ENST00000452117	processed_pseudogene	KNOWN	None	None	None	None	102137296	102138438	-1	None	None
1	PHKA1P1	ENSG00000232882	ENST00000420457	processed_pseudogene	KNOWN	None	33919	None	None	91358549	91359169	-1	None	None
11	None	ENSG00000256568	ENST00000541254	lincRNA	KNOWN	None	None	None	None	72887739	72892741	1	None	None
12	None	ENSG00000255838	ENST00000539058	unprocessed_pseudogene	KNOWN	None	None	None	None	129428819	129429748	-1	None	None
7	None	ENSG00000240449	ENST00000488310	antisense	KNOWN	None	None	None	None	150060866	150069679	-1	None	None
8	FAM66A	ENSG00000227888	ENST00000525829	processed_transcript	PUTATIVE	None	30444	None	None	12219528	12226124	1	None	None
8	FAM66A	ENSG00000227888	ENST00000602658	lincRNA	KNOWN	None	30444	None	None	12219891	12245805	1	None	None
8	FAM66A	ENSG00000227888	ENST00000433621	processed_transcript	KNOWN	None	30444	None	None	12219527	12268510	1	None	None
17	None	ENSG00000266826	ENST00000583666	processed_pseudogene	KNOWN	None	None	None	None	56737941	56738960	-1	None	None
1	None	ENSG00000260088	ENST00000568695	lincRNA	KNOWN	None	None	None	None	200638635	200663378	1	None	None
13	None	ENSG00000212057	ENST00000390768	miRNA	NOVEL	None	None	None	None	95117554	95117644	-1	None	None
10	VPS26A	ENSG00000122958	ENST00000373382	protein_coding	KNOWN	CCDS7286	12711	984	327	70883268	70932617	1	VPS26	Hbeta58, PEP8A
10	VPS26A	ENSG00000122958	ENST00000489656	nonsense_mediated_decay	KNOWN	None	12711	192	63	70883912	70928288	1	VPS26	Hbeta58, PEP8A
10	VPS26A	ENSG00000122958	ENST00000497564	processed_transcript	KNOWN	None	12711	None	None	70883942	70917936	1	VPS26	Hbeta58, PEP8A
10	VPS26A	ENSG00000122958	ENST00000490696	processed_transcript	KNOWN	None	12711	None	None	70883968	70931016	1	VPS26	Hbeta58, PEP8A
10	VPS26A	ENSG00000122958	ENST00000467852	processed_transcript	KNOWN	None	12711	None	None	70884002	70928384	1	VPS26	Hbeta58, PEP8A
10	VPS26A	ENSG00000122958	ENST00000489794	protein_coding	NOVEL	None	12711	681	226	70892654	70931115	1	VPS26	Hbeta58, PEP8A
10	VPS26A	ENSG00000122958	ENST00000497022	processed_transcript	KNOWN	None	12711	None	None	70929790	70931033	1	VPS26	Hbeta58, PEP8A
10	VPS26A	ENSG00000122958	ENST00000263559	protein_coding	KNOWN	CCDS7286	12711	984	327	70883908	70932612	1	VPS26	Hbeta58, PEP8A
10	VPS26A	ENSG00000122958	ENST00000395098	protein_coding	KNOWN	CCDS41536	12711	756	251	70883908	70932612	1	VPS26	Hbeta58, PEP8A
10	VPS26A	ENSG00000122958	ENST00000546041	protein_coding	KNOWN	None	12711	933	310	70883940	70931281	1	VPS26	Hbeta58, PEP8A
10	VPS26A	ENSG00000122958	ENST00000541711	protein_coding	KNOWN	None	12711	651	216	70884003	70931118	1	VPS26	Hbeta58, PEP8A
12	AK4P3	ENSG00000233381	ENST00000418260	processed_pseudogene	KNOWN	None	21596	None	None	31768705	31769373	-1	AK3L2	AK3L2P
12	AK4P3	ENSG00000233381	ENST00000438686	processed_pseudogene	KNOWN	None	21596	None	None	31768702	31769373	-1	AK3L2	AK3L2P
17	RNU1-108P	ENSG00000199426	ENST00000362556	snRNA	KNOWN	None	48450	None	None	56743898	56744058	-1	None	None
10	None	ENSG00000242288	ENST00000399449	processed_transcript	KNOWN	None	None	None	None	75434053	75490224	-1	None	None
10	None	ENSG00000242288	ENST00000449532	processed_transcript	KNOWN	None	None	None	None	75478936	75490272	-1	None	None
1	None	ENSG00000228955	ENST00000449978	processed_pseudogene	KNOWN	None	None	None	None	246795553	246795780	-1	None	None
HSCHR6_MHC_QBL	HCG16	ENSG00000243286	ENST00000423359	processed_transcript	KNOWN	None	20424	None	None	28954577	28956313	1	None	dJ25J6.7
13	RNA5SP36	ENSG00000222129	ENST00000410197	rRNA	KNOWN	None	42612	None	None	95303651	95303783	-1	RN5S36	None
3	RNA5SP129	ENSG00000222208	ENST00000410276	rRNA	KNOWN	None	43029	None	None	37383140	37383257	1	RN5S129	None
8	None	ENSG00000253824	ENST00000519844	lincRNA	KNOWN	None	None	None	None	101393488	101426687	-1	None	None
8	None	ENSG00000253824	ENST00000523870	lincRNA	KNOWN	None	None	None	None	101393702	101408441	-1	None	None
1	RPL5P6	ENSG00000232393	ENST00000425640	processed_pseudogene	KNOWN	None	35890	None	None	91489476	91490361	1	None	None
17	None	ENSG00000266561	ENST00000578177	processed_pseudogene	KNOWN	None	None	None	None	56752647	56752823	1	None	None
1	RPL34P6	ENSG00000231333	ENST00000432390	processed_pseudogene	KNOWN	None	35810	None	None	200832936	200833280	1	None	None
2	None	ENSG00000232046	ENST00000433396	lincRNA	KNOWN	None	None	None	None	66801162	66922637	1	None	None
2	None	ENSG00000232046	ENST00000423168	lincRNA	KNOWN	None	None	None	None	66917000	66922713	1	None	None
2	None	ENSG00000232046	ENST00000435389	lincRNA	KNOWN	None	None	None	None	66918567	66922715	1	None	None
2	None	ENSG00000232046	ENST00000428590	lincRNA	KNOWN	None	None	None	None	66918570	66942762	1	None	None
2	None	ENSG00000232046	ENST00000412944	lincRNA	KNOWN	None	None	None	None	66918578	66957289	1	None	None
7	None	ENSG00000239377	ENST00000497366	antisense	KNOWN	None	None	None	None	150076943	150080973	-1	None	None
12	ZNF268	ENSG00000090612	ENST00000536435	protein_coding	KNOWN	CCDS45012	13061	2844	947	133757995	133783698	1	None	HZF3
12	ZNF268	ENSG00000090612	ENST00000228289	protein_coding	KNOWN	CCDS45012	13061	2844	947	133758060	133781609	1	None	HZF3
12	ZNF268	ENSG00000090612	ENST00000537973	retained_intron	KNOWN	None	13061	None	None	133758081	133764739	1	None	HZF3
12	ZNF268	ENSG00000090612	ENST00000546126	nonsense_mediated_decay	KNOWN	None	13061	117	38	133758081	133768092	1	None	HZF3
12	ZNF268	ENSG00000090612	ENST00000541211	protein_coding	KNOWN	CCDS53851	13061	504	167	133758081	133778936	1	None	HZF3
12	ZNF268	ENSG00000090612	ENST00000500625	protein_coding	NOVEL	None	13061	284	93	133758089	133778805	1	None	HZF3
12	ZNF268	ENSG00000090612	ENST00000539248	protein_coding	KNOWN	CCDS59240	13061	408	135	133758097	133779026	1	None	HZF3
12	ZNF268	ENSG00000090612	ENST00000542711	protein_coding	KNOWN	CCDS53853	13061	303	100	133758097	133779233	1	None	HZF3
12	ZNF268	ENSG00000090612	ENST00000536899	protein_coding	KNOWN	CCDS53854	13061	207	68	133758100	133781707	1	None	HZF3
12	ZNF268	ENSG00000090612	ENST00000542986	protein_coding	PUTATIVE	None	13061	537	178	133758100	133781759	1	None	HZF3
12	ZNF268	ENSG00000090612	ENST00000541975	protein_coding	NOVEL	None	13061	105	34	133758114	133768194	1	None	HZF3
12	ZNF268	ENSG00000090612	ENST00000541009	protein_coding	KNOWN	CCDS59239	13061	582	193	133758145	133781759	1	None	HZF3
12	ZNF268	ENSG00000090612	ENST00000592241	protein_coding	KNOWN	CCDS53852	13061	381	126	133758206	133778934	1	None	HZF3
12	ZNF268	ENSG00000090612	ENST00000588312	nonsense_mediated_decay	KNOWN	None	13061	135	44	133758206	133778934	1	None	HZF3
12	ZNF268	ENSG00000090612	ENST00000585488	retained_intron	KNOWN	None	13061	None	None	133768041	133778755	1	None	HZF3
12	ZNF268	ENSG00000090612	ENST00000591951	protein_coding	NOVEL	None	13061	334	110	133768083	133779026	1	None	HZF3
12	ZNF268	ENSG00000090612	ENST00000534953	retained_intron	KNOWN	None	13061	None	None	133768307	133778896	1	None	HZF3
12	ZNF268	ENSG00000090612	ENST00000416488	protein_coding	KNOWN	None	13061	1077	358	133707570	133778955	1	None	HZF3
12	ZNF268	ENSG00000090612	ENST00000537565	protein_coding	KNOWN	None	13061	2361	786	133758100	133781707	1	None	HZF3
HSCHR6_MHC_QBL	OR2AD1P	ENSG00000237043	ENST00000443734	unprocessed_pseudogene	KNOWN	None	14749	None	None	28994457	28995384	-1	None	OR2AD1, hs6M1-8P
2	None	ENSG00000226925	ENST00000428188	antisense	KNOWN	None	None	None	None	102789081	102798568	-1	None	None
1	OR2M3	ENSG00000228198	ENST00000456743	protein_coding	KNOWN	CCDS31107	8269	939	312	248366332	248367392	1	OR2M6, OR2M3P	OST003
17	RNU1-52P	ENSG00000206917	ENST00000384190	snRNA	KNOWN	None	48394	None	None	56754935	56755098	-1	None	None
3	MTRNR2L12	ENSG00000269028	ENST00000600213	protein_coding	KNOWN	None	37169	75	24	96335981	96337000	-1	None	None
1	None	ENSG00000227163	ENST00000436802	processed_pseudogene	KNOWN	None	None	None	None	44553630	44554149	-1	None	None
1	None	ENSG00000206817	ENST00000384090	misc_RNA	NOVEL	None	None	None	None	91727182	91727281	1	None	None
1	RN7SL480P	ENSG00000266187	ENST00000581481	misc_RNA	KNOWN	None	46496	None	None	150183930	150184221	1	None	None
17	RNU1-85P	ENSG00000200997	ENST00000364127	snRNA	KNOWN	None	48427	None	None	56756888	56757051	-1	None	None
HG104_HG975_PATCH	EXOSC4	ENSG00000260189	ENST00000568113	protein_coding	KNOWN	None	18189	738	245	145160798	145162819	1	None	hRrp41p, FLJ20591, Rrp41p, RRP41, RRP41A, Ski6p, SKI6, p12A
HG104_HG975_PATCH	EXOSC4	ENSG00000260189	ENST00000567591	protein_coding	PUTATIVE	None	18189	471	156	145160820	145162688	1	None	hRrp41p, FLJ20591, Rrp41p, RRP41, RRP41A, Ski6p, SKI6, p12A
HG104_HG975_PATCH	EXOSC4	ENSG00000260189	ENST00000569065	protein_coding	PUTATIVE	None	18189	785	260	145161595	145162751	1	None	hRrp41p, FLJ20591, Rrp41p, RRP41, RRP41A, Ski6p, SKI6, p12A
15	ULK4P1	ENSG00000261279	ENST00000564495	retained_intron	KNOWN	None	15775	None	None	32698798	32726838	-1	FAM7A1	D-X
15	ULK4P1	ENSG00000261279	ENST00000565174	transcribed_unprocessed_pseudogene	KNOWN	None	15775	None	None	32702759	32720517	-1	FAM7A1	D-X
15	ULK4P1	ENSG00000261279	ENST00000565949	processed_transcript	KNOWN	None	15775	None	None	32702782	32727193	-1	FAM7A1	D-X
15	ULK4P1	ENSG00000261279	ENST00000565207	retained_intron	KNOWN	None	15775	None	None	32716709	32727085	-1	FAM7A1	D-X
3	RNU7-73P	ENSG00000239105	ENST00000458743	snRNA	KNOWN	None	34169	None	None	37614642	37614704	-1	None	U7.73
11	None	ENSG00000254855	ENST00000530805	antisense	KNOWN	None	None	None	None	66032248	66033137	-1	None	None
HSCHR6_MHC_QBL	OR2P1P	ENSG00000235195	ENST00000412953	unprocessed_pseudogene	KNOWN	None	8272	None	None	29039603	29040378	-1	None	hs6M1-26
1	RNU2-17P	ENSG00000222222	ENST00000410290	snRNA	KNOWN	None	48510	None	None	150209315	150209504	1	None	None
14	None	ENSG00000259038	ENST00000556301	antisense	KNOWN	None	None	None	None	69093883	69095162	-1	None	None
2	DNAH6	ENSG00000115423	ENST00000476689	retained_intron	KNOWN	None	2951	None	None	84743579	84811978	1	DNHL1	Dnahc6, HL-2, FLJ37357
2	DNAH6	ENSG00000115423	ENST00000468661	processed_transcript	KNOWN	None	2951	None	None	84743661	84771453	1	DNHL1	Dnahc6, HL-2, FLJ37357
2	DNAH6	ENSG00000115423	ENST00000237449	protein_coding	KNOWN	CCDS46348	2951	12477	4158	84744943	85046713	1	DNHL1	Dnahc6, HL-2, FLJ37357
2	DNAH6	ENSG00000115423	ENST00000494025	retained_intron	KNOWN	None	2951	None	None	84744947	84811915	1	DNHL1	Dnahc6, HL-2, FLJ37357
2	DNAH6	ENSG00000115423	ENST00000602588	protein_coding	NOVEL	None	2951	1656	551	84885431	84924966	1	DNHL1	Dnahc6, HL-2, FLJ37357
2	DNAH6	ENSG00000115423	ENST00000389394	protein_coding	KNOWN	CCDS46348	2951	12477	4158	84743579	85046713	1	DNHL1	Dnahc6, HL-2, FLJ37357
2	DNAH6	ENSG00000115423	ENST00000398278	protein_coding	KNOWN	None	2951	7593	2530	84743579	84924914	1	DNHL1	Dnahc6, HL-2, FLJ37357
17	RNU6-518P	ENSG00000251865	ENST00000516056	snRNA	KNOWN	None	47481	None	None	56913260	56913355	1	None	None
2	None	ENSG00000205716	ENST00000421987	processed_pseudogene	KNOWN	None	None	None	None	102866317	102866715	-1	None	None
1	FEN1P1	ENSG00000215873	ENST00000401028	processed_pseudogene	KNOWN	None	3651	None	None	91793926	91795070	1	FENL1	None
X	None	ENSG00000230159	ENST00000446495	lincRNA	KNOWN	None	None	None	None	115826878	115828156	-1	None	None
1	None	ENSG00000271845	ENST00000607002	antisense	KNOWN	None	None	None	None	150227489	150229681	-1	None	None
11	DLG2	ENSG00000150672	ENST00000398309	protein_coding	KNOWN	CCDS41696	2901	2613	870	83166055	84634633	-1	None	PSD-93, PSD93, chapsyn-110, PPP1R58
11	DLG2	ENSG00000150672	ENST00000426717	protein_coding	KNOWN	CCDS44692	2901	1005	334	83166220	83393437	-1	None	PSD-93, PSD93, chapsyn-110, PPP1R58
11	DLG2	ENSG00000150672	ENST00000376104	protein_coding	KNOWN	CCDS44690	2901	2928	975	83168962	85338314	-1	None	PSD-93, PSD93, chapsyn-110, PPP1R58
11	DLG2	ENSG00000150672	ENST00000418306	protein_coding	KNOWN	CCDS44691	2901	2250	749	83170109	83984323	-1	None	PSD-93, PSD93, chapsyn-110, PPP1R58
11	DLG2	ENSG00000150672	ENST00000404783	protein_coding	NOVEL	None	2901	1047	348	83170389	83393468	-1	None	PSD-93, PSD93, chapsyn-110, PPP1R58
11	DLG2	ENSG00000150672	ENST00000330014	protein_coding	NOVEL	None	2901	2376	791	83170465	83984231	-1	None	PSD-93, PSD93, chapsyn-110, PPP1R58
11	DLG2	ENSG00000150672	ENST00000529159	retained_intron	KNOWN	None	2901	None	None	83170551	83173192	-1	None	PSD-93, PSD93, chapsyn-110, PPP1R58
11	DLG2	ENSG00000150672	ENST00000524982	protein_coding	NOVEL	None	2901	2601	866	83170652	84634224	-1	None	PSD-93, PSD93, chapsyn-110, PPP1R58
11	DLG2	ENSG00000150672	ENST00000532653	protein_coding	NOVEL	None	2901	2559	852	83170832	84634465	-1	None	PSD-93, PSD93, chapsyn-110, PPP1R58
11	DLG2	ENSG00000150672	ENST00000531015	protein_coding	PUTATIVE	None	2901	2436	811	83172585	83984323	-1	None	PSD-93, PSD93, chapsyn-110, PPP1R58
11	DLG2	ENSG00000150672	ENST00000457267	protein_coding	NOVEL	None	2901	496	164	83173111	83195256	-1	None	PSD-93, PSD93, chapsyn-110, PPP1R58
11	DLG2	ENSG00000150672	ENST00000420775	protein_coding	NOVEL	None	2901	664	220	83180330	83393341	-1	None	PSD-93, PSD93, chapsyn-110, PPP1R58
11	DLG2	ENSG00000150672	ENST00000524601	protein_coding	NOVEL	None	2901	328	108	83183814	83393049	-1	None	PSD-93, PSD93, chapsyn-110, PPP1R58
11	DLG2	ENSG00000150672	ENST00000398304	protein_coding	PUTATIVE	None	2901	390	129	83191436	83393312	-1	None	PSD-93, PSD93, chapsyn-110, PPP1R58
11	DLG2	ENSG00000150672	ENST00000530800	protein_coding	PUTATIVE	None	2901	429	142	83197198	83435999	-1	None	PSD-93, PSD93, chapsyn-110, PPP1R58
11	DLG2	ENSG00000150672	ENST00000529399	protein_coding	KNOWN	None	2901	281	92	83243794	83436446	-1	None	PSD-93, PSD93, chapsyn-110, PPP1R58
11	DLG2	ENSG00000150672	ENST00000434967	protein_coding	PUTATIVE	None	2901	326	107	83252734	83435965	-1	None	PSD-93, PSD93, chapsyn-110, PPP1R58
11	DLG2	ENSG00000150672	ENST00000529111	retained_intron	KNOWN	None	2901	None	None	83342231	84634440	-1	None	PSD-93, PSD93, chapsyn-110, PPP1R58
11	DLG2	ENSG00000150672	ENST00000456295	retained_intron	KNOWN	None	2901	None	None	83343916	83393444	-1	None	PSD-93, PSD93, chapsyn-110, PPP1R58
11	DLG2	ENSG00000150672	ENST00000398301	protein_coding	PUTATIVE	None	2901	1659	552	83497484	84028382	-1	None	PSD-93, PSD93, chapsyn-110, PPP1R58
11	DLG2	ENSG00000150672	ENST00000398299	protein_coding	PUTATIVE	None	2901	698	231	83674006	83878047	-1	None	PSD-93, PSD93, chapsyn-110, PPP1R58
11	DLG2	ENSG00000150672	ENST00000524941	processed_transcript	KNOWN	None	2901	None	None	83691604	83878045	-1	None	PSD-93, PSD93, chapsyn-110, PPP1R58
11	DLG2	ENSG00000150672	ENST00000529401	nonsense_mediated_decay	KNOWN	None	2901	114	37	83770478	83984323	-1	None	PSD-93, PSD93, chapsyn-110, PPP1R58
11	DLG2	ENSG00000150672	ENST00000527466	processed_transcript	KNOWN	None	2901	None	None	83810038	84148852	-1	None	PSD-93, PSD93, chapsyn-110, PPP1R58
11	DLG2	ENSG00000150672	ENST00000527088	protein_coding	PUTATIVE	None	2901	224	73	84245656	84844167	-1	None	PSD-93, PSD93, chapsyn-110, PPP1R58
11	DLG2	ENSG00000150672	ENST00000530589	processed_transcript	PUTATIVE	None	2901	None	None	84397843	84634181	-1	None	PSD-93, PSD93, chapsyn-110, PPP1R58
11	DLG2	ENSG00000150672	ENST00000530260	processed_transcript	PUTATIVE	None	2901	None	None	85180382	85236066	-1	None	PSD-93, PSD93, chapsyn-110, PPP1R58
11	DLG2	ENSG00000150672	ENST00000472545	processed_transcript	KNOWN	None	2901	None	None	85180382	85338966	-1	None	PSD-93, PSD93, chapsyn-110, PPP1R58
11	DLG2	ENSG00000150672	ENST00000526147	processed_transcript	KNOWN	None	2901	None	None	85309701	85338793	-1	None	PSD-93, PSD93, chapsyn-110, PPP1R58
11	DLG2	ENSG00000150672	ENST00000543673	protein_coding	KNOWN	CCDS44690	2901	2928	975	83170109	85309740	-1	None	PSD-93, PSD93, chapsyn-110, PPP1R58
11	DLG2	ENSG00000150672	ENST00000280241	protein_coding	KNOWN	CCDS55782	2901	2730	909	83170109	84028188	-1	None	PSD-93, PSD93, chapsyn-110, PPP1R58
11	DLG2	ENSG00000150672	ENST00000537455	protein_coding	KNOWN	None	2901	1863	620	83170465	83984231	-1	None	PSD-93, PSD93, chapsyn-110, PPP1R58
11	DLG2	ENSG00000150672	ENST00000376106	protein_coding	KNOWN	CCDS44692	2901	1005	334	83170465	83984231	-1	None	PSD-93, PSD93, chapsyn-110, PPP1R58
19	ZNF878	ENSG00000257446	ENST00000547628	protein_coding	NOVEL	CCDS45984	37246	1596	531	12154620	12163754	-1	None	None
19	ZNF878	ENSG00000257446	ENST00000602107	protein_coding	KNOWN	None	37246	1737	578	12154620	12167127	-1	None	None
3	MIR4273	ENSG00000266396	ENST00000582824	miRNA	KNOWN	None	38339	None	None	75787431	75787514	1	None	hsa-mir-4273
17	None	ENSG00000241462	ENST00000471945	processed_pseudogene	KNOWN	None	None	None	None	56975137	56977053	1	None	None
8	None	ENSG00000253361	ENST00000521623	lincRNA	KNOWN	None	None	None	None	38401170	38410198	-1	None	None
7	EIF4A1P13	ENSG00000225701	ENST00000415667	processed_pseudogene	KNOWN	None	37934	None	None	88078103	88078332	-1	None	None
1	None	ENSG00000260698	ENST00000570141	lincRNA	KNOWN	None	None	None	None	246845410	246848377	1	None	None
1	MROH3P	ENSG00000233217	ENST00000435735	unitary_pseudogene	KNOWN	None	33122	None	None	200890122	200935658	1	C1orf81	None
10	PCBD1	ENSG00000166228	ENST00000493961	processed_transcript	KNOWN	None	8646	None	None	72642037	72645656	-1	DCOH, PCBD	PCD
10	PCBD1	ENSG00000166228	ENST00000299299	protein_coding	KNOWN	CCDS31217	8646	315	104	72643267	72648541	-1	DCOH, PCBD	PCD
10	PCBD1	ENSG00000166228	ENST00000493228	processed_transcript	KNOWN	None	8646	None	None	72643689	72648011	-1	DCOH, PCBD	PCD
17	GNA13	ENSG00000120063	ENST00000439174	protein_coding	KNOWN	CCDS11661	4381	1134	377	63006833	63052957	-1	None	G13, MGC46138
17	GNA13	ENSG00000120063	ENST00000541118	protein_coding	PUTATIVE	None	4381	849	282	63009906	63051892	-1	None	G13, MGC46138
1	None	ENSG00000238526	ENST00000458929	snoRNA	NOVEL	None	None	None	None	150234093	150234196	1	None	None
2	None	ENSG00000236785	ENST00000430344	processed_pseudogene	KNOWN	None	None	None	None	103027703	103028568	1	None	None
11	None	ENSG00000254762	ENST00000533287	antisense	KNOWN	None	None	None	None	66035106	66035600	-1	None	None
1	None	ENSG00000235021	ENST00000442712	lincRNA	KNOWN	None	None	None	None	246853349	246855123	1	None	None
14	None	ENSG00000258623	ENST00000556919	antisense	KNOWN	None	None	None	None	69150128	69152282	-1	None	None
7	None	ENSG00000207094	ENST00000384366	snoRNA	NOVEL	None	None	None	None	88078407	88078546	-1	None	None
1	LINC00568	ENSG00000228126	ENST00000416894	lincRNA	KNOWN	None	43713	None	None	150488233	150490508	1	None	ncRNA-a1
1	KRT8P47	ENSG00000271647	ENST00000604727	processed_pseudogene	KNOWN	None	44461	None	None	44568978	44570375	-1	None	None
HSCHR6_MHC_COX	RXRB	ENSG00000227322	ENST00000443603	protein_coding	KNOWN	None	10478	1614	537	33082997	33090021	-1	None	NR2B2, H-2RIIBP, RCoR-1
HSCHR6_MHC_COX	RXRB	ENSG00000227322	ENST00000436753	protein_coding	KNOWN	None	10478	1602	533	33082997	33090095	-1	None	NR2B2, H-2RIIBP, RCoR-1
HSCHR6_MHC_COX	RXRB	ENSG00000227322	ENST00000463338	nonsense_mediated_decay	KNOWN	None	10478	240	79	33083629	33090044	-1	None	NR2B2, H-2RIIBP, RCoR-1
HSCHR6_MHC_COX	RXRB	ENSG00000227322	ENST00000531100	protein_coding	NOVEL	None	10478	1044	347	33083979	33090260	-1	None	NR2B2, H-2RIIBP, RCoR-1
HSCHR6_MHC_COX	RXRB	ENSG00000227322	ENST00000473482	retained_intron	KNOWN	None	10478	None	None	33084073	33084769	-1	None	NR2B2, H-2RIIBP, RCoR-1
HSCHR6_MHC_COX	RXRB	ENSG00000227322	ENST00000437617	protein_coding	PUTATIVE	None	10478	287	94	33084458	33085847	-1	None	NR2B2, H-2RIIBP, RCoR-1
HSCHR6_MHC_COX	RXRB	ENSG00000227322	ENST00000528918	retained_intron	KNOWN	None	10478	None	None	33085020	33090069	-1	None	NR2B2, H-2RIIBP, RCoR-1
HSCHR6_MHC_COX	RXRB	ENSG00000227322	ENST00000467727	retained_intron	KNOWN	None	10478	None	None	33085194	33088044	-1	None	NR2B2, H-2RIIBP, RCoR-1
HSCHR6_MHC_COX	RXRB	ENSG00000227322	ENST00000550731	protein_coding	KNOWN	None	10478	1179	392	33082998	33090062	-1	None	NR2B2, H-2RIIBP, RCoR-1
HSCHR6_MHC_COX	RXRB	ENSG00000227322	ENST00000552822	protein_coding	KNOWN	None	10478	1170	389	33082998	33090062	-1	None	NR2B2, H-2RIIBP, RCoR-1
14	None	ENSG00000270503	ENST00000604759	processed_pseudogene	KNOWN	None	None	None	None	39684269	39685539	1	None	None
7	None	ENSG00000270812	ENST00000603580	processed_pseudogene	KNOWN	None	None	None	None	88084624	88085506	1	None	None
2	MIR4772	ENSG00000264764	ENST00000581495	miRNA	KNOWN	None	41741	None	None	103048749	103048826	1	None	hsa-mir-4772
20	HIGD1AP15	ENSG00000237005	ENST00000416198	processed_pseudogene	KNOWN	None	43010	None	None	10315067	10315346	1	None	None
17	HOXB1	ENSG00000120094	ENST00000239174	protein_coding	KNOWN	CCDS32675	5111	906	301	46605888	46608359	-1	HOX2, HOX2I	None
17	HOXB1	ENSG00000120094	ENST00000577092	protein_coding	PUTATIVE	None	5111	699	232	46606859	46608272	-1	HOX2, HOX2I	None
14	None	ENSG00000242941	ENST00000493832	processed_pseudogene	KNOWN	None	None	None	None	69159807	69160300	1	None	None
12	RNU7-169P	ENSG00000238457	ENST00000459456	snRNA	KNOWN	None	45703	None	None	109062224	109062284	1	None	None
1	None	ENSG00000228879	ENST00000413092	processed_pseudogene	KNOWN	None	None	None	None	246918813	246919134	-1	None	None
3	None	ENSG00000235257	ENST00000449586	antisense	KNOWN	None	None	None	None	37786923	37795488	-1	None	None
3	None	ENSG00000235257	ENST00000438136	antisense	KNOWN	None	None	None	None	37795180	37903229	-1	None	None
3	None	ENSG00000235257	ENST00000450990	antisense	KNOWN	None	None	None	None	37832242	37903239	-1	None	None
3	None	ENSG00000235257	ENST00000420870	antisense	KNOWN	None	None	None	None	37832356	37903265	-1	None	None
3	None	ENSG00000235257	ENST00000439246	retained_intron	KNOWN	None	None	None	None	37847320	37862591	-1	None	None
3	None	ENSG00000235257	ENST00000445429	antisense	KNOWN	None	None	None	None	37847569	37903219	-1	None	None
3	None	ENSG00000235257	ENST00000457661	antisense	KNOWN	None	None	None	None	37850203	37903271	-1	None	None
3	None	ENSG00000235257	ENST00000429532	antisense	KNOWN	None	None	None	None	37850214	37903211	-1	None	None
3	None	ENSG00000235257	ENST00000366441	antisense	KNOWN	None	None	None	None	37859768	37903256	-1	None	None
3	None	ENSG00000235257	ENST00000430620	antisense	KNOWN	None	None	None	None	37860224	37903211	-1	None	None
3	None	ENSG00000235257	ENST00000594579	antisense	KNOWN	None	None	None	None	37862407	37876654	-1	None	None
7	None	ENSG00000235639	ENST00000429649	processed_pseudogene	KNOWN	None	None	None	None	88141344	88142502	-1	None	None
3	None	ENSG00000222883	ENST00000410951	misc_RNA	NOVEL	None	None	None	None	76014131	76014220	-1	None	None
1	None	ENSG00000237781	ENST00000442435	antisense	KNOWN	None	None	None	None	150521040	150530200	-1	None	None
12	NLRP9P	ENSG00000256581	ENST00000540920	unprocessed_pseudogene	KNOWN	None	29888	None	None	129497881	129501208	1	None	NOD25
14	None	ENSG00000257845	ENST00000549330	lincRNA	KNOWN	None	None	None	None	27244701	27291313	-1	None	None
X	None	ENSG00000238188	ENST00000440178	processed_pseudogene	KNOWN	None	None	None	None	129779697	129780299	1	None	None
2	None	ENSG00000236525	ENST00000436582	sense_intronic	KNOWN	None	None	None	None	103050417	103051800	1	None	None
3	TAGLN3	ENSG00000144834	ENST00000478951	protein_coding	KNOWN	CCDS33816	29868	600	199	111717511	111732646	1	None	NP25, NP22
3	TAGLN3	ENSG00000144834	ENST00000273368	protein_coding	KNOWN	CCDS33816	29868	600	199	111717642	111732730	1	None	NP25, NP22
3	TAGLN3	ENSG00000144834	ENST00000455401	protein_coding	KNOWN	CCDS33816	29868	600	199	111718036	111732728	1	None	NP25, NP22
3	TAGLN3	ENSG00000144834	ENST00000494932	protein_coding	PUTATIVE	None	29868	491	162	111718195	111732567	1	None	NP25, NP22
3	TAGLN3	ENSG00000144834	ENST00000486460	protein_coding	PUTATIVE	None	29868	348	115	111719370	111732728	1	None	NP25, NP22
3	TAGLN3	ENSG00000144834	ENST00000469385	protein_coding	PUTATIVE	None	29868	237	78	111719619	111732729	1	None	NP25, NP22
3	TAGLN3	ENSG00000144834	ENST00000393917	protein_coding	KNOWN	CCDS33816	29868	600	199	111717586	111732734	1	None	NP25, NP22
3	None	ENSG00000212104	ENST00000390815	miRNA	NOVEL	None	None	None	None	76467047	76467131	-1	None	None
1	OR2M4	ENSG00000171180	ENST00000306687	protein_coding	KNOWN	CCDS31108	8270	936	311	248402231	248403166	1	None	HTPCRX18, TPCR100, HSHTPCRX18, OST710
11	REXO2	ENSG00000076043	ENST00000265881	protein_coding	KNOWN	CCDS8371	17851	714	237	114310108	114321001	1	None	DKFZP566E144, SFN, CGI-114
11	REXO2	ENSG00000076043	ENST00000544010	retained_intron	KNOWN	None	17851	None	None	114310157	114315100	1	None	DKFZP566E144, SFN, CGI-114
11	REXO2	ENSG00000076043	ENST00000544196	protein_coding	PUTATIVE	None	17851	258	85	114310188	114312624	1	None	DKFZP566E144, SFN, CGI-114
11	REXO2	ENSG00000076043	ENST00000539754	protein_coding	NOVEL	None	17851	669	222	114310193	114320761	1	None	DKFZP566E144, SFN, CGI-114
11	REXO2	ENSG00000076043	ENST00000539275	protein_coding	PUTATIVE	None	17851	240	79	114310206	114321001	1	None	DKFZP566E144, SFN, CGI-114
11	REXO2	ENSG00000076043	ENST00000539333	retained_intron	KNOWN	None	17851	None	None	114310210	114317079	1	None	DKFZP566E144, SFN, CGI-114
11	REXO2	ENSG00000076043	ENST00000543243	retained_intron	KNOWN	None	17851	None	None	114310217	114311748	1	None	DKFZP566E144, SFN, CGI-114
11	REXO2	ENSG00000076043	ENST00000541703	nonsense_mediated_decay	KNOWN	None	17851	366	121	114310221	114318574	1	None	DKFZP566E144, SFN, CGI-114
11	REXO2	ENSG00000076043	ENST00000543131	nonsense_mediated_decay	KNOWN	None	17851	204	67	114310233	114320778	1	None	DKFZP566E144, SFN, CGI-114
11	REXO2	ENSG00000076043	ENST00000538198	nonsense_mediated_decay	KNOWN	None	17851	271	89	114310268	114320639	1	None	DKFZP566E144, SFN, CGI-114
11	REXO2	ENSG00000076043	ENST00000539119	protein_coding	NOVEL	None	17851	577	191	114310304	114320784	1	None	DKFZP566E144, SFN, CGI-114
11	REXO2	ENSG00000076043	ENST00000542186	retained_intron	KNOWN	None	17851	None	None	114310483	114314929	1	None	DKFZP566E144, SFN, CGI-114
11	REXO2	ENSG00000076043	ENST00000544827	protein_coding	PUTATIVE	None	17851	593	196	114310843	114320984	1	None	DKFZP566E144, SFN, CGI-114
11	REXO2	ENSG00000076043	ENST00000546316	nonsense_mediated_decay	KNOWN	None	17851	204	67	114311393	114320983	1	None	DKFZP566E144, SFN, CGI-114
11	REXO2	ENSG00000076043	ENST00000539788	protein_coding	PUTATIVE	None	17851	336	111	114314874	114320987	1	None	DKFZP566E144, SFN, CGI-114
11	REXO2	ENSG00000076043	ENST00000538403	protein_coding	PUTATIVE	None	17851	463	153	114314877	114320987	1	None	DKFZP566E144, SFN, CGI-114
11	REXO2	ENSG00000076043	ENST00000538791	protein_coding	PUTATIVE	None	17851	444	147	114314877	114320987	1	None	DKFZP566E144, SFN, CGI-114
11	REXO2	ENSG00000076043	ENST00000540492	retained_intron	KNOWN	None	17851	None	None	114315840	114320631	1	None	DKFZP566E144, SFN, CGI-114
11	REXO2	ENSG00000076043	ENST00000544507	processed_transcript	PUTATIVE	None	17851	None	None	114319659	114320906	1	None	DKFZP566E144, SFN, CGI-114
12	None	ENSG00000200060	ENST00000363190	misc_RNA	NOVEL	None	None	None	None	109132260	109132380	1	None	None
7	None	ENSG00000228928	ENST00000419546	processed_pseudogene	KNOWN	None	None	None	None	88194108	88195596	-1	None	None
12	None	ENSG00000266482	ENST00000579574	miRNA	NOVEL	None	None	None	None	31866684	31866782	1	None	None
X	CSAG3	ENSG00000197463	ENST00000415810	antisense	KNOWN	None	26237	None	None	151876743	151883038	-1	CSAG3A	None
X	CSAG3	ENSG00000197463	ENST00000356911	antisense	KNOWN	None	26237	None	None	151876743	151877747	-1	CSAG3A	None
2	None	ENSG00000234389	ENST00000450893	sense_intronic	KNOWN	None	None	None	None	103055173	103056935	1	None	None
4	None	ENSG00000251147	ENST00000503355	processed_pseudogene	KNOWN	None	None	None	None	185832043	185832506	-1	None	None
3	None	ENSG00000240809	ENST00000476047	processed_pseudogene	KNOWN	None	None	None	None	76483169	76484579	1	None	None
14	None	ENSG00000258940	ENST00000605298	antisense	KNOWN	None	None	None	None	39734907	39736265	-1	None	None
14	None	ENSG00000258940	ENST00000553520	antisense	KNOWN	None	None	None	None	39735624	39736265	-1	None	None
19	VSTM2B	ENSG00000187135	ENST00000335523	protein_coding	KNOWN	CCDS46034	33595	858	285	30017406	30055386	1	None	None
7	RAMP3	ENSG00000122679	ENST00000242249	protein_coding	KNOWN	CCDS5503	9845	447	148	45197390	45223849	1	None	None
7	RAMP3	ENSG00000122679	ENST00000496212	protein_coding	PUTATIVE	None	9845	456	151	45197428	45225897	1	None	None
7	RAMP3	ENSG00000122679	ENST00000481345	protein_coding	KNOWN	CCDS5503	9845	447	148	45197428	45225901	1	None	None
2	None	ENSG00000236757	ENST00000447987	lincRNA	KNOWN	None	None	None	None	103489798	103512180	-1	None	None
4	MIR4455	ENSG00000263458	ENST00000580836	miRNA	KNOWN	None	41536	None	None	185859537	185859594	-1	None	hsa-mir-4455
17	CDC27	ENSG00000004897	ENST00000066544	protein_coding	KNOWN	CCDS11509	1728	2475	824	45195069	45266632	-1	D0S1430E, D17S978E	APC3, ANAPC3, NUC2
17	CDC27	ENSG00000004897	ENST00000531206	protein_coding	KNOWN	CCDS45720	1728	2493	830	45197621	45266542	-1	D0S1430E, D17S978E	APC3, ANAPC3, NUC2
17	CDC27	ENSG00000004897	ENST00000570740	nonsense_mediated_decay	KNOWN	None	1728	100	32	45197976	45201261	-1	D0S1430E, D17S978E	APC3, ANAPC3, NUC2
17	CDC27	ENSG00000004897	ENST00000533415	nonsense_mediated_decay	KNOWN	None	1728	285	94	45198137	45266617	-1	D0S1430E, D17S978E	APC3, ANAPC3, NUC2
17	CDC27	ENSG00000004897	ENST00000571643	protein_coding	PUTATIVE	None	1728	490	162	45198176	45214610	-1	D0S1430E, D17S978E	APC3, ANAPC3, NUC2
17	CDC27	ENSG00000004897	ENST00000527547	protein_coding	KNOWN	None	1728	2472	823	45198246	45266590	-1	D0S1430E, D17S978E	APC3, ANAPC3, NUC2
17	CDC27	ENSG00000004897	ENST00000526866	nonsense_mediated_decay	KNOWN	None	1728	1032	343	45199918	45266630	-1	D0S1430E, D17S978E	APC3, ANAPC3, NUC2
17	CDC27	ENSG00000004897	ENST00000573502	nonsense_mediated_decay	KNOWN	None	1728	341	112	45214518	45219747	-1	D0S1430E, D17S978E	APC3, ANAPC3, NUC2
17	CDC27	ENSG00000004897	ENST00000525495	retained_intron	KNOWN	None	1728	None	None	45219210	45266627	-1	D0S1430E, D17S978E	APC3, ANAPC3, NUC2
17	CDC27	ENSG00000004897	ENST00000574304	nonsense_mediated_decay	KNOWN	None	1728	179	58	45219794	45247343	-1	D0S1430E, D17S978E	APC3, ANAPC3, NUC2
17	CDC27	ENSG00000004897	ENST00000575830	processed_transcript	KNOWN	None	1728	None	None	45221249	45234081	-1	D0S1430E, D17S978E	APC3, ANAPC3, NUC2
17	CDC27	ENSG00000004897	ENST00000576484	nonsense_mediated_decay	KNOWN	None	1728	311	102	45229180	45234633	-1	D0S1430E, D17S978E	APC3, ANAPC3, NUC2
17	CDC27	ENSG00000004897	ENST00000573550	nonsense_mediated_decay	KNOWN	None	1728	226	74	45232064	45258971	-1	D0S1430E, D17S978E	APC3, ANAPC3, NUC2
17	CDC27	ENSG00000004897	ENST00000570818	nonsense_mediated_decay	KNOWN	None	1728	261	86	45232121	45249413	-1	D0S1430E, D17S978E	APC3, ANAPC3, NUC2
17	CDC27	ENSG00000004897	ENST00000575483	protein_coding	NOVEL	None	1728	701	232	45234279	45266618	-1	D0S1430E, D17S978E	APC3, ANAPC3, NUC2
17	CDC27	ENSG00000004897	ENST00000532893	nonsense_mediated_decay	KNOWN	None	1728	159	52	45234421	45266627	-1	D0S1430E, D17S978E	APC3, ANAPC3, NUC2
17	CDC27	ENSG00000004897	ENST00000528748	processed_transcript	KNOWN	None	1728	None	None	45234426	45266302	-1	D0S1430E, D17S978E	APC3, ANAPC3, NUC2
17	CDC27	ENSG00000004897	ENST00000532575	processed_transcript	PUTATIVE	None	1728	None	None	45234596	45266788	-1	D0S1430E, D17S978E	APC3, ANAPC3, NUC2
17	CDC27	ENSG00000004897	ENST00000528147	retained_intron	KNOWN	None	1728	None	None	45258648	45266618	-1	D0S1430E, D17S978E	APC3, ANAPC3, NUC2
17	CDC27	ENSG00000004897	ENST00000446365	protein_coding	KNOWN	None	1728	2292	763	45198137	45266617	-1	D0S1430E, D17S978E	APC3, ANAPC3, NUC2
7	PQLC1P1	ENSG00000231763	ENST00000434950	processed_pseudogene	KNOWN	None	43986	None	None	88239555	88239983	-1	None	None
1	RN7SL479P	ENSG00000239560	ENST00000472003	misc_RNA	KNOWN	None	46495	None	None	44582772	44583069	-1	None	None
14	None	ENSG00000259719	ENST00000558120	lincRNA	KNOWN	None	None	None	None	56777598	56792926	1	None	None
14	None	ENSG00000259719	ENST00000560924	lincRNA	KNOWN	None	None	None	None	56777654	56811719	1	None	None
12	STMN1P1	ENSG00000267931	ENST00000598712	processed_transcript	KNOWN	None	44062	None	None	31900809	31901031	-1	None	None
1	RNU6-704P	ENSG00000201032	ENST00000364162	snRNA	KNOWN	None	47667	None	None	200902473	200902575	-1	None	None
19	TNNI3	ENSG00000129991	ENST00000585806	retained_intron	KNOWN	None	11947	None	None	55663137	55667849	-1	None	TNNC1, CMH7
19	TNNI3	ENSG00000129991	ENST00000589864	retained_intron	KNOWN	None	11947	None	None	55663138	55665774	-1	None	TNNC1, CMH7
19	TNNI3	ENSG00000129991	ENST00000344887	protein_coding	KNOWN	CCDS42628	11947	633	210	55663138	55669100	-1	None	TNNC1, CMH7
19	TNNI3	ENSG00000129991	ENST00000588882	protein_coding	PUTATIVE	None	11947	558	185	55663139	55668093	-1	None	TNNC1, CMH7
19	TNNI3	ENSG00000129991	ENST00000586669	processed_transcript	KNOWN	None	11947	None	None	55665478	55668650	-1	None	TNNC1, CMH7
19	TNNI3	ENSG00000129991	ENST00000587176	retained_intron	KNOWN	None	11947	None	None	55665673	55669141	-1	None	TNNC1, CMH7
19	TNNI3	ENSG00000129991	ENST00000590463	processed_transcript	KNOWN	None	11947	None	None	55666114	55669084	-1	None	TNNC1, CMH7
19	TNNI3	ENSG00000129991	ENST00000586858	protein_coding	PUTATIVE	None	11947	171	56	55667643	55668160	-1	None	TNNC1, CMH7
19	TNNI3	ENSG00000129991	ENST00000586446	retained_intron	KNOWN	None	11947	None	None	55668097	55669100	-1	None	TNNC1, CMH7
1	None	ENSG00000223519	ENST00000504864	unitary_pseudogene	KNOWN	None	None	None	None	246935139	246993361	-1	None	None
1	None	ENSG00000223519	ENST00000451123	processed_transcript	KNOWN	None	None	None	None	246939531	246952963	-1	None	None
1	None	ENSG00000223519	ENST00000508436	processed_transcript	KNOWN	None	None	None	None	246943779	246946474	-1	None	None
12	None	ENSG00000264043	ENST00000578927	lincRNA	KNOWN	None	None	None	None	109171968	109174194	-1	None	None
12	None	ENSG00000264043	ENST00000391200	snoRNA	KNOWN	None	None	None	None	109171920	109172047	-1	None	None
1	None	ENSG00000233514	ENST00000402743	processed_pseudogene	KNOWN	None	None	None	None	44587825	44588184	-1	None	None
11	None	ENSG00000245156	ENST00000501708	lincRNA	KNOWN	None	None	None	None	66037303	66045996	-1	None	None
1	None	ENSG00000229191	ENST00000446333	lincRNA	KNOWN	None	None	None	None	200993077	200996918	1	None	None
1	None	ENSG00000229191	ENST00000458003	lincRNA	KNOWN	None	None	None	None	200993089	200997920	1	None	None
1	MIR4257	ENSG00000264553	ENST00000581735	miRNA	KNOWN	None	38312	None	None	150524405	150524490	1	None	hsa-mir-4257
6	SMAP1	ENSG00000112305	ENST00000370452	protein_coding	KNOWN	None	19651	1311	436	71377479	71570869	1	None	FLJ13159, SMAP-1
6	SMAP1	ENSG00000112305	ENST00000316999	protein_coding	KNOWN	CCDS4973	19651	1323	440	71377479	71570869	1	None	FLJ13159, SMAP-1
6	SMAP1	ENSG00000112305	ENST00000370455	protein_coding	KNOWN	CCDS43478	19651	1404	467	71377479	71571718	1	None	FLJ13159, SMAP-1
6	SMAP1	ENSG00000112305	ENST00000445046	protein_coding	KNOWN	None	19651	186	61	71482632	71501472	1	None	FLJ13159, SMAP-1
6	SMAP1	ENSG00000112305	ENST00000439432	protein_coding	KNOWN	None	19651	376	124	71483092	71547615	1	None	FLJ13159, SMAP-1
6	SMAP1	ENSG00000112305	ENST00000422334	protein_coding	KNOWN	None	19651	414	137	71377621	71483137	1	None	FLJ13159, SMAP-1
HSCHR6_MHC_DBB	C6orf10	ENSG00000226892	ENST00000438312	protein_coding	KNOWN	None	13922	1692	563	32236325	32315181	-1	None	TSBP
HSCHR6_MHC_DBB	C6orf10	ENSG00000226892	ENST00000424621	protein_coding	KNOWN	None	13922	1689	562	32236325	32315209	-1	None	TSBP
2	None	ENSG00000224095	ENST00000431897	lincRNA	KNOWN	None	None	None	None	103583866	103600887	-1	None	None
X	None	ENSG00000228659	ENST00000451431	antisense	KNOWN	None	None	None	None	130115564	130173820	-1	None	None
X	None	ENSG00000228659	ENST00000412420	antisense	KNOWN	None	None	None	None	130150443	130192120	-1	None	None
2	None	ENSG00000237179	ENST00000433432	lincRNA	KNOWN	None	None	None	None	66924257	66930359	-1	None	None
2	None	ENSG00000237179	ENST00000432410	lincRNA	KNOWN	None	None	None	None	66924290	66930329	-1	None	None
2	None	ENSG00000237179	ENST00000451698	lincRNA	KNOWN	None	None	None	None	66924294	66930329	-1	None	None
1	RN7SL473P	ENSG00000264508	ENST00000580341	misc_RNA	KNOWN	None	46489	None	None	150539040	150539336	-1	None	None
17	None	ENSG00000263938	ENST00000582080	sense_intronic	KNOWN	None	None	None	None	57043313	57044088	1	None	None
1	None	ENSG00000241318	ENST00000444540	processed_pseudogene	KNOWN	None	None	None	None	92000223	92001150	-1	None	None
8	FAM90A9P	ENSG00000235825	ENST00000527940	unprocessed_pseudogene	KNOWN	None	32257	None	None	7618852	7621862	1	FAM90A9	None
X	RN7SL727P	ENSG00000241248	ENST00000482164	misc_RNA	KNOWN	None	46743	None	None	139168014	139168307	1	None	None
1	RN7SL600P	ENSG00000264584	ENST00000581811	misc_RNA	KNOWN	None	46616	None	None	150541449	150541745	-1	None	None
17	None	ENSG00000216168	ENST00000401349	miRNA	NOVEL	None	None	None	None	57066229	57066315	-1	None	None
1	None	ENSG00000239275	ENST00000458152	unprocessed_pseudogene	KNOWN	None	None	None	None	44603514	44604485	-1	None	None
1	None	ENSG00000234132	ENST00000415359	antisense	KNOWN	None	None	None	None	201004224	201012201	1	None	None
3	RNU6-386P	ENSG00000199520	ENST00000362650	snRNA	KNOWN	None	47349	None	None	77141208	77141314	1	None	None
14	None	ENSG00000258803	ENST00000557246	lincRNA	KNOWN	None	None	None	None	56981049	57018027	1	None	None
14	None	ENSG00000271424	ENST00000604758	processed_pseudogene	KNOWN	None	None	None	None	39839483	39839960	-1	None	None
1	None	ENSG00000253047	ENST00000517238	snoRNA	NOVEL	None	None	None	None	150573015	150573135	-1	None	None
19	ZNF844	ENSG00000223547	ENST00000439326	protein_coding	KNOWN	CCDS45985	25932	2001	666	12175514	12192380	1	None	FLJ14959
19	ZNF844	ENSG00000223547	ENST00000550826	protein_coding	PUTATIVE	None	25932	290	95	12175546	12186696	1	None	FLJ14959
19	ZNF844	ENSG00000223547	ENST00000441304	protein_coding	PUTATIVE	None	25932	216	71	12175625	12187968	1	None	FLJ14959
2	None	ENSG00000227680	ENST00000435291	lincRNA	KNOWN	None	None	None	None	103603781	103605023	1	None	None
17	RN7SL716P	ENSG00000263558	ENST00000580539	misc_RNA	KNOWN	None	46732	None	None	57136587	57136850	1	None	None
12	None	ENSG00000256843	ENST00000540596	processed_pseudogene	KNOWN	None	None	None	None	31901034	31901174	-1	None	None
10	HECTD2	ENSG00000165338	ENST00000371681	protein_coding	KNOWN	CCDS7415	26736	624	207	93170101	93223421	1	None	FLJ37306
10	HECTD2	ENSG00000165338	ENST00000298068	protein_coding	KNOWN	CCDS7414	26736	2331	776	93170102	93274518	1	None	FLJ37306
10	HECTD2	ENSG00000165338	ENST00000487511	processed_transcript	KNOWN	None	26736	None	None	93170247	93240894	1	None	FLJ37306
10	HECTD2	ENSG00000165338	ENST00000498446	processed_transcript	KNOWN	None	26736	None	None	93243847	93249738	1	None	FLJ37306
10	HECTD2	ENSG00000165338	ENST00000371667	protein_coding	KNOWN	None	26736	1281	426	93243865	93274586	1	None	FLJ37306
10	HECTD2	ENSG00000165338	ENST00000446394	protein_coding	KNOWN	None	26736	2343	780	93170096	93274518	1	None	FLJ37306
10	HECTD2	ENSG00000165338	ENST00000536715	protein_coding	KNOWN	None	26736	1098	365	93221897	93272839	1	None	FLJ37306
14	None	ENSG00000221645	ENST00000408718	miRNA	NOVEL	None	None	None	None	39853282	39853350	-1	None	None
1	RNU6-1042P	ENSG00000206931	ENST00000384204	snRNA	KNOWN	None	48005	None	None	150674342	150674448	1	None	None
17	None	ENSG00000224738	ENST00000451775	antisense	KNOWN	None	None	None	None	57183959	57195628	1	None	None
1	None	ENSG00000229821	ENST00000453155	antisense	KNOWN	None	None	None	None	201191241	201192251	-1	None	None
20	RPL23AP6	ENSG00000214835	ENST00000446637	processed_pseudogene	KNOWN	None	16555	None	None	10329805	10330276	-1	None	dJ1068F16.1
9	None	ENSG00000232116	ENST00000425742	lincRNA	KNOWN	None	None	None	None	45484572	45488153	1	None	None
9	None	ENSG00000232116	ENST00000591621	lincRNA	KNOWN	None	None	None	None	45487056	45487990	1	None	None
1	None	ENSG00000229067	ENST00000439897	processed_pseudogene	KNOWN	None	None	None	None	92065728	92065878	1	None	None
X	None	ENSG00000230707	ENST00000453380	processed_pseudogene	KNOWN	None	None	None	None	139173902	139174720	1	None	None
1	None	ENSG00000236713	ENST00000283110	processed_pseudogene	KNOWN	None	None	None	None	150752748	150753120	1	None	None
15	None	ENSG00000261497	ENST00000565703	unprocessed_pseudogene	KNOWN	None	None	None	None	28607942	28610877	-1	None	None
3	None	ENSG00000213450	ENST00000462417	processed_pseudogene	KNOWN	None	None	None	None	77365903	77366749	-1	None	None
1	None	ENSG00000226804	ENST00000451975	processed_pseudogene	KNOWN	None	None	None	None	44616266	44617425	-1	None	None
5	LNPEP	ENSG00000113441	ENST00000395784	processed_transcript	PUTATIVE	None	6656	None	None	96271098	96273470	1	None	CAP, PLAP, P-LAP
5	LNPEP	ENSG00000113441	ENST00000231368	protein_coding	KNOWN	CCDS4087	6656	3078	1025	96271168	96373219	1	None	CAP, PLAP, P-LAP
5	LNPEP	ENSG00000113441	ENST00000395770	protein_coding	KNOWN	CCDS43346	6656	3036	1011	96294155	96364740	1	None	CAP, PLAP, P-LAP
5	LNPEP	ENSG00000113441	ENST00000474122	retained_intron	KNOWN	None	6656	None	None	96331717	96333788	1	None	CAP, PLAP, P-LAP
5	LNPEP	ENSG00000113441	ENST00000473914	retained_intron	KNOWN	None	6656	None	None	96332082	96342086	1	None	CAP, PLAP, P-LAP
8	RNU6-1086P	ENSG00000222862	ENST00000410930	snRNA	KNOWN	None	48049	None	None	27537349	27537452	1	None	None
2	None	ENSG00000224071	ENST00000455096	processed_pseudogene	KNOWN	None	None	None	None	67047816	67049702	-1	None	None
11	RN7SKP121	ENSG00000222774	ENST00000410842	misc_RNA	KNOWN	None	45845	None	None	127275923	127276227	-1	None	None
2	None	ENSG00000224850	ENST00000453878	lincRNA	KNOWN	None	None	None	None	103628237	103636356	1	None	None
11	PSMA2P1	ENSG00000254582	ENST00000526365	processed_pseudogene	KNOWN	None	43832	None	None	87040449	87041094	-1	None	None
11	None	ENSG00000254452	ENST00000526951	antisense	KNOWN	None	None	None	None	66044250	66044958	-1	None	None
11	None	ENSG00000254452	ENST00000528650	antisense	KNOWN	None	None	None	None	66044340	66044963	-1	None	None
X	None	ENSG00000231110	ENST00000458577	lincRNA	KNOWN	None	None	None	None	139298187	139298956	-1	None	None
17	RNU2-58P	ENSG00000252212	ENST00000516403	snRNA	KNOWN	None	48551	None	None	57206637	57206819	-1	None	None
9	None	ENSG00000187060	ENST00000423863	processed_pseudogene	KNOWN	None	None	None	None	45562979	45563576	1	None	None
2	None	ENSG00000230076	ENST00000457497	processed_pseudogene	KNOWN	None	None	None	None	215711852	215712169	1	None	None
13	None	ENSG00000266816	ENST00000579551	miRNA	NOVEL	None	None	None	None	30780753	30780836	-1	None	None
1	None	ENSG00000227048	ENST00000413162	processed_pseudogene	KNOWN	None	None	None	None	201398103	201398489	1	None	None
20	TM9SF4	ENSG00000101337	ENST00000398022	protein_coding	KNOWN	CCDS13196	30797	1929	642	30697309	30755061	1	None	KIAA0255, dJ836N17.2
20	TM9SF4	ENSG00000101337	ENST00000442842	nonsense_mediated_decay	KNOWN	None	30797	258	85	30697520	30729588	1	None	KIAA0255, dJ836N17.2
20	TM9SF4	ENSG00000101337	ENST00000450829	nonsense_mediated_decay	KNOWN	None	30797	258	85	30697531	30729630	1	None	KIAA0255, dJ836N17.2
20	TM9SF4	ENSG00000101337	ENST00000217315	protein_coding	PUTATIVE	None	30797	1878	625	30697539	30755061	1	None	KIAA0255, dJ836N17.2
20	TM9SF4	ENSG00000101337	ENST00000417389	nonsense_mediated_decay	KNOWN	None	30797	207	68	30697570	30729409	1	None	KIAA0255, dJ836N17.2
20	TM9SF4	ENSG00000101337	ENST00000495749	retained_intron	KNOWN	None	30797	None	None	30746946	30755061	1	None	KIAA0255, dJ836N17.2
20	TM9SF4	ENSG00000101337	ENST00000479591	retained_intron	KNOWN	None	30797	None	None	30748896	30753390	1	None	KIAA0255, dJ836N17.2
16	CKLF	ENSG00000217555	ENST00000534692	nonsense_mediated_decay	KNOWN	None	13253	102	33	66586466	66600154	1	CKLF1	UCK-1, CKLF3, CKLF4, HSPC224, C32
16	CKLF	ENSG00000217555	ENST00000264001	protein_coding	KNOWN	CCDS10807	13253	459	152	66586470	66599975	1	CKLF1	UCK-1, CKLF3, CKLF4, HSPC224, C32
16	CKLF	ENSG00000217555	ENST00000351137	protein_coding	KNOWN	CCDS10808	13253	300	99	66586472	66599975	1	CKLF1	UCK-1, CKLF3, CKLF4, HSPC224, C32
16	CKLF	ENSG00000217555	ENST00000345436	protein_coding	KNOWN	CCDS10809	13253	363	120	66586472	66599975	1	CKLF1	UCK-1, CKLF3, CKLF4, HSPC224, C32
16	CKLF	ENSG00000217555	ENST00000362093	protein_coding	KNOWN	CCDS10806	13253	204	67	66586472	66599975	1	CKLF1	UCK-1, CKLF3, CKLF4, HSPC224, C32
16	CKLF	ENSG00000217555	ENST00000526149	retained_intron	KNOWN	None	13253	None	None	66586476	66592435	1	CKLF1	UCK-1, CKLF3, CKLF4, HSPC224, C32
16	CKLF	ENSG00000217555	ENST00000417030	protein_coding	PUTATIVE	CCDS45502	13253	342	113	66586485	66600146	1	CKLF1	UCK-1, CKLF3, CKLF4, HSPC224, C32
16	CKLF	ENSG00000217555	ENST00000532838	protein_coding	NOVEL	None	13253	183	60	66586552	66600331	1	CKLF1	UCK-1, CKLF3, CKLF4, HSPC224, C32
16	CKLF	ENSG00000217555	ENST00000563092	processed_transcript	PUTATIVE	None	13253	None	None	66587298	66599972	1	CKLF1	UCK-1, CKLF3, CKLF4, HSPC224, C32
17	MIR454	ENSG00000211514	ENST00000390180	miRNA	KNOWN	None	33137	None	None	57215119	57215233	-1	MIRN454	hsa-mir-454
2	None	ENSG00000229209	ENST00000422683	lincRNA	KNOWN	None	None	None	None	103726217	103792718	-1	None	None
1	OR2T33	ENSG00000177212	ENST00000318021	protein_coding	KNOWN	CCDS31109	31255	963	320	248436073	248437138	-1	None	None
13	RNU6-64P	ENSG00000252928	ENST00000517119	snRNA	KNOWN	None	42554	None	None	30855902	30856006	1	RNU6-64	None
1	UBE2D3P3	ENSG00000224690	ENST00000426992	processed_pseudogene	KNOWN	None	39011	None	None	150772949	150773507	1	None	None
1	HSP90B3P	ENSG00000203914	ENST00000415545	processed_pseudogene	KNOWN	None	12100	None	None	92108073	92109639	1	TRAP2, TRA1P2	GRP94c
1	HSP90B3P	ENSG00000203914	ENST00000370405	processed_pseudogene	KNOWN	None	12100	None	None	92100568	92109335	1	TRAP2, TRA1P2	GRP94c
2	None	ENSG00000230355	ENST00000451383	processed_pseudogene	KNOWN	None	None	None	None	67108219	67108354	-1	None	None
11	RN7SKP279	ENSG00000223315	ENST00000411383	misc_RNA	KNOWN	None	46003	None	None	127277746	127278043	1	None	None
14	None	ENSG00000258428	ENST00000553800	antisense	KNOWN	None	None	None	None	57099962	57114490	-1	None	None
14	None	ENSG00000258428	ENST00000555924	antisense	KNOWN	None	None	None	None	57099967	57115376	-1	None	None
17	MIR301A	ENSG00000207996	ENST00000385261	miRNA	KNOWN	None	31622	None	None	57228497	57228582	-1	MIRN301, MIRN301A	hsa-mir-301, hsa-mir-301a
8	None	ENSG00000254423	ENST00000532111	processed_pseudogene	KNOWN	None	None	None	None	12231875	12233055	-1	None	None
2	None	ENSG00000227769	ENST00000437897	antisense	KNOWN	None	None	None	None	215886722	215906980	1	None	None
2	None	ENSG00000227769	ENST00000419251	antisense	KNOWN	None	None	None	None	215887284	215887842	1	None	None
2	None	ENSG00000227769	ENST00000602182	antisense	KNOWN	None	None	None	None	215887301	215887842	1	None	None
2	None	ENSG00000227769	ENST00000595058	antisense	KNOWN	None	None	None	None	215887301	215888124	1	None	None
3	RNU6-217P	ENSG00000206891	ENST00000384164	snRNA	KNOWN	None	47180	None	None	77860892	77860995	-1	None	None
13	PRDX2P1	ENSG00000215049	ENST00000450181	processed_pseudogene	KNOWN	None	30020	None	None	30870284	30870872	1	None	None
19	None	ENSG00000249189	ENST00000506567	unprocessed_pseudogene	KNOWN	None	None	None	None	54749953	54751181	-1	None	None
1	None	ENSG00000224818	ENST00000430471	lincRNA	KNOWN	None	None	None	None	201433511	201434274	-1	None	None
1	None	ENSG00000260855	ENST00000567832	antisense	KNOWN	None	None	None	None	246935603	246939074	1	None	None
17	None	ENSG00000266537	ENST00000582158	unprocessed_pseudogene	KNOWN	None	None	None	None	57252344	57259148	-1	None	None
2	None	ENSG00000227623	ENST00000433830	processed_pseudogene	KNOWN	None	None	None	None	103892362	103892596	1	None	None
7	None	ENSG00000242258	ENST00000477392	processed_transcript	KNOWN	None	None	None	None	150130742	150145228	1	None	None
7	None	ENSG00000242258	ENST00000486954	processed_transcript	KNOWN	None	None	None	None	150130818	150139980	1	None	None
12	None	ENSG00000223722	ENST00000453713	processed_pseudogene	KNOWN	None	None	None	None	31907654	31908055	1	None	None
12	None	ENSG00000223722	ENST00000393255	processed_pseudogene	KNOWN	None	None	None	None	31907651	31908055	1	None	None
3	IL17RB	ENSG00000056736	ENST00000288167	protein_coding	KNOWN	CCDS2874	18015	1509	502	53880607	53899827	1	IL17BR	IL17RH1, EVI27, CRL4
3	IL17RB	ENSG00000056736	ENST00000475124	retained_intron	KNOWN	None	18015	None	None	53880611	53899615	1	IL17BR	IL17RH1, EVI27, CRL4
3	IL17RB	ENSG00000056736	ENST00000494338	protein_coding	NOVEL	None	18015	1044	347	53880612	53898918	1	IL17BR	IL17RH1, EVI27, CRL4
8	None	ENSG00000253560	ENST00000518155	processed_pseudogene	KNOWN	None	None	None	None	27554734	27555043	-1	None	None
3	H1FX-AS1	ENSG00000206417	ENST00000511998	antisense	KNOWN	None	27953	None	None	129034235	129037154	1	C3orf47	FLJ34151
3	H1FX-AS1	ENSG00000206417	ENST00000433902	antisense	KNOWN	None	27953	None	None	129034363	129043390	1	C3orf47	FLJ34151
3	H1FX-AS1	ENSG00000206417	ENST00000383461	antisense	KNOWN	None	27953	None	None	129036949	129045068	1	C3orf47	FLJ34151
3	H1FX-AS1	ENSG00000206417	ENST00000502789	antisense	KNOWN	None	27953	None	None	129037079	129043412	1	C3orf47	FLJ34151
3	H1FX-AS1	ENSG00000206417	ENST00000537780	antisense	KNOWN	None	27953	None	None	129037037	129042342	1	C3orf47	FLJ34151
2	None	ENSG00000230525	ENST00000426260	lincRNA	KNOWN	None	None	None	None	67131568	67198594	1	None	None
2	None	ENSG00000230525	ENST00000411701	lincRNA	KNOWN	None	None	None	None	67148826	67186052	1	None	None
1	None	ENSG00000200171	ENST00000363301	misc_RNA	NOVEL	None	None	None	None	44619057	44619152	-1	None	None
14	None	ENSG00000259100	ENST00000553667	processed_pseudogene	KNOWN	None	None	None	None	39854608	39856306	-1	None	None
3	None	ENSG00000244247	ENST00000489016	lincRNA	KNOWN	None	None	None	None	182216052	182224912	-1	None	None
9	None	ENSG00000227569	ENST00000448826	processed_pseudogene	KNOWN	None	None	None	None	45656241	45656586	-1	None	None
1	None	ENSG00000238037	ENST00000423265	processed_pseudogene	KNOWN	None	None	None	None	44620700	44620973	-1	None	None
1	None	ENSG00000224536	ENST00000454651	antisense	KNOWN	None	None	None	None	201476369	201502736	1	None	None
2	None	ENSG00000236596	ENST00000440950	processed_pseudogene	KNOWN	None	None	None	None	104110699	104112300	1	None	None
1	RNU6-1309P	ENSG00000200175	ENST00000363305	snRNA	KNOWN	None	48272	None	None	150785067	150785174	-1	None	None
1	None	ENSG00000227953	ENST00000421003	antisense	KNOWN	None	None	None	None	246939315	246955687	1	None	None
1	None	ENSG00000227953	ENST00000505748	antisense	KNOWN	None	None	None	None	246939393	246952902	1	None	None
1	None	ENSG00000227953	ENST00000509202	antisense	KNOWN	None	None	None	None	246939394	246944856	1	None	None
1	None	ENSG00000227953	ENST00000426089	retained_intron	KNOWN	None	None	None	None	246952396	246955687	1	None	None
1	None	ENSG00000227953	ENST00000419361	antisense	KNOWN	None	None	None	None	246953926	246955687	1	None	None
1	None	ENSG00000227994	ENST00000442754	processed_pseudogene	KNOWN	None	None	None	None	44638178	44638391	-1	None	None
X	RN7SL191P	ENSG00000241198	ENST00000484366	misc_RNA	KNOWN	None	46207	None	None	130268062	130268364	-1	None	None
1	None	ENSG00000224800	ENST00000427962	processed_pseudogene	KNOWN	None	None	None	None	150853712	150854159	-1	None	None
2	None	ENSG00000237571	ENST00000448086	lincRNA	KNOWN	None	None	None	None	216139715	216142670	1	None	None
1	RN7SL653P	ENSG00000239794	ENST00000494134	misc_RNA	KNOWN	None	46669	None	None	92295333	92295631	-1	None	None
8	None	ENSG00000255556	ENST00000526502	processed_pseudogene	KNOWN	None	None	None	None	12236188	12237774	-1	None	None
1	RPS10P7	ENSG00000223396	ENST00000441932	lincRNA	KNOWN	None	36423	None	None	201487831	201499602	1	None	None
2	None	ENSG00000238663	ENST00000459513	snoRNA	NOVEL	None	None	None	None	216167489	216167587	1	None	None
14	GALNT16	ENSG00000100626	ENST00000554858	processed_transcript	PUTATIVE	None	23233	None	None	69725994	69727054	1	GALNTL1	KIAA1130, GalNAc-T16
14	GALNT16	ENSG00000100626	ENST00000554317	processed_transcript	PUTATIVE	None	23233	None	None	69726359	69787560	1	GALNTL1	KIAA1130, GalNAc-T16
14	GALNT16	ENSG00000100626	ENST00000555920	processed_transcript	PUTATIVE	None	23233	None	None	69726359	69791459	1	GALNTL1	KIAA1130, GalNAc-T16
14	GALNT16	ENSG00000100626	ENST00000337827	protein_coding	KNOWN	CCDS32107	23233	1677	558	69726681	69821183	1	GALNTL1	KIAA1130, GalNAc-T16
14	GALNT16	ENSG00000100626	ENST00000553471	nonsense_mediated_decay	KNOWN	None	23233	1629	542	69726891	69821183	1	GALNTL1	KIAA1130, GalNAc-T16
14	GALNT16	ENSG00000100626	ENST00000448469	protein_coding	KNOWN	CCDS32107	23233	1677	558	69726918	69819388	1	GALNTL1	KIAA1130, GalNAc-T16
14	GALNT16	ENSG00000100626	ENST00000553669	protein_coding	KNOWN	None	23233	1629	542	69727008	69814809	1	GALNTL1	KIAA1130, GalNAc-T16
14	GALNT16	ENSG00000100626	ENST00000553740	processed_transcript	KNOWN	None	23233	None	None	69765258	69792742	1	GALNTL1	KIAA1130, GalNAc-T16
14	GALNT16	ENSG00000100626	ENST00000556677	processed_transcript	KNOWN	None	23233	None	None	69799239	69806340	1	GALNTL1	KIAA1130, GalNAc-T16
14	GALNT16	ENSG00000100626	ENST00000556829	processed_transcript	PUTATIVE	None	23233	None	None	69818746	69820685	1	GALNTL1	KIAA1130, GalNAc-T16
1	None	ENSG00000271329	ENST00000603887	processed_pseudogene	KNOWN	None	None	None	None	44653615	44654721	-1	None	None
17	None	ENSG00000265415	ENST00000577678	antisense	KNOWN	None	None	None	None	57280038	57281190	-1	None	None
1	RN7SL235P	ENSG00000266532	ENST00000584195	misc_RNA	KNOWN	None	46251	None	None	92404826	92405131	1	None	None
2	None	ENSG00000232688	ENST00000444266	lincRNA	KNOWN	None	None	None	None	67148642	67149589	-1	None	None
1	None	ENSG00000212512	ENST00000391210	misc_RNA	NOVEL	None	None	None	None	150854927	150855011	-1	None	None
3	None	ENSG00000264841	ENST00000577911	miRNA	NOVEL	None	None	None	None	77975856	77975937	-1	None	None
8	None	ENSG00000254100	ENST00000519764	lincRNA	KNOWN	None	None	None	None	38409766	38416538	-1	None	None
2	RN7SKP281	ENSG00000222404	ENST00000410472	misc_RNA	KNOWN	None	46005	None	None	158155319	158155670	-1	None	None
20	None	ENSG00000211588	ENST00000390233	miRNA	NOVEL	None	None	None	None	10342736	10342878	-1	None	None
2	None	ENSG00000230695	ENST00000412951	antisense	KNOWN	None	None	None	None	216300976	216301715	1	None	None
1	LPCAT2BP	ENSG00000233228	ENST00000420263	unitary_pseudogene	KNOWN	None	38003	None	None	92531863	92533396	1	None	None
9	RN7SL565P	ENSG00000264628	ENST00000582180	misc_RNA	KNOWN	None	46581	None	None	45661987	45662268	1	None	None
19	MIDN	ENSG00000167470	ENST00000586757	protein_coding	KNOWN	None	16298	384	127	1248552	1251900	1	None	None
19	MIDN	ENSG00000167470	ENST00000591446	protein_coding	KNOWN	CCDS32864	16298	1407	468	1249887	1259142	1	None	None
19	MIDN	ENSG00000167470	ENST00000591302	retained_intron	KNOWN	None	16298	None	None	1251260	1254236	1	None	None
19	MIDN	ENSG00000167470	ENST00000586843	protein_coding	NOVEL	None	16298	356	117	1251621	1254301	1	None	None
19	MIDN	ENSG00000167470	ENST00000590136	retained_intron	KNOWN	None	16298	None	None	1253683	1254302	1	None	None
19	MIDN	ENSG00000167470	ENST00000300952	protein_coding	KNOWN	CCDS32864	16298	1407	468	1248552	1259139	1	None	None
1	ERI3-IT1	ENSG00000233602	ENST00000414156	sense_intronic	KNOWN	None	41431	None	None	44709080	44709945	-1	None	None
12	None	ENSG00000249196	ENST00000512133	retained_intron	KNOWN	None	None	None	None	129594174	129597839	1	None	None
12	None	ENSG00000249196	ENST00000542535	antisense	KNOWN	None	None	None	None	129594238	129597839	1	None	None
12	None	ENSG00000249196	ENST00000541320	antisense	KNOWN	None	None	None	None	129594240	129597839	1	None	None
12	None	ENSG00000249196	ENST00000510001	antisense	KNOWN	None	None	None	None	129594240	129597839	1	None	None
12	None	ENSG00000249196	ENST00000537367	antisense	KNOWN	None	None	None	None	129594244	129597838	1	None	None
12	None	ENSG00000249196	ENST00000508925	retained_intron	KNOWN	None	None	None	None	129595538	129597839	1	None	None
12	None	ENSG00000249196	ENST00000540739	retained_intron	KNOWN	None	None	None	None	129595639	129597839	1	None	None
22	TANGO2	ENSG00000183597	ENST00000471707	retained_intron	KNOWN	None	25439	None	None	20004537	20043727	1	C22orf25	DKFZp761P1121
22	TANGO2	ENSG00000183597	ENST00000401886	protein_coding	KNOWN	None	25439	645	214	20004537	20052881	1	C22orf25	DKFZp761P1121
22	TANGO2	ENSG00000183597	ENST00000475446	processed_transcript	KNOWN	None	25439	None	None	20004554	20035703	1	C22orf25	DKFZp761P1121
22	TANGO2	ENSG00000183597	ENST00000432198	protein_coding	KNOWN	None	25439	265	87	20004554	20040107	1	C22orf25	DKFZp761P1121
22	TANGO2	ENSG00000183597	ENST00000411907	processed_transcript	KNOWN	None	25439	None	None	20008592	20049179	1	C22orf25	DKFZp761P1121
22	TANGO2	ENSG00000183597	ENST00000398042	protein_coding	KNOWN	None	25439	645	214	20008595	20053449	1	C22orf25	DKFZp761P1121
22	TANGO2	ENSG00000183597	ENST00000399807	nonsense_mediated_decay	KNOWN	None	25439	453	150	20008612	20053385	1	C22orf25	DKFZp761P1121
22	TANGO2	ENSG00000183597	ENST00000450664	protein_coding	KNOWN	None	25439	496	164	20008625	20049099	1	C22orf25	DKFZp761P1121
22	TANGO2	ENSG00000183597	ENST00000450019	nonsense_mediated_decay	KNOWN	None	25439	366	121	20008630	20052787	1	C22orf25	DKFZp761P1121
22	TANGO2	ENSG00000183597	ENST00000327374	protein_coding	KNOWN	CCDS13772	25439	831	276	20008631	20053449	1	C22orf25	DKFZp761P1121
22	TANGO2	ENSG00000183597	ENST00000479679	processed_transcript	KNOWN	None	25439	None	None	20008645	20041065	1	C22orf25	DKFZp761P1121
22	TANGO2	ENSG00000183597	ENST00000430807	nonsense_mediated_decay	KNOWN	None	25439	330	109	20008650	20050944	1	C22orf25	DKFZp761P1121
22	TANGO2	ENSG00000183597	ENST00000401833	protein_coding	PUTATIVE	None	25439	954	317	20008662	20052887	1	C22orf25	DKFZp761P1121
22	TANGO2	ENSG00000183597	ENST00000434168	protein_coding	KNOWN	None	25439	679	225	20008678	20050934	1	C22orf25	DKFZp761P1121
22	TANGO2	ENSG00000183597	ENST00000462579	retained_intron	KNOWN	None	25439	None	None	20024282	20049325	1	C22orf25	DKFZp761P1121
22	TANGO2	ENSG00000183597	ENST00000444651	nonsense_mediated_decay	KNOWN	None	25439	330	109	20024282	20052430	1	C22orf25	DKFZp761P1121
22	TANGO2	ENSG00000183597	ENST00000484373	retained_intron	KNOWN	None	25439	None	None	20024283	20043764	1	C22orf25	DKFZp761P1121
22	TANGO2	ENSG00000183597	ENST00000485715	processed_transcript	KNOWN	None	25439	None	None	20024283	20050906	1	C22orf25	DKFZp761P1121
22	TANGO2	ENSG00000183597	ENST00000490583	processed_transcript	KNOWN	None	25439	None	None	20040958	20052482	1	C22orf25	DKFZp761P1121
22	TANGO2	ENSG00000183597	ENST00000490121	processed_transcript	PUTATIVE	None	25439	None	None	20043466	20048750	1	C22orf25	DKFZp761P1121
22	TANGO2	ENSG00000183597	ENST00000476940	processed_transcript	PUTATIVE	None	25439	None	None	20051096	20052452	1	C22orf25	DKFZp761P1121
22	TANGO2	ENSG00000183597	ENST00000447208	protein_coding	KNOWN	CCDS13772	25439	831	276	20004554	20052530	1	C22orf25	DKFZp761P1121
22	TANGO2	ENSG00000183597	ENST00000432883	protein_coding	KNOWN	None	25439	645	214	20008631	20053447	1	C22orf25	DKFZp761P1121
22	TANGO2	ENSG00000183597	ENST00000434570	protein_coding	KNOWN	None	25439	597	198	20024282	20052216	1	C22orf25	DKFZp761P1121
22	TANGO2	ENSG00000183597	ENST00000456048	protein_coding	KNOWN	None	25439	846	281	20024547	20053447	1	C22orf25	DKFZp761P1121
22	TANGO2	ENSG00000183597	ENST00000420290	protein_coding	KNOWN	None	25439	537	178	20024282	20052360	1	C22orf25	DKFZp761P1121
X	OR11Q1P	ENSG00000237650	ENST00000451582	processed_pseudogene	KNOWN	None	31239	None	None	130338102	130338978	1	None	None
1	None	ENSG00000229357	ENST00000443545	processed_pseudogene	KNOWN	None	None	None	None	150876372	150876689	1	None	None
17	None	ENSG00000207235	ENST00000384506	misc_RNA	NOVEL	None	None	None	None	57338109	57338207	1	None	None
2	FAM133DP	ENSG00000230562	ENST00000464802	processed_pseudogene	KNOWN	None	44192	None	None	158236236	158236926	-1	None	None
1	None	ENSG00000242150	ENST00000482594	transcribed_processed_pseudogene	KNOWN	None	None	None	None	201489184	201489677	1	None	None
3	None	ENSG00000244461	ENST00000465795	lincRNA	KNOWN	None	None	None	None	78087856	78095945	-1	None	None
20	ADAM33	ENSG00000149451	ENST00000466620	processed_transcript	KNOWN	None	15478	None	None	3648612	3654394	-1	C20orf153	DKFZp434K0521, dJ964F7.1
20	ADAM33	ENSG00000149451	ENST00000483362	processed_transcript	KNOWN	None	15478	None	None	3648617	3651272	-1	C20orf153	DKFZp434K0521, dJ964F7.1
20	ADAM33	ENSG00000149451	ENST00000356518	protein_coding	KNOWN	CCDS13058	15478	2442	813	3648617	3662893	-1	C20orf153	DKFZp434K0521, dJ964F7.1
20	ADAM33	ENSG00000149451	ENST00000379861	protein_coding	KNOWN	None	15478	2439	812	3648617	3662893	-1	C20orf153	DKFZp434K0521, dJ964F7.1
20	ADAM33	ENSG00000149451	ENST00000350009	protein_coding	KNOWN	None	15478	2364	787	3648621	3662750	-1	C20orf153	DKFZp434K0521, dJ964F7.1
11	OPCML	ENSG00000183715	ENST00000331898	protein_coding	KNOWN	CCDS8492	8143	1038	345	132284871	132813566	-1	None	OPCM, OBCAM, IGLON1
11	OPCML	ENSG00000183715	ENST00000524381	protein_coding	KNOWN	CCDS31722	8143	1017	338	132284875	133402414	-1	None	OPCM, OBCAM, IGLON1
11	OPCML	ENSG00000183715	ENST00000529038	processed_transcript	KNOWN	None	8143	None	None	132289754	133402297	-1	None	OPCM, OBCAM, IGLON1
11	OPCML	ENSG00000183715	ENST00000374778	protein_coding	PUTATIVE	None	8143	915	304	132289914	132813663	-1	None	OPCM, OBCAM, IGLON1
11	OPCML	ENSG00000183715	ENST00000525412	processed_transcript	KNOWN	None	8143	None	None	132526982	132812905	-1	None	OPCM, OBCAM, IGLON1
11	OPCML	ENSG00000183715	ENST00000529019	processed_transcript	KNOWN	None	8143	None	None	132687021	132730672	-1	None	OPCM, OBCAM, IGLON1
11	OPCML	ENSG00000183715	ENST00000541867	protein_coding	KNOWN	None	8143	1065	354	132290087	132812987	-1	None	OPCM, OBCAM, IGLON1
9	None	ENSG00000229523	ENST00000431805	unprocessed_pseudogene	KNOWN	None	None	None	None	45729709	45730417	1	None	None
2	None	ENSG00000225166	ENST00000447835	lincRNA	KNOWN	None	None	None	None	216318430	216328594	1	None	None
11	None	ENSG00000254591	ENST00000529936	processed_pseudogene	KNOWN	None	None	None	None	127527463	127527772	1	None	None
1	None	ENSG00000252146	ENST00000516337	miRNA	NOVEL	None	None	None	None	44798777	44798850	-1	None	None
13	LINC00427	ENSG00000236463	ENST00000412722	lincRNA	KNOWN	None	42762	None	None	30890497	30894040	-1	None	None
2	None	ENSG00000221849	ENST00000418898	processed_pseudogene	KNOWN	None	None	None	None	104144078	104145719	1	None	None
14	RNU6-921P	ENSG00000207089	ENST00000384361	snRNA	KNOWN	None	47884	None	None	69202639	69202745	-1	None	None
3	SLC4A7	ENSG00000033867	ENST00000419036	protein_coding	NOVEL	None	11033	2406	801	27414214	27465577	-1	SLC4A6	NBC3, SBC2
3	SLC4A7	ENSG00000033867	ENST00000295736	protein_coding	KNOWN	CCDS33721	11033	3645	1214	27414214	27498245	-1	SLC4A6	NBC3, SBC2
3	SLC4A7	ENSG00000033867	ENST00000428386	protein_coding	KNOWN	CCDS58819	11033	3273	1090	27414214	27498245	-1	SLC4A6	NBC3, SBC2
3	SLC4A7	ENSG00000033867	ENST00000454389	protein_coding	KNOWN	None	11033	3780	1259	27418097	27525838	-1	SLC4A6	NBC3, SBC2
3	SLC4A7	ENSG00000033867	ENST00000440156	protein_coding	KNOWN	None	11033	3741	1246	27418097	27525838	-1	SLC4A6	NBC3, SBC2
3	SLC4A7	ENSG00000033867	ENST00000457377	nonsense_mediated_decay	KNOWN	None	11033	1392	463	27418097	27525838	-1	SLC4A6	NBC3, SBC2
3	SLC4A7	ENSG00000033867	ENST00000438530	nonsense_mediated_decay	KNOWN	None	11033	1725	574	27418097	27525838	-1	SLC4A6	NBC3, SBC2
3	SLC4A7	ENSG00000033867	ENST00000437179	protein_coding	KNOWN	None	11033	3288	1095	27418097	27525838	-1	SLC4A6	NBC3, SBC2
3	SLC4A7	ENSG00000033867	ENST00000446700	protein_coding	NOVEL	None	11033	3621	1206	27418097	27525838	-1	SLC4A6	NBC3, SBC2
3	SLC4A7	ENSG00000033867	ENST00000455077	protein_coding	KNOWN	CCDS58820	11033	3396	1131	27418097	27525838	-1	SLC4A6	NBC3, SBC2
3	SLC4A7	ENSG00000033867	ENST00000445684	protein_coding	NOVEL	None	11033	3633	1210	27418097	27525887	-1	SLC4A6	NBC3, SBC2
3	SLC4A7	ENSG00000033867	ENST00000465487	retained_intron	KNOWN	None	11033	None	None	27418220	27433336	-1	SLC4A6	NBC3, SBC2
3	SLC4A7	ENSG00000033867	ENST00000437266	nonsense_mediated_decay	KNOWN	None	11033	1392	463	27418255	27525911	-1	SLC4A6	NBC3, SBC2
3	SLC4A7	ENSG00000033867	ENST00000428179	protein_coding	NOVEL	None	11033	3153	1050	27427383	27498245	-1	SLC4A6	NBC3, SBC2
3	SLC4A7	ENSG00000033867	ENST00000475120	retained_intron	KNOWN	None	11033	None	None	27439356	27442535	-1	SLC4A6	NBC3, SBC2
3	SLC4A7	ENSG00000033867	ENST00000491211	retained_intron	KNOWN	None	11033	None	None	27463163	27465993	-1	SLC4A6	NBC3, SBC2
3	SLC4A7	ENSG00000033867	ENST00000428005	retained_intron	KNOWN	None	11033	None	None	27465132	27525911	-1	SLC4A6	NBC3, SBC2
3	SLC4A7	ENSG00000033867	ENST00000435667	protein_coding	KNOWN	None	11033	3408	1135	27418097	27525838	-1	SLC4A6	NBC3, SBC2
3	SLC4A7	ENSG00000033867	ENST00000388777	protein_coding	KNOWN	None	11033	2403	800	27418097	27525838	-1	SLC4A6	NBC3, SBC2
3	SLC4A7	ENSG00000033867	ENST00000425128	protein_coding	KNOWN	None	11033	1725	574	27418097	27525838	-1	SLC4A6	NBC3, SBC2
1	OR2T12	ENSG00000177201	ENST00000317996	protein_coding	KNOWN	CCDS31110	19592	963	320	248457918	248458880	-1	None	None
2	None	ENSG00000223859	ENST00000427579	lincRNA	KNOWN	None	None	None	None	67267678	67269098	1	None	None
1	RNU6-369P	ENSG00000199385	ENST00000362515	snRNA	KNOWN	None	47332	None	None	44856394	44856495	1	None	None
9	None	ENSG00000184879	ENST00000431682	unprocessed_pseudogene	KNOWN	None	None	None	None	45733441	45734160	-1	None	None
9	None	ENSG00000184879	ENST00000330839	unprocessed_pseudogene	KNOWN	None	None	None	None	45733441	45734158	-1	None	None
11	None	ENSG00000254409	ENST00000528226	processed_transcript	KNOWN	None	None	None	None	43942609	43954960	1	None	None
11	None	ENSG00000254409	ENST00000526408	processed_transcript	KNOWN	None	None	None	None	43942626	44022707	1	None	None
14	RN7SL224P	ENSG00000263694	ENST00000578672	misc_RNA	KNOWN	None	46240	None	None	69312519	69312772	1	None	None
17	None	ENSG00000271063	ENST00000603780	processed_pseudogene	KNOWN	None	None	None	None	57358491	57358704	1	None	None
HG311_PATCH	PNLIPRP1	ENSG00000262273	ENST00000570690	processed_transcript	KNOWN	None	9156	None	None	118349897	118353862	1	None	PLRP1
HG311_PATCH	PNLIPRP1	ENSG00000262273	ENST00000570397	retained_intron	KNOWN	None	9156	None	None	118349934	118351654	1	None	PLRP1
HG311_PATCH	PNLIPRP1	ENSG00000262273	ENST00000575031	retained_intron	KNOWN	None	9156	None	None	118349935	118354709	1	None	PLRP1
HG311_PATCH	PNLIPRP1	ENSG00000262273	ENST00000572149	retained_intron	KNOWN	None	9156	None	None	118349937	118352077	1	None	PLRP1
HG311_PATCH	PNLIPRP1	ENSG00000262273	ENST00000576132	protein_coding	KNOWN	None	9156	574	190	118349937	118355834	1	None	PLRP1
HG311_PATCH	PNLIPRP1	ENSG00000262273	ENST00000570706	retained_intron	KNOWN	None	9156	None	None	118350471	118352700	1	None	PLRP1
HG311_PATCH	PNLIPRP1	ENSG00000262273	ENST00000571728	retained_intron	KNOWN	None	9156	None	None	118350471	118354732	1	None	PLRP1
HG311_PATCH	PNLIPRP1	ENSG00000262273	ENST00000570575	retained_intron	KNOWN	None	9156	None	None	118350471	118368679	1	None	PLRP1
HG311_PATCH	PNLIPRP1	ENSG00000262273	ENST00000570748	retained_intron	KNOWN	None	9156	None	None	118350472	118368687	1	None	PLRP1
HG311_PATCH	PNLIPRP1	ENSG00000262273	ENST00000575644	retained_intron	KNOWN	None	9156	None	None	118350472	118368687	1	None	PLRP1
HG311_PATCH	PNLIPRP1	ENSG00000262273	ENST00000572596	protein_coding	KNOWN	None	9156	1404	467	118350474	118368687	1	None	PLRP1
HG311_PATCH	PNLIPRP1	ENSG00000262273	ENST00000572926	protein_coding	KNOWN	None	9156	1404	467	118350481	118368686	1	None	PLRP1
HG311_PATCH	PNLIPRP1	ENSG00000262273	ENST00000572210	nonsense_mediated_decay	KNOWN	None	9156	357	118	118350528	118355834	1	None	PLRP1
HG311_PATCH	PNLIPRP1	ENSG00000262273	ENST00000572502	protein_coding	NOVEL	None	9156	557	184	118350528	118357457	1	None	PLRP1
HG311_PATCH	PNLIPRP1	ENSG00000262273	ENST00000572871	protein_coding	NOVEL	None	9156	491	162	118350554	118357574	1	None	PLRP1
HG311_PATCH	PNLIPRP1	ENSG00000262273	ENST00000571833	processed_transcript	KNOWN	None	9156	None	None	118350563	118354011	1	None	PLRP1
HG311_PATCH	PNLIPRP1	ENSG00000262273	ENST00000571034	protein_coding	KNOWN	None	9156	395	130	118350592	118354306	1	None	PLRP1
HG311_PATCH	PNLIPRP1	ENSG00000262273	ENST00000574116	protein_coding	NOVEL	None	9156	1404	467	118350642	118368683	1	None	PLRP1
HG311_PATCH	PNLIPRP1	ENSG00000262273	ENST00000573689	processed_transcript	PUTATIVE	None	9156	None	None	118352198	118353424	1	None	PLRP1
HG311_PATCH	PNLIPRP1	ENSG00000262273	ENST00000571548	nonsense_mediated_decay	KNOWN	None	9156	540	179	118354242	118368687	1	None	PLRP1
HG311_PATCH	PNLIPRP1	ENSG00000262273	ENST00000572867	retained_intron	KNOWN	None	9156	None	None	118357581	118360028	1	None	PLRP1
HG243_PATCH	VPS28	ENSG00000260313	ENST00000565984	protein_coding	PUTATIVE	None	18178	702	233	145478520	145483414	-1	None	None
HG243_PATCH	VPS28	ENSG00000260313	ENST00000562080	retained_intron	KNOWN	None	18178	None	None	145478520	145483425	-1	None	None
HG243_PATCH	VPS28	ENSG00000260313	ENST00000562786	protein_coding	KNOWN	None	18178	666	221	145478520	145483426	-1	None	None
HG243_PATCH	VPS28	ENSG00000260313	ENST00000563682	nonsense_mediated_decay	KNOWN	None	18178	108	35	145478523	145483416	-1	None	None
HG243_PATCH	VPS28	ENSG00000260313	ENST00000567251	retained_intron	KNOWN	None	18178	None	None	145478524	145483416	-1	None	None
HG243_PATCH	VPS28	ENSG00000260313	ENST00000569556	retained_intron	KNOWN	None	18178	None	None	145478525	145483403	-1	None	None
HG243_PATCH	VPS28	ENSG00000260313	ENST00000567033	nonsense_mediated_decay	KNOWN	None	18178	108	35	145478534	145481886	-1	None	None
HG243_PATCH	VPS28	ENSG00000260313	ENST00000568557	retained_intron	KNOWN	None	18178	None	None	145478555	145483421	-1	None	None
HG243_PATCH	VPS28	ENSG00000260313	ENST00000564981	retained_intron	KNOWN	None	18178	None	None	145478575	145481901	-1	None	None
HG243_PATCH	VPS28	ENSG00000260313	ENST00000569041	protein_coding	PUTATIVE	None	18178	556	184	145478767	145483451	-1	None	None
HG243_PATCH	VPS28	ENSG00000260313	ENST00000561789	retained_intron	KNOWN	None	18178	None	None	145479868	145482197	-1	None	None
HG243_PATCH	VPS28	ENSG00000260313	ENST00000564939	protein_coding	NOVEL	None	18178	159	52	145480621	145483447	-1	None	None
2	NRBP1	ENSG00000115216	ENST00000233557	protein_coding	KNOWN	CCDS1753	7993	1608	535	27650657	27665126	1	NRBP	BCON3, MUDPNP, MADM
2	NRBP1	ENSG00000115216	ENST00000379852	protein_coding	KNOWN	CCDS1753	7993	1608	535	27651507	27665122	1	NRBP	BCON3, MUDPNP, MADM
2	NRBP1	ENSG00000115216	ENST00000379863	protein_coding	NOVEL	None	7993	1632	543	27651520	27665122	1	NRBP	BCON3, MUDPNP, MADM
2	NRBP1	ENSG00000115216	ENST00000419281	protein_coding	KNOWN	None	7993	465	154	27652050	27657367	1	NRBP	BCON3, MUDPNP, MADM
2	NRBP1	ENSG00000115216	ENST00000356442	protein_coding	KNOWN	None	7993	245	80	27654544	27656574	1	NRBP	BCON3, MUDPNP, MADM
2	NRBP1	ENSG00000115216	ENST00000493768	retained_intron	KNOWN	None	7993	None	None	27656912	27658036	1	NRBP	BCON3, MUDPNP, MADM
2	NRBP1	ENSG00000115216	ENST00000493746	retained_intron	KNOWN	None	7993	None	None	27657338	27658878	1	NRBP	BCON3, MUDPNP, MADM
2	NRBP1	ENSG00000115216	ENST00000460499	retained_intron	KNOWN	None	7993	None	None	27658449	27665122	1	NRBP	BCON3, MUDPNP, MADM
2	NRBP1	ENSG00000115216	ENST00000486701	retained_intron	KNOWN	None	7993	None	None	27663182	27664368	1	NRBP	BCON3, MUDPNP, MADM
9	LINC00475	ENSG00000225511	ENST00000367276	processed_transcript	KNOWN	None	23569	None	None	94903580	94910588	1	C9orf44	None
9	LINC00475	ENSG00000225511	ENST00000417983	processed_transcript	KNOWN	None	23569	None	None	94903721	94910588	1	C9orf44	None
9	LINC00475	ENSG00000225511	ENST00000416438	processed_transcript	KNOWN	None	23569	None	None	94903749	94922396	1	C9orf44	None
9	LINC00475	ENSG00000225511	ENST00000438322	processed_transcript	KNOWN	None	23569	None	None	94903878	94907392	1	C9orf44	None
9	LINC00475	ENSG00000225511	ENST00000430945	processed_transcript	KNOWN	None	23569	None	None	94907223	94910588	1	C9orf44	None
9	LINC00475	ENSG00000225511	ENST00000421234	processed_transcript	KNOWN	None	23569	None	None	94909874	94910588	1	C9orf44	None
9	LINC00475	ENSG00000225511	ENST00000444476	processed_transcript	KNOWN	None	23569	None	None	94909994	94910588	1	C9orf44	None
9	LINC00475	ENSG00000225511	ENST00000434944	processed_transcript	KNOWN	None	23569	None	None	94914876	94920770	1	C9orf44	None
2	None	ENSG00000228618	ENST00000414756	lincRNA	KNOWN	None	None	None	None	216341390	216344971	1	None	None
17	None	ENSG00000265337	ENST00000577227	sense_intronic	KNOWN	None	None	None	None	30856026	30857067	-1	None	None
1	MIR5584	ENSG00000263381	ENST00000581357	miRNA	KNOWN	None	43507	None	None	45011165	45011224	1	None	hsa-mir-5584
14	None	ENSG00000258526	ENST00000554328	lincRNA	KNOWN	None	None	None	None	39944044	39982984	1	None	None
14	None	ENSG00000258526	ENST00000556620	lincRNA	KNOWN	None	None	None	None	39944060	39961974	1	None	None
14	None	ENSG00000258526	ENST00000557197	lincRNA	KNOWN	None	None	None	None	39944139	39962716	1	None	None
14	None	ENSG00000258526	ENST00000555555	lincRNA	KNOWN	None	None	None	None	39954220	39982983	1	None	None
14	None	ENSG00000270975	ENST00000605130	unprocessed_pseudogene	KNOWN	None	None	None	None	69328479	69329242	1	None	None
10	DNAJC12	ENSG00000108176	ENST00000225171	protein_coding	KNOWN	CCDS7271	28908	597	198	69556427	69597922	-1	None	JDP1
10	DNAJC12	ENSG00000108176	ENST00000483798	protein_coding	NOVEL	None	28908	687	228	69556840	69597817	-1	None	JDP1
10	DNAJC12	ENSG00000108176	ENST00000480963	nonsense_mediated_decay	KNOWN	None	28908	174	57	69565345	69597821	-1	None	JDP1
10	DNAJC12	ENSG00000108176	ENST00000339758	protein_coding	KNOWN	CCDS7272	28908	324	107	69570600	69597854	-1	None	JDP1
10	DNAJC12	ENSG00000108176	ENST00000480180	nonsense_mediated_decay	KNOWN	None	28908	123	40	69571286	69597924	-1	None	JDP1
1	SETP18	ENSG00000230667	ENST00000596516	processed_pseudogene	KNOWN	None	42937	None	None	92540092	92540967	-1	None	None
1	SETP18	ENSG00000230667	ENST00000485873	processed_pseudogene	KNOWN	None	42937	None	None	92540090	92540968	-1	None	None
17	MIR4729	ENSG00000263857	ENST00000584140	miRNA	KNOWN	None	41585	None	None	57443444	57443515	1	None	hsa-mir-4729
19	POP4	ENSG00000105171	ENST00000585603	protein_coding	KNOWN	CCDS12416	30081	663	220	30094924	30106707	1	None	RPP29
19	POP4	ENSG00000105171	ENST00000586173	retained_intron	KNOWN	None	30081	None	None	30097190	30100149	1	None	RPP29
19	POP4	ENSG00000105171	ENST00000586420	protein_coding	NOVEL	None	30081	543	180	30097190	30106173	1	None	RPP29
19	POP4	ENSG00000105171	ENST00000591061	nonsense_mediated_decay	KNOWN	None	30081	123	40	30097190	30106343	1	None	RPP29
19	POP4	ENSG00000105171	ENST00000221770	protein_coding	PUTATIVE	None	30081	291	96	30097201	30108144	1	None	RPP29
19	POP4	ENSG00000105171	ENST00000586823	nonsense_mediated_decay	KNOWN	None	30081	129	42	30097205	30104872	1	None	RPP29
19	POP4	ENSG00000105171	ENST00000591824	processed_transcript	KNOWN	None	30081	None	None	30097210	30106365	1	None	RPP29
19	POP4	ENSG00000105171	ENST00000588551	retained_intron	KNOWN	None	30081	None	None	30097211	30102029	1	None	RPP29
19	POP4	ENSG00000105171	ENST00000590688	protein_coding	PUTATIVE	None	30081	452	149	30097228	30103026	1	None	RPP29
19	POP4	ENSG00000105171	ENST00000586136	processed_transcript	KNOWN	None	30081	None	None	30097279	30104146	1	None	RPP29
19	POP4	ENSG00000105171	ENST00000592759	processed_transcript	KNOWN	None	30081	None	None	30101159	30106201	1	None	RPP29
19	POP4	ENSG00000105171	ENST00000592749	retained_intron	KNOWN	None	30081	None	None	30102421	30104879	1	None	RPP29
19	POP4	ENSG00000105171	ENST00000587232	retained_intron	KNOWN	None	30081	None	None	30104732	30106610	1	None	RPP29
19	POP4	ENSG00000105171	ENST00000392279	protein_coding	KNOWN	None	30081	420	139	30097205	30106681	1	None	RPP29
1	None	ENSG00000236390	ENST00000449492	antisense	KNOWN	None	None	None	None	201642233	201643272	-1	None	None
X	None	ENSG00000224217	ENST00000432026	processed_pseudogene	KNOWN	None	None	None	None	115882498	115882845	-1	None	None
2	None	ENSG00000216054	ENST00000401235	miRNA	NOVEL	None	None	None	None	158298062	158298151	1	None	None
1	None	ENSG00000259357	ENST00000560481	antisense	KNOWN	None	None	None	None	150937736	150938439	1	None	None
1	None	ENSG00000259357	ENST00000561111	antisense	KNOWN	None	None	None	None	150937736	150938734	1	None	None
2	None	ENSG00000234938	ENST00000431727	lincRNA	KNOWN	None	None	None	None	216395170	216410249	-1	None	None
1	RNU5F-1	ENSG00000199377	ENST00000362507	snRNA	KNOWN	None	10216	None	None	45187458	45187574	-1	RNU5F	None
17	None	ENSG00000264458	ENST00000582272	antisense	KNOWN	None	None	None	None	30954757	31013502	1	None	None
9	None	ENSG00000231517	ENST00000456567	unprocessed_pseudogene	KNOWN	None	None	None	None	45737473	45738490	-1	None	None
17	None	ENSG00000266002	ENST00000585190	antisense	KNOWN	None	None	None	None	57477849	57480664	-1	None	None
2	None	ENSG00000234584	ENST00000447019	lincRNA	KNOWN	None	None	None	None	158582220	158592517	-1	None	None
11	None	ENSG00000254458	ENST00000534065	antisense	KNOWN	None	None	None	None	66080324	66086708	1	None	None
2	None	ENSG00000235885	ENST00000452716	lincRNA	KNOWN	None	None	None	None	67313578	67523207	1	None	None
2	None	ENSG00000235885	ENST00000450294	lincRNA	KNOWN	None	None	None	None	67487935	67516526	1	None	None
2	None	ENSG00000235885	ENST00000598583	lincRNA	KNOWN	None	None	None	None	67488198	67516370	1	None	None
2	None	ENSG00000235885	ENST00000593336	lincRNA	KNOWN	None	None	None	None	67488198	67516502	1	None	None
1	RNU5D-1	ENSG00000200169	ENST00000363299	snRNA	KNOWN	None	10214	None	None	45196727	45196842	-1	RNU5D	U5DS, U5DL
17	None	ENSG00000262481	ENST00000573331	nonsense_mediated_decay	KNOWN	None	None	207	68	7293053	7307416	-1	None	None
17	None	ENSG00000262481	ENST00000570600	nonsense_mediated_decay	KNOWN	None	None	126	41	7293536	7307416	-1	None	None
17	None	ENSG00000262481	ENST00000571125	nonsense_mediated_decay	KNOWN	None	None	87	28	7294030	7306706	-1	None	None
17	None	ENSG00000262481	ENST00000570569	nonsense_mediated_decay	KNOWN	None	None	207	68	7297423	7307416	-1	None	None
2	None	ENSG00000231723	ENST00000414265	processed_pseudogene	KNOWN	None	None	None	None	104240088	104240288	1	None	None
21	C21orf119	ENSG00000256073	ENST00000534991	protein_coding	KNOWN	None	23128	186	61	33765439	33766254	1	None	PRED84, MGC14136
17	None	ENSG00000201178	ENST00000364308	misc_RNA	NOVEL	None	None	None	None	31157237	31157347	-1	None	None
4	None	ENSG00000248517	ENST00000505053	lincRNA	KNOWN	None	None	None	None	185910151	185926340	1	None	None
12	RNU6-1069P	ENSG00000252421	ENST00000516612	snRNA	KNOWN	None	48032	None	None	31955892	31956024	-1	None	None
8	None	ENSG00000264231	ENST00000583630	miRNA	NOVEL	None	None	None	None	47996975	47997049	1	None	None
9	None	ENSG00000238930	ENST00000458932	misc_RNA	NOVEL	None	None	None	None	45755239	45755350	-1	None	None
12	MIR619	ENSG00000207622	ENST00000384890	miRNA	KNOWN	None	32875	None	None	109230684	109230782	-1	MIRN619	hsa-mir-619
2	None	ENSG00000215934	ENST00000401115	miRNA	NOVEL	None	None	None	None	158711782	158711858	-1	None	None
17	None	ENSG00000226377	ENST00000435733	antisense	KNOWN	None	None	None	None	31203777	31205655	1	None	None
1	None	ENSG00000225721	ENST00000440985	antisense	KNOWN	None	None	None	None	45224709	45227849	-1	None	None
1	None	ENSG00000225721	ENST00000428791	antisense	KNOWN	None	None	None	None	45224796	45241482	-1	None	None
17	TEX2	ENSG00000136478	ENST00000258991	protein_coding	KNOWN	CCDS11658	30884	3405	1134	62224587	62340587	-1	None	HT008, TMEM96, KIAA1738
17	TEX2	ENSG00000136478	ENST00000584498	retained_intron	KNOWN	None	30884	None	None	62224801	62233594	-1	None	HT008, TMEM96, KIAA1738
17	TEX2	ENSG00000136478	ENST00000583097	protein_coding	KNOWN	None	30884	3384	1127	62225034	62308116	-1	None	HT008, TMEM96, KIAA1738
17	TEX2	ENSG00000136478	ENST00000584379	protein_coding	KNOWN	None	30884	3384	1127	62225047	62340661	-1	None	HT008, TMEM96, KIAA1738
17	TEX2	ENSG00000136478	ENST00000583501	protein_coding	NOVEL	None	30884	1880	625	62226243	62290079	-1	None	HT008, TMEM96, KIAA1738
17	TEX2	ENSG00000136478	ENST00000581812	processed_transcript	KNOWN	None	30884	None	None	62228204	62232580	-1	None	HT008, TMEM96, KIAA1738
17	TEX2	ENSG00000136478	ENST00000577489	retained_intron	KNOWN	None	30884	None	None	62232307	62265814	-1	None	HT008, TMEM96, KIAA1738
17	TEX2	ENSG00000136478	ENST00000583922	protein_coding	KNOWN	None	30884	157	51	62291421	62333451	-1	None	HT008, TMEM96, KIAA1738
17	TEX2	ENSG00000136478	ENST00000583738	protein_coding	KNOWN	None	30884	128	41	62291450	62340607	-1	None	HT008, TMEM96, KIAA1738
1	None	ENSG00000231073	ENST00000412838	antisense	KNOWN	None	None	None	None	150945599	150948010	1	None	None
X	MAGEB4	ENSG00000120289	ENST00000378982	protein_coding	KNOWN	CCDS14221	6811	1041	346	30260057	30262293	1	None	MGC33144, CT3.6
11	None	ENSG00000254756	ENST00000526655	antisense	KNOWN	None	None	None	None	66101965	66107346	1	None	None
14	None	ENSG00000258683	ENST00000554451	lincRNA	KNOWN	None	None	None	None	83254822	83262565	-1	None	None
14	None	ENSG00000257185	ENST00000548335	lincRNA	KNOWN	None	None	None	None	27278623	27289909	1	None	None
14	None	ENSG00000257185	ENST00000548385	lincRNA	KNOWN	None	None	None	None	27286174	27305664	1	None	None
9	None	ENSG00000228243	ENST00000437757	processed_pseudogene	KNOWN	None	None	None	None	45949232	45949823	1	None	None
2	None	ENSG00000270557	ENST00000604340	lincRNA	KNOWN	None	None	None	None	158734195	158735077	1	None	None
8	RNF5P1	ENSG00000253570	ENST00000524091	processed_pseudogene	KNOWN	None	31053	None	None	38458179	38458718	-1	None	None
1	IPO9-AS1	ENSG00000231871	ENST00000413035	antisense	KNOWN	None	40892	None	None	201657387	201798687	-1	None	None
1	IPO9-AS1	ENSG00000231871	ENST00000421449	antisense	KNOWN	None	40892	None	None	201785982	201798346	-1	None	None
1	IPO9-AS1	ENSG00000231871	ENST00000421159	antisense	KNOWN	None	40892	None	None	201789583	201798213	-1	None	None
2	None	ENSG00000232597	ENST00000455716	lincRNA	KNOWN	None	None	None	None	104473428	104496667	-1	None	None
12	None	ENSG00000272201	ENST00000606112	lincRNA	KNOWN	None	None	None	None	7087683	7089103	1	None	None
15	RN7SL238P	ENSG00000241273	ENST00000465782	misc_RNA	KNOWN	None	46254	None	None	28632351	28632629	1	None	None
4	None	ENSG00000250754	ENST00000506338	lincRNA	KNOWN	None	None	None	None	185973050	185983970	1	None	None
4	None	ENSG00000250754	ENST00000509017	lincRNA	KNOWN	None	None	None	None	185973050	186028402	1	None	None
4	None	ENSG00000250754	ENST00000511746	lincRNA	KNOWN	None	None	None	None	185983611	185993227	1	None	None
8	ZNF706	ENSG00000120963	ENST00000520984	protein_coding	KNOWN	CCDS6291	24992	231	76	102190106	102217689	-1	None	HSPC038
8	ZNF706	ENSG00000120963	ENST00000518071	nonsense_mediated_decay	KNOWN	None	24992	92	29	102190225	102212321	-1	None	HSPC038
8	ZNF706	ENSG00000120963	ENST00000311212	protein_coding	KNOWN	CCDS6291	24992	231	76	102209280	102217844	-1	None	HSPC038
8	ZNF706	ENSG00000120963	ENST00000519744	protein_coding	PUTATIVE	None	24992	147	48	102210954	102217796	-1	None	HSPC038
8	ZNF706	ENSG00000120963	ENST00000520498	retained_intron	KNOWN	None	24992	None	None	102211152	102212516	-1	None	HSPC038
8	ZNF706	ENSG00000120963	ENST00000517844	protein_coding	KNOWN	CCDS6291	24992	231	76	102211161	102216929	-1	None	HSPC038
8	ZNF706	ENSG00000120963	ENST00000519103	protein_coding	PUTATIVE	None	24992	156	51	102211165	102213885	-1	None	HSPC038
8	ZNF706	ENSG00000120963	ENST00000520347	protein_coding	KNOWN	CCDS6291	24992	231	76	102211166	102217515	-1	None	HSPC038
8	ZNF706	ENSG00000120963	ENST00000519882	protein_coding	KNOWN	CCDS6291	24992	231	76	102211167	102217960	-1	None	HSPC038
8	ZNF706	ENSG00000120963	ENST00000521272	protein_coding	KNOWN	CCDS6291	24992	231	76	102211388	102217910	-1	None	HSPC038
8	ZNF706	ENSG00000120963	ENST00000518336	protein_coding	KNOWN	CCDS6291	24992	231	76	102211423	102218292	-1	None	HSPC038
8	ZNF706	ENSG00000120963	ENST00000523146	nonsense_mediated_decay	KNOWN	None	24992	162	53	102212264	102217702	-1	None	HSPC038
8	ZNF706	ENSG00000120963	ENST00000519916	retained_intron	KNOWN	None	24992	None	None	102213448	102217735	-1	None	HSPC038
8	ZNF706	ENSG00000120963	ENST00000523922	protein_coding	KNOWN	None	24992	127	41	102213843	102217557	-1	None	HSPC038
8	ZNF706	ENSG00000120963	ENST00000520454	protein_coding	KNOWN	None	24992	26	7	102213944	102218421	-1	None	HSPC038
12	None	ENSG00000252204	ENST00000516395	snoRNA	NOVEL	None	None	None	None	31964022	31964124	1	None	None
8	None	ENSG00000254321	ENST00000521511	lincRNA	KNOWN	None	None	None	None	38558144	38562373	-1	None	None
2	None	ENSG00000237525	ENST00000422353	lincRNA	KNOWN	None	None	None	None	216397856	216486648	1	None	None
2	None	ENSG00000237525	ENST00000417485	lincRNA	KNOWN	None	None	None	None	216410921	216578618	1	None	None
2	None	ENSG00000237525	ENST00000428487	lincRNA	KNOWN	None	None	None	None	216542747	216554494	1	None	None
1	RNU6-884P	ENSG00000200759	ENST00000363889	snRNA	KNOWN	None	47847	None	None	150995222	150995328	-1	None	None
15	None	ENSG00000221050	ENST00000408123	miRNA	NOVEL	None	None	None	None	28633515	28633597	1	None	None
8	None	ENSG00000248347	ENST00000509729	unprocessed_pseudogene	KNOWN	None	None	None	None	48001195	48110484	-1	None	None
3	None	ENSG00000240573	ENST00000461186	lincRNA	KNOWN	None	None	None	None	78136555	78141421	1	None	None
1	GAPDHP46	ENSG00000224678	ENST00000424043	processed_pseudogene	KNOWN	None	37804	None	None	92580360	92581353	-1	None	None
1	None	ENSG00000252495	ENST00000516686	snoRNA	NOVEL	None	None	None	None	246970417	246970487	1	None	None
1	None	ENSG00000233717	ENST00000456396	processed_pseudogene	KNOWN	None	None	None	None	151084388	151085204	-1	None	None
2	None	ENSG00000236141	ENST00000447761	lincRNA	KNOWN	None	None	None	None	104482204	104486146	-1	None	None
8	DEFB109P1	ENSG00000242296	ENST00000482450	unprocessed_pseudogene	KNOWN	None	18090	None	None	12250718	12257875	-1	DEFB109	DEFB-9, DEFB109A
11	MS4A4E	ENSG00000214787	ENST00000532442	nonsense_mediated_decay	KNOWN	None	14284	213	70	59968726	60010561	-1	None	None
11	MS4A4E	ENSG00000214787	ENST00000526153	nonsense_mediated_decay	KNOWN	None	14284	202	66	59980562	59997517	-1	None	None
11	MS4A4E	ENSG00000214787	ENST00000425663	protein_coding	NOVEL	None	14284	270	89	59980562	59997528	-1	None	None
11	MS4A4E	ENSG00000214787	ENST00000526086	protein_coding	NOVEL	None	14284	333	110	59980568	59997528	-1	None	None
11	MS4A4E	ENSG00000214787	ENST00000528394	protein_coding	NOVEL	None	14284	399	132	59980568	59997528	-1	None	None
11	MS4A4E	ENSG00000214787	ENST00000427611	protein_coding	KNOWN	None	14284	615	204	59968726	60010561	-1	None	None
11	MS4A4E	ENSG00000214787	ENST00000398986	protein_coding	KNOWN	None	14284	333	110	59980562	59997528	-1	None	None
11	MS4A4E	ENSG00000214787	ENST00000398984	protein_coding	KNOWN	None	14284	399	132	59980562	59997528	-1	None	None
7	None	ENSG00000271582	ENST00000605657	processed_pseudogene	KNOWN	None	None	None	None	150181149	150182223	-1	None	None
1	None	ENSG00000235386	ENST00000433897	unprocessed_pseudogene	KNOWN	None	None	None	None	246981378	246981482	1	None	None
13	BRCA2	ENSG00000139618	ENST00000380152	protein_coding	KNOWN	CCDS9344	1101	10257	3418	32889611	32973347	1	FANCD1, FACD, FANCD	FAD, FAD1, BRCC2
13	BRCA2	ENSG00000139618	ENST00000530893	protein_coding	PUTATIVE	None	1101	1444	480	32889642	32907428	1	FANCD1, FACD, FANCD	FAD, FAD1, BRCC2
13	BRCA2	ENSG00000139618	ENST00000528762	nonsense_mediated_decay	KNOWN	None	1101	195	64	32945108	32953632	1	FANCD1, FACD, FANCD	FAD, FAD1, BRCC2
13	BRCA2	ENSG00000139618	ENST00000470094	nonsense_mediated_decay	KNOWN	None	1101	560	185	32953977	32972409	1	FANCD1, FACD, FANCD	FAD, FAD1, BRCC2
13	BRCA2	ENSG00000139618	ENST00000533776	retained_intron	KNOWN	None	1101	None	None	32970946	32972585	1	FANCD1, FACD, FANCD	FAD, FAD1, BRCC2
13	BRCA2	ENSG00000139618	ENST00000544455	protein_coding	KNOWN	CCDS9344	1101	10257	3418	32889617	32973805	1	FANCD1, FACD, FANCD	FAD, FAD1, BRCC2
17	None	ENSG00000236377	ENST00000444464	lincRNA	KNOWN	None	None	None	None	31232680	31233602	1	None	None
11	None	ENSG00000254736	ENST00000529855	processed_pseudogene	KNOWN	None	None	None	None	66157080	66157639	1	None	None
2	RNU6-436P	ENSG00000251980	ENST00000516171	snRNA	KNOWN	None	47399	None	None	158769284	158769397	1	None	None
X	OR11N1P	ENSG00000185903	ENST00000415818	processed_pseudogene	KNOWN	None	19582	None	None	130458372	130459224	-1	None	None
1	SNORD55	ENSG00000264294	ENST00000581525	snoRNA	KNOWN	None	10205	None	None	45241536	45241615	1	RNU55, RNU39, SNORD39	U55, U39
12	None	ENSG00000260987	ENST00000569754	lincRNA	KNOWN	None	None	None	None	109301517	109303778	-1	None	None
13	LINC00426	ENSG00000238121	ENST00000447147	lincRNA	KNOWN	None	42761	None	None	30914407	30948036	-1	None	None
13	LINC00426	ENSG00000238121	ENST00000420210	lincRNA	KNOWN	None	42761	None	None	30915496	30941804	-1	None	None
13	LINC00426	ENSG00000238121	ENST00000417079	lincRNA	KNOWN	None	42761	None	None	30916597	30939898	-1	None	None
13	LINC00426	ENSG00000238121	ENST00000429808	lincRNA	KNOWN	None	42761	None	None	30931402	30938333	-1	None	None
13	LINC00426	ENSG00000238121	ENST00000420219	lincRNA	KNOWN	None	42761	None	None	30931879	30951282	-1	None	None
13	LINC00426	ENSG00000238121	ENST00000450327	lincRNA	KNOWN	None	42761	None	None	30931882	30946511	-1	None	None
13	LINC00426	ENSG00000238121	ENST00000452659	lincRNA	KNOWN	None	42761	None	None	30937313	30947169	-1	None	None
13	LINC00426	ENSG00000238121	ENST00000444319	lincRNA	KNOWN	None	42761	None	None	30944609	30948051	-1	None	None
13	LINC00426	ENSG00000238121	ENST00000416261	lincRNA	KNOWN	None	42761	None	None	30948140	30951101	-1	None	None
X	None	ENSG00000234130	ENST00000441188	processed_pseudogene	KNOWN	None	None	None	None	92477219	92480014	-1	None	None
12	None	ENSG00000239701	ENST00000468816	processed_pseudogene	KNOWN	None	None	None	None	7139412	7139702	1	None	None
2	None	ENSG00000230906	ENST00000594329	lincRNA	KNOWN	None	None	None	None	67314145	67485098	1	None	None
2	None	ENSG00000230906	ENST00000445514	lincRNA	KNOWN	None	None	None	None	67440540	67471706	1	None	None
12	None	ENSG00000256372	ENST00000544968	processed_pseudogene	KNOWN	None	None	None	None	32005955	32006341	-1	None	None
9	None	ENSG00000225812	ENST00000412428	processed_pseudogene	KNOWN	None	None	None	None	46042425	46042722	-1	None	None
1	FUBP1	ENSG00000162613	ENST00000483894	processed_transcript	KNOWN	None	4004	None	None	78409740	78411580	-1	FUBP	FBP
1	FUBP1	ENSG00000162613	ENST00000480673	processed_transcript	KNOWN	None	4004	None	None	78409740	78412261	-1	FUBP	FBP
1	FUBP1	ENSG00000162613	ENST00000474632	processed_transcript	KNOWN	None	4004	None	None	78409740	78413377	-1	FUBP	FBP
1	FUBP1	ENSG00000162613	ENST00000489495	processed_transcript	KNOWN	None	4004	None	None	78409740	78414018	-1	FUBP	FBP
1	FUBP1	ENSG00000162613	ENST00000488814	processed_transcript	KNOWN	None	4004	None	None	78409740	78414952	-1	FUBP	FBP
1	FUBP1	ENSG00000162613	ENST00000492405	processed_transcript	KNOWN	None	4004	None	None	78409740	78420967	-1	FUBP	FBP
1	FUBP1	ENSG00000162613	ENST00000492724	processed_transcript	KNOWN	None	4004	None	None	78409740	78421024	-1	FUBP	FBP
1	FUBP1	ENSG00000162613	ENST00000294623	nonsense_mediated_decay	KNOWN	None	4004	1962	653	78412167	78444771	-1	FUBP	FBP
1	FUBP1	ENSG00000162613	ENST00000370768	protein_coding	KNOWN	CCDS683	4004	1935	644	78414090	78444770	-1	FUBP	FBP
1	FUBP1	ENSG00000162613	ENST00000370767	protein_coding	PUTATIVE	None	4004	1968	655	78414090	78444776	-1	FUBP	FBP
1	FUBP1	ENSG00000162613	ENST00000487684	processed_transcript	KNOWN	None	4004	None	None	78414655	78421143	-1	FUBP	FBP
1	FUBP1	ENSG00000162613	ENST00000470287	processed_transcript	KNOWN	None	4004	None	None	78420940	78426470	-1	FUBP	FBP
1	FUBP1	ENSG00000162613	ENST00000421641	protein_coding	KNOWN	None	4004	696	231	78430753	78444794	-1	FUBP	FBP
1	FUBP1	ENSG00000162613	ENST00000436586	protein_coding	KNOWN	None	4004	1998	665	78414368	78444745	-1	FUBP	FBP
2	None	ENSG00000271320	ENST00000604239	lincRNA	KNOWN	None	None	None	None	158774224	158774883	1	None	None
15	None	ENSG00000238615	ENST00000459185	snoRNA	NOVEL	None	None	None	None	25138894	25138995	1	None	None
12	MYF6	ENSG00000111046	ENST00000228641	protein_coding	KNOWN	CCDS9019	7566	729	242	81101277	81103253	1	None	MRF4, bHLHc4
1	ATP13A2	ENSG00000159363	ENST00000326735	protein_coding	KNOWN	CCDS175	30213	3543	1180	17312453	17338267	-1	PARK9	HSA9947, CLN12
1	ATP13A2	ENSG00000159363	ENST00000341676	protein_coding	KNOWN	CCDS44072	30213	3477	1158	17312453	17338410	-1	PARK9	HSA9947, CLN12
1	ATP13A2	ENSG00000159363	ENST00000452699	protein_coding	KNOWN	CCDS44073	30213	3528	1175	17312453	17338423	-1	PARK9	HSA9947, CLN12
1	ATP13A2	ENSG00000159363	ENST00000466561	retained_intron	KNOWN	None	30213	None	None	17312454	17318353	-1	PARK9	HSA9947, CLN12
1	ATP13A2	ENSG00000159363	ENST00000502418	protein_coding	NOVEL	None	30213	1197	398	17312476	17316498	-1	PARK9	HSA9947, CLN12
1	ATP13A2	ENSG00000159363	ENST00000503552	protein_coding	NOVEL	None	30213	774	257	17316670	17322778	-1	PARK9	HSA9947, CLN12
1	ATP13A2	ENSG00000159363	ENST00000463860	retained_intron	KNOWN	None	30213	None	None	17321982	17327342	-1	PARK9	HSA9947, CLN12
1	ATP13A2	ENSG00000159363	ENST00000502860	processed_transcript	KNOWN	None	30213	None	None	17322354	17326786	-1	PARK9	HSA9947, CLN12
1	ATP13A2	ENSG00000159363	ENST00000509392	retained_intron	KNOWN	None	30213	None	None	17322529	17323189	-1	PARK9	HSA9947, CLN12
1	ATP13A2	ENSG00000159363	ENST00000506174	protein_coding	NOVEL	None	30213	573	190	17322582	17326807	-1	PARK9	HSA9947, CLN12
1	ATP13A2	ENSG00000159363	ENST00000510069	protein_coding	NOVEL	None	30213	962	319	17326506	17332209	-1	PARK9	HSA9947, CLN12
1	ATP13A2	ENSG00000159363	ENST00000511957	protein_coding	NOVEL	None	30213	569	188	17326764	17331567	-1	PARK9	HSA9947, CLN12
1	ATP13A2	ENSG00000159363	ENST00000508222	protein_coding	NOVEL	None	30213	562	186	17326778	17331890	-1	PARK9	HSA9947, CLN12
1	ATP13A2	ENSG00000159363	ENST00000509619	protein_coding	NOVEL	None	30213	570	189	17328815	17332260	-1	PARK9	HSA9947, CLN12
1	None	ENSG00000252011	ENST00000516202	snoRNA	NOVEL	None	None	None	None	246996750	246996831	-1	None	None
1	SNORD46	ENSG00000200913	ENST00000364043	snoRNA	KNOWN	None	10186	None	None	45242162	45242265	1	RNU46, RNU40	U46, U40
2	None	ENSG00000256637	ENST00000537492	lincRNA	KNOWN	None	None	None	None	104490768	104694062	1	None	None
2	None	ENSG00000256637	ENST00000544869	lincRNA	KNOWN	None	None	None	None	104490789	104694236	1	None	None
2	None	ENSG00000256637	ENST00000545549	lincRNA	KNOWN	None	None	None	None	104668433	104693981	1	None	None
2	None	ENSG00000256637	ENST00000412112	lincRNA	KNOWN	None	None	None	None	104669960	104675714	1	None	None
14	None	ENSG00000258565	ENST00000553776	unprocessed_pseudogene	KNOWN	None	None	None	None	69334574	69336668	-1	None	None
1	None	ENSG00000261168	ENST00000563624	sense_overlapping	KNOWN	None	None	None	None	151102551	151104086	-1	None	None
7	STRADBP1	ENSG00000213205	ENST00000478954	processed_pseudogene	KNOWN	None	22478	None	None	150209647	150210927	-1	None	STLK6ps1, ALS2CR2P1
3	RN7SL647P	ENSG00000243957	ENST00000485429	misc_RNA	KNOWN	None	46663	None	None	78164309	78164606	1	None	None
17	None	ENSG00000264598	ENST00000578040	sense_intronic	KNOWN	None	None	None	None	31379125	31379885	-1	None	None
1	MIR5191	ENSG00000264802	ENST00000577455	miRNA	KNOWN	None	43497	None	None	201688636	201688755	1	None	hsa-mir-5191
X	RNU6-1323P	ENSG00000206752	ENST00000384025	snRNA	KNOWN	None	48286	None	None	115984807	115984913	-1	None	None
1	PRKAR1AP	ENSG00000233401	ENST00000441422	processed_pseudogene	KNOWN	None	9389	None	None	92590858	92592019	1	None	None
1	None	ENSG00000236775	ENST00000431287	processed_pseudogene	KNOWN	None	None	None	None	247178370	247180593	1	None	None
1	SNORD38A	ENSG00000202031	ENST00000365161	snoRNA	KNOWN	None	30355	None	None	45243515	45243584	1	RNU38A	U38A
15	ABCB10P3	ENSG00000261524	ENST00000561950	processed_pseudogene	KNOWN	None	31129	None	None	28648014	28650179	1	None	None
12	None	ENSG00000257078	ENST00000543250	processed_pseudogene	KNOWN	None	None	None	None	7148460	7148945	-1	None	None
11	RNU1-84P	ENSG00000202317	ENST00000365447	snRNA	KNOWN	None	48426	None	None	66160920	66161083	1	None	None
16	RNU6-22P	ENSG00000207083	ENST00000384355	snRNA	KNOWN	None	34266	None	None	69209574	69209680	-1	RNU6-22	None
1	None	ENSG00000235121	ENST00000429443	antisense	KNOWN	None	None	None	None	201692422	201706634	-1	None	None
1	RN7SL444P	ENSG00000265753	ENST00000578948	misc_RNA	KNOWN	None	46460	None	None	151273143	151273439	-1	None	None
15	RPL5P1	ENSG00000241061	ENST00000460716	processed_pseudogene	KNOWN	None	10361	None	None	25154079	25154972	-1	None	None
15	RPL5P1	ENSG00000241061	ENST00000441797	processed_pseudogene	KNOWN	None	10361	None	None	25154076	25154819	-1	None	None
1	None	ENSG00000226773	ENST00000411498	processed_pseudogene	KNOWN	None	None	None	None	92668705	92669548	1	None	None
17	None	ENSG00000266535	ENST00000584688	antisense	KNOWN	None	None	None	None	31438876	31458761	1	None	None
1	SNORD38B	ENSG00000207421	ENST00000384690	snoRNA	KNOWN	None	30356	None	None	45244062	45244128	1	RNU38B	U38B
11	None	ENSG00000244953	ENST00000501541	lincRNA	KNOWN	None	None	None	None	43965337	43968756	-1	None	None
14	IGHV3-43	ENSG00000232216	ENST00000434710	IG_V_gene	KNOWN	None	5604	354	117	106926188	106926724	-1	None	None
11	None	ENSG00000255391	ENST00000528472	processed_pseudogene	KNOWN	None	None	None	None	87191778	87192339	-1	None	None
1	None	ENSG00000215796	ENST00000439523	processed_pseudogene	KNOWN	None	None	None	None	247206093	247207323	1	None	None
16	None	ENSG00000200164	ENST00000363294	misc_RNA	NOVEL	None	None	None	None	69225026	69225126	1	None	None
2	None	ENSG00000268656	ENST00000601759	protein_coding	NOVEL	None	None	63	20	27998851	28009186	-1	None	None
1	None	ENSG00000224645	ENST00000422153	antisense	KNOWN	None	None	None	None	151313124	151314442	1	None	None
2	None	ENSG00000228937	ENST00000443768	processed_pseudogene	KNOWN	None	None	None	None	158817922	158819400	-1	None	None
8	None	ENSG00000207258	ENST00000384528	misc_RNA	NOVEL	None	None	None	None	38601538	38601649	1	None	None
16	None	ENSG00000265113	ENST00000562422	sense_intronic	KNOWN	None	None	None	None	69274452	69275832	1	None	None
2	ITPRIPL1	ENSG00000198885	ENST00000420176	protein_coding	PUTATIVE	None	29371	541	179	96991069	96992934	1	KIAA1754L	None
2	ITPRIPL1	ENSG00000198885	ENST00000439118	protein_coding	KNOWN	CCDS46360	29371	1668	555	96991146	96994064	1	KIAA1754L	None
2	ITPRIPL1	ENSG00000198885	ENST00000420728	protein_coding	PUTATIVE	None	29371	1763	586	96991942	96994062	1	KIAA1754L	None
2	ITPRIPL1	ENSG00000198885	ENST00000361124	protein_coding	KNOWN	CCDS33250	29371	1692	563	96991935	96994090	1	KIAA1754L	None
2	ITPRIPL1	ENSG00000198885	ENST00000536814	protein_coding	KNOWN	CCDS54378	29371	1644	547	96991069	96994091	1	KIAA1754L	None
2	ITPRIPL1	ENSG00000198885	ENST00000542887	protein_coding	KNOWN	CCDS54378	29371	1644	547	96991945	96994091	1	KIAA1754L	None
1	RNU6-501P	ENSG00000200942	ENST00000364072	snRNA	KNOWN	None	47464	None	None	201702534	201702633	1	None	None
7	ALDH7A1P3	ENSG00000243853	ENST00000492517	processed_pseudogene	KNOWN	None	880	None	None	150238842	150239186	-1	ATQL3	None
2	None	ENSG00000236780	ENST00000433133	lincRNA	KNOWN	None	None	None	None	67350489	67442451	-1	None	None
2	None	ENSG00000236780	ENST00000447453	lincRNA	KNOWN	None	None	None	None	67351802	67405124	-1	None	None
2	None	ENSG00000236780	ENST00000414404	lincRNA	KNOWN	None	None	None	None	67402555	67442409	-1	None	None
1	None	ENSG00000234093	ENST00000594193	processed_pseudogene	KNOWN	None	None	None	None	45246003	45246387	-1	None	None
1	None	ENSG00000234093	ENST00000455333	processed_pseudogene	KNOWN	None	None	None	None	45245998	45246387	-1	None	None
8	None	ENSG00000253586	ENST00000518535	sense_intronic	KNOWN	None	None	None	None	38657161	38659814	1	None	None
12	DDX47	ENSG00000213782	ENST00000541537	retained_intron	KNOWN	None	18682	None	None	12966250	12978041	1	None	DKFZp564O176, FLJ30012, HQ0256, RRP3
12	DDX47	ENSG00000213782	ENST00000352940	protein_coding	KNOWN	CCDS8656	18682	1221	406	12966250	12982913	1	None	DKFZp564O176, FLJ30012, HQ0256, RRP3
12	DDX47	ENSG00000213782	ENST00000426619	retained_intron	KNOWN	None	18682	None	None	12966280	12974903	1	None	DKFZp564O176, FLJ30012, HQ0256, RRP3
12	DDX47	ENSG00000213782	ENST00000544032	retained_intron	KNOWN	None	18682	None	None	12966280	12974982	1	None	DKFZp564O176, FLJ30012, HQ0256, RRP3
12	DDX47	ENSG00000213782	ENST00000358007	protein_coding	KNOWN	CCDS8655	18682	1368	455	12966280	12982915	1	None	DKFZp564O176, FLJ30012, HQ0256, RRP3
12	DDX47	ENSG00000213782	ENST00000545038	retained_intron	KNOWN	None	18682	None	None	12966288	12982913	1	None	DKFZp564O176, FLJ30012, HQ0256, RRP3
12	DDX47	ENSG00000213782	ENST00000544497	retained_intron	KNOWN	None	18682	None	None	12966289	12967592	1	None	DKFZp564O176, FLJ30012, HQ0256, RRP3
12	DDX47	ENSG00000213782	ENST00000542123	retained_intron	KNOWN	None	18682	None	None	12966292	12982915	1	None	DKFZp564O176, FLJ30012, HQ0256, RRP3
12	DDX47	ENSG00000213782	ENST00000544400	protein_coding	NOVEL	None	18682	589	195	12966294	12977501	1	None	DKFZp564O176, FLJ30012, HQ0256, RRP3
12	DDX47	ENSG00000213782	ENST00000542832	processed_transcript	KNOWN	None	18682	None	None	12973211	12976193	1	None	DKFZp564O176, FLJ30012, HQ0256, RRP3
12	DDX47	ENSG00000213782	ENST00000392155	processed_transcript	KNOWN	None	18682	None	None	12973282	12974271	1	None	DKFZp564O176, FLJ30012, HQ0256, RRP3
12	DDX47	ENSG00000213782	ENST00000535722	retained_intron	KNOWN	None	18682	None	None	12977319	12979226	1	None	DKFZp564O176, FLJ30012, HQ0256, RRP3
2	None	ENSG00000227981	ENST00000457625	lincRNA	KNOWN	None	None	None	None	216444130	216447358	-1	None	None
20	SDAD1P2	ENSG00000230750	ENST00000441308	processed_pseudogene	KNOWN	None	31404	None	None	10366427	10368454	1	None	None
14	None	ENSG00000258600	ENST00000557770	lincRNA	KNOWN	None	None	None	None	83483450	83484488	-1	None	None
1	MIR1231	ENSG00000221028	ENST00000408101	miRNA	KNOWN	None	33921	None	None	201777739	201777830	1	MIRN1231	hsa-mir-1231
1	None	ENSG00000237976	ENST00000455503	antisense	KNOWN	None	None	None	None	151319443	151320503	1	None	None
11	RNU6-1135P	ENSG00000223015	ENST00000411083	snRNA	KNOWN	None	48098	None	None	87317675	87317777	1	None	None
17	None	ENSG00000265544	ENST00000579745	sense_intronic	KNOWN	None	None	None	None	31856806	31860779	-1	None	None
16	None	ENSG00000261527	ENST00000562497	processed_pseudogene	KNOWN	None	None	None	None	69477143	69478193	-1	None	None
X	ST13P18	ENSG00000234322	ENST00000456632	processed_pseudogene	KNOWN	None	38861	None	None	92542732	92543758	-1	None	None
1	OR2M7	ENSG00000177186	ENST00000317965	protein_coding	KNOWN	CCDS31111	19594	939	312	248486894	248487899	-1	None	None
3	RN7SKP61	ENSG00000222574	ENST00000410642	misc_RNA	KNOWN	None	45785	None	None	78210849	78211143	1	None	None
X	SETP8	ENSG00000213526	ENST00000435341	processed_pseudogene	KNOWN	None	42927	None	None	116097017	116097644	1	None	None
11	RNU6-1063P	ENSG00000199235	ENST00000362365	snRNA	KNOWN	None	48026	None	None	87359381	87359441	-1	None	None
2	None	ENSG00000228968	ENST00000458182	lincRNA	KNOWN	None	None	None	None	104741726	104763687	-1	None	None
14	HMGN1P3	ENSG00000258967	ENST00000555136	processed_pseudogene	KNOWN	None	23343	None	None	69354502	69354801	-1	None	None
12	None	ENSG00000255760	ENST00000535163	lincRNA	KNOWN	None	None	None	None	32030013	32040137	-1	None	None
15	None	ENSG00000207516	ENST00000384785	snoRNA	NOVEL	None	None	None	None	45829448	45829575	1	None	None
1	None	ENSG00000223774	ENST00000414927	antisense	KNOWN	None	None	None	None	201862970	201869106	1	None	None
1	None	ENSG00000223774	ENST00000458139	antisense	KNOWN	None	None	None	None	201867228	201869106	1	None	None
1	None	ENSG00000228982	ENST00000414775	unprocessed_pseudogene	KNOWN	None	None	None	None	247248691	247249369	-1	None	None
2	RNU6-932P	ENSG00000212410	ENST00000391108	snRNA	KNOWN	None	47895	None	None	158842301	158842406	-1	None	None
1	ACTBP12	ENSG00000233125	ENST00000594933	processed_transcript	KNOWN	None	150	None	None	92694138	92694992	-1	ACTGP5	None
1	ACTBP12	ENSG00000233125	ENST00000435871	transcribed_processed_pseudogene	KNOWN	None	150	None	None	92694575	92694992	-1	ACTGP5	None
16	None	ENSG00000260108	ENST00000567834	3prime_overlapping_ncrna	KNOWN	None	None	None	None	69497747	69500167	1	None	None
7	ABCB1	ENSG00000085563	ENST00000265724	protein_coding	KNOWN	CCDS5608	40	3843	1280	87133175	87342564	-1	PGY1, MDR1, CLCS	P-gp, CD243, GP170, ABC20
7	ABCB1	ENSG00000085563	ENST00000488737	processed_transcript	KNOWN	None	40	None	None	87133180	87161013	-1	PGY1, MDR1, CLCS	P-gp, CD243, GP170, ABC20
7	ABCB1	ENSG00000085563	ENST00000491360	retained_intron	KNOWN	None	40	None	None	87133472	87135457	-1	PGY1, MDR1, CLCS	P-gp, CD243, GP170, ABC20
7	ABCB1	ENSG00000085563	ENST00000475929	processed_transcript	KNOWN	None	40	None	None	87135218	87148279	-1	PGY1, MDR1, CLCS	P-gp, CD243, GP170, ABC20
7	ABCB1	ENSG00000085563	ENST00000496821	processed_transcript	KNOWN	None	40	None	None	87144544	87166378	-1	PGY1, MDR1, CLCS	P-gp, CD243, GP170, ABC20
7	ABCB1	ENSG00000085563	ENST00000483831	retained_intron	KNOWN	None	40	None	None	87145825	87150435	-1	PGY1, MDR1, CLCS	P-gp, CD243, GP170, ABC20
7	ABCB1	ENSG00000085563	ENST00000482527	retained_intron	KNOWN	None	40	None	None	87175265	87179474	-1	PGY1, MDR1, CLCS	P-gp, CD243, GP170, ABC20
7	ABCB1	ENSG00000085563	ENST00000416177	protein_coding	KNOWN	None	40	144	47	87214970	87342610	-1	PGY1, MDR1, CLCS	P-gp, CD243, GP170, ABC20
7	ABCB1	ENSG00000085563	ENST00000476862	processed_transcript	PUTATIVE	None	40	None	None	87230129	87342611	-1	PGY1, MDR1, CLCS	P-gp, CD243, GP170, ABC20
7	ABCB1	ENSG00000085563	ENST00000543898	protein_coding	KNOWN	None	40	3651	1216	87133559	87229500	-1	PGY1, MDR1, CLCS	P-gp, CD243, GP170, ABC20
15	None	ENSG00000259681	ENST00000557965	lincRNA	KNOWN	None	None	None	None	45850796	45855075	1	None	None
2	PTP4A1P1	ENSG00000231158	ENST00000420539	processed_pseudogene	KNOWN	None	41928	None	None	158922057	158922571	1	None	None
12	C1RL-AS1	ENSG00000205885	ENST00000435921	antisense	KNOWN	None	27461	None	None	7260648	7264202	1	None	MATL2963
12	C1RL-AS1	ENSG00000205885	ENST00000541775	antisense	KNOWN	None	27461	None	None	7260904	7274447	1	None	MATL2963
12	C1RL-AS1	ENSG00000205885	ENST00000536679	antisense	KNOWN	None	27461	None	None	7261167	7263066	1	None	MATL2963
12	C1RL-AS1	ENSG00000205885	ENST00000382215	antisense	KNOWN	None	27461	None	None	7261167	7273623	1	None	MATL2963
12	C1RL-AS1	ENSG00000205885	ENST00000535078	antisense	KNOWN	None	27461	None	None	7273154	7275097	1	None	MATL2963
12	C1RL-AS1	ENSG00000205885	ENST00000545775	antisense	KNOWN	None	27461	None	None	7271602	7274444	1	None	MATL2963
14	IGHV1-45	ENSG00000211961	ENST00000390621	IG_V_gene	KNOWN	None	5553	351	116	106962931	106963424	-1	None	None
12	None	ENSG00000258763	ENST00000555146	antisense	KNOWN	None	None	None	None	55828521	55873256	-1	None	None
12	None	ENSG00000258763	ENST00000556750	antisense	KNOWN	None	None	None	None	55828539	55979255	-1	None	None
12	None	ENSG00000258763	ENST00000554049	antisense	KNOWN	None	None	None	None	55828541	55886963	-1	None	None
12	None	ENSG00000258763	ENST00000555138	antisense	KNOWN	None	None	None	None	55828544	55979255	-1	None	None
14	None	ENSG00000258426	ENST00000557709	lincRNA	KNOWN	None	None	None	None	83484545	83505946	-1	None	None
11	None	ENSG00000254612	ENST00000526843	processed_pseudogene	KNOWN	None	None	None	None	127810829	127811552	-1	None	None
11	None	ENSG00000254510	ENST00000527061	antisense	KNOWN	None	None	None	None	66176629	66177474	1	None	None
11	None	ENSG00000254510	ENST00000533759	lincRNA	KNOWN	None	None	None	None	66176665	66184608	1	None	None
11	None	ENSG00000254510	ENST00000526186	antisense	KNOWN	None	None	None	None	66178143	66184598	1	None	None
10	C10orf107	ENSG00000183346	ENST00000330194	protein_coding	KNOWN	CCDS7262	28678	627	208	63422719	63526524	1	None	bA63A2.1, Em:AC022398.2, MGC44593
10	C10orf107	ENSG00000183346	ENST00000389639	protein_coding	KNOWN	None	28678	253	83	63422755	63450378	1	None	bA63A2.1, Em:AC022398.2, MGC44593
16	MIR1538	ENSG00000223109	ENST00000411177	miRNA	KNOWN	None	35382	None	None	69599711	69599771	-1	MIRN1538	hsa-mir-1538
8	None	ENSG00000253829	ENST00000459965	antisense	KNOWN	None	None	None	None	38702384	38703957	-1	None	None
2	UPP2-IT1	ENSG00000237327	ENST00000439185	sense_intronic	KNOWN	None	41467	None	None	158984469	158990500	1	None	None
2	LINC00607	ENSG00000235770	ENST00000445174	lincRNA	KNOWN	None	43944	None	None	216476286	216708259	-1	None	None
2	LINC00607	ENSG00000235770	ENST00000423530	lincRNA	KNOWN	None	43944	None	None	216484358	216692126	-1	None	None
2	LINC00607	ENSG00000235770	ENST00000419922	lincRNA	KNOWN	None	43944	None	None	216484831	216486076	-1	None	None
2	LINC00607	ENSG00000235770	ENST00000413563	lincRNA	KNOWN	None	43944	None	None	216488846	216692164	-1	None	None
2	LINC00607	ENSG00000235770	ENST00000451392	lincRNA	KNOWN	None	43944	None	None	216506491	216696313	-1	None	None
2	LINC00607	ENSG00000235770	ENST00000417922	lincRNA	KNOWN	None	43944	None	None	216608543	216708445	-1	None	None
1	None	ENSG00000206637	ENST00000383910	snoRNA	NOVEL	None	None	None	None	201947589	201947723	1	None	None
1	FGFR3P6	ENSG00000226164	ENST00000457012	processed_pseudogene	KNOWN	None	37951	None	None	247282971	247283580	1	None	None
15	DPPA5P2	ENSG00000259427	ENST00000561451	transcribed_processed_pseudogene	KNOWN	None	43754	None	None	45858974	45859272	1	None	None
2	AHCYP3	ENSG00000233955	ENST00000420053	processed_pseudogene	KNOWN	None	44995	None	None	105011460	105012738	-1	None	None
1	RNY4P25	ENSG00000238711	ENST00000459254	misc_RNA	KNOWN	None	42475	None	None	151411476	151411571	1	None	None
16	None	ENSG00000260772	ENST00000561622	3prime_overlapping_ncrna	KNOWN	None	None	None	None	69736968	69738555	1	None	None
1	None	ENSG00000238003	ENST00000412093	processed_pseudogene	KNOWN	None	None	None	None	201947770	201948077	1	None	None
1	None	ENSG00000252840	ENST00000517031	snoRNA	NOVEL	None	None	None	None	151500307	151500414	-1	None	None
1	RNU5E-6P	ENSG00000202444	ENST00000365574	snRNA	KNOWN	None	42522	None	None	45285555	45285669	-1	None	None
10	ATOH7	ENSG00000179774	ENST00000373673	protein_coding	KNOWN	CCDS7276	13907	459	152	69990386	69991871	-1	None	Math5, bHLHa13
16	None	ENSG00000238683	ENST00000459361	snoRNA	NOVEL	None	None	None	None	69742475	69742578	-1	None	None
2	CCDC148-AS1	ENSG00000227480	ENST00000412781	antisense	KNOWN	None	44134	None	None	159023162	159092681	1	None	None
1	None	ENSG00000232536	ENST00000434112	sense_intronic	KNOWN	None	None	None	None	151512992	151534331	1	None	None
14	RNU7-51P	ENSG00000252369	ENST00000516560	snRNA	KNOWN	None	34147	None	None	83514923	83514984	1	None	U7.51
1	None	ENSG00000224014	ENST00000452704	processed_pseudogene	KNOWN	None	None	None	None	247338558	247338827	1	None	None
1	None	ENSG00000226499	ENST00000447970	processed_pseudogene	KNOWN	None	None	None	None	45309593	45309754	-1	None	None
16	None	ENSG00000261602	ENST00000562696	antisense	KNOWN	None	None	None	None	69743777	69744486	1	None	None
7	GUSBP10	ENSG00000224723	ENST00000417412	unprocessed_pseudogene	KNOWN	None	42324	None	None	57245116	57247759	-1	None	None
14	RNU6ATAC28P	ENSG00000238561	ENST00000459249	snRNA	KNOWN	None	46927	None	None	84216728	84216845	1	None	None
1	MIR554	ENSG00000207606	ENST00000384874	miRNA	KNOWN	None	32810	None	None	151518272	151518367	1	MIRN554	hsa-mir-554
1	None	ENSG00000234678	ENST00000419190	antisense	KNOWN	None	None	None	None	201969222	201979481	-1	None	None
1	None	ENSG00000234678	ENST00000415582	antisense	KNOWN	None	None	None	None	201969229	201970411	-1	None	None
X	None	ENSG00000237381	ENST00000414840	processed_pseudogene	KNOWN	None	None	None	None	92643074	92644496	-1	None	None
14	None	ENSG00000258549	ENST00000555538	processed_pseudogene	KNOWN	None	None	None	None	84271840	84271984	-1	None	None
12	None	ENSG00000256699	ENST00000542578	lincRNA	KNOWN	None	None	None	None	129693146	129697207	1	None	None
14	BANF1P1	ENSG00000258531	ENST00000553684	processed_pseudogene	KNOWN	None	20252	None	None	69403319	69403581	1	None	BCRP1, D14S1460, D14S1460E, BCRG1
1	None	ENSG00000215795	ENST00000400933	processed_pseudogene	KNOWN	None	None	None	None	247347115	247348784	-1	None	None
18	RNU6-316P	ENSG00000212329	ENST00000391027	snRNA	KNOWN	None	47279	None	None	14190699	14190805	1	None	None
1	None	ENSG00000266294	ENST00000579017	miRNA	NOVEL	None	None	None	None	45378740	45378844	-1	None	None
6	OLIG3	ENSG00000177468	ENST00000367734	protein_coding	KNOWN	CCDS5186	18003	819	272	137813336	137815531	-1	None	Bhlhb7, bHLHe20
1	None	ENSG00000223861	ENST00000452587	processed_pseudogene	KNOWN	None	None	None	None	151529922	151530416	1	None	None
11	None	ENSG00000255183	ENST00000532606	lincRNA	KNOWN	None	None	None	None	87429246	87430303	-1	None	None
15	None	ENSG00000200419	ENST00000363549	misc_RNA	NOVEL	None	None	None	None	45884182	45884283	1	None	None
2	None	ENSG00000236605	ENST00000450944	lincRNA	KNOWN	None	None	None	None	67551759	67552436	1	None	None
1	None	ENSG00000265543	ENST00000581900	miRNA	NOVEL	None	None	None	None	92694813	92694896	-1	None	None
18	RHOT1P1	ENSG00000266145	ENST00000582468	processed_pseudogene	KNOWN	None	23777	None	None	14222007	14222330	1	RHOT3, RHOT1P	None
1	RNA5SP47	ENSG00000253039	ENST00000517230	rRNA	KNOWN	None	42823	None	None	45397995	45398103	1	RN5S47	None
6	KIFC1	ENSG00000237649	ENST00000428849	protein_coding	KNOWN	CCDS34430	6389	2022	673	33359313	33377701	1	KNSL2	HSET
6	KIFC1	ENSG00000237649	ENST00000450504	protein_coding	KNOWN	None	6389	609	202	33359638	33371636	1	KNSL2	HSET
6	KIFC1	ENSG00000237649	ENST00000486695	processed_transcript	KNOWN	None	6389	None	None	33367868	33371643	1	KNSL2	HSET
6	KIFC1	ENSG00000237649	ENST00000494554	retained_intron	KNOWN	None	6389	None	None	33373998	33374867	1	KNSL2	HSET
HSCHR12_2_CTG2	TAS2R50	ENSG00000272018	ENST00000575654	protein_coding	KNOWN	None	18882	900	299	11138512	11139511	-1	None	T2R51
1	None	ENSG00000261311	ENST00000564442	lincRNA	KNOWN	None	None	None	None	92864531	92867613	1	None	None
3	RPL7L1P8	ENSG00000228766	ENST00000469911	processed_pseudogene	KNOWN	None	39490	None	None	182328462	182329202	1	None	None
1	CCNB1IP1P1	ENSG00000229815	ENST00000428976	processed_pseudogene	KNOWN	None	37693	None	None	45424229	45425067	1	None	None
18	None	ENSG00000264222	ENST00000580200	lincRNA	KNOWN	None	None	None	None	14244624	14252139	1	None	None
X	RPL7P55	ENSG00000228301	ENST00000450522	processed_pseudogene	KNOWN	None	36105	None	None	92828833	92829578	1	None	None
2	None	ENSG00000224173	ENST00000433065	lincRNA	KNOWN	None	None	None	None	67789199	67801176	1	None	None
11	None	ENSG00000254650	ENST00000528913	processed_pseudogene	KNOWN	None	None	None	None	87525927	87527049	-1	None	None
1	None	ENSG00000259865	ENST00000566446	lincRNA	KNOWN	None	None	None	None	247350583	247351828	-1	None	None
4	None	ENSG00000248795	ENST00000502915	processed_pseudogene	KNOWN	None	None	None	None	139481858	139483095	1	None	None
12	MYF5	ENSG00000111049	ENST00000228644	protein_coding	KNOWN	CCDS9020	7565	768	255	81110691	81113452	1	None	bHLHc2
15	None	ENSG00000259322	ENST00000560057	antisense	KNOWN	None	None	None	None	78585628	78588391	1	None	None
1	None	ENSG00000232369	ENST00000411837	processed_pseudogene	KNOWN	None	None	None	None	45453906	45454397	-1	None	None
3	None	ENSG00000240241	ENST00000484679	lincRNA	KNOWN	None	None	None	None	78316090	78340341	1	None	None
3	None	ENSG00000240241	ENST00000461528	lincRNA	KNOWN	None	None	None	None	78316093	78343206	1	None	None
3	None	ENSG00000240241	ENST00000496674	lincRNA	KNOWN	None	None	None	None	78316156	78343881	1	None	None
1	RN7SL824P	ENSG00000242764	ENST00000470692	misc_RNA	KNOWN	None	46840	None	None	92867948	92868242	-1	None	None
2	None	ENSG00000227157	ENST00000416008	lincRNA	KNOWN	None	None	None	None	105027659	105032070	1	None	None
2	SLC5A7	ENSG00000115665	ENST00000409059	protein_coding	KNOWN	CCDS2074	14025	1743	580	108602979	108627317	1	None	hCHT, CHT1
2	SLC5A7	ENSG00000115665	ENST00000264047	protein_coding	KNOWN	CCDS2074	14025	1743	580	108602995	108630450	1	None	hCHT, CHT1
2	SLC5A7	ENSG00000115665	ENST00000540517	protein_coding	KNOWN	None	14025	1428	475	108602980	108627426	1	None	hCHT, CHT1
19	None	ENSG00000188223	ENST00000591613	nonsense_mediated_decay	KNOWN	None	None	168	55	36236579	36245420	1	None	None
17	None	ENSG00000265697	ENST00000585093	antisense	KNOWN	None	None	None	None	31861129	31868358	1	None	None
1	OR14C36	ENSG00000177174	ENST00000317861	protein_coding	KNOWN	CCDS31112	15026	939	312	248512077	248513015	1	OR5BF1	None
HSCHR12_2_CTG2	TAS2R20	ENSG00000271887	ENST00000570941	protein_coding	KNOWN	None	19109	930	309	11149094	11150474	-1	TAS2R49	T2R20, T2R56
1	None	ENSG00000250734	ENST00000504583	antisense	KNOWN	None	None	None	None	151584514	151585839	-1	None	None
16	None	ENSG00000262136	ENST00000575838	antisense	KNOWN	None	None	None	None	69760916	69776466	1	None	None
1	None	ENSG00000223787	ENST00000413730	processed_pseudogene	KNOWN	None	None	None	None	93046033	93046378	-1	None	None
8	MIR4471	ENSG00000265599	ENST00000584480	miRNA	KNOWN	None	41657	None	None	101394991	101395073	1	None	hsa-mir-4471
1	ANKRD65	ENSG00000235098	ENST00000520296	protein_coding	PUTATIVE	CCDS57963	42950	198	65	1353800	1356824	-1	None	None
1	ANKRD65	ENSG00000235098	ENST00000427211	protein_coding	PUTATIVE	CCDS57962	42950	525	174	1353800	1357149	-1	None	None
1	ANKRD65	ENSG00000235098	ENST00000454272	processed_transcript	KNOWN	None	42950	None	None	1354260	1355533	-1	None	None
1	ANKRD65	ENSG00000235098	ENST00000442470	protein_coding	PUTATIVE	CCDS57962	42950	525	174	1354518	1356640	-1	None	None
1	ANKRD65	ENSG00000235098	ENST00000436362	protein_coding	PUTATIVE	None	42950	444	147	1355625	1356272	-1	None	None
1	ANKRD65	ENSG00000235098	ENST00000537107	protein_coding	KNOWN	CCDS55558	42950	1200	399	1353804	1356650	-1	None	None
14	IGHV1-46	ENSG00000211962	ENST00000390622	IG_V_gene	KNOWN	None	5554	351	116	106967049	106967788	-1	None	None
1	MRPS17P1	ENSG00000268949	ENST00000596009	processed_pseudogene	KNOWN	None	29734	None	None	45454377	45457506	-1	None	None
4	None	ENSG00000250977	ENST00000506232	lincRNA	KNOWN	None	None	None	None	139585879	139586723	-1	None	None
1	MIR3916	ENSG00000227671	ENST00000421406	transcribed_unprocessed_pseudogene	KNOWN	None	38912	None	None	247353153	247372795	-1	None	hsa-mir-3916
1	MIR3916	ENSG00000227671	ENST00000606173	processed_transcript	KNOWN	None	38912	None	None	247362701	247374158	-1	None	hsa-mir-3916
1	MIR3916	ENSG00000227671	ENST00000606212	processed_transcript	KNOWN	None	38912	None	None	247364870	247374116	-1	None	hsa-mir-3916
1	MIR3916	ENSG00000227671	ENST00000606454	processed_transcript	KNOWN	None	38912	None	None	247364870	247374124	-1	None	hsa-mir-3916
1	MIR3916	ENSG00000227671	ENST00000452874	unprocessed_pseudogene	KNOWN	None	38912	None	None	247353280	247363498	-1	None	hsa-mir-3916
21	EVA1C	ENSG00000166979	ENST00000469079	retained_intron	KNOWN	None	13239	None	None	33784314	33840363	1	C21orf64, C21orf63, FAM176C	B18, PRED34, B19
21	EVA1C	ENSG00000166979	ENST00000459833	processed_transcript	KNOWN	None	13239	None	None	33784350	33873765	1	C21orf64, C21orf63, FAM176C	B18, PRED34, B19
21	EVA1C	ENSG00000166979	ENST00000300255	protein_coding	KNOWN	CCDS13614	13239	1326	441	33784689	33887699	1	C21orf64, C21orf63, FAM176C	B18, PRED34, B19
21	EVA1C	ENSG00000166979	ENST00000435323	nonsense_mediated_decay	KNOWN	None	13239	213	70	33784745	33887699	1	C21orf64, C21orf63, FAM176C	B18, PRED34, B19
21	EVA1C	ENSG00000166979	ENST00000437338	nonsense_mediated_decay	KNOWN	None	13239	213	70	33784745	33887699	1	C21orf64, C21orf63, FAM176C	B18, PRED34, B19
21	EVA1C	ENSG00000166979	ENST00000457807	nonsense_mediated_decay	KNOWN	None	13239	579	192	33784861	33887699	1	C21orf64, C21orf63, FAM176C	B18, PRED34, B19
21	EVA1C	ENSG00000166979	ENST00000401402	protein_coding	NOVEL	None	13239	1182	393	33784993	33887707	1	C21orf64, C21orf63, FAM176C	B18, PRED34, B19
21	EVA1C	ENSG00000166979	ENST00000382699	protein_coding	NOVEL	None	13239	1317	438	33785010	33887699	1	C21orf64, C21orf63, FAM176C	B18, PRED34, B19
21	EVA1C	ENSG00000166979	ENST00000481638	processed_transcript	PUTATIVE	None	13239	None	None	33785072	33805592	1	C21orf64, C21orf63, FAM176C	B18, PRED34, B19
21	EVA1C	ENSG00000166979	ENST00000412833	protein_coding	PUTATIVE	None	13239	460	152	33800642	33867447	1	C21orf64, C21orf63, FAM176C	B18, PRED34, B19
21	EVA1C	ENSG00000166979	ENST00000464037	retained_intron	KNOWN	None	13239	None	None	33824493	33887699	1	C21orf64, C21orf63, FAM176C	B18, PRED34, B19
21	EVA1C	ENSG00000166979	ENST00000496615	processed_transcript	KNOWN	None	13239	None	None	33865963	33887190	1	C21orf64, C21orf63, FAM176C	B18, PRED34, B19
21	EVA1C	ENSG00000166979	ENST00000485488	processed_transcript	KNOWN	None	13239	None	None	33867427	33887699	1	C21orf64, C21orf63, FAM176C	B18, PRED34, B19
2	None	ENSG00000225765	ENST00000449772	lincRNA	KNOWN	None	None	None	None	105028685	105030466	-1	None	None
18	CYP4F35P	ENSG00000265787	ENST00000582957	lincRNA	KNOWN	None	39954	None	None	14337422	14342523	1	None	CYP4F-se8[6:7:8]
18	CYP4F35P	ENSG00000265787	ENST00000578285	lincRNA	KNOWN	None	39954	None	None	14340403	14342524	1	None	CYP4F-se8[6:7:8]
14	None	ENSG00000258749	ENST00000557733	antisense	KNOWN	None	None	None	None	99978838	99979913	1	None	None
8	None	ENSG00000253842	ENST00000523554	lincRNA	KNOWN	None	None	None	None	101441062	101442896	-1	None	None
8	None	ENSG00000253842	ENST00000522947	lincRNA	KNOWN	None	None	None	None	101441122	101443225	-1	None	None
7	MTND1P4	ENSG00000230764	ENST00000435196	unprocessed_pseudogene	KNOWN	None	42053	None	None	57253495	57253909	1	None	None
11	None	ENSG00000255022	ENST00000529711	processed_pseudogene	KNOWN	None	None	None	None	87527116	87527416	1	None	None
1	RNU6-1062P	ENSG00000206635	ENST00000383908	snRNA	KNOWN	None	48025	None	None	151601800	151601906	1	None	None
1	HMGB3P9	ENSG00000229992	ENST00000441799	processed_pseudogene	KNOWN	None	39301	None	None	93112605	93113187	-1	None	None
17	None	ENSG00000265125	ENST00000579896	antisense	KNOWN	None	None	None	None	31892783	31908472	1	None	None
17	None	ENSG00000265125	ENST00000578602	antisense	KNOWN	None	None	None	None	31896176	31899364	1	None	None
17	None	ENSG00000265125	ENST00000579975	antisense	KNOWN	None	None	None	None	31907095	31951141	1	None	None
1	None	ENSG00000264650	ENST00000583502	miRNA	NOVEL	None	None	None	None	45499641	45499692	-1	None	None
1	None	ENSG00000227045	ENST00000457548	antisense	KNOWN	None	None	None	None	151673502	151680862	1	None	None
HSCHR12_2_CTG2	TAS2R19	ENSG00000263028	ENST00000573562	protein_coding	KNOWN	None	19108	900	299	11174218	11175219	-1	TAS2R48, TAS2R23	T2R19, T2R23
14	IPO4	ENSG00000196497	ENST00000561090	retained_intron	KNOWN	None	19426	None	None	24649425	24658028	-1	None	Imp4, FLJ23338
14	IPO4	ENSG00000196497	ENST00000354464	protein_coding	KNOWN	CCDS9616	19426	3246	1081	24649425	24658170	-1	None	Imp4, FLJ23338
14	IPO4	ENSG00000196497	ENST00000561462	protein_coding	PUTATIVE	None	19426	1642	546	24649426	24653881	-1	None	Imp4, FLJ23338
14	IPO4	ENSG00000196497	ENST00000560798	retained_intron	KNOWN	None	19426	None	None	24649426	24658003	-1	None	Imp4, FLJ23338
14	IPO4	ENSG00000196497	ENST00000558780	nonsense_mediated_decay	KNOWN	None	19426	306	101	24649426	24658028	-1	None	Imp4, FLJ23338
14	IPO4	ENSG00000196497	ENST00000558046	nonsense_mediated_decay	KNOWN	None	19426	465	154	24649432	24658003	-1	None	Imp4, FLJ23338
14	IPO4	ENSG00000196497	ENST00000559588	retained_intron	KNOWN	None	19426	None	None	24649511	24658075	-1	None	Imp4, FLJ23338
14	IPO4	ENSG00000196497	ENST00000560155	nonsense_mediated_decay	KNOWN	None	19426	2736	911	24649511	24658075	-1	None	Imp4, FLJ23338
14	IPO4	ENSG00000196497	ENST00000558233	protein_coding	PUTATIVE	None	19426	937	311	24649570	24652478	-1	None	Imp4, FLJ23338
14	IPO4	ENSG00000196497	ENST00000561199	retained_intron	KNOWN	None	19426	None	None	24649648	24658003	-1	None	Imp4, FLJ23338
14	IPO4	ENSG00000196497	ENST00000561379	retained_intron	KNOWN	None	19426	None	None	24651742	24652678	-1	None	Imp4, FLJ23338
14	IPO4	ENSG00000196497	ENST00000560935	retained_intron	KNOWN	None	19426	None	None	24652023	24652856	-1	None	Imp4, FLJ23338
14	IPO4	ENSG00000196497	ENST00000559253	nonsense_mediated_decay	KNOWN	None	19426	297	98	24656293	24658050	-1	None	Imp4, FLJ23338
14	IPO4	ENSG00000196497	ENST00000559635	retained_intron	KNOWN	None	19426	None	None	24656697	24657275	-1	None	Imp4, FLJ23338
14	IPO4	ENSG00000196497	ENST00000558718	retained_intron	KNOWN	None	19426	None	None	24656737	24658003	-1	None	Imp4, FLJ23338
14	IPO4	ENSG00000196497	ENST00000558193	retained_intron	KNOWN	None	19426	None	None	24656759	24658027	-1	None	Imp4, FLJ23338
14	IPO4	ENSG00000196497	ENST00000560315	retained_intron	KNOWN	None	19426	None	None	24657152	24658003	-1	None	Imp4, FLJ23338
14	IPO4	ENSG00000196497	ENST00000561034	nonsense_mediated_decay	KNOWN	None	19426	147	48	24657211	24658028	-1	None	Imp4, FLJ23338
14	IPO4	ENSG00000196497	ENST00000557996	retained_intron	KNOWN	None	19426	None	None	24657308	24658003	-1	None	Imp4, FLJ23338
14	IPO4	ENSG00000196497	ENST00000560222	retained_intron	KNOWN	None	19426	None	None	24657365	24658017	-1	None	Imp4, FLJ23338
15	None	ENSG00000227161	ENST00000441746	sense_overlapping	KNOWN	None	None	None	None	59936497	59964501	-1	None	None
1	None	ENSG00000249007	ENST00000504773	sense_intronic	KNOWN	None	None	None	None	201980498	201984785	1	None	None
5	None	ENSG00000252458	ENST00000516649	snoRNA	NOVEL	None	None	None	None	158657202	158657330	1	None	None
15	APBA2	ENSG00000034053	ENST00000561069	protein_coding	KNOWN	CCDS10022	579	2250	749	29129629	29409920	1	X11L, MINT2	D15S1518E, LIN-10, MGC:14091, HsT16821
15	APBA2	ENSG00000034053	ENST00000558402	protein_coding	KNOWN	CCDS10022	579	2250	749	29131120	29410518	1	X11L, MINT2	D15S1518E, LIN-10, MGC:14091, HsT16821
15	APBA2	ENSG00000034053	ENST00000558330	protein_coding	KNOWN	CCDS45197	579	2214	737	29131168	29409920	1	X11L, MINT2	D15S1518E, LIN-10, MGC:14091, HsT16821
15	APBA2	ENSG00000034053	ENST00000559814	retained_intron	KNOWN	None	579	None	None	29131306	29400823	1	X11L, MINT2	D15S1518E, LIN-10, MGC:14091, HsT16821
15	APBA2	ENSG00000034053	ENST00000559709	protein_coding	KNOWN	None	579	13	3	29131309	29346100	1	X11L, MINT2	D15S1518E, LIN-10, MGC:14091, HsT16821
15	APBA2	ENSG00000034053	ENST00000558804	protein_coding	KNOWN	None	579	210	69	29211570	29346297	1	X11L, MINT2	D15S1518E, LIN-10, MGC:14091, HsT16821
15	APBA2	ENSG00000034053	ENST00000560283	protein_coding	KNOWN	None	579	336	111	29253507	29346423	1	X11L, MINT2	D15S1518E, LIN-10, MGC:14091, HsT16821
15	APBA2	ENSG00000034053	ENST00000558206	protein_coding	KNOWN	None	579	82	26	29282622	29346169	1	X11L, MINT2	D15S1518E, LIN-10, MGC:14091, HsT16821
15	APBA2	ENSG00000034053	ENST00000558358	protein_coding	KNOWN	None	579	791	262	29336527	29346878	1	X11L, MINT2	D15S1518E, LIN-10, MGC:14091, HsT16821
15	APBA2	ENSG00000034053	ENST00000382938	retained_intron	KNOWN	None	579	None	None	29362861	29394962	1	X11L, MINT2	D15S1518E, LIN-10, MGC:14091, HsT16821
15	APBA2	ENSG00000034053	ENST00000558259	protein_coding	KNOWN	CCDS10022	579	2250	749	29213840	29410514	1	X11L, MINT2	D15S1518E, LIN-10, MGC:14091, HsT16821
15	APBA2	ENSG00000034053	ENST00000411764	protein_coding	KNOWN	CCDS45197	579	2214	737	29213840	29410514	1	X11L, MINT2	D15S1518E, LIN-10, MGC:14091, HsT16821
4	None	ENSG00000250501	ENST00000502606	lincRNA	KNOWN	None	None	None	None	139694704	139722793	1	None	None
4	None	ENSG00000250501	ENST00000513400	lincRNA	KNOWN	None	None	None	None	139694742	139722483	1	None	None
1	OSTCP5	ENSG00000234315	ENST00000425293	processed_pseudogene	KNOWN	None	42867	None	None	45535649	45536101	-1	None	None
1	RNU4-59P	ENSG00000201317	ENST00000364447	snRNA	KNOWN	None	46995	None	None	93166376	93166491	-1	None	None
15	None	ENSG00000259413	ENST00000558606	processed_pseudogene	KNOWN	None	None	None	None	78674915	78675497	1	None	None
2	None	ENSG00000235495	ENST00000419809	lincRNA	KNOWN	None	None	None	None	67792736	67911209	-1	None	None
5	None	ENSG00000249738	ENST00000521472	lincRNA	KNOWN	None	None	None	None	158737941	158760011	1	None	None
5	None	ENSG00000249738	ENST00000515337	lincRNA	KNOWN	None	None	None	None	158758526	158789842	1	None	None
5	UBE2D2	ENSG00000131508	ENST00000511725	protein_coding	NOVEL	CCDS47275	12475	357	118	138906016	139006440	1	None	UbcH5B, UBC4
5	UBE2D2	ENSG00000131508	ENST00000398733	protein_coding	KNOWN	CCDS43369	12475	444	147	138940751	139008018	1	None	UbcH5B, UBC4
5	UBE2D2	ENSG00000131508	ENST00000505007	protein_coding	NOVEL	None	12475	294	97	138940752	139003029	1	None	UbcH5B, UBC4
5	UBE2D2	ENSG00000131508	ENST00000510470	retained_intron	KNOWN	None	12475	None	None	138941309	138994270	1	None	UbcH5B, UBC4
5	UBE2D2	ENSG00000131508	ENST00000398734	nonsense_mediated_decay	KNOWN	CCDS43369	12475	444	147	138941311	139007271	1	None	UbcH5B, UBC4
5	UBE2D2	ENSG00000131508	ENST00000505548	protein_coding	KNOWN	CCDS47275	12475	357	118	138941614	139006700	1	None	UbcH5B, UBC4
5	UBE2D2	ENSG00000131508	ENST00000511691	retained_intron	KNOWN	None	12475	None	None	138979989	139003247	1	None	UbcH5B, UBC4
5	UBE2D2	ENSG00000131508	ENST00000253815	protein_coding	KNOWN	CCDS47275	12475	357	118	138940751	139008016	1	None	UbcH5B, UBC4
8	None	ENSG00000253431	ENST00000523408	processed_pseudogene	KNOWN	None	None	None	None	63775641	63776740	-1	None	None
HSCHR15_1_CTG8	MIR4311	ENSG00000265269	ENST00000582686	miRNA	KNOWN	None	38207	None	None	66332571	66332670	1	None	hsa-mir-4311
1	RNU6-662P	ENSG00000206980	ENST00000384253	snRNA	KNOWN	None	47625	None	None	151720073	151720176	-1	None	None
HSCHR6_MHC_MANN	MSH5	ENSG00000230961	ENST00000422658	protein_coding	KNOWN	None	7328	582	193	31747261	31751488	1	None	None
HSCHR6_MHC_MANN	MSH5	ENSG00000230961	ENST00000436091	protein_coding	KNOWN	None	7328	812	269	31747267	31754696	1	None	None
HSCHR6_MHC_MANN	MSH5	ENSG00000230961	ENST00000412070	protein_coding	KNOWN	None	7328	812	269	31747270	31754696	1	None	None
HSCHR6_MHC_MANN	MSH5	ENSG00000230961	ENST00000464561	retained_intron	KNOWN	None	7328	None	None	31747287	31750734	1	None	None
HSCHR6_MHC_MANN	MSH5	ENSG00000230961	ENST00000480915	processed_transcript	KNOWN	None	7328	None	None	31747290	31754696	1	None	None
HSCHR6_MHC_MANN	MSH5	ENSG00000230961	ENST00000420731	protein_coding	KNOWN	None	7328	812	269	31747291	31754696	1	None	None
HSCHR6_MHC_MANN	MSH5	ENSG00000230961	ENST00000443040	protein_coding	KNOWN	None	7328	863	286	31747291	31754696	1	None	None
HSCHR6_MHC_MANN	MSH5	ENSG00000230961	ENST00000477687	processed_transcript	KNOWN	None	7328	None	None	31747291	31754696	1	None	None
HSCHR6_MHC_MANN	MSH5	ENSG00000230961	ENST00000490533	retained_intron	KNOWN	None	7328	None	None	31748516	31754696	1	None	None
HSCHR6_MHC_MANN	MSH5	ENSG00000230961	ENST00000453872	protein_coding	KNOWN	None	7328	323	106	31751232	31754696	1	None	None
1	None	ENSG00000221707	ENST00000408780	miRNA	NOVEL	None	None	None	None	45697890	45697979	-1	None	None
2	None	ENSG00000235597	ENST00000451400	lincRNA	KNOWN	None	None	None	None	105049725	105137290	1	None	None
2	None	ENSG00000235597	ENST00000429464	lincRNA	KNOWN	None	None	None	None	105050820	105124289	1	None	None
2	None	ENSG00000235597	ENST00000414442	lincRNA	KNOWN	None	None	None	None	105050824	105122563	1	None	None
2	None	ENSG00000235597	ENST00000447380	lincRNA	KNOWN	None	None	None	None	105050836	105129215	1	None	None
1	None	ENSG00000225505	ENST00000440471	processed_pseudogene	KNOWN	None	None	None	None	93197557	93198814	1	None	None
11	None	ENSG00000254588	ENST00000525706	antisense	KNOWN	None	None	None	None	128396037	128400284	1	None	None
1	None	ENSG00000232296	ENST00000453255	processed_pseudogene	KNOWN	None	None	None	None	201997734	201997820	1	None	None
2	None	ENSG00000237013	ENST00000457448	lincRNA	KNOWN	None	None	None	None	68023186	68052694	-1	None	None
4	LRIT3	ENSG00000183423	ENST00000594814	protein_coding	KNOWN	CCDS3688	24783	2040	679	110769358	110793471	1	None	FLJ44691, FIGLER4
4	LRIT3	ENSG00000183423	ENST00000327908	protein_coding	KNOWN	None	24783	1491	496	110772486	110793471	1	None	FLJ44691, FIGLER4
4	LRIT3	ENSG00000183423	ENST00000379920	protein_coding	KNOWN	None	24783	1905	634	110772486	110793470	1	None	FLJ44691, FIGLER4
4	LRIT3	ENSG00000183423	ENST00000409621	protein_coding	KNOWN	None	24783	1491	496	110786392	110793470	1	None	FLJ44691, FIGLER4
8	None	ENSG00000253666	ENST00000521851	antisense	KNOWN	None	None	None	None	101487903	101495381	1	None	None
8	None	ENSG00000253666	ENST00000523831	antisense	KNOWN	None	None	None	None	101487918	101513376	1	None	None
1	None	ENSG00000269621	ENST00000601684	antisense	KNOWN	None	None	None	None	151728017	151732387	1	None	None
5	C5orf52	ENSG00000187658	ENST00000409999	protein_coding	KNOWN	CCDS47329	35121	480	159	157098561	157107151	1	None	None
11	None	ENSG00000255165	ENST00000531268	sense_intronic	KNOWN	None	None	None	None	44093012	44093953	1	None	None
1	None	ENSG00000238945	ENST00000459207	snoRNA	NOVEL	None	None	None	None	45824324	45824420	-1	None	None
4	None	ENSG00000248143	ENST00000508563	lincRNA	KNOWN	None	None	None	None	43459544	43494560	-1	None	None
X	None	ENSG00000224942	ENST00000420490	processed_pseudogene	KNOWN	None	None	None	None	139479227	139480476	1	None	None
8	None	ENSG00000270074	ENST00000602981	lincRNA	KNOWN	None	None	None	None	12270336	12271882	1	None	None
17	None	ENSG00000265115	ENST00000584863	antisense	KNOWN	None	None	None	None	31954046	31962076	1	None	None
16	TCEB2	ENSG00000103363	ENST00000262306	protein_coding	KNOWN	CCDS32374	11619	486	161	2821415	2827278	-1	None	SIII
16	TCEB2	ENSG00000103363	ENST00000409906	protein_coding	KNOWN	CCDS45387	11619	357	118	2821415	2827298	-1	None	SIII
16	TCEB2	ENSG00000103363	ENST00000409477	protein_coding	PUTATIVE	None	11619	342	113	2821416	2827196	-1	None	SIII
16	TCEB2	ENSG00000103363	ENST00000494946	protein_coding	NOVEL	None	11619	423	140	2821942	2827128	-1	None	SIII
16	TCEB2	ENSG00000103363	ENST00000572954	protein_coding	PUTATIVE	None	11619	201	66	2821944	2827273	-1	None	SIII
1	None	ENSG00000235811	ENST00000457453	processed_pseudogene	KNOWN	None	None	None	None	202008979	202009062	1	None	None
4	None	ENSG00000238971	ENST00000408086	miRNA	NOVEL	None	None	None	None	139732832	139732920	-1	None	None
HSCHR12_2_CTG2	TAS2R31	ENSG00000263097	ENST00000572376	protein_coding	KNOWN	None	19113	930	309	11182986	11184006	-1	TAS2R44	T2R31, T2R53
1	None	ENSG00000234202	ENST00000429959	processed_pseudogene	KNOWN	None	None	None	None	93214732	93214887	-1	None	None
1	None	ENSG00000236872	ENST00000435399	processed_pseudogene	KNOWN	None	None	None	None	45880692	45881016	1	None	None
X	OR5AW1P	ENSG00000229082	ENST00000426334	processed_pseudogene	KNOWN	None	15406	None	None	130475421	130476426	-1	None	None
18	None	ENSG00000265437	ENST00000584979	processed_pseudogene	KNOWN	None	None	None	None	14361433	14361942	-1	None	None
1	CRIP1P3	ENSG00000227109	ENST00000416794	processed_pseudogene	KNOWN	None	44518	None	None	202065887	202066106	1	None	None
7	None	ENSG00000271568	ENST00000603938	processed_pseudogene	KNOWN	None	None	None	None	150300649	150301732	-1	None	None
1	None	ENSG00000236940	ENST00000446084	processed_pseudogene	KNOWN	None	None	None	None	151730135	151730918	1	None	None
12	None	ENSG00000256085	ENST00000539362	lincRNA	KNOWN	None	None	None	None	130005848	130007308	-1	None	None
17	None	ENSG00000264643	ENST00000577546	lincRNA	KNOWN	None	None	None	None	32007596	32007902	1	None	None
6	None	ENSG00000145965	ENST00000356722	protein_coding	KNOWN	None	None	309	102	3982909	3984372	1	None	None
5	None	ENSG00000253104	ENST00000524042	sense_intronic	KNOWN	None	None	None	None	22139356	22141577	-1	None	None
4	None	ENSG00000250195	ENST00000505607	antisense	KNOWN	None	None	None	None	139741108	139742619	-1	None	None
4	None	ENSG00000250195	ENST00000511951	antisense	KNOWN	None	None	None	None	139741111	139933800	-1	None	None
4	None	ENSG00000250195	ENST00000507038	antisense	KNOWN	None	None	None	None	139741114	139859135	-1	None	None
1	CCNJP2	ENSG00000223896	ENST00000457810	processed_pseudogene	KNOWN	None	37997	None	None	93221351	93222513	1	None	None
HSCHR15_1_CTG8	None	ENSG00000262444	ENST00000576158	antisense	KNOWN	None	None	None	None	66582973	66597832	-1	None	None
15	MIR1179	ENSG00000221630	ENST00000408703	miRNA	KNOWN	None	35260	None	None	89151338	89151428	1	MIRN1179	hsa-mir-1179
17	None	ENSG00000265689	ENST00000577584	lincRNA	KNOWN	None	None	None	None	32015822	32016193	1	None	None
14	None	ENSG00000200506	ENST00000363636	misc_RNA	NOVEL	None	None	None	None	100049354	100049455	1	None	None
18	TERF1P2	ENSG00000187589	ENST00000583350	processed_pseudogene	KNOWN	None	38110	None	None	14377545	14378756	-1	None	None
18	TERF1P2	ENSG00000187589	ENST00000543068	processed_pseudogene	KNOWN	None	38110	None	None	14377545	14378636	-1	None	None
2	None	ENSG00000235968	ENST00000454972	processed_pseudogene	KNOWN	None	None	None	None	68250826	68251898	-1	None	None
15	None	ENSG00000259474	ENST00000560094	antisense	KNOWN	None	None	None	None	78772399	78774162	-1	None	None
6	None	ENSG00000237947	ENST00000438818	lincRNA	KNOWN	None	None	None	None	40681150	40683102	-1	None	None
11	None	ENSG00000255451	ENST00000528183	lincRNA	KNOWN	None	None	None	None	44490014	44491979	1	None	None
1	None	ENSG00000260800	ENST00000565762	antisense	KNOWN	None	None	None	None	202099159	202100553	1	None	None
8	FAM90A25P	ENSG00000251402	ENST00000528404	unprocessed_pseudogene	KNOWN	None	32246	None	None	12272589	12275599	-1	None	None
1	HMGB1P48	ENSG00000234379	ENST00000446155	unprocessed_pseudogene	KNOWN	None	39281	None	None	45996599	45997811	1	None	None
HSCHR2_1_CTG1	None	ENSG00000263240	ENST00000576404	processed_pseudogene	KNOWN	None	None	None	None	36526531	36526973	-1	None	None
17	None	ENSG00000265313	ENST00000584262	lincRNA	KNOWN	None	None	None	None	57508230	57604307	-1	None	None
17	None	ENSG00000265313	ENST00000577478	lincRNA	KNOWN	None	None	None	None	57529374	57604200	-1	None	None
12	RDH16	ENSG00000139547	ENST00000398138	protein_coding	KNOWN	CCDS41797	29674	954	317	57345219	57352103	-1	None	RODH-4, SDR9C8
12	RDH16	ENSG00000139547	ENST00000360752	processed_transcript	KNOWN	None	29674	None	None	57345222	57353158	-1	None	RODH-4, SDR9C8
8	RNU1-35P	ENSG00000199652	ENST00000362782	snRNA	KNOWN	None	48377	None	None	136754586	136754738	-1	None	None
17	None	ENSG00000221699	ENST00000408772	miRNA	NOVEL	None	None	None	None	32201337	32201477	-1	None	None
9	ZNF169	ENSG00000175787	ENST00000395395	protein_coding	KNOWN	CCDS6709	12957	1812	603	97021593	97063736	1	None	MGC51961
9	ZNF169	ENSG00000175787	ENST00000492115	retained_intron	KNOWN	None	12957	None	None	97021603	97054905	1	None	MGC51961
9	ZNF169	ENSG00000175787	ENST00000340911	protein_coding	PUTATIVE	None	12957	378	125	97021610	97063736	1	None	MGC51961
9	ZNF169	ENSG00000175787	ENST00000481550	protein_coding	PUTATIVE	None	12957	381	126	97041040	97056736	1	None	MGC51961
9	ZNF169	ENSG00000175787	ENST00000480716	protein_coding	PUTATIVE	None	12957	336	111	97041040	97058128	1	None	MGC51961
9	ZNF169	ENSG00000175787	ENST00000375354	protein_coding	KNOWN	None	12957	291	96	97041040	97059328	1	None	MGC51961
1	MIR3916	ENSG00000263568	ENST00000583893	miRNA	KNOWN	None	38912	None	None	247365269	247365362	-1	None	hsa-mir-3916
1	SNORD21	ENSG00000206680	ENST00000383953	snoRNA	KNOWN	None	10144	None	None	93302846	93302940	1	RNU21	U21
15	None	ENSG00000261762	ENST00000567141	antisense	KNOWN	None	None	None	None	78881465	78883618	-1	None	None
5	PMCHL1	ENSG00000168967	ENST00000418902	processed_transcript	KNOWN	None	9110	None	None	22142461	22152465	1	None	None
5	PMCHL1	ENSG00000168967	ENST00000423301	processed_transcript	KNOWN	None	9110	None	None	22142461	22152465	1	None	None
5	PMCHL1	ENSG00000168967	ENST00000430902	processed_transcript	KNOWN	None	9110	None	None	22142461	22152465	1	None	None
5	PMCHL1	ENSG00000168967	ENST00000423102	transcribed_unprocessed_pseudogene	KNOWN	None	9110	None	None	22142482	22143012	1	None	None
2	None	ENSG00000230838	ENST00000415479	lincRNA	KNOWN	None	None	None	None	216582766	216584147	1	None	None
15	MIR7-2	ENSG00000207703	ENST00000384970	miRNA	KNOWN	None	31639	None	None	89155056	89155165	1	MIRN7-2	hsa-mir-7-2
17	None	ENSG00000265356	ENST00000584758	sense_intronic	KNOWN	None	None	None	None	32258151	32263225	-1	None	None
1	RNA5SP82	ENSG00000252516	ENST00000516707	rRNA	KNOWN	None	42859	None	None	247367872	247367963	-1	RN5S82	None
7	None	ENSG00000232361	ENST00000491593	processed_pseudogene	KNOWN	None	None	None	None	150311149	150311852	-1	None	None
2	None	ENSG00000236259	ENST00000428093	processed_pseudogene	KNOWN	None	None	None	None	68352397	68352879	1	None	None
18	FEM1AP2	ENSG00000265296	ENST00000581547	processed_pseudogene	KNOWN	None	39830	None	None	14391912	14393908	-1	None	None
10	KAZALD1	ENSG00000107821	ENST00000370200	protein_coding	KNOWN	CCDS7509	25460	915	304	102821598	102825349	1	None	FKSG40, FKSG28
10	KAZALD1	ENSG00000107821	ENST00000477979	processed_transcript	KNOWN	None	25460	None	None	102821761	102824860	1	None	FKSG40, FKSG28
10	KAZALD1	ENSG00000107821	ENST00000470106	processed_transcript	KNOWN	None	25460	None	None	102821830	102824102	1	None	FKSG40, FKSG28
10	KAZALD1	ENSG00000107821	ENST00000477267	processed_transcript	KNOWN	None	25460	None	None	102822835	102827647	1	None	FKSG40, FKSG28
10	KAZALD1	ENSG00000107821	ENST00000465807	processed_transcript	KNOWN	None	25460	None	None	102826056	102827888	1	None	FKSG40, FKSG28
1	None	ENSG00000251795	ENST00000515986	snoRNA	NOVEL	None	None	None	None	93303575	93303627	1	None	None
8	MIR3622A	ENSG00000265075	ENST00000584551	miRNA	KNOWN	None	38934	None	None	27559190	27559284	-1	None	hsa-mir-3622a
8	MIR3622B	ENSG00000265075	ENST00000584551	miRNA	KNOWN	None	38961	None	None	27559190	27559284	-1	None	hsa-mir-3622b
8	None	ENSG00000254364	ENST00000523784	antisense	KNOWN	None	None	None	None	101504756	101505941	1	None	None
2	RBKS	ENSG00000171174	ENST00000302188	protein_coding	KNOWN	CCDS1762	30325	969	322	28004231	28113965	-1	None	DKFZp686G13268, RBSK
2	RBKS	ENSG00000171174	ENST00000449378	nonsense_mediated_decay	KNOWN	None	30325	192	63	28004440	28113233	-1	None	DKFZp686G13268, RBSK
2	RBKS	ENSG00000171174	ENST00000458185	protein_coding	PUTATIVE	None	30325	442	146	28032554	28066028	-1	None	DKFZp686G13268, RBSK
2	RBKS	ENSG00000171174	ENST00000453412	nonsense_mediated_decay	KNOWN	None	30325	111	36	28081368	28113548	-1	None	DKFZp686G13268, RBSK
2	RBKS	ENSG00000171174	ENST00000444339	protein_coding	KNOWN	None	30325	861	286	28032166	28113217	-1	None	DKFZp686G13268, RBSK
6	TNFAIP3	ENSG00000118503	ENST00000421450	protein_coding	KNOWN	None	11896	77	24	138188351	138192441	1	None	A20, OTUD7C
6	TNFAIP3	ENSG00000118503	ENST00000420009	protein_coding	KNOWN	None	11896	486	161	138188459	138196172	1	None	A20, OTUD7C
6	TNFAIP3	ENSG00000118503	ENST00000237289	protein_coding	KNOWN	CCDS5187	11896	2373	790	138188581	138204449	1	None	A20, OTUD7C
6	TNFAIP3	ENSG00000118503	ENST00000433680	protein_coding	KNOWN	None	11896	295	97	138188719	138192659	1	None	A20, OTUD7C
6	TNFAIP3	ENSG00000118503	ENST00000485192	processed_transcript	KNOWN	None	11896	None	None	138196975	138199662	1	None	A20, OTUD7C
17	None	ENSG00000263435	ENST00000582685	antisense	KNOWN	None	None	None	None	32303550	32307870	1	None	None
1	None	ENSG00000232347	ENST00000428687	lincRNA	KNOWN	None	None	None	None	247373993	247405125	-1	None	None
2	None	ENSG00000216115	ENST00000401296	miRNA	NOVEL	None	None	None	None	68457058	68457147	1	None	None
15	None	ENSG00000259555	ENST00000559120	antisense	KNOWN	None	None	None	None	78918237	78920535	1	None	None
8	None	ENSG00000253248	ENST00000502901	lincRNA	KNOWN	None	None	None	None	137059264	137178365	1	None	None
8	None	ENSG00000253248	ENST00000523150	lincRNA	KNOWN	None	None	None	None	137059290	137178238	1	None	None
11	None	ENSG00000255106	ENST00000525465	processed_pseudogene	KNOWN	None	None	None	None	44561328	44562243	-1	None	None
1	SNORA66	ENSG00000207523	ENST00000384792	snoRNA	KNOWN	None	10223	None	None	93306276	93306408	1	RNU66	U66
1	None	ENSG00000249602	ENST00000512280	antisense	KNOWN	None	None	None	None	151735860	151741977	-1	None	None
14	None	ENSG00000242995	ENST00000471982	processed_pseudogene	KNOWN	None	None	None	None	57150139	57150459	-1	None	None
17	TLK2P1	ENSG00000226049	ENST00000530992	processed_pseudogene	KNOWN	None	18048	None	None	32363700	32366891	-1	None	TLK2ps1
2	None	ENSG00000216721	ENST00000454121	processed_pseudogene	KNOWN	None	None	None	None	216669454	216669704	-1	None	None
2	None	ENSG00000221443	ENST00000408516	miRNA	NOVEL	None	None	None	None	68500236	68500338	1	None	None
17	RNU4-13P	ENSG00000200889	ENST00000364019	snRNA	KNOWN	None	46949	None	None	57614720	57614860	-1	None	None
12	RNU6-361P	ENSG00000201324	ENST00000364454	snRNA	KNOWN	None	47324	None	None	109320211	109320317	-1	None	None
10	CALHM1	ENSG00000185933	ENST00000329905	protein_coding	KNOWN	CCDS7550	23494	1041	346	105213144	105218645	-1	FAM26C	None
15	None	ENSG00000206987	ENST00000384260	snoRNA	NOVEL	None	None	None	None	32718489	32718621	-1	None	None
X	MAGEB1	ENSG00000214107	ENST00000378981	protein_coding	KNOWN	CCDS14222	6808	1044	347	30261847	30270155	1	None	MAGEL1, MAGE-Xp, DAM10, MGC9322, CT3.1
X	MAGEB1	ENSG00000214107	ENST00000397550	protein_coding	KNOWN	CCDS14222	6808	1044	347	30261848	30270155	1	None	MAGEL1, MAGE-Xp, DAM10, MGC9322, CT3.1
X	MAGEB1	ENSG00000214107	ENST00000397548	protein_coding	KNOWN	CCDS14222	6808	1044	347	30265271	30270155	1	None	MAGEL1, MAGE-Xp, DAM10, MGC9322, CT3.1
1	None	ENSG00000207022	ENST00000384295	snoRNA	NOVEL	None	None	None	None	93311616	93311739	1	None	None
15	MIR4509-2	ENSG00000266039	ENST00000583920	miRNA	KNOWN	None	41537	None	None	28671637	28671730	1	None	hsa-mir-4509-2
15	MIR4509-3	ENSG00000266039	ENST00000583920	miRNA	KNOWN	None	41610	None	None	28671637	28671730	1	None	hsa-mir-4509-3
15	MIR4509-1	ENSG00000266039	ENST00000583920	miRNA	KNOWN	None	41860	None	None	28671637	28671730	1	None	hsa-mir-4509-1
2	None	ENSG00000234781	ENST00000430551	lincRNA	KNOWN	None	None	None	None	105104916	105126967	-1	None	None
17	None	ENSG00000267637	ENST00000590850	sense_intronic	KNOWN	None	None	None	None	57862174	57862396	1	None	None
2	None	ENSG00000203395	ENST00000366218	antisense	KNOWN	None	None	None	None	68588346	68592716	-1	None	None
2	None	ENSG00000227824	ENST00000443971	lincRNA	KNOWN	None	None	None	None	216734646	216735241	1	None	None
1	None	ENSG00000232937	ENST00000420382	sense_intronic	KNOWN	None	None	None	None	151738185	151738865	1	None	None
12	None	ENSG00000256137	ENST00000544036	lincRNA	KNOWN	None	None	None	None	130165972	130182772	-1	None	None
12	LIN7A	ENSG00000111052	ENST00000552864	protein_coding	KNOWN	CCDS9021	17787	702	233	81186299	81331704	-1	None	MALS-1, TIP-33, LIN-7A, VELI1
12	LIN7A	ENSG00000111052	ENST00000261203	nonsense_mediated_decay	KNOWN	None	17787	306	101	81191354	81331559	-1	None	MALS-1, TIP-33, LIN-7A, VELI1
12	LIN7A	ENSG00000111052	ENST00000549417	protein_coding	PUTATIVE	None	17787	543	180	81235468	81331483	-1	None	MALS-1, TIP-33, LIN-7A, VELI1
12	LIN7A	ENSG00000111052	ENST00000552093	protein_coding	PUTATIVE	None	17787	392	129	81239343	81283127	-1	None	MALS-1, TIP-33, LIN-7A, VELI1
15	DNM1P32	ENSG00000261708	ENST00000566124	unprocessed_pseudogene	KNOWN	None	35179	None	None	32728704	32731968	1	DNM1DN4@	DNM1DN4-5
17	MIR21	ENSG00000199004	ENST00000362134	miRNA	KNOWN	None	31586	None	None	57918627	57918698	1	MIRN21	hsa-mir-21, MIR-21
14	None	ENSG00000258418	ENST00000553464	lincRNA	KNOWN	None	None	None	None	40855456	40855998	1	None	None
18	LONRF2P1	ENSG00000266605	ENST00000584783	processed_pseudogene	KNOWN	None	39828	None	None	14450215	14450882	-1	None	None
1	None	ENSG00000229052	ENST00000602631	processed_transcript	KNOWN	None	None	None	None	93396253	93399655	1	None	None
1	None	ENSG00000229052	ENST00000418249	transcribed_processed_pseudogene	KNOWN	None	None	None	None	93396902	93397648	1	None	None
8	GAPDHP62	ENSG00000251013	ENST00000515313	processed_pseudogene	KNOWN	None	4156	None	None	101562952	101563941	-1	GAPDL7, GAPDHL7	None
1	PTPRVP	ENSG00000243323	ENST00000490225	unitary_pseudogene	KNOWN	None	13421	None	None	202137179	202158424	1	PTPRV	OST-PTP, ESP
1	PTPRVP	ENSG00000243323	ENST00000482597	processed_transcript	KNOWN	None	13421	None	None	202137179	202158481	1	PTPRV	OST-PTP, ESP
1	PTPRVP	ENSG00000243323	ENST00000490575	processed_transcript	KNOWN	None	13421	None	None	202155983	202158583	1	PTPRV	OST-PTP, ESP
1	None	ENSG00000214144	ENST00000397642	processed_pseudogene	KNOWN	None	None	None	None	247393242	247395182	1	None	None
1	OR2T4	ENSG00000196944	ENST00000366475	protein_coding	KNOWN	CCDS31113	15016	1047	348	248524883	248525929	1	None	OR2T4Q
6	ADCY10P1	ENSG00000161912	ENST00000457653	transcribed_unprocessed_pseudogene	KNOWN	None	44143	None	None	41068761	41106465	1	None	None
6	ADCY10P1	ENSG00000161912	ENST00000567255	processed_transcript	KNOWN	None	44143	None	None	41068773	41108571	1	None	None
6	ADCY10P1	ENSG00000161912	ENST00000435541	processed_transcript	KNOWN	None	44143	None	None	41107665	41108570	1	None	None
17	RNU6-450P	ENSG00000201524	ENST00000364654	snRNA	KNOWN	None	47413	None	None	57924799	57924905	-1	None	None
17	None	ENSG00000263485	ENST00000580658	sense_intronic	KNOWN	None	None	None	None	32407901	32409243	-1	None	None
5	C5orf47	ENSG00000185056	ENST00000522195	processed_transcript	KNOWN	None	27026	None	None	173400782	173432199	1	None	LOC133491
5	C5orf47	ENSG00000185056	ENST00000340147	protein_coding	KNOWN	CCDS47343	27026	531	176	173416162	173433143	1	None	LOC133491
1	None	ENSG00000268288	ENST00000596133	antisense	KNOWN	None	None	None	None	151738962	151739476	-1	None	None
2	None	ENSG00000212055	ENST00000390766	miRNA	NOVEL	None	None	None	None	216743556	216743642	-1	None	None
7	None	ENSG00000270990	ENST00000605154	processed_pseudogene	KNOWN	None	None	None	None	150373921	150375006	-1	None	None
18	CXADRP3	ENSG00000265766	ENST00000581457	lincRNA	KNOWN	None	33974	None	None	14477954	14499277	-1	None	None
17	DGKE	ENSG00000153933	ENST00000284061	protein_coding	KNOWN	CCDS11590	2852	1704	567	54911460	54946036	1	None	DAGK6, DGK
17	DGKE	ENSG00000153933	ENST00000572810	protein_coding	PUTATIVE	None	2852	534	177	54911468	54913827	1	None	DAGK6, DGK
17	DGKE	ENSG00000153933	ENST00000576869	processed_transcript	KNOWN	None	2852	None	None	54911492	54925019	1	None	DAGK6, DGK
17	DGKE	ENSG00000153933	ENST00000572944	protein_coding	PUTATIVE	None	2852	1369	455	54912327	54943437	1	None	DAGK6, DGK
17	DGKE	ENSG00000153933	ENST00000571084	retained_intron	KNOWN	None	2852	None	None	54921380	54923663	1	None	DAGK6, DGK
17	DGKE	ENSG00000153933	ENST00000570738	protein_coding	NOVEL	None	2852	213	70	54939547	54940650	1	None	DAGK6, DGK
2	HNRNPDLP2	ENSG00000234890	ENST00000455248	unprocessed_pseudogene	KNOWN	None	48753	None	None	159276467	159281815	1	None	None
X	OR5BH1P	ENSG00000242610	ENST00000454101	processed_pseudogene	KNOWN	None	15407	None	None	130532028	130532946	-1	OR5BH2P	None
2	None	ENSG00000199727	ENST00000362857	snoRNA	NOVEL	None	None	None	None	105149231	105149442	1	None	None
17	NDUFB8P2	ENSG00000270264	ENST00000605113	processed_pseudogene	KNOWN	None	33978	None	None	57962376	57962913	1	None	None
8	CSMD1	ENSG00000183117	ENST00000335551	protein_coding	NOVEL	None	14026	8902	2966	2792875	3267129	-1	None	KIAA1890, PPP1R24
8	CSMD1	ENSG00000183117	ENST00000400186	protein_coding	KNOWN	None	14026	10167	3388	2795621	4852223	-1	None	KIAA1890, PPP1R24
8	CSMD1	ENSG00000183117	ENST00000602723	protein_coding	NOVEL	None	14026	10167	3388	2795621	4852223	-1	None	KIAA1890, PPP1R24
8	CSMD1	ENSG00000183117	ENST00000520002	protein_coding	KNOWN	None	14026	10698	3565	2795621	4852494	-1	None	KIAA1890, PPP1R24
8	CSMD1	ENSG00000183117	ENST00000602557	protein_coding	NOVEL	None	14026	10698	3565	2795621	4852494	-1	None	KIAA1890, PPP1R24
8	CSMD1	ENSG00000183117	ENST00000519623	processed_transcript	KNOWN	None	14026	None	None	2857501	2901310	-1	None	KIAA1890, PPP1R24
8	CSMD1	ENSG00000183117	ENST00000523062	retained_intron	KNOWN	None	14026	None	None	2954424	2964677	-1	None	KIAA1890, PPP1R24
8	CSMD1	ENSG00000183117	ENST00000520561	processed_transcript	PUTATIVE	None	14026	None	None	2967735	2970885	-1	None	KIAA1890, PPP1R24
8	CSMD1	ENSG00000183117	ENST00000523387	processed_transcript	KNOWN	None	14026	None	None	2984908	3142176	-1	None	KIAA1890, PPP1R24
8	CSMD1	ENSG00000183117	ENST00000523488	retained_intron	KNOWN	None	14026	None	None	3008769	3253841	-1	None	KIAA1890, PPP1R24
8	CSMD1	ENSG00000183117	ENST00000520451	processed_transcript	KNOWN	None	14026	None	None	3008954	3040668	-1	None	KIAA1890, PPP1R24
8	CSMD1	ENSG00000183117	ENST00000521646	processed_transcript	KNOWN	None	14026	None	None	3135886	3141868	-1	None	KIAA1890, PPP1R24
8	CSMD1	ENSG00000183117	ENST00000524177	processed_transcript	KNOWN	None	14026	None	None	3326234	3326722	-1	None	KIAA1890, PPP1R24
8	CSMD1	ENSG00000183117	ENST00000520630	processed_transcript	PUTATIVE	None	14026	None	None	3326234	3372881	-1	None	KIAA1890, PPP1R24
8	CSMD1	ENSG00000183117	ENST00000519090	processed_transcript	KNOWN	None	14026	None	None	3443687	3474261	-1	None	KIAA1890, PPP1R24
8	CSMD1	ENSG00000183117	ENST00000518151	processed_transcript	PUTATIVE	None	14026	None	None	3559669	3566018	-1	None	KIAA1890, PPP1R24
8	CSMD1	ENSG00000183117	ENST00000537824	protein_coding	KNOWN	CCDS55189	14026	10695	3564	2796107	4851938	-1	None	KIAA1890, PPP1R24
8	CSMD1	ENSG00000183117	ENST00000542608	protein_coding	KNOWN	None	14026	10164	3387	2796107	4851938	-1	None	KIAA1890, PPP1R24
8	CSMD1	ENSG00000183117	ENST00000539096	protein_coding	KNOWN	None	14026	6330	2109	2986334	4851938	-1	None	KIAA1890, PPP1R24
22	PIK3IP1	ENSG00000100100	ENST00000215912	protein_coding	KNOWN	CCDS13893	24942	792	263	31677579	31688514	-1	None	HGFL, MGC17330
22	PIK3IP1	ENSG00000100100	ENST00000480654	retained_intron	KNOWN	None	24942	None	None	31677580	31686740	-1	None	HGFL, MGC17330
22	PIK3IP1	ENSG00000100100	ENST00000493034	retained_intron	KNOWN	None	24942	None	None	31677665	31686712	-1	None	HGFL, MGC17330
22	PIK3IP1	ENSG00000100100	ENST00000402249	protein_coding	KNOWN	None	24942	705	234	31685024	31688465	-1	None	HGFL, MGC17330
22	PIK3IP1	ENSG00000100100	ENST00000443175	protein_coding	PUTATIVE	None	24942	434	143	31685627	31688474	-1	None	HGFL, MGC17330
22	PIK3IP1	ENSG00000100100	ENST00000487265	protein_coding	KNOWN	None	24942	555	184	31678926	31688381	-1	None	HGFL, MGC17330
22	PIK3IP1	ENSG00000100100	ENST00000441972	protein_coding	KNOWN	CCDS46690	24942	522	173	31677599	31688520	-1	None	HGFL, MGC17330
3	None	ENSG00000238837	ENST00000492416	lincRNA	KNOWN	None	None	None	None	182362002	182373668	1	None	None
2	None	ENSG00000226276	ENST00000413311	lincRNA	KNOWN	None	None	None	None	216804031	216806442	-1	None	None
17	None	ENSG00000265775	ENST00000581727	sense_intronic	KNOWN	None	None	None	None	32445366	32445901	-1	None	None
2	None	ENSG00000229462	ENST00000444697	unprocessed_pseudogene	KNOWN	None	None	None	None	68672842	68676306	-1	None	None
14	None	ENSG00000258480	ENST00000557101	lincRNA	KNOWN	None	None	None	None	40856762	40858344	1	None	None
2	None	ENSG00000221654	ENST00000408727	miRNA	NOVEL	None	None	None	None	105185275	105185378	-1	None	None
2	POLHP1	ENSG00000232970	ENST00000411806	processed_pseudogene	KNOWN	None	43967	None	None	217021065	217021534	-1	None	None
17	None	ENSG00000241913	ENST00000496272	processed_pseudogene	KNOWN	None	None	None	None	57989558	57989727	1	None	None
2	None	ENSG00000231626	ENST00000424257	lincRNA	KNOWN	None	None	None	None	105197279	105198348	-1	None	None
2	RN7SL393P	ENSG00000243723	ENST00000463588	misc_RNA	KNOWN	None	46409	None	None	159303676	159303973	-1	None	None
1	RPS15AP10	ENSG00000225447	ENST00000432472	processed_pseudogene	KNOWN	None	37001	None	None	46111488	46111869	-1	None	None
15	None	ENSG00000260159	ENST00000564639	unprocessed_pseudogene	KNOWN	None	None	None	None	28699806	28702929	-1	None	None
8	None	ENSG00000253875	ENST00000521510	antisense	KNOWN	None	None	None	None	27590855	27613943	1	None	None
3	RPL21P135	ENSG00000235482	ENST00000442539	processed_pseudogene	KNOWN	None	44539	None	None	37789601	37790391	1	None	None
19	LIN37	ENSG00000267796	ENST00000590706	retained_intron	KNOWN	None	33234	None	None	36239262	36244718	1	None	ZK418.4, F25965, lin-37
19	LIN37	ENSG00000267796	ENST00000301159	protein_coding	KNOWN	None	33234	741	246	36239262	36245420	1	None	ZK418.4, F25965, lin-37
19	LIN37	ENSG00000267796	ENST00000591076	processed_transcript	KNOWN	None	33234	None	None	36239468	36243073	1	None	ZK418.4, F25965, lin-37
19	LIN37	ENSG00000267796	ENST00000587108	retained_intron	KNOWN	None	33234	None	None	36239477	36245420	1	None	ZK418.4, F25965, lin-37
19	LIN37	ENSG00000267796	ENST00000595455	nonsense_mediated_decay	KNOWN	None	33234	165	54	36239508	36245388	1	None	ZK418.4, F25965, lin-37
19	LIN37	ENSG00000267796	ENST00000592871	retained_intron	KNOWN	None	33234	None	None	36239523	36244001	1	None	ZK418.4, F25965, lin-37
19	LIN37	ENSG00000267796	ENST00000587751	protein_coding	PUTATIVE	None	33234	57	18	36239686	36243141	1	None	ZK418.4, F25965, lin-37
19	LIN37	ENSG00000267796	ENST00000591163	protein_coding	PUTATIVE	None	33234	491	162	36243814	36245416	1	None	ZK418.4, F25965, lin-37
19	LIN37	ENSG00000267796	ENST00000590890	retained_intron	KNOWN	None	33234	None	None	36244741	36245419	1	None	ZK418.4, F25965, lin-37
1	None	ENSG00000203288	ENST00000533481	antisense	KNOWN	None	None	None	None	151763280	151764021	1	None	None
1	None	ENSG00000203288	ENST00000389897	antisense	KNOWN	None	None	None	None	151763318	151766878	1	None	None
4	None	ENSG00000250577	ENST00000506416	lincRNA	KNOWN	None	None	None	None	139845084	139845386	-1	None	None
2	None	ENSG00000251721	ENST00000515912	snoRNA	NOVEL	None	None	None	None	159390712	159390796	1	None	None
2	None	ENSG00000236478	ENST00000441511	processed_pseudogene	KNOWN	None	None	None	None	217039619	217040755	-1	None	None
5	PDZD2	ENSG00000133401	ENST00000438447	protein_coding	KNOWN	CCDS34137	18486	8520	2839	31639517	32111037	1	PDZK3	KIAA0300
5	PDZD2	ENSG00000133401	ENST00000502824	processed_transcript	KNOWN	None	18486	None	None	31692994	31844081	1	PDZK3	KIAA0300
5	PDZD2	ENSG00000133401	ENST00000513910	protein_coding	KNOWN	None	18486	41	12	31712146	31799396	1	PDZK3	KIAA0300
5	PDZD2	ENSG00000133401	ENST00000502489	retained_intron	KNOWN	None	18486	None	None	31855043	32078061	1	PDZK3	KIAA0300
5	PDZD2	ENSG00000133401	ENST00000513852	processed_transcript	KNOWN	None	18486	None	None	31936258	31983647	1	PDZK3	KIAA0300
5	PDZD2	ENSG00000133401	ENST00000509256	retained_intron	KNOWN	None	18486	None	None	32052600	32058055	1	PDZK3	KIAA0300
5	PDZD2	ENSG00000133401	ENST00000513184	processed_transcript	KNOWN	None	18486	None	None	32059438	32072423	1	PDZK3	KIAA0300
5	PDZD2	ENSG00000133401	ENST00000503961	processed_transcript	KNOWN	None	18486	None	None	32077566	32083721	1	PDZK3	KIAA0300
5	PDZD2	ENSG00000133401	ENST00000515115	processed_transcript	KNOWN	None	18486	None	None	32098703	32108471	1	PDZK3	KIAA0300
5	PDZD2	ENSG00000133401	ENST00000513490	processed_transcript	KNOWN	None	18486	None	None	32099280	32111032	1	PDZK3	KIAA0300
5	PDZD2	ENSG00000133401	ENST00000397559	processed_transcript	KNOWN	None	18486	None	None	32100973	32108877	1	PDZK3	KIAA0300
5	PDZD2	ENSG00000133401	ENST00000510285	processed_transcript	KNOWN	None	18486	None	None	32107427	32108567	1	PDZK3	KIAA0300
5	PDZD2	ENSG00000133401	ENST00000282493	protein_coding	KNOWN	CCDS34137	18486	8520	2839	31799031	32111037	1	PDZK3	KIAA0300
17	RNA5SP438	ENSG00000252370	ENST00000516561	rRNA	KNOWN	None	43338	None	None	32447075	32447186	-1	RN5S438	None
19	REEP6	ENSG00000115255	ENST00000233596	protein_coding	KNOWN	CCDS12070	30078	555	184	1491165	1497926	1	C19orf32	DP1L1, FLJ25383
19	REEP6	ENSG00000115255	ENST00000591735	retained_intron	KNOWN	None	30078	None	None	1491192	1496180	1	C19orf32	DP1L1, FLJ25383
19	REEP6	ENSG00000115255	ENST00000395479	protein_coding	NOVEL	None	30078	452	149	1495362	1497369	1	C19orf32	DP1L1, FLJ25383
19	REEP6	ENSG00000115255	ENST00000395484	nonsense_mediated_decay	KNOWN	None	30078	420	139	1495475	1497720	1	C19orf32	DP1L1, FLJ25383
18	None	ENSG00000266242	ENST00000578182	processed_pseudogene	KNOWN	None	None	None	None	14485805	14487500	1	None	None
2	None	ENSG00000227331	ENST00000393397	processed_pseudogene	KNOWN	None	None	None	None	159404937	159405736	1	None	None
15	None	ENSG00000259200	ENST00000560705	lincRNA	KNOWN	None	None	None	None	45997276	46141083	1	None	None
15	None	ENSG00000259200	ENST00000559600	lincRNA	KNOWN	None	None	None	None	45997393	46223267	1	None	None
17	None	ENSG00000264791	ENST00000577709	antisense	KNOWN	None	None	None	None	32469966	32474066	1	None	None
HSCHR6_MHC_APD	MSH5-SAPCD1	ENSG00000264619	ENST00000466318	nonsense_mediated_decay	KNOWN	None	41994	1491	496	31737296	31743982	1	MSH5-C6orf26	None
HSCHR6_MHC_APD	MSH5-SAPCD1	ENSG00000264619	ENST00000492776	nonsense_mediated_decay	KNOWN	None	41994	793	263	31738576	31743982	1	MSH5-C6orf26	None
HSCHR6_MHC_APD	MSH5-SAPCD1	ENSG00000264619	ENST00000487383	nonsense_mediated_decay	KNOWN	None	41994	88	28	31741575	31743982	1	MSH5-C6orf26	None
15	None	ENSG00000261303	ENST00000569846	processed_transcript	KNOWN	None	None	None	None	78952986	78996226	1	None	None
15	None	ENSG00000261303	ENST00000565476	processed_transcript	KNOWN	None	None	None	None	78996118	79022112	1	None	None
15	None	ENSG00000261303	ENST00000564933	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	79019519	79027837	1	None	None
15	None	ENSG00000261303	ENST00000568337	processed_transcript	KNOWN	None	None	None	None	79021383	79026298	1	None	None
15	None	ENSG00000261303	ENST00000570227	processed_transcript	KNOWN	None	None	None	None	79026034	79027762	1	None	None
14	None	ENSG00000258703	ENST00000555316	lincRNA	KNOWN	None	None	None	None	57226097	57232475	1	None	None
12	None	ENSG00000237578	ENST00000417598	processed_pseudogene	KNOWN	None	None	None	None	130231933	130232437	1	None	None
2	None	ENSG00000236109	ENST00000438566	lincRNA	KNOWN	None	None	None	None	105199610	105201812	1	None	None
16	None	ENSG00000201371	ENST00000364501	misc_RNA	NOVEL	None	None	None	None	27733605	27733713	-1	None	None
2	None	ENSG00000214525	ENST00000484779	processed_pseudogene	KNOWN	None	None	None	None	68755373	68756584	-1	None	None
2	None	ENSG00000260804	ENST00000562038	lincRNA	KNOWN	None	None	None	None	217081768	217084915	1	None	None
2	None	ENSG00000260804	ENST00000597904	lincRNA	KNOWN	None	None	None	None	217082311	217084915	1	None	None
1	None	ENSG00000269489	ENST00000601909	lincRNA	KNOWN	None	None	None	None	151770530	151771078	1	None	None
5	RNU4ATAC2P	ENSG00000221601	ENST00000408674	snRNA	KNOWN	None	39003	None	None	158745050	158745175	1	None	None
17	None	ENSG00000263571	ENST00000583224	lincRNA	KNOWN	None	None	None	None	32488756	32491270	1	None	None
12	LMO3	ENSG00000048540	ENST00000441439	protein_coding	KNOWN	CCDS8678	6643	438	145	16701354	16761069	-1	RBTNL2	Rhom-3, DAT1
12	LMO3	ENSG00000048540	ENST00000447609	protein_coding	KNOWN	CCDS8678	6643	438	145	16701355	16759734	-1	RBTNL2	Rhom-3, DAT1
12	LMO3	ENSG00000048540	ENST00000320122	protein_coding	KNOWN	CCDS8678	6643	438	145	16701358	16758313	-1	RBTNL2	Rhom-3, DAT1
12	LMO3	ENSG00000048540	ENST00000396205	nonsense_mediated_decay	KNOWN	None	6643	210	69	16701358	16761038	-1	RBTNL2	Rhom-3, DAT1
12	LMO3	ENSG00000048540	ENST00000453727	nonsense_mediated_decay	KNOWN	None	6643	183	60	16702309	16759374	-1	RBTNL2	Rhom-3, DAT1
12	LMO3	ENSG00000048540	ENST00000540848	protein_coding	KNOWN	CCDS8678	6643	438	145	16703133	16763460	-1	RBTNL2	Rhom-3, DAT1
12	LMO3	ENSG00000048540	ENST00000541589	nonsense_mediated_decay	KNOWN	None	6643	183	60	16703136	16760961	-1	RBTNL2	Rhom-3, DAT1
12	LMO3	ENSG00000048540	ENST00000535535	protein_coding	KNOWN	CCDS8678	6643	438	145	16703317	16758904	-1	RBTNL2	Rhom-3, DAT1
12	LMO3	ENSG00000048540	ENST00000537304	protein_coding	KNOWN	CCDS8678	6643	438	145	16703383	16759465	-1	RBTNL2	Rhom-3, DAT1
12	LMO3	ENSG00000048540	ENST00000541764	nonsense_mediated_decay	KNOWN	None	6643	279	92	16703744	16759940	-1	RBTNL2	Rhom-3, DAT1
12	LMO3	ENSG00000048540	ENST00000534946	protein_coding	KNOWN	CCDS8678	6643	438	145	16703809	16762823	-1	RBTNL2	Rhom-3, DAT1
12	LMO3	ENSG00000048540	ENST00000424192	nonsense_mediated_decay	KNOWN	None	6643	213	70	16703902	16762758	-1	RBTNL2	Rhom-3, DAT1
12	LMO3	ENSG00000048540	ENST00000540445	protein_coding	NOVEL	CCDS58210	6643	504	167	16703979	16760084	-1	RBTNL2	Rhom-3, DAT1
12	LMO3	ENSG00000048540	ENST00000541846	protein_coding	KNOWN	CCDS8678	6643	438	145	16704116	16763528	-1	RBTNL2	Rhom-3, DAT1
12	LMO3	ENSG00000048540	ENST00000536172	nonsense_mediated_decay	KNOWN	None	6643	183	60	16704162	16760119	-1	RBTNL2	Rhom-3, DAT1
12	LMO3	ENSG00000048540	ENST00000544754	nonsense_mediated_decay	KNOWN	None	6643	210	69	16704166	16760934	-1	RBTNL2	Rhom-3, DAT1
12	LMO3	ENSG00000048540	ENST00000539534	protein_coding	KNOWN	None	6643	356	117	16704238	16755130	-1	RBTNL2	Rhom-3, DAT1
12	LMO3	ENSG00000048540	ENST00000546281	protein_coding	KNOWN	None	6643	356	117	16704238	16760289	-1	RBTNL2	Rhom-3, DAT1
12	LMO3	ENSG00000048540	ENST00000537757	protein_coding	KNOWN	None	6643	356	117	16704238	16760323	-1	RBTNL2	Rhom-3, DAT1
12	LMO3	ENSG00000048540	ENST00000539232	nonsense_mediated_decay	KNOWN	None	6643	183	60	16704252	16758847	-1	RBTNL2	Rhom-3, DAT1
12	LMO3	ENSG00000048540	ENST00000546279	protein_coding	KNOWN	None	6643	332	109	16713347	16761660	-1	RBTNL2	Rhom-3, DAT1
12	LMO3	ENSG00000048540	ENST00000538051	protein_coding	KNOWN	None	6643	292	96	16713387	16761148	-1	RBTNL2	Rhom-3, DAT1
12	LMO3	ENSG00000048540	ENST00000536509	processed_transcript	KNOWN	None	6643	None	None	16713409	16760858	-1	RBTNL2	Rhom-3, DAT1
12	LMO3	ENSG00000048540	ENST00000545436	protein_coding	KNOWN	None	6643	264	87	16713415	16757783	-1	RBTNL2	Rhom-3, DAT1
12	LMO3	ENSG00000048540	ENST00000540590	protein_coding	KNOWN	None	6643	253	83	16713426	16762971	-1	RBTNL2	Rhom-3, DAT1
12	LMO3	ENSG00000048540	ENST00000332914	processed_transcript	KNOWN	None	6643	None	None	16713440	16763028	-1	RBTNL2	Rhom-3, DAT1
12	LMO3	ENSG00000048540	ENST00000537568	processed_transcript	KNOWN	None	6643	None	None	16747186	16763023	-1	RBTNL2	Rhom-3, DAT1
12	LMO3	ENSG00000048540	ENST00000543721	retained_intron	KNOWN	None	6643	None	None	16750550	16760056	-1	RBTNL2	Rhom-3, DAT1
12	LMO3	ENSG00000048540	ENST00000544276	processed_transcript	KNOWN	None	6643	None	None	16751809	16761022	-1	RBTNL2	Rhom-3, DAT1
12	LMO3	ENSG00000048540	ENST00000439600	retained_intron	KNOWN	None	6643	None	None	16752951	16757990	-1	RBTNL2	Rhom-3, DAT1
12	LMO3	ENSG00000048540	ENST00000538020	protein_coding	KNOWN	None	6643	175	57	16753620	16755227	-1	RBTNL2	Rhom-3, DAT1
12	LMO3	ENSG00000048540	ENST00000541295	protein_coding	KNOWN	CCDS58212	6643	492	163	16703758	16758840	-1	RBTNL2	Rhom-3, DAT1
12	LMO3	ENSG00000048540	ENST00000261169	protein_coding	KNOWN	CCDS58211	6643	471	156	16701359	16758081	-1	RBTNL2	Rhom-3, DAT1
12	LMO3	ENSG00000048540	ENST00000354662	protein_coding	KNOWN	CCDS8678	6643	438	145	16701307	16761024	-1	RBTNL2	Rhom-3, DAT1
1	None	ENSG00000234329	ENST00000437848	processed_pseudogene	KNOWN	None	None	None	None	46116711	46117498	-1	None	None
10	None	ENSG00000271816	ENST00000580790	processed_transcript	KNOWN	None	None	None	None	75458909	75490245	-1	None	None
2	None	ENSG00000204380	ENST00000342892	antisense	KNOWN	None	None	None	None	159514849	159591514	-1	None	None
2	None	ENSG00000204380	ENST00000442666	antisense	KNOWN	None	None	None	None	159535168	159591330	-1	None	None
16	RNU6-159P	ENSG00000212382	ENST00000391080	snRNA	KNOWN	None	47122	None	None	27874572	27874677	1	None	None
1	None	ENSG00000201134	ENST00000364264	misc_RNA	NOVEL	None	None	None	None	151814212	151814313	-1	None	None
1	RNU6-970P	ENSG00000252121	ENST00000516312	snRNA	KNOWN	None	47933	None	None	93435161	93435267	-1	None	None
18	RNU6-1021P	ENSG00000200132	ENST00000363262	snRNA	KNOWN	None	47984	None	None	14531675	14531781	-1	None	None
8	ALG1L12P	ENSG00000250794	ENST00000515046	unprocessed_pseudogene	KNOWN	None	44381	None	None	12278541	12282509	1	None	None
5	None	ENSG00000253298	ENST00000518418	lincRNA	KNOWN	None	None	None	None	158875564	158893284	-1	None	None
1	None	ENSG00000234614	ENST00000434182	antisense	KNOWN	None	None	None	None	151814353	151822861	1	None	None
6	None	ENSG00000199630	ENST00000362760	misc_RNA	NOVEL	None	None	None	None	90551048	90551143	1	None	None
1	RN7SL692P	ENSG00000239710	ENST00000464677	misc_RNA	KNOWN	None	46708	None	None	93440386	93440680	-1	None	None
12	None	ENSG00000238424	ENST00000459300	miRNA	NOVEL	None	None	None	None	109425360	109425450	-1	None	None
2	None	ENSG00000230690	ENST00000456999	lincRNA	KNOWN	None	None	None	None	105275795	105281295	1	None	None
18	None	ENSG00000265340	ENST00000580232	unprocessed_pseudogene	KNOWN	None	None	None	None	14570843	14571787	1	None	None
19	RAB3D	ENSG00000105514	ENST00000222120	protein_coding	KNOWN	CCDS12257	9779	660	219	11432722	11450344	-1	GOV	RAB16, D2-2, RAD3D
19	RAB3D	ENSG00000105514	ENST00000589655	protein_coding	KNOWN	CCDS12257	9779	660	219	11436015	11456946	-1	GOV	RAB16, D2-2, RAD3D
2	None	ENSG00000229615	ENST00000441646	protein_coding	NOVEL	None	None	45	14	87089023	87092827	1	None	None
2	None	ENSG00000229615	ENST00000441903	protein_coding	NOVEL	None	None	48	15	87092511	87092827	1	None	None
1	None	ENSG00000238787	ENST00000408239	miRNA	NOVEL	None	None	None	None	93447794	93447865	-1	None	None
2	None	ENSG00000231092	ENST00000417481	antisense	KNOWN	None	None	None	None	217124318	217130853	1	None	None
1	None	ENSG00000230896	ENST00000430643	sense_intronic	KNOWN	None	None	None	None	46160356	46162747	-1	None	None
2	None	ENSG00000237576	ENST00000415138	antisense	KNOWN	None	None	None	None	69059176	69064840	1	None	None
2	None	ENSG00000237576	ENST00000457602	antisense	KNOWN	None	None	None	None	69062136	69064856	1	None	None
14	None	ENSG00000258532	ENST00000554142	lincRNA	KNOWN	None	None	None	None	84373216	84381394	-1	None	None
6	None	ENSG00000218300	ENST00000407054	processed_pseudogene	KNOWN	None	None	None	None	90586263	90586597	1	None	None
1	KRT8P28	ENSG00000223810	ENST00000433288	processed_pseudogene	KNOWN	None	33380	None	None	151921999	151923388	-1	None	None
1	RNU6-210P	ENSG00000252752	ENST00000516943	snRNA	KNOWN	None	47173	None	None	93475814	93475908	1	None	None
12	RN7SL534P	ENSG00000264690	ENST00000577386	misc_RNA	KNOWN	None	46550	None	None	130263853	130264126	-1	None	None
18	None	ENSG00000266693	ENST00000578842	unprocessed_pseudogene	KNOWN	None	None	None	None	14613136	14614183	1	None	None
2	None	ENSG00000228586	ENST00000449526	lincRNA	KNOWN	None	None	None	None	159542415	159610287	1	None	None
2	None	ENSG00000225669	ENST00000415161	processed_pseudogene	KNOWN	None	None	None	None	105294681	105295131	1	None	None
1	RN7SKP123	ENSG00000222664	ENST00000410732	misc_RNA	KNOWN	None	45847	None	None	93491809	93492099	1	None	None
17	None	ENSG00000261156	ENST00000584724	lincRNA	KNOWN	None	None	None	None	32496391	32509864	-1	None	None
17	None	ENSG00000261156	ENST00000566930	lincRNA	KNOWN	None	None	None	None	32496391	32510651	-1	None	None
17	None	ENSG00000261156	ENST00000580792	lincRNA	KNOWN	None	None	None	None	32496391	32522956	-1	None	None
16	RNU6-1241P	ENSG00000207266	ENST00000384536	snRNA	KNOWN	None	48204	None	None	28009616	28009722	-1	None	None
8	RNU6-819P	ENSG00000200986	ENST00000364116	snRNA	KNOWN	None	47782	None	None	48043404	48043510	-1	None	None
17	TBC1D3P1-DHX40P1	ENSG00000267104	ENST00000587125	lincRNA	KNOWN	None	42362	None	None	58039724	58096336	-1	None	None
17	TBC1D3P1-DHX40P1	ENSG00000267104	ENST00000407042	lincRNA	KNOWN	None	42362	None	None	58085489	58096413	-1	None	None
10	None	ENSG00000272140	ENST00000415917	lincRNA	KNOWN	None	None	None	None	75463983	75473267	-1	None	None
10	None	ENSG00000272140	ENST00000580623	lincRNA	KNOWN	None	None	None	None	75464655	75473339	-1	None	None
1	None	ENSG00000236111	ENST00000463059	processed_pseudogene	KNOWN	None	None	None	None	46246949	46247629	1	None	None
1	None	ENSG00000236111	ENST00000399997	processed_pseudogene	KNOWN	None	None	None	None	46246949	46247596	1	None	None
1	None	ENSG00000251837	ENST00000516028	misc_RNA	NOVEL	None	None	None	None	93492967	93493063	-1	None	None
16	TPRKBP2	ENSG00000260452	ENST00000565969	processed_pseudogene	KNOWN	None	44944	None	None	28122494	28122968	-1	None	None
14	None	ENSG00000258762	ENST00000556706	processed_pseudogene	KNOWN	None	None	None	None	84639185	84639950	1	None	None
2	None	ENSG00000233581	ENST00000452736	antisense	KNOWN	None	None	None	None	217168048	217186460	1	None	None
18	SNX19P3	ENSG00000264570	ENST00000580193	processed_pseudogene	KNOWN	None	38116	None	None	14629831	14632805	-1	None	None
2	None	ENSG00000231675	ENST00000453230	processed_pseudogene	KNOWN	None	None	None	None	159559799	159559972	1	None	None
HG243_PATCH	MROH1	ENSG00000260383	ENST00000569672	retained_intron	KNOWN	None	26958	None	None	145202919	145305656	1	HEATR7A	KIAA1833
HG243_PATCH	MROH1	ENSG00000260383	ENST00000566817	retained_intron	KNOWN	None	26958	None	None	145202920	145248185	1	HEATR7A	KIAA1833
HG243_PATCH	MROH1	ENSG00000260383	ENST00000562181	protein_coding	KNOWN	None	26958	1269	422	145202939	145268370	1	HEATR7A	KIAA1833
HG243_PATCH	MROH1	ENSG00000260383	ENST00000564535	protein_coding	NOVEL	None	26958	4899	1632	145203548	145316712	1	HEATR7A	KIAA1833
HG243_PATCH	MROH1	ENSG00000260383	ENST00000563621	retained_intron	KNOWN	None	26958	None	None	145203713	145307571	1	HEATR7A	KIAA1833
HG243_PATCH	MROH1	ENSG00000260383	ENST00000568089	protein_coding	KNOWN	None	26958	4926	1641	145215928	145316830	1	HEATR7A	KIAA1833
HG243_PATCH	MROH1	ENSG00000260383	ENST00000562720	retained_intron	KNOWN	None	26958	None	None	145234358	145256082	1	HEATR7A	KIAA1833
HG243_PATCH	MROH1	ENSG00000260383	ENST00000566962	processed_transcript	PUTATIVE	None	26958	None	None	145254022	145269392	1	HEATR7A	KIAA1833
HG243_PATCH	MROH1	ENSG00000260383	ENST00000564799	retained_intron	KNOWN	None	26958	None	None	145309325	145310540	1	HEATR7A	KIAA1833
1	None	ENSG00000237003	ENST00000413542	processed_pseudogene	KNOWN	None	None	None	None	93656297	93656617	-1	None	None
X	None	ENSG00000216047	ENST00000401228	miRNA	NOVEL	None	None	None	None	130538484	130538576	-1	None	None
2	None	ENSG00000228329	ENST00000415448	lincRNA	KNOWN	None	None	None	None	69059948	69064324	-1	None	None
18	RNU6-1210P	ENSG00000200645	ENST00000363775	snRNA	KNOWN	None	48173	None	None	14759187	14759293	1	None	None
12	USP30-AS1	ENSG00000256262	ENST00000478808	antisense	KNOWN	None	40909	None	None	109490155	109491757	-1	None	None
12	None	ENSG00000251536	ENST00000502221	lincRNA	KNOWN	None	None	None	None	130336753	130339489	-1	None	None
14	None	ENSG00000251363	ENST00000515218	lincRNA	KNOWN	None	None	None	None	41424103	41445082	1	None	None
1	NBPF18P	ENSG00000229021	ENST00000432386	antisense	KNOWN	None	31998	None	None	151967007	152015250	1	None	None
18	None	ENSG00000265481	ENST00000579337	miRNA	NOVEL	None	None	None	None	14771248	14771326	1	None	None
10	RNA5SP320	ENSG00000252072	ENST00000516263	rRNA	KNOWN	None	43220	None	None	75466248	75466371	1	RN5S320	None
1	TMA16P2	ENSG00000232467	ENST00000413187	processed_pseudogene	KNOWN	None	43781	None	None	46312666	46313266	-1	None	None
1	VN1R17P	ENSG00000235818	ENST00000472048	processed_pseudogene	KNOWN	None	37331	None	None	247400170	247401259	-1	None	None
1	TMEM88B	ENSG00000205116	ENST00000378821	protein_coding	NOVEL	CCDS57964	37099	492	163	1361508	1363167	1	None	None
18	None	ENSG00000265737	ENST00000581117	antisense	KNOWN	None	None	None	None	14816150	14825248	-1	None	None
5	C1QTNF3	ENSG00000082196	ENST00000382079	nonsense_mediated_decay	KNOWN	None	14326	855	284	33987279	34124633	-1	None	CTRP3, Cors, Corcs, 2310005P21Rik, Cors-26
5	C1QTNF3	ENSG00000082196	ENST00000382065	protein_coding	KNOWN	CCDS34141	14326	960	319	34019553	34043937	-1	None	CTRP3, Cors, Corcs, 2310005P21Rik, Cors-26
5	C1QTNF3	ENSG00000082196	ENST00000231338	protein_coding	KNOWN	CCDS3904	14326	741	246	34019558	34043318	-1	None	CTRP3, Cors, Corcs, 2310005P21Rik, Cors-26
5	C1QTNF3	ENSG00000082196	ENST00000508398	retained_intron	KNOWN	None	14326	None	None	34019802	34024523	-1	None	CTRP3, Cors, Corcs, 2310005P21Rik, Cors-26
5	C1QTNF3	ENSG00000082196	ENST00000513471	retained_intron	KNOWN	None	14326	None	None	34019810	34029113	-1	None	CTRP3, Cors, Corcs, 2310005P21Rik, Cors-26
5	C1QTNF3	ENSG00000082196	ENST00000513065	processed_transcript	KNOWN	None	14326	None	None	34020773	34033418	-1	None	CTRP3, Cors, Corcs, 2310005P21Rik, Cors-26
5	C1QTNF3	ENSG00000082196	ENST00000508434	retained_intron	KNOWN	None	14326	None	None	34033170	34043317	-1	None	CTRP3, Cors, Corcs, 2310005P21Rik, Cors-26
2	None	ENSG00000228528	ENST00000453322	lincRNA	KNOWN	None	None	None	None	105320216	105321967	1	None	None
X	OR1AA1P	ENSG00000234288	ENST00000419597	processed_pseudogene	KNOWN	None	14750	None	None	130558273	130559188	1	None	None
10	None	ENSG00000224005	ENST00000438951	pseudogene	NOVEL	None	None	None	None	75473354	75473609	-1	None	None
2	MIR3126	ENSG00000266649	ENST00000577443	miRNA	KNOWN	None	38225	None	None	69330814	69330887	1	None	hsa-mir-3126
1	None	ENSG00000225297	ENST00000426104	processed_pseudogene	KNOWN	None	None	None	None	93665312	93665496	-1	None	None
7	None	ENSG00000177590	ENST00000495150	processed_pseudogene	KNOWN	None	None	None	None	150443981	150444816	-1	None	None
7	None	ENSG00000177590	ENST00000313192	pseudogene	KNOWN	None	None	None	None	150444147	150444813	-1	None	None
X	None	ENSG00000270826	ENST00000604328	processed_pseudogene	KNOWN	None	None	None	None	93031910	93032383	-1	None	None
18	MIR3156-2	ENSG00000265499	ENST00000581101	miRNA	KNOWN	None	38213	None	None	14830165	14830241	1	None	hsa-mir-3156-2
11	FUT4	ENSG00000196371	ENST00000358752	protein_coding	KNOWN	CCDS8301	4015	1593	530	94277017	94283063	1	CD15, FCT3A, ELFT	FUC-TIV
14	None	ENSG00000258385	ENST00000554380	processed_pseudogene	KNOWN	None	None	None	None	41765489	41767937	1	None	None
2	None	ENSG00000207303	ENST00000384573	misc_RNA	NOVEL	None	None	None	None	217216126	217216227	1	None	None
2	RNA5SP96	ENSG00000251850	ENST00000516041	rRNA	KNOWN	None	42894	None	None	69409029	69409135	-1	RN5S96	None
1	None	ENSG00000226957	ENST00000450004	antisense	KNOWN	None	None	None	None	46512490	46514040	1	None	None
1	VN1R5	ENSG00000197617	ENST00000472952	processed_pseudogene	KNOWN	None	19870	None	None	247419374	247420445	1	None	V1RL5
8	RPL10AP2	ENSG00000188873	ENST00000479243	processed_pseudogene	KNOWN	None	31081	None	None	48068741	48069394	1	None	None
18	None	ENSG00000265786	ENST00000582962	processed_transcript	PUTATIVE	None	None	None	None	14877610	14884051	1	None	None
2	RNU6-1216P	ENSG00000199460	ENST00000362590	snRNA	KNOWN	None	48179	None	None	69410009	69410115	1	None	None
10	BMS1P4	ENSG00000242338	ENST00000584747	processed_transcript	KNOWN	None	23652	None	None	75475601	75490227	-1	BMS1LP4	OTTHUMG00000018478
10	BMS1P4	ENSG00000242338	ENST00000441263	transcribed_unprocessed_pseudogene	KNOWN	None	23652	None	None	75476873	75488338	-1	BMS1LP4	OTTHUMG00000018478
2	None	ENSG00000235042	ENST00000457694	antisense	KNOWN	None	None	None	None	217250011	217277419	-1	None	None
14	IGHV3-48	ENSG00000211964	ENST00000390624	IG_V_gene	KNOWN	None	5606	351	116	106993814	106994346	-1	None	None
11	DDX6	ENSG00000110367	ENST00000264018	protein_coding	KNOWN	CCDS44751	2747	1452	483	118620034	118661845	-1	HLR2	RCK
11	DDX6	ENSG00000110367	ENST00000529162	retained_intron	KNOWN	None	2747	None	None	118622074	118630078	-1	HLR2	RCK
11	DDX6	ENSG00000110367	ENST00000526070	protein_coding	PUTATIVE	CCDS44751	2747	1452	483	118625298	118661657	-1	HLR2	RCK
11	DDX6	ENSG00000110367	ENST00000525082	retained_intron	KNOWN	None	2747	None	None	118638335	118661845	-1	HLR2	RCK
11	DDX6	ENSG00000110367	ENST00000531971	retained_intron	KNOWN	None	2747	None	None	118651829	118661068	-1	HLR2	RCK
11	DDX6	ENSG00000110367	ENST00000533239	retained_intron	KNOWN	None	2747	None	None	118656542	118661858	-1	HLR2	RCK
11	DDX6	ENSG00000110367	ENST00000534980	protein_coding	KNOWN	CCDS44751	2747	1452	483	118622017	118661588	-1	HLR2	RCK
2	None	ENSG00000207249	ENST00000384520	snoRNA	NOVEL	None	None	None	None	105349692	105349820	1	None	None
15	None	ENSG00000261365	ENST00000563970	unprocessed_pseudogene	KNOWN	None	None	None	None	28718468	28718594	-1	None	None
2	None	ENSG00000271597	ENST00000604342	processed_pseudogene	KNOWN	None	None	None	None	69478950	69479496	-1	None	None
1	OR2T6	ENSG00000198104	ENST00000355728	protein_coding	KNOWN	CCDS31114	15018	927	308	248550910	248551836	1	OR2T6P, OR2T9	OST703
1	None	ENSG00000233114	ENST00000426289	processed_pseudogene	KNOWN	None	None	None	None	46570622	46570847	1	None	None
X	None	ENSG00000215319	ENST00000400019	processed_pseudogene	KNOWN	None	None	None	None	9786279	9787509	-1	None	None
2	None	ENSG00000252250	ENST00000516441	misc_RNA	NOVEL	None	None	None	None	69561732	69561824	1	None	None
19	DBP	ENSG00000105516	ENST00000222122	protein_coding	KNOWN	CCDS12728	2697	978	325	49133287	49140695	-1	None	DABP
19	DBP	ENSG00000105516	ENST00000599385	protein_coding	PUTATIVE	None	2697	372	123	49133942	49137893	-1	None	DABP
19	DBP	ENSG00000105516	ENST00000594723	retained_intron	KNOWN	None	2697	None	None	49133950	49140570	-1	None	DABP
19	DBP	ENSG00000105516	ENST00000593500	protein_coding	PUTATIVE	None	2697	372	123	49133988	49137783	-1	None	DABP
19	DBP	ENSG00000105516	ENST00000601104	protein_coding	PUTATIVE	None	2697	789	262	49136343	49140620	-1	None	DABP
14	GMFB	ENSG00000197045	ENST00000554908	protein_coding	NOVEL	None	4373	117	38	54941202	54955743	-1	None	GMF
14	GMFB	ENSG00000197045	ENST00000358056	protein_coding	KNOWN	CCDS9718	4373	429	142	54941203	54955914	-1	None	GMF
14	GMFB	ENSG00000197045	ENST00000554163	retained_intron	KNOWN	None	4373	None	None	54944640	54950486	-1	None	GMF
14	GMFB	ENSG00000197045	ENST00000554247	nonsense_mediated_decay	KNOWN	None	4373	117	38	54944701	54955698	-1	None	GMF
14	GMFB	ENSG00000197045	ENST00000553333	protein_coding	PUTATIVE	None	4373	450	149	54944824	54955376	-1	None	GMF
14	GMFB	ENSG00000197045	ENST00000553566	processed_transcript	KNOWN	None	4373	None	None	54948113	54955579	-1	None	GMF
14	GMFB	ENSG00000197045	ENST00000554682	retained_intron	KNOWN	None	4373	None	None	54948113	54955698	-1	None	GMF
14	GMFB	ENSG00000197045	ENST00000553952	retained_intron	KNOWN	None	4373	None	None	54949846	54955712	-1	None	GMF
2	None	ENSG00000234177	ENST00000424321	lincRNA	KNOWN	None	None	None	None	105363096	105372213	-1	None	None
2	None	ENSG00000234177	ENST00000425879	lincRNA	KNOWN	None	None	None	None	105363098	105374177	-1	None	None
2	None	ENSG00000234177	ENST00000421071	lincRNA	KNOWN	None	None	None	None	105365842	105371333	-1	None	None
X	None	ENSG00000230973	ENST00000441066	processed_pseudogene	KNOWN	None	None	None	None	130571029	130571644	-1	None	None
18	FGF7P1	ENSG00000264061	ENST00000582820	unprocessed_pseudogene	KNOWN	None	21455	None	None	14888708	14890085	-1	None	HsT283
2	None	ENSG00000271954	ENST00000606389	lincRNA	KNOWN	None	None	None	None	69685129	69687230	-1	None	None
1	None	ENSG00000240667	ENST00000413192	unprocessed_pseudogene	KNOWN	None	None	None	None	151991138	151994984	1	None	None
1	None	ENSG00000202079	ENST00000365209	misc_RNA	KNOWN	None	None	None	None	247458137	247458243	1	None	None
2	None	ENSG00000232485	ENST00000453157	antisense	KNOWN	None	None	None	None	217343753	217363484	-1	None	None
2	None	ENSG00000232485	ENST00000438978	antisense	KNOWN	None	None	None	None	217351494	217363469	-1	None	None
2	None	ENSG00000232485	ENST00000431856	retained_intron	KNOWN	None	None	None	None	217352527	217363473	-1	None	None
2	OR7E89P	ENSG00000243792	ENST00000411729	transcribed_unprocessed_pseudogene	KNOWN	None	14730	None	None	159710267	159711088	1	None	None
8	None	ENSG00000265826	ENST00000580058	miRNA	NOVEL	None	None	None	None	12280513	12280578	1	None	None
11	LRRN4CL	ENSG00000177363	ENST00000317449	protein_coding	KNOWN	CCDS8030	33724	717	238	62453874	62457371	-1	None	None
11	None	ENSG00000254693	ENST00000533814	antisense	KNOWN	None	None	None	None	44626058	44626887	-1	None	None
6	None	ENSG00000219240	ENST00000407031	processed_pseudogene	KNOWN	None	None	None	None	90595875	90597567	1	None	None
12	None	ENSG00000261650	ENST00000561864	lincRNA	KNOWN	None	None	None	None	130509038	130529501	-1	None	None
1	OR2W5	ENSG00000203664	ENST00000522351	processed_transcript	KNOWN	None	15424	None	None	247654370	247655449	1	OR2W5P	OST722
1	OR2W5	ENSG00000203664	ENST00000366492	transcribed_unprocessed_pseudogene	KNOWN	None	15424	None	None	247654430	247655392	1	OR2W5P	OST722
1	OR2W5	ENSG00000203664	ENST00000530852	unprocessed_pseudogene	KNOWN	None	15424	None	None	247654370	247655710	1	OR2W5P	OST722
14	None	ENSG00000221695	ENST00000408768	miRNA	NOVEL	None	None	None	None	41818497	41818570	1	None	None
X	RNU6-332P	ENSG00000212495	ENST00000391193	snRNA	KNOWN	None	47295	None	None	93258814	93258921	-1	None	None
4	UGT2B4	ENSG00000156096	ENST00000512583	protein_coding	NOVEL	None	12553	1110	369	70345883	70361579	-1	None	UGT2B11
4	UGT2B4	ENSG00000156096	ENST00000305107	protein_coding	KNOWN	CCDS43234	12553	1587	528	70345883	70361626	-1	None	UGT2B11
4	UGT2B4	ENSG00000156096	ENST00000506580	processed_transcript	KNOWN	None	12553	None	None	70346048	70361613	-1	None	UGT2B11
4	UGT2B4	ENSG00000156096	ENST00000502655	processed_transcript	KNOWN	None	12553	None	None	70350926	70391732	-1	None	UGT2B11
4	UGT2B4	ENSG00000156096	ENST00000503836	processed_transcript	KNOWN	None	12553	None	None	70355196	70391732	-1	None	UGT2B11
4	UGT2B4	ENSG00000156096	ENST00000510114	protein_coding	KNOWN	None	12553	163	53	70361417	70391732	-1	None	UGT2B11
4	UGT2B4	ENSG00000156096	ENST00000381096	protein_coding	KNOWN	None	12553	1179	392	70345884	70391732	-1	None	UGT2B11
2	None	ENSG00000188971	ENST00000607104	sense_intronic	KNOWN	None	None	None	None	69691948	69693236	-1	None	None
2	None	ENSG00000188971	ENST00000339092	sense_intronic	KNOWN	None	None	None	None	69686414	69693664	-1	None	None
1	None	ENSG00000227857	ENST00000452785	antisense	KNOWN	None	None	None	None	46600203	46604753	1	None	None
X	None	ENSG00000202410	ENST00000365540	misc_RNA	NOVEL	None	None	None	None	93433004	93433105	1	None	None
11	None	ENSG00000255092	ENST00000532524	antisense	KNOWN	None	None	None	None	44627720	44629651	-1	None	None
15	MIR4509-2	ENSG00000263964	ENST00000578671	miRNA	KNOWN	None	41537	None	None	28735898	28735991	-1	None	hsa-mir-4509-2
15	MIR4509-3	ENSG00000263964	ENST00000578671	miRNA	KNOWN	None	41610	None	None	28735898	28735991	-1	None	hsa-mir-4509-3
15	MIR4509-1	ENSG00000263964	ENST00000578671	miRNA	KNOWN	None	41860	None	None	28735898	28735991	-1	None	hsa-mir-4509-1
18	None	ENSG00000263618	ENST00000578243	lincRNA	KNOWN	None	None	None	None	14903579	14910110	1	None	None
18	None	ENSG00000263618	ENST00000584414	lincRNA	KNOWN	None	None	None	None	14905442	14915627	1	None	None
18	None	ENSG00000263618	ENST00000581351	lincRNA	KNOWN	None	None	None	None	14905634	14910110	1	None	None
8	None	ENSG00000253740	ENST00000521625	antisense	KNOWN	None	None	None	None	101630809	101632221	1	None	None
8	None	ENSG00000253740	ENST00000521535	antisense	KNOWN	None	None	None	None	101630810	101632208	1	None	None
X	None	ENSG00000227521	ENST00000420303	processed_pseudogene	KNOWN	None	None	None	None	93574037	93575024	1	None	None
11	OR51A10P	ENSG00000230484	ENST00000307165	unprocessed_pseudogene	KNOWN	None	15185	None	None	5489716	5490652	-1	OR51A11P, OR51A13	None
14	None	ENSG00000258901	ENST00000556081	processed_pseudogene	KNOWN	None	None	None	None	42024865	42025258	-1	None	None
6	None	ENSG00000252891	ENST00000517082	misc_RNA	NOVEL	None	None	None	None	90608002	90608111	-1	None	None
2	OR7E28P	ENSG00000251491	ENST00000505191	transcribed_unprocessed_pseudogene	KNOWN	None	8400	None	None	159718823	159719797	1	OR7E133P, OR7E107P, OR7E27P	OST128, hg616
7	None	ENSG00000241134	ENST00000482276	processed_pseudogene	KNOWN	None	None	None	None	150446824	150447182	1	None	None
7	None	ENSG00000241134	ENST00000542395	processed_pseudogene	KNOWN	None	None	None	None	150446824	150487837	1	None	None
2	RN7SL604P	ENSG00000244236	ENST00000492589	misc_RNA	KNOWN	None	46620	None	None	69743883	69744176	1	None	None
2	None	ENSG00000241520	ENST00000414135	antisense	KNOWN	None	None	None	None	217347755	217351919	-1	None	None
1	None	ENSG00000250719	ENST00000506599	antisense	KNOWN	None	None	None	None	46641158	46642150	-1	None	None
2	SNORA36C	ENSG00000207016	ENST00000384289	snoRNA	KNOWN	None	33616	None	None	69747175	69747306	-1	None	None
6	PRPF4B	ENSG00000112739	ENST00000480058	nonsense_mediated_decay	KNOWN	CCDS4488	17346	3024	1007	4021501	4065216	1	None	Prp4, PR4H, KIAA0536
6	PRPF4B	ENSG00000112739	ENST00000337659	protein_coding	KNOWN	CCDS4488	17346	3024	1007	4021560	4062141	1	None	Prp4, PR4H, KIAA0536
6	PRPF4B	ENSG00000112739	ENST00000481109	nonsense_mediated_decay	KNOWN	None	17346	1764	587	4037653	4065217	1	None	Prp4, PR4H, KIAA0536
6	PRPF4B	ENSG00000112739	ENST00000490399	processed_transcript	KNOWN	None	17346	None	None	4041082	4044460	1	None	Prp4, PR4H, KIAA0536
6	PRPF4B	ENSG00000112739	ENST00000463634	retained_intron	KNOWN	None	17346	None	None	4041083	4065217	1	None	Prp4, PR4H, KIAA0536
6	PRPF4B	ENSG00000112739	ENST00000466185	processed_transcript	KNOWN	None	17346	None	None	4052216	4059124	1	None	Prp4, PR4H, KIAA0536
6	PRPF4B	ENSG00000112739	ENST00000494674	processed_transcript	KNOWN	None	17346	None	None	4057394	4063790	1	None	Prp4, PR4H, KIAA0536
6	PRPF4B	ENSG00000112739	ENST00000490653	processed_transcript	KNOWN	None	17346	None	None	4061216	4062303	1	None	Prp4, PR4H, KIAA0536
6	PRPF4B	ENSG00000112739	ENST00000461612	processed_transcript	KNOWN	None	17346	None	None	4062338	4065217	1	None	Prp4, PR4H, KIAA0536
6	PRPF4B	ENSG00000112739	ENST00000538861	protein_coding	KNOWN	None	17346	2982	993	4021927	4060926	1	None	Prp4, PR4H, KIAA0536
4	None	ENSG00000251501	ENST00000507410	processed_pseudogene	KNOWN	None	None	None	None	43588345	43590114	1	None	None
X	HMGN1P33	ENSG00000230326	ENST00000432945	processed_pseudogene	KNOWN	None	39377	None	None	9833133	9833583	-1	None	None
11	None	ENSG00000244267	ENST00000468193	processed_pseudogene	KNOWN	None	None	None	None	44650907	44651224	1	None	None
2	None	ENSG00000224391	ENST00000449783	antisense	KNOWN	None	None	None	None	217455149	217471661	-1	None	None
18	None	ENSG00000266554	ENST00000584531	lincRNA	KNOWN	None	None	None	None	14946266	14973738	1	None	None
18	None	ENSG00000266554	ENST00000580967	lincRNA	KNOWN	None	None	None	None	14971496	14973769	1	None	None
1	GCSAML-AS1	ENSG00000227135	ENST00000420469	antisense	KNOWN	None	41244	None	None	247687981	247690054	-1	None	None
2	None	ENSG00000232228	ENST00000441658	processed_pseudogene	KNOWN	None	None	None	None	69821873	69822190	-1	None	None
14	IGHV3-49	ENSG00000211965	ENST00000390625	IG_V_gene	KNOWN	None	5607	357	118	107012938	107013477	-1	None	None
3	PTPRG	ENSG00000144724	ENST00000495879	processed_transcript	KNOWN	None	9671	None	None	61547243	61757069	1	PTPG	RPTPG
3	PTPRG	ENSG00000144724	ENST00000475527	processed_transcript	KNOWN	None	9671	None	None	61547525	61736723	1	PTPG	RPTPG
3	PTPRG	ENSG00000144724	ENST00000295874	protein_coding	NOVEL	None	9671	4251	1416	61547585	62279004	1	PTPG	RPTPG
3	PTPRG	ENSG00000144724	ENST00000474889	protein_coding	KNOWN	CCDS2895	9671	4338	1445	61547585	62283288	1	PTPG	RPTPG
3	PTPRG	ENSG00000144724	ENST00000475012	processed_transcript	KNOWN	None	9671	None	None	62203257	62279226	1	PTPG	RPTPG
3	PTPRG	ENSG00000144724	ENST00000485215	processed_transcript	KNOWN	None	9671	None	None	62229250	62253488	1	PTPG	RPTPG
3	PTPRG	ENSG00000144724	ENST00000468576	retained_intron	KNOWN	None	9671	None	None	62229479	62249140	1	PTPG	RPTPG
1	SPTLC1P4	ENSG00000232678	ENST00000435997	processed_pseudogene	KNOWN	None	39671	None	None	152050428	152050687	1	None	None
1	None	ENSG00000225779	ENST00000457027	processed_pseudogene	KNOWN	None	None	None	None	46836258	46836627	1	None	None
2	HMGB3P11	ENSG00000213301	ENST00000440127	processed_pseudogene	KNOWN	None	39303	None	None	105387740	105388343	1	None	None
2	SULT1C3	ENSG00000196228	ENST00000329106	protein_coding	KNOWN	CCDS33267	33543	915	304	108863651	108881807	1	None	None
2	SULT1C3	ENSG00000196228	ENST00000376700	protein_coding	KNOWN	None	33543	915	304	108863651	108877136	1	None	None
4	RN7SL691P	ENSG00000239464	ENST00000494487	misc_RNA	KNOWN	None	46707	None	None	43600559	43600854	-1	None	None
X	None	ENSG00000206844	ENST00000384117	misc_RNA	NOVEL	None	None	None	None	9842641	9842741	-1	None	None
4	RN7SL193P	ENSG00000239679	ENST00000491708	misc_RNA	KNOWN	None	46209	None	None	43865291	43865563	1	None	None
X	WWC3-AS1	ENSG00000225076	ENST00000430057	antisense	KNOWN	None	41236	None	None	9992882	10006694	-1	None	None
1	None	ENSG00000236817	ENST00000435333	antisense	KNOWN	None	None	None	None	247728941	247804156	-1	None	None
1	None	ENSG00000236817	ENST00000446347	antisense	KNOWN	None	None	None	None	247729210	247803505	-1	None	None
2	None	ENSG00000229948	ENST00000420569	processed_pseudogene	KNOWN	None	None	None	None	69824485	69826083	1	None	None
3	NDUFAF4P3	ENSG00000236411	ENST00000456468	processed_pseudogene	KNOWN	None	44542	None	None	37831412	37831936	-1	None	None
8	ENPP7P6	ENSG00000255549	ENST00000529817	unprocessed_pseudogene	KNOWN	None	48698	None	None	12305522	12368787	-1	None	None
HSCHR6_MHC_APD	SAPCD1	ENSG00000227861	ENST00000436320	protein_coding	KNOWN	None	13938	444	147	31741930	31743982	1	C6orf26	NG23
HSCHR6_MHC_APD	SAPCD1	ENSG00000227861	ENST00000447852	protein_coding	KNOWN	None	13938	537	178	31742127	31743982	1	C6orf26	NG23
HSCHR6_MHC_APD	SAPCD1	ENSG00000227861	ENST00000498119	retained_intron	KNOWN	None	13938	None	None	31742751	31743430	1	C6orf26	NG23
HSCHR6_MHC_APD	SAPCD1	ENSG00000227861	ENST00000552302	protein_coding	KNOWN	None	13938	447	148	31742127	31743976	1	C6orf26	NG23
4	None	ENSG00000124399	ENST00000513465	processed_pseudogene	KNOWN	None	None	None	None	43900979	43901368	1	None	None
4	None	ENSG00000124399	ENST00000244249	processed_pseudogene	KNOWN	None	None	None	None	43900474	43901368	1	None	None
1	None	ENSG00000226716	ENST00000429230	antisense	KNOWN	None	None	None	None	152095010	152097541	1	None	None
2	None	ENSG00000225794	ENST00000441803	lincRNA	KNOWN	None	None	None	None	217469494	217475925	1	None	None
X	PAICSP7	ENSG00000232293	ENST00000419829	processed_pseudogene	KNOWN	None	38100	None	None	93891662	93894569	-1	None	None
12	None	ENSG00000214039	ENST00000291374	lincRNA	KNOWN	None	None	None	None	130517999	130526887	-1	None	None
12	None	ENSG00000214039	ENST00000567788	lincRNA	KNOWN	None	None	None	None	130517999	130529602	-1	None	None
1	None	ENSG00000232022	ENST00000446499	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	46897801	46910993	1	None	None
1	None	ENSG00000232022	ENST00000606395	processed_transcript	KNOWN	None	None	None	None	46899499	46902125	1	None	None
1	None	ENSG00000232022	ENST00000607656	processed_transcript	KNOWN	None	None	None	None	46901605	46906874	1	None	None
1	None	ENSG00000232022	ENST00000429784	processed_transcript	KNOWN	None	None	None	None	46901817	46911193	1	None	None
11	None	ENSG00000270160	ENST00000602773	lincRNA	KNOWN	None	None	None	None	128484235	128485131	-1	None	None
15	None	ENSG00000259676	ENST00000561358	lincRNA	KNOWN	None	None	None	None	89340644	89341965	-1	None	None
4	ATOH1	ENSG00000172238	ENST00000306011	protein_coding	KNOWN	CCDS3638	797	1065	354	94750042	94751221	1	None	HATH1, MATH-1, Math1, bHLHa14
1	HDHD1P2	ENSG00000233792	ENST00000431423	processed_pseudogene	KNOWN	None	20195	None	None	152096914	152097556	-1	FAM16B, HDHD1CP	None
12	None	ENSG00000257139	ENST00000552324	lincRNA	KNOWN	None	None	None	None	70574118	70595784	1	None	None
4	None	ENSG00000264953	ENST00000580602	miRNA	NOVEL	None	None	None	None	139938647	139938733	-1	None	None
1	VWA1	ENSG00000179403	ENST00000495558	protein_coding	PUTATIVE	None	30910	501	166	1370241	1372839	1	None	FLJ22215, VWA-1, WARP
1	VWA1	ENSG00000179403	ENST00000338660	protein_coding	KNOWN	CCDS28	30910	195	64	1370903	1376145	1	None	FLJ22215, VWA-1, WARP
1	VWA1	ENSG00000179403	ENST00000476993	protein_coding	KNOWN	CCDS27	30910	1338	445	1371051	1378262	1	None	FLJ22215, VWA-1, WARP
1	VWA1	ENSG00000179403	ENST00000471398	protein_coding	PUTATIVE	None	30910	444	147	1371115	1372557	1	None	FLJ22215, VWA-1, WARP
1	VWA1	ENSG00000179403	ENST00000404702	protein_coding	KNOWN	None	30910	702	233	1370903	1378262	1	None	FLJ22215, VWA-1, WARP
20	None	ENSG00000261062	ENST00000564280	sense_overlapping	KNOWN	None	None	None	None	10381657	10384178	-1	None	None
11	None	ENSG00000255079	ENST00000532748	lincRNA	KNOWN	None	None	None	None	44716413	44717851	-1	None	None
2	PSMB3P2	ENSG00000235444	ENST00000457237	processed_pseudogene	KNOWN	None	30150	None	None	217475065	217475682	-1	None	None
15	None	ENSG00000259350	ENST00000559344	processed_pseudogene	KNOWN	None	None	None	None	89495914	89496691	1	None	None
12	None	ENSG00000257613	ENST00000552998	lincRNA	KNOWN	None	None	None	None	70612912	70615642	-1	None	None
18	None	ENSG00000264301	ENST00000581211	lincRNA	KNOWN	None	None	None	None	14969000	14969756	-1	None	None
18	None	ENSG00000264301	ENST00000580867	lincRNA	KNOWN	None	None	None	None	14969605	14970467	-1	None	None
7	NPY	ENSG00000122585	ENST00000242152	protein_coding	KNOWN	CCDS5387	7955	294	97	24323782	24331484	1	None	PYY4
7	NPY	ENSG00000122585	ENST00000407573	protein_coding	KNOWN	CCDS5387	7955	294	97	24323807	24331427	1	None	PYY4
7	NPY	ENSG00000122585	ENST00000405982	protein_coding	KNOWN	CCDS5387	7955	294	97	24324726	24331443	1	None	PYY4
17	RGS9	ENSG00000108370	ENST00000583473	retained_intron	KNOWN	None	10004	None	None	63133549	63154909	1	None	PERRS, RGS9L, MGC26458, MGC111763
17	RGS9	ENSG00000108370	ENST00000443584	protein_coding	PUTATIVE	None	10004	1887	628	63133566	63221706	1	None	PERRS, RGS9L, MGC26458, MGC111763
17	RGS9	ENSG00000108370	ENST00000584234	nonsense_mediated_decay	KNOWN	None	10004	1485	494	63133572	63223796	1	None	PERRS, RGS9L, MGC26458, MGC111763
17	RGS9	ENSG00000108370	ENST00000449996	protein_coding	KNOWN	CCDS45764	10004	2016	671	63133587	63223821	1	None	PERRS, RGS9L, MGC26458, MGC111763
17	RGS9	ENSG00000108370	ENST00000262406	protein_coding	KNOWN	CCDS42373	10004	2025	674	63133592	63223808	1	None	PERRS, RGS9L, MGC26458, MGC111763
17	RGS9	ENSG00000108370	ENST00000581175	retained_intron	KNOWN	None	10004	None	None	63133642	63206780	1	None	PERRS, RGS9L, MGC26458, MGC111763
17	RGS9	ENSG00000108370	ENST00000577186	processed_transcript	KNOWN	None	10004	None	None	63133710	63176155	1	None	PERRS, RGS9L, MGC26458, MGC111763
17	RGS9	ENSG00000108370	ENST00000577595	retained_intron	KNOWN	None	10004	None	None	63184822	63223810	1	None	PERRS, RGS9L, MGC26458, MGC111763
3	FILIP1L	ENSG00000168386	ENST00000476723	processed_transcript	KNOWN	None	24589	None	None	99548985	99595017	-1	None	DOC-1, GIP130
3	FILIP1L	ENSG00000168386	ENST00000477258	protein_coding	PUTATIVE	None	24589	445	147	99549323	99567456	-1	None	DOC-1, GIP130
3	FILIP1L	ENSG00000168386	ENST00000354552	protein_coding	KNOWN	CCDS43117	24589	3408	1135	99551988	99833357	-1	None	DOC-1, GIP130
3	FILIP1L	ENSG00000168386	ENST00000487087	protein_coding	KNOWN	None	24589	2136	711	99552061	99569919	-1	None	DOC-1, GIP130
3	FILIP1L	ENSG00000168386	ENST00000471562	protein_coding	KNOWN	None	24589	2688	895	99552061	99594948	-1	None	DOC-1, GIP130
3	FILIP1L	ENSG00000168386	ENST00000331335	protein_coding	KNOWN	CCDS43118	24589	3402	1133	99566772	99833357	-1	None	DOC-1, GIP130
3	FILIP1L	ENSG00000168386	ENST00000495625	protein_coding	KNOWN	None	24589	2511	836	99567289	99594988	-1	None	DOC-1, GIP130
3	FILIP1L	ENSG00000168386	ENST00000398326	protein_coding	KNOWN	None	24589	768	255	99616971	99833357	-1	None	DOC-1, GIP130
3	FILIP1L	ENSG00000168386	ENST00000468533	processed_transcript	KNOWN	None	24589	None	None	99794415	99833108	-1	None	DOC-1, GIP130
3	FILIP1L	ENSG00000168386	ENST00000383694	protein_coding	KNOWN	CCDS43119	24589	2682	893	99566772	99595046	-1	None	DOC-1, GIP130
X	None	ENSG00000228450	ENST00000422384	processed_pseudogene	KNOWN	None	None	None	None	130626253	130626860	-1	None	None
1	RNU6-691P	ENSG00000252394	ENST00000516585	snRNA	KNOWN	None	47654	None	None	247770428	247770503	-1	None	None
8	None	ENSG00000253839	ENST00000523232	lincRNA	KNOWN	None	None	None	None	137501691	137542119	1	None	None
1	FLG-AS1	ENSG00000237975	ENST00000593011	antisense	KNOWN	None	27913	None	None	152140601	152305162	1	None	None
1	FLG-AS1	ENSG00000237975	ENST00000420707	antisense	KNOWN	None	27913	None	None	152161827	152313586	1	None	None
1	FLG-AS1	ENSG00000237975	ENST00000382265	antisense	KNOWN	None	27913	None	None	152221479	152243570	1	None	None
1	FLG-AS1	ENSG00000237975	ENST00000392688	antisense	KNOWN	None	27913	None	None	152285935	152338051	1	None	None
1	FLG-AS1	ENSG00000237975	ENST00000445097	antisense	KNOWN	None	27913	None	None	152309544	152339163	1	None	None
1	OR14L1P	ENSG00000198452	ENST00000419087	unprocessed_pseudogene	KNOWN	None	15023	None	None	247782945	247783872	1	OR5AV1, OR5AV1P	None
1	OR14L1P	ENSG00000198452	ENST00000366486	unprocessed_pseudogene	KNOWN	None	15023	None	None	247782983	247783864	1	OR5AV1, OR5AV1P	None
2	UCN	ENSG00000163794	ENST00000296099	protein_coding	KNOWN	CCDS1747	12516	375	124	27530268	27531313	-1	None	UROC, UI
14	IGHV5-51	ENSG00000211966	ENST00000390626	IG_V_gene	KNOWN	None	5659	351	116	107034729	107035221	-1	None	None
18	None	ENSG00000263821	ENST00000583306	lincRNA	KNOWN	None	None	None	None	14978738	14979838	1	None	None
10	UNC5B	ENSG00000107731	ENST00000335350	protein_coding	KNOWN	CCDS7309	12568	2838	945	72972327	73062621	1	None	UNC5H2, p53RDL1
10	UNC5B	ENSG00000107731	ENST00000373192	protein_coding	KNOWN	CCDS58083	12568	2805	934	72972684	73062621	1	None	UNC5H2, p53RDL1
15	KRT18P47	ENSG00000259489	ENST00000561341	processed_pseudogene	KNOWN	None	33417	None	None	89503301	89504277	1	None	None
3	CT64	ENSG00000241369	ENST00000488287	lincRNA	KNOWN	None	37197	None	None	162845711	162900698	-1	None	None
3	CT64	ENSG00000241369	ENST00000470546	lincRNA	KNOWN	None	37197	None	None	162895031	163021089	-1	None	None
3	CT64	ENSG00000241369	ENST00000474168	lincRNA	KNOWN	None	37197	None	None	162917363	162937929	-1	None	None
3	CT64	ENSG00000241369	ENST00000494897	lincRNA	KNOWN	None	37197	None	None	162917363	163021076	-1	None	None
3	CT64	ENSG00000241369	ENST00000492553	lincRNA	KNOWN	None	37197	None	None	162917365	163021110	-1	None	None
3	CT64	ENSG00000241369	ENST00000462928	lincRNA	KNOWN	None	37197	None	None	162917366	162996361	-1	None	None
3	CT64	ENSG00000241369	ENST00000489012	lincRNA	KNOWN	None	37197	None	None	162917411	163079351	-1	None	None
3	CT64	ENSG00000241369	ENST00000488173	lincRNA	KNOWN	None	37197	None	None	162936848	163021105	-1	None	None
3	CT64	ENSG00000241369	ENST00000493473	lincRNA	KNOWN	None	37197	None	None	162937704	163021103	-1	None	None
1	OR2T1	ENSG00000175143	ENST00000366474	protein_coding	KNOWN	CCDS31115	8277	1110	369	248569296	248570405	1	None	OR1-25
17	KRT17	ENSG00000128422	ENST00000311208	protein_coding	KNOWN	CCDS11402	6427	1299	432	39775689	39780829	-1	PCHC1	None
17	KRT17	ENSG00000128422	ENST00000493253	retained_intron	KNOWN	None	6427	None	None	39775698	39780548	-1	PCHC1	None
17	KRT17	ENSG00000128422	ENST00000463128	protein_coding	PUTATIVE	None	6427	285	94	39777278	39781094	-1	PCHC1	None
17	KRT17	ENSG00000128422	ENST00000577817	protein_coding	NOVEL	None	6427	695	230	39777879	39780716	-1	PCHC1	None
17	KRT17	ENSG00000128422	ENST00000590038	protein_coding	PUTATIVE	None	6427	147	48	39777914	39779520	-1	PCHC1	None
17	KRT17	ENSG00000128422	ENST00000491673	retained_intron	KNOWN	None	6427	None	None	39779125	39780827	-1	PCHC1	None
1	None	ENSG00000223745	ENST00000413606	antisense	KNOWN	None	None	None	None	93727743	93811388	-1	None	None
1	None	ENSG00000223745	ENST00000602488	antisense	KNOWN	None	None	None	None	93730195	93739140	-1	None	None
1	None	ENSG00000223745	ENST00000457025	antisense	KNOWN	None	None	None	None	93730197	93804088	-1	None	None
1	None	ENSG00000223745	ENST00000446528	antisense	KNOWN	None	None	None	None	93730202	93798955	-1	None	None
1	None	ENSG00000223745	ENST00000451302	antisense	KNOWN	None	None	None	None	93730202	93811582	-1	None	None
1	None	ENSG00000223745	ENST00000415150	antisense	KNOWN	None	None	None	None	93730204	93790248	-1	None	None
1	None	ENSG00000223745	ENST00000455474	antisense	KNOWN	None	None	None	None	93730207	93803026	-1	None	None
1	None	ENSG00000223745	ENST00000447577	antisense	KNOWN	None	None	None	None	93730208	93806029	-1	None	None
1	None	ENSG00000223745	ENST00000442860	antisense	KNOWN	None	None	None	None	93730226	93775320	-1	None	None
1	None	ENSG00000223745	ENST00000414430	antisense	KNOWN	None	None	None	None	93730229	93780826	-1	None	None
1	None	ENSG00000223745	ENST00000429859	antisense	KNOWN	None	None	None	None	93730233	93802949	-1	None	None
1	None	ENSG00000223745	ENST00000427669	antisense	KNOWN	None	None	None	None	93730234	93780825	-1	None	None
1	None	ENSG00000223745	ENST00000424517	antisense	KNOWN	None	None	None	None	93730234	93790206	-1	None	None
1	None	ENSG00000223745	ENST00000450843	lincRNA	KNOWN	None	None	None	None	93770668	93804931	-1	None	None
1	None	ENSG00000223745	ENST00000440778	lincRNA	KNOWN	None	None	None	None	93775310	93804091	-1	None	None
1	None	ENSG00000223745	ENST00000421202	lincRNA	KNOWN	None	None	None	None	93776726	93811368	-1	None	None
1	None	ENSG00000223745	ENST00000436200	lincRNA	KNOWN	None	None	None	None	93776837	93802994	-1	None	None
1	None	ENSG00000223745	ENST00000432741	lincRNA	KNOWN	None	None	None	None	93777042	93803122	-1	None	None
1	None	ENSG00000223745	ENST00000411670	lincRNA	KNOWN	None	None	None	None	93790263	93811360	-1	None	None
1	None	ENSG00000223745	ENST00000452347	lincRNA	KNOWN	None	None	None	None	93804252	93811405	-1	None	None
1	None	ENSG00000223745	ENST00000438777	lincRNA	KNOWN	None	None	None	None	93804472	93811357	-1	None	None
1	None	ENSG00000223745	ENST00000449305	lincRNA	KNOWN	None	None	None	None	93804486	93811340	-1	None	None
1	None	ENSG00000223745	ENST00000457387	lincRNA	KNOWN	None	None	None	None	93804495	93811403	-1	None	None
1	None	ENSG00000223745	ENST00000445076	lincRNA	KNOWN	None	None	None	None	93804496	93811384	-1	None	None
1	None	ENSG00000235749	ENST00000449298	antisense	KNOWN	None	None	None	None	247803051	247910364	1	None	None
1	None	ENSG00000235749	ENST00000582218	antisense	KNOWN	None	None	None	None	247803351	247827145	1	None	None
2	None	ENSG00000236886	ENST00000447289	antisense	KNOWN	None	None	None	None	217559187	217858722	1	None	None
2	None	ENSG00000236886	ENST00000607591	antisense	KNOWN	None	None	None	None	217726923	217858802	1	None	None
12	None	ENSG00000256465	ENST00000541142	processed_pseudogene	KNOWN	None	None	None	None	32046304	32046636	1	None	None
18	None	ENSG00000266522	ENST00000580065	unprocessed_pseudogene	KNOWN	None	None	None	None	15003974	15006351	-1	None	None
3	None	ENSG00000243378	ENST00000491689	processed_pseudogene	KNOWN	None	None	None	None	182409716	182410073	1	None	None
4	None	ENSG00000250863	ENST00000509098	lincRNA	KNOWN	None	None	None	None	43982023	43983637	-1	None	None
11	None	ENSG00000224295	ENST00000411807	unprocessed_pseudogene	KNOWN	None	None	None	None	5539671	5546185	-1	None	None
X	None	ENSG00000202469	ENST00000365599	misc_RNA	NOVEL	None	None	None	None	10029262	10029363	1	None	None
X	CCNB1IP1P3	ENSG00000231001	ENST00000454702	processed_pseudogene	KNOWN	None	37695	None	None	94031738	94032566	-1	None	None
HSCHR12_2_CTG2	TAS2R46	ENSG00000262525	ENST00000574263	protein_coding	KNOWN	None	18877	930	309	11213964	11214893	-1	None	T2R54
12	None	ENSG00000244436	ENST00000498198	processed_pseudogene	KNOWN	None	None	None	None	32050754	32051057	1	None	None
8	None	ENSG00000253645	ENST00000520863	antisense	KNOWN	None	None	None	None	38827879	38830530	-1	None	None
11	AMOTL1	ENSG00000166025	ENST00000299004	protein_coding	PUTATIVE	None	17811	436	144	94439597	94532705	1	None	JEAP
11	AMOTL1	ENSG00000166025	ENST00000317829	protein_coding	KNOWN	None	17811	2721	906	94501508	94609913	1	None	JEAP
11	AMOTL1	ENSG00000166025	ENST00000433060	protein_coding	KNOWN	CCDS44712	17811	2871	956	94501537	94609918	1	None	JEAP
11	AMOTL1	ENSG00000166025	ENST00000539727	processed_transcript	PUTATIVE	None	17811	None	None	94553466	94563315	1	None	JEAP
11	AMOTL1	ENSG00000166025	ENST00000537191	retained_intron	KNOWN	None	17811	None	None	94597993	94599930	1	None	JEAP
11	AMOTL1	ENSG00000166025	ENST00000317837	protein_coding	KNOWN	None	17811	1632	543	94501508	94609918	1	None	JEAP
X	None	ENSG00000222133	ENST00000410201	miRNA	NOVEL	None	None	None	None	10184638	10184739	-1	None	None
1	OR3D1P	ENSG00000230411	ENST00000438288	unprocessed_pseudogene	KNOWN	None	25339	None	None	247830189	247831143	1	None	None
4	None	ENSG00000251350	ENST00000507639	lincRNA	KNOWN	None	None	None	None	44018878	44022273	1	None	None
4	None	ENSG00000251350	ENST00000512678	lincRNA	KNOWN	None	None	None	None	44019079	44024080	1	None	None
1	None	ENSG00000238571	ENST00000458934	snoRNA	NOVEL	None	None	None	None	202166756	202166859	-1	None	None
X	None	ENSG00000227042	ENST00000454113	lincRNA	KNOWN	None	None	None	None	10210379	10333363	1	None	None
X	None	ENSG00000221665	ENST00000408738	miRNA	NOVEL	None	None	None	None	94148500	94148592	1	None	None
3	LRRIQ4	ENSG00000188306	ENST00000340806	protein_coding	KNOWN	CCDS46951	34298	1683	560	169539710	169555563	1	None	LRRC64
GL000195.1	None	ENSG00000215781	ENST00000400890	protein_coding	KNOWN	None	None	363	120	43717	74342	-1	None	None
12	None	ENSG00000252584	ENST00000516775	miRNA	NOVEL	None	None	None	None	32068570	32068641	-1	None	None
1	None	ENSG00000239046	ENST00000458967	snoRNA	NOVEL	None	None	None	None	202200792	202200892	1	None	None
X	None	ENSG00000231447	ENST00000437309	antisense	KNOWN	None	None	None	None	151889195	151890140	-1	None	None
2	None	ENSG00000238708	ENST00000459058	snoRNA	NOVEL	None	None	None	None	69894491	69894593	1	None	None
4	None	ENSG00000266496	ENST00000584757	miRNA	NOVEL	None	None	None	None	44450022	44450127	1	None	None
18	None	ENSG00000263635	ENST00000583946	processed_transcript	PUTATIVE	None	None	None	None	15075444	15122766	1	None	None
8	None	ENSG00000254101	ENST00000524346	lincRNA	KNOWN	None	None	None	None	137543041	137909844	1	None	None
8	None	ENSG00000254101	ENST00000520060	lincRNA	KNOWN	None	None	None	None	137543052	137743862	1	None	None
8	None	ENSG00000254101	ENST00000517345	lincRNA	KNOWN	None	None	None	None	137549219	137810477	1	None	None
8	None	ENSG00000254101	ENST00000521090	lincRNA	KNOWN	None	None	None	None	137793096	137822280	1	None	None
8	None	ENSG00000254101	ENST00000520068	lincRNA	KNOWN	None	None	None	None	137802076	137827931	1	None	None
8	None	ENSG00000254101	ENST00000521097	lincRNA	KNOWN	None	None	None	None	137802077	137909844	1	None	None
8	None	ENSG00000254101	ENST00000521034	lincRNA	KNOWN	None	None	None	None	137809516	137997178	1	None	None
2	RGPD1	ENSG00000187627	ENST00000559485	protein_coding	KNOWN	CCDS46358	32414	5247	1748	87144738	87241104	1	None	RGP1
2	RGPD1	ENSG00000187627	ENST00000428128	nonsense_mediated_decay	KNOWN	None	32414	95	30	87203337	87239864	1	None	RGP1
2	RGPD1	ENSG00000187627	ENST00000409776	protein_coding	KNOWN	None	32414	5247	1748	87135076	87241099	1	None	RGP1
2	RGPD1	ENSG00000187627	ENST00000398193	protein_coding	KNOWN	None	32414	5271	1756	87140935	87239859	1	None	RGP1
2	None	ENSG00000231024	ENST00000415342	lincRNA	KNOWN	None	None	None	None	69927324	69940979	-1	None	None
3	MRPS17P3	ENSG00000239226	ENST00000465453	processed_pseudogene	KNOWN	None	29736	None	None	78574251	78574635	1	None	None
1	None	ENSG00000239395	ENST00000419891	sense_overlapping	KNOWN	None	None	None	None	247875115	247887066	-1	None	None
1	None	ENSG00000239395	ENST00000426444	lincRNA	KNOWN	None	None	None	None	247886259	247887063	-1	None	None
3	None	ENSG00000260377	ENST00000565024	lincRNA	KNOWN	None	None	None	None	182457457	182458636	-1	None	None
1	None	ENSG00000229120	ENST00000429682	processed_pseudogene	KNOWN	None	None	None	None	202338654	202339273	-1	None	None
18	RN7SL662P	ENSG00000266544	ENST00000584033	misc_RNA	KNOWN	None	46678	None	None	15090177	15090457	1	None	None
4	None	ENSG00000251159	ENST00000503587	processed_pseudogene	KNOWN	None	None	None	None	44535632	44535897	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000226795	ENST00000418190	processed_pseudogene	NOVEL	None	None	None	None	29044352	29044947	-1	None	None
2	None	ENSG00000233639	ENST00000413121	antisense	KNOWN	None	None	None	None	105424030	105467919	-1	None	None
2	None	ENSG00000233639	ENST00000443988	antisense	KNOWN	None	None	None	None	105424031	105467911	-1	None	None
2	None	ENSG00000233639	ENST00000447876	antisense	KNOWN	None	None	None	None	105424031	105469641	-1	None	None
2	None	ENSG00000233639	ENST00000458253	antisense	KNOWN	None	None	None	None	105424035	105467916	-1	None	None
2	None	ENSG00000233639	ENST00000454729	antisense	KNOWN	None	None	None	None	105424035	105467934	-1	None	None
18	None	ENSG00000264880	ENST00000581690	processed_transcript	PUTATIVE	None	None	None	None	15159723	15164466	-1	None	None
2	None	ENSG00000270723	ENST00000603609	processed_pseudogene	KNOWN	None	None	None	None	70100697	70100951	-1	None	None
14	IGHV3-53	ENSG00000211967	ENST00000390627	IG_V_gene	KNOWN	None	5610	348	115	107048672	107049341	-1	None	None
7	ADCY1	ENSG00000164742	ENST00000432715	protein_coding	PUTATIVE	None	232	1017	338	45613739	45704271	1	None	AC1
7	ADCY1	ENSG00000164742	ENST00000297323	protein_coding	KNOWN	CCDS34631	232	3360	1119	45614121	45762715	1	None	AC1
7	ADCY1	ENSG00000164742	ENST00000468353	retained_intron	KNOWN	None	232	None	None	45723984	45725639	1	None	AC1
HSCHR12_2_CTG2	TAS2R43	ENSG00000262612	ENST00000571879	protein_coding	KNOWN	None	18875	930	309	11243907	11244933	-1	None	T2R52
10	ARID5B	ENSG00000150347	ENST00000279873	protein_coding	KNOWN	CCDS31208	17362	3567	1188	63661059	63856703	1	None	FLJ21150, MRF2
10	ARID5B	ENSG00000150347	ENST00000309334	protein_coding	KNOWN	CCDS58082	17362	2838	945	63808970	63852823	1	None	FLJ21150, MRF2
6	TRIM40	ENSG00000204614	ENST00000396581	protein_coding	KNOWN	None	18736	777	258	30103885	30116512	1	None	RNF35
6	TRIM40	ENSG00000204614	ENST00000489892	processed_transcript	KNOWN	None	18736	None	None	30103901	30104975	1	None	RNF35
6	TRIM40	ENSG00000204614	ENST00000307859	protein_coding	KNOWN	CCDS4675	18736	690	229	30104787	30116512	1	None	RNF35
6	TRIM40	ENSG00000204614	ENST00000376724	protein_coding	KNOWN	None	18736	777	258	30104510	30116512	1	None	RNF35
2	None	ENSG00000238465	ENST00000458983	snoRNA	KNOWN	None	None	None	None	70139827	70139931	1	None	None
18	None	ENSG00000265015	ENST00000581666	processed_transcript	KNOWN	None	None	None	None	15196998	15197728	-1	None	None
18	None	ENSG00000265015	ENST00000581653	transcribed_processed_pseudogene	KNOWN	None	None	None	None	15197538	15197774	-1	None	None
11	OR52V1P	ENSG00000249633	ENST00000515557	unprocessed_pseudogene	KNOWN	None	15238	None	None	5548507	5549404	-1	None	None
HG7_PATCH	TRBC1	ENSG00000262134	ENST00000570538	protein_coding	KNOWN	None	12156	533	176	142552587	142554261	1	None	TCRBC1, BV05S1J2.2
GL000195.1	None	ENSG00000206668	ENST00000383941	misc_RNA	NOVEL	None	None	None	None	37434	37534	-1	None	None
2	None	ENSG00000239072	ENST00000459231	snoRNA	NOVEL	None	None	None	None	70182777	70182879	1	None	None
4	None	ENSG00000249729	ENST00000512950	processed_pseudogene	KNOWN	None	None	None	None	44842397	44843419	-1	None	None
1	OR9H1P	ENSG00000228336	ENST00000446393	unitary_pseudogene	KNOWN	None	15038	None	None	247938212	247939138	1	None	None
20	None	ENSG00000235036	ENST00000456064	processed_pseudogene	KNOWN	None	None	None	None	10593509	10594877	-1	None	None
20	None	ENSG00000235036	ENST00000261752	processed_pseudogene	KNOWN	None	None	None	None	10594084	10594842	-1	None	None
12	None	ENSG00000256298	ENST00000536512	lincRNA	KNOWN	None	None	None	None	130531677	130532921	1	None	None
HSCHR6_MHC_QBL	OR2J1	ENSG00000206523	ENST00000383652	unprocessed_pseudogene	KNOWN	None	8259	None	None	29068729	29069667	1	OR2J1P	OR6-5, hs6M1-4, dJ80I19.2
8	EPPK1	ENSG00000227184	ENST00000525985	protein_coding	KNOWN	None	15577	7263	2420	144939497	144952632	-1	None	EPIPL1
X	MIR548M	ENSG00000221187	ENST00000408260	miRNA	KNOWN	None	35331	None	None	94318140	94318225	-1	MIRN548M	hsa-mir-548m
HSCHR12_2_CTG2	TAS2R30	ENSG00000262111	ENST00000576640	protein_coding	KNOWN	None	19112	960	319	11317505	11319191	-1	TAS2R47	T2R30
4	None	ENSG00000249520	ENST00000508796	processed_pseudogene	KNOWN	None	None	None	None	185986135	185986477	1	None	None
3	SACM1L	ENSG00000211456	ENST00000464524	processed_transcript	KNOWN	None	17059	None	None	45730548	45751140	1	None	SAC1, KIAA0851
3	SACM1L	ENSG00000211456	ENST00000455997	nonsense_mediated_decay	KNOWN	None	17059	864	287	45730678	45786899	1	None	SAC1, KIAA0851
3	SACM1L	ENSG00000211456	ENST00000418611	protein_coding	PUTATIVE	None	17059	1455	484	45730733	45785296	1	None	SAC1, KIAA0851
3	SACM1L	ENSG00000211456	ENST00000463237	retained_intron	KNOWN	None	17059	None	None	45730754	45754903	1	None	SAC1, KIAA0851
3	SACM1L	ENSG00000211456	ENST00000389061	protein_coding	KNOWN	CCDS33745	17059	1764	587	45730754	45786916	1	None	SAC1, KIAA0851
3	SACM1L	ENSG00000211456	ENST00000441228	nonsense_mediated_decay	KNOWN	None	17059	216	71	45730847	45785427	1	None	SAC1, KIAA0851
3	SACM1L	ENSG00000211456	ENST00000463347	retained_intron	KNOWN	None	17059	None	None	45730848	45748810	1	None	SAC1, KIAA0851
3	SACM1L	ENSG00000211456	ENST00000438671	protein_coding	PUTATIVE	None	17059	338	111	45730849	45754666	1	None	SAC1, KIAA0851
3	SACM1L	ENSG00000211456	ENST00000478586	processed_transcript	KNOWN	None	17059	None	None	45730951	45751135	1	None	SAC1, KIAA0851
3	SACM1L	ENSG00000211456	ENST00000445499	nonsense_mediated_decay	KNOWN	None	17059	516	171	45730951	45755574	1	None	SAC1, KIAA0851
3	SACM1L	ENSG00000211456	ENST00000463659	retained_intron	KNOWN	None	17059	None	None	45754688	45761057	1	None	SAC1, KIAA0851
3	SACM1L	ENSG00000211456	ENST00000433336	protein_coding	PUTATIVE	None	17059	562	186	45772095	45780327	1	None	SAC1, KIAA0851
3	SACM1L	ENSG00000211456	ENST00000464102	retained_intron	KNOWN	None	17059	None	None	45776087	45786900	1	None	SAC1, KIAA0851
3	SACM1L	ENSG00000211456	ENST00000471207	retained_intron	KNOWN	None	17059	None	None	45778736	45780121	1	None	SAC1, KIAA0851
3	SACM1L	ENSG00000211456	ENST00000485311	retained_intron	KNOWN	None	17059	None	None	45779254	45781399	1	None	SAC1, KIAA0851
3	SACM1L	ENSG00000211456	ENST00000541314	protein_coding	KNOWN	None	17059	1581	526	45730951	45785427	1	None	SAC1, KIAA0851
1	HSD17B7P1	ENSG00000232908	ENST00000412419	processed_pseudogene	KNOWN	None	18689	None	None	247990788	247991804	1	None	None
X	None	ENSG00000212098	ENST00000390809	miRNA	NOVEL	None	None	None	None	94389278	94389371	1	None	None
9	None	ENSG00000238996	ENST00000459125	snoRNA	NOVEL	None	None	None	None	94907365	94907468	-1	None	None
1	None	ENSG00000272262	ENST00000606519	snRNA	NOVEL	None	None	None	None	202379236	202379335	-1	None	None
4	None	ENSG00000265619	ENST00000578796	miRNA	NOVEL	None	None	None	None	186043476	186043576	1	None	None
11	None	ENSG00000255465	ENST00000531784	lincRNA	KNOWN	None	None	None	None	128485760	128491701	-1	None	None
11	None	ENSG00000255465	ENST00000532563	lincRNA	KNOWN	None	None	None	None	128486570	128491711	-1	None	None
HSCHR12_2_CTG2	None	ENSG00000271877	ENST00000573781	processed_pseudogene	KNOWN	None	None	None	None	10983673	10984615	-1	None	None
HSCHR6_MHC_QBL	None	ENSG00000225184	ENST00000432480	processed_transcript	KNOWN	None	None	None	None	29091993	29096691	1	None	None
22	PDXP	ENSG00000241360	ENST00000215904	protein_coding	KNOWN	CCDS13953	30259	891	296	38054734	38062941	1	None	dJ37E16.5, FLJ32703
22	PDXP	ENSG00000241360	ENST00000403251	protein_coding	KNOWN	None	30259	240	79	38060918	38062939	1	None	dJ37E16.5, FLJ32703
14	IGHV1-58	ENSG00000211968	ENST00000390628	IG_V_gene	KNOWN	None	5555	351	116	107078373	107078869	-1	None	None
HG7_PATCH	TRBJ2-1	ENSG00000261830	ENST00000564782	TR_J_gene	KNOWN	None	12168	50	15	142557258	142557307	1	None	TRBJ21, TCRBJ2S1
1	OR6R1P	ENSG00000230576	ENST00000431838	unprocessed_pseudogene	KNOWN	None	15037	None	None	247996651	247997590	-1	None	None
1	None	ENSG00000232626	ENST00000417053	transcribed_processed_pseudogene	KNOWN	None	None	None	None	202407524	202408694	1	None	None
1	None	ENSG00000232626	ENST00000602961	processed_transcript	KNOWN	None	None	None	None	202408623	202409085	1	None	None
5	THG1L	ENSG00000113272	ENST00000231198	protein_coding	KNOWN	CCDS4341	26053	897	298	157158205	157168456	1	None	ICF45, FLJ11601, FLJ20546
5	THG1L	ENSG00000113272	ENST00000521655	nonsense_mediated_decay	KNOWN	None	26053	375	124	157158428	157166586	1	None	ICF45, FLJ11601, FLJ20546
5	THG1L	ENSG00000113272	ENST00000523575	nonsense_mediated_decay	KNOWN	None	26053	103	33	157164918	157166706	1	None	ICF45, FLJ11601, FLJ20546
1	None	ENSG00000236427	ENST00000429352	lincRNA	KNOWN	None	None	None	None	152178334	152179533	1	None	None
HSCHR6_MHC_QBL	OR2N1P	ENSG00000233506	ENST00000434184	unprocessed_pseudogene	KNOWN	None	8271	None	None	29105660	29106596	-1	None	OR6-7
12	None	ENSG00000242314	ENST00000484010	processed_pseudogene	KNOWN	None	None	None	None	32101268	32101761	1	None	None
1	OR2T7	ENSG00000227152	ENST00000460972	protein_coding	KNOWN	None	15019	927	308	248604508	248605434	1	OR2T7P	OST723
17	CHRNE	ENSG00000108556	ENST00000293780	protein_coding	KNOWN	CCDS11058	1966	1482	493	4801069	4806369	-1	None	ACHRE
17	CHRNE	ENSG00000108556	ENST00000572438	retained_intron	KNOWN	None	1966	None	None	4801352	4805106	-1	None	ACHRE
17	CHRNE	ENSG00000108556	ENST00000575637	processed_transcript	KNOWN	None	1966	None	None	4804304	4805925	-1	None	ACHRE
17	PITPNC1	ENSG00000154217	ENST00000580974	protein_coding	KNOWN	CCDS58587	21045	807	268	65373575	65693372	1	None	RDGBB1, RDGBB, RDGB-BETA
17	PITPNC1	ENSG00000154217	ENST00000581322	protein_coding	KNOWN	CCDS58588	21045	999	332	65374271	65689129	1	None	RDGBB1, RDGBB, RDGB-BETA
17	PITPNC1	ENSG00000154217	ENST00000584471	protein_coding	PUTATIVE	None	21045	265	87	65375082	65574341	1	None	RDGBB1, RDGBB, RDGB-BETA
17	PITPNC1	ENSG00000154217	ENST00000584554	protein_coding	PUTATIVE	None	21045	296	97	65453654	65574372	1	None	RDGBB1, RDGBB, RDGB-BETA
17	PITPNC1	ENSG00000154217	ENST00000581923	retained_intron	KNOWN	None	21045	None	None	65529021	65628537	1	None	RDGBB1, RDGBB, RDGB-BETA
17	PITPNC1	ENSG00000154217	ENST00000578527	retained_intron	KNOWN	None	21045	None	None	65549302	65689483	1	None	RDGBB1, RDGBB, RDGB-BETA
17	PITPNC1	ENSG00000154217	ENST00000335257	protein_coding	KNOWN	None	21045	999	332	65373924	65689645	1	None	RDGBB1, RDGBB, RDGB-BETA
17	PITPNC1	ENSG00000154217	ENST00000299954	protein_coding	KNOWN	None	21045	807	268	65373924	65689645	1	None	RDGBB1, RDGBB, RDGB-BETA
9	None	ENSG00000239055	ENST00000459043	snoRNA	NOVEL	None	None	None	None	131511637	131511740	1	None	None
HSCHR6_MHC_QBL	OR2J4P	ENSG00000218297	ENST00000402067	unprocessed_pseudogene	KNOWN	None	8262	None	None	29149307	29150242	1	None	OR6-9, hs6M1-5, dJ80I19.5
1	None	ENSG00000226191	ENST00000427566	processed_pseudogene	KNOWN	None	None	None	None	248099363	248100815	-1	None	None
1	None	ENSG00000224863	ENST00000416581	lincRNA	KNOWN	None	None	None	None	46912345	46915376	-1	None	None
19	None	ENSG00000269752	ENST00000600512	antisense	KNOWN	None	None	None	None	17724531	17725239	1	None	None
11	None	ENSG00000201733	ENST00000364863	snoRNA	NOVEL	None	None	None	None	66200234	66200373	1	None	None
X	None	ENSG00000271094	ENST00000604390	processed_pseudogene	KNOWN	None	None	None	None	94708368	94708580	1	None	None
19	ZNF788	ENSG00000214189	ENST00000596096	processed_transcript	KNOWN	None	33112	None	None	12203078	12209029	1	None	FLJ46419
19	ZNF788	ENSG00000214189	ENST00000430298	protein_coding	PUTATIVE	None	33112	189	62	12203078	12225666	1	None	FLJ46419
19	ZNF788	ENSG00000214189	ENST00000595703	processed_transcript	KNOWN	None	33112	None	None	12203122	12208956	1	None	FLJ46419
19	ZNF788	ENSG00000214189	ENST00000601686	processed_transcript	KNOWN	None	33112	None	None	12203122	12248050	1	None	FLJ46419
19	ZNF788	ENSG00000214189	ENST00000397755	processed_transcript	KNOWN	None	33112	None	None	12203151	12211603	1	None	FLJ46419
19	ZNF788	ENSG00000214189	ENST00000596883	protein_coding	PUTATIVE	None	33112	249	82	12203196	12222475	1	None	FLJ46419
3	SHOX2	ENSG00000168779	ENST00000490689	protein_coding	KNOWN	None	10854	573	190	157814948	157823083	-1	None	SHOT, OG12X, OG12
3	SHOX2	ENSG00000168779	ENST00000425436	protein_coding	KNOWN	CCDS43164	10854	996	331	157814948	157823839	-1	None	SHOT, OG12X, OG12
3	SHOX2	ENSG00000168779	ENST00000389589	protein_coding	KNOWN	CCDS33884	10854	1068	355	157814948	157823949	-1	None	SHOT, OG12X, OG12
3	SHOX2	ENSG00000168779	ENST00000483851	protein_coding	KNOWN	CCDS54664	10854	960	319	157815459	157824292	-1	None	SHOT, OG12X, OG12
3	SHOX2	ENSG00000168779	ENST00000554685	processed_transcript	KNOWN	None	10854	None	None	157820465	157823949	-1	None	SHOT, OG12X, OG12
3	SHOX2	ENSG00000168779	ENST00000441443	protein_coding	KNOWN	None	10854	573	190	157815816	157823952	-1	None	SHOT, OG12X, OG12
12	None	ENSG00000256906	ENST00000535487	lincRNA	KNOWN	None	None	None	None	130554870	130557230	1	None	None
9	None	ENSG00000267834	ENST00000594418	lincRNA	KNOWN	None	None	None	None	131766781	131767277	-1	None	None
15	None	ENSG00000265866	ENST00000579958	miRNA	NOVEL	None	None	None	None	89515632	89515683	-1	None	None
1	None	ENSG00000227415	ENST00000411804	antisense	KNOWN	None	None	None	None	152346430	152417932	1	None	None
12	KCNJ8	ENSG00000121361	ENST00000240662	protein_coding	KNOWN	CCDS8692	6269	1275	424	21917889	21927755	-1	None	Kir6.1
12	KCNJ8	ENSG00000121361	ENST00000537950	protein_coding	KNOWN	None	6269	342	113	21926209	21928515	-1	None	Kir6.1
11	None	ENSG00000254596	ENST00000528671	processed_pseudogene	KNOWN	None	None	None	None	66221705	66222052	1	None	None
1	None	ENSG00000236439	ENST00000422457	processed_pseudogene	KNOWN	None	None	None	None	202440992	202441245	-1	None	None
1	None	ENSG00000236439	ENST00000537999	processed_pseudogene	KNOWN	None	None	None	None	202440937	202441258	-1	None	None
9	None	ENSG00000234055	ENST00000434250	antisense	KNOWN	None	None	None	None	131860133	131862545	1	None	None
19	None	ENSG00000268112	ENST00000595363	antisense	KNOWN	None	None	None	None	17838649	17845322	-1	None	None
15	None	ENSG00000261549	ENST00000565906	processed_pseudogene	KNOWN	None	None	None	None	89532750	89533476	-1	None	None
3	None	ENSG00000223587	ENST00000440867	lincRNA	KNOWN	None	None	None	None	65431	66175	1	None	None
7	ZNF394	ENSG00000160908	ENST00000462024	processed_transcript	KNOWN	None	18832	None	None	99084142	99096421	-1	None	ZKSCAN14, FLJ12298, ZSCAN46
7	ZNF394	ENSG00000160908	ENST00000337673	protein_coding	KNOWN	CCDS5666	18832	1686	561	99090863	99097920	-1	None	ZKSCAN14, FLJ12298, ZSCAN46
7	ZNF394	ENSG00000160908	ENST00000426306	protein_coding	PUTATIVE	None	18832	489	162	99090865	99097887	-1	None	ZKSCAN14, FLJ12298, ZSCAN46
7	ZNF394	ENSG00000160908	ENST00000394177	processed_transcript	KNOWN	None	18832	None	None	99092202	99097947	-1	None	ZKSCAN14, FLJ12298, ZSCAN46
7	ZNF394	ENSG00000160908	ENST00000481881	retained_intron	KNOWN	None	18832	None	None	99095485	99097898	-1	None	ZKSCAN14, FLJ12298, ZSCAN46
7	ZNF394	ENSG00000160908	ENST00000485576	retained_intron	KNOWN	None	18832	None	None	99096107	99097920	-1	None	ZKSCAN14, FLJ12298, ZSCAN46
7	ZNF394	ENSG00000160908	ENST00000464401	retained_intron	KNOWN	None	18832	None	None	99096208	99097327	-1	None	ZKSCAN14, FLJ12298, ZSCAN46
20	None	ENSG00000270408	ENST00000488480	processed_transcript	KNOWN	None	None	None	None	10625847	10627014	-1	None	None
1	HMGN3P1	ENSG00000183586	ENST00000453847	processed_pseudogene	KNOWN	None	39206	None	None	152372053	152372245	1	None	None
12	None	ENSG00000256987	ENST00000538830	processed_pseudogene	KNOWN	None	None	None	None	32106823	32108202	1	None	None
19	SNORA68	ENSG00000207166	ENST00000384437	snoRNA	KNOWN	None	10225	None	None	17973397	17973529	1	RNU68	U68
1	ATP1A4	ENSG00000132681	ENST00000368081	protein_coding	KNOWN	CCDS1197	14073	3090	1029	160121360	160156767	1	ATP1AL2	None
1	ATP1A4	ENSG00000132681	ENST00000477338	nonsense_mediated_decay	KNOWN	None	14073	1554	517	160121376	160156767	1	ATP1AL2	None
1	ATP1A4	ENSG00000132681	ENST00000469023	retained_intron	KNOWN	None	14073	None	None	160136318	160156767	1	ATP1AL2	None
1	ATP1A4	ENSG00000132681	ENST00000418334	processed_transcript	KNOWN	None	14073	None	None	160141194	160153218	1	ATP1AL2	None
1	ATP1A4	ENSG00000132681	ENST00000466526	processed_transcript	KNOWN	None	14073	None	None	160147196	160152604	1	ATP1AL2	None
1	ATP1A4	ENSG00000132681	ENST00000470705	protein_coding	KNOWN	CCDS44255	14073	498	165	160147201	160156767	1	ATP1AL2	None
HSCHR6_MHC_QBL	None	ENSG00000265549	ENST00000584994	miRNA	NOVEL	None	None	None	None	29169591	29169657	1	None	None
X	CALM1P1	ENSG00000223467	ENST00000442082	processed_pseudogene	KNOWN	None	1443	None	None	94754603	94755035	1	CALML1	None
13	RN7SL585P	ENSG00000242037	ENST00000470538	misc_RNA	KNOWN	None	46601	None	None	95351479	95351756	-1	None	None
10	PBLD	ENSG00000108187	ENST00000336578	protein_coding	KNOWN	None	23301	768	255	70042417	70056891	-1	None	MAWBP, MAWDBP, FLJ14767
10	PBLD	ENSG00000108187	ENST00000468798	processed_transcript	KNOWN	None	23301	None	None	70042821	70048720	-1	None	MAWBP, MAWDBP, FLJ14767
10	PBLD	ENSG00000108187	ENST00000309049	protein_coding	KNOWN	CCDS7277	23301	867	288	70042821	70092663	-1	None	MAWBP, MAWDBP, FLJ14767
10	PBLD	ENSG00000108187	ENST00000495025	processed_transcript	KNOWN	None	23301	None	None	70044838	70051936	-1	None	MAWBP, MAWDBP, FLJ14767
10	PBLD	ENSG00000108187	ENST00000277795	protein_coding	KNOWN	None	23301	417	138	70046784	70066636	-1	None	MAWBP, MAWDBP, FLJ14767
10	PBLD	ENSG00000108187	ENST00000478192	processed_transcript	KNOWN	None	23301	None	None	70055704	70066586	-1	None	MAWBP, MAWDBP, FLJ14767
10	PBLD	ENSG00000108187	ENST00000358769	protein_coding	KNOWN	CCDS7277	23301	867	288	70042417	70092684	-1	None	MAWBP, MAWDBP, FLJ14767
10	PBLD	ENSG00000108187	ENST00000432941	protein_coding	KNOWN	CCDS44413	23301	843	280	70044838	70092684	-1	None	MAWBP, MAWDBP, FLJ14767
HSCHR6_MHC_QBL	OR2H4P	ENSG00000235401	ENST00000444940	unprocessed_pseudogene	KNOWN	None	8255	None	None	29183059	29184002	1	None	OR6-3, OR2H4, hs6M1-7, dJ80I19.6
1	LINC00505	ENSG00000225667	ENST00000455247	lincRNA	KNOWN	None	43556	None	None	46921495	46948147	1	None	None
13	LINC00391	ENSG00000238230	ENST00000433569	lincRNA	KNOWN	None	42719	None	None	95351948	95355116	-1	None	None
3	None	ENSG00000224918	ENST00000426697	lincRNA	KNOWN	None	None	None	None	95031	96029	-1	None	None
1	None	ENSG00000226947	ENST00000422768	unprocessed_pseudogene	KNOWN	None	None	None	None	152616869	152617193	-1	None	None
1	None	ENSG00000253042	ENST00000517233	snoRNA	NOVEL	None	None	None	None	202496438	202496555	-1	None	None
1	OR2X1P	ENSG00000224830	ENST00000421144	unprocessed_pseudogene	KNOWN	None	31258	None	None	248102275	248102961	1	None	None
13	SOX21-AS1	ENSG00000227640	ENST00000438290	lincRNA	KNOWN	None	39807	None	None	95364970	95368500	1	None	None
1	MKNK1-AS1	ENSG00000269956	ENST00000602433	antisense	KNOWN	None	44129	None	None	47004368	47035927	1	None	None
7	MTND2P6	ENSG00000237309	ENST00000455337	unprocessed_pseudogene	KNOWN	None	42107	None	None	57254119	57255148	1	None	None
1	LINC00302	ENSG00000176075	ENST00000444515	lincRNA	KNOWN	None	31825	None	None	152627953	152629280	1	C1orf46, NCRNA00302	XP33
1	LINC00302	ENSG00000176075	ENST00000536536	lincRNA	KNOWN	None	31825	None	None	152627953	152629266	1	C1orf46, NCRNA00302	XP33
18	BNIP3P3	ENSG00000265631	ENST00000577336	processed_pseudogene	KNOWN	None	39656	None	None	15247428	15247996	-1	None	None
1	None	ENSG00000226862	ENST00000428573	antisense	KNOWN	None	None	None	None	202573396	202574421	1	None	None
6	SLC22A1	ENSG00000175003	ENST00000366963	protein_coding	KNOWN	CCDS5274	10963	1665	554	160542821	160579750	1	None	OCT1
6	SLC22A1	ENSG00000175003	ENST00000539263	nonsense_mediated_decay	KNOWN	None	10963	423	140	160542931	160579614	1	None	OCT1
6	SLC22A1	ENSG00000175003	ENST00000324965	protein_coding	PUTATIVE	CCDS5275	10963	1521	506	160542968	160579583	1	None	OCT1
6	SLC22A1	ENSG00000175003	ENST00000457470	protein_coding	PUTATIVE	None	10963	1452	483	160542968	160579614	1	None	OCT1
6	SLC22A1	ENSG00000175003	ENST00000460902	nonsense_mediated_decay	KNOWN	None	10963	1062	353	160542968	160579748	1	None	OCT1
6	SLC22A1	ENSG00000175003	ENST00000540443	protein_coding	PUTATIVE	None	10963	145	47	160550793	160555039	1	None	OCT1
6	SLC22A1	ENSG00000175003	ENST00000478607	retained_intron	KNOWN	None	10963	None	None	160576986	160579750	1	None	OCT1
1	OR2L9P	ENSG00000237492	ENST00000444456	unprocessed_pseudogene	KNOWN	None	15015	None	None	248138043	248138955	1	None	None
3	None	ENSG00000240063	ENST00000488882	antisense	KNOWN	None	None	None	None	182501024	182511182	-1	None	None
11	OR52H2P	ENSG00000248553	ENST00000514607	unprocessed_pseudogene	KNOWN	None	15219	None	None	5572892	5573793	-1	None	None
HSCHR6_MHC_QBL	OR2G1P	ENSG00000224392	ENST00000416604	unprocessed_pseudogene	KNOWN	None	8251	None	None	29197050	29197980	-1	None	OST619, hs6M1-25
2	None	ENSG00000269707	ENST00000598623	sense_overlapping	KNOWN	None	None	None	None	105469743	105542510	1	None	None
13	BRD7P5	ENSG00000235768	ENST00000299197	processed_pseudogene	KNOWN	None	37631	None	None	95409705	95411526	-1	None	None
11	None	ENSG00000255517	ENST00000527092	antisense	KNOWN	None	None	None	None	66240961	66247702	-1	None	None
11	None	ENSG00000255517	ENST00000602951	antisense	KNOWN	None	None	None	None	66241721	66242196	-1	None	None
11	None	ENSG00000255517	ENST00000533502	antisense	KNOWN	None	None	None	None	66241830	66247663	-1	None	None
11	None	ENSG00000255517	ENST00000527274	antisense	KNOWN	None	None	None	None	66244817	66247702	-1	None	None
11	None	ENSG00000255517	ENST00000525142	antisense	KNOWN	None	None	None	None	66245191	66247704	-1	None	None
2	None	ENSG00000239587	ENST00000454183	antisense	KNOWN	None	None	None	None	105481865	105483954	-1	None	None
10	RN7SL450P	ENSG00000263706	ENST00000584756	misc_RNA	KNOWN	None	46466	None	None	111764012	111764315	1	None	None
1	None	ENSG00000225620	ENST00000411431	lincRNA	KNOWN	None	None	None	None	202601556	202602039	1	None	None
6	ELOVL2	ENSG00000197977	ENST00000354666	protein_coding	KNOWN	CCDS4518	14416	891	296	10980992	11044547	-1	None	Ssc2
18	None	ENSG00000266818	ENST00000545779	unprocessed_pseudogene	KNOWN	None	None	None	None	15254417	15271743	1	None	None
14	IGHV4-59	ENSG00000224373	ENST00000455737	IG_V_gene	KNOWN	None	5654	381	126	107081806	107083725	-1	None	None
14	IGHV4-59	ENSG00000224373	ENST00000390629	IG_V_gene	KNOWN	None	5654	348	115	107083256	107083830	-1	None	None
1	OR2L1P	ENSG00000224227	ENST00000422727	unprocessed_pseudogene	KNOWN	None	8265	None	None	248153569	248154506	1	OR2L1, OR2L7P	HTPCRX02, HSHTPCRX02
10	SNRPGP12	ENSG00000226734	ENST00000449481	processed_pseudogene	KNOWN	None	39331	None	None	111898972	111899184	-1	None	None
22	APOBEC3C	ENSG00000244509	ENST00000361441	protein_coding	KNOWN	CCDS13983	17353	573	190	39410088	39414848	1	None	APOBEC1L, PBI, bK150C2.3, ARDC2, ARDC4, ARP5
22	APOBEC3C	ENSG00000244509	ENST00000428892	nonsense_mediated_decay	KNOWN	None	17353	186	61	39410267	39414931	1	None	APOBEC1L, PBI, bK150C2.3, ARDC2, ARDC4, ARP5
HSCHR6_MHC_QBL	OR12D1P	ENSG00000251547	ENST00000509546	unprocessed_pseudogene	KNOWN	None	8177	None	None	29384951	29385897	1	OR12D1P	hs6M1-19
1	None	ENSG00000235449	ENST00000430450	processed_pseudogene	KNOWN	None	None	None	None	202736357	202736546	-1	None	None
1	None	ENSG00000233647	ENST00000419476	processed_pseudogene	KNOWN	None	None	None	None	47131582	47132047	-1	None	None
1	OR2T2	ENSG00000196240	ENST00000342927	protein_coding	KNOWN	CCDS31116	14725	975	324	248616077	248617130	1	OR2T2P	None
13	RPL21P112	ENSG00000237924	ENST00000434403	processed_pseudogene	KNOWN	None	36526	None	None	95412807	95413269	-1	None	None
10	None	ENSG00000228417	ENST00000451656	antisense	KNOWN	None	None	None	None	111967608	111968349	-1	None	None
16	None	ENSG00000260874	ENST00000566085	lincRNA	KNOWN	None	None	None	None	2506253	2509967	-1	None	None
16	None	ENSG00000260874	ENST00000565827	lincRNA	KNOWN	None	None	None	None	2506836	2509980	-1	None	None
1	None	ENSG00000229713	ENST00000434793	unprocessed_pseudogene	KNOWN	None	None	None	None	152709994	152710344	1	None	None
7	EEF1A1P28	ENSG00000237709	ENST00000450915	processed_pseudogene	KNOWN	None	37902	None	None	88268328	88269730	1	None	None
1	None	ENSG00000199442	ENST00000362572	misc_RNA	NOVEL	None	None	None	None	248160302	248160398	1	None	None
2	None	ENSG00000229743	ENST00000433433	antisense	KNOWN	None	None	None	None	105481955	105488910	-1	None	None
2	None	ENSG00000229743	ENST00000434764	antisense	KNOWN	None	None	None	None	105486304	105489053	-1	None	None
1	None	ENSG00000233819	ENST00000424917	unprocessed_pseudogene	KNOWN	None	None	None	None	152716775	152717082	1	None	None
14	APOPT1	ENSG00000256053	ENST00000409074	protein_coding	KNOWN	CCDS9983	20492	621	206	104029299	104058524	1	C14orf153	MGC2562, APOP-1
14	APOPT1	ENSG00000256053	ENST00000440963	protein_coding	PUTATIVE	None	20492	357	118	104029302	104056841	1	C14orf153	MGC2562, APOP-1
14	APOPT1	ENSG00000256053	ENST00000458117	nonsense_mediated_decay	KNOWN	None	20492	362	119	104029316	104056864	1	C14orf153	MGC2562, APOP-1
14	APOPT1	ENSG00000256053	ENST00000554625	retained_intron	KNOWN	None	20492	None	None	104029319	104040549	1	C14orf153	MGC2562, APOP-1
14	APOPT1	ENSG00000256053	ENST00000556253	protein_coding	PUTATIVE	None	20492	534	177	104029324	104056721	1	C14orf153	MGC2562, APOP-1
14	APOPT1	ENSG00000256053	ENST00000489117	nonsense_mediated_decay	KNOWN	None	20492	219	72	104029390	104056697	1	C14orf153	MGC2562, APOP-1
14	APOPT1	ENSG00000256053	ENST00000495778	protein_coding	PUTATIVE	None	20492	327	108	104029414	104041069	1	C14orf153	MGC2562, APOP-1
14	APOPT1	ENSG00000256053	ENST00000492189	processed_transcript	KNOWN	None	20492	None	None	104029508	104056726	1	C14orf153	MGC2562, APOP-1
14	APOPT1	ENSG00000256053	ENST00000477116	processed_transcript	KNOWN	None	20492	None	None	104029510	104056863	1	C14orf153	MGC2562, APOP-1
14	APOPT1	ENSG00000256053	ENST00000473127	processed_transcript	KNOWN	None	20492	None	None	104029527	104056777	1	C14orf153	MGC2562, APOP-1
14	APOPT1	ENSG00000256053	ENST00000497901	processed_transcript	KNOWN	None	20492	None	None	104029628	104041069	1	C14orf153	MGC2562, APOP-1
14	APOPT1	ENSG00000256053	ENST00000476323	processed_transcript	KNOWN	None	20492	None	None	104029644	104056862	1	C14orf153	MGC2562, APOP-1
14	APOPT1	ENSG00000256053	ENST00000554876	processed_transcript	KNOWN	None	20492	None	None	104038005	104053701	1	C14orf153	MGC2562, APOP-1
14	APOPT1	ENSG00000256053	ENST00000555660	nonsense_mediated_decay	KNOWN	None	20492	172	56	104038091	104056571	1	C14orf153	MGC2562, APOP-1
14	APOPT1	ENSG00000256053	ENST00000474271	processed_transcript	KNOWN	None	20492	None	None	104038093	104073860	1	C14orf153	MGC2562, APOP-1
14	APOPT1	ENSG00000256053	ENST00000557079	processed_transcript	PUTATIVE	None	20492	None	None	104054339	104056957	1	C14orf153	MGC2562, APOP-1
14	APOPT1	ENSG00000256053	ENST00000247618	protein_coding	KNOWN	None	20492	582	193	104029331	104058508	1	C14orf153	MGC2562, APOP-1
9	None	ENSG00000236717	ENST00000415471	lincRNA	KNOWN	None	None	None	None	94912664	94919727	-1	None	None
1	OR2L6P	ENSG00000232215	ENST00000416377	unprocessed_pseudogene	KNOWN	None	15012	None	None	248166431	248167370	1	None	None
12	RNA5SP372	ENSG00000212138	ENST00000390836	rRNA	KNOWN	None	43272	None	None	109497791	109497905	1	RN5S372	None
7	None	ENSG00000211518	ENST00000390184	miRNA	NOVEL	None	None	None	None	88269835	88269941	1	None	None
2	SULT1C2	ENSG00000198203	ENST00000251481	protein_coding	KNOWN	CCDS2075	11456	891	296	108905095	108926371	1	SULT1C1	ST1C1
2	SULT1C2	ENSG00000198203	ENST00000326853	protein_coding	KNOWN	CCDS2076	11456	924	307	108905095	108926371	1	SULT1C1	ST1C1
2	SULT1C2	ENSG00000198203	ENST00000438339	protein_coding	NOVEL	None	11456	390	129	108905362	108921106	1	SULT1C1	ST1C1
2	SULT1C2	ENSG00000198203	ENST00000409880	protein_coding	NOVEL	None	11456	780	259	108905371	108925169	1	SULT1C1	ST1C1
2	SULT1C2	ENSG00000198203	ENST00000437390	protein_coding	NOVEL	None	11456	933	310	108905371	108925169	1	SULT1C1	ST1C1
2	SULT1C2	ENSG00000198203	ENST00000442801	nonsense_mediated_decay	KNOWN	None	11456	349	115	108910132	108925007	1	SULT1C1	ST1C1
2	SULT1C2	ENSG00000198203	ENST00000409067	protein_coding	NOVEL	None	11456	679	225	108910135	108925149	1	SULT1C1	ST1C1
2	SULT1C2	ENSG00000198203	ENST00000492554	processed_transcript	KNOWN	None	11456	None	None	108910143	108910719	1	SULT1C1	ST1C1
2	SULT1C2	ENSG00000198203	ENST00000495441	retained_intron	KNOWN	None	11456	None	None	108915429	108925169	1	SULT1C1	ST1C1
10	None	ENSG00000214067	ENST00000397433	processed_pseudogene	KNOWN	None	None	None	None	112016822	112017601	1	None	None
HSCHR6_MHC_QBL	OR5V1	ENSG00000240130	ENST00000453123	processed_transcript	KNOWN	None	13972	None	None	29390278	29399635	-1	None	hs6M1-21
14	None	ENSG00000270163	ENST00000602485	lincRNA	KNOWN	None	None	None	None	57266623	57267306	-1	None	None
1	None	ENSG00000224308	ENST00000419578	antisense	KNOWN	None	None	None	None	152902516	152921686	-1	None	None
4	None	ENSG00000250410	ENST00000514884	antisense	KNOWN	None	None	None	None	186291879	186312082	1	None	None
1	EFCAB14-AS1	ENSG00000228237	ENST00000442839	antisense	KNOWN	None	44108	None	None	47139708	47157770	1	KIAA0494-AS1	None
1	EFCAB14-AS1	ENSG00000228237	ENST00000418985	antisense	KNOWN	None	44108	None	None	47139800	47157769	1	KIAA0494-AS1	None
7	None	ENSG00000233420	ENST00000444032	processed_transcript	KNOWN	None	None	None	None	88339945	88386039	1	None	None
1	SLC25A39P1	ENSG00000226148	ENST00000444461	processed_pseudogene	KNOWN	None	43859	None	None	202765158	202766222	1	None	None
1	None	ENSG00000200085	ENST00000363215	misc_RNA	NOVEL	None	None	None	None	248192422	248192523	1	None	None
1	PANK4	ENSG00000157881	ENST00000378466	protein_coding	KNOWN	CCDS42	19366	2322	773	2439972	2458039	-1	None	FLJ10782
1	PANK4	ENSG00000157881	ENST00000435556	protein_coding	NOVEL	None	19366	2205	734	2439976	2458035	-1	None	FLJ10782
1	PANK4	ENSG00000157881	ENST00000505228	nonsense_mediated_decay	KNOWN	None	19366	1421	472	2440234	2452340	-1	None	FLJ10782
1	PANK4	ENSG00000157881	ENST00000502512	nonsense_mediated_decay	KNOWN	None	19366	411	136	2441232	2445842	-1	None	FLJ10782
1	PANK4	ENSG00000157881	ENST00000471361	retained_intron	KNOWN	None	19366	None	None	2441732	2444452	-1	None	FLJ10782
1	PANK4	ENSG00000157881	ENST00000487804	retained_intron	KNOWN	None	19366	None	None	2443845	2445524	-1	None	FLJ10782
1	PANK4	ENSG00000157881	ENST00000515423	retained_intron	KNOWN	None	19366	None	None	2445852	2447376	-1	None	FLJ10782
1	PANK4	ENSG00000157881	ENST00000468002	nonsense_mediated_decay	KNOWN	None	19366	573	190	2445872	2450734	-1	None	FLJ10782
1	PANK4	ENSG00000157881	ENST00000486396	nonsense_mediated_decay	KNOWN	None	19366	126	41	2450643	2458014	-1	None	FLJ10782
1	PANK4	ENSG00000157881	ENST00000502770	nonsense_mediated_decay	KNOWN	None	19366	456	151	2452279	2458035	-1	None	FLJ10782
1	PANK4	ENSG00000157881	ENST00000491212	processed_transcript	KNOWN	None	19366	None	None	2452700	2457626	-1	None	FLJ10782
1	PANK4	ENSG00000157881	ENST00000514922	retained_intron	KNOWN	None	19366	None	None	2452806	2458036	-1	None	FLJ10782
13	LINC00557	ENSG00000260962	ENST00000563184	lincRNA	KNOWN	None	43701	None	None	95612295	95613573	1	None	None
2	OR7E90P	ENSG00000188668	ENST00000454836	unprocessed_pseudogene	KNOWN	None	14733	None	None	159731154	159732182	1	OR7E123P	OST705
HSCHR6_MHC_QBL	UBDP1	ENSG00000224044	ENST00000413046	unprocessed_pseudogene	KNOWN	None	18796	None	None	29432261	29437471	-1	None	dJ994E9.3
7	None	ENSG00000231840	ENST00000427392	antisense	KNOWN	None	None	None	None	142952357	142983756	-1	None	None
7	None	ENSG00000231840	ENST00000446192	antisense	KNOWN	None	None	None	None	142982813	142984473	-1	None	None
1	None	ENSG00000200982	ENST00000364112	misc_RNA	NOVEL	None	None	None	None	248209090	248209191	1	None	None
3	LRRC31	ENSG00000114248	ENST00000316428	protein_coding	KNOWN	CCDS43167	26261	1659	552	169556967	169587653	-1	None	FLJ23259
3	LRRC31	ENSG00000114248	ENST00000264676	protein_coding	KNOWN	None	26261	1491	496	169557029	169587718	-1	None	FLJ23259
3	LRRC31	ENSG00000114248	ENST00000523069	protein_coding	PUTATIVE	None	26261	1332	443	169557759	169587621	-1	None	FLJ23259
3	LRRC31	ENSG00000114248	ENST00000397805	processed_transcript	KNOWN	None	26261	None	None	169571011	169587662	-1	None	FLJ23259
8	None	ENSG00000238624	ENST00000459268	snoRNA	NOVEL	None	None	None	None	27612549	27612639	-1	None	None
13	RNU6-62P	ENSG00000252335	ENST00000516526	snRNA	KNOWN	None	42552	None	None	95671489	95671590	1	RNU6-62	None
4	None	ENSG00000207231	ENST00000384502	misc_RNA	NOVEL	None	None	None	None	186337127	186337240	-1	None	None
9	BEND3P2	ENSG00000224809	ENST00000414425	processed_pseudogene	KNOWN	None	45015	None	None	94933523	94935776	1	None	None
5	EIF3KP1	ENSG00000175749	ENST00000513279	processed_pseudogene	KNOWN	None	44016	None	None	102368080	102368735	1	None	None
2	None	ENSG00000224509	ENST00000456519	antisense	KNOWN	None	None	None	None	105552869	105654954	-1	None	None
1	None	ENSG00000252920	ENST00000517111	snoRNA	NOVEL	None	None	None	None	152984958	152985090	-1	None	None
X	None	ENSG00000263377	ENST00000584172	miRNA	NOVEL	None	None	None	None	139486264	139486355	-1	None	None
2	RNU2-21P	ENSG00000222300	ENST00000410368	snRNA	KNOWN	None	48514	None	None	159792310	159792497	-1	None	None
13	None	ENSG00000238463	ENST00000459449	snoRNA	NOVEL	None	None	None	None	95862598	95862702	1	None	None
13	None	ENSG00000225039	ENST00000420694	lincRNA	KNOWN	None	None	None	None	30993656	30996374	-1	None	None
1	OR2T32P	ENSG00000197067	ENST00000403423	unprocessed_pseudogene	KNOWN	None	31254	None	None	248246936	248247898	-1	None	None
1	OR2T32P	ENSG00000197067	ENST00000356294	pseudogene	KNOWN	None	31254	None	None	248246965	248247898	-1	None	None
12	None	ENSG00000256139	ENST00000541704	sense_overlapping	KNOWN	None	None	None	None	109549023	109563399	1	None	None
4	None	ENSG00000233110	ENST00000411847	antisense	KNOWN	None	None	None	None	186509063	186515157	1	None	None
8	RNU6-1276P	ENSG00000202242	ENST00000365372	snRNA	KNOWN	None	48239	None	None	27631162	27631265	1	None	None
7	None	ENSG00000227979	ENST00000421305	processed_pseudogene	KNOWN	None	None	None	None	88378784	88379008	1	None	None
1	None	ENSG00000234262	ENST00000429623	unprocessed_pseudogene	KNOWN	None	None	None	None	152996438	152996736	1	None	None
1	None	ENSG00000260021	ENST00000564127	antisense	KNOWN	None	None	None	None	202779366	202779957	-1	None	None
HSCHR6_MHC_APD	VWA7	ENSG00000238203	ENST00000452329	protein_coding	KNOWN	None	13939	2676	891	31744721	31756424	-1	C6orf27	G7c, NG37
HSCHR6_MHC_APD	VWA7	ENSG00000238203	ENST00000489431	retained_intron	KNOWN	None	13939	None	None	31745168	31746818	-1	C6orf27	G7c, NG37
HSCHR6_MHC_APD	VWA7	ENSG00000238203	ENST00000480986	processed_transcript	KNOWN	None	13939	None	None	31745420	31756402	-1	C6orf27	G7c, NG37
HSCHR6_MHC_APD	VWA7	ENSG00000238203	ENST00000498561	processed_transcript	KNOWN	None	13939	None	None	31750401	31752137	-1	C6orf27	G7c, NG37
HSCHR6_MHC_APD	VWA7	ENSG00000238203	ENST00000474347	processed_transcript	PUTATIVE	None	13939	None	None	31755189	31756049	-1	C6orf27	G7c, NG37
HSCHR6_MHC_APD	VWA7	ENSG00000238203	ENST00000551851	protein_coding	KNOWN	None	13939	2559	852	31744725	31756461	-1	C6orf27	G7c, NG37
HSCHR6_MHC_APD	VWA7	ENSG00000238203	ENST00000547336	protein_coding	KNOWN	None	13939	2067	688	31745691	31756461	-1	C6orf27	G7c, NG37
13	RNY3P8	ENSG00000223298	ENST00000411366	misc_RNA	KNOWN	None	42492	None	None	95963084	95963209	-1	None	None
2	FAM84A	ENSG00000162981	ENST00000295092	protein_coding	KNOWN	CCDS1684	20743	879	292	14772810	14780170	1	None	NSE1, FLJ35392
2	FAM84A	ENSG00000162981	ENST00000331243	protein_coding	KNOWN	CCDS1684	20743	879	292	14772824	14777351	1	None	NSE1, FLJ35392
2	FAM84A	ENSG00000162981	ENST00000497769	processed_transcript	KNOWN	None	20743	None	None	14775215	14790933	1	None	NSE1, FLJ35392
2	FAM84A	ENSG00000162981	ENST00000464947	processed_transcript	KNOWN	None	20743	None	None	14775620	14789765	1	None	NSE1, FLJ35392
7	ATG9B	ENSG00000181652	ENST00000498521	processed_transcript	KNOWN	None	21899	None	None	150709297	150709873	-1	NOS3AS	FLJ14885, APG9L2, SONE
7	ATG9B	ENSG00000181652	ENST00000494791	processed_transcript	KNOWN	None	21899	None	None	150709302	150721586	-1	NOS3AS	FLJ14885, APG9L2, SONE
7	ATG9B	ENSG00000181652	ENST00000486407	processed_transcript	KNOWN	None	21899	None	None	150710326	150721552	-1	NOS3AS	FLJ14885, APG9L2, SONE
7	ATG9B	ENSG00000181652	ENST00000404733	retained_intron	KNOWN	None	21899	None	None	150710383	150711392	-1	NOS3AS	FLJ14885, APG9L2, SONE
7	ATG9B	ENSG00000181652	ENST00000476282	processed_transcript	KNOWN	None	21899	None	None	150710942	150712677	-1	NOS3AS	FLJ14885, APG9L2, SONE
7	ATG9B	ENSG00000181652	ENST00000471797	retained_intron	KNOWN	None	21899	None	None	150711959	150713084	-1	NOS3AS	FLJ14885, APG9L2, SONE
7	ATG9B	ENSG00000181652	ENST00000464855	processed_transcript	KNOWN	None	21899	None	None	150712260	150715888	-1	NOS3AS	FLJ14885, APG9L2, SONE
7	ATG9B	ENSG00000181652	ENST00000469530	retained_intron	KNOWN	None	21899	None	None	150712270	150713608	-1	NOS3AS	FLJ14885, APG9L2, SONE
7	ATG9B	ENSG00000181652	ENST00000473698	processed_transcript	KNOWN	None	21899	None	None	150712297	150720307	-1	NOS3AS	FLJ14885, APG9L2, SONE
7	ATG9B	ENSG00000181652	ENST00000473409	processed_transcript	KNOWN	None	21899	None	None	150716924	150721586	-1	NOS3AS	FLJ14885, APG9L2, SONE
7	ATG9B	ENSG00000181652	ENST00000473134	retained_intron	KNOWN	None	21899	None	None	150718005	150720603	-1	NOS3AS	FLJ14885, APG9L2, SONE
7	ATG9B	ENSG00000181652	ENST00000466157	processed_transcript	KNOWN	None	21899	None	None	150718238	150721581	-1	NOS3AS	FLJ14885, APG9L2, SONE
7	ATG9B	ENSG00000181652	ENST00000377974	protein_coding	KNOWN	None	21899	2772	923	150709335	150721586	-1	NOS3AS	FLJ14885, APG9L2, SONE
7	ATG9B	ENSG00000181652	ENST00000444312	protein_coding	KNOWN	None	21899	1230	409	150709335	150721586	-1	NOS3AS	FLJ14885, APG9L2, SONE
7	ATG9B	ENSG00000181652	ENST00000605938	protein_coding	KNOWN	None	21899	2346	781	150709335	150721586	-1	NOS3AS	FLJ14885, APG9L2, SONE
7	ATG9B	ENSG00000181652	ENST00000605952	protein_coding	KNOWN	None	21899	1023	340	150717375	150721586	-1	NOS3AS	FLJ14885, APG9L2, SONE
X	RNA5SP510	ENSG00000201567	ENST00000364697	rRNA	KNOWN	None	43410	None	None	94837063	94837161	1	RN5S510	None
9	None	ENSG00000236115	ENST00000457003	antisense	KNOWN	None	None	None	None	94967638	94972440	1	None	None
2	BTF3L4P2	ENSG00000213189	ENST00000392798	processed_pseudogene	KNOWN	None	39646	None	None	159860487	159860832	1	None	None
2	BTF3L4P2	ENSG00000213189	ENST00000392326	processed_pseudogene	KNOWN	None	39646	None	None	159860287	159861065	1	None	None
2	None	ENSG00000263685	ENST00000579548	miRNA	NOVEL	None	None	None	None	105609360	105609438	-1	None	None
1	None	ENSG00000236476	ENST00000419949	processed_pseudogene	KNOWN	None	None	None	None	47208001	47208805	1	None	None
13	UBE2L5P	ENSG00000236444	ENST00000436446	processed_pseudogene	KNOWN	None	13477	None	None	31002128	31002592	1	UBE2L5	None
13	UBE2L5P	ENSG00000236444	ENST00000538122	processed_pseudogene	KNOWN	None	13477	None	None	31002084	31002656	1	UBE2L5	None
X	RPS17P17	ENSG00000225758	ENST00000419392	processed_pseudogene	KNOWN	None	35647	None	None	139553031	139553439	-1	None	None
13	RNY4P27	ENSG00000200211	ENST00000363341	misc_RNA	KNOWN	None	42495	None	None	95988360	95988455	-1	None	None
3	None	ENSG00000240752	ENST00000474387	processed_pseudogene	KNOWN	None	None	None	None	78808124	78808524	1	None	None
HSCHR6_MHC_QBL	MAS1LP1	ENSG00000227859	ENST00000430009	unprocessed_pseudogene	KNOWN	None	33448	None	None	29442690	29443736	-1	MAS1LP	OTTHUMG00000086553
X	None	ENSG00000215085	ENST00000431854	processed_pseudogene	KNOWN	None	None	None	None	94839302	94839941	1	None	None
11	NAV2-AS3	ENSG00000254542	ENST00000534036	antisense	KNOWN	None	40742	None	None	20000245	20002883	-1	None	None
1	SPRR2C	ENSG00000229035	ENST00000290702	unprocessed_pseudogene	KNOWN	None	11263	None	None	153112967	153113185	-1	None	None
3	CHL1-AS2	ENSG00000224318	ENST00000451839	retained_intron	KNOWN	None	40147	None	None	237441	238542	-1	None	None
3	CHL1-AS2	ENSG00000224318	ENST00000444879	antisense	KNOWN	None	40147	None	None	237441	238882	-1	None	None
3	CHL1-AS2	ENSG00000224318	ENST00000452919	antisense	KNOWN	None	40147	None	None	237441	239024	-1	None	None
HG104_HG975_PATCH	GPAA1	ENSG00000260226	ENST00000562147	nonsense_mediated_decay	KNOWN	None	4446	477	158	145164762	145166502	1	None	GAA1, hGAA1
HG104_HG975_PATCH	GPAA1	ENSG00000260226	ENST00000566830	processed_transcript	KNOWN	None	4446	None	None	145164764	145165921	1	None	GAA1, hGAA1
HG104_HG975_PATCH	GPAA1	ENSG00000260226	ENST00000564504	protein_coding	KNOWN	None	4446	1866	621	145164782	145168388	1	None	GAA1, hGAA1
HG104_HG975_PATCH	GPAA1	ENSG00000260226	ENST00000565405	protein_coding	PUTATIVE	None	4446	795	264	145164786	145166782	1	None	GAA1, hGAA1
HG104_HG975_PATCH	GPAA1	ENSG00000260226	ENST00000564097	retained_intron	KNOWN	None	4446	None	None	145164794	145166446	1	None	GAA1, hGAA1
HG104_HG975_PATCH	GPAA1	ENSG00000260226	ENST00000565607	nonsense_mediated_decay	KNOWN	None	4446	297	98	145164798	145166757	1	None	GAA1, hGAA1
HG104_HG975_PATCH	GPAA1	ENSG00000260226	ENST00000562454	protein_coding	KNOWN	None	4446	1686	561	145164840	145168388	1	None	GAA1, hGAA1
HG104_HG975_PATCH	GPAA1	ENSG00000260226	ENST00000567546	protein_coding	PUTATIVE	None	4446	780	259	145164858	145166511	1	None	GAA1, hGAA1
HG104_HG975_PATCH	GPAA1	ENSG00000260226	ENST00000568802	nonsense_mediated_decay	KNOWN	None	4446	705	234	145164860	145166691	1	None	GAA1, hGAA1
HG104_HG975_PATCH	GPAA1	ENSG00000260226	ENST00000564877	protein_coding	PUTATIVE	None	4446	243	80	145165077	145165909	1	None	GAA1, hGAA1
HG104_HG975_PATCH	GPAA1	ENSG00000260226	ENST00000562252	processed_transcript	KNOWN	None	4446	None	None	145165387	145166967	1	None	GAA1, hGAA1
HG104_HG975_PATCH	GPAA1	ENSG00000260226	ENST00000561984	retained_intron	KNOWN	None	4446	None	None	145165425	145166497	1	None	GAA1, hGAA1
HG104_HG975_PATCH	GPAA1	ENSG00000260226	ENST00000565059	processed_transcript	KNOWN	None	4446	None	None	145166161	145167021	1	None	GAA1, hGAA1
HG104_HG975_PATCH	GPAA1	ENSG00000260226	ENST00000565369	retained_intron	KNOWN	None	4446	None	None	145166300	145167267	1	None	GAA1, hGAA1
HG104_HG975_PATCH	GPAA1	ENSG00000260226	ENST00000562326	retained_intron	KNOWN	None	4446	None	None	145166363	145168357	1	None	GAA1, hGAA1
HG104_HG975_PATCH	GPAA1	ENSG00000260226	ENST00000568713	retained_intron	KNOWN	None	4446	None	None	145166909	145167618	1	None	GAA1, hGAA1
HG104_HG975_PATCH	GPAA1	ENSG00000260226	ENST00000566238	retained_intron	KNOWN	None	4446	None	None	145166965	145168355	1	None	GAA1, hGAA1
HG104_HG975_PATCH	GPAA1	ENSG00000260226	ENST00000562013	retained_intron	KNOWN	None	4446	None	None	145167024	145168356	1	None	GAA1, hGAA1
1	PCAT6	ENSG00000228288	ENST00000553157	antisense	KNOWN	None	43714	None	None	202780082	202781284	1	KDM5B-AS1	ncRNA-a2, PCAN-R1
1	PCAT6	ENSG00000228288	ENST00000417262	antisense	KNOWN	None	43714	None	None	202780090	202781041	1	KDM5B-AS1	ncRNA-a2, PCAN-R1
1	PCAT6	ENSG00000228288	ENST00000425295	antisense	KNOWN	None	43714	None	None	202780090	202781041	1	KDM5B-AS1	ncRNA-a2, PCAN-R1
22	LGALS1	ENSG00000100097	ENST00000215909	protein_coding	KNOWN	CCDS13954	6561	408	135	38071615	38075813	1	None	GBP
22	LGALS1	ENSG00000100097	ENST00000464120	retained_intron	KNOWN	None	6561	None	None	38071659	38073235	1	None	GBP
22	LGALS1	ENSG00000100097	ENST00000425542	nonsense_mediated_decay	KNOWN	None	6561	210	69	38071664	38075809	1	None	GBP
22	LGALS1	ENSG00000100097	ENST00000480207	processed_transcript	KNOWN	None	6561	None	None	38071689	38073603	1	None	GBP
22	LGALS1	ENSG00000100097	ENST00000454173	nonsense_mediated_decay	KNOWN	None	6561	117	38	38071695	38075647	1	None	GBP
22	LGALS1	ENSG00000100097	ENST00000489315	processed_transcript	KNOWN	None	6561	None	None	38072132	38075809	1	None	GBP
22	LGALS1	ENSG00000100097	ENST00000472321	retained_intron	KNOWN	None	6561	None	None	38073006	38075809	1	None	GBP
13	None	ENSG00000271492	ENST00000604810	processed_pseudogene	KNOWN	None	None	None	None	96046303	96046708	1	None	None
12	None	ENSG00000257094	ENST00000534895	processed_pseudogene	KNOWN	None	None	None	None	32160061	32160369	1	None	None
2	None	ENSG00000231851	ENST00000432211	antisense	KNOWN	None	None	None	None	105713510	105715095	-1	None	None
2	None	ENSG00000231851	ENST00000449177	antisense	KNOWN	None	None	None	None	105713518	105719402	-1	None	None
20	None	ENSG00000270792	ENST00000605292	antisense	KNOWN	None	None	None	None	10653576	10972290	1	None	None
20	None	ENSG00000270792	ENST00000603462	antisense	KNOWN	None	None	None	None	10882932	10895183	1	None	None
20	None	ENSG00000270792	ENST00000603180	antisense	KNOWN	None	None	None	None	10967323	10972583	1	None	None
20	None	ENSG00000270792	ENST00000603985	antisense	KNOWN	None	None	None	None	10967323	10975572	1	None	None
1	None	ENSG00000229699	ENST00000427145	lincRNA	KNOWN	None	None	None	None	153146994	153164152	1	None	None
11	NAV2-AS2	ENSG00000254453	ENST00000533767	antisense	KNOWN	None	40743	None	None	20065392	20070849	-1	None	None
HSCHR6_MHC_QBL	RPS17P1	ENSG00000229439	ENST00000429177	processed_pseudogene	KNOWN	None	13982	None	None	29456937	29457342	-1	None	RPS17p, dJ994E9.1
HSCHR6_MHC_QBL	RPS17P1	ENSG00000229439	ENST00000551810	pseudogene	KNOWN	None	13982	None	None	29456937	29457300	-1	None	RPS17p, dJ994E9.1
16	None	ENSG00000259895	ENST00000563775	antisense	KNOWN	None	None	None	None	2514951	2518214	-1	None	None
2	RNU6-580P	ENSG00000202029	ENST00000365159	snRNA	KNOWN	None	47543	None	None	159883548	159883654	-1	None	None
3	RN7SL751P	ENSG00000240964	ENST00000473281	misc_RNA	KNOWN	None	46767	None	None	78987155	78987442	-1	None	None
4	None	ENSG00000235902	ENST00000447277	antisense	KNOWN	None	None	None	None	186587039	186596571	1	None	None
4	UGT2A1	ENSG00000173610	ENST00000503640	protein_coding	KNOWN	CCDS3529	12542	1584	527	70454135	70513418	-1	None	None
4	UGT2A1	ENSG00000173610	ENST00000512704	protein_coding	NOVEL	None	12542	1452	483	70454140	70513479	-1	None	None
4	UGT2A1	ENSG00000173610	ENST00000286604	protein_coding	NOVEL	CCDS58901	12542	1584	527	70455090	70518965	-1	None	None
4	UGT2A1	ENSG00000173610	ENST00000502343	processed_transcript	KNOWN	None	12542	None	None	70455325	70469331	-1	None	None
4	UGT2A1	ENSG00000173610	ENST00000514341	retained_intron	KNOWN	None	12542	None	None	70462035	70465479	-1	None	None
4	UGT2A1	ENSG00000173610	ENST00000505512	protein_coding	KNOWN	None	12542	475	157	70512888	70518965	-1	None	None
3	None	ENSG00000252085	ENST00000516276	misc_RNA	NOVEL	None	None	None	None	15278507	15278600	-1	None	None
3	MIR3923	ENSG00000265193	ENST00000579521	miRNA	KNOWN	None	38978	None	None	79557037	79557119	1	None	hsa-mir-3923
8	CHMP4C	ENSG00000164695	ENST00000297265	protein_coding	KNOWN	CCDS6233	30599	702	233	82644669	82671750	1	None	MGC22825, Shax3, VPS32C
2	GSTM3P2	ENSG00000226878	ENST00000412746	processed_pseudogene	KNOWN	None	38006	None	None	159912606	159913371	-1	None	None
1	CYP4Z2P	ENSG00000154198	ENST00000505841	processed_transcript	KNOWN	None	24426	None	None	47308767	47366109	-1	None	FLJ40054
1	CYP4Z2P	ENSG00000154198	ENST00000423332	transcribed_unprocessed_pseudogene	KNOWN	None	24426	None	None	47308850	47366106	-1	None	FLJ40054
4	None	ENSG00000207497	ENST00000384766	misc_RNA	NOVEL	None	None	None	None	186631027	186631121	-1	None	None
13	CLDN10-AS1	ENSG00000223392	ENST00000416909	antisense	KNOWN	None	39907	None	None	96131698	96186164	-1	None	None
3	None	ENSG00000270554	ENST00000604149	processed_pseudogene	KNOWN	None	None	None	None	182561309	182562407	-1	None	None
1	OR2M1P	ENSG00000177233	ENST00000318104	unprocessed_pseudogene	KNOWN	None	8267	None	None	248285234	248286184	1	OR2M1	OST037
1	OR2T3	ENSG00000196539	ENST00000359594	protein_coding	KNOWN	CCDS31117	14727	957	318	248636627	248637634	1	None	None
12	None	ENSG00000257852	ENST00000547280	processed_pseudogene	KNOWN	None	None	None	None	32225668	32225814	1	None	None
15	None	ENSG00000221318	ENST00000408391	miRNA	NOVEL	None	None	None	None	32737916	32737998	-1	None	None
1	None	ENSG00000230779	ENST00000445179	processed_pseudogene	KNOWN	None	None	None	None	153197556	153198482	1	None	None
4	None	ENSG00000235149	ENST00000456728	lincRNA	KNOWN	None	None	None	None	186839294	186840614	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000232902	ENST00000453896	processed_transcript	KNOWN	None	None	None	None	29465175	29478221	1	None	None
8	NSMCE2	ENSG00000156831	ENST00000523741	protein_coding	KNOWN	None	26513	418	138	126103921	126194498	1	C8orf36	FLJ32440, MMS21, NSE2, ZMIZ7
8	NSMCE2	ENSG00000156831	ENST00000520866	retained_intron	KNOWN	None	26513	None	None	126104086	126194614	1	C8orf36	FLJ32440, MMS21, NSE2, ZMIZ7
8	NSMCE2	ENSG00000156831	ENST00000519010	retained_intron	KNOWN	None	26513	None	None	126104086	126194761	1	C8orf36	FLJ32440, MMS21, NSE2, ZMIZ7
8	NSMCE2	ENSG00000156831	ENST00000517532	protein_coding	KNOWN	None	26513	579	192	126104086	126370013	1	C8orf36	FLJ32440, MMS21, NSE2, ZMIZ7
8	NSMCE2	ENSG00000156831	ENST00000287437	protein_coding	KNOWN	CCDS6356	26513	744	247	126104095	126379362	1	C8orf36	FLJ32440, MMS21, NSE2, ZMIZ7
8	NSMCE2	ENSG00000156831	ENST00000518013	protein_coding	KNOWN	None	26513	134	43	126104106	126114706	1	C8orf36	FLJ32440, MMS21, NSE2, ZMIZ7
8	NSMCE2	ENSG00000156831	ENST00000523824	retained_intron	KNOWN	None	26513	None	None	126104112	126163611	1	C8orf36	FLJ32440, MMS21, NSE2, ZMIZ7
8	NSMCE2	ENSG00000156831	ENST00000522563	protein_coding	KNOWN	CCDS6356	26513	744	247	126104112	126379317	1	C8orf36	FLJ32440, MMS21, NSE2, ZMIZ7
8	NSMCE2	ENSG00000156831	ENST00000518146	nonsense_mediated_decay	KNOWN	None	26513	243	80	126104121	126194513	1	C8orf36	FLJ32440, MMS21, NSE2, ZMIZ7
8	NSMCE2	ENSG00000156831	ENST00000523549	retained_intron	KNOWN	None	26513	None	None	126114561	126168514	1	C8orf36	FLJ32440, MMS21, NSE2, ZMIZ7
8	NSMCE2	ENSG00000156831	ENST00000519712	nonsense_mediated_decay	KNOWN	None	26513	285	94	126114600	126194672	1	C8orf36	FLJ32440, MMS21, NSE2, ZMIZ7
8	NSMCE2	ENSG00000156831	ENST00000517315	protein_coding	PUTATIVE	None	26513	564	187	126136386	126379360	1	C8orf36	FLJ32440, MMS21, NSE2, ZMIZ7
8	NSMCE2	ENSG00000156831	ENST00000521460	processed_transcript	KNOWN	None	26513	None	None	126375268	126379358	1	C8orf36	FLJ32440, MMS21, NSE2, ZMIZ7
18	PMAIP1	ENSG00000141682	ENST00000316660	protein_coding	KNOWN	CCDS11975	9108	165	54	57567180	57571538	1	None	APR, NOXA
18	PMAIP1	ENSG00000141682	ENST00000269518	protein_coding	NOVEL	None	9108	411	136	57567248	57570769	1	None	APR, NOXA
18	PMAIP1	ENSG00000141682	ENST00000590596	retained_intron	KNOWN	None	9108	None	None	57567268	57570195	1	None	APR, NOXA
17	YPEL2	ENSG00000175155	ENST00000581865	processed_transcript	KNOWN	None	18326	None	None	57409050	57474652	1	None	FKSG4
17	YPEL2	ENSG00000175155	ENST00000312655	protein_coding	KNOWN	CCDS32695	18326	360	119	57409063	57479090	1	None	FKSG4
17	YPEL2	ENSG00000175155	ENST00000582192	retained_intron	KNOWN	None	18326	None	None	57409082	57433664	1	None	FKSG4
17	YPEL2	ENSG00000175155	ENST00000585166	protein_coding	KNOWN	CCDS32695	18326	360	119	57422517	57474737	1	None	FKSG4
17	YPEL2	ENSG00000175155	ENST00000582813	retained_intron	KNOWN	None	18326	None	None	57466201	57474510	1	None	FKSG4
2	None	ENSG00000223642	ENST00000420020	antisense	KNOWN	None	None	None	None	160242878	160261143	1	None	None
2	None	ENSG00000223642	ENST00000594921	antisense	KNOWN	None	None	None	None	160251932	160261147	1	None	None
10	GLUD1P3	ENSG00000250959	ENST00000507952	processed_transcript	KNOWN	None	4338	None	None	75490320	75491529	1	GLUDP3, C10orf102	Em:AC022400.11
10	GLUD1P3	ENSG00000250959	ENST00000508551	transcribed_unprocessed_pseudogene	KNOWN	None	4338	None	None	75490934	75497069	1	GLUDP3, C10orf102	Em:AC022400.11
3	None	ENSG00000216116	ENST00000401297	miRNA	NOVEL	None	None	None	None	79633742	79633834	-1	None	None
19	None	ENSG00000268055	ENST00000595853	antisense	KNOWN	None	None	None	None	39026157	39027768	-1	None	None
14	OTX2-AS1	ENSG00000248550	ENST00000534909	antisense	KNOWN	None	43906	None	None	57279901	57397551	1	None	OTX2OS1
14	OTX2-AS1	ENSG00000248550	ENST00000554428	antisense	KNOWN	None	43906	None	None	57279951	57386510	1	None	OTX2OS1
14	OTX2-AS1	ENSG00000248550	ENST00000554725	antisense	KNOWN	None	43906	None	None	57279989	57618895	1	None	OTX2OS1
14	OTX2-AS1	ENSG00000248550	ENST00000554358	antisense	KNOWN	None	43906	None	None	57280009	57395757	1	None	OTX2OS1
4	None	ENSG00000239034	ENST00000459026	snoRNA	NOVEL	None	None	None	None	186867237	186867340	1	None	None
1	None	ENSG00000229255	ENST00000450847	antisense	KNOWN	None	None	None	None	248647546	248648785	-1	None	None
3	HMGB1P38	ENSG00000243877	ENST00000490557	processed_pseudogene	KNOWN	None	39185	None	None	80006716	80007292	-1	None	None
17	KCNJ12	ENSG00000184185	ENST00000583088	protein_coding	KNOWN	CCDS11219	6258	1302	433	21279509	21323179	1	KCNJN1	Kir2.2, Kir2.2v, IRK2, hIRK1
17	KCNJ12	ENSG00000184185	ENST00000331718	protein_coding	KNOWN	CCDS11219	6258	1302	433	21308448	21320482	1	KCNJN1	Kir2.2, Kir2.2v, IRK2, hIRK1
5	RN7SL616P	ENSG00000266477	ENST00000584555	misc_RNA	KNOWN	None	46632	None	None	68774820	68775092	-1	None	None
4	RNU4-64P	ENSG00000222727	ENST00000410795	snRNA	KNOWN	None	47000	None	None	186947610	186947740	-1	None	None
16	CNOT1	ENSG00000125107	ENST00000317147	protein_coding	KNOWN	CCDS10799	7877	7131	2376	58553855	58663790	-1	NOT1	CDC39, NOT1H, KIAA1007, AD-005
16	CNOT1	ENSG00000125107	ENST00000563130	retained_intron	KNOWN	None	7877	None	None	58554588	58567069	-1	NOT1	CDC39, NOT1H, KIAA1007, AD-005
16	CNOT1	ENSG00000125107	ENST00000569240	protein_coding	NOVEL	CCDS58468	7877	7116	2371	58554599	58663738	-1	NOT1	CDC39, NOT1H, KIAA1007, AD-005
16	CNOT1	ENSG00000125107	ENST00000567188	nonsense_mediated_decay	KNOWN	None	7877	6453	2150	58554610	58663736	-1	NOT1	CDC39, NOT1H, KIAA1007, AD-005
16	CNOT1	ENSG00000125107	ENST00000569924	retained_intron	KNOWN	None	7877	None	None	58554919	58559285	-1	NOT1	CDC39, NOT1H, KIAA1007, AD-005
16	CNOT1	ENSG00000125107	ENST00000570139	retained_intron	KNOWN	None	7877	None	None	58562518	58564572	-1	NOT1	CDC39, NOT1H, KIAA1007, AD-005
16	CNOT1	ENSG00000125107	ENST00000568917	protein_coding	PUTATIVE	None	7877	1317	438	58565862	58573782	-1	NOT1	CDC39, NOT1H, KIAA1007, AD-005
16	CNOT1	ENSG00000125107	ENST00000563283	retained_intron	KNOWN	None	7877	None	None	58572062	58573970	-1	NOT1	CDC39, NOT1H, KIAA1007, AD-005
16	CNOT1	ENSG00000125107	ENST00000566240	nonsense_mediated_decay	KNOWN	None	7877	205	67	58576134	58577706	-1	NOT1	CDC39, NOT1H, KIAA1007, AD-005
16	CNOT1	ENSG00000125107	ENST00000441024	protein_coding	KNOWN	CCDS45501	7877	4656	1551	58577231	58663742	-1	NOT1	CDC39, NOT1H, KIAA1007, AD-005
16	CNOT1	ENSG00000125107	ENST00000567133	protein_coding	NOVEL	None	7877	553	183	58577511	58580606	-1	NOT1	CDC39, NOT1H, KIAA1007, AD-005
16	CNOT1	ENSG00000125107	ENST00000567285	protein_coding	PUTATIVE	None	7877	722	239	58580369	58585670	-1	NOT1	CDC39, NOT1H, KIAA1007, AD-005
16	CNOT1	ENSG00000125107	ENST00000569732	processed_transcript	KNOWN	None	7877	None	None	58585507	58592521	-1	NOT1	CDC39, NOT1H, KIAA1007, AD-005
16	CNOT1	ENSG00000125107	ENST00000562046	protein_coding	NOVEL	None	7877	578	191	58585694	58592394	-1	NOT1	CDC39, NOT1H, KIAA1007, AD-005
16	CNOT1	ENSG00000125107	ENST00000569882	protein_coding	PUTATIVE	None	7877	831	276	58589688	58608967	-1	NOT1	CDC39, NOT1H, KIAA1007, AD-005
16	CNOT1	ENSG00000125107	ENST00000565605	nonsense_mediated_decay	KNOWN	None	7877	291	96	58608621	58663736	-1	NOT1	CDC39, NOT1H, KIAA1007, AD-005
16	CNOT1	ENSG00000125107	ENST00000564557	protein_coding	KNOWN	None	7877	188	61	58622725	58663729	-1	NOT1	CDC39, NOT1H, KIAA1007, AD-005
16	CNOT1	ENSG00000125107	ENST00000569916	retained_intron	KNOWN	None	7877	None	None	58632914	58663728	-1	NOT1	CDC39, NOT1H, KIAA1007, AD-005
16	CNOT1	ENSG00000125107	ENST00000565697	protein_coding	KNOWN	None	7877	77	24	58633165	58658690	-1	NOT1	CDC39, NOT1H, KIAA1007, AD-005
16	CNOT1	ENSG00000125107	ENST00000569020	protein_coding	KNOWN	None	7877	75	24	58633167	58663789	-1	NOT1	CDC39, NOT1H, KIAA1007, AD-005
16	CNOT1	ENSG00000125107	ENST00000568158	processed_transcript	KNOWN	None	7877	None	None	58633278	58663719	-1	NOT1	CDC39, NOT1H, KIAA1007, AD-005
16	CNOT1	ENSG00000125107	ENST00000569263	processed_transcript	PUTATIVE	None	7877	None	None	58657130	58663751	-1	NOT1	CDC39, NOT1H, KIAA1007, AD-005
16	CNOT1	ENSG00000125107	ENST00000245138	protein_coding	KNOWN	None	7877	3684	1227	58554598	58585513	-1	NOT1	CDC39, NOT1H, KIAA1007, AD-005
HSCHR6_MHC_QBL	NCR3	ENSG00000206430	ENST00000482705	processed_transcript	KNOWN	None	19077	None	None	31546917	31550832	-1	LY117	1C7, NKp30, CD337
HSCHR6_MHC_QBL	NCR3	ENSG00000206430	ENST00000495500	processed_transcript	KNOWN	None	19077	None	None	31546917	31550979	-1	LY117	1C7, NKp30, CD337
HSCHR6_MHC_QBL	NCR3	ENSG00000206430	ENST00000383477	protein_coding	KNOWN	None	19077	606	201	31546917	31551005	-1	LY117	1C7, NKp30, CD337
HSCHR6_MHC_QBL	NCR3	ENSG00000206430	ENST00000383478	protein_coding	KNOWN	None	19077	534	177	31546917	31551005	-1	LY117	1C7, NKp30, CD337
HSCHR6_MHC_QBL	NCR3	ENSG00000206430	ENST00000383476	protein_coding	KNOWN	None	19077	573	190	31547296	31551005	-1	LY117	1C7, NKp30, CD337
HSCHR6_MHC_QBL	NCR3	ENSG00000206430	ENST00000400241	protein_coding	KNOWN	None	19077	498	165	31547319	31550769	-1	LY117	1C7, NKp30, CD337
HSCHR6_MHC_QBL	NCR3	ENSG00000206430	ENST00000493663	nonsense_mediated_decay	KNOWN	None	19077	348	115	31547319	31550769	-1	LY117	1C7, NKp30, CD337
13	DNAJC3-AS1	ENSG00000247400	ENST00000606011	lincRNA	KNOWN	None	39808	None	None	96300987	96329048	-1	None	None
13	DNAJC3-AS1	ENSG00000247400	ENST00000499499	lincRNA	KNOWN	None	39808	None	None	96325089	96329179	-1	None	None
19	None	ENSG00000267291	ENST00000589557	antisense	KNOWN	None	None	None	None	39086986	39092334	1	None	None
5	RNU6-724P	ENSG00000212260	ENST00000390958	snRNA	KNOWN	None	47687	None	None	68826440	68826544	-1	None	None
4	None	ENSG00000253013	ENST00000517204	snoRNA	NOVEL	None	None	None	None	187051175	187051309	1	None	None
5	None	ENSG00000238740	ENST00000459129	snoRNA	NOVEL	None	None	None	None	68834988	68835091	-1	None	None
12	None	ENSG00000271357	ENST00000605512	processed_pseudogene	KNOWN	None	None	None	None	32253419	32253669	-1	None	None
3	None	ENSG00000244346	ENST00000460975	processed_pseudogene	KNOWN	None	None	None	None	182668571	182674095	-1	None	None
13	MTND5P2	ENSG00000229622	ENST00000442927	processed_pseudogene	KNOWN	None	41919	None	None	96344792	96346226	1	None	None
16	None	ENSG00000260290	ENST00000566277	processed_pseudogene	KNOWN	None	None	None	None	69790439	69791840	-1	None	None
12	None	ENSG00000257530	ENST00000551974	antisense	KNOWN	None	None	None	None	32257051	32260462	-1	None	None
2	None	ENSG00000226508	ENST00000436841	lincRNA	KNOWN	None	None	None	None	105760571	105761680	1	None	None
2	None	ENSG00000226508	ENST00000452037	lincRNA	KNOWN	None	None	None	None	105760581	105761370	1	None	None
2	None	ENSG00000226508	ENST00000438148	lincRNA	KNOWN	None	None	None	None	105760600	105761882	1	None	None
5	None	ENSG00000248477	ENST00000510264	processed_transcript	KNOWN	None	None	None	None	68902926	68919876	1	None	None
5	None	ENSG00000248477	ENST00000513164	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	68914140	68919273	1	None	None
19	None	ENSG00000267375	ENST00000585999	antisense	KNOWN	None	None	None	None	39174513	39184246	-1	None	None
2	NCAPH	ENSG00000121152	ENST00000240423	protein_coding	KNOWN	CCDS2021	1112	2226	741	97001525	97039583	1	BRRN1	CAP-H, hCAP-H
2	NCAPH	ENSG00000121152	ENST00000427946	protein_coding	PUTATIVE	None	1112	1818	605	97001534	97039445	1	BRRN1	CAP-H, hCAP-H
2	NCAPH	ENSG00000121152	ENST00000477409	retained_intron	KNOWN	None	1112	None	None	97001539	97025190	1	BRRN1	CAP-H, hCAP-H
2	NCAPH	ENSG00000121152	ENST00000435975	protein_coding	PUTATIVE	None	1112	1823	606	97001539	97031771	1	BRRN1	CAP-H, hCAP-H
2	NCAPH	ENSG00000121152	ENST00000456906	protein_coding	PUTATIVE	None	1112	650	215	97001545	97019140	1	BRRN1	CAP-H, hCAP-H
2	NCAPH	ENSG00000121152	ENST00000455200	protein_coding	PUTATIVE	None	1112	2193	730	97001556	97039553	1	BRRN1	CAP-H, hCAP-H
2	NCAPH	ENSG00000121152	ENST00000435349	protein_coding	PUTATIVE	None	1112	547	181	97030218	97039321	1	BRRN1	CAP-H, hCAP-H
11	PIDD	ENSG00000177595	ENST00000525028	nonsense_mediated_decay	KNOWN	None	16491	327	108	799179	804675	-1	LRDD	MGC16925, DKFZp434D229
11	PIDD	ENSG00000177595	ENST00000524486	nonsense_mediated_decay	KNOWN	None	16491	327	108	799180	805103	-1	LRDD	MGC16925, DKFZp434D229
11	PIDD	ENSG00000177595	ENST00000411829	protein_coding	KNOWN	CCDS44508	16491	2682	893	799184	804469	-1	LRDD	MGC16925, DKFZp434D229
11	PIDD	ENSG00000177595	ENST00000347755	protein_coding	KNOWN	CCDS7716	16491	2733	910	799184	805245	-1	LRDD	MGC16925, DKFZp434D229
11	PIDD	ENSG00000177595	ENST00000531286	nonsense_mediated_decay	KNOWN	None	16491	1016	337	799185	802750	-1	LRDD	MGC16925, DKFZp434D229
11	PIDD	ENSG00000177595	ENST00000527357	retained_intron	KNOWN	None	16491	None	None	799185	805230	-1	LRDD	MGC16925, DKFZp434D229
11	PIDD	ENSG00000177595	ENST00000534525	retained_intron	KNOWN	None	16491	None	None	799185	809499	-1	LRDD	MGC16925, DKFZp434D229
11	PIDD	ENSG00000177595	ENST00000527812	processed_transcript	KNOWN	None	16491	None	None	799326	802086	-1	LRDD	MGC16925, DKFZp434D229
11	PIDD	ENSG00000177595	ENST00000528122	processed_transcript	PUTATIVE	None	16491	None	None	802323	803149	-1	LRDD	MGC16925, DKFZp434D229
11	PIDD	ENSG00000177595	ENST00000534649	processed_transcript	KNOWN	None	16491	None	None	803376	809523	-1	LRDD	MGC16925, DKFZp434D229
11	PIDD	ENSG00000177595	ENST00000530911	processed_transcript	PUTATIVE	None	16491	None	None	805777	809753	-1	LRDD	MGC16925, DKFZp434D229
1	OR2AS2P	ENSG00000271934	ENST00000606902	unprocessed_pseudogene	KNOWN	None	31248	None	None	248661609	248661929	1	None	None
9	NUTM2F	ENSG00000130950	ENST00000253262	protein_coding	KNOWN	CCDS47994	23450	2271	756	97080478	97090926	-1	FAM22F	DKFZp434I1117
9	NUTM2F	ENSG00000130950	ENST00000335456	protein_coding	KNOWN	None	23450	1479	492	97077605	97090926	-1	FAM22F	DKFZp434I1117
9	NUTM2F	ENSG00000130950	ENST00000341207	protein_coding	KNOWN	None	23450	2226	741	97080478	97090926	-1	FAM22F	DKFZp434I1117
2	None	ENSG00000270893	ENST00000605196	processed_pseudogene	KNOWN	None	None	None	None	160300628	160301424	1	None	None
19	None	ENSG00000188474	ENST00000339302	protein_coding	KNOWN	None	None	1848	615	12203078	12225491	1	None	None
19	None	ENSG00000188474	ENST00000397759	protein_coding	KNOWN	None	None	777	258	12223506	12224531	1	None	None
19	None	ENSG00000267892	ENST00000602255	antisense	KNOWN	None	None	None	None	39228924	39230503	1	None	None
3	OSBPL9P1	ENSG00000271389	ENST00000604744	processed_pseudogene	KNOWN	None	48731	None	None	80212477	80213945	1	None	None
1	RNU6-160P	ENSG00000207321	ENST00000384591	snRNA	KNOWN	None	47123	None	None	153304098	153304204	1	None	None
8	None	ENSG00000253176	ENST00000519761	processed_pseudogene	KNOWN	None	None	None	None	27695994	27697899	1	None	None
16	PKMYT1	ENSG00000127564	ENST00000571102	processed_transcript	PUTATIVE	None	29650	None	None	3018025	3020242	-1	None	MYT1
16	PKMYT1	ENSG00000127564	ENST00000431515	protein_coding	PUTATIVE	None	29650	1707	568	3018103	3030417	-1	None	MYT1
16	PKMYT1	ENSG00000127564	ENST00000572832	processed_transcript	PUTATIVE	None	29650	None	None	3018354	3019105	-1	None	MYT1
16	PKMYT1	ENSG00000127564	ENST00000574333	processed_transcript	PUTATIVE	None	29650	None	None	3021691	3023483	-1	None	MYT1
16	PKMYT1	ENSG00000127564	ENST00000440027	protein_coding	PUTATIVE	CCDS45391	29650	1443	480	3022792	3030392	-1	None	MYT1
16	PKMYT1	ENSG00000127564	ENST00000262300	protein_coding	KNOWN	CCDS10486	29650	1500	499	3022792	3030540	-1	None	MYT1
16	PKMYT1	ENSG00000127564	ENST00000575040	protein_coding	PUTATIVE	None	29650	181	59	3022794	3024269	-1	None	MYT1
16	PKMYT1	ENSG00000127564	ENST00000575981	retained_intron	KNOWN	None	29650	None	None	3022811	3024796	-1	None	MYT1
16	PKMYT1	ENSG00000127564	ENST00000574680	retained_intron	KNOWN	None	29650	None	None	3022814	3023603	-1	None	MYT1
16	PKMYT1	ENSG00000127564	ENST00000574385	protein_coding	PUTATIVE	CCDS58414	29650	1473	490	3022820	3030425	-1	None	MYT1
16	PKMYT1	ENSG00000127564	ENST00000574730	protein_coding	NOVEL	CCDS58415	29650	1293	430	3022850	3030440	-1	None	MYT1
16	PKMYT1	ENSG00000127564	ENST00000573944	protein_coding	PUTATIVE	CCDS58414	29650	1473	490	3022852	3030480	-1	None	MYT1
16	PKMYT1	ENSG00000127564	ENST00000382240	nonsense_mediated_decay	KNOWN	None	29650	1344	447	3022996	3027527	-1	None	MYT1
16	PKMYT1	ENSG00000127564	ENST00000576268	protein_coding	PUTATIVE	None	29650	824	273	3025341	3030439	-1	None	MYT1
16	PKMYT1	ENSG00000127564	ENST00000574415	protein_coding	NOVEL	None	29650	646	214	3025654	3030324	-1	None	MYT1
16	PKMYT1	ENSG00000127564	ENST00000575632	protein_coding	KNOWN	None	29650	509	168	3025683	3030477	-1	None	MYT1
16	PKMYT1	ENSG00000127564	ENST00000572059	protein_coding	KNOWN	None	29650	442	146	3025750	3030402	-1	None	MYT1
16	PKMYT1	ENSG00000127564	ENST00000572619	protein_coding	KNOWN	None	29650	152	49	3026891	3030283	-1	None	MYT1
16	PKMYT1	ENSG00000127564	ENST00000570649	retained_intron	KNOWN	None	29650	None	None	3029474	3030458	-1	None	MYT1
16	PKMYT1	ENSG00000127564	ENST00000572658	retained_intron	KNOWN	None	29650	None	None	3029496	3030395	-1	None	MYT1
11	None	ENSG00000215841	ENST00000400985	antisense	KNOWN	None	None	None	None	72926043	72926958	-1	None	None
2	None	ENSG00000225369	ENST00000420635	processed_pseudogene	KNOWN	None	None	None	None	160318928	160319767	-1	None	None
19	RNU6-140P	ENSG00000207296	ENST00000384566	snRNA	KNOWN	None	47103	None	None	39287642	39287749	-1	None	None
16	None	ENSG00000252670	ENST00000516861	misc_RNA	NOVEL	None	None	None	None	69814940	69815031	1	None	None
1	None	ENSG00000237008	ENST00000447781	processed_pseudogene	KNOWN	None	None	None	None	153352297	153353275	-1	None	None
1	None	ENSG00000224521	ENST00000438623	antisense	KNOWN	None	None	None	None	248712057	248726764	1	None	None
1	None	ENSG00000224521	ENST00000436515	antisense	KNOWN	None	None	None	None	248725901	248727140	1	None	None
1	None	ENSG00000214796	ENST00000443294	processed_transcript	KNOWN	None	None	None	None	202820956	202830736	-1	None	None
1	None	ENSG00000214796	ENST00000449915	processed_transcript	KNOWN	None	None	None	None	202822090	202828350	-1	None	None
1	None	ENSG00000214796	ENST00000442868	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	202822119	202828227	-1	None	None
1	None	ENSG00000214796	ENST00000430114	processed_transcript	KNOWN	None	None	None	None	202827056	202830748	-1	None	None
19	None	ENSG00000268756	ENST00000594558	antisense	KNOWN	None	None	None	None	39310806	39313863	1	None	None
16	None	ENSG00000252443	ENST00000516634	snoRNA	NOVEL	None	None	None	None	69819897	69820016	-1	None	None
13	MTND6P18	ENSG00000227714	ENST00000439477	processed_pseudogene	KNOWN	None	39481	None	None	96346237	96346749	-1	None	None
3	PPIAP15	ENSG00000244196	ENST00000479662	processed_pseudogene	KNOWN	None	9268	None	None	109190176	109190659	-1	PPIP5	None
2	None	ENSG00000207117	ENST00000384389	misc_RNA	NOVEL	None	None	None	None	160392755	160392857	-1	None	None
1	OR2T5	ENSG00000203661	ENST00000366473	protein_coding	KNOWN	CCDS31118	15017	948	315	248651885	248652898	1	None	None
5	IK	ENSG00000113141	ENST00000513256	protein_coding	PUTATIVE	None	5958	321	106	140026643	140032658	1	None	None
5	IK	ENSG00000113141	ENST00000417647	protein_coding	KNOWN	CCDS47280	5958	1674	557	140027355	140042063	1	None	None
5	IK	ENSG00000113141	ENST00000503332	nonsense_mediated_decay	KNOWN	None	5958	222	73	140027414	140032687	1	None	None
5	IK	ENSG00000113141	ENST00000507593	protein_coding	PUTATIVE	None	5958	422	139	140027427	140032726	1	None	None
5	IK	ENSG00000113141	ENST00000508301	protein_coding	PUTATIVE	None	5958	802	266	140027427	140035578	1	None	None
5	IK	ENSG00000113141	ENST00000523672	processed_transcript	KNOWN	None	5958	None	None	140027513	140032719	1	None	None
5	IK	ENSG00000113141	ENST00000502899	protein_coding	PUTATIVE	None	5958	638	211	140027679	140034313	1	None	None
5	IK	ENSG00000113141	ENST00000512827	retained_intron	KNOWN	None	5958	None	None	140027899	140031332	1	None	None
5	IK	ENSG00000113141	ENST00000515015	retained_intron	KNOWN	None	5958	None	None	140038564	140040470	1	None	None
5	IK	ENSG00000113141	ENST00000515592	retained_intron	KNOWN	None	5958	None	None	140039740	140042064	1	None	None
5	IK	ENSG00000113141	ENST00000518969	retained_intron	KNOWN	None	5958	None	None	140040628	140042012	1	None	None
12	None	ENSG00000256560	ENST00000538041	lincRNA	KNOWN	None	None	None	None	109791888	109797293	-1	None	None
19	None	ENSG00000269688	ENST00000600473	sense_intronic	KNOWN	None	None	None	None	39335369	39336139	-1	None	None
16	MIR140	ENSG00000208017	ENST00000385282	miRNA	KNOWN	None	31527	None	None	69966984	69967083	1	MIRN140	hsa-mir-140
11	None	ENSG00000260401	ENST00000565433	sense_overlapping	KNOWN	None	None	None	None	72950020	72953380	1	None	None
5	None	ENSG00000250138	ENST00000515156	unprocessed_pseudogene	KNOWN	None	None	None	None	68927790	68932226	1	None	None
5	None	ENSG00000250138	ENST00000538480	pseudogene	KNOWN	None	None	None	None	68929917	68932312	1	None	None
11	None	ENSG00000269990	ENST00000602427	lincRNA	KNOWN	None	None	None	None	66303369	66305407	-1	None	None
2	None	ENSG00000224152	ENST00000418474	antisense	KNOWN	None	None	None	None	160471807	160473593	1	None	None
2	None	ENSG00000235319	ENST00000433219	lincRNA	KNOWN	None	None	None	None	105940667	105946986	1	None	None
22	APOBEC3D	ENSG00000243811	ENST00000216099	protein_coding	KNOWN	CCDS46709	17354	1161	386	39417118	39429256	1	APOBEC3E	ARP6, APOBEC3DE
22	APOBEC3D	ENSG00000243811	ENST00000381568	protein_coding	KNOWN	None	17354	1161	386	39410368	39428321	1	APOBEC3E	ARP6, APOBEC3DE
22	APOBEC3D	ENSG00000243811	ENST00000427494	protein_coding	KNOWN	None	17354	609	202	39417457	39428372	1	APOBEC3E	ARP6, APOBEC3DE
9	None	ENSG00000252617	ENST00000516808	snoRNA	NOVEL	None	None	None	None	46042781	46042875	-1	None	None
3	None	ENSG00000252541	ENST00000516732	miRNA	NOVEL	None	None	None	None	109216492	109216576	1	None	None
13	MTCYBP3	ENSG00000232373	ENST00000445588	processed_pseudogene	KNOWN	None	39579	None	None	96346823	96347959	1	None	None
12	None	ENSG00000258134	ENST00000549976	processed_pseudogene	KNOWN	None	None	None	None	32380344	32381088	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000435880	antisense	KNOWN	None	42948	None	None	70189395	70314147	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000419542	antisense	KNOWN	None	42948	None	None	70189902	70223973	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000596259	antisense	KNOWN	None	42948	None	None	70190386	70191906	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000457076	antisense	KNOWN	None	42948	None	None	70190520	70314452	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000413436	antisense	KNOWN	None	42948	None	None	70190595	70314944	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000418564	antisense	KNOWN	None	42948	None	None	70190620	70313405	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000415222	antisense	KNOWN	None	42948	None	None	70191505	70314475	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000594376	antisense	KNOWN	None	42948	None	None	70220512	70280917	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000456161	antisense	KNOWN	None	42948	None	None	70223818	70313405	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000419963	antisense	KNOWN	None	42948	None	None	70223826	70313405	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000599673	antisense	KNOWN	None	42948	None	None	70223864	70314138	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000598586	antisense	KNOWN	None	42948	None	None	70223890	70239348	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000418308	antisense	KNOWN	None	42948	None	None	70223903	70313405	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000596028	antisense	KNOWN	None	42948	None	None	70223904	70315978	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000601431	antisense	KNOWN	None	42948	None	None	70223919	70286812	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000452431	antisense	KNOWN	None	42948	None	None	70223935	70315686	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000423402	antisense	KNOWN	None	42948	None	None	70223950	70315039	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000411429	antisense	KNOWN	None	42948	None	None	70223955	70313405	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000420309	antisense	KNOWN	None	42948	None	None	70223962	70313407	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000434781	antisense	KNOWN	None	42948	None	None	70224003	70314447	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000415742	antisense	KNOWN	None	42948	None	None	70242672	70313230	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000457770	antisense	KNOWN	None	42948	None	None	70245199	70313406	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000416395	antisense	KNOWN	None	42948	None	None	70257130	70313399	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000366234	antisense	KNOWN	None	42948	None	None	70258565	70314132	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000599427	antisense	KNOWN	None	42948	None	None	70258761	70286907	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000597318	antisense	KNOWN	None	42948	None	None	70258830	70296289	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000425333	antisense	KNOWN	None	42948	None	None	70258885	70314475	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000425601	antisense	KNOWN	None	42948	None	None	70258973	70313405	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000429599	antisense	KNOWN	None	42948	None	None	70258986	70313405	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000449178	antisense	KNOWN	None	42948	None	None	70259017	70313405	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000458686	antisense	KNOWN	None	42948	None	None	70259270	70313386	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000421843	antisense	KNOWN	None	42948	None	None	70259270	70313401	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000432604	antisense	KNOWN	None	42948	None	None	70259270	70313525	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000421255	antisense	KNOWN	None	42948	None	None	70259271	70312705	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000422515	antisense	KNOWN	None	42948	None	None	70259275	70313401	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000413069	antisense	KNOWN	None	42948	None	None	70259330	70313617	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000444410	antisense	KNOWN	None	42948	None	None	70259361	70314147	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000458698	antisense	KNOWN	None	42948	None	None	70272391	70314436	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000603347	antisense	KNOWN	None	42948	None	None	70273700	70287093	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000604346	antisense	KNOWN	None	42948	None	None	70273746	70281312	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000413791	antisense	KNOWN	None	42948	None	None	70275819	70314553	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000416506	antisense	KNOWN	None	42948	None	None	70275823	70282955	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000439670	antisense	KNOWN	None	42948	None	None	70276177	70313617	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000442040	antisense	KNOWN	None	42948	None	None	70276912	70313404	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000601396	antisense	KNOWN	None	42948	None	None	70277272	70313405	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000601494	antisense	KNOWN	None	42948	None	None	70277732	70280990	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000602091	antisense	KNOWN	None	42948	None	None	70277943	70287238	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000596573	antisense	KNOWN	None	42948	None	None	70278149	70314138	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000594548	antisense	KNOWN	None	42948	None	None	70278160	70314567	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000600002	antisense	KNOWN	None	42948	None	None	70278177	70287115	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000601395	antisense	KNOWN	None	42948	None	None	70278337	70297934	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000595459	antisense	KNOWN	None	42948	None	None	70278342	70313166	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000437456	antisense	KNOWN	None	42948	None	None	70278342	70313405	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000416068	antisense	KNOWN	None	42948	None	None	70278346	70313405	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000444320	antisense	KNOWN	None	42948	None	None	70278380	70313404	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000415060	antisense	KNOWN	None	42948	None	None	70278408	70313026	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000596665	antisense	KNOWN	None	42948	None	None	70282749	70313421	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000439892	antisense	KNOWN	None	42948	None	None	70282868	70313399	-1	None	None
2	PCBP1-AS1	ENSG00000179818	ENST00000437019	antisense	KNOWN	None	42948	None	None	70310712	70313313	-1	None	None
9	RN7SL722P	ENSG00000264967	ENST00000583335	misc_RNA	KNOWN	None	46738	None	None	46048172	46048453	1	None	None
11	None	ENSG00000256347	ENST00000543943	processed_pseudogene	KNOWN	None	None	None	None	72959824	72960912	1	None	None
19	None	ENSG00000269050	ENST00000593830	antisense	KNOWN	None	None	None	None	39360799	39364403	1	None	None
15	RN7SL539P	ENSG00000243088	ENST00000482670	misc_RNA	KNOWN	None	46555	None	None	32738879	32739157	-1	None	None
2	None	ENSG00000238273	ENST00000457290	antisense	KNOWN	None	None	None	None	105979495	105995296	1	None	None
2	None	ENSG00000238273	ENST00000415627	antisense	KNOWN	None	None	None	None	105990550	105992540	1	None	None
7	None	ENSG00000236692	ENST00000447087	unprocessed_pseudogene	KNOWN	None	None	None	None	57255599	57257847	1	None	None
9	None	ENSG00000235938	ENST00000493211	processed_pseudogene	KNOWN	None	None	None	None	46113699	46114039	-1	None	None
3	HNRNPA3P8	ENSG00000239699	ENST00000474219	processed_pseudogene	KNOWN	None	48497	None	None	80265411	80266384	1	None	None
15	None	ENSG00000270789	ENST00000604574	processed_pseudogene	KNOWN	None	None	None	None	32753867	32754010	-1	None	None
4	None	ENSG00000250327	ENST00000504462	processed_pseudogene	KNOWN	None	None	None	None	187079050	187079997	1	None	None
12	PXMP2	ENSG00000176894	ENST00000317479	protein_coding	KNOWN	CCDS9279	9716	588	195	133264192	133281577	1	None	PMP22
12	PXMP2	ENSG00000176894	ENST00000543589	protein_coding	NOVEL	None	9716	483	160	133264228	133281571	1	None	PMP22
12	PXMP2	ENSG00000176894	ENST00000539093	protein_coding	PUTATIVE	None	9716	333	110	133266846	133281486	1	None	PMP22
12	PXMP2	ENSG00000176894	ENST00000428960	protein_coding	PUTATIVE	None	9716	576	191	133266900	133281484	1	None	PMP22
12	PXMP2	ENSG00000176894	ENST00000454379	retained_intron	KNOWN	None	9716	None	None	133272531	133278270	1	None	PMP22
12	PXMP2	ENSG00000176894	ENST00000545677	protein_coding	KNOWN	None	9716	504	167	133264635	133297276	1	None	PMP22
19	None	ENSG00000269486	ENST00000599320	lincRNA	KNOWN	None	None	None	None	39425976	39429272	-1	None	None
X	OR13K1P	ENSG00000237225	ENST00000444577	processed_pseudogene	KNOWN	None	14721	None	None	130696712	130697808	1	None	None
1	None	ENSG00000224784	ENST00000421658	processed_pseudogene	KNOWN	None	None	None	None	153369067	153369247	-1	None	None
1	OR2AS1P	ENSG00000227102	ENST00000427827	unprocessed_pseudogene	KNOWN	None	15004	None	None	248712745	248713063	-1	None	None
15	None	ENSG00000260275	ENST00000564874	processed_pseudogene	KNOWN	None	None	None	None	89581208	89581517	-1	None	None
15	None	ENSG00000261375	ENST00000564116	unprocessed_pseudogene	KNOWN	None	None	None	None	32781468	32783787	-1	None	None
19	None	ENSG00000267992	ENST00000597303	antisense	KNOWN	None	None	None	None	39521076	39521963	1	None	None
11	None	ENSG00000250105	ENST00000504911	lincRNA	KNOWN	None	None	None	None	66326337	66327855	-1	None	None
4	ORAOV1P1	ENSG00000251008	ENST00000503108	processed_pseudogene	KNOWN	None	39203	None	None	187092017	187092411	-1	None	None
5	GUSBP3	ENSG00000253203	ENST00000513408	processed_transcript	KNOWN	None	37301	None	None	68935286	68975086	-1	None	None
5	GUSBP3	ENSG00000253203	ENST00000509348	transcribed_unprocessed_pseudogene	KNOWN	None	37301	None	None	68936093	68975020	-1	None	None
5	GUSBP3	ENSG00000253203	ENST00000380759	unprocessed_pseudogene	KNOWN	None	37301	None	None	68790040	69006341	-1	None	None
5	None	ENSG00000266432	ENST00000582690	miRNA	NOVEL	None	None	None	None	158952946	158953018	1	None	None
3	MIR4445	ENSG00000265956	ENST00000583183	miRNA	KNOWN	None	41614	None	None	109321675	109321744	1	None	hsa-mir-4445
11	RNU6-376P	ENSG00000207462	ENST00000384731	snRNA	KNOWN	None	47339	None	None	118573051	118573156	1	None	None
1	None	ENSG00000203781	ENST00000432574	unprocessed_pseudogene	KNOWN	None	None	None	None	153399496	153400877	-1	None	None
16	None	ENSG00000200652	ENST00000363782	snoRNA	NOVEL	None	None	None	None	28190419	28190544	1	None	None
1	None	ENSG00000201602	ENST00000364732	misc_RNA	NOVEL	None	None	None	None	248758226	248758334	-1	None	None
12	None	ENSG00000207176	ENST00000384447	misc_RNA	NOVEL	None	None	None	None	32548984	32549081	-1	None	None
3	None	ENSG00000242029	ENST00000485384	lincRNA	KNOWN	None	None	None	None	109366954	109529708	1	None	None
15	None	ENSG00000260123	ENST00000565938	lincRNA	KNOWN	None	None	None	None	89584454	89626050	1	None	None
16	None	ENSG00000200138	ENST00000363268	misc_RNA	NOVEL	None	None	None	None	28194639	28194751	1	None	None
2	None	ENSG00000235522	ENST00000596418	antisense	KNOWN	None	None	None	None	106462990	106471696	-1	None	None
2	None	ENSG00000235522	ENST00000427050	antisense	KNOWN	None	None	None	None	106470962	106473633	-1	None	None
2	None	ENSG00000235522	ENST00000598281	antisense	KNOWN	None	None	None	None	106471562	106473202	-1	None	None
8	RNU6-1092P	ENSG00000252764	ENST00000516955	snRNA	KNOWN	None	48055	None	None	101695716	101695802	1	None	None
1	None	ENSG00000271701	ENST00000603158	processed_pseudogene	KNOWN	None	None	None	None	248764717	248765170	1	None	None
20	CSTL1	ENSG00000125823	ENST00000472140	processed_transcript	KNOWN	None	15958	None	None	23420322	23421455	1	None	dJ322G13.4, CTES1
20	CSTL1	ENSG00000125823	ENST00000246020	protein_coding	KNOWN	CCDS13153	15958	438	145	23420885	23425567	1	None	dJ322G13.4, CTES1
20	CSTL1	ENSG00000125823	ENST00000485969	processed_transcript	KNOWN	None	15958	None	None	23420961	23423095	1	None	dJ322G13.4, CTES1
20	CSTL1	ENSG00000125823	ENST00000347397	protein_coding	KNOWN	CCDS13153	15958	438	145	23420322	23425567	1	None	dJ322G13.4, CTES1
3	None	ENSG00000242586	ENST00000498629	unprocessed_pseudogene	KNOWN	None	None	None	None	80491231	80491455	1	None	None
1	ATAD3C	ENSG00000215915	ENST00000378785	protein_coding	KNOWN	CCDS44039	32151	1236	411	1385069	1405538	1	None	FLJ34599
1	ATAD3C	ENSG00000215915	ENST00000475091	protein_coding	NOVEL	None	32151	394	130	1385294	1391282	1	None	FLJ34599
1	ATAD3C	ENSG00000215915	ENST00000484537	retained_intron	KNOWN	None	32151	None	None	1397863	1404043	1	None	FLJ34599
11	FLI1-AS1	ENSG00000254703	ENST00000526269	antisense	KNOWN	None	44177	None	None	128561575	128565918	-1	None	None
16	PDXDC2P	ENSG00000196696	ENST00000531894	processed_transcript	KNOWN	None	27559	None	None	70010200	70099851	-1	PDXDC2	DKFZp761H1120
16	PDXDC2P	ENSG00000196696	ENST00000530079	processed_transcript	KNOWN	None	27559	None	None	70010255	70099756	-1	PDXDC2	DKFZp761H1120
16	PDXDC2P	ENSG00000196696	ENST00000525331	processed_transcript	KNOWN	None	27559	None	None	70026923	70055833	-1	PDXDC2	DKFZp761H1120
16	PDXDC2P	ENSG00000196696	ENST00000526478	retained_intron	KNOWN	None	27559	None	None	70029917	70052325	-1	PDXDC2	DKFZp761H1120
16	PDXDC2P	ENSG00000196696	ENST00000529089	processed_transcript	KNOWN	None	27559	None	None	70030067	70099721	-1	PDXDC2	DKFZp761H1120
16	PDXDC2P	ENSG00000196696	ENST00000561788	retained_intron	KNOWN	None	27559	None	None	70051793	70053313	-1	PDXDC2	DKFZp761H1120
2	PREB	ENSG00000138073	ENST00000468045	retained_intron	KNOWN	None	9356	None	None	27353624	27357497	-1	None	SEC12
2	PREB	ENSG00000138073	ENST00000260643	protein_coding	KNOWN	CCDS1738	9356	1254	417	27353624	27357543	-1	None	SEC12
2	PREB	ENSG00000138073	ENST00000444452	nonsense_mediated_decay	KNOWN	None	9356	153	50	27353633	27357483	-1	None	SEC12
2	PREB	ENSG00000138073	ENST00000406567	protein_coding	NOVEL	None	9356	1080	359	27353643	27357480	-1	None	SEC12
2	PREB	ENSG00000138073	ENST00000456259	protein_coding	NOVEL	None	9356	529	175	27353659	27355253	-1	None	SEC12
2	PREB	ENSG00000138073	ENST00000430533	protein_coding	PUTATIVE	None	9356	319	105	27354027	27355488	-1	None	SEC12
2	PREB	ENSG00000138073	ENST00000441451	nonsense_mediated_decay	KNOWN	None	9356	69	22	27354308	27355120	-1	None	SEC12
2	PREB	ENSG00000138073	ENST00000474802	retained_intron	KNOWN	None	9356	None	None	27355379	27357534	-1	None	SEC12
2	PREB	ENSG00000138073	ENST00000416802	processed_transcript	PUTATIVE	None	9356	None	None	27355992	27357504	-1	None	SEC12
19	None	ENSG00000251709	ENST00000515900	snoRNA	NOVEL	None	None	None	None	39540545	39540607	-1	None	None
1	RN7SL44P	ENSG00000263841	ENST00000583849	misc_RNA	KNOWN	None	46060	None	None	153472943	153473240	-1	None	None
5	None	ENSG00000254199	ENST00000523311	lincRNA	KNOWN	None	None	None	None	159175240	159188068	-1	None	None
8	None	ENSG00000264991	ENST00000579868	miRNA	NOVEL	None	None	None	None	101720106	101720191	-1	None	None
11	None	ENSG00000255422	ENST00000526274	antisense	KNOWN	None	None	None	None	118575316	118620973	1	None	None
1	None	ENSG00000229703	ENST00000437830	lincRNA	KNOWN	None	None	None	None	248855492	248862411	1	None	None
5	None	ENSG00000248203	ENST00000507050	antisense	KNOWN	None	None	None	None	102581749	102589220	-1	None	None
13	SKA3	ENSG00000165480	ENST00000400018	protein_coding	KNOWN	CCDS53856	20262	1167	388	21727734	21750686	-1	C13orf3	MGC4832, RAMA1
13	SKA3	ENSG00000165480	ENST00000298260	nonsense_mediated_decay	KNOWN	None	20262	108	35	21727734	21750687	-1	C13orf3	MGC4832, RAMA1
13	SKA3	ENSG00000165480	ENST00000314759	protein_coding	KNOWN	CCDS31946	20262	1239	412	21727734	21750741	-1	C13orf3	MGC4832, RAMA1
13	SKA3	ENSG00000165480	ENST00000462482	nonsense_mediated_decay	KNOWN	None	20262	150	49	21728836	21750690	-1	C13orf3	MGC4832, RAMA1
13	SKA3	ENSG00000165480	ENST00000465471	nonsense_mediated_decay	KNOWN	None	20262	111	36	21735929	21750690	-1	C13orf3	MGC4832, RAMA1
13	SKA3	ENSG00000165480	ENST00000536239	retained_intron	KNOWN	None	20262	None	None	21742361	21746852	-1	C13orf3	MGC4832, RAMA1
13	SKA3	ENSG00000165480	ENST00000475251	retained_intron	KNOWN	None	20262	None	None	21746408	21750612	-1	C13orf3	MGC4832, RAMA1
15	None	ENSG00000261407	ENST00000565547	antisense	KNOWN	None	None	None	None	89630309	89631172	-1	None	None
15	None	ENSG00000261407	ENST00000570120	antisense	KNOWN	None	None	None	None	89630794	89631498	-1	None	None
12	RNU6-494P	ENSG00000253063	ENST00000517254	snRNA	KNOWN	None	47457	None	None	32630316	32630405	-1	None	None
19	None	ENSG00000269172	ENST00000599484	antisense	KNOWN	None	None	None	None	39625522	39627103	-1	None	None
1	None	ENSG00000238279	ENST00000420695	antisense	KNOWN	None	None	None	None	153506079	153507591	1	None	None
19	None	ENSG00000268164	ENST00000595133	lincRNA	KNOWN	None	None	None	None	54753289	54753907	-1	None	None
1	None	ENSG00000229567	ENST00000423010	processed_pseudogene	KNOWN	None	None	None	None	93744518	93744686	-1	None	None
8	RNU6ATAC41P	ENSG00000221527	ENST00000408600	snRNA	KNOWN	None	46940	None	None	101752030	101752155	-1	None	None
X	None	ENSG00000230668	ENST00000455153	antisense	KNOWN	None	None	None	None	139763271	139769870	-1	None	None
11	RNU4-39P	ENSG00000199325	ENST00000362455	snRNA	KNOWN	None	46975	None	None	66382435	66382561	-1	None	None
19	IFNL3P1	ENSG00000268510	ENST00000595082	unprocessed_pseudogene	KNOWN	None	44483	None	None	39727073	39727933	-1	IL28BP1	None
8	None	ENSG00000202001	ENST00000365131	misc_RNA	NOVEL	None	None	None	None	101767329	101767423	-1	None	None
11	None	ENSG00000257038	ENST00000546324	antisense	KNOWN	None	None	None	None	73018280	73020406	-1	None	None
2	MORN2	ENSG00000188010	ENST00000340556	protein_coding	KNOWN	CCDS46262	30166	240	79	39103103	39109850	1	None	MOPT
2	MORN2	ENSG00000188010	ENST00000410014	protein_coding	KNOWN	CCDS46262	30166	240	79	39103132	39109787	1	None	MOPT
2	MORN2	ENSG00000188010	ENST00000441049	nonsense_mediated_decay	KNOWN	None	30166	207	68	39103132	39156213	1	None	MOPT
2	MORN2	ENSG00000188010	ENST00000409665	protein_coding	KNOWN	CCDS46262	30166	240	79	39103152	39109788	1	None	MOPT
2	MORN2	ENSG00000188010	ENST00000409077	protein_coding	PUTATIVE	None	30166	141	46	39103179	39109838	1	None	MOPT
2	MORN2	ENSG00000188010	ENST00000409131	protein_coding	PUTATIVE	None	30166	174	57	39103209	39109793	1	None	MOPT
16	None	ENSG00000250982	ENST00000513369	processed_pseudogene	KNOWN	None	None	None	None	28251014	28251989	-1	None	None
7	CPVL	ENSG00000106066	ENST00000265394	protein_coding	KNOWN	CCDS5419	14399	1431	476	29034847	29186153	-1	None	None
7	CPVL	ENSG00000106066	ENST00000396276	protein_coding	KNOWN	CCDS5419	14399	1431	476	29035247	29186113	-1	None	None
7	CPVL	ENSG00000106066	ENST00000432534	protein_coding	PUTATIVE	None	14399	541	179	29035250	29111461	-1	None	None
7	CPVL	ENSG00000106066	ENST00000455893	protein_coding	PUTATIVE	None	14399	426	141	29035253	29111520	-1	None	None
7	CPVL	ENSG00000106066	ENST00000409850	protein_coding	KNOWN	CCDS5419	14399	1431	476	29035253	29234892	-1	None	None
7	CPVL	ENSG00000106066	ENST00000448959	protein_coding	PUTATIVE	None	14399	734	243	29105658	29152537	-1	None	None
7	CPVL	ENSG00000106066	ENST00000458405	protein_coding	PUTATIVE	None	14399	302	99	29111999	29136071	-1	None	None
7	CPVL	ENSG00000106066	ENST00000447426	protein_coding	PUTATIVE	None	14399	425	140	29112014	29153384	-1	None	None
7	CPVL	ENSG00000106066	ENST00000488891	processed_transcript	KNOWN	None	14399	None	None	29135719	29234852	-1	None	None
7	CPVL	ENSG00000106066	ENST00000449801	protein_coding	KNOWN	None	14399	157	51	29160521	29234802	-1	None	None
7	CPVL	ENSG00000106066	ENST00000455544	protein_coding	KNOWN	None	14399	131	42	29160547	29235067	-1	None	None
7	CPVL	ENSG00000106066	ENST00000437527	protein_coding	KNOWN	None	14399	20	5	29160658	29235063	-1	None	None
2	None	ENSG00000234162	ENST00000413151	lincRNA	KNOWN	None	None	None	None	106575540	106578462	-1	None	None
2	None	ENSG00000234162	ENST00000423727	lincRNA	KNOWN	None	None	None	None	106575643	106576765	-1	None	None
8	None	ENSG00000242399	ENST00000461683	processed_pseudogene	KNOWN	None	None	None	None	101788740	101789093	-1	None	None
11	None	ENSG00000258297	ENST00000550837	antisense	KNOWN	None	None	None	None	66433507	66435845	1	None	None
11	None	ENSG00000258297	ENST00000548810	antisense	KNOWN	None	None	None	None	66435295	66435845	1	None	None
8	MIR4287	ENSG00000265847	ENST00000579398	miRNA	KNOWN	None	38208	None	None	27743556	27743633	-1	None	hsa-mir-4287
1	OR2G6	ENSG00000188558	ENST00000343414	protein_coding	KNOWN	CCDS31119	27019	951	316	248684916	248685964	1	None	None
1	None	ENSG00000238145	ENST00000437364	processed_pseudogene	KNOWN	None	None	None	None	47357311	47358502	1	None	None
7	MPP6	ENSG00000105926	ENST00000432190	protein_coding	KNOWN	None	18167	651	216	24612887	24690331	1	None	PALS2, VAM-1, p55T
7	MPP6	ENSG00000105926	ENST00000222644	protein_coding	KNOWN	CCDS5388	18167	1623	540	24612965	24729159	1	None	PALS2, VAM-1, p55T
7	MPP6	ENSG00000105926	ENST00000409761	protein_coding	PUTATIVE	None	18167	1287	428	24613034	24727251	1	None	PALS2, VAM-1, p55T
7	MPP6	ENSG00000105926	ENST00000396475	protein_coding	KNOWN	CCDS5388	18167	1623	540	24613085	24729159	1	None	PALS2, VAM-1, p55T
7	MPP6	ENSG00000105926	ENST00000430180	protein_coding	KNOWN	None	18167	923	306	24613632	24705679	1	None	PALS2, VAM-1, p55T
7	MPP6	ENSG00000105926	ENST00000426450	nonsense_mediated_decay	KNOWN	None	18167	126	41	24636739	24681431	1	None	PALS2, VAM-1, p55T
7	MPP6	ENSG00000105926	ENST00000472674	retained_intron	KNOWN	None	18167	None	None	24703093	24705665	1	None	PALS2, VAM-1, p55T
7	MPP6	ENSG00000105926	ENST00000464384	nonsense_mediated_decay	KNOWN	None	18167	193	63	24705302	24727495	1	None	PALS2, VAM-1, p55T
5	GTF2H2C	ENSG00000183474	ENST00000512736	protein_coding	NOVEL	None	31394	498	165	68856035	68868671	1	None	None
5	GTF2H2C	ENSG00000183474	ENST00000514069	nonsense_mediated_decay	KNOWN	None	31394	156	51	68856036	68874574	1	None	None
5	GTF2H2C	ENSG00000183474	ENST00000511629	nonsense_mediated_decay	KNOWN	None	31394	156	51	68856050	68865838	1	None	None
5	GTF2H2C	ENSG00000183474	ENST00000502619	retained_intron	KNOWN	None	31394	None	None	68856050	68875608	1	None	None
5	GTF2H2C	ENSG00000183474	ENST00000506129	nonsense_mediated_decay	KNOWN	None	31394	279	92	68856052	68881423	1	None	None
5	GTF2H2C	ENSG00000183474	ENST00000510979	protein_coding	KNOWN	CCDS43325	31394	1188	395	68856069	68889594	1	None	None
5	GTF2H2C	ENSG00000183474	ENST00000514162	protein_coding	NOVEL	None	31394	372	123	68856074	68888073	1	None	None
5	GTF2H2C	ENSG00000183474	ENST00000380729	protein_coding	KNOWN	CCDS43325	31394	1188	395	68856074	68888352	1	None	None
5	GTF2H2C	ENSG00000183474	ENST00000505737	processed_transcript	KNOWN	None	31394	None	None	68856086	68860960	1	None	None
5	GTF2H2C	ENSG00000183474	ENST00000446221	nonsense_mediated_decay	KNOWN	None	31394	156	51	68856121	68888687	1	None	None
5	GTF2H2C	ENSG00000183474	ENST00000508325	retained_intron	KNOWN	None	31394	None	None	68858479	68863042	1	None	None
5	GTF2H2C	ENSG00000183474	ENST00000507595	protein_coding	NOVEL	None	31394	761	252	68860949	68878247	1	None	None
5	GTF2H2C	ENSG00000183474	ENST00000502599	retained_intron	KNOWN	None	31394	None	None	68860960	68862313	1	None	None
5	GTF2H2C	ENSG00000183474	ENST00000503604	retained_intron	KNOWN	None	31394	None	None	68861196	68868377	1	None	None
5	GTF2H2C	ENSG00000183474	ENST00000513959	processed_transcript	KNOWN	None	31394	None	None	68889300	68890550	1	None	None
5	GTF2H2C	ENSG00000183474	ENST00000508344	protein_coding	KNOWN	None	31394	1017	338	68856121	68888687	1	None	None
8	RNU4-83P	ENSG00000222795	ENST00000410863	snRNA	KNOWN	None	47019	None	None	101843956	101844088	-1	None	None
16	None	ENSG00000260293	ENST00000561847	sense_intronic	KNOWN	None	None	None	None	2526559	2527062	1	None	None
X	TBX22	ENSG00000122145	ENST00000373296	protein_coding	KNOWN	CCDS14445	11600	1563	520	79270255	79286872	1	CPX, CLPA	None
X	TBX22	ENSG00000122145	ENST00000476373	processed_transcript	KNOWN	None	11600	None	None	79270268	79278153	1	CPX, CLPA	None
X	TBX22	ENSG00000122145	ENST00000373294	protein_coding	KNOWN	CCDS14445	11600	1563	520	79277741	79287268	1	CPX, CLPA	None
X	TBX22	ENSG00000122145	ENST00000373291	protein_coding	KNOWN	CCDS43975	11600	1203	400	79278568	79287268	1	CPX, CLPA	None
X	TBX22	ENSG00000122145	ENST00000442340	protein_coding	KNOWN	CCDS43975	11600	1203	400	79270255	79287268	1	CPX, CLPA	None
8	None	ENSG00000253290	ENST00000517763	unprocessed_pseudogene	KNOWN	None	None	None	None	27760746	27761012	-1	None	None
12	None	ENSG00000257643	ENST00000548906	processed_pseudogene	KNOWN	None	None	None	None	32845438	32845782	-1	None	None
8	RPS26P6	ENSG00000212994	ENST00000475156	processed_pseudogene	KNOWN	None	31090	None	None	101907999	101908346	1	None	None
8	RPS26P6	ENSG00000212994	ENST00000391676	processed_pseudogene	KNOWN	None	31090	None	None	101907974	101908387	1	None	None
17	HOXB2	ENSG00000173917	ENST00000504772	processed_transcript	KNOWN	None	5113	None	None	46618256	46620508	-1	HOX2, HOX2H	None
17	HOXB2	ENSG00000173917	ENST00000330070	protein_coding	KNOWN	CCDS11527	5113	1071	356	46620017	46623441	-1	HOX2, HOX2H	None
17	HOXB2	ENSG00000173917	ENST00000571287	processed_transcript	KNOWN	None	5113	None	None	46620521	46621271	-1	HOX2, HOX2H	None
17	HOXB2	ENSG00000173917	ENST00000574746	processed_transcript	PUTATIVE	None	5113	None	None	46620994	46621305	-1	HOX2, HOX2H	None
7	None	ENSG00000228851	ENST00000419236	unprocessed_pseudogene	KNOWN	None	None	None	None	57258848	57259634	1	None	None
1	None	ENSG00000271853	ENST00000497086	processed_transcript	KNOWN	None	None	None	None	153598808	153606816	-1	None	None
1	None	ENSG00000271853	ENST00000484413	processed_transcript	KNOWN	None	None	None	None	153599967	153606525	-1	None	None
1	None	ENSG00000271853	ENST00000472233	processed_transcript	KNOWN	None	None	None	None	153599984	153606587	-1	None	None
19	MSRB1P1	ENSG00000213926	ENST00000396851	processed_pseudogene	KNOWN	None	43985	None	None	39745556	39745909	-1	None	None
1	LYPD8	ENSG00000232694	ENST00000436484	lincRNA	KNOWN	None	44208	None	None	248881947	248885506	-1	None	None
3	None	ENSG00000242828	ENST00000482003	lincRNA	KNOWN	None	None	None	None	80810193	80838114	-1	None	None
12	RNA5SP365	ENSG00000252207	ENST00000516398	rRNA	KNOWN	None	43265	None	None	90120713	90120819	1	RN5S365	None
16	MIR3178	ENSG00000266232	ENST00000581887	miRNA	KNOWN	None	38381	None	None	2581923	2582006	-1	None	hsa-mir-3178
21	MORC3	ENSG00000159256	ENST00000492336	retained_intron	KNOWN	None	23572	None	None	37692487	37711825	1	ZCWCC3	ZCW5, NXP2, KIAA0136
21	MORC3	ENSG00000159256	ENST00000400485	protein_coding	KNOWN	CCDS42924	23572	2820	939	37692487	37748944	1	ZCWCC3	ZCW5, NXP2, KIAA0136
21	MORC3	ENSG00000159256	ENST00000487909	processed_transcript	KNOWN	None	23572	None	None	37692529	37748944	1	ZCWCC3	ZCW5, NXP2, KIAA0136
21	MORC3	ENSG00000159256	ENST00000485933	retained_intron	KNOWN	None	23572	None	None	37705717	37709288	1	ZCWCC3	ZCW5, NXP2, KIAA0136
21	MORC3	ENSG00000159256	ENST00000485299	processed_transcript	KNOWN	None	23572	None	None	37720170	37732347	1	ZCWCC3	ZCW5, NXP2, KIAA0136
21	MORC3	ENSG00000159256	ENST00000484028	retained_intron	KNOWN	None	23572	None	None	37734134	37741413	1	ZCWCC3	ZCW5, NXP2, KIAA0136
21	MORC3	ENSG00000159256	ENST00000546482	nonsense_mediated_decay	KNOWN	None	23572	576	191	37741909	37758446	1	ZCWCC3	ZCW5, NXP2, KIAA0136
21	MORC3	ENSG00000159256	ENST00000549948	nonsense_mediated_decay	KNOWN	None	23572	576	191	37741909	37758446	1	ZCWCC3	ZCW5, NXP2, KIAA0136
21	MORC3	ENSG00000159256	ENST00000551788	nonsense_mediated_decay	KNOWN	None	23572	576	191	37741909	37758446	1	ZCWCC3	ZCW5, NXP2, KIAA0136
21	MORC3	ENSG00000159256	ENST00000551367	processed_transcript	KNOWN	None	23572	None	None	37741909	37758446	1	ZCWCC3	ZCW5, NXP2, KIAA0136
21	MORC3	ENSG00000159256	ENST00000552581	nonsense_mediated_decay	KNOWN	None	23572	680	225	37741909	37758446	1	ZCWCC3	ZCW5, NXP2, KIAA0136
21	MORC3	ENSG00000159256	ENST00000547657	processed_transcript	KNOWN	None	23572	None	None	37741909	37758446	1	ZCWCC3	ZCW5, NXP2, KIAA0136
3	None	ENSG00000271249	ENST00000603970	processed_pseudogene	KNOWN	None	None	None	None	109420303	109421065	-1	None	None
1	None	ENSG00000229635	ENST00000452808	processed_pseudogene	KNOWN	None	None	None	None	93850044	93850555	-1	None	None
2	None	ENSG00000233339	ENST00000419904	antisense	KNOWN	None	None	None	None	106795998	106800253	1	None	None
5	PGGT1B	ENSG00000164219	ENST00000419445	protein_coding	KNOWN	CCDS4116	8895	1134	377	114546527	114598569	-1	None	GGTI, BGGI
5	PGGT1B	ENSG00000164219	ENST00000379615	protein_coding	KNOWN	None	8895	903	300	114548099	114598548	-1	None	GGTI, BGGI
5	PGGT1B	ENSG00000164219	ENST00000514178	processed_transcript	KNOWN	None	8895	None	None	114552562	114567481	-1	None	GGTI, BGGI
5	PGGT1B	ENSG00000164219	ENST00000296642	processed_transcript	KNOWN	None	8895	None	None	114552562	114588873	-1	None	GGTI, BGGI
5	PGGT1B	ENSG00000164219	ENST00000503638	retained_intron	KNOWN	None	8895	None	None	114588528	114598562	-1	None	GGTI, BGGI
5	None	ENSG00000253311	ENST00000522627	lincRNA	KNOWN	None	None	None	None	159203779	159298391	-1	None	None
12	None	ENSG00000200309	ENST00000363439	misc_RNA	NOVEL	None	None	None	None	49526636	49526730	-1	None	None
18	None	ENSG00000215512	ENST00000508721	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	15307662	15330281	-1	None	None
18	None	ENSG00000215512	ENST00000455308	processed_transcript	KNOWN	None	None	None	None	15313555	15330262	-1	None	None
18	None	ENSG00000215512	ENST00000504516	processed_transcript	KNOWN	None	None	None	None	15316484	15325918	-1	None	None
18	None	ENSG00000215512	ENST00000333851	unprocessed_pseudogene	KNOWN	None	None	None	None	15313555	15330114	-1	None	None
5	None	ENSG00000250567	ENST00000507948	lincRNA	KNOWN	None	None	None	None	102744642	102748212	-1	None	None
1	AHCYP8	ENSG00000242529	ENST00000425108	processed_pseudogene	KNOWN	None	45000	None	None	248885294	248885502	-1	None	None
19	None	ENSG00000272311	ENST00000607083	unprocessed_pseudogene	KNOWN	None	None	None	None	39755022	39756457	1	None	None
11	None	ENSG00000266866	ENST00000582555	miRNA	NOVEL	None	None	None	None	73068180	73068286	1	None	None
18	TTC39C	ENSG00000168234	ENST00000304621	protein_coding	KNOWN	CCDS32804	26595	1569	522	21572737	21712991	1	C18orf17	FLJ33761, HsT2697
18	TTC39C	ENSG00000168234	ENST00000584250	protein_coding	KNOWN	CCDS58616	26595	231	76	21594384	21600252	1	C18orf17	FLJ33761, HsT2697
18	TTC39C	ENSG00000168234	ENST00000317571	protein_coding	KNOWN	CCDS45839	26595	1752	583	21594600	21712992	1	C18orf17	FLJ33761, HsT2697
18	TTC39C	ENSG00000168234	ENST00000578150	processed_transcript	KNOWN	None	26595	None	None	21594877	21660743	1	C18orf17	FLJ33761, HsT2697
18	TTC39C	ENSG00000168234	ENST00000577185	protein_coding	PUTATIVE	None	26595	132	43	21596598	21600249	1	C18orf17	FLJ33761, HsT2697
18	TTC39C	ENSG00000168234	ENST00000540918	protein_coding	PUTATIVE	None	26595	831	276	21693317	21715574	1	C18orf17	FLJ33761, HsT2697
18	TTC39C	ENSG00000168234	ENST00000579214	protein_coding	PUTATIVE	None	26595	201	66	21694237	21703901	1	C18orf17	FLJ33761, HsT2697
18	TTC39C	ENSG00000168234	ENST00000581394	retained_intron	KNOWN	None	26595	None	None	21694304	21694996	1	C18orf17	FLJ33761, HsT2697
18	TTC39C	ENSG00000168234	ENST00000584424	retained_intron	KNOWN	None	26595	None	None	21703560	21712473	1	C18orf17	FLJ33761, HsT2697
18	TTC39C	ENSG00000168234	ENST00000584095	retained_intron	KNOWN	None	26595	None	None	21703591	21705626	1	C18orf17	FLJ33761, HsT2697
14	None	ENSG00000258776	ENST00000554149	lincRNA	KNOWN	None	None	None	None	57284288	57360066	-1	None	None
14	None	ENSG00000258776	ENST00000557467	lincRNA	KNOWN	None	None	None	None	57284472	57360428	-1	None	None
14	None	ENSG00000258776	ENST00000555946	lincRNA	KNOWN	None	None	None	None	57347536	57359877	-1	None	None
14	None	ENSG00000258776	ENST00000557136	lincRNA	KNOWN	None	None	None	None	57352389	57359967	-1	None	None
8	None	ENSG00000260368	ENST00000564694	sense_overlapping	KNOWN	None	None	None	None	101925475	101926616	-1	None	None
2	None	ENSG00000213295	ENST00000444291	processed_pseudogene	KNOWN	None	None	None	None	106863825	106864197	1	None	None
19	None	ENSG00000268262	ENST00000601911	sense_overlapping	KNOWN	None	None	None	None	39805291	39811498	-1	None	None
16	None	ENSG00000261613	ENST00000563449	antisense	KNOWN	None	None	None	None	2604061	2606061	-1	None	None
1	None	ENSG00000207379	ENST00000384649	misc_RNA	NOVEL	None	None	None	None	93851268	93851374	1	None	None
12	None	ENSG00000201563	ENST00000364693	misc_RNA	NOVEL	None	None	None	None	32858337	32858440	-1	None	None
5	CCDC152	ENSG00000198865	ENST00000361970	protein_coding	KNOWN	CCDS47203	34438	765	254	42756903	42802462	1	None	LOC100129792
5	CCDC152	ENSG00000198865	ENST00000388827	protein_coding	NOVEL	None	34438	597	198	42756920	42800453	1	None	LOC100129792
2	None	ENSG00000265629	ENST00000581929	protein_coding	KNOWN	None	None	450	149	14775215	14790933	1	None	None
1	RNA5SP53	ENSG00000212601	ENST00000391299	rRNA	KNOWN	None	42830	None	None	93953890	93954009	-1	RN5S53	None
15	ABCB10P4	ENSG00000260053	ENST00000566803	processed_pseudogene	KNOWN	None	31130	None	None	28751771	28753954	-1	None	None
12	None	ENSG00000257511	ENST00000550917	processed_pseudogene	KNOWN	None	None	None	None	32879317	32880321	-1	None	None
11	None	ENSG00000254478	ENST00000532177	processed_pseudogene	KNOWN	None	None	None	None	118692604	118692793	1	None	None
7	CARD11	ENSG00000198286	ENST00000396946	protein_coding	KNOWN	CCDS5336	16393	3465	1154	2945775	3083579	-1	None	CARMA1, BIMP3
7	CARD11	ENSG00000198286	ENST00000480332	retained_intron	KNOWN	None	16393	None	None	2956924	2962674	-1	None	CARMA1, BIMP3
7	CARD11	ENSG00000198286	ENST00000355508	protein_coding	NOVEL	None	16393	815	270	2959114	2969694	-1	None	CARMA1, BIMP3
7	CARD11	ENSG00000198286	ENST00000356408	protein_coding	KNOWN	None	16393	219	72	2987210	3083479	-1	None	CARMA1, BIMP3
12	GPR182	ENSG00000166856	ENST00000300098	protein_coding	KNOWN	CCDS8927	13708	1215	404	57388230	57390468	1	ADMR	hrhAMR, G10D, AM-R
12	None	ENSG00000258101	ENST00000549023	antisense	KNOWN	None	None	None	None	49627352	49658539	-1	None	None
11	RN7SL12P	ENSG00000239553	ENST00000473849	misc_RNA	KNOWN	None	46028	None	None	66480192	66480480	-1	None	None
5	None	ENSG00000226926	ENST00000602846	processed_transcript	KNOWN	None	None	None	None	102766107	102797044	-1	None	None
5	None	ENSG00000226926	ENST00000412514	unitary_pseudogene	KNOWN	None	None	None	None	102766234	102862319	-1	None	None
3	MCCC1-AS1	ENSG00000243368	ENST00000471731	antisense	KNOWN	None	40366	None	None	182734043	182735596	1	None	None
13	RBM22P2	ENSG00000213411	ENST00000393978	processed_pseudogene	KNOWN	None	39695	None	None	31113734	31117598	-1	None	None
1	None	ENSG00000229663	ENST00000427780	processed_pseudogene	KNOWN	None	None	None	None	249065834	249067991	-1	None	None
7	None	ENSG00000227863	ENST00000448260	lincRNA	KNOWN	None	None	None	None	89073288	89123576	1	None	None
11	None	ENSG00000213409	ENST00000528754	processed_pseudogene	KNOWN	None	None	None	None	66529046	66529870	-1	None	None
1	None	ENSG00000224093	ENST00000431770	antisense	KNOWN	None	None	None	None	94057756	94060341	1	None	None
1	None	ENSG00000224093	ENST00000427243	antisense	KNOWN	None	None	None	None	94057807	94067997	1	None	None
1	None	ENSG00000224093	ENST00000417401	antisense	KNOWN	None	None	None	None	94057807	94071130	1	None	None
1	None	ENSG00000224093	ENST00000412628	antisense	KNOWN	None	None	None	None	94059942	94066319	1	None	None
1	None	ENSG00000224093	ENST00000446684	antisense	KNOWN	None	None	None	None	94059947	94065297	1	None	None
3	None	ENSG00000214380	ENST00000488231	processed_pseudogene	KNOWN	None	None	None	None	109634823	109635787	-1	None	None
1	None	ENSG00000259832	ENST00000563017	unprocessed_pseudogene	KNOWN	None	None	None	None	47433351	47433546	-1	None	None
3	None	ENSG00000242781	ENST00000473938	lincRNA	KNOWN	None	None	None	None	80814048	80838505	1	None	None
7	RNU6-274P	ENSG00000239075	ENST00000459566	snRNA	KNOWN	None	47237	None	None	89383934	89384040	-1	None	None
X	MIR320D2	ENSG00000221081	ENST00000408154	miRNA	KNOWN	None	35388	None	None	140008337	140008384	-1	MIRN320D2	hsa-mir-320d-2
14	None	ENSG00000258636	ENST00000557067	lincRNA	KNOWN	None	None	None	None	42057064	42074059	-1	None	None
1	None	ENSG00000261196	ENST00000568156	unprocessed_pseudogene	KNOWN	None	None	None	None	47460054	47460174	-1	None	None
16	None	ENSG00000246465	ENST00000501520	lincRNA	KNOWN	None	None	None	None	28296206	28303385	-1	None	None
8	SNX16	ENSG00000104497	ENST00000353788	protein_coding	KNOWN	CCDS6235	14980	948	315	82711816	82754428	-1	None	None
8	SNX16	ENSG00000104497	ENST00000345957	protein_coding	KNOWN	CCDS6234	14980	1035	344	82713193	82754539	-1	None	None
8	SNX16	ENSG00000104497	ENST00000520618	protein_coding	PUTATIVE	None	14980	488	161	82715351	82754441	-1	None	None
8	SNX16	ENSG00000104497	ENST00000519212	retained_intron	KNOWN	None	14980	None	None	82726880	82736085	-1	None	None
8	SNX16	ENSG00000104497	ENST00000523757	protein_coding	PUTATIVE	None	14980	524	173	82736027	82754418	-1	None	None
8	SNX16	ENSG00000104497	ENST00000521810	protein_coding	KNOWN	None	14980	611	202	82736027	82755101	-1	None	None
8	SNX16	ENSG00000104497	ENST00000519119	protein_coding	PUTATIVE	None	14980	219	72	82751916	82754537	-1	None	None
8	SNX16	ENSG00000104497	ENST00000519817	protein_coding	KNOWN	None	14980	277	91	82751945	82754193	-1	None	None
8	SNX16	ENSG00000104497	ENST00000518183	protein_coding	KNOWN	None	14980	253	83	82751969	82754452	-1	None	None
8	SNX16	ENSG00000104497	ENST00000521773	protein_coding	KNOWN	None	14980	109	35	82752113	82754289	-1	None	None
8	SNX16	ENSG00000104497	ENST00000396330	protein_coding	KNOWN	CCDS6234	14980	1035	344	82711822	82754521	-1	None	None
7	STEAP2-AS1	ENSG00000227646	ENST00000478318	antisense	KNOWN	None	40820	None	None	89511667	89840949	-1	None	None
7	STEAP2-AS1	ENSG00000227646	ENST00000433534	retained_intron	KNOWN	None	40820	None	None	89838584	89840949	-1	None	None
7	CTAGE6	ENSG00000271321	ENST00000470691	protein_coding	KNOWN	None	28644	2334	777	143452182	143454789	-1	CTAGE6P	MGC41943
12	None	ENSG00000244743	ENST00000462203	processed_pseudogene	KNOWN	None	None	None	None	33016052	33016367	1	None	None
1	MIR3124	ENSG00000264500	ENST00000582636	miRNA	KNOWN	None	38262	None	None	249120576	249120642	1	None	hsa-mir-3124
15	None	ENSG00000254912	ENST00000528049	unprocessed_pseudogene	KNOWN	None	None	None	None	32786204	32792547	-1	None	None
11	None	ENSG00000256928	ENST00000544674	antisense	KNOWN	None	None	None	None	73106604	73107481	-1	None	None
8	None	ENSG00000270154	ENST00000602979	lincRNA	KNOWN	None	None	None	None	12333971	12334631	1	None	None
2	None	ENSG00000224061	ENST00000436597	processed_pseudogene	KNOWN	None	None	None	None	106869687	106870173	-1	None	None
13	MFAP1P1	ENSG00000232489	ENST00000442257	processed_pseudogene	KNOWN	None	39694	None	None	31115780	31117034	-1	None	None
14	None	ENSG00000251858	ENST00000516049	snoRNA	NOVEL	None	None	None	None	42063666	42063794	1	None	None
1	None	ENSG00000227237	ENST00000417047	antisense	KNOWN	None	None	None	None	249153363	249158995	1	None	None
16	GLYR1	ENSG00000140632	ENST00000589389	protein_coding	NOVEL	None	24434	1573	523	4853204	4896211	-1	None	BM045, HIBDL, NP60, N-PAC
16	GLYR1	ENSG00000140632	ENST00000588732	nonsense_mediated_decay	KNOWN	None	24434	159	52	4853204	4897272	-1	None	BM045, HIBDL, NP60, N-PAC
16	GLYR1	ENSG00000140632	ENST00000436648	protein_coding	NOVEL	None	24434	1419	472	4853204	4897280	-1	None	BM045, HIBDL, NP60, N-PAC
16	GLYR1	ENSG00000140632	ENST00000321919	protein_coding	KNOWN	CCDS10524	24434	1662	553	4853204	4897343	-1	None	BM045, HIBDL, NP60, N-PAC
16	GLYR1	ENSG00000140632	ENST00000587936	nonsense_mediated_decay	KNOWN	None	24434	114	37	4853255	4864630	-1	None	BM045, HIBDL, NP60, N-PAC
16	GLYR1	ENSG00000140632	ENST00000591451	protein_coding	NOVEL	None	24434	1644	547	4855050	4897266	-1	None	BM045, HIBDL, NP60, N-PAC
16	GLYR1	ENSG00000140632	ENST00000591846	retained_intron	KNOWN	None	24434	None	None	4864568	4867924	-1	None	BM045, HIBDL, NP60, N-PAC
16	GLYR1	ENSG00000140632	ENST00000588297	protein_coding	NOVEL	None	24434	557	184	4867654	4897289	-1	None	BM045, HIBDL, NP60, N-PAC
16	GLYR1	ENSG00000140632	ENST00000586095	retained_intron	KNOWN	None	24434	None	None	4867665	4871665	-1	None	BM045, HIBDL, NP60, N-PAC
16	GLYR1	ENSG00000140632	ENST00000587297	protein_coding	PUTATIVE	None	24434	516	171	4871205	4882222	-1	None	BM045, HIBDL, NP60, N-PAC
16	GLYR1	ENSG00000140632	ENST00000586901	processed_transcript	KNOWN	None	24434	None	None	4872901	4883201	-1	None	BM045, HIBDL, NP60, N-PAC
16	GLYR1	ENSG00000140632	ENST00000587875	retained_intron	KNOWN	None	24434	None	None	4882456	4897283	-1	None	BM045, HIBDL, NP60, N-PAC
16	GLYR1	ENSG00000140632	ENST00000591159	retained_intron	KNOWN	None	24434	None	None	4882866	4893913	-1	None	BM045, HIBDL, NP60, N-PAC
16	GLYR1	ENSG00000140632	ENST00000381983	protein_coding	KNOWN	None	24434	1611	536	4853207	4897282	-1	None	BM045, HIBDL, NP60, N-PAC
19	None	ENSG00000269246	ENST00000599274	lincRNA	KNOWN	None	None	None	None	39832413	39832585	-1	None	None
12	MRPL2P1	ENSG00000257480	ENST00000546688	processed_pseudogene	KNOWN	None	29698	None	None	90146690	90147608	1	None	None
12	None	ENSG00000258232	ENST00000550468	antisense	KNOWN	None	None	None	None	49658939	49667089	-1	None	None
1	None	ENSG00000261593	ENST00000567218	unprocessed_pseudogene	KNOWN	None	None	None	None	47466570	47466759	-1	None	None
8	None	ENSG00000221714	ENST00000408787	miRNA	NOVEL	None	None	None	None	12384247	12384350	1	None	None
11	FTLP6	ENSG00000254984	ENST00000355274	processed_pseudogene	KNOWN	None	37954	None	None	66538717	66539138	-1	None	None
5	GAPDHP40	ENSG00000248626	ENST00000505218	processed_pseudogene	KNOWN	None	37797	None	None	159377500	159378505	-1	None	None
1	None	ENSG00000234996	ENST00000456105	lincRNA	KNOWN	None	None	None	None	202830882	202844369	1	None	None
7	None	ENSG00000238358	ENST00000471553	lincRNA	KNOWN	None	None	None	None	89748613	89752204	-1	None	None
12	None	ENSG00000255655	ENST00000539987	antisense	KNOWN	None	None	None	None	109883215	109885302	-1	None	None
13	PTPN2P2	ENSG00000224117	ENST00000433704	processed_pseudogene	KNOWN	None	9654	None	None	31127807	31128830	1	None	None
14	None	ENSG00000258536	ENST00000553366	processed_pseudogene	KNOWN	None	None	None	None	42211842	42212166	1	None	None
1	None	ENSG00000230439	ENST00000433544	sense_intronic	KNOWN	None	None	None	None	94218480	94241000	-1	None	None
1	RNU6-1205P	ENSG00000200495	ENST00000363625	snRNA	KNOWN	None	48168	None	None	249206889	249206994	-1	None	None
11	None	ENSG00000256448	ENST00000542598	antisense	KNOWN	None	None	None	None	73116342	73121717	1	None	None
11	None	ENSG00000256448	ENST00000536855	antisense	KNOWN	None	None	None	None	73116342	73121727	1	None	None
1	OR2T29	ENSG00000182783	ENST00000328570	protein_coding	KNOWN	CCDS55695	31253	948	315	248721784	248722797	-1	None	None
3	None	ENSG00000243694	ENST00000482617	lincRNA	KNOWN	None	None	None	None	81043019	81144798	1	None	None
1	None	ENSG00000261290	ENST00000569984	unprocessed_pseudogene	KNOWN	None	None	None	None	47468667	47468820	-1	None	None
6	None	ENSG00000232532	ENST00000458201	antisense	KNOWN	None	None	None	None	90629915	90631479	1	None	None
8	None	ENSG00000253615	ENST00000521019	unprocessed_pseudogene	KNOWN	None	None	None	None	27761083	27761232	1	None	None
1	None	ENSG00000233084	ENST00000430973	processed_pseudogene	KNOWN	None	None	None	None	249230780	249231242	1	None	None
19	RNU6-1307P	ENSG00000212314	ENST00000391012	snRNA	KNOWN	None	48270	None	None	54767805	54767913	-1	None	None
7	DPY19L2P4	ENSG00000235436	ENST00000497063	processed_transcript	KNOWN	None	22176	None	None	89748714	89754914	1	None	IMAGE:5295327
7	DPY19L2P4	ENSG00000235436	ENST00000479881	transcribed_unprocessed_pseudogene	KNOWN	None	22176	None	None	89748853	89753477	1	None	IMAGE:5295327
7	DPY19L2P4	ENSG00000235436	ENST00000435862	pseudogene	KNOWN	None	22176	None	None	89748735	89751071	1	None	IMAGE:5295327
8	RPS3AP34	ENSG00000242607	ENST00000483613	processed_pseudogene	KNOWN	None	36293	None	None	12427859	12428639	-1	None	None
5	None	ENSG00000199398	ENST00000362528	misc_RNA	NOVEL	None	None	None	None	159435452	159435553	1	None	None
1	None	ENSG00000243113	ENST00000438944	transcribed_processed_pseudogene	KNOWN	None	None	None	None	202842422	202843454	1	None	None
22	APOBEC3F	ENSG00000128394	ENST00000491387	processed_transcript	KNOWN	None	17356	None	None	39436609	39441197	1	None	ARP8, BK150C2.4.MRNA, KA6
22	APOBEC3F	ENSG00000128394	ENST00000308521	protein_coding	KNOWN	CCDS33648	17356	1122	373	39436609	39449915	1	None	ARP8, BK150C2.4.MRNA, KA6
22	APOBEC3F	ENSG00000128394	ENST00000381565	protein_coding	PUTATIVE	CCDS33649	17356	306	101	39436862	39440428	1	None	ARP8, BK150C2.4.MRNA, KA6
22	APOBEC3F	ENSG00000128394	ENST00000476513	retained_intron	KNOWN	None	17356	None	None	39441189	39448292	1	None	ARP8, BK150C2.4.MRNA, KA6
16	None	ENSG00000271623	ENST00000603787	processed_pseudogene	KNOWN	None	None	None	None	28376021	28376654	1	None	None
19	None	ENSG00000240042	ENST00000454504	processed_pseudogene	KNOWN	None	None	None	None	54771858	54772896	1	None	None
12	RNU4-65P	ENSG00000222405	ENST00000410473	snRNA	KNOWN	None	47001	None	None	70837564	70837703	-1	None	None
1	MIR760	ENSG00000211575	ENST00000390220	miRNA	KNOWN	None	33666	None	None	94312388	94312467	1	MIRN760	hsa-mir-760
15	None	ENSG00000238607	ENST00000458870	miRNA	NOVEL	None	None	None	None	28768331	28768413	-1	None	None
3	KBTBD8	ENSG00000163376	ENST00000484414	protein_coding	PUTATIVE	None	30691	499	165	67048731	67054121	1	None	TA-KRP, KIAA1842
3	KBTBD8	ENSG00000163376	ENST00000469661	processed_transcript	PUTATIVE	None	30691	None	None	67048731	67054252	1	None	TA-KRP, KIAA1842
3	KBTBD8	ENSG00000163376	ENST00000460576	protein_coding	PUTATIVE	None	30691	480	159	67048731	67059264	1	None	TA-KRP, KIAA1842
3	KBTBD8	ENSG00000163376	ENST00000417314	protein_coding	KNOWN	CCDS2906	30691	1806	601	67048731	67061634	1	None	TA-KRP, KIAA1842
3	KBTBD8	ENSG00000163376	ENST00000460784	protein_coding	PUTATIVE	None	30691	439	145	67049349	67053908	1	None	TA-KRP, KIAA1842
3	KBTBD8	ENSG00000163376	ENST00000295568	protein_coding	KNOWN	None	30691	1728	575	67048727	67061634	1	None	TA-KRP, KIAA1842
12	None	ENSG00000268162	ENST00000600202	protein_coding	KNOWN	None	None	591	196	57390745	57391335	1	None	None
8	None	ENSG00000207199	ENST00000384470	snoRNA	NOVEL	None	None	None	None	38876134	38876202	-1	None	None
1	None	ENSG00000225154	ENST00000445574	processed_pseudogene	KNOWN	None	None	None	None	47540450	47541651	-1	None	None
X	None	ENSG00000229269	ENST00000413328	lincRNA	KNOWN	None	None	None	None	140013903	140079613	1	None	None
3	None	ENSG00000243945	ENST00000498515	processed_pseudogene	KNOWN	None	None	None	None	109696387	109696614	-1	None	None
15	RN7SL829P	ENSG00000244424	ENST00000489494	misc_RNA	KNOWN	None	46845	None	None	28769299	28769577	-1	None	None
5	None	ENSG00000223908	ENST00000520807	processed_pseudogene	KNOWN	None	None	None	None	159450747	159451052	-1	None	None
1	None	ENSG00000260464	ENST00000565336	lincRNA	KNOWN	None	None	None	None	94312730	94314495	1	None	None
3	None	ENSG00000241131	ENST00000490465	lincRNA	KNOWN	None	None	None	None	147795946	147805816	1	None	None
2	None	ENSG00000230353	ENST00000481111	processed_pseudogene	KNOWN	None	None	None	None	106905259	106905509	-1	None	None
2	None	ENSG00000230353	ENST00000595915	processed_pseudogene	KNOWN	None	None	None	None	106905270	106905509	-1	None	None
MT	MT-TF	ENSG00000210049	ENST00000387314	Mt_tRNA	KNOWN	None	7481	None	None	577	647	1	MTTF	trnF
22	UPB1	ENSG00000100024	ENST00000415388	nonsense_mediated_decay	KNOWN	None	16297	129	42	24890075	24922636	1	None	BUP1
22	UPB1	ENSG00000100024	ENST00000326010	protein_coding	KNOWN	CCDS13827	16297	1155	384	24891028	24922553	1	None	BUP1
22	UPB1	ENSG00000100024	ENST00000382760	protein_coding	PUTATIVE	None	16297	561	186	24891210	24899706	1	None	BUP1
22	UPB1	ENSG00000100024	ENST00000498140	processed_transcript	KNOWN	None	16297	None	None	24915769	24924358	1	None	BUP1
22	UPB1	ENSG00000100024	ENST00000486043	retained_intron	KNOWN	None	16297	None	None	24916142	24919668	1	None	BUP1
22	UPB1	ENSG00000100024	ENST00000413389	protein_coding	KNOWN	None	16297	951	316	24863206	24922636	1	None	BUP1
14	ACTN1-AS1	ENSG00000259062	ENST00000553961	antisense	KNOWN	None	20131	None	None	69446399	69454180	1	C14orf84	None
14	ACTN1-AS1	ENSG00000259062	ENST00000553944	antisense	KNOWN	None	20131	None	None	69446758	69448270	1	C14orf84	None
MT	MT-RNR1	ENSG00000211459	ENST00000389680	Mt_rRNA	KNOWN	None	7470	None	None	648	1601	1	MTRNR1	None
1	None	ENSG00000272030	ENST00000607839	antisense	KNOWN	None	None	None	None	153603914	153604673	-1	None	None
1	None	ENSG00000272030	ENST00000469931	antisense	KNOWN	None	None	None	None	153604137	153606873	-1	None	None
8	None	ENSG00000253397	ENST00000517735	antisense	KNOWN	None	None	None	None	27761998	27767827	1	None	None
8	None	ENSG00000238460	ENST00000458954	miRNA	NOVEL	None	None	None	None	12435514	12435661	1	None	None
11	SETP16	ENSG00000254621	ENST00000531054	processed_pseudogene	KNOWN	None	42935	None	None	118704555	118705265	-1	None	None
MT	MT-TV	ENSG00000210077	ENST00000387342	Mt_tRNA	KNOWN	None	7500	None	None	1602	1670	1	MTTV	trnV
3	RNA5SP151	ENSG00000202502	ENST00000365632	rRNA	KNOWN	None	43051	None	None	182976088	182976204	-1	RN5S151	None
1	CHCHD2P5	ENSG00000223490	ENST00000421414	processed_pseudogene	KNOWN	None	39589	None	None	94386824	94387223	-1	None	None
7	None	ENSG00000223029	ENST00000411097	miRNA	NOVEL	None	None	None	None	89800655	89800738	1	None	None
MT	MT-RNR2	ENSG00000210082	ENST00000387347	Mt_rRNA	KNOWN	None	7471	None	None	1671	3229	1	MTRNR2	HN
6	None	ENSG00000226455	ENST00000413986	antisense	KNOWN	None	None	None	None	90659835	90661708	1	None	None
6	None	ENSG00000226455	ENST00000445838	antisense	KNOWN	None	None	None	None	90660130	90662905	1	None	None
14	None	ENSG00000266500	ENST00000577890	miRNA	NOVEL	None	None	None	None	42421679	42421763	1	None	None
16	None	ENSG00000261288	ENST00000569220	sense_intronic	KNOWN	None	None	None	None	2604976	2606106	1	None	None
12	None	ENSG00000258334	ENST00000553259	antisense	KNOWN	None	None	None	None	49686414	49718359	-1	None	None
7	None	ENSG00000207488	ENST00000384757	misc_RNA	NOVEL	None	None	None	None	89881237	89881334	1	None	None
12	RAD51AP1	ENSG00000111247	ENST00000536346	nonsense_mediated_decay	KNOWN	None	16956	213	70	4647964	4658004	1	None	PIR51
12	RAD51AP1	ENSG00000111247	ENST00000536886	nonsense_mediated_decay	KNOWN	None	16956	216	71	4648035	4665677	1	None	PIR51
12	RAD51AP1	ENSG00000111247	ENST00000544110	nonsense_mediated_decay	KNOWN	None	16956	213	70	4648049	4662205	1	None	PIR51
12	RAD51AP1	ENSG00000111247	ENST00000398012	nonsense_mediated_decay	KNOWN	None	16956	213	70	4648049	4668185	1	None	PIR51
12	RAD51AP1	ENSG00000111247	ENST00000535558	nonsense_mediated_decay	KNOWN	None	16956	216	71	4648056	4668496	1	None	PIR51
12	RAD51AP1	ENSG00000111247	ENST00000442992	nonsense_mediated_decay	KNOWN	None	16956	213	70	4648056	4669184	1	None	PIR51
12	RAD51AP1	ENSG00000111247	ENST00000228843	protein_coding	KNOWN	CCDS44805	16956	1059	352	4648056	4669213	1	None	PIR51
12	RAD51AP1	ENSG00000111247	ENST00000352618	protein_coding	KNOWN	CCDS8529	16956	1008	335	4648056	4669214	1	None	PIR51
12	RAD51AP1	ENSG00000111247	ENST00000538817	nonsense_mediated_decay	KNOWN	None	16956	225	74	4648073	4657341	1	None	PIR51
12	RAD51AP1	ENSG00000111247	ENST00000544927	protein_coding	PUTATIVE	None	16956	708	235	4648096	4668136	1	None	PIR51
12	RAD51AP1	ENSG00000111247	ENST00000536117	protein_coding	PUTATIVE	None	16956	773	256	4651050	4665665	1	None	PIR51
12	RAD51AP1	ENSG00000111247	ENST00000544173	nonsense_mediated_decay	KNOWN	None	16956	207	68	4651051	4657936	1	None	PIR51
12	RAD51AP1	ENSG00000111247	ENST00000544029	retained_intron	KNOWN	None	16956	None	None	4652950	4662431	1	None	PIR51
12	RAD51AP1	ENSG00000111247	ENST00000544931	processed_transcript	PUTATIVE	None	16956	None	None	4659681	4668848	1	None	PIR51
12	RAD51AP1	ENSG00000111247	ENST00000321524	protein_coding	KNOWN	None	16956	909	302	4647950	4669213	1	None	PIR51
12	RAD51AP1	ENSG00000111247	ENST00000543041	protein_coding	KNOWN	None	16956	702	233	4648049	4668185	1	None	PIR51
15	None	ENSG00000261041	ENST00000567691	unprocessed_pseudogene	KNOWN	None	None	None	None	28791058	28794923	1	None	None
MT	MT-TL1	ENSG00000209082	ENST00000386347	Mt_tRNA	KNOWN	None	7490	None	None	3230	3304	1	MTTL1	TRNL1
16	None	ENSG00000269937	ENST00000569852	antisense	KNOWN	None	None	None	None	2611472	2615097	-1	None	None
12	ZBTB39	ENSG00000166860	ENST00000300101	protein_coding	KNOWN	CCDS31839	29014	2139	712	57392618	57400230	-1	None	KIAA0352, ZNF922
7	None	ENSG00000234459	ENST00000420245	antisense	KNOWN	None	None	None	None	89895348	89899530	-1	None	None
1	CYP4A22-AS1	ENSG00000225506	ENST00000444042	lincRNA	KNOWN	None	43715	None	None	47562325	47644943	-1	None	ncRNA-a3
1	MTND4P11	ENSG00000234099	ENST00000417020	unprocessed_pseudogene	KNOWN	None	42223	None	None	94388130	94389501	-1	None	None
8	RPL3P10	ENSG00000243095	ENST00000476002	processed_pseudogene	KNOWN	None	36819	None	None	39015057	39016220	-1	None	None
1	HNRNPA1P59	ENSG00000230280	ENST00000430583	processed_pseudogene	KNOWN	None	48789	None	None	202880940	202881857	1	None	None
15	None	ENSG00000223509	ENST00000604301	processed_transcript	KNOWN	None	None	None	None	32812049	32819092	-1	None	None
15	None	ENSG00000223509	ENST00000561563	processed_transcript	KNOWN	None	None	None	None	32814894	32825942	-1	None	None
15	None	ENSG00000223509	ENST00000454486	transcribed_processed_pseudogene	KNOWN	None	None	None	None	32815227	32829127	-1	None	None
15	None	ENSG00000223509	ENST00000567237	retained_intron	KNOWN	None	None	None	None	32818851	32820842	-1	None	None
15	None	ENSG00000223509	ENST00000604846	processed_transcript	KNOWN	None	None	None	None	32820804	32822097	-1	None	None
19	None	ENSG00000240296	ENST00000416320	processed_pseudogene	KNOWN	None	None	None	None	54771859	54772899	1	None	None
MT	MT-ND1	ENSG00000198888	ENST00000361390	protein_coding	KNOWN	None	7455	956	317	3307	4262	1	MTND1	ND1, NAD1
12	WNT1	ENSG00000125084	ENST00000293549	protein_coding	KNOWN	CCDS8776	12774	1113	370	49372398	49375459	1	INT1	None
1	RN7SL372P	ENSG00000242565	ENST00000461982	misc_RNA	KNOWN	None	46388	None	None	153676564	153676859	1	None	None
2	None	ENSG00000233939	ENST00000439114	processed_pseudogene	KNOWN	None	None	None	None	106921211	106921653	1	None	None
MT	MT-TI	ENSG00000210100	ENST00000387365	Mt_tRNA	KNOWN	None	7488	None	None	4263	4331	1	MTTI	trnI
7	None	ENSG00000225498	ENST00000445784	lincRNA	KNOWN	None	None	None	None	89941810	89951906	1	None	None
16	None	ENSG00000261140	ENST00000562232	antisense	KNOWN	None	None	None	None	2619044	2621937	-1	None	None
6	RN7SKP110	ENSG00000222078	ENST00000410146	misc_RNA	KNOWN	None	45834	None	None	90710941	90711225	-1	None	None
MT	MT-TQ	ENSG00000210107	ENST00000387372	Mt_tRNA	KNOWN	None	7495	None	None	4329	4400	-1	MTTQ	trnQ
1	MTND1P34	ENSG00000225514	ENST00000438556	transcribed_processed_pseudogene	KNOWN	None	42090	None	None	47630182	47631592	-1	None	None
1	None	ENSG00000235794	ENST00000433774	unprocessed_pseudogene	KNOWN	None	None	None	None	94389942	94390272	-1	None	None
12	None	ENSG00000268721	ENST00000600544	processed_pseudogene	KNOWN	None	None	None	None	70840240	70841365	-1	None	None
1	None	ENSG00000235015	ENST00000454246	processed_pseudogene	KNOWN	None	None	None	None	153689779	153690823	-1	None	None
MT	MT-TM	ENSG00000210112	ENST00000387377	Mt_tRNA	KNOWN	None	7492	None	None	4402	4469	1	MTTM	trnM
14	None	ENSG00000259149	ENST00000555362	lincRNA	KNOWN	None	None	None	None	42728934	42737789	-1	None	None
6	None	ENSG00000218730	ENST00000404861	processed_pseudogene	KNOWN	None	None	None	None	90826419	90826824	-1	None	None
3	None	ENSG00000240895	ENST00000474711	lincRNA	KNOWN	None	None	None	None	110246329	110248429	-1	None	None
2	None	ENSG00000227513	ENST00000453101	processed_pseudogene	KNOWN	None	None	None	None	106961022	106961889	1	None	None
20	CST11	ENSG00000125831	ENST00000377009	protein_coding	KNOWN	CCDS13155	15959	417	138	23431040	23433482	-1	CST8L	dJ322G13.6, CTES2
20	CST11	ENSG00000125831	ENST00000377007	protein_coding	KNOWN	CCDS13154	15959	312	103	23431040	23433494	-1	CST8L	dJ322G13.6, CTES2
7	None	ENSG00000251154	ENST00000509356	unprocessed_pseudogene	KNOWN	None	None	None	None	90099101	90118278	1	None	None
MT	MT-ND2	ENSG00000198763	ENST00000361453	protein_coding	KNOWN	None	7456	1042	346	4470	5511	1	MTND2	ND2, NAD2
6	MIR4464	ENSG00000266760	ENST00000580818	miRNA	KNOWN	None	41528	None	None	91022461	91022552	1	None	hsa-mir-4464
1	None	ENSG00000199471	ENST00000362601	misc_RNA	NOVEL	None	None	None	None	202884008	202884108	-1	None	None
8	None	ENSG00000255122	ENST00000533893	processed_pseudogene	KNOWN	None	None	None	None	12437796	12438572	1	None	None
3	LINC00888	ENSG00000240024	ENST00000471496	processed_transcript	KNOWN	None	48575	None	None	183165396	183173801	1	None	None
3	LINC00888	ENSG00000240024	ENST00000468380	processed_transcript	KNOWN	None	48575	None	None	183165439	183173413	1	None	None
3	LINC00888	ENSG00000240024	ENST00000487386	transcribed_unprocessed_pseudogene	KNOWN	None	48575	None	None	183169529	183173123	1	None	None
3	LINC00888	ENSG00000240024	ENST00000482098	retained_intron	KNOWN	None	48575	None	None	183171431	183173329	1	None	None
1	None	ENSG00000232752	ENST00000430791	unprocessed_pseudogene	KNOWN	None	None	None	None	94390299	94390941	-1	None	None
1	OR2T34	ENSG00000183310	ENST00000328782	protein_coding	KNOWN	CCDS31120	31256	957	318	248737022	248738080	-1	None	None
16	None	ENSG00000261089	ENST00000562287	processed_pseudogene	KNOWN	None	None	None	None	28425024	28426339	1	None	None
HG7_PATCH	TRBJ2-2	ENSG00000261339	ENST00000562364	TR_J_gene	KNOWN	None	12169	51	16	142557453	142557503	1	None	TRBJ22, TCRBJ2S2
X	CSAG4	ENSG00000242599	ENST00000361201	processed_transcript	KNOWN	None	20923	None	None	151895976	151903136	-1	None	None
X	CSAG4	ENSG00000242599	ENST00000583763	transcribed_unprocessed_pseudogene	KNOWN	None	20923	None	None	151896280	151897097	-1	None	None
X	CSAG4	ENSG00000242599	ENST00000535353	unprocessed_pseudogene	KNOWN	None	20923	None	None	151896280	151896711	-1	None	None
MT	MT-TW	ENSG00000210117	ENST00000387382	Mt_tRNA	KNOWN	None	7501	None	None	5512	5579	1	MTTW	trnW
1	None	ENSG00000199565	ENST00000362695	misc_RNA	NOVEL	None	None	None	None	153698728	153698829	-1	None	None
MT	MT-TA	ENSG00000210127	ENST00000387392	Mt_tRNA	KNOWN	None	7475	None	None	5587	5655	-1	MTTA	trnA
6	None	ENSG00000260271	ENST00000569865	lincRNA	KNOWN	None	None	None	None	91054938	91072351	1	None	None
1	None	ENSG00000234761	ENST00000438139	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	202955685	202957710	-1	None	None
1	None	ENSG00000234761	ENST00000417729	processed_transcript	PUTATIVE	None	None	None	None	202956405	202957610	-1	None	None
19	MIR4752	ENSG00000264703	ENST00000579672	miRNA	KNOWN	None	41803	None	None	54785964	54786035	1	None	hsa-mir-4752
X	HNRNPDLP3	ENSG00000236185	ENST00000456745	processed_pseudogene	KNOWN	None	48754	None	None	94865577	94865956	1	None	None
2	None	ENSG00000229682	ENST00000413520	processed_pseudogene	KNOWN	None	None	None	None	106984665	106985332	-1	None	None
MT	MT-TN	ENSG00000210135	ENST00000387400	Mt_tRNA	KNOWN	None	7493	None	None	5657	5729	-1	MTTN	trnN
1	None	ENSG00000243613	ENST00000453778	antisense	KNOWN	None	None	None	None	153719327	153723703	-1	None	None
MT	MT-TC	ENSG00000210140	ENST00000387405	Mt_tRNA	KNOWN	None	7477	None	None	5761	5826	-1	MTTC	trnC
HG7_PATCH	TRBJ2-2P	ENSG00000259960	ENST00000568132	TR_J_gene	KNOWN	None	12170	46	14	142557590	142557635	1	None	TRBJ22P
8	GRHL2	ENSG00000083307	ENST00000251808	protein_coding	KNOWN	CCDS34931	2799	1878	625	102504660	102681954	1	DFNA28, TFCP2L3	FLJ13782, BOM
8	GRHL2	ENSG00000083307	ENST00000521085	protein_coding	KNOWN	None	2799	20	5	102504667	102505017	1	DFNA28, TFCP2L3	FLJ13782, BOM
8	GRHL2	ENSG00000083307	ENST00000472106	retained_intron	KNOWN	None	2799	None	None	102504670	102556298	1	DFNA28, TFCP2L3	FLJ13782, BOM
8	GRHL2	ENSG00000083307	ENST00000395927	protein_coding	KNOWN	None	2799	1830	609	102504986	102679121	1	DFNA28, TFCP2L3	FLJ13782, BOM
8	GRHL2	ENSG00000083307	ENST00000517674	processed_transcript	KNOWN	None	2799	None	None	102644454	102676738	1	DFNA28, TFCP2L3	FLJ13782, BOM
8	GRHL2	ENSG00000083307	ENST00000474338	retained_intron	KNOWN	None	2799	None	None	102648998	102676729	1	DFNA28, TFCP2L3	FLJ13782, BOM
12	ABCC9	ENSG00000069431	ENST00000261200	protein_coding	KNOWN	CCDS8693	60	4650	1549	21950335	22089608	-1	None	SUR2, CMD1O
12	ABCC9	ENSG00000069431	ENST00000544039	protein_coding	NOVEL	None	60	3531	1176	21958108	22063912	-1	None	SUR2, CMD1O
12	ABCC9	ENSG00000069431	ENST00000261201	protein_coding	KNOWN	CCDS8694	60	4650	1549	21958108	22089608	-1	None	SUR2, CMD1O
12	ABCC9	ENSG00000069431	ENST00000326684	protein_coding	PUTATIVE	None	60	450	149	22075903	22094336	-1	None	SUR2, CMD1O
12	ABCC9	ENSG00000069431	ENST00000538350	protein_coding	PUTATIVE	None	60	513	170	22076398	22094167	-1	None	SUR2, CMD1O
12	ABCC9	ENSG00000069431	ENST00000345162	protein_coding	KNOWN	None	60	4542	1513	21958108	22089628	-1	None	SUR2, CMD1O
X	None	ENSG00000224556	ENST00000456973	unprocessed_pseudogene	KNOWN	None	None	None	None	52164596	52202209	1	None	None
MT	MT-TY	ENSG00000210144	ENST00000387409	Mt_tRNA	KNOWN	None	7502	None	None	5826	5891	-1	MTTY	trnY
19	None	ENSG00000240197	ENST00000417373	unprocessed_pseudogene	KNOWN	None	None	None	None	54797902	54798219	-1	None	None
12	None	ENSG00000258168	ENST00000549460	antisense	KNOWN	None	None	None	None	70861860	70931840	1	None	None
12	None	ENSG00000258168	ENST00000548687	antisense	KNOWN	None	None	None	None	70861865	70932859	1	None	None
12	None	ENSG00000258168	ENST00000548924	antisense	KNOWN	None	None	None	None	70861890	70905002	1	None	None
12	None	ENSG00000258168	ENST00000549616	antisense	KNOWN	None	None	None	None	70861903	70914619	1	None	None
12	None	ENSG00000258168	ENST00000549359	antisense	KNOWN	None	None	None	None	70861903	70921529	1	None	None
12	None	ENSG00000258168	ENST00000551438	antisense	KNOWN	None	None	None	None	70861975	70931985	1	None	None
12	None	ENSG00000258168	ENST00000547656	antisense	KNOWN	None	None	None	None	70913971	70932279	1	None	None
12	None	ENSG00000258168	ENST00000546836	antisense	KNOWN	None	None	None	None	70913986	70932443	1	None	None
11	None	ENSG00000255786	ENST00000539481	processed_pseudogene	KNOWN	None	None	None	None	73163065	73163389	1	None	None
19	ZNF444	ENSG00000167685	ENST00000587467	protein_coding	KNOWN	None	16052	270	89	56643968	56658550	1	None	ZSCAN17, FLJ11137, EZF2
19	ZNF444	ENSG00000167685	ENST00000588358	protein_coding	KNOWN	None	16052	217	71	56652320	56658497	1	None	ZSCAN17, FLJ11137, EZF2
19	ZNF444	ENSG00000167685	ENST00000337080	protein_coding	KNOWN	CCDS12939	16052	984	327	56652556	56672261	1	None	ZSCAN17, FLJ11137, EZF2
19	ZNF444	ENSG00000167685	ENST00000587195	processed_transcript	KNOWN	None	16052	None	None	56652652	56667169	1	None	ZSCAN17, FLJ11137, EZF2
19	ZNF444	ENSG00000167685	ENST00000586123	protein_coding	KNOWN	None	16052	212	69	56652672	56658492	1	None	ZSCAN17, FLJ11137, EZF2
19	ZNF444	ENSG00000167685	ENST00000587664	processed_transcript	KNOWN	None	16052	None	None	56652682	56671406	1	None	ZSCAN17, FLJ11137, EZF2
19	ZNF444	ENSG00000167685	ENST00000592949	protein_coding	KNOWN	CCDS59426	16052	981	326	56652690	56672262	1	None	ZSCAN17, FLJ11137, EZF2
19	ZNF444	ENSG00000167685	ENST00000593100	protein_coding	KNOWN	None	16052	298	98	56653096	56658578	1	None	ZSCAN17, FLJ11137, EZF2
19	ZNF444	ENSG00000167685	ENST00000588203	protein_coding	KNOWN	None	16052	134	43	56654706	56658414	1	None	ZSCAN17, FLJ11137, EZF2
19	ZNF444	ENSG00000167685	ENST00000591564	protein_coding	KNOWN	None	16052	231	76	56657457	56658511	1	None	ZSCAN17, FLJ11137, EZF2
19	ZNF444	ENSG00000167685	ENST00000587236	retained_intron	KNOWN	None	16052	None	None	56665670	56672255	1	None	ZSCAN17, FLJ11137, EZF2
19	ZNF444	ENSG00000167685	ENST00000592171	processed_transcript	KNOWN	None	16052	None	None	56668678	56671336	1	None	ZSCAN17, FLJ11137, EZF2
1	None	ENSG00000233222	ENST00000434575	antisense	KNOWN	None	None	None	None	153723459	153724652	-1	None	None
MT	MT-CO1	ENSG00000198804	ENST00000361624	protein_coding	KNOWN	None	7419	1542	513	5904	7445	1	MTCO1	COX1, COI
18	RNU6-721P	ENSG00000222087	ENST00000410155	snRNA	KNOWN	None	47684	None	None	15320839	15320943	-1	None	None
14	None	ENSG00000222084	ENST00000410152	miRNA	NOVEL	None	None	None	None	42769954	42770065	1	None	None
HG7_PATCH	TRBJ2-3	ENSG00000260535	ENST00000570261	TR_J_gene	KNOWN	None	12171	49	15	142557740	142557788	1	None	TRBJ23, TCRBJ2S3
1	None	ENSG00000229842	ENST00000438531	unprocessed_pseudogene	KNOWN	None	None	None	None	94390962	94391628	-1	None	None
1	LINC00853	ENSG00000224805	ENST00000429328	antisense	KNOWN	None	43716	None	None	47644922	47646011	1	PDZK1IP1-AS1	ncRNA-a4
MT	MT-TS1	ENSG00000210151	ENST00000387416	Mt_tRNA	KNOWN	None	7497	None	None	7446	7514	-1	MTTS1	TRNS1
1	None	ENSG00000231547	ENST00000427395	unprocessed_pseudogene	KNOWN	None	None	None	None	202968866	202969480	1	None	None
22	LARGE	ENSG00000133424	ENST00000354992	protein_coding	KNOWN	CCDS13912	6511	2271	756	33668847	34316409	-1	None	KIAA0609
22	LARGE	ENSG00000133424	ENST00000402320	protein_coding	KNOWN	None	6511	2115	704	33669075	34316402	-1	None	KIAA0609
22	LARGE	ENSG00000133424	ENST00000421768	protein_coding	PUTATIVE	None	6511	561	186	33733755	33968239	-1	None	KIAA0609
22	LARGE	ENSG00000133424	ENST00000476315	processed_transcript	KNOWN	None	6511	None	None	33958899	33961005	-1	None	KIAA0609
22	LARGE	ENSG00000133424	ENST00000430220	protein_coding	KNOWN	None	6511	408	135	34046353	34257612	-1	None	KIAA0609
22	LARGE	ENSG00000133424	ENST00000413114	protein_coding	KNOWN	None	6511	407	134	34046354	34318829	-1	None	KIAA0609
22	LARGE	ENSG00000133424	ENST00000462606	processed_transcript	KNOWN	None	6511	None	None	34046361	34053202	-1	None	KIAA0609
22	LARGE	ENSG00000133424	ENST00000494763	processed_transcript	KNOWN	None	6511	None	None	34046426	34318584	-1	None	KIAA0609
22	LARGE	ENSG00000133424	ENST00000434071	protein_coding	KNOWN	None	6511	326	107	34046435	34285216	-1	None	KIAA0609
22	LARGE	ENSG00000133424	ENST00000432776	protein_coding	KNOWN	None	6511	180	59	34046581	34269393	-1	None	KIAA0609
22	LARGE	ENSG00000133424	ENST00000423375	protein_coding	KNOWN	None	6511	143	46	34046618	34269375	-1	None	KIAA0609
22	LARGE	ENSG00000133424	ENST00000337431	protein_coding	KNOWN	None	6511	2115	704	33668847	34316326	-1	None	KIAA0609
22	LARGE	ENSG00000133424	ENST00000397394	protein_coding	KNOWN	CCDS13912	6511	2271	756	33669062	34316416	-1	None	KIAA0609
22	LARGE	ENSG00000133424	ENST00000437602	protein_coding	KNOWN	None	6511	2124	707	33670206	34318584	-1	None	KIAA0609
22	LARGE	ENSG00000133424	ENST00000452586	protein_coding	KNOWN	None	6511	1668	555	33670170	33968239	-1	None	KIAA0609
MT	MT-TD	ENSG00000210154	ENST00000387419	Mt_tRNA	KNOWN	None	7478	None	None	7518	7585	1	MTTD	trnD
18	None	ENSG00000260263	ENST00000564351	sense_overlapping	KNOWN	None	None	None	None	18526867	18528428	-1	None	None
19	None	ENSG00000251431	ENST00000514037	unprocessed_pseudogene	KNOWN	None	None	None	None	54808714	54809423	-1	None	None
5	None	ENSG00000170091	ENST00000303177	protein_coding	KNOWN	CCDS4391	None	516	171	173472607	173536182	1	None	None
5	None	ENSG00000170091	ENST00000517902	retained_intron	KNOWN	None	None	None	None	173472709	173491478	1	None	None
5	None	ENSG00000170091	ENST00000517587	nonsense_mediated_decay	KNOWN	None	None	285	94	173472709	173534359	1	None	None
5	None	ENSG00000170091	ENST00000519867	protein_coding	KNOWN	None	None	437	144	173472718	173534429	1	None	None
5	None	ENSG00000170091	ENST00000521585	protein_coding	PUTATIVE	None	None	300	99	173472747	173670504	1	None	None
5	None	ENSG00000170091	ENST00000521278	protein_coding	KNOWN	None	None	476	157	173473096	173534468	1	None	None
5	None	ENSG00000170091	ENST00000519717	protein_coding	KNOWN	CCDS4391	None	516	171	173473662	173534508	1	None	None
5	None	ENSG00000170091	ENST00000521959	processed_transcript	KNOWN	None	None	None	None	173489575	173535450	1	None	None
5	None	ENSG00000170091	ENST00000521146	processed_transcript	KNOWN	None	None	None	None	173518208	173535349	1	None	None
1	None	ENSG00000250890	ENST00000513571	unprocessed_pseudogene	KNOWN	None	None	None	None	94391588	94391744	-1	None	None
6	None	ENSG00000252676	ENST00000516867	miRNA	NOVEL	None	None	None	None	91156491	91156565	1	None	None
MT	MT-CO2	ENSG00000198712	ENST00000361739	protein_coding	KNOWN	None	7421	684	227	7586	8269	1	MTCO2	COX2, CO2
3	RNU6ATAC15P	ENSG00000221206	ENST00000408279	snRNA	KNOWN	None	46914	None	None	110270692	110270812	-1	None	None
18	None	ENSG00000216205	ENST00000401386	miRNA	NOVEL	None	None	None	None	18642344	18642434	-1	None	None
HSCHR4_2_CTG9	LPHN3	ENSG00000262515	ENST00000570545	protein_coding	KNOWN	None	20974	3723	1240	62066976	62959961	1	None	KIAA0768, LEC3
HSCHR4_2_CTG9	LPHN3	ENSG00000262515	ENST00000570656	processed_transcript	KNOWN	None	20974	None	None	62067382	62251487	1	None	KIAA0768, LEC3
HSCHR4_2_CTG9	LPHN3	ENSG00000262515	ENST00000573738	protein_coding	KNOWN	None	20974	4410	1469	62067860	62959961	1	None	KIAA0768, LEC3
HSCHR4_2_CTG9	LPHN3	ENSG00000262515	ENST00000577151	protein_coding	NOVEL	None	20974	3927	1308	62362839	62958633	1	None	KIAA0768, LEC3
HSCHR4_2_CTG9	LPHN3	ENSG00000262515	ENST00000574812	protein_coding	NOVEL	None	20974	3900	1299	62362839	62958633	1	None	KIAA0768, LEC3
HSCHR4_2_CTG9	LPHN3	ENSG00000262515	ENST00000574919	protein_coding	NOVEL	None	20974	3696	1231	62362839	62958633	1	None	KIAA0768, LEC3
HSCHR4_2_CTG9	LPHN3	ENSG00000262515	ENST00000576325	protein_coding	NOVEL	None	20974	4029	1342	62362883	62958488	1	None	KIAA0768, LEC3
HSCHR4_2_CTG9	LPHN3	ENSG00000262515	ENST00000572342	protein_coding	NOVEL	None	20974	4056	1351	62362883	62958488	1	None	KIAA0768, LEC3
HSCHR4_2_CTG9	LPHN3	ENSG00000262515	ENST00000573960	protein_coding	KNOWN	None	20974	4587	1528	62362906	62958553	1	None	KIAA0768, LEC3
HSCHR4_2_CTG9	LPHN3	ENSG00000262515	ENST00000574839	protein_coding	NOVEL	None	20974	3825	1274	62362917	62958533	1	None	KIAA0768, LEC3
HSCHR4_2_CTG9	LPHN3	ENSG00000262515	ENST00000576028	protein_coding	NOVEL	None	20974	3852	1283	62362917	62958533	1	None	KIAA0768, LEC3
HSCHR4_2_CTG9	LPHN3	ENSG00000262515	ENST00000572079	protein_coding	NOVEL	None	20974	4539	1512	62363012	62958622	1	None	KIAA0768, LEC3
HSCHR4_2_CTG9	LPHN3	ENSG00000262515	ENST00000576469	protein_coding	NOVEL	None	20974	4743	1580	62363012	62958622	1	None	KIAA0768, LEC3
HSCHR4_2_CTG9	LPHN3	ENSG00000262515	ENST00000573720	protein_coding	NOVEL	None	20974	4716	1571	62363012	62958622	1	None	KIAA0768, LEC3
HSCHR4_2_CTG9	LPHN3	ENSG00000262515	ENST00000571630	protein_coding	NOVEL	None	20974	4512	1503	62363012	62958622	1	None	KIAA0768, LEC3
HSCHR4_2_CTG9	LPHN3	ENSG00000262515	ENST00000574903	retained_intron	KNOWN	None	20974	None	None	62453086	62543110	1	None	KIAA0768, LEC3
HSCHR4_2_CTG9	LPHN3	ENSG00000262515	ENST00000574536	protein_coding	KNOWN	None	20974	2755	917	62761459	62959932	1	None	KIAA0768, LEC3
HSCHR4_2_CTG9	LPHN3	ENSG00000262515	ENST00000572807	processed_transcript	KNOWN	None	20974	None	None	62821338	62834572	1	None	KIAA0768, LEC3
X	None	ENSG00000250084	ENST00000515651	unprocessed_pseudogene	KNOWN	None	None	None	None	52191730	52194281	-1	None	None
1	None	ENSG00000226252	ENST00000422216	antisense	KNOWN	None	None	None	None	47691469	47696422	1	None	None
15	None	ENSG00000259658	ENST00000558592	protein_coding	PUTATIVE	None	None	294	97	102277302	102285913	-1	None	None
15	None	ENSG00000259658	ENST00000560292	protein_coding	PUTATIVE	None	None	294	97	102277312	102285007	-1	None	None
6	None	ENSG00000224605	ENST00000434493	lincRNA	KNOWN	None	None	None	None	92100031	92102718	-1	None	None
15	None	ENSG00000227717	ENST00000567652	unprocessed_pseudogene	KNOWN	None	None	None	None	28798784	28806525	1	None	None
15	None	ENSG00000227717	ENST00000419645	unprocessed_pseudogene	KNOWN	None	None	None	None	28798718	28806525	1	None	None
12	HNRNPABP1	ENSG00000255734	ENST00000406003	processed_pseudogene	KNOWN	None	48744	None	None	10264337	10265070	1	None	None
MT	MT-TK	ENSG00000210156	ENST00000387421	Mt_tRNA	KNOWN	None	7489	None	None	8295	8364	1	MERRF, MTTK	trnK
HG7_PATCH	TRBJ2-4	ENSG00000261119	ENST00000569780	TR_J_gene	KNOWN	None	12172	50	15	142557891	142557940	1	None	TRBJ24, TCRBJ2S4
2	None	ENSG00000235486	ENST00000447760	unprocessed_pseudogene	KNOWN	None	None	None	None	106986180	106994703	1	None	None
15	None	ENSG00000259396	ENST00000559959	sense_intronic	KNOWN	None	None	None	None	41635278	41636423	1	None	None
1	None	ENSG00000234775	ENST00000421055	antisense	KNOWN	None	None	None	None	203096387	203097082	-1	None	None
11	None	ENSG00000256148	ENST00000540641	processed_pseudogene	KNOWN	None	None	None	None	73221703	73221865	1	None	None
1	None	ENSG00000236689	ENST00000419780	unprocessed_pseudogene	KNOWN	None	None	None	None	94392171	94393125	-1	None	None
MT	MT-ATP8	ENSG00000228253	ENST00000361851	protein_coding	KNOWN	None	7415	207	68	8366	8572	1	MTATP8	ATP8, A6L
17	TMEM101	ENSG00000091947	ENST00000589334	protein_coding	KNOWN	CCDS11474	28653	774	257	42088556	42100519	-1	None	MGC4251, FLJ23987
17	TMEM101	ENSG00000091947	ENST00000587529	protein_coding	PUTATIVE	None	28653	516	171	42089877	42092320	-1	None	MGC4251, FLJ23987
17	TMEM101	ENSG00000091947	ENST00000585950	protein_coding	PUTATIVE	None	28653	291	96	42090377	42100474	-1	None	MGC4251, FLJ23987
17	TMEM101	ENSG00000091947	ENST00000592127	protein_coding	PUTATIVE	None	28653	266	87	42090402	42100507	-1	None	MGC4251, FLJ23987
17	TMEM101	ENSG00000091947	ENST00000590905	protein_coding	PUTATIVE	None	28653	154	50	42090514	42096815	-1	None	MGC4251, FLJ23987
17	TMEM101	ENSG00000091947	ENST00000586174	protein_coding	PUTATIVE	None	28653	11	2	42091858	42096810	-1	None	MGC4251, FLJ23987
17	TMEM101	ENSG00000091947	ENST00000591162	processed_transcript	PUTATIVE	None	28653	None	None	42098701	42101314	-1	None	MGC4251, FLJ23987
17	TMEM101	ENSG00000091947	ENST00000206380	protein_coding	KNOWN	CCDS11474	28653	774	257	42088559	42092345	-1	None	MGC4251, FLJ23987
17	TMEM101	ENSG00000091947	ENST00000542039	protein_coding	KNOWN	None	28653	600	199	42088958	42092417	-1	None	MGC4251, FLJ23987
1	None	ENSG00000225762	ENST00000420876	antisense	KNOWN	None	None	None	None	47846600	47874149	-1	None	None
1	None	ENSG00000238511	ENST00000458994	snoRNA	NOVEL	None	None	None	None	153726600	153726703	-1	None	None
14	None	ENSG00000242293	ENST00000465274	processed_pseudogene	KNOWN	None	None	None	None	69489867	69490025	-1	None	None
6	MIR4643	ENSG00000263734	ENST00000577473	miRNA	KNOWN	None	41814	None	None	92231378	92231455	1	None	hsa-mir-4643
X	RNU6-3P	ENSG00000207041	ENST00000384314	snRNA	KNOWN	None	34275	None	None	140212215	140212321	-1	RNU6-3	U6-3
1	None	ENSG00000224671	ENST00000434265	antisense	KNOWN	None	None	None	None	203113092	203122028	-1	None	None
1	None	ENSG00000207039	ENST00000384312	misc_RNA	NOVEL	None	None	None	None	153758196	153758297	-1	None	None
7	FAM115A	ENSG00000198420	ENST00000479870	protein_coding	KNOWN	CCDS5886	22201	2766	921	143548468	143599248	-1	None	KIAA0738
7	FAM115A	ENSG00000198420	ENST00000355951	protein_coding	KNOWN	CCDS56514	22201	2760	919	143550789	143599219	-1	None	KIAA0738
7	FAM115A	ENSG00000198420	ENST00000392900	processed_transcript	KNOWN	None	22201	None	None	143550921	143582364	-1	None	KIAA0738
7	FAM115A	ENSG00000198420	ENST00000460532	protein_coding	KNOWN	None	22201	501	166	143573201	143579976	-1	None	KIAA0738
7	FAM115A	ENSG00000198420	ENST00000491908	protein_coding	KNOWN	None	22201	450	149	143573252	143579998	-1	None	KIAA0738
7	FAM115A	ENSG00000198420	ENST00000478172	protein_coding	KNOWN	None	22201	437	144	143573265	143599291	-1	None	KIAA0738
7	FAM115A	ENSG00000198420	ENST00000485416	protein_coding	KNOWN	None	22201	225	74	143573477	143582463	-1	None	KIAA0738
19	LTBP4	ENSG00000090006	ENST00000600026	processed_transcript	KNOWN	None	6717	None	None	41098789	41111059	1	None	LTBP-4, LTBP-4L, FLJ46318, FLJ90018
19	LTBP4	ENSG00000090006	ENST00000602240	processed_transcript	KNOWN	None	6717	None	None	41099072	41135723	1	None	LTBP-4, LTBP-4L, FLJ46318, FLJ90018
19	LTBP4	ENSG00000090006	ENST00000599016	processed_transcript	KNOWN	None	6717	None	None	41100433	41111512	1	None	LTBP-4, LTBP-4L, FLJ46318, FLJ90018
19	LTBP4	ENSG00000090006	ENST00000600509	processed_transcript	KNOWN	None	6717	None	None	41103141	41135528	1	None	LTBP-4, LTBP-4L, FLJ46318, FLJ90018
19	LTBP4	ENSG00000090006	ENST00000594537	processed_transcript	KNOWN	None	6717	None	None	41104431	41111372	1	None	LTBP-4, LTBP-4L, FLJ46318, FLJ90018
19	LTBP4	ENSG00000090006	ENST00000598717	retained_intron	KNOWN	None	6717	None	None	41105582	41119086	1	None	LTBP-4, LTBP-4L, FLJ46318, FLJ90018
19	LTBP4	ENSG00000090006	ENST00000593738	retained_intron	KNOWN	None	6717	None	None	41105890	41111048	1	None	LTBP-4, LTBP-4L, FLJ46318, FLJ90018
19	LTBP4	ENSG00000090006	ENST00000601209	processed_transcript	KNOWN	None	6717	None	None	41107277	41135528	1	None	LTBP-4, LTBP-4L, FLJ46318, FLJ90018
19	LTBP4	ENSG00000090006	ENST00000595529	retained_intron	KNOWN	None	6717	None	None	41112372	41114827	1	None	LTBP-4, LTBP-4L, FLJ46318, FLJ90018
19	LTBP4	ENSG00000090006	ENST00000598677	processed_transcript	KNOWN	None	6717	None	None	41115652	41135722	1	None	LTBP-4, LTBP-4L, FLJ46318, FLJ90018
19	LTBP4	ENSG00000090006	ENST00000546155	retained_intron	KNOWN	None	6717	None	None	41116074	41119734	1	None	LTBP-4, LTBP-4L, FLJ46318, FLJ90018
19	LTBP4	ENSG00000090006	ENST00000598256	retained_intron	KNOWN	None	6717	None	None	41116119	41117828	1	None	LTBP-4, LTBP-4L, FLJ46318, FLJ90018
19	LTBP4	ENSG00000090006	ENST00000598055	processed_transcript	KNOWN	None	6717	None	None	41116671	41119352	1	None	LTBP-4, LTBP-4L, FLJ46318, FLJ90018
19	LTBP4	ENSG00000090006	ENST00000601032	protein_coding	NOVEL	None	6717	2019	672	41117817	41133625	1	None	LTBP-4, LTBP-4L, FLJ46318, FLJ90018
19	LTBP4	ENSG00000090006	ENST00000601560	processed_transcript	KNOWN	None	6717	None	None	41119041	41125378	1	None	LTBP-4, LTBP-4L, FLJ46318, FLJ90018
19	LTBP4	ENSG00000090006	ENST00000595183	processed_transcript	KNOWN	None	6717	None	None	41119101	41128344	1	None	LTBP-4, LTBP-4L, FLJ46318, FLJ90018
19	LTBP4	ENSG00000090006	ENST00000600499	retained_intron	KNOWN	None	6717	None	None	41119279	41125287	1	None	LTBP-4, LTBP-4L, FLJ46318, FLJ90018
19	LTBP4	ENSG00000090006	ENST00000594457	retained_intron	KNOWN	None	6717	None	None	41119281	41125293	1	None	LTBP-4, LTBP-4L, FLJ46318, FLJ90018
19	LTBP4	ENSG00000090006	ENST00000593614	retained_intron	KNOWN	None	6717	None	None	41119320	41125281	1	None	LTBP-4, LTBP-4L, FLJ46318, FLJ90018
19	LTBP4	ENSG00000090006	ENST00000599724	protein_coding	NOVEL	None	6717	910	302	41119354	41131911	1	None	LTBP-4, LTBP-4L, FLJ46318, FLJ90018
19	LTBP4	ENSG00000090006	ENST00000597071	protein_coding	NOVEL	None	6717	670	222	41119362	41128367	1	None	LTBP-4, LTBP-4L, FLJ46318, FLJ90018
19	LTBP4	ENSG00000090006	ENST00000602251	retained_intron	KNOWN	None	6717	None	None	41119502	41122890	1	None	LTBP-4, LTBP-4L, FLJ46318, FLJ90018
19	LTBP4	ENSG00000090006	ENST00000595118	retained_intron	KNOWN	None	6717	None	None	41119502	41135722	1	None	LTBP-4, LTBP-4L, FLJ46318, FLJ90018
19	LTBP4	ENSG00000090006	ENST00000594266	retained_intron	KNOWN	None	6717	None	None	41119624	41129538	1	None	LTBP-4, LTBP-4L, FLJ46318, FLJ90018
19	LTBP4	ENSG00000090006	ENST00000593463	protein_coding	NOVEL	None	6717	573	190	41119822	41129547	1	None	LTBP-4, LTBP-4L, FLJ46318, FLJ90018
19	LTBP4	ENSG00000090006	ENST00000318809	retained_intron	KNOWN	None	6717	None	None	41120017	41135554	1	None	LTBP-4, LTBP-4L, FLJ46318, FLJ90018
19	LTBP4	ENSG00000090006	ENST00000601464	retained_intron	KNOWN	None	6717	None	None	41120048	41122926	1	None	LTBP-4, LTBP-4L, FLJ46318, FLJ90018
19	LTBP4	ENSG00000090006	ENST00000597816	retained_intron	KNOWN	None	6717	None	None	41120048	41129951	1	None	LTBP-4, LTBP-4L, FLJ46318, FLJ90018
19	LTBP4	ENSG00000090006	ENST00000596351	retained_intron	KNOWN	None	6717	None	None	41120050	41128367	1	None	LTBP-4, LTBP-4L, FLJ46318, FLJ90018
19	LTBP4	ENSG00000090006	ENST00000601570	retained_intron	KNOWN	None	6717	None	None	41120082	41123102	1	None	LTBP-4, LTBP-4L, FLJ46318, FLJ90018
19	LTBP4	ENSG00000090006	ENST00000595767	retained_intron	KNOWN	None	6717	None	None	41120082	41129554	1	None	LTBP-4, LTBP-4L, FLJ46318, FLJ90018
19	LTBP4	ENSG00000090006	ENST00000594448	retained_intron	KNOWN	None	6717	None	None	41120086	41128310	1	None	LTBP-4, LTBP-4L, FLJ46318, FLJ90018
19	LTBP4	ENSG00000090006	ENST00000595665	retained_intron	KNOWN	None	6717	None	None	41120098	41129550	1	None	LTBP-4, LTBP-4L, FLJ46318, FLJ90018
19	LTBP4	ENSG00000090006	ENST00000597603	processed_transcript	KNOWN	None	6717	None	None	41122816	41129874	1	None	LTBP-4, LTBP-4L, FLJ46318, FLJ90018
19	LTBP4	ENSG00000090006	ENST00000594116	retained_intron	KNOWN	None	6717	None	None	41128293	41129851	1	None	LTBP-4, LTBP-4L, FLJ46318, FLJ90018
19	LTBP4	ENSG00000090006	ENST00000598178	retained_intron	KNOWN	None	6717	None	None	41128810	41129837	1	None	LTBP-4, LTBP-4L, FLJ46318, FLJ90018
19	LTBP4	ENSG00000090006	ENST00000597151	retained_intron	KNOWN	None	6717	None	None	41129811	41131869	1	None	LTBP-4, LTBP-4L, FLJ46318, FLJ90018
19	LTBP4	ENSG00000090006	ENST00000599225	processed_transcript	KNOWN	None	6717	None	None	41133099	41135404	1	None	LTBP-4, LTBP-4L, FLJ46318, FLJ90018
19	LTBP4	ENSG00000090006	ENST00000598166	processed_transcript	KNOWN	None	6717	None	None	41133164	41135716	1	None	LTBP-4, LTBP-4L, FLJ46318, FLJ90018
19	LTBP4	ENSG00000090006	ENST00000204005	protein_coding	KNOWN	None	6717	4761	1586	41099072	41135725	1	None	LTBP-4, LTBP-4L, FLJ46318, FLJ90018
19	LTBP4	ENSG00000090006	ENST00000308370	protein_coding	KNOWN	None	6717	4872	1623	41103141	41135725	1	None	LTBP-4, LTBP-4L, FLJ46318, FLJ90018
19	LTBP4	ENSG00000090006	ENST00000396819	protein_coding	KNOWN	None	6717	4671	1556	41107277	41135725	1	None	LTBP-4, LTBP-4L, FLJ46318, FLJ90018
19	LTBP4	ENSG00000090006	ENST00000545697	protein_coding	KNOWN	None	6717	2697	898	41099072	41135725	1	None	LTBP-4, LTBP-4L, FLJ46318, FLJ90018
19	LTBP4	ENSG00000090006	ENST00000243562	protein_coding	KNOWN	None	6717	558	185	41119502	41135722	1	None	LTBP-4, LTBP-4L, FLJ46318, FLJ90018
11	OR8L1P	ENSG00000254903	ENST00000534005	unprocessed_pseudogene	KNOWN	None	15316	None	None	56149111	56150065	1	None	None
MT	MT-ATP6	ENSG00000198899	ENST00000361899	protein_coding	KNOWN	None	7414	681	226	8527	9207	1	MTATP6, RP	ATP6, ATPase-6, Su6m
12	None	ENSG00000257954	ENST00000551907	processed_pseudogene	KNOWN	None	None	None	None	49783299	49783945	1	None	None
6	None	ENSG00000224944	ENST00000437768	lincRNA	KNOWN	None	None	None	None	92339633	92400146	-1	None	None
8	None	ENSG00000253160	ENST00000518705	processed_pseudogene	KNOWN	None	None	None	None	39167428	39167962	-1	None	None
8	None	ENSG00000250516	ENST00000505195	processed_pseudogene	KNOWN	None	None	None	None	28083446	28085079	1	None	None
12	DDN	ENSG00000181418	ENST00000421952	protein_coding	KNOWN	CCDS31791	24458	2136	711	49388932	49393092	-1	None	KIAA0749
1	FOXD2-AS1	ENSG00000237424	ENST00000445551	antisense	KNOWN	None	44256	None	None	47897805	47900313	-1	None	MGC12982
9	SMC5	ENSG00000198887	ENST00000361138	protein_coding	KNOWN	CCDS6632	20465	3306	1101	72873937	72969804	1	SMC5L1	KIAA0594
9	SMC5	ENSG00000198887	ENST00000475540	processed_transcript	KNOWN	None	20465	None	None	72938489	72959590	1	SMC5L1	KIAA0594
9	SMC5	ENSG00000198887	ENST00000471372	processed_transcript	KNOWN	None	20465	None	None	72961308	72967161	1	SMC5L1	KIAA0594
1	None	ENSG00000231827	ENST00000427283	unprocessed_pseudogene	KNOWN	None	None	None	None	153767649	153774567	1	None	None
X	RBM22P6	ENSG00000227319	ENST00000457210	processed_pseudogene	KNOWN	None	39699	None	None	52228192	52229056	-1	None	None
MT	MT-CO3	ENSG00000198938	ENST00000362079	protein_coding	KNOWN	None	7422	784	260	9207	9990	1	MTCO3	COX3, COIII, CO3
MT	MT-TG	ENSG00000210164	ENST00000387429	Mt_tRNA	KNOWN	None	7486	None	None	9991	10058	1	MTTG	trnG
1	OR2T10	ENSG00000184022	ENST00000330500	protein_coding	KNOWN	CCDS31121	19573	939	312	248756052	248757100	-1	None	None
1	NPM1P40	ENSG00000236523	ENST00000412758	processed_pseudogene	KNOWN	None	45219	None	None	203224871	203225603	1	None	None
MT	MT-ND3	ENSG00000198840	ENST00000361227	protein_coding	KNOWN	None	7458	346	114	10059	10404	1	MTND3	ND3, NAD3
9	RN7SKP258	ENSG00000252960	ENST00000517151	misc_RNA	KNOWN	None	45982	None	None	18651145	18651448	1	None	None
3	CLSTN2	ENSG00000158258	ENST00000458420	protein_coding	KNOWN	CCDS3112	17448	2868	955	139654027	140296239	1	None	CSTN2, CS2, FLJ39113, CDHR13
3	CLSTN2	ENSG00000158258	ENST00000511524	retained_intron	KNOWN	None	17448	None	None	139654029	140275897	1	None	CSTN2, CS2, FLJ39113, CDHR13
19	None	ENSG00000267110	ENST00000587871	nonsense_mediated_decay	KNOWN	None	None	517	171	55666125	55672039	-1	None	None
19	None	ENSG00000105642	ENST00000598525	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	18062111	18109800	1	None	None
19	None	ENSG00000105642	ENST00000594192	processed_transcript	KNOWN	None	None	None	None	18063000	18065462	1	None	None
19	None	ENSG00000105642	ENST00000601725	processed_transcript	KNOWN	None	None	None	None	18085063	18096263	1	None	None
19	None	ENSG00000105642	ENST00000222249	unprocessed_pseudogene	KNOWN	None	None	None	None	18062111	18109930	1	None	None
MT	MT-TR	ENSG00000210174	ENST00000387439	Mt_tRNA	KNOWN	None	7496	None	None	10405	10469	1	MTTR	trnR
HG185_PATCH	None	ENSG00000261163	ENST00000567301	protein_coding	KNOWN	None	None	1314	437	39958199	39968855	-1	None	None
HG185_PATCH	None	ENSG00000261163	ENST00000567627	retained_intron	KNOWN	None	None	None	None	39958206	39963742	-1	None	None
HG185_PATCH	None	ENSG00000261163	ENST00000567798	nonsense_mediated_decay	KNOWN	None	None	221	72	39958572	39963100	-1	None	None
HG185_PATCH	None	ENSG00000261163	ENST00000562091	retained_intron	KNOWN	None	None	None	None	39966933	39967921	-1	None	None
1	None	ENSG00000271355	ENST00000604764	processed_pseudogene	KNOWN	None	None	None	None	47949370	47949834	-1	None	None
2	None	ENSG00000226266	ENST00000453016	lincRNA	KNOWN	None	None	None	None	160527219	160568941	-1	None	None
2	None	ENSG00000226266	ENST00000418770	lincRNA	KNOWN	None	None	None	None	160527223	160568529	-1	None	None
2	None	ENSG00000226266	ENST00000607836	lincRNA	KNOWN	None	None	None	None	160549712	160568946	-1	None	None
3	None	ENSG00000244722	ENST00000483479	processed_pseudogene	KNOWN	None	None	None	None	110401133	110402001	-1	None	None
MT	MT-ND4L	ENSG00000212907	ENST00000361335	protein_coding	KNOWN	None	7460	297	98	10470	10766	1	MTND4L	ND4L, NAD4L
9	None	ENSG00000236857	ENST00000412709	processed_pseudogene	KNOWN	None	None	None	None	18717972	18718524	-1	None	None
X	RBM22P7	ENSG00000223395	ENST00000421321	processed_pseudogene	KNOWN	None	39700	None	None	52245867	52246128	-1	None	None
X	None	ENSG00000214925	ENST00000399253	processed_pseudogene	KNOWN	None	None	None	None	140232663	140233358	1	None	None
22	NOL12	ENSG00000256872	ENST00000493862	processed_transcript	KNOWN	None	28585	None	None	38077680	38089482	1	None	MGC3731, Nop25, RRP17
22	NOL12	ENSG00000256872	ENST00000359114	protein_coding	KNOWN	CCDS13955	28585	642	213	38082330	38089483	1	None	MGC3731, Nop25, RRP17
22	NOL12	ENSG00000256872	ENST00000438329	nonsense_mediated_decay	KNOWN	CCDS13955	28585	642	213	38082330	38089483	1	None	MGC3731, Nop25, RRP17
22	NOL12	ENSG00000256872	ENST00000474032	retained_intron	KNOWN	None	28585	None	None	38082350	38084306	1	None	MGC3731, Nop25, RRP17
22	NOL12	ENSG00000256872	ENST00000468597	retained_intron	KNOWN	None	28585	None	None	38082353	38086907	1	None	MGC3731, Nop25, RRP17
22	NOL12	ENSG00000256872	ENST00000484650	retained_intron	KNOWN	None	28585	None	None	38083792	38087472	1	None	MGC3731, Nop25, RRP17
11	HMGN2P38	ENSG00000231726	ENST00000423806	processed_pseudogene	KNOWN	None	39409	None	None	73291298	73291562	1	None	None
2	PLGLA	ENSG00000240935	ENST00000465668	transcribed_unprocessed_pseudogene	KNOWN	None	9074	None	None	106998627	107009320	1	PLGP2, PLGLA1	None
2	PLGLA	ENSG00000240935	ENST00000484422	processed_transcript	KNOWN	None	9074	None	None	107002769	107007851	1	PLGP2, PLGLA1	None
2	PLGLA	ENSG00000240935	ENST00000482249	processed_transcript	KNOWN	None	9074	None	None	107002826	107009487	1	PLGP2, PLGLA1	None
2	PLGLA	ENSG00000240935	ENST00000324709	unprocessed_pseudogene	KNOWN	None	9074	None	None	106998562	107010027	1	PLGP2, PLGLA1	None
1	RPL21P24	ENSG00000229554	ENST00000413752	processed_pseudogene	KNOWN	None	35702	None	None	47963566	47964013	-1	None	None
MT	MT-ND4	ENSG00000198886	ENST00000361381	protein_coding	KNOWN	None	7459	1378	458	10760	12137	1	MTND4	ND4, NAD4
12	None	ENSG00000255958	ENST00000538416	antisense	KNOWN	None	None	None	None	10366760	10367360	-1	None	None
MT	MT-TH	ENSG00000210176	ENST00000387441	Mt_tRNA	KNOWN	None	7487	None	None	12138	12206	1	MTTH	trnH
5	None	ENSG00000248769	ENST00000514492	unprocessed_pseudogene	KNOWN	None	None	None	None	68949075	68950161	1	None	None
X	RBM22P10	ENSG00000235073	ENST00000415263	processed_pseudogene	KNOWN	None	39703	None	None	52270115	52270985	1	None	None
1	None	ENSG00000226960	ENST00000416634	unprocessed_pseudogene	KNOWN	None	None	None	None	94393270	94393858	-1	None	None
MT	MT-TS2	ENSG00000210184	ENST00000387449	Mt_tRNA	KNOWN	None	7498	None	None	12207	12265	1	MTTS2	TRNS2, RP8
14	IGHV4-61	ENSG00000211970	ENST00000390630	IG_V_gene	KNOWN	None	5655	354	117	107095126	107095662	-1	None	None
1	None	ENSG00000223599	ENST00000417868	processed_pseudogene	KNOWN	None	None	None	None	153824582	153825890	-1	None	None
MT	MT-TL2	ENSG00000210191	ENST00000387456	Mt_tRNA	KNOWN	None	7491	None	None	12266	12336	1	MTTL2	TRNL2
6	STXBP5	ENSG00000164506	ENST00000367481	protein_coding	KNOWN	CCDS5211	19665	3348	1115	147525561	147706866	1	None	tomosyn, LLGL3
6	STXBP5	ENSG00000164506	ENST00000321680	protein_coding	KNOWN	CCDS47499	19665	3456	1151	147525669	147705891	1	None	tomosyn, LLGL3
6	STXBP5	ENSG00000164506	ENST00000367480	protein_coding	KNOWN	None	19665	3297	1098	147525669	147705891	1	None	tomosyn, LLGL3
6	STXBP5	ENSG00000164506	ENST00000367475	protein_coding	KNOWN	None	19665	521	172	147648309	147680459	1	None	tomosyn, LLGL3
6	STXBP5	ENSG00000164506	ENST00000392291	protein_coding	KNOWN	None	19665	791	262	147648337	147684744	1	None	tomosyn, LLGL3
6	STXBP5	ENSG00000164506	ENST00000546097	protein_coding	KNOWN	None	19665	927	308	147525561	147614521	1	None	tomosyn, LLGL3
6	STXBP5	ENSG00000164506	ENST00000179882	protein_coding	KNOWN	None	19665	2421	806	147527110	147706481	1	None	tomosyn, LLGL3
3	None	ENSG00000201426	ENST00000364556	misc_RNA	NOVEL	None	None	None	None	110445868	110445968	1	None	None
12	None	ENSG00000256288	ENST00000539009	lincRNA	KNOWN	None	None	None	None	10485460	10490891	-1	None	None
1	None	ENSG00000231507	ENST00000412772	lincRNA	KNOWN	None	None	None	None	203256280	203257929	1	None	None
1	None	ENSG00000231507	ENST00000433008	lincRNA	KNOWN	None	None	None	None	203256898	203257662	1	None	None
11	OR5AL2P	ENSG00000255466	ENST00000532185	unprocessed_pseudogene	KNOWN	None	14850	None	None	56161205	56162124	1	None	None
5	None	ENSG00000198237	ENST00000506490	unprocessed_pseudogene	KNOWN	None	None	None	None	69171098	69216694	1	None	None
5	None	ENSG00000198237	ENST00000538121	unprocessed_pseudogene	KNOWN	None	None	None	None	69216553	69274436	1	None	None
6	None	ENSG00000262095	ENST00000574491	processed_pseudogene	KNOWN	None	None	None	None	92436528	92436788	1	None	None
MT	MT-ND5	ENSG00000198786	ENST00000361567	protein_coding	KNOWN	None	7461	1812	603	12337	14148	1	MTND5	ND5, NAD5
11	None	ENSG00000270449	ENST00000604799	processed_pseudogene	KNOWN	None	None	None	None	104553111	104553309	-1	None	None
1	None	ENSG00000221346	ENST00000408419	miRNA	NOVEL	None	None	None	None	47968176	47968311	1	None	None
3	PVRL3-AS1	ENSG00000242242	ENST00000474769	antisense	KNOWN	None	40813	None	None	110612555	110790371	-1	None	None
3	PVRL3-AS1	ENSG00000242242	ENST00000476301	antisense	KNOWN	None	40813	None	None	110612612	110790210	-1	None	None
3	PVRL3-AS1	ENSG00000242242	ENST00000491709	antisense	KNOWN	None	40813	None	None	110764235	110790400	-1	None	None
3	PVRL3-AS1	ENSG00000242242	ENST00000467426	antisense	KNOWN	None	40813	None	None	110764627	110788806	-1	None	None
3	PVRL3-AS1	ENSG00000242242	ENST00000463025	antisense	KNOWN	None	40813	None	None	110765749	110788237	-1	None	None
MT	MT-ND6	ENSG00000198695	ENST00000361681	protein_coding	KNOWN	None	7462	525	174	14149	14673	-1	MTND6	NAD6, ND6
X	HNRNPDLP1	ENSG00000226307	ENST00000412834	processed_pseudogene	KNOWN	None	48752	None	None	94893374	94893923	1	None	None
3	None	ENSG00000221457	ENST00000408530	miRNA	NOVEL	None	None	None	None	147798620	147798709	-1	None	None
MT	MT-TE	ENSG00000210194	ENST00000387459	Mt_tRNA	KNOWN	None	7479	None	None	14674	14742	-1	MTTE	trnE
X	None	ENSG00000225322	ENST00000413031	unprocessed_pseudogene	KNOWN	None	None	None	None	52293397	52297093	-1	None	None
2	None	ENSG00000230783	ENST00000449832	processed_pseudogene	KNOWN	None	None	None	None	160545728	160546802	-1	None	None
1	ATP6V0E1P4	ENSG00000227883	ENST00000427294	processed_pseudogene	KNOWN	None	41938	None	None	48015868	48016425	1	None	None
1	None	ENSG00000236327	ENST00000441288	processed_pseudogene	KNOWN	None	None	None	None	153863071	153863341	1	None	None
8	RNU6-144P	ENSG00000206678	ENST00000383951	snRNA	KNOWN	None	47107	None	None	138117595	138117701	1	None	None
X	RPS7P13	ENSG00000235425	ENST00000413955	processed_pseudogene	KNOWN	None	35756	None	None	94934129	94934626	-1	None	None
6	None	ENSG00000219087	ENST00000403051	processed_pseudogene	KNOWN	None	None	None	None	92436877	92437042	1	None	None
14	None	ENSG00000258394	ENST00000557251	sense_overlapping	KNOWN	None	None	None	None	42832186	43172858	1	None	None
11	None	ENSG00000254569	ENST00000531656	unprocessed_pseudogene	KNOWN	None	None	None	None	104743991	104744144	1	None	None
1	None	ENSG00000233129	ENST00000438864	processed_pseudogene	KNOWN	None	None	None	None	94400035	94400800	-1	None	None
18	MC4R	ENSG00000166603	ENST00000299766	protein_coding	KNOWN	CCDS11976	6932	999	332	58038564	58040001	-1	None	None
MT	MT-CYB	ENSG00000198727	ENST00000361789	protein_coding	KNOWN	None	7427	1141	379	14747	15887	1	MTCYB	COB, CYTB, UQCR3
15	RNU7-195P	ENSG00000239151	ENST00000458793	snRNA	KNOWN	None	45729	None	None	89664010	89664071	1	None	None
2	None	ENSG00000227055	ENST00000435771	processed_pseudogene	KNOWN	None	None	None	None	160668745	160670520	-1	None	None
12	RNU4-32P	ENSG00000200274	ENST00000363404	snRNA	KNOWN	None	46968	None	None	110005780	110005920	-1	None	None
MT	MT-TT	ENSG00000210195	ENST00000387460	Mt_tRNA	KNOWN	None	7499	None	None	15888	15953	1	MTTT	trnT
11	OR52B5P	ENSG00000231049	ENST00000435337	unprocessed_pseudogene	KNOWN	None	15210	None	None	5582197	5583147	1	None	None
17	TMEM256	ENSG00000205544	ENST00000302422	protein_coding	KNOWN	CCDS11102	28618	342	113	7306294	7307456	-1	C17orf61	MGC40107
17	TMEM256	ENSG00000205544	ENST00000575427	retained_intron	KNOWN	None	28618	None	None	7306297	7306799	-1	C17orf61	MGC40107
17	TMEM256	ENSG00000205544	ENST00000576017	protein_coding	PUTATIVE	None	28618	81	26	7306302	7307358	-1	C17orf61	MGC40107
1	None	ENSG00000233482	ENST00000439455	antisense	KNOWN	None	None	None	None	94610667	94611175	1	None	None
10	DUSP8P5	ENSG00000235316	ENST00000422884	processed_pseudogene	KNOWN	None	45003	None	None	75491582	75493396	1	None	None
MT	MT-TP	ENSG00000210196	ENST00000387461	Mt_tRNA	KNOWN	None	7494	None	None	15956	16023	-1	MTTP	trnP
3	None	ENSG00000241792	ENST00000476987	lincRNA	KNOWN	None	None	None	None	147810962	147845020	1	None	None
8	None	ENSG00000254076	ENST00000523156	processed_pseudogene	KNOWN	None	None	None	None	138708967	138710710	1	None	None
12	None	ENSG00000256155	ENST00000535911	lincRNA	KNOWN	None	None	None	None	10511063	10513644	-1	None	None
8	RPS3AP35	ENSG00000244289	ENST00000478386	processed_pseudogene	KNOWN	None	35902	None	None	12485985	12486765	-1	None	None
1	OR2T11	ENSG00000183130	ENST00000330803	protein_coding	KNOWN	CCDS31122	19574	951	316	248789420	248790491	-1	None	OR2T11Q
14	RN7SL461P	ENSG00000243801	ENST00000484915	misc_RNA	KNOWN	None	46477	None	None	57291092	57291374	-1	None	None
X	None	ENSG00000233742	ENST00000440881	unprocessed_pseudogene	KNOWN	None	None	None	None	52304893	52307444	1	None	None
2	RMRPP3	ENSG00000252465	ENST00000516656	misc_RNA	KNOWN	None	47033	None	None	161253340	161253479	-1	None	None
1	None	ENSG00000233791	ENST00000457348	lincRNA	KNOWN	None	None	None	None	203267886	203274437	-1	None	None
1	None	ENSG00000233791	ENST00000425698	lincRNA	KNOWN	None	None	None	None	203269642	203273676	-1	None	None
1	None	ENSG00000233791	ENST00000432511	lincRNA	KNOWN	None	None	None	None	203270294	203274387	-1	None	None
X	OR7L1P	ENSG00000232787	ENST00000456181	processed_pseudogene	KNOWN	None	14827	None	None	130730113	130730812	1	None	None
1	RN7SL440P	ENSG00000264963	ENST00000577855	misc_RNA	KNOWN	None	46456	None	None	94616294	94616610	1	None	None
11	None	ENSG00000181395	ENST00000440231	unprocessed_pseudogene	KNOWN	None	None	None	None	56180172	56181156	1	None	None
11	None	ENSG00000181395	ENST00000327258	pseudogene	KNOWN	None	None	None	None	56180220	56181144	1	None	None
8	None	ENSG00000253907	ENST00000517893	processed_pseudogene	KNOWN	None	None	None	None	28095947	28096422	1	None	None
14	IGHV3-64	ENSG00000223648	ENST00000454421	IG_V_gene	KNOWN	None	5617	354	117	107113741	107114274	-1	None	None
2	MIR4785	ENSG00000263948	ENST00000585005	miRNA	KNOWN	None	41889	None	None	161264321	161264393	-1	None	hsa-mir-4785
16	None	ENSG00000270466	ENST00000605106	protein_coding	KNOWN	CCDS10678	None	1119	372	30389755	30393863	-1	None	None
11	None	ENSG00000255369	ENST00000531824	processed_pseudogene	KNOWN	None	None	None	None	128750220	128750563	-1	None	None
1	None	ENSG00000221447	ENST00000408520	miRNA	NOVEL	None	None	None	None	48086765	48086849	-1	None	None
15	HMGB1P8	ENSG00000259699	ENST00000558211	processed_pseudogene	KNOWN	None	13319	None	None	89678778	89679726	-1	HMG1L8, HMGB1L8	None
1	None	ENSG00000238389	ENST00000458933	snoRNA	NOVEL	None	None	None	None	94616974	94617077	1	None	None
2	RN7SL423P	ENSG00000244372	ENST00000486202	misc_RNA	KNOWN	None	46439	None	None	161734058	161734359	1	None	None
1	None	ENSG00000227947	ENST00000454285	lincRNA	KNOWN	None	None	None	None	48154135	48169055	1	None	None
13	LINC00398	ENSG00000237879	ENST00000414407	lincRNA	KNOWN	None	42727	None	None	31377343	31384782	1	None	None
1	None	ENSG00000231363	ENST00000413103	lincRNA	KNOWN	None	None	None	None	94713464	94715048	1	None	None
2	None	ENSG00000232337	ENST00000417893	processed_pseudogene	KNOWN	None	None	None	None	161905117	161907057	-1	None	None
14	None	ENSG00000258505	ENST00000553912	transcribed_processed_pseudogene	KNOWN	None	None	None	None	43078071	43078780	1	None	None
22	APOBEC3G	ENSG00000239713	ENST00000407997	protein_coding	KNOWN	CCDS13984	17357	1155	384	39473010	39483748	1	None	CEM15, MDS019, dJ494G10.1, FLJ12740, bK150C2.7
22	APOBEC3G	ENSG00000239713	ENST00000463934	retained_intron	KNOWN	None	17357	None	None	39473072	39475705	1	None	CEM15, MDS019, dJ494G10.1, FLJ12740, bK150C2.7
22	APOBEC3G	ENSG00000239713	ENST00000480000	retained_intron	KNOWN	None	17357	None	None	39473084	39477692	1	None	CEM15, MDS019, dJ494G10.1, FLJ12740, bK150C2.7
22	APOBEC3G	ENSG00000239713	ENST00000461827	processed_transcript	KNOWN	None	17357	None	None	39473089	39479889	1	None	CEM15, MDS019, dJ494G10.1, FLJ12740, bK150C2.7
22	APOBEC3G	ENSG00000239713	ENST00000486357	processed_transcript	KNOWN	None	17357	None	None	39474517	39477199	1	None	CEM15, MDS019, dJ494G10.1, FLJ12740, bK150C2.7
22	APOBEC3G	ENSG00000239713	ENST00000494150	retained_intron	KNOWN	None	17357	None	None	39475667	39478684	1	None	CEM15, MDS019, dJ494G10.1, FLJ12740, bK150C2.7
22	APOBEC3G	ENSG00000239713	ENST00000481958	retained_intron	KNOWN	None	17357	None	None	39476640	39479219	1	None	CEM15, MDS019, dJ494G10.1, FLJ12740, bK150C2.7
22	APOBEC3G	ENSG00000239713	ENST00000452957	protein_coding	KNOWN	None	17357	1155	384	39436924	39483735	1	None	CEM15, MDS019, dJ494G10.1, FLJ12740, bK150C2.7
14	RNU6-1204P	ENSG00000200818	ENST00000363948	snRNA	KNOWN	None	48167	None	None	57291704	57291810	1	None	None
12	None	ENSG00000245648	ENST00000500682	antisense	KNOWN	None	None	None	None	10516368	10551105	1	None	None
1	None	ENSG00000231416	ENST00000431295	processed_pseudogene	KNOWN	None	None	None	None	153968108	153968436	1	None	None
X	None	ENSG00000227628	ENST00000412941	unprocessed_pseudogene	KNOWN	None	None	None	None	52333857	52334578	-1	None	None
11	OR52T1P	ENSG00000233646	ENST00000435078	unprocessed_pseudogene	KNOWN	None	15236	None	None	5587908	5588846	-1	None	None
16	PKD1L2	ENSG00000269323	ENST00000599697	protein_coding	KNOWN	CCDS42202	21715	2976	991	81204345	81253975	-1	None	KIAA1879
1	GAPDHP29	ENSG00000178596	ENST00000429913	processed_pseudogene	KNOWN	None	37781	None	None	94767594	94768578	1	None	None
14	RPL3P3	ENSG00000243388	ENST00000467870	processed_pseudogene	KNOWN	None	23550	None	None	57445127	57446339	1	None	None
1	None	ENSG00000269113	ENST00000606738	lincRNA	KNOWN	None	None	None	None	48226200	48230668	-1	None	None
1	None	ENSG00000269113	ENST00000594280	lincRNA	KNOWN	None	None	None	None	48226979	48227290	-1	None	None
1	None	ENSG00000252669	ENST00000516860	snoRNA	NOVEL	None	None	None	None	153970517	153970627	-1	None	None
X	None	ENSG00000270583	ENST00000605604	processed_pseudogene	KNOWN	None	None	None	None	94975242	94976143	1	None	None
1	RNU6-487P	ENSG00000202300	ENST00000365430	snRNA	KNOWN	None	47450	None	None	203288124	203288227	-1	None	None
2	None	ENSG00000224467	ENST00000425470	antisense	KNOWN	None	None	None	None	161952742	162016735	-1	None	None
1	RNU6-179P	ENSG00000200220	ENST00000363350	snRNA	KNOWN	None	47142	None	None	154012392	154012498	-1	None	None
8	None	ENSG00000238323	ENST00000459100	miRNA	NOVEL	None	None	None	None	12493613	12493761	1	None	None
11	OR5M4P	ENSG00000230416	ENST00000529436	unprocessed_pseudogene	KNOWN	None	14808	None	None	56216144	56217068	1	None	None
1	None	ENSG00000229652	ENST00000381357	processed_pseudogene	KNOWN	None	None	None	None	203322493	203322779	-1	None	None
12	RN7SKP250	ENSG00000200794	ENST00000363924	misc_RNA	KNOWN	None	45974	None	None	110100668	110100988	-1	None	None
8	None	ENSG00000253690	ENST00000521731	antisense	KNOWN	None	None	None	None	28107580	28196772	-1	None	None
17	HOXB3	ENSG00000120093	ENST00000470495	protein_coding	KNOWN	CCDS11528	5114	1296	431	46626232	46631284	-1	HOX2, HOX2G	None
17	HOXB3	ENSG00000120093	ENST00000472863	protein_coding	PUTATIVE	None	5114	1077	358	46627174	46667603	-1	HOX2, HOX2G	None
17	HOXB3	ENSG00000120093	ENST00000311626	protein_coding	KNOWN	CCDS11528	5114	1296	431	46627247	46651849	-1	HOX2, HOX2G	None
17	HOXB3	ENSG00000120093	ENST00000498678	protein_coding	KNOWN	CCDS11528	5114	1296	431	46627368	46667634	-1	HOX2, HOX2G	None
17	HOXB3	ENSG00000120093	ENST00000490677	protein_coding	PUTATIVE	None	5114	894	297	46627619	46651385	-1	HOX2, HOX2G	None
17	HOXB3	ENSG00000120093	ENST00000460160	protein_coding	PUTATIVE	None	5114	900	299	46627629	46667600	-1	HOX2, HOX2G	None
17	HOXB3	ENSG00000120093	ENST00000489475	protein_coding	PUTATIVE	None	5114	1077	358	46627630	46659984	-1	HOX2, HOX2G	None
17	HOXB3	ENSG00000120093	ENST00000476342	protein_coding	KNOWN	CCDS11528	5114	1296	431	46627696	46667597	-1	HOX2, HOX2G	None
17	HOXB3	ENSG00000120093	ENST00000471459	protein_coding	PUTATIVE	None	5114	270	89	46628503	46633883	-1	HOX2, HOX2G	None
17	HOXB3	ENSG00000120093	ENST00000465120	protein_coding	PUTATIVE	None	5114	360	119	46631647	46656719	-1	HOX2, HOX2G	None
17	HOXB3	ENSG00000120093	ENST00000478644	retained_intron	KNOWN	None	5114	None	None	46632753	46634305	-1	HOX2, HOX2G	None
17	HOXB3	ENSG00000120093	ENST00000464266	retained_intron	KNOWN	None	5114	None	None	46651290	46652912	-1	HOX2, HOX2G	None
17	HOXB3	ENSG00000120093	ENST00000552000	processed_transcript	KNOWN	None	5114	None	None	46651344	46682274	-1	HOX2, HOX2G	None
17	HOXB3	ENSG00000120093	ENST00000485909	protein_coding	KNOWN	None	5114	900	299	46627629	46652438	-1	HOX2, HOX2G	None
12	None	ENSG00000257464	ENST00000549563	processed_pseudogene	KNOWN	None	None	None	None	49836207	49836435	-1	None	None
X	None	ENSG00000231283	ENST00000381704	unprocessed_pseudogene	KNOWN	None	None	None	None	52345599	52346259	1	None	None
17	DHX40	ENSG00000108406	ENST00000251241	protein_coding	KNOWN	CCDS11617	18018	2340	779	57642886	57685706	1	DDX40	ARG147, PAD, FLJ22060
17	DHX40	ENSG00000108406	ENST00000580218	nonsense_mediated_decay	KNOWN	None	18018	306	101	57642919	57651620	1	DDX40	ARG147, PAD, FLJ22060
17	DHX40	ENSG00000108406	ENST00000577596	nonsense_mediated_decay	KNOWN	None	18018	216	71	57642972	57651117	1	DDX40	ARG147, PAD, FLJ22060
17	DHX40	ENSG00000108406	ENST00000425628	protein_coding	KNOWN	CCDS54150	18018	2109	702	57642973	57684619	1	DDX40	ARG147, PAD, FLJ22060
17	DHX40	ENSG00000108406	ENST00000584385	protein_coding	NOVEL	None	18018	521	172	57642974	57651243	1	DDX40	ARG147, PAD, FLJ22060
17	DHX40	ENSG00000108406	ENST00000580030	protein_coding	NOVEL	None	18018	806	267	57642984	57652725	1	DDX40	ARG147, PAD, FLJ22060
17	DHX40	ENSG00000108406	ENST00000538926	protein_coding	NOVEL	None	18018	750	249	57654627	57676842	1	DDX40	ARG147, PAD, FLJ22060
17	DHX40	ENSG00000108406	ENST00000583439	retained_intron	KNOWN	None	18018	None	None	57665282	57677028	1	DDX40	ARG147, PAD, FLJ22060
17	DHX40	ENSG00000108406	ENST00000578204	retained_intron	KNOWN	None	18018	None	None	57676735	57683017	1	DDX40	ARG147, PAD, FLJ22060
17	DHX40	ENSG00000108406	ENST00000577549	retained_intron	KNOWN	None	18018	None	None	57680648	57684920	1	DDX40	ARG147, PAD, FLJ22060
17	DHX40	ENSG00000108406	ENST00000451169	protein_coding	KNOWN	None	18018	2196	731	57642971	57685702	1	DDX40	ARG147, PAD, FLJ22060
1	None	ENSG00000223814	ENST00000438589	lincRNA	KNOWN	None	None	None	None	48226804	48231219	-1	None	None
1	RPS7P2	ENSG00000231837	ENST00000435134	processed_pseudogene	KNOWN	None	36079	None	None	154051342	154052439	1	None	None
14	IGHV3-66	ENSG00000211972	ENST00000390632	IG_V_gene	KNOWN	None	5619	348	115	107131033	107131560	-1	None	None
1	None	ENSG00000258664	ENST00000553856	protein_coding	KNOWN	CCDS53439	None	396	131	179833916	179834311	-1	None	None
1	None	ENSG00000271588	ENST00000605576	processed_pseudogene	KNOWN	None	None	None	None	203369394	203369709	-1	None	None
11	None	ENSG00000235505	ENST00000532510	processed_transcript	KNOWN	None	None	None	None	104772276	104779432	-1	None	None
11	None	ENSG00000235505	ENST00000528437	processed_transcript	KNOWN	None	None	None	None	104772276	104788872	-1	None	None
11	None	ENSG00000235505	ENST00000531091	processed_transcript	KNOWN	None	None	None	None	104772276	104788885	-1	None	None
11	None	ENSG00000235505	ENST00000534659	processed_transcript	KNOWN	None	None	None	None	104772277	104774437	-1	None	None
11	None	ENSG00000235505	ENST00000527637	processed_transcript	KNOWN	None	None	None	None	104772280	104788902	-1	None	None
11	None	ENSG00000235505	ENST00000532441	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	104774180	104780642	-1	None	None
11	None	ENSG00000235505	ENST00000531371	processed_transcript	KNOWN	None	None	None	None	104774180	104789800	-1	None	None
11	None	ENSG00000235505	ENST00000527425	processed_transcript	KNOWN	None	None	None	None	104774244	104788868	-1	None	None
11	None	ENSG00000235505	ENST00000527617	processed_transcript	KNOWN	None	None	None	None	104777285	104788874	-1	None	None
11	None	ENSG00000235505	ENST00000530264	processed_transcript	KNOWN	None	None	None	None	104779415	104788870	-1	None	None
12	SLC25A39P2	ENSG00000257016	ENST00000537614	processed_pseudogene	KNOWN	None	48936	None	None	10703865	10704134	-1	None	None
10	None	ENSG00000270808	ENST00000604613	processed_pseudogene	KNOWN	None	None	None	None	75500296	75500581	-1	None	None
X	OR2AF1P	ENSG00000235730	ENST00000454899	processed_pseudogene	KNOWN	None	14719	None	None	130753023	130753911	1	OR2AF2P	None
1	None	ENSG00000225028	ENST00000445070	lincRNA	KNOWN	None	None	None	None	48283738	48285909	1	None	None
1	None	ENSG00000236098	ENST00000414039	lincRNA	KNOWN	None	None	None	None	94784035	94790125	-1	None	None
4	None	ENSG00000251165	ENST00000505103	antisense	KNOWN	None	None	None	None	187207248	187422151	-1	None	None
4	None	ENSG00000251165	ENST00000510172	antisense	KNOWN	None	None	None	None	187344882	187347447	-1	None	None
4	None	ENSG00000251165	ENST00000508110	antisense	KNOWN	None	None	None	None	187344882	187422151	-1	None	None
4	None	ENSG00000251165	ENST00000508287	antisense	KNOWN	None	None	None	None	187348128	187422151	-1	None	None
2	None	ENSG00000235724	ENST00000421122	antisense	KNOWN	None	None	None	None	162079296	162111179	-1	None	None
2	None	ENSG00000235724	ENST00000445372	antisense	KNOWN	None	None	None	None	162079771	162107673	-1	None	None
2	None	ENSG00000235724	ENST00000435692	antisense	KNOWN	None	None	None	None	162102758	162111179	-1	None	None
11	None	ENSG00000270323	ENST00000605250	processed_pseudogene	KNOWN	None	None	None	None	73351524	73352082	1	None	None
2	None	ENSG00000237666	ENST00000437031	unprocessed_pseudogene	KNOWN	None	None	None	None	107087255	107094125	-1	None	None
10	RMRPP1	ENSG00000253045	ENST00000517236	misc_RNA	KNOWN	None	47031	None	None	75534080	75534299	-1	None	None
14	None	ENSG00000258758	ENST00000556703	processed_pseudogene	KNOWN	None	None	None	None	57507603	57509222	1	None	None
11	None	ENSG00000252732	ENST00000516923	misc_RNA	NOVEL	None	None	None	None	73375560	73375642	-1	None	None
13	TEX26-AS1	ENSG00000224743	ENST00000592950	antisense	KNOWN	None	42784	None	None	31456070	31505420	-1	LINC00447	None
13	TEX26-AS1	ENSG00000224743	ENST00000585870	antisense	KNOWN	None	42784	None	None	31456978	31506743	-1	LINC00447	None
13	TEX26-AS1	ENSG00000224743	ENST00000588726	antisense	KNOWN	None	42784	None	None	31457086	31505762	-1	LINC00447	None
13	TEX26-AS1	ENSG00000224743	ENST00000590344	antisense	KNOWN	None	42784	None	None	31473543	31505495	-1	LINC00447	None
13	TEX26-AS1	ENSG00000224743	ENST00000593246	antisense	KNOWN	None	42784	None	None	31478894	31505691	-1	LINC00447	None
13	TEX26-AS1	ENSG00000224743	ENST00000590721	antisense	KNOWN	None	42784	None	None	31482913	31505565	-1	LINC00447	None
13	TEX26-AS1	ENSG00000224743	ENST00000451495	antisense	KNOWN	None	42784	None	None	31490183	31505646	-1	LINC00447	None
13	TEX26-AS1	ENSG00000224743	ENST00000586973	antisense	KNOWN	None	42784	None	None	31490183	31505656	-1	LINC00447	None
13	TEX26-AS1	ENSG00000224743	ENST00000586464	antisense	KNOWN	None	42784	None	None	31490321	31505566	-1	LINC00447	None
13	TEX26-AS1	ENSG00000224743	ENST00000588425	antisense	KNOWN	None	42784	None	None	31496482	31506593	-1	LINC00447	None
13	TEX26-AS1	ENSG00000224743	ENST00000585582	antisense	KNOWN	None	42784	None	None	31502795	31505679	-1	LINC00447	None
13	TEX26-AS1	ENSG00000224743	ENST00000411835	antisense	KNOWN	None	42784	None	None	31504809	31506721	-1	LINC00447	None
13	TEX26-AS1	ENSG00000224743	ENST00000589840	antisense	KNOWN	None	42784	None	None	31504983	31506390	-1	LINC00447	None
13	TEX26-AS1	ENSG00000224743	ENST00000429200	antisense	KNOWN	None	42784	None	None	31505766	31506620	-1	LINC00447	None
13	TEX26-AS1	ENSG00000224743	ENST00000587596	antisense	KNOWN	None	42784	None	None	31505851	31507574	-1	LINC00447	None
13	TEX26-AS1	ENSG00000224743	ENST00000591131	antisense	KNOWN	None	42784	None	None	31505851	31507983	-1	LINC00447	None
13	TEX26-AS1	ENSG00000224743	ENST00000591300	antisense	KNOWN	None	42784	None	None	31505924	31507568	-1	LINC00447	None
11	OR5M2P	ENSG00000254752	ENST00000529003	unprocessed_pseudogene	KNOWN	None	14803	None	None	56246968	56247903	-1	None	None
1	MIR5698	ENSG00000263987	ENST00000577643	miRNA	KNOWN	None	43487	None	None	154076997	154077068	-1	None	hsa-mir-5698
1	None	ENSG00000226835	ENST00000418242	lincRNA	KNOWN	None	None	None	None	94798823	94800404	1	None	None
10	None	ENSG00000224195	ENST00000434147	antisense	KNOWN	None	None	None	None	75573276	75574495	1	None	None
3	TMPRSS7	ENSG00000176040	ENST00000452346	protein_coding	NOVEL	None	30846	2532	843	111753690	111800012	1	None	None
3	TMPRSS7	ENSG00000176040	ENST00000435737	nonsense_mediated_decay	KNOWN	None	30846	390	129	111758467	111800116	1	None	None
3	TMPRSS7	ENSG00000176040	ENST00000419127	protein_coding	KNOWN	CCDS43129	30846	2154	717	111758553	111800012	1	None	None
3	TMPRSS7	ENSG00000176040	ENST00000460599	protein_coding	PUTATIVE	None	30846	548	181	111761825	111766814	1	None	None
8	None	ENSG00000253288	ENST00000518973	lincRNA	KNOWN	None	None	None	None	138821687	139095813	-1	None	None
1	None	ENSG00000226133	ENST00000456803	lincRNA	KNOWN	None	None	None	None	48519217	48522448	1	None	None
1	None	ENSG00000226133	ENST00000439795	lincRNA	KNOWN	None	None	None	None	48519881	48532873	1	None	None
3	RNU6-1194P	ENSG00000252017	ENST00000516208	snRNA	KNOWN	None	48157	None	None	324372	324475	-1	None	None
12	None	ENSG00000257964	ENST00000550644	antisense	KNOWN	None	None	None	None	49970623	49971288	-1	None	None
1	RN7SL431P	ENSG00000264384	ENST00000582918	misc_RNA	KNOWN	None	46447	None	None	154138723	154139025	-1	None	None
2	CRIM1	ENSG00000150938	ENST00000280527	protein_coding	KNOWN	CCDS1783	2359	3111	1036	36583069	36778278	1	S52	None
2	CRIM1	ENSG00000150938	ENST00000426856	protein_coding	NOVEL	None	2359	667	221	36583586	36691798	1	S52	None
2	CRIM1	ENSG00000150938	ENST00000428774	protein_coding	PUTATIVE	None	2359	167	54	36583614	36606046	1	S52	None
2	CRIM1	ENSG00000150938	ENST00000473403	processed_transcript	KNOWN	None	2359	None	None	36596258	36606367	1	S52	None
2	CRIM1	ENSG00000150938	ENST00000477491	processed_transcript	KNOWN	None	2359	None	None	36605500	36606356	1	S52	None
2	CRIM1	ENSG00000150938	ENST00000497236	processed_transcript	KNOWN	None	2359	None	None	36605500	36606356	1	S52	None
2	CRIM1	ENSG00000150938	ENST00000481321	retained_intron	KNOWN	None	2359	None	None	36706686	36726555	1	S52	None
2	CRIM1	ENSG00000150938	ENST00000413985	protein_coding	PUTATIVE	None	2359	528	175	36740833	36756655	1	S52	None
HG7_PATCH	TRBJ2-5	ENSG00000260373	ENST00000566152	TR_J_gene	KNOWN	None	12173	48	15	142558012	142558059	1	None	TRBJ25, TCRBJ2S5
2	BRE	ENSG00000158019	ENST00000436924	protein_coding	KNOWN	None	1106	460	152	28112808	28248252	1	None	BRCC45, BRCC4
2	BRE	ENSG00000158019	ENST00000344773	protein_coding	KNOWN	CCDS1764	1106	1248	415	28113596	28561768	1	None	BRCC45, BRCC4
2	BRE	ENSG00000158019	ENST00000379624	protein_coding	KNOWN	CCDS1763	1106	1152	383	28113617	28561768	1	None	BRCC45, BRCC4
2	BRE	ENSG00000158019	ENST00000492702	retained_intron	KNOWN	None	1106	None	None	28113630	28117935	1	None	BRCC45, BRCC4
2	BRE	ENSG00000158019	ENST00000603461	processed_transcript	KNOWN	None	1106	None	None	28113651	28248355	1	None	BRCC45, BRCC4
2	BRE	ENSG00000158019	ENST00000496951	retained_intron	KNOWN	None	1106	None	None	28113654	28153228	1	None	BRCC45, BRCC4
2	BRE	ENSG00000158019	ENST00000342045	protein_coding	KNOWN	CCDS1763	1106	1152	383	28113659	28561768	1	None	BRCC45, BRCC4
2	BRE	ENSG00000158019	ENST00000379632	protein_coding	KNOWN	CCDS1765	1106	1131	376	28113660	28561768	1	None	BRCC45, BRCC4
2	BRE	ENSG00000158019	ENST00000361704	protein_coding	KNOWN	CCDS1765	1106	1131	376	28113660	28561768	1	None	BRCC45, BRCC4
2	BRE	ENSG00000158019	ENST00000379629	protein_coding	PUTATIVE	None	1106	853	283	28117412	28456182	1	None	BRCC45, BRCC4
2	BRE	ENSG00000158019	ENST00000604932	non_stop_decay	KNOWN	None	1106	500	165	28117487	28248355	1	None	BRCC45, BRCC4
3	RPS8P6	ENSG00000231660	ENST00000426177	processed_pseudogene	KNOWN	None	36947	None	None	350397	351005	-1	None	None
10	None	ENSG00000229990	ENST00000446730	antisense	KNOWN	None	None	None	None	75601591	75606324	1	None	None
1	OR2T35	ENSG00000177151	ENST00000317450	protein_coding	KNOWN	CCDS31123	31257	972	323	248801588	248802559	-1	None	None
1	MIR190B	ENSG00000215938	ENST00000401119	miRNA	KNOWN	None	33656	None	None	154166141	154166219	-1	MIRN190B	hsa-mir-190b
X	None	ENSG00000261212	ENST00000566241	sense_overlapping	KNOWN	None	None	None	None	140267420	140267773	-1	None	None
1	None	ENSG00000236035	ENST00000451818	processed_pseudogene	KNOWN	None	None	None	None	203626097	203626888	-1	None	None
4	SMARCAD1	ENSG00000163104	ENST00000359052	protein_coding	KNOWN	CCDS47101	18398	3087	1028	95128762	95212441	1	None	ETL1, DKFZP762K2015, KIAA1122, DKFZp762K2015
4	SMARCAD1	ENSG00000163104	ENST00000457823	protein_coding	KNOWN	CCDS47101	18398	3087	1028	95128996	95211972	1	None	ETL1, DKFZP762K2015, KIAA1122, DKFZp762K2015
4	SMARCAD1	ENSG00000163104	ENST00000510105	nonsense_mediated_decay	KNOWN	None	18398	735	244	95129017	95198310	1	None	ETL1, DKFZP762K2015, KIAA1122, DKFZp762K2015
4	SMARCAD1	ENSG00000163104	ENST00000354268	protein_coding	KNOWN	CCDS3639	18398	3081	1026	95129198	95212443	1	None	ETL1, DKFZP762K2015, KIAA1122, DKFZp762K2015
4	SMARCAD1	ENSG00000163104	ENST00000394961	nonsense_mediated_decay	KNOWN	None	18398	213	70	95129235	95211050	1	None	ETL1, DKFZP762K2015, KIAA1122, DKFZp762K2015
4	SMARCAD1	ENSG00000163104	ENST00000509418	protein_coding	PUTATIVE	CCDS58914	18398	1791	596	95174445	95210855	1	None	ETL1, DKFZP762K2015, KIAA1122, DKFZp762K2015
4	SMARCAD1	ENSG00000163104	ENST00000506089	retained_intron	KNOWN	None	18398	None	None	95185679	95194851	1	None	ETL1, DKFZP762K2015, KIAA1122, DKFZp762K2015
4	SMARCAD1	ENSG00000163104	ENST00000514232	retained_intron	KNOWN	None	18398	None	None	95191718	95196072	1	None	ETL1, DKFZP762K2015, KIAA1122, DKFZp762K2015
15	OR4F6	ENSG00000184140	ENST00000328882	protein_coding	KNOWN	CCDS32341	15372	939	312	102345902	102346876	1	OR4F12	None
12	None	ENSG00000256039	ENST00000544591	lincRNA	KNOWN	None	None	None	None	10705962	10710648	1	None	None
12	FAM222A-AS1	ENSG00000255650	ENST00000541723	antisense	KNOWN	None	28223	None	None	110171971	110211313	-1	None	None
12	FAM222A-AS1	ENSG00000255650	ENST00000541460	antisense	KNOWN	None	28223	None	None	110172128	110211289	-1	None	None
12	FAM222A-AS1	ENSG00000255650	ENST00000536474	antisense	KNOWN	None	28223	None	None	110172217	110173762	-1	None	None
3	CHL1-AS1	ENSG00000234661	ENST00000417612	antisense	KNOWN	None	40148	None	None	405053	427478	-1	None	None
1	None	ENSG00000252817	ENST00000517008	miRNA	NOVEL	None	None	None	None	154226921	154226997	1	None	None
HG7_PATCH	TRBJ2-6	ENSG00000260712	ENST00000562885	TR_J_gene	KNOWN	None	12174	53	16	142558132	142558184	1	None	TRBJ26, TCRBJ2S6
2	CD8BP	ENSG00000254126	ENST00000417670	transcribed_unprocessed_pseudogene	KNOWN	None	1708	None	None	107103883	107123396	1	CD8B2	None
2	CD8BP	ENSG00000254126	ENST00000416057	processed_transcript	KNOWN	None	1708	None	None	107103885	107120781	1	CD8B2	None
2	CD8BP	ENSG00000254126	ENST00000446559	unprocessed_pseudogene	KNOWN	None	1708	None	None	107103824	107121069	1	CD8B2	None
2	CD8BP	ENSG00000254126	ENST00000303432	unprocessed_pseudogene	KNOWN	None	1708	None	None	107103824	107114283	1	CD8B2	None
8	RPL5P22	ENSG00000239198	ENST00000480199	processed_pseudogene	KNOWN	None	35695	None	None	28157200	28158083	1	None	None
4	COL25A1	ENSG00000188517	ENST00000494183	nonsense_mediated_decay	KNOWN	None	18603	1491	496	109731877	110223523	-1	None	None
4	COL25A1	ENSG00000188517	ENST00000512961	protein_coding	KNOWN	None	18603	88	28	109734855	109745375	-1	None	None
4	COL25A1	ENSG00000188517	ENST00000399132	protein_coding	KNOWN	CCDS43258	18603	1965	654	109734855	110223799	-1	None	None
4	COL25A1	ENSG00000188517	ENST00000399127	protein_coding	NOVEL	CCDS58922	18603	1938	645	109745032	110223523	-1	None	None
4	COL25A1	ENSG00000188517	ENST00000399126	protein_coding	KNOWN	CCDS43259	18603	1929	642	109745032	110223799	-1	None	None
4	COL25A1	ENSG00000188517	ENST00000505377	retained_intron	KNOWN	None	18603	None	None	109745330	109753848	-1	None	None
4	COL25A1	ENSG00000188517	ENST00000505591	protein_coding	KNOWN	None	18603	211	69	110222965	110223813	-1	None	None
1	None	ENSG00000201129	ENST00000364259	snoRNA	NOVEL	None	None	None	None	154232203	154232338	1	None	None
1	None	ENSG00000232918	ENST00000442943	processed_pseudogene	KNOWN	None	None	None	None	94871951	94872438	-1	None	None
8	None	ENSG00000255253	ENST00000528506	processed_pseudogene	KNOWN	None	None	None	None	12495937	12496111	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000257736	ENST00000442514	protein_coding	NOVEL	None	None	375	124	31860647	31861502	1	None	None
14	None	ENSG00000259136	ENST00000555786	processed_pseudogene	KNOWN	None	None	None	None	57511364	57511678	-1	None	None
11	None	ENSG00000255928	ENST00000538624	antisense	KNOWN	None	None	None	None	73433394	73433739	1	None	None
X	None	ENSG00000232842	ENST00000444292	processed_pseudogene	KNOWN	None	None	None	None	95228327	95229314	-1	None	None
1	None	ENSG00000252682	ENST00000516873	snoRNA	NOVEL	None	None	None	None	154260936	154261003	1	None	None
HG7_PATCH	TRBJ2-7	ENSG00000260783	ENST00000568349	TR_J_gene	KNOWN	None	12175	47	14	142558349	142558395	1	None	TRBJ27, TCRBJ2S7
17	C17orf107	ENSG00000205710	ENST00000521575	protein_coding	PUTATIVE	None	37238	297	98	4802713	4804094	1	None	None
17	C17orf107	ENSG00000205710	ENST00000381365	protein_coding	KNOWN	CCDS45591	37238	573	190	4802831	4806227	1	None	None
X	RBMX2P2	ENSG00000213423	ENST00000257020	processed_pseudogene	KNOWN	None	39924	None	None	140355255	140358349	-1	None	None
1	SNORA77	ENSG00000221643	ENST00000408716	snoRNA	KNOWN	None	32663	None	None	203698709	203698833	1	None	ACA63
1	RNU6-239P	ENSG00000212292	ENST00000390990	snRNA	KNOWN	None	47202	None	None	154267979	154268077	1	None	None
1	None	ENSG00000231413	ENST00000455238	lincRNA	KNOWN	None	None	None	None	48544459	48547868	-1	None	None
X	RN7SL379P	ENSG00000242998	ENST00000479912	misc_RNA	KNOWN	None	46395	None	None	95278359	95278644	1	None	None
11	None	ENSG00000256034	ENST00000540547	antisense	KNOWN	None	None	None	None	73471608	73472115	1	None	None
14	None	ENSG00000258622	ENST00000554110	processed_pseudogene	KNOWN	None	None	None	None	43126966	43127121	-1	None	None
HSCHR6_MHC_MANN	None	ENSG00000258126	ENST00000552927	protein_coding	NOVEL	None	None	459	152	31861034	31861723	-1	None	None
4	C4orf17	ENSG00000138813	ENST00000326581	protein_coding	KNOWN	CCDS3649	25274	1080	359	100432161	100463460	1	None	DKFZP434G072
4	C4orf17	ENSG00000138813	ENST00000514652	protein_coding	PUTATIVE	None	25274	885	294	100432169	100462920	1	None	DKFZP434G072
4	C4orf17	ENSG00000138813	ENST00000477187	nonsense_mediated_decay	KNOWN	None	25274	561	186	100432169	100463442	1	None	DKFZP434G072
4	C4orf17	ENSG00000138813	ENST00000503257	processed_transcript	KNOWN	None	25274	None	None	100440399	100451112	1	None	DKFZP434G072
HSCHR17_1	None	ENSG00000257822	ENST00000552476	protein_coding	NOVEL	None	None	72	23	44410812	44414829	-1	None	None
1	RNU6-121P	ENSG00000222457	ENST00000410525	snRNA	KNOWN	None	47084	None	None	154270126	154270224	1	None	None
1	None	ENSG00000227417	ENST00000432760	processed_pseudogene	KNOWN	None	None	None	None	203774749	203775391	-1	None	None
19	None	ENSG00000272303	ENST00000607852	protein_coding	KNOWN	CCDS59374	None	447	148	32083187	32083945	1	None	None
1	None	ENSG00000223675	ENST00000413541	lincRNA	KNOWN	None	None	None	None	95051112	95057853	-1	None	None
1	RNU7-57P	ENSG00000238365	ENST00000459540	snRNA	KNOWN	None	34153	None	None	154311219	154311278	1	None	U7.57
11	HNRNPA1P53	ENSG00000229534	ENST00000441603	processed_pseudogene	KNOWN	None	48783	None	None	5592477	5593422	-1	None	None
12	RNU6-834P	ENSG00000199237	ENST00000362367	snRNA	KNOWN	None	47797	None	None	49986887	49986996	1	None	None
15	OR4F15	ENSG00000182854	ENST00000332238	protein_coding	KNOWN	CCDS32342	15078	939	312	102358366	102359350	1	None	None
1	CYP46A4P	ENSG00000237180	ENST00000414953	processed_pseudogene	KNOWN	None	42349	None	None	48555040	48555306	1	None	CYP46A-se1[12:13:14]
HSCHR17_1	None	ENSG00000257717	ENST00000547899	protein_coding	KNOWN	None	None	348	115	44566755	44567102	-1	None	None
1	None	ENSG00000237920	ENST00000449634	unprocessed_pseudogene	KNOWN	None	None	None	None	154349442	154351749	-1	None	None
12	POLR2KP1	ENSG00000258284	ENST00000553226	processed_pseudogene	KNOWN	None	42650	None	None	49987874	49988041	1	None	None
X	FAM46D	ENSG00000174016	ENST00000308293	protein_coding	KNOWN	CCDS14446	28399	1170	389	79675965	79700810	1	None	MGC26999, CT1.26, CT112
X	FAM46D	ENSG00000174016	ENST00000538312	protein_coding	KNOWN	CCDS14446	28399	1170	389	79591003	79700810	1	None	MGC26999, CT1.26, CT112
1	None	ENSG00000235565	ENST00000435559	lincRNA	KNOWN	None	None	None	None	95086707	95089740	-1	None	None
2	RN7SL470P	ENSG00000263669	ENST00000583069	misc_RNA	KNOWN	None	46486	None	None	70302150	70302404	-1	None	None
6	None	ENSG00000272260	ENST00000606661	protein_coding	KNOWN	CCDS59501	None	1779	592	109557864	109591574	1	None	None
HSCHR6_MHC_APD	VARS	ENSG00000231116	ENST00000488037	processed_transcript	PUTATIVE	None	12651	None	None	31756648	31757312	-1	VARS2	None
HSCHR6_MHC_APD	VARS	ENSG00000231116	ENST00000435657	protein_coding	KNOWN	None	12651	3795	1264	31756648	31775083	-1	VARS2	None
HSCHR6_MHC_APD	VARS	ENSG00000231116	ENST00000481159	retained_intron	KNOWN	None	12651	None	None	31758360	31759181	-1	VARS2	None
HSCHR6_MHC_APD	VARS	ENSG00000231116	ENST00000445152	protein_coding	KNOWN	None	12651	863	286	31759585	31761719	-1	VARS2	None
HSCHR6_MHC_APD	VARS	ENSG00000231116	ENST00000487524	processed_transcript	KNOWN	None	12651	None	None	31759681	31761324	-1	VARS2	None
HSCHR6_MHC_APD	VARS	ENSG00000231116	ENST00000491745	retained_intron	KNOWN	None	12651	None	None	31760007	31761055	-1	VARS2	None
HSCHR6_MHC_APD	VARS	ENSG00000231116	ENST00000487025	retained_intron	KNOWN	None	12651	None	None	31760008	31760880	-1	VARS2	None
HSCHR6_MHC_APD	VARS	ENSG00000231116	ENST00000473650	retained_intron	KNOWN	None	12651	None	None	31760488	31761550	-1	VARS2	None
HSCHR6_MHC_APD	VARS	ENSG00000231116	ENST00000495637	retained_intron	KNOWN	None	12651	None	None	31760823	31762369	-1	VARS2	None
HSCHR6_MHC_APD	VARS	ENSG00000231116	ENST00000481216	processed_transcript	KNOWN	None	12651	None	None	31760830	31761559	-1	VARS2	None
HSCHR6_MHC_APD	VARS	ENSG00000231116	ENST00000490548	retained_intron	KNOWN	None	12651	None	None	31761542	31763566	-1	VARS2	None
HSCHR6_MHC_APD	VARS	ENSG00000231116	ENST00000496018	retained_intron	KNOWN	None	12651	None	None	31763729	31772090	-1	VARS2	None
HSCHR6_MHC_APD	VARS	ENSG00000231116	ENST00000465840	retained_intron	KNOWN	None	12651	None	None	31764377	31771408	-1	VARS2	None
HSCHR6_MHC_APD	VARS	ENSG00000231116	ENST00000417430	protein_coding	KNOWN	None	12651	522	173	31772116	31774629	-1	VARS2	None
1	None	ENSG00000223505	ENST00000427282	processed_pseudogene	KNOWN	None	None	None	None	203804713	203805040	-1	None	None
2	None	ENSG00000233060	ENST00000455541	lincRNA	KNOWN	None	None	None	None	70316853	70323232	1	None	None
11	RN7SKP243	ENSG00000199975	ENST00000363105	misc_RNA	KNOWN	None	45967	None	None	73543427	73543735	-1	None	None
X	None	ENSG00000203262	ENST00000340681	processed_pseudogene	KNOWN	None	None	None	None	95325668	95326777	-1	None	None
12	KLRAP1	ENSG00000256667	ENST00000510134	processed_transcript	KNOWN	None	6372	None	None	10741382	10752268	-1	KLRA1	Ly49, LY49L
12	KLRAP1	ENSG00000256667	ENST00000535939	processed_transcript	KNOWN	None	6372	None	None	10741772	10752164	-1	KLRA1	Ly49, LY49L
12	KLRAP1	ENSG00000256667	ENST00000503499	transcribed_unprocessed_pseudogene	KNOWN	None	6372	None	None	10741985	10750808	-1	KLRA1	Ly49, LY49L
12	KLRAP1	ENSG00000256667	ENST00000341141	unprocessed_pseudogene	KNOWN	None	6372	None	None	10741077	10752434	-1	KLRA1	Ly49, LY49L
12	KLRAP1	ENSG00000256667	ENST00000521068	unprocessed_pseudogene	KNOWN	None	6372	None	None	10741882	10752220	-1	KLRA1	Ly49, LY49L
11	CCDC58P5	ENSG00000256681	ENST00000536923	processed_pseudogene	KNOWN	None	45028	None	None	73561514	73562256	-1	None	None
1	None	ENSG00000226855	ENST00000437336	processed_pseudogene	KNOWN	None	None	None	None	154350683	154351565	-1	None	None
HG7_PATCH	TRBC2	ENSG00000260881	ENST00000570020	TR_C_gene	KNOWN	None	12157	539	178	142561934	142563641	1	None	TCRBC2
1	SKINTL	ENSG00000242267	ENST00000604015	processed_transcript	KNOWN	None	33993	None	None	48561764	48593620	-1	SKINTP	None
1	SKINTL	ENSG00000242267	ENST00000452503	processed_transcript	KNOWN	None	33993	None	None	48567387	48627543	-1	SKINTP	None
1	SKINTL	ENSG00000242267	ENST00000401057	unitary_pseudogene	KNOWN	None	33993	None	None	48627471	48644902	-1	SKINTP	None
1	SKINTL	ENSG00000242267	ENST00000453388	processed_transcript	KNOWN	None	33993	None	None	48630382	48648100	-1	SKINTP	None
1	KRT8P29	ENSG00000236430	ENST00000420409	processed_pseudogene	KNOWN	None	33381	None	None	203841702	203843315	-1	None	None
15	None	ENSG00000262728	ENST00000576873	lincRNA	NOVEL	None	None	None	None	32898619	32907361	-1	None	None
17	None	ENSG00000263383	ENST00000578120	miRNA	NOVEL	None	None	None	None	32501264	32501336	1	None	None
2	None	ENSG00000226505	ENST00000424748	retained_intron	KNOWN	None	None	None	None	70321026	70322298	-1	None	None
2	None	ENSG00000226505	ENST00000457870	lincRNA	KNOWN	None	None	None	None	70321029	70322126	-1	None	None
2	None	ENSG00000226505	ENST00000442326	lincRNA	KNOWN	None	None	None	None	70321071	70330352	-1	None	None
1	None	ENSG00000224081	ENST00000442418	lincRNA	KNOWN	None	None	None	None	95104017	95285652	-1	None	None
1	None	ENSG00000224081	ENST00000452922	lincRNA	KNOWN	None	None	None	None	95123089	95285837	-1	None	None
1	None	ENSG00000224081	ENST00000456551	lincRNA	KNOWN	None	None	None	None	95123481	95123806	-1	None	None
1	None	ENSG00000224081	ENST00000432162	lincRNA	KNOWN	None	None	None	None	95138453	95197901	-1	None	None
1	None	ENSG00000224081	ENST00000421997	lincRNA	KNOWN	None	None	None	None	95138685	95285775	-1	None	None
1	None	ENSG00000224081	ENST00000414374	lincRNA	KNOWN	None	None	None	None	95144981	95285766	-1	None	None
1	None	ENSG00000224081	ENST00000418366	lincRNA	KNOWN	None	None	None	None	95145136	95285775	-1	None	None
1	None	ENSG00000224081	ENST00000424711	lincRNA	KNOWN	None	None	None	None	95197689	95208051	-1	None	None
17	None	ENSG00000264990	ENST00000579438	lincRNA	KNOWN	None	None	None	None	32503557	32505185	1	None	None
3	None	ENSG00000224957	ENST00000420823	lincRNA	KNOWN	None	None	None	None	577914	887698	1	None	None
3	None	ENSG00000224957	ENST00000442809	lincRNA	KNOWN	None	None	None	None	577936	884327	1	None	None
1	None	ENSG00000228013	ENST00000424435	antisense	KNOWN	None	None	None	None	154374804	154379040	-1	None	None
18	None	ENSG00000262477	ENST00000573479	lincRNA	NOVEL	None	None	None	None	29992145	29993199	1	None	None
17	None	ENSG00000265501	ENST00000583716	miRNA	NOVEL	None	None	None	None	32510103	32510154	-1	None	None
21	None	ENSG00000207147	ENST00000384418	snoRNA	NOVEL	None	None	None	None	41885071	41885206	1	None	None
12	None	ENSG00000257243	ENST00000547655	processed_pseudogene	KNOWN	None	None	None	None	49988931	49989471	1	None	None
10	None	ENSG00000225761	ENST00000416076	sense_intronic	KNOWN	None	None	None	None	75764895	75787673	1	None	None
17	None	ENSG00000265614	ENST00000582638	processed_pseudogene	KNOWN	None	None	None	None	32658881	32659247	-1	None	None
1	OR2T27	ENSG00000187701	ENST00000344889	protein_coding	KNOWN	CCDS31124	31252	954	317	248813232	248814185	-1	None	None
21	None	ENSG00000221396	ENST00000408469	miRNA	NOVEL	None	None	None	None	41949429	41949538	1	None	None
HSCHR17_1	None	ENSG00000257806	ENST00000548508	protein_coding	NOVEL	None	None	63	20	44575673	44578193	1	None	None
1	None	ENSG00000228264	ENST00000436275	processed_pseudogene	KNOWN	None	None	None	None	154386845	154387613	-1	None	None
4	FAM149A	ENSG00000109794	ENST00000503432	protein_coding	KNOWN	CCDS34117	24527	1449	482	187025573	187093294	1	None	DKFZP564J102, MST119, MSTP119
4	FAM149A	ENSG00000109794	ENST00000508379	processed_transcript	PUTATIVE	None	24527	None	None	187026612	187070437	1	None	DKFZP564J102, MST119, MSTP119
4	FAM149A	ENSG00000109794	ENST00000515078	retained_intron	KNOWN	None	24527	None	None	187065215	187088484	1	None	DKFZP564J102, MST119, MSTP119
4	FAM149A	ENSG00000109794	ENST00000504330	protein_coding	NOVEL	None	24527	229	75	187065220	187075638	1	None	DKFZP564J102, MST119, MSTP119
4	FAM149A	ENSG00000109794	ENST00000510790	protein_coding	KNOWN	None	24527	183	60	187065407	187074895	1	None	DKFZP564J102, MST119, MSTP119
4	FAM149A	ENSG00000109794	ENST00000513212	processed_transcript	KNOWN	None	24527	None	None	187065441	187073088	1	None	DKFZP564J102, MST119, MSTP119
4	FAM149A	ENSG00000109794	ENST00000514829	processed_transcript	KNOWN	None	24527	None	None	187065637	187079564	1	None	DKFZP564J102, MST119, MSTP119
4	FAM149A	ENSG00000109794	ENST00000509574	protein_coding	NOVEL	None	24527	109	35	187065702	187074821	1	None	DKFZP564J102, MST119, MSTP119
4	FAM149A	ENSG00000109794	ENST00000513030	processed_transcript	KNOWN	None	24527	None	None	187065703	187079529	1	None	DKFZP564J102, MST119, MSTP119
4	FAM149A	ENSG00000109794	ENST00000227065	protein_coding	KNOWN	CCDS34117	24527	1449	482	187065995	187093821	1	None	DKFZP564J102, MST119, MSTP119
4	FAM149A	ENSG00000109794	ENST00000502970	protein_coding	NOVEL	CCDS34117	24527	1449	482	187066017	187093264	1	None	DKFZP564J102, MST119, MSTP119
4	FAM149A	ENSG00000109794	ENST00000514153	protein_coding	NOVEL	CCDS34117	24527	1449	482	187066081	187093296	1	None	DKFZP564J102, MST119, MSTP119
4	FAM149A	ENSG00000109794	ENST00000510843	protein_coding	PUTATIVE	None	24527	443	146	187084712	187088809	1	None	DKFZP564J102, MST119, MSTP119
4	FAM149A	ENSG00000109794	ENST00000512271	protein_coding	PUTATIVE	None	24527	478	158	187084713	187093296	1	None	DKFZP564J102, MST119, MSTP119
4	FAM149A	ENSG00000109794	ENST00000514956	retained_intron	KNOWN	None	24527	None	None	187086562	187088665	1	None	DKFZP564J102, MST119, MSTP119
4	FAM149A	ENSG00000109794	ENST00000502894	protein_coding	PUTATIVE	None	24527	161	52	187088360	187093814	1	None	DKFZP564J102, MST119, MSTP119
4	FAM149A	ENSG00000109794	ENST00000356371	protein_coding	KNOWN	None	24527	2322	773	187026231	187093816	1	None	DKFZP564J102, MST119, MSTP119
4	FAM149A	ENSG00000109794	ENST00000389354	protein_coding	KNOWN	CCDS34117	24527	1449	482	187070327	187093816	1	None	DKFZP564J102, MST119, MSTP119
17	None	ENSG00000225582	ENST00000447729	lincRNA	KNOWN	None	None	None	None	32806331	32806947	1	None	None
17	None	ENSG00000225582	ENST00000441287	lincRNA	KNOWN	None	None	None	None	32806353	32806976	1	None	None
1	None	ENSG00000232917	ENST00000479457	processed_pseudogene	KNOWN	None	None	None	None	203872851	203873141	-1	None	None
1	None	ENSG00000232917	ENST00000540496	processed_pseudogene	KNOWN	None	None	None	None	203872851	203873147	-1	None	None
21	DSCAM-IT1	ENSG00000233756	ENST00000441910	sense_intronic	KNOWN	None	41327	None	None	41987304	42002693	-1	None	None
21	DSCAM-IT1	ENSG00000233756	ENST00000440363	sense_intronic	KNOWN	None	41327	None	None	41990433	42002693	-1	None	None
14	IGHV1-69	ENSG00000211973	ENST00000390633	IG_V_gene	KNOWN	None	5558	351	116	107169931	107170428	-1	IGHV1-E	None
3	None	ENSG00000239311	ENST00000497896	lincRNA	KNOWN	None	None	None	None	111185160	111215942	-1	None	None
HSCHR6_MHC_MANN	NEU1	ENSG00000223957	ENST00000482297	retained_intron	KNOWN	None	7758	None	None	31865098	31870235	-1	NEU	None
HSCHR6_MHC_MANN	NEU1	ENSG00000223957	ENST00000466720	retained_intron	KNOWN	None	7758	None	None	31866491	31870244	-1	NEU	None
HSCHR6_MHC_MANN	NEU1	ENSG00000223957	ENST00000487340	nonsense_mediated_decay	KNOWN	None	7758	219	72	31866491	31870255	-1	NEU	None
HSCHR6_MHC_MANN	NEU1	ENSG00000223957	ENST00000465246	nonsense_mediated_decay	KNOWN	None	7758	804	267	31866491	31870261	-1	NEU	None
HSCHR6_MHC_MANN	NEU1	ENSG00000223957	ENST00000437432	protein_coding	KNOWN	None	7758	1248	415	31866491	31870345	-1	NEU	None
1	ATAD3B	ENSG00000160072	ENST00000308647	protein_coding	KNOWN	CCDS30	24007	1947	648	1407149	1431582	1	None	TOB3, KIAA1273
1	ATAD3B	ENSG00000160072	ENST00000472194	retained_intron	KNOWN	None	24007	None	None	1413406	1433228	1	None	TOB3, KIAA1273
1	ATAD3B	ENSG00000160072	ENST00000378736	processed_transcript	KNOWN	None	24007	None	None	1414429	1418525	1	None	TOB3, KIAA1273
1	ATAD3B	ENSG00000160072	ENST00000485748	retained_intron	KNOWN	None	24007	None	None	1418865	1431582	1	None	TOB3, KIAA1273
1	ATAD3B	ENSG00000160072	ENST00000474481	retained_intron	KNOWN	None	24007	None	None	1419949	1431581	1	None	TOB3, KIAA1273
1	ATAD3B	ENSG00000160072	ENST00000378741	protein_coding	KNOWN	None	24007	354	117	1407143	1418486	1	None	TOB3, KIAA1273
X	KIAA1210	ENSG00000250423	ENST00000402510	protein_coding	KNOWN	CCDS48156	29218	5130	1709	118212598	118284542	-1	None	None
2	None	ENSG00000225392	ENST00000429424	processed_pseudogene	KNOWN	None	None	None	None	70329683	70329994	1	None	None
16	None	ENSG00000265690	ENST00000580114	nonsense_mediated_decay	KNOWN	None	None	436	144	67197288	67199711	1	None	None
16	None	ENSG00000265690	ENST00000518753	processed_transcript	KNOWN	None	None	None	None	67197587	67199718	1	None	None
16	None	ENSG00000265690	ENST00000523360	protein_coding	KNOWN	None	None	8	1	67198044	67198722	1	None	None
11	None	ENSG00000239920	ENST00000394793	antisense	KNOWN	None	None	None	None	5593552	5646126	-1	None	None
2	None	ENSG00000231505	ENST00000431411	lincRNA	KNOWN	None	None	None	None	107138359	107154535	-1	None	None
12	HIGD1AP9	ENSG00000258104	ENST00000550710	processed_pseudogene	KNOWN	None	43004	None	None	50013117	50013395	1	None	None
6	None	ENSG00000220412	ENST00000404534	processed_pseudogene	KNOWN	None	None	None	None	138026560	138028338	-1	None	None
17	None	ENSG00000264174	ENST00000577556	lincRNA	KNOWN	None	None	None	None	33052528	33053189	-1	None	None
2	None	ENSG00000231327	ENST00000414141	lincRNA	KNOWN	None	None	None	None	70351168	70352449	-1	None	None
14	None	ENSG00000258081	ENST00000550024	lincRNA	KNOWN	None	None	None	None	27305934	27402978	1	None	None
14	None	ENSG00000258081	ENST00000552303	lincRNA	KNOWN	None	None	None	None	27312658	27629626	1	None	None
1	UBE2Q1-AS1	ENSG00000229780	ENST00000441613	antisense	KNOWN	None	40722	None	None	154526085	154527493	1	None	None
3	None	ENSG00000238075	ENST00000432681	processed_pseudogene	KNOWN	None	None	None	None	659472	659997	-1	None	None
1	None	ENSG00000223720	ENST00000431986	lincRNA	KNOWN	None	None	None	None	48671637	48672515	1	None	None
2	None	ENSG00000232001	ENST00000451464	lincRNA	KNOWN	None	None	None	None	107159470	107160753	1	None	None
11	RNU6-876P	ENSG00000212597	ENST00000391295	snRNA	KNOWN	None	47839	None	None	128863132	128863235	-1	None	None
10	SIRT1	ENSG00000096717	ENST00000212015	protein_coding	KNOWN	CCDS7273	14929	2244	747	69644427	69678147	1	None	SIR2L1
10	SIRT1	ENSG00000096717	ENST00000497639	processed_transcript	KNOWN	None	14929	None	None	69644939	69651254	1	None	SIR2L1
10	SIRT1	ENSG00000096717	ENST00000473922	processed_transcript	KNOWN	None	14929	None	None	69644942	69666636	1	None	SIR2L1
10	SIRT1	ENSG00000096717	ENST00000406900	protein_coding	NOVEL	None	14929	1335	444	69651242	69678147	1	None	SIR2L1
10	SIRT1	ENSG00000096717	ENST00000403579	protein_coding	NOVEL	None	14929	1335	444	69665807	69678143	1	None	SIR2L1
10	SIRT1	ENSG00000096717	ENST00000432464	protein_coding	KNOWN	CCDS44412	14929	1359	452	69644939	69678146	1	None	SIR2L1
11	None	ENSG00000256898	ENST00000543613	processed_pseudogene	KNOWN	None	None	None	None	73632710	73633241	-1	None	None
3	None	ENSG00000224239	ENST00000423193	lincRNA	KNOWN	None	None	None	None	898807	899774	1	None	None
1	None	ENSG00000233875	ENST00000421866	antisense	KNOWN	None	None	None	None	154551541	154552139	-1	None	None
1	CBX1P3	ENSG00000237379	ENST00000413296	processed_pseudogene	KNOWN	None	38657	None	None	203923768	203924908	1	None	None
17	None	ENSG00000264622	ENST00000579327	lincRNA	KNOWN	None	None	None	None	33164890	33186065	-1	None	None
3	None	ENSG00000244650	ENST00000477153	lincRNA	KNOWN	None	None	None	None	147878698	147944382	1	None	None
3	None	ENSG00000244650	ENST00000470219	lincRNA	KNOWN	None	None	None	None	147909506	147944393	1	None	None
15	OR4F4	ENSG00000177693	ENST00000326183	protein_coding	KNOWN	CCDS32343	8301	918	305	102462245	102463298	-1	None	OR4F18
2	MIR1285-2	ENSG00000221238	ENST00000408311	miRNA	KNOWN	None	35278	None	None	70480050	70480137	-1	MIRN1285-2	hsa-mir-1285-2
7	TMEM178B	ENSG00000261115	ENST00000565468	protein_coding	PUTATIVE	CCDS59086	44112	885	294	140774032	141180180	1	None	DKFZp547G036
7	TMEM178B	ENSG00000261115	ENST00000563442	retained_intron	KNOWN	None	44112	None	None	140774193	140912564	1	None	DKFZp547G036
21	LRRC3	ENSG00000160233	ENST00000291592	protein_coding	KNOWN	CCDS13711	14965	774	257	45875369	45878739	1	C21orf102	None
12	RNU6-485P	ENSG00000200345	ENST00000363475	snRNA	KNOWN	None	47448	None	None	7271381	7271487	1	None	None
X	None	ENSG00000238066	ENST00000438228	processed_pseudogene	KNOWN	None	None	None	None	116531901	116532169	1	None	None
21	YRDCP3	ENSG00000230859	ENST00000456507	processed_pseudogene	KNOWN	None	39921	None	None	42235920	42236399	1	None	None
1	None	ENSG00000270361	ENST00000604546	lincRNA	KNOWN	None	None	None	None	154909846	154910535	1	None	None
2	EEF1A1P12	ENSG00000214199	ENST00000443590	processed_pseudogene	KNOWN	None	3195	None	None	107313787	107315132	-1	EEF1AL10	None
3	ATP6V0CP2	ENSG00000244142	ENST00000469409	processed_pseudogene	KNOWN	None	40000	None	None	111197584	111197790	1	None	None
18	CDH20	ENSG00000101542	ENST00000262717	protein_coding	KNOWN	CCDS11977	1760	2406	801	59000815	59223006	1	None	CDH7L3, Cdh7
18	CDH20	ENSG00000101542	ENST00000538374	protein_coding	KNOWN	CCDS11977	1760	2406	801	59001506	59221928	1	None	CDH7L3, Cdh7
18	CDH20	ENSG00000101542	ENST00000587582	protein_coding	PUTATIVE	None	1760	260	85	59217099	59221591	1	None	CDH7L3, Cdh7
18	CDH20	ENSG00000101542	ENST00000536675	protein_coding	KNOWN	CCDS11977	1760	2406	801	59157775	59222365	1	None	CDH7L3, Cdh7
11	None	ENSG00000206847	ENST00000384120	misc_RNA	NOVEL	None	None	None	None	128900354	128900467	1	None	None
11	TM7SF2	ENSG00000149809	ENST00000526809	protein_coding	NOVEL	None	11863	658	218	64879317	64882986	1	None	ANG1, DHCR14A, NET47
11	TM7SF2	ENSG00000149809	ENST00000279263	protein_coding	KNOWN	CCDS41669	11863	1257	418	64879326	64883828	1	None	ANG1, DHCR14A, NET47
11	TM7SF2	ENSG00000149809	ENST00000524986	protein_coding	PUTATIVE	None	11863	670	222	64879339	64882418	1	None	ANG1, DHCR14A, NET47
11	TM7SF2	ENSG00000149809	ENST00000528026	retained_intron	KNOWN	None	11863	None	None	64879344	64882329	1	None	ANG1, DHCR14A, NET47
11	TM7SF2	ENSG00000149809	ENST00000533766	retained_intron	KNOWN	None	11863	None	None	64879344	64882862	1	None	ANG1, DHCR14A, NET47
11	TM7SF2	ENSG00000149809	ENST00000534371	protein_coding	NOVEL	None	11863	769	255	64879344	64882866	1	None	ANG1, DHCR14A, NET47
11	TM7SF2	ENSG00000149809	ENST00000533646	processed_transcript	KNOWN	None	11863	None	None	64879347	64880554	1	None	ANG1, DHCR14A, NET47
11	TM7SF2	ENSG00000149809	ENST00000529601	nonsense_mediated_decay	KNOWN	None	11863	270	89	64879350	64883856	1	None	ANG1, DHCR14A, NET47
11	TM7SF2	ENSG00000149809	ENST00000525385	protein_coding	PUTATIVE	None	11863	876	291	64879351	64882856	1	None	ANG1, DHCR14A, NET47
11	TM7SF2	ENSG00000149809	ENST00000345348	protein_coding	KNOWN	None	11863	1176	391	64879356	64883707	1	None	ANG1, DHCR14A, NET47
11	TM7SF2	ENSG00000149809	ENST00000531321	protein_coding	PUTATIVE	None	11863	814	270	64879358	64883070	1	None	ANG1, DHCR14A, NET47
11	TM7SF2	ENSG00000149809	ENST00000529292	nonsense_mediated_decay	KNOWN	None	11863	408	135	64879361	64883745	1	None	ANG1, DHCR14A, NET47
11	TM7SF2	ENSG00000149809	ENST00000529414	protein_coding	NOVEL	None	11863	623	206	64879362	64882237	1	None	ANG1, DHCR14A, NET47
11	TM7SF2	ENSG00000149809	ENST00000526085	protein_coding	NOVEL	None	11863	445	147	64879363	64882553	1	None	ANG1, DHCR14A, NET47
11	TM7SF2	ENSG00000149809	ENST00000530650	retained_intron	KNOWN	None	11863	None	None	64879374	64883702	1	None	ANG1, DHCR14A, NET47
11	TM7SF2	ENSG00000149809	ENST00000530750	protein_coding	NOVEL	None	11863	347	114	64879470	64881005	1	None	ANG1, DHCR14A, NET47
11	TM7SF2	ENSG00000149809	ENST00000524690	nonsense_mediated_decay	KNOWN	None	11863	280	92	64879520	64882507	1	None	ANG1, DHCR14A, NET47
11	TM7SF2	ENSG00000149809	ENST00000530892	retained_intron	KNOWN	None	11863	None	None	64879743	64880886	1	None	ANG1, DHCR14A, NET47
11	TM7SF2	ENSG00000149809	ENST00000531029	processed_transcript	KNOWN	None	11863	None	None	64880116	64882476	1	None	ANG1, DHCR14A, NET47
11	TM7SF2	ENSG00000149809	ENST00000529233	retained_intron	KNOWN	None	11863	None	None	64880177	64883022	1	None	ANG1, DHCR14A, NET47
11	TM7SF2	ENSG00000149809	ENST00000527851	retained_intron	KNOWN	None	11863	None	None	64880211	64882304	1	None	ANG1, DHCR14A, NET47
11	TM7SF2	ENSG00000149809	ENST00000534667	retained_intron	KNOWN	None	11863	None	None	64880686	64881254	1	None	ANG1, DHCR14A, NET47
11	TM7SF2	ENSG00000149809	ENST00000532328	retained_intron	KNOWN	None	11863	None	None	64880843	64882908	1	None	ANG1, DHCR14A, NET47
11	TM7SF2	ENSG00000149809	ENST00000527968	protein_coding	NOVEL	None	11863	544	180	64880968	64883439	1	None	ANG1, DHCR14A, NET47
11	TM7SF2	ENSG00000149809	ENST00000528802	protein_coding	PUTATIVE	None	11863	626	207	64880981	64883429	1	None	ANG1, DHCR14A, NET47
11	TM7SF2	ENSG00000149809	ENST00000526048	retained_intron	KNOWN	None	11863	None	None	64881022	64883681	1	None	ANG1, DHCR14A, NET47
11	TM7SF2	ENSG00000149809	ENST00000540748	protein_coding	KNOWN	None	11863	909	302	64879350	64883856	1	None	ANG1, DHCR14A, NET47
17	None	ENSG00000224113	ENST00000578488	sense_overlapping	KNOWN	None	None	None	None	33332107	33336762	1	None	None
17	None	ENSG00000224113	ENST00000415412	sense_overlapping	KNOWN	None	None	None	None	33332275	33333756	1	None	None
1	None	ENSG00000272491	ENST00000606809	antisense	KNOWN	None	None	None	None	48693560	48695233	-1	None	None
2	SULT1C4	ENSG00000198075	ENST00000494122	retained_intron	KNOWN	None	11457	None	None	108994367	108999378	1	SULT1C2	SULT1C
2	SULT1C4	ENSG00000198075	ENST00000272452	protein_coding	KNOWN	CCDS2077	11457	909	302	108994468	109004513	1	SULT1C2	SULT1C
2	SULT1C4	ENSG00000198075	ENST00000409309	protein_coding	KNOWN	None	11457	684	227	108994641	109004096	1	SULT1C2	SULT1C
2	None	ENSG00000231414	ENST00000446011	processed_pseudogene	KNOWN	None	None	None	None	70480987	70481142	-1	None	None
19	ADAMTSL5	ENSG00000185761	ENST00000330475	protein_coding	KNOWN	CCDS12071	27912	1416	471	1505023	1513188	-1	THSD6	None
19	ADAMTSL5	ENSG00000185761	ENST00000591077	nonsense_mediated_decay	KNOWN	None	27912	407	134	1505040	1506770	-1	THSD6	None
19	ADAMTSL5	ENSG00000185761	ENST00000585700	processed_transcript	KNOWN	None	27912	None	None	1505866	1511135	-1	THSD6	None
19	ADAMTSL5	ENSG00000185761	ENST00000590440	processed_transcript	KNOWN	None	27912	None	None	1505866	1511135	-1	THSD6	None
19	ADAMTSL5	ENSG00000185761	ENST00000590562	processed_transcript	KNOWN	None	27912	None	None	1505930	1513018	-1	THSD6	None
19	ADAMTSL5	ENSG00000185761	ENST00000590682	retained_intron	KNOWN	None	27912	None	None	1506634	1507421	-1	THSD6	None
19	ADAMTSL5	ENSG00000185761	ENST00000590090	protein_coding	PUTATIVE	None	27912	406	134	1506738	1507595	-1	THSD6	None
19	ADAMTSL5	ENSG00000185761	ENST00000587828	nonsense_mediated_decay	KNOWN	None	27912	125	40	1507291	1510221	-1	THSD6	None
19	ADAMTSL5	ENSG00000185761	ENST00000586272	processed_transcript	KNOWN	None	27912	None	None	1507997	1513018	-1	THSD6	None
19	ADAMTSL5	ENSG00000185761	ENST00000589839	retained_intron	KNOWN	None	27912	None	None	1510149	1513556	-1	THSD6	None
19	ADAMTSL5	ENSG00000185761	ENST00000585804	processed_transcript	KNOWN	None	27912	None	None	1510149	1513603	-1	THSD6	None
19	ADAMTSL5	ENSG00000185761	ENST00000413997	protein_coding	KNOWN	None	27912	1446	481	1505017	1511679	-1	THSD6	None
19	ADAMTSL5	ENSG00000185761	ENST00000395467	protein_coding	KNOWN	None	27912	396	131	1505866	1510951	-1	THSD6	None
12	None	ENSG00000256967	ENST00000544657	antisense	KNOWN	None	None	None	None	7281675	7282848	-1	None	None
12	None	ENSG00000256967	ENST00000538062	antisense	KNOWN	None	None	None	None	7282104	7283794	-1	None	None
11	OR52U1P	ENSG00000232381	ENST00000439752	unprocessed_pseudogene	KNOWN	None	15237	None	None	5740520	5741442	1	None	None
15	None	ENSG00000242088	ENST00000469695	processed_pseudogene	KNOWN	None	None	None	None	25156021	25156272	-1	None	None
3	HNRNPA1P20	ENSG00000205412	ENST00000484852	processed_pseudogene	KNOWN	None	39538	None	None	147884131	147885085	-1	None	None
21	LINC00323	ENSG00000226496	ENST00000441268	antisense	KNOWN	None	19720	None	None	42513427	42520060	-1	C21orf130, NCRNA00323	PRED42, FLJ37173
21	LINC00323	ENSG00000226496	ENST00000435493	antisense	KNOWN	None	19720	None	None	42515069	42519350	-1	C21orf130, NCRNA00323	PRED42, FLJ37173
21	LINC00323	ENSG00000226496	ENST00000446910	antisense	KNOWN	None	19720	None	None	42515107	42519360	-1	C21orf130, NCRNA00323	PRED42, FLJ37173
1	None	ENSG00000211554	ENST00000390128	miRNA	NOVEL	None	None	None	None	203968373	203968471	-1	None	None
1	None	ENSG00000271380	ENST00000605085	antisense	KNOWN	None	None	None	None	154934301	154935099	1	None	None
6	None	ENSG00000216097	ENST00000401278	miRNA	NOVEL	None	None	None	None	138038085	138038179	1	None	None
2	None	ENSG00000233849	ENST00000445084	antisense	KNOWN	None	None	None	None	70528583	70529204	1	None	None
2	None	ENSG00000237930	ENST00000433233	processed_pseudogene	KNOWN	None	None	None	None	217650497	217650867	-1	None	None
5	NPR3	ENSG00000113389	ENST00000509104	protein_coding	PUTATIVE	None	7945	757	251	32689176	32783134	1	NPRC, ANPRC, C5orf23	GUCY2B, FLJ14054
5	NPR3	ENSG00000113389	ENST00000434067	protein_coding	PUTATIVE	None	7945	978	325	32709513	32786932	1	NPRC, ANPRC, C5orf23	GUCY2B, FLJ14054
5	NPR3	ENSG00000113389	ENST00000506712	retained_intron	KNOWN	None	7945	None	None	32710760	32783713	1	NPRC, ANPRC, C5orf23	GUCY2B, FLJ14054
5	NPR3	ENSG00000113389	ENST00000265074	protein_coding	KNOWN	CCDS56357	7945	1626	541	32711540	32791819	1	NPRC, ANPRC, C5orf23	GUCY2B, FLJ14054
5	NPR3	ENSG00000113389	ENST00000415167	protein_coding	KNOWN	CCDS47196	7945	1623	540	32711829	32786527	1	NPRC, ANPRC, C5orf23	GUCY2B, FLJ14054
5	NPR3	ENSG00000113389	ENST00000507141	protein_coding	PUTATIVE	None	7945	265	87	32712437	32716934	1	NPRC, ANPRC, C5orf23	GUCY2B, FLJ14054
5	NPR3	ENSG00000113389	ENST00000415685	protein_coding	KNOWN	CCDS56356	7945	975	324	32710760	32786941	1	NPRC, ANPRC, C5orf23	GUCY2B, FLJ14054
1	DNAJB4	ENSG00000162616	ENST00000487931	processed_transcript	KNOWN	None	14886	None	None	78444859	78481958	1	None	HLJ1
1	DNAJB4	ENSG00000162616	ENST00000477671	processed_transcript	KNOWN	None	14886	None	None	78444916	78479198	1	None	HLJ1
1	DNAJB4	ENSG00000162616	ENST00000484662	processed_transcript	KNOWN	None	14886	None	None	78444965	78479301	1	None	HLJ1
1	DNAJB4	ENSG00000162616	ENST00000426517	protein_coding	KNOWN	None	14886	516	171	78445868	78479039	1	None	HLJ1
1	DNAJB4	ENSG00000162616	ENST00000370763	protein_coding	KNOWN	CCDS684	14886	1014	337	78470538	78483648	1	None	HLJ1
1	DNAJB4	ENSG00000162616	ENST00000476396	processed_transcript	KNOWN	None	14886	None	None	78470619	78481983	1	None	HLJ1
11	RNU6-874P	ENSG00000199260	ENST00000362390	snRNA	KNOWN	None	47837	None	None	129072861	129072965	1	None	None
10	None	ENSG00000267957	ENST00000598318	lincRNA	KNOWN	None	None	None	None	75880013	75880621	-1	None	None
12	FZD10-AS1	ENSG00000250208	ENST00000505807	lincRNA	KNOWN	None	48632	None	None	130634894	130646768	-1	None	FLJ31485
12	FZD10-AS1	ENSG00000250208	ENST00000509760	lincRNA	KNOWN	None	48632	None	None	130636138	130646223	-1	None	FLJ31485
12	FZD10-AS1	ENSG00000250208	ENST00000542000	retained_intron	KNOWN	None	48632	None	None	130639817	130646689	-1	None	FLJ31485
12	FZD10-AS1	ENSG00000250208	ENST00000537095	lincRNA	KNOWN	None	48632	None	None	130640279	130646801	-1	None	FLJ31485
1	PPP1R8P1	ENSG00000224986	ENST00000452549	processed_pseudogene	KNOWN	None	9297	None	None	48790752	48791795	-1	PPP1R8P	None
17	None	ENSG00000238858	ENST00000459539	snoRNA	NOVEL	None	None	None	None	33381407	33381513	-1	None	None
HG79_PATCH	SURF1	ENSG00000260692	ENST00000564539	protein_coding	KNOWN	None	11474	903	300	136227290	136232020	-1	None	None
HG79_PATCH	SURF1	ENSG00000260692	ENST00000563768	processed_transcript	KNOWN	None	11474	None	None	136227410	136229788	-1	None	None
HG79_PATCH	SURF1	ENSG00000260692	ENST00000563547	protein_coding	KNOWN	None	11474	813	270	136227448	136231855	-1	None	None
HG79_PATCH	SURF1	ENSG00000260692	ENST00000570027	processed_transcript	KNOWN	None	11474	None	None	136231640	136232211	-1	None	None
X	None	ENSG00000224314	ENST00000447458	processed_pseudogene	KNOWN	None	None	None	None	116533415	116534044	1	None	None
3	MIR26A1	ENSG00000199075	ENST00000362205	miRNA	KNOWN	None	31610	None	None	38010895	38010971	1	MIRN26A1	hsa-mir-26a-1
6	None	ENSG00000234956	ENST00000411615	lincRNA	KNOWN	None	None	None	None	138051307	138060120	-1	None	None
6	None	ENSG00000234956	ENST00000419220	lincRNA	KNOWN	None	None	None	None	138051307	138060120	-1	None	None
2	BRD7P6	ENSG00000235289	ENST00000431406	processed_pseudogene	KNOWN	None	37632	None	None	70580142	70583047	1	None	None
14	IGHV2-70	ENSG00000211974	ENST00000390634	IG_V_gene	KNOWN	None	5577	357	118	107178820	107179338	-1	None	None
19	ZNF20	ENSG00000132010	ENST00000600335	protein_coding	PUTATIVE	None	12992	396	131	12203658	12251156	-1	None	KOX13
19	ZNF20	ENSG00000132010	ENST00000480770	processed_transcript	KNOWN	None	12992	None	None	12241300	12247689	-1	None	KOX13
19	ZNF20	ENSG00000132010	ENST00000334213	protein_coding	KNOWN	CCDS45986	12992	1599	532	12242165	12251222	-1	None	KOX13
19	ZNF20	ENSG00000132010	ENST00000418866	protein_coding	NOVEL	None	12992	509	168	12244483	12251130	-1	None	KOX13
19	ZNF20	ENSG00000132010	ENST00000454949	nonsense_mediated_decay	KNOWN	None	12992	123	40	12244493	12251141	-1	None	KOX13
19	ZNF20	ENSG00000132010	ENST00000485451	processed_transcript	KNOWN	None	12992	None	None	12244506	12248517	-1	None	KOX13
19	ZNF20	ENSG00000132010	ENST00000478942	retained_intron	KNOWN	None	12992	None	None	12246301	12251170	-1	None	KOX13
19	ZNF20	ENSG00000132010	ENST00000480477	processed_transcript	KNOWN	None	12992	None	None	12247721	12251170	-1	None	KOX13
11	None	ENSG00000256360	ENST00000535936	lincRNA	KNOWN	None	None	None	None	73639578	73641417	1	None	None
17	None	ENSG00000267457	ENST00000590309	lincRNA	KNOWN	None	None	None	None	33400850	33401393	-1	None	None
10	None	ENSG00000269772	ENST00000599110	lincRNA	KNOWN	None	None	None	None	75880800	75881121	1	None	None
1	MIR4258	ENSG00000264349	ENST00000580920	miRNA	KNOWN	None	38281	None	None	154948169	154948259	1	None	hsa-mir-4258
2	ST6GAL2-IT1	ENSG00000238250	ENST00000446058	sense_intronic	KNOWN	None	41380	None	None	107439379	107441487	-1	None	None
1	OR14I1	ENSG00000189181	ENST00000342623	protein_coding	KNOWN	CCDS31125	19575	936	311	248844628	248845629	-1	OR5BU1P, OR5BU1	None
11	None	ENSG00000255032	ENST00000530039	lincRNA	KNOWN	None	None	None	None	44740942	44758242	-1	None	None
1	RNU6-723P	ENSG00000206700	ENST00000383973	snRNA	KNOWN	None	47686	None	None	48809881	48809987	1	None	None
1	LINC00303	ENSG00000176754	ENST00000367207	lincRNA	KNOWN	None	26865	None	None	204001575	204010393	-1	C1orf157, NCRNA00303	FLJ40343
1	LINC00303	ENSG00000176754	ENST00000418245	lincRNA	KNOWN	None	26865	None	None	204002062	204010392	-1	C1orf157, NCRNA00303	FLJ40343
1	LINC00303	ENSG00000176754	ENST00000427799	lincRNA	KNOWN	None	26865	None	None	204002062	204010393	-1	C1orf157, NCRNA00303	FLJ40343
12	None	ENSG00000257570	ENST00000549485	processed_pseudogene	KNOWN	None	None	None	None	50103020	50103119	1	None	None
1	None	ENSG00000232857	ENST00000433311	processed_pseudogene	KNOWN	None	None	None	None	95116100	95116934	-1	None	None
16	ZNF276	ENSG00000158805	ENST00000562530	nonsense_mediated_decay	KNOWN	None	23330	843	280	89786808	89804689	1	ZFP276	MGC45417, ZNF477, CENPZ, CENP-Z
16	ZNF276	ENSG00000158805	ENST00000289816	protein_coding	KNOWN	CCDS10986	23330	1620	539	89787393	89807311	1	ZFP276	MGC45417, ZNF477, CENPZ, CENP-Z
16	ZNF276	ENSG00000158805	ENST00000568064	protein_coding	PUTATIVE	None	23330	1302	433	89787415	89804928	1	ZFP276	MGC45417, ZNF477, CENPZ, CENP-Z
16	ZNF276	ENSG00000158805	ENST00000563983	retained_intron	KNOWN	None	23330	None	None	89787568	89806224	1	ZFP276	MGC45417, ZNF477, CENPZ, CENP-Z
16	ZNF276	ENSG00000158805	ENST00000443381	protein_coding	KNOWN	CCDS45554	23330	1845	614	89787952	89804979	1	ZFP276	MGC45417, ZNF477, CENPZ, CENP-Z
16	ZNF276	ENSG00000158805	ENST00000568295	nonsense_mediated_decay	KNOWN	None	23330	1068	355	89787981	89804979	1	ZFP276	MGC45417, ZNF477, CENPZ, CENP-Z
16	ZNF276	ENSG00000158805	ENST00000561536	retained_intron	KNOWN	None	23330	None	None	89789277	89804997	1	ZFP276	MGC45417, ZNF477, CENPZ, CENP-Z
16	ZNF276	ENSG00000158805	ENST00000563541	nonsense_mediated_decay	KNOWN	None	23330	283	93	89789897	89799945	1	ZFP276	MGC45417, ZNF477, CENPZ, CENP-Z
16	ZNF276	ENSG00000158805	ENST00000569426	retained_intron	KNOWN	None	23330	None	None	89790014	89799878	1	ZFP276	MGC45417, ZNF477, CENPZ, CENP-Z
16	ZNF276	ENSG00000158805	ENST00000564004	retained_intron	KNOWN	None	23330	None	None	89797934	89804978	1	ZFP276	MGC45417, ZNF477, CENPZ, CENP-Z
16	ZNF276	ENSG00000158805	ENST00000569582	retained_intron	KNOWN	None	23330	None	None	89799657	89804291	1	ZFP276	MGC45417, ZNF477, CENPZ, CENP-Z
16	ZNF276	ENSG00000158805	ENST00000569901	retained_intron	KNOWN	None	23330	None	None	89804120	89804737	1	ZFP276	MGC45417, ZNF477, CENPZ, CENP-Z
16	ZNF276	ENSG00000158805	ENST00000446326	protein_coding	KNOWN	None	23330	1203	400	89786808	89804689	1	ZFP276	MGC45417, ZNF477, CENPZ, CENP-Z
21	LRRC3DN	ENSG00000269430	ENST00000596691	protein_coding	KNOWN	None	1270	735	244	45879814	45882078	1	C21orf30	DKFZP434C128
10	TIMM9P1	ENSG00000236900	ENST00000436122	processed_pseudogene	KNOWN	None	39928	None	None	76104308	76104563	-1	None	None
3	None	ENSG00000243347	ENST00000460324	lincRNA	KNOWN	None	None	None	None	147913516	147997885	-1	None	None
1	None	ENSG00000235105	ENST00000412769	processed_pseudogene	KNOWN	None	None	None	None	48901639	48902895	1	None	None
11	ZNF123P	ENSG00000255259	ENST00000531501	processed_pseudogene	KNOWN	None	12906	None	None	129165181	129166376	-1	ZNF123	HZF-1
1	None	ENSG00000232093	ENST00000452962	antisense	KNOWN	None	None	None	None	155017667	155018594	-1	None	None
17	None	ENSG00000243423	ENST00000479840	processed_pseudogene	KNOWN	None	None	None	None	33403756	33404026	1	None	None
21	MIR3197	ENSG00000263681	ENST00000582241	miRNA	KNOWN	None	38366	None	None	42539484	42539556	1	None	hsa-mir-3197
3	None	ENSG00000200579	ENST00000363709	misc_RNA	NOVEL	None	None	None	None	38056059	38056160	1	None	None
2	None	ENSG00000229229	ENST00000452525	antisense	KNOWN	None	None	None	None	70630066	70649810	1	None	None
2	None	ENSG00000227294	ENST00000425419	antisense	KNOWN	None	None	None	None	107450920	107457663	1	None	None
3	None	ENSG00000242440	ENST00000469812	lincRNA	KNOWN	None	None	None	None	147998678	148029947	1	None	None
3	None	ENSG00000242440	ENST00000481334	lincRNA	KNOWN	None	None	None	None	148029934	148117743	1	None	None
19	None	ENSG00000269545	ENST00000600029	nonsense_mediated_decay	KNOWN	None	None	150	49	58740831	58798173	1	None	None
14	CGRRF1	ENSG00000100532	ENST00000554791	nonsense_mediated_decay	KNOWN	None	15528	276	91	54976530	55004999	1	None	CGR19, RNF197
14	CGRRF1	ENSG00000100532	ENST00000216420	protein_coding	KNOWN	CCDS9719	15528	999	332	54976546	55005567	1	None	CGR19, RNF197
14	CGRRF1	ENSG00000100532	ENST00000556216	retained_intron	KNOWN	None	15528	None	None	54976620	55005334	1	None	CGR19, RNF197
14	CGRRF1	ENSG00000100532	ENST00000557317	protein_coding	PUTATIVE	None	15528	614	203	54976624	54997716	1	None	CGR19, RNF197
14	CGRRF1	ENSG00000100532	ENST00000557755	nonsense_mediated_decay	KNOWN	None	15528	135	44	54976630	55004816	1	None	CGR19, RNF197
14	CGRRF1	ENSG00000100532	ENST00000557512	processed_transcript	KNOWN	None	15528	None	None	54976844	55004965	1	None	CGR19, RNF197
14	CGRRF1	ENSG00000100532	ENST00000557184	processed_transcript	KNOWN	None	15528	None	None	54976903	54997835	1	None	CGR19, RNF197
14	CGRRF1	ENSG00000100532	ENST00000557429	retained_intron	KNOWN	None	15528	None	None	55002791	55005332	1	None	CGR19, RNF197
14	CGRRF1	ENSG00000100532	ENST00000556172	protein_coding	PUTATIVE	None	15528	222	73	55004440	55005332	1	None	CGR19, RNF197
10	None	ENSG00000214629	ENST00000417882	processed_pseudogene	KNOWN	None	None	None	None	76131293	76132174	1	None	None
3	None	ENSG00000240787	ENST00000462510	processed_pseudogene	KNOWN	None	None	None	None	111289485	111289901	-1	None	None
X	RPS29P28	ENSG00000232069	ENST00000446439	processed_pseudogene	KNOWN	None	36830	None	None	95450476	95450616	1	None	None
1	PGBD4P7	ENSG00000244433	ENST00000424505	transcribed_processed_pseudogene	KNOWN	None	44074	None	None	95138474	95139717	-1	None	None
1	RNU4-61P	ENSG00000223175	ENST00000411243	snRNA	KNOWN	None	46997	None	None	48913608	48913714	1	None	None
21	None	ENSG00000225745	ENST00000430327	processed_transcript	KNOWN	None	None	None	None	42548249	42558700	-1	None	None
21	None	ENSG00000225745	ENST00000440221	processed_transcript	KNOWN	None	None	None	None	42548373	42558715	-1	None	None
21	None	ENSG00000225745	ENST00000414699	processed_transcript	KNOWN	None	None	None	None	42552459	42558247	-1	None	None
21	None	ENSG00000225745	ENST00000536486	processed_transcript	KNOWN	None	None	None	None	42551350	42558269	-1	None	None
3	PPP2R2DP1	ENSG00000231668	ENST00000420526	processed_pseudogene	KNOWN	None	44544	None	None	38093250	38093886	1	None	None
2	None	ENSG00000215996	ENST00000401177	miRNA	NOVEL	None	None	None	None	70682662	70682756	-1	None	None
2	PPP1R2P5	ENSG00000229360	ENST00000457256	processed_pseudogene	KNOWN	None	16320	None	None	107557336	107557938	-1	None	None
2	RNA5SP120	ENSG00000222832	ENST00000410900	rRNA	KNOWN	None	42918	None	None	217658212	217658323	-1	RN5S120	None
2	TGFA-IT1	ENSG00000224606	ENST00000441238	sense_intronic	KNOWN	None	41389	None	None	70694517	70695627	-1	None	None
19	DNAAF3	ENSG00000167646	ENST00000533527	retained_intron	KNOWN	None	30492	None	None	55670031	55673435	-1	C19orf51, CILD2	FLJ40069, FLJ36139, PF22, PCD
19	DNAAF3	ENSG00000167646	ENST00000524407	protein_coding	KNOWN	CCDS59422	30492	1626	541	55670031	55677920	-1	C19orf51, CILD2	FLJ40069, FLJ36139, PF22, PCD
19	DNAAF3	ENSG00000167646	ENST00000528412	nonsense_mediated_decay	KNOWN	None	30492	288	95	55670031	55677989	-1	C19orf51, CILD2	FLJ40069, FLJ36139, PF22, PCD
19	DNAAF3	ENSG00000167646	ENST00000527223	protein_coding	KNOWN	CCDS58680	30492	1827	608	55670031	55678018	-1	C19orf51, CILD2	FLJ40069, FLJ36139, PF22, PCD
19	DNAAF3	ENSG00000167646	ENST00000391720	protein_coding	KNOWN	CCDS12918	30492	1767	588	55670031	55678019	-1	C19orf51, CILD2	FLJ40069, FLJ36139, PF22, PCD
19	DNAAF3	ENSG00000167646	ENST00000587789	processed_transcript	KNOWN	None	30492	None	None	55670121	55672027	-1	C19orf51, CILD2	FLJ40069, FLJ36139, PF22, PCD
19	DNAAF3	ENSG00000167646	ENST00000588076	protein_coding	NOVEL	None	30492	625	207	55670162	55672057	-1	C19orf51, CILD2	FLJ40069, FLJ36139, PF22, PCD
19	DNAAF3	ENSG00000167646	ENST00000527292	processed_transcript	KNOWN	None	30492	None	None	55672378	55674175	-1	C19orf51, CILD2	FLJ40069, FLJ36139, PF22, PCD
19	DNAAF3	ENSG00000167646	ENST00000526959	retained_intron	KNOWN	None	30492	None	None	55672495	55673717	-1	C19orf51, CILD2	FLJ40069, FLJ36139, PF22, PCD
19	DNAAF3	ENSG00000167646	ENST00000527166	processed_transcript	KNOWN	None	30492	None	None	55672702	55674186	-1	C19orf51, CILD2	FLJ40069, FLJ36139, PF22, PCD
19	DNAAF3	ENSG00000167646	ENST00000526003	protein_coding	KNOWN	None	30492	480	159	55673501	55677944	-1	C19orf51, CILD2	FLJ40069, FLJ36139, PF22, PCD
19	DNAAF3	ENSG00000167646	ENST00000534170	protein_coding	PUTATIVE	None	30492	337	111	55673590	55677944	-1	C19orf51, CILD2	FLJ40069, FLJ36139, PF22, PCD
19	DNAAF3	ENSG00000167646	ENST00000532817	protein_coding	PUTATIVE	None	30492	317	104	55673610	55678008	-1	C19orf51, CILD2	FLJ40069, FLJ36139, PF22, PCD
19	DNAAF3	ENSG00000167646	ENST00000534214	nonsense_mediated_decay	KNOWN	None	30492	288	95	55673630	55677944	-1	C19orf51, CILD2	FLJ40069, FLJ36139, PF22, PCD
19	DNAAF3	ENSG00000167646	ENST00000528476	processed_transcript	KNOWN	None	30492	None	None	55677185	55678090	-1	C19orf51, CILD2	FLJ40069, FLJ36139, PF22, PCD
19	DNAAF3	ENSG00000167646	ENST00000586877	retained_intron	KNOWN	None	30492	None	None	55677357	55678008	-1	C19orf51, CILD2	FLJ40069, FLJ36139, PF22, PCD
19	DNAAF3	ENSG00000167646	ENST00000455045	protein_coding	KNOWN	CCDS58679	30492	1464	487	55670031	55677215	-1	C19orf51, CILD2	FLJ40069, FLJ36139, PF22, PCD
1	None	ENSG00000232514	ENST00000416622	processed_pseudogene	KNOWN	None	None	None	None	48962935	48963408	-1	None	None
11	None	ENSG00000255847	ENST00000540886	antisense	KNOWN	None	None	None	None	73675108	73676077	-1	None	None
11	None	ENSG00000255847	ENST00000537019	antisense	KNOWN	None	None	None	None	73674702	73681332	-1	None	None
3	None	ENSG00000235158	ENST00000451707	lincRNA	KNOWN	None	None	None	None	1049819	1054618	1	None	None
2	None	ENSG00000229352	ENST00000434973	lincRNA	KNOWN	None	None	None	None	217664331	217670058	1	None	None
3	RPL38P1	ENSG00000241993	ENST00000460914	processed_pseudogene	KNOWN	None	17093	None	None	148413781	148413991	-1	None	None
2	None	ENSG00000226905	ENST00000437783	processed_pseudogene	KNOWN	None	None	None	None	107579649	107580130	1	None	None
1	MIR378G	ENSG00000263526	ENST00000579876	miRNA	KNOWN	None	41785	None	None	95211416	95211456	-1	None	hsa-mir-378g
HSCHR12_2_CTG2	None	ENSG00000272531	ENST00000570463	processed_pseudogene	NOVEL	None	None	None	None	11047542	11048481	-1	None	None
2	None	ENSG00000270348	ENST00000603062	lincRNA	KNOWN	None	None	None	None	70883916	70885457	-1	None	None
3	HMGB1P30	ENSG00000244089	ENST00000492455	processed_pseudogene	KNOWN	None	39121	None	None	148542569	148543174	-1	None	None
15	None	ENSG00000215567	ENST00000524329	unprocessed_pseudogene	KNOWN	None	None	None	None	20083808	20093067	1	None	None
15	None	ENSG00000215567	ENST00000400231	unprocessed_pseudogene	KNOWN	None	None	None	None	20083769	20089172	1	None	None
15	None	ENSG00000215567	ENST00000413399	unprocessed_pseudogene	KNOWN	None	None	None	None	20083802	20093074	1	None	None
15	None	ENSG00000215567	ENST00000400208	unprocessed_pseudogene	KNOWN	None	None	None	None	20083805	20087949	1	None	None
2	FABP5P14	ENSG00000234588	ENST00000437273	processed_pseudogene	KNOWN	None	31065	None	None	217670460	217670852	-1	FABP5L14	None
6	None	ENSG00000207300	ENST00000384570	misc_RNA	NOVEL	None	None	None	None	138105511	138105623	1	None	None
2	None	ENSG00000235035	ENST00000457851	antisense	KNOWN	None	None	None	None	70914274	70918956	1	None	None
1	None	ENSG00000237416	ENST00000422162	antisense	KNOWN	None	None	None	None	95302304	95320982	-1	None	None
1	None	ENSG00000237416	ENST00000532087	retained_intron	KNOWN	None	None	None	None	95308664	95320982	-1	None	None
3	RN7SL120P	ENSG00000244169	ENST00000463924	misc_RNA	KNOWN	None	46136	None	None	1107266	1107559	-1	None	None
2	None	ENSG00000229457	ENST00000443123	lincRNA	KNOWN	None	None	None	None	107871147	107982329	-1	None	None
2	None	ENSG00000229457	ENST00000455614	lincRNA	KNOWN	None	None	None	None	107882609	107981999	-1	None	None
5	TGFBI	ENSG00000120708	ENST00000442011	protein_coding	KNOWN	CCDS47266	11771	2052	683	135364584	135399506	1	CSD3, LCD1, CSD1, CSD2	BIGH3, CDB1, CDGG1
5	TGFBI	ENSG00000120708	ENST00000504205	nonsense_mediated_decay	KNOWN	None	11771	192	63	135364676	135399424	1	CSD3, LCD1, CSD1, CSD2	BIGH3, CDB1, CDGG1
5	TGFBI	ENSG00000120708	ENST00000504185	processed_transcript	KNOWN	None	11771	None	None	135364677	135382129	1	CSD3, LCD1, CSD1, CSD2	BIGH3, CDB1, CDGG1
5	TGFBI	ENSG00000120708	ENST00000506699	retained_intron	KNOWN	None	11771	None	None	135364680	135399505	1	CSD3, LCD1, CSD1, CSD2	BIGH3, CDB1, CDGG1
5	TGFBI	ENSG00000120708	ENST00000507018	nonsense_mediated_decay	KNOWN	None	11771	385	127	135364828	135399354	1	CSD3, LCD1, CSD1, CSD2	BIGH3, CDB1, CDGG1
5	TGFBI	ENSG00000120708	ENST00000515433	retained_intron	KNOWN	None	11771	None	None	135381434	135390878	1	CSD3, LCD1, CSD1, CSD2	BIGH3, CDB1, CDGG1
5	TGFBI	ENSG00000120708	ENST00000508767	protein_coding	NOVEL	None	11771	582	193	135383013	135390507	1	CSD3, LCD1, CSD1, CSD2	BIGH3, CDB1, CDGG1
5	TGFBI	ENSG00000120708	ENST00000509749	retained_intron	KNOWN	None	11771	None	None	135383042	135385496	1	CSD3, LCD1, CSD1, CSD2	BIGH3, CDB1, CDGG1
5	TGFBI	ENSG00000120708	ENST00000604555	protein_coding	PUTATIVE	None	11771	660	219	135383107	135391081	1	CSD3, LCD1, CSD1, CSD2	BIGH3, CDB1, CDGG1
5	TGFBI	ENSG00000120708	ENST00000514554	protein_coding	NOVEL	None	11771	1099	365	135385205	135399507	1	CSD3, LCD1, CSD1, CSD2	BIGH3, CDB1, CDGG1
5	TGFBI	ENSG00000120708	ENST00000509485	nonsense_mediated_decay	KNOWN	None	11771	179	58	135389632	135394834	1	CSD3, LCD1, CSD1, CSD2	BIGH3, CDB1, CDGG1
5	TGFBI	ENSG00000120708	ENST00000514242	retained_intron	KNOWN	None	11771	None	None	135391188	135394903	1	CSD3, LCD1, CSD1, CSD2	BIGH3, CDB1, CDGG1
5	TGFBI	ENSG00000120708	ENST00000513497	retained_intron	KNOWN	None	11771	None	None	135394456	135397225	1	CSD3, LCD1, CSD1, CSD2	BIGH3, CDB1, CDGG1
5	TGFBI	ENSG00000120708	ENST00000508076	protein_coding	PUTATIVE	None	11771	198	65	135394538	135399504	1	CSD3, LCD1, CSD1, CSD2	BIGH3, CDB1, CDGG1
5	TGFBI	ENSG00000120708	ENST00000503087	protein_coding	PUTATIVE	None	11771	236	77	135394875	135399061	1	CSD3, LCD1, CSD1, CSD2	BIGH3, CDB1, CDGG1
5	TGFBI	ENSG00000120708	ENST00000504411	retained_intron	KNOWN	None	11771	None	None	135396879	135399492	1	CSD3, LCD1, CSD1, CSD2	BIGH3, CDB1, CDGG1
5	TGFBI	ENSG00000120708	ENST00000305126	protein_coding	KNOWN	None	11771	2052	683	135364691	135399504	1	CSD3, LCD1, CSD1, CSD2	BIGH3, CDB1, CDGG1
17	GP1BA	ENSG00000185245	ENST00000329125	protein_coding	KNOWN	CCDS54068	4439	1959	652	4835592	4838325	1	GP1B	CD42b
1	CASQ1	ENSG00000143318	ENST00000368078	protein_coding	KNOWN	CCDS1198	1512	1191	396	160160346	160171676	1	CASQ	PDIB1
1	CASQ1	ENSG00000143318	ENST00000481081	retained_intron	KNOWN	None	1512	None	None	160162428	160168843	1	CASQ	PDIB1
1	CASQ1	ENSG00000143318	ENST00000467691	protein_coding	PUTATIVE	None	1512	354	117	160168000	160171283	1	CASQ	PDIB1
1	CASQ1	ENSG00000143318	ENST00000368079	protein_coding	KNOWN	None	1512	1173	390	160160285	160171674	1	CASQ	PDIB1
1	None	ENSG00000202027	ENST00000365157	misc_RNA	NOVEL	None	None	None	None	155092966	155093074	1	None	None
21	TSPEAR	ENSG00000175894	ENST00000323084	protein_coding	KNOWN	CCDS13712	1268	2010	669	45917775	46131495	-1	C21orf29, DFNB98	MGC11251, TSP-EAR
21	TSPEAR	ENSG00000175894	ENST00000397916	protein_coding	PUTATIVE	None	1268	1593	530	45928390	45993693	-1	C21orf29, DFNB98	MGC11251, TSP-EAR
2	None	ENSG00000231597	ENST00000440900	antisense	KNOWN	None	None	None	None	217719112	217719855	-1	None	None
12	FAHD2P1	ENSG00000257302	ENST00000546381	processed_pseudogene	KNOWN	None	32441	None	None	71065698	71066636	1	FAHD2P	None
17	RNU6-840P	ENSG00000253084	ENST00000517275	snRNA	KNOWN	None	47803	None	None	33420928	33420992	1	None	None
18	None	ENSG00000244527	ENST00000473808	processed_pseudogene	KNOWN	None	None	None	None	18699143	18699622	-1	None	None
21	BACE2-IT1	ENSG00000224388	ENST00000433378	antisense	KNOWN	None	16024	None	None	42552024	42552553	1	C21orf75, NCRNA00228	PRED43
2	HMGN2P21	ENSG00000228034	ENST00000447764	processed_pseudogene	KNOWN	None	39386	None	None	71030289	71030558	1	None	None
19	ZNF8	ENSG00000083842	ENST00000196548	protein_coding	KNOWN	CCDS12974	13154	1728	575	58790317	58807254	1	None	HF.18, Zfp128
1	RNU7-150P	ENSG00000251780	ENST00000515971	snRNA	KNOWN	None	45684	None	None	155115747	155115808	1	None	None
6	None	ENSG00000237499	ENST00000440578	antisense	KNOWN	None	None	None	None	138144810	138147031	-1	None	None
6	None	ENSG00000237499	ENST00000606998	antisense	KNOWN	None	None	None	None	138144812	138189370	-1	None	None
6	None	ENSG00000237499	ENST00000606327	antisense	KNOWN	None	None	None	None	138175999	138179185	-1	None	None
6	None	ENSG00000237499	ENST00000448942	antisense	KNOWN	None	None	None	None	138178423	138188841	-1	None	None
6	None	ENSG00000237499	ENST00000607671	antisense	KNOWN	None	None	None	None	138178730	138188841	-1	None	None
6	None	ENSG00000237499	ENST00000431144	antisense	KNOWN	None	None	None	None	138178837	138182628	-1	None	None
17	None	ENSG00000252328	ENST00000516519	misc_RNA	NOVEL	None	None	None	None	33424579	33424676	-1	None	None
12	LSM6P2	ENSG00000257730	ENST00000552208	processed_pseudogene	KNOWN	None	37811	None	None	50164743	50164919	1	None	None
1	None	ENSG00000229846	ENST00000456002	antisense	KNOWN	None	None	None	None	49513988	49653257	1	None	None
21	None	ENSG00000228318	ENST00000411427	antisense	KNOWN	None	None	None	None	42813321	42814669	-1	None	None
3	None	ENSG00000201229	ENST00000364359	snoRNA	NOVEL	None	None	None	None	183169645	183169776	1	None	None
18	RNU6-120P	ENSG00000251886	ENST00000516077	snRNA	KNOWN	None	47083	None	None	18700365	18700467	-1	None	None
17	None	ENSG00000267782	ENST00000585646	antisense	KNOWN	None	None	None	None	33491262	33494031	-1	None	None
14	None	ENSG00000247970	ENST00000502101	lincRNA	KNOWN	None	None	None	None	100070893	100092077	1	None	None
1	HMGN2P18	ENSG00000223452	ENST00000450680	processed_pseudogene	KNOWN	None	39382	None	None	155121020	155121289	1	None	None
1	HMGN2P18	ENSG00000223452	ENST00000406836	processed_pseudogene	KNOWN	None	39382	None	None	155121020	155121295	1	None	None
2	NBAS	ENSG00000151779	ENST00000281513	protein_coding	KNOWN	CCDS1685	15625	7116	2371	15307033	15701454	-1	None	NAG
2	NBAS	ENSG00000151779	ENST00000417461	protein_coding	NOVEL	None	15625	516	171	15307038	15378810	-1	None	NAG
2	NBAS	ENSG00000151779	ENST00000433283	protein_coding	NOVEL	None	15625	555	184	15307040	15330527	-1	None	NAG
2	NBAS	ENSG00000151779	ENST00000442506	protein_coding	NOVEL	None	15625	4259	1418	15307040	15564518	-1	None	NAG
2	NBAS	ENSG00000151779	ENST00000485694	retained_intron	KNOWN	None	15625	None	None	15307041	15320502	-1	None	NAG
2	NBAS	ENSG00000151779	ENST00000423602	protein_coding	PUTATIVE	None	15625	414	137	15318073	15330521	-1	None	NAG
2	NBAS	ENSG00000151779	ENST00000441755	protein_coding	NOVEL	None	15625	844	280	15514732	15564516	-1	None	NAG
2	NBAS	ENSG00000151779	ENST00000429842	protein_coding	NOVEL	None	15625	613	203	15533763	15557705	-1	None	NAG
2	NBAS	ENSG00000151779	ENST00000427792	nonsense_mediated_decay	KNOWN	None	15625	302	99	15618369	15651427	-1	None	NAG
2	NBAS	ENSG00000151779	ENST00000441750	protein_coding	KNOWN	None	15625	6756	2251	15307032	15701454	-1	None	NAG
1	None	ENSG00000266949	ENST00000590317	protein_coding	KNOWN	None	None	239	78	248902716	248903150	-1	None	None
18	EXOGP1	ENSG00000263748	ENST00000580616	processed_pseudogene	KNOWN	None	44547	None	None	18762464	18763460	-1	None	None
1	None	ENSG00000235501	ENST00000452846	antisense	KNOWN	None	None	None	None	95393122	95428826	1	None	None
1	None	ENSG00000235501	ENST00000438509	antisense	KNOWN	None	None	None	None	95393584	95428826	1	None	None
1	None	ENSG00000235501	ENST00000456582	antisense	KNOWN	None	None	None	None	95426881	95428826	1	None	None
2	None	ENSG00000237479	ENST00000421907	antisense	KNOWN	None	None	None	None	217731055	217732536	-1	None	None
2	C2orf70	ENSG00000173557	ENST00000329615	protein_coding	KNOWN	CCDS42661	27938	606	201	26785450	26802400	1	None	LOC339778
2	C2orf70	ENSG00000173557	ENST00000409392	protein_coding	NOVEL	None	27938	555	184	26785453	26802400	1	None	LOC339778
2	C2orf70	ENSG00000173557	ENST00000479453	retained_intron	KNOWN	None	27938	None	None	26785903	26802397	1	None	LOC339778
2	C2orf70	ENSG00000173557	ENST00000453368	protein_coding	PUTATIVE	None	27938	385	127	26798994	26802392	1	None	LOC339778
2	None	ENSG00000225588	ENST00000422203	lincRNA	KNOWN	None	None	None	None	107978738	108022716	1	None	None
2	None	ENSG00000225588	ENST00000413708	lincRNA	KNOWN	None	None	None	None	107978775	108023785	1	None	None
2	None	ENSG00000225588	ENST00000443833	lincRNA	KNOWN	None	None	None	None	107997648	108017142	1	None	None
17	None	ENSG00000266981	ENST00000590144	processed_transcript	PUTATIVE	None	None	None	None	33515541	33518362	1	None	None
1	None	ENSG00000239144	ENST00000458796	snoRNA	NOVEL	None	None	None	None	49617064	49617175	1	None	None
15	PIGHP1	ENSG00000259657	ENST00000558833	processed_pseudogene	KNOWN	None	45152	None	None	59968956	59969520	1	None	None
2	None	ENSG00000231386	ENST00000451333	processed_pseudogene	KNOWN	None	None	None	None	71037930	71038606	-1	None	None
3	None	ENSG00000240521	ENST00000488190	antisense	KNOWN	None	None	None	None	148568720	148677899	-1	None	None
17	None	ENSG00000267744	ENST00000592961	transcribed_processed_pseudogene	KNOWN	None	None	None	None	33517980	33518721	1	None	None
3	None	ENSG00000253092	ENST00000517283	snoRNA	NOVEL	None	None	None	None	183170355	183170552	1	None	None
1	None	ENSG00000230114	ENST00000420071	antisense	KNOWN	None	None	None	None	49723083	49734957	1	None	None
10	RAB5CP1	ENSG00000213731	ENST00000395972	processed_pseudogene	KNOWN	None	45104	None	None	76183193	76183772	-1	None	None
3	None	ENSG00000244720	ENST00000489836	processed_pseudogene	KNOWN	None	None	None	None	111352519	111353936	1	None	None
6	EYA4	ENSG00000112319	ENST00000452339	protein_coding	NOVEL	None	3522	1758	585	133561736	133850040	1	DFNA10, CMD1J	None
6	EYA4	ENSG00000112319	ENST00000430974	protein_coding	PUTATIVE	None	3522	1713	570	133562489	133852551	1	DFNA10, CMD1J	None
6	EYA4	ENSG00000112319	ENST00000367895	protein_coding	KNOWN	CCDS5165	3522	1920	639	133562489	133853258	1	DFNA10, CMD1J	None
6	EYA4	ENSG00000112319	ENST00000441015	processed_transcript	KNOWN	None	3522	None	None	133562511	133569991	1	DFNA10, CMD1J	None
6	EYA4	ENSG00000112319	ENST00000355286	protein_coding	KNOWN	CCDS43506	3522	1851	616	133562556	133852012	1	DFNA10, CMD1J	None
6	EYA4	ENSG00000112319	ENST00000531901	protein_coding	NOVEL	None	3522	1938	645	133562724	133850668	1	DFNA10, CMD1J	None
6	EYA4	ENSG00000112319	ENST00000525849	protein_coding	NOVEL	None	3522	1851	616	133562769	133851364	1	DFNA10, CMD1J	None
6	EYA4	ENSG00000112319	ENST00000531861	processed_transcript	KNOWN	None	3522	None	None	133595919	133834102	1	DFNA10, CMD1J	None
6	EYA4	ENSG00000112319	ENST00000431403	protein_coding	NOVEL	CCDS5166	3522	1920	639	133595919	133850177	1	DFNA10, CMD1J	None
6	EYA4	ENSG00000112319	ENST00000421413	processed_transcript	KNOWN	None	3522	None	None	133646349	133789707	1	DFNA10, CMD1J	None
6	EYA4	ENSG00000112319	ENST00000525614	processed_transcript	KNOWN	None	3522	None	None	133681343	133782263	1	DFNA10, CMD1J	None
6	EYA4	ENSG00000112319	ENST00000497350	retained_intron	KNOWN	None	3522	None	None	133783259	133783872	1	DFNA10, CMD1J	None
6	EYA4	ENSG00000112319	ENST00000532518	processed_transcript	KNOWN	None	3522	None	None	133783851	133834167	1	DFNA10, CMD1J	None
6	EYA4	ENSG00000112319	ENST00000355167	protein_coding	KNOWN	CCDS5166	3522	1920	639	133562495	133853257	1	DFNA10, CMD1J	None
12	MYL2	ENSG00000111245	ENST00000228841	protein_coding	KNOWN	CCDS31901	7583	501	166	111348623	111358381	-1	None	CMH10
12	MYL2	ENSG00000111245	ENST00000548438	protein_coding	NOVEL	None	7583	459	152	111348722	111358379	-1	None	CMH10
12	MYL2	ENSG00000111245	ENST00000549029	retained_intron	KNOWN	None	7583	None	None	111350937	111352094	-1	None	CMH10
12	MYL2	ENSG00000111245	ENST00000546404	retained_intron	KNOWN	None	7583	None	None	111356633	111358526	-1	None	CMH10
18	None	ENSG00000265984	ENST00000579247	processed_transcript	PUTATIVE	None	None	None	None	18820636	18821332	-1	None	None
1	MIR92B	ENSG00000271748	ENST00000607575	miRNA	KNOWN	None	32920	None	None	155164968	155165063	1	MIRN92B	hsa-mir-92b
2	None	ENSG00000237751	ENST00000449073	lincRNA	KNOWN	None	None	None	None	71115001	71117089	1	None	None
12	None	ENSG00000207387	ENST00000384657	misc_RNA	NOVEL	None	None	None	None	71300697	71300798	1	None	None
8	None	ENSG00000240915	ENST00000524309	antisense	KNOWN	None	None	None	None	63925627	63927240	1	None	None
1	AGBL4-IT1	ENSG00000225623	ENST00000457061	sense_intronic	KNOWN	None	41482	None	None	49839873	49937757	-1	None	None
17	None	ENSG00000266947	ENST00000590478	antisense	KNOWN	None	None	None	None	33558469	33569982	-1	None	None
17	None	ENSG00000266947	ENST00000588697	antisense	KNOWN	None	None	None	None	33559286	33565000	-1	None	None
3	UBQLN4P1	ENSG00000241627	ENST00000461599	processed_pseudogene	KNOWN	None	31133	None	None	148703655	148705455	-1	UBQLN4P	C3orf12
3	UBQLN4P1	ENSG00000241627	ENST00000368308	processed_pseudogene	KNOWN	None	31133	None	None	148703730	148705453	-1	UBQLN4P	C3orf12
14	None	ENSG00000258672	ENST00000555875	lincRNA	KNOWN	None	None	None	None	100157782	100159985	-1	None	None
2	None	ENSG00000227021	ENST00000451711	lincRNA	KNOWN	None	None	None	None	217732735	217733879	1	None	None
15	GLCE	ENSG00000138604	ENST00000559798	processed_transcript	KNOWN	None	17855	None	None	69452923	69489328	1	None	KIAA0836, HSEPI
15	GLCE	ENSG00000138604	ENST00000559420	protein_coding	KNOWN	None	17855	1662	553	69548133	69564556	1	None	KIAA0836, HSEPI
15	GLCE	ENSG00000138604	ENST00000559500	processed_transcript	PUTATIVE	None	17855	None	None	69553035	69561009	1	None	KIAA0836, HSEPI
15	GLCE	ENSG00000138604	ENST00000261858	protein_coding	KNOWN	CCDS32277	17855	1854	617	69452973	69564538	1	None	KIAA0836, HSEPI
11	None	ENSG00000240121	ENST00000492051	processed_pseudogene	KNOWN	None	None	None	None	129407764	129408009	1	None	None
2	None	ENSG00000239064	ENST00000459218	snoRNA	NOVEL	None	None	None	None	71157470	71157545	-1	None	None
18	None	ENSG00000265948	ENST00000584331	sense_intronic	KNOWN	None	None	None	None	18896839	18897756	1	None	None
2	None	ENSG00000237880	ENST00000414300	lincRNA	KNOWN	None	None	None	None	108002088	108159105	-1	None	None
11	MS4A4A	ENSG00000110079	ENST00000532114	protein_coding	KNOWN	CCDS58135	13371	561	186	60048014	60075653	1	MS4A4	CD20L1, MS4A7
11	MS4A4A	ENSG00000110079	ENST00000337908	protein_coding	KNOWN	CCDS7982	13371	720	239	60048059	60076445	1	MS4A4	CD20L1, MS4A7
11	MS4A4A	ENSG00000110079	ENST00000343968	nonsense_mediated_decay	KNOWN	None	13371	207	68	60048129	60076441	1	MS4A4	CD20L1, MS4A7
11	MS4A4A	ENSG00000110079	ENST00000527056	nonsense_mediated_decay	KNOWN	None	13371	207	68	60048142	60070190	1	MS4A4	CD20L1, MS4A7
11	MS4A4A	ENSG00000110079	ENST00000529950	nonsense_mediated_decay	KNOWN	None	13371	108	35	60048158	60070117	1	MS4A4	CD20L1, MS4A7
11	MS4A4A	ENSG00000110079	ENST00000529991	retained_intron	KNOWN	None	13371	None	None	60073206	60075837	1	MS4A4	CD20L1, MS4A7
11	MS4A4A	ENSG00000110079	ENST00000355131	protein_coding	KNOWN	None	13371	663	220	60048129	60076441	1	MS4A4	CD20L1, MS4A7
11	MS4A4A	ENSG00000110079	ENST00000395016	protein_coding	KNOWN	None	13371	663	220	60050086	60076441	1	MS4A4	CD20L1, MS4A7
1	None	ENSG00000237478	ENST00000428836	processed_pseudogene	KNOWN	None	None	None	None	50156934	50157195	-1	None	None
10	None	ENSG00000221359	ENST00000408432	miRNA	NOVEL	None	None	None	None	112193999	112194143	1	None	None
HSCHR1_2_CTG31	GBA	ENSG00000262446	ENST00000572338	protein_coding	KNOWN	None	4177	1611	536	155219647	155226429	-1	GLUC	GBA1
HSCHR1_2_CTG31	GBA	ENSG00000262446	ENST00000574670	protein_coding	KNOWN	None	4177	1611	536	155219647	155229865	-1	GLUC	GBA1
HSCHR1_2_CTG31	GBA	ENSG00000262446	ENST00000571897	processed_transcript	KNOWN	None	4177	None	None	155219648	155221030	-1	GLUC	GBA1
HSCHR1_2_CTG31	GBA	ENSG00000262446	ENST00000570340	processed_transcript	KNOWN	None	4177	None	None	155220127	155225894	-1	GLUC	GBA1
HSCHR1_2_CTG31	GBA	ENSG00000262446	ENST00000574935	processed_transcript	KNOWN	None	4177	None	None	155220156	155221654	-1	GLUC	GBA1
HSCHR1_2_CTG31	GBA	ENSG00000262446	ENST00000576421	processed_transcript	KNOWN	None	4177	None	None	155220211	155226426	-1	GLUC	GBA1
HSCHR1_2_CTG31	GBA	ENSG00000262446	ENST00000571863	processed_transcript	KNOWN	None	4177	None	None	155221377	155223904	-1	GLUC	GBA1
HSCHR1_2_CTG31	GBA	ENSG00000262446	ENST00000573812	processed_transcript	KNOWN	None	4177	None	None	155221591	155225157	-1	GLUC	GBA1
HSCHR1_2_CTG31	GBA	ENSG00000262446	ENST00000573998	processed_transcript	KNOWN	None	4177	None	None	155222536	155225157	-1	GLUC	GBA1
HSCHR1_2_CTG31	GBA	ENSG00000262446	ENST00000570868	processed_transcript	KNOWN	None	4177	None	None	155223127	155224086	-1	GLUC	GBA1
HSCHR1_2_CTG31	GBA	ENSG00000262446	ENST00000575321	processed_transcript	KNOWN	None	4177	None	None	155223408	155229831	-1	GLUC	GBA1
HSCHR1_2_CTG31	GBA	ENSG00000262446	ENST00000576759	processed_transcript	KNOWN	None	4177	None	None	155223759	155229817	-1	GLUC	GBA1
HSCHR1_2_CTG31	GBA	ENSG00000262446	ENST00000570491	processed_transcript	KNOWN	None	4177	None	None	155224830	155229801	-1	GLUC	GBA1
HSCHR1_2_CTG31	GBA	ENSG00000262446	ENST00000573492	processed_transcript	KNOWN	None	4177	None	None	155225155	155226438	-1	GLUC	GBA1
15	None	ENSG00000259238	ENST00000560199	antisense	KNOWN	None	None	None	None	59980716	59981617	1	None	None
1	None	ENSG00000231064	ENST00000447623	antisense	KNOWN	None	None	None	None	155166659	155170137	1	None	None
1	None	ENSG00000231064	ENST00000454348	antisense	KNOWN	None	None	None	None	155167951	155170066	1	None	None
1	None	ENSG00000231064	ENST00000436772	antisense	KNOWN	None	None	None	None	155168218	155170362	1	None	None
1	None	ENSG00000231064	ENST00000453136	antisense	KNOWN	None	None	None	None	155168375	155175286	1	None	None
1	None	ENSG00000231064	ENST00000422665	antisense	KNOWN	None	None	None	None	155170029	155175097	1	None	None
1	None	ENSG00000231064	ENST00000430312	antisense	KNOWN	None	None	None	None	155170593	155175158	1	None	None
2	None	ENSG00000239322	ENST00000447639	antisense	KNOWN	None	None	None	None	71168947	71175682	-1	None	None
2	None	ENSG00000239322	ENST00000422761	antisense	KNOWN	None	None	None	None	71168957	71175740	-1	None	None
18	None	ENSG00000265751	ENST00000584611	antisense	KNOWN	None	None	None	None	18960247	19030978	-1	None	None
2	None	ENSG00000236295	ENST00000418591	antisense	KNOWN	None	None	None	None	217735164	217738655	-1	None	None
18	RIT2	ENSG00000152214	ENST00000326695	protein_coding	KNOWN	CCDS11921	10017	654	217	40323192	40695656	-1	RIN	RIBA
18	RIT2	ENSG00000152214	ENST00000589109	protein_coding	KNOWN	None	10017	462	153	40323192	40695656	-1	RIN	RIBA
18	RIT2	ENSG00000152214	ENST00000590910	protein_coding	NOVEL	None	10017	510	169	40323434	40695614	-1	RIN	RIBA
18	RIT2	ENSG00000152214	ENST00000594852	retained_intron	KNOWN	None	10017	None	None	40503330	40554060	-1	RIN	RIBA
18	RIT2	ENSG00000152214	ENST00000282028	protein_coding	KNOWN	None	10017	462	153	40500690	40695657	-1	RIN	RIBA
10	HMGB3P5	ENSG00000237642	ENST00000428894	processed_pseudogene	KNOWN	None	39105	None	None	112210387	112210998	1	None	None
12	None	ENSG00000257265	ENST00000552098	lincRNA	KNOWN	None	None	None	None	71401553	71425863	-1	None	None
17	None	ENSG00000267364	ENST00000591886	lincRNA	KNOWN	None	None	None	None	33640521	33650297	1	None	None
17	None	ENSG00000267364	ENST00000585387	lincRNA	KNOWN	None	None	None	None	33640683	33651919	1	None	None
8	None	ENSG00000253121	ENST00000521556	antisense	KNOWN	None	None	None	None	63936931	63937853	1	None	None
1	None	ENSG00000230427	ENST00000451611	antisense	KNOWN	None	None	None	None	95527152	95533101	1	None	None
11	None	ENSG00000254654	ENST00000525114	lincRNA	KNOWN	None	None	None	None	44995453	44999579	1	None	None
17	None	ENSG00000212206	ENST00000390904	snoRNA	NOVEL	None	None	None	None	8232901	8233037	1	None	None
12	PRKAG1	ENSG00000181929	ENST00000548362	protein_coding	PUTATIVE	None	9385	282	93	49396057	49397376	-1	None	None
12	PRKAG1	ENSG00000181929	ENST00000547306	protein_coding	PUTATIVE	None	9385	843	280	49396061	49412547	-1	None	None
12	PRKAG1	ENSG00000181929	ENST00000316299	protein_coding	NOVEL	CCDS55825	9385	1023	340	49396061	49412562	-1	None	None
12	PRKAG1	ENSG00000181929	ENST00000548065	protein_coding	KNOWN	CCDS8777	9385	996	331	49396064	49412980	-1	None	None
12	PRKAG1	ENSG00000181929	ENST00000546531	nonsense_mediated_decay	KNOWN	None	9385	249	82	49396095	49412570	-1	None	None
12	PRKAG1	ENSG00000181929	ENST00000552212	protein_coding	PUTATIVE	CCDS55824	9385	900	299	49396397	49412531	-1	None	None
12	PRKAG1	ENSG00000181929	ENST00000551770	protein_coding	NOVEL	None	9385	756	251	49396423	49399618	-1	None	None
12	PRKAG1	ENSG00000181929	ENST00000551696	protein_coding	PUTATIVE	None	9385	608	201	49396752	49412560	-1	None	None
12	PRKAG1	ENSG00000181929	ENST00000550125	retained_intron	KNOWN	None	9385	None	None	49397540	49412558	-1	None	None
12	PRKAG1	ENSG00000181929	ENST00000552793	retained_intron	KNOWN	None	9385	None	None	49397545	49399612	-1	None	None
12	PRKAG1	ENSG00000181929	ENST00000548950	protein_coding	PUTATIVE	None	9385	436	144	49397555	49412533	-1	None	None
12	PRKAG1	ENSG00000181929	ENST00000549726	retained_intron	KNOWN	None	9385	None	None	49397593	49412547	-1	None	None
12	PRKAG1	ENSG00000181929	ENST00000551121	protein_coding	PUTATIVE	None	9385	484	160	49397663	49412526	-1	None	None
12	PRKAG1	ENSG00000181929	ENST00000550448	retained_intron	KNOWN	None	9385	None	None	49398007	49412547	-1	None	None
12	PRKAG1	ENSG00000181929	ENST00000552463	protein_coding	PUTATIVE	None	9385	376	124	49398355	49412198	-1	None	None
12	PRKAG1	ENSG00000181929	ENST00000548857	protein_coding	PUTATIVE	None	9385	248	81	49398914	49412558	-1	None	None
12	PRKAG1	ENSG00000181929	ENST00000548605	protein_coding	PUTATIVE	None	9385	85	27	49398921	49412531	-1	None	None
12	PRKAG1	ENSG00000181929	ENST00000547082	protein_coding	PUTATIVE	None	9385	208	68	49399094	49412590	-1	None	None
12	PRKAG1	ENSG00000181929	ENST00000547125	protein_coding	PUTATIVE	None	9385	131	42	49399578	49412540	-1	None	None
12	PRKAG1	ENSG00000181929	ENST00000552657	retained_intron	KNOWN	None	9385	None	None	49406396	49412569	-1	None	None
12	PRKAG1	ENSG00000181929	ENST00000395170	protein_coding	KNOWN	None	9385	744	247	49396058	49412592	-1	None	None
1	None	ENSG00000261065	ENST00000565388	antisense	KNOWN	None	None	None	None	204100190	204101094	1	None	None
2	None	ENSG00000224568	ENST00000443205	lincRNA	KNOWN	None	None	None	None	108145943	108172782	1	None	None
2	None	ENSG00000224568	ENST00000439893	lincRNA	KNOWN	None	None	None	None	108159205	108172095	1	None	None
2	None	ENSG00000259855	ENST00000564299	lincRNA	KNOWN	None	None	None	None	217860629	217861213	1	None	None
18	None	ENSG00000221139	ENST00000408212	snoRNA	NOVEL	None	None	None	None	19030614	19030717	-1	None	None
17	None	ENSG00000266279	ENST00000585275	lincRNA	KNOWN	None	None	None	None	8241015	8242076	1	None	None
2	None	ENSG00000251849	ENST00000516040	miRNA	NOVEL	None	None	None	None	218041221	218041305	1	None	None
1	None	ENSG00000231992	ENST00000434207	sense_intronic	KNOWN	None	None	None	None	95585703	95604110	1	None	None
3	HLTF-AS1	ENSG00000239718	ENST00000492461	antisense	KNOWN	None	40554	None	None	148804119	148820610	1	None	None
18	None	ENSG00000263350	ENST00000577906	lincRNA	KNOWN	None	None	None	None	19210099	19213485	1	None	None
12	BCDIN3D-AS1	ENSG00000258057	ENST00000548872	antisense	KNOWN	None	44113	None	None	50222325	50234926	1	None	None
12	BCDIN3D-AS1	ENSG00000258057	ENST00000551146	antisense	KNOWN	None	44113	None	None	50222376	50226249	1	None	None
12	BCDIN3D-AS1	ENSG00000258057	ENST00000549124	antisense	KNOWN	None	44113	None	None	50222506	50233987	1	None	None
1	None	ENSG00000230550	ENST00000433869	antisense	KNOWN	None	None	None	None	204110536	204112137	1	None	None
17	None	ENSG00000267271	ENST00000588235	processed_pseudogene	KNOWN	None	None	None	None	33671250	33671583	1	None	None
2	RN7SKP43	ENSG00000251982	ENST00000516173	misc_RNA	KNOWN	None	45767	None	None	218116279	218116598	1	None	None
4	NEUROG2	ENSG00000178403	ENST00000313341	protein_coding	KNOWN	CCDS3698	13805	819	272	113434672	113437328	-1	None	Atoh4, Math4A, ngn-2, bHLHa8, NGN2
15	SNHG14	ENSG00000224078	ENST00000551631	antisense	KNOWN	None	37462	None	None	25224704	25266823	1	UBE3A-AS1	NCRNA00214
15	SNHG14	ENSG00000224078	ENST00000551361	antisense	KNOWN	None	37462	None	None	25227141	25247977	1	UBE3A-AS1	NCRNA00214
15	SNHG14	ENSG00000224078	ENST00000553134	antisense	KNOWN	None	37462	None	None	25245452	25265972	1	UBE3A-AS1	NCRNA00214
15	SNHG14	ENSG00000224078	ENST00000551938	antisense	KNOWN	None	37462	None	None	25245461	25247551	1	UBE3A-AS1	NCRNA00214
15	SNHG14	ENSG00000224078	ENST00000552781	antisense	KNOWN	None	37462	None	None	25264182	25299063	1	UBE3A-AS1	NCRNA00214
15	SNHG14	ENSG00000224078	ENST00000549804	antisense	KNOWN	None	37462	None	None	25295779	25367623	1	UBE3A-AS1	NCRNA00214
15	SNHG14	ENSG00000224078	ENST00000547292	antisense	KNOWN	None	37462	None	None	25296236	25301712	1	UBE3A-AS1	NCRNA00214
15	SNHG14	ENSG00000224078	ENST00000551077	antisense	KNOWN	None	37462	None	None	25309918	25319198	1	UBE3A-AS1	NCRNA00214
15	SNHG14	ENSG00000224078	ENST00000546682	antisense	KNOWN	None	37462	None	None	25326301	25359074	1	UBE3A-AS1	NCRNA00214
15	SNHG14	ENSG00000224078	ENST00000553108	antisense	KNOWN	None	37462	None	None	25330418	25355602	1	UBE3A-AS1	NCRNA00214
15	SNHG14	ENSG00000224078	ENST00000553149	antisense	KNOWN	None	37462	None	None	25362619	25418143	1	UBE3A-AS1	NCRNA00214
15	SNHG14	ENSG00000224078	ENST00000549301	antisense	KNOWN	None	37462	None	None	25364212	25420017	1	UBE3A-AS1	NCRNA00214
15	SNHG14	ENSG00000224078	ENST00000441592	antisense	KNOWN	None	37462	None	None	25418126	25427198	1	UBE3A-AS1	NCRNA00214
15	SNHG14	ENSG00000224078	ENST00000447911	retained_intron	KNOWN	None	37462	None	None	25425461	25427855	1	UBE3A-AS1	NCRNA00214
15	SNHG14	ENSG00000224078	ENST00000424208	antisense	KNOWN	None	37462	None	None	25426990	25467432	1	UBE3A-AS1	NCRNA00214
15	SNHG14	ENSG00000224078	ENST00000414175	antisense	KNOWN	None	37462	None	None	25434450	25438636	1	UBE3A-AS1	NCRNA00214
15	SNHG14	ENSG00000224078	ENST00000456576	antisense	KNOWN	None	37462	None	None	25438460	25442649	1	UBE3A-AS1	NCRNA00214
15	SNHG14	ENSG00000224078	ENST00000424333	antisense	KNOWN	None	37462	None	None	25442575	25459165	1	UBE3A-AS1	NCRNA00214
15	SNHG14	ENSG00000224078	ENST00000450809	antisense	KNOWN	None	37462	None	None	25451227	25458676	1	UBE3A-AS1	NCRNA00214
15	SNHG14	ENSG00000224078	ENST00000453082	antisense	KNOWN	None	37462	None	None	25463499	25492435	1	UBE3A-AS1	NCRNA00214
15	SNHG14	ENSG00000224078	ENST00000452731	antisense	KNOWN	None	37462	None	None	25497372	25583343	1	UBE3A-AS1	NCRNA00214
15	SNHG14	ENSG00000224078	ENST00000554726	antisense	KNOWN	None	37462	None	None	25514834	25664609	1	UBE3A-AS1	NCRNA00214
15	SNHG14	ENSG00000224078	ENST00000580438	antisense	KNOWN	None	37462	None	None	25663081	25664592	1	UBE3A-AS1	NCRNA00214
15	SNHG14	ENSG00000224078	ENST00000459433	snoRNA	KNOWN	None	37462	None	None	25227141	25227215	1	UBE3A-AS1	NCRNA00214
15	SNHG14	ENSG00000224078	ENST00000384733	snoRNA	KNOWN	None	37462	None	None	25304685	25304780	1	UBE3A-AS1	NCRNA00214
15	SNHG14	ENSG00000224078	ENST00000384430	snoRNA	KNOWN	None	37462	None	None	25335070	25335161	1	UBE3A-AS1	NCRNA00214
15	SNHG14	ENSG00000224078	ENST00000516123	snoRNA	KNOWN	None	37462	None	None	25349789	25349879	1	UBE3A-AS1	NCRNA00214
15	SNHG14	ENSG00000224078	ENST00000365306	snoRNA	KNOWN	None	37462	None	None	25427532	25427613	1	UBE3A-AS1	NCRNA00214
15	SNHG14	ENSG00000224078	ENST00000363358	snoRNA	KNOWN	None	37462	None	None	25438468	25438549	1	UBE3A-AS1	NCRNA00214
15	SNHG14	ENSG00000224078	ENST00000365067	snoRNA	KNOWN	None	37462	None	None	25463764	25463845	1	UBE3A-AS1	NCRNA00214
15	SNHG14	ENSG00000224078	ENST00000390982	snoRNA	KNOWN	None	37462	None	None	25511738	25511808	1	UBE3A-AS1	NCRNA00214
15	SNHG14	ENSG00000224078	ENST00000383025	processed_transcript	KNOWN	None	37462	None	None	25322013	25330407	1	UBE3A-AS1	NCRNA00214
6	TREML3P	ENSG00000184106	ENST00000564680	processed_transcript	KNOWN	None	30806	None	None	41176451	41185685	-1	TREML3	TLT3
6	TREML3P	ENSG00000184106	ENST00000457327	transcribed_unprocessed_pseudogene	KNOWN	None	30806	None	None	41177372	41185685	-1	TREML3	TLT3
6	TREML3P	ENSG00000184106	ENST00000332842	unprocessed_pseudogene	KNOWN	None	30806	None	None	41176292	41190382	-1	TREML3	TLT3
1	ZNF859P	ENSG00000215887	ENST00000502859	unprocessed_pseudogene	KNOWN	None	34507	None	None	50307493	50312072	1	None	None
19	RN7SL566P	ENSG00000241983	ENST00000467650	misc_RNA	KNOWN	None	46582	None	None	39859793	39860086	1	None	None
17	None	ENSG00000265749	ENST00000583963	antisense	KNOWN	None	None	None	None	8268881	8277134	1	None	None
17	None	ENSG00000265749	ENST00000580537	antisense	KNOWN	None	None	None	None	8268887	8279465	1	None	None
17	None	ENSG00000265749	ENST00000579904	antisense	KNOWN	None	None	None	None	8279328	8284646	1	None	None
17	None	ENSG00000265749	ENST00000585181	antisense	KNOWN	None	None	None	None	8280393	8284646	1	None	None
HSCHR6_MHC_DBB	BTNL2	ENSG00000229741	ENST00000457589	protein_coding	KNOWN	None	1142	636	211	32336148	32339582	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_DBB	BTNL2	ENSG00000229741	ENST00000447918	protein_coding	KNOWN	None	1142	777	258	32345003	32350396	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_DBB	BTNL2	ENSG00000229741	ENST00000415239	protein_coding	KNOWN	None	1142	326	107	32348302	32350396	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_DBB	BTNL2	ENSG00000229741	ENST00000546419	protein_coding	KNOWN	None	1142	1167	388	32337248	32350389	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_DBB	BTNL2	ENSG00000229741	ENST00000551095	protein_coding	KNOWN	None	1142	1368	455	32338015	32350389	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_DBB	BTNL2	ENSG00000229741	ENST00000548832	protein_coding	KNOWN	None	1142	738	245	32338015	32350389	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_DBB	BTNL2	ENSG00000229741	ENST00000553032	protein_coding	KNOWN	None	1142	816	271	32338015	32350389	-1	None	HSBLMHC1, BTL-II
X	None	ENSG00000231775	ENST00000456052	unprocessed_pseudogene	KNOWN	None	None	None	None	52370417	52373978	-1	None	None
2	None	ENSG00000233143	ENST00000452813	lincRNA	KNOWN	None	None	None	None	218147462	218200843	1	None	None
1	None	ENSG00000206679	ENST00000383952	misc_RNA	NOVEL	None	None	None	None	95591067	95591165	-1	None	None
12	None	ENSG00000257454	ENST00000548497	processed_transcript	KNOWN	None	None	None	None	71427902	71498306	-1	None	None
17	None	ENSG00000267315	ENST00000591442	processed_pseudogene	KNOWN	None	None	None	None	33704435	33704697	-1	None	None
19	MIR4530	ENSG00000266559	ENST00000581459	miRNA	KNOWN	None	41764	None	None	39900263	39900318	-1	None	hsa-mir-4530
17	None	ENSG00000267302	ENST00000593015	lincRNA	KNOWN	None	None	None	None	58042193	58050465	1	None	None
17	None	ENSG00000267302	ENST00000586209	lincRNA	KNOWN	None	None	None	None	58042457	58074333	1	None	None
12	MIR4497	ENSG00000263510	ENST00000583208	miRNA	KNOWN	None	41737	None	None	110271153	110271241	1	None	hsa-mir-4497
18	None	ENSG00000264188	ENST00000584148	sense_intronic	KNOWN	None	None	None	None	19241748	19242356	-1	None	None
2	GACAT1	ENSG00000232991	ENST00000441383	lincRNA	KNOWN	None	48336	None	None	108370568	108438585	1	None	LINC00876, AC096655.1-002
2	GACAT1	ENSG00000232991	ENST00000419650	lincRNA	KNOWN	None	48336	None	None	108370601	108428804	1	None	LINC00876, AC096655.1-002
1	None	ENSG00000225522	ENST00000440142	processed_pseudogene	KNOWN	None	None	None	None	204152134	204152665	1	None	None
1	None	ENSG00000226026	ENST00000421762	antisense	KNOWN	None	None	None	None	95628775	95699538	-1	None	None
1	None	ENSG00000226026	ENST00000419846	antisense	KNOWN	None	None	None	None	95639680	95699535	-1	None	None
2	None	ENSG00000224414	ENST00000437380	processed_pseudogene	KNOWN	None	None	None	None	218558618	218561486	1	None	None
18	None	ENSG00000265656	ENST00000578583	antisense	KNOWN	None	None	None	None	19253589	19262522	1	None	None
10	None	ENSG00000264544	ENST00000584200	miRNA	NOVEL	None	None	None	None	112235255	112235352	-1	None	None
12	None	ENSG00000255572	ENST00000543061	antisense	KNOWN	None	None	None	None	7319270	7341665	-1	None	None
12	None	ENSG00000255572	ENST00000545794	antisense	KNOWN	None	None	None	None	7322381	7341620	-1	None	None
3	None	ENSG00000232563	ENST00000449338	processed_pseudogene	KNOWN	None	None	None	None	1435857	1436132	-1	None	None
1	None	ENSG00000221746	ENST00000408819	miRNA	NOVEL	None	None	None	None	50447887	50447967	1	None	None
2	TCEB1P21	ENSG00000226186	ENST00000412558	processed_pseudogene	KNOWN	None	38157	None	None	71183029	71183364	-1	None	None
18	MIR320C1	ENSG00000221493	ENST00000408566	miRNA	KNOWN	None	35248	None	None	19263471	19263558	1	MIRN320C1	hsa-mir-320c-1
2	RPL7L1P9	ENSG00000231035	ENST00000431298	processed_pseudogene	KNOWN	None	39491	None	None	218625270	218626014	-1	None	None
11	CASP1P2	ENSG00000254750	ENST00000526830	unprocessed_pseudogene	KNOWN	None	43776	None	None	104934072	104942268	-1	None	None
10	None	ENSG00000233518	ENST00000446943	processed_pseudogene	KNOWN	None	None	None	None	112309873	112310612	-1	None	None
17	None	ENSG00000267711	ENST00000589099	lincRNA	KNOWN	None	None	None	None	33727897	33730025	-1	None	None
15	None	ENSG00000268730	ENST00000600203	protein_coding	NOVEL	None	None	81	26	99859300	99859828	-1	None	None
17	RNU7-43P	ENSG00000252363	ENST00000516554	snRNA	KNOWN	None	34139	None	None	8414443	8414506	1	RNU7-118P	U7.43
1	None	ENSG00000231691	ENST00000437919	antisense	KNOWN	None	None	None	None	204246133	204247076	1	None	None
2	RN7SL160P	ENSG00000241159	ENST00000468558	misc_RNA	KNOWN	None	46176	None	None	71192701	71192995	1	None	None
1	MTND2P29	ENSG00000233595	ENST00000438595	processed_pseudogene	KNOWN	None	42130	None	None	50482764	50483175	1	None	None
18	None	ENSG00000252677	ENST00000516868	snoRNA	NOVEL	None	None	None	None	19291911	19292080	-1	None	None
11	OR52P1P	ENSG00000181109	ENST00000438474	unprocessed_pseudogene	KNOWN	None	15232	None	None	5747732	5748694	1	OR52P1	None
17	None	ENSG00000267547	ENST00000592117	lincRNA	KNOWN	None	None	None	None	33730856	33731392	-1	None	None
17	RN7SL129P	ENSG00000241708	ENST00000479993	misc_RNA	KNOWN	None	46145	None	None	8450235	8450526	-1	None	None
12	None	ENSG00000242963	ENST00000466577	processed_pseudogene	KNOWN	None	None	None	None	130701352	130701702	-1	None	None
18	None	ENSG00000200750	ENST00000363880	misc_RNA	NOVEL	None	None	None	None	19304080	19304190	1	None	None
3	None	ENSG00000199363	ENST00000362493	snoRNA	NOVEL	None	None	None	None	183171602	183171732	1	None	None
2	None	ENSG00000228384	ENST00000416229	antisense	KNOWN	None	None	None	None	71221640	71229884	1	None	None
2	None	ENSG00000228384	ENST00000601923	antisense	KNOWN	None	None	None	None	71221573	71222783	1	None	None
X	None	ENSG00000232384	ENST00000440734	unprocessed_pseudogene	KNOWN	None	None	None	None	52464670	52467221	-1	None	None
1	SDHB	ENSG00000117118	ENST00000375499	protein_coding	KNOWN	CCDS176	10681	843	280	17345217	17380665	-1	SDH1, SDH	None
1	SDHB	ENSG00000117118	ENST00000485092	processed_transcript	KNOWN	None	10681	None	None	17345247	17349531	-1	SDH1, SDH	None
1	SDHB	ENSG00000117118	ENST00000475049	processed_transcript	KNOWN	None	10681	None	None	17345247	17349655	-1	SDH1, SDH	None
1	SDHB	ENSG00000117118	ENST00000485515	processed_transcript	KNOWN	None	10681	None	None	17349103	17380502	-1	SDH1, SDH	None
1	SDHB	ENSG00000117118	ENST00000491274	processed_transcript	KNOWN	None	10681	None	None	17350468	17371714	-1	SDH1, SDH	None
1	SDHB	ENSG00000117118	ENST00000475506	processed_transcript	KNOWN	None	10681	None	None	17354151	17371372	-1	SDH1, SDH	None
1	SDHB	ENSG00000117118	ENST00000463045	processed_transcript	KNOWN	None	10681	None	None	17354244	17378983	-1	SDH1, SDH	None
1	SDHB	ENSG00000117118	ENST00000466613	processed_transcript	KNOWN	None	10681	None	None	17359025	17380526	-1	SDH1, SDH	None
19	None	ENSG00000234436	ENST00000426257	unprocessed_pseudogene	KNOWN	None	None	None	None	54813047	54817309	-1	None	None
17	None	ENSG00000270606	ENST00000605229	processed_pseudogene	KNOWN	None	None	None	None	8463789	8464280	1	None	None
16	BOLA2B	ENSG00000169627	ENST00000569282	protein_coding	PUTATIVE	None	32479	245	80	30204255	30204987	-1	None	None
16	BOLA2B	ENSG00000169627	ENST00000567436	protein_coding	PUTATIVE	None	32479	267	88	30204255	30205018	-1	None	None
16	BOLA2B	ENSG00000169627	ENST00000565525	retained_intron	KNOWN	None	32479	None	None	30204256	30204845	-1	None	None
16	BOLA2B	ENSG00000169627	ENST00000305321	protein_coding	KNOWN	CCDS32430	32479	459	152	30204256	30205627	-1	None	None
1	None	ENSG00000228852	ENST00000444665	antisense	KNOWN	None	None	None	None	95708781	95729610	-1	None	None
1	None	ENSG00000228852	ENST00000598739	antisense	KNOWN	None	None	None	None	95714256	95729610	-1	None	None
2	None	ENSG00000230651	ENST00000457647	lincRNA	KNOWN	None	None	None	None	108439519	108443347	-1	None	None
2	None	ENSG00000230651	ENST00000417284	lincRNA	KNOWN	None	None	None	None	108440497	108442257	-1	None	None
2	None	ENSG00000230651	ENST00000594764	lincRNA	KNOWN	None	None	None	None	108442197	108443292	-1	None	None
2	None	ENSG00000230651	ENST00000593452	lincRNA	KNOWN	None	None	None	None	108442197	108443326	-1	None	None
18	None	ENSG00000264183	ENST00000582102	miRNA	NOVEL	None	None	None	None	19356839	19356938	1	None	None
17	None	ENSG00000267745	ENST00000587012	processed_transcript	KNOWN	None	None	None	None	33733703	33736787	-1	None	None
14	RNU1-47P	ENSG00000199836	ENST00000362966	snRNA	KNOWN	None	48389	None	None	100411652	100411814	1	None	None
2	None	ENSG00000256309	ENST00000546295	pseudogene	NOVEL	None	None	None	None	218664514	218665979	-1	None	None
18	RN7SL233P	ENSG00000242971	ENST00000469988	misc_RNA	KNOWN	None	46249	None	None	19373844	19374118	1	None	None
11	RPS13	ENSG00000110700	ENST00000531008	retained_intron	KNOWN	None	10386	None	None	17095936	17097159	-1	None	S13
11	RPS13	ENSG00000110700	ENST00000531908	retained_intron	KNOWN	None	10386	None	None	17095936	17097567	-1	None	S13
11	RPS13	ENSG00000110700	ENST00000228140	protein_coding	PUTATIVE	None	10386	447	148	17095936	17099213	-1	None	S13
11	RPS13	ENSG00000110700	ENST00000526895	processed_transcript	KNOWN	None	10386	None	None	17095936	17099253	-1	None	S13
11	RPS13	ENSG00000110700	ENST00000525634	protein_coding	KNOWN	CCDS7823	10386	456	151	17095936	17099334	-1	None	S13
11	RPS13	ENSG00000110700	ENST00000525828	retained_intron	KNOWN	None	10386	None	None	17095940	17099215	-1	None	S13
11	RPS13	ENSG00000110700	ENST00000533969	protein_coding	NOVEL	None	10386	349	115	17097078	17099194	-1	None	S13
11	RPS13	ENSG00000110700	ENST00000527571	retained_intron	KNOWN	None	10386	None	None	17098256	17099214	-1	None	S13
11	RPS13	ENSG00000110700	ENST00000534329	retained_intron	KNOWN	None	10386	None	None	17098372	17099262	-1	None	S13
11	RPS13	ENSG00000110700	ENST00000528074	retained_intron	KNOWN	None	10386	None	None	17098502	17099225	-1	None	S13
3	None	ENSG00000201031	ENST00000364161	misc_RNA	NOVEL	None	None	None	None	148812140	148812249	-1	None	None
17	DHX40P1	ENSG00000266992	ENST00000588725	unprocessed_pseudogene	KNOWN	None	20687	None	None	58053370	58079745	-1	DHX40P	None
1	None	ENSG00000219133	ENST00000403842	processed_pseudogene	KNOWN	None	None	None	None	204315904	204316386	-1	None	None
17	None	ENSG00000244604	ENST00000479856	processed_pseudogene	KNOWN	None	None	None	None	8464548	8464894	1	None	None
2	None	ENSG00000236469	ENST00000434990	antisense	KNOWN	None	None	None	None	71229661	71291873	-1	None	None
15	RPS3AP6	ENSG00000234797	ENST00000484430	processed_pseudogene	KNOWN	None	18630	None	None	60060551	60061345	1	None	None
15	RPS3AP6	ENSG00000234797	ENST00000398981	processed_pseudogene	KNOWN	None	18630	None	None	60060543	60061347	1	None	None
18	None	ENSG00000199977	ENST00000363107	snoRNA	NOVEL	None	None	None	None	19397585	19397789	1	None	None
3	MED28P2	ENSG00000240511	ENST00000475771	processed_pseudogene	KNOWN	None	45079	None	None	148817286	148817602	-1	None	None
7	ITGB8	ENSG00000105855	ENST00000537992	protein_coding	PUTATIVE	None	6163	1905	634	20370325	20449953	1	None	None
7	ITGB8	ENSG00000105855	ENST00000478974	retained_intron	KNOWN	None	6163	None	None	20370725	20438685	1	None	None
7	ITGB8	ENSG00000105855	ENST00000222573	protein_coding	KNOWN	CCDS5370	6163	2310	769	20370746	20450419	1	None	None
7	ITGB8	ENSG00000105855	ENST00000460204	processed_transcript	KNOWN	None	6163	None	None	20371600	20392980	1	None	None
7	ITGB8	ENSG00000105855	ENST00000477859	retained_intron	KNOWN	None	6163	None	None	20404268	20421704	1	None	None
10	None	ENSG00000239125	ENST00000458966	snoRNA	NOVEL	None	None	None	None	112336118	112336219	1	None	None
3	None	ENSG00000251730	ENST00000515921	snoRNA	NOVEL	None	None	None	None	183171916	183172050	1	None	None
16	NOL3	ENSG00000140939	ENST00000565560	protein_coding	KNOWN	None	7869	523	173	67204057	67208751	1	None	ARC, NOP30, MYP, CARD2
16	NOL3	ENSG00000140939	ENST00000563439	protein_coding	KNOWN	None	7869	416	137	67204400	67208644	1	None	ARC, NOP30, MYP, CARD2
16	NOL3	ENSG00000140939	ENST00000568086	retained_intron	KNOWN	None	7869	None	None	67204405	67205559	1	None	ARC, NOP30, MYP, CARD2
16	NOL3	ENSG00000140939	ENST00000564992	protein_coding	KNOWN	None	7869	619	205	67204428	67208847	1	None	ARC, NOP30, MYP, CARD2
16	NOL3	ENSG00000140939	ENST00000564053	protein_coding	PUTATIVE	None	7869	813	270	67204443	67209388	1	None	ARC, NOP30, MYP, CARD2
16	NOL3	ENSG00000140939	ENST00000565645	processed_transcript	PUTATIVE	None	7869	None	None	67204445	67207832	1	None	ARC, NOP30, MYP, CARD2
16	NOL3	ENSG00000140939	ENST00000568199	processed_transcript	PUTATIVE	None	7869	None	None	67205537	67206906	1	None	ARC, NOP30, MYP, CARD2
16	NOL3	ENSG00000140939	ENST00000566871	protein_coding	PUTATIVE	None	7869	650	215	67207854	67209102	1	None	ARC, NOP30, MYP, CARD2
16	NOL3	ENSG00000140939	ENST00000568503	retained_intron	KNOWN	None	7869	None	None	67207857	67209584	1	None	ARC, NOP30, MYP, CARD2
16	NOL3	ENSG00000140939	ENST00000563258	protein_coding	PUTATIVE	None	7869	395	130	67207887	67209356	1	None	ARC, NOP30, MYP, CARD2
16	NOL3	ENSG00000140939	ENST00000568146	protein_coding	KNOWN	CCDS58473	7869	660	219	67207905	67209638	1	None	ARC, NOP30, MYP, CARD2
16	NOL3	ENSG00000140939	ENST00000564860	protein_coding	PUTATIVE	None	7869	317	104	67208747	67209163	1	None	ARC, NOP30, MYP, CARD2
16	NOL3	ENSG00000140939	ENST00000432069	protein_coding	KNOWN	CCDS42176	7869	627	208	67204405	67209643	1	None	ARC, NOP30, MYP, CARD2
16	NOL3	ENSG00000140939	ENST00000268605	protein_coding	KNOWN	CCDS42176	7869	627	208	67207870	67209624	1	None	ARC, NOP30, MYP, CARD2
1	None	ENSG00000230828	ENST00000456070	processed_pseudogene	KNOWN	None	None	None	None	50580609	50580954	1	None	None
19	None	ENSG00000248166	ENST00000507363	processed_transcript	KNOWN	None	None	None	None	54820182	54848439	-1	None	None
10	RN7SL686P	ENSG00000263919	ENST00000580509	misc_RNA	KNOWN	None	46702	None	None	112393589	112393883	-1	None	None
1	None	ENSG00000236263	ENST00000455788	antisense	KNOWN	None	None	None	None	155180942	155183610	-1	None	None
2	None	ENSG00000223923	ENST00000450996	antisense	KNOWN	None	None	None	None	218843430	218857338	1	None	None
17	None	ENSG00000267648	ENST00000590539	transcribed_processed_pseudogene	KNOWN	None	None	None	None	33733967	33734837	-1	None	None
1	None	ENSG00000228504	ENST00000423410	lincRNA	KNOWN	None	None	None	None	95776484	95783819	-1	None	None
10	None	ENSG00000223302	ENST00000411370	misc_RNA	NOVEL	None	None	None	None	112402436	112402543	-1	None	None
11	None	ENSG00000256189	ENST00000534962	processed_pseudogene	KNOWN	None	None	None	None	73702328	73703225	-1	None	None
19	None	ENSG00000267216	ENST00000591325	nonsense_mediated_decay	KNOWN	None	None	414	137	58790332	58826563	1	None	None
2	None	ENSG00000266029	ENST00000585144	miRNA	NOVEL	None	None	None	None	71239461	71239537	1	None	None
18	MIR1-2	ENSG00000265142	ENST00000581072	antisense	KNOWN	None	31500	None	None	19405448	19411367	-1	MIRN1-2	hsa-mir-1-2
18	MIR1-2	ENSG00000265142	ENST00000581613	antisense	KNOWN	None	31500	None	None	19409048	19411371	-1	MIRN1-2	hsa-mir-1-2
18	MIR1-2	ENSG00000265142	ENST00000577659	antisense	KNOWN	None	31500	None	None	19409394	19411359	-1	MIRN1-2	hsa-mir-1-2
18	MIR1-2	ENSG00000265142	ENST00000385052	miRNA	KNOWN	None	31500	None	None	19405659	19405746	-1	MIRN1-2	hsa-mir-1-2
18	MIR1-2	ENSG00000265142	ENST00000384961	miRNA	KNOWN	None	31500	None	None	19408965	19409049	-1	MIRN1-2	hsa-mir-1-2
18	MIR133A1	ENSG00000265142	ENST00000581072	antisense	KNOWN	None	31517	None	None	19405448	19411367	-1	MIRN133A1	hsa-mir-133a-1
18	MIR133A1	ENSG00000265142	ENST00000581613	antisense	KNOWN	None	31517	None	None	19409048	19411371	-1	MIRN133A1	hsa-mir-133a-1
18	MIR133A1	ENSG00000265142	ENST00000577659	antisense	KNOWN	None	31517	None	None	19409394	19411359	-1	MIRN133A1	hsa-mir-133a-1
18	MIR133A1	ENSG00000265142	ENST00000385052	miRNA	KNOWN	None	31517	None	None	19405659	19405746	-1	MIRN133A1	hsa-mir-133a-1
18	MIR133A1	ENSG00000265142	ENST00000384961	miRNA	KNOWN	None	31517	None	None	19408965	19409049	-1	MIRN133A1	hsa-mir-133a-1
1	None	ENSG00000237337	ENST00000442477	antisense	KNOWN	None	None	None	None	50639978	50641540	-1	None	None
3	None	ENSG00000184423	ENST00000423801	processed_pseudogene	KNOWN	None	None	None	None	1637461	1637929	-1	None	None
10	RN7SKP288	ENSG00000252036	ENST00000516227	misc_RNA	KNOWN	None	46012	None	None	112516214	112516481	1	None	None
12	None	ENSG00000257761	ENST00000546601	antisense	KNOWN	None	None	None	None	71976073	71977632	-1	None	None
1	None	ENSG00000226330	ENST00000443515	antisense	KNOWN	None	None	None	None	204346978	204404974	1	None	None
2	None	ENSG00000266186	ENST00000578856	miRNA	NOVEL	None	None	None	None	71240219	71240287	-1	None	None
14	IGHV3-72	ENSG00000225698	ENST00000433072	IG_V_gene	KNOWN	None	5622	357	118	107198932	107199471	-1	None	None
10	RNA5SP327	ENSG00000199364	ENST00000362494	rRNA	KNOWN	None	43227	None	None	112520900	112521000	1	RN5S327	None
3	PLCXD2-AS1	ENSG00000240766	ENST00000493131	antisense	KNOWN	None	41145	None	None	111395583	111396280	-1	None	None
2	None	ENSG00000265812	ENST00000581030	miRNA	NOVEL	None	None	None	None	71244154	71244239	1	None	None
2	CXCR2P1	ENSG00000229754	ENST00000439871	processed_transcript	KNOWN	None	6028	None	None	218923878	218930452	-1	IL8RBP, CXCR2P	None
2	CXCR2P1	ENSG00000229754	ENST00000443392	transcribed_unprocessed_pseudogene	KNOWN	None	6028	None	None	218925062	218926135	-1	IL8RBP, CXCR2P	None
12	None	ENSG00000256351	ENST00000536310	processed_pseudogene	KNOWN	None	None	None	None	110297572	110298225	-1	None	None
10	None	ENSG00000232470	ENST00000416249	lincRNA	KNOWN	None	None	None	None	112629501	112631352	1	None	None
1	GIPC2	ENSG00000137960	ENST00000476882	processed_transcript	KNOWN	None	18177	None	None	78445226	78558488	1	None	FLJ20075, SEMCAP-2
1	GIPC2	ENSG00000137960	ENST00000370759	protein_coding	KNOWN	CCDS685	18177	948	315	78511586	78604133	1	None	FLJ20075, SEMCAP-2
17	None	ENSG00000267102	ENST00000590824	processed_pseudogene	KNOWN	None	None	None	None	33736621	33737247	-1	None	None
19	VN1R104P	ENSG00000249654	ENST00000505115	unprocessed_pseudogene	KNOWN	None	37427	None	None	54831476	54832484	-1	None	None
2	OR7E91P	ENSG00000205847	ENST00000400027	unprocessed_pseudogene	KNOWN	None	14747	None	None	71256158	71257023	1	None	None
8	None	ENSG00000253555	ENST00000523386	unprocessed_pseudogene	KNOWN	None	None	None	None	64048782	64050643	-1	None	None
12	None	ENSG00000259862	ENST00000563922	lincRNA	KNOWN	None	None	None	None	130734224	130751270	1	None	None
1	None	ENSG00000237848	ENST00000433886	processed_pseudogene	KNOWN	None	None	None	None	204363669	204363902	1	None	None
1	None	ENSG00000230434	ENST00000438093	lincRNA	KNOWN	None	None	None	None	95816807	95817810	-1	None	None
1	None	ENSG00000233407	ENST00000440897	antisense	KNOWN	None	None	None	None	50671756	50688799	-1	None	None
19	ZSCAN22	ENSG00000182318	ENST00000329665	protein_coding	KNOWN	CCDS12975	4929	1476	491	58838385	58853698	1	ZNF50, HKR2	None
6	TRIM10	ENSG00000204613	ENST00000449742	protein_coding	KNOWN	CCDS34375	10072	1446	481	30119722	30128711	-1	RNF9	RFB30, HERF1
6	TRIM10	ENSG00000204613	ENST00000376704	protein_coding	KNOWN	CCDS4676	10072	1188	395	30119722	30128711	-1	RNF9	RFB30, HERF1
1	None	ENSG00000234080	ENST00000423464	processed_pseudogene	KNOWN	None	None	None	None	50791803	50792679	1	None	None
1	None	ENSG00000234080	ENST00000414530	processed_pseudogene	KNOWN	None	None	None	None	50791942	50792682	1	None	None
2	None	ENSG00000238428	ENST00000459620	snoRNA	NOVEL	None	None	None	None	219049702	219049805	-1	None	None
2	OR7E46P	ENSG00000234485	ENST00000503990	unprocessed_pseudogene	KNOWN	None	8420	None	None	71264815	71265833	1	None	OST379, MCEEP
19	None	ENSG00000250507	ENST00000515672	unprocessed_pseudogene	KNOWN	None	None	None	None	54839544	54842706	-1	None	None
2	None	ENSG00000233494	ENST00000453431	processed_pseudogene	KNOWN	None	None	None	None	108519453	108519590	-1	None	None
14	None	ENSG00000271198	ENST00000604654	processed_pseudogene	KNOWN	None	None	None	None	100430866	100431715	1	None	None
1	None	ENSG00000236779	ENST00000432698	processed_pseudogene	KNOWN	None	None	None	None	204497973	204498820	-1	None	None
2	HMGB1P9	ENSG00000224159	ENST00000429856	processed_pseudogene	KNOWN	None	13320	None	None	219065157	219066111	1	HMG1L9, HMGB1L9	None
17	None	ENSG00000267312	ENST00000588022	processed_pseudogene	KNOWN	None	None	None	None	33786500	33787569	-1	None	None
2	C2orf71	ENSG00000179270	ENST00000602958	processed_transcript	KNOWN	None	34383	None	None	29283842	29285021	-1	None	FLJ34931
2	C2orf71	ENSG00000179270	ENST00000331664	protein_coding	KNOWN	CCDS42669	34383	3867	1288	29284558	29297127	-1	None	FLJ34931
X	None	ENSG00000271209	ENST00000605735	processed_pseudogene	KNOWN	None	None	None	None	95592235	95592911	-1	None	None
18	None	ENSG00000243303	ENST00000473394	processed_pseudogene	KNOWN	None	None	None	None	19434601	19434948	-1	None	None
1	None	ENSG00000237954	ENST00000426881	lincRNA	KNOWN	None	None	None	None	95821785	95846556	-1	None	None
1	None	ENSG00000237954	ENST00000427695	lincRNA	KNOWN	None	None	None	None	95821791	95846528	-1	None	None
12	None	ENSG00000256064	ENST00000539532	lincRNA	KNOWN	None	None	None	None	130904080	130905564	-1	None	None
4	SLC25A5P6	ENSG00000213332	ENST00000515328	processed_pseudogene	KNOWN	None	512	None	None	187249870	187250755	-1	ANTP6	None
X	PGRMC1	ENSG00000101856	ENST00000217971	protein_coding	KNOWN	CCDS14576	16090	588	195	118370216	118378429	1	None	HPR6.6
X	PGRMC1	ENSG00000101856	ENST00000535419	protein_coding	KNOWN	None	16090	432	143	118370288	118378428	1	None	HPR6.6
X	RN7SKP194	ENSG00000223260	ENST00000411328	misc_RNA	KNOWN	None	45918	None	None	95665431	95665781	-1	None	None
2	None	ENSG00000264382	ENST00000582706	miRNA	NOVEL	None	None	None	None	71266437	71266490	1	None	None
1	RNA5SP74	ENSG00000200408	ENST00000363538	rRNA	KNOWN	None	42851	None	None	204531541	204531649	-1	RN5S74	None
11	None	ENSG00000254411	ENST00000525853	processed_pseudogene	KNOWN	None	None	None	None	56263236	56263888	1	None	None
18	None	ENSG00000264149	ENST00000583436	lincRNA	KNOWN	None	None	None	None	19451407	19473957	-1	None	None
2	None	ENSG00000227270	ENST00000417265	unprocessed_pseudogene	KNOWN	None	None	None	None	108520420	108520697	1	None	None
1	HMGB1P45	ENSG00000229316	ENST00000435986	processed_pseudogene	KNOWN	None	39277	None	None	50864497	50865445	-1	None	None
2	OR7E62P	ENSG00000234896	ENST00000456741	unprocessed_pseudogene	KNOWN	None	8438	None	None	71282657	71283133	1	OR7E63P, OR7E64P, OR7E82P	OR7E62, OR2-53, OR7E63, OR7E64
X	None	ENSG00000229693	ENST00000441783	processed_pseudogene	KNOWN	None	None	None	None	95875653	95876902	1	None	None
3	CPHL1P	ENSG00000240216	ENST00000471823	processed_transcript	KNOWN	None	31714	None	None	148947143	148959176	-1	CPHL1	None
3	CPHL1P	ENSG00000240216	ENST00000461341	unitary_pseudogene	KNOWN	None	31714	None	None	148947218	148994451	-1	CPHL1	None
3	CPHL1P	ENSG00000240216	ENST00000465363	processed_transcript	KNOWN	None	31714	None	None	148947232	148959226	-1	CPHL1	None
3	CPHL1P	ENSG00000240216	ENST00000482639	processed_transcript	KNOWN	None	31714	None	None	148993472	149009587	-1	CPHL1	None
1	None	ENSG00000240710	ENST00000453895	antisense	KNOWN	None	None	None	None	204572163	204585693	1	None	None
17	None	ENSG00000267554	ENST00000592517	processed_pseudogene	KNOWN	None	None	None	None	33797088	33797647	-1	None	None
3	NAALADL2	ENSG00000177694	ENST00000482228	processed_transcript	PUTATIVE	None	23219	None	None	174156363	174254473	1	None	None
3	NAALADL2	ENSG00000177694	ENST00000491329	processed_transcript	KNOWN	None	23219	None	None	174156363	174455536	1	None	None
3	NAALADL2	ENSG00000177694	ENST00000481679	processed_transcript	KNOWN	None	23219	None	None	174158735	174258538	1	None	None
3	NAALADL2	ENSG00000177694	ENST00000478624	processed_transcript	PUTATIVE	None	23219	None	None	174158768	174177567	1	None	None
3	NAALADL2	ENSG00000177694	ENST00000495900	retained_intron	KNOWN	None	23219	None	None	174158773	174269149	1	None	None
3	NAALADL2	ENSG00000177694	ENST00000489729	processed_transcript	KNOWN	None	23219	None	None	174158777	174455536	1	None	None
3	NAALADL2	ENSG00000177694	ENST00000434257	protein_coding	PUTATIVE	None	23219	345	114	174158777	174814932	1	None	None
3	NAALADL2	ENSG00000177694	ENST00000454872	protein_coding	KNOWN	CCDS46960	23219	2388	795	174577070	175523428	1	None	None
3	NAALADL2	ENSG00000177694	ENST00000485853	retained_intron	KNOWN	None	23219	None	None	174577112	174975002	1	None	None
3	NAALADL2	ENSG00000177694	ENST00000473253	processed_transcript	KNOWN	None	23219	None	None	174581606	175299009	1	None	None
3	NAALADL2	ENSG00000177694	ENST00000489299	processed_transcript	KNOWN	None	23219	None	None	174842196	175373351	1	None	None
3	NAALADL2	ENSG00000177694	ENST00000414826	nonsense_mediated_decay	KNOWN	None	23219	165	54	174974200	175205437	1	None	None
8	YTHDF3-AS1	ENSG00000270673	ENST00000603538	lincRNA	KNOWN	None	48728	None	None	64080284	64081001	-1	None	None
2	None	ENSG00000264051	ENST00000578636	miRNA	NOVEL	None	None	None	None	71352653	71352722	1	None	None
2	None	ENSG00000237745	ENST00000448535	processed_pseudogene	KNOWN	None	None	None	None	108531404	108531742	1	None	None
11	OR5M7P	ENSG00000254490	ENST00000526140	unprocessed_pseudogene	KNOWN	None	14818	None	None	56267776	56268747	-1	None	None
1	None	ENSG00000233907	ENST00000424943	lincRNA	KNOWN	None	None	None	None	95940293	95944912	1	None	None
18	RNU6-1038P	ENSG00000252325	ENST00000516516	snRNA	KNOWN	None	48001	None	None	19459762	19459865	1	None	None
11	FDX1	ENSG00000137714	ENST00000260270	protein_coding	KNOWN	CCDS8344	3638	555	184	110300607	110335605	1	FDX	ADX
17	None	ENSG00000267349	ENST00000587076	antisense	KNOWN	None	None	None	None	33805013	33805463	1	None	None
2	None	ENSG00000233870	ENST00000437460	unprocessed_pseudogene	KNOWN	None	None	None	None	71405717	71405903	1	None	None
1	GBAP1	ENSG00000160766	ENST00000459805	retained_intron	KNOWN	None	4178	None	None	155183616	155188715	-1	GBAP	None
1	GBAP1	ENSG00000160766	ENST00000486869	processed_transcript	KNOWN	None	4178	None	None	155183616	155188734	-1	GBAP	None
1	GBAP1	ENSG00000160766	ENST00000368374	processed_transcript	KNOWN	None	4178	None	None	155183616	155197213	-1	GBAP	None
1	GBAP1	ENSG00000160766	ENST00000486197	retained_intron	KNOWN	None	4178	None	None	155183617	155188264	-1	GBAP	None
1	GBAP1	ENSG00000160766	ENST00000473223	retained_intron	KNOWN	None	4178	None	None	155183617	155188809	-1	GBAP	None
1	GBAP1	ENSG00000160766	ENST00000566701	transcribed_unprocessed_pseudogene	KNOWN	None	4178	None	None	155184159	155188665	-1	GBAP	None
1	GBAP1	ENSG00000160766	ENST00000463838	retained_intron	KNOWN	None	4178	None	None	155186175	155188039	-1	GBAP	None
1	GBAP1	ENSG00000160766	ENST00000462587	processed_transcript	KNOWN	None	4178	None	None	155186688	155188814	-1	GBAP	None
1	GBAP1	ENSG00000160766	ENST00000313929	unprocessed_pseudogene	KNOWN	None	4178	None	None	155183939	155197214	-1	GBAP	None
3	None	ENSG00000271682	ENST00000604762	processed_pseudogene	KNOWN	None	None	None	None	183180639	183180989	-1	None	None
14	IGHV3-73	ENSG00000211976	ENST00000390636	IG_V_gene	KNOWN	None	5623	357	118	107210932	107211471	-1	None	None
1	None	ENSG00000240219	ENST00000444037	lincRNA	KNOWN	None	None	None	None	204595903	204598840	1	None	None
2	RNU6-105P	ENSG00000200779	ENST00000363909	snRNA	KNOWN	None	47068	None	None	71606885	71606988	-1	None	None
11	None	ENSG00000254660	ENST00000532561	processed_pseudogene	KNOWN	None	None	None	None	56277049	56277671	1	None	None
14	None	ENSG00000242888	ENST00000486273	processed_pseudogene	KNOWN	None	None	None	None	100440673	100441486	-1	None	None
17	None	ENSG00000267046	ENST00000589887	processed_pseudogene	KNOWN	None	None	None	None	33817028	33818257	1	None	None
1	None	ENSG00000216037	ENST00000401218	miRNA	NOVEL	None	None	None	None	95970532	95970619	-1	None	None
7	TMEM209	ENSG00000146842	ENST00000397622	protein_coding	KNOWN	CCDS47712	21898	1686	561	129804555	129845338	-1	None	FLJ14803, NET31
7	TMEM209	ENSG00000146842	ENST00000462753	protein_coding	KNOWN	None	21898	1683	560	129805918	129845188	-1	None	FLJ14803, NET31
7	TMEM209	ENSG00000146842	ENST00000473456	protein_coding	KNOWN	None	21898	1560	519	129805918	129845243	-1	None	FLJ14803, NET31
7	TMEM209	ENSG00000146842	ENST00000479804	retained_intron	KNOWN	None	21898	None	None	129815016	129818301	-1	None	FLJ14803, NET31
7	TMEM209	ENSG00000146842	ENST00000467599	retained_intron	KNOWN	None	21898	None	None	129818299	129821897	-1	None	FLJ14803, NET31
7	TMEM209	ENSG00000146842	ENST00000471985	protein_coding	PUTATIVE	None	21898	569	188	129841823	129847610	-1	None	FLJ14803, NET31
7	TMEM209	ENSG00000146842	ENST00000471077	protein_coding	KNOWN	None	21898	169	55	129843655	129845222	-1	None	FLJ14803, NET31
7	TMEM209	ENSG00000146842	ENST00000336804	protein_coding	KNOWN	None	21898	1557	518	129805927	129845271	-1	None	FLJ14803, NET31
2	None	ENSG00000233971	ENST00000451209	processed_pseudogene	KNOWN	None	None	None	None	72211312	72211564	-1	None	None
2	None	ENSG00000235325	ENST00000458090	processed_pseudogene	KNOWN	None	None	None	None	108537219	108537704	-1	None	None
1	None	ENSG00000252731	ENST00000516922	miRNA	NOVEL	None	None	None	None	204622230	204622314	-1	None	None
1	FCF1P6	ENSG00000225671	ENST00000456841	processed_pseudogene	KNOWN	None	44618	None	None	50871102	50871696	-1	None	None
15	None	ENSG00000259601	ENST00000558620	processed_pseudogene	KNOWN	None	None	None	None	60163710	60165694	-1	None	None
7	PEG10	ENSG00000242265	ENST00000482108	protein_coding	KNOWN	CCDS55126	14005	978	325	94285637	94299007	1	None	KIAA1051, HB-1, MEF3L, RGAG3, Mar2, Mart2
7	PEG10	ENSG00000242265	ENST00000488574	protein_coding	KNOWN	CCDS55126	14005	978	325	94285682	94295010	1	None	KIAA1051, HB-1, MEF3L, RGAG3, Mar2, Mart2
7	PEG10	ENSG00000242265	ENST00000493935	processed_transcript	KNOWN	None	14005	None	None	94285682	94298949	1	None	KIAA1051, HB-1, MEF3L, RGAG3, Mar2, Mart2
7	PEG10	ENSG00000242265	ENST00000465184	processed_transcript	KNOWN	None	14005	None	None	94294047	94298492	1	None	KIAA1051, HB-1, MEF3L, RGAG3, Mar2, Mart2
21	None	ENSG00000207503	ENST00000384772	snoRNA	NOVEL	None	None	None	None	42911133	42911253	1	None	None
1	None	ENSG00000228153	ENST00000435021	lincRNA	KNOWN	None	None	None	None	204633000	204633741	1	None	None
17	None	ENSG00000267369	ENST00000587542	processed_pseudogene	KNOWN	None	None	None	None	33825237	33826194	1	None	None
2	None	ENSG00000261338	ENST00000562328	sense_overlapping	KNOWN	None	None	None	None	219120042	219122087	1	None	None
12	None	ENSG00000256725	ENST00000544034	lincRNA	KNOWN	None	None	None	None	131112861	131200826	-1	None	None
12	None	ENSG00000256725	ENST00000541840	lincRNA	KNOWN	None	None	None	None	131112863	131118406	-1	None	None
11	None	ENSG00000256723	ENST00000544832	processed_pseudogene	KNOWN	None	None	None	None	73706017	73707196	-1	None	None
1	None	ENSG00000228971	ENST00000440116	lincRNA	KNOWN	None	None	None	None	95975672	95980285	1	None	None
1	None	ENSG00000228971	ENST00000456933	lincRNA	KNOWN	None	None	None	None	95975723	96247898	1	None	None
1	None	ENSG00000228971	ENST00000411798	lincRNA	KNOWN	None	None	None	None	95975896	95981020	1	None	None
1	None	ENSG00000271782	ENST00000607815	lincRNA	KNOWN	None	None	None	None	50902700	50902978	-1	None	None
21	None	ENSG00000232806	ENST00000415820	lincRNA	KNOWN	None	None	None	None	42931052	42934885	-1	None	None
11	OR5M6P	ENSG00000254603	ENST00000530227	unprocessed_pseudogene	KNOWN	None	14814	None	None	56279711	56280647	-1	None	None
2	None	ENSG00000231221	ENST00000424355	lincRNA	KNOWN	None	None	None	None	108665656	108669211	-1	None	None
1	RNA5SP75	ENSG00000252650	ENST00000516841	rRNA	KNOWN	None	42852	None	None	204676448	204676558	-1	RN5S75	None
1	None	ENSG00000225767	ENST00000424664	antisense	KNOWN	None	None	None	None	50927141	50936822	1	None	None
X	None	ENSG00000207426	ENST00000384695	misc_RNA	NOVEL	None	None	None	None	95956506	95956618	-1	None	None
11	None	ENSG00000255188	ENST00000529684	processed_pseudogene	KNOWN	None	None	None	None	129657959	129658085	-1	None	None
17	None	ENSG00000267074	ENST00000592908	sense_intronic	KNOWN	None	None	None	None	33826709	33837289	-1	None	None
1	None	ENSG00000202140	ENST00000365270	misc_RNA	KNOWN	None	None	None	None	50965430	50965529	-1	None	None
21	None	ENSG00000223400	ENST00000418874	lincRNA	KNOWN	None	None	None	None	42948062	42953246	-1	None	None
1	None	ENSG00000251861	ENST00000516052	snoRNA	NOVEL	None	None	None	None	204697119	204697234	1	None	None
Y	TSPY18P	ENSG00000231874	ENST00000441642	unprocessed_pseudogene	KNOWN	None	37725	None	None	9707273	9708390	1	None	None
17	MED13	ENSG00000108510	ENST00000397786	protein_coding	KNOWN	CCDS42366	22474	6525	2174	60019966	60142643	-1	THRAP1	KIAA0593, TRAP240
17	MED13	ENSG00000108510	ENST00000582786	retained_intron	KNOWN	None	22474	None	None	60032672	60033124	-1	THRAP1	KIAA0593, TRAP240
17	MED13	ENSG00000108510	ENST00000583958	protein_coding	PUTATIVE	None	22474	982	326	60087788	60107361	-1	THRAP1	KIAA0593, TRAP240
17	MED13	ENSG00000108510	ENST00000581994	retained_intron	KNOWN	None	22474	None	None	60106638	60108850	-1	THRAP1	KIAA0593, TRAP240
17	MED13	ENSG00000108510	ENST00000578132	retained_intron	KNOWN	None	22474	None	None	60106659	60111186	-1	THRAP1	KIAA0593, TRAP240
17	MED13	ENSG00000108510	ENST00000580896	processed_transcript	KNOWN	None	22474	None	None	60108874	60109834	-1	THRAP1	KIAA0593, TRAP240
HSCHR12_2_CTG2	None	ENSG00000271759	ENST00000570814	processed_transcript	KNOWN	None	None	None	None	11047767	11049551	-1	None	None
1	RNU6-1026P	ENSG00000207194	ENST00000384465	snRNA	KNOWN	None	47989	None	None	51048076	51048183	1	None	None
3	SH3BP5-AS1	ENSG00000224660	ENST00000420195	antisense	KNOWN	None	44501	None	None	15295691	15306000	1	None	None
3	SH3BP5-AS1	ENSG00000224660	ENST00000413977	antisense	KNOWN	None	44501	None	None	15298958	15300460	1	None	None
3	SH3BP5-AS1	ENSG00000224660	ENST00000436602	antisense	KNOWN	None	44501	None	None	15298962	15300563	1	None	None
2	None	ENSG00000237281	ENST00000411433	antisense	KNOWN	None	None	None	None	219191612	219222689	-1	None	None
2	None	ENSG00000229890	ENST00000440793	processed_pseudogene	KNOWN	None	None	None	None	108715566	108715948	1	None	None
2	None	ENSG00000228568	ENST00000412637	processed_pseudogene	KNOWN	None	None	None	None	72515914	72516239	1	None	None
1	None	ENSG00000252946	ENST00000517137	snoRNA	NOVEL	None	None	None	None	204873875	204873946	-1	None	None
21	None	ENSG00000252771	ENST00000516962	snoRNA	NOVEL	None	None	None	None	43024746	43024843	-1	None	None
1	RNU6-1253P	ENSG00000252825	ENST00000517016	snRNA	KNOWN	None	48216	None	None	51215968	51216025	1	None	None
HSCHR12_2_CTG2	TAS2R15	ENSG00000272117	ENST00000572528	processed_pseudogene	KNOWN	None	19106	None	None	11117024	11117951	-1	None	T2R15, PS8
17	TBC1D3P1	ENSG00000238283	ENST00000590047	unprocessed_pseudogene	KNOWN	None	27445	None	None	58085798	58094859	-1	None	None
11	OR5M5P	ENSG00000185701	ENST00000529703	unprocessed_pseudogene	KNOWN	None	14810	None	None	56294044	56294979	-1	None	None
21	LINC00111	ENSG00000227702	ENST00000413718	lincRNA	KNOWN	None	1262	None	None	43099341	43117496	1	C21orf21, NCRNA00111	None
20	CST8	ENSG00000125815	ENST00000449810	protein_coding	KNOWN	None	2480	404	133	23471738	23476526	1	None	CRES, CTES5
20	CST8	ENSG00000125815	ENST00000246012	protein_coding	KNOWN	CCDS13156	2480	429	142	23471766	23476655	1	None	CRES, CTES5
14	MOAP1	ENSG00000165943	ENST00000298894	protein_coding	KNOWN	CCDS9908	16658	1056	351	93648541	93651273	-1	None	MAP-1, PNMA4
14	MOAP1	ENSG00000165943	ENST00000556883	protein_coding	KNOWN	CCDS9908	16658	1056	351	93648544	93651268	-1	None	MAP-1, PNMA4
1	None	ENSG00000229657	ENST00000452580	processed_pseudogene	KNOWN	None	None	None	None	204915736	204916297	1	None	None
1	PHBP12	ENSG00000230585	ENST00000453979	processed_pseudogene	KNOWN	None	39291	None	None	51246012	51246822	1	None	None
2	GCC2	ENSG00000135968	ENST00000309863	protein_coding	KNOWN	CCDS33268	23218	5055	1684	109065017	109125854	1	None	GCC185, KIAA0336
2	GCC2	ENSG00000135968	ENST00000467566	retained_intron	KNOWN	None	23218	None	None	109065647	109066475	1	None	GCC185, KIAA0336
2	GCC2	ENSG00000135968	ENST00000478207	processed_transcript	KNOWN	None	23218	None	None	109065679	109085912	1	None	GCC185, KIAA0336
2	GCC2	ENSG00000135968	ENST00000409821	protein_coding	PUTATIVE	None	23218	742	246	109065687	109086518	1	None	GCC185, KIAA0336
2	GCC2	ENSG00000135968	ENST00000482325	nonsense_mediated_decay	KNOWN	None	23218	138	45	109065696	109125853	1	None	GCC185, KIAA0336
2	GCC2	ENSG00000135968	ENST00000409896	protein_coding	NOVEL	None	23218	2749	915	109066340	109089355	1	None	GCC185, KIAA0336
2	GCC2	ENSG00000135968	ENST00000485546	processed_transcript	KNOWN	None	23218	None	None	109085756	109086683	1	None	GCC185, KIAA0336
2	GCC2	ENSG00000135968	ENST00000462897	protein_coding	PUTATIVE	None	23218	441	146	109088270	109091850	1	None	GCC185, KIAA0336
2	GCC2	ENSG00000135968	ENST00000492785	protein_coding	PUTATIVE	None	23218	383	126	109088301	109089784	1	None	GCC185, KIAA0336
2	GCC2	ENSG00000135968	ENST00000447558	nonsense_mediated_decay	KNOWN	None	23218	263	86	109092018	109099612	1	None	GCC185, KIAA0336
2	GCC2	ENSG00000135968	ENST00000393321	nonsense_mediated_decay	KNOWN	None	23218	744	247	109098153	109106591	1	None	GCC185, KIAA0336
2	GCC2	ENSG00000135968	ENST00000481729	retained_intron	KNOWN	None	23218	None	None	109099580	109101195	1	None	GCC185, KIAA0336
2	GCC2	ENSG00000135968	ENST00000480863	retained_intron	KNOWN	None	23218	None	None	109109757	109125871	1	None	GCC185, KIAA0336
2	None	ENSG00000238736	ENST00000458869	snoRNA	NOVEL	None	None	None	None	219193303	219193403	1	None	None
2	None	ENSG00000225328	ENST00000445083	antisense	KNOWN	None	None	None	None	108784204	108834297	-1	None	None
11	None	ENSG00000254794	ENST00000533307	processed_pseudogene	KNOWN	None	None	None	None	87628840	87628891	-1	None	None
2	None	ENSG00000230580	ENST00000414167	processed_pseudogene	KNOWN	None	None	None	None	219218798	219219295	1	None	None
2	KCNJ13	ENSG00000115474	ENST00000233826	protein_coding	KNOWN	CCDS2498	6259	1083	360	233631174	233641278	-1	None	Kir7.1, Kir1.4
2	KCNJ13	ENSG00000115474	ENST00000409779	protein_coding	PUTATIVE	CCDS54437	6259	285	94	233632786	233641275	-1	None	Kir7.1, Kir1.4
2	KCNJ13	ENSG00000115474	ENST00000410029	protein_coding	KNOWN	CCDS2498	6259	1083	360	233632850	233636115	-1	None	Kir7.1, Kir1.4
2	KCNJ13	ENSG00000115474	ENST00000444142	protein_coding	PUTATIVE	None	6259	412	136	233633026	233635974	-1	None	Kir7.1, Kir1.4
2	KCNJ13	ENSG00000115474	ENST00000438786	protein_coding	PUTATIVE	None	6259	553	183	233633191	233641265	-1	None	Kir7.1, Kir1.4
3	KLHL6-AS1	ENSG00000242522	ENST00000491676	antisense	KNOWN	None	40850	None	None	183266523	183270114	1	None	None
13	None	ENSG00000251901	ENST00000516092	snoRNA	NOVEL	None	None	None	None	96366931	96367032	-1	None	None
HSCHR12_2_CTG2	TAS2R63P	ENSG00000263158	ENST00000571604	processed_pseudogene	KNOWN	None	20641	None	None	11200931	11201855	-1	None	None
11	OR5M13P	ENSG00000166693	ENST00000433944	unprocessed_pseudogene	KNOWN	None	15293	None	None	56364902	56365838	-1	None	None
12	OR6C64P	ENSG00000234670	ENST00000419708	unitary_pseudogene	KNOWN	None	31294	None	None	55916377	55917201	1	None	None
2	None	ENSG00000236877	ENST00000444575	processed_pseudogene	KNOWN	None	None	None	None	108842471	108842787	-1	None	None
11	NAV2-AS1	ENSG00000254894	ENST00000526642	antisense	KNOWN	None	40744	None	None	20141230	20142178	-1	None	None
17	PIK3R6	ENSG00000174083	ENST00000452122	nonsense_mediated_decay	KNOWN	None	27101	303	100	8706041	8770994	-1	C17orf38	FLJ34500, HsT41028, p87PIKAP
17	PIK3R6	ENSG00000174083	ENST00000583984	nonsense_mediated_decay	KNOWN	None	27101	303	100	8706055	8770977	-1	C17orf38	FLJ34500, HsT41028, p87PIKAP
17	PIK3R6	ENSG00000174083	ENST00000434064	processed_transcript	KNOWN	None	27101	None	None	8706591	8753111	-1	C17orf38	FLJ34500, HsT41028, p87PIKAP
17	PIK3R6	ENSG00000174083	ENST00000311434	protein_coding	KNOWN	None	27101	2262	753	8706055	8770994	-1	C17orf38	FLJ34500, HsT41028, p87PIKAP
13	HMGN1P24	ENSG00000226977	ENST00000412282	processed_pseudogene	KNOWN	None	39368	None	None	96461564	96461861	-1	None	None
2	None	ENSG00000225062	ENST00000441749	antisense	KNOWN	None	None	None	None	219231388	219232558	-1	None	None
2	None	ENSG00000225062	ENST00000425481	retained_intron	KNOWN	None	None	None	None	219231389	219232045	-1	None	None
2	None	ENSG00000227597	ENST00000447560	processed_pseudogene	KNOWN	None	None	None	None	108893268	108894398	1	None	None
3	RFKP2	ENSG00000239439	ENST00000464555	processed_pseudogene	KNOWN	None	39182	None	None	111749778	111750496	-1	None	None
HSCHR6_MHC_QBL	None	ENSG00000226687	ENST00000437693	processed_transcript	KNOWN	None	None	None	None	29497090	29501238	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000226687	ENST00000455495	processed_transcript	KNOWN	None	None	None	None	29497146	29499827	1	None	None
HSCHR12_2_CTG2	TAS2R64P	ENSG00000263083	ENST00000574573	processed_transcript	KNOWN	None	20642	None	None	11229368	11231770	-1	None	T2R64, T2R64P
HSCHR12_2_CTG2	TAS2R64P	ENSG00000263083	ENST00000573900	transcribed_processed_pseudogene	KNOWN	None	20642	None	None	11229915	11230841	-1	None	T2R64, T2R64P
21	LINC00479	ENSG00000236384	ENST00000412102	lincRNA	KNOWN	None	19727	None	None	43131680	43135935	-1	C21orf129	PRED76, FLJ32835
21	LINC00479	ENSG00000236384	ENST00000457881	lincRNA	KNOWN	None	19727	None	None	43132317	43134215	-1	C21orf129	PRED76, FLJ32835
21	LINC00479	ENSG00000236384	ENST00000586552	lincRNA	KNOWN	None	19727	None	None	43133016	43135913	-1	C21orf129	PRED76, FLJ32835
21	LINC00479	ENSG00000236384	ENST00000589300	lincRNA	KNOWN	None	19727	None	None	43133016	43135913	-1	C21orf129	PRED76, FLJ32835
7	RN7SL535P	ENSG00000239419	ENST00000479087	misc_RNA	KNOWN	None	46551	None	None	142987708	142988004	1	None	None
13	RN7SL164P	ENSG00000242614	ENST00000482613	misc_RNA	KNOWN	None	46180	None	None	96821799	96822099	1	None	None
17	None	ENSG00000263422	ENST00000581326	miRNA	KNOWN	None	None	None	None	58119722	58119803	-1	None	None
9	HIATL1	ENSG00000148110	ENST00000375344	protein_coding	KNOWN	CCDS6710	23376	1521	506	97136833	97223324	1	None	FLJ14753
9	HIATL1	ENSG00000148110	ENST00000428393	protein_coding	KNOWN	None	23376	936	311	97177491	97221803	1	None	FLJ14753
11	None	ENSG00000255516	ENST00000532849	lincRNA	KNOWN	None	None	None	None	87783274	87795278	1	None	None
1	None	ENSG00000251696	ENST00000515887	miRNA	NOVEL	None	None	None	None	205031380	205031470	1	None	None
1	SH3BP5L	ENSG00000175137	ENST00000484202	processed_transcript	KNOWN	None	29360	None	None	249104648	249108372	-1	None	KIAA1720
1	SH3BP5L	ENSG00000175137	ENST00000366472	protein_coding	KNOWN	CCDS31126	29360	1182	393	249104650	249120832	-1	None	KIAA1720
1	SH3BP5L	ENSG00000175137	ENST00000475978	processed_transcript	KNOWN	None	29360	None	None	249104651	249119834	-1	None	KIAA1720
1	SH3BP5L	ENSG00000175137	ENST00000494837	processed_transcript	KNOWN	None	29360	None	None	249110229	249111045	-1	None	KIAA1720
1	SH3BP5L	ENSG00000175137	ENST00000411742	protein_coding	KNOWN	None	29360	1086	361	249105899	249111272	-1	None	KIAA1720
8	SFTPC	ENSG00000168484	ENST00000522880	processed_transcript	PUTATIVE	None	10802	None	None	22014426	22017224	1	SFTP2	SP-C, PSP-C, SMDP2, BRICD6
8	SFTPC	ENSG00000168484	ENST00000524350	processed_transcript	PUTATIVE	None	10802	None	None	22016126	22017312	1	SFTP2	SP-C, PSP-C, SMDP2, BRICD6
8	SFTPC	ENSG00000168484	ENST00000524318	processed_transcript	KNOWN	None	10802	None	None	22016237	22020245	1	SFTP2	SP-C, PSP-C, SMDP2, BRICD6
8	SFTPC	ENSG00000168484	ENST00000318561	protein_coding	KNOWN	CCDS43722	10802	594	197	22019168	22021989	1	SFTP2	SP-C, PSP-C, SMDP2, BRICD6
8	SFTPC	ENSG00000168484	ENST00000521315	protein_coding	KNOWN	CCDS55209	10802	576	191	22019310	22021992	1	SFTP2	SP-C, PSP-C, SMDP2, BRICD6
8	SFTPC	ENSG00000168484	ENST00000437090	protein_coding	PUTATIVE	None	10802	486	161	22019311	22021589	1	SFTP2	SP-C, PSP-C, SMDP2, BRICD6
8	SFTPC	ENSG00000168484	ENST00000520605	protein_coding	PUTATIVE	None	10802	468	155	22019313	22021992	1	SFTP2	SP-C, PSP-C, SMDP2, BRICD6
8	SFTPC	ENSG00000168484	ENST00000522109	protein_coding	PUTATIVE	None	10802	453	150	22019318	22021521	1	SFTP2	SP-C, PSP-C, SMDP2, BRICD6
8	SFTPC	ENSG00000168484	ENST00000524255	protein_coding	PUTATIVE	None	10802	435	144	22019320	22021992	1	SFTP2	SP-C, PSP-C, SMDP2, BRICD6
8	SFTPC	ENSG00000168484	ENST00000523296	protein_coding	PUTATIVE	None	10802	374	123	22019321	22021511	1	SFTP2	SP-C, PSP-C, SMDP2, BRICD6
8	SFTPC	ENSG00000168484	ENST00000518615	protein_coding	PUTATIVE	None	10802	357	118	22019322	22020748	1	SFTP2	SP-C, PSP-C, SMDP2, BRICD6
8	SFTPC	ENSG00000168484	ENST00000522630	retained_intron	KNOWN	None	10802	None	None	22020592	22021052	1	SFTP2	SP-C, PSP-C, SMDP2, BRICD6
15	None	ENSG00000252813	ENST00000517004	miRNA	NOVEL	None	None	None	None	71767826	71767901	1	None	None
13	AMMECR1LP1	ENSG00000233273	ENST00000415152	processed_pseudogene	KNOWN	None	39809	None	None	97225913	97226753	1	None	None
11	None	ENSG00000255291	ENST00000525121	processed_pseudogene	KNOWN	None	None	None	None	20595732	20596496	1	None	None
17	None	ENSG00000266701	ENST00000583144	miRNA	KNOWN	None	None	None	None	58119907	58119988	-1	None	None
2	PLGLB1	ENSG00000183281	ENST00000409310	protein_coding	KNOWN	CCDS33238	9072	291	96	87229682	87248975	-1	PLGL	PRP-B
2	PLGLB1	ENSG00000183281	ENST00000409801	nonsense_mediated_decay	KNOWN	CCDS33238	9072	291	96	87238253	87248975	-1	PLGL	PRP-B
2	PLGLB1	ENSG00000183281	ENST00000409795	nonsense_mediated_decay	KNOWN	None	9072	270	89	87238295	87248975	-1	PLGL	PRP-B
2	PLGLB1	ENSG00000183281	ENST00000478636	processed_transcript	KNOWN	None	9072	None	None	87239425	87245831	-1	PLGL	PRP-B
2	PLGLB1	ENSG00000183281	ENST00000355705	protein_coding	KNOWN	CCDS33238	9072	291	96	87239435	87248975	-1	PLGL	PRP-B
2	PLGLB1	ENSG00000183281	ENST00000494194	processed_transcript	KNOWN	None	9072	None	None	87239748	87245108	-1	PLGL	PRP-B
2	PLGLB1	ENSG00000183281	ENST00000467745	processed_transcript	KNOWN	None	9072	None	None	87242775	87245108	-1	PLGL	PRP-B
11	OR5AM1P	ENSG00000255172	ENST00000532136	unprocessed_pseudogene	KNOWN	None	15254	None	None	56387255	56388286	-1	None	None
2	RNU2-39P	ENSG00000222536	ENST00000410604	snRNA	KNOWN	None	48532	None	None	72948935	72949132	1	None	None
1	None	ENSG00000271580	ENST00000603227	processed_pseudogene	KNOWN	None	None	None	None	205060291	205061074	1	None	None
17	None	ENSG00000265638	ENST00000582298	miRNA	NOVEL	None	None	None	None	58120055	58120133	-1	None	None
14	None	ENSG00000258736	ENST00000553433	lincRNA	KNOWN	None	None	None	None	105119885	105121904	-1	None	None
14	None	ENSG00000258736	ENST00000554954	lincRNA	KNOWN	None	None	None	None	105119936	105122124	-1	None	None
1	MRPS6P2	ENSG00000237130	ENST00000381143	processed_pseudogene	KNOWN	None	29781	None	None	51312140	51312509	1	None	None
11	LINC00167	ENSG00000233220	ENST00000530583	lincRNA	KNOWN	None	30468	None	None	129872833	129874251	1	C11orf37, NCRNA00167	FLJ31394
2	None	ENSG00000212378	ENST00000391076	snoRNA	NOVEL	None	None	None	None	72987663	72987731	1	None	None
2	None	ENSG00000261209	ENST00000562517	unprocessed_pseudogene	KNOWN	None	None	None	None	108934181	108935067	1	None	None
17	None	ENSG00000263820	ENST00000577558	miRNA	NOVEL	None	None	None	None	58120166	58120243	-1	None	None
8	None	ENSG00000254370	ENST00000522589	sense_intronic	KNOWN	None	None	None	None	28273041	28277572	-1	None	None
5	CD74	ENSG00000019582	ENST00000377795	protein_coding	KNOWN	CCDS34276	1697	483	160	149781200	149792332	-1	DHLAG	None
5	CD74	ENSG00000019582	ENST00000353334	protein_coding	KNOWN	CCDS47308	1697	699	232	149781233	149792492	-1	DHLAG	None
5	CD74	ENSG00000019582	ENST00000518797	protein_coding	NOVEL	None	1697	949	315	149781262	149792295	-1	DHLAG	None
5	CD74	ENSG00000019582	ENST00000524315	protein_coding	PUTATIVE	None	1697	459	152	149781427	149792314	-1	DHLAG	None
5	CD74	ENSG00000019582	ENST00000009530	protein_coding	KNOWN	CCDS47309	1697	891	296	149781715	149792314	-1	DHLAG	None
5	CD74	ENSG00000019582	ENST00000523208	nonsense_mediated_decay	KNOWN	None	1697	437	144	149781733	149792302	-1	DHLAG	None
5	CD74	ENSG00000019582	ENST00000517752	retained_intron	KNOWN	None	1697	None	None	149784049	149792309	-1	DHLAG	None
5	CD74	ENSG00000019582	ENST00000522246	nonsense_mediated_decay	KNOWN	None	1697	369	122	149784227	149792314	-1	DHLAG	None
5	CD74	ENSG00000019582	ENST00000523813	nonsense_mediated_decay	KNOWN	None	1697	159	52	149784879	149792314	-1	DHLAG	None
5	CD74	ENSG00000019582	ENST00000523836	retained_intron	KNOWN	None	1697	None	None	149785541	149792314	-1	DHLAG	None
5	CD74	ENSG00000019582	ENST00000517791	retained_intron	KNOWN	None	1697	None	None	149785602	149792475	-1	DHLAG	None
5	CD74	ENSG00000019582	ENST00000522153	retained_intron	KNOWN	None	1697	None	None	149786268	149792314	-1	DHLAG	None
2	RNU6-111P	ENSG00000252988	ENST00000517179	snRNA	KNOWN	None	47074	None	None	73525811	73525915	1	None	None
1	None	ENSG00000236108	ENST00000428506	processed_pseudogene	KNOWN	None	None	None	None	205103774	205104078	1	None	None
7	RN7SL481P	ENSG00000240322	ENST00000477764	misc_RNA	KNOWN	None	46497	None	None	142995609	142995905	1	None	None
GL000201.1	None	ENSG00000215616	ENST00000400678	protein_coding	KNOWN	None	None	1164	387	3905	22432	1	None	None
13	HSP90AB6P	ENSG00000235137	ENST00000426420	processed_pseudogene	KNOWN	None	32540	None	None	97536096	97538075	-1	None	None
13	HSP90AB6P	ENSG00000235137	ENST00000442053	processed_pseudogene	KNOWN	None	32540	None	None	97536096	97542067	-1	None	None
1	MIR4421	ENSG00000265538	ENST00000578133	miRNA	KNOWN	None	41879	None	None	51525509	51525577	1	None	hsa-mir-4421
17	MIR4737	ENSG00000264049	ENST00000583979	miRNA	KNOWN	None	41669	None	None	58120386	58120466	-1	None	hsa-mir-4737
3	NUP210P3	ENSG00000248916	ENST00000506964	unprocessed_pseudogene	KNOWN	None	42712	None	None	129041889	129044269	-1	None	None
12	None	ENSG00000256343	ENST00000443685	lincRNA	KNOWN	None	None	None	None	131142718	131145196	1	None	None
12	None	ENSG00000256343	ENST00000591364	lincRNA	KNOWN	None	None	None	None	131143313	131153667	1	None	None
12	None	ENSG00000256343	ENST00000585405	lincRNA	KNOWN	None	None	None	None	131152014	131153778	1	None	None
2	MIR26B	ENSG00000199121	ENST00000362251	miRNA	KNOWN	None	31612	None	None	219267369	219267445	1	MIRN26B	hsa-mir-26b
1	None	ENSG00000271252	ENST00000603401	lincRNA	KNOWN	None	None	None	None	96208652	96225026	1	None	None
2	None	ENSG00000214484	ENST00000437188	processed_pseudogene	KNOWN	None	None	None	None	73597147	73598020	1	None	None
19	A1BG	ENSG00000121410	ENST00000596924	processed_transcript	KNOWN	None	5	None	None	58856544	58859000	-1	None	None
19	A1BG	ENSG00000121410	ENST00000263100	protein_coding	KNOWN	CCDS12976	5	1488	495	58858216	58864865	-1	None	None
19	A1BG	ENSG00000121410	ENST00000595014	retained_intron	KNOWN	None	5	None	None	58858224	58864857	-1	None	None
19	A1BG	ENSG00000121410	ENST00000598345	retained_intron	KNOWN	None	5	None	None	58858226	58859023	-1	None	None
19	A1BG	ENSG00000121410	ENST00000600966	protein_coding	NOVEL	None	5	917	304	58861960	58864495	-1	None	None
HSCHR17_1	None	ENSG00000258143	ENST00000536542	protein_coding	NOVEL	None	None	459	152	44624078	44624636	1	None	None
3	MIR567	ENSG00000207940	ENST00000385205	miRNA	KNOWN	None	32823	None	None	111831648	111831745	1	MIRN567	hsa-mir-567
7	HINT1P1	ENSG00000231531	ENST00000464866	processed_pseudogene	KNOWN	None	18467	None	None	143009777	143010154	-1	None	HINTP1
7	HINT1P1	ENSG00000231531	ENST00000602049	processed_pseudogene	KNOWN	None	18467	None	None	143009774	143010154	-1	None	HINTP1
1	None	ENSG00000200262	ENST00000363392	misc_RNA	NOVEL	None	None	None	None	51572894	51573003	1	None	None
14	None	ENSG00000258592	ENST00000554160	lincRNA	KNOWN	None	None	None	None	57532978	57535260	-1	None	None
14	None	ENSG00000258592	ENST00000551408	lincRNA	KNOWN	None	None	None	None	57533726	57579378	-1	None	None
1	None	ENSG00000213041	ENST00000448403	processed_pseudogene	KNOWN	None	None	None	None	205171319	205171870	1	None	None
17	None	ENSG00000267526	ENST00000585345	processed_pseudogene	KNOWN	None	None	None	None	58140365	58142143	-1	None	None
1	None	ENSG00000221798	ENST00000408871	miRNA	NOVEL	None	None	None	None	96352096	96352182	1	None	None
2	RN7SKP38	ENSG00000222714	ENST00000410782	misc_RNA	KNOWN	None	45762	None	None	219365452	219365760	-1	None	None
2	MPV17	ENSG00000115204	ENST00000435114	protein_coding	PUTATIVE	None	7224	203	66	27532360	27535320	-1	None	SYM1
2	MPV17	ENSG00000115204	ENST00000233545	protein_coding	KNOWN	CCDS1748	7224	531	176	27532360	27545431	-1	None	SYM1
2	MPV17	ENSG00000115204	ENST00000402310	protein_coding	NOVEL	None	7224	513	170	27532360	27545921	-1	None	SYM1
2	MPV17	ENSG00000115204	ENST00000380044	protein_coding	KNOWN	CCDS1748	7224	531	176	27532362	27545969	-1	None	SYM1
2	MPV17	ENSG00000115204	ENST00000357186	protein_coding	NOVEL	None	7224	363	120	27532362	27548547	-1	None	SYM1
2	MPV17	ENSG00000115204	ENST00000402722	protein_coding	NOVEL	None	7224	300	99	27532398	27545948	-1	None	SYM1
2	MPV17	ENSG00000115204	ENST00000426513	nonsense_mediated_decay	KNOWN	None	7224	300	99	27532408	27545950	-1	None	SYM1
2	MPV17	ENSG00000115204	ENST00000405983	protein_coding	NOVEL	None	7224	576	191	27532514	27545930	-1	None	SYM1
2	MPV17	ENSG00000115204	ENST00000405076	protein_coding	NOVEL	None	7224	342	113	27532575	27545969	-1	None	SYM1
2	MPV17	ENSG00000115204	ENST00000430991	protein_coding	NOVEL	None	7224	365	120	27532663	27535976	-1	None	SYM1
2	MPV17	ENSG00000115204	ENST00000489478	retained_intron	KNOWN	None	7224	None	None	27532718	27545969	-1	None	SYM1
2	MPV17	ENSG00000115204	ENST00000415514	nonsense_mediated_decay	KNOWN	None	7224	240	79	27532772	27545930	-1	None	SYM1
2	MPV17	ENSG00000115204	ENST00000403262	protein_coding	NOVEL	None	7224	516	171	27534363	27545934	-1	None	SYM1
2	MPV17	ENSG00000115204	ENST00000495429	retained_intron	KNOWN	None	7224	None	None	27534798	27545939	-1	None	SYM1
2	MPV17	ENSG00000115204	ENST00000428910	protein_coding	KNOWN	None	7224	347	114	27534803	27545939	-1	None	SYM1
2	MPV17	ENSG00000115204	ENST00000475085	retained_intron	KNOWN	None	7224	None	None	27535015	27535853	-1	None	SYM1
2	MPV17	ENSG00000115204	ENST00000497981	retained_intron	KNOWN	None	7224	None	None	27535082	27545964	-1	None	SYM1
2	MPV17	ENSG00000115204	ENST00000492879	retained_intron	KNOWN	None	7224	None	None	27535116	27545929	-1	None	SYM1
2	MPV17	ENSG00000115204	ENST00000481575	retained_intron	KNOWN	None	7224	None	None	27535168	27536023	-1	None	SYM1
2	MPV17	ENSG00000115204	ENST00000399052	protein_coding	PUTATIVE	None	7224	333	110	27538583	27545964	-1	None	SYM1
2	MPV17	ENSG00000115204	ENST00000486898	retained_intron	KNOWN	None	7224	None	None	27539658	27545964	-1	None	SYM1
2	MPV17	ENSG00000115204	ENST00000494436	retained_intron	KNOWN	None	7224	None	None	27544826	27545944	-1	None	SYM1
11	None	ENSG00000256098	ENST00000537692	processed_pseudogene	KNOWN	None	None	None	None	73853196	73853403	1	None	None
1	CFL1P2	ENSG00000213478	ENST00000440986	processed_pseudogene	KNOWN	None	1878	None	None	51623460	51624143	-1	CFLL2, CFLP2	None
HSCHR6_MHC_QBL	GPR53P	ENSG00000224894	ENST00000418744	unprocessed_pseudogene	KNOWN	None	4509	None	None	29505444	29506234	-1	None	PsiGPR53, dJ271M21.8
1	RNU1-130P	ENSG00000200800	ENST00000363930	snRNA	KNOWN	None	48472	None	None	96691457	96691616	1	None	None
17	None	ENSG00000267416	ENST00000589740	lincRNA	KNOWN	None	None	None	None	58156670	58166056	1	None	None
2	RNU6-136P	ENSG00000207393	ENST00000384663	snRNA	KNOWN	None	47099	None	None	219453937	219454043	-1	None	None
Y	TSPY13P	ENSG00000187657	ENST00000338964	unprocessed_pseudogene	KNOWN	None	23905	None	None	9743204	9745748	-1	TSPYP3	None
HSCHR6_MHC_QBL	EGFL8	ENSG00000244444	ENST00000443511	protein_coding	KNOWN	None	13944	882	293	32089983	32093681	1	C6orf8	NG3
HSCHR6_MHC_QBL	EGFL8	ENSG00000244444	ENST00000418252	protein_coding	KNOWN	None	13944	882	293	32090005	32093681	1	C6orf8	NG3
HSCHR6_MHC_QBL	EGFL8	ENSG00000244444	ENST00000421005	protein_coding	KNOWN	None	13944	775	257	32090060	32093056	1	C6orf8	NG3
HSCHR6_MHC_QBL	EGFL8	ENSG00000244444	ENST00000460103	retained_intron	KNOWN	None	13944	None	None	32090636	32093681	1	C6orf8	NG3
HSCHR6_MHC_QBL	EGFL8	ENSG00000244444	ENST00000496180	retained_intron	KNOWN	None	13944	None	None	32091593	32092569	1	C6orf8	NG3
HSCHR6_MHC_QBL	EGFL8	ENSG00000244444	ENST00000479403	processed_transcript	KNOWN	None	13944	None	None	32092943	32093681	1	C6orf8	NG3
11	OR5M12P	ENSG00000197866	ENST00000423388	unprocessed_pseudogene	KNOWN	None	15292	None	None	56396408	56397336	1	None	None
11	OR5M12P	ENSG00000197866	ENST00000356519	pseudogene	KNOWN	None	15292	None	None	56396429	56397345	1	None	None
HSCHR6_MHC_QBL	OR2I1P	ENSG00000231973	ENST00000444590	unprocessed_pseudogene	KNOWN	None	8258	None	None	29520916	29521863	1	OR2I1, OR2I3P, OR2I4P, OR2I2	HS6M1-14
HSCHR17_1	None	ENSG00000257615	ENST00000548321	protein_coding	NOVEL	None	None	177	58	44705731	44708833	-1	None	None
1	None	ENSG00000231987	ENST00000435311	lincRNA	KNOWN	None	None	None	None	96719625	96839681	-1	None	None
3	None	ENSG00000243584	ENST00000474767	processed_pseudogene	KNOWN	None	None	None	None	183331408	183334530	1	None	None
2	None	ENSG00000252805	ENST00000516996	snoRNA	NOVEL	None	None	None	None	219484524	219484660	1	None	None
12	NR1H4	ENSG00000012504	ENST00000548884	protein_coding	KNOWN	CCDS9078	7967	1419	472	100867486	100958191	1	None	FXR, RIP14, HRR1, HRR-1
12	NR1H4	ENSG00000012504	ENST00000392986	protein_coding	KNOWN	CCDS55873	7967	1431	476	100867694	100957281	1	None	FXR, RIP14, HRR1, HRR-1
12	NR1H4	ENSG00000012504	ENST00000321046	nonsense_mediated_decay	KNOWN	None	7967	813	270	100867694	100957289	1	None	FXR, RIP14, HRR1, HRR-1
12	NR1H4	ENSG00000012504	ENST00000549996	protein_coding	NOVEL	CCDS55874	7967	1278	425	100867694	100957289	1	None	FXR, RIP14, HRR1, HRR-1
12	NR1H4	ENSG00000012504	ENST00000546380	protein_coding	PUTATIVE	None	7967	138	45	100867733	100899544	1	None	FXR, RIP14, HRR1, HRR-1
12	NR1H4	ENSG00000012504	ENST00000548621	nonsense_mediated_decay	KNOWN	None	7967	174	57	100887079	100899574	1	None	FXR, RIP14, HRR1, HRR-1
12	NR1H4	ENSG00000012504	ENST00000551379	protein_coding	KNOWN	CCDS55876	7967	1461	486	100897138	100957267	1	None	FXR, RIP14, HRR1, HRR-1
12	NR1H4	ENSG00000012504	ENST00000188403	protein_coding	KNOWN	CCDS55875	7967	1449	482	100897138	100957420	1	None	FXR, RIP14, HRR1, HRR-1
12	NR1H4	ENSG00000012504	ENST00000551184	protein_coding	PUTATIVE	None	7967	103	33	100897231	100899602	1	None	FXR, RIP14, HRR1, HRR-1
1	None	ENSG00000225063	ENST00000452599	antisense	KNOWN	None	None	None	None	205202949	205205995	-1	None	None
2	None	ENSG00000232625	ENST00000456160	processed_pseudogene	KNOWN	None	None	None	None	219706322	219706788	1	None	None
2	ALMS1-IT1	ENSG00000230002	ENST00000441587	sense_intronic	KNOWN	None	41305	None	None	73683891	73686611	1	None	None
11	None	ENSG00000254906	ENST00000528795	antisense	KNOWN	None	None	None	None	20691971	20692843	-1	None	None
HG7_PATCH	TRBV30	ENSG00000261262	ENST00000567307	TR_V_gene	KNOWN	None	12214	335	110	142573479	142574292	-1	None	TCRBV20S1A1N2, TCRBV30S1
1	None	ENSG00000239101	ENST00000459498	miRNA	NOVEL	None	None	None	None	51654135	51654223	1	None	None
6	CEP85L	ENSG00000111860	ENST00000368491	protein_coding	KNOWN	CCDS43498	21638	2418	805	118781935	118973054	-1	C6orf204	NY-BR-15, bA57K17.2
6	CEP85L	ENSG00000111860	ENST00000434604	protein_coding	NOVEL	None	21638	1730	575	118802966	119031238	-1	C6orf204	NY-BR-15, bA57K17.2
6	CEP85L	ENSG00000111860	ENST00000360290	protein_coding	PUTATIVE	None	21638	1185	394	118812594	118973683	-1	C6orf204	NY-BR-15, bA57K17.2
6	CEP85L	ENSG00000111860	ENST00000392500	protein_coding	NOVEL	None	21638	1500	499	118812594	119031231	-1	C6orf204	NY-BR-15, bA57K17.2
6	CEP85L	ENSG00000111860	ENST00000419517	protein_coding	KNOWN	CCDS5119	21638	1491	496	118812795	118973020	-1	C6orf204	NY-BR-15, bA57K17.2
6	CEP85L	ENSG00000111860	ENST00000483035	retained_intron	KNOWN	None	21638	None	None	118886198	118973710	-1	C6orf204	NY-BR-15, bA57K17.2
6	CEP85L	ENSG00000111860	ENST00000472713	processed_transcript	KNOWN	None	21638	None	None	118886722	118895231	-1	C6orf204	NY-BR-15, bA57K17.2
6	CEP85L	ENSG00000111860	ENST00000476150	processed_transcript	KNOWN	None	21638	None	None	118887218	118968268	-1	C6orf204	NY-BR-15, bA57K17.2
6	CEP85L	ENSG00000111860	ENST00000462101	processed_transcript	KNOWN	None	21638	None	None	118887255	118968268	-1	C6orf204	NY-BR-15, bA57K17.2
6	CEP85L	ENSG00000111860	ENST00000489276	processed_transcript	KNOWN	None	21638	None	None	118977926	118985684	-1	C6orf204	NY-BR-15, bA57K17.2
6	CEP85L	ENSG00000111860	ENST00000368488	protein_coding	KNOWN	CCDS55052	21638	2427	808	118781944	119031238	-1	C6orf204	NY-BR-15, bA57K17.2
14	TMEM251	ENSG00000153485	ENST00000283534	protein_coding	KNOWN	CCDS41980	20218	396	131	93651296	93653431	1	C14orf109	DKFZP564F1123
14	TMEM251	ENSG00000153485	ENST00000415050	protein_coding	KNOWN	CCDS45158	20218	510	169	93651358	93653434	1	C14orf109	DKFZP564F1123
3	None	ENSG00000261488	ENST00000563632	antisense	KNOWN	None	None	None	None	111852270	111854206	1	None	None
X	None	ENSG00000227779	ENST00000425910	processed_pseudogene	KNOWN	None	None	None	None	140474987	140475271	1	None	None
12	None	ENSG00000266016	ENST00000584743	miRNA	NOVEL	None	None	None	None	55948779	55948866	-1	None	None
HSCHR6_MHC_QBL	OR2H5P	ENSG00000235630	ENST00000417010	unprocessed_pseudogene	KNOWN	None	8256	None	None	29541620	29542547	1	None	OR2H5, hs6M1-13, HS271M21
1	SNRPGP10	ENSG00000235363	ENST00000432323	processed_pseudogene	KNOWN	None	39329	None	None	205320375	205320599	1	None	None
15	PPCDC	ENSG00000138621	ENST00000342932	protein_coding	KNOWN	CCDS10275	28107	615	204	75315896	75343067	1	None	MDS018, FLJ14585
15	PPCDC	ENSG00000138621	ENST00000568207	retained_intron	KNOWN	None	28107	None	None	75315927	75337509	1	None	MDS018, FLJ14585
15	PPCDC	ENSG00000138621	ENST00000564923	protein_coding	NOVEL	None	28107	390	129	75315928	75341831	1	None	MDS018, FLJ14585
15	PPCDC	ENSG00000138621	ENST00000569562	protein_coding	PUTATIVE	None	28107	193	63	75315931	75341523	1	None	MDS018, FLJ14585
15	PPCDC	ENSG00000138621	ENST00000562192	retained_intron	KNOWN	None	28107	None	None	75315941	75336067	1	None	MDS018, FLJ14585
15	PPCDC	ENSG00000138621	ENST00000568649	protein_coding	NOVEL	None	28107	486	161	75315946	75341922	1	None	MDS018, FLJ14585
15	PPCDC	ENSG00000138621	ENST00000562095	protein_coding	KNOWN	None	28107	187	61	75320513	75335833	1	None	MDS018, FLJ14585
15	PPCDC	ENSG00000138621	ENST00000567336	protein_coding	NOVEL	None	28107	519	172	75320590	75341879	1	None	MDS018, FLJ14585
15	PPCDC	ENSG00000138621	ENST00000563393	protein_coding	PUTATIVE	None	28107	246	81	75335616	75342079	1	None	MDS018, FLJ14585
15	PPCDC	ENSG00000138621	ENST00000564953	retained_intron	KNOWN	None	28107	None	None	75335627	75336964	1	None	MDS018, FLJ14585
15	PPCDC	ENSG00000138621	ENST00000563298	processed_transcript	KNOWN	None	28107	None	None	75342023	75409803	1	None	MDS018, FLJ14585
1	None	ENSG00000225923	ENST00000439625	processed_pseudogene	KNOWN	None	None	None	None	96856208	96856949	1	None	None
1	None	ENSG00000221492	ENST00000408565	miRNA	NOVEL	None	None	None	None	51656555	51656630	1	None	None
6	MYB	ENSG00000118513	ENST00000341911	protein_coding	KNOWN	CCDS47481	7545	2286	761	135502453	135540305	1	None	c-myb
6	MYB	ENSG00000118513	ENST00000367812	nonsense_mediated_decay	KNOWN	None	7545	2001	666	135502453	135540305	1	None	c-myb
6	MYB	ENSG00000118513	ENST00000463282	nonsense_mediated_decay	KNOWN	None	7545	1044	347	135502453	135540305	1	None	c-myb
6	MYB	ENSG00000118513	ENST00000525477	nonsense_mediated_decay	KNOWN	None	7545	1053	350	135502453	135540305	1	None	c-myb
6	MYB	ENSG00000118513	ENST00000533837	nonsense_mediated_decay	KNOWN	None	7545	1209	402	135502453	135540305	1	None	c-myb
6	MYB	ENSG00000118513	ENST00000339290	nonsense_mediated_decay	KNOWN	None	7545	1350	449	135502453	135540305	1	None	c-myb
6	MYB	ENSG00000118513	ENST00000442647	protein_coding	KNOWN	CCDS47482	7545	1914	637	135502453	135540309	1	None	c-myb
6	MYB	ENSG00000118513	ENST00000367814	protein_coding	KNOWN	CCDS5174	7545	1923	640	135502466	135540311	1	None	c-myb
6	MYB	ENSG00000118513	ENST00000527615	protein_coding	PUTATIVE	None	7545	1836	611	135502519	135524904	1	None	c-myb
6	MYB	ENSG00000118513	ENST00000420123	protein_coding	PUTATIVE	None	7545	900	299	135502559	135515680	1	None	c-myb
6	MYB	ENSG00000118513	ENST00000525369	protein_coding	NOVEL	CCDS55061	7545	1668	555	135502646	135540310	1	None	c-myb
6	MYB	ENSG00000118513	ENST00000528140	nonsense_mediated_decay	KNOWN	None	7545	1167	388	135502652	135539118	1	None	c-myb
6	MYB	ENSG00000118513	ENST00000528774	protein_coding	NOVEL	CCDS55058	7545	2277	758	135502652	135539118	1	None	c-myb
6	MYB	ENSG00000118513	ENST00000534121	protein_coding	NOVEL	CCDS55059	7545	2238	745	135502652	135539118	1	None	c-myb
6	MYB	ENSG00000118513	ENST00000525940	nonsense_mediated_decay	KNOWN	None	7545	1125	374	135502652	135539118	1	None	c-myb
6	MYB	ENSG00000118513	ENST00000528345	nonsense_mediated_decay	KNOWN	None	7545	981	326	135502652	135539118	1	None	c-myb
6	MYB	ENSG00000118513	ENST00000534044	protein_coding	NOVEL	CCDS55060	7545	1812	603	135502652	135539118	1	None	c-myb
6	MYB	ENSG00000118513	ENST00000533624	protein_coding	NOVEL	CCDS55062	7545	1818	605	135502652	135539118	1	None	c-myb
6	MYB	ENSG00000118513	ENST00000529262	nonsense_mediated_decay	KNOWN	None	7545	1158	385	135502652	135539118	1	None	c-myb
6	MYB	ENSG00000118513	ENST00000528015	nonsense_mediated_decay	KNOWN	None	7545	1269	422	135502652	135539118	1	None	c-myb
6	MYB	ENSG00000118513	ENST00000526187	nonsense_mediated_decay	KNOWN	None	7545	1260	419	135502652	135539118	1	None	c-myb
6	MYB	ENSG00000118513	ENST00000533384	nonsense_mediated_decay	KNOWN	None	7545	1209	402	135502652	135539118	1	None	c-myb
6	MYB	ENSG00000118513	ENST00000531634	nonsense_mediated_decay	KNOWN	None	7545	312	103	135502652	135539118	1	None	c-myb
6	MYB	ENSG00000118513	ENST00000531737	nonsense_mediated_decay	KNOWN	None	7545	1167	388	135502652	135539118	1	None	c-myb
6	MYB	ENSG00000118513	ENST00000525002	nonsense_mediated_decay	KNOWN	None	7545	1746	581	135502652	135539118	1	None	c-myb
6	MYB	ENSG00000118513	ENST00000524588	nonsense_mediated_decay	KNOWN	None	7545	240	79	135502652	135539118	1	None	c-myb
6	MYB	ENSG00000118513	ENST00000526565	nonsense_mediated_decay	KNOWN	None	7545	1044	347	135502652	135539118	1	None	c-myb
6	MYB	ENSG00000118513	ENST00000528343	nonsense_mediated_decay	KNOWN	None	7545	1746	581	135502652	135539144	1	None	c-myb
6	MYB	ENSG00000118513	ENST00000438901	nonsense_mediated_decay	KNOWN	None	7545	1665	554	135502652	135540305	1	None	c-myb
6	MYB	ENSG00000118513	ENST00000525514	nonsense_mediated_decay	KNOWN	None	7545	1053	350	135502652	135540305	1	None	c-myb
6	MYB	ENSG00000118513	ENST00000531519	nonsense_mediated_decay	KNOWN	None	7545	1095	364	135502652	135540305	1	None	c-myb
6	MYB	ENSG00000118513	ENST00000526320	nonsense_mediated_decay	KNOWN	None	7545	1125	374	135502652	135540305	1	None	c-myb
6	MYB	ENSG00000118513	ENST00000526889	nonsense_mediated_decay	KNOWN	None	7545	1341	446	135502652	135540305	1	None	c-myb
6	MYB	ENSG00000118513	ENST00000533808	nonsense_mediated_decay	KNOWN	None	7545	1209	402	135502652	135540305	1	None	c-myb
6	MYB	ENSG00000118513	ENST00000529586	nonsense_mediated_decay	KNOWN	None	7545	1053	350	135502652	135540305	1	None	c-myb
6	MYB	ENSG00000118513	ENST00000531845	processed_transcript	KNOWN	None	7545	None	None	135507015	135540309	1	None	c-myb
6	MYB	ENSG00000118513	ENST00000430686	protein_coding	PUTATIVE	None	7545	834	277	135507156	135515824	1	None	c-myb
6	MYB	ENSG00000118513	ENST00000534736	nonsense_mediated_decay	KNOWN	None	7545	261	86	135516886	135518461	1	None	c-myb
6	MYB	ENSG00000118513	ENST00000529297	processed_transcript	KNOWN	None	7545	None	None	135524355	135525088	1	None	c-myb
6	MYB	ENSG00000118513	ENST00000316528	protein_coding	KNOWN	None	7545	2181	726	135502453	135540309	1	None	c-myb
9	None	ENSG00000228617	ENST00000447350	processed_pseudogene	KNOWN	None	None	None	None	46117172	46117907	-1	None	None
2	SULT1C2P1	ENSG00000237223	ENST00000427208	processed_transcript	KNOWN	None	33545	None	None	108938694	108970255	1	None	SULT1C1P
2	SULT1C2P1	ENSG00000237223	ENST00000562418	transcribed_unprocessed_pseudogene	KNOWN	None	33545	None	None	108938809	108948813	1	None	SULT1C1P
11	None	ENSG00000255102	ENST00000531454	lincRNA	KNOWN	None	None	None	None	87794942	87831315	-1	None	None
1	None	ENSG00000203356	ENST00000366181	lincRNA	KNOWN	None	None	None	None	51660767	51700768	-1	None	None
9	None	ENSG00000226129	ENST00000423046	processed_pseudogene	KNOWN	None	None	None	None	46117312	46117651	1	None	None
2	None	ENSG00000221087	ENST00000408160	miRNA	NOVEL	None	None	None	None	73715706	73715787	-1	None	None
2	None	ENSG00000228135	ENST00000419511	antisense	KNOWN	None	None	None	None	219765533	219795358	-1	None	None
15	NR2E3	ENSG00000031544	ENST00000561604	processed_transcript	KNOWN	None	7974	None	None	72084977	72110600	1	None	PNR, rd7, RP37
15	NR2E3	ENSG00000031544	ENST00000567496	processed_transcript	KNOWN	None	7974	None	None	72102894	72110600	1	None	PNR, rd7, RP37
15	NR2E3	ENSG00000031544	ENST00000562839	processed_transcript	KNOWN	None	7974	None	None	72102932	72107270	1	None	PNR, rd7, RP37
15	NR2E3	ENSG00000031544	ENST00000562925	processed_transcript	KNOWN	None	7974	None	None	72103473	72110585	1	None	PNR, rd7, RP37
15	NR2E3	ENSG00000031544	ENST00000398840	processed_transcript	KNOWN	None	7974	None	None	72102894	72107270	1	None	PNR, rd7, RP37
15	NR2E3	ENSG00000031544	ENST00000326995	processed_transcript	KNOWN	None	7974	None	None	72084977	72110559	1	None	PNR, rd7, RP37
8	RNU6-178P	ENSG00000207361	ENST00000384631	snRNA	KNOWN	None	47141	None	None	28273965	28274068	1	None	None
9	None	ENSG00000234725	ENST00000448178	processed_pseudogene	KNOWN	None	None	None	None	46121006	46121348	-1	None	None
15	PAQR5	ENSG00000137819	ENST00000395407	protein_coding	KNOWN	CCDS10232	29645	993	330	69591286	69700119	1	None	FLJ20190, MPRG
15	PAQR5	ENSG00000137819	ENST00000558684	protein_coding	PUTATIVE	None	29645	381	126	69591291	69682120	1	None	FLJ20190, MPRG
15	PAQR5	ENSG00000137819	ENST00000561153	protein_coding	KNOWN	CCDS10232	29645	993	330	69606742	69696843	1	None	FLJ20190, MPRG
15	PAQR5	ENSG00000137819	ENST00000561027	processed_transcript	KNOWN	None	29645	None	None	69652304	69682082	1	None	FLJ20190, MPRG
15	PAQR5	ENSG00000137819	ENST00000561250	retained_intron	KNOWN	None	29645	None	None	69652432	69672705	1	None	FLJ20190, MPRG
15	PAQR5	ENSG00000137819	ENST00000340965	protein_coding	KNOWN	CCDS10232	29645	993	330	69606742	69699980	1	None	FLJ20190, MPRG
3	None	ENSG00000238891	ENST00000458917	snoRNA	NOVEL	None	None	None	None	15358127	15358229	1	None	None
1	LEMD1-AS1	ENSG00000226235	ENST00000447832	antisense	KNOWN	None	44132	None	None	205342380	205356568	1	None	None
17	None	ENSG00000261040	ENST00000588180	lincRNA	KNOWN	None	None	None	None	58160927	58165617	-1	None	None
17	None	ENSG00000261040	ENST00000589987	lincRNA	KNOWN	None	None	None	None	58160927	58165618	-1	None	None
17	None	ENSG00000261040	ENST00000566140	lincRNA	KNOWN	None	None	None	None	58160927	58165654	-1	None	None
17	None	ENSG00000261040	ENST00000590346	lincRNA	KNOWN	None	None	None	None	58160927	58169246	-1	None	None
17	None	ENSG00000261040	ENST00000592556	lincRNA	KNOWN	None	None	None	None	58160928	58165676	-1	None	None
17	None	ENSG00000261040	ENST00000590012	lincRNA	KNOWN	None	None	None	None	58160933	58165674	-1	None	None
17	None	ENSG00000261040	ENST00000587298	lincRNA	KNOWN	None	None	None	None	58160933	58165828	-1	None	None
17	None	ENSG00000261040	ENST00000589777	retained_intron	KNOWN	None	None	None	None	58160961	58162762	-1	None	None
12	None	ENSG00000258921	ENST00000556606	antisense	KNOWN	None	None	None	None	56032696	56053579	-1	None	None
1	None	ENSG00000238618	ENST00000459356	snoRNA	NOVEL	None	None	None	None	51696925	51697028	-1	None	None
3	RNU6-454P	ENSG00000201162	ENST00000364292	snRNA	KNOWN	None	47417	None	None	15381256	15381362	1	None	None
11	OR5AP1P	ENSG00000254795	ENST00000529730	unprocessed_pseudogene	KNOWN	None	15257	None	None	56400640	56401579	-1	None	None
15	None	ENSG00000261064	ENST00000564670	lincRNA	KNOWN	None	None	None	None	32828248	32879814	1	None	None
15	None	ENSG00000261064	ENST00000561999	lincRNA	KNOWN	None	None	None	None	32828915	32867844	1	None	None
11	RNA5SP343	ENSG00000200649	ENST00000363779	rRNA	KNOWN	None	43243	None	None	73909793	73909899	-1	RN5S343	None
HSCHR17_1	None	ENSG00000257189	ENST00000551942	protein_coding	NOVEL	None	None	387	128	44736661	44752520	-1	None	None
20	DSN1	ENSG00000149636	ENST00000373740	protein_coding	NOVEL	None	16165	855	284	35380198	35402123	-1	C20orf172	dJ469A13.2, MIS13, KNL3, hKNL-3
20	DSN1	ENSG00000149636	ENST00000473615	processed_transcript	PUTATIVE	None	16165	None	None	35380198	35402200	-1	C20orf172	dJ469A13.2, MIS13, KNL3, hKNL-3
20	DSN1	ENSG00000149636	ENST00000480153	retained_intron	KNOWN	None	16165	None	None	35380198	35402201	-1	C20orf172	dJ469A13.2, MIS13, KNL3, hKNL-3
20	DSN1	ENSG00000149636	ENST00000373750	protein_coding	KNOWN	CCDS13286	16165	1071	356	35380198	35402218	-1	C20orf172	dJ469A13.2, MIS13, KNL3, hKNL-3
20	DSN1	ENSG00000149636	ENST00000373734	protein_coding	NOVEL	CCDS46596	16165	750	249	35380198	35402221	-1	C20orf172	dJ469A13.2, MIS13, KNL3, hKNL-3
20	DSN1	ENSG00000149636	ENST00000449595	protein_coding	NOVEL	None	16165	913	303	35383166	35402184	-1	C20orf172	dJ469A13.2, MIS13, KNL3, hKNL-3
20	DSN1	ENSG00000149636	ENST00000492703	processed_transcript	KNOWN	None	16165	None	None	35386490	35402152	-1	C20orf172	dJ469A13.2, MIS13, KNL3, hKNL-3
20	DSN1	ENSG00000149636	ENST00000438549	protein_coding	NOVEL	None	16165	425	140	35386490	35402173	-1	C20orf172	dJ469A13.2, MIS13, KNL3, hKNL-3
20	DSN1	ENSG00000149636	ENST00000447406	protein_coding	KNOWN	None	16165	725	240	35386490	35402202	-1	C20orf172	dJ469A13.2, MIS13, KNL3, hKNL-3
20	DSN1	ENSG00000149636	ENST00000426836	protein_coding	KNOWN	CCDS13286	16165	1071	356	35380194	35402154	-1	C20orf172	dJ469A13.2, MIS13, KNL3, hKNL-3
20	DSN1	ENSG00000149636	ENST00000373745	protein_coding	KNOWN	CCDS13286	16165	1071	356	35380194	35402154	-1	C20orf172	dJ469A13.2, MIS13, KNL3, hKNL-3
20	DSN1	ENSG00000149636	ENST00000448110	protein_coding	KNOWN	CCDS46597	16165	1023	340	35380194	35402230	-1	C20orf172	dJ469A13.2, MIS13, KNL3, hKNL-3
9	None	ENSG00000238413	ENST00000458898	misc_RNA	NOVEL	None	None	None	None	46141564	46141675	-1	None	None
1	UBE2WP1	ENSG00000234422	ENST00000362030	processed_pseudogene	KNOWN	None	32198	None	None	96884150	96884489	1	UBE2WP	None
2	ALMS1P	ENSG00000163016	ENST00000450720	processed_transcript	KNOWN	None	29586	None	None	73872046	73912703	1	ALMS1L	None
2	ALMS1P	ENSG00000163016	ENST00000428767	transcribed_unprocessed_pseudogene	KNOWN	None	29586	None	None	73898157	73912212	1	ALMS1L	None
12	RN7SL441P	ENSG00000241413	ENST00000492388	misc_RNA	KNOWN	None	46457	None	None	110304021	110304314	-1	None	None
3	HMGN2P7	ENSG00000226427	ENST00000456186	processed_pseudogene	KNOWN	None	33575	None	None	15416880	15417152	-1	HMGN2L7	None
1	None	ENSG00000233406	ENST00000480705	processed_pseudogene	KNOWN	None	None	None	None	51716275	51717144	-1	None	None
1	None	ENSG00000233406	ENST00000602152	processed_pseudogene	KNOWN	None	None	None	None	51716270	51717118	-1	None	None
3	None	ENSG00000270492	ENST00000604126	processed_pseudogene	KNOWN	None	None	None	None	129053429	129053917	1	None	None
3	None	ENSG00000244144	ENST00000487626	processed_pseudogene	KNOWN	None	None	None	None	111904327	111904845	-1	None	None
HSCHR6_MHC_QBL	TMEM183AP1	ENSG00000229737	ENST00000437487	processed_pseudogene	KNOWN	None	33458	None	None	29545170	29545459	1	None	BPG126D10.10, OTTHUMG00000086663
9	None	ENSG00000227490	ENST00000432611	processed_pseudogene	KNOWN	None	None	None	None	46169973	46170336	1	None	None
HG531_PATCH	None	ENSG00000260117	ENST00000570246	protein_coding	KNOWN	None	None	2439	812	115079988	115092796	1	None	None
HG531_PATCH	None	ENSG00000260117	ENST00000562936	processed_transcript	KNOWN	None	None	None	None	115086616	115087916	1	None	None
HG531_PATCH	None	ENSG00000260117	ENST00000569434	processed_transcript	KNOWN	None	None	None	None	115086601	115089754	1	None	None
15	MEF2A	ENSG00000068305	ENST00000560493	protein_coding	KNOWN	None	6993	255	84	100105622	100185966	1	None	RSRFC4, RSRFC9
15	MEF2A	ENSG00000068305	ENST00000354410	protein_coding	KNOWN	CCDS45362	6993	1500	499	100105905	100256671	1	None	RSRFC4, RSRFC9
15	MEF2A	ENSG00000068305	ENST00000558856	processed_transcript	KNOWN	None	6993	None	None	100106133	100197736	1	None	RSRFC4, RSRFC9
15	MEF2A	ENSG00000068305	ENST00000558812	protein_coding	KNOWN	CCDS45363	6993	1314	437	100106133	100253529	1	None	RSRFC4, RSRFC9
15	MEF2A	ENSG00000068305	ENST00000559036	retained_intron	KNOWN	None	6993	None	None	100106174	100186036	1	None	RSRFC4, RSRFC9
15	MEF2A	ENSG00000068305	ENST00000558983	retained_intron	KNOWN	None	6993	None	None	100106185	100211767	1	None	RSRFC4, RSRFC9
15	MEF2A	ENSG00000068305	ENST00000557785	protein_coding	KNOWN	CCDS53978	6993	1494	497	100106185	100253987	1	None	RSRFC4, RSRFC9
15	MEF2A	ENSG00000068305	ENST00000558049	protein_coding	KNOWN	None	6993	115	37	100106192	100185826	1	None	RSRFC4, RSRFC9
15	MEF2A	ENSG00000068305	ENST00000449277	protein_coding	KNOWN	CCDS58401	6993	1290	429	100106195	100256611	1	None	RSRFC4, RSRFC9
15	MEF2A	ENSG00000068305	ENST00000557942	protein_coding	KNOWN	None	6993	1518	505	100106292	100256629	1	None	RSRFC4, RSRFC9
15	MEF2A	ENSG00000068305	ENST00000559903	protein_coding	KNOWN	None	6993	233	76	100106688	100185944	1	None	RSRFC4, RSRFC9
15	MEF2A	ENSG00000068305	ENST00000561125	retained_intron	KNOWN	None	6993	None	None	100246800	100256167	1	None	RSRFC4, RSRFC9
15	MEF2A	ENSG00000068305	ENST00000453228	protein_coding	KNOWN	CCDS53978	6993	1494	497	100017370	100256627	1	None	RSRFC4, RSRFC9
15	MEF2A	ENSG00000068305	ENST00000338042	protein_coding	KNOWN	None	6993	1521	506	100106133	100256627	1	None	RSRFC4, RSRFC9
2	RNU6-642P	ENSG00000200029	ENST00000363159	snRNA	KNOWN	None	47605	None	None	219780906	219781009	-1	None	None
11	None	ENSG00000255241	ENST00000528458	antisense	KNOWN	None	None	None	None	87831759	87849003	1	None	None
9	None	ENSG00000225353	ENST00000418666	lincRNA	KNOWN	None	None	None	None	46270841	46274928	-1	None	None
9	None	ENSG00000225353	ENST00000416205	lincRNA	KNOWN	None	None	None	None	46273489	46274899	-1	None	None
1	MIR135B	ENSG00000199059	ENST00000362189	miRNA	KNOWN	None	31760	None	None	205417430	205417526	-1	MIRN135B	hsa-mir-135b
1	EEF1A1P11	ENSG00000228502	ENST00000415278	processed_pseudogene	KNOWN	None	3206	None	None	96912486	96913874	1	EEF1AL9	None
11	None	ENSG00000263546	ENST00000584225	miRNA	NOVEL	None	None	None	None	56405463	56405549	1	None	None
2	None	ENSG00000235024	ENST00000429343	antisense	KNOWN	None	None	None	None	219809351	219826625	-1	None	None
8	None	ENSG00000253567	ENST00000523935	antisense	KNOWN	None	None	None	None	28304781	28313204	1	None	None
8	None	ENSG00000253567	ENST00000518819	antisense	KNOWN	None	None	None	None	28306471	28313419	1	None	None
7	AGK	ENSG00000006530	ENST00000355413	protein_coding	KNOWN	CCDS5865	21869	1269	422	141250989	141355044	1	MULK	FLJ10842
7	AGK	ENSG00000006530	ENST00000473247	protein_coding	PUTATIVE	None	21869	1185	394	141251195	141352947	1	MULK	FLJ10842
7	AGK	ENSG00000006530	ENST00000495028	processed_transcript	KNOWN	None	21869	None	None	141251210	141299108	1	MULK	FLJ10842
7	AGK	ENSG00000006530	ENST00000473884	nonsense_mediated_decay	KNOWN	None	21869	141	46	141251218	141321590	1	MULK	FLJ10842
7	AGK	ENSG00000006530	ENST00000492693	protein_coding	KNOWN	None	21869	198	65	141255253	141293995	1	MULK	FLJ10842
7	AGK	ENSG00000006530	ENST00000494688	nonsense_mediated_decay	KNOWN	None	21869	735	244	141255253	141351375	1	MULK	FLJ10842
7	AGK	ENSG00000006530	ENST00000465241	retained_intron	KNOWN	None	21869	None	None	141255256	141315824	1	MULK	FLJ10842
7	AGK	ENSG00000006530	ENST00000496784	retained_intron	KNOWN	None	21869	None	None	141255266	141297140	1	MULK	FLJ10842
7	AGK	ENSG00000006530	ENST00000496273	processed_transcript	KNOWN	None	21869	None	None	141301021	141316168	1	MULK	FLJ10842
7	AGK	ENSG00000006530	ENST00000494053	retained_intron	KNOWN	None	21869	None	None	141348931	141352865	1	MULK	FLJ10842
7	AGK	ENSG00000006530	ENST00000535825	protein_coding	KNOWN	None	21869	735	244	141251210	141351375	1	MULK	FLJ10842
3	None	ENSG00000270773	ENST00000603123	processed_pseudogene	KNOWN	None	None	None	None	129064254	129065007	1	None	None
11	OR2AH1P	ENSG00000232511	ENST00000425717	unprocessed_pseudogene	KNOWN	None	15144	None	None	56436493	56437420	-1	None	None
1	None	ENSG00000224717	ENST00000442318	lincRNA	KNOWN	None	None	None	None	205425057	205438152	1	None	None
HSCHR6_MHC_DBB	APOM	ENSG00000227567	ENST00000426401	protein_coding	KNOWN	None	13916	390	129	31602375	31608041	1	None	ApoM, G3a, NG20
HSCHR6_MHC_DBB	APOM	ENSG00000227567	ENST00000439902	protein_coding	KNOWN	None	13916	351	116	31602376	31608169	1	None	ApoM, G3a, NG20
HSCHR6_MHC_DBB	APOM	ENSG00000227567	ENST00000426800	protein_coding	KNOWN	None	13916	567	188	31605853	31608169	1	None	ApoM, G3a, NG20
6	PHF1	ENSG00000112511	ENST00000427004	protein_coding	KNOWN	None	8919	436	144	33378176	33381071	1	None	MTF2L2, TDRD19C
6	PHF1	ENSG00000112511	ENST00000487667	nonsense_mediated_decay	KNOWN	None	8919	1182	393	33378467	33383648	1	None	MTF2L2, TDRD19C
6	PHF1	ENSG00000112511	ENST00000428274	protein_coding	KNOWN	None	8919	683	226	33378528	33381608	1	None	MTF2L2, TDRD19C
6	PHF1	ENSG00000112511	ENST00000459809	processed_transcript	KNOWN	None	8919	None	None	33378535	33380556	1	None	MTF2L2, TDRD19C
6	PHF1	ENSG00000112511	ENST00000374512	protein_coding	KNOWN	CCDS4778	8919	1374	457	33378738	33384230	1	None	MTF2L2, TDRD19C
6	PHF1	ENSG00000112511	ENST00000374516	protein_coding	KNOWN	CCDS4777	8919	1704	567	33378738	33384230	1	None	MTF2L2, TDRD19C
6	PHF1	ENSG00000112511	ENST00000495509	nonsense_mediated_decay	KNOWN	None	8919	1260	419	33378903	33383828	1	None	MTF2L2, TDRD19C
6	PHF1	ENSG00000112511	ENST00000488767	retained_intron	KNOWN	None	8919	None	None	33380761	33381721	1	None	MTF2L2, TDRD19C
6	PHF1	ENSG00000112511	ENST00000486845	retained_intron	KNOWN	None	8919	None	None	33382113	33383990	1	None	MTF2L2, TDRD19C
6	PHF1	ENSG00000112511	ENST00000427826	protein_coding	NOVEL	None	8919	546	181	33382842	33384191	1	None	MTF2L2, TDRD19C
6	PHF1	ENSG00000112511	ENST00000479029	retained_intron	KNOWN	None	8919	None	None	33383018	33384089	1	None	MTF2L2, TDRD19C
HSCHR12_2_CTG2	None	ENSG00000262293	ENST00000571830	processed_pseudogene	KNOWN	None	None	None	None	11249795	11249890	-1	None	None
7	None	ENSG00000232533	ENST00000429630	antisense	KNOWN	None	None	None	None	143076785	143077588	-1	None	None
2	KRT8P30	ENSG00000224928	ENST00000432100	processed_pseudogene	KNOWN	None	33382	None	None	219818123	219818772	-1	None	None
12	None	ENSG00000258907	ENST00000554248	processed_pseudogene	KNOWN	None	None	None	None	56048342	56048952	-1	None	None
9	None	ENSG00000224937	ENST00000434395	processed_pseudogene	KNOWN	None	None	None	None	46334292	46334508	1	None	None
12	None	ENSG00000249094	ENST00000446473	lincRNA	KNOWN	None	None	None	None	110318481	110326272	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000266132	ENST00000580093	snoRNA	KNOWN	None	None	None	None	29549960	29550043	1	None	None
1	RN7SL831P	ENSG00000241992	ENST00000460344	misc_RNA	KNOWN	None	46847	None	None	97048765	97049081	1	None	None
11	CASP1P1	ENSG00000255430	ENST00000526345	unprocessed_pseudogene	KNOWN	None	43775	None	None	104993388	104994066	-1	None	None
Y	TTTY23	ENSG00000239225	ENST00000452889	lincRNA	KNOWN	None	18847	None	None	9748407	9749571	1	None	NCRNA00148
14	None	ENSG00000259008	ENST00000556602	lincRNA	KNOWN	None	None	None	None	57822164	57826128	1	None	None
9	None	ENSG00000231481	ENST00000452477	antisense	KNOWN	None	None	None	None	46359242	46380257	-1	None	None
HG104_HG975_PATCH	CCDC166	ENSG00000261246	ENST00000563354	protein_coding	PUTATIVE	None	41910	607	201	144789522	144790224	-1	None	None
13	LINC00359	ENSG00000243300	ENST00000442322	lincRNA	KNOWN	None	42679	None	None	97593535	97600517	-1	None	None
13	LINC00359	ENSG00000243300	ENST00000606237	lincRNA	KNOWN	None	42679	None	None	97593683	97636426	-1	None	None
11	None	ENSG00000206690	ENST00000383963	misc_RNA	NOVEL	None	None	None	None	87833163	87833273	1	None	None
1	NDUFS5P2	ENSG00000234226	ENST00000484004	processed_pseudogene	KNOWN	None	44040	None	None	97049978	97050283	-1	None	None
1	NDUFS5P2	ENSG00000234226	ENST00000598931	processed_pseudogene	KNOWN	None	44040	None	None	97049973	97050290	-1	None	None
11	None	ENSG00000238041	ENST00000530434	processed_pseudogene	KNOWN	None	None	None	None	56457941	56458199	1	None	None
2	LINC00608	ENSG00000236445	ENST00000600415	lincRNA	KNOWN	None	27179	None	None	219840321	219841458	1	None	None
2	LINC00608	ENSG00000236445	ENST00000419101	lincRNA	KNOWN	None	27179	None	None	219840352	219842643	1	None	None
2	LINC00608	ENSG00000236445	ENST00000598002	lincRNA	KNOWN	None	27179	None	None	219840955	219841469	1	None	None
2	LINC00608	ENSG00000236445	ENST00000432733	lincRNA	KNOWN	None	27179	None	None	219841006	219844382	1	None	None
11	RNA5SP336	ENSG00000201059	ENST00000364189	rRNA	KNOWN	None	43236	None	None	21022427	21022543	-1	RN5S336	None
12	None	ENSG00000212461	ENST00000391159	snoRNA	NOVEL	None	None	None	None	72033135	72033263	1	None	None
9	None	ENSG00000239090	ENST00000459329	misc_RNA	NOVEL	None	None	None	None	46362605	46362716	1	None	None
1	RNU2-19P	ENSG00000253097	ENST00000517288	snRNA	KNOWN	None	48512	None	None	205535844	205535927	1	None	None
X	SPANXA2-OT1	ENSG00000226574	ENST00000421554	processed_transcript	KNOWN	None	31683	None	None	140590843	140738057	1	CXorf18	FLJ36186
3	None	ENSG00000244932	ENST00000499853	unprocessed_pseudogene	KNOWN	None	None	None	None	129100141	129112992	1	None	None
15	RNU6-1169P	ENSG00000200407	ENST00000363537	snRNA	KNOWN	None	48132	None	None	41740940	41741042	-1	None	None
2	None	ENSG00000204872	ENST00000377712	unprocessed_pseudogene	KNOWN	None	None	None	None	73927754	73928432	-1	None	None
14	None	ENSG00000259066	ENST00000554824	nonsense_mediated_decay	KNOWN	None	None	273	90	93651318	93676303	1	None	None
14	None	ENSG00000259066	ENST00000557048	processed_transcript	KNOWN	None	None	None	None	93651319	93684932	1	None	None
14	None	ENSG00000259066	ENST00000557574	protein_coding	PUTATIVE	None	None	498	165	93651338	93678473	1	None	None
11	None	ENSG00000254816	ENST00000527400	processed_pseudogene	KNOWN	None	None	None	None	21191294	21191683	1	None	None
9	None	ENSG00000226546	ENST00000421418	processed_pseudogene	KNOWN	None	None	None	None	46382965	46383307	1	None	None
1	RNU6-418P	ENSG00000206762	ENST00000384035	snRNA	KNOWN	None	47381	None	None	205564169	205564275	1	None	None
11	None	ENSG00000254998	ENST00000528811	lincRNA	KNOWN	None	None	None	None	105028654	105402424	-1	None	None
14	DDX18P1	ENSG00000259165	ENST00000556558	processed_pseudogene	KNOWN	None	20007	None	None	69550115	69552106	1	None	None
14	None	ENSG00000259039	ENST00000555600	antisense	KNOWN	None	None	None	None	58045350	58048038	1	None	None
11	None	ENSG00000254953	ENST00000525668	processed_pseudogene	KNOWN	None	None	None	None	56503792	56503938	-1	None	None
2	None	ENSG00000271070	ENST00000605230	processed_pseudogene	KNOWN	None	None	None	None	108983572	108984394	1	None	None
1	None	ENSG00000236434	ENST00000422306	antisense	KNOWN	None	None	None	None	51730588	51731746	-1	None	None
3	RNU6-1024P	ENSG00000206926	ENST00000384199	snRNA	KNOWN	None	47987	None	None	15474617	15474723	-1	None	None
9	None	ENSG00000204813	ENST00000377544	processed_pseudogene	KNOWN	None	None	None	None	46387012	46387222	1	None	None
13	TULP3P1	ENSG00000234267	ENST00000453253	transcribed_processed_pseudogene	KNOWN	None	39262	None	None	97599891	97601181	-1	None	None
1	None	ENSG00000236942	ENST00000411645	processed_pseudogene	KNOWN	None	None	None	None	205594611	205595281	1	None	None
1	PTGFR	ENSG00000122420	ENST00000370758	protein_coding	KNOWN	CCDS686	9600	1080	359	78769568	79005434	1	None	FP
1	PTGFR	ENSG00000122420	ENST00000497923	nonsense_mediated_decay	KNOWN	None	9600	894	297	78956757	79002695	1	None	FP
1	PTGFR	ENSG00000122420	ENST00000370757	protein_coding	KNOWN	CCDS686	9600	1080	359	78956757	79005434	1	None	FP
1	PTGFR	ENSG00000122420	ENST00000370756	protein_coding	KNOWN	CCDS30759	9600	894	297	78956757	79005434	1	None	FP
2	None	ENSG00000271284	ENST00000603004	processed_pseudogene	KNOWN	None	None	None	None	109040068	109040341	1	None	None
9	None	ENSG00000221521	ENST00000408594	miRNA	NOVEL	None	None	None	None	131869329	131869430	-1	None	None
HSCHR12_2_CTG2	None	ENSG00000262829	ENST00000570621	unprocessed_pseudogene	KNOWN	None	None	None	None	11267953	11268873	-1	None	None
2	None	ENSG00000271536	ENST00000604756	processed_pseudogene	KNOWN	None	None	None	None	74104693	74105989	1	None	None
1	None	ENSG00000137970	ENST00000468715	processed_pseudogene	KNOWN	None	None	None	None	97144430	97145176	-1	None	None
12	None	ENSG00000270458	ENST00000603972	processed_pseudogene	KNOWN	None	None	None	None	56056121	56056285	-1	None	None
HSCHR17_1	None	ENSG00000257936	ENST00000547601	protein_coding	NOVEL	None	None	315	104	44738928	44752551	1	None	None
12	None	ENSG00000257515	ENST00000549710	lincRNA	KNOWN	None	None	None	None	72102951	72104154	-1	None	None
7	EPHA1-AS1	ENSG00000229153	ENST00000429289	processed_transcript	KNOWN	None	27799	None	None	143104906	143220542	1	None	None
7	EPHA1-AS1	ENSG00000229153	ENST00000421648	processed_transcript	KNOWN	None	27799	None	None	143104926	143112923	1	None	None
9	None	ENSG00000268707	ENST00000600965	lincRNA	KNOWN	None	None	None	None	131932713	131933219	1	None	None
11	None	ENSG00000255057	ENST00000525666	processed_pseudogene	KNOWN	None	None	None	None	129878481	129879660	1	None	None
2	None	ENSG00000214184	ENST00000322353	antisense	KNOWN	None	None	None	None	109123971	109150652	-1	None	None
2	None	ENSG00000214184	ENST00000440975	antisense	KNOWN	None	None	None	None	109128145	109150638	-1	None	None
15	TCEB1P2	ENSG00000259838	ENST00000566760	unprocessed_pseudogene	KNOWN	None	17762	None	None	41849225	41849633	1	None	None
1	None	ENSG00000261664	ENST00000564479	antisense	KNOWN	None	None	None	None	51795326	51800996	1	None	None
1	None	ENSG00000261664	ENST00000568425	antisense	KNOWN	None	None	None	None	51795422	51796953	1	None	None
11	MIR3166	ENSG00000266581	ENST00000577344	miRNA	KNOWN	None	38386	None	None	87909670	87909761	1	None	hsa-mir-3166
11	None	ENSG00000181325	ENST00000525553	unprocessed_pseudogene	KNOWN	None	None	None	None	56507655	56508572	1	None	None
11	None	ENSG00000181325	ENST00000327003	pseudogene	KNOWN	None	None	None	None	56507655	56508571	1	None	None
22	TRIOBP	ENSG00000100106	ENST00000406386	protein_coding	KNOWN	CCDS43015	17009	7098	2365	38093011	38172563	1	DFNB28	HRIHFB2122, KIAA1662, Tara
22	TRIOBP	ENSG00000100106	ENST00000492485	retained_intron	KNOWN	None	17009	None	None	38093628	38122577	1	DFNB28	HRIHFB2122, KIAA1662, Tara
22	TRIOBP	ENSG00000100106	ENST00000344404	nonsense_mediated_decay	KNOWN	None	17009	315	104	38093628	38170055	1	DFNB28	HRIHFB2122, KIAA1662, Tara
22	TRIOBP	ENSG00000100106	ENST00000407319	protein_coding	KNOWN	CCDS33644	17009	1296	431	38142235	38156353	1	DFNB28	HRIHFB2122, KIAA1662, Tara
22	TRIOBP	ENSG00000100106	ENST00000403663	protein_coding	KNOWN	CCDS43016	17009	1959	652	38142240	38170147	1	DFNB28	HRIHFB2122, KIAA1662, Tara
22	TRIOBP	ENSG00000100106	ENST00000428075	protein_coding	NOVEL	None	17009	931	309	38142277	38154142	1	DFNB28	HRIHFB2122, KIAA1662, Tara
22	TRIOBP	ENSG00000100106	ENST00000413051	nonsense_mediated_decay	KNOWN	None	17009	309	102	38142329	38153970	1	DFNB28	HRIHFB2122, KIAA1662, Tara
22	TRIOBP	ENSG00000100106	ENST00000418339	protein_coding	NOVEL	None	17009	795	264	38147004	38153989	1	DFNB28	HRIHFB2122, KIAA1662, Tara
22	TRIOBP	ENSG00000100106	ENST00000452519	protein_coding	KNOWN	None	17009	250	82	38147392	38151581	1	DFNB28	HRIHFB2122, KIAA1662, Tara
22	TRIOBP	ENSG00000100106	ENST00000417857	protein_coding	KNOWN	None	17009	770	255	38147405	38154054	1	DFNB28	HRIHFB2122, KIAA1662, Tara
22	TRIOBP	ENSG00000100106	ENST00000331103	retained_intron	KNOWN	None	17009	None	None	38150889	38151517	1	DFNB28	HRIHFB2122, KIAA1662, Tara
8	None	ENSG00000254581	ENST00000526613	processed_pseudogene	KNOWN	None	None	None	None	12533544	12533898	-1	None	None
2	DGUOK-AS1	ENSG00000237883	ENST00000453103	antisense	KNOWN	None	43441	None	None	74174769	74208568	-1	None	None
2	DGUOK-AS1	ENSG00000237883	ENST00000439192	antisense	KNOWN	None	43441	None	None	74185097	74208560	-1	None	None
2	DGUOK-AS1	ENSG00000237883	ENST00000413452	antisense	KNOWN	None	43441	None	None	74185143	74208488	-1	None	None
GL000201.1	None	ENSG00000215611	ENST00000400676	protein_coding	NOVEL	None	None	501	166	26348	27637	-1	None	None
11	OR2AL1P	ENSG00000254767	ENST00000529862	unprocessed_pseudogene	KNOWN	None	14712	None	None	105065167	105065673	-1	None	None
12	None	ENSG00000258056	ENST00000552576	antisense	KNOWN	None	None	None	None	56122888	56124467	1	None	None
22	PATZ1	ENSG00000100105	ENST00000266269	protein_coding	KNOWN	CCDS13894	13071	2064	687	31721790	31742218	-1	ZNF278	MAZR, dJ400N23, ZBTB19, ZSG, RIAZ, PATZ
22	PATZ1	ENSG00000100105	ENST00000405309	protein_coding	KNOWN	CCDS46691	13071	1614	537	31721795	31742218	-1	ZNF278	MAZR, dJ400N23, ZBTB19, ZSG, RIAZ, PATZ
22	PATZ1	ENSG00000100105	ENST00000351933	protein_coding	KNOWN	CCDS13895	13071	1926	641	31721795	31742218	-1	ZNF278	MAZR, dJ400N23, ZBTB19, ZSG, RIAZ, PATZ
22	PATZ1	ENSG00000100105	ENST00000494109	retained_intron	KNOWN	None	13071	None	None	31731404	31739271	-1	ZNF278	MAZR, dJ400N23, ZBTB19, ZSG, RIAZ, PATZ
22	PATZ1	ENSG00000100105	ENST00000465287	retained_intron	KNOWN	None	13071	None	None	31736663	31739577	-1	ZNF278	MAZR, dJ400N23, ZBTB19, ZSG, RIAZ, PATZ
22	PATZ1	ENSG00000100105	ENST00000215919	protein_coding	KNOWN	CCDS13896	13071	1614	537	31736663	31741762	-1	ZNF278	MAZR, dJ400N23, ZBTB19, ZSG, RIAZ, PATZ
1	RN7SKP270	ENSG00000223229	ENST00000411297	misc_RNA	KNOWN	None	45994	None	None	97161412	97161723	-1	None	None
16	CEMP1	ENSG00000205923	ENST00000567119	protein_coding	KNOWN	CCDS42108	32553	744	247	2580036	2581409	-1	None	CP-23
16	CEMP1	ENSG00000205923	ENST00000565480	protein_coding	PUTATIVE	None	32553	147	48	2580317	2581418	-1	None	CP-23
16	CEMP1	ENSG00000205923	ENST00000382350	protein_coding	KNOWN	CCDS42108	32553	744	247	2577081	2581420	-1	None	CP-23
1	None	ENSG00000201944	ENST00000365074	snoRNA	KNOWN	None	None	None	None	205700349	205700480	-1	None	None
1	None	ENSG00000212039	ENST00000390750	miRNA	NOVEL	None	None	None	None	97368255	97368348	1	None	None
1	PEA15	ENSG00000162734	ENST00000360472	protein_coding	KNOWN	CCDS1199	8822	393	130	160175127	160185166	1	None	HMAT1, MAT1, PED, PEA-15, MAT1H, HUMMAT1H
1	PEA15	ENSG00000162734	ENST00000368077	protein_coding	PUTATIVE	None	8822	327	108	160175170	160183825	1	None	HMAT1, MAT1, PED, PEA-15, MAT1H, HUMMAT1H
1	PEA15	ENSG00000162734	ENST00000368076	protein_coding	NOVEL	None	8822	456	151	160175211	160185166	1	None	HMAT1, MAT1, PED, PEA-15, MAT1H, HUMMAT1H
1	PEA15	ENSG00000162734	ENST00000488858	processed_transcript	KNOWN	None	8822	None	None	160181077	160183507	1	None	HMAT1, MAT1, PED, PEA-15, MAT1H, HUMMAT1H
17	None	ENSG00000267295	ENST00000590609	unprocessed_pseudogene	KNOWN	None	None	None	None	58191154	58198048	-1	None	None
13	None	ENSG00000272329	ENST00000606916	lincRNA	KNOWN	None	None	None	None	97600272	97601838	1	None	None
13	None	ENSG00000272329	ENST00000606096	lincRNA	KNOWN	None	None	None	None	97600573	97601837	1	None	None
1	None	ENSG00000232027	ENST00000422197	processed_pseudogene	KNOWN	None	None	None	None	51837942	51838896	1	None	None
14	None	ENSG00000258934	ENST00000553339	processed_pseudogene	KNOWN	None	None	None	None	43276581	43277315	-1	None	None
1	None	ENSG00000227687	ENST00000421166	antisense	KNOWN	None	None	None	None	205904256	205904896	1	None	None
HSCHR10_1_CTG2	None	ENSG00000264507	ENST00000491517	snRNA	NOVEL	None	None	None	None	27604049	27604155	1	None	None
1	None	ENSG00000265771	ENST00000577912	miRNA	NOVEL	None	None	None	None	97401101	97401219	1	None	None
11	GAPDHP70	ENSG00000249489	ENST00000515281	processed_pseudogene	KNOWN	None	4148	None	None	88141347	88142391	-1	GAPDL15, GAPDHL15	None
11	DBX1	ENSG00000109851	ENST00000524983	protein_coding	KNOWN	None	33185	1032	343	20177701	20182159	-1	None	None
11	DBX1	ENSG00000109851	ENST00000227256	protein_coding	KNOWN	None	33185	1149	382	20177760	20181870	-1	None	None
2	None	ENSG00000228763	ENST00000411710	antisense	KNOWN	None	None	None	None	109293251	109295057	-1	None	None
HSCHR12_2_CTG2	None	ENSG00000261936	ENST00000571573	unprocessed_pseudogene	KNOWN	None	None	None	None	11281388	11282317	-1	None	None
12	None	ENSG00000257410	ENST00000552780	lincRNA	KNOWN	None	None	None	None	72187635	72193407	-1	None	None
1	DPYD-AS1	ENSG00000232878	ENST00000422980	antisense	KNOWN	None	40195	None	None	97561479	97788511	1	None	None
X	BRWD3	ENSG00000165288	ENST00000373275	protein_coding	KNOWN	CCDS14447	17342	5409	1802	79926353	80065187	-1	None	FLJ38568, MRX93
X	BRWD3	ENSG00000165288	ENST00000473691	processed_transcript	KNOWN	None	17342	None	None	79932744	79978072	-1	None	FLJ38568, MRX93
X	BRWD3	ENSG00000165288	ENST00000497335	processed_transcript	KNOWN	None	17342	None	None	79972382	79975069	-1	None	FLJ38568, MRX93
X	BRWD3	ENSG00000165288	ENST00000487313	processed_transcript	KNOWN	None	17342	None	None	79988657	79989644	-1	None	FLJ38568, MRX93
X	BRWD3	ENSG00000165288	ENST00000478415	processed_transcript	KNOWN	None	17342	None	None	79999206	80065182	-1	None	FLJ38568, MRX93
13	RN7SKP7	ENSG00000222472	ENST00000410540	misc_RNA	KNOWN	None	42625	None	None	97601503	97601787	-1	None	None
22	GUCD1	ENSG00000138867	ENST00000407471	protein_coding	KNOWN	CCDS33621	14237	723	240	24936406	24951150	-1	C22orf13	MGC1842, LLN4
22	GUCD1	ENSG00000138867	ENST00000435822	protein_coding	NOVEL	None	14237	720	239	24936406	24951284	-1	C22orf13	MGC1842, LLN4
22	GUCD1	ENSG00000138867	ENST00000398245	nonsense_mediated_decay	KNOWN	None	14237	720	239	24936410	24951139	-1	C22orf13	MGC1842, LLN4
22	GUCD1	ENSG00000138867	ENST00000490922	processed_transcript	KNOWN	None	14237	None	None	24936500	24944000	-1	C22orf13	MGC1842, LLN4
22	GUCD1	ENSG00000138867	ENST00000404664	protein_coding	PUTATIVE	None	14237	888	295	24938366	24951903	-1	C22orf13	MGC1842, LLN4
22	GUCD1	ENSG00000138867	ENST00000447813	protein_coding	NOVEL	None	14237	411	136	24938655	24951057	-1	C22orf13	MGC1842, LLN4
22	GUCD1	ENSG00000138867	ENST00000402766	protein_coding	NOVEL	None	14237	414	137	24938724	24951093	-1	C22orf13	MGC1842, LLN4
22	GUCD1	ENSG00000138867	ENST00000493099	processed_transcript	KNOWN	None	14237	None	None	24938798	24940051	-1	C22orf13	MGC1842, LLN4
22	GUCD1	ENSG00000138867	ENST00000480272	retained_intron	KNOWN	None	14237	None	None	24940013	24943358	-1	C22orf13	MGC1842, LLN4
22	GUCD1	ENSG00000138867	ENST00000407973	protein_coding	KNOWN	None	14237	383	126	24942885	24951827	-1	C22orf13	MGC1842, LLN4
22	GUCD1	ENSG00000138867	ENST00000468170	retained_intron	KNOWN	None	14237	None	None	24943684	24951092	-1	C22orf13	MGC1842, LLN4
22	GUCD1	ENSG00000138867	ENST00000490810	processed_transcript	KNOWN	None	14237	None	None	24943741	24944929	-1	C22orf13	MGC1842, LLN4
14	None	ENSG00000258923	ENST00000557537	processed_pseudogene	KNOWN	None	None	None	None	84640135	84641854	1	None	None
HSCHR19LRC_COX1_CTG1	None	ENSG00000263144	ENST00000576445	snRNA	NOVEL	None	None	None	None	54767577	54767685	-1	None	None
1	HES5	ENSG00000197921	ENST00000378453	protein_coding	KNOWN	CCDS41233	19764	501	166	2460184	2461684	-1	None	bHLHb38
2	None	ENSG00000233648	ENST00000443543	processed_pseudogene	KNOWN	None	None	None	None	109311206	109311349	-1	None	None
2	RNA5SP97	ENSG00000201876	ENST00000365006	rRNA	KNOWN	None	42895	None	None	74195250	74195333	-1	RN5S97	None
13	None	ENSG00000252154	ENST00000516345	snoRNA	NOVEL	None	None	None	None	97618195	97618268	-1	None	None
2	C2orf82	ENSG00000182600	ENST00000448993	protein_coding	KNOWN	None	33763	59	18	233721980	233735110	1	None	UNQ830, ASCL830
2	C2orf82	ENSG00000182600	ENST00000409533	protein_coding	KNOWN	CCDS2499	33763	366	121	233733724	233741116	1	None	UNQ830, ASCL830
2	C2orf82	ENSG00000182600	ENST00000409230	protein_coding	KNOWN	CCDS2499	33763	366	121	233734342	233741116	1	None	UNQ830, ASCL830
2	C2orf82	ENSG00000182600	ENST00000449331	protein_coding	PUTATIVE	None	33763	421	139	233740138	233741111	1	None	UNQ830, ASCL830
2	C2orf82	ENSG00000182600	ENST00000476690	processed_transcript	PUTATIVE	None	33763	None	None	233740320	233741067	1	None	UNQ830, ASCL830
2	C2orf82	ENSG00000182600	ENST00000467665	retained_intron	KNOWN	None	33763	None	None	233740509	233743414	1	None	UNQ830, ASCL830
2	C2orf82	ENSG00000182600	ENST00000481155	processed_transcript	PUTATIVE	None	33763	None	None	233741231	233743418	1	None	UNQ830, ASCL830
2	C2orf82	ENSG00000182600	ENST00000331342	protein_coding	KNOWN	CCDS2499	33763	366	121	233734994	233741107	1	None	UNQ830, ASCL830
1	None	ENSG00000229874	ENST00000429210	antisense	KNOWN	None	None	None	None	206135293	206137828	-1	None	None
1	None	ENSG00000229874	ENST00000606644	antisense	KNOWN	None	None	None	None	206135501	206137984	-1	None	None
HSCHR10_1_CTG2	None	ENSG00000262361	ENST00000574754	snRNA	NOVEL	None	None	None	None	27671730	27671836	-1	None	None
3	EAF1-AS1	ENSG00000249786	ENST00000597949	antisense	KNOWN	None	42328	None	None	15477678	15482073	-1	None	None
3	EAF1-AS1	ENSG00000249786	ENST00000595975	antisense	KNOWN	None	42328	None	None	15480153	15482101	-1	None	None
3	EAF1-AS1	ENSG00000249786	ENST00000596371	antisense	KNOWN	None	42328	None	None	15480153	15482101	-1	None	None
3	EAF1-AS1	ENSG00000249786	ENST00000494875	antisense	KNOWN	None	42328	None	None	15480571	15482073	-1	None	None
3	EAF1-AS1	ENSG00000249786	ENST00000595627	antisense	KNOWN	None	42328	None	None	15480706	15482067	-1	None	None
3	EAF1-AS1	ENSG00000249786	ENST00000593876	antisense	KNOWN	None	42328	None	None	15480706	15484984	-1	None	None
3	EAF1-AS1	ENSG00000249786	ENST00000594820	antisense	KNOWN	None	42328	None	None	15480706	15485576	-1	None	None
3	EAF1-AS1	ENSG00000249786	ENST00000599742	antisense	KNOWN	None	42328	None	None	15481397	15484963	-1	None	None
17	None	ENSG00000267248	ENST00000590744	lincRNA	KNOWN	None	None	None	None	58203896	58212359	-1	None	None
17	None	ENSG00000267248	ENST00000586143	retained_intron	KNOWN	None	None	None	None	58211983	58213005	-1	None	None
12	None	ENSG00000257991	ENST00000552838	processed_pseudogene	KNOWN	None	None	None	None	72228814	72229176	-1	None	None
2	None	ENSG00000235644	ENST00000427719	processed_pseudogene	KNOWN	None	None	None	None	109328718	109329356	-1	None	None
13	None	ENSG00000238522	ENST00000459402	snoRNA	NOVEL	None	None	None	None	97709633	97709734	1	None	None
15	None	ENSG00000234038	ENST00000453952	pseudogene	NOVEL	None	None	None	None	32885854	32886380	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000258164	ENST00000552653	protein_coding	KNOWN	None	None	522	173	29968112	29969556	-1	None	None
2	None	ENSG00000235499	ENST00000441217	lincRNA	KNOWN	None	None	None	None	74212259	74213470	1	None	None
8	None	ENSG00000254361	ENST00000519652	lincRNA	KNOWN	None	None	None	None	138864570	138941287	1	None	None
4	C4orf21	ENSG00000138658	ENST00000505019	protein_coding	KNOWN	None	25654	6315	2104	113460492	113558066	-1	None	FLJ11331
4	C4orf21	ENSG00000138658	ENST00000445413	nonsense_mediated_decay	KNOWN	None	25654	2046	681	113460495	113508906	-1	None	FLJ11331
4	C4orf21	ENSG00000138658	ENST00000506675	retained_intron	KNOWN	None	25654	None	None	113460585	113482694	-1	None	FLJ11331
4	C4orf21	ENSG00000138658	ENST00000473015	nonsense_mediated_decay	KNOWN	None	25654	2808	935	113483429	113558059	-1	None	FLJ11331
4	C4orf21	ENSG00000138658	ENST00000309071	protein_coding	KNOWN	None	25654	3189	1062	113510786	113558066	-1	None	FLJ11331
4	C4orf21	ENSG00000138658	ENST00000264370	retained_intron	KNOWN	None	25654	None	None	113526716	113558151	-1	None	FLJ11331
4	C4orf21	ENSG00000138658	ENST00000514770	nonsense_mediated_decay	KNOWN	None	25654	117	38	113531863	113558145	-1	None	FLJ11331
4	C4orf21	ENSG00000138658	ENST00000503172	protein_coding	KNOWN	None	25654	524	173	113540674	113558054	-1	None	FLJ11331
4	C4orf21	ENSG00000138658	ENST00000512075	retained_intron	KNOWN	None	25654	None	None	113540681	113545133	-1	None	FLJ11331
4	C4orf21	ENSG00000138658	ENST00000502805	nonsense_mediated_decay	KNOWN	None	25654	186	61	113541269	113558018	-1	None	FLJ11331
4	C4orf21	ENSG00000138658	ENST00000445203	protein_coding	KNOWN	None	25654	2748	915	113531863	113558145	-1	None	FLJ11331
2	None	ENSG00000227403	ENST00000439050	lincRNA	KNOWN	None	None	None	None	162101250	162105561	1	None	None
2	None	ENSG00000227403	ENST00000436506	lincRNA	KNOWN	None	None	None	None	162101266	162103965	1	None	None
1	RNU6-877P	ENSG00000206595	ENST00000383868	snRNA	KNOWN	None	47840	None	None	51847980	51848086	1	None	None
13	None	ENSG00000233124	ENST00000453862	lincRNA	KNOWN	None	None	None	None	97824723	97831876	-1	None	None
X	None	ENSG00000223438	ENST00000412163	lincRNA	KNOWN	None	None	None	None	140713994	140714863	1	None	None
1	None	ENSG00000238140	ENST00000424246	antisense	KNOWN	None	None	None	None	51927393	51929088	1	None	None
GL000192.1	None	ENSG00000215642	ENST00000545452	protein_coding	NOVEL	None	None	1230	409	180636	212206	-1	None	None
2	None	ENSG00000255989	ENST00000496886	lincRNA	KNOWN	None	None	None	None	74213653	74220867	1	None	None
11	None	ENSG00000255336	ENST00000528941	unprocessed_pseudogene	KNOWN	None	None	None	None	105117607	105117787	-1	None	None
18	CABYR	ENSG00000154040	ENST00000399496	protein_coding	KNOWN	CCDS42420	15569	1140	379	21718942	21741564	1	None	FSP-2, CBP86, CT88
18	CABYR	ENSG00000154040	ENST00000486759	nonsense_mediated_decay	KNOWN	CCDS11882	15569	1428	475	21718981	21741561	1	None	FSP-2, CBP86, CT88
18	CABYR	ENSG00000154040	ENST00000579956	nonsense_mediated_decay	KNOWN	None	15569	222	73	21719026	21732690	1	None	FSP-2, CBP86, CT88
18	CABYR	ENSG00000154040	ENST00000584752	nonsense_mediated_decay	KNOWN	None	15569	222	73	21719026	21735832	1	None	FSP-2, CBP86, CT88
18	CABYR	ENSG00000154040	ENST00000585037	protein_coding	KNOWN	None	15569	139	45	21719026	21735898	1	None	FSP-2, CBP86, CT88
18	CABYR	ENSG00000154040	ENST00000581872	nonsense_mediated_decay	KNOWN	None	15569	222	73	21719026	21736161	1	None	FSP-2, CBP86, CT88
18	CABYR	ENSG00000154040	ENST00000415309	protein_coding	KNOWN	CCDS45840	15569	666	221	21719026	21741567	1	None	FSP-2, CBP86, CT88
18	CABYR	ENSG00000154040	ENST00000577705	protein_coding	KNOWN	None	15569	110	35	21719027	21735869	1	None	FSP-2, CBP86, CT88
18	CABYR	ENSG00000154040	ENST00000463087	nonsense_mediated_decay	KNOWN	CCDS11881	15569	1482	493	21719059	21741561	1	None	FSP-2, CBP86, CT88
18	CABYR	ENSG00000154040	ENST00000327201	protein_coding	KNOWN	CCDS11883	15569	846	281	21719061	21741561	1	None	FSP-2, CBP86, CT88
18	CABYR	ENSG00000154040	ENST00000581397	protein_coding	KNOWN	CCDS42420	15569	1140	379	21719448	21741552	1	None	FSP-2, CBP86, CT88
18	CABYR	ENSG00000154040	ENST00000579102	protein_coding	KNOWN	None	15569	253	83	21719589	21735718	1	None	FSP-2, CBP86, CT88
18	CABYR	ENSG00000154040	ENST00000582229	nonsense_mediated_decay	KNOWN	None	15569	880	292	21736068	21741546	1	None	FSP-2, CBP86, CT88
18	CABYR	ENSG00000154040	ENST00000399499	protein_coding	KNOWN	CCDS42420	15569	1140	379	21719448	21741564	1	None	FSP-2, CBP86, CT88
18	CABYR	ENSG00000154040	ENST00000399481	protein_coding	KNOWN	None	15569	1188	395	21719026	21739626	1	None	FSP-2, CBP86, CT88
3	None	ENSG00000216166	ENST00000401347	miRNA	NOVEL	None	None	None	None	183520263	183520341	-1	None	None
2	None	ENSG00000227470	ENST00000449240	processed_pseudogene	KNOWN	None	None	None	None	109494764	109494916	1	None	None
X	HDGFP1	ENSG00000227183	ENST00000405943	processed_pseudogene	KNOWN	None	31836	None	None	130780648	130780899	1	HDGFP	None
13	RNA5SP37	ENSG00000202290	ENST00000365420	rRNA	KNOWN	None	42613	None	None	98015226	98015355	-1	RN5S37	None
15	None	ENSG00000259948	ENST00000563131	processed_pseudogene	KNOWN	None	None	None	None	89744322	89744999	-1	None	None
2	SH3RF3-AS1	ENSG00000259863	ENST00000567491	lincRNA	KNOWN	None	44168	None	None	109743783	109745386	-1	None	None
1	None	ENSG00000236889	ENST00000428399	lincRNA	KNOWN	None	None	None	None	206164084	206166270	1	None	None
12	MRS2P2	ENSG00000257802	ENST00000550293	processed_pseudogene	KNOWN	None	33942	None	None	72243008	72244208	-1	None	None
10	ACTR3BP5	ENSG00000227264	ENST00000448440	processed_pseudogene	KNOWN	None	38682	None	None	38989555	38991033	1	None	None
10	ACTR3BP5	ENSG00000227264	ENST00000541147	processed_pseudogene	KNOWN	None	38682	None	None	38990037	38991356	1	None	None
13	None	ENSG00000271625	ENST00000603247	processed_pseudogene	KNOWN	None	None	None	None	98127996	98128713	1	None	None
1	None	ENSG00000227070	ENST00000415031	antisense	KNOWN	None	None	None	None	51983981	52026633	1	None	None
1	None	ENSG00000227070	ENST00000426017	antisense	KNOWN	None	None	None	None	51984055	52027301	1	None	None
8	OR7E8P	ENSG00000177400	ENST00000532847	processed_pseudogene	KNOWN	None	8458	None	None	12541663	12542662	-1	None	OR11-11a
2	FNBP1P1	ENSG00000257800	ENST00000551203	processed_pseudogene	KNOWN	None	44528	None	None	74347807	74350345	1	None	None
2	MIR4265	ENSG00000264934	ENST00000582152	miRNA	KNOWN	None	38358	None	None	109757946	109758044	-1	None	hsa-mir-4265
13	N4BP2L1	ENSG00000139597	ENST00000380139	protein_coding	NOVEL	CCDS41877	25037	522	173	32975713	33002270	-1	None	CG018
13	N4BP2L1	ENSG00000139597	ENST00000459716	processed_transcript	KNOWN	None	25037	None	None	32975814	32990840	-1	None	CG018
13	N4BP2L1	ENSG00000139597	ENST00000380133	protein_coding	PUTATIVE	CCDS9345	25037	732	243	32975953	33002270	-1	None	CG018
13	N4BP2L1	ENSG00000139597	ENST00000495479	protein_coding	PUTATIVE	None	25037	478	158	32975954	33002151	-1	None	CG018
13	N4BP2L1	ENSG00000139597	ENST00000343281	protein_coding	PUTATIVE	None	25037	488	161	32977816	33002151	-1	None	CG018
13	N4BP2L1	ENSG00000139597	ENST00000472298	retained_intron	KNOWN	None	25037	None	None	32980590	33002143	-1	None	CG018
13	N4BP2L1	ENSG00000139597	ENST00000464470	protein_coding	PUTATIVE	None	25037	238	78	32999059	33002151	-1	None	CG018
13	N4BP2L1	ENSG00000139597	ENST00000380130	protein_coding	KNOWN	CCDS9345	25037	732	243	32974861	33002315	-1	None	CG018
13	N4BP2L1	ENSG00000139597	ENST00000530622	protein_coding	KNOWN	None	25037	414	137	32975814	32985743	-1	None	CG018
8	MIR4288	ENSG00000265251	ENST00000582598	miRNA	KNOWN	None	38203	None	None	28362633	28362699	-1	None	hsa-mir-4288
12	RN7SL769P	ENSG00000264626	ENST00000469386	misc_RNA	KNOWN	None	46785	None	None	110798255	110798551	-1	None	None
1	DPYD-IT1	ENSG00000232542	ENST00000424982	sense_intronic	KNOWN	None	41326	None	None	97859710	97885697	-1	None	None
11	None	ENSG00000255167	ENST00000526362	antisense	KNOWN	None	None	None	None	21281607	21284116	-1	None	None
2	SNRPGP9	ENSG00000228551	ENST00000456025	processed_pseudogene	KNOWN	None	39328	None	None	109867878	109868102	1	None	None
4	PRDX4P1	ENSG00000248987	ENST00000507189	processed_pseudogene	KNOWN	None	43598	None	None	44946032	44946978	-1	None	None
3	RPL32P3	ENSG00000251474	ENST00000507287	processed_transcript	KNOWN	None	27024	None	None	129101765	129115979	-1	None	None
3	RPL32P3	ENSG00000251474	ENST00000510078	processed_transcript	KNOWN	None	27024	None	None	129101765	129118248	-1	None	None
3	RPL32P3	ENSG00000251474	ENST00000514355	processed_transcript	KNOWN	None	27024	None	None	129109998	129118262	-1	None	None
3	RPL32P3	ENSG00000251474	ENST00000507238	processed_transcript	KNOWN	None	27024	None	None	129112015	129115136	-1	None	None
3	RPL32P3	ENSG00000251474	ENST00000515866	processed_transcript	KNOWN	None	27024	None	None	129112450	129118262	-1	None	None
3	RPL32P3	ENSG00000251474	ENST00000499631	processed_transcript	KNOWN	None	27024	None	None	129112478	129118282	-1	None	None
3	RPL32P3	ENSG00000251474	ENST00000506593	processed_transcript	KNOWN	None	27024	None	None	129115039	129118498	-1	None	None
3	RPL32P3	ENSG00000251474	ENST00000359025	transcribed_unprocessed_pseudogene	KNOWN	None	27024	None	None	129115061	129115952	-1	None	None
3	RPL32P3	ENSG00000251474	ENST00000394491	unprocessed_pseudogene	KNOWN	None	27024	None	None	129101768	129118248	-1	None	None
15	None	ENSG00000259743	ENST00000559623	processed_pseudogene	KNOWN	None	None	None	None	46391391	46392590	-1	None	None
1	RNU6-1281P	ENSG00000252032	ENST00000516223	snRNA	KNOWN	None	48244	None	None	52004297	52004401	-1	None	None
8	None	ENSG00000253988	ENST00000521793	lincRNA	KNOWN	None	None	None	None	139075511	139085483	1	None	None
14	None	ENSG00000258856	ENST00000600311	processed_transcript	KNOWN	None	None	None	None	58096559	58097880	1	None	None
14	None	ENSG00000258856	ENST00000555494	transcribed_processed_pseudogene	KNOWN	None	None	None	None	58096644	58097406	1	None	None
11	None	ENSG00000255403	ENST00000531988	processed_pseudogene	KNOWN	None	None	None	None	105577025	105578663	1	None	None
1	None	ENSG00000225483	ENST00000430042	processed_pseudogene	KNOWN	None	None	None	None	206180054	206180443	1	None	None
1	SEC63P1	ENSG00000228057	ENST00000425785	processed_pseudogene	KNOWN	None	41953	None	None	98011257	98012514	1	None	None
X	None	ENSG00000213468	ENST00000427391	processed_transcript	KNOWN	None	None	None	None	130836678	130964671	-1	None	None
HSCHR19LRC_PGF1_CTG1	None	ENSG00000262247	ENST00000576331	snRNA	NOVEL	None	None	None	None	54767820	54767928	-1	None	None
2	BOLA3-AS1	ENSG00000225439	ENST00000529783	antisense	KNOWN	None	42922	None	None	74375136	74376181	1	None	None
2	BOLA3-AS1	ENSG00000225439	ENST00000423477	antisense	KNOWN	None	42922	None	None	74375166	74377188	1	None	None
2	BOLA3-AS1	ENSG00000225439	ENST00000533563	antisense	KNOWN	None	42922	None	None	74375172	74377115	1	None	None
13	None	ENSG00000226134	ENST00000437334	lincRNA	KNOWN	None	None	None	None	98327265	98330217	-1	None	None
2	MIR4266	ENSG00000265965	ENST00000583300	miRNA	KNOWN	None	38175	None	None	109930027	109930081	-1	None	hsa-mir-4266
8	None	ENSG00000253432	ENST00000519306	lincRNA	KNOWN	None	None	None	None	140108548	140115073	-1	None	None
Y	RBMY2OP	ENSG00000234950	ENST00000447105	unprocessed_pseudogene	KNOWN	None	23894	None	None	9789162	9797032	1	None	None
HSCHR12_2_CTG2	TAS2R18	ENSG00000261853	ENST00000575355	processed_pseudogene	KNOWN	None	19107	None	None	11343332	11344241	-1	TAS2R65P	T2R18, TAS2R65
8	ADAM5	ENSG00000196115	ENST00000399789	unitary_pseudogene	KNOWN	None	212	None	None	39172110	39274897	1	ADAM5P	tMDCII
8	ADAM5	ENSG00000196115	ENST00000505455	processed_transcript	KNOWN	None	212	None	None	39172123	39274897	1	ADAM5P	tMDCII
8	ADAM5	ENSG00000196115	ENST00000497773	retained_intron	KNOWN	None	212	None	None	39172151	39181258	1	ADAM5P	tMDCII
8	ADAM5	ENSG00000196115	ENST00000359790	processed_transcript	KNOWN	None	212	None	None	39172151	39274897	1	ADAM5P	tMDCII
8	ADAM5	ENSG00000196115	ENST00000464901	processed_transcript	KNOWN	None	212	None	None	39172182	39181754	1	ADAM5P	tMDCII
8	ADAM5	ENSG00000196115	ENST00000417441	processed_transcript	KNOWN	None	212	None	None	39172182	39274745	1	ADAM5P	tMDCII
8	ADAM5	ENSG00000196115	ENST00000433441	processed_transcript	KNOWN	None	212	None	None	39172182	39274745	1	ADAM5P	tMDCII
8	ADAM5	ENSG00000196115	ENST00000512764	processed_transcript	KNOWN	None	212	None	None	39172182	39274745	1	ADAM5P	tMDCII
8	ADAM5	ENSG00000196115	ENST00000519063	processed_transcript	KNOWN	None	212	None	None	39173006	39193008	1	ADAM5P	tMDCII
8	ADAM5	ENSG00000196115	ENST00000518020	processed_transcript	KNOWN	None	212	None	None	39180080	39193012	1	ADAM5P	tMDCII
8	ADAM5	ENSG00000196115	ENST00000498728	processed_transcript	KNOWN	None	212	None	None	39239036	39274745	1	ADAM5P	tMDCII
3	YEATS2-AS1	ENSG00000233885	ENST00000425008	antisense	KNOWN	None	41101	None	None	183524245	183526729	-1	None	None
2	None	ENSG00000237916	ENST00000417974	processed_pseudogene	KNOWN	None	None	None	None	110310113	110310423	1	None	None
1	CALR4P	ENSG00000227742	ENST00000431943	unitary_pseudogene	KNOWN	None	35456	None	None	52027538	52060569	-1	None	None
1	RPL26P9	ENSG00000226128	ENST00000457466	processed_pseudogene	KNOWN	None	36180	None	None	98051418	98051850	1	None	None
15	None	ENSG00000180987	ENST00000314558	pseudogene	NOVEL	None	None	None	None	32890499	32891012	-1	None	None
11	None	ENSG00000225477	ENST00000525269	processed_pseudogene	KNOWN	None	None	None	None	21305325	21306501	1	None	None
11	None	ENSG00000225477	ENST00000444420	processed_pseudogene	KNOWN	None	None	None	None	21305283	21525745	1	None	None
HSCHR19LRC_COX1_CTG1	MIR4752	ENSG00000266879	ENST00000579669	miRNA	KNOWN	None	41803	None	None	54785735	54785806	1	None	hsa-mir-4752
2	None	ENSG00000230696	ENST00000425576	sense_intronic	KNOWN	None	None	None	None	110352270	110363275	-1	None	None
17	None	ENSG00000255987	ENST00000540082	processed_pseudogene	KNOWN	None	None	None	None	33841785	33842205	-1	None	None
3	EPHA6	ENSG00000080224	ENST00000470610	protein_coding	PUTATIVE	None	19296	1644	547	96533425	96963540	1	None	FLJ35246
3	EPHA6	ENSG00000080224	ENST00000389672	protein_coding	KNOWN	CCDS46876	19296	3393	1130	96533430	97468085	1	None	FLJ35246
3	EPHA6	ENSG00000080224	ENST00000506569	protein_coding	PUTATIVE	None	19296	973	323	96533635	96728978	1	None	FLJ35246
3	EPHA6	ENSG00000080224	ENST00000503760	nonsense_mediated_decay	KNOWN	None	19296	627	208	97158454	97329668	1	None	FLJ35246
3	EPHA6	ENSG00000080224	ENST00000477384	nonsense_mediated_decay	KNOWN	None	19296	1122	373	97158454	97466375	1	None	FLJ35246
3	EPHA6	ENSG00000080224	ENST00000514100	protein_coding	NOVEL	None	19296	1197	398	97158474	97367417	1	None	FLJ35246
3	EPHA6	ENSG00000080224	ENST00000508345	nonsense_mediated_decay	KNOWN	None	19296	726	241	97160260	97356907	1	None	FLJ35246
3	EPHA6	ENSG00000080224	ENST00000502694	protein_coding	KNOWN	CCDS54616	19296	1005	334	97160260	97367421	1	None	FLJ35246
3	EPHA6	ENSG00000080224	ENST00000506349	nonsense_mediated_decay	KNOWN	None	19296	168	55	97466364	97471304	1	None	FLJ35246
3	EPHA6	ENSG00000080224	ENST00000542517	protein_coding	KNOWN	None	19296	858	285	96533621	96728968	1	None	FLJ35246
3	EPHA6	ENSG00000080224	ENST00000442602	protein_coding	KNOWN	None	19296	726	241	97167400	97356907	1	None	FLJ35246
9	None	ENSG00000268050	ENST00000599172	antisense	KNOWN	None	None	None	None	131938086	131939854	1	None	None
8	NDUFA5P12	ENSG00000248531	ENST00000503796	unprocessed_pseudogene	KNOWN	None	48854	None	None	48076493	48077147	1	None	None
1	None	ENSG00000226780	ENST00000425896	antisense	KNOWN	None	None	None	None	206214526	206223548	-1	None	None
10	CHEK2P5	ENSG00000234541	ENST00000423877	unprocessed_pseudogene	KNOWN	None	43581	None	None	39006326	39012360	1	None	None
6	SMIM13	ENSG00000224531	ENST00000416247	protein_coding	KNOWN	CCDS56396	27356	276	91	11094266	11138964	1	C6orf228	None
6	SMIM13	ENSG00000224531	ENST00000376935	nonsense_mediated_decay	KNOWN	CCDS56396	27356	276	91	11094464	11136044	1	C6orf228	None
2	MIR375	ENSG00000198973	ENST00000362103	miRNA	KNOWN	None	31868	None	None	219866362	219866431	-1	MIRN375	hsa-mir-375
3	MCCC1	ENSG00000078070	ENST00000265594	protein_coding	KNOWN	CCDS3241	6936	2178	725	182733006	182817375	-1	None	MCCA
3	MCCC1	ENSG00000078070	ENST00000492597	protein_coding	PUTATIVE	None	6936	1851	616	182733006	182833863	-1	None	MCCA
3	MCCC1	ENSG00000078070	ENST00000497830	nonsense_mediated_decay	KNOWN	None	6936	144	47	182733008	182817318	-1	None	MCCA
3	MCCC1	ENSG00000078070	ENST00000464601	retained_intron	KNOWN	None	6936	None	None	182733077	182740505	-1	None	MCCA
3	MCCC1	ENSG00000078070	ENST00000497959	nonsense_mediated_decay	KNOWN	None	6936	1305	434	182733077	182817031	-1	None	MCCA
3	MCCC1	ENSG00000078070	ENST00000495767	nonsense_mediated_decay	KNOWN	None	6936	186	61	182733339	182817306	-1	None	MCCA
3	MCCC1	ENSG00000078070	ENST00000476176	protein_coding	NOVEL	None	6936	1796	597	182737958	182817338	-1	None	MCCA
3	MCCC1	ENSG00000078070	ENST00000489909	processed_transcript	KNOWN	None	6936	None	None	182740257	182755143	-1	None	MCCA
3	MCCC1	ENSG00000078070	ENST00000490284	nonsense_mediated_decay	KNOWN	None	6936	171	56	182788794	182817311	-1	None	MCCA
3	MCCC1	ENSG00000078070	ENST00000487634	nonsense_mediated_decay	KNOWN	None	6936	186	61	182788834	182817306	-1	None	MCCA
3	MCCC1	ENSG00000078070	ENST00000466650	nonsense_mediated_decay	KNOWN	None	6936	144	47	182788836	182817318	-1	None	MCCA
3	MCCC1	ENSG00000078070	ENST00000486226	nonsense_mediated_decay	KNOWN	None	6936	339	112	182790215	182817283	-1	None	MCCA
3	MCCC1	ENSG00000078070	ENST00000473955	retained_intron	KNOWN	None	6936	None	None	182810161	182812395	-1	None	MCCA
3	MCCC1	ENSG00000078070	ENST00000539926	protein_coding	KNOWN	None	6936	1281	426	182733339	182817306	-1	None	MCCA
2	None	ENSG00000225813	ENST00000429684	processed_pseudogene	KNOWN	None	None	None	None	162138413	162139129	1	None	None
8	RNA5SP259	ENSG00000202411	ENST00000365541	rRNA	KNOWN	None	43159	None	None	28387928	28388036	1	RN5S259	None
17	None	ENSG00000267035	ENST00000585536	lincRNA	KNOWN	None	None	None	None	33867058	33867816	-1	None	None
9	PRRX2	ENSG00000167157	ENST00000372469	protein_coding	KNOWN	CCDS6926	21338	762	253	132427920	132484875	1	None	PRX2, PMX2
1	None	ENSG00000230718	ENST00000441166	processed_pseudogene	KNOWN	None	None	None	None	98240225	98240582	1	None	None
1	None	ENSG00000252692	ENST00000516883	snoRNA	NOVEL	None	None	None	None	206261008	206261093	-1	None	None
15	RN7SL286P	ENSG00000242480	ENST00000493229	misc_RNA	KNOWN	None	46302	None	None	32894330	32894608	1	None	None
18	SOCS6	ENSG00000170677	ENST00000397942	protein_coding	KNOWN	CCDS11998	16833	1608	535	67956137	67997436	1	SOCS4	CIS4, SSI4, HSPC060, STATI4, STAI4, Cish4
18	SOCS6	ENSG00000170677	ENST00000578377	protein_coding	KNOWN	None	16833	683	226	67963835	67992587	1	SOCS4	CIS4, SSI4, HSPC060, STATI4, STAI4, Cish4
18	SOCS6	ENSG00000170677	ENST00000582322	protein_coding	KNOWN	CCDS11998	16833	1608	535	67981426	67994352	1	SOCS4	CIS4, SSI4, HSPC060, STATI4, STAI4, Cish4
2	None	ENSG00000224090	ENST00000441450	antisense	KNOWN	None	None	None	None	219866937	219880443	1	None	None
10	None	ENSG00000227679	ENST00000423458	processed_pseudogene	KNOWN	None	None	None	None	39055226	39055622	-1	None	None
17	None	ENSG00000267359	ENST00000588445	antisense	KNOWN	None	None	None	None	33880224	33881786	1	None	None
22	None	ENSG00000232396	ENST00000416352	antisense	KNOWN	None	None	None	None	30101245	30115848	-1	None	None
22	None	ENSG00000232396	ENST00000451180	antisense	KNOWN	None	None	None	None	30107802	30115737	-1	None	None
X	None	ENSG00000236205	ENST00000412173	unprocessed_pseudogene	KNOWN	None	None	None	None	141235648	141236652	-1	None	None
12	RNU6-148P	ENSG00000252823	ENST00000517014	snRNA	KNOWN	None	47111	None	None	90147836	90147929	1	None	None
2	None	ENSG00000230603	ENST00000451001	processed_pseudogene	KNOWN	None	None	None	None	110422786	110423319	1	None	None
1	None	ENSG00000240754	ENST00000436158	lincRNA	KNOWN	None	None	None	None	206288156	206306115	-1	None	None
1	None	ENSG00000240754	ENST00000417522	lincRNA	KNOWN	None	None	None	None	206288269	206289577	-1	None	None
1	None	ENSG00000240754	ENST00000455672	lincRNA	KNOWN	None	None	None	None	206296385	206306131	-1	None	None
4	BMP2K	ENSG00000138756	ENST00000389010	nonsense_mediated_decay	KNOWN	None	18041	1068	355	79697496	79800589	1	None	DKFZp434K0614, BIKe
4	BMP2K	ENSG00000138756	ENST00000502871	protein_coding	KNOWN	CCDS34019	18041	1989	662	79697532	79801123	1	None	DKFZp434K0614, BIKe
4	BMP2K	ENSG00000138756	ENST00000505725	retained_intron	KNOWN	None	18041	None	None	79772046	79786927	1	None	DKFZp434K0614, BIKe
4	BMP2K	ENSG00000138756	ENST00000515075	retained_intron	KNOWN	None	18041	None	None	79780321	79782623	1	None	DKFZp434K0614, BIKe
4	BMP2K	ENSG00000138756	ENST00000502613	protein_coding	PUTATIVE	None	18041	2563	853	79780778	79837526	1	None	DKFZp434K0614, BIKe
4	BMP2K	ENSG00000138756	ENST00000507670	retained_intron	KNOWN	None	18041	None	None	79793482	79800586	1	None	DKFZp434K0614, BIKe
4	BMP2K	ENSG00000138756	ENST00000335016	protein_coding	KNOWN	CCDS47083	18041	3486	1161	79697532	79833339	1	None	DKFZp434K0614, BIKe
2	None	ENSG00000232320	ENST00000482477	processed_pseudogene	KNOWN	None	None	None	None	162197327	162197837	-1	None	None
2	None	ENSG00000232320	ENST00000331934	processed_pseudogene	KNOWN	None	None	None	None	162197325	162197837	-1	None	None
15	None	ENSG00000259593	ENST00000559945	processed_pseudogene	KNOWN	None	None	None	None	46633552	46633797	1	None	None
10	None	ENSG00000233832	ENST00000427864	processed_pseudogene	KNOWN	None	None	None	None	39076135	39076239	1	None	None
2	ARID5A	ENSG00000196843	ENST00000470579	retained_intron	KNOWN	None	17361	None	None	97202480	97216022	1	None	MRF-1, RP11-363D14
2	ARID5A	ENSG00000196843	ENST00000357485	protein_coding	KNOWN	CCDS33251	17361	1785	594	97202486	97218375	1	None	MRF-1, RP11-363D14
2	ARID5A	ENSG00000196843	ENST00000412735	nonsense_mediated_decay	KNOWN	None	17361	177	58	97202489	97218367	1	None	MRF-1, RP11-363D14
2	ARID5A	ENSG00000196843	ENST00000467498	retained_intron	KNOWN	None	17361	None	None	97202504	97216902	1	None	MRF-1, RP11-363D14
2	ARID5A	ENSG00000196843	ENST00000454558	protein_coding	PUTATIVE	None	17361	1581	526	97203082	97218371	1	None	MRF-1, RP11-363D14
2	ARID5A	ENSG00000196843	ENST00000497920	retained_intron	KNOWN	None	17361	None	None	97213127	97218371	1	None	MRF-1, RP11-363D14
12	None	ENSG00000258115	ENST00000548885	antisense	KNOWN	None	None	None	None	72439929	72451157	-1	None	None
1	DPYD-AS2	ENSG00000235777	ENST00000431362	antisense	KNOWN	None	40196	None	None	98262477	98263424	1	None	None
1	DPYD-AS2	ENSG00000235777	ENST00000422259	antisense	KNOWN	None	40196	None	None	98262521	98263622	1	None	None
7	None	ENSG00000223969	ENST00000415965	antisense	KNOWN	None	None	None	None	90219933	90225062	-1	None	None
7	None	ENSG00000223969	ENST00000441971	antisense	KNOWN	None	None	None	None	90219937	90225204	-1	None	None
7	None	ENSG00000223969	ENST00000412669	antisense	KNOWN	None	None	None	None	90219937	90226667	-1	None	None
17	None	ENSG00000267625	ENST00000591634	lincRNA	KNOWN	None	None	None	None	33888558	33889096	-1	None	None
3	C3orf18	ENSG00000088543	ENST00000426034	protein_coding	KNOWN	CCDS2829	24837	489	162	50595462	50605096	-1	None	G20
3	C3orf18	ENSG00000088543	ENST00000357203	protein_coding	KNOWN	CCDS2829	24837	489	162	50595462	50605182	-1	None	G20
3	C3orf18	ENSG00000088543	ENST00000449241	protein_coding	KNOWN	CCDS2829	24837	489	162	50595463	50608422	-1	None	G20
3	C3orf18	ENSG00000088543	ENST00000441239	protein_coding	KNOWN	CCDS54589	24837	429	142	50596242	50605107	-1	None	G20
3	C3orf18	ENSG00000088543	ENST00000430746	nonsense_mediated_decay	KNOWN	None	24837	315	104	50596653	50605111	-1	None	G20
3	C3orf18	ENSG00000088543	ENST00000485902	processed_transcript	KNOWN	None	24837	None	None	50596711	50605073	-1	None	G20
3	C3orf18	ENSG00000088543	ENST00000486175	processed_transcript	KNOWN	None	24837	None	None	50596714	50605052	-1	None	G20
3	C3orf18	ENSG00000088543	ENST00000464080	processed_transcript	KNOWN	None	24837	None	None	50596885	50608458	-1	None	G20
3	C3orf18	ENSG00000088543	ENST00000422619	protein_coding	PUTATIVE	None	24837	333	110	50596956	50599342	-1	None	G20
3	C3orf18	ENSG00000088543	ENST00000484982	processed_transcript	KNOWN	None	24837	None	None	50597030	50605056	-1	None	G20
3	C3orf18	ENSG00000088543	ENST00000491269	processed_transcript	KNOWN	None	24837	None	None	50602815	50605107	-1	None	G20
2	MIR3131	ENSG00000264755	ENST00000583592	miRNA	KNOWN	None	38347	None	None	219923410	219923472	-1	None	hsa-mir-3131
12	None	ENSG00000258210	ENST00000550231	retained_intron	KNOWN	None	None	None	None	110825268	110883353	-1	None	None
2	None	ENSG00000221590	ENST00000408663	miRNA	NOVEL	None	None	None	None	162206728	162206871	-1	None	None
1	PADI2	ENSG00000117115	ENST00000375486	protein_coding	KNOWN	CCDS177	18341	1998	665	17393256	17445930	-1	None	KIAA0994, PDI2
1	PADI2	ENSG00000117115	ENST00000479534	processed_transcript	KNOWN	None	18341	None	None	17394095	17401846	-1	None	KIAA0994, PDI2
1	PADI2	ENSG00000117115	ENST00000466151	processed_transcript	KNOWN	None	18341	None	None	17394281	17409921	-1	None	KIAA0994, PDI2
1	PADI2	ENSG00000117115	ENST00000375481	protein_coding	KNOWN	None	18341	1314	437	17405526	17445930	-1	None	KIAA0994, PDI2
1	PADI2	ENSG00000117115	ENST00000444885	protein_coding	KNOWN	None	18341	1650	549	17394938	17445948	-1	None	KIAA0994, PDI2
10	KSR1P1	ENSG00000229485	ENST00000446298	processed_pseudogene	KNOWN	None	44977	None	None	42644758	42644997	-1	None	None
19	CIRBP	ENSG00000099622	ENST00000588030	protein_coding	KNOWN	CCDS12059	1982	519	172	1259384	1273171	1	None	CIRP
19	CIRBP	ENSG00000099622	ENST00000588411	protein_coding	KNOWN	None	1982	315	104	1261155	1271432	1	None	CIRP
19	CIRBP	ENSG00000099622	ENST00000592467	retained_intron	KNOWN	None	1982	None	None	1261165	1264571	1	None	CIRP
19	CIRBP	ENSG00000099622	ENST00000591622	retained_intron	KNOWN	None	1982	None	None	1261341	1264571	1	None	CIRP
19	CIRBP	ENSG00000099622	ENST00000592051	protein_coding	KNOWN	None	1982	96	31	1261381	1271028	1	None	CIRP
19	CIRBP	ENSG00000099622	ENST00000589161	retained_intron	KNOWN	None	1982	None	None	1261820	1264697	1	None	CIRP
19	CIRBP	ENSG00000099622	ENST00000589660	protein_coding	KNOWN	CCDS12059	1982	519	172	1266652	1272641	1	None	CIRP
19	CIRBP	ENSG00000099622	ENST00000589266	protein_coding	PUTATIVE	None	1982	268	88	1266802	1272995	1	None	CIRP
19	CIRBP	ENSG00000099622	ENST00000588090	protein_coding	KNOWN	CCDS12059	1982	519	172	1267087	1272731	1	None	CIRP
19	CIRBP	ENSG00000099622	ENST00000592815	protein_coding	KNOWN	None	1982	112	36	1267153	1271044	1	None	CIRP
19	CIRBP	ENSG00000099622	ENST00000591935	protein_coding	PUTATIVE	None	1982	507	168	1267228	1274479	1	None	CIRP
19	CIRBP	ENSG00000099622	ENST00000586548	protein_coding	KNOWN	None	1982	479	158	1267338	1272027	1	None	CIRP
19	CIRBP	ENSG00000099622	ENST00000585913	nonsense_mediated_decay	KNOWN	None	1982	507	168	1267411	1274832	1	None	CIRP
19	CIRBP	ENSG00000099622	ENST00000593128	retained_intron	KNOWN	None	1982	None	None	1269330	1272551	1	None	CIRP
19	CIRBP	ENSG00000099622	ENST00000589710	protein_coding	PUTATIVE	None	1982	894	297	1269330	1273139	1	None	CIRP
19	CIRBP	ENSG00000099622	ENST00000588230	protein_coding	PUTATIVE	None	1982	894	297	1269331	1272476	1	None	CIRP
19	CIRBP	ENSG00000099622	ENST00000591097	nonsense_mediated_decay	KNOWN	None	1982	183	60	1269331	1272603	1	None	CIRP
19	CIRBP	ENSG00000099622	ENST00000590704	retained_intron	KNOWN	None	1982	None	None	1269331	1272776	1	None	CIRP
19	CIRBP	ENSG00000099622	ENST00000413636	protein_coding	PUTATIVE	None	1982	792	263	1269331	1273108	1	None	CIRP
19	CIRBP	ENSG00000099622	ENST00000586472	protein_coding	KNOWN	CCDS12059	1982	519	172	1269331	1273171	1	None	CIRP
19	CIRBP	ENSG00000099622	ENST00000589686	protein_coding	PUTATIVE	None	1982	507	168	1269331	1274362	1	None	CIRP
19	CIRBP	ENSG00000099622	ENST00000593093	retained_intron	KNOWN	None	1982	None	None	1269331	1274806	1	None	CIRP
19	CIRBP	ENSG00000099622	ENST00000590347	nonsense_mediated_decay	KNOWN	None	1982	408	135	1269332	1274804	1	None	CIRP
19	CIRBP	ENSG00000099622	ENST00000593283	retained_intron	KNOWN	None	1982	None	None	1269334	1271493	1	None	CIRP
19	CIRBP	ENSG00000099622	ENST00000587169	nonsense_mediated_decay	KNOWN	None	1982	240	79	1269334	1274806	1	None	CIRP
19	CIRBP	ENSG00000099622	ENST00000593048	nonsense_mediated_decay	KNOWN	None	1982	240	79	1269335	1272599	1	None	CIRP
19	CIRBP	ENSG00000099622	ENST00000587323	protein_coding	PUTATIVE	None	1982	894	297	1269336	1272527	1	None	CIRP
19	CIRBP	ENSG00000099622	ENST00000320936	protein_coding	KNOWN	CCDS12059	1982	519	172	1269336	1273171	1	None	CIRP
19	CIRBP	ENSG00000099622	ENST00000592412	nonsense_mediated_decay	KNOWN	None	1982	240	79	1269343	1272391	1	None	CIRP
19	CIRBP	ENSG00000099622	ENST00000586636	nonsense_mediated_decay	KNOWN	None	1982	507	168	1269346	1274879	1	None	CIRP
19	CIRBP	ENSG00000099622	ENST00000591055	nonsense_mediated_decay	KNOWN	None	1982	408	135	1269347	1272802	1	None	CIRP
19	CIRBP	ENSG00000099622	ENST00000591376	nonsense_mediated_decay	KNOWN	None	1982	240	79	1269347	1274879	1	None	CIRP
19	CIRBP	ENSG00000099622	ENST00000587896	protein_coding	PUTATIVE	None	1982	894	297	1269349	1272549	1	None	CIRP
19	CIRBP	ENSG00000099622	ENST00000589235	protein_coding	PUTATIVE	None	1982	507	168	1269349	1274809	1	None	CIRP
19	CIRBP	ENSG00000099622	ENST00000591659	protein_coding	PUTATIVE	None	1982	521	172	1269350	1271638	1	None	CIRP
19	CIRBP	ENSG00000099622	ENST00000585914	nonsense_mediated_decay	KNOWN	None	1982	609	202	1269351	1274772	1	None	CIRP
19	CIRBP	ENSG00000099622	ENST00000590171	nonsense_mediated_decay	KNOWN	None	1982	183	60	1269355	1272373	1	None	CIRP
19	CIRBP	ENSG00000099622	ENST00000588344	protein_coding	KNOWN	None	1982	210	69	1270273	1271245	1	None	CIRP
19	CIRBP	ENSG00000099622	ENST00000585630	protein_coding	KNOWN	CCDS12059	1982	519	172	1270865	1272675	1	None	CIRP
19	CIRBP	ENSG00000099622	ENST00000586773	protein_coding	PUTATIVE	None	1982	507	168	1270884	1274594	1	None	CIRP
19	CIRBP	ENSG00000099622	ENST00000587812	retained_intron	KNOWN	None	1982	None	None	1271166	1272056	1	None	CIRP
19	CIRBP	ENSG00000099622	ENST00000592234	nonsense_mediated_decay	KNOWN	None	1982	256	84	1271548	1274809	1	None	CIRP
19	CIRBP	ENSG00000099622	ENST00000590188	processed_transcript	KNOWN	None	1982	None	None	1272916	1274439	1	None	CIRP
19	CIRBP	ENSG00000099622	ENST00000588917	retained_intron	KNOWN	None	1982	None	None	1273347	1274809	1	None	CIRP
19	CIRBP	ENSG00000099622	ENST00000586555	retained_intron	KNOWN	None	1982	None	None	1273503	1274580	1	None	CIRP
19	CIRBP	ENSG00000099622	ENST00000444172	protein_coding	KNOWN	None	1982	735	244	1269334	1274806	1	None	CIRP
17	None	ENSG00000242660	ENST00000495111	processed_pseudogene	KNOWN	None	None	None	None	33893536	33893691	1	None	None
1	MTX1P1	ENSG00000236675	ENST00000440904	unprocessed_pseudogene	KNOWN	None	7505	None	None	155200766	155204116	1	MTXP, MTX1P	None
11	None	ENSG00000201535	ENST00000364665	misc_RNA	NOVEL	None	None	None	None	118706719	118706819	1	None	None
2	None	ENSG00000271924	ENST00000605921	rRNA	NOVEL	None	None	None	None	162266065	162266181	1	None	None
2	RN7SL764P	ENSG00000240317	ENST00000487337	misc_RNA	KNOWN	None	46780	None	None	219967156	219967437	1	None	None
10	IGKV1OR10-1	ENSG00000237592	ENST00000442306	IG_V_pseudogene	KNOWN	None	44978	None	None	42680787	42681239	1	None	IGKV1/OR10-1
2	KRT18P26	ENSG00000229798	ENST00000454475	processed_pseudogene	KNOWN	None	33395	None	None	74533855	74535135	-1	None	None
1	None	ENSG00000229509	ENST00000426884	unprocessed_pseudogene	KNOWN	None	None	None	None	206506678	206506789	-1	None	None
HG7_PATCH	EPHB6	ENSG00000260195	ENST00000565826	protein_coding	KNOWN	None	3396	3069	1022	142615936	142632056	1	None	HEP
HG7_PATCH	EPHB6	ENSG00000260195	ENST00000569870	processed_transcript	KNOWN	None	3396	None	None	142616080	142623098	1	None	HEP
HG7_PATCH	EPHB6	ENSG00000260195	ENST00000567088	retained_intron	KNOWN	None	3396	None	None	142616100	142632056	1	None	HEP
HG7_PATCH	EPHB6	ENSG00000260195	ENST00000564433	nonsense_mediated_decay	KNOWN	None	3396	153	50	142616119	142632049	1	None	HEP
HG7_PATCH	EPHB6	ENSG00000260195	ENST00000569743	nonsense_mediated_decay	KNOWN	None	3396	552	183	142623000	142632049	1	None	HEP
HG7_PATCH	EPHB6	ENSG00000260195	ENST00000563756	retained_intron	KNOWN	None	3396	None	None	142628245	142632056	1	None	HEP
HG7_PATCH	EPHB6	ENSG00000260195	ENST00000567725	retained_intron	KNOWN	None	3396	None	None	142630735	142631578	1	None	HEP
HG7_PATCH	EPHB6	ENSG00000260195	ENST00000566421	protein_coding	PUTATIVE	None	3396	357	118	142630861	142632054	1	None	HEP
HG7_PATCH	EPHB6	ENSG00000260195	ENST00000568187	protein_coding	NOVEL	None	3396	339	112	142630894	142632056	1	None	HEP
15	None	ENSG00000260444	ENST00000566048	unprocessed_pseudogene	KNOWN	None	None	None	None	28810132	28810298	-1	None	None
8	None	ENSG00000254348	ENST00000521874	processed_pseudogene	KNOWN	None	None	None	None	48100928	48101183	1	None	None
2	None	ENSG00000224076	ENST00000444164	antisense	KNOWN	None	None	None	None	162279170	162279646	-1	None	None
2	None	ENSG00000224076	ENST00000437683	antisense	KNOWN	None	None	None	None	162279170	162280088	-1	None	None
1	None	ENSG00000270911	ENST00000604863	processed_pseudogene	KNOWN	None	None	None	None	98321131	98322381	1	None	None
8	EXTL3-AS1	ENSG00000246339	ENST00000501224	antisense	KNOWN	None	27985	None	None	28553718	28558836	-1	C8orf50	None
8	EXTL3-AS1	ENSG00000246339	ENST00000523789	antisense	KNOWN	None	27985	None	None	28555729	28558047	-1	C8orf50	None
8	EXTL3-AS1	ENSG00000246339	ENST00000520023	antisense	KNOWN	None	27985	None	None	28555920	28558981	-1	C8orf50	None
8	EXTL3-AS1	ENSG00000246339	ENST00000519870	antisense	KNOWN	None	27985	None	None	28557642	28558770	-1	C8orf50	None
HG104_HG975_PATCH	MAPK15	ENSG00000260463	ENST00000565147	protein_coding	KNOWN	None	24667	1635	544	144798429	144804628	1	None	ERK8, ERK7
HG104_HG975_PATCH	MAPK15	ENSG00000260463	ENST00000569522	retained_intron	KNOWN	None	24667	None	None	144798510	144804628	1	None	ERK8, ERK7
HG104_HG975_PATCH	MAPK15	ENSG00000260463	ENST00000563021	retained_intron	KNOWN	None	24667	None	None	144798519	144800472	1	None	ERK8, ERK7
HG104_HG975_PATCH	MAPK15	ENSG00000260463	ENST00000567917	protein_coding	KNOWN	None	24667	834	277	144798548	144802461	1	None	ERK8, ERK7
HG104_HG975_PATCH	MAPK15	ENSG00000260463	ENST00000566107	protein_coding	KNOWN	None	24667	765	254	144798548	144802761	1	None	ERK8, ERK7
HG104_HG975_PATCH	MAPK15	ENSG00000260463	ENST00000565612	retained_intron	KNOWN	None	24667	None	None	144802362	144803526	1	None	ERK8, ERK7
HG104_HG975_PATCH	MAPK15	ENSG00000260463	ENST00000569884	retained_intron	KNOWN	None	24667	None	None	144802868	144804029	1	None	ERK8, ERK7
HG104_HG975_PATCH	MAPK15	ENSG00000260463	ENST00000562864	retained_intron	KNOWN	None	24667	None	None	144803718	144804302	1	None	ERK8, ERK7
2	RNU6-542P	ENSG00000252214	ENST00000516405	snRNA	KNOWN	None	47505	None	None	74546526	74546628	1	None	None
1	None	ENSG00000269998	ENST00000602672	lincRNA	KNOWN	None	None	None	None	98399030	98407302	-1	None	None
7	TAS2R62P	ENSG00000234066	ENST00000433466	unitary_pseudogene	KNOWN	None	20640	None	None	143134127	143135066	1	None	T2R62, TAS2R62
10	PPP1R3C	ENSG00000119938	ENST00000238994	protein_coding	KNOWN	CCDS7416	9293	954	317	93388199	93392811	-1	PPP1R5	PTG
14	None	ENSG00000259012	ENST00000555160	processed_pseudogene	KNOWN	None	None	None	None	84642763	84643432	1	None	None
2	NECAP1P2	ENSG00000234632	ENST00000455668	processed_pseudogene	KNOWN	None	43913	None	None	74577196	74578136	1	None	None
8	OR7E15P	ENSG00000254917	ENST00000533484	processed_pseudogene	KNOWN	None	8386	None	None	12553816	12554782	-1	OR7E80P, OR7E42P	OR11-392, OST001
7	None	ENSG00000238739	ENST00000459044	snoRNA	NOVEL	None	None	None	None	90236318	90236422	-1	None	None
15	None	ENSG00000261441	ENST00000569473	antisense	KNOWN	None	None	None	None	89878284	89879392	1	None	None
15	None	ENSG00000261441	ENST00000562356	antisense	KNOWN	None	None	None	None	89878502	89879392	1	None	None
12	None	ENSG00000258216	ENST00000547370	lincRNA	KNOWN	None	None	None	None	90276442	90330920	1	None	None
12	None	ENSG00000258216	ENST00000549551	lincRNA	KNOWN	None	None	None	None	90313469	90383066	1	None	None
1	None	ENSG00000259946	ENST00000561881	lincRNA	KNOWN	None	None	None	None	98432561	98434370	-1	None	None
1	SRGAP2-AS1	ENSG00000233501	ENST00000450872	antisense	KNOWN	None	40902	None	None	206552219	206554954	-1	None	None
19	None	ENSG00000269410	ENST00000601124	lincRNA	KNOWN	None	None	None	None	39916575	39919055	1	None	None
7	TVP23CP1	ENSG00000223584	ENST00000450317	processed_pseudogene	KNOWN	None	44646	None	None	90261220	90261882	1	None	None
14	None	ENSG00000259047	ENST00000554223	processed_pseudogene	KNOWN	None	None	None	None	43458404	43458686	1	None	None
11	RNA5SP337	ENSG00000252816	ENST00000517007	rRNA	KNOWN	None	43237	None	None	21405347	21405455	-1	RN5S337	None
13	None	ENSG00000238407	ENST00000459616	snoRNA	NOVEL	None	None	None	None	98538063	98538166	1	None	None
6	None	ENSG00000228412	ENST00000607810	lincRNA	KNOWN	None	None	None	None	19802395	19804981	-1	None	None
6	None	ENSG00000228412	ENST00000447250	lincRNA	KNOWN	None	None	None	None	19803602	19804877	-1	None	None
6	None	ENSG00000228412	ENST00000457670	lincRNA	KNOWN	None	None	None	None	19803838	19804973	-1	None	None
6	None	ENSG00000228412	ENST00000606628	lincRNA	KNOWN	None	None	None	None	19803911	19804983	-1	None	None
6	None	ENSG00000228412	ENST00000607233	lincRNA	KNOWN	None	None	None	None	19803947	19804599	-1	None	None
19	None	ENSG00000269792	ENST00000594676	antisense	KNOWN	None	None	None	None	40023052	40025062	1	None	None
2	None	ENSG00000251621	ENST00000505579	3prime_overlapping_ncrna	KNOWN	None	None	None	None	162280526	162285285	1	None	None
1	None	ENSG00000261000	ENST00000562504	antisense	KNOWN	None	None	None	None	206677281	206677789	1	None	None
7	OR2R1P	ENSG00000236853	ENST00000441404	unitary_pseudogene	KNOWN	None	8274	None	None	143185582	143186495	-1	OR2R1	OST058
2	TAF13P2	ENSG00000225658	ENST00000416876	processed_pseudogene	KNOWN	None	38161	None	None	74578261	74578546	1	None	None
17	None	ENSG00000267321	ENST00000592381	lincRNA	KNOWN	None	None	None	None	33895139	33901811	1	None	None
1	None	ENSG00000234981	ENST00000428027	processed_pseudogene	KNOWN	None	None	None	None	206702248	206703039	1	None	None
15	None	ENSG00000261581	ENST00000562845	unprocessed_pseudogene	KNOWN	None	None	None	None	28820165	28824546	-1	None	None
8	None	ENSG00000251744	ENST00000515935	snoRNA	NOVEL	None	None	None	None	140120673	140120777	1	None	None
1	MIR137HG	ENSG00000225206	ENST00000424528	lincRNA	KNOWN	None	42871	None	None	98453556	98515419	-1	None	None
1	MIR137HG	ENSG00000225206	ENST00000413670	lincRNA	KNOWN	None	42871	None	None	98508908	98511014	-1	None	None
1	MIR137HG	ENSG00000225206	ENST00000602852	lincRNA	KNOWN	None	42871	None	None	98509852	98511780	-1	None	None
1	MIR137HG	ENSG00000225206	ENST00000602984	lincRNA	KNOWN	None	42871	None	None	98510057	98511777	-1	None	None
1	MIR137HG	ENSG00000225206	ENST00000580305	miRNA	KNOWN	None	42871	None	None	98510798	98510907	-1	None	None
1	MIR137HG	ENSG00000225206	ENST00000385223	miRNA	KNOWN	None	42871	None	None	98511626	98511727	-1	None	None
1	MIR137HG	ENSG00000225206	ENST00000538428	lincRNA	KNOWN	None	42871	None	None	98508913	98511014	-1	None	None
11	TCEB2P2	ENSG00000255262	ENST00000526184	processed_pseudogene	KNOWN	None	39720	None	None	129902761	129903115	-1	None	None
11	TCEB2P2	ENSG00000255262	ENST00000535377	processed_pseudogene	KNOWN	None	39720	None	None	129902759	129903115	-1	None	None
19	TDGF1P7	ENSG00000269584	ENST00000593394	processed_pseudogene	KNOWN	None	11707	None	None	40025103	40025661	1	TDGF7	CR-7, CRIPTO-7
X	None	ENSG00000214628	ENST00000398690	processed_pseudogene	KNOWN	None	None	None	None	96208629	96209194	-1	None	None
2	None	ENSG00000231099	ENST00000433925	processed_pseudogene	KNOWN	None	None	None	None	110424705	110425579	1	None	None
8	None	ENSG00000253783	ENST00000517640	lincRNA	KNOWN	None	None	None	None	140126436	140140196	-1	None	None
20	PLAGL2	ENSG00000126003	ENST00000246229	protein_coding	KNOWN	CCDS13197	9047	1491	496	30780306	30795594	-1	None	ZNF900
7	PTP4A1P3	ENSG00000226254	ENST00000433661	processed_pseudogene	KNOWN	None	41930	None	None	90736689	90737108	1	None	None
2	None	ENSG00000272401	ENST00000482861	processed_transcript	KNOWN	None	None	None	None	162280843	162627545	1	None	None
2	None	ENSG00000272401	ENST00000605990	processed_transcript	KNOWN	None	None	None	None	162280884	162481076	1	None	None
2	None	ENSG00000272401	ENST00000606386	processed_transcript	KNOWN	None	None	None	None	162283964	162507800	1	None	None
11	None	ENSG00000254820	ENST00000530837	lincRNA	KNOWN	None	None	None	None	22134994	22138547	1	None	None
HSCHR6_MHC_SSTO	RNF5	ENSG00000227277	ENST00000445885	protein_coding	KNOWN	None	10068	543	180	32153001	32155440	1	None	NG2, G16, RING5, RMA1
HSCHR6_MHC_SSTO	RNF5	ENSG00000227277	ENST00000472060	protein_coding	PUTATIVE	None	10068	276	91	32153084	32154420	1	None	NG2, G16, RING5, RMA1
11	None	ENSG00000255372	ENST00000526935	antisense	KNOWN	None	None	None	None	22282755	22283802	-1	None	None
8	None	ENSG00000254258	ENST00000522373	lincRNA	KNOWN	None	None	None	None	140472305	140475259	-1	None	None
19	None	ENSG00000269588	ENST00000600089	unprocessed_pseudogene	KNOWN	None	None	None	None	40043674	40045996	1	None	None
1	None	ENSG00000216109	ENST00000401290	miRNA	NOVEL	None	None	None	None	155206540	155206628	-1	None	None
1	IFI44L	ENSG00000137959	ENST00000452835	protein_coding	KNOWN	None	17817	292	96	79085607	79093892	1	C1orf29	GS3686
1	IFI44L	ENSG00000137959	ENST00000476521	processed_transcript	KNOWN	None	17817	None	None	79086067	79107653	1	C1orf29	GS3686
1	IFI44L	ENSG00000137959	ENST00000370751	protein_coding	KNOWN	CCDS687	17817	1359	452	79086088	79108484	1	C1orf29	GS3686
1	IFI44L	ENSG00000137959	ENST00000459784	processed_transcript	KNOWN	None	17817	None	None	79086134	79102846	1	C1orf29	GS3686
1	IFI44L	ENSG00000137959	ENST00000476876	processed_transcript	KNOWN	None	17817	None	None	79086154	79107235	1	C1orf29	GS3686
1	IFI44L	ENSG00000137959	ENST00000486882	retained_intron	KNOWN	None	17817	None	None	79091355	79108484	1	C1orf29	GS3686
1	IFI44L	ENSG00000137959	ENST00000462041	processed_transcript	KNOWN	None	17817	None	None	79093591	79097332	1	C1orf29	GS3686
1	IFI44L	ENSG00000137959	ENST00000450498	protein_coding	PUTATIVE	None	17817	699	232	79093670	79095872	1	C1orf29	GS3686
1	IFI44L	ENSG00000137959	ENST00000474002	retained_intron	KNOWN	None	17817	None	None	79095320	79101668	1	C1orf29	GS3686
1	IFI44L	ENSG00000137959	ENST00000494910	retained_intron	KNOWN	None	17817	None	None	79102377	79107170	1	C1orf29	GS3686
1	IFI44L	ENSG00000137959	ENST00000342282	protein_coding	KNOWN	None	17817	585	194	79086130	79107863	1	C1orf29	GS3686
X	CASK	ENSG00000147044	ENST00000421587	protein_coding	KNOWN	CCDS48094	1497	2694	897	41374187	41782265	-1	TNRC8	LIN2, CAGH39, FGS4
X	CASK	ENSG00000147044	ENST00000378163	protein_coding	KNOWN	None	1497	2781	926	41378518	41782716	-1	TNRC8	LIN2, CAGH39, FGS4
X	CASK	ENSG00000147044	ENST00000378179	protein_coding	KNOWN	None	1497	1557	518	41378780	41449204	-1	TNRC8	LIN2, CAGH39, FGS4
X	CASK	ENSG00000147044	ENST00000378168	protein_coding	KNOWN	None	1497	1146	381	41378802	41420880	-1	TNRC8	LIN2, CAGH39, FGS4
X	CASK	ENSG00000147044	ENST00000378158	protein_coding	KNOWN	None	1497	2730	909	41378906	41782592	-1	TNRC8	LIN2, CAGH39, FGS4
X	CASK	ENSG00000147044	ENST00000378166	protein_coding	KNOWN	CCDS14257	1497	2766	921	41379343	41782268	-1	TNRC8	LIN2, CAGH39, FGS4
X	CASK	ENSG00000147044	ENST00000442742	protein_coding	KNOWN	CCDS48095	1497	2697	898	41379589	41782260	-1	TNRC8	LIN2, CAGH39, FGS4
X	CASK	ENSG00000147044	ENST00000472704	processed_transcript	KNOWN	None	1497	None	None	41411858	41437706	-1	TNRC8	LIN2, CAGH39, FGS4
X	CASK	ENSG00000147044	ENST00000378154	protein_coding	KNOWN	None	1497	1773	590	41418750	41782716	-1	TNRC8	LIN2, CAGH39, FGS4
X	CASK	ENSG00000147044	ENST00000469265	processed_transcript	KNOWN	None	1497	None	None	41494981	41524684	-1	TNRC8	LIN2, CAGH39, FGS4
X	CASK	ENSG00000147044	ENST00000486402	processed_transcript	KNOWN	None	1497	None	None	41519354	41525085	-1	TNRC8	LIN2, CAGH39, FGS4
X	CASK	ENSG00000147044	ENST00000468986	processed_transcript	KNOWN	None	1497	None	None	41602866	41782268	-1	TNRC8	LIN2, CAGH39, FGS4
X	CASK	ENSG00000147044	ENST00000477823	processed_transcript	KNOWN	None	1497	None	None	41646063	41782235	-1	TNRC8	LIN2, CAGH39, FGS4
X	CASK	ENSG00000147044	ENST00000318588	protein_coding	KNOWN	None	1497	2766	921	41374187	41782287	-1	TNRC8	LIN2, CAGH39, FGS4
X	CASK	ENSG00000147044	ENST00000361962	protein_coding	KNOWN	None	1497	2730	909	41374187	41782287	-1	TNRC8	LIN2, CAGH39, FGS4
8	None	ENSG00000255366	ENST00000528139	lincRNA	KNOWN	None	None	None	None	48102395	48104885	1	None	None
1	None	ENSG00000237605	ENST00000425161	antisense	KNOWN	None	None	None	None	206807994	206808967	-1	None	None
10	TLX1NB	ENSG00000236311	ENST00000445873	protein_coding	NOVEL	None	37183	369	122	102849078	102890883	-1	None	TD1, TDI, APT-B7
10	TLX1NB	ENSG00000236311	ENST00000425505	processed_transcript	KNOWN	None	37183	None	None	102850065	102890883	-1	None	TD1, TDI, APT-B7
2	DCTN1-AS1	ENSG00000237737	ENST00000416630	antisense	KNOWN	None	44151	None	None	74612613	74614153	1	None	None
2	DCTN1-AS1	ENSG00000237737	ENST00000418990	antisense	KNOWN	None	44151	None	None	74612623	74618554	1	None	None
2	DCTN1-AS1	ENSG00000237737	ENST00000426715	antisense	KNOWN	None	44151	None	None	74612624	74619031	1	None	None
2	DCTN1-AS1	ENSG00000237737	ENST00000427343	antisense	KNOWN	None	44151	None	None	74612630	74619360	1	None	None
2	DCTN1-AS1	ENSG00000237737	ENST00000412957	antisense	KNOWN	None	44151	None	None	74612651	74620023	1	None	None
2	DCTN1-AS1	ENSG00000237737	ENST00000437991	antisense	KNOWN	None	44151	None	None	74612845	74621009	1	None	None
1	None	ENSG00000229691	ENST00000429648	antisense	KNOWN	None	None	None	None	155279829	155280381	-1	None	None
3	MIR4270	ENSG00000263573	ENST00000581799	miRNA	KNOWN	None	38377	None	None	15537746	15537815	-1	None	hsa-mir-4270
9	None	ENSG00000268482	ENST00000599954	protein_coding	NOVEL	None	None	207	68	35361056	35361262	-1	None	None
5	KDM3B	ENSG00000120733	ENST00000314358	protein_coding	KNOWN	CCDS34242	1337	5286	1761	137688285	137772716	1	C5orf7, JMJD1B	KIAA1082, NET22
5	KDM3B	ENSG00000120733	ENST00000510866	nonsense_mediated_decay	KNOWN	None	1337	825	274	137708363	137772717	1	C5orf7, JMJD1B	KIAA1082, NET22
5	KDM3B	ENSG00000120733	ENST00000512928	retained_intron	KNOWN	None	1337	None	None	137708482	137717437	1	C5orf7, JMJD1B	KIAA1082, NET22
5	KDM3B	ENSG00000120733	ENST00000507996	nonsense_mediated_decay	KNOWN	None	1337	63	20	137722266	137771721	1	C5orf7, JMJD1B	KIAA1082, NET22
5	KDM3B	ENSG00000120733	ENST00000504095	retained_intron	KNOWN	None	1337	None	None	137733567	137735588	1	C5orf7, JMJD1B	KIAA1082, NET22
5	KDM3B	ENSG00000120733	ENST00000508386	processed_transcript	KNOWN	None	1337	None	None	137753497	137756474	1	C5orf7, JMJD1B	KIAA1082, NET22
5	KDM3B	ENSG00000120733	ENST00000505756	retained_intron	KNOWN	None	1337	None	None	137759824	137761546	1	C5orf7, JMJD1B	KIAA1082, NET22
5	KDM3B	ENSG00000120733	ENST00000509468	retained_intron	KNOWN	None	1337	None	None	137762430	137763775	1	C5orf7, JMJD1B	KIAA1082, NET22
5	KDM3B	ENSG00000120733	ENST00000394866	protein_coding	KNOWN	None	1337	4254	1417	137721865	137772716	1	C5orf7, JMJD1B	KIAA1082, NET22
5	KDM3B	ENSG00000120733	ENST00000542866	protein_coding	KNOWN	None	1337	2382	793	137722266	137771721	1	C5orf7, JMJD1B	KIAA1082, NET22
7	None	ENSG00000243144	ENST00000449361	lincRNA	KNOWN	None	None	None	None	90940683	90965056	1	None	None
7	None	ENSG00000243144	ENST00000419226	lincRNA	KNOWN	None	None	None	None	90941755	90965037	1	None	None
7	None	ENSG00000243144	ENST00000418395	lincRNA	KNOWN	None	None	None	None	90941755	91144724	1	None	None
14	None	ENSG00000260792	ENST00000564585	lincRNA	KNOWN	None	None	None	None	105127457	105131895	-1	None	None
7	OR10AC1P	ENSG00000176510	ENST00000439431	unprocessed_pseudogene	KNOWN	None	14758	None	None	143208055	143208723	-1	None	None
15	None	ENSG00000238819	ENST00000459482	snoRNA	NOVEL	None	None	None	None	46643860	46643944	-1	None	None
8	OR7E10P	ENSG00000254724	ENST00000526420	processed_pseudogene	KNOWN	None	8381	None	None	12560575	12561565	-1	None	OR11-1
15	RNU6-1014P	ENSG00000238456	ENST00000383940	snRNA	KNOWN	None	47977	None	None	46952856	46952958	1	None	None
19	None	ENSG00000269188	ENST00000601963	unprocessed_pseudogene	KNOWN	None	None	None	None	40074682	40077129	1	None	None
4	CISD2	ENSG00000145354	ENST00000273986	protein_coding	KNOWN	CCDS34040	24212	408	135	103790135	103810399	1	ZCD2, WFS2	Miner1, ERIS
4	CISD2	ENSG00000145354	ENST00000574446	nonsense_mediated_decay	KNOWN	None	24212	144	47	103790211	103808516	1	ZCD2, WFS2	Miner1, ERIS
4	CISD2	ENSG00000145354	ENST00000503643	protein_coding	PUTATIVE	None	24212	438	145	103790493	103808913	1	ZCD2, WFS2	Miner1, ERIS
1	None	ENSG00000252853	ENST00000517044	snoRNA	NOVEL	None	None	None	None	206855308	206855380	1	None	None
8	ATP6V1G1P2	ENSG00000253502	ENST00000522436	processed_pseudogene	KNOWN	None	29359	None	None	48105625	48105970	-1	ATP6V1GP2	None
3	RN7SL110P	ENSG00000241064	ENST00000498222	misc_RNA	KNOWN	None	46126	None	None	15548132	15548412	-1	None	None
1	RUSC1-AS1	ENSG00000225855	ENST00000446880	antisense	KNOWN	None	26680	None	None	155286654	155291335	-1	C1orf104	FLJ35976
1	RUSC1-AS1	ENSG00000225855	ENST00000443642	antisense	KNOWN	None	26680	None	None	155287737	155293959	-1	C1orf104	FLJ35976
1	RUSC1-AS1	ENSG00000225855	ENST00000450199	antisense	KNOWN	None	26680	None	None	155289950	155293967	-1	C1orf104	FLJ35976
1	RUSC1-AS1	ENSG00000225855	ENST00000543656	antisense	KNOWN	None	26680	None	None	155287224	155291318	-1	C1orf104	FLJ35976
1	None	ENSG00000224114	ENST00000451736	processed_pseudogene	KNOWN	None	None	None	None	206869182	206869614	-1	None	None
6	None	ENSG00000229700	ENST00000446953	processed_pseudogene	KNOWN	None	None	None	None	20042686	20043171	-1	None	None
11	None	ENSG00000245869	ENST00000498872	antisense	KNOWN	None	None	None	None	118756550	118758451	-1	None	None
HSCHR6_MHC_DBB	HLA-DRA	ENSG00000228987	ENST00000416883	protein_coding	KNOWN	None	4947	765	254	32382335	32387545	1	HLA-DRA1	None
HSCHR6_MHC_DBB	HLA-DRA	ENSG00000228987	ENST00000481943	processed_transcript	PUTATIVE	None	4947	None	None	32382365	32385688	1	HLA-DRA1	None
HSCHR6_MHC_DBB	HLA-DRA	ENSG00000228987	ENST00000411505	protein_coding	KNOWN	None	4947	690	229	32382417	32387545	1	HLA-DRA1	None
2	AHCTF1P1	ENSG00000226121	ENST00000420969	processed_pseudogene	KNOWN	None	24620	None	None	162357396	162364216	-1	AHCTF1P	ELYS-like
2	AHCTF1P1	ENSG00000226121	ENST00000435109	processed_pseudogene	NOVEL	None	24620	None	None	162362408	162364216	-1	AHCTF1P	ELYS-like
2	None	ENSG00000233307	ENST00000443436	processed_pseudogene	KNOWN	None	None	None	None	110490308	110490713	1	None	None
11	None	ENSG00000254768	ENST00000528009	antisense	KNOWN	None	None	None	None	22305276	22359791	-1	None	None
11	None	ENSG00000254768	ENST00000530569	antisense	KNOWN	None	None	None	None	22339298	22359770	-1	None	None
11	None	ENSG00000254768	ENST00000531304	antisense	KNOWN	None	None	None	None	22341366	22359770	-1	None	None
14	None	ENSG00000258406	ENST00000554689	processed_pseudogene	KNOWN	None	None	None	None	43744027	43744900	1	None	None
2	ARHGEF33	ENSG00000214694	ENST00000409978	protein_coding	PUTATIVE	CCDS46263	37252	2613	870	39117021	39202590	1	None	None
2	ARHGEF33	ENSG00000214694	ENST00000488692	retained_intron	KNOWN	None	37252	None	None	39155921	39158450	1	None	None
2	ARHGEF33	ENSG00000214694	ENST00000486958	retained_intron	KNOWN	None	37252	None	None	39185051	39201084	1	None	None
2	ARHGEF33	ENSG00000214694	ENST00000483305	processed_transcript	PUTATIVE	None	37252	None	None	39185196	39187212	1	None	None
2	ARHGEF33	ENSG00000214694	ENST00000411874	protein_coding	PUTATIVE	None	37252	328	108	39187645	39201010	1	None	None
2	ARHGEF33	ENSG00000214694	ENST00000433605	protein_coding	PUTATIVE	None	37252	327	108	39187646	39200394	1	None	None
2	ARHGEF33	ENSG00000214694	ENST00000430382	processed_transcript	KNOWN	None	37252	None	None	39187702	39196782	1	None	None
2	ARHGEF33	ENSG00000214694	ENST00000398800	protein_coding	KNOWN	CCDS46263	37252	2613	870	39146504	39202586	1	None	None
2	ARHGEF33	ENSG00000214694	ENST00000536934	protein_coding	KNOWN	None	37252	2535	844	39146504	39199062	1	None	None
12	None	ENSG00000257384	ENST00000551138	processed_pseudogene	KNOWN	None	None	None	None	56126150	56126432	-1	None	None
4	None	ENSG00000248744	ENST00000515623	lincRNA	KNOWN	None	None	None	None	45011557	45053669	1	None	None
19	RPS29P24	ENSG00000244253	ENST00000486345	processed_pseudogene	KNOWN	None	35794	None	None	40079595	40079765	1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000257153	ENST00000551990	protein_coding	NOVEL	None	None	108	35	28730511	28730618	1	None	None
1	None	ENSG00000199349	ENST00000362479	misc_RNA	NOVEL	None	None	None	None	206921325	206921437	-1	None	None
1	GAPDHP51	ENSG00000236973	ENST00000426454	processed_pseudogene	KNOWN	None	38557	None	None	52172810	52173809	-1	None	None
3	None	ENSG00000234371	ENST00000445165	processed_transcript	PUTATIVE	None	None	None	None	183602712	183605782	1	None	None
3	None	ENSG00000234371	ENST00000416648	transcribed_processed_pseudogene	KNOWN	None	None	None	None	183605343	183606237	1	None	None
3	None	ENSG00000234371	ENST00000448655	processed_pseudogene	KNOWN	None	None	None	None	183605578	183606237	1	None	None
1	None	ENSG00000271680	ENST00000604222	processed_pseudogene	KNOWN	None	None	None	None	207079273	207079738	1	None	None
17	SNORD7	ENSG00000207297	ENST00000384567	snoRNA	KNOWN	None	32704	None	None	33900676	33900772	1	None	Z30, mgU6-47
11	GRM5-AS1	ENSG00000255082	ENST00000526448	antisense	KNOWN	None	40265	None	None	88237744	88257222	1	None	None
11	GRM5-AS1	ENSG00000255082	ENST00000531994	antisense	KNOWN	None	40265	None	None	88244916	88245529	1	None	None
2	None	ENSG00000238570	ENST00000458927	snoRNA	NOVEL	None	None	None	None	162415054	162415156	1	None	None
6	None	ENSG00000227803	ENST00000449143	antisense	KNOWN	None	None	None	None	20212318	20317970	1	None	None
15	LINC00925	ENSG00000255571	ENST00000536780	lincRNA	KNOWN	None	27388	None	None	89904810	89938551	1	None	None
15	LINC00925	ENSG00000255571	ENST00000560008	lincRNA	KNOWN	None	27388	None	None	89905705	89922463	1	None	None
15	LINC00925	ENSG00000255571	ENST00000561327	lincRNA	KNOWN	None	27388	None	None	89905718	89938562	1	None	None
15	LINC00925	ENSG00000255571	ENST00000560663	lincRNA	KNOWN	None	27388	None	None	89912386	89931074	1	None	None
15	LINC00925	ENSG00000255571	ENST00000560596	lincRNA	KNOWN	None	27388	None	None	89921280	89938544	1	None	None
15	LINC00925	ENSG00000255571	ENST00000558692	lincRNA	KNOWN	None	27388	None	None	89921331	89938354	1	None	None
15	LINC00925	ENSG00000255571	ENST00000538734	lincRNA	KNOWN	None	27388	None	None	89921347	89939471	1	None	None
15	LINC00925	ENSG00000255571	ENST00000559235	lincRNA	KNOWN	None	27388	None	None	89921362	89938500	1	None	None
15	LINC00925	ENSG00000255571	ENST00000558754	lincRNA	KNOWN	None	27388	None	None	89921794	89931745	1	None	None
15	LINC00925	ENSG00000255571	ENST00000558982	lincRNA	KNOWN	None	27388	None	None	89922355	89938350	1	None	None
15	LINC00925	ENSG00000255571	ENST00000561037	lincRNA	KNOWN	None	27388	None	None	89925731	89938271	1	None	None
15	LINC00925	ENSG00000255571	ENST00000546186	lincRNA	KNOWN	None	27388	None	None	89929827	89939471	1	None	None
4	PRKRIRP9	ENSG00000248320	ENST00000503971	processed_pseudogene	KNOWN	None	39573	None	None	45325270	45328045	-1	None	None
2	None	ENSG00000226946	ENST00000451026	processed_pseudogene	KNOWN	None	None	None	None	162425012	162426695	-1	None	None
17	None	ENSG00000267592	ENST00000587835	processed_pseudogene	KNOWN	None	None	None	None	33923923	33924147	-1	None	None
14	HNRNPUP1	ENSG00000259051	ENST00000554987	processed_pseudogene	KNOWN	None	19931	None	None	43769466	43769798	1	HNRPUP	None
3	MIR3134	ENSG00000264354	ENST00000579433	miRNA	KNOWN	None	38254	None	None	15738805	15738878	-1	None	hsa-mir-3134
1	None	ENSG00000226945	ENST00000446057	processed_pseudogene	KNOWN	None	None	None	None	207080964	207081574	1	None	None
6	RN7SL128P	ENSG00000240869	ENST00000467883	misc_RNA	KNOWN	None	46144	None	None	20421812	20422118	-1	None	None
8	MIR5692A2	ENSG00000264512	ENST00000582551	miRNA	KNOWN	None	43466	None	None	12576636	12576704	1	None	hsa-mir-5692a-2
8	MIR5692A1	ENSG00000264512	ENST00000582551	miRNA	KNOWN	None	43533	None	None	12576636	12576704	1	None	hsa-mir-5692a-1
17	NOL11	ENSG00000130935	ENST00000253247	protein_coding	KNOWN	CCDS11671	24557	2160	719	65713949	65740647	1	None	DKFZP586L0724
17	NOL11	ENSG00000130935	ENST00000581106	protein_coding	NOVEL	None	24557	567	188	65714047	65718744	1	None	DKFZP586L0724
17	NOL11	ENSG00000130935	ENST00000581966	processed_transcript	KNOWN	None	24557	None	None	65714061	65717556	1	None	DKFZP586L0724
17	NOL11	ENSG00000130935	ENST00000581375	nonsense_mediated_decay	KNOWN	None	24557	510	169	65714061	65740318	1	None	DKFZP586L0724
17	NOL11	ENSG00000130935	ENST00000584942	retained_intron	KNOWN	None	24557	None	None	65715502	65717586	1	None	DKFZP586L0724
17	NOL11	ENSG00000130935	ENST00000580833	protein_coding	NOVEL	None	24557	815	270	65717566	65733805	1	None	DKFZP586L0724
17	NOL11	ENSG00000130935	ENST00000580914	retained_intron	KNOWN	None	24557	None	None	65720225	65723144	1	None	DKFZP586L0724
17	NOL11	ENSG00000130935	ENST00000577687	retained_intron	KNOWN	None	24557	None	None	65732696	65734087	1	None	DKFZP586L0724
17	NOL11	ENSG00000130935	ENST00000583108	retained_intron	KNOWN	None	24557	None	None	65733155	65740267	1	None	DKFZP586L0724
17	NOL11	ENSG00000130935	ENST00000583021	protein_coding	PUTATIVE	None	24557	257	84	65735669	65740319	1	None	DKFZP586L0724
17	NOL11	ENSG00000130935	ENST00000584032	retained_intron	KNOWN	None	24557	None	None	65739500	65740267	1	None	DKFZP586L0724
17	NOL11	ENSG00000130935	ENST00000535137	protein_coding	KNOWN	None	24557	1614	537	65714061	65740318	1	None	DKFZP586L0724
2	KRT18P46	ENSG00000235716	ENST00000435568	processed_pseudogene	KNOWN	None	33416	None	None	162436582	162437860	1	None	None
7	None	ENSG00000229977	ENST00000411508	processed_pseudogene	KNOWN	None	None	None	None	143229842	143230257	-1	None	None
2	CLIP4	ENSG00000115295	ENST00000401605	protein_coding	NOVEL	None	26108	1800	599	29320571	29397579	1	RSNL2	FLJ21069
2	CLIP4	ENSG00000115295	ENST00000401617	protein_coding	PUTATIVE	None	26108	1716	571	29320594	29412509	1	RSNL2	FLJ21069
2	CLIP4	ENSG00000115295	ENST00000415891	nonsense_mediated_decay	KNOWN	None	26108	1488	495	29320607	29397507	1	RSNL2	FLJ21069
2	CLIP4	ENSG00000115295	ENST00000404424	protein_coding	KNOWN	CCDS1770	26108	2118	705	29336862	29404789	1	RSNL2	FLJ21069
2	CLIP4	ENSG00000115295	ENST00000456385	nonsense_mediated_decay	KNOWN	None	26108	294	97	29337744	29397578	1	RSNL2	FLJ21069
2	CLIP4	ENSG00000115295	ENST00000320081	protein_coding	KNOWN	CCDS1770	26108	2118	705	29338292	29406679	1	RSNL2	FLJ21069
2	CLIP4	ENSG00000115295	ENST00000449202	protein_coding	KNOWN	None	26108	644	213	29341061	29358528	1	RSNL2	FLJ21069
2	CLIP4	ENSG00000115295	ENST00000491701	retained_intron	KNOWN	None	26108	None	None	29344380	29355516	1	RSNL2	FLJ21069
2	CLIP4	ENSG00000115295	ENST00000471165	processed_transcript	KNOWN	None	26108	None	None	29353480	29354226	1	RSNL2	FLJ21069
2	CLIP4	ENSG00000115295	ENST00000438819	protein_coding	PUTATIVE	None	26108	279	92	29353537	29358484	1	RSNL2	FLJ21069
2	CLIP4	ENSG00000115295	ENST00000493551	retained_intron	KNOWN	None	26108	None	None	29383232	29390742	1	RSNL2	FLJ21069
2	CLIP4	ENSG00000115295	ENST00000481628	processed_transcript	KNOWN	None	26108	None	None	29398229	29404624	1	RSNL2	FLJ21069
6	None	ENSG00000252949	ENST00000517140	miRNA	NOVEL	None	None	None	None	20422549	20422632	1	None	None
11	OR56B2P	ENSG00000181017	ENST00000317102	unprocessed_pseudogene	KNOWN	None	15246	None	None	5786326	5787279	1	OR56B2	None
11	OR56B2P	ENSG00000181017	ENST00000545996	unprocessed_pseudogene	KNOWN	None	15246	None	None	5786383	5787261	1	OR56B2	None
12	FAM60A	ENSG00000139146	ENST00000448582	retained_intron	KNOWN	None	30702	None	None	31433518	31451455	-1	C12orf14	TERA
12	FAM60A	ENSG00000139146	ENST00000539409	protein_coding	PUTATIVE	None	30702	222	73	31433518	31479050	-1	C12orf14	TERA
12	FAM60A	ENSG00000139146	ENST00000337682	protein_coding	KNOWN	CCDS8723	30702	666	221	31433518	31479306	-1	C12orf14	TERA
12	FAM60A	ENSG00000139146	ENST00000454658	protein_coding	KNOWN	CCDS8723	30702	666	221	31434996	31477096	-1	C12orf14	TERA
12	FAM60A	ENSG00000139146	ENST00000544921	nonsense_mediated_decay	KNOWN	None	30702	178	58	31435573	31451109	-1	C12orf14	TERA
12	FAM60A	ENSG00000139146	ENST00000542983	protein_coding	PUTATIVE	None	30702	222	73	31435622	31479133	-1	C12orf14	TERA
12	FAM60A	ENSG00000139146	ENST00000539004	protein_coding	KNOWN	None	30702	403	133	31440671	31479992	-1	C12orf14	TERA
12	FAM60A	ENSG00000139146	ENST00000543615	protein_coding	KNOWN	None	30702	380	125	31440694	31478428	-1	C12orf14	TERA
12	FAM60A	ENSG00000139146	ENST00000536836	processed_transcript	KNOWN	None	30702	None	None	31456429	31479062	-1	C12orf14	TERA
12	FAM60A	ENSG00000139146	ENST00000395766	protein_coding	KNOWN	None	30702	222	73	31435232	31479070	-1	C12orf14	TERA
17	None	ENSG00000267003	ENST00000588135	antisense	KNOWN	None	None	None	None	34006411	34011922	-1	None	None
11	MIR4492	ENSG00000264211	ENST00000581627	miRNA	KNOWN	None	41563	None	None	118781417	118781496	1	None	hsa-mir-4492
19	RPS29P25	ENSG00000243581	ENST00000481709	processed_pseudogene	KNOWN	None	35649	None	None	40081621	40081791	1	None	None
17	None	ENSG00000266389	ENST00000585297	lincRNA	KNOWN	None	None	None	None	8869213	8870387	1	None	None
9	SNORA84	ENSG00000239183	ENST00000459229	snoRNA	KNOWN	None	33615	None	None	95054743	95054875	-1	None	None
6	E2F3-IT1	ENSG00000224707	ENST00000433182	sense_intronic	KNOWN	None	41329	None	None	20438052	20440409	1	None	None
2	RPL22P11	ENSG00000233707	ENST00000434894	processed_pseudogene	KNOWN	None	35603	None	None	110494716	110495100	-1	RPL22P15	None
2	RPL22P11	ENSG00000233707	ENST00000538228	processed_pseudogene	KNOWN	None	35603	None	None	110494713	110495099	-1	RPL22P15	None
2	None	ENSG00000234521	ENST00000448783	processed_pseudogene	KNOWN	None	None	None	None	74640147	74640608	-1	None	None
1	None	ENSG00000238401	ENST00000459582	snoRNA	NOVEL	None	None	None	None	207212039	207212145	-1	None	None
2	None	ENSG00000253046	ENST00000517237	miRNA	NOVEL	None	None	None	None	162775292	162775376	1	None	None
12	None	ENSG00000257509	ENST00000547009	sense_intronic	KNOWN	None	None	None	None	56155334	56156412	-1	None	None
1	NFU1P2	ENSG00000233557	ENST00000448700	processed_pseudogene	KNOWN	None	44554	None	None	98542556	98543024	1	None	None
HSCHR19LRC_PGF1_CTG1	None	ENSG00000265384	ENST00000579195	miRNA	KNOWN	None	None	None	None	55063157	55063228	-1	None	None
9	RUSC2	ENSG00000198853	ENST00000361226	protein_coding	KNOWN	CCDS35008	23625	4551	1516	35490124	35561889	1	None	KIAA0375
9	RUSC2	ENSG00000198853	ENST00000468041	processed_transcript	KNOWN	None	23625	None	None	35538977	35547233	1	None	KIAA0375
9	RUSC2	ENSG00000198853	ENST00000455600	protein_coding	KNOWN	CCDS35008	23625	4551	1516	35538629	35561895	1	None	KIAA0375
4	None	ENSG00000224560	ENST00000512696	processed_pseudogene	KNOWN	None	None	None	None	45416354	45416927	-1	None	None
9	None	ENSG00000229530	ENST00000456945	processed_pseudogene	KNOWN	None	None	None	None	95101940	95103945	-1	None	None
3	None	ENSG00000270409	ENST00000604625	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	15773759	15774911	1	None	None
3	None	ENSG00000270409	ENST00000605733	processed_transcript	KNOWN	None	None	None	None	15774334	15774977	1	None	None
13	RPL7AP61	ENSG00000233291	ENST00000443410	processed_pseudogene	KNOWN	None	35482	None	None	98553907	98554542	1	None	None
17	None	ENSG00000265975	ENST00000578788	lincRNA	KNOWN	None	None	None	None	8870840	8880312	1	None	None
1	None	ENSG00000226565	ENST00000423510	processed_pseudogene	KNOWN	None	None	None	None	207323522	207323626	-1	None	None
17	RPL17P42	ENSG00000239520	ENST00000474264	transcribed_processed_pseudogene	KNOWN	None	36749	None	None	34046907	34047461	1	None	None
2	RPEP5	ENSG00000234732	ENST00000441137	processed_pseudogene	KNOWN	None	44524	None	None	162787709	162787976	-1	None	None
10	TNKS2	ENSG00000107854	ENST00000371627	protein_coding	KNOWN	CCDS7417	15677	3501	1166	93558069	93625033	1	None	TNKL, TANK2, PARP-5b, PARP-5c, PARP5B, PARP5C, pART6
X	SLC25A43	ENSG00000077713	ENST00000217909	protein_coding	KNOWN	CCDS14577	30557	1026	341	118533023	118588441	1	None	None
X	SLC25A43	ENSG00000077713	ENST00000488158	processed_transcript	KNOWN	None	30557	None	None	118533343	118588435	1	None	None
X	SLC25A43	ENSG00000077713	ENST00000493093	processed_transcript	KNOWN	None	30557	None	None	118533372	118587145	1	None	None
X	SLC25A43	ENSG00000077713	ENST00000495750	processed_transcript	KNOWN	None	30557	None	None	118533463	118586860	1	None	None
X	SLC25A43	ENSG00000077713	ENST00000484058	processed_transcript	KNOWN	None	30557	None	None	118540519	118586904	1	None	None
X	SLC25A43	ENSG00000077713	ENST00000336249	protein_coding	KNOWN	None	30557	681	226	118533343	118587183	1	None	None
HG531_PATCH	None	ENSG00000260016	ENST00000569867	antisense	KNOWN	None	None	None	None	115095034	115099423	-1	None	None
2	HMGA1P8	ENSG00000233155	ENST00000414130	processed_pseudogene	KNOWN	None	39183	None	None	74645249	74645569	-1	None	None
17	None	ENSG00000262966	ENST00000574307	antisense	KNOWN	None	None	None	None	9074386	9082435	-1	None	None
HSCHR19LRC_COX1_CTG1	None	ENSG00000263646	ENST00000579985	miRNA	KNOWN	None	None	None	None	55064665	55064736	-1	None	None
2	None	ENSG00000230918	ENST00000418335	antisense	KNOWN	None	None	None	None	162929766	162931679	1	None	None
6	F13A1	ENSG00000124491	ENST00000264870	protein_coding	KNOWN	CCDS4496	3531	2199	732	6144318	6321067	-1	F13A	None
6	F13A1	ENSG00000124491	ENST00000445223	protein_coding	PUTATIVE	None	3531	308	101	6206644	6225041	-1	F13A	None
6	F13A1	ENSG00000124491	ENST00000479211	retained_intron	KNOWN	None	3531	None	None	6251140	6305887	-1	F13A	None
6	F13A1	ENSG00000124491	ENST00000414279	protein_coding	KNOWN	None	3531	416	137	6266946	6321246	-1	F13A	None
6	F13A1	ENSG00000124491	ENST00000431222	protein_coding	PUTATIVE	None	3531	557	184	6266967	6321138	-1	F13A	None
6	F13A1	ENSG00000124491	ENST00000451619	protein_coding	PUTATIVE	None	3531	443	146	6305346	6320875	-1	F13A	None
10	None	ENSG00000269259	ENST00000598040	protein_coding	KNOWN	None	None	1089	362	102882536	102883624	1	None	None
12	OS9	ENSG00000135506	ENST00000552285	protein_coding	KNOWN	CCDS31844	16994	1839	612	58087738	58114781	1	None	OS-9, ERLEC2
12	OS9	ENSG00000135506	ENST00000549897	retained_intron	KNOWN	None	16994	None	None	58087806	58088931	1	None	OS-9, ERLEC2
12	OS9	ENSG00000135506	ENST00000315970	protein_coding	KNOWN	CCDS31843	16994	2004	667	58087904	58115338	1	None	OS-9, ERLEC2
12	OS9	ENSG00000135506	ENST00000550848	nonsense_mediated_decay	KNOWN	None	16994	228	75	58087915	58090061	1	None	OS-9, ERLEC2
12	OS9	ENSG00000135506	ENST00000547079	protein_coding	NOVEL	None	16994	558	185	58087920	58112844	1	None	OS-9, ERLEC2
12	OS9	ENSG00000135506	ENST00000552787	nonsense_mediated_decay	KNOWN	None	16994	441	146	58087922	58109964	1	None	OS-9, ERLEC2
12	OS9	ENSG00000135506	ENST00000551285	nonsense_mediated_decay	KNOWN	None	16994	228	75	58087926	58089861	1	None	OS-9, ERLEC2
12	OS9	ENSG00000135506	ENST00000439210	protein_coding	NOVEL	CCDS58249	16994	1617	538	58087926	58115002	1	None	OS-9, ERLEC2
12	OS9	ENSG00000135506	ENST00000389146	protein_coding	NOVEL	CCDS31845	16994	1959	652	58087928	58114807	1	None	OS-9, ERLEC2
12	OS9	ENSG00000135506	ENST00000413095	protein_coding	NOVEL	None	16994	1221	406	58087928	58115114	1	None	OS-9, ERLEC2
12	OS9	ENSG00000135506	ENST00000551035	protein_coding	NOVEL	CCDS58248	16994	1743	580	58087928	58115178	1	None	OS-9, ERLEC2
12	OS9	ENSG00000135506	ENST00000257966	protein_coding	NOVEL	CCDS58247	16994	1842	613	58087928	58115338	1	None	OS-9, ERLEC2
12	OS9	ENSG00000135506	ENST00000435406	protein_coding	NOVEL	CCDS58246	16994	1683	560	58087928	58115338	1	None	OS-9, ERLEC2
12	OS9	ENSG00000135506	ENST00000550372	protein_coding	NOVEL	None	16994	487	161	58087929	58109630	1	None	OS-9, ERLEC2
12	OS9	ENSG00000135506	ENST00000553208	retained_intron	KNOWN	None	16994	None	None	58087930	58109734	1	None	OS-9, ERLEC2
12	OS9	ENSG00000135506	ENST00000389142	protein_coding	KNOWN	CCDS31846	16994	1794	597	58087930	58115340	1	None	OS-9, ERLEC2
12	OS9	ENSG00000135506	ENST00000550793	retained_intron	KNOWN	None	16994	None	None	58087937	58089779	1	None	OS-9, ERLEC2
12	OS9	ENSG00000135506	ENST00000552423	nonsense_mediated_decay	KNOWN	None	16994	378	125	58087943	58089813	1	None	OS-9, ERLEC2
12	OS9	ENSG00000135506	ENST00000549307	retained_intron	KNOWN	None	16994	None	None	58089279	58115340	1	None	OS-9, ERLEC2
12	OS9	ENSG00000135506	ENST00000550438	retained_intron	KNOWN	None	16994	None	None	58109489	58111951	1	None	OS-9, ERLEC2
12	OS9	ENSG00000135506	ENST00000550699	retained_intron	KNOWN	None	16994	None	None	58109760	58111835	1	None	OS-9, ERLEC2
12	OS9	ENSG00000135506	ENST00000550202	retained_intron	KNOWN	None	16994	None	None	58110116	58112965	1	None	OS-9, ERLEC2
12	OS9	ENSG00000135506	ENST00000546916	retained_intron	KNOWN	None	16994	None	None	58113994	58115286	1	None	OS-9, ERLEC2
1	SLC25A6P3	ENSG00000232846	ENST00000424829	processed_pseudogene	KNOWN	None	43852	None	None	52174734	52175612	1	None	None
13	None	ENSG00000270725	ENST00000604129	lincRNA	KNOWN	None	None	None	None	98591610	98605793	1	None	None
HSCHR19LRC_PGF1_CTG1	None	ENSG00000264786	ENST00000582854	miRNA	NOVEL	None	None	None	None	55139744	55139813	1	None	None
7	PAICSP5	ENSG00000229877	ENST00000430406	processed_pseudogene	KNOWN	None	38098	None	None	143242279	143243828	-1	None	None
1	None	ENSG00000226053	ENST00000418344	lincRNA	KNOWN	None	None	None	None	98676303	98738214	1	None	None
12	None	ENSG00000258290	ENST00000546823	processed_pseudogene	KNOWN	None	None	None	None	90313214	90313553	-1	None	None
4	RNU6-931P	ENSG00000200720	ENST00000363850	snRNA	KNOWN	None	47894	None	None	45482047	45482153	1	None	None
2	None	ENSG00000258821	ENST00000479098	antisense	KNOWN	None	None	None	None	74725815	74726494	-1	None	None
6	COL11A2	ENSG00000204248	ENST00000374708	protein_coding	KNOWN	CCDS43452	2187	4953	1650	33130458	33160276	-1	DFNA13, DFNB53	HKE5
6	COL11A2	ENSG00000204248	ENST00000477772	processed_transcript	KNOWN	None	2187	None	None	33130472	33145670	-1	DFNA13, DFNB53	HKE5
6	COL11A2	ENSG00000204248	ENST00000457788	protein_coding	KNOWN	None	2187	1872	623	33145909	33160244	-1	DFNA13, DFNB53	HKE5
6	COL11A2	ENSG00000204248	ENST00000395194	protein_coding	PUTATIVE	CCDS54992	2187	873	290	33154222	33160231	-1	DFNA13, DFNB53	HKE5
6	COL11A2	ENSG00000204248	ENST00000341947	protein_coding	KNOWN	None	2187	5211	1736	33130469	33160245	-1	DFNA13, DFNB53	HKE5
6	COL11A2	ENSG00000204248	ENST00000357486	protein_coding	KNOWN	None	2187	5148	1715	33130469	33160245	-1	DFNA13, DFNB53	HKE5
6	COL11A2	ENSG00000204248	ENST00000374714	protein_coding	KNOWN	None	2187	5133	1710	33130469	33160245	-1	DFNA13, DFNB53	HKE5
6	COL11A2	ENSG00000204248	ENST00000374713	protein_coding	KNOWN	None	2187	5070	1689	33130469	33160245	-1	DFNA13, DFNB53	HKE5
6	COL11A2	ENSG00000204248	ENST00000395197	protein_coding	KNOWN	None	2187	5031	1676	33130469	33160245	-1	DFNA13, DFNB53	HKE5
6	COL11A2	ENSG00000204248	ENST00000374712	protein_coding	KNOWN	None	2187	4968	1655	33130469	33160245	-1	DFNA13, DFNB53	HKE5
6	COL11A2	ENSG00000204248	ENST00000361917	protein_coding	KNOWN	None	2187	4890	1629	33130469	33160245	-1	DFNA13, DFNB53	HKE5
19	RPS29P26	ENSG00000239320	ENST00000477483	processed_pseudogene	KNOWN	None	36490	None	None	40088472	40088642	1	None	None
5	HTR4	ENSG00000164270	ENST00000521530	protein_coding	KNOWN	CCDS34270	5299	1164	387	147830595	148016583	-1	None	5-HT4
5	HTR4	ENSG00000164270	ENST00000522588	nonsense_mediated_decay	KNOWN	CCDS34271	5299	1137	378	147830733	148016577	-1	None	5-HT4
5	HTR4	ENSG00000164270	ENST00000521735	protein_coding	KNOWN	CCDS34271	5299	1137	378	147830748	148016579	-1	None	5-HT4
5	HTR4	ENSG00000164270	ENST00000517929	protein_coding	KNOWN	CCDS34273	5299	1083	360	147856199	148016592	-1	None	5-HT4
5	HTR4	ENSG00000164270	ENST00000520514	protein_coding	KNOWN	None	5299	1236	411	147861033	148016577	-1	None	5-HT4
5	HTR4	ENSG00000164270	ENST00000377888	protein_coding	KNOWN	CCDS4291	5299	1167	388	147861110	148033716	-1	None	5-HT4
5	HTR4	ENSG00000164270	ENST00000360693	protein_coding	KNOWN	CCDS34272	5299	1287	428	147861110	148033716	-1	None	5-HT4
5	HTR4	ENSG00000164270	ENST00000524063	nonsense_mediated_decay	KNOWN	None	5299	1116	371	147862419	148034090	-1	None	5-HT4
5	HTR4	ENSG00000164270	ENST00000521124	retained_intron	KNOWN	None	5299	None	None	147888880	148016583	-1	None	5-HT4
5	HTR4	ENSG00000164270	ENST00000519495	processed_transcript	KNOWN	None	5299	None	None	147929700	148056798	-1	None	5-HT4
5	HTR4	ENSG00000164270	ENST00000520086	protein_coding	PUTATIVE	None	5299	264	87	148008014	148045207	-1	None	5-HT4
5	HTR4	ENSG00000164270	ENST00000354217	protein_coding	KNOWN	CCDS34270	5299	1164	387	147830595	148033741	-1	None	5-HT4
5	HTR4	ENSG00000164270	ENST00000314512	protein_coding	KNOWN	CCDS34271	5299	1137	378	147830595	148033741	-1	None	5-HT4
5	HTR4	ENSG00000164270	ENST00000362016	protein_coding	KNOWN	None	5299	1209	402	147861121	148033741	-1	None	5-HT4
3	None	ENSG00000214074	ENST00000415533	processed_pseudogene	KNOWN	None	None	None	None	1771754	1772158	1	None	None
1	C4BPAP1	ENSG00000224462	ENST00000415474	unprocessed_pseudogene	KNOWN	None	1326	None	None	207338841	207357255	1	C4BPAL1	None
12	TMEM198B	ENSG00000182796	ENST00000478241	processed_transcript	KNOWN	None	43629	None	None	56223529	56230028	1	None	None
12	TMEM198B	ENSG00000182796	ENST00000471276	processed_transcript	KNOWN	None	43629	None	None	56224638	56230030	1	None	None
12	TMEM198B	ENSG00000182796	ENST00000482378	processed_transcript	KNOWN	None	43629	None	None	56224685	56230030	1	None	None
12	TMEM198B	ENSG00000182796	ENST00000508246	processed_transcript	KNOWN	None	43629	None	None	56224699	56230028	1	None	None
12	TMEM198B	ENSG00000182796	ENST00000484016	unitary_pseudogene	KNOWN	None	43629	None	None	56225943	56228772	1	None	None
12	TMEM198B	ENSG00000182796	ENST00000487582	processed_transcript	KNOWN	None	43629	None	None	56226631	56230030	1	None	None
1	TNFRSF14	ENSG00000157873	ENST00000426449	protein_coding	KNOWN	None	11912	551	182	2487078	2492153	1	None	HVEM, ATAR, TR2, LIGHTR, HVEA, CD270
1	TNFRSF14	ENSG00000157873	ENST00000434817	protein_coding	KNOWN	None	11912	694	230	2487230	2493254	1	None	HVEM, ATAR, TR2, LIGHTR, HVEA, CD270
1	TNFRSF14	ENSG00000157873	ENST00000435221	protein_coding	KNOWN	None	11912	694	230	2487241	2493254	1	None	HVEM, ATAR, TR2, LIGHTR, HVEA, CD270
1	TNFRSF14	ENSG00000157873	ENST00000451778	protein_coding	KNOWN	None	11912	694	230	2487419	2493254	1	None	HVEM, ATAR, TR2, LIGHTR, HVEA, CD270
1	TNFRSF14	ENSG00000157873	ENST00000409119	protein_coding	PUTATIVE	None	11912	582	193	2487661	2493157	1	None	HVEM, ATAR, TR2, LIGHTR, HVEA, CD270
1	TNFRSF14	ENSG00000157873	ENST00000355716	protein_coding	KNOWN	CCDS44046	11912	852	283	2487805	2495268	1	None	HVEM, ATAR, TR2, LIGHTR, HVEA, CD270
1	TNFRSF14	ENSG00000157873	ENST00000475523	retained_intron	KNOWN	None	11912	None	None	2487825	2495268	1	None	HVEM, ATAR, TR2, LIGHTR, HVEA, CD270
1	TNFRSF14	ENSG00000157873	ENST00000442392	processed_transcript	KNOWN	None	11912	None	None	2487844	2490595	1	None	HVEM, ATAR, TR2, LIGHTR, HVEA, CD270
1	TNFRSF14	ENSG00000157873	ENST00000482074	retained_intron	KNOWN	None	11912	None	None	2487845	2490301	1	None	HVEM, ATAR, TR2, LIGHTR, HVEA, CD270
1	TNFRSF14	ENSG00000157873	ENST00000496064	retained_intron	KNOWN	None	11912	None	None	2487996	2492974	1	None	HVEM, ATAR, TR2, LIGHTR, HVEA, CD270
1	TNFRSF14	ENSG00000157873	ENST00000463471	retained_intron	KNOWN	None	11912	None	None	2488010	2495188	1	None	HVEM, ATAR, TR2, LIGHTR, HVEA, CD270
1	TNFRSF14	ENSG00000157873	ENST00000466750	retained_intron	KNOWN	None	11912	None	None	2489252	2495265	1	None	HVEM, ATAR, TR2, LIGHTR, HVEA, CD270
1	TNFRSF14	ENSG00000157873	ENST00000471768	retained_intron	KNOWN	None	11912	None	None	2491019	2492981	1	None	HVEM, ATAR, TR2, LIGHTR, HVEA, CD270
1	TNFRSF14	ENSG00000157873	ENST00000463835	retained_intron	KNOWN	None	11912	None	None	2491993	2494943	1	None	HVEM, ATAR, TR2, LIGHTR, HVEA, CD270
1	TNFRSF14	ENSG00000157873	ENST00000482602	processed_transcript	KNOWN	None	11912	None	None	2492121	2496821	1	None	HVEM, ATAR, TR2, LIGHTR, HVEA, CD270
1	TNFRSF14	ENSG00000157873	ENST00000480305	processed_transcript	KNOWN	None	11912	None	None	2493240	2494891	1	None	HVEM, ATAR, TR2, LIGHTR, HVEA, CD270
GL000225.1	None	ENSG00000238850	ENST00000459529	snRNA	NOVEL	None	None	None	None	183252	183364	1	None	None
13	FTLP8	ENSG00000232217	ENST00000446770	processed_pseudogene	KNOWN	None	37956	None	None	98639204	98639470	-1	None	None
1	None	ENSG00000221777	ENST00000408850	miRNA	NOVEL	None	None	None	None	98838941	98839055	1	None	None
2	TIMM8AP1	ENSG00000231445	ENST00000419283	processed_pseudogene	KNOWN	None	17802	None	None	162933867	162934161	-1	TIMM8AP	DDPP
17	None	ENSG00000263708	ENST00000579641	antisense	KNOWN	None	None	None	None	9186491	9208968	1	None	None
HSCHR12_2_CTG2	None	ENSG00000263128	ENST00000575962	snRNA	NOVEL	None	None	None	None	11347647	11347711	1	None	None
2	None	ENSG00000272183	ENST00000606287	antisense	KNOWN	None	None	None	None	74728844	74729492	1	None	None
1	None	ENSG00000232825	ENST00000425113	antisense	KNOWN	None	None	None	None	99469832	99614408	1	None	None
2	EIF3EP2	ENSG00000224674	ENST00000423042	processed_pseudogene	KNOWN	None	37919	None	None	162944769	162946582	1	None	None
HSCHR19LRC_COX1_CTG1	None	ENSG00000265951	ENST00000582883	miRNA	NOVEL	None	None	None	None	55141112	55141181	1	None	None
1	MIR555	ENSG00000207720	ENST00000384987	miRNA	KNOWN	None	32811	None	None	155316141	155316236	-1	MIRN555	hsa-mir-555
17	None	ENSG00000225751	ENST00000445617	antisense	KNOWN	None	None	None	None	9355514	9373331	1	None	None
1	None	ENSG00000212624	ENST00000391322	snoRNA	NOVEL	None	None	None	None	52190447	52190568	-1	None	None
11	RNU7-23P	ENSG00000239099	ENST00000459465	snRNA	KNOWN	None	34119	None	None	66687233	66687294	1	None	U7.23
2	LBX2-AS1	ENSG00000257702	ENST00000603175	antisense	KNOWN	None	25136	None	None	74729722	74731804	1	None	None
2	LBX2-AS1	ENSG00000257702	ENST00000548978	antisense	KNOWN	None	25136	None	None	74729722	74731805	1	None	None
12	ELK3	ENSG00000111145	ENST00000228741	protein_coding	KNOWN	CCDS9060	3325	1224	407	96588160	96663613	1	None	ERP, NET, SAP2
12	ELK3	ENSG00000111145	ENST00000547249	protein_coding	KNOWN	None	3325	116	37	96588180	96617460	1	None	ERP, NET, SAP2
12	ELK3	ENSG00000111145	ENST00000552142	protein_coding	NOVEL	None	3325	429	142	96588323	96661608	1	None	ERP, NET, SAP2
12	ELK3	ENSG00000111145	ENST00000547860	protein_coding	KNOWN	None	3325	479	158	96588392	96640989	1	None	ERP, NET, SAP2
12	ELK3	ENSG00000111145	ENST00000549985	nonsense_mediated_decay	KNOWN	None	3325	307	101	96640909	96661135	1	None	ERP, NET, SAP2
12	ELK3	ENSG00000111145	ENST00000549529	processed_transcript	PUTATIVE	None	3325	None	None	96649238	96661268	1	None	ERP, NET, SAP2
HSCHR19LRC_PGF1_CTG1	None	ENSG00000262125	ENST00000576961	snRNA	NOVEL	None	None	None	None	55302201	55302307	-1	None	None
1	RNU6-106P	ENSG00000207134	ENST00000384405	snRNA	KNOWN	None	47069	None	None	155328503	155328609	-1	None	None
17	RNF112	ENSG00000128482	ENST00000575165	protein_coding	KNOWN	None	12968	370	122	19314438	19316085	1	ZNF179	BFP
17	RNF112	ENSG00000128482	ENST00000574149	retained_intron	KNOWN	None	12968	None	None	19314491	19316721	1	ZNF179	BFP
17	RNF112	ENSG00000128482	ENST00000461366	protein_coding	NOVEL	CCDS58529	12968	1896	631	19314507	19320589	1	ZNF179	BFP
17	RNF112	ENSG00000128482	ENST00000580109	processed_transcript	KNOWN	None	12968	None	None	19315003	19316711	1	ZNF179	BFP
17	RNF112	ENSG00000128482	ENST00000574782	retained_intron	KNOWN	None	12968	None	None	19318737	19319274	1	ZNF179	BFP
19	None	ENSG00000269519	ENST00000596933	processed_pseudogene	KNOWN	None	None	None	None	40121940	40122086	-1	None	None
13	RN7SKP8	ENSG00000222969	ENST00000411037	misc_RNA	KNOWN	None	42626	None	None	98856089	98856446	-1	None	None
12	None	ENSG00000257316	ENST00000553060	processed_pseudogene	KNOWN	None	None	None	None	33138772	33140004	1	None	None
1	None	ENSG00000227034	ENST00000457507	processed_pseudogene	KNOWN	None	None	None	None	99473774	99474030	1	None	None
HSCHR12_2_CTG2	None	ENSG00000262531	ENST00000574320	sense_intronic	KNOWN	None	None	None	None	11350637	11355900	-1	None	None
1	None	ENSG00000266993	ENST00000588291	antisense	KNOWN	None	None	None	None	52259637	52264099	1	None	None
1	None	ENSG00000266993	ENST00000586761	antisense	KNOWN	None	None	None	None	52259657	52264824	1	None	None
1	None	ENSG00000266993	ENST00000591675	antisense	KNOWN	None	None	None	None	52260883	52264081	1	None	None
10	TLX1	ENSG00000107807	ENST00000370196	protein_coding	KNOWN	CCDS7510	5056	993	330	102889257	102897545	1	TCL3, HOX11	None
10	TLX1	ENSG00000107807	ENST00000463716	protein_coding	NOVEL	None	5056	655	217	102890514	102893982	1	TCL3, HOX11	None
10	TLX1	ENSG00000107807	ENST00000467928	protein_coding	KNOWN	CCDS55725	5056	774	257	102891061	102897254	1	TCL3, HOX11	None
10	TLX1	ENSG00000107807	ENST00000533319	processed_transcript	KNOWN	None	5056	None	None	102892539	102893972	1	TCL3, HOX11	None
10	TLX1	ENSG00000107807	ENST00000525019	processed_transcript	PUTATIVE	None	5056	None	None	102894071	102895273	1	TCL3, HOX11	None
1	ASH1L-IT1	ENSG00000227773	ENST00000458371	sense_intronic	KNOWN	None	41449	None	None	155365801	155366769	-1	None	None
12	HMGA1P3	ENSG00000258011	ENST00000549577	processed_pseudogene	KNOWN	None	13323	None	None	110867764	110868087	-1	HMGA1L3	HMGIYL3
13	MIR3170	ENSG00000263399	ENST00000582699	miRNA	KNOWN	None	38282	None	None	98860778	98860854	1	None	hsa-mir-3170
2	None	ENSG00000233397	ENST00000432251	lincRNA	KNOWN	None	None	None	None	162949939	162951364	1	None	None
HSCHR7_1_CTG6	None	ENSG00000262656	ENST00000572849	snRNA	NOVEL	None	None	None	None	141433792	141433956	1	None	None
HSCHR6_MHC_SSTO	TRIM27	ENSG00000229006	ENST00000431123	protein_coding	KNOWN	None	9975	1542	513	28870844	28891756	-1	RFP	RNF76
HSCHR6_MHC_SSTO	TRIM27	ENSG00000229006	ENST00000452265	protein_coding	KNOWN	None	9975	1077	358	28870844	28891821	-1	RFP	RNF76
HSCHR6_MHC_SSTO	TRIM27	ENSG00000229006	ENST00000437383	protein_coding	KNOWN	None	9975	744	247	28870844	28876826	-1	RFP	RNF76
HSCHR6_MHC_SSTO	TRIM27	ENSG00000229006	ENST00000468047	processed_transcript	KNOWN	None	9975	None	None	28870844	28891746	-1	RFP	RNF76
HSCHR6_MHC_SSTO	TRIM27	ENSG00000229006	ENST00000472315	processed_transcript	KNOWN	None	9975	None	None	28872316	28875426	-1	RFP	RNF76
HSCHR6_MHC_SSTO	TRIM27	ENSG00000229006	ENST00000497776	processed_transcript	KNOWN	None	9975	None	None	28879139	28889809	-1	RFP	RNF76
HSCHR6_MHC_SSTO	TRIM27	ENSG00000229006	ENST00000461573	processed_transcript	KNOWN	None	9975	None	None	28882610	28888017	-1	RFP	RNF76
11	MIR3163	ENSG00000266423	ENST00000581592	miRNA	KNOWN	None	38209	None	None	66701905	66701977	-1	None	hsa-mir-3163
11	None	ENSG00000254540	ENST00000534543	antisense	KNOWN	None	None	None	None	22382759	22383840	-1	None	None
1	None	ENSG00000272175	ENST00000607338	antisense	KNOWN	None	None	None	None	52266700	52266979	1	None	None
11	RN7SL688P	ENSG00000239726	ENST00000471754	misc_RNA	KNOWN	None	46704	None	None	118801920	118802184	1	None	None
19	None	ENSG00000268153	ENST00000594263	processed_transcript	KNOWN	None	None	None	None	40129325	40133041	1	None	None
19	None	ENSG00000268153	ENST00000597791	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	40130529	40132880	1	None	None
19	None	ENSG00000268153	ENST00000597077	processed_transcript	KNOWN	None	None	None	None	40130538	40133041	1	None	None
3	None	ENSG00000242145	ENST00000474149	lincRNA	KNOWN	None	None	None	None	81257344	81258065	-1	None	None
18	None	ENSG00000266258	ENST00000584919	protein_coding	PUTATIVE	None	None	198	65	68002675	68019695	1	None	None
18	None	ENSG00000266258	ENST00000583247	processed_transcript	KNOWN	None	None	None	None	68003684	68019355	1	None	None
1	None	ENSG00000233983	ENST00000432923	processed_pseudogene	KNOWN	None	None	None	None	99929934	99930332	1	None	None
1	None	ENSG00000238805	ENST00000458873	snoRNA	NOVEL	None	None	None	None	155385349	155385453	-1	None	None
6	None	ENSG00000220340	ENST00000401674	processed_pseudogene	KNOWN	None	None	None	None	92437000	92437223	-1	None	None
3	RN7SL4P	ENSG00000263740	ENST00000584058	misc_RNA	KNOWN	None	10039	None	None	15780022	15780315	1	RN7SLP1, RN7SL427P	7L28
1	MIR761	ENSG00000212076	ENST00000390787	miRNA	KNOWN	None	37305	None	None	52302013	52302082	-1	None	hsa-mir-761
16	CCNF	ENSG00000162063	ENST00000293968	nonsense_mediated_decay	KNOWN	None	1591	180	59	2479395	2508852	1	None	FBX1, FBXO1
16	CCNF	ENSG00000162063	ENST00000397066	protein_coding	KNOWN	CCDS10467	1591	2361	786	2479395	2508855	1	None	FBX1, FBXO1
16	CCNF	ENSG00000162063	ENST00000569093	retained_intron	KNOWN	None	1591	None	None	2479450	2486352	1	None	FBX1, FBXO1
16	CCNF	ENSG00000162063	ENST00000564333	retained_intron	KNOWN	None	1591	None	None	2485987	2487923	1	None	FBX1, FBXO1
16	CCNF	ENSG00000162063	ENST00000564236	nonsense_mediated_decay	KNOWN	None	1591	560	185	2493702	2499876	1	None	FBX1, FBXO1
2	None	ENSG00000236841	ENST00000418968	antisense	KNOWN	None	None	None	None	163018280	163029426	1	None	None
17	None	ENSG00000262815	ENST00000576477	antisense	KNOWN	None	None	None	None	9368059	9370739	1	None	None
HSCHR6_MHC_COX	GPSM3	ENSG00000233490	ENST00000472154	protein_coding	NOVEL	None	13945	474	157	32107017	32109119	-1	C6orf9	NG1, G18, G18.1a, G18.1b, G18.2, AGS4
HSCHR6_MHC_COX	GPSM3	ENSG00000233490	ENST00000496307	nonsense_mediated_decay	KNOWN	None	13945	150	49	32107017	32109136	-1	C6orf9	NG1, G18, G18.1a, G18.1b, G18.2, AGS4
HSCHR6_MHC_COX	GPSM3	ENSG00000233490	ENST00000453667	protein_coding	KNOWN	None	13945	483	160	32107017	32109157	-1	C6orf9	NG1, G18, G18.1a, G18.1b, G18.2, AGS4
HSCHR6_MHC_COX	GPSM3	ENSG00000233490	ENST00000420041	protein_coding	KNOWN	None	13945	483	160	32107017	32111774	-1	C6orf9	NG1, G18, G18.1a, G18.1b, G18.2, AGS4
2	None	ENSG00000186148	ENST00000303002	lincRNA	KNOWN	None	None	None	None	110690738	110726129	1	None	None
2	None	ENSG00000186148	ENST00000417926	lincRNA	KNOWN	None	None	None	None	110693919	110726154	1	None	None
2	None	ENSG00000186148	ENST00000424535	lincRNA	KNOWN	None	None	None	None	110694356	110726080	1	None	None
2	None	ENSG00000186148	ENST00000424113	lincRNA	KNOWN	None	None	None	None	110694394	110725806	1	None	None
2	None	ENSG00000186148	ENST00000454928	lincRNA	KNOWN	None	None	None	None	110695015	110742667	1	None	None
2	None	ENSG00000186148	ENST00000435951	lincRNA	KNOWN	None	None	None	None	110695412	110722317	1	None	None
2	None	ENSG00000186148	ENST00000433786	lincRNA	KNOWN	None	None	None	None	110705291	110726129	1	None	None
2	None	ENSG00000186148	ENST00000425917	retained_intron	KNOWN	None	None	None	None	110720966	110722701	1	None	None
12	RIMBP2	ENSG00000060709	ENST00000261655	protein_coding	KNOWN	CCDS31925	30339	3159	1052	130880682	131002410	-1	None	KIAA0318, RBP2, MGC15831, RIM-BP2
12	RIMBP2	ENSG00000060709	ENST00000540658	nonsense_mediated_decay	KNOWN	None	30339	187	61	130881855	130892375	-1	None	KIAA0318, RBP2, MGC15831, RIM-BP2
12	RIMBP2	ENSG00000060709	ENST00000536632	protein_coding	PUTATIVE	None	30339	471	156	130884296	130899255	-1	None	KIAA0318, RBP2, MGC15831, RIM-BP2
12	RIMBP2	ENSG00000060709	ENST00000535703	protein_coding	PUTATIVE	None	30339	1938	645	130916192	131002462	-1	None	KIAA0318, RBP2, MGC15831, RIM-BP2
12	RIMBP2	ENSG00000060709	ENST00000544568	retained_intron	KNOWN	None	30339	None	None	130954747	130991322	-1	None	KIAA0318, RBP2, MGC15831, RIM-BP2
12	RIMBP2	ENSG00000060709	ENST00000536002	protein_coding	KNOWN	None	30339	1938	645	130916204	131200826	-1	None	KIAA0318, RBP2, MGC15831, RIM-BP2
1	RNU6-1297P	ENSG00000207144	ENST00000384415	snRNA	KNOWN	None	48260	None	None	155389188	155389291	1	None	None
3	MIR563	ENSG00000207815	ENST00000385080	miRNA	KNOWN	None	32819	None	None	15915278	15915356	1	MIRN563	hsa-mir-563
2	IGKV3OR2-268	ENSG00000233999	ENST00000421835	IG_V_gene	KNOWN	None	5830	350	115	87565634	87566158	1	IGKV268, IGKV3OR2-268A	IGKV3/OR2-268, IGKV3/OR2-268A
1	TSEN15P2	ENSG00000230604	ENST00000442453	processed_pseudogene	KNOWN	None	43963	None	None	52325450	52325807	1	None	None
17	None	ENSG00000265302	ENST00000583583	antisense	KNOWN	None	None	None	None	9397314	9398337	1	None	None
2	None	ENSG00000233872	ENST00000428904	processed_pseudogene	KNOWN	None	None	None	None	74845983	74848106	-1	None	None
12	None	ENSG00000257435	ENST00000549660	lincRNA	KNOWN	None	None	None	None	33141697	33146688	1	None	None
11	None	ENSG00000264523	ENST00000584831	antisense	KNOWN	None	None	None	None	118821578	118824153	-1	None	None
19	FKBP8	ENSG00000105701	ENST00000544835	protein_coding	NOVEL	None	3724	762	253	18642574	18654383	-1	None	FKBP38, FKBPr38
19	FKBP8	ENSG00000105701	ENST00000597960	protein_coding	KNOWN	CCDS32961	3724	1242	413	18642574	18654387	-1	None	FKBP38, FKBPr38
19	FKBP8	ENSG00000105701	ENST00000601844	nonsense_mediated_decay	KNOWN	None	3724	351	116	18642624	18654387	-1	None	FKBP38, FKBPr38
19	FKBP8	ENSG00000105701	ENST00000596558	protein_coding	KNOWN	None	3724	1239	412	18642656	18653782	-1	None	FKBP38, FKBPr38
19	FKBP8	ENSG00000105701	ENST00000596015	protein_coding	NOVEL	None	3724	548	181	18642915	18649181	-1	None	FKBP38, FKBPr38
19	FKBP8	ENSG00000105701	ENST00000606531	protein_coding	NOVEL	None	3724	311	102	18642993	18648514	-1	None	FKBP38, FKBPr38
19	FKBP8	ENSG00000105701	ENST00000596494	retained_intron	KNOWN	None	3724	None	None	18648886	18650258	-1	None	FKBP38, FKBPr38
19	FKBP8	ENSG00000105701	ENST00000597611	protein_coding	KNOWN	None	3724	772	256	18649026	18654863	-1	None	FKBP38, FKBPr38
19	FKBP8	ENSG00000105701	ENST00000599540	protein_coding	KNOWN	None	3724	550	182	18650182	18653308	-1	None	FKBP38, FKBPr38
19	FKBP8	ENSG00000105701	ENST00000594844	protein_coding	KNOWN	None	3724	503	166	18650229	18654055	-1	None	FKBP38, FKBPr38
19	FKBP8	ENSG00000105701	ENST00000597547	protein_coding	KNOWN	None	3724	490	162	18650242	18654293	-1	None	FKBP38, FKBPr38
19	FKBP8	ENSG00000105701	ENST00000453489	protein_coding	KNOWN	None	3724	1326	441	18642656	18653782	-1	None	FKBP38, FKBPr38
19	FKBP8	ENSG00000105701	ENST00000222308	protein_coding	KNOWN	CCDS32961	3724	1242	413	18642568	18654383	-1	None	FKBP38, FKBPr38
4	MIR5705	ENSG00000263981	ENST00000579870	miRNA	KNOWN	None	43504	None	None	88221647	88221735	-1	None	hsa-mir-5705
1	None	ENSG00000224445	ENST00000438829	lincRNA	KNOWN	None	None	None	None	99937971	99999571	-1	None	None
2	RNA5SP109	ENSG00000212312	ENST00000391010	rRNA	KNOWN	None	42907	None	None	163353446	163353561	1	RN5S109	None
11	None	ENSG00000255323	ENST00000534135	lincRNA	KNOWN	None	None	None	None	22467234	22468922	-1	None	None
11	None	ENSG00000255323	ENST00000532380	lincRNA	KNOWN	None	None	None	None	22467234	22513565	-1	None	None
1	POU5F1P4	ENSG00000237872	ENST00000413175	processed_pseudogene	KNOWN	None	33310	None	None	155402969	155404053	1	None	POU5FLC1, Oct4-pg4
1	POU5F1P4	ENSG00000237872	ENST00000545402	pseudogene	KNOWN	None	33310	None	None	155402971	155403534	1	None	POU5FLC1, Oct4-pg4
17	None	ENSG00000263051	ENST00000574460	antisense	KNOWN	None	None	None	None	9450615	9451858	1	None	None
X	RN7SL74P	ENSG00000265260	ENST00000464966	misc_RNA	KNOWN	None	46090	None	None	96596045	96596341	1	None	None
11	None	ENSG00000252709	ENST00000516900	snoRNA	NOVEL	None	None	None	None	66762950	66763096	-1	None	None
1	None	ENSG00000212174	ENST00000390872	misc_RNA	NOVEL	None	None	None	None	52331305	52331381	1	None	None
2	NGEF	ENSG00000066248	ENST00000264051	protein_coding	KNOWN	CCDS2500	7807	2133	710	233743396	233877982	-1	None	ARHGEF27
2	NGEF	ENSG00000066248	ENST00000373552	protein_coding	KNOWN	CCDS46544	7807	1857	618	233743925	233792864	-1	None	ARHGEF27
2	NGEF	ENSG00000066248	ENST00000424488	protein_coding	NOVEL	None	7807	569	188	233746939	233755690	-1	None	ARHGEF27
2	NGEF	ENSG00000066248	ENST00000489127	retained_intron	KNOWN	None	7807	None	None	233746963	233750246	-1	None	ARHGEF27
2	NGEF	ENSG00000066248	ENST00000461944	retained_intron	KNOWN	None	7807	None	None	233749634	233755690	-1	None	ARHGEF27
2	NGEF	ENSG00000066248	ENST00000416114	protein_coding	PUTATIVE	None	7807	563	186	233750033	233766172	-1	None	ARHGEF27
2	NGEF	ENSG00000066248	ENST00000458735	protein_coding	PUTATIVE	None	7807	450	149	233756059	233766150	-1	None	ARHGEF27
2	NGEF	ENSG00000066248	ENST00000420650	protein_coding	NOVEL	None	7807	519	172	233757608	233770559	-1	None	ARHGEF27
2	NGEF	ENSG00000066248	ENST00000409079	protein_coding	KNOWN	None	7807	717	238	233759312	233792864	-1	None	ARHGEF27
2	NGEF	ENSG00000066248	ENST00000414326	protein_coding	PUTATIVE	None	7807	293	96	233834753	233839506	-1	None	ARHGEF27
2	NGEF	ENSG00000066248	ENST00000539537	protein_coding	KNOWN	None	7807	1302	433	233744085	233766150	-1	None	ARHGEF27
13	None	ENSG00000269189	ENST00000595998	sense_intronic	KNOWN	None	None	None	None	98885904	98886954	1	None	None
4	None	ENSG00000255723	ENST00000508163	processed_transcript	KNOWN	None	None	None	None	88238322	88266362	-1	None	None
GL000192.1	None	ENSG00000234295	ENST00000425945	protein_coding	NOVEL	None	None	2250	749	222730	407630	-1	None	None
2	None	ENSG00000237750	ENST00000446838	antisense	KNOWN	None	None	None	None	163625446	163654482	1	None	None
17	None	ENSG00000271851	ENST00000607496	sense_intronic	KNOWN	None	None	None	None	9456640	9459013	-1	None	None
1	None	ENSG00000265769	ENST00000581406	miRNA	NOVEL	None	None	None	None	52366592	52366643	-1	None	None
14	None	ENSG00000206768	ENST00000384041	misc_RNA	NOVEL	None	None	None	None	69610569	69610670	-1	None	None
1	HMGB3P10	ENSG00000223656	ENST00000434734	processed_pseudogene	KNOWN	None	39302	None	None	100163798	100164734	1	None	None
2	TVP23BP2	ENSG00000108442	ENST00000455082	processed_pseudogene	KNOWN	None	38869	None	None	74855455	74856069	-1	FAM18B4P	None
3	None	ENSG00000241593	ENST00000478239	lincRNA	KNOWN	None	None	None	None	81295730	81304680	-1	None	None
3	None	ENSG00000241593	ENST00000464131	lincRNA	KNOWN	None	None	None	None	81296244	81346496	-1	None	None
11	None	ENSG00000255535	ENST00000527151	processed_pseudogene	KNOWN	None	None	None	None	129910260	129910966	1	None	None
14	IGHV3-74	ENSG00000224650	ENST00000424969	IG_V_gene	KNOWN	None	5624	351	116	107218676	107219365	-1	None	None
1	RNA5SP48	ENSG00000200839	ENST00000363969	rRNA	KNOWN	None	42824	None	None	52439082	52439207	1	RN5S48	None
17	RPL19P18	ENSG00000241654	ENST00000466869	processed_pseudogene	KNOWN	None	36121	None	None	9493219	9493799	-1	None	None
14	None	ENSG00000257612	ENST00000548170	lincRNA	KNOWN	None	None	None	None	27342339	27383949	1	None	None
14	None	ENSG00000257612	ENST00000552926	lincRNA	KNOWN	None	None	None	None	27342369	27342858	1	None	None
19	None	ENSG00000268243	ENST00000600975	processed_pseudogene	KNOWN	None	None	None	None	40135142	40135252	1	None	None
14	None	ENSG00000258957	ENST00000554898	lincRNA	KNOWN	None	None	None	None	69649737	69680809	-1	None	None
14	None	ENSG00000258957	ENST00000556182	lincRNA	KNOWN	None	None	None	None	69650791	69658137	-1	None	None
14	None	ENSG00000258957	ENST00000557409	lincRNA	KNOWN	None	None	None	None	69657595	69658809	-1	None	None
2	None	ENSG00000224646	ENST00000421570	processed_pseudogene	KNOWN	None	None	None	None	74981797	74981946	-1	None	None
1	None	ENSG00000229032	ENST00000422551	processed_pseudogene	KNOWN	None	None	None	None	52446145	52446486	1	None	None
11	OR52N3P	ENSG00000236965	ENST00000413417	unprocessed_pseudogene	KNOWN	None	15229	None	None	5821594	5822527	1	None	None
11	OR52N3P	ENSG00000236965	ENST00000596698	unprocessed_pseudogene	KNOWN	None	15229	None	None	5821594	5822690	1	None	None
HSCHR6_MHC_DBB	HLA-DRB1	ENSG00000236884	ENST00000444645	protein_coding	KNOWN	None	4948	801	266	32516731	32532300	-1	HLA-DR1B	None
HSCHR6_MHC_DBB	HLA-DRB1	ENSG00000236884	ENST00000460546	processed_transcript	PUTATIVE	None	4948	None	None	32519094	32550833	-1	HLA-DR1B	None
4	RN7SL681P	ENSG00000240966	ENST00000482763	misc_RNA	KNOWN	None	46697	None	None	88308038	88308326	-1	None	None
11	RNU6-16P	ENSG00000207113	ENST00000384385	snRNA	KNOWN	None	34260	None	None	88345973	88346079	-1	RNU6-16	None
7	None	ENSG00000237713	ENST00000456809	lincRNA	KNOWN	None	None	None	None	13378826	13404674	-1	None	None
12	None	ENSG00000257725	ENST00000547094	lincRNA	KNOWN	None	None	None	None	90341470	90343503	1	None	None
1	RNU4-75P	ENSG00000201491	ENST00000364621	snRNA	KNOWN	None	47011	None	None	100250296	100250441	-1	None	None
2	PLGLB2	ENSG00000125551	ENST00000359481	protein_coding	KNOWN	CCDS1999	9073	291	96	88047606	88057152	1	PLGP1	None
2	PLGLB2	ENSG00000125551	ENST00000410086	nonsense_mediated_decay	KNOWN	CCDS1999	9073	291	96	88047619	88058312	1	PLGP1	None
2	PLGLB2	ENSG00000125551	ENST00000465361	retained_intron	KNOWN	None	9073	None	None	88050746	88057152	1	PLGP1	None
11	None	ENSG00000221130	ENST00000408203	miRNA	NOVEL	None	None	None	None	88845878	88845992	1	None	None
3	None	ENSG00000224728	ENST00000413639	processed_pseudogene	KNOWN	None	None	None	None	15919554	15921078	1	None	None
11	None	ENSG00000238892	ENST00000459034	snoRNA	NOVEL	None	None	None	None	66988379	66988487	1	None	None
1	None	ENSG00000202254	ENST00000365384	misc_RNA	NOVEL	None	None	None	None	100257218	100257309	1	None	None
2	None	ENSG00000204792	ENST00000435984	lincRNA	KNOWN	None	None	None	None	75145275	75159921	1	None	None
2	None	ENSG00000204792	ENST00000377469	lincRNA	KNOWN	None	None	None	None	75155366	75160151	1	None	None
2	None	ENSG00000204792	ENST00000418204	lincRNA	KNOWN	None	None	None	None	75158555	75165545	1	None	None
11	CBX3P7	ENSG00000197692	ENST00000532876	processed_pseudogene	KNOWN	None	42879	None	None	89026913	89027414	-1	None	None
12	None	ENSG00000238911	ENST00000458854	miRNA	NOVEL	None	None	None	None	33194659	33194755	-1	None	None
1	None	ENSG00000252226	ENST00000516417	miRNA	NOVEL	None	None	None	None	100295021	100295093	1	None	None
1	RN7SL290P	ENSG00000264613	ENST00000578661	misc_RNA	KNOWN	None	46306	None	None	52461412	52461709	1	None	None
20	CST9L	ENSG00000101435	ENST00000376979	protein_coding	KNOWN	CCDS13157	16233	444	147	23545369	23549386	-1	None	bA218C14.1, CTES7B
X	DIAPH2-AS1	ENSG00000236256	ENST00000439759	antisense	KNOWN	None	16972	None	None	96686257	96819492	-1	None	None
X	DIAPH2-AS1	ENSG00000236256	ENST00000579945	antisense	KNOWN	None	16972	None	None	96783364	96819532	-1	None	None
X	DIAPH2-AS1	ENSG00000236256	ENST00000445414	antisense	KNOWN	None	16972	None	None	96788172	96872258	-1	None	None
X	DIAPH2-AS1	ENSG00000236256	ENST00000542084	antisense	KNOWN	None	16972	None	None	96857829	96897588	-1	None	None
7	CTAGE15	ENSG00000176227	ENST00000447022	processed_pseudogene	KNOWN	None	37295	None	None	143268819	143271478	1	CTAGE15P	None
11	None	ENSG00000256514	ENST00000543494	processed_transcript	KNOWN	None	None	None	None	67119043	67141055	-1	None	None
1	None	ENSG00000223390	ENST00000425802	antisense	KNOWN	None	None	None	None	52499063	52509951	1	None	None
1	None	ENSG00000231996	ENST00000412047	processed_pseudogene	KNOWN	None	None	None	None	100308166	100308317	1	None	None
17	None	ENSG00000265349	ENST00000584676	antisense	KNOWN	None	None	None	None	9542085	9548642	-1	None	None
11	None	ENSG00000255295	ENST00000532005	processed_pseudogene	KNOWN	None	None	None	None	89231916	89232366	-1	None	None
15	None	ENSG00000260926	ENST00000565259	lincRNA	KNOWN	None	None	None	None	41901664	41904925	-1	None	None
15	None	ENSG00000260926	ENST00000607505	lincRNA	KNOWN	None	None	None	None	41901742	41902122	-1	None	None
4	RN7SKP199	ENSG00000222257	ENST00000410325	misc_RNA	KNOWN	None	45923	None	None	45997136	45997440	1	None	None
12	RPL31P49	ENSG00000241680	ENST00000490759	processed_pseudogene	KNOWN	None	35909	None	None	110898793	110899167	1	None	None
17	None	ENSG00000262296	ENST00000572923	antisense	KNOWN	None	None	None	None	9550337	9550977	-1	None	None
16	None	ENSG00000263203	ENST00000574807	protein_coding	KNOWN	None	None	1575	524	69152757	69154331	-1	None	None
4	EGF	ENSG00000138798	ENST00000509793	protein_coding	KNOWN	CCDS54795	3229	3498	1165	110834040	110933150	1	None	None
4	EGF	ENSG00000138798	ENST00000265171	protein_coding	KNOWN	CCDS3689	3229	3624	1207	110834047	110933422	1	None	None
4	EGF	ENSG00000138798	ENST00000503392	protein_coding	KNOWN	CCDS54794	3229	3501	1166	110834397	110932657	1	None	None
4	EGF	ENSG00000138798	ENST00000502723	processed_transcript	PUTATIVE	None	3229	None	None	110861932	110865128	1	None	None
4	EGF	ENSG00000138798	ENST00000504633	retained_intron	KNOWN	None	3229	None	None	110880290	110884362	1	None	None
4	EGF	ENSG00000138798	ENST00000502579	retained_intron	KNOWN	None	3229	None	None	110889961	110897327	1	None	None
4	EGF	ENSG00000138798	ENST00000541061	processed_transcript	KNOWN	None	3229	None	None	110897243	110898692	1	None	None
4	EGF	ENSG00000138798	ENST00000511228	retained_intron	KNOWN	None	3229	None	None	110901797	110909011	1	None	None
4	EGF	ENSG00000138798	ENST00000509996	retained_intron	KNOWN	None	3229	None	None	110901833	110932845	1	None	None
4	EGF	ENSG00000138798	ENST00000544918	retained_intron	KNOWN	None	3229	None	None	110925403	110932754	1	None	None
4	EGF	ENSG00000138798	ENST00000537316	retained_intron	KNOWN	None	3229	None	None	110925657	110932647	1	None	None
4	EGF	ENSG00000138798	ENST00000540840	retained_intron	KNOWN	None	3229	None	None	110925657	110933376	1	None	None
4	None	ENSG00000260878	ENST00000568817	sense_overlapping	KNOWN	None	None	None	None	46245565	46246232	-1	None	None
1	None	ENSG00000228369	ENST00000428794	antisense	KNOWN	None	None	None	None	52516590	52518355	1	None	None
11	OR52E7P	ENSG00000233563	ENST00000452394	unprocessed_pseudogene	KNOWN	None	15216	None	None	5895190	5896122	1	None	None
2	None	ENSG00000230282	ENST00000451721	processed_pseudogene	KNOWN	None	None	None	None	164008761	164009817	-1	None	None
3	None	ENSG00000255701	ENST00000536436	pseudogene	NOVEL	None	None	None	None	16269421	16269957	1	None	None
12	CSRNP2	ENSG00000110925	ENST00000228515	protein_coding	KNOWN	CCDS8807	16006	1632	543	51454990	51477333	-1	C12orf22, FAM130A1	C12ORF2, TAIP-12, PPP1R72
12	CSRNP2	ENSG00000110925	ENST00000548206	protein_coding	PUTATIVE	None	16006	200	65	51461682	51477365	-1	C12orf22, FAM130A1	C12ORF2, TAIP-12, PPP1R72
12	CSRNP2	ENSG00000110925	ENST00000548981	protein_coding	KNOWN	None	16006	344	113	51467673	51477426	-1	C12orf22, FAM130A1	C12ORF2, TAIP-12, PPP1R72
12	CSRNP2	ENSG00000110925	ENST00000550533	retained_intron	KNOWN	None	16006	None	None	51467711	51470618	-1	C12orf22, FAM130A1	C12ORF2, TAIP-12, PPP1R72
12	CSRNP2	ENSG00000110925	ENST00000552899	protein_coding	KNOWN	None	16006	259	85	51467758	51476893	-1	C12orf22, FAM130A1	C12ORF2, TAIP-12, PPP1R72
12	CSRNP2	ENSG00000110925	ENST00000546935	protein_coding	KNOWN	None	16006	176	57	51467841	51477366	-1	C12orf22, FAM130A1	C12ORF2, TAIP-12, PPP1R72
12	CSRNP2	ENSG00000110925	ENST00000552680	processed_transcript	KNOWN	None	16006	None	None	51470199	51477447	-1	C12orf22, FAM130A1	C12ORF2, TAIP-12, PPP1R72
12	CSRNP2	ENSG00000110925	ENST00000550461	processed_transcript	KNOWN	None	16006	None	None	51470352	51477379	-1	C12orf22, FAM130A1	C12ORF2, TAIP-12, PPP1R72
12	None	ENSG00000251863	ENST00000516054	snoRNA	NOVEL	None	None	None	None	33515518	33515590	-1	None	None
17	None	ENSG00000267095	ENST00000592317	lincRNA	KNOWN	None	None	None	None	58213123	58217442	-1	None	None
2	None	ENSG00000236209	ENST00000418001	lincRNA	KNOWN	None	None	None	None	75146682	75151973	-1	None	None
19	None	ENSG00000226025	ENST00000412609	processed_transcript	KNOWN	None	None	None	None	40170014	40177008	1	None	None
19	None	ENSG00000226025	ENST00000458539	processed_transcript	KNOWN	None	None	None	None	40170033	40175891	1	None	None
19	None	ENSG00000226025	ENST00000598304	processed_transcript	KNOWN	None	None	None	None	40170033	40175891	1	None	None
19	None	ENSG00000226025	ENST00000598736	processed_transcript	KNOWN	None	None	None	None	40170033	40177013	1	None	None
19	None	ENSG00000226025	ENST00000598164	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	40172073	40174788	1	None	None
19	None	ENSG00000226025	ENST00000455832	unprocessed_pseudogene	KNOWN	None	None	None	None	40170014	40176361	1	None	None
11	None	ENSG00000255429	ENST00000528319	lincRNA	KNOWN	None	None	None	None	89279805	89322779	-1	None	None
17	NPM1P45	ENSG00000265593	ENST00000583151	processed_pseudogene	KNOWN	None	45224	None	None	9756065	9756623	-1	None	None
1	None	ENSG00000228084	ENST00000454219	antisense	KNOWN	None	None	None	None	100433939	100435420	-1	None	None
20	POFUT1	ENSG00000101346	ENST00000375749	protein_coding	KNOWN	CCDS13198	14988	1167	388	30795683	30826470	1	None	O-FUT, O-Fuc-T, KIAA0180, FUT12
20	POFUT1	ENSG00000101346	ENST00000375730	protein_coding	KNOWN	CCDS13199	14988	585	194	30795696	30805726	1	None	O-FUT, O-Fuc-T, KIAA0180, FUT12
20	POFUT1	ENSG00000101346	ENST00000486717	processed_transcript	KNOWN	None	14988	None	None	30795738	30822371	1	None	O-FUT, O-Fuc-T, KIAA0180, FUT12
20	POFUT1	ENSG00000101346	ENST00000465791	processed_transcript	KNOWN	None	14988	None	None	30804468	30819139	1	None	O-FUT, O-Fuc-T, KIAA0180, FUT12
20	POFUT1	ENSG00000101346	ENST00000539210	protein_coding	KNOWN	None	14988	534	177	30795696	30822649	1	None	O-FUT, O-Fuc-T, KIAA0180, FUT12
12	None	ENSG00000259937	ENST00000561632	lincRNA	KNOWN	None	None	None	None	33557810	33558831	-1	None	None
21	LINC00112	ENSG00000232401	ENST00000432830	antisense	KNOWN	None	1263	None	None	43136596	43137740	1	C21orf22, NCRNA00112	None
11	None	ENSG00000222529	ENST00000410597	misc_RNA	NOVEL	None	None	None	None	118841208	118841305	1	None	None
8	FAM90A10P	ENSG00000254597	ENST00000530206	unprocessed_pseudogene	KNOWN	None	32258	None	None	7626499	7629510	1	FAM90A10	None
7	None	ENSG00000224330	ENST00000434321	lincRNA	KNOWN	None	None	None	None	13893980	13898650	-1	None	None
17	None	ENSG00000221486	ENST00000408559	miRNA	NOVEL	None	None	None	None	9974207	9974321	1	None	None
1	DCAF8	ENSG00000132716	ENST00000368073	protein_coding	KNOWN	CCDS1200	24891	1794	597	160185505	160232241	-1	WDR42A	H326, FLJ35857
1	DCAF8	ENSG00000132716	ENST00000326837	protein_coding	KNOWN	CCDS1200	24891	1794	597	160185505	160232266	-1	WDR42A	H326, FLJ35857
1	DCAF8	ENSG00000132716	ENST00000368074	protein_coding	KNOWN	CCDS1200	24891	1794	597	160185505	160232291	-1	WDR42A	H326, FLJ35857
1	DCAF8	ENSG00000132716	ENST00000477163	processed_transcript	KNOWN	None	24891	None	None	160186343	160194262	-1	WDR42A	H326, FLJ35857
1	DCAF8	ENSG00000132716	ENST00000473382	processed_transcript	KNOWN	None	24891	None	None	160186864	160188648	-1	WDR42A	H326, FLJ35857
1	DCAF8	ENSG00000132716	ENST00000476033	processed_transcript	KNOWN	None	24891	None	None	160187137	160189104	-1	WDR42A	H326, FLJ35857
1	DCAF8	ENSG00000132716	ENST00000461888	processed_transcript	KNOWN	None	24891	None	None	160187257	160232321	-1	WDR42A	H326, FLJ35857
1	DCAF8	ENSG00000132716	ENST00000490368	processed_transcript	KNOWN	None	24891	None	None	160187276	160194318	-1	WDR42A	H326, FLJ35857
1	DCAF8	ENSG00000132716	ENST00000497354	processed_transcript	KNOWN	None	24891	None	None	160187474	160190724	-1	WDR42A	H326, FLJ35857
1	DCAF8	ENSG00000132716	ENST00000481831	processed_transcript	KNOWN	None	24891	None	None	160187641	160189929	-1	WDR42A	H326, FLJ35857
1	DCAF8	ENSG00000132716	ENST00000466253	processed_transcript	KNOWN	None	24891	None	None	160190878	160208775	-1	WDR42A	H326, FLJ35857
1	DCAF8	ENSG00000132716	ENST00000475733	processed_transcript	KNOWN	None	24891	None	None	160209012	160232226	-1	WDR42A	H326, FLJ35857
1	DCAF8	ENSG00000132716	ENST00000447377	protein_coding	KNOWN	None	24891	636	211	160209574	160232304	-1	WDR42A	H326, FLJ35857
1	DCAF8	ENSG00000132716	ENST00000495887	processed_transcript	KNOWN	None	24891	None	None	160209760	160231592	-1	WDR42A	H326, FLJ35857
1	DCAF8	ENSG00000132716	ENST00000440682	protein_coding	KNOWN	None	24891	329	108	160209881	160232318	-1	WDR42A	H326, FLJ35857
1	DCAF8	ENSG00000132716	ENST00000407642	protein_coding	KNOWN	None	24891	318	105	160209892	160232238	-1	WDR42A	H326, FLJ35857
1	DCAF8	ENSG00000132716	ENST00000419626	protein_coding	KNOWN	None	24891	122	39	160210088	160232197	-1	WDR42A	H326, FLJ35857
17	FAM106DP	ENSG00000266960	ENST00000586416	unprocessed_pseudogene	KNOWN	None	38397	None	None	58250683	58251183	1	FAM106D	None
2	None	ENSG00000230836	ENST00000453951	lincRNA	KNOWN	None	None	None	None	75167385	75169797	1	None	None
1	RN7SL788P	ENSG00000241745	ENST00000460504	misc_RNA	KNOWN	None	46804	None	None	52615777	52616089	1	None	None
7	RNU6-162P	ENSG00000252037	ENST00000516228	snRNA	KNOWN	None	47125	None	None	143271839	143271941	1	None	None
11	RN7SKP239	ENSG00000201684	ENST00000364814	misc_RNA	KNOWN	None	45963	None	None	67129885	67130179	1	None	None
X	CSAG2	ENSG00000184324	ENST00000370292	antisense	KNOWN	None	16847	None	None	151922445	151928738	1	CSAG3B	TRAG3, CT24.2
X	CSAG2	ENSG00000184324	ENST00000439173	antisense	KNOWN	None	16847	None	None	151927734	151928738	1	CSAG3B	TRAG3, CT24.2
HSCHR6_MHC_DBB	C6orf47	ENSG00000228435	ENST00000431256	protein_coding	KNOWN	None	19076	885	294	31608257	31610731	-1	None	D6S53E, G4
17	None	ENSG00000263500	ENST00000584264	lincRNA	KNOWN	None	None	None	None	10034216	10034704	-1	None	None
7	None	ENSG00000230556	ENST00000448886	processed_pseudogene	KNOWN	None	None	None	None	143276000	143276165	1	None	None
17	SCARNA20	ENSG00000252577	ENST00000516768	snoRNA	KNOWN	None	32578	None	None	58308877	58309007	-1	None	ACA66
1	None	ENSG00000228407	ENST00000414059	processed_pseudogene	KNOWN	None	None	None	None	52625933	52626272	-1	None	None
14	IGHV7-81	ENSG00000211979	ENST00000390639	IG_V_gene	KNOWN	None	5669	351	116	107282792	107283280	-1	None	None
3	None	ENSG00000244281	ENST00000467059	processed_pseudogene	KNOWN	None	None	None	None	81416141	81417172	-1	None	None
9	PTGES	ENSG00000148344	ENST00000481476	processed_transcript	KNOWN	None	9599	None	None	132500610	132515298	-1	MGST1L1	MGST-IV, PIG12, MGST1-L1, TP53I12
9	PTGES	ENSG00000148344	ENST00000340607	protein_coding	KNOWN	CCDS6927	9599	459	152	132500610	132515326	-1	MGST1L1	MGST-IV, PIG12, MGST1-L1, TP53I12
17	None	ENSG00000264194	ENST00000581040	antisense	KNOWN	None	None	None	None	10048831	10050277	1	None	None
2	MIR5000	ENSG00000263909	ENST00000577717	miRNA	KNOWN	None	43464	None	None	75317939	75318041	1	None	hsa-mir-5000
3	None	ENSG00000270739	ENST00000604305	processed_pseudogene	KNOWN	None	None	None	None	16316567	16318139	-1	None	None
12	None	ENSG00000257194	ENST00000548722	lincRNA	KNOWN	None	None	None	None	90501516	90506556	1	None	None
17	None	ENSG00000241157	ENST00000475274	processed_pseudogene	KNOWN	None	None	None	None	58322649	58323008	-1	None	None
2	CIB4	ENSG00000157884	ENST00000288861	protein_coding	KNOWN	CCDS33160	33703	558	185	26804070	26864236	-1	None	None
2	CIB4	ENSG00000157884	ENST00000403670	processed_transcript	KNOWN	None	33703	None	None	26804075	26828431	-1	None	None
2	CIB4	ENSG00000157884	ENST00000405346	processed_transcript	KNOWN	None	33703	None	None	26804208	26846495	-1	None	None
11	RNU6-1238P	ENSG00000253024	ENST00000517215	snRNA	KNOWN	None	48201	None	None	67162681	67162782	-1	None	None
2	None	ENSG00000270571	ENST00000604271	antisense	KNOWN	None	None	None	None	75381492	75417075	1	None	None
17	RPS27AP1	ENSG00000242692	ENST00000475545	processed_pseudogene	KNOWN	None	17121	None	None	10162079	10162549	1	None	RPS27AP
2	GPAA1P1	ENSG00000240069	ENST00000453019	transcribed_processed_pseudogene	KNOWN	None	4447	None	None	110741635	110742565	1	None	None
3	MIR4448	ENSG00000263932	ENST00000584360	miRNA	KNOWN	None	41604	None	None	183604588	183604673	1	None	hsa-mir-4448
21	None	ENSG00000236883	ENST00000423276	antisense	KNOWN	None	None	None	None	43159533	43161468	1	None	None
12	None	ENSG00000265029	ENST00000516979	miRNA	NOVEL	None	None	None	None	33565465	33565546	-1	None	None
11	None	ENSG00000255357	ENST00000531858	lincRNA	KNOWN	None	None	None	None	22513658	22524392	1	None	None
1	None	ENSG00000223429	ENST00000412785	processed_pseudogene	KNOWN	None	None	None	None	52627858	52628698	-1	None	None
6	RNU6-141P	ENSG00000222431	ENST00000410499	snRNA	KNOWN	None	47104	None	None	20452600	20452704	-1	None	None
8	None	ENSG00000253574	ENST00000518354	antisense	KNOWN	None	None	None	None	140923482	140928864	1	None	None
8	None	ENSG00000253574	ENST00000521883	antisense	KNOWN	None	None	None	None	140927043	140928864	1	None	None
11	None	ENSG00000255949	ENST00000535922	antisense	KNOWN	None	None	None	None	67198838	67202870	-1	None	None
15	RNU6-978P	ENSG00000201241	ENST00000364371	snRNA	KNOWN	None	47941	None	None	20088867	20088969	1	None	None
2	None	ENSG00000238521	ENST00000459589	snoRNA	NOVEL	None	None	None	None	75645972	75646075	-1	None	None
10	PDCD4-AS1	ENSG00000203497	ENST00000420367	antisense	KNOWN	None	27425	None	None	112629626	112631991	-1	None	None
6	None	ENSG00000201683	ENST00000364813	misc_RNA	NOVEL	None	None	None	None	20500406	20500507	1	None	None
15	None	ENSG00000258463	ENST00000553634	processed_pseudogene	KNOWN	None	None	None	None	20104587	20104812	1	None	None
1	RNU6-750P	ENSG00000212248	ENST00000390946	snRNA	KNOWN	None	47713	None	None	100444495	100444601	1	None	None
2	GAPDHP57	ENSG00000236167	ENST00000424400	processed_pseudogene	KNOWN	None	38563	None	None	75683120	75683704	-1	None	None
3	RNU2-28P	ENSG00000222389	ENST00000410457	snRNA	KNOWN	None	48521	None	None	81558627	81558815	1	None	None
6	None	ENSG00000225832	ENST00000454835	processed_pseudogene	KNOWN	None	None	None	None	20722559	20723886	-1	None	None
11	RN7SL529P	ENSG00000242712	ENST00000467146	misc_RNA	KNOWN	None	46545	None	None	118865044	118865343	1	None	None
7	FAM115B	ENSG00000223459	ENST00000414990	unprocessed_pseudogene	KNOWN	None	33604	None	None	143295133	143301932	1	None	None
7	FAM115B	ENSG00000223459	ENST00000440891	unprocessed_pseudogene	KNOWN	None	33604	None	None	143295784	143305111	1	None	None
15	SLC20A1P3	ENSG00000258706	ENST00000555979	processed_pseudogene	KNOWN	None	42538	None	None	20172667	20173605	-1	None	None
1	RNU6-1318P	ENSG00000202259	ENST00000365389	snRNA	KNOWN	None	48281	None	None	100466193	100466295	-1	None	None
1	ASH1L-AS1	ENSG00000235919	ENST00000456633	lincRNA	KNOWN	None	44146	None	None	155531833	155533437	1	None	None
1	ASH1L-AS1	ENSG00000235919	ENST00000452809	antisense	KNOWN	None	44146	None	None	155531864	155533735	1	None	None
1	ASH1L-AS1	ENSG00000235919	ENST00000594351	processed_transcript	KNOWN	None	44146	None	None	155531821	155533775	1	None	None
7	None	ENSG00000213875	ENST00000436455	processed_pseudogene	KNOWN	None	None	None	None	13911481	13912138	1	None	None
10	MIR4680	ENSG00000265827	ENST00000580906	miRNA	KNOWN	None	41541	None	None	112657848	112657913	1	None	hsa-mir-4680
12	None	ENSG00000256070	ENST00000393026	processed_pseudogene	KNOWN	None	None	None	None	33607280	33608387	1	None	None
17	None	ENSG00000271626	ENST00000604179	processed_pseudogene	KNOWN	None	None	None	None	58393195	58393576	1	None	None
11	None	ENSG00000215565	ENST00000400586	pseudogene	NOVEL	None	None	None	None	129952103	129952367	1	None	None
17	None	ENSG00000264067	ENST00000577743	antisense	KNOWN	None	None	None	None	10223709	10244775	1	None	None
14	None	ENSG00000215398	ENST00000514609	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	19110203	19118336	1	None	None
14	None	ENSG00000215398	ENST00000553170	processed_transcript	KNOWN	None	None	None	None	19110303	19117136	1	None	None
10	None	ENSG00000270589	ENST00000603915	antisense	KNOWN	None	None	None	None	112670354	112672002	1	None	None
13	LINC00545	ENSG00000236094	ENST00000440633	lincRNA	KNOWN	None	43680	None	None	31456688	31457532	1	None	None
6	None	ENSG00000233848	ENST00000421167	antisense	KNOWN	None	None	None	None	20756334	20800925	-1	None	None
3	SETP6	ENSG00000241319	ENST00000479329	processed_pseudogene	KNOWN	None	42925	None	None	81661389	81661956	-1	None	None
2	None	ENSG00000237293	ENST00000444852	antisense	KNOWN	None	None	None	None	75701579	75709705	1	None	None
1	None	ENSG00000243636	ENST00000442684	lincRNA	KNOWN	None	None	None	None	207352641	207357407	1	None	None
17	RPL12P38	ENSG00000213228	ENST00000588627	processed_transcript	KNOWN	None	36838	None	None	58511039	58513357	-1	None	None
17	RPL12P38	ENSG00000213228	ENST00000471280	transcribed_processed_pseudogene	KNOWN	None	36838	None	None	58511084	58511573	-1	None	None
1	PDCL3P6	ENSG00000224255	ENST00000429744	processed_pseudogene	KNOWN	None	44507	None	None	52645520	52646225	1	None	None
1	None	ENSG00000261254	ENST00000564623	sense_overlapping	KNOWN	None	None	None	None	100496122	100501188	1	None	None
9	FAM154A	ENSG00000155875	ENST00000380534	protein_coding	KNOWN	CCDS6487	28566	1425	474	18927656	19033186	-1	C9orf138	MGC35182
9	FAM154A	ENSG00000155875	ENST00000380530	protein_coding	PUTATIVE	None	28566	222	73	18927890	19033251	-1	C9orf138	MGC35182
9	FAM154A	ENSG00000155875	ENST00000583128	processed_transcript	KNOWN	None	28566	None	None	18947690	19033207	-1	C9orf138	MGC35182
9	FAM154A	ENSG00000155875	ENST00000542071	protein_coding	KNOWN	None	28566	849	282	18927890	19033251	-1	C9orf138	MGC35182
6	ERVFRD-1	ENSG00000244476	ENST00000472091	protein_coding	KNOWN	CCDS4519	33823	1617	538	11102722	11111965	-1	None	HERV-W/FRD, HERV-FRD, envFRD, ERVFRDE1, syncytin-2
6	ERVFRD-1	ENSG00000244476	ENST00000542862	protein_coding	KNOWN	CCDS4519	33823	1617	538	11102724	11105907	-1	None	HERV-W/FRD, HERV-FRD, envFRD, ERVFRDE1, syncytin-2
11	FOLH1B	ENSG00000134612	ENST00000533785	processed_transcript	KNOWN	None	13636	None	None	89371683	89385804	1	FOLH2, FOLHP	PSMAL, GCPIII
11	FOLH1B	ENSG00000134612	ENST00000531315	processed_transcript	KNOWN	None	13636	None	None	89371683	89431772	1	FOLH2, FOLHP	PSMAL, GCPIII
11	FOLH1B	ENSG00000134612	ENST00000529567	transcribed_unprocessed_pseudogene	KNOWN	None	13636	None	None	89372395	89431767	1	FOLH2, FOLHP	PSMAL, GCPIII
11	FOLH1B	ENSG00000134612	ENST00000526379	processed_transcript	KNOWN	None	13636	None	None	89372398	89431885	1	FOLH2, FOLHP	PSMAL, GCPIII
11	FOLH1B	ENSG00000134612	ENST00000532352	processed_transcript	KNOWN	None	13636	None	None	89372398	89431886	1	FOLH2, FOLHP	PSMAL, GCPIII
11	FOLH1B	ENSG00000134612	ENST00000525540	processed_transcript	KNOWN	None	13636	None	None	89392465	89431886	1	FOLH2, FOLHP	PSMAL, GCPIII
11	FOLH1B	ENSG00000134612	ENST00000542857	unprocessed_pseudogene	KNOWN	None	13636	None	None	89385714	89391901	1	FOLH2, FOLHP	PSMAL, GCPIII
2	None	ENSG00000238410	ENST00000459339	snoRNA	NOVEL	None	None	None	None	75716702	75716836	1	None	None
15	IGHV1OR15-2	ENSG00000259337	ENST00000558824	IG_V_pseudogene	KNOWN	None	5564	None	None	20178035	20178471	-1	None	IGHV1/OR15-2
HSCHR6_MHC_QBL	RPL13AP	ENSG00000206519	ENST00000453334	processed_pseudogene	KNOWN	None	13977	None	None	29550219	29550736	1	None	RPL13Ap, dJ271M21.3
1	None	ENSG00000271267	ENST00000604995	processed_pseudogene	KNOWN	None	None	None	None	155535841	155536097	-1	None	None
11	None	ENSG00000255121	ENST00000582695	lincRNA	KNOWN	None	None	None	None	118865534	118867314	-1	None	None
11	None	ENSG00000255121	ENST00000526453	lincRNA	KNOWN	None	None	None	None	118866905	118868714	-1	None	None
1	None	ENSG00000241073	ENST00000432294	antisense	KNOWN	None	None	None	None	100523546	100550027	-1	None	None
6	RNU6-150P	ENSG00000252046	ENST00000516237	snRNA	KNOWN	None	47113	None	None	20993705	20993799	-1	None	None
5	GCNT1P2	ENSG00000249206	ENST00000504682	processed_pseudogene	KNOWN	None	37972	None	None	22580334	22580928	-1	None	None
2	None	ENSG00000231172	ENST00000451622	antisense	KNOWN	None	None	None	None	75751194	75769832	1	None	None
12	None	ENSG00000257760	ENST00000546592	processed_transcript	KNOWN	None	None	None	None	110906085	110907073	-1	None	None
9	MIR4670	ENSG00000264158	ENST00000583240	miRNA	KNOWN	None	41862	None	None	95290266	95290340	-1	None	hsa-mir-4670
6	None	ENSG00000227089	ENST00000426374	lincRNA	KNOWN	None	None	None	None	21354642	21355527	-1	None	None
18	SYT4	ENSG00000132872	ENST00000255224	protein_coding	KNOWN	CCDS11922	11512	1278	425	40847843	40857615	-1	None	KIAA1342, HsT1192
18	SYT4	ENSG00000132872	ENST00000586678	processed_transcript	KNOWN	None	11512	None	None	40849632	40857500	-1	None	KIAA1342, HsT1192
18	SYT4	ENSG00000132872	ENST00000590752	protein_coding	NOVEL	None	11512	1224	407	40849974	40857455	-1	None	KIAA1342, HsT1192
18	SYT4	ENSG00000132872	ENST00000585604	processed_transcript	KNOWN	None	11512	None	None	40850146	40857464	-1	None	KIAA1342, HsT1192
18	SYT4	ENSG00000132872	ENST00000596867	protein_coding	PUTATIVE	None	11512	309	102	40850465	40857455	-1	None	KIAA1342, HsT1192
18	SYT4	ENSG00000132872	ENST00000589479	processed_transcript	KNOWN	None	11512	None	None	40850517	40852116	-1	None	KIAA1342, HsT1192
18	SYT4	ENSG00000132872	ENST00000593720	protein_coding	PUTATIVE	None	11512	431	142	40851697	40857341	-1	None	KIAA1342, HsT1192
18	SYT4	ENSG00000132872	ENST00000591820	processed_transcript	KNOWN	None	11512	None	None	40853998	40857455	-1	None	KIAA1342, HsT1192
13	None	ENSG00000238185	ENST00000433788	antisense	KNOWN	None	None	None	None	31547426	31551760	-1	None	None
17	None	ENSG00000214970	ENST00000399342	antisense	KNOWN	None	None	None	None	10286449	10441179	1	None	None
17	None	ENSG00000214970	ENST00000587182	antisense	KNOWN	None	None	None	None	10286461	10527201	1	None	None
17	None	ENSG00000214970	ENST00000581304	antisense	KNOWN	None	None	None	None	10286473	10438548	1	None	None
17	None	ENSG00000214970	ENST00000579914	antisense	KNOWN	None	None	None	None	10482357	10515888	1	None	None
17	None	ENSG00000214970	ENST00000581947	antisense	KNOWN	None	None	None	None	10515219	10526353	1	None	None
17	None	ENSG00000214970	ENST00000585303	antisense	KNOWN	None	None	None	None	10515225	10526172	1	None	None
17	None	ENSG00000214970	ENST00000577181	antisense	KNOWN	None	None	None	None	10516797	10526228	1	None	None
1	None	ENSG00000226952	ENST00000443135	processed_pseudogene	KNOWN	None	None	None	None	100564795	100565046	1	None	None
6	HUS1B	ENSG00000188996	ENST00000380907	protein_coding	KNOWN	CCDS4470	16485	837	278	655939	656963	-1	None	None
1	DAP3P1	ENSG00000225082	ENST00000441522	unprocessed_pseudogene	KNOWN	None	17624	None	None	155556435	155571988	1	DAP3P	MRPS29P1
11	None	ENSG00000269913	ENST00000602912	lincRNA	KNOWN	None	None	None	None	67227339	67227784	1	None	None
5	None	ENSG00000249404	ENST00000507674	lincRNA	KNOWN	None	None	None	None	23013157	23014636	1	None	None
2	None	ENSG00000230477	ENST00000426657	processed_pseudogene	KNOWN	None	None	None	None	75825197	75825685	1	None	None
1	C4BPAP2	ENSG00000232621	ENST00000428434	unprocessed_pseudogene	KNOWN	None	1327	None	None	207399143	207402547	1	C4BPAL2	None
2	None	ENSG00000225108	ENST00000452761	processed_pseudogene	KNOWN	None	None	None	None	110744516	110745971	-1	None	None
9	None	ENSG00000225551	ENST00000447622	unprocessed_pseudogene	KNOWN	None	None	None	None	95301335	95301466	-1	None	None
17	None	ENSG00000266911	ENST00000591202	sense_intronic	KNOWN	None	None	None	None	34084218	34085344	-1	None	None
HSCHR6_MHC_QBL	SUMO2P1	ENSG00000234528	ENST00000414746	processed_pseudogene	KNOWN	None	13985	None	None	29603761	29604044	-1	SMT3H2P, SUMO2P	SMT3Bp, dJ271M21
HSCHR6_MHC_QBL	SUMO2P1	ENSG00000234528	ENST00000547386	pseudogene	KNOWN	None	13985	None	None	29603761	29604044	-1	SMT3H2P, SUMO2P	SMT3Bp, dJ271M21
X	None	ENSG00000233887	ENST00000427866	processed_pseudogene	KNOWN	None	None	None	None	97102261	97104015	1	None	None
1	None	ENSG00000236004	ENST00000454802	processed_pseudogene	KNOWN	None	None	None	None	52655588	52655981	-1	None	None
13	None	ENSG00000230403	ENST00000415283	lincRNA	KNOWN	None	None	None	None	31569299	31570275	-1	None	None
1	None	ENSG00000271415	ENST00000603820	processed_pseudogene	KNOWN	None	None	None	None	100662372	100662607	1	None	None
19	RNA5SP468	ENSG00000252591	ENST00000516782	rRNA	KNOWN	None	43368	None	None	18082834	18082926	1	RN5S468	None
9	None	ENSG00000213669	ENST00000442640	processed_pseudogene	KNOWN	None	None	None	None	95439225	95439689	-1	None	None
3	None	ENSG00000271964	ENST00000607464	antisense	KNOWN	None	None	None	None	16355946	16356494	1	None	None
12	RNU6-400P	ENSG00000212475	ENST00000391173	snRNA	KNOWN	None	47363	None	None	33729030	33729135	1	None	None
X	None	ENSG00000200291	ENST00000363421	misc_RNA	NOVEL	None	None	None	None	117048207	117048308	-1	None	None
8	None	ENSG00000259891	ENST00000564464	antisense	KNOWN	None	None	None	None	141515912	141518142	-1	None	None
17	None	ENSG00000267578	ENST00000588414	lincRNA	KNOWN	None	None	None	None	34135493	34135901	-1	None	None
19	None	ENSG00000268298	ENST00000598385	antisense	KNOWN	None	None	None	None	18122108	18142348	-1	None	None
11	RNA5SP338	ENSG00000222427	ENST00000410495	rRNA	KNOWN	None	43238	None	None	22709897	22709981	1	RN5S338	None
1	None	ENSG00000223503	ENST00000427475	processed_pseudogene	KNOWN	None	None	None	None	155560392	155561053	-1	None	None
11	None	ENSG00000270169	ENST00000602944	lincRNA	KNOWN	None	None	None	None	67229181	67229791	-1	None	None
2	None	ENSG00000221638	ENST00000408711	snoRNA	NOVEL	None	None	None	None	75855079	75855293	1	None	None
14	None	ENSG00000258520	ENST00000556316	lincRNA	KNOWN	None	None	None	None	69705883	69727284	-1	None	None
X	None	ENSG00000239500	ENST00000436163	processed_pseudogene	KNOWN	None	None	None	None	117250142	117250763	-1	None	None
20	CST9	ENSG00000173335	ENST00000376971	protein_coding	KNOWN	CCDS33450	13261	480	159	23583047	23586513	-1	None	CLM, CTES7A
3	None	ENSG00000272498	ENST00000607363	antisense	KNOWN	None	None	None	None	16380815	16381378	1	None	None
7	None	ENSG00000252374	ENST00000516565	misc_RNA	NOVEL	None	None	None	None	14050294	14050388	-1	None	None
17	None	ENSG00000267025	ENST00000588415	antisense	KNOWN	None	None	None	None	34143721	34157297	-1	None	None
3	None	ENSG00000240404	ENST00000477387	processed_pseudogene	KNOWN	None	None	None	None	81661941	81662223	1	None	None
2	None	ENSG00000239018	ENST00000459211	snoRNA	NOVEL	None	None	None	None	75862267	75862370	1	None	None
1	BRI3P1	ENSG00000225169	ENST00000440440	processed_pseudogene	KNOWN	None	33533	None	None	100678849	100679226	1	None	None
HG531_PATCH	None	ENSG00000260615	ENST00000568955	processed_pseudogene	KNOWN	None	None	None	None	115111642	115112112	1	None	None
2	None	ENSG00000226247	ENST00000423067	processed_pseudogene	KNOWN	None	None	None	None	75878414	75878753	-1	None	None
17	None	ENSG00000267347	ENST00000589356	sense_overlapping	KNOWN	None	None	None	None	34145403	34150717	1	None	None
19	None	ENSG00000268032	ENST00000594957	processed_transcript	KNOWN	None	None	None	None	18133212	18141943	1	None	None
19	None	ENSG00000268032	ENST00000596122	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	18141438	18142839	1	None	None
15	MIR626	ENSG00000207766	ENST00000385032	miRNA	KNOWN	None	32882	None	None	41983783	41983876	1	MIRN626	hsa-mir-626
11	MAPK8IP1	ENSG00000121653	ENST00000241014	protein_coding	KNOWN	CCDS7916	6882	2136	711	45907202	45928016	1	PRKM8IP	IB1, JIP-1, JIP1
11	MAPK8IP1	ENSG00000121653	ENST00000395629	protein_coding	NOVEL	None	6882	2106	701	45918101	45928016	1	PRKM8IP	IB1, JIP-1, JIP1
11	MAPK8IP1	ENSG00000121653	ENST00000497090	retained_intron	KNOWN	None	6882	None	None	45923484	45924294	1	PRKM8IP	IB1, JIP-1, JIP1
1	DNAJC19P7	ENSG00000237663	ENST00000428811	processed_pseudogene	KNOWN	None	45070	None	None	52717734	52718445	-1	None	None
1	None	ENSG00000232519	ENST00000456382	antisense	KNOWN	None	None	None	None	155579339	155580171	-1	None	None
11	None	ENSG00000203507	ENST00000354337	pseudogene	NOVEL	None	None	None	None	22766126	22768414	1	None	None
7	LRRC4	ENSG00000128594	ENST00000249363	protein_coding	KNOWN	CCDS5799	15586	1962	653	127667124	127671123	-1	None	NAG14
7	LRRC4	ENSG00000128594	ENST00000494115	protein_coding	PUTATIVE	None	15586	236	77	127670212	127671058	-1	None	NAG14
7	LRRC4	ENSG00000128594	ENST00000476782	protein_coding	KNOWN	None	15586	284	93	127670410	127672160	-1	None	NAG14
7	LRRC4	ENSG00000128594	ENST00000478726	protein_coding	KNOWN	None	15586	152	49	127670542	127671674	-1	None	NAG14
17	None	ENSG00000267326	ENST00000589274	processed_pseudogene	KNOWN	None	None	None	None	34188097	34188570	-1	None	None
12	None	ENSG00000270807	ENST00000603103	processed_pseudogene	KNOWN	None	None	None	None	33870788	33871152	1	None	None
14	None	ENSG00000244237	ENST00000467051	processed_pseudogene	KNOWN	None	None	None	None	70027736	70028187	-1	None	None
17	None	ENSG00000270553	ENST00000605540	processed_pseudogene	KNOWN	None	None	None	None	58590551	58590911	1	None	None
1	PADI1	ENSG00000142623	ENST00000375471	protein_coding	KNOWN	CCDS178	18367	1992	663	17531621	17572500	1	None	HPAD10, PDI1, PDI, PAD1
1	PADI1	ENSG00000142623	ENST00000483501	processed_transcript	KNOWN	None	18367	None	None	17549982	17552653	1	None	HPAD10, PDI1, PDI, PAD1
1	PADI1	ENSG00000142623	ENST00000460293	processed_transcript	KNOWN	None	18367	None	None	17566127	17572499	1	None	HPAD10, PDI1, PDI, PAD1
1	PADI1	ENSG00000142623	ENST00000537499	protein_coding	KNOWN	None	18367	663	220	17559776	17570840	1	None	HPAD10, PDI1, PDI, PAD1
1	PADI1	ENSG00000142623	ENST00000413717	protein_coding	KNOWN	None	18367	537	178	17559778	17571505	1	None	HPAD10, PDI1, PDI, PAD1
1	PADI1	ENSG00000142623	ENST00000536552	protein_coding	KNOWN	None	18367	405	134	17559850	17571603	1	None	HPAD10, PDI1, PDI, PAD1
7	None	ENSG00000223445	ENST00000418672	processed_pseudogene	KNOWN	None	None	None	None	14110160	14111005	-1	None	None
4	CCNA2	ENSG00000145386	ENST00000274026	protein_coding	KNOWN	CCDS3723	1578	1299	432	122737599	122745087	-1	CCNA, CCN1	None
4	None	ENSG00000249330	ENST00000502455	antisense	KNOWN	None	None	None	None	46392272	46435205	1	None	None
15	None	ENSG00000270702	ENST00000605661	processed_pseudogene	KNOWN	None	None	None	None	42010568	42010870	-1	None	None
HG306_PATCH	None	ENSG00000261999	ENST00000577137	antisense	KNOWN	None	None	None	None	112830002	112834182	-1	None	None
HG306_PATCH	None	ENSG00000261999	ENST00000574015	antisense	KNOWN	None	None	None	None	112831050	112832021	-1	None	None
16	PGP	ENSG00000184207	ENST00000333503	protein_coding	KNOWN	CCDS42104	8909	966	321	2261998	2264808	-1	None	None
16	PGP	ENSG00000184207	ENST00000562001	nonsense_mediated_decay	KNOWN	None	8909	172	56	2262263	2263900	-1	None	None
7	None	ENSG00000267988	ENST00000596600	protein_coding	NOVEL	None	None	498	165	45902684	45906045	-1	None	None
11	None	ENSG00000246225	ENST00000525963	antisense	KNOWN	None	None	None	None	22850926	22898394	1	None	None
11	None	ENSG00000246225	ENST00000528701	antisense	KNOWN	None	None	None	None	22850958	22942196	1	None	None
11	None	ENSG00000246225	ENST00000499625	antisense	KNOWN	None	None	None	None	22850968	22966939	1	None	None
11	RN7SL59P	ENSG00000244152	ENST00000479754	misc_RNA	KNOWN	None	46075	None	None	67309206	67309475	-1	None	None
2	None	ENSG00000270696	ENST00000604845	antisense	KNOWN	None	None	None	None	75887588	75889334	1	None	None
17	None	ENSG00000237805	ENST00000413928	antisense	KNOWN	None	None	None	None	34195971	34212867	1	None	None
3	LAMB2	ENSG00000172037	ENST00000467506	retained_intron	KNOWN	None	6487	None	None	49158547	49159409	-1	LAMS	None
3	LAMB2	ENSG00000172037	ENST00000418109	protein_coding	KNOWN	CCDS2789	6487	5397	1798	49158547	49170551	-1	LAMS	None
3	LAMB2	ENSG00000172037	ENST00000484713	retained_intron	KNOWN	None	6487	None	None	49158548	49159029	-1	LAMS	None
3	LAMB2	ENSG00000172037	ENST00000305544	protein_coding	KNOWN	CCDS2789	6487	5397	1798	49158566	49170453	-1	LAMS	None
3	LAMB2	ENSG00000172037	ENST00000498377	retained_intron	KNOWN	None	6487	None	None	49158690	49160031	-1	LAMS	None
3	LAMB2	ENSG00000172037	ENST00000469665	retained_intron	KNOWN	None	6487	None	None	49159927	49161187	-1	LAMS	None
3	LAMB2	ENSG00000172037	ENST00000477225	retained_intron	KNOWN	None	6487	None	None	49160758	49161388	-1	LAMS	None
3	LAMB2	ENSG00000172037	ENST00000480640	retained_intron	KNOWN	None	6487	None	None	49161153	49161912	-1	LAMS	None
3	LAMB2	ENSG00000172037	ENST00000538659	retained_intron	KNOWN	None	6487	None	None	49161392	49162056	-1	LAMS	None
3	LAMB2	ENSG00000172037	ENST00000542580	retained_intron	KNOWN	None	6487	None	None	49161876	49162637	-1	LAMS	None
3	LAMB2	ENSG00000172037	ENST00000462930	retained_intron	KNOWN	None	6487	None	None	49162114	49162812	-1	LAMS	None
3	LAMB2	ENSG00000172037	ENST00000464891	processed_transcript	KNOWN	None	6487	None	None	49162244	49163154	-1	LAMS	None
3	LAMB2	ENSG00000172037	ENST00000483057	retained_intron	KNOWN	None	6487	None	None	49162285	49163005	-1	LAMS	None
3	LAMB2	ENSG00000172037	ENST00000486298	processed_transcript	KNOWN	None	6487	None	None	49162438	49165989	-1	LAMS	None
3	LAMB2	ENSG00000172037	ENST00000477701	retained_intron	KNOWN	None	6487	None	None	49162720	49163616	-1	LAMS	None
3	LAMB2	ENSG00000172037	ENST00000493571	retained_intron	KNOWN	None	6487	None	None	49162973	49163858	-1	LAMS	None
3	LAMB2	ENSG00000172037	ENST00000488638	retained_intron	KNOWN	None	6487	None	None	49163796	49166173	-1	LAMS	None
3	LAMB2	ENSG00000172037	ENST00000483321	retained_intron	KNOWN	None	6487	None	None	49166006	49166705	-1	LAMS	None
3	LAMB2	ENSG00000172037	ENST00000494831	protein_coding	PUTATIVE	None	6487	453	150	49168398	49170489	-1	LAMS	None
17	None	ENSG00000259349	ENST00000559739	antisense	KNOWN	None	None	None	None	58603654	58628127	1	None	None
17	None	ENSG00000259349	ENST00000558027	antisense	KNOWN	None	None	None	None	58603660	58628159	1	None	None
1	None	ENSG00000246203	ENST00000500626	unprocessed_pseudogene	KNOWN	None	None	None	None	155584517	155630036	-1	None	None
12	RNU6-472P	ENSG00000207026	ENST00000384299	snRNA	KNOWN	None	47435	None	None	34076309	34076415	-1	None	None
HSCHR6_MHC_QBL	ZDHHC20P1	ENSG00000228371	ENST00000450322	processed_pseudogene	KNOWN	None	33456	None	None	29675809	29676231	-1	None	OTTHUMG00000086707
6	MAD2L1BP	ENSG00000124688	ENST00000451025	protein_coding	KNOWN	CCDS47431	21059	921	306	43597277	43608656	1	None	CMT2, KIAA0110, dJ261G23.1
6	MAD2L1BP	ENSG00000124688	ENST00000372171	protein_coding	KNOWN	CCDS4904	21059	825	274	43603556	43608689	1	None	CMT2, KIAA0110, dJ261G23.1
6	MAD2L1BP	ENSG00000124688	ENST00000508232	processed_transcript	KNOWN	None	21059	None	None	43603596	43604610	1	None	CMT2, KIAA0110, dJ261G23.1
13	WDR95P	ENSG00000231894	ENST00000425638	unitary_pseudogene	KNOWN	None	42637	None	None	31651391	31689836	1	None	None
3	CYP2AB1P	ENSG00000233441	ENST00000454440	transcribed_unprocessed_pseudogene	KNOWN	None	39975	None	None	183613688	183628724	-1	None	None
3	CYP2AB1P	ENSG00000233441	ENST00000439115	processed_transcript	KNOWN	None	39975	None	None	183613837	183622086	-1	None	None
4	RNU6-412P	ENSG00000252243	ENST00000516434	snRNA	KNOWN	None	47375	None	None	46533254	46533359	-1	None	None
6	None	ENSG00000176515	ENST00000314040	protein_coding	KNOWN	None	None	399	132	1080164	1105181	1	None	None
1	None	ENSG00000230287	ENST00000435545	processed_pseudogene	KNOWN	None	None	None	None	100714646	100714867	1	None	None
1	None	ENSG00000230287	ENST00000595511	processed_pseudogene	KNOWN	None	None	None	None	100714646	100714873	1	None	None
7	OR2F2	ENSG00000221910	ENST00000408955	protein_coding	KNOWN	CCDS43666	8247	954	317	143632259	143633372	1	None	OR7-1
2	None	ENSG00000271452	ENST00000604219	sense_intronic	KNOWN	None	None	None	None	75897115	75897580	1	None	None
11	None	ENSG00000255119	ENST00000533876	antisense	KNOWN	None	None	None	None	67372992	67374113	1	None	None
19	None	ENSG00000268623	ENST00000594322	processed_pseudogene	KNOWN	None	None	None	None	18151203	18151866	1	None	None
16	POLR3K	ENSG00000161980	ENST00000293860	protein_coding	KNOWN	CCDS10395	14121	327	108	96407	103628	-1	None	RPC11
16	POLR3K	ENSG00000161980	ENST00000481810	retained_intron	KNOWN	None	14121	None	None	97236	102142	-1	None	RPC11
4	RAC1P2	ENSG00000249936	ENST00000511164	processed_pseudogene	KNOWN	None	31414	None	None	46725847	46726425	-1	None	Psi2Rac1
4	RAC1P2	ENSG00000249936	ENST00000394695	processed_pseudogene	KNOWN	None	31414	None	None	46725793	46726625	-1	None	Psi2Rac1
HSCHR6_MHC_QBL	HCG4P11	ENSG00000224921	ENST00000417904	unprocessed_pseudogene	KNOWN	None	22930	None	None	29688220	29689210	-1	None	HCGIV-11, HCGIV.10
11	ARHGAP20	ENSG00000137727	ENST00000260283	protein_coding	KNOWN	CCDS31673	18357	3576	1191	110447766	110583451	-1	None	KIAA1391
11	ARHGAP20	ENSG00000137727	ENST00000529591	protein_coding	KNOWN	None	18357	2196	731	110447767	110460409	-1	None	KIAA1391
11	ARHGAP20	ENSG00000137727	ENST00000524756	protein_coding	KNOWN	CCDS58177	18357	3507	1168	110447778	110582773	-1	None	KIAA1391
11	ARHGAP20	ENSG00000137727	ENST00000528829	protein_coding	KNOWN	CCDS58175	18357	3468	1155	110447778	110583451	-1	None	KIAA1391
11	ARHGAP20	ENSG00000137727	ENST00000533353	protein_coding	KNOWN	CCDS58176	18357	3498	1165	110447778	110583912	-1	None	KIAA1391
11	ARHGAP20	ENSG00000137727	ENST00000527598	protein_coding	KNOWN	CCDS58175	18357	3468	1155	110447778	110583912	-1	None	KIAA1391
11	ARHGAP20	ENSG00000137727	ENST00000357139	protein_coding	KNOWN	CCDS58176	18357	3498	1165	110447766	110561721	-1	None	KIAA1391
14	None	ENSG00000221060	ENST00000408133	snoRNA	NOVEL	None	None	None	None	70270920	70271048	-1	None	None
8	COMMD5	ENSG00000170619	ENST00000530332	nonsense_mediated_decay	KNOWN	None	17902	511	169	146066427	146076559	-1	None	HT002, FLJ13008, HCaRG
8	COMMD5	ENSG00000170619	ENST00000402718	protein_coding	PUTATIVE	CCDS6436	17902	675	224	146075559	146078452	-1	None	HT002, FLJ13008, HCaRG
8	COMMD5	ENSG00000170619	ENST00000450361	protein_coding	KNOWN	CCDS6436	17902	675	224	146075573	146079121	-1	None	HT002, FLJ13008, HCaRG
8	COMMD5	ENSG00000170619	ENST00000305103	protein_coding	PUTATIVE	CCDS6436	17902	675	224	146075604	146078419	-1	None	HT002, FLJ13008, HCaRG
8	COMMD5	ENSG00000170619	ENST00000529143	protein_coding	PUTATIVE	None	17902	514	170	146076210	146078042	-1	None	HT002, FLJ13008, HCaRG
8	COMMD5	ENSG00000170619	ENST00000533270	protein_coding	PUTATIVE	None	17902	513	170	146076211	146078388	-1	None	HT002, FLJ13008, HCaRG
1	None	ENSG00000224616	ENST00000421185	antisense	KNOWN	None	None	None	None	100729565	100731676	-1	None	None
17	None	ENSG00000267678	ENST00000589465	processed_pseudogene	KNOWN	None	None	None	None	58639371	58639522	-1	None	None
2	None	ENSG00000270462	ENST00000604464	antisense	KNOWN	None	None	None	None	75924709	75925122	1	None	None
HSCHR12_2_CTG2	None	ENSG00000262986	ENST00000572651	processed_pseudogene	KNOWN	None	None	None	None	11355911	11356112	1	None	None
17	RN7SKP274	ENSG00000223255	ENST00000411323	misc_RNA	KNOWN	None	45998	None	None	34216562	34216808	1	None	None
3	None	ENSG00000242190	ENST00000497946	lincRNA	KNOWN	None	None	None	None	81811857	81813907	-1	None	None
12	None	ENSG00000258183	ENST00000549313	lincRNA	KNOWN	None	None	None	None	90674671	90689452	1	None	None
12	None	ENSG00000258183	ENST00000549470	lincRNA	KNOWN	None	None	None	None	90687095	90694117	1	None	None
12	None	ENSG00000258183	ENST00000548172	lincRNA	KNOWN	None	None	None	None	90687100	90690024	1	None	None
3	None	ENSG00000272529	ENST00000606713	antisense	KNOWN	None	None	None	None	16386633	16387947	1	None	None
15	None	ENSG00000260814	ENST00000607504	lincRNA	KNOWN	None	None	None	None	42062954	42064820	-1	None	None
15	None	ENSG00000260814	ENST00000562063	lincRNA	KNOWN	None	None	None	None	42063130	42064930	-1	None	None
17	None	ENSG00000266943	ENST00000592196	processed_pseudogene	KNOWN	None	None	None	None	58642101	58643032	-1	None	None
2	None	ENSG00000204588	ENST00000419296	lincRNA	KNOWN	None	None	None	None	110744640	110752858	1	None	None
2	None	ENSG00000204588	ENST00000336905	lincRNA	KNOWN	None	None	None	None	110745849	110753717	1	None	None
2	None	ENSG00000270996	ENST00000603612	lincRNA	KNOWN	None	None	None	None	75946246	75947144	1	None	None
4	None	ENSG00000238301	ENST00000459312	snoRNA	NOVEL	None	None	None	None	47307951	47308054	-1	None	None
12	None	ENSG00000201624	ENST00000364754	misc_RNA	NOVEL	None	None	None	None	34135400	34135501	-1	None	None
11	None	ENSG00000254664	ENST00000527450	antisense	KNOWN	None	None	None	None	45237366	45256843	-1	None	None
3	None	ENSG00000269391	ENST00000596963	lincRNA	KNOWN	None	None	None	None	16572278	16573309	1	None	None
1	MIR553	ENSG00000207750	ENST00000385017	miRNA	KNOWN	None	32809	None	None	100746797	100746864	1	MIRN553	hsa-mir-553
7	EEF1A1P26	ENSG00000233167	ENST00000458319	processed_pseudogene	KNOWN	None	37899	None	None	14230420	14231782	1	None	None
4	None	ENSG00000260918	ENST00000562284	sense_overlapping	KNOWN	None	None	None	None	47433977	47440976	1	None	None
1	None	ENSG00000237074	ENST00000417084	lincRNA	KNOWN	None	None	None	None	207422412	207482466	1	None	None
12	None	ENSG00000245482	ENST00000501954	antisense	KNOWN	None	None	None	None	34175216	34199352	-1	None	None
HSCHR6_MHC_QBL	None	ENSG00000206508	ENST00000383625	processed_transcript	KNOWN	None	None	None	None	29691842	29714292	-1	None	None
HSCHR6_MHC_QBL	None	ENSG00000206508	ENST00000514298	processed_transcript	KNOWN	None	None	None	None	29700278	29714236	-1	None	None
HSCHR6_MHC_QBL	None	ENSG00000206508	ENST00000503920	processed_transcript	KNOWN	None	None	None	None	29703001	29703686	-1	None	None
12	None	ENSG00000256480	ENST00000540190	processed_pseudogene	KNOWN	None	None	None	None	7390028	7393582	1	None	None
1	None	ENSG00000215871	ENST00000401024	processed_pseudogene	KNOWN	None	None	None	None	100797360	100798173	-1	None	None
3	LINC00690	ENSG00000233570	ENST00000429949	lincRNA	KNOWN	None	44503	None	None	16577827	16582880	1	None	None
6	FOXQ1	ENSG00000164379	ENST00000296839	protein_coding	KNOWN	CCDS4471	20951	1212	403	1312675	1314992	1	None	HFH1
17	None	ENSG00000261433	ENST00000569543	lincRNA	KNOWN	None	None	None	None	10561859	10562399	-1	None	None
1	ANAPC10P1	ENSG00000213735	ENST00000395991	processed_pseudogene	KNOWN	None	33976	None	None	52719293	52719848	1	ANAPC10P	None
1	None	ENSG00000253044	ENST00000517235	miRNA	NOVEL	None	None	None	None	207688630	207688688	1	None	None
4	UGT2A2	ENSG00000271271	ENST00000604629	protein_coding	KNOWN	None	28183	1613	536	70455027	70505360	-1	None	None
4	UGT2A2	ENSG00000271271	ENST00000604021	protein_coding	KNOWN	None	28183	1481	492	70455027	70505360	-1	None	None
4	UGT2A2	ENSG00000271271	ENST00000457664	protein_coding	KNOWN	CCDS56331	28183	1611	536	70454135	70505358	-1	None	None
2	SUCLA2P2	ENSG00000233107	ENST00000417269	processed_pseudogene	KNOWN	None	38102	None	None	76333142	76334450	-1	None	None
7	RNU6-267P	ENSG00000252523	ENST00000516714	snRNA	KNOWN	None	47230	None	None	143451721	143451823	-1	None	None
17	None	ENSG00000263388	ENST00000584139	antisense	KNOWN	None	None	None	None	10584051	10587305	1	None	None
17	RNU6-623P	ENSG00000200013	ENST00000363143	snRNA	KNOWN	None	47586	None	None	58739694	58739798	-1	None	None
7	LEP	ENSG00000174697	ENST00000308868	protein_coding	KNOWN	CCDS5800	6553	504	167	127881337	127897681	1	OBS, OB	None
11	None	ENSG00000254497	ENST00000531663	antisense	KNOWN	None	None	None	None	45275435	45276134	1	None	None
11	None	ENSG00000254497	ENST00000534342	antisense	KNOWN	None	None	None	None	45275533	45276200	1	None	None
11	DOC2GP	ENSG00000231793	ENST00000495263	processed_transcript	KNOWN	None	37962	None	None	67380124	67381055	-1	None	None
11	DOC2GP	ENSG00000231793	ENST00000514950	unitary_pseudogene	KNOWN	None	37962	None	None	67380308	67383728	-1	None	None
1	None	ENSG00000272100	ENST00000606527	antisense	KNOWN	None	None	None	None	52819159	52819549	1	None	None
1	None	ENSG00000236911	ENST00000439443	antisense	KNOWN	None	None	None	None	207725270	207726324	-1	None	None
1	None	ENSG00000236911	ENST00000597497	antisense	KNOWN	None	None	None	None	207726068	207779900	-1	None	None
1	None	ENSG00000236911	ENST00000596003	antisense	KNOWN	None	None	None	None	207743181	207779900	-1	None	None
3	SAMD7	ENSG00000187033	ENST00000428432	protein_coding	KNOWN	CCDS3209	25394	1341	446	169629360	169656963	1	None	DKFZp686E1583
3	SAMD7	ENSG00000187033	ENST00000335556	protein_coding	KNOWN	CCDS3209	25394	1341	446	169629360	169656963	1	None	DKFZp686E1583
3	SAMD7	ENSG00000187033	ENST00000487910	nonsense_mediated_decay	KNOWN	None	25394	297	98	169633199	169656375	1	None	DKFZp686E1583
16	None	ENSG00000260436	ENST00000568040	antisense	KNOWN	None	None	None	None	2621571	2622354	-1	None	None
2	None	ENSG00000235721	ENST00000262716	processed_pseudogene	KNOWN	None	None	None	None	110765252	110768360	1	None	None
17	RN7SL606P	ENSG00000239932	ENST00000472779	misc_RNA	KNOWN	None	46622	None	None	58773674	58773964	1	None	None
11	None	ENSG00000255418	ENST00000530576	lincRNA	KNOWN	None	None	None	None	23186446	23188332	1	None	None
11	None	ENSG00000255418	ENST00000533591	lincRNA	KNOWN	None	None	None	None	23186733	23224707	1	None	None
1	None	ENSG00000223906	ENST00000446055	lincRNA	KNOWN	None	None	None	None	100810033	100810798	1	None	None
17	MAGOH2	ENSG00000264176	ENST00000584384	processed_transcript	KNOWN	None	30148	None	None	10619319	10619747	-1	None	None
17	MAGOH2	ENSG00000264176	ENST00000580926	transcribed_processed_pseudogene	KNOWN	None	30148	None	None	10619393	10619828	-1	None	None
17	None	ENSG00000224011	ENST00000437414	processed_pseudogene	KNOWN	None	None	None	None	58804526	58804843	-1	None	None
X	TUBB4BP3	ENSG00000237458	ENST00000437546	processed_pseudogene	KNOWN	None	42331	None	None	117262711	117262981	1	None	None
2	None	ENSG00000228209	ENST00000398059	processed_pseudogene	KNOWN	None	None	None	None	76485160	76486023	-1	None	None
1	PLA2G12AP1	ENSG00000224680	ENST00000497678	processed_pseudogene	KNOWN	None	39248	None	None	52834349	52834916	1	None	None
12	None	ENSG00000255836	ENST00000538078	processed_pseudogene	KNOWN	None	None	None	None	7591376	7592586	-1	None	None
17	CSH2	ENSG00000213218	ENST00000392886	protein_coding	KNOWN	CCDS42369	2441	654	217	61949372	61951126	-1	None	hCS-B, CSB, CS-2
17	CSH2	ENSG00000213218	ENST00000336844	protein_coding	KNOWN	CCDS11646	2441	504	167	61949372	61951126	-1	None	hCS-B, CSB, CS-2
17	CSH2	ENSG00000213218	ENST00000560142	protein_coding	NOVEL	None	2441	483	160	61949372	61951126	-1	None	hCS-B, CSB, CS-2
17	CSH2	ENSG00000213218	ENST00000559928	retained_intron	KNOWN	None	2441	None	None	61949386	61951045	-1	None	hCS-B, CSB, CS-2
17	CSH2	ENSG00000213218	ENST00000558516	retained_intron	KNOWN	None	2441	None	None	61949407	61951067	-1	None	hCS-B, CSB, CS-2
17	CSH2	ENSG00000213218	ENST00000345366	protein_coding	KNOWN	CCDS42368	2441	369	122	61949372	61951090	-1	None	hCS-B, CSB, CS-2
1	None	ENSG00000216067	ENST00000401248	miRNA	NOVEL	None	None	None	None	100844238	100844331	-1	None	None
1	ATAD3A	ENSG00000197785	ENST00000378756	protein_coding	KNOWN	CCDS53259	25567	1761	586	1447531	1470065	1	None	FLJ10709
1	ATAD3A	ENSG00000197785	ENST00000378755	protein_coding	KNOWN	CCDS31	25567	1905	634	1447555	1470065	1	None	FLJ10709
1	ATAD3A	ENSG00000197785	ENST00000339113	protein_coding	KNOWN	None	25567	1717	571	1447910	1470065	1	None	FLJ10709
1	ATAD3A	ENSG00000197785	ENST00000439513	retained_intron	KNOWN	None	25567	None	None	1452450	1453155	1	None	FLJ10709
1	ATAD3A	ENSG00000197785	ENST00000429957	retained_intron	KNOWN	None	25567	None	None	1453001	1458160	1	None	FLJ10709
1	ATAD3A	ENSG00000197785	ENST00000400830	protein_coding	KNOWN	None	25567	603	200	1459653	1464711	1	None	FLJ10709
1	ATAD3A	ENSG00000197785	ENST00000536055	protein_coding	KNOWN	CCDS53260	25567	1524	507	1447910	1470067	1	None	FLJ10709
1	None	ENSG00000227673	ENST00000432858	antisense	KNOWN	None	None	None	None	155679889	155680354	-1	None	None
11	None	ENSG00000255257	ENST00000528915	lincRNA	KNOWN	None	None	None	None	5959981	5966214	1	None	None
X	SHROOM2	ENSG00000146950	ENST00000380913	protein_coding	KNOWN	CCDS14135	630	4851	1616	9754496	9917483	1	APXL	None
X	SHROOM2	ENSG00000146950	ENST00000493668	processed_transcript	KNOWN	None	630	None	None	9866185	9905186	1	APXL	None
X	SHROOM2	ENSG00000146950	ENST00000452575	protein_coding	KNOWN	None	630	1127	374	9880723	9914748	1	APXL	None
X	SHROOM2	ENSG00000146950	ENST00000418909	protein_coding	KNOWN	None	630	1356	451	9880412	9916398	1	APXL	None
2	None	ENSG00000271356	ENST00000603205	processed_pseudogene	KNOWN	None	None	None	None	76487881	76488787	-1	None	None
3	None	ENSG00000201965	ENST00000365095	misc_RNA	NOVEL	None	None	None	None	38166783	38166885	-1	None	None
7	None	ENSG00000221428	ENST00000408501	miRNA	NOVEL	None	None	None	None	14815031	14815148	1	None	None
1	CD46P1	ENSG00000244703	ENST00000441364	unprocessed_pseudogene	KNOWN	None	6959	None	None	207818579	207830755	1	MCPL, CD46P	None
14	RPL7AP6	ENSG00000242071	ENST00000477943	processed_pseudogene	KNOWN	None	19785	None	None	70352057	70352857	-1	None	None
14	RPL7AP6	ENSG00000242071	ENST00000447432	processed_pseudogene	KNOWN	None	19785	None	None	70352057	70352869	-1	None	None
1	None	ENSG00000239063	ENST00000458879	snoRNA	NOVEL	None	None	None	None	52877114	52877194	1	None	None
1	BCAS2P2	ENSG00000234332	ENST00000425064	processed_pseudogene	KNOWN	None	39595	None	None	100858589	100859582	-1	None	None
12	GAPDHP31	ENSG00000235868	ENST00000509325	processed_pseudogene	KNOWN	None	37783	None	None	7718965	7719978	1	None	None
2	RN7SKP203	ENSG00000200488	ENST00000363618	misc_RNA	KNOWN	None	45927	None	None	76672205	76672536	-1	None	None
14	MIR4307	ENSG00000265165	ENST00000582802	miRNA	KNOWN	None	38257	None	None	27377848	27377931	1	None	hsa-mir-4307
1	None	ENSG00000272371	ENST00000607321	lincRNA	KNOWN	None	None	None	None	53020490	53020945	1	None	None
20	CST3	ENSG00000101439	ENST00000398411	protein_coding	KNOWN	CCDS13158	2475	441	146	23608534	23618582	-1	None	None
20	CST3	ENSG00000101439	ENST00000376925	protein_coding	KNOWN	CCDS13158	2475	441	146	23614285	23618663	-1	None	None
20	CST3	ENSG00000101439	ENST00000398409	protein_coding	KNOWN	CCDS13158	2475	441	146	23614294	23619110	-1	None	None
HSCHR6_MHC_COX	None	ENSG00000257914	ENST00000551064	protein_coding	NOVEL	None	None	459	152	31808914	31809602	-1	None	None
11	RPL23AP64	ENSG00000240970	ENST00000469465	processed_pseudogene	KNOWN	None	36552	None	None	118873722	118874156	-1	None	None
7	None	ENSG00000226323	ENST00000412014	antisense	KNOWN	None	None	None	None	14853756	14856190	1	None	None
2	RN7SKP164	ENSG00000251947	ENST00000516138	misc_RNA	KNOWN	None	45888	None	None	76822539	76822804	-1	None	None
12	None	ENSG00000256632	ENST00000537262	protein_coding	PUTATIVE	None	None	364	120	133264635	133291498	1	None	None
17	None	ENSG00000263400	ENST00000581366	antisense	KNOWN	None	None	None	None	10633094	10670323	1	None	None
17	None	ENSG00000263400	ENST00000583343	antisense	KNOWN	None	None	None	None	10633108	10672323	1	None	None
17	None	ENSG00000263400	ENST00000583115	antisense	KNOWN	None	None	None	None	10633113	10642199	1	None	None
17	None	ENSG00000263400	ENST00000584714	antisense	KNOWN	None	None	None	None	10633113	10670191	1	None	None
17	None	ENSG00000263400	ENST00000579114	antisense	KNOWN	None	None	None	None	10633121	10671347	1	None	None
17	None	ENSG00000263400	ENST00000583012	antisense	KNOWN	None	None	None	None	10633127	10670369	1	None	None
3	SEC13	ENSG00000157020	ENST00000492602	processed_transcript	KNOWN	None	10697	None	None	10334815	10346756	-1	D3S1231E, SEC13L1	SEC13R, npp-20
3	SEC13	ENSG00000157020	ENST00000397109	protein_coding	KNOWN	CCDS46751	10697	927	308	10342615	10362725	-1	D3S1231E, SEC13L1	SEC13R, npp-20
3	SEC13	ENSG00000157020	ENST00000337354	protein_coding	NOVEL	None	10697	978	325	10342615	10362766	-1	D3S1231E, SEC13L1	SEC13R, npp-20
3	SEC13	ENSG00000157020	ENST00000350697	protein_coding	KNOWN	CCDS2599	10697	969	322	10342615	10362862	-1	D3S1231E, SEC13L1	SEC13R, npp-20
3	SEC13	ENSG00000157020	ENST00000479868	retained_intron	KNOWN	None	10697	None	None	10342617	10355655	-1	D3S1231E, SEC13L1	SEC13R, npp-20
3	SEC13	ENSG00000157020	ENST00000397117	protein_coding	NOVEL	None	10697	855	284	10342634	10362745	-1	D3S1231E, SEC13L1	SEC13R, npp-20
3	SEC13	ENSG00000157020	ENST00000383801	protein_coding	PUTATIVE	None	10697	1107	368	10342645	10362768	-1	D3S1231E, SEC13L1	SEC13R, npp-20
3	SEC13	ENSG00000157020	ENST00000477547	retained_intron	KNOWN	None	10697	None	None	10345235	10359764	-1	D3S1231E, SEC13L1	SEC13R, npp-20
3	SEC13	ENSG00000157020	ENST00000476597	retained_intron	KNOWN	None	10697	None	None	10345719	10347594	-1	D3S1231E, SEC13L1	SEC13R, npp-20
3	SEC13	ENSG00000157020	ENST00000490283	retained_intron	KNOWN	None	10697	None	None	10345795	10347394	-1	D3S1231E, SEC13L1	SEC13R, npp-20
3	SEC13	ENSG00000157020	ENST00000482647	retained_intron	KNOWN	None	10697	None	None	10353257	10354518	-1	D3S1231E, SEC13L1	SEC13R, npp-20
3	SEC13	ENSG00000157020	ENST00000397105	retained_intron	KNOWN	None	10697	None	None	10353257	10362777	-1	D3S1231E, SEC13L1	SEC13R, npp-20
3	SEC13	ENSG00000157020	ENST00000431352	protein_coding	KNOWN	None	10697	258	85	10354330	10362744	-1	D3S1231E, SEC13L1	SEC13R, npp-20
3	SEC13	ENSG00000157020	ENST00000397102	retained_intron	KNOWN	None	10697	None	None	10354764	10362796	-1	D3S1231E, SEC13L1	SEC13R, npp-20
3	SEC13	ENSG00000157020	ENST00000397101	retained_intron	KNOWN	None	10697	None	None	10356637	10362796	-1	D3S1231E, SEC13L1	SEC13R, npp-20
3	SEC13	ENSG00000157020	ENST00000397099	retained_intron	KNOWN	None	10697	None	None	10356826	10362770	-1	D3S1231E, SEC13L1	SEC13R, npp-20
3	SEC13	ENSG00000157020	ENST00000428626	protein_coding	NOVEL	None	10697	84	27	10359752	10362740	-1	D3S1231E, SEC13L1	SEC13R, npp-20
3	SEC13	ENSG00000157020	ENST00000445064	protein_coding	NOVEL	None	10697	82	26	10359754	10362742	-1	D3S1231E, SEC13L1	SEC13R, npp-20
3	SEC13	ENSG00000157020	ENST00000432213	protein_coding	PUTATIVE	None	10697	74	23	10360890	10362777	-1	D3S1231E, SEC13L1	SEC13R, npp-20
14	None	ENSG00000222899	ENST00000410967	miRNA	NOVEL	None	None	None	None	27396859	27396981	1	None	None
1	EEF1GP7	ENSG00000236290	ENST00000422983	processed_pseudogene	KNOWN	None	44562	None	None	53038786	53039488	1	None	None
HSCHR6_MHC_QBL	ZNRD1	ENSG00000206502	ENST00000484199	retained_intron	KNOWN	None	13182	None	None	30016279	30022269	1	None	hZR14, HTEX-6, tctex-6, RPA12
HSCHR6_MHC_QBL	ZNRD1	ENSG00000206502	ENST00000400662	protein_coding	KNOWN	None	13182	381	126	30018635	30022269	1	None	hZR14, HTEX-6, tctex-6, RPA12
HSCHR6_MHC_QBL	ZNRD1	ENSG00000206502	ENST00000383613	protein_coding	KNOWN	None	13182	381	126	30018638	30022269	1	None	hZR14, HTEX-6, tctex-6, RPA12
HSCHR6_MHC_QBL	ZNRD1	ENSG00000206502	ENST00000400660	protein_coding	KNOWN	None	13182	381	126	30018640	30022269	1	None	hZR14, HTEX-6, tctex-6, RPA12
HSCHR6_MHC_QBL	ZNRD1	ENSG00000206502	ENST00000400659	protein_coding	KNOWN	None	13182	381	126	30018644	30022269	1	None	hZR14, HTEX-6, tctex-6, RPA12
HSCHR6_MHC_QBL	ZNRD1	ENSG00000206502	ENST00000476699	processed_transcript	KNOWN	None	13182	None	None	30018711	30022269	1	None	hZR14, HTEX-6, tctex-6, RPA12
2	RNA5SP98	ENSG00000200028	ENST00000363158	rRNA	KNOWN	None	42896	None	None	77000035	77000171	1	RN5S98	None
X	RPL12P43	ENSG00000234524	ENST00000420608	processed_pseudogene	KNOWN	None	35840	None	None	117280026	117280524	1	None	None
3	None	ENSG00000242009	ENST00000471614	lincRNA	KNOWN	None	None	None	None	81889698	81972012	1	None	None
X	RBM22P8	ENSG00000227469	ENST00000440546	processed_pseudogene	KNOWN	None	39701	None	None	52501127	52501685	-1	None	None
2	None	ENSG00000234653	ENST00000445178	antisense	KNOWN	None	None	None	None	77213091	77236917	1	None	None
10	None	ENSG00000271650	ENST00000605702	processed_pseudogene	KNOWN	None	None	None	None	42705438	42705831	1	None	None
HG243_PATCH	BOP1	ENSG00000261236	ENST00000569669	protein_coding	KNOWN	None	15519	2241	746	145317005	145346273	-1	None	KIAA0124
HG243_PATCH	BOP1	ENSG00000261236	ENST00000568812	retained_intron	KNOWN	None	15519	None	None	145317519	145318460	-1	None	KIAA0124
HG243_PATCH	BOP1	ENSG00000261236	ENST00000569403	protein_coding	NOVEL	None	15519	651	216	145319245	145346273	-1	None	KIAA0124
HG243_PATCH	BOP1	ENSG00000261236	ENST00000569160	retained_intron	KNOWN	None	15519	None	None	145319447	145320362	-1	None	KIAA0124
HG243_PATCH	BOP1	ENSG00000261236	ENST00000563210	processed_transcript	KNOWN	None	15519	None	None	145319837	145320989	-1	None	KIAA0124
HG243_PATCH	BOP1	ENSG00000261236	ENST00000569712	processed_transcript	PUTATIVE	None	15519	None	None	145336587	145346270	-1	None	KIAA0124
17	C17orf51	ENSG00000212719	ENST00000540508	processed_transcript	KNOWN	None	27904	None	None	21428051	21432327	-1	None	FLJ12977, FLJ31874, FLJ33618
17	C17orf51	ENSG00000212719	ENST00000538604	processed_transcript	KNOWN	None	27904	None	None	21430625	21438553	-1	None	FLJ12977, FLJ31874, FLJ33618
17	C17orf51	ENSG00000212719	ENST00000391411	protein_coding	KNOWN	CCDS45629	27904	666	221	21431571	21454943	-1	None	FLJ12977, FLJ31874, FLJ33618
17	C17orf51	ENSG00000212719	ENST00000426261	processed_transcript	KNOWN	None	27904	None	None	21435738	21477567	-1	None	FLJ12977, FLJ31874, FLJ33618
17	C17orf51	ENSG00000212719	ENST00000468381	processed_transcript	KNOWN	None	27904	None	None	21435876	21477781	-1	None	FLJ12977, FLJ31874, FLJ33618
17	C17orf51	ENSG00000212719	ENST00000535846	processed_transcript	KNOWN	None	27904	None	None	21438311	21477722	-1	None	FLJ12977, FLJ31874, FLJ33618
17	C17orf51	ENSG00000212719	ENST00000412778	protein_coding	NOVEL	None	27904	549	182	21438702	21454943	-1	None	FLJ12977, FLJ31874, FLJ33618
1	NDUFS5P3	ENSG00000233664	ENST00000450668	processed_pseudogene	KNOWN	None	44041	None	None	53174794	53175114	1	None	None
1	MSTO2P	ENSG00000203761	ENST00000314835	unprocessed_pseudogene	KNOWN	None	26329	None	None	155715620	155719928	1	MSTO2	None
1	MSTO2P	ENSG00000203761	ENST00000538914	unprocessed_pseudogene	KNOWN	None	26329	None	None	155581011	155720105	1	MSTO2	None
1	MSTO2P	ENSG00000203761	ENST00000545423	unprocessed_pseudogene	KNOWN	None	26329	None	None	155715620	155717570	1	MSTO2	None
X	None	ENSG00000226170	ENST00000431382	unprocessed_pseudogene	KNOWN	None	None	None	None	151953177	151953993	-1	None	None
7	None	ENSG00000225816	ENST00000442645	processed_pseudogene	KNOWN	None	None	None	None	15025003	15025699	-1	None	None
10	None	ENSG00000264398	ENST00000580460	miRNA	NOVEL	None	None	None	None	42730351	42730423	-1	None	None
5	FAM81B	ENSG00000153347	ENST00000283357	protein_coding	KNOWN	CCDS43341	26335	1359	452	94727048	94786141	1	None	FLJ25333
5	FAM81B	ENSG00000153347	ENST00000513529	nonsense_mediated_decay	KNOWN	None	26335	263	86	94728516	94772508	1	None	FLJ25333
5	FAM81B	ENSG00000153347	ENST00000507832	nonsense_mediated_decay	KNOWN	None	26335	547	181	94728526	94786089	1	None	FLJ25333
5	FAM81B	ENSG00000153347	ENST00000506418	processed_transcript	KNOWN	None	26335	None	None	94728530	94732764	1	None	FLJ25333
5	FAM81B	ENSG00000153347	ENST00000503361	nonsense_mediated_decay	KNOWN	None	26335	381	126	94728536	94782393	1	None	FLJ25333
5	FAM81B	ENSG00000153347	ENST00000510458	processed_transcript	KNOWN	None	26335	None	None	94728548	94746514	1	None	FLJ25333
5	FAM81B	ENSG00000153347	ENST00000503099	nonsense_mediated_decay	KNOWN	None	26335	124	40	94728556	94764436	1	None	FLJ25333
5	FAM81B	ENSG00000153347	ENST00000512365	protein_coding	NOVEL	None	26335	384	127	94764383	94786158	1	None	FLJ25333
5	FAM81B	ENSG00000153347	ENST00000513110	nonsense_mediated_decay	KNOWN	None	26335	162	53	94772504	94786145	1	None	FLJ25333
14	C14orf142	ENSG00000170270	ENST00000306954	protein_coding	KNOWN	CCDS41981	20356	303	100	93669239	93673439	-1	None	None
14	C14orf142	ENSG00000170270	ENST00000556566	protein_coding	PUTATIVE	None	20356	238	78	93669851	93673374	-1	None	None
3	None	ENSG00000237982	ENST00000440724	processed_pseudogene	KNOWN	None	None	None	None	38311774	38312258	-1	None	None
15	None	ENSG00000250379	ENST00000510176	antisense	KNOWN	None	None	None	None	42117297	42120134	-1	None	None
15	None	ENSG00000250379	ENST00000512295	antisense	KNOWN	None	None	None	None	42118224	42120053	-1	None	None
12	None	ENSG00000264446	ENST00000401300	miRNA	NOVEL	None	None	None	None	34180203	34180297	-1	None	None
HSCHR6_MHC_QBL	RPL23AP1	ENSG00000239784	ENST00000433438	processed_pseudogene	KNOWN	None	10318	None	None	29691910	29692380	-1	None	None
3	RPL21P17	ENSG00000214073	ENST00000397467	processed_pseudogene	KNOWN	None	19416	None	None	1947335	1947809	1	None	None
1	RN7SL62P	ENSG00000239640	ENST00000498506	misc_RNA	KNOWN	None	46078	None	None	53180071	53180365	1	None	None
X	RBM22P9	ENSG00000229936	ENST00000438586	processed_pseudogene	KNOWN	None	39702	None	None	52518793	52519069	-1	None	None
7	None	ENSG00000253882	ENST00000491047	processed_transcript	KNOWN	None	None	None	None	143458883	143533798	-1	None	None
7	None	ENSG00000253882	ENST00000471316	processed_transcript	KNOWN	None	None	None	None	143506676	143533779	-1	None	None
7	None	ENSG00000253882	ENST00000468266	processed_transcript	PUTATIVE	None	None	None	None	143508483	143533799	-1	None	None
7	None	ENSG00000253882	ENST00000481651	processed_transcript	PUTATIVE	None	None	None	None	143509061	143534026	-1	None	None
7	None	ENSG00000253882	ENST00000494978	processed_transcript	PUTATIVE	None	None	None	None	143509062	143533801	-1	None	None
7	None	ENSG00000253882	ENST00000517565	processed_transcript	PUTATIVE	None	None	None	None	143509064	143533301	-1	None	None
7	None	ENSG00000253882	ENST00000463346	processed_transcript	PUTATIVE	None	None	None	None	143510428	143533763	-1	None	None
7	None	ENSG00000253882	ENST00000493239	processed_transcript	PUTATIVE	None	None	None	None	143510552	143533318	-1	None	None
7	None	ENSG00000253882	ENST00000480264	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	143530338	143530962	-1	None	None
7	None	ENSG00000253882	ENST00000450076	unprocessed_pseudogene	KNOWN	None	None	None	None	143339348	143533801	-1	None	None
7	None	ENSG00000253882	ENST00000427403	unprocessed_pseudogene	KNOWN	None	None	None	None	143339348	143533304	-1	None	None
7	None	ENSG00000253882	ENST00000422705	unprocessed_pseudogene	KNOWN	None	None	None	None	143339349	143533798	-1	None	None
3	None	ENSG00000238398	ENST00000459413	snoRNA	NOVEL	None	None	None	None	162896662	162896763	-1	None	None
5	None	ENSG00000230612	ENST00000431165	antisense	KNOWN	None	None	None	None	132024373	132057275	1	None	None
11	RPL34P21	ENSG00000244451	ENST00000487566	processed_pseudogene	KNOWN	None	35677	None	None	129952390	129952676	-1	None	None
10	PABPC1P8	ENSG00000228755	ENST00000452851	processed_pseudogene	KNOWN	None	37988	None	None	42775182	42777267	-1	None	None
2	None	ENSG00000211984	ENST00000390695	miRNA	NOVEL	None	None	None	None	77247462	77247547	-1	None	None
1	RNU2-30P	ENSG00000252018	ENST00000516209	snRNA	KNOWN	None	48523	None	None	53219994	53220134	1	None	None
12	None	ENSG00000256538	ENST00000537655	lincRNA	KNOWN	None	None	None	None	34190373	34209675	1	None	None
6	RN7SL415P	ENSG00000240961	ENST00000490790	misc_RNA	KNOWN	None	46431	None	None	92449327	92449614	1	None	None
8	None	ENSG00000254776	ENST00000533882	unprocessed_pseudogene	KNOWN	None	None	None	None	7651238	7653392	-1	None	None
X	RBM22P11	ENSG00000231457	ENST00000442891	processed_pseudogene	KNOWN	None	39704	None	None	52555981	52556851	1	None	None
1	None	ENSG00000228086	ENST00000432210	antisense	KNOWN	None	None	None	None	100927955	100951553	-1	None	None
2	None	ENSG00000263447	ENST00000585102	miRNA	NOVEL	None	None	None	None	77268904	77268989	-1	None	None
3	SUCLG2	ENSG00000172340	ENST00000493112	protein_coding	NOVEL	CCDS54605	11450	1323	440	67410884	67705034	-1	None	None
3	SUCLG2	ENSG00000172340	ENST00000460567	protein_coding	PUTATIVE	None	11450	571	189	67425143	67578646	-1	None	None
3	SUCLG2	ENSG00000172340	ENST00000307227	protein_coding	KNOWN	CCDS43104	11450	1299	432	67425143	67705038	-1	None	None
3	SUCLG2	ENSG00000172340	ENST00000492795	protein_coding	PUTATIVE	None	11450	1140	379	67459030	67705031	-1	None	None
1	None	ENSG00000228929	ENST00000437890	processed_pseudogene	KNOWN	None	None	None	None	53237866	53238320	-1	None	None
5	None	ENSG00000272203	ENST00000607389	lincRNA	KNOWN	None	None	None	None	132152940	132153692	-1	None	None
2	None	ENSG00000229730	ENST00000420753	processed_pseudogene	KNOWN	None	None	None	None	110769842	110770178	-1	None	None
19	CA11	ENSG00000063180	ENST00000084798	protein_coding	KNOWN	CCDS12729	1370	987	328	49141199	49149569	-1	None	CARP2, CARPX1
19	CA11	ENSG00000063180	ENST00000599267	retained_intron	KNOWN	None	1370	None	None	49141272	49142395	-1	None	CARP2, CARPX1
19	CA11	ENSG00000063180	ENST00000594088	retained_intron	KNOWN	None	1370	None	None	49141273	49141642	-1	None	CARP2, CARPX1
19	CA11	ENSG00000063180	ENST00000596080	protein_coding	PUTATIVE	None	1370	341	112	49141279	49142716	-1	None	CARP2, CARPX1
2	None	ENSG00000227088	ENST00000437233	lincRNA	KNOWN	None	None	None	None	77879539	77881794	-1	None	None
1	None	ENSG00000213421	ENST00000455141	processed_pseudogene	KNOWN	None	None	None	None	101052205	101052987	-1	None	None
5	RNA5SP192	ENSG00000201274	ENST00000364404	rRNA	KNOWN	None	43092	None	None	132184269	132184388	1	RN5S192	None
6	None	ENSG00000219867	ENST00000406314	processed_pseudogene	KNOWN	None	None	None	None	92525561	92526146	-1	None	None
3	None	ENSG00000240792	ENST00000477099	lincRNA	KNOWN	None	None	None	None	163192855	163197153	1	None	None
3	None	ENSG00000239440	ENST00000470263	lincRNA	KNOWN	None	None	None	None	82035289	82512826	1	None	None
3	None	ENSG00000239440	ENST00000494340	lincRNA	KNOWN	None	None	None	None	82035303	82251605	1	None	None
2	None	ENSG00000230968	ENST00000438443	lincRNA	KNOWN	None	None	None	None	77899341	77900918	1	None	None
X	None	ENSG00000227058	ENST00000417920	unprocessed_pseudogene	KNOWN	None	None	None	None	52574163	52576707	1	None	None
19	CNOT3	ENSG00000088038	ENST00000221232	protein_coding	KNOWN	CCDS12880	7879	2262	753	54641444	54659419	1	NOT3	NOT3H, KIAA0691, LENG2
19	CNOT3	ENSG00000088038	ENST00000482247	retained_intron	KNOWN	None	7879	None	None	54641503	54659418	1	NOT3	NOT3H, KIAA0691, LENG2
19	CNOT3	ENSG00000088038	ENST00000406403	protein_coding	KNOWN	CCDS12880	7879	2262	753	54645112	54659418	1	NOT3	NOT3H, KIAA0691, LENG2
19	CNOT3	ENSG00000088038	ENST00000440571	protein_coding	NOVEL	None	7879	1125	374	54647466	54652432	1	NOT3	NOT3H, KIAA0691, LENG2
19	CNOT3	ENSG00000088038	ENST00000447684	nonsense_mediated_decay	KNOWN	None	7879	319	105	54647473	54659419	1	NOT3	NOT3H, KIAA0691, LENG2
19	CNOT3	ENSG00000088038	ENST00000457463	protein_coding	PUTATIVE	None	7879	865	287	54653295	54658192	1	NOT3	NOT3H, KIAA0691, LENG2
19	CNOT3	ENSG00000088038	ENST00000496327	processed_transcript	KNOWN	None	7879	None	None	54653465	54657556	1	NOT3	NOT3H, KIAA0691, LENG2
19	CNOT3	ENSG00000088038	ENST00000489953	retained_intron	KNOWN	None	7879	None	None	54656740	54659419	1	NOT3	NOT3H, KIAA0691, LENG2
19	CNOT3	ENSG00000088038	ENST00000471126	protein_coding	NOVEL	None	7879	267	88	54657461	54659419	1	NOT3	NOT3H, KIAA0691, LENG2
19	CNOT3	ENSG00000088038	ENST00000358389	protein_coding	KNOWN	None	7879	1716	571	54641449	54657242	1	NOT3	NOT3H, KIAA0691, LENG2
1	None	ENSG00000226289	ENST00000442572	unprocessed_pseudogene	KNOWN	None	None	None	None	207831799	207832487	1	None	None
5	None	ENSG00000235253	ENST00000445363	processed_pseudogene	KNOWN	None	None	None	None	132278624	132280742	1	None	None
7	None	ENSG00000227489	ENST00000445093	lincRNA	KNOWN	None	None	None	None	15105832	15108276	1	None	None
11	None	ENSG00000188691	ENST00000532411	processed_pseudogene	KNOWN	None	None	None	None	5988785	5989724	-1	None	None
11	None	ENSG00000188691	ENST00000340110	processed_pseudogene	KNOWN	None	None	None	None	5988407	5989520	-1	None	None
14	None	ENSG00000258932	ENST00000556395	transcribed_processed_pseudogene	KNOWN	None	None	None	None	27727923	27728372	-1	None	None
14	None	ENSG00000258932	ENST00000553392	processed_transcript	KNOWN	None	None	None	None	27728348	28142436	-1	None	None
14	None	ENSG00000258932	ENST00000554904	processed_transcript	KNOWN	None	None	None	None	27791032	28142427	-1	None	None
14	None	ENSG00000258932	ENST00000556890	processed_transcript	KNOWN	None	None	None	None	27791128	28142427	-1	None	None
14	None	ENSG00000258932	ENST00000555797	processed_transcript	KNOWN	None	None	None	None	27791285	28314492	-1	None	None
7	NIPA2P1	ENSG00000225843	ENST00000426223	processed_pseudogene	KNOWN	None	42041	None	None	90949443	90950418	-1	None	None
8	RALYL	ENSG00000184672	ENST00000522613	protein_coding	KNOWN	None	27036	256	84	85095022	85441812	1	None	HNRPCL3
8	RALYL	ENSG00000184672	ENST00000522455	protein_coding	KNOWN	CCDS55253	27036	876	291	85095502	85834071	1	None	HNRPCL3
8	RALYL	ENSG00000184672	ENST00000521695	protein_coding	KNOWN	CCDS55253	27036	876	291	85095509	85833866	1	None	HNRPCL3
8	RALYL	ENSG00000184672	ENST00000521268	protein_coding	KNOWN	CCDS55253	27036	876	291	85095578	85833866	1	None	HNRPCL3
8	RALYL	ENSG00000184672	ENST00000518566	protein_coding	NOVEL	None	27036	843	280	85095769	85834071	1	None	HNRPCL3
8	RALYL	ENSG00000184672	ENST00000517988	protein_coding	KNOWN	None	27036	256	84	85096460	85686873	1	None	HNRPCL3
8	RALYL	ENSG00000184672	ENST00000517638	protein_coding	PUTATIVE	CCDS55252	27036	915	304	85097110	85834079	1	None	HNRPCL3
8	RALYL	ENSG00000184672	ENST00000522647	protein_coding	PUTATIVE	None	27036	143	46	85097176	85441699	1	None	HNRPCL3
8	RALYL	ENSG00000184672	ENST00000523850	protein_coding	KNOWN	None	27036	657	218	85618162	85834076	1	None	HNRPCL3
8	RALYL	ENSG00000184672	ENST00000521376	protein_coding	NOVEL	None	27036	441	146	85618171	85834079	1	None	HNRPCL3
8	RALYL	ENSG00000184672	ENST00000518065	retained_intron	KNOWN	None	27036	None	None	85784717	85833717	1	None	HNRPCL3
1	None	ENSG00000234219	ENST00000435216	unprocessed_pseudogene	KNOWN	None	None	None	None	207935929	207936608	1	None	None
1	RNU6-969P	ENSG00000206627	ENST00000383900	snRNA	KNOWN	None	47932	None	None	53270780	53270884	-1	None	None
X	None	ENSG00000231593	ENST00000423750	unprocessed_pseudogene	KNOWN	None	None	None	None	52590781	52591313	-1	None	None
2	None	ENSG00000237077	ENST00000422418	processed_transcript	PUTATIVE	None	None	None	None	78015508	78020213	1	None	None
2	None	ENSG00000237077	ENST00000447303	transcribed_processed_pseudogene	KNOWN	None	None	None	None	78019947	78020151	1	None	None
14	None	ENSG00000258422	ENST00000555480	antisense	KNOWN	None	None	None	None	70653840	70696904	1	None	None
14	None	ENSG00000258422	ENST00000554008	antisense	KNOWN	None	None	None	None	70690482	70696825	1	None	None
14	None	ENSG00000258422	ENST00000555198	antisense	KNOWN	None	None	None	None	70690493	70696898	1	None	None
1	None	ENSG00000242391	ENST00000446786	antisense	KNOWN	None	None	None	None	53346888	53347402	-1	None	None
1	MIR29C	ENSG00000207966	ENST00000385231	miRNA	KNOWN	None	31621	None	None	207975197	207975284	-1	MIRN29C	hsa-mir-29c
1	MIR29B2	ENSG00000207790	ENST00000385055	miRNA	KNOWN	None	31620	None	None	207975788	207975868	-1	MIRN29B2	hsa-mir-29b-2
4	RNU6-1055P	ENSG00000212387	ENST00000391085	snRNA	KNOWN	None	48018	None	None	187422263	187422369	1	None	None
2	RGPD2	ENSG00000185304	ENST00000398146	protein_coding	KNOWN	CCDS42710	32415	5271	1756	88055474	88125471	-1	None	RGP2, RANBP2L2
2	RGPD2	ENSG00000185304	ENST00000494592	processed_transcript	KNOWN	None	32415	None	None	88080697	88082188	-1	None	RGP2, RANBP2L2
2	RGPD2	ENSG00000185304	ENST00000420840	protein_coding	KNOWN	None	32415	5247	1748	88055479	88285309	-1	None	RGP2, RANBP2L2
2	RGPD2	ENSG00000185304	ENST00000327544	protein_coding	KNOWN	None	32415	3042	1013	88056722	88125286	-1	None	RGP2, RANBP2L2
1	None	ENSG00000230953	ENST00000420575	processed_pseudogene	KNOWN	None	None	None	None	53386094	53386268	1	None	None
X	None	ENSG00000228771	ENST00000422168	unprocessed_pseudogene	KNOWN	None	None	None	None	52613039	52615362	1	None	None
4	None	ENSG00000252382	ENST00000516573	miRNA	NOVEL	None	None	None	None	187778529	187778610	-1	None	None
17	TMEM220-AS1	ENSG00000263523	ENST00000580899	antisense	KNOWN	None	44357	None	None	10633113	10718481	1	None	None
12	None	ENSG00000255628	ENST00000538025	lincRNA	KNOWN	None	None	None	None	34302774	34315173	1	None	None
1	None	ENSG00000230402	ENST00000416343	lincRNA	KNOWN	None	None	None	None	101092605	101106169	-1	None	None
12	None	ENSG00000202335	ENST00000365465	snoRNA	NOVEL	None	None	None	None	110934157	110934226	-1	None	None
1	None	ENSG00000226202	ENST00000435542	lincRNA	KNOWN	None	None	None	None	208047140	208052418	-1	None	None
12	None	ENSG00000257995	ENST00000552470	lincRNA	KNOWN	None	None	None	None	91011536	91016599	-1	None	None
4	None	ENSG00000250829	ENST00000507644	lincRNA	KNOWN	None	None	None	None	187812123	187813520	1	None	None
8	TRIB1	ENSG00000173334	ENST00000311922	protein_coding	KNOWN	CCDS6357	16891	1119	372	126442563	126450647	1	None	C8FW, GIG2, TRB1
8	TRIB1	ENSG00000173334	ENST00000520847	protein_coding	PUTATIVE	None	16891	621	206	126444451	126449170	1	None	C8FW, GIG2, TRB1
8	TRIB1	ENSG00000173334	ENST00000521778	processed_transcript	KNOWN	None	16891	None	None	126445101	126445823	1	None	C8FW, GIG2, TRB1
8	TRIB1	ENSG00000173334	ENST00000519576	protein_coding	PUTATIVE	None	16891	426	141	126445788	126449433	1	None	C8FW, GIG2, TRB1
7	None	ENSG00000237070	ENST00000451240	antisense	KNOWN	None	None	None	None	15707572	15721605	1	None	None
2	MIR4267	ENSG00000265682	ENST00000578475	miRNA	KNOWN	None	38286	None	None	110827538	110827619	-1	None	hsa-mir-4267
11	None	ENSG00000255318	ENST00000533311	lincRNA	KNOWN	None	None	None	None	67385750	67394775	-1	None	None
11	None	ENSG00000254427	ENST00000524410	lincRNA	KNOWN	None	None	None	None	45376922	45387672	1	None	None
11	None	ENSG00000254427	ENST00000524488	lincRNA	KNOWN	None	None	None	None	45377051	45378204	1	None	None
11	None	ENSG00000254427	ENST00000524565	lincRNA	KNOWN	None	None	None	None	45377052	45378199	1	None	None
X	RN7SL190P	ENSG00000264933	ENST00000582519	misc_RNA	KNOWN	None	46206	None	None	152163780	152164039	-1	None	None
2	None	ENSG00000233605	ENST00000443419	lincRNA	KNOWN	None	None	None	None	78143060	78145135	1	None	None
17	None	ENSG00000264016	ENST00000579529	lincRNA	KNOWN	None	None	None	None	10644584	10672333	-1	None	None
17	None	ENSG00000264016	ENST00000579367	lincRNA	KNOWN	None	None	None	None	10671490	10672306	-1	None	None
1	None	ENSG00000224685	ENST00000435130	processed_pseudogene	KNOWN	None	None	None	None	101117503	101117823	1	None	None
4	None	ENSG00000272218	ENST00000606881	lincRNA	KNOWN	None	None	None	None	187813706	187814137	1	None	None
2	MIR4436B1	ENSG00000264979	ENST00000583272	miRNA	KNOWN	None	41587	None	None	110844010	110844100	-1	MIR4436B	hsa-mir-4436b
2	MIR4436B2	ENSG00000264979	ENST00000583272	miRNA	KNOWN	None	43451	None	None	110844010	110844100	-1	None	hsa-mir-4436b-2
1	None	ENSG00000231866	ENST00000436385	processed_pseudogene	KNOWN	None	None	None	None	53390921	53391095	-1	None	None
5	None	ENSG00000202417	ENST00000365547	misc_RNA	NOVEL	None	None	None	None	132281034	132281146	1	None	None
8	None	ENSG00000215977	ENST00000401158	miRNA	NOVEL	None	None	None	None	7711019	7711113	-1	None	None
2	LIMS1	ENSG00000169756	ENST00000428064	protein_coding	PUTATIVE	None	6616	530	175	109150912	109289485	1	None	PINCH, PINCH1
2	LIMS1	ENSG00000169756	ENST00000332345	protein_coding	KNOWN	CCDS2078	6616	978	325	109204767	109300593	1	None	PINCH, PINCH1
2	LIMS1	ENSG00000169756	ENST00000393310	protein_coding	KNOWN	CCDS2078	6616	978	325	109204922	109303702	1	None	PINCH, PINCH1
2	LIMS1	ENSG00000169756	ENST00000410093	protein_coding	PUTATIVE	CCDS54383	6616	990	329	109223617	109300904	1	None	PINCH, PINCH1
2	LIMS1	ENSG00000169756	ENST00000449684	processed_transcript	KNOWN	None	6616	None	None	109237707	109287271	1	None	PINCH, PINCH1
2	LIMS1	ENSG00000169756	ENST00000409441	protein_coding	KNOWN	CCDS54384	6616	1089	362	109237722	109300904	1	None	PINCH, PINCH1
2	LIMS1	ENSG00000169756	ENST00000422797	nonsense_mediated_decay	KNOWN	None	6616	303	100	109237729	109290409	1	None	PINCH, PINCH1
2	LIMS1	ENSG00000169756	ENST00000338045	protein_coding	KNOWN	CCDS2078	6616	978	325	109271268	109300904	1	None	PINCH, PINCH1
2	LIMS1	ENSG00000169756	ENST00000474038	retained_intron	KNOWN	None	6616	None	None	109271375	109276401	1	None	PINCH, PINCH1
2	LIMS1	ENSG00000169756	ENST00000462817	processed_transcript	KNOWN	None	6616	None	None	109271468	109276769	1	None	PINCH, PINCH1
2	LIMS1	ENSG00000169756	ENST00000496653	retained_intron	KNOWN	None	6616	None	None	109271472	109287461	1	None	PINCH, PINCH1
2	LIMS1	ENSG00000169756	ENST00000414829	nonsense_mediated_decay	KNOWN	None	6616	168	55	109271509	109278759	1	None	PINCH, PINCH1
2	LIMS1	ENSG00000169756	ENST00000434274	nonsense_mediated_decay	KNOWN	None	6616	62	19	109274350	109279256	1	None	PINCH, PINCH1
2	LIMS1	ENSG00000169756	ENST00000480744	processed_transcript	KNOWN	None	6616	None	None	109292333	109297468	1	None	PINCH, PINCH1
2	LIMS1	ENSG00000169756	ENST00000544547	protein_coding	KNOWN	CCDS54382	6616	1014	337	109150857	109301046	1	None	PINCH, PINCH1
2	LIMS1	ENSG00000169756	ENST00000542845	protein_coding	KNOWN	CCDS54385	6616	1164	387	109271493	109300712	1	None	PINCH, PINCH1
2	LIMS1	ENSG00000169756	ENST00000393314	protein_coding	KNOWN	None	6616	354	117	109271509	109278759	1	None	PINCH, PINCH1
4	MRPS36P2	ENSG00000249539	ENST00000512569	processed_pseudogene	KNOWN	None	29772	None	None	187821694	187821992	1	None	None
1	None	ENSG00000226843	ENST00000427435	processed_pseudogene	KNOWN	None	None	None	None	208428635	208428721	-1	None	None
2	None	ENSG00000212091	ENST00000390802	miRNA	NOVEL	None	None	None	None	110884309	110884401	-1	None	None
12	None	ENSG00000256986	ENST00000542491	processed_pseudogene	KNOWN	None	None	None	None	34315397	34315903	1	None	None
5	ATP6V0E1P1	ENSG00000225364	ENST00000412537	processed_pseudogene	KNOWN	None	41935	None	None	132284185	132284410	1	None	None
11	None	ENSG00000255358	ENST00000526902	processed_pseudogene	KNOWN	None	None	None	None	130154918	130155728	-1	None	None
X	None	ENSG00000270619	ENST00000605342	processed_pseudogene	KNOWN	None	None	None	None	117412122	117417330	1	None	None
1	ZNF672	ENSG00000171161	ENST00000510904	processed_transcript	KNOWN	None	26179	None	None	249132409	249141407	1	None	FLJ22301
1	ZNF672	ENSG00000171161	ENST00000306562	protein_coding	KNOWN	CCDS1638	26179	1359	452	249132479	249143716	1	None	FLJ22301
1	ZNF672	ENSG00000171161	ENST00000505503	protein_coding	KNOWN	None	26179	11	2	249132530	249141484	1	None	FLJ22301
1	ZNF672	ENSG00000171161	ENST00000428515	protein_coding	KNOWN	None	26179	209	68	249133027	249141682	1	None	FLJ22301
1	ZNF672	ENSG00000171161	ENST00000502697	processed_transcript	KNOWN	None	26179	None	None	249133205	249141419	1	None	FLJ22301
1	ZNF672	ENSG00000171161	ENST00000515369	processed_transcript	KNOWN	None	26179	None	None	249133289	249141300	1	None	FLJ22301
1	ZNF672	ENSG00000171161	ENST00000423362	protein_coding	KNOWN	None	26179	111	36	249133353	249141584	1	None	FLJ22301
11	GRM5	ENSG00000168959	ENST00000305432	protein_coding	KNOWN	CCDS8283	4597	3543	1180	88240978	88781190	-1	None	MGLUR5, GPRC1E, mGlu5
11	GRM5	ENSG00000168959	ENST00000305447	protein_coding	KNOWN	CCDS44694	4597	3639	1212	88240978	88781190	-1	None	MGLUR5, GPRC1E, mGlu5
11	GRM5	ENSG00000168959	ENST00000393297	protein_coding	PUTATIVE	None	4597	2829	942	88241760	88781040	-1	None	MGLUR5, GPRC1E, mGlu5
11	GRM5	ENSG00000168959	ENST00000449371	nonsense_mediated_decay	KNOWN	None	4597	263	86	88645104	88780538	-1	None	MGLUR5, GPRC1E, mGlu5
11	GRM5	ENSG00000168959	ENST00000393294	protein_coding	NOVEL	None	4597	897	298	88717870	88799113	-1	None	MGLUR5, GPRC1E, mGlu5
11	GRM5	ENSG00000168959	ENST00000418177	protein_coding	KNOWN	CCDS44694	4597	3639	1212	88237744	88796816	-1	None	MGLUR5, GPRC1E, mGlu5
11	GRM5	ENSG00000168959	ENST00000455756	protein_coding	KNOWN	CCDS8283	4597	3543	1180	88237744	88796816	-1	None	MGLUR5, GPRC1E, mGlu5
7	None	ENSG00000235450	ENST00000456952	lincRNA	KNOWN	None	None	None	None	91010093	91186163	-1	None	None
6	FOXF2	ENSG00000137273	ENST00000259806	protein_coding	KNOWN	CCDS4472	3810	1335	444	1390069	1395832	1	FKHL6	FREAC2
4	None	ENSG00000249742	ENST00000503037	lincRNA	KNOWN	None	None	None	None	187900644	187943127	-1	None	None
1	MIR1273F	ENSG00000264834	ENST00000580581	miRNA	KNOWN	None	41733	None	None	53394346	53394444	1	None	hsa-mir-1273f
2	None	ENSG00000229494	ENST00000439259	lincRNA	KNOWN	None	None	None	None	78315856	78354932	1	None	None
12	CD63	ENSG00000135404	ENST00000548898	protein_coding	PUTATIVE	None	1692	438	145	56119107	56120892	-1	MLA1	ME491, TSPAN30
12	CD63	ENSG00000135404	ENST00000548117	retained_intron	KNOWN	None	1692	None	None	56119232	56120140	-1	MLA1	ME491, TSPAN30
12	CD63	ENSG00000135404	ENST00000552067	protein_coding	PUTATIVE	None	1692	438	145	56119232	56120912	-1	MLA1	ME491, TSPAN30
12	CD63	ENSG00000135404	ENST00000548160	protein_coding	PUTATIVE	None	1692	438	145	56119254	56120843	-1	MLA1	ME491, TSPAN30
12	CD63	ENSG00000135404	ENST00000546939	protein_coding	PUTATIVE	CCDS58242	1692	471	156	56119254	56121684	-1	MLA1	ME491, TSPAN30
12	CD63	ENSG00000135404	ENST00000552692	protein_coding	KNOWN	CCDS8890	1692	717	238	56119254	56122266	-1	MLA1	ME491, TSPAN30
12	CD63	ENSG00000135404	ENST00000549117	protein_coding	KNOWN	CCDS8890	1692	717	238	56119266	56123491	-1	MLA1	ME491, TSPAN30
12	CD63	ENSG00000135404	ENST00000257857	protein_coding	KNOWN	CCDS8890	1692	717	238	56119271	56123004	-1	MLA1	ME491, TSPAN30
12	CD63	ENSG00000135404	ENST00000550050	nonsense_mediated_decay	KNOWN	None	1692	333	110	56119291	56122784	-1	MLA1	ME491, TSPAN30
12	CD63	ENSG00000135404	ENST00000552754	protein_coding	NOVEL	CCDS58243	1692	648	215	56119319	56122133	-1	MLA1	ME491, TSPAN30
12	CD63	ENSG00000135404	ENST00000550776	protein_coding	PUTATIVE	CCDS58242	1692	471	156	56119330	56121599	-1	MLA1	ME491, TSPAN30
12	CD63	ENSG00000135404	ENST00000555199	retained_intron	KNOWN	None	1692	None	None	56119337	56119752	-1	MLA1	ME491, TSPAN30
12	CD63	ENSG00000135404	ENST00000552164	protein_coding	KNOWN	None	1692	652	216	56119596	56122761	-1	MLA1	ME491, TSPAN30
12	CD63	ENSG00000135404	ENST00000551173	protein_coding	KNOWN	None	1692	645	214	56119603	56122431	-1	MLA1	ME491, TSPAN30
12	CD63	ENSG00000135404	ENST00000546457	protein_coding	KNOWN	None	1692	399	132	56120511	56123444	-1	MLA1	ME491, TSPAN30
12	CD63	ENSG00000135404	ENST00000420846	protein_coding	KNOWN	None	1692	711	236	56119233	56122910	-1	MLA1	ME491, TSPAN30
1	None	ENSG00000261453	ENST00000568112	lincRNA	KNOWN	None	None	None	None	208780445	208785537	-1	None	None
1	HNRNPA1P68	ENSG00000230946	ENST00000425806	processed_pseudogene	KNOWN	None	48798	None	None	101406573	101407551	-1	None	None
11	None	ENSG00000254428	ENST00000531087	antisense	KNOWN	None	None	None	None	118874452	118875603	-1	None	None
12	None	ENSG00000256250	ENST00000546264	lincRNA	KNOWN	None	None	None	None	131295151	131296983	1	None	None
21	None	ENSG00000236545	ENST00000458654	antisense	KNOWN	None	None	None	None	43290742	43292163	1	None	None
2	None	ENSG00000233370	ENST00000418944	processed_pseudogene	KNOWN	None	None	None	None	110941631	110942756	1	None	None
9	ANKRD19P	ENSG00000187984	ENST00000473204	processed_transcript	KNOWN	None	22567	None	None	95571670	95650975	1	ANKRD19	FLJ36178
9	ANKRD19P	ENSG00000187984	ENST00000465736	processed_transcript	KNOWN	None	22567	None	None	95571850	95584559	1	ANKRD19	FLJ36178
9	ANKRD19P	ENSG00000187984	ENST00000460854	processed_transcript	KNOWN	None	22567	None	None	95571918	95588920	1	ANKRD19	FLJ36178
9	ANKRD19P	ENSG00000187984	ENST00000338192	transcribed_unprocessed_pseudogene	KNOWN	None	22567	None	None	95571947	95588860	1	ANKRD19	FLJ36178
9	ANKRD19P	ENSG00000187984	ENST00000464387	processed_transcript	KNOWN	None	22567	None	None	95576189	95600739	1	ANKRD19	FLJ36178
9	ANKRD19P	ENSG00000187984	ENST00000492083	processed_transcript	KNOWN	None	22567	None	None	95584504	95592045	1	ANKRD19	FLJ36178
9	ANKRD19P	ENSG00000187984	ENST00000375504	unprocessed_pseudogene	KNOWN	None	22567	None	None	95571893	95600739	1	ANKRD19	FLJ36178
1	MIR5095	ENSG00000266188	ENST00000578844	miRNA	KNOWN	None	41849	None	None	53400602	53400689	1	None	hsa-mir-5095
3	None	ENSG00000241367	ENST00000482625	processed_pseudogene	KNOWN	None	None	None	None	82368323	82369430	-1	None	None
3	TBL1XR1	ENSG00000177565	ENST00000430069	protein_coding	KNOWN	CCDS46961	29529	1545	514	176737143	176914266	-1	None	IRA1, FLJ12894, TBLR1, C21, DC42
3	TBL1XR1	ENSG00000177565	ENST00000474363	retained_intron	KNOWN	None	29529	None	None	176738542	176745618	-1	None	IRA1, FLJ12894, TBLR1, C21, DC42
3	TBL1XR1	ENSG00000177565	ENST00000457928	protein_coding	KNOWN	CCDS46961	29529	1545	514	176741108	176915256	-1	None	IRA1, FLJ12894, TBLR1, C21, DC42
3	TBL1XR1	ENSG00000177565	ENST00000428970	protein_coding	PUTATIVE	None	29529	227	74	176768338	176914272	-1	None	IRA1, FLJ12894, TBLR1, C21, DC42
3	TBL1XR1	ENSG00000177565	ENST00000424913	protein_coding	PUTATIVE	None	29529	219	72	176768346	176914221	-1	None	IRA1, FLJ12894, TBLR1, C21, DC42
3	TBL1XR1	ENSG00000177565	ENST00000437738	protein_coding	KNOWN	None	29529	427	141	176769292	176914211	-1	None	IRA1, FLJ12894, TBLR1, C21, DC42
3	TBL1XR1	ENSG00000177565	ENST00000431421	protein_coding	PUTATIVE	None	29529	166	54	176769292	176915013	-1	None	IRA1, FLJ12894, TBLR1, C21, DC42
3	TBL1XR1	ENSG00000177565	ENST00000352800	protein_coding	KNOWN	None	29529	427	141	176769292	176915040	-1	None	IRA1, FLJ12894, TBLR1, C21, DC42
3	TBL1XR1	ENSG00000177565	ENST00000450267	protein_coding	KNOWN	None	29529	360	119	176769359	176914971	-1	None	IRA1, FLJ12894, TBLR1, C21, DC42
3	TBL1XR1	ENSG00000177565	ENST00000431674	protein_coding	KNOWN	None	29529	289	95	176769430	176914980	-1	None	IRA1, FLJ12894, TBLR1, C21, DC42
3	TBL1XR1	ENSG00000177565	ENST00000422066	protein_coding	KNOWN	None	29529	260	85	176769459	176915013	-1	None	IRA1, FLJ12894, TBLR1, C21, DC42
3	TBL1XR1	ENSG00000177565	ENST00000443315	protein_coding	KNOWN	None	29529	244	80	176769475	176914223	-1	None	IRA1, FLJ12894, TBLR1, C21, DC42
3	TBL1XR1	ENSG00000177565	ENST00000422442	protein_coding	KNOWN	None	29529	204	67	176771561	176915261	-1	None	IRA1, FLJ12894, TBLR1, C21, DC42
3	TBL1XR1	ENSG00000177565	ENST00000427349	protein_coding	KNOWN	None	29529	185	60	176771580	176915039	-1	None	IRA1, FLJ12894, TBLR1, C21, DC42
3	TBL1XR1	ENSG00000177565	ENST00000413084	protein_coding	KNOWN	None	29529	99	32	176771666	176915014	-1	None	IRA1, FLJ12894, TBLR1, C21, DC42
3	TBL1XR1	ENSG00000177565	ENST00000491623	retained_intron	KNOWN	None	29529	None	None	176797242	176816329	-1	None	IRA1, FLJ12894, TBLR1, C21, DC42
8	HSPD1P2	ENSG00000254543	ENST00000530524	processed_pseudogene	KNOWN	None	5263	None	None	7748525	7750077	-1	HSPDP2	HSP60P2, HSPD-9P
17	None	ENSG00000240813	ENST00000478739	processed_pseudogene	KNOWN	None	None	None	None	10648870	10649860	-1	None	None
7	None	ENSG00000223665	ENST00000415249	lincRNA	KNOWN	None	None	None	None	91268162	91272827	-1	None	None
12	MKI67IPP3	ENSG00000256331	ENST00000417799	processed_pseudogene	KNOWN	None	44951	None	None	7756946	7757810	-1	None	None
1	None	ENSG00000259815	ENST00000567538	lincRNA	KNOWN	None	None	None	None	208800086	208801430	-1	None	None
5	CMBL	ENSG00000164237	ENST00000503834	processed_transcript	KNOWN	None	25090	None	None	10275987	10282400	-1	None	FLJ23617
5	CMBL	ENSG00000164237	ENST00000296658	protein_coding	KNOWN	CCDS3878	25090	738	245	10279389	10308138	-1	None	FLJ23617
5	CMBL	ENSG00000164237	ENST00000510532	processed_transcript	KNOWN	None	25090	None	None	10280578	10307675	-1	None	FLJ23617
5	CMBL	ENSG00000164237	ENST00000511963	retained_intron	KNOWN	None	25090	None	None	10286244	10307715	-1	None	FLJ23617
5	CMBL	ENSG00000164237	ENST00000506821	retained_intron	KNOWN	None	25090	None	None	10286285	10307971	-1	None	FLJ23617
5	CMBL	ENSG00000164237	ENST00000514202	retained_intron	KNOWN	None	25090	None	None	10290516	10307951	-1	None	FLJ23617
5	CMBL	ENSG00000164237	ENST00000506224	processed_transcript	KNOWN	None	25090	None	None	10307309	10307660	-1	None	FLJ23617
5	None	ENSG00000272023	ENST00000607688	lincRNA	KNOWN	None	None	None	None	132299462	132299856	1	None	None
1	MIR1273G	ENSG00000265815	ENST00000577677	miRNA	KNOWN	None	41684	None	None	53405986	53406085	1	None	hsa-mir-1273g
7	None	ENSG00000242870	ENST00000454222	processed_transcript	PUTATIVE	None	None	None	None	91321323	91510004	-1	None	None
21	None	ENSG00000227698	ENST00000432411	sense_intronic	KNOWN	None	None	None	None	43294865	43297722	-1	None	None
12	PGAM5	ENSG00000247077	ENST00000317555	protein_coding	KNOWN	CCDS9280	28763	768	255	133287405	133295752	1	None	MGC5352, BXLBv68
12	PGAM5	ENSG00000247077	ENST00000498926	protein_coding	KNOWN	CCDS53845	28763	870	289	133287405	133299228	1	None	MGC5352, BXLBv68
12	PGAM5	ENSG00000247077	ENST00000543955	protein_coding	PUTATIVE	None	28763	423	140	133287668	133297900	1	None	MGC5352, BXLBv68
12	PGAM5	ENSG00000247077	ENST00000454808	protein_coding	PUTATIVE	None	28763	423	140	133291339	133297714	1	None	MGC5352, BXLBv68
12	PGAM5	ENSG00000247077	ENST00000541034	processed_transcript	PUTATIVE	None	28763	None	None	133294552	133297670	1	None	MGC5352, BXLBv68
1	None	ENSG00000237279	ENST00000427081	processed_pseudogene	KNOWN	None	None	None	None	53409208	53409602	-1	None	None
5	None	ENSG00000229738	ENST00000429606	processed_pseudogene	KNOWN	None	None	None	None	132323344	132323802	-1	None	None
2	None	ENSG00000214429	ENST00000434498	processed_pseudogene	KNOWN	None	None	None	None	78639919	78640220	-1	None	None
1	None	ENSG00000227887	ENST00000419030	processed_pseudogene	KNOWN	None	None	None	None	208870714	208871043	-1	None	None
18	MYL12A	ENSG00000101608	ENST00000579226	protein_coding	KNOWN	CCDS11830	16701	516	171	3247479	3256225	1	None	MLCB, MYL2B, MRLC3, MRCL3
18	MYL12A	ENSG00000101608	ENST00000217652	protein_coding	KNOWN	CCDS11830	16701	516	171	3247528	3256234	1	None	MLCB, MYL2B, MRLC3, MRCL3
18	MYL12A	ENSG00000101608	ENST00000580353	retained_intron	KNOWN	None	16701	None	None	3247799	3253686	1	None	MLCB, MYL2B, MRLC3, MRCL3
18	MYL12A	ENSG00000101608	ENST00000578611	protein_coding	KNOWN	CCDS11830	16701	516	171	3247811	3256209	1	None	MLCB, MYL2B, MRLC3, MRCL3
18	MYL12A	ENSG00000101608	ENST00000585090	processed_transcript	PUTATIVE	None	16701	None	None	3247859	3249923	1	None	MLCB, MYL2B, MRLC3, MRCL3
18	MYL12A	ENSG00000101608	ENST00000583449	protein_coding	KNOWN	None	16701	37	11	3247871	3253282	1	None	MLCB, MYL2B, MRLC3, MRCL3
18	MYL12A	ENSG00000101608	ENST00000578562	protein_coding	KNOWN	None	16701	343	113	3252216	3254048	1	None	MLCB, MYL2B, MRLC3, MRCL3
18	MYL12A	ENSG00000101608	ENST00000577510	retained_intron	KNOWN	None	16701	None	None	3252273	3253746	1	None	MLCB, MYL2B, MRLC3, MRCL3
18	MYL12A	ENSG00000101608	ENST00000580887	protein_coding	PUTATIVE	None	16701	534	177	3252273	3256233	1	None	MLCB, MYL2B, MRLC3, MRCL3
18	MYL12A	ENSG00000101608	ENST00000578038	processed_transcript	PUTATIVE	None	16701	None	None	3255522	3256124	1	None	MLCB, MYL2B, MRLC3, MRCL3
18	MYL12A	ENSG00000101608	ENST00000536605	protein_coding	KNOWN	CCDS11830	16701	516	171	3252273	3256233	1	None	MLCB, MYL2B, MRLC3, MRCL3
9	None	ENSG00000223211	ENST00000411279	miRNA	NOVEL	None	None	None	None	18834835	18834925	-1	None	None
21	None	ENSG00000251778	ENST00000515969	snoRNA	NOVEL	None	None	None	None	43302314	43302409	1	None	None
14	RNU6-458P	ENSG00000206906	ENST00000384179	snRNA	KNOWN	None	47421	None	None	19119515	19119621	1	None	None
1	None	ENSG00000235795	ENST00000414686	antisense	KNOWN	None	None	None	None	101461029	101461816	1	None	None
HSCHR6_MHC_QBL	AGPAT1	ENSG00000206324	ENST00000399827	protein_coding	KNOWN	None	324	852	283	32093612	32098515	-1	None	LPAAT-alpha
HSCHR6_MHC_QBL	AGPAT1	ENSG00000206324	ENST00000399833	protein_coding	KNOWN	None	324	852	283	32093612	32101522	-1	None	LPAAT-alpha
HSCHR6_MHC_QBL	AGPAT1	ENSG00000206324	ENST00000399825	protein_coding	KNOWN	None	324	852	283	32093612	32102480	-1	None	LPAAT-alpha
HSCHR6_MHC_QBL	AGPAT1	ENSG00000206324	ENST00000399830	protein_coding	KNOWN	None	324	852	283	32093612	32102725	-1	None	LPAAT-alpha
HSCHR6_MHC_QBL	AGPAT1	ENSG00000206324	ENST00000474400	processed_transcript	KNOWN	None	324	None	None	32093612	32102742	-1	None	LPAAT-alpha
HSCHR6_MHC_QBL	AGPAT1	ENSG00000206324	ENST00000399829	protein_coding	KNOWN	None	324	852	283	32093612	32103186	-1	None	LPAAT-alpha
HSCHR6_MHC_QBL	AGPAT1	ENSG00000206324	ENST00000383294	protein_coding	KNOWN	None	324	852	283	32093612	32103496	-1	None	LPAAT-alpha
HSCHR6_MHC_QBL	AGPAT1	ENSG00000206324	ENST00000477154	processed_transcript	KNOWN	None	324	None	None	32095565	32101297	-1	None	LPAAT-alpha
8	CASC7	ENSG00000259758	ENST00000560295	lincRNA	KNOWN	None	48905	None	None	141530255	141539600	-1	None	LINC00980
7	None	ENSG00000188693	ENST00000453068	processed_transcript	PUTATIVE	None	None	None	None	91763918	91810039	1	None	None
5	None	ENSG00000199677	ENST00000362807	misc_RNA	NOVEL	None	None	None	None	132328791	132328892	-1	None	None
HG185_PATCH	FKBP10	ENSG00000261258	ENST00000566592	protein_coding	PUTATIVE	None	18169	1413	470	39968962	39979463	1	None	hFKBP65, FLJ22041, FKBP6, FLJ20683, FLJ23833
HG185_PATCH	FKBP10	ENSG00000261258	ENST00000568527	protein_coding	PUTATIVE	None	18169	243	80	39969042	39974372	1	None	hFKBP65, FLJ22041, FKBP6, FLJ20683, FLJ23833
HG185_PATCH	FKBP10	ENSG00000261258	ENST00000568842	protein_coding	KNOWN	None	18169	1749	582	39969183	39979465	1	None	hFKBP65, FLJ22041, FKBP6, FLJ20683, FLJ23833
HG185_PATCH	FKBP10	ENSG00000261258	ENST00000564196	processed_transcript	KNOWN	None	18169	None	None	39969241	39979463	1	None	hFKBP65, FLJ22041, FKBP6, FLJ20683, FLJ23833
HG185_PATCH	FKBP10	ENSG00000261258	ENST00000563183	retained_intron	KNOWN	None	18169	None	None	39975122	39975829	1	None	hFKBP65, FLJ22041, FKBP6, FLJ20683, FLJ23833
HG185_PATCH	FKBP10	ENSG00000261258	ENST00000567782	protein_coding	NOVEL	None	18169	1160	385	39975507	39979465	1	None	hFKBP65, FLJ22041, FKBP6, FLJ20683, FLJ23833
HG185_PATCH	FKBP10	ENSG00000261258	ENST00000562005	retained_intron	KNOWN	None	18169	None	None	39976255	39978545	1	None	hFKBP65, FLJ22041, FKBP6, FLJ20683, FLJ23833
HG185_PATCH	FKBP10	ENSG00000261258	ENST00000569402	retained_intron	KNOWN	None	18169	None	None	39976695	39978792	1	None	hFKBP65, FLJ22041, FKBP6, FLJ20683, FLJ23833
3	RNU6-235P	ENSG00000199514	ENST00000362644	snRNA	KNOWN	None	47198	None	None	38345264	38345370	-1	None	None
9	None	ENSG00000236680	ENST00000441073	processed_pseudogene	KNOWN	None	None	None	None	19026890	19028127	1	None	None
X	None	ENSG00000237752	ENST00000448218	processed_pseudogene	KNOWN	None	None	None	None	97161642	97163088	1	None	None
1	None	ENSG00000236360	ENST00000414168	processed_pseudogene	KNOWN	None	None	None	None	53458873	53459374	-1	None	None
1	None	ENSG00000236360	ENST00000442174	processed_pseudogene	KNOWN	None	None	None	None	53458868	53459251	-1	None	None
5	None	ENSG00000248648	ENST00000505029	processed_pseudogene	KNOWN	None	None	None	None	132338811	132339057	1	None	None
3	None	ENSG00000265090	ENST00000584623	miRNA	NOVEL	None	None	None	None	163234190	163234275	-1	None	None
21	ZNF295-AS1	ENSG00000237232	ENST00000412906	lincRNA	KNOWN	None	23130	None	None	43429303	43444975	1	C21orf121, NCRNA00318	PRED87
21	ZNF295-AS1	ENSG00000237232	ENST00000455701	lincRNA	KNOWN	None	23130	None	None	43442132	43444975	1	C21orf121, NCRNA00318	PRED87
21	ZNF295-AS1	ENSG00000237232	ENST00000429739	lincRNA	KNOWN	None	23130	None	None	43442376	43445033	1	C21orf121, NCRNA00318	PRED87
21	ZNF295-AS1	ENSG00000237232	ENST00000596595	lincRNA	KNOWN	None	23130	None	None	43442192	43445060	1	C21orf121, NCRNA00318	PRED87
7	IGFBP1	ENSG00000146678	ENST00000275525	protein_coding	KNOWN	CCDS5504	5469	780	259	45927956	45933267	1	IBP1	IGF-BP25, AFBP, hIGFBP-1, PP12
7	IGFBP1	ENSG00000146678	ENST00000457280	protein_coding	NOVEL	None	5469	774	257	45927959	45933224	1	IBP1	IGF-BP25, AFBP, hIGFBP-1, PP12
7	IGFBP1	ENSG00000146678	ENST00000468955	protein_coding	NOVEL	None	5469	651	216	45928096	45933252	1	IBP1	IGF-BP25, AFBP, hIGFBP-1, PP12
11	None	ENSG00000255267	ENST00000528390	lincRNA	KNOWN	None	None	None	None	45392948	45410059	1	None	None
11	None	ENSG00000255267	ENST00000596169	lincRNA	KNOWN	None	None	None	None	45392964	45393676	1	None	None
12	None	ENSG00000256299	ENST00000542821	lincRNA	KNOWN	None	None	None	None	131295366	131297167	-1	None	None
12	RN7SL387P	ENSG00000263537	ENST00000581015	misc_RNA	KNOWN	None	46403	None	None	111063452	111063722	-1	None	None
16	None	ENSG00000207294	ENST00000384564	misc_RNA	NOVEL	None	None	None	None	15244554	15244653	1	None	None
12	None	ENSG00000256861	ENST00000535844	nonsense_mediated_decay	KNOWN	None	None	1617	538	122692326	122750970	-1	None	None
1	None	ENSG00000232812	ENST00000415754	lincRNA	KNOWN	None	None	None	None	208902033	208906529	1	None	None
14	None	ENSG00000257171	ENST00000547576	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	19172103	19188741	-1	None	None
1	TUBBP10	ENSG00000226147	ENST00000427668	processed_pseudogene	KNOWN	None	42344	None	None	53460398	53461698	1	None	None
12	None	ENSG00000221246	ENST00000408319	miRNA	NOVEL	None	None	None	None	111070409	111070498	1	None	None
5	None	ENSG00000251616	ENST00000507389	lincRNA	KNOWN	None	None	None	None	132446747	132450167	-1	None	None
X	None	ENSG00000234200	ENST00000452967	unprocessed_pseudogene	KNOWN	None	None	None	None	152197130	152198791	1	None	None
12	None	ENSG00000257787	ENST00000549669	processed_transcript	PUTATIVE	None	None	None	None	91203053	91204457	1	None	None
7	None	ENSG00000243107	ENST00000414227	processed_transcript	KNOWN	None	None	None	None	91829328	91836171	-1	None	None
12	None	ENSG00000255977	ENST00000544818	processed_pseudogene	KNOWN	None	None	None	None	7759430	7759927	1	None	None
X	None	ENSG00000229979	ENST00000421099	processed_pseudogene	KNOWN	None	None	None	None	152220509	152220772	-1	None	None
14	AHSA1	ENSG00000100591	ENST00000555133	protein_coding	PUTATIVE	None	1189	610	202	77924213	77935590	1	C14orf3	p38
14	AHSA1	ENSG00000100591	ENST00000216479	protein_coding	KNOWN	CCDS9863	1189	1017	338	77924373	77935817	1	C14orf3	p38
14	AHSA1	ENSG00000100591	ENST00000535854	protein_coding	PUTATIVE	None	1189	867	288	77924375	77935103	1	C14orf3	p38
14	AHSA1	ENSG00000100591	ENST00000554156	retained_intron	KNOWN	None	1189	None	None	77924376	77928662	1	C14orf3	p38
14	AHSA1	ENSG00000100591	ENST00000555517	protein_coding	PUTATIVE	None	1189	303	100	77924380	77926557	1	C14orf3	p38
14	AHSA1	ENSG00000100591	ENST00000556963	retained_intron	KNOWN	None	1189	None	None	77924560	77929444	1	C14orf3	p38
14	AHSA1	ENSG00000100591	ENST00000556866	retained_intron	KNOWN	None	1189	None	None	77926012	77931033	1	C14orf3	p38
14	AHSA1	ENSG00000100591	ENST00000553374	protein_coding	PUTATIVE	None	1189	649	215	77926043	77934662	1	C14orf3	p38
14	AHSA1	ENSG00000100591	ENST00000555457	processed_transcript	PUTATIVE	None	1189	None	None	77926088	77935813	1	C14orf3	p38
14	AHSA1	ENSG00000100591	ENST00000555729	protein_coding	NOVEL	None	1189	400	132	77926124	77935813	1	C14orf3	p38
14	AHSA1	ENSG00000100591	ENST00000555473	retained_intron	KNOWN	None	1189	None	None	77930926	77935593	1	C14orf3	p38
14	AHSA1	ENSG00000100591	ENST00000556369	nonsense_mediated_decay	KNOWN	None	1189	271	89	77931917	77935815	1	C14orf3	p38
14	AHSA1	ENSG00000100591	ENST00000557476	protein_coding	NOVEL	None	1189	363	120	77935139	77935813	1	C14orf3	p38
16	SLX1A	ENSG00000132207	ENST00000565081	retained_intron	KNOWN	None	20922	None	None	30205208	30208852	1	GIYD1	None
16	SLX1A	ENSG00000132207	ENST00000345535	protein_coding	KNOWN	CCDS32432	20922	486	161	30205225	30208882	1	GIYD1	None
16	SLX1A	ENSG00000132207	ENST00000251303	protein_coding	KNOWN	CCDS32431	20922	828	275	30205238	30208882	1	GIYD1	None
16	SLX1A	ENSG00000132207	ENST00000563995	nonsense_mediated_decay	KNOWN	None	20922	246	81	30205270	30208882	1	GIYD1	None
16	SLX1A	ENSG00000132207	ENST00000564268	retained_intron	KNOWN	None	20922	None	None	30207633	30208851	1	GIYD1	None
16	SLX1A	ENSG00000132207	ENST00000563616	retained_intron	KNOWN	None	20922	None	None	30207979	30208724	1	GIYD1	None
7	None	ENSG00000200769	ENST00000363899	misc_RNA	NOVEL	None	None	None	None	91831557	91831648	-1	None	None
15	RNA5SP393	ENSG00000200293	ENST00000363423	rRNA	KNOWN	None	43293	None	None	42144111	42144227	-1	RN5S393	None
1	None	ENSG00000233184	ENST00000453011	antisense	KNOWN	None	None	None	None	101491434	101546118	1	None	None
1	None	ENSG00000233184	ENST00000446527	antisense	KNOWN	None	None	None	None	101491475	101552727	1	None	None
1	None	ENSG00000233184	ENST00000416329	antisense	KNOWN	None	None	None	None	101529167	101549039	1	None	None
1	None	ENSG00000233184	ENST00000454721	antisense	KNOWN	None	None	None	None	101538216	101549130	1	None	None
1	None	ENSG00000233184	ENST00000449473	antisense	KNOWN	None	None	None	None	101538216	101552821	1	None	None
1	None	ENSG00000233184	ENST00000451213	retained_intron	KNOWN	None	None	None	None	101548010	101552817	1	None	None
11	None	ENSG00000227834	ENST00000426387	unitary_pseudogene	KNOWN	None	None	None	None	67419047	67420875	-1	None	None
9	SCARNA8	ENSG00000251733	ENST00000515924	snoRNA	KNOWN	None	32564	None	None	19063654	19063784	-1	None	U92
1	None	ENSG00000236950	ENST00000453569	lincRNA	KNOWN	None	None	None	None	209145799	209148652	1	None	None
3	DLEC1P1	ENSG00000230123	ENST00000427139	unprocessed_pseudogene	KNOWN	None	44545	None	None	38366728	38370561	-1	None	None
7	MIR1285-1	ENSG00000221520	ENST00000408593	miRNA	KNOWN	None	35277	None	None	91833329	91833412	-1	MIRN1285-1	hsa-mir-1285-1
17	None	ENSG00000266114	ENST00000582334	lincRNA	KNOWN	None	None	None	None	10695376	10698302	1	None	None
16	None	ENSG00000264115	ENST00000582223	miRNA	KNOWN	None	None	None	None	15248707	15248859	-1	None	None
2	None	ENSG00000270470	ENST00000604823	processed_pseudogene	KNOWN	None	None	None	None	78664976	78666047	1	None	None
12	None	ENSG00000257268	ENST00000551161	lincRNA	KNOWN	None	None	None	None	111269583	111283767	1	None	None
X	None	ENSG00000235675	ENST00000456193	unprocessed_pseudogene	KNOWN	None	None	None	None	152387940	152393740	-1	None	None
X	None	ENSG00000235675	ENST00000432553	unprocessed_pseudogene	KNOWN	None	None	None	None	152387936	152388835	-1	None	None
19	RPS18P13	ENSG00000243455	ENST00000461260	processed_pseudogene	KNOWN	None	36901	None	None	18159447	18159888	1	None	None
15	None	ENSG00000259769	ENST00000560680	processed_pseudogene	KNOWN	None	None	None	None	20251549	20253247	-1	None	None
3	SNORA7B	ENSG00000207088	ENST00000384360	snoRNA	KNOWN	None	32593	None	None	129116053	129116191	-1	None	ACA7B
16	MIR3180-4	ENSG00000257391	ENST00000552015	lincRNA	KNOWN	None	38920	None	None	15248760	15250877	1	None	hsa-mir-3180-4
1	None	ENSG00000232993	ENST00000447867	antisense	KNOWN	None	None	None	None	53535610	53551174	-1	None	None
2	None	ENSG00000234877	ENST00000420648	lincRNA	KNOWN	None	None	None	None	78825037	78826532	1	None	None
17	LINC00675	ENSG00000263429	ENST00000581851	lincRNA	KNOWN	None	44356	None	None	10698230	10707416	-1	None	None
17	LINC00675	ENSG00000263429	ENST00000578763	processed_transcript	KNOWN	None	44356	None	None	10698895	10701241	-1	None	None
17	LINC00675	ENSG00000263429	ENST00000580310	lincRNA	KNOWN	None	44356	None	None	10705116	10707381	-1	None	None
7	SEMA3D	ENSG00000153993	ENST00000284136	protein_coding	KNOWN	CCDS34676	10726	2334	777	84624869	84751251	-1	None	coll-2, Sema-Z2
7	SEMA3D	ENSG00000153993	ENST00000484038	processed_transcript	KNOWN	None	10726	None	None	84628713	84671255	-1	None	coll-2, Sema-Z2
7	SEMA3D	ENSG00000153993	ENST00000463315	retained_intron	KNOWN	None	10726	None	None	84670394	84685081	-1	None	coll-2, Sema-Z2
7	SEMA3D	ENSG00000153993	ENST00000444867	protein_coding	PUTATIVE	None	10726	885	294	84679673	84816171	-1	None	coll-2, Sema-Z2
13	ANKRD26P4	ENSG00000229427	ENST00000455755	processed_pseudogene	KNOWN	None	39690	None	None	31885426	31887058	1	None	None
12	OLA1P3	ENSG00000257966	ENST00000550756	processed_pseudogene	KNOWN	None	45278	None	None	56263832	56266386	-1	None	None
14	None	ENSG00000270610	ENST00000603975	processed_pseudogene	KNOWN	None	None	None	None	70701212	70701812	1	None	None
5	None	ENSG00000248245	ENST00000509051	antisense	KNOWN	None	None	None	None	132496130	132559995	1	None	None
5	None	ENSG00000248245	ENST00000502776	antisense	KNOWN	None	None	None	None	132545685	132560105	1	None	None
21	RNA5SP492	ENSG00000223262	ENST00000411330	rRNA	KNOWN	None	43392	None	None	43641283	43641396	1	RN5S492	None
12	None	ENSG00000201549	ENST00000364679	misc_RNA	NOVEL	None	None	None	None	7936999	7937107	-1	None	None
12	TUBB8P4	ENSG00000250788	ENST00000511806	unprocessed_pseudogene	KNOWN	None	42185	None	None	34317708	34319889	-1	None	None
1	HIGD1AP11	ENSG00000227644	ENST00000438361	processed_pseudogene	KNOWN	None	43006	None	None	53538782	53539061	-1	None	None
15	MIR4310	ENSG00000264850	ENST00000582950	miRNA	KNOWN	None	38383	None	None	42158693	42158749	-1	None	hsa-mir-4310
2	LINC00116	ENSG00000175701	ENST00000414416	lincRNA	KNOWN	None	27339	None	None	110969106	111002997	-1	NCRNA00116	None
2	LINC00116	ENSG00000175701	ENST00000426713	lincRNA	KNOWN	None	27339	None	None	110969107	110970400	-1	NCRNA00116	None
X	None	ENSG00000234889	ENST00000442570	processed_pseudogene	KNOWN	None	None	None	None	97230876	97233639	-1	None	None
12	None	ENSG00000199912	ENST00000363042	misc_RNA	NOVEL	None	None	None	None	7952957	7953063	-1	None	None
21	None	ENSG00000216197	ENST00000401378	miRNA	NOVEL	None	None	None	None	43720384	43720455	-1	None	None
X	None	ENSG00000234469	ENST00000445307	protein_coding	KNOWN	None	None	642	213	9935392	9936134	1	None	None
2	RNU6-827P	ENSG00000202423	ENST00000365553	snRNA	KNOWN	None	47790	None	None	79109573	79109678	1	None	None
11	None	ENSG00000254909	ENST00000527269	processed_pseudogene	KNOWN	None	None	None	None	118876437	118876644	-1	None	None
11	None	ENSG00000255041	ENST00000528445	lincRNA	KNOWN	None	None	None	None	45408766	45535352	-1	None	None
21	RNU6-1149P	ENSG00000252619	ENST00000516810	snRNA	KNOWN	None	48112	None	None	43837606	43837702	-1	None	None
14	ADAM21P1	ENSG00000235812	ENST00000529267	transcribed_processed_pseudogene	KNOWN	None	19822	None	None	70712208	70714377	-1	ADAM21P	None
14	ADAM21P1	ENSG00000235812	ENST00000530196	processed_transcript	KNOWN	None	19822	None	None	70712470	70714518	-1	ADAM21P	None
1	None	ENSG00000232537	ENST00000416349	lincRNA	KNOWN	None	None	None	None	209320612	209328446	-1	None	None
2	RNU6-812P	ENSG00000200048	ENST00000363178	snRNA	KNOWN	None	47775	None	None	79109754	79109860	1	None	None
1	None	ENSG00000235563	ENST00000439621	antisense	KNOWN	None	None	None	None	53580248	53584281	1	None	None
13	EEF1DP3	ENSG00000229715	ENST00000428783	processed_transcript	KNOWN	None	30486	None	None	32420978	32527609	1	None	None
13	EEF1DP3	ENSG00000229715	ENST00000490410	retained_intron	KNOWN	None	30486	None	None	32524296	32527578	1	None	None
13	EEF1DP3	ENSG00000229715	ENST00000566025	transcribed_unprocessed_pseudogene	KNOWN	None	30486	None	None	32526717	32527498	1	None	None
16	None	ENSG00000264182	ENST00000578891	miRNA	NOVEL	None	None	None	None	15252314	15252378	-1	None	None
11	DDX18P5	ENSG00000255220	ENST00000534547	processed_pseudogene	KNOWN	None	33968	None	None	130165536	130166841	1	None	None
21	None	ENSG00000239930	ENST00000454800	processed_transcript	KNOWN	None	None	None	None	43916118	43918313	1	None	None
21	None	ENSG00000239930	ENST00000416179	processed_transcript	KNOWN	None	None	None	None	43916649	43917553	1	None	None
3	ACVR2B-AS1	ENSG00000229589	ENST00000441531	antisense	KNOWN	None	44161	None	None	38492518	38496311	-1	None	None
18	None	ENSG00000264289	ENST00000582071	processed_pseudogene	KNOWN	None	None	None	None	19494330	19494621	-1	None	None
16	None	ENSG00000261422	ENST00000566734	3prime_overlapping_ncrna	KNOWN	None	None	None	None	15506577	15507125	1	None	None
HSCHR6_MHC_SSTO	AGER	ENSG00000237405	ENST00000483172	retained_intron	KNOWN	None	320	None	None	32155615	32156282	-1	None	RAGE
HSCHR6_MHC_SSTO	AGER	ENSG00000237405	ENST00000492295	retained_intron	KNOWN	None	320	None	None	32155615	32157578	-1	None	RAGE
HSCHR6_MHC_SSTO	AGER	ENSG00000237405	ENST00000463815	retained_intron	KNOWN	None	320	None	None	32155615	32157578	-1	None	RAGE
HSCHR6_MHC_SSTO	AGER	ENSG00000237405	ENST00000441804	protein_coding	KNOWN	None	320	1029	342	32155615	32158884	-1	None	RAGE
HSCHR6_MHC_SSTO	AGER	ENSG00000237405	ENST00000432831	protein_coding	KNOWN	None	320	1044	347	32155615	32158893	-1	None	RAGE
HSCHR6_MHC_SSTO	AGER	ENSG00000237405	ENST00000488393	retained_intron	KNOWN	None	320	None	None	32155615	32158893	-1	None	RAGE
HSCHR6_MHC_SSTO	AGER	ENSG00000237405	ENST00000447921	protein_coding	KNOWN	None	320	1215	404	32155615	32158971	-1	None	RAGE
HSCHR6_MHC_SSTO	AGER	ENSG00000237405	ENST00000416532	protein_coding	KNOWN	None	320	703	233	32157515	32158882	-1	None	RAGE
HSCHR6_MHC_SSTO	AGER	ENSG00000237405	ENST00000441753	protein_coding	KNOWN	None	320	700	232	32157527	32158884	-1	None	RAGE
HSCHR6_MHC_SSTO	AGER	ENSG00000237405	ENST00000549626	protein_coding	KNOWN	None	320	462	153	32155769	32158879	-1	None	RAGE
HSCHR6_MHC_SSTO	AGER	ENSG00000237405	ENST00000550196	protein_coding	KNOWN	None	320	885	294	32155790	32158869	-1	None	RAGE
HSCHR6_MHC_SSTO	AGER	ENSG00000237405	ENST00000551677	protein_coding	KNOWN	None	320	402	133	32155790	32158869	-1	None	RAGE
HSCHR6_MHC_SSTO	AGER	ENSG00000237405	ENST00000551827	protein_coding	KNOWN	None	320	1092	363	32155769	32158879	-1	None	RAGE
HSCHR6_MHC_SSTO	AGER	ENSG00000237405	ENST00000551381	protein_coding	KNOWN	None	320	366	121	32155769	32158879	-1	None	RAGE
HSCHR6_MHC_SSTO	AGER	ENSG00000237405	ENST00000551684	protein_coding	KNOWN	None	320	387	128	32158056	32158869	-1	None	RAGE
1	None	ENSG00000236723	ENST00000452466	antisense	KNOWN	None	None	None	None	53676128	53679447	-1	None	None
X	None	ENSG00000231600	ENST00000433225	unprocessed_pseudogene	KNOWN	None	None	None	None	152415692	152416269	1	None	None
5	None	ENSG00000240611	ENST00000467206	processed_pseudogene	KNOWN	None	None	None	None	132507910	132508745	-1	None	None
18	RNA5SP451	ENSG00000222520	ENST00000410588	rRNA	KNOWN	None	43351	None	None	19508946	19509055	-1	RN5S451	None
3	None	ENSG00000266757	ENST00000584181	miRNA	NOVEL	None	None	None	None	163373092	163373169	-1	None	None
2	None	ENSG00000221344	ENST00000408417	miRNA	NOVEL	None	None	None	None	220088745	220088827	-1	None	None
16	None	ENSG00000257769	ENST00000549756	antisense	KNOWN	None	None	None	None	15702331	15704420	1	None	None
1	None	ENSG00000228081	ENST00000431570	processed_pseudogene	KNOWN	None	None	None	None	209346359	209346720	1	None	None
1	None	ENSG00000259818	ENST00000569869	antisense	KNOWN	None	None	None	None	53686335	53689925	1	None	None
11	RPL37P2	ENSG00000239559	ENST00000472498	processed_pseudogene	KNOWN	None	17092	None	None	67450243	67450529	-1	None	PSANK1
18	None	ENSG00000265758	ENST00000584898	lincRNA	KNOWN	None	None	None	None	19561082	19631120	1	None	None
18	None	ENSG00000265758	ENST00000585185	lincRNA	KNOWN	None	None	None	None	19590257	19623432	1	None	None
18	None	ENSG00000265758	ENST00000584028	lincRNA	KNOWN	None	None	None	None	19605985	19623439	1	None	None
15	None	ENSG00000174171	ENST00000309874	antisense	KNOWN	None	None	None	None	42184991	42188133	1	None	None
15	None	ENSG00000174171	ENST00000564432	antisense	KNOWN	None	None	None	None	42184991	42190773	1	None	None
15	None	ENSG00000174171	ENST00000568861	antisense	KNOWN	None	None	None	None	42187183	42188141	1	None	None
15	None	ENSG00000174171	ENST00000562920	antisense	KNOWN	None	None	None	None	42187383	42188141	1	None	None
2	REG1P	ENSG00000204787	ENST00000444841	processed_transcript	KNOWN	None	9953	None	None	79362629	79365553	-1	REGL	RS
2	REG1P	ENSG00000204787	ENST00000377435	processed_transcript	KNOWN	None	9953	None	None	79362629	79365553	-1	REGL	RS
2	REG1P	ENSG00000204787	ENST00000447469	transcribed_unprocessed_pseudogene	KNOWN	None	9953	None	None	79362827	79365156	-1	REGL	RS
2	REG1P	ENSG00000204787	ENST00000414597	processed_transcript	KNOWN	None	9953	None	None	79363991	79365495	-1	REGL	RS
2	REG1P	ENSG00000204787	ENST00000443710	processed_transcript	KNOWN	None	9953	None	None	79364014	79365495	-1	REGL	RS
2	REG1P	ENSG00000204787	ENST00000450249	retained_intron	KNOWN	None	9953	None	None	79364061	79365553	-1	REGL	RS
2	REG1P	ENSG00000204787	ENST00000434852	retained_intron	KNOWN	None	9953	None	None	79364799	79365553	-1	REGL	RS
1	IFI44	ENSG00000137965	ENST00000470323	processed_transcript	KNOWN	None	16938	None	None	79115481	79128441	1	None	MTAP44, p44, TLDC5
1	IFI44	ENSG00000137965	ENST00000370747	protein_coding	KNOWN	CCDS688	16938	1335	444	79115516	79129763	1	None	MTAP44, p44, TLDC5
1	IFI44	ENSG00000137965	ENST00000438486	protein_coding	KNOWN	None	16938	585	194	79115517	79125113	1	None	MTAP44, p44, TLDC5
1	IFI44	ENSG00000137965	ENST00000495254	processed_transcript	KNOWN	None	16938	None	None	79115518	79129763	1	None	MTAP44, p44, TLDC5
1	IFI44	ENSG00000137965	ENST00000467790	processed_transcript	KNOWN	None	16938	None	None	79115527	79121196	1	None	MTAP44, p44, TLDC5
1	IFI44	ENSG00000137965	ENST00000472152	processed_transcript	KNOWN	None	16938	None	None	79115543	79129763	1	None	MTAP44, p44, TLDC5
1	IFI44	ENSG00000137965	ENST00000485662	processed_transcript	KNOWN	None	16938	None	None	79125004	79129582	1	None	MTAP44, p44, TLDC5
1	IFI44	ENSG00000137965	ENST00000476911	processed_transcript	KNOWN	None	16938	None	None	79128301	79129763	1	None	MTAP44, p44, TLDC5
1	IFI44	ENSG00000137965	ENST00000446486	protein_coding	KNOWN	None	16938	230	75	79128420	79129763	1	None	MTAP44, p44, TLDC5
1	IFI44	ENSG00000137965	ENST00000545124	protein_coding	KNOWN	None	16938	390	129	79115517	79127139	1	None	MTAP44, p44, TLDC5
12	None	ENSG00000222978	ENST00000411046	misc_RNA	NOVEL	None	None	None	None	7999884	7999978	1	None	None
1	None	ENSG00000226754	ENST00000458151	antisense	KNOWN	None	None	None	None	53704282	53708455	1	None	None
5	None	ENSG00000249478	ENST00000504312	antisense	KNOWN	None	None	None	None	132579456	132582623	1	None	None
5	None	ENSG00000249478	ENST00000515122	antisense	KNOWN	None	None	None	None	132579643	132584473	1	None	None
7	None	ENSG00000229108	ENST00000442176	lincRNA	KNOWN	None	None	None	None	15728003	15735116	1	None	None
3	ZDHHC19	ENSG00000163958	ENST00000296326	protein_coding	KNOWN	CCDS43190	20713	930	309	195924320	195938266	-1	None	MGC33345
3	ZDHHC19	ENSG00000163958	ENST00000460442	retained_intron	KNOWN	None	20713	None	None	195924323	195925781	-1	None	MGC33345
3	ZDHHC19	ENSG00000163958	ENST00000465519	retained_intron	KNOWN	None	20713	None	None	195924323	195938257	-1	None	MGC33345
3	ZDHHC19	ENSG00000163958	ENST00000397544	nonsense_mediated_decay	KNOWN	None	20713	849	282	195924323	195938308	-1	None	MGC33345
3	ZDHHC19	ENSG00000163958	ENST00000438232	nonsense_mediated_decay	KNOWN	None	20713	690	229	195924324	195938308	-1	None	MGC33345
3	ZDHHC19	ENSG00000163958	ENST00000497422	retained_intron	KNOWN	None	20713	None	None	195925265	195926523	-1	None	MGC33345
3	ZDHHC19	ENSG00000163958	ENST00000488508	processed_transcript	KNOWN	None	20713	None	None	195935281	195938263	-1	None	MGC33345
12	None	ENSG00000201663	ENST00000364793	misc_RNA	NOVEL	None	None	None	None	8003313	8003414	-1	None	None
13	None	ENSG00000269599	ENST00000597248	antisense	KNOWN	None	None	None	None	98981909	98985490	-1	None	None
2	TUBA4B	ENSG00000243910	ENST00000485041	processed_transcript	KNOWN	None	18637	None	None	220117965	220136733	1	TUBA4	FLJ13940
2	TUBA4B	ENSG00000243910	ENST00000473885	processed_transcript	KNOWN	None	18637	None	None	220117965	220136733	1	TUBA4	FLJ13940
2	TUBA4B	ENSG00000243910	ENST00000490341	processed_transcript	KNOWN	None	18637	None	None	220117965	220136910	1	TUBA4	FLJ13940
2	TUBA4B	ENSG00000243910	ENST00000486997	transcribed_unprocessed_pseudogene	KNOWN	None	18637	None	None	220134350	220136868	1	TUBA4	FLJ13940
11	UNC93B5	ENSG00000184795	ENST00000530315	unprocessed_pseudogene	KNOWN	None	34051	None	None	67479173	67483476	-1	None	None
1	None	ENSG00000234937	ENST00000413921	processed_pseudogene	KNOWN	None	None	None	None	155815158	155816415	1	None	None
16	E4F1	ENSG00000167967	ENST00000301727	protein_coding	KNOWN	CCDS32370	3121	2355	784	2273567	2285743	1	None	E4F
16	E4F1	ENSG00000167967	ENST00000565090	protein_coding	NOVEL	None	3121	1824	607	2273581	2285743	1	None	E4F
16	E4F1	ENSG00000167967	ENST00000564139	protein_coding	PUTATIVE	None	3121	1965	654	2273595	2285743	1	None	E4F
16	E4F1	ENSG00000167967	ENST00000562589	nonsense_mediated_decay	KNOWN	None	3121	626	207	2273616	2282764	1	None	E4F
16	E4F1	ENSG00000167967	ENST00000565413	protein_coding	PUTATIVE	None	3121	817	271	2273717	2282909	1	None	E4F
16	E4F1	ENSG00000167967	ENST00000569796	retained_intron	KNOWN	None	3121	None	None	2278394	2285742	1	None	E4F
16	E4F1	ENSG00000167967	ENST00000563643	retained_intron	KNOWN	None	3121	None	None	2283007	2284213	1	None	E4F
16	E4F1	ENSG00000167967	ENST00000564930	retained_intron	KNOWN	None	3121	None	None	2283720	2284196	1	None	E4F
16	E4F1	ENSG00000167967	ENST00000567111	retained_intron	KNOWN	None	3121	None	None	2284601	2285368	1	None	E4F
1	None	ENSG00000224540	ENST00000429208	processed_pseudogene	KNOWN	None	None	None	None	209405541	209406764	1	None	None
21	None	ENSG00000231867	ENST00000429903	sense_intronic	KNOWN	None	None	None	None	43928734	43929771	1	None	None
21	None	ENSG00000231867	ENST00000455116	sense_intronic	KNOWN	None	None	None	None	43928744	43929768	1	None	None
3	None	ENSG00000214210	ENST00000483240	processed_pseudogene	KNOWN	None	None	None	None	163719394	163720253	-1	None	None
3	RN7SL752P	ENSG00000239437	ENST00000463779	misc_RNA	KNOWN	None	46768	None	None	129310192	129310488	1	None	None
11	None	ENSG00000254651	ENST00000534604	lincRNA	KNOWN	None	None	None	None	45420998	45422078	1	None	None
4	None	ENSG00000242431	ENST00000486904	processed_pseudogene	KNOWN	None	None	None	None	47492984	47493488	-1	None	None
5	RAI14	ENSG00000039560	ENST00000265109	protein_coding	KNOWN	CCDS34142	14873	2943	980	34656342	34832732	1	None	NORPEG, KIAA1334, RAI13, DKFZp564G013
5	RAI14	ENSG00000039560	ENST00000514527	protein_coding	KNOWN	None	14873	418	138	34656504	34808727	1	None	NORPEG, KIAA1334, RAI13, DKFZp564G013
5	RAI14	ENSG00000039560	ENST00000510319	nonsense_mediated_decay	KNOWN	None	14873	171	56	34656506	34808727	1	None	NORPEG, KIAA1334, RAI13, DKFZp564G013
5	RAI14	ENSG00000039560	ENST00000514931	retained_intron	KNOWN	None	14873	None	None	34656516	34757973	1	None	NORPEG, KIAA1334, RAI13, DKFZp564G013
5	RAI14	ENSG00000039560	ENST00000513974	protein_coding	KNOWN	None	14873	379	125	34656537	34807962	1	None	NORPEG, KIAA1334, RAI13, DKFZp564G013
5	RAI14	ENSG00000039560	ENST00000512629	protein_coding	NOVEL	CCDS54837	14873	2856	951	34656544	34830870	1	None	NORPEG, KIAA1334, RAI13, DKFZp564G013
5	RAI14	ENSG00000039560	ENST00000428746	protein_coding	KNOWN	CCDS34142	14873	2943	980	34656575	34832716	1	None	NORPEG, KIAA1334, RAI13, DKFZp564G013
5	RAI14	ENSG00000039560	ENST00000514873	protein_coding	KNOWN	None	14873	379	125	34656950	34807962	1	None	NORPEG, KIAA1334, RAI13, DKFZp564G013
5	RAI14	ENSG00000039560	ENST00000508777	nonsense_mediated_decay	KNOWN	None	14873	201	66	34684612	34821938	1	None	NORPEG, KIAA1334, RAI13, DKFZp564G013
5	RAI14	ENSG00000039560	ENST00000503673	protein_coding	KNOWN	CCDS34142	14873	2943	980	34684623	34830910	1	None	NORPEG, KIAA1334, RAI13, DKFZp564G013
5	RAI14	ENSG00000039560	ENST00000511652	processed_transcript	KNOWN	None	14873	None	None	34684632	34733367	1	None	NORPEG, KIAA1334, RAI13, DKFZp564G013
5	RAI14	ENSG00000039560	ENST00000504052	protein_coding	KNOWN	None	14873	342	113	34684641	34807925	1	None	NORPEG, KIAA1334, RAI13, DKFZp564G013
5	RAI14	ENSG00000039560	ENST00000512305	protein_coding	KNOWN	None	14873	321	106	34684648	34803881	1	None	NORPEG, KIAA1334, RAI13, DKFZp564G013
5	RAI14	ENSG00000039560	ENST00000514036	protein_coding	KNOWN	None	14873	313	103	34684657	34803873	1	None	NORPEG, KIAA1334, RAI13, DKFZp564G013
5	RAI14	ENSG00000039560	ENST00000515799	protein_coding	KNOWN	CCDS54839	14873	2952	983	34684659	34830912	1	None	NORPEG, KIAA1334, RAI13, DKFZp564G013
5	RAI14	ENSG00000039560	ENST00000510386	retained_intron	KNOWN	None	14873	None	None	34684758	34688388	1	None	NORPEG, KIAA1334, RAI13, DKFZp564G013
5	RAI14	ENSG00000039560	ENST00000508315	protein_coding	KNOWN	None	14873	376	124	34685805	34808725	1	None	NORPEG, KIAA1334, RAI13, DKFZp564G013
5	RAI14	ENSG00000039560	ENST00000515448	nonsense_mediated_decay	KNOWN	None	14873	63	20	34685809	34796072	1	None	NORPEG, KIAA1334, RAI13, DKFZp564G013
5	RAI14	ENSG00000039560	ENST00000503222	nonsense_mediated_decay	KNOWN	None	14873	171	56	34685838	34808725	1	None	NORPEG, KIAA1334, RAI13, DKFZp564G013
5	RAI14	ENSG00000039560	ENST00000512625	protein_coding	KNOWN	None	14873	450	149	34686490	34808759	1	None	NORPEG, KIAA1334, RAI13, DKFZp564G013
5	RAI14	ENSG00000039560	ENST00000505185	retained_intron	KNOWN	None	14873	None	None	34686967	34757703	1	None	NORPEG, KIAA1334, RAI13, DKFZp564G013
5	RAI14	ENSG00000039560	ENST00000506376	protein_coding	KNOWN	CCDS54838	14873	2919	972	34687664	34830890	1	None	NORPEG, KIAA1334, RAI13, DKFZp564G013
5	RAI14	ENSG00000039560	ENST00000507502	processed_transcript	KNOWN	None	14873	None	None	34688294	34796131	1	None	NORPEG, KIAA1334, RAI13, DKFZp564G013
5	RAI14	ENSG00000039560	ENST00000502736	processed_transcript	KNOWN	None	14873	None	None	34716191	34807962	1	None	NORPEG, KIAA1334, RAI13, DKFZp564G013
5	RAI14	ENSG00000039560	ENST00000507276	processed_transcript	KNOWN	None	14873	None	None	34728650	34811170	1	None	NORPEG, KIAA1334, RAI13, DKFZp564G013
5	RAI14	ENSG00000039560	ENST00000509247	processed_transcript	KNOWN	None	14873	None	None	34728679	34811176	1	None	NORPEG, KIAA1334, RAI13, DKFZp564G013
5	RAI14	ENSG00000039560	ENST00000507883	retained_intron	KNOWN	None	14873	None	None	34826109	34831023	1	None	NORPEG, KIAA1334, RAI13, DKFZp564G013
5	RAI14	ENSG00000039560	ENST00000513772	retained_intron	KNOWN	None	14873	None	None	34826137	34829945	1	None	NORPEG, KIAA1334, RAI13, DKFZp564G013
5	RAI14	ENSG00000039560	ENST00000397449	protein_coding	KNOWN	None	14873	2922	973	34757417	34832716	1	None	NORPEG, KIAA1334, RAI13, DKFZp564G013
12	CUX2	ENSG00000111249	ENST00000261726	protein_coding	KNOWN	CCDS41837	19347	4461	1486	111471828	111788358	1	CUTL2	KIAA0293, CDP2
12	CUX2	ENSG00000111249	ENST00000397643	protein_coding	PUTATIVE	None	19347	754	250	111537250	111733150	1	CUTL2	KIAA0293, CDP2
12	CUX2	ENSG00000111249	ENST00000551604	processed_transcript	KNOWN	None	19347	None	None	111652105	111708458	1	CUTL2	KIAA0293, CDP2
6	NEDD9	ENSG00000111859	ENST00000379446	protein_coding	KNOWN	CCDS4520	7733	2505	834	11183531	11232915	-1	None	HEF1, CAS-L, CASS2
6	NEDD9	ENSG00000111859	ENST00000448183	nonsense_mediated_decay	KNOWN	None	7733	132	43	11183539	11382547	-1	None	HEF1, CAS-L, CASS2
6	NEDD9	ENSG00000111859	ENST00000504387	protein_coding	KNOWN	CCDS47373	7733	2505	834	11185051	11382581	-1	None	HEF1, CAS-L, CASS2
6	NEDD9	ENSG00000111859	ENST00000505589	retained_intron	KNOWN	None	7733	None	None	11191091	11192800	-1	None	HEF1, CAS-L, CASS2
6	NEDD9	ENSG00000111859	ENST00000379433	protein_coding	KNOWN	CCDS34340	7733	525	174	11198541	11232891	-1	None	HEF1, CAS-L, CASS2
6	NEDD9	ENSG00000111859	ENST00000513989	protein_coding	PUTATIVE	None	7733	89	28	11213866	11382536	-1	None	HEF1, CAS-L, CASS2
6	NEDD9	ENSG00000111859	ENST00000397378	protein_coding	KNOWN	None	7733	96	31	11213877	11382532	-1	None	HEF1, CAS-L, CASS2
6	NEDD9	ENSG00000111859	ENST00000508546	protein_coding	PUTATIVE	None	7733	66	21	11213955	11382543	-1	None	HEF1, CAS-L, CASS2
6	NEDD9	ENSG00000111859	ENST00000468612	retained_intron	KNOWN	None	7733	None	None	11249166	11382571	-1	None	HEF1, CAS-L, CASS2
6	NEDD9	ENSG00000111859	ENST00000512665	retained_intron	KNOWN	None	7733	None	None	11251497	11382505	-1	None	HEF1, CAS-L, CASS2
6	NEDD9	ENSG00000111859	ENST00000504634	processed_transcript	KNOWN	None	7733	None	None	11271679	11382565	-1	None	HEF1, CAS-L, CASS2
6	NEDD9	ENSG00000111859	ENST00000459670	processed_transcript	KNOWN	None	7733	None	None	11305299	11382539	-1	None	HEF1, CAS-L, CASS2
6	NEDD9	ENSG00000111859	ENST00000514660	retained_intron	KNOWN	None	7733	None	None	11306086	11382541	-1	None	HEF1, CAS-L, CASS2
6	NEDD9	ENSG00000111859	ENST00000461055	processed_transcript	KNOWN	None	7733	None	None	11328758	11382551	-1	None	HEF1, CAS-L, CASS2
6	NEDD9	ENSG00000111859	ENST00000508800	processed_transcript	KNOWN	None	7733	None	None	11352390	11382581	-1	None	HEF1, CAS-L, CASS2
14	None	ENSG00000257356	ENST00000549284	processed_pseudogene	KNOWN	None	None	None	None	19195252	19195750	1	None	None
13	FARP1-AS1	ENSG00000231194	ENST00000432229	antisense	KNOWN	None	40229	None	None	99087659	99088094	-1	None	None
3	None	ENSG00000248659	ENST00000505608	unprocessed_pseudogene	KNOWN	None	None	None	None	129350862	129351335	-1	None	None
5	None	ENSG00000239048	ENST00000459617	miRNA	NOVEL	None	None	None	None	159556217	159556280	1	None	None
1	None	ENSG00000252765	ENST00000516956	snoRNA	NOVEL	None	None	None	None	101598709	101598895	1	None	None
4	None	ENSG00000248254	ENST00000508081	antisense	KNOWN	None	None	None	None	47558748	47562276	-1	None	None
1	RNU4-19P	ENSG00000201614	ENST00000364744	snRNA	KNOWN	None	46955	None	None	155864072	155864177	1	None	None
16	MIR484	ENSG00000272213	ENST00000606601	miRNA	KNOWN	None	32341	None	None	15737151	15737229	1	MIRN484	hsa-mir-484
12	None	ENSG00000241828	ENST00000480485	processed_pseudogene	KNOWN	None	None	None	None	8013033	8013360	1	None	None
3	None	ENSG00000202412	ENST00000365542	misc_RNA	NOVEL	None	None	None	None	129537775	129537876	1	None	None
1	None	ENSG00000271578	ENST00000603646	processed_pseudogene	KNOWN	None	None	None	None	101656076	101656550	1	None	None
20	GDF5OS	ENSG00000204183	ENST00000374375	protein_coding	KNOWN	None	33435	753	250	34020827	34023248	1	None	None
18	RNF152	ENSG00000176641	ENST00000312828	protein_coding	KNOWN	CCDS11978	26811	612	203	59475296	59560992	-1	None	FLJ39176
18	RNF152	ENSG00000176641	ENST00000591306	protein_coding	KNOWN	None	26811	342	113	59483355	59561464	-1	None	FLJ39176
18	RNF152	ENSG00000176641	ENST00000588064	processed_transcript	PUTATIVE	None	26811	None	None	59542238	59560967	-1	None	FLJ39176
18	RNF152	ENSG00000176641	ENST00000588396	processed_transcript	KNOWN	None	26811	None	None	59555358	59561480	-1	None	FLJ39176
15	None	ENSG00000258397	ENST00000553953	processed_pseudogene	KNOWN	None	None	None	None	20278952	20279587	-1	None	None
5	None	ENSG00000247699	ENST00000524005	antisense	KNOWN	None	None	None	None	159622751	159626102	-1	None	None
5	None	ENSG00000247699	ENST00000501818	antisense	KNOWN	None	None	None	None	159623598	159631833	-1	None	None
1	SNORA42	ENSG00000207475	ENST00000384744	snoRNA	KNOWN	None	32635	None	None	155889700	155889836	-1	None	ACA42
16	None	ENSG00000262380	ENST00000576454	sense_intronic	KNOWN	None	None	None	None	15777147	15778427	1	None	None
3	RNU6-1142P	ENSG00000252786	ENST00000516977	snRNA	KNOWN	None	48105	None	None	129538620	129538719	1	None	None
7	RBM28	ENSG00000106344	ENST00000223073	protein_coding	KNOWN	CCDS5801	21863	2280	759	127950437	127983962	-1	None	FLJ10377
7	RBM28	ENSG00000106344	ENST00000481788	processed_transcript	KNOWN	None	21863	None	None	127950450	127961478	-1	None	FLJ10377
7	RBM28	ENSG00000106344	ENST00000415472	protein_coding	NOVEL	CCDS55159	21863	1857	618	127950533	127983924	-1	None	FLJ10377
7	RBM28	ENSG00000106344	ENST00000495327	retained_intron	KNOWN	None	21863	None	None	127953141	127955024	-1	None	FLJ10377
7	RBM28	ENSG00000106344	ENST00000487602	nonsense_mediated_decay	KNOWN	None	21863	560	185	127963612	127977214	-1	None	FLJ10377
7	RBM28	ENSG00000106344	ENST00000478061	protein_coding	NOVEL	None	21863	851	282	127975599	127983928	-1	None	FLJ10377
7	RBM28	ENSG00000106344	ENST00000488249	retained_intron	KNOWN	None	21863	None	None	127975601	127977258	-1	None	FLJ10377
7	RBM28	ENSG00000106344	ENST00000459726	protein_coding	NOVEL	None	21863	613	203	127978334	127983962	-1	None	FLJ10377
21	None	ENSG00000235772	ENST00000442605	antisense	KNOWN	None	None	None	None	43980484	43982044	-1	None	None
1	None	ENSG00000270172	ENST00000602943	lincRNA	KNOWN	None	None	None	None	53708036	53710212	-1	None	None
14	None	ENSG00000238442	ENST00000459523	miRNA	NOVEL	None	None	None	None	19253848	19253930	1	None	None
2	None	ENSG00000261760	ENST00000561715	lincRNA	KNOWN	None	None	None	None	110988683	111003223	1	None	None
2	None	ENSG00000261760	ENST00000562665	lincRNA	KNOWN	None	None	None	None	110992312	111023767	1	None	None
2	None	ENSG00000261760	ENST00000568189	lincRNA	KNOWN	None	None	None	None	111003168	111043433	1	None	None
2	None	ENSG00000261760	ENST00000564038	lincRNA	KNOWN	None	None	None	None	111003228	111024093	1	None	None
2	None	ENSG00000261760	ENST00000566951	lincRNA	KNOWN	None	None	None	None	111003233	111041367	1	None	None
2	None	ENSG00000261760	ENST00000568756	lincRNA	KNOWN	None	None	None	None	111003240	111024136	1	None	None
2	None	ENSG00000261760	ENST00000562613	lincRNA	KNOWN	None	None	None	None	111003274	111041345	1	None	None
12	TRHDE-AS1	ENSG00000236333	ENST00000549957	retained_intron	KNOWN	None	27471	None	None	72647288	72652020	-1	None	None
12	TRHDE-AS1	ENSG00000236333	ENST00000435350	antisense	KNOWN	None	27471	None	None	72647293	72666306	-1	None	None
12	TRHDE-AS1	ENSG00000236333	ENST00000550334	antisense	KNOWN	None	27471	None	None	72649461	72665771	-1	None	None
12	TRHDE-AS1	ENSG00000236333	ENST00000426250	antisense	KNOWN	None	27471	None	None	72656327	72668687	-1	None	None
1	SCARNA4	ENSG00000252808	ENST00000516999	snoRNA	KNOWN	None	32560	None	None	155895749	155895877	-1	None	ACA26
19	MAU2	ENSG00000129933	ENST00000392313	protein_coding	KNOWN	CCDS32969	29140	1842	613	19431623	19469563	1	KIAA0892	MGC75361, mau-2, MAU2L, SCC4
19	MAU2	ENSG00000129933	ENST00000586189	processed_transcript	KNOWN	None	29140	None	None	19432334	19448026	1	KIAA0892	MGC75361, mau-2, MAU2L, SCC4
19	MAU2	ENSG00000129933	ENST00000592069	processed_transcript	KNOWN	None	29140	None	None	19444982	19448022	1	KIAA0892	MGC75361, mau-2, MAU2L, SCC4
19	MAU2	ENSG00000129933	ENST00000585823	processed_transcript	KNOWN	None	29140	None	None	19450476	19454749	1	KIAA0892	MGC75361, mau-2, MAU2L, SCC4
19	MAU2	ENSG00000129933	ENST00000590837	retained_intron	KNOWN	None	29140	None	None	19452215	19454968	1	KIAA0892	MGC75361, mau-2, MAU2L, SCC4
19	MAU2	ENSG00000129933	ENST00000587938	retained_intron	KNOWN	None	29140	None	None	19453427	19468908	1	KIAA0892	MGC75361, mau-2, MAU2L, SCC4
19	MAU2	ENSG00000129933	ENST00000262816	retained_intron	KNOWN	None	29140	None	None	19455061	19468565	1	KIAA0892	MGC75361, mau-2, MAU2L, SCC4
19	MAU2	ENSG00000129933	ENST00000587638	retained_intron	KNOWN	None	29140	None	None	19457686	19466678	1	KIAA0892	MGC75361, mau-2, MAU2L, SCC4
19	MAU2	ENSG00000129933	ENST00000587362	retained_intron	KNOWN	None	29140	None	None	19457828	19460191	1	KIAA0892	MGC75361, mau-2, MAU2L, SCC4
19	MAU2	ENSG00000129933	ENST00000587709	retained_intron	KNOWN	None	29140	None	None	19458459	19468569	1	KIAA0892	MGC75361, mau-2, MAU2L, SCC4
19	MAU2	ENSG00000129933	ENST00000589947	retained_intron	KNOWN	None	29140	None	None	19459524	19465399	1	KIAA0892	MGC75361, mau-2, MAU2L, SCC4
19	MAU2	ENSG00000129933	ENST00000590882	retained_intron	KNOWN	None	29140	None	None	19459707	19465269	1	KIAA0892	MGC75361, mau-2, MAU2L, SCC4
19	MAU2	ENSG00000129933	ENST00000499453	retained_intron	KNOWN	None	29140	None	None	19463207	19468562	1	KIAA0892	MGC75361, mau-2, MAU2L, SCC4
19	MAU2	ENSG00000129933	ENST00000589637	retained_intron	KNOWN	None	29140	None	None	19465952	19466822	1	KIAA0892	MGC75361, mau-2, MAU2L, SCC4
19	MAU2	ENSG00000129933	ENST00000605964	retained_intron	KNOWN	None	29140	None	None	19466076	19468787	1	KIAA0892	MGC75361, mau-2, MAU2L, SCC4
19	MAU2	ENSG00000129933	ENST00000262815	protein_coding	KNOWN	None	29140	1842	613	19431630	19469563	1	KIAA0892	MGC75361, mau-2, MAU2L, SCC4
3	None	ENSG00000203644	ENST00000366451	pseudogene	KNOWN	None	None	None	None	129565893	129566800	-1	None	None
1	ATP5G2P1	ENSG00000225712	ENST00000433580	processed_pseudogene	KNOWN	None	844	None	None	209441143	209441568	-1	ATP5GP1	None
18	GTSCR1	ENSG00000263417	ENST00000582578	protein_coding	PUTATIVE	None	18406	411	136	68297755	68317980	-1	None	None
18	GTSCR1	ENSG00000263417	ENST00000594039	protein_coding	KNOWN	None	18406	411	136	68297796	68317947	-1	None	None
1	None	ENSG00000238296	ENST00000459166	snoRNA	NOVEL	None	None	None	None	101694220	101694321	-1	None	None
7	None	ENSG00000225974	ENST00000438923	lincRNA	KNOWN	None	None	None	None	15728700	15730479	-1	None	None
15	RN7SL584P	ENSG00000239471	ENST00000492309	misc_RNA	KNOWN	None	46600	None	None	20300988	20301282	-1	None	None
HSCHR17_1	None	ENSG00000257278	ENST00000547028	protein_coding	NOVEL	None	None	453	150	44771954	44775602	1	None	None
5	None	ENSG00000250244	ENST00000508950	antisense	KNOWN	None	None	None	None	132592184	132611669	1	None	None
5	None	ENSG00000250244	ENST00000507403	antisense	KNOWN	None	None	None	None	132602277	132611669	1	None	None
1	None	ENSG00000241471	ENST00000423422	lincRNA	KNOWN	None	None	None	None	155955166	155976861	-1	None	None
HSCHR6_MHC_APD	LSM2	ENSG00000224979	ENST00000483453	processed_transcript	KNOWN	None	13940	None	None	31776526	31785790	-1	C6orf28	G7b, YBL026W
HSCHR6_MHC_APD	LSM2	ENSG00000224979	ENST00000467300	processed_transcript	KNOWN	None	13940	None	None	31776526	31785791	-1	C6orf28	G7b, YBL026W
HSCHR6_MHC_APD	LSM2	ENSG00000224979	ENST00000482931	processed_transcript	KNOWN	None	13940	None	None	31776526	31785948	-1	C6orf28	G7b, YBL026W
HSCHR6_MHC_APD	LSM2	ENSG00000224979	ENST00000484450	processed_transcript	KNOWN	None	13940	None	None	31776526	31785983	-1	C6orf28	G7b, YBL026W
HSCHR6_MHC_APD	LSM2	ENSG00000224979	ENST00000490288	processed_transcript	KNOWN	None	13940	None	None	31776526	31786097	-1	C6orf28	G7b, YBL026W
HSCHR6_MHC_APD	LSM2	ENSG00000224979	ENST00000432122	protein_coding	KNOWN	None	13940	288	95	31776526	31786115	-1	C6orf28	G7b, YBL026W
HSCHR6_MHC_APD	LSM2	ENSG00000224979	ENST00000478692	processed_transcript	KNOWN	None	13940	None	None	31781882	31785733	-1	C6orf28	G7b, YBL026W
3	None	ENSG00000270674	ENST00000603217	lincRNA	KNOWN	None	None	None	None	38532215	38534633	1	None	None
14	None	ENSG00000257959	ENST00000552261	antisense	KNOWN	None	None	None	None	19332154	19372787	-1	None	None
3	ABCC5-AS1	ENSG00000223882	ENST00000422946	antisense	KNOWN	None	40055	None	None	183724126	183729207	1	None	None
1	None	ENSG00000225938	ENST00000432195	antisense	KNOWN	None	None	None	None	101701239	101702084	-1	None	None
2	TRABD2A	ENSG00000186854	ENST00000335459	protein_coding	KNOWN	CCDS46349	27013	1371	456	85048774	85108369	-1	C2orf89	None
2	TRABD2A	ENSG00000186854	ENST00000479944	processed_transcript	KNOWN	None	27013	None	None	85048790	85062628	-1	C2orf89	None
2	TRABD2A	ENSG00000186854	ENST00000496500	processed_transcript	KNOWN	None	27013	None	None	85049066	85069145	-1	C2orf89	None
2	TRABD2A	ENSG00000186854	ENST00000495990	retained_intron	KNOWN	None	27013	None	None	85063043	85071108	-1	C2orf89	None
2	TRABD2A	ENSG00000186854	ENST00000409133	protein_coding	PUTATIVE	None	27013	1002	333	85064914	85108274	-1	C2orf89	None
2	TRABD2A	ENSG00000186854	ENST00000460991	processed_transcript	KNOWN	None	27013	None	None	85066191	85076680	-1	C2orf89	None
2	TRABD2A	ENSG00000186854	ENST00000436322	processed_transcript	KNOWN	None	27013	None	None	85097453	85109099	-1	C2orf89	None
2	TRABD2A	ENSG00000186854	ENST00000474298	processed_transcript	PUTATIVE	None	27013	None	None	85097713	85134132	-1	C2orf89	None
2	TRABD2A	ENSG00000186854	ENST00000489999	processed_transcript	PUTATIVE	None	27013	None	None	85128767	85134132	-1	C2orf89	None
2	TRABD2A	ENSG00000186854	ENST00000409520	protein_coding	KNOWN	None	27013	1518	505	85048793	85108206	-1	C2orf89	None
3	None	ENSG00000264034	ENST00000579736	miRNA	NOVEL	None	None	None	None	16661028	16661125	-1	None	None
21	C21orf90	ENSG00000182912	ENST00000330490	protein_coding	KNOWN	None	16428	198	65	45937099	45938639	1	None	None
21	C21orf90	ENSG00000182912	ENST00000354333	protein_coding	NOVEL	None	16428	114	37	45937500	45940713	1	None	None
21	C21orf90	ENSG00000182912	ENST00000465978	processed_transcript	KNOWN	None	16428	None	None	45937503	45945835	1	None	None
3	CYP51P1	ENSG00000241095	ENST00000492267	processed_pseudogene	KNOWN	None	20245	None	None	82855666	82857172	-1	None	None
3	None	ENSG00000271270	ENST00000603884	antisense	KNOWN	None	None	None	None	129612714	129621048	1	None	None
3	None	ENSG00000271270	ENST00000605830	antisense	KNOWN	None	None	None	None	129612714	129627754	1	None	None
3	None	ENSG00000271270	ENST00000605698	antisense	KNOWN	None	None	None	None	129612725	129624704	1	None	None
3	None	ENSG00000271270	ENST00000604747	antisense	KNOWN	None	None	None	None	129620694	129637418	1	None	None
21	None	ENSG00000225431	ENST00000419628	processed_transcript	KNOWN	None	None	None	None	44019390	44035168	-1	None	None
1	None	ENSG00000234578	ENST00000432653	antisense	KNOWN	None	None	None	None	53733607	53734273	1	None	None
16	None	ENSG00000238703	ENST00000459105	snoRNA	NOVEL	None	None	None	None	28453987	28454090	1	None	None
6	FOXC1	ENSG00000054598	ENST00000380874	protein_coding	KNOWN	CCDS4473	3800	1662	553	1610681	1614127	1	FKHL7, IRID1	FREAC3, ARA, IGDA, IHG1
1	None	ENSG00000227940	ENST00000448988	lincRNA	KNOWN	None	None	None	None	209498801	209501877	1	None	None
3	None	ENSG00000229271	ENST00000426218	lincRNA	KNOWN	None	None	None	None	16729493	16738986	-1	None	None
9	TOR1B	ENSG00000136816	ENST00000259339	protein_coding	KNOWN	CCDS6929	11995	1011	336	132565432	132573560	1	None	DQ1, MGC4386
9	TOR1B	ENSG00000136816	ENST00000486372	processed_transcript	KNOWN	None	11995	None	None	132565436	132566759	1	None	DQ1, MGC4386
9	TOR1B	ENSG00000136816	ENST00000427860	protein_coding	KNOWN	None	11995	425	140	132565547	132572797	1	None	DQ1, MGC4386
9	TOR1B	ENSG00000136816	ENST00000488169	processed_transcript	KNOWN	None	11995	None	None	132566637	132572595	1	None	DQ1, MGC4386
18	None	ENSG00000265568	ENST00000577673	miRNA	NOVEL	None	None	None	None	19579530	19579612	1	None	None
16	None	ENSG00000270118	ENST00000602838	lincRNA	KNOWN	None	None	None	None	28465462	28465832	-1	None	None
1	None	ENSG00000224276	ENST00000415726	antisense	KNOWN	None	None	None	None	155961181	155971578	1	None	None
13	None	ENSG00000271437	ENST00000604953	processed_pseudogene	KNOWN	None	None	None	None	99205497	99206034	1	None	None
1	None	ENSG00000228838	ENST00000421637	antisense	KNOWN	None	None	None	None	53753696	53755378	1	None	None
1	None	ENSG00000260940	ENST00000561748	sense_overlapping	KNOWN	None	None	None	None	101708714	101709305	1	None	None
18	RNU6ATAC20P	ENSG00000221363	ENST00000408436	snRNA	KNOWN	None	46919	None	None	19710564	19710690	-1	None	None
16	None	ENSG00000263335	ENST00000574212	antisense	KNOWN	None	None	None	None	15820531	15826850	1	None	None
11	DYNC2H1	ENSG00000187240	ENST00000375735	protein_coding	KNOWN	CCDS53701	2962	12924	4307	102980160	103350591	1	DNCH2	hdhc11, DHC2, DHC1b, DYH1B
11	DYNC2H1	ENSG00000187240	ENST00000334267	protein_coding	KNOWN	None	2962	2763	920	102980251	103350149	1	DNCH2	hdhc11, DHC2, DHC1b, DYH1B
11	DYNC2H1	ENSG00000187240	ENST00000398093	protein_coding	KNOWN	CCDS44717	2962	12945	4314	102980304	103349981	1	DNCH2	hdhc11, DHC2, DHC1b, DYH1B
11	DYNC2H1	ENSG00000187240	ENST00000533027	retained_intron	KNOWN	None	2962	None	None	103075640	103086620	1	DNCH2	hdhc11, DHC2, DHC1b, DYH1B
11	DYNC2H1	ENSG00000187240	ENST00000525306	retained_intron	KNOWN	None	2962	None	None	103152886	103158473	1	DNCH2	hdhc11, DHC2, DHC1b, DYH1B
11	DYNC2H1	ENSG00000187240	ENST00000528670	nonsense_mediated_decay	KNOWN	None	2962	1137	378	103153746	103350353	1	DNCH2	hdhc11, DHC2, DHC1b, DYH1B
11	DYNC2H1	ENSG00000187240	ENST00000533197	protein_coding	NOVEL	None	2962	675	224	103228971	103350073	1	DNCH2	hdhc11, DHC2, DHC1b, DYH1B
11	DYNC2H1	ENSG00000187240	ENST00000530547	retained_intron	KNOWN	None	2962	None	None	103325727	103350165	1	DNCH2	hdhc11, DHC2, DHC1b, DYH1B
11	DYNC2H1	ENSG00000187240	ENST00000527252	retained_intron	KNOWN	None	2962	None	None	103339117	103350461	1	DNCH2	hdhc11, DHC2, DHC1b, DYH1B
14	ERH	ENSG00000100632	ENST00000557016	protein_coding	KNOWN	CCDS9794	3447	315	104	69846848	69865344	-1	None	DROER
14	ERH	ENSG00000100632	ENST00000216520	processed_transcript	PUTATIVE	None	3447	None	None	69846852	69864988	-1	None	DROER
14	ERH	ENSG00000100632	ENST00000557697	processed_transcript	PUTATIVE	None	3447	None	None	69847293	69861643	-1	None	DROER
14	ERH	ENSG00000100632	ENST00000555373	protein_coding	NOVEL	None	3447	216	71	69853372	69865016	-1	None	DROER
3	None	ENSG00000224039	ENST00000419017	unprocessed_pseudogene	KNOWN	None	None	None	None	16734252	16735709	-1	None	None
11	MIR3656	ENSG00000266398	ENST00000577421	miRNA	KNOWN	None	38889	None	None	118889654	118889722	1	None	hsa-mir-3656
1	None	ENSG00000222611	ENST00000410679	miRNA	NOVEL	None	None	None	None	156047164	156047245	1	None	None
12	RNU1-69P	ENSG00000207339	ENST00000384609	snRNA	KNOWN	None	48411	None	None	56268462	56268625	1	None	None
1	None	ENSG00000225030	ENST00000450469	sense_intronic	KNOWN	None	None	None	None	53757463	53757810	-1	None	None
11	None	ENSG00000254746	ENST00000533315	lincRNA	KNOWN	None	None	None	None	45511239	45564024	-1	None	None
11	None	ENSG00000254746	ENST00000527642	lincRNA	KNOWN	None	None	None	None	45511249	45564024	-1	None	None
11	None	ENSG00000254746	ENST00000529127	retained_intron	KNOWN	None	None	None	None	45552766	45555084	-1	None	None
11	None	ENSG00000254746	ENST00000525855	retained_intron	KNOWN	None	None	None	None	45552870	45564023	-1	None	None
1	None	ENSG00000228399	ENST00000455561	processed_pseudogene	KNOWN	None	None	None	None	101721830	101722172	1	None	None
14	MIR4710	ENSG00000265291	ENST00000582316	miRNA	KNOWN	None	41727	None	None	105144031	105144086	-1	None	hsa-mir-4710
1	None	ENSG00000252236	ENST00000516427	snoRNA	NOVEL	None	None	None	None	156161854	156161994	-1	None	None
13	STK24-AS1	ENSG00000224418	ENST00000434547	antisense	KNOWN	None	39935	None	None	99229498	99231084	1	None	None
21	None	ENSG00000235023	ENST00000424890	antisense	KNOWN	None	None	None	None	44068381	44071354	-1	None	None
12	GSTP1P1	ENSG00000257569	ENST00000548078	processed_pseudogene	KNOWN	None	4640	None	None	56294084	56294402	1	GST3L, GSTPL, GSTPP	GSTP1P
14	UBR7	ENSG00000012963	ENST00000013070	protein_coding	KNOWN	CCDS9909	20344	1278	425	93673401	93695561	1	C14orf130	None
14	UBR7	ENSG00000012963	ENST00000554232	protein_coding	NOVEL	None	20344	536	177	93673586	93684903	1	C14orf130	None
14	UBR7	ENSG00000012963	ENST00000556871	protein_coding	NOVEL	None	20344	458	151	93673588	93685020	1	C14orf130	None
14	UBR7	ENSG00000012963	ENST00000553674	nonsense_mediated_decay	KNOWN	None	20344	165	54	93673588	93693464	1	C14orf130	None
14	UBR7	ENSG00000012963	ENST00000555113	protein_coding	NOVEL	None	20344	490	162	93673639	93681545	1	C14orf130	None
14	UBR7	ENSG00000012963	ENST00000553857	protein_coding	NOVEL	None	20344	522	173	93676243	93693370	1	C14orf130	None
14	UBR7	ENSG00000012963	ENST00000555329	protein_coding	NOVEL	None	20344	373	123	93685027	93693571	1	C14orf130	None
14	UBR7	ENSG00000012963	ENST00000416753	protein_coding	KNOWN	None	20344	1050	349	93673401	93695553	1	C14orf130	None
X	WWC3	ENSG00000047644	ENST00000380861	protein_coding	KNOWN	CCDS14136	29237	3279	1092	9983602	10112518	1	None	KIAA1280, BM042
X	WWC3	ENSG00000047644	ENST00000466248	processed_transcript	KNOWN	None	29237	None	None	9983835	9984902	1	None	KIAA1280, BM042
X	WWC3	ENSG00000047644	ENST00000454666	protein_coding	KNOWN	CCDS14136	29237	3279	1092	10031499	10109658	1	None	KIAA1280, BM042
11	None	ENSG00000271491	ENST00000604840	processed_pseudogene	KNOWN	None	None	None	None	23391662	23399190	-1	None	None
19	ZNF296	ENSG00000170684	ENST00000303809	protein_coding	KNOWN	CCDS12653	15981	1428	475	45574758	45579846	-1	ZNF342	None
8	NIPA2P4	ENSG00000254151	ENST00000523928	processed_pseudogene	KNOWN	None	42044	None	None	82529455	82530795	-1	None	None
10	RPL13AP6	ENSG00000234118	ENST00000430133	processed_pseudogene	KNOWN	None	23737	None	None	112696380	112696991	-1	None	bA348N5.5
11	RNU4-55P	ENSG00000222663	ENST00000410731	snRNA	KNOWN	None	46991	None	None	105695360	105695496	1	None	None
1	None	ENSG00000228155	ENST00000416812	pseudogene	NOVEL	None	None	None	None	156293302	156293487	1	None	None
1	None	ENSG00000231648	ENST00000443636	lincRNA	KNOWN	None	None	None	None	209541007	209553035	1	None	None
1	None	ENSG00000231648	ENST00000447257	lincRNA	KNOWN	None	None	None	None	209545400	209546904	1	None	None
1	None	ENSG00000232762	ENST00000446686	antisense	KNOWN	None	None	None	None	53770208	53773134	1	None	None
2	MIR153-1	ENSG00000207647	ENST00000384914	miRNA	KNOWN	None	31539	None	None	220158833	220158922	-1	MIRN153-1	hsa-mir-153-1
12	None	ENSG00000255652	ENST00000545923	lincRNA	KNOWN	None	None	None	None	34343972	34371788	-1	None	None
11	None	ENSG00000263371	ENST00000583628	miRNA	NOVEL	None	None	None	None	105804680	105804760	1	None	None
1	PPIAP7	ENSG00000173810	ENST00000454070	processed_pseudogene	KNOWN	None	9270	None	None	101736431	101736919	-1	PPIP7	None
2	None	ENSG00000230432	ENST00000417355	antisense	KNOWN	None	None	None	None	220163724	220168852	1	None	None
1	PADI3	ENSG00000142619	ENST00000375460	protein_coding	KNOWN	CCDS179	18337	1995	664	17575593	17610728	1	None	PDI3
20	GDF5	ENSG00000125965	ENST00000374369	protein_coding	KNOWN	CCDS13254	4220	1506	501	34021145	34026023	-1	None	CDMP1, BMP14
20	GDF5	ENSG00000125965	ENST00000374372	protein_coding	KNOWN	CCDS13254	4220	1506	501	34021145	34042568	-1	None	CDMP1, BMP14
1	None	ENSG00000237390	ENST00000451362	lincRNA	KNOWN	None	None	None	None	156358018	156365401	1	None	None
12	None	ENSG00000272435	ENST00000607318	rRNA	NOVEL	None	None	None	None	34358634	34358752	1	None	None
11	RNU6-277P	ENSG00000252081	ENST00000516272	snRNA	KNOWN	None	47240	None	None	105845553	105845658	-1	None	None
3	MIR3714	ENSG00000264818	ENST00000579507	miRNA	KNOWN	None	38928	None	None	16974688	16974752	1	None	hsa-mir-3714
X	SSXP4	ENSG00000185319	ENST00000451349	unprocessed_pseudogene	KNOWN	None	30641	None	None	52627544	52632339	1	SSX10	psiSSX4
14	None	ENSG00000256050	ENST00000540171	lincRNA	KNOWN	None	None	None	None	105147483	105151269	1	None	None
10	CNNM1	ENSG00000119946	ENST00000356713	protein_coding	KNOWN	CCDS7478	102	2856	951	101088856	101154087	1	ACDP1	None
10	CNNM1	ENSG00000119946	ENST00000488090	processed_transcript	KNOWN	None	102	None	None	101128094	101137085	1	ACDP1	None
10	CNNM1	ENSG00000119946	ENST00000446890	protein_coding	KNOWN	None	102	2643	880	101089145	101154085	1	ACDP1	None
10	CNNM1	ENSG00000119946	ENST00000370528	protein_coding	KNOWN	None	102	2493	830	101089145	101154085	1	ACDP1	None
10	CNNM1	ENSG00000119946	ENST00000370534	protein_coding	KNOWN	None	102	1824	607	101089688	101151296	1	ACDP1	None
19	PLEKHF1	ENSG00000166289	ENST00000436066	protein_coding	KNOWN	CCDS12417	20764	840	279	30155963	30166364	1	None	APPD, MGC4090, PHAFIN1, ZFYVE15
19	PLEKHF1	ENSG00000166289	ENST00000592810	protein_coding	KNOWN	CCDS12417	20764	840	279	30156366	30165750	1	None	APPD, MGC4090, PHAFIN1, ZFYVE15
19	PLEKHF1	ENSG00000166289	ENST00000588833	protein_coding	KNOWN	None	20764	246	81	30156408	30164992	1	None	APPD, MGC4090, PHAFIN1, ZFYVE15
19	PLEKHF1	ENSG00000166289	ENST00000586888	protein_coding	KNOWN	None	20764	384	127	30157781	30165130	1	None	APPD, MGC4090, PHAFIN1, ZFYVE15
21	None	ENSG00000225731	ENST00000437426	antisense	KNOWN	None	None	None	None	44153704	44161868	-1	None	None
X	SYP	ENSG00000102003	ENST00000263233	protein_coding	KNOWN	CCDS14321	11506	942	313	49044269	49056718	-1	None	None
X	SYP	ENSG00000102003	ENST00000472598	protein_coding	NOVEL	None	11506	611	202	49045590	49056635	-1	None	None
X	SYP	ENSG00000102003	ENST00000376303	nonsense_mediated_decay	KNOWN	None	11506	123	40	49045706	49056652	-1	None	None
X	SYP	ENSG00000102003	ENST00000479808	protein_coding	KNOWN	CCDS14321	11506	942	313	49046999	49056658	-1	None	None
X	SYP	ENSG00000102003	ENST00000469389	nonsense_mediated_decay	KNOWN	None	11506	357	118	49050648	49056652	-1	None	None
X	SYP	ENSG00000102003	ENST00000466635	nonsense_mediated_decay	KNOWN	None	11506	357	118	49050768	49056652	-1	None	None
X	SYP	ENSG00000102003	ENST00000494396	retained_intron	KNOWN	None	11506	None	None	49053476	49056654	-1	None	None
X	SYP	ENSG00000102003	ENST00000472737	retained_intron	KNOWN	None	11506	None	None	49053836	49056654	-1	None	None
X	SYP	ENSG00000102003	ENST00000538567	protein_coding	KNOWN	None	11506	588	195	49045694	49056652	-1	None	None
12	LINC00615	ENSG00000196243	ENST00000546725	lincRNA	KNOWN	None	26343	None	None	91311800	91342446	1	C12orf37	FLJ25378
11	None	ENSG00000255293	ENST00000531444	processed_pseudogene	KNOWN	None	None	None	None	23425351	23427649	1	None	None
12	RPL29P25	ENSG00000241286	ENST00000465069	processed_pseudogene	KNOWN	None	37039	None	None	111279342	111280191	-1	None	None
11	None	ENSG00000254433	ENST00000532422	antisense	KNOWN	None	None	None	None	105956717	105972649	-1	None	None
11	None	ENSG00000254433	ENST00000527594	antisense	KNOWN	None	None	None	None	105967274	105972702	-1	None	None
2	None	ENSG00000232789	ENST00000448375	unprocessed_pseudogene	KNOWN	None	None	None	None	220223592	220223705	-1	None	None
18	None	ENSG00000265352	ENST00000583756	processed_transcript	KNOWN	None	None	None	None	69399851	69449462	-1	None	None
18	None	ENSG00000265352	ENST00000584810	protein_coding	PUTATIVE	None	None	201	66	69446792	69449517	-1	None	None
18	None	ENSG00000265352	ENST00000580323	processed_transcript	PUTATIVE	None	None	None	None	69449312	69455364	-1	None	None
12	None	ENSG00000258554	ENST00000554022	antisense	KNOWN	None	None	None	None	56360622	56361258	-1	None	None
3	SRRM1P2	ENSG00000242195	ENST00000464531	processed_pseudogene	KNOWN	None	38163	None	None	83986196	83987387	1	None	None
1	MIR9-1	ENSG00000207933	ENST00000385198	miRNA	KNOWN	None	31641	None	None	156390123	156390230	1	MIRN9-1	hsa-mir-9-1
1	None	ENSG00000225675	ENST00000445039	lincRNA	KNOWN	None	None	None	None	53793905	53802181	1	None	None
2	None	ENSG00000229525	ENST00000420563	antisense	KNOWN	None	None	None	None	220253218	220268355	1	None	None
1	None	ENSG00000231671	ENST00000454466	lincRNA	KNOWN	None	None	None	None	101788893	101815732	1	None	None
1	None	ENSG00000231671	ENST00000439146	lincRNA	KNOWN	None	None	None	None	101789393	101842869	1	None	None
1	None	ENSG00000231671	ENST00000444327	lincRNA	KNOWN	None	None	None	None	101815605	101855859	1	None	None
14	None	ENSG00000258858	ENST00000555524	antisense	KNOWN	None	None	None	None	105156428	105157621	-1	None	None
3	None	ENSG00000250643	ENST00000509201	antisense	KNOWN	None	None	None	None	129672948	129688137	-1	None	None
1	None	ENSG00000236947	ENST00000441085	lincRNA	KNOWN	None	None	None	None	156416204	156426258	-1	None	None
1	None	ENSG00000236947	ENST00000452465	lincRNA	KNOWN	None	None	None	None	156422689	156426369	-1	None	None
1	None	ENSG00000226938	ENST00000429099	lincRNA	KNOWN	None	None	None	None	53814160	53814905	-1	None	None
3	PLCL2-AS1	ENSG00000226441	ENST00000414844	antisense	KNOWN	None	40449	None	None	17084234	17085684	-1	None	None
10	MIR548E	ENSG00000221214	ENST00000408287	miRNA	KNOWN	None	35275	None	None	112748684	112748771	1	MIRN548E	hsa-mir-548e
12	None	ENSG00000255885	ENST00000536322	processed_pseudogene	KNOWN	None	None	None	None	8023448	8023966	1	None	None
8	RPS26P34	ENSG00000240427	ENST00000495779	processed_pseudogene	KNOWN	None	36894	None	None	82539504	82539852	1	None	None
10	None	ENSG00000213247	ENST00000424331	processed_pseudogene	KNOWN	None	None	None	None	112864714	112865006	1	None	None
3	None	ENSG00000244468	ENST00000489011	antisense	KNOWN	None	None	None	None	149002569	149051440	1	None	None
1	None	ENSG00000230138	ENST00000449958	lincRNA	KNOWN	None	None	None	None	53832340	53833917	-1	None	None
12	None	ENSG00000237493	ENST00000552016	processed_pseudogene	KNOWN	None	None	None	None	56374216	56374819	-1	None	None
13	NUS1P4	ENSG00000217686	ENST00000401550	processed_pseudogene	KNOWN	None	38474	None	None	99262546	99263130	-1	None	None
14	None	ENSG00000258430	ENST00000557223	antisense	KNOWN	None	None	None	None	105235686	105236608	1	None	None
HSCHR6_MHC_COX	LTA	ENSG00000238130	ENST00000383303	protein_coding	KNOWN	None	6709	618	205	31527243	31529513	1	TNFB	TNFSF1, LT
HSCHR6_MHC_COX	LTA	ENSG00000238130	ENST00000476761	retained_intron	KNOWN	None	6709	None	None	31527459	31529513	1	TNFB	TNFSF1, LT
HSCHR6_MHC_COX	LTA	ENSG00000238130	ENST00000383304	protein_coding	KNOWN	None	6709	618	205	31527472	31529513	1	TNFB	TNFSF1, LT
HSCHR6_MHC_COX	LTA	ENSG00000238130	ENST00000490708	retained_intron	KNOWN	None	6709	None	None	31527483	31529513	1	TNFB	TNFSF1, LT
HSCHR6_MHC_COX	LTA	ENSG00000238130	ENST00000549761	protein_coding	KNOWN	None	6709	474	157	31527505	31528851	1	TNFB	TNFSF1, LT
3	None	ENSG00000225044	ENST00000418972	lincRNA	KNOWN	None	None	None	None	2004065	2029154	-1	None	None
10	BTBD7P2	ENSG00000237618	ENST00000441962	processed_pseudogene	KNOWN	None	44876	None	None	113082536	113083155	1	None	None
13	None	ENSG00000235822	ENST00000441659	lincRNA	KNOWN	None	None	None	None	32559822	32565134	1	None	None
3	None	ENSG00000243822	ENST00000483312	processed_pseudogene	KNOWN	None	None	None	None	149074956	149075332	-1	None	None
14	None	ENSG00000258693	ENST00000556978	lincRNA	KNOWN	None	None	None	None	100443452	100444435	-1	None	None
13	CYCSP35	ENSG00000233549	ENST00000451978	processed_pseudogene	KNOWN	None	24409	None	None	99281940	99282243	-1	None	HCP35, HC8
2	None	ENSG00000234638	ENST00000431827	antisense	KNOWN	None	None	None	None	220289793	220290906	-1	None	None
16	None	ENSG00000263065	ENST00000577048	antisense	KNOWN	None	None	None	None	15835008	15835648	1	None	None
10	None	ENSG00000227851	ENST00000421597	lincRNA	KNOWN	None	None	None	None	113109697	113111861	-1	None	None
11	KRT18P58	ENSG00000254831	ENST00000527480	processed_pseudogene	KNOWN	None	48885	None	None	6015106	6016225	-1	None	None
8	SLC10A5P1	ENSG00000205184	ENST00000379063	unprocessed_pseudogene	KNOWN	None	48930	None	None	82546592	82547897	-1	None	None
1	MIR205HG	ENSG00000230937	ENST00000429156	lincRNA	KNOWN	None	43562	None	None	209602165	209605882	1	None	LINC00510
1	MIR205HG	ENSG00000230937	ENST00000433108	retained_intron	KNOWN	None	43562	None	None	209602165	209605890	1	None	LINC00510
1	MIR205HG	ENSG00000230937	ENST00000603283	lincRNA	KNOWN	None	43562	None	None	209602182	209605729	1	None	LINC00510
1	MIR205HG	ENSG00000230937	ENST00000431096	lincRNA	KNOWN	None	43562	None	None	209602183	209605894	1	None	LINC00510
1	MIR205HG	ENSG00000230937	ENST00000451937	retained_intron	KNOWN	None	43562	None	None	209602205	209605752	1	None	LINC00510
1	MIR205HG	ENSG00000230937	ENST00000444286	retained_intron	KNOWN	None	43562	None	None	209602428	209603966	1	None	LINC00510
1	MIR205HG	ENSG00000230937	ENST00000458250	lincRNA	KNOWN	None	43562	None	None	209602649	209606183	1	None	LINC00510
1	MIR205HG	ENSG00000230937	ENST00000419143	retained_intron	KNOWN	None	43562	None	None	209602857	209604631	1	None	LINC00510
1	MIR205HG	ENSG00000230937	ENST00000440276	lincRNA	KNOWN	None	43562	None	None	209602908	209605894	1	None	LINC00510
1	MIR205HG	ENSG00000230937	ENST00000384891	miRNA	KNOWN	None	43562	None	None	209605478	209605587	1	None	LINC00510
1	MIR205HG	ENSG00000230937	ENST00000366437	lincRNA	KNOWN	None	43562	None	None	209602168	209605890	1	None	LINC00510
3	None	ENSG00000207512	ENST00000384781	misc_RNA	NOVEL	None	None	None	None	38546971	38547072	-1	None	None
13	FRY-AS1	ENSG00000237637	ENST00000428419	antisense	KNOWN	None	39725	None	None	32599451	32605776	-1	None	None
11	None	ENSG00000254564	ENST00000528178	processed_pseudogene	KNOWN	None	None	None	None	23453223	23453345	1	None	None
5	None	ENSG00000250409	ENST00000507964	antisense	KNOWN	None	None	None	None	132723465	132724241	1	None	None
3	None	ENSG00000248459	ENST00000509298	processed_pseudogene	KNOWN	None	None	None	None	129717374	129717779	1	None	None
11	None	ENSG00000254580	ENST00000524966	lincRNA	KNOWN	None	None	None	None	105983186	106002843	-1	None	None
14	LINC00638	ENSG00000258701	ENST00000555578	lincRNA	KNOWN	None	28325	None	None	105287538	105290055	1	None	MGC23270
2	None	ENSG00000227432	ENST00000429882	antisense	KNOWN	None	None	None	None	220346795	220381599	-1	None	None
21	KRTAP10-1	ENSG00000215455	ENST00000400375	protein_coding	KNOWN	CCDS42954	22966	849	282	45958864	45960078	-1	KRTAP18-1	KAP10.1, KAP18.1
X	None	ENSG00000237736	ENST00000420160	lincRNA	KNOWN	None	None	None	None	152435330	152439727	-1	None	None
X	None	ENSG00000237736	ENST00000420988	lincRNA	KNOWN	None	None	None	None	152435672	152439737	-1	None	None
3	RN7SKP144	ENSG00000223040	ENST00000411108	misc_RNA	KNOWN	None	45868	None	None	2130617	2130895	-1	None	None
3	DDTP1	ENSG00000230683	ENST00000443589	processed_pseudogene	KNOWN	None	44546	None	None	38556939	38557321	-1	None	None
13	CALM2P4	ENSG00000233662	ENST00000430810	processed_pseudogene	KNOWN	None	39661	None	None	99293068	99293493	-1	None	None
3	None	ENSG00000252976	ENST00000517167	miRNA	NOVEL	None	None	None	None	17177142	17177214	-1	None	None
16	RNU6-213P	ENSG00000206778	ENST00000384051	snRNA	KNOWN	None	47176	None	None	15971020	15971123	-1	None	None
3	CNTN4-AS2	ENSG00000227588	ENST00000447256	lincRNA	KNOWN	None	39986	None	None	2152093	2185925	-1	None	None
12	TBC1D30	ENSG00000111490	ENST00000456757	processed_transcript	KNOWN	None	29164	None	None	65174973	65212550	1	None	KIAA0984
12	TBC1D30	ENSG00000111490	ENST00000544190	protein_coding	NOVEL	None	29164	439	145	65174974	65224280	1	None	KIAA0984
12	TBC1D30	ENSG00000111490	ENST00000542120	protein_coding	NOVEL	None	29164	1944	647	65179791	65274812	1	None	KIAA0984
12	TBC1D30	ENSG00000111490	ENST00000539867	protein_coding	NOVEL	CCDS53813	29164	2286	761	65218352	65269568	1	None	KIAA0984
12	TBC1D30	ENSG00000111490	ENST00000544457	protein_coding	NOVEL	None	29164	369	122	65218447	65225985	1	None	KIAA0984
12	TBC1D30	ENSG00000111490	ENST00000539120	protein_coding	NOVEL	None	29164	274	90	65218450	65230291	1	None	KIAA0984
12	TBC1D30	ENSG00000111490	ENST00000229088	protein_coding	KNOWN	None	29164	2775	924	65174589	65272083	1	None	KIAA0984
12	None	ENSG00000257287	ENST00000547971	processed_pseudogene	KNOWN	None	None	None	None	72825502	72825855	-1	None	None
13	None	ENSG00000230633	ENST00000418076	antisense	KNOWN	None	None	None	None	32872291	32872849	1	None	None
1	None	ENSG00000226715	ENST00000415532	lincRNA	PUTATIVE	None	None	None	None	102189298	102195170	1	None	None
11	None	ENSG00000264478	ENST00000585314	miRNA	NOVEL	None	None	None	None	23493190	23493259	-1	None	None
2	None	ENSG00000268603	ENST00000601508	antisense	KNOWN	None	None	None	None	220362333	220362968	-1	None	None
12	DBX2	ENSG00000185610	ENST00000332700	protein_coding	KNOWN	CCDS31781	33186	1020	339	45408455	45444882	-1	None	FLJ16139
5	MIR1289-2	ENSG00000221287	ENST00000408360	miRNA	KNOWN	None	35282	None	None	132763288	132763398	-1	MIRN1289-2	hsa-mir-1289-2
12	None	ENSG00000255990	ENST00000541217	pseudogene	KNOWN	None	None	None	None	56385991	56388469	1	None	None
1	None	ENSG00000206651	ENST00000383924	misc_RNA	NOVEL	None	None	None	None	156453890	156454002	-1	None	None
10	None	ENSG00000232342	ENST00000448214	antisense	KNOWN	None	None	None	None	76265890	76289096	-1	None	None
10	None	ENSG00000232342	ENST00000595410	antisense	KNOWN	None	None	None	None	76269111	76289076	-1	None	None
12	None	ENSG00000258794	ENST00000554796	transcribed_processed_pseudogene	KNOWN	None	None	None	None	34361350	34362610	-1	None	None
3	None	ENSG00000231780	ENST00000421072	processed_pseudogene	KNOWN	None	None	None	None	17374618	17374923	1	None	None
11	RNA5SP329	ENSG00000202147	ENST00000365277	rRNA	KNOWN	None	43229	None	None	6038226	6038344	1	RN5S329	None
16	None	ENSG00000262171	ENST00000573856	antisense	KNOWN	None	None	None	None	15978886	15980015	1	None	None
2	None	ENSG00000224879	ENST00000415201	sense_overlapping	KNOWN	None	None	None	None	79385500	79412649	1	None	None
13	IFIT1P1	ENSG00000215515	ENST00000400497	processed_pseudogene	KNOWN	None	5408	None	None	32958797	32960245	1	G13P1, IFI56P, IFIT1P	II56P
1	None	ENSG00000260460	ENST00000564032	lincRNA	KNOWN	None	None	None	None	156479646	156481473	1	None	None
1	RNU6-965P	ENSG00000252530	ENST00000516721	snRNA	KNOWN	None	47928	None	None	102194198	102194293	-1	None	None
8	None	ENSG00000253334	ENST00000524337	antisense	KNOWN	None	None	None	None	82704058	82727949	1	None	None
6	RNA5SP207	ENSG00000212176	ENST00000390874	rRNA	KNOWN	None	43107	None	None	41207258	41207364	-1	RN5S207	None
14	None	ENSG00000259033	ENST00000553791	lincRNA	KNOWN	None	None	None	None	70742013	70758576	1	None	None
2	None	ENSG00000268896	ENST00000596829	antisense	KNOWN	None	None	None	None	220411933	220412380	-1	None	None
3	None	ENSG00000230398	ENST00000419438	processed_pseudogene	KNOWN	None	None	None	None	2403942	2404422	1	None	None
11	PRKRIRP4	ENSG00000254465	ENST00000528321	processed_pseudogene	KNOWN	None	39568	None	None	23499614	23501976	1	None	None
3	None	ENSG00000249869	ENST00000511578	processed_pseudogene	KNOWN	None	None	None	None	129732025	129732384	-1	None	None
21	KRTAP10-2	ENSG00000205445	ENST00000391621	protein_coding	KNOWN	CCDS42955	22967	768	255	45970240	45971388	-1	KRTAP18-2	KAP10.2, KAP18.2
21	KRTAP10-2	ENSG00000205445	ENST00000498210	processed_transcript	KNOWN	None	22967	None	None	45970318	45971388	-1	KRTAP18-2	KAP10.2, KAP18.2
3	TM4SF1-AS1	ENSG00000240541	ENST00000496491	antisense	KNOWN	None	40587	None	None	149095565	149104370	1	None	None
3	TM4SF1-AS1	ENSG00000240541	ENST00000484046	antisense	KNOWN	None	40587	None	None	149096006	149104368	1	None	None
1	SLC25A3P1	ENSG00000236253	ENST00000563752	processed_transcript	KNOWN	None	26869	None	None	53878821	53905648	-1	None	FLJ40434
1	SLC25A3P1	ENSG00000236253	ENST00000566461	processed_transcript	KNOWN	None	26869	None	None	53878835	53883338	-1	None	FLJ40434
1	SLC25A3P1	ENSG00000236253	ENST00000566100	processed_transcript	KNOWN	None	26869	None	None	53902708	53905238	-1	None	FLJ40434
1	SLC25A3P1	ENSG00000236253	ENST00000569142	processed_transcript	KNOWN	None	26869	None	None	53904043	53905693	-1	None	FLJ40434
1	SLC25A3P1	ENSG00000236253	ENST00000443844	transcribed_processed_pseudogene	KNOWN	None	26869	None	None	53904044	53904974	-1	None	FLJ40434
1	SLC25A3P1	ENSG00000236253	ENST00000562700	processed_transcript	KNOWN	None	26869	None	None	53904384	53905242	-1	None	FLJ40434
1	None	ENSG00000238843	ENST00000458777	snoRNA	NOVEL	None	None	None	None	156499122	156499221	1	None	None
6	TREML5P	ENSG00000225690	ENST00000421694	unprocessed_pseudogene	KNOWN	None	30808	None	None	41215107	41217387	1	TREML2P, TREML2P1	TLT5
17	None	ENSG00000268206	ENST00000600595	protein_coding	NOVEL	None	None	141	46	26638667	26642323	1	None	None
11	None	ENSG00000235855	ENST00000524910	unprocessed_pseudogene	KNOWN	None	None	None	None	67489954	67490926	-1	None	None
8	HNRNPA1P36	ENSG00000231942	ENST00000521313	processed_pseudogene	KNOWN	None	48765	None	None	82720007	82720961	1	None	None
2	MIR3132	ENSG00000265252	ENST00000581997	miRNA	KNOWN	None	38373	None	None	220413795	220413869	-1	None	hsa-mir-3132
1	None	ENSG00000183298	ENST00000431241	processed_pseudogene	KNOWN	None	None	None	None	102251896	102252775	-1	None	None
1	None	ENSG00000183298	ENST00000332100	processed_pseudogene	KNOWN	None	None	None	None	102251892	102254059	-1	None	None
1	None	ENSG00000265960	ENST00000581084	miRNA	NOVEL	None	None	None	None	156557648	156557747	-1	None	None
14	None	ENSG00000258644	ENST00000555276	processed_transcript	KNOWN	None	None	None	None	70793069	70883701	-1	None	None
13	None	ENSG00000212293	ENST00000390991	snoRNA	NOVEL	None	None	None	None	32994527	32994653	-1	None	None
9	RRAGA	ENSG00000155876	ENST00000380527	protein_coding	KNOWN	CCDS6488	16963	942	313	19049372	19051019	1	None	RAGA, FIP-1
2	None	ENSG00000269068	ENST00000597192	antisense	KNOWN	None	None	None	None	220423805	220424348	1	None	None
2	None	ENSG00000229385	ENST00000443301	antisense	KNOWN	None	None	None	None	79720842	79727970	-1	None	None
1	None	ENSG00000272068	ENST00000606343	lincRNA	KNOWN	None	None	None	None	156607575	156610796	-1	None	None
11	None	ENSG00000266451	ENST00000580148	miRNA	NOVEL	None	None	None	None	67501992	67502079	-1	None	None
5	None	ENSG00000263545	ENST00000579330	miRNA	NOVEL	None	None	None	None	132961536	132961639	-1	None	None
6	None	ENSG00000218809	ENST00000407513	unprocessed_pseudogene	KNOWN	None	None	None	None	41237613	41237977	-1	None	None
18	GATA6-AS1	ENSG00000266010	ENST00000583490	lincRNA	KNOWN	None	48840	None	None	19746859	19748929	-1	None	None
18	GATA6-AS1	ENSG00000266010	ENST00000584373	lincRNA	KNOWN	None	48840	None	None	19746940	19747903	-1	None	None
18	GATA6-AS1	ENSG00000266010	ENST00000579431	lincRNA	KNOWN	None	48840	None	None	19747216	19748379	-1	None	None
18	GATA6-AS1	ENSG00000266010	ENST00000584201	lincRNA	KNOWN	None	48840	None	None	19747631	19748331	-1	None	None
12	None	ENSG00000257449	ENST00000551846	antisense	KNOWN	None	None	None	None	56423433	56435590	-1	None	None
11	None	ENSG00000255481	ENST00000524865	processed_pseudogene	KNOWN	None	None	None	None	6067037	6067977	-1	None	None
6	RNU6-643P	ENSG00000206745	ENST00000384018	snRNA	KNOWN	None	47606	None	None	41270204	41270310	-1	None	None
2	RN7SKP213	ENSG00000222678	ENST00000410746	misc_RNA	KNOWN	None	45937	None	None	220455409	220455706	-1	None	None
12	None	ENSG00000256614	ENST00000540219	processed_pseudogene	KNOWN	None	None	None	None	34402416	34402893	1	None	None
11	None	ENSG00000272412	ENST00000607160	misc_RNA	NOVEL	None	None	None	None	130180075	130180369	1	None	None
5	None	ENSG00000251243	ENST00000508392	processed_pseudogene	KNOWN	None	None	None	None	133056186	133056625	-1	None	None
21	KRTAP10-3	ENSG00000212935	ENST00000391620	protein_coding	KNOWN	CCDS42956	22968	666	221	45977673	45978643	-1	KRTAP18-3	KAP10.3, KAP18.3
20	CST4	ENSG00000101441	ENST00000217423	protein_coding	KNOWN	CCDS13159	2476	426	141	23666277	23669677	-1	None	None
14	RPS26P49	ENSG00000239365	ENST00000460857	processed_pseudogene	KNOWN	None	35514	None	None	105297175	105297508	-1	None	None
X	None	ENSG00000235219	ENST00000434979	unprocessed_pseudogene	KNOWN	None	None	None	None	152459852	152462342	-1	None	None
6	None	ENSG00000213461	ENST00000422246	processed_pseudogene	KNOWN	None	None	None	None	41275904	41276303	-1	None	None
3	OR7E129P	ENSG00000180770	ENST00000504655	unprocessed_pseudogene	KNOWN	None	15052	None	None	129740396	129741363	-1	None	None
2	None	ENSG00000228973	ENST00000455896	antisense	KNOWN	None	None	None	None	220489781	220491415	-1	None	None
3	DNAJC19P4	ENSG00000225310	ENST00000440115	processed_pseudogene	KNOWN	None	45067	None	None	3026915	3027259	-1	None	None
15	HERC2P9	ENSG00000206149	ENST00000507787	retained_intron	KNOWN	None	30495	None	None	28834638	28836269	1	None	FLJ59185
15	HERC2P9	ENSG00000206149	ENST00000529624	transcribed_unprocessed_pseudogene	KNOWN	None	30495	None	None	28835335	28919173	1	None	FLJ59185
15	HERC2P9	ENSG00000206149	ENST00000529537	processed_transcript	KNOWN	None	30495	None	None	28857288	28878420	1	None	FLJ59185
15	HERC2P9	ENSG00000206149	ENST00000524476	retained_intron	KNOWN	None	30495	None	None	28878269	28886711	1	None	FLJ59185
15	HERC2P9	ENSG00000206149	ENST00000529353	processed_transcript	KNOWN	None	30495	None	None	28878271	28887567	1	None	FLJ59185
15	HERC2P9	ENSG00000206149	ENST00000530420	retained_intron	KNOWN	None	30495	None	None	28896567	28919061	1	None	FLJ59185
15	HERC2P9	ENSG00000206149	ENST00000528584	processed_transcript	KNOWN	None	30495	None	None	28899588	28930410	1	None	FLJ59185
15	HERC2P9	ENSG00000206149	ENST00000569226	retained_intron	KNOWN	None	30495	None	None	28916981	28927324	1	None	FLJ59185
15	HERC2P9	ENSG00000206149	ENST00000382946	unprocessed_pseudogene	KNOWN	None	30495	None	None	28878245	28887539	1	None	FLJ59185
15	HERC2P9	ENSG00000206149	ENST00000542073	unprocessed_pseudogene	KNOWN	None	30495	None	None	28896567	28902401	1	None	FLJ59185
15	HERC2P9	ENSG00000206149	ENST00000383034	unprocessed_pseudogene	KNOWN	None	30495	None	None	28900625	28919061	1	None	FLJ59185
2	None	ENSG00000230237	ENST00000427781	processed_pseudogene	KNOWN	None	None	None	None	79800890	79802719	-1	None	None
HSCHR17_1	None	ENSG00000257774	ENST00000552021	protein_coding	NOVEL	None	None	4908	1635	44831766	44874729	1	None	None
HSCHR17_1	None	ENSG00000257774	ENST00000600392	protein_coding	NOVEL	None	None	5103	1700	44831766	44874729	1	None	None
HSCHR17_1	None	ENSG00000257774	ENST00000550392	protein_coding	NOVEL	None	None	2025	674	44859201	44874729	1	None	None
18	CBLN2	ENSG00000141668	ENST00000585159	protein_coding	KNOWN	CCDS11999	1544	675	224	70203915	70210789	-1	None	None
18	CBLN2	ENSG00000141668	ENST00000269503	protein_coding	KNOWN	CCDS11999	1544	675	224	70203915	70211774	-1	None	None
18	CBLN2	ENSG00000141668	ENST00000581425	retained_intron	KNOWN	None	1544	None	None	70203919	70207533	-1	None	None
18	CBLN2	ENSG00000141668	ENST00000584764	protein_coding	PUTATIVE	None	1544	327	108	70205255	70210789	-1	None	None
18	CBLN2	ENSG00000141668	ENST00000583651	processed_transcript	PUTATIVE	None	1544	None	None	70205346	70210464	-1	None	None
18	CBLN2	ENSG00000141668	ENST00000581073	protein_coding	PUTATIVE	None	1544	333	110	70205385	70305752	-1	None	None
18	CBLN2	ENSG00000141668	ENST00000580889	processed_transcript	KNOWN	None	1544	None	None	70211688	70305690	-1	None	None
18	CBLN2	ENSG00000141668	ENST00000583570	processed_transcript	PUTATIVE	None	1544	None	None	70287447	70305756	-1	None	None
18	CBLN2	ENSG00000141668	ENST00000582667	processed_transcript	PUTATIVE	None	1544	None	None	70287703	70298316	-1	None	None
2	MIR4436B1	ENSG00000263881	ENST00000581415	miRNA	KNOWN	None	41587	None	None	111042430	111042520	1	MIR4436B	hsa-mir-4436b
2	MIR4436B2	ENSG00000263881	ENST00000581415	miRNA	KNOWN	None	43451	None	None	111042430	111042520	1	None	hsa-mir-4436b-2
3	None	ENSG00000227309	ENST00000449897	processed_pseudogene	KNOWN	None	None	None	None	17506642	17507002	1	None	None
11	OR7E11P	ENSG00000254447	ENST00000532901	unprocessed_pseudogene	KNOWN	None	8382	None	None	67503079	67504030	-1	OR7E144P	OR11-2
16	RPL15P20	ENSG00000215003	ENST00000482912	processed_pseudogene	KNOWN	None	36130	None	None	16025554	16026151	-1	None	None
1	None	ENSG00000272405	ENST00000605886	antisense	KNOWN	None	None	None	None	156611458	156614679	-1	None	None
2	None	ENSG00000267919	ENST00000597288	lincRNA	KNOWN	None	None	None	None	220509812	220510353	1	None	None
2	None	ENSG00000264336	ENST00000583670	miRNA	NOVEL	None	None	None	None	111058889	111058970	1	None	None
3	None	ENSG00000271841	ENST00000607194	snRNA	NOVEL	None	None	None	None	17706455	17706517	1	None	None
6	None	ENSG00000238867	ENST00000458852	miRNA	NOVEL	None	None	None	None	41323187	41323246	1	None	None
2	RNU6-561P	ENSG00000252031	ENST00000516222	snRNA	KNOWN	None	47524	None	None	79863988	79864089	-1	None	None
21	KRTAP10-4	ENSG00000215454	ENST00000400374	protein_coding	KNOWN	CCDS42957	20521	1206	401	45993606	45994987	1	KRTAP18-4	KRTAP18.4, KAP10.4
11	None	ENSG00000254811	ENST00000526101	processed_transcript	PUTATIVE	None	None	None	None	106120746	106133959	1	None	None
11	None	ENSG00000254811	ENST00000525797	processed_transcript	PUTATIVE	None	None	None	None	106122134	106135632	1	None	None
11	None	ENSG00000254811	ENST00000534002	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	106135042	106135308	1	None	None
11	OR52L2P	ENSG00000262980	ENST00000572217	unprocessed_pseudogene	KNOWN	None	14788	None	None	6078546	6079505	-1	OR52L2	None
3	None	ENSG00000233133	ENST00000458010	unprocessed_pseudogene	KNOWN	None	None	None	None	17747550	17747725	-1	None	None
2	None	ENSG00000226991	ENST00000440423	processed_pseudogene	KNOWN	None	None	None	None	111116367	111116703	1	None	None
1	None	ENSG00000229953	ENST00000448869	antisense	KNOWN	None	None	None	None	156616299	156631216	-1	None	None
12	None	ENSG00000257794	ENST00000546944	processed_pseudogene	KNOWN	None	None	None	None	37935814	37936188	-1	None	None
2	MIR4264	ENSG00000266436	ENST00000583520	miRNA	KNOWN	None	38338	None	None	79876420	79876485	-1	None	hsa-mir-4264
11	None	ENSG00000240881	ENST00000474589	processed_pseudogene	KNOWN	None	None	None	None	23541868	23542748	1	None	None
11	OR52X1P	ENSG00000234895	ENST00000446117	unprocessed_pseudogene	KNOWN	None	14790	None	None	6088103	6089016	-1	None	None
18	None	ENSG00000264012	ENST00000578504	antisense	KNOWN	None	None	None	None	19755426	19756623	-1	None	None
6	None	ENSG00000234753	ENST00000440194	antisense	KNOWN	None	None	None	None	41462591	41513981	-1	None	None
6	None	ENSG00000234753	ENST00000414386	antisense	KNOWN	None	None	None	None	41491633	41513914	-1	None	None
6	None	ENSG00000234753	ENST00000454812	antisense	KNOWN	None	None	None	None	41491633	41516359	-1	None	None
6	None	ENSG00000234753	ENST00000439386	antisense	KNOWN	None	None	None	None	41491635	41513812	-1	None	None
6	None	ENSG00000234753	ENST00000432751	antisense	KNOWN	None	None	None	None	41491643	41515286	-1	None	None
2	None	ENSG00000263566	ENST00000577381	miRNA	NOVEL	None	None	None	None	80021396	80021507	1	None	None
12	None	ENSG00000257553	ENST00000548595	antisense	KNOWN	None	None	None	None	56498398	56507689	-1	None	None
2	None	ENSG00000231802	ENST00000452903	processed_pseudogene	KNOWN	None	None	None	None	220548752	220549517	-1	None	None
4	None	ENSG00000242262	ENST00000487352	processed_pseudogene	KNOWN	None	None	None	None	47708389	47709004	1	None	None
1	None	ENSG00000237588	ENST00000441272	lincRNA	KNOWN	None	None	None	None	156657489	156661789	-1	None	None
12	NANOGP1	ENSG00000176654	ENST00000525030	transcribed_unprocessed_pseudogene	KNOWN	None	23099	None	None	8045172	8051499	1	None	NANOG2
12	NANOGP1	ENSG00000176654	ENST00000607111	processed_transcript	KNOWN	None	23099	None	None	8048073	8052736	1	None	NANOG2
17	SLC25A11	ENSG00000108528	ENST00000225665	protein_coding	KNOWN	CCDS11059	10981	945	314	4840425	4843546	-1	SLC20A4	OGC
17	SLC25A11	ENSG00000108528	ENST00000574710	retained_intron	KNOWN	None	10981	None	None	4840612	4843325	-1	SLC20A4	OGC
17	SLC25A11	ENSG00000108528	ENST00000544061	protein_coding	KNOWN	CCDS54069	10981	792	263	4841019	4843348	-1	SLC20A4	OGC
17	SLC25A11	ENSG00000108528	ENST00000576951	protein_coding	PUTATIVE	None	10981	890	295	4841058	4843208	-1	SLC20A4	OGC
17	SLC25A11	ENSG00000108528	ENST00000570543	retained_intron	KNOWN	None	10981	None	None	4841449	4841852	-1	SLC20A4	OGC
1	RNU6-352P	ENSG00000252717	ENST00000516908	snRNA	KNOWN	None	47315	None	None	102325407	102325513	1	None	None
11	None	ENSG00000175773	ENST00000602376	lincRNA	KNOWN	None	None	None	None	130184888	130263670	1	None	None
11	None	ENSG00000175773	ENST00000532116	lincRNA	KNOWN	None	None	None	None	130184923	130263688	1	None	None
11	None	ENSG00000175773	ENST00000602310	lincRNA	KNOWN	None	None	None	None	130184934	130185578	1	None	None
3	None	ENSG00000221380	ENST00000408453	miRNA	NOVEL	None	None	None	None	84339263	84339404	-1	None	None
2	None	ENSG00000224731	ENST00000418621	antisense	KNOWN	None	None	None	None	80255138	80257677	-1	None	None
1	RNU7-95P	ENSG00000239007	ENST00000459222	snRNA	KNOWN	None	45629	None	None	54154422	54154485	-1	None	None
1	None	ENSG00000223356	ENST00000428641	antisense	KNOWN	None	None	None	None	156682004	156682966	-1	None	None
10	BNIP3	ENSG00000176171	ENST00000368636	protein_coding	KNOWN	CCDS7663	1084	585	194	133781578	133795435	-1	None	Nip3
10	BNIP3	ENSG00000176171	ENST00000540159	protein_coding	KNOWN	None	1084	543	180	133783191	133795427	-1	None	Nip3
3	None	ENSG00000213383	ENST00000393779	processed_pseudogene	KNOWN	None	None	None	None	17913221	17914090	-1	None	None
4	SLC9B1	ENSG00000164037	ENST00000394789	protein_coding	KNOWN	CCDS47119	24244	1428	475	103806205	103940876	-1	NHEDC1	NHA1
4	SLC9B1	ENSG00000164037	ENST00000503584	nonsense_mediated_decay	KNOWN	None	24244	222	73	103806206	103940807	-1	NHEDC1	NHA1
4	SLC9B1	ENSG00000164037	ENST00000514972	nonsense_mediated_decay	KNOWN	None	24244	603	200	103806206	103940818	-1	NHEDC1	NHA1
4	SLC9B1	ENSG00000164037	ENST00000296422	protein_coding	KNOWN	CCDS34041	24244	1548	515	103822085	103940896	-1	NHEDC1	NHA1
4	SLC9B1	ENSG00000164037	ENST00000504216	nonsense_mediated_decay	KNOWN	None	24244	147	48	103822245	103940823	-1	NHEDC1	NHA1
4	SLC9B1	ENSG00000164037	ENST00000509614	processed_transcript	KNOWN	None	24244	None	None	103822254	103831641	-1	NHEDC1	NHA1
4	SLC9B1	ENSG00000164037	ENST00000512651	processed_transcript	KNOWN	None	24244	None	None	103822260	103853456	-1	NHEDC1	NHA1
4	SLC9B1	ENSG00000164037	ENST00000511253	protein_coding	PUTATIVE	None	24244	384	127	103827434	103832698	-1	NHEDC1	NHA1
4	SLC9B1	ENSG00000164037	ENST00000510243	nonsense_mediated_decay	KNOWN	None	24244	222	73	103831591	103912869	-1	NHEDC1	NHA1
4	SLC9B1	ENSG00000164037	ENST00000514340	protein_coding	PUTATIVE	None	24244	762	253	103832591	103912869	-1	NHEDC1	NHA1
4	SLC9B1	ENSG00000164037	ENST00000510559	protein_coding	KNOWN	None	24244	149	48	103911019	103940839	-1	NHEDC1	NHA1
2	None	ENSG00000222001	ENST00000409905	protein_coding	PUTATIVE	None	None	261	86	233877324	233880595	1	None	None
2	None	ENSG00000222001	ENST00000463534	retained_intron	KNOWN	None	None	None	None	233877602	233880594	1	None	None
17	MIS12	ENSG00000167842	ENST00000576988	protein_coding	KNOWN	None	24967	375	124	5389605	5392557	1	None	MGC2488, hMIS12, KNTC2AP, MTW1
17	MIS12	ENSG00000167842	ENST00000576570	protein_coding	KNOWN	None	24967	73	23	5389705	5392255	1	None	MGC2488, hMIS12, KNTC2AP, MTW1
17	MIS12	ENSG00000167842	ENST00000573759	protein_coding	KNOWN	CCDS11074	24967	618	205	5389716	5394057	1	None	MGC2488, hMIS12, KNTC2AP, MTW1
17	MIS12	ENSG00000167842	ENST00000574186	processed_transcript	KNOWN	None	24967	None	None	5389897	5390479	1	None	MGC2488, hMIS12, KNTC2AP, MTW1
17	MIS12	ENSG00000167842	ENST00000381165	protein_coding	KNOWN	CCDS11074	24967	618	205	5390247	5394134	1	None	MGC2488, hMIS12, KNTC2AP, MTW1
21	KRTAP10-5	ENSG00000241123	ENST00000400372	protein_coding	KNOWN	CCDS42958	22969	816	271	45999332	46000481	-1	KRTAP18-5	KAP10.5, KAP18.5
3	None	ENSG00000263767	ENST00000578720	miRNA	NOVEL	None	None	None	None	129752301	129752388	-1	None	None
11	None	ENSG00000254883	ENST00000524977	processed_pseudogene	KNOWN	None	None	None	None	67511793	67512116	1	None	None
1	None	ENSG00000271277	ENST00000603614	processed_pseudogene	KNOWN	None	None	None	None	102348072	102348450	1	None	None
1	None	ENSG00000201003	ENST00000364133	snoRNA	NOVEL	None	None	None	None	54236691	54236826	-1	None	None
10	LBX1	ENSG00000138136	ENST00000370193	protein_coding	KNOWN	CCDS31270	16960	846	281	102986733	102989551	-1	None	LBX1H, HPX6
3	CNTN4-AS1	ENSG00000237990	ENST00000442749	antisense	KNOWN	None	39985	None	None	3080717	3102829	-1	None	None
11	None	ENSG00000255193	ENST00000534068	lincRNA	KNOWN	None	None	None	None	23752134	23818516	1	None	None
12	None	ENSG00000258345	ENST00000550840	antisense	KNOWN	None	None	None	None	56512752	56513723	-1	None	None
3	None	ENSG00000266652	ENST00000578770	miRNA	NOVEL	None	None	None	None	84545727	84545814	1	None	None
1	None	ENSG00000264454	ENST00000578163	miRNA	NOVEL	None	None	None	None	54294465	54294534	1	None	None
2	None	ENSG00000223427	ENST00000265882	processed_pseudogene	KNOWN	None	None	None	None	80389554	80390261	-1	None	None
16	PRSS33	ENSG00000103355	ENST00000293851	protein_coding	KNOWN	CCDS42110	30405	843	280	2833954	2836708	-1	None	EOS
16	PRSS33	ENSG00000103355	ENST00000576886	protein_coding	PUTATIVE	None	30405	348	115	2833954	2836842	-1	None	EOS
16	PRSS33	ENSG00000103355	ENST00000570702	protein_coding	KNOWN	CCDS42110	30405	843	280	2833954	2837949	-1	None	EOS
16	PRSS33	ENSG00000103355	ENST00000571674	protein_coding	PUTATIVE	None	30405	709	235	2834945	2836606	-1	None	EOS
2	None	ENSG00000230650	ENST00000421567	processed_pseudogene	KNOWN	None	None	None	None	111118185	111121314	-1	None	None
11	None	ENSG00000255147	ENST00000531603	unprocessed_pseudogene	KNOWN	None	None	None	None	67516514	67524439	-1	None	None
20	SIGLEC1	ENSG00000088827	ENST00000419548	protein_coding	KNOWN	None	11127	1390	462	3667617	3673726	-1	SN	SIGLEC-1, CD169, FLJ00051, FLJ00055, FLJ00073, FLJ32150, dJ1009E24.1, sialoadhesin
20	SIGLEC1	ENSG00000088827	ENST00000344754	protein_coding	KNOWN	CCDS13060	11127	5130	1709	3667617	3687775	-1	SN	SIGLEC-1, CD169, FLJ00051, FLJ00055, FLJ00073, FLJ32150, dJ1009E24.1, sialoadhesin
20	SIGLEC1	ENSG00000088827	ENST00000202578	protein_coding	KNOWN	None	11127	5106	1701	3667619	3687775	-1	SN	SIGLEC-1, CD169, FLJ00051, FLJ00055, FLJ00073, FLJ32150, dJ1009E24.1, sialoadhesin
2	None	ENSG00000227308	ENST00000607654	lincRNA	KNOWN	None	None	None	None	220550103	220552067	1	None	None
2	None	ENSG00000227308	ENST00000606673	lincRNA	KNOWN	None	None	None	None	220550214	220602659	1	None	None
2	None	ENSG00000227308	ENST00000416861	lincRNA	KNOWN	None	None	None	None	220551709	220579408	1	None	None
2	None	ENSG00000227308	ENST00000442416	lincRNA	KNOWN	None	None	None	None	220594832	220602464	1	None	None
3	OR7E21P	ENSG00000251178	ENST00000514634	unprocessed_pseudogene	KNOWN	None	8393	None	None	129753396	129754382	-1	OR7E49P, OR7E127P	OR4DG, OST035
1	None	ENSG00000229687	ENST00000433953	processed_pseudogene	KNOWN	None	None	None	None	54307220	54307505	1	None	None
5	None	ENSG00000251158	ENST00000505635	unprocessed_pseudogene	KNOWN	None	None	None	None	69194694	69199025	-1	None	None
1	MIR765	ENSG00000211581	ENST00000390226	miRNA	KNOWN	None	33141	None	None	156905923	156906036	-1	MIRN765	hsa-mir-765
2	None	ENSG00000221179	ENST00000408252	miRNA	NOVEL	None	None	None	None	80471748	80471843	1	None	None
21	KRTAP10-6	ENSG00000188155	ENST00000400368	protein_coding	KNOWN	CCDS42959	20523	1098	365	46011149	46012386	-1	KRTAP18-6	KRTAP18.6, KAP18.6, KAP10.6
3	None	ENSG00000253049	ENST00000517240	snoRNA	NOVEL	None	None	None	None	3144597	3144699	1	None	None
3	PDCL3P3	ENSG00000214286	ENST00000417487	processed_pseudogene	KNOWN	None	44504	None	None	17918947	17919661	-1	None	None
1	RN7SL612P	ENSG00000266160	ENST00000497704	misc_RNA	KNOWN	None	46628	None	None	156955549	156955841	-1	None	None
17	TMEM97	ENSG00000109084	ENST00000226230	protein_coding	KNOWN	CCDS11226	28106	531	176	26646121	26655707	1	None	MAC30
17	TMEM97	ENSG00000109084	ENST00000583381	protein_coding	PUTATIVE	None	28106	210	69	26646228	26653901	1	None	MAC30
17	TMEM97	ENSG00000109084	ENST00000582113	protein_coding	PUTATIVE	None	28106	279	92	26646232	26652861	1	None	MAC30
17	TMEM97	ENSG00000109084	ENST00000582384	protein_coding	NOVEL	None	28106	357	118	26646295	26654537	1	None	MAC30
17	TMEM97	ENSG00000109084	ENST00000336687	protein_coding	PUTATIVE	None	28106	210	69	26646481	26655251	1	None	MAC30
12	CHCHD3P2	ENSG00000257723	ENST00000550751	processed_pseudogene	KNOWN	None	44698	None	None	73004458	73005096	1	None	None
3	None	ENSG00000226238	ENST00000449613	lincRNA	KNOWN	None	None	None	None	18031515	18037036	1	None	None
2	None	ENSG00000237031	ENST00000430876	antisense	KNOWN	None	None	None	None	80802238	80843663	-1	None	None
2	None	ENSG00000237031	ENST00000596887	antisense	KNOWN	None	None	None	None	80806022	80832758	-1	None	None
2	None	ENSG00000237031	ENST00000595478	antisense	KNOWN	None	None	None	None	80813394	80832759	-1	None	None
2	None	ENSG00000237031	ENST00000599412	antisense	KNOWN	None	None	None	None	80830701	80832759	-1	None	None
2	None	ENSG00000237031	ENST00000596783	antisense	KNOWN	None	None	None	None	80830838	80832759	-1	None	None
HSCHR6_MHC_QBL	HLA-F-AS1	ENSG00000251197	ENST00000434769	unprocessed_pseudogene	KNOWN	None	26645	None	None	29706972	29714212	-1	None	None
1	None	ENSG00000237842	ENST00000379752	processed_pseudogene	KNOWN	None	None	None	None	157029024	157030554	-1	None	None
5	CDH12P2	ENSG00000249230	ENST00000504393	unprocessed_pseudogene	KNOWN	None	1752	None	None	69281031	69281328	-1	CDH12P	C41-CAD
12	TAC3	ENSG00000166863	ENST00000357616	nonsense_mediated_decay	KNOWN	None	11521	408	135	57403784	57410322	-1	NKNB	ZNEUROK1, NKB
12	TAC3	ENSG00000166863	ENST00000458521	protein_coding	KNOWN	CCDS8928	11521	366	121	57403784	57410325	-1	NKNB	ZNEUROK1, NKB
12	TAC3	ENSG00000166863	ENST00000438756	nonsense_mediated_decay	KNOWN	None	11521	408	135	57403794	57410304	-1	NKNB	ZNEUROK1, NKB
12	TAC3	ENSG00000166863	ENST00000393867	nonsense_mediated_decay	KNOWN	None	11521	408	135	57403794	57410304	-1	NKNB	ZNEUROK1, NKB
12	TAC3	ENSG00000166863	ENST00000379411	nonsense_mediated_decay	KNOWN	CCDS53803	11521	312	103	57403794	57410304	-1	NKNB	ZNEUROK1, NKB
12	TAC3	ENSG00000166863	ENST00000441881	protein_coding	KNOWN	CCDS53803	11521	312	103	57403794	57410304	-1	NKNB	ZNEUROK1, NKB
12	TAC3	ENSG00000166863	ENST00000423597	nonsense_mediated_decay	KNOWN	CCDS53803	11521	312	103	57403794	57410304	-1	NKNB	ZNEUROK1, NKB
12	TAC3	ENSG00000166863	ENST00000300108	nonsense_mediated_decay	KNOWN	CCDS8928	11521	366	121	57403794	57410304	-1	NKNB	ZNEUROK1, NKB
12	TAC3	ENSG00000166863	ENST00000415231	protein_coding	KNOWN	CCDS8928	11521	366	121	57406162	57422667	-1	NKNB	ZNEUROK1, NKB
12	TAC3	ENSG00000166863	ENST00000496757	retained_intron	KNOWN	None	11521	None	None	57406951	57410313	-1	NKNB	ZNEUROK1, NKB
21	KRTAP10-7	ENSG00000205441	ENST00000380102	protein_coding	KNOWN	None	22970	1128	375	46020497	46022091	1	KRTAP18-7	KAP10.7, KAP18.7
2	NEU2	ENSG00000115488	ENST00000233840	protein_coding	KNOWN	CCDS2501	7759	1143	380	233897382	233899767	1	None	SIAL2
12	None	ENSG00000258235	ENST00000547563	lincRNA	KNOWN	None	None	None	None	73121703	73122624	-1	None	None
12	None	ENSG00000258317	ENST00000550947	antisense	KNOWN	None	None	None	None	56513817	56523403	-1	None	None
12	None	ENSG00000258317	ENST00000549438	antisense	KNOWN	None	None	None	None	56514474	56522638	-1	None	None
2	KCNK3	ENSG00000171303	ENST00000302909	protein_coding	KNOWN	CCDS1727	6278	1185	394	26915619	26956288	1	None	K2p3.1, TASK, TASK-1
11	None	ENSG00000254861	ENST00000525512	lincRNA	KNOWN	None	None	None	None	23782876	23826144	-1	None	None
1	HNRNPA3P12	ENSG00000219102	ENST00000437410	processed_pseudogene	KNOWN	None	48758	None	None	54440642	54441704	-1	None	None
12	None	ENSG00000257899	ENST00000548905	processed_pseudogene	KNOWN	None	None	None	None	37938087	37938386	-1	None	None
5	RN7SL9P	ENSG00000265577	ENST00000584813	misc_RNA	KNOWN	None	46025	None	None	69370673	69370944	1	None	None
1	DNAJA1P5	ENSG00000162699	ENST00000440278	processed_pseudogene	KNOWN	None	39341	None	None	102358661	102359603	1	None	None
2	None	ENSG00000223903	ENST00000442836	processed_pseudogene	KNOWN	None	None	None	None	220562521	220562936	1	None	None
4	None	ENSG00000250971	ENST00000507776	lincRNA	KNOWN	None	None	None	None	187981253	187982084	1	None	None
11	None	ENSG00000255519	ENST00000533158	processed_pseudogene	KNOWN	None	None	None	None	45535737	45536001	1	None	None
3	None	ENSG00000243885	ENST00000462931	lincRNA	KNOWN	None	None	None	None	149101966	149103587	-1	None	None
5	None	ENSG00000248757	ENST00000503367	lincRNA	KNOWN	None	None	None	None	102865377	102877686	-1	None	None
3	None	ENSG00000272477	ENST00000607148	sense_intronic	KNOWN	None	None	None	None	18450172	18451127	-1	None	None
5	None	ENSG00000179978	ENST00000511830	unprocessed_pseudogene	KNOWN	None	None	None	None	69390486	69424261	-1	None	None
5	None	ENSG00000179978	ENST00000540302	unprocessed_pseudogene	KNOWN	None	None	None	None	69390202	69405354	-1	None	None
4	RN7SKP215	ENSG00000251827	ENST00000516018	misc_RNA	KNOWN	None	45939	None	None	47813481	47813652	-1	None	None
2	None	ENSG00000230975	ENST00000450290	lincRNA	KNOWN	None	None	None	None	80926513	81097315	-1	None	None
1	KRT8P45	ENSG00000224520	ENST00000414328	processed_pseudogene	KNOWN	None	39879	None	None	157043049	157044495	1	None	None
1	None	ENSG00000197015	ENST00000358975	pseudogene	NOVEL	None	None	None	None	54481327	54481616	1	None	None
11	RNU6-783P	ENSG00000252519	ENST00000516710	snRNA	KNOWN	None	47746	None	None	23871324	23871428	1	None	None
21	KRTAP10-8	ENSG00000187766	ENST00000334662	protein_coding	KNOWN	CCDS13713	20525	780	259	46031996	46032871	1	KRTAP18-8	KRTAP18.8, KAP10.8
4	None	ENSG00000259959	ENST00000563286	lincRNA	KNOWN	None	None	None	None	47842139	47846356	-1	None	None
3	None	ENSG00000251610	ENST00000503722	unprocessed_pseudogene	KNOWN	None	None	None	None	129774567	129774763	-1	None	None
12	None	ENSG00000216084	ENST00000401265	miRNA	NOVEL	None	None	None	None	73184231	73184425	-1	None	None
3	LINC00971	ENSG00000242641	ENST00000484892	lincRNA	KNOWN	None	48737	None	None	84687557	84918726	-1	None	None
3	LINC00971	ENSG00000242641	ENST00000482721	lincRNA	KNOWN	None	48737	None	None	84851600	84918779	-1	None	None
3	LINC00971	ENSG00000242641	ENST00000491849	lincRNA	KNOWN	None	48737	None	None	84917279	84930830	-1	None	None
1	None	ENSG00000272091	ENST00000606641	lincRNA	KNOWN	None	None	None	None	54492356	54494172	-1	None	None
16	None	ENSG00000261093	ENST00000562166	antisense	KNOWN	None	None	None	None	2647882	2649719	-1	None	None
13	None	ENSG00000270008	ENST00000461502	processed_transcript	KNOWN	None	None	None	None	32999495	33007091	-1	None	None
3	RPL18AP7	ENSG00000232439	ENST00000435924	processed_pseudogene	KNOWN	None	35607	None	None	38568293	38568816	-1	None	None
19	ZNF625-ZNF20	ENSG00000213297	ENST00000430024	nonsense_mediated_decay	KNOWN	None	48368	378	125	12242932	12267546	-1	None	None
19	ZNF625-ZNF20	ENSG00000213297	ENST00000434822	nonsense_mediated_decay	KNOWN	None	48368	186	61	12251032	12267546	-1	None	None
2	None	ENSG00000234429	ENST00000378334	processed_pseudogene	KNOWN	None	None	None	None	81421461	81428308	-1	None	None
1	None	ENSG00000203276	ENST00000327057	pseudogene	KNOWN	None	None	None	None	54498816	54500553	-1	None	None
10	None	ENSG00000230809	ENST00000431996	processed_pseudogene	KNOWN	None	None	None	None	113257949	113258699	-1	None	None
2	None	ENSG00000228909	ENST00000438659	lincRNA	KNOWN	None	None	None	None	220768772	220769610	-1	None	None
16	None	ENSG00000215154	ENST00000399702	processed_transcript	KNOWN	None	None	None	None	2653351	2680495	1	None	None
16	None	ENSG00000215154	ENST00000566272	processed_transcript	KNOWN	None	None	None	None	2653421	2664069	1	None	None
16	None	ENSG00000215154	ENST00000567242	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	2653475	2664072	1	None	None
12	None	ENSG00000258294	ENST00000551135	lincRNA	KNOWN	None	None	None	None	73509737	73537636	-1	None	None
12	None	ENSG00000258294	ENST00000552541	lincRNA	KNOWN	None	None	None	None	73509789	73522942	-1	None	None
12	None	ENSG00000258294	ENST00000552840	lincRNA	KNOWN	None	None	None	None	73510275	73537638	-1	None	None
12	None	ENSG00000258294	ENST00000551934	retained_intron	KNOWN	None	None	None	None	73522765	73537634	-1	None	None
21	KRTAP10-9	ENSG00000221837	ENST00000484861	processed_transcript	KNOWN	None	22971	None	None	46047040	46048210	1	KRTAP18-9	KAP10.9, KAP18.9
21	KRTAP10-9	ENSG00000221837	ENST00000397911	protein_coding	KNOWN	CCDS42961	22971	879	292	46047040	46048294	1	KRTAP18-9	KAP10.9, KAP18.9
1	None	ENSG00000233359	ENST00000447916	lincRNA	KNOWN	None	None	None	None	102665295	102855186	-1	None	None
13	ATP8A2P2	ENSG00000229800	ENST00000437678	processed_pseudogene	KNOWN	None	39663	None	None	33051411	33052978	1	None	None
2	None	ENSG00000175772	ENST00000436665	lincRNA	KNOWN	None	None	None	None	111132715	111142019	-1	None	None
2	None	ENSG00000175772	ENST00000448359	lincRNA	KNOWN	None	None	None	None	111132733	111140810	-1	None	None
4	None	ENSG00000221764	ENST00000408837	miRNA	NOVEL	None	None	None	None	47978233	47978344	1	None	None
3	TRIM42	ENSG00000155890	ENST00000286349	protein_coding	KNOWN	CCDS3113	19014	2172	723	140396881	140419992	1	None	FLJ40097, PPP1R40
1	None	ENSG00000224260	ENST00000424696	lincRNA	KNOWN	None	None	None	None	209701800	209741018	-1	None	None
1	None	ENSG00000224260	ENST00000453331	lincRNA	KNOWN	None	None	None	None	209701886	209720925	-1	None	None
1	MIR4781	ENSG00000264208	ENST00000585250	miRNA	KNOWN	None	41769	None	None	54519752	54519827	1	None	hsa-mir-4781
11	SPATA19	ENSG00000166118	ENST00000299140	protein_coding	KNOWN	CCDS8493	30614	504	167	133710526	133715396	-1	None	FLJ25851, spergen1, SPAS1, CT132
11	SPATA19	ENSG00000166118	ENST00000532889	protein_coding	KNOWN	CCDS8493	30614	504	167	133710657	133715433	-1	None	FLJ25851, spergen1, SPAS1, CT132
3	EEF1A1P8	ENSG00000223529	ENST00000419025	processed_pseudogene	KNOWN	None	3203	None	None	183744157	183745544	-1	EEF1AL6	None
HSCHR9_1_CTG1	RPL4P5	ENSG00000263127	ENST00000571381	processed_pseudogene	KNOWN	None	35699	None	None	7491857	7493132	-1	None	None
4	RNU6-838P	ENSG00000200269	ENST00000363399	snRNA	KNOWN	None	47801	None	None	48108098	48108205	-1	None	None
6	UBR2	ENSG00000024048	ENST00000372903	protein_coding	KNOWN	CCDS55001	21289	1320	439	42531800	42588089	1	C6orf133	bA49A4.1, dJ392M17.3, KIAA0349
6	UBR2	ENSG00000024048	ENST00000372899	protein_coding	KNOWN	CCDS4870	21289	5268	1755	42531800	42661242	1	C6orf133	bA49A4.1, dJ392M17.3, KIAA0349
6	UBR2	ENSG00000024048	ENST00000372901	protein_coding	KNOWN	None	21289	5268	1755	42531800	42661242	1	C6orf133	bA49A4.1, dJ392M17.3, KIAA0349
6	UBR2	ENSG00000024048	ENST00000372883	protein_coding	KNOWN	None	21289	1728	575	42584855	42659012	1	C6orf133	bA49A4.1, dJ392M17.3, KIAA0349
2	None	ENSG00000231722	ENST00000436549	processed_pseudogene	KNOWN	None	None	None	None	81645847	81646426	-1	None	None
12	None	ENSG00000257253	ENST00000547902	lincRNA	KNOWN	None	None	None	None	50254990	50259528	1	None	None
1	None	ENSG00000225183	ENST00000444055	processed_pseudogene	KNOWN	None	None	None	None	54555529	54555766	1	None	None
3	ALG1L2	ENSG00000251287	ENST00000503500	processed_transcript	KNOWN	None	37258	None	None	129800674	129816069	1	None	None
3	ALG1L2	ENSG00000251287	ENST00000507643	processed_transcript	KNOWN	None	37258	None	None	129800804	129817233	1	None	None
3	ALG1L2	ENSG00000251287	ENST00000506370	transcribed_unprocessed_pseudogene	KNOWN	None	37258	None	None	129807872	129817202	1	None	None
3	ALG1L2	ENSG00000251287	ENST00000511726	processed_transcript	PUTATIVE	None	37258	None	None	129812749	129832070	1	None	None
3	ALG1L2	ENSG00000251287	ENST00000425059	unprocessed_pseudogene	KNOWN	None	37258	None	None	129800674	129817233	1	None	None
10	None	ENSG00000226209	ENST00000429930	protein_coding	NOVEL	None	None	303	100	13350145	13350447	-1	None	None
1	None	ENSG00000230864	ENST00000414418	lincRNA	KNOWN	None	None	None	None	103228878	103319398	-1	None	None
11	None	ENSG00000206913	ENST00000384186	snoRNA	NOVEL	None	None	None	None	73963459	73963597	-1	None	None
2	None	ENSG00000235519	ENST00000446580	lincRNA	KNOWN	None	None	None	None	81689819	81694070	-1	None	None
HSCHR6_MHC_APD	HSPA1L	ENSG00000226704	ENST00000426095	protein_coding	KNOWN	None	5234	1926	641	31788760	31794206	-1	None	HSP70-HOM, hum70t
21	KRTAP10-10	ENSG00000221859	ENST00000380095	protein_coding	KNOWN	CCDS33585	22972	756	251	46057273	46058370	1	None	KAP10.10, KAP18.10, KRTAP18-10
HG14_PATCH	ZNF716	ENSG00000260355	ENST00000570211	protein_coding	KNOWN	None	32458	1488	495	57517884	57541253	1	None	FLJ46189
1	None	ENSG00000237611	ENST00000422908	pseudogene	NOVEL	None	None	None	None	54565641	54565897	-1	None	None
1	CYCSP52	ENSG00000235700	ENST00000422857	processed_pseudogene	KNOWN	None	24393	None	None	157098154	157098463	1	None	HCP2, HC6
3	None	ENSG00000239482	ENST00000498032	lincRNA	KNOWN	None	None	None	None	112021325	112051638	1	None	None
3	None	ENSG00000239482	ENST00000607456	lincRNA	KNOWN	None	None	None	None	112025968	112049171	1	None	None
2	MIR4268	ENSG00000266518	ENST00000581624	miRNA	KNOWN	None	38352	None	None	220771223	220771286	-1	None	hsa-mir-4268
13	RN7SL60P	ENSG00000243366	ENST00000476209	misc_RNA	KNOWN	None	46076	None	None	99324234	99324529	1	None	None
2	RNA5SP99	ENSG00000200890	ENST00000364020	rRNA	KNOWN	None	42897	None	None	81723338	81723451	-1	RN5S99	None
2	None	ENSG00000226065	ENST00000452245	processed_pseudogene	KNOWN	None	None	None	None	111140689	111142219	1	None	None
HSCHR6_MHC_QBL	HCG9P5	ENSG00000236619	ENST00000412677	unprocessed_pseudogene	KNOWN	None	30983	None	None	29713532	29713756	1	None	HCGIX-5, dJ377H14.6
1	None	ENSG00000229961	ENST00000457239	lincRNA	KNOWN	None	None	None	None	157155178	157157195	1	None	None
3	None	ENSG00000228956	ENST00000414198	antisense	KNOWN	None	None	None	None	18486516	18568000	1	None	None
3	None	ENSG00000228956	ENST00000598149	antisense	KNOWN	None	None	None	None	18486729	18511194	1	None	None
3	None	ENSG00000228956	ENST00000438418	retained_intron	KNOWN	None	None	None	None	18504172	18505831	1	None	None
3	None	ENSG00000228956	ENST00000593741	antisense	KNOWN	None	None	None	None	18505822	18571886	1	None	None
3	None	ENSG00000228956	ENST00000598740	antisense	KNOWN	None	None	None	None	18507475	18569130	1	None	None
3	None	ENSG00000228956	ENST00000596850	antisense	KNOWN	None	None	None	None	18507475	18571541	1	None	None
3	None	ENSG00000228956	ENST00000596277	antisense	KNOWN	None	None	None	None	18507475	18576254	1	None	None
3	None	ENSG00000228956	ENST00000598498	antisense	KNOWN	None	None	None	None	18507475	18576389	1	None	None
3	None	ENSG00000228956	ENST00000598688	antisense	KNOWN	None	None	None	None	18507475	18576516	1	None	None
3	None	ENSG00000228956	ENST00000456253	antisense	KNOWN	None	None	None	None	18507475	18627254	1	None	None
3	None	ENSG00000228956	ENST00000595250	antisense	KNOWN	None	None	None	None	18507475	18627254	1	None	None
3	None	ENSG00000228956	ENST00000596307	antisense	KNOWN	None	None	None	None	18507475	18633229	1	None	None
3	None	ENSG00000228956	ENST00000595865	antisense	KNOWN	None	None	None	None	18507475	18633262	1	None	None
3	None	ENSG00000228956	ENST00000598390	antisense	KNOWN	None	None	None	None	18507475	18633476	1	None	None
3	None	ENSG00000228956	ENST00000599762	antisense	KNOWN	None	None	None	None	18507475	18645733	1	None	None
3	None	ENSG00000228956	ENST00000595388	antisense	KNOWN	None	None	None	None	18507475	18805551	1	None	None
3	None	ENSG00000228956	ENST00000593444	antisense	KNOWN	None	None	None	None	18507484	18571646	1	None	None
3	None	ENSG00000228956	ENST00000596152	antisense	KNOWN	None	None	None	None	18567888	18666919	1	None	None
3	None	ENSG00000228956	ENST00000600177	antisense	KNOWN	None	None	None	None	18568664	18648676	1	None	None
3	None	ENSG00000228956	ENST00000596139	antisense	KNOWN	None	None	None	None	18568664	18648679	1	None	None
3	None	ENSG00000228956	ENST00000425799	antisense	KNOWN	None	None	None	None	18735379	18959184	1	None	None
3	None	ENSG00000228956	ENST00000453361	antisense	KNOWN	None	None	None	None	18787236	18788983	1	None	None
1	None	ENSG00000225632	ENST00000426901	antisense	KNOWN	None	None	None	None	54751078	54753044	1	None	None
1	SOD2P1	ENSG00000234257	ENST00000396543	processed_pseudogene	KNOWN	None	45268	None	None	103565699	103566260	-1	None	None
17	None	ENSG00000263508	ENST00000581910	lincRNA	KNOWN	None	None	None	None	10752858	10784212	1	None	None
17	None	ENSG00000263508	ENST00000585243	lincRNA	KNOWN	None	None	None	None	10781510	10784212	1	None	None
13	DOCK9-AS1	ENSG00000229918	ENST00000439367	antisense	KNOWN	None	40672	None	None	99484338	99486883	1	None	None
9	None	ENSG00000224615	ENST00000443514	processed_pseudogene	KNOWN	None	None	None	None	46390070	46390277	-1	None	None
2	None	ENSG00000233444	ENST00000426710	processed_pseudogene	KNOWN	None	None	None	None	81893601	81893852	-1	None	None
2	None	ENSG00000225911	ENST00000414414	processed_pseudogene	KNOWN	None	None	None	None	220913543	220913993	-1	None	None
4	None	ENSG00000249747	ENST00000515222	lincRNA	KNOWN	None	None	None	None	188123140	188130500	1	None	None
4	None	ENSG00000249747	ENST00000503637	lincRNA	KNOWN	None	None	None	None	188123187	188124768	1	None	None
1	None	ENSG00000228239	ENST00000449345	lincRNA	KNOWN	None	None	None	None	157202021	157206926	-1	None	None
3	None	ENSG00000271870	ENST00000607052	antisense	KNOWN	None	None	None	None	3194626	3195119	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000265105	ENST00000577452	misc_RNA	NOVEL	None	None	None	None	29715613	29715714	1	None	None
9	None	ENSG00000231995	ENST00000436561	processed_pseudogene	KNOWN	None	None	None	None	46577620	46578220	1	None	None
21	KRTAP10-11	ENSG00000243489	ENST00000334670	protein_coding	KNOWN	CCDS42962	20528	897	298	46066331	46067564	1	KRTAP18-11	KRTAP18.11, KAP18.11, KAP10.11
HG306_PATCH	None	ENSG00000263285	ENST00000571997	snRNA	NOVEL	None	None	None	None	112848075	112848142	1	None	None
9	HAUS6	ENSG00000147874	ENST00000380502	protein_coding	KNOWN	CCDS6489	25948	2868	955	19053141	19103117	-1	FAM29A	FLJ20060, KIAA1574, dgt6
9	HAUS6	ENSG00000147874	ENST00000380496	protein_coding	KNOWN	None	25948	2409	802	19056616	19093211	-1	FAM29A	FLJ20060, KIAA1574, dgt6
9	HAUS6	ENSG00000147874	ENST00000415524	protein_coding	KNOWN	None	25948	551	182	19058762	19065082	-1	FAM29A	FLJ20060, KIAA1574, dgt6
14	RNU6-976P	ENSG00000251895	ENST00000516086	snRNA	KNOWN	None	47939	None	None	85206286	85206396	1	None	None
1	None	ENSG00000232245	ENST00000447150	lincRNA	KNOWN	None	None	None	None	54881929	54886533	1	None	None
13	RPL7L1P12	ENSG00000231981	ENST00000417594	processed_pseudogene	KNOWN	None	39811	None	None	99601973	99602701	-1	None	None
17	RNU6-1065P	ENSG00000207242	ENST00000384513	snRNA	KNOWN	None	48028	None	None	10761216	10761321	-1	None	None
19	KIAA0355	ENSG00000166398	ENST00000299505	protein_coding	KNOWN	CCDS12436	29016	3213	1070	34745442	34846491	1	None	None
19	KIAA0355	ENSG00000166398	ENST00000588470	protein_coding	PUTATIVE	None	29016	233	76	34745457	34810921	1	None	None
19	KIAA0355	ENSG00000166398	ENST00000589583	protein_coding	KNOWN	None	29016	94	30	34745486	34791472	1	None	None
19	KIAA0355	ENSG00000166398	ENST00000588338	protein_coding	PUTATIVE	None	29016	94	30	34745502	34843736	1	None	None
19	KIAA0355	ENSG00000166398	ENST00000592124	processed_transcript	KNOWN	None	29016	None	None	34756463	34791375	1	None	None
19	KIAA0355	ENSG00000166398	ENST00000585833	processed_transcript	KNOWN	None	29016	None	None	34756473	34790989	1	None	None
19	KIAA0355	ENSG00000166398	ENST00000588974	retained_intron	KNOWN	None	29016	None	None	34839367	34844093	1	None	None
HSCHR6_MHC_QBL	IFITM4P	ENSG00000230722	ENST00000434590	processed_pseudogene	KNOWN	None	21669	None	None	29715969	29716389	-1	None	dJ377H14.5
2	RN7SL201P	ENSG00000242118	ENST00000482306	misc_RNA	KNOWN	None	46217	None	None	82194203	82194496	1	None	None
1	None	ENSG00000271736	ENST00000607010	lincRNA	KNOWN	None	None	None	None	157250506	157252858	1	None	None
15	None	ENSG00000259255	ENST00000559148	lincRNA	KNOWN	None	None	None	None	46985486	47097042	1	None	None
11	None	ENSG00000254444	ENST00000529961	sense_overlapping	KNOWN	None	None	None	None	6129365	6206806	-1	None	None
3	None	ENSG00000233576	ENST00000445553	unprocessed_pseudogene	KNOWN	None	None	None	None	183794567	183802007	1	None	None
1	None	ENSG00000265404	ENST00000577877	miRNA	NOVEL	None	None	None	None	54970341	54970443	1	None	None
2	KANSL3	ENSG00000114982	ENST00000354204	nonsense_mediated_decay	KNOWN	None	25473	219	72	97258907	97304083	-1	KIAA1310	FLJ10081, Rcd1, NSL3
2	KANSL3	ENSG00000114982	ENST00000447759	nonsense_mediated_decay	KNOWN	None	25473	282	93	97258909	97297221	-1	KIAA1310	FLJ10081, Rcd1, NSL3
2	KANSL3	ENSG00000114982	ENST00000487070	processed_transcript	KNOWN	None	25473	None	None	97258909	97303757	-1	KIAA1310	FLJ10081, Rcd1, NSL3
2	KANSL3	ENSG00000114982	ENST00000431828	protein_coding	KNOWN	CCDS46361	25473	2637	878	97258909	97304046	-1	KIAA1310	FLJ10081, Rcd1, NSL3
2	KANSL3	ENSG00000114982	ENST00000420155	nonsense_mediated_decay	KNOWN	None	25473	2343	780	97258911	97304068	-1	KIAA1310	FLJ10081, Rcd1, NSL3
2	KANSL3	ENSG00000114982	ENST00000481986	processed_transcript	KNOWN	None	25473	None	None	97260896	97263890	-1	KIAA1310	FLJ10081, Rcd1, NSL3
2	KANSL3	ENSG00000114982	ENST00000484020	retained_intron	KNOWN	None	25473	None	None	97261200	97267648	-1	KIAA1310	FLJ10081, Rcd1, NSL3
2	KANSL3	ENSG00000114982	ENST00000597150	nonsense_mediated_decay	KNOWN	None	25473	465	154	97261249	97304057	-1	KIAA1310	FLJ10081, Rcd1, NSL3
2	KANSL3	ENSG00000114982	ENST00000444759	nonsense_mediated_decay	KNOWN	None	25473	465	154	97261323	97304115	-1	KIAA1310	FLJ10081, Rcd1, NSL3
2	KANSL3	ENSG00000114982	ENST00000476534	retained_intron	KNOWN	None	25473	None	None	97269037	97272571	-1	KIAA1310	FLJ10081, Rcd1, NSL3
2	KANSL3	ENSG00000114982	ENST00000488907	retained_intron	KNOWN	None	25473	None	None	97276079	97278272	-1	KIAA1310	FLJ10081, Rcd1, NSL3
2	KANSL3	ENSG00000114982	ENST00000425656	nonsense_mediated_decay	KNOWN	None	25473	219	72	97276463	97302965	-1	KIAA1310	FLJ10081, Rcd1, NSL3
2	KANSL3	ENSG00000114982	ENST00000452268	nonsense_mediated_decay	KNOWN	None	25473	231	76	97276463	97304068	-1	KIAA1310	FLJ10081, Rcd1, NSL3
2	KANSL3	ENSG00000114982	ENST00000448075	protein_coding	PUTATIVE	None	25473	518	171	97277969	97304061	-1	KIAA1310	FLJ10081, Rcd1, NSL3
2	KANSL3	ENSG00000114982	ENST00000451819	nonsense_mediated_decay	KNOWN	None	25473	399	132	97278554	97302929	-1	KIAA1310	FLJ10081, Rcd1, NSL3
2	KANSL3	ENSG00000114982	ENST00000416138	nonsense_mediated_decay	KNOWN	None	25473	228	75	97278609	97304111	-1	KIAA1310	FLJ10081, Rcd1, NSL3
2	KANSL3	ENSG00000114982	ENST00000418735	nonsense_mediated_decay	KNOWN	None	25473	204	67	97278612	97308524	-1	KIAA1310	FLJ10081, Rcd1, NSL3
2	KANSL3	ENSG00000114982	ENST00000464738	processed_transcript	KNOWN	None	25473	None	None	97279263	97285499	-1	KIAA1310	FLJ10081, Rcd1, NSL3
2	KANSL3	ENSG00000114982	ENST00000475820	processed_transcript	KNOWN	None	25473	None	None	97297075	97303797	-1	KIAA1310	FLJ10081, Rcd1, NSL3
2	KANSL3	ENSG00000114982	ENST00000478492	retained_intron	KNOWN	None	25473	None	None	97302476	97304115	-1	KIAA1310	FLJ10081, Rcd1, NSL3
2	KANSL3	ENSG00000114982	ENST00000441706	protein_coding	KNOWN	None	25473	1593	530	97259000	97304115	-1	KIAA1310	FLJ10081, Rcd1, NSL3
2	KANSL3	ENSG00000114982	ENST00000599854	protein_coding	KNOWN	None	25473	2376	791	97258939	97304115	-1	KIAA1310	FLJ10081, Rcd1, NSL3
2	KANSL3	ENSG00000114982	ENST00000440133	protein_coding	KNOWN	None	25473	2097	698	97261249	97304057	-1	KIAA1310	FLJ10081, Rcd1, NSL3
2	KANSL3	ENSG00000114982	ENST00000435669	protein_coding	KNOWN	None	25473	426	141	97281258	97304053	-1	KIAA1310	FLJ10081, Rcd1, NSL3
17	RPL15P21	ENSG00000244753	ENST00000495592	processed_pseudogene	KNOWN	None	36190	None	None	10763852	10764779	-1	None	None
1	None	ENSG00000237189	ENST00000434098	lincRNA	KNOWN	None	None	None	None	157257493	157257843	-1	None	None
11	None	ENSG00000246211	ENST00000502071	lincRNA	KNOWN	None	None	None	None	74022407	74035750	1	None	None
2	None	ENSG00000231781	ENST00000455845	lincRNA	KNOWN	None	None	None	None	82210396	82232824	-1	None	None
1	None	ENSG00000235741	ENST00000433377	lincRNA	KNOWN	None	None	None	None	54982085	54982932	-1	None	None
4	None	ENSG00000250658	ENST00000511385	lincRNA	KNOWN	None	None	None	None	188225237	188230836	-1	None	None
14	None	ENSG00000258506	ENST00000556574	processed_pseudogene	KNOWN	None	None	None	None	85417618	85417717	1	None	None
12	BHLHE41	ENSG00000123095	ENST00000242728	protein_coding	KNOWN	CCDS8706	16617	1449	482	26272959	26278060	-1	BHLHB3	DEC2, SHARP-1, SHARP1, bHLHe41
12	BHLHE41	ENSG00000123095	ENST00000394326	retained_intron	KNOWN	None	16617	None	None	26275891	26276701	-1	BHLHB3	DEC2, SHARP-1, SHARP1, bHLHe41
12	BHLHE41	ENSG00000123095	ENST00000541271	retained_intron	KNOWN	None	16617	None	None	26276921	26277832	-1	BHLHB3	DEC2, SHARP-1, SHARP1, bHLHe41
21	KRTAP12-4	ENSG00000212933	ENST00000391618	protein_coding	KNOWN	CCDS42963	20532	339	112	46074130	46074576	-1	None	KRTAP12.4
11	None	ENSG00000254514	ENST00000525926	lincRNA	KNOWN	None	None	None	None	45604075	45605024	1	None	None
17	None	ENSG00000221701	ENST00000408774	miRNA	NOVEL	None	None	None	None	10957105	10957252	1	None	None
1	None	ENSG00000237173	ENST00000444140	processed_pseudogene	KNOWN	None	None	None	None	54990497	54990604	1	None	None
6	TRIM15	ENSG00000204610	ENST00000376694	protein_coding	KNOWN	CCDS4677	16284	1398	465	30130993	30140473	1	ZNF178	ZNFB7, RNF93
6	TRIM15	ENSG00000204610	ENST00000433744	protein_coding	KNOWN	None	16284	491	162	30136090	30139732	1	ZNF178	ZNFB7, RNF93
6	TRIM15	ENSG00000204610	ENST00000477944	retained_intron	KNOWN	None	16284	None	None	30138090	30138874	1	ZNF178	ZNFB7, RNF93
6	TRIM15	ENSG00000204610	ENST00000376688	protein_coding	KNOWN	None	16284	348	115	30131462	30140384	1	ZNF178	ZNFB7, RNF93
7	None	ENSG00000239815	ENST00000461420	lincRNA	KNOWN	None	None	None	None	128506633	128508898	1	None	None
1	None	ENSG00000236731	ENST00000445687	unprocessed_pseudogene	KNOWN	None	None	None	None	157599729	157600518	-1	None	None
1	None	ENSG00000232753	ENST00000424955	lincRNA	KNOWN	None	None	None	None	103817769	103828355	1	None	None
17	RN7SL601P	ENSG00000243346	ENST00000471221	misc_RNA	KNOWN	None	46617	None	None	11060772	11061062	1	None	None
12	None	ENSG00000257933	ENST00000551447	processed_pseudogene	KNOWN	None	None	None	None	37938409	37938600	1	None	None
1	None	ENSG00000252646	ENST00000516837	snoRNA	NOVEL	None	None	None	None	54991059	54991126	1	None	None
9	None	ENSG00000231212	ENST00000438072	lincRNA	KNOWN	None	None	None	None	46661242	46662593	-1	None	None
9	None	ENSG00000231212	ENST00000448491	lincRNA	KNOWN	None	None	None	None	46661444	46662837	-1	None	None
5	None	ENSG00000251026	ENST00000514769	lincRNA	KNOWN	None	None	None	None	103415612	103441104	1	None	None
17	None	ENSG00000253002	ENST00000517193	miRNA	NOVEL	None	None	None	None	11170622	11170696	-1	None	None
13	RNU6-83P	ENSG00000207298	ENST00000384568	snRNA	KNOWN	None	42573	None	None	99677488	99677599	1	RNU6-83	None
21	KRTAP12-3	ENSG00000205439	ENST00000397907	protein_coding	KNOWN	CCDS42964	20531	291	96	46077849	46078258	1	None	KRTAP12.3
1	HNRNPA1P63	ENSG00000227453	ENST00000427917	processed_pseudogene	KNOWN	None	48793	None	None	55002469	55003431	1	None	None
2	None	ENSG00000229560	ENST00000436977	processed_pseudogene	KNOWN	None	None	None	None	82495551	82497051	-1	None	None
12	None	ENSG00000255356	ENST00000533382	processed_pseudogene	KNOWN	None	None	None	None	8049204	8049552	-1	None	None
3	None	ENSG00000240246	ENST00000469993	processed_pseudogene	KNOWN	None	None	None	None	149150831	149151061	-1	None	None
17	None	ENSG00000264727	ENST00000577346	lincRNA	KNOWN	None	None	None	None	11191522	11194128	1	None	None
11	ALG1L8P	ENSG00000227620	ENST00000533887	unprocessed_pseudogene	KNOWN	None	44377	None	None	67552744	67559806	1	None	None
8	None	ENSG00000253817	ENST00000517826	processed_pseudogene	KNOWN	None	None	None	None	48109655	48109946	-1	None	None
13	DOCK9-AS2	ENSG00000260992	ENST00000562781	antisense	KNOWN	None	43696	None	None	99740073	99740879	1	None	None
17	DNAI2	ENSG00000171595	ENST00000582036	protein_coding	KNOWN	CCDS58589	18744	1782	593	72270386	72311023	1	None	CILD9, DIC2
17	DNAI2	ENSG00000171595	ENST00000579055	nonsense_mediated_decay	KNOWN	None	18744	507	168	72270395	72311023	1	None	CILD9, DIC2
17	DNAI2	ENSG00000171595	ENST00000311014	protein_coding	KNOWN	CCDS11697	18744	1818	605	72270429	72311023	1	None	CILD9, DIC2
17	DNAI2	ENSG00000171595	ENST00000579490	protein_coding	PUTATIVE	None	18744	1989	662	72277651	72311023	1	None	CILD9, DIC2
17	DNAI2	ENSG00000171595	ENST00000579312	retained_intron	KNOWN	None	18744	None	None	72309983	72311019	1	None	CILD9, DIC2
17	DNAI2	ENSG00000171595	ENST00000446837	protein_coding	KNOWN	CCDS11697	18744	1818	605	72277651	72311022	1	None	CILD9, DIC2
17	DNAI2	ENSG00000171595	ENST00000307504	protein_coding	KNOWN	None	18744	1209	402	72270395	72311022	1	None	CILD9, DIC2
5	RNU1-140P	ENSG00000201910	ENST00000365040	snRNA	KNOWN	None	48482	None	None	103434575	103434739	1	None	None
1	PADI4	ENSG00000159339	ENST00000375453	protein_coding	KNOWN	None	18368	384	127	17634690	17661291	1	PADI5	PAD, PDI5, PDI4
1	PADI4	ENSG00000159339	ENST00000375448	protein_coding	KNOWN	CCDS180	18368	1992	663	17634692	17690499	1	PADI5	PAD, PDI5, PDI4
1	PADI4	ENSG00000159339	ENST00000468945	processed_transcript	KNOWN	None	18368	None	None	17672529	17674702	1	PADI5	PAD, PDI5, PDI4
1	PADI4	ENSG00000159339	ENST00000487048	processed_transcript	KNOWN	None	18368	None	None	17674422	17682942	1	PADI5	PAD, PDI5, PDI4
1	PADI4	ENSG00000159339	ENST00000467001	processed_transcript	KNOWN	None	18368	None	None	17675225	17685344	1	PADI5	PAD, PDI5, PDI4
HG311_PATCH	PNLIPRP2	ENSG00000266200	ENST00000591655	nonsense_mediated_decay	KNOWN	None	9157	1071	356	118380352	118404649	1	None	PLRP2
HG311_PATCH	PNLIPRP2	ENSG00000266200	ENST00000586762	processed_transcript	KNOWN	None	9157	None	None	118380480	118387301	1	None	PLRP2
HG311_PATCH	PNLIPRP2	ENSG00000266200	ENST00000589989	retained_intron	KNOWN	None	9157	None	None	118380818	118386609	1	None	PLRP2
HG311_PATCH	PNLIPRP2	ENSG00000266200	ENST00000588823	processed_transcript	KNOWN	None	9157	None	None	118380818	118396384	1	None	PLRP2
HG311_PATCH	PNLIPRP2	ENSG00000266200	ENST00000579578	polymorphic_pseudogene	KNOWN	None	9157	1410	469	118380818	118404609	1	None	PLRP2
3	None	ENSG00000223727	ENST00000420000	lincRNA	KNOWN	None	None	None	None	3292371	3668980	-1	None	None
3	None	ENSG00000223727	ENST00000451031	lincRNA	KNOWN	None	None	None	None	3302491	3525799	-1	None	None
3	None	ENSG00000223727	ENST00000455703	lincRNA	KNOWN	None	None	None	None	3356990	3525781	-1	None	None
17	None	ENSG00000254652	ENST00000528745	3prime_overlapping_ncrna	KNOWN	None	None	None	None	11464473	11467380	1	None	None
13	RPS6P23	ENSG00000230871	ENST00000413224	processed_pseudogene	KNOWN	None	39581	None	None	99825847	99826744	1	None	None
2	None	ENSG00000239498	ENST00000432993	lincRNA	KNOWN	None	None	None	None	220970377	221315499	1	None	None
1	None	ENSG00000230728	ENST00000416119	sense_overlapping	KNOWN	None	None	None	None	55087150	55094111	-1	None	None
HSCHR6_MHC_QBL	HLA-V	ENSG00000206444	ENST00000424372	processed_transcript	KNOWN	None	23482	None	None	29756044	29757937	1	HLA-75	dJ377H14.4
HSCHR6_MHC_QBL	HLA-V	ENSG00000206444	ENST00000419082	processed_transcript	KNOWN	None	23482	None	None	29756138	29758269	1	HLA-75	dJ377H14.4
HSCHR6_MHC_QBL	HLA-V	ENSG00000206444	ENST00000424483	processed_transcript	KNOWN	None	23482	None	None	29756536	29762764	1	HLA-75	dJ377H14.4
HSCHR6_MHC_QBL	HLA-V	ENSG00000206444	ENST00000413589	processed_transcript	KNOWN	None	23482	None	None	29757088	29762764	1	HLA-75	dJ377H14.4
HSCHR6_MHC_QBL	HLA-V	ENSG00000206444	ENST00000426707	processed_transcript	KNOWN	None	23482	None	None	29757405	29762764	1	HLA-75	dJ377H14.4
HSCHR6_MHC_QBL	HLA-V	ENSG00000206444	ENST00000565375	transcribed_unprocessed_pseudogene	KNOWN	None	23482	None	None	29757424	29758297	1	HLA-75	dJ377H14.4
5	RN7SL255P	ENSG00000239808	ENST00000470639	misc_RNA	KNOWN	None	46271	None	None	103596234	103596527	-1	None	None
2	None	ENSG00000230596	ENST00000606848	processed_transcript	KNOWN	None	None	None	None	111143954	111145740	-1	None	None
2	None	ENSG00000230596	ENST00000417923	transcribed_processed_pseudogene	KNOWN	None	None	None	None	111144092	111145013	-1	None	None
17	None	ENSG00000263623	ENST00000584990	miRNA	NOVEL	None	None	None	None	11644693	11644781	-1	None	None
15	RN7SKP101	ENSG00000223308	ENST00000411376	misc_RNA	KNOWN	None	45825	None	None	47012391	47012710	-1	None	None
2	RNU6-685P	ENSG00000252897	ENST00000517088	snRNA	KNOWN	None	47648	None	None	82495736	82495830	1	None	None
19	None	ENSG00000269145	ENST00000600364	antisense	KNOWN	None	None	None	None	18255332	18262498	-1	None	None
11	None	ENSG00000255091	ENST00000525563	antisense	KNOWN	None	None	None	None	45673079	45674241	1	None	None
1	None	ENSG00000237453	ENST00000450503	antisense	KNOWN	None	None	None	None	55258558	55260578	1	None	None
1	None	ENSG00000234037	ENST00000455771	lincRNA	KNOWN	None	None	None	None	103820969	103835986	-1	None	None
1	None	ENSG00000234037	ENST00000451705	lincRNA	KNOWN	None	None	None	None	103821644	103835986	-1	None	None
9	None	ENSG00000236450	ENST00000446396	processed_pseudogene	KNOWN	None	None	None	None	46669135	46669441	-1	None	None
15	None	ENSG00000259509	ENST00000560476	processed_pseudogene	KNOWN	None	None	None	None	47119724	47120156	1	None	None
17	None	ENSG00000263684	ENST00000579621	antisense	KNOWN	None	None	None	None	11778249	11779145	-1	None	None
19	CD177	ENSG00000204936	ENST00000607517	polymorphic_pseudogene	KNOWN	None	30072	1314	437	43857811	43867324	1	None	PRV1, HNA2A, NB1
19	CD177	ENSG00000204936	ENST00000607855	retained_intron	KNOWN	None	30072	None	None	43857843	43858677	1	None	PRV1, HNA2A, NB1
19	CD177	ENSG00000204936	ENST00000457794	nonsense_mediated_decay	KNOWN	None	30072	438	145	43857867	43866524	1	None	PRV1, HNA2A, NB1
19	CD177	ENSG00000204936	ENST00000378009	protein_coding	KNOWN	None	30072	747	248	43857825	43867480	1	None	PRV1, HNA2A, NB1
19	CD177	ENSG00000204936	ENST00000378012	protein_coding	KNOWN	None	30072	438	145	43857825	43859725	1	None	PRV1, HNA2A, NB1
2	None	ENSG00000201311	ENST00000364441	misc_RNA	NOVEL	None	None	None	None	82534191	82534292	-1	None	None
12	None	ENSG00000242041	ENST00000459730	processed_pseudogene	KNOWN	None	None	None	None	50256956	50257286	1	None	None
12	None	ENSG00000206636	ENST00000383909	misc_RNA	NOVEL	None	None	None	None	8128855	8128956	1	None	None
1	MIR4260	ENSG00000264831	ENST00000583107	miRNA	KNOWN	None	38179	None	None	209796789	209796855	-1	None	hsa-mir-4260
14	RNU2-51P	ENSG00000222640	ENST00000410708	snRNA	KNOWN	None	48544	None	None	70827609	70827805	1	None	None
13	GAPDHP22	ENSG00000234005	ENST00000491037	processed_pseudogene	KNOWN	None	37774	None	None	99842833	99843245	-1	None	None
11	None	ENSG00000255065	ENST00000529025	processed_pseudogene	KNOWN	None	None	None	None	106180772	106182518	1	None	None
1	None	ENSG00000233712	ENST00000449287	unprocessed_pseudogene	KNOWN	None	None	None	None	157606090	157610091	-1	None	None
2	None	ENSG00000237498	ENST00000437290	lincRNA	KNOWN	None	None	None	None	82706252	82765835	-1	None	None
5	None	ENSG00000251574	ENST00000524336	lincRNA	PUTATIVE	None	None	None	None	103718999	104246434	-1	None	None
5	None	ENSG00000251574	ENST00000503650	lincRNA	PUTATIVE	None	None	None	None	103819905	104728671	-1	None	None
5	None	ENSG00000251574	ENST00000506976	lincRNA	PUTATIVE	None	None	None	None	103966088	104109523	-1	None	None
5	None	ENSG00000251574	ENST00000505824	lincRNA	PUTATIVE	None	None	None	None	103966237	104109492	-1	None	None
5	None	ENSG00000251574	ENST00000524083	lincRNA	PUTATIVE	None	None	None	None	104072462	104075242	-1	None	None
5	None	ENSG00000251574	ENST00000523434	lincRNA	PUTATIVE	None	None	None	None	104074955	104109397	-1	None	None
5	None	ENSG00000251574	ENST00000524159	lincRNA	PUTATIVE	None	None	None	None	104074962	104082310	-1	None	None
5	None	ENSG00000251574	ENST00000518276	lincRNA	PUTATIVE	None	None	None	None	104079393	104109361	-1	None	None
5	None	ENSG00000251574	ENST00000522838	lincRNA	PUTATIVE	None	None	None	None	104098932	104109485	-1	None	None
2	None	ENSG00000235337	ENST00000438633	lincRNA	KNOWN	None	None	None	None	220992267	221077212	1	None	None
5	NIPBL	ENSG00000164190	ENST00000282516	protein_coding	KNOWN	CCDS3920	28862	8415	2804	36876861	37066515	1	None	IDN3, DKFZp434L1319, FLJ11203, FLJ12597, FLJ13354, FLJ13648, Scc2
5	NIPBL	ENSG00000164190	ENST00000448238	protein_coding	KNOWN	CCDS47198	28862	8094	2697	36876892	37064292	1	None	IDN3, DKFZp434L1319, FLJ11203, FLJ12597, FLJ13354, FLJ13648, Scc2
5	NIPBL	ENSG00000164190	ENST00000505998	processed_transcript	KNOWN	None	28862	None	None	36955070	36975999	1	None	IDN3, DKFZp434L1319, FLJ11203, FLJ12597, FLJ13354, FLJ13648, Scc2
5	NIPBL	ENSG00000164190	ENST00000504430	processed_transcript	KNOWN	None	28862	None	None	36961608	36997104	1	None	IDN3, DKFZp434L1319, FLJ11203, FLJ12597, FLJ13354, FLJ13648, Scc2
5	NIPBL	ENSG00000164190	ENST00000503274	processed_transcript	KNOWN	None	28862	None	None	36995252	37000608	1	None	IDN3, DKFZp434L1319, FLJ11203, FLJ12597, FLJ13354, FLJ13648, Scc2
5	NIPBL	ENSG00000164190	ENST00000509429	processed_transcript	KNOWN	None	28862	None	None	36995852	36997104	1	None	IDN3, DKFZp434L1319, FLJ11203, FLJ12597, FLJ13354, FLJ13648, Scc2
5	NIPBL	ENSG00000164190	ENST00000514335	retained_intron	KNOWN	None	28862	None	None	37051045	37065604	1	None	IDN3, DKFZp434L1319, FLJ11203, FLJ12597, FLJ13354, FLJ13648, Scc2
5	NIPBL	ENSG00000164190	ENST00000513819	protein_coding	NOVEL	None	28862	452	149	37059005	37064080	1	None	IDN3, DKFZp434L1319, FLJ11203, FLJ12597, FLJ13354, FLJ13648, Scc2
1	None	ENSG00000242396	ENST00000415336	antisense	KNOWN	None	None	None	None	55352548	55353674	1	None	None
17	None	ENSG00000266368	ENST00000580270	antisense	KNOWN	None	None	None	None	11857206	11880911	-1	None	None
2	ASAP2	ENSG00000151693	ENST00000281419	protein_coding	KNOWN	CCDS1661	2721	3021	1006	9346894	9545807	1	DDEF2	KIAA0400, PAP, SHAG1, CENTB3
2	ASAP2	ENSG00000151693	ENST00000471687	retained_intron	KNOWN	None	2721	None	None	9490588	9496432	1	DDEF2	KIAA0400, PAP, SHAG1, CENTB3
2	ASAP2	ENSG00000151693	ENST00000491413	processed_transcript	KNOWN	None	2721	None	None	9528423	9540898	1	DDEF2	KIAA0400, PAP, SHAG1, CENTB3
2	ASAP2	ENSG00000151693	ENST00000484590	retained_intron	KNOWN	None	2721	None	None	9538970	9545806	1	DDEF2	KIAA0400, PAP, SHAG1, CENTB3
2	ASAP2	ENSG00000151693	ENST00000315273	protein_coding	KNOWN	CCDS46224	2721	2886	961	9346894	9545812	1	DDEF2	KIAA0400, PAP, SHAG1, CENTB3
14	None	ENSG00000257759	ENST00000556646	lincRNA	KNOWN	None	None	None	None	70892529	71014181	-1	None	None
11	None	ENSG00000254519	ENST00000532307	lincRNA	KNOWN	None	None	None	None	45743858	45745849	1	None	None
11	None	ENSG00000254519	ENST00000530051	lincRNA	KNOWN	None	None	None	None	45743951	45746102	1	None	None
11	None	ENSG00000254519	ENST00000529769	lincRNA	KNOWN	None	None	None	None	45744859	45765801	1	None	None
1	None	ENSG00000227591	ENST00000445272	antisense	KNOWN	None	None	None	None	209834709	209848592	-1	None	None
1	None	ENSG00000227591	ENST00000441672	antisense	KNOWN	None	None	None	None	209834711	209897470	-1	None	None
19	None	ENSG00000268650	ENST00000594805	antisense	KNOWN	None	None	None	None	18315540	18331346	1	None	None
19	None	ENSG00000268650	ENST00000599416	lincRNA	KNOWN	None	None	None	None	18315546	18319859	1	None	None
19	None	ENSG00000268650	ENST00000596473	antisense	KNOWN	None	None	None	None	18315551	18316373	1	None	None
19	None	ENSG00000268650	ENST00000599094	retained_intron	KNOWN	None	None	None	None	18318771	18319259	1	None	None
2	None	ENSG00000226860	ENST00000417406	processed_pseudogene	KNOWN	None	None	None	None	82836776	82837101	1	None	None
2	None	ENSG00000221199	ENST00000408272	miRNA	NOVEL	None	None	None	None	221056599	221056677	1	None	None
HSCHR6_MHC_APD	HSPA1A	ENSG00000235941	ENST00000430065	protein_coding	KNOWN	None	5232	1926	641	31794605	31797087	1	HSPA1	HSP70-1
HSCHR6_MHC_APD	HSPA1A	ENSG00000235941	ENST00000422919	protein_coding	KNOWN	None	5232	1431	476	31794684	31797087	1	HSPA1	HSP70-1
22	APOBEC3H	ENSG00000100298	ENST00000348946	protein_coding	KNOWN	CCDS54531	24100	549	182	39493229	39500072	1	None	ARP10
22	APOBEC3H	ENSG00000100298	ENST00000474235	retained_intron	KNOWN	None	24100	None	None	39493276	39496541	1	None	ARP10
22	APOBEC3H	ENSG00000100298	ENST00000401756	protein_coding	PUTATIVE	CCDS54530	24100	603	200	39493280	39500003	1	None	ARP10
22	APOBEC3H	ENSG00000100298	ENST00000442487	protein_coding	KNOWN	CCDS13985	24100	552	183	39493229	39500070	1	None	ARP10
22	APOBEC3H	ENSG00000100298	ENST00000421988	protein_coding	KNOWN	CCDS54532	24100	465	154	39493229	39498610	1	None	ARP10
15	None	ENSG00000272003	ENST00000605942	lincRNA	KNOWN	None	None	None	None	42188137	42189031	-1	None	None
1	None	ENSG00000233203	ENST00000443284	antisense	KNOWN	None	None	None	None	55353236	55354391	1	None	None
1	None	ENSG00000233203	ENST00000436033	antisense	KNOWN	None	None	None	None	55353400	55354336	1	None	None
1	None	ENSG00000233203	ENST00000455380	antisense	KNOWN	None	None	None	None	55353401	55354523	1	None	None
1	None	ENSG00000233203	ENST00000433690	antisense	KNOWN	None	None	None	None	55353405	55354523	1	None	None
12	None	ENSG00000258135	ENST00000546911	lincRNA	KNOWN	None	None	None	None	50302665	50305061	-1	None	None
12	None	ENSG00000258135	ENST00000551922	lincRNA	KNOWN	None	None	None	None	50302665	50305625	-1	None	None
12	None	ENSG00000258135	ENST00000552768	lincRNA	KNOWN	None	None	None	None	50302665	50305646	-1	None	None
12	None	ENSG00000258135	ENST00000550636	lincRNA	KNOWN	None	None	None	None	50302676	50305640	-1	None	None
12	None	ENSG00000258135	ENST00000552628	lincRNA	KNOWN	None	None	None	None	50304228	50305641	-1	None	None
2	None	ENSG00000236451	ENST00000414512	lincRNA	KNOWN	None	None	None	None	221315400	221569286	1	None	None
9	None	ENSG00000252133	ENST00000516324	snoRNA	NOVEL	None	None	None	None	46669492	46669586	-1	None	None
17	RPL21P122	ENSG00000241185	ENST00000579522	processed_transcript	KNOWN	None	36990	None	None	11901670	11924825	-1	None	None
17	RPL21P122	ENSG00000241185	ENST00000460347	transcribed_processed_pseudogene	KNOWN	None	36990	None	None	11914057	11914541	-1	None	None
17	RPL21P122	ENSG00000241185	ENST00000578024	processed_transcript	PUTATIVE	None	36990	None	None	11914088	11924663	-1	None	None
11	None	ENSG00000267940	ENST00000600308	lincRNA	KNOWN	None	None	None	None	6223131	6224483	-1	None	None
13	UBAC2-AS1	ENSG00000228889	ENST00000426037	lincRNA	KNOWN	None	42502	None	None	99848631	99852964	-1	None	None
13	UBAC2-AS1	ENSG00000228889	ENST00000445737	lincRNA	KNOWN	None	42502	None	None	99848631	99852964	-1	None	None
1	None	ENSG00000230759	ENST00000414923	lincRNA	KNOWN	None	None	None	None	103957501	103968087	1	None	None
12	None	ENSG00000185847	ENST00000553177	lincRNA	KNOWN	None	None	None	None	111374389	111396012	1	None	None
12	None	ENSG00000185847	ENST00000548368	lincRNA	KNOWN	None	None	None	None	111374393	111381499	1	None	None
12	None	ENSG00000185847	ENST00000331096	lincRNA	KNOWN	None	None	None	None	111374406	111375255	1	None	None
12	None	ENSG00000185847	ENST00000547607	lincRNA	KNOWN	None	None	None	None	111374411	111394636	1	None	None
X	None	ENSG00000266108	ENST00000584455	miRNA	NOVEL	None	None	None	None	152468714	152468765	-1	None	None
8	IGLV8OR8-1	ENSG00000215177	ENST00000399730	IG_V_pseudogene	KNOWN	None	5932	None	None	48114067	48114520	-1	None	IGLV8/OR8-1
10	BTRC	ENSG00000166167	ENST00000370187	protein_coding	KNOWN	CCDS7512	1144	1818	605	103113820	103317078	1	None	bTrCP, betaTrCP, FBXW1A, Fwd1, beta-TrCP1, bTrCP1
10	BTRC	ENSG00000166167	ENST00000475200	processed_transcript	KNOWN	None	1144	None	None	103113826	103281469	1	None	bTrCP, betaTrCP, FBXW1A, Fwd1, beta-TrCP1, bTrCP1
10	BTRC	ENSG00000166167	ENST00000408038	protein_coding	KNOWN	CCDS7511	1144	1710	569	103113864	103317078	1	None	bTrCP, betaTrCP, FBXW1A, Fwd1, beta-TrCP1, bTrCP1
10	BTRC	ENSG00000166167	ENST00000465182	processed_transcript	KNOWN	None	1144	None	None	103113939	103285951	1	None	bTrCP, betaTrCP, FBXW1A, Fwd1, beta-TrCP1, bTrCP1
10	BTRC	ENSG00000166167	ENST00000370183	protein_coding	KNOWN	None	1144	573	190	103114291	103285840	1	None	bTrCP, betaTrCP, FBXW1A, Fwd1, beta-TrCP1, bTrCP1
10	BTRC	ENSG00000166167	ENST00000493877	processed_transcript	KNOWN	None	1144	None	None	103295141	103310948	1	None	bTrCP, betaTrCP, FBXW1A, Fwd1, beta-TrCP1, bTrCP1
10	BTRC	ENSG00000166167	ENST00000393441	protein_coding	KNOWN	None	1144	1695	564	103113859	103317054	1	None	bTrCP, betaTrCP, FBXW1A, Fwd1, beta-TrCP1, bTrCP1
9	RN7SL544P	ENSG00000263901	ENST00000585262	misc_RNA	KNOWN	None	46560	None	None	46674882	46675163	1	None	None
1	None	ENSG00000236136	ENST00000429195	processed_pseudogene	KNOWN	None	None	None	None	209917718	209918559	1	None	None
3	None	ENSG00000241929	ENST00000461814	processed_pseudogene	KNOWN	None	None	None	None	149179969	149182617	-1	None	None
1	None	ENSG00000227217	ENST00000453692	antisense	KNOWN	None	None	None	None	157661552	157666249	1	None	None
2	MTND4P25	ENSG00000226700	ENST00000441039	processed_pseudogene	KNOWN	None	42212	None	None	83042108	83042640	1	None	None
12	None	ENSG00000258368	ENST00000547456	unprocessed_pseudogene	KNOWN	None	None	None	None	37969251	37970186	1	None	None
12	None	ENSG00000257809	ENST00000548731	antisense	KNOWN	None	None	None	None	56544580	56552004	-1	None	None
7	None	ENSG00000230927	ENST00000418074	unitary_pseudogene	KNOWN	None	None	None	None	92042290	92068876	-1	None	None
12	None	ENSG00000240739	ENST00000470614	unprocessed_pseudogene	KNOWN	None	None	None	None	8147366	8147680	-1	None	None
2	None	ENSG00000222096	ENST00000410164	miRNA	NOVEL	None	None	None	None	221341704	221341813	-1	None	None
9	None	ENSG00000204802	ENST00000377518	retained_intron	KNOWN	None	None	None	None	46685429	46688084	-1	None	None
9	None	ENSG00000204802	ENST00000429818	lincRNA	KNOWN	None	None	None	None	46685763	46688081	-1	None	None
9	None	ENSG00000204802	ENST00000412631	lincRNA	KNOWN	None	None	None	None	46686629	46687427	-1	None	None
9	None	ENSG00000204802	ENST00000430302	lincRNA	KNOWN	None	None	None	None	46686633	46688137	-1	None	None
7	None	ENSG00000221401	ENST00000408474	miRNA	NOVEL	None	None	None	None	128546825	128546943	1	None	None
1	None	ENSG00000231700	ENST00000435919	processed_pseudogene	KNOWN	None	None	None	None	157678876	157679433	1	None	None
2	None	ENSG00000224819	ENST00000424395	lincRNA	KNOWN	None	None	None	None	221655798	221662613	1	None	None
2	MTND5P27	ENSG00000225045	ENST00000428871	processed_pseudogene	KNOWN	None	42289	None	None	83042933	83044652	1	None	None
1	None	ENSG00000232222	ENST00000430751	sense_overlapping	KNOWN	None	None	None	None	209960324	209961038	-1	None	None
12	None	ENSG00000257309	ENST00000548571	processed_transcript	KNOWN	None	None	None	None	56551234	56553431	1	None	None
12	None	ENSG00000255964	ENST00000429127	processed_pseudogene	KNOWN	None	None	None	None	8167620	8169002	1	None	None
6	None	ENSG00000226917	ENST00000416951	lincRNA	KNOWN	None	None	None	None	41470182	41487590	1	None	None
6	None	ENSG00000226917	ENST00000448211	lincRNA	KNOWN	None	None	None	None	41486111	41487590	1	None	None
13	RN7SKP9	ENSG00000201793	ENST00000364923	misc_RNA	KNOWN	None	42627	None	None	99857962	99858260	1	None	None
12	None	ENSG00000257173	ENST00000549020	processed_pseudogene	KNOWN	None	None	None	None	38472331	38472801	-1	None	None
7	None	ENSG00000224163	ENST00000469533	unprocessed_pseudogene	KNOWN	None	None	None	None	128552786	128554117	-1	None	None
7	None	ENSG00000224163	ENST00000433622	unprocessed_pseudogene	KNOWN	None	None	None	None	128552714	128554064	-1	None	None
1	None	ENSG00000233271	ENST00000436960	antisense	KNOWN	None	None	None	None	55446623	55457947	-1	None	None
13	H2AFZP3	ENSG00000218502	ENST00000394213	processed_pseudogene	KNOWN	None	38013	None	None	99867626	99868012	-1	None	None
11	None	ENSG00000260512	ENST00000561520	sense_overlapping	KNOWN	None	None	None	None	106544738	106550066	-1	None	None
7	None	ENSG00000270453	ENST00000603642	processed_pseudogene	KNOWN	None	None	None	None	92071391	92071803	1	None	None
9	CACFD1	ENSG00000160325	ENST00000291722	protein_coding	KNOWN	CCDS48051	1365	393	130	136325089	136335970	1	C9orf7	D9S2135, flower
9	CACFD1	ENSG00000160325	ENST00000474734	processed_transcript	KNOWN	None	1365	None	None	136325109	136333741	1	C9orf7	D9S2135, flower
9	CACFD1	ENSG00000160325	ENST00000316948	protein_coding	KNOWN	CCDS6974	1365	519	172	136325109	136335970	1	C9orf7	D9S2135, flower
9	CACFD1	ENSG00000160325	ENST00000489519	processed_transcript	KNOWN	None	1365	None	None	136325120	136330975	1	C9orf7	D9S2135, flower
9	CACFD1	ENSG00000160325	ENST00000444798	protein_coding	KNOWN	None	1365	344	113	136327293	136333150	1	C9orf7	D9S2135, flower
9	CACFD1	ENSG00000160325	ENST00000540581	protein_coding	KNOWN	CCDS56591	1365	702	233	136325112	136334087	1	C9orf7	D9S2135, flower
9	CACFD1	ENSG00000160325	ENST00000542192	protein_coding	KNOWN	CCDS56592	1365	576	191	136325155	136334500	1	C9orf7	D9S2135, flower
1	VDAC1P9	ENSG00000232366	ENST00000412766	processed_pseudogene	KNOWN	None	37484	None	None	157693970	157694810	-1	None	None
2	MTND6P7	ENSG00000224695	ENST00000433237	processed_pseudogene	KNOWN	None	39470	None	None	83044662	83045185	-1	None	None
1	None	ENSG00000224613	ENST00000444810	antisense	KNOWN	None	None	None	None	103960701	104068105	-1	None	None
1	None	ENSG00000224613	ENST00000447322	antisense	KNOWN	None	None	None	None	103961376	104068083	-1	None	None
1	SERTAD4-AS1	ENSG00000203706	ENST00000475406	antisense	KNOWN	None	32019	None	None	210404801	210406317	-1	C1orf133	None
1	SERTAD4-AS1	ENSG00000203706	ENST00000437764	antisense	KNOWN	None	32019	None	None	210404801	210407389	-1	C1orf133	None
1	SERTAD4-AS1	ENSG00000203706	ENST00000480052	antisense	KNOWN	None	32019	None	None	210404801	210407392	-1	C1orf133	None
1	None	ENSG00000231090	ENST00000451250	lincRNA	KNOWN	None	None	None	None	55683534	55699850	1	None	None
11	None	ENSG00000255385	ENST00000528532	processed_pseudogene	KNOWN	None	None	None	None	89433932	89434493	1	None	None
2	None	ENSG00000232089	ENST00000422812	processed_pseudogene	KNOWN	None	None	None	None	222027491	222027773	1	None	None
11	None	ENSG00000254594	ENST00000527283	lincRNA	KNOWN	None	None	None	None	24257023	24283751	-1	None	None
11	None	ENSG00000254594	ENST00000534492	lincRNA	KNOWN	None	None	None	None	24280945	24283764	-1	None	None
7	None	ENSG00000244055	ENST00000427458	processed_transcript	PUTATIVE	None	None	None	None	92086878	92120924	1	None	None
7	None	ENSG00000244055	ENST00000441539	processed_transcript	PUTATIVE	None	None	None	None	92119399	92120893	1	None	None
HSCHR6_MHC_APD	HSPA1B	ENSG00000232804	ENST00000450744	protein_coding	KNOWN	None	5233	1926	641	31806879	31809393	1	None	HSP70-2
6	MIR4641	ENSG00000266494	ENST00000578353	miRNA	KNOWN	None	41835	None	None	41566461	41566526	1	None	hsa-mir-4641
10	SEPHS1	ENSG00000086475	ENST00000327347	protein_coding	KNOWN	CCDS7098	19685	1179	392	13359424	13390297	-1	None	SPS, SPS1
10	SEPHS1	ENSG00000086475	ENST00000378614	protein_coding	KNOWN	CCDS55703	19685	966	321	13360080	13390280	-1	None	SPS, SPS1
10	SEPHS1	ENSG00000086475	ENST00000413411	protein_coding	KNOWN	None	19685	500	165	13375877	13389358	-1	None	SPS, SPS1
10	SEPHS1	ENSG00000086475	ENST00000425947	protein_coding	KNOWN	None	19685	275	90	13375901	13382790	-1	None	SPS, SPS1
10	SEPHS1	ENSG00000086475	ENST00000494329	processed_transcript	KNOWN	None	19685	None	None	13380716	13387460	-1	None	SPS, SPS1
10	SEPHS1	ENSG00000086475	ENST00000537130	protein_coding	KNOWN	CCDS55702	19685	978	325	13360590	13390030	-1	None	SPS, SPS1
10	SEPHS1	ENSG00000086475	ENST00000545675	protein_coding	KNOWN	None	19685	975	324	13360083	13390280	-1	None	SPS, SPS1
12	None	ENSG00000258278	ENST00000547527	unprocessed_pseudogene	KNOWN	None	None	None	None	38475848	38477884	1	None	None
13	MIR623	ENSG00000207719	ENST00000384986	miRNA	KNOWN	None	32879	None	None	100008385	100008482	1	MIRN623	hsa-mir-623
14	None	ENSG00000271712	ENST00000604722	processed_pseudogene	KNOWN	None	None	None	None	85464622	85465640	-1	None	None
2	None	ENSG00000227789	ENST00000419540	processed_pseudogene	KNOWN	None	None	None	None	83045255	83046388	1	None	None
12	None	ENSG00000258199	ENST00000553176	sense_overlapping	KNOWN	None	None	None	None	56556143	56584068	-1	None	None
1	GYG1P3	ENSG00000231095	ENST00000449769	processed_pseudogene	KNOWN	None	39711	None	None	55688052	55689045	1	None	None
6	NPM1P51	ENSG00000230913	ENST00000443470	processed_pseudogene	KNOWN	None	45230	None	None	41634644	41635387	1	None	None
16	None	ENSG00000205918	ENST00000382326	processed_transcript	KNOWN	None	None	None	None	2666122	2693297	-1	None	None
16	None	ENSG00000205918	ENST00000562415	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	2666454	2692433	-1	None	None
16	None	ENSG00000205918	ENST00000571865	processed_transcript	KNOWN	None	None	None	None	2683899	2688722	-1	None	None
1	MRPS21P2	ENSG00000227425	ENST00000424704	processed_pseudogene	KNOWN	None	29749	None	None	157830987	157831250	1	None	None
2	None	ENSG00000184115	ENST00000488671	lincRNA	KNOWN	None	None	None	None	111143988	111191250	-1	None	None
2	None	ENSG00000184115	ENST00000490013	lincRNA	KNOWN	None	None	None	None	111160491	111192743	-1	None	None
2	None	ENSG00000184115	ENST00000498358	lincRNA	KNOWN	None	None	None	None	111160513	111181369	-1	None	None
2	None	ENSG00000184115	ENST00000483717	lincRNA	KNOWN	None	None	None	None	111160732	111192306	-1	None	None
2	None	ENSG00000184115	ENST00000489211	lincRNA	KNOWN	None	None	None	None	111160839	111192268	-1	None	None
2	None	ENSG00000184115	ENST00000466329	lincRNA	KNOWN	None	None	None	None	111163943	111165676	-1	None	None
2	None	ENSG00000184115	ENST00000469759	lincRNA	KNOWN	None	None	None	None	111164327	111191250	-1	None	None
3	None	ENSG00000222719	ENST00000410787	miRNA	NOVEL	None	None	None	None	38841787	38841885	-1	None	None
14	None	ENSG00000259044	ENST00000556016	lincRNA	KNOWN	None	None	None	None	85669193	85705818	-1	None	None
7	RNU6-10P	ENSG00000206763	ENST00000384036	snRNA	KNOWN	None	34254	None	None	92331022	92331128	-1	RNU6-10	None
11	None	ENSG00000207252	ENST00000384522	misc_RNA	NOVEL	None	None	None	None	24477457	24477556	1	None	None
3	None	ENSG00000243081	ENST00000486726	lincRNA	KNOWN	None	None	None	None	112115494	112127981	-1	None	None
3	None	ENSG00000231243	ENST00000432250	antisense	KNOWN	None	None	None	None	38865393	38866793	1	None	None
2	None	ENSG00000168129	ENST00000455595	processed_pseudogene	KNOWN	None	None	None	None	83083950	83084508	1	None	None
2	None	ENSG00000168129	ENST00000342938	processed_pseudogene	KNOWN	None	None	None	None	83083927	83084885	1	None	None
11	None	ENSG00000255486	ENST00000530980	unprocessed_pseudogene	KNOWN	None	None	None	None	89456650	89460421	-1	None	None
11	None	ENSG00000255489	ENST00000526957	processed_pseudogene	KNOWN	None	None	None	None	24722821	24723121	1	None	None
1	RN7SKP285	ENSG00000222069	ENST00000410137	misc_RNA	KNOWN	None	46009	None	None	104066184	104066501	1	None	None
15	None	ENSG00000252500	ENST00000516691	miRNA	NOVEL	None	None	None	None	47249731	47249815	-1	None	None
7	None	ENSG00000237819	ENST00000435695	antisense	KNOWN	None	None	None	None	92465797	92546501	1	None	None
7	None	ENSG00000237819	ENST00000452050	antisense	KNOWN	None	None	None	None	92465803	92546437	1	None	None
7	None	ENSG00000237819	ENST00000424523	antisense	KNOWN	None	None	None	None	92484223	92546465	1	None	None
7	None	ENSG00000237819	ENST00000419668	antisense	KNOWN	None	None	None	None	92484223	92546488	1	None	None
3	OR7E100P	ENSG00000242525	ENST00000489105	unprocessed_pseudogene	KNOWN	None	15048	None	None	112243034	112244048	-1	None	None
22	ISX	ENSG00000175329	ENST00000404699	protein_coding	KNOWN	CCDS33640	28084	738	245	35462129	35483379	1	None	RAXLX
22	ISX	ENSG00000175329	ENST00000308700	protein_coding	KNOWN	CCDS33640	28084	738	245	35462129	35483380	1	None	RAXLX
17	RNU11-2P	ENSG00000252707	ENST00000516898	snRNA	KNOWN	None	46942	None	None	11939813	11939954	-1	None	None
15	None	ENSG00000222311	ENST00000410379	miRNA	NOVEL	None	None	None	None	47534401	47534476	1	None	None
1	ACTG1P4	ENSG00000236085	ENST00000425123	processed_pseudogene	KNOWN	None	149	None	None	104112175	104113296	1	ACTGP4	None
1	None	ENSG00000236957	ENST00000454878	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	157894855	157899652	1	None	None
1	None	ENSG00000236957	ENST00000452528	processed_transcript	KNOWN	None	None	None	None	157895764	157918861	1	None	None
1	None	ENSG00000236957	ENST00000422062	processed_transcript	KNOWN	None	None	None	None	157899321	157912986	1	None	None
17	MIR744	ENSG00000266297	ENST00000578242	sense_intronic	KNOWN	None	33658	None	None	11985216	11985313	1	MIRN744	hsa-mir-744
11	None	ENSG00000255368	ENST00000524920	processed_pseudogene	KNOWN	None	None	None	None	25162079	25162569	-1	None	None
2	None	ENSG00000223977	ENST00000418060	processed_pseudogene	KNOWN	None	None	None	None	83446014	83446229	-1	None	None
14	RNU3P3	ENSG00000252529	ENST00000516720	snoRNA	KNOWN	None	10177	None	None	85738276	85738405	1	None	U3, U3.5, u3.7
11	None	ENSG00000255426	ENST00000532068	lincRNA	KNOWN	None	None	None	None	45755545	45757317	-1	None	None
20	CEP250	ENSG00000126001	ENST00000446710	protein_coding	KNOWN	None	1859	492	163	34042985	34054029	1	CEP2	C-NAP1
20	CEP250	ENSG00000126001	ENST00000420564	protein_coding	KNOWN	None	1859	342	113	34042996	34053879	1	CEP2	C-NAP1
20	CEP250	ENSG00000126001	ENST00000476146	processed_transcript	KNOWN	None	1859	None	None	34043022	34050129	1	CEP2	C-NAP1
20	CEP250	ENSG00000126001	ENST00000397527	protein_coding	KNOWN	CCDS13255	1859	7329	2442	34043150	34099804	1	CEP2	C-NAP1
20	CEP250	ENSG00000126001	ENST00000461386	nonsense_mediated_decay	KNOWN	None	1859	1617	538	34043418	34065891	1	CEP2	C-NAP1
20	CEP250	ENSG00000126001	ENST00000397524	protein_coding	NOVEL	None	1859	1020	339	34043545	34057957	1	CEP2	C-NAP1
20	CEP250	ENSG00000126001	ENST00000425934	protein_coding	NOVEL	None	1859	2053	683	34050090	34065888	1	CEP2	C-NAP1
20	CEP250	ENSG00000126001	ENST00000465987	processed_transcript	KNOWN	None	1859	None	None	34053589	34055141	1	CEP2	C-NAP1
20	CEP250	ENSG00000126001	ENST00000474829	retained_intron	KNOWN	None	1859	None	None	34057671	34060610	1	CEP2	C-NAP1
20	CEP250	ENSG00000126001	ENST00000425096	protein_coding	NOVEL	None	1859	629	208	34061826	34065921	1	CEP2	C-NAP1
20	CEP250	ENSG00000126001	ENST00000487467	retained_intron	KNOWN	None	1859	None	None	34082205	34084466	1	CEP2	C-NAP1
20	CEP250	ENSG00000126001	ENST00000425525	nonsense_mediated_decay	KNOWN	None	1859	417	138	34085638	34090632	1	CEP2	C-NAP1
20	CEP250	ENSG00000126001	ENST00000422671	protein_coding	NOVEL	None	1859	2634	877	34090734	34099469	1	CEP2	C-NAP1
20	CEP250	ENSG00000126001	ENST00000342580	protein_coding	KNOWN	None	1859	7161	2386	34043223	34099802	1	CEP2	C-NAP1
19	GEMIN7	ENSG00000142252	ENST00000591607	protein_coding	KNOWN	CCDS12654	20045	396	131	45582453	45594127	1	None	FLJ13956
19	GEMIN7	ENSG00000142252	ENST00000591747	protein_coding	KNOWN	CCDS12654	20045	396	131	45582516	45593795	1	None	FLJ13956
19	GEMIN7	ENSG00000142252	ENST00000270257	protein_coding	KNOWN	CCDS12654	20045	396	131	45582520	45594782	1	None	FLJ13956
19	GEMIN7	ENSG00000142252	ENST00000592351	processed_transcript	KNOWN	None	20045	None	None	45582521	45591957	1	None	FLJ13956
19	GEMIN7	ENSG00000142252	ENST00000391951	protein_coding	KNOWN	CCDS12654	20045	396	131	45582527	45593971	1	None	FLJ13956
15	RN7SKP139	ENSG00000222343	ENST00000410411	misc_RNA	KNOWN	None	45863	None	None	47564794	47565086	1	None	None
7	OR2F1	ENSG00000213215	ENST00000392899	protein_coding	KNOWN	CCDS5887	8246	954	317	143657027	143658108	1	OR2F4, OR2F5, OR2F3, OR2F3P	OLF3, OR7-140, OR7-139, OR14-60
1	MIR4422	ENSG00000265822	ENST00000581938	miRNA	KNOWN	None	41654	None	None	55691314	55691396	1	None	hsa-mir-4422
3	None	ENSG00000239408	ENST00000490852	processed_pseudogene	KNOWN	None	None	None	None	149182626	149182988	-1	None	None
17	None	ENSG00000263648	ENST00000582566	processed_pseudogene	KNOWN	None	None	None	None	12018864	12019202	1	None	None
1	ST13P19	ENSG00000228110	ENST00000442505	processed_pseudogene	KNOWN	None	38862	None	None	210438981	210440586	-1	None	None
1	ST13P19	ENSG00000228110	ENST00000425218	processed_pseudogene	KNOWN	None	38862	None	None	210440225	210440587	-1	None	None
11	HNRNPA1P40	ENSG00000212961	ENST00000426371	processed_pseudogene	KNOWN	None	48769	None	None	74065488	74066765	1	None	None
3	None	ENSG00000215941	ENST00000401122	miRNA	NOVEL	None	None	None	None	38948805	38948880	1	None	None
12	RN7SL770P	ENSG00000266023	ENST00000581566	misc_RNA	KNOWN	None	46786	None	None	56588931	56589180	1	None	None
8	None	ENSG00000253330	ENST00000519856	processed_pseudogene	KNOWN	None	None	None	None	48423596	48424703	-1	None	None
11	None	ENSG00000255155	ENST00000525240	processed_pseudogene	KNOWN	None	None	None	None	130414538	130414751	-1	None	None
5	AGXT2	ENSG00000113492	ENST00000231420	protein_coding	KNOWN	CCDS3908	14412	1545	514	34998206	35048198	-1	None	AGT2
5	AGXT2	ENSG00000113492	ENST00000512135	retained_intron	KNOWN	None	14412	None	None	34998208	35026500	-1	None	AGT2
5	AGXT2	ENSG00000113492	ENST00000510428	nonsense_mediated_decay	KNOWN	None	14412	1320	439	34998355	35048040	-1	None	AGT2
5	AGXT2	ENSG00000113492	ENST00000505349	retained_intron	KNOWN	None	14412	None	None	35012502	35025938	-1	None	AGT2
5	AGXT2	ENSG00000113492	ENST00000505542	retained_intron	KNOWN	None	14412	None	None	35033116	35047995	-1	None	AGT2
2	None	ENSG00000232548	ENST00000448431	lincRNA	KNOWN	None	None	None	None	83749938	83750626	1	None	None
9	None	ENSG00000204055	ENST00000372490	antisense	KNOWN	None	None	None	None	131939050	131972827	1	None	None
9	None	ENSG00000204055	ENST00000451229	antisense	KNOWN	None	None	None	None	131963594	131971465	1	None	None
17	None	ENSG00000265400	ENST00000585228	lincRNA	KNOWN	None	None	None	None	12104917	12118584	1	None	None
11	None	ENSG00000265837	ENST00000580516	miRNA	NOVEL	None	None	None	None	25558824	25558917	1	None	None
12	None	ENSG00000255581	ENST00000388966	processed_pseudogene	KNOWN	None	None	None	None	8169797	8170456	-1	None	None
12	None	ENSG00000258260	ENST00000546464	antisense	KNOWN	None	None	None	None	56661577	56663888	-1	None	None
1	GOT2P1	ENSG00000231900	ENST00000440922	processed_pseudogene	KNOWN	None	4434	None	None	55833139	55834447	1	GOT2L1	None
22	DGCR8	ENSG00000128191	ENST00000351989	protein_coding	KNOWN	CCDS13773	2847	2322	773	20067755	20099394	1	C22orf12	DGCRK6, Gy1, pasha
22	DGCR8	ENSG00000128191	ENST00000457069	protein_coding	KNOWN	None	2847	376	124	20068092	20073862	1	C22orf12	DGCRK6, Gy1, pasha
22	DGCR8	ENSG00000128191	ENST00000495826	retained_intron	KNOWN	None	2847	None	None	20073343	20099395	1	C22orf12	DGCRK6, Gy1, pasha
22	DGCR8	ENSG00000128191	ENST00000407755	protein_coding	KNOWN	CCDS54501	2847	2223	740	20073345	20099395	1	C22orf12	DGCRK6, Gy1, pasha
22	DGCR8	ENSG00000128191	ENST00000498171	retained_intron	KNOWN	None	2847	None	None	20074559	20099400	1	C22orf12	DGCRK6, Gy1, pasha
22	DGCR8	ENSG00000128191	ENST00000491892	retained_intron	KNOWN	None	2847	None	None	20082235	20094559	1	C22orf12	DGCRK6, Gy1, pasha
22	DGCR8	ENSG00000128191	ENST00000495351	retained_intron	KNOWN	None	2847	None	None	20093705	20095098	1	C22orf12	DGCRK6, Gy1, pasha
22	DGCR8	ENSG00000128191	ENST00000485802	retained_intron	KNOWN	None	2847	None	None	20094090	20096707	1	C22orf12	DGCRK6, Gy1, pasha
22	DGCR8	ENSG00000128191	ENST00000475941	retained_intron	KNOWN	None	2847	None	None	20095095	20098784	1	C22orf12	DGCRK6, Gy1, pasha
22	DGCR8	ENSG00000128191	ENST00000383024	protein_coding	KNOWN	CCDS54501	2847	2223	740	20067755	20099398	1	C22orf12	DGCRK6, Gy1, pasha
3	None	ENSG00000244503	ENST00000492880	processed_pseudogene	KNOWN	None	None	None	None	149212447	149213782	1	None	None
HG306_PATCH	NCAM1-AS1	ENSG00000262033	ENST00000574971	antisense	KNOWN	None	48675	None	None	113140254	113144528	-1	None	None
HG306_PATCH	NCAM1-AS1	ENSG00000262033	ENST00000574756	antisense	KNOWN	None	48675	None	None	113140441	113144623	-1	None	None
19	HMHA1	ENSG00000180448	ENST00000539243	protein_coding	PUTATIVE	CCDS58637	17102	3459	1152	1065922	1086265	1	None	KIAA0223, HA-1, ARHGAP45
19	HMHA1	ENSG00000180448	ENST00000587186	protein_coding	PUTATIVE	None	17102	511	169	1066508	1073222	1	None	KIAA0223, HA-1, ARHGAP45
19	HMHA1	ENSG00000180448	ENST00000313093	protein_coding	KNOWN	CCDS32863	17102	3411	1136	1067174	1086627	1	None	KIAA0223, HA-1, ARHGAP45
19	HMHA1	ENSG00000180448	ENST00000587602	nonsense_mediated_decay	KNOWN	None	17102	183	60	1067316	1086091	1	None	KIAA0223, HA-1, ARHGAP45
19	HMHA1	ENSG00000180448	ENST00000591293	retained_intron	KNOWN	None	17102	None	None	1067318	1080962	1	None	KIAA0223, HA-1, ARHGAP45
19	HMHA1	ENSG00000180448	ENST00000590214	protein_coding	NOVEL	None	17102	3492	1163	1067326	1086625	1	None	KIAA0223, HA-1, ARHGAP45
19	HMHA1	ENSG00000180448	ENST00000586866	protein_coding	PUTATIVE	None	17102	3423	1140	1067497	1086627	1	None	KIAA0223, HA-1, ARHGAP45
19	HMHA1	ENSG00000180448	ENST00000543365	protein_coding	PUTATIVE	None	17102	3060	1019	1071220	1086627	1	None	KIAA0223, HA-1, ARHGAP45
19	HMHA1	ENSG00000180448	ENST00000592335	protein_coding	PUTATIVE	None	17102	156	51	1071512	1073291	1	None	KIAA0223, HA-1, ARHGAP45
19	HMHA1	ENSG00000180448	ENST00000586033	retained_intron	KNOWN	None	17102	None	None	1073582	1074723	1	None	KIAA0223, HA-1, ARHGAP45
19	HMHA1	ENSG00000180448	ENST00000590577	protein_coding	PUTATIVE	None	17102	2316	771	1077442	1086627	1	None	KIAA0223, HA-1, ARHGAP45
19	HMHA1	ENSG00000180448	ENST00000586937	retained_intron	KNOWN	None	17102	None	None	1081188	1082955	1	None	KIAA0223, HA-1, ARHGAP45
19	HMHA1	ENSG00000180448	ENST00000590512	processed_transcript	KNOWN	None	17102	None	None	1082520	1083328	1	None	KIAA0223, HA-1, ARHGAP45
19	HMHA1	ENSG00000180448	ENST00000586378	retained_intron	KNOWN	None	17102	None	None	1082785	1085995	1	None	KIAA0223, HA-1, ARHGAP45
19	HMHA1	ENSG00000180448	ENST00000592297	retained_intron	KNOWN	None	17102	None	None	1082840	1086599	1	None	KIAA0223, HA-1, ARHGAP45
19	HMHA1	ENSG00000180448	ENST00000591169	processed_transcript	KNOWN	None	17102	None	None	1082938	1086214	1	None	KIAA0223, HA-1, ARHGAP45
19	HMHA1	ENSG00000180448	ENST00000536472	protein_coding	KNOWN	None	17102	3015	1004	1067316	1086091	1	None	KIAA0223, HA-1, ARHGAP45
3	None	ENSG00000242308	ENST00000477975	unprocessed_pseudogene	KNOWN	None	None	None	None	112415755	112416553	-1	None	None
11	RPL36AP40	ENSG00000240298	ENST00000473882	processed_pseudogene	KNOWN	None	36300	None	None	25610021	25610341	-1	None	None
11	RPL36AP40	ENSG00000240298	ENST00000398926	processed_pseudogene	KNOWN	None	36300	None	None	25610021	25610389	-1	None	None
2	SLC35F6	ENSG00000213699	ENST00000429494	nonsense_mediated_decay	KNOWN	None	26055	168	55	26987152	27004008	1	C2orf18	FLJ20555, ANT2BP, TANGO9
2	SLC35F6	ENSG00000213699	ENST00000344420	protein_coding	KNOWN	CCDS1728	26055	1116	371	26987156	27004099	1	C2orf18	FLJ20555, ANT2BP, TANGO9
2	SLC35F6	ENSG00000213699	ENST00000482746	processed_transcript	KNOWN	None	26055	None	None	26987158	27001087	1	C2orf18	FLJ20555, ANT2BP, TANGO9
2	SLC35F6	ENSG00000213699	ENST00000414029	nonsense_mediated_decay	KNOWN	None	26055	156	51	26987193	27004015	1	C2orf18	FLJ20555, ANT2BP, TANGO9
2	SLC35F6	ENSG00000213699	ENST00000416475	protein_coding	KNOWN	None	26055	867	288	26987157	27001739	1	C2orf18	FLJ20555, ANT2BP, TANGO9
11	None	ENSG00000255540	ENST00000527668	processed_pseudogene	KNOWN	None	None	None	None	89464185	89467950	1	None	None
2	None	ENSG00000224627	ENST00000412884	processed_pseudogene	KNOWN	None	None	None	None	83822080	83822367	1	None	None
14	None	ENSG00000258902	ENST00000557547	lincRNA	KNOWN	None	None	None	None	85828801	85983278	-1	None	None
7	OR6B1	ENSG00000221813	ENST00000408922	protein_coding	KNOWN	CCDS43667	8354	936	311	143701022	143702068	1	None	OR7-3
3	RNU6-1098P	ENSG00000252581	ENST00000516772	snRNA	KNOWN	None	48061	None	None	149243418	149243513	1	None	None
11	FAM86C2P	ENSG00000160172	ENST00000531806	processed_transcript	KNOWN	None	42392	None	None	67559119	67572793	-1	None	None
11	FAM86C2P	ENSG00000160172	ENST00000529253	processed_transcript	KNOWN	None	42392	None	None	67559238	67572805	-1	None	None
11	FAM86C2P	ENSG00000160172	ENST00000528089	processed_transcript	KNOWN	None	42392	None	None	67559255	67565140	-1	None	None
11	FAM86C2P	ENSG00000160172	ENST00000528684	transcribed_unprocessed_pseudogene	KNOWN	None	42392	None	None	67560667	67572784	-1	None	None
11	FAM86C2P	ENSG00000160172	ENST00000525180	processed_transcript	KNOWN	None	42392	None	None	67564154	67572807	-1	None	None
9	None	ENSG00000220992	ENST00000408065	miRNA	NOVEL	None	None	None	None	131992851	131992996	-1	None	None
17	PLCD3	ENSG00000161714	ENST00000540511	processed_transcript	KNOWN	None	9061	None	None	43186335	43209865	-1	None	None
17	PLCD3	ENSG00000161714	ENST00000539433	protein_coding	NOVEL	None	9061	335	110	43189671	43190916	-1	None	None
17	PLCD3	ENSG00000161714	ENST00000543623	processed_transcript	KNOWN	None	9061	None	None	43189791	43192496	-1	None	None
17	PLCD3	ENSG00000161714	ENST00000544333	retained_intron	KNOWN	None	9061	None	None	43190846	43192710	-1	None	None
17	PLCD3	ENSG00000161714	ENST00000545702	processed_transcript	KNOWN	None	9061	None	None	43190940	43192745	-1	None	None
17	PLCD3	ENSG00000161714	ENST00000412978	nonsense_mediated_decay	KNOWN	None	9061	110	35	43191618	43194078	-1	None	None
17	PLCD3	ENSG00000161714	ENST00000546350	retained_intron	KNOWN	None	9061	None	None	43195423	43196456	-1	None	None
17	PLCD3	ENSG00000161714	ENST00000542173	retained_intron	KNOWN	None	9061	None	None	43195621	43196289	-1	None	None
17	PLCD3	ENSG00000161714	ENST00000538988	protein_coding	NOVEL	None	9061	221	72	43195739	43196379	-1	None	None
17	PLCD3	ENSG00000161714	ENST00000590644	protein_coding	PUTATIVE	None	9061	585	194	43197722	43210721	-1	None	None
17	PLCD3	ENSG00000161714	ENST00000538093	protein_coding	PUTATIVE	None	9061	381	126	43197803	43210580	-1	None	None
17	PLCD3	ENSG00000161714	ENST00000544446	processed_transcript	KNOWN	None	9061	None	None	43198603	43209885	-1	None	None
17	PLCD3	ENSG00000161714	ENST00000322765	protein_coding	KNOWN	None	9061	2367	788	43189009	43209891	-1	None	None
3	RNU6-1227P	ENSG00000206708	ENST00000383981	snRNA	KNOWN	None	48190	None	None	39067478	39067584	1	None	None
10	MRPL35P3	ENSG00000226253	ENST00000421557	processed_pseudogene	KNOWN	None	23731	None	None	76287342	76287705	1	None	None
17	LINC00670	ENSG00000179136	ENST00000313495	lincRNA	KNOWN	None	44338	None	None	12453099	12540504	1	None	FLJ34690
17	LINC00670	ENSG00000179136	ENST00000577679	lincRNA	KNOWN	None	44338	None	None	12453298	12539099	1	None	FLJ34690
17	LINC00670	ENSG00000179136	ENST00000577863	lincRNA	KNOWN	None	44338	None	None	12538483	12546171	1	None	FLJ34690
11	None	ENSG00000264542	ENST00000578526	miRNA	NOVEL	None	None	None	None	106672075	106672218	-1	None	None
2	RNU6-1312P	ENSG00000199295	ENST00000362425	snRNA	KNOWN	None	48275	None	None	83884859	83884966	1	None	None
9	None	ENSG00000235007	ENST00000427080	lincRNA	KNOWN	None	None	None	None	132020633	132022125	1	None	None
11	None	ENSG00000254631	ENST00000531906	antisense	KNOWN	None	None	None	None	74108594	74139610	1	None	None
11	None	ENSG00000254631	ENST00000533008	antisense	KNOWN	None	None	None	None	74108698	74196787	1	None	None
7	OR2A5	ENSG00000221836	ENST00000408906	protein_coding	KNOWN	CCDS43668	8232	936	311	143747461	143748473	1	OR2A8, OR2A26	OR7-138, OR7-141
1	None	ENSG00000233455	ENST00000451327	processed_pseudogene	KNOWN	None	None	None	None	210477029	210477885	1	None	None
3	None	ENSG00000207351	ENST00000384621	misc_RNA	NOVEL	None	None	None	None	183804579	183804691	-1	None	None
GL000223.1	None	ENSG00000218497	ENST00000451927	protein_coding	KNOWN	None	None	2217	738	42781	68787	-1	None	None
3	WWTR1-IT1	ENSG00000241985	ENST00000463167	sense_intronic	KNOWN	None	41469	None	None	149366784	149367971	-1	None	None
2	None	ENSG00000252298	ENST00000516489	snoRNA	NOVEL	None	None	None	None	84085947	84086023	1	None	None
3	DSTNP4	ENSG00000215034	ENST00000399472	processed_pseudogene	KNOWN	None	44548	None	None	39255690	39256163	1	None	None
3	DSTNP4	ENSG00000215034	ENST00000403962	processed_pseudogene	KNOWN	None	44548	None	None	39255684	39256163	1	None	None
10	None	ENSG00000206756	ENST00000384029	misc_RNA	NOVEL	None	None	None	None	76311150	76311251	1	None	None
15	None	ENSG00000259554	ENST00000561254	sense_intronic	KNOWN	None	None	None	None	47566380	47567361	1	None	None
11	None	ENSG00000255454	ENST00000532310	processed_pseudogene	KNOWN	None	None	None	None	25652266	25652587	1	None	None
1	None	ENSG00000234441	ENST00000438604	unprocessed_pseudogene	KNOWN	None	None	None	None	104210693	104210890	-1	None	None
10	None	ENSG00000271710	ENST00000605525	processed_pseudogene	KNOWN	None	None	None	None	76401168	76401534	-1	None	None
2	None	ENSG00000236198	ENST00000454818	processed_pseudogene	KNOWN	None	None	None	None	84101832	84103457	-1	None	None
1	None	ENSG00000258465	ENST00000556710	protein_coding	PUTATIVE	None	None	2256	751	160187254	160254920	-1	None	None
1	None	ENSG00000258465	ENST00000485079	protein_coding	PUTATIVE	None	None	914	303	160209932	160252248	-1	None	None
1	None	ENSG00000258465	ENST00000467711	protein_coding	PUTATIVE	None	None	205	67	160247092	160249872	-1	None	None
11	None	ENSG00000234857	ENST00000403734	nonsense_mediated_decay	KNOWN	None	None	2241	746	62457747	62494856	-1	None	None
9	None	ENSG00000241084	ENST00000435157	lincRNA	KNOWN	None	None	None	None	132021341	132023860	1	None	None
11	KDM4D	ENSG00000186280	ENST00000335080	protein_coding	KNOWN	CCDS8302	25498	1572	523	94706845	94732682	1	JMJD2D	FLJ10251
11	KDM4D	ENSG00000186280	ENST00000536741	protein_coding	KNOWN	CCDS8302	25498	1572	523	94706987	94732678	1	JMJD2D	FLJ10251
12	None	ENSG00000257303	ENST00000549565	antisense	KNOWN	None	None	None	None	56693926	56708572	1	None	None
12	None	ENSG00000257303	ENST00000549860	antisense	KNOWN	None	None	None	None	56694496	56708592	1	None	None
11	None	ENSG00000213252	ENST00000531301	processed_pseudogene	KNOWN	None	None	None	None	106697118	106698616	-1	None	None
10	POLR3DP1	ENSG00000214626	ENST00000398689	processed_pseudogene	KNOWN	None	45107	None	None	76414714	76415889	1	None	None
7	OR2A25	ENSG00000221933	ENST00000408898	protein_coding	KNOWN	CCDS43669	19562	933	310	143771275	143772288	1	OR2A25P, OR2A27	None
8	None	ENSG00000269924	ENST00000602578	sense_intronic	KNOWN	None	None	None	None	48439959	48440710	1	None	None
1	RNU5A-8P	ENSG00000200972	ENST00000364102	snRNA	KNOWN	None	42530	None	None	210547498	210547611	-1	None	None
3	HTR3E-AS1	ENSG00000238020	ENST00000431427	antisense	KNOWN	None	41032	None	None	183812906	183822966	-1	None	None
2	None	ENSG00000223700	ENST00000431592	processed_pseudogene	KNOWN	None	None	None	None	84104851	84105677	-1	None	None
1	AMYP1	ENSG00000227408	ENST00000440059	unprocessed_pseudogene	KNOWN	None	479	None	None	104256345	104262493	1	AMY2P	None
3	None	ENSG00000240893	ENST00000481624	lincRNA	KNOWN	None	None	None	None	112455294	112468166	-1	None	None
17	None	ENSG00000266999	ENST00000587132	lincRNA	KNOWN	None	None	None	None	34220711	34238027	-1	None	None
17	None	ENSG00000266999	ENST00000587668	lincRNA	KNOWN	None	None	None	None	34232042	34233276	-1	None	None
2	INPP5D	ENSG00000168918	ENST00000422935	protein_coding	KNOWN	None	6079	662	219	233924677	233995358	1	None	SHIP, hp51CN
2	INPP5D	ENSG00000168918	ENST00000451407	protein_coding	KNOWN	None	6079	665	220	233925062	233995358	1	None	SHIP, hp51CN
2	INPP5D	ENSG00000168918	ENST00000467393	processed_transcript	KNOWN	None	6079	None	None	233940972	233990515	1	None	SHIP, hp51CN
2	INPP5D	ENSG00000168918	ENST00000474278	processed_transcript	KNOWN	None	6079	None	None	233985312	233995358	1	None	SHIP, hp51CN
2	INPP5D	ENSG00000168918	ENST00000496402	retained_intron	KNOWN	None	6079	None	None	233986926	233995569	1	None	SHIP, hp51CN
2	INPP5D	ENSG00000168918	ENST00000435188	protein_coding	KNOWN	None	6079	2433	810	234070370	234116543	1	None	SHIP, hp51CN
2	INPP5D	ENSG00000168918	ENST00000415617	protein_coding	KNOWN	None	6079	2433	810	234070370	234116549	1	None	SHIP, hp51CN
2	INPP5D	ENSG00000168918	ENST00000445964	protein_coding	KNOWN	None	6079	2433	810	234070370	234116549	1	None	SHIP, hp51CN
2	INPP5D	ENSG00000168918	ENST00000493078	retained_intron	KNOWN	None	6079	None	None	234070435	234077975	1	None	SHIP, hp51CN
2	INPP5D	ENSG00000168918	ENST00000472517	processed_transcript	KNOWN	None	6079	None	None	234072947	234079222	1	None	SHIP, hp51CN
2	INPP5D	ENSG00000168918	ENST00000493632	retained_intron	KNOWN	None	6079	None	None	234078206	234091128	1	None	SHIP, hp51CN
2	INPP5D	ENSG00000168918	ENST00000480983	retained_intron	KNOWN	None	6079	None	None	234078667	234079895	1	None	SHIP, hp51CN
2	INPP5D	ENSG00000168918	ENST00000465281	retained_intron	KNOWN	None	6079	None	None	234079020	234093129	1	None	SHIP, hp51CN
2	INPP5D	ENSG00000168918	ENST00000417661	protein_coding	NOVEL	None	6079	393	130	234104083	234115598	1	None	SHIP, hp51CN
2	INPP5D	ENSG00000168918	ENST00000491070	nonsense_mediated_decay	KNOWN	None	6079	130	42	234113288	234114298	1	None	SHIP, hp51CN
2	INPP5D	ENSG00000168918	ENST00000359570	protein_coding	KNOWN	None	6079	3534	1177	233925189	234116548	1	None	SHIP, hp51CN
2	INPP5D	ENSG00000168918	ENST00000538935	protein_coding	KNOWN	None	6079	1788	595	233925189	234093111	1	None	SHIP, hp51CN
2	INPP5D	ENSG00000168918	ENST00000450745	protein_coding	KNOWN	None	6079	2826	941	234053919	234116548	1	None	SHIP, hp51CN
2	INPP5D	ENSG00000168918	ENST00000455936	protein_coding	KNOWN	None	6079	2826	941	234054795	234116549	1	None	SHIP, hp51CN
10	None	ENSG00000213525	ENST00000454758	processed_pseudogene	KNOWN	None	None	None	None	76504144	76504465	-1	None	None
1	None	ENSG00000270936	ENST00000605288	processed_pseudogene	KNOWN	None	None	None	None	210635689	210636356	-1	None	None
11	None	ENSG00000254456	ENST00000526327	lincRNA	KNOWN	None	None	None	None	25756317	25803213	1	None	None
11	None	ENSG00000254456	ENST00000533049	lincRNA	KNOWN	None	None	None	None	25756317	25803305	1	None	None
11	None	ENSG00000254456	ENST00000533942	lincRNA	KNOWN	None	None	None	None	25756356	25795970	1	None	None
19	None	ENSG00000269460	ENST00000456368	lincRNA	KNOWN	None	None	None	None	40175884	40185217	1	None	None
12	FBXO21	ENSG00000135108	ENST00000427718	protein_coding	KNOWN	CCDS44989	13592	1866	621	117581146	117628336	-1	None	FBX21, KIAA0875
12	FBXO21	ENSG00000135108	ENST00000550180	protein_coding	NOVEL	None	13592	1516	504	117582854	117628091	-1	None	FBX21, KIAA0875
12	FBXO21	ENSG00000135108	ENST00000330622	protein_coding	KNOWN	CCDS9184	13592	1887	628	117582873	117628261	-1	None	FBX21, KIAA0875
12	FBXO21	ENSG00000135108	ENST00000547806	processed_transcript	KNOWN	None	13592	None	None	117592055	117595833	-1	None	FBX21, KIAA0875
12	FBXO21	ENSG00000135108	ENST00000548840	protein_coding	PUTATIVE	None	13592	678	225	117592859	117604851	-1	None	FBX21, KIAA0875
12	FBXO21	ENSG00000135108	ENST00000549689	processed_transcript	KNOWN	None	13592	None	None	117610315	117626836	-1	None	FBX21, KIAA0875
12	FBXO21	ENSG00000135108	ENST00000551458	processed_transcript	KNOWN	None	13592	None	None	117624282	117628275	-1	None	FBX21, KIAA0875
14	None	ENSG00000258814	ENST00000554753	lincRNA	KNOWN	None	None	None	None	85853619	85855109	1	None	None
12	None	ENSG00000258123	ENST00000550723	lincRNA	KNOWN	None	None	None	None	73552970	73602097	1	None	None
1	KIRREL-IT1	ENSG00000226520	ENST00000419415	sense_intronic	KNOWN	None	41412	None	None	157995340	158000956	1	None	None
1	None	ENSG00000232198	ENST00000421994	processed_pseudogene	KNOWN	None	None	None	None	55838383	55838989	-1	None	None
X	None	ENSG00000264567	ENST00000582573	miRNA	NOVEL	None	None	None	None	117512907	117513007	1	None	None
HSCHR6_MHC_APD	C6orf48	ENSG00000234728	ENST00000424962	protein_coding	KNOWN	None	19078	228	75	31813742	31818895	1	None	D6S57, G8
HSCHR6_MHC_APD	C6orf48	ENSG00000234728	ENST00000456268	protein_coding	KNOWN	None	19078	228	75	31813761	31818895	1	None	D6S57, G8
HSCHR6_MHC_APD	C6orf48	ENSG00000234728	ENST00000435938	protein_coding	KNOWN	None	19078	228	75	31814042	31818895	1	None	D6S57, G8
HSCHR6_MHC_APD	C6orf48	ENSG00000234728	ENST00000433752	protein_coding	KNOWN	None	19078	228	75	31814042	31818895	1	None	D6S57, G8
HSCHR6_MHC_APD	C6orf48	ENSG00000234728	ENST00000458514	protein_coding	KNOWN	None	19078	228	75	31814042	31818895	1	None	D6S57, G8
HSCHR6_MHC_APD	C6orf48	ENSG00000234728	ENST00000430690	protein_coding	KNOWN	None	19078	228	75	31814052	31818895	1	None	D6S57, G8
HSCHR6_MHC_APD	C6orf48	ENSG00000234728	ENST00000436558	protein_coding	KNOWN	None	19078	228	75	31814066	31818895	1	None	D6S57, G8
HSCHR6_MHC_APD	C6orf48	ENSG00000234728	ENST00000456690	protein_coding	KNOWN	None	19078	228	75	31814419	31818895	1	None	D6S57, G8
HSCHR6_MHC_APD	C6orf48	ENSG00000234728	ENST00000439907	protein_coding	KNOWN	None	19078	228	75	31815978	31818898	1	None	D6S57, G8
HSCHR6_MHC_APD	C6orf48	ENSG00000234728	ENST00000550200	protein_coding	KNOWN	None	19078	378	125	31814050	31818891	1	None	D6S57, G8
HSCHR6_MHC_APD	C6orf48	ENSG00000234728	ENST00000549426	protein_coding	KNOWN	None	19078	297	98	31814050	31818891	1	None	D6S57, G8
11	UBTFL2	ENSG00000234376	ENST00000411859	processed_pseudogene	KNOWN	None	35169	None	None	89485953	89487143	-1	None	None
11	UBTFL2	ENSG00000234376	ENST00000525905	processed_pseudogene	KNOWN	None	35169	None	None	89485953	89487134	-1	None	None
2	None	ENSG00000228225	ENST00000442571	processed_pseudogene	KNOWN	None	None	None	None	84258264	84259482	1	None	None
8	DEFB108P1	ENSG00000229907	ENST00000530110	unprocessed_pseudogene	KNOWN	None	18089	None	None	7791934	7796292	-1	DEFB108	DEFB-8, DEFB108A
13	MRP63	ENSG00000173141	ENST00000309594	protein_coding	KNOWN	CCDS9296	14514	309	102	21750784	21753223	1	None	None
3	None	ENSG00000235978	ENST00000465436	processed_transcript	PUTATIVE	None	None	None	None	4855978	4898439	-1	None	None
3	None	ENSG00000235978	ENST00000449914	protein_coding	PUTATIVE	None	None	261	86	4855981	4927472	-1	None	None
3	None	ENSG00000235978	ENST00000441894	protein_coding	PUTATIVE	None	None	144	47	4855981	4928977	-1	None	None
3	None	ENSG00000235978	ENST00000496600	processed_transcript	KNOWN	None	None	None	None	4855985	4873074	-1	None	None
3	None	ENSG00000235978	ENST00000489771	processed_transcript	KNOWN	None	None	None	None	4855989	4873033	-1	None	None
3	None	ENSG00000235978	ENST00000474544	processed_transcript	PUTATIVE	None	None	None	None	4855996	4856857	-1	None	None
3	None	ENSG00000235978	ENST00000478724	processed_transcript	PUTATIVE	None	None	None	None	4855996	4857960	-1	None	None
11	CELF1	ENSG00000149187	ENST00000358597	protein_coding	KNOWN	CCDS31482	2549	1461	486	47489836	47510566	-1	CUGBP1	CUG-BP, hNab50, BRUNOL2, NAB50, CUGBP, NAPOR, EDEN-BP
11	CELF1	ENSG00000149187	ENST00000395292	protein_coding	KNOWN	CCDS7939	2549	1452	483	47489945	47516073	-1	CUGBP1	CUG-BP, hNab50, BRUNOL2, NAB50, CUGBP, NAPOR, EDEN-BP
11	CELF1	ENSG00000149187	ENST00000310513	protein_coding	KNOWN	CCDS7938	2549	1449	482	47489956	47574669	-1	CUGBP1	CUG-BP, hNab50, BRUNOL2, NAB50, CUGBP, NAPOR, EDEN-BP
11	CELF1	ENSG00000149187	ENST00000361904	protein_coding	NOVEL	CCDS7939	2549	1452	483	47490366	47510577	-1	CUGBP1	CUG-BP, hNab50, BRUNOL2, NAB50, CUGBP, NAPOR, EDEN-BP
11	CELF1	ENSG00000149187	ENST00000539455	processed_transcript	KNOWN	None	2549	None	None	47491846	47497009	-1	CUGBP1	CUG-BP, hNab50, BRUNOL2, NAB50, CUGBP, NAPOR, EDEN-BP
11	CELF1	ENSG00000149187	ENST00000531165	protein_coding	NOVEL	None	2549	1545	514	47491868	47574669	-1	CUGBP1	CUG-BP, hNab50, BRUNOL2, NAB50, CUGBP, NAPOR, EDEN-BP
11	CELF1	ENSG00000149187	ENST00000532048	protein_coding	KNOWN	CCDS53623	2549	1539	512	47491870	47545540	-1	CUGBP1	CUG-BP, hNab50, BRUNOL2, NAB50, CUGBP, NAPOR, EDEN-BP
11	CELF1	ENSG00000149187	ENST00000524648	processed_transcript	PUTATIVE	None	2549	None	None	47491881	47493908	-1	CUGBP1	CUG-BP, hNab50, BRUNOL2, NAB50, CUGBP, NAPOR, EDEN-BP
11	CELF1	ENSG00000149187	ENST00000539254	processed_transcript	KNOWN	None	2549	None	None	47493883	47498612	-1	CUGBP1	CUG-BP, hNab50, BRUNOL2, NAB50, CUGBP, NAPOR, EDEN-BP
11	CELF1	ENSG00000149187	ENST00000534614	retained_intron	KNOWN	None	2549	None	None	47497008	47499235	-1	CUGBP1	CUG-BP, hNab50, BRUNOL2, NAB50, CUGBP, NAPOR, EDEN-BP
11	CELF1	ENSG00000149187	ENST00000422993	processed_transcript	KNOWN	None	2549	None	None	47498848	47508351	-1	CUGBP1	CUG-BP, hNab50, BRUNOL2, NAB50, CUGBP, NAPOR, EDEN-BP
11	CELF1	ENSG00000149187	ENST00000532146	retained_intron	KNOWN	None	2549	None	None	47503994	47505062	-1	CUGBP1	CUG-BP, hNab50, BRUNOL2, NAB50, CUGBP, NAPOR, EDEN-BP
11	CELF1	ENSG00000149187	ENST00000530151	protein_coding	PUTATIVE	None	2549	286	94	47508326	47587072	-1	CUGBP1	CUG-BP, hNab50, BRUNOL2, NAB50, CUGBP, NAPOR, EDEN-BP
11	CELF1	ENSG00000149187	ENST00000528434	protein_coding	PUTATIVE	None	2549	342	113	47508711	47545199	-1	CUGBP1	CUG-BP, hNab50, BRUNOL2, NAB50, CUGBP, NAPOR, EDEN-BP
11	CELF1	ENSG00000149187	ENST00000525841	protein_coding	NOVEL	None	2549	261	86	47508711	47587057	-1	CUGBP1	CUG-BP, hNab50, BRUNOL2, NAB50, CUGBP, NAPOR, EDEN-BP
11	CELF1	ENSG00000149187	ENST00000543178	protein_coding	KNOWN	None	2549	236	77	47508736	47546333	-1	CUGBP1	CUG-BP, hNab50, BRUNOL2, NAB50, CUGBP, NAPOR, EDEN-BP
11	CELF1	ENSG00000149187	ENST00000535982	protein_coding	KNOWN	None	2549	309	102	47508744	47521315	-1	CUGBP1	CUG-BP, hNab50, BRUNOL2, NAB50, CUGBP, NAPOR, EDEN-BP
11	CELF1	ENSG00000149187	ENST00000526419	protein_coding	NOVEL	None	2549	170	55	47510397	47587121	-1	CUGBP1	CUG-BP, hNab50, BRUNOL2, NAB50, CUGBP, NAPOR, EDEN-BP
11	CELF1	ENSG00000149187	ENST00000528538	protein_coding	KNOWN	None	2549	43	13	47510524	47546226	-1	CUGBP1	CUG-BP, hNab50, BRUNOL2, NAB50, CUGBP, NAPOR, EDEN-BP
11	CELF1	ENSG00000149187	ENST00000526277	protein_coding	KNOWN	None	2549	113	36	47510535	47545089	-1	CUGBP1	CUG-BP, hNab50, BRUNOL2, NAB50, CUGBP, NAPOR, EDEN-BP
11	CELF1	ENSG00000149187	ENST00000395290	protein_coding	KNOWN	CCDS53622	2549	1458	485	47487496	47510576	-1	CUGBP1	CUG-BP, hNab50, BRUNOL2, NAB50, CUGBP, NAPOR, EDEN-BP
1	IPO8P1	ENSG00000224668	ENST00000455509	processed_pseudogene	KNOWN	None	41955	None	None	211032519	211035627	-1	None	None
11	None	ENSG00000255226	ENST00000531982	antisense	KNOWN	None	None	None	None	45772374	45773422	-1	None	None
11	None	ENSG00000255226	ENST00000526225	antisense	KNOWN	None	None	None	None	45772657	45773124	-1	None	None
7	OR2A12	ENSG00000221858	ENST00000408949	protein_coding	KNOWN	CCDS43670	15082	933	310	143792141	143793186	1	OR2A12P	None
1	ELTD1	ENSG00000162618	ENST00000401034	protein_coding	KNOWN	None	20822	450	149	79355449	79383570	-1	None	ETL
1	ELTD1	ENSG00000162618	ENST00000370742	protein_coding	KNOWN	CCDS41352	20822	2073	690	79355449	79472403	-1	None	ETL
11	MIR548AL	ENSG00000264402	ENST00000578416	miRNA	KNOWN	None	41736	None	None	74110282	74110378	1	None	hsa-mir-548al
5	SEPP1	ENSG00000250722	ENST00000514985	protein_coding	KNOWN	CCDS43311	10751	1146	381	42799982	42812181	-1	None	SeP
5	SEPP1	ENSG00000250722	ENST00000512980	retained_intron	KNOWN	None	10751	None	None	42799985	42811994	-1	None	SeP
5	SEPP1	ENSG00000250722	ENST00000511224	protein_coding	KNOWN	CCDS43311	10751	1146	381	42800214	42811994	-1	None	SeP
5	SEPP1	ENSG00000250722	ENST00000506577	protein_coding	KNOWN	CCDS43311	10751	1146	381	42800233	42825998	-1	None	SeP
5	SEPP1	ENSG00000250722	ENST00000507920	protein_coding	PUTATIVE	None	10751	516	171	42800921	42811994	-1	None	SeP
5	SEPP1	ENSG00000250722	ENST00000509276	processed_transcript	KNOWN	None	10751	None	None	42801030	42808468	-1	None	SeP
5	SEPP1	ENSG00000250722	ENST00000514218	protein_coding	KNOWN	None	10751	932	309	42801036	42887494	-1	None	SeP
5	SEPP1	ENSG00000250722	ENST00000513303	processed_transcript	KNOWN	None	10751	None	None	42801207	42811995	-1	None	SeP
5	SEPP1	ENSG00000250722	ENST00000514403	retained_intron	KNOWN	None	10751	None	None	42801302	42807400	-1	None	SeP
5	SEPP1	ENSG00000250722	ENST00000510965	protein_coding	KNOWN	None	10751	628	208	42801340	42811995	-1	None	SeP
5	SEPP1	ENSG00000250722	ENST00000505309	retained_intron	KNOWN	None	10751	None	None	42804771	42808507	-1	None	SeP
5	SEPP1	ENSG00000250722	ENST00000510650	retained_intron	KNOWN	None	10751	None	None	42806685	42811991	-1	None	SeP
5	SEPP1	ENSG00000250722	ENST00000506078	retained_intron	KNOWN	None	10751	None	None	42806685	42811994	-1	None	SeP
5	SEPP1	ENSG00000250722	ENST00000515626	processed_transcript	KNOWN	None	10751	None	None	42807004	42811994	-1	None	SeP
5	SEPP1	ENSG00000250722	ENST00000508937	retained_intron	KNOWN	None	10751	None	None	42807920	42811994	-1	None	SeP
1	None	ENSG00000231666	ENST00000442358	lincRNA	KNOWN	None	None	None	None	158101834	158110420	-1	None	None
1	None	ENSG00000231666	ENST00000414848	lincRNA	KNOWN	None	None	None	None	158101834	158110429	-1	None	None
HG14_PATCH	None	ENSG00000260653	ENST00000561575	lincRNA	KNOWN	None	None	None	None	57472478	57483910	1	None	None
HG14_PATCH	None	ENSG00000260653	ENST00000563054	lincRNA	KNOWN	None	None	None	None	57472490	57481248	1	None	None
17	LRRC37A9P	ENSG00000266972	ENST00000586565	processed_pseudogene	KNOWN	None	43813	None	None	34239639	34245014	-1	None	None
12	None	ENSG00000257740	ENST00000546789	antisense	KNOWN	None	None	None	None	56702652	56703233	1	None	None
14	KRT8P2	ENSG00000258828	ENST00000556193	processed_pseudogene	KNOWN	None	20282	None	None	44010086	44011029	-1	None	OTTHUMG00000135122
5	None	ENSG00000253776	ENST00000523745	lincRNA	PUTATIVE	None	None	None	None	104109342	104135473	1	None	None
1	RN7SKP291	ENSG00000199831	ENST00000362961	misc_RNA	KNOWN	None	46015	None	None	55842199	55842525	-1	None	None
7	PAICSP6	ENSG00000241136	ENST00000462572	processed_pseudogene	KNOWN	None	38099	None	None	143479760	143481377	1	None	None
2	ST6GALNAC2P1	ENSG00000228902	ENST00000451049	processed_pseudogene	KNOWN	None	45160	None	None	84267009	84267844	-1	None	None
13	HMGB3P4	ENSG00000228808	ENST00000428776	processed_pseudogene	KNOWN	None	39104	None	None	100024427	100024940	1	None	None
3	None	ENSG00000242770	ENST00000496067	antisense	KNOWN	None	None	None	None	112521325	112531666	1	None	None
3	None	ENSG00000242770	ENST00000519700	retained_intron	KNOWN	None	None	None	None	112521443	112522451	1	None	None
3	WWTR1-AS1	ENSG00000241313	ENST00000495094	antisense	KNOWN	None	41035	None	None	149374807	149376098	1	None	None
3	WWTR1-AS1	ENSG00000241313	ENST00000466836	antisense	KNOWN	None	41035	None	None	149374839	149375593	1	None	None
3	WWTR1-AS1	ENSG00000241313	ENST00000479752	antisense	KNOWN	None	41035	None	None	149375997	149379151	1	None	None
7	OR2A2	ENSG00000221989	ENST00000408979	protein_coding	KNOWN	CCDS43671	8230	957	318	143806607	143807657	1	OR2A2P, OR2A17P	OST008
1	RNU6-830P	ENSG00000252162	ENST00000516353	snRNA	KNOWN	None	47793	None	None	55864187	55864293	1	None	None
11	BAK1P2	ENSG00000236616	ENST00000532665	processed_pseudogene	KNOWN	None	997	None	None	130416694	130417324	-1	BCL2L7P2	BAK3, BAK3P
1	KCNH1-IT1	ENSG00000234233	ENST00000438597	sense_intronic	KNOWN	None	41351	None	None	211305930	211306716	-1	None	None
X	MIR1277	ENSG00000221463	ENST00000408536	miRNA	KNOWN	None	35350	None	None	117520357	117520434	1	MIRN1277	hsa-mir-1277
X	NR0B1	ENSG00000169297	ENST00000378970	protein_coding	KNOWN	CCDS14223	7960	1413	470	30322323	30327715	-1	AHC, DSS	DAX1, AHCH
X	NR0B1	ENSG00000169297	ENST00000378963	protein_coding	KNOWN	None	7960	318	105	30323791	30326605	-1	AHC, DSS	DAX1, AHCH
X	NR0B1	ENSG00000169297	ENST00000453287	protein_coding	KNOWN	None	7960	1203	400	30323938	30327495	-1	AHC, DSS	DAX1, AHCH
11	None	ENSG00000254971	ENST00000527332	lincRNA	KNOWN	None	None	None	None	89487150	89488121	-1	None	None
12	POU5F1P3	ENSG00000235602	ENST00000428824	processed_pseudogene	KNOWN	None	9222	None	None	8286368	8287445	-1	OTF3L, POU5F1L	POU5FLC12
12	POU5F1P3	ENSG00000235602	ENST00000451845	processed_pseudogene	KNOWN	None	9222	None	None	8286887	8287447	-1	OTF3L, POU5F1L	POU5FLC12
15	None	ENSG00000259221	ENST00000559799	antisense	KNOWN	None	None	None	None	47651627	47688929	-1	None	None
15	None	ENSG00000259221	ENST00000557882	antisense	KNOWN	None	None	None	None	47652197	47688802	-1	None	None
15	None	ENSG00000259221	ENST00000560180	antisense	KNOWN	None	None	None	None	47652202	47688788	-1	None	None
2	RANBP2	ENSG00000153201	ENST00000283195	protein_coding	KNOWN	CCDS2079	9848	9675	3224	109335937	109402267	1	None	NUP358
2	RANBP2	ENSG00000153201	ENST00000425282	nonsense_mediated_decay	KNOWN	None	9848	156	51	109336009	109352007	1	None	NUP358
2	RANBP2	ENSG00000153201	ENST00000495924	retained_intron	KNOWN	None	9848	None	None	109347273	109348354	1	None	NUP358
2	RANBP2	ENSG00000153201	ENST00000495506	retained_intron	KNOWN	None	9848	None	None	109368007	109369553	1	None	NUP358
1	None	ENSG00000272051	ENST00000606692	misc_RNA	NOVEL	None	None	None	None	55950544	55950645	-1	None	None
X	None	ENSG00000206862	ENST00000384135	misc_RNA	NOVEL	None	None	None	None	117703368	117703478	-1	None	None
19	None	ENSG00000268088	ENST00000599317	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	40184565	40186898	1	None	None
2	FUNDC2P2	ENSG00000182814	ENST00000331369	processed_transcript	KNOWN	None	17247	None	None	84517807	84519326	1	None	None
2	FUNDC2P2	ENSG00000182814	ENST00000443452	transcribed_processed_pseudogene	KNOWN	None	17247	None	None	84517901	84518393	1	None	None
2	FUNDC2P2	ENSG00000182814	ENST00000538499	processed_pseudogene	KNOWN	None	17247	None	None	84517806	84519324	1	None	None
12	RNU7-40P	ENSG00000252206	ENST00000516397	snRNA	KNOWN	None	34136	None	None	56746171	56746234	-1	None	U7.40
1	ELL2P1	ENSG00000227295	ENST00000413990	processed_pseudogene	KNOWN	None	39343	None	None	158145640	158147545	-1	None	None
1	None	ENSG00000234810	ENST00000422374	lincRNA	KNOWN	None	None	None	None	56046710	56200675	1	None	None
1	None	ENSG00000234004	ENST00000427600	processed_pseudogene	KNOWN	None	None	None	None	211346830	211347191	1	None	None
1	None	ENSG00000234004	ENST00000457822	processed_pseudogene	KNOWN	None	None	None	None	211346819	211347193	1	None	None
5	None	ENSG00000238796	ENST00000459045	snoRNA	NOVEL	None	None	None	None	133186548	133186648	-1	None	None
11	IGSF9B	ENSG00000080854	ENST00000564347	processed_transcript	KNOWN	None	32326	None	None	133778459	133782257	-1	None	KIAA1030
11	IGSF9B	ENSG00000080854	ENST00000533871	protein_coding	PUTATIVE	None	32326	4314	1437	133778459	133826880	-1	None	KIAA1030
11	IGSF9B	ENSG00000080854	ENST00000530957	processed_transcript	KNOWN	None	32326	None	None	133779078	133782013	-1	None	KIAA1030
11	IGSF9B	ENSG00000080854	ENST00000527648	retained_intron	KNOWN	None	32326	None	None	133792471	133807995	-1	None	KIAA1030
11	IGSF9B	ENSG00000080854	ENST00000533160	protein_coding	PUTATIVE	None	32326	618	205	133807302	133816187	-1	None	KIAA1030
11	IGSF9B	ENSG00000080854	ENST00000526663	protein_coding	PUTATIVE	None	32326	486	161	133814179	133822111	-1	None	KIAA1030
11	IGSF9B	ENSG00000080854	ENST00000321016	protein_coding	KNOWN	None	32326	4050	1349	133785185	133826880	-1	None	KIAA1030
2	None	ENSG00000269417	ENST00000595179	protein_coding	NOVEL	None	None	54	17	85122209	85122345	-1	None	None
11	None	ENSG00000255440	ENST00000524441	sense_intronic	KNOWN	None	None	None	None	74120105	74127424	1	None	None
2	None	ENSG00000227574	ENST00000456683	antisense	KNOWN	None	None	None	None	111206819	111208641	1	None	None
8	FAM66E	ENSG00000225725	ENST00000529252	lincRNA	KNOWN	None	18735	None	None	7812536	7866277	1	None	None
8	FAM66E	ENSG00000225725	ENST00000533615	lincRNA	KNOWN	None	18735	None	None	7812596	7848219	1	None	None
12	None	ENSG00000259099	ENST00000554784	processed_pseudogene	KNOWN	None	None	None	None	56774145	56776495	-1	None	None
19	C19orf12	ENSG00000131943	ENST00000323670	protein_coding	KNOWN	CCDS12418	25443	426	141	30191721	30206161	-1	SPG43	MGC10922, DKFZP762D096, NBIA4
19	C19orf12	ENSG00000131943	ENST00000392276	protein_coding	KNOWN	None	25443	234	77	30192070	30206128	-1	SPG43	MGC10922, DKFZP762D096, NBIA4
19	C19orf12	ENSG00000131943	ENST00000592153	protein_coding	KNOWN	CCDS59373	25443	324	107	30192596	30206131	-1	SPG43	MGC10922, DKFZP762D096, NBIA4
19	C19orf12	ENSG00000131943	ENST00000392275	processed_transcript	KNOWN	None	25443	None	None	30193248	30206364	-1	SPG43	MGC10922, DKFZP762D096, NBIA4
19	C19orf12	ENSG00000131943	ENST00000392278	protein_coding	KNOWN	CCDS42542	25443	459	152	30193310	30205963	-1	SPG43	MGC10922, DKFZP762D096, NBIA4
19	C19orf12	ENSG00000131943	ENST00000591243	protein_coding	PUTATIVE	None	25443	319	105	30193726	30199547	-1	SPG43	MGC10922, DKFZP762D096, NBIA4
19	C19orf12	ENSG00000131943	ENST00000342680	nonsense_mediated_decay	KNOWN	None	25443	207	68	30193749	30206182	-1	SPG43	MGC10922, DKFZP762D096, NBIA4
16	RPL17P40	ENSG00000241067	ENST00000400791	processed_pseudogene	KNOWN	None	36672	None	None	16188049	16189066	-1	None	None
HG306_PATCH	None	ENSG00000262659	ENST00000576347	antisense	KNOWN	None	None	None	None	113149159	113154712	-1	None	None
HG306_PATCH	None	ENSG00000262659	ENST00000571662	antisense	KNOWN	None	None	None	None	113149275	113185146	-1	None	None
HG306_PATCH	None	ENSG00000262659	ENST00000571509	antisense	KNOWN	None	None	None	None	113150105	113185159	-1	None	None
1	None	ENSG00000225191	ENST00000441083	processed_pseudogene	KNOWN	None	None	None	None	104469189	104470428	1	None	None
2	C2orf53	ENSG00000186143	ENST00000335524	protein_coding	KNOWN	CCDS1739	28677	1239	412	27359723	27362278	-1	None	MGC44505
2	C2orf53	ENSG00000186143	ENST00000432962	protein_coding	PUTATIVE	None	28677	313	103	27360391	27362271	-1	None	MGC44505
2	RNU6-627P	ENSG00000200902	ENST00000364032	snRNA	KNOWN	None	47590	None	None	164145505	164145606	1	None	None
12	NT5DC3	ENSG00000111696	ENST00000447799	nonsense_mediated_decay	KNOWN	None	30826	368	121	104164231	104179162	-1	None	TU12B1-TY, FLJ11266
12	NT5DC3	ENSG00000111696	ENST00000392876	protein_coding	KNOWN	CCDS41824	30826	1647	548	104166088	104234975	-1	None	TU12B1-TY, FLJ11266
12	NT5DC3	ENSG00000111696	ENST00000415849	nonsense_mediated_decay	KNOWN	None	30826	406	134	104171778	104187250	-1	None	TU12B1-TY, FLJ11266
12	NT5DC3	ENSG00000111696	ENST00000474268	processed_transcript	KNOWN	None	30826	None	None	104181244	104182835	-1	None	TU12B1-TY, FLJ11266
12	NT5DC3	ENSG00000111696	ENST00000465502	processed_transcript	KNOWN	None	30826	None	None	104190671	104196179	-1	None	TU12B1-TY, FLJ11266
2	None	ENSG00000231583	ENST00000451204	unprocessed_pseudogene	KNOWN	None	None	None	None	111257677	111257812	1	None	None
16	SNRNP25	ENSG00000161981	ENST00000293861	protein_coding	KNOWN	None	14161	372	123	103010	107669	1	C16orf33	None
16	SNRNP25	ENSG00000161981	ENST00000397876	nonsense_mediated_decay	KNOWN	None	14161	279	92	103887	107372	1	C16orf33	None
16	SNRNP25	ENSG00000161981	ENST00000493672	processed_transcript	KNOWN	None	14161	None	None	103899	105871	1	C16orf33	None
16	SNRNP25	ENSG00000161981	ENST00000417493	protein_coding	NOVEL	None	14161	290	95	103899	106613	1	C16orf33	None
16	SNRNP25	ENSG00000161981	ENST00000466183	retained_intron	KNOWN	None	14161	None	None	104960	107444	1	C16orf33	None
16	SNRNP25	ENSG00000161981	ENST00000481947	retained_intron	KNOWN	None	14161	None	None	105495	107453	1	C16orf33	None
16	SNRNP25	ENSG00000161981	ENST00000383018	protein_coding	KNOWN	CCDS10396	14161	399	132	103829	107668	1	C16orf33	None
7	OR2A14	ENSG00000221938	ENST00000408899	protein_coding	KNOWN	CCDS43672	15084	933	310	143826151	143827162	1	OR2A14P, OR2A6	OST182
5	RN7SL572P	ENSG00000264118	ENST00000584282	misc_RNA	KNOWN	None	46588	None	None	23201554	23201836	1	None	None
11	PIK3C2A	ENSG00000011405	ENST00000531428	processed_transcript	KNOWN	None	8971	None	None	17099277	17229467	-1	None	PI3K-C2alpha
11	PIK3C2A	ENSG00000011405	ENST00000265970	protein_coding	KNOWN	CCDS7824	8971	5061	1686	17108119	17191288	-1	None	PI3K-C2alpha
11	PIK3C2A	ENSG00000011405	ENST00000533645	nonsense_mediated_decay	KNOWN	None	8971	1452	483	17162869	17229494	-1	None	PI3K-C2alpha
11	PIK3C2A	ENSG00000011405	ENST00000532035	protein_coding	KNOWN	None	8971	390	129	17190899	17229497	-1	None	PI3K-C2alpha
11	PIK3C2A	ENSG00000011405	ENST00000503729	processed_transcript	KNOWN	None	8971	None	None	17215941	17229530	-1	None	PI3K-C2alpha
11	PIK3C2A	ENSG00000011405	ENST00000540361	protein_coding	KNOWN	None	8971	3921	1306	17110867	17229530	-1	None	PI3K-C2alpha
17	UBBP4	ENSG00000263563	ENST00000581769	protein_coding	PUTATIVE	None	12467	295	97	21729601	21730993	1	None	None
17	UBBP4	ENSG00000263563	ENST00000584755	protein_coding	NOVEL	None	12467	675	224	21729601	21731760	1	None	None
17	UBBP4	ENSG00000263563	ENST00000583708	protein_coding	PUTATIVE	None	12467	78	25	21729901	21731762	1	None	None
17	UBBP4	ENSG00000263563	ENST00000584398	protein_coding	PUTATIVE	None	12467	78	25	21730256	21731205	1	None	None
17	UBBP4	ENSG00000263563	ENST00000578713	protein_coding	PUTATIVE	None	12467	690	229	21730695	21731742	1	None	None
17	UBBP4	ENSG00000263563	ENST00000581775	protein_coding	PUTATIVE	None	12467	161	52	21731000	21731742	1	None	None
1	None	ENSG00000229914	ENST00000439139	processed_pseudogene	KNOWN	None	None	None	None	158165423	158165921	-1	None	None
8	MIR3926-2	ENSG00000266206	ENST00000578598	miRNA	KNOWN	None	38883	None	None	12584741	12584813	-1	None	hsa-mir-3926-2
8	MIR3926-1	ENSG00000266206	ENST00000578598	miRNA	KNOWN	None	38959	None	None	12584741	12584813	-1	None	hsa-mir-3926-1
2	None	ENSG00000237844	ENST00000429636	lincRNA	KNOWN	None	None	None	None	164606083	165208733	-1	None	None
1	None	ENSG00000233147	ENST00000424357	lincRNA	KNOWN	None	None	None	None	56289480	56333921	1	None	None
5	None	ENSG00000250319	ENST00000509054	processed_pseudogene	KNOWN	None	None	None	None	23262268	23263294	-1	None	None
GL000224.1	None	ENSG00000263662	ENST00000581903	miRNA	NOVEL	None	None	None	None	38211	38291	1	None	None
11	None	ENSG00000255353	ENST00000526512	processed_pseudogene	KNOWN	None	None	None	None	107047012	107048256	1	None	None
2	TMSB10	ENSG00000034510	ENST00000233143	protein_coding	KNOWN	CCDS1970	11879	135	44	85132749	85133795	1	None	TB10
3	HSP90AA5P	ENSG00000205955	ENST00000438353	transcribed_processed_pseudogene	KNOWN	None	32535	None	None	183833140	183835686	1	None	None
3	HSP90AA5P	ENSG00000205955	ENST00000382482	processed_pseudogene	KNOWN	None	32535	None	None	183834037	183835686	1	None	None
21	TCP10L	ENSG00000242220	ENST00000300258	protein_coding	KNOWN	CCDS13616	11657	648	215	33948862	33957843	-1	None	PRED77
21	TCP10L	ENSG00000242220	ENST00000491828	processed_transcript	PUTATIVE	None	11657	None	None	33948969	33954744	-1	None	PRED77
21	TCP10L	ENSG00000242220	ENST00000472557	processed_transcript	KNOWN	None	11657	None	None	33948969	33957843	-1	None	PRED77
10	GUCY2GP	ENSG00000243316	ENST00000479705	unitary_pseudogene	KNOWN	None	31863	None	None	114067939	114116332	-1	GUCY2G	None
10	GUCY2GP	ENSG00000243316	ENST00000490269	processed_transcript	KNOWN	None	31863	None	None	114067977	114098857	-1	GUCY2G	None
3	SLC25A36	ENSG00000114120	ENST00000446041	protein_coding	KNOWN	CCDS3114	25554	933	310	140660672	140698775	1	None	FLJ10618, PNC2
3	SLC25A36	ENSG00000114120	ENST00000502756	retained_intron	KNOWN	None	25554	None	None	140660685	140675911	1	None	FLJ10618, PNC2
3	SLC25A36	ENSG00000114120	ENST00000393015	processed_transcript	KNOWN	None	25554	None	None	140660695	140685847	1	None	FLJ10618, PNC2
3	SLC25A36	ENSG00000114120	ENST00000515813	retained_intron	KNOWN	None	25554	None	None	140660710	140682313	1	None	FLJ10618, PNC2
3	SLC25A36	ENSG00000114120	ENST00000507429	protein_coding	PUTATIVE	None	25554	399	132	140660729	140685053	1	None	FLJ10618, PNC2
3	SLC25A36	ENSG00000114120	ENST00000324194	protein_coding	KNOWN	CCDS46927	25554	936	311	140660729	140695492	1	None	FLJ10618, PNC2
3	SLC25A36	ENSG00000114120	ENST00000502594	nonsense_mediated_decay	KNOWN	None	25554	399	132	140660737	140695325	1	None	FLJ10618, PNC2
3	SLC25A36	ENSG00000114120	ENST00000453248	protein_coding	NOVEL	None	25554	858	285	140660743	140695323	1	None	FLJ10618, PNC2
3	SLC25A36	ENSG00000114120	ENST00000513887	protein_coding	PUTATIVE	None	25554	201	66	140661304	140689812	1	None	FLJ10618, PNC2
3	SLC25A36	ENSG00000114120	ENST00000512023	nonsense_mediated_decay	KNOWN	None	25554	261	86	140675367	140695128	1	None	FLJ10618, PNC2
3	SLC25A36	ENSG00000114120	ENST00000512506	nonsense_mediated_decay	KNOWN	None	25554	270	89	140675469	140695124	1	None	FLJ10618, PNC2
3	SLC25A36	ENSG00000114120	ENST00000502866	retained_intron	KNOWN	None	25554	None	None	140685622	140692831	1	None	FLJ10618, PNC2
3	SLC25A36	ENSG00000114120	ENST00000511757	retained_intron	KNOWN	None	25554	None	None	140689207	140695489	1	None	FLJ10618, PNC2
3	SLC25A36	ENSG00000114120	ENST00000514629	retained_intron	KNOWN	None	25554	None	None	140692508	140695305	1	None	FLJ10618, PNC2
12	None	ENSG00000257771	ENST00000546821	lincRNA	KNOWN	None	None	None	None	50305736	50320122	1	None	None
12	None	ENSG00000257771	ENST00000549734	lincRNA	KNOWN	None	None	None	None	50305763	50314301	1	None	None
12	None	ENSG00000257771	ENST00000547954	lincRNA	KNOWN	None	None	None	None	50318141	50320272	1	None	None
12	None	ENSG00000257771	ENST00000547443	lincRNA	KNOWN	None	None	None	None	50318783	50323793	1	None	None
12	None	ENSG00000257771	ENST00000551539	lincRNA	KNOWN	None	None	None	None	50323181	50324103	1	None	None
1	None	ENSG00000230250	ENST00000458145	lincRNA	KNOWN	None	None	None	None	56381282	56410636	-1	None	None
1	None	ENSG00000176320	ENST00000415019	lincRNA	KNOWN	None	None	None	None	158167712	158173667	-1	None	None
11	None	ENSG00000255447	ENST00000534128	lincRNA	KNOWN	None	None	None	None	45834770	45846809	1	None	None
7	CTAGE4	ENSG00000225932	ENST00000486333	protein_coding	KNOWN	CCDS55176	24772	2334	777	143880559	143883146	1	None	FLJ43692, cTAGE-4
2	PRPS1P1	ENSG00000226847	ENST00000445305	processed_pseudogene	KNOWN	None	39427	None	None	165070049	165070924	1	None	None
5	None	ENSG00000249073	ENST00000513561	lincRNA	KNOWN	None	None	None	None	133249368	133252960	1	None	None
17	None	ENSG00000267460	ENST00000593009	processed_pseudogene	KNOWN	None	None	None	None	34282481	34282601	1	None	None
2	None	ENSG00000231536	ENST00000458252	antisense	KNOWN	None	None	None	None	111368493	111369981	1	None	None
GL000223.1	None	ENSG00000236575	ENST00000391574	protein_coding	KNOWN	None	None	1602	533	93511	119608	-1	None	None
2	None	ENSG00000228272	ENST00000440495	lincRNA	KNOWN	None	None	None	None	84542232	84577898	1	None	None
3	None	ENSG00000270367	ENST00000605787	processed_pseudogene	KNOWN	None	None	None	None	39327476	39329411	1	None	None
1	None	ENSG00000223562	ENST00000450040	lincRNA	KNOWN	None	None	None	None	211355498	211356446	-1	None	None
1	HMGN1P5	ENSG00000230942	ENST00000448591	processed_pseudogene	KNOWN	None	39348	None	None	158236543	158237110	-1	None	None
5	None	ENSG00000206912	ENST00000384185	misc_RNA	NOVEL	None	None	None	None	23299264	23299371	1	None	None
19	None	ENSG00000240320	ENST00000463711	processed_pseudogene	KNOWN	None	None	None	None	40188544	40188713	1	None	None
1	PIGQP1	ENSG00000227104	ENST00000426300	transcribed_unprocessed_pseudogene	KNOWN	None	45157	None	None	56404387	56404953	-1	None	None
11	HTATIP2	ENSG00000109854	ENST00000530266	protein_coding	KNOWN	CCDS53613	16637	402	133	20385231	20389171	1	None	TIP30, CC3, FLJ26963, SDR44U1
11	HTATIP2	ENSG00000109854	ENST00000421577	protein_coding	KNOWN	CCDS7852	16637	729	242	20385269	20404880	1	None	TIP30, CC3, FLJ26963, SDR44U1
11	HTATIP2	ENSG00000109854	ENST00000443524	protein_coding	KNOWN	CCDS7852	16637	729	242	20385271	20404914	1	None	TIP30, CC3, FLJ26963, SDR44U1
11	HTATIP2	ENSG00000109854	ENST00000419348	protein_coding	KNOWN	CCDS44553	16637	831	276	20385289	20405328	1	None	TIP30, CC3, FLJ26963, SDR44U1
11	HTATIP2	ENSG00000109854	ENST00000451739	protein_coding	KNOWN	CCDS7852	16637	729	242	20385343	20405329	1	None	TIP30, CC3, FLJ26963, SDR44U1
11	HTATIP2	ENSG00000109854	ENST00000532505	protein_coding	KNOWN	CCDS53613	16637	402	133	20385400	20389059	1	None	TIP30, CC3, FLJ26963, SDR44U1
11	HTATIP2	ENSG00000109854	ENST00000532081	protein_coding	KNOWN	CCDS53613	16637	402	133	20385687	20389201	1	None	TIP30, CC3, FLJ26963, SDR44U1
11	HTATIP2	ENSG00000109854	ENST00000531058	protein_coding	NOVEL	None	16637	591	196	20385726	20405162	1	None	TIP30, CC3, FLJ26963, SDR44U1
11	HTATIP2	ENSG00000109854	ENST00000533914	retained_intron	KNOWN	None	16637	None	None	20397563	20405324	1	None	TIP30, CC3, FLJ26963, SDR44U1
22	CBX7	ENSG00000100307	ENST00000475962	processed_transcript	KNOWN	None	1557	None	None	39516172	39545837	-1	None	None
22	CBX7	ENSG00000100307	ENST00000216133	protein_coding	KNOWN	CCDS13986	1557	756	251	39526777	39548655	-1	None	None
22	CBX7	ENSG00000100307	ENST00000401405	protein_coding	NOVEL	None	1557	477	158	39529589	39548449	-1	None	None
22	CBX7	ENSG00000100307	ENST00000490741	retained_intron	KNOWN	None	1557	None	None	39529696	39530784	-1	None	None
22	CBX7	ENSG00000100307	ENST00000434260	protein_coding	NOVEL	None	1557	364	120	39530574	39548557	-1	None	None
22	CBX7	ENSG00000100307	ENST00000477827	retained_intron	KNOWN	None	1557	None	None	39537125	39548545	-1	None	None
22	CBX7	ENSG00000100307	ENST00000482294	retained_intron	KNOWN	None	1557	None	None	39543123	39548679	-1	None	None
5	None	ENSG00000271737	ENST00000606089	lincRNA	KNOWN	None	None	None	None	133340838	133341253	1	None	None
12	None	ENSG00000257682	ENST00000548029	lincRNA	KNOWN	None	None	None	None	73597595	73600615	-1	None	None
1	FAM213B	ENSG00000157870	ENST00000493183	processed_transcript	KNOWN	None	28390	None	None	2517930	2521071	1	C1orf93	MGC26818
1	FAM213B	ENSG00000157870	ENST00000474659	processed_transcript	KNOWN	None	28390	None	None	2517979	2521097	1	C1orf93	MGC26818
1	FAM213B	ENSG00000157870	ENST00000419916	protein_coding	KNOWN	CCDS44	28390	687	228	2518214	2522907	1	C1orf93	MGC26818
1	FAM213B	ENSG00000157870	ENST00000378424	protein_coding	NOVEL	None	28390	696	231	2518219	2522906	1	C1orf93	MGC26818
1	FAM213B	ENSG00000157870	ENST00000378427	protein_coding	NOVEL	None	28390	640	212	2518237	2522902	1	C1orf93	MGC26818
1	FAM213B	ENSG00000157870	ENST00000464043	processed_transcript	KNOWN	None	28390	None	None	2518256	2521244	1	C1orf93	MGC26818
1	FAM213B	ENSG00000157870	ENST00000465233	protein_coding	PUTATIVE	None	28390	589	195	2518272	2520416	1	C1orf93	MGC26818
1	FAM213B	ENSG00000157870	ENST00000498083	protein_coding	PUTATIVE	None	28390	464	153	2518316	2520431	1	C1orf93	MGC26818
1	FAM213B	ENSG00000157870	ENST00000481683	processed_transcript	KNOWN	None	28390	None	None	2518481	2520952	1	C1orf93	MGC26818
1	FAM213B	ENSG00000157870	ENST00000484099	processed_transcript	KNOWN	None	28390	None	None	2518517	2522908	1	C1orf93	MGC26818
1	FAM213B	ENSG00000157870	ENST00000477045	processed_transcript	KNOWN	None	28390	None	None	2518524	2520184	1	C1orf93	MGC26818
1	FAM213B	ENSG00000157870	ENST00000476686	processed_transcript	KNOWN	None	28390	None	None	2520033	2522907	1	C1orf93	MGC26818
1	FAM213B	ENSG00000157870	ENST00000537325	protein_coding	KNOWN	CCDS55564	28390	576	191	2518235	2521386	1	C1orf93	MGC26818
1	FAM213B	ENSG00000157870	ENST00000378425	protein_coding	KNOWN	None	28390	597	198	2518249	2522902	1	C1orf93	MGC26818
1	FAM213B	ENSG00000157870	ENST00000444521	protein_coding	KNOWN	None	28390	651	216	2518258	2522906	1	C1orf93	MGC26818
17	None	ENSG00000267657	ENST00000586205	processed_transcript	KNOWN	None	None	None	None	34290506	34292480	-1	None	None
17	None	ENSG00000267657	ENST00000588739	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	34290530	34292479	-1	None	None
5	None	ENSG00000250332	ENST00000511359	processed_pseudogene	KNOWN	None	None	None	None	23303674	23305252	-1	None	None
2	CYP2C56P	ENSG00000229641	ENST00000440076	processed_pseudogene	KNOWN	None	39971	None	None	165178443	165178733	1	None	CYP2C-se1[7]
2	None	ENSG00000233373	ENST00000415693	processed_pseudogene	KNOWN	None	None	None	None	84554386	84554691	1	None	None
3	None	ENSG00000241776	ENST00000490933	processed_pseudogene	KNOWN	None	None	None	None	84740832	84741742	-1	None	None
X	RBBP8P1	ENSG00000230399	ENST00000449447	processed_pseudogene	KNOWN	None	39583	None	None	117766338	117768181	-1	None	None
2	None	ENSG00000216867	ENST00000401483	processed_pseudogene	KNOWN	None	None	None	None	111391524	111391910	1	None	None
11	None	ENSG00000255498	ENST00000533218	antisense	KNOWN	None	None	None	None	45927492	45928012	-1	None	None
1	None	ENSG00000226986	ENST00000431591	processed_pseudogene	KNOWN	None	None	None	None	211380581	211381239	1	None	None
1	None	ENSG00000226986	ENST00000397651	processed_pseudogene	KNOWN	None	None	None	None	211380389	211381286	1	None	None
1	None	ENSG00000233079	ENST00000455010	lincRNA	KNOWN	None	None	None	None	56410760	56415792	1	None	None
16	None	ENSG00000262332	ENST00000574883	antisense	KNOWN	None	None	None	None	16316884	16318118	1	None	None
2	DUXAP1	ENSG00000259056	ENST00000556632	transcribed_unprocessed_pseudogene	KNOWN	None	32180	None	None	84977893	84978355	1	None	None
11	None	ENSG00000261098	ENST00000561746	lincRNA	KNOWN	None	None	None	None	107182858	107186997	-1	None	None
11	None	ENSG00000255170	ENST00000526316	processed_pseudogene	KNOWN	None	None	None	None	89498052	89498306	1	None	None
1	None	ENSG00000235612	ENST00000435828	lincRNA	KNOWN	None	None	None	None	56611393	56620896	1	None	None
1	OR10T1P	ENSG00000203758	ENST00000424327	unprocessed_pseudogene	KNOWN	None	14812	None	None	158414858	158415804	-1	None	None
3	None	ENSG00000242339	ENST00000488348	lincRNA	KNOWN	None	None	None	None	84934087	84942530	1	None	None
8	None	ENSG00000251354	ENST00000508013	unprocessed_pseudogene	KNOWN	None	None	None	None	48459366	48460488	-1	None	None
5	None	ENSG00000249289	ENST00000507087	processed_pseudogene	KNOWN	None	None	None	None	23329536	23330001	-1	None	None
3	HNRNPA1P21	ENSG00000228168	ENST00000424115	processed_pseudogene	KNOWN	None	39539	None	None	39376470	39377430	1	None	None
1	None	ENSG00000243500	ENST00000401022	processed_pseudogene	KNOWN	None	None	None	None	104615632	104616159	1	None	None
7	None	ENSG00000232145	ENST00000421443	processed_pseudogene	KNOWN	None	None	None	None	143493388	143493813	1	None	None
5	None	ENSG00000271128	ENST00000603910	processed_pseudogene	KNOWN	None	None	None	None	133417605	133417731	-1	None	None
HG1032_PATCH	FRG1	ENSG00000260380	ENST00000564393	protein_coding	KNOWN	None	3954	777	258	190861943	190884359	1	None	FSG1, FRG1A
HG1032_PATCH	FRG1	ENSG00000260380	ENST00000561865	protein_coding	PUTATIVE	None	3954	308	101	190862025	190883039	1	None	FSG1, FRG1A
HG1032_PATCH	FRG1	ENSG00000260380	ENST00000566700	nonsense_mediated_decay	KNOWN	None	3954	129	42	190862054	190876305	1	None	FSG1, FRG1A
HG1032_PATCH	FRG1	ENSG00000260380	ENST00000569123	protein_coding	PUTATIVE	None	3954	348	115	190862056	190878657	1	None	FSG1, FRG1A
HG1032_PATCH	FRG1	ENSG00000260380	ENST00000569947	processed_transcript	KNOWN	None	3954	None	None	190862179	190882331	1	None	FSG1, FRG1A
HG1032_PATCH	FRG1	ENSG00000260380	ENST00000565484	nonsense_mediated_decay	KNOWN	None	3954	255	84	190881903	190884343	1	None	FSG1, FRG1A
HG1032_PATCH	FRG1	ENSG00000260380	ENST00000562347	processed_transcript	PUTATIVE	None	3954	None	None	190882237	190884357	1	None	FSG1, FRG1A
2	LDHAP7	ENSG00000235847	ENST00000398295	processed_pseudogene	KNOWN	None	23144	None	None	85004383	85005347	-1	LDHAL7	None
2	None	ENSG00000264074	ENST00000581574	miRNA	NOVEL	None	None	None	None	165280035	165280116	1	None	None
18	PIGN	ENSG00000197563	ENST00000357637	protein_coding	KNOWN	CCDS45879	8967	2796	931	59710800	59854257	-1	None	MDC4, PIG-N
18	PIGN	ENSG00000197563	ENST00000400334	protein_coding	KNOWN	CCDS45879	8967	2796	931	59711782	59854271	-1	None	MDC4, PIG-N
18	PIGN	ENSG00000197563	ENST00000587942	retained_intron	KNOWN	None	8967	None	None	59712575	59777383	-1	None	MDC4, PIG-N
18	PIGN	ENSG00000197563	ENST00000590948	nonsense_mediated_decay	KNOWN	None	8967	431	142	59770044	59777190	-1	None	MDC4, PIG-N
18	PIGN	ENSG00000197563	ENST00000586566	protein_coding	PUTATIVE	None	8967	335	110	59770130	59805519	-1	None	MDC4, PIG-N
18	PIGN	ENSG00000197563	ENST00000589414	protein_coding	PUTATIVE	None	8967	772	256	59785780	59815571	-1	None	MDC4, PIG-N
18	PIGN	ENSG00000197563	ENST00000592803	nonsense_mediated_decay	KNOWN	None	8967	89	28	59806280	59821805	-1	None	MDC4, PIG-N
18	PIGN	ENSG00000197563	ENST00000588748	protein_coding	PUTATIVE	None	8967	549	182	59814229	59825238	-1	None	MDC4, PIG-N
18	PIGN	ENSG00000197563	ENST00000591238	protein_coding	PUTATIVE	None	8967	366	121	59815524	59825241	-1	None	MDC4, PIG-N
18	PIGN	ENSG00000197563	ENST00000585923	protein_coding	KNOWN	None	8967	578	191	59815543	59854280	-1	None	MDC4, PIG-N
18	PIGN	ENSG00000197563	ENST00000589720	protein_coding	KNOWN	None	8967	566	187	59815555	59854289	-1	None	MDC4, PIG-N
18	PIGN	ENSG00000197563	ENST00000589098	protein_coding	PUTATIVE	None	8967	312	103	59821595	59824977	-1	None	MDC4, PIG-N
18	PIGN	ENSG00000197563	ENST00000590765	protein_coding	PUTATIVE	None	8967	420	139	59821799	59854286	-1	None	MDC4, PIG-N
18	PIGN	ENSG00000197563	ENST00000585458	protein_coding	PUTATIVE	None	8967	253	83	59821843	59854257	-1	None	MDC4, PIG-N
18	PIGN	ENSG00000197563	ENST00000588571	protein_coding	KNOWN	None	8967	350	115	59824454	59854312	-1	None	MDC4, PIG-N
18	PIGN	ENSG00000197563	ENST00000589339	protein_coding	KNOWN	None	8967	280	92	59824983	59854246	-1	None	MDC4, PIG-N
18	PIGN	ENSG00000197563	ENST00000585344	protein_coding	KNOWN	None	8967	266	87	59824997	59854351	-1	None	MDC4, PIG-N
18	PIGN	ENSG00000197563	ENST00000585926	protein_coding	KNOWN	None	8967	250	82	59825013	59853546	-1	None	MDC4, PIG-N
18	PIGN	ENSG00000197563	ENST00000587134	protein_coding	KNOWN	None	8967	100	32	59828487	59854271	-1	None	MDC4, PIG-N
18	PIGN	ENSG00000197563	ENST00000593225	processed_transcript	KNOWN	None	8967	None	None	59829496	59854271	-1	None	MDC4, PIG-N
2	None	ENSG00000235881	ENST00000414159	lincRNA	KNOWN	None	None	None	None	111467152	111474172	-1	None	None
5	None	ENSG00000248591	ENST00000512356	processed_pseudogene	KNOWN	None	None	None	None	23456577	23456959	1	None	None
14	LINC00645	ENSG00000258548	ENST00000557359	lincRNA	KNOWN	None	44299	None	None	28081794	28108842	1	None	None
14	LINC00645	ENSG00000258548	ENST00000557399	lincRNA	KNOWN	None	44299	None	None	28081817	28108842	1	None	None
14	LINC00645	ENSG00000258548	ENST00000555350	lincRNA	KNOWN	None	44299	None	None	28103331	28105875	1	None	None
11	None	ENSG00000254754	ENST00000531157	lincRNA	KNOWN	None	None	None	None	25945735	25948355	1	None	None
12	RNA5SP358	ENSG00000199843	ENST00000362973	rRNA	KNOWN	None	43258	None	None	38555268	38555384	-1	RN5S358	None
3	None	ENSG00000248243	ENST00000514010	lincRNA	KNOWN	None	None	None	None	129808276	129813147	-1	None	None
5	MIR3661	ENSG00000266751	ENST00000577394	miRNA	KNOWN	None	38892	None	None	133561448	133561543	1	None	hsa-mir-3661
1	None	ENSG00000229871	ENST00000441455	processed_pseudogene	KNOWN	None	None	None	None	56673239	56674128	-1	None	None
GL000224.1	None	ENSG00000239196	ENST00000459457	miRNA	NOVEL	None	None	None	None	43376	43458	1	None	None
5	RNU6-334P	ENSG00000252881	ENST00000517072	snRNA	KNOWN	None	47297	None	None	104115989	104116090	-1	None	None
3	None	ENSG00000266025	ENST00000578742	miRNA	NOVEL	None	None	None	None	84954830	84954896	1	None	None
13	N4BP2L2	ENSG00000244754	ENST00000380121	processed_transcript	KNOWN	None	26916	None	None	33006554	33054775	-1	None	CG005, PFAAP5
13	N4BP2L2	ENSG00000244754	ENST00000503296	processed_transcript	KNOWN	None	26916	None	None	33006924	33064277	-1	None	CG005, PFAAP5
13	N4BP2L2	ENSG00000244754	ENST00000504114	protein_coding	PUTATIVE	None	26916	2214	737	33006924	33112823	-1	None	CG005, PFAAP5
13	N4BP2L2	ENSG00000244754	ENST00000509076	retained_intron	KNOWN	None	26916	None	None	33006968	33096412	-1	None	CG005, PFAAP5
13	N4BP2L2	ENSG00000244754	ENST00000446957	protein_coding	PUTATIVE	None	26916	1968	655	33007028	33111164	-1	None	CG005, PFAAP5
13	N4BP2L2	ENSG00000244754	ENST00000505213	protein_coding	NOVEL	None	26916	2127	708	33017834	33112970	-1	None	CG005, PFAAP5
13	N4BP2L2	ENSG00000244754	ENST00000473025	processed_transcript	KNOWN	None	26916	None	None	33018103	33092057	-1	None	CG005, PFAAP5
13	N4BP2L2	ENSG00000244754	ENST00000503814	retained_intron	KNOWN	None	26916	None	None	33091031	33099716	-1	None	CG005, PFAAP5
13	N4BP2L2	ENSG00000244754	ENST00000267068	protein_coding	KNOWN	CCDS9346	26916	1752	583	33091031	33112919	-1	None	CG005, PFAAP5
13	N4BP2L2	ENSG00000244754	ENST00000511143	processed_transcript	KNOWN	None	26916	None	None	33091625	33112929	-1	None	CG005, PFAAP5
13	N4BP2L2	ENSG00000244754	ENST00000475731	processed_transcript	KNOWN	None	26916	None	None	33092012	33110006	-1	None	CG005, PFAAP5
13	N4BP2L2	ENSG00000244754	ENST00000512755	processed_transcript	KNOWN	None	26916	None	None	33101012	33110520	-1	None	CG005, PFAAP5
13	N4BP2L2	ENSG00000244754	ENST00000483088	processed_transcript	KNOWN	None	26916	None	None	33110564	33112962	-1	None	CG005, PFAAP5
13	N4BP2L2	ENSG00000244754	ENST00000399396	protein_coding	KNOWN	CCDS45024	26916	2259	752	33006930	33112936	-1	None	CG005, PFAAP5
13	N4BP2L2	ENSG00000244754	ENST00000357505	protein_coding	KNOWN	None	26916	2214	737	33006924	33112929	-1	None	CG005, PFAAP5
1	None	ENSG00000215869	ENST00000418362	lincRNA	KNOWN	None	None	None	None	104615645	104619709	1	None	None
5	None	ENSG00000249607	ENST00000511286	processed_pseudogene	KNOWN	None	None	None	None	23689036	23689495	1	None	None
2	None	ENSG00000224331	ENST00000417151	processed_pseudogene	KNOWN	None	None	None	None	165543797	165544106	-1	None	None
2	RPL5P9	ENSG00000236330	ENST00000448118	processed_pseudogene	KNOWN	None	36557	None	None	111725411	111726296	1	None	None
16	None	ENSG00000263029	ENST00000573044	processed_pseudogene	KNOWN	None	None	None	None	16354723	16355092	-1	None	None
12	GCSHP4	ENSG00000256171	ENST00000538792	processed_pseudogene	KNOWN	None	43930	None	None	8293764	8295293	-1	None	None
8	PLEC	ENSG00000178209	ENST00000345136	protein_coding	KNOWN	CCDS43775	9069	13644	4547	144989321	145013758	-1	EBS1, PLEC1	PCN, PLTN
8	PLEC	ENSG00000178209	ENST00000357649	protein_coding	KNOWN	CCDS43774	9069	13656	4551	144989321	145016692	-1	EBS1, PLEC1	PCN, PLTN
8	PLEC	ENSG00000178209	ENST00000354589	protein_coding	KNOWN	CCDS43773	9069	13644	4547	144989321	145018126	-1	EBS1, PLEC1	PCN, PLTN
8	PLEC	ENSG00000178209	ENST00000398774	protein_coding	KNOWN	CCDS47936	9069	13548	4515	144989321	145018905	-1	EBS1, PLEC1	PCN, PLTN
8	PLEC	ENSG00000178209	ENST00000322810	protein_coding	KNOWN	CCDS43772	9069	14055	4684	144989321	145025044	-1	EBS1, PLEC1	PCN, PLTN
8	PLEC	ENSG00000178209	ENST00000354958	protein_coding	KNOWN	CCDS43771	9069	13578	4525	144989321	145028088	-1	EBS1, PLEC1	PCN, PLTN
8	PLEC	ENSG00000178209	ENST00000356346	protein_coding	KNOWN	CCDS43770	9069	13602	4533	144989321	145047697	-1	EBS1, PLEC1	PCN, PLTN
8	PLEC	ENSG00000178209	ENST00000436759	protein_coding	KNOWN	CCDS43769	9069	13725	4574	144989321	145050902	-1	EBS1, PLEC1	PCN, PLTN
8	PLEC	ENSG00000178209	ENST00000527096	protein_coding	PUTATIVE	None	9069	13713	4570	144990345	145049537	-1	EBS1, PLEC1	PCN, PLTN
8	PLEC	ENSG00000178209	ENST00000527303	protein_coding	PUTATIVE	None	9069	598	198	144996100	145001179	-1	EBS1, PLEC1	PCN, PLTN
8	PLEC	ENSG00000178209	ENST00000528025	protein_coding	NOVEL	None	9069	2109	702	145006568	145049543	-1	EBS1, PLEC1	PCN, PLTN
8	PLEC	ENSG00000178209	ENST00000526416	protein_coding	PUTATIVE	None	9069	570	189	145009445	145020573	-1	EBS1, PLEC1	PCN, PLTN
8	PLEC	ENSG00000178209	ENST00000527816	protein_coding	PUTATIVE	None	9069	250	82	145010086	145020715	-1	EBS1, PLEC1	PCN, PLTN
8	PLEC	ENSG00000178209	ENST00000528131	protein_coding	PUTATIVE	None	9069	522	173	145010147	145032967	-1	EBS1, PLEC1	PCN, PLTN
8	PLEC	ENSG00000178209	ENST00000532346	retained_intron	KNOWN	None	9069	None	None	145011832	145049387	-1	EBS1, PLEC1	PCN, PLTN
12	RNA5SP359	ENSG00000201708	ENST00000364838	rRNA	KNOWN	None	43259	None	None	38557205	38557317	-1	RN5S359	None
GL000224.1	None	ENSG00000263854	ENST00000584224	miRNA	NOVEL	None	None	None	None	47211	47293	1	None	None
17	None	ENSG00000267566	ENST00000590192	antisense	KNOWN	None	None	None	None	34328458	34337452	1	None	None
17	None	ENSG00000267566	ENST00000588294	antisense	KNOWN	None	None	None	None	34336602	34338658	1	None	None
1	None	ENSG00000221488	ENST00000408561	miRNA	NOVEL	None	None	None	None	211384331	211384424	-1	None	None
5	None	ENSG00000253584	ENST00000517758	lincRNA	KNOWN	None	None	None	None	104253193	104344618	-1	None	None
5	None	ENSG00000253584	ENST00000522464	lincRNA	PUTATIVE	None	None	None	None	104308988	104582065	-1	None	None
11	None	ENSG00000204456	ENST00000527402	unprocessed_pseudogene	KNOWN	None	None	None	None	89499608	89502004	-1	None	None
3	MIR5688	ENSG00000264084	ENST00000580619	miRNA	KNOWN	None	43463	None	None	85434860	85434942	1	None	hsa-mir-5688
7	ARHGEF35	ENSG00000213214	ENST00000378115	protein_coding	KNOWN	CCDS34770	33846	1455	484	143883176	143892748	-1	ARHGEF5L	FLJ43692, CTAGE4
7	ARHGEF35	ENSG00000213214	ENST00000543357	protein_coding	KNOWN	CCDS34770	33846	1455	484	143883791	143991230	-1	ARHGEF5L	FLJ43692, CTAGE4
1	EI24P2	ENSG00000236257	ENST00000397776	processed_pseudogene	KNOWN	None	44587	None	None	158423988	158425063	1	None	None
7	FAM115D	ENSG00000159860	ENST00000291129	unprocessed_pseudogene	KNOWN	None	33603	None	None	143497825	143515066	1	FAM139B	FLJ40722-like
7	FAM115D	ENSG00000159860	ENST00000456362	unprocessed_pseudogene	KNOWN	None	33603	None	None	143333745	143515397	1	FAM139B	FLJ40722-like
5	None	ENSG00000252083	ENST00000516274	snoRNA	NOVEL	None	None	None	None	23972297	23972403	-1	None	None
1	FTLP17	ENSG00000228347	ENST00000432567	processed_pseudogene	KNOWN	None	37967	None	None	104695928	104696452	-1	None	None
17	None	ENSG00000267431	ENST00000590149	lincRNA	KNOWN	None	None	None	None	34339544	34339931	1	None	None
14	LINC00911	ENSG00000259107	ENST00000555272	lincRNA	KNOWN	None	48596	None	None	85860223	85886418	1	None	None
14	LINC00911	ENSG00000259107	ENST00000557155	lincRNA	KNOWN	None	48596	None	None	85860292	85886396	1	None	None
1	None	ENSG00000260971	ENST00000569425	lincRNA	KNOWN	None	None	None	None	56713966	56724243	-1	None	None
12	None	ENSG00000258109	ENST00000549058	lincRNA	KNOWN	None	None	None	None	73605192	74335956	-1	None	None
5	None	ENSG00000270177	ENST00000602919	lincRNA	KNOWN	None	None	None	None	133562101	133563518	1	None	None
2	None	ENSG00000204581	ENST00000376593	antisense	KNOWN	None	None	None	None	111855922	111871762	-1	None	None
2	None	ENSG00000204581	ENST00000418615	antisense	KNOWN	None	None	None	None	111870511	111873165	-1	None	None
5	None	ENSG00000234865	ENST00000507986	processed_pseudogene	KNOWN	None	None	None	None	23980696	23981047	1	None	None
11	None	ENSG00000254928	ENST00000530510	antisense	KNOWN	None	None	None	None	74166393	74167870	1	None	None
16	None	ENSG00000260176	ENST00000565111	lincRNA	KNOWN	None	None	None	None	2694085	2695215	-1	None	None
18	NETO1	ENSG00000166342	ENST00000583169	protein_coding	KNOWN	CCDS12000	13823	1602	533	70409549	70534810	-1	None	BTCL1, BCTL1
18	NETO1	ENSG00000166342	ENST00000582281	protein_coding	KNOWN	None	13823	11	2	70414377	70416273	-1	None	BTCL1, BCTL1
18	NETO1	ENSG00000166342	ENST00000327305	protein_coding	KNOWN	CCDS12000	13823	1602	533	70414616	70535184	-1	None	BTCL1, BCTL1
18	NETO1	ENSG00000166342	ENST00000579730	processed_transcript	KNOWN	None	13823	None	None	70451036	70534608	-1	None	BTCL1, BCTL1
18	NETO1	ENSG00000166342	ENST00000580049	processed_transcript	KNOWN	None	13823	None	None	70501274	70532934	-1	None	BTCL1, BCTL1
18	NETO1	ENSG00000166342	ENST00000579169	protein_coding	PUTATIVE	None	13823	303	100	70526215	70534266	-1	None	BTCL1, BCTL1
18	NETO1	ENSG00000166342	ENST00000577184	processed_transcript	PUTATIVE	None	13823	None	None	70534937	70535381	-1	None	BTCL1, BCTL1
18	NETO1	ENSG00000166342	ENST00000299430	protein_coding	KNOWN	None	13823	1599	532	70414787	70532934	-1	None	BTCL1, BCTL1
18	NETO1	ENSG00000166342	ENST00000397929	protein_coding	KNOWN	CCDS42444	13823	471	156	70501274	70532934	-1	None	BTCL1, BCTL1
12	TUBB8P5	ENSG00000254381	ENST00000445286	unprocessed_pseudogene	KNOWN	None	42186	None	None	38595368	38597594	1	None	None
11	None	ENSG00000263539	ENST00000583125	miRNA	NOVEL	None	None	None	None	46134673	46134769	-1	None	None
1	LINC00467	ENSG00000153363	ENST00000423222	processed_transcript	KNOWN	None	28227	None	None	211556145	211605878	1	C1orf97	MGC14801
1	LINC00467	ENSG00000153363	ENST00000448567	processed_transcript	KNOWN	None	28227	None	None	211556179	211565318	1	C1orf97	MGC14801
1	LINC00467	ENSG00000153363	ENST00000534914	processed_transcript	KNOWN	None	28227	None	None	211556145	211570206	1	C1orf97	MGC14801
10	RTKN2	ENSG00000182010	ENST00000315289	protein_coding	PUTATIVE	None	19364	927	308	63942794	63996022	-1	PLEKHK1	Em:AC024597.2, bA531F24.1, FLJ39352
10	RTKN2	ENSG00000182010	ENST00000373789	protein_coding	KNOWN	CCDS7263	19364	1830	609	63952953	64028466	-1	PLEKHK1	Em:AC024597.2, bA531F24.1, FLJ39352
10	RTKN2	ENSG00000182010	ENST00000395260	protein_coding	KNOWN	None	19364	492	163	63997916	64028466	-1	PLEKHK1	Em:AC024597.2, bA531F24.1, FLJ39352
10	RTKN2	ENSG00000182010	ENST00000395265	protein_coding	KNOWN	None	19364	1584	527	63944081	64028466	-1	PLEKHK1	Em:AC024597.2, bA531F24.1, FLJ39352
1	None	ENSG00000236656	ENST00000419738	antisense	KNOWN	None	None	None	None	158444244	158464676	-1	None	None
1	None	ENSG00000236656	ENST00000426251	antisense	KNOWN	None	None	None	None	158444246	158464507	-1	None	None
17	INPP5K	ENSG00000132376	ENST00000421807	protein_coding	KNOWN	CCDS11004	33882	1347	448	1397865	1420182	-1	None	SKIP
17	INPP5K	ENSG00000132376	ENST00000406424	protein_coding	KNOWN	CCDS11005	33882	1119	372	1397903	1420036	-1	None	SKIP
17	INPP5K	ENSG00000132376	ENST00000320345	protein_coding	KNOWN	CCDS11005	33882	1119	372	1398051	1420029	-1	None	SKIP
17	INPP5K	ENSG00000132376	ENST00000350761	nonsense_mediated_decay	KNOWN	None	33882	192	63	1398861	1419912	-1	None	SKIP
17	INPP5K	ENSG00000132376	ENST00000487039	retained_intron	KNOWN	None	33882	None	None	1399094	1399755	-1	None	SKIP
17	INPP5K	ENSG00000132376	ENST00000574561	protein_coding	PUTATIVE	None	33882	463	153	1399449	1419921	-1	None	SKIP
17	INPP5K	ENSG00000132376	ENST00000461552	retained_intron	KNOWN	None	33882	None	None	1399783	1401495	-1	None	SKIP
17	INPP5K	ENSG00000132376	ENST00000495339	retained_intron	KNOWN	None	33882	None	None	1401052	1410314	-1	None	SKIP
17	INPP5K	ENSG00000132376	ENST00000449479	protein_coding	PUTATIVE	None	33882	687	228	1401230	1419888	-1	None	SKIP
17	INPP5K	ENSG00000132376	ENST00000481867	retained_intron	KNOWN	None	33882	None	None	1401355	1411794	-1	None	SKIP
17	INPP5K	ENSG00000132376	ENST00000477115	retained_intron	KNOWN	None	33882	None	None	1401373	1410999	-1	None	SKIP
17	INPP5K	ENSG00000132376	ENST00000575172	protein_coding	NOVEL	None	33882	475	157	1410287	1419912	-1	None	SKIP
17	INPP5K	ENSG00000132376	ENST00000576646	nonsense_mediated_decay	KNOWN	None	33882	115	37	1410380	1417273	-1	None	SKIP
17	INPP5K	ENSG00000132376	ENST00000573790	nonsense_mediated_decay	KNOWN	None	33882	300	99	1411424	1419876	-1	None	SKIP
17	INPP5K	ENSG00000132376	ENST00000460733	retained_intron	KNOWN	None	33882	None	None	1412271	1416806	-1	None	SKIP
17	INPP5K	ENSG00000132376	ENST00000571274	protein_coding	KNOWN	None	33882	254	83	1412544	1418995	-1	None	SKIP
17	INPP5K	ENSG00000132376	ENST00000445774	nonsense_mediated_decay	KNOWN	None	33882	159	52	1412635	1419974	-1	None	SKIP
17	INPP5K	ENSG00000132376	ENST00000477910	protein_coding	KNOWN	None	33882	150	49	1412977	1419906	-1	None	SKIP
17	INPP5K	ENSG00000132376	ENST00000498390	protein_coding	PUTATIVE	None	33882	70	22	1413009	1419947	-1	None	SKIP
17	INPP5K	ENSG00000132376	ENST00000574955	nonsense_mediated_decay	KNOWN	None	33882	156	51	1413715	1419955	-1	None	SKIP
17	INPP5K	ENSG00000132376	ENST00000542125	protein_coding	KNOWN	None	33882	1059	352	1398924	1419912	-1	None	SKIP
17	INPP5K	ENSG00000132376	ENST00000397335	protein_coding	KNOWN	None	33882	1071	356	1398861	1419914	-1	None	SKIP
3	RNU6-507P	ENSG00000251854	ENST00000516045	snRNA	KNOWN	None	47470	None	None	149496796	149496895	-1	None	None
1	None	ENSG00000223307	ENST00000411375	miRNA	NOVEL	None	None	None	None	56843005	56843090	-1	None	None
16	None	ENSG00000262848	ENST00000571660	antisense	KNOWN	None	None	None	None	16383992	16386099	-1	None	None
3	None	ENSG00000238267	ENST00000435940	processed_pseudogene	KNOWN	None	None	None	None	39379620	39380370	-1	None	None
12	None	ENSG00000243164	ENST00000474343	processed_pseudogene	KNOWN	None	None	None	None	74042446	74042819	1	None	None
8	None	ENSG00000254065	ENST00000517810	processed_pseudogene	KNOWN	None	None	None	None	48504709	48505171	-1	None	None
5	RAB9BP1	ENSG00000232159	ENST00000519581	processed_pseudogene	KNOWN	None	9793	None	None	104435174	104435799	1	RAB9P1	None
5	RAB9BP1	ENSG00000232159	ENST00000419311	pseudogene	KNOWN	None	9793	None	None	104435175	104435799	1	RAB9P1	None
3	B4GALT4	ENSG00000121578	ENST00000483209	protein_coding	KNOWN	CCDS2986	927	1035	344	118930579	118959486	-1	None	beta4Gal-T4
3	B4GALT4	ENSG00000121578	ENST00000467604	protein_coding	PUTATIVE	None	927	906	301	118930587	118959725	-1	None	beta4Gal-T4
3	B4GALT4	ENSG00000121578	ENST00000471675	protein_coding	PUTATIVE	None	927	189	62	118930589	118948900	-1	None	beta4Gal-T4
3	B4GALT4	ENSG00000121578	ENST00000359213	protein_coding	KNOWN	CCDS2986	927	1035	344	118930589	118959793	-1	None	beta4Gal-T4
3	B4GALT4	ENSG00000121578	ENST00000393765	protein_coding	KNOWN	CCDS2986	927	1035	344	118930589	118959950	-1	None	beta4Gal-T4
3	B4GALT4	ENSG00000121578	ENST00000480814	nonsense_mediated_decay	KNOWN	None	927	741	246	118930626	118955918	-1	None	beta4Gal-T4
3	B4GALT4	ENSG00000121578	ENST00000460321	processed_transcript	KNOWN	None	927	None	None	118935086	118959725	-1	None	beta4Gal-T4
3	B4GALT4	ENSG00000121578	ENST00000491906	protein_coding	PUTATIVE	None	927	75	24	118945656	118959725	-1	None	beta4Gal-T4
3	B4GALT4	ENSG00000121578	ENST00000475803	protein_coding	KNOWN	None	927	409	135	118945733	118959725	-1	None	beta4Gal-T4
3	B4GALT4	ENSG00000121578	ENST00000479150	protein_coding	KNOWN	None	927	356	117	118945786	118959725	-1	None	beta4Gal-T4
3	B4GALT4	ENSG00000121578	ENST00000470111	protein_coding	KNOWN	None	927	164	53	118948783	118959725	-1	None	beta4Gal-T4
3	B4GALT4	ENSG00000121578	ENST00000493932	protein_coding	KNOWN	None	927	125	40	118948822	118959511	-1	None	beta4Gal-T4
3	B4GALT4	ENSG00000121578	ENST00000473887	protein_coding	KNOWN	None	927	65	20	118948882	118959004	-1	None	beta4Gal-T4
3	B4GALT4	ENSG00000121578	ENST00000459778	protein_coding	KNOWN	None	927	20	5	118948927	118959754	-1	None	beta4Gal-T4
3	B4GALT4	ENSG00000121578	ENST00000459820	protein_coding	KNOWN	None	927	8	1	118948939	118959725	-1	None	beta4Gal-T4
3	B4GALT4	ENSG00000121578	ENST00000460395	processed_transcript	KNOWN	None	927	None	None	118948963	118959754	-1	None	beta4Gal-T4
3	B4GALT4	ENSG00000121578	ENST00000472471	processed_transcript	KNOWN	None	927	None	None	118949003	118959502	-1	None	beta4Gal-T4
3	B4GALT4	ENSG00000121578	ENST00000484595	processed_transcript	KNOWN	None	927	None	None	118949023	118959754	-1	None	beta4Gal-T4
3	B4GALT4	ENSG00000121578	ENST00000487579	processed_transcript	KNOWN	None	927	None	None	118951264	118959725	-1	None	beta4Gal-T4
3	B4GALT4	ENSG00000121578	ENST00000479308	processed_transcript	PUTATIVE	None	927	None	None	118955062	118959242	-1	None	beta4Gal-T4
17	None	ENSG00000224298	ENST00000590992	antisense	KNOWN	None	None	None	None	34400226	34417203	1	None	None
17	None	ENSG00000224298	ENST00000588864	antisense	KNOWN	None	None	None	None	34400238	34408870	1	None	None
17	None	ENSG00000224298	ENST00000441575	antisense	KNOWN	None	None	None	None	34408992	34417208	1	None	None
17	None	ENSG00000224298	ENST00000592728	antisense	KNOWN	None	None	None	None	34415639	34417480	1	None	None
1	None	ENSG00000223956	ENST00000451914	lincRNA	KNOWN	None	None	None	None	56880635	56881638	1	None	None
5	None	ENSG00000239615	ENST00000498563	processed_pseudogene	KNOWN	None	None	None	None	133603112	133603547	1	None	None
3	None	ENSG00000266849	ENST00000578837	miRNA	NOVEL	None	None	None	None	129815216	129815281	1	None	None
1	None	ENSG00000225036	ENST00000454213	processed_pseudogene	KNOWN	None	None	None	None	105976616	105977443	1	None	None
11	None	ENSG00000254653	ENST00000528480	lincRNA	KNOWN	None	None	None	None	46138129	46138869	1	None	None
2	None	ENSG00000230499	ENST00000451230	lincRNA	KNOWN	None	None	None	None	111953540	111964071	1	None	None
2	RPL12P18	ENSG00000213400	ENST00000437175	processed_pseudogene	KNOWN	None	36750	None	None	85101820	85102144	1	None	None
3	None	ENSG00000240057	ENST00000496389	antisense	KNOWN	None	None	None	None	112738379	112902148	1	None	None
3	None	ENSG00000240057	ENST00000470313	antisense	KNOWN	None	None	None	None	112738380	112807562	1	None	None
3	None	ENSG00000240057	ENST00000467342	antisense	KNOWN	None	None	None	None	112738383	112807871	1	None	None
3	None	ENSG00000240057	ENST00000460707	antisense	KNOWN	None	None	None	None	112738388	112829322	1	None	None
3	None	ENSG00000240057	ENST00000491578	antisense	KNOWN	None	None	None	None	112876555	112880867	1	None	None
3	None	ENSG00000240057	ENST00000463017	antisense	KNOWN	None	None	None	None	112877383	112902095	1	None	None
5	None	ENSG00000248559	ENST00000503470	antisense	KNOWN	None	None	None	None	133735186	133737612	1	None	None
10	None	ENSG00000215146	ENST00000423987	processed_pseudogene	KNOWN	None	None	None	None	42832238	42833689	-1	None	None
3	RNU6-720P	ENSG00000252172	ENST00000516363	snRNA	KNOWN	None	47683	None	None	149635129	149635236	-1	None	None
2	None	ENSG00000227992	ENST00000450258	processed_pseudogene	KNOWN	None	None	None	None	111961541	111963792	-1	None	None
3	FAM86HP	ENSG00000253540	ENST00000511564	processed_transcript	KNOWN	None	42359	None	None	129817935	129822665	-1	None	None
3	FAM86HP	ENSG00000253540	ENST00000513466	transcribed_unprocessed_pseudogene	KNOWN	None	42359	None	None	129818101	129830315	-1	None	None
3	FAM86HP	ENSG00000253540	ENST00000506448	processed_transcript	PUTATIVE	None	42359	None	None	129821607	129822957	-1	None	None
3	FAM86HP	ENSG00000253540	ENST00000515245	processed_transcript	PUTATIVE	None	42359	None	None	129821607	129830275	-1	None	None
3	FAM86HP	ENSG00000253540	ENST00000500074	processed_transcript	PUTATIVE	None	42359	None	None	129821607	129830276	-1	None	None
16	None	ENSG00000263198	ENST00000571911	antisense	KNOWN	None	None	None	None	16386035	16388663	-1	None	None
3	NPM1P29	ENSG00000239351	ENST00000483112	processed_pseudogene	KNOWN	None	45208	None	None	149656784	149657586	-1	None	None
14	None	ENSG00000205562	ENST00000380722	lincRNA	KNOWN	None	None	None	None	85991477	85996332	-1	None	None
3	EEF1A1P24	ENSG00000223668	ENST00000451469	processed_pseudogene	KNOWN	None	37897	None	None	39400036	39401413	1	None	None
10	SLC16A9	ENSG00000165449	ENST00000395348	protein_coding	KNOWN	CCDS7256	23520	1530	509	61410523	61469837	-1	C10orf36	FLJ43803, MCT9
10	SLC16A9	ENSG00000165449	ENST00000395347	protein_coding	KNOWN	CCDS7256	23520	1530	509	61410523	61495760	-1	C10orf36	FLJ43803, MCT9
10	SLC16A9	ENSG00000165449	ENST00000490066	processed_transcript	KNOWN	None	23520	None	None	61443856	61469280	-1	C10orf36	FLJ43803, MCT9
1	OR10R3P	ENSG00000198703	ENST00000361688	unprocessed_pseudogene	KNOWN	None	14829	None	None	158461009	158461950	1	None	None
Y	RBMY2QP	ENSG00000236718	ENST00000429799	unprocessed_pseudogene	KNOWN	None	23895	None	None	9860098	9871796	-1	None	None
Y	RBMY2QP	ENSG00000236718	ENST00000420376	unprocessed_pseudogene	KNOWN	None	23895	None	None	9868005	9868142	-1	None	None
3	IFT122	ENSG00000163913	ENST00000347300	protein_coding	KNOWN	CCDS3059	13556	3549	1182	129158968	129239194	1	WDR10	WDR140, WDR10p, SPG
3	IFT122	ENSG00000163913	ENST00000296266	protein_coding	KNOWN	CCDS3060	13556	3879	1292	129158982	129239188	1	WDR10	WDR140, WDR10p, SPG
3	IFT122	ENSG00000163913	ENST00000507564	protein_coding	NOVEL	None	13556	3705	1234	129159055	129239108	1	WDR10	WDR140, WDR10p, SPG
3	IFT122	ENSG00000163913	ENST00000512220	nonsense_mediated_decay	KNOWN	None	13556	243	80	129159076	129239190	1	WDR10	WDR140, WDR10p, SPG
3	IFT122	ENSG00000163913	ENST00000504021	protein_coding	NOVEL	None	13556	3357	1118	129159080	129239198	1	WDR10	WDR140, WDR10p, SPG
3	IFT122	ENSG00000163913	ENST00000349441	protein_coding	KNOWN	CCDS3062	13556	3396	1131	129159087	129239194	1	WDR10	WDR140, WDR10p, SPG
3	IFT122	ENSG00000163913	ENST00000348417	protein_coding	KNOWN	CCDS3061	13556	3726	1241	129159097	129239182	1	WDR10	WDR140, WDR10p, SPG
3	IFT122	ENSG00000163913	ENST00000506507	retained_intron	KNOWN	None	13556	None	None	129168713	129239198	1	WDR10	WDR140, WDR10p, SPG
3	IFT122	ENSG00000163913	ENST00000504653	retained_intron	KNOWN	None	13556	None	None	129168714	129171053	1	WDR10	WDR140, WDR10p, SPG
3	IFT122	ENSG00000163913	ENST00000510524	nonsense_mediated_decay	KNOWN	None	13556	337	111	129168714	129180120	1	WDR10	WDR140, WDR10p, SPG
3	IFT122	ENSG00000163913	ENST00000502456	nonsense_mediated_decay	KNOWN	None	13556	202	66	129168714	129182465	1	WDR10	WDR140, WDR10p, SPG
3	IFT122	ENSG00000163913	ENST00000502304	nonsense_mediated_decay	KNOWN	None	13556	208	68	129168714	129182469	1	WDR10	WDR140, WDR10p, SPG
3	IFT122	ENSG00000163913	ENST00000514275	protein_coding	PUTATIVE	None	13556	296	97	129168714	129182469	1	WDR10	WDR140, WDR10p, SPG
3	IFT122	ENSG00000163913	ENST00000508826	protein_coding	PUTATIVE	None	13556	329	108	129168714	129183536	1	WDR10	WDR140, WDR10p, SPG
3	IFT122	ENSG00000163913	ENST00000509195	nonsense_mediated_decay	KNOWN	None	13556	139	45	129168714	129183537	1	WDR10	WDR140, WDR10p, SPG
3	IFT122	ENSG00000163913	ENST00000509815	processed_transcript	KNOWN	None	13556	None	None	129168714	129195351	1	WDR10	WDR140, WDR10p, SPG
3	IFT122	ENSG00000163913	ENST00000512157	protein_coding	PUTATIVE	None	13556	734	243	129168714	129195596	1	WDR10	WDR140, WDR10p, SPG
3	IFT122	ENSG00000163913	ENST00000515783	protein_coding	PUTATIVE	None	13556	962	319	129168714	129198760	1	WDR10	WDR140, WDR10p, SPG
3	IFT122	ENSG00000163913	ENST00000511498	protein_coding	NOVEL	None	13556	290	95	129180152	129195258	1	WDR10	WDR140, WDR10p, SPG
3	IFT122	ENSG00000163913	ENST00000514081	retained_intron	KNOWN	None	13556	None	None	129181964	129183533	1	WDR10	WDR140, WDR10p, SPG
3	IFT122	ENSG00000163913	ENST00000508654	retained_intron	KNOWN	None	13556	None	None	129194982	129196916	1	WDR10	WDR140, WDR10p, SPG
3	IFT122	ENSG00000163913	ENST00000509522	protein_coding	NOVEL	None	13556	1141	379	129198733	129223264	1	WDR10	WDR140, WDR10p, SPG
3	IFT122	ENSG00000163913	ENST00000513891	retained_intron	KNOWN	None	13556	None	None	129200224	129202680	1	WDR10	WDR140, WDR10p, SPG
3	IFT122	ENSG00000163913	ENST00000512814	retained_intron	KNOWN	None	13556	None	None	129200352	129214330	1	WDR10	WDR140, WDR10p, SPG
3	IFT122	ENSG00000163913	ENST00000448668	retained_intron	KNOWN	None	13556	None	None	129200373	129202735	1	WDR10	WDR140, WDR10p, SPG
3	IFT122	ENSG00000163913	ENST00000511425	retained_intron	KNOWN	None	13556	None	None	129206349	129239198	1	WDR10	WDR140, WDR10p, SPG
3	IFT122	ENSG00000163913	ENST00000507221	protein_coding	PUTATIVE	None	13556	515	170	129207034	129221607	1	WDR10	WDR140, WDR10p, SPG
3	IFT122	ENSG00000163913	ENST00000513932	processed_transcript	KNOWN	None	13556	None	None	129214293	129222876	1	WDR10	WDR140, WDR10p, SPG
3	IFT122	ENSG00000163913	ENST00000513190	retained_intron	KNOWN	None	13556	None	None	129231201	129239192	1	WDR10	WDR140, WDR10p, SPG
3	IFT122	ENSG00000163913	ENST00000504444	retained_intron	KNOWN	None	13556	None	None	129231224	129233663	1	WDR10	WDR140, WDR10p, SPG
3	IFT122	ENSG00000163913	ENST00000431818	protein_coding	KNOWN	None	13556	3276	1091	129159076	129239190	1	WDR10	WDR140, WDR10p, SPG
3	IFT122	ENSG00000163913	ENST00000440957	protein_coding	KNOWN	None	13556	3099	1032	129159166	129239198	1	WDR10	WDR140, WDR10p, SPG
2	None	ENSG00000213399	ENST00000449856	processed_pseudogene	KNOWN	None	None	None	None	85142992	85143784	1	None	None
2	None	ENSG00000213399	ENST00000393863	pseudogene	KNOWN	None	None	None	None	85142910	85143789	1	None	None
17	None	ENSG00000227274	ENST00000445508	antisense	KNOWN	None	None	None	None	12575179	12609452	-1	None	None
16	MIR3179-2	ENSG00000257381	ENST00000547549	lincRNA	KNOWN	None	38325	None	None	16394007	16394683	1	None	hsa-mir-3179-2
16	MIR3179-2	ENSG00000257381	ENST00000579107	miRNA	KNOWN	None	38325	None	None	16394016	16394099	1	None	hsa-mir-3179-2
19	None	ENSG00000187534	ENST00000596581	processed_pseudogene	KNOWN	None	None	None	None	40449146	40449587	-1	None	None
19	None	ENSG00000187534	ENST00000314084	pseudogene	KNOWN	None	None	None	None	40448563	40449634	-1	None	None
16	ERVK13-1	ENSG00000260565	ENST00000564340	lincRNA	KNOWN	None	27548	None	None	2710350	2723375	-1	None	None
16	ERVK13-1	ENSG00000260565	ENST00000568395	lincRNA	KNOWN	None	27548	None	None	2711150	2723442	-1	None	None
16	ERVK13-1	ENSG00000260565	ENST00000569465	lincRNA	KNOWN	None	27548	None	None	2711197	2723416	-1	None	None
16	ERVK13-1	ENSG00000260565	ENST00000562807	lincRNA	KNOWN	None	27548	None	None	2713083	2721462	-1	None	None
16	ERVK13-1	ENSG00000260565	ENST00000566343	lincRNA	KNOWN	None	27548	None	None	2713318	2721462	-1	None	None
16	ERVK13-1	ENSG00000260565	ENST00000568970	lincRNA	KNOWN	None	27548	None	None	2717976	2721406	-1	None	None
16	ERVK13-1	ENSG00000260565	ENST00000564160	lincRNA	KNOWN	None	27548	None	None	2722327	2723445	-1	None	None
11	SMARCE1P1	ENSG00000225215	ENST00000417747	processed_pseudogene	KNOWN	None	39731	None	None	107274130	107275315	-1	None	None
X	CACNA1F	ENSG00000102001	ENST00000376251	protein_coding	NOVEL	CCDS59166	1393	5739	1912	49061523	49089771	-1	CSNB2, AIED	Cav1.4, JM8, JMC8, CSNBX2, CORDX3, CSNB2A, OA2
X	CACNA1F	ENSG00000102001	ENST00000323022	protein_coding	KNOWN	CCDS59167	1393	5901	1966	49061523	49089833	-1	CSNB2, AIED	Cav1.4, JM8, JMC8, CSNBX2, CORDX3, CSNB2A, OA2
X	CACNA1F	ENSG00000102001	ENST00000376265	protein_coding	KNOWN	CCDS35253	1393	5934	1977	49061523	49089833	-1	CSNB2, AIED	Cav1.4, JM8, JMC8, CSNBX2, CORDX3, CSNB2A, OA2
X	CACNA1F	ENSG00000102001	ENST00000486943	protein_coding	PUTATIVE	None	1393	351	116	49065276	49066172	-1	CSNB2, AIED	Cav1.4, JM8, JMC8, CSNBX2, CORDX3, CSNB2A, OA2
X	CACNA1F	ENSG00000102001	ENST00000481035	retained_intron	KNOWN	None	1393	None	None	49066121	49067459	-1	CSNB2, AIED	Cav1.4, JM8, JMC8, CSNBX2, CORDX3, CSNB2A, OA2
X	CACNA1F	ENSG00000102001	ENST00000480889	processed_transcript	KNOWN	None	1393	None	None	49078717	49079602	-1	CSNB2, AIED	Cav1.4, JM8, JMC8, CSNBX2, CORDX3, CSNB2A, OA2
8	RNU6-665P	ENSG00000207369	ENST00000384639	snRNA	KNOWN	None	47628	None	None	48580333	48580439	1	None	None
3	CADM2-AS2	ENSG00000241648	ENST00000467225	antisense	KNOWN	None	41247	None	None	85849137	85877200	-1	None	None
HSCHR19_1_CTG3_1	LSM14A	ENSG00000262860	ENST00000575811	protein_coding	KNOWN	None	24489	1392	463	34663352	34720227	1	C19orf13, FAM61A	DKFZP434D1335, RAP55A, RAP55
HSCHR19_1_CTG3_1	LSM14A	ENSG00000262860	ENST00000575110	nonsense_mediated_decay	KNOWN	None	24489	309	102	34663409	34687571	1	C19orf13, FAM61A	DKFZP434D1335, RAP55A, RAP55
HSCHR19_1_CTG3_1	LSM14A	ENSG00000262860	ENST00000570462	protein_coding	KNOWN	None	24489	1392	463	34663443	34719008	1	C19orf13, FAM61A	DKFZP434D1335, RAP55A, RAP55
HSCHR19_1_CTG3_1	LSM14A	ENSG00000262860	ENST00000575697	protein_coding	NOVEL	None	24489	1032	343	34663563	34712500	1	C19orf13, FAM61A	DKFZP434D1335, RAP55A, RAP55
HSCHR19_1_CTG3_1	LSM14A	ENSG00000262860	ENST00000570386	retained_intron	KNOWN	None	24489	None	None	34699101	34720191	1	C19orf13, FAM61A	DKFZP434D1335, RAP55A, RAP55
HSCHR19_1_CTG3_1	LSM14A	ENSG00000262860	ENST00000575388	protein_coding	KNOWN	None	24489	243	80	34712426	34720199	1	C19orf13, FAM61A	DKFZP434D1335, RAP55A, RAP55
1	OR10R1P	ENSG00000227445	ENST00000441524	unprocessed_pseudogene	KNOWN	None	14813	None	None	158484575	158485715	1	None	None
12	RNU6-1012P	ENSG00000252415	ENST00000516606	snRNA	KNOWN	None	47975	None	None	74072968	74073076	-1	None	None
17	None	ENSG00000266221	ENST00000578952	lincRNA	KNOWN	None	None	None	None	12620322	12622491	1	None	None
2	SNORA70F	ENSG00000206869	ENST00000384142	snoRNA	KNOWN	None	34358	None	None	165544153	165544287	-1	None	U70F
8	None	ENSG00000207450	ENST00000384719	misc_RNA	NOVEL	None	None	None	None	48717640	48717740	-1	None	None
10	CCNYL2	ENSG00000182632	ENST00000483242	processed_transcript	KNOWN	None	23495	None	None	42903616	42967688	-1	C10orf21	bA178A10.2
10	CCNYL2	ENSG00000182632	ENST00000472090	transcribed_unprocessed_pseudogene	KNOWN	None	23495	None	None	42905175	42950162	-1	C10orf21	bA178A10.2
10	CCNYL2	ENSG00000182632	ENST00000426433	unprocessed_pseudogene	KNOWN	None	23495	None	None	42905531	42949833	-1	C10orf21	bA178A10.2
5	None	ENSG00000243648	ENST00000471205	processed_pseudogene	KNOWN	None	None	None	None	133758529	133759026	1	None	None
5	GZMK	ENSG00000113088	ENST00000231009	protein_coding	KNOWN	CCDS3964	4711	795	264	54320081	54330398	1	None	TRYP2, PRSS
5	GZMK	ENSG00000113088	ENST00000512089	retained_intron	KNOWN	None	4711	None	None	54326201	54327282	1	None	TRYP2, PRSS
12	None	ENSG00000257750	ENST00000551387	lincRNA	KNOWN	None	None	None	None	74154469	74192507	1	None	None
8	None	ENSG00000211562	ENST00000390136	miRNA	NOVEL	None	None	None	None	48802619	48802691	1	None	None
2	None	ENSG00000233255	ENST00000414885	antisense	KNOWN	None	None	None	None	165697259	165705844	1	None	None
17	RN7SL301P	ENSG00000263488	ENST00000580733	misc_RNA	KNOWN	None	46317	None	None	34437543	34437838	1	None	None
5	None	ENSG00000250564	ENST00000512748	lincRNA	KNOWN	None	None	None	None	133764742	133796306	-1	None	None
11	None	ENSG00000255444	ENST00000527643	processed_pseudogene	KNOWN	None	None	None	None	74193295	74193587	1	None	None
19	None	ENSG00000221233	ENST00000408306	miRNA	NOVEL	None	None	None	None	40497851	40497946	-1	None	None
17	None	ENSG00000267118	ENST00000592460	antisense	KNOWN	None	None	None	None	34443570	34504867	1	None	None
17	None	ENSG00000267118	ENST00000588054	antisense	KNOWN	None	None	None	None	34503589	34504870	1	None	None
3	RSRC1	ENSG00000174891	ENST00000480820	protein_coding	KNOWN	CCDS3181	24152	1005	334	157823644	158262311	1	None	MGC12197, BM-011, SRrp53, SFRS21
3	RSRC1	ENSG00000174891	ENST00000494002	protein_coding	KNOWN	None	24152	494	163	157825578	157921034	1	None	MGC12197, BM-011, SRrp53, SFRS21
3	RSRC1	ENSG00000174891	ENST00000295930	protein_coding	KNOWN	CCDS3181	24152	1005	334	157827841	158262624	1	None	MGC12197, BM-011, SRrp53, SFRS21
3	RSRC1	ENSG00000174891	ENST00000471994	protein_coding	KNOWN	None	24152	611	202	157827857	158178751	1	None	MGC12197, BM-011, SRrp53, SFRS21
3	RSRC1	ENSG00000174891	ENST00000464171	protein_coding	KNOWN	None	24152	831	276	157827878	158263519	1	None	MGC12197, BM-011, SRrp53, SFRS21
3	RSRC1	ENSG00000174891	ENST00000312179	protein_coding	KNOWN	None	24152	831	276	157827895	158262582	1	None	MGC12197, BM-011, SRrp53, SFRS21
3	RSRC1	ENSG00000174891	ENST00000475278	protein_coding	NOVEL	None	24152	852	283	157827896	158262314	1	None	MGC12197, BM-011, SRrp53, SFRS21
3	RSRC1	ENSG00000174891	ENST00000480119	nonsense_mediated_decay	KNOWN	None	24152	600	199	157827918	158262232	1	None	MGC12197, BM-011, SRrp53, SFRS21
3	RSRC1	ENSG00000174891	ENST00000468344	processed_transcript	KNOWN	None	24152	None	None	157827938	157854687	1	None	MGC12197, BM-011, SRrp53, SFRS21
3	RSRC1	ENSG00000174891	ENST00000471911	processed_transcript	KNOWN	None	24152	None	None	157827945	158187521	1	None	MGC12197, BM-011, SRrp53, SFRS21
3	RSRC1	ENSG00000174891	ENST00000476899	protein_coding	KNOWN	None	24152	583	193	157828191	158072697	1	None	MGC12197, BM-011, SRrp53, SFRS21
3	RSRC1	ENSG00000174891	ENST00000477788	nonsense_mediated_decay	KNOWN	None	24152	338	111	157839943	158072740	1	None	MGC12197, BM-011, SRrp53, SFRS21
3	RSRC1	ENSG00000174891	ENST00000482822	protein_coding	PUTATIVE	None	24152	625	207	157920861	158261476	1	None	MGC12197, BM-011, SRrp53, SFRS21
3	RSRC1	ENSG00000174891	ENST00000496268	processed_transcript	PUTATIVE	None	24152	None	None	157920927	158021364	1	None	MGC12197, BM-011, SRrp53, SFRS21
1	None	ENSG00000236776	ENST00000446654	processed_pseudogene	KNOWN	None	None	None	None	57004124	57004583	1	None	None
3	CADM2-AS1	ENSG00000239519	ENST00000476021	antisense	KNOWN	None	41248	None	None	86041333	86077157	-1	None	None
2	RNA5SP110	ENSG00000199508	ENST00000362638	rRNA	KNOWN	None	42908	None	None	165714942	165715056	1	RN5S110	None
1	None	ENSG00000230768	ENST00000600656	lincRNA	KNOWN	None	None	None	None	106130197	106148629	-1	None	None
1	None	ENSG00000230768	ENST00000597635	lincRNA	KNOWN	None	None	None	None	106130202	106148629	-1	None	None
1	None	ENSG00000230768	ENST00000595309	lincRNA	KNOWN	None	None	None	None	106132300	106148629	-1	None	None
1	None	ENSG00000230768	ENST00000420901	lincRNA	KNOWN	None	None	None	None	106132316	106161540	-1	None	None
1	None	ENSG00000230768	ENST00000597752	lincRNA	KNOWN	None	None	None	None	106132319	106148629	-1	None	None
1	None	ENSG00000230768	ENST00000594455	lincRNA	KNOWN	None	None	None	None	106143114	106148629	-1	None	None
1	None	ENSG00000230768	ENST00000435253	lincRNA	KNOWN	None	None	None	None	106144774	106161580	-1	None	None
11	None	ENSG00000255086	ENST00000526444	processed_pseudogene	KNOWN	None	None	None	None	26067534	26069145	1	None	None
3	None	ENSG00000242791	ENST00000471176	lincRNA	KNOWN	None	None	None	None	149694542	149697115	1	None	None
3	None	ENSG00000242791	ENST00000323689	lincRNA	KNOWN	None	None	None	None	149695885	149697142	1	None	None
11	None	ENSG00000254974	ENST00000524889	processed_pseudogene	KNOWN	None	None	None	None	74196625	74197096	-1	None	None
12	FAM66C	ENSG00000226711	ENST00000456135	antisense	KNOWN	None	21644	None	None	8332805	8356982	1	None	None
12	FAM66C	ENSG00000226711	ENST00000454799	antisense	KNOWN	None	21644	None	None	8332805	8368747	1	None	None
12	FAM66C	ENSG00000226711	ENST00000544214	antisense	KNOWN	None	21644	None	None	8332818	8353596	1	None	None
12	FAM66C	ENSG00000226711	ENST00000541558	antisense	KNOWN	None	21644	None	None	8332865	8352477	1	None	None
12	FAM66C	ENSG00000226711	ENST00000372173	antisense	KNOWN	None	21644	None	None	8341081	8368631	1	None	None
12	FAM66C	ENSG00000226711	ENST00000535567	antisense	KNOWN	None	21644	None	None	8346127	8356724	1	None	None
12	FAM66C	ENSG00000226711	ENST00000420514	antisense	KNOWN	None	21644	None	None	8346800	8349114	1	None	None
12	FAM66C	ENSG00000226711	ENST00000438689	antisense	KNOWN	None	21644	None	None	8346895	8347872	1	None	None
12	FAM66C	ENSG00000226711	ENST00000540566	antisense	KNOWN	None	21644	None	None	8347026	8348248	1	None	None
2	RNA5SP111	ENSG00000223318	ENST00000411386	rRNA	KNOWN	None	42909	None	None	165752187	165752287	-1	RN5S111	None
7	MTND4P5	ENSG00000227584	ENST00000435821	unprocessed_pseudogene	KNOWN	None	42192	None	None	57260401	57261775	1	None	None
3	PRKRIRP2	ENSG00000243915	ENST00000489193	processed_pseudogene	KNOWN	None	39566	None	None	86061711	86064270	1	None	None
X	PPEF1	ENSG00000086717	ENST00000486029	processed_transcript	KNOWN	None	9243	None	None	18694029	18716028	1	PPEF	PPP7CA
X	PPEF1	ENSG00000086717	ENST00000361511	protein_coding	KNOWN	CCDS14188	9243	1962	653	18709032	18846039	1	PPEF	PPP7CA
X	PPEF1	ENSG00000086717	ENST00000471570	processed_transcript	KNOWN	None	9243	None	None	18718170	18768070	1	PPEF	PPP7CA
X	PPEF1	ENSG00000086717	ENST00000496616	retained_intron	KNOWN	None	9243	None	None	18718170	18768073	1	PPEF	PPP7CA
X	PPEF1	ENSG00000086717	ENST00000472826	protein_coding	PUTATIVE	None	9243	288	95	18725773	18779694	1	PPEF	PPP7CA
X	PPEF1	ENSG00000086717	ENST00000496075	nonsense_mediated_decay	KNOWN	None	9243	495	164	18725777	18807318	1	PPEF	PPP7CA
X	PPEF1	ENSG00000086717	ENST00000379962	retained_intron	KNOWN	None	9243	None	None	18748282	18845778	1	PPEF	PPP7CA
X	PPEF1	ENSG00000086717	ENST00000470157	protein_coding	NOVEL	None	9243	348	115	18836213	18845665	1	PPEF	PPP7CA
X	PPEF1	ENSG00000086717	ENST00000359763	protein_coding	KNOWN	None	9243	1803	600	18709046	18846039	1	PPEF	PPP7CA
X	PPEF1	ENSG00000086717	ENST00000349874	protein_coding	KNOWN	CCDS43920	9243	1776	591	18709046	18846039	1	PPEF	PPP7CA
X	PPEF1	ENSG00000086717	ENST00000543630	protein_coding	KNOWN	None	9243	1131	376	18709046	18846039	1	PPEF	PPP7CA
X	PPEF1	ENSG00000086717	ENST00000544635	protein_coding	KNOWN	None	9243	1767	588	18725773	18845806	1	PPEF	PPP7CA
7	OR2A42	ENSG00000212807	ENST00000391496	protein_coding	KNOWN	CCDS56515	31230	933	310	143929004	143929936	-1	None	None
19	MISP	ENSG00000099812	ENST00000215582	protein_coding	KNOWN	CCDS12042	27000	2040	679	751126	764319	1	C19orf21	DKFZp686H18209
2	None	ENSG00000236283	ENST00000431341	antisense	KNOWN	None	None	None	None	165848494	165947803	1	None	None
2	None	ENSG00000260840	ENST00000567718	lincRNA	KNOWN	None	None	None	None	85291231	85294470	-1	None	None
1	None	ENSG00000231434	ENST00000436135	processed_pseudogene	KNOWN	None	None	None	None	158493462	158495628	1	None	None
17	None	ENSG00000267181	ENST00000588206	processed_pseudogene	KNOWN	None	None	None	None	34488982	34490296	1	None	None
11	None	ENSG00000254837	ENST00000526036	lincRNA	KNOWN	None	None	None	None	74204411	74209578	1	None	None
1	None	ENSG00000224980	ENST00000421838	processed_pseudogene	KNOWN	None	None	None	None	57051285	57051915	-1	None	None
4	None	ENSG00000249262	ENST00000504640	processed_pseudogene	KNOWN	None	None	None	None	88331796	88332540	1	None	None
2	KCMF1	ENSG00000176407	ENST00000456682	protein_coding	PUTATIVE	None	20589	31	9	85198216	85255179	1	None	DEBT91, PCMF, DKFZP434L1021, ZZZ1
2	KCMF1	ENSG00000176407	ENST00000409785	protein_coding	KNOWN	CCDS46350	20589	1146	381	85198216	85282560	1	None	DEBT91, PCMF, DKFZP434L1021, ZZZ1
2	KCMF1	ENSG00000176407	ENST00000428691	protein_coding	PUTATIVE	None	20589	141	46	85199087	85262248	1	None	DEBT91, PCMF, DKFZP434L1021, ZZZ1
2	KCMF1	ENSG00000176407	ENST00000453448	protein_coding	PUTATIVE	None	20589	448	148	85199324	85273401	1	None	DEBT91, PCMF, DKFZP434L1021, ZZZ1
HG388_HG400_PATCH	DLAT	ENSG00000263032	ENST00000574572	protein_coding	KNOWN	None	2896	1944	647	111895537	111935113	1	DLTA	PDC-E2
HG388_HG400_PATCH	DLAT	ENSG00000263032	ENST00000572204	nonsense_mediated_decay	KNOWN	None	2896	198	65	111896131	111933494	1	DLTA	PDC-E2
HG388_HG400_PATCH	DLAT	ENSG00000263032	ENST00000571622	protein_coding	NOVEL	None	2896	882	293	111896163	111914256	1	DLTA	PDC-E2
HG388_HG400_PATCH	DLAT	ENSG00000263032	ENST00000576866	protein_coding	PUTATIVE	None	2896	212	69	111930718	111932270	1	DLTA	PDC-E2
2	MIR4435-1HG	ENSG00000172965	ENST00000439362	lincRNA	KNOWN	None	35163	None	None	111965353	112252625	-1	None	LINC00978, AGD2
2	MIR4435-1HG	ENSG00000172965	ENST00000605570	retained_intron	KNOWN	None	35163	None	None	111965592	111966694	-1	None	LINC00978, AGD2
2	MIR4435-1HG	ENSG00000172965	ENST00000371162	lincRNA	KNOWN	None	35163	None	None	111994581	111996624	-1	None	LINC00978, AGD2
2	MIR4435-1HG	ENSG00000172965	ENST00000431385	lincRNA	KNOWN	None	35163	None	None	111996296	112252597	-1	None	LINC00978, AGD2
2	MIR4435-1HG	ENSG00000172965	ENST00000443467	lincRNA	KNOWN	None	35163	None	None	111997401	112252625	-1	None	LINC00978, AGD2
2	MIR4435-1HG	ENSG00000172965	ENST00000451884	lincRNA	KNOWN	None	35163	None	None	112005727	112123291	-1	None	LINC00978, AGD2
2	MIR4435-1HG	ENSG00000172965	ENST00000432818	lincRNA	KNOWN	None	35163	None	None	112033908	112252677	-1	None	LINC00978, AGD2
2	MIR4435-1HG	ENSG00000172965	ENST00000444301	lincRNA	KNOWN	None	35163	None	None	112071889	112252610	-1	None	LINC00978, AGD2
2	MIR4435-1HG	ENSG00000172965	ENST00000453478	lincRNA	KNOWN	None	35163	None	None	112101668	112252631	-1	None	LINC00978, AGD2
2	MIR4435-1HG	ENSG00000172965	ENST00000409569	lincRNA	KNOWN	None	35163	None	None	112186886	112252663	-1	None	LINC00978, AGD2
2	MIR4435-1HG	ENSG00000172965	ENST00000419736	lincRNA	KNOWN	None	35163	None	None	112186889	112252628	-1	None	LINC00978, AGD2
2	MIR4435-1HG	ENSG00000172965	ENST00000308604	lincRNA	KNOWN	None	35163	None	None	112186896	112252565	-1	None	LINC00978, AGD2
2	MIR4435-1HG	ENSG00000172965	ENST00000603827	lincRNA	KNOWN	None	35163	None	None	112186899	112188485	-1	None	LINC00978, AGD2
2	MIR4435-1HG	ENSG00000172965	ENST00000603310	lincRNA	KNOWN	None	35163	None	None	112186899	112199198	-1	None	LINC00978, AGD2
2	MIR4435-1HG	ENSG00000172965	ENST00000604981	lincRNA	KNOWN	None	35163	None	None	112186899	112252611	-1	None	LINC00978, AGD2
2	MIR4435-1HG	ENSG00000172965	ENST00000442293	lincRNA	KNOWN	None	35163	None	None	112186900	112237838	-1	None	LINC00978, AGD2
2	MIR4435-1HG	ENSG00000172965	ENST00000441075	lincRNA	KNOWN	None	35163	None	None	112187020	112252602	-1	None	LINC00978, AGD2
2	MIR4435-1HG	ENSG00000172965	ENST00000439494	lincRNA	KNOWN	None	35163	None	None	112227215	112237838	-1	None	LINC00978, AGD2
2	None	ENSG00000235463	ENST00000411597	processed_pseudogene	KNOWN	None	None	None	None	85295932	85296154	-1	None	None
12	None	ENSG00000257576	ENST00000547203	processed_pseudogene	KNOWN	None	None	None	None	56904786	56906487	1	None	None
11	None	ENSG00000270969	ENST00000604056	processed_pseudogene	KNOWN	None	None	None	None	107456627	107457629	-1	None	None
2	RN7SL455P	ENSG00000264047	ENST00000580629	misc_RNA	KNOWN	None	46471	None	None	166005705	166005983	-1	None	None
19	DEDD2	ENSG00000160570	ENST00000336034	protein_coding	KNOWN	CCDS59391	24450	966	321	42702750	42721821	-1	None	FLAME-3
19	DEDD2	ENSG00000160570	ENST00000595337	protein_coding	KNOWN	CCDS12597	24450	981	326	42702765	42724275	-1	None	FLAME-3
19	DEDD2	ENSG00000160570	ENST00000593804	processed_transcript	KNOWN	None	24450	None	None	42702768	42721894	-1	None	FLAME-3
19	DEDD2	ENSG00000160570	ENST00000596251	protein_coding	KNOWN	CCDS12597	24450	981	326	42703511	42721868	-1	None	FLAME-3
19	DEDD2	ENSG00000160570	ENST00000601135	processed_transcript	KNOWN	None	24450	None	None	42703617	42721858	-1	None	FLAME-3
19	DEDD2	ENSG00000160570	ENST00000598415	processed_transcript	KNOWN	None	24450	None	None	42703719	42721876	-1	None	FLAME-3
19	DEDD2	ENSG00000160570	ENST00000602075	processed_transcript	KNOWN	None	24450	None	None	42703746	42721853	-1	None	FLAME-3
19	DEDD2	ENSG00000160570	ENST00000600559	processed_transcript	KNOWN	None	24450	None	None	42703755	42721860	-1	None	FLAME-3
19	DEDD2	ENSG00000160570	ENST00000598090	processed_transcript	KNOWN	None	24450	None	None	42703945	42721864	-1	None	FLAME-3
19	DEDD2	ENSG00000160570	ENST00000598727	protein_coding	PUTATIVE	None	24450	615	204	42705866	42721834	-1	None	FLAME-3
19	DEDD2	ENSG00000160570	ENST00000593561	processed_transcript	KNOWN	None	24450	None	None	42706007	42724292	-1	None	FLAME-3
19	DEDD2	ENSG00000160570	ENST00000602201	processed_transcript	KNOWN	None	24450	None	None	42706056	42721909	-1	None	FLAME-3
19	DEDD2	ENSG00000160570	ENST00000598200	protein_coding	KNOWN	None	24450	353	116	42719380	42721833	-1	None	FLAME-3
1	None	ENSG00000269468	ENST00000602074	protein_coding	NOVEL	None	None	339	112	17655507	17676070	-1	None	None
5	RNA5SP189	ENSG00000201790	ENST00000364920	rRNA	KNOWN	None	43089	None	None	105258695	105258809	-1	RN5S189	None
2	MAPRE1P3	ENSG00000233204	ENST00000435438	processed_pseudogene	KNOWN	None	37762	None	None	166141763	166142558	1	None	None
1	SEPT2P1	ENSG00000227850	ENST00000419651	processed_pseudogene	KNOWN	None	40017	None	None	106240661	106240840	1	None	None
12	None	ENSG00000201809	ENST00000364939	snoRNA	NOVEL	None	None	None	None	74158059	74158193	-1	None	None
17	None	ENSG00000267488	ENST00000593006	antisense	KNOWN	None	None	None	None	34510615	34516258	1	None	None
17	None	ENSG00000267488	ENST00000589380	antisense	KNOWN	None	None	None	None	34510841	34523855	1	None	None
17	None	ENSG00000267488	ENST00000592498	antisense	KNOWN	None	None	None	None	34515328	34523870	1	None	None
11	RANP3	ENSG00000254500	ENST00000530970	processed_pseudogene	KNOWN	None	39858	None	None	74363681	74363956	1	None	None
7	MTND5P7	ENSG00000230531	ENST00000413558	unprocessed_pseudogene	KNOWN	None	42269	None	None	57261964	57263761	1	None	None
2	LSM3P3	ENSG00000225787	ENST00000436601	processed_pseudogene	KNOWN	None	44348	None	None	85329512	85329817	-1	None	None
5	None	ENSG00000251204	ENST00000509159	processed_pseudogene	KNOWN	None	None	None	None	105751277	105752942	-1	None	None
2	TCF23	ENSG00000163792	ENST00000296096	protein_coding	KNOWN	CCDS33163	18602	645	214	27371872	27376378	1	None	OUT, bHLHa24
2	TCF23	ENSG00000163792	ENST00000407815	processed_transcript	PUTATIVE	None	18602	None	None	27371893	27372817	1	None	OUT, bHLHa24
11	None	ENSG00000255483	ENST00000532684	processed_pseudogene	KNOWN	None	None	None	None	107471105	107471594	-1	None	None
1	OR6K1P	ENSG00000231237	ENST00000456766	unprocessed_pseudogene	KNOWN	None	15028	None	None	158664329	158665299	-1	None	None
11	TRIM64DP	ENSG00000254751	ENST00000529289	transcribed_unprocessed_pseudogene	KNOWN	None	43974	None	None	89510149	89515545	1	None	None
12	None	ENSG00000257292	ENST00000548633	processed_pseudogene	KNOWN	None	None	None	None	38599188	38599814	-1	None	None
3	None	ENSG00000243483	ENST00000476607	processed_pseudogene	KNOWN	None	None	None	None	112760237	112760661	-1	None	None
11	FJX1	ENSG00000179431	ENST00000532914	processed_transcript	PUTATIVE	None	17166	None	None	35641236	35642400	1	None	FLJ22416, FLJ25593
11	FJX1	ENSG00000179431	ENST00000317811	protein_coding	KNOWN	CCDS44570	17166	1314	437	35639735	35642419	1	None	FLJ22416, FLJ25593
12	None	ENSG00000272231	ENST00000606199	miRNA	NOVEL	None	None	None	None	74293650	74293732	1	None	None
1	None	ENSG00000225475	ENST00000442812	processed_pseudogene	KNOWN	None	None	None	None	57085082	57085222	-1	None	None
1	SNX25P1	ENSG00000236809	ENST00000441817	unprocessed_pseudogene	KNOWN	None	41509	None	None	211590367	211591276	1	None	None
1	None	ENSG00000237897	ENST00000433990	processed_pseudogene	KNOWN	None	None	None	None	106433315	106434052	-1	None	None
7	None	ENSG00000234671	ENST00000423752	unprocessed_pseudogene	KNOWN	None	None	None	None	57264345	57265479	1	None	None
2	None	ENSG00000235192	ENST00000425688	lincRNA	KNOWN	None	None	None	None	166651361	166666520	1	None	None
3	None	ENSG00000224831	ENST00000463122	processed_pseudogene	KNOWN	None	None	None	None	149699968	149701095	-1	None	None
3	None	ENSG00000224831	ENST00000438359	processed_pseudogene	KNOWN	None	None	None	None	149699965	149701095	-1	None	None
11	None	ENSG00000270435	ENST00000605434	processed_pseudogene	KNOWN	None	None	None	None	6318419	6319836	-1	None	None
11	None	ENSG00000254792	ENST00000528260	processed_pseudogene	KNOWN	None	None	None	None	67608413	67608520	1	None	None
1	None	ENSG00000261252	ENST00000563421	lincRNA	KNOWN	None	None	None	None	211608414	211608675	1	None	None
12	None	ENSG00000257588	ENST00000550530	antisense	KNOWN	None	None	None	None	50345295	50356566	-1	None	None
12	None	ENSG00000257588	ENST00000552379	antisense	KNOWN	None	None	None	None	50345751	50356705	-1	None	None
12	None	ENSG00000257588	ENST00000550214	antisense	KNOWN	None	None	None	None	50352655	50356707	-1	None	None
1	OR6K4P	ENSG00000180437	ENST00000423179	unprocessed_pseudogene	KNOWN	None	15031	None	None	158693903	158694857	-1	None	None
1	OR6K4P	ENSG00000180437	ENST00000325769	unprocessed_pseudogene	KNOWN	None	15031	None	None	158693903	158694902	-1	None	None
17	None	ENSG00000267330	ENST00000590860	lincRNA	KNOWN	None	None	None	None	34552690	34554250	-1	None	None
2	None	ENSG00000229195	ENST00000428888	lincRNA	KNOWN	None	None	None	None	166651367	166702601	-1	None	None
3	None	ENSG00000201410	ENST00000364540	snoRNA	NOVEL	None	None	None	None	86174366	86174437	1	None	None
1	ARPC3P2	ENSG00000238137	ENST00000457786	processed_pseudogene	KNOWN	None	39431	None	None	211615616	211616148	1	None	None
6	None	ENSG00000231754	ENST00000447728	lincRNA	KNOWN	None	None	None	None	21522707	21524003	-1	None	None
2	TCF7L1-IT1	ENSG00000231134	ENST00000433581	sense_intronic	KNOWN	None	41388	None	None	85413532	85414376	1	None	None
3	None	ENSG00000223036	ENST00000411104	miRNA	NOVEL	None	None	None	None	3688140	3688262	1	None	None
17	None	ENSG00000267086	ENST00000586168	processed_pseudogene	KNOWN	None	None	None	None	34569147	34569252	1	None	None
1	None	ENSG00000229913	ENST00000425435	antisense	KNOWN	None	None	None	None	57289352	57292593	-1	None	None
10	None	ENSG00000234149	ENST00000413431	antisense	KNOWN	None	None	None	None	76762813	76784932	-1	None	None
12	None	ENSG00000258360	ENST00000549593	unprocessed_pseudogene	KNOWN	None	None	None	None	38600033	38600994	-1	None	None
1	None	ENSG00000232952	ENST00000415279	processed_pseudogene	KNOWN	None	None	None	None	106434361	106436139	1	None	None
12	None	ENSG00000257587	ENST00000546770	lincRNA	KNOWN	None	None	None	None	74300720	74313117	1	None	None
2	None	ENSG00000221234	ENST00000408307	miRNA	NOVEL	None	None	None	None	166670725	166670864	1	None	None
2	RNU6-674P	ENSG00000200701	ENST00000363831	snRNA	KNOWN	None	47637	None	None	85432049	85432155	1	None	None
7	GUSBP12	ENSG00000169325	ENST00000513727	unprocessed_pseudogene	KNOWN	None	42326	None	None	57268532	57271304	-1	None	None
7	GUSBP12	ENSG00000169325	ENST00000412912	unprocessed_pseudogene	KNOWN	None	42326	None	None	57268438	57269534	-1	None	None
3	PNPT1P1	ENSG00000229241	ENST00000450418	processed_pseudogene	KNOWN	None	44468	None	None	4023665	4025979	-1	None	None
1	None	ENSG00000223649	ENST00000417794	lincRNA	KNOWN	None	None	None	None	211665597	211666259	1	None	None
17	None	ENSG00000267043	ENST00000592990	processed_pseudogene	KNOWN	None	None	None	None	34746595	34747203	-1	None	None
2	None	ENSG00000232411	ENST00000457108	lincRNA	KNOWN	None	None	None	None	166689558	166695608	-1	None	None
GL000224.1	None	ENSG00000266603	ENST00000578309	miRNA	NOVEL	None	None	None	None	126781	126862	-1	None	None
10	None	ENSG00000227186	ENST00000436608	antisense	KNOWN	None	None	None	None	76783233	76784009	-1	None	None
11	None	ENSG00000254758	ENST00000530968	unprocessed_pseudogene	KNOWN	None	None	None	None	107513613	107514597	-1	None	None
2	None	ENSG00000230299	ENST00000419682	processed_pseudogene	KNOWN	None	None	None	None	85489267	85489390	-1	None	None
14	None	ENSG00000258733	ENST00000557195	lincRNA	KNOWN	None	None	None	None	86401054	86594530	1	None	None
14	None	ENSG00000258733	ENST00000553668	lincRNA	KNOWN	None	None	None	None	86450290	86596117	1	None	None
14	None	ENSG00000258733	ENST00000554647	lincRNA	KNOWN	None	None	None	None	86537098	86571398	1	None	None
X	None	ENSG00000239182	ENST00000458908	snoRNA	NOVEL	None	None	None	None	117872018	117872145	1	None	None
6	None	ENSG00000220771	ENST00000404566	processed_pseudogene	KNOWN	None	None	None	None	21602359	21602614	1	None	None
1	None	ENSG00000261314	ENST00000567907	sense_overlapping	KNOWN	None	None	None	None	211756357	211757067	-1	None	None
12	RNU6-343P	ENSG00000201579	ENST00000364709	snRNA	KNOWN	None	47306	None	None	56982302	56982405	1	None	None
17	RNU6-1192P	ENSG00000201792	ENST00000364922	snRNA	KNOWN	None	48155	None	None	34773400	34773506	-1	None	None
1	OR6K5P	ENSG00000226949	ENST00000447050	unprocessed_pseudogene	KNOWN	None	15032	None	None	158711936	158713205	-1	None	None
X	None	ENSG00000250995	ENST00000506969	processed_pseudogene	KNOWN	None	None	None	None	117903759	117904820	1	None	None
3	RNU6-1129P	ENSG00000251773	ENST00000515964	snRNA	KNOWN	None	48092	None	None	86284471	86284574	1	None	None
10	PPIAP13	ENSG00000237882	ENST00000434706	processed_pseudogene	KNOWN	None	9266	None	None	76849006	76849483	-1	PPIP3	None
12	SNORD59A	ENSG00000207031	ENST00000384304	snoRNA	KNOWN	None	10210	None	None	57038811	57038885	-1	RNU59	U59
1	None	ENSG00000236341	ENST00000417420	antisense	KNOWN	None	None	None	None	57429559	57462430	1	None	None
1	None	ENSG00000228792	ENST00000452024	lincRNA	KNOWN	None	None	None	None	211809248	211816209	-1	None	None
17	RNA5SP439	ENSG00000252912	ENST00000517103	rRNA	KNOWN	None	43339	None	None	34847043	34847166	-1	RN5S439	None
3	None	ENSG00000239767	ENST00000479244	lincRNA	KNOWN	None	None	None	None	86313705	86316511	-1	None	None
1	RCC2	ENSG00000179051	ENST00000375436	protein_coding	KNOWN	CCDS181	30297	1569	522	17733256	17766220	-1	None	TD-60
1	RCC2	ENSG00000179051	ENST00000474892	processed_transcript	KNOWN	None	30297	None	None	17734335	17735542	-1	None	TD-60
1	RCC2	ENSG00000179051	ENST00000375433	protein_coding	KNOWN	CCDS181	30297	1569	522	17735172	17765057	-1	None	TD-60
12	RN7SL809P	ENSG00000241217	ENST00000482040	misc_RNA	KNOWN	None	46825	None	None	57064236	57064530	-1	None	None
1	None	ENSG00000233047	ENST00000446693	lincRNA	KNOWN	None	None	None	None	106470246	106495516	-1	None	None
1	None	ENSG00000233047	ENST00000429080	lincRNA	KNOWN	None	None	None	None	106470246	106565834	-1	None	None
1	None	ENSG00000233047	ENST00000417385	lincRNA	KNOWN	None	None	None	None	106470247	106496111	-1	None	None
19	ADAMTS10	ENSG00000142303	ENST00000595838	protein_coding	PUTATIVE	None	13201	1773	590	8645126	8657080	-1	None	ADAM-TS10
19	ADAMTS10	ENSG00000142303	ENST00000593913	nonsense_mediated_decay	KNOWN	None	13201	870	289	8645572	8670664	-1	None	ADAM-TS10
19	ADAMTS10	ENSG00000142303	ENST00000597188	protein_coding	KNOWN	CCDS12206	13201	3312	1103	8645611	8675585	-1	None	ADAM-TS10
19	ADAMTS10	ENSG00000142303	ENST00000596851	nonsense_mediated_decay	KNOWN	None	13201	870	289	8649847	8675566	-1	None	ADAM-TS10
19	ADAMTS10	ENSG00000142303	ENST00000596911	retained_intron	KNOWN	None	13201	None	None	8651506	8654575	-1	None	ADAM-TS10
19	ADAMTS10	ENSG00000142303	ENST00000593826	nonsense_mediated_decay	KNOWN	None	13201	381	126	8651540	8657100	-1	None	ADAM-TS10
19	ADAMTS10	ENSG00000142303	ENST00000596236	retained_intron	KNOWN	None	13201	None	None	8654685	8657058	-1	None	ADAM-TS10
19	ADAMTS10	ENSG00000142303	ENST00000603221	retained_intron	KNOWN	None	13201	None	None	8654825	8658400	-1	None	ADAM-TS10
19	ADAMTS10	ENSG00000142303	ENST00000601163	retained_intron	KNOWN	None	13201	None	None	8656684	8662206	-1	None	ADAM-TS10
19	ADAMTS10	ENSG00000142303	ENST00000601872	retained_intron	KNOWN	None	13201	None	None	8660497	8661241	-1	None	ADAM-TS10
19	ADAMTS10	ENSG00000142303	ENST00000596709	processed_transcript	KNOWN	None	13201	None	None	8662121	8675585	-1	None	ADAM-TS10
19	ADAMTS10	ENSG00000142303	ENST00000596466	processed_transcript	KNOWN	None	13201	None	None	8662130	8675565	-1	None	ADAM-TS10
19	ADAMTS10	ENSG00000142303	ENST00000593534	retained_intron	KNOWN	None	13201	None	None	8669821	8675620	-1	None	ADAM-TS10
19	ADAMTS10	ENSG00000142303	ENST00000270328	protein_coding	KNOWN	CCDS12206	13201	3312	1103	8645126	8673183	-1	None	ADAM-TS10
2	None	ENSG00000224490	ENST00000440322	antisense	KNOWN	None	None	None	None	166790367	166806401	1	None	None
2	None	ENSG00000224490	ENST00000446624	retained_intron	KNOWN	None	None	None	None	166790398	166804093	1	None	None
2	None	ENSG00000224490	ENST00000443032	antisense	KNOWN	None	None	None	None	166790401	166804663	1	None	None
19	CEACAM19	ENSG00000186567	ENST00000592472	protein_coding	KNOWN	None	31951	164	53	45165545	45175976	1	None	CEAL1
19	CEACAM19	ENSG00000186567	ENST00000587729	protein_coding	KNOWN	None	31951	168	55	45165545	45175980	1	None	CEAL1
19	CEACAM19	ENSG00000186567	ENST00000585657	protein_coding	KNOWN	None	31951	168	55	45165545	45175980	1	None	CEAL1
19	CEACAM19	ENSG00000186567	ENST00000592789	protein_coding	KNOWN	None	31951	168	55	45165545	45175980	1	None	CEAL1
19	CEACAM19	ENSG00000186567	ENST00000591979	protein_coding	KNOWN	None	31951	168	55	45165545	45175980	1	None	CEAL1
19	CEACAM19	ENSG00000186567	ENST00000358777	protein_coding	KNOWN	CCDS46108	31951	900	299	45174724	45187631	1	None	CEAL1
19	CEACAM19	ENSG00000186567	ENST00000403660	protein_coding	KNOWN	CCDS12641	31951	903	300	45174994	45187631	1	None	CEAL1
19	CEACAM19	ENSG00000186567	ENST00000480278	processed_transcript	KNOWN	None	31951	None	None	45175750	45187627	1	None	CEAL1
19	CEACAM19	ENSG00000186567	ENST00000459648	retained_intron	KNOWN	None	31951	None	None	45180857	45187631	1	None	CEAL1
8	None	ENSG00000255211	ENST00000525882	unprocessed_pseudogene	KNOWN	None	None	None	None	7824866	7826066	-1	None	None
1	None	ENSG00000221591	ENST00000408664	miRNA	NOVEL	None	None	None	None	57431953	57432035	1	None	None
2	None	ENSG00000221579	ENST00000408652	miRNA	NOVEL	None	None	None	None	85526157	85526241	1	None	None
17	None	ENSG00000236002	ENST00000486628	processed_pseudogene	KNOWN	None	None	None	None	34930301	34931164	-1	None	None
17	None	ENSG00000236002	ENST00000414616	processed_pseudogene	KNOWN	None	None	None	None	34930301	34931041	-1	None	None
1	None	ENSG00000227764	ENST00000412871	retained_intron	KNOWN	None	None	None	None	211813037	211827923	1	None	None
1	None	ENSG00000227764	ENST00000430123	lincRNA	KNOWN	None	None	None	None	211813150	211827518	1	None	None
11	None	ENSG00000255162	ENST00000532228	unprocessed_pseudogene	KNOWN	None	None	None	None	89519113	89521006	1	None	None
11	None	ENSG00000255243	ENST00000531798	lincRNA	KNOWN	None	None	None	None	26210670	26229894	1	None	None
20	None	ENSG00000224961	ENST00000417299	lincRNA	KNOWN	None	None	None	None	10733738	10734614	1	None	None
Y	TSPY20P	ENSG00000243643	ENST00000450910	unprocessed_pseudogene	KNOWN	None	38093	None	None	9873804	9875984	1	None	None
1	None	ENSG00000227935	ENST00000422038	lincRNA	KNOWN	None	None	None	None	57852248	57853122	1	None	None
8	RNU6-519P	ENSG00000222522	ENST00000410590	snRNA	KNOWN	None	47482	None	None	48891974	48892081	1	None	None
11	None	ENSG00000251637	ENST00000529069	lincRNA	KNOWN	None	None	None	None	67653948	67661564	1	None	None
11	None	ENSG00000251637	ENST00000511677	lincRNA	KNOWN	None	None	None	None	67653967	67658816	1	None	None
11	None	ENSG00000251637	ENST00000533670	lincRNA	KNOWN	None	None	None	None	67654061	67673821	1	None	None
3	None	ENSG00000241219	ENST00000462010	lincRNA	KNOWN	None	None	None	None	112769759	112782290	-1	None	None
11	None	ENSG00000254819	ENST00000524858	lincRNA	KNOWN	None	None	None	None	26307258	26309554	-1	None	None
2	None	ENSG00000246575	ENST00000501107	unprocessed_pseudogene	KNOWN	None	None	None	None	85542164	85543652	1	None	None
1	OR2AQ1P	ENSG00000229724	ENST00000451972	unprocessed_pseudogene	KNOWN	None	15003	None	None	158765804	158766003	1	None	None
8	None	ENSG00000253843	ENST00000519711	processed_pseudogene	KNOWN	None	None	None	None	49106410	49107187	-1	None	None
7	RN7SL7P	ENSG00000266794	ENST00000467823	misc_RNA	KNOWN	None	10042	None	None	92600318	92600613	-1	RN7SLP4, RN7SL27P	7L23
HG998_1_PATCH	QSOX2	ENSG00000261074	ENST00000561576	protein_coding	KNOWN	None	30249	2097	698	139098179	139137687	-1	QSCN6L1	SOXN, DKFZp762A2013
HG998_1_PATCH	QSOX2	ENSG00000261074	ENST00000568217	protein_coding	NOVEL	None	30249	851	282	139103110	139116723	-1	QSCN6L1	SOXN, DKFZp762A2013
11	KDM4E	ENSG00000235268	ENST00000450979	protein_coding	KNOWN	CCDS44713	37098	1521	506	94758422	94760760	1	KDM4DL	JMJD2E
7	MIR653	ENSG00000208014	ENST00000385279	miRNA	KNOWN	None	32909	None	None	93112072	93112167	-1	MIRN653	hsa-mir-653
11	RN7SKP297	ENSG00000223202	ENST00000411270	misc_RNA	KNOWN	None	46021	None	None	74396269	74396550	1	None	None
15	None	ENSG00000259360	ENST00000561174	antisense	KNOWN	None	None	None	None	47689698	47691751	-1	None	None
3	None	ENSG00000182000	ENST00000487390	processed_pseudogene	KNOWN	None	None	None	None	149702182	149702584	1	None	None
16	None	ENSG00000271495	ENST00000604296	processed_pseudogene	KNOWN	None	None	None	None	28559652	28559979	-1	None	None
1	None	ENSG00000236888	ENST00000434808	processed_pseudogene	KNOWN	None	None	None	None	58071519	58071878	-1	None	None
1	None	ENSG00000237480	ENST00000437803	lincRNA	KNOWN	None	None	None	None	106615869	106627121	1	None	None
1	None	ENSG00000237480	ENST00000429608	lincRNA	KNOWN	None	None	None	None	106623783	106627118	1	None	None
12	None	ENSG00000253016	ENST00000517207	misc_RNA	NOVEL	None	None	None	None	38668250	38668351	-1	None	None
11	None	ENSG00000255505	ENST00000528365	processed_pseudogene	KNOWN	None	None	None	None	26448598	26448959	1	None	None
1	None	ENSG00000222080	ENST00000410148	miRNA	NOVEL	None	None	None	None	211826798	211826891	-1	None	None
11	None	ENSG00000185162	ENST00000330802	pseudogene	KNOWN	None	None	None	None	74409389	74409869	-1	None	None
12	None	ENSG00000258679	ENST00000557452	processed_transcript	PUTATIVE	None	None	None	None	57216769	57268052	1	None	None
12	None	ENSG00000258679	ENST00000556917	transcribed_processed_pseudogene	KNOWN	None	None	None	None	57265494	57266151	1	None	None
15	FAM103A1	ENSG00000169612	ENST00000304191	protein_coding	KNOWN	CCDS10321	31022	357	118	83654959	83659809	1	None	HsT19360, C15orf18, MGC2560, RAM
11	TRIM44	ENSG00000166326	ENST00000299413	protein_coding	KNOWN	CCDS31461	19016	1035	344	35684353	35829775	1	None	DIPB, MC7
11	TRIM44	ENSG00000166326	ENST00000532066	processed_transcript	KNOWN	None	19016	None	None	35745804	35828171	1	None	DIPB, MC7
X	None	ENSG00000203650	ENST00000412422	processed_transcript	KNOWN	None	None	None	None	117973519	117991849	1	None	None
6	RPL5P19	ENSG00000220553	ENST00000404228	processed_pseudogene	KNOWN	None	36604	None	None	92723560	92724452	1	None	None
22	MAPK8IP2	ENSG00000008735	ENST00000399912	protein_coding	KNOWN	None	6883	1677	558	51039114	51049979	1	PRKM8IPL	IB2, JIP2
22	MAPK8IP2	ENSG00000008735	ENST00000399908	protein_coding	KNOWN	None	6883	1677	558	51041562	51052409	1	PRKM8IPL	IB2, JIP2
22	MAPK8IP2	ENSG00000008735	ENST00000329492	protein_coding	KNOWN	None	6883	2472	823	51039131	51049976	1	PRKM8IPL	IB2, JIP2
22	MAPK8IP2	ENSG00000008735	ENST00000442429	protein_coding	KNOWN	None	6883	1641	546	51039131	51049976	1	PRKM8IPL	IB2, JIP2
22	MAPK8IP2	ENSG00000008735	ENST00000341339	protein_coding	KNOWN	None	6883	1335	444	51039131	51049976	1	PRKM8IPL	IB2, JIP2
22	MAPK8IP2	ENSG00000008735	ENST00000008876	protein_coding	KNOWN	None	6883	1797	598	51041562	51049976	1	PRKM8IPL	IB2, JIP2
3	RN7SKP284	ENSG00000222934	ENST00000411002	misc_RNA	KNOWN	None	46008	None	None	86411282	86411624	1	None	None
19	MARK4	ENSG00000007047	ENST00000587566	protein_coding	PUTATIVE	None	13538	187	61	45582546	45769504	1	MARKL1	Nbla00650, FLJ90097, KIAA1860, PAR-1D
19	MARK4	ENSG00000007047	ENST00000262891	protein_coding	KNOWN	CCDS56097	13538	2259	752	45754516	45806951	1	MARKL1	Nbla00650, FLJ90097, KIAA1860, PAR-1D
19	MARK4	ENSG00000007047	ENST00000300843	protein_coding	KNOWN	CCDS12658	13538	2067	688	45754550	45808541	1	MARKL1	Nbla00650, FLJ90097, KIAA1860, PAR-1D
19	MARK4	ENSG00000007047	ENST00000592762	nonsense_mediated_decay	KNOWN	None	13538	294	97	45754645	45783915	1	MARKL1	Nbla00650, FLJ90097, KIAA1860, PAR-1D
19	MARK4	ENSG00000007047	ENST00000590909	protein_coding	PUTATIVE	None	13538	222	73	45762151	45769539	1	MARKL1	Nbla00650, FLJ90097, KIAA1860, PAR-1D
19	MARK4	ENSG00000007047	ENST00000588533	retained_intron	KNOWN	None	13538	None	None	45766249	45774935	1	MARKL1	Nbla00650, FLJ90097, KIAA1860, PAR-1D
19	MARK4	ENSG00000007047	ENST00000588621	retained_intron	KNOWN	None	13538	None	None	45767945	45791810	1	MARKL1	Nbla00650, FLJ90097, KIAA1860, PAR-1D
19	MARK4	ENSG00000007047	ENST00000592207	nonsense_mediated_decay	KNOWN	None	13538	146	47	45774734	45790922	1	MARKL1	Nbla00650, FLJ90097, KIAA1860, PAR-1D
19	MARK4	ENSG00000007047	ENST00000590897	retained_intron	KNOWN	None	13538	None	None	45783403	45790922	1	MARKL1	Nbla00650, FLJ90097, KIAA1860, PAR-1D
11	None	ENSG00000254443	ENST00000532430	lincRNA	KNOWN	None	None	None	None	6384029	6386492	1	None	None
11	None	ENSG00000254443	ENST00000531479	lincRNA	KNOWN	None	None	None	None	6384042	6386497	1	None	None
5	None	ENSG00000253772	ENST00000523689	processed_pseudogene	KNOWN	None	None	None	None	159674524	159675224	1	None	None
1	FDPSP8	ENSG00000224763	ENST00000438304	processed_pseudogene	KNOWN	None	39085	None	None	211833531	211834619	-1	None	None
12	None	ENSG00000264155	ENST00000577845	miRNA	NOVEL	None	None	None	None	74411555	74411636	-1	None	None
3	None	ENSG00000238593	ENST00000458853	miRNA	NOVEL	None	None	None	None	112811291	112811372	-1	None	None
12	None	ENSG00000266333	ENST00000401168	miRNA	NOVEL	None	None	None	None	38715368	38715462	-1	None	None
7	None	ENSG00000243583	ENST00000466281	processed_transcript	PUTATIVE	None	None	None	None	143651937	143656202	1	None	None
7	None	ENSG00000243583	ENST00000470988	processed_transcript	PUTATIVE	None	None	None	None	143656056	143694405	1	None	None
12	None	ENSG00000258332	ENST00000549140	lincRNA	KNOWN	None	None	None	None	74432866	74439608	1	None	None
GL000224.1	None	ENSG00000238617	ENST00000458883	miRNA	NOVEL	None	None	None	None	137252	137327	-1	None	None
5	CCDC112	ENSG00000164221	ENST00000379611	protein_coding	KNOWN	CCDS34213	28599	1590	529	114602885	114632528	-1	None	MGC39633
5	CCDC112	ENSG00000164221	ENST00000512261	protein_coding	PUTATIVE	CCDS4117	28599	1341	446	114603052	114631762	-1	None	MGC39633
5	CCDC112	ENSG00000164221	ENST00000506442	protein_coding	PUTATIVE	None	28599	1245	414	114603072	114632390	-1	None	MGC39633
5	CCDC112	ENSG00000164221	ENST00000395557	protein_coding	KNOWN	CCDS4117	28599	1341	446	114603336	114631965	-1	None	MGC39633
5	CCDC112	ENSG00000164221	ENST00000502975	retained_intron	KNOWN	None	28599	None	None	114605296	114607307	-1	None	MGC39633
5	CCDC112	ENSG00000164221	ENST00000513730	retained_intron	KNOWN	None	28599	None	None	114611032	114612882	-1	None	MGC39633
5	CCDC112	ENSG00000164221	ENST00000503027	processed_transcript	KNOWN	None	28599	None	None	114611036	114632320	-1	None	MGC39633
11	None	ENSG00000212277	ENST00000390975	snoRNA	NOVEL	None	None	None	None	74427732	74427794	-1	None	None
16	CD19	ENSG00000177455	ENST00000324662	protein_coding	KNOWN	CCDS10644	1633	1671	556	28943278	28950663	1	None	None
16	CD19	ENSG00000177455	ENST00000565089	retained_intron	KNOWN	None	1633	None	None	28943286	28950663	1	None	None
16	CD19	ENSG00000177455	ENST00000567541	protein_coding	KNOWN	CCDS53998	1633	1674	557	28943289	28950284	1	None	None
16	CD19	ENSG00000177455	ENST00000566890	retained_intron	KNOWN	None	1633	None	None	28944254	28944962	1	None	None
16	CD19	ENSG00000177455	ENST00000567368	retained_intron	KNOWN	None	1633	None	None	28948120	28950539	1	None	None
16	CD19	ENSG00000177455	ENST00000538922	protein_coding	KNOWN	CCDS53998	1633	1674	557	28943260	28950667	1	None	None
11	None	ENSG00000254871	ENST00000312173	processed_pseudogene	KNOWN	None	None	None	None	46164267	46165145	1	None	None
1	OR10AA1P	ENSG00000180409	ENST00000417823	unprocessed_pseudogene	KNOWN	None	14989	None	None	158778189	158779125	-1	None	None
1	OR10AA1P	ENSG00000180409	ENST00000325632	unprocessed_pseudogene	KNOWN	None	14989	None	None	158778189	158779125	-1	None	None
3	None	ENSG00000241328	ENST00000460586	lincRNA	KNOWN	None	None	None	None	86531093	86546146	1	None	None
14	None	ENSG00000264657	ENST00000584270	miRNA	KNOWN	None	None	None	None	28102411	28102484	-1	None	None
7	None	ENSG00000234089	ENST00000442649	lincRNA	KNOWN	None	None	None	None	57277572	57289866	-1	None	None
7	None	ENSG00000234089	ENST00000415836	lincRNA	KNOWN	None	None	None	None	57288876	57289881	-1	None	None
1	None	ENSG00000238773	ENST00000459042	miRNA	NOVEL	None	None	None	None	58222756	58222848	1	None	None
GL000224.1	None	ENSG00000264787	ENST00000577568	miRNA	NOVEL	None	None	None	None	165117	165199	1	None	None
5	CDH12P3	ENSG00000253492	ENST00000517935	unprocessed_pseudogene	KNOWN	None	37699	None	None	69428506	69428800	1	None	None
3	None	ENSG00000253076	ENST00000517267	snoRNA	NOVEL	None	None	None	None	112856813	112856888	-1	None	None
7	RN7SL306P	ENSG00000242241	ENST00000492941	misc_RNA	KNOWN	None	46322	None	None	128610788	128611087	1	None	None
14	None	ENSG00000223164	ENST00000411232	miRNA	NOVEL	None	None	None	None	28459211	28459321	1	None	None
1	None	ENSG00000230932	ENST00000415580	processed_pseudogene	KNOWN	None	None	None	None	106623423	106624001	-1	None	None
HSCHR6_MHC_COX	None	ENSG00000206446	ENST00000383511	processed_transcript	KNOWN	None	None	None	None	29688359	29710797	-1	None	None
HSCHR6_MHC_COX	None	ENSG00000206446	ENST00000514986	processed_transcript	KNOWN	None	None	None	None	29696769	29710741	-1	None	None
HSCHR6_MHC_COX	None	ENSG00000206446	ENST00000506249	processed_transcript	KNOWN	None	None	None	None	29699511	29700196	-1	None	None
16	CKLF-CMTM1	ENSG00000254788	ENST00000527845	nonsense_mediated_decay	KNOWN	None	39977	102	33	66586490	66603989	1	None	None
16	CKLF-CMTM1	ENSG00000254788	ENST00000527729	protein_coding	KNOWN	CCDS56000	39977	348	115	66586516	66613038	1	None	None
16	CKLF-CMTM1	ENSG00000254788	ENST00000529718	protein_coding	NOVEL	None	39977	195	64	66597031	66613038	1	None	None
3	HNRNPA1P24	ENSG00000241947	ENST00000476029	processed_pseudogene	KNOWN	None	39542	None	None	149717432	149718477	1	None	None
6	LINC00340	ENSG00000272168	ENST00000606336	lincRNA	KNOWN	None	28245	None	None	21665003	21910068	1	LINC00340	None
6	LINC00340	ENSG00000272168	ENST00000606851	lincRNA	KNOWN	None	28245	None	None	21666675	22194616	1	LINC00340	None
6	LINC00340	ENSG00000272168	ENST00000607048	lincRNA	KNOWN	None	28245	None	None	21669050	22194614	1	LINC00340	None
6	LINC00340	ENSG00000272168	ENST00000444265	lincRNA	KNOWN	None	28245	None	None	21898951	22214734	1	LINC00340	None
6	LINC00340	ENSG00000272168	ENST00000606197	lincRNA	KNOWN	None	28245	None	None	22146883	22197448	1	LINC00340	None
6	LINC00340	ENSG00000272168	ENST00000605917	lincRNA	KNOWN	None	28245	None	None	22147437	22151897	1	LINC00340	None
22	PDGFB	ENSG00000100311	ENST00000331163	protein_coding	KNOWN	CCDS13987	8800	726	241	39619364	39640756	-1	SIS	SSV
22	PDGFB	ENSG00000100311	ENST00000381551	protein_coding	KNOWN	CCDS33650	8800	681	226	39620940	39636914	-1	SIS	SSV
22	PDGFB	ENSG00000100311	ENST00000455790	protein_coding	PUTATIVE	None	8800	433	143	39626164	39639021	-1	SIS	SSV
22	PDGFB	ENSG00000100311	ENST00000440375	protein_coding	PUTATIVE	None	8800	408	135	39626189	39637135	-1	SIS	SSV
12	None	ENSG00000256878	ENST00000536511	pseudogene	NOVEL	None	None	None	None	38866646	38866722	1	None	None
HG14_PATCH	MIR3147	ENSG00000265974	ENST00000577693	miRNA	KNOWN	None	38300	None	None	57472732	57472797	1	None	hsa-mir-3147
3	SNORA6	ENSG00000206760	ENST00000384033	snoRNA	KNOWN	None	32591	None	None	39449880	39450030	1	None	ACA6
11	MIR4696	ENSG00000265902	ENST00000581431	miRNA	KNOWN	None	41780	None	None	74431313	74431382	-1	None	hsa-mir-4696
11	None	ENSG00000271885	ENST00000529911	polymorphic_pseudogene	KNOWN	None	None	848	281	94800361	94802388	1	None	None
6	None	ENSG00000200492	ENST00000363622	snoRNA	NOVEL	None	None	None	None	92829240	92829349	1	None	None
5	None	ENSG00000254701	ENST00000508650	unprocessed_pseudogene	KNOWN	None	None	None	None	69493082	69503572	-1	None	None
5	None	ENSG00000254701	ENST00000380734	unprocessed_pseudogene	KNOWN	None	None	None	None	69435402	69493223	-1	None	None
5	None	ENSG00000254701	ENST00000380731	unprocessed_pseudogene	KNOWN	None	None	None	None	69497694	69503570	-1	None	None
3	None	ENSG00000243795	ENST00000490139	lincRNA	KNOWN	None	None	None	None	112861197	112886666	-1	None	None
14	BNIP3P1	ENSG00000197358	ENST00000550043	processed_transcript	KNOWN	None	19922	None	None	28733596	28735180	1	BNIP3P	None
14	BNIP3P1	ENSG00000197358	ENST00000547295	transcribed_processed_pseudogene	KNOWN	None	19922	None	None	28733760	28734339	1	BNIP3P	None
14	BNIP3P1	ENSG00000197358	ENST00000355069	pseudogene	KNOWN	None	19922	None	None	28733596	28735151	1	BNIP3P	None
11	None	ENSG00000255314	ENST00000533793	lincRNA	KNOWN	None	None	None	None	46193498	46198656	1	None	None
1	None	ENSG00000270342	ENST00000604628	processed_pseudogene	KNOWN	None	None	None	None	107086964	107087366	-1	None	None
16	None	ENSG00000261419	ENST00000562217	unprocessed_pseudogene	KNOWN	None	None	None	None	28671017	28752102	-1	None	None
3	PPATP1	ENSG00000241293	ENST00000496669	processed_pseudogene	KNOWN	None	9239	None	None	87100342	87101888	-1	None	None
17	None	ENSG00000267067	ENST00000593050	lincRNA	KNOWN	None	None	None	None	34990527	34991156	1	None	None
GL000223.1	None	ENSG00000229631	ENST00000368372	protein_coding	NOVEL	None	None	1578	525	149787	180454	1	None	None
1	None	ENSG00000231057	ENST00000415202	antisense	KNOWN	None	None	None	None	211849104	211860132	1	None	None
1	None	ENSG00000231057	ENST00000421933	antisense	KNOWN	None	None	None	None	211855106	211860801	1	None	None
1	None	ENSG00000231057	ENST00000443174	antisense	KNOWN	None	None	None	None	211859864	211863445	1	None	None
11	ENDOD1	ENSG00000149218	ENST00000278505	protein_coding	KNOWN	CCDS41699	29129	1503	500	94822974	94865809	1	None	KIAA0830
13	ZDHHC20	ENSG00000180776	ENST00000400590	protein_coding	KNOWN	None	20749	1098	365	21950263	22033509	-1	None	FLJ25952
13	ZDHHC20	ENSG00000180776	ENST00000464055	processed_transcript	KNOWN	None	20749	None	None	21950486	21961696	-1	None	FLJ25952
13	ZDHHC20	ENSG00000180776	ENST00000477811	processed_transcript	KNOWN	None	20749	None	None	21950654	21964393	-1	None	FLJ25952
13	ZDHHC20	ENSG00000180776	ENST00000494731	processed_transcript	KNOWN	None	20749	None	None	21950658	21995246	-1	None	FLJ25952
13	ZDHHC20	ENSG00000180776	ENST00000484277	processed_transcript	KNOWN	None	20749	None	None	21955573	21956133	-1	None	FLJ25952
13	ZDHHC20	ENSG00000180776	ENST00000382466	protein_coding	KNOWN	CCDS45017	20749	1065	354	21950510	22033423	-1	None	FLJ25952
13	ZDHHC20	ENSG00000180776	ENST00000542645	protein_coding	KNOWN	None	20749	879	292	21950685	22033447	-1	None	FLJ25952
13	ZDHHC20	ENSG00000180776	ENST00000415724	protein_coding	KNOWN	None	20749	1098	365	21952840	22033414	-1	None	FLJ25952
13	ZDHHC20	ENSG00000180776	ENST00000320220	protein_coding	KNOWN	None	20749	963	320	21950496	22033414	-1	None	FLJ25952
13	ZDHHC20	ENSG00000180776	ENST00000422251	protein_coding	KNOWN	None	20749	393	130	21978459	22033414	-1	None	FLJ25952
3	SNORA62	ENSG00000202363	ENST00000365493	snoRNA	KNOWN	None	10107	None	None	39452545	39452697	1	RNE2, RNU108	E2, E2-1
1	None	ENSG00000229849	ENST00000431627	unprocessed_pseudogene	KNOWN	None	None	None	None	158848536	158853290	1	None	None
3	None	ENSG00000213132	ENST00000392468	protein_coding	KNOWN	None	None	375	124	187896331	187898598	1	None	None
11	None	ENSG00000254560	ENST00000526061	antisense	KNOWN	None	None	None	None	27068733	27240282	-1	None	None
11	None	ENSG00000254560	ENST00000525302	antisense	KNOWN	None	None	None	None	27084530	27241660	-1	None	None
11	None	ENSG00000254560	ENST00000530430	antisense	KNOWN	None	None	None	None	27084567	27241633	-1	None	None
11	None	ENSG00000254560	ENST00000531363	antisense	KNOWN	None	None	None	None	27238699	27241649	-1	None	None
11	None	ENSG00000254702	ENST00000528257	processed_pseudogene	KNOWN	None	None	None	None	107606735	107609444	-1	None	None
11	None	ENSG00000255285	ENST00000531893	processed_pseudogene	KNOWN	None	None	None	None	89522580	89522901	-1	None	None
HSCHR6_MHC_SSTO	C6orf100	ENSG00000233566	ENST00000438403	protein_coding	KNOWN	None	21195	189	62	28911713	28912373	1	None	dJ25J6.5
2	None	ENSG00000236107	ENST00000595647	antisense	KNOWN	None	None	None	None	166813909	167028057	1	None	None
2	None	ENSG00000236107	ENST00000597623	antisense	KNOWN	None	None	None	None	166813940	166892895	1	None	None
2	None	ENSG00000236107	ENST00000595268	antisense	KNOWN	None	None	None	None	166872190	166916968	1	None	None
2	None	ENSG00000236107	ENST00000599041	antisense	KNOWN	None	None	None	None	166892575	167027984	1	None	None
2	None	ENSG00000236107	ENST00000447809	antisense	KNOWN	None	None	None	None	166938041	167158294	1	None	None
GL000224.1	None	ENSG00000239051	ENST00000458962	miRNA	NOVEL	None	None	None	None	166714	166794	1	None	None
11	RNU6-46P	ENSG00000206587	ENST00000383860	snRNA	KNOWN	None	34290	None	None	67663102	67663208	1	RNU6-46	None
11	None	ENSG00000241097	ENST00000461163	processed_pseudogene	KNOWN	None	None	None	None	74449523	74449841	-1	None	None
5	None	ENSG00000254373	ENST00000522428	processed_pseudogene	KNOWN	None	None	None	None	159685260	159685592	1	None	None
17	None	ENSG00000267499	ENST00000587054	lincRNA	KNOWN	None	None	None	None	35041203	35041578	1	None	None
1	None	ENSG00000226759	ENST00000585589	antisense	KNOWN	None	None	None	None	58326204	58328475	1	None	None
1	None	ENSG00000226759	ENST00000416598	antisense	KNOWN	None	None	None	None	58326204	58328887	1	None	None
1	None	ENSG00000226759	ENST00000592753	antisense	KNOWN	None	None	None	None	58326229	58328475	1	None	None
1	None	ENSG00000226759	ENST00000585576	antisense	KNOWN	None	None	None	None	58326234	58328475	1	None	None
1	None	ENSG00000226759	ENST00000420811	antisense	KNOWN	None	None	None	None	58326253	58328475	1	None	None
1	None	ENSG00000226759	ENST00000432897	antisense	KNOWN	None	None	None	None	58326253	58333170	1	None	None
1	None	ENSG00000226759	ENST00000434141	antisense	KNOWN	None	None	None	None	58326260	58328735	1	None	None
1	None	ENSG00000226759	ENST00000591882	antisense	KNOWN	None	None	None	None	58326336	58340013	1	None	None
1	None	ENSG00000226759	ENST00000587466	antisense	KNOWN	None	None	None	None	58328127	58330604	1	None	None
1	None	ENSG00000226759	ENST00000588227	antisense	KNOWN	None	None	None	None	58328127	58330713	1	None	None
1	None	ENSG00000226759	ENST00000592898	antisense	KNOWN	None	None	None	None	58328127	58339873	1	None	None
1	None	ENSG00000226759	ENST00000590080	antisense	KNOWN	None	None	None	None	58328127	58344016	1	None	None
1	None	ENSG00000226759	ENST00000588058	antisense	KNOWN	None	None	None	None	58328127	58344137	1	None	None
1	None	ENSG00000226759	ENST00000592838	antisense	KNOWN	None	None	None	None	58328127	58344139	1	None	None
1	None	ENSG00000226759	ENST00000591523	antisense	KNOWN	None	None	None	None	58328127	58346412	1	None	None
1	None	ENSG00000226759	ENST00000591173	antisense	KNOWN	None	None	None	None	58328127	58346456	1	None	None
1	None	ENSG00000226759	ENST00000457412	antisense	KNOWN	None	None	None	None	58328127	58346577	1	None	None
1	None	ENSG00000226759	ENST00000586465	antisense	KNOWN	None	None	None	None	58328687	58346403	1	None	None
11	None	ENSG00000255269	ENST00000530941	lincRNA	KNOWN	None	None	None	None	46235372	46237409	-1	None	None
1	None	ENSG00000270976	ENST00000603629	processed_pseudogene	KNOWN	None	None	None	None	107322845	107323057	1	None	None
HG14_PATCH	VN1R28P	ENSG00000260315	ENST00000564422	unitary_pseudogene	KNOWN	None	37348	None	None	57490537	57491432	-1	None	None
12	STX2	ENSG00000111450	ENST00000261653	protein_coding	KNOWN	CCDS9269	3403	864	287	131274145	131323811	-1	STX2B, STX2C, STX2A, EPIM	EPM
12	STX2	ENSG00000111450	ENST00000392373	protein_coding	KNOWN	CCDS9270	3403	867	288	131275379	131323739	-1	STX2B, STX2C, STX2A, EPIM	EPM
12	STX2	ENSG00000111450	ENST00000540889	retained_intron	KNOWN	None	3403	None	None	131282938	131286005	-1	STX2B, STX2C, STX2A, EPIM	EPM
12	STX2	ENSG00000111450	ENST00000344271	nonsense_mediated_decay	KNOWN	None	3403	337	111	131285799	131311795	-1	STX2B, STX2C, STX2A, EPIM	EPM
11	TMPRSS13	ENSG00000137747	ENST00000528626	protein_coding	KNOWN	CCDS55788	29808	1599	532	117771358	117800096	-1	TMPRSS11	MSPL
11	TMPRSS13	ENSG00000137747	ENST00000524993	protein_coding	KNOWN	CCDS41721	29808	1704	567	117772766	117800080	-1	TMPRSS11	MSPL
11	TMPRSS13	ENSG00000137747	ENST00000430170	protein_coding	PUTATIVE	CCDS58185	29808	1692	563	117773757	117800110	-1	TMPRSS11	MSPL
11	TMPRSS13	ENSG00000137747	ENST00000445164	protein_coding	KNOWN	None	29808	1761	586	117773760	117800096	-1	TMPRSS11	MSPL
11	TMPRSS13	ENSG00000137747	ENST00000526090	protein_coding	KNOWN	CCDS55789	29808	1476	491	117778169	117800174	-1	TMPRSS11	MSPL
11	TMPRSS13	ENSG00000137747	ENST00000528135	nonsense_mediated_decay	KNOWN	None	29808	123	40	117781285	117800145	-1	TMPRSS11	MSPL
11	TMPRSS13	ENSG00000137747	ENST00000525794	retained_intron	KNOWN	None	29808	None	None	117787878	117800112	-1	TMPRSS11	MSPL
12	None	ENSG00000257645	ENST00000550134	processed_pseudogene	KNOWN	None	None	None	None	38926697	38926852	-1	None	None
3	None	ENSG00000249846	ENST00000514145	lincRNA	KNOWN	None	None	None	None	129831393	129838017	1	None	None
3	None	ENSG00000249846	ENST00000507856	lincRNA	KNOWN	None	None	None	None	129831393	129838273	1	None	None
3	None	ENSG00000249846	ENST00000504808	lincRNA	KNOWN	None	None	None	None	129831495	129839422	1	None	None
2	None	ENSG00000271590	ENST00000603748	lincRNA	KNOWN	None	None	None	None	111968572	111970053	-1	None	None
3	None	ENSG00000264724	ENST00000580807	miRNA	NOVEL	None	None	None	None	39458971	39459056	1	None	None
16	None	ENSG00000238684	ENST00000458935	snoRNA	NOVEL	None	None	None	None	28683554	28683657	-1	None	None
2	None	ENSG00000239143	ENST00000458902	misc_RNA	NOVEL	None	None	None	None	85560018	85560119	-1	None	None
3	None	ENSG00000240751	ENST00000462549	processed_pseudogene	KNOWN	None	None	None	None	113079114	113080166	1	None	None
GL000223.1	None	ENSG00000238476	ENST00000459313	misc_RNA	NOVEL	None	None	None	None	18464	18566	1	None	None
5	RN7SL295P	ENSG00000243654	ENST00000481442	misc_RNA	KNOWN	None	46311	None	None	159718795	159719067	1	None	None
2	None	ENSG00000229118	ENST00000438897	lincRNA	KNOWN	None	None	None	None	112022860	112037457	1	None	None
3	NFU1P1	ENSG00000230757	ENST00000413128	processed_pseudogene	KNOWN	None	44553	None	None	39685129	39686196	1	None	None
2	PEBP1P2	ENSG00000270532	ENST00000603980	processed_pseudogene	KNOWN	None	44344	None	None	85568404	85568961	-1	None	None
1	None	ENSG00000265589	ENST00000582922	miRNA	NOVEL	None	None	None	None	159029039	159029116	1	None	None
2	KRCC1	ENSG00000172086	ENST00000347055	protein_coding	KNOWN	CCDS2000	28039	780	259	88326724	88355248	-1	None	FLJ22333
3	MIR4795	ENSG00000264119	ENST00000584182	miRNA	KNOWN	None	41757	None	None	87275339	87275427	-1	None	hsa-mir-4795
12	None	ENSG00000251138	ENST00000549905	lincRNA	KNOWN	None	None	None	None	74526946	74686411	-1	None	None
12	None	ENSG00000251138	ENST00000515416	lincRNA	KNOWN	None	None	None	None	74593352	74686402	-1	None	None
12	None	ENSG00000251138	ENST00000551726	lincRNA	KNOWN	None	None	None	None	74678816	74796315	-1	None	None
12	None	ENSG00000251138	ENST00000551210	lincRNA	KNOWN	None	None	None	None	74679478	74686314	-1	None	None
12	None	ENSG00000251138	ENST00000548427	lincRNA	KNOWN	None	None	None	None	74685887	74686724	-1	None	None
16	CDC37P1	ENSG00000259982	ENST00000564603	processed_pseudogene	KNOWN	None	34406	None	None	28711615	28712861	-1	None	A-761H5.2
1	None	ENSG00000233449	ENST00000455189	processed_pseudogene	KNOWN	None	None	None	None	107345377	107346049	-1	None	None
5	None	ENSG00000251007	ENST00000511282	unprocessed_pseudogene	KNOWN	None	None	None	None	69510769	69511950	1	None	None
2	None	ENSG00000271014	ENST00000605302	processed_pseudogene	KNOWN	None	None	None	None	85587921	85588048	-1	None	None
1	None	ENSG00000233473	ENST00000446414	processed_pseudogene	KNOWN	None	None	None	None	159050923	159051585	-1	None	None
1	None	ENSG00000226868	ENST00000458662	lincRNA	KNOWN	None	None	None	None	211889270	211898744	-1	None	None
11	RPS3AP40	ENSG00000243672	ENST00000480160	processed_pseudogene	KNOWN	None	35869	None	None	67693122	67693902	-1	None	None
11	None	ENSG00000254639	ENST00000530049	lincRNA	KNOWN	None	None	None	None	46259933	46260818	1	None	None
2	None	ENSG00000270190	ENST00000603052	lincRNA	KNOWN	None	None	None	None	112024445	112025050	-1	None	None
2	None	ENSG00000202382	ENST00000365512	misc_RNA	NOVEL	None	None	None	None	85594708	85594809	1	None	None
17	None	ENSG00000265489	ENST00000584772	antisense	KNOWN	None	None	None	None	12663457	12693559	-1	None	None
1	RN7SL344P	ENSG00000241395	ENST00000485522	misc_RNA	KNOWN	None	46360	None	None	211965455	211965748	-1	None	None
1	None	ENSG00000232551	ENST00000441695	processed_pseudogene	KNOWN	None	None	None	None	107347096	107348654	-1	None	None
1	RNA5SP60	ENSG00000222552	ENST00000410620	rRNA	KNOWN	None	42837	None	None	159148263	159148349	1	RN5S60	None
2	RPS14P4	ENSG00000226928	ENST00000415880	processed_pseudogene	KNOWN	None	36419	None	None	112053206	112053623	-1	None	None
3	RNU4-56P	ENSG00000201570	ENST00000364700	snRNA	KNOWN	None	46992	None	None	40011616	40011757	1	None	None
Y	TSPY5P	ENSG00000225685	ENST00000456541	processed_transcript	KNOWN	None	23907	None	None	9904163	9904995	-1	TSPYP5	None
Y	TSPY5P	ENSG00000225685	ENST00000426936	transcribed_unprocessed_pseudogene	KNOWN	None	23907	None	None	9904196	9906760	-1	TSPYP5	None
17	MILR1	ENSG00000271605	ENST00000603557	protein_coding	KNOWN	None	27570	269	88	62461569	62464051	1	C17orf60	Allergin-1, MCA-32
17	MILR1	ENSG00000271605	ENST00000605096	protein_coding	KNOWN	None	27570	269	88	62461569	62464760	1	C17orf60	Allergin-1, MCA-32
5	None	ENSG00000270612	ENST00000604371	processed_pseudogene	KNOWN	None	None	None	None	159753700	159753976	1	None	None
5	None	ENSG00000253816	ENST00000514522	unprocessed_pseudogene	KNOWN	None	None	None	None	69515745	69554757	-1	None	None
5	None	ENSG00000253816	ENST00000417337	unprocessed_pseudogene	KNOWN	None	None	None	None	69515819	69580686	-1	None	None
2	RN7SL113P	ENSG00000242095	ENST00000497900	misc_RNA	KNOWN	None	46129	None	None	85595405	85595701	1	None	None
6	None	ENSG00000261038	ENST00000564251	lincRNA	KNOWN	None	None	None	None	93097559	93098545	-1	None	None
1	None	ENSG00000212205	ENST00000390903	misc_RNA	NOVEL	None	None	None	None	211976359	211976446	1	None	None
12	None	ENSG00000258119	ENST00000552639	lincRNA	KNOWN	None	None	None	None	38937979	38983614	-1	None	None
12	None	ENSG00000258119	ENST00000549364	lincRNA	KNOWN	None	None	None	None	38938130	38940279	-1	None	None
HSCHR6_MHC_SSTO	ZNF311	ENSG00000233831	ENST00000458265	protein_coding	KNOWN	None	13847	2001	666	28962690	28973060	-1	None	None
HSCHR6_MHC_SSTO	ZNF311	ENSG00000233831	ENST00000484052	processed_transcript	KNOWN	None	13847	None	None	28962690	28973114	-1	None	None
11	None	ENSG00000255007	ENST00000527239	antisense	KNOWN	None	None	None	None	46277906	46296098	-1	None	None
2	RNU7-162P	ENSG00000252478	ENST00000516669	snRNA	KNOWN	None	45696	None	None	85600577	85600637	-1	None	None
1	None	ENSG00000225670	ENST00000415675	antisense	KNOWN	None	None	None	None	159165775	159172302	-1	None	None
6	None	ENSG00000265419	ENST00000583000	miRNA	NOVEL	None	None	None	None	93354459	93354526	1	None	None
11	None	ENSG00000250946	ENST00000507987	unprocessed_pseudogene	KNOWN	None	None	None	None	89553250	89560090	1	None	None
2	MIR4435-1	ENSG00000266139	ENST00000580915	miRNA	KNOWN	None	41713	None	None	112078589	112078668	-1	None	hsa-mir-4435-1
2	MIR4435-2	ENSG00000266139	ENST00000580915	miRNA	KNOWN	None	41837	None	None	112078589	112078668	-1	None	hsa-mir-4435-2
17	None	ENSG00000266878	ENST00000577761	lincRNA	KNOWN	None	None	None	None	12721314	12726571	1	None	None
2	None	ENSG00000207207	ENST00000384478	misc_RNA	NOVEL	None	None	None	None	85661630	85661742	1	None	None
5	MIR146A	ENSG00000253522	ENST00000517927	lincRNA	KNOWN	None	31533	None	None	159895275	159914433	1	MIRN146, MIRN146A	hsa-mir-146, hsa-mir-146a
5	MIR146A	ENSG00000253522	ENST00000385201	miRNA	KNOWN	None	31533	None	None	159912359	159912457	1	MIRN146, MIRN146A	hsa-mir-146, hsa-mir-146a
8	USP17L8	ENSG00000237038	ENST00000527080	unprocessed_pseudogene	KNOWN	None	37181	None	None	7829183	7830775	-1	None	None
2	None	ENSG00000238813	ENST00000458774	misc_RNA	NOVEL	None	None	None	None	166980004	166980107	-1	None	None
3	RN7SL411P	ENSG00000265327	ENST00000585204	misc_RNA	KNOWN	None	46427	None	None	40250496	40250793	1	None	None
6	None	ENSG00000220908	ENST00000404689	lincRNA	KNOWN	None	None	None	None	93432721	93433547	-1	None	None
1	None	ENSG00000229258	ENST00000457272	antisense	KNOWN	None	None	None	None	212003188	212019783	1	None	None
1	None	ENSG00000229258	ENST00000430623	antisense	KNOWN	None	None	None	None	212004303	212026985	1	None	None
1	None	ENSG00000229258	ENST00000429499	antisense	KNOWN	None	None	None	None	212004689	212013275	1	None	None
1	None	ENSG00000229258	ENST00000446560	antisense	KNOWN	None	None	None	None	212004690	212027045	1	None	None
2	RNU7-64P	ENSG00000252293	ENST00000516484	snRNA	KNOWN	None	34160	None	None	85669039	85669100	-1	None	U7.64
2	RN7SKP152	ENSG00000222376	ENST00000410444	misc_RNA	KNOWN	None	45876	None	None	167037162	167037476	-1	None	None
17	MIR1269B	ENSG00000265503	ENST00000580405	miRNA	KNOWN	None	41787	None	None	12820585	12820659	-1	None	hsa-mir-1269b
2	None	ENSG00000223973	ENST00000449539	transcribed_processed_pseudogene	KNOWN	None	None	None	None	112141329	112142569	1	None	None
2	None	ENSG00000223973	ENST00000604843	processed_transcript	KNOWN	None	None	None	None	112141383	112141840	1	None	None
2	RN7SL251P	ENSG00000244399	ENST00000464175	misc_RNA	KNOWN	None	46267	None	None	85669618	85669912	1	None	None
2	None	ENSG00000238662	ENST00000458755	snoRNA	NOVEL	None	None	None	None	167215240	167215343	1	None	None
8	None	ENSG00000254813	ENST00000534827	lincRNA	KNOWN	None	None	None	None	12623358	12668987	-1	None	None
8	None	ENSG00000254813	ENST00000530228	lincRNA	KNOWN	None	None	None	None	12623571	12645965	-1	None	None
17	RN7SL550P	ENSG00000266152	ENST00000583299	misc_RNA	KNOWN	None	46566	None	None	12875869	12876142	-1	None	None
10	None	ENSG00000232437	ENST00000413485	processed_pseudogene	KNOWN	None	None	None	None	76884975	76885620	1	None	None
17	None	ENSG00000125695	ENST00000580553	nonsense_mediated_decay	KNOWN	None	None	164	53	61780205	61829457	-1	None	None
X	None	ENSG00000224341	ENST00000445747	processed_pseudogene	KNOWN	None	None	None	None	118011849	118013148	-1	None	None
3	KRT8P25	ENSG00000239829	ENST00000473150	processed_pseudogene	KNOWN	None	33377	None	None	87372418	87373873	1	None	None
2	None	ENSG00000199936	ENST00000363066	misc_RNA	NOVEL	None	None	None	None	85687267	85687375	-1	None	None
19	MIR3188	ENSG00000267959	ENST00000596186	lincRNA	KNOWN	None	38226	None	None	18392659	18393560	1	None	hsa-mir-3188
19	MIR3188	ENSG00000267959	ENST00000583494	miRNA	KNOWN	None	38226	None	None	18392887	18392971	1	None	hsa-mir-3188
17	None	ENSG00000263707	ENST00000582915	antisense	KNOWN	None	None	None	None	12893466	12893927	-1	None	None
HSCHR18_2_CTG2_1	SALL3	ENSG00000263310	ENST00000576809	protein_coding	KNOWN	None	10527	3903	1300	76740275	76757326	1	None	ZNF796
HSCHR18_2_CTG2_1	SALL3	ENSG00000263310	ENST00000572106	protein_coding	NOVEL	None	10527	3673	1223	76740289	76757569	1	None	ZNF796
HSCHR18_2_CTG2_1	SALL3	ENSG00000263310	ENST00000576073	processed_transcript	KNOWN	None	10527	None	None	76745010	76752164	1	None	ZNF796
HSCHR18_2_CTG2_1	SALL3	ENSG00000263310	ENST00000573592	protein_coding	PUTATIVE	None	10527	452	149	76754800	76762678	1	None	ZNF796
5	PCDHGA12	ENSG00000253159	ENST00000252085	protein_coding	KNOWN	CCDS4260	8699	2799	932	140810185	140892546	1	CDH21	KIAA0588, FIB3, PCDH-GAMMA-A12
2	None	ENSG00000225182	ENST00000444526	processed_pseudogene	KNOWN	None	None	None	None	167746012	167746394	-1	None	None
17	None	ENSG00000234634	ENST00000440522	lincRNA	KNOWN	None	None	None	None	13202501	13210077	-1	None	None
19	SAFB	ENSG00000160633	ENST00000589863	nonsense_mediated_decay	KNOWN	None	10520	321	106	5623046	5668360	1	None	HET, SAFB1
19	SAFB	ENSG00000160633	ENST00000591666	retained_intron	KNOWN	None	10520	None	None	5623094	5648198	1	None	HET, SAFB1
19	SAFB	ENSG00000160633	ENST00000292123	protein_coding	KNOWN	CCDS12142	10520	2748	915	5623110	5668489	1	None	HET, SAFB1
19	SAFB	ENSG00000160633	ENST00000592224	protein_coding	KNOWN	CCDS59340	10520	2751	916	5623129	5668477	1	None	HET, SAFB1
19	SAFB	ENSG00000160633	ENST00000586934	processed_transcript	KNOWN	None	10520	None	None	5623132	5653253	1	None	HET, SAFB1
19	SAFB	ENSG00000160633	ENST00000454510	protein_coding	KNOWN	CCDS56077	10520	2547	848	5623150	5668338	1	None	HET, SAFB1
19	SAFB	ENSG00000160633	ENST00000588852	protein_coding	KNOWN	CCDS59339	10520	2754	917	5623164	5668337	1	None	HET, SAFB1
19	SAFB	ENSG00000160633	ENST00000590485	retained_intron	KNOWN	None	10520	None	None	5641862	5648415	1	None	HET, SAFB1
19	SAFB	ENSG00000160633	ENST00000592707	retained_intron	KNOWN	None	10520	None	None	5648866	5653275	1	None	HET, SAFB1
19	SAFB	ENSG00000160633	ENST00000592396	retained_intron	KNOWN	None	10520	None	None	5649695	5653431	1	None	HET, SAFB1
19	SAFB	ENSG00000160633	ENST00000589006	protein_coding	PUTATIVE	None	10520	459	152	5657336	5664147	1	None	HET, SAFB1
19	SAFB	ENSG00000160633	ENST00000586281	retained_intron	KNOWN	None	10520	None	None	5664140	5664773	1	None	HET, SAFB1
19	SAFB	ENSG00000160633	ENST00000591991	retained_intron	KNOWN	None	10520	None	None	5664737	5668482	1	None	HET, SAFB1
19	SAFB	ENSG00000160633	ENST00000592555	retained_intron	KNOWN	None	10520	None	None	5666667	5668489	1	None	HET, SAFB1
19	SAFB	ENSG00000160633	ENST00000538656	protein_coding	KNOWN	None	10520	2280	759	5623321	5668360	1	None	HET, SAFB1
19	SAFB	ENSG00000160633	ENST00000433404	protein_coding	KNOWN	None	10520	2244	747	5623150	5668477	1	None	HET, SAFB1
15	ZNF770	ENSG00000198146	ENST00000356321	protein_coding	KNOWN	CCDS10042	26061	2076	691	35270542	35280488	-1	None	FLJ20582, PRO1914
15	ZNF770	ENSG00000198146	ENST00000559564	protein_coding	KNOWN	None	26061	397	131	35275239	35280426	-1	None	FLJ20582, PRO1914
11	None	ENSG00000221553	ENST00000408626	miRNA	NOVEL	None	None	None	None	67700685	67700833	1	None	None
16	None	ENSG00000270424	ENST00000604632	processed_pseudogene	KNOWN	None	None	None	None	28761280	28761916	-1	None	None
2	None	ENSG00000229648	ENST00000453567	processed_pseudogene	KNOWN	None	None	None	None	85718053	85718903	-1	None	None
3	None	ENSG00000243944	ENST00000487840	antisense	KNOWN	None	None	None	None	149757001	149931401	1	None	None
3	None	ENSG00000243944	ENST00000472821	antisense	KNOWN	None	None	None	None	149814230	149868571	1	None	None
3	None	ENSG00000243944	ENST00000489690	antisense	KNOWN	None	None	None	None	149815819	149931513	1	None	None
2	None	ENSG00000240350	ENST00000455309	lincRNA	KNOWN	None	None	None	None	112248850	112268567	1	None	None
15	None	ENSG00000258410	ENST00000553658	lincRNA	KNOWN	None	None	None	None	20333998	20353206	-1	None	None
1	None	ENSG00000237460	ENST00000415910	lincRNA	KNOWN	None	None	None	None	107360861	107380789	1	None	None
3	TPRG1	ENSG00000188001	ENST00000433971	protein_coding	KNOWN	CCDS3292	24759	828	275	188665003	189038850	1	FAM79B	FLJ41238, FLJ43694
3	TPRG1	ENSG00000188001	ENST00000496671	processed_transcript	KNOWN	None	24759	None	None	188694543	188741603	1	FAM79B	FLJ41238, FLJ43694
3	TPRG1	ENSG00000188001	ENST00000412373	protein_coding	KNOWN	None	24759	302	99	188817910	188933172	1	FAM79B	FLJ41238, FLJ43694
3	TPRG1	ENSG00000188001	ENST00000479720	processed_transcript	KNOWN	None	24759	None	None	188838036	188844955	1	FAM79B	FLJ41238, FLJ43694
3	TPRG1	ENSG00000188001	ENST00000497628	processed_transcript	PUTATIVE	None	24759	None	None	188839075	188844987	1	FAM79B	FLJ41238, FLJ43694
3	TPRG1	ENSG00000188001	ENST00000488841	processed_transcript	KNOWN	None	24759	None	None	188844847	188868925	1	FAM79B	FLJ41238, FLJ43694
3	TPRG1	ENSG00000188001	ENST00000473790	processed_transcript	PUTATIVE	None	24759	None	None	188850353	188868907	1	FAM79B	FLJ41238, FLJ43694
3	TPRG1	ENSG00000188001	ENST00000464152	processed_transcript	PUTATIVE	None	24759	None	None	188850474	188868925	1	FAM79B	FLJ41238, FLJ43694
3	TPRG1	ENSG00000188001	ENST00000460613	processed_transcript	KNOWN	None	24759	None	None	188868443	188937451	1	FAM79B	FLJ41238, FLJ43694
3	TPRG1	ENSG00000188001	ENST00000345063	protein_coding	KNOWN	CCDS3292	24759	828	275	188889763	189043093	1	FAM79B	FLJ41238, FLJ43694
3	TPRG1	ENSG00000188001	ENST00000456832	protein_coding	NOVEL	None	24759	400	132	188925163	188937454	1	FAM79B	FLJ41238, FLJ43694
3	TPRG1	ENSG00000188001	ENST00000493725	processed_transcript	PUTATIVE	None	24759	None	None	188925165	188930001	1	FAM79B	FLJ41238, FLJ43694
3	TPRG1	ENSG00000188001	ENST00000425670	protein_coding	PUTATIVE	None	24759	451	149	188933089	189033482	1	FAM79B	FLJ41238, FLJ43694
3	TPRG1	ENSG00000188001	ENST00000485836	processed_transcript	KNOWN	None	24759	None	None	188985385	189038493	1	FAM79B	FLJ41238, FLJ43694
3	TPRG1	ENSG00000188001	ENST00000481307	processed_transcript	KNOWN	None	24759	None	None	189027683	189033384	1	FAM79B	FLJ41238, FLJ43694
11	None	ENSG00000227615	ENST00000428553	processed_pseudogene	KNOWN	None	None	None	None	74456761	74457159	-1	None	None
11	SLC37A4	ENSG00000137700	ENST00000525102	processed_transcript	KNOWN	None	4061	None	None	118894824	118901616	-1	G6PT1, G6PT2, G6PT3	GSD1b, GSD1c, GSD1d
11	SLC37A4	ENSG00000137700	ENST00000526275	retained_intron	KNOWN	None	4061	None	None	118895066	118899744	-1	G6PT1, G6PT2, G6PT3	GSD1b, GSD1c, GSD1d
11	SLC37A4	ENSG00000137700	ENST00000532085	retained_intron	KNOWN	None	4061	None	None	118895066	118901573	-1	G6PT1, G6PT2, G6PT3	GSD1b, GSD1c, GSD1d
11	SLC37A4	ENSG00000137700	ENST00000527992	processed_transcript	KNOWN	None	4061	None	None	118895098	118901590	-1	G6PT1, G6PT2, G6PT3	GSD1b, GSD1c, GSD1d
11	SLC37A4	ENSG00000137700	ENST00000530407	processed_transcript	KNOWN	None	4061	None	None	118895588	118901582	-1	G6PT1, G6PT2, G6PT3	GSD1b, GSD1c, GSD1d
11	SLC37A4	ENSG00000137700	ENST00000525372	processed_transcript	KNOWN	None	4061	None	None	118895620	118900079	-1	G6PT1, G6PT2, G6PT3	GSD1b, GSD1c, GSD1d
11	SLC37A4	ENSG00000137700	ENST00000524428	retained_intron	KNOWN	None	4061	None	None	118895620	118900079	-1	G6PT1, G6PT2, G6PT3	GSD1b, GSD1c, GSD1d
11	SLC37A4	ENSG00000137700	ENST00000525039	processed_transcript	KNOWN	None	4061	None	None	118895620	118901598	-1	G6PT1, G6PT2, G6PT3	GSD1b, GSD1c, GSD1d
11	SLC37A4	ENSG00000137700	ENST00000529510	processed_transcript	KNOWN	None	4061	None	None	118895862	118900097	-1	G6PT1, G6PT2, G6PT3	GSD1b, GSD1c, GSD1d
11	SLC37A4	ENSG00000137700	ENST00000532888	retained_intron	KNOWN	None	4061	None	None	118897376	118900274	-1	G6PT1, G6PT2, G6PT3	GSD1b, GSD1c, GSD1d
11	SLC37A4	ENSG00000137700	ENST00000526626	processed_transcript	KNOWN	None	4061	None	None	118897664	118900274	-1	G6PT1, G6PT2, G6PT3	GSD1b, GSD1c, GSD1d
11	SLC37A4	ENSG00000137700	ENST00000525787	retained_intron	KNOWN	None	4061	None	None	118898522	118900374	-1	G6PT1, G6PT2, G6PT3	GSD1b, GSD1c, GSD1d
11	SLC37A4	ENSG00000137700	ENST00000534384	processed_transcript	KNOWN	None	4061	None	None	118898951	118900650	-1	G6PT1, G6PT2, G6PT3	GSD1b, GSD1c, GSD1d
11	SLC37A4	ENSG00000137700	ENST00000545985	protein_coding	KNOWN	None	4061	1290	429	118895063	118901616	-1	G6PT1, G6PT2, G6PT3	GSD1b, GSD1c, GSD1d
11	SLC37A4	ENSG00000137700	ENST00000357590	protein_coding	KNOWN	None	4061	1356	451	118895063	118901616	-1	G6PT1, G6PT2, G6PT3	GSD1b, GSD1c, GSD1d
11	SLC37A4	ENSG00000137700	ENST00000330775	protein_coding	KNOWN	None	4061	1353	450	118895066	118901571	-1	G6PT1, G6PT2, G6PT3	GSD1b, GSD1c, GSD1d
11	SLC37A4	ENSG00000137700	ENST00000538950	protein_coding	KNOWN	None	4061	1071	356	118895063	118901616	-1	G6PT1, G6PT2, G6PT3	GSD1b, GSD1c, GSD1d
3	None	ENSG00000202517	ENST00000365647	snoRNA	NOVEL	None	None	None	None	40280099	40280232	1	None	None
17	None	ENSG00000266115	ENST00000578401	miRNA	NOVEL	None	None	None	None	13403571	13403645	-1	None	None
12	None	ENSG00000258816	ENST00000553271	unprocessed_pseudogene	KNOWN	None	None	None	None	57249478	57249670	1	None	None
14	None	ENSG00000257721	ENST00000549046	processed_pseudogene	KNOWN	None	None	None	None	19336524	19336668	1	None	None
19	RPL39P38	ENSG00000241464	ENST00000467018	processed_pseudogene	KNOWN	None	36935	None	None	18396156	18396306	-1	None	None
17	MIR548H3	ENSG00000221698	ENST00000408771	miRNA	KNOWN	None	35344	None	None	13446846	13446963	-1	MIRN548H3	hsa-mir-548h-3
11	MIR4688	ENSG00000264102	ENST00000577966	miRNA	KNOWN	None	41897	None	None	46397952	46398034	1	None	hsa-mir-4688
8	FAM84B	ENSG00000168672	ENST00000304916	protein_coding	KNOWN	CCDS6358	24166	933	310	127564687	127570638	-1	None	BCMP101, NSE2
8	FAM84B	ENSG00000168672	ENST00000517458	processed_transcript	KNOWN	None	24166	None	None	127565060	127568664	-1	None	BCMP101, NSE2
1	None	ENSG00000238883	ENST00000459420	miRNA	NOVEL	None	None	None	None	107991091	107991177	-1	None	None
5	None	ENSG00000250867	ENST00000504059	unprocessed_pseudogene	KNOWN	None	None	None	None	69528819	69530000	1	None	None
6	BPHL	ENSG00000137274	ENST00000434640	protein_coding	PUTATIVE	None	1094	825	274	3118608	3152809	1	MCNAA	Bph-rp
6	BPHL	ENSG00000137274	ENST00000424847	nonsense_mediated_decay	KNOWN	None	1094	135	44	3118610	3152903	1	MCNAA	Bph-rp
6	BPHL	ENSG00000137274	ENST00000430655	nonsense_mediated_decay	KNOWN	None	1094	135	44	3118610	3153429	1	MCNAA	Bph-rp
6	BPHL	ENSG00000137274	ENST00000433912	nonsense_mediated_decay	KNOWN	None	1094	636	211	3118926	3152879	1	MCNAA	Bph-rp
6	BPHL	ENSG00000137274	ENST00000380379	protein_coding	KNOWN	CCDS4483	1094	876	291	3118926	3153812	1	MCNAA	Bph-rp
6	BPHL	ENSG00000137274	ENST00000490918	retained_intron	KNOWN	None	1094	None	None	3118960	3153296	1	MCNAA	Bph-rp
6	BPHL	ENSG00000137274	ENST00000479273	retained_intron	KNOWN	None	1094	None	None	3118962	3124377	1	MCNAA	Bph-rp
6	BPHL	ENSG00000137274	ENST00000488487	retained_intron	KNOWN	None	1094	None	None	3127030	3152767	1	MCNAA	Bph-rp
6	BPHL	ENSG00000137274	ENST00000423798	protein_coding	PUTATIVE	None	1094	89	28	3140659	3153262	1	MCNAA	Bph-rp
6	BPHL	ENSG00000137274	ENST00000464040	processed_transcript	PUTATIVE	None	1094	None	None	3150248	3153280	1	MCNAA	Bph-rp
6	BPHL	ENSG00000137274	ENST00000380375	protein_coding	KNOWN	None	1094	825	274	3118610	3153428	1	MCNAA	Bph-rp
6	BPHL	ENSG00000137274	ENST00000380368	protein_coding	KNOWN	None	1094	585	194	3118610	3153428	1	MCNAA	Bph-rp
1	MPTX1	ENSG00000215846	ENST00000480235	processed_pseudogene	KNOWN	None	48364	None	None	159246293	159246901	1	None	None
1	MPTX1	ENSG00000215846	ENST00000536945	processed_pseudogene	KNOWN	None	48364	None	None	159246308	159247282	1	None	None
X	None	ENSG00000241418	ENST00000394346	processed_pseudogene	KNOWN	None	None	None	None	130929685	130930195	-1	None	None
1	None	ENSG00000233626	ENST00000416056	processed_pseudogene	KNOWN	None	None	None	None	212109591	212109976	1	None	None
4	RNU6-868P	ENSG00000253050	ENST00000517241	snRNA	KNOWN	None	47831	None	None	48111370	48111427	-1	None	None
1	None	ENSG00000224550	ENST00000416095	processed_pseudogene	KNOWN	None	None	None	None	108047825	108048070	1	None	None
15	None	ENSG00000258780	ENST00000554269	unprocessed_pseudogene	KNOWN	None	None	None	None	20359029	20366079	1	None	None
2	None	ENSG00000224959	ENST00000432268	lincRNA	KNOWN	None	None	None	None	112249520	112252388	-1	None	None
8	USP17L3	ENSG00000225327	ENST00000530484	unprocessed_pseudogene	KNOWN	None	37175	None	None	7833915	7835507	-1	None	USP17B, USP17F
12	None	ENSG00000257378	ENST00000552806	antisense	KNOWN	None	None	None	None	50348422	50349908	-1	None	None
1	HNRNPA1P6	ENSG00000229887	ENST00000394002	unprocessed_pseudogene	KNOWN	None	5032	None	None	58513847	58514963	-1	HNRPA1L, HNRNPA1L, HNRNPA1L1	None
4	None	ENSG00000202014	ENST00000365144	misc_RNA	NOVEL	None	None	None	None	48155451	48155552	1	None	None
17	COX10-AS1	ENSG00000236088	ENST00000582752	antisense	KNOWN	None	38873	None	None	13659795	13796156	-1	COX10AS, COX10-AS	None
17	COX10-AS1	ENSG00000236088	ENST00000423323	antisense	KNOWN	None	38873	None	None	13679951	13695867	-1	COX10AS, COX10-AS	None
17	COX10-AS1	ENSG00000236088	ENST00000577798	antisense	KNOWN	None	38873	None	None	13680149	13796156	-1	COX10AS, COX10-AS	None
17	COX10-AS1	ENSG00000236088	ENST00000602743	antisense	KNOWN	None	38873	None	None	13680624	13972812	-1	COX10AS, COX10-AS	None
17	COX10-AS1	ENSG00000236088	ENST00000449363	antisense	KNOWN	None	38873	None	None	13932609	13972775	-1	COX10AS, COX10-AS	None
17	COX10-AS1	ENSG00000236088	ENST00000602539	antisense	KNOWN	None	38873	None	None	13937168	13972796	-1	COX10AS, COX10-AS	None
5	None	ENSG00000200600	ENST00000363730	misc_RNA	NOVEL	None	None	None	None	23994611	23994712	-1	None	None
3	ENTPD3-AS1	ENSG00000223797	ENST00000439293	antisense	KNOWN	None	26710	None	None	40355293	40494677	-1	None	FLJ36665
3	ENTPD3-AS1	ENSG00000223797	ENST00000425156	antisense	KNOWN	None	26710	None	None	40432442	40494796	-1	None	FLJ36665
3	ENTPD3-AS1	ENSG00000223797	ENST00000452768	antisense	KNOWN	None	26710	None	None	40433341	40494671	-1	None	FLJ36665
3	ENTPD3-AS1	ENSG00000223797	ENST00000420850	antisense	KNOWN	None	26710	None	None	40487834	40494820	-1	None	FLJ36665
2	XIRP2-AS1	ENSG00000254552	ENST00000525330	antisense	KNOWN	None	40679	None	None	167980414	167997465	-1	None	None
11	None	ENSG00000240652	ENST00000474540	processed_pseudogene	KNOWN	None	None	None	None	107779146	107779490	1	None	None
12	None	ENSG00000212383	ENST00000391081	snoRNA	NOVEL	None	None	None	None	57255159	57255292	1	None	None
4	RNU5E-3P	ENSG00000251722	ENST00000515913	snRNA	KNOWN	None	42512	None	None	48576470	48576537	-1	None	None
17	None	ENSG00000267785	ENST00000591939	lincRNA	KNOWN	None	None	None	None	35078894	35082651	1	None	None
1	None	ENSG00000265536	ENST00000579317	miRNA	NOVEL	None	None	None	None	108318796	108318878	-1	None	None
2	None	ENSG00000271635	ENST00000604721	processed_pseudogene	KNOWN	None	None	None	None	112315990	112317514	-1	None	None
5	None	ENSG00000226432	ENST00000514047	processed_pseudogene	KNOWN	None	None	None	None	24170479	24171355	1	None	None
14	None	ENSG00000258387	ENST00000554342	processed_pseudogene	KNOWN	None	None	None	None	44061345	44061465	-1	None	None
3	WDR52-AS1	ENSG00000243849	ENST00000473329	antisense	KNOWN	None	41113	None	None	113122838	113145893	1	None	None
3	WDR52-AS1	ENSG00000243849	ENST00000498480	antisense	KNOWN	None	41113	None	None	113122845	113152839	1	None	None
2	RN7SL830P	ENSG00000266577	ENST00000578841	misc_RNA	KNOWN	None	46846	None	None	85759467	85759749	-1	None	None
11	TRIM53BP	ENSG00000166013	ENST00000532912	unprocessed_pseudogene	KNOWN	None	37144	None	None	89575165	89584138	1	TRIM53L, TRIM53B, TRIM80P	None
12	ANKLE2	ENSG00000176915	ENST00000539605	protein_coding	KNOWN	None	29101	2631	876	133302254	133338399	-1	KIAA0692	LEMD7, Lem4
12	ANKLE2	ENSG00000176915	ENST00000357997	protein_coding	KNOWN	CCDS41869	29101	2817	938	133302254	133338474	-1	KIAA0692	LEMD7, Lem4
12	ANKLE2	ENSG00000176915	ENST00000542282	protein_coding	PUTATIVE	None	29101	882	293	133303392	133308796	-1	KIAA0692	LEMD7, Lem4
12	ANKLE2	ENSG00000176915	ENST00000542657	protein_coding	PUTATIVE	None	29101	882	293	133303719	133308686	-1	KIAA0692	LEMD7, Lem4
12	ANKLE2	ENSG00000176915	ENST00000542374	processed_transcript	KNOWN	None	29101	None	None	133303872	133312025	-1	KIAA0692	LEMD7, Lem4
12	ANKLE2	ENSG00000176915	ENST00000538766	protein_coding	PUTATIVE	None	29101	774	257	133303936	133311709	-1	KIAA0692	LEMD7, Lem4
12	ANKLE2	ENSG00000176915	ENST00000505031	retained_intron	KNOWN	None	29101	None	None	133306309	133315493	-1	KIAA0692	LEMD7, Lem4
12	ANKLE2	ENSG00000176915	ENST00000439231	retained_intron	KNOWN	None	29101	None	None	133306819	133319144	-1	KIAA0692	LEMD7, Lem4
12	ANKLE2	ENSG00000176915	ENST00000538591	retained_intron	KNOWN	None	29101	None	None	133311554	133319840	-1	KIAA0692	LEMD7, Lem4
12	ANKLE2	ENSG00000176915	ENST00000535036	protein_coding	PUTATIVE	None	29101	388	128	133311993	133324614	-1	KIAA0692	LEMD7, Lem4
12	ANKLE2	ENSG00000176915	ENST00000545623	protein_coding	PUTATIVE	None	29101	753	250	133313629	133327920	-1	KIAA0692	LEMD7, Lem4
12	ANKLE2	ENSG00000176915	ENST00000538637	processed_transcript	PUTATIVE	None	29101	None	None	133318412	133319834	-1	KIAA0692	LEMD7, Lem4
12	ANKLE2	ENSG00000176915	ENST00000546061	protein_coding	PUTATIVE	None	29101	206	67	133319825	133325613	-1	KIAA0692	LEMD7, Lem4
12	ANKLE2	ENSG00000176915	ENST00000337516	protein_coding	KNOWN	None	29101	1947	648	133310602	133338451	-1	KIAA0692	LEMD7, Lem4
4	OCIAD1-AS1	ENSG00000248256	ENST00000513576	antisense	KNOWN	None	40751	None	None	48854025	48862220	-1	None	None
18	SETBP1	ENSG00000152217	ENST00000426838	protein_coding	KNOWN	CCDS45859	15573	729	242	42260138	42457379	1	None	SEB, KIAA0437
18	SETBP1	ENSG00000152217	ENST00000282030	protein_coding	KNOWN	CCDS11923	15573	4791	1596	42260863	42648475	1	None	SEB, KIAA0437
18	SETBP1	ENSG00000152217	ENST00000591940	protein_coding	KNOWN	None	15573	411	136	42277129	42281722	1	None	SEB, KIAA0437
GL000223.1	None	ENSG00000251784	ENST00000515975	snRNA	NOVEL	None	None	None	None	110776	110888	1	None	None
2	RN7SL126P	ENSG00000266536	ENST00000580173	misc_RNA	KNOWN	None	46142	None	None	85794787	85795083	-1	None	None
11	BSCL2	ENSG00000168000	ENST00000449636	protein_coding	PUTATIVE	None	15832	453	150	62457747	62458811	-1	GNG3LG, SPG17	None
11	BSCL2	ENSG00000168000	ENST00000405837	protein_coding	NOVEL	None	15832	1395	464	62457747	62476986	-1	GNG3LG, SPG17	None
11	BSCL2	ENSG00000168000	ENST00000470529	retained_intron	KNOWN	None	15832	None	None	62457748	62458650	-1	GNG3LG, SPG17	None
11	BSCL2	ENSG00000168000	ENST00000278893	protein_coding	KNOWN	CCDS55769	15832	864	287	62457748	62473787	-1	GNG3LG, SPG17	None
11	BSCL2	ENSG00000168000	ENST00000360796	protein_coding	KNOWN	CCDS44627	15832	1389	462	62457748	62474870	-1	GNG3LG, SPG17	None
11	BSCL2	ENSG00000168000	ENST00000463679	retained_intron	KNOWN	None	15832	None	None	62457750	62458814	-1	GNG3LG, SPG17	None
11	BSCL2	ENSG00000168000	ENST00000403098	protein_coding	NOVEL	None	15832	240	79	62457753	62460221	-1	GNG3LG, SPG17	None
11	BSCL2	ENSG00000168000	ENST00000403550	protein_coding	KNOWN	CCDS8031	15832	1197	398	62457767	62473706	-1	GNG3LG, SPG17	None
11	BSCL2	ENSG00000168000	ENST00000407022	protein_coding	KNOWN	CCDS8031	15832	1197	398	62457767	62473816	-1	GNG3LG, SPG17	None
11	BSCL2	ENSG00000168000	ENST00000301781	nonsense_mediated_decay	KNOWN	None	15832	834	277	62457784	62474990	-1	GNG3LG, SPG17	None
11	BSCL2	ENSG00000168000	ENST00000421906	protein_coding	KNOWN	CCDS8031	15832	1197	398	62457787	62473816	-1	GNG3LG, SPG17	None
11	BSCL2	ENSG00000168000	ENST00000468505	retained_intron	KNOWN	None	15832	None	None	62458442	62460269	-1	GNG3LG, SPG17	None
11	BSCL2	ENSG00000168000	ENST00000532115	processed_transcript	PUTATIVE	None	15832	None	None	62458808	62462183	-1	GNG3LG, SPG17	None
11	BSCL2	ENSG00000168000	ENST00000412351	processed_transcript	KNOWN	None	15832	None	None	62458864	62465038	-1	GNG3LG, SPG17	None
11	BSCL2	ENSG00000168000	ENST00000448568	protein_coding	KNOWN	None	15832	671	222	62459848	62473690	-1	GNG3LG, SPG17	None
11	BSCL2	ENSG00000168000	ENST00000526426	processed_transcript	KNOWN	None	15832	None	None	62459882	62462184	-1	GNG3LG, SPG17	None
11	BSCL2	ENSG00000168000	ENST00000531524	protein_coding	NOVEL	None	15832	333	110	62460168	62477000	-1	GNG3LG, SPG17	None
11	BSCL2	ENSG00000168000	ENST00000524862	protein_coding	KNOWN	None	15832	679	225	62460221	62476792	-1	GNG3LG, SPG17	None
11	BSCL2	ENSG00000168000	ENST00000537604	processed_transcript	KNOWN	None	15832	None	None	62462030	62473692	-1	GNG3LG, SPG17	None
11	BSCL2	ENSG00000168000	ENST00000530900	processed_transcript	KNOWN	None	15832	None	None	62462072	62473728	-1	GNG3LG, SPG17	None
11	BSCL2	ENSG00000168000	ENST00000525000	protein_coding	NOVEL	None	15832	154	50	62462148	62474616	-1	GNG3LG, SPG17	None
11	BSCL2	ENSG00000168000	ENST00000533982	protein_coding	KNOWN	None	15832	298	98	62462180	62474821	-1	GNG3LG, SPG17	None
11	BSCL2	ENSG00000168000	ENST00000532818	protein_coding	KNOWN	None	15832	369	122	62472808	62477203	-1	GNG3LG, SPG17	None
11	BSCL2	ENSG00000168000	ENST00000464544	protein_coding	KNOWN	None	15832	279	92	62472898	62477317	-1	GNG3LG, SPG17	None
11	BSCL2	ENSG00000168000	ENST00000413908	nonsense_mediated_decay	KNOWN	None	15832	120	39	62472966	62474935	-1	GNG3LG, SPG17	None
11	BSCL2	ENSG00000168000	ENST00000530009	protein_coding	KNOWN	None	15832	85	27	62474583	62477317	-1	GNG3LG, SPG17	None
11	BSCL2	ENSG00000168000	ENST00000528874	protein_coding	KNOWN	None	15832	70	22	62474598	62476536	-1	GNG3LG, SPG17	None
11	BSCL2	ENSG00000168000	ENST00000433053	protein_coding	KNOWN	CCDS44627	15832	1389	462	62457747	62477046	-1	GNG3LG, SPG17	None
8	MIR151A	ENSG00000254324	ENST00000521276	sense_intronic	KNOWN	None	31762	None	None	141742663	141742752	-1	MIRN151, MIR151	hsa-mir-151
2	None	ENSG00000225744	ENST00000426124	lincRNA	KNOWN	None	None	None	None	112365418	112370095	1	None	None
14	None	ENSG00000258894	ENST00000553881	processed_pseudogene	KNOWN	None	None	None	None	44064339	44065886	1	None	None
1	None	ENSG00000212187	ENST00000390885	snoRNA	NOVEL	None	None	None	None	212198903	212199024	1	None	None
2	None	ENSG00000228222	ENST00000442316	lincRNA	KNOWN	None	None	None	None	168149681	168414843	1	None	None
HG14_PATCH	None	ENSG00000260749	ENST00000568152	processed_pseudogene	KNOWN	None	None	None	None	57492210	57493383	1	None	None
2	None	ENSG00000203363	ENST00000443948	processed_pseudogene	KNOWN	None	None	None	None	85913176	85914170	-1	None	None
9	NOL8	ENSG00000198000	ENST00000442668	protein_coding	KNOWN	CCDS47993	23387	3504	1167	95059640	95087838	-1	C9orf34	FLJ20736, Nop132
9	NOL8	ENSG00000198000	ENST00000545444	nonsense_mediated_decay	KNOWN	None	23387	393	130	95059706	95087872	-1	C9orf34	FLJ20736, Nop132
9	NOL8	ENSG00000198000	ENST00000463593	retained_intron	KNOWN	None	23387	None	None	95059766	95062308	-1	C9orf34	FLJ20736, Nop132
9	NOL8	ENSG00000198000	ENST00000536593	nonsense_mediated_decay	KNOWN	None	23387	261	86	95059766	95087632	-1	C9orf34	FLJ20736, Nop132
9	NOL8	ENSG00000198000	ENST00000545558	protein_coding	KNOWN	CCDS47993	23387	3504	1167	95059772	95087632	-1	C9orf34	FLJ20736, Nop132
9	NOL8	ENSG00000198000	ENST00000360868	nonsense_mediated_decay	KNOWN	None	23387	261	86	95059896	95086942	-1	C9orf34	FLJ20736, Nop132
9	NOL8	ENSG00000198000	ENST00000544867	nonsense_mediated_decay	KNOWN	None	23387	3258	1085	95059899	95087620	-1	C9orf34	FLJ20736, Nop132
9	NOL8	ENSG00000198000	ENST00000535387	protein_coding	NOVEL	None	23387	3390	1129	95060118	95086443	-1	C9orf34	FLJ20736, Nop132
9	NOL8	ENSG00000198000	ENST00000542053	protein_coding	NOVEL	CCDS59135	23387	3300	1099	95060118	95087615	-1	C9orf34	FLJ20736, Nop132
9	NOL8	ENSG00000198000	ENST00000477862	processed_transcript	KNOWN	None	23387	None	None	95063861	95071232	-1	C9orf34	FLJ20736, Nop132
9	NOL8	ENSG00000198000	ENST00000432670	protein_coding	KNOWN	None	23387	2909	968	95064099	95087640	-1	C9orf34	FLJ20736, Nop132
9	NOL8	ENSG00000198000	ENST00000434228	nonsense_mediated_decay	KNOWN	None	23387	261	86	95069232	95087625	-1	C9orf34	FLJ20736, Nop132
9	NOL8	ENSG00000198000	ENST00000538802	retained_intron	KNOWN	None	23387	None	None	95069253	95073107	-1	C9orf34	FLJ20736, Nop132
9	NOL8	ENSG00000198000	ENST00000433029	protein_coding	KNOWN	None	23387	1241	412	95077666	95087652	-1	C9orf34	FLJ20736, Nop132
9	NOL8	ENSG00000198000	ENST00000467230	retained_intron	KNOWN	None	23387	None	None	95077971	95081229	-1	C9orf34	FLJ20736, Nop132
9	NOL8	ENSG00000198000	ENST00000421075	protein_coding	KNOWN	None	23387	773	256	95078134	95087876	-1	C9orf34	FLJ20736, Nop132
9	NOL8	ENSG00000198000	ENST00000445919	nonsense_mediated_decay	KNOWN	None	23387	306	101	95078239	95087594	-1	C9orf34	FLJ20736, Nop132
9	NOL8	ENSG00000198000	ENST00000411621	protein_coding	NOVEL	None	23387	439	145	95078264	95087667	-1	C9orf34	FLJ20736, Nop132
9	NOL8	ENSG00000198000	ENST00000535807	protein_coding	NOVEL	None	23387	327	108	95078376	95086957	-1	C9orf34	FLJ20736, Nop132
9	NOL8	ENSG00000198000	ENST00000536624	protein_coding	KNOWN	None	23387	435	144	95080951	95087918	-1	C9orf34	FLJ20736, Nop132
9	NOL8	ENSG00000198000	ENST00000542613	protein_coding	NOVEL	None	23387	156	51	95081560	95087613	-1	C9orf34	FLJ20736, Nop132
9	NOL8	ENSG00000198000	ENST00000542573	nonsense_mediated_decay	KNOWN	None	23387	261	86	95081570	95087630	-1	C9orf34	FLJ20736, Nop132
9	NOL8	ENSG00000198000	ENST00000543260	nonsense_mediated_decay	KNOWN	None	23387	261	86	95081602	95087618	-1	C9orf34	FLJ20736, Nop132
9	NOL8	ENSG00000198000	ENST00000543985	processed_transcript	KNOWN	None	23387	None	None	95082270	95087632	-1	C9orf34	FLJ20736, Nop132
9	NOL8	ENSG00000198000	ENST00000544321	nonsense_mediated_decay	KNOWN	None	23387	261	86	95082412	95087643	-1	C9orf34	FLJ20736, Nop132
9	NOL8	ENSG00000198000	ENST00000538215	processed_transcript	KNOWN	None	23387	None	None	95082473	95087635	-1	C9orf34	FLJ20736, Nop132
9	NOL8	ENSG00000198000	ENST00000482475	retained_intron	KNOWN	None	23387	None	None	95085132	95087574	-1	C9orf34	FLJ20736, Nop132
9	NOL8	ENSG00000198000	ENST00000535649	retained_intron	KNOWN	None	23387	None	None	95085419	95087632	-1	C9orf34	FLJ20736, Nop132
9	NOL8	ENSG00000198000	ENST00000358855	protein_coding	KNOWN	CCDS59135	23387	3300	1099	95059768	95087632	-1	C9orf34	FLJ20736, Nop132
8	RNA5SP278	ENSG00000252864	ENST00000517055	rRNA	KNOWN	None	43178	None	None	141950661	141950762	1	RN5S278	None
6	ETV7	ENSG00000010030	ENST00000340181	protein_coding	KNOWN	CCDS4819	18160	1026	341	36333971	36355560	-1	None	TEL2, TEL-2
6	ETV7	ENSG00000010030	ENST00000373737	protein_coding	KNOWN	CCDS56424	18160	795	264	36333971	36355560	-1	None	TEL2, TEL-2
6	ETV7	ENSG00000010030	ENST00000339796	protein_coding	KNOWN	CCDS56425	18160	954	317	36322419	36356164	-1	None	TEL2, TEL-2
6	ETV7	ENSG00000010030	ENST00000373738	protein_coding	KNOWN	CCDS56423	18160	861	286	36333972	36356164	-1	None	TEL2, TEL-2
6	ETV7	ENSG00000010030	ENST00000538992	protein_coding	KNOWN	CCDS56422	18160	573	190	36334136	36355493	-1	None	TEL2, TEL-2
1	VAV3-AS1	ENSG00000230489	ENST00000438318	antisense	KNOWN	None	40608	None	None	108507065	108537229	1	None	None
10	None	ENSG00000234961	ENST00000456355	antisense	KNOWN	None	None	None	None	17275324	17276832	-1	None	None
14	None	ENSG00000258367	ENST00000551951	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	19339405	19345267	1	None	None
17	None	ENSG00000255509	ENST00000528383	antisense	KNOWN	None	None	None	None	35218935	35293960	-1	None	None
17	None	ENSG00000255509	ENST00000532387	antisense	KNOWN	None	None	None	None	35264280	35293957	-1	None	None
17	None	ENSG00000255509	ENST00000529264	antisense	KNOWN	None	None	None	None	35264573	35293951	-1	None	None
17	None	ENSG00000255509	ENST00000525111	antisense	KNOWN	None	None	None	None	35289409	35293921	-1	None	None
4	RNU6-158P	ENSG00000252913	ENST00000517104	snRNA	KNOWN	None	47121	None	None	48934772	48934871	-1	None	None
1	RPL21P28	ENSG00000220749	ENST00000401418	processed_pseudogene	KNOWN	None	36258	None	None	212224866	212225348	-1	None	None
1	RPL21P28	ENSG00000220749	ENST00000327274	processed_pseudogene	KNOWN	None	36258	None	None	212224829	212225371	-1	None	None
9	ZNF367	ENSG00000165244	ENST00000375256	protein_coding	KNOWN	CCDS6718	18320	1053	350	99148223	99180611	-1	None	FLJ33970
4	None	ENSG00000251334	ENST00000507399	processed_pseudogene	KNOWN	None	None	None	None	48938599	48938897	1	None	None
HG104_HG975_PATCH	None	ENSG00000260748	ENST00000569605	antisense	KNOWN	None	None	None	None	144778324	144780583	1	None	None
8	None	ENSG00000253266	ENST00000517606	lincRNA	KNOWN	None	None	None	None	142065389	142070695	1	None	None
8	None	ENSG00000253266	ENST00000522882	lincRNA	KNOWN	None	None	None	None	142069431	142070567	1	None	None
2	RNU7-148P	ENSG00000238357	ENST00000459595	snRNA	KNOWN	None	45682	None	None	168487990	168488051	-1	None	None
11	SESN3	ENSG00000149212	ENST00000536441	protein_coding	KNOWN	CCDS8303	23060	1479	492	94898704	94964361	-1	None	SEST3, MGC29667
11	SESN3	ENSG00000149212	ENST00000278499	protein_coding	PUTATIVE	None	23060	1062	353	94906312	94965705	-1	None	SEST3, MGC29667
11	SESN3	ENSG00000149212	ENST00000416495	protein_coding	KNOWN	None	23060	966	321	94917299	94964210	-1	None	SEST3, MGC29667
11	SESN3	ENSG00000149212	ENST00000542176	protein_coding	PUTATIVE	None	23060	212	69	94924629	94965691	-1	None	SEST3, MGC29667
11	SESN3	ENSG00000149212	ENST00000537480	processed_transcript	KNOWN	None	23060	None	None	94924729	94965639	-1	None	SEST3, MGC29667
11	SESN3	ENSG00000149212	ENST00000393234	protein_coding	KNOWN	None	23060	954	317	94915322	94964246	-1	None	SEST3, MGC29667
2	None	ENSG00000237583	ENST00000457867	processed_pseudogene	KNOWN	None	None	None	None	112432603	112432920	1	None	None
1	None	ENSG00000223416	ENST00000488067	processed_pseudogene	KNOWN	None	None	None	None	58521805	58522152	-1	None	None
5	GZMA	ENSG00000145649	ENST00000274306	protein_coding	KNOWN	CCDS3965	4708	789	262	54398476	54406080	1	HFSP, CTLA3	None
4	TPI1P4	ENSG00000225455	ENST00000513630	processed_pseudogene	KNOWN	None	38071	None	None	49018699	49019171	-1	None	None
13	CCR12P	ENSG00000238241	ENST00000446203	processed_pseudogene	KNOWN	None	39812	None	None	100060035	100061316	-1	GPR183P1	None
1	None	ENSG00000264753	ENST00000582803	miRNA	NOVEL	None	None	None	None	108561275	108561393	-1	None	None
2	CTAGE14P	ENSG00000214211	ENST00000397819	processed_pseudogene	KNOWN	None	37299	None	None	168570173	168572575	-1	None	None
10	ST8SIA6-AS1	ENSG00000204832	ENST00000457649	antisense	KNOWN	None	44880	None	None	17428935	17450285	1	None	None
10	ST8SIA6-AS1	ENSG00000204832	ENST00000377597	antisense	KNOWN	None	44880	None	None	17428950	17452630	1	None	None
10	ST8SIA6-AS1	ENSG00000204832	ENST00000451225	antisense	KNOWN	None	44880	None	None	17428993	17450285	1	None	None
10	ST8SIA6-AS1	ENSG00000204832	ENST00000451190	antisense	KNOWN	None	44880	None	None	17450026	17455502	1	None	None
10	ST8SIA6-AS1	ENSG00000204832	ENST00000511755	antisense	KNOWN	None	44880	None	None	17441101	17452630	1	None	None
X	None	ENSG00000228089	ENST00000435914	processed_pseudogene	KNOWN	None	None	None	None	130937340	130937769	-1	None	None
12	None	ENSG00000258442	ENST00000556850	3prime_overlapping_ncrna	KNOWN	None	None	None	None	57390043	57392225	1	None	None
2	None	ENSG00000227842	ENST00000442243	processed_pseudogene	KNOWN	None	None	None	None	112475085	112475414	1	None	None
2	RNU1-38P	ENSG00000199687	ENST00000362817	snRNA	KNOWN	None	48380	None	None	85955317	85955460	-1	None	None
12	None	ENSG00000272368	ENST00000548468	processed_transcript	KNOWN	None	None	None	None	50505980	50559203	1	None	None
12	None	ENSG00000272368	ENST00000552815	antisense	KNOWN	None	None	None	None	50506037	50517565	1	None	None
13	None	ENSG00000266207	ENST00000582220	miRNA	NOVEL	None	None	None	None	100105650	100105723	-1	None	None
1	None	ENSG00000226822	ENST00000419428	lincRNA	KNOWN	None	None	None	None	108614104	108617141	1	None	None
1	None	ENSG00000226822	ENST00000451023	lincRNA	KNOWN	None	None	None	None	108614993	108617115	1	None	None
X	RPL6P29	ENSG00000236243	ENST00000414863	processed_pseudogene	KNOWN	None	36382	None	None	97506677	97507541	1	None	None
8	LINC00681	ENSG00000255494	ENST00000530150	lincRNA	KNOWN	None	44423	None	None	12651752	12675800	1	None	None
4	None	ENSG00000222437	ENST00000410505	miRNA	NOVEL	None	None	None	None	49199220	49199301	1	None	None
2	None	ENSG00000229498	ENST00000366278	antisense	KNOWN	None	None	None	None	86042253	86052514	1	None	None
Y	None	ENSG00000235193	ENST00000434709	unprocessed_pseudogene	KNOWN	None	None	None	None	9925635	9927195	1	None	None
13	LINC00449	ENSG00000203441	ENST00000366259	antisense	KNOWN	None	42786	None	None	100151981	100153306	-1	None	None
1	OR10J2P	ENSG00000248642	ENST00000514684	unprocessed_pseudogene	KNOWN	None	14991	None	None	159248831	159249791	-1	None	None
1	MIR3122	ENSG00000264358	ENST00000577243	miRNA	KNOWN	None	38320	None	None	212250955	212251027	1	None	hsa-mir-3122
1	None	ENSG00000235038	ENST00000419596	lincRNA	KNOWN	None	None	None	None	58525811	58545946	1	None	None
4	None	ENSG00000221747	ENST00000408820	miRNA	NOVEL	None	None	None	None	49200032	49200114	1	None	None
2	None	ENSG00000228615	ENST00000455969	processed_pseudogene	KNOWN	None	None	None	None	112500163	112502239	1	None	None
3	ENPP7P3	ENSG00000248618	ENST00000509123	processed_pseudogene	KNOWN	None	48686	None	None	129886633	129886873	-1	None	None
17	CSHL1	ENSG00000204414	ENST00000561003	protein_coding	NOVEL	None	2442	537	178	61986957	61988649	-1	CSHP1	hCS-L, CSL, CS-5, MGC149868
17	CSHL1	ENSG00000204414	ENST00000259003	protein_coding	NOVEL	None	2442	483	160	61986960	61988701	-1	CSHP1	hCS-L, CSL, CS-5, MGC149868
17	CSHL1	ENSG00000204414	ENST00000438387	protein_coding	KNOWN	CCDS45759	2442	420	139	61986965	61988596	-1	CSHP1	hCS-L, CSL, CS-5, MGC149868
17	CSHL1	ENSG00000204414	ENST00000346606	protein_coding	KNOWN	CCDS42370	2442	387	128	61986967	61988618	-1	CSHP1	hCS-L, CSL, CS-5, MGC149868
17	CSHL1	ENSG00000204414	ENST00000450719	protein_coding	NOVEL	None	2442	504	167	61986976	61988688	-1	CSHP1	hCS-L, CSL, CS-5, MGC149868
17	CSHL1	ENSG00000204414	ENST00000558099	processed_transcript	KNOWN	None	2442	None	None	61986977	61988659	-1	CSHP1	hCS-L, CSL, CS-5, MGC149868
17	CSHL1	ENSG00000204414	ENST00000560999	retained_intron	KNOWN	None	2442	None	None	61986993	61988594	-1	CSHP1	hCS-L, CSL, CS-5, MGC149868
17	CSHL1	ENSG00000204414	ENST00000558609	retained_intron	KNOWN	None	2442	None	None	61987012	61988607	-1	CSHP1	hCS-L, CSL, CS-5, MGC149868
17	CSHL1	ENSG00000204414	ENST00000309894	protein_coding	KNOWN	CCDS11652	2442	669	222	61987071	61988556	-1	CSHP1	hCS-L, CSL, CS-5, MGC149868
17	CSHL1	ENSG00000204414	ENST00000392824	protein_coding	KNOWN	None	2442	522	173	61987242	61996198	-1	CSHP1	hCS-L, CSL, CS-5, MGC149868
11	None	ENSG00000264095	ENST00000580820	miRNA	NOVEL	None	None	None	None	74464519	74464629	-1	None	None
8	None	ENSG00000264463	ENST00000584104	miRNA	NOVEL	None	None	None	None	12763347	12763430	1	None	None
4	None	ENSG00000221415	ENST00000408488	miRNA	NOVEL	None	None	None	None	49200224	49200306	1	None	None
8	None	ENSG00000253210	ENST00000520885	antisense	KNOWN	None	None	None	None	142136143	142138220	-1	None	None
8	None	ENSG00000253210	ENST00000517908	antisense	KNOWN	None	None	None	None	142136390	142140060	-1	None	None
1	RN7SKP98	ENSG00000252879	ENST00000517070	misc_RNA	KNOWN	None	45822	None	None	212272863	212273018	-1	None	None
12	None	ENSG00000263832	ENST00000577550	miRNA	NOVEL	None	None	None	None	57515445	57515545	-1	None	None
11	RN7SL239P	ENSG00000242999	ENST00000490061	misc_RNA	KNOWN	None	46255	None	None	74556955	74557251	1	None	None
15	None	ENSG00000258628	ENST00000557586	unprocessed_pseudogene	KNOWN	None	None	None	None	20433873	20482756	-1	None	None
HG998_1_PATCH	None	ENSG00000260220	ENST00000569961	protein_coding	NOVEL	None	None	2898	965	139173226	139198747	-1	None	None
HG998_1_PATCH	None	ENSG00000260220	ENST00000563590	nonsense_mediated_decay	KNOWN	None	None	2568	855	139173231	139195916	-1	None	None
HG998_1_PATCH	None	ENSG00000260220	ENST00000565954	processed_transcript	KNOWN	None	None	None	None	139187698	139195940	-1	None	None
X	None	ENSG00000235190	ENST00000438615	processed_pseudogene	KNOWN	None	None	None	None	131071698	131071881	1	None	None
4	None	ENSG00000249828	ENST00000512142	processed_pseudogene	KNOWN	None	None	None	None	49205188	49205743	-1	None	None
13	RNY3P6	ENSG00000212197	ENST00000390895	misc_RNA	KNOWN	None	42490	None	None	100188573	100188650	-1	None	None
1	None	ENSG00000260879	ENST00000564063	antisense	KNOWN	None	None	None	None	108742548	108744113	1	None	None
11	BAD	ENSG00000002330	ENST00000394532	protein_coding	KNOWN	CCDS8065	936	507	168	64037302	64052111	-1	None	BCL2L8, BBC2
11	BAD	ENSG00000002330	ENST00000309032	protein_coding	KNOWN	CCDS8065	936	507	168	64037306	64052141	-1	None	BCL2L8, BBC2
11	BAD	ENSG00000002330	ENST00000544785	protein_coding	PUTATIVE	None	936	474	157	64037473	64051841	-1	None	BCL2L8, BBC2
11	BAD	ENSG00000002330	ENST00000394531	protein_coding	PUTATIVE	None	936	492	163	64037728	64052125	-1	None	BCL2L8, BBC2
11	BAD	ENSG00000002330	ENST00000493798	protein_coding	PUTATIVE	None	936	192	63	64037741	64039340	-1	None	BCL2L8, BBC2
11	BAD	ENSG00000002330	ENST00000492141	protein_coding	PUTATIVE	None	936	153	50	64037780	64040328	-1	None	BCL2L8, BBC2
11	BAD	ENSG00000002330	ENST00000544271	retained_intron	KNOWN	None	936	None	None	64044233	64052176	-1	None	BCL2L8, BBC2
1	None	ENSG00000229983	ENST00000444750	lincRNA	KNOWN	None	None	None	None	212341549	212363601	1	None	None
12	None	ENSG00000238822	ENST00000459050	snoRNA	NOVEL	None	None	None	None	131299898	131299995	1	None	None
3	None	ENSG00000221270	ENST00000408343	miRNA	NOVEL	None	None	None	None	129902366	129902466	1	None	None
9	None	ENSG00000224307	ENST00000455981	lincRNA	KNOWN	None	None	None	None	132044737	132048007	1	None	None
11	None	ENSG00000244313	ENST00000467930	processed_pseudogene	KNOWN	None	None	None	None	46450203	46450700	-1	None	None
11	None	ENSG00000244313	ENST00000400398	processed_pseudogene	KNOWN	None	None	None	None	46450163	46450609	-1	None	None
2	RN7SKP83	ENSG00000252321	ENST00000516512	misc_RNA	KNOWN	None	45807	None	None	86047558	86047735	-1	None	None
13	None	ENSG00000234168	ENST00000437113	lincRNA	KNOWN	None	None	None	None	100229366	100232622	1	None	None
1	None	ENSG00000230546	ENST00000441183	unprocessed_pseudogene	KNOWN	None	None	None	None	58550091	58550231	1	None	None
1	None	ENSG00000238122	ENST00000438965	lincRNA	KNOWN	None	None	None	None	108803818	108816311	-1	None	None
2	None	ENSG00000232504	ENST00000455121	lincRNA	KNOWN	None	None	None	None	86116403	86118103	1	None	None
3	SIDT1-AS1	ENSG00000239453	ENST00000462180	antisense	KNOWN	None	41126	None	None	113307595	113309036	-1	None	None
12	None	ENSG00000259125	ENST00000555461	antisense	KNOWN	None	None	None	None	57538403	57541402	-1	None	None
12	None	ENSG00000259125	ENST00000554476	antisense	KNOWN	None	None	None	None	57540273	57541312	-1	None	None
1	None	ENSG00000233216	ENST00000394974	processed_pseudogene	KNOWN	None	None	None	None	58694354	58694675	-1	None	None
2	None	ENSG00000235335	ENST00000430546	antisense	KNOWN	None	None	None	None	168671284	168726424	-1	None	None
2	None	ENSG00000235335	ENST00000436982	antisense	KNOWN	None	None	None	None	168671563	168797654	-1	None	None
HSCHR6_MHC_SSTO	OR2W1	ENSG00000227639	ENST00000411447	protein_coding	KNOWN	None	8281	963	320	29012010	29013037	-1	None	hs6M1-15
13	CFL1P8	ENSG00000234239	ENST00000436148	processed_pseudogene	KNOWN	None	39960	None	None	100234960	100235434	1	None	None
1	None	ENSG00000226251	ENST00000443448	lincRNA	KNOWN	None	None	None	None	212398620	212407888	-1	None	None
1	None	ENSG00000226251	ENST00000412221	lincRNA	KNOWN	None	None	None	None	212398622	212399880	-1	None	None
1	None	ENSG00000226251	ENST00000431307	lincRNA	KNOWN	None	None	None	None	212398622	212412319	-1	None	None
12	RNU6-1077P	ENSG00000222438	ENST00000410506	snRNA	KNOWN	None	48040	None	None	131354281	131354382	-1	None	None
1	None	ENSG00000228560	ENST00000431862	antisense	KNOWN	None	None	None	None	159315956	159438858	-1	None	None
1	None	ENSG00000270209	ENST00000604022	processed_pseudogene	KNOWN	None	None	None	None	59018585	59019005	-1	None	None
2	TCF7L1	ENSG00000152284	ENST00000282111	protein_coding	KNOWN	CCDS1971	11640	1767	588	85360533	85537511	1	TCF3	None
2	TCF7L1	ENSG00000152284	ENST00000494519	processed_transcript	PUTATIVE	None	11640	None	None	85361491	85394496	1	TCF3	None
2	TCF7L1	ENSG00000152284	ENST00000442813	protein_coding	PUTATIVE	None	11640	86	27	85440746	85529617	1	TCF3	None
2	TCF7L1	ENSG00000152284	ENST00000490744	retained_intron	KNOWN	None	11640	None	None	85530516	85531487	1	TCF3	None
2	MIR4771-2	ENSG00000266063	ENST00000577758	miRNA	KNOWN	None	41774	None	None	112528638	112528711	-1	None	hsa-mir-4771-2
2	MIR4771-1	ENSG00000266063	ENST00000577758	miRNA	KNOWN	None	41901	None	None	112528638	112528711	-1	None	hsa-mir-4771-1
8	None	ENSG00000251468	ENST00000506173	unprocessed_pseudogene	KNOWN	None	None	None	None	12815896	12819709	1	None	None
9	C9orf106	ENSG00000179082	ENST00000316786	processed_transcript	KNOWN	None	31370	None	None	132083295	132087184	1	None	bA65J3.5
2	SNORD94	ENSG00000208772	ENST00000386037	snoRNA	KNOWN	None	32756	None	None	86362993	86363129	1	None	U94
10	TEX36	ENSG00000175018	ENST00000532135	protein_coding	PUTATIVE	None	31653	390	129	127265091	127371675	-1	C10orf122	bA383C5.1
10	TEX36	ENSG00000175018	ENST00000526819	protein_coding	PUTATIVE	None	31653	297	98	127310182	127371699	-1	C10orf122	bA383C5.1
10	TEX36	ENSG00000175018	ENST00000368821	protein_coding	KNOWN	CCDS44493	31653	561	186	127344263	127371713	-1	C10orf122	bA383C5.1
5	MSX2	ENSG00000120149	ENST00000239243	protein_coding	KNOWN	CCDS4392	7392	804	267	174151536	174157896	1	PFM1	CRS2, FPP, HOX8, MSH, PFM
5	MSX2	ENSG00000120149	ENST00000507785	protein_coding	PUTATIVE	None	7392	405	134	174151605	174156313	1	PFM1	CRS2, FPP, HOX8, MSH, PFM
3	None	ENSG00000250580	ENST00000514820	processed_pseudogene	KNOWN	None	None	None	None	129918551	129918761	1	None	None
11	None	ENSG00000241170	ENST00000533875	processed_transcript	KNOWN	None	None	None	None	74587331	74624807	1	None	None
11	None	ENSG00000241170	ENST00000529570	processed_transcript	KNOWN	None	None	None	None	74622420	74631051	1	None	None
11	None	ENSG00000241170	ENST00000487111	processed_transcript	KNOWN	None	None	None	None	74624638	74630856	1	None	None
11	None	ENSG00000241170	ENST00000525104	processed_transcript	KNOWN	None	None	None	None	74629874	74631067	1	None	None
11	None	ENSG00000241170	ENST00000462248	transcribed_processed_pseudogene	KNOWN	None	None	None	None	74630632	74631010	1	None	None
1	RN7SL713P	ENSG00000264128	ENST00000582127	misc_RNA	KNOWN	None	46729	None	None	59031301	59031604	-1	None	None
2	None	ENSG00000230958	ENST00000448785	processed_pseudogene	KNOWN	None	None	None	None	112623375	112623982	1	None	None
1	OR10J7P	ENSG00000248442	ENST00000503933	unitary_pseudogene	KNOWN	None	19637	None	None	159320883	159321816	1	None	None
14	ADAM20P1	ENSG00000259158	ENST00000556964	lincRNA	KNOWN	None	20102	None	None	70935598	70950473	-1	C14orf55	None
2	None	ENSG00000200241	ENST00000363371	misc_RNA	NOVEL	None	None	None	None	86387079	86387189	-1	None	None
9	TOR1A	ENSG00000136827	ENST00000351698	protein_coding	KNOWN	CCDS6930	3098	999	332	132575223	132586413	-1	DYT1	DQ2
9	TOR1A	ENSG00000136827	ENST00000474192	processed_transcript	KNOWN	None	3098	None	None	132575887	132581060	-1	DYT1	DQ2
9	TOR1A	ENSG00000136827	ENST00000473604	processed_transcript	KNOWN	None	3098	None	None	132580602	132585872	-1	DYT1	DQ2
9	TOR1A	ENSG00000136827	ENST00000473084	processed_transcript	KNOWN	None	3098	None	None	132583655	132586383	-1	DYT1	DQ2
12	None	ENSG00000206850	ENST00000384123	misc_RNA	NOVEL	None	None	None	None	131391383	131391494	1	None	None
2	TTC27	ENSG00000018699	ENST00000448773	protein_coding	PUTATIVE	None	25986	345	114	32853099	32865435	1	None	FLJ20272
2	TTC27	ENSG00000018699	ENST00000317907	protein_coding	KNOWN	CCDS33176	25986	2532	843	32853129	33046118	1	None	FLJ20272
2	TTC27	ENSG00000018699	ENST00000454690	nonsense_mediated_decay	KNOWN	None	25986	126	41	32853223	32958988	1	None	FLJ20272
2	TTC27	ENSG00000018699	ENST00000438654	protein_coding	PUTATIVE	None	25986	216	71	32903945	32930065	1	None	FLJ20272
2	TTC27	ENSG00000018699	ENST00000433416	nonsense_mediated_decay	KNOWN	None	25986	302	99	32961852	33012216	1	None	FLJ20272
2	TTC27	ENSG00000018699	ENST00000428527	nonsense_mediated_decay	KNOWN	None	25986	141	46	33002949	33037682	1	None	FLJ20272
HSCHR6_MHC_SSTO	OR2B3	ENSG00000226832	ENST00000415976	protein_coding	KNOWN	None	8238	942	313	29054011	29055116	-1	OR2B3P	OR6-4
2	MIR4779	ENSG00000265420	ENST00000579234	miRNA	KNOWN	None	41747	None	None	86420149	86420231	-1	None	hsa-mir-4779
1	None	ENSG00000185839	ENST00000427762	processed_pseudogene	KNOWN	None	None	None	None	59096513	59097202	-1	None	None
1	None	ENSG00000185839	ENST00000330659	pseudogene	KNOWN	None	None	None	None	59096687	59097066	-1	None	None
15	RPL18P11	ENSG00000213307	ENST00000494933	processed_pseudogene	KNOWN	None	35742	None	None	78953389	78953918	-1	None	None
7	ABCB5	ENSG00000004846	ENST00000404938	protein_coding	PUTATIVE	CCDS55090	46	3774	1257	20654830	20796632	1	None	EST422562, ABCB5beta, ABCB5alpha
7	ABCB5	ENSG00000004846	ENST00000477094	processed_transcript	KNOWN	None	46	None	None	20686953	20691319	1	None	EST422562, ABCB5beta, ABCB5alpha
7	ABCB5	ENSG00000004846	ENST00000443026	protein_coding	KNOWN	CCDS55091	46	396	131	20686966	20700017	1	None	EST422562, ABCB5beta, ABCB5alpha
7	ABCB5	ENSG00000004846	ENST00000406935	protein_coding	PUTATIVE	CCDS55092	46	381	126	20686966	20706946	1	None	EST422562, ABCB5beta, ABCB5alpha
7	ABCB5	ENSG00000004846	ENST00000258738	protein_coding	KNOWN	CCDS5371	46	2439	812	20687045	20795247	1	None	EST422562, ABCB5beta, ABCB5alpha
7	ABCB5	ENSG00000004846	ENST00000441315	nonsense_mediated_decay	KNOWN	None	46	945	314	20762717	20816658	1	None	EST422562, ABCB5beta, ABCB5alpha
1	SLC25A24P1	ENSG00000241361	ENST00000411846	processed_transcript	KNOWN	None	48933	None	None	108815565	108880475	1	None	None
1	SLC25A24P1	ENSG00000241361	ENST00000434803	transcribed_unprocessed_pseudogene	KNOWN	None	48933	None	None	108815761	108880009	1	None	None
1	SLC25A24P1	ENSG00000241361	ENST00000450435	processed_transcript	KNOWN	None	48933	None	None	108876283	108918572	1	None	None
2	None	ENSG00000202537	ENST00000365667	snoRNA	NOVEL	None	None	None	None	86574185	86574318	-1	None	None
17	PIGS	ENSG00000087111	ENST00000268758	nonsense_mediated_decay	KNOWN	None	14937	126	41	26880401	26898546	-1	None	None
17	PIGS	ENSG00000087111	ENST00000487231	retained_intron	KNOWN	None	14937	None	None	26880405	26883847	-1	None	None
17	PIGS	ENSG00000087111	ENST00000492429	retained_intron	KNOWN	None	14937	None	None	26880405	26884521	-1	None	None
17	PIGS	ENSG00000087111	ENST00000395346	protein_coding	KNOWN	None	14937	1644	547	26880405	26898554	-1	None	None
17	PIGS	ENSG00000087111	ENST00000308360	protein_coding	KNOWN	CCDS11235	14937	1668	555	26880405	26898890	-1	None	None
17	PIGS	ENSG00000087111	ENST00000484580	retained_intron	KNOWN	None	14937	None	None	26883487	26887366	-1	None	None
17	PIGS	ENSG00000087111	ENST00000582615	retained_intron	KNOWN	None	14937	None	None	26883980	26890670	-1	None	None
17	PIGS	ENSG00000087111	ENST00000577620	retained_intron	KNOWN	None	14937	None	None	26885520	26888815	-1	None	None
17	PIGS	ENSG00000087111	ENST00000465444	processed_transcript	KNOWN	None	14937	None	None	26885520	26890677	-1	None	None
17	PIGS	ENSG00000087111	ENST00000580968	processed_transcript	KNOWN	None	14937	None	None	26885520	26890679	-1	None	None
17	PIGS	ENSG00000087111	ENST00000584080	nonsense_mediated_decay	KNOWN	None	14937	126	41	26885540	26898558	-1	None	None
17	PIGS	ENSG00000087111	ENST00000582721	nonsense_mediated_decay	KNOWN	None	14937	351	116	26890450	26898556	-1	None	None
17	PIGS	ENSG00000087111	ENST00000577594	retained_intron	KNOWN	None	14937	None	None	26890745	26898528	-1	None	None
17	PIGS	ENSG00000087111	ENST00000583631	retained_intron	KNOWN	None	14937	None	None	26890836	26898522	-1	None	None
17	PIGS	ENSG00000087111	ENST00000584413	processed_transcript	KNOWN	None	14937	None	None	26890846	26898812	-1	None	None
17	PIGS	ENSG00000087111	ENST00000543734	protein_coding	KNOWN	None	14937	1485	494	26880814	26898546	-1	None	None
11	TRIM51BP	ENSG00000204455	ENST00000525732	unprocessed_pseudogene	KNOWN	None	37145	None	None	89588121	89596061	1	SPRYD5P, SPRYD5P1	None
11	TRIM51BP	ENSG00000204455	ENST00000423506	unprocessed_pseudogene	KNOWN	None	37145	None	None	89586008	89596046	1	SPRYD5P, SPRYD5P1	None
3	SEC62	ENSG00000008952	ENST00000461933	processed_transcript	PUTATIVE	None	11846	None	None	169684423	169686311	1	TLOC1	Dtrp1, HTP1
3	SEC62	ENSG00000008952	ENST00000337002	protein_coding	KNOWN	CCDS3210	11846	1200	399	169684553	169716161	1	TLOC1	Dtrp1, HTP1
3	SEC62	ENSG00000008952	ENST00000460513	nonsense_mediated_decay	KNOWN	None	11846	258	85	169684589	169701041	1	TLOC1	Dtrp1, HTP1
3	SEC62	ENSG00000008952	ENST00000480708	protein_coding	KNOWN	CCDS3210	11846	1200	399	169684596	169711619	1	TLOC1	Dtrp1, HTP1
3	SEC62	ENSG00000008952	ENST00000487736	nonsense_mediated_decay	KNOWN	None	11846	144	47	169684602	169700645	1	TLOC1	Dtrp1, HTP1
3	SEC62	ENSG00000008952	ENST00000469515	nonsense_mediated_decay	KNOWN	None	11846	306	101	169684603	169706147	1	TLOC1	Dtrp1, HTP1
3	SEC62	ENSG00000008952	ENST00000481435	retained_intron	KNOWN	None	11846	None	None	169684614	169703673	1	TLOC1	Dtrp1, HTP1
3	SEC62	ENSG00000008952	ENST00000497277	retained_intron	KNOWN	None	11846	None	None	169693239	169700647	1	TLOC1	Dtrp1, HTP1
3	SEC62	ENSG00000008952	ENST00000469890	retained_intron	KNOWN	None	11846	None	None	169700657	169701727	1	TLOC1	Dtrp1, HTP1
3	SEC62	ENSG00000008952	ENST00000470355	processed_transcript	KNOWN	None	11846	None	None	169702917	169710509	1	TLOC1	Dtrp1, HTP1
14	None	ENSG00000258969	ENST00000553827	lincRNA	KNOWN	None	None	None	None	44464984	44853748	-1	None	None
1	TMEM240	ENSG00000205090	ENST00000378733	protein_coding	KNOWN	CCDS44040	25186	522	173	1470554	1475737	-1	C1orf70	None
1	TMEM240	ENSG00000205090	ENST00000425828	protein_coding	KNOWN	CCDS44040	25186	522	173	1470587	1475833	-1	C1orf70	None
2	None	ENSG00000251974	ENST00000516165	snoRNA	NOVEL	None	None	None	None	86591259	86591388	1	None	None
12	None	ENSG00000256204	ENST00000537998	lincRNA	KNOWN	None	None	None	None	131462107	131463313	1	None	None
2	None	ENSG00000236307	ENST00000446998	processed_pseudogene	KNOWN	None	None	None	None	112645491	112646318	1	None	None
1	None	ENSG00000230063	ENST00000446847	sense_intronic	KNOWN	None	None	None	None	212470790	212472921	1	None	None
12	ANO6	ENSG00000177119	ENST00000426898	processed_transcript	KNOWN	None	25240	None	None	45609770	45815000	1	TMEM16F	DKFZp313M0720
12	ANO6	ENSG00000177119	ENST00000425752	protein_coding	KNOWN	CCDS44865	25240	2790	929	45609803	45834187	1	TMEM16F	DKFZp313M0720
12	ANO6	ENSG00000177119	ENST00000423947	protein_coding	NOVEL	CCDS55819	25240	2796	931	45609868	45825565	1	TMEM16F	DKFZp313M0720
12	ANO6	ENSG00000177119	ENST00000550630	nonsense_mediated_decay	KNOWN	None	25240	138	45	45609903	45707295	1	TMEM16F	DKFZp313M0720
12	ANO6	ENSG00000177119	ENST00000320560	protein_coding	KNOWN	CCDS31782	25240	2733	910	45609903	45826134	1	TMEM16F	DKFZp313M0720
12	ANO6	ENSG00000177119	ENST00000441606	protein_coding	KNOWN	CCDS44866	25240	2679	892	45686466	45826134	1	TMEM16F	DKFZp313M0720
12	ANO6	ENSG00000177119	ENST00000551667	retained_intron	KNOWN	None	25240	None	None	45729332	45741291	1	TMEM16F	DKFZp313M0720
12	ANO6	ENSG00000177119	ENST00000435642	protein_coding	KNOWN	CCDS44865	25240	2790	929	45609876	45834187	1	TMEM16F	DKFZp313M0720
5	PCDHGC3	ENSG00000240184	ENST00000308177	protein_coding	KNOWN	CCDS4261	8716	2805	934	140855580	140892542	1	PCDH2	PC-43, PC43, PCDH-GAMMA-C3
15	C15orf40	ENSG00000169609	ENST00000514272	protein_coding	PUTATIVE	None	28443	258	85	83657193	83677368	-1	None	MGC29937
15	C15orf40	ENSG00000169609	ENST00000538348	protein_coding	KNOWN	CCDS53968	28443	450	149	83657715	83680359	-1	None	MGC29937
15	C15orf40	ENSG00000169609	ENST00000510873	protein_coding	PUTATIVE	None	28443	287	94	83657858	83680356	-1	None	MGC29937
15	C15orf40	ENSG00000169609	ENST00000512638	nonsense_mediated_decay	KNOWN	None	28443	110	35	83659313	83680301	-1	None	MGC29937
15	C15orf40	ENSG00000169609	ENST00000451195	protein_coding	KNOWN	CCDS53969	28443	504	167	83659371	83680359	-1	None	MGC29937
15	C15orf40	ENSG00000169609	ENST00000513601	protein_coding	KNOWN	CCDS32312	28443	462	153	83673390	83680367	-1	None	MGC29937
15	C15orf40	ENSG00000169609	ENST00000508990	protein_coding	PUTATIVE	None	28443	440	145	83673438	83680337	-1	None	MGC29937
15	C15orf40	ENSG00000169609	ENST00000563387	nonsense_mediated_decay	KNOWN	None	28443	104	33	83673619	83680295	-1	None	MGC29937
15	C15orf40	ENSG00000169609	ENST00000565712	protein_coding	PUTATIVE	None	28443	207	68	83674031	83680393	-1	None	MGC29937
15	C15orf40	ENSG00000169609	ENST00000505341	retained_intron	KNOWN	None	28443	None	None	83674050	83680346	-1	None	MGC29937
15	C15orf40	ENSG00000169609	ENST00000506912	retained_intron	KNOWN	None	28443	None	None	83676603	83680362	-1	None	MGC29937
15	C15orf40	ENSG00000169609	ENST00000565725	retained_intron	KNOWN	None	28443	None	None	83677157	83680391	-1	None	MGC29937
15	C15orf40	ENSG00000169609	ENST00000304177	protein_coding	KNOWN	None	28443	381	126	83673145	83680393	-1	None	MGC29937
2	RNU6-640P	ENSG00000200563	ENST00000363693	snRNA	KNOWN	None	47603	None	None	86742327	86742431	-1	None	None
14	None	ENSG00000257825	ENST00000548131	transcribed_processed_pseudogene	KNOWN	None	None	None	None	19364751	19364792	-1	None	None
2	SMYD1	ENSG00000115593	ENST00000419482	protein_coding	KNOWN	CCDS33240	20986	1473	490	88367299	88412906	1	None	BOP, ZMYND22, KMT3D
2	SMYD1	ENSG00000115593	ENST00000444564	protein_coding	NOVEL	None	20986	1434	477	88367344	88410373	1	None	BOP, ZMYND22, KMT3D
2	SMYD1	ENSG00000115593	ENST00000438570	protein_coding	PUTATIVE	None	20986	312	103	88367381	88412003	1	None	BOP, ZMYND22, KMT3D
2	SMYD1	ENSG00000115593	ENST00000468008	processed_transcript	KNOWN	None	20986	None	None	88382572	88390544	1	None	BOP, ZMYND22, KMT3D
1	None	ENSG00000222168	ENST00000410236	misc_RNA	NOVEL	None	None	None	None	59187951	59188044	1	None	None
8	RN7SL685P	ENSG00000242315	ENST00000476271	misc_RNA	KNOWN	None	46701	None	None	101970111	101970406	1	None	None
1	PEX19	ENSG00000162735	ENST00000368072	protein_coding	KNOWN	CCDS1201	9713	900	299	160246602	160254936	-1	PXF	HK33, D1S2223E, PMP1, PMPI, PXMP1
1	PEX19	ENSG00000162735	ENST00000472750	nonsense_mediated_decay	KNOWN	None	9713	123	40	160246657	160254944	-1	PXF	HK33, D1S2223E, PMP1, PMPI, PXMP1
1	PEX19	ENSG00000162735	ENST00000532508	processed_transcript	KNOWN	None	9713	None	None	160249086	160254886	-1	PXF	HK33, D1S2223E, PMP1, PMPI, PXMP1
1	PEX19	ENSG00000162735	ENST00000495624	protein_coding	PUTATIVE	None	9713	358	118	160249185	160251934	-1	PXF	HK33, D1S2223E, PMP1, PMPI, PXMP1
1	PEX19	ENSG00000162735	ENST00000462644	nonsense_mediated_decay	KNOWN	None	9713	501	166	160249274	160254013	-1	PXF	HK33, D1S2223E, PMP1, PMPI, PXMP1
1	PEX19	ENSG00000162735	ENST00000532643	nonsense_mediated_decay	KNOWN	None	9713	561	186	160249283	160254936	-1	PXF	HK33, D1S2223E, PMP1, PMPI, PXMP1
1	PEX19	ENSG00000162735	ENST00000392220	protein_coding	PUTATIVE	None	9713	705	234	160249866	160254021	-1	PXF	HK33, D1S2223E, PMP1, PMPI, PXMP1
1	PEX19	ENSG00000162735	ENST00000532516	retained_intron	KNOWN	None	9713	None	None	160249966	160252309	-1	PXF	HK33, D1S2223E, PMP1, PMPI, PXMP1
1	PEX19	ENSG00000162735	ENST00000533699	processed_transcript	KNOWN	None	9713	None	None	160251861	160256138	-1	PXF	HK33, D1S2223E, PMP1, PMPI, PXMP1
1	PEX19	ENSG00000162735	ENST00000533104	processed_transcript	KNOWN	None	9713	None	None	160251896	160254923	-1	PXF	HK33, D1S2223E, PMP1, PMPI, PXMP1
1	PEX19	ENSG00000162735	ENST00000524939	retained_intron	KNOWN	None	9713	None	None	160252108	160254931	-1	PXF	HK33, D1S2223E, PMP1, PMPI, PXMP1
1	PEX19	ENSG00000162735	ENST00000440949	protein_coding	KNOWN	None	9713	630	209	160248271	160254916	-1	PXF	HK33, D1S2223E, PMP1, PMPI, PXMP1
7	PPP1R9A	ENSG00000158528	ENST00000413325	protein_coding	KNOWN	None	14946	219	72	94536514	94539644	1	None	Neurabin-I, KIAA1222, FLJ20068
7	PPP1R9A	ENSG00000158528	ENST00000433360	protein_coding	NOVEL	CCDS55127	14946	4125	1374	94536949	94920577	1	None	Neurabin-I, KIAA1222, FLJ20068
7	PPP1R9A	ENSG00000158528	ENST00000424654	protein_coding	NOVEL	CCDS55128	14946	3762	1253	94536987	94919667	1	None	Neurabin-I, KIAA1222, FLJ20068
7	PPP1R9A	ENSG00000158528	ENST00000422324	protein_coding	KNOWN	None	14946	124	40	94537280	94539549	1	None	Neurabin-I, KIAA1222, FLJ20068
7	PPP1R9A	ENSG00000158528	ENST00000433881	protein_coding	KNOWN	CCDS34683	14946	3297	1098	94537591	94925714	1	None	Neurabin-I, KIAA1222, FLJ20068
7	PPP1R9A	ENSG00000158528	ENST00000340694	protein_coding	KNOWN	CCDS34683	14946	3297	1098	94536949	94925725	1	None	Neurabin-I, KIAA1222, FLJ20068
7	PPP1R9A	ENSG00000158528	ENST00000289495	protein_coding	KNOWN	CCDS55129	14946	3891	1296	94539210	94925727	1	None	Neurabin-I, KIAA1222, FLJ20068
7	PPP1R9A	ENSG00000158528	ENST00000456331	protein_coding	KNOWN	CCDS55128	14946	3762	1253	94539210	94925727	1	None	Neurabin-I, KIAA1222, FLJ20068
GL000192.1	None	ENSG00000238953	ENST00000459035	snRNA	NOVEL	None	None	None	None	91796	91912	1	None	None
12	None	ENSG00000257298	ENST00000552061	sense_intronic	KNOWN	None	None	None	None	50579363	50585146	-1	None	None
1	None	ENSG00000234915	ENST00000442146	antisense	KNOWN	None	None	None	None	212472837	212505055	-1	None	None
1	None	ENSG00000264081	ENST00000582637	miRNA	NOVEL	None	None	None	None	59230521	59230607	-1	None	None
8	None	ENSG00000252736	ENST00000516927	misc_RNA	NOVEL	None	None	None	None	101975163	101975271	-1	None	None
X	None	ENSG00000271322	ENST00000603879	processed_pseudogene	KNOWN	None	None	None	None	97603449	97603746	-1	None	None
2	None	ENSG00000228363	ENST00000597638	antisense	KNOWN	None	None	None	None	86789193	86844472	1	None	None
2	None	ENSG00000228363	ENST00000439077	antisense	KNOWN	None	None	None	None	86789198	86844564	1	None	None
2	None	ENSG00000228363	ENST00000426549	antisense	KNOWN	None	None	None	None	86831130	86845889	1	None	None
2	None	ENSG00000228363	ENST00000424788	antisense	KNOWN	None	None	None	None	86831413	86845178	1	None	None
2	SLC5A6	ENSG00000138074	ENST00000461757	retained_intron	KNOWN	None	11041	None	None	27422455	27425917	-1	None	SMVT
2	SLC5A6	ENSG00000138074	ENST00000310574	protein_coding	KNOWN	CCDS1740	11041	1908	635	27422455	27435154	-1	None	SMVT
2	SLC5A6	ENSG00000138074	ENST00000488743	retained_intron	KNOWN	None	11041	None	None	27422457	27435014	-1	None	SMVT
2	SLC5A6	ENSG00000138074	ENST00000408041	protein_coding	KNOWN	CCDS1740	11041	1908	635	27423304	27434620	-1	None	SMVT
2	SLC5A6	ENSG00000138074	ENST00000461319	processed_transcript	KNOWN	None	11041	None	None	27423970	27426171	-1	None	SMVT
2	SLC5A6	ENSG00000138074	ENST00000481751	retained_intron	KNOWN	None	11041	None	None	27424280	27425984	-1	None	SMVT
2	SLC5A6	ENSG00000138074	ENST00000492069	retained_intron	KNOWN	None	11041	None	None	27424580	27427540	-1	None	SMVT
2	SLC5A6	ENSG00000138074	ENST00000476319	retained_intron	KNOWN	None	11041	None	None	27424652	27427949	-1	None	SMVT
2	SLC5A6	ENSG00000138074	ENST00000464538	retained_intron	KNOWN	None	11041	None	None	27428003	27429187	-1	None	SMVT
2	SLC5A6	ENSG00000138074	ENST00000445802	nonsense_mediated_decay	KNOWN	None	11041	462	153	27428275	27434806	-1	None	SMVT
2	SLC5A6	ENSG00000138074	ENST00000412471	protein_coding	KNOWN	None	11041	579	192	27428894	27434898	-1	None	SMVT
2	SLC5A6	ENSG00000138074	ENST00000401463	protein_coding	KNOWN	None	11041	442	146	27429762	27434661	-1	None	SMVT
2	SLC5A6	ENSG00000138074	ENST00000432106	protein_coding	KNOWN	None	11041	399	132	27429805	27435818	-1	None	SMVT
2	SLC5A6	ENSG00000138074	ENST00000426119	protein_coding	KNOWN	None	11041	347	114	27430172	27434756	-1	None	SMVT
2	SLC5A6	ENSG00000138074	ENST00000414408	protein_coding	KNOWN	None	11041	236	77	27430283	27435130	-1	None	SMVT
2	SLC5A6	ENSG00000138074	ENST00000428518	protein_coding	KNOWN	None	11041	176	57	27430343	27435390	-1	None	SMVT
2	SLC5A6	ENSG00000138074	ENST00000430186	protein_coding	KNOWN	None	11041	116	37	27430403	27435645	-1	None	SMVT
2	SLC5A6	ENSG00000138074	ENST00000442731	protein_coding	KNOWN	None	11041	81	26	27430438	27435826	-1	None	SMVT
3	MIR4446	ENSG00000265253	ENST00000578505	miRNA	KNOWN	None	41700	None	None	113313723	113313789	1	None	hsa-mir-4446
1	OR10J8P	ENSG00000251686	ENST00000504659	unprocessed_pseudogene	KNOWN	None	19638	None	None	159335951	159336879	1	None	None
19	None	ENSG00000268802	ENST00000596234	lincRNA	KNOWN	None	None	None	None	54862991	54864894	-1	None	None
14	None	ENSG00000257672	ENST00000548164	processed_pseudogene	KNOWN	None	None	None	None	19390865	19391038	1	None	None
1	None	ENSG00000234807	ENST00000419531	lincRNA	KNOWN	None	None	None	None	59250832	59365266	1	None	None
1	None	ENSG00000234807	ENST00000544621	lincRNA	KNOWN	None	None	None	None	59250823	59365384	1	None	None
15	None	ENSG00000238166	ENST00000434914	processed_transcript	KNOWN	None	None	None	None	79044449	79045715	1	None	None
15	None	ENSG00000238166	ENST00000566323	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	79045456	79045650	1	None	None
HSCHR6_MHC_SSTO	OR2J3	ENSG00000233618	ENST00000418630	protein_coding	KNOWN	None	8261	936	311	29079695	29080630	1	None	OR6-6
1	None	ENSG00000225338	ENST00000416139	processed_pseudogene	KNOWN	None	None	None	None	212482393	212482860	-1	None	None
19	None	ENSG00000237955	ENST00000450173	processed_pseudogene	KNOWN	None	None	None	None	54891093	54891564	1	None	None
7	ZNF277	ENSG00000198839	ENST00000361822	protein_coding	KNOWN	CCDS5755	13070	1353	450	111846643	111983151	1	ZNF277P	NRIF4
7	ZNF277	ENSG00000198839	ENST00000361946	nonsense_mediated_decay	KNOWN	None	13070	153	50	111846750	111983149	1	ZNF277P	NRIF4
7	ZNF277	ENSG00000198839	ENST00000421043	protein_coding	PUTATIVE	None	13070	297	98	111846752	111929034	1	ZNF277P	NRIF4
7	ZNF277	ENSG00000198839	ENST00000457808	nonsense_mediated_decay	KNOWN	None	13070	324	107	111846752	111977875	1	ZNF277P	NRIF4
7	ZNF277	ENSG00000198839	ENST00000425229	protein_coding	NOVEL	None	13070	598	198	111846753	111976219	1	ZNF277P	NRIF4
7	ZNF277	ENSG00000198839	ENST00000450657	protein_coding	NOVEL	None	13070	873	290	111846756	111970529	1	ZNF277P	NRIF4
7	ZNF277	ENSG00000198839	ENST00000421864	protein_coding	PUTATIVE	None	13070	357	118	111977783	111983078	1	ZNF277P	NRIF4
2	PRKD3	ENSG00000115825	ENST00000379066	protein_coding	KNOWN	CCDS1789	9408	2673	890	37477645	37545037	-1	PRKCN	EPK2
2	PRKD3	ENSG00000115825	ENST00000469275	retained_intron	KNOWN	None	9408	None	None	37483805	37506533	-1	PRKCN	EPK2
2	PRKD3	ENSG00000115825	ENST00000452104	protein_coding	NOVEL	None	9408	555	184	37483841	37499566	-1	PRKCN	EPK2
2	PRKD3	ENSG00000115825	ENST00000443977	protein_coding	NOVEL	None	9408	518	171	37487499	37501747	-1	PRKCN	EPK2
2	PRKD3	ENSG00000115825	ENST00000494667	retained_intron	KNOWN	None	9408	None	None	37494708	37544166	-1	PRKCN	EPK2
2	PRKD3	ENSG00000115825	ENST00000475912	retained_intron	KNOWN	None	9408	None	None	37509449	37518105	-1	PRKCN	EPK2
2	PRKD3	ENSG00000115825	ENST00000443187	protein_coding	PUTATIVE	None	9408	543	180	37513375	37551951	-1	PRKCN	EPK2
2	PRKD3	ENSG00000115825	ENST00000464552	retained_intron	KNOWN	None	9408	None	None	37520131	37543531	-1	PRKCN	EPK2
2	PRKD3	ENSG00000115825	ENST00000477132	processed_transcript	KNOWN	None	9408	None	None	37543957	37551513	-1	PRKCN	EPK2
2	PRKD3	ENSG00000115825	ENST00000234179	protein_coding	KNOWN	CCDS1789	9408	2673	890	37477648	37544222	-1	PRKCN	EPK2
1	OR4F5	ENSG00000186092	ENST00000335137	protein_coding	KNOWN	CCDS30547	14825	918	305	69091	70008	1	None	None
2	None	ENSG00000221432	ENST00000408505	miRNA	NOVEL	None	None	None	None	222384284	222384377	-1	None	None
19	None	ENSG00000227407	ENST00000457113	antisense	KNOWN	None	None	None	None	54941832	54945878	-1	None	None
8	None	ENSG00000205989	ENST00000382575	unprocessed_pseudogene	KNOWN	None	None	None	None	7847937	7855043	-1	None	None
2	TMEM256P2	ENSG00000226726	ENST00000440241	processed_pseudogene	KNOWN	None	45088	None	None	222397388	222397728	1	None	None
1	SNORA16B	ENSG00000201544	ENST00000364674	snoRNA	KNOWN	None	32606	None	None	212526158	212526292	1	None	U98b
X	EEF1A1P15	ENSG00000213704	ENST00000395772	processed_pseudogene	KNOWN	None	3198	None	None	97644510	97645917	1	EEF1AL13	None
1	None	ENSG00000272226	ENST00000607372	lincRNA	KNOWN	None	None	None	None	59278480	59279014	-1	None	None
19	None	ENSG00000268496	ENST00000596631	sense_intronic	KNOWN	None	None	None	None	54945363	54945845	1	None	None
1	None	ENSG00000229832	ENST00000447949	antisense	KNOWN	None	None	None	None	212530760	212531695	1	None	None
2	RN7SL297P	ENSG00000240183	ENST00000483161	misc_RNA	KNOWN	None	46313	None	None	112687752	112688041	1	None	None
8	FAM90A11P	ENSG00000233115	ENST00000518378	unprocessed_pseudogene	KNOWN	None	32259	None	None	7869304	7874533	-1	FAM90A11	None
12	None	ENSG00000256151	ENST00000542980	lincRNA	KNOWN	None	None	None	None	131474683	131478521	-1	None	None
12	None	ENSG00000256151	ENST00000536673	lincRNA	KNOWN	None	None	None	None	131474706	131478512	-1	None	None
HSCHR6_MHC_QBL	HCG4	ENSG00000237905	ENST00000433759	unprocessed_pseudogene	KNOWN	None	21241	None	None	29756937	29757911	-1	HCG4P10	HCGIV-10, HCGIV.9
HSCHR6_MHC_SSTO	OR2J2	ENSG00000226000	ENST00000415857	protein_coding	KNOWN	None	8260	939	312	29141342	29142382	1	None	OR6-8, hs6M1-6, dJ80I19.4
20	KIF3B	ENSG00000101350	ENST00000375712	protein_coding	KNOWN	CCDS13200	6320	2244	747	30865467	30922814	1	None	KIAA0359, FLA8, KLP-11
20	KIF3B	ENSG00000101350	ENST00000418717	protein_coding	KNOWN	None	6320	1122	373	30898293	30919532	1	None	KIAA0359, FLA8, KLP-11
21	KRTAP12-2	ENSG00000221864	ENST00000360770	protein_coding	KNOWN	CCDS42965	20530	441	146	46086106	46086844	-1	None	KRTAP12.2, KAP12.2
1	None	ENSG00000231740	ENST00000424592	lincRNA	KNOWN	None	None	None	None	59304120	59316926	-1	None	None
19	None	ENSG00000269873	ENST00000597355	lincRNA	KNOWN	None	None	None	None	54949192	54949528	-1	None	None
2	None	ENSG00000230406	ENST00000414016	processed_pseudogene	KNOWN	None	None	None	None	222457161	222457581	1	None	None
2	None	ENSG00000230406	ENST00000417548	processed_pseudogene	KNOWN	None	None	None	None	222457164	222457547	1	None	None
2	None	ENSG00000225496	ENST00000427559	processed_pseudogene	KNOWN	None	None	None	None	112697879	112698613	-1	None	None
HG104_HG975_PATCH	FAM83H	ENSG00000261380	ENST00000565208	protein_coding	KNOWN	None	24797	3540	1179	144806103	144815971	-1	None	FLJ46072
HG104_HG975_PATCH	FAM83H	ENSG00000261380	ENST00000569458	nonsense_mediated_decay	KNOWN	None	24797	2720	905	144806104	144810810	-1	None	FLJ46072
1	None	ENSG00000224535	ENST00000439570	lincRNA	KNOWN	None	None	None	None	212640158	212641085	-1	None	None
8	None	ENSG00000248599	ENST00000514926	lincRNA	KNOWN	None	None	None	None	102064282	102088479	1	None	None
19	None	ENSG00000267838	ENST00000599382	lincRNA	KNOWN	None	None	None	None	54949847	54950362	-1	None	None
21	None	ENSG00000233754	ENST00000420273	lincRNA	KNOWN	None	None	None	None	44201184	44202343	-1	None	None
2	None	ENSG00000238259	ENST00000458411	processed_pseudogene	KNOWN	None	None	None	None	169088431	169088730	-1	None	None
17	CCDC47	ENSG00000108588	ENST00000225726	protein_coding	KNOWN	CCDS11643	24856	1452	483	61822610	61851135	-1	None	GK001
17	CCDC47	ENSG00000108588	ENST00000403162	protein_coding	KNOWN	CCDS11643	24856	1452	483	61823763	61850930	-1	None	GK001
17	CCDC47	ENSG00000108588	ENST00000582252	protein_coding	KNOWN	None	24856	1443	480	61829130	61850930	-1	None	GK001
17	CCDC47	ENSG00000108588	ENST00000582331	retained_intron	KNOWN	None	24856	None	None	61830140	61838897	-1	None	GK001
17	CCDC47	ENSG00000108588	ENST00000584112	retained_intron	KNOWN	None	24856	None	None	61843120	61850924	-1	None	GK001
17	CCDC47	ENSG00000108588	ENST00000580986	protein_coding	KNOWN	None	24856	57	18	61843479	61853711	-1	None	GK001
7	DFNA5	ENSG00000105928	ENST00000342947	protein_coding	KNOWN	CCDS5389	2810	1491	496	24737972	24797732	-1	None	ICERE-1
7	DFNA5	ENSG00000105928	ENST00000479636	retained_intron	KNOWN	None	2810	None	None	24737975	24745656	-1	None	ICERE-1
7	DFNA5	ENSG00000105928	ENST00000409970	protein_coding	PUTATIVE	CCDS47563	2810	999	332	24738000	24797094	-1	None	ICERE-1
7	DFNA5	ENSG00000105928	ENST00000409775	protein_coding	KNOWN	CCDS5389	2810	1491	496	24738614	24797162	-1	None	ICERE-1
7	DFNA5	ENSG00000105928	ENST00000430096	protein_coding	PUTATIVE	None	2810	168	55	24742046	24745845	-1	None	ICERE-1
7	DFNA5	ENSG00000105928	ENST00000415480	protein_coding	PUTATIVE	None	2810	467	154	24746898	24756935	-1	None	ICERE-1
7	DFNA5	ENSG00000105928	ENST00000446822	protein_coding	PUTATIVE	None	2810	578	191	24746899	24758715	-1	None	ICERE-1
7	DFNA5	ENSG00000105928	ENST00000469133	retained_intron	KNOWN	None	2810	None	None	24747655	24750206	-1	None	ICERE-1
7	DFNA5	ENSG00000105928	ENST00000411476	nonsense_mediated_decay	KNOWN	None	2810	651	216	24747854	24784353	-1	None	ICERE-1
7	DFNA5	ENSG00000105928	ENST00000559637	processed_transcript	KNOWN	None	2810	None	None	24749843	24764403	-1	None	ICERE-1
7	DFNA5	ENSG00000105928	ENST00000493723	retained_intron	KNOWN	None	2810	None	None	24756088	24789412	-1	None	ICERE-1
7	DFNA5	ENSG00000105928	ENST00000414428	protein_coding	PUTATIVE	None	2810	56	17	24758694	24797559	-1	None	ICERE-1
7	DFNA5	ENSG00000105928	ENST00000473990	retained_intron	KNOWN	None	2810	None	None	24782964	24789413	-1	None	ICERE-1
7	DFNA5	ENSG00000105928	ENST00000419307	protein_coding	KNOWN	CCDS47563	2810	999	332	24737974	24797639	-1	None	ICERE-1
7	DFNA5	ENSG00000105928	ENST00000545231	protein_coding	KNOWN	CCDS47563	2810	999	332	24737977	24809244	-1	None	ICERE-1
HSCHR6_MHC_QBL	HLA-P	ENSG00000260638	ENST00000413019	unprocessed_pseudogene	KNOWN	None	21196	None	None	29765389	29767393	1	C6orf101, HLA-90	dJ377H14.3
1	None	ENSG00000232453	ENST00000423408	lincRNA	KNOWN	None	None	None	None	59348540	59362337	-1	None	None
1	None	ENSG00000232453	ENST00000427292	lincRNA	KNOWN	None	None	None	None	59361517	59362375	-1	None	None
6	GMDS	ENSG00000112699	ENST00000476972	processed_transcript	KNOWN	None	4369	None	None	1624041	1624975	-1	None	GMD, SDR3E1
6	GMDS	ENSG00000112699	ENST00000467288	processed_transcript	KNOWN	None	4369	None	None	1624041	1625736	-1	None	GMD, SDR3E1
6	GMDS	ENSG00000112699	ENST00000486793	processed_transcript	KNOWN	None	4369	None	None	1624041	1626423	-1	None	GMD, SDR3E1
6	GMDS	ENSG00000112699	ENST00000530927	protein_coding	PUTATIVE	CCDS58994	4369	1029	342	1624041	2176225	-1	None	GMD, SDR3E1
6	GMDS	ENSG00000112699	ENST00000380815	protein_coding	KNOWN	CCDS4474	4369	1119	372	1624041	2245926	-1	None	GMD, SDR3E1
6	GMDS	ENSG00000112699	ENST00000380805	retained_intron	KNOWN	None	4369	None	None	1624042	1931233	-1	None	GMD, SDR3E1
6	GMDS	ENSG00000112699	ENST00000533279	processed_transcript	KNOWN	None	4369	None	None	1679406	1726711	-1	None	GMD, SDR3E1
6	GMDS	ENSG00000112699	ENST00000531690	processed_transcript	KNOWN	None	4369	None	None	1717829	1961024	-1	None	GMD, SDR3E1
6	GMDS	ENSG00000112699	ENST00000530459	processed_transcript	KNOWN	None	4369	None	None	1930341	2043667	-1	None	GMD, SDR3E1
6	GMDS	ENSG00000112699	ENST00000530075	retained_intron	KNOWN	None	4369	None	None	1959940	1961143	-1	None	GMD, SDR3E1
6	TDRD6	ENSG00000180113	ENST00000316081	protein_coding	KNOWN	CCDS34470	21339	6291	2096	46655866	46670150	1	None	NY-CO-45, bA446F17.4, CT41.2, SPATA36
6	TDRD6	ENSG00000180113	ENST00000450697	protein_coding	KNOWN	None	21339	526	174	46661709	46669695	1	None	NY-CO-45, bA446F17.4, CT41.2, SPATA36
6	TDRD6	ENSG00000180113	ENST00000544460	protein_coding	KNOWN	CCDS55017	21339	6201	2066	46655612	46672056	1	None	NY-CO-45, bA446F17.4, CT41.2, SPATA36
8	None	ENSG00000253395	ENST00000524369	lincRNA	KNOWN	None	None	None	None	102134373	102138386	-1	None	None
2	None	ENSG00000232277	ENST00000447549	processed_pseudogene	KNOWN	None	None	None	None	112709721	112710248	-1	None	None
4	UGT2A1	ENSG00000270386	ENST00000514019	protein_coding	PUTATIVE	CCDS58902	12542	2082	693	70454912	70518967	-1	None	None
21	KRTAP12-1	ENSG00000187175	ENST00000391617	protein_coding	KNOWN	CCDS42966	20529	291	96	46101491	46102078	-1	None	KRTAP12.1, KAP12.1
2	RN7SL95P	ENSG00000239230	ENST00000462985	misc_RNA	KNOWN	None	46111	None	None	169297416	169297715	-1	None	None
HG185_PATCH	NT5C3B	ENSG00000260753	ENST00000566412	retained_intron	KNOWN	None	28300	None	None	39981433	39988740	-1	NT5C3L	MGC20781
HG185_PATCH	NT5C3B	ENSG00000260753	ENST00000568367	retained_intron	KNOWN	None	28300	None	None	39981433	39992454	-1	NT5C3L	MGC20781
HG185_PATCH	NT5C3B	ENSG00000260753	ENST00000562460	retained_intron	KNOWN	None	28300	None	None	39981433	39992510	-1	NT5C3L	MGC20781
HG185_PATCH	NT5C3B	ENSG00000260753	ENST00000563359	nonsense_mediated_decay	KNOWN	None	28300	276	91	39981443	39992454	-1	NT5C3L	MGC20781
HG185_PATCH	NT5C3B	ENSG00000260753	ENST00000565508	protein_coding	NOVEL	None	28300	603	200	39981452	39992512	-1	NT5C3L	MGC20781
HG185_PATCH	NT5C3B	ENSG00000260753	ENST00000564463	retained_intron	KNOWN	None	28300	None	None	39981479	39992480	-1	NT5C3L	MGC20781
HG185_PATCH	NT5C3B	ENSG00000260753	ENST00000567084	protein_coding	NOVEL	None	28300	1005	334	39981487	39992454	-1	NT5C3L	MGC20781
HG185_PATCH	NT5C3B	ENSG00000260753	ENST00000562554	retained_intron	KNOWN	None	28300	None	None	39981490	39992449	-1	NT5C3L	MGC20781
HG185_PATCH	NT5C3B	ENSG00000260753	ENST00000569139	protein_coding	NOVEL	None	28300	903	300	39981773	39992515	-1	NT5C3L	MGC20781
HG185_PATCH	NT5C3B	ENSG00000260753	ENST00000566226	protein_coding	NOVEL	None	28300	682	226	39981906	39992493	-1	NT5C3L	MGC20781
HG185_PATCH	NT5C3B	ENSG00000260753	ENST00000564142	retained_intron	KNOWN	None	28300	None	None	39983678	39992479	-1	NT5C3L	MGC20781
HG185_PATCH	NT5C3B	ENSG00000260753	ENST00000564002	nonsense_mediated_decay	KNOWN	None	28300	225	74	39983678	39992496	-1	NT5C3L	MGC20781
HG185_PATCH	NT5C3B	ENSG00000260753	ENST00000563411	retained_intron	KNOWN	None	28300	None	None	39984753	39987132	-1	NT5C3L	MGC20781
HG185_PATCH	NT5C3B	ENSG00000260753	ENST00000561597	retained_intron	KNOWN	None	28300	None	None	39985042	39992475	-1	NT5C3L	MGC20781
HG185_PATCH	NT5C3B	ENSG00000260753	ENST00000567013	retained_intron	KNOWN	None	28300	None	None	39985057	39988918	-1	NT5C3L	MGC20781
HG185_PATCH	NT5C3B	ENSG00000260753	ENST00000569519	nonsense_mediated_decay	KNOWN	None	28300	174	57	39985082	39992498	-1	NT5C3L	MGC20781
HG185_PATCH	NT5C3B	ENSG00000260753	ENST00000566913	retained_intron	KNOWN	None	28300	None	None	39985157	39992455	-1	NT5C3L	MGC20781
HG185_PATCH	NT5C3B	ENSG00000260753	ENST00000563216	retained_intron	KNOWN	None	28300	None	None	39991334	39991750	-1	NT5C3L	MGC20781
1	None	ENSG00000228067	ENST00000423842	lincRNA	KNOWN	None	None	None	None	212719036	212729407	1	None	None
HSCHR6_MHC_SSTO	OR14J1	ENSG00000234195	ENST00000421489	protein_coding	KNOWN	None	13971	966	321	29274499	29275615	1	OR5U1	hs6M1-28
2	RN7SL813P	ENSG00000241074	ENST00000489529	misc_RNA	KNOWN	None	46829	None	None	169307834	169308136	1	None	None
2	None	ENSG00000252453	ENST00000516644	miRNA	NOVEL	None	None	None	None	86813263	86813353	1	None	None
19	LENG8-AS1	ENSG00000226696	ENST00000429922	antisense	KNOWN	None	40705	None	None	54955991	54960192	-1	None	None
19	LENG8-AS1	ENSG00000226696	ENST00000416022	antisense	KNOWN	None	40705	None	None	54956214	54959780	-1	None	None
19	LENG8-AS1	ENSG00000226696	ENST00000448978	antisense	KNOWN	None	40705	None	None	54959343	54960223	-1	None	None
17	POLG2	ENSG00000256525	ENST00000539111	protein_coding	KNOWN	CCDS32706	9180	1458	485	62473902	62493154	-1	None	MTPOLB, HP55
17	POLG2	ENSG00000256525	ENST00000581355	protein_coding	PUTATIVE	None	9180	456	151	62473904	62488837	-1	None	MTPOLB, HP55
17	POLG2	ENSG00000256525	ENST00000582501	processed_transcript	KNOWN	None	9180	None	None	62474081	62483591	-1	None	MTPOLB, HP55
17	POLG2	ENSG00000256525	ENST00000577506	processed_transcript	KNOWN	None	9180	None	None	62476406	62487086	-1	None	MTPOLB, HP55
17	POLG2	ENSG00000256525	ENST00000580490	processed_transcript	KNOWN	None	9180	None	None	62476465	62480347	-1	None	MTPOLB, HP55
17	POLG2	ENSG00000256525	ENST00000585104	processed_transcript	KNOWN	None	9180	None	None	62477441	62481911	-1	None	MTPOLB, HP55
17	POLG2	ENSG00000256525	ENST00000585141	retained_intron	KNOWN	None	9180	None	None	62481275	62493137	-1	None	MTPOLB, HP55
17	POLG2	ENSG00000256525	ENST00000578687	processed_transcript	KNOWN	None	9180	None	None	62483106	62489027	-1	None	MTPOLB, HP55
17	POLG2	ENSG00000256525	ENST00000580893	processed_transcript	KNOWN	None	9180	None	None	62486586	62489138	-1	None	MTPOLB, HP55
17	POLG2	ENSG00000256525	ENST00000578997	nonsense_mediated_decay	KNOWN	None	9180	246	81	62486979	62492873	-1	None	MTPOLB, HP55
21	None	ENSG00000225218	ENST00000431150	lincRNA	KNOWN	None	None	None	None	44251150	44256587	-1	None	None
2	MIR4774	ENSG00000265694	ENST00000583305	miRNA	KNOWN	None	41873	None	None	169439453	169439528	1	None	hsa-mir-4774
9	None	ENSG00000227449	ENST00000377614	processed_transcript	KNOWN	None	None	None	None	46687462	46746500	1	None	None
9	None	ENSG00000227449	ENST00000452826	processed_transcript	KNOWN	None	None	None	None	46687818	46745686	1	None	None
9	None	ENSG00000227449	ENST00000451282	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	46744177	46745556	1	None	None
X	None	ENSG00000231270	ENST00000443421	processed_pseudogene	KNOWN	None	None	None	None	118072116	118073097	1	None	None
21	KRTAP10-12	ENSG00000189169	ENST00000400365	protein_coding	KNOWN	CCDS42967	20533	738	245	46117087	46117959	1	KRTAP18-12	KRTAP18.12, KAP10.12
2	RNU6-766P	ENSG00000199348	ENST00000362478	snRNA	KNOWN	None	47729	None	None	169462900	169463006	-1	None	None
20	None	ENSG00000234900	ENST00000418690	lincRNA	KNOWN	None	None	None	None	10733926	10745934	-1	None	None
1	None	ENSG00000237683	ENST00000423372	protein_coding	KNOWN	None	None	780	259	134901	139379	-1	None	None
3	COL6A4P2	ENSG00000228252	ENST00000504443	unitary_pseudogene	KNOWN	None	38501	None	None	129931666	129992029	1	None	COL6A4
3	COL6A4P2	ENSG00000228252	ENST00000507516	processed_transcript	KNOWN	None	38501	None	None	129933073	129964686	1	None	COL6A4
3	COL6A4P2	ENSG00000228252	ENST00000542114	processed_transcript	KNOWN	None	38501	None	None	129963304	129969881	1	None	COL6A4
3	COL6A4P2	ENSG00000228252	ENST00000509090	processed_transcript	KNOWN	None	38501	None	None	129964291	129967295	1	None	COL6A4
3	COL6A4P2	ENSG00000228252	ENST00000430317	processed_transcript	KNOWN	None	38501	None	None	129983285	129986284	1	None	COL6A4
3	COL6A4P2	ENSG00000228252	ENST00000509855	processed_transcript	PUTATIVE	None	38501	None	None	129992144	129992649	1	None	COL6A4
2	None	ENSG00000234446	ENST00000453706	lincRNA	KNOWN	None	None	None	None	222502263	222506533	1	None	None
1	PHBP3	ENSG00000228121	ENST00000412562	processed_pseudogene	KNOWN	None	8915	None	None	59465348	59466166	1	None	None
9	MUSK	ENSG00000030304	ENST00000189978	protein_coding	PUTATIVE	None	7525	2610	869	113431051	113563278	1	None	None
9	MUSK	ENSG00000030304	ENST00000416899	protein_coding	NOVEL	None	7525	2586	861	113431059	113563859	1	None	None
9	MUSK	ENSG00000030304	ENST00000374439	protein_coding	KNOWN	None	7525	351	116	113449497	113468468	1	None	None
9	MUSK	ENSG00000030304	ENST00000374438	protein_coding	KNOWN	None	7525	570	189	113537627	113550381	1	None	None
9	MUSK	ENSG00000030304	ENST00000374448	protein_coding	KNOWN	CCDS48005	7525	2610	869	113431051	113563278	1	None	None
9	MUSK	ENSG00000030304	ENST00000374440	protein_coding	KNOWN	None	7525	351	116	113431051	113468432	1	None	None
2	ANAPC1P1	ENSG00000233673	ENST00000426186	unprocessed_pseudogene	KNOWN	None	44150	None	None	87098424	87149816	1	None	None
6	SNRNP48	ENSG00000168566	ENST00000342415	protein_coding	KNOWN	CCDS4502	21368	1020	339	7590432	7612200	1	C6orf151	FLJ32234, dJ512B11.2, dJ336K20B.1
6	SNRNP48	ENSG00000168566	ENST00000496946	retained_intron	KNOWN	None	21368	None	None	7599906	7609439	1	C6orf151	FLJ32234, dJ512B11.2, dJ336K20B.1
1	None	ENSG00000260805	ENST00000564287	lincRNA	KNOWN	None	None	None	None	212731175	212733073	1	None	None
2	None	ENSG00000233868	ENST00000417147	processed_pseudogene	KNOWN	None	None	None	None	222808942	222809331	1	None	None
10	CCDC6	ENSG00000108091	ENST00000263102	protein_coding	KNOWN	CCDS7257	18782	1425	474	61548521	61666414	-1	TST1, D10S170	PTC, TPC, H4
10	CCDC6	ENSG00000108091	ENST00000491922	retained_intron	KNOWN	None	18782	None	None	61551510	61565334	-1	TST1, D10S170	PTC, TPC, H4
10	CCDC6	ENSG00000108091	ENST00000518638	retained_intron	KNOWN	None	18782	None	None	61566202	61572486	-1	TST1, D10S170	PTC, TPC, H4
HSCHR6_MHC_SSTO	OR5V1	ENSG00000227137	ENST00000421859	protein_coding	KNOWN	None	13972	966	321	29323121	29399418	-1	None	hs6M1-21
HSCHR6_MHC_SSTO	OR5V1	ENSG00000227137	ENST00000418692	protein_coding	KNOWN	None	13972	966	321	29323121	29374006	-1	None	hs6M1-21
HSCHR6_MHC_SSTO	OR5V1	ENSG00000227137	ENST00000548546	protein_coding	KNOWN	None	13972	966	321	29323121	29324168	-1	None	hs6M1-21
1	None	ENSG00000230812	ENST00000447329	lincRNA	KNOWN	None	None	None	None	59486059	59498735	1	None	None
1	None	ENSG00000230812	ENST00000438195	lincRNA	KNOWN	None	None	None	None	59486260	59510286	1	None	None
1	None	ENSG00000230812	ENST00000424308	lincRNA	KNOWN	None	None	None	None	59486271	59488692	1	None	None
2	None	ENSG00000238951	ENST00000459403	snoRNA	NOVEL	None	None	None	None	113028848	113028944	-1	None	None
1	OR10J9P	ENSG00000249197	ENST00000511932	unprocessed_pseudogene	KNOWN	None	19639	None	None	159375213	159376199	-1	None	None
11	CXCR5	ENSG00000160683	ENST00000292174	protein_coding	KNOWN	CCDS8402	1060	1119	372	118754475	118768508	1	BLR1	MDR15, CD185
22	SNRPD3	ENSG00000100028	ENST00000215829	protein_coding	KNOWN	CCDS13828	11160	381	126	24951471	24968740	1	None	SMD3, Sm-D3
22	SNRPD3	ENSG00000100028	ENST00000468770	retained_intron	KNOWN	None	11160	None	None	24951926	24954054	1	None	SMD3, Sm-D3
22	SNRPD3	ENSG00000100028	ENST00000402849	protein_coding	KNOWN	None	11160	363	120	24951975	24978020	1	None	SMD3, Sm-D3
22	SNRPD3	ENSG00000100028	ENST00000404603	nonsense_mediated_decay	KNOWN	CCDS13828	11160	381	126	24951977	25005947	1	None	SMD3, Sm-D3
22	SNRPD3	ENSG00000100028	ENST00000439775	nonsense_mediated_decay	KNOWN	None	11160	189	62	24952000	25005117	1	None	SMD3, Sm-D3
2	None	ENSG00000235258	ENST00000436819	processed_pseudogene	KNOWN	None	None	None	None	113043634	113043999	-1	None	None
1	SSU72	ENSG00000160075	ENST00000291386	protein_coding	KNOWN	CCDS32	25016	585	194	1477053	1510249	-1	None	HSPC182
1	SSU72	ENSG00000160075	ENST00000378726	retained_intron	KNOWN	None	25016	None	None	1477054	1481867	-1	None	HSPC182
1	SSU72	ENSG00000160075	ENST00000378725	retained_intron	KNOWN	None	25016	None	None	1480018	1509967	-1	None	HSPC182
1	SSU72	ENSG00000160075	ENST00000359060	protein_coding	KNOWN	None	25016	462	153	1497725	1509964	-1	None	HSPC182
HSCHR6_MHC_QBL	RPL7AP7	ENSG00000233113	ENST00000427056	processed_pseudogene	KNOWN	None	21395	None	None	29768168	29768964	-1	None	RPL7B, dJ377H14.2
HSCHR6_MHC_QBL	RPL7AP7	ENSG00000233113	ENST00000552986	pseudogene	KNOWN	None	21395	None	None	29768168	29768964	-1	None	RPL7B, dJ377H14.2
17	SLC47A1	ENSG00000142494	ENST00000584348	processed_transcript	KNOWN	None	25588	None	None	19398698	19458622	1	None	FLJ10847, MATE1
17	SLC47A1	ENSG00000142494	ENST00000571335	protein_coding	NOVEL	None	25588	951	316	19436775	19480910	1	None	FLJ10847, MATE1
17	SLC47A1	ENSG00000142494	ENST00000436810	protein_coding	NOVEL	None	25588	1332	443	19437141	19480924	1	None	FLJ10847, MATE1
17	SLC47A1	ENSG00000142494	ENST00000270570	protein_coding	KNOWN	CCDS11209	25588	1713	570	19437167	19482347	1	None	FLJ10847, MATE1
17	SLC47A1	ENSG00000142494	ENST00000574596	retained_intron	KNOWN	None	25588	None	None	19437173	19438927	1	None	FLJ10847, MATE1
17	SLC47A1	ENSG00000142494	ENST00000576095	processed_transcript	KNOWN	None	25588	None	None	19437189	19451417	1	None	FLJ10847, MATE1
17	SLC47A1	ENSG00000142494	ENST00000575023	protein_coding	NOVEL	None	25588	807	268	19437189	19482219	1	None	FLJ10847, MATE1
17	SLC47A1	ENSG00000142494	ENST00000497548	retained_intron	KNOWN	None	25588	None	None	19437191	19482219	1	None	FLJ10847, MATE1
17	SLC47A1	ENSG00000142494	ENST00000395585	protein_coding	KNOWN	None	25588	1761	586	19437193	19482219	1	None	FLJ10847, MATE1
17	SLC47A1	ENSG00000142494	ENST00000495425	retained_intron	KNOWN	None	25588	None	None	19458822	19480953	1	None	FLJ10847, MATE1
17	SLC47A1	ENSG00000142494	ENST00000575377	retained_intron	KNOWN	None	25588	None	None	19458886	19481250	1	None	FLJ10847, MATE1
17	SLC47A1	ENSG00000142494	ENST00000573009	retained_intron	KNOWN	None	25588	None	None	19459145	19481142	1	None	FLJ10847, MATE1
17	SLC47A1	ENSG00000142494	ENST00000575362	processed_transcript	KNOWN	None	25588	None	None	19470452	19471397	1	None	FLJ10847, MATE1
17	SLC47A1	ENSG00000142494	ENST00000581558	protein_coding	PUTATIVE	None	25588	298	98	19476110	19482217	1	None	FLJ10847, MATE1
17	SLC47A1	ENSG00000142494	ENST00000457293	protein_coding	KNOWN	None	25588	1761	586	19437167	19481427	1	None	FLJ10847, MATE1
17	SLC47A1	ENSG00000142494	ENST00000542886	protein_coding	KNOWN	None	25588	735	244	19437167	19463565	1	None	FLJ10847, MATE1
1	NBPF5P	ENSG00000243967	ENST00000357046	processed_transcript	KNOWN	None	24491	None	None	108918460	108953436	1	NBPF5	None
1	NBPF5P	ENSG00000243967	ENST00000545941	processed_transcript	KNOWN	None	24491	None	None	108918460	108953429	1	NBPF5	None
12	None	ENSG00000256810	ENST00000535370	lincRNA	KNOWN	None	None	None	None	131515115	131520032	-1	None	None
1	RN7SL512P	ENSG00000264590	ENST00000578962	misc_RNA	KNOWN	None	46528	None	None	212789050	212789295	-1	None	None
5	None	ENSG00000250145	ENST00000512162	processed_pseudogene	KNOWN	None	None	None	None	105878767	105880031	-1	None	None
1	OR4F29	ENSG00000235249	ENST00000426406	protein_coding	KNOWN	CCDS41220	31275	939	312	367640	368634	1	None	None
7	ANKMY2	ENSG00000106524	ENST00000306999	protein_coding	KNOWN	CCDS5361	25370	1326	441	16639401	16685442	-1	None	DKFZP564O043, ZMYND20
7	ANKMY2	ENSG00000106524	ENST00000447802	nonsense_mediated_decay	KNOWN	None	25370	1026	341	16639407	16685380	-1	None	DKFZP564O043, ZMYND20
7	ANKMY2	ENSG00000106524	ENST00000453623	nonsense_mediated_decay	KNOWN	None	25370	210	69	16664667	16685287	-1	None	DKFZP564O043, ZMYND20
7	ANKMY2	ENSG00000106524	ENST00000421746	nonsense_mediated_decay	KNOWN	None	25370	270	89	16666716	16685441	-1	None	DKFZP564O043, ZMYND20
1	None	ENSG00000235862	ENST00000427949	antisense	KNOWN	None	None	None	None	212797626	212800113	-1	None	None
1	None	ENSG00000241042	ENST00000422198	lincRNA	KNOWN	None	None	None	None	59520069	59521721	-1	None	None
2	HSPA9P1	ENSG00000226666	ENST00000432228	processed_pseudogene	KNOWN	None	24915	None	None	222826456	222828484	1	HSPA9BP, HSPA9P	None
HSCHR6_MHC_SSTO	OR12D3	ENSG00000250364	ENST00000502578	protein_coding	KNOWN	None	13963	951	316	29340988	29417550	-1	None	hs6M1-27
HSCHR6_MHC_SSTO	OR12D3	ENSG00000250364	ENST00000551240	protein_coding	KNOWN	None	13963	951	316	29340988	29342856	-1	None	hs6M1-27
17	LSM12	ENSG00000161654	ENST00000591247	protein_coding	KNOWN	CCDS11475	26407	588	195	42112003	42144987	-1	None	FLJ30656
17	LSM12	ENSG00000161654	ENST00000590563	retained_intron	KNOWN	None	26407	None	None	42113431	42117708	-1	None	FLJ30656
17	LSM12	ENSG00000161654	ENST00000585388	protein_coding	PUTATIVE	None	26407	693	230	42113535	42144027	-1	None	FLJ30656
17	LSM12	ENSG00000161654	ENST00000293406	protein_coding	KNOWN	CCDS11475	26407	588	195	42112004	42144103	-1	None	FLJ30656
1	None	ENSG00000235215	ENST00000451090	lincRNA	KNOWN	None	None	None	None	59521671	59543788	-1	None	None
14	ARHGAP42P5	ENSG00000258233	ENST00000548856	processed_pseudogene	KNOWN	None	43942	None	None	19400329	19403264	-1	None	None
1	None	ENSG00000226036	ENST00000456479	processed_pseudogene	KNOWN	None	None	None	None	212820638	212821097	1	None	None
1	None	ENSG00000224943	ENST00000412932	lincRNA	KNOWN	None	None	None	None	159436111	159453166	1	None	None
1	None	ENSG00000237352	ENST00000449812	lincRNA	KNOWN	None	None	None	None	59522315	59553867	1	None	None
20	None	ENSG00000232900	ENST00000448859	processed_transcript	KNOWN	None	None	None	None	10855981	10889920	-1	None	None
20	SOGA1	ENSG00000149639	ENST00000237536	protein_coding	NOVEL	CCDS54459	16111	4986	1661	35405845	35492089	-1	C20orf117, KIAA0889	dJ132F21.1, FLJ44670, SOGA
20	SOGA1	ENSG00000149639	ENST00000465671	nonsense_mediated_decay	KNOWN	None	16111	3826	1274	35412185	35444684	-1	C20orf117, KIAA0889	dJ132F21.1, FLJ44670, SOGA
20	SOGA1	ENSG00000149639	ENST00000463491	retained_intron	KNOWN	None	16111	None	None	35457000	35467805	-1	C20orf117, KIAA0889	dJ132F21.1, FLJ44670, SOGA
20	SOGA1	ENSG00000149639	ENST00000279034	protein_coding	KNOWN	CCDS46598	16111	3051	1016	35405845	35488276	-1	C20orf117, KIAA0889	dJ132F21.1, FLJ44670, SOGA
20	SOGA1	ENSG00000149639	ENST00000357779	protein_coding	KNOWN	None	16111	4272	1423	35414888	35488276	-1	C20orf117, KIAA0889	dJ132F21.1, FLJ44670, SOGA
20	SOGA1	ENSG00000149639	ENST00000456801	protein_coding	KNOWN	None	16111	3795	1264	35412185	35444684	-1	C20orf117, KIAA0889	dJ132F21.1, FLJ44670, SOGA
1	None	ENSG00000231100	ENST00000435442	unprocessed_pseudogene	KNOWN	None	None	None	None	159527158	159527990	1	None	None
1	None	ENSG00000237980	ENST00000446962	lincRNA	KNOWN	None	None	None	None	212827341	212838776	-1	None	None
1	None	ENSG00000224609	ENST00000425914	lincRNA	KNOWN	None	None	None	None	59597608	59612547	-1	None	None
1	None	ENSG00000224609	ENST00000585367	lincRNA	KNOWN	None	None	None	None	59598048	59612506	-1	None	None
1	None	ENSG00000224609	ENST00000592607	lincRNA	KNOWN	None	None	None	None	59598048	59612506	-1	None	None
1	None	ENSG00000224609	ENST00000436225	lincRNA	KNOWN	None	None	None	None	59598186	59664293	-1	None	None
1	None	ENSG00000224609	ENST00000587839	retained_intron	KNOWN	None	None	None	None	59598379	59612499	-1	None	None
21	UBE2G2	ENSG00000184787	ENST00000481546	retained_intron	KNOWN	None	12483	None	None	46188955	46195351	-1	None	UBC7
21	UBE2G2	ENSG00000184787	ENST00000345496	protein_coding	KNOWN	CCDS13714	12483	498	165	46188955	46221934	-1	None	UBC7
21	UBE2G2	ENSG00000184787	ENST00000497630	processed_transcript	KNOWN	None	12483	None	None	46190846	46221734	-1	None	UBC7
21	UBE2G2	ENSG00000184787	ENST00000477954	processed_transcript	KNOWN	None	12483	None	None	46190887	46221694	-1	None	UBC7
21	UBE2G2	ENSG00000184787	ENST00000491513	nonsense_mediated_decay	KNOWN	None	12483	147	48	46191194	46221738	-1	None	UBC7
21	UBE2G2	ENSG00000184787	ENST00000330942	protein_coding	PUTATIVE	CCDS33586	12483	414	137	46191210	46221689	-1	None	UBC7
21	UBE2G2	ENSG00000184787	ENST00000478200	nonsense_mediated_decay	KNOWN	None	12483	300	99	46193463	46221741	-1	None	UBC7
21	UBE2G2	ENSG00000184787	ENST00000497664	processed_transcript	KNOWN	None	12483	None	None	46194446	46221719	-1	None	UBC7
21	UBE2G2	ENSG00000184787	ENST00000462569	retained_intron	KNOWN	None	12483	None	None	46196749	46221716	-1	None	UBC7
21	UBE2G2	ENSG00000184787	ENST00000490450	processed_transcript	PUTATIVE	None	12483	None	None	46197169	46221683	-1	None	UBC7
21	UBE2G2	ENSG00000184787	ENST00000496395	processed_transcript	KNOWN	None	12483	None	None	46197292	46221659	-1	None	UBC7
21	UBE2G2	ENSG00000184787	ENST00000490091	retained_intron	KNOWN	None	12483	None	None	46219905	46221723	-1	None	UBC7
2	None	ENSG00000248341	ENST00000502881	processed_transcript	KNOWN	None	None	None	None	113089719	113091836	1	None	None
2	None	ENSG00000248341	ENST00000607612	processed_transcript	KNOWN	None	None	None	None	113091179	113091836	1	None	None
5	None	ENSG00000250694	ENST00000507526	lincRNA	PUTATIVE	None	None	None	None	24352418	24353552	-1	None	None
9	None	ENSG00000268615	ENST00000599815	lincRNA	KNOWN	None	None	None	None	132090540	132090680	1	None	None
7	ZKSCAN5	ENSG00000196652	ENST00000326775	protein_coding	KNOWN	CCDS5667	12867	2520	839	99102274	99131407	1	ZFP95	ZNF914, ZSCAN37
7	ZKSCAN5	ENSG00000196652	ENST00000451158	protein_coding	KNOWN	CCDS5667	12867	2520	839	99102298	99130302	1	ZFP95	ZNF914, ZSCAN37
7	ZKSCAN5	ENSG00000196652	ENST00000394170	protein_coding	KNOWN	CCDS5667	12867	2520	839	99102573	99131445	1	ZFP95	ZNF914, ZSCAN37
7	ZKSCAN5	ENSG00000196652	ENST00000454175	nonsense_mediated_decay	KNOWN	None	12867	669	222	99102877	99132323	1	ZFP95	ZNF914, ZSCAN37
2	CCDC138	ENSG00000163006	ENST00000412964	protein_coding	KNOWN	None	26531	1734	577	109403213	109493034	1	None	FLJ32745
2	CCDC138	ENSG00000163006	ENST00000409529	nonsense_mediated_decay	KNOWN	None	26531	315	104	109403217	109493032	1	None	FLJ32745
2	CCDC138	ENSG00000163006	ENST00000295124	protein_coding	KNOWN	CCDS2080	26531	1998	665	109403219	109493034	1	None	FLJ32745
2	CCDC138	ENSG00000163006	ENST00000470608	processed_transcript	KNOWN	None	26531	None	None	109403229	109411126	1	None	FLJ32745
2	CCDC138	ENSG00000163006	ENST00000447782	nonsense_mediated_decay	KNOWN	None	26531	138	45	109403244	109411168	1	None	FLJ32745
2	CCDC138	ENSG00000163006	ENST00000456512	protein_coding	NOVEL	None	26531	1056	351	109408172	109463236	1	None	FLJ32745
12	None	ENSG00000204603	ENST00000376678	lincRNA	KNOWN	None	None	None	None	131649556	131697476	1	None	None
12	None	ENSG00000204603	ENST00000536191	lincRNA	KNOWN	None	None	None	None	131691752	131694060	1	None	None
1	OR10AE1P	ENSG00000271890	ENST00000606962	unprocessed_pseudogene	KNOWN	None	14990	None	None	159551410	159552438	-1	OR10AE2P	None
5	None	ENSG00000251294	ENST00000510391	antisense	KNOWN	None	None	None	None	24554127	24613331	1	None	None
1	OR10J6P	ENSG00000158731	ENST00000289731	unprocessed_pseudogene	KNOWN	None	14994	None	None	159568088	159569017	1	OR10J6	None
19	None	ENSG00000235681	ENST00000445491	processed_pseudogene	KNOWN	None	None	None	None	54958008	54958225	1	None	None
1	RNU6-423P	ENSG00000207491	ENST00000384760	snRNA	KNOWN	None	47386	None	None	212865606	212865709	1	None	None
17	JUP	ENSG00000173801	ENST00000393930	protein_coding	KNOWN	CCDS11407	6207	2238	745	39910856	39941407	-1	CTNNG	DP3, PDGB, PKGB, DPIII
17	JUP	ENSG00000173801	ENST00000310706	protein_coding	KNOWN	CCDS11407	6207	2238	745	39910856	39942950	-1	CTNNG	DP3, PDGB, PKGB, DPIII
17	JUP	ENSG00000173801	ENST00000393931	protein_coding	KNOWN	CCDS11407	6207	2238	745	39910856	39942950	-1	CTNNG	DP3, PDGB, PKGB, DPIII
17	JUP	ENSG00000173801	ENST00000585793	retained_intron	KNOWN	None	6207	None	None	39914424	39919329	-1	CTNNG	DP3, PDGB, PKGB, DPIII
17	JUP	ENSG00000173801	ENST00000449889	protein_coding	KNOWN	None	6207	893	296	39923647	39942322	-1	CTNNG	DP3, PDGB, PKGB, DPIII
17	JUP	ENSG00000173801	ENST00000437187	protein_coding	KNOWN	None	6207	887	294	39923653	39943183	-1	CTNNG	DP3, PDGB, PKGB, DPIII
17	JUP	ENSG00000173801	ENST00000420370	protein_coding	KNOWN	None	6207	830	275	39923710	39928521	-1	CTNNG	DP3, PDGB, PKGB, DPIII
17	JUP	ENSG00000173801	ENST00000424457	protein_coding	KNOWN	None	6207	707	234	39925221	39942964	-1	CTNNG	DP3, PDGB, PKGB, DPIII
17	JUP	ENSG00000173801	ENST00000591690	protein_coding	KNOWN	None	6207	312	103	39925826	39943017	-1	CTNNG	DP3, PDGB, PKGB, DPIII
17	JUP	ENSG00000173801	ENST00000437369	protein_coding	KNOWN	None	6207	260	85	39925878	39941407	-1	CTNNG	DP3, PDGB, PKGB, DPIII
17	JUP	ENSG00000173801	ENST00000589036	retained_intron	KNOWN	None	6207	None	None	39927669	39942962	-1	CTNNG	DP3, PDGB, PKGB, DPIII
17	JUP	ENSG00000173801	ENST00000465293	protein_coding	KNOWN	None	6207	8	1	39928099	39942461	-1	CTNNG	DP3, PDGB, PKGB, DPIII
17	JUP	ENSG00000173801	ENST00000540235	protein_coding	KNOWN	None	6207	1776	591	39775692	39928106	-1	CTNNG	DP3, PDGB, PKGB, DPIII
HSCHR1_2_CTG31	FAM189B	ENSG00000262666	ENST00000574749	protein_coding	KNOWN	None	1233	1719	572	155232400	155240155	-1	C1orf2	cote1
HSCHR1_2_CTG31	FAM189B	ENSG00000262666	ENST00000570577	retained_intron	KNOWN	None	1233	None	None	155232412	155237003	-1	C1orf2	cote1
HSCHR1_2_CTG31	FAM189B	ENSG00000262666	ENST00000572488	protein_coding	NOVEL	None	1233	1953	650	155232412	155240163	-1	C1orf2	cote1
HSCHR1_2_CTG31	FAM189B	ENSG00000262666	ENST00000575430	protein_coding	KNOWN	None	1233	2007	668	155232412	155240582	-1	C1orf2	cote1
HSCHR1_2_CTG31	FAM189B	ENSG00000262666	ENST00000573675	nonsense_mediated_decay	KNOWN	None	1233	435	144	155232622	155240386	-1	C1orf2	cote1
HSCHR1_2_CTG31	FAM189B	ENSG00000262666	ENST00000574503	protein_coding	PUTATIVE	None	1233	975	324	155233269	155240103	-1	C1orf2	cote1
HSCHR1_2_CTG31	FAM189B	ENSG00000262666	ENST00000576310	retained_intron	KNOWN	None	1233	None	None	155235783	155237263	-1	C1orf2	cote1
HSCHR1_2_CTG31	FAM189B	ENSG00000262666	ENST00000573905	processed_transcript	KNOWN	None	1233	None	None	155235889	155240159	-1	C1orf2	cote1
HSCHR1_2_CTG31	FAM189B	ENSG00000262666	ENST00000571350	retained_intron	KNOWN	None	1233	None	None	155237944	155240678	-1	C1orf2	cote1
1	None	ENSG00000236905	ENST00000449334	processed_pseudogene	KNOWN	None	None	None	None	212997369	212997847	1	None	None
17	MTRNR2L1	ENSG00000256618	ENST00000540040	protein_coding	KNOWN	CCDS54097	37155	75	24	22022437	22023991	1	None	None
21	CHAF1B	ENSG00000159259	ENST00000314103	protein_coding	KNOWN	CCDS13644	1911	1680	559	37757676	37789125	1	None	CAF1P60, CAF-1, CAF1, CAF1A, MPP7, MPHOSPH7
21	CHAF1B	ENSG00000159259	ENST00000480486	processed_transcript	KNOWN	None	1911	None	None	37758358	37770537	1	None	CAF1P60, CAF-1, CAF1, CAF1A, MPP7, MPHOSPH7
21	CHAF1B	ENSG00000159259	ENST00000481458	processed_transcript	KNOWN	None	1911	None	None	37771800	37785260	1	None	CAF1P60, CAF-1, CAF1, CAF1A, MPP7, MPHOSPH7
1	SLC25A24P2	ENSG00000238118	ENST00000415059	unprocessed_pseudogene	KNOWN	None	48934	None	None	108926358	108963917	-1	None	None
5	None	ENSG00000249562	ENST00000506658	processed_pseudogene	KNOWN	None	None	None	None	24578403	24578670	-1	None	None
1	OR4F16	ENSG00000185097	ENST00000332831	protein_coding	KNOWN	CCDS41221	15079	939	312	621059	622053	-1	None	None
12	TFCP2	ENSG00000135457	ENST00000257915	protein_coding	KNOWN	CCDS8808	11748	1509	502	51487446	51566664	-1	None	CP2, LSF, LBP-1C, TFCP2C
12	TFCP2	ENSG00000135457	ENST00000549867	protein_coding	NOVEL	None	11748	1275	424	51488666	51566917	-1	None	CP2, LSF, LBP-1C, TFCP2C
12	TFCP2	ENSG00000135457	ENST00000546822	retained_intron	KNOWN	None	11748	None	None	51488941	51497714	-1	None	CP2, LSF, LBP-1C, TFCP2C
12	TFCP2	ENSG00000135457	ENST00000548115	protein_coding	KNOWN	CCDS55827	11748	1353	450	51489005	51566695	-1	None	CP2, LSF, LBP-1C, TFCP2C
12	TFCP2	ENSG00000135457	ENST00000548108	protein_coding	PUTATIVE	None	11748	1143	380	51489806	51566576	-1	None	CP2, LSF, LBP-1C, TFCP2C
12	TFCP2	ENSG00000135457	ENST00000307660	protein_coding	KNOWN	None	11748	1356	451	51487539	51566926	-1	None	CP2, LSF, LBP-1C, TFCP2C
19	None	ENSG00000213016	ENST00000391727	unprocessed_pseudogene	KNOWN	None	None	None	None	55032906	55033214	1	None	None
1	None	ENSG00000270457	ENST00000604999	lincRNA	KNOWN	None	None	None	None	59754975	59755312	-1	None	None
4	SULT1B1	ENSG00000173597	ENST00000310613	protein_coding	KNOWN	CCDS3530	17845	891	296	70592566	70626430	-1	None	ST1B2
4	SULT1B1	ENSG00000173597	ENST00000510821	protein_coding	KNOWN	None	17845	467	154	70599891	70626316	-1	None	ST1B2
4	SULT1B1	ENSG00000173597	ENST00000512870	protein_coding	PUTATIVE	None	17845	220	72	70620388	70653679	-1	None	ST1B2
5	None	ENSG00000250099	ENST00000503772	processed_pseudogene	KNOWN	None	None	None	None	24749483	24749881	-1	None	None
1	CRPP1	ENSG00000223603	ENST00000412857	unprocessed_pseudogene	KNOWN	None	2368	None	None	159674773	159675397	-1	None	None
HSCHR6_MHC_APD	NEU1	ENSG00000228691	ENST00000486872	retained_intron	KNOWN	None	7758	None	None	31836794	31841931	-1	NEU	None
HSCHR6_MHC_APD	NEU1	ENSG00000228691	ENST00000467620	retained_intron	KNOWN	None	7758	None	None	31838187	31841940	-1	NEU	None
HSCHR6_MHC_APD	NEU1	ENSG00000228691	ENST00000495201	nonsense_mediated_decay	KNOWN	None	7758	219	72	31838187	31841951	-1	NEU	None
HSCHR6_MHC_APD	NEU1	ENSG00000228691	ENST00000495464	nonsense_mediated_decay	KNOWN	None	7758	804	267	31838187	31841957	-1	NEU	None
HSCHR6_MHC_APD	NEU1	ENSG00000228691	ENST00000423382	protein_coding	KNOWN	None	7758	1248	415	31838187	31842041	-1	NEU	None
4	None	ENSG00000266337	ENST00000580661	miRNA	NOVEL	None	None	None	None	49211391	49211465	1	None	None
1	MIR4711	ENSG00000266150	ENST00000578274	miRNA	KNOWN	None	41847	None	None	60198899	60198968	-1	None	hsa-mir-4711
1	None	ENSG00000224698	ENST00000419814	lincRNA	KNOWN	None	None	None	None	108963311	108975806	1	None	None
4	None	ENSG00000249079	ENST00000508739	processed_pseudogene	KNOWN	None	None	None	None	49214268	49214641	-1	None	None
7	MIR489	ENSG00000207656	ENST00000384923	miRNA	KNOWN	None	32074	None	None	93113248	93113331	-1	MIRN489	hsa-mir-489
1	None	ENSG00000226883	ENST00000443012	antisense	KNOWN	None	None	None	None	60220419	60254854	-1	None	None
19	None	ENSG00000235181	ENST00000433549	unprocessed_pseudogene	KNOWN	None	None	None	None	55063253	55063539	1	None	None
4	SNX18P23	ENSG00000250016	ENST00000510867	processed_pseudogene	KNOWN	None	39631	None	None	49235306	49235982	-1	None	None
12	SSPN	ENSG00000123096	ENST00000538142	protein_coding	KNOWN	None	11322	361	119	26274924	26383947	1	KRAG	SPN1, SPN2
12	SSPN	ENSG00000123096	ENST00000534829	processed_transcript	KNOWN	None	11322	None	None	26274985	26452223	1	KRAG	SPN1, SPN2
12	SSPN	ENSG00000123096	ENST00000539019	processed_transcript	KNOWN	None	11322	None	None	26287897	26334217	1	KRAG	SPN1, SPN2
12	SSPN	ENSG00000123096	ENST00000540266	protein_coding	KNOWN	CCDS44850	11322	423	140	26287900	26384079	1	KRAG	SPN1, SPN2
12	SSPN	ENSG00000123096	ENST00000422622	protein_coding	KNOWN	CCDS44850	11322	423	140	26348273	26385867	1	KRAG	SPN1, SPN2
12	SSPN	ENSG00000123096	ENST00000544231	processed_transcript	KNOWN	None	11322	None	None	26348289	26440671	1	KRAG	SPN1, SPN2
12	SSPN	ENSG00000123096	ENST00000242729	protein_coding	KNOWN	CCDS8707	11322	732	243	26348429	26385888	1	KRAG	SPN1, SPN2
12	SSPN	ENSG00000123096	ENST00000535504	protein_coding	PUTATIVE	None	11322	387	128	26348606	26405853	1	KRAG	SPN1, SPN2
X	ARL5AP1	ENSG00000227864	ENST00000418991	processed_pseudogene	KNOWN	None	43933	None	None	118320405	118320792	-1	None	None
1	None	ENSG00000231816	ENST00000424725	lincRNA	KNOWN	None	None	None	None	60238467	60254520	1	None	None
12	MIR1228	ENSG00000221365	ENST00000408438	miRNA	KNOWN	None	33928	None	None	57588287	57588359	1	MIRN1228	hsa-mir-1228
1	ST13P21	ENSG00000227832	ENST00000453250	processed_pseudogene	KNOWN	None	38864	None	None	109044980	109046077	1	None	None
7	None	ENSG00000237729	ENST00000425207	processed_pseudogene	KNOWN	None	None	None	None	93299138	93299389	-1	None	None
21	ERVH48-1	ENSG00000233056	ENST00000447535	lincRNA	KNOWN	None	17216	None	None	44336913	44345756	-1	C21orf105, NDUFV3-AS1	None
7	RNU7-157P	ENSG00000238431	ENST00000459600	snRNA	KNOWN	None	45691	None	None	57294708	57294773	1	None	None
2	None	ENSG00000236555	ENST00000449927	processed_pseudogene	KNOWN	None	None	None	None	113103588	113103835	1	None	None
1	FLVCR1-AS1	ENSG00000198468	ENST00000356684	lincRNA	KNOWN	None	39077	None	None	213025450	213031430	-1	NCRNA00292	LQK1
1	FLVCR1-AS1	ENSG00000198468	ENST00000426161	lincRNA	KNOWN	None	39077	None	None	213029946	213031430	-1	NCRNA00292	LQK1
1	FLVCR1-AS1	ENSG00000198468	ENST00000424044	lincRNA	KNOWN	None	39077	None	None	213029946	213031430	-1	NCRNA00292	LQK1
7	MIR3147	ENSG00000266168	ENST00000577811	miRNA	KNOWN	None	38300	None	None	57472731	57472796	1	None	hsa-mir-3147
12	None	ENSG00000202067	ENST00000365197	misc_RNA	NOVEL	None	None	None	None	57621757	57621880	1	None	None
7	CCL26	ENSG00000006606	ENST00000005180	protein_coding	KNOWN	CCDS5578	10625	285	94	75398851	75401575	-1	SCYA26	MIP-4alpha, eotaxin-3, IMAC, MIP-4a, TSC-1
7	CCL26	ENSG00000006606	ENST00000394905	protein_coding	KNOWN	CCDS5578	10625	285	94	75398851	75419214	-1	SCYA26	MIP-4alpha, eotaxin-3, IMAC, MIP-4a, TSC-1
1	None	ENSG00000269831	ENST00000599533	protein_coding	NOVEL	None	None	129	42	738532	739137	-1	None	None
4	None	ENSG00000237961	ENST00000506408	processed_pseudogene	KNOWN	None	None	None	None	49240049	49247436	-1	None	None
4	None	ENSG00000237961	ENST00000428211	processed_pseudogene	KNOWN	None	None	None	None	49239116	49246387	-1	None	None
12	None	ENSG00000258830	ENST00000548184	processed_transcript	KNOWN	None	None	None	None	57643392	57690267	-1	None	None
1	None	ENSG00000226483	ENST00000428364	processed_pseudogene	KNOWN	None	None	None	None	109051196	109051865	1	None	None
8	FAM90A24P	ENSG00000215354	ENST00000520792	transcribed_unprocessed_pseudogene	KNOWN	None	32272	None	None	7876951	7882174	-1	FAM90A24	None
8	FAM90A24P	ENSG00000215354	ENST00000521100	processed_transcript	KNOWN	None	32272	None	None	7878185	7879913	-1	FAM90A24	None
8	FAM90A24P	ENSG00000215354	ENST00000439746	unprocessed_pseudogene	KNOWN	None	32272	None	None	7876958	7888168	-1	FAM90A24	None
8	FAM90A24P	ENSG00000215354	ENST00000400118	unprocessed_pseudogene	KNOWN	None	32272	None	None	7877510	7880520	-1	FAM90A24	None
1	RN7SL475P	ENSG00000265535	ENST00000583379	misc_RNA	KNOWN	None	46491	None	None	60440431	60440726	-1	None	None
2	None	ENSG00000226331	ENST00000448062	processed_pseudogene	KNOWN	None	None	None	None	222909244	222909713	-1	None	None
2	None	ENSG00000207383	ENST00000384653	misc_RNA	NOVEL	None	None	None	None	113337061	113337161	-1	None	None
1	None	ENSG00000235226	ENST00000426330	processed_pseudogene	KNOWN	None	None	None	None	159728960	159729379	1	None	None
1	PGBD4P8	ENSG00000229332	ENST00000412993	processed_pseudogene	KNOWN	None	44075	None	None	60563087	60563648	1	None	None
9	FBP2	ENSG00000130957	ENST00000375337	protein_coding	KNOWN	CCDS6711	3607	1020	339	97321002	97356075	-1	None	None
1	None	ENSG00000232971	ENST00000437400	antisense	KNOWN	None	None	None	None	109276878	109277347	-1	None	None
2	None	ENSG00000243389	ENST00000414784	3prime_overlapping_ncrna	KNOWN	None	None	None	None	113346617	113372008	1	None	None
1	None	ENSG00000235182	ENST00000432247	processed_pseudogene	KNOWN	None	None	None	None	213026622	213026768	1	None	None
1	None	ENSG00000238242	ENST00000456878	lincRNA	KNOWN	None	None	None	None	60580547	60615351	1	None	None
12	None	ENSG00000257531	ENST00000548666	transcribed_processed_pseudogene	KNOWN	None	None	None	None	50611445	50612126	-1	None	None
1	None	ENSG00000212161	ENST00000390859	snoRNA	NOVEL	None	None	None	None	159821696	159821762	-1	None	None
8	None	ENSG00000253355	ENST00000520411	retained_intron	KNOWN	None	None	None	None	102141215	102145473	1	None	None
8	None	ENSG00000253355	ENST00000521884	lincRNA	KNOWN	None	None	None	None	102141222	102145714	1	None	None
1	None	ENSG00000266458	ENST00000584466	miRNA	KNOWN	None	None	None	None	159869769	159869869	-1	None	None
8	POU5F1B	ENSG00000212993	ENST00000465342	protein_coding	KNOWN	CCDS55274	9223	1080	359	128426535	128432311	1	OTF3P1, POU5F1P1	OTF3C
8	POU5F1B	ENSG00000212993	ENST00000391675	protein_coding	KNOWN	CCDS55274	9223	1080	359	128427857	128429439	1	OTF3P1, POU5F1P1	OTF3C
1	None	ENSG00000269308	ENST00000594233	protein_coding	NOVEL	None	None	57	18	818043	819983	1	None	None
1	None	ENSG00000228076	ENST00000444669	processed_pseudogene	KNOWN	None	None	None	None	109309463	109310206	-1	None	None
1	None	ENSG00000236317	ENST00000422630	processed_pseudogene	KNOWN	None	None	None	None	213028517	213028708	-1	None	None
21	MIR5692B	ENSG00000264580	ENST00000579137	miRNA	KNOWN	None	43535	None	None	44371038	44371124	-1	None	hsa-mir-5692b
1	None	ENSG00000226476	ENST00000439156	lincRNA	KNOWN	None	None	None	None	61005921	61106163	-1	None	None
2	PTRHD1	ENSG00000184924	ENST00000328379	protein_coding	KNOWN	CCDS33156	33782	423	140	25012855	25016251	-1	C2orf79	LOC391356
2	PTRHD1	ENSG00000184924	ENST00000480190	processed_transcript	KNOWN	None	33782	None	None	25013074	25015922	-1	C2orf79	LOC391356
2	PTRHD1	ENSG00000184924	ENST00000467797	retained_intron	KNOWN	None	33782	None	None	25013132	25014475	-1	C2orf79	LOC391356
2	PTRHD1	ENSG00000184924	ENST00000474668	processed_transcript	KNOWN	None	33782	None	None	25013135	25015943	-1	C2orf79	LOC391356
2	PTRHD1	ENSG00000184924	ENST00000487316	processed_transcript	PUTATIVE	None	33782	None	None	25013144	25015959	-1	C2orf79	LOC391356
2	PTRHD1	ENSG00000184924	ENST00000492046	processed_transcript	PUTATIVE	None	33782	None	None	25015303	25015944	-1	C2orf79	LOC391356
4	None	ENSG00000268736	ENST00000514812	processed_pseudogene	KNOWN	None	None	None	None	49248038	49248555	1	None	None
17	None	ENSG00000265494	ENST00000580134	lincRNA	KNOWN	None	None	None	None	13812548	13814529	1	None	None
21	None	ENSG00000224100	ENST00000428410	antisense	KNOWN	None	None	None	None	44384749	44385473	-1	None	None
1	None	ENSG00000224259	ENST00000443364	lincRNA	KNOWN	None	None	None	None	159931008	159946902	1	None	None
1	None	ENSG00000224259	ENST00000423943	lincRNA	KNOWN	None	None	None	None	159931014	159948851	1	None	None
2	None	ENSG00000213605	ENST00000358778	processed_pseudogene	KNOWN	None	None	None	None	87112198	87112854	-1	None	None
17	None	ENSG00000233852	ENST00000457609	lincRNA	KNOWN	None	None	None	None	13836037	13843911	-1	None	None
2	None	ENSG00000267034	ENST00000587099	lincRNA	KNOWN	None	None	None	None	223181961	223183372	-1	None	None
17	None	ENSG00000272191	ENST00000607336	antisense	KNOWN	None	None	None	None	35297346	35300755	-1	None	None
11	None	ENSG00000254558	ENST00000529293	unprocessed_pseudogene	KNOWN	None	None	None	None	89597016	89598718	-1	None	None
1	None	ENSG00000231252	ENST00000423403	lincRNA	KNOWN	None	None	None	None	61125303	61291256	-1	None	None
3	RN7SL767P	ENSG00000241529	ENST00000493013	misc_RNA	KNOWN	None	46783	None	None	113351551	113351827	1	None	None
15	RPL21P116	ENSG00000243711	ENST00000482506	processed_pseudogene	KNOWN	None	36101	None	None	79155589	79156071	-1	None	None
1	SPATA42	ENSG00000203897	ENST00000369989	antisense	KNOWN	None	41198	None	None	109399839	109401146	1	None	SRG7, AKNAD1-AS1
1	SPATA42	ENSG00000203897	ENST00000417241	antisense	KNOWN	None	41198	None	None	109399866	109400962	1	None	SRG7, AKNAD1-AS1
17	None	ENSG00000266744	ENST00000581533	lincRNA	KNOWN	None	None	None	None	13861065	13870269	-1	None	None
6	None	ENSG00000221455	ENST00000408528	snoRNA	NOVEL	None	None	None	None	93500171	93500382	1	None	None
3	None	ENSG00000239280	ENST00000496068	processed_pseudogene	KNOWN	None	None	None	None	113459670	113460101	-1	None	None
18	RNU6-702P	ENSG00000201852	ENST00000364982	snRNA	KNOWN	None	47665	None	None	19760073	19760179	-1	None	None
17	None	ENSG00000267306	ENST00000593278	sense_intronic	KNOWN	None	None	None	None	35337466	35337721	1	None	None
1	None	ENSG00000228646	ENST00000484151	processed_pseudogene	KNOWN	None	None	None	None	213602051	213602420	-1	None	None
15	RNU6-415P	ENSG00000252061	ENST00000516252	snRNA	KNOWN	None	47378	None	None	79191182	79191278	-1	None	None
18	None	ENSG00000266283	ENST00000583442	antisense	KNOWN	None	None	None	None	19780582	19785192	-1	None	None
12	RPS6P20	ENSG00000226356	ENST00000464655	unprocessed_pseudogene	KNOWN	None	36940	None	None	131776613	131777721	-1	None	None
17	CDRT15P1	ENSG00000141028	ENST00000577632	unprocessed_pseudogene	KNOWN	None	33168	None	None	13927831	13928805	1	CDRT15P	None
21	MRPL51P2	ENSG00000232777	ENST00000450190	processed_pseudogene	KNOWN	None	29724	None	None	44535444	44535819	-1	None	None
1	None	ENSG00000225233	ENST00000417161	lincRNA	KNOWN	None	None	None	None	213665644	213719790	1	None	None
2	None	ENSG00000237732	ENST00000587192	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	223182994	223186231	1	None	None
2	None	ENSG00000237732	ENST00000555502	processed_transcript	KNOWN	None	None	None	None	223183190	223186441	1	None	None
2	None	ENSG00000237732	ENST00000590427	processed_transcript	KNOWN	None	None	None	None	223183420	223207260	1	None	None
2	None	ENSG00000237732	ENST00000589724	processed_transcript	KNOWN	None	None	None	None	223184017	223217708	1	None	None
2	None	ENSG00000237732	ENST00000424010	processed_transcript	KNOWN	None	None	None	None	223185393	223186378	1	None	None
2	None	ENSG00000237732	ENST00000429475	processed_transcript	KNOWN	None	None	None	None	223185413	223186441	1	None	None
2	None	ENSG00000237732	ENST00000446532	processed_transcript	KNOWN	None	None	None	None	223185582	223186441	1	None	None
2	None	ENSG00000237732	ENST00000439237	processed_transcript	KNOWN	None	None	None	None	223185825	223186257	1	None	None
2	None	ENSG00000237732	ENST00000542880	unprocessed_pseudogene	KNOWN	None	None	None	None	223182996	223186440	1	None	None
17	None	ENSG00000267798	ENST00000587240	sense_intronic	KNOWN	None	None	None	None	35355897	35357333	1	None	None
21	None	ENSG00000264009	ENST00000580152	miRNA	NOVEL	None	None	None	None	44547630	44547729	1	None	None
18	None	ENSG00000264825	ENST00000578741	lincRNA	KNOWN	None	None	None	None	19793741	19807992	1	None	None
12	None	ENSG00000257256	ENST00000551284	antisense	KNOWN	None	None	None	None	50613387	50623767	1	None	None
17	None	ENSG00000252305	ENST00000516496	snoRNA	NOVEL	None	None	None	None	14080448	14080627	1	None	None
12	RNU6-879P	ENSG00000201198	ENST00000364328	snRNA	KNOWN	None	47842	None	None	57809079	57809186	1	None	None
1	None	ENSG00000221026	ENST00000408099	miRNA	NOVEL	None	None	None	None	213783039	213783183	-1	None	None
21	None	ENSG00000236663	ENST00000424933	antisense	KNOWN	None	None	None	None	44560633	44561202	-1	None	None
1	None	ENSG00000237928	ENST00000438559	antisense	KNOWN	None	None	None	None	61405911	61436448	-1	None	None
1	None	ENSG00000237928	ENST00000418662	antisense	KNOWN	None	None	None	None	61406067	61418521	-1	None	None
1	None	ENSG00000237928	ENST00000421455	antisense	KNOWN	None	None	None	None	61419726	61436417	-1	None	None
18	None	ENSG00000238907	ENST00000459476	snoRNA	NOVEL	None	None	None	None	19840539	19840640	1	None	None
17	MIR2909	ENSG00000266141	ENST00000581942	miRNA	KNOWN	None	38372	None	None	35391042	35391110	1	None	hsa-mir-2909
12	None	ENSG00000258001	ENST00000547552	lincRNA	KNOWN	None	None	None	None	57824899	57827718	1	None	None
17	None	ENSG00000231595	ENST00000458492	antisense	KNOWN	None	None	None	None	14113805	14121239	1	None	None
3	None	ENSG00000242659	ENST00000492981	lincRNA	KNOWN	None	None	None	None	113465719	113466255	-1	None	None
1	None	ENSG00000228255	ENST00000456240	lincRNA	KNOWN	None	None	None	None	213904759	213967930	1	None	None
1	ARHGEF10L	ENSG00000074964	ENST00000361221	protein_coding	KNOWN	CCDS182	25540	3840	1279	17866330	18024364	1	None	FLJ10521, KIAA1626
1	ARHGEF10L	ENSG00000074964	ENST00000375415	protein_coding	KNOWN	CCDS30617	25540	3723	1240	17907048	18024144	1	None	FLJ10521, KIAA1626
1	ARHGEF10L	ENSG00000074964	ENST00000482892	processed_transcript	KNOWN	None	25540	None	None	17928666	17931377	1	None	FLJ10521, KIAA1626
1	ARHGEF10L	ENSG00000074964	ENST00000469726	processed_transcript	KNOWN	None	25540	None	None	17941583	18024355	1	None	FLJ10521, KIAA1626
1	ARHGEF10L	ENSG00000074964	ENST00000375408	protein_coding	KNOWN	None	25540	3159	1052	17944811	18024363	1	None	FLJ10521, KIAA1626
1	ARHGEF10L	ENSG00000074964	ENST00000475356	processed_transcript	KNOWN	None	25540	None	None	17952502	18024363	1	None	FLJ10521, KIAA1626
1	ARHGEF10L	ENSG00000074964	ENST00000482359	processed_transcript	KNOWN	None	25540	None	None	17960752	17964498	1	None	FLJ10521, KIAA1626
1	ARHGEF10L	ENSG00000074964	ENST00000466782	processed_transcript	KNOWN	None	25540	None	None	17966248	17981160	1	None	FLJ10521, KIAA1626
1	ARHGEF10L	ENSG00000074964	ENST00000495593	processed_transcript	KNOWN	None	25540	None	None	18020542	18024369	1	None	FLJ10521, KIAA1626
1	ARHGEF10L	ENSG00000074964	ENST00000452522	protein_coding	KNOWN	CCDS30617	25540	3723	1240	17866330	18024369	1	None	FLJ10521, KIAA1626
1	ARHGEF10L	ENSG00000074964	ENST00000434513	protein_coding	KNOWN	None	25540	3204	1067	17866330	18017649	1	None	FLJ10521, KIAA1626
1	ARHGEF10L	ENSG00000074964	ENST00000375420	protein_coding	KNOWN	None	25540	1467	488	17914911	17966472	1	None	FLJ10521, KIAA1626
1	ARHGEF10L	ENSG00000074964	ENST00000167825	protein_coding	KNOWN	None	25540	2949	982	17944849	18024369	1	None	FLJ10521, KIAA1626
17	TRIM25	ENSG00000121060	ENST00000316881	protein_coding	KNOWN	CCDS11591	12932	1893	630	54965270	54991399	-1	ZNF147	EFP, RNF147
17	TRIM25	ENSG00000121060	ENST00000573108	processed_transcript	PUTATIVE	None	12932	None	None	54967882	54968887	-1	ZNF147	EFP, RNF147
17	TRIM25	ENSG00000121060	ENST00000572021	nonsense_mediated_decay	KNOWN	None	12932	132	43	54968944	54990833	-1	ZNF147	EFP, RNF147
17	TRIM25	ENSG00000121060	ENST00000574234	retained_intron	KNOWN	None	12932	None	None	54969473	54973135	-1	ZNF147	EFP, RNF147
17	TRIM25	ENSG00000121060	ENST00000570473	retained_intron	KNOWN	None	12932	None	None	54973131	54981704	-1	ZNF147	EFP, RNF147
17	TRIM25	ENSG00000121060	ENST00000570749	retained_intron	KNOWN	None	12932	None	None	54976322	54981849	-1	ZNF147	EFP, RNF147
17	TRIM25	ENSG00000121060	ENST00000572550	processed_transcript	KNOWN	None	12932	None	None	54978788	54986144	-1	ZNF147	EFP, RNF147
17	TRIM25	ENSG00000121060	ENST00000574997	processed_transcript	PUTATIVE	None	12932	None	None	54985844	54990478	-1	ZNF147	EFP, RNF147
17	TRIM25	ENSG00000121060	ENST00000537230	protein_coding	KNOWN	CCDS11591	12932	1893	630	54968636	54991388	-1	ZNF147	EFP, RNF147
17	None	ENSG00000267479	ENST00000589221	sense_intronic	KNOWN	None	None	None	None	35391965	35400550	1	None	None
21	LINC00322	ENSG00000237864	ENST00000450205	processed_transcript	PUTATIVE	None	33698	None	None	44742297	44751919	-1	C21orf136, NCRNA00322	FLJ16545
11	BCL9L	ENSG00000186174	ENST00000334801	protein_coding	KNOWN	CCDS8403	23688	4500	1499	118764584	118781613	-1	None	DLNB11
11	BCL9L	ENSG00000186174	ENST00000526143	processed_transcript	KNOWN	None	23688	None	None	118768455	118796317	-1	None	DLNB11
11	BCL9L	ENSG00000186174	ENST00000526514	processed_transcript	KNOWN	None	23688	None	None	118769902	118779258	-1	None	DLNB11
11	BCL9L	ENSG00000186174	ENST00000530293	processed_transcript	KNOWN	None	23688	None	None	118770646	118782002	-1	None	DLNB11
11	BCL9L	ENSG00000186174	ENST00000527266	processed_transcript	KNOWN	None	23688	None	None	118773483	118779334	-1	None	DLNB11
11	BCL9L	ENSG00000186174	ENST00000532899	protein_coding	KNOWN	None	23688	412	136	118778979	118789613	-1	None	DLNB11
14	None	ENSG00000257869	ENST00000548280	lincRNA	KNOWN	None	None	None	None	28787347	28887818	1	None	None
11	None	ENSG00000255235	ENST00000529514	unprocessed_pseudogene	KNOWN	None	None	None	None	89617095	89619381	-1	None	None
12	MIR1293	ENSG00000221604	ENST00000408677	miRNA	KNOWN	None	35286	None	None	50627925	50627995	-1	MIRN1293	hsa-mir-1293
8	None	ENSG00000254689	ENST00000534675	lincRNA	KNOWN	None	None	None	None	82797612	82835428	1	None	None
18	None	ENSG00000270855	ENST00000603437	processed_pseudogene	KNOWN	None	None	None	None	19998792	19999257	-1	None	None
19	ICAM1	ENSG00000090339	ENST00000264832	protein_coding	KNOWN	CCDS12231	5344	1599	532	10381511	10397291	1	None	BB2, CD54
19	ICAM1	ENSG00000090339	ENST00000423829	protein_coding	NOVEL	None	5344	933	310	10381769	10396259	1	None	BB2, CD54
19	ICAM1	ENSG00000090339	ENST00000588645	protein_coding	NOVEL	None	5344	541	179	10381796	10394429	1	None	BB2, CD54
19	ICAM1	ENSG00000090339	ENST00000585443	processed_transcript	KNOWN	None	5344	None	None	10392934	10394262	1	None	BB2, CD54
19	ICAM1	ENSG00000090339	ENST00000592686	retained_intron	KNOWN	None	5344	None	None	10393958	10394774	1	None	BB2, CD54
2	None	ENSG00000231351	ENST00000418877	processed_pseudogene	KNOWN	None	None	None	None	87157373	87157877	-1	None	None
X	HNRNPA1P28	ENSG00000230170	ENST00000424481	processed_pseudogene	KNOWN	None	39546	None	None	118354745	118355705	1	None	None
21	None	ENSG00000237989	ENST00000442815	processed_transcript	KNOWN	None	None	None	None	44778027	44782229	-1	None	None
18	RPS4XP18	ENSG00000239490	ENST00000495480	processed_pseudogene	KNOWN	None	36170	None	None	20166428	20167190	1	RPS4P18	None
1	None	ENSG00000237409	ENST00000415679	processed_pseudogene	KNOWN	None	None	None	None	159990090	159990517	1	None	None
3	None	ENSG00000240776	ENST00000485426	processed_pseudogene	KNOWN	None	None	None	None	113569084	113569578	-1	None	None
HG243_PATCH	None	ENSG00000260716	ENST00000565321	retained_intron	KNOWN	None	None	None	None	145483685	145497759	-1	None	None
HG243_PATCH	None	ENSG00000260716	ENST00000569563	protein_coding	KNOWN	None	None	4137	1378	145483711	145499347	-1	None	None
17	None	ENSG00000262786	ENST00000571192	lincRNA	KNOWN	None	None	None	None	14198829	14200917	-1	None	None
17	None	ENSG00000266895	ENST00000588997	antisense	KNOWN	None	None	None	None	35402760	35410075	-1	None	None
14	RPS2P4	ENSG00000196183	ENST00000476944	processed_pseudogene	KNOWN	None	19814	None	None	105302334	105303189	-1	None	None
14	RPS2P4	ENSG00000196183	ENST00000491637	processed_pseudogene	KNOWN	None	19814	None	None	105302331	105303221	-1	None	None
15	CHEK2P2	ENSG00000259156	ENST00000555186	processed_transcript	KNOWN	None	43578	None	None	20487997	20496811	1	None	None
15	CHEK2P2	ENSG00000259156	ENST00000566448	processed_transcript	KNOWN	None	43578	None	None	20488735	20496839	1	None	None
15	CHEK2P2	ENSG00000259156	ENST00000554701	transcribed_unprocessed_pseudogene	KNOWN	None	43578	None	None	20488749	20496811	1	None	None
18	RNU6-1032P	ENSG00000206827	ENST00000384100	snRNA	KNOWN	None	47995	None	None	20227545	20227651	1	None	None
16	CIRH1A	ENSG00000141076	ENST00000563299	protein_coding	PUTATIVE	None	1983	548	181	69165194	69173806	1	None	NAIC, FLJ14728, KIAA1988, TEX292, CIRHIN, UTP4
16	CIRH1A	ENSG00000141076	ENST00000314423	protein_coding	KNOWN	CCDS10872	1983	2061	686	69166418	69202924	1	None	NAIC, FLJ14728, KIAA1988, TEX292, CIRHIN, UTP4
16	CIRH1A	ENSG00000141076	ENST00000562237	protein_coding	PUTATIVE	None	1983	2103	700	69166499	69202923	1	None	NAIC, FLJ14728, KIAA1988, TEX292, CIRHIN, UTP4
16	CIRH1A	ENSG00000141076	ENST00000567460	protein_coding	PUTATIVE	None	1983	428	141	69166516	69177231	1	None	NAIC, FLJ14728, KIAA1988, TEX292, CIRHIN, UTP4
16	CIRH1A	ENSG00000141076	ENST00000566227	protein_coding	PUTATIVE	None	1983	594	197	69166549	69177292	1	None	NAIC, FLJ14728, KIAA1988, TEX292, CIRHIN, UTP4
16	CIRH1A	ENSG00000141076	ENST00000352319	protein_coding	KNOWN	None	1983	1716	571	69166553	69202923	1	None	NAIC, FLJ14728, KIAA1988, TEX292, CIRHIN, UTP4
16	CIRH1A	ENSG00000141076	ENST00000563094	protein_coding	NOVEL	None	1983	1878	625	69166561	69201745	1	None	NAIC, FLJ14728, KIAA1988, TEX292, CIRHIN, UTP4
16	CIRH1A	ENSG00000141076	ENST00000569800	retained_intron	KNOWN	None	1983	None	None	69166566	69171929	1	None	NAIC, FLJ14728, KIAA1988, TEX292, CIRHIN, UTP4
16	CIRH1A	ENSG00000141076	ENST00000567235	protein_coding	PUTATIVE	None	1983	444	147	69166776	69173735	1	None	NAIC, FLJ14728, KIAA1988, TEX292, CIRHIN, UTP4
16	CIRH1A	ENSG00000141076	ENST00000568448	protein_coding	PUTATIVE	None	1983	236	77	69166787	69173776	1	None	NAIC, FLJ14728, KIAA1988, TEX292, CIRHIN, UTP4
16	CIRH1A	ENSG00000141076	ENST00000567015	retained_intron	KNOWN	None	1983	None	None	69167414	69177203	1	None	NAIC, FLJ14728, KIAA1988, TEX292, CIRHIN, UTP4
16	CIRH1A	ENSG00000141076	ENST00000569014	processed_transcript	KNOWN	None	1983	None	None	69172915	69184605	1	None	NAIC, FLJ14728, KIAA1988, TEX292, CIRHIN, UTP4
16	CIRH1A	ENSG00000141076	ENST00000564408	retained_intron	KNOWN	None	1983	None	None	69173575	69184537	1	None	NAIC, FLJ14728, KIAA1988, TEX292, CIRHIN, UTP4
16	CIRH1A	ENSG00000141076	ENST00000569615	processed_transcript	KNOWN	None	1983	None	None	69176019	69184721	1	None	NAIC, FLJ14728, KIAA1988, TEX292, CIRHIN, UTP4
16	CIRH1A	ENSG00000141076	ENST00000567500	protein_coding	PUTATIVE	None	1983	636	211	69188325	69202941	1	None	NAIC, FLJ14728, KIAA1988, TEX292, CIRHIN, UTP4
16	CIRH1A	ENSG00000141076	ENST00000567287	processed_transcript	KNOWN	None	1983	None	None	69201007	69265033	1	None	NAIC, FLJ14728, KIAA1988, TEX292, CIRHIN, UTP4
2	CERS6-AS1	ENSG00000227617	ENST00000425636	antisense	KNOWN	None	44485	None	None	169628463	169642939	-1	None	None
2	CERS6-AS1	ENSG00000227617	ENST00000594941	antisense	KNOWN	None	44485	None	None	169630865	169642907	-1	None	None
2	CERS6-AS1	ENSG00000227617	ENST00000600693	antisense	KNOWN	None	44485	None	None	169630908	169641298	-1	None	None
2	CERS6-AS1	ENSG00000227617	ENST00000599361	antisense	KNOWN	None	44485	None	None	169630909	169642938	-1	None	None
2	CERS6-AS1	ENSG00000227617	ENST00000599755	antisense	KNOWN	None	44485	None	None	169631331	169642939	-1	None	None
2	CERS6-AS1	ENSG00000227617	ENST00000594898	antisense	KNOWN	None	44485	None	None	169639649	169642939	-1	None	None
11	None	ENSG00000265344	ENST00000578538	miRNA	NOVEL	None	None	None	None	74657026	74657123	-1	None	None
14	RNASE10	ENSG00000182545	ENST00000430083	protein_coding	PUTATIVE	None	19275	735	244	20973696	20979314	1	None	RNASE9
14	RNASE10	ENSG00000182545	ENST00000328444	protein_coding	KNOWN	CCDS32035	19275	651	216	20978612	20979328	1	None	RNASE9
12	RNU6-594P	ENSG00000252865	ENST00000517056	snRNA	KNOWN	None	47557	None	None	57904847	57904918	1	None	None
18	None	ENSG00000265943	ENST00000578831	antisense	KNOWN	None	None	None	None	20279444	20513727	-1	None	None
17	G6PC3	ENSG00000141349	ENST00000269097	protein_coding	KNOWN	CCDS11476	24861	1041	346	42148103	42153672	1	None	UGRP
17	G6PC3	ENSG00000141349	ENST00000593115	nonsense_mediated_decay	KNOWN	None	24861	222	73	42148113	42151555	1	None	UGRP
17	G6PC3	ENSG00000141349	ENST00000588558	nonsense_mediated_decay	KNOWN	None	24861	219	72	42148118	42153678	1	None	UGRP
17	G6PC3	ENSG00000141349	ENST00000585361	nonsense_mediated_decay	KNOWN	None	24861	222	73	42148119	42153668	1	None	UGRP
17	G6PC3	ENSG00000141349	ENST00000591696	protein_coding	PUTATIVE	None	24861	731	242	42148260	42153209	1	None	UGRP
17	G6PC3	ENSG00000141349	ENST00000585962	retained_intron	KNOWN	None	24861	None	None	42148281	42151307	1	None	UGRP
17	G6PC3	ENSG00000141349	ENST00000590639	retained_intron	KNOWN	None	24861	None	None	42148535	42153200	1	None	UGRP
17	G6PC3	ENSG00000141349	ENST00000590253	protein_coding	PUTATIVE	None	24861	209	68	42152102	42153709	1	None	UGRP
17	None	ENSG00000266709	ENST00000583262	lincRNA	KNOWN	None	None	None	None	14207171	14208822	1	None	None
12	RN7SL312P	ENSG00000264046	ENST00000582079	misc_RNA	KNOWN	None	46328	None	None	57907700	57908023	1	None	None
16	SLC12A3	ENSG00000070915	ENST00000566786	protein_coding	KNOWN	CCDS45491	10912	3090	1029	56899119	56947317	1	None	NCCT
16	SLC12A3	ENSG00000070915	ENST00000438926	protein_coding	KNOWN	CCDS10770	10912	3093	1030	56899119	56949762	1	None	NCCT
16	SLC12A3	ENSG00000070915	ENST00000563236	protein_coding	KNOWN	CCDS58464	10912	3066	1021	56899123	56948434	1	None	NCCT
16	SLC12A3	ENSG00000070915	ENST00000262502	protein_coding	NOVEL	None	10912	3063	1020	56899123	56948437	1	None	NCCT
16	SLC12A3	ENSG00000070915	ENST00000569002	retained_intron	KNOWN	None	10912	None	None	56936134	56938764	1	None	NCCT
16	SLC12A3	ENSG00000070915	ENST00000563352	processed_transcript	PUTATIVE	None	10912	None	None	56940938	56947890	1	None	NCCT
3	None	ENSG00000241889	ENST00000478867	processed_pseudogene	KNOWN	None	None	None	None	113604145	113604878	1	None	None
1	PROX1-AS1	ENSG00000230461	ENST00000433082	antisense	KNOWN	None	43656	None	None	213991094	214139608	-1	None	None
1	PROX1-AS1	ENSG00000230461	ENST00000600591	antisense	KNOWN	None	43656	None	None	214005884	214110766	-1	None	None
1	PROX1-AS1	ENSG00000230461	ENST00000593620	antisense	KNOWN	None	43656	None	None	214005884	214128582	-1	None	None
1	PROX1-AS1	ENSG00000230461	ENST00000601907	antisense	KNOWN	None	43656	None	None	214005884	214138775	-1	None	None
1	PROX1-AS1	ENSG00000230461	ENST00000598105	antisense	KNOWN	None	43656	None	None	214005884	214140178	-1	None	None
1	PROX1-AS1	ENSG00000230461	ENST00000601744	antisense	KNOWN	None	43656	None	None	214005884	214152764	-1	None	None
1	PROX1-AS1	ENSG00000230461	ENST00000413560	antisense	KNOWN	None	43656	None	None	214014071	214139601	-1	None	None
1	PROX1-AS1	ENSG00000230461	ENST00000601335	antisense	KNOWN	None	43656	None	None	214068777	214140274	-1	None	None
1	PROX1-AS1	ENSG00000230461	ENST00000601854	antisense	KNOWN	None	43656	None	None	214089278	214152728	-1	None	None
1	PROX1-AS1	ENSG00000230461	ENST00000451396	antisense	KNOWN	None	43656	None	None	214139237	214159496	-1	None	None
1	PROX1-AS1	ENSG00000230461	ENST00000598091	antisense	KNOWN	None	43656	None	None	214139475	214160973	-1	None	None
2	None	ENSG00000226114	ENST00000415445	processed_pseudogene	KNOWN	None	None	None	None	87161585	87161945	-1	None	None
4	None	ENSG00000251716	ENST00000515907	misc_RNA	NOVEL	None	None	None	None	88333380	88333498	1	None	None
1	None	ENSG00000260766	ENST00000562313	sense_overlapping	KNOWN	None	None	None	None	159994743	159996584	-1	None	None
17	None	ENSG00000266378	ENST00000584683	lincRNA	KNOWN	None	None	None	None	14230652	14232791	1	None	None
11	None	ENSG00000254617	ENST00000525489	unprocessed_pseudogene	KNOWN	None	None	None	None	89620534	89623159	1	None	None
17	None	ENSG00000239581	ENST00000494994	processed_pseudogene	KNOWN	None	None	None	None	35497536	35498349	-1	None	None
15	None	ENSG00000221405	ENST00000408478	miRNA	NOVEL	None	None	None	None	32895488	32895570	1	None	None
18	None	ENSG00000266850	ENST00000579356	antisense	KNOWN	None	None	None	None	20303454	20358136	-1	None	None
18	None	ENSG00000266850	ENST00000581274	antisense	KNOWN	None	None	None	None	20303456	20366836	-1	None	None
18	None	ENSG00000266850	ENST00000581177	antisense	KNOWN	None	None	None	None	20303466	20311528	-1	None	None
18	None	ENSG00000266850	ENST00000583086	antisense	KNOWN	None	None	None	None	20364328	20487684	-1	None	None
HSCHR6_MHC_COX	RPL23AP1	ENSG00000241880	ENST00000446846	processed_pseudogene	KNOWN	None	10318	None	None	29688427	29688897	-1	None	None
14	RN7SKP99	ENSG00000252837	ENST00000517028	misc_RNA	KNOWN	None	45823	None	None	58304072	58304378	-1	None	None
17	None	ENSG00000230647	ENST00000436469	lincRNA	KNOWN	None	None	None	None	14277456	14324343	1	None	None
1	None	ENSG00000225279	ENST00000435580	antisense	KNOWN	None	None	None	None	160032278	160049611	1	None	None
5	None	ENSG00000248156	ENST00000510421	processed_pseudogene	KNOWN	None	None	None	None	24786951	24787133	-1	None	None
12	None	ENSG00000248703	ENST00000508505	lincRNA	KNOWN	None	None	None	None	131780655	131782517	-1	None	None
4	None	ENSG00000249001	ENST00000506480	antisense	KNOWN	None	None	None	None	88489187	88653522	-1	None	None
4	None	ENSG00000249001	ENST00000507894	antisense	KNOWN	None	None	None	None	88578245	88594191	-1	None	None
4	None	ENSG00000249001	ENST00000506814	antisense	KNOWN	None	None	None	None	88578258	88581948	-1	None	None
4	None	ENSG00000249001	ENST00000503993	antisense	KNOWN	None	None	None	None	88604150	88655108	-1	None	None
17	WSB1	ENSG00000109046	ENST00000581440	protein_coding	PUTATIVE	None	19221	623	206	25621102	25631929	1	None	DKFZp564A122, DKFZp564B0482, SWIP1
17	WSB1	ENSG00000109046	ENST00000578312	processed_transcript	KNOWN	None	19221	None	None	25621106	25630437	1	None	DKFZp564A122, DKFZp564B0482, SWIP1
17	WSB1	ENSG00000109046	ENST00000262394	protein_coding	KNOWN	CCDS11220	19221	1266	421	25621106	25640657	1	None	DKFZp564A122, DKFZp564B0482, SWIP1
17	WSB1	ENSG00000109046	ENST00000583742	protein_coding	PUTATIVE	None	19221	235	77	25621113	25630448	1	None	DKFZp564A122, DKFZp564B0482, SWIP1
17	WSB1	ENSG00000109046	ENST00000467843	retained_intron	KNOWN	None	19221	None	None	25621119	25640657	1	None	DKFZp564A122, DKFZp564B0482, SWIP1
17	WSB1	ENSG00000109046	ENST00000579733	protein_coding	PUTATIVE	None	19221	297	98	25621129	25635873	1	None	DKFZp564A122, DKFZp564B0482, SWIP1
17	WSB1	ENSG00000109046	ENST00000583193	protein_coding	PUTATIVE	None	19221	165	54	25621138	25634896	1	None	DKFZp564A122, DKFZp564B0482, SWIP1
17	WSB1	ENSG00000109046	ENST00000583786	processed_transcript	KNOWN	None	19221	None	None	25621140	25628976	1	None	DKFZp564A122, DKFZp564B0482, SWIP1
17	WSB1	ENSG00000109046	ENST00000584354	retained_intron	KNOWN	None	19221	None	None	25621140	25629035	1	None	DKFZp564A122, DKFZp564B0482, SWIP1
17	WSB1	ENSG00000109046	ENST00000581185	protein_coding	PUTATIVE	None	19221	744	247	25621140	25634815	1	None	DKFZp564A122, DKFZp564B0482, SWIP1
17	WSB1	ENSG00000109046	ENST00000427287	protein_coding	PUTATIVE	None	19221	642	213	25621140	25635018	1	None	DKFZp564A122, DKFZp564B0482, SWIP1
17	WSB1	ENSG00000109046	ENST00000581089	retained_intron	KNOWN	None	19221	None	None	25621148	25630775	1	None	DKFZp564A122, DKFZp564B0482, SWIP1
17	WSB1	ENSG00000109046	ENST00000348811	protein_coding	KNOWN	CCDS11221	19221	828	275	25621157	25639913	1	None	DKFZp564A122, DKFZp564B0482, SWIP1
17	WSB1	ENSG00000109046	ENST00000582208	nonsense_mediated_decay	KNOWN	None	19221	225	74	25621215	25633884	1	None	DKFZp564A122, DKFZp564B0482, SWIP1
17	WSB1	ENSG00000109046	ENST00000584114	protein_coding	NOVEL	None	19221	429	142	25621372	25636281	1	None	DKFZp564A122, DKFZp564B0482, SWIP1
17	WSB1	ENSG00000109046	ENST00000487603	retained_intron	KNOWN	None	19221	None	None	25629461	25635233	1	None	DKFZp564A122, DKFZp564B0482, SWIP1
17	WSB1	ENSG00000109046	ENST00000583096	retained_intron	KNOWN	None	19221	None	None	25630346	25637198	1	None	DKFZp564A122, DKFZp564B0482, SWIP1
5	None	ENSG00000223004	ENST00000411072	snoRNA	NOVEL	None	None	None	None	24811590	24811657	1	None	None
17	RPS18P12	ENSG00000230897	ENST00000412454	processed_pseudogene	KNOWN	None	35967	None	None	14608393	14608851	-1	None	None
GL000192.1	None	ENSG00000252392	ENST00000516583	snoRNA	NOVEL	None	None	None	None	107278	107339	1	None	None
14	RPL26P3	ENSG00000240179	ENST00000463228	processed_pseudogene	KNOWN	None	19776	None	None	28959116	28959568	1	None	None
8	None	ENSG00000254123	ENST00000520155	lincRNA	KNOWN	None	None	None	None	83010686	83072812	-1	None	None
8	None	ENSG00000254123	ENST00000520988	lincRNA	KNOWN	None	None	None	None	83020800	83072777	-1	None	None
12	RNU6-1093P	ENSG00000212496	ENST00000391194	snRNA	KNOWN	None	48056	None	None	50650021	50650127	-1	None	None
HSCHR6_MHC_COX	HLA-F-AS1	ENSG00000251581	ENST00000514163	unprocessed_pseudogene	KNOWN	None	26645	None	None	29703478	29710717	-1	None	None
5	None	ENSG00000248908	ENST00000504339	lincRNA	KNOWN	None	None	None	None	24835389	24840692	-1	None	None
1	SAMD11	ENSG00000187634	ENST00000420190	protein_coding	KNOWN	None	28706	537	178	860260	874671	1	None	MGC45873
1	SAMD11	ENSG00000187634	ENST00000437963	protein_coding	KNOWN	None	28706	327	108	860530	871173	1	None	MGC45873
1	SAMD11	ENSG00000187634	ENST00000342066	protein_coding	KNOWN	CCDS2	28706	2046	681	861118	879955	1	None	MGC45873
1	SAMD11	ENSG00000187634	ENST00000341065	protein_coding	NOVEL	None	28706	1769	588	865692	879955	1	None	MGC45873
1	SAMD11	ENSG00000187634	ENST00000455979	protein_coding	NOVEL	None	28706	1625	540	874655	879639	1	None	MGC45873
1	SAMD11	ENSG00000187634	ENST00000478729	processed_transcript	KNOWN	None	28706	None	None	875726	877553	1	None	MGC45873
1	SAMD11	ENSG00000187634	ENST00000474461	retained_intron	KNOWN	None	28706	None	None	876456	878374	1	None	MGC45873
1	SAMD11	ENSG00000187634	ENST00000466827	retained_intron	KNOWN	None	28706	None	None	877483	878182	1	None	MGC45873
1	SAMD11	ENSG00000187634	ENST00000464948	retained_intron	KNOWN	None	28706	None	None	877546	878272	1	None	MGC45873
GL000192.1	None	ENSG00000238315	ENST00000459564	miRNA	NOVEL	None	None	None	None	112237	112366	-1	None	None
1	None	ENSG00000237349	ENST00000439282	processed_pseudogene	KNOWN	None	None	None	None	109529585	109529867	-1	None	None
11	RNU6-216P	ENSG00000200152	ENST00000363282	snRNA	KNOWN	None	47179	None	None	74679234	74679337	-1	None	None
1	None	ENSG00000227741	ENST00000418602	antisense	KNOWN	None	None	None	None	160171989	160178659	-1	None	None
14	None	ENSG00000258175	ENST00000549742	lincRNA	KNOWN	None	None	None	None	29061429	29082829	-1	None	None
8	MYC	ENSG00000136997	ENST00000259523	protein_coding	PUTATIVE	None	7553	774	257	128747680	128752723	1	None	c-Myc, bHLHe39, MYCC
8	MYC	ENSG00000136997	ENST00000517291	protein_coding	NOVEL	None	7553	552	183	128747765	128751018	1	None	c-Myc, bHLHe39, MYCC
8	MYC	ENSG00000136997	ENST00000377970	protein_coding	KNOWN	CCDS6359	7553	1365	454	128748330	128753674	1	None	c-Myc, bHLHe39, MYCC
8	MYC	ENSG00000136997	ENST00000524013	protein_coding	NOVEL	None	7553	1362	453	128748466	128753618	1	None	c-Myc, bHLHe39, MYCC
8	MYC	ENSG00000136997	ENST00000520751	protein_coding	PUTATIVE	None	7553	179	58	128748477	128750721	1	None	c-Myc, bHLHe39, MYCC
GL000192.1	None	ENSG00000238602	ENST00000458901	rRNA	NOVEL	None	None	None	None	415332	415454	1	None	None
12	MIR616	ENSG00000208028	ENST00000385293	miRNA	KNOWN	None	32872	None	None	57912946	57913042	-1	MIRN616	hsa-mir-616
2	None	ENSG00000235321	ENST00000432133	antisense	KNOWN	None	None	None	None	169957253	169957720	1	None	None
12	RNA5SP376	ENSG00000212251	ENST00000390949	rRNA	KNOWN	None	43276	None	None	131784185	131784296	-1	RN5S376	None
12	None	ENSG00000203433	ENST00000366252	pseudogene	NOVEL	None	None	None	None	50678449	50678545	-1	None	None
4	BEND4	ENSG00000188848	ENST00000502486	protein_coding	KNOWN	CCDS47048	23815	1605	534	42112955	42154895	-1	CCDC4	FLJ35632, FLJ43965
4	BEND4	ENSG00000188848	ENST00000504360	protein_coding	KNOWN	None	23815	1314	437	42112957	42154895	-1	CCDC4	FLJ35632, FLJ43965
19	NTN5	ENSG00000142233	ENST00000270235	protein_coding	KNOWN	CCDS33068	25208	1470	489	49164664	49176264	-1	None	None
19	NTN5	ENSG00000142233	ENST00000596844	protein_coding	PUTATIVE	None	25208	225	74	49165222	49176338	-1	None	None
19	NTN5	ENSG00000142233	ENST00000600468	retained_intron	KNOWN	None	25208	None	None	49165732	49176284	-1	None	None
2	None	ENSG00000231259	ENST00000452554	unprocessed_pseudogene	KNOWN	None	None	None	None	87258938	87280192	-1	None	None
2	None	ENSG00000231259	ENST00000469523	unprocessed_pseudogene	KNOWN	None	None	None	None	87257800	87303536	-1	None	None
GL000192.1	None	ENSG00000238421	ENST00000459549	snRNA	NOVEL	None	None	None	None	544948	545107	-1	None	None
8	None	ENSG00000253654	ENST00000520250	processed_pseudogene	KNOWN	None	None	None	None	49206586	49207254	-1	None	None
1	None	ENSG00000263380	ENST00000584315	miRNA	NOVEL	None	None	None	None	61549127	61549202	-1	None	None
5	None	ENSG00000250524	ENST00000502861	lincRNA	KNOWN	None	None	None	None	24882052	24885570	-1	None	None
11	OR2AT2P	ENSG00000234611	ENST00000413438	unprocessed_pseudogene	KNOWN	None	19619	None	None	74782193	74783097	-1	None	None
HG104_HG975_PATCH	None	ENSG00000260301	ENST00000568576	antisense	KNOWN	None	None	None	None	144791177	144795754	-1	None	None
14	None	ENSG00000258811	ENST00000556430	lincRNA	KNOWN	None	None	None	None	105309000	105312253	1	None	None
1	None	ENSG00000244716	ENST00000414070	processed_pseudogene	KNOWN	None	None	None	None	109534904	109535458	1	None	None
1	None	ENSG00000244716	ENST00000538262	processed_pseudogene	KNOWN	None	None	None	None	109534878	109535489	1	None	None
12	None	ENSG00000224713	ENST00000356672	antisense	KNOWN	None	None	None	None	58005901	58011848	-1	None	None
12	None	ENSG00000224713	ENST00000444467	antisense	KNOWN	None	None	None	None	58006122	58011828	-1	None	None
12	None	ENSG00000224713	ENST00000593846	antisense	KNOWN	None	None	None	None	58009011	58013421	-1	None	None
X	None	ENSG00000270625	ENST00000603762	processed_pseudogene	KNOWN	None	None	None	None	118356527	118357208	-1	None	None
1	None	ENSG00000265381	ENST00000582216	miRNA	NOVEL	None	None	None	None	160175167	160175254	1	None	None
1	None	ENSG00000270742	ENST00000603233	sense_intronic	KNOWN	None	None	None	None	61590405	61590874	1	None	None
22	HMGXB4	ENSG00000100281	ENST00000420166	protein_coding	PUTATIVE	None	5003	855	284	35653445	35661563	1	HMG2L1	THC211630
22	HMGXB4	ENSG00000100281	ENST00000418170	nonsense_mediated_decay	KNOWN	None	5003	279	92	35653480	35691800	1	HMG2L1	THC211630
22	HMGXB4	ENSG00000100281	ENST00000466438	processed_transcript	KNOWN	None	5003	None	None	35653482	35654581	1	HMG2L1	THC211630
22	HMGXB4	ENSG00000100281	ENST00000455359	protein_coding	PUTATIVE	None	5003	852	283	35653489	35661560	1	HMG2L1	THC211630
22	HMGXB4	ENSG00000100281	ENST00000216106	protein_coding	KNOWN	CCDS33641	5003	1806	601	35653491	35691757	1	HMG2L1	THC211630
22	HMGXB4	ENSG00000100281	ENST00000498325	retained_intron	KNOWN	None	5003	None	None	35657847	35660045	1	HMG2L1	THC211630
22	HMGXB4	ENSG00000100281	ENST00000464480	retained_intron	KNOWN	None	5003	None	None	35658756	35660656	1	HMG2L1	THC211630
22	HMGXB4	ENSG00000100281	ENST00000498212	retained_intron	KNOWN	None	5003	None	None	35682875	35689021	1	HMG2L1	THC211630
22	HMGXB4	ENSG00000100281	ENST00000444518	protein_coding	KNOWN	None	5003	1479	492	35653480	35689762	1	HMG2L1	THC211630
7	None	ENSG00000244556	ENST00000459650	processed_pseudogene	KNOWN	None	None	None	None	128668943	128670581	1	None	None
15	None	ENSG00000259740	ENST00000558258	sense_intronic	KNOWN	None	None	None	None	47817366	47819953	1	None	None
2	None	ENSG00000200822	ENST00000363952	misc_RNA	NOVEL	None	None	None	None	223269704	223269814	1	None	None
7	MIR4652	ENSG00000265423	ENST00000583734	miRNA	KNOWN	None	41615	None	None	93346240	93346317	1	None	hsa-mir-4652
1	None	ENSG00000228606	ENST00000442130	antisense	KNOWN	None	None	None	None	160231534	160232568	1	None	None
2	UBE2V1P6	ENSG00000235995	ENST00000430840	processed_pseudogene	KNOWN	None	44889	None	None	169971705	169972190	1	None	None
12	None	ENSG00000230294	ENST00000428272	lincRNA	KNOWN	None	None	None	None	131832015	131852100	1	None	None
8	HNRNPA1P4	ENSG00000206228	ENST00000509706	processed_pseudogene	KNOWN	None	32234	None	None	83203859	83204614	-1	HNRPA1P4	None
5	None	ENSG00000199911	ENST00000363041	misc_RNA	NOVEL	None	None	None	None	24910703	24910804	1	None	None
17	None	ENSG00000226130	ENST00000455092	lincRNA	KNOWN	None	None	None	None	14629046	14633003	1	None	None
8	RNU6-295P	ENSG00000252710	ENST00000516901	snRNA	KNOWN	None	47258	None	None	49220487	49220590	-1	None	None
2	NANOGP2	ENSG00000228670	ENST00000435391	processed_pseudogene	KNOWN	None	23100	None	None	223317119	223317845	-1	None	NANOGP4
22	None	ENSG00000213888	ENST00000504184	protein_coding	KNOWN	None	None	396	131	31742875	31744670	1	None	None
11	None	ENSG00000254610	ENST00000527543	lincRNA	KNOWN	None	None	None	None	67702034	67707245	-1	None	None
4	None	ENSG00000200024	ENST00000363154	misc_RNA	NOVEL	None	None	None	None	88665104	88665205	-1	None	None
5	None	ENSG00000251273	ENST00000507600	lincRNA	KNOWN	None	None	None	None	25126414	25190765	-1	None	None
17	None	ENSG00000205325	ENST00000379640	lincRNA	KNOWN	None	None	None	None	14670900	14683520	-1	None	None
14	None	ENSG00000258912	ENST00000553346	lincRNA	KNOWN	None	None	None	None	86481030	86529304	-1	None	None
18	UBE2CP2	ENSG00000265939	ENST00000583290	processed_pseudogene	KNOWN	None	43551	None	None	20480449	20480958	-1	None	None
12	None	ENSG00000203432	ENST00000366251	pseudogene	NOVEL	None	None	None	None	50683977	50684073	-1	None	None
3	APOOP2	ENSG00000240902	ENST00000461561	processed_pseudogene	KNOWN	None	48740	None	None	87643988	87644526	1	None	None
17	HMGB1P24	ENSG00000254982	ENST00000452924	transcribed_processed_pseudogene	KNOWN	None	39115	None	None	35500531	35501215	-1	None	None
17	HMGB1P24	ENSG00000254982	ENST00000531465	processed_transcript	KNOWN	None	39115	None	None	35501060	35501387	-1	None	None
14	EIF4A1P12	ENSG00000257662	ENST00000551910	processed_pseudogene	KNOWN	None	37933	None	None	29062985	29063125	1	None	None
4	None	ENSG00000238652	ENST00000458772	snoRNA	NOVEL	None	None	None	None	88689637	88689733	-1	None	None
14	None	ENSG00000258593	ENST00000553344	lincRNA	KNOWN	None	None	None	None	105324129	105325173	-1	None	None
1	None	ENSG00000228665	ENST00000434429	processed_pseudogene	KNOWN	None	None	None	None	109572689	109572941	1	None	None
3	PSMC1P6	ENSG00000240255	ENST00000477233	processed_pseudogene	KNOWN	None	39781	None	None	87679451	87680769	-1	None	None
1	None	ENSG00000237853	ENST00000442027	lincRNA	KNOWN	None	None	None	None	61714617	61719182	-1	None	None
1	None	ENSG00000237853	ENST00000596354	lincRNA	KNOWN	None	None	None	None	61714666	61719182	-1	None	None
1	None	ENSG00000237853	ENST00000596404	lincRNA	KNOWN	None	None	None	None	61714668	61719182	-1	None	None
1	None	ENSG00000272167	ENST00000607258	antisense	KNOWN	None	None	None	None	214202236	214204109	-1	None	None
4	CHCHD2P7	ENSG00000249973	ENST00000508008	processed_pseudogene	KNOWN	None	39591	None	None	88707072	88707523	-1	None	None
3	VPS26AP1	ENSG00000240375	ENST00000483197	processed_pseudogene	KNOWN	None	44611	None	None	113638069	113639047	1	None	None
HG348_PATCH	CWC15	ENSG00000261974	ENST00000570729	protein_coding	KNOWN	None	26939	690	229	94695787	94706777	-1	None	C11orf5, HSPC148, Cwf15
HG348_PATCH	CWC15	ENSG00000261974	ENST00000591941	retained_intron	KNOWN	None	26939	None	None	94696507	94703420	-1	None	C11orf5, HSPC148, Cwf15
HG348_PATCH	CWC15	ENSG00000261974	ENST00000592781	retained_intron	KNOWN	None	26939	None	None	94696533	94706751	-1	None	C11orf5, HSPC148, Cwf15
HG348_PATCH	CWC15	ENSG00000261974	ENST00000585545	retained_intron	KNOWN	None	26939	None	None	94703653	94706737	-1	None	C11orf5, HSPC148, Cwf15
HG348_PATCH	CWC15	ENSG00000261974	ENST00000591112	retained_intron	KNOWN	None	26939	None	None	94703954	94706698	-1	None	C11orf5, HSPC148, Cwf15
HG348_PATCH	CWC15	ENSG00000261974	ENST00000585354	retained_intron	KNOWN	None	26939	None	None	94704129	94706711	-1	None	C11orf5, HSPC148, Cwf15
4	SGMS2	ENSG00000164023	ENST00000506462	processed_transcript	PUTATIVE	None	28395	None	None	108745719	108816703	1	None	MGC26963, SMS2
4	SGMS2	ENSG00000164023	ENST00000394684	protein_coding	KNOWN	CCDS3677	28395	1098	365	108745719	108836203	1	None	MGC26963, SMS2
4	SGMS2	ENSG00000164023	ENST00000515332	processed_transcript	PUTATIVE	None	28395	None	None	108746038	108816509	1	None	MGC26963, SMS2
4	SGMS2	ENSG00000164023	ENST00000503862	protein_coding	PUTATIVE	None	28395	375	124	108746364	108829887	1	None	MGC26963, SMS2
4	SGMS2	ENSG00000164023	ENST00000359079	protein_coding	KNOWN	CCDS3677	28395	1098	365	108814394	108832109	1	None	MGC26963, SMS2
4	SGMS2	ENSG00000164023	ENST00000506993	protein_coding	KNOWN	None	28395	104	33	108814412	108816813	1	None	MGC26963, SMS2
4	SGMS2	ENSG00000164023	ENST00000394686	protein_coding	KNOWN	CCDS3677	28395	1098	365	108814430	108832109	1	None	MGC26963, SMS2
4	SGMS2	ENSG00000164023	ENST00000503385	protein_coding	KNOWN	None	28395	134	43	108815404	108816843	1	None	MGC26963, SMS2
4	SGMS2	ENSG00000164023	ENST00000504754	processed_transcript	KNOWN	None	28395	None	None	108828356	108829383	1	None	MGC26963, SMS2
8	None	ENSG00000253503	ENST00000522776	lincRNA	KNOWN	None	None	None	None	83426803	83589388	-1	None	None
8	None	ENSG00000253503	ENST00000518367	lincRNA	KNOWN	None	None	None	None	83435571	83448642	-1	None	None
1	None	ENSG00000228470	ENST00000443622	sense_overlapping	KNOWN	None	None	None	None	214517515	214530958	-1	None	None
11	None	ENSG00000254785	ENST00000531260	unprocessed_pseudogene	KNOWN	None	None	None	None	89628967	89633617	-1	None	None
11	None	ENSG00000254850	ENST00000529649	processed_pseudogene	KNOWN	None	None	None	None	67703029	67703397	1	None	None
1	None	ENSG00000224261	ENST00000453374	processed_pseudogene	KNOWN	None	None	None	None	160236130	160237015	-1	None	None
18	None	ENSG00000238537	ENST00000459133	snoRNA	NOVEL	None	None	None	None	20481487	20481589	-1	None	None
2	RNU6-619P	ENSG00000202016	ENST00000365146	snRNA	KNOWN	None	47582	None	None	223363010	223363117	1	None	None
8	RPL29P19	ENSG00000224594	ENST00000425197	processed_pseudogene	KNOWN	None	35508	None	None	49297150	49297609	1	None	None
HG1032_PATCH	FRG2	ENSG00000259808	ENST00000563327	protein_coding	NOVEL	None	19136	840	279	190945506	190948409	-1	None	FRG2A
HG1032_PATCH	FRG2	ENSG00000259808	ENST00000569512	protein_coding	KNOWN	None	19136	837	278	190945522	190948412	-1	None	FRG2A
4	HSP90AB3P	ENSG00000183199	ENST00000505987	processed_pseudogene	KNOWN	None	5259	None	None	88812995	88815167	1	HSPCP1	None
5	None	ENSG00000245662	ENST00000502100	lincRNA	KNOWN	None	None	None	None	25190791	25306281	1	None	None
HSCHR6_MHC_DBB	HLA-DQA1	ENSG00000236418	ENST00000414549	protein_coding	KNOWN	None	4942	73	23	32574291	32583638	1	HLA-DQA	CELIAC1
HSCHR6_MHC_DBB	HLA-DQA1	ENSG00000236418	ENST00000453504	protein_coding	KNOWN	None	4942	765	254	32583464	32589674	1	HLA-DQA	CELIAC1
HSCHR6_MHC_DBB	HLA-DQA1	ENSG00000236418	ENST00000457246	protein_coding	KNOWN	None	4942	765	254	32583464	32589674	1	HLA-DQA	CELIAC1
HSCHR6_MHC_DBB	HLA-DQA1	ENSG00000236418	ENST00000442315	protein_coding	KNOWN	None	4942	765	254	32583508	32589674	1	HLA-DQA	CELIAC1
HSCHR6_MHC_DBB	HLA-DQA1	ENSG00000236418	ENST00000477036	processed_transcript	KNOWN	None	4942	None	None	32583513	32588997	1	HLA-DQA	CELIAC1
HSCHR6_MHC_DBB	HLA-DQA1	ENSG00000236418	ENST00000450960	protein_coding	KNOWN	None	4942	765	254	32583527	32589033	1	HLA-DQA	CELIAC1
HSCHR6_MHC_DBB	HLA-DQA1	ENSG00000236418	ENST00000466849	processed_transcript	PUTATIVE	None	4942	None	None	32583531	32588268	1	HLA-DQA	CELIAC1
HSCHR6_MHC_DBB	HLA-DQA1	ENSG00000236418	ENST00000461508	nonsense_mediated_decay	KNOWN	None	4942	348	115	32583534	32589294	1	HLA-DQA	CELIAC1
HSCHR6_MHC_DBB	HLA-DQA1	ENSG00000236418	ENST00000497426	retained_intron	KNOWN	None	4942	None	None	32583538	32596644	1	HLA-DQA	CELIAC1
HSCHR6_MHC_DBB	HLA-DQA1	ENSG00000236418	ENST00000482066	processed_transcript	PUTATIVE	None	4942	None	None	32587342	32589294	1	HLA-DQA	CELIAC1
18	MIR4741	ENSG00000264817	ENST00000579822	miRNA	KNOWN	None	41661	None	None	20513312	20513401	1	None	hsa-mir-4741
2	GAPDHP49	ENSG00000234285	ENST00000421421	processed_pseudogene	KNOWN	None	38555	None	None	223368602	223369562	-1	None	None
3	NR2C2	ENSG00000177463	ENST00000413118	protein_coding	NOVEL	None	7972	202	66	14989091	15055225	1	TR4	TAK1, TR2R1, hTAK1
3	NR2C2	ENSG00000177463	ENST00000425241	protein_coding	NOVEL	None	7972	1791	596	14989091	15084856	1	TR4	TAK1, TR2R1, hTAK1
3	NR2C2	ENSG00000177463	ENST00000435454	protein_coding	KNOWN	None	7972	108	35	14989212	15046099	1	TR4	TAK1, TR2R1, hTAK1
3	NR2C2	ENSG00000177463	ENST00000323373	protein_coding	KNOWN	CCDS2621	7972	1848	615	14989236	15084856	1	TR4	TAK1, TR2R1, hTAK1
3	NR2C2	ENSG00000177463	ENST00000475707	retained_intron	KNOWN	None	7972	None	None	14990139	15084856	1	TR4	TAK1, TR2R1, hTAK1
3	NR2C2	ENSG00000177463	ENST00000393102	protein_coding	NOVEL	None	7972	1791	596	15003914	15084536	1	TR4	TAK1, TR2R1, hTAK1
3	NR2C2	ENSG00000177463	ENST00000437120	protein_coding	KNOWN	None	7972	616	204	15003916	15062442	1	TR4	TAK1, TR2R1, hTAK1
3	NR2C2	ENSG00000177463	ENST00000478572	processed_transcript	KNOWN	None	7972	None	None	15067072	15084844	1	TR4	TAK1, TR2R1, hTAK1
3	NR2C2	ENSG00000177463	ENST00000439011	protein_coding	PUTATIVE	None	7972	669	222	15073934	15095107	1	TR4	TAK1, TR2R1, hTAK1
3	NR2C2	ENSG00000177463	ENST00000495282	retained_intron	KNOWN	None	7972	None	None	15075831	15079554	1	TR4	TAK1, TR2R1, hTAK1
3	NR2C2	ENSG00000177463	ENST00000413194	protein_coding	PUTATIVE	None	7972	522	173	15076160	15095107	1	TR4	TAK1, TR2R1, hTAK1
3	NR2C2	ENSG00000177463	ENST00000406272	protein_coding	KNOWN	None	7972	1791	596	15045422	15084515	1	TR4	TAK1, TR2R1, hTAK1
1	None	ENSG00000213036	ENST00000432577	processed_pseudogene	KNOWN	None	None	None	None	214656156	214656730	-1	None	None
17	None	ENSG00000242429	ENST00000492524	processed_pseudogene	KNOWN	None	None	None	None	35519530	35520053	1	None	None
12	None	ENSG00000203431	ENST00000366250	pseudogene	NOVEL	None	None	None	None	50684744	50684840	1	None	None
1	RANP5	ENSG00000228054	ENST00000427731	processed_pseudogene	KNOWN	None	39860	None	None	109589450	109590104	1	None	None
15	None	ENSG00000221202	ENST00000408275	miRNA	NOVEL	None	None	None	None	47844672	47844768	-1	None	None
19	None	ENSG00000268166	ENST00000593658	lincRNA	KNOWN	None	None	None	None	40526292	40526948	1	None	None
18	RN7SL745P	ENSG00000242182	ENST00000484900	misc_RNA	KNOWN	None	46761	None	None	20584527	20584820	1	None	None
4	RNU1-36P	ENSG00000202000	ENST00000365130	snRNA	KNOWN	None	48378	None	None	88921389	88921553	1	None	None
18	SLC14A2	ENSG00000132874	ENST00000586448	protein_coding	KNOWN	CCDS11924	10919	2763	920	42792960	43262940	1	None	HUT2, UT2
18	SLC14A2	ENSG00000132874	ENST00000255226	protein_coding	KNOWN	CCDS11924	10919	2763	920	43194766	43263072	1	None	HUT2, UT2
18	SLC14A2	ENSG00000132874	ENST00000323329	nonsense_mediated_decay	KNOWN	None	10919	708	235	43195446	43224373	1	None	HUT2, UT2
18	SLC14A2	ENSG00000132874	ENST00000589658	protein_coding	KNOWN	None	10919	1194	397	43246107	43263058	1	None	HUT2, UT2
18	None	ENSG00000223023	ENST00000411091	misc_RNA	NOVEL	None	None	None	None	20604559	20604666	1	None	None
1	None	ENSG00000264551	ENST00000580743	miRNA	NOVEL	None	None	None	None	62094703	62094793	1	None	None
15	None	ENSG00000259588	ENST00000558185	antisense	KNOWN	None	None	None	None	47896077	47898549	-1	None	None
12	None	ENSG00000203430	ENST00000366249	pseudogene	NOVEL	None	None	None	None	50688917	50689013	1	None	None
1	None	ENSG00000235082	ENST00000439961	processed_pseudogene	KNOWN	None	None	None	None	160287193	160287496	1	None	None
11	None	ENSG00000254595	ENST00000524809	processed_pseudogene	KNOWN	None	None	None	None	6509416	6510607	-1	None	None
4	None	ENSG00000241853	ENST00000471148	processed_pseudogene	KNOWN	None	None	None	None	89084731	89085119	1	None	None
18	None	ENSG00000222999	ENST00000411067	miRNA	NOVEL	None	None	None	None	20716399	20716476	-1	None	None
1	None	ENSG00000223920	ENST00000416440	processed_pseudogene	KNOWN	None	None	None	None	62119866	62120580	1	None	None
7	OR2A7	ENSG00000243896	ENST00000493325	protein_coding	KNOWN	CCDS55177	8234	933	310	143955700	143956815	-1	None	HSDJ0798C17
3	None	ENSG00000270880	ENST00000605304	processed_pseudogene	KNOWN	None	None	None	None	113702884	113703502	1	None	None
9	HABP4	ENSG00000130956	ENST00000375251	protein_coding	KNOWN	None	17062	927	308	99212483	99253618	1	None	IHABP4, SERBP1L
9	HABP4	ENSG00000130956	ENST00000375249	protein_coding	KNOWN	CCDS6719	17062	1242	413	99212487	99253618	1	None	IHABP4, SERBP1L
9	HABP4	ENSG00000130956	ENST00000466976	processed_transcript	KNOWN	None	17062	None	None	99245307	99253618	1	None	IHABP4, SERBP1L
4	RNU6-818P	ENSG00000201707	ENST00000364837	snRNA	KNOWN	None	47781	None	None	89122855	89122962	1	None	None
9	FAM166B	ENSG00000215187	ENST00000492890	processed_transcript	KNOWN	None	34242	None	None	35561828	35563871	-1	None	None
9	FAM166B	ENSG00000215187	ENST00000480287	processed_transcript	KNOWN	None	34242	None	None	35561832	35563044	-1	None	None
9	FAM166B	ENSG00000215187	ENST00000399742	protein_coding	NOVEL	CCDS56572	34242	828	275	35561945	35563896	-1	None	None
9	FAM166B	ENSG00000215187	ENST00000447837	nonsense_mediated_decay	KNOWN	CCDS47963	34242	651	216	35561946	35563896	-1	None	None
9	FAM166B	ENSG00000215187	ENST00000478246	processed_transcript	KNOWN	None	34242	None	None	35562154	35562954	-1	None	None
8	None	ENSG00000253140	ENST00000521359	lincRNA	KNOWN	None	None	None	None	49428412	49429649	-1	None	None
1	SCARNA2	ENSG00000270066	ENST00000602755	lincRNA	KNOWN	None	32558	None	None	109642815	109643241	1	None	mgU2-25/61, HBII-382
1	SCARNA2	ENSG00000270066	ENST00000458748	snoRNA	KNOWN	None	32558	None	None	109642815	109643234	1	None	mgU2-25/61, HBII-382
11	MTND1P35	ENSG00000255055	ENST00000526739	processed_pseudogene	KNOWN	None	42088	None	None	89641708	89642215	1	None	None
7	CCL24	ENSG00000106178	ENST00000222902	protein_coding	KNOWN	CCDS34670	10623	360	119	75440983	75443124	-1	SCYA24	Ckb-6, MPIF-2, eotaxin-2, MPIF2
7	CCL24	ENSG00000106178	ENST00000416943	protein_coding	KNOWN	CCDS34670	10623	360	119	75440983	75452674	-1	SCYA24	Ckb-6, MPIF-2, eotaxin-2, MPIF2
11	NPM1P50	ENSG00000213333	ENST00000532878	processed_pseudogene	KNOWN	None	45229	None	None	74790310	74791176	-1	None	None
19	None	ENSG00000269069	ENST00000597336	processed_pseudogene	KNOWN	None	None	None	None	40529291	40531409	-1	None	None
12	None	ENSG00000257718	ENST00000551152	antisense	KNOWN	None	None	None	None	39300253	39303394	1	None	None
1	KRT18P12	ENSG00000215819	ENST00000425245	processed_pseudogene	KNOWN	None	33410	None	None	214705538	214706810	1	None	None
1	None	ENSG00000271200	ENST00000605725	lincRNA	KNOWN	None	None	None	None	62207670	62208096	-1	None	None
4	RNU6ATAC31P	ENSG00000221440	ENST00000408513	snRNA	KNOWN	None	46930	None	None	89127579	89127704	-1	None	None
1	None	ENSG00000202078	ENST00000365208	misc_RNA	NOVEL	None	None	None	None	160295894	160296006	-1	None	None
3	MRPS10P2	ENSG00000234325	ENST00000431226	processed_pseudogene	KNOWN	None	29727	None	None	4456264	4456644	-1	None	MRPS10P3, MRPS10P4
2	None	ENSG00000269210	ENST00000601251	protein_coding	KNOWN	None	None	720	239	39186764	39187483	-1	None	None
3	SLC51A	ENSG00000163959	ENST00000416660	protein_coding	PUTATIVE	None	29955	199	65	195938358	195944741	1	None	OSTalpha
3	SLC51A	ENSG00000163959	ENST00000296327	protein_coding	KNOWN	CCDS3314	29955	1023	340	195943375	195960301	1	None	OSTalpha
3	SLC51A	ENSG00000163959	ENST00000442203	nonsense_mediated_decay	KNOWN	None	29955	177	58	195943405	195953902	1	None	OSTalpha
3	SLC51A	ENSG00000163959	ENST00000472653	retained_intron	KNOWN	None	29955	None	None	195943406	195954436	1	None	OSTalpha
3	SLC51A	ENSG00000163959	ENST00000428985	protein_coding	NOVEL	None	29955	636	211	195944763	195955756	1	None	OSTalpha
3	SLC51A	ENSG00000163959	ENST00000476129	retained_intron	KNOWN	None	29955	None	None	195953387	195954354	1	None	OSTalpha
3	SLC51A	ENSG00000163959	ENST00000475672	retained_intron	KNOWN	None	29955	None	None	195954395	195959865	1	None	OSTalpha
3	SLC51A	ENSG00000163959	ENST00000484407	retained_intron	KNOWN	None	29955	None	None	195954812	195960301	1	None	OSTalpha
3	SLC51A	ENSG00000163959	ENST00000475271	retained_intron	KNOWN	None	29955	None	None	195954950	195960251	1	None	OSTalpha
3	SLC51A	ENSG00000163959	ENST00000471430	retained_intron	KNOWN	None	29955	None	None	195955492	195956934	1	None	OSTalpha
3	SLC51A	ENSG00000163959	ENST00000415111	protein_coding	PUTATIVE	None	29955	72	23	195956876	195970049	1	None	OSTalpha
3	SLC51A	ENSG00000163959	ENST00000492794	retained_intron	KNOWN	None	29955	None	None	195959275	195960294	1	None	OSTalpha
3	SLC51A	ENSG00000163959	ENST00000496737	processed_transcript	PUTATIVE	None	29955	None	None	195960018	195967751	1	None	OSTalpha
3	SLC51A	ENSG00000163959	ENST00000479732	processed_transcript	PUTATIVE	None	29955	None	None	195960321	195964524	1	None	OSTalpha
3	None	ENSG00000239572	ENST00000462792	lincRNA	KNOWN	None	None	None	None	87780552	87842779	-1	None	None
18	None	ENSG00000266495	ENST00000585184	processed_transcript	KNOWN	None	None	None	None	20837128	20840318	-1	None	None
1	RNU6-414P	ENSG00000200575	ENST00000363705	snRNA	KNOWN	None	47377	None	None	62282091	62282194	1	None	None
1	RNU4-42P	ENSG00000201608	ENST00000364738	snRNA	KNOWN	None	46978	None	None	160362558	160362699	-1	None	None
4	None	ENSG00000251285	ENST00000509147	processed_pseudogene	KNOWN	None	None	None	None	89141721	89144989	-1	None	None
1	None	ENSG00000251484	ENST00000429752	processed_pseudogene	KNOWN	None	None	None	None	109646157	109647388	-1	None	None
HG104_HG975_PATCH	None	ENSG00000260056	ENST00000563450	antisense	KNOWN	None	None	None	None	144800416	144801061	-1	None	None
1	RNU6-1177P	ENSG00000212360	ENST00000391058	snRNA	KNOWN	None	48140	None	None	62318171	62318274	1	None	None
22	DRG1	ENSG00000185721	ENST00000331457	protein_coding	KNOWN	CCDS13897	3029	1104	367	31795509	31830438	1	NEDD3	None
22	DRG1	ENSG00000185721	ENST00000416465	nonsense_mediated_decay	KNOWN	None	3029	192	63	31795596	31819305	1	NEDD3	None
22	DRG1	ENSG00000185721	ENST00000433341	processed_transcript	KNOWN	None	3029	None	None	31795603	31819332	1	NEDD3	None
22	DRG1	ENSG00000185721	ENST00000486584	processed_transcript	KNOWN	None	3029	None	None	31795619	31807046	1	NEDD3	None
22	DRG1	ENSG00000185721	ENST00000469673	retained_intron	KNOWN	None	3029	None	None	31822499	31830141	1	NEDD3	None
22	DRG1	ENSG00000185721	ENST00000548143	nonsense_mediated_decay	KNOWN	None	3029	169	55	31822727	31924726	1	NEDD3	None
1	None	ENSG00000223009	ENST00000411077	miRNA	NOVEL	None	None	None	None	160473166	160473246	-1	None	None
18	None	ENSG00000199357	ENST00000362487	misc_RNA	NOVEL	None	None	None	None	21036335	21036431	1	None	None
4	RNU6-1298P	ENSG00000199326	ENST00000362456	snRNA	KNOWN	None	48261	None	None	89147881	89147981	1	None	None
HG104_HG975_PATCH	MIR4664	ENSG00000264143	ENST00000581953	miRNA	KNOWN	None	41777	None	None	144815253	144815323	-1	None	hsa-mir-4664
2	None	ENSG00000261428	ENST00000568928	antisense	KNOWN	None	None	None	None	223431624	223434438	-1	None	None
1	LAMTOR5P1	ENSG00000236646	ENST00000444290	processed_pseudogene	KNOWN	None	31854	None	None	62504514	62504783	1	HBXIPP1	HBXIPL
19	None	ENSG00000269749	ENST00000595508	processed_transcript	KNOWN	None	None	None	None	40554664	40596832	-1	None	None
12	None	ENSG00000203428	ENST00000366247	pseudogene	NOVEL	None	None	None	None	50695577	50695673	-1	None	None
1	None	ENSG00000234425	ENST00000446952	antisense	KNOWN	None	None	None	None	160506863	160541248	1	None	None
18	None	ENSG00000199366	ENST00000362496	misc_RNA	NOVEL	None	None	None	None	21161980	21162085	-1	None	None
4	RNU6-112P	ENSG00000200469	ENST00000363599	snRNA	KNOWN	None	47075	None	None	89196357	89196460	-1	None	None
1	RNU7-122P	ENSG00000238310	ENST00000459200	snRNA	KNOWN	None	45656	None	None	109750416	109750470	-1	None	None
12	None	ENSG00000252801	ENST00000516992	miRNA	NOVEL	None	None	None	None	39307042	39307128	-1	None	None
18	RPS10P27	ENSG00000267752	ENST00000586795	processed_pseudogene	KNOWN	None	36850	None	None	21252217	21252712	-1	None	None
9	C9orf141	ENSG00000198454	ENST00000371629	protein_coding	KNOWN	None	18147	693	230	139863695	139866442	1	None	None
HG104_HG975_PATCH	FAM83H-AS1	ENSG00000260333	ENST00000564916	processed_transcript	KNOWN	None	48720	None	None	144816310	144828507	1	None	None
HG104_HG975_PATCH	FAM83H-AS1	ENSG00000260333	ENST00000565974	processed_transcript	KNOWN	None	48720	None	None	144821566	144824305	1	None	None
12	None	ENSG00000256484	ENST00000539209	lincRNA	KNOWN	None	None	None	None	131851205	131855604	1	None	None
3	None	ENSG00000240912	ENST00000465850	processed_pseudogene	KNOWN	None	None	None	None	113822096	113822475	-1	None	None
4	None	ENSG00000246375	ENST00000500009	lincRNA	KNOWN	None	None	None	None	89206094	89252573	1	None	None
1	None	ENSG00000254942	ENST00000526411	antisense	KNOWN	None	None	None	None	110082528	110086459	-1	None	None
3	PLSCR4	ENSG00000114698	ENST00000354952	protein_coding	KNOWN	CCDS3133	16497	990	329	145910126	145968966	-1	None	None
3	PLSCR4	ENSG00000114698	ENST00000433593	protein_coding	PUTATIVE	CCDS54651	16497	675	224	145910192	145968866	-1	None	None
3	PLSCR4	ENSG00000114698	ENST00000446574	protein_coding	KNOWN	CCDS3133	16497	990	329	145912078	145968654	-1	None	None
3	PLSCR4	ENSG00000114698	ENST00000493382	protein_coding	KNOWN	CCDS3133	16497	990	329	145912144	145968930	-1	None	None
3	PLSCR4	ENSG00000114698	ENST00000475019	retained_intron	KNOWN	None	16497	None	None	145914192	145939879	-1	None	None
3	PLSCR4	ENSG00000114698	ENST00000460350	protein_coding	KNOWN	None	16497	786	261	145914419	145968912	-1	None	None
3	PLSCR4	ENSG00000114698	ENST00000460885	protein_coding	NOVEL	None	16497	442	146	145914493	145968892	-1	None	None
3	PLSCR4	ENSG00000114698	ENST00000476202	protein_coding	KNOWN	None	16497	624	207	145917600	145968870	-1	None	None
3	PLSCR4	ENSG00000114698	ENST00000481701	protein_coding	KNOWN	None	16497	428	141	145917796	145940220	-1	None	None
3	PLSCR4	ENSG00000114698	ENST00000498625	protein_coding	KNOWN	None	16497	293	96	145924374	145940158	-1	None	None
3	PLSCR4	ENSG00000114698	ENST00000383083	protein_coding	KNOWN	None	16497	720	239	145910126	145968966	-1	None	None
11	None	ENSG00000255230	ENST00000527532	processed_pseudogene	KNOWN	None	None	None	None	67733344	67733698	-1	None	None
1	None	ENSG00000264286	ENST00000577282	miRNA	NOVEL	None	None	None	None	160515438	160515535	-1	None	None
2	None	ENSG00000229827	ENST00000457984	processed_pseudogene	KNOWN	None	None	None	None	170433881	170434256	-1	None	None
16	MIR3670-2	ENSG00000264722	ENST00000582974	miRNA	KNOWN	None	43460	None	None	16400227	16400291	1	None	hsa-mir-3670-2
9	KLF9	ENSG00000119138	ENST00000377126	protein_coding	KNOWN	CCDS6633	1123	735	244	72999503	73029540	-1	BTEB1	None
1	RN7SL180P	ENSG00000242860	ENST00000466769	misc_RNA	KNOWN	None	46196	None	None	62538120	62538411	1	None	None
18	RPL23AP77	ENSG00000267301	ENST00000588044	processed_pseudogene	KNOWN	None	36354	None	None	21289789	21290251	-1	None	None
1	ABHD17AP3	ENSG00000250536	ENST00000503096	unprocessed_pseudogene	KNOWN	None	34041	None	None	214778813	214782183	-1	FAM108A4, FAM108A4P	None
1	SETP9	ENSG00000235101	ENST00000423837	transcribed_processed_pseudogene	KNOWN	None	42928	None	None	160639938	160640769	1	None	None
1	RNU6V	ENSG00000206832	ENST00000384105	snRNA	KNOWN	None	10230	None	None	110134156	110134262	-1	None	87U6, LH87
12	None	ENSG00000203427	ENST00000366246	pseudogene	NOVEL	None	None	None	None	50697570	50697669	1	None	None
3	RNU6-873P	ENSG00000200703	ENST00000363833	snRNA	KNOWN	None	47836	None	None	87791693	87791799	-1	None	None
4	None	ENSG00000207480	ENST00000384749	misc_RNA	NOVEL	None	None	None	None	89251328	89251430	-1	None	None
1	MIR3116-1	ENSG00000263908	ENST00000584654	miRNA	KNOWN	None	38200	None	None	62544458	62544531	1	None	hsa-mir-3116-1
1	MIR3116-2	ENSG00000263908	ENST00000584654	miRNA	KNOWN	None	38318	None	None	62544458	62544531	1	None	hsa-mir-3116-2
5	None	ENSG00000250994	ENST00000513329	lincRNA	KNOWN	None	None	None	None	133772402	133828210	1	None	None
X	None	ENSG00000224931	ENST00000415779	unprocessed_pseudogene	KNOWN	None	None	None	None	152537078	152543256	1	None	None
X	None	ENSG00000224931	ENST00000458091	unprocessed_pseudogene	KNOWN	None	None	None	None	152542361	152543260	1	None	None
HG243_PATCH	None	ENSG00000260428	ENST00000567180	antisense	KNOWN	None	None	None	None	145321898	145323384	1	None	None
HSCHR6_MHC_DBB	RPP21	ENSG00000243009	ENST00000430819	protein_coding	KNOWN	None	21300	489	162	30303165	30304891	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_DBB	RPP21	ENSG00000243009	ENST00000467113	processed_transcript	KNOWN	None	21300	None	None	30303168	30304527	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_DBB	RPP21	ENSG00000243009	ENST00000478784	retained_intron	KNOWN	None	21300	None	None	30303176	30304891	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_DBB	RPP21	ENSG00000243009	ENST00000498637	processed_transcript	KNOWN	None	21300	None	None	30303185	30304891	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_DBB	RPP21	ENSG00000243009	ENST00000490158	processed_transcript	KNOWN	None	21300	None	None	30303187	30304918	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_DBB	RPP21	ENSG00000243009	ENST00000492100	retained_intron	KNOWN	None	21300	None	None	30303189	30304891	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_DBB	RPP21	ENSG00000243009	ENST00000414187	protein_coding	KNOWN	None	21300	465	154	30303193	30304891	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_DBB	RPP21	ENSG00000243009	ENST00000452262	protein_coding	KNOWN	None	21300	534	177	30303193	30304891	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_DBB	RPP21	ENSG00000243009	ENST00000439797	protein_coding	KNOWN	None	21300	435	144	30303203	30304891	1	C6orf135	FLJ22638, Em:AB014085.3
1	None	ENSG00000225113	ENST00000436416	antisense	KNOWN	None	None	None	None	110138847	110140403	1	None	None
2	FABP1	ENSG00000163586	ENST00000295834	protein_coding	KNOWN	CCDS2001	3555	384	127	88422510	88427635	-1	None	L-FABP
2	FABP1	ENSG00000163586	ENST00000393750	protein_coding	NOVEL	None	3555	375	124	88422539	88427568	-1	None	L-FABP
2	FABP1	ENSG00000163586	ENST00000495375	processed_transcript	KNOWN	None	3555	None	None	88422548	88427560	-1	None	L-FABP
2	FABP1	ENSG00000163586	ENST00000472846	retained_intron	KNOWN	None	3555	None	None	88425431	88427578	-1	None	L-FABP
18	None	ENSG00000221389	ENST00000408462	miRNA	NOVEL	None	None	None	None	21474079	21474170	-1	None	None
12	None	ENSG00000257586	ENST00000548295	unprocessed_pseudogene	KNOWN	None	None	None	None	39388605	39390684	-1	None	None
7	CTAGE8	ENSG00000244693	ENST00000487179	protein_coding	KNOWN	None	37294	2334	777	143963794	143966381	-1	None	None
4	None	ENSG00000221079	ENST00000408152	miRNA	NOVEL	None	None	None	None	89415084	89415168	1	None	None
2	TGOLN2	ENSG00000152291	ENST00000377386	protein_coding	KNOWN	CCDS46351	15450	1314	437	85545147	85555548	-1	None	TGN51, TGN46, TGN48, TGN38, TTGN2
2	TGOLN2	ENSG00000152291	ENST00000398263	protein_coding	NOVEL	CCDS56127	15450	1140	379	85545150	85555374	-1	None	TGN51, TGN46, TGN48, TGN38, TTGN2
2	TGOLN2	ENSG00000152291	ENST00000409232	protein_coding	NOVEL	CCDS56126	15450	1362	453	85549017	85555147	-1	None	TGN51, TGN46, TGN48, TGN38, TTGN2
2	TGOLN2	ENSG00000152291	ENST00000409015	protein_coding	NOVEL	None	15450	1365	454	85549017	85555147	-1	None	TGN51, TGN46, TGN48, TGN38, TTGN2
2	TGOLN2	ENSG00000152291	ENST00000444342	protein_coding	PUTATIVE	None	15450	1344	447	85551508	85555108	-1	None	TGN51, TGN46, TGN48, TGN38, TTGN2
2	TGOLN2	ENSG00000152291	ENST00000282120	protein_coding	KNOWN	None	15450	846	281	85545147	85555374	-1	None	TGN51, TGN46, TGN48, TGN38, TTGN2
20	FAT1P1	ENSG00000217809	ENST00000406588	processed_pseudogene	KNOWN	None	16582	None	None	10869230	10869736	-1	None	dJ697P8.1
11	None	ENSG00000255395	ENST00000530550	antisense	KNOWN	None	None	None	None	74810217	74851193	-1	None	None
1	PIGPP2	ENSG00000234204	ENST00000411569	processed_pseudogene	KNOWN	None	45154	None	None	62654803	62655625	1	None	None
16	MIR3180-2	ENSG00000257366	ENST00000546612	lincRNA	KNOWN	None	38343	None	None	16402399	16403857	-1	None	hsa-mir-3180-2
11	None	ENSG00000200855	ENST00000363985	misc_RNA	NOVEL	None	None	None	None	107955640	107955741	1	None	None
1	MIR197	ENSG00000207709	ENST00000384976	miRNA	KNOWN	None	31569	None	None	110141515	110141589	1	MIRN197	hsa-mir-197
18	None	ENSG00000265752	ENST00000582300	lincRNA	KNOWN	None	None	None	None	21538060	21562520	-1	None	None
4	None	ENSG00000249934	ENST00000340589	processed_pseudogene	KNOWN	None	None	None	None	89429742	89431554	-1	None	None
16	NLRC3	ENSG00000167984	ENST00000603128	processed_transcript	KNOWN	None	29889	None	None	3589033	3627392	-1	None	CLR16.2, FLJ00348, NOD3
16	NLRC3	ENSG00000167984	ENST00000419350	processed_transcript	KNOWN	None	29889	None	None	3589038	3627401	-1	None	CLR16.2, FLJ00348, NOD3
16	NLRC3	ENSG00000167984	ENST00000603507	polymorphic_pseudogene	KNOWN	None	29889	3340	1112	3591825	3627214	-1	None	CLR16.2, FLJ00348, NOD3
16	NLRC3	ENSG00000167984	ENST00000604347	processed_transcript	KNOWN	None	29889	None	None	3598135	3606995	-1	None	CLR16.2, FLJ00348, NOD3
16	NLRC3	ENSG00000167984	ENST00000603055	processed_transcript	KNOWN	None	29889	None	None	3614071	3627374	-1	None	CLR16.2, FLJ00348, NOD3
16	NLRC3	ENSG00000167984	ENST00000448023	protein_coding	KNOWN	None	29889	3336	1111	3589038	3627401	-1	None	CLR16.2, FLJ00348, NOD3
16	NLRC3	ENSG00000167984	ENST00000359128	protein_coding	KNOWN	None	29889	3111	1036	3589038	3627401	-1	None	CLR16.2, FLJ00348, NOD3
16	NLRC3	ENSG00000167984	ENST00000301749	protein_coding	KNOWN	None	29889	3198	1065	3589038	3627392	-1	None	CLR16.2, FLJ00348, NOD3
16	NLRC3	ENSG00000167984	ENST00000324659	protein_coding	KNOWN	None	29889	1983	660	3612901	3627401	-1	None	CLR16.2, FLJ00348, NOD3
15	None	ENSG00000259883	ENST00000564168	antisense	KNOWN	None	None	None	None	42213615	42221081	1	None	None
5	RNU6-456P	ENSG00000207222	ENST00000384493	snRNA	KNOWN	None	47419	None	None	133835869	133835975	-1	None	None
1	None	ENSG00000215014	ENST00000366221	protein_coding	KNOWN	None	None	303	100	1510355	1511373	1	None	None
11	MIR3160-2	ENSG00000265014	ENST00000577972	miRNA	KNOWN	None	38192	None	None	46473355	46473439	-1	None	hsa-mir-3160-2
11	MIR3160-1	ENSG00000265014	ENST00000577972	miRNA	KNOWN	None	38197	None	None	46473355	46473439	-1	None	hsa-mir-3160-1
19	None	ENSG00000269296	ENST00000598952	antisense	KNOWN	None	None	None	None	40596661	40600313	1	None	None
1	None	ENSG00000224584	ENST00000436983	processed_pseudogene	KNOWN	None	None	None	None	214786303	214786741	-1	None	None
11	None	ENSG00000255467	ENST00000525548	antisense	KNOWN	None	None	None	None	107975801	107992411	-1	None	None
11	None	ENSG00000254400	ENST00000527191	antisense	KNOWN	None	None	None	None	6624872	6625650	-1	None	None
1	None	ENSG00000228703	ENST00000369843	antisense	KNOWN	None	None	None	None	110171039	110172927	-1	None	None
19	RN7SL513P	ENSG00000239821	ENST00000465715	misc_RNA	KNOWN	None	46529	None	None	18444086	18444381	1	None	None
5	None	ENSG00000251169	ENST00000515627	lincRNA	KNOWN	None	None	None	None	133842243	133844920	1	None	None
18	None	ENSG00000264745	ENST00000579713	antisense	KNOWN	None	None	None	None	21574177	21595303	-1	None	None
2	None	ENSG00000266931	ENST00000592457	unprocessed_pseudogene	KNOWN	None	None	None	None	87282781	87282923	-1	None	None
3	None	ENSG00000241490	ENST00000481773	antisense	KNOWN	None	None	None	None	113933160	113954241	1	None	None
3	None	ENSG00000241490	ENST00000493033	antisense	KNOWN	None	None	None	None	113933238	113955051	1	None	None
17	THRA	ENSG00000126351	ENST00000577288	protein_coding	KNOWN	None	11796	95	30	38214543	38233165	1	THRA1, THRA2, ERBA1	EAR-7.1/EAR-7.2, THRA3, AR7, ERBA, NR1A1
17	THRA	ENSG00000126351	ENST00000585047	protein_coding	KNOWN	None	11796	218	71	38218157	38233857	1	THRA1, THRA2, ERBA1	EAR-7.1/EAR-7.2, THRA3, AR7, ERBA, NR1A1
17	THRA	ENSG00000126351	ENST00000578218	protein_coding	KNOWN	None	11796	254	83	38218446	38240119	1	THRA1, THRA2, ERBA1	EAR-7.1/EAR-7.2, THRA3, AR7, ERBA, NR1A1
17	THRA	ENSG00000126351	ENST00000394121	protein_coding	KNOWN	CCDS11360	11796	1473	490	38218446	38249866	1	THRA1, THRA2, ERBA1	EAR-7.1/EAR-7.2, THRA3, AR7, ERBA, NR1A1
17	THRA	ENSG00000126351	ENST00000584985	protein_coding	KNOWN	CCDS58546	11796	1356	451	38219063	38250120	1	THRA1, THRA2, ERBA1	EAR-7.1/EAR-7.2, THRA3, AR7, ERBA, NR1A1
17	THRA	ENSG00000126351	ENST00000264637	protein_coding	KNOWN	CCDS11360	11796	1473	490	38219063	38250120	1	THRA1, THRA2, ERBA1	EAR-7.1/EAR-7.2, THRA3, AR7, ERBA, NR1A1
17	THRA	ENSG00000126351	ENST00000450525	protein_coding	KNOWN	CCDS42316	11796	1233	410	38219152	38248880	1	THRA1, THRA2, ERBA1	EAR-7.1/EAR-7.2, THRA3, AR7, ERBA, NR1A1
17	THRA	ENSG00000126351	ENST00000546243	protein_coding	KNOWN	CCDS42316	11796	1233	410	38225156	38245983	1	THRA1, THRA2, ERBA1	EAR-7.1/EAR-7.2, THRA3, AR7, ERBA, NR1A1
17	THRA	ENSG00000126351	ENST00000577486	protein_coding	KNOWN	None	11796	172	56	38228344	38233811	1	THRA1, THRA2, ERBA1	EAR-7.1/EAR-7.2, THRA3, AR7, ERBA, NR1A1
17	THRA	ENSG00000126351	ENST00000577637	retained_intron	KNOWN	None	11796	None	None	38240687	38243254	1	THRA1, THRA2, ERBA1	EAR-7.1/EAR-7.2, THRA3, AR7, ERBA, NR1A1
11	MIR5582	ENSG00000263540	ENST00000579697	miRNA	KNOWN	None	43461	None	None	46774675	46774742	-1	None	hsa-mir-5582
1	None	ENSG00000234088	ENST00000439294	processed_pseudogene	KNOWN	None	None	None	None	62656194	62656598	1	None	None
22	None	ENSG00000214854	ENST00000456974	protein_coding	NOVEL	None	None	39	12	39656865	39657063	-1	None	None
1	None	ENSG00000228863	ENST00000598917	antisense	KNOWN	None	None	None	None	160640568	160648782	1	None	None
1	None	ENSG00000228863	ENST00000443928	antisense	KNOWN	None	None	None	None	160642802	160653612	1	None	None
1	None	ENSG00000228863	ENST00000588034	antisense	KNOWN	None	None	None	None	160643312	160653698	1	None	None
4	None	ENSG00000249755	ENST00000503756	processed_pseudogene	KNOWN	None	None	None	None	89448311	89449321	1	None	None
3	RNU6ATAC6P	ENSG00000221059	ENST00000408132	snRNA	KNOWN	None	46905	None	None	87959370	87959495	1	None	None
11	None	ENSG00000254641	ENST00000527398	sense_overlapping	KNOWN	None	None	None	None	6629897	6631366	-1	None	None
19	MIR3189	ENSG00000264175	ENST00000578735	miRNA	KNOWN	None	38307	None	None	18497372	18497444	1	None	hsa-mir-3189
14	None	ENSG00000176082	ENST00000320746	pseudogene	NOVEL	None	None	None	None	70935877	70937825	-1	None	None
7	OR2A1	ENSG00000221970	ENST00000408951	protein_coding	KNOWN	CCDS43673	8229	933	310	144015218	144016150	1	None	None
7	RPL36AP26	ENSG00000235828	ENST00000476382	processed_pseudogene	KNOWN	None	36758	None	None	15741060	15741377	-1	None	None
7	RPL36AP26	ENSG00000235828	ENST00000443749	processed_pseudogene	KNOWN	None	36758	None	None	15741057	15741377	-1	None	None
11	None	ENSG00000252427	ENST00000516618	snoRNA	NOVEL	None	None	None	None	46780316	46780423	-1	None	None
2	None	ENSG00000226072	ENST00000444170	processed_pseudogene	KNOWN	None	None	None	None	170514642	170517867	-1	None	None
1	None	ENSG00000235045	ENST00000411964	processed_pseudogene	KNOWN	None	None	None	None	110193992	110194721	1	None	None
3	None	ENSG00000240477	ENST00000466044	processed_pseudogene	KNOWN	None	None	None	None	149768516	149769243	1	None	None
3	CBX5P1	ENSG00000241535	ENST00000468470	processed_pseudogene	KNOWN	None	38659	None	None	88144558	88145118	-1	None	None
4	RN7SKP244	ENSG00000252322	ENST00000516513	misc_RNA	KNOWN	None	45968	None	None	89504817	89505123	-1	None	None
19	None	ENSG00000221167	ENST00000408240	miRNA	NOVEL	None	None	None	None	18520504	18520592	-1	None	None
18	None	ENSG00000265204	ENST00000578443	antisense	KNOWN	None	None	None	None	21656758	21679284	-1	None	None
17	AXIN2	ENSG00000168646	ENST00000307078	protein_coding	KNOWN	CCDS11662	904	2532	843	63524681	63557765	-1	None	MGC126582, DKFZp781B0869
17	AXIN2	ENSG00000168646	ENST00000375702	protein_coding	NOVEL	None	904	2337	778	63525999	63554847	-1	None	MGC126582, DKFZp781B0869
17	AXIN2	ENSG00000168646	ENST00000578251	retained_intron	KNOWN	None	904	None	None	63530069	63532800	-1	None	MGC126582, DKFZp781B0869
17	AXIN2	ENSG00000168646	ENST00000577278	protein_coding	KNOWN	None	904	815	270	63553924	63556675	-1	None	MGC126582, DKFZp781B0869
17	AXIN2	ENSG00000168646	ENST00000580513	protein_coding	KNOWN	None	904	577	191	63554162	63557309	-1	None	MGC126582, DKFZp781B0869
17	AXIN2	ENSG00000168646	ENST00000585045	protein_coding	KNOWN	None	904	575	190	63554164	63556414	-1	None	MGC126582, DKFZp781B0869
17	AXIN2	ENSG00000168646	ENST00000544103	protein_coding	KNOWN	None	904	452	149	63554287	63555614	-1	None	MGC126582, DKFZp781B0869
1	GAPDHP24	ENSG00000185221	ENST00000328713	processed_pseudogene	KNOWN	None	37776	None	None	215044077	215045059	1	None	None
3	PGAM1P3	ENSG00000230274	ENST00000420790	processed_pseudogene	KNOWN	None	42450	None	None	40364206	40364770	-1	None	None
11	OR7E1P	ENSG00000255554	ENST00000533891	unprocessed_pseudogene	KNOWN	None	8391	None	None	67741757	67742714	-1	None	None
19	None	ENSG00000268199	ENST00000594590	antisense	KNOWN	None	None	None	None	18551920	18555242	1	None	None
4	RNU6-33P	ENSG00000207524	ENST00000384793	snRNA	KNOWN	None	34277	None	None	89605999	89606105	-1	RNU6-33	None
2	None	ENSG00000230395	ENST00000426110	unprocessed_pseudogene	KNOWN	None	None	None	None	87345657	87348103	-1	None	None
18	None	ENSG00000264924	ENST00000583782	antisense	KNOWN	None	None	None	None	21693601	21700967	-1	None	None
HG79_PATCH	SURF2	ENSG00000261361	ENST00000566819	protein_coding	KNOWN	None	11475	771	256	136232087	136236704	1	None	None
HG79_PATCH	SURF2	ENSG00000261361	ENST00000568355	processed_transcript	KNOWN	None	11475	None	None	136232113	136235642	1	None	None
HG79_PATCH	SURF2	ENSG00000261361	ENST00000563689	processed_transcript	KNOWN	None	11475	None	None	136232583	136235559	1	None	None
7	TPI1P2	ENSG00000230359	ENST00000491343	processed_pseudogene	KNOWN	None	38069	None	None	128696073	128696824	1	None	None
7	TPI1P2	ENSG00000230359	ENST00000453581	pseudogene	KNOWN	None	38069	None	None	128696073	128696824	1	None	None
11	SNORD67	ENSG00000212135	ENST00000390833	snoRNA	KNOWN	None	32728	None	None	46783939	46784049	-1	None	HBII-166
19	VN1R96P	ENSG00000230086	ENST00000446052	unitary_pseudogene	KNOWN	None	37416	None	None	40627218	40628075	-1	None	None
3	ABCF2P1	ENSG00000242159	ENST00000465687	processed_pseudogene	KNOWN	None	48841	None	None	88366306	88368172	1	None	None
1	None	ENSG00000227239	ENST00000452210	pseudogene	NOVEL	None	None	None	None	160667760	160668001	1	None	None
18	RNU5A-6P	ENSG00000206863	ENST00000384136	snRNA	KNOWN	None	42527	None	None	21704134	21704249	-1	None	None
15	None	ENSG00000246740	ENST00000499478	antisense	KNOWN	None	None	None	None	42264961	42291292	1	None	None
12	None	ENSG00000203426	ENST00000366245	pseudogene	NOVEL	None	None	None	None	50698425	50698530	-1	None	None
3	None	ENSG00000272452	ENST00000607057	lincRNA	KNOWN	None	None	None	None	40507957	40510078	1	None	None
5	None	ENSG00000251654	ENST00000505040	lincRNA	KNOWN	None	None	None	None	25219082	25298721	-1	None	None
1	None	ENSG00000260246	ENST00000562538	antisense	KNOWN	None	None	None	None	110235739	110236364	-1	None	None
1	None	ENSG00000223869	ENST00000456086	processed_pseudogene	KNOWN	None	None	None	None	215116466	215116883	1	None	None
11	METTL15	ENSG00000169519	ENST00000406787	protein_coding	NOVEL	None	26606	840	279	28129795	28355054	1	METT5D1	FLJ33979
11	METTL15	ENSG00000169519	ENST00000403099	protein_coding	PUTATIVE	None	26606	282	93	28129867	28147134	1	METT5D1	FLJ33979
11	METTL15	ENSG00000169519	ENST00000451385	nonsense_mediated_decay	KNOWN	None	26606	495	164	28129877	28353969	1	METT5D1	FLJ33979
11	METTL15	ENSG00000169519	ENST00000407364	protein_coding	NOVEL	CCDS44559	26606	1224	407	28129901	28355054	1	METT5D1	FLJ33979
11	METTL15	ENSG00000169519	ENST00000303459	protein_coding	KNOWN	CCDS31450	26606	822	273	28131859	28355054	1	METT5D1	FLJ33979
11	METTL15	ENSG00000169519	ENST00000437814	nonsense_mediated_decay	KNOWN	None	26606	300	99	28131862	28147413	1	METT5D1	FLJ33979
11	METTL15	ENSG00000169519	ENST00000468295	retained_intron	KNOWN	None	26606	None	None	28349128	28352176	1	METT5D1	FLJ33979
11	METTL15	ENSG00000169519	ENST00000342303	protein_coding	KNOWN	CCDS31450	26606	822	273	28129798	28355054	1	METT5D1	FLJ33979
11	METTL15	ENSG00000169519	ENST00000379199	protein_coding	KNOWN	None	26606	300	99	28131838	28143718	1	METT5D1	FLJ33979
11	None	ENSG00000206967	ENST00000384240	misc_RNA	NOVEL	None	None	None	None	108100230	108100331	-1	None	None
18	None	ENSG00000265750	ENST00000583267	lincRNA	KNOWN	None	None	None	None	21739473	21742175	-1	None	None
19	None	ENSG00000256989	ENST00000541164	pseudogene	NOVEL	None	None	None	None	18553705	18554469	-1	None	None
1	None	ENSG00000226003	ENST00000447284	processed_pseudogene	KNOWN	None	None	None	None	160817800	160818292	1	None	None
4	FAM13A-AS1	ENSG00000248019	ENST00000500765	antisense	KNOWN	None	19370	None	None	89630940	89651254	1	FAM13A1OS, FAM13AOS	NCRNA00039
4	FAM13A-AS1	ENSG00000248019	ENST00000511543	antisense	KNOWN	None	19370	None	None	89642866	89649837	1	FAM13A1OS, FAM13AOS	NCRNA00039
11	None	ENSG00000221607	ENST00000408680	miRNA	NOVEL	None	None	None	None	108340182	108340279	-1	None	None
11	None	ENSG00000254475	ENST00000525935	unprocessed_pseudogene	KNOWN	None	None	None	None	74842183	74842925	-1	None	None
5	None	ENSG00000260761	ENST00000562632	lincRNA	KNOWN	None	None	None	None	25319943	25321455	1	None	None
19	None	ENSG00000268938	ENST00000597837	antisense	KNOWN	None	None	None	None	18642228	18643440	1	None	None
12	None	ENSG00000258320	ENST00000551714	processed_pseudogene	KNOWN	None	None	None	None	74564225	74565610	1	None	None
X	None	ENSG00000225110	ENST00000436629	unprocessed_pseudogene	KNOWN	None	None	None	None	152583141	152586144	-1	None	None
1	None	ENSG00000237227	ENST00000450606	processed_pseudogene	KNOWN	None	None	None	None	62673808	62674114	-1	None	None
18	RNA5SP452	ENSG00000199874	ENST00000363004	rRNA	KNOWN	None	43352	None	None	21750469	21750587	-1	RN5S452	None
11	LRP4-AS1	ENSG00000247675	ENST00000531719	antisense	KNOWN	None	44128	None	None	46867963	46895064	1	None	None
11	LRP4-AS1	ENSG00000247675	ENST00000502049	antisense	KNOWN	None	44128	None	None	46867978	46895947	1	None	None
1	None	ENSG00000241720	ENST00000431955	antisense	KNOWN	None	None	None	None	110268442	110317874	1	None	None
X	CLCN4	ENSG00000073464	ENST00000380833	protein_coding	KNOWN	CCDS14137	2022	2283	760	10125024	10205700	1	None	CLC4, ClC-4
X	CLCN4	ENSG00000073464	ENST00000380829	protein_coding	NOVEL	None	2022	2190	729	10126488	10201737	1	None	CLC4, ClC-4
X	CLCN4	ENSG00000073464	ENST00000454850	protein_coding	NOVEL	None	2022	456	151	10126572	10174759	1	None	CLC4, ClC-4
X	CLCN4	ENSG00000073464	ENST00000421085	protein_coding	KNOWN	CCDS59159	2022	2001	666	10126540	10201760	1	None	CLC4, ClC-4
11	RPS2P39	ENSG00000240698	ENST00000492327	processed_pseudogene	KNOWN	None	36131	None	None	108561016	108561683	-1	None	None
18	RNU6-435P	ENSG00000206766	ENST00000384039	snRNA	KNOWN	None	47398	None	None	21798264	21798368	1	None	None
1	None	ENSG00000213080	ENST00000425270	processed_pseudogene	KNOWN	None	None	None	None	160864770	160865866	1	None	None
5	None	ENSG00000248605	ENST00000511029	lincRNA	KNOWN	None	None	None	None	25404842	25422964	-1	None	None
5	None	ENSG00000248605	ENST00000507887	lincRNA	KNOWN	None	None	None	None	25413548	25446034	-1	None	None
5	None	ENSG00000248605	ENST00000507926	lincRNA	KNOWN	None	None	None	None	25415755	25446016	-1	None	None
19	None	ENSG00000269191	ENST00000596596	antisense	KNOWN	None	None	None	None	18643718	18646998	1	None	None
18	RN7SL247P	ENSG00000265259	ENST00000580757	misc_RNA	KNOWN	None	46263	None	None	21852889	21853170	-1	None	None
14	RNU6-659P	ENSG00000252263	ENST00000516454	snRNA	KNOWN	None	47622	None	None	70962824	70962927	1	None	None
3	ITPR1-AS1	ENSG00000231249	ENST00000412804	antisense	KNOWN	None	44470	None	None	4532575	4534847	-1	None	None
1	VDAC1P10	ENSG00000232809	ENST00000416715	processed_pseudogene	KNOWN	None	37479	None	None	215549827	215550717	1	None	None
18	MIR320C2	ENSG00000212051	ENST00000390762	miRNA	KNOWN	None	35387	None	None	21901650	21901699	1	MIRN320C2	hsa-mir-320c-2
14	None	ENSG00000259115	ENST00000553982	lincRNA	KNOWN	None	None	None	None	71060031	71107921	-1	None	None
12	None	ENSG00000196082	ENST00000354838	pseudogene	NOVEL	None	None	None	None	50706112	50706217	1	None	None
4	None	ENSG00000271359	ENST00000603357	lincRNA	KNOWN	None	None	None	None	90032651	90033519	1	None	None
19	None	ENSG00000268030	ENST00000597411	antisense	KNOWN	None	None	None	None	18668585	18672370	-1	None	None
3	RNU5B-2P	ENSG00000199906	ENST00000363036	snRNA	KNOWN	None	34182	None	None	40540382	40540494	-1	None	None
3	None	ENSG00000243321	ENST00000464673	lincRNA	KNOWN	None	None	None	None	149795281	149797904	-1	None	None
3	None	ENSG00000243321	ENST00000459123	snoRNA	KNOWN	None	None	None	None	149795514	149795618	-1	None	None
2	None	ENSG00000204745	ENST00000454465	unprocessed_pseudogene	KNOWN	None	None	None	None	87352513	87423770	1	None	None
18	None	ENSG00000264365	ENST00000579347	antisense	KNOWN	None	None	None	None	21944751	21947948	1	None	None
X	CXorf21	ENSG00000120280	ENST00000378962	protein_coding	KNOWN	CCDS14224	25667	906	301	30576941	30595961	-1	None	FLJ11577
7	FAM200A	ENSG00000221909	ENST00000449309	protein_coding	KNOWN	CCDS5668	25401	1722	573	99143931	99149757	-1	C7orf38	FLJ36794, DKFZp727G131
7	FAM200A	ENSG00000221909	ENST00000408938	protein_coding	KNOWN	None	25401	1607	534	99144424	99156159	-1	C7orf38	FLJ36794, DKFZp727G131
1	NDUFA5P10	ENSG00000224927	ENST00000432147	processed_pseudogene	KNOWN	None	48852	None	None	110353264	110353620	-1	None	None
12	None	ENSG00000203425	ENST00000366244	pseudogene	NOVEL	None	None	None	None	50706430	50706526	-1	None	None
19	None	ENSG00000268983	ENST00000593791	antisense	KNOWN	None	None	None	None	18679316	18680185	-1	None	None
15	FAM63B	ENSG00000128923	ENST00000316848	nonsense_mediated_decay	KNOWN	None	26954	1269	422	59063391	59149751	1	None	KIAA1164
15	FAM63B	ENSG00000128923	ENST00000560289	nonsense_mediated_decay	KNOWN	None	26954	1140	379	59063485	59146790	1	None	KIAA1164
15	FAM63B	ENSG00000128923	ENST00000559228	protein_coding	KNOWN	CCDS42046	26954	1866	621	59063513	59154099	1	None	KIAA1164
15	FAM63B	ENSG00000128923	ENST00000450403	protein_coding	KNOWN	CCDS45268	26954	1863	620	59063561	59149732	1	None	KIAA1164
15	FAM63B	ENSG00000128923	ENST00000559745	protein_coding	NOVEL	None	26954	463	153	59088276	59124018	1	None	KIAA1164
12	None	ENSG00000244050	ENST00000491870	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	8352195	8359306	-1	None	None
12	None	ENSG00000244050	ENST00000542600	processed_transcript	KNOWN	None	None	None	None	8352285	8371507	-1	None	None
18	None	ENSG00000199636	ENST00000362766	misc_RNA	NOVEL	None	None	None	None	22009469	22009573	1	None	None
1	None	ENSG00000200174	ENST00000363304	misc_RNA	NOVEL	None	None	None	None	62677229	62677338	1	None	None
11	None	ENSG00000255680	ENST00000545572	antisense	KNOWN	None	None	None	None	6640021	6640995	1	None	None
8	ZNF250	ENSG00000196150	ENST00000528258	nonsense_mediated_decay	KNOWN	None	13044	306	101	146101882	146126864	-1	ZNF647	MGC9718, ZFP647
8	ZNF250	ENSG00000196150	ENST00000529780	nonsense_mediated_decay	KNOWN	None	13044	369	122	146101921	146126850	-1	ZNF647	MGC9718, ZFP647
8	ZNF250	ENSG00000196150	ENST00000533543	nonsense_mediated_decay	KNOWN	None	13044	384	127	146101921	146126850	-1	ZNF647	MGC9718, ZFP647
8	ZNF250	ENSG00000196150	ENST00000292579	protein_coding	KNOWN	CCDS34972	13044	1683	560	146102336	146126846	-1	ZNF647	MGC9718, ZFP647
8	ZNF250	ENSG00000196150	ENST00000417550	protein_coding	NOVEL	CCDS55282	13044	1668	555	146106524	146126816	-1	ZNF647	MGC9718, ZFP647
8	ZNF250	ENSG00000196150	ENST00000533221	protein_coding	PUTATIVE	None	13044	514	170	146107991	146126808	-1	ZNF647	MGC9718, ZFP647
8	ZNF250	ENSG00000196150	ENST00000533622	protein_coding	PUTATIVE	None	13044	528	175	146108040	146126811	-1	ZNF647	MGC9718, ZFP647
8	ZNF250	ENSG00000196150	ENST00000525694	protein_coding	PUTATIVE	None	13044	423	140	146108145	146126808	-1	ZNF647	MGC9718, ZFP647
8	ZNF250	ENSG00000196150	ENST00000528028	retained_intron	KNOWN	None	13044	None	None	146115072	146126838	-1	ZNF647	MGC9718, ZFP647
8	ZNF250	ENSG00000196150	ENST00000527049	protein_coding	PUTATIVE	None	13044	136	44	146115351	146127553	-1	ZNF647	MGC9718, ZFP647
8	ZNF250	ENSG00000196150	ENST00000543949	protein_coding	KNOWN	None	13044	384	127	146076632	146126807	-1	ZNF647	MGC9718, ZFP647
8	ZNF250	ENSG00000196150	ENST00000342660	protein_coding	KNOWN	None	13044	369	122	146092748	146126850	-1	ZNF647	MGC9718, ZFP647
3	None	ENSG00000240487	ENST00000473625	processed_pseudogene	KNOWN	None	None	None	None	113950245	113951868	-1	None	None
18	None	ENSG00000265094	ENST00000579049	sense_intronic	KNOWN	None	None	None	None	22015328	22019602	1	None	None
1	RNU6-371P	ENSG00000201153	ENST00000364283	snRNA	KNOWN	None	47334	None	None	62763821	62763928	-1	None	None
1	None	ENSG00000232188	ENST00000427339	lincRNA	KNOWN	None	None	None	None	160901529	160904170	-1	None	None
19	RN7SL155P	ENSG00000263490	ENST00000581538	misc_RNA	KNOWN	None	46171	None	None	18742459	18742718	-1	None	None
12	None	ENSG00000257183	ENST00000552046	processed_transcript	KNOWN	None	None	None	None	74642417	74677449	-1	None	None
1	None	ENSG00000270549	ENST00000604867	processed_pseudogene	KNOWN	None	None	None	None	62996307	62996544	1	None	None
17	None	ENSG00000270033	ENST00000602932	nonsense_mediated_decay	KNOWN	None	None	210	69	60349848	60360276	-1	None	None
18	None	ENSG00000264695	ENST00000583122	lincRNA	KNOWN	None	None	None	None	22069339	22071044	1	None	None
1	None	ENSG00000198358	ENST00000356006	antisense	KNOWN	None	None	None	None	160902255	160919712	1	None	None
1	None	ENSG00000213703	ENST00000258651	processed_pseudogene	KNOWN	None	None	None	None	63106793	63107338	-1	None	None
19	None	ENSG00000269271	ENST00000596330	lincRNA	KNOWN	None	None	None	None	55100906	55101752	1	None	None
11	None	ENSG00000254730	ENST00000533503	processed_pseudogene	KNOWN	None	None	None	None	108598468	108600831	-1	None	None
3	RPL5P10	ENSG00000234067	ENST00000445207	processed_pseudogene	KNOWN	None	36846	None	None	40628026	40628919	-1	None	None
1	None	ENSG00000202498	ENST00000365628	snoRNA	NOVEL	None	None	None	None	215803368	215803459	-1	None	None
12	None	ENSG00000203424	ENST00000366243	pseudogene	NOVEL	None	None	None	None	50707798	50707894	1	None	None
1	None	ENSG00000229242	ENST00000414995	antisense	KNOWN	None	None	None	None	216059924	216074806	1	None	None
18	None	ENSG00000266489	ENST00000581648	lincRNA	KNOWN	None	None	None	None	22096847	22097970	-1	None	None
11	None	ENSG00000255390	ENST00000526456	antisense	KNOWN	None	None	None	None	6642682	6643553	1	None	None
3	EEF1GP3	ENSG00000226845	ENST00000421044	processed_pseudogene	KNOWN	None	44558	None	None	40637698	40638985	-1	None	None
4	None	ENSG00000270720	ENST00000603220	lincRNA	KNOWN	None	None	None	None	90040435	90041022	1	None	None
19	None	ENSG00000238094	ENST00000432400	unprocessed_pseudogene	KNOWN	None	None	None	None	55119337	55119843	1	None	None
8	None	ENSG00000253307	ENST00000517658	antisense	KNOWN	None	None	None	None	142262385	142263391	-1	None	None
1	None	ENSG00000228420	ENST00000453347	lincRNA	KNOWN	None	None	None	None	110370977	110414058	1	None	None
11	None	ENSG00000255136	ENST00000530792	lincRNA	KNOWN	None	None	None	None	74919099	74952218	-1	None	None
11	None	ENSG00000255136	ENST00000603012	lincRNA	KNOWN	None	None	None	None	74921884	74952092	-1	None	None
11	None	ENSG00000255136	ENST00000529491	lincRNA	KNOWN	None	None	None	None	74921894	74926530	-1	None	None
1	None	ENSG00000233691	ENST00000450131	processed_pseudogene	KNOWN	None	None	None	None	160905327	160905916	1	None	None
7	None	ENSG00000238733	ENST00000459605	snoRNA	NOVEL	None	None	None	None	128701585	128701688	1	None	None
11	None	ENSG00000271350	ENST00000603591	processed_pseudogene	KNOWN	None	None	None	None	47062578	47063496	-1	None	None
8	None	ENSG00000254197	ENST00000520606	lincRNA	KNOWN	None	None	None	None	142288327	142302961	1	None	None
1	None	ENSG00000235005	ENST00000415166	antisense	KNOWN	None	None	None	None	110426798	110428886	-1	None	None
11	FRMD8	ENSG00000126391	ENST00000317568	protein_coding	KNOWN	CCDS8102	25462	1395	464	65154070	65180996	1	None	FLJ90369, FKSG44
11	FRMD8	ENSG00000126391	ENST00000531296	protein_coding	PUTATIVE	None	25462	201	66	65154092	65154732	1	None	FLJ90369, FKSG44
11	FRMD8	ENSG00000126391	ENST00000528854	retained_intron	KNOWN	None	25462	None	None	65154097	65161226	1	None	FLJ90369, FKSG44
11	FRMD8	ENSG00000126391	ENST00000533782	protein_coding	NOVEL	None	25462	552	183	65154108	65164408	1	None	FLJ90369, FKSG44
11	FRMD8	ENSG00000126391	ENST00000355991	protein_coding	NOVEL	None	25462	1227	408	65154108	65180993	1	None	FLJ90369, FKSG44
11	FRMD8	ENSG00000126391	ENST00000416776	protein_coding	NOVEL	None	25462	1293	430	65154128	65179251	1	None	FLJ90369, FKSG44
11	FRMD8	ENSG00000126391	ENST00000526201	protein_coding	NOVEL	None	25462	466	154	65154131	65164280	1	None	FLJ90369, FKSG44
11	FRMD8	ENSG00000126391	ENST00000525156	protein_coding	KNOWN	None	25462	271	89	65154399	65161061	1	None	FLJ90369, FKSG44
11	FRMD8	ENSG00000126391	ENST00000531151	retained_intron	KNOWN	None	25462	None	None	65161733	65167368	1	None	FLJ90369, FKSG44
3	EGOT	ENSG00000235947	ENST00000414938	lincRNA	KNOWN	None	37129	None	None	4790876	4793274	-1	None	EGO, NCRNA00190
18	None	ENSG00000266181	ENST00000578499	processed_pseudogene	KNOWN	None	None	None	None	22102237	22102883	-1	None	None
1	None	ENSG00000233620	ENST00000446411	antisense	KNOWN	None	None	None	None	216245807	216260259	1	None	None
1	None	ENSG00000233620	ENST00000430890	antisense	KNOWN	None	None	None	None	216246071	216260247	1	None	None
1	None	ENSG00000233620	ENST00000445619	antisense	KNOWN	None	None	None	None	216246148	216260247	1	None	None
1	None	ENSG00000233620	ENST00000442606	antisense	KNOWN	None	None	None	None	216252415	216260247	1	None	None
1	C1orf233	ENSG00000228594	ENST00000422725	protein_coding	KNOWN	CCDS55559	42951	681	226	1533392	1535476	-1	None	None
12	None	ENSG00000257113	ENST00000549267	processed_pseudogene	KNOWN	None	None	None	None	74668732	74669011	1	None	None
1	None	ENSG00000235545	ENST00000453229	antisense	KNOWN	None	None	None	None	63154153	63176365	1	None	None
15	None	ENSG00000244952	ENST00000500941	lincRNA	KNOWN	None	None	None	None	32905934	32907312	1	None	None
8	None	ENSG00000254291	ENST00000523604	antisense	KNOWN	None	None	None	None	142336229	142337236	1	None	None
1	None	ENSG00000261055	ENST00000565955	lincRNA	KNOWN	None	None	None	None	110438595	110440483	1	None	None
12	None	ENSG00000203423	ENST00000366242	pseudogene	NOVEL	None	None	None	None	50710006	50710100	-1	None	None
13	WDFY2	ENSG00000139668	ENST00000298125	protein_coding	KNOWN	CCDS9429	20482	1203	400	52158644	52336171	1	None	ZFYVE22
13	WDFY2	ENSG00000139668	ENST00000460145	processed_transcript	KNOWN	None	20482	None	None	52313284	52327259	1	None	ZFYVE22
3	None	ENSG00000226302	ENST00000456335	lincRNA	KNOWN	None	None	None	None	40644616	40646918	-1	None	None
1	None	ENSG00000232879	ENST00000433122	processed_pseudogene	KNOWN	None	None	None	None	161004624	161004796	1	None	None
3	None	ENSG00000241143	ENST00000487963	transcribed_processed_pseudogene	KNOWN	None	None	None	None	149868325	149868731	1	None	None
1	None	ENSG00000258634	ENST00000554749	antisense	KNOWN	None	None	None	None	110600962	110605177	1	None	None
1	None	ENSG00000258634	ENST00000596959	antisense	KNOWN	None	None	None	None	110603484	110603939	1	None	None
HSCHR18_2_CTG2_1	ATP9B	ENSG00000262782	ENST00000575536	protein_coding	KNOWN	None	13541	3444	1147	76834837	77142822	1	None	ATPIIB
HSCHR18_2_CTG2_1	ATP9B	ENSG00000262782	ENST00000577033	nonsense_mediated_decay	KNOWN	None	13541	696	231	76834841	77139632	1	None	ATPIIB
HSCHR6_MHC_COX	NOTCH4	ENSG00000235396	ENST00000470539	retained_intron	KNOWN	None	7884	None	None	32111094	32113228	-1	INT3	None
HSCHR6_MHC_COX	NOTCH4	ENSG00000235396	ENST00000485109	retained_intron	KNOWN	None	7884	None	None	32111094	32120432	-1	INT3	None
HSCHR6_MHC_COX	NOTCH4	ENSG00000235396	ENST00000437843	protein_coding	KNOWN	None	7884	6018	2005	32111094	32140316	-1	INT3	None
HSCHR6_MHC_COX	NOTCH4	ENSG00000235396	ENST00000495974	processed_transcript	KNOWN	None	7884	None	None	32127181	32130484	-1	INT3	None
HSCHR6_MHC_COX	NOTCH4	ENSG00000235396	ENST00000480224	retained_intron	KNOWN	None	7884	None	None	32132108	32140306	-1	INT3	None
3	None	ENSG00000259976	ENST00000570269	lincRNA	KNOWN	None	None	None	None	114033348	114035026	-1	None	None
1	None	ENSG00000234318	ENST00000450811	lincRNA	KNOWN	None	None	None	None	63361680	63367310	1	None	None
8	None	ENSG00000253595	ENST00000521073	antisense	KNOWN	None	None	None	None	142350648	142354720	1	None	None
8	None	ENSG00000253595	ENST00000518232	antisense	KNOWN	None	None	None	None	142352424	142354720	1	None	None
18	None	ENSG00000265485	ENST00000577994	lincRNA	KNOWN	None	None	None	None	22208146	22242162	1	None	None
18	None	ENSG00000265485	ENST00000583558	lincRNA	KNOWN	None	None	None	None	22236957	22240369	1	None	None
12	ALG1L10P	ENSG00000254016	ENST00000437882	unprocessed_pseudogene	KNOWN	None	44379	None	None	8380330	8384360	1	None	None
1	None	ENSG00000228917	ENST00000447167	antisense	KNOWN	None	None	None	None	161054255	161057361	1	None	None
14	None	ENSG00000259969	ENST00000563647	sense_overlapping	KNOWN	None	None	None	None	58460263	58461243	-1	None	None
1	None	ENSG00000237163	ENST00000435230	processed_pseudogene	KNOWN	None	None	None	None	63370851	63371153	1	None	None
9	FAM78A	ENSG00000126882	ENST00000247295	processed_transcript	KNOWN	None	25465	None	None	134133463	134140102	-1	C9orf59	FLJ00024
9	FAM78A	ENSG00000126882	ENST00000372269	protein_coding	KNOWN	None	25465	843	280	134133463	134145880	-1	C9orf59	FLJ00024
9	FAM78A	ENSG00000126882	ENST00000372271	protein_coding	KNOWN	CCDS6941	25465	852	283	134133463	134151934	-1	C9orf59	FLJ00024
9	FAM78A	ENSG00000126882	ENST00000464831	protein_coding	KNOWN	None	25465	759	252	134136176	134145910	-1	C9orf59	FLJ00024
HSCHR6_MHC_SSTO	OR12D2	ENSG00000225247	ENST00000432767	protein_coding	KNOWN	None	8178	924	307	29364084	29365116	1	None	hs6M1-20
12	None	ENSG00000257364	ENST00000546480	processed_pseudogene	KNOWN	None	None	None	None	74686104	74686876	1	None	None
11	NXPE1	ENSG00000095110	ENST00000536271	protein_coding	PUTATIVE	None	28527	792	263	114392437	114400742	-1	FAM55A	MGC34290
11	NXPE1	ENSG00000095110	ENST00000251921	protein_coding	KNOWN	CCDS8372	28527	1218	405	114392437	114430580	-1	FAM55A	MGC34290
11	NXPE1	ENSG00000095110	ENST00000536312	protein_coding	PUTATIVE	None	28527	888	295	114397234	114425092	-1	FAM55A	MGC34290
11	NXPE1	ENSG00000095110	ENST00000539878	protein_coding	PUTATIVE	None	28527	365	120	114401365	114425115	-1	FAM55A	MGC34290
11	NXPE1	ENSG00000095110	ENST00000534921	protein_coding	PUTATIVE	None	28527	187	61	114401543	114430617	-1	FAM55A	MGC34290
11	NXPE1	ENSG00000095110	ENST00000424269	protein_coding	KNOWN	None	28527	1644	547	114392438	114421923	-1	FAM55A	MGC34290
7	ARHGEF5	ENSG00000050327	ENST00000498580	protein_coding	NOVEL	None	13209	545	180	144052381	144064432	1	None	TIM, TIM1, GEF5, P60
7	ARHGEF5	ENSG00000050327	ENST00000056217	protein_coding	KNOWN	CCDS34771	13209	4794	1597	144052433	144077725	1	None	TIM, TIM1, GEF5, P60
7	ARHGEF5	ENSG00000050327	ENST00000474817	protein_coding	NOVEL	None	13209	2393	796	144062002	144077724	1	None	TIM, TIM1, GEF5, P60
7	ARHGEF5	ENSG00000050327	ENST00000471847	protein_coding	NOVEL	None	13209	1560	519	144063226	144077149	1	None	TIM, TIM1, GEF5, P60
19	None	ENSG00000264799	ENST00000578908	miRNA	KNOWN	None	None	None	None	55140843	55140914	-1	None	None
7	None	ENSG00000242162	ENST00000492994	processed_pseudogene	KNOWN	None	None	None	None	128706075	128706516	-1	None	None
1	None	ENSG00000238934	ENST00000459014	snoRNA	NOVEL	None	None	None	None	161110998	161111126	-1	None	None
19	VN1R105P	ENSG00000242856	ENST00000486595	transcribed_processed_pseudogene	KNOWN	None	37428	None	None	55159393	55160302	1	None	None
14	BTF3P2	ENSG00000258282	ENST00000547436	processed_pseudogene	KNOWN	None	19924	None	None	29142447	29142933	-1	None	None
1	None	ENSG00000229537	ENST00000420285	lincRNA	KNOWN	None	None	None	None	63466168	63476596	-1	None	None
1	None	ENSG00000229537	ENST00000425352	lincRNA	KNOWN	None	None	None	None	63466168	63476939	-1	None	None
1	None	ENSG00000229537	ENST00000420659	lincRNA	KNOWN	None	None	None	None	63466168	63478142	-1	None	None
1	None	ENSG00000258673	ENST00000554808	antisense	KNOWN	None	None	None	None	110625310	110652341	1	None	None
1	None	ENSG00000224985	ENST00000420498	antisense	KNOWN	None	None	None	None	161123550	161129139	-1	None	None
3	None	ENSG00000241048	ENST00000474444	lincRNA	KNOWN	None	None	None	None	149919961	149942977	-1	None	None
12	None	ENSG00000203422	ENST00000366241	pseudogene	NOVEL	None	None	None	None	50710653	50710749	-1	None	None
5	EGFLAM	ENSG00000164318	ENST00000354891	protein_coding	KNOWN	CCDS56363	26810	3054	1017	38258511	38464651	1	None	FLJ39155, AGRINL, AGRNL
5	EGFLAM	ENSG00000164318	ENST00000322350	protein_coding	KNOWN	CCDS3924	26810	3030	1009	38258511	38465123	1	None	FLJ39155, AGRINL, AGRNL
5	EGFLAM	ENSG00000164318	ENST00000504709	nonsense_mediated_decay	KNOWN	None	26810	144	47	38258767	38352433	1	None	FLJ39155, AGRINL, AGRNL
5	EGFLAM	ENSG00000164318	ENST00000336740	protein_coding	KNOWN	CCDS3925	26810	2328	775	38403643	38464490	1	None	FLJ39155, AGRINL, AGRNL
5	EGFLAM	ENSG00000164318	ENST00000397202	protein_coding	KNOWN	None	26810	1128	375	38403650	38464651	1	None	FLJ39155, AGRINL, AGRNL
5	EGFLAM	ENSG00000164318	ENST00000508868	retained_intron	KNOWN	None	26810	None	None	38445622	38451741	1	None	FLJ39155, AGRINL, AGRNL
5	EGFLAM	ENSG00000164318	ENST00000397210	protein_coding	KNOWN	CCDS47199	26810	459	152	38445642	38464658	1	None	FLJ39155, AGRINL, AGRNL
5	EGFLAM	ENSG00000164318	ENST00000506135	protein_coding	KNOWN	CCDS47199	26810	459	152	38445673	38464239	1	None	FLJ39155, AGRINL, AGRNL
5	EGFLAM	ENSG00000164318	ENST00000508131	protein_coding	KNOWN	None	26810	338	111	38445698	38463967	1	None	FLJ39155, AGRINL, AGRNL
5	EGFLAM	ENSG00000164318	ENST00000514476	protein_coding	KNOWN	CCDS47199	26810	459	152	38448358	38464153	1	None	FLJ39155, AGRINL, AGRNL
5	EGFLAM	ENSG00000164318	ENST00000513131	retained_intron	KNOWN	None	26810	None	None	38462692	38464651	1	None	FLJ39155, AGRINL, AGRNL
3	SEC22C	ENSG00000093183	ENST00000451653	protein_coding	PUTATIVE	None	16828	676	224	42589461	42605124	-1	SEC22L3	MGC13261, MGC5373
3	SEC22C	ENSG00000093183	ENST00000423701	protein_coding	KNOWN	CCDS56246	16828	687	228	42589461	42623434	-1	SEC22L3	MGC13261, MGC5373
3	SEC22C	ENSG00000093183	ENST00000273156	protein_coding	KNOWN	CCDS2699	16828	753	250	42589463	42623520	-1	SEC22L3	MGC13261, MGC5373
3	SEC22C	ENSG00000093183	ENST00000417572	protein_coding	KNOWN	CCDS2699	16828	753	250	42589496	42642572	-1	SEC22L3	MGC13261, MGC5373
3	SEC22C	ENSG00000093183	ENST00000449617	nonsense_mediated_decay	KNOWN	None	16828	432	143	42589675	42623454	-1	SEC22L3	MGC13261, MGC5373
3	SEC22C	ENSG00000093183	ENST00000264454	protein_coding	KNOWN	CCDS2700	16828	912	303	42594416	42623454	-1	SEC22L3	MGC13261, MGC5373
3	SEC22C	ENSG00000093183	ENST00000456515	protein_coding	PUTATIVE	None	16828	710	235	42597423	42623819	-1	SEC22L3	MGC13261, MGC5373
3	SEC22C	ENSG00000093183	ENST00000493107	processed_transcript	KNOWN	None	16828	None	None	42602607	42623393	-1	SEC22L3	MGC13261, MGC5373
3	SEC22C	ENSG00000093183	ENST00000383750	nonsense_mediated_decay	KNOWN	None	16828	219	72	42602609	42623443	-1	SEC22L3	MGC13261, MGC5373
3	SEC22C	ENSG00000093183	ENST00000450981	protein_coding	PUTATIVE	None	16828	428	141	42602707	42642016	-1	SEC22L3	MGC13261, MGC5373
3	SEC22C	ENSG00000093183	ENST00000445388	nonsense_mediated_decay	KNOWN	None	16828	219	72	42605016	42623479	-1	SEC22L3	MGC13261, MGC5373
3	SEC22C	ENSG00000093183	ENST00000454141	nonsense_mediated_decay	KNOWN	None	16828	186	61	42605037	42623442	-1	SEC22L3	MGC13261, MGC5373
3	SEC22C	ENSG00000093183	ENST00000416880	protein_coding	PUTATIVE	None	16828	322	106	42605039	42623452	-1	SEC22L3	MGC13261, MGC5373
3	SEC22C	ENSG00000093183	ENST00000487701	retained_intron	KNOWN	None	16828	None	None	42605101	42605907	-1	SEC22L3	MGC13261, MGC5373
3	SEC22C	ENSG00000093183	ENST00000420163	protein_coding	PUTATIVE	None	16828	226	74	42605337	42623435	-1	SEC22L3	MGC13261, MGC5373
3	SEC22C	ENSG00000093183	ENST00000456222	processed_transcript	KNOWN	None	16828	None	None	42605419	42623515	-1	SEC22L3	MGC13261, MGC5373
3	SEC22C	ENSG00000093183	ENST00000536332	protein_coding	KNOWN	None	16828	543	180	42589675	42623454	-1	SEC22L3	MGC13261, MGC5373
19	None	ENSG00000237323	ENST00000429259	unprocessed_pseudogene	KNOWN	None	None	None	None	55163535	55163680	1	None	None
14	SLC39A9	ENSG00000029364	ENST00000556125	processed_transcript	KNOWN	None	20182	None	None	69864732	69920017	1	None	FLJ11274
14	SLC39A9	ENSG00000029364	ENST00000555245	processed_transcript	KNOWN	None	20182	None	None	69865103	69925795	1	None	FLJ11274
14	SLC39A9	ENSG00000029364	ENST00000538956	retained_intron	KNOWN	None	20182	None	None	69865107	69925544	1	None	FLJ11274
14	SLC39A9	ENSG00000029364	ENST00000556605	protein_coding	NOVEL	CCDS58327	20182	699	232	69865407	69929105	1	None	FLJ11274
14	SLC39A9	ENSG00000029364	ENST00000336643	protein_coding	NOVEL	CCDS9795	20182	924	307	69865409	69927268	1	None	FLJ11274
14	SLC39A9	ENSG00000029364	ENST00000031146	protein_coding	NOVEL	None	20182	726	241	69865409	69929098	1	None	FLJ11274
14	SLC39A9	ENSG00000029364	ENST00000554059	retained_intron	KNOWN	None	20182	None	None	69865425	69896174	1	None	FLJ11274
14	SLC39A9	ENSG00000029364	ENST00000555840	nonsense_mediated_decay	KNOWN	CCDS9795	20182	924	307	69865455	69929098	1	None	FLJ11274
14	SLC39A9	ENSG00000029364	ENST00000557046	protein_coding	NOVEL	CCDS58328	20182	855	284	69866087	69925310	1	None	FLJ11274
14	SLC39A9	ENSG00000029364	ENST00000554023	retained_intron	KNOWN	None	20182	None	None	69921418	69925260	1	None	FLJ11274
18	MYL12B	ENSG00000118680	ENST00000237500	protein_coding	KNOWN	CCDS11831	29827	519	172	3261907	3278282	1	None	MRLC2
18	MYL12B	ENSG00000118680	ENST00000581193	protein_coding	KNOWN	CCDS11831	29827	519	172	3262415	3278282	1	None	MRLC2
18	MYL12B	ENSG00000118680	ENST00000400175	protein_coding	KNOWN	CCDS11831	29827	519	172	3262611	3278282	1	None	MRLC2
18	MYL12B	ENSG00000118680	ENST00000584539	protein_coding	KNOWN	CCDS11831	29827	519	172	3262954	3278282	1	None	MRLC2
18	None	ENSG00000263553	ENST00000578490	lincRNA	KNOWN	None	None	None	None	22253127	22254312	1	None	None
12	None	ENSG00000203421	ENST00000366240	pseudogene	NOVEL	None	None	None	None	50711462	50711558	1	None	None
1	MIR5187	ENSG00000263548	ENST00000583479	miRNA	KNOWN	None	43523	None	None	161196976	161197051	1	None	hsa-mir-5187
8	FAM90A12P	ENSG00000254229	ENST00000519497	unprocessed_pseudogene	KNOWN	None	32260	None	None	7884599	7889827	-1	FAM90A12	None
HSCHR6_MHC_SSTO	OR10C1	ENSG00000235441	ENST00000428644	protein_coding	KNOWN	None	8165	939	312	29406757	29408405	1	OR10C2	hs6M1-17, OR10C1P
HSCHR6_MHC_SSTO	OR10C1	ENSG00000235441	ENST00000550132	protein_coding	KNOWN	None	8165	885	294	29384748	29408372	1	OR10C2	hs6M1-17, OR10C1P
11	None	ENSG00000255520	ENST00000532022	antisense	KNOWN	None	None	None	None	47144655	47152352	-1	None	None
19	None	ENSG00000225370	ENST00000441512	unprocessed_pseudogene	KNOWN	None	None	None	None	55182682	55184042	1	None	None
12	None	ENSG00000257386	ENST00000550926	processed_transcript	PUTATIVE	None	None	None	None	74931925	74932413	-1	None	None
4	RNU6-531P	ENSG00000252503	ENST00000516694	snRNA	KNOWN	None	47494	None	None	139976629	139976732	1	None	None
HG311_PATCH	C10orf82	ENSG00000262564	ENST00000575179	protein_coding	KNOWN	None	28500	465	154	118423208	118429482	-1	None	MGC33547, Em:AC016825.4
HG311_PATCH	C10orf82	ENSG00000262564	ENST00000573981	retained_intron	KNOWN	None	28500	None	None	118423298	118429471	-1	None	MGC33547, Em:AC016825.4
HG311_PATCH	C10orf82	ENSG00000262564	ENST00000590476	protein_coding	KNOWN	None	28500	705	234	118423302	118429467	-1	None	MGC33547, Em:AC016825.4
HG311_PATCH	C10orf82	ENSG00000262564	ENST00000585690	retained_intron	KNOWN	None	28500	None	None	118423798	118429776	-1	None	MGC33547, Em:AC016825.4
7	VN1R28P	ENSG00000227182	ENST00000452517	unitary_pseudogene	KNOWN	None	37348	None	None	57482534	57483429	-1	None	None
3	MIR568	ENSG00000207770	ENST00000385036	miRNA	KNOWN	None	32824	None	None	114035322	114035416	-1	MIRN568	hsa-mir-568
1	None	ENSG00000235477	ENST00000437833	antisense	KNOWN	None	None	None	None	161337812	161341754	1	None	None
4	PAQR3	ENSG00000163291	ENST00000512760	nonsense_mediated_decay	KNOWN	None	30130	267	88	79808281	79860513	-1	None	None
4	PAQR3	ENSG00000163291	ENST00000342820	nonsense_mediated_decay	KNOWN	None	30130	876	291	79808281	79860548	-1	None	None
4	PAQR3	ENSG00000163291	ENST00000511594	nonsense_mediated_decay	KNOWN	CCDS34020	30130	936	311	79831992	79860379	-1	None	None
4	PAQR3	ENSG00000163291	ENST00000512733	protein_coding	KNOWN	CCDS34020	30130	936	311	79833032	79860592	-1	None	None
4	PAQR3	ENSG00000163291	ENST00000515541	processed_transcript	KNOWN	None	30130	None	None	79835963	79847796	-1	None	None
4	PAQR3	ENSG00000163291	ENST00000503343	processed_transcript	KNOWN	None	30130	None	None	79836352	79847758	-1	None	None
4	PAQR3	ENSG00000163291	ENST00000395594	nonsense_mediated_decay	KNOWN	None	30130	810	269	79839094	79860557	-1	None	None
4	PAQR3	ENSG00000163291	ENST00000515853	nonsense_mediated_decay	KNOWN	None	30130	267	88	79839096	79860378	-1	None	None
4	PAQR3	ENSG00000163291	ENST00000505715	retained_intron	KNOWN	None	30130	None	None	79844671	79847763	-1	None	None
4	PAQR3	ENSG00000163291	ENST00000512299	processed_transcript	KNOWN	None	30130	None	None	79845071	79860349	-1	None	None
4	PAQR3	ENSG00000163291	ENST00000505735	retained_intron	KNOWN	None	30130	None	None	79847754	79851774	-1	None	None
4	PAQR3	ENSG00000163291	ENST00000508599	nonsense_mediated_decay	KNOWN	None	30130	207	68	79847828	79860385	-1	None	None
4	PAQR3	ENSG00000163291	ENST00000380645	protein_coding	KNOWN	None	30130	876	291	79844055	79860557	-1	None	None
4	PAQR3	ENSG00000163291	ENST00000295462	protein_coding	KNOWN	None	30130	267	88	79808307	79860548	-1	None	None
18	RAC1P1	ENSG00000266520	ENST00000578535	processed_pseudogene	KNOWN	None	31001	None	None	22265736	22266315	-1	None	HsT2789
7	None	ENSG00000235368	ENST00000431719	processed_pseudogene	KNOWN	None	None	None	None	57484207	57485380	1	None	None
1	None	ENSG00000236292	ENST00000420867	antisense	KNOWN	None	None	None	None	216367393	216377708	1	None	None
3	HMGN2P24	ENSG00000229072	ENST00000433516	processed_pseudogene	KNOWN	None	39389	None	None	40740557	40740829	-1	None	None
12	None	ENSG00000244266	ENST00000498788	processed_pseudogene	KNOWN	None	None	None	None	50759435	50759869	1	None	None
15	None	ENSG00000212768	ENST00000391457	protein_coding	KNOWN	None	None	204	67	35270552	35272268	1	None	None
11	CYCSP29	ENSG00000255379	ENST00000533731	processed_pseudogene	KNOWN	None	24403	None	None	108693060	108693377	-1	None	HCP29
16	None	ENSG00000238352	ENST00000458764	snoRNA	NOVEL	None	None	None	None	28797731	28797834	-1	None	None
19	ZNF497	ENSG00000174586	ENST00000311044	protein_coding	KNOWN	CCDS12977	23714	1497	498	58865723	58874120	-1	None	FLJ44773
19	ZNF497	ENSG00000174586	ENST00000425453	protein_coding	KNOWN	CCDS12977	23714	1497	498	58866927	58874214	-1	None	FLJ44773
19	ZNF497	ENSG00000174586	ENST00000595763	protein_coding	PUTATIVE	None	23714	326	107	58868805	58874191	-1	None	FLJ44773
7	None	ENSG00000270957	ENST00000605325	processed_pseudogene	KNOWN	None	None	None	None	57544872	57545601	1	None	None
17	None	ENSG00000266942	ENST00000592238	sense_intronic	KNOWN	None	None	None	None	35743821	35744861	1	None	None
8	None	ENSG00000261542	ENST00000569835	lincRNA	KNOWN	None	None	None	None	64128539	64130592	1	None	None
1	None	ENSG00000227091	ENST00000430098	antisense	KNOWN	None	None	None	None	110708808	110709805	-1	None	None
1	None	ENSG00000227091	ENST00000443008	antisense	KNOWN	None	None	None	None	110709429	110715111	-1	None	None
1	None	ENSG00000227091	ENST00000418579	antisense	KNOWN	None	None	None	None	110709703	110710842	-1	None	None
1	None	ENSG00000227485	ENST00000418091	lincRNA	KNOWN	None	None	None	None	63489878	63491329	1	None	None
10	CALHM3	ENSG00000183128	ENST00000369783	protein_coding	KNOWN	CCDS44476	23458	1035	344	105232561	105238997	-1	FAM26A	bA225H22.7
11	ALDH3B1	ENSG00000006534	ENST00000433100	processed_transcript	KNOWN	None	410	None	None	67776048	67796163	1	ALDH7	None
11	ALDH3B1	ENSG00000006534	ENST00000529232	retained_intron	KNOWN	None	410	None	None	67777797	67796744	1	ALDH7	None
11	ALDH3B1	ENSG00000006534	ENST00000531459	processed_transcript	KNOWN	None	410	None	None	67777813	67795624	1	ALDH7	None
11	ALDH3B1	ENSG00000006534	ENST00000434449	processed_transcript	KNOWN	None	410	None	None	67777822	67796743	1	ALDH7	None
11	ALDH3B1	ENSG00000006534	ENST00000530046	processed_transcript	KNOWN	None	410	None	None	67777837	67796161	1	ALDH7	None
11	ALDH3B1	ENSG00000006534	ENST00000525518	processed_transcript	KNOWN	None	410	None	None	67782438	67788991	1	ALDH7	None
11	ALDH3B1	ENSG00000006534	ENST00000527179	processed_transcript	KNOWN	None	410	None	None	67782764	67795577	1	ALDH7	None
11	ALDH3B1	ENSG00000006534	ENST00000526609	processed_transcript	KNOWN	None	410	None	None	67786051	67789320	1	ALDH7	None
11	ALDH3B1	ENSG00000006534	ENST00000527514	processed_transcript	KNOWN	None	410	None	None	67789312	67792083	1	ALDH7	None
11	ALDH3B1	ENSG00000006534	ENST00000316367	protein_coding	KNOWN	None	410	690	229	67777790	67795607	1	ALDH7	None
11	ALDH3B1	ENSG00000006534	ENST00000539229	protein_coding	KNOWN	None	410	1398	465	67776048	67796741	1	ALDH7	None
11	ALDH3B1	ENSG00000006534	ENST00000007633	protein_coding	KNOWN	None	410	1398	465	67777790	67796741	1	ALDH7	None
11	ALDH3B1	ENSG00000006534	ENST00000342456	protein_coding	KNOWN	None	410	1290	429	67777790	67796741	1	ALDH7	None
1	RRM2P2	ENSG00000236484	ENST00000436212	processed_pseudogene	KNOWN	None	10454	None	None	161348497	161349148	-1	None	None
7	None	ENSG00000243433	ENST00000479085	antisense	KNOWN	None	None	None	None	150725868	150726841	-1	None	None
16	None	ENSG00000251417	ENST00000507031	lincRNA	KNOWN	None	None	None	None	28814097	28829149	1	None	None
1	MRPS18BP1	ENSG00000226013	ENST00000414228	processed_pseudogene	KNOWN	None	29741	None	None	216374977	216375168	-1	None	None
14	None	ENSG00000258560	ENST00000554245	antisense	KNOWN	None	None	None	None	100519140	100541215	-1	None	None
18	None	ENSG00000266809	ENST00000579571	processed_pseudogene	KNOWN	None	None	None	None	22269878	22270125	-1	None	None
17	None	ENSG00000267613	ENST00000590364	antisense	KNOWN	None	None	None	None	35768023	35768681	-1	None	None
11	ZDHHC20P3	ENSG00000255460	ENST00000531576	processed_pseudogene	KNOWN	None	39775	None	None	74939367	74939702	-1	None	None
5	MIR3142	ENSG00000265237	ENST00000582487	miRNA	KNOWN	None	38297	None	None	159901409	159901490	1	None	hsa-mir-3142
1	None	ENSG00000229225	ENST00000427547	lincRNA	KNOWN	None	None	None	None	63543752	63544702	-1	None	None
11	None	ENSG00000270060	ENST00000524412	sense_intronic	KNOWN	None	None	None	None	47189832	47191114	-1	None	None
8	RN7SL135P	ENSG00000241964	ENST00000490144	misc_RNA	KNOWN	None	46151	None	None	64147195	64147469	-1	None	None
1	None	ENSG00000229841	ENST00000458184	antisense	KNOWN	None	None	None	None	217665317	217667625	1	None	None
7	NCOR1P3	ENSG00000233601	ENST00000420479	unprocessed_pseudogene	KNOWN	None	42996	None	None	57659500	57669810	1	None	None
12	VPS33A	ENSG00000139719	ENST00000267199	protein_coding	KNOWN	CCDS9231	18179	1791	596	122714111	122751068	-1	None	None
12	VPS33A	ENSG00000139719	ENST00000543633	nonsense_mediated_decay	KNOWN	None	18179	129	42	122716686	122750986	-1	None	None
12	VPS33A	ENSG00000139719	ENST00000541169	processed_transcript	KNOWN	None	18179	None	None	122717366	122734517	-1	None	None
12	VPS33A	ENSG00000139719	ENST00000536212	protein_coding	PUTATIVE	None	18179	462	153	122726978	122734712	-1	None	None
12	VPS33A	ENSG00000139719	ENST00000540669	processed_transcript	KNOWN	None	18179	None	None	122729108	122735583	-1	None	None
12	VPS33A	ENSG00000139719	ENST00000544349	retained_intron	KNOWN	None	18179	None	None	122734069	122751008	-1	None	None
12	VPS33A	ENSG00000139719	ENST00000542790	retained_intron	KNOWN	None	18179	None	None	122734163	122736232	-1	None	None
12	VPS33A	ENSG00000139719	ENST00000542310	processed_transcript	KNOWN	None	18179	None	None	122735605	122750863	-1	None	None
12	VPS33A	ENSG00000139719	ENST00000451053	protein_coding	PUTATIVE	None	18179	561	186	122737428	122750963	-1	None	None
X	AKAP16BP	ENSG00000214992	ENST00000431706	unprocessed_pseudogene	KNOWN	None	38514	None	None	118383309	118391630	-1	AKAP16B	None
X	AKAP16BP	ENSG00000214992	ENST00000543565	unprocessed_pseudogene	KNOWN	None	38514	None	None	118388712	118391633	-1	AKAP16B	None
16	None	ENSG00000240634	ENST00000469929	processed_pseudogene	KNOWN	None	None	None	None	28825301	28825994	-1	None	None
17	None	ENSG00000267562	ENST00000592981	processed_pseudogene	KNOWN	None	None	None	None	35814273	35815033	1	None	None
15	None	ENSG00000259573	ENST00000559657	processed_pseudogene	KNOWN	None	None	None	None	60257141	60258283	1	None	None
3	None	ENSG00000234287	ENST00000457554	processed_pseudogene	KNOWN	None	None	None	None	40803036	40803290	1	None	None
1	None	ENSG00000203605	ENST00000455038	lincRNA	KNOWN	None	None	None	None	63604921	63628824	1	None	None
1	None	ENSG00000235526	ENST00000440688	antisense	KNOWN	None	None	None	None	110720265	110721341	-1	None	None
1	None	ENSG00000234070	ENST00000415765	antisense	KNOWN	None	None	None	None	217954540	217958462	-1	None	None
11	None	ENSG00000243802	ENST00000473109	processed_pseudogene	KNOWN	None	None	None	None	47212732	47213093	-1	None	None
12	None	ENSG00000257323	ENST00000548059	processed_pseudogene	KNOWN	None	None	None	None	75050341	75050640	1	None	None
7	None	ENSG00000243981	ENST00000511350	transcribed_processed_pseudogene	KNOWN	None	None	None	None	57688185	57701660	-1	None	None
7	None	ENSG00000243981	ENST00000436522	processed_transcript	KNOWN	None	None	None	None	57688668	57696917	-1	None	None
7	None	ENSG00000243981	ENST00000605139	processed_transcript	KNOWN	None	None	None	None	57689787	57704895	-1	None	None
1	MMEL1	ENSG00000142606	ENST00000471840	protein_coding	NOVEL	None	14668	201	66	2522078	2524117	-1	MMEL2	SEP, NL1, NL2, NEPII
1	MMEL1	ENSG00000142606	ENST00000378412	protein_coding	KNOWN	CCDS30569	14668	2340	779	2522082	2564429	-1	MMEL2	SEP, NL1, NL2, NEPII
1	MMEL1	ENSG00000142606	ENST00000502556	protein_coding	KNOWN	None	14668	1869	622	2522365	2560933	-1	MMEL2	SEP, NL1, NL2, NEPII
1	MMEL1	ENSG00000142606	ENST00000504800	nonsense_mediated_decay	KNOWN	None	14668	1836	611	2522365	2560933	-1	MMEL2	SEP, NL1, NL2, NEPII
1	MMEL1	ENSG00000142606	ENST00000491941	retained_intron	KNOWN	None	14668	None	None	2523133	2524307	-1	MMEL2	SEP, NL1, NL2, NEPII
1	MMEL1	ENSG00000142606	ENST00000464195	retained_intron	KNOWN	None	14668	None	None	2523133	2524318	-1	MMEL2	SEP, NL1, NL2, NEPII
1	MMEL1	ENSG00000142606	ENST00000469962	retained_intron	KNOWN	None	14668	None	None	2524094	2525512	-1	MMEL2	SEP, NL1, NL2, NEPII
1	MMEL1	ENSG00000142606	ENST00000509374	retained_intron	KNOWN	None	14668	None	None	2537720	2542840	-1	MMEL2	SEP, NL1, NL2, NEPII
1	MMEL1	ENSG00000142606	ENST00000511099	processed_transcript	KNOWN	None	14668	None	None	2561197	2564418	-1	MMEL2	SEP, NL1, NL2, NEPII
1	MMEL1	ENSG00000142606	ENST00000288709	protein_coding	KNOWN	None	14668	2313	770	2522081	2564481	-1	MMEL2	SEP, NL1, NL2, NEPII
1	KCNC4-AS1	ENSG00000224965	ENST00000455967	antisense	KNOWN	None	39958	None	None	110751456	110752609	-1	None	None
1	None	ENSG00000271593	ENST00000447183	lincRNA	KNOWN	None	None	None	None	63624754	63628307	-1	None	None
1	None	ENSG00000271593	ENST00000432537	lincRNA	KNOWN	None	None	None	None	63624758	63626081	-1	None	None
2	None	ENSG00000228251	ENST00000436885	lincRNA	KNOWN	None	None	None	None	113348373	113349516	1	None	None
1	COPA	ENSG00000122218	ENST00000368069	protein_coding	KNOWN	CCDS41424	2230	3702	1233	160259063	160313038	-1	None	HEP-COP
1	COPA	ENSG00000122218	ENST00000241704	protein_coding	KNOWN	CCDS1202	2230	3675	1224	160259063	160313190	-1	None	HEP-COP
1	COPA	ENSG00000122218	ENST00000545284	retained_intron	KNOWN	None	2230	None	None	160264593	160269069	-1	None	HEP-COP
1	COPA	ENSG00000122218	ENST00000481522	retained_intron	KNOWN	None	2230	None	None	160275021	160275714	-1	None	HEP-COP
1	COPA	ENSG00000122218	ENST00000481040	retained_intron	KNOWN	None	2230	None	None	160278720	160280312	-1	None	HEP-COP
1	COPA	ENSG00000122218	ENST00000541366	retained_intron	KNOWN	None	2230	None	None	160303252	160313049	-1	None	HEP-COP
1	COPA	ENSG00000122218	ENST00000545266	retained_intron	KNOWN	None	2230	None	None	160309227	160309998	-1	None	HEP-COP
HSCHR6_MHC_SSTO	OR11A1	ENSG00000223898	ENST00000411967	protein_coding	KNOWN	None	8176	948	315	29392955	29395917	-1	OR11A2	hs6M1-18
HSCHR6_MHC_SSTO	OR11A1	ENSG00000223898	ENST00000418560	protein_coding	KNOWN	None	8176	948	315	29392955	29424524	-1	OR11A2	hs6M1-18
HSCHR6_MHC_SSTO	OR11A1	ENSG00000223898	ENST00000548813	protein_coding	KNOWN	None	8176	948	315	29392955	29395183	-1	OR11A2	hs6M1-18
1	UBBP2	ENSG00000228247	ENST00000376781	processed_pseudogene	KNOWN	None	12465	None	None	218023745	218023975	-1	None	None
18	None	ENSG00000266573	ENST00000577354	lincRNA	KNOWN	None	None	None	None	22305745	22346609	1	None	None
18	None	ENSG00000266573	ENST00000582650	lincRNA	KNOWN	None	None	None	None	22305817	22509040	1	None	None
18	None	ENSG00000266573	ENST00000583794	lincRNA	KNOWN	None	None	None	None	22305908	22324842	1	None	None
17	None	ENSG00000267542	ENST00000591689	antisense	KNOWN	None	None	None	None	35969787	35973886	1	None	None
1	RNU6-481P	ENSG00000206921	ENST00000384194	snRNA	KNOWN	None	47444	None	None	161371079	161371185	1	None	None
5	None	ENSG00000253687	ENST00000523598	antisense	KNOWN	None	None	None	None	160040880	160066190	1	None	None
1	None	ENSG00000200536	ENST00000363666	snoRNA	NOVEL	None	None	None	None	110815106	110815229	1	None	None
3	None	ENSG00000231873	ENST00000412811	lincRNA	KNOWN	None	None	None	None	40807698	40904117	1	None	None
3	ZBTB20-AS1	ENSG00000241560	ENST00000496219	antisense	KNOWN	None	40640	None	None	114070658	114085891	1	None	None
3	ZBTB20-AS1	ENSG00000241560	ENST00000475939	antisense	KNOWN	None	40640	None	None	114070682	114107817	1	None	None
3	ZBTB20-AS1	ENSG00000241560	ENST00000467304	antisense	KNOWN	None	40640	None	None	114070733	114085943	1	None	None
3	ZBTB20-AS1	ENSG00000241560	ENST00000460210	antisense	KNOWN	None	40640	None	None	114085564	114098025	1	None	None
3	ZBTB20-AS1	ENSG00000241560	ENST00000487814	antisense	KNOWN	None	40640	None	None	114106516	114107825	1	None	None
2	None	ENSG00000231747	ENST00000443291	processed_pseudogene	KNOWN	None	None	None	None	113379386	113379744	-1	None	None
1	RNA5SP49	ENSG00000252259	ENST00000516450	rRNA	KNOWN	None	42825	None	None	63652007	63652121	-1	RN5S49	None
1	None	ENSG00000215840	ENST00000400984	processed_pseudogene	KNOWN	None	None	None	None	161375858	161376872	1	None	None
17	None	ENSG00000267668	ENST00000586163	antisense	KNOWN	None	None	None	None	36002976	36044255	1	None	None
17	None	ENSG00000267668	ENST00000586950	antisense	KNOWN	None	None	None	None	36003458	36036294	1	None	None
17	EFCAB3	ENSG00000172421	ENST00000450662	protein_coding	KNOWN	CCDS45751	26379	1473	490	60447579	60493837	1	None	FLJ25818
17	EFCAB3	ENSG00000172421	ENST00000305286	protein_coding	KNOWN	CCDS11632	26379	1317	438	60457914	60493837	1	None	FLJ25818
17	EFCAB3	ENSG00000172421	ENST00000520404	protein_coding	KNOWN	None	26379	523	173	60457917	60483875	1	None	FLJ25818
17	EFCAB3	ENSG00000172421	ENST00000518576	protein_coding	KNOWN	None	26379	488	161	60457944	60472549	1	None	FLJ25818
5	None	ENSG00000239192	ENST00000459451	miRNA	NOVEL	None	None	None	None	160091594	160091688	1	None	None
1	None	ENSG00000227963	ENST00000449169	antisense	KNOWN	None	None	None	None	110828997	110881793	-1	None	None
14	None	ENSG00000257126	ENST00000551395	antisense	KNOWN	None	None	None	None	29198289	29234483	-1	None	None
14	None	ENSG00000257126	ENST00000546560	antisense	KNOWN	None	None	None	None	29198716	29234469	-1	None	None
14	None	ENSG00000257126	ENST00000549487	antisense	KNOWN	None	None	None	None	29204209	29234483	-1	None	None
3	None	ENSG00000244541	ENST00000472890	lincRNA	KNOWN	None	None	None	None	149956306	149957990	1	None	None
3	None	ENSG00000244541	ENST00000498005	lincRNA	KNOWN	None	None	None	None	149956487	149957996	1	None	None
8	ADAM3A	ENSG00000197475	ENST00000460383	processed_transcript	KNOWN	None	209	None	None	39308564	39380365	-1	CYRN1	ADAM3, tMDCI
8	ADAM3A	ENSG00000197475	ENST00000481351	processed_transcript	KNOWN	None	209	None	None	39308564	39380367	-1	CYRN1	ADAM3, tMDCI
8	ADAM3A	ENSG00000197475	ENST00000495171	processed_transcript	KNOWN	None	209	None	None	39308564	39380367	-1	CYRN1	ADAM3, tMDCI
8	ADAM3A	ENSG00000197475	ENST00000490268	processed_transcript	KNOWN	None	209	None	None	39308564	39380367	-1	CYRN1	ADAM3, tMDCI
8	ADAM3A	ENSG00000197475	ENST00000497806	processed_transcript	KNOWN	None	209	None	None	39308564	39380367	-1	CYRN1	ADAM3, tMDCI
8	ADAM3A	ENSG00000197475	ENST00000474764	processed_transcript	KNOWN	None	209	None	None	39308567	39380344	-1	CYRN1	ADAM3, tMDCI
8	ADAM3A	ENSG00000197475	ENST00000461344	unitary_pseudogene	KNOWN	None	209	None	None	39312858	39380329	-1	CYRN1	ADAM3, tMDCI
8	ADAM3A	ENSG00000197475	ENST00000484602	processed_transcript	KNOWN	None	209	None	None	39332159	39380371	-1	CYRN1	ADAM3, tMDCI
8	ADAM3A	ENSG00000197475	ENST00000424066	processed_transcript	KNOWN	None	209	None	None	39346406	39380331	-1	CYRN1	ADAM3, tMDCI
7	None	ENSG00000244151	ENST00000485974	antisense	KNOWN	None	None	None	None	150771829	150773617	-1	None	None
12	None	ENSG00000238436	ENST00000459425	snoRNA	NOVEL	None	None	None	None	58062727	58062822	-1	None	None
11	GPR137	ENSG00000173264	ENST00000546139	protein_coding	PUTATIVE	None	24300	677	224	64037534	64055562	1	None	C11orf4, GPR137A, TM7SF1L1
11	GPR137	ENSG00000173264	ENST00000538244	protein_coding	KNOWN	None	24300	189	62	64043160	64054185	1	None	C11orf4, GPR137A, TM7SF1L1
11	GPR137	ENSG00000173264	ENST00000411458	protein_coding	PUTATIVE	CCDS53655	24300	1428	475	64051811	64056876	1	None	C11orf4, GPR137A, TM7SF1L1
11	GPR137	ENSG00000173264	ENST00000536667	protein_coding	PUTATIVE	None	24300	95	30	64052352	64055216	1	None	C11orf4, GPR137A, TM7SF1L1
11	GPR137	ENSG00000173264	ENST00000539833	protein_coding	KNOWN	None	24300	659	218	64052529	64055562	1	None	C11orf4, GPR137A, TM7SF1L1
11	GPR137	ENSG00000173264	ENST00000546201	nonsense_mediated_decay	KNOWN	None	24300	420	139	64052726	64056186	1	None	C11orf4, GPR137A, TM7SF1L1
11	GPR137	ENSG00000173264	ENST00000377702	protein_coding	KNOWN	CCDS53658	24300	1041	346	64052729	64056966	1	None	C11orf4, GPR137A, TM7SF1L1
11	GPR137	ENSG00000173264	ENST00000535675	protein_coding	KNOWN	None	24300	396	131	64052949	64054475	1	None	C11orf4, GPR137A, TM7SF1L1
11	GPR137	ENSG00000173264	ENST00000543383	protein_coding	KNOWN	None	24300	720	239	64052967	64055623	1	None	C11orf4, GPR137A, TM7SF1L1
11	GPR137	ENSG00000173264	ENST00000538032	protein_coding	KNOWN	None	24300	501	166	64053171	64055286	1	None	C11orf4, GPR137A, TM7SF1L1
11	GPR137	ENSG00000173264	ENST00000540370	protein_coding	KNOWN	None	24300	236	77	64053331	64054232	1	None	C11orf4, GPR137A, TM7SF1L1
11	GPR137	ENSG00000173264	ENST00000536017	retained_intron	KNOWN	None	24300	None	None	64053582	64055485	1	None	C11orf4, GPR137A, TM7SF1L1
11	GPR137	ENSG00000173264	ENST00000438980	protein_coding	KNOWN	CCDS53656	24300	1191	396	64053890	64056966	1	None	C11orf4, GPR137A, TM7SF1L1
11	GPR137	ENSG00000173264	ENST00000313074	protein_coding	KNOWN	CCDS8066	24300	1254	417	64053892	64056963	1	None	C11orf4, GPR137A, TM7SF1L1
11	GPR137	ENSG00000173264	ENST00000542190	protein_coding	PUTATIVE	None	24300	418	138	64053984	64055477	1	None	C11orf4, GPR137A, TM7SF1L1
11	GPR137	ENSG00000173264	ENST00000541952	protein_coding	PUTATIVE	None	24300	469	155	64053993	64055561	1	None	C11orf4, GPR137A, TM7SF1L1
11	GPR137	ENSG00000173264	ENST00000545366	retained_intron	KNOWN	None	24300	None	None	64055555	64056152	1	None	C11orf4, GPR137A, TM7SF1L1
11	GPR137	ENSG00000173264	ENST00000536282	protein_coding	PUTATIVE	None	24300	266	87	64055835	64056764	1	None	C11orf4, GPR137A, TM7SF1L1
11	GPR137	ENSG00000173264	ENST00000539851	protein_coding	KNOWN	CCDS53657	24300	963	320	64052283	64056972	1	None	C11orf4, GPR137A, TM7SF1L1
5	None	ENSG00000254391	ENST00000524198	antisense	KNOWN	None	None	None	None	160112358	160119896	1	None	None
15	C15orf39	ENSG00000167173	ENST00000563905	protein_coding	KNOWN	None	24497	64	20	75487984	75498453	1	None	DKFZP434H132, FLJ46337
15	C15orf39	ENSG00000167173	ENST00000562637	protein_coding	KNOWN	None	24497	87	28	75491207	75498476	1	None	DKFZP434H132, FLJ46337
15	C15orf39	ENSG00000167173	ENST00000360639	protein_coding	KNOWN	CCDS10276	24497	3144	1047	75491233	75504510	1	None	DKFZP434H132, FLJ46337
15	C15orf39	ENSG00000167173	ENST00000394987	protein_coding	KNOWN	CCDS10276	24497	3144	1047	75494218	75504510	1	None	DKFZP434H132, FLJ46337
15	C15orf39	ENSG00000167173	ENST00000564848	protein_coding	KNOWN	None	24497	81	26	75494546	75498470	1	None	DKFZP434H132, FLJ46337
15	C15orf39	ENSG00000167173	ENST00000567617	protein_coding	KNOWN	None	24497	2817	938	75498390	75504510	1	None	DKFZP434H132, FLJ46337
15	C15orf39	ENSG00000167173	ENST00000565074	protein_coding	KNOWN	None	24497	2422	806	75498785	75501936	1	None	DKFZP434H132, FLJ46337
1	LINC00466	ENSG00000224209	ENST00000455304	lincRNA	KNOWN	None	27294	None	None	63655660	63781758	-1	None	None
1	LINC00466	ENSG00000224209	ENST00000418086	lincRNA	KNOWN	None	27294	None	None	63688556	63727475	-1	None	None
1	LINC00466	ENSG00000224209	ENST00000436475	lincRNA	KNOWN	None	27294	None	None	63722693	63782902	-1	None	None
8	None	ENSG00000253205	ENST00000521221	lincRNA	KNOWN	None	None	None	None	64297397	64330488	-1	None	None
8	None	ENSG00000253205	ENST00000519819	lincRNA	KNOWN	None	None	None	None	64298167	64374108	-1	None	None
8	None	ENSG00000253205	ENST00000517829	lincRNA	KNOWN	None	None	None	None	64298421	64329913	-1	None	None
8	None	ENSG00000253205	ENST00000522265	lincRNA	KNOWN	None	None	None	None	64326191	64382757	-1	None	None
8	None	ENSG00000253205	ENST00000521061	lincRNA	KNOWN	None	None	None	None	64345444	64382763	-1	None	None
8	None	ENSG00000253205	ENST00000522086	lincRNA	KNOWN	None	None	None	None	64378783	64382682	-1	None	None
4	RN7SL382P	ENSG00000240723	ENST00000482631	misc_RNA	KNOWN	None	46398	None	None	140021531	140021810	1	None	None
2	None	ENSG00000237753	ENST00000457336	lincRNA	KNOWN	None	None	None	None	113399409	113403267	-1	None	None
17	None	ENSG00000267380	ENST00000592914	lincRNA	KNOWN	None	None	None	None	36009162	36010922	1	None	None
1	LINC00210	ENSG00000231814	ENST00000431637	lincRNA	KNOWN	None	37458	None	None	218066242	218094146	1	NCRNA00210	RP11-72L13.1
12	None	ENSG00000266026	ENST00000583174	miRNA	NOVEL	None	None	None	None	8382368	8382433	1	None	None
10	None	ENSG00000263626	ENST00000583947	miRNA	NOVEL	None	None	None	None	76944716	76944816	1	None	None
4	PPP1R14BP3	ENSG00000179967	ENST00000509033	processed_pseudogene	KNOWN	None	16330	None	None	140036084	140036528	-1	None	None
3	None	ENSG00000233096	ENST00000453828	lincRNA	KNOWN	None	None	None	None	41012032	41013069	-1	None	None
HSCHR10_1_CTG5	OR13A1	ENSG00000262351	ENST00000573291	protein_coding	KNOWN	None	14772	987	328	45798102	45811056	-1	None	None
HSCHR10_1_CTG5	OR13A1	ENSG00000262351	ENST00000573926	protein_coding	KNOWN	None	14772	987	328	45798806	45802907	-1	None	None
16	None	ENSG00000260796	ENST00000568183	antisense	KNOWN	None	None	None	None	28831891	28833354	-1	None	None
10	RPL39P25	ENSG00000227271	ENST00000449384	processed_pseudogene	KNOWN	None	37002	None	None	77029150	77029303	-1	None	None
7	None	ENSG00000270749	ENST00000604520	processed_pseudogene	KNOWN	None	None	None	None	57688991	57689857	1	None	None
17	None	ENSG00000259549	ENST00000558143	antisense	KNOWN	None	None	None	None	36105206	36108563	1	None	None
4	RN7SL311P	ENSG00000265892	ENST00000579858	misc_RNA	KNOWN	None	46327	None	None	140106595	140106897	1	None	None
22	H1F0	ENSG00000189060	ENST00000340857	protein_coding	KNOWN	CCDS13956	4714	585	194	38201114	38203442	1	H1FV	H10
1	RPS23P10	ENSG00000224203	ENST00000416185	unprocessed_pseudogene	KNOWN	None	48342	None	None	161506361	161507948	-1	None	None
7	None	ENSG00000229627	ENST00000436076	processed_pseudogene	KNOWN	None	None	None	None	57698431	57698818	1	None	None
2	None	ENSG00000221541	ENST00000408614	miRNA	NOVEL	None	None	None	None	113601888	113601988	1	None	None
4	None	ENSG00000207384	ENST00000384654	misc_RNA	NOVEL	None	None	None	None	140121549	140121667	1	None	None
5	None	ENSG00000253417	ENST00000518580	lincRNA	KNOWN	None	None	None	None	160358785	160365633	-1	None	None
5	None	ENSG00000253417	ENST00000518301	lincRNA	KNOWN	None	None	None	None	160358788	160365633	-1	None	None
HG1032_PATCH	DUX4L7	ENSG00000260155	ENST00000566160	protein_coding	NOVEL	None	37266	1275	424	190992387	190993902	1	None	None
HG1032_PATCH	DUX4L7	ENSG00000260155	ENST00000561772	protein_coding	PUTATIVE	None	37266	1275	424	190992387	190993946	1	None	None
HG1032_PATCH	DUX4L7	ENSG00000260155	ENST00000562630	protein_coding	PUTATIVE	None	37266	492	163	190992387	190993946	1	None	None
17	None	ENSG00000237184	ENST00000420946	lincRNA	KNOWN	None	None	None	None	36158869	36162759	-1	None	None
1	None	ENSG00000230714	ENST00000420347	lincRNA	PUTATIVE	None	None	None	None	218205177	218207002	1	None	None
2	None	ENSG00000180152	ENST00000312918	processed_pseudogene	KNOWN	None	None	None	None	113610905	113611699	1	None	None
7	None	ENSG00000230796	ENST00000421221	unprocessed_pseudogene	KNOWN	None	None	None	None	57710087	57710825	-1	None	None
11	CCDC87	ENSG00000182791	ENST00000333861	protein_coding	KNOWN	CCDS8145	25579	2550	849	66357640	66360554	-1	None	FLJ10786
19	ZNF837	ENSG00000152475	ENST00000427624	protein_coding	KNOWN	CCDS46216	25164	1596	531	58878985	58892389	-1	None	None
19	ZNF837	ENSG00000152475	ENST00000597582	protein_coding	KNOWN	CCDS46216	25164	1596	531	58878990	58892427	-1	None	None
HSCHR19_1_CTG3_1	None	ENSG00000262113	ENST00000572281	processed_pseudogene	KNOWN	None	None	None	None	34794354	34794818	-1	None	None
4	RNU6-907P	ENSG00000212226	ENST00000390924	snRNA	KNOWN	None	47870	None	None	90052003	90052104	1	None	None
8	OR7E96P	ENSG00000227013	ENST00000530816	processed_pseudogene	KNOWN	None	14815	None	None	7897500	7898475	1	None	None
1	None	ENSG00000232100	ENST00000456026	lincRNA	KNOWN	None	None	None	None	218216847	218232482	1	None	None
2	EDAR	ENSG00000135960	ENST00000409271	protein_coding	KNOWN	None	2895	1443	480	109510927	109605725	-1	ED3, DL	ED5, EDA3, Edar, ED1R, EDA1R
2	EDAR	ENSG00000135960	ENST00000258443	protein_coding	KNOWN	CCDS2081	2895	1347	448	109510927	109605828	-1	ED3, DL	ED5, EDA3, Edar, ED1R, EDA1R
2	EDAR	ENSG00000135960	ENST00000376651	protein_coding	KNOWN	None	2895	1443	480	109510934	109605828	-1	ED3, DL	ED5, EDA3, Edar, ED1R, EDA1R
12	None	ENSG00000188646	ENST00000441072	processed_pseudogene	KNOWN	None	None	None	None	75057554	75057921	-1	None	None
12	None	ENSG00000188646	ENST00000344556	processed_pseudogene	KNOWN	None	None	None	None	75057580	75057921	-1	None	None
18	None	ENSG00000264345	ENST00000580984	lincRNA	KNOWN	None	None	None	None	22513451	22567646	-1	None	None
18	None	ENSG00000264345	ENST00000582697	lincRNA	KNOWN	None	None	None	None	22534171	22567629	-1	None	None
4	TBCK	ENSG00000145348	ENST00000273980	protein_coding	KNOWN	CCDS54788	28261	2682	893	106965474	107242652	-1	None	MGC16169, HSPC302
4	TBCK	ENSG00000145348	ENST00000510927	retained_intron	KNOWN	None	28261	None	None	106967236	107168879	-1	None	MGC16169, HSPC302
4	TBCK	ENSG00000145348	ENST00000361687	protein_coding	KNOWN	CCDS3673	28261	2493	830	106967237	107237387	-1	None	MGC16169, HSPC302
4	TBCK	ENSG00000145348	ENST00000394706	protein_coding	KNOWN	CCDS54789	28261	2565	854	106967248	107237363	-1	None	MGC16169, HSPC302
4	TBCK	ENSG00000145348	ENST00000467183	nonsense_mediated_decay	KNOWN	None	28261	462	153	106967252	107237366	-1	None	MGC16169, HSPC302
4	TBCK	ENSG00000145348	ENST00000394708	protein_coding	KNOWN	CCDS54788	28261	2682	893	106967727	107237423	-1	None	MGC16169, HSPC302
4	TBCK	ENSG00000145348	ENST00000514689	processed_transcript	KNOWN	None	28261	None	None	107037360	107134875	-1	None	MGC16169, HSPC302
4	TBCK	ENSG00000145348	ENST00000515705	processed_transcript	KNOWN	None	28261	None	None	107037476	107134928	-1	None	MGC16169, HSPC302
4	TBCK	ENSG00000145348	ENST00000506384	processed_transcript	KNOWN	None	28261	None	None	107084436	107092397	-1	None	MGC16169, HSPC302
4	TBCK	ENSG00000145348	ENST00000511011	processed_transcript	KNOWN	None	28261	None	None	107092398	107134755	-1	None	MGC16169, HSPC302
4	TBCK	ENSG00000145348	ENST00000506615	processed_transcript	KNOWN	None	28261	None	None	107103510	107151603	-1	None	MGC16169, HSPC302
4	TBCK	ENSG00000145348	ENST00000508666	nonsense_mediated_decay	KNOWN	None	28261	419	138	107154101	107168442	-1	None	MGC16169, HSPC302
4	TBCK	ENSG00000145348	ENST00000503516	protein_coding	PUTATIVE	None	28261	169	55	107154155	107159897	-1	None	MGC16169, HSPC302
4	TBCK	ENSG00000145348	ENST00000505574	nonsense_mediated_decay	KNOWN	None	28261	73	23	107165842	107171627	-1	None	MGC16169, HSPC302
4	TBCK	ENSG00000145348	ENST00000503832	nonsense_mediated_decay	KNOWN	None	28261	256	84	107168980	107173164	-1	None	MGC16169, HSPC302
4	TBCK	ENSG00000145348	ENST00000506280	processed_transcript	KNOWN	None	28261	None	None	107173024	107218896	-1	None	MGC16169, HSPC302
4	TBCK	ENSG00000145348	ENST00000509532	protein_coding	KNOWN	None	28261	479	158	107173141	107237423	-1	None	MGC16169, HSPC302
4	TBCK	ENSG00000145348	ENST00000509862	protein_coding	KNOWN	None	28261	315	104	107183321	107231745	-1	None	MGC16169, HSPC302
4	TBCK	ENSG00000145348	ENST00000507696	protein_coding	KNOWN	None	28261	204	67	107216313	107237392	-1	None	MGC16169, HSPC302
4	TBCK	ENSG00000145348	ENST00000432496	protein_coding	KNOWN	CCDS54788	28261	2682	893	106967233	107237861	-1	None	MGC16169, HSPC302
17	None	ENSG00000267671	ENST00000586509	processed_transcript	KNOWN	None	None	None	None	36187925	36214831	-1	None	None
17	None	ENSG00000267671	ENST00000590732	processed_transcript	KNOWN	None	None	None	None	36202573	36244363	-1	None	None
17	None	ENSG00000267671	ENST00000590708	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	36213922	36214847	-1	None	None
7	None	ENSG00000225898	ENST00000457396	processed_pseudogene	KNOWN	None	None	None	None	93407151	93407826	1	None	None
12	FAM86FP	ENSG00000164845	ENST00000338711	transcribed_unprocessed_pseudogene	KNOWN	None	42357	None	None	8385108	8395544	-1	None	None
12	FAM86FP	ENSG00000164845	ENST00000427893	processed_transcript	KNOWN	None	42357	None	None	8386938	8395544	-1	None	None
7	None	ENSG00000237639	ENST00000440618	unprocessed_pseudogene	KNOWN	None	None	None	None	57710227	57710560	1	None	None
2	None	ENSG00000227368	ENST00000415020	processed_pseudogene	KNOWN	None	None	None	None	113690202	113690748	1	None	None
16	None	ENSG00000260570	ENST00000563565	antisense	KNOWN	None	None	None	None	28841933	28848521	-1	None	None
5	TTC37	ENSG00000198677	ENST00000358746	protein_coding	KNOWN	CCDS4072	23639	4695	1564	94799599	94890711	-1	KIAA0372	None
5	TTC37	ENSG00000198677	ENST00000502768	retained_intron	KNOWN	None	23639	None	None	94818298	94831183	-1	KIAA0372	None
5	TTC37	ENSG00000198677	ENST00000508181	retained_intron	KNOWN	None	23639	None	None	94838607	94852378	-1	KIAA0372	None
5	TTC37	ENSG00000198677	ENST00000512026	retained_intron	KNOWN	None	23639	None	None	94839554	94848704	-1	KIAA0372	None
5	TTC37	ENSG00000198677	ENST00000515176	processed_transcript	KNOWN	None	23639	None	None	94842638	94850766	-1	KIAA0372	None
5	TTC37	ENSG00000198677	ENST00000507805	retained_intron	KNOWN	None	23639	None	None	94842681	94857790	-1	KIAA0372	None
5	TTC37	ENSG00000198677	ENST00000506007	retained_intron	KNOWN	None	23639	None	None	94848836	94852472	-1	KIAA0372	None
5	TTC37	ENSG00000198677	ENST00000513232	nonsense_mediated_decay	KNOWN	None	23639	102	33	94857782	94861365	-1	KIAA0372	None
5	TTC37	ENSG00000198677	ENST00000505578	nonsense_mediated_decay	KNOWN	None	23639	393	130	94857792	94876504	-1	KIAA0372	None
5	TTC37	ENSG00000198677	ENST00000514952	protein_coding	NOVEL	None	23639	1833	610	94857792	94890681	-1	KIAA0372	None
5	TTC37	ENSG00000198677	ENST00000504421	processed_transcript	KNOWN	None	23639	None	None	94863717	94865065	-1	KIAA0372	None
5	TTC37	ENSG00000198677	ENST00000503279	retained_intron	KNOWN	None	23639	None	None	94864539	94872811	-1	KIAA0372	None
5	TTC37	ENSG00000198677	ENST00000515207	retained_intron	KNOWN	None	23639	None	None	94872228	94877610	-1	KIAA0372	None
5	TTC37	ENSG00000198677	ENST00000513823	protein_coding	KNOWN	None	23639	286	94	94877559	94890648	-1	KIAA0372	None
5	TTC37	ENSG00000198677	ENST00000510228	retained_intron	KNOWN	None	23639	None	None	94882678	94886461	-1	KIAA0372	None
4	BBS7	ENSG00000138686	ENST00000264499	protein_coding	KNOWN	CCDS3724	18758	2148	715	122745595	122791652	-1	None	FLJ10715, BBS2L1
4	BBS7	ENSG00000138686	ENST00000507814	protein_coding	KNOWN	None	18758	417	138	122746079	122749828	-1	None	FLJ10715, BBS2L1
4	BBS7	ENSG00000138686	ENST00000506636	protein_coding	KNOWN	CCDS54799	18758	2019	672	122748882	122791605	-1	None	FLJ10715, BBS2L1
4	BBS7	ENSG00000138686	ENST00000508536	retained_intron	KNOWN	None	18758	None	None	122776585	122780178	-1	None	FLJ10715, BBS2L1
4	BBS7	ENSG00000138686	ENST00000505692	retained_intron	KNOWN	None	18758	None	None	122779758	122782834	-1	None	FLJ10715, BBS2L1
4	BBS7	ENSG00000138686	ENST00000502444	retained_intron	KNOWN	None	18758	None	None	122782449	122791642	-1	None	FLJ10715, BBS2L1
1	RNU1-141P	ENSG00000201493	ENST00000364623	snRNA	KNOWN	None	48483	None	None	218303137	218303294	1	None	None
HG104_HG975_PATCH	None	ENSG00000259908	ENST00000566891	lincRNA	KNOWN	None	None	None	None	144840323	144853992	-1	None	None
12	RAD52	ENSG00000002016	ENST00000358495	protein_coding	KNOWN	CCDS8507	9824	1257	418	1021243	1058888	-1	None	None
12	RAD52	ENSG00000002016	ENST00000228345	retained_intron	KNOWN	None	9824	None	None	1021321	1042242	-1	None	None
12	RAD52	ENSG00000002016	ENST00000468231	nonsense_mediated_decay	KNOWN	None	9824	420	139	1021655	1058807	-1	None	None
12	RAD52	ENSG00000002016	ENST00000481052	retained_intron	KNOWN	None	9824	None	None	1021661	1058792	-1	None	None
12	RAD52	ENSG00000002016	ENST00000430095	protein_coding	KNOWN	CCDS8507	9824	1257	418	1021711	1099219	-1	None	None
12	RAD52	ENSG00000002016	ENST00000488642	retained_intron	KNOWN	None	9824	None	None	1021924	1058848	-1	None	None
12	RAD52	ENSG00000002016	ENST00000535376	processed_transcript	KNOWN	None	9824	None	None	1022400	1025748	-1	None	None
12	RAD52	ENSG00000002016	ENST00000542297	processed_transcript	PUTATIVE	None	9824	None	None	1022525	1023364	-1	None	None
12	RAD52	ENSG00000002016	ENST00000543912	nonsense_mediated_decay	KNOWN	None	9824	300	99	1023058	1058831	-1	None	None
12	RAD52	ENSG00000002016	ENST00000461568	nonsense_mediated_decay	KNOWN	None	9824	420	139	1023060	1058831	-1	None	None
12	RAD52	ENSG00000002016	ENST00000463750	retained_intron	KNOWN	None	9824	None	None	1023060	1058831	-1	None	None
12	RAD52	ENSG00000002016	ENST00000536177	protein_coding	NOVEL	None	9824	906	301	1025372	1058833	-1	None	None
12	RAD52	ENSG00000002016	ENST00000542584	processed_transcript	KNOWN	None	9824	None	None	1025871	1058835	-1	None	None
12	RAD52	ENSG00000002016	ENST00000545967	processed_transcript	KNOWN	None	9824	None	None	1036015	1058808	-1	None	None
12	RAD52	ENSG00000002016	ENST00000542785	protein_coding	PUTATIVE	None	9824	389	128	1036389	1058794	-1	None	None
12	RAD52	ENSG00000002016	ENST00000397230	protein_coding	PUTATIVE	None	9824	395	130	1038938	1058685	-1	None	None
12	RAD52	ENSG00000002016	ENST00000544742	protein_coding	PUTATIVE	None	9824	357	118	1039096	1058815	-1	None	None
12	RAD52	ENSG00000002016	ENST00000541619	protein_coding	PUTATIVE	None	9824	357	118	1039103	1058839	-1	None	None
12	RAD52	ENSG00000002016	ENST00000539046	protein_coding	KNOWN	None	9824	1026	341	1022316	1058835	-1	None	None
12	RAD52	ENSG00000002016	ENST00000545564	protein_coding	KNOWN	None	9824	681	226	1034629	1042224	-1	None	None
1	None	ENSG00000228734	ENST00000449140	lincRNA	KNOWN	None	None	None	None	63715591	63717442	1	None	None
16	MIR4721	ENSG00000264455	ENST00000577590	miRNA	KNOWN	None	41609	None	None	28855240	28855328	-1	None	hsa-mir-4721
1	LAMTOR5-AS1	ENSG00000224699	ENST00000590413	antisense	KNOWN	None	40823	None	None	110925441	110960984	1	None	None
1	LAMTOR5-AS1	ENSG00000224699	ENST00000457535	antisense	KNOWN	None	40823	None	None	110950147	110958896	1	None	None
1	LAMTOR5-AS1	ENSG00000224699	ENST00000598454	antisense	KNOWN	None	40823	None	None	110950447	110960984	1	None	None
1	LAMTOR5-AS1	ENSG00000224699	ENST00000587691	antisense	KNOWN	None	40823	None	None	110950462	110955120	1	None	None
1	LAMTOR5-AS1	ENSG00000224699	ENST00000590826	antisense	KNOWN	None	40823	None	None	110951592	110958894	1	None	None
1	LAMTOR5-AS1	ENSG00000224699	ENST00000585330	antisense	KNOWN	None	40823	None	None	110954799	110958896	1	None	None
1	LAMTOR5-AS1	ENSG00000224699	ENST00000444238	antisense	KNOWN	None	40823	None	None	110955615	110964501	1	None	None
1	LAMTOR5-AS1	ENSG00000224699	ENST00000599202	antisense	KNOWN	None	40823	None	None	110958685	110968407	1	None	None
1	LAMTOR5-AS1	ENSG00000224699	ENST00000598158	antisense	KNOWN	None	40823	None	None	110958685	110968621	1	None	None
1	LAMTOR5-AS1	ENSG00000224699	ENST00000596890	antisense	KNOWN	None	40823	None	None	110958685	110968731	1	None	None
1	LAMTOR5-AS1	ENSG00000224699	ENST00000585433	antisense	KNOWN	None	40823	None	None	110958749	110974982	1	None	None
1	LAMTOR5-AS1	ENSG00000224699	ENST00000598350	antisense	KNOWN	None	40823	None	None	110960111	110968707	1	None	None
1	LAMTOR5-AS1	ENSG00000224699	ENST00000597455	antisense	KNOWN	None	40823	None	None	110968593	110969392	1	None	None
10	ZNF503-AS1	ENSG00000226051	ENST00000524517	lincRNA	KNOWN	None	27370	None	None	77029577	77118465	1	None	None
10	ZNF503-AS1	ENSG00000226051	ENST00000530606	lincRNA	KNOWN	None	27370	None	None	77033055	77118366	1	None	None
10	ZNF503-AS1	ENSG00000226051	ENST00000531808	lincRNA	KNOWN	None	27370	None	None	77043559	77133258	1	None	None
10	ZNF503-AS1	ENSG00000226051	ENST00000528121	lincRNA	KNOWN	None	27370	None	None	77056141	77120657	1	None	None
10	ZNF503-AS1	ENSG00000226051	ENST00000416398	lincRNA	KNOWN	None	27370	None	None	77056148	77121436	1	None	None
10	ZNF503-AS1	ENSG00000226051	ENST00000526759	lincRNA	KNOWN	None	27370	None	None	77056187	77120447	1	None	None
10	ZNF503-AS1	ENSG00000226051	ENST00000533822	lincRNA	KNOWN	None	27370	None	None	77056255	77120562	1	None	None
7	None	ENSG00000233962	ENST00000445460	unprocessed_pseudogene	KNOWN	None	None	None	None	57712442	57713165	-1	None	None
1	None	ENSG00000229016	ENST00000434965	processed_pseudogene	KNOWN	None	None	None	None	218474604	218475314	-1	None	None
11	None	ENSG00000203334	ENST00000366160	pseudogene	KNOWN	None	None	None	None	108828445	108830523	1	None	None
4	None	ENSG00000251095	ENST00000506864	antisense	KNOWN	None	None	None	None	90472507	90612524	1	None	None
4	None	ENSG00000251095	ENST00000508021	antisense	KNOWN	None	None	None	None	90472541	90647654	1	None	None
4	None	ENSG00000251095	ENST00000512077	antisense	KNOWN	None	None	None	None	90509017	90581506	1	None	None
4	None	ENSG00000251095	ENST00000509723	antisense	KNOWN	None	None	None	None	90509060	90575812	1	None	None
4	None	ENSG00000251095	ENST00000507916	antisense	KNOWN	None	None	None	None	90548935	90641323	1	None	None
4	None	ENSG00000251095	ENST00000513572	antisense	KNOWN	None	None	None	None	90602663	90615087	1	None	None
2	MIR4771-2	ENSG00000264793	ENST00000582617	miRNA	KNOWN	None	41774	None	None	87421909	87421982	1	None	hsa-mir-4771-2
2	MIR4771-1	ENSG00000264793	ENST00000582617	miRNA	KNOWN	None	41901	None	None	87421909	87421982	1	None	hsa-mir-4771-1
2	HMGN2P23	ENSG00000236124	ENST00000456759	processed_pseudogene	KNOWN	None	39388	None	None	113738743	113739011	-1	None	None
5	None	ENSG00000221002	ENST00000408075	miRNA	NOVEL	None	None	None	None	160657057	160657154	-1	None	None
1	None	ENSG00000223683	ENST00000429660	processed_pseudogene	KNOWN	None	None	None	None	63727784	63728378	1	None	None
7	None	ENSG00000236261	ENST00000442180	unprocessed_pseudogene	KNOWN	None	None	None	None	57712581	57712914	1	None	None
HG243_PATCH	None	ENSG00000261562	ENST00000565946	antisense	KNOWN	None	None	None	None	145369493	145370041	-1	None	None
2	None	ENSG00000233671	ENST00000423285	processed_pseudogene	KNOWN	None	None	None	None	87448236	87449611	-1	None	None
10	C10orf40	ENSG00000235931	ENST00000521074	protein_coding	KNOWN	None	23524	387	128	61715188	61720640	-1	None	AC023904.2
10	C10orf40	ENSG00000235931	ENST00000444900	protein_coding	KNOWN	None	23524	387	128	61717975	61720671	-1	None	AC023904.2
10	C10orf40	ENSG00000235931	ENST00000430888	protein_coding	KNOWN	None	23524	387	128	61718043	61718429	-1	None	AC023904.2
17	ABHD15	ENSG00000168792	ENST00000307201	protein_coding	KNOWN	CCDS32602	26971	1407	468	27887565	27894155	-1	None	None
12	None	ENSG00000257998	ENST00000547218	processed_pseudogene	KNOWN	None	None	None	None	75121818	75122631	-1	None	None
1	None	ENSG00000223375	ENST00000444678	processed_pseudogene	KNOWN	None	None	None	None	218511883	218512098	1	None	None
14	MIR151B	ENSG00000265154	ENST00000584249	miRNA	KNOWN	None	41588	None	None	100575756	100575851	-1	None	hsa-mir-151b
2	None	ENSG00000232090	ENST00000453215	processed_pseudogene	KNOWN	None	None	None	None	113753094	113753514	1	None	None
HSCHR6_MHC_SSTO	OR2H1	ENSG00000229408	ENST00000439879	protein_coding	KNOWN	None	8252	951	316	29424634	29431781	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_SSTO	OR2H1	ENSG00000229408	ENST00000449826	protein_coding	KNOWN	None	8252	951	316	29424641	29431781	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_SSTO	OR2H1	ENSG00000229408	ENST00000488022	processed_transcript	KNOWN	None	8252	None	None	29424656	29428539	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_SSTO	OR2H1	ENSG00000229408	ENST00000446161	protein_coding	KNOWN	None	8252	951	316	29427224	29431781	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_SSTO	OR2H1	ENSG00000229408	ENST00000418376	protein_coding	KNOWN	None	8252	951	316	29428893	29430186	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_SSTO	OR2H1	ENSG00000229408	ENST00000498404	processed_transcript	PUTATIVE	None	8252	None	None	29428948	29430173	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_SSTO	OR2H1	ENSG00000229408	ENST00000488377	processed_transcript	PUTATIVE	None	8252	None	None	29428948	29430173	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_SSTO	OR2H1	ENSG00000229408	ENST00000550783	protein_coding	KNOWN	None	8252	951	316	29425906	29431773	1	OR2H6, OR2H8	OR6-2
1	None	ENSG00000224515	ENST00000419446	antisense	KNOWN	None	None	None	None	161526080	161526868	-1	None	None
14	MIR342	ENSG00000199082	ENST00000362212	miRNA	KNOWN	None	31778	None	None	100575992	100576090	1	MIRN342	hsa-mir-342
7	None	ENSG00000234085	ENST00000411435	unprocessed_pseudogene	KNOWN	None	None	None	None	57714528	57715098	1	None	None
12	RNU6-769P	ENSG00000207136	ENST00000384407	snRNA	KNOWN	None	47732	None	None	51027056	51027159	1	None	None
2	RNU6-1180P	ENSG00000201805	ENST00000364935	snRNA	KNOWN	None	48143	None	None	113844382	113844488	1	None	None
12	MRPL51	ENSG00000111639	ENST00000229238	protein_coding	KNOWN	CCDS8547	14044	387	128	6601150	6602764	-1	MRP64	CDA09, HSPC241, bMRP64
12	MRPL51	ENSG00000111639	ENST00000537701	processed_transcript	PUTATIVE	None	14044	None	None	6601269	6603007	-1	MRP64	CDA09, HSPC241, bMRP64
12	MRPL51	ENSG00000111639	ENST00000543164	processed_transcript	PUTATIVE	None	14044	None	None	6601313	6603006	-1	MRP64	CDA09, HSPC241, bMRP64
12	MRPL51	ENSG00000111639	ENST00000543703	protein_coding	PUTATIVE	None	14044	99	32	6601317	6603006	-1	MRP64	CDA09, HSPC241, bMRP64
12	MRPL51	ENSG00000111639	ENST00000538814	processed_transcript	PUTATIVE	None	14044	None	None	6601318	6602212	-1	MRP64	CDA09, HSPC241, bMRP64
12	MRPL51	ENSG00000111639	ENST00000543959	processed_transcript	PUTATIVE	None	14044	None	None	6601318	6602884	-1	MRP64	CDA09, HSPC241, bMRP64
12	MRPL51	ENSG00000111639	ENST00000540949	processed_transcript	PUTATIVE	None	14044	None	None	6601447	6602461	-1	MRP64	CDA09, HSPC241, bMRP64
14	None	ENSG00000258982	ENST00000554537	antisense	KNOWN	None	None	None	None	100673744	100704892	-1	None	None
11	None	ENSG00000254429	ENST00000529215	antisense	KNOWN	None	None	None	None	74971171	74972069	1	None	None
7	None	ENSG00000227015	ENST00000412031	unprocessed_pseudogene	KNOWN	None	None	None	None	57830325	57830652	-1	None	None
X	RNU6-800P	ENSG00000207202	ENST00000384473	snRNA	KNOWN	None	47763	None	None	10550857	10550959	1	None	None
1	HSPA7	ENSG00000225217	ENST00000445535	unprocessed_pseudogene	KNOWN	None	5240	None	None	161576081	161578007	1	None	None
7	NDUFAF4P2	ENSG00000213483	ENST00000445374	processed_pseudogene	KNOWN	None	44541	None	None	93474101	93474620	1	None	None
7	NDUFAF4P2	ENSG00000213483	ENST00000394438	processed_pseudogene	KNOWN	None	44541	None	None	93474101	93474643	1	None	None
15	MESTP2	ENSG00000259558	ENST00000559787	processed_pseudogene	KNOWN	None	18208	None	None	60345403	60346291	-1	None	None
2	None	ENSG00000234174	ENST00000446590	antisense	KNOWN	None	None	None	None	113929112	113932914	-1	None	None
2	None	ENSG00000234174	ENST00000438409	antisense	KNOWN	None	None	None	None	113931180	113932937	-1	None	None
12	RNU6-238P	ENSG00000200183	ENST00000363313	snRNA	KNOWN	None	47201	None	None	51050756	51050861	1	None	None
1	None	ENSG00000232480	ENST00000414452	antisense	KNOWN	None	None	None	None	218517538	218519020	-1	None	None
HG104_HG975_PATCH	None	ENSG00000261164	ENST00000568789	antisense	KNOWN	None	None	None	None	144871090	144872305	1	None	None
HG104_HG975_PATCH	None	ENSG00000261164	ENST00000564332	antisense	KNOWN	None	None	None	None	144871149	144872629	1	None	None
HG104_HG975_PATCH	None	ENSG00000261164	ENST00000568813	antisense	KNOWN	None	None	None	None	144871685	144872445	1	None	None
X	None	ENSG00000234129	ENST00000433747	lincRNA	KNOWN	None	None	None	None	10988011	11129234	-1	None	None
11	None	ENSG00000255528	ENST00000526041	lincRNA	KNOWN	None	None	None	None	108873192	108908694	-1	None	None
12	None	ENSG00000200428	ENST00000363558	misc_RNA	NOVEL	None	None	None	None	51137351	51137467	1	None	None
7	None	ENSG00000232161	ENST00000442554	unprocessed_pseudogene	KNOWN	None	None	None	None	57830672	57830879	1	None	None
2	CAPN14	ENSG00000214711	ENST00000398824	nonsense_mediated_decay	KNOWN	None	16664	432	143	31395924	31456724	-1	None	None
2	CAPN14	ENSG00000214711	ENST00000403897	protein_coding	NOVEL	CCDS46254	16664	2055	684	31397547	31440411	-1	None	None
2	CAPN14	ENSG00000214711	ENST00000444918	protein_coding	KNOWN	None	16664	2055	684	31395924	31440411	-1	None	None
14	None	ENSG00000258904	ENST00000555212	sense_intronic	KNOWN	None	None	None	None	100730118	100731742	1	None	None
11	None	ENSG00000254963	ENST00000529304	antisense	KNOWN	None	None	None	None	74975333	74976214	1	None	None
17	HOXB4	ENSG00000182742	ENST00000332503	protein_coding	KNOWN	CCDS11529	5115	756	251	46652875	46657473	-1	HOX2, HOX2F	None
14	None	ENSG00000259052	ENST00000553954	sense_overlapping	KNOWN	None	None	None	None	100746296	100757793	-1	None	None
7	None	ENSG00000230271	ENST00000458585	unprocessed_pseudogene	KNOWN	None	None	None	None	57832290	57832905	-1	None	None
3	None	ENSG00000243550	ENST00000471222	lincRNA	KNOWN	None	None	None	None	149983199	150005160	-1	None	None
2	None	ENSG00000271097	ENST00000603413	processed_pseudogene	KNOWN	None	None	None	None	87528781	87529374	1	None	None
1	None	ENSG00000212610	ENST00000391308	snoRNA	NOVEL	None	None	None	None	218715033	218715241	-1	None	None
1	None	ENSG00000230798	ENST00000426393	antisense	KNOWN	None	None	None	None	63786555	63787200	-1	None	None
1	None	ENSG00000230798	ENST00000418244	antisense	KNOWN	None	None	None	None	63786555	63788107	-1	None	None
1	None	ENSG00000230798	ENST00000449386	antisense	KNOWN	None	None	None	None	63786555	63788129	-1	None	None
1	None	ENSG00000230798	ENST00000431294	antisense	KNOWN	None	None	None	None	63786555	63789253	-1	None	None
1	None	ENSG00000230798	ENST00000427268	antisense	KNOWN	None	None	None	None	63786555	63790112	-1	None	None
X	None	ENSG00000207151	ENST00000384422	misc_RNA	NOVEL	None	None	None	None	11134212	11134313	-1	None	None
12	None	ENSG00000271018	ENST00000604279	processed_pseudogene	KNOWN	None	None	None	None	51150675	51151216	1	None	None
8	None	ENSG00000253881	ENST00000523697	processed_pseudogene	KNOWN	None	None	None	None	7906441	7906789	1	None	None
1	None	ENSG00000226693	ENST00000397383	processed_pseudogene	KNOWN	None	None	None	None	219054942	219055992	-1	None	None
15	None	ENSG00000259223	ENST00000560503	lincRNA	KNOWN	None	None	None	None	60365867	60410519	-1	None	None
X	MIR548AX	ENSG00000263652	ENST00000580117	miRNA	KNOWN	None	43528	None	None	11336734	11336806	-1	None	hsa-mir-548ax
2	None	ENSG00000225049	ENST00000453126	pseudogene	NOVEL	None	None	None	None	87586177	87586367	-1	None	None
HSCHR6_MHC_QBL	MICG	ENSG00000224355	ENST00000411716	unprocessed_pseudogene	KNOWN	None	16802	None	None	29777533	29777664	-1	None	None
11	MIR326	ENSG00000199090	ENST00000362220	miRNA	KNOWN	None	31769	None	None	75046136	75046230	-1	MIRN326	hsa-mir-326
7	None	ENSG00000234695	ENST00000435257	antisense	KNOWN	None	None	None	None	93520225	93522913	1	None	None
7	None	ENSG00000250923	ENST00000512399	unprocessed_pseudogene	KNOWN	None	None	None	None	57832889	57833087	1	None	None
1	RPS23P9	ENSG00000231586	ENST00000448848	unprocessed_pseudogene	KNOWN	None	48341	None	None	161587782	161589375	-1	None	None
12	None	ENSG00000257434	ENST00000549762	antisense	KNOWN	None	None	None	None	75414749	75435052	1	None	None
12	None	ENSG00000257434	ENST00000550049	antisense	KNOWN	None	None	None	None	75419754	75438573	1	None	None
12	None	ENSG00000257434	ENST00000547040	antisense	KNOWN	None	None	None	None	75419767	75437150	1	None	None
HSCHR6_MHC_QBL	HCG4P8	ENSG00000225023	ENST00000414972	unprocessed_pseudogene	KNOWN	None	22927	None	None	29792350	29793328	-1	None	HCGIV-08, HCGIV.7, HCGIV-8
X	None	ENSG00000230392	ENST00000428222	lincRNA	KNOWN	None	None	None	None	118425492	118469573	1	None	None
19	None	ENSG00000269694	ENST00000597769	antisense	KNOWN	None	None	None	None	18992489	18994185	1	None	None
12	None	ENSG00000271490	ENST00000603396	processed_pseudogene	KNOWN	None	None	None	None	51200118	51200220	-1	None	None
2	None	ENSG00000213375	ENST00000393756	pseudogene	NOVEL	None	None	None	None	87596356	87596632	1	None	None
X	None	ENSG00000232392	ENST00000446186	processed_pseudogene	KNOWN	None	None	None	None	11352353	11354021	-1	None	None
7	None	ENSG00000224484	ENST00000449138	unprocessed_pseudogene	KNOWN	None	None	None	None	57836678	57837227	-1	None	None
8	None	ENSG00000255459	ENST00000531125	processed_pseudogene	KNOWN	None	None	None	None	7943544	7944287	-1	None	None
14	None	ENSG00000258504	ENST00000555428	lincRNA	KNOWN	None	None	None	None	100757454	100758287	1	None	None
14	None	ENSG00000258504	ENST00000556458	lincRNA	KNOWN	None	None	None	None	100757455	100760993	1	None	None
11	RN7SL772P	ENSG00000266540	ENST00000581126	misc_RNA	KNOWN	None	46788	None	None	47227396	47227672	1	None	None
HG243_PATCH	None	ENSG00000254849	ENST00000524687	sense_overlapping	KNOWN	None	None	None	None	145449052	145449133	-1	None	None
11	SNORD15A	ENSG00000206941	ENST00000384214	snoRNA	KNOWN	None	10114	None	None	75111435	75111582	1	RNU15A	U15A
HSCHR6_MHC_QBL	MICF	ENSG00000232253	ENST00000449121	unprocessed_pseudogene	KNOWN	None	16801	None	None	29817101	29817229	-1	None	None
7	None	ENSG00000241247	ENST00000424151	processed_transcript	PUTATIVE	None	None	None	None	93594722	93597702	-1	None	None
2	None	ENSG00000224881	ENST00000444323	processed_pseudogene	KNOWN	None	None	None	None	87607003	87607890	-1	None	None
19	None	ENSG00000269019	ENST00000601106	antisense	KNOWN	None	None	None	None	19051131	19057640	1	None	None
7	ZNF655	ENSG00000197343	ENST00000320583	protein_coding	KNOWN	CCDS5670	30899	546	181	99156029	99162328	1	None	VIK-1, VIK
7	ZNF655	ENSG00000197343	ENST00000467680	retained_intron	KNOWN	None	30899	None	None	99156045	99162328	1	None	VIK-1, VIK
7	ZNF655	ENSG00000197343	ENST00000489320	retained_intron	KNOWN	None	30899	None	None	99156167	99158582	1	None	VIK-1, VIK
7	ZNF655	ENSG00000197343	ENST00000452314	protein_coding	KNOWN	None	30899	297	98	99156190	99161646	1	None	VIK-1, VIK
7	ZNF655	ENSG00000197343	ENST00000416144	nonsense_mediated_decay	KNOWN	None	30899	372	123	99156194	99162309	1	None	VIK-1, VIK
7	ZNF655	ENSG00000197343	ENST00000252713	protein_coding	KNOWN	CCDS5669	30899	1476	491	99156201	99172029	1	None	VIK-1, VIK
7	ZNF655	ENSG00000197343	ENST00000454654	protein_coding	PUTATIVE	None	30899	312	103	99156215	99169410	1	None	VIK-1, VIK
7	ZNF655	ENSG00000197343	ENST00000412636	nonsense_mediated_decay	KNOWN	None	30899	141	46	99156218	99169941	1	None	VIK-1, VIK
7	ZNF655	ENSG00000197343	ENST00000486324	processed_transcript	KNOWN	None	30899	None	None	99156291	99200423	1	None	VIK-1, VIK
7	ZNF655	ENSG00000197343	ENST00000423973	nonsense_mediated_decay	KNOWN	None	30899	396	131	99156292	99162328	1	None	VIK-1, VIK
7	ZNF655	ENSG00000197343	ENST00000449244	protein_coding	PUTATIVE	None	30899	390	129	99156292	99169340	1	None	VIK-1, VIK
7	ZNF655	ENSG00000197343	ENST00000493947	retained_intron	KNOWN	None	30899	None	None	99156293	99169194	1	None	VIK-1, VIK
7	ZNF655	ENSG00000197343	ENST00000455905	nonsense_mediated_decay	KNOWN	None	30899	381	126	99156318	99205433	1	None	VIK-1, VIK
7	ZNF655	ENSG00000197343	ENST00000425063	protein_coding	PUTATIVE	None	30899	312	103	99156336	99174062	1	None	VIK-1, VIK
7	ZNF655	ENSG00000197343	ENST00000493277	protein_coding	KNOWN	CCDS47655	30899	1581	526	99156341	99171344	1	None	VIK-1, VIK
7	ZNF655	ENSG00000197343	ENST00000422422	nonsense_mediated_decay	KNOWN	None	30899	153	50	99156349	99161969	1	None	VIK-1, VIK
7	ZNF655	ENSG00000197343	ENST00000488751	retained_intron	KNOWN	None	30899	None	None	99156391	99160021	1	None	VIK-1, VIK
7	ZNF655	ENSG00000197343	ENST00000422164	protein_coding	KNOWN	None	30899	547	181	99156422	99170173	1	None	VIK-1, VIK
7	ZNF655	ENSG00000197343	ENST00000422647	protein_coding	KNOWN	None	30899	329	108	99156428	99169955	1	None	VIK-1, VIK
7	ZNF655	ENSG00000197343	ENST00000427931	protein_coding	KNOWN	None	30899	337	111	99156428	99169963	1	None	VIK-1, VIK
7	ZNF655	ENSG00000197343	ENST00000440391	protein_coding	KNOWN	CCDS34695	30899	333	110	99156449	99162328	1	None	VIK-1, VIK
7	ZNF655	ENSG00000197343	ENST00000394163	protein_coding	KNOWN	CCDS5669	30899	1476	491	99156485	99174076	1	None	VIK-1, VIK
7	ZNF655	ENSG00000197343	ENST00000494357	retained_intron	KNOWN	None	30899	None	None	99167822	99173159	1	None	VIK-1, VIK
7	ZNF655	ENSG00000197343	ENST00000419215	processed_transcript	KNOWN	None	30899	None	None	99168971	99174076	1	None	VIK-1, VIK
7	ZNF655	ENSG00000197343	ENST00000424881	protein_coding	KNOWN	CCDS47655	30899	1581	526	99156448	99174072	1	None	VIK-1, VIK
7	ZNF655	ENSG00000197343	ENST00000357864	protein_coding	KNOWN	CCDS34695	30899	333	110	99156045	99162326	1	None	VIK-1, VIK
HSCHR6_MHC_QBL	HCG4P7	ENSG00000230419	ENST00000456819	unprocessed_pseudogene	KNOWN	None	22926	None	None	29846367	29847335	-1	None	HCGIV-07, HCGIV.C, HCGIV-7
12	RN7SL519P	ENSG00000243075	ENST00000497925	misc_RNA	KNOWN	None	46535	None	None	51235283	51235612	-1	None	None
1	None	ENSG00000225561	ENST00000446002	lincRNA	KNOWN	None	None	None	None	219086099	219089526	-1	None	None
15	None	ENSG00000240163	ENST00000475062	processed_pseudogene	KNOWN	None	None	None	None	60682570	60682881	1	None	None
2	None	ENSG00000189223	ENST00000456685	antisense	KNOWN	None	None	None	None	113969099	113997267	1	None	None
2	None	ENSG00000189223	ENST00000437551	antisense	KNOWN	None	None	None	None	113993104	113998402	1	None	None
2	None	ENSG00000189223	ENST00000451179	antisense	KNOWN	None	None	None	None	113993107	114023747	1	None	None
2	None	ENSG00000189223	ENST00000556070	antisense	KNOWN	None	None	None	None	113993113	114023294	1	None	None
2	None	ENSG00000189223	ENST00000422956	antisense	KNOWN	None	None	None	None	113993113	114024587	1	None	None
2	None	ENSG00000189223	ENST00000431844	antisense	KNOWN	None	None	None	None	113993117	113993934	1	None	None
2	None	ENSG00000189223	ENST00000553869	antisense	KNOWN	None	None	None	None	113993117	114020939	1	None	None
2	None	ENSG00000189223	ENST00000333145	antisense	KNOWN	None	None	None	None	113993117	114024581	1	None	None
2	None	ENSG00000189223	ENST00000445745	antisense	KNOWN	None	None	None	None	113993814	114024587	1	None	None
2	None	ENSG00000189223	ENST00000436293	antisense	KNOWN	None	None	None	None	113993846	114024587	1	None	None
2	None	ENSG00000189223	ENST00000555766	retained_intron	KNOWN	None	None	None	None	113995111	113997485	1	None	None
2	None	ENSG00000189223	ENST00000510859	antisense	KNOWN	None	None	None	None	114008343	114024550	1	None	None
7	None	ENSG00000236907	ENST00000458734	unprocessed_pseudogene	KNOWN	None	None	None	None	57877307	57877718	-1	None	None
12	None	ENSG00000271621	ENST00000605614	processed_pseudogene	KNOWN	None	None	None	None	51241708	51242095	-1	None	None
4	None	ENSG00000247775	ENST00000513653	antisense	KNOWN	None	None	None	None	90757559	90763129	1	None	None
4	None	ENSG00000247775	ENST00000501215	antisense	KNOWN	None	None	None	None	90757575	90761746	1	None	None
7	None	ENSG00000236861	ENST00000426193	antisense	KNOWN	None	None	None	None	93598754	93629684	1	None	None
7	None	ENSG00000236861	ENST00000426634	antisense	KNOWN	None	None	None	None	93598760	93640425	1	None	None
X	None	ENSG00000226661	ENST00000413240	antisense	KNOWN	None	None	None	None	118490264	118527558	-1	None	None
19	RN7SL70P	ENSG00000241172	ENST00000478322	misc_RNA	KNOWN	None	46086	None	None	19068769	19069067	-1	None	None
HG243_PATCH	None	ENSG00000266624	ENST00000579254	miRNA	NOVEL	None	None	None	None	145454989	145455068	-1	None	None
HSCHR6_MHC_QBL	HLA-H	ENSG00000227296	ENST00000429724	unprocessed_pseudogene	KNOWN	None	4965	None	None	29846825	29849546	1	None	None
22	GCAT	ENSG00000100116	ENST00000323205	protein_coding	NOVEL	CCDS54527	4188	1338	445	38203912	38213183	1	None	KBL
22	GCAT	ENSG00000100116	ENST00000248924	protein_coding	KNOWN	CCDS13957	4188	1260	419	38203919	38212904	1	None	KBL
22	GCAT	ENSG00000100116	ENST00000445195	protein_coding	NOVEL	None	4188	531	176	38203923	38209307	1	None	KBL
22	GCAT	ENSG00000100116	ENST00000415371	processed_transcript	KNOWN	None	4188	None	None	38203930	38209492	1	None	KBL
22	GCAT	ENSG00000100116	ENST00000478203	retained_intron	KNOWN	None	4188	None	None	38203941	38209083	1	None	KBL
22	GCAT	ENSG00000100116	ENST00000426858	nonsense_mediated_decay	KNOWN	None	4188	276	91	38203945	38211215	1	None	KBL
22	GCAT	ENSG00000100116	ENST00000451984	protein_coding	NOVEL	None	4188	716	237	38204021	38209616	1	None	KBL
7	None	ENSG00000250618	ENST00000508864	unprocessed_pseudogene	KNOWN	None	None	None	None	57877702	57877903	1	None	None
7	IQCA1P1	ENSG00000183016	ENST00000453127	transcribed_unprocessed_pseudogene	KNOWN	None	22831	None	None	150888067	150902540	-1	IQCA1L	TCAG_9762
7	IQCA1P1	ENSG00000183016	ENST00000602518	processed_transcript	KNOWN	None	22831	None	None	150889413	150892690	-1	IQCA1L	TCAG_9762
7	IQCA1P1	ENSG00000183016	ENST00000602757	processed_transcript	KNOWN	None	22831	None	None	150891343	150894388	-1	IQCA1L	TCAG_9762
7	IQCA1P1	ENSG00000183016	ENST00000602472	processed_transcript	KNOWN	None	22831	None	None	150900501	150902582	-1	IQCA1L	TCAG_9762
1	None	ENSG00000228063	ENST00000441331	antisense	KNOWN	None	None	None	None	219259944	219347303	-1	None	None
14	None	ENSG00000257056	ENST00000535153	antisense	KNOWN	None	None	None	None	29252697	29254993	-1	None	None
14	MIR345	ENSG00000198984	ENST00000362114	miRNA	KNOWN	None	31779	None	None	100774196	100774293	1	MIRN345	hsa-mir-345
1	None	ENSG00000252784	ENST00000516975	misc_RNA	NOVEL	None	None	None	None	63803934	63804043	1	None	None
19	LILRP1	ENSG00000186152	ENST00000444199	unprocessed_pseudogene	KNOWN	None	15496	None	None	55208383	55212683	1	None	ILT9, CD85l, LILRA6P
7	None	ENSG00000224653	ENST00000436698	unprocessed_pseudogene	KNOWN	None	None	None	None	57879525	57880333	1	None	None
1	None	ENSG00000270380	ENST00000481350	antisense	KNOWN	None	None	None	None	110999127	110999976	-1	None	None
15	None	ENSG00000242667	ENST00000477729	processed_pseudogene	KNOWN	None	None	None	None	60696662	60697159	1	None	None
1	None	ENSG00000236674	ENST00000455736	processed_pseudogene	KNOWN	None	None	None	None	63825494	63826850	-1	None	None
HG1032_PATCH	DUX4L6	ENSG00000261755	ENST00000563106	protein_coding	NOVEL	None	37265	1275	424	190995680	190997180	1	None	None
21	None	ENSG00000265590	ENST00000582575	protein_coding	PUTATIVE	None	None	636	211	33949158	33959683	-1	None	None
21	None	ENSG00000265590	ENST00000431216	protein_coding	PUTATIVE	None	None	891	296	33951132	33984456	-1	None	None
21	None	ENSG00000265590	ENST00000553001	protein_coding	PUTATIVE	None	None	891	296	33951133	33984591	-1	None	None
21	None	ENSG00000265590	ENST00000607686	protein_coding	KNOWN	None	None	417	138	33974109	33984913	-1	None	None
1	None	ENSG00000231813	ENST00000449604	antisense	KNOWN	None	None	None	None	161607438	161608218	-1	None	None
8	MIR548I3	ENSG00000221305	ENST00000408378	miRNA	KNOWN	None	35354	None	None	7946463	7946611	-1	MIRN548I3	hsa-mir-548i-3
11	RNU6-654P	ENSG00000201243	ENST00000364373	snRNA	KNOWN	None	47617	None	None	108876244	108876350	1	None	None
1	RIMKLBP2	ENSG00000225920	ENST00000424737	processed_pseudogene	KNOWN	None	39163	None	None	219373256	219373909	-1	None	None
2	LINC00152	ENSG00000222041	ENST00000409054	lincRNA	KNOWN	None	28717	None	None	87754887	87883594	1	C2orf59, NCRNA00152	MGC4677
2	LINC00152	ENSG00000222041	ENST00000331944	lincRNA	KNOWN	None	28717	None	None	87754948	87821037	1	C2orf59, NCRNA00152	MGC4677
2	LINC00152	ENSG00000222041	ENST00000409139	lincRNA	KNOWN	None	28717	None	None	87754948	87906324	1	C2orf59, NCRNA00152	MGC4677
2	LINC00152	ENSG00000222041	ENST00000409898	lincRNA	KNOWN	None	28717	None	None	87754995	87906258	1	C2orf59, NCRNA00152	MGC4677
2	LINC00152	ENSG00000222041	ENST00000419680	lincRNA	KNOWN	None	28717	None	None	87754998	87820932	1	C2orf59, NCRNA00152	MGC4677
2	LINC00152	ENSG00000222041	ENST00000414584	lincRNA	KNOWN	None	28717	None	None	87755015	87821037	1	C2orf59, NCRNA00152	MGC4677
2	LINC00152	ENSG00000222041	ENST00000455131	lincRNA	KNOWN	None	28717	None	None	87755024	87820932	1	C2orf59, NCRNA00152	MGC4677
2	LINC00152	ENSG00000222041	ENST00000423846	lincRNA	KNOWN	None	28717	None	None	87755061	87820932	1	C2orf59, NCRNA00152	MGC4677
2	LINC00152	ENSG00000222041	ENST00000414030	lincRNA	KNOWN	None	28717	None	None	87769469	87780211	1	C2orf59, NCRNA00152	MGC4677
2	LINC00152	ENSG00000222041	ENST00000437561	lincRNA	KNOWN	None	28717	None	None	87769469	87820932	1	C2orf59, NCRNA00152	MGC4677
2	LINC00152	ENSG00000222041	ENST00000413202	lincRNA	KNOWN	None	28717	None	None	87808733	87821033	1	C2orf59, NCRNA00152	MGC4677
2	LINC00152	ENSG00000222041	ENST00000603948	lincRNA	KNOWN	None	28717	None	None	87880503	87883000	1	C2orf59, NCRNA00152	MGC4677
1	None	ENSG00000234211	ENST00000453111	antisense	KNOWN	None	None	None	None	161641768	161644614	-1	None	None
3	None	ENSG00000261050	ENST00000565554	sense_overlapping	KNOWN	None	None	None	None	150181245	150184218	1	None	None
HG1032_PATCH	DUX4L5	ENSG00000260376	ENST00000563535	protein_coding	NOVEL	None	38689	1275	424	190998973	191000255	1	None	None
8	IFITM8P	ENSG00000215096	ENST00000522529	processed_pseudogene	KNOWN	None	32202	None	None	64321622	64322015	1	None	None
X	MRPS17P9	ENSG00000227814	ENST00000511924	processed_pseudogene	KNOWN	None	29739	None	None	118513675	118514067	1	None	None
1	CYMP	ENSG00000240194	ENST00000474680	unitary_pseudogene	KNOWN	None	2588	None	None	111023374	111033899	1	None	None
1	CYMP	ENSG00000240194	ENST00000462836	processed_transcript	PUTATIVE	None	2588	None	None	111029663	111032185	1	None	None
1	CYMP	ENSG00000240194	ENST00000420853	processed_transcript	KNOWN	None	2588	None	None	111031151	111033892	1	None	None
17	None	ENSG00000238212	ENST00000445035	lincRNA	KNOWN	None	None	None	None	14737955	14803871	1	None	None
HSCHR6_MHC_SSTO	MAS1L	ENSG00000237284	ENST00000451019	protein_coding	KNOWN	None	13961	1137	378	29454148	29455412	-1	None	MAS-L, MRG, dJ994E9.2
1	RN7SL488P	ENSG00000264271	ENST00000585186	misc_RNA	KNOWN	None	46504	None	None	63995288	63995569	-1	None	None
1	None	ENSG00000223842	ENST00000420237	lincRNA	KNOWN	None	None	None	None	219395590	219398839	-1	None	None
HSCHR6_MHC_QBL	HLA-T	ENSG00000229552	ENST00000430243	unprocessed_pseudogene	KNOWN	None	23478	None	None	29855621	29856752	1	HLA-16	None
14	RN7SL523P	ENSG00000243976	ENST00000484401	misc_RNA	KNOWN	None	46539	None	None	100785408	100785707	-1	None	None
HG1032_PATCH	DUX4L4	ENSG00000260665	ENST00000566884	protein_coding	NOVEL	None	38686	1269	422	191002273	191003549	1	None	None
11	LDLRAD3	ENSG00000179241	ENST00000528989	protein_coding	NOVEL	None	27046	891	296	35965531	36251817	1	None	None
11	LDLRAD3	ENSG00000179241	ENST00000524419	protein_coding	NOVEL	None	27046	1008	335	35965531	36251817	1	None	None
11	LDLRAD3	ENSG00000179241	ENST00000315571	protein_coding	KNOWN	CCDS31462	27046	1038	345	35965628	36253686	1	None	None
11	LDLRAD3	ENSG00000179241	ENST00000532490	processed_transcript	KNOWN	None	27046	None	None	35965649	36250863	1	None	None
11	LDLRAD3	ENSG00000179241	ENST00000534091	processed_transcript	KNOWN	None	27046	None	None	36131475	36250761	1	None	None
11	LDLRAD3	ENSG00000179241	ENST00000529759	processed_transcript	KNOWN	None	27046	None	None	36184849	36248979	1	None	None
1	RNU7-123P	ENSG00000251720	ENST00000515911	snRNA	KNOWN	None	45657	None	None	64002382	64002441	-1	None	None
9	PPAPDC3	ENSG00000160539	ENST00000372264	protein_coding	KNOWN	CCDS6942	28174	816	271	134165081	134184649	1	C9orf67	MGC12921, FLJ14662, NET39
9	PPAPDC3	ENSG00000160539	ENST00000372261	protein_coding	KNOWN	None	28174	456	151	134165199	134166832	1	C9orf67	MGC12921, FLJ14662, NET39
14	None	ENSG00000257748	ENST00000549013	antisense	KNOWN	None	None	None	None	29269290	29299410	-1	None	None
1	RPL31P11	ENSG00000213075	ENST00000426558	processed_transcript	KNOWN	None	35849	None	None	161653485	161655042	-1	None	None
1	RPL31P11	ENSG00000213075	ENST00000454082	transcribed_processed_pseudogene	KNOWN	None	35849	None	None	161654628	161654999	-1	None	None
11	RNA5SP349	ENSG00000200613	ENST00000363743	rRNA	KNOWN	None	43249	None	None	108991605	108991713	-1	RN5S349	None
11	CCS	ENSG00000173992	ENST00000533244	protein_coding	KNOWN	CCDS8146	1613	825	274	66360292	66373490	1	None	None
11	CCS	ENSG00000173992	ENST00000530384	retained_intron	KNOWN	None	1613	None	None	66360624	66373383	1	None	None
11	CCS	ENSG00000173992	ENST00000526066	retained_intron	KNOWN	None	1613	None	None	66360661	66367274	1	None	None
11	CCS	ENSG00000173992	ENST00000530961	nonsense_mediated_decay	KNOWN	None	1613	750	249	66360672	66373469	1	None	None
11	CCS	ENSG00000173992	ENST00000526058	retained_intron	KNOWN	None	1613	None	None	66360675	66367082	1	None	None
11	CCS	ENSG00000173992	ENST00000531990	retained_intron	KNOWN	None	1613	None	None	66360704	66372769	1	None	None
11	CCS	ENSG00000173992	ENST00000310190	protein_coding	PUTATIVE	None	1613	768	255	66360712	66373390	1	None	None
11	CCS	ENSG00000173992	ENST00000534763	protein_coding	PUTATIVE	None	1613	204	67	66367505	66373251	1	None	None
11	CCS	ENSG00000173992	ENST00000525435	retained_intron	KNOWN	None	1613	None	None	66367906	66373488	1	None	None
1	RN7SL130P	ENSG00000244256	ENST00000489463	misc_RNA	KNOWN	None	46146	None	None	64121414	64121716	1	None	None
X	None	ENSG00000223418	ENST00000422830	processed_pseudogene	KNOWN	None	None	None	None	11722243	11723710	-1	None	None
HG104_HG975_PATCH	None	ENSG00000265563	ENST00000583672	miRNA	KNOWN	None	None	None	None	144895127	144895212	-1	None	None
1	None	ENSG00000228536	ENST00000441790	lincRNA	KNOWN	None	None	None	None	219583023	219585283	-1	None	None
8	None	ENSG00000253894	ENST00000518739	lincRNA	KNOWN	None	None	None	None	64378407	64388040	1	None	None
8	None	ENSG00000253894	ENST00000522740	lincRNA	KNOWN	None	None	None	None	64382843	64385206	1	None	None
8	None	ENSG00000253894	ENST00000517899	lincRNA	KNOWN	None	None	None	None	64382886	64385202	1	None	None
HSCHR6_MHC_QBL	DDX39BP1	ENSG00000236441	ENST00000439001	unprocessed_pseudogene	KNOWN	None	33450	None	None	29865581	29865947	1	BAT1P1	None
8	None	ENSG00000244427	ENST00000498840	processed_pseudogene	KNOWN	None	None	None	None	7953468	7954248	1	None	None
11	None	ENSG00000264997	ENST00000584451	snoRNA	NOVEL	None	None	None	None	109134221	109134291	-1	None	None
17	RPL23AP76	ENSG00000226156	ENST00000441860	processed_pseudogene	KNOWN	None	36555	None	None	14851058	14851515	-1	None	None
1	None	ENSG00000177452	ENST00000418154	processed_pseudogene	KNOWN	None	None	None	None	64254392	64254975	-1	None	None
12	FAM109A	ENSG00000198324	ENST00000361483	protein_coding	KNOWN	CCDS53833	26509	789	262	111798455	111806925	-1	None	FLJ32356
12	FAM109A	ENSG00000198324	ENST00000547838	protein_coding	KNOWN	CCDS9152	26509	750	249	111798484	111801553	-1	None	FLJ32356
12	FAM109A	ENSG00000198324	ENST00000548163	protein_coding	KNOWN	CCDS9152	26509	750	249	111799019	111801516	-1	None	FLJ32356
12	FAM109A	ENSG00000198324	ENST00000547710	protein_coding	KNOWN	None	26509	351	116	111800881	111806899	-1	None	FLJ32356
12	FAM109A	ENSG00000198324	ENST00000549321	protein_coding	KNOWN	None	26509	224	73	111801008	111806903	-1	None	FLJ32356
12	FAM109A	ENSG00000198324	ENST00000450786	protein_coding	KNOWN	None	26509	849	282	111799019	111801516	-1	None	FLJ32356
12	FAM109A	ENSG00000198324	ENST00000392658	protein_coding	KNOWN	CCDS9152	26509	750	249	111798455	111806925	-1	None	FLJ32356
1	None	ENSG00000230024	ENST00000420762	lincRNA	KNOWN	None	None	None	None	219608494	219615984	-1	None	None
11	None	ENSG00000255028	ENST00000532992	antisense	KNOWN	None	None	None	None	109225812	109454633	-1	None	None
11	None	ENSG00000255028	ENST00000532929	antisense	KNOWN	None	None	None	None	109283980	109454369	-1	None	None
HSCHR6_MHC_QBL	MCCD1P1	ENSG00000229411	ENST00000429760	unprocessed_pseudogene	KNOWN	None	33449	None	None	29866823	29867682	-1	None	OTTHUMG00000130506
17	None	ENSG00000232058	ENST00000446671	lincRNA	KNOWN	None	None	None	None	14918122	14955593	1	None	None
HG104_HG975_PATCH	None	ENSG00000261565	ENST00000565789	processed_transcript	PUTATIVE	None	None	None	None	144915440	144916233	-1	None	None
HG104_HG975_PATCH	SCRIB	ENSG00000260968	ENST00000567584	protein_coding	NOVEL	None	30377	4968	1655	144873090	144897549	-1	None	KIAA0147, SCRB1, Vartul
HG104_HG975_PATCH	SCRIB	ENSG00000260968	ENST00000569114	protein_coding	KNOWN	None	30377	4893	1630	144873090	144897549	-1	None	KIAA0147, SCRB1, Vartul
HG104_HG975_PATCH	SCRIB	ENSG00000260968	ENST00000563372	retained_intron	KNOWN	None	30377	None	None	144873095	144873712	-1	None	KIAA0147, SCRB1, Vartul
HG104_HG975_PATCH	SCRIB	ENSG00000260968	ENST00000566002	retained_intron	KNOWN	None	30377	None	None	144873095	144875758	-1	None	KIAA0147, SCRB1, Vartul
HG104_HG975_PATCH	SCRIB	ENSG00000260968	ENST00000561694	protein_coding	NOVEL	None	30377	1951	649	144873095	144886321	-1	None	KIAA0147, SCRB1, Vartul
HG104_HG975_PATCH	SCRIB	ENSG00000260968	ENST00000564122	protein_coding	KNOWN	None	30377	4650	1549	144873096	144897138	-1	None	KIAA0147, SCRB1, Vartul
HG104_HG975_PATCH	SCRIB	ENSG00000260968	ENST00000564721	processed_transcript	KNOWN	None	30377	None	None	144874779	144876406	-1	None	KIAA0147, SCRB1, Vartul
HG104_HG975_PATCH	SCRIB	ENSG00000260968	ENST00000566294	protein_coding	PUTATIVE	None	30377	421	139	144887422	144890847	-1	None	KIAA0147, SCRB1, Vartul
19	PTBP1	ENSG00000011304	ENST00000356948	protein_coding	KNOWN	CCDS42456	9583	1674	557	797075	812320	1	PTB	HNRPI, HNRNP-I, PTB2, PTB3, PTB-1, PTB4, pPTB
19	PTBP1	ENSG00000011304	ENST00000590887	retained_intron	KNOWN	None	9583	None	None	797425	804582	1	PTB	HNRPI, HNRNP-I, PTB2, PTB3, PTB-1, PTB4, pPTB
19	PTBP1	ENSG00000011304	ENST00000349038	protein_coding	KNOWN	CCDS32859	9583	1596	531	797425	812320	1	PTB	HNRPI, HNRNP-I, PTB2, PTB3, PTB-1, PTB4, pPTB
19	PTBP1	ENSG00000011304	ENST00000586481	protein_coding	PUTATIVE	None	9583	757	251	797427	804939	1	PTB	HNRPI, HNRNP-I, PTB2, PTB3, PTB-1, PTB4, pPTB
19	PTBP1	ENSG00000011304	ENST00000586944	retained_intron	KNOWN	None	9583	None	None	797428	811289	1	PTB	HNRPI, HNRNP-I, PTB2, PTB3, PTB-1, PTB4, pPTB
19	PTBP1	ENSG00000011304	ENST00000585535	protein_coding	NOVEL	None	9583	699	232	797432	804702	1	PTB	HNRPI, HNRNP-I, PTB2, PTB3, PTB-1, PTB4, pPTB
19	PTBP1	ENSG00000011304	ENST00000394601	protein_coding	KNOWN	CCDS45892	9583	1653	550	797452	812320	1	PTB	HNRPI, HNRNP-I, PTB2, PTB3, PTB-1, PTB4, pPTB
19	PTBP1	ENSG00000011304	ENST00000589575	protein_coding	NOVEL	None	9583	708	235	797462	804939	1	PTB	HNRPI, HNRNP-I, PTB2, PTB3, PTB-1, PTB4, pPTB
19	PTBP1	ENSG00000011304	ENST00000587191	retained_intron	KNOWN	None	9583	None	None	797486	808762	1	PTB	HNRPI, HNRNP-I, PTB2, PTB3, PTB-1, PTB4, pPTB
19	PTBP1	ENSG00000011304	ENST00000587094	protein_coding	PUTATIVE	None	9583	169	55	798428	804083	1	PTB	HNRPI, HNRNP-I, PTB2, PTB3, PTB-1, PTB4, pPTB
19	PTBP1	ENSG00000011304	ENST00000592113	retained_intron	KNOWN	None	9583	None	None	803575	805141	1	PTB	HNRPI, HNRNP-I, PTB2, PTB3, PTB-1, PTB4, pPTB
19	PTBP1	ENSG00000011304	ENST00000585956	protein_coding	NOVEL	None	9583	767	254	804623	808646	1	PTB	HNRPI, HNRNP-I, PTB2, PTB3, PTB-1, PTB4, pPTB
19	PTBP1	ENSG00000011304	ENST00000587136	retained_intron	KNOWN	None	9583	None	None	804858	806660	1	PTB	HNRPI, HNRNP-I, PTB2, PTB3, PTB-1, PTB4, pPTB
19	PTBP1	ENSG00000011304	ENST00000592804	retained_intron	KNOWN	None	9583	None	None	804918	806036	1	PTB	HNRPI, HNRNP-I, PTB2, PTB3, PTB-1, PTB4, pPTB
19	PTBP1	ENSG00000011304	ENST00000589569	retained_intron	KNOWN	None	9583	None	None	805119	806045	1	PTB	HNRPI, HNRNP-I, PTB2, PTB3, PTB-1, PTB4, pPTB
19	PTBP1	ENSG00000011304	ENST00000589883	retained_intron	KNOWN	None	9583	None	None	805508	807028	1	PTB	HNRPI, HNRNP-I, PTB2, PTB3, PTB-1, PTB4, pPTB
19	PTBP1	ENSG00000011304	ENST00000589770	retained_intron	KNOWN	None	9583	None	None	807570	808733	1	PTB	HNRPI, HNRNP-I, PTB2, PTB3, PTB-1, PTB4, pPTB
19	PTBP1	ENSG00000011304	ENST00000585932	retained_intron	KNOWN	None	9583	None	None	807859	808667	1	PTB	HNRPI, HNRNP-I, PTB2, PTB3, PTB-1, PTB4, pPTB
19	PTBP1	ENSG00000011304	ENST00000585856	retained_intron	KNOWN	None	9583	None	None	808285	811021	1	PTB	HNRPI, HNRNP-I, PTB2, PTB3, PTB-1, PTB4, pPTB
19	PTBP1	ENSG00000011304	ENST00000350092	protein_coding	KNOWN	None	9583	594	197	797392	812327	1	PTB	HNRPI, HNRNP-I, PTB2, PTB3, PTB-1, PTB4, pPTB
1	CFL1P3	ENSG00000228056	ENST00000440942	processed_pseudogene	KNOWN	None	1879	None	None	64308867	64309356	-1	CFLL3, CFLP3	None
1	CFL1P3	ENSG00000228056	ENST00000430203	processed_pseudogene	KNOWN	None	1879	None	None	64308862	64309347	-1	CFLL3, CFLP3	None
17	CDRT7	ENSG00000259944	ENST00000568256	lincRNA	KNOWN	None	14386	None	None	14934292	14935274	1	None	NCRNA00025, LINC00025
HSCHR6_MHC_QBL	HCG4B	ENSG00000220391	ENST00000406611	unprocessed_pseudogene	KNOWN	None	22919	None	None	29884971	29885961	-1	HCG4P6	HCGIV-6, HCGIV.5, HCGIV-06, bCX67J3.3, Em:AB023056.16, bPG309N1.1, bQB90C11.3
HSCHR6_MHC_QBL	HCG4B	ENSG00000220391	ENST00000550894	unprocessed_pseudogene	KNOWN	None	22919	None	None	29883750	29886203	-1	HCG4P6	HCGIV-6, HCGIV.5, HCGIV-06, bCX67J3.3, Em:AB023056.16, bPG309N1.1, bQB90C11.3
2	CENPO	ENSG00000138092	ENST00000473476	processed_transcript	PUTATIVE	None	28152	None	None	25016005	25022663	1	None	MGC11266, CENP-O
2	CENPO	ENSG00000138092	ENST00000380834	protein_coding	KNOWN	CCDS1714	28152	903	300	25016014	25045245	1	None	MGC11266, CENP-O
2	CENPO	ENSG00000138092	ENST00000473706	protein_coding	KNOWN	CCDS56113	28152	885	294	25016014	25045245	1	None	MGC11266, CENP-O
2	CENPO	ENSG00000138092	ENST00000491031	retained_intron	KNOWN	None	28152	None	None	25016269	25039440	1	None	MGC11266, CENP-O
2	CENPO	ENSG00000138092	ENST00000486527	retained_intron	KNOWN	None	28152	None	None	25016314	25037651	1	None	MGC11266, CENP-O
2	CENPO	ENSG00000138092	ENST00000498362	processed_transcript	PUTATIVE	None	28152	None	None	25016347	25040656	1	None	MGC11266, CENP-O
2	CENPO	ENSG00000138092	ENST00000464156	processed_transcript	PUTATIVE	None	28152	None	None	25038494	25042519	1	None	MGC11266, CENP-O
2	CENPO	ENSG00000138092	ENST00000395845	processed_transcript	PUTATIVE	None	28152	None	None	25038569	25042760	1	None	MGC11266, CENP-O
2	CENPO	ENSG00000138092	ENST00000260662	protein_coding	KNOWN	CCDS1714	28152	903	300	25016333	25042784	1	None	MGC11266, CENP-O
14	None	ENSG00000263519	ENST00000583404	miRNA	NOVEL	None	None	None	None	100789165	100789270	-1	None	None
3	None	ENSG00000271711	ENST00000604339	processed_pseudogene	KNOWN	None	None	None	None	150329049	150329664	-1	None	None
2	THNSL2	ENSG00000144115	ENST00000419759	protein_coding	KNOWN	None	25602	380	125	88469872	88474314	1	None	FLJ10916
2	THNSL2	ENSG00000144115	ENST00000449349	protein_coding	PUTATIVE	None	25602	777	258	88469872	88486145	1	None	FLJ10916
2	THNSL2	ENSG00000144115	ENST00000343544	protein_coding	KNOWN	CCDS58718	25602	1218	405	88469917	88486146	1	None	FLJ10916
2	THNSL2	ENSG00000144115	ENST00000324166	protein_coding	KNOWN	CCDS2002	25602	1455	484	88470979	88486145	1	None	FLJ10916
2	THNSL2	ENSG00000144115	ENST00000475910	retained_intron	KNOWN	None	25602	None	None	88472792	88476660	1	None	FLJ10916
2	THNSL2	ENSG00000144115	ENST00000496844	processed_transcript	KNOWN	None	25602	None	None	88474327	88485837	1	None	FLJ10916
2	THNSL2	ENSG00000144115	ENST00000476349	retained_intron	KNOWN	None	25602	None	None	88478469	88482976	1	None	FLJ10916
2	THNSL2	ENSG00000144115	ENST00000464022	retained_intron	KNOWN	None	25602	None	None	88482074	88482596	1	None	FLJ10916
2	THNSL2	ENSG00000144115	ENST00000496165	processed_transcript	KNOWN	None	25602	None	None	88482216	88483326	1	None	FLJ10916
2	THNSL2	ENSG00000144115	ENST00000358591	protein_coding	KNOWN	CCDS2002	25602	1455	484	88469835	88486145	1	None	FLJ10916
2	THNSL2	ENSG00000144115	ENST00000377254	protein_coding	KNOWN	None	25602	1155	384	88469835	88486145	1	None	FLJ10916
2	THNSL2	ENSG00000144115	ENST00000402102	protein_coding	KNOWN	CCDS58718	25602	1218	405	88469835	88485210	1	None	FLJ10916
5	PCDHGC4	ENSG00000242419	ENST00000306593	protein_coding	KNOWN	CCDS4262	8717	2817	938	140864741	140892546	1	None	PCDH-GAMMA-C4
1	None	ENSG00000238232	ENST00000458443	lincRNA	KNOWN	None	None	None	None	219730534	219731043	1	None	None
HG1032_PATCH	None	ENSG00000261784	ENST00000569463	protein_coding	KNOWN	None	None	1275	424	191005567	191007067	1	None	None
4	HS3ST1	ENSG00000002587	ENST00000002596	protein_coding	KNOWN	CCDS3408	5194	924	307	11394774	11431389	-1	None	3OST1
4	HS3ST1	ENSG00000002587	ENST00000514690	protein_coding	KNOWN	None	5194	248	81	11401382	11430221	-1	None	3OST1
4	HS3ST1	ENSG00000002587	ENST00000510712	protein_coding	KNOWN	None	5194	248	81	11401382	11431188	-1	None	3OST1
HSCHR6_MHC_QBL	HLA-K	ENSG00000224526	ENST00000431463	unprocessed_pseudogene	KNOWN	None	4969	None	None	29885447	29888221	1	HLAK, HLA70	HLA-70
17	CDRT8	ENSG00000265163	ENST00000579752	lincRNA	KNOWN	None	14387	None	None	15008554	15009504	-1	None	None
22	None	ENSG00000239446	ENST00000420180	antisense	KNOWN	None	None	None	None	30107809	30115703	-1	None	None
13	MIR4306	ENSG00000263615	ENST00000583390	miRNA	KNOWN	None	38350	None	None	100295313	100295403	1	None	hsa-mir-4306
1	None	ENSG00000199595	ENST00000362725	misc_RNA	NOVEL	None	None	None	None	161669296	161669397	1	None	None
1	ZC3H11B	ENSG00000215817	ENST00000367211	processed_pseudogene	KNOWN	None	25659	None	None	219782969	219785404	-1	ZC3HDC11B	None
1	ZC3H11B	ENSG00000215817	ENST00000431766	processed_pseudogene	KNOWN	None	25659	None	None	219782859	219786462	-1	ZC3HDC11B	None
16	PDPK1	ENSG00000140992	ENST00000342085	protein_coding	KNOWN	CCDS10472	8816	1671	556	2587965	2653189	1	None	PDK1
16	PDPK1	ENSG00000140992	ENST00000566659	protein_coding	PUTATIVE	None	8816	264	87	2587980	2631662	1	None	PDK1
16	PDPK1	ENSG00000140992	ENST00000441549	protein_coding	PUTATIVE	CCDS58411	8816	1365	454	2587998	2647921	1	None	PDK1
16	PDPK1	ENSG00000140992	ENST00000268673	protein_coding	KNOWN	CCDS10473	8816	1290	429	2588004	2651096	1	None	PDK1
16	PDPK1	ENSG00000140992	ENST00000462923	processed_transcript	PUTATIVE	None	8816	None	None	2588006	2589522	1	None	PDK1
16	PDPK1	ENSG00000140992	ENST00000474706	nonsense_mediated_decay	KNOWN	None	8816	108	35	2588021	2611531	1	None	PDK1
16	PDPK1	ENSG00000140992	ENST00000492021	nonsense_mediated_decay	KNOWN	None	8816	168	55	2588022	2611502	1	None	PDK1
16	PDPK1	ENSG00000140992	ENST00000570136	retained_intron	KNOWN	None	8816	None	None	2588022	2612228	1	None	PDK1
16	PDPK1	ENSG00000140992	ENST00000389224	protein_coding	PUTATIVE	None	8816	1590	529	2588165	2647929	1	None	PDK1
16	PDPK1	ENSG00000140992	ENST00000461815	protein_coding	PUTATIVE	None	8816	447	148	2600604	2615615	1	None	PDK1
16	PDPK1	ENSG00000140992	ENST00000602572	retained_intron	KNOWN	None	8816	None	None	2606357	2606359	1	None	PDK1
16	PDPK1	ENSG00000140992	ENST00000491073	retained_intron	KNOWN	None	8816	None	None	2606897	2634065	1	None	PDK1
16	PDPK1	ENSG00000140992	ENST00000460496	processed_transcript	KNOWN	None	8816	None	None	2607445	2611880	1	None	PDK1
16	PDPK1	ENSG00000140992	ENST00000464702	processed_transcript	PUTATIVE	None	8816	None	None	2615554	2621342	1	None	PDK1
16	PDPK1	ENSG00000140992	ENST00000471311	processed_transcript	PUTATIVE	None	8816	None	None	2615607	2620819	1	None	PDK1
16	PDPK1	ENSG00000140992	ENST00000478708	nonsense_mediated_decay	KNOWN	None	8816	121	39	2631348	2633988	1	None	PDK1
16	PDPK1	ENSG00000140992	ENST00000569721	processed_transcript	PUTATIVE	None	8816	None	None	2648248	2648639	1	None	PDK1
16	PDPK1	ENSG00000140992	ENST00000561962	processed_transcript	PUTATIVE	None	8816	None	None	2649442	2651631	1	None	PDK1
16	PDPK1	ENSG00000140992	ENST00000354836	protein_coding	KNOWN	None	8816	1599	532	2588034	2647908	1	None	PDK1
1	RN7SL466P	ENSG00000241347	ENST00000497546	misc_RNA	KNOWN	None	46482	None	None	161705598	161705889	1	None	None
HG104_HG975_PATCH	None	ENSG00000263747	ENST00000579343	miRNA	NOVEL	None	None	None	None	144926238	144926323	1	None	None
13	CLYBL-AS2	ENSG00000227659	ENST00000430125	antisense	KNOWN	None	39894	None	None	100342335	100343225	-1	None	None
17	None	ENSG00000238806	ENST00000458745	snoRNA	NOVEL	None	None	None	None	15141102	15141200	-1	None	None
22	None	ENSG00000200976	ENST00000364106	misc_RNA	NOVEL	None	None	None	None	30154747	30154848	1	None	None
15	None	ENSG00000245534	ENST00000559824	antisense	KNOWN	None	None	None	None	60771377	60922836	1	None	None
15	None	ENSG00000245534	ENST00000501579	antisense	KNOWN	None	None	None	None	60771380	60820823	1	None	None
15	None	ENSG00000245534	ENST00000558235	antisense	KNOWN	None	None	None	None	60771406	60922715	1	None	None
15	None	ENSG00000245534	ENST00000558140	antisense	KNOWN	None	None	None	None	60771419	60822088	1	None	None
15	None	ENSG00000245534	ENST00000559902	antisense	KNOWN	None	None	None	None	60802607	60840163	1	None	None
15	None	ENSG00000245534	ENST00000559203	antisense	KNOWN	None	None	None	None	60812260	60840163	1	None	None
17	HOXB5	ENSG00000120075	ENST00000239151	protein_coding	KNOWN	CCDS11530	5116	810	269	46668619	46671323	-1	HOX2, HOX2A	None
17	MIR4731	ENSG00000265110	ENST00000580859	miRNA	KNOWN	None	41597	None	None	15154944	15155013	-1	None	hsa-mir-4731
1	None	ENSG00000226889	ENST00000431097	antisense	KNOWN	None	None	None	None	161735115	161736017	-1	None	None
22	RNU6-331P	ENSG00000207455	ENST00000384724	snRNA	KNOWN	None	47294	None	None	30295576	30295682	-1	None	None
1	RNU6-809P	ENSG00000207190	ENST00000384461	snRNA	KNOWN	None	47772	None	None	64494566	64494672	-1	None	None
22	None	ENSG00000221736	ENST00000408809	miRNA	NOVEL	None	None	None	None	30340198	30340285	1	None	None
1	None	ENSG00000252240	ENST00000516431	miRNA	NOVEL	None	None	None	None	219836719	219836809	1	None	None
1	None	ENSG00000200508	ENST00000363638	misc_RNA	NOVEL	None	None	None	None	64532312	64532413	-1	None	None
17	None	ENSG00000265445	ENST00000579159	antisense	KNOWN	None	None	None	None	15164332	15169024	1	None	None
HG1032_PATCH	DUX4L3	ENSG00000260129	ENST00000569113	protein_coding	NOVEL	None	38688	1275	424	191008860	191010142	1	None	None
11	None	ENSG00000255410	ENST00000526633	antisense	KNOWN	None	None	None	None	6651834	6656439	1	None	None
13	CLYBL-AS1	ENSG00000234303	ENST00000416009	antisense	KNOWN	None	39893	None	None	100378501	100379745	-1	None	None
9	SPATA31E1	ENSG00000177992	ENST00000325643	protein_coding	KNOWN	CCDS6676	26672	4338	1445	90497741	90503814	1	C9orf79, FAM75E1	FLJ35866
1	RNA5SP76	ENSG00000252086	ENST00000516277	rRNA	KNOWN	None	42853	None	None	219935131	219935217	1	RN5S76	None
HG104_HG975_PATCH	None	ENSG00000263094	ENST00000577096	miRNA	KNOWN	None	None	None	None	145027361	145027449	-1	None	None
17	None	ENSG00000230971	ENST00000431343	lincRNA	KNOWN	None	None	None	None	15170778	15175607	-1	None	None
1	None	ENSG00000229808	ENST00000457671	processed_transcript	KNOWN	None	None	None	None	161860623	161861986	1	None	None
1	None	ENSG00000229808	ENST00000458136	transcribed_processed_pseudogene	KNOWN	None	None	None	None	161860730	161861470	1	None	None
1	None	ENSG00000223949	ENST00000412349	antisense	KNOWN	None	None	None	None	64560125	64577888	-1	None	None
1	None	ENSG00000223949	ENST00000424995	antisense	KNOWN	None	None	None	None	64571005	64636980	-1	None	None
11	None	ENSG00000256897	ENST00000540410	antisense	KNOWN	None	None	None	None	47241769	47243302	-1	None	None
3	None	ENSG00000239126	ENST00000459040	snoRNA	NOVEL	None	None	None	None	4920283	4920386	-1	None	None
22	None	ENSG00000227117	ENST00000429350	processed_transcript	KNOWN	None	None	None	None	30404731	30476219	-1	None	None
22	None	ENSG00000227117	ENST00000453743	processed_transcript	PUTATIVE	None	None	None	None	30414621	30476469	-1	None	None
22	None	ENSG00000227117	ENST00000432568	processed_transcript	PUTATIVE	None	None	None	None	30443614	30476427	-1	None	None
1	None	ENSG00000221673	ENST00000408746	snoRNA	NOVEL	None	None	None	None	220136028	220136206	1	None	None
11	None	ENSG00000241678	ENST00000464563	processed_pseudogene	KNOWN	None	None	None	None	6707122	6707600	-1	None	None
13	None	ENSG00000201245	ENST00000364375	snoRNA	NOVEL	None	None	None	None	100436111	100436237	-1	None	None
1	None	ENSG00000235407	ENST00000457402	lincRNA	KNOWN	None	None	None	None	111030302	111032880	-1	None	None
3	None	ENSG00000233919	ENST00000415774	lincRNA	KNOWN	None	None	None	None	41203778	41210038	-1	None	None
17	None	ENSG00000237377	ENST00000453339	lincRNA	KNOWN	None	None	None	None	15179879	15182794	-1	None	None
5	None	ENSG00000251606	ENST00000509481	protein_coding	PUTATIVE	None	None	318	105	96424779	96519354	1	None	None
1	None	ENSG00000238798	ENST00000459217	snoRNA	NOVEL	None	None	None	None	220160853	220160956	-1	None	None
13	None	ENSG00000238305	ENST00000459208	snoRNA	NOVEL	None	None	None	None	100436308	100436411	-1	None	None
22	RPL3	ENSG00000100316	ENST00000401609	protein_coding	NOVEL	None	10332	1056	351	39708887	39714619	-1	None	L3
22	RPL3	ENSG00000100316	ENST00000464182	retained_intron	KNOWN	None	10332	None	None	39708889	39709710	-1	None	L3
22	RPL3	ENSG00000100316	ENST00000473638	retained_intron	KNOWN	None	10332	None	None	39708889	39709734	-1	None	L3
22	RPL3	ENSG00000100316	ENST00000216146	protein_coding	KNOWN	CCDS13988	10332	1212	403	39708889	39715776	-1	None	L3
22	RPL3	ENSG00000100316	ENST00000465618	processed_transcript	KNOWN	None	10332	None	None	39708889	39716394	-1	None	L3
22	RPL3	ENSG00000100316	ENST00000467105	retained_intron	KNOWN	None	10332	None	None	39708892	39710970	-1	None	L3
22	RPL3	ENSG00000100316	ENST00000402527	protein_coding	NOVEL	None	10332	818	271	39709712	39715628	-1	None	L3
22	RPL3	ENSG00000100316	ENST00000481985	retained_intron	KNOWN	None	10332	None	None	39709936	39711491	-1	None	L3
22	RPL3	ENSG00000100316	ENST00000471290	processed_transcript	KNOWN	None	10332	None	None	39710155	39711434	-1	None	L3
22	RPL3	ENSG00000100316	ENST00000453303	protein_coding	PUTATIVE	None	10332	916	304	39710705	39715116	-1	None	L3
22	RPL3	ENSG00000100316	ENST00000484358	retained_intron	KNOWN	None	10332	None	None	39711367	39713073	-1	None	L3
22	RPL3	ENSG00000100316	ENST00000427905	protein_coding	PUTATIVE	None	10332	782	259	39711374	39715600	-1	None	L3
22	RPL3	ENSG00000100316	ENST00000420536	nonsense_mediated_decay	KNOWN	None	10332	543	180	39711557	39715628	-1	None	L3
22	RPL3	ENSG00000100316	ENST00000484615	retained_intron	KNOWN	None	10332	None	None	39713056	39715654	-1	None	L3
22	RPL3	ENSG00000100316	ENST00000460589	retained_intron	KNOWN	None	10332	None	None	39713401	39715597	-1	None	L3
22	RPL3	ENSG00000100316	ENST00000461967	retained_intron	KNOWN	None	10332	None	None	39713860	39715628	-1	None	L3
22	RPL3	ENSG00000100316	ENST00000498462	retained_intron	KNOWN	None	10332	None	None	39714117	39715582	-1	None	L3
22	RPL3	ENSG00000100316	ENST00000459859	processed_transcript	KNOWN	None	10332	None	None	39714405	39715630	-1	None	L3
1	LPHN2	ENSG00000117114	ENST00000473719	processed_transcript	KNOWN	None	18582	None	None	81771845	82201015	1	LPHH1	KIAA0786, LEC1
1	LPHN2	ENSG00000117114	ENST00000370721	protein_coding	KNOWN	None	18582	4155	1384	81771851	82457052	1	LPHH1	KIAA0786, LEC1
1	LPHN2	ENSG00000117114	ENST00000370727	protein_coding	KNOWN	None	18582	4296	1431	81771851	82457052	1	LPHH1	KIAA0786, LEC1
1	LPHN2	ENSG00000117114	ENST00000370725	protein_coding	KNOWN	None	18582	4425	1474	81771851	82457052	1	LPHH1	KIAA0786, LEC1
1	LPHN2	ENSG00000117114	ENST00000370723	protein_coding	KNOWN	None	18582	4386	1461	81771851	82457052	1	LPHH1	KIAA0786, LEC1
1	LPHN2	ENSG00000117114	ENST00000370728	protein_coding	KNOWN	None	18582	4380	1459	81771851	82458106	1	LPHH1	KIAA0786, LEC1
1	LPHN2	ENSG00000117114	ENST00000370730	protein_coding	KNOWN	None	18582	4251	1416	81771851	82458106	1	LPHH1	KIAA0786, LEC1
1	LPHN2	ENSG00000117114	ENST00000492666	processed_transcript	KNOWN	None	18582	None	None	81771877	81880069	1	LPHH1	KIAA0786, LEC1
1	LPHN2	ENSG00000117114	ENST00000469377	processed_transcript	KNOWN	None	18582	None	None	81771884	82458120	1	LPHH1	KIAA0786, LEC1
1	LPHN2	ENSG00000117114	ENST00000359929	protein_coding	KNOWN	CCDS689	18582	4212	1403	82165455	82457110	1	LPHH1	KIAA0786, LEC1
1	LPHN2	ENSG00000117114	ENST00000370715	protein_coding	KNOWN	None	18582	3534	1177	82266082	82457880	1	LPHH1	KIAA0786, LEC1
1	LPHN2	ENSG00000117114	ENST00000370713	protein_coding	KNOWN	None	18582	3372	1123	82266082	82457880	1	LPHH1	KIAA0786, LEC1
1	LPHN2	ENSG00000117114	ENST00000319517	protein_coding	KNOWN	CCDS689	18582	4212	1403	82266082	82457880	1	LPHH1	KIAA0786, LEC1
1	LPHN2	ENSG00000117114	ENST00000449420	protein_coding	KNOWN	None	18582	4055	1350	82408653	82457052	1	LPHH1	KIAA0786, LEC1
1	LPHN2	ENSG00000117114	ENST00000468283	processed_transcript	KNOWN	None	18582	None	None	82421451	82432119	1	LPHH1	KIAA0786, LEC1
1	LPHN2	ENSG00000117114	ENST00000402328	protein_coding	KNOWN	None	18582	1414	470	82445573	82458107	1	LPHH1	KIAA0786, LEC1
1	LPHN2	ENSG00000117114	ENST00000464775	processed_transcript	KNOWN	None	18582	None	None	82445606	82456365	1	LPHH1	KIAA0786, LEC1
1	LPHN2	ENSG00000117114	ENST00000472424	processed_transcript	KNOWN	None	18582	None	None	82447537	82456524	1	LPHH1	KIAA0786, LEC1
1	LPHN2	ENSG00000117114	ENST00000498776	processed_transcript	KNOWN	None	18582	None	None	82450001	82451094	1	LPHH1	KIAA0786, LEC1
1	LPHN2	ENSG00000117114	ENST00000464551	processed_transcript	KNOWN	None	18582	None	None	82454076	82456393	1	LPHH1	KIAA0786, LEC1
1	LPHN2	ENSG00000117114	ENST00000370717	protein_coding	KNOWN	None	18582	4425	1474	82266082	82458106	1	LPHH1	KIAA0786, LEC1
1	LPHN2	ENSG00000117114	ENST00000394879	protein_coding	KNOWN	None	18582	4386	1461	82266082	82458106	1	LPHH1	KIAA0786, LEC1
1	LPHN2	ENSG00000117114	ENST00000271029	protein_coding	KNOWN	None	18582	4296	1431	82266082	82458106	1	LPHH1	KIAA0786, LEC1
1	LPHN2	ENSG00000117114	ENST00000335786	protein_coding	KNOWN	None	18582	4251	1416	82266082	82458106	1	LPHH1	KIAA0786, LEC1
15	DPH6	ENSG00000134146	ENST00000560386	processed_transcript	KNOWN	None	30543	None	None	35509546	35703052	-1	ATPBD4	MGC14798
15	DPH6	ENSG00000134146	ENST00000558973	processed_transcript	KNOWN	None	30543	None	None	35623002	35703059	-1	ATPBD4	MGC14798
15	DPH6	ENSG00000134146	ENST00000256538	protein_coding	KNOWN	CCDS10043	30543	804	267	35663083	35838369	-1	ATPBD4	MGC14798
15	DPH6	ENSG00000134146	ENST00000558266	protein_coding	PUTATIVE	None	30543	465	154	35664308	35746961	-1	ATPBD4	MGC14798
15	DPH6	ENSG00000134146	ENST00000561411	protein_coding	PUTATIVE	None	30543	508	168	35674033	35838366	-1	ATPBD4	MGC14798
15	DPH6	ENSG00000134146	ENST00000559784	processed_transcript	KNOWN	None	30543	None	None	35674036	35834692	-1	ATPBD4	MGC14798
15	DPH6	ENSG00000134146	ENST00000559585	processed_transcript	KNOWN	None	30543	None	None	35782170	35838354	-1	ATPBD4	MGC14798
15	DPH6	ENSG00000134146	ENST00000440392	protein_coding	KNOWN	CCDS45213	30543	498	165	35812474	35838393	-1	ATPBD4	MGC14798
15	DPH6	ENSG00000134146	ENST00000560526	retained_intron	KNOWN	None	30543	None	None	35830283	35838394	-1	ATPBD4	MGC14798
13	LINC00554	ENSG00000260738	ENST00000564841	antisense	KNOWN	None	43697	None	None	100647153	100650163	-1	None	None
1	MIR215	ENSG00000207590	ENST00000384858	miRNA	KNOWN	None	31592	None	None	220291195	220291304	-1	MIRN215	hsa-mir-215
1	None	ENSG00000221538	ENST00000408611	miRNA	NOVEL	None	None	None	None	111195564	111195653	-1	None	None
17	RNU6-799P	ENSG00000200437	ENST00000363567	snRNA	KNOWN	None	47762	None	None	15214662	15214768	1	None	None
1	None	ENSG00000259834	ENST00000566942	lincRNA	KNOWN	None	None	None	None	111196182	111199662	-1	None	None
13	NDUFA12P1	ENSG00000225999	ENST00000455914	processed_pseudogene	KNOWN	None	39419	None	None	100680023	100680428	-1	None	None
1	None	ENSG00000227818	ENST00000430905	lincRNA	KNOWN	None	None	None	None	162008806	162009357	1	None	None
1	MIR194-1	ENSG00000207624	ENST00000384892	miRNA	KNOWN	None	31564	None	None	220291499	220291583	-1	MIRN194-1	hsa-mir-194-1
11	None	ENSG00000256746	ENST00000543925	antisense	KNOWN	None	None	None	None	47292208	47293661	-1	None	None
11	None	ENSG00000256746	ENST00000545474	antisense	KNOWN	None	None	None	None	47292217	47293626	-1	None	None
3	BHLHE40-AS1	ENSG00000235831	ENST00000420832	antisense	KNOWN	None	44471	None	None	4938493	5021646	-1	None	None
3	BHLHE40-AS1	ENSG00000235831	ENST00000434530	antisense	KNOWN	None	44471	None	None	4938493	5021646	-1	None	None
3	BHLHE40-AS1	ENSG00000235831	ENST00000438479	antisense	KNOWN	None	44471	None	None	4939910	4948186	-1	None	None
3	BHLHE40-AS1	ENSG00000235831	ENST00000441386	antisense	KNOWN	None	44471	None	None	4940364	5021622	-1	None	None
17	None	ENSG00000266667	ENST00000580422	lincRNA	KNOWN	None	None	None	None	15283181	15321195	-1	None	None
1	None	ENSG00000238576	ENST00000459443	snoRNA	NOVEL	None	None	None	None	220310506	220310608	1	None	None
1	MIR4654	ENSG00000266144	ENST00000577581	miRNA	KNOWN	None	41643	None	None	162126897	162126972	1	None	hsa-mir-4654
1	RNU7-62P	ENSG00000238653	ENST00000458856	snRNA	KNOWN	None	34158	None	None	64850081	64850142	-1	None	U7.62
13	ASNSP3	ENSG00000236554	ENST00000451989	processed_pseudogene	KNOWN	None	39399	None	None	100714550	100715855	-1	None	None
19	None	ENSG00000228790	ENST00000412970	unprocessed_pseudogene	KNOWN	None	None	None	None	55215730	55216013	1	None	None
1	None	ENSG00000199710	ENST00000362840	misc_RNA	NOVEL	None	None	None	None	111307030	111307128	-1	None	None
4	RN7SKP248	ENSG00000252087	ENST00000516278	misc_RNA	KNOWN	None	45972	None	None	91291274	91291578	1	None	None
1	None	ENSG00000232134	ENST00000419498	processed_pseudogene	KNOWN	None	None	None	None	220317306	220317693	-1	None	None
1	None	ENSG00000227094	ENST00000447899	antisense	KNOWN	None	None	None	None	162286642	162287584	-1	None	None
19	None	ENSG00000266427	ENST00000583865	miRNA	NOVEL	None	None	None	None	55218008	55218077	1	None	None
17	RN7SL792P	ENSG00000239888	ENST00000496286	misc_RNA	KNOWN	None	46808	None	None	15311701	15312003	1	None	None
1	MIR4794	ENSG00000264470	ENST00000582305	miRNA	KNOWN	None	41829	None	None	65045530	65045606	1	None	hsa-mir-4794
4	None	ENSG00000251401	ENST00000513074	processed_pseudogene	KNOWN	None	None	None	None	91604147	91604274	1	None	None
1	NRBF2P3	ENSG00000237415	ENST00000432731	processed_pseudogene	KNOWN	None	44606	None	None	111390699	111391563	-1	None	None
1	None	ENSG00000268179	ENST00000598827	protein_coding	NOVEL	None	None	336	111	861264	866445	-1	None	None
X	None	ENSG00000206792	ENST00000384065	misc_RNA	NOVEL	None	None	None	None	12072943	12073045	-1	None	None
17	RPL9P2	ENSG00000234324	ENST00000424673	processed_pseudogene	KNOWN	None	17049	None	None	15346953	15347505	1	None	None
12	None	ENSG00000256825	ENST00000540096	protein_coding	PUTATIVE	None	None	1077	358	133707570	133778955	1	None	None
8	PPAPDC1B	ENSG00000147535	ENST00000529359	protein_coding	NOVEL	None	25026	672	223	38120648	38126658	-1	None	HTPAP
8	PPAPDC1B	ENSG00000147535	ENST00000424479	protein_coding	KNOWN	CCDS47841	25026	795	264	38120648	38126738	-1	None	HTPAP
8	PPAPDC1B	ENSG00000147535	ENST00000530193	processed_transcript	KNOWN	None	25026	None	None	38120656	38124840	-1	None	HTPAP
8	PPAPDC1B	ENSG00000147535	ENST00000530432	retained_intron	KNOWN	None	25026	None	None	38121835	38123977	-1	None	HTPAP
8	PPAPDC1B	ENSG00000147535	ENST00000524616	protein_coding	NOVEL	None	25026	738	245	38121869	38126714	-1	None	HTPAP
8	PPAPDC1B	ENSG00000147535	ENST00000531823	protein_coding	PUTATIVE	None	25026	399	132	38121916	38126692	-1	None	HTPAP
8	PPAPDC1B	ENSG00000147535	ENST00000534339	protein_coding	NOVEL	None	25026	734	243	38121951	38126698	-1	None	HTPAP
8	PPAPDC1B	ENSG00000147535	ENST00000531109	nonsense_mediated_decay	KNOWN	None	25026	183	60	38122061	38126693	-1	None	HTPAP
8	PPAPDC1B	ENSG00000147535	ENST00000527758	processed_transcript	PUTATIVE	None	25026	None	None	38122257	38123140	-1	None	HTPAP
8	PPAPDC1B	ENSG00000147535	ENST00000530588	processed_transcript	PUTATIVE	None	25026	None	None	38122257	38123429	-1	None	HTPAP
8	PPAPDC1B	ENSG00000147535	ENST00000422581	protein_coding	KNOWN	CCDS47842	25026	651	216	38122257	38126725	-1	None	HTPAP
8	PPAPDC1B	ENSG00000147535	ENST00000531483	processed_transcript	PUTATIVE	None	25026	None	None	38124498	38125254	-1	None	HTPAP
8	PPAPDC1B	ENSG00000147535	ENST00000419686	protein_coding	KNOWN	CCDS47843	25026	531	176	38124498	38126761	-1	None	HTPAP
8	PPAPDC1B	ENSG00000147535	ENST00000528814	retained_intron	KNOWN	None	25026	None	None	38124519	38126748	-1	None	HTPAP
8	PPAPDC1B	ENSG00000147535	ENST00000527793	processed_transcript	PUTATIVE	None	25026	None	None	38124699	38126457	-1	None	HTPAP
8	PPAPDC1B	ENSG00000147535	ENST00000524409	retained_intron	KNOWN	None	25026	None	None	38126137	38126719	-1	None	HTPAP
1	None	ENSG00000234784	ENST00000442855	processed_pseudogene	KNOWN	None	None	None	None	65384126	65384366	1	None	None
1	RNA5SP61	ENSG00000252262	ENST00000516453	rRNA	KNOWN	None	42838	None	None	162308433	162308532	1	RN5S61	None
X	None	ENSG00000252111	ENST00000516302	miRNA	NOVEL	None	None	None	None	12166437	12166520	-1	None	None
2	ATG16L1	ENSG00000085978	ENST00000431917	protein_coding	PUTATIVE	None	21498	166	54	234118697	234173566	1	APG16L, ATG16L	WDR30, FLJ10035, ATG16A
2	ATG16L1	ENSG00000085978	ENST00000392017	protein_coding	KNOWN	CCDS2503	21498	1824	607	234160217	234204320	1	APG16L, ATG16L	WDR30, FLJ10035, ATG16A
2	ATG16L1	ENSG00000085978	ENST00000444735	protein_coding	PUTATIVE	None	21498	533	176	234160316	234183384	1	APG16L, ATG16L	WDR30, FLJ10035, ATG16A
2	ATG16L1	ENSG00000085978	ENST00000373525	protein_coding	KNOWN	None	21498	1287	428	234160318	234204320	1	APG16L, ATG16L	WDR30, FLJ10035, ATG16A
2	ATG16L1	ENSG00000085978	ENST00000392021	nonsense_mediated_decay	KNOWN	None	21498	117	38	234160319	234204320	1	APG16L, ATG16L	WDR30, FLJ10035, ATG16A
2	ATG16L1	ENSG00000085978	ENST00000419681	protein_coding	PUTATIVE	None	21498	492	163	234160322	234186240	1	APG16L, ATG16L	WDR30, FLJ10035, ATG16A
2	ATG16L1	ENSG00000085978	ENST00000479942	retained_intron	KNOWN	None	21498	None	None	234160328	234204312	1	APG16L, ATG16L	WDR30, FLJ10035, ATG16A
2	ATG16L1	ENSG00000085978	ENST00000485623	retained_intron	KNOWN	None	21498	None	None	234160331	234172747	1	APG16L, ATG16L	WDR30, FLJ10035, ATG16A
2	ATG16L1	ENSG00000085978	ENST00000474148	retained_intron	KNOWN	None	21498	None	None	234160347	234204312	1	APG16L, ATG16L	WDR30, FLJ10035, ATG16A
2	ATG16L1	ENSG00000085978	ENST00000417017	protein_coding	NOVEL	None	21498	561	186	234160351	234182385	1	APG16L, ATG16L	WDR30, FLJ10035, ATG16A
2	ATG16L1	ENSG00000085978	ENST00000392020	protein_coding	KNOWN	CCDS2502	21498	1767	588	234160352	234204320	1	APG16L, ATG16L	WDR30, FLJ10035, ATG16A
2	ATG16L1	ENSG00000085978	ENST00000392018	protein_coding	NOVEL	None	21498	1875	624	234160360	234204320	1	APG16L, ATG16L	WDR30, FLJ10035, ATG16A
2	ATG16L1	ENSG00000085978	ENST00000498620	processed_transcript	KNOWN	None	21498	None	None	234174601	234198529	1	APG16L, ATG16L	WDR30, FLJ10035, ATG16A
2	ATG16L1	ENSG00000085978	ENST00000492298	retained_intron	KNOWN	None	21498	None	None	234182950	234189760	1	APG16L, ATG16L	WDR30, FLJ10035, ATG16A
2	ATG16L1	ENSG00000085978	ENST00000464645	processed_transcript	KNOWN	None	21498	None	None	234184025	234198994	1	APG16L, ATG16L	WDR30, FLJ10035, ATG16A
2	ATG16L1	ENSG00000085978	ENST00000472242	retained_intron	KNOWN	None	21498	None	None	234185794	234191641	1	APG16L, ATG16L	WDR30, FLJ10035, ATG16A
2	ATG16L1	ENSG00000085978	ENST00000473865	retained_intron	KNOWN	None	21498	None	None	234198753	234203165	1	APG16L, ATG16L	WDR30, FLJ10035, ATG16A
2	ATG16L1	ENSG00000085978	ENST00000347464	protein_coding	KNOWN	CCDS54438	21498	1335	444	234160217	234204319	1	APG16L, ATG16L	WDR30, FLJ10035, ATG16A
HG388_HG400_PATCH	PIH1D2	ENSG00000262740	ENST00000575691	protein_coding	PUTATIVE	None	25210	555	184	111934733	111941995	-1	None	None
HG388_HG400_PATCH	PIH1D2	ENSG00000262740	ENST00000572527	protein_coding	KNOWN	None	25210	948	315	111938521	111943929	-1	None	None
HG388_HG400_PATCH	PIH1D2	ENSG00000262740	ENST00000570658	protein_coding	NOVEL	None	25210	757	251	111938653	111943816	-1	None	None
HG388_HG400_PATCH	PIH1D2	ENSG00000262740	ENST00000575210	protein_coding	PUTATIVE	None	25210	822	273	111940460	111944997	-1	None	None
HG388_HG400_PATCH	PIH1D2	ENSG00000262740	ENST00000572249	non_stop_decay	KNOWN	None	25210	487	161	111941716	111943792	-1	None	None
HG388_HG400_PATCH	PIH1D2	ENSG00000262740	ENST00000574355	processed_transcript	KNOWN	None	25210	None	None	111941855	111943817	-1	None	None
12	CDK17	ENSG00000059758	ENST00000261211	protein_coding	KNOWN	CCDS9061	8750	1572	523	96672039	96794338	-1	PCTK2	PCTAIRE2
12	CDK17	ENSG00000059758	ENST00000543119	protein_coding	KNOWN	CCDS53819	8750	1572	523	96674202	96794258	-1	PCTK2	PCTAIRE2
12	CDK17	ENSG00000059758	ENST00000542666	protein_coding	PUTATIVE	None	8750	1413	470	96674322	96793852	-1	PCTK2	PCTAIRE2
12	CDK17	ENSG00000059758	ENST00000548422	retained_intron	KNOWN	None	8750	None	None	96675517	96677411	-1	PCTK2	PCTAIRE2
12	CDK17	ENSG00000059758	ENST00000550971	processed_transcript	KNOWN	None	8750	None	None	96677385	96688848	-1	PCTK2	PCTAIRE2
12	CDK17	ENSG00000059758	ENST00000549899	retained_intron	KNOWN	None	8750	None	None	96679508	96680528	-1	PCTK2	PCTAIRE2
12	CDK17	ENSG00000059758	ENST00000551484	retained_intron	KNOWN	None	8750	None	None	96680491	96689181	-1	PCTK2	PCTAIRE2
12	CDK17	ENSG00000059758	ENST00000553042	processed_transcript	KNOWN	None	8750	None	None	96683036	96696903	-1	PCTK2	PCTAIRE2
12	CDK17	ENSG00000059758	ENST00000551816	protein_coding	KNOWN	None	8750	537	178	96704836	96793182	-1	PCTK2	PCTAIRE2
12	CDK17	ENSG00000059758	ENST00000552496	protein_coding	KNOWN	None	8750	483	160	96704890	96793182	-1	PCTK2	PCTAIRE2
12	CDK17	ENSG00000059758	ENST00000548734	protein_coding	PUTATIVE	None	8750	388	128	96707188	96729008	-1	PCTK2	PCTAIRE2
12	CDK17	ENSG00000059758	ENST00000552262	protein_coding	KNOWN	None	8750	265	87	96717744	96793142	-1	PCTK2	PCTAIRE2
X	None	ENSG00000206795	ENST00000384068	misc_RNA	NOVEL	None	None	None	None	12167245	12167357	1	None	None
1	MIR556	ENSG00000207729	ENST00000384996	miRNA	KNOWN	None	32812	None	None	162312336	162312430	1	MIRN556	hsa-mir-556
1	OR11I1P	ENSG00000232791	ENST00000486033	unitary_pseudogene	KNOWN	None	14997	None	None	111396560	111397513	1	OR11I2P	None
X	FRMPD4-AS1	ENSG00000223487	ENST00000425057	antisense	KNOWN	None	41222	None	None	12391286	12393252	-1	None	None
1	SNORA36B	ENSG00000222370	ENST00000410438	snoRNA	KNOWN	None	32629	None	None	220373888	220374018	-1	None	ACA36b
7	C7orf73	ENSG00000243317	ENST00000509448	processed_transcript	KNOWN	None	41909	None	None	135347244	135376621	1	None	PL-5283
7	C7orf73	ENSG00000243317	ENST00000515197	retained_intron	KNOWN	None	41909	None	None	135347262	135358036	1	None	PL-5283
7	C7orf73	ENSG00000243317	ENST00000507606	protein_coding	PUTATIVE	CCDS55168	41909	144	47	135347269	135359972	1	None	PL-5283
7	C7orf73	ENSG00000243317	ENST00000422968	processed_transcript	KNOWN	None	41909	None	None	135347312	135378166	1	None	PL-5283
1	SLAMF6P1	ENSG00000227243	ENST00000451067	processed_pseudogene	KNOWN	None	32012	None	None	162415339	162415676	1	None	None
10	None	ENSG00000251803	ENST00000515994	misc_RNA	NOVEL	None	None	None	None	17445507	17445619	1	None	None
17	HOXB6	ENSG00000108511	ENST00000484302	protein_coding	KNOWN	CCDS11531	5117	675	224	46671639	46682354	-1	HOX2, HOX2B	None
17	HOXB6	ENSG00000108511	ENST00000225648	protein_coding	KNOWN	CCDS11531	5117	675	224	46673115	46682334	-1	HOX2, HOX2B	None
17	HOXB6	ENSG00000108511	ENST00000470193	processed_transcript	KNOWN	None	5117	None	None	46673890	46674496	-1	HOX2, HOX2B	None
17	HOXB6	ENSG00000108511	ENST00000490419	processed_transcript	PUTATIVE	None	5117	None	None	46675573	46681494	-1	HOX2, HOX2B	None
17	None	ENSG00000223878	ENST00000452091	processed_pseudogene	KNOWN	None	None	None	None	15410180	15410668	1	None	None
13	RPL15P18	ENSG00000228501	ENST00000432924	processed_pseudogene	KNOWN	None	36515	None	None	100802735	100803346	-1	None	None
20	CST1	ENSG00000170373	ENST00000304749	protein_coding	KNOWN	CCDS13160	2473	426	141	23728190	23731574	-1	None	None
20	CST1	ENSG00000170373	ENST00000398402	protein_coding	KNOWN	CCDS13160	2473	426	141	23728368	23731905	-1	None	None
5	LIX1	ENSG00000145721	ENST00000274382	protein_coding	KNOWN	CCDS4088	18581	849	282	96427574	96478576	-1	C5orf11	None
5	LIX1	ENSG00000145721	ENST00000512378	protein_coding	PUTATIVE	None	18581	191	62	96443188	96478457	-1	C5orf11	None
1	None	ENSG00000270585	ENST00000604232	processed_pseudogene	KNOWN	None	None	None	None	220380960	220381624	1	None	None
10	PRPF38AP2	ENSG00000236582	ENST00000438179	processed_pseudogene	KNOWN	None	44693	None	None	17619361	17620211	1	None	None
9	RNU6-264P	ENSG00000252943	ENST00000517134	snRNA	KNOWN	None	47227	None	None	19073841	19073944	1	None	None
14	None	ENSG00000258666	ENST00000557226	antisense	KNOWN	None	None	None	None	100800127	100820398	1	None	None
1	UQCRBP2	ENSG00000227941	ENST00000447827	processed_pseudogene	KNOWN	None	12584	None	None	162511122	162511418	-1	None	None
16	None	ENSG00000265373	ENST00000581748	miRNA	KNOWN	None	None	None	None	16403732	16403825	1	None	None
17	None	ENSG00000266538	ENST00000584643	lincRNA	KNOWN	None	None	None	None	15434087	15434403	-1	None	None
13	None	ENSG00000270632	ENST00000603008	processed_pseudogene	KNOWN	None	None	None	None	100850441	100850723	-1	None	None
9	None	ENSG00000201118	ENST00000364248	misc_RNA	NOVEL	None	None	None	None	19089591	19089686	1	None	None
1	None	ENSG00000233877	ENST00000446914	processed_pseudogene	KNOWN	None	None	None	None	65407662	65408048	1	None	None
HSCHR6_MHC_COX	HCG9P5	ENSG00000224253	ENST00000435227	unprocessed_pseudogene	KNOWN	None	30983	None	None	29710037	29710261	1	None	HCGIX-5, dJ377H14.6
1	None	ENSG00000261654	ENST00000562952	sense_overlapping	KNOWN	None	None	None	None	111478991	111484975	-1	None	None
17	None	ENSG00000252129	ENST00000516320	snoRNA	NOVEL	None	None	None	None	15477333	15477512	1	None	None
2	None	ENSG00000214354	ENST00000398171	processed_pseudogene	KNOWN	None	None	None	None	87865347	87866283	-1	None	None
14	None	ENSG00000258521	ENST00000556212	antisense	KNOWN	None	None	None	None	100806169	100806891	1	None	None
9	RN7SL158P	ENSG00000264126	ENST00000583933	misc_RNA	KNOWN	None	46174	None	None	19106479	19106788	-1	None	None
1	None	ENSG00000259788	ENST00000563991	antisense	KNOWN	None	None	None	None	162530017	162531098	-1	None	None
7	FAM183B	ENSG00000164556	ENST00000409072	protein_coding	NOVEL	None	34511	408	135	38724946	38726637	-1	None	LOC340286
1	None	ENSG00000232811	ENST00000440689	antisense	KNOWN	None	None	None	None	111486089	111495470	1	None	None
1	None	ENSG00000270708	ENST00000604493	processed_pseudogene	KNOWN	None	None	None	None	220393633	220393935	1	None	None
17	None	ENSG00000223544	ENST00000430712	unprocessed_pseudogene	KNOWN	None	None	None	None	15492166	15492398	1	None	None
9	None	ENSG00000232176	ENST00000397390	processed_pseudogene	KNOWN	None	None	None	None	19200333	19201044	-1	None	None
1	RN7SL861P	ENSG00000243173	ENST00000473793	misc_RNA	KNOWN	None	46877	None	None	162747520	162747802	1	None	None
10	None	ENSG00000260589	ENST00000563601	antisense	KNOWN	None	None	None	None	17683283	17685877	-1	None	None
14	None	ENSG00000258581	ENST00000557231	processed_pseudogene	KNOWN	None	None	None	None	100832965	100833257	1	None	None
3	RAD23BP1	ENSG00000236570	ENST00000421404	processed_pseudogene	KNOWN	None	44509	None	None	18580165	18581391	1	None	None
17	None	ENSG00000266261	ENST00000584540	antisense	KNOWN	None	None	None	None	15554904	15557803	1	None	None
13	PCCA-AS1	ENSG00000234650	ENST00000451662	antisense	KNOWN	None	39901	None	None	101116694	101132539	-1	None	None
13	PCCA-AS1	ENSG00000234650	ENST00000455958	antisense	KNOWN	None	39901	None	None	101131801	101133269	-1	None	None
13	PCCA-AS1	ENSG00000234650	ENST00000414553	antisense	KNOWN	None	39901	None	None	101131813	101133411	-1	None	None
1	CCNT2P1	ENSG00000225672	ENST00000423082	processed_pseudogene	KNOWN	None	39178	None	None	111550322	111558152	-1	None	None
3	RNU6-138P	ENSG00000251761	ENST00000515952	snRNA	KNOWN	None	47101	None	None	18996435	18996541	-1	None	None
1	MORF4L1P1	ENSG00000218283	ENST00000404582	processed_pseudogene	KNOWN	None	20400	None	None	220426912	220427878	1	MORF4LP1	MRG1
HSCHR6_MHC_COX	None	ENSG00000263876	ENST00000580771	misc_RNA	NOVEL	None	None	None	None	29712118	29712219	1	None	None
1	None	ENSG00000230739	ENST00000451015	unprocessed_pseudogene	KNOWN	None	None	None	None	162794585	162819257	1	None	None
10	None	ENSG00000251959	ENST00000516150	snoRNA	NOVEL	None	None	None	None	17721187	17721296	1	None	None
11	None	ENSG00000254862	ENST00000525833	antisense	KNOWN	None	None	None	None	27493276	27497768	1	None	None
11	None	ENSG00000254862	ENST00000529258	antisense	KNOWN	None	None	None	None	27493345	27503980	1	None	None
6	BEND6	ENSG00000151917	ENST00000370746	protein_coding	KNOWN	CCDS43476	20871	840	279	56820090	56892140	1	C6orf65	FLJ30162, bA203B9.1
6	BEND6	ENSG00000151917	ENST00000370745	protein_coding	NOVEL	None	20871	390	129	56820170	56879958	1	C6orf65	FLJ30162, bA203B9.1
6	BEND6	ENSG00000151917	ENST00000484701	processed_transcript	KNOWN	None	20871	None	None	56878607	56883269	1	C6orf65	FLJ30162, bA203B9.1
6	BEND6	ENSG00000151917	ENST00000370750	protein_coding	KNOWN	None	20871	390	129	56819773	56892138	1	C6orf65	FLJ30162, bA203B9.1
6	BEND6	ENSG00000151917	ENST00000370748	protein_coding	KNOWN	None	20871	321	106	56819924	56875742	1	C6orf65	FLJ30162, bA203B9.1
6	BEND6	ENSG00000151917	ENST00000545789	protein_coding	KNOWN	None	20871	546	181	56878607	56892138	1	C6orf65	FLJ30162, bA203B9.1
8	None	ENSG00000253583	ENST00000523265	lincRNA	KNOWN	None	None	None	None	64498558	64501966	1	None	None
20	NKAIN4	ENSG00000101198	ENST00000370313	protein_coding	PUTATIVE	None	16191	360	119	61872136	61884789	-1	C20orf58	bA261N11.2, FAM77A
20	NKAIN4	ENSG00000101198	ENST00000370316	protein_coding	KNOWN	CCDS13514	16191	627	208	61872136	61885892	-1	C20orf58	bA261N11.2, FAM77A
20	NKAIN4	ENSG00000101198	ENST00000466885	processed_transcript	KNOWN	None	16191	None	None	61872494	61879885	-1	C20orf58	bA261N11.2, FAM77A
20	NKAIN4	ENSG00000101198	ENST00000470246	processed_transcript	KNOWN	None	16191	None	None	61872629	61878503	-1	C20orf58	bA261N11.2, FAM77A
20	NKAIN4	ENSG00000101198	ENST00000370307	protein_coding	PUTATIVE	None	16191	441	146	61872742	61904046	-1	C20orf58	bA261N11.2, FAM77A
20	NKAIN4	ENSG00000101198	ENST00000370317	protein_coding	PUTATIVE	None	16191	504	167	61873080	61880229	-1	C20orf58	bA261N11.2, FAM77A
20	NKAIN4	ENSG00000101198	ENST00000486495	retained_intron	KNOWN	None	16191	None	None	61875202	61884789	-1	C20orf58	bA261N11.2, FAM77A
20	NKAIN4	ENSG00000101198	ENST00000461738	retained_intron	KNOWN	None	16191	None	None	61875424	61880618	-1	C20orf58	bA261N11.2, FAM77A
20	NKAIN4	ENSG00000101198	ENST00000472670	processed_transcript	PUTATIVE	None	16191	None	None	61879491	61880614	-1	C20orf58	bA261N11.2, FAM77A
9	None	ENSG00000232978	ENST00000417577	antisense	KNOWN	None	None	None	None	19291335	19292574	-1	None	None
HSCHR6_MHC_COX	IFITM4P	ENSG00000228912	ENST00000414714	processed_pseudogene	KNOWN	None	21669	None	None	29712474	29712894	-1	None	dJ377H14.5
1	AURKAPS1	ENSG00000213033	ENST00000451805	transcribed_processed_pseudogene	KNOWN	None	18611	None	None	220440048	220441259	-1	STK6P	AurAps1
1	None	ENSG00000226891	ENST00000447748	lincRNA	KNOWN	None	None	None	None	65437908	65458695	-1	None	None
1	None	ENSG00000226891	ENST00000444349	lincRNA	KNOWN	None	None	None	None	65445260	65457087	-1	None	None
1	None	ENSG00000226891	ENST00000415842	lincRNA	KNOWN	None	None	None	None	65445260	65468159	-1	None	None
1	None	ENSG00000226891	ENST00000436350	lincRNA	KNOWN	None	None	None	None	65458686	65468120	-1	None	None
7	None	ENSG00000241102	ENST00000487324	processed_pseudogene	KNOWN	None	None	None	None	128735355	128735865	-1	None	None
5	GTF2H2B	ENSG00000226259	ENST00000508065	transcribed_unprocessed_pseudogene	KNOWN	None	31393	None	None	69711179	69743353	1	None	DKFZP686M0199
5	GTF2H2B	ENSG00000226259	ENST00000507549	processed_transcript	KNOWN	None	31393	None	None	69711223	69723818	1	None	DKFZP686M0199
5	GTF2H2B	ENSG00000226259	ENST00000513202	processed_transcript	KNOWN	None	31393	None	None	69711270	69743842	1	None	DKFZP686M0199
5	GTF2H2B	ENSG00000226259	ENST00000504712	processed_transcript	KNOWN	None	31393	None	None	69716075	69720986	1	None	DKFZP686M0199
5	GTF2H2B	ENSG00000226259	ENST00000412385	unprocessed_pseudogene	KNOWN	None	31393	None	None	69711198	69743885	1	None	DKFZP686M0199
5	GTF2H2B	ENSG00000226259	ENST00000506804	unprocessed_pseudogene	KNOWN	None	31393	None	None	69711221	69743506	1	None	DKFZP686M0199
9	None	ENSG00000238348	ENST00000458923	snoRNA	NOVEL	None	None	None	None	19310689	19310786	1	None	None
2	MIR4435-1	ENSG00000265507	ENST00000582552	miRNA	KNOWN	None	41713	None	None	87929274	87929353	1	None	hsa-mir-4435-1
2	MIR4435-2	ENSG00000265507	ENST00000582552	miRNA	KNOWN	None	41837	None	None	87929274	87929353	1	None	hsa-mir-4435-2
7	None	ENSG00000241573	ENST00000491624	processed_pseudogene	KNOWN	None	None	None	None	128736081	128736789	-1	None	None
9	NDUFA5P3	ENSG00000234853	ENST00000449348	processed_pseudogene	KNOWN	None	48845	None	None	19383215	19383885	-1	None	None
1	XRCC6P3	ENSG00000230318	ENST00000422187	processed_pseudogene	KNOWN	None	45185	None	None	220487287	220488907	-1	None	None
1	NOC2L	ENSG00000188976	ENST00000483767	retained_intron	KNOWN	None	24517	None	None	879584	882440	-1	None	DKFZP564C186, NET7, NET15, NIR
1	NOC2L	ENSG00000188976	ENST00000327044	protein_coding	KNOWN	CCDS3	24517	2250	749	879584	894670	-1	None	DKFZP564C186, NET7, NET15, NIR
1	NOC2L	ENSG00000188976	ENST00000477976	retained_intron	KNOWN	None	24517	None	None	879585	893838	-1	None	DKFZP564C186, NET7, NET15, NIR
1	NOC2L	ENSG00000188976	ENST00000496938	processed_transcript	KNOWN	None	24517	None	None	880699	880942	-1	None	DKFZP564C186, NET7, NET15, NIR
1	NOC2L	ENSG00000188976	ENST00000487214	processed_transcript	KNOWN	None	24517	None	None	889806	894689	-1	None	DKFZP564C186, NET7, NET15, NIR
1	NOC2L	ENSG00000188976	ENST00000469563	retained_intron	KNOWN	None	24517	None	None	893626	894636	-1	None	DKFZP564C186, NET7, NET15, NIR
14	None	ENSG00000258620	ENST00000556080	sense_intronic	KNOWN	None	None	None	None	100872936	100873366	1	None	None
14	None	ENSG00000258620	ENST00000556411	sense_intronic	KNOWN	None	None	None	None	100873242	100873950	1	None	None
10	None	ENSG00000229190	ENST00000445235	antisense	KNOWN	None	None	None	None	17737708	17742231	-1	None	None
2	None	ENSG00000225933	ENST00000452984	processed_pseudogene	KNOWN	None	None	None	None	87954409	87954762	1	None	None
7	None	ENSG00000270729	ENST00000604902	processed_pseudogene	KNOWN	None	None	None	None	143676214	143677318	-1	None	None
10	MIR511-1	ENSG00000207937	ENST00000385202	miRNA	KNOWN	None	32077	None	None	17887107	17887193	1	MIRN511-1	hsa-mir-511-1
1	RNA5SP54	ENSG00000252760	ENST00000516951	rRNA	KNOWN	None	42831	None	None	111584456	111584547	1	RN5S54	None
1	None	ENSG00000232883	ENST00000448115	processed_pseudogene	KNOWN	None	None	None	None	220490009	220490941	-1	None	None
11	RELA	ENSG00000173039	ENST00000406246	protein_coding	KNOWN	CCDS31609	9955	1656	551	65421067	65430565	-1	NFKB3	p65
11	RELA	ENSG00000173039	ENST00000525693	protein_coding	PUTATIVE	None	9955	1134	377	65421072	65430366	-1	NFKB3	p65
11	RELA	ENSG00000173039	ENST00000526283	nonsense_mediated_decay	KNOWN	None	9955	714	237	65421073	65430366	-1	NFKB3	p65
11	RELA	ENSG00000173039	ENST00000308639	protein_coding	KNOWN	CCDS44651	9955	1647	548	65421073	65430561	-1	NFKB3	p65
11	RELA	ENSG00000173039	ENST00000531484	retained_intron	KNOWN	None	9955	None	None	65421438	65430386	-1	NFKB3	p65
11	RELA	ENSG00000173039	ENST00000532999	protein_coding	NOVEL	None	9955	1255	417	65422283	65430389	-1	NFKB3	p65
11	RELA	ENSG00000173039	ENST00000526257	protein_coding	PUTATIVE	None	9955	215	70	65423178	65427214	-1	NFKB3	p65
11	RELA	ENSG00000173039	ENST00000529389	nonsense_mediated_decay	KNOWN	None	9955	462	153	65423328	65430431	-1	NFKB3	p65
11	RELA	ENSG00000173039	ENST00000525658	nonsense_mediated_decay	KNOWN	None	9955	150	49	65425758	65430386	-1	NFKB3	p65
11	RELA	ENSG00000173039	ENST00000533546	nonsense_mediated_decay	KNOWN	None	9955	195	64	65425901	65430379	-1	NFKB3	p65
11	RELA	ENSG00000173039	ENST00000526738	retained_intron	KNOWN	None	9955	None	None	65426073	65428263	-1	NFKB3	p65
11	RELA	ENSG00000173039	ENST00000527909	nonsense_mediated_decay	KNOWN	None	9955	405	134	65426189	65430379	-1	NFKB3	p65
11	RELA	ENSG00000173039	ENST00000534558	protein_coding	NOVEL	None	9955	625	207	65426201	65430370	-1	NFKB3	p65
11	RELA	ENSG00000173039	ENST00000527749	protein_coding	PUTATIVE	None	9955	557	184	65426203	65430263	-1	NFKB3	p65
11	RELA	ENSG00000173039	ENST00000529330	retained_intron	KNOWN	None	9955	None	None	65426240	65427633	-1	NFKB3	p65
11	RELA	ENSG00000173039	ENST00000532879	protein_coding	NOVEL	None	9955	484	160	65427153	65430386	-1	NFKB3	p65
11	RELA	ENSG00000173039	ENST00000531238	nonsense_mediated_decay	KNOWN	None	9955	258	85	65427215	65430379	-1	NFKB3	p65
11	RELA	ENSG00000173039	ENST00000527074	retained_intron	KNOWN	None	9955	None	None	65427523	65430389	-1	NFKB3	p65
11	RELA	ENSG00000173039	ENST00000525301	retained_intron	KNOWN	None	9955	None	None	65427627	65430389	-1	NFKB3	p65
11	RELA	ENSG00000173039	ENST00000533187	protein_coding	PUTATIVE	None	9955	286	94	65427643	65430264	-1	NFKB3	p65
11	RELA	ENSG00000173039	ENST00000527874	protein_coding	PUTATIVE	None	9955	269	88	65427660	65429899	-1	NFKB3	p65
11	RELA	ENSG00000173039	ENST00000525858	retained_intron	KNOWN	None	9955	None	None	65428879	65430443	-1	NFKB3	p65
11	RELA	ENSG00000173039	ENST00000534305	retained_intron	KNOWN	None	9955	None	None	65428982	65430368	-1	NFKB3	p65
11	RELA	ENSG00000173039	ENST00000532776	retained_intron	KNOWN	None	9955	None	None	65429104	65430415	-1	NFKB3	p65
11	RELA	ENSG00000173039	ENST00000534283	protein_coding	PUTATIVE	None	9955	87	28	65429414	65430251	-1	NFKB3	p65
3	MIR4791	ENSG00000271898	ENST00000607666	miRNA	KNOWN	None	41704	None	None	19356340	19356423	-1	None	hsa-mir-4791
11	GVINP1	ENSG00000254838	ENST00000531871	transcribed_unprocessed_pseudogene	KNOWN	None	25813	None	None	6735841	6742897	-1	GVIN1, GVIN1P	VLIG-1, FLJ13373, VLIG1
11	GVINP1	ENSG00000254838	ENST00000526769	processed_transcript	KNOWN	None	25813	None	None	6737506	6767670	-1	GVIN1, GVIN1P	VLIG-1, FLJ13373, VLIG1
11	GVINP1	ENSG00000254838	ENST00000535670	unprocessed_pseudogene	KNOWN	None	25813	None	None	6735571	6737695	-1	GVIN1, GVIN1P	VLIG-1, FLJ13373, VLIG1
1	CHIAP1	ENSG00000236040	ENST00000456220	unprocessed_pseudogene	KNOWN	None	44462	None	None	111792876	111799337	1	None	None
1	SLC2A3P2	ENSG00000185031	ENST00000331747	processed_pseudogene	KNOWN	None	31074	None	None	65450291	65451770	-1	None	None
8	RN7SKP135	ENSG00000252358	ENST00000516549	misc_RNA	KNOWN	None	45859	None	None	64521912	64522158	-1	None	None
X	MAP7D3	ENSG00000129680	ENST00000370661	protein_coding	PUTATIVE	CCDS55508	25742	2526	841	135295381	135333530	-1	None	FLJ12649
X	MAP7D3	ENSG00000129680	ENST00000316077	protein_coding	PUTATIVE	CCDS44004	25742	2631	876	135298970	135333738	-1	None	FLJ12649
X	MAP7D3	ENSG00000129680	ENST00000471510	processed_transcript	KNOWN	None	25742	None	None	135298973	135302972	-1	None	FLJ12649
X	MAP7D3	ENSG00000129680	ENST00000370660	protein_coding	PUTATIVE	None	25742	2408	801	135301786	135333541	-1	None	FLJ12649
X	MAP7D3	ENSG00000129680	ENST00000489788	processed_transcript	PUTATIVE	None	25742	None	None	135303938	135309592	-1	None	FLJ12649
X	MAP7D3	ENSG00000129680	ENST00000495432	processed_transcript	KNOWN	None	25742	None	None	135304552	135311154	-1	None	FLJ12649
X	MAP7D3	ENSG00000129680	ENST00000477124	processed_transcript	PUTATIVE	None	25742	None	None	135312544	135313314	-1	None	FLJ12649
X	MAP7D3	ENSG00000129680	ENST00000370663	protein_coding	KNOWN	CCDS55509	25742	2577	858	135298979	135338641	-1	None	FLJ12649
12	None	ENSG00000255748	ENST00000545350	protein_coding	PUTATIVE	None	None	330	109	133787246	133787772	-1	None	None
11	PPP1R10P1	ENSG00000255352	ENST00000531876	processed_pseudogene	KNOWN	None	16325	None	None	130659126	130660920	-1	PPP1R10P	None
13	RNY1P4	ENSG00000207325	ENST00000384595	misc_RNA	KNOWN	None	42481	None	None	33337576	33337690	-1	None	None
19	None	ENSG00000269131	ENST00000594142	antisense	KNOWN	None	None	None	None	19101702	19104419	1	None	None
8	None	ENSG00000253554	ENST00000523191	antisense	KNOWN	None	None	None	None	64599737	65281115	-1	None	None
8	None	ENSG00000253554	ENST00000524360	antisense	KNOWN	None	None	None	None	64641332	65153063	-1	None	None
8	None	ENSG00000253554	ENST00000521958	antisense	KNOWN	None	None	None	None	64769500	65281115	-1	None	None
8	None	ENSG00000253554	ENST00000520365	antisense	KNOWN	None	None	None	None	65063663	65152839	-1	None	None
1	None	ENSG00000226927	ENST00000413159	lincRNA	KNOWN	None	None	None	None	220533073	220533525	-1	None	None
13	LINC00423	ENSG00000226968	ENST00000421002	lincRNA	KNOWN	None	42758	None	None	33451569	33485788	-1	None	None
19	RNU6-1028P	ENSG00000252973	ENST00000517164	snRNA	KNOWN	None	47991	None	None	19343664	19343756	1	None	None
HSCHR6_MHC_COX	HLA-V	ENSG00000230238	ENST00000411514	processed_transcript	KNOWN	None	23482	None	None	29753037	29759260	1	HLA-75	dJ377H14.4
HSCHR6_MHC_COX	HLA-V	ENSG00000230238	ENST00000414859	processed_transcript	KNOWN	None	23482	None	None	29753589	29759260	1	HLA-75	dJ377H14.4
HSCHR6_MHC_COX	HLA-V	ENSG00000230238	ENST00000414433	processed_transcript	KNOWN	None	23482	None	None	29753906	29759260	1	HLA-75	dJ377H14.4
HSCHR6_MHC_COX	HLA-V	ENSG00000230238	ENST00000441552	transcribed_unprocessed_pseudogene	KNOWN	None	23482	None	None	29753917	29754798	1	HLA-75	dJ377H14.4
1	None	ENSG00000272506	ENST00000607528	lincRNA	KNOWN	None	None	None	None	65469153	65469770	-1	None	None
3	HSPA8P18	ENSG00000232953	ENST00000439846	processed_pseudogene	KNOWN	None	44933	None	None	19981761	19984802	-1	None	None
5	RAPGEF6	ENSG00000158987	ENST00000509018	protein_coding	KNOWN	CCDS34225	20655	4806	1601	130759614	130970929	-1	PDZGEF2	RA-GEF-2, PDZ-GEF2
5	RAPGEF6	ENSG00000158987	ENST00000512611	retained_intron	KNOWN	None	20655	None	None	130761580	130783094	-1	PDZGEF2	RA-GEF-2, PDZ-GEF2
5	RAPGEF6	ENSG00000158987	ENST00000507093	protein_coding	NOVEL	CCDS54899	20655	4515	1504	130761929	130970905	-1	PDZGEF2	RA-GEF-2, PDZ-GEF2
5	RAPGEF6	ENSG00000158987	ENST00000296859	protein_coding	NOVEL	CCDS54900	20655	4830	1609	130762252	130970804	-1	PDZGEF2	RA-GEF-2, PDZ-GEF2
5	RAPGEF6	ENSG00000158987	ENST00000512052	protein_coding	PUTATIVE	None	20655	3345	1114	130771454	130843850	-1	PDZGEF2	RA-GEF-2, PDZ-GEF2
5	RAPGEF6	ENSG00000158987	ENST00000308008	protein_coding	PUTATIVE	CCDS54898	20655	4176	1391	130771644	130970723	-1	PDZGEF2	RA-GEF-2, PDZ-GEF2
5	RAPGEF6	ENSG00000158987	ENST00000515170	nonsense_mediated_decay	KNOWN	None	20655	3615	1204	130771983	130970906	-1	PDZGEF2	RA-GEF-2, PDZ-GEF2
5	RAPGEF6	ENSG00000158987	ENST00000510071	protein_coding	PUTATIVE	CCDS54897	20655	2484	827	130799308	130970924	-1	PDZGEF2	RA-GEF-2, PDZ-GEF2
5	RAPGEF6	ENSG00000158987	ENST00000504919	retained_intron	KNOWN	None	20655	None	None	130799743	130808613	-1	PDZGEF2	RA-GEF-2, PDZ-GEF2
5	RAPGEF6	ENSG00000158987	ENST00000514179	retained_intron	KNOWN	None	20655	None	None	130807783	130868699	-1	PDZGEF2	RA-GEF-2, PDZ-GEF2
5	RAPGEF6	ENSG00000158987	ENST00000513227	protein_coding	PUTATIVE	None	20655	467	154	130841175	130868726	-1	PDZGEF2	RA-GEF-2, PDZ-GEF2
5	RAPGEF6	ENSG00000158987	ENST00000504575	protein_coding	NOVEL	None	20655	467	154	130843798	130868699	-1	PDZGEF2	RA-GEF-2, PDZ-GEF2
5	RAPGEF6	ENSG00000158987	ENST00000504039	protein_coding	NOVEL	None	20655	449	148	130843816	130867940	-1	PDZGEF2	RA-GEF-2, PDZ-GEF2
5	RAPGEF6	ENSG00000158987	ENST00000503398	processed_transcript	KNOWN	None	20655	None	None	130883789	130928129	-1	PDZGEF2	RA-GEF-2, PDZ-GEF2
5	RAPGEF6	ENSG00000158987	ENST00000307984	protein_coding	KNOWN	CCDS54901	20655	4530	1509	130759616	130970929	-1	PDZGEF2	RA-GEF-2, PDZ-GEF2
17	DDX5	ENSG00000108654	ENST00000540698	nonsense_mediated_decay	KNOWN	None	2746	291	96	62495734	62502407	-1	HLR1, G17P1	p68
17	DDX5	ENSG00000108654	ENST00000581693	nonsense_mediated_decay	KNOWN	None	2746	117	38	62495734	62502407	-1	HLR1, G17P1	p68
17	DDX5	ENSG00000108654	ENST00000581230	retained_intron	KNOWN	None	2746	None	None	62495734	62502407	-1	HLR1, G17P1	p68
17	DDX5	ENSG00000108654	ENST00000225792	protein_coding	KNOWN	CCDS11659	2746	1845	614	62495734	62502639	-1	HLR1, G17P1	p68
17	DDX5	ENSG00000108654	ENST00000450599	protein_coding	NOVEL	None	2746	1608	535	62495740	62502405	-1	HLR1, G17P1	p68
17	DDX5	ENSG00000108654	ENST00000578804	protein_coding	PUTATIVE	None	2746	1845	614	62496032	62502074	-1	HLR1, G17P1	p68
17	DDX5	ENSG00000108654	ENST00000580026	processed_transcript	KNOWN	None	2746	None	None	62496228	62498020	-1	HLR1, G17P1	p68
17	DDX5	ENSG00000108654	ENST00000578758	retained_intron	KNOWN	None	2746	None	None	62496252	62498468	-1	HLR1, G17P1	p68
17	DDX5	ENSG00000108654	ENST00000581237	processed_transcript	KNOWN	None	2746	None	None	62496303	62497815	-1	HLR1, G17P1	p68
17	DDX5	ENSG00000108654	ENST00000578491	processed_transcript	KNOWN	None	2746	None	None	62496942	62499214	-1	HLR1, G17P1	p68
17	DDX5	ENSG00000108654	ENST00000579461	retained_intron	KNOWN	None	2746	None	None	62497994	62499364	-1	HLR1, G17P1	p68
17	DDX5	ENSG00000108654	ENST00000585317	retained_intron	KNOWN	None	2746	None	None	62498006	62499020	-1	HLR1, G17P1	p68
17	DDX5	ENSG00000108654	ENST00000579996	protein_coding	PUTATIVE	None	2746	461	152	62498188	62499553	-1	HLR1, G17P1	p68
17	DDX5	ENSG00000108654	ENST00000577787	protein_coding	PUTATIVE	None	2746	501	166	62498703	62499941	-1	HLR1, G17P1	p68
17	DDX5	ENSG00000108654	ENST00000584549	retained_intron	KNOWN	None	2746	None	None	62498848	62499966	-1	HLR1, G17P1	p68
17	DDX5	ENSG00000108654	ENST00000581551	retained_intron	KNOWN	None	2746	None	None	62499018	62499679	-1	HLR1, G17P1	p68
17	DDX5	ENSG00000108654	ENST00000583201	retained_intron	KNOWN	None	2746	None	None	62499039	62499764	-1	HLR1, G17P1	p68
17	DDX5	ENSG00000108654	ENST00000582326	retained_intron	KNOWN	None	2746	None	None	62499048	62499802	-1	HLR1, G17P1	p68
17	DDX5	ENSG00000108654	ENST00000583894	retained_intron	KNOWN	None	2746	None	None	62499083	62500139	-1	HLR1, G17P1	p68
17	DDX5	ENSG00000108654	ENST00000578400	nonsense_mediated_decay	KNOWN	None	2746	300	99	62499213	62502441	-1	HLR1, G17P1	p68
17	DDX5	ENSG00000108654	ENST00000577922	protein_coding	KNOWN	None	2746	638	211	62499559	62502849	-1	HLR1, G17P1	p68
17	DDX5	ENSG00000108654	ENST00000581697	protein_coding	PUTATIVE	None	2746	196	64	62499686	62502744	-1	HLR1, G17P1	p68
17	DDX5	ENSG00000108654	ENST00000583562	retained_intron	KNOWN	None	2746	None	None	62499838	62500407	-1	HLR1, G17P1	p68
17	DDX5	ENSG00000108654	ENST00000581806	protein_coding	PUTATIVE	None	2746	156	51	62499957	62503021	-1	HLR1, G17P1	p68
17	DDX5	ENSG00000108654	ENST00000578190	protein_coding	PUTATIVE	None	2746	139	45	62499974	62501508	-1	HLR1, G17P1	p68
17	DDX5	ENSG00000108654	ENST00000583239	protein_coding	PUTATIVE	None	2746	114	37	62500113	62501645	-1	HLR1, G17P1	p68
17	DDX5	ENSG00000108654	ENST00000579091	protein_coding	PUTATIVE	None	2746	94	30	62500133	62501569	-1	HLR1, G17P1	p68
17	DDX5	ENSG00000108654	ENST00000585060	protein_coding	PUTATIVE	None	2746	49	15	62500178	62502407	-1	HLR1, G17P1	p68
17	DDX5	ENSG00000108654	ENST00000584279	protein_coding	KNOWN	None	2746	360	119	62500182	62502804	-1	HLR1, G17P1	p68
17	DDX5	ENSG00000108654	ENST00000583212	protein_coding	PUTATIVE	None	2746	31	9	62500196	62501399	-1	HLR1, G17P1	p68
17	DDX5	ENSG00000108654	ENST00000585223	retained_intron	KNOWN	None	2746	None	None	62500476	62502407	-1	HLR1, G17P1	p68
17	DDX5	ENSG00000108654	ENST00000585111	protein_coding	KNOWN	None	2746	132	43	62500873	62503648	-1	HLR1, G17P1	p68
17	DDX5	ENSG00000108654	ENST00000583699	processed_transcript	KNOWN	None	2746	None	None	62502918	62503830	-1	HLR1, G17P1	p68
17	DDX5	ENSG00000108654	ENST00000584500	processed_transcript	KNOWN	None	2746	None	None	62503045	62504317	-1	HLR1, G17P1	p68
1	None	ENSG00000260505	ENST00000563417	lincRNA	KNOWN	None	None	None	None	220574464	220577375	1	None	None
16	IST1	ENSG00000182149	ENST00000540296	protein_coding	KNOWN	None	28977	179	58	71919136	71950455	1	KIAA0174	None
16	IST1	ENSG00000182149	ENST00000544564	protein_coding	PUTATIVE	CCDS59272	28977	1101	366	71924472	71961793	1	KIAA0174	None
16	IST1	ENSG00000182149	ENST00000541571	protein_coding	PUTATIVE	CCDS59272	28977	1101	366	71927837	71961876	1	KIAA0174	None
16	IST1	ENSG00000182149	ENST00000538104	protein_coding	KNOWN	None	28977	120	39	71928308	71950396	1	KIAA0174	None
16	IST1	ENSG00000182149	ENST00000378799	protein_coding	KNOWN	CCDS59272	28977	1101	366	71929152	71962913	1	KIAA0174	None
16	IST1	ENSG00000182149	ENST00000537613	protein_coding	PUTATIVE	None	28977	759	252	71929397	71956583	1	KIAA0174	None
16	IST1	ENSG00000182149	ENST00000424485	protein_coding	KNOWN	None	28977	424	140	71929411	71954720	1	KIAA0174	None
16	IST1	ENSG00000182149	ENST00000566536	retained_intron	KNOWN	None	28977	None	None	71929413	71954801	1	KIAA0174	None
16	IST1	ENSG00000182149	ENST00000538565	processed_transcript	KNOWN	None	28977	None	None	71929434	71962242	1	KIAA0174	None
16	IST1	ENSG00000182149	ENST00000329908	protein_coding	KNOWN	CCDS10905	28977	1083	360	71929446	71962913	1	KIAA0174	None
16	IST1	ENSG00000182149	ENST00000538850	protein_coding	PUTATIVE	CCDS59274	28977	657	218	71929451	71962055	1	KIAA0174	None
16	IST1	ENSG00000182149	ENST00000541918	protein_coding	KNOWN	None	28977	760	252	71929454	71956584	1	KIAA0174	None
16	IST1	ENSG00000182149	ENST00000534994	protein_coding	KNOWN	None	28977	619	205	71929456	71956443	1	KIAA0174	None
16	IST1	ENSG00000182149	ENST00000378798	protein_coding	KNOWN	CCDS59273	28977	1008	335	71929456	71962911	1	KIAA0174	None
16	IST1	ENSG00000182149	ENST00000539186	protein_coding	KNOWN	None	28977	499	165	71929492	71955303	1	KIAA0174	None
16	IST1	ENSG00000182149	ENST00000439924	nonsense_mediated_decay	KNOWN	None	28977	126	41	71949529	71962905	1	KIAA0174	None
16	IST1	ENSG00000182149	ENST00000545518	retained_intron	KNOWN	None	28977	None	None	71950428	71955665	1	KIAA0174	None
16	IST1	ENSG00000182149	ENST00000456820	protein_coding	NOVEL	None	28977	870	289	71950463	71962877	1	KIAA0174	None
16	IST1	ENSG00000182149	ENST00000537571	retained_intron	KNOWN	None	28977	None	None	71954663	71957412	1	KIAA0174	None
16	IST1	ENSG00000182149	ENST00000545388	retained_intron	KNOWN	None	28977	None	None	71955007	71956656	1	KIAA0174	None
16	IST1	ENSG00000182149	ENST00000538709	retained_intron	KNOWN	None	28977	None	None	71955327	71956837	1	KIAA0174	None
16	IST1	ENSG00000182149	ENST00000536027	nonsense_mediated_decay	KNOWN	None	28977	258	85	71956530	71961952	1	KIAA0174	None
16	IST1	ENSG00000182149	ENST00000541180	retained_intron	KNOWN	None	28977	None	None	71958311	71961741	1	KIAA0174	None
16	IST1	ENSG00000182149	ENST00000535424	protein_coding	KNOWN	CCDS59271	28977	1140	379	71928622	71961876	1	KIAA0174	None
16	IST1	ENSG00000182149	ENST00000606369	protein_coding	KNOWN	CCDS59274	28977	657	218	71929434	71962242	1	KIAA0174	None
19	None	ENSG00000267629	ENST00000586064	retained_intron	KNOWN	None	None	None	None	19366451	19384178	-1	None	None
7	None	ENSG00000240416	ENST00000473154	processed_pseudogene	KNOWN	None	None	None	None	128757567	128757881	-1	None	None
6	None	ENSG00000231102	ENST00000438967	antisense	KNOWN	None	None	None	None	41688134	41701770	1	None	None
1	RNU6-1176P	ENSG00000212257	ENST00000390955	snRNA	KNOWN	None	48139	None	None	65488651	65488757	-1	None	None
1	None	ENSG00000235163	ENST00000416788	processed_pseudogene	KNOWN	None	None	None	None	220621858	220622195	1	None	None
19	None	ENSG00000170858	ENST00000413439	processed_transcript	KNOWN	None	None	None	None	55219700	55224955	1	None	None
1	MIR3671	ENSG00000265996	ENST00000580455	miRNA	KNOWN	None	38925	None	None	65523438	65523525	-1	None	hsa-mir-3671
13	TOMM22P3	ENSG00000227604	ENST00000498134	processed_pseudogene	KNOWN	None	38739	None	None	33528195	33528539	-1	None	None
1	None	ENSG00000227667	ENST00000434394	processed_pseudogene	KNOWN	None	None	None	None	162949341	162949583	-1	None	None
2	None	ENSG00000234231	ENST00000427434	unprocessed_pseudogene	KNOWN	None	None	None	None	88000503	88037624	1	None	None
2	None	ENSG00000234231	ENST00000540487	unprocessed_pseudogene	KNOWN	None	None	None	None	88021818	88038766	1	None	None
4	RNU6-506P	ENSG00000252362	ENST00000516553	snRNA	KNOWN	None	47469	None	None	140152180	140152273	-1	None	None
6	None	ENSG00000238412	ENST00000459381	miRNA	NOVEL	None	None	None	None	93521759	93521852	1	None	None
1	MIR101-1	ENSG00000199135	ENST00000362265	miRNA	KNOWN	None	31488	None	None	65524117	65524191	-1	MIRN101-1	hsa-mir-101-1
7	None	ENSG00000230626	ENST00000467614	transcribed_processed_pseudogene	KNOWN	None	None	None	None	128766572	128767771	1	None	None
7	None	ENSG00000230626	ENST00000471777	processed_transcript	KNOWN	None	None	None	None	128767459	128770847	1	None	None
4	RNU6-1074P	ENSG00000206722	ENST00000383995	snRNA	KNOWN	None	48037	None	None	140177811	140177914	-1	None	None
19	None	ENSG00000221051	ENST00000408124	miRNA	NOVEL	None	None	None	None	40710019	40710106	1	None	None
6	ATF1P1	ENSG00000219387	ENST00000406040	processed_pseudogene	KNOWN	None	37691	None	None	93596969	93598299	-1	None	None
13	None	ENSG00000221677	ENST00000408750	miRNA	NOVEL	None	None	None	None	33615489	33615580	1	None	None
9	CDK20	ENSG00000156345	ENST00000459720	retained_intron	KNOWN	None	21420	None	None	90581356	90589600	-1	CCRK	p42
9	CDK20	ENSG00000156345	ENST00000603475	retained_intron	KNOWN	None	21420	None	None	90581361	90589449	-1	CCRK	p42
9	CDK20	ENSG00000156345	ENST00000336654	protein_coding	KNOWN	CCDS6678	21420	1017	338	90581361	90589504	-1	CCRK	p42
9	CDK20	ENSG00000156345	ENST00000375883	protein_coding	KNOWN	CCDS6677	21420	978	325	90581361	90589668	-1	CCRK	p42
9	CDK20	ENSG00000156345	ENST00000375871	protein_coding	KNOWN	CCDS55324	21420	732	243	90581365	90589402	-1	CCRK	p42
9	CDK20	ENSG00000156345	ENST00000605159	protein_coding	PUTATIVE	None	21420	828	275	90581526	90589420	-1	CCRK	p42
9	CDK20	ENSG00000156345	ENST00000325303	protein_coding	KNOWN	CCDS35060	21420	1041	346	90581549	90589667	-1	CCRK	p42
9	CDK20	ENSG00000156345	ENST00000486228	retained_intron	KNOWN	None	21420	None	None	90581797	90589616	-1	CCRK	p42
9	CDK20	ENSG00000156345	ENST00000604175	retained_intron	KNOWN	None	21420	None	None	90585355	90589446	-1	CCRK	p42
9	CDK20	ENSG00000156345	ENST00000605591	retained_intron	KNOWN	None	21420	None	None	90585952	90589446	-1	CCRK	p42
4	RNU6-1214P	ENSG00000200520	ENST00000363650	snRNA	KNOWN	None	48177	None	None	140239532	140239640	1	None	None
HG104_HG975_PATCH	None	ENSG00000259902	ENST00000568111	antisense	KNOWN	None	None	None	None	145131299	145133236	1	None	None
HG104_HG975_PATCH	None	ENSG00000259902	ENST00000569708	antisense	KNOWN	None	None	None	None	145131727	145133692	1	None	None
1	None	ENSG00000231485	ENST00000448344	lincRNA	KNOWN	None	None	None	None	65532310	65533420	-1	None	None
5	NR3C1	ENSG00000113580	ENST00000394464	protein_coding	KNOWN	CCDS4278	7978	2334	777	142657496	142783265	-1	GRL	GR
5	NR3C1	ENSG00000113580	ENST00000415690	protein_coding	KNOWN	CCDS47298	7978	2229	742	142657501	142782894	-1	GRL	GR
5	NR3C1	ENSG00000113580	ENST00000504572	protein_coding	KNOWN	CCDS34258	7978	2337	778	142660685	142814267	-1	GRL	GR
5	NR3C1	ENSG00000113580	ENST00000394466	protein_coding	KNOWN	CCDS34258	7978	2337	778	142660703	142783694	-1	GRL	GR
5	NR3C1	ENSG00000113580	ENST00000231509	protein_coding	KNOWN	CCDS34258	7978	2337	778	142660727	142783254	-1	GRL	GR
5	NR3C1	ENSG00000113580	ENST00000503201	protein_coding	KNOWN	CCDS4278	7978	2334	777	142661376	142784109	-1	GRL	GR
5	NR3C1	ENSG00000113580	ENST00000504336	processed_transcript	KNOWN	None	7978	None	None	142680126	142769566	-1	GRL	GR
5	NR3C1	ENSG00000113580	ENST00000510170	protein_coding	KNOWN	None	7978	436	144	142779969	142782302	-1	GRL	GR
5	NR3C1	ENSG00000113580	ENST00000508760	protein_coding	KNOWN	None	7978	436	144	142779969	142783447	-1	GRL	GR
5	NR3C1	ENSG00000113580	ENST00000502892	protein_coding	KNOWN	None	7978	436	144	142779969	142784232	-1	GRL	GR
5	NR3C1	ENSG00000113580	ENST00000514699	protein_coding	KNOWN	None	7978	436	144	142779969	142784888	-1	GRL	GR
5	NR3C1	ENSG00000113580	ENST00000502500	protein_coding	KNOWN	None	7978	432	143	142779973	142780962	-1	GRL	GR
5	NR3C1	ENSG00000113580	ENST00000505058	processed_transcript	KNOWN	None	7978	None	None	142788555	142814337	-1	GRL	GR
5	NR3C1	ENSG00000113580	ENST00000503701	processed_transcript	KNOWN	None	7978	None	None	142788555	142814339	-1	GRL	GR
5	NR3C1	ENSG00000113580	ENST00000343796	protein_coding	KNOWN	CCDS4278	7978	2334	777	142657496	142815077	-1	GRL	GR
5	NR3C1	ENSG00000113580	ENST00000424646	protein_coding	KNOWN	None	7978	2256	751	142659132	142780417	-1	GRL	GR
5	NR3C1	ENSG00000113580	ENST00000416954	protein_coding	KNOWN	None	7978	1143	380	142661269	142784035	-1	GRL	GR
19	None	ENSG00000205041	ENST00000378432	sense_intronic	KNOWN	None	None	None	None	40779396	40781386	-1	None	None
4	TMSB4XP8	ENSG00000187653	ENST00000402089	processed_pseudogene	KNOWN	None	11885	None	None	91760054	91760188	-1	TMSL3	None
4	TMSB4XP8	ENSG00000187653	ENST00000507623	processed_pseudogene	KNOWN	None	11885	None	None	91759652	91760263	-1	TMSL3	None
4	TMSB4XP8	ENSG00000187653	ENST00000380638	processed_pseudogene	KNOWN	None	11885	None	None	91759652	91760263	-1	TMSL3	None
13	STARD13-IT1	ENSG00000230300	ENST00000456087	sense_intronic	KNOWN	None	41453	None	None	33732724	33738546	-1	None	None
14	SAMD4A	ENSG00000020577	ENST00000554335	protein_coding	KNOWN	CCDS32084	23023	2157	718	55033815	55255845	1	SAMD4	KIAA1053, DKFZP434H0350, Smaug, SMG, SMGA, hSmaug1
14	SAMD4A	ENSG00000020577	ENST00000251091	protein_coding	KNOWN	CCDS55917	23023	1893	630	55034330	55260029	1	SAMD4	KIAA1053, DKFZP434H0350, Smaug, SMG, SMGA, hSmaug1
14	SAMD4A	ENSG00000020577	ENST00000555112	processed_transcript	PUTATIVE	None	23023	None	None	55034350	55170585	1	SAMD4	KIAA1053, DKFZP434H0350, Smaug, SMG, SMGA, hSmaug1
14	SAMD4A	ENSG00000020577	ENST00000555091	processed_transcript	KNOWN	None	23023	None	None	55119401	55169114	1	SAMD4	KIAA1053, DKFZP434H0350, Smaug, SMG, SMGA, hSmaug1
14	SAMD4A	ENSG00000020577	ENST00000557692	processed_transcript	PUTATIVE	None	23023	None	None	55154715	55169563	1	SAMD4	KIAA1053, DKFZP434H0350, Smaug, SMG, SMGA, hSmaug1
14	SAMD4A	ENSG00000020577	ENST00000557013	retained_intron	KNOWN	None	23023	None	None	55154738	55201855	1	SAMD4	KIAA1053, DKFZP434H0350, Smaug, SMG, SMGA, hSmaug1
14	SAMD4A	ENSG00000020577	ENST00000554587	processed_transcript	PUTATIVE	None	23023	None	None	55154739	55159704	1	SAMD4	KIAA1053, DKFZP434H0350, Smaug, SMG, SMGA, hSmaug1
14	SAMD4A	ENSG00000020577	ENST00000555192	protein_coding	NOVEL	CCDS55918	23023	1038	345	55221551	55255845	1	SAMD4	KIAA1053, DKFZP434H0350, Smaug, SMG, SMGA, hSmaug1
14	SAMD4A	ENSG00000020577	ENST00000556069	retained_intron	KNOWN	None	23023	None	None	55241680	55255846	1	SAMD4	KIAA1053, DKFZP434H0350, Smaug, SMG, SMGA, hSmaug1
14	SAMD4A	ENSG00000020577	ENST00000553988	processed_transcript	KNOWN	None	23023	None	None	55243129	55255845	1	SAMD4	KIAA1053, DKFZP434H0350, Smaug, SMG, SMGA, hSmaug1
14	SAMD4A	ENSG00000020577	ENST00000555719	processed_transcript	KNOWN	None	23023	None	None	55250984	55255846	1	SAMD4	KIAA1053, DKFZP434H0350, Smaug, SMG, SMGA, hSmaug1
14	SAMD4A	ENSG00000020577	ENST00000392067	protein_coding	KNOWN	CCDS32084	23023	2157	718	55034635	55260033	1	SAMD4	KIAA1053, DKFZP434H0350, Smaug, SMG, SMGA, hSmaug1
14	SAMD4A	ENSG00000020577	ENST00000357634	protein_coding	KNOWN	None	23023	2154	717	55034637	55260033	1	SAMD4	KIAA1053, DKFZP434H0350, Smaug, SMG, SMGA, hSmaug1
1	None	ENSG00000234863	ENST00000429278	processed_pseudogene	KNOWN	None	None	None	None	220628496	220628654	-1	None	None
11	TYR	ENSG00000077498	ENST00000263321	protein_coding	KNOWN	CCDS8284	12442	1590	529	88910620	89028927	1	None	OCAIA, OCA1A, OCA1
11	TYR	ENSG00000077498	ENST00000526139	processed_transcript	KNOWN	None	12442	None	None	88911061	88933779	1	None	OCAIA, OCA1A, OCA1
11	TYR	ENSG00000077498	ENST00000528243	processed_transcript	PUTATIVE	None	12442	None	None	89016935	89028476	1	None	OCAIA, OCA1A, OCA1
1	None	ENSG00000232892	ENST00000415437	antisense	KNOWN	None	None	None	None	163131465	163182813	1	None	None
22	ARSA	ENSG00000100299	ENST00000356098	protein_coding	KNOWN	CCDS14100	713	1530	509	51063446	51066598	-1	None	None
22	ARSA	ENSG00000100299	ENST00000216124	protein_coding	KNOWN	CCDS14100	713	1530	509	51063446	51066600	-1	None	None
22	ARSA	ENSG00000100299	ENST00000395621	protein_coding	KNOWN	CCDS14100	713	1530	509	51063456	51066583	-1	None	None
22	ARSA	ENSG00000100299	ENST00000453344	protein_coding	KNOWN	CCDS46736	713	1272	423	51063457	51066601	-1	None	None
22	ARSA	ENSG00000100299	ENST00000395619	protein_coding	KNOWN	CCDS14100	713	1530	509	51063461	51066587	-1	None	None
22	ARSA	ENSG00000100299	ENST00000551731	retained_intron	KNOWN	None	713	None	None	51065019	51066598	-1	None	None
22	ARSA	ENSG00000100299	ENST00000547307	protein_coding	KNOWN	None	713	1524	507	51063450	51066607	-1	None	None
22	ARSA	ENSG00000100299	ENST00000547805	protein_coding	KNOWN	None	713	1524	507	51063450	51066607	-1	None	None
14	None	ENSG00000258500	ENST00000556820	transcribed_processed_pseudogene	KNOWN	None	None	None	None	100947289	100947611	1	None	None
HSCHR6_MHC_SSTO	MOG	ENSG00000236561	ENST00000447285	protein_coding	KNOWN	None	7197	744	247	29624474	29639844	1	None	None
HSCHR6_MHC_SSTO	MOG	ENSG00000236561	ENST00000481712	processed_transcript	KNOWN	None	7197	None	None	29624523	29633731	1	None	None
HSCHR6_MHC_SSTO	MOG	ENSG00000236561	ENST00000419309	protein_coding	KNOWN	None	7197	888	295	29624567	29639844	1	None	None
HSCHR6_MHC_SSTO	MOG	ENSG00000236561	ENST00000472402	processed_transcript	KNOWN	None	7197	None	None	29624605	29627394	1	None	None
HSCHR6_MHC_SSTO	MOG	ENSG00000236561	ENST00000441138	protein_coding	KNOWN	None	7197	759	252	29624685	29639844	1	None	None
HSCHR6_MHC_SSTO	MOG	ENSG00000236561	ENST00000419274	protein_coding	KNOWN	None	7197	690	229	29624685	29639844	1	None	None
HSCHR6_MHC_SSTO	MOG	ENSG00000236561	ENST00000442244	protein_coding	KNOWN	None	7197	642	213	29624685	29639844	1	None	None
HSCHR6_MHC_SSTO	MOG	ENSG00000236561	ENST00000433500	protein_coding	KNOWN	None	7197	396	131	29624685	29639844	1	None	None
HSCHR6_MHC_SSTO	MOG	ENSG00000236561	ENST00000438803	protein_coding	KNOWN	None	7197	675	224	29624685	29639844	1	None	None
HSCHR6_MHC_SSTO	MOG	ENSG00000236561	ENST00000457090	protein_coding	KNOWN	None	7197	615	204	29624691	29639844	1	None	None
HSCHR6_MHC_SSTO	MOG	ENSG00000236561	ENST00000417639	protein_coding	KNOWN	None	7197	539	178	29626789	29639844	1	None	None
HSCHR6_MHC_SSTO	MOG	ENSG00000236561	ENST00000483865	processed_transcript	KNOWN	None	7197	None	None	29626789	29639844	1	None	None
HSCHR6_MHC_SSTO	MOG	ENSG00000236561	ENST00000470227	processed_transcript	KNOWN	None	7197	None	None	29626789	29639844	1	None	None
HSCHR6_MHC_SSTO	MOG	ENSG00000236561	ENST00000549239	protein_coding	KNOWN	None	7197	621	206	29624456	29639842	1	None	None
HSCHR6_MHC_SSTO	MOG	ENSG00000236561	ENST00000553111	protein_coding	KNOWN	None	7197	627	208	29624456	29639842	1	None	None
HSCHR6_MHC_SSTO	MOG	ENSG00000236561	ENST00000553085	protein_coding	KNOWN	None	7197	174	57	29624537	29632205	1	None	None
HSCHR6_MHC_SSTO	MOG	ENSG00000236561	ENST00000547390	protein_coding	KNOWN	None	7197	516	171	29624456	29639842	1	None	None
12	None	ENSG00000258240	ENST00000546852	lincRNA	KNOWN	None	None	None	None	111389487	111395616	-1	None	None
12	None	ENSG00000258240	ENST00000548329	lincRNA	KNOWN	None	None	None	None	111389515	111395615	-1	None	None
1	CHIAP2	ENSG00000203878	ENST00000369743	processed_transcript	KNOWN	None	44463	None	None	111822681	111828730	1	None	None
1	CHIAP2	ENSG00000203878	ENST00000456752	processed_transcript	KNOWN	None	44463	None	None	111822682	111826860	1	None	None
1	CHIAP2	ENSG00000203878	ENST00000532686	transcribed_unprocessed_pseudogene	KNOWN	None	44463	None	None	111822682	111828665	1	None	None
1	CHIAP2	ENSG00000203878	ENST00000449687	processed_transcript	KNOWN	None	44463	None	None	111825971	111828738	1	None	None
1	None	ENSG00000235804	ENST00000416486	processed_pseudogene	KNOWN	None	None	None	None	65543096	65543814	-1	None	None
18	OSBPL1A	ENSG00000141447	ENST00000319481	protein_coding	KNOWN	CCDS11884	16398	2853	950	21742008	21977823	-1	OSBPL1B	ORP-1, ORP1
18	OSBPL1A	ENSG00000141447	ENST00000399443	protein_coding	KNOWN	CCDS11885	16398	1314	437	21742009	21852196	-1	OSBPL1B	ORP-1, ORP1
18	OSBPL1A	ENSG00000141447	ENST00000357041	protein_coding	KNOWN	CCDS56056	16398	1707	568	21743098	21891480	-1	OSBPL1B	ORP-1, ORP1
18	OSBPL1A	ENSG00000141447	ENST00000578013	protein_coding	PUTATIVE	None	16398	858	285	21743121	21759799	-1	OSBPL1B	ORP-1, ORP1
18	OSBPL1A	ENSG00000141447	ENST00000578055	nonsense_mediated_decay	KNOWN	None	16398	147	48	21751444	21851649	-1	OSBPL1B	ORP-1, ORP1
18	OSBPL1A	ENSG00000141447	ENST00000585247	retained_intron	KNOWN	None	16398	None	None	21775999	21851575	-1	OSBPL1B	ORP-1, ORP1
18	OSBPL1A	ENSG00000141447	ENST00000584119	nonsense_mediated_decay	KNOWN	None	16398	126	41	21805031	21891486	-1	OSBPL1B	ORP-1, ORP1
18	OSBPL1A	ENSG00000141447	ENST00000581043	processed_transcript	KNOWN	None	16398	None	None	21860806	21891496	-1	OSBPL1B	ORP-1, ORP1
18	OSBPL1A	ENSG00000141447	ENST00000579851	nonsense_mediated_decay	KNOWN	None	16398	150	49	21860806	21977787	-1	OSBPL1B	ORP-1, ORP1
18	OSBPL1A	ENSG00000141447	ENST00000578091	nonsense_mediated_decay	KNOWN	None	16398	156	51	21860806	21977844	-1	OSBPL1B	ORP-1, ORP1
18	OSBPL1A	ENSG00000141447	ENST00000582645	nonsense_mediated_decay	KNOWN	None	16398	156	51	21898720	21977819	-1	OSBPL1B	ORP-1, ORP1
18	OSBPL1A	ENSG00000141447	ENST00000579764	processed_transcript	KNOWN	None	16398	None	None	21927622	21977752	-1	OSBPL1B	ORP-1, ORP1
18	OSBPL1A	ENSG00000141447	ENST00000582350	processed_transcript	KNOWN	None	16398	None	None	21927629	21977748	-1	OSBPL1B	ORP-1, ORP1
18	OSBPL1A	ENSG00000141447	ENST00000399441	protein_coding	PUTATIVE	None	16398	303	100	21937089	21977752	-1	OSBPL1B	ORP-1, ORP1
18	OSBPL1A	ENSG00000141447	ENST00000582618	processed_transcript	KNOWN	None	16398	None	None	21946369	21977805	-1	OSBPL1B	ORP-1, ORP1
18	OSBPL1A	ENSG00000141447	ENST00000581343	retained_intron	KNOWN	None	16398	None	None	21947898	21957502	-1	OSBPL1B	ORP-1, ORP1
11	GVINP2	ENSG00000254781	ENST00000533934	processed_pseudogene	KNOWN	None	38876	None	None	6769362	6771555	1	None	None
19	None	ENSG00000267234	ENST00000592929	antisense	KNOWN	None	None	None	None	19512788	19513412	-1	None	None
1	None	ENSG00000225755	ENST00000450164	processed_pseudogene	KNOWN	None	None	None	None	163207004	163208987	1	None	None
19	MIR641	ENSG00000207631	ENST00000384899	miRNA	KNOWN	None	32897	None	None	40788450	40788548	-1	MIRN641	hsa-mir-641
14	RN7SKP92	ENSG00000253075	ENST00000517266	misc_RNA	KNOWN	None	45816	None	None	100953881	100954124	1	None	None
X	SLC25A5	ENSG00000005022	ENST00000317881	protein_coding	KNOWN	CCDS14578	10991	897	298	118602363	118605282	1	ANT2	T2, 2F1, T3
X	SLC25A5	ENSG00000005022	ENST00000475354	processed_transcript	PUTATIVE	None	10991	None	None	118602385	118604118	1	ANT2	T2, 2F1, T3
X	SLC25A5	ENSG00000005022	ENST00000460013	processed_transcript	KNOWN	None	10991	None	None	118603240	118604903	1	ANT2	T2, 2F1, T3
X	SLC25A5	ENSG00000005022	ENST00000463551	processed_transcript	PUTATIVE	None	10991	None	None	118604225	118605044	1	ANT2	T2, 2F1, T3
20	CST2	ENSG00000170369	ENST00000304725	protein_coding	KNOWN	CCDS13161	2474	426	141	23804406	23807368	-1	None	None
7	C7orf50	ENSG00000146540	ENST00000357429	protein_coding	KNOWN	CCDS5320	22421	585	194	1036622	1177893	-1	None	MGC11257, YCR016W
7	C7orf50	ENSG00000146540	ENST00000397098	protein_coding	KNOWN	CCDS5320	22421	585	194	1036642	1177876	-1	None	MGC11257, YCR016W
7	C7orf50	ENSG00000146540	ENST00000412051	protein_coding	PUTATIVE	None	22421	538	178	1036652	1067975	-1	None	MGC11257, YCR016W
7	C7orf50	ENSG00000146540	ENST00000488073	processed_transcript	KNOWN	None	22421	None	None	1037130	1167024	-1	None	MGC11257, YCR016W
7	C7orf50	ENSG00000146540	ENST00000444428	protein_coding	PUTATIVE	None	22421	489	162	1037243	1094942	-1	None	MGC11257, YCR016W
7	C7orf50	ENSG00000146540	ENST00000491163	protein_coding	KNOWN	None	22421	577	191	1037269	1177896	-1	None	MGC11257, YCR016W
7	C7orf50	ENSG00000146540	ENST00000465681	retained_intron	KNOWN	None	22421	None	None	1064138	1067988	-1	None	MGC11257, YCR016W
7	C7orf50	ENSG00000146540	ENST00000397100	protein_coding	KNOWN	CCDS5320	22421	585	194	1036623	1177893	-1	None	MGC11257, YCR016W
19	RNU6-945P	ENSG00000206674	ENST00000383947	snRNA	KNOWN	None	47908	None	None	40805385	40805491	-1	None	None
19	MIR640	ENSG00000207821	ENST00000385086	miRNA	KNOWN	None	32896	None	None	19545872	19545967	1	MIRN640	hsa-mir-640
11	None	ENSG00000254712	ENST00000530632	processed_pseudogene	KNOWN	None	None	None	None	6864895	6865897	-1	None	None
6	None	ENSG00000235099	ENST00000452624	lincRNA	KNOWN	None	None	None	None	93780105	93813102	1	None	None
HG1032_PATCH	DUX4L2	ENSG00000261201	ENST00000562745	protein_coding	NOVEL	None	37267	1275	424	191012160	191013670	1	None	None
HG1032_PATCH	DUX4L2	ENSG00000261201	ENST00000563736	protein_coding	PUTATIVE	None	37267	492	163	191012160	191013719	1	None	None
19	None	ENSG00000207281	ENST00000384551	misc_RNA	NOVEL	None	None	None	None	40844966	40845071	-1	None	None
1	None	ENSG00000226226	ENST00000457142	processed_pseudogene	KNOWN	None	None	None	None	220641296	220642150	1	None	None
18	TGIF1	ENSG00000177426	ENST00000552383	protein_coding	KNOWN	None	11776	503	166	3411606	3457682	1	HPE4, TGIF	None
18	TGIF1	ENSG00000177426	ENST00000547233	retained_intron	KNOWN	None	11776	None	None	3412202	3418844	1	HPE4, TGIF	None
18	TGIF1	ENSG00000177426	ENST00000550958	protein_coding	KNOWN	None	11776	393	130	3412852	3457572	1	HPE4, TGIF	None
18	TGIF1	ENSG00000177426	ENST00000548489	protein_coding	KNOWN	CCDS11832	11776	861	286	3447607	3458408	1	HPE4, TGIF	None
18	TGIF1	ENSG00000177426	ENST00000549780	protein_coding	KNOWN	None	11776	658	218	3448497	3457837	1	HPE4, TGIF	None
18	TGIF1	ENSG00000177426	ENST00000549253	protein_coding	KNOWN	None	11776	275	90	3449411	3457454	1	HPE4, TGIF	None
18	TGIF1	ENSG00000177426	ENST00000551557	processed_transcript	KNOWN	None	11776	None	None	3449535	3450038	1	HPE4, TGIF	None
18	TGIF1	ENSG00000177426	ENST00000343820	protein_coding	KNOWN	CCDS11833	11776	819	272	3449702	3458388	1	HPE4, TGIF	None
18	TGIF1	ENSG00000177426	ENST00000407501	protein_coding	KNOWN	CCDS11833	11776	819	272	3449880	3458347	1	HPE4, TGIF	None
18	TGIF1	ENSG00000177426	ENST00000546979	protein_coding	KNOWN	None	11776	354	117	3450034	3457473	1	HPE4, TGIF	None
18	TGIF1	ENSG00000177426	ENST00000551402	protein_coding	PUTATIVE	None	11776	399	132	3450175	3457111	1	HPE4, TGIF	None
18	TGIF1	ENSG00000177426	ENST00000577543	protein_coding	PUTATIVE	None	11776	255	84	3450210	3457602	1	HPE4, TGIF	None
18	TGIF1	ENSG00000177426	ENST00000551541	protein_coding	KNOWN	CCDS11835	11776	759	252	3451591	3457942	1	HPE4, TGIF	None
18	TGIF1	ENSG00000177426	ENST00000345133	protein_coding	KNOWN	CCDS11835	11776	759	252	3451668	3458121	1	HPE4, TGIF	None
18	TGIF1	ENSG00000177426	ENST00000330513	protein_coding	KNOWN	CCDS11834	11776	1206	401	3451675	3458409	1	HPE4, TGIF	None
18	TGIF1	ENSG00000177426	ENST00000549546	protein_coding	KNOWN	None	11776	737	244	3451722	3457916	1	HPE4, TGIF	None
18	TGIF1	ENSG00000177426	ENST00000549468	protein_coding	KNOWN	None	11776	399	132	3453772	3457578	1	HPE4, TGIF	None
18	TGIF1	ENSG00000177426	ENST00000551333	protein_coding	KNOWN	None	11776	413	136	3455150	3457592	1	HPE4, TGIF	None
18	TGIF1	ENSG00000177426	ENST00000472042	protein_coding	KNOWN	CCDS11835	11776	759	252	3455412	3458409	1	HPE4, TGIF	None
18	TGIF1	ENSG00000177426	ENST00000401449	protein_coding	KNOWN	CCDS11835	11776	759	252	3412072	3458404	1	HPE4, TGIF	None
18	TGIF1	ENSG00000177426	ENST00000405385	protein_coding	KNOWN	CCDS11835	11776	759	252	3449973	3458404	1	HPE4, TGIF	None
18	TGIF1	ENSG00000177426	ENST00000400167	protein_coding	KNOWN	CCDS11835	11776	759	252	3453772	3458404	1	HPE4, TGIF	None
7	None	ENSG00000200629	ENST00000363759	misc_RNA	NOVEL	None	None	None	None	128804690	128804802	1	None	None
19	None	ENSG00000206925	ENST00000384198	misc_RNA	NOVEL	None	None	None	None	40848236	40848348	1	None	None
19	RPS5	ENSG00000083845	ENST00000601521	protein_coding	KNOWN	CCDS12978	10426	615	204	58897767	58906173	1	None	S5
19	RPS5	ENSG00000083845	ENST00000596314	protein_coding	KNOWN	None	10426	601	199	58897874	58906103	1	None	S5
19	RPS5	ENSG00000083845	ENST00000598098	protein_coding	NOVEL	None	10426	405	134	58898631	58906171	1	None	S5
19	RPS5	ENSG00000083845	ENST00000598495	protein_coding	NOVEL	None	10426	678	225	58898636	58906167	1	None	S5
19	RPS5	ENSG00000083845	ENST00000599909	retained_intron	KNOWN	None	10426	None	None	58898642	58899961	1	None	S5
19	RPS5	ENSG00000083845	ENST00000598807	retained_intron	KNOWN	None	10426	None	None	58898651	58905320	1	None	S5
19	RPS5	ENSG00000083845	ENST00000596046	protein_coding	KNOWN	CCDS12978	10426	615	204	58898656	58906173	1	None	S5
19	RPS5	ENSG00000083845	ENST00000599232	retained_intron	KNOWN	None	10426	None	None	58904423	58906169	1	None	S5
19	RPS5	ENSG00000083845	ENST00000196551	protein_coding	KNOWN	CCDS12978	10426	615	204	58898636	58906170	1	None	S5
11	UPK2	ENSG00000110375	ENST00000534788	processed_transcript	KNOWN	None	12579	None	None	118795873	118829264	1	None	UP2, UPII, MGC138598
11	UPK2	ENSG00000110375	ENST00000264031	protein_coding	KNOWN	CCDS8404	12579	555	184	118827026	118829269	1	None	UP2, UPII, MGC138598
19	PHF5CP	ENSG00000267178	ENST00000591298	processed_pseudogene	KNOWN	None	32385	None	None	19698899	19699223	-1	PHF5AP1	None
6	COPS5P1	ENSG00000213187	ENST00000415778	processed_pseudogene	KNOWN	None	24332	None	None	93801694	93802478	-1	COPS5P	None
3	RNF10P1	ENSG00000230182	ENST00000418589	processed_pseudogene	KNOWN	None	44472	None	None	5110361	5110729	-1	None	None
6	SRF	ENSG00000112658	ENST00000265354	protein_coding	KNOWN	CCDS4889	11291	1527	508	43139037	43149243	1	None	MCM1
6	SRF	ENSG00000112658	ENST00000457278	protein_coding	KNOWN	None	11291	915	304	43140128	43147164	1	None	MCM1
20	ASXL1	ENSG00000171456	ENST00000375687	protein_coding	KNOWN	CCDS13201	18318	4626	1541	30946155	31027122	1	None	KIAA0978
20	ASXL1	ENSG00000171456	ENST00000497249	protein_coding	KNOWN	None	18318	223	73	30946614	30960033	1	None	KIAA0978
20	ASXL1	ENSG00000171456	ENST00000375689	protein_coding	PUTATIVE	None	18318	246	81	30947368	30960356	1	None	KIAA0978
20	ASXL1	ENSG00000171456	ENST00000555343	processed_transcript	KNOWN	None	18318	None	None	30947820	30960041	1	None	KIAA0978
20	ASXL1	ENSG00000171456	ENST00000470145	processed_transcript	KNOWN	None	18318	None	None	30954187	31017723	1	None	KIAA0978
20	ASXL1	ENSG00000171456	ENST00000553345	protein_coding	PUTATIVE	None	18318	528	175	31018665	31021213	1	None	KIAA0978
20	ASXL1	ENSG00000171456	ENST00000555564	retained_intron	KNOWN	None	18318	None	None	31018820	31020775	1	None	KIAA0978
20	ASXL1	ENSG00000171456	ENST00000542461	protein_coding	KNOWN	None	18318	255	84	30946162	31016226	1	None	KIAA0978
20	ASXL1	ENSG00000171456	ENST00000306058	protein_coding	KNOWN	None	18318	4611	1536	30947550	31027121	1	None	KIAA0978
19	None	ENSG00000268366	ENST00000599050	antisense	KNOWN	None	None	None	None	40949343	40949994	1	None	None
2	RETSAT	ENSG00000042445	ENST00000429806	nonsense_mediated_decay	KNOWN	None	25991	961	319	85569211	85578014	-1	None	FLJ20296
2	RETSAT	ENSG00000042445	ENST00000295802	protein_coding	KNOWN	CCDS1972	25991	1833	610	85569211	85581743	-1	None	FLJ20296
2	RETSAT	ENSG00000042445	ENST00000449375	protein_coding	NOVEL	None	25991	1199	398	85569805	85581623	-1	None	FLJ20296
2	RETSAT	ENSG00000042445	ENST00000438611	nonsense_mediated_decay	KNOWN	None	25991	421	139	85570094	85576604	-1	None	FLJ20296
2	RETSAT	ENSG00000042445	ENST00000475624	processed_transcript	KNOWN	None	25991	None	None	85570816	85573476	-1	None	FLJ20296
2	RETSAT	ENSG00000042445	ENST00000409984	protein_coding	NOVEL	None	25991	765	254	85576555	85581629	-1	None	FLJ20296
2	RETSAT	ENSG00000042445	ENST00000482694	processed_transcript	PUTATIVE	None	25991	None	None	85577001	85578139	-1	None	FLJ20296
2	RETSAT	ENSG00000042445	ENST00000490291	retained_intron	KNOWN	None	25991	None	None	85578522	85581654	-1	None	FLJ20296
2	RETSAT	ENSG00000042445	ENST00000457495	protein_coding	KNOWN	None	25991	1650	549	85570234	85581651	-1	None	FLJ20296
2	RETSAT	ENSG00000042445	ENST00000263854	protein_coding	KNOWN	None	25991	1446	481	85569222	85581655	-1	None	FLJ20296
9	FBP1	ENSG00000165140	ENST00000375326	protein_coding	KNOWN	CCDS6712	3606	1017	338	97365415	97401789	-1	FBP	None
9	FBP1	ENSG00000165140	ENST00000414122	protein_coding	KNOWN	None	3606	453	150	97369097	97402419	-1	FBP	None
9	FBP1	ENSG00000165140	ENST00000415431	protein_coding	KNOWN	CCDS6712	3606	1017	338	97365423	97402531	-1	FBP	None
5	RNU6-374P	ENSG00000201016	ENST00000364146	snRNA	KNOWN	None	47337	None	None	25701326	25701433	-1	None	None
7	SLC16A1P1	ENSG00000242280	ENST00000486743	processed_pseudogene	KNOWN	None	48931	None	None	143682235	143683744	1	None	None
9	GRIN3A	ENSG00000198785	ENST00000361820	protein_coding	KNOWN	CCDS6758	16767	3348	1115	104331635	104500862	-1	None	GluN3A
9	GRIN3A	ENSG00000198785	ENST00000479772	processed_transcript	KNOWN	None	16767	None	None	104363131	104375804	-1	None	GluN3A
11	None	ENSG00000255179	ENST00000534653	lincRNA	KNOWN	None	None	None	None	7244164	7252094	1	None	None
2	GTF3C2	ENSG00000115207	ENST00000359541	protein_coding	KNOWN	CCDS1749	4665	2736	911	27548716	27579359	-1	None	KIAA0011, TFIIIC110
2	GTF3C2	ENSG00000115207	ENST00000457098	protein_coding	PUTATIVE	None	4665	427	141	27548721	27551717	-1	None	KIAA0011, TFIIIC110
2	GTF3C2	ENSG00000115207	ENST00000431028	protein_coding	PUTATIVE	None	4665	239	78	27549160	27550956	-1	None	KIAA0011, TFIIIC110
2	GTF3C2	ENSG00000115207	ENST00000495298	retained_intron	KNOWN	None	4665	None	None	27549259	27551357	-1	None	KIAA0011, TFIIIC110
2	GTF3C2	ENSG00000115207	ENST00000454704	protein_coding	PUTATIVE	None	4665	1262	419	27549364	27558295	-1	None	KIAA0011, TFIIIC110
2	GTF3C2	ENSG00000115207	ENST00000415683	nonsense_mediated_decay	KNOWN	None	4665	545	180	27550049	27552327	-1	None	KIAA0011, TFIIIC110
2	GTF3C2	ENSG00000115207	ENST00000484680	retained_intron	KNOWN	None	4665	None	None	27551188	27551798	-1	None	KIAA0011, TFIIIC110
2	GTF3C2	ENSG00000115207	ENST00000470115	retained_intron	KNOWN	None	4665	None	None	27558495	27560175	-1	None	KIAA0011, TFIIIC110
2	GTF3C2	ENSG00000115207	ENST00000493511	retained_intron	KNOWN	None	4665	None	None	27558803	27559634	-1	None	KIAA0011, TFIIIC110
2	GTF3C2	ENSG00000115207	ENST00000480989	retained_intron	KNOWN	None	4665	None	None	27559200	27561126	-1	None	KIAA0011, TFIIIC110
2	GTF3C2	ENSG00000115207	ENST00000457748	protein_coding	KNOWN	None	4665	404	133	27565858	27579634	-1	None	KIAA0011, TFIIIC110
2	GTF3C2	ENSG00000115207	ENST00000423998	protein_coding	KNOWN	None	4665	224	73	27566198	27579866	-1	None	KIAA0011, TFIIIC110
2	GTF3C2	ENSG00000115207	ENST00000264720	protein_coding	KNOWN	CCDS1749	4665	2736	911	27548723	27579868	-1	None	KIAA0011, TFIIIC110
10	NEURL	ENSG00000107954	ENST00000369780	protein_coding	KNOWN	CCDS7551	7761	1725	574	105253736	105352309	1	None	h-neu, RNF67, NEURL1, neu-1
10	NEURL	ENSG00000107954	ENST00000437579	protein_coding	KNOWN	None	7761	598	198	105314989	105331579	1	None	h-neu, RNF67, NEURL1, neu-1
10	NEURL	ENSG00000107954	ENST00000455386	protein_coding	KNOWN	None	7761	324	107	105317842	105331479	1	None	h-neu, RNF67, NEURL1, neu-1
10	NEURL	ENSG00000107954	ENST00000465048	processed_transcript	KNOWN	None	7761	None	None	105331434	105337659	1	None	h-neu, RNF67, NEURL1, neu-1
10	NEURL	ENSG00000107954	ENST00000369777	protein_coding	KNOWN	None	7761	1674	557	105315137	105352309	1	None	h-neu, RNF67, NEURL1, neu-1
1	None	ENSG00000232995	ENST00000451759	antisense	KNOWN	None	None	None	None	163214295	163278367	-1	None	None
1	None	ENSG00000232995	ENST00000449680	antisense	KNOWN	None	None	None	None	163218065	163291582	-1	None	None
1	None	ENSG00000232995	ENST00000427213	antisense	KNOWN	None	None	None	None	163218109	163291542	-1	None	None
1	None	ENSG00000232995	ENST00000429865	antisense	KNOWN	None	None	None	None	163270186	163291684	-1	None	None
1	None	ENSG00000232995	ENST00000528019	antisense	KNOWN	None	None	None	None	163270348	163291494	-1	None	None
1	None	ENSG00000232995	ENST00000528689	antisense	KNOWN	None	None	None	None	163270453	163291542	-1	None	None
1	None	ENSG00000232995	ENST00000439699	antisense	KNOWN	None	None	None	None	163274001	163291542	-1	None	None
1	None	ENSG00000232995	ENST00000528818	retained_intron	KNOWN	None	None	None	None	163288628	163291531	-1	None	None
1	None	ENSG00000232995	ENST00000526176	antisense	KNOWN	None	None	None	None	163289017	163291564	-1	None	None
HSCHR6_MHC_DBB	GPANK1	ENSG00000233210	ENST00000419261	protein_coding	KNOWN	None	13920	1071	356	31611188	31616243	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_DBB	GPANK1	ENSG00000233210	ENST00000430994	protein_coding	KNOWN	None	13920	1071	356	31612035	31615349	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_DBB	GPANK1	ENSG00000233210	ENST00000419139	protein_coding	KNOWN	None	13920	1071	356	31612035	31615589	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_DBB	GPANK1	ENSG00000233210	ENST00000423886	protein_coding	KNOWN	None	13920	1071	356	31612035	31615809	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_DBB	GPANK1	ENSG00000233210	ENST00000426206	protein_coding	KNOWN	None	13920	1071	356	31612035	31615820	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_DBB	GPANK1	ENSG00000233210	ENST00000446315	protein_coding	KNOWN	None	13920	596	197	31613842	31615756	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_DBB	GPANK1	ENSG00000233210	ENST00000420352	protein_coding	KNOWN	None	13920	494	163	31613944	31615401	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_DBB	GPANK1	ENSG00000233210	ENST00000458699	protein_coding	KNOWN	None	13920	456	151	31613982	31615149	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_DBB	GPANK1	ENSG00000233210	ENST00000453239	protein_coding	KNOWN	None	13920	321	106	31614117	31615793	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_DBB	GPANK1	ENSG00000233210	ENST00000443202	protein_coding	KNOWN	None	13920	269	88	31614169	31615144	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
1	MRPS21P1	ENSG00000234496	ENST00000453850	processed_pseudogene	KNOWN	None	29748	None	None	65558075	65558297	-1	None	None
5	CDC20B	ENSG00000164287	ENST00000296733	protein_coding	KNOWN	CCDS3966	24222	1548	515	54408823	54469003	-1	None	FLJ37927
5	CDC20B	ENSG00000164287	ENST00000381375	protein_coding	NOVEL	CCDS54852	24222	1560	519	54409161	54468974	-1	None	FLJ37927
5	CDC20B	ENSG00000164287	ENST00000322374	protein_coding	KNOWN	CCDS47207	24222	1434	477	54409976	54469003	-1	None	FLJ37927
5	CDC20B	ENSG00000164287	ENST00000513180	nonsense_mediated_decay	KNOWN	None	24222	1119	372	54415641	54468843	-1	None	FLJ37927
5	CDC20B	ENSG00000164287	ENST00000507931	nonsense_mediated_decay	KNOWN	None	24222	579	192	54431585	54468989	-1	None	FLJ37927
5	CDC20B	ENSG00000164287	ENST00000334206	protein_coding	KNOWN	None	24222	1119	372	54408799	54469005	-1	None	FLJ37927
5	CDC20B	ENSG00000164287	ENST00000331730	protein_coding	KNOWN	None	24222	579	192	54433403	54469005	-1	None	FLJ37927
1	None	ENSG00000231529	ENST00000446169	lincRNA	KNOWN	None	None	None	None	220658446	220660385	-1	None	None
7	None	ENSG00000240685	ENST00000498745	processed_transcript	KNOWN	None	None	None	None	128808053	128809538	1	None	None
5	PCDHGC5	ENSG00000240764	ENST00000252087	protein_coding	KNOWN	CCDS4263	8718	2835	944	140868808	140892546	1	None	PCDH-GAMMA-C5
6	None	ENSG00000252249	ENST00000516440	snoRNA	NOVEL	None	None	None	None	94588824	94588947	1	None	None
1	None	ENSG00000231622	ENST00000439662	processed_pseudogene	KNOWN	None	None	None	None	65620163	65620333	1	None	None
HSCHR17_1	None	ENSG00000258003	ENST00000552373	protein_coding	NOVEL	None	None	378	125	44835770	44898747	-1	None	None
HSCHR17_1	None	ENSG00000258003	ENST00000551700	protein_coding	NOVEL	None	None	612	203	44835770	44898747	-1	None	None
HSCHR17_1	None	ENSG00000258003	ENST00000550982	protein_coding	NOVEL	None	None	393	130	44836160	44876710	-1	None	None
3	None	ENSG00000228205	ENST00000433853	processed_pseudogene	KNOWN	None	None	None	None	183867492	183868223	1	None	None
1	RN7SL464P	ENSG00000243872	ENST00000492743	misc_RNA	KNOWN	None	46480	None	None	220745085	220745377	-1	None	None
7	None	ENSG00000236453	ENST00000415536	lincRNA	KNOWN	None	None	None	None	93652145	93694035	1	None	None
7	None	ENSG00000236453	ENST00000438538	lincRNA	KNOWN	None	None	None	None	93690453	93695973	1	None	None
2	SOS1	ENSG00000115904	ENST00000426016	protein_coding	KNOWN	CCDS1802	11187	4002	1333	39208537	39348192	-1	GINGF	HGF, GF1
2	SOS1	ENSG00000115904	ENST00000395038	protein_coding	NOVEL	None	11187	3957	1318	39212827	39347591	-1	GINGF	HGF, GF1
2	SOS1	ENSG00000115904	ENST00000469581	retained_intron	KNOWN	None	11187	None	None	39213187	39214866	-1	GINGF	HGF, GF1
2	SOS1	ENSG00000115904	ENST00000474390	retained_intron	KNOWN	None	11187	None	None	39224482	39234640	-1	GINGF	HGF, GF1
2	SOS1	ENSG00000115904	ENST00000472480	processed_transcript	PUTATIVE	None	11187	None	None	39250017	39250964	-1	GINGF	HGF, GF1
2	SOS1	ENSG00000115904	ENST00000461545	retained_intron	KNOWN	None	11187	None	None	39251262	39278498	-1	GINGF	HGF, GF1
2	SOS1	ENSG00000115904	ENST00000451331	protein_coding	PUTATIVE	None	11187	308	101	39283874	39351486	-1	GINGF	HGF, GF1
2	SOS1	ENSG00000115904	ENST00000402219	protein_coding	KNOWN	CCDS1802	11187	4002	1333	39208694	39347604	-1	GINGF	HGF, GF1
2	SOS1	ENSG00000115904	ENST00000428721	protein_coding	KNOWN	None	11187	945	314	39250287	39351486	-1	GINGF	HGF, GF1
6	None	ENSG00000229600	ENST00000424678	lincRNA	KNOWN	None	None	None	None	94596618	94599128	1	None	None
12	ANHX	ENSG00000227059	ENST00000545940	protein_coding	PUTATIVE	CCDS53855	40024	1140	379	133794898	133812681	-1	None	None
12	ANHX	ENSG00000227059	ENST00000419717	protein_coding	KNOWN	CCDS53855	40024	1140	379	133794898	133812414	-1	None	None
1	None	ENSG00000229294	ENST00000435739	antisense	KNOWN	None	None	None	None	65745139	65772204	-1	None	None
16	NFATC2IP	ENSG00000176953	ENST00000564978	protein_coding	PUTATIVE	None	25906	423	140	28962128	28977019	1	None	FLJ14639, NIP45, RAD60, ESC2
16	NFATC2IP	ENSG00000176953	ENST00000320805	protein_coding	KNOWN	CCDS10645	25906	1260	419	28962258	28978418	1	None	FLJ14639, NIP45, RAD60, ESC2
16	NFATC2IP	ENSG00000176953	ENST00000565919	retained_intron	KNOWN	None	25906	None	None	28962309	28963964	1	None	FLJ14639, NIP45, RAD60, ESC2
16	NFATC2IP	ENSG00000176953	ENST00000565752	retained_intron	KNOWN	None	25906	None	None	28962328	28963883	1	None	FLJ14639, NIP45, RAD60, ESC2
16	NFATC2IP	ENSG00000176953	ENST00000562977	processed_transcript	KNOWN	None	25906	None	None	28962328	28970339	1	None	FLJ14639, NIP45, RAD60, ESC2
16	NFATC2IP	ENSG00000176953	ENST00000568998	retained_intron	KNOWN	None	25906	None	None	28965927	28968033	1	None	FLJ14639, NIP45, RAD60, ESC2
16	NFATC2IP	ENSG00000176953	ENST00000568148	protein_coding	KNOWN	None	25906	384	127	28969711	28975600	1	None	FLJ14639, NIP45, RAD60, ESC2
19	ZNF625	ENSG00000257591	ENST00000414892	protein_coding	PUTATIVE	None	30571	315	104	12252905	12258617	-1	None	None
19	ZNF625	ENSG00000257591	ENST00000455799	protein_coding	PUTATIVE	None	30571	186	61	12255705	12267529	-1	None	None
19	ZNF625	ENSG00000257591	ENST00000439556	protein_coding	KNOWN	CCDS12269	30571	1119	372	12256080	12267544	-1	None	None
19	ZNF625	ENSG00000257591	ENST00000542938	protein_coding	KNOWN	None	30571	921	306	12251032	12267546	-1	None	None
19	ZNF625	ENSG00000257591	ENST00000355738	protein_coding	KNOWN	None	30571	921	306	12255711	12267529	-1	None	None
1	HDAC1P2	ENSG00000233012	ENST00000453661	transcribed_processed_pseudogene	KNOWN	None	45191	None	None	220799082	220800790	1	None	None
1	HDAC1P2	ENSG00000233012	ENST00000602936	processed_transcript	KNOWN	None	45191	None	None	220800592	220801398	1	None	None
6	None	ENSG00000231143	ENST00000424506	lincRNA	KNOWN	None	None	None	None	94873638	94904376	1	None	None
2	SH3RF3	ENSG00000172985	ENST00000418513	protein_coding	KNOWN	None	24699	2148	715	109745804	110065945	1	SH3MD4	FLJ00204, POSH2
2	SH3RF3	ENSG00000172985	ENST00000444352	protein_coding	KNOWN	None	24699	169	55	110259080	110262207	1	SH3MD4	FLJ00204, POSH2
2	SH3RF3	ENSG00000172985	ENST00000309415	protein_coding	KNOWN	None	24699	2649	882	109745997	110259248	1	SH3MD4	FLJ00204, POSH2
2	MTATP8P2	ENSG00000229604	ENST00000435212	processed_pseudogene	KNOWN	None	44572	None	None	88124461	88124662	1	None	None
3	UBTFL8	ENSG00000224082	ENST00000426903	unprocessed_pseudogene	KNOWN	None	44476	None	None	5121897	5126114	-1	None	None
6	None	ENSG00000220370	ENST00000404458	processed_pseudogene	KNOWN	None	None	None	None	95054455	95054680	1	None	None
2	None	ENSG00000225428	ENST00000423198	processed_pseudogene	KNOWN	None	None	None	None	88268128	88268490	1	None	None
7	None	ENSG00000236938	ENST00000411946	lincRNA	KNOWN	None	None	None	None	93701071	93706469	-1	None	None
1	None	ENSG00000234144	ENST00000428703	processed_pseudogene	KNOWN	None	None	None	None	65764438	65764663	-1	None	None
7	KIAA1147	ENSG00000257093	ENST00000536163	protein_coding	KNOWN	CCDS47726	29472	1368	455	141356528	141401953	-1	None	LCHN
7	KIAA1147	ENSG00000257093	ENST00000482493	protein_coding	PUTATIVE	None	29472	1056	351	141361730	141401415	-1	None	LCHN
6	None	ENSG00000270484	ENST00000605309	processed_pseudogene	KNOWN	None	None	None	None	95151748	95153527	-1	None	None
6	ENPP3	ENSG00000154269	ENST00000427707	nonsense_mediated_decay	KNOWN	None	3358	162	53	131949582	131997937	1	PDNP3	PD-IBETA, gp130RB13-6, B10, CD203c
6	ENPP3	ENSG00000154269	ENST00000414305	protein_coding	KNOWN	CCDS5148	3358	2628	875	131949601	132068553	1	PDNP3	PD-IBETA, gp130RB13-6, B10, CD203c
6	ENPP3	ENSG00000154269	ENST00000423831	nonsense_mediated_decay	KNOWN	None	3358	162	53	131958444	131973791	1	PDNP3	PD-IBETA, gp130RB13-6, B10, CD203c
6	ENPP3	ENSG00000154269	ENST00000470930	processed_transcript	KNOWN	None	3358	None	None	131962595	131995348	1	PDNP3	PD-IBETA, gp130RB13-6, B10, CD203c
6	ENPP3	ENSG00000154269	ENST00000494023	retained_intron	KNOWN	None	3358	None	None	131973997	131996518	1	PDNP3	PD-IBETA, gp130RB13-6, B10, CD203c
6	ENPP3	ENSG00000154269	ENST00000357639	protein_coding	KNOWN	CCDS5148	3358	2628	875	131958442	132068539	1	PDNP3	PD-IBETA, gp130RB13-6, B10, CD203c
6	ENPP3	ENSG00000154269	ENST00000358229	protein_coding	KNOWN	None	3358	1992	663	131958525	132068096	1	PDNP3	PD-IBETA, gp130RB13-6, B10, CD203c
6	ENPP3	ENSG00000154269	ENST00000543135	protein_coding	KNOWN	None	3358	774	257	131958442	131996660	1	PDNP3	PD-IBETA, gp130RB13-6, B10, CD203c
6	ENPP3	ENSG00000154269	ENST00000427148	protein_coding	KNOWN	None	3358	765	254	131958442	132004244	1	PDNP3	PD-IBETA, gp130RB13-6, B10, CD203c
18	WBP2P1	ENSG00000229248	ENST00000427605	processed_pseudogene	KNOWN	None	31695	None	None	22596398	22597168	-1	None	None
7	RNU6-1328P	ENSG00000222870	ENST00000410938	snRNA	KNOWN	None	48291	None	None	94124611	94124716	1	None	None
6	None	ENSG00000216853	ENST00000404146	processed_pseudogene	KNOWN	None	None	None	None	95156458	95156897	-1	None	None
7	RHBDD2	ENSG00000005486	ENST00000466232	processed_transcript	PUTATIVE	None	23082	None	None	75471920	75511442	1	RHBDL7	NPD007
7	RHBDD2	ENSG00000005486	ENST00000468644	processed_transcript	PUTATIVE	None	23082	None	None	75507409	75511483	1	RHBDL7	NPD007
7	RHBDD2	ENSG00000005486	ENST00000006777	protein_coding	KNOWN	CCDS43602	23082	1095	364	75508266	75518239	1	RHBDL7	NPD007
7	RHBDD2	ENSG00000005486	ENST00000454791	nonsense_mediated_decay	KNOWN	None	23082	240	79	75508322	75518202	1	RHBDL7	NPD007
7	RHBDD2	ENSG00000005486	ENST00000476218	processed_transcript	PUTATIVE	None	23082	None	None	75508458	75509623	1	RHBDL7	NPD007
7	RHBDD2	ENSG00000005486	ENST00000468304	processed_transcript	PUTATIVE	None	23082	None	None	75508490	75517901	1	RHBDL7	NPD007
7	RHBDD2	ENSG00000005486	ENST00000428119	protein_coding	KNOWN	CCDS43603	23082	672	223	75511362	75518239	1	RHBDL7	NPD007
7	RHBDD2	ENSG00000005486	ENST00000467406	processed_transcript	PUTATIVE	None	23082	None	None	75512808	75517586	1	RHBDL7	NPD007
7	RHBDD2	ENSG00000005486	ENST00000318622	protein_coding	KNOWN	CCDS43603	23082	672	223	75508317	75518244	1	RHBDL7	NPD007
2	None	ENSG00000233205	ENST00000431142	processed_pseudogene	KNOWN	None	None	None	None	88272175	88272601	1	None	None
1	RNU2-15P	ENSG00000222624	ENST00000410692	snRNA	KNOWN	None	48508	None	None	65881499	65881689	1	None	None
1	ACTL8	ENSG00000117148	ENST00000375406	protein_coding	KNOWN	CCDS183	24018	1101	366	18081808	18153558	1	None	CT57
7	RPS3AP25	ENSG00000232385	ENST00000411660	processed_pseudogene	KNOWN	None	36801	None	None	94324339	94325131	-1	None	None
6	None	ENSG00000219627	ENST00000407870	processed_pseudogene	KNOWN	None	None	None	None	95952058	95952372	1	None	None
HSCHR6_MHC_COX	FLOT1	ENSG00000232280	ENST00000491057	retained_intron	KNOWN	None	3757	None	None	30685348	30698495	-1	None	None
HSCHR6_MHC_COX	FLOT1	ENSG00000232280	ENST00000436822	protein_coding	KNOWN	None	3757	1284	427	30685348	30700375	-1	None	None
HSCHR6_MHC_COX	FLOT1	ENSG00000232280	ENST00000445669	protein_coding	KNOWN	None	3757	716	237	30688559	30699949	-1	None	None
HSCHR6_MHC_COX	FLOT1	ENSG00000232280	ENST00000482522	retained_intron	KNOWN	None	3757	None	None	30688631	30698436	-1	None	None
HSCHR6_MHC_COX	FLOT1	ENSG00000232280	ENST00000431913	protein_coding	KNOWN	None	3757	757	251	30688707	30700142	-1	None	None
HSCHR6_MHC_COX	FLOT1	ENSG00000232280	ENST00000492441	processed_transcript	KNOWN	None	3757	None	None	30697800	30700374	-1	None	None
HSCHR6_MHC_COX	FLOT1	ENSG00000232280	ENST00000411778	protein_coding	KNOWN	None	3757	435	144	30697803	30699999	-1	None	None
HSCHR6_MHC_COX	FLOT1	ENSG00000232280	ENST00000436197	protein_coding	KNOWN	None	3757	705	234	30697818	30699918	-1	None	None
HSCHR6_MHC_COX	FLOT1	ENSG00000232280	ENST00000480605	retained_intron	KNOWN	None	3757	None	None	30697896	30700348	-1	None	None
HSCHR6_MHC_COX	FLOT1	ENSG00000232280	ENST00000445319	protein_coding	KNOWN	None	3757	578	191	30697897	30699845	-1	None	None
HSCHR6_MHC_COX	FLOT1	ENSG00000232280	ENST00000456844	protein_coding	KNOWN	None	3757	557	184	30698151	30700166	-1	None	None
HSCHR6_MHC_COX	FLOT1	ENSG00000232280	ENST00000472990	retained_intron	KNOWN	None	3757	None	None	30698996	30700319	-1	None	None
13	STARD13-AS	ENSG00000236581	ENST00000590747	antisense	KNOWN	None	40873	None	None	33851690	33854134	1	STARD13-AS2	None
13	STARD13-AS	ENSG00000236581	ENST00000585861	antisense	KNOWN	None	40873	None	None	33851690	33854166	1	STARD13-AS2	None
13	STARD13-AS	ENSG00000236581	ENST00000589800	antisense	KNOWN	None	40873	None	None	33851690	33854192	1	STARD13-AS2	None
13	STARD13-AS	ENSG00000236581	ENST00000586727	antisense	KNOWN	None	40873	None	None	33851690	33854419	1	STARD13-AS2	None
13	STARD13-AS	ENSG00000236581	ENST00000589816	antisense	KNOWN	None	40873	None	None	33851690	33855215	1	STARD13-AS2	None
13	STARD13-AS	ENSG00000236581	ENST00000587441	antisense	KNOWN	None	40873	None	None	33851690	33855355	1	STARD13-AS2	None
13	STARD13-AS	ENSG00000236581	ENST00000590997	antisense	KNOWN	None	40873	None	None	33851690	33855419	1	STARD13-AS2	None
13	STARD13-AS	ENSG00000236581	ENST00000588966	antisense	KNOWN	None	40873	None	None	33851690	33855431	1	STARD13-AS2	None
13	STARD13-AS	ENSG00000236581	ENST00000590003	antisense	KNOWN	None	40873	None	None	33851690	33855459	1	STARD13-AS2	None
13	STARD13-AS	ENSG00000236581	ENST00000586424	antisense	KNOWN	None	40873	None	None	33851690	33855459	1	STARD13-AS2	None
13	STARD13-AS	ENSG00000236581	ENST00000591781	antisense	KNOWN	None	40873	None	None	33851690	33855459	1	STARD13-AS2	None
13	STARD13-AS	ENSG00000236581	ENST00000589472	antisense	KNOWN	None	40873	None	None	33851690	33855459	1	STARD13-AS2	None
13	STARD13-AS	ENSG00000236581	ENST00000588660	antisense	KNOWN	None	40873	None	None	33851690	33855471	1	STARD13-AS2	None
13	STARD13-AS	ENSG00000236581	ENST00000592544	antisense	KNOWN	None	40873	None	None	33851690	33855471	1	STARD13-AS2	None
13	STARD13-AS	ENSG00000236581	ENST00000590434	antisense	KNOWN	None	40873	None	None	33851690	33855471	1	STARD13-AS2	None
13	STARD13-AS	ENSG00000236581	ENST00000589122	antisense	KNOWN	None	40873	None	None	33851690	33855471	1	STARD13-AS2	None
2	None	ENSG00000238979	ENST00000459152	snoRNA	NOVEL	None	None	None	None	88310621	88310721	-1	None	None
1	None	ENSG00000237852	ENST00000429871	sense_intronic	KNOWN	None	None	None	None	65952089	65959871	1	None	None
1	None	ENSG00000229283	ENST00000426321	antisense	KNOWN	None	None	None	None	111860222	111866603	-1	None	None
2	RNU2-63P	ENSG00000222724	ENST00000410792	snRNA	KNOWN	None	48556	None	None	88315873	88316066	-1	None	None
7	GRM3	ENSG00000198822	ENST00000361669	protein_coding	KNOWN	CCDS5600	4595	2640	879	86273230	86494200	1	None	GPRC1C, mGlu3, MGLUR3
7	GRM3	ENSG00000198822	ENST00000454217	protein_coding	PUTATIVE	None	4595	515	170	86273850	86416007	1	None	GPRC1C, mGlu3, MGLUR3
7	GRM3	ENSG00000198822	ENST00000439827	protein_coding	PUTATIVE	None	4595	1614	537	86274158	86493738	1	None	GPRC1C, mGlu3, MGLUR3
7	GRM3	ENSG00000198822	ENST00000421579	protein_coding	KNOWN	None	4595	261	86	86274161	86394722	1	None	GPRC1C, mGlu3, MGLUR3
7	GRM3	ENSG00000198822	ENST00000441140	protein_coding	KNOWN	None	4595	244	80	86339415	86394705	1	None	GPRC1C, mGlu3, MGLUR3
7	GRM3	ENSG00000198822	ENST00000546348	protein_coding	KNOWN	None	4595	1416	471	86273706	86493917	1	None	GPRC1C, mGlu3, MGLUR3
7	GRM3	ENSG00000198822	ENST00000536043	protein_coding	KNOWN	None	4595	2256	751	86273952	86493947	1	None	GPRC1C, mGlu3, MGLUR3
7	GRM3	ENSG00000198822	ENST00000394720	protein_coding	KNOWN	None	4595	1608	535	86274158	86493738	1	None	GPRC1C, mGlu3, MGLUR3
2	MIR4780	ENSG00000265003	ENST00000584268	miRNA	KNOWN	None	41552	None	None	88382038	88382118	-1	None	hsa-mir-4780
HG998_1_PATCH	None	ENSG00000266342	ENST00000585255	lincRNA	KNOWN	None	None	None	None	139141817	139143051	-1	None	None
1	None	ENSG00000238931	ENST00000459362	snoRNA	NOVEL	None	None	None	None	66037232	66037335	1	None	None
18	None	ENSG00000265552	ENST00000578129	lincRNA	KNOWN	None	None	None	None	22635564	22636724	1	None	None
1	None	ENSG00000232240	ENST00000422272	processed_pseudogene	KNOWN	None	None	None	None	111866455	111866697	1	None	None
2	RNY4P15	ENSG00000202012	ENST00000365142	misc_RNA	KNOWN	None	34065	None	None	88529088	88529183	-1	None	None
11	None	ENSG00000254842	ENST00000533812	lincRNA	KNOWN	None	None	None	None	130714086	130735456	-1	None	None
11	None	ENSG00000254842	ENST00000533434	lincRNA	KNOWN	None	None	None	None	130714648	130717485	-1	None	None
19	LILRP2	ENSG00000240258	ENST00000413572	unprocessed_pseudogene	KNOWN	None	15497	None	None	55220386	55224734	1	None	ILT10, CD85m
1	None	ENSG00000224570	ENST00000426714	processed_pseudogene	KNOWN	None	None	None	None	66041812	66044063	-1	None	None
17	MYL4	ENSG00000198336	ENST00000571981	nonsense_mediated_decay	KNOWN	None	7585	186	61	45277812	45301038	1	None	ALC1, AMLC, GT1, PRO1957
17	MYL4	ENSG00000198336	ENST00000572316	protein_coding	KNOWN	CCDS11510	7585	594	197	45286401	45301024	1	None	ALC1, AMLC, GT1, PRO1957
17	MYL4	ENSG00000198336	ENST00000570772	nonsense_mediated_decay	KNOWN	None	7585	186	61	45286429	45299217	1	None	ALC1, AMLC, GT1, PRO1957
17	MYL4	ENSG00000198336	ENST00000576874	protein_coding	KNOWN	None	7585	517	171	45286432	45299775	1	None	ALC1, AMLC, GT1, PRO1957
17	MYL4	ENSG00000198336	ENST00000536623	protein_coding	KNOWN	None	7585	590	195	45286432	45300404	1	None	ALC1, AMLC, GT1, PRO1957
17	MYL4	ENSG00000198336	ENST00000573747	nonsense_mediated_decay	KNOWN	None	7585	348	115	45286708	45300423	1	None	ALC1, AMLC, GT1, PRO1957
17	MYL4	ENSG00000198336	ENST00000393450	protein_coding	KNOWN	CCDS11510	7585	594	197	45286714	45301045	1	None	ALC1, AMLC, GT1, PRO1957
17	MYL4	ENSG00000198336	ENST00000572303	protein_coding	NOVEL	None	7585	521	172	45286766	45299162	1	None	ALC1, AMLC, GT1, PRO1957
17	MYL4	ENSG00000198336	ENST00000570671	protein_coding	KNOWN	None	7585	305	100	45297396	45300843	1	None	ALC1, AMLC, GT1, PRO1957
17	MYL4	ENSG00000198336	ENST00000354968	protein_coding	KNOWN	CCDS11510	7585	594	197	45286428	45301044	1	None	ALC1, AMLC, GT1, PRO1957
12	None	ENSG00000257327	ENST00000551650	protein_coding	PUTATIVE	None	None	177	58	104235229	104238442	1	None	None
2	None	ENSG00000221619	ENST00000408692	miRNA	NOVEL	None	None	None	None	88594111	88594198	1	None	None
2	None	ENSG00000239049	ENST00000459454	snoRNA	NOVEL	None	None	None	None	88606879	88606982	1	None	None
10	MIR511-2	ENSG00000207938	ENST00000385203	miRNA	KNOWN	None	32078	None	None	18134036	18134122	1	MIRN511-2	hsa-mir-511-2
11	None	ENSG00000242527	ENST00000496450	processed_pseudogene	KNOWN	None	None	None	None	27505397	27505675	1	None	None
18	None	ENSG00000264434	ENST00000580645	antisense	KNOWN	None	None	None	None	22882090	22882920	1	None	None
6	MANEA-AS1	ENSG00000261366	ENST00000564541	antisense	KNOWN	None	43732	None	None	96023059	96025326	-1	None	None
2	MRPL45P1	ENSG00000232508	ENST00000449328	processed_pseudogene	KNOWN	None	29715	None	None	88664214	88665127	-1	None	None
10	None	ENSG00000235637	ENST00000442231	antisense	KNOWN	None	None	None	None	18151816	18154400	-1	None	None
HSCHR18_2_CTG2_1	None	ENSG00000262280	ENST00000570964	lincRNA	KNOWN	None	None	None	None	76736555	76738842	-1	None	None
HSCHR18_2_CTG2_1	None	ENSG00000262280	ENST00000576780	lincRNA	KNOWN	None	None	None	None	76737288	76737883	-1	None	None
HSCHR18_2_CTG2_1	None	ENSG00000262280	ENST00000576208	lincRNA	KNOWN	None	None	None	None	76738351	76739074	-1	None	None
17	None	ENSG00000252534	ENST00000516725	misc_RNA	NOVEL	None	None	None	None	58826301	58826407	-1	None	None
1	RN7SL854P	ENSG00000239319	ENST00000459767	misc_RNA	KNOWN	None	46870	None	None	66226743	66227035	-1	None	None
6	None	ENSG00000219549	ENST00000401718	processed_pseudogene	KNOWN	None	None	None	None	96077991	96080805	-1	None	None
18	RN7SL97P	ENSG00000242216	ENST00000486780	misc_RNA	KNOWN	None	46113	None	None	23398200	23398496	-1	None	None
7	OR2A41P	ENSG00000239967	ENST00000473586	unprocessed_pseudogene	KNOWN	None	31246	None	None	143774814	143774918	1	None	None
17	KRT18P61	ENSG00000267083	ENST00000585825	processed_pseudogene	KNOWN	None	48888	None	None	58887526	58888823	1	None	None
20	CST5	ENSG00000170367	ENST00000304710	protein_coding	KNOWN	CCDS13162	2477	429	142	23856572	23860387	-1	None	None
1	None	ENSG00000227466	ENST00000424138	antisense	KNOWN	None	None	None	None	66508183	66516401	-1	None	None
18	None	ENSG00000264193	ENST00000583887	processed_pseudogene	KNOWN	None	None	None	None	23533180	23533432	-1	None	None
1	None	ENSG00000225782	ENST00000446040	antisense	KNOWN	None	None	None	None	220835813	220836458	-1	None	None
6	None	ENSG00000269387	ENST00000593368	lincRNA	KNOWN	None	None	None	None	41732030	41732198	-1	None	None
1	CHIAP3	ENSG00000234020	ENST00000423668	unprocessed_pseudogene	KNOWN	None	44464	None	None	111895897	111910031	-1	None	None
7	OR2A15P	ENSG00000239981	ENST00000463814	unprocessed_pseudogene	KNOWN	None	15085	None	None	143815554	143816453	-1	OR2A28P	None
2	RNU6-568P	ENSG00000253029	ENST00000517220	snRNA	KNOWN	None	47531	None	None	88667312	88667381	-1	None	None
17	None	ENSG00000211515	ENST00000390181	miRNA	NOVEL	None	None	None	None	58888318	58888413	1	None	None
1	RNU6ATAC35P	ENSG00000221571	ENST00000408644	snRNA	KNOWN	None	46934	None	None	220999118	220999235	1	None	None
6	None	ENSG00000268745	ENST00000594586	antisense	KNOWN	None	None	None	None	41759148	41759215	1	None	None
2	None	ENSG00000266309	ENST00000579596	miRNA	NOVEL	None	None	None	None	88673658	88673758	1	None	None
17	HMGN1P28	ENSG00000254114	ENST00000521340	processed_pseudogene	KNOWN	None	39372	None	None	58928743	58929106	1	None	None
1	None	ENSG00000237756	ENST00000416401	lincRNA	KNOWN	None	None	None	None	163229640	163230449	1	None	None
18	RPS24P18	ENSG00000243925	ENST00000468051	processed_pseudogene	KNOWN	None	36745	None	None	23678803	23679190	1	None	None
6	None	ENSG00000206977	ENST00000384250	snoRNA	NOVEL	None	None	None	None	41800592	41800731	1	None	None
2	RNU6-1168P	ENSG00000212133	ENST00000390831	snRNA	KNOWN	None	48131	None	None	88683013	88683116	-1	None	None
1	None	ENSG00000238078	ENST00000431347	lincRNA	KNOWN	None	None	None	None	221002597	221005771	1	None	None
1	RNU4-88P	ENSG00000223152	ENST00000411220	snRNA	KNOWN	None	47024	None	None	66560144	66560229	-1	None	None
2	RNU6-1007P	ENSG00000252395	ENST00000516586	snRNA	KNOWN	None	47970	None	None	88714417	88714523	1	None	None
6	None	ENSG00000227516	ENST00000417465	lincRNA	KNOWN	None	None	None	None	41836360	41837469	1	None	None
22	CNN2P1	ENSG00000227201	ENST00000453616	processed_pseudogene	KNOWN	None	39526	None	None	30442265	30443182	-1	None	None
1	None	ENSG00000252740	ENST00000516931	snoRNA	NOVEL	None	None	None	None	163355655	163355726	1	None	None
1	MIR3117	ENSG00000264720	ENST00000584034	miRNA	KNOWN	None	38385	None	None	67094123	67094200	1	None	hsa-mir-3117
10	HNRNPH3	ENSG00000096746	ENST00000469172	processed_transcript	KNOWN	None	5043	None	None	70090931	70102030	1	HNRPH3	2H9
10	HNRNPH3	ENSG00000096746	ENST00000461310	processed_transcript	KNOWN	None	5043	None	None	70091478	70099303	1	HNRPH3	2H9
10	HNRNPH3	ENSG00000096746	ENST00000265866	protein_coding	KNOWN	CCDS7278	5043	1041	346	70091832	70102944	1	HNRPH3	2H9
10	HNRNPH3	ENSG00000096746	ENST00000480987	processed_transcript	KNOWN	None	5043	None	None	70091833	70101044	1	HNRPH3	2H9
10	HNRNPH3	ENSG00000096746	ENST00000486854	processed_transcript	KNOWN	None	5043	None	None	70091860	70098958	1	HNRPH3	2H9
10	HNRNPH3	ENSG00000096746	ENST00000467249	processed_transcript	KNOWN	None	5043	None	None	70091874	70098432	1	HNRPH3	2H9
10	HNRNPH3	ENSG00000096746	ENST00000354695	protein_coding	KNOWN	CCDS7279	5043	996	331	70091879	70102029	1	HNRPH3	2H9
10	HNRNPH3	ENSG00000096746	ENST00000481819	processed_transcript	KNOWN	None	5043	None	None	70096563	70102028	1	HNRPH3	2H9
10	HNRNPH3	ENSG00000096746	ENST00000491200	processed_transcript	KNOWN	None	5043	None	None	70097373	70102948	1	HNRPH3	2H9
10	HNRNPH3	ENSG00000096746	ENST00000490442	processed_transcript	KNOWN	None	5043	None	None	70098097	70102026	1	HNRPH3	2H9
10	HNRNPH3	ENSG00000096746	ENST00000478698	processed_transcript	KNOWN	None	5043	None	None	70098563	70102026	1	HNRPH3	2H9
10	HNRNPH3	ENSG00000096746	ENST00000441000	protein_coding	KNOWN	None	5043	717	238	70091853	70101869	1	HNRPH3	2H9
2	None	ENSG00000224291	ENST00000451912	processed_pseudogene	KNOWN	None	None	None	None	88727597	88728134	1	None	None
14	None	ENSG00000257504	ENST00000548050	lincRNA	KNOWN	None	None	None	None	19406795	19410111	-1	None	None
1	None	ENSG00000225122	ENST00000430516	unprocessed_pseudogene	KNOWN	None	None	None	None	163392195	163392954	-1	None	None
17	RN7SL448P	ENSG00000264322	ENST00000475566	misc_RNA	KNOWN	None	46464	None	None	58977252	58977544	1	None	None
6	None	ENSG00000207371	ENST00000384641	misc_RNA	NOVEL	None	None	None	None	41885154	41885264	-1	None	None
22	None	ENSG00000226573	ENST00000423857	processed_pseudogene	KNOWN	None	None	None	None	30501083	30501397	-1	None	None
1	IGSF21	ENSG00000117154	ENST00000251296	protein_coding	KNOWN	CCDS184	28246	1404	467	18434240	18704976	1	None	MGC15730, RP11-121A23.1
1	IGSF21	ENSG00000117154	ENST00000412684	protein_coding	KNOWN	None	28246	930	309	18605339	18702861	1	None	MGC15730, RP11-121A23.1
1	IGSF21	ENSG00000117154	ENST00000497331	retained_intron	KNOWN	None	28246	None	None	18687861	18704977	1	None	MGC15730, RP11-121A23.1
1	IGSF21	ENSG00000117154	ENST00000473951	processed_transcript	KNOWN	None	28246	None	None	18702451	18703414	1	None	MGC15730, RP11-121A23.1
1	None	ENSG00000221655	ENST00000408728	miRNA	NOVEL	None	None	None	None	67196650	67196741	-1	None	None
6	None	ENSG00000226004	ENST00000417932	lincRNA	KNOWN	None	None	None	None	138264216	138266939	-1	None	None
17	None	ENSG00000238799	ENST00000459173	snoRNA	NOVEL	None	None	None	None	59039151	59039254	-1	None	None
6	RNU6-761P	ENSG00000206875	ENST00000384148	snRNA	KNOWN	None	47724	None	None	41986146	41986252	-1	None	None
HSCHR10_1_CTG5	ALOX5	ENSG00000262552	ENST00000574291	protein_coding	KNOWN	None	435	2025	674	45885738	45957624	1	None	5-LOX
HSCHR10_1_CTG5	ALOX5	ENSG00000262552	ENST00000571560	processed_transcript	KNOWN	None	435	None	None	45935602	45939997	1	None	5-LOX
HSCHR10_1_CTG5	ALOX5	ENSG00000262552	ENST00000572685	processed_transcript	KNOWN	None	435	None	None	45951941	45953096	1	None	5-LOX
HSCHR10_1_CTG5	ALOX5	ENSG00000262552	ENST00000570938	processed_transcript	KNOWN	None	435	None	None	45954124	45954958	1	None	5-LOX
HSCHR10_1_CTG5	ALOX5	ENSG00000262552	ENST00000574038	processed_transcript	KNOWN	None	435	None	None	45954753	45955743	1	None	5-LOX
HSCHR10_1_CTG5	ALOX5	ENSG00000262552	ENST00000577068	processed_transcript	KNOWN	None	435	None	None	45954932	45955725	1	None	5-LOX
4	None	ENSG00000250042	ENST00000509058	lincRNA	KNOWN	None	None	None	None	188291802	188293075	1	None	None
1	None	ENSG00000231080	ENST00000456389	antisense	KNOWN	None	None	None	None	67292625	67294241	1	None	None
11	TRIM49D2P	ENSG00000233802	ENST00000526396	unprocessed_pseudogene	KNOWN	None	37217	None	None	89659930	89666053	1	TRIM49L, TRIM49L1	None
11	TRIM49D2P	ENSG00000233802	ENST00000605881	unprocessed_pseudogene	KNOWN	None	37217	None	None	89657232	89666218	1	TRIM49L, TRIM49L1	None
18	DHFRP1	ENSG00000188985	ENST00000579682	processed_pseudogene	KNOWN	None	2862	None	None	23750690	23751248	-1	None	None
18	DHFRP1	ENSG00000188985	ENST00000307796	pseudogene	KNOWN	None	2862	None	None	23749724	23751313	-1	None	None
17	None	ENSG00000267207	ENST00000588604	antisense	KNOWN	None	None	None	None	59111997	59147483	-1	None	None
6	None	ENSG00000223946	ENST00000412701	lincRNA	KNOWN	None	None	None	None	41997791	41999120	1	None	None
19	None	ENSG00000215765	ENST00000400864	processed_transcript	KNOWN	None	None	None	None	55236001	55309738	1	None	None
22	None	ENSG00000225971	ENST00000451219	processed_pseudogene	KNOWN	None	None	None	None	30532662	30533670	-1	None	None
11	BDNF-AS	ENSG00000245573	ENST00000530686	antisense	KNOWN	None	20608	None	None	27528385	27697525	1	BDNFOS	BT2A, BT2B, BT2C, BT2D, NCRNA00049, BDNF-AS1
11	BDNF-AS	ENSG00000245573	ENST00000532965	antisense	KNOWN	None	20608	None	None	27528396	27679880	1	BDNFOS	BT2A, BT2B, BT2C, BT2D, NCRNA00049, BDNF-AS1
11	BDNF-AS	ENSG00000245573	ENST00000501176	antisense	KNOWN	None	20608	None	None	27528399	27699354	1	BDNFOS	BT2A, BT2B, BT2C, BT2D, NCRNA00049, BDNF-AS1
11	BDNF-AS	ENSG00000245573	ENST00000499008	antisense	KNOWN	None	20608	None	None	27528399	27699354	1	BDNFOS	BT2A, BT2B, BT2C, BT2D, NCRNA00049, BDNF-AS1
11	BDNF-AS	ENSG00000245573	ENST00000502161	antisense	KNOWN	None	20608	None	None	27528399	27719721	1	BDNFOS	BT2A, BT2B, BT2C, BT2D, NCRNA00049, BDNF-AS1
11	BDNF-AS	ENSG00000245573	ENST00000500662	antisense	KNOWN	None	20608	None	None	27528399	27719721	1	BDNFOS	BT2A, BT2B, BT2C, BT2D, NCRNA00049, BDNF-AS1
11	BDNF-AS	ENSG00000245573	ENST00000499568	antisense	KNOWN	None	20608	None	None	27528399	27719721	1	BDNFOS	BT2A, BT2B, BT2C, BT2D, NCRNA00049, BDNF-AS1
11	BDNF-AS	ENSG00000245573	ENST00000530313	antisense	KNOWN	None	20608	None	None	27661436	27681196	1	BDNFOS	BT2A, BT2B, BT2C, BT2D, NCRNA00049, BDNF-AS1
11	BDNF-AS	ENSG00000245573	ENST00000501663	antisense	KNOWN	None	20608	None	None	27686807	27699354	1	BDNFOS	BT2A, BT2B, BT2C, BT2D, NCRNA00049, BDNF-AS1
6	None	ENSG00000261068	ENST00000562471	lincRNA	KNOWN	None	None	None	None	42059976	42061997	-1	None	None
7	VPS41	ENSG00000006715	ENST00000310301	protein_coding	KNOWN	CCDS5457	12713	2565	854	38762563	38948829	-1	None	HVSP41
7	VPS41	ENSG00000006715	ENST00000395969	protein_coding	NOVEL	CCDS5458	12713	2490	829	38765155	38948774	-1	None	HVSP41
7	VPS41	ENSG00000006715	ENST00000490924	retained_intron	KNOWN	None	12713	None	None	38765709	38766786	-1	None	HVSP41
7	VPS41	ENSG00000006715	ENST00000448833	nonsense_mediated_decay	KNOWN	None	12713	451	149	38765836	38785181	-1	None	HVSP41
7	VPS41	ENSG00000006715	ENST00000482217	retained_intron	KNOWN	None	12713	None	None	38765919	38785598	-1	None	HVSP41
7	VPS41	ENSG00000006715	ENST00000439468	protein_coding	PUTATIVE	None	12713	330	109	38780884	38785162	-1	None	HVSP41
7	VPS41	ENSG00000006715	ENST00000462429	retained_intron	KNOWN	None	12713	None	None	38798002	38805353	-1	None	HVSP41
7	VPS41	ENSG00000006715	ENST00000466017	processed_transcript	KNOWN	None	12713	None	None	38812199	38836641	-1	None	HVSP41
7	VPS41	ENSG00000006715	ENST00000485955	processed_transcript	PUTATIVE	None	12713	None	None	38813758	38815272	-1	None	HVSP41
7	VPS41	ENSG00000006715	ENST00000413141	protein_coding	PUTATIVE	None	12713	468	155	38835092	38870946	-1	None	HVSP41
7	VPS41	ENSG00000006715	ENST00000265745	nonsense_mediated_decay	KNOWN	None	12713	630	209	38835142	38948791	-1	None	HVSP41
7	VPS41	ENSG00000006715	ENST00000414632	protein_coding	NOVEL	None	12713	531	176	38836345	38948791	-1	None	HVSP41
7	VPS41	ENSG00000006715	ENST00000418457	protein_coding	NOVEL	None	12713	314	103	38857403	38969160	-1	None	HVSP41
7	VPS41	ENSG00000006715	ENST00000457055	protein_coding	NOVEL	None	12713	219	72	38860818	38971994	-1	None	HVSP41
1	RNA5SP62	ENSG00000200327	ENST00000363457	rRNA	KNOWN	None	42839	None	None	163438286	163438395	-1	RN5S62	None
1	HLA-AS1	ENSG00000257551	ENST00000552026	antisense	KNOWN	None	42509	None	None	221006105	221053482	-1	None	None
1	None	ENSG00000252433	ENST00000516624	snoRNA	NOVEL	None	None	None	None	67568328	67568462	-1	None	None
4	None	ENSG00000250620	ENST00000503677	lincRNA	KNOWN	None	None	None	None	188334718	188336851	1	None	None
17	None	ENSG00000267449	ENST00000593107	antisense	KNOWN	None	None	None	None	59147217	59147717	-1	None	None
6	None	ENSG00000229922	ENST00000434437	lincRNA	KNOWN	None	None	None	None	138266503	138272711	1	None	None
6	None	ENSG00000229922	ENST00000417800	lincRNA	KNOWN	None	None	None	None	138266503	138293659	1	None	None
X	HMGB1P32	ENSG00000226837	ENST00000425971	processed_pseudogene	KNOWN	None	39123	None	None	97677136	97677807	1	None	None
HG1032_PATCH	DUX4	ENSG00000260596	ENST00000570263	protein_coding	NOVEL	None	3082	483	160	191094929	191097000	1	None	None
HG1032_PATCH	DUX4	ENSG00000260596	ENST00000569241	protein_coding	KNOWN	None	3082	1275	424	191094929	191097000	1	None	None
HG1032_PATCH	DUX4	ENSG00000260596	ENST00000565211	protein_coding	KNOWN	None	3082	1275	424	191094929	191097000	1	None	None
HG1032_PATCH	DUX4	ENSG00000260596	ENST00000563716	processed_transcript	KNOWN	None	3082	None	None	191096348	191107097	1	None	None
HG1032_PATCH	DUX4	ENSG00000260596	ENST00000564366	processed_transcript	KNOWN	None	3082	None	None	191103272	191107066	1	None	None
1	RNA5SP63	ENSG00000212527	ENST00000391225	rRNA	KNOWN	None	42840	None	None	163479274	163479385	1	RN5S63	None
1	RNU6-586P	ENSG00000253074	ENST00000517265	snRNA	KNOWN	None	47549	None	None	67661823	67661926	1	None	None
2	FOXI3	ENSG00000214336	ENST00000398142	processed_transcript	KNOWN	None	35123	None	None	88747726	88752131	-1	None	None
2	FOXI3	ENSG00000214336	ENST00000428390	processed_transcript	KNOWN	None	35123	None	None	88747726	88752053	-1	None	None
4	None	ENSG00000251643	ENST00000505334	processed_pseudogene	KNOWN	None	None	None	None	188362831	188365452	-1	None	None
1	None	ENSG00000221733	ENST00000408806	miRNA	NOVEL	None	None	None	None	67705123	67705210	-1	None	None
1	None	ENSG00000228289	ENST00000412705	processed_pseudogene	KNOWN	None	None	None	None	163738576	163738928	-1	None	None
17	None	ENSG00000227694	ENST00000437246	processed_pseudogene	KNOWN	None	None	None	None	59147232	59147702	1	None	None
22	None	ENSG00000225676	ENST00000432360	antisense	KNOWN	None	None	None	None	30580633	30603098	-1	None	None
12	None	ENSG00000257237	ENST00000552843	unprocessed_pseudogene	KNOWN	None	None	None	None	39451830	39453735	-1	None	None
6	None	ENSG00000221252	ENST00000408325	snoRNA	NOVEL	None	None	None	None	42379938	42380134	-1	None	None
19	None	ENSG00000259242	ENST00000559614	antisense	KNOWN	None	None	None	None	19716690	19719991	1	None	None
1	RNU4ATAC4P	ENSG00000252116	ENST00000516307	snRNA	KNOWN	None	46890	None	None	67733284	67733409	-1	None	None
1	None	ENSG00000212538	ENST00000391236	snoRNA	NOVEL	None	None	None	None	163892907	163893109	1	None	None
6	None	ENSG00000237107	ENST00000464297	processed_pseudogene	KNOWN	None	None	None	None	42467448	42467760	1	None	None
1	None	ENSG00000226211	ENST00000448432	processed_pseudogene	KNOWN	None	None	None	None	221307207	221307563	-1	None	None
17	None	ENSG00000267667	ENST00000585921	antisense	KNOWN	None	None	None	None	59208065	59213325	-1	None	None
1	None	ENSG00000228523	ENST00000432257	processed_pseudogene	KNOWN	None	None	None	None	67743735	67744462	1	None	None
6	None	ENSG00000219463	ENST00000403415	processed_pseudogene	KNOWN	None	None	None	None	138316407	138317284	1	None	None
22	None	ENSG00000232530	ENST00000447565	antisense	KNOWN	None	None	None	None	30635183	30636527	1	None	None
19	None	ENSG00000271283	ENST00000603937	processed_pseudogene	KNOWN	None	None	None	None	19810012	19810218	-1	None	None
1	None	ENSG00000225719	ENST00000435192	processed_pseudogene	KNOWN	None	None	None	None	164312242	164313101	1	None	None
19	KIR2DP1	ENSG00000242473	ENST00000415311	unprocessed_pseudogene	KNOWN	None	16344	None	None	55266475	55278823	1	None	KIRZ, KIRY, KIR15, KIR2DL6
4	None	ENSG00000251490	ENST00000512464	lincRNA	KNOWN	None	None	None	None	188437307	188438362	-1	None	None
17	None	ENSG00000267131	ENST00000585765	antisense	KNOWN	None	None	None	None	59439029	59477604	-1	None	None
1	None	ENSG00000234754	ENST00000439004	lincRNA	KNOWN	None	None	None	None	221503422	221509638	-1	None	None
1	None	ENSG00000234754	ENST00000434398	lincRNA	KNOWN	None	None	None	None	221505981	221509262	-1	None	None
14	None	ENSG00000257644	ENST00000550518	unprocessed_pseudogene	KNOWN	None	None	None	None	19407865	19427443	1	None	None
9	None	ENSG00000260912	ENST00000563205	sense_overlapping	KNOWN	None	None	None	None	19453207	19455171	1	None	None
22	None	ENSG00000241528	ENST00000332468	processed_transcript	PUTATIVE	None	None	None	None	30770930	30773862	-1	None	None
3	MIR1224	ENSG00000221120	ENST00000408193	miRNA	KNOWN	None	33923	None	None	183959193	183959277	1	MIRN1224	hsa-mir-1224
3	None	ENSG00000207316	ENST00000384586	misc_RNA	NOVEL	None	None	None	None	88480341	88480459	1	None	None
20	GGTLC1	ENSG00000149435	ENST00000286890	protein_coding	KNOWN	CCDS13163	16437	678	225	23965690	23967432	-1	GGTLA4, GGTLA3	dJ831C21.2, dJ831C21.1
20	GGTLC1	ENSG00000149435	ENST00000278765	protein_coding	KNOWN	CCDS13163	16437	678	225	23965690	23967512	-1	GGTLA4, GGTLA3	dJ831C21.2, dJ831C21.1
20	GGTLC1	ENSG00000149435	ENST00000335694	protein_coding	KNOWN	CCDS13163	16437	678	225	23965690	23969416	-1	GGTLA4, GGTLA3	dJ831C21.2, dJ831C21.1
2	None	ENSG00000220999	ENST00000408072	miRNA	NOVEL	None	None	None	None	88762285	88762370	-1	None	None
7	None	ENSG00000243230	ENST00000466717	antisense	KNOWN	None	None	None	None	128849616	128853386	-1	None	None
19	None	ENSG00000270402	ENST00000604034	processed_pseudogene	KNOWN	None	None	None	None	19819774	19821274	1	None	None
17	RNU6-489P	ENSG00000201283	ENST00000364413	snRNA	KNOWN	None	47452	None	None	36267501	36267607	1	None	None
1	RNU6-387P	ENSG00000223263	ENST00000411331	snRNA	KNOWN	None	47350	None	None	67882897	67883001	1	None	None
3	NDUFA5P5	ENSG00000242365	ENST00000468361	processed_pseudogene	KNOWN	None	48847	None	None	88650211	88650552	1	None	None
17	None	ENSG00000270399	ENST00000604532	processed_pseudogene	KNOWN	None	None	None	None	36333639	36333776	1	None	None
2	None	ENSG00000225420	ENST00000413234	antisense	KNOWN	None	None	None	None	88838238	88875128	1	None	None
1	None	ENSG00000235200	ENST00000230113	lincRNA	KNOWN	None	None	None	None	67995313	67998012	1	None	None
11	MIR302E	ENSG00000221703	ENST00000408776	miRNA	KNOWN	None	35348	None	None	7255997	7256068	1	MIRN302E	hsa-mir-302e
20	C20orf173	ENSG00000125975	ENST00000246199	protein_coding	KNOWN	None	16166	450	149	34114799	34117448	-1	None	dJ477O4.4
20	C20orf173	ENSG00000125975	ENST00000374345	protein_coding	PUTATIVE	None	16166	461	152	34116557	34117477	-1	None	dJ477O4.4
20	C20orf173	ENSG00000125975	ENST00000424444	protein_coding	PUTATIVE	None	16166	195	64	34116574	34117452	-1	None	dJ477O4.4
20	C20orf173	ENSG00000125975	ENST00000444723	protein_coding	KNOWN	CCDS46594	16166	609	202	34114799	34117481	-1	None	dJ477O4.4
22	RNU6-564P	ENSG00000222915	ENST00000410983	snRNA	KNOWN	None	47527	None	None	30817034	30817137	1	None	None
10	JAKMIP3	ENSG00000188385	ENST00000298622	protein_coding	KNOWN	CCDS44494	23523	2535	844	133918175	133998313	1	C10orf39, C10orf14	FLJ37857, NECC2, KIAA4091, bA140A10.5
10	JAKMIP3	ENSG00000188385	ENST00000477275	processed_transcript	KNOWN	None	23523	None	None	133957220	133998313	1	C10orf39, C10orf14	FLJ37857, NECC2, KIAA4091, bA140A10.5
4	None	ENSG00000250590	ENST00000515660	lincRNA	KNOWN	None	None	None	None	188454032	188477103	-1	None	None
4	None	ENSG00000250590	ENST00000507817	lincRNA	KNOWN	None	None	None	None	188454032	188593795	-1	None	None
4	None	ENSG00000250590	ENST00000514767	lincRNA	KNOWN	None	None	None	None	188454036	188477058	-1	None	None
4	None	ENSG00000250590	ENST00000502952	lincRNA	KNOWN	None	None	None	None	188477065	188514081	-1	None	None
1	None	ENSG00000232436	ENST00000440104	lincRNA	KNOWN	None	None	None	None	221681901	221684321	1	None	None
15	None	ENSG00000177699	ENST00000316148	antisense	KNOWN	None	None	None	None	79271231	79278268	1	None	None
17	None	ENSG00000207212	ENST00000384483	misc_RNA	NOVEL	None	None	None	None	36387075	36387176	-1	None	None
12	None	ENSG00000258144	ENST00000553029	lincRNA	KNOWN	None	None	None	None	39481515	39486676	-1	None	None
9	None	ENSG00000231909	ENST00000417653	transcribed_processed_pseudogene	KNOWN	None	None	None	None	19460924	19461302	-1	None	None
9	None	ENSG00000231909	ENST00000438342	processed_transcript	KNOWN	None	None	None	None	19461158	19464522	-1	None	None
7	RNU7-16P	ENSG00000252280	ENST00000516471	snRNA	KNOWN	None	34112	None	None	129045476	129045537	1	None	U7.16
22	None	ENSG00000203606	ENST00000366413	pseudogene	KNOWN	None	None	None	None	30831531	30832231	1	None	None
X	None	ENSG00000252430	ENST00000516621	miRNA	NOVEL	None	None	None	None	98640193	98640274	-1	None	None
1	RNU6-1031P	ENSG00000207504	ENST00000384773	snRNA	KNOWN	None	47994	None	None	68006810	68006916	1	None	None
17	None	ENSG00000266934	ENST00000589244	sense_intronic	KNOWN	None	None	None	None	59460146	59460916	1	None	None
17	None	ENSG00000266934	ENST00000585495	sense_intronic	KNOWN	None	None	None	None	59460762	59462041	1	None	None
17	RN7SL458P	ENSG00000266103	ENST00000399592	misc_RNA	KNOWN	None	46474	None	None	36566042	36566302	1	None	None
1	RNU5F-6P	ENSG00000199849	ENST00000362979	snRNA	KNOWN	None	42523	None	None	164320510	164320625	1	None	None
6	None	ENSG00000218499	ENST00000404229	processed_pseudogene	KNOWN	None	None	None	None	138714510	138714681	1	None	None
12	None	ENSG00000242990	ENST00000480739	processed_pseudogene	KNOWN	None	None	None	None	58068448	58069033	1	None	None
X	None	ENSG00000270308	ENST00000605078	processed_pseudogene	KNOWN	None	None	None	None	98911995	98912379	1	None	None
1	None	ENSG00000238139	ENST00000414338	processed_pseudogene	KNOWN	None	None	None	None	68026756	68027129	1	None	None
1	None	ENSG00000227585	ENST00000419031	processed_pseudogene	KNOWN	None	None	None	None	221723128	221723985	-1	None	None
Y	RNA5SP518	ENSG00000251766	ENST00000515957	rRNA	KNOWN	None	43418	None	None	9928019	9928137	-1	RN5S518	None
12	None	ENSG00000221259	ENST00000408332	miRNA	NOVEL	None	None	None	None	111511772	111511893	1	None	None
1	HMGB3P6	ENSG00000213070	ENST00000444896	processed_pseudogene	KNOWN	None	39283	None	None	164326004	164326601	1	None	None
3	NARG2P2	ENSG00000242705	ENST00000483823	processed_pseudogene	KNOWN	None	48857	None	None	88997292	89000078	1	None	None
7	None	ENSG00000229379	ENST00000425322	lincRNA	KNOWN	None	None	None	None	15880922	15881985	-1	None	None
2	None	ENSG00000234028	ENST00000453008	antisense	KNOWN	None	None	None	None	88927057	88931337	1	None	None
2	None	ENSG00000234028	ENST00000606164	antisense	KNOWN	None	None	None	None	88927689	88931339	1	None	None
HG311_PATCH	HSPA12A	ENSG00000263052	ENST00000573484	protein_coding	KNOWN	None	19022	2028	675	118430705	118502086	-1	None	FLJ13874, KIAA0417
HG311_PATCH	HSPA12A	ENSG00000263052	ENST00000573888	protein_coding	PUTATIVE	None	19022	360	119	118442968	118451979	-1	None	FLJ13874, KIAA0417
HG311_PATCH	HSPA12A	ENSG00000263052	ENST00000573671	retained_intron	KNOWN	None	19022	None	None	118457656	118460617	-1	None	FLJ13874, KIAA0417
HG311_PATCH	HSPA12A	ENSG00000263052	ENST00000573124	protein_coding	PUTATIVE	None	19022	409	135	118460466	118467758	-1	None	FLJ13874, KIAA0417
14	None	ENSG00000259031	ENST00000553301	lincRNA	KNOWN	None	None	None	None	101005276	101006746	1	None	None
6	MARCKSL1P2	ENSG00000215878	ENST00000401037	processed_pseudogene	KNOWN	None	45240	None	None	138723722	138724697	-1	None	None
17	None	ENSG00000260833	ENST00000561550	antisense	KNOWN	None	None	None	None	36606638	36608643	-1	None	None
17	None	ENSG00000260833	ENST00000582968	antisense	KNOWN	None	None	None	None	36606832	36608688	-1	None	None
17	None	ENSG00000260833	ENST00000582919	antisense	KNOWN	None	None	None	None	36606870	36608190	-1	None	None
17	None	ENSG00000260833	ENST00000581922	antisense	KNOWN	None	None	None	None	36607300	36607932	-1	None	None
17	None	ENSG00000260833	ENST00000582649	retained_intron	KNOWN	None	None	None	None	36607405	36608147	-1	None	None
17	None	ENSG00000260833	ENST00000579633	retained_intron	KNOWN	None	None	None	None	36607550	36608607	-1	None	None
19	LILRA1	ENSG00000104974	ENST00000495417	processed_transcript	KNOWN	None	6602	None	None	55105047	55111185	1	None	LIR-6, CD85i, LIR6
19	LILRA1	ENSG00000104974	ENST00000473156	processed_transcript	KNOWN	None	6602	None	None	55105047	55113342	1	None	LIR-6, CD85i, LIR6
19	LILRA1	ENSG00000104974	ENST00000251372	protein_coding	KNOWN	CCDS12901	6602	1470	489	55105113	55112540	1	None	LIR-6, CD85i, LIR6
19	LILRA1	ENSG00000104974	ENST00000477255	retained_intron	KNOWN	None	6602	None	None	55105115	55111181	1	None	LIR-6, CD85i, LIR6
19	LILRA1	ENSG00000104974	ENST00000453777	protein_coding	NOVEL	None	6602	870	289	55105125	55113555	1	None	LIR-6, CD85i, LIR6
8	RN7SKP249	ENSG00000202360	ENST00000365490	misc_RNA	KNOWN	None	45973	None	None	102150187	102150541	1	None	None
17	RNF167	ENSG00000108523	ENST00000571816	protein_coding	KNOWN	CCDS11060	24544	1053	350	4843303	4848486	1	None	DKFZP566H073
17	RNF167	ENSG00000108523	ENST00000571365	processed_transcript	KNOWN	None	24544	None	None	4843341	4844131	1	None	DKFZP566H073
17	RNF167	ENSG00000108523	ENST00000573404	protein_coding	KNOWN	None	24544	367	121	4843378	4845947	1	None	DKFZP566H073
17	RNF167	ENSG00000108523	ENST00000576452	protein_coding	KNOWN	None	24544	291	96	4843395	4845761	1	None	DKFZP566H073
17	RNF167	ENSG00000108523	ENST00000572430	protein_coding	KNOWN	CCDS11060	24544	1053	350	4843415	4848465	1	None	DKFZP566H073
17	RNF167	ENSG00000108523	ENST00000262482	protein_coding	KNOWN	CCDS11060	24544	1053	350	4843423	4848517	1	None	DKFZP566H073
17	RNF167	ENSG00000108523	ENST00000570328	protein_coding	PUTATIVE	None	24544	215	70	4843594	4845900	1	None	DKFZP566H073
17	RNF167	ENSG00000108523	ENST00000575111	protein_coding	KNOWN	CCDS11060	24544	1053	350	4843676	4848486	1	None	DKFZP566H073
17	RNF167	ENSG00000108523	ENST00000576229	protein_coding	PUTATIVE	None	24544	948	315	4843782	4848467	1	None	DKFZP566H073
17	RNF167	ENSG00000108523	ENST00000570492	processed_transcript	KNOWN	None	24544	None	None	4843953	4847896	1	None	DKFZP566H073
17	RNF167	ENSG00000108523	ENST00000575400	nonsense_mediated_decay	KNOWN	None	24544	402	133	4843954	4848146	1	None	DKFZP566H073
17	RNF167	ENSG00000108523	ENST00000572554	retained_intron	KNOWN	None	24544	None	None	4844271	4846333	1	None	DKFZP566H073
17	RNF167	ENSG00000108523	ENST00000572382	protein_coding	PUTATIVE	None	24544	627	208	4845914	4848504	1	None	DKFZP566H073
17	RNF167	ENSG00000108523	ENST00000576965	protein_coding	PUTATIVE	None	24544	224	73	4846146	4848517	1	None	DKFZP566H073
17	RNF167	ENSG00000108523	ENST00000575524	retained_intron	KNOWN	None	24544	None	None	4846363	4848095	1	None	DKFZP566H073
17	RNF167	ENSG00000108523	ENST00000574548	retained_intron	KNOWN	None	24544	None	None	4847675	4848190	1	None	DKFZP566H073
22	GGT1	ENSG00000100031	ENST00000248923	protein_coding	KNOWN	CCDS42992	4250	1710	569	24979718	25024935	1	GGT	D22S672, D22S732, CD224
22	GGT1	ENSG00000100031	ENST00000456869	protein_coding	KNOWN	None	4250	90	29	24990778	25007138	1	GGT	D22S672, D22S732, CD224
22	GGT1	ENSG00000100031	ENST00000411974	protein_coding	KNOWN	None	4250	362	119	24990781	25011074	1	GGT	D22S672, D22S732, CD224
22	GGT1	ENSG00000100031	ENST00000412658	protein_coding	KNOWN	None	4250	1390	462	24999114	25024101	1	GGT	D22S672, D22S732, CD224
22	GGT1	ENSG00000100031	ENST00000445029	protein_coding	KNOWN	None	4250	203	66	24999151	25010781	1	GGT	D22S672, D22S732, CD224
22	GGT1	ENSG00000100031	ENST00000419133	protein_coding	KNOWN	None	4250	523	173	24999165	25016435	1	GGT	D22S672, D22S732, CD224
22	GGT1	ENSG00000100031	ENST00000400382	protein_coding	KNOWN	CCDS42992	4250	1710	569	24999168	25024969	1	GGT	D22S672, D22S732, CD224
22	GGT1	ENSG00000100031	ENST00000438643	protein_coding	KNOWN	None	4250	111	36	24999180	25007159	1	GGT	D22S672, D22S732, CD224
22	GGT1	ENSG00000100031	ENST00000452551	protein_coding	KNOWN	None	4250	382	126	24999180	25011094	1	GGT	D22S672, D22S732, CD224
22	GGT1	ENSG00000100031	ENST00000412898	protein_coding	KNOWN	None	4250	240	79	24999182	25010818	1	GGT	D22S672, D22S732, CD224
22	GGT1	ENSG00000100031	ENST00000400380	protein_coding	KNOWN	CCDS42992	4250	1710	569	24999183	25024968	1	GGT	D22S672, D22S732, CD224
22	GGT1	ENSG00000100031	ENST00000455483	protein_coding	KNOWN	None	4250	293	96	24999184	25010871	1	GGT	D22S672, D22S732, CD224
22	GGT1	ENSG00000100031	ENST00000430289	protein_coding	KNOWN	None	4250	326	107	24999202	25011038	1	GGT	D22S672, D22S732, CD224
22	GGT1	ENSG00000100031	ENST00000447416	protein_coding	KNOWN	None	4250	380	125	25003588	25011092	1	GGT	D22S672, D22S732, CD224
22	GGT1	ENSG00000100031	ENST00000432867	protein_coding	KNOWN	None	4250	333	110	25003606	25011045	1	GGT	D22S672, D22S732, CD224
22	GGT1	ENSG00000100031	ENST00000451366	protein_coding	KNOWN	None	4250	348	115	25003626	25011060	1	GGT	D22S672, D22S732, CD224
22	GGT1	ENSG00000100031	ENST00000428855	protein_coding	KNOWN	None	4250	380	125	25003631	25011092	1	GGT	D22S672, D22S732, CD224
22	GGT1	ENSG00000100031	ENST00000425895	nonsense_mediated_decay	KNOWN	None	4250	1101	366	25005429	25024963	1	GGT	D22S672, D22S732, CD224
22	GGT1	ENSG00000100031	ENST00000474191	processed_transcript	PUTATIVE	None	4250	None	None	25006333	25011939	1	GGT	D22S672, D22S732, CD224
22	GGT1	ENSG00000100031	ENST00000487766	retained_intron	KNOWN	None	4250	None	None	25010829	25016800	1	GGT	D22S672, D22S732, CD224
22	GGT1	ENSG00000100031	ENST00000466310	processed_transcript	KNOWN	None	4250	None	None	25016375	25024943	1	GGT	D22S672, D22S732, CD224
22	GGT1	ENSG00000100031	ENST00000401885	protein_coding	KNOWN	None	4250	678	225	25023147	25024963	1	GGT	D22S672, D22S732, CD224
22	GGT1	ENSG00000100031	ENST00000404532	protein_coding	KNOWN	None	4250	678	225	25023219	25024942	1	GGT	D22S672, D22S732, CD224
22	GGT1	ENSG00000100031	ENST00000403838	protein_coding	KNOWN	None	4250	678	225	25023222	25024972	1	GGT	D22S672, D22S732, CD224
22	GGT1	ENSG00000100031	ENST00000404223	protein_coding	NOVEL	None	4250	759	252	25023375	25024963	1	GGT	D22S672, D22S732, CD224
22	GGT1	ENSG00000100031	ENST00000404920	protein_coding	NOVEL	None	4250	657	218	25023411	25024806	1	GGT	D22S672, D22S732, CD224
22	GGT1	ENSG00000100031	ENST00000490087	processed_transcript	PUTATIVE	None	4250	None	None	25023843	25024943	1	GGT	D22S672, D22S732, CD224
22	GGT1	ENSG00000100031	ENST00000400383	protein_coding	KNOWN	CCDS42992	4250	1710	569	24999180	25024972	1	GGT	D22S672, D22S732, CD224
22	GGT1	ENSG00000100031	ENST00000406383	protein_coding	KNOWN	CCDS42992	4250	1710	569	25003626	25024972	1	GGT	D22S672, D22S732, CD224
14	None	ENSG00000257175	ENST00000548656	processed_pseudogene	KNOWN	None	None	None	None	19411432	19413685	-1	None	None
14	None	ENSG00000258576	ENST00000554540	sense_overlapping	KNOWN	None	None	None	None	101054112	101055663	-1	None	None
17	BPTF	ENSG00000171634	ENST00000544778	protein_coding	NOVEL	None	3581	7372	2456	65821640	65942007	1	FALZ	FAC1, NURF301
17	BPTF	ENSG00000171634	ENST00000306378	protein_coding	KNOWN	CCDS11673	3581	8763	2920	65821781	65979269	1	FALZ	FAC1, NURF301
17	BPTF	ENSG00000171634	ENST00000424123	protein_coding	NOVEL	None	3581	8295	2764	65822258	65978404	1	FALZ	FAC1, NURF301
17	BPTF	ENSG00000171634	ENST00000544491	protein_coding	NOVEL	None	3581	409	135	65871036	65888078	1	FALZ	FAC1, NURF301
17	BPTF	ENSG00000171634	ENST00000579173	retained_intron	KNOWN	None	3581	None	None	65887568	65889672	1	FALZ	FAC1, NURF301
17	BPTF	ENSG00000171634	ENST00000467104	retained_intron	KNOWN	None	3581	None	None	65889337	65890194	1	FALZ	FAC1, NURF301
17	BPTF	ENSG00000171634	ENST00000582467	protein_coding	NOVEL	None	3581	1015	337	65916216	65936661	1	FALZ	FAC1, NURF301
17	BPTF	ENSG00000171634	ENST00000577770	processed_transcript	KNOWN	None	3581	None	None	65932725	65940449	1	FALZ	FAC1, NURF301
17	BPTF	ENSG00000171634	ENST00000584931	retained_intron	KNOWN	None	3581	None	None	65936644	65940707	1	FALZ	FAC1, NURF301
17	BPTF	ENSG00000171634	ENST00000580465	protein_coding	PUTATIVE	None	3581	1453	483	65936679	65956493	1	FALZ	FAC1, NURF301
17	BPTF	ENSG00000171634	ENST00000342579	protein_coding	NOVEL	None	3581	1951	649	65940346	65980494	1	FALZ	FAC1, NURF301
17	BPTF	ENSG00000171634	ENST00000582406	processed_transcript	KNOWN	None	3581	None	None	65940386	65941687	1	FALZ	FAC1, NURF301
17	BPTF	ENSG00000171634	ENST00000581258	protein_coding	PUTATIVE	None	3581	1262	419	65943870	65977878	1	FALZ	FAC1, NURF301
17	BPTF	ENSG00000171634	ENST00000583990	protein_coding	PUTATIVE	None	3581	208	68	65960460	65978685	1	FALZ	FAC1, NURF301
17	BPTF	ENSG00000171634	ENST00000578307	retained_intron	KNOWN	None	3581	None	None	65961139	65978667	1	FALZ	FAC1, NURF301
17	BPTF	ENSG00000171634	ENST00000577837	protein_coding	PUTATIVE	None	3581	194	63	65971918	65978685	1	FALZ	FAC1, NURF301
17	BPTF	ENSG00000171634	ENST00000321892	protein_coding	KNOWN	None	3581	9141	3046	65821780	65980494	1	FALZ	FAC1, NURF301
17	BPTF	ENSG00000171634	ENST00000335221	protein_coding	KNOWN	CCDS11672	3581	8712	2903	65821780	65980494	1	FALZ	FAC1, NURF301
1	RN7SL392P	ENSG00000242482	ENST00000473024	misc_RNA	KNOWN	None	46408	None	None	68122516	68122812	-1	None	None
12	None	ENSG00000221386	ENST00000408459	miRNA	NOVEL	None	None	None	None	111740604	111740703	1	None	None
8	None	ENSG00000253737	ENST00000518090	lincRNA	KNOWN	None	None	None	None	102151893	102153157	1	None	None
1	HNRNPCP9	ENSG00000232048	ENST00000426952	processed_pseudogene	KNOWN	None	48820	None	None	68125838	68126696	-1	None	None
3	None	ENSG00000249253	ENST00000508850	processed_pseudogene	KNOWN	None	None	None	None	130012180	130012603	1	None	None
15	None	ENSG00000259274	ENST00000560280	antisense	KNOWN	None	None	None	None	60822172	60837358	1	None	None
1	None	ENSG00000227925	ENST00000431729	lincRNA	KNOWN	None	None	None	None	222001008	222014008	-1	None	None
8	None	ENSG00000261087	ENST00000565617	lincRNA	KNOWN	None	None	None	None	102179033	102181857	-1	None	None
11	NXPE4	ENSG00000137634	ENST00000424261	protein_coding	KNOWN	CCDS44737	23117	783	260	114441313	114466472	-1	C11orf33, FAM55D	FLJ20127
11	NXPE4	ENSG00000137634	ENST00000375478	protein_coding	KNOWN	CCDS41718	23117	1635	544	114441654	114466484	-1	C11orf33, FAM55D	FLJ20127
9	None	ENSG00000233901	ENST00000427109	lincRNA	KNOWN	None	None	None	None	132094579	132101180	1	None	None
9	None	ENSG00000233901	ENST00000436710	lincRNA	KNOWN	None	None	None	None	132096185	132109678	1	None	None
9	None	ENSG00000233901	ENST00000444125	lincRNA	KNOWN	None	None	None	None	132099158	132109743	1	None	None
9	None	ENSG00000233901	ENST00000423122	lincRNA	KNOWN	None	None	None	None	132104122	132121817	1	None	None
17	None	ENSG00000267280	ENST00000592377	antisense	KNOWN	None	None	None	None	59470817	59471423	-1	None	None
17	None	ENSG00000267280	ENST00000590421	antisense	KNOWN	None	None	None	None	59470818	59476967	-1	None	None
17	None	ENSG00000267280	ENST00000586706	antisense	KNOWN	None	None	None	None	59470819	59472808	-1	None	None
17	None	ENSG00000267280	ENST00000589814	antisense	KNOWN	None	None	None	None	59470819	59476731	-1	None	None
17	None	ENSG00000267280	ENST00000591313	antisense	KNOWN	None	None	None	None	59470819	59476949	-1	None	None
17	None	ENSG00000267280	ENST00000592009	antisense	KNOWN	None	None	None	None	59470819	59488916	-1	None	None
HG104_HG975_PATCH	OPLAH	ENSG00000261479	ENST00000567069	processed_transcript	KNOWN	None	8149	None	None	145133436	145142875	-1	None	OPLA, 5-Opase
HG104_HG975_PATCH	OPLAH	ENSG00000261479	ENST00000568336	retained_intron	KNOWN	None	8149	None	None	145134942	145136825	-1	None	OPLA, 5-Opase
HG104_HG975_PATCH	OPLAH	ENSG00000261479	ENST00000566545	retained_intron	KNOWN	None	8149	None	None	145135385	145137051	-1	None	OPLA, 5-Opase
HG104_HG975_PATCH	OPLAH	ENSG00000261479	ENST00000561771	processed_transcript	KNOWN	None	8149	None	None	145141059	145146004	-1	None	OPLA, 5-Opase
12	HSP90B1	ENSG00000166598	ENST00000549334	protein_coding	PUTATIVE	None	12028	146	47	104323885	104326707	1	TRA1	GP96, GRP94
12	HSP90B1	ENSG00000166598	ENST00000299767	protein_coding	KNOWN	CCDS9094	12028	2412	803	104324112	104341704	1	TRA1	GP96, GRP94
12	HSP90B1	ENSG00000166598	ENST00000548622	retained_intron	KNOWN	None	12028	None	None	104324160	104325954	1	TRA1	GP96, GRP94
12	HSP90B1	ENSG00000166598	ENST00000540297	nonsense_mediated_decay	KNOWN	None	12028	162	53	104324188	104327768	1	TRA1	GP96, GRP94
12	HSP90B1	ENSG00000166598	ENST00000548462	retained_intron	KNOWN	None	12028	None	None	104324216	104341705	1	TRA1	GP96, GRP94
12	HSP90B1	ENSG00000166598	ENST00000550479	retained_intron	KNOWN	None	12028	None	None	104332016	104335546	1	TRA1	GP96, GRP94
12	HSP90B1	ENSG00000166598	ENST00000551983	retained_intron	KNOWN	None	12028	None	None	104335612	104337245	1	TRA1	GP96, GRP94
12	HSP90B1	ENSG00000166598	ENST00000552051	retained_intron	KNOWN	None	12028	None	None	104337397	104341178	1	TRA1	GP96, GRP94
12	HSP90B1	ENSG00000166598	ENST00000550595	protein_coding	PUTATIVE	None	12028	443	146	104337574	104347423	1	TRA1	GP96, GRP94
9	None	ENSG00000232158	ENST00000446114	processed_pseudogene	KNOWN	None	None	None	None	19705336	19705653	1	None	None
17	ZNF624	ENSG00000197566	ENST00000311331	protein_coding	KNOWN	CCDS11180	29254	2598	865	16524051	16557167	-1	None	KIAA1349
17	ZNF624	ENSG00000197566	ENST00000579528	retained_intron	KNOWN	None	29254	None	None	16524060	16528101	-1	None	KIAA1349
17	ZNF624	ENSG00000197566	ENST00000579983	processed_transcript	PUTATIVE	None	29254	None	None	16534658	16537961	-1	None	KIAA1349
17	ZNF624	ENSG00000197566	ENST00000583766	protein_coding	KNOWN	None	29254	376	124	16537176	16557170	-1	None	KIAA1349
17	ZNF624	ENSG00000197566	ENST00000423860	protein_coding	KNOWN	None	29254	332	109	16537220	16557152	-1	None	KIAA1349
1	RNU7-80P	ENSG00000238778	ENST00000459562	snRNA	KNOWN	None	34176	None	None	68238276	68238336	-1	None	U7.80
Y	None	ENSG00000235691	ENST00000416843	unprocessed_pseudogene	KNOWN	None	None	None	None	9928411	9928816	1	None	None
2	CENPA	ENSG00000115163	ENST00000475662	processed_transcript	KNOWN	None	1851	None	None	26987157	27017457	1	None	CENP-A, CenH3
2	CENPA	ENSG00000115163	ENST00000335756	protein_coding	KNOWN	CCDS1729	1851	423	140	27008865	27017461	1	None	CENP-A, CenH3
2	CENPA	ENSG00000115163	ENST00000472719	processed_transcript	KNOWN	None	1851	None	None	27008895	27016944	1	None	CENP-A, CenH3
2	CENPA	ENSG00000115163	ENST00000233505	protein_coding	KNOWN	CCDS42662	1851	345	114	27008936	27017457	1	None	CENP-A, CenH3
2	CENPA	ENSG00000115163	ENST00000419525	nonsense_mediated_decay	KNOWN	None	1851	261	86	27008970	27016810	1	None	CENP-A, CenH3
2	CENPA	ENSG00000115163	ENST00000460030	processed_transcript	KNOWN	None	1851	None	None	27009011	27023935	1	None	CENP-A, CenH3
9	None	ENSG00000266224	ENST00000401371	miRNA	NOVEL	None	None	None	None	19829751	19829845	1	None	None
3	SNORD66	ENSG00000212158	ENST00000390856	snoRNA	KNOWN	None	32727	None	None	184043484	184043559	1	None	HBII-142
19	None	ENSG00000204533	ENST00000376271	protein_coding	NOVEL	None	None	717	238	56662314	56663250	-1	None	None
15	None	ENSG00000258654	ENST00000556397	lincRNA	KNOWN	None	None	None	None	20549989	20564412	1	None	None
15	None	ENSG00000258654	ENST00000554815	lincRNA	KNOWN	None	None	None	None	20554571	20564419	1	None	None
15	None	ENSG00000258654	ENST00000557528	lincRNA	KNOWN	None	None	None	None	20557614	20561793	1	None	None
7	None	ENSG00000230981	ENST00000438406	pseudogene	NOVEL	None	None	None	None	16128696	16129261	-1	None	None
1	RNU6-171P	ENSG00000207082	ENST00000384354	snRNA	KNOWN	None	47134	None	None	164608802	164608908	1	None	None
14	LINC00523	ENSG00000196273	ENST00000556697	lincRNA	KNOWN	None	20117	None	None	101123587	101139112	1	C14orf70	None
14	LINC00523	ENSG00000196273	ENST00000360899	lincRNA	KNOWN	None	20117	None	None	101123605	101139081	1	C14orf70	None
14	LINC00523	ENSG00000196273	ENST00000553623	lincRNA	KNOWN	None	20117	None	None	101123695	101133882	1	C14orf70	None
14	LINC00523	ENSG00000196273	ENST00000553367	lincRNA	KNOWN	None	20117	None	None	101129423	101134109	1	C14orf70	None
14	LINC00523	ENSG00000196273	ENST00000556308	lincRNA	KNOWN	None	20117	None	None	101129423	101142406	1	C14orf70	None
14	LINC00523	ENSG00000196273	ENST00000554195	lincRNA	KNOWN	None	20117	None	None	101129458	101129983	1	C14orf70	None
12	None	ENSG00000257342	ENST00000549477	antisense	KNOWN	None	None	None	None	58087915	58115293	-1	None	None
9	None	ENSG00000261402	ENST00000568063	lincRNA	KNOWN	None	None	None	None	19926092	19929935	1	None	None
1	None	ENSG00000269887	ENST00000602747	sense_intronic	KNOWN	None	None	None	None	164649322	164650036	1	None	None
4	None	ENSG00000248863	ENST00000602907	processed_transcript	KNOWN	None	None	None	None	140347453	140348449	-1	None	None
4	None	ENSG00000248863	ENST00000512815	transcribed_processed_pseudogene	KNOWN	None	None	None	None	140347997	140352038	-1	None	None
1	GNG12-AS1	ENSG00000232284	ENST00000420587	antisense	KNOWN	None	43938	None	None	68297986	68668670	1	None	None
1	GNG12-AS1	ENSG00000232284	ENST00000413628	antisense	KNOWN	None	43938	None	None	68297992	68668670	1	None	None
1	GNG12-AS1	ENSG00000232284	ENST00000414904	antisense	KNOWN	None	43938	None	None	68421088	68492445	1	None	None
1	GNG12-AS1	ENSG00000232284	ENST00000434072	antisense	KNOWN	None	43938	None	None	68604040	68607471	1	None	None
1	RNU6-403P	ENSG00000200033	ENST00000363163	snRNA	KNOWN	None	47366	None	None	222010676	222010779	-1	None	None
12	None	ENSG00000270718	ENST00000603311	processed_pseudogene	KNOWN	None	None	None	None	39564448	39564682	1	None	None
3	None	ENSG00000222683	ENST00000410751	miRNA	NOVEL	None	None	None	None	130088070	130088187	-1	None	None
7	OR2A3P	ENSG00000183122	ENST00000493774	unprocessed_pseudogene	KNOWN	None	8231	None	None	143854319	143855271	1	None	None
12	None	ENSG00000252974	ENST00000517165	miRNA	NOVEL	None	None	None	None	39836850	39836918	-1	None	None
3	RN7SKP212	ENSG00000222783	ENST00000410851	misc_RNA	KNOWN	None	45936	None	None	130530612	130530939	-1	None	None
1	None	ENSG00000238042	ENST00000433576	lincRNA	KNOWN	None	None	None	None	222054323	222092054	-1	None	None
1	None	ENSG00000238042	ENST00000412445	lincRNA	KNOWN	None	None	None	None	222086990	222151865	-1	None	None
9	RN7SL159P	ENSG00000242281	ENST00000485164	misc_RNA	KNOWN	None	46175	None	None	132132452	132132740	-1	None	None
9	None	ENSG00000233651	ENST00000428709	lincRNA	KNOWN	None	None	None	None	46698472	46705305	-1	None	None
1	None	ENSG00000233693	ENST00000421530	antisense	KNOWN	None	None	None	None	164738353	164743878	-1	None	None
19	MEIS3	ENSG00000105419	ENST00000561204	retained_intron	KNOWN	None	29537	None	None	47906381	47922058	-1	None	MRG2, DKFZp547H236
19	MEIS3	ENSG00000105419	ENST00000441740	protein_coding	KNOWN	CCDS46132	29537	1077	358	47906381	47922572	-1	None	MRG2, DKFZp547H236
19	MEIS3	ENSG00000105419	ENST00000331559	protein_coding	NOVEL	None	29537	1215	404	47906381	47922780	-1	None	MRG2, DKFZp547H236
19	MEIS3	ENSG00000105419	ENST00000560245	protein_coding	NOVEL	None	29537	753	250	47906382	47918195	-1	None	MRG2, DKFZp547H236
19	MEIS3	ENSG00000105419	ENST00000561096	protein_coding	PUTATIVE	None	29537	1392	463	47906382	47921049	-1	None	MRG2, DKFZp547H236
19	MEIS3	ENSG00000105419	ENST00000561293	protein_coding	KNOWN	CCDS33064	29537	1266	421	47906383	47922545	-1	None	MRG2, DKFZp547H236
19	MEIS3	ENSG00000105419	ENST00000560253	processed_transcript	KNOWN	None	29537	None	None	47906385	47915644	-1	None	MRG2, DKFZp547H236
19	MEIS3	ENSG00000105419	ENST00000558555	protein_coding	NOVEL	None	29537	1128	375	47906429	47922526	-1	None	MRG2, DKFZp547H236
19	MEIS3	ENSG00000105419	ENST00000559524	protein_coding	KNOWN	CCDS33064	29537	1266	421	47909213	47922379	-1	None	MRG2, DKFZp547H236
19	MEIS3	ENSG00000105419	ENST00000607695	protein_coding	NOVEL	None	29537	378	125	47910355	47912409	-1	None	MRG2, DKFZp547H236
19	MEIS3	ENSG00000105419	ENST00000559338	protein_coding	NOVEL	None	29537	532	176	47910726	47919982	-1	None	MRG2, DKFZp547H236
19	MEIS3	ENSG00000105419	ENST00000557833	protein_coding	NOVEL	None	29537	662	219	47918093	47922409	-1	None	MRG2, DKFZp547H236
19	MEIS3	ENSG00000105419	ENST00000607330	processed_transcript	KNOWN	None	29537	None	None	47918320	47922780	-1	None	MRG2, DKFZp547H236
19	MEIS3	ENSG00000105419	ENST00000561040	retained_intron	KNOWN	None	29537	None	None	47919133	47921155	-1	None	MRG2, DKFZp547H236
3	RNU4-85P	ENSG00000201545	ENST00000364675	snRNA	KNOWN	None	47021	None	None	20038295	20038417	1	None	None
9	None	ENSG00000236146	ENST00000444641	processed_pseudogene	KNOWN	None	None	None	None	132142415	132142749	-1	None	None
12	None	ENSG00000255991	ENST00000396414	processed_pseudogene	KNOWN	None	None	None	None	39860244	39861147	-1	None	None
4	None	ENSG00000239005	ENST00000459613	snoRNA	KNOWN	None	None	None	None	140357522	140357648	-1	None	None
12	None	ENSG00000257499	ENST00000602413	3prime_overlapping_ncrna	KNOWN	None	None	None	None	58117544	58118237	-1	None	None
12	None	ENSG00000257499	ENST00000548410	3prime_overlapping_ncrna	KNOWN	None	None	None	None	58117544	58119448	-1	None	None
12	RNA5SP373	ENSG00000253080	ENST00000517271	rRNA	KNOWN	None	43273	None	None	111777331	111777425	1	RN5S373	None
19	GALP	ENSG00000197487	ENST00000357330	protein_coding	KNOWN	CCDS12940	24840	351	116	56687389	56697144	1	None	None
19	GALP	ENSG00000197487	ENST00000590002	protein_coding	KNOWN	CCDS46202	24840	150	49	56688478	56693603	1	None	None
19	GALP	ENSG00000197487	ENST00000440823	protein_coding	KNOWN	CCDS46202	24840	150	49	56687389	56697144	1	None	None
17	HOXB7	ENSG00000260027	ENST00000239165	protein_coding	KNOWN	CCDS11532	5118	654	217	46684594	46688379	-1	HOX2, HOX2C	None
17	HOXB7	ENSG00000260027	ENST00000567101	processed_transcript	KNOWN	None	5118	None	None	46684989	46716647	-1	HOX2, HOX2C	None
17	HOXB7	ENSG00000260027	ENST00000467314	processed_transcript	PUTATIVE	None	5118	None	None	46685078	46685688	-1	HOX2, HOX2C	None
17	HOXB7	ENSG00000260027	ENST00000433510	processed_transcript	KNOWN	None	5118	None	None	46713654	46724385	-1	HOX2, HOX2C	None
17	HOXB7	ENSG00000260027	ENST00000425510	processed_transcript	PUTATIVE	None	5118	None	None	46713908	46716472	-1	HOX2, HOX2C	None
10	None	ENSG00000203876	ENST00000369657	protein_coding	PUTATIVE	None	None	321	106	111701029	111713649	-1	None	None
10	None	ENSG00000203876	ENST00000369655	protein_coding	PUTATIVE	None	None	300	99	111705330	111713649	-1	None	None
10	None	ENSG00000203876	ENST00000538668	protein_coding	KNOWN	None	None	321	106	111702418	111713633	-1	None	None
7	None	ENSG00000224683	ENST00000415878	processed_pseudogene	KNOWN	None	None	None	None	16248570	16248890	1	None	None
7	OR2AO1P	ENSG00000240621	ENST00000476497	unprocessed_pseudogene	KNOWN	None	31247	None	None	143873833	143874235	1	None	None
4	FTH1P24	ENSG00000249302	ENST00000503502	processed_pseudogene	KNOWN	None	37642	None	None	140467420	140467881	1	FTHL24	None
15	None	ENSG00000239022	ENST00000459291	miRNA	NOVEL	None	None	None	None	79406635	79406701	1	None	None
X	XRCC6P5	ENSG00000215070	ENST00000435236	processed_pseudogene	KNOWN	None	45187	None	None	98974362	98976156	-1	None	None
X	XRCC6P5	ENSG00000215070	ENST00000399535	processed_pseudogene	KNOWN	None	45187	None	None	98716600	98975770	-1	None	None
9	None	ENSG00000226429	ENST00000427536	unprocessed_pseudogene	KNOWN	None	None	None	None	46706671	46706979	-1	None	None
1	None	ENSG00000271917	ENST00000607752	sense_intronic	KNOWN	None	None	None	None	164797673	164799189	1	None	None
3	None	ENSG00000230697	ENST00000449663	processed_pseudogene	KNOWN	None	None	None	None	20049344	20049739	-1	None	None
4	None	ENSG00000261268	ENST00000561977	lincRNA	KNOWN	None	None	None	None	140539290	140544386	-1	None	None
2	ANKRD36BP2	ENSG00000230006	ENST00000421951	processed_transcript	KNOWN	None	33607	None	None	89065324	89079082	1	None	None
2	ANKRD36BP2	ENSG00000230006	ENST00000393525	processed_transcript	KNOWN	None	33607	None	None	89065385	89106126	1	None	None
2	ANKRD36BP2	ENSG00000230006	ENST00000427055	processed_transcript	KNOWN	None	33607	None	None	89065398	89076092	1	None	None
2	ANKRD36BP2	ENSG00000230006	ENST00000393515	processed_transcript	KNOWN	None	33607	None	None	89065419	89106116	1	None	None
2	ANKRD36BP2	ENSG00000230006	ENST00000443770	processed_transcript	KNOWN	None	33607	None	None	89065460	89073085	1	None	None
2	ANKRD36BP2	ENSG00000230006	ENST00000575193	transcribed_unprocessed_pseudogene	KNOWN	None	33607	None	None	89082229	89104917	1	None	None
2	ANKRD36BP2	ENSG00000230006	ENST00000454490	retained_intron	KNOWN	None	33607	None	None	89100447	89106125	1	None	None
9	LHX2	ENSG00000106689	ENST00000560961	protein_coding	PUTATIVE	None	6594	471	156	126763949	126777640	1	None	LH-2, hLhx2
9	LHX2	ENSG00000106689	ENST00000373615	protein_coding	KNOWN	CCDS6853	6594	1221	406	126773889	126795580	1	None	LH-2, hLhx2
9	LHX2	ENSG00000106689	ENST00000446480	protein_coding	NOVEL	None	6594	1237	411	126774636	126795163	1	None	LH-2, hLhx2
9	LHX2	ENSG00000106689	ENST00000488674	protein_coding	NOVEL	None	6594	347	114	126777676	126795580	1	None	LH-2, hLhx2
3	MIR1263	ENSG00000221251	ENST00000408324	miRNA	KNOWN	None	35329	None	None	163889259	163889344	-1	MIRN1263	hsa-mir-1263
3	GSTO3P	ENSG00000232829	ENST00000504733	processed_pseudogene	KNOWN	None	23065	None	None	130546503	130547220	1	GSTO3P1	None
1	None	ENSG00000201987	ENST00000365117	misc_RNA	NOVEL	None	None	None	None	164823468	164823569	1	None	None
3	None	ENSG00000229468	ENST00000450678	processed_pseudogene	KNOWN	None	None	None	None	20053944	20054098	1	None	None
1	None	ENSG00000228437	ENST00000421147	lincRNA	KNOWN	None	None	None	None	222139683	222156485	1	None	None
1	None	ENSG00000228437	ENST00000441160	lincRNA	KNOWN	None	None	None	None	222139752	222158306	1	None	None
Y	RNA5SP519	ENSG00000252289	ENST00000516480	rRNA	KNOWN	None	43419	None	None	9930484	9930602	-1	RN5S519	None
18	NPM1P2	ENSG00000266227	ENST00000578162	processed_pseudogene	KNOWN	None	7922	None	None	23784833	23785868	1	NPMP2	NG2-6
1	None	ENSG00000225487	ENST00000440329	processed_pseudogene	KNOWN	None	None	None	None	164890555	164890866	-1	None	None
17	None	ENSG00000265130	ENST00000583075	antisense	KNOWN	None	None	None	None	36757302	36758954	1	None	None
7	None	ENSG00000256178	ENST00000436946	processed_pseudogene	KNOWN	None	None	None	None	143880548	143883173	1	None	None
19	HOMER3	ENSG00000051128	ENST00000221222	protein_coding	KNOWN	CCDS46023	17514	1077	358	19040012	19049858	-1	None	HOMER-3
19	HOMER3	ENSG00000051128	ENST00000539827	protein_coding	KNOWN	CCDS12391	17514	1086	361	19040012	19050444	-1	None	HOMER-3
19	HOMER3	ENSG00000051128	ENST00000392351	protein_coding	KNOWN	CCDS12391	17514	1086	361	19040012	19052023	-1	None	HOMER-3
19	HOMER3	ENSG00000051128	ENST00000594794	protein_coding	NOVEL	None	17514	459	152	19040015	19051999	-1	None	HOMER-3
19	HOMER3	ENSG00000051128	ENST00000594439	protein_coding	KNOWN	CCDS46022	17514	978	325	19040248	19049791	-1	None	HOMER-3
19	HOMER3	ENSG00000051128	ENST00000542541	protein_coding	KNOWN	CCDS12391	17514	1086	361	19040252	19051113	-1	None	HOMER-3
19	HOMER3	ENSG00000051128	ENST00000595756	retained_intron	KNOWN	None	17514	None	None	19042049	19043856	-1	None	HOMER-3
19	HOMER3	ENSG00000051128	ENST00000596482	protein_coding	KNOWN	None	17514	730	242	19042395	19052070	-1	None	HOMER-3
19	HOMER3	ENSG00000051128	ENST00000600077	protein_coding	KNOWN	None	17514	452	149	19043814	19051931	-1	None	HOMER-3
19	HOMER3	ENSG00000051128	ENST00000599808	retained_intron	KNOWN	None	17514	None	None	19049198	19049836	-1	None	HOMER-3
19	HOMER3	ENSG00000051128	ENST00000599097	protein_coding	KNOWN	None	17514	257	84	19049208	19051575	-1	None	HOMER-3
19	HOMER3	ENSG00000051128	ENST00000433218	protein_coding	KNOWN	CCDS46023	17514	1077	358	19040010	19051161	-1	None	HOMER-3
19	HOMER3	ENSG00000051128	ENST00000355887	protein_coding	KNOWN	CCDS46023	17514	1077	358	19040252	19051999	-1	None	HOMER-3
3	EIF2B5-IT1	ENSG00000227509	ENST00000451348	sense_intronic	KNOWN	None	41330	None	None	184222901	184226187	1	None	None
15	None	ENSG00000259234	ENST00000560872	lincRNA	KNOWN	None	None	None	None	79484049	79576167	-1	None	None
15	None	ENSG00000259234	ENST00000559225	lincRNA	KNOWN	None	None	None	None	79484313	79576213	-1	None	None
15	None	ENSG00000259234	ENST00000560533	lincRNA	KNOWN	None	None	None	None	79505439	79576197	-1	None	None
15	None	ENSG00000259234	ENST00000560732	lincRNA	KNOWN	None	None	None	None	79528908	79576173	-1	None	None
15	None	ENSG00000259234	ENST00000559979	lincRNA	KNOWN	None	None	None	None	79529048	79576183	-1	None	None
15	None	ENSG00000259234	ENST00000560452	lincRNA	KNOWN	None	None	None	None	79529085	79576156	-1	None	None
15	None	ENSG00000259234	ENST00000557790	lincRNA	KNOWN	None	None	None	None	79529189	79576287	-1	None	None
15	None	ENSG00000259234	ENST00000558297	lincRNA	KNOWN	None	None	None	None	79529223	79576287	-1	None	None
17	None	ENSG00000267137	ENST00000592766	antisense	KNOWN	None	None	None	None	59537585	59540745	-1	None	None
1	HIGD1AP12	ENSG00000236012	ENST00000427832	processed_pseudogene	KNOWN	None	43007	None	None	111922913	111923193	1	None	None
1	None	ENSG00000235055	ENST00000435784	processed_pseudogene	KNOWN	None	None	None	None	68509013	68509916	1	None	None
17	RN7SL102P	ENSG00000265081	ENST00000579453	misc_RNA	KNOWN	None	46118	None	None	36777453	36777733	-1	None	None
19	RN7SL758P	ENSG00000266164	ENST00000580450	misc_RNA	KNOWN	None	46774	None	None	41112673	41112955	-1	None	None
1	None	ENSG00000212094	ENST00000390805	miRNA	NOVEL	None	None	None	None	222186349	222186432	-1	None	None
11	None	ENSG00000254818	ENST00000530354	unprocessed_pseudogene	KNOWN	None	None	None	None	89677203	89682570	1	None	None
17	None	ENSG00000196861	ENST00000447590	processed_pseudogene	NOVEL	None	None	None	None	59667894	59668541	-1	None	None
17	MIR4734	ENSG00000265930	ENST00000581337	miRNA	KNOWN	None	41572	None	None	36858515	36858584	-1	None	hsa-mir-4734
3	TP63	ENSG00000073282	ENST00000486398	retained_intron	KNOWN	None	15979	None	None	189349205	189456685	1	TP73L, TP53L, TP53CP	p51, SHFM4, EEC3, p63, p73L, OFC8, KET, p73H, NBP, p53CP
3	TP63	ENSG00000073282	ENST00000264731	protein_coding	KNOWN	CCDS3293	15979	2043	680	189349216	189615068	1	TP73L, TP53L, TP53CP	p51, SHFM4, EEC3, p63, p73L, OFC8, KET, p73H, NBP, p53CP
3	TP63	ENSG00000073282	ENST00000418709	protein_coding	KNOWN	CCDS46977	15979	1464	487	189349277	189599285	1	TP73L, TP53L, TP53CP	p51, SHFM4, EEC3, p63, p73L, OFC8, KET, p73H, NBP, p53CP
3	TP63	ENSG00000073282	ENST00000320472	protein_coding	KNOWN	None	15979	1533	510	189349277	189612491	1	TP73L, TP53L, TP53CP	p51, SHFM4, EEC3, p63, p73L, OFC8, KET, p73H, NBP, p53CP
3	TP63	ENSG00000073282	ENST00000392460	protein_coding	KNOWN	CCDS46976	15979	1668	555	189349305	189612010	1	TP73L, TP53L, TP53CP	p51, SHFM4, EEC3, p63, p73L, OFC8, KET, p73H, NBP, p53CP
3	TP63	ENSG00000073282	ENST00000440651	protein_coding	KNOWN	None	15979	2031	676	189349305	189612291	1	TP73L, TP53L, TP53CP	p51, SHFM4, EEC3, p63, p73L, OFC8, KET, p73H, NBP, p53CP
3	TP63	ENSG00000073282	ENST00000354600	protein_coding	KNOWN	CCDS46978	15979	1761	586	189507449	189615057	1	TP73L, TP53L, TP53CP	p51, SHFM4, EEC3, p63, p73L, OFC8, KET, p73H, NBP, p53CP
3	TP63	ENSG00000073282	ENST00000434928	protein_coding	PUTATIVE	None	15979	550	182	189507464	189582057	1	TP73L, TP53L, TP53CP	p51, SHFM4, EEC3, p63, p73L, OFC8, KET, p73H, NBP, p53CP
3	TP63	ENSG00000073282	ENST00000460036	retained_intron	KNOWN	None	15979	None	None	189507484	189591364	1	TP73L, TP53L, TP53CP	p51, SHFM4, EEC3, p63, p73L, OFC8, KET, p73H, NBP, p53CP
3	TP63	ENSG00000073282	ENST00000437221	protein_coding	KNOWN	CCDS46980	15979	1182	393	189507590	189599285	1	TP73L, TP53L, TP53CP	p51, SHFM4, EEC3, p63, p73L, OFC8, KET, p73H, NBP, p53CP
3	TP63	ENSG00000073282	ENST00000392463	protein_coding	KNOWN	CCDS46979	15979	1386	461	189507590	189612010	1	TP73L, TP53L, TP53CP	p51, SHFM4, EEC3, p63, p73L, OFC8, KET, p73H, NBP, p53CP
3	TP63	ENSG00000073282	ENST00000392461	protein_coding	KNOWN	None	15979	1251	416	189507590	189612020	1	TP73L, TP53L, TP53CP	p51, SHFM4, EEC3, p63, p73L, OFC8, KET, p73H, NBP, p53CP
3	TP63	ENSG00000073282	ENST00000449992	protein_coding	KNOWN	None	15979	1506	501	189507590	189612291	1	TP73L, TP53L, TP53CP	p51, SHFM4, EEC3, p63, p73L, OFC8, KET, p73H, NBP, p53CP
3	TP63	ENSG00000073282	ENST00000456148	protein_coding	KNOWN	None	15979	1749	582	189507590	189612291	1	TP73L, TP53L, TP53CP	p51, SHFM4, EEC3, p63, p73L, OFC8, KET, p73H, NBP, p53CP
3	TP63	ENSG00000073282	ENST00000382063	protein_coding	KNOWN	None	15979	1788	595	189349216	189615068	1	TP73L, TP53L, TP53CP	p51, SHFM4, EEC3, p63, p73L, OFC8, KET, p73H, NBP, p53CP
19	RNU6-195P	ENSG00000223284	ENST00000411352	snRNA	KNOWN	None	47158	None	None	41213960	41214068	-1	None	None
3	GAPDHP50	ENSG00000241861	ENST00000464421	processed_pseudogene	KNOWN	None	38556	None	None	89096592	89097584	-1	None	None
1	ARL5AP3	ENSG00000228431	ENST00000439327	processed_pseudogene	KNOWN	None	43935	None	None	68515043	68515428	-1	None	None
8	None	ENSG00000253762	ENST00000522857	lincRNA	KNOWN	None	None	None	None	64617314	64664235	1	None	None
17	None	ENSG00000202361	ENST00000365491	misc_RNA	NOVEL	None	None	None	None	59951445	59951543	-1	None	None
1	None	ENSG00000232679	ENST00000438158	lincRNA	KNOWN	None	None	None	None	222215047	222238105	-1	None	None
13	None	ENSG00000227911	ENST00000443576	lincRNA	KNOWN	None	None	None	None	33907983	33909403	-1	None	None
18	FAM60BP	ENSG00000263829	ENST00000578364	processed_pseudogene	KNOWN	None	19052	None	None	23835662	23836319	-1	None	HsT2323
12	None	ENSG00000258148	ENST00000546853	processed_pseudogene	KNOWN	None	None	None	None	91587486	91587719	1	None	None
12	None	ENSG00000249054	ENST00000504074	lincRNA	KNOWN	None	None	None	None	67607	69138	1	None	None
12	None	ENSG00000249054	ENST00000546223	lincRNA	KNOWN	None	None	None	None	67638	69079	1	None	None
17	None	ENSG00000261005	ENST00000563897	lincRNA	KNOWN	None	None	None	None	36858705	36861000	1	None	None
19	CYP2T2P	ENSG00000233622	ENST00000432607	unitary_pseudogene	KNOWN	None	18852	None	None	41314430	41317295	-1	None	None
17	RN7SL800P	ENSG00000242398	ENST00000484823	misc_RNA	KNOWN	None	46816	None	None	60083100	60083348	-1	None	None
13	None	ENSG00000264288	ENST00000577451	miRNA	NOVEL	None	None	None	None	33911020	33911109	-1	None	None
17	None	ENSG00000221302	ENST00000408375	miRNA	NOVEL	None	None	None	None	60093218	60093298	-1	None	None
5	None	ENSG00000252337	ENST00000516528	snoRNA	NOVEL	None	None	None	None	105882366	105882504	1	None	None
1	RNU6-755P	ENSG00000201270	ENST00000364400	snRNA	KNOWN	None	47718	None	None	164949272	164949374	-1	None	None
17	None	ENSG00000266040	ENST00000583409	antisense	KNOWN	None	None	None	None	36859733	36862514	-1	None	None
15	None	ENSG00000259513	ENST00000559840	transcribed_processed_pseudogene	KNOWN	None	None	None	None	60850279	60850600	1	None	None
3	None	ENSG00000240951	ENST00000463134	processed_pseudogene	KNOWN	None	None	None	None	89637036	89637720	-1	None	None
1	None	ENSG00000263542	ENST00000581793	miRNA	NOVEL	None	None	None	None	68523860	68523945	1	None	None
17	None	ENSG00000200842	ENST00000363972	misc_RNA	NOVEL	None	None	None	None	60114194	60114306	1	None	None
18	None	ENSG00000266237	ENST00000580975	sense_intronic	KNOWN	None	None	None	None	23845973	23847373	1	None	None
1	None	ENSG00000212086	ENST00000390797	miRNA	NOVEL	None	None	None	None	164953139	164953229	-1	None	None
13	None	ENSG00000230490	ENST00000454681	lincRNA	KNOWN	None	None	None	None	33929343	34250905	-1	None	None
13	None	ENSG00000230490	ENST00000437698	lincRNA	KNOWN	None	None	None	None	34085467	34098459	-1	None	None
13	None	ENSG00000230490	ENST00000445227	lincRNA	KNOWN	None	None	None	None	34228796	34250861	-1	None	None
5	None	ENSG00000251027	ENST00000513273	lincRNA	KNOWN	None	None	None	None	106150898	106346715	-1	None	None
5	None	ENSG00000251027	ENST00000505997	lincRNA	KNOWN	None	None	None	None	106150906	106316570	-1	None	None
1	None	ENSG00000236230	ENST00000416510	lincRNA	KNOWN	None	None	None	None	222262511	222560776	-1	None	None
14	None	ENSG00000258364	ENST00000550928	lincRNA	KNOWN	None	None	None	None	19412520	19413898	1	None	None
12	None	ENSG00000257152	ENST00000546609	processed_transcript	KNOWN	None	None	None	None	58158794	58162769	-1	None	None
17	None	ENSG00000207123	ENST00000384395	misc_RNA	NOVEL	None	None	None	None	60199681	60199782	1	None	None
12	None	ENSG00000270273	ENST00000605387	processed_pseudogene	KNOWN	None	None	None	None	39933383	39933653	-1	None	None
1	None	ENSG00000252359	ENST00000516550	snoRNA	NOVEL	None	None	None	None	165041710	165041781	-1	None	None
17	None	ENSG00000263975	ENST00000579499	antisense	KNOWN	None	None	None	None	36871581	36876525	-1	None	None
1	CTBP2P8	ENSG00000234383	ENST00000422584	processed_pseudogene	KNOWN	None	45200	None	None	68627444	68628773	-1	None	None
6	RN7SKP240	ENSG00000222515	ENST00000410583	misc_RNA	KNOWN	None	45964	None	None	22085773	22086147	1	None	None
1	PGCP1	ENSG00000227179	ENST00000436252	transcribed_unprocessed_pseudogene	KNOWN	None	39503	None	None	111925482	111934441	-1	None	None
1	PGCP1	ENSG00000227179	ENST00000411951	processed_transcript	KNOWN	None	39503	None	None	111927141	111932473	-1	None	None
17	TSR1	ENSG00000167721	ENST00000301364	protein_coding	KNOWN	CCDS32525	25542	2415	804	2225951	2240801	-1	None	FLJ10534
17	TSR1	ENSG00000167721	ENST00000575049	nonsense_mediated_decay	KNOWN	None	25542	161	52	2227985	2234260	-1	None	FLJ10534
17	TSR1	ENSG00000167721	ENST00000570951	retained_intron	KNOWN	None	25542	None	None	2236684	2238128	-1	None	FLJ10534
17	TSR1	ENSG00000167721	ENST00000576112	protein_coding	PUTATIVE	None	25542	632	209	2238067	2239751	-1	None	FLJ10534
17	TSR1	ENSG00000167721	ENST00000571806	nonsense_mediated_decay	KNOWN	None	25542	213	70	2238079	2239951	-1	None	FLJ10534
17	TSR1	ENSG00000167721	ENST00000576202	retained_intron	KNOWN	None	25542	None	None	2238859	2239737	-1	None	FLJ10534
19	CYP2F1P	ENSG00000237118	ENST00000437853	unitary_pseudogene	KNOWN	None	18851	None	None	41324626	41332677	-1	None	None
17	POLRMTP1	ENSG00000266066	ENST00000578759	processed_pseudogene	KNOWN	None	28865	None	None	60214333	60218000	-1	POLRMTL	None
8	None	ENSG00000253734	ENST00000519550	lincRNA	KNOWN	None	None	None	None	64681988	64698058	1	None	None
6	None	ENSG00000260455	ENST00000566912	lincRNA	KNOWN	None	None	None	None	22135186	22147422	-1	None	None
1	None	ENSG00000224702	ENST00000457106	antisense	KNOWN	None	None	None	None	165179864	165182327	1	None	None
3	None	ENSG00000240309	ENST00000481192	processed_pseudogene	KNOWN	None	None	None	None	89637864	89639247	-1	None	None
14	None	ENSG00000257731	ENST00000546860	processed_pseudogene	KNOWN	None	None	None	None	19421521	19422698	-1	None	None
12	None	ENSG00000257595	ENST00000552663	lincRNA	KNOWN	None	None	None	None	111807086	111841114	1	None	None
12	None	ENSG00000257595	ENST00000548846	lincRNA	KNOWN	None	None	None	None	111834639	111841111	1	None	None
17	MIR4726	ENSG00000266632	ENST00000577947	miRNA	KNOWN	None	41722	None	None	36875944	36876001	1	None	hsa-mir-4726
3	None	ENSG00000250592	ENST00000504737	antisense	KNOWN	None	None	None	None	130618258	130648820	-1	None	None
1	QRSL1P2	ENSG00000227613	ENST00000418582	processed_pseudogene	KNOWN	None	43668	None	None	222435175	222436138	-1	None	None
16	None	ENSG00000222055	ENST00000410123	miRNA	NOVEL	None	None	None	None	2763020	2763101	1	None	None
6	None	ENSG00000219404	ENST00000403247	processed_pseudogene	KNOWN	None	None	None	None	22213535	22214466	-1	None	None
19	FUT2	ENSG00000176920	ENST00000522966	protein_coding	KNOWN	None	4013	660	219	49199228	49206873	1	SE	sej, Se2, SEC2
19	FUT2	ENSG00000176920	ENST00000425340	protein_coding	KNOWN	CCDS33069	4013	1032	343	49199232	49209207	1	SE	sej, Se2, SEC2
19	FUT2	ENSG00000176920	ENST00000522283	processed_transcript	KNOWN	None	4013	None	None	49199290	49199900	1	SE	sej, Se2, SEC2
19	FUT2	ENSG00000176920	ENST00000391876	protein_coding	KNOWN	CCDS33069	4013	1032	343	49199232	49208909	1	SE	sej, Se2, SEC2
15	None	ENSG00000239083	ENST00000459119	snoRNA	NOVEL	None	None	None	None	20557339	20557434	-1	None	None
1	ZNF692	ENSG00000171163	ENST00000463519	nonsense_mediated_decay	KNOWN	None	26049	291	96	249144205	249152912	-1	None	FLJ20531, Zfp692
1	ZNF692	ENSG00000171163	ENST00000306601	protein_coding	KNOWN	CCDS31127	26049	1560	519	249144205	249153271	-1	None	FLJ20531, Zfp692
1	ZNF692	ENSG00000171163	ENST00000366471	protein_coding	KNOWN	CCDS53487	26049	1425	474	249144207	249153284	-1	None	FLJ20531, Zfp692
1	ZNF692	ENSG00000171163	ENST00000533927	retained_intron	KNOWN	None	26049	None	None	249144208	249152083	-1	None	FLJ20531, Zfp692
1	ZNF692	ENSG00000171163	ENST00000476503	protein_coding	NOVEL	None	26049	820	272	249144223	249150142	-1	None	FLJ20531, Zfp692
1	ZNF692	ENSG00000171163	ENST00000366469	protein_coding	NOVEL	None	26049	1557	518	249144239	249153140	-1	None	FLJ20531, Zfp692
1	ZNF692	ENSG00000171163	ENST00000477070	nonsense_mediated_decay	KNOWN	None	26049	494	163	249144241	249151696	-1	None	FLJ20531, Zfp692
1	ZNF692	ENSG00000171163	ENST00000482023	nonsense_mediated_decay	KNOWN	None	26049	238	78	249144244	249149657	-1	None	FLJ20531, Zfp692
1	ZNF692	ENSG00000171163	ENST00000412341	nonsense_mediated_decay	KNOWN	None	26049	318	105	249144244	249153267	-1	None	FLJ20531, Zfp692
1	ZNF692	ENSG00000171163	ENST00000451251	protein_coding	KNOWN	CCDS44348	26049	1575	524	249144265	249153059	-1	None	FLJ20531, Zfp692
1	ZNF692	ENSG00000171163	ENST00000470787	retained_intron	KNOWN	None	26049	None	None	249144481	249153264	-1	None	FLJ20531, Zfp692
1	ZNF692	ENSG00000171163	ENST00000462037	retained_intron	KNOWN	None	26049	None	None	249144576	249148722	-1	None	FLJ20531, Zfp692
1	ZNF692	ENSG00000171163	ENST00000474351	retained_intron	KNOWN	None	26049	None	None	249144583	249150285	-1	None	FLJ20531, Zfp692
1	ZNF692	ENSG00000171163	ENST00000478107	retained_intron	KNOWN	None	26049	None	None	249149583	249152318	-1	None	FLJ20531, Zfp692
1	ZNF692	ENSG00000171163	ENST00000491971	retained_intron	KNOWN	None	26049	None	None	249149794	249151836	-1	None	FLJ20531, Zfp692
1	ZNF692	ENSG00000171163	ENST00000496411	nonsense_mediated_decay	KNOWN	None	26049	243	80	249149927	249153217	-1	None	FLJ20531, Zfp692
1	ZNF692	ENSG00000171163	ENST00000468455	processed_transcript	KNOWN	None	26049	None	None	249149981	249151971	-1	None	FLJ20531, Zfp692
1	ZNF692	ENSG00000171163	ENST00000483223	nonsense_mediated_decay	KNOWN	None	26049	243	80	249150714	249152728	-1	None	FLJ20531, Zfp692
1	ZNF692	ENSG00000171163	ENST00000533647	nonsense_mediated_decay	KNOWN	None	26049	243	80	249151472	249152523	-1	None	FLJ20531, Zfp692
1	ZNF692	ENSG00000171163	ENST00000496231	protein_coding	KNOWN	None	26049	396	131	249151512	249153266	-1	None	FLJ20531, Zfp692
1	ZNF692	ENSG00000171163	ENST00000495731	processed_transcript	KNOWN	None	26049	None	None	249151564	249153282	-1	None	FLJ20531, Zfp692
1	ZNF692	ENSG00000171163	ENST00000528141	nonsense_mediated_decay	KNOWN	None	26049	210	69	249151590	249153284	-1	None	FLJ20531, Zfp692
1	ZNF692	ENSG00000171163	ENST00000497847	retained_intron	KNOWN	None	26049	None	None	249151639	249153265	-1	None	FLJ20531, Zfp692
1	ZNF692	ENSG00000171163	ENST00000530986	nonsense_mediated_decay	KNOWN	None	26049	210	69	249151668	249153284	-1	None	FLJ20531, Zfp692
1	ZNF692	ENSG00000171163	ENST00000534660	retained_intron	KNOWN	None	26049	None	None	249151756	249153271	-1	None	FLJ20531, Zfp692
1	ZNF692	ENSG00000171163	ENST00000483791	retained_intron	KNOWN	None	26049	None	None	249151768	249153315	-1	None	FLJ20531, Zfp692
1	ZNF692	ENSG00000171163	ENST00000530699	retained_intron	KNOWN	None	26049	None	None	249151809	249152894	-1	None	FLJ20531, Zfp692
1	ZNF692	ENSG00000171163	ENST00000533614	processed_transcript	KNOWN	None	26049	None	None	249151851	249153284	-1	None	FLJ20531, Zfp692
1	ZNF692	ENSG00000171163	ENST00000496053	retained_intron	KNOWN	None	26049	None	None	249151868	249153270	-1	None	FLJ20531, Zfp692
1	ZNF692	ENSG00000171163	ENST00000534456	retained_intron	KNOWN	None	26049	None	None	249152064	249153343	-1	None	FLJ20531, Zfp692
1	ZNF692	ENSG00000171163	ENST00000533976	retained_intron	KNOWN	None	26049	None	None	249152174	249153232	-1	None	FLJ20531, Zfp692
1	ZNF692	ENSG00000171163	ENST00000427146	protein_coding	KNOWN	CCDS53487	26049	1425	474	249144205	249153271	-1	None	FLJ20531, Zfp692
1	ZNF692	ENSG00000171163	ENST00000391820	protein_coding	KNOWN	None	26049	291	96	249152153	249153271	-1	None	FLJ20531, Zfp692
17	None	ENSG00000266365	ENST00000577881	unprocessed_pseudogene	KNOWN	None	None	None	None	60308831	60324514	-1	None	None
17	RNA5SP440	ENSG00000200115	ENST00000363245	rRNA	KNOWN	None	43340	None	None	36888055	36888173	-1	RN5S440	None
2	SEPT10	ENSG00000186522	ENST00000356688	protein_coding	PUTATIVE	None	14349	1635	544	110300559	110371720	-1	None	FLJ11619
2	SEPT10	ENSG00000186522	ENST00000397712	protein_coding	KNOWN	CCDS46383	14349	1365	454	110300559	110371783	-1	None	FLJ11619
2	SEPT10	ENSG00000186522	ENST00000397714	protein_coding	NOVEL	CCDS42726	14349	1296	431	110300563	110371504	-1	None	FLJ11619
2	SEPT10	ENSG00000186522	ENST00000437928	protein_coding	PUTATIVE	None	14349	1422	473	110301814	110371492	-1	None	FLJ11619
2	SEPT10	ENSG00000186522	ENST00000415095	protein_coding	PUTATIVE	None	14349	1353	450	110303379	110371412	-1	None	FLJ11619
2	SEPT10	ENSG00000186522	ENST00000468616	processed_transcript	KNOWN	None	14349	None	None	110303607	110325448	-1	None	FLJ11619
2	SEPT10	ENSG00000186522	ENST00000483047	retained_intron	KNOWN	None	14349	None	None	110321792	110325430	-1	None	FLJ11619
2	SEPT10	ENSG00000186522	ENST00000486678	nonsense_mediated_decay	KNOWN	None	14349	117	38	110321943	110371670	-1	None	FLJ11619
2	SEPT10	ENSG00000186522	ENST00000425498	nonsense_mediated_decay	KNOWN	None	14349	147	48	110322002	110371498	-1	None	FLJ11619
2	SEPT10	ENSG00000186522	ENST00000493445	protein_coding	PUTATIVE	None	14349	296	97	110322096	110371495	-1	None	FLJ11619
2	SEPT10	ENSG00000186522	ENST00000423520	protein_coding	PUTATIVE	None	14349	291	96	110323407	110371670	-1	None	FLJ11619
2	SEPT10	ENSG00000186522	ENST00000461295	protein_coding	PUTATIVE	None	14349	79	25	110325496	110371514	-1	None	FLJ11619
2	SEPT10	ENSG00000186522	ENST00000411469	protein_coding	PUTATIVE	None	14349	173	56	110343297	110371081	-1	None	FLJ11619
2	SEPT10	ENSG00000186522	ENST00000442746	protein_coding	PUTATIVE	None	14349	185	60	110343303	110371087	-1	None	FLJ11619
2	SEPT10	ENSG00000186522	ENST00000334001	protein_coding	KNOWN	None	14349	966	321	110301646	110371492	-1	None	FLJ11619
2	SEPT10	ENSG00000186522	ENST00000545389	protein_coding	KNOWN	None	14349	852	283	110303348	110371670	-1	None	FLJ11619
19	ZNF136	ENSG00000196646	ENST00000425827	protein_coding	PUTATIVE	None	12920	128	41	12273879	12297417	1	None	pHZ-20
19	ZNF136	ENSG00000196646	ENST00000439995	protein_coding	PUTATIVE	None	12920	267	88	12273879	12297658	1	None	pHZ-20
19	ZNF136	ENSG00000196646	ENST00000343979	protein_coding	KNOWN	CCDS32916	12920	1623	540	12273879	12300064	1	None	pHZ-20
19	ZNF136	ENSG00000196646	ENST00000418338	protein_coding	PUTATIVE	None	12920	78	25	12273931	12296972	1	None	pHZ-20
19	ZNF136	ENSG00000196646	ENST00000464860	retained_intron	KNOWN	None	12920	None	None	12295433	12299608	1	None	pHZ-20
19	ZNF136	ENSG00000196646	ENST00000476676	retained_intron	KNOWN	None	12920	None	None	12296644	12297493	1	None	pHZ-20
19	ZNF136	ENSG00000196646	ENST00000398616	protein_coding	KNOWN	None	12920	1425	474	12273922	12299143	1	None	pHZ-20
1	MIR1262	ENSG00000221203	ENST00000408276	miRNA	KNOWN	None	35328	None	None	68649201	68649293	-1	MIRN1262	hsa-mir-1262
15	None	ENSG00000259482	ENST00000558104	antisense	KNOWN	None	None	None	None	60973768	60979087	1	None	None
15	None	ENSG00000259482	ENST00000561413	antisense	KNOWN	None	None	None	None	60973826	60979057	1	None	None
19	None	ENSG00000269843	ENST00000596135	lincRNA	KNOWN	None	None	None	None	41337126	41343115	-1	None	None
14	None	ENSG00000258076	ENST00000549567	processed_pseudogene	KNOWN	None	None	None	None	19422468	19422980	1	None	None
17	RNU6-866P	ENSG00000252278	ENST00000516469	snRNA	KNOWN	None	47829	None	None	36911532	36911653	-1	None	None
3	None	ENSG00000252894	ENST00000517085	misc_RNA	NOVEL	None	None	None	None	130633185	130633296	-1	None	None
6	None	ENSG00000261568	ENST00000567753	lincRNA	KNOWN	None	None	None	None	22221010	22222624	1	None	None
1	None	ENSG00000238022	ENST00000441773	antisense	KNOWN	None	None	None	None	165185217	165188341	1	None	None
1	None	ENSG00000238022	ENST00000426178	antisense	KNOWN	None	None	None	None	165187652	165188284	1	None	None
13	None	ENSG00000234535	ENST00000442716	lincRNA	KNOWN	None	None	None	None	34185104	34185659	1	None	None
HG1063_PATCH	GIN1	ENSG00000263031	ENST00000571567	nonsense_mediated_decay	KNOWN	None	25959	243	80	102421704	102455812	-1	ZH2C2	FLJ20125, GIN-1, TGIN1
HG1063_PATCH	GIN1	ENSG00000263031	ENST00000571320	protein_coding	KNOWN	None	25959	1569	522	102422037	102455855	-1	ZH2C2	FLJ20125, GIN-1, TGIN1
HG1063_PATCH	GIN1	ENSG00000263031	ENST00000572271	protein_coding	KNOWN	None	25959	669	222	102423517	102455801	-1	ZH2C2	FLJ20125, GIN-1, TGIN1
HG1063_PATCH	GIN1	ENSG00000263031	ENST00000575036	processed_transcript	KNOWN	None	25959	None	None	102423519	102433397	-1	ZH2C2	FLJ20125, GIN-1, TGIN1
HG1063_PATCH	GIN1	ENSG00000263031	ENST00000575233	nonsense_mediated_decay	KNOWN	None	25959	243	80	102423830	102455793	-1	ZH2C2	FLJ20125, GIN-1, TGIN1
HG1063_PATCH	GIN1	ENSG00000263031	ENST00000574462	processed_transcript	KNOWN	None	25959	None	None	102437980	102440325	-1	ZH2C2	FLJ20125, GIN-1, TGIN1
HG1063_PATCH	GIN1	ENSG00000263031	ENST00000572630	retained_intron	KNOWN	None	25959	None	None	102442268	102455842	-1	ZH2C2	FLJ20125, GIN-1, TGIN1
17	MIR4727	ENSG00000263791	ENST00000584037	miRNA	KNOWN	None	41709	None	None	36982091	36982145	1	None	hsa-mir-4727
12	None	ENSG00000266465	ENST00000582738	miRNA	NOVEL	None	None	None	None	58168032	58168101	-1	None	None
1	RPS7P4	ENSG00000229133	ENST00000444127	processed_pseudogene	KNOWN	None	36000	None	None	68708157	68708738	-1	None	None
15	None	ENSG00000265002	ENST00000581090	miRNA	NOVEL	None	None	None	None	20563361	20563434	1	None	None
17	CLTC	ENSG00000141367	ENST00000393043	protein_coding	PUTATIVE	None	2092	4920	1639	57697219	57768187	1	CLTCL2	Hc
17	CLTC	ENSG00000141367	ENST00000269122	protein_coding	KNOWN	CCDS32696	2092	5028	1675	57697219	57773671	1	CLTCL2	Hc
17	CLTC	ENSG00000141367	ENST00000580081	protein_coding	NOVEL	None	2092	367	121	57697285	57724863	1	CLTCL2	Hc
17	CLTC	ENSG00000141367	ENST00000579456	protein_coding	NOVEL	None	2092	1839	612	57697293	57771475	1	CLTCL2	Hc
17	CLTC	ENSG00000141367	ENST00000584313	nonsense_mediated_decay	KNOWN	None	2092	294	97	57697304	57728677	1	CLTCL2	Hc
17	CLTC	ENSG00000141367	ENST00000585198	retained_intron	KNOWN	None	2092	None	None	57725007	57726056	1	CLTCL2	Hc
17	CLTC	ENSG00000141367	ENST00000472129	retained_intron	KNOWN	None	2092	None	None	57725601	57733592	1	CLTCL2	Hc
17	CLTC	ENSG00000141367	ENST00000483176	nonsense_mediated_decay	KNOWN	None	2092	73	23	57733322	57741353	1	CLTCL2	Hc
17	CLTC	ENSG00000141367	ENST00000466513	retained_intron	KNOWN	None	2092	None	None	57742051	57744427	1	CLTCL2	Hc
17	CLTC	ENSG00000141367	ENST00000579815	processed_transcript	KNOWN	None	2092	None	None	57748343	57754502	1	CLTCL2	Hc
17	CLTC	ENSG00000141367	ENST00000496076	retained_intron	KNOWN	None	2092	None	None	57761075	57761870	1	CLTCL2	Hc
17	CLTC	ENSG00000141367	ENST00000472651	protein_coding	PUTATIVE	None	2092	665	220	57761267	57771183	1	CLTCL2	Hc
17	CLTC	ENSG00000141367	ENST00000475458	protein_coding	PUTATIVE	None	2092	395	130	57762478	57764508	1	CLTCL2	Hc
17	CLTC	ENSG00000141367	ENST00000498711	retained_intron	KNOWN	None	2092	None	None	57766517	57772473	1	CLTCL2	Hc
1	None	ENSG00000226643	ENST00000455363	lincRNA	KNOWN	None	None	None	None	222626082	222628047	-1	None	None
7	SLC13A4	ENSG00000164707	ENST00000491630	processed_transcript	KNOWN	None	15827	None	None	135365985	135370433	-1	None	SUT-1, SUT1
7	SLC13A4	ENSG00000164707	ENST00000354042	protein_coding	KNOWN	CCDS5840	15827	1881	626	135365985	135412934	-1	None	SUT-1, SUT1
7	SLC13A4	ENSG00000164707	ENST00000471405	retained_intron	KNOWN	None	15827	None	None	135365989	135412952	-1	None	SUT-1, SUT1
7	SLC13A4	ENSG00000164707	ENST00000480376	retained_intron	KNOWN	None	15827	None	None	135384112	135390555	-1	None	SUT-1, SUT1
7	SLC13A4	ENSG00000164707	ENST00000478310	retained_intron	KNOWN	None	15827	None	None	135392185	135412922	-1	None	SUT-1, SUT1
3	MIR720	ENSG00000221755	ENST00000408828	miRNA	KNOWN	None	35375	None	None	164059129	164059238	1	MIRN720	hsa-mir-720
6	None	ENSG00000260049	ENST00000561912	antisense	KNOWN	None	None	None	None	22260653	22318027	1	None	None
7	None	ENSG00000229688	ENST00000438573	antisense	KNOWN	None	None	None	None	16250113	16310229	1	None	None
7	None	ENSG00000229688	ENST00000582683	antisense	KNOWN	None	None	None	None	16250132	16277031	1	None	None
7	None	ENSG00000229688	ENST00000579293	antisense	KNOWN	None	None	None	None	16250167	16287714	1	None	None
7	None	ENSG00000229688	ENST00000457112	antisense	KNOWN	None	None	None	None	16250169	16308872	1	None	None
7	None	ENSG00000229688	ENST00000436328	antisense	KNOWN	None	None	None	None	16308874	16310229	1	None	None
8	MSR1	ENSG00000038945	ENST00000262101	protein_coding	KNOWN	CCDS5995	7376	1356	451	15966940	16050224	-1	None	SCARA1, CD204
8	MSR1	ENSG00000038945	ENST00000445506	protein_coding	PUTATIVE	None	7376	1410	469	15967555	16043781	-1	None	SCARA1, CD204
8	MSR1	ENSG00000038945	ENST00000355282	protein_coding	KNOWN	CCDS5996	7376	1167	388	15967594	16035497	-1	None	SCARA1, CD204
8	MSR1	ENSG00000038945	ENST00000522672	protein_coding	PUTATIVE	None	7376	450	149	15978398	16021760	-1	None	SCARA1, CD204
8	MSR1	ENSG00000038945	ENST00000381998	protein_coding	KNOWN	CCDS5997	7376	1077	358	15996828	16050168	-1	None	SCARA1, CD204
8	MSR1	ENSG00000038945	ENST00000519060	nonsense_mediated_decay	KNOWN	None	7376	114	37	15998164	16050160	-1	None	SCARA1, CD204
8	MSR1	ENSG00000038945	ENST00000518960	protein_coding	KNOWN	None	7376	194	63	16032719	16072583	-1	None	SCARA1, CD204
8	MSR1	ENSG00000038945	ENST00000518026	protein_coding	PUTATIVE	None	7376	174	57	16032772	16424871	-1	None	SCARA1, CD204
8	MSR1	ENSG00000038945	ENST00000521876	processed_transcript	KNOWN	None	7376	None	None	16107907	16369425	-1	None	SCARA1, CD204
8	MSR1	ENSG00000038945	ENST00000518343	processed_transcript	KNOWN	None	7376	None	None	16113840	16424929	-1	None	SCARA1, CD204
8	MSR1	ENSG00000038945	ENST00000517522	processed_transcript	KNOWN	None	7376	None	None	16225595	16240837	-1	None	SCARA1, CD204
8	MSR1	ENSG00000038945	ENST00000520846	processed_transcript	KNOWN	None	7376	None	None	16325261	16353389	-1	None	SCARA1, CD204
8	MSR1	ENSG00000038945	ENST00000522130	processed_transcript	KNOWN	None	7376	None	None	16325273	16424999	-1	None	SCARA1, CD204
8	MSR1	ENSG00000038945	ENST00000350896	protein_coding	KNOWN	CCDS5996	7376	1167	388	15965387	16050300	-1	None	SCARA1, CD204
8	MSR1	ENSG00000038945	ENST00000536385	protein_coding	KNOWN	None	7376	399	132	15998164	16050160	-1	None	SCARA1, CD204
17	None	ENSG00000252699	ENST00000516890	snoRNA	NOVEL	None	None	None	None	37007777	37007912	-1	None	None
17	NLRP1	ENSG00000091592	ENST00000544378	nonsense_mediated_decay	KNOWN	CCDS32537	14374	4128	1375	5402747	5487829	-1	NALP1	KIAA0926, DKFZp586O1822, CARD7, NAC, CLR17.1, DEFCAP
17	NLRP1	ENSG00000091592	ENST00000574406	processed_transcript	KNOWN	None	14374	None	None	5402748	5406283	-1	NALP1	KIAA0926, DKFZp586O1822, CARD7, NAC, CLR17.1, DEFCAP
17	NLRP1	ENSG00000091592	ENST00000568641	processed_transcript	KNOWN	None	14374	None	None	5402759	5404465	-1	NALP1	KIAA0926, DKFZp586O1822, CARD7, NAC, CLR17.1, DEFCAP
17	NLRP1	ENSG00000091592	ENST00000262467	protein_coding	KNOWN	CCDS32537	14374	4128	1375	5404705	5487851	-1	NALP1	KIAA0926, DKFZp586O1822, CARD7, NAC, CLR17.1, DEFCAP
17	NLRP1	ENSG00000091592	ENST00000574512	retained_intron	KNOWN	None	14374	None	None	5405612	5421885	-1	NALP1	KIAA0926, DKFZp586O1822, CARD7, NAC, CLR17.1, DEFCAP
17	NLRP1	ENSG00000091592	ENST00000571451	nonsense_mediated_decay	KNOWN	None	14374	3154	1050	5417442	5487799	-1	NALP1	KIAA0926, DKFZp586O1822, CARD7, NAC, CLR17.1, DEFCAP
17	NLRP1	ENSG00000091592	ENST00000269280	protein_coding	KNOWN	CCDS42245	14374	4290	1429	5417447	5487768	-1	NALP1	KIAA0926, DKFZp586O1822, CARD7, NAC, CLR17.1, DEFCAP
17	NLRP1	ENSG00000091592	ENST00000572272	protein_coding	KNOWN	CCDS42246	14374	4422	1473	5418074	5487277	-1	NALP1	KIAA0926, DKFZp586O1822, CARD7, NAC, CLR17.1, DEFCAP
17	NLRP1	ENSG00000091592	ENST00000354411	protein_coding	KNOWN	CCDS42244	14374	4332	1443	5418074	5487277	-1	NALP1	KIAA0926, DKFZp586O1822, CARD7, NAC, CLR17.1, DEFCAP
17	NLRP1	ENSG00000091592	ENST00000577119	protein_coding	KNOWN	CCDS58508	14374	4200	1399	5418074	5487277	-1	NALP1	KIAA0926, DKFZp586O1822, CARD7, NAC, CLR17.1, DEFCAP
17	NLRP1	ENSG00000091592	ENST00000571307	processed_transcript	KNOWN	None	14374	None	None	5433215	5487832	-1	NALP1	KIAA0926, DKFZp586O1822, CARD7, NAC, CLR17.1, DEFCAP
17	NLRP1	ENSG00000091592	ENST00000576905	protein_coding	KNOWN	None	14374	107	34	5487171	5522744	-1	NALP1	KIAA0926, DKFZp586O1822, CARD7, NAC, CLR17.1, DEFCAP
17	NLRP1	ENSG00000091592	ENST00000572143	processed_transcript	KNOWN	None	14374	None	None	5487337	5522744	-1	NALP1	KIAA0926, DKFZp586O1822, CARD7, NAC, CLR17.1, DEFCAP
17	NLRP1	ENSG00000091592	ENST00000345221	protein_coding	KNOWN	CCDS42245	14374	4290	1429	5417439	5487832	-1	NALP1	KIAA0926, DKFZp586O1822, CARD7, NAC, CLR17.1, DEFCAP
16	SRRM2-AS1	ENSG00000205913	ENST00000577055	antisense	KNOWN	None	44162	None	None	2787077	2800811	-1	None	None
16	SRRM2-AS1	ENSG00000205913	ENST00000382313	antisense	KNOWN	None	44162	None	None	2787092	2790805	-1	None	None
16	SRRM2-AS1	ENSG00000205913	ENST00000571305	antisense	KNOWN	None	44162	None	None	2787104	2794798	-1	None	None
16	SRRM2-AS1	ENSG00000205913	ENST00000573802	antisense	KNOWN	None	44162	None	None	2787104	2802601	-1	None	None
16	SRRM2-AS1	ENSG00000205913	ENST00000570677	antisense	KNOWN	None	44162	None	None	2799787	2802519	-1	None	None
13	None	ENSG00000232986	ENST00000452207	lincRNA	KNOWN	None	None	None	None	34231573	34234065	1	None	None
11	None	ENSG00000255360	ENST00000526848	unprocessed_pseudogene	KNOWN	None	None	None	None	89688314	89690333	-1	None	None
10	ANK3	ENSG00000151150	ENST00000280772	protein_coding	KNOWN	CCDS7258	494	13134	4377	61788159	62149488	-1	None	None
10	ANK3	ENSG00000151150	ENST00000373827	protein_coding	PUTATIVE	CCDS55712	494	5586	1861	61788159	62493248	-1	None	None
10	ANK3	ENSG00000151150	ENST00000373820	protein_coding	NOVEL	None	494	1380	459	61788626	61842444	-1	None	None
10	ANK3	ENSG00000151150	ENST00000502769	protein_coding	NOVEL	None	494	501	166	61789448	61815796	-1	None	None
10	ANK3	ENSG00000151150	ENST00000355288	protein_coding	KNOWN	CCDS7259	494	3006	1001	61789448	61900774	-1	None	None
10	ANK3	ENSG00000151150	ENST00000489505	retained_intron	KNOWN	None	494	None	None	61789449	61804561	-1	None	None
10	ANK3	ENSG00000151150	ENST00000480699	processed_transcript	KNOWN	None	494	None	None	61789458	61811362	-1	None	None
10	ANK3	ENSG00000151150	ENST00000503366	protein_coding	PUTATIVE	CCDS55711	494	5607	1868	61789555	62332421	-1	None	None
10	ANK3	ENSG00000151150	ENST00000469721	retained_intron	KNOWN	None	494	None	None	61815534	61819574	-1	None	None
10	ANK3	ENSG00000151150	ENST00000514197	protein_coding	NOVEL	None	494	651	216	61819150	61824046	-1	None	None
10	ANK3	ENSG00000151150	ENST00000511043	protein_coding	NOVEL	None	494	562	186	61819458	61840378	-1	None	None
10	ANK3	ENSG00000151150	ENST00000459732	retained_intron	KNOWN	None	494	None	None	61821679	61824050	-1	None	None
10	ANK3	ENSG00000151150	ENST00000508449	retained_intron	KNOWN	None	494	None	None	61842266	61844473	-1	None	None
10	ANK3	ENSG00000151150	ENST00000465749	retained_intron	KNOWN	None	494	None	None	61846301	61848118	-1	None	None
10	ANK3	ENSG00000151150	ENST00000467420	protein_coding	NOVEL	None	494	587	194	61848031	61874004	-1	None	None
10	ANK3	ENSG00000151150	ENST00000373815	protein_coding	PUTATIVE	None	494	586	194	61865780	61899158	-1	None	None
10	ANK3	ENSG00000151150	ENST00000513049	protein_coding	PUTATIVE	None	494	477	158	61868659	61899798	-1	None	None
10	ANK3	ENSG00000151150	ENST00000506635	protein_coding	PUTATIVE	None	494	216	71	61894029	61899514	-1	None	None
10	ANK3	ENSG00000151150	ENST00000486349	processed_transcript	KNOWN	None	494	None	None	61898275	61900273	-1	None	None
10	ANK3	ENSG00000151150	ENST00000460468	protein_coding	PUTATIVE	None	494	261	86	61898275	61926633	-1	None	None
10	ANK3	ENSG00000151150	ENST00000474360	protein_coding	PUTATIVE	None	494	345	114	61898275	61926654	-1	None	None
10	ANK3	ENSG00000151150	ENST00000503925	protein_coding	NOVEL	None	494	819	272	61994446	62060240	-1	None	None
10	ANK3	ENSG00000151150	ENST00000510382	processed_transcript	KNOWN	None	494	None	None	62267259	62493082	-1	None	None
17	SNORA21	ENSG00000199293	ENST00000362423	snoRNA	KNOWN	None	32611	None	None	37009116	37009247	-1	None	ACA21
19	CYP2G1P	ENSG00000130612	ENST00000252909	processed_transcript	KNOWN	None	2633	None	None	41396731	41406413	1	CYP2G1	CYP2GP1
19	CYP2G1P	ENSG00000130612	ENST00000597833	transcribed_unprocessed_pseudogene	KNOWN	None	2633	None	None	41397124	41405927	1	CYP2G1	CYP2GP1
13	RNU5A-4P	ENSG00000252397	ENST00000516588	snRNA	KNOWN	None	42521	None	None	34403676	34403786	-1	None	None
8	None	ENSG00000271882	ENST00000607176	lincRNA	KNOWN	None	None	None	None	102220376	102220786	1	None	None
17	RPS20P35	ENSG00000244086	ENST00000462007	processed_pseudogene	KNOWN	None	36929	None	None	37011567	37011923	1	None	None
1	CICP13	ENSG00000234419	ENST00000422015	processed_pseudogene	KNOWN	None	37907	None	None	222641436	222644224	1	None	None
8	None	ENSG00000253231	ENST00000522620	processed_pseudogene	KNOWN	None	None	None	None	65244484	65244709	1	None	None
6	None	ENSG00000228772	ENST00000427775	lincRNA	KNOWN	None	None	None	None	22589366	22594062	-1	None	None
1	COX6B1P7	ENSG00000225242	ENST00000430845	processed_pseudogene	KNOWN	None	37677	None	None	68748071	68748305	1	None	None
2	None	ENSG00000233751	ENST00000412747	processed_pseudogene	KNOWN	None	None	None	None	223542396	223543008	-1	None	None
8	None	ENSG00000253942	ENST00000520123	processed_pseudogene	KNOWN	None	None	None	None	102236169	102236801	-1	None	None
3	None	ENSG00000249098	ENST00000506407	processed_pseudogene	KNOWN	None	None	None	None	130637070	130637964	-1	None	None
17	None	ENSG00000263466	ENST00000581083	antisense	KNOWN	None	None	None	None	37059957	37060853	-1	None	None
6	None	ENSG00000233358	ENST00000420572	lincRNA	KNOWN	None	None	None	None	22744624	23032009	-1	None	None
20	SYNDIG1	ENSG00000101463	ENST00000376862	protein_coding	KNOWN	CCDS13164	15885	777	258	24449835	24647252	1	C20orf39, TMEM90B	FLJ14220, IFITMD5, SynDIG1
20	SYNDIG1	ENSG00000101463	ENST00000482637	processed_transcript	KNOWN	None	15885	None	None	24565538	24577789	1	C20orf39, TMEM90B	FLJ14220, IFITMD5, SynDIG1
3	None	ENSG00000241636	ENST00000486767	lincRNA	KNOWN	None	None	None	None	164388666	164403864	-1	None	None
17	None	ENSG00000265784	ENST00000580121	antisense	KNOWN	None	None	None	None	37075054	37078022	-1	None	None
2	FOSL2	ENSG00000075426	ENST00000460736	processed_transcript	PUTATIVE	None	3798	None	None	28615315	28631669	1	None	FRA2, FLJ23306
2	FOSL2	ENSG00000075426	ENST00000379619	protein_coding	PUTATIVE	None	3798	957	318	28615669	28640179	1	None	FRA2, FLJ23306
2	FOSL2	ENSG00000075426	ENST00000264716	protein_coding	KNOWN	CCDS1766	3798	981	326	28615725	28640179	1	None	FRA2, FLJ23306
2	FOSL2	ENSG00000075426	ENST00000436647	protein_coding	PUTATIVE	None	3798	608	201	28618378	28635059	1	None	FRA2, FLJ23306
2	FOSL2	ENSG00000075426	ENST00000545753	protein_coding	KNOWN	None	3798	864	287	28618579	28635354	1	None	FRA2, FLJ23306
HSCHR6_MHC_QBL	AIF1	ENSG00000206428	ENST00000383474	protein_coding	KNOWN	None	352	444	147	31573205	31575042	1	None	IRT-1, AIF-1, Em:AF129756.17, IBA1
HSCHR6_MHC_QBL	AIF1	ENSG00000206428	ENST00000488491	processed_transcript	KNOWN	None	352	None	None	31573238	31574361	1	None	IRT-1, AIF-1, Em:AF129756.17, IBA1
HSCHR6_MHC_QBL	AIF1	ENSG00000206428	ENST00000417200	protein_coding	KNOWN	None	352	486	161	31573248	31575042	1	None	IRT-1, AIF-1, Em:AF129756.17, IBA1
HSCHR6_MHC_QBL	AIF1	ENSG00000206428	ENST00000470803	retained_intron	KNOWN	None	352	None	None	31573301	31575042	1	None	IRT-1, AIF-1, Em:AF129756.17, IBA1
HSCHR6_MHC_QBL	AIF1	ENSG00000206428	ENST00000498174	processed_transcript	KNOWN	None	352	None	None	31573647	31575042	1	None	IRT-1, AIF-1, Em:AF129756.17, IBA1
HSCHR6_MHC_QBL	AIF1	ENSG00000206428	ENST00000383473	protein_coding	KNOWN	None	352	282	93	31574012	31575042	1	None	IRT-1, AIF-1, Em:AF129756.17, IBA1
1	RNU6-791P	ENSG00000222399	ENST00000410467	snRNA	KNOWN	None	47754	None	None	222676974	222677077	-1	None	None
6	None	ENSG00000218476	ENST00000404015	processed_pseudogene	KNOWN	None	None	None	None	23102908	23103774	1	None	None
1	None	ENSG00000237463	ENST00000416424	antisense	KNOWN	None	None	None	None	165446078	165551392	-1	None	None
1	None	ENSG00000237463	ENST00000421273	antisense	KNOWN	None	None	None	None	165446079	165551341	-1	None	None
1	None	ENSG00000237463	ENST00000438275	antisense	KNOWN	None	None	None	None	165458812	165551365	-1	None	None
1	None	ENSG00000237463	ENST00000452283	antisense	KNOWN	None	None	None	None	165462198	165508849	-1	None	None
1	None	ENSG00000237463	ENST00000418925	antisense	KNOWN	None	None	None	None	165462310	165470907	-1	None	None
1	None	ENSG00000237463	ENST00000415000	antisense	KNOWN	None	None	None	None	165468249	165496895	-1	None	None
1	None	ENSG00000237463	ENST00000454251	antisense	KNOWN	None	None	None	None	165494402	165498121	-1	None	None
17	LINC00672	ENSG00000263874	ENST00000583195	lincRNA	KNOWN	None	44353	None	None	37081421	37084310	1	None	None
1	TCEB1P18	ENSG00000237622	ENST00000434209	processed_pseudogene	KNOWN	None	38154	None	None	68841010	68841346	-1	None	None
7	None	ENSG00000244198	ENST00000498693	antisense	KNOWN	None	None	None	None	143891951	143940845	1	None	None
7	None	ENSG00000244198	ENST00000460955	antisense	KNOWN	None	None	None	None	143892414	143977640	1	None	None
7	None	ENSG00000244198	ENST00000464929	antisense	KNOWN	None	None	None	None	143892447	143940924	1	None	None
7	None	ENSG00000244198	ENST00000474656	antisense	KNOWN	None	None	None	None	143892451	143911316	1	None	None
7	None	ENSG00000244198	ENST00000493248	antisense	KNOWN	None	None	None	None	143892612	143947598	1	None	None
7	None	ENSG00000244198	ENST00000480074	antisense	KNOWN	None	None	None	None	143892981	143929388	1	None	None
7	None	ENSG00000244198	ENST00000477797	antisense	KNOWN	None	None	None	None	143904783	143947674	1	None	None
7	None	ENSG00000244198	ENST00000489077	antisense	KNOWN	None	None	None	None	143904785	143940928	1	None	None
11	None	ENSG00000255455	ENST00000525716	lincRNA	KNOWN	None	None	None	None	130736149	130740142	-1	None	None
12	None	ENSG00000270039	ENST00000602802	lincRNA	KNOWN	None	None	None	None	58197621	58198198	1	None	None
6	MIR3145	ENSG00000266555	ENST00000580727	miRNA	KNOWN	None	38327	None	None	138756350	138756431	-1	None	hsa-mir-3145
1	None	ENSG00000225265	ENST00000441835	antisense	KNOWN	None	None	None	None	222763167	222765828	1	None	None
1	None	ENSG00000225265	ENST00000427540	antisense	KNOWN	None	None	None	None	222763273	222766075	1	None	None
1	None	ENSG00000225265	ENST00000413074	antisense	KNOWN	None	None	None	None	222763304	222766374	1	None	None
19	TMEM205	ENSG00000105518	ENST00000586218	protein_coding	PUTATIVE	None	29631	387	128	11453452	11456886	-1	None	UNQ501, MBC3205
19	TMEM205	ENSG00000105518	ENST00000593256	protein_coding	KNOWN	CCDS32909	29631	570	189	11453452	11456976	-1	None	UNQ501, MBC3205
19	TMEM205	ENSG00000105518	ENST00000354882	protein_coding	KNOWN	CCDS32909	29631	570	189	11453454	11456722	-1	None	UNQ501, MBC3205
19	TMEM205	ENSG00000105518	ENST00000585722	retained_intron	KNOWN	None	29631	None	None	11453454	11456731	-1	None	UNQ501, MBC3205
19	TMEM205	ENSG00000105518	ENST00000586590	protein_coding	KNOWN	CCDS32909	29631	570	189	11453454	11456944	-1	None	UNQ501, MBC3205
19	TMEM205	ENSG00000105518	ENST00000586956	protein_coding	KNOWN	CCDS32909	29631	570	189	11453454	11456961	-1	None	UNQ501, MBC3205
19	TMEM205	ENSG00000105518	ENST00000589555	protein_coding	KNOWN	CCDS32909	29631	570	189	11453455	11456947	-1	None	UNQ501, MBC3205
19	TMEM205	ENSG00000105518	ENST00000587948	protein_coding	KNOWN	CCDS32909	29631	570	189	11453455	11457082	-1	None	UNQ501, MBC3205
19	TMEM205	ENSG00000105518	ENST00000588560	protein_coding	KNOWN	CCDS32909	29631	570	189	11453461	11456924	-1	None	UNQ501, MBC3205
19	TMEM205	ENSG00000105518	ENST00000588321	retained_intron	KNOWN	None	29631	None	None	11453486	11456932	-1	None	UNQ501, MBC3205
19	TMEM205	ENSG00000105518	ENST00000586701	protein_coding	PUTATIVE	None	29631	360	119	11453518	11457003	-1	None	UNQ501, MBC3205
19	TMEM205	ENSG00000105518	ENST00000592952	protein_coding	PUTATIVE	None	29631	371	122	11453526	11456931	-1	None	UNQ501, MBC3205
19	TMEM205	ENSG00000105518	ENST00000590482	protein_coding	KNOWN	None	29631	512	169	11453549	11457194	-1	None	UNQ501, MBC3205
19	TMEM205	ENSG00000105518	ENST00000591677	protein_coding	KNOWN	None	29631	321	106	11453740	11456981	-1	None	UNQ501, MBC3205
19	TMEM205	ENSG00000105518	ENST00000590788	protein_coding	KNOWN	None	29631	264	87	11455928	11456938	-1	None	UNQ501, MBC3205
19	TMEM205	ENSG00000105518	ENST00000447337	protein_coding	KNOWN	CCDS32909	29631	570	189	11453452	11456981	-1	None	UNQ501, MBC3205
1	None	ENSG00000229440	ENST00000421309	processed_pseudogene	KNOWN	None	None	None	None	68847124	68847340	-1	None	None
6	RNU6-1060P	ENSG00000207394	ENST00000384664	snRNA	KNOWN	None	48023	None	None	23125209	23125315	-1	None	None
10	SLC29A3	ENSG00000198246	ENST00000373189	protein_coding	KNOWN	CCDS7310	23096	1428	475	73079015	73123142	1	None	ENT3, FLJ11160
10	SLC29A3	ENSG00000198246	ENST00000479577	processed_transcript	KNOWN	None	23096	None	None	73079039	73082811	1	None	ENT3, FLJ11160
10	SLC29A3	ENSG00000198246	ENST00000469204	processed_transcript	KNOWN	None	23096	None	None	73111445	73122276	1	None	ENT3, FLJ11160
12	RNU6-1083P	ENSG00000206749	ENST00000384022	snRNA	KNOWN	None	48046	None	None	58199937	58200043	-1	None	None
6	None	ENSG00000216802	ENST00000405630	processed_pseudogene	KNOWN	None	None	None	None	138971363	138972110	-1	None	None
1	KLHDC7A	ENSG00000179023	ENST00000400664	protein_coding	KNOWN	CCDS185	26791	2334	777	18807424	18812478	1	None	FLJ38753
6	None	ENSG00000235743	ENST00000431001	lincRNA	KNOWN	None	None	None	None	23337939	23346788	1	None	None
17	None	ENSG00000266647	ENST00000583164	unprocessed_pseudogene	KNOWN	None	None	None	None	60337995	60339297	1	None	None
15	MIR9-3	ENSG00000207819	ENST00000385084	miRNA	KNOWN	None	31646	None	None	89911248	89911337	1	MIRN9-3	hsa-mir-9-3
11	None	ENSG00000254655	ENST00000524456	processed_pseudogene	KNOWN	None	None	None	None	89693590	89693792	1	None	None
17	None	ENSG00000265428	ENST00000580084	processed_pseudogene	KNOWN	None	None	None	None	37152576	37152877	-1	None	None
10	PLEKHA1	ENSG00000107679	ENST00000494222	processed_transcript	KNOWN	None	14335	None	None	124134212	124175522	1	None	TAPP1
10	PLEKHA1	ENSG00000107679	ENST00000368990	protein_coding	KNOWN	CCDS7629	14335	1215	404	124134212	124191867	1	None	TAPP1
10	PLEKHA1	ENSG00000107679	ENST00000368989	protein_coding	NOVEL	None	14335	1152	383	124134276	124191861	1	None	TAPP1
10	PLEKHA1	ENSG00000107679	ENST00000463663	protein_coding	KNOWN	None	14335	399	132	124134350	124172492	1	None	TAPP1
10	PLEKHA1	ENSG00000107679	ENST00000392799	protein_coding	KNOWN	CCDS7629	14335	1215	404	124146125	124189995	1	None	TAPP1
10	PLEKHA1	ENSG00000107679	ENST00000481451	retained_intron	KNOWN	None	14335	None	None	124171287	124185247	1	None	TAPP1
10	PLEKHA1	ENSG00000107679	ENST00000433307	protein_coding	KNOWN	CCDS7629	14335	1215	404	124152695	124191866	1	None	TAPP1
10	PLEKHA1	ENSG00000107679	ENST00000368988	protein_coding	KNOWN	None	14335	1152	383	124134220	124191866	1	None	TAPP1
10	PLEKHA1	ENSG00000107679	ENST00000538022	protein_coding	KNOWN	CCDS55730	14335	1005	334	124145585	124189638	1	None	TAPP1
13	None	ENSG00000224356	ENST00000454752	sense_intronic	KNOWN	None	None	None	None	101187995	101232371	-1	None	None
8	None	ENSG00000261655	ENST00000562459	sense_overlapping	KNOWN	None	None	None	None	142363503	142365465	-1	None	None
6	None	ENSG00000219453	ENST00000402635	processed_pseudogene	KNOWN	None	None	None	None	23649724	23650002	1	None	None
12	None	ENSG00000258100	ENST00000551571	lincRNA	KNOWN	None	None	None	None	91755973	91762383	1	None	None
2	None	ENSG00000238852	ENST00000459212	snoRNA	NOVEL	None	None	None	None	223562615	223562719	-1	None	None
17	None	ENSG00000266588	ENST00000583161	lincRNA	KNOWN	None	None	None	None	37159501	37169285	-1	None	None
17	None	ENSG00000266588	ENST00000577621	lincRNA	KNOWN	None	None	None	None	37165545	37169284	-1	None	None
12	None	ENSG00000269903	ENST00000602327	lincRNA	KNOWN	None	None	None	None	58208277	58208709	1	None	None
2	None	ENSG00000203531	ENST00000444764	processed_pseudogene	KNOWN	None	None	None	None	223563342	223564203	-1	None	None
15	LINC00928	ENSG00000259218	ENST00000561108	lincRNA	KNOWN	None	27535	None	None	90048508	90066984	-1	None	None
15	LINC00928	ENSG00000259218	ENST00000561201	lincRNA	KNOWN	None	27535	None	None	90048508	90067265	-1	None	None
15	LINC00928	ENSG00000259218	ENST00000559967	lincRNA	KNOWN	None	27535	None	None	90048509	90066984	-1	None	None
15	LINC00928	ENSG00000259218	ENST00000559227	lincRNA	KNOWN	None	27535	None	None	90057819	90067247	-1	None	None
1	None	ENSG00000233589	ENST00000425820	antisense	KNOWN	None	None	None	None	68944812	68949222	1	None	None
6	SPTLC1P2	ENSG00000218512	ENST00000407089	processed_pseudogene	KNOWN	None	39669	None	None	23856926	23857046	-1	None	None
3	None	ENSG00000251579	ENST00000505214	processed_pseudogene	KNOWN	None	None	None	None	130646598	130647120	-1	None	None
17	None	ENSG00000266013	ENST00000582518	lincRNA	KNOWN	None	None	None	None	37182968	37183363	-1	None	None
17	TBC1D3P2	ENSG00000188755	ENST00000581291	processed_transcript	KNOWN	None	27783	None	None	60342066	60352988	-1	None	None
17	TBC1D3P2	ENSG00000188755	ENST00000577902	transcribed_unprocessed_pseudogene	KNOWN	None	27783	None	None	60342378	60351476	-1	None	None
17	TBC1D3P2	ENSG00000188755	ENST00000339120	processed_transcript	KNOWN	None	27783	None	None	60342616	60353016	-1	None	None
5	MSNP1	ENSG00000251593	ENST00000511640	processed_pseudogene	KNOWN	None	7374	None	None	25909612	25911343	1	MSNL1	None
3	EIF2B5-AS1	ENSG00000230215	ENST00000421870	antisense	KNOWN	None	40209	None	None	184264502	184274706	-1	None	None
13	RPS26P47	ENSG00000234354	ENST00000427219	processed_pseudogene	KNOWN	None	36368	None	None	101192155	101192502	-1	None	None
13	RPS26P47	ENSG00000234354	ENST00000538139	processed_pseudogene	KNOWN	None	36368	None	None	101192089	101192528	-1	None	None
19	None	ENSG00000271499	ENST00000604980	processed_pseudogene	KNOWN	None	None	None	None	19861427	19863353	1	None	None
6	None	ENSG00000225177	ENST00000432673	antisense	KNOWN	None	None	None	None	139013685	139018425	1	None	None
6	None	ENSG00000225177	ENST00000428044	antisense	KNOWN	None	None	None	None	139015456	139018164	1	None	None
6	None	ENSG00000225177	ENST00000458733	antisense	KNOWN	None	None	None	None	139015527	139018425	1	None	None
6	None	ENSG00000225177	ENST00000447494	antisense	KNOWN	None	None	None	None	139017505	139018425	1	None	None
1	None	ENSG00000234264	ENST00000428732	antisense	KNOWN	None	None	None	None	68962359	69004310	1	None	None
6	None	ENSG00000220748	ENST00000405827	processed_pseudogene	KNOWN	None	None	None	None	23972107	23973169	1	None	None
7	None	ENSG00000238072	ENST00000450566	processed_pseudogene	KNOWN	None	None	None	None	129049954	129050211	-1	None	None
5	PSMC1P5	ENSG00000250273	ENST00000512850	processed_pseudogene	KNOWN	None	39780	None	None	106530857	106531033	1	None	None
10	SUPV3L1	ENSG00000156502	ENST00000359655	protein_coding	KNOWN	CCDS7287	11471	2361	786	70939988	70968854	1	None	SUV3
10	SUPV3L1	ENSG00000156502	ENST00000471069	retained_intron	KNOWN	None	11471	None	None	70940006	70953019	1	None	SUV3
10	SUPV3L1	ENSG00000156502	ENST00000483572	processed_transcript	KNOWN	None	11471	None	None	70940037	70954969	1	None	SUV3
10	SUPV3L1	ENSG00000156502	ENST00000422378	protein_coding	KNOWN	None	11471	790	262	70940044	70960109	1	None	SUV3
10	SUPV3L1	ENSG00000156502	ENST00000478227	processed_transcript	KNOWN	None	11471	None	None	70947189	70956836	1	None	SUV3
10	SUPV3L1	ENSG00000156502	ENST00000486661	processed_transcript	KNOWN	None	11471	None	None	70947469	70955136	1	None	SUV3
10	SUPV3L1	ENSG00000156502	ENST00000497254	processed_transcript	KNOWN	None	11471	None	None	70967532	70968855	1	None	SUV3
12	MIR26A2	ENSG00000207789	ENST00000385054	miRNA	KNOWN	None	31611	None	None	58218392	58218475	-1	MIRN26A2	hsa-mir-26a-2
5	RNU4-43P	ENSG00000222560	ENST00000410628	snRNA	KNOWN	None	46979	None	None	26012998	26013134	1	None	None
13	None	ENSG00000263663	ENST00000408071	miRNA	NOVEL	None	None	None	None	34486129	34486218	1	None	None
3	None	ENSG00000241767	ENST00000463978	lincRNA	KNOWN	None	None	None	None	164431883	164448824	-1	None	None
3	None	ENSG00000241767	ENST00000497379	lincRNA	KNOWN	None	None	None	None	164431889	164549268	-1	None	None
5	None	ENSG00000249099	ENST00000512939	lincRNA	KNOWN	None	None	None	None	26382628	26399928	-1	None	None
5	None	ENSG00000249959	ENST00000509458	lincRNA	KNOWN	None	None	None	None	107035536	107052407	-1	None	None
5	None	ENSG00000249959	ENST00000502287	lincRNA	KNOWN	None	None	None	None	107035658	107052542	-1	None	None
3	MIR3135A	ENSG00000266745	ENST00000578460	miRNA	KNOWN	None	38199	None	None	20179057	20179133	1	MIR3135	hsa-mir-3135
1	None	ENSG00000229399	ENST00000413568	processed_pseudogene	KNOWN	None	None	None	None	222814756	222815200	-1	None	None
13	VDAC1P12	ENSG00000227254	ENST00000451853	processed_pseudogene	KNOWN	None	39680	None	None	34656566	34657447	-1	None	None
8	None	ENSG00000244998	ENST00000501440	antisense	KNOWN	None	None	None	None	142400039	142402674	-1	None	None
2	TEX37	ENSG00000172073	ENST00000303254	protein_coding	KNOWN	CCDS2003	26341	543	180	88824169	88829102	1	C2orf51	FLJ25369, TSC21
1	None	ENSG00000225167	ENST00000443918	processed_pseudogene	KNOWN	None	None	None	None	68980058	68980352	-1	None	None
2	None	ENSG00000235225	ENST00000431088	processed_pseudogene	KNOWN	None	None	None	None	223591176	223591553	1	None	None
11	RN7SL167P	ENSG00000242673	ENST00000498381	misc_RNA	KNOWN	None	46183	None	None	130874025	130874324	-1	None	None
11	TRIM64	ENSG00000204450	ENST00000533122	unprocessed_pseudogene	KNOWN	None	14663	None	None	89702618	89708396	1	C11orf28	TRIM64A
11	TRIM64	ENSG00000204450	ENST00000332157	unprocessed_pseudogene	KNOWN	None	14663	None	None	89701672	89707240	1	C11orf28	TRIM64A
13	COX5BP6	ENSG00000237082	ENST00000454311	processed_pseudogene	KNOWN	None	2275	None	None	101276129	101276683	-1	COX5BL6	None
19	None	ENSG00000198251	ENST00000600605	unprocessed_pseudogene	KNOWN	None	None	None	None	41414385	41416590	-1	None	None
19	None	ENSG00000198251	ENST00000412510	unprocessed_pseudogene	KNOWN	None	None	None	None	41414377	41416754	-1	None	None
HG79_PATCH	SURF4	ENSG00000260181	ENST00000561745	protein_coding	KNOWN	None	11476	810	269	136236984	136251634	-1	None	ERV29, FLJ22993, MGC102753
HG79_PATCH	SURF4	ENSG00000260181	ENST00000567453	protein_coding	KNOWN	None	11476	567	188	136236984	136251634	-1	None	ERV29, FLJ22993, MGC102753
HG79_PATCH	SURF4	ENSG00000260181	ENST00000563077	processed_transcript	KNOWN	None	11476	None	None	136238988	136241612	-1	None	ERV29, FLJ22993, MGC102753
HG79_PATCH	SURF4	ENSG00000260181	ENST00000569191	processed_transcript	KNOWN	None	11476	None	None	136239090	136251526	-1	None	ERV29, FLJ22993, MGC102753
HG79_PATCH	SURF4	ENSG00000260181	ENST00000569613	protein_coding	KNOWN	None	11476	561	186	136239330	136251578	-1	None	ERV29, FLJ22993, MGC102753
HG79_PATCH	SURF4	ENSG00000260181	ENST00000566058	processed_transcript	KNOWN	None	11476	None	None	136240504	136251545	-1	None	ERV29, FLJ22993, MGC102753
3	SGOL1-AS1	ENSG00000237485	ENST00000448208	antisense	KNOWN	None	41081	None	None	20215736	20227919	1	None	None
3	SGOL1-AS1	ENSG00000237485	ENST00000441442	antisense	KNOWN	None	41081	None	None	20215778	20227607	1	None	None
1	None	ENSG00000230748	ENST00000448964	processed_pseudogene	KNOWN	None	None	None	None	165466961	165467585	1	None	None
5	None	ENSG00000230571	ENST00000413321	processed_pseudogene	KNOWN	None	None	None	None	26669455	26669845	1	None	None
8	None	ENSG00000271959	ENST00000606664	antisense	KNOWN	None	None	None	None	142444645	142448054	1	None	None
5	None	ENSG00000248827	ENST00000505925	processed_pseudogene	KNOWN	None	None	None	None	107060662	107062818	1	None	None
13	None	ENSG00000199196	ENST00000362326	snoRNA	NOVEL	None	None	None	None	34674848	34674975	-1	None	None
19	LINC00663	ENSG00000266904	ENST00000586645	lincRNA	KNOWN	None	28609	None	None	19868175	19887202	-1	None	MGC39821
19	LINC00663	ENSG00000266904	ENST00000590092	lincRNA	KNOWN	None	28609	None	None	19868592	19887185	-1	None	MGC39821
19	LINC00663	ENSG00000266904	ENST00000589910	lincRNA	KNOWN	None	28609	None	None	19868952	19887189	-1	None	MGC39821
19	LINC00663	ENSG00000266904	ENST00000588223	lincRNA	KNOWN	None	28609	None	None	19869205	19887222	-1	None	MGC39821
19	LINC00663	ENSG00000266904	ENST00000589508	lincRNA	KNOWN	None	28609	None	None	19871967	19887194	-1	None	MGC39821
19	LINC00663	ENSG00000266904	ENST00000586816	lincRNA	KNOWN	None	28609	None	None	19882381	19887203	-1	None	MGC39821
19	LINC00663	ENSG00000266904	ENST00000586885	lincRNA	KNOWN	None	28609	None	None	19884687	19887232	-1	None	MGC39821
12	WIF1	ENSG00000156076	ENST00000286574	protein_coding	KNOWN	CCDS8971	18081	1140	379	65444406	65515346	-1	None	None
12	WIF1	ENSG00000156076	ENST00000543094	protein_coding	NOVEL	None	18081	387	128	65445087	65460439	-1	None	None
12	WIF1	ENSG00000156076	ENST00000546001	protein_coding	PUTATIVE	None	18081	400	132	65461523	65514466	-1	None	None
5	None	ENSG00000248426	ENST00000512350	processed_pseudogene	KNOWN	None	None	None	None	26669820	26670098	-1	None	None
13	None	ENSG00000271850	ENST00000605909	lincRNA	KNOWN	None	None	None	None	34922180	35188307	1	None	None
11	None	ENSG00000221516	ENST00000408589	miRNA	NOVEL	None	None	None	None	130981830	130981910	-1	None	None
5	None	ENSG00000250703	ENST00000509113	processed_pseudogene	KNOWN	None	None	None	None	26670443	26670590	-1	None	None
8	None	ENSG00000238854	ENST00000458800	snoRNA	NOVEL	None	None	None	None	142457575	142457649	1	None	None
1	None	ENSG00000237783	ENST00000443009	processed_pseudogene	KNOWN	None	None	None	None	165550850	165551713	1	None	None
2	None	ENSG00000258395	ENST00000553319	antisense	KNOWN	None	None	None	None	113998307	113998987	1	None	None
13	NALCN-AS1	ENSG00000233009	ENST00000457843	antisense	KNOWN	None	42743	None	None	101360579	101711638	1	None	None
6	None	ENSG00000238611	ENST00000458756	snoRNA	NOVEL	None	None	None	None	42473238	42473344	-1	None	None
1	RN7SL276P	ENSG00000263877	ENST00000579497	misc_RNA	KNOWN	None	46292	None	None	222881579	222881873	-1	None	None
6	None	ENSG00000225415	ENST00000449542	processed_pseudogene	KNOWN	None	None	None	None	139143884	139144936	1	None	None
6	None	ENSG00000225415	ENST00000426389	pseudogene	KNOWN	None	None	None	None	139143884	139145015	1	None	None
8	HNRNPA1P38	ENSG00000253605	ENST00000523612	processed_pseudogene	KNOWN	None	48767	None	None	142469175	142470131	1	None	None
4	None	ENSG00000249642	ENST00000505488	lincRNA	KNOWN	None	None	None	None	188534919	188581523	1	None	None
4	None	ENSG00000249642	ENST00000509212	lincRNA	KNOWN	None	None	None	None	188571621	188581521	1	None	None
1	PAX7	ENSG00000009709	ENST00000375375	protein_coding	KNOWN	CCDS186	8621	1563	520	18957500	19062632	1	None	Hup1
1	PAX7	ENSG00000009709	ENST00000420770	protein_coding	KNOWN	CCDS44074	8621	1518	505	18958015	19075360	1	None	Hup1
1	PAX7	ENSG00000009709	ENST00000400661	protein_coding	KNOWN	CCDS44075	8621	1557	518	18958018	19062596	1	None	Hup1
6	RNU6-890P	ENSG00000206848	ENST00000384121	snRNA	KNOWN	None	47853	None	None	42631900	42632006	1	None	None
3	RNY4P22	ENSG00000252442	ENST00000516633	misc_RNA	KNOWN	None	42472	None	None	20234274	20234366	-1	None	None
15	HERC2P3	ENSG00000180229	ENST00000426501	processed_transcript	KNOWN	None	4871	None	None	20587869	20659133	-1	None	D15F37S4, LOC283755
15	HERC2P3	ENSG00000180229	ENST00000428453	processed_transcript	KNOWN	None	4871	None	None	20588368	20711414	-1	None	D15F37S4, LOC283755
15	HERC2P3	ENSG00000180229	ENST00000437318	processed_transcript	KNOWN	None	4871	None	None	20588557	20710738	-1	None	D15F37S4, LOC283755
15	HERC2P3	ENSG00000180229	ENST00000430598	processed_transcript	KNOWN	None	4871	None	None	20613649	20711433	-1	None	D15F37S4, LOC283755
15	HERC2P3	ENSG00000180229	ENST00000429257	transcribed_unprocessed_pseudogene	KNOWN	None	4871	None	None	20636346	20710715	-1	None	D15F37S4, LOC283755
15	HERC2P3	ENSG00000180229	ENST00000424611	retained_intron	KNOWN	None	4871	None	None	20643950	20658928	-1	None	D15F37S4, LOC283755
15	HERC2P3	ENSG00000180229	ENST00000454045	retained_intron	KNOWN	None	4871	None	None	20644523	20645923	-1	None	D15F37S4, LOC283755
15	HERC2P3	ENSG00000180229	ENST00000436934	retained_intron	KNOWN	None	4871	None	None	20644623	20648762	-1	None	D15F37S4, LOC283755
15	HERC2P3	ENSG00000180229	ENST00000440441	processed_transcript	KNOWN	None	4871	None	None	20649506	20658918	-1	None	D15F37S4, LOC283755
15	HERC2P3	ENSG00000180229	ENST00000440774	processed_transcript	KNOWN	None	4871	None	None	20649556	20658654	-1	None	D15F37S4, LOC283755
15	HERC2P3	ENSG00000180229	ENST00000429926	retained_intron	KNOWN	None	4871	None	None	20663079	20667792	-1	None	D15F37S4, LOC283755
15	HERC2P3	ENSG00000180229	ENST00000456027	retained_intron	KNOWN	None	4871	None	None	20663485	20667803	-1	None	D15F37S4, LOC283755
15	HERC2P3	ENSG00000180229	ENST00000414804	processed_transcript	KNOWN	None	4871	None	None	20667631	20711424	-1	None	D15F37S4, LOC283755
15	HERC2P3	ENSG00000180229	ENST00000412154	processed_transcript	KNOWN	None	4871	None	None	20667661	20682646	-1	None	D15F37S4, LOC283755
15	HERC2P3	ENSG00000180229	ENST00000545640	unprocessed_pseudogene	KNOWN	None	4871	None	None	20644356	20667768	-1	None	D15F37S4, LOC283755
15	HERC2P3	ENSG00000180229	ENST00000544900	unprocessed_pseudogene	KNOWN	None	4871	None	None	20657792	20667792	-1	None	D15F37S4, LOC283755
2	None	ENSG00000234997	ENST00000422178	antisense	KNOWN	None	None	None	None	114182072	114182901	1	None	None
5	None	ENSG00000251033	ENST00000506032	lincRNA	KNOWN	None	None	None	None	26711660	26750106	-1	None	None
5	RN7SL782P	ENSG00000239708	ENST00000476421	misc_RNA	KNOWN	None	46798	None	None	107070476	107070767	-1	None	None
6	ATP6V0CP3	ENSG00000213435	ENST00000417255	processed_pseudogene	KNOWN	None	40001	None	None	42694972	42695438	1	None	None
13	LINC00457	ENSG00000225179	ENST00000440160	lincRNA	KNOWN	None	42805	None	None	35009587	35214822	-1	None	None
13	LINC00457	ENSG00000225179	ENST00000428706	lincRNA	KNOWN	None	42805	None	None	35107983	35108487	-1	None	None
8	None	ENSG00000221123	ENST00000408196	miRNA	NOVEL	None	None	None	None	143026860	143026986	1	None	None
1	None	ENSG00000260948	ENST00000564771	sense_overlapping	KNOWN	None	None	None	None	111973668	111975690	-1	None	None
3	RNU6-822P	ENSG00000199577	ENST00000362707	snRNA	KNOWN	None	47785	None	None	20310457	20310562	-1	None	None
11	None	ENSG00000251364	ENST00000514126	antisense	KNOWN	None	None	None	None	7448497	7461756	-1	None	None
11	None	ENSG00000251364	ENST00000530846	antisense	KNOWN	None	None	None	None	7448818	7456861	-1	None	None
11	None	ENSG00000251364	ENST00000530169	antisense	KNOWN	None	None	None	None	7449177	7487053	-1	None	None
11	None	ENSG00000251364	ENST00000533693	antisense	KNOWN	None	None	None	None	7456954	7487021	-1	None	None
11	None	ENSG00000251364	ENST00000525534	antisense	KNOWN	None	None	None	None	7457059	7461923	-1	None	None
11	None	ENSG00000251364	ENST00000504206	antisense	KNOWN	None	None	None	None	7458858	7482575	-1	None	None
11	None	ENSG00000251364	ENST00000526695	antisense	KNOWN	None	None	None	None	7462646	7487061	-1	None	None
11	None	ENSG00000251364	ENST00000526706	antisense	KNOWN	None	None	None	None	7471608	7487066	-1	None	None
11	None	ENSG00000251364	ENST00000533684	antisense	KNOWN	None	None	None	None	7478263	7487005	-1	None	None
11	None	ENSG00000251364	ENST00000530201	antisense	KNOWN	None	None	None	None	7490918	7533746	-1	None	None
5	RN7SKP122	ENSG00000251732	ENST00000515923	misc_RNA	KNOWN	None	45846	None	None	107146330	107146625	1	None	None
1	None	ENSG00000236206	ENST00000452618	lincRNA	KNOWN	None	None	None	None	165567700	165592568	1	None	None
4	None	ENSG00000248946	ENST00000510932	processed_pseudogene	KNOWN	None	None	None	None	49248618	49248932	1	None	None
3	None	ENSG00000231304	ENST00000455626	lincRNA	KNOWN	None	None	None	None	20383960	20392420	1	None	None
15	None	ENSG00000261478	ENST00000567484	lincRNA	KNOWN	None	None	None	None	90052192	90053647	1	None	None
1	None	ENSG00000223883	ENST00000425517	lincRNA	PUTATIVE	None	None	None	None	69521581	69650686	1	None	None
2	ATG12P2	ENSG00000224121	ENST00000456830	processed_pseudogene	KNOWN	None	38605	None	None	223769358	223769773	-1	None	None
5	None	ENSG00000244245	ENST00000466800	processed_pseudogene	KNOWN	None	None	None	None	107929310	107929668	1	None	None
1	UBE2FP3	ENSG00000233337	ENST00000436366	processed_pseudogene	KNOWN	None	44537	None	None	111980136	111980659	1	None	None
2	None	ENSG00000234148	ENST00000449954	lincRNA	KNOWN	None	None	None	None	114270040	114273062	1	None	None
3	None	ENSG00000229433	ENST00000457449	lincRNA	KNOWN	None	None	None	None	184474177	184490943	-1	None	None
7	None	ENSG00000272537	ENST00000605985	lincRNA	KNOWN	None	None	None	None	16510809	16510998	1	None	None
5	None	ENSG00000249616	ENST00000504855	processed_pseudogene	KNOWN	None	None	None	None	26739862	26741292	-1	None	None
2	None	ENSG00000221686	ENST00000408759	miRNA	NOVEL	None	None	None	None	89066835	89066930	1	None	None
1	None	ENSG00000206990	ENST00000384263	misc_RNA	NOVEL	None	None	None	None	165631822	165631924	-1	None	None
5	None	ENSG00000272523	ENST00000606054	lincRNA	KNOWN	None	None	None	None	108063526	108063961	-1	None	None
4	None	ENSG00000248583	ENST00000399720	unprocessed_pseudogene	KNOWN	None	None	None	None	49488943	49491571	-1	None	None
12	None	ENSG00000238823	ENST00000458783	miRNA	NOVEL	None	None	None	None	73185	73322	-1	None	None
HG325_PATCH	GNAI2	ENSG00000263156	ENST00000574039	protein_coding	NOVEL	None	4385	1020	339	50263724	50296330	1	GNAI2B	GIP
HG325_PATCH	GNAI2	ENSG00000263156	ENST00000570810	nonsense_mediated_decay	KNOWN	None	4385	441	146	50264169	50296330	1	GNAI2B	GIP
HG325_PATCH	GNAI2	ENSG00000263156	ENST00000574524	processed_transcript	KNOWN	None	4385	None	None	50266497	50296777	1	GNAI2B	GIP
HG325_PATCH	GNAI2	ENSG00000263156	ENST00000571693	processed_transcript	PUTATIVE	None	4385	None	None	50268242	50272722	1	GNAI2B	GIP
HG325_PATCH	GNAI2	ENSG00000263156	ENST00000574925	protein_coding	KNOWN	None	4385	1068	355	50273384	50296787	1	GNAI2B	GIP
HG325_PATCH	GNAI2	ENSG00000263156	ENST00000574211	nonsense_mediated_decay	KNOWN	None	4385	429	142	50273636	50296786	1	GNAI2B	GIP
HG325_PATCH	GNAI2	ENSG00000263156	ENST00000572941	protein_coding	PUTATIVE	None	4385	912	303	50275544	50296183	1	GNAI2B	GIP
HG325_PATCH	GNAI2	ENSG00000263156	ENST00000576852	protein_coding	PUTATIVE	None	4385	957	318	50284326	50296129	1	GNAI2B	GIP
HG325_PATCH	GNAI2	ENSG00000263156	ENST00000570678	retained_intron	KNOWN	None	4385	None	None	50288841	50296325	1	GNAI2B	GIP
HG325_PATCH	GNAI2	ENSG00000263156	ENST00000575628	retained_intron	KNOWN	None	4385	None	None	50290586	50294123	1	GNAI2B	GIP
HG325_PATCH	GNAI2	ENSG00000263156	ENST00000573480	retained_intron	KNOWN	None	4385	None	None	50293715	50295598	1	GNAI2B	GIP
16	None	ENSG00000269422	ENST00000593752	protein_coding	NOVEL	None	None	48	15	88894366	88894545	1	None	None
16	None	ENSG00000265864	ENST00000581119	miRNA	NOVEL	None	None	None	None	2819873	2819950	1	None	None
2	None	ENSG00000240040	ENST00000452230	processed_transcript	KNOWN	None	None	None	None	89109984	89161075	-1	None	None
2	None	ENSG00000240040	ENST00000434790	processed_transcript	KNOWN	None	None	None	None	89117788	89124720	-1	None	None
1	None	ENSG00000230175	ENST00000447545	processed_pseudogene	KNOWN	None	None	None	None	165640493	165640962	1	None	None
8	None	ENSG00000254183	ENST00000523974	processed_pseudogene	KNOWN	None	None	None	None	143049452	143050202	-1	None	None
1	None	ENSG00000235446	ENST00000439878	lincRNA	PUTATIVE	None	None	None	None	69709055	69715106	-1	None	None
12	NOS1	ENSG00000089250	ENST00000317775	protein_coding	KNOWN	CCDS41842	7872	4305	1434	117645947	117799582	-1	NOS	nNOS
12	NOS1	ENSG00000089250	ENST00000338101	protein_coding	NOVEL	CCDS55890	7872	4407	1468	117653064	117768879	-1	NOS	nNOS
12	NOS1	ENSG00000089250	ENST00000549189	processed_transcript	KNOWN	None	7872	None	None	117769238	117889975	-1	NOS	nNOS
12	NOS1	ENSG00000089250	ENST00000477584	processed_transcript	PUTATIVE	None	7872	None	None	117785840	117799434	-1	NOS	nNOS
12	NOS1	ENSG00000089250	ENST00000344089	protein_coding	KNOWN	None	7872	1224	407	117650979	117799582	-1	NOS	nNOS
5	RNU6-738P	ENSG00000207261	ENST00000384531	snRNA	KNOWN	None	47701	None	None	27111676	27111781	1	None	None
5	None	ENSG00000249921	ENST00000506742	processed_pseudogene	KNOWN	None	None	None	None	108119799	108121253	1	None	None
12	None	ENSG00000258125	ENST00000550035	lincRNA	KNOWN	None	None	None	None	92073908	92074650	1	None	None
12	None	ENSG00000226210	ENST00000400706	unprocessed_pseudogene	KNOWN	None	None	None	None	73725	91218	1	None	None
18	None	ENSG00000263711	ENST00000584544	nonsense_mediated_decay	KNOWN	None	None	255	84	70818476	70931538	-1	None	None
18	None	ENSG00000263711	ENST00000581011	nonsense_mediated_decay	KNOWN	None	None	270	89	70821293	70931715	-1	None	None
18	None	ENSG00000263711	ENST00000581862	protein_coding	PUTATIVE	None	None	270	89	70826059	70931689	-1	None	None
18	None	ENSG00000263711	ENST00000583405	retained_intron	KNOWN	None	None	None	None	70867863	70931680	-1	None	None
18	None	ENSG00000263711	ENST00000582571	processed_transcript	PUTATIVE	None	None	None	None	70917528	70931709	-1	None	None
18	None	ENSG00000263711	ENST00000584671	retained_intron	KNOWN	None	None	None	None	70922833	70931703	-1	None	None
8	None	ENSG00000261710	ENST00000562989	lincRNA	KNOWN	None	None	None	None	143171188	143172980	1	None	None
5	None	ENSG00000248490	ENST00000510512	lincRNA	KNOWN	None	None	None	None	27412720	27436518	-1	None	None
15	CKMT1B	ENSG00000237289	ENST00000453782	protein_coding	KNOWN	None	1995	724	240	43885252	43888462	1	CKMT, CKMT1	UMTCK
15	CKMT1B	ENSG00000237289	ENST00000437924	protein_coding	KNOWN	None	1995	387	128	43885261	43887610	1	CKMT, CKMT1	UMTCK
15	CKMT1B	ENSG00000237289	ENST00000475589	retained_intron	KNOWN	None	1995	None	None	43885285	43886620	1	CKMT, CKMT1	UMTCK
15	CKMT1B	ENSG00000237289	ENST00000481666	processed_transcript	KNOWN	None	1995	None	None	43885406	43887305	1	CKMT, CKMT1	UMTCK
15	CKMT1B	ENSG00000237289	ENST00000449946	protein_coding	NOVEL	None	1995	289	95	43885799	43887216	1	CKMT, CKMT1	UMTCK
15	CKMT1B	ENSG00000237289	ENST00000417289	protein_coding	KNOWN	None	1995	310	102	43885801	43887330	1	CKMT, CKMT1	UMTCK
15	CKMT1B	ENSG00000237289	ENST00000441322	protein_coding	KNOWN	CCDS10097	1995	1254	417	43886057	43891604	1	CKMT, CKMT1	UMTCK
15	CKMT1B	ENSG00000237289	ENST00000495545	processed_transcript	KNOWN	None	1995	None	None	43886217	43887142	1	CKMT, CKMT1	UMTCK
15	CKMT1B	ENSG00000237289	ENST00000498538	processed_transcript	KNOWN	None	1995	None	None	43886217	43888123	1	CKMT, CKMT1	UMTCK
15	CKMT1B	ENSG00000237289	ENST00000453733	protein_coding	NOVEL	None	1995	609	202	43886225	43888125	1	CKMT, CKMT1	UMTCK
15	CKMT1B	ENSG00000237289	ENST00000437534	nonsense_mediated_decay	KNOWN	None	1995	897	298	43886225	43891604	1	CKMT, CKMT1	UMTCK
15	CKMT1B	ENSG00000237289	ENST00000428981	nonsense_mediated_decay	KNOWN	None	1995	177	58	43886226	43888206	1	CKMT, CKMT1	UMTCK
15	CKMT1B	ENSG00000237289	ENST00000411560	processed_transcript	KNOWN	None	1995	None	None	43891590	43897099	1	CKMT, CKMT1	UMTCK
15	CKMT1B	ENSG00000237289	ENST00000300283	protein_coding	KNOWN	CCDS10097	1995	1254	417	43885252	43891604	1	CKMT, CKMT1	UMTCK
15	CKMT1B	ENSG00000237289	ENST00000450086	protein_coding	KNOWN	None	1995	774	257	43885294	43889594	1	CKMT, CKMT1	UMTCK
15	CKMT1B	ENSG00000237289	ENST00000413657	protein_coding	KNOWN	None	1995	507	168	43886191	43889198	1	CKMT, CKMT1	UMTCK
1	None	ENSG00000243960	ENST00000445680	sense_overlapping	KNOWN	None	None	None	None	111981260	111983986	-1	None	None
1	None	ENSG00000243960	ENST00000416099	sense_overlapping	KNOWN	None	None	None	None	111981262	111983850	-1	None	None
1	None	ENSG00000228106	ENST00000450784	lincRNA	KNOWN	None	None	None	None	222988364	223010726	1	None	None
1	None	ENSG00000228106	ENST00000426045	lincRNA	KNOWN	None	None	None	None	222988379	223010681	1	None	None
1	None	ENSG00000228106	ENST00000457955	lincRNA	KNOWN	None	None	None	None	222988389	223010571	1	None	None
1	None	ENSG00000228106	ENST00000444858	lincRNA	KNOWN	None	None	None	None	222988393	223010726	1	None	None
1	None	ENSG00000228106	ENST00000435378	lincRNA	KNOWN	None	None	None	None	222988402	223010724	1	None	None
1	None	ENSG00000228106	ENST00000441676	lincRNA	KNOWN	None	None	None	None	222988403	223010726	1	None	None
1	None	ENSG00000228106	ENST00000448808	lincRNA	KNOWN	None	None	None	None	222988417	223000653	1	None	None
1	None	ENSG00000228106	ENST00000457636	lincRNA	KNOWN	None	None	None	None	222988420	223010725	1	None	None
1	None	ENSG00000228106	ENST00000439440	lincRNA	KNOWN	None	None	None	None	222988453	223000924	1	None	None
1	None	ENSG00000228106	ENST00000420335	lincRNA	KNOWN	None	None	None	None	222988471	223010642	1	None	None
1	None	ENSG00000228106	ENST00000442171	lincRNA	KNOWN	None	None	None	None	222997226	223010726	1	None	None
1	None	ENSG00000228106	ENST00000434872	lincRNA	KNOWN	None	None	None	None	223004322	223010726	1	None	None
3	None	ENSG00000250129	ENST00000506476	antisense	KNOWN	None	None	None	None	130772161	130791183	-1	None	None
3	None	ENSG00000250129	ENST00000511339	antisense	KNOWN	None	None	None	None	130772204	130791179	-1	None	None
3	None	ENSG00000250129	ENST00000513940	antisense	KNOWN	None	None	None	None	130772204	130791179	-1	None	None
2	None	ENSG00000231943	ENST00000416758	lincRNA	KNOWN	None	None	None	None	114285145	114300249	-1	None	None
2	None	ENSG00000231943	ENST00000446595	lincRNA	KNOWN	None	None	None	None	114286224	114300213	-1	None	None
2	None	ENSG00000231943	ENST00000416105	lincRNA	KNOWN	None	None	None	None	114286497	114300235	-1	None	None
2	None	ENSG00000231943	ENST00000450636	lincRNA	KNOWN	None	None	None	None	114297629	114300242	-1	None	None
1	None	ENSG00000229639	ENST00000448001	lincRNA	PUTATIVE	None	None	None	None	69898938	69901092	1	None	None
15	None	ENSG00000259713	ENST00000559041	sense_overlapping	KNOWN	None	None	None	None	90061754	90135187	1	None	None
10	C10orf137	ENSG00000107938	ENST00000419769	nonsense_mediated_decay	KNOWN	None	24640	2391	796	127408084	127452148	1	None	EDRF1, DKFZp586F1019, FLJ21617
10	C10orf137	ENSG00000107938	ENST00000481600	nonsense_mediated_decay	KNOWN	None	24640	1032	343	127408084	127452712	1	None	EDRF1, DKFZp586F1019, FLJ21617
10	C10orf137	ENSG00000107938	ENST00000356792	protein_coding	KNOWN	CCDS55733	24640	3717	1238	127408145	127452220	1	None	EDRF1, DKFZp586F1019, FLJ21617
10	C10orf137	ENSG00000107938	ENST00000368815	nonsense_mediated_decay	KNOWN	None	24640	1782	593	127408145	127452220	1	None	EDRF1, DKFZp586F1019, FLJ21617
10	C10orf137	ENSG00000107938	ENST00000525091	retained_intron	KNOWN	None	24640	None	None	127408271	127437665	1	None	EDRF1, DKFZp586F1019, FLJ21617
10	C10orf137	ENSG00000107938	ENST00000337623	protein_coding	KNOWN	CCDS7646	24640	3615	1204	127408272	127452708	1	None	EDRF1, DKFZp586F1019, FLJ21617
10	C10orf137	ENSG00000107938	ENST00000530795	nonsense_mediated_decay	KNOWN	None	24640	454	150	127414335	127424318	1	None	EDRF1, DKFZp586F1019, FLJ21617
10	C10orf137	ENSG00000107938	ENST00000368813	protein_coding	KNOWN	None	24640	954	317	127424456	127430234	1	None	EDRF1, DKFZp586F1019, FLJ21617
10	C10orf137	ENSG00000107938	ENST00000469725	retained_intron	KNOWN	None	24640	None	None	127435270	127438010	1	None	EDRF1, DKFZp586F1019, FLJ21617
10	C10orf137	ENSG00000107938	ENST00000525524	retained_intron	KNOWN	None	24640	None	None	127436522	127438382	1	None	EDRF1, DKFZp586F1019, FLJ21617
10	C10orf137	ENSG00000107938	ENST00000527655	retained_intron	KNOWN	None	24640	None	None	127437842	127452275	1	None	EDRF1, DKFZp586F1019, FLJ21617
10	C10orf137	ENSG00000107938	ENST00000368812	retained_intron	KNOWN	None	24640	None	None	127437866	127452712	1	None	EDRF1, DKFZp586F1019, FLJ21617
10	C10orf137	ENSG00000107938	ENST00000525358	nonsense_mediated_decay	KNOWN	None	24640	71	22	127442348	127452151	1	None	EDRF1, DKFZp586F1019, FLJ21617
20	CST7	ENSG00000077984	ENST00000480798	protein_coding	KNOWN	CCDS13165	2479	438	145	24929866	24940564	1	None	None
20	CST7	ENSG00000077984	ENST00000376835	protein_coding	KNOWN	None	2479	504	167	24929866	24940562	1	None	None
16	None	ENSG00000221719	ENST00000408792	snoRNA	NOVEL	None	None	None	None	2846409	2846533	-1	None	None
7	None	ENSG00000224280	ENST00000432006	processed_pseudogene	KNOWN	None	None	None	None	16623407	16626382	-1	None	None
17	None	ENSG00000263887	ENST00000602493	processed_transcript	KNOWN	None	None	None	None	60359748	60374387	-1	None	None
17	None	ENSG00000263887	ENST00000582394	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	60360063	60374387	-1	None	None
4	ANKRD20A17P	ENSG00000251056	ENST00000511745	unprocessed_pseudogene	KNOWN	None	43608	None	None	49504162	49508039	-1	None	None
7	WEE2	ENSG00000214102	ENST00000397541	protein_coding	KNOWN	CCDS43660	19684	1704	567	141408153	141431071	1	None	FLJ16107
7	WEE2	ENSG00000214102	ENST00000493845	protein_coding	NOVEL	None	19684	610	202	141418962	141427167	1	None	FLJ16107
2	None	ENSG00000234193	ENST00000446709	antisense	KNOWN	None	None	None	None	223782105	223784081	-1	None	None
1	None	ENSG00000225272	ENST00000437709	processed_pseudogene	KNOWN	None	None	None	None	165645547	165646018	1	None	None
19	ZSCAN5B	ENSG00000197213	ENST00000586855	protein_coding	KNOWN	CCDS46203	34246	1488	495	56700939	56709289	-1	None	ZNF495B, ZNF371
19	ZSCAN5B	ENSG00000197213	ENST00000589938	protein_coding	KNOWN	None	34246	508	168	56703299	56709162	-1	None	ZNF495B, ZNF371
19	ZSCAN5B	ENSG00000197213	ENST00000587032	protein_coding	KNOWN	None	34246	411	136	56703396	56709184	-1	None	ZNF495B, ZNF371
19	ZSCAN5B	ENSG00000197213	ENST00000358992	protein_coding	KNOWN	CCDS46203	34246	1488	495	56701058	56704421	-1	None	ZNF495B, ZNF371
1	None	ENSG00000199890	ENST00000363020	misc_RNA	NOVEL	None	None	None	None	111989420	111989530	1	None	None
1	None	ENSG00000270615	ENST00000603525	processed_pseudogene	KNOWN	None	None	None	None	70072538	70073984	-1	None	None
16	PRSS41	ENSG00000215148	ENST00000399677	processed_transcript	KNOWN	None	30715	None	None	2848486	2855133	1	None	TESSP1
16	PRSS41	ENSG00000215148	ENST00000421271	transcribed_unprocessed_pseudogene	KNOWN	None	30715	None	None	2848488	2855148	1	None	TESSP1
2	MIR4436A	ENSG00000265510	ENST00000585278	miRNA	KNOWN	None	41762	None	None	89111884	89111968	1	None	hsa-mir-4436a
1	RNU6-792P	ENSG00000200360	ENST00000363490	snRNA	KNOWN	None	47755	None	None	112032939	112033045	-1	None	None
1	RN7SL538P	ENSG00000240692	ENST00000494227	misc_RNA	KNOWN	None	46554	None	None	70345275	70345577	1	None	None
2	None	ENSG00000265621	ENST00000582868	miRNA	NOVEL	None	None	None	None	223797312	223797401	-1	None	None
2	RN7SL807P	ENSG00000243125	ENST00000470923	misc_RNA	KNOWN	None	46823	None	None	224113219	224113512	-1	None	None
1	PIN1P1	ENSG00000229359	ENST00000412108	processed_transcript	KNOWN	None	8989	None	None	70385005	70386000	1	PIN1L	None
1	PIN1P1	ENSG00000229359	ENST00000439639	transcribed_processed_pseudogene	KNOWN	None	8989	None	None	70385040	70385340	1	PIN1L	None
12	None	ENSG00000257953	ENST00000549683	antisense	KNOWN	None	None	None	None	58230875	58236528	1	None	None
2	None	ENSG00000231486	ENST00000418209	processed_transcript	KNOWN	None	None	None	None	89130700	89161435	-1	None	None
2	None	ENSG00000231486	ENST00000430694	processed_transcript	KNOWN	None	None	None	None	89156709	89165653	-1	None	None
1	None	ENSG00000215838	ENST00000400982	processed_transcript	KNOWN	None	None	None	None	165667987	165679205	1	None	None
1	None	ENSG00000215838	ENST00000453762	transcribed_processed_pseudogene	KNOWN	None	None	None	None	165677520	165678747	1	None	None
19	CYP2B7P1	ENSG00000256612	ENST00000593298	retained_intron	KNOWN	None	2616	None	None	41430124	41445422	1	CYP2B7	CYP2B, CYP2B7P
19	CYP2B7P1	ENSG00000256612	ENST00000599831	retained_intron	KNOWN	None	2616	None	None	41430124	41447773	1	CYP2B7	CYP2B, CYP2B7P
19	CYP2B7P1	ENSG00000256612	ENST00000599198	processed_transcript	KNOWN	None	2616	None	None	41430124	41456565	1	CYP2B7	CYP2B, CYP2B7P
19	CYP2B7P1	ENSG00000256612	ENST00000541697	transcribed_unprocessed_pseudogene	KNOWN	None	2616	None	None	41430178	41455139	1	CYP2B7	CYP2B, CYP2B7P
19	CYP2B7P1	ENSG00000256612	ENST00000602646	processed_transcript	KNOWN	None	2616	None	None	41447328	41450893	1	CYP2B7	CYP2B, CYP2B7P
19	CYP2B7P1	ENSG00000256612	ENST00000600518	retained_intron	KNOWN	None	2616	None	None	41450048	41455250	1	CYP2B7	CYP2B, CYP2B7P
1	None	ENSG00000231346	ENST00000450155	lincRNA	KNOWN	None	None	None	None	112142277	112150940	-1	None	None
1	None	ENSG00000231346	ENST00000441004	lincRNA	KNOWN	None	None	None	None	112142487	112150946	-1	None	None
1	None	ENSG00000231346	ENST00000453988	lincRNA	KNOWN	None	None	None	None	112147002	112151345	-1	None	None
12	None	ENSG00000223082	ENST00000411150	miRNA	NOVEL	None	None	None	None	40200897	40200976	-1	None	None
4	None	ENSG00000250769	ENST00000514077	processed_pseudogene	KNOWN	None	None	None	None	49509781	49510823	-1	None	None
12	None	ENSG00000258224	ENST00000550377	processed_pseudogene	KNOWN	None	None	None	None	92264898	92265006	-1	None	None
2	HIGD1AP4	ENSG00000233299	ENST00000430194	processed_pseudogene	KNOWN	None	43000	None	None	224262985	224263264	-1	None	None
17	LRRC37A11P	ENSG00000214553	ENST00000579258	transcribed_unprocessed_pseudogene	KNOWN	None	43815	None	None	37183530	37201600	1	None	None
17	LRRC37A11P	ENSG00000214553	ENST00000425901	processed_transcript	KNOWN	None	43815	None	None	37186159	37209458	1	None	None
3	BHLHE40	ENSG00000134107	ENST00000256495	protein_coding	KNOWN	CCDS2565	1046	1239	412	5020801	5027008	1	STRA13, BHLHB2	DEC1, bHLHe40
3	BHLHE40	ENSG00000134107	ENST00000467610	retained_intron	KNOWN	None	1046	None	None	5021122	5024953	1	STRA13, BHLHB2	DEC1, bHLHe40
3	BHLHE40	ENSG00000134107	ENST00000460806	retained_intron	KNOWN	None	1046	None	None	5021917	5023295	1	STRA13, BHLHB2	DEC1, bHLHe40
3	None	ENSG00000212598	ENST00000391296	snoRNA	NOVEL	None	None	None	None	90079434	90079644	1	None	None
12	None	ENSG00000245651	ENST00000499481	lincRNA	KNOWN	None	None	None	None	58263618	58290265	-1	None	None
12	None	ENSG00000245651	ENST00000548955	lincRNA	KNOWN	None	None	None	None	58280144	58287735	-1	None	None
1	None	ENSG00000237919	ENST00000414132	antisense	KNOWN	None	None	None	None	70479665	70496905	-1	None	None
1	None	ENSG00000237919	ENST00000425754	antisense	KNOWN	None	None	None	None	70486506	70488081	-1	None	None
12	None	ENSG00000199571	ENST00000362701	snoRNA	NOVEL	None	None	None	None	40213552	40213685	-1	None	None
12	HSPA8P14	ENSG00000257539	ENST00000552265	processed_pseudogene	KNOWN	None	44929	None	None	111819671	111823442	1	None	None
12	RPL30P13	ENSG00000229014	ENST00000418873	processed_pseudogene	KNOWN	None	36280	None	None	40462045	40462392	-1	None	None
13	ARF4P3	ENSG00000214051	ENST00000397387	processed_pseudogene	KNOWN	None	32380	None	None	101408805	101409313	-1	None	None
3	RNU6-726P	ENSG00000201550	ENST00000364680	snRNA	KNOWN	None	47689	None	None	130811665	130811771	-1	None	None
4	None	ENSG00000248532	ENST00000504529	processed_pseudogene	KNOWN	None	None	None	None	49525665	49525874	-1	None	None
11	None	ENSG00000255305	ENST00000527152	unprocessed_pseudogene	KNOWN	None	None	None	None	89711708	89713829	1	None	None
17	ZNF29P	ENSG00000108452	ENST00000225587	unprocessed_pseudogene	KNOWN	None	13080	None	None	15578790	15578957	1	ZNF29	KOX26
X	None	ENSG00000197185	ENST00000453640	unprocessed_pseudogene	KNOWN	None	None	None	None	52635585	52640808	-1	None	None
X	None	ENSG00000197185	ENST00000441704	unprocessed_pseudogene	KNOWN	None	None	None	None	52635582	52640808	-1	None	None
13	LINC00411	ENSG00000229599	ENST00000436722	lincRNA	KNOWN	None	42744	None	None	101593116	101596618	-1	None	None
3	None	ENSG00000200052	ENST00000363182	misc_RNA	NOVEL	None	None	None	None	164840501	164840611	-1	None	None
4	None	ENSG00000269848	ENST00000597032	processed_pseudogene	KNOWN	None	None	None	None	49526047	49526202	-1	None	None
1	KRT18P57	ENSG00000215867	ENST00000443599	processed_pseudogene	KNOWN	None	48884	None	None	112190913	112192166	-1	None	None
1	RN7SL242P	ENSG00000244389	ENST00000491451	misc_RNA	KNOWN	None	46258	None	None	70645829	70646123	-1	None	None
2	None	ENSG00000225398	ENST00000421970	processed_pseudogene	KNOWN	None	None	None	None	114299514	114320875	1	None	None
2	IGKV7-3	ENSG00000197794	ENST00000357453	IG_V_pseudogene	KNOWN	None	5839	None	None	89214597	89214894	-1	None	None
17	UBE2SP1	ENSG00000233966	ENST00000450587	processed_pseudogene	KNOWN	None	30864	None	None	15607546	15608214	-1	None	None
1	None	ENSG00000224358	ENST00000423121	antisense	KNOWN	None	None	None	None	165738166	165744413	1	None	None
4	None	ENSG00000268967	ENST00000600494	processed_pseudogene	KNOWN	None	None	None	None	49550581	49550872	-1	None	None
7	SNRPGP3	ENSG00000239919	ENST00000469405	processed_pseudogene	KNOWN	None	39322	None	None	129117716	129117942	1	None	None
1	None	ENSG00000228988	ENST00000422107	antisense	KNOWN	None	None	None	None	70684272	70686706	-1	None	None
3	RNU6-712P	ENSG00000222490	ENST00000410558	snRNA	KNOWN	None	47675	None	None	90233784	90233883	1	None	None
5	None	ENSG00000250383	ENST00000510935	antisense	KNOWN	None	None	None	None	108153742	108166491	-1	None	None
2	PGBD4P5	ENSG00000225136	ENST00000445958	processed_pseudogene	KNOWN	None	44070	None	None	89221844	89222269	-1	None	None
20	None	ENSG00000270777	ENST00000605338	lincRNA	KNOWN	None	None	None	None	10981952	10982411	1	None	None
13	None	ENSG00000272349	ENST00000606869	lincRNA	KNOWN	None	None	None	None	102369198	102369728	-1	None	None
1	None	ENSG00000230659	ENST00000415894	processed_pseudogene	KNOWN	None	None	None	None	165788590	165789024	1	None	None
1	None	ENSG00000230659	ENST00000600305	processed_pseudogene	KNOWN	None	None	None	None	165788590	165788997	1	None	None
3	None	ENSG00000261734	ENST00000566804	lincRNA	KNOWN	None	None	None	None	20429741	20432054	1	None	None
9	PRRC2B	ENSG00000130723	ENST00000405995	protein_coding	KNOWN	None	28121	4608	1535	134269480	134375584	1	KIAA0515, BAT2L, BAT2L1	MGC10526, LQFBS-1
9	PRRC2B	ENSG00000130723	ENST00000489593	processed_transcript	KNOWN	None	28121	None	None	134321892	134323585	1	KIAA0515, BAT2L, BAT2L1	MGC10526, LQFBS-1
9	PRRC2B	ENSG00000130723	ENST00000422467	protein_coding	PUTATIVE	None	28121	535	177	134330530	134346178	1	KIAA0515, BAT2L, BAT2L1	MGC10526, LQFBS-1
9	PRRC2B	ENSG00000130723	ENST00000456307	protein_coding	PUTATIVE	None	28121	525	174	134348981	134350234	1	KIAA0515, BAT2L, BAT2L1	MGC10526, LQFBS-1
9	PRRC2B	ENSG00000130723	ENST00000451855	protein_coding	PUTATIVE	None	28121	1762	586	134351317	134360177	1	KIAA0515, BAT2L, BAT2L1	MGC10526, LQFBS-1
9	PRRC2B	ENSG00000130723	ENST00000320547	protein_coding	PUTATIVE	None	28121	535	177	134362679	134375584	1	KIAA0515, BAT2L, BAT2L1	MGC10526, LQFBS-1
9	PRRC2B	ENSG00000130723	ENST00000465931	processed_transcript	KNOWN	None	28121	None	None	134366152	134375584	1	KIAA0515, BAT2L, BAT2L1	MGC10526, LQFBS-1
9	PRRC2B	ENSG00000130723	ENST00000357304	protein_coding	KNOWN	CCDS48044	28121	6690	2229	134305477	134375558	1	KIAA0515, BAT2L, BAT2L1	MGC10526, LQFBS-1
9	PRRC2B	ENSG00000130723	ENST00000458550	protein_coding	KNOWN	None	28121	4608	1535	134305532	134371710	1	KIAA0515, BAT2L, BAT2L1	MGC10526, LQFBS-1
9	PRRC2B	ENSG00000130723	ENST00000372249	protein_coding	KNOWN	None	28121	807	268	134322487	134371710	1	KIAA0515, BAT2L, BAT2L1	MGC10526, LQFBS-1
17	None	ENSG00000242123	ENST00000467217	processed_pseudogene	KNOWN	None	None	None	None	60397245	60397550	1	None	None
3	None	ENSG00000212073	ENST00000390784	miRNA	NOVEL	None	None	None	None	130830514	130830602	-1	None	None
3	PROSP	ENSG00000189002	ENST00000474651	unprocessed_pseudogene	KNOWN	None	9458	None	None	90251466	90306565	-1	PROS2	None
3	PROSP	ENSG00000189002	ENST00000599745	unprocessed_pseudogene	KNOWN	None	9458	None	None	90278995	90279117	-1	PROS2	None
5	None	ENSG00000207404	ENST00000384673	misc_RNA	NOVEL	None	None	None	None	108227138	108227247	1	None	None
12	None	ENSG00000257893	ENST00000546710	lincRNA	KNOWN	None	None	None	None	92271167	92274431	1	None	None
2	IGKV2-4	ENSG00000253435	ENST00000523070	IG_V_pseudogene	KNOWN	None	5788	None	None	89231184	89231898	-1	None	None
1	None	ENSG00000226088	ENST00000413943	antisense	KNOWN	None	None	None	None	70825245	70826120	-1	None	None
7	IFRD1	ENSG00000006652	ENST00000432734	protein_coding	KNOWN	None	5456	92	29	112063023	112090835	1	None	PC4, TIS7
7	IFRD1	ENSG00000006652	ENST00000005558	protein_coding	KNOWN	CCDS34736	5456	1356	451	112063199	112115582	1	None	PC4, TIS7
7	IFRD1	ENSG00000006652	ENST00000443101	protein_coding	PUTATIVE	None	5456	121	39	112075503	112096128	1	None	PC4, TIS7
7	IFRD1	ENSG00000006652	ENST00000445335	protein_coding	KNOWN	None	5456	187	61	112090104	112095910	1	None	PC4, TIS7
7	IFRD1	ENSG00000006652	ENST00000417662	protein_coding	KNOWN	None	5456	53	16	112090181	112090796	1	None	PC4, TIS7
7	IFRD1	ENSG00000006652	ENST00000403825	protein_coding	KNOWN	CCDS34736	5456	1356	451	112090483	112116247	1	None	PC4, TIS7
7	IFRD1	ENSG00000006652	ENST00000429071	protein_coding	PUTATIVE	None	5456	447	148	112090513	112098391	1	None	PC4, TIS7
7	IFRD1	ENSG00000006652	ENST00000476927	protein_coding	PUTATIVE	None	5456	311	102	112091075	112098967	1	None	PC4, TIS7
7	IFRD1	ENSG00000006652	ENST00000440625	protein_coding	PUTATIVE	None	5456	381	126	112092113	112099037	1	None	PC4, TIS7
7	IFRD1	ENSG00000006652	ENST00000466459	processed_transcript	KNOWN	None	5456	None	None	112097051	112108159	1	None	PC4, TIS7
7	IFRD1	ENSG00000006652	ENST00000486688	processed_transcript	KNOWN	None	5456	None	None	112097586	112102177	1	None	PC4, TIS7
7	IFRD1	ENSG00000006652	ENST00000421296	protein_coding	PUTATIVE	None	5456	272	89	112101387	112112299	1	None	PC4, TIS7
7	IFRD1	ENSG00000006652	ENST00000489994	retained_intron	KNOWN	None	5456	None	None	112107432	112116241	1	None	PC4, TIS7
7	IFRD1	ENSG00000006652	ENST00000470441	retained_intron	KNOWN	None	5456	None	None	112107732	112112916	1	None	PC4, TIS7
7	IFRD1	ENSG00000006652	ENST00000462155	protein_coding	PUTATIVE	None	5456	297	98	112108141	112121072	1	None	PC4, TIS7
7	IFRD1	ENSG00000006652	ENST00000535603	protein_coding	KNOWN	CCDS56504	5456	1206	401	112092472	112115814	1	None	PC4, TIS7
3	RNU6-815P	ENSG00000206807	ENST00000384080	snRNA	KNOWN	None	47778	None	None	20549136	20549248	-1	None	None
17	None	ENSG00000233002	ENST00000434017	antisense	KNOWN	None	None	None	None	15638337	15647105	-1	None	None
17	None	ENSG00000233002	ENST00000433873	antisense	KNOWN	None	None	None	None	15641817	15647113	-1	None	None
17	None	ENSG00000233002	ENST00000580194	antisense	KNOWN	None	None	None	None	15643942	15652506	-1	None	None
5	None	ENSG00000250441	ENST00000509173	processed_pseudogene	KNOWN	None	None	None	None	108230048	108230329	-1	None	None
12	None	ENSG00000257698	ENST00000551421	lincRNA	KNOWN	None	None	None	None	58325311	58329862	-1	None	None
12	None	ENSG00000257698	ENST00000547492	retained_intron	KNOWN	None	None	None	None	58325352	58329842	-1	None	None
12	None	ENSG00000257698	ENST00000546580	lincRNA	KNOWN	None	None	None	None	58325371	58329958	-1	None	None
12	None	ENSG00000257698	ENST00000553102	retained_intron	KNOWN	None	None	None	None	58328857	58329846	-1	None	None
3	None	ENSG00000221659	ENST00000408732	miRNA	NOVEL	None	None	None	None	21179755	21179833	-1	None	None
2	None	ENSG00000231189	ENST00000422118	lincRNA	KNOWN	None	None	None	None	224363491	224369329	1	None	None
13	RNU1-24P	ENSG00000201155	ENST00000364285	snRNA	KNOWN	None	42504	None	None	102431234	102431398	-1	None	U1.41
6	RNU6-427P	ENSG00000206856	ENST00000384129	snRNA	KNOWN	None	47390	None	None	139180164	139180270	-1	None	None
16	TRAPPC2L	ENSG00000167515	ENST00000564365	protein_coding	PUTATIVE	None	30887	180	59	88922628	88927823	1	None	HSPC176
16	TRAPPC2L	ENSG00000167515	ENST00000567895	protein_coding	PUTATIVE	None	30887	330	109	88923494	88927759	1	None	HSPC176
16	TRAPPC2L	ENSG00000167515	ENST00000301021	protein_coding	KNOWN	CCDS10971	30887	423	140	88923494	88929094	1	None	HSPC176
16	TRAPPC2L	ENSG00000167515	ENST00000564547	retained_intron	KNOWN	None	30887	None	None	88923506	88925920	1	None	HSPC176
16	TRAPPC2L	ENSG00000167515	ENST00000562792	nonsense_mediated_decay	KNOWN	None	30887	114	37	88923535	88926137	1	None	HSPC176
16	TRAPPC2L	ENSG00000167515	ENST00000565504	protein_coding	PUTATIVE	None	30887	726	241	88923535	88929084	1	None	HSPC176
16	TRAPPC2L	ENSG00000167515	ENST00000565205	nonsense_mediated_decay	KNOWN	None	30887	228	75	88923539	88927695	1	None	HSPC176
16	TRAPPC2L	ENSG00000167515	ENST00000567312	protein_coding	NOVEL	None	30887	330	109	88923543	88927520	1	None	HSPC176
16	TRAPPC2L	ENSG00000167515	ENST00000568583	protein_coding	NOVEL	None	30887	441	146	88923549	88927717	1	None	HSPC176
16	TRAPPC2L	ENSG00000167515	ENST00000564404	nonsense_mediated_decay	KNOWN	None	30887	228	75	88923552	88927518	1	None	HSPC176
16	TRAPPC2L	ENSG00000167515	ENST00000561840	protein_coding	PUTATIVE	None	30887	390	129	88923576	88927457	1	None	HSPC176
16	TRAPPC2L	ENSG00000167515	ENST00000565309	retained_intron	KNOWN	None	30887	None	None	88925025	88926594	1	None	HSPC176
16	TRAPPC2L	ENSG00000167515	ENST00000562125	retained_intron	KNOWN	None	30887	None	None	88925709	88927513	1	None	HSPC176
16	TRAPPC2L	ENSG00000167515	ENST00000563514	retained_intron	KNOWN	None	30887	None	None	88926179	88927538	1	None	HSPC176
3	None	ENSG00000252306	ENST00000516497	miRNA	NOVEL	None	None	None	None	21430025	21430109	-1	None	None
7	None	ENSG00000272361	ENST00000607795	lincRNA	KNOWN	None	None	None	None	16633253	16633849	-1	None	None
5	RNU6-47P	ENSG00000206593	ENST00000383866	snRNA	KNOWN	None	34291	None	None	108350535	108350641	-1	RNU6-47	None
1	None	ENSG00000271992	ENST00000607679	lincRNA	KNOWN	None	None	None	None	70910754	70911219	1	None	None
13	HMGB3P7	ENSG00000215399	ENST00000400214	processed_pseudogene	KNOWN	None	39299	None	None	102454228	102454838	1	None	None
3	None	ENSG00000265235	ENST00000579778	miRNA	NOVEL	None	None	None	None	130907155	130907242	-1	None	None
1	None	ENSG00000236364	ENST00000455257	antisense	KNOWN	None	None	None	None	165865116	165869592	-1	None	None
10	NUDT13	ENSG00000166321	ENST00000488223	processed_transcript	KNOWN	None	18827	None	None	74870217	74891586	1	None	DKFZp586P2219
10	NUDT13	ENSG00000166321	ENST00000357321	protein_coding	KNOWN	CCDS31220	18827	1059	352	74870217	74891586	1	None	DKFZp586P2219
10	NUDT13	ENSG00000166321	ENST00000349051	protein_coding	KNOWN	None	18827	792	263	74870217	74891586	1	None	DKFZp586P2219
10	NUDT13	ENSG00000166321	ENST00000469925	processed_transcript	KNOWN	None	18827	None	None	74870278	74874926	1	None	DKFZp586P2219
10	NUDT13	ENSG00000166321	ENST00000372997	protein_coding	KNOWN	None	18827	708	235	74870288	74891586	1	None	DKFZp586P2219
10	NUDT13	ENSG00000166321	ENST00000544879	protein_coding	KNOWN	None	18827	681	226	74870280	74890957	1	None	DKFZp586P2219
10	NUDT13	ENSG00000166321	ENST00000537969	protein_coding	KNOWN	None	18827	468	155	74870280	74890700	1	None	DKFZp586P2219
2	IGKV2-10	ENSG00000253278	ENST00000518834	IG_V_pseudogene	KNOWN	None	5776	None	None	89319489	89320183	-1	None	None
2	FAM138B	ENSG00000226516	ENST00000446648	lincRNA	KNOWN	None	33582	None	None	114334959	114336429	1	None	F379
2	FAM138B	ENSG00000226516	ENST00000432583	lincRNA	KNOWN	None	33582	None	None	114334959	114336429	1	None	F379
6	None	ENSG00000220600	ENST00000572284	processed_transcript	KNOWN	None	None	None	None	139200036	139200544	-1	None	None
6	None	ENSG00000220600	ENST00000404494	transcribed_processed_pseudogene	KNOWN	None	None	None	None	139200180	139200456	-1	None	None
3	VENTXP7	ENSG00000236380	ENST00000475503	processed_pseudogene	KNOWN	None	13638	None	None	21447229	21448000	1	VENTX1	HPX42
3	VENTXP7	ENSG00000236380	ENST00000596446	processed_pseudogene	KNOWN	None	13638	None	None	21447218	21448175	1	VENTX1	HPX42
5	CXXC5	ENSG00000171604	ENST00000502295	protein_coding	KNOWN	None	26943	206	67	139026884	139060314	1	None	HSPC195, RINF, WID
5	CXXC5	ENSG00000171604	ENST00000504944	protein_coding	KNOWN	None	26943	307	101	139027489	139060415	1	None	HSPC195, RINF, WID
5	CXXC5	ENSG00000171604	ENST00000302517	protein_coding	KNOWN	CCDS43370	26943	969	322	139027877	139063467	1	None	HSPC195, RINF, WID
5	CXXC5	ENSG00000171604	ENST00000507139	protein_coding	KNOWN	None	26943	33	10	139028246	139060141	1	None	HSPC195, RINF, WID
5	CXXC5	ENSG00000171604	ENST00000504844	protein_coding	KNOWN	None	26943	483	160	139028297	139060591	1	None	HSPC195, RINF, WID
5	CXXC5	ENSG00000171604	ENST00000502336	protein_coding	KNOWN	None	26943	242	79	139028510	139060350	1	None	HSPC195, RINF, WID
5	CXXC5	ENSG00000171604	ENST00000520967	protein_coding	KNOWN	None	26943	413	136	139028514	139060521	1	None	HSPC195, RINF, WID
5	CXXC5	ENSG00000171604	ENST00000511048	protein_coding	KNOWN	CCDS43370	26943	969	322	139028518	139063178	1	None	HSPC195, RINF, WID
5	CXXC5	ENSG00000171604	ENST00000512816	protein_coding	KNOWN	None	26943	220	72	139030574	139060328	1	None	HSPC195, RINF, WID
5	CXXC5	ENSG00000171604	ENST00000509238	protein_coding	KNOWN	None	26943	295	97	139039140	139060403	1	None	HSPC195, RINF, WID
5	CXXC5	ENSG00000171604	ENST00000502716	protein_coding	KNOWN	None	26943	543	180	139055021	139060651	1	None	HSPC195, RINF, WID
5	CXXC5	ENSG00000171604	ENST00000503511	protein_coding	KNOWN	None	26943	250	82	139055028	139060358	1	None	HSPC195, RINF, WID
5	CXXC5	ENSG00000171604	ENST00000511457	protein_coding	KNOWN	None	26943	590	195	139055059	139060698	1	None	HSPC195, RINF, WID
5	CXXC5	ENSG00000171604	ENST00000511591	protein_coding	KNOWN	None	26943	24	7	139059268	139060132	1	None	HSPC195, RINF, WID
5	CXXC5	ENSG00000171604	ENST00000515038	processed_transcript	KNOWN	None	26943	None	None	139060543	139062696	1	None	HSPC195, RINF, WID
5	CXXC5	ENSG00000171604	ENST00000505812	processed_transcript	KNOWN	None	26943	None	None	139062579	139063163	1	None	HSPC195, RINF, WID
1	RNU6-151P	ENSG00000201028	ENST00000364158	snRNA	KNOWN	None	47114	None	None	112193053	112193159	-1	None	None
5	GJA1P1	ENSG00000176857	ENST00000511478	processed_pseudogene	KNOWN	None	4275	None	None	108387016	108388158	-1	None	None
5	GJA1P1	ENSG00000176857	ENST00000314747	processed_pseudogene	KNOWN	None	4275	None	None	108387013	108388158	-1	None	None
2	None	ENSG00000235610	ENST00000440341	lincRNA	KNOWN	None	None	None	None	224370194	224375651	1	None	None
7	RNU1-72P	ENSG00000199846	ENST00000362976	snRNA	KNOWN	None	48414	None	None	129124345	129124497	1	None	None
1	None	ENSG00000233020	ENST00000456361	processed_pseudogene	KNOWN	None	None	None	None	70996209	70997175	1	None	None
8	None	ENSG00000253679	ENST00000523121	lincRNA	KNOWN	None	None	None	None	102273769	102275131	-1	None	None
HSCHR6_MHC_QBL	HLA-U	ENSG00000229428	ENST00000442622	unprocessed_pseudogene	KNOWN	None	23477	None	None	29891332	29891516	1	HLA-21	Em:AB023056.13
1	None	ENSG00000271527	ENST00000605867	processed_pseudogene	KNOWN	None	None	None	None	165910472	165911006	-1	None	None
7	RNA5SP244	ENSG00000212238	ENST00000390936	rRNA	KNOWN	None	43144	None	None	129396106	129396217	1	RN5S244	None
17	None	ENSG00000239809	ENST00000495438	processed_pseudogene	KNOWN	None	None	None	None	60459029	60459376	1	None	None
3	None	ENSG00000250608	ENST00000502521	antisense	KNOWN	None	None	None	None	131043936	131100319	-1	None	None
3	None	ENSG00000250608	ENST00000511699	retained_intron	KNOWN	None	None	None	None	131046407	131049712	-1	None	None
3	None	ENSG00000250608	ENST00000513905	antisense	KNOWN	None	None	None	None	131047217	131080455	-1	None	None
3	None	ENSG00000250608	ENST00000441345	retained_intron	KNOWN	None	None	None	None	131048932	131080441	-1	None	None
11	RNA5SP339	ENSG00000212289	ENST00000390987	rRNA	KNOWN	None	43239	None	None	27543152	27543273	-1	RN5S339	None
13	MIR2681	ENSG00000265164	ENST00000581814	miRNA	KNOWN	None	41532	None	None	102619992	102620096	-1	None	hsa-mir-2681
2	IGKV1-13	ENSG00000253497	ENST00000521705	IG_V_pseudogene	KNOWN	None	5731	None	None	89345492	89345963	-1	None	None
1	None	ENSG00000227811	ENST00000430373	antisense	KNOWN	None	None	None	None	112282463	112290420	1	None	None
1	None	ENSG00000227811	ENST00000524935	antisense	KNOWN	None	None	None	None	112282475	112289235	1	None	None
12	None	ENSG00000260943	ENST00000563933	lincRNA	KNOWN	None	None	None	None	40534728	40536678	-1	None	None
3	None	ENSG00000207283	ENST00000384553	misc_RNA	NOVEL	None	None	None	None	5127863	5127964	-1	None	None
2	None	ENSG00000226539	ENST00000446594	processed_pseudogene	KNOWN	None	None	None	None	224569338	224570055	1	None	None
HSCHR6_MHC_QBL	HCG4P5	ENSG00000235952	ENST00000453518	unprocessed_pseudogene	KNOWN	None	22925	None	None	29899233	29900225	-1	None	HCGIV-05, HCGIV.4, HCGIV-5
7	OR2A20P	ENSG00000170356	ENST00000479887	processed_transcript	KNOWN	None	15413	None	None	143947138	143950050	-1	OR2A20	None
7	OR2A20P	ENSG00000170356	ENST00000496731	transcribed_unprocessed_pseudogene	KNOWN	None	15413	None	None	143947764	143948696	-1	OR2A20	None
1	None	ENSG00000239054	ENST00000459434	snoRNA	NOVEL	None	None	None	None	223085186	223085289	-1	None	None
17	None	ENSG00000267227	ENST00000587972	processed_pseudogene	KNOWN	None	None	None	None	15652017	15652629	-1	None	None
9	C9orf78	ENSG00000136819	ENST00000372447	protein_coding	KNOWN	CCDS6931	24932	870	289	132589569	132597554	-1	None	HSPC220, HCA59
9	C9orf78	ENSG00000136819	ENST00000461349	processed_transcript	KNOWN	None	24932	None	None	132590247	132597533	-1	None	HSPC220, HCA59
9	C9orf78	ENSG00000136819	ENST00000461762	processed_transcript	KNOWN	None	24932	None	None	132590707	132596826	-1	None	HSPC220, HCA59
9	C9orf78	ENSG00000136819	ENST00000480023	processed_transcript	KNOWN	None	24932	None	None	132590721	132592964	-1	None	HSPC220, HCA59
9	C9orf78	ENSG00000136819	ENST00000461539	processed_transcript	KNOWN	None	24932	None	None	132591558	132598142	-1	None	HSPC220, HCA59
9	C9orf78	ENSG00000136819	ENST00000492991	processed_transcript	KNOWN	None	24932	None	None	132593214	132597560	-1	None	HSPC220, HCA59
9	C9orf78	ENSG00000136819	ENST00000495934	processed_transcript	KNOWN	None	24932	None	None	132593689	132595796	-1	None	HSPC220, HCA59
HSCHR10_1_CTG5	MARCH8	ENSG00000262448	ENST00000575327	protein_coding	KNOWN	None	23356	1369	455	45966098	45975396	-1	MIR	c-MIR, MARCH-VIII, RNF178
HSCHR10_1_CTG5	MARCH8	ENSG00000262448	ENST00000574996	protein_coding	KNOWN	None	23356	876	291	45969017	46046882	-1	MIR	c-MIR, MARCH-VIII, RNF178
HSCHR10_1_CTG5	MARCH8	ENSG00000262448	ENST00000577010	processed_transcript	KNOWN	None	23356	None	None	45969022	45973715	-1	MIR	c-MIR, MARCH-VIII, RNF178
HSCHR10_1_CTG5	MARCH8	ENSG00000262448	ENST00000572997	protein_coding	KNOWN	None	23356	267	88	45972898	46045530	-1	MIR	c-MIR, MARCH-VIII, RNF178
13	LIPT1P1	ENSG00000229975	ENST00000415870	processed_pseudogene	KNOWN	None	39278	None	None	102654475	102655660	1	None	None
12	None	ENSG00000223914	ENST00000457989	lincRNA	KNOWN	None	None	None	None	40550041	40561414	1	None	None
12	None	ENSG00000223914	ENST00000417422	lincRNA	KNOWN	None	None	None	None	40560054	40561509	1	None	None
7	MIR182	ENSG00000207990	ENST00000385255	miRNA	KNOWN	None	31553	None	None	129410223	129410332	-1	MIRN182	hsa-mir-182
3	None	ENSG00000239205	ENST00000472120	lincRNA	KNOWN	None	None	None	None	164867794	164875850	-1	None	None
1	None	ENSG00000226292	ENST00000422100	processed_pseudogene	KNOWN	None	None	None	None	165991452	165992264	1	None	None
1	NDUFB1P2	ENSG00000234523	ENST00000449477	processed_pseudogene	KNOWN	None	37815	None	None	223119067	223119242	1	None	None
8	None	ENSG00000253282	ENST00000524287	lincRNA	KNOWN	None	None	None	None	102299673	102306011	1	None	None
16	None	ENSG00000262154	ENST00000572664	processed_pseudogene	KNOWN	None	None	None	None	2872660	2872994	-1	None	None
HSCHR6_MHC_QBL	HLA-W	ENSG00000228029	ENST00000444656	unprocessed_pseudogene	KNOWN	None	23425	None	None	29913778	29915752	1	HLA-80	None
17	None	ENSG00000233193	ENST00000433051	lincRNA	KNOWN	None	None	None	None	15664928	15667083	-1	None	None
2	IGKV2-14	ENSG00000253265	ENST00000517571	IG_V_pseudogene	KNOWN	None	5777	None	None	89377506	89378280	-1	None	None
1	CASP3P1	ENSG00000237033	ENST00000446037	processed_pseudogene	KNOWN	None	43596	None	None	71126340	71126948	-1	None	None
11	None	ENSG00000240036	ENST00000476147	processed_pseudogene	KNOWN	None	None	None	None	27603227	27603602	1	None	None
11	None	ENSG00000240036	ENST00000540179	processed_pseudogene	KNOWN	None	None	None	None	27603227	27603601	1	None	None
13	None	ENSG00000271901	ENST00000606365	lincRNA	KNOWN	None	None	None	None	35120066	35245319	-1	None	None
1	None	ENSG00000236846	ENST00000435108	lincRNA	KNOWN	None	None	None	None	223317391	223318296	1	None	None
4	RAB28	ENSG00000157869	ENST00000511649	protein_coding	PUTATIVE	None	9768	430	142	13362978	13475969	-1	None	None
4	RAB28	ENSG00000157869	ENST00000508274	nonsense_mediated_decay	KNOWN	None	9768	288	95	13369348	13485955	-1	None	None
4	RAB28	ENSG00000157869	ENST00000330852	protein_coding	KNOWN	CCDS33961	9768	666	221	13369348	13485989	-1	None	None
4	RAB28	ENSG00000157869	ENST00000288723	protein_coding	KNOWN	CCDS3409	9768	663	220	13369348	13485989	-1	None	None
4	RAB28	ENSG00000157869	ENST00000504644	protein_coding	PUTATIVE	None	9768	224	73	13370125	13383218	-1	None	None
4	RAB28	ENSG00000157869	ENST00000510528	protein_coding	PUTATIVE	None	9768	155	50	13461487	13475946	-1	None	None
4	RAB28	ENSG00000157869	ENST00000338176	protein_coding	KNOWN	CCDS54741	9768	615	204	13369349	13485989	-1	None	None
8	RNU7-67P	ENSG00000239115	ENST00000459003	snRNA	KNOWN	None	34163	None	None	102319595	102319656	1	None	U7.67
3	None	ENSG00000271024	ENST00000603327	processed_pseudogene	KNOWN	None	None	None	None	90310564	90310858	-1	None	None
17	CDRT15P2	ENSG00000227255	ENST00000447470	unprocessed_pseudogene	KNOWN	None	34074	None	None	15668017	15668978	1	CDRT15L1	None
14	None	ENSG00000259067	ENST00000555713	lincRNA	KNOWN	None	None	None	None	105370679	105371541	1	None	None
13	GAMTP2	ENSG00000231910	ENST00000430917	processed_pseudogene	KNOWN	None	37697	None	None	35148341	35148803	-1	None	None
2	IGKV2-18	ENSG00000254157	ENST00000522607	IG_V_pseudogene	KNOWN	None	5778	None	None	89428207	89428966	-1	None	None
3	RNU6-488P	ENSG00000251727	ENST00000515918	snRNA	KNOWN	None	47451	None	None	93562608	93562706	1	None	None
1	RNA5SP64	ENSG00000207341	ENST00000384611	rRNA	KNOWN	None	42841	None	None	166011481	166011587	1	RN5S64	None
17	RNU7-52P	ENSG00000251981	ENST00000516172	snRNA	KNOWN	None	34148	None	None	60460465	60460527	1	None	U7.52
13	None	ENSG00000261728	ENST00000568811	lincRNA	KNOWN	None	None	None	None	35499971	35502213	-1	None	None
1	None	ENSG00000226601	ENST00000446145	lincRNA	KNOWN	None	None	None	None	223354486	223361496	1	None	None
2	None	ENSG00000228802	ENST00000425192	antisense	KNOWN	None	None	None	None	224830418	224832423	-1	None	None
12	None	ENSG00000225342	ENST00000412812	antisense	KNOWN	None	None	None	None	40579811	40617605	-1	None	None
17	ZSWIM5P1	ENSG00000235430	ENST00000420606	processed_pseudogene	KNOWN	None	43768	None	None	15672031	15674740	-1	None	None
HSCHR6_MHC_QBL	MICD	ENSG00000232345	ENST00000428889	unprocessed_pseudogene	KNOWN	None	7093	None	None	29927983	29929646	-1	None	PERB11.4
1	None	ENSG00000229051	ENST00000419450	lincRNA	KNOWN	None	None	None	None	71172136	71252151	1	None	None
1	None	ENSG00000203307	ENST00000366136	antisense	KNOWN	None	None	None	None	166050420	166056720	1	None	None
17	RPS23P7	ENSG00000239527	ENST00000466210	processed_pseudogene	KNOWN	None	43899	None	None	60474758	60475503	1	None	None
13	SCAND3P1	ENSG00000232795	ENST00000439854	processed_pseudogene	KNOWN	None	42037	None	None	35759431	35760816	1	None	None
1	KCND3-IT1	ENSG00000232558	ENST00000439736	sense_intronic	KNOWN	None	41350	None	None	112396384	112399527	-1	None	None
12	SH2B3	ENSG00000111252	ENST00000341259	protein_coding	PUTATIVE	CCDS9153	29605	1728	575	111843752	111889427	1	None	LNK, IDDM20
12	SH2B3	ENSG00000111252	ENST00000550925	protein_coding	PUTATIVE	None	29605	648	215	111856144	111882652	1	None	LNK, IDDM20
12	SH2B3	ENSG00000111252	ENST00000538307	protein_coding	PUTATIVE	None	29605	1122	373	111872666	111887006	1	None	LNK, IDDM20
14	None	ENSG00000257556	ENST00000548104	lincRNA	KNOWN	None	None	None	None	105559946	105562036	1	None	None
14	None	ENSG00000257556	ENST00000546968	lincRNA	KNOWN	None	None	None	None	105561528	105565341	1	None	None
14	None	ENSG00000257556	ENST00000548361	lincRNA	KNOWN	None	None	None	None	105561662	105562104	1	None	None
1	RNU4-57P	ENSG00000251789	ENST00000515980	snRNA	KNOWN	None	46993	None	None	223547164	223547266	1	None	None
17	METTL2A	ENSG00000087995	ENST00000311506	protein_coding	KNOWN	CCDS45752	25755	1137	378	60501228	60527454	1	None	FLJ12760, METTL2
17	METTL2A	ENSG00000087995	ENST00000333483	retained_intron	KNOWN	None	25755	None	None	60501236	60526275	1	None	FLJ12760, METTL2
17	METTL2A	ENSG00000087995	ENST00000582027	retained_intron	KNOWN	None	25755	None	None	60512222	60518117	1	None	FLJ12760, METTL2
3	None	ENSG00000201339	ENST00000364469	misc_RNA	NOVEL	None	None	None	None	93686770	93686864	1	None	None
16	PRSS30P	ENSG00000172460	ENST00000506153	processed_transcript	KNOWN	None	28753	None	None	2889569	2891849	-1	TMPRSS8, TMPRSS8P	Disp, MGC5228
16	PRSS30P	ENSG00000172460	ENST00000489864	processed_transcript	KNOWN	None	28753	None	None	2889569	2892477	-1	TMPRSS8, TMPRSS8P	Disp, MGC5228
16	PRSS30P	ENSG00000172460	ENST00000476276	retained_intron	KNOWN	None	28753	None	None	2889569	2892639	-1	TMPRSS8, TMPRSS8P	Disp, MGC5228
16	PRSS30P	ENSG00000172460	ENST00000475030	processed_transcript	KNOWN	None	28753	None	None	2889569	2892711	-1	TMPRSS8, TMPRSS8P	Disp, MGC5228
16	PRSS30P	ENSG00000172460	ENST00000390681	retained_intron	KNOWN	None	28753	None	None	2889569	2892745	-1	TMPRSS8, TMPRSS8P	Disp, MGC5228
16	PRSS30P	ENSG00000172460	ENST00000480827	unitary_pseudogene	KNOWN	None	28753	None	None	2889657	2891329	-1	TMPRSS8, TMPRSS8P	Disp, MGC5228
2	IGKV2-19	ENSG00000253732	ENST00000518132	IG_V_pseudogene	KNOWN	None	5779	None	None	89434458	89434740	-1	None	None
6	BMP6	ENSG00000153162	ENST00000283147	protein_coding	KNOWN	CCDS4503	1073	1542	513	7727030	7881655	1	VGR	VGR1
13	PHBP13	ENSG00000234835	ENST00000453244	processed_pseudogene	KNOWN	None	39292	None	None	35825207	35825966	1	None	None
1	None	ENSG00000230898	ENST00000451784	sense_intronic	KNOWN	None	None	None	None	166117019	166134332	-1	None	None
3	RNU6-511P	ENSG00000200366	ENST00000363496	snRNA	KNOWN	None	47474	None	None	93695873	93695979	1	None	None
11	TRIM51EP	ENSG00000237706	ENST00000524374	unprocessed_pseudogene	KNOWN	None	43970	None	None	89714609	89722727	-1	None	None
11	TRIM51EP	ENSG00000237706	ENST00000458065	unprocessed_pseudogene	KNOWN	None	43970	None	None	89714800	89724840	-1	None	None
1	None	ENSG00000235428	ENST00000439337	unprocessed_pseudogene	KNOWN	None	None	None	None	223741977	223742862	-1	None	None
3	None	ENSG00000272511	ENST00000606582	lincRNA	KNOWN	None	None	None	None	21453714	21455436	-1	None	None
2	None	ENSG00000224826	ENST00000401725	processed_pseudogene	KNOWN	None	None	None	None	225034381	225036254	1	None	None
HG348_PATCH	KDM4D	ENSG00000261946	ENST00000570915	protein_coding	KNOWN	None	25498	1572	523	94706846	94732679	1	JMJD2D	FLJ10251
HG348_PATCH	KDM4D	ENSG00000261946	ENST00000576429	protein_coding	KNOWN	None	25498	1572	523	94706988	94732679	1	JMJD2D	FLJ10251
17	RNA5SP436	ENSG00000251829	ENST00000516020	rRNA	KNOWN	None	43336	None	None	15685655	15685769	1	RN5S436	None
15	KIF23	ENSG00000137807	ENST00000559279	protein_coding	KNOWN	CCDS32279	6392	2571	856	69706585	69740764	1	KNSL5	MKLP1, MKLP-1
15	KIF23	ENSG00000137807	ENST00000395392	protein_coding	NOVEL	None	6392	2859	952	69706632	69740471	1	KNSL5	MKLP1, MKLP-1
15	KIF23	ENSG00000137807	ENST00000352331	protein_coding	PUTATIVE	CCDS32279	6392	2571	856	69706643	69740764	1	KNSL5	MKLP1, MKLP-1
15	KIF23	ENSG00000137807	ENST00000561089	nonsense_mediated_decay	KNOWN	None	6392	330	109	69706664	69740254	1	KNSL5	MKLP1, MKLP-1
15	KIF23	ENSG00000137807	ENST00000558346	nonsense_mediated_decay	KNOWN	None	6392	1116	371	69706688	69728571	1	KNSL5	MKLP1, MKLP-1
15	KIF23	ENSG00000137807	ENST00000560042	retained_intron	KNOWN	None	6392	None	None	69706720	69714255	1	KNSL5	MKLP1, MKLP-1
15	KIF23	ENSG00000137807	ENST00000558585	protein_coding	PUTATIVE	None	6392	2022	673	69715239	69740257	1	KNSL5	MKLP1, MKLP-1
15	KIF23	ENSG00000137807	ENST00000559283	protein_coding	PUTATIVE	None	6392	803	266	69715248	69728598	1	KNSL5	MKLP1, MKLP-1
15	KIF23	ENSG00000137807	ENST00000559456	retained_intron	KNOWN	None	6392	None	None	69718214	69730699	1	KNSL5	MKLP1, MKLP-1
15	KIF23	ENSG00000137807	ENST00000558303	retained_intron	KNOWN	None	6392	None	None	69735944	69740223	1	KNSL5	MKLP1, MKLP-1
15	KIF23	ENSG00000137807	ENST00000560125	retained_intron	KNOWN	None	6392	None	None	69737094	69739289	1	KNSL5	MKLP1, MKLP-1
15	KIF23	ENSG00000137807	ENST00000559944	retained_intron	KNOWN	None	6392	None	None	69738639	69740162	1	KNSL5	MKLP1, MKLP-1
15	KIF23	ENSG00000137807	ENST00000260363	protein_coding	KNOWN	CCDS32278	6392	2883	960	69706688	69740756	1	KNSL5	MKLP1, MKLP-1
15	KIF23	ENSG00000137807	ENST00000537891	protein_coding	KNOWN	None	6392	2022	673	69715478	69740257	1	KNSL5	MKLP1, MKLP-1
3	HMGN1P7	ENSG00000239614	ENST00000491722	processed_pseudogene	KNOWN	None	39350	None	None	93707478	93707790	-1	None	None
1	None	ENSG00000226208	ENST00000423187	lincRNA	KNOWN	None	None	None	None	71181616	71185972	-1	None	None
2	IGKV1-22	ENSG00000253578	ENST00000524313	IG_V_pseudogene	KNOWN	None	5734	None	None	89470259	89470696	-1	None	None
1	MIR921	ENSG00000215952	ENST00000401133	miRNA	KNOWN	None	33671	None	None	166123980	166124035	-1	MIRN921	hsa-mir-921
X	RPL17P49	ENSG00000231211	ENST00000443728	processed_pseudogene	KNOWN	None	37009	None	None	12413876	12414286	-1	None	None
1	KCND3-AS1	ENSG00000237556	ENST00000441125	antisense	KNOWN	None	40317	None	None	112451958	112452783	1	None	None
1	KCND3-AS1	ENSG00000237556	ENST00000427471	antisense	KNOWN	None	40317	None	None	112452270	112453553	1	None	None
1	KCND3-AS1	ENSG00000237556	ENST00000419258	antisense	KNOWN	None	40317	None	None	112452307	112453552	1	None	None
17	IL6STP1	ENSG00000227018	ENST00000346911	processed_pseudogene	KNOWN	None	6022	None	None	15686602	15687621	1	IL6STP	None
1	None	ENSG00000235782	ENST00000426775	antisense	KNOWN	None	None	None	None	71413062	71417176	1	None	None
HSCHR6_MHC_QBL	HCG9	ENSG00000206504	ENST00000383616	processed_transcript	KNOWN	None	21243	None	None	29932284	29935585	1	None	PERB11, HCGIX, HCGIX4, HCGIX-4
1	None	ENSG00000215835	ENST00000400979	processed_pseudogene	KNOWN	None	None	None	None	166244866	166246834	-1	None	None
1	SNRPEP10	ENSG00000227002	ENST00000420249	processed_pseudogene	KNOWN	None	43575	None	None	223831812	223832085	-1	None	None
8	None	ENSG00000253836	ENST00000522123	lincRNA	KNOWN	None	None	None	None	83775014	83870931	-1	None	None
9	None	ENSG00000230676	ENST00000436510	lincRNA	KNOWN	None	None	None	None	132192931	132209569	-1	None	None
9	None	ENSG00000230676	ENST00000454408	lincRNA	KNOWN	None	None	None	None	132208911	132213701	-1	None	None
3	None	ENSG00000244128	ENST00000470138	lincRNA	KNOWN	None	None	None	None	164924748	165298816	1	None	None
3	None	ENSG00000244128	ENST00000498616	lincRNA	KNOWN	None	None	None	None	164924750	165209054	1	None	None
3	None	ENSG00000244128	ENST00000494915	lincRNA	KNOWN	None	None	None	None	164924769	165178321	1	None	None
3	None	ENSG00000244128	ENST00000496693	lincRNA	KNOWN	None	None	None	None	165266626	165373211	1	None	None
1	None	ENSG00000269933	ENST00000602605	sense_intronic	KNOWN	None	None	None	None	71471537	71472185	-1	None	None
1	ZRANB2-AS1	ENSG00000235079	ENST00000450461	antisense	KNOWN	None	43594	None	None	71514538	71532867	1	None	None
1	ZRANB2-AS1	ENSG00000235079	ENST00000426999	antisense	KNOWN	None	43594	None	None	71524006	71532641	1	None	None
20	ERGIC3	ENSG00000125991	ENST00000348547	protein_coding	KNOWN	CCDS13257	15927	1152	383	34129770	34145405	1	SDBCAG84, C20orf47	CGI-54, PRO0989, NY-BR-84, Erv46
20	ERGIC3	ENSG00000125991	ENST00000357394	protein_coding	KNOWN	CCDS13258	15927	1167	388	34129787	34145405	1	SDBCAG84, C20orf47	CGI-54, PRO0989, NY-BR-84, Erv46
20	ERGIC3	ENSG00000125991	ENST00000476926	retained_intron	KNOWN	None	15927	None	None	34129818	34137537	1	SDBCAG84, C20orf47	CGI-54, PRO0989, NY-BR-84, Erv46
20	ERGIC3	ENSG00000125991	ENST00000486268	processed_transcript	KNOWN	None	15927	None	None	34129828	34130888	1	SDBCAG84, C20orf47	CGI-54, PRO0989, NY-BR-84, Erv46
20	ERGIC3	ENSG00000125991	ENST00000438317	nonsense_mediated_decay	KNOWN	None	15927	372	123	34129828	34135222	1	SDBCAG84, C20orf47	CGI-54, PRO0989, NY-BR-84, Erv46
20	ERGIC3	ENSG00000125991	ENST00000492184	retained_intron	KNOWN	None	15927	None	None	34129831	34133155	1	SDBCAG84, C20orf47	CGI-54, PRO0989, NY-BR-84, Erv46
20	ERGIC3	ENSG00000125991	ENST00000416206	protein_coding	NOVEL	None	15927	1193	396	34129851	34145317	1	SDBCAG84, C20orf47	CGI-54, PRO0989, NY-BR-84, Erv46
20	ERGIC3	ENSG00000125991	ENST00000411577	protein_coding	PUTATIVE	None	15927	357	118	34129865	34131658	1	SDBCAG84, C20orf47	CGI-54, PRO0989, NY-BR-84, Erv46
20	ERGIC3	ENSG00000125991	ENST00000413587	protein_coding	NOVEL	None	15927	977	324	34129879	34144837	1	SDBCAG84, C20orf47	CGI-54, PRO0989, NY-BR-84, Erv46
20	ERGIC3	ENSG00000125991	ENST00000461043	retained_intron	KNOWN	None	15927	None	None	34129941	34136618	1	SDBCAG84, C20orf47	CGI-54, PRO0989, NY-BR-84, Erv46
20	ERGIC3	ENSG00000125991	ENST00000496172	retained_intron	KNOWN	None	15927	None	None	34130192	34144033	1	SDBCAG84, C20orf47	CGI-54, PRO0989, NY-BR-84, Erv46
20	ERGIC3	ENSG00000125991	ENST00000489071	processed_transcript	KNOWN	None	15927	None	None	34135013	34136732	1	SDBCAG84, C20orf47	CGI-54, PRO0989, NY-BR-84, Erv46
20	ERGIC3	ENSG00000125991	ENST00000482338	processed_transcript	PUTATIVE	None	15927	None	None	34135238	34144203	1	SDBCAG84, C20orf47	CGI-54, PRO0989, NY-BR-84, Erv46
20	ERGIC3	ENSG00000125991	ENST00000465298	retained_intron	KNOWN	None	15927	None	None	34142628	34144867	1	SDBCAG84, C20orf47	CGI-54, PRO0989, NY-BR-84, Erv46
20	ERGIC3	ENSG00000125991	ENST00000475211	retained_intron	KNOWN	None	15927	None	None	34142687	34144331	1	SDBCAG84, C20orf47	CGI-54, PRO0989, NY-BR-84, Erv46
20	ERGIC3	ENSG00000125991	ENST00000442139	protein_coding	NOVEL	None	15927	472	156	34143814	34145226	1	SDBCAG84, C20orf47	CGI-54, PRO0989, NY-BR-84, Erv46
20	ERGIC3	ENSG00000125991	ENST00000451605	protein_coding	PUTATIVE	None	15927	391	129	34143866	34145404	1	SDBCAG84, C20orf47	CGI-54, PRO0989, NY-BR-84, Erv46
20	ERGIC3	ENSG00000125991	ENST00000488935	processed_transcript	KNOWN	None	15927	None	None	34144350	34145221	1	SDBCAG84, C20orf47	CGI-54, PRO0989, NY-BR-84, Erv46
20	ERGIC3	ENSG00000125991	ENST00000488384	retained_intron	KNOWN	None	15927	None	None	34144381	34145405	1	SDBCAG84, C20orf47	CGI-54, PRO0989, NY-BR-84, Erv46
20	ERGIC3	ENSG00000125991	ENST00000447986	protein_coding	KNOWN	None	15927	1197	398	34129830	34145404	1	SDBCAG84, C20orf47	CGI-54, PRO0989, NY-BR-84, Erv46
20	ERGIC3	ENSG00000125991	ENST00000279052	protein_coding	KNOWN	None	15927	1167	388	34129830	34145404	1	SDBCAG84, C20orf47	CGI-54, PRO0989, NY-BR-84, Erv46
9	None	ENSG00000226355	ENST00000439014	lincRNA	KNOWN	None	None	None	None	132200495	132201397	1	None	None
8	None	ENSG00000254394	ENST00000524359	lincRNA	KNOWN	None	None	None	None	83824339	83874161	1	None	None
1	None	ENSG00000229588	ENST00000425271	lincRNA	KNOWN	None	None	None	None	166304121	166304999	1	None	None
12	None	ENSG00000229899	ENST00000434995	processed_pseudogene	KNOWN	None	None	None	None	40680091	40680464	1	None	None
2	IGKV2-23	ENSG00000253625	ENST00000518729	IG_V_pseudogene	KNOWN	None	5780	None	None	89471506	89472037	-1	None	None
7	PTPN12	ENSG00000127947	ENST00000248594	protein_coding	KNOWN	CCDS5592	9645	2343	780	77166592	77269388	1	None	PTPG1, PTP-PEST
7	PTPN12	ENSG00000127947	ENST00000460731	retained_intron	KNOWN	None	9645	None	None	77166834	77213138	1	None	PTPG1, PTP-PEST
7	PTPN12	ENSG00000127947	ENST00000523952	nonsense_mediated_decay	KNOWN	None	9645	131	42	77166871	77210782	1	None	PTPG1, PTP-PEST
7	PTPN12	ENSG00000127947	ENST00000433369	protein_coding	PUTATIVE	None	9645	135	44	77167346	77221573	1	None	PTPG1, PTP-PEST
7	PTPN12	ENSG00000127947	ENST00000415482	protein_coding	KNOWN	CCDS47619	9645	1986	661	77167352	77268597	1	None	PTPG1, PTP-PEST
7	PTPN12	ENSG00000127947	ENST00000435495	protein_coding	PUTATIVE	CCDS47620	9645	1953	650	77167386	77268937	1	None	PTPG1, PTP-PEST
7	PTPN12	ENSG00000127947	ENST00000418110	protein_coding	PUTATIVE	None	9645	260	85	77175069	77230045	1	None	PTPG1, PTP-PEST
7	PTPN12	ENSG00000127947	ENST00000522115	protein_coding	NOVEL	None	9645	642	213	77200408	77240145	1	None	PTPG1, PTP-PEST
7	PTPN12	ENSG00000127947	ENST00000440186	protein_coding	PUTATIVE	None	9645	53	16	77200470	77214888	1	None	PTPG1, PTP-PEST
7	PTPN12	ENSG00000127947	ENST00000447995	nonsense_mediated_decay	KNOWN	None	9645	342	113	77212872	77240119	1	None	PTPG1, PTP-PEST
7	PTPN12	ENSG00000127947	ENST00000481154	retained_intron	KNOWN	None	9645	None	None	77214466	77221698	1	None	PTPG1, PTP-PEST
7	PTPN12	ENSG00000127947	ENST00000494248	retained_intron	KNOWN	None	9645	None	None	77214863	77230282	1	None	PTPG1, PTP-PEST
7	PTPN12	ENSG00000127947	ENST00000464313	retained_intron	KNOWN	None	9645	None	None	77236245	77240363	1	None	PTPG1, PTP-PEST
7	PTPN12	ENSG00000127947	ENST00000407343	protein_coding	NOVEL	None	9645	704	233	77256473	77268025	1	None	PTPG1, PTP-PEST
7	PTPN12	ENSG00000127947	ENST00000520947	retained_intron	KNOWN	None	9645	None	None	77266082	77268807	1	None	PTPG1, PTP-PEST
7	PTPN12	ENSG00000127947	ENST00000519553	retained_intron	KNOWN	None	9645	None	None	77266289	77268258	1	None	PTPG1, PTP-PEST
12	None	ENSG00000258167	ENST00000552757	antisense	KNOWN	None	None	None	None	40789655	40837649	-1	None	None
17	MEIS3P1	ENSG00000179277	ENST00000495167	processed_pseudogene	KNOWN	None	7002	None	None	15689932	15690889	1	MEIS3, MEIS4	MRG2
2	IGKV3-25	ENSG00000253202	ENST00000523155	IG_V_pseudogene	KNOWN	None	5818	None	None	89491988	89492240	-1	None	None
12	RNU6-713P	ENSG00000207492	ENST00000384761	snRNA	KNOWN	None	47676	None	None	40947963	40948069	-1	None	None
1	RNU6-1248P	ENSG00000212398	ENST00000391096	snRNA	KNOWN	None	48211	None	None	223877753	223877816	1	None	None
1	None	ENSG00000225325	ENST00000448643	lincRNA	KNOWN	None	None	None	None	166356964	166421869	-1	None	None
1	MIR186	ENSG00000207721	ENST00000384988	miRNA	KNOWN	None	31557	None	None	71533314	71533399	-1	MIRN186	hsa-mir-186
11	None	ENSG00000236129	ENST00000441665	lincRNA	KNOWN	None	None	None	None	131056917	131059648	1	None	None
14	None	ENSG00000258154	ENST00000546955	processed_pseudogene	KNOWN	None	None	None	None	105579027	105579201	-1	None	None
9	NEK6	ENSG00000119408	ENST00000373603	protein_coding	KNOWN	CCDS6854	7749	942	313	127019885	127115586	1	None	SID6-1512
9	NEK6	ENSG00000119408	ENST00000373600	protein_coding	KNOWN	CCDS48015	7749	1044	347	127020242	127115586	1	None	SID6-1512
9	NEK6	ENSG00000119408	ENST00000320246	protein_coding	KNOWN	CCDS6854	7749	942	313	127020249	127115586	1	None	SID6-1512
9	NEK6	ENSG00000119408	ENST00000444973	protein_coding	KNOWN	None	7749	659	218	127020539	127101886	1	None	SID6-1512
9	NEK6	ENSG00000119408	ENST00000454453	protein_coding	KNOWN	None	7749	602	199	127020540	127110076	1	None	SID6-1512
9	NEK6	ENSG00000119408	ENST00000373596	protein_coding	KNOWN	None	7749	622	206	127023752	127089724	1	None	SID6-1512
9	NEK6	ENSG00000119408	ENST00000425237	protein_coding	KNOWN	None	7749	666	221	127023752	127101893	1	None	SID6-1512
9	NEK6	ENSG00000119408	ENST00000423785	protein_coding	KNOWN	None	7749	583	193	127048719	127088684	1	None	SID6-1512
9	NEK6	ENSG00000119408	ENST00000422297	protein_coding	KNOWN	None	7749	660	219	127054258	127101887	1	None	SID6-1512
9	NEK6	ENSG00000119408	ENST00000447379	protein_coding	KNOWN	None	7749	514	170	127062264	127088717	1	None	SID6-1512
9	NEK6	ENSG00000119408	ENST00000540326	protein_coding	KNOWN	CCDS55338	7749	996	331	127019885	127114717	1	None	SID6-1512
9	NEK6	ENSG00000119408	ENST00000539416	protein_coding	KNOWN	CCDS55339	7749	1017	338	127054699	127114717	1	None	SID6-1512
9	NEK6	ENSG00000119408	ENST00000394199	protein_coding	KNOWN	CCDS48015	7749	1044	347	127054250	127114717	1	None	SID6-1512
9	NEK6	ENSG00000119408	ENST00000545174	protein_coding	KNOWN	CCDS6854	7749	942	313	127020530	127114717	1	None	SID6-1512
9	NEK6	ENSG00000119408	ENST00000546191	protein_coding	KNOWN	CCDS6854	7749	942	313	127054250	127114717	1	None	SID6-1512
3	RBBP4P2	ENSG00000242457	ENST00000478252	processed_pseudogene	KNOWN	None	42369	None	None	93794756	93796019	-1	None	None
17	None	ENSG00000239246	ENST00000460492	processed_pseudogene	KNOWN	None	None	None	None	60593682	60594128	-1	None	None
17	None	ENSG00000239246	ENST00000601238	processed_pseudogene	KNOWN	None	None	None	None	60593733	60594128	-1	None	None
7	None	ENSG00000244479	ENST00000476560	antisense	KNOWN	None	None	None	None	143948357	144052231	-1	None	None
7	None	ENSG00000244479	ENST00000463561	antisense	KNOWN	None	None	None	None	143948418	144052622	-1	None	None
7	None	ENSG00000244479	ENST00000461843	antisense	KNOWN	None	None	None	None	143948480	144040391	-1	None	None
7	None	ENSG00000244479	ENST00000478806	antisense	KNOWN	None	None	None	None	143948501	144052800	-1	None	None
7	None	ENSG00000244479	ENST00000498397	antisense	KNOWN	None	None	None	None	143948755	143953337	-1	None	None
7	None	ENSG00000244479	ENST00000489488	antisense	KNOWN	None	None	None	None	143949389	144052693	-1	None	None
7	None	ENSG00000244479	ENST00000487102	antisense	KNOWN	None	None	None	None	143951189	144052461	-1	None	None
7	None	ENSG00000244479	ENST00000493539	antisense	KNOWN	None	None	None	None	143997488	144040394	-1	None	None
7	None	ENSG00000244479	ENST00000496968	antisense	KNOWN	None	None	None	None	143997564	144052613	-1	None	None
7	None	ENSG00000244479	ENST00000467944	antisense	KNOWN	None	None	None	None	144004238	144040392	-1	None	None
7	None	ENSG00000244479	ENST00000486094	antisense	KNOWN	None	None	None	None	144004241	144052778	-1	None	None
7	None	ENSG00000244479	ENST00000475089	antisense	KNOWN	None	None	None	None	144008684	144052796	-1	None	None
7	None	ENSG00000244479	ENST00000488041	antisense	KNOWN	None	None	None	None	144008976	144053274	-1	None	None
7	None	ENSG00000244479	ENST00000478925	antisense	KNOWN	None	None	None	None	144015766	144052244	-1	None	None
7	None	ENSG00000244479	ENST00000462305	antisense	KNOWN	None	None	None	None	144033861	144052774	-1	None	None
7	None	ENSG00000244479	ENST00000470435	antisense	KNOWN	None	None	None	None	144040264	144052312	-1	None	None
7	None	ENSG00000244479	ENST00000468575	antisense	KNOWN	None	None	None	None	144040335	144052494	-1	None	None
1	PHBP11	ENSG00000227621	ENST00000420550	processed_pseudogene	KNOWN	None	39290	None	None	224044281	224045089	-1	None	None
14	None	ENSG00000257622	ENST00000548203	processed_transcript	KNOWN	None	None	None	None	105618531	105647531	-1	None	None
2	IGKV2-26	ENSG00000254098	ENST00000518305	IG_V_pseudogene	KNOWN	None	5782	None	None	89495584	89496317	-1	None	None
1	FMO7P	ENSG00000230231	ENST00000436045	unprocessed_pseudogene	KNOWN	None	32208	None	None	166443982	166450802	1	None	None
8	FBXL6	ENSG00000182325	ENST00000524492	retained_intron	KNOWN	None	13603	None	None	145579091	145581633	-1	None	FBL6
8	FBXL6	ENSG00000182325	ENST00000455319	protein_coding	KNOWN	CCDS47942	13603	1602	533	145579091	145582132	-1	None	FBL6
8	FBXL6	ENSG00000182325	ENST00000331890	protein_coding	KNOWN	CCDS6422	13603	1620	539	145579091	145582172	-1	None	FBL6
8	FBXL6	ENSG00000182325	ENST00000530142	retained_intron	KNOWN	None	13603	None	None	145579091	145583036	-1	None	FBL6
8	FBXL6	ENSG00000182325	ENST00000526524	processed_transcript	KNOWN	None	13603	None	None	145579175	145580728	-1	None	FBL6
8	FBXL6	ENSG00000182325	ENST00000527000	processed_transcript	PUTATIVE	None	13603	None	None	145579748	145580530	-1	None	FBL6
8	FBXL6	ENSG00000182325	ENST00000524909	processed_transcript	KNOWN	None	13603	None	None	145579796	145580514	-1	None	FBL6
8	FBXL6	ENSG00000182325	ENST00000529279	retained_intron	KNOWN	None	13603	None	None	145580610	145581586	-1	None	FBL6
8	FBXL6	ENSG00000182325	ENST00000530687	processed_transcript	PUTATIVE	None	13603	None	None	145581090	145581840	-1	None	FBL6
1	None	ENSG00000231437	ENST00000442751	lincRNA	KNOWN	None	None	None	None	112532392	112533745	1	None	None
1	None	ENSG00000231437	ENST00000428461	lincRNA	KNOWN	None	None	None	None	112532918	112533795	1	None	None
1	None	ENSG00000231437	ENST00000438293	lincRNA	KNOWN	None	None	None	None	112533158	112541464	1	None	None
17	None	ENSG00000265519	ENST00000582780	lincRNA	KNOWN	None	None	None	None	15691101	15691519	-1	None	None
17	None	ENSG00000233090	ENST00000435593	unprocessed_pseudogene	KNOWN	None	None	None	None	15696176	15696359	1	None	None
18	FBXO15	ENSG00000141665	ENST00000577575	processed_transcript	PUTATIVE	None	13617	None	None	71740588	71764466	-1	None	MGC39671, FBX15
18	FBXO15	ENSG00000141665	ENST00000583443	nonsense_mediated_decay	KNOWN	None	13617	120	39	71740588	71815066	-1	None	MGC39671, FBX15
18	FBXO15	ENSG00000141665	ENST00000419743	protein_coding	KNOWN	CCDS45884	13617	1533	510	71740601	71815100	-1	None	MGC39671, FBX15
18	FBXO15	ENSG00000141665	ENST00000581214	nonsense_mediated_decay	KNOWN	None	13617	47	14	71740603	71814349	-1	None	MGC39671, FBX15
18	FBXO15	ENSG00000141665	ENST00000584425	retained_intron	KNOWN	None	13617	None	None	71740604	71749335	-1	None	MGC39671, FBX15
18	FBXO15	ENSG00000141665	ENST00000580806	processed_transcript	KNOWN	None	13617	None	None	71740606	71767303	-1	None	MGC39671, FBX15
18	FBXO15	ENSG00000141665	ENST00000580088	protein_coding	PUTATIVE	None	13617	307	101	71740679	71790745	-1	None	MGC39671, FBX15
18	FBXO15	ENSG00000141665	ENST00000578399	nonsense_mediated_decay	KNOWN	None	13617	109	35	71740688	71803101	-1	None	MGC39671, FBX15
18	FBXO15	ENSG00000141665	ENST00000579108	processed_transcript	PUTATIVE	None	13617	None	None	71740739	71745919	-1	None	MGC39671, FBX15
18	FBXO15	ENSG00000141665	ENST00000579517	protein_coding	PUTATIVE	None	13617	370	122	71789827	71796642	-1	None	MGC39671, FBX15
18	FBXO15	ENSG00000141665	ENST00000585174	nonsense_mediated_decay	KNOWN	None	13617	237	78	71796797	71814986	-1	None	MGC39671, FBX15
18	FBXO15	ENSG00000141665	ENST00000582526	protein_coding	NOVEL	None	13617	410	135	71797705	71815078	-1	None	MGC39671, FBX15
18	FBXO15	ENSG00000141665	ENST00000580552	nonsense_mediated_decay	KNOWN	None	13617	168	55	71797797	71815020	-1	None	MGC39671, FBX15
18	FBXO15	ENSG00000141665	ENST00000269500	protein_coding	KNOWN	None	13617	1305	434	71740588	71814999	-1	None	MGC39671, FBX15
12	None	ENSG00000257159	ENST00000550830	processed_pseudogene	KNOWN	None	None	None	None	58360841	58362182	1	None	None
10	ADD3	ENSG00000148700	ENST00000468251	processed_transcript	KNOWN	None	245	None	None	111756126	111878366	1	ADDL	None
10	ADD3	ENSG00000148700	ENST00000360162	protein_coding	KNOWN	CCDS7562	245	2025	674	111765562	111894088	1	ADDL	None
10	ADD3	ENSG00000148700	ENST00000356080	protein_coding	KNOWN	CCDS7561	245	2121	706	111767720	111893969	1	ADDL	None
10	ADD3	ENSG00000148700	ENST00000277900	protein_coding	KNOWN	CCDS7562	245	2025	674	111767722	111895323	1	ADDL	None
10	ADD3	ENSG00000148700	ENST00000487085	processed_transcript	KNOWN	None	245	None	None	111767966	111872657	1	ADDL	None
10	ADD3	ENSG00000148700	ENST00000484622	processed_transcript	KNOWN	None	245	None	None	111767966	111877117	1	ADDL	None
10	ADD3	ENSG00000148700	ENST00000459738	processed_transcript	KNOWN	None	245	None	None	111767967	111860462	1	ADDL	None
10	ADD3	ENSG00000148700	ENST00000495661	processed_transcript	KNOWN	None	245	None	None	111767989	111872652	1	ADDL	None
10	ADD3	ENSG00000148700	ENST00000497125	processed_transcript	KNOWN	None	245	None	None	111767989	111878388	1	ADDL	None
10	ADD3	ENSG00000148700	ENST00000475954	processed_transcript	KNOWN	None	245	None	None	111768010	111877137	1	ADDL	None
10	ADD3	ENSG00000148700	ENST00000496517	processed_transcript	KNOWN	None	245	None	None	111776193	111877160	1	ADDL	None
10	ADD3	ENSG00000148700	ENST00000473669	processed_transcript	KNOWN	None	245	None	None	111836763	111872664	1	ADDL	None
10	ADD3	ENSG00000148700	ENST00000468345	processed_transcript	KNOWN	None	245	None	None	111836763	111877153	1	ADDL	None
10	ADD3	ENSG00000148700	ENST00000486014	processed_transcript	KNOWN	None	245	None	None	111838997	111883901	1	ADDL	None
10	ADD3	ENSG00000148700	ENST00000488104	processed_transcript	KNOWN	None	245	None	None	111879073	111879448	1	ADDL	None
10	ADD3	ENSG00000148700	ENST00000488837	processed_transcript	KNOWN	None	245	None	None	111881613	111883926	1	ADDL	None
10	ADD3	ENSG00000148700	ENST00000472568	processed_transcript	KNOWN	None	245	None	None	111883595	111890147	1	ADDL	None
10	ADD3	ENSG00000148700	ENST00000492162	processed_transcript	KNOWN	None	245	None	None	111883998	111890151	1	ADDL	None
10	ADD3	ENSG00000148700	ENST00000488799	processed_transcript	KNOWN	None	245	None	None	111885513	111893106	1	ADDL	None
10	ADD3	ENSG00000148700	ENST00000479805	processed_transcript	KNOWN	None	245	None	None	111885660	111892485	1	ADDL	None
12	RN7SKP65	ENSG00000222210	ENST00000410278	misc_RNA	KNOWN	None	45789	None	None	58371748	58372060	-1	None	None
HSCHR1_2_CTG31	SCAMP3	ENSG00000263290	ENST00000572538	processed_transcript	KNOWN	None	10565	None	None	155241174	155244110	-1	C1orf3	None
HSCHR1_2_CTG31	SCAMP3	ENSG00000263290	ENST00000570831	protein_coding	KNOWN	None	10565	1044	347	155241174	155247454	-1	C1orf3	None
HSCHR1_2_CTG31	SCAMP3	ENSG00000263290	ENST00000573013	protein_coding	KNOWN	None	10565	966	321	155241176	155247625	-1	C1orf3	None
HSCHR1_2_CTG31	SCAMP3	ENSG00000263290	ENST00000572736	processed_transcript	KNOWN	None	10565	None	None	155241202	155245645	-1	C1orf3	None
HSCHR1_2_CTG31	SCAMP3	ENSG00000263290	ENST00000574126	processed_transcript	KNOWN	None	10565	None	None	155241436	155245847	-1	C1orf3	None
HSCHR1_2_CTG31	SCAMP3	ENSG00000263290	ENST00000576213	processed_transcript	KNOWN	None	10565	None	None	155242480	155247422	-1	C1orf3	None
HSCHR1_2_CTG31	SCAMP3	ENSG00000263290	ENST00000571844	processed_transcript	KNOWN	None	10565	None	None	155242481	155247063	-1	C1orf3	None
HSCHR1_2_CTG31	SCAMP3	ENSG00000263290	ENST00000573279	processed_transcript	KNOWN	None	10565	None	None	155244021	155247534	-1	C1orf3	None
HSCHR1_2_CTG31	SCAMP3	ENSG00000263290	ENST00000570960	processed_transcript	KNOWN	None	10565	None	None	155246422	155247524	-1	C1orf3	None
2	IGKV2-29	ENSG00000253998	ENST00000521304	IG_V_pseudogene	KNOWN	None	5784	None	None	89533655	89534393	-1	None	None
2	IGKV2-29	ENSG00000253998	ENST00000558710	IG_V_pseudogene	KNOWN	None	5784	None	None	89533687	89533965	-1	None	None
17	None	ENSG00000237057	ENST00000418821	lincRNA	KNOWN	None	None	None	None	15709555	15721056	-1	None	None
8	None	ENSG00000253581	ENST00000518550	processed_pseudogene	KNOWN	None	None	None	None	83891646	83892121	1	None	None
1	ACTBP11	ENSG00000188460	ENST00000436287	processed_pseudogene	KNOWN	None	33971	None	None	224051428	224052553	-1	None	None
5	None	ENSG00000249476	ENST00000512693	lincRNA	KNOWN	None	None	None	None	108572821	108662070	-1	None	None
11	None	ENSG00000227125	ENST00000447864	lincRNA	KNOWN	None	None	None	None	131074894	131085058	1	None	None
2	MIR1302-3	ENSG00000221055	ENST00000408128	miRNA	KNOWN	None	35295	None	None	114340536	114340673	-1	MIRN1302-3	hsa-mir-1302-3
17	None	ENSG00000266076	ENST00000577662	nonsense_mediated_decay	KNOWN	None	None	139	45	63534220	63637151	-1	None	None
HSCHR6_MHC_MANN	C6orf136	ENSG00000233164	ENST00000460279	processed_transcript	KNOWN	None	21301	None	None	30659491	30663732	1	None	Em:AB023049.8
HSCHR6_MHC_MANN	C6orf136	ENSG00000233164	ENST00000496234	processed_transcript	KNOWN	None	21301	None	None	30659507	30665556	1	None	Em:AB023049.8
HSCHR6_MHC_MANN	C6orf136	ENSG00000233164	ENST00000447505	protein_coding	KNOWN	None	21301	948	315	30659525	30665556	1	None	Em:AB023049.8
HSCHR6_MHC_MANN	C6orf136	ENSG00000233164	ENST00000482135	processed_transcript	KNOWN	None	21301	None	None	30659578	30665160	1	None	Em:AB023049.8
HSCHR6_MHC_MANN	C6orf136	ENSG00000233164	ENST00000415931	protein_coding	KNOWN	None	21301	546	181	30659616	30665556	1	None	Em:AB023049.8
HSCHR6_MHC_MANN	C6orf136	ENSG00000233164	ENST00000495361	processed_transcript	KNOWN	None	21301	None	None	30659638	30662360	1	None	Em:AB023049.8
HSCHR6_MHC_MANN	C6orf136	ENSG00000233164	ENST00000449122	protein_coding	KNOWN	None	21301	1302	433	30659873	30665556	1	None	Em:AB023049.8
HSCHR6_MHC_MANN	C6orf136	ENSG00000233164	ENST00000466931	retained_intron	KNOWN	None	21301	None	None	30663501	30665556	1	None	Em:AB023049.8
HSCHR6_MHC_MANN	C6orf136	ENSG00000233164	ENST00000549861	protein_coding	KNOWN	None	21301	1491	496	30659491	30665656	1	None	Em:AB023049.8
15	None	ENSG00000260503	ENST00000563709	3prime_overlapping_ncrna	KNOWN	None	None	None	None	72109801	72110589	1	None	None
2	EIF2AK3	ENSG00000172071	ENST00000419748	protein_coding	PUTATIVE	None	3255	2898	965	88856259	88924447	-1	None	PEK, PERK
2	EIF2AK3	ENSG00000172071	ENST00000303236	protein_coding	KNOWN	CCDS33241	3255	3351	1116	88856261	88927094	-1	None	PEK, PERK
2	EIF2AK3	ENSG00000172071	ENST00000415570	protein_coding	PUTATIVE	None	3255	2870	955	88857372	88895375	-1	None	PEK, PERK
2	EIF2AK3	ENSG00000172071	ENST00000470706	processed_transcript	KNOWN	None	3255	None	None	88870438	88874926	-1	None	PEK, PERK
2	EIF2AK3	ENSG00000172071	ENST00000478003	retained_intron	KNOWN	None	3255	None	None	88874901	88879487	-1	None	PEK, PERK
2	EIF2AK3	ENSG00000172071	ENST00000477083	processed_transcript	KNOWN	None	3255	None	None	88890337	88893596	-1	None	PEK, PERK
2	None	ENSG00000211987	ENST00000390698	miRNA	NOVEL	None	None	None	None	225104179	225104273	-1	None	None
2	IGKV3-31	ENSG00000253158	ENST00000523109	IG_V_pseudogene	KNOWN	None	5819	None	None	89551697	89552222	-1	None	None
8	None	ENSG00000254189	ENST00000519275	processed_pseudogene	KNOWN	None	None	None	None	84012211	84013081	-1	None	None
1	CICP5	ENSG00000233771	ENST00000424045	unprocessed_pseudogene	KNOWN	None	37754	None	None	224135307	224138118	1	None	None
16	TMEM219	ENSG00000149932	ENST00000414689	protein_coding	KNOWN	CCDS42145	25201	723	240	29952206	29984371	1	None	None
16	TMEM219	ENSG00000149932	ENST00000602948	protein_coding	KNOWN	None	25201	448	148	29973351	29979438	1	None	None
16	TMEM219	ENSG00000149932	ENST00000575829	protein_coding	NOVEL	None	25201	641	212	29973408	29982787	1	None	None
16	TMEM219	ENSG00000149932	ENST00000561899	protein_coding	KNOWN	CCDS42145	25201	723	240	29973425	29983326	1	None	None
16	TMEM219	ENSG00000149932	ENST00000566848	protein_coding	KNOWN	CCDS42145	25201	723	240	29973998	29984339	1	None	None
16	TMEM219	ENSG00000149932	ENST00000570255	nonsense_mediated_decay	KNOWN	None	25201	695	230	29974493	29984369	1	None	None
16	TMEM219	ENSG00000149932	ENST00000569445	protein_coding	PUTATIVE	None	25201	510	169	29974721	29979915	1	None	None
16	TMEM219	ENSG00000149932	ENST00000569481	protein_coding	NOVEL	None	25201	299	98	29974737	29984368	1	None	None
16	TMEM219	ENSG00000149932	ENST00000279396	protein_coding	KNOWN	CCDS42145	25201	723	240	29973351	29984373	1	None	None
1	ZRANB2-AS2	ENSG00000229956	ENST00000455406	antisense	KNOWN	None	43595	None	None	71547007	71703406	1	None	None
1	ZRANB2-AS2	ENSG00000229956	ENST00000583678	lincRNA	KNOWN	None	43595	None	None	71547007	71929184	1	None	None
1	ZRANB2-AS2	ENSG00000229956	ENST00000599146	lincRNA	KNOWN	None	43595	None	None	71547033	71873367	1	None	None
1	ZRANB2-AS2	ENSG00000229956	ENST00000596952	antisense	KNOWN	None	43595	None	None	71547036	71668105	1	None	None
1	ZRANB2-AS2	ENSG00000229956	ENST00000413421	lincRNA	KNOWN	None	43595	None	None	71547044	71733913	1	None	None
1	ZRANB2-AS2	ENSG00000229956	ENST00000594152	lincRNA	KNOWN	None	43595	None	None	71547050	71873367	1	None	None
1	ZRANB2-AS2	ENSG00000229956	ENST00000415780	antisense	KNOWN	None	43595	None	None	71558813	71702881	1	None	None
1	ZRANB2-AS2	ENSG00000229956	ENST00000600103	lincRNA	KNOWN	None	43595	None	None	71667771	71873362	1	None	None
1	ZRANB2-AS2	ENSG00000229956	ENST00000430605	antisense	KNOWN	None	43595	None	None	71867530	71873407	1	None	None
1	ZRANB2-AS2	ENSG00000229956	ENST00000586006	antisense	KNOWN	None	43595	None	None	71873316	71888658	1	None	None
1	ZRANB2-AS2	ENSG00000229956	ENST00000587306	antisense	KNOWN	None	43595	None	None	71873316	71934193	1	None	None
1	ZRANB2-AS2	ENSG00000229956	ENST00000587066	antisense	KNOWN	None	43595	None	None	71873323	71929063	1	None	None
1	ZRANB2-AS2	ENSG00000229956	ENST00000585499	antisense	KNOWN	None	43595	None	None	71873327	71888658	1	None	None
1	ZRANB2-AS2	ENSG00000229956	ENST00000585415	antisense	KNOWN	None	43595	None	None	71873327	71955652	1	None	None
1	ZRANB2-AS2	ENSG00000229956	ENST00000590186	antisense	KNOWN	None	43595	None	None	71874622	71952130	1	None	None
1	ZRANB2-AS2	ENSG00000229956	ENST00000591654	antisense	KNOWN	None	43595	None	None	71929092	71955586	1	None	None
2	None	ENSG00000228681	ENST00000434254	processed_pseudogene	KNOWN	None	None	None	None	225159647	225160470	1	None	None
3	None	ENSG00000221337	ENST00000408410	miRNA	NOVEL	None	None	None	None	41690747	41690828	1	None	None
15	None	ENSG00000257797	ENST00000552704	antisense	KNOWN	None	None	None	None	42298330	42302315	1	None	None
14	RPS20P33	ENSG00000242085	ENST00000476081	processed_pseudogene	KNOWN	None	36725	None	None	105840955	105841308	1	None	None
2	IGKV1-32	ENSG00000253870	ENST00000519290	IG_V_pseudogene	KNOWN	None	5736	None	None	89553057	89553501	-1	None	None
1	RNU6-1319P	ENSG00000212157	ENST00000390855	snRNA	KNOWN	None	48282	None	None	224163848	224163951	-1	None	None
12	None	ENSG00000257668	ENST00000551532	processed_pseudogene	KNOWN	None	None	None	None	58377578	58378544	-1	None	None
17	None	ENSG00000227790	ENST00000421102	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	15732683	15767467	1	None	None
17	None	ENSG00000227790	ENST00000584636	processed_transcript	KNOWN	None	None	None	None	15732798	15762132	1	None	None
3	None	ENSG00000252409	ENST00000516600	snoRNA	NOVEL	None	None	None	None	41729360	41729525	-1	None	None
12	None	ENSG00000257680	ENST00000548175	processed_pseudogene	KNOWN	None	None	None	None	41122613	41123699	1	None	None
12	None	ENSG00000257541	ENST00000548215	processed_transcript	KNOWN	None	None	None	None	58481675	58487145	1	None	None
17	None	ENSG00000264546	ENST00000583426	sense_intronic	KNOWN	None	None	None	None	60627087	60629482	1	None	None
1	None	ENSG00000231246	ENST00000427290	lincRNA	KNOWN	None	None	None	None	112719856	112903150	-1	None	None
1	None	ENSG00000232372	ENST00000431663	unprocessed_pseudogene	KNOWN	None	None	None	None	224170456	224175856	-1	None	None
X	None	ENSG00000239037	ENST00000459572	snoRNA	NOVEL	None	None	None	None	152616931	152617034	1	None	None
8	NCALD	ENSG00000104490	ENST00000220931	protein_coding	PUTATIVE	CCDS6292	7655	582	193	102698955	102803189	-1	None	None
8	NCALD	ENSG00000104490	ENST00000521599	protein_coding	KNOWN	CCDS6292	7655	582	193	102700123	103136548	-1	None	None
8	NCALD	ENSG00000104490	ENST00000519508	protein_coding	NOVEL	CCDS6292	7655	582	193	102700333	102731876	-1	None	None
8	NCALD	ENSG00000104490	ENST00000522951	protein_coding	PUTATIVE	None	7655	585	194	102700692	102803205	-1	None	None
8	NCALD	ENSG00000104490	ENST00000522754	retained_intron	KNOWN	None	7655	None	None	102700706	102706617	-1	None	None
8	NCALD	ENSG00000104490	ENST00000522448	protein_coding	PUTATIVE	None	7655	456	151	102700871	102803197	-1	None	None
8	NCALD	ENSG00000104490	ENST00000520690	protein_coding	PUTATIVE	None	7655	409	135	102705094	102987557	-1	None	None
8	NCALD	ENSG00000104490	ENST00000518727	protein_coding	PUTATIVE	None	7655	365	120	102731493	102998720	-1	None	None
8	NCALD	ENSG00000104490	ENST00000520425	protein_coding	PUTATIVE	None	7655	360	119	102731498	102998834	-1	None	None
8	NCALD	ENSG00000104490	ENST00000518166	protein_coding	PUTATIVE	None	7655	350	115	102731508	103136562	-1	None	None
8	NCALD	ENSG00000104490	ENST00000522252	protein_coding	PUTATIVE	None	7655	337	111	102731521	102803205	-1	None	None
8	NCALD	ENSG00000104490	ENST00000517822	protein_coding	PUTATIVE	None	7655	335	110	102731523	103136491	-1	None	None
8	NCALD	ENSG00000104490	ENST00000524209	protein_coding	PUTATIVE	None	7655	316	104	102731542	103136489	-1	None	None
8	NCALD	ENSG00000104490	ENST00000517531	protein_coding	PUTATIVE	None	7655	315	104	102731543	103136178	-1	None	None
8	NCALD	ENSG00000104490	ENST00000521964	protein_coding	PUTATIVE	None	7655	261	86	102731597	103136559	-1	None	None
8	NCALD	ENSG00000104490	ENST00000519098	protein_coding	PUTATIVE	None	7655	257	84	102731601	102803205	-1	None	None
8	NCALD	ENSG00000104490	ENST00000523923	protein_coding	PUTATIVE	None	7655	244	80	102731614	103136492	-1	None	None
8	NCALD	ENSG00000104490	ENST00000520346	protein_coding	PUTATIVE	None	7655	233	76	102731625	102803186	-1	None	None
8	NCALD	ENSG00000104490	ENST00000518661	protein_coding	PUTATIVE	None	7655	222	73	102731636	103032634	-1	None	None
8	NCALD	ENSG00000104490	ENST00000522206	protein_coding	PUTATIVE	None	7655	157	51	102731701	103137042	-1	None	None
8	NCALD	ENSG00000104490	ENST00000524137	protein_coding	PUTATIVE	None	7655	47	14	102731811	102801226	-1	None	None
8	NCALD	ENSG00000104490	ENST00000522078	protein_coding	PUTATIVE	None	7655	43	13	102731815	103137085	-1	None	None
8	NCALD	ENSG00000104490	ENST00000523645	protein_coding	PUTATIVE	None	7655	9	2	102731849	102803175	-1	None	None
8	NCALD	ENSG00000104490	ENST00000518952	processed_transcript	KNOWN	None	7655	None	None	102758053	103136489	-1	None	None
8	NCALD	ENSG00000104490	ENST00000521957	processed_transcript	KNOWN	None	7655	None	None	102792150	102803205	-1	None	None
8	NCALD	ENSG00000104490	ENST00000521371	processed_transcript	KNOWN	None	7655	None	None	102798084	102803197	-1	None	None
8	NCALD	ENSG00000104490	ENST00000524101	processed_transcript	PUTATIVE	None	7655	None	None	102800862	102803162	-1	None	None
8	NCALD	ENSG00000104490	ENST00000517639	retained_intron	KNOWN	None	7655	None	None	102927740	103136489	-1	None	None
8	NCALD	ENSG00000104490	ENST00000395923	protein_coding	KNOWN	CCDS6292	7655	582	193	102698771	103137135	-1	None	None
8	NCALD	ENSG00000104490	ENST00000311028	protein_coding	KNOWN	CCDS6292	7655	582	193	102698771	103136562	-1	None	None
12	None	ENSG00000257228	ENST00000547168	antisense	KNOWN	None	None	None	None	41803269	41867312	-1	None	None
12	None	ENSG00000257228	ENST00000548450	antisense	KNOWN	None	None	None	None	41805327	41806279	-1	None	None
17	None	ENSG00000207382	ENST00000384652	misc_RNA	NOVEL	None	None	None	None	60738982	60739086	-1	None	None
2	IGKV3-34	ENSG00000253860	ENST00000521692	IG_V_pseudogene	KNOWN	None	5820	None	None	89575056	89575545	-1	None	None
1	None	ENSG00000239111	ENST00000459606	snoRNA	NOVEL	None	None	None	None	112738124	112738228	1	None	None
3	RN7SKP58	ENSG00000222942	ENST00000411010	misc_RNA	KNOWN	None	45782	None	None	41808107	41808411	-1	None	None
14	KRT18P7	ENSG00000258951	ENST00000557241	processed_pseudogene	KNOWN	None	20283	None	None	71061269	71062487	1	None	None
12	None	ENSG00000144785	ENST00000549318	protein_coding	PUTATIVE	None	None	789	262	56679700	56709727	-1	None	None
12	None	ENSG00000144785	ENST00000547423	protein_coding	PUTATIVE	None	None	317	104	56679746	56709828	-1	None	None
12	None	ENSG00000144785	ENST00000548360	protein_coding	PUTATIVE	None	None	248	81	56693961	56709843	-1	None	None
15	SV2B	ENSG00000185518	ENST00000545111	protein_coding	PUTATIVE	CCDS53972	16874	1599	532	91643180	91835866	1	None	KIAA0735, HsT19680
15	SV2B	ENSG00000185518	ENST00000394232	protein_coding	KNOWN	CCDS10370	16874	2052	683	91643515	91844539	1	None	KIAA0735, HsT19680
15	SV2B	ENSG00000185518	ENST00000557410	nonsense_mediated_decay	KNOWN	CCDS10370	16874	2052	683	91643545	91838515	1	None	KIAA0735, HsT19680
15	SV2B	ENSG00000185518	ENST00000557291	processed_transcript	KNOWN	None	16874	None	None	91645058	91795156	1	None	KIAA0735, HsT19680
15	SV2B	ENSG00000185518	ENST00000553727	retained_intron	KNOWN	None	16874	None	None	91801707	91810178	1	None	KIAA0735, HsT19680
15	SV2B	ENSG00000185518	ENST00000330276	protein_coding	KNOWN	CCDS10370	16874	2052	683	91769100	91844538	1	None	KIAA0735, HsT19680
8	None	ENSG00000271560	ENST00000604350	processed_pseudogene	KNOWN	None	None	None	None	102349724	102349877	1	None	None
17	RNU6-446P	ENSG00000199697	ENST00000362827	snRNA	KNOWN	None	47409	None	None	60761266	60761371	1	None	None
3	None	ENSG00000246082	ENST00000499077	processed_transcript	KNOWN	None	None	None	None	131080742	131083966	1	None	None
3	None	ENSG00000246082	ENST00000498923	retained_intron	KNOWN	None	None	None	None	131080756	131083375	1	None	None
3	None	ENSG00000246082	ENST00000513809	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	131080774	131082408	1	None	None
3	EHHADH-AS1	ENSG00000223358	ENST00000444571	antisense	KNOWN	None	44133	None	None	184880659	184898371	1	None	None
3	EHHADH-AS1	ENSG00000223358	ENST00000417720	antisense	KNOWN	None	44133	None	None	184880689	184909743	1	None	None
12	RIC8B	ENSG00000111785	ENST00000392837	protein_coding	KNOWN	None	25555	1683	560	107168373	107283090	1	None	FLJ10620, hSyn, RIC8
12	RIC8B	ENSG00000111785	ENST00000550215	nonsense_mediated_decay	KNOWN	None	25555	126	41	107168399	107208648	1	None	FLJ10620, hSyn, RIC8
12	RIC8B	ENSG00000111785	ENST00000392839	protein_coding	KNOWN	CCDS9109	25555	1563	520	107168418	107280564	1	None	FLJ10620, hSyn, RIC8
12	RIC8B	ENSG00000111785	ENST00000548914	protein_coding	NOVEL	None	25555	829	275	107168441	107254094	1	None	FLJ10620, hSyn, RIC8
12	RIC8B	ENSG00000111785	ENST00000355478	protein_coding	KNOWN	None	25555	1491	496	107168449	107281062	1	None	FLJ10620, hSyn, RIC8
12	RIC8B	ENSG00000111785	ENST00000552619	protein_coding	NOVEL	None	25555	355	117	107168460	107208744	1	None	FLJ10620, hSyn, RIC8
12	RIC8B	ENSG00000111785	ENST00000549643	protein_coding	PUTATIVE	None	25555	93	30	107168460	107279959	1	None	FLJ10620, hSyn, RIC8
12	RIC8B	ENSG00000111785	ENST00000462949	nonsense_mediated_decay	KNOWN	None	25555	1611	536	107168492	107281068	1	None	FLJ10620, hSyn, RIC8
12	RIC8B	ENSG00000111785	ENST00000470628	retained_intron	KNOWN	None	25555	None	None	107168524	107265283	1	None	FLJ10620, hSyn, RIC8
12	RIC8B	ENSG00000111785	ENST00000470960	nonsense_mediated_decay	KNOWN	None	25555	777	258	107216036	107281060	1	None	FLJ10620, hSyn, RIC8
12	RIC8B	ENSG00000111785	ENST00000546449	nonsense_mediated_decay	KNOWN	None	25555	139	45	107264601	107280138	1	None	FLJ10620, hSyn, RIC8
12	RIC8B	ENSG00000111785	ENST00000551756	retained_intron	KNOWN	None	25555	None	None	107273506	107280028	1	None	FLJ10620, hSyn, RIC8
1	None	ENSG00000234388	ENST00000454560	processed_pseudogene	KNOWN	None	None	None	None	112905903	112906203	1	None	None
3	ATP6V0E1P2	ENSG00000223513	ENST00000441771	processed_pseudogene	KNOWN	None	41936	None	None	41900842	41901086	-1	None	None
X	None	ENSG00000243768	ENST00000438239	processed_transcript	KNOWN	None	None	None	None	152617487	152625568	1	None	None
8	NACAP1	ENSG00000228224	ENST00000419462	processed_transcript	KNOWN	None	24688	None	None	102374022	102384935	1	None	FKSG17
8	NACAP1	ENSG00000228224	ENST00000519039	transcribed_processed_pseudogene	KNOWN	None	24688	None	None	102381138	102381778	1	None	FKSG17
12	None	ENSG00000257863	ENST00000551075	lincRNA	KNOWN	None	None	None	None	92295234	92299963	1	None	None
17	None	ENSG00000265702	ENST00000584597	antisense	KNOWN	None	None	None	None	60776605	60813468	1	None	None
17	None	ENSG00000265702	ENST00000582564	antisense	KNOWN	None	None	None	None	60783567	60815283	1	None	None
17	None	ENSG00000265702	ENST00000577270	antisense	KNOWN	None	None	None	None	60783595	60815276	1	None	None
17	None	ENSG00000265702	ENST00000579201	antisense	KNOWN	None	None	None	None	60783694	60813895	1	None	None
2	IGKV1-35	ENSG00000253461	ENST00000517744	IG_V_pseudogene	KNOWN	None	5738	None	None	89586446	89586730	-1	None	None
1	None	ENSG00000243000	ENST00000327086	unprocessed_pseudogene	KNOWN	None	None	None	None	224183597	224191356	1	None	None
17	RPLP1P11	ENSG00000243686	ENST00000453002	processed_pseudogene	KNOWN	None	36196	None	None	15947935	15948275	1	None	None
15	MIR627	ENSG00000207712	ENST00000384979	miRNA	KNOWN	None	32883	None	None	42491768	42491864	-1	MIRN627	hsa-mir-627
1	None	ENSG00000234142	ENST00000426519	lincRNA	KNOWN	None	None	None	None	166445009	166459276	-1	None	None
2	WASH2P	ENSG00000146556	ENST00000453662	transcribed_unprocessed_pseudogene	KNOWN	None	33145	None	None	114346127	114356611	1	FAM39B	MGC52000
2	WASH2P	ENSG00000146556	ENST00000538033	retained_intron	KNOWN	None	33145	None	None	114351753	114356620	1	FAM39B	MGC52000
2	WASH2P	ENSG00000146556	ENST00000326632	unprocessed_pseudogene	KNOWN	None	33145	None	None	114341664	114356655	1	FAM39B	MGC52000
6	PLA2G7	ENSG00000146070	ENST00000274793	protein_coding	KNOWN	CCDS4917	9040	1326	441	46671938	46703079	-1	None	PAFAH, LDL-PLA2
6	PLA2G7	ENSG00000146070	ENST00000537365	protein_coding	KNOWN	CCDS4917	9040	1326	441	46672054	46703430	-1	None	PAFAH, LDL-PLA2
6	PLA2G7	ENSG00000146070	ENST00000538237	protein_coding	KNOWN	None	9040	660	219	46677401	46703076	-1	None	PAFAH, LDL-PLA2
6	PLA2G7	ENSG00000146070	ENST00000541026	protein_coding	KNOWN	None	9040	414	137	46677694	46703137	-1	None	PAFAH, LDL-PLA2
11	None	ENSG00000255197	ENST00000527426	antisense	KNOWN	None	None	None	None	47404699	47417191	-1	None	None
11	None	ENSG00000255197	ENST00000532943	antisense	KNOWN	None	None	None	None	47404800	47430643	-1	None	None
11	None	ENSG00000255197	ENST00000532340	antisense	KNOWN	None	None	None	None	47405095	47430741	-1	None	None
14	None	ENSG00000245466	ENST00000500016	lincRNA	KNOWN	None	None	None	None	71075515	71108015	-1	None	None
16	TAF1C	ENSG00000103168	ENST00000341690	protein_coding	KNOWN	CCDS45535	11534	2328	775	84211458	84220655	-1	None	TAFI110, TAFI95, SL1, MGC:39976
16	TAF1C	ENSG00000103168	ENST00000564774	retained_intron	KNOWN	None	11534	None	None	84211460	84220626	-1	None	TAFI110, TAFI95, SL1, MGC:39976
16	TAF1C	ENSG00000103168	ENST00000564208	retained_intron	KNOWN	None	11534	None	None	84211460	84220658	-1	None	TAFI110, TAFI95, SL1, MGC:39976
16	TAF1C	ENSG00000103168	ENST00000567759	protein_coding	KNOWN	CCDS32496	11534	2610	869	84211461	84220617	-1	None	TAFI110, TAFI95, SL1, MGC:39976
16	TAF1C	ENSG00000103168	ENST00000566903	nonsense_mediated_decay	KNOWN	None	11534	630	209	84211483	84220587	-1	None	TAFI110, TAFI95, SL1, MGC:39976
16	TAF1C	ENSG00000103168	ENST00000566732	protein_coding	KNOWN	CCDS58489	11534	2532	843	84212318	84220645	-1	None	TAFI110, TAFI95, SL1, MGC:39976
16	TAF1C	ENSG00000103168	ENST00000544090	retained_intron	KNOWN	None	11534	None	None	84212355	84220645	-1	None	TAFI110, TAFI95, SL1, MGC:39976
16	TAF1C	ENSG00000103168	ENST00000563428	nonsense_mediated_decay	KNOWN	None	11534	177	58	84212387	84220639	-1	None	TAFI110, TAFI95, SL1, MGC:39976
16	TAF1C	ENSG00000103168	ENST00000570117	protein_coding	KNOWN	CCDS58488	11534	1614	537	84212454	84220663	-1	None	TAFI110, TAFI95, SL1, MGC:39976
16	TAF1C	ENSG00000103168	ENST00000568265	protein_coding	NOVEL	None	11534	1140	379	84212728	84215024	-1	None	TAFI110, TAFI95, SL1, MGC:39976
16	TAF1C	ENSG00000103168	ENST00000562445	retained_intron	KNOWN	None	11534	None	None	84214896	84215364	-1	None	TAFI110, TAFI95, SL1, MGC:39976
16	TAF1C	ENSG00000103168	ENST00000570270	retained_intron	KNOWN	None	11534	None	None	84214976	84215782	-1	None	TAFI110, TAFI95, SL1, MGC:39976
16	TAF1C	ENSG00000103168	ENST00000537450	retained_intron	KNOWN	None	11534	None	None	84215102	84220595	-1	None	TAFI110, TAFI95, SL1, MGC:39976
16	TAF1C	ENSG00000103168	ENST00000562330	retained_intron	KNOWN	None	11534	None	None	84215638	84218658	-1	None	TAFI110, TAFI95, SL1, MGC:39976
16	TAF1C	ENSG00000103168	ENST00000565279	retained_intron	KNOWN	None	11534	None	None	84215753	84220644	-1	None	TAFI110, TAFI95, SL1, MGC:39976
16	TAF1C	ENSG00000103168	ENST00000561955	protein_coding	PUTATIVE	None	11534	281	92	84215873	84220645	-1	None	TAFI110, TAFI95, SL1, MGC:39976
16	TAF1C	ENSG00000103168	ENST00000569505	nonsense_mediated_decay	KNOWN	None	11534	213	70	84215942	84220626	-1	None	TAFI110, TAFI95, SL1, MGC:39976
16	TAF1C	ENSG00000103168	ENST00000564345	protein_coding	KNOWN	None	11534	438	145	84216726	84220669	-1	None	TAFI110, TAFI95, SL1, MGC:39976
16	TAF1C	ENSG00000103168	ENST00000569609	nonsense_mediated_decay	KNOWN	None	11534	159	52	84216744	84220651	-1	None	TAFI110, TAFI95, SL1, MGC:39976
16	TAF1C	ENSG00000103168	ENST00000564454	protein_coding	NOVEL	None	11534	409	135	84216873	84220651	-1	None	TAFI110, TAFI95, SL1, MGC:39976
16	TAF1C	ENSG00000103168	ENST00000566183	retained_intron	KNOWN	None	11534	None	None	84216879	84217357	-1	None	TAFI110, TAFI95, SL1, MGC:39976
16	TAF1C	ENSG00000103168	ENST00000565544	processed_transcript	KNOWN	None	11534	None	None	84218764	84220658	-1	None	TAFI110, TAFI95, SL1, MGC:39976
16	TAF1C	ENSG00000103168	ENST00000378541	protein_coding	KNOWN	CCDS32496	11534	2610	869	84211464	84218594	-1	None	TAFI110, TAFI95, SL1, MGC:39976
16	TAF1C	ENSG00000103168	ENST00000541676	protein_coding	KNOWN	None	11534	2331	776	84211464	84220662	-1	None	TAFI110, TAFI95, SL1, MGC:39976
3	RNU7-108P	ENSG00000253062	ENST00000517253	snRNA	KNOWN	None	45642	None	None	93817351	93817410	-1	None	None
12	MUC19	ENSG00000205592	ENST00000425730	protein_coding	PUTATIVE	None	14362	4232	1409	40787197	40868979	1	None	FLJ35746
12	MUC19	ENSG00000205592	ENST00000454784	processed_transcript	KNOWN	None	14362	None	None	40787197	40964562	1	None	FLJ35746
12	MUC19	ENSG00000205592	ENST00000471230	processed_transcript	KNOWN	None	14362	None	None	40811979	40820303	1	None	FLJ35746
12	MUC19	ENSG00000205592	ENST00000543564	retained_intron	KNOWN	None	14362	None	None	40819962	40821873	1	None	FLJ35746
12	MUC19	ENSG00000205592	ENST00000398702	processed_transcript	KNOWN	None	14362	None	None	40914381	40917444	1	None	FLJ35746
12	MUC19	ENSG00000205592	ENST00000474954	processed_transcript	KNOWN	None	14362	None	None	40916287	40928605	1	None	FLJ35746
12	MUC19	ENSG00000205592	ENST00000424466	protein_coding	NOVEL	None	14362	1057	351	40921857	40935425	1	None	FLJ35746
12	MUC19	ENSG00000205592	ENST00000423284	retained_intron	KNOWN	None	14362	None	None	40926786	40931204	1	None	FLJ35746
12	MUC19	ENSG00000205592	ENST00000460785	processed_transcript	KNOWN	None	14362	None	None	40936362	40964560	1	None	FLJ35746
12	MUC19	ENSG00000205592	ENST00000380816	protein_coding	NOVEL	None	14362	2107	701	40936362	40964562	1	None	FLJ35746
12	MUC19	ENSG00000205592	ENST00000541039	retained_intron	KNOWN	None	14362	None	None	40938350	40942428	1	None	FLJ35746
12	MUC19	ENSG00000205592	ENST00000492952	processed_transcript	KNOWN	None	14362	None	None	40938733	40941806	1	None	FLJ35746
12	MUC19	ENSG00000205592	ENST00000542482	protein_coding	NOVEL	None	14362	347	114	40944489	40954381	1	None	FLJ35746
12	MUC19	ENSG00000205592	ENST00000484665	processed_transcript	KNOWN	None	14362	None	None	40951645	40957470	1	None	FLJ35746
12	MUC19	ENSG00000205592	ENST00000427572	processed_transcript	KNOWN	None	14362	None	None	40961528	40964555	1	None	FLJ35746
12	MUC19	ENSG00000205592	ENST00000546043	retained_intron	KNOWN	None	14362	None	None	40963427	40964632	1	None	FLJ35746
10	SLC39A12-AS1	ENSG00000226083	ENST00000439319	antisense	KNOWN	None	44881	None	None	18290715	18299491	-1	None	None
10	SLC39A12-AS1	ENSG00000226083	ENST00000445287	antisense	KNOWN	None	44881	None	None	18292033	18296199	-1	None	None
3	ARMC10P1	ENSG00000178660	ENST00000313754	processed_pseudogene	KNOWN	None	43646	None	None	94225610	94226464	-1	None	None
3	ARMC10P1	ENSG00000178660	ENST00000537117	pseudogene	KNOWN	None	43646	None	None	94225610	94226464	-1	None	None
11	TRIM53AP	ENSG00000225581	ENST00000532014	unprocessed_pseudogene	KNOWN	None	19025	None	None	89726704	89732909	-1	TRIM53, TRIM53P	None
1	TAS1R2	ENSG00000179002	ENST00000375371	protein_coding	NOVEL	CCDS187	14905	2520	839	19166093	19186176	-1	GPR71	T1R2, TR2
2	IGKV2-36	ENSG00000253487	ENST00000519999	IG_V_pseudogene	KNOWN	None	5786	None	None	89594990	89595212	-1	None	None
15	MIR184	ENSG00000207695	ENST00000384962	miRNA	KNOWN	None	31555	None	None	79502130	79502213	1	MIRN184	hsa-mir-184
20	None	ENSG00000234698	ENST00000444478	lincRNA	KNOWN	None	None	None	None	48782899	48786032	1	None	None
20	None	ENSG00000234698	ENST00000451960	lincRNA	KNOWN	None	None	None	None	48785883	48788279	1	None	None
1	None	ENSG00000238761	ENST00000459350	snoRNA	NOVEL	None	None	None	None	112913626	112913729	1	None	None
15	None	ENSG00000261002	ENST00000563846	antisense	KNOWN	None	None	None	None	42500611	42519188	1	None	None
15	None	ENSG00000261002	ENST00000561800	antisense	KNOWN	None	None	None	None	42500817	42503531	1	None	None
X	MID1	ENSG00000101871	ENST00000380779	protein_coding	KNOWN	CCDS14138	7095	2004	667	10413596	10544995	-1	None	OS, FXY, TRIM18, RNF59
X	MID1	ENSG00000101871	ENST00000380780	protein_coding	KNOWN	CCDS14138	7095	2004	667	10413596	10557949	-1	None	OS, FXY, TRIM18, RNF59
X	MID1	ENSG00000101871	ENST00000380785	protein_coding	KNOWN	CCDS14138	7095	2004	667	10413596	10851762	-1	None	OS, FXY, TRIM18, RNF59
X	MID1	ENSG00000101871	ENST00000380787	protein_coding	KNOWN	CCDS14138	7095	2004	667	10413596	10851773	-1	None	OS, FXY, TRIM18, RNF59
X	MID1	ENSG00000101871	ENST00000380782	protein_coding	KNOWN	None	7095	1659	552	10416146	10588459	-1	None	OS, FXY, TRIM18, RNF59
X	MID1	ENSG00000101871	ENST00000479925	processed_transcript	KNOWN	None	7095	None	None	10417504	10428082	-1	None	OS, FXY, TRIM18, RNF59
X	MID1	ENSG00000101871	ENST00000413894	protein_coding	KNOWN	None	7095	1450	482	10423115	10645727	-1	None	OS, FXY, TRIM18, RNF59
X	MID1	ENSG00000101871	ENST00000423614	protein_coding	KNOWN	None	7095	593	196	10534995	10588625	-1	None	OS, FXY, TRIM18, RNF59
X	MID1	ENSG00000101871	ENST00000453318	protein_coding	KNOWN	CCDS14138	7095	2004	667	10413350	10645779	-1	None	OS, FXY, TRIM18, RNF59
X	MID1	ENSG00000101871	ENST00000317552	protein_coding	KNOWN	CCDS14138	7095	2004	667	10413350	10588674	-1	None	OS, FXY, TRIM18, RNF59
1	FMO8P	ENSG00000238087	ENST00000434461	unprocessed_pseudogene	KNOWN	None	32209	None	None	166535415	166549942	1	None	None
1	FMO8P	ENSG00000238087	ENST00000540928	unprocessed_pseudogene	KNOWN	None	32209	None	None	166535415	166543011	1	None	None
15	HNRNPCP3	ENSG00000259419	ENST00000560385	processed_pseudogene	KNOWN	None	48815	None	None	79528674	79529548	1	None	None
1	None	ENSG00000249913	ENST00000502356	antisense	KNOWN	None	None	None	None	112957339	112958909	-1	None	None
17	None	ENSG00000265000	ENST00000584542	lincRNA	KNOWN	None	None	None	None	60885861	60913732	1	None	None
17	None	ENSG00000233979	ENST00000453217	processed_pseudogene	KNOWN	None	None	None	None	15987356	15987695	1	None	None
3	KCNMB2	ENSG00000197584	ENST00000437510	protein_coding	KNOWN	None	6286	412	136	177990720	178546150	1	None	None
3	KCNMB2	ENSG00000197584	ENST00000420517	protein_coding	KNOWN	CCDS3223	6286	708	235	178253993	178560929	1	None	None
3	KCNMB2	ENSG00000197584	ENST00000470361	processed_transcript	PUTATIVE	None	6286	None	None	178254024	178542468	1	None	None
3	KCNMB2	ENSG00000197584	ENST00000452583	protein_coding	KNOWN	CCDS3223	6286	708	235	178254024	178560929	1	None	None
3	KCNMB2	ENSG00000197584	ENST00000432997	protein_coding	KNOWN	CCDS3223	6286	708	235	178276488	178562217	1	None	None
3	KCNMB2	ENSG00000197584	ENST00000455865	protein_coding	KNOWN	None	6286	300	99	178276618	178546038	1	None	None
3	KCNMB2	ENSG00000197584	ENST00000422927	nonsense_mediated_decay	KNOWN	None	6286	81	26	178276673	178546054	1	None	None
3	KCNMB2	ENSG00000197584	ENST00000436247	processed_transcript	PUTATIVE	None	6286	None	None	178525127	178538499	1	None	None
3	KCNMB2	ENSG00000197584	ENST00000358316	protein_coding	KNOWN	CCDS3223	6286	708	235	178525083	178562205	1	None	None
2	IGKV2-38	ENSG00000253592	ENST00000517443	IG_V_pseudogene	KNOWN	None	5787	None	None	89609655	89609901	-1	None	None
17	None	ENSG00000264907	ENST00000584963	processed_pseudogene	KNOWN	None	None	None	None	60918462	60919006	1	None	None
X	None	ENSG00000232249	ENST00000428521	unprocessed_pseudogene	KNOWN	None	None	None	None	152621191	152621414	1	None	None
1	None	ENSG00000248201	ENST00000508462	processed_transcript	KNOWN	None	None	None	None	112999440	113006078	1	None	None
2	IGKV2D-38	ENSG00000254009	ENST00000518423	IG_V_pseudogene	KNOWN	None	5803	None	None	89911273	89911512	1	None	None
15	None	ENSG00000266543	ENST00000581752	miRNA	NOVEL	None	None	None	None	79631072	79631156	1	None	None
14	RN7SL77P	ENSG00000240837	ENST00000473332	misc_RNA	KNOWN	None	46093	None	None	71076803	71077094	1	None	None
17	RNU6-314P	ENSG00000252383	ENST00000516574	snRNA	KNOWN	None	47277	None	None	16002018	16002121	1	None	None
1	None	ENSG00000185495	ENST00000449219	lincRNA	KNOWN	None	None	None	None	224183659	224197405	1	None	None
1	None	ENSG00000185495	ENST00000540997	lincRNA	KNOWN	None	None	None	None	224196429	224198309	1	None	None
17	None	ENSG00000263931	ENST00000582505	lincRNA	KNOWN	None	None	None	None	61012763	61044171	-1	None	None
16	ZNF263	ENSG00000006194	ENST00000573951	processed_transcript	KNOWN	None	13056	None	None	3313743	3317567	1	None	FPM315, ZKSCAN12, ZSCAN44
16	ZNF263	ENSG00000006194	ENST00000572123	processed_transcript	PUTATIVE	None	13056	None	None	3313800	3317181	1	None	FPM315, ZKSCAN12, ZSCAN44
16	ZNF263	ENSG00000006194	ENST00000538765	protein_coding	PUTATIVE	None	13056	996	331	3313800	3341029	1	None	FPM315, ZKSCAN12, ZSCAN44
16	ZNF263	ENSG00000006194	ENST00000219069	protein_coding	KNOWN	CCDS10499	13056	2052	683	3332943	3341460	1	None	FPM315, ZKSCAN12, ZSCAN44
16	ZNF263	ENSG00000006194	ENST00000572748	protein_coding	NOVEL	None	13056	425	140	3333485	3336060	1	None	FPM315, ZKSCAN12, ZSCAN44
16	ZNF263	ENSG00000006194	ENST00000573578	protein_coding	PUTATIVE	None	13056	450	149	3333506	3336884	1	None	FPM315, ZKSCAN12, ZSCAN44
16	ZNF263	ENSG00000006194	ENST00000574253	protein_coding	PUTATIVE	None	13056	681	226	3333510	3339835	1	None	FPM315, ZKSCAN12, ZSCAN44
16	ZNF263	ENSG00000006194	ENST00000575823	protein_coding	PUTATIVE	None	13056	347	114	3333955	3339875	1	None	FPM315, ZKSCAN12, ZSCAN44
16	ZNF263	ENSG00000006194	ENST00000575332	protein_coding	PUTATIVE	None	13056	347	114	3340212	3351400	1	None	FPM315, ZKSCAN12, ZSCAN44
16	ZNF263	ENSG00000006194	ENST00000574674	protein_coding	PUTATIVE	None	13056	156	51	3340403	3351401	1	None	FPM315, ZKSCAN12, ZSCAN44
8	DUXAP2	ENSG00000254063	ENST00000519198	unprocessed_pseudogene	KNOWN	None	32181	None	None	102378645	102379233	-1	None	None
17	RNU6-862P	ENSG00000199674	ENST00000362804	snRNA	KNOWN	None	47825	None	None	16041082	16041186	-1	None	None
1	MRPL53P1	ENSG00000235299	ENST00000414323	processed_pseudogene	KNOWN	None	29725	None	None	113168528	113168846	-1	None	None
2	IGKV2D-36	ENSG00000253127	ENST00000518643	IG_V_pseudogene	KNOWN	None	5802	None	None	89925832	89926057	1	None	None
17	None	ENSG00000228768	ENST00000412403	protein_coding	PUTATIVE	None	None	435	144	29898161	29902678	1	None	None
HG7_PATCH	TRPV6	ENSG00000260119	ENST00000568921	protein_coding	KNOWN	None	14006	2178	725	142632169	142646705	-1	ECAC2	CaT1
HG7_PATCH	TRPV6	ENSG00000260119	ENST00000565739	retained_intron	KNOWN	None	14006	None	None	142632171	142637500	-1	ECAC2	CaT1
HG7_PATCH	TRPV6	ENSG00000260119	ENST00000565608	retained_intron	KNOWN	None	14006	None	None	142632175	142646360	-1	ECAC2	CaT1
HG7_PATCH	TRPV6	ENSG00000260119	ENST00000566985	retained_intron	KNOWN	None	14006	None	None	142632199	142637404	-1	ECAC2	CaT1
HG7_PATCH	TRPV6	ENSG00000260119	ENST00000566759	protein_coding	PUTATIVE	None	14006	270	89	142635058	142646705	-1	ECAC2	CaT1
HG7_PATCH	TRPV6	ENSG00000260119	ENST00000568821	retained_intron	KNOWN	None	14006	None	None	142637074	142637768	-1	ECAC2	CaT1
HG7_PATCH	TRPV6	ENSG00000260119	ENST00000563325	retained_intron	KNOWN	None	14006	None	None	142637784	142638915	-1	ECAC2	CaT1
HG7_PATCH	TRPV6	ENSG00000260119	ENST00000561829	protein_coding	PUTATIVE	None	14006	170	55	142638200	142638939	-1	ECAC2	CaT1
X	None	ENSG00000214897	ENST00000445091	transcribed_processed_pseudogene	KNOWN	None	None	None	None	152662421	152664307	-1	None	None
X	None	ENSG00000214897	ENST00000427876	processed_transcript	PUTATIVE	None	None	None	None	152663209	152664240	-1	None	None
12	RPL21P103	ENSG00000241423	ENST00000479921	processed_pseudogene	KNOWN	None	36732	None	None	58638161	58638648	1	None	None
12	None	ENSG00000245904	ENST00000501008	antisense	KNOWN	None	None	None	None	92539349	92561336	1	None	None
12	None	ENSG00000245904	ENST00000499685	antisense	KNOWN	None	None	None	None	92539957	92583436	1	None	None
17	RN7SL442P	ENSG00000239221	ENST00000473804	misc_RNA	KNOWN	None	46458	None	None	16095146	16095466	1	None	None
17	MIR633	ENSG00000207552	ENST00000384821	miRNA	KNOWN	None	32889	None	None	61021576	61021673	1	MIRN633	hsa-mir-633
15	None	ENSG00000261712	ENST00000561560	lincRNA	KNOWN	None	None	None	None	79705700	79706228	1	None	None
HG348_PATCH	KDM4E	ENSG00000262258	ENST00000576054	protein_coding	KNOWN	None	37098	1521	506	94758423	94760761	1	KDM4DL	JMJD2E
17	MIR1288	ENSG00000221355	ENST00000408428	miRNA	KNOWN	None	35363	None	None	16185328	16185402	1	MIRN1288	hsa-mir-1288
2	None	ENSG00000228446	ENST00000440417	processed_pseudogene	KNOWN	None	None	None	None	225364104	225364817	-1	None	None
2	IGKV1D-35	ENSG00000232747	ENST00000442736	IG_V_pseudogene	KNOWN	None	5754	None	None	89934312	89934582	1	None	None
6	KRT18P50	ENSG00000219941	ENST00000404337	processed_pseudogene	KNOWN	None	33420	None	None	96438983	96440225	1	None	None
17	None	ENSG00000265262	ENST00000580149	transcribed_processed_pseudogene	KNOWN	None	None	None	None	61028192	61028549	-1	None	None
11	SNORD15B	ENSG00000207445	ENST00000384714	snoRNA	KNOWN	None	16649	None	None	75115465	75115610	1	RNU15B	U15B
8	None	ENSG00000253644	ENST00000518612	lincRNA	KNOWN	None	None	None	None	102399527	102405414	-1	None	None
1	RNU7-70P	ENSG00000252750	ENST00000516941	snRNA	KNOWN	None	34166	None	None	113177341	113177406	-1	None	U7.70
1	None	ENSG00000264239	ENST00000578728	miRNA	NOVEL	None	None	None	None	71607658	71607751	-1	None	None
5	None	ENSG00000248867	ENST00000511296	processed_pseudogene	KNOWN	None	None	None	None	108784050	108784764	-1	None	None
17	None	ENSG00000265401	ENST00000583934	antisense	KNOWN	None	None	None	None	16285466	16285983	-1	None	None
12	None	ENSG00000199740	ENST00000362870	misc_RNA	NOVEL	None	None	None	None	51333710	51333809	-1	None	None
1	None	ENSG00000263182	ENST00000572124	3prime_overlapping_ncrna	KNOWN	None	None	None	None	224196429	224198314	1	None	None
1	None	ENSG00000237726	ENST00000411721	lincRNA	KNOWN	None	None	None	None	71716682	71717802	1	None	None
17	None	ENSG00000266411	ENST00000581596	lincRNA	KNOWN	None	None	None	None	61044178	61045910	-1	None	None
1	None	ENSG00000238975	ENST00000459345	snoRNA	NOVEL	None	None	None	None	113195210	113195310	1	None	None
12	DDX11L8	ENSG00000256263	ENST00000535849	unprocessed_pseudogene	KNOWN	None	37101	None	None	92239	93430	-1	None	None
15	None	ENSG00000259493	ENST00000560593	processed_pseudogene	KNOWN	None	None	None	None	79851598	79852646	-1	None	None
HG311_PATCH	None	ENSG00000263347	ENST00000570695	antisense	KNOWN	None	None	None	None	118429615	118432252	1	None	None
1	None	ENSG00000255275	ENST00000494072	nonsense_mediated_decay	KNOWN	None	None	889	295	19175767	19247615	-1	None	None
11	None	ENSG00000254460	ENST00000533740	sense_intronic	KNOWN	None	None	None	None	75217982	75219436	-1	None	None
17	FTLP12	ENSG00000265095	ENST00000578296	processed_pseudogene	KNOWN	None	37961	None	None	16294748	16295196	1	None	None
1	None	ENSG00000225075	ENST00000421943	antisense	KNOWN	None	None	None	None	113236310	113239243	-1	None	None
11	None	ENSG00000237612	ENST00000441638	lincRNA	KNOWN	None	None	None	None	131104433	131121711	1	None	None
2	IGKV3D-34	ENSG00000253501	ENST00000522638	IG_V_pseudogene	KNOWN	None	5828	None	None	89945567	89946056	1	None	None
1	None	ENSG00000229930	ENST00000414742	unprocessed_pseudogene	KNOWN	None	None	None	None	224218406	224222758	-1	None	None
17	None	ENSG00000270324	ENST00000604690	processed_pseudogene	KNOWN	None	None	None	None	61055855	61056202	-1	None	None
17	None	ENSG00000264739	ENST00000580996	antisense	KNOWN	None	None	None	None	16317838	16320003	-1	None	None
1	None	ENSG00000226324	ENST00000422522	processed_pseudogene	KNOWN	None	None	None	None	71832737	71832986	-1	None	None
3	None	ENSG00000242290	ENST00000465249	lincRNA	KNOWN	None	None	None	None	114172440	114238979	1	None	None
1	None	ENSG00000261595	ENST00000566195	antisense	KNOWN	None	None	None	None	113258294	113260418	1	None	None
17	None	ENSG00000272164	ENST00000606304	processed_pseudogene	KNOWN	None	None	None	None	61082033	61082513	-1	None	None
HSCHR10_1_CTG5	ANKRD30BP3	ENSG00000261878	ENST00000576883	unprocessed_pseudogene	KNOWN	None	27873	None	None	45652223	45672373	1	None	None
20	None	ENSG00000231742	ENST00000427333	lincRNA	KNOWN	None	None	None	None	48789087	48789907	1	None	None
20	None	ENSG00000231742	ENST00000411453	lincRNA	KNOWN	None	None	None	None	48789127	48793096	1	None	None
17	None	ENSG00000239203	ENST00000441875	retained_intron	KNOWN	None	None	None	None	16330788	16332033	1	None	None
2	IGKV1D-32	ENSG00000253191	ENST00000517449	IG_V_pseudogene	KNOWN	None	5752	None	None	89967232	89967677	1	None	None
3	ZNF385D-AS1	ENSG00000225542	ENST00000412369	antisense	KNOWN	None	41136	None	None	21584308	21621451	1	None	None
13	PDS5B	ENSG00000083642	ENST00000315596	protein_coding	KNOWN	CCDS41878	20418	4344	1447	33160564	33352157	1	APRIN	AS3, KIAA0979, FLJ23236, CG008
13	PDS5B	ENSG00000083642	ENST00000482955	retained_intron	KNOWN	None	20418	None	None	33160592	33232486	1	APRIN	AS3, KIAA0979, FLJ23236, CG008
13	PDS5B	ENSG00000083642	ENST00000498550	retained_intron	KNOWN	None	20418	None	None	33160680	33265405	1	APRIN	AS3, KIAA0979, FLJ23236, CG008
13	PDS5B	ENSG00000083642	ENST00000450460	nonsense_mediated_decay	KNOWN	None	20418	4176	1391	33160685	33350046	1	APRIN	AS3, KIAA0979, FLJ23236, CG008
13	PDS5B	ENSG00000083642	ENST00000493653	retained_intron	KNOWN	None	20418	None	None	33160688	33226742	1	APRIN	AS3, KIAA0979, FLJ23236, CG008
13	PDS5B	ENSG00000083642	ENST00000466078	retained_intron	KNOWN	None	20418	None	None	33160706	33224754	1	APRIN	AS3, KIAA0979, FLJ23236, CG008
13	PDS5B	ENSG00000083642	ENST00000481616	retained_intron	KNOWN	None	20418	None	None	33275121	33284205	1	APRIN	AS3, KIAA0979, FLJ23236, CG008
13	PDS5B	ENSG00000083642	ENST00000447833	protein_coding	PUTATIVE	None	20418	906	301	33332307	33344684	1	APRIN	AS3, KIAA0979, FLJ23236, CG008
13	PDS5B	ENSG00000083642	ENST00000474274	retained_intron	KNOWN	None	20418	None	None	33344328	33345217	1	APRIN	AS3, KIAA0979, FLJ23236, CG008
1	None	ENSG00000231985	ENST00000446438	antisense	KNOWN	None	None	None	None	72036639	72039241	1	None	None
8	RN7SL563P	ENSG00000239211	ENST00000481233	misc_RNA	KNOWN	None	46579	None	None	102409863	102410161	-1	None	None
6	RN7SL797P	ENSG00000242560	ENST00000486314	misc_RNA	KNOWN	None	46813	None	None	96730443	96730737	1	None	None
17	None	ENSG00000272383	ENST00000605967	processed_pseudogene	KNOWN	None	None	None	None	61165523	61166558	-1	None	None
9	GALNT12	ENSG00000119514	ENST00000375011	protein_coding	KNOWN	CCDS6737	19877	1746	581	101569981	101612363	1	None	FLJ21212
9	GALNT12	ENSG00000119514	ENST00000470473	processed_transcript	KNOWN	None	19877	None	None	101611054	101611916	1	None	FLJ21212
3	None	ENSG00000251986	ENST00000516177	misc_RNA	NOVEL	None	None	None	None	41910490	41910587	-1	None	None
12	None	ENSG00000271596	ENST00000603244	processed_pseudogene	KNOWN	None	None	None	None	51342900	51343167	-1	None	None
1	None	ENSG00000234790	ENST00000458353	processed_pseudogene	KNOWN	None	None	None	None	113290717	113291097	1	None	None
1	None	ENSG00000271618	ENST00000605519	processed_pseudogene	KNOWN	None	None	None	None	72203856	72204037	1	None	None
3	None	ENSG00000212145	ENST00000390843	snoRNA	NOVEL	None	None	None	None	41940603	41940745	-1	None	None
8	None	ENSG00000254084	ENST00000519793	lincRNA	KNOWN	None	None	None	None	102424101	102464680	-1	None	None
1	RN7SKP49	ENSG00000252484	ENST00000516675	misc_RNA	KNOWN	None	45773	None	None	224294984	224295243	-1	None	None
6	UFL1-AS1	ENSG00000233797	ENST00000430796	antisense	KNOWN	None	41007	None	None	96806250	96969545	-1	None	None
17	None	ENSG00000264513	ENST00000582889	antisense	KNOWN	None	None	None	None	61194380	61208308	-1	None	None
11	None	ENSG00000255326	ENST00000527803	antisense	KNOWN	None	None	None	None	75294241	75305710	1	None	None
3	RPL36P20	ENSG00000234270	ENST00000423702	processed_pseudogene	KNOWN	None	44564	None	None	41996937	41997255	1	None	None
11	NLRP6	ENSG00000174885	ENST00000534750	protein_coding	KNOWN	None	22944	2676	891	278365	285359	1	NALP6	PYPAF5, PAN3, CLR11.4
11	NLRP6	ENSG00000174885	ENST00000312165	protein_coding	KNOWN	CCDS7693	22944	2679	892	278570	285304	1	NALP6	PYPAF5, PAN3, CLR11.4
11	NLRP6	ENSG00000174885	ENST00000527946	retained_intron	KNOWN	None	22944	None	None	279059	279860	1	NALP6	PYPAF5, PAN3, CLR11.4
1	None	ENSG00000236773	ENST00000415453	processed_pseudogene	KNOWN	None	None	None	None	224363178	224363408	-1	None	None
2	IGKV3D-31	ENSG00000253999	ENST00000519131	IG_V_pseudogene	KNOWN	None	5827	None	None	89968511	89969012	1	None	None
2	MIR4439	ENSG00000263828	ENST00000583746	miRNA	KNOWN	None	41622	None	None	225875178	225875257	-1	None	hsa-mir-4439
15	None	ENSG00000259208	ENST00000560719	processed_pseudogene	KNOWN	None	None	None	None	79960684	79961158	-1	None	None
17	None	ENSG00000264529	ENST00000578523	transcribed_processed_pseudogene	KNOWN	None	None	None	None	61259527	61260178	1	None	None
17	COPRS	ENSG00000172301	ENST00000302362	protein_coding	KNOWN	CCDS11268	28848	555	184	30178883	30186356	-1	C17orf79	TTP1, HSA272196, COPR5
17	COPRS	ENSG00000172301	ENST00000378634	protein_coding	PUTATIVE	None	28848	519	172	30178890	30186093	-1	C17orf79	TTP1, HSA272196, COPR5
17	COPRS	ENSG00000172301	ENST00000496655	nonsense_mediated_decay	KNOWN	None	28848	249	82	30178890	30186310	-1	C17orf79	TTP1, HSA272196, COPR5
17	COPRS	ENSG00000172301	ENST00000579984	nonsense_mediated_decay	KNOWN	None	28848	207	68	30179238	30186232	-1	C17orf79	TTP1, HSA272196, COPR5
17	COPRS	ENSG00000172301	ENST00000579741	protein_coding	PUTATIVE	None	28848	310	102	30179250	30185950	-1	C17orf79	TTP1, HSA272196, COPR5
12	None	ENSG00000215241	ENST00000304751	lincRNA	KNOWN	None	None	None	None	8388011	8391542	1	None	None
12	None	ENSG00000215241	ENST00000399866	lincRNA	KNOWN	None	None	None	None	8388478	8390769	1	None	None
12	None	ENSG00000215241	ENST00000536034	lincRNA	KNOWN	None	None	None	None	8388526	8395160	1	None	None
1	NEGR1-IT1	ENSG00000228853	ENST00000453121	sense_intronic	KNOWN	None	41432	None	None	72259915	72302695	-1	None	None
2	None	ENSG00000232784	ENST00000431435	lincRNA	KNOWN	None	None	None	None	226264426	226265304	1	None	None
11	LINC00678	ENSG00000254934	ENST00000527083	lincRNA	KNOWN	None	44413	None	None	27639173	27656069	-1	None	None
11	LINC00678	ENSG00000254934	ENST00000534757	lincRNA	KNOWN	None	44413	None	None	27639540	27656174	-1	None	None
12	None	ENSG00000272028	ENST00000607561	snRNA	NOVEL	None	None	None	None	51407917	51408024	-1	None	None
6	RPS7P8	ENSG00000213183	ENST00000418311	processed_pseudogene	KNOWN	None	35710	None	None	97096365	97096945	-1	None	None
1	None	ENSG00000201898	ENST00000365028	snoRNA	NOVEL	None	None	None	None	224367343	224367469	1	None	None
2	IGKV1D-27	ENSG00000224607	ENST00000453184	IG_V_pseudogene	KNOWN	None	5751	None	None	90007677	90008145	1	None	None
2	IGKV1D-27	ENSG00000224607	ENST00000558152	IG_V_pseudogene	KNOWN	None	5751	None	None	90007709	90008154	1	None	None
11	None	ENSG00000231698	ENST00000416553	lincRNA	KNOWN	None	None	None	None	131123317	131170666	1	None	None
11	None	ENSG00000231698	ENST00000606885	lincRNA	KNOWN	None	None	None	None	131123341	131220812	1	None	None
1	None	ENSG00000232628	ENST00000453760	sense_intronic	KNOWN	None	None	None	None	224396449	224398114	-1	None	None
1	None	ENSG00000232628	ENST00000436706	sense_intronic	KNOWN	None	None	None	None	224396449	224400981	-1	None	None
3	ZBTB20-AS2	ENSG00000241295	ENST00000478301	lincRNA	KNOWN	None	42421	None	None	114403427	114406456	1	None	None
17	None	ENSG00000233635	ENST00000435892	antisense	KNOWN	None	None	None	None	61271291	61275146	-1	None	None
17	None	ENSG00000233635	ENST00000581421	antisense	KNOWN	None	None	None	None	61271292	61416414	-1	None	None
2	None	ENSG00000228206	ENST00000448918	processed_pseudogene	KNOWN	None	None	None	None	226562970	226563255	1	None	None
1	GDI2P2	ENSG00000233994	ENST00000445131	processed_pseudogene	KNOWN	None	37976	None	None	72740235	72740842	1	None	None
3	None	ENSG00000237566	ENST00000458338	processed_pseudogene	KNOWN	None	None	None	None	5141312	5141546	1	None	None
3	None	ENSG00000221384	ENST00000408457	miRNA	NOVEL	None	None	None	None	21871230	21871329	1	None	None
1	None	ENSG00000215866	ENST00000433505	lincRNA	KNOWN	None	None	None	None	113362792	113392437	-1	None	None
1	None	ENSG00000215866	ENST00000401018	lincRNA	KNOWN	None	None	None	None	113362796	113393265	-1	None	None
1	None	ENSG00000215866	ENST00000449572	lincRNA	KNOWN	None	None	None	None	113362912	113392399	-1	None	None
3	None	ENSG00000235339	ENST00000418195	processed_pseudogene	KNOWN	None	None	None	None	42018500	42019526	1	None	None
9	None	ENSG00000270712	ENST00000604443	processed_pseudogene	KNOWN	None	None	None	None	19957392	19958145	-1	None	None
8	None	ENSG00000254024	ENST00000520268	antisense	KNOWN	None	None	None	None	102473405	102504727	-1	None	None
7	MIR96	ENSG00000199158	ENST00000362288	miRNA	KNOWN	None	31648	None	None	129414532	129414609	-1	MIRN96, DFNA50	hsa-mir-96
2	IGKV3D-25	ENSG00000254097	ENST00000519599	IG_V_pseudogene	KNOWN	None	5826	None	None	90028797	90029031	1	None	None
12	FAM138D	ENSG00000206114	ENST00000440796	lincRNA	KNOWN	None	33583	None	None	147073	149346	-1	None	F379
12	FAM138D	ENSG00000206114	ENST00000320165	lincRNA	KNOWN	None	33583	None	None	147948	149350	-1	None	F379
17	PTRF	ENSG00000177469	ENST00000357037	protein_coding	KNOWN	CCDS11425	9688	1173	390	40554470	40575535	-1	None	cavin-1, CAVIN1
1	None	ENSG00000227207	ENST00000422587	processed_pseudogene	KNOWN	None	None	None	None	72767155	72767512	1	None	None
1	None	ENSG00000237101	ENST00000420350	antisense	KNOWN	None	None	None	None	224407315	224415745	1	None	None
3	None	ENSG00000229339	ENST00000434712	processed_pseudogene	KNOWN	None	None	None	None	42092673	42093186	-1	None	None
3	None	ENSG00000233912	ENST00000439325	antisense	KNOWN	None	None	None	None	5198590	5229014	-1	None	None
2	IGKV2D-23	ENSG00000254345	ENST00000518179	IG_V_pseudogene	KNOWN	None	5796	None	None	90048212	90048737	1	None	None
9	None	ENSG00000221744	ENST00000408817	miRNA	NOVEL	None	None	None	None	20295002	20295086	1	None	None
3	TPMTP2	ENSG00000234562	ENST00000414372	processed_pseudogene	KNOWN	None	44565	None	None	42187138	42187863	-1	None	None
17	None	ENSG00000263501	ENST00000580253	antisense	KNOWN	None	None	None	None	61382623	61390882	-1	None	None
3	ZNF385D-AS2	ENSG00000223351	ENST00000448980	lincRNA	KNOWN	None	42420	None	None	21984058	22003032	1	None	None
3	ZNF385D-AS2	ENSG00000223351	ENST00000436306	lincRNA	KNOWN	None	42420	None	None	21998628	22021320	1	None	None
3	MTND4P17	ENSG00000242178	ENST00000470444	processed_pseudogene	KNOWN	None	42204	None	None	165877809	165878158	-1	None	None
9	None	ENSG00000237434	ENST00000414056	processed_pseudogene	KNOWN	None	None	None	None	20331444	20332275	1	None	None
12	RNU6-1273P	ENSG00000199903	ENST00000363033	snRNA	KNOWN	None	48236	None	None	51431282	51431385	1	None	None
12	ENPP7P5	ENSG00000256589	ENST00000541031	unprocessed_pseudogene	KNOWN	None	48688	None	None	8407123	8461445	-1	None	None
1	RNU6-1246P	ENSG00000212366	ENST00000391064	snRNA	KNOWN	None	48209	None	None	73183346	73183452	-1	None	None
1	MIR320B2	ENSG00000221406	ENST00000408479	miRNA	KNOWN	None	35256	None	None	224444706	224444843	-1	MIRN320B2	hsa-mir-320b-2
2	IGKV1D-22	ENSG00000253365	ENST00000518953	IG_V_pseudogene	KNOWN	None	5750	None	None	90049551	90049994	1	None	None
11	None	ENSG00000255434	ENST00000532553	sense_intronic	KNOWN	None	None	None	None	75307189	75308315	-1	None	None
17	None	ENSG00000271919	ENST00000607331	transcribed_processed_pseudogene	KNOWN	None	None	None	None	61409345	61409900	-1	None	None
7	MIR183	ENSG00000207691	ENST00000384958	miRNA	KNOWN	None	31554	None	None	129414745	129414854	-1	MIRN183	hsa-mir-183
2	None	ENSG00000230621	ENST00000412635	processed_pseudogene	KNOWN	None	None	None	None	226857697	226857913	-1	None	None
1	None	ENSG00000225087	ENST00000445976	lincRNA	KNOWN	None	None	None	None	73214604	73364823	-1	None	None
19	None	ENSG00000267581	ENST00000590274	lincRNA	KNOWN	None	None	None	None	19871847	19932525	-1	None	None
11	None	ENSG00000255496	ENST00000530663	sense_overlapping	KNOWN	None	None	None	None	27717859	27899195	-1	None	None
3	EIF2S2P2	ENSG00000229704	ENST00000447161	processed_pseudogene	KNOWN	None	24654	None	None	184963248	184964229	-1	None	bcm2636
7	None	ENSG00000242078	ENST00000496217	lincRNA	KNOWN	None	None	None	None	129423210	129425025	-1	None	None
1	None	ENSG00000229742	ENST00000441469	processed_pseudogene	KNOWN	None	None	None	None	224485348	224486302	1	None	None
9	MIR4473	ENSG00000263790	ENST00000583731	miRNA	KNOWN	None	41540	None	None	20411146	20411236	-1	None	hsa-mir-4473
12	None	ENSG00000244540	ENST00000469738	processed_pseudogene	KNOWN	None	None	None	None	51500600	51500927	1	None	None
11	CBX3P1	ENSG00000177447	ENST00000325243	processed_pseudogene	KNOWN	None	33950	None	None	27827990	27828543	1	None	None
1	None	ENSG00000227016	ENST00000418078	lincRNA	KNOWN	None	None	None	None	73230714	73245974	1	None	None
2	IGKV2D-19	ENSG00000253765	ENST00000523346	IG_V_pseudogene	KNOWN	None	5795	None	None	90085628	90085889	1	None	None
1	None	ENSG00000224167	ENST00000456651	lincRNA	KNOWN	None	None	None	None	113392650	113420493	1	None	None
1	None	ENSG00000224167	ENST00000422022	lincRNA	KNOWN	None	None	None	None	113392698	113420489	1	None	None
22	EIF4ENIF1	ENSG00000184708	ENST00000344710	protein_coding	NOVEL	CCDS54520	16687	2436	811	31835349	31885810	-1	None	4E-T, FLJ21601, Clast4, 2610509L04Rik
22	EIF4ENIF1	ENSG00000184708	ENST00000495101	retained_intron	KNOWN	None	16687	None	None	31835351	31847246	-1	None	4E-T, FLJ21601, Clast4, 2610509L04Rik
22	EIF4ENIF1	ENSG00000184708	ENST00000397525	protein_coding	KNOWN	CCDS13898	16687	2958	985	31835353	31885573	-1	None	4E-T, FLJ21601, Clast4, 2610509L04Rik
22	EIF4ENIF1	ENSG00000184708	ENST00000330125	protein_coding	KNOWN	CCDS13898	16687	2958	985	31835355	31885727	-1	None	4E-T, FLJ21601, Clast4, 2610509L04Rik
22	EIF4ENIF1	ENSG00000184708	ENST00000397523	protein_coding	NOVEL	None	16687	2886	961	31835359	31884731	-1	None	4E-T, FLJ21601, Clast4, 2610509L04Rik
22	EIF4ENIF1	ENSG00000184708	ENST00000445424	nonsense_mediated_decay	KNOWN	None	16687	284	93	31837789	31845369	-1	None	4E-T, FLJ21601, Clast4, 2610509L04Rik
22	EIF4ENIF1	ENSG00000184708	ENST00000475437	retained_intron	KNOWN	None	16687	None	None	31838021	31839405	-1	None	4E-T, FLJ21601, Clast4, 2610509L04Rik
22	EIF4ENIF1	ENSG00000184708	ENST00000487671	retained_intron	KNOWN	None	16687	None	None	31840424	31845476	-1	None	4E-T, FLJ21601, Clast4, 2610509L04Rik
22	EIF4ENIF1	ENSG00000184708	ENST00000418321	protein_coding	NOVEL	None	16687	718	238	31840618	31851194	-1	None	4E-T, FLJ21601, Clast4, 2610509L04Rik
22	EIF4ENIF1	ENSG00000184708	ENST00000423097	protein_coding	KNOWN	None	16687	566	187	31859686	31885228	-1	None	4E-T, FLJ21601, Clast4, 2610509L04Rik
22	EIF4ENIF1	ENSG00000184708	ENST00000397518	protein_coding	KNOWN	None	16687	191	62	31864268	31885923	-1	None	4E-T, FLJ21601, Clast4, 2610509L04Rik
22	EIF4ENIF1	ENSG00000184708	ENST00000397520	protein_coding	KNOWN	None	16687	191	62	31864268	31892094	-1	None	4E-T, FLJ21601, Clast4, 2610509L04Rik
22	EIF4ENIF1	ENSG00000184708	ENST00000382180	protein_coding	KNOWN	None	16687	1923	640	31835648	31851983	-1	None	4E-T, FLJ21601, Clast4, 2610509L04Rik
9	RNU4-26P	ENSG00000222202	ENST00000410270	snRNA	KNOWN	None	46962	None	None	20418319	20418425	1	None	None
17	None	ENSG00000226797	ENST00000431604	antisense	KNOWN	None	None	None	None	61458592	61491673	-1	None	None
3	MIR4790	ENSG00000265180	ENST00000577799	miRNA	KNOWN	None	41820	None	None	5291862	5291940	-1	None	hsa-mir-4790
6	PLN	ENSG00000198523	ENST00000357525	protein_coding	KNOWN	CCDS5120	9080	159	52	118869461	118881893	1	PLB	CMD1P
16	None	ENSG00000261766	ENST00000567731	antisense	KNOWN	None	None	None	None	28873487	28874661	-1	None	None
2	IGKV2D-18	ENSG00000254220	ENST00000519785	IG_V_pseudogene	KNOWN	None	5794	None	None	90091427	90092218	1	None	None
3	RNU4-78P	ENSG00000222872	ENST00000410940	snRNA	KNOWN	None	47014	None	None	42263332	42263457	1	None	None
11	None	ENSG00000254630	ENST00000530435	sense_intronic	KNOWN	None	None	None	None	75346928	75349632	-1	None	None
9	MIR4474	ENSG00000264941	ENST00000579189	miRNA	KNOWN	None	41821	None	None	20502263	20502340	-1	None	hsa-mir-4474
1	FMO9P	ENSG00000215834	ENST00000477875	processed_transcript	KNOWN	None	32210	None	None	166572912	166594475	1	None	RP11-45J16.2
1	FMO9P	ENSG00000215834	ENST00000488458	unitary_pseudogene	KNOWN	None	32210	None	None	166581707	166600637	1	None	RP11-45J16.2
3	HMGB1P5	ENSG00000132967	ENST00000255320	transcribed_processed_pseudogene	KNOWN	None	4997	None	None	22423310	22423951	1	HMG1L5, HMGB1L15, HMGB1P2, HMGB1L5	None
3	HMGB1P5	ENSG00000132967	ENST00000451497	processed_transcript	KNOWN	None	4997	None	None	22423436	22424420	1	HMG1L5, HMGB1L15, HMGB1P2, HMGB1L5	None
20	None	ENSG00000224397	ENST00000425497	lincRNA	KNOWN	None	None	None	None	48884023	48896332	1	None	None
20	None	ENSG00000224397	ENST00000445003	lincRNA	KNOWN	None	None	None	None	48884036	48894964	1	None	None
20	None	ENSG00000224397	ENST00000422459	lincRNA	KNOWN	None	None	None	None	48892854	48895574	1	None	None
20	None	ENSG00000224397	ENST00000421019	lincRNA	KNOWN	None	None	None	None	48894071	48894952	1	None	None
17	None	ENSG00000263644	ENST00000583552	antisense	KNOWN	None	None	None	None	61468552	61508450	-1	None	None
3	RN7SL553P	ENSG00000241227	ENST00000482215	misc_RNA	KNOWN	None	46569	None	None	5294613	5294908	-1	None	None
1	KRT8P21	ENSG00000229636	ENST00000430398	processed_pseudogene	KNOWN	None	33373	None	None	73570475	73571965	1	None	None
3	SALL4P6	ENSG00000231280	ENST00000429385	processed_pseudogene	KNOWN	None	39823	None	None	42362497	42364187	1	None	None
5	None	ENSG00000253403	ENST00000521984	antisense	KNOWN	None	None	None	None	161114353	161116414	-1	None	None
6	RNU4-70P	ENSG00000207309	ENST00000384579	snRNA	KNOWN	None	47006	None	None	97097329	97097467	-1	None	None
9	None	ENSG00000237088	ENST00000444895	processed_pseudogene	KNOWN	None	None	None	None	20532550	20533337	1	None	None
3	MIR4796	ENSG00000264623	ENST00000580742	miRNA	KNOWN	None	41779	None	None	114462292	114462372	-1	None	hsa-mir-4796
6	BLOC1S5-TXNDC5	ENSG00000259040	ENST00000439343	nonsense_mediated_decay	KNOWN	None	42001	411	136	7881755	8064597	-1	MUTED-TXNDC5	None
6	BLOC1S5-TXNDC5	ENSG00000259040	ENST00000539054	protein_coding	KNOWN	None	42001	1083	360	7881483	8026646	-1	MUTED-TXNDC5	None
6	BLOC1S5-TXNDC5	ENSG00000259040	ENST00000604490	protein_coding	KNOWN	CCDS47369	42001	975	324	7881754	7910127	-1	MUTED-TXNDC5	None
6	RSPH9	ENSG00000172426	ENST00000372165	protein_coding	KNOWN	CCDS55005	21057	921	306	43612783	43640336	1	MRPS18AL1, C6orf206	FLJ30845, CILD12
6	RSPH9	ENSG00000172426	ENST00000372163	protein_coding	KNOWN	CCDS4905	21057	831	276	43612783	43640336	1	MRPS18AL1, C6orf206	FLJ30845, CILD12
12	None	ENSG00000266269	ENST00000581907	miRNA	NOVEL	None	None	None	None	111925282	111925382	-1	None	None
2	None	ENSG00000178894	ENST00000323194	pseudogene	NOVEL	None	None	None	None	90137998	90138233	-1	None	None
17	None	ENSG00000271749	ENST00000606610	unprocessed_pseudogene	KNOWN	None	None	None	None	61470716	61470947	1	None	None
1	None	ENSG00000228040	ENST00000416137	processed_pseudogene	KNOWN	None	None	None	None	113433389	113433544	-1	None	None
7	None	ENSG00000244036	ENST00000587038	antisense	KNOWN	None	None	None	None	129593074	129666150	1	None	None
7	None	ENSG00000244036	ENST00000480018	antisense	KNOWN	None	None	None	None	129648694	129666391	1	None	None
12	RPL21P106	ENSG00000239201	ENST00000496249	processed_pseudogene	KNOWN	None	36188	None	None	92562176	92562653	1	None	None
6	None	ENSG00000219139	ENST00000407851	processed_pseudogene	KNOWN	None	None	None	None	97101150	97102018	1	None	None
1	RNU6-1008P	ENSG00000206887	ENST00000384160	snRNA	KNOWN	None	47971	None	None	224493082	224493185	1	None	None
16	None	ENSG00000260442	ENST00000561547	antisense	KNOWN	None	None	None	None	28890278	28891216	-1	None	None
16	None	ENSG00000260442	ENST00000566956	antisense	KNOWN	None	None	None	None	28890278	28891241	-1	None	None
3	EIF4BP4	ENSG00000229572	ENST00000441847	processed_pseudogene	KNOWN	None	37937	None	None	42382080	42383859	1	None	None
12	None	ENSG00000257246	ENST00000547512	processed_pseudogene	KNOWN	None	None	None	None	51518411	51519164	-1	None	None
11	None	ENSG00000224411	ENST00000530115	processed_pseudogene	KNOWN	None	None	None	None	27910385	27912580	-1	None	None
11	None	ENSG00000224411	ENST00000440936	processed_pseudogene	KNOWN	None	None	None	None	27911549	27912580	-1	None	None
4	RN7SKP237	ENSG00000201533	ENST00000364663	misc_RNA	KNOWN	None	45961	None	None	140606281	140606581	-1	None	None
2	IGKV2D-14	ENSG00000254292	ENST00000522473	IG_V_pseudogene	KNOWN	None	5793	None	None	90160638	90161416	1	None	None
22	None	ENSG00000230137	ENST00000426397	processed_pseudogene	KNOWN	None	None	None	None	30835824	30836305	1	None	None
1	None	ENSG00000238856	ENST00000459357	snoRNA	NOVEL	None	None	None	None	224524493	224524591	1	None	None
3	None	ENSG00000230944	ENST00000443087	lincRNA	KNOWN	None	None	None	None	5297220	5298446	-1	None	None
4	H3F3AP6	ENSG00000178458	ENST00000230495	processed_pseudogene	KNOWN	None	42982	None	None	140619298	140619708	-1	None	p21
2	None	ENSG00000235070	ENST00000423838	lincRNA	KNOWN	None	None	None	None	227044760	227050087	-1	None	None
22	SDC4P	ENSG00000214161	ENST00000453285	processed_pseudogene	KNOWN	None	18903	None	None	30877298	30877898	-1	None	None
11	RNU6ATAC12P	ENSG00000252351	ENST00000516542	snRNA	KNOWN	None	46911	None	None	131255144	131255258	1	None	None
1	MIR4742	ENSG00000266618	ENST00000581069	miRNA	KNOWN	None	41565	None	None	224585929	224586013	-1	None	hsa-mir-4742
17	None	ENSG00000265282	ENST00000584608	lincRNA	KNOWN	None	None	None	None	61507829	61509572	-1	None	None
3	None	ENSG00000229642	ENST00000425894	lincRNA	KNOWN	None	None	None	None	6004529	6165807	1	None	None
5	RN7SL541P	ENSG00000240250	ENST00000464317	misc_RNA	KNOWN	None	46557	None	None	133853501	133853785	1	None	None
9	None	ENSG00000252324	ENST00000516515	miRNA	NOVEL	None	None	None	None	20576216	20576300	1	None	None
22	None	ENSG00000181123	ENST00000442126	antisense	KNOWN	None	None	None	None	30887789	30888791	1	None	None
1	RN7SKP19	ENSG00000251825	ENST00000516016	misc_RNA	KNOWN	None	45743	None	None	73657287	73657538	-1	None	None
5	GLRXP3	ENSG00000118990	ENST00000470810	processed_pseudogene	KNOWN	None	34049	None	None	161178454	161178774	-1	GLRXL	None
4	RN7SKP253	ENSG00000252233	ENST00000516424	misc_RNA	KNOWN	None	45977	None	None	140715279	140715587	-1	None	None
2	IGKV2D-10	ENSG00000253906	ENST00000520194	IG_V_pseudogene	KNOWN	None	5792	None	None	90218730	90219428	1	None	None
1	AKR7A2P1	ENSG00000229020	ENST00000460134	processed_pseudogene	KNOWN	None	24062	None	None	113466045	113466959	1	None	AFARP1
12	LINC00937	ENSG00000226091	ENST00000544461	lincRNA	KNOWN	None	48629	None	None	8448582	8549399	-1	None	None
12	LINC00937	ENSG00000226091	ENST00000537659	lincRNA	KNOWN	None	48629	None	None	8509559	8527109	-1	None	None
12	LINC00937	ENSG00000226091	ENST00000539348	lincRNA	KNOWN	None	48629	None	None	8509559	8542933	-1	None	None
12	LINC00937	ENSG00000226091	ENST00000420040	lincRNA	KNOWN	None	48629	None	None	8509559	8543348	-1	None	None
12	LINC00937	ENSG00000226091	ENST00000536560	lincRNA	KNOWN	None	48629	None	None	8535440	8538323	-1	None	None
12	LINC00937	ENSG00000226091	ENST00000538304	lincRNA	KNOWN	None	48629	None	None	8536701	8549091	-1	None	None
12	LINC00937	ENSG00000226091	ENST00000536539	lincRNA	KNOWN	None	48629	None	None	8536713	8543016	-1	None	None
17	None	ENSG00000265971	ENST00000582741	lincRNA	KNOWN	None	None	None	None	61532354	61533178	1	None	None
2	MIR5702	ENSG00000263363	ENST00000582265	miRNA	KNOWN	None	43503	None	None	227523426	227523509	-1	None	hsa-mir-5702
7	None	ENSG00000199516	ENST00000362646	misc_RNA	NOVEL	None	None	None	None	129594533	129594634	1	None	None
3	None	ENSG00000264614	ENST00000581890	miRNA	KNOWN	None	None	None	None	184970998	184971060	-1	None	None
1	AKR1B1P1	ENSG00000229991	ENST00000429105	processed_pseudogene	KNOWN	None	420	None	None	224762136	224763091	1	ALDRL1	None
3	ZBTB20-AS3	ENSG00000239946	ENST00000498630	lincRNA	KNOWN	None	42422	None	None	114591961	114595361	1	None	None
4	None	ENSG00000250698	ENST00000509184	antisense	KNOWN	None	None	None	None	141049169	141055719	1	None	None
12	None	ENSG00000256948	ENST00000540226	antisense	KNOWN	None	None	None	None	215690	221016	-1	None	None
9	None	ENSG00000227071	ENST00000439876	lincRNA	KNOWN	None	None	None	None	20683303	20684687	-1	None	None
9	None	ENSG00000227071	ENST00000445051	lincRNA	KNOWN	None	None	None	None	20683388	20683937	-1	None	None
7	None	ENSG00000207184	ENST00000384455	misc_RNA	NOVEL	None	None	None	None	129601829	129601916	-1	None	None
2	None	ENSG00000261379	ENST00000567305	lincRNA	KNOWN	None	None	None	None	227668752	227669777	1	None	None
3	None	ENSG00000240084	ENST00000435146	processed_pseudogene	KNOWN	None	None	None	None	165878202	165878492	-1	None	None
5	None	ENSG00000254173	ENST00000522274	lincRNA	KNOWN	None	None	None	None	161851384	161854351	-1	None	None
1	None	ENSG00000233973	ENST00000440762	lincRNA	KNOWN	None	None	None	None	73771853	73804560	1	None	None
1	None	ENSG00000233973	ENST00000444827	lincRNA	KNOWN	None	None	None	None	73771912	73813995	1	None	None
1	None	ENSG00000233973	ENST00000415686	lincRNA	KNOWN	None	None	None	None	73771917	73820934	1	None	None
1	None	ENSG00000233973	ENST00000411903	lincRNA	KNOWN	None	None	None	None	73771922	73773255	1	None	None
1	None	ENSG00000233973	ENST00000452553	lincRNA	KNOWN	None	None	None	None	73772899	73785344	1	None	None
22	SIRPAP1	ENSG00000225774	ENST00000448467	processed_pseudogene	KNOWN	None	9663	None	None	30938523	30940292	1	PTPNS1L	None
22	SIRPAP1	ENSG00000225774	ENST00000422796	processed_pseudogene	KNOWN	None	9663	None	None	30938862	30940070	1	PTPNS1L	None
4	None	ENSG00000268391	ENST00000509488	processed_pseudogene	KNOWN	None	None	None	None	49550935	49551452	-1	None	None
3	None	ENSG00000226022	ENST00000435651	lincRNA	KNOWN	None	None	None	None	6190171	6407572	1	None	None
11	None	ENSG00000255280	ENST00000526967	processed_pseudogene	KNOWN	None	None	None	None	75353645	75353934	1	None	None
14	None	ENSG00000258836	ENST00000555466	processed_pseudogene	KNOWN	None	None	None	None	58567703	58568292	1	None	None
5	RNU6-164P	ENSG00000201474	ENST00000364604	snRNA	KNOWN	None	47127	None	None	161904897	161904999	1	None	None
2	None	ENSG00000212391	ENST00000391089	snoRNA	NOVEL	None	None	None	None	227833705	227833838	-1	None	None
17	None	ENSG00000228979	ENST00000606284	processed_pseudogene	KNOWN	None	None	None	None	61548965	61549454	1	None	None
17	None	ENSG00000228979	ENST00000416490	processed_pseudogene	KNOWN	None	None	None	None	61548965	61549456	1	None	None
2	None	ENSG00000237677	ENST00000419544	pseudogene	KNOWN	None	None	None	None	90294146	90294339	-1	None	None
X	None	ENSG00000229946	ENST00000434960	processed_pseudogene	KNOWN	None	None	None	None	99141738	99142689	-1	None	None
12	None	ENSG00000249695	ENST00000505893	antisense	KNOWN	None	None	None	None	246577	258335	-1	None	None
12	None	ENSG00000249695	ENST00000508953	antisense	KNOWN	None	None	None	None	248700	258281	-1	None	None
7	None	ENSG00000263557	ENST00000577493	miRNA	NOVEL	None	None	None	None	129625487	129625587	-1	None	None
2	None	ENSG00000221608	ENST00000408681	miRNA	NOVEL	None	None	None	None	227988959	227989074	1	None	None
5	None	ENSG00000254186	ENST00000517722	lincRNA	KNOWN	None	None	None	None	161985691	162050467	-1	None	None
22	None	ENSG00000223831	ENST00000432130	sense_intronic	KNOWN	None	None	None	None	30994296	31002674	1	None	None
4	None	ENSG00000252300	ENST00000516491	snoRNA	NOVEL	None	None	None	None	141196195	141196266	-1	None	None
1	None	ENSG00000233384	ENST00000437416	antisense	KNOWN	None	None	None	None	224802998	224803922	-1	None	None
6	LSM2	ENSG00000204392	ENST00000491421	processed_transcript	KNOWN	None	13940	None	None	31765173	31774436	-1	C6orf28	G7b, YBL026W
6	LSM2	ENSG00000204392	ENST00000493387	processed_transcript	KNOWN	None	13940	None	None	31765173	31774437	-1	C6orf28	G7b, YBL026W
6	LSM2	ENSG00000204392	ENST00000470083	processed_transcript	KNOWN	None	13940	None	None	31765173	31774594	-1	C6orf28	G7b, YBL026W
6	LSM2	ENSG00000204392	ENST00000470086	processed_transcript	KNOWN	None	13940	None	None	31765173	31774629	-1	C6orf28	G7b, YBL026W
6	LSM2	ENSG00000204392	ENST00000477182	processed_transcript	KNOWN	None	13940	None	None	31765173	31774743	-1	C6orf28	G7b, YBL026W
6	LSM2	ENSG00000204392	ENST00000375661	protein_coding	KNOWN	CCDS4722	13940	288	95	31765173	31774761	-1	C6orf28	G7b, YBL026W
6	LSM2	ENSG00000204392	ENST00000475835	processed_transcript	KNOWN	None	13940	None	None	31770657	31774379	-1	C6orf28	G7b, YBL026W
X	None	ENSG00000271814	ENST00000606842	misc_RNA	NOVEL	None	None	None	None	12632122	12632316	-1	None	None
4	None	ENSG00000232471	ENST00000513357	unprocessed_pseudogene	KNOWN	None	None	None	None	49552049	49559417	1	None	None
3	None	ENSG00000232958	ENST00000440877	unprocessed_pseudogene	KNOWN	None	None	None	None	6249956	6250258	1	None	None
2	None	ENSG00000234047	ENST00000424815	pseudogene	NOVEL	None	None	None	None	90300126	90300402	1	None	None
11	RN7SL786P	ENSG00000263993	ENST00000579130	misc_RNA	KNOWN	None	46802	None	None	75453174	75453469	1	None	None
14	None	ENSG00000257558	ENST00000546909	processed_pseudogene	KNOWN	None	None	None	None	19443726	19443847	1	None	None
4	None	ENSG00000196951	ENST00000512692	antisense	KNOWN	None	None	None	None	141204880	141294514	-1	None	None
X	None	ENSG00000225469	ENST00000423985	unprocessed_pseudogene	KNOWN	None	None	None	None	141260652	141261775	-1	None	None
22	None	ENSG00000250318	ENST00000510957	unprocessed_pseudogene	KNOWN	None	None	None	None	31049864	31050801	-1	None	None
X	PSMA6P2	ENSG00000229083	ENST00000457574	processed_pseudogene	KNOWN	None	39607	None	None	12843959	12844952	1	None	None
1	None	ENSG00000226419	ENST00000416193	antisense	KNOWN	None	None	None	None	113499037	113506694	1	None	None
1	None	ENSG00000226419	ENST00000435800	antisense	KNOWN	None	None	None	None	113499051	113542118	1	None	None
1	None	ENSG00000226419	ENST00000428411	antisense	KNOWN	None	None	None	None	113499083	113511609	1	None	None
1	None	ENSG00000226419	ENST00000420168	antisense	KNOWN	None	None	None	None	113499142	113511020	1	None	None
HG1063_PATCH	PPIP5K2	ENSG00000262234	ENST00000586639	protein_coding	KNOWN	None	29035	175	57	102455853	102469217	1	HISPPD1	KIAA0433, VIP2
HG1063_PATCH	PPIP5K2	ENSG00000262234	ENST00000576175	protein_coding	KNOWN	None	29035	3669	1222	102455904	102538913	1	HISPPD1	KIAA0433, VIP2
HG1063_PATCH	PPIP5K2	ENSG00000262234	ENST00000586767	protein_coding	PUTATIVE	None	29035	1357	451	102455958	102493993	1	HISPPD1	KIAA0433, VIP2
HG1063_PATCH	PPIP5K2	ENSG00000262234	ENST00000590077	nonsense_mediated_decay	KNOWN	None	29035	156	51	102455966	102474126	1	HISPPD1	KIAA0433, VIP2
HG1063_PATCH	PPIP5K2	ENSG00000262234	ENST00000570566	protein_coding	KNOWN	None	29035	3732	1243	102455968	102538910	1	HISPPD1	KIAA0433, VIP2
HG1063_PATCH	PPIP5K2	ENSG00000262234	ENST00000587081	protein_coding	NOVEL	None	29035	3837	1278	102456094	102538051	1	HISPPD1	KIAA0433, VIP2
HG1063_PATCH	PPIP5K2	ENSG00000262234	ENST00000590004	protein_coding	PUTATIVE	None	29035	174	57	102456312	102482295	1	HISPPD1	KIAA0433, VIP2
HG1063_PATCH	PPIP5K2	ENSG00000262234	ENST00000591947	protein_coding	PUTATIVE	None	29035	630	209	102469253	102484004	1	HISPPD1	KIAA0433, VIP2
HG1063_PATCH	PPIP5K2	ENSG00000262234	ENST00000589959	protein_coding	NOVEL	None	29035	1197	398	102503892	102538940	1	HISPPD1	KIAA0433, VIP2
HG1063_PATCH	PPIP5K2	ENSG00000262234	ENST00000590091	retained_intron	KNOWN	None	29035	None	None	102508958	102509895	1	HISPPD1	KIAA0433, VIP2
HG1063_PATCH	PPIP5K2	ENSG00000262234	ENST00000588181	processed_transcript	KNOWN	None	29035	None	None	102509567	102524598	1	HISPPD1	KIAA0433, VIP2
HG1063_PATCH	PPIP5K2	ENSG00000262234	ENST00000591491	protein_coding	NOVEL	None	29035	1070	355	102509651	102537317	1	HISPPD1	KIAA0433, VIP2
HG1063_PATCH	PPIP5K2	ENSG00000262234	ENST00000591888	protein_coding	NOVEL	None	29035	765	254	102513623	102537237	1	HISPPD1	KIAA0433, VIP2
HG1063_PATCH	PPIP5K2	ENSG00000262234	ENST00000587222	retained_intron	KNOWN	None	29035	None	None	102519947	102526762	1	HISPPD1	KIAA0433, VIP2
HG1063_PATCH	PPIP5K2	ENSG00000262234	ENST00000587025	retained_intron	KNOWN	None	29035	None	None	102530485	102537373	1	HISPPD1	KIAA0433, VIP2
16	None	ENSG00000252461	ENST00000516652	snoRNA	NOVEL	None	None	None	None	28892801	28892928	-1	None	None
3	YBX1P3	ENSG00000240002	ENST00000468366	processed_pseudogene	KNOWN	None	42424	None	None	114649388	114650296	1	None	None
2	None	ENSG00000237474	ENST00000413262	pseudogene	NOVEL	None	None	None	None	90512495	90512771	-1	None	None
7	RNA5SP245	ENSG00000201109	ENST00000364239	rRNA	KNOWN	None	43145	None	None	129667117	129667237	1	RN5S245	None
1	None	ENSG00000234247	ENST00000413707	processed_pseudogene	KNOWN	None	None	None	None	224848875	224849588	-1	None	None
X	None	ENSG00000252296	ENST00000516487	snoRNA	NOVEL	None	None	None	None	99355082	99355219	1	None	None
11	None	ENSG00000237654	ENST00000443319	antisense	KNOWN	None	None	None	None	131372653	131410510	-1	None	None
11	None	ENSG00000237654	ENST00000414466	antisense	KNOWN	None	None	None	None	131403751	131410761	-1	None	None
11	None	ENSG00000237654	ENST00000414856	antisense	KNOWN	None	None	None	None	131406370	131410492	-1	None	None
16	None	ENSG00000260853	ENST00000569974	antisense	KNOWN	None	None	None	None	28968008	28978204	-1	None	None
16	None	ENSG00000260853	ENST00000568057	antisense	KNOWN	None	None	None	None	28968059	28969158	-1	None	None
2	None	ENSG00000236432	ENST00000439598	antisense	KNOWN	None	None	None	None	228085768	228189880	-1	None	None
2	None	ENSG00000236432	ENST00000606119	antisense	KNOWN	None	None	None	None	228102493	228123914	-1	None	None
2	None	ENSG00000236432	ENST00000437673	antisense	KNOWN	None	None	None	None	228102824	228129889	-1	None	None
2	None	ENSG00000236432	ENST00000396588	antisense	KNOWN	None	None	None	None	228110426	228189902	-1	None	None
2	None	ENSG00000236432	ENST00000433324	antisense	KNOWN	None	None	None	None	228133461	228189917	-1	None	None
17	ACE3P	ENSG00000224353	ENST00000423435	transcribed_unprocessed_pseudogene	KNOWN	None	44365	None	None	61584417	61597167	1	None	None
2	None	ENSG00000237261	ENST00000415635	pseudogene	NOVEL	None	None	None	None	90532368	90532626	1	None	None
7	None	ENSG00000229196	ENST00000469264	antisense	KNOWN	None	None	None	None	129781571	129782379	1	None	None
7	None	ENSG00000229196	ENST00000470348	antisense	KNOWN	None	None	None	None	129781578	129782455	1	None	None
14	None	ENSG00000239200	ENST00000484916	processed_pseudogene	KNOWN	None	None	None	None	19468509	19468885	1	None	None
5	None	ENSG00000250337	ENST00000512067	lincRNA	KNOWN	None	None	None	None	27472399	27486253	1	None	None
5	None	ENSG00000250337	ENST00000510165	lincRNA	KNOWN	None	None	None	None	27472399	27496508	1	None	None
5	None	ENSG00000250337	ENST00000505775	lincRNA	KNOWN	None	None	None	None	27472414	27494425	1	None	None
5	None	ENSG00000250337	ENST00000514844	lincRNA	KNOWN	None	None	None	None	27472414	27494425	1	None	None
5	None	ENSG00000250337	ENST00000503107	lincRNA	KNOWN	None	None	None	None	27472414	27494425	1	None	None
5	None	ENSG00000250337	ENST00000514255	lincRNA	KNOWN	None	None	None	None	27475772	27485293	1	None	None
X	MRPL35P4	ENSG00000230691	ENST00000453682	processed_pseudogene	KNOWN	None	29707	None	None	12862984	12863549	-1	None	None
2	None	ENSG00000226615	ENST00000428749	processed_pseudogene	KNOWN	None	None	None	None	91635931	91636149	1	None	None
2	SOWAHC	ENSG00000198142	ENST00000356454	protein_coding	KNOWN	CCDS33270	26149	1578	525	110371911	110376563	1	C2orf26, ANKRD57	FLJ21870
4	None	ENSG00000251630	ENST00000416712	processed_pseudogene	KNOWN	None	None	None	None	49563302	49563487	-1	None	None
11	None	ENSG00000247867	ENST00000499390	antisense	KNOWN	None	None	None	None	75469500	75479692	-1	None	None
5	ARL2BPP5	ENSG00000254351	ENST00000523141	processed_pseudogene	KNOWN	None	39449	None	None	162188839	162189319	1	None	None
1	FMO10P	ENSG00000234984	ENST00000455032	unitary_pseudogene	KNOWN	None	32211	None	None	166635122	166651433	1	None	None
X	None	ENSG00000236988	ENST00000412509	processed_pseudogene	KNOWN	None	None	None	None	99404781	99406338	-1	None	None
7	GPR146	ENSG00000164849	ENST00000444847	protein_coding	KNOWN	None	21718	946	314	1084212	1098097	1	None	PGR8
7	GPR146	ENSG00000164849	ENST00000481403	processed_transcript	KNOWN	None	21718	None	None	1084241	1085452	1	None	PGR8
7	GPR146	ENSG00000164849	ENST00000474396	processed_transcript	KNOWN	None	21718	None	None	1094915	1096188	1	None	PGR8
7	GPR146	ENSG00000164849	ENST00000397095	protein_coding	KNOWN	CCDS5321	21718	1002	333	1094921	1098894	1	None	PGR8
7	GPR146	ENSG00000164849	ENST00000427680	protein_coding	PUTATIVE	None	21718	116	37	1096293	1097267	1	None	PGR8
7	GPR146	ENSG00000164849	ENST00000297468	protein_coding	KNOWN	CCDS5321	21718	1002	333	1097141	1098897	1	None	PGR8
15	None	ENSG00000241818	ENST00000486285	antisense	KNOWN	None	None	None	None	32948285	32961293	-1	None	None
15	None	ENSG00000241818	ENST00000460684	antisense	KNOWN	None	None	None	None	32957903	32965266	-1	None	None
1	ALDH4A1	ENSG00000159423	ENST00000290597	protein_coding	KNOWN	CCDS188	406	1692	563	19197926	19229047	-1	ALDH4	P5CDh
1	ALDH4A1	ENSG00000159423	ENST00000375341	protein_coding	KNOWN	CCDS188	406	1692	563	19197926	19229275	-1	ALDH4	P5CDh
1	ALDH4A1	ENSG00000159423	ENST00000454547	processed_transcript	KNOWN	None	406	None	None	19209054	19212113	-1	ALDH4	P5CDh
1	ALDH4A1	ENSG00000159423	ENST00000432718	protein_coding	NOVEL	None	406	643	213	19209605	19229218	-1	ALDH4	P5CDh
1	ALDH4A1	ENSG00000159423	ENST00000538839	protein_coding	KNOWN	None	406	1539	512	19197926	19229022	-1	ALDH4	P5CDh
1	ALDH4A1	ENSG00000159423	ENST00000538309	protein_coding	KNOWN	CCDS53272	406	1512	503	19197926	19217385	-1	ALDH4	P5CDh
2	IGKV1OR2-118	ENSG00000219041	ENST00000455863	IG_V_pseudogene	KNOWN	None	37488	None	None	91679087	91679373	1	None	IGKV1/OR2-118
2	IGKV1OR2-118	ENSG00000219041	ENST00000405516	IG_V_pseudogene	KNOWN	None	37488	None	None	91679096	91679734	1	None	IGKV1/OR2-118
13	RNY1P2	ENSG00000201690	ENST00000364820	misc_RNA	KNOWN	None	42479	None	None	102669303	102669419	-1	None	None
1	None	ENSG00000223479	ENST00000424953	lincRNA	KNOWN	None	None	None	None	74100899	74175264	1	None	None
1	None	ENSG00000223479	ENST00000436262	lincRNA	KNOWN	None	None	None	None	74175051	74180897	1	None	None
6	None	ENSG00000268923	ENST00000594256	protein_coding	NOVEL	None	None	69	22	31973945	31974881	-1	None	None
1	None	ENSG00000229400	ENST00000431691	antisense	KNOWN	None	None	None	None	224905206	224918364	-1	None	None
11	ROBO4	ENSG00000154133	ENST00000306534	protein_coding	KNOWN	CCDS8455	17985	3024	1007	124753587	124768177	-1	None	FLJ20798, MRB, ECSM4
11	ROBO4	ENSG00000154133	ENST00000534407	retained_intron	KNOWN	None	17985	None	None	124754114	124762921	-1	None	FLJ20798, MRB, ECSM4
11	ROBO4	ENSG00000154133	ENST00000533054	protein_coding	PUTATIVE	None	17985	2589	862	124754607	124767764	-1	None	FLJ20798, MRB, ECSM4
11	ROBO4	ENSG00000154133	ENST00000532216	retained_intron	KNOWN	None	17985	None	None	124756276	124763848	-1	None	FLJ20798, MRB, ECSM4
11	ROBO4	ENSG00000154133	ENST00000525182	retained_intron	KNOWN	None	17985	None	None	124761384	124764341	-1	None	FLJ20798, MRB, ECSM4
11	ROBO4	ENSG00000154133	ENST00000532300	retained_intron	KNOWN	None	17985	None	None	124765687	124766742	-1	None	FLJ20798, MRB, ECSM4
11	ROBO4	ENSG00000154133	ENST00000526899	processed_transcript	KNOWN	None	17985	None	None	124765696	124768390	-1	None	FLJ20798, MRB, ECSM4
11	ROBO4	ENSG00000154133	ENST00000527279	processed_transcript	KNOWN	None	17985	None	None	124765757	124768396	-1	None	FLJ20798, MRB, ECSM4
11	ROBO4	ENSG00000154133	ENST00000529941	processed_transcript	KNOWN	None	17985	None	None	124766512	124767742	-1	None	FLJ20798, MRB, ECSM4
11	ROBO4	ENSG00000154133	ENST00000533337	retained_intron	KNOWN	None	17985	None	None	124766668	124767764	-1	None	FLJ20798, MRB, ECSM4
13	MIR4705	ENSG00000264482	ENST00000577547	miRNA	KNOWN	None	41567	None	None	102698284	102698354	-1	None	hsa-mir-4705
11	None	ENSG00000254864	ENST00000530963	antisense	KNOWN	None	None	None	None	7590097	7593277	-1	None	None
17	RNU6-288P	ENSG00000200560	ENST00000363690	snRNA	KNOWN	None	47251	None	None	61650603	61650706	-1	None	None
4	SNX18P24	ENSG00000251539	ENST00000505249	processed_pseudogene	KNOWN	None	39632	None	None	49563496	49564166	1	None	None
3	TMEM30C	ENSG00000235156	ENST00000476804	protein_coding	KNOWN	None	30443	205	67	99904668	99909183	1	None	CDC50C
3	TMEM30C	ENSG00000235156	ENST00000489487	processed_transcript	KNOWN	None	30443	None	None	99904668	99913035	1	None	CDC50C
3	TMEM30C	ENSG00000235156	ENST00000429523	protein_coding	KNOWN	None	30443	342	113	99904531	99909036	1	None	CDC50C
12	None	ENSG00000199895	ENST00000363025	misc_RNA	NOVEL	None	None	None	None	92564129	92564229	-1	None	None
1	None	ENSG00000236066	ENST00000413231	lincRNA	KNOWN	None	None	None	None	113550876	113589677	1	None	None
1	None	ENSG00000236066	ENST00000451149	lincRNA	KNOWN	None	None	None	None	113576295	113589677	1	None	None
1	MIB2	ENSG00000197530	ENST00000520777	protein_coding	KNOWN	CCDS53261	30577	3201	1066	1550795	1565985	1	ZZANK1	skeletrophin, ZZZ5, FLJ39787
1	MIB2	ENSG00000197530	ENST00000355826	protein_coding	KNOWN	CCDS53263	30577	3171	1056	1550801	1565990	1	ZZANK1	skeletrophin, ZZZ5, FLJ39787
1	MIB2	ENSG00000197530	ENST00000518681	protein_coding	KNOWN	CCDS53262	30577	3018	1005	1550817	1565985	1	ZZANK1	skeletrophin, ZZZ5, FLJ39787
1	MIB2	ENSG00000197530	ENST00000505820	protein_coding	KNOWN	CCDS41224	30577	3213	1070	1550823	1565985	1	ZZANK1	skeletrophin, ZZZ5, FLJ39787
1	MIB2	ENSG00000197530	ENST00000479659	retained_intron	KNOWN	None	30577	None	None	1550834	1565984	1	ZZANK1	skeletrophin, ZZZ5, FLJ39787
1	MIB2	ENSG00000197530	ENST00000489635	nonsense_mediated_decay	KNOWN	None	30577	387	128	1550876	1565984	1	ZZANK1	skeletrophin, ZZZ5, FLJ39787
1	MIB2	ENSG00000197530	ENST00000511502	retained_intron	KNOWN	None	30577	None	None	1550894	1565984	1	ZZANK1	skeletrophin, ZZZ5, FLJ39787
1	MIB2	ENSG00000197530	ENST00000477990	retained_intron	KNOWN	None	30577	None	None	1550896	1554590	1	ZZANK1	skeletrophin, ZZZ5, FLJ39787
1	MIB2	ENSG00000197530	ENST00000514363	nonsense_mediated_decay	KNOWN	None	30577	345	114	1550910	1560420	1	ZZANK1	skeletrophin, ZZZ5, FLJ39787
1	MIB2	ENSG00000197530	ENST00000487053	nonsense_mediated_decay	KNOWN	None	30577	2451	816	1551259	1565984	1	ZZANK1	skeletrophin, ZZZ5, FLJ39787
1	MIB2	ENSG00000197530	ENST00000502470	nonsense_mediated_decay	KNOWN	None	30577	255	84	1551267	1560212	1	ZZANK1	skeletrophin, ZZZ5, FLJ39787
1	MIB2	ENSG00000197530	ENST00000378712	protein_coding	PUTATIVE	CCDS53264	30577	2262	753	1551285	1565984	1	ZZANK1	skeletrophin, ZZZ5, FLJ39787
1	MIB2	ENSG00000197530	ENST00000507082	retained_intron	KNOWN	None	30577	None	None	1551294	1553278	1	ZZANK1	skeletrophin, ZZZ5, FLJ39787
1	MIB2	ENSG00000197530	ENST00000463492	processed_transcript	KNOWN	None	30577	None	None	1551348	1552703	1	ZZANK1	skeletrophin, ZZZ5, FLJ39787
1	MIB2	ENSG00000197530	ENST00000510793	protein_coding	PUTATIVE	None	30577	526	174	1551654	1560281	1	ZZANK1	skeletrophin, ZZZ5, FLJ39787
1	MIB2	ENSG00000197530	ENST00000504599	protein_coding	PUTATIVE	None	30577	2910	969	1551690	1565984	1	ZZANK1	skeletrophin, ZZZ5, FLJ39787
1	MIB2	ENSG00000197530	ENST00000507229	retained_intron	KNOWN	None	30577	None	None	1551691	1564543	1	ZZANK1	skeletrophin, ZZZ5, FLJ39787
1	MIB2	ENSG00000197530	ENST00000503789	protein_coding	PUTATIVE	None	30577	446	147	1552788	1560201	1	ZZANK1	skeletrophin, ZZZ5, FLJ39787
1	MIB2	ENSG00000197530	ENST00000378708	protein_coding	PUTATIVE	None	30577	2760	919	1552940	1565984	1	ZZANK1	skeletrophin, ZZZ5, FLJ39787
1	MIB2	ENSG00000197530	ENST00000506488	nonsense_mediated_decay	KNOWN	None	30577	1188	395	1552957	1565912	1	ZZANK1	skeletrophin, ZZZ5, FLJ39787
1	MIB2	ENSG00000197530	ENST00000512004	processed_transcript	KNOWN	None	30577	None	None	1558502	1560239	1	ZZANK1	skeletrophin, ZZZ5, FLJ39787
1	MIB2	ENSG00000197530	ENST00000508455	retained_intron	KNOWN	None	30577	None	None	1558961	1559589	1	ZZANK1	skeletrophin, ZZZ5, FLJ39787
1	MIB2	ENSG00000197530	ENST00000514234	protein_coding	NOVEL	None	30577	2488	828	1559182	1565984	1	ZZANK1	skeletrophin, ZZZ5, FLJ39787
1	MIB2	ENSG00000197530	ENST00000467597	retained_intron	KNOWN	None	30577	None	None	1560124	1561179	1	ZZANK1	skeletrophin, ZZZ5, FLJ39787
1	MIB2	ENSG00000197530	ENST00000508148	retained_intron	KNOWN	None	30577	None	None	1560467	1561143	1	ZZANK1	skeletrophin, ZZZ5, FLJ39787
1	MIB2	ENSG00000197530	ENST00000486072	nonsense_mediated_decay	KNOWN	None	30577	174	57	1560947	1562309	1	ZZANK1	skeletrophin, ZZZ5, FLJ39787
1	MIB2	ENSG00000197530	ENST00000505370	retained_intron	KNOWN	None	30577	None	None	1562240	1563210	1	ZZANK1	skeletrophin, ZZZ5, FLJ39787
1	MIB2	ENSG00000197530	ENST00000473511	retained_intron	KNOWN	None	30577	None	None	1562840	1564932	1	ZZANK1	skeletrophin, ZZZ5, FLJ39787
1	MIB2	ENSG00000197530	ENST00000464570	retained_intron	KNOWN	None	30577	None	None	1562902	1564650	1	ZZANK1	skeletrophin, ZZZ5, FLJ39787
1	MIB2	ENSG00000197530	ENST00000483015	protein_coding	NOVEL	None	30577	999	332	1563869	1565969	1	ZZANK1	skeletrophin, ZZZ5, FLJ39787
1	MIB2	ENSG00000197530	ENST00000511910	retained_intron	KNOWN	None	30577	None	None	1564486	1565983	1	ZZANK1	skeletrophin, ZZZ5, FLJ39787
1	MIB2	ENSG00000197530	ENST00000470373	retained_intron	KNOWN	None	30577	None	None	1564853	1565985	1	ZZANK1	skeletrophin, ZZZ5, FLJ39787
1	MIB2	ENSG00000197530	ENST00000357210	protein_coding	KNOWN	None	30577	3042	1013	1550795	1565990	1	ZZANK1	skeletrophin, ZZZ5, FLJ39787
1	MIB2	ENSG00000197530	ENST00000360522	protein_coding	KNOWN	None	30577	2937	978	1550795	1565990	1	ZZANK1	skeletrophin, ZZZ5, FLJ39787
1	MIB2	ENSG00000197530	ENST00000378710	protein_coding	KNOWN	None	30577	2934	977	1550795	1565990	1	ZZANK1	skeletrophin, ZZZ5, FLJ39787
1	RNA5SP50	ENSG00000200601	ENST00000363731	rRNA	KNOWN	None	42827	None	None	74215200	74215306	-1	RN5S50	None
13	RPL39P29	ENSG00000236860	ENST00000447779	processed_pseudogene	KNOWN	None	35808	None	None	102915396	102915552	-1	None	None
12	None	ENSG00000200953	ENST00000364083	misc_RNA	NOVEL	None	None	None	None	51550651	51550760	-1	None	None
17	None	ENSG00000270587	ENST00000603263	processed_pseudogene	KNOWN	None	None	None	None	61688132	61688544	-1	None	None
17	HDAC5	ENSG00000108840	ENST00000225983	protein_coding	KNOWN	CCDS32663	14068	3372	1123	42154114	42201006	-1	None	KIAA0600, NY-CO-9, FLJ90614
17	HDAC5	ENSG00000108840	ENST00000336057	protein_coding	NOVEL	None	14068	3114	1037	42154122	42200986	-1	None	KIAA0600, NY-CO-9, FLJ90614
17	HDAC5	ENSG00000108840	ENST00000586802	protein_coding	KNOWN	CCDS45696	14068	3369	1122	42155662	42200643	-1	None	KIAA0600, NY-CO-9, FLJ90614
17	HDAC5	ENSG00000108840	ENST00000586339	retained_intron	KNOWN	None	14068	None	None	42155976	42156704	-1	None	KIAA0600, NY-CO-9, FLJ90614
17	HDAC5	ENSG00000108840	ENST00000592385	retained_intron	KNOWN	None	14068	None	None	42158939	42169551	-1	None	KIAA0600, NY-CO-9, FLJ90614
17	HDAC5	ENSG00000108840	ENST00000593013	retained_intron	KNOWN	None	14068	None	None	42158965	42162723	-1	None	KIAA0600, NY-CO-9, FLJ90614
17	HDAC5	ENSG00000108840	ENST00000588419	retained_intron	KNOWN	None	14068	None	None	42159952	42164123	-1	None	KIAA0600, NY-CO-9, FLJ90614
17	HDAC5	ENSG00000108840	ENST00000588261	protein_coding	NOVEL	None	14068	846	281	42165816	42170555	-1	None	KIAA0600, NY-CO-9, FLJ90614
17	HDAC5	ENSG00000108840	ENST00000587776	retained_intron	KNOWN	None	14068	None	None	42168661	42170873	-1	None	KIAA0600, NY-CO-9, FLJ90614
17	HDAC5	ENSG00000108840	ENST00000588703	protein_coding	PUTATIVE	None	14068	238	78	42171032	42201070	-1	None	KIAA0600, NY-CO-9, FLJ90614
17	HDAC5	ENSG00000108840	ENST00000591714	protein_coding	PUTATIVE	None	14068	205	67	42171149	42188709	-1	None	KIAA0600, NY-CO-9, FLJ90614
17	HDAC5	ENSG00000108840	ENST00000587135	protein_coding	PUTATIVE	None	14068	121	39	42171149	42200996	-1	None	KIAA0600, NY-CO-9, FLJ90614
17	HDAC5	ENSG00000108840	ENST00000393622	protein_coding	KNOWN	CCDS45696	14068	3369	1122	42154121	42201014	-1	None	KIAA0600, NY-CO-9, FLJ90614
14	UBA52P3	ENSG00000243023	ENST00000491303	processed_pseudogene	KNOWN	None	20056	None	None	58607997	58608378	1	None	None
1	None	ENSG00000251933	ENST00000516124	miRNA	NOVEL	None	None	None	None	224910169	224910243	1	None	None
17	ITGB3	ENSG00000259207	ENST00000559488	protein_coding	KNOWN	CCDS11511	6156	2367	788	45331212	45389182	1	GP3A	CD61, GPIIIa
17	ITGB3	ENSG00000259207	ENST00000571680	protein_coding	PUTATIVE	None	6156	1332	443	45331219	45368853	1	GP3A	CD61, GPIIIa
17	ITGB3	ENSG00000259207	ENST00000573377	nonsense_mediated_decay	KNOWN	None	6156	108	35	45368419	45369537	1	GP3A	CD61, GPIIIa
17	ITGB3	ENSG00000259207	ENST00000435993	protein_coding	KNOWN	None	6156	2256	751	45331263	45421658	1	GP3A	CD61, GPIIIa
1	RNU4ATAC8P	ENSG00000252005	ENST00000516196	snRNA	KNOWN	None	46894	None	None	74349396	74349505	1	None	None
2	None	ENSG00000227114	ENST00000432762	processed_pseudogene	KNOWN	None	None	None	None	91685386	91685524	-1	None	None
12	RNU6-199P	ENSG00000199824	ENST00000362954	snRNA	KNOWN	None	47162	None	None	51556684	51556790	1	None	None
11	None	ENSG00000265910	ENST00000577816	miRNA	NOVEL	None	None	None	None	47407633	47407733	-1	None	None
11	NUDT8	ENSG00000167799	ENST00000301490	protein_coding	KNOWN	CCDS8174	8055	423	140	67395409	67397401	-1	None	FLJ41567
11	NUDT8	ENSG00000167799	ENST00000376693	protein_coding	KNOWN	CCDS58151	8055	711	236	67395410	67397392	-1	None	FLJ41567
11	NUDT8	ENSG00000167799	ENST00000534054	retained_intron	KNOWN	None	8055	None	None	67395410	67397392	-1	None	FLJ41567
17	None	ENSG00000263883	ENST00000580496	transcribed_processed_pseudogene	KNOWN	None	None	None	None	61713961	61714473	1	None	None
3	None	ENSG00000189229	ENST00000433639	lincRNA	KNOWN	None	None	None	None	6532166	6777816	1	None	None
3	None	ENSG00000189229	ENST00000414438	lincRNA	KNOWN	None	None	None	None	6532421	6625777	1	None	None
3	None	ENSG00000189229	ENST00000414603	lincRNA	KNOWN	None	None	None	None	6532490	6599646	1	None	None
3	None	ENSG00000189229	ENST00000342990	lincRNA	KNOWN	None	None	None	None	6549468	6736485	1	None	None
3	None	ENSG00000189229	ENST00000432743	lincRNA	KNOWN	None	None	None	None	6736410	6739557	1	None	None
1	None	ENSG00000237324	ENST00000415549	antisense	KNOWN	None	None	None	None	74807263	74844486	-1	None	None
3	ZBTB20-AS4	ENSG00000242767	ENST00000472323	lincRNA	KNOWN	None	42423	None	None	114819270	114821908	1	None	None
3	None	ENSG00000239181	ENST00000459012	miRNA	NOVEL	None	None	None	None	42463638	42463730	-1	None	None
3	None	ENSG00000234723	ENST00000448148	unprocessed_pseudogene	KNOWN	None	None	None	None	22711692	22712202	-1	None	None
17	CEP112	ENSG00000154240	ENST00000535342	protein_coding	KNOWN	CCDS32710	28514	2868	955	63631656	64188197	-1	CCDC46	MGC33887
17	CEP112	ENSG00000154240	ENST00000581739	protein_coding	NOVEL	None	28514	318	105	63631934	63746842	-1	CCDC46	MGC33887
17	CEP112	ENSG00000154240	ENST00000583466	processed_transcript	KNOWN	None	28514	None	None	63631934	63822299	-1	CCDC46	MGC33887
17	CEP112	ENSG00000154240	ENST00000317442	protein_coding	KNOWN	CCDS32711	28514	636	211	63631934	63822661	-1	CCDC46	MGC33887
17	CEP112	ENSG00000154240	ENST00000580694	processed_transcript	KNOWN	None	28514	None	None	63631934	63869779	-1	CCDC46	MGC33887
17	CEP112	ENSG00000154240	ENST00000581734	nonsense_mediated_decay	KNOWN	None	28514	162	53	63631939	63739242	-1	CCDC46	MGC33887
17	CEP112	ENSG00000154240	ENST00000537949	protein_coding	NOVEL	None	28514	2742	913	63632031	64187815	-1	CCDC46	MGC33887
17	CEP112	ENSG00000154240	ENST00000585168	protein_coding	PUTATIVE	None	28514	140	45	63632732	63637143	-1	CCDC46	MGC33887
17	CEP112	ENSG00000154240	ENST00000582795	processed_transcript	KNOWN	None	28514	None	None	63637176	63869789	-1	CCDC46	MGC33887
17	CEP112	ENSG00000154240	ENST00000580482	processed_transcript	KNOWN	None	28514	None	None	63684348	63869766	-1	CCDC46	MGC33887
17	CEP112	ENSG00000154240	ENST00000582760	retained_intron	KNOWN	None	28514	None	None	63739233	63747222	-1	CCDC46	MGC33887
17	CEP112	ENSG00000154240	ENST00000582861	processed_transcript	KNOWN	None	28514	None	None	63746788	63869766	-1	CCDC46	MGC33887
17	CEP112	ENSG00000154240	ENST00000578878	processed_transcript	KNOWN	None	28514	None	None	63793234	63822412	-1	CCDC46	MGC33887
17	CEP112	ENSG00000154240	ENST00000584627	processed_transcript	KNOWN	None	28514	None	None	63847979	63899433	-1	CCDC46	MGC33887
17	CEP112	ENSG00000154240	ENST00000584987	processed_transcript	KNOWN	None	28514	None	None	63847986	63937684	-1	CCDC46	MGC33887
17	CEP112	ENSG00000154240	ENST00000578971	processed_transcript	KNOWN	None	28514	None	None	63909563	63923767	-1	CCDC46	MGC33887
17	CEP112	ENSG00000154240	ENST00000583358	protein_coding	KNOWN	None	28514	1697	564	64001847	64187973	-1	CCDC46	MGC33887
17	CEP112	ENSG00000154240	ENST00000580624	retained_intron	KNOWN	None	28514	None	None	64172772	64188202	-1	CCDC46	MGC33887
17	CEP112	ENSG00000154240	ENST00000577322	protein_coding	PUTATIVE	None	28514	42	13	64173032	64178533	-1	CCDC46	MGC33887
17	CEP112	ENSG00000154240	ENST00000392769	protein_coding	KNOWN	CCDS32710	28514	2868	955	63631659	64187987	-1	CCDC46	MGC33887
17	CEP112	ENSG00000154240	ENST00000541355	protein_coding	KNOWN	None	28514	1560	519	63631939	64066062	-1	CCDC46	MGC33887
14	RN7SL598P	ENSG00000243700	ENST00000494391	misc_RNA	KNOWN	None	46614	None	None	58646489	58646779	1	None	None
13	FGF14-IT1	ENSG00000243319	ENST00000607251	lincRNA	KNOWN	None	42774	None	None	102944677	103046869	-1	None	None
13	FGF14-IT1	ENSG00000243319	ENST00000437115	lincRNA	KNOWN	None	42774	None	None	102945037	103019749	-1	None	None
1	None	ENSG00000225334	ENST00000416908	antisense	KNOWN	None	None	None	None	224954602	224961043	1	None	None
1	None	ENSG00000238198	ENST00000421157	lincRNA	KNOWN	None	None	None	None	113554309	113615727	-1	None	None
11	MIR4487	ENSG00000264583	ENST00000582237	miRNA	KNOWN	None	41851	None	None	47422521	47422593	1	None	hsa-mir-4487
2	None	ENSG00000203344	ENST00000366169	pseudogene	NOVEL	None	None	None	None	91693219	91693945	-1	None	None
2	None	ENSG00000217075	ENST00000406220	protein_coding	PUTATIVE	None	None	228	75	36758948	36779411	-1	None	None
11	None	ENSG00000255094	ENST00000525309	lincRNA	KNOWN	None	None	None	None	28000216	28041122	-1	None	None
X	None	ENSG00000250625	ENST00000503029	unprocessed_pseudogene	KNOWN	None	None	None	None	141282138	141283276	-1	None	None
17	RN7SL805P	ENSG00000264756	ENST00000581353	misc_RNA	KNOWN	None	46821	None	None	61917343	61917644	1	None	None
3	None	ENSG00000235787	ENST00000424997	processed_pseudogene	KNOWN	None	None	None	None	42511132	42511371	1	None	None
1	None	ENSG00000233894	ENST00000442876	antisense	KNOWN	None	None	None	None	74933879	74934808	1	None	None
1	None	ENSG00000233894	ENST00000411417	antisense	KNOWN	None	None	None	None	74934197	74935227	1	None	None
14	RNASE9	ENSG00000188655	ENST00000338904	protein_coding	KNOWN	CCDS32036	20673	618	205	21024252	21029090	-1	None	h461
14	RNASE9	ENSG00000188655	ENST00000554964	protein_coding	KNOWN	CCDS32036	20673	618	205	21024252	21029090	-1	None	h461
14	RNASE9	ENSG00000188655	ENST00000555230	protein_coding	KNOWN	CCDS32036	20673	618	205	21024252	21029090	-1	None	h461
14	RNASE9	ENSG00000188655	ENST00000557068	protein_coding	KNOWN	CCDS32036	20673	618	205	21024252	21029090	-1	None	h461
14	RNASE9	ENSG00000188655	ENST00000404716	protein_coding	PUTATIVE	CCDS53883	20673	633	210	21024252	21029090	-1	None	h461
14	RNASE9	ENSG00000188655	ENST00000556208	protein_coding	PUTATIVE	CCDS53883	20673	633	210	21024252	21029090	-1	None	h461
14	RNASE9	ENSG00000188655	ENST00000553541	protein_coding	KNOWN	CCDS32036	20673	618	205	21024252	21029090	-1	None	h461
14	RNASE9	ENSG00000188655	ENST00000429244	protein_coding	KNOWN	CCDS32036	20673	618	205	21024252	21029090	-1	None	h461
14	RNASE9	ENSG00000188655	ENST00000553706	protein_coding	PUTATIVE	CCDS55904	20673	633	210	21024252	21029090	-1	None	h461
14	RNASE9	ENSG00000188655	ENST00000557209	protein_coding	PUTATIVE	CCDS55904	20673	633	210	21024252	21029090	-1	None	h461
21	C21orf59	ENSG00000159079	ENST00000431599	protein_coding	PUTATIVE	None	1301	239	78	33964389	33975547	-1	C21orf48	FLJ20467
21	C21orf59	ENSG00000159079	ENST00000440966	protein_coding	NOVEL	None	1301	777	258	33973977	33984662	-1	C21orf48	FLJ20467
21	C21orf59	ENSG00000159079	ENST00000382549	protein_coding	PUTATIVE	None	1301	738	245	33973977	33984896	-1	C21orf48	FLJ20467
21	C21orf59	ENSG00000159079	ENST00000290155	protein_coding	KNOWN	CCDS13617	1301	873	290	33973977	33985176	-1	C21orf48	FLJ20467
21	C21orf59	ENSG00000159079	ENST00000425336	protein_coding	PUTATIVE	None	1301	352	116	33974013	33976510	-1	C21orf48	FLJ20467
21	C21orf59	ENSG00000159079	ENST00000300260	nonsense_mediated_decay	KNOWN	None	1301	417	138	33974095	33984913	-1	C21orf48	FLJ20467
21	C21orf59	ENSG00000159079	ENST00000483315	retained_intron	KNOWN	None	1301	None	None	33974120	33976823	-1	C21orf48	FLJ20467
21	C21orf59	ENSG00000159079	ENST00000458138	protein_coding	NOVEL	None	1301	551	182	33975535	33984865	-1	C21orf48	FLJ20467
21	C21orf59	ENSG00000159079	ENST00000540881	protein_coding	KNOWN	None	1301	570	189	33974756	33984896	-1	C21orf48	FLJ20467
8	None	ENSG00000254034	ENST00000520055	antisense	KNOWN	None	None	None	None	28655659	28656986	1	None	None
7	MIR671	ENSG00000211517	ENST00000390183	miRNA	KNOWN	None	33134	None	None	150935507	150935624	1	MIRN671	hsa-mir-671
1	RLIMP2	ENSG00000237278	ENST00000427891	processed_pseudogene	KNOWN	None	39683	None	None	113667943	113669505	-1	None	None
1	None	ENSG00000234476	ENST00000428642	sense_intronic	KNOWN	None	None	None	None	225634945	225653045	-1	None	None
1	None	ENSG00000234476	ENST00000433058	sense_intronic	KNOWN	None	None	None	None	225635693	225652985	-1	None	None
20	None	ENSG00000203999	ENST00000371639	processed_transcript	KNOWN	None	None	None	None	48909257	48931459	1	None	None
20	None	ENSG00000203999	ENST00000457853	processed_transcript	KNOWN	None	None	None	None	48927511	48928551	1	None	None
8	None	ENSG00000253423	ENST00000524071	processed_pseudogene	KNOWN	None	None	None	None	84113187	84114666	-1	None	None
3	None	ENSG00000271235	ENST00000605097	processed_pseudogene	KNOWN	None	None	None	None	22852881	22853538	-1	None	None
11	RNU6-1302P	ENSG00000252327	ENST00000516518	snRNA	KNOWN	None	48265	None	None	47461557	47461617	-1	None	None
12	None	ENSG00000271065	ENST00000604939	antisense	KNOWN	None	None	None	None	51815740	51818395	-1	None	None
14	None	ENSG00000258519	ENST00000555129	processed_pseudogene	KNOWN	None	None	None	None	58651294	58652225	1	None	None
19	ZNF526	ENSG00000167625	ENST00000301215	protein_coding	KNOWN	CCDS12598	29415	2013	670	42724423	42732353	1	None	KIAA1951, MGC4267
19	ZNF526	ENSG00000167625	ENST00000597945	protein_coding	KNOWN	None	29415	206	67	42724529	42728761	1	None	KIAA1951, MGC4267
14	None	ENSG00000258689	ENST00000553682	lincRNA	KNOWN	None	None	None	None	71165415	71178870	1	None	None
1	None	ENSG00000234497	ENST00000416017	antisense	KNOWN	None	None	None	None	75055419	75087403	1	None	None
2	None	ENSG00000214164	ENST00000419163	unprocessed_pseudogene	KNOWN	None	None	None	None	91723049	91723916	-1	None	None
11	None	ENSG00000254826	ENST00000524768	sense_intronic	KNOWN	None	None	None	None	75486949	75487974	1	None	None
3	RANP7	ENSG00000226183	ENST00000418085	processed_pseudogene	KNOWN	None	39862	None	None	22945626	22946642	1	None	None
17	TCAM1P	ENSG00000240280	ENST00000463377	processed_transcript	PUTATIVE	None	30707	None	None	61926652	61939891	1	TCAM1	None
17	TCAM1P	ENSG00000240280	ENST00000469014	processed_transcript	KNOWN	None	30707	None	None	61926673	61936914	1	TCAM1	None
17	TCAM1P	ENSG00000240280	ENST00000482005	processed_transcript	KNOWN	None	30707	None	None	61932136	61940365	1	TCAM1	None
17	TCAM1P	ENSG00000240280	ENST00000466125	processed_transcript	KNOWN	None	30707	None	None	61932180	61936818	1	TCAM1	None
17	TCAM1P	ENSG00000240280	ENST00000478379	processed_transcript	KNOWN	None	30707	None	None	61934376	61941739	1	TCAM1	None
17	TCAM1P	ENSG00000240280	ENST00000485295	unitary_pseudogene	KNOWN	None	30707	None	None	61934501	61939891	1	TCAM1	None
17	TCAM1P	ENSG00000240280	ENST00000476374	processed_transcript	PUTATIVE	None	30707	None	None	61937549	61940278	1	TCAM1	None
7	KIAA1324L	ENSG00000164659	ENST00000450689	protein_coding	KNOWN	CCDS47632	21945	3090	1029	86506222	86689015	-1	None	FLJ31340, EIG121L
7	KIAA1324L	ENSG00000164659	ENST00000444627	protein_coding	NOVEL	None	21945	2877	958	86509255	86688947	-1	None	FLJ31340, EIG121L
7	KIAA1324L	ENSG00000164659	ENST00000394714	nonsense_mediated_decay	KNOWN	None	21945	256	84	86509332	86574362	-1	None	FLJ31340, EIG121L
7	KIAA1324L	ENSG00000164659	ENST00000416314	protein_coding	PUTATIVE	CCDS34677	21945	2589	862	86509393	86595204	-1	None	FLJ31340, EIG121L
7	KIAA1324L	ENSG00000164659	ENST00000480216	retained_intron	KNOWN	None	21945	None	None	86520511	86522251	-1	None	FLJ31340, EIG121L
7	KIAA1324L	ENSG00000164659	ENST00000423294	protein_coding	NOVEL	None	21945	2911	969	86521040	86688831	-1	None	FLJ31340, EIG121L
7	KIAA1324L	ENSG00000164659	ENST00000427812	nonsense_mediated_decay	KNOWN	None	21945	239	78	86537013	86541518	-1	None	FLJ31340, EIG121L
7	KIAA1324L	ENSG00000164659	ENST00000470853	retained_intron	KNOWN	None	21945	None	None	86541141	86542476	-1	None	FLJ31340, EIG121L
7	KIAA1324L	ENSG00000164659	ENST00000490995	processed_transcript	KNOWN	None	21945	None	None	86542332	86549140	-1	None	FLJ31340, EIG121L
7	KIAA1324L	ENSG00000164659	ENST00000474609	processed_transcript	KNOWN	None	21945	None	None	86542342	86550184	-1	None	FLJ31340, EIG121L
7	KIAA1324L	ENSG00000164659	ENST00000398276	protein_coding	KNOWN	None	21945	336	111	86571397	86595198	-1	None	FLJ31340, EIG121L
7	KIAA1324L	ENSG00000164659	ENST00000425689	protein_coding	PUTATIVE	None	21945	261	86	86574266	86595291	-1	None	FLJ31340, EIG121L
7	KIAA1324L	ENSG00000164659	ENST00000297222	protein_coding	KNOWN	None	21945	2370	789	86506225	86570688	-1	None	FLJ31340, EIG121L
1	None	ENSG00000272441	ENST00000606922	3prime_overlapping_ncrna	KNOWN	None	None	None	None	225674537	225678899	-1	None	None
5	None	ENSG00000250061	ENST00000458002	antisense	KNOWN	None	None	None	None	162439271	162864299	-1	None	None
5	None	ENSG00000250061	ENST00000509211	antisense	KNOWN	None	None	None	None	162465069	162683973	-1	None	None
5	None	ENSG00000250061	ENST00000503615	antisense	KNOWN	None	None	None	None	162683077	162683993	-1	None	None
5	None	ENSG00000250061	ENST00000503504	antisense	KNOWN	None	None	None	None	162683857	162864332	-1	None	None
12	None	ENSG00000266923	ENST00000508671	antisense	KNOWN	None	None	None	None	92815307	92877456	1	None	None
2	None	ENSG00000213356	ENST00000393641	pseudogene	NOVEL	None	None	None	None	91734174	91734450	-1	None	None
11	FAM76B	ENSG00000077458	ENST00000358780	protein_coding	KNOWN	CCDS41700	28492	1020	339	95502106	95522955	-1	None	MGC33371
11	FAM76B	ENSG00000077458	ENST00000398187	nonsense_mediated_decay	KNOWN	None	28492	702	233	95502117	95522779	-1	None	MGC33371
11	FAM76B	ENSG00000077458	ENST00000543641	nonsense_mediated_decay	KNOWN	None	28492	702	233	95502119	95522954	-1	None	MGC33371
11	FAM76B	ENSG00000077458	ENST00000536839	protein_coding	NOVEL	None	28492	1017	338	95503279	95522725	-1	None	MGC33371
11	FAM76B	ENSG00000077458	ENST00000545813	retained_intron	KNOWN	None	28492	None	None	95504690	95512383	-1	None	MGC33371
11	FAM76B	ENSG00000077458	ENST00000541418	retained_intron	KNOWN	None	28492	None	None	95509018	95512368	-1	None	MGC33371
11	FAM76B	ENSG00000077458	ENST00000545654	retained_intron	KNOWN	None	28492	None	None	95512000	95522946	-1	None	MGC33371
11	FAM76B	ENSG00000077458	ENST00000535919	retained_intron	KNOWN	None	28492	None	None	95512653	95516432	-1	None	MGC33371
11	FAM76B	ENSG00000077458	ENST00000542135	protein_coding	PUTATIVE	None	28492	274	90	95516229	95522980	-1	None	MGC33371
11	FAM76B	ENSG00000077458	ENST00000540054	protein_coding	PUTATIVE	None	28492	274	90	95516229	95523573	-1	None	MGC33371
11	FAM76B	ENSG00000077458	ENST00000537749	protein_coding	PUTATIVE	None	28492	141	46	95516362	95519969	-1	None	MGC33371
11	FAM76B	ENSG00000077458	ENST00000538047	processed_transcript	KNOWN	None	28492	None	None	95519347	95522268	-1	None	MGC33371
11	FAM76B	ENSG00000077458	ENST00000538316	nonsense_mediated_decay	KNOWN	None	28492	150	49	95520789	95522932	-1	None	MGC33371
14	None	ENSG00000259153	ENST00000554032	lincRNA	KNOWN	None	None	None	None	71276922	71282108	1	None	None
14	None	ENSG00000259153	ENST00000557691	lincRNA	KNOWN	None	None	None	None	71277047	71282120	1	None	None
3	VIPR1-AS1	ENSG00000232354	ENST00000600342	antisense	KNOWN	None	40610	None	None	42548016	42573554	-1	None	None
3	VIPR1-AS1	ENSG00000232354	ENST00000452639	antisense	KNOWN	None	40610	None	None	42548142	42574098	-1	None	None
3	VIPR1-AS1	ENSG00000232354	ENST00000598837	antisense	KNOWN	None	40610	None	None	42548184	42573554	-1	None	None
3	VIPR1-AS1	ENSG00000232354	ENST00000602176	antisense	KNOWN	None	40610	None	None	42550797	42573554	-1	None	None
3	VIPR1-AS1	ENSG00000232354	ENST00000596630	antisense	KNOWN	None	40610	None	None	42553586	42573554	-1	None	None
3	VIPR1-AS1	ENSG00000232354	ENST00000601312	antisense	KNOWN	None	40610	None	None	42553676	42573554	-1	None	None
3	VIPR1-AS1	ENSG00000232354	ENST00000593621	antisense	KNOWN	None	40610	None	None	42555097	42573554	-1	None	None
3	VIPR1-AS1	ENSG00000232354	ENST00000593611	antisense	KNOWN	None	40610	None	None	42558219	42573554	-1	None	None
12	HNRNPA3P10	ENSG00000257851	ENST00000547726	processed_pseudogene	KNOWN	None	48756	None	None	52106253	52107390	-1	None	None
11	MIR610	ENSG00000207874	ENST00000385139	miRNA	KNOWN	None	32866	None	None	28078362	28078457	1	MIRN610	hsa-mir-610
5	SLC6A3	ENSG00000142319	ENST00000270349	protein_coding	KNOWN	CCDS3863	11049	1863	620	1392909	1445545	-1	DAT1	DAT
5	SLC6A3	ENSG00000142319	ENST00000512002	protein_coding	PUTATIVE	None	11049	244	80	1394144	1401422	-1	DAT1	DAT
5	SLC6A3	ENSG00000142319	ENST00000511750	retained_intron	KNOWN	None	11049	None	None	1414856	1416693	-1	DAT1	DAT
5	SLC6A3	ENSG00000142319	ENST00000513308	protein_coding	PUTATIVE	None	11049	813	270	1416143	1443090	-1	DAT1	DAT
5	SLC6A3	ENSG00000142319	ENST00000453492	protein_coding	KNOWN	CCDS3863	11049	1863	620	1393785	1443359	-1	DAT1	DAT
7	KRIT1	ENSG00000001631	ENST00000486261	retained_intron	KNOWN	None	1573	None	None	91828727	91870433	-1	CCM1	CAM
7	KRIT1	ENSG00000001631	ENST00000340022	protein_coding	KNOWN	CCDS5624	1573	2211	736	91828727	91875414	-1	CCM1	CAM
7	KRIT1	ENSG00000001631	ENST00000475770	retained_intron	KNOWN	None	1573	None	None	91829492	91865087	-1	CCM1	CAM
7	KRIT1	ENSG00000001631	ENST00000412043	protein_coding	KNOWN	CCDS5624	1573	2211	736	91829672	91875109	-1	CCM1	CAM
7	KRIT1	ENSG00000001631	ENST00000394505	protein_coding	KNOWN	CCDS5624	1573	2211	736	91829672	91875237	-1	CCM1	CAM
7	KRIT1	ENSG00000001631	ENST00000394503	protein_coding	KNOWN	CCDS34679	1573	2067	688	91829687	91875228	-1	CCM1	CAM
7	KRIT1	ENSG00000001631	ENST00000487168	retained_intron	KNOWN	None	1573	None	None	91829768	91830869	-1	CCM1	CAM
7	KRIT1	ENSG00000001631	ENST00000445516	protein_coding	PUTATIVE	None	1573	494	163	91855080	91864929	-1	CCM1	CAM
7	KRIT1	ENSG00000001631	ENST00000458177	protein_coding	KNOWN	None	1573	729	242	91864717	91875373	-1	CCM1	CAM
7	KRIT1	ENSG00000001631	ENST00000433016	protein_coding	KNOWN	None	1573	553	183	91864893	91875234	-1	CCM1	CAM
7	KRIT1	ENSG00000001631	ENST00000454017	protein_coding	KNOWN	None	1573	487	161	91865725	91875228	-1	CCM1	CAM
7	KRIT1	ENSG00000001631	ENST00000440209	protein_coding	KNOWN	None	1573	336	111	91867000	91875228	-1	CCM1	CAM
7	KRIT1	ENSG00000001631	ENST00000430102	protein_coding	KNOWN	None	1573	293	96	91867043	91875185	-1	CCM1	CAM
7	KRIT1	ENSG00000001631	ENST00000470309	retained_intron	KNOWN	None	1573	None	None	91870163	91873463	-1	CCM1	CAM
7	KRIT1	ENSG00000001631	ENST00000413688	protein_coding	KNOWN	None	1573	208	68	91870361	91875228	-1	CCM1	CAM
7	KRIT1	ENSG00000001631	ENST00000458493	protein_coding	KNOWN	None	1573	197	64	91870372	91875257	-1	CCM1	CAM
7	KRIT1	ENSG00000001631	ENST00000452773	protein_coding	KNOWN	None	1573	174	57	91870395	91875229	-1	CCM1	CAM
7	KRIT1	ENSG00000001631	ENST00000425919	protein_coding	KNOWN	None	1573	114	37	91870455	91875257	-1	CCM1	CAM
7	KRIT1	ENSG00000001631	ENST00000444960	protein_coding	KNOWN	None	1573	102	33	91871348	91875480	-1	CCM1	CAM
7	KRIT1	ENSG00000001631	ENST00000422347	protein_coding	KNOWN	None	1573	75	24	91871375	91875244	-1	CCM1	CAM
7	KRIT1	ENSG00000001631	ENST00000425073	protein_coding	KNOWN	None	1573	35	10	91871415	91875226	-1	CCM1	CAM
7	KRIT1	ENSG00000001631	ENST00000466166	processed_transcript	KNOWN	None	1573	None	None	91873364	91875238	-1	CCM1	CAM
7	KRIT1	ENSG00000001631	ENST00000489087	processed_transcript	KNOWN	None	1573	None	None	91874424	91875228	-1	CCM1	CAM
7	KRIT1	ENSG00000001631	ENST00000394507	protein_coding	KNOWN	CCDS5624	1573	2211	736	91828283	91875414	-1	CCM1	CAM
13	FGF14-AS1	ENSG00000234445	ENST00000444686	antisense	KNOWN	None	40237	None	None	103019889	103020395	1	None	None
13	FGF14-AS1	ENSG00000234445	ENST00000451630	antisense	KNOWN	None	40237	None	None	103019914	103026016	1	None	None
2	None	ENSG00000235388	ENST00000437744	pseudogene	NOVEL	None	None	None	None	91740600	91740793	1	None	None
3	SALL4P5	ENSG00000231915	ENST00000419001	unprocessed_pseudogene	KNOWN	None	39822	None	None	23031314	23033073	1	None	None
15	None	ENSG00000260037	ENST00000562658	antisense	KNOWN	None	None	None	None	72110737	72115677	1	None	None
15	None	ENSG00000260037	ENST00000563041	antisense	KNOWN	None	None	None	None	72110755	72114796	1	None	None
15	None	ENSG00000260037	ENST00000561834	antisense	KNOWN	None	None	None	None	72110831	72115725	1	None	None
1	None	ENSG00000227496	ENST00000448264	antisense	KNOWN	None	None	None	None	225888306	225939945	1	None	None
1	None	ENSG00000229943	ENST00000438619	lincRNA	KNOWN	None	None	None	None	75428998	75430802	1	None	None
3	None	ENSG00000242880	ENST00000459855	lincRNA	KNOWN	None	None	None	None	114970043	115004194	1	None	None
1	NCSTN	ENSG00000162736	ENST00000294785	protein_coding	KNOWN	CCDS1203	17091	2130	709	160313062	160328742	1	None	KIAA0253, APH2
1	NCSTN	ENSG00000162736	ENST00000368063	protein_coding	KNOWN	None	17091	2070	689	160313106	160328742	1	None	KIAA0253, APH2
1	NCSTN	ENSG00000162736	ENST00000437169	protein_coding	KNOWN	None	17091	404	133	160313143	160319365	1	None	KIAA0253, APH2
1	NCSTN	ENSG00000162736	ENST00000421914	protein_coding	KNOWN	None	17091	765	254	160313176	160323027	1	None	KIAA0253, APH2
1	NCSTN	ENSG00000162736	ENST00000465223	processed_transcript	KNOWN	None	17091	None	None	160313177	160314961	1	None	KIAA0253, APH2
1	NCSTN	ENSG00000162736	ENST00000438008	protein_coding	KNOWN	None	17091	696	231	160313181	160321026	1	None	KIAA0253, APH2
1	NCSTN	ENSG00000162736	ENST00000467837	processed_transcript	KNOWN	None	17091	None	None	160313183	160319995	1	None	KIAA0253, APH2
1	NCSTN	ENSG00000162736	ENST00000491332	processed_transcript	KNOWN	None	17091	None	None	160313452	160319458	1	None	KIAA0253, APH2
1	NCSTN	ENSG00000162736	ENST00000459963	processed_transcript	KNOWN	None	17091	None	None	160319446	160326137	1	None	KIAA0253, APH2
1	NCSTN	ENSG00000162736	ENST00000424645	protein_coding	KNOWN	None	17091	958	318	160319452	160325543	1	None	KIAA0253, APH2
1	NCSTN	ENSG00000162736	ENST00000424754	protein_coding	KNOWN	None	17091	659	218	160321126	160325519	1	None	KIAA0253, APH2
1	NCSTN	ENSG00000162736	ENST00000435149	protein_coding	KNOWN	None	17091	824	273	160321866	160326544	1	None	KIAA0253, APH2
1	NCSTN	ENSG00000162736	ENST00000491390	processed_transcript	KNOWN	None	17091	None	None	160325475	160326724	1	None	KIAA0253, APH2
1	NCSTN	ENSG00000162736	ENST00000469159	processed_transcript	KNOWN	None	17091	None	None	160326688	160328438	1	None	KIAA0253, APH2
1	NCSTN	ENSG00000162736	ENST00000535857	protein_coding	KNOWN	None	17091	1716	571	160313176	160328313	1	None	KIAA0253, APH2
1	NCSTN	ENSG00000162736	ENST00000392212	protein_coding	KNOWN	None	17091	2070	689	160314380	160328736	1	None	KIAA0253, APH2
1	NCSTN	ENSG00000162736	ENST00000368065	protein_coding	KNOWN	None	17091	1356	451	160319899	160328434	1	None	KIAA0253, APH2
15	None	ENSG00000259721	ENST00000558441	lincRNA	KNOWN	None	None	None	None	33009471	33011208	-1	None	None
15	None	ENSG00000259721	ENST00000560363	lincRNA	KNOWN	None	None	None	None	33010302	33011055	-1	None	None
15	None	ENSG00000260571	ENST00000562290	processed_pseudogene	KNOWN	None	None	None	None	42605885	42606584	1	None	None
2	None	ENSG00000230964	ENST00000454518	processed_pseudogene	KNOWN	None	None	None	None	91766537	91766632	1	None	None
1	None	ENSG00000261213	ENST00000565735	lincRNA	KNOWN	None	None	None	None	75588203	75589612	-1	None	None
13	FGF14-AS2	ENSG00000272143	ENST00000606448	lincRNA	KNOWN	None	44368	None	None	103046980	103048053	1	None	None
1	None	ENSG00000233839	ENST00000457967	processed_pseudogene	KNOWN	None	None	None	None	113711616	113712025	1	None	None
11	None	ENSG00000271332	ENST00000605824	processed_pseudogene	KNOWN	None	None	None	None	28166454	28166751	-1	None	None
3	CAND2	ENSG00000144712	ENST00000295989	protein_coding	KNOWN	CCDS43053	30689	3360	1119	12837971	12876301	1	None	TIP120B, KIAA0667, Tp120b
3	CAND2	ENSG00000144712	ENST00000446928	nonsense_mediated_decay	KNOWN	None	30689	333	110	12838171	12854591	1	None	TIP120B, KIAA0667, Tp120b
3	CAND2	ENSG00000144712	ENST00000456430	protein_coding	KNOWN	CCDS54554	30689	3711	1236	12838179	12876302	1	None	TIP120B, KIAA0667, Tp120b
3	CAND2	ENSG00000144712	ENST00000466558	processed_transcript	PUTATIVE	None	30689	None	None	12848632	12851652	1	None	TIP120B, KIAA0667, Tp120b
3	CAND2	ENSG00000144712	ENST00000454887	protein_coding	PUTATIVE	None	30689	492	163	12868945	12913415	1	None	TIP120B, KIAA0667, Tp120b
1	None	ENSG00000224127	ENST00000446238	antisense	KNOWN	None	None	None	None	75593515	75598743	-1	None	None
16	MIR4517	ENSG00000266868	ENST00000578855	miRNA	KNOWN	None	41878	None	None	28969904	28969982	1	None	hsa-mir-4517
3	None	ENSG00000215016	ENST00000399435	processed_pseudogene	KNOWN	None	None	None	None	23175863	23176315	1	None	None
17	ACBD4	ENSG00000181513	ENST00000587976	processed_transcript	KNOWN	None	23337	None	None	43209967	43213232	1	None	FLJ13322
17	ACBD4	ENSG00000181513	ENST00000587111	processed_transcript	KNOWN	None	23337	None	None	43209972	43213316	1	None	FLJ13322
17	ACBD4	ENSG00000181513	ENST00000586279	processed_transcript	KNOWN	None	23337	None	None	43209996	43213071	1	None	FLJ13322
17	ACBD4	ENSG00000181513	ENST00000591859	protein_coding	KNOWN	CCDS45710	23337	1026	341	43209998	43221543	1	None	FLJ13322
17	ACBD4	ENSG00000181513	ENST00000586346	protein_coding	KNOWN	CCDS45710	23337	1026	341	43213014	43221217	1	None	FLJ13322
17	ACBD4	ENSG00000181513	ENST00000585553	retained_intron	KNOWN	None	23337	None	None	43213016	43221543	1	None	FLJ13322
17	ACBD4	ENSG00000181513	ENST00000398322	protein_coding	KNOWN	CCDS42348	23337	918	305	43213054	43221548	1	None	FLJ13322
17	ACBD4	ENSG00000181513	ENST00000590289	retained_intron	KNOWN	None	23337	None	None	43213055	43214821	1	None	FLJ13322
17	ACBD4	ENSG00000181513	ENST00000592162	protein_coding	NOVEL	None	23337	810	269	43213057	43221543	1	None	FLJ13322
17	ACBD4	ENSG00000181513	ENST00000376955	protein_coding	KNOWN	CCDS45711	23337	807	268	43213061	43220326	1	None	FLJ13322
17	ACBD4	ENSG00000181513	ENST00000321854	protein_coding	KNOWN	CCDS42348	23337	918	305	43213075	43221543	1	None	FLJ13322
17	ACBD4	ENSG00000181513	ENST00000589752	retained_intron	KNOWN	None	23337	None	None	43213463	43215003	1	None	FLJ13322
17	ACBD4	ENSG00000181513	ENST00000589798	nonsense_mediated_decay	KNOWN	None	23337	117	38	43213475	43215202	1	None	FLJ13322
17	ACBD4	ENSG00000181513	ENST00000591136	processed_transcript	KNOWN	None	23337	None	None	43213568	43215911	1	None	FLJ13322
17	ACBD4	ENSG00000181513	ENST00000431281	protein_coding	KNOWN	CCDS45710	23337	1026	341	43209967	43221539	1	None	FLJ13322
1	None	ENSG00000226349	ENST00000428148	sense_intronic	KNOWN	None	None	None	None	225898670	225923976	-1	None	None
2	None	ENSG00000261600	ENST00000567067	lincRNA	KNOWN	None	None	None	None	91768393	91768920	1	None	None
X	RN7SL667P	ENSG00000265170	ENST00000582817	misc_RNA	KNOWN	None	46683	None	None	152669306	152669599	-1	None	None
11	RN7SKP158	ENSG00000222385	ENST00000410453	misc_RNA	KNOWN	None	45882	None	None	28282741	28283066	-1	None	None
11	None	ENSG00000265467	ENST00000578625	miRNA	NOVEL	None	None	None	None	47507374	47507465	-1	None	None
9	MIR491	ENSG00000207609	ENST00000384877	miRNA	KNOWN	None	32076	None	None	20716104	20716187	1	MIRN491	hsa-mir-491
12	None	ENSG00000272215	ENST00000607576	snRNA	NOVEL	None	None	None	None	112002625	112002687	-1	None	None
1	TTC34	ENSG00000215912	ENST00000579787	retained_intron	KNOWN	None	34297	None	None	2567415	2571151	-1	None	None
1	TTC34	ENSG00000215912	ENST00000401094	protein_coding	NOVEL	None	34297	1110	369	2567415	2718286	-1	None	None
1	TTC34	ENSG00000215912	ENST00000574621	protein_coding	NOVEL	None	34297	570	189	2700271	2706280	-1	None	None
1	TTC34	ENSG00000215912	ENST00000401095	protein_coding	KNOWN	CCDS55565	34297	1701	566	2572807	2706236	-1	None	None
11	None	ENSG00000254814	ENST00000534354	antisense	KNOWN	None	None	None	None	75511922	75514460	-1	None	None
X	None	ENSG00000259886	ENST00000569962	lincRNA	KNOWN	None	None	None	None	152689210	152691934	1	None	None
11	None	ENSG00000238149	ENST00000449387	processed_pseudogene	KNOWN	None	None	None	None	28308782	28309172	-1	None	None
7	None	ENSG00000243018	ENST00000466775	antisense	KNOWN	None	None	None	None	150946411	150951476	1	None	None
17	C17orf76-AS1	ENSG00000175061	ENST00000584177	antisense	KNOWN	None	28619	None	None	16342136	16373767	1	C17orf45, NCRNA00188	MGC40157
17	C17orf76-AS1	ENSG00000175061	ENST00000487066	antisense	KNOWN	None	28619	None	None	16342289	16345052	1	C17orf45, NCRNA00188	MGC40157
17	C17orf76-AS1	ENSG00000175061	ENST00000580180	antisense	KNOWN	None	28619	None	None	16342299	16345144	1	C17orf45, NCRNA00188	MGC40157
17	C17orf76-AS1	ENSG00000175061	ENST00000475947	antisense	KNOWN	None	28619	None	None	16342300	16345047	1	C17orf45, NCRNA00188	MGC40157
17	C17orf76-AS1	ENSG00000175061	ENST00000481898	antisense	KNOWN	None	28619	None	None	16342301	16345342	1	C17orf45, NCRNA00188	MGC40157
17	C17orf76-AS1	ENSG00000175061	ENST00000497774	retained_intron	KNOWN	None	28619	None	None	16342325	16345309	1	C17orf45, NCRNA00188	MGC40157
17	C17orf76-AS1	ENSG00000175061	ENST00000582911	antisense	KNOWN	None	28619	None	None	16342334	16345326	1	C17orf45, NCRNA00188	MGC40157
17	C17orf76-AS1	ENSG00000175061	ENST00000584141	antisense	KNOWN	None	28619	None	None	16342351	16344504	1	C17orf45, NCRNA00188	MGC40157
17	C17orf76-AS1	ENSG00000175061	ENST00000584926	antisense	KNOWN	None	28619	None	None	16342351	16344929	1	C17orf45, NCRNA00188	MGC40157
17	C17orf76-AS1	ENSG00000175061	ENST00000581361	lincRNA	KNOWN	None	28619	None	None	16342351	16373664	1	C17orf45, NCRNA00188	MGC40157
17	C17orf76-AS1	ENSG00000175061	ENST00000581718	antisense	KNOWN	None	28619	None	None	16342351	16373685	1	C17orf45, NCRNA00188	MGC40157
17	C17orf76-AS1	ENSG00000175061	ENST00000580770	antisense	KNOWN	None	28619	None	None	16342351	16381992	1	C17orf45, NCRNA00188	MGC40157
17	C17orf76-AS1	ENSG00000175061	ENST00000578757	retained_intron	KNOWN	None	28619	None	None	16342352	16344523	1	C17orf45, NCRNA00188	MGC40157
17	C17orf76-AS1	ENSG00000175061	ENST00000492250	antisense	KNOWN	None	28619	None	None	16342352	16344816	1	C17orf45, NCRNA00188	MGC40157
17	C17orf76-AS1	ENSG00000175061	ENST00000579473	antisense	KNOWN	None	28619	None	None	16342352	16373773	1	C17orf45, NCRNA00188	MGC40157
17	C17orf76-AS1	ENSG00000175061	ENST00000475953	antisense	KNOWN	None	28619	None	None	16342359	16345342	1	C17orf45, NCRNA00188	MGC40157
17	C17orf76-AS1	ENSG00000175061	ENST00000583400	antisense	KNOWN	None	28619	None	None	16342368	16373846	1	C17orf45, NCRNA00188	MGC40157
17	C17orf76-AS1	ENSG00000175061	ENST00000578380	antisense	KNOWN	None	28619	None	None	16342370	16343005	1	C17orf45, NCRNA00188	MGC40157
17	C17orf76-AS1	ENSG00000175061	ENST00000477249	antisense	KNOWN	None	28619	None	None	16342371	16345280	1	C17orf45, NCRNA00188	MGC40157
17	C17orf76-AS1	ENSG00000175061	ENST00000470491	antisense	KNOWN	None	28619	None	None	16342373	16345313	1	C17orf45, NCRNA00188	MGC40157
17	C17orf76-AS1	ENSG00000175061	ENST00000581913	antisense	KNOWN	None	28619	None	None	16342377	16345175	1	C17orf45, NCRNA00188	MGC40157
17	C17orf76-AS1	ENSG00000175061	ENST00000481027	antisense	KNOWN	None	28619	None	None	16342635	16345301	1	C17orf45, NCRNA00188	MGC40157
17	C17orf76-AS1	ENSG00000175061	ENST00000460249	antisense	KNOWN	None	28619	None	None	16342641	16344880	1	C17orf45, NCRNA00188	MGC40157
17	C17orf76-AS1	ENSG00000175061	ENST00000491009	antisense	KNOWN	None	28619	None	None	16342641	16345093	1	C17orf45, NCRNA00188	MGC40157
17	C17orf76-AS1	ENSG00000175061	ENST00000480811	antisense	KNOWN	None	28619	None	None	16342641	16345146	1	C17orf45, NCRNA00188	MGC40157
17	C17orf76-AS1	ENSG00000175061	ENST00000483140	antisense	KNOWN	None	28619	None	None	16342641	16345337	1	C17orf45, NCRNA00188	MGC40157
17	C17orf76-AS1	ENSG00000175061	ENST00000478103	antisense	KNOWN	None	28619	None	None	16342641	16367164	1	C17orf45, NCRNA00188	MGC40157
17	C17orf76-AS1	ENSG00000175061	ENST00000472367	antisense	KNOWN	None	28619	None	None	16342641	16367300	1	C17orf45, NCRNA00188	MGC40157
17	C17orf76-AS1	ENSG00000175061	ENST00000483588	lincRNA	KNOWN	None	28619	None	None	16342641	16367300	1	C17orf45, NCRNA00188	MGC40157
17	C17orf76-AS1	ENSG00000175061	ENST00000484836	antisense	KNOWN	None	28619	None	None	16342659	16345056	1	C17orf45, NCRNA00188	MGC40157
17	C17orf76-AS1	ENSG00000175061	ENST00000365172	snoRNA	KNOWN	None	28619	None	None	16342819	16342890	1	C17orf45, NCRNA00188	MGC40157
17	C17orf76-AS1	ENSG00000175061	ENST00000384229	snoRNA	KNOWN	None	28619	None	None	16343350	16343420	1	C17orf45, NCRNA00188	MGC40157
17	C17orf76-AS1	ENSG00000175061	ENST00000391079	snoRNA	KNOWN	None	28619	None	None	16344540	16344612	1	C17orf45, NCRNA00188	MGC40157
1	None	ENSG00000224149	ENST00000427892	antisense	KNOWN	None	None	None	None	75595659	75598261	-1	None	None
2	None	ENSG00000233991	ENST00000443031	unprocessed_pseudogene	KNOWN	None	None	None	None	91777536	91809447	1	None	None
8	LINC00966	ENSG00000254377	ENST00000520799	lincRNA	KNOWN	None	48723	None	None	65285885	65291388	1	None	None
8	LINC00966	ENSG00000254377	ENST00000521441	lincRNA	KNOWN	None	48723	None	None	65285885	65296344	1	None	None
8	LINC00966	ENSG00000254377	ENST00000524060	lincRNA	KNOWN	None	48723	None	None	65289884	65290992	1	None	None
8	LINC00966	ENSG00000254377	ENST00000524284	lincRNA	KNOWN	None	48723	None	None	65289890	65291035	1	None	None
8	LINC00966	ENSG00000254377	ENST00000519741	lincRNA	KNOWN	None	48723	None	None	65290517	65295843	1	None	None
16	None	ENSG00000261067	ENST00000569969	retained_intron	KNOWN	None	None	None	None	28986125	29002096	1	None	None
16	None	ENSG00000261067	ENST00000568899	retained_intron	KNOWN	None	None	None	None	28997163	29001617	1	None	None
16	None	ENSG00000261067	ENST00000564447	retained_intron	KNOWN	None	None	None	None	28998887	29001775	1	None	None
16	None	ENSG00000261067	ENST00000566415	retained_intron	KNOWN	None	None	None	None	29000898	29001776	1	None	None
1	RNU6-1304P	ENSG00000223306	ENST00000411374	snRNA	KNOWN	None	48267	None	None	225928977	225929084	1	None	None
12	None	ENSG00000260122	ENST00000565518	lincRNA	KNOWN	None	None	None	None	52203489	52204384	-1	None	None
1	RNU6-622P	ENSG00000206999	ENST00000384272	snRNA	KNOWN	None	47585	None	None	75648730	75648832	1	None	None
11	None	ENSG00000270072	ENST00000366360	sense_intronic	KNOWN	None	None	None	None	47535157	47536441	-1	None	None
14	None	ENSG00000256498	ENST00000542059	pseudogene	NOVEL	None	None	None	None	105861979	105862477	1	None	None
3	RPL4P4	ENSG00000229638	ENST00000422486	processed_pseudogene	KNOWN	None	36179	None	None	185135283	185136566	-1	None	None
1	None	ENSG00000234112	ENST00000434499	processed_pseudogene	KNOWN	None	None	None	None	225990850	225991150	1	None	None
HSCHR6_MHC_MANN	C2	ENSG00000204364	ENST00000483976	processed_transcript	KNOWN	None	1248	None	None	31927379	31944643	1	None	None
HSCHR6_MHC_MANN	C2	ENSG00000204364	ENST00000437394	protein_coding	KNOWN	None	1248	419	138	31927422	31936332	1	None	None
HSCHR6_MHC_MANN	C2	ENSG00000204364	ENST00000494965	processed_transcript	KNOWN	None	1248	None	None	31927534	31943176	1	None	None
HSCHR6_MHC_MANN	C2	ENSG00000204364	ENST00000375510	protein_coding	KNOWN	None	1248	2259	752	31934930	31952872	1	None	None
HSCHR6_MHC_MANN	C2	ENSG00000204364	ENST00000437162	protein_coding	KNOWN	None	1248	377	124	31934963	31940919	1	None	None
HSCHR6_MHC_MANN	C2	ENSG00000204364	ENST00000415985	protein_coding	KNOWN	None	1248	1059	352	31934969	31950519	1	None	None
HSCHR6_MHC_MANN	C2	ENSG00000204364	ENST00000493575	retained_intron	KNOWN	None	1248	None	None	31935141	31942247	1	None	None
HSCHR6_MHC_MANN	C2	ENSG00000204364	ENST00000383359	protein_coding	KNOWN	None	1248	1578	525	31935201	31952872	1	None	None
HSCHR6_MHC_MANN	C2	ENSG00000204364	ENST00000483849	processed_transcript	PUTATIVE	None	1248	None	None	31939654	31941471	1	None	None
HSCHR6_MHC_MANN	C2	ENSG00000204364	ENST00000491097	processed_transcript	PUTATIVE	None	1248	None	None	31940799	31952872	1	None	None
HSCHR6_MHC_MANN	C2	ENSG00000204364	ENST00000455713	protein_coding	KNOWN	None	1248	435	144	31940799	31946441	1	None	None
HSCHR6_MHC_MANN	C2	ENSG00000204364	ENST00000457446	protein_coding	KNOWN	None	1248	403	133	31940799	31941484	1	None	None
HSCHR6_MHC_MANN	C2	ENSG00000204364	ENST00000491566	processed_transcript	KNOWN	None	1248	None	None	31941472	31950958	1	None	None
HSCHR6_MHC_MANN	C2	ENSG00000204364	ENST00000484209	retained_intron	KNOWN	None	1248	None	None	31943241	31952872	1	None	None
HSCHR6_MHC_MANN	C2	ENSG00000204364	ENST00000485544	processed_transcript	KNOWN	None	1248	None	None	31950873	31952872	1	None	None
HSCHR6_MHC_MANN	C2	ENSG00000204364	ENST00000548995	protein_coding	KNOWN	None	1248	1863	620	31934927	31952869	1	None	None
HSCHR6_MHC_MANN	C2	ENSG00000204364	ENST00000548250	protein_coding	KNOWN	None	1248	1521	506	31934927	31952869	1	None	None
HSCHR6_MHC_MANN	C2	ENSG00000204364	ENST00000549222	protein_coding	KNOWN	None	1248	975	324	31934927	31952869	1	None	None
HSCHR6_MHC_MANN	C2	ENSG00000204364	ENST00000548828	protein_coding	KNOWN	None	1248	1134	377	31934927	31952869	1	None	None
20	None	ENSG00000233077	ENST00000441214	processed_transcript	KNOWN	None	None	None	None	48927248	48937879	-1	None	None
12	None	ENSG00000260415	ENST00000562518	lincRNA	KNOWN	None	None	None	None	52203789	52206648	1	None	None
12	None	ENSG00000260415	ENST00000599343	lincRNA	KNOWN	None	None	None	None	52203789	52206636	1	None	None
11	RN7SL652P	ENSG00000265559	ENST00000577769	misc_RNA	KNOWN	None	46668	None	None	47579088	47579385	-1	None	None
9	XPA	ENSG00000136936	ENST00000462523	nonsense_mediated_decay	KNOWN	None	12814	795	264	100437191	100459575	-1	None	XPAC, XP1
9	XPA	ENSG00000136936	ENST00000375128	protein_coding	KNOWN	CCDS6729	12814	822	273	100437191	100459639	-1	None	XPAC, XP1
9	XPA	ENSG00000136936	ENST00000485042	processed_transcript	KNOWN	None	12814	None	None	100437349	100438237	-1	None	XPAC, XP1
9	XPA	ENSG00000136936	ENST00000496104	processed_transcript	KNOWN	None	12814	None	None	100447243	100459577	-1	None	XPAC, XP1
3	UBE2E2-AS1	ENSG00000233153	ENST00000452251	antisense	KNOWN	None	44512	None	None	23236561	23244024	-1	None	None
3	UBE2E2-AS1	ENSG00000233153	ENST00000421375	antisense	KNOWN	None	44512	None	None	23236561	23244034	-1	None	None
3	UBE2E2-AS1	ENSG00000233153	ENST00000430018	antisense	KNOWN	None	44512	None	None	23236561	23244069	-1	None	None
1	None	ENSG00000236887	ENST00000412567	processed_pseudogene	KNOWN	None	None	None	None	113741447	113741880	1	None	None
8	None	ENSG00000253898	ENST00000522365	lincRNA	KNOWN	None	None	None	None	84315993	84321135	1	None	None
1	None	ENSG00000242861	ENST00000424332	antisense	KNOWN	None	None	None	None	226028584	226034223	-1	None	None
HSCHR17_1	None	ENSG00000257377	ENST00000552224	protein_coding	NOVEL	None	None	354	117	44907918	44922890	-1	None	None
3	None	ENSG00000240137	ENST00000471093	antisense	KNOWN	None	None	None	None	150421351	150437775	1	None	None
3	None	ENSG00000240137	ENST00000475393	antisense	KNOWN	None	None	None	None	150421830	150437933	1	None	None
3	None	ENSG00000240137	ENST00000463755	antisense	KNOWN	None	None	None	None	150425754	150437782	1	None	None
7	WDR86-AS1	ENSG00000243836	ENST00000489632	antisense	KNOWN	None	41186	None	None	151106247	151110440	1	None	None
7	WDR86-AS1	ENSG00000243836	ENST00000480632	antisense	KNOWN	None	41186	None	None	151106322	151110134	1	None	None
7	WDR86-AS1	ENSG00000243836	ENST00000466677	retained_intron	KNOWN	None	41186	None	None	151106357	151109187	1	None	None
7	WDR86-AS1	ENSG00000243836	ENST00000460148	retained_intron	KNOWN	None	41186	None	None	151107648	151109093	1	None	None
HSCHR6_MHC_APD	SLC44A4	ENSG00000235336	ENST00000417894	protein_coding	KNOWN	None	13941	2133	710	31842327	31858135	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_APD	SLC44A4	ENSG00000235336	ENST00000487052	processed_transcript	PUTATIVE	None	13941	None	None	31842712	31843815	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_APD	SLC44A4	ENSG00000235336	ENST00000414684	protein_coding	KNOWN	None	13941	1233	410	31844825	31858101	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_APD	SLC44A4	ENSG00000235336	ENST00000488616	retained_intron	KNOWN	None	13941	None	None	31845194	31850335	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_APD	SLC44A4	ENSG00000235336	ENST00000484190	retained_intron	KNOWN	None	13941	None	None	31848731	31850377	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_APD	SLC44A4	ENSG00000235336	ENST00000492911	processed_transcript	KNOWN	None	13941	None	None	31853659	31858131	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_APD	SLC44A4	ENSG00000235336	ENST00000473048	processed_transcript	KNOWN	None	13941	None	None	31853956	31858131	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_APD	SLC44A4	ENSG00000235336	ENST00000550401	protein_coding	KNOWN	None	13941	2007	668	31842330	31858180	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_APD	SLC44A4	ENSG00000235336	ENST00000550821	protein_coding	KNOWN	None	13941	1905	634	31842330	31856805	-1	C6orf29	NG22, CTL4, FLJ14491
3	None	ENSG00000244157	ENST00000492033	processed_pseudogene	KNOWN	None	None	None	None	114997972	114998707	1	None	None
1	None	ENSG00000248322	ENST00000513672	sense_overlapping	KNOWN	None	None	None	None	226124111	226125257	-1	None	None
16	CMTM1	ENSG00000089505	ENST00000332695	protein_coding	KNOWN	CCDS10810	19172	369	122	66600296	66613038	1	CKLFSF1	CKLFH1a, CKLFH
16	CMTM1	ENSG00000089505	ENST00000336328	protein_coding	KNOWN	CCDS10811	19172	351	116	66600296	66613038	1	CKLFSF1	CKLFH1a, CKLFH
16	CMTM1	ENSG00000089505	ENST00000528324	protein_coding	KNOWN	CCDS54019	19172	345	114	66600296	66613038	1	CKLFSF1	CKLFH1a, CKLFH
16	CMTM1	ENSG00000089505	ENST00000529386	nonsense_mediated_decay	KNOWN	None	19172	117	38	66600296	66613038	1	CKLFSF1	CKLFH1a, CKLFH
16	CMTM1	ENSG00000089505	ENST00000528484	nonsense_mediated_decay	KNOWN	None	19172	117	38	66600296	66613038	1	CKLFSF1	CKLFH1a, CKLFH
16	CMTM1	ENSG00000089505	ENST00000531885	protein_coding	KNOWN	CCDS54020	19172	186	61	66600296	66613038	1	CKLFSF1	CKLFH1a, CKLFH
16	CMTM1	ENSG00000089505	ENST00000533915	nonsense_mediated_decay	KNOWN	None	19172	276	91	66600296	66613038	1	CKLFSF1	CKLFH1a, CKLFH
16	CMTM1	ENSG00000089505	ENST00000333001	nonsense_mediated_decay	KNOWN	None	19172	276	91	66600296	66613038	1	CKLFSF1	CKLFH1a, CKLFH
16	CMTM1	ENSG00000089505	ENST00000529506	nonsense_mediated_decay	KNOWN	None	19172	99	32	66600296	66613038	1	CKLFSF1	CKLFH1a, CKLFH
16	CMTM1	ENSG00000089505	ENST00000533078	nonsense_mediated_decay	KNOWN	None	19172	99	32	66600296	66613038	1	CKLFSF1	CKLFH1a, CKLFH
16	CMTM1	ENSG00000089505	ENST00000457188	protein_coding	NOVEL	CCDS45503	19172	510	169	66600296	66613038	1	CKLFSF1	CKLFH1a, CKLFH
16	CMTM1	ENSG00000089505	ENST00000533666	protein_coding	PUTATIVE	CCDS54021	19172	87	28	66600296	66613040	1	CKLFSF1	CKLFH1a, CKLFH
16	CMTM1	ENSG00000089505	ENST00000533953	protein_coding	PUTATIVE	None	19172	717	238	66600334	66613038	1	CKLFSF1	CKLFH1a, CKLFH
16	CMTM1	ENSG00000089505	ENST00000379500	protein_coding	NOVEL	CCDS10812	19172	861	286	66600350	66613040	1	CKLFSF1	CKLFH1a, CKLFH
16	CMTM1	ENSG00000089505	ENST00000328020	protein_coding	NOVEL	CCDS45504	19172	696	231	66600417	66613040	1	CKLFSF1	CKLFH1a, CKLFH
16	CMTM1	ENSG00000089505	ENST00000465057	nonsense_mediated_decay	KNOWN	None	19172	394	130	66600650	66613038	1	CKLFSF1	CKLFH1a, CKLFH
16	CMTM1	ENSG00000089505	ENST00000479381	nonsense_mediated_decay	KNOWN	None	19172	394	130	66600650	66613038	1	CKLFSF1	CKLFH1a, CKLFH
16	CMTM1	ENSG00000089505	ENST00000534143	nonsense_mediated_decay	KNOWN	None	19172	394	130	66600650	66613038	1	CKLFSF1	CKLFH1a, CKLFH
16	CMTM1	ENSG00000089505	ENST00000530141	nonsense_mediated_decay	KNOWN	None	19172	394	130	66600650	66613038	1	CKLFSF1	CKLFH1a, CKLFH
16	CMTM1	ENSG00000089505	ENST00000528441	nonsense_mediated_decay	KNOWN	None	19172	394	130	66600650	66613038	1	CKLFSF1	CKLFH1a, CKLFH
16	CMTM1	ENSG00000089505	ENST00000535705	protein_coding	KNOWN	None	19172	117	38	66600294	66605089	1	CKLFSF1	CKLFH1a, CKLFH
14	None	ENSG00000251602	ENST00000551271	antisense	KNOWN	None	None	None	None	105883221	105886076	-1	None	None
14	None	ENSG00000251602	ENST00000504332	antisense	KNOWN	None	None	None	None	105883918	105886076	-1	None	None
8	MIR4472-1	ENSG00000265247	ENST00000584349	miRNA	KNOWN	None	41644	None	None	143257700	143257779	1	None	hsa-mir-4472-1
2	DPYSL5	ENSG00000157851	ENST00000450961	protein_coding	KNOWN	None	20637	496	164	27070615	27150196	1	None	CRMP5, Ulip6, CRMP-5, CRAM
2	DPYSL5	ENSG00000157851	ENST00000288699	protein_coding	KNOWN	CCDS1730	20637	1695	564	27070969	27173219	1	None	CRMP5, Ulip6, CRMP-5, CRAM
2	DPYSL5	ENSG00000157851	ENST00000401478	protein_coding	KNOWN	CCDS1730	20637	1695	564	27071157	27170065	1	None	CRMP5, Ulip6, CRMP-5, CRAM
2	DPYSL5	ENSG00000157851	ENST00000431402	protein_coding	KNOWN	None	20637	569	188	27071292	27150269	1	None	CRMP5, Ulip6, CRMP-5, CRAM
2	DPYSL5	ENSG00000157851	ENST00000434719	protein_coding	KNOWN	None	20637	524	173	27071376	27150224	1	None	CRMP5, Ulip6, CRMP-5, CRAM
2	DPYSL5	ENSG00000157851	ENST00000484882	retained_intron	KNOWN	None	20637	None	None	27161327	27171724	1	None	CRMP5, Ulip6, CRMP-5, CRAM
15	None	ENSG00000259615	ENST00000560477	antisense	KNOWN	None	None	None	None	90122996	90125528	-1	None	None
14	None	ENSG00000258994	ENST00000553679	lincRNA	KNOWN	None	None	None	None	86798720	86867629	1	None	None
12	None	ENSG00000238168	ENST00000549333	processed_pseudogene	KNOWN	None	None	None	None	112019183	112019577	1	None	None
12	None	ENSG00000238168	ENST00000423386	processed_pseudogene	KNOWN	None	None	None	None	112019179	112019607	1	None	None
2	None	ENSG00000143429	ENST00000423774	unprocessed_pseudogene	KNOWN	None	None	None	None	91842941	91843529	-1	None	None
2	None	ENSG00000143429	ENST00000544283	unprocessed_pseudogene	KNOWN	None	None	None	None	91823266	91845911	-1	None	None
2	None	ENSG00000143429	ENST00000271699	unprocessed_pseudogene	KNOWN	None	None	None	None	91824709	91847975	-1	None	None
5	DRD1	ENSG00000184845	ENST00000393752	protein_coding	KNOWN	CCDS4393	3020	1341	446	174867042	174871211	-1	None	None
17	None	ENSG00000259533	ENST00000561102	unprocessed_pseudogene	KNOWN	None	None	None	None	61963211	61963411	1	None	None
8	LINC00051	ENSG00000254008	ENST00000517704	antisense	KNOWN	None	32028	None	None	143279717	143290364	1	C8orf43, NCRNA00051	None
1	NDUFA3P3	ENSG00000213032	ENST00000423475	processed_pseudogene	KNOWN	None	45052	None	None	226151879	226152128	1	None	None
11	None	ENSG00000255507	ENST00000533945	antisense	KNOWN	None	None	None	None	75514476	75525621	-1	None	None
11	None	ENSG00000255507	ENST00000533590	antisense	KNOWN	None	None	None	None	75514507	75525618	-1	None	None
11	None	ENSG00000255507	ENST00000525580	antisense	KNOWN	None	None	None	None	75514564	75522613	-1	None	None
11	None	ENSG00000255507	ENST00000527219	antisense	KNOWN	None	None	None	None	75520318	75525600	-1	None	None
11	None	ENSG00000255507	ENST00000531263	antisense	KNOWN	None	None	None	None	75524559	75525842	-1	None	None
11	None	ENSG00000255507	ENST00000529719	antisense	KNOWN	None	None	None	None	75525532	75526451	-1	None	None
16	None	ENSG00000255185	ENST00000534700	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	70044654	70099679	-1	None	None
16	None	ENSG00000255185	ENST00000529118	retained_intron	KNOWN	None	None	None	None	70051820	70057521	-1	None	None
16	None	ENSG00000255185	ENST00000533264	processed_transcript	KNOWN	None	None	None	None	70069541	70099723	-1	None	None
16	None	ENSG00000255185	ENST00000534580	processed_transcript	KNOWN	None	None	None	None	70070335	70099750	-1	None	None
16	None	ENSG00000255185	ENST00000527016	processed_transcript	KNOWN	None	None	None	None	70070350	70099848	-1	None	None
16	None	ENSG00000255185	ENST00000525173	processed_transcript	KNOWN	None	None	None	None	70096958	70099688	-1	None	None
1	RPL4P2	ENSG00000232341	ENST00000447259	processed_pseudogene	KNOWN	None	36836	None	None	166716616	166717897	1	None	None
HG1032_PATCH	None	ENSG00000260730	ENST00000565025	processed_transcript	PUTATIVE	None	None	None	None	190701490	190861426	-1	None	None
HG1032_PATCH	None	ENSG00000260730	ENST00000566610	processed_transcript	PUTATIVE	None	None	None	None	190742266	190838477	-1	None	None
HG1032_PATCH	None	ENSG00000260730	ENST00000563999	processed_transcript	KNOWN	None	None	None	None	190742635	190860896	-1	None	None
HG1032_PATCH	None	ENSG00000260730	ENST00000561620	processed_transcript	PUTATIVE	None	None	None	None	190785417	190860992	-1	None	None
15	None	ENSG00000213862	ENST00000497325	processed_pseudogene	KNOWN	None	None	None	None	48022341	48023132	-1	None	None
15	None	ENSG00000258461	ENST00000483208	processed_transcript	KNOWN	None	None	None	None	42640301	42696486	1	None	None
15	None	ENSG00000258461	ENST00000549793	processed_transcript	KNOWN	None	None	None	None	42640301	42704515	1	None	None
15	None	ENSG00000258461	ENST00000466369	processed_transcript	KNOWN	None	None	None	None	42640301	42704515	1	None	None
15	None	ENSG00000258461	ENST00000495723	processed_transcript	KNOWN	None	None	None	None	42640301	42704515	1	None	None
6	HNRNPA1P58	ENSG00000219582	ENST00000403629	processed_pseudogene	KNOWN	None	48788	None	None	24002052	24002658	1	None	None
17	None	ENSG00000259333	ENST00000560822	unprocessed_pseudogene	KNOWN	None	None	None	None	61978003	61978239	1	None	None
X	HCCS	ENSG00000004961	ENST00000321143	protein_coding	KNOWN	CCDS14139	4837	807	268	11129421	11141198	1	None	CCHL
X	HCCS	ENSG00000004961	ENST00000380763	protein_coding	KNOWN	CCDS14139	4837	807	268	11129462	11139999	1	None	CCHL
X	HCCS	ENSG00000004961	ENST00000380762	protein_coding	KNOWN	CCDS14139	4837	807	268	11129485	11139999	1	None	CCHL
19	SLC35E1	ENSG00000127526	ENST00000593812	processed_transcript	PUTATIVE	None	20803	None	None	16660642	16663144	-1	None	FLJ14251
19	SLC35E1	ENSG00000127526	ENST00000595753	protein_coding	KNOWN	CCDS12346	20803	1233	410	16660642	16683193	-1	None	FLJ14251
19	SLC35E1	ENSG00000127526	ENST00000409648	nonsense_mediated_decay	KNOWN	None	20803	316	104	16661661	16682347	-1	None	FLJ14251
19	SLC35E1	ENSG00000127526	ENST00000596387	processed_transcript	PUTATIVE	None	20803	None	None	16662570	16663139	-1	None	FLJ14251
19	SLC35E1	ENSG00000127526	ENST00000436553	protein_coding	PUTATIVE	None	20803	1035	344	16664182	16683115	-1	None	FLJ14251
19	SLC35E1	ENSG00000127526	ENST00000600356	processed_transcript	PUTATIVE	None	20803	None	None	16664200	16675066	-1	None	FLJ14251
19	SLC35E1	ENSG00000127526	ENST00000421082	protein_coding	PUTATIVE	None	20803	348	115	16664628	16667946	-1	None	FLJ14251
19	SLC35E1	ENSG00000127526	ENST00000469055	retained_intron	KNOWN	None	20803	None	None	16664660	16666412	-1	None	FLJ14251
19	SLC35E1	ENSG00000127526	ENST00000470077	processed_transcript	KNOWN	None	20803	None	None	16666160	16677402	-1	None	FLJ14251
19	SLC35E1	ENSG00000127526	ENST00000488894	retained_intron	KNOWN	None	20803	None	None	16676039	16683020	-1	None	FLJ14251
19	SLC35E1	ENSG00000127526	ENST00000431408	protein_coding	KNOWN	None	20803	315	104	16675917	16682987	-1	None	FLJ14251
12	None	ENSG00000254451	ENST00000548779	antisense	KNOWN	None	None	None	None	75628520	75645645	1	None	None
12	None	ENSG00000254451	ENST00000549953	antisense	KNOWN	None	None	None	None	75628820	75688892	1	None	None
12	None	ENSG00000254451	ENST00000534648	antisense	KNOWN	None	None	None	None	75688836	75692288	1	None	None
2	RGPD5	ENSG00000015568	ENST00000393283	protein_coding	PUTATIVE	CCDS2083	32418	2715	904	110550335	110590596	1	None	RGP5, BS-63, DKFZp686I1842
2	RGPD5	ENSG00000015568	ENST00000430736	protein_coding	NOVEL	None	32418	402	133	110551882	110561708	1	None	RGP5, BS-63, DKFZp686I1842
2	RGPD5	ENSG00000015568	ENST00000016946	protein_coding	KNOWN	CCDS2082	32418	5298	1765	110551885	110615270	1	None	RGP5, BS-63, DKFZp686I1842
2	RGPD5	ENSG00000015568	ENST00000441344	protein_coding	KNOWN	None	32418	456	151	110551977	110565888	1	None	RGP5, BS-63, DKFZp686I1842
2	RGPD5	ENSG00000015568	ENST00000432606	protein_coding	PUTATIVE	None	32418	170	55	110552262	110561116	1	None	RGP5, BS-63, DKFZp686I1842
2	RGPD5	ENSG00000015568	ENST00000482778	retained_intron	KNOWN	None	32418	None	None	110560889	110561728	1	None	RGP5, BS-63, DKFZp686I1842
2	RGPD5	ENSG00000015568	ENST00000472794	retained_intron	KNOWN	None	32418	None	None	110561052	110562132	1	None	RGP5, BS-63, DKFZp686I1842
2	RGPD5	ENSG00000015568	ENST00000413468	nonsense_mediated_decay	KNOWN	None	32418	297	98	110561649	110593493	1	None	RGP5, BS-63, DKFZp686I1842
2	RGPD5	ENSG00000015568	ENST00000495473	retained_intron	KNOWN	None	32418	None	None	110565814	110571348	1	None	RGP5, BS-63, DKFZp686I1842
2	RGPD5	ENSG00000015568	ENST00000493394	retained_intron	KNOWN	None	32418	None	None	110576755	110581942	1	None	RGP5, BS-63, DKFZp686I1842
2	RGPD5	ENSG00000015568	ENST00000495582	processed_transcript	KNOWN	None	32418	None	None	110595460	110596570	1	None	RGP5, BS-63, DKFZp686I1842
2	RGPD5	ENSG00000015568	ENST00000477523	retained_intron	KNOWN	None	32418	None	None	110597954	110615272	1	None	RGP5, BS-63, DKFZp686I1842
2	RGPD5	ENSG00000015568	ENST00000272454	protein_coding	KNOWN	CCDS2083	32418	2715	904	110551851	110590540	1	None	RGP5, BS-63, DKFZp686I1842
17	None	ENSG00000263489	ENST00000577329	lincRNA	KNOWN	None	None	None	None	62050280	62066782	-1	None	None
1	None	ENSG00000225518	ENST00000602806	lincRNA	KNOWN	None	None	None	None	226271340	226277197	1	None	None
1	None	ENSG00000225518	ENST00000412855	lincRNA	KNOWN	None	None	None	None	226271652	226277993	1	None	None
1	None	ENSG00000232499	ENST00000424736	processed_pseudogene	KNOWN	None	None	None	None	113992322	113993350	1	None	None
8	None	ENSG00000253608	ENST00000522575	antisense	KNOWN	None	None	None	None	49464127	49611069	1	None	None
2	PLB1	ENSG00000163803	ENST00000416713	protein_coding	NOVEL	None	30041	550	182	28680012	28762032	1	None	PLB, FLJ30866
2	PLB1	ENSG00000163803	ENST00000327757	protein_coding	NOVEL	CCDS33168	30041	4377	1458	28718938	28866613	1	None	PLB, FLJ30866
2	PLB1	ENSG00000163803	ENST00000404858	protein_coding	PUTATIVE	None	30041	4340	1445	28718986	28866018	1	None	PLB, FLJ30866
2	PLB1	ENSG00000163803	ENST00000436544	protein_coding	PUTATIVE	None	30041	1533	510	28771367	28818930	1	None	PLB, FLJ30866
2	PLB1	ENSG00000163803	ENST00000485642	retained_intron	KNOWN	None	30041	None	None	28789310	28801014	1	None	PLB, FLJ30866
2	PLB1	ENSG00000163803	ENST00000481449	retained_intron	KNOWN	None	30041	None	None	28808447	28814025	1	None	PLB, FLJ30866
2	PLB1	ENSG00000163803	ENST00000479065	retained_intron	KNOWN	None	30041	None	None	28824754	28841319	1	None	PLB, FLJ30866
2	PLB1	ENSG00000163803	ENST00000411743	nonsense_mediated_decay	KNOWN	None	30041	187	61	28824786	28866133	1	None	PLB, FLJ30866
2	PLB1	ENSG00000163803	ENST00000444257	nonsense_mediated_decay	KNOWN	None	30041	834	277	28827594	28866099	1	None	PLB, FLJ30866
2	PLB1	ENSG00000163803	ENST00000473272	retained_intron	KNOWN	None	30041	None	None	28843539	28853531	1	None	PLB, FLJ30866
2	PLB1	ENSG00000163803	ENST00000436775	protein_coding	NOVEL	None	30041	484	160	28853453	28866133	1	None	PLB, FLJ30866
2	PLB1	ENSG00000163803	ENST00000422425	protein_coding	KNOWN	CCDS54340	30041	4344	1447	28718938	28866654	1	None	PLB, FLJ30866
2	PLB1	ENSG00000163803	ENST00000329020	protein_coding	KNOWN	None	30041	1467	488	28771367	28818924	1	None	PLB, FLJ30866
2	PLB1	ENSG00000163803	ENST00000541605	protein_coding	KNOWN	None	30041	1272	423	28824786	28866132	1	None	PLB, FLJ30866
15	RPL36AP43	ENSG00000241362	ENST00000460165	processed_pseudogene	KNOWN	None	36791	None	None	90231168	90231474	-1	None	None
6	None	ENSG00000251830	ENST00000516021	snoRNA	NOVEL	None	None	None	None	24166501	24166602	1	None	None
12	None	ENSG00000256888	ENST00000541949	lincRNA	KNOWN	None	None	None	None	10902833	10929987	1	None	None
12	None	ENSG00000256888	ENST00000544815	lincRNA	KNOWN	None	None	None	None	10921992	10930043	1	None	None
12	None	ENSG00000256888	ENST00000540188	lincRNA	KNOWN	None	None	None	None	10922020	10930038	1	None	None
17	None	ENSG00000264813	ENST00000577647	nonsense_mediated_decay	KNOWN	None	None	2220	739	61562184	61599209	1	None	None
6	RNU6-391P	ENSG00000202050	ENST00000365180	snRNA	KNOWN	None	47354	None	None	24365879	24365982	1	None	None
1	FMO11P	ENSG00000232148	ENST00000424742	unitary_pseudogene	KNOWN	None	32212	None	None	166732571	166762004	1	None	None
17	None	ENSG00000264954	ENST00000580942	lincRNA	KNOWN	None	None	None	None	62073431	62077259	-1	None	None
17	None	ENSG00000264954	ENST00000577545	lincRNA	KNOWN	None	None	None	None	62073830	62076291	-1	None	None
1	None	ENSG00000270598	ENST00000605837	processed_pseudogene	KNOWN	None	None	None	None	226314879	226315047	1	None	None
19	MAMSTR	ENSG00000176909	ENST00000318083	protein_coding	KNOWN	CCDS46137	26689	1248	415	49215999	49222978	-1	None	MASTR, FLJ36070
19	MAMSTR	ENSG00000176909	ENST00000356751	protein_coding	KNOWN	CCDS12730	26689	939	312	49216253	49220214	-1	None	MASTR, FLJ36070
19	MAMSTR	ENSG00000176909	ENST00000594582	protein_coding	KNOWN	None	26689	744	247	49216254	49220278	-1	None	MASTR, FLJ36070
19	MAMSTR	ENSG00000176909	ENST00000599703	protein_coding	NOVEL	None	26689	658	218	49218083	49222970	-1	None	MASTR, FLJ36070
19	MAMSTR	ENSG00000176909	ENST00000595591	protein_coding	KNOWN	None	26689	34	10	49218601	49220100	-1	None	MASTR, FLJ36070
19	MAMSTR	ENSG00000176909	ENST00000419611	protein_coding	KNOWN	CCDS12730	26689	939	312	49216255	49222978	-1	None	MASTR, FLJ36070
19	MAMSTR	ENSG00000176909	ENST00000377367	protein_coding	KNOWN	None	26689	744	247	49216255	49222978	-1	None	MASTR, FLJ36070
8	None	ENSG00000254202	ENST00000523678	lincRNA	KNOWN	None	None	None	None	84824948	85052518	1	None	None
6	KRT8P43	ENSG00000218186	ENST00000406052	processed_pseudogene	KNOWN	None	39877	None	None	24598240	24600018	1	None	None
17	None	ENSG00000266048	ENST00000584401	processed_pseudogene	KNOWN	None	None	None	None	37190179	37190295	-1	None	None
2	MIR5703	ENSG00000266382	ENST00000582757	miRNA	KNOWN	None	43475	None	None	228336848	228336903	1	None	hsa-mir-5703
1	None	ENSG00000234478	ENST00000440540	antisense	KNOWN	None	None	None	None	226335704	226342772	1	None	None
15	RNA5SP397	ENSG00000212625	ENST00000391323	rRNA	KNOWN	None	43297	None	None	61028968	61029085	1	RN5S397	None
1	MTND5P20	ENSG00000238256	ENST00000448677	processed_pseudogene	KNOWN	None	42300	None	None	114119379	114119521	-1	None	None
2	RNA5SP100	ENSG00000222835	ENST00000410903	rRNA	KNOWN	None	42898	None	None	91862883	91862992	1	RN5S100	None
7	AIMP2	ENSG00000106305	ENST00000223029	protein_coding	KNOWN	CCDS5344	20609	963	320	6048876	6063465	1	None	p38, PRO0992, JTV-1, JTV1
7	AIMP2	ENSG00000106305	ENST00000400479	protein_coding	PUTATIVE	None	20609	729	242	6048886	6063326	1	None	p38, PRO0992, JTV-1, JTV1
7	AIMP2	ENSG00000106305	ENST00000415999	nonsense_mediated_decay	KNOWN	None	20609	147	48	6048921	6054882	1	None	p38, PRO0992, JTV-1, JTV1
7	AIMP2	ENSG00000106305	ENST00000395236	protein_coding	NOVEL	None	20609	756	251	6048947	6063378	1	None	p38, PRO0992, JTV-1, JTV1
8	TPM3P3	ENSG00000254195	ENST00000521343	processed_pseudogene	KNOWN	None	39166	None	None	85074353	85074706	1	None	None
6	None	ENSG00000272345	ENST00000607014	antisense	KNOWN	None	None	None	None	24701135	24702021	-1	None	None
14	None	ENSG00000259061	ENST00000554181	lincRNA	KNOWN	None	None	None	None	87402984	87455469	1	None	None
2	None	ENSG00000236116	ENST00000413096	sense_intronic	KNOWN	None	None	None	None	228481714	228482506	-1	None	None
15	None	ENSG00000259591	ENST00000558630	antisense	KNOWN	None	None	None	None	61056105	61057234	1	None	None
15	None	ENSG00000259591	ENST00000560864	antisense	KNOWN	None	None	None	None	61056939	61057824	1	None	None
17	None	ENSG00000263899	ENST00000583175	lincRNA	KNOWN	None	None	None	None	62116510	62119203	-1	None	None
3	None	ENSG00000239146	ENST00000459417	snoRNA	NOVEL	None	None	None	None	185160007	185160107	1	None	None
8	None	ENSG00000253602	ENST00000521103	sense_intronic	KNOWN	None	None	None	None	143328948	143329227	-1	None	None
17	None	ENSG00000263818	ENST00000583447	processed_transcript	KNOWN	None	None	None	None	37213272	37237704	1	None	None
17	None	ENSG00000263818	ENST00000578423	processed_transcript	KNOWN	None	None	None	None	37213305	37268492	1	None	None
17	None	ENSG00000263818	ENST00000584586	transcribed_processed_pseudogene	KNOWN	None	None	None	None	37213317	37214289	1	None	None
17	None	ENSG00000263818	ENST00000577328	processed_transcript	KNOWN	None	None	None	None	37268268	37269443	1	None	None
6	None	ENSG00000272402	ENST00000606921	antisense	KNOWN	None	None	None	None	24706975	24707379	1	None	None
2	DRD5P1	ENSG00000184303	ENST00000456605	processed_pseudogene	KNOWN	None	3027	None	None	91872473	91873910	-1	None	None
2	DRD5P1	ENSG00000184303	ENST00000328341	processed_pseudogene	KNOWN	None	3027	None	None	91873338	91873909	-1	None	None
2	DRD5P1	ENSG00000184303	ENST00000541904	processed_pseudogene	KNOWN	None	3027	None	None	91873148	91874507	-1	None	None
8	None	ENSG00000261693	ENST00000569285	antisense	KNOWN	None	None	None	None	143485013	143488389	1	None	None
11	None	ENSG00000254890	ENST00000529418	processed_pseudogene	KNOWN	None	None	None	None	109357694	109358150	-1	None	None
1	None	ENSG00000223570	ENST00000429867	processed_pseudogene	KNOWN	None	None	None	None	226376571	226376922	-1	None	None
15	RNA5SP399	ENSG00000200873	ENST00000364003	rRNA	KNOWN	None	43299	None	None	72150911	72151027	1	RN5S399	None
17	SNORA76	ENSG00000266402	ENST00000580828	lincRNA	KNOWN	None	32662	None	None	62223330	62223669	1	None	ACA62
17	SNORA76	ENSG00000266402	ENST00000582965	lincRNA	KNOWN	None	32662	None	None	62223330	62223836	1	None	ACA62
17	SNORA76	ENSG00000266402	ENST00000408535	snoRNA	KNOWN	None	32662	None	None	62223699	62223831	1	None	ACA62
6	None	ENSG00000224164	ENST00000453179	lincRNA	KNOWN	None	None	None	None	24742530	24752149	1	None	None
6	None	ENSG00000224164	ENST00000423504	lincRNA	KNOWN	None	None	None	None	24749295	24751917	1	None	None
2	None	ENSG00000250599	ENST00000509872	unprocessed_pseudogene	KNOWN	None	None	None	None	228497685	228513322	-1	None	None
15	None	ENSG00000261632	ENST00000568391	antisense	KNOWN	None	None	None	None	72264547	72332606	1	None	None
14	None	ENSG00000258717	ENST00000557546	lincRNA	KNOWN	None	None	None	None	101142267	101146221	-1	None	None
3	None	ENSG00000236489	ENST00000455173	processed_pseudogene	KNOWN	None	None	None	None	185324363	185324661	1	None	None
1	None	ENSG00000232450	ENST00000413412	transcribed_processed_pseudogene	KNOWN	None	None	None	None	114241506	114242253	-1	None	None
HG185_PATCH	KLHL10	ENSG00000261631	ENST00000563585	protein_coding	KNOWN	None	18829	283	93	39991937	39998163	1	None	FLJ32662
HG185_PATCH	KLHL10	ENSG00000261631	ENST00000568725	protein_coding	KNOWN	None	18829	1827	608	39994032	40004636	1	None	FLJ32662
HG185_PATCH	KLHL10	ENSG00000261631	ENST00000567347	protein_coding	NOVEL	None	18829	458	151	39994077	39998356	1	None	FLJ32662
HG185_PATCH	KLHL10	ENSG00000261631	ENST00000564462	processed_transcript	KNOWN	None	18829	None	None	39994077	39998403	1	None	FLJ32662
14	None	ENSG00000257270	ENST00000552675	antisense	KNOWN	None	None	None	None	105934130	105936954	-1	None	None
11	None	ENSG00000254825	ENST00000533326	processed_pseudogene	KNOWN	None	None	None	None	56518499	56519378	-1	None	None
15	None	ENSG00000259561	ENST00000557964	sense_intronic	KNOWN	None	None	None	None	90247896	90248646	1	None	None
11	RNU5E-10P	ENSG00000200376	ENST00000363506	snRNA	KNOWN	None	42533	None	None	47598023	47598140	-1	None	None
1	None	ENSG00000238545	ENST00000458942	snoRNA	NOVEL	None	None	None	None	226491963	226492064	1	None	None
3	None	ENSG00000244668	ENST00000474888	processed_pseudogene	KNOWN	None	None	None	None	150437784	150438623	-1	None	None
11	None	ENSG00000223187	ENST00000411255	misc_RNA	NOVEL	None	None	None	None	47636450	47636546	-1	None	None
15	RNU6-132P	ENSG00000206590	ENST00000383863	snRNA	KNOWN	None	47095	None	None	90257463	90257569	1	None	None
15	None	ENSG00000259572	ENST00000558792	lincRNA	KNOWN	None	None	None	None	48095581	48138433	-1	None	None
15	None	ENSG00000259572	ENST00000561238	lincRNA	KNOWN	None	None	None	None	48106199	48138412	-1	None	None
15	None	ENSG00000259572	ENST00000558434	lincRNA	KNOWN	None	None	None	None	48111825	48137153	-1	None	None
2	None	ENSG00000230572	ENST00000436174	processed_transcript	KNOWN	None	None	None	None	91874128	91900136	-1	None	None
2	None	ENSG00000230572	ENST00000445955	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	91884478	91902771	-1	None	None
6	None	ENSG00000218806	ENST00000407157	processed_pseudogene	KNOWN	None	None	None	None	24750899	24751853	-1	None	None
17	SNORD104	ENSG00000199753	ENST00000362883	snoRNA	KNOWN	None	32768	None	None	62223443	62223512	1	None	U104
1	None	ENSG00000239094	ENST00000459532	snoRNA	NOVEL	None	None	None	None	226503762	226503865	-1	None	None
8	None	ENSG00000253362	ENST00000518452	unprocessed_pseudogene	KNOWN	None	None	None	None	85075684	85076799	-1	None	None
6	MCM9	ENSG00000111877	ENST00000316316	protein_coding	KNOWN	CCDS56447	21484	3432	1143	119134605	119256327	-1	MCMDC1, C6orf61	MGC35304, dJ329L24.3, FLJ20170
6	MCM9	ENSG00000111877	ENST00000458674	protein_coding	PUTATIVE	None	21484	549	182	119137344	119150416	-1	MCMDC1, C6orf61	MGC35304, dJ329L24.3, FLJ20170
6	MCM9	ENSG00000111877	ENST00000505485	processed_transcript	KNOWN	None	21484	None	None	119149177	119215520	-1	MCMDC1, C6orf61	MGC35304, dJ329L24.3, FLJ20170
6	MCM9	ENSG00000111877	ENST00000368478	processed_transcript	KNOWN	None	21484	None	None	119150191	119215436	-1	MCMDC1, C6orf61	MGC35304, dJ329L24.3, FLJ20170
6	MCM9	ENSG00000111877	ENST00000436788	retained_intron	KNOWN	None	21484	None	None	119231762	119245217	-1	MCMDC1, C6orf61	MGC35304, dJ329L24.3, FLJ20170
6	MCM9	ENSG00000111877	ENST00000316068	protein_coding	KNOWN	CCDS5121	21484	1176	391	119231762	119256279	-1	MCMDC1, C6orf61	MGC35304, dJ329L24.3, FLJ20170
6	MCM9	ENSG00000111877	ENST00000425154	protein_coding	KNOWN	None	21484	469	155	119245128	119256189	-1	MCMDC1, C6orf61	MGC35304, dJ329L24.3, FLJ20170
6	MCM9	ENSG00000111877	ENST00000505446	protein_coding	KNOWN	None	21484	234	77	119252655	119255641	-1	MCMDC1, C6orf61	MGC35304, dJ329L24.3, FLJ20170
11	None	ENSG00000200090	ENST00000363220	misc_RNA	NOVEL	None	None	None	None	47748446	47748544	-1	None	None
11	OR5G1P	ENSG00000181296	ENST00000525221	processed_pseudogene	KNOWN	None	8344	None	None	56542737	56543682	-1	OR5G2P	OR11-104, OR93
11	OR5G1P	ENSG00000181296	ENST00000326910	processed_pseudogene	KNOWN	None	8344	None	None	56542738	56543547	-1	OR5G2P	OR11-104, OR93
8	MROH4P	ENSG00000232722	ENST00000431302	unitary_pseudogene	KNOWN	None	44902	None	None	143648621	143653366	-1	None	None
1	YBX1P9	ENSG00000236994	ENST00000441264	processed_pseudogene	KNOWN	None	42430	None	None	226505716	226506394	-1	None	None
11	None	ENSG00000252447	ENST00000516638	snoRNA	NOVEL	None	None	None	None	47749098	47749189	1	None	None
17	RPL31P57	ENSG00000256358	ENST00000461109	processed_pseudogene	KNOWN	None	35703	None	None	62385676	62386050	-1	None	None
11	None	ENSG00000271543	ENST00000604478	processed_pseudogene	KNOWN	None	None	None	None	47817721	47817931	1	None	None
8	None	ENSG00000242958	ENST00000472104	processed_pseudogene	KNOWN	None	None	None	None	28667620	28667935	1	None	None
12	None	ENSG00000258099	ENST00000547021	antisense	KNOWN	None	None	None	None	112037302	112038060	1	None	None
21	None	ENSG00000225637	ENST00000435702	lincRNA	KNOWN	None	None	None	None	44783212	44786446	1	None	None
11	None	ENSG00000255485	ENST00000525251	processed_pseudogene	KNOWN	None	None	None	None	56557682	56558441	-1	None	None
11	RNA5SP340	ENSG00000252941	ENST00000517132	rRNA	KNOWN	None	43240	None	None	47825848	47825954	-1	RN5S340	None
11	None	ENSG00000254482	ENST00000525638	processed_pseudogene	KNOWN	None	None	None	None	109508194	109508854	-1	None	None
X	RNA5SP516	ENSG00000201000	ENST00000364130	rRNA	KNOWN	None	43416	None	None	141498839	141498957	1	RN5S516	None
6	None	ENSG00000231329	ENST00000589192	antisense	KNOWN	None	None	None	None	139465341	139560442	-1	None	None
6	None	ENSG00000231329	ENST00000587577	antisense	KNOWN	None	None	None	None	139465528	139560442	-1	None	None
6	None	ENSG00000231329	ENST00000586229	antisense	KNOWN	None	None	None	None	139465614	139560442	-1	None	None
6	None	ENSG00000231329	ENST00000588638	antisense	KNOWN	None	None	None	None	139474147	139560442	-1	None	None
6	None	ENSG00000231329	ENST00000415194	antisense	KNOWN	None	None	None	None	139480294	139560442	-1	None	None
6	None	ENSG00000231329	ENST00000586266	antisense	KNOWN	None	None	None	None	139480301	139560442	-1	None	None
6	None	ENSG00000231329	ENST00000590679	antisense	KNOWN	None	None	None	None	139480302	139560442	-1	None	None
6	None	ENSG00000231329	ENST00000588529	antisense	KNOWN	None	None	None	None	139487164	139560442	-1	None	None
6	None	ENSG00000231329	ENST00000591102	antisense	KNOWN	None	None	None	None	139490717	139560442	-1	None	None
6	None	ENSG00000231329	ENST00000585447	antisense	KNOWN	None	None	None	None	139491194	139560442	-1	None	None
6	None	ENSG00000231329	ENST00000590219	antisense	KNOWN	None	None	None	None	139495606	139560442	-1	None	None
6	None	ENSG00000231329	ENST00000587814	antisense	KNOWN	None	None	None	None	139504126	139560442	-1	None	None
6	None	ENSG00000231329	ENST00000587333	antisense	KNOWN	None	None	None	None	139518849	139560439	-1	None	None
6	None	ENSG00000231329	ENST00000592557	antisense	KNOWN	None	None	None	None	139521019	139560442	-1	None	None
1	None	ENSG00000270287	ENST00000604335	processed_pseudogene	KNOWN	None	None	None	None	226599316	226599836	-1	None	None
9	C9orf3	ENSG00000148120	ENST00000277198	protein_coding	KNOWN	CCDS55327	1361	1701	566	97488983	97694115	1	None	C90RF3, FLJ14675, APO, AOPEP, AP-O
9	C9orf3	ENSG00000148120	ENST00000297979	protein_coding	KNOWN	CCDS6713	1361	2163	720	97488994	97849441	1	None	C90RF3, FLJ14675, APO, AOPEP, AP-O
9	C9orf3	ENSG00000148120	ENST00000427193	protein_coding	KNOWN	None	1361	423	140	97522444	97525693	1	None	C90RF3, FLJ14675, APO, AOPEP, AP-O
9	C9orf3	ENSG00000148120	ENST00000489318	processed_transcript	KNOWN	None	1361	None	None	97522588	97535537	1	None	C90RF3, FLJ14675, APO, AOPEP, AP-O
9	C9orf3	ENSG00000148120	ENST00000424143	protein_coding	KNOWN	None	1361	1527	508	97522597	97843176	1	None	C90RF3, FLJ14675, APO, AOPEP, AP-O
9	C9orf3	ENSG00000148120	ENST00000428313	protein_coding	KNOWN	None	1361	1806	601	97522720	97849441	1	None	C90RF3, FLJ14675, APO, AOPEP, AP-O
9	C9orf3	ENSG00000148120	ENST00000488186	processed_transcript	KNOWN	None	1361	None	None	97682497	97697638	1	None	C90RF3, FLJ14675, APO, AOPEP, AP-O
9	C9orf3	ENSG00000148120	ENST00000473778	processed_transcript	KNOWN	None	1361	None	None	97683486	97695953	1	None	C90RF3, FLJ14675, APO, AOPEP, AP-O
9	C9orf3	ENSG00000148120	ENST00000462125	processed_transcript	KNOWN	None	1361	None	None	97683491	97843038	1	None	C90RF3, FLJ14675, APO, AOPEP, AP-O
9	C9orf3	ENSG00000148120	ENST00000479161	processed_transcript	KNOWN	None	1361	None	None	97683542	97844874	1	None	C90RF3, FLJ14675, APO, AOPEP, AP-O
9	C9orf3	ENSG00000148120	ENST00000451893	protein_coding	KNOWN	None	1361	436	144	97718228	97768482	1	None	C90RF3, FLJ14675, APO, AOPEP, AP-O
9	C9orf3	ENSG00000148120	ENST00000460573	processed_transcript	KNOWN	None	1361	None	None	97730066	97823201	1	None	C90RF3, FLJ14675, APO, AOPEP, AP-O
9	C9orf3	ENSG00000148120	ENST00000478603	processed_transcript	KNOWN	None	1361	None	None	97766199	97823269	1	None	C90RF3, FLJ14675, APO, AOPEP, AP-O
9	C9orf3	ENSG00000148120	ENST00000471978	processed_transcript	KNOWN	None	1361	None	None	97767262	97849013	1	None	C90RF3, FLJ14675, APO, AOPEP, AP-O
9	C9orf3	ENSG00000148120	ENST00000445181	protein_coding	KNOWN	None	1361	553	183	97767278	97845317	1	None	C90RF3, FLJ14675, APO, AOPEP, AP-O
9	C9orf3	ENSG00000148120	ENST00000478473	nonsense_mediated_decay	KNOWN	None	1361	541	179	97767290	97849123	1	None	C90RF3, FLJ14675, APO, AOPEP, AP-O
9	C9orf3	ENSG00000148120	ENST00000496567	processed_transcript	KNOWN	None	1361	None	None	97767295	97784559	1	None	C90RF3, FLJ14675, APO, AOPEP, AP-O
9	C9orf3	ENSG00000148120	ENST00000463372	processed_transcript	KNOWN	None	1361	None	None	97767379	97849334	1	None	C90RF3, FLJ14675, APO, AOPEP, AP-O
9	C9orf3	ENSG00000148120	ENST00000482056	processed_transcript	KNOWN	None	1361	None	None	97781173	97784562	1	None	C90RF3, FLJ14675, APO, AOPEP, AP-O
9	C9orf3	ENSG00000148120	ENST00000489562	processed_transcript	KNOWN	None	1361	None	None	97811050	97845010	1	None	C90RF3, FLJ14675, APO, AOPEP, AP-O
9	C9orf3	ENSG00000148120	ENST00000468164	processed_transcript	KNOWN	None	1361	None	None	97818552	97849200	1	None	C90RF3, FLJ14675, APO, AOPEP, AP-O
9	C9orf3	ENSG00000148120	ENST00000375315	protein_coding	KNOWN	CCDS55328	1361	2460	819	97522066	97849440	1	None	C90RF3, FLJ14675, APO, AOPEP, AP-O
9	C9orf3	ENSG00000148120	ENST00000395357	protein_coding	KNOWN	None	1361	561	186	97562458	97694263	1	None	C90RF3, FLJ14675, APO, AOPEP, AP-O
9	C9orf3	ENSG00000148120	ENST00000425634	protein_coding	KNOWN	None	1361	546	181	97766415	97845227	1	None	C90RF3, FLJ14675, APO, AOPEP, AP-O
9	C9orf3	ENSG00000148120	ENST00000433691	protein_coding	KNOWN	None	1361	483	160	97766506	97845950	1	None	C90RF3, FLJ14675, APO, AOPEP, AP-O
15	None	ENSG00000260576	ENST00000564027	processed_pseudogene	KNOWN	None	None	None	None	72333535	72333994	-1	None	None
11	None	ENSG00000252874	ENST00000517065	misc_RNA	NOVEL	None	None	None	None	47841755	47841844	-1	None	None
8	HMBOX1-IT1	ENSG00000259196	ENST00000558292	sense_intronic	KNOWN	None	43632	None	None	28807193	28813472	1	None	None
6	None	ENSG00000263391	ENST00000583229	miRNA	NOVEL	None	None	None	None	24840195	24840293	-1	None	None
15	MRPL15P1	ENSG00000259441	ENST00000559543	processed_pseudogene	KNOWN	None	29697	None	None	90295527	90296724	1	None	None
1	CNN2P10	ENSG00000232223	ENST00000443067	processed_pseudogene	KNOWN	None	39535	None	None	166765503	166766420	1	None	None
21	LINC00319	ENSG00000188660	ENST00000448049	lincRNA	KNOWN	None	19730	None	None	44866481	44873773	1	C21orf125, NCRNA00319	PRED49, FLJ38036
21	LINC00319	ENSG00000188660	ENST00000342757	lincRNA	KNOWN	None	19730	None	None	44869904	44873773	1	C21orf125, NCRNA00319	PRED49, FLJ38036
17	None	ENSG00000222494	ENST00000410562	miRNA	NOVEL	None	None	None	None	37237318	37237440	1	None	None
1	None	ENSG00000229965	ENST00000411586	processed_pseudogene	KNOWN	None	None	None	None	226626265	226627045	1	None	None
X	None	ENSG00000266319	ENST00000580530	miRNA	NOVEL	None	None	None	None	141694646	141694731	-1	None	None
14	ATP5G1P1	ENSG00000230157	ENST00000448724	processed_pseudogene	KNOWN	None	19815	None	None	106003198	106003576	-1	ATP5GP3	None
8	None	ENSG00000253688	ENST00000524011	lincRNA	KNOWN	None	None	None	None	49464575	49469001	-1	None	None
6	None	ENSG00000217083	ENST00000402100	processed_pseudogene	KNOWN	None	None	None	None	24948108	24948572	1	None	None
17	None	ENSG00000256826	ENST00000538774	processed_pseudogene	KNOWN	None	None	None	None	62487640	62487906	1	None	None
3	None	ENSG00000230084	ENST00000438017	antisense	KNOWN	None	None	None	None	42643455	42695880	-1	None	None
3	None	ENSG00000230084	ENST00000445452	antisense	KNOWN	None	None	None	None	42653782	42695880	-1	None	None
3	None	ENSG00000230084	ENST00000434363	antisense	KNOWN	None	None	None	None	42674060	42695818	-1	None	None
17	None	ENSG00000266101	ENST00000579256	antisense	KNOWN	None	None	None	None	37329543	37333756	1	None	None
1	None	ENSG00000231128	ENST00000429398	antisense	KNOWN	None	None	None	None	114355001	114366118	1	None	None
1	None	ENSG00000231128	ENST00000418238	antisense	KNOWN	None	None	None	None	114355230	114358098	1	None	None
1	None	ENSG00000231128	ENST00000448199	antisense	KNOWN	None	None	None	None	114366035	114371793	1	None	None
14	None	ENSG00000258682	ENST00000557322	sense_overlapping	KNOWN	None	None	None	None	58731380	58736399	1	None	None
12	None	ENSG00000235930	ENST00000412576	processed_pseudogene	KNOWN	None	None	None	None	10922904	10923204	1	None	None
3	HEMK1	ENSG00000114735	ENST00000434410	protein_coding	KNOWN	CCDS2830	24923	1017	338	50606583	50618107	1	None	MTQ1
3	HEMK1	ENSG00000114735	ENST00000232854	protein_coding	KNOWN	CCDS2830	24923	1017	338	50606628	50622366	1	None	MTQ1
3	HEMK1	ENSG00000114735	ENST00000448997	nonsense_mediated_decay	KNOWN	None	24923	267	88	50606909	50622179	1	None	MTQ1
3	HEMK1	ENSG00000114735	ENST00000455834	protein_coding	KNOWN	CCDS2830	24923	1017	338	50606924	50618103	1	None	MTQ1
3	HEMK1	ENSG00000114735	ENST00000482974	retained_intron	KNOWN	None	24923	None	None	50606998	50618104	1	None	MTQ1
3	HEMK1	ENSG00000114735	ENST00000424388	nonsense_mediated_decay	KNOWN	None	24923	267	88	50607001	50614563	1	None	MTQ1
3	HEMK1	ENSG00000114735	ENST00000443894	protein_coding	NOVEL	None	24923	375	124	50614555	50618107	1	None	MTQ1
14	None	ENSG00000258496	ENST00000555490	lincRNA	KNOWN	None	None	None	None	87717447	87718023	1	None	None
8	RNA5SP260	ENSG00000200719	ENST00000363849	rRNA	KNOWN	None	43160	None	None	28906011	28906121	-1	RN5S260	None
12	None	ENSG00000258112	ENST00000549521	processed_pseudogene	KNOWN	None	None	None	None	75651415	75652414	-1	None	None
17	NLGN2	ENSG00000169992	ENST00000575301	protein_coding	NOVEL	CCDS11103	14290	2508	835	7308193	7322003	1	None	KIAA1366
17	NLGN2	ENSG00000169992	ENST00000572893	processed_transcript	PUTATIVE	None	14290	None	None	7308675	7311828	1	None	KIAA1366
17	NLGN2	ENSG00000169992	ENST00000302926	protein_coding	KNOWN	CCDS11103	14290	2508	835	7311502	7323179	1	None	KIAA1366
17	NLGN2	ENSG00000169992	ENST00000570940	protein_coding	NOVEL	None	14290	581	192	7311960	7318447	1	None	KIAA1366
12	None	ENSG00000256694	ENST00000540136	antisense	KNOWN	None	None	None	None	273830	275487	-1	None	None
11	OR5G5P	ENSG00000205025	ENST00000440707	transcribed_unprocessed_pseudogene	KNOWN	None	15289	None	None	56569332	56570270	-1	None	None
11	OR5G5P	ENSG00000205025	ENST00000531887	processed_transcript	KNOWN	None	15289	None	None	56569552	56587123	-1	None	None
11	OR5G5P	ENSG00000205025	ENST00000378368	processed_transcript	KNOWN	None	15289	None	None	56569560	56587184	-1	None	None
10	GOT1	ENSG00000120053	ENST00000370508	protein_coding	KNOWN	CCDS7479	4432	1242	413	101156627	101190350	-1	None	None
10	GOT1	ENSG00000120053	ENST00000489349	processed_transcript	KNOWN	None	4432	None	None	101157222	101163506	-1	None	None
10	GOT1	ENSG00000120053	ENST00000471741	processed_transcript	KNOWN	None	4432	None	None	101180024	101190381	-1	None	None
10	GOT1	ENSG00000120053	ENST00000543866	protein_coding	KNOWN	None	4432	1179	392	101157220	101190202	-1	None	None
X	None	ENSG00000239188	ENST00000458936	snoRNA	NOVEL	None	None	None	None	141961746	141961849	-1	None	None
6	TRIM26	ENSG00000234127	ENST00000480999	retained_intron	KNOWN	None	12962	None	None	30152232	30158171	-1	ZNF173	RNF95
6	TRIM26	ENSG00000234127	ENST00000437089	protein_coding	KNOWN	CCDS4678	12962	1620	539	30152232	30172542	-1	ZNF173	RNF95
6	TRIM26	ENSG00000234127	ENST00000454678	protein_coding	KNOWN	CCDS4678	12962	1620	539	30152232	30181143	-1	ZNF173	RNF95
6	TRIM26	ENSG00000234127	ENST00000453195	protein_coding	KNOWN	CCDS4678	12962	1620	539	30152232	30181204	-1	ZNF173	RNF95
6	TRIM26	ENSG00000234127	ENST00000416596	protein_coding	KNOWN	None	12962	745	247	30164313	30181196	-1	ZNF173	RNF95
6	TRIM26	ENSG00000234127	ENST00000418026	protein_coding	KNOWN	None	12962	472	156	30166268	30181162	-1	ZNF173	RNF95
6	TRIM26	ENSG00000234127	ENST00000434785	protein_coding	KNOWN	None	12962	366	121	30166515	30181143	-1	ZNF173	RNF95
6	TRIM26	ENSG00000234127	ENST00000487829	processed_transcript	KNOWN	None	12962	None	None	30166541	30181142	-1	ZNF173	RNF95
3	MIR548AQ	ENSG00000265470	ENST00000580207	miRNA	KNOWN	None	43488	None	None	185485635	185485692	-1	None	hsa-mir-548aq
17	MIR3064	ENSG00000265695	ENST00000581130	miRNA	KNOWN	None	41652	None	None	62496891	62496957	-1	None	hsa-mir-3064
15	None	ENSG00000259392	ENST00000561418	transcribed_processed_pseudogene	KNOWN	None	None	None	None	33129184	33129527	-1	None	None
17	None	ENSG00000265460	ENST00000579400	transcribed_processed_pseudogene	KNOWN	None	None	None	None	37394719	37401920	1	None	None
17	None	ENSG00000265460	ENST00000580264	processed_transcript	KNOWN	None	None	None	None	37400216	37407071	1	None	None
8	None	ENSG00000233858	ENST00000430626	lincRNA	KNOWN	None	None	None	None	49502961	49507181	1	None	None
8	None	ENSG00000261044	ENST00000563435	antisense	KNOWN	None	None	None	None	143701734	143702425	1	None	None
11	None	ENSG00000255322	ENST00000532947	lincRNA	KNOWN	None	None	None	None	28373654	28548588	1	None	None
1	DUTP6	ENSG00000225171	ENST00000425573	processed_pseudogene	KNOWN	None	39519	None	None	166837985	166838446	1	None	None
3	SIAH2-AS1	ENSG00000244265	ENST00000461943	antisense	KNOWN	None	40526	None	None	150479724	150480325	1	None	None
15	RNU2-65P	ENSG00000222094	ENST00000410162	snRNA	KNOWN	None	48558	None	None	72337524	72337708	1	None	None
17	MIR5047	ENSG00000266241	ENST00000579212	miRNA	KNOWN	None	41834	None	None	62497332	62497431	-1	None	hsa-mir-5047
1	RN7SKP165	ENSG00000223282	ENST00000411350	misc_RNA	KNOWN	None	45889	None	None	226633638	226633993	1	None	None
8	None	ENSG00000253753	ENST00000522374	antisense	KNOWN	None	None	None	None	143719949	143722027	1	None	None
8	None	ENSG00000221185	ENST00000408258	miRNA	NOVEL	None	None	None	None	85208238	85208323	-1	None	None
2	None	ENSG00000271627	ENST00000605371	processed_pseudogene	KNOWN	None	None	None	None	91911049	91911631	1	None	None
4	TRMT10A	ENSG00000145331	ENST00000394877	protein_coding	KNOWN	CCDS3650	28403	1020	339	100467866	100485174	-1	RG9MTD2	MGC27034, TRM10
4	TRMT10A	ENSG00000145331	ENST00000273962	protein_coding	KNOWN	CCDS3650	28403	1020	339	100467884	100484825	-1	RG9MTD2	MGC27034, TRM10
4	TRMT10A	ENSG00000145331	ENST00000394876	protein_coding	KNOWN	CCDS3650	28403	1020	339	100469770	100485189	-1	RG9MTD2	MGC27034, TRM10
4	TRMT10A	ENSG00000145331	ENST00000455368	protein_coding	KNOWN	None	28403	617	204	100474970	100484887	-1	RG9MTD2	MGC27034, TRM10
4	TRMT10A	ENSG00000145331	ENST00000514547	protein_coding	KNOWN	None	28403	599	198	100474988	100484880	-1	RG9MTD2	MGC27034, TRM10
4	TRMT10A	ENSG00000145331	ENST00000515831	retained_intron	KNOWN	None	28403	None	None	100477303	100478687	-1	RG9MTD2	MGC27034, TRM10
4	TRMT10A	ENSG00000145331	ENST00000507394	retained_intron	KNOWN	None	28403	None	None	100478846	100484829	-1	RG9MTD2	MGC27034, TRM10
17	None	ENSG00000266566	ENST00000579926	miRNA	NOVEL	None	None	None	None	62526893	62526975	-1	None	None
1	AP4B1-AS1	ENSG00000226167	ENST00000419536	antisense	KNOWN	None	44114	None	None	114399257	114443859	1	None	None
14	RAB2B	ENSG00000129472	ENST00000397762	protein_coding	KNOWN	CCDS9570	20246	651	216	21927179	21945132	-1	None	FLJ14824
14	RAB2B	ENSG00000129472	ENST00000417141	nonsense_mediated_decay	KNOWN	None	20246	189	62	21929357	21945117	-1	None	FLJ14824
14	RAB2B	ENSG00000129472	ENST00000461909	processed_transcript	KNOWN	None	20246	None	None	21929404	21944832	-1	None	FLJ14824
14	RAB2B	ENSG00000129472	ENST00000475857	processed_transcript	KNOWN	None	20246	None	None	21942679	21945119	-1	None	FLJ14824
14	RAB2B	ENSG00000129472	ENST00000485996	processed_transcript	PUTATIVE	None	20246	None	None	21944426	21945095	-1	None	FLJ14824
17	NR1D1	ENSG00000126368	ENST00000246672	protein_coding	KNOWN	CCDS11361	7962	1845	614	38249040	38256978	-1	THRAL	ear-1, hRev, Rev-ErbAalpha, THRA1
HG348_PATCH	None	ENSG00000262340	ENST00000575218	antisense	PUTATIVE	None	None	None	None	94607217	94658686	-1	None	None
15	None	ENSG00000223253	ENST00000411321	miRNA	NOVEL	None	None	None	None	72343592	72343670	1	None	None
12	None	ENSG00000257823	ENST00000547243	processed_pseudogene	KNOWN	None	None	None	None	75699232	75700137	1	None	None
21	LINC00313	ENSG00000185186	ENST00000426942	lincRNA	KNOWN	None	16416	None	None	44881974	44884853	-1	C21orf84, NCRNA00313	None
21	LINC00313	ENSG00000185186	ENST00000332440	lincRNA	KNOWN	None	16416	None	None	44881974	44898103	-1	C21orf84, NCRNA00313	None
21	LINC00313	ENSG00000185186	ENST00000413721	lincRNA	KNOWN	None	16416	None	None	44881992	44884696	-1	C21orf84, NCRNA00313	None
21	LINC00313	ENSG00000185186	ENST00000451543	lincRNA	KNOWN	None	16416	None	None	44881992	44884797	-1	C21orf84, NCRNA00313	None
21	LINC00313	ENSG00000185186	ENST00000418516	lincRNA	KNOWN	None	16416	None	None	44881992	44884797	-1	C21orf84, NCRNA00313	None
21	LINC00313	ENSG00000185186	ENST00000427188	lincRNA	KNOWN	None	16416	None	None	44890313	44891472	-1	C21orf84, NCRNA00313	None
21	LINC00313	ENSG00000185186	ENST00000441283	lincRNA	KNOWN	None	16416	None	None	44895805	44899414	-1	C21orf84, NCRNA00313	None
1	CDKN2AIPNLP1	ENSG00000177770	ENST00000460287	processed_pseudogene	KNOWN	None	39854	None	None	226680889	226681190	-1	None	None
1	CDKN2AIPNLP1	ENSG00000177770	ENST00000536147	processed_pseudogene	KNOWN	None	39854	None	None	226680889	226681137	-1	None	None
17	None	ENSG00000271779	ENST00000606889	processed_pseudogene	KNOWN	None	None	None	None	62568947	62569199	1	None	None
1	None	ENSG00000237096	ENST00000414590	lincRNA	KNOWN	None	None	None	None	166864948	166877317	-1	None	None
12	None	ENSG00000256540	ENST00000537295	lincRNA	KNOWN	None	None	None	None	276022	291562	-1	None	None
12	None	ENSG00000256540	ENST00000537961	lincRNA	KNOWN	None	None	None	None	276168	291565	-1	None	None
HG311_PATCH	None	ENSG00000261896	ENST00000570745	processed_pseudogene	KNOWN	None	None	None	None	118509418	118510778	1	None	None
8	RNU6-1040P	ENSG00000206701	ENST00000383974	snRNA	KNOWN	None	48003	None	None	85577994	85578100	-1	None	None
2	None	ENSG00000223703	ENST00000445234	unprocessed_pseudogene	KNOWN	None	None	None	None	91924752	91955465	1	None	None
19	ZSCAN5C	ENSG00000204532	ENST00000534327	protein_coding	KNOWN	None	34294	1491	496	56713670	56720821	1	None	ZNF495C
19	ZSCAN5C	ENSG00000204532	ENST00000376267	protein_coding	KNOWN	None	34294	1491	496	56717283	56720569	1	None	ZNF495C
21	SUMO3	ENSG00000184900	ENST00000397898	protein_coding	NOVEL	None	11124	408	135	46225532	46237966	-1	SMT3H1	SMT3A
21	SUMO3	ENSG00000184900	ENST00000332859	protein_coding	KNOWN	CCDS33587	11124	312	103	46225532	46238044	-1	SMT3H1	SMT3A
21	SUMO3	ENSG00000184900	ENST00000479153	processed_transcript	KNOWN	None	11124	None	None	46225532	46238694	-1	SMT3H1	SMT3A
21	SUMO3	ENSG00000184900	ENST00000397893	protein_coding	PUTATIVE	None	11124	444	147	46228186	46237883	-1	SMT3H1	SMT3A
21	SUMO3	ENSG00000184900	ENST00000466861	retained_intron	KNOWN	None	11124	None	None	46233425	46238020	-1	SMT3H1	SMT3A
21	SUMO3	ENSG00000184900	ENST00000411651	protein_coding	KNOWN	None	11124	426	141	46226574	46237996	-1	SMT3H1	SMT3A
9	None	ENSG00000264298	ENST00000578012	miRNA	NOVEL	None	None	None	None	132240835	132240931	1	None	None
8	None	ENSG00000253137	ENST00000521355	processed_pseudogene	KNOWN	None	None	None	None	85591033	85592077	1	None	None
11	None	ENSG00000271557	ENST00000605553	processed_pseudogene	KNOWN	None	None	None	None	47862876	47863234	1	None	None
11	None	ENSG00000254659	ENST00000534252	lincRNA	KNOWN	None	None	None	None	109622168	109694573	-1	None	None
17	MINOS1P2	ENSG00000270714	ENST00000604003	processed_pseudogene	KNOWN	None	44092	None	None	62743382	62743610	-1	None	None
14	ISM2	ENSG00000100593	ENST00000216481	nonsense_mediated_decay	KNOWN	None	23176	231	76	77940740	77965159	-1	THSD3	FLJ32147, TAIL1
14	ISM2	ENSG00000100593	ENST00000342219	protein_coding	KNOWN	CCDS9864	23176	1716	571	77940740	77965193	-1	THSD3	FLJ32147, TAIL1
14	ISM2	ENSG00000100593	ENST00000493585	protein_coding	KNOWN	CCDS45143	23176	879	292	77941592	77965159	-1	THSD3	FLJ32147, TAIL1
14	ISM2	ENSG00000100593	ENST00000487738	retained_intron	KNOWN	None	23176	None	None	77942183	77949242	-1	THSD3	FLJ32147, TAIL1
14	ISM2	ENSG00000100593	ENST00000554801	protein_coding	NOVEL	None	23176	556	184	77948839	77965159	-1	THSD3	FLJ32147, TAIL1
14	ISM2	ENSG00000100593	ENST00000471734	nonsense_mediated_decay	KNOWN	None	23176	221	72	77948934	77965009	-1	THSD3	FLJ32147, TAIL1
14	ISM2	ENSG00000100593	ENST00000472744	retained_intron	KNOWN	None	23176	None	None	77950170	77965150	-1	THSD3	FLJ32147, TAIL1
14	ISM2	ENSG00000100593	ENST00000480979	nonsense_mediated_decay	KNOWN	None	23176	313	103	77950743	77965101	-1	THSD3	FLJ32147, TAIL1
14	ISM2	ENSG00000100593	ENST00000412904	protein_coding	KNOWN	None	23176	1473	490	77940740	77965210	-1	THSD3	FLJ32147, TAIL1
14	ISM2	ENSG00000100593	ENST00000429906	protein_coding	KNOWN	None	23176	1473	490	77940740	77965210	-1	THSD3	FLJ32147, TAIL1
14	ISM2	ENSG00000100593	ENST00000393684	protein_coding	KNOWN	None	23176	1452	483	77940740	77965159	-1	THSD3	FLJ32147, TAIL1
1	ACTRT2	ENSG00000169717	ENST00000378404	protein_coding	KNOWN	CCDS45	24026	1134	377	2938046	2939465	1	None	Arp-T2, ARPM2, FLJ25424
8	None	ENSG00000253991	ENST00000519490	processed_pseudogene	KNOWN	None	None	None	None	102540951	102541797	-1	None	None
9	None	ENSG00000261334	ENST00000565882	lincRNA	KNOWN	None	None	None	None	132242884	132244817	-1	None	None
15	MIR5094	ENSG00000264966	ENST00000578766	miRNA	KNOWN	None	43519	None	None	90393869	90393953	-1	None	hsa-mir-5094
12	None	ENSG00000256651	ENST00000541449	processed_pseudogene	KNOWN	None	None	None	None	10983673	10984615	-1	None	None
1	RNA5SP65	ENSG00000200036	ENST00000363166	rRNA	KNOWN	None	42842	None	None	166975196	166975314	1	RN5S65	None
12	None	ENSG00000256552	ENST00000537764	processed_transcript	KNOWN	None	None	None	None	8472977	8522151	1	None	None
12	None	ENSG00000256552	ENST00000411880	transcribed_processed_pseudogene	KNOWN	None	None	None	None	8521588	8521956	1	None	None
15	RNF111	ENSG00000157450	ENST00000559757	protein_coding	KNOWN	None	17384	394	130	59157374	59323415	1	None	ARK, Arkadia, FLJ38008, DKFZP761D081
15	RNF111	ENSG00000157450	ENST00000348370	protein_coding	KNOWN	CCDS10169	17384	2961	986	59279854	59389618	1	None	ARK, Arkadia, FLJ38008, DKFZP761D081
15	RNF111	ENSG00000157450	ENST00000559160	protein_coding	PUTATIVE	None	17384	385	127	59279876	59323337	1	None	ARK, Arkadia, FLJ38008, DKFZP761D081
15	RNF111	ENSG00000157450	ENST00000559209	protein_coding	NOVEL	CCDS58365	17384	2988	995	59280151	59389253	1	None	ARK, Arkadia, FLJ38008, DKFZP761D081
15	RNF111	ENSG00000157450	ENST00000557998	protein_coding	KNOWN	CCDS58366	17384	2985	994	59280337	59388630	1	None	ARK, Arkadia, FLJ38008, DKFZP761D081
15	RNF111	ENSG00000157450	ENST00000561186	protein_coding	KNOWN	None	17384	3012	1003	59323022	59388623	1	None	ARK, Arkadia, FLJ38008, DKFZP761D081
15	RNF111	ENSG00000157450	ENST00000559592	protein_coding	PUTATIVE	None	17384	573	190	59323823	59350883	1	None	ARK, Arkadia, FLJ38008, DKFZP761D081
15	RNF111	ENSG00000157450	ENST00000558977	retained_intron	KNOWN	None	17384	None	None	59373143	59376563	1	None	ARK, Arkadia, FLJ38008, DKFZP761D081
15	RNF111	ENSG00000157450	ENST00000559077	retained_intron	KNOWN	None	17384	None	None	59376139	59381895	1	None	ARK, Arkadia, FLJ38008, DKFZP761D081
15	RNF111	ENSG00000157450	ENST00000560216	retained_intron	KNOWN	None	17384	None	None	59377705	59384813	1	None	ARK, Arkadia, FLJ38008, DKFZP761D081
15	RNF111	ENSG00000157450	ENST00000560952	retained_intron	KNOWN	None	17384	None	None	59377786	59388625	1	None	ARK, Arkadia, FLJ38008, DKFZP761D081
15	RNF111	ENSG00000157450	ENST00000560080	processed_transcript	KNOWN	None	17384	None	None	59385601	59387710	1	None	ARK, Arkadia, FLJ38008, DKFZP761D081
15	RNF111	ENSG00000157450	ENST00000434298	protein_coding	KNOWN	None	17384	3012	1003	59279865	59389249	1	None	ARK, Arkadia, FLJ38008, DKFZP761D081
1	None	ENSG00000238325	ENST00000459393	snoRNA	NOVEL	None	None	None	None	167010672	167010773	1	None	None
15	None	ENSG00000259677	ENST00000559166	processed_pseudogene	KNOWN	None	None	None	None	90419772	90420517	1	None	None
3	None	ENSG00000206728	ENST00000384001	misc_RNA	NOVEL	None	None	None	None	23315298	23315401	1	None	None
1	ITPKB-IT1	ENSG00000228382	ENST00000443422	sense_intronic	KNOWN	None	41349	None	None	226844341	226847371	-1	None	None
1	ITPKB-IT1	ENSG00000228382	ENST00000412918	sense_intronic	KNOWN	None	41349	None	None	226844381	226862768	-1	None	None
12	None	ENSG00000256682	ENST00000542513	processed_pseudogene	KNOWN	None	None	None	None	11047542	11048481	-1	None	None
HG348_PATCH	ST13P11	ENSG00000261844	ENST00000570838	processed_pseudogene	KNOWN	None	38746	None	None	94646212	94646931	1	None	None
1	None	ENSG00000227907	ENST00000417644	antisense	KNOWN	None	None	None	None	167021788	167027779	1	None	None
1	None	ENSG00000235527	ENST00000441071	antisense	KNOWN	None	None	None	None	114466622	114471940	-1	None	None
1	None	ENSG00000235527	ENST00000427953	retained_intron	KNOWN	None	None	None	None	114466623	114471854	-1	None	None
1	None	ENSG00000235527	ENST00000450706	antisense	KNOWN	None	None	None	None	114466623	114471880	-1	None	None
1	None	ENSG00000235527	ENST00000426237	retained_intron	KNOWN	None	None	None	None	114470257	114472114	-1	None	None
11	None	ENSG00000254606	ENST00000524707	lincRNA	KNOWN	None	None	None	None	28538379	28540888	1	None	None
14	ELK2BP	ENSG00000234402	ENST00000415014	unprocessed_pseudogene	KNOWN	None	3324	None	None	106012947	106016031	-1	ELK2P2	ELK2.2
12	None	ENSG00000256419	ENST00000544947	processed_transcript	KNOWN	None	None	None	None	11047767	11049551	-1	None	None
17	None	ENSG00000215769	ENST00000578492	processed_transcript	KNOWN	None	None	None	None	62745781	62777744	-1	None	None
17	None	ENSG00000215769	ENST00000579125	processed_transcript	KNOWN	None	None	None	None	62758805	62777825	-1	None	None
17	None	ENSG00000215769	ENST00000400873	processed_transcript	KNOWN	None	None	None	None	62745781	62778117	-1	None	None
14	None	ENSG00000257621	ENST00000554360	antisense	KNOWN	None	None	None	None	58732083	58764847	-1	None	None
14	None	ENSG00000257621	ENST00000556002	antisense	KNOWN	None	None	None	None	58733326	58764820	-1	None	None
14	None	ENSG00000257621	ENST00000555275	antisense	KNOWN	None	None	None	None	58733607	58764840	-1	None	None
14	None	ENSG00000257621	ENST00000555162	antisense	KNOWN	None	None	None	None	58733703	58735593	-1	None	None
14	None	ENSG00000257621	ENST00000554378	antisense	KNOWN	None	None	None	None	58733822	58764852	-1	None	None
14	None	ENSG00000257621	ENST00000555707	antisense	KNOWN	None	None	None	None	58739119	58764847	-1	None	None
14	None	ENSG00000257621	ENST00000556225	antisense	KNOWN	None	None	None	None	58739333	58740832	-1	None	None
14	None	ENSG00000257621	ENST00000556400	antisense	KNOWN	None	None	None	None	58740359	58764833	-1	None	None
14	None	ENSG00000257621	ENST00000557660	antisense	KNOWN	None	None	None	None	58740654	58764838	-1	None	None
14	None	ENSG00000257621	ENST00000553657	antisense	KNOWN	None	None	None	None	58740732	58764802	-1	None	None
14	None	ENSG00000257621	ENST00000557412	antisense	KNOWN	None	None	None	None	58752304	58753741	-1	None	None
14	None	ENSG00000257621	ENST00000551597	antisense	KNOWN	None	None	None	None	58752450	58764850	-1	None	None
14	None	ENSG00000257621	ENST00000555037	antisense	KNOWN	None	None	None	None	58752450	58764851	-1	None	None
14	None	ENSG00000257621	ENST00000554309	antisense	KNOWN	None	None	None	None	58760220	58764844	-1	None	None
HSCHR10_1_CTG5	None	ENSG00000262853	ENST00000570449	lincRNA	PUTATIVE	None	None	None	None	45659676	45676875	-1	None	None
11	None	ENSG00000254780	ENST00000524963	processed_pseudogene	KNOWN	None	None	None	None	47926875	47927159	-1	None	None
15	None	ENSG00000260674	ENST00000561747	processed_pseudogene	KNOWN	None	None	None	None	80035653	80035810	1	None	None
9	LINC00963	ENSG00000204054	ENST00000454968	lincRNA	KNOWN	None	48716	None	None	132245730	132266553	1	None	None
9	LINC00963	ENSG00000204054	ENST00000444184	lincRNA	KNOWN	None	48716	None	None	132250824	132266553	1	None	None
9	LINC00963	ENSG00000204054	ENST00000419300	lincRNA	KNOWN	None	48716	None	None	132251379	132267404	1	None	None
9	LINC00963	ENSG00000204054	ENST00000423918	lincRNA	KNOWN	None	48716	None	None	132251386	132275947	1	None	None
9	LINC00963	ENSG00000204054	ENST00000454635	lincRNA	KNOWN	None	48716	None	None	132253098	132264793	1	None	None
9	LINC00963	ENSG00000204054	ENST00000458346	lincRNA	KNOWN	None	48716	None	None	132253271	132265853	1	None	None
9	LINC00963	ENSG00000204054	ENST00000453213	lincRNA	KNOWN	None	48716	None	None	132260618	132265944	1	None	None
9	LINC00963	ENSG00000204054	ENST00000412141	lincRNA	KNOWN	None	48716	None	None	132265281	132275796	1	None	None
12	TAS2R15	ENSG00000212125	ENST00000390674	processed_pseudogene	KNOWN	None	19106	None	None	11117024	11117951	-1	None	T2R15, PS8
3	CLRN1-AS1	ENSG00000239265	ENST00000476886	antisense	KNOWN	None	30895	None	None	150570271	150798513	1	CLRN1OS	UCRP
3	CLRN1-AS1	ENSG00000239265	ENST00000465576	antisense	KNOWN	None	30895	None	None	150690465	150797617	1	CLRN1OS	UCRP
3	None	ENSG00000228171	ENST00000451481	unprocessed_pseudogene	KNOWN	None	None	None	None	23431152	23431400	-1	None	None
2	None	ENSG00000232531	ENST00000413684	processed_pseudogene	KNOWN	None	None	None	None	91935966	91937012	-1	None	None
2	None	ENSG00000232531	ENST00000536556	processed_pseudogene	KNOWN	None	None	None	None	91935966	91937021	-1	None	None
1	None	ENSG00000213068	ENST00000450126	processed_pseudogene	KNOWN	None	None	None	None	167131660	167132074	-1	None	None
11	OR5G3	ENSG00000241356	ENST00000435756	unprocessed_pseudogene	KNOWN	None	15287	None	None	56587052	56587980	-1	OR5G6P, OR5G3P	None
11	None	ENSG00000254879	ENST00000533964	antisense	KNOWN	None	None	None	None	48035958	48037407	-1	None	None
15	None	ENSG00000243568	ENST00000478757	processed_pseudogene	KNOWN	None	None	None	None	72426982	72427777	1	None	None
11	None	ENSG00000248990	ENST00000505409	lincRNA	KNOWN	None	None	None	None	28700730	28705016	1	None	None
15	None	ENSG00000213527	ENST00000493002	processed_pseudogene	KNOWN	None	None	None	None	80044031	80044391	-1	None	None
1	ITPKB-AS1	ENSG00000228548	ENST00000453525	antisense	KNOWN	None	40312	None	None	226856598	226864046	1	None	None
17	TP53I13	ENSG00000167543	ENST00000578073	processed_transcript	KNOWN	None	25102	None	None	27893070	27895359	1	None	DSCP1
17	TP53I13	ENSG00000167543	ENST00000584522	processed_transcript	KNOWN	None	25102	None	None	27893319	27894509	1	None	DSCP1
17	TP53I13	ENSG00000167543	ENST00000583940	protein_coding	PUTATIVE	None	25102	220	72	27894198	27898720	1	None	DSCP1
17	TP53I13	ENSG00000167543	ENST00000580183	protein_coding	PUTATIVE	None	25102	556	184	27895045	27899277	1	None	DSCP1
17	TP53I13	ENSG00000167543	ENST00000578749	protein_coding	PUTATIVE	None	25102	585	194	27895065	27899306	1	None	DSCP1
17	TP53I13	ENSG00000167543	ENST00000582829	protein_coding	PUTATIVE	None	25102	526	174	27895074	27899247	1	None	DSCP1
17	TP53I13	ENSG00000167543	ENST00000577934	nonsense_mediated_decay	KNOWN	None	25102	278	91	27895535	27899325	1	None	DSCP1
17	TP53I13	ENSG00000167543	ENST00000581411	protein_coding	PUTATIVE	None	25102	470	155	27895609	27899191	1	None	DSCP1
17	TP53I13	ENSG00000167543	ENST00000301057	protein_coding	KNOWN	CCDS42289	25102	1182	393	27895662	27900175	1	None	DSCP1
17	TP53I13	ENSG00000167543	ENST00000580132	retained_intron	KNOWN	None	25102	None	None	27895778	27896410	1	None	DSCP1
17	TP53I13	ENSG00000167543	ENST00000579674	retained_intron	KNOWN	None	25102	None	None	27897707	27900174	1	None	DSCP1
17	TP53I13	ENSG00000167543	ENST00000378818	protein_coding	PUTATIVE	None	25102	339	112	27899448	27900175	1	None	DSCP1
12	None	ENSG00000256101	ENST00000535746	lincRNA	KNOWN	None	None	None	None	8474472	8482210	1	None	None
12	None	ENSG00000256101	ENST00000539795	lincRNA	KNOWN	None	None	None	None	8474549	8482210	1	None	None
10	FAM160B1	ENSG00000151553	ENST00000369248	protein_coding	KNOWN	CCDS31290	29320	2298	765	116581503	116624472	1	KIAA1600	bA106M7.3
10	FAM160B1	ENSG00000151553	ENST00000369250	protein_coding	KNOWN	CCDS44480	29320	2217	738	116581503	116659591	1	KIAA1600	bA106M7.3
10	FAM160B1	ENSG00000151553	ENST00000369246	protein_coding	KNOWN	None	29320	306	101	116581529	116593224	1	KIAA1600	bA106M7.3
10	FAM160B1	ENSG00000151553	ENST00000411414	protein_coding	KNOWN	None	29320	252	83	116620550	116623673	1	KIAA1600	bA106M7.3
3	TBC1D23	ENSG00000036054	ENST00000485687	protein_coding	NOVEL	None	25622	568	188	99979844	100009489	1	None	FLJ11046
3	TBC1D23	ENSG00000036054	ENST00000344949	protein_coding	KNOWN	CCDS2936	25622	2055	684	99979845	100044095	1	None	FLJ11046
3	TBC1D23	ENSG00000036054	ENST00000394144	protein_coding	KNOWN	CCDS56265	25622	2100	699	99979856	100044082	1	None	FLJ11046
3	TBC1D23	ENSG00000036054	ENST00000486274	processed_transcript	KNOWN	None	25622	None	None	99979908	100044082	1	None	FLJ11046
3	TBC1D23	ENSG00000036054	ENST00000471098	protein_coding	PUTATIVE	None	25622	513	170	99986036	100009500	1	None	FLJ11046
3	TBC1D23	ENSG00000036054	ENST00000475134	protein_coding	PUTATIVE	None	25622	1689	562	99998284	100042535	1	None	FLJ11046
3	TBC1D23	ENSG00000036054	ENST00000484231	retained_intron	KNOWN	None	25622	None	None	99998492	100002893	1	None	FLJ11046
3	TBC1D23	ENSG00000036054	ENST00000496167	processed_transcript	KNOWN	None	25622	None	None	100020683	100029265	1	None	FLJ11046
3	TBC1D23	ENSG00000036054	ENST00000471273	processed_transcript	KNOWN	None	25622	None	None	100034707	100044078	1	None	FLJ11046
5	CAPSL	ENSG00000152611	ENST00000397367	protein_coding	KNOWN	CCDS3912	28375	627	208	35904397	35938881	-1	None	MGC26610
5	CAPSL	ENSG00000152611	ENST00000513623	protein_coding	KNOWN	None	28375	570	189	35904704	35938737	-1	None	MGC26610
5	CAPSL	ENSG00000152611	ENST00000514524	protein_coding	PUTATIVE	None	28375	543	180	35909932	35938737	-1	None	MGC26610
5	CAPSL	ENSG00000152611	ENST00000397366	protein_coding	KNOWN	CCDS3912	28375	627	208	35904400	35938737	-1	None	MGC26610
3	None	ENSG00000221506	ENST00000408579	miRNA	NOVEL	None	None	None	None	23440991	23441060	-1	None	None
2	None	ENSG00000238320	ENST00000459161	miRNA	NOVEL	None	None	None	None	91951951	91952044	1	None	None
8	JRK	ENSG00000234616	ENST00000507178	processed_transcript	KNOWN	None	6199	None	None	143738874	143747939	-1	None	JH8
8	JRK	ENSG00000234616	ENST00000422119	processed_transcript	KNOWN	None	6199	None	None	143738877	143751388	-1	None	JH8
8	JRK	ENSG00000234616	ENST00000512113	processed_transcript	KNOWN	None	6199	None	None	143739779	143751412	-1	None	JH8
8	JRK	ENSG00000234616	ENST00000506774	processed_transcript	PUTATIVE	None	6199	None	None	143740710	143744939	-1	None	JH8
8	JRK	ENSG00000234616	ENST00000503272	processed_transcript	KNOWN	None	6199	None	None	143747401	143751406	-1	None	JH8
8	JRK	ENSG00000234616	ENST00000591357	processed_transcript	KNOWN	None	6199	None	None	143747834	143763386	-1	None	JH8
8	JRK	ENSG00000234616	ENST00000591180	processed_transcript	KNOWN	None	6199	None	None	143757317	143763252	-1	None	JH8
8	JRK	ENSG00000234616	ENST00000587883	processed_transcript	KNOWN	None	6199	None	None	143757317	143763386	-1	None	JH8
8	JRK	ENSG00000234616	ENST00000585503	processed_transcript	KNOWN	None	6199	None	None	143761392	143763386	-1	None	JH8
8	JRK	ENSG00000234616	ENST00000587499	processed_transcript	KNOWN	None	6199	None	None	143761564	143763222	-1	None	JH8
12	TAS2R63P	ENSG00000256019	ENST00000541376	processed_pseudogene	KNOWN	None	20641	None	None	11200931	11201855	-1	None	None
12	None	ENSG00000255671	ENST00000544067	antisense	KNOWN	None	None	None	None	302202	303296	1	None	None
1	None	ENSG00000231605	ENST00000426709	antisense	KNOWN	None	None	None	None	167145154	167165026	-1	None	None
1	None	ENSG00000231605	ENST00000428030	antisense	KNOWN	None	None	None	None	167145311	167164717	-1	None	None
1	None	ENSG00000231605	ENST00000457941	antisense	KNOWN	None	None	None	None	167145458	167164985	-1	None	None
1	None	ENSG00000231605	ENST00000446687	antisense	KNOWN	None	None	None	None	167145584	167165029	-1	None	None
8	None	ENSG00000253153	ENST00000524051	processed_pseudogene	KNOWN	None	None	None	None	102574236	102574716	-1	None	None
2	GGT8P	ENSG00000236969	ENST00000418938	unprocessed_pseudogene	KNOWN	None	33438	None	None	91963970	91969195	1	GGT1P1	FLJ31276
12	TAS2R64P	ENSG00000256274	ENST00000534866	processed_transcript	KNOWN	None	20642	None	None	11229368	11231770	-1	None	T2R64, T2R64P
12	TAS2R64P	ENSG00000256274	ENST00000422992	transcribed_processed_pseudogene	KNOWN	None	20642	None	None	11229915	11230841	-1	None	T2R64, T2R64P
1	RPS27P5	ENSG00000238183	ENST00000444247	processed_pseudogene	KNOWN	None	36734	None	None	226969202	226969445	1	None	None
14	None	ENSG00000263413	ENST00000581377	miRNA	NOVEL	None	None	None	None	106056273	106056350	-1	None	None
3	None	ENSG00000265645	ENST00000581880	miRNA	NOVEL	None	None	None	None	23521988	23522069	-1	None	None
12	None	ENSG00000257497	ENST00000547326	antisense	KNOWN	None	None	None	None	75877904	75883600	-1	None	None
6	C4B	ENSG00000224389	ENST00000435363	protein_coding	KNOWN	CCDS47405	1324	5235	1744	31982539	32003195	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
6	C4B	ENSG00000224389	ENST00000490071	retained_intron	KNOWN	None	1324	None	None	31983358	31984074	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
6	C4B	ENSG00000224389	ENST00000485543	processed_transcript	KNOWN	None	1324	None	None	31983396	31984913	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
6	C4B	ENSG00000224389	ENST00000461632	retained_intron	KNOWN	None	1324	None	None	31992692	31994491	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
6	C4B	ENSG00000224389	ENST00000478438	retained_intron	KNOWN	None	1324	None	None	31994923	31995867	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
6	C4B	ENSG00000224389	ENST00000474912	retained_intron	KNOWN	None	1324	None	None	31995097	31996142	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
6	C4B	ENSG00000224389	ENST00000486992	retained_intron	KNOWN	None	1324	None	None	31998172	32001568	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
6	C4B	ENSG00000224389	ENST00000485263	retained_intron	KNOWN	None	1324	None	None	31998256	32000233	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
6	C4B	ENSG00000224389	ENST00000478388	retained_intron	KNOWN	None	1324	None	None	31999365	32000044	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
6	C4B	ENSG00000224389	ENST00000468936	retained_intron	KNOWN	None	1324	None	None	31999669	32003180	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
6	C4B	ENSG00000224389	ENST00000463249	retained_intron	KNOWN	None	1324	None	None	31999714	32003011	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
6	C4B	ENSG00000224389	ENST00000468237	retained_intron	KNOWN	None	1324	None	None	32001512	32003178	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
6	C4B	ENSG00000224389	ENST00000496065	retained_intron	KNOWN	None	1324	None	None	32001641	32002779	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
6	C4B	ENSG00000224389	ENST00000473957	retained_intron	KNOWN	None	1324	None	None	32001721	32002292	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
6	C4B	ENSG00000224389	ENST00000496560	retained_intron	KNOWN	None	1324	None	None	32001774	32002382	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
6	C4B	ENSG00000224389	ENST00000425700	protein_coding	KNOWN	None	1324	5097	1698	31982623	32003177	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
6	C4B_2	ENSG00000224389	ENST00000435363	protein_coding	KNOWN	CCDS47405	42398	5235	1744	31982539	32003195	1	None	None
6	C4B_2	ENSG00000224389	ENST00000490071	retained_intron	KNOWN	None	42398	None	None	31983358	31984074	1	None	None
6	C4B_2	ENSG00000224389	ENST00000485543	processed_transcript	KNOWN	None	42398	None	None	31983396	31984913	1	None	None
6	C4B_2	ENSG00000224389	ENST00000461632	retained_intron	KNOWN	None	42398	None	None	31992692	31994491	1	None	None
6	C4B_2	ENSG00000224389	ENST00000478438	retained_intron	KNOWN	None	42398	None	None	31994923	31995867	1	None	None
6	C4B_2	ENSG00000224389	ENST00000474912	retained_intron	KNOWN	None	42398	None	None	31995097	31996142	1	None	None
6	C4B_2	ENSG00000224389	ENST00000486992	retained_intron	KNOWN	None	42398	None	None	31998172	32001568	1	None	None
6	C4B_2	ENSG00000224389	ENST00000485263	retained_intron	KNOWN	None	42398	None	None	31998256	32000233	1	None	None
6	C4B_2	ENSG00000224389	ENST00000478388	retained_intron	KNOWN	None	42398	None	None	31999365	32000044	1	None	None
6	C4B_2	ENSG00000224389	ENST00000468936	retained_intron	KNOWN	None	42398	None	None	31999669	32003180	1	None	None
6	C4B_2	ENSG00000224389	ENST00000463249	retained_intron	KNOWN	None	42398	None	None	31999714	32003011	1	None	None
6	C4B_2	ENSG00000224389	ENST00000468237	retained_intron	KNOWN	None	42398	None	None	32001512	32003178	1	None	None
6	C4B_2	ENSG00000224389	ENST00000496065	retained_intron	KNOWN	None	42398	None	None	32001641	32002779	1	None	None
6	C4B_2	ENSG00000224389	ENST00000473957	retained_intron	KNOWN	None	42398	None	None	32001721	32002292	1	None	None
6	C4B_2	ENSG00000224389	ENST00000496560	retained_intron	KNOWN	None	42398	None	None	32001774	32002382	1	None	None
6	C4B_2	ENSG00000224389	ENST00000425700	protein_coding	KNOWN	None	42398	5097	1698	31982623	32003177	1	None	None
11	None	ENSG00000255433	ENST00000532274	lincRNA	KNOWN	None	None	None	None	56615954	56644687	1	None	None
11	None	ENSG00000255433	ENST00000526436	lincRNA	KNOWN	None	None	None	None	56616044	56645554	1	None	None
17	None	ENSG00000266753	ENST00000585086	lincRNA	KNOWN	None	None	None	None	37408897	37410550	-1	None	None
HSCHR17_1	None	ENSG00000258049	ENST00000547337	protein_coding	NOVEL	None	None	309	102	44934644	44939509	1	None	None
3	RNU6-922P	ENSG00000252562	ENST00000516753	snRNA	KNOWN	None	47885	None	None	23655152	23655250	-1	None	None
8	None	ENSG00000248978	ENST00000506703	unprocessed_pseudogene	KNOWN	None	None	None	None	85740808	85741714	-1	None	None
17	None	ENSG00000265904	ENST00000584584	miRNA	NOVEL	None	None	None	None	37453658	37453742	-1	None	None
11	None	ENSG00000249867	ENST00000513853	lincRNA	KNOWN	None	None	None	None	28724162	29066418	1	None	None
11	None	ENSG00000249867	ENST00000511073	lincRNA	KNOWN	None	None	None	None	28923828	29085368	1	None	None
12	None	ENSG00000258077	ENST00000552856	lincRNA	KNOWN	None	None	None	None	75956982	76377795	-1	None	None
12	None	ENSG00000258077	ENST00000552466	lincRNA	KNOWN	None	None	None	None	76083275	76086138	-1	None	None
12	None	ENSG00000256400	ENST00000542637	processed_pseudogene	KNOWN	None	None	None	None	11249778	11249873	-1	None	None
1	None	ENSG00000228525	ENST00000438895	processed_pseudogene	KNOWN	None	None	None	None	227145770	227145968	-1	None	None
15	None	ENSG00000259229	ENST00000560455	processed_pseudogene	KNOWN	None	None	None	None	80050891	80051104	-1	None	None
17	None	ENSG00000266469	ENST00000582842	antisense	KNOWN	None	None	None	None	37558046	37562486	1	None	None
2	IGKV1OR-1	ENSG00000235235	ENST00000514060	IG_V_pseudogene	KNOWN	None	5760	None	None	92005797	92006274	1	IGKVPZ1	IGKV1/OR-1
2	IGKV1OR-1	ENSG00000235235	ENST00000416474	IG_V_pseudogene	KNOWN	None	5760	None	None	92005982	92006650	1	IGKVPZ1	IGKV1/OR-1
HSCHR17_1	None	ENSG00000257939	ENST00000549536	protein_coding	NOVEL	None	None	240	79	45030984	45041395	1	None	None
1	None	ENSG00000270780	ENST00000604433	processed_pseudogene	KNOWN	None	None	None	None	114544055	114544857	-1	None	None
14	None	ENSG00000266597	ENST00000578042	miRNA	NOVEL	None	None	None	None	106057407	106057466	-1	None	None
12	TAS2R18	ENSG00000256981	ENST00000535136	processed_pseudogene	KNOWN	None	19107	None	None	11311384	11312293	-1	TAS2R65P	T2R18, TAS2R65
7	None	ENSG00000223836	ENST00000419418	unprocessed_pseudogene	KNOWN	None	None	None	None	57879738	57880116	-1	None	None
8	None	ENSG00000253629	ENST00000518749	antisense	KNOWN	None	None	None	None	102698775	102701321	1	None	None
15	None	ENSG00000260173	ENST00000568984	antisense	KNOWN	None	None	None	None	72432845	72447800	-1	None	None
12	None	ENSG00000256577	ENST00000539568	antisense	KNOWN	None	None	None	None	312808	314189	1	None	None
14	None	ENSG00000258431	ENST00000555068	processed_pseudogene	KNOWN	None	None	None	None	71325561	71326146	-1	None	None
15	RNU6-667P	ENSG00000252995	ENST00000517186	snRNA	KNOWN	None	47630	None	None	80109691	80109792	-1	None	None
17	RNU6-981P	ENSG00000223091	ENST00000411159	snRNA	KNOWN	None	47944	None	None	37638739	37638843	-1	None	None
1	None	ENSG00000232895	ENST00000420156	lincRNA	KNOWN	None	None	None	None	114749049	114804900	-1	None	None
HSCHR17_1	None	ENSG00000266791	ENST00000579817	rRNA	NOVEL	None	None	None	None	43404731	43404862	-1	None	None
17	RNU6-233P	ENSG00000222777	ENST00000410845	snRNA	KNOWN	None	47196	None	None	37702357	37702497	-1	None	None
7	None	ENSG00000237236	ENST00000415634	unprocessed_pseudogene	KNOWN	None	None	None	None	57881907	57882648	1	None	None
11	TFAMP2	ENSG00000254798	ENST00000531132	processed_pseudogene	KNOWN	None	11638	None	None	109777730	109778467	-1	TCF6L3	MTTF1
2	ABCD1P5	ENSG00000214330	ENST00000445663	unprocessed_pseudogene	KNOWN	None	42662	None	None	92028627	92031828	1	None	None
1	None	ENSG00000233706	ENST00000433837	antisense	KNOWN	None	None	None	None	227179841	227180907	1	None	None
3	None	ENSG00000171658	ENST00000423298	processed_transcript	KNOWN	None	None	None	None	185677732	185698658	1	None	None
3	None	ENSG00000171658	ENST00000422108	processed_transcript	KNOWN	None	None	None	None	185677751	185692987	1	None	None
3	None	ENSG00000171658	ENST00000436375	processed_transcript	PUTATIVE	None	None	None	None	185677756	185689635	1	None	None
3	None	ENSG00000171658	ENST00000416764	retained_intron	KNOWN	None	None	None	None	185677758	185693547	1	None	None
3	None	ENSG00000171658	ENST00000445507	retained_intron	KNOWN	None	None	None	None	185677760	185689693	1	None	None
3	None	ENSG00000171658	ENST00000306399	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	185677828	185697626	1	None	None
3	None	ENSG00000171658	ENST00000441600	processed_transcript	PUTATIVE	None	None	None	None	185693832	185697621	1	None	None
HG1032_PATCH	MLLT10P2	ENSG00000261492	ENST00000568536	processed_pseudogene	KNOWN	None	39141	None	None	190894754	190895002	-1	None	None
14	None	ENSG00000227468	ENST00000428654	lincRNA	KNOWN	None	None	None	None	106064028	106066420	-1	None	None
14	None	ENSG00000227468	ENST00000412518	lincRNA	KNOWN	None	None	None	None	106064224	106066376	-1	None	None
14	None	ENSG00000227468	ENST00000427543	lincRNA	KNOWN	None	None	None	None	106064224	106066546	-1	None	None
14	None	ENSG00000227468	ENST00000420153	lincRNA	KNOWN	None	None	None	None	106066241	106066546	-1	None	None
3	RNU6-788P	ENSG00000212269	ENST00000390967	snRNA	KNOWN	None	47751	None	None	23682980	23683083	-1	None	None
2	ALK	ENSG00000171094	ENST00000389048	protein_coding	KNOWN	CCDS33172	427	4863	1620	29415640	30144432	-1	None	CD246
2	ALK	ENSG00000171094	ENST00000453137	protein_coding	PUTATIVE	None	427	459	152	29443736	29446260	-1	None	CD246
2	ALK	ENSG00000171094	ENST00000498037	processed_transcript	KNOWN	None	427	None	None	29509276	29542077	-1	None	CD246
2	ALK	ENSG00000171094	ENST00000431873	protein_coding	KNOWN	None	427	1353	450	29416090	30143525	-1	None	CD246
11	OR5AK3P	ENSG00000181282	ENST00000527486	processed_pseudogene	KNOWN	None	15252	None	None	56738325	56739621	1	OR5AK3	None
11	OR5AK3P	ENSG00000181282	ENST00000326876	processed_pseudogene	KNOWN	None	15252	None	None	56738516	56739421	1	OR5AK3	None
1	None	ENSG00000271419	ENST00000604963	processed_pseudogene	KNOWN	None	None	None	None	114896608	114897800	1	None	None
17	None	ENSG00000214546	ENST00000398554	lincRNA	KNOWN	None	None	None	None	37775866	37778766	1	None	None
5	None	ENSG00000268432	ENST00000599823	protein_coding	NOVEL	None	None	192	63	157160003	157161727	-1	None	None
3	None	ENSG00000238672	ENST00000458993	miRNA	NOVEL	None	None	None	None	23809102	23809195	1	None	None
HSCHR17_1	None	ENSG00000265036	ENST00000583584	miRNA	NOVEL	None	None	None	None	43494180	43494273	-1	None	None
7	None	ENSG00000231232	ENST00000429418	unprocessed_pseudogene	KNOWN	None	None	None	None	57882171	57882507	-1	None	None
7	None	ENSG00000231232	ENST00000598588	unprocessed_pseudogene	KNOWN	None	None	None	None	57882150	57882506	-1	None	None
20	ARFGAP1	ENSG00000101199	ENST00000370283	protein_coding	KNOWN	CCDS13515	15852	1221	406	61904137	61921142	1	ARF1GAP	FLJ10767, bA261N11.3
20	ARFGAP1	ENSG00000101199	ENST00000523114	protein_coding	KNOWN	None	15852	238	78	61904147	61907899	1	ARF1GAP	FLJ10767, bA261N11.3
20	ARFGAP1	ENSG00000101199	ENST00000547204	protein_coding	PUTATIVE	None	15852	1023	340	61904149	61919289	1	ARF1GAP	FLJ10767, bA261N11.3
20	ARFGAP1	ENSG00000101199	ENST00000522959	retained_intron	KNOWN	None	15852	None	None	61904154	61908094	1	ARF1GAP	FLJ10767, bA261N11.3
20	ARFGAP1	ENSG00000101199	ENST00000549047	protein_coding	PUTATIVE	None	15852	814	270	61904163	61919040	1	ARF1GAP	FLJ10767, bA261N11.3
20	ARFGAP1	ENSG00000101199	ENST00000523460	protein_coding	PUTATIVE	None	15852	460	152	61904165	61919196	1	ARF1GAP	FLJ10767, bA261N11.3
20	ARFGAP1	ENSG00000101199	ENST00000520485	nonsense_mediated_decay	KNOWN	None	15852	393	130	61904168	61919544	1	ARF1GAP	FLJ10767, bA261N11.3
20	ARFGAP1	ENSG00000101199	ENST00000524192	retained_intron	KNOWN	None	15852	None	None	61904177	61909905	1	ARF1GAP	FLJ10767, bA261N11.3
20	ARFGAP1	ENSG00000101199	ENST00000519531	retained_intron	KNOWN	None	15852	None	None	61904181	61914880	1	ARF1GAP	FLJ10767, bA261N11.3
20	ARFGAP1	ENSG00000101199	ENST00000370275	protein_coding	KNOWN	None	15852	1212	403	61904185	61921140	1	ARF1GAP	FLJ10767, bA261N11.3
20	ARFGAP1	ENSG00000101199	ENST00000518601	protein_coding	PUTATIVE	None	15852	732	243	61904216	61917750	1	ARF1GAP	FLJ10767, bA261N11.3
20	ARFGAP1	ENSG00000101199	ENST00000353546	protein_coding	KNOWN	CCDS13516	15852	1245	414	61904217	61920696	1	ARF1GAP	FLJ10767, bA261N11.3
20	ARFGAP1	ENSG00000101199	ENST00000522403	protein_coding	KNOWN	None	15852	784	260	61904556	61917015	1	ARF1GAP	FLJ10767, bA261N11.3
20	ARFGAP1	ENSG00000101199	ENST00000550188	protein_coding	KNOWN	None	15852	367	121	61904670	61908581	1	ARF1GAP	FLJ10767, bA261N11.3
20	ARFGAP1	ENSG00000101199	ENST00000518794	processed_transcript	KNOWN	None	15852	None	None	61915467	61920697	1	ARF1GAP	FLJ10767, bA261N11.3
20	ARFGAP1	ENSG00000101199	ENST00000468975	processed_transcript	KNOWN	None	15852	None	None	61915644	61921140	1	ARF1GAP	FLJ10767, bA261N11.3
20	ARFGAP1	ENSG00000101199	ENST00000520022	retained_intron	KNOWN	None	15852	None	None	61915660	61917301	1	ARF1GAP	FLJ10767, bA261N11.3
20	ARFGAP1	ENSG00000101199	ENST00000518691	retained_intron	KNOWN	None	15852	None	None	61915787	61917679	1	ARF1GAP	FLJ10767, bA261N11.3
20	ARFGAP1	ENSG00000101199	ENST00000518618	processed_transcript	KNOWN	None	15852	None	None	61916838	61919597	1	ARF1GAP	FLJ10767, bA261N11.3
20	ARFGAP1	ENSG00000101199	ENST00000395285	retained_intron	KNOWN	None	15852	None	None	61917142	61921140	1	ARF1GAP	FLJ10767, bA261N11.3
20	ARFGAP1	ENSG00000101199	ENST00000549076	protein_coding	PUTATIVE	None	15852	314	103	61919008	61920482	1	ARF1GAP	FLJ10767, bA261N11.3
20	ARFGAP1	ENSG00000101199	ENST00000519604	protein_coding	KNOWN	None	15852	1086	361	61904165	61919289	1	ARF1GAP	FLJ10767, bA261N11.3
20	ARFGAP1	ENSG00000101199	ENST00000519273	protein_coding	KNOWN	None	15852	882	293	61904168	61919544	1	ARF1GAP	FLJ10767, bA261N11.3
3	UBE2E1-AS1	ENSG00000223791	ENST00000426702	antisense	KNOWN	None	40598	None	None	23845515	23848396	-1	None	None
1	None	ENSG00000272205	ENST00000606967	antisense	KNOWN	None	None	None	None	167189068	167189749	-1	None	None
11	FOXR1	ENSG00000176302	ENST00000317011	protein_coding	KNOWN	CCDS31688	29980	879	292	118842417	118852001	1	None	DLNB13, FOXN5
11	FOXR1	ENSG00000176302	ENST00000531539	nonsense_mediated_decay	KNOWN	None	29980	621	206	118842422	118851974	1	None	DLNB13, FOXN5
11	FOXR1	ENSG00000176302	ENST00000533282	protein_coding	PUTATIVE	None	29980	409	135	118849489	118851282	1	None	DLNB13, FOXN5
10	SPRN	ENSG00000203772	ENST00000414069	protein_coding	KNOWN	CCDS53589	16871	456	151	135234170	135238076	-1	None	Shadoo, Sprn, bA108K14.1, FLJ41197
10	SPRN	ENSG00000203772	ENST00000541506	protein_coding	KNOWN	CCDS53589	16871	456	151	135234171	135382916	-1	None	Shadoo, Sprn, bA108K14.1, FLJ41197
17	MIR4728	ENSG00000265178	ENST00000580969	miRNA	KNOWN	None	41632	None	None	37882748	37882814	1	None	hsa-mir-4728
12	BAZ2A	ENSG00000076108	ENST00000379441	protein_coding	NOVEL	None	962	5628	1875	56989380	57030150	-1	None	KIAA0314, TIP5, WALp3
12	BAZ2A	ENSG00000076108	ENST00000551812	protein_coding	KNOWN	CCDS44924	962	5718	1905	56989714	57030163	-1	None	KIAA0314, TIP5, WALp3
12	BAZ2A	ENSG00000076108	ENST00000549787	protein_coding	KNOWN	None	962	2514	837	56992143	56997336	-1	None	KIAA0314, TIP5, WALp3
12	BAZ2A	ENSG00000076108	ENST00000549884	protein_coding	NOVEL	None	962	5712	1903	56992153	57023995	-1	None	KIAA0314, TIP5, WALp3
12	BAZ2A	ENSG00000076108	ENST00000553222	processed_transcript	KNOWN	None	962	None	None	56994252	56995313	-1	None	KIAA0314, TIP5, WALp3
12	BAZ2A	ENSG00000076108	ENST00000547453	protein_coding	PUTATIVE	None	962	484	160	56994528	56995411	-1	None	KIAA0314, TIP5, WALp3
12	BAZ2A	ENSG00000076108	ENST00000551759	retained_intron	KNOWN	None	962	None	None	56998024	56999651	-1	None	KIAA0314, TIP5, WALp3
12	BAZ2A	ENSG00000076108	ENST00000549763	processed_transcript	KNOWN	None	962	None	None	56998999	57003579	-1	None	KIAA0314, TIP5, WALp3
12	BAZ2A	ENSG00000076108	ENST00000548578	retained_intron	KNOWN	None	962	None	None	56999012	57000196	-1	None	KIAA0314, TIP5, WALp3
12	BAZ2A	ENSG00000076108	ENST00000547650	protein_coding	PUTATIVE	None	962	614	203	56999776	57004263	-1	None	KIAA0314, TIP5, WALp3
12	BAZ2A	ENSG00000076108	ENST00000551996	protein_coding	PUTATIVE	None	962	833	276	57003901	57006882	-1	None	KIAA0314, TIP5, WALp3
12	BAZ2A	ENSG00000076108	ENST00000549327	processed_transcript	KNOWN	None	962	None	None	57005079	57005638	-1	None	KIAA0314, TIP5, WALp3
12	BAZ2A	ENSG00000076108	ENST00000547647	processed_transcript	KNOWN	None	962	None	None	57006802	57008090	-1	None	KIAA0314, TIP5, WALp3
12	BAZ2A	ENSG00000076108	ENST00000551959	processed_transcript	PUTATIVE	None	962	None	None	57009093	57024092	-1	None	KIAA0314, TIP5, WALp3
12	BAZ2A	ENSG00000076108	ENST00000546695	protein_coding	NOVEL	None	962	395	130	57009133	57024081	-1	None	KIAA0314, TIP5, WALp3
12	BAZ2A	ENSG00000076108	ENST00000549506	protein_coding	NOVEL	None	962	348	115	57009180	57030102	-1	None	KIAA0314, TIP5, WALp3
12	BAZ2A	ENSG00000076108	ENST00000550730	processed_transcript	KNOWN	None	962	None	None	57009305	57030600	-1	None	KIAA0314, TIP5, WALp3
12	BAZ2A	ENSG00000076108	ENST00000179765	protein_coding	KNOWN	None	962	5622	1873	56989380	57030163	-1	None	KIAA0314, TIP5, WALp3
3	None	ENSG00000243273	ENST00000469268	antisense	KNOWN	None	None	None	None	150608423	150756605	1	None	None
HG388_HG400_PATCH	None	ENSG00000264197	ENST00000584827	miRNA	NOVEL	None	None	None	None	111620189	111620258	1	None	None
12	RNU6-676P	ENSG00000253095	ENST00000517286	snRNA	KNOWN	None	47639	None	None	11315699	11315763	1	None	None
17	None	ENSG00000264198	ENST00000488188	lincRNA	KNOWN	None	None	None	None	37913974	37920089	-1	None	None
2	None	ENSG00000237085	ENST00000411737	processed_pseudogene	KNOWN	None	None	None	None	92047410	92047507	1	None	None
HSCHR17_1	None	ENSG00000264068	ENST00000580076	misc_RNA	NOVEL	None	None	None	None	43547829	43548118	-1	None	None
11	None	ENSG00000255083	ENST00000524837	processed_pseudogene	KNOWN	None	None	None	None	56785575	56786361	1	None	None
12	None	ENSG00000255746	ENST00000540868	sense_intronic	KNOWN	None	None	None	None	362608	366465	-1	None	None
1	None	ENSG00000228625	ENST00000424451	antisense	KNOWN	None	None	None	None	227366034	227371145	1	None	None
1	None	ENSG00000226984	ENST00000427409	processed_pseudogene	KNOWN	None	None	None	None	115002556	115002982	1	None	None
11	None	ENSG00000224776	ENST00000481955	processed_pseudogene	KNOWN	None	None	None	None	109852918	109853769	1	None	None
1	None	ENSG00000272033	ENST00000607611	sense_intronic	KNOWN	None	None	None	None	167348345	167350237	1	None	None
17	KRT8P34	ENSG00000264663	ENST00000577607	processed_pseudogene	KNOWN	None	39868	None	None	37991290	37992333	-1	None	None
8	MCPH1	ENSG00000147316	ENST00000344683	protein_coding	KNOWN	CCDS43689	6954	2508	835	6264113	6501144	1	None	FLJ12847, BRIT1
8	MCPH1	ENSG00000147316	ENST00000519480	protein_coding	PUTATIVE	CCDS55190	6954	1833	610	6264117	6304088	1	None	FLJ12847, BRIT1
8	MCPH1	ENSG00000147316	ENST00000522905	protein_coding	PUTATIVE	CCDS55191	6954	1689	562	6264164	6303411	1	None	FLJ12847, BRIT1
8	MCPH1	ENSG00000147316	ENST00000522020	processed_transcript	KNOWN	None	6954	None	None	6312723	6352063	1	None	FLJ12847, BRIT1
8	MCPH1	ENSG00000147316	ENST00000519221	processed_transcript	KNOWN	None	6954	None	None	6334787	6479192	1	None	FLJ12847, BRIT1
8	MCPH1	ENSG00000147316	ENST00000521129	processed_transcript	KNOWN	None	6954	None	None	6334880	6479142	1	None	FLJ12847, BRIT1
8	MCPH1	ENSG00000147316	ENST00000521175	processed_transcript	KNOWN	None	6954	None	None	6478973	6500891	1	None	FLJ12847, BRIT1
HG1032_PATCH	TUBB7P	ENSG00000261027	ENST00000565477	unprocessed_pseudogene	KNOWN	None	12413	None	None	190903678	190906026	-1	TUBB4Q	None
8	None	ENSG00000254212	ENST00000521595	processed_pseudogene	KNOWN	None	None	None	None	85776903	85777142	-1	None	None
HG243_PATCH	HSF1	ENSG00000261132	ENST00000568392	protein_coding	PUTATIVE	None	5224	1488	495	145346494	145369571	1	None	HSTF1
HG243_PATCH	HSF1	ENSG00000261132	ENST00000570268	protein_coding	KNOWN	None	5224	1590	529	145346501	145369625	1	None	HSTF1
HG243_PATCH	HSF1	ENSG00000261132	ENST00000567628	nonsense_mediated_decay	KNOWN	None	5224	195	64	145346508	145364497	1	None	HSTF1
HG243_PATCH	HSF1	ENSG00000261132	ENST00000565865	protein_coding	PUTATIVE	None	5224	416	137	145347483	145366270	1	None	HSTF1
HG243_PATCH	HSF1	ENSG00000261132	ENST00000567506	retained_intron	KNOWN	None	5224	None	None	145363937	145369622	1	None	HSTF1
HG243_PATCH	HSF1	ENSG00000261132	ENST00000563524	retained_intron	KNOWN	None	5224	None	None	145364099	145366285	1	None	HSTF1
HG243_PATCH	HSF1	ENSG00000261132	ENST00000570180	retained_intron	KNOWN	None	5224	None	None	145364172	145364997	1	None	HSTF1
HG243_PATCH	HSF1	ENSG00000261132	ENST00000565491	nonsense_mediated_decay	KNOWN	None	5224	275	90	145364361	145366994	1	None	HSTF1
HG243_PATCH	HSF1	ENSG00000261132	ENST00000566941	retained_intron	KNOWN	None	5224	None	None	145365302	145369619	1	None	HSTF1
HG243_PATCH	HSF1	ENSG00000261132	ENST00000562004	retained_intron	KNOWN	None	5224	None	None	145365957	145366513	1	None	HSTF1
HG243_PATCH	HSF1	ENSG00000261132	ENST00000562195	retained_intron	KNOWN	None	5224	None	None	145366078	145366790	1	None	HSTF1
HG243_PATCH	HSF1	ENSG00000261132	ENST00000562323	nonsense_mediated_decay	KNOWN	None	5224	144	47	145366669	145369079	1	None	HSTF1
HG243_PATCH	HSF1	ENSG00000261132	ENST00000563309	retained_intron	KNOWN	None	5224	None	None	145367516	145369623	1	None	HSTF1
HG243_PATCH	HSF1	ENSG00000261132	ENST00000564427	retained_intron	KNOWN	None	5224	None	None	145367944	145369107	1	None	HSTF1
1	None	ENSG00000228729	ENST00000435693	processed_pseudogene	KNOWN	None	None	None	None	227421970	227423056	1	None	None
12	None	ENSG00000256712	ENST00000543969	sense_intronic	KNOWN	None	None	None	None	11318689	11323952	-1	None	None
1	None	ENSG00000233411	ENST00000417969	sense_intronic	KNOWN	None	None	None	None	167426620	167427898	-1	None	None
11	None	ENSG00000254526	ENST00000530960	lincRNA	KNOWN	None	None	None	None	29181503	29288281	1	None	None
19	HSPB6	ENSG00000004776	ENST00000592984	protein_coding	KNOWN	CCDS12475	26511	483	160	36245469	36248980	-1	None	FLJ32389, Hsp20
19	HSPB6	ENSG00000004776	ENST00000587965	protein_coding	PUTATIVE	None	26511	414	137	36246284	36247910	-1	None	FLJ32389, Hsp20
19	HSPB6	ENSG00000004776	ENST00000004982	protein_coding	KNOWN	CCDS12475	26511	483	160	36245470	36247930	-1	None	FLJ32389, Hsp20
2	PABPC1P6	ENSG00000227497	ENST00000445594	processed_pseudogene	KNOWN	None	37986	None	None	92065995	92068221	1	None	None
15	None	ENSG00000261460	ENST00000570175	antisense	KNOWN	None	None	None	None	72571208	72644135	1	None	None
1	KLHL17	ENSG00000187961	ENST00000338591	protein_coding	KNOWN	CCDS30550	24023	1929	642	895967	901095	1	None	None
1	KLHL17	ENSG00000187961	ENST00000463212	retained_intron	KNOWN	None	24023	None	None	896829	897858	1	None	None
1	KLHL17	ENSG00000187961	ENST00000466300	nonsense_mediated_decay	KNOWN	None	24023	463	153	898107	899910	1	None	None
1	KLHL17	ENSG00000187961	ENST00000481067	retained_intron	KNOWN	None	24023	None	None	898932	899544	1	None	None
17	None	ENSG00000226117	ENST00000422019	processed_pseudogene	KNOWN	None	None	None	None	37995622	37995777	-1	None	None
12	None	ENSG00000256537	ENST00000544420	processed_pseudogene	KNOWN	None	None	None	None	11323963	11324164	1	None	None
3	None	ENSG00000231395	ENST00000434170	processed_pseudogene	KNOWN	None	None	None	None	23920472	23920989	-1	None	None
11	OR5AK4P	ENSG00000224196	ENST00000417375	unprocessed_pseudogene	KNOWN	None	15253	None	None	56804912	56805009	1	None	None
8	None	ENSG00000238566	ENST00000458801	snoRNA	NOVEL	None	None	None	None	85832053	85832148	-1	None	None
HG388_HG400_PATCH	None	ENSG00000262083	ENST00000573195	lincRNA	KNOWN	None	None	None	None	111639392	111649030	-1	None	None
HG388_HG400_PATCH	None	ENSG00000262083	ENST00000570438	lincRNA	KNOWN	None	None	None	None	111639581	111649074	-1	None	None
3	None	ENSG00000244382	ENST00000474598	lincRNA	KNOWN	None	None	None	None	150618941	150621181	-1	None	None
19	ZSCAN5A	ENSG00000131848	ENST00000391713	protein_coding	KNOWN	CCDS12941	23710	1491	496	56732681	56739659	-1	ZNF495, ZSCAN5	MGC4161
19	ZSCAN5A	ENSG00000131848	ENST00000592355	protein_coding	NOVEL	None	23710	1488	495	56732681	56739680	-1	ZNF495, ZSCAN5	MGC4161
19	ZSCAN5A	ENSG00000131848	ENST00000587340	protein_coding	KNOWN	CCDS12941	23710	1491	496	56732681	56879752	-1	ZNF495, ZSCAN5	MGC4161
19	ZSCAN5A	ENSG00000131848	ENST00000587492	protein_coding	NOVEL	None	23710	1053	350	56732856	56826294	-1	ZNF495, ZSCAN5	MGC4161
19	ZSCAN5A	ENSG00000131848	ENST00000593106	protein_coding	PUTATIVE	None	23710	570	189	56733427	56826211	-1	ZNF495, ZSCAN5	MGC4161
19	ZSCAN5A	ENSG00000131848	ENST00000592101	retained_intron	KNOWN	None	23710	None	None	56735691	56736798	-1	ZNF495, ZSCAN5	MGC4161
19	ZSCAN5A	ENSG00000131848	ENST00000592509	protein_coding	KNOWN	None	23710	316	104	56736100	56826157	-1	ZNF495, ZSCAN5	MGC4161
19	ZSCAN5A	ENSG00000131848	ENST00000588955	protein_coding	KNOWN	None	23710	254	83	56736162	56825882	-1	ZNF495, ZSCAN5	MGC4161
19	ZSCAN5A	ENSG00000131848	ENST00000588442	protein_coding	KNOWN	None	23710	127	41	56736289	56826208	-1	ZNF495, ZSCAN5	MGC4161
19	ZSCAN5A	ENSG00000131848	ENST00000592679	protein_coding	KNOWN	None	23710	115	37	56736301	56826197	-1	ZNF495, ZSCAN5	MGC4161
19	ZSCAN5A	ENSG00000131848	ENST00000590675	processed_transcript	KNOWN	None	23710	None	None	56774587	56824756	-1	ZNF495, ZSCAN5	MGC4161
19	ZSCAN5A	ENSG00000131848	ENST00000586031	processed_transcript	KNOWN	None	23710	None	None	56777587	56778130	-1	ZNF495, ZSCAN5	MGC4161
19	ZSCAN5A	ENSG00000131848	ENST00000591078	processed_transcript	KNOWN	None	23710	None	None	56785873	56826228	-1	ZNF495, ZSCAN5	MGC4161
19	ZSCAN5A	ENSG00000131848	ENST00000589279	processed_transcript	KNOWN	None	23710	None	None	56785908	56826202	-1	ZNF495, ZSCAN5	MGC4161
19	ZSCAN5A	ENSG00000131848	ENST00000585670	processed_transcript	KNOWN	None	23710	None	None	56791971	56826162	-1	ZNF495, ZSCAN5	MGC4161
19	ZSCAN5A	ENSG00000131848	ENST00000587075	processed_transcript	KNOWN	None	23710	None	None	56794714	56824749	-1	ZNF495, ZSCAN5	MGC4161
19	ZSCAN5A	ENSG00000131848	ENST00000587614	processed_transcript	KNOWN	None	23710	None	None	56807437	56826208	-1	ZNF495, ZSCAN5	MGC4161
19	ZSCAN5A	ENSG00000131848	ENST00000254165	protein_coding	KNOWN	None	23710	1140	379	56732856	56826294	-1	ZNF495, ZSCAN5	MGC4161
8	ACTBP6	ENSG00000203413	ENST00000520036	processed_pseudogene	KNOWN	None	139	None	None	85860820	85861909	1	None	None
1	None	ENSG00000236636	ENST00000420014	processed_pseudogene	KNOWN	None	None	None	None	227452477	227452908	-1	None	None
1	AKR1D1P1	ENSG00000227776	ENST00000457236	processed_pseudogene	KNOWN	None	11288	None	None	167488773	167489823	1	SRD5BP1, AKR1D1P	None
12	TAS2R67P	ENSG00000256629	ENST00000535168	processed_pseudogene	KNOWN	None	43898	None	None	11332272	11333061	-1	None	None
17	None	ENSG00000264968	ENST00000578802	lincRNA	KNOWN	None	None	None	None	38083995	38085723	1	None	None
17	None	ENSG00000264968	ENST00000578478	lincRNA	KNOWN	None	None	None	None	38084097	38085608	1	None	None
17	None	ENSG00000264968	ENST00000582263	lincRNA	KNOWN	None	None	None	None	38084120	38095854	1	None	None
12	None	ENSG00000257777	ENST00000548349	processed_pseudogene	KNOWN	None	None	None	None	75993827	75995331	1	None	None
1	EIF2S2P5	ENSG00000225650	ENST00000457635	processed_pseudogene	KNOWN	None	37793	None	None	115010937	115011904	1	None	None
11	None	ENSG00000254662	ENST00000534162	antisense	KNOWN	None	None	None	None	57093077	57095432	1	None	None
1	TTLL7	ENSG00000137941	ENST00000472688	processed_transcript	KNOWN	None	26242	None	None	84330711	84414619	-1	None	FLJ23033
1	TTLL7	ENSG00000137941	ENST00000480174	nonsense_mediated_decay	KNOWN	None	26242	2010	669	84330711	84418064	-1	None	FLJ23033
1	TTLL7	ENSG00000137941	ENST00000477524	processed_transcript	KNOWN	None	26242	None	None	84330711	84464775	-1	None	FLJ23033
1	TTLL7	ENSG00000137941	ENST00000488014	processed_transcript	KNOWN	None	26242	None	None	84330711	84464790	-1	None	FLJ23033
1	TTLL7	ENSG00000137941	ENST00000260505	protein_coding	KNOWN	CCDS690	26242	2664	887	84330711	84464815	-1	None	FLJ23033
1	TTLL7	ENSG00000137941	ENST00000474957	nonsense_mediated_decay	KNOWN	None	26242	1434	477	84330711	84464833	-1	None	FLJ23033
1	TTLL7	ENSG00000137941	ENST00000480533	processed_transcript	KNOWN	None	26242	None	None	84335381	84348531	-1	None	FLJ23033
1	TTLL7	ENSG00000137941	ENST00000472937	processed_transcript	KNOWN	None	26242	None	None	84335449	84356025	-1	None	FLJ23033
1	TTLL7	ENSG00000137941	ENST00000485638	nonsense_mediated_decay	KNOWN	None	26242	1662	553	84348696	84413309	-1	None	FLJ23033
1	TTLL7	ENSG00000137941	ENST00000464289	processed_transcript	KNOWN	None	26242	None	None	84367692	84373218	-1	None	FLJ23033
1	TTLL7	ENSG00000137941	ENST00000474702	processed_transcript	KNOWN	None	26242	None	None	84376919	84378663	-1	None	FLJ23033
1	TTLL7	ENSG00000137941	ENST00000482783	processed_transcript	KNOWN	None	26242	None	None	84383369	84464708	-1	None	FLJ23033
1	TTLL7	ENSG00000137941	ENST00000467670	processed_transcript	KNOWN	None	26242	None	None	84414996	84417610	-1	None	FLJ23033
15	MIR5009	ENSG00000264796	ENST00000578736	miRNA	KNOWN	None	43458	None	None	90427163	90427262	-1	None	hsa-mir-5009
1	None	ENSG00000234277	ENST00000445817	lincRNA	KNOWN	None	None	None	None	227581292	227618736	1	None	None
1	None	ENSG00000234277	ENST00000436377	lincRNA	KNOWN	None	None	None	None	227597466	227613758	1	None	None
6	PPIAP29	ENSG00000214975	ENST00000414949	processed_pseudogene	KNOWN	None	43021	None	None	24976647	24977210	1	None	None
X	RN7SKP81	ENSG00000202473	ENST00000365603	misc_RNA	KNOWN	None	45805	None	None	142178133	142178463	1	None	None
15	None	ENSG00000260729	ENST00000379915	processed_transcript	KNOWN	None	None	None	None	72577068	72668322	-1	None	None
16	TEPP	ENSG00000159648	ENST00000290871	protein_coding	KNOWN	CCDS10790	33745	897	298	58010339	58021475	1	None	None
16	TEPP	ENSG00000159648	ENST00000441824	protein_coding	KNOWN	CCDS45496	33745	816	271	58010339	58021475	1	None	None
16	TEPP	ENSG00000159648	ENST00000569996	processed_transcript	KNOWN	None	33745	None	None	58010482	58021427	1	None	None
16	TEPP	ENSG00000159648	ENST00000562915	retained_intron	KNOWN	None	33745	None	None	58019085	58022020	1	None	None
12	None	ENSG00000256657	ENST00000542152	processed_pseudogene	KNOWN	None	None	None	None	11348987	11349908	-1	None	None
14	MEG3	ENSG00000214548	ENST00000556407	lincRNA	KNOWN	None	14575	None	None	101245747	101295522	1	None	GTL2, NCRNA00023, LINC00023
14	MEG3	ENSG00000214548	ENST00000429159	lincRNA	KNOWN	None	14575	None	None	101292445	101327360	1	None	GTL2, NCRNA00023, LINC00023
14	MEG3	ENSG00000214548	ENST00000520714	lincRNA	KNOWN	None	14575	None	None	101292455	101311828	1	None	GTL2, NCRNA00023, LINC00023
14	MEG3	ENSG00000214548	ENST00000522771	lincRNA	KNOWN	None	14575	None	None	101292456	101316136	1	None	GTL2, NCRNA00023, LINC00023
14	MEG3	ENSG00000214548	ENST00000424076	lincRNA	KNOWN	None	14575	None	None	101292463	101313643	1	None	GTL2, NCRNA00023, LINC00023
14	MEG3	ENSG00000214548	ENST00000423456	lincRNA	KNOWN	None	14575	None	None	101292463	101327307	1	None	GTL2, NCRNA00023, LINC00023
14	MEG3	ENSG00000214548	ENST00000521404	lincRNA	KNOWN	None	14575	None	None	101292463	101327326	1	None	GTL2, NCRNA00023, LINC00023
14	MEG3	ENSG00000214548	ENST00000556736	lincRNA	KNOWN	None	14575	None	None	101292463	101327345	1	None	GTL2, NCRNA00023, LINC00023
14	MEG3	ENSG00000214548	ENST00000451743	lincRNA	KNOWN	None	14575	None	None	101292463	101327368	1	None	GTL2, NCRNA00023, LINC00023
14	MEG3	ENSG00000214548	ENST00000398518	lincRNA	KNOWN	None	14575	None	None	101292464	101327331	1	None	GTL2, NCRNA00023, LINC00023
14	MEG3	ENSG00000214548	ENST00000554639	lincRNA	KNOWN	None	14575	None	None	101292469	101327363	1	None	GTL2, NCRNA00023, LINC00023
14	MEG3	ENSG00000214548	ENST00000452120	lincRNA	KNOWN	None	14575	None	None	101292470	101299665	1	None	GTL2, NCRNA00023, LINC00023
14	MEG3	ENSG00000214548	ENST00000519709	lincRNA	KNOWN	None	14575	None	None	101292471	101327345	1	None	GTL2, NCRNA00023, LINC00023
14	MEG3	ENSG00000214548	ENST00000412736	lincRNA	KNOWN	None	14575	None	None	101292485	101327314	1	None	GTL2, NCRNA00023, LINC00023
14	MEG3	ENSG00000214548	ENST00000455286	lincRNA	KNOWN	None	14575	None	None	101293748	101295643	1	None	GTL2, NCRNA00023, LINC00023
14	MEG3	ENSG00000214548	ENST00000523671	lincRNA	KNOWN	None	14575	None	None	101295638	101302637	1	None	GTL2, NCRNA00023, LINC00023
14	MEG3	ENSG00000214548	ENST00000452514	lincRNA	KNOWN	None	14575	None	None	101295948	101311855	1	None	GTL2, NCRNA00023, LINC00023
14	MEG3	ENSG00000214548	ENST00000398474	lincRNA	KNOWN	None	14575	None	None	101296942	101327358	1	None	GTL2, NCRNA00023, LINC00023
14	MEG3	ENSG00000214548	ENST00000555928	lincRNA	KNOWN	None	14575	None	None	101297818	101327363	1	None	GTL2, NCRNA00023, LINC00023
14	MEG3	ENSG00000214548	ENST00000521812	lincRNA	KNOWN	None	14575	None	None	101298401	101302560	1	None	GTL2, NCRNA00023, LINC00023
14	MEG3	ENSG00000214548	ENST00000398461	lincRNA	KNOWN	None	14575	None	None	101299306	101327358	1	None	GTL2, NCRNA00023, LINC00023
14	MEG3	ENSG00000214548	ENST00000455531	lincRNA	KNOWN	None	14575	None	None	101299615	101313638	1	None	GTL2, NCRNA00023, LINC00023
14	MEG3	ENSG00000214548	ENST00000524035	lincRNA	KNOWN	None	14575	None	None	101300101	101327358	1	None	GTL2, NCRNA00023, LINC00023
14	MEG3	ENSG00000214548	ENST00000524131	lincRNA	KNOWN	None	14575	None	None	101301863	101327153	1	None	GTL2, NCRNA00023, LINC00023
14	MEG3	ENSG00000214548	ENST00000522618	lincRNA	KNOWN	None	14575	None	None	101302057	101327324	1	None	GTL2, NCRNA00023, LINC00023
14	MEG3	ENSG00000214548	ENST00000398460	lincRNA	KNOWN	None	14575	None	None	101323582	101327355	1	None	GTL2, NCRNA00023, LINC00023
14	MEG3	ENSG00000214548	ENST00000521256	lincRNA	KNOWN	None	14575	None	None	101323961	101327358	1	None	GTL2, NCRNA00023, LINC00023
14	MEG3	ENSG00000214548	ENST00000516892	snoRNA	KNOWN	None	14575	None	None	101315645	101315716	1	None	GTL2, NCRNA00023, LINC00023
8	None	ENSG00000259366	ENST00000560865	sense_intronic	KNOWN	None	None	None	None	28913452	28914202	1	None	None
HSCHR17_1	None	ENSG00000265958	ENST00000579430	misc_RNA	NOVEL	None	None	None	None	43600420	43600700	-1	None	None
16	POLR2C	ENSG00000102978	ENST00000219252	protein_coding	KNOWN	CCDS10782	9189	828	275	57496299	57505922	1	None	RPB3
16	POLR2C	ENSG00000102978	ENST00000563115	retained_intron	KNOWN	None	9189	None	None	57496572	57503815	1	None	RPB3
16	POLR2C	ENSG00000102978	ENST00000562953	retained_intron	KNOWN	None	9189	None	None	57496579	57504181	1	None	RPB3
16	POLR2C	ENSG00000102978	ENST00000562599	nonsense_mediated_decay	KNOWN	None	9189	141	46	57496581	57503110	1	None	RPB3
16	POLR2C	ENSG00000102978	ENST00000564651	processed_transcript	KNOWN	None	9189	None	None	57496586	57504183	1	None	RPB3
16	POLR2C	ENSG00000102978	ENST00000567982	retained_intron	KNOWN	None	9189	None	None	57496588	57504320	1	None	RPB3
16	POLR2C	ENSG00000102978	ENST00000564626	retained_intron	KNOWN	None	9189	None	None	57496689	57497424	1	None	RPB3
16	POLR2C	ENSG00000102978	ENST00000563589	retained_intron	KNOWN	None	9189	None	None	57499635	57503182	1	None	RPB3
1	None	ENSG00000201114	ENST00000364244	misc_RNA	NOVEL	None	None	None	None	115033346	115033454	1	None	None
12	SETD8	ENSG00000183955	ENST00000402868	protein_coding	KNOWN	CCDS9247	29489	1059	352	123868320	123893905	1	None	SET8, SET07, PR-Set7, KMT5A
12	SETD8	ENSG00000183955	ENST00000437519	nonsense_mediated_decay	KNOWN	None	29489	276	91	123868713	123893054	1	None	SET8, SET07, PR-Set7, KMT5A
12	SETD8	ENSG00000183955	ENST00000537270	processed_transcript	KNOWN	None	29489	None	None	123868720	123873304	1	None	SET8, SET07, PR-Set7, KMT5A
12	SETD8	ENSG00000183955	ENST00000478781	processed_transcript	KNOWN	None	29489	None	None	123873447	123880956	1	None	SET8, SET07, PR-Set7, KMT5A
12	SETD8	ENSG00000183955	ENST00000461103	retained_intron	KNOWN	None	29489	None	None	123873818	123889621	1	None	SET8, SET07, PR-Set7, KMT5A
12	SETD8	ENSG00000183955	ENST00000462311	retained_intron	KNOWN	None	29489	None	None	123874030	123875851	1	None	SET8, SET07, PR-Set7, KMT5A
12	SETD8	ENSG00000183955	ENST00000437502	protein_coding	PUTATIVE	None	29489	897	298	123874589	123892115	1	None	SET8, SET07, PR-Set7, KMT5A
12	SETD8	ENSG00000183955	ENST00000485469	processed_transcript	KNOWN	None	29489	None	None	123875927	123889465	1	None	SET8, SET07, PR-Set7, KMT5A
12	SETD8	ENSG00000183955	ENST00000330479	protein_coding	KNOWN	CCDS9247	29489	1059	352	123868320	123893898	1	None	SET8, SET07, PR-Set7, KMT5A
11	None	ENSG00000238692	ENST00000459327	snoRNA	NOVEL	None	None	None	None	57096333	57096435	-1	None	None
HSCHR17_1	None	ENSG00000258322	ENST00000552312	pseudogene	NOVEL	None	None	None	None	43774683	43774961	1	None	None
X	RN7SKP149	ENSG00000199878	ENST00000363008	misc_RNA	KNOWN	None	45873	None	None	142285034	142285377	-1	None	None
4	SHISA3	ENSG00000178343	ENST00000319234	protein_coding	KNOWN	CCDS33979	25159	717	238	42399856	42404504	1	None	hShisa3
17	None	ENSG00000265799	ENST00000583462	lincRNA	KNOWN	None	None	None	None	38168479	38170882	-1	None	None
17	None	ENSG00000265799	ENST00000584649	lincRNA	KNOWN	None	None	None	None	38168797	38170958	-1	None	None
11	None	ENSG00000266018	ENST00000580015	miRNA	NOVEL	None	None	None	None	57127196	57127295	1	None	None
1	PKMP1	ENSG00000236480	ENST00000455804	processed_pseudogene	KNOWN	None	44243	None	None	115078616	115080461	1	None	None
8	None	ENSG00000259607	ENST00000560714	antisense	KNOWN	None	None	None	None	28924796	28925971	1	None	None
6	None	ENSG00000272053	ENST00000606385	lincRNA	KNOWN	None	None	None	None	25015180	25042398	-1	None	None
1	None	ENSG00000231029	ENST00000422817	processed_pseudogene	KNOWN	None	None	None	None	167560629	167561083	1	None	None
12	None	ENSG00000256373	ENST00000539328	lincRNA	KNOWN	None	None	None	None	11365126	11404303	1	None	None
HG1032_PATCH	None	ENSG00000263086	ENST00000570707	rRNA	NOVEL	None	None	None	None	190936293	190936410	1	None	None
1	None	ENSG00000232864	ENST00000452067	processed_pseudogene	KNOWN	None	None	None	None	227598318	227599020	-1	None	None
3	None	ENSG00000222079	ENST00000410147	miRNA	NOVEL	None	None	None	None	150635484	150635582	1	None	None
17	SNORD124	ENSG00000238793	ENST00000459577	snoRNA	KNOWN	None	33563	None	None	38183795	38183898	-1	None	None
11	RNA5SP341	ENSG00000252070	ENST00000516261	rRNA	KNOWN	None	43241	None	None	57217656	57217772	1	RN5S341	None
X	None	ENSG00000227303	ENST00000431432	processed_transcript	KNOWN	None	None	None	None	142372754	142604631	1	None	None
HG1032_PATCH	None	ENSG00000263308	ENST00000571009	rRNA	NOVEL	None	None	None	None	190938851	190938969	1	None	None
11	None	ENSG00000270423	ENST00000603241	processed_pseudogene	KNOWN	None	None	None	None	109855969	109856386	-1	None	None
6	ASS1P1	ENSG00000220517	ENST00000402854	processed_pseudogene	KNOWN	None	759	None	None	25023475	25024711	-1	ASSP1	None
17	None	ENSG00000221555	ENST00000408628	miRNA	NOVEL	None	None	None	None	38306389	38306475	1	None	None
11	RN7SKP259	ENSG00000222998	ENST00000411066	misc_RNA	KNOWN	None	45983	None	None	57219163	57219495	1	None	None
15	None	ENSG00000238342	ENST00000459314	snoRNA	NOVEL	None	None	None	None	33187401	33187502	1	None	None
HSCHR17_1	None	ENSG00000264593	ENST00000582342	misc_RNA	NOVEL	None	None	None	None	43818325	43818617	-1	None	None
3	RNA5SP145	ENSG00000199994	ENST00000363124	rRNA	KNOWN	None	43045	None	None	150905886	150906010	1	RN5S145	None
16	PRSS21	ENSG00000007038	ENST00000450020	protein_coding	KNOWN	CCDS45388	9485	903	300	2867181	2871720	1	None	ESP-1, TEST1, TESTISIN
16	PRSS21	ENSG00000007038	ENST00000005995	protein_coding	KNOWN	CCDS10478	9485	945	314	2867228	2871720	1	None	ESP-1, TEST1, TESTISIN
16	PRSS21	ENSG00000007038	ENST00000570629	nonsense_mediated_decay	KNOWN	None	9485	246	81	2867278	2871419	1	None	ESP-1, TEST1, TESTISIN
16	PRSS21	ENSG00000007038	ENST00000570594	nonsense_mediated_decay	KNOWN	None	9485	244	80	2867280	2871250	1	None	ESP-1, TEST1, TESTISIN
16	PRSS21	ENSG00000007038	ENST00000574813	protein_coding	PUTATIVE	None	9485	656	217	2867292	2871588	1	None	ESP-1, TEST1, TESTISIN
16	PRSS21	ENSG00000007038	ENST00000571141	retained_intron	KNOWN	None	9485	None	None	2867301	2867881	1	None	ESP-1, TEST1, TESTISIN
16	PRSS21	ENSG00000007038	ENST00000577043	retained_intron	KNOWN	None	9485	None	None	2867674	2871188	1	None	ESP-1, TEST1, TESTISIN
16	PRSS21	ENSG00000007038	ENST00000575199	retained_intron	KNOWN	None	9485	None	None	2867692	2871065	1	None	ESP-1, TEST1, TESTISIN
16	PRSS21	ENSG00000007038	ENST00000574265	protein_coding	NOVEL	None	9485	770	255	2867880	2871696	1	None	ESP-1, TEST1, TESTISIN
16	PRSS21	ENSG00000007038	ENST00000575739	processed_transcript	PUTATIVE	None	9485	None	None	2868928	2876305	1	None	ESP-1, TEST1, TESTISIN
16	PRSS21	ENSG00000007038	ENST00000455114	protein_coding	KNOWN	CCDS45389	9485	939	312	2867164	2871720	1	None	ESP-1, TEST1, TESTISIN
17	RNY4P8	ENSG00000200735	ENST00000363865	misc_RNA	KNOWN	None	34057	None	None	38399475	38399571	1	None	None
1	None	ENSG00000241666	ENST00000451992	antisense	KNOWN	None	None	None	None	167596622	167599911	-1	None	None
15	None	ENSG00000212415	ENST00000391113	snoRNA	NOVEL	None	None	None	None	33262928	33262992	1	None	None
1	None	ENSG00000242757	ENST00000447187	processed_pseudogene	KNOWN	None	None	None	None	227618227	227618677	1	None	None
HG104_HG975_PATCH	None	ENSG00000261034	ENST00000567055	antisense	KNOWN	None	None	None	None	145160174	145161437	-1	None	None
17	None	ENSG00000270145	ENST00000602403	lincRNA	KNOWN	None	None	None	None	38459457	38460909	1	None	None
12	None	ENSG00000258245	ENST00000550757	processed_pseudogene	KNOWN	None	None	None	None	76082574	76082876	-1	None	None
12	None	ENSG00000255790	ENST00000538349	sense_intronic	KNOWN	None	None	None	None	11552315	11639612	-1	None	None
12	None	ENSG00000255790	ENST00000542062	sense_intronic	KNOWN	None	None	None	None	11554419	11639608	-1	None	None
12	None	ENSG00000255790	ENST00000539178	sense_intronic	KNOWN	None	None	None	None	11583144	11589254	-1	None	None
12	None	ENSG00000255790	ENST00000540635	sense_intronic	KNOWN	None	None	None	None	11583296	11639566	-1	None	None
14	None	ENSG00000254140	ENST00000390540	lincRNA	KNOWN	None	None	None	None	106067809	106071694	-1	None	None
14	None	ENSG00000254140	ENST00000479229	lincRNA	KNOWN	None	None	None	None	106067994	106069282	-1	None	None
19	PLK5	ENSG00000185988	ENST00000454744	protein_coding	KNOWN	CCDS59328	27001	1011	336	1524073	1535455	1	PLK5P	SgK384ps
19	PLK5	ENSG00000185988	ENST00000334770	protein_coding	KNOWN	CCDS59328	27001	1011	336	1524958	1535455	1	PLK5P	SgK384ps
19	PLK5	ENSG00000185988	ENST00000588430	protein_coding	NOVEL	None	27001	900	299	1527933	1535249	1	PLK5P	SgK384ps
19	PLK5	ENSG00000185988	ENST00000588292	retained_intron	KNOWN	None	27001	None	None	1528336	1529047	1	PLK5P	SgK384ps
1	None	ENSG00000250762	ENST00000507585	unprocessed_pseudogene	KNOWN	None	None	None	None	167789136	167789486	-1	None	None
8	None	ENSG00000254129	ENST00000523661	antisense	KNOWN	None	None	None	None	28968090	28998198	1	None	None
8	None	ENSG00000254129	ENST00000517632	antisense	KNOWN	None	None	None	None	28997561	28998246	1	None	None
11	IL10RA	ENSG00000110324	ENST00000227752	protein_coding	KNOWN	CCDS8388	5964	1737	578	117857063	117872194	1	IL10R	HIL-10R, CDW210A, CD210a, CD210
11	IL10RA	ENSG00000110324	ENST00000530761	retained_intron	KNOWN	None	5964	None	None	117857085	117870513	1	IL10R	HIL-10R, CDW210A, CD210a, CD210
11	IL10RA	ENSG00000110324	ENST00000533700	processed_transcript	KNOWN	None	5964	None	None	117857106	117870592	1	IL10R	HIL-10R, CDW210A, CD210a, CD210
11	IL10RA	ENSG00000110324	ENST00000526544	nonsense_mediated_decay	KNOWN	None	5964	285	94	117857109	117870503	1	IL10R	HIL-10R, CDW210A, CD210a, CD210
11	IL10RA	ENSG00000110324	ENST00000534574	nonsense_mediated_decay	KNOWN	None	5964	267	88	117857109	117870613	1	IL10R	HIL-10R, CDW210A, CD210a, CD210
11	IL10RA	ENSG00000110324	ENST00000531365	retained_intron	KNOWN	None	5964	None	None	117857156	117860408	1	IL10R	HIL-10R, CDW210A, CD210a, CD210
11	IL10RA	ENSG00000110324	ENST00000529924	retained_intron	KNOWN	None	5964	None	None	117857452	117872196	1	IL10R	HIL-10R, CDW210A, CD210a, CD210
11	IL10RA	ENSG00000110324	ENST00000534335	processed_transcript	PUTATIVE	None	5964	None	None	117860149	117864125	1	IL10R	HIL-10R, CDW210A, CD210a, CD210
11	IL10RA	ENSG00000110324	ENST00000530178	retained_intron	KNOWN	None	5964	None	None	117863723	117869660	1	IL10R	HIL-10R, CDW210A, CD210a, CD210
11	IL10RA	ENSG00000110324	ENST00000532009	retained_intron	KNOWN	None	5964	None	None	117863773	117864922	1	IL10R	HIL-10R, CDW210A, CD210a, CD210
11	IL10RA	ENSG00000110324	ENST00000525467	retained_intron	KNOWN	None	5964	None	None	117865674	117870174	1	IL10R	HIL-10R, CDW210A, CD210a, CD210
11	IL10RA	ENSG00000110324	ENST00000541785	protein_coding	KNOWN	None	5964	1677	558	117857109	117870613	1	IL10R	HIL-10R, CDW210A, CD210a, CD210
11	IL10RA	ENSG00000110324	ENST00000545409	protein_coding	KNOWN	None	5964	1290	429	117857109	117870503	1	IL10R	HIL-10R, CDW210A, CD210a, CD210
9	None	ENSG00000202189	ENST00000365319	snoRNA	NOVEL	None	None	None	None	20786926	20787054	1	None	None
HG1032_PATCH	None	ENSG00000261157	ENST00000567881	unprocessed_pseudogene	KNOWN	None	None	None	None	190942562	190943820	-1	None	None
2	SLC9B1P2	ENSG00000214329	ENST00000398120	transcribed_unprocessed_pseudogene	KNOWN	None	37493	None	None	92071102	92119740	-1	NHEDC1P2	None
2	SLC9B1P2	ENSG00000214329	ENST00000606405	processed_transcript	KNOWN	None	37493	None	None	92080498	92102238	-1	NHEDC1P2	None
1	RN7SL432P	ENSG00000242769	ENST00000484057	misc_RNA	KNOWN	None	46448	None	None	115240250	115240545	-1	None	None
6	RN7SL334P	ENSG00000244618	ENST00000465067	misc_RNA	KNOWN	None	46350	None	None	25031243	25031510	-1	None	None
9	IFNNP1	ENSG00000230208	ENST00000429219	processed_pseudogene	KNOWN	None	32009	None	None	21058770	21059322	-1	None	None
6	None	ENSG00000229313	ENST00000428903	antisense	KNOWN	None	None	None	None	25042067	25056892	1	None	None
HG388_HG400_PATCH	ALG9-IT1	ENSG00000263261	ENST00000570693	sense_intronic	KNOWN	None	41409	None	None	111687938	111699936	-1	None	None
1	None	ENSG00000201900	ENST00000365030	misc_RNA	NOVEL	None	None	None	None	115270341	115270445	1	None	None
1	None	ENSG00000232194	ENST00000451545	antisense	KNOWN	None	None	None	None	167789644	167790462	1	None	None
11	TBX10	ENSG00000167800	ENST00000335385	protein_coding	KNOWN	CCDS31621	11593	1158	385	67398774	67407031	-1	TBX7	TBX13
9	IFNWP4	ENSG00000225027	ENST00000453148	processed_pseudogene	KNOWN	None	5453	None	None	21106542	21106835	1	None	None
11	None	ENSG00000255210	ENST00000525414	processed_pseudogene	KNOWN	None	None	None	None	109920253	109920885	1	None	None
HSCHR17_1	None	ENSG00000257873	ENST00000553239	pseudogene	NOVEL	None	None	None	None	43912820	43913891	1	None	None
15	HNRNPA1P71	ENSG00000259686	ENST00000559135	processed_pseudogene	KNOWN	None	48801	None	None	33304320	33305269	1	None	None
6	None	ENSG00000223623	ENST00000416595	lincRNA	KNOWN	None	None	None	None	25053855	25057301	-1	None	None
8	IGJP1	ENSG00000253655	ENST00000522682	processed_pseudogene	KNOWN	None	5714	None	None	85892308	85892782	-1	None	None
1	MIR1255B2	ENSG00000221545	ENST00000408618	miRNA	KNOWN	None	35367	None	None	167967898	167967964	1	MIRN1255B2	hsa-mir-1255b-2
9	None	ENSG00000199635	ENST00000362765	misc_RNA	NOVEL	None	None	None	None	21160234	21160335	-1	None	None
1	BTF3P9	ENSG00000224834	ENST00000418784	processed_pseudogene	KNOWN	None	38573	None	None	227621765	227622047	1	None	None
5	None	ENSG00000221721	ENST00000408794	miRNA	NOVEL	None	None	None	None	27986282	27986392	-1	None	None
1	NR1H5P	ENSG00000227970	ENST00000452683	unitary_pseudogene	KNOWN	None	32673	None	None	115379848	115394074	1	None	Fxrb, NR1H5
1	GCSHP5	ENSG00000224837	ENST00000443090	processed_pseudogene	KNOWN	None	44195	None	None	168025139	168025660	-1	None	None
3	None	ENSG00000266798	ENST00000516356	miRNA	NOVEL	None	None	None	None	150953732	150953822	1	None	None
5	None	ENSG00000250079	ENST00000510368	processed_pseudogene	KNOWN	None	None	None	None	28213466	28214666	-1	None	None
22	TOM1	ENSG00000100284	ENST00000456128	protein_coding	NOVEL	None	11982	1004	333	35695793	35729485	1	None	None
22	TOM1	ENSG00000100284	ENST00000449058	protein_coding	KNOWN	CCDS13913	11982	1479	492	35695797	35743980	1	None	None
22	TOM1	ENSG00000100284	ENST00000404284	nonsense_mediated_decay	KNOWN	None	11982	210	69	35695849	35743966	1	None	None
22	TOM1	ENSG00000100284	ENST00000465529	retained_intron	KNOWN	None	11982	None	None	35695859	35714309	1	None	None
22	TOM1	ENSG00000100284	ENST00000487670	retained_intron	KNOWN	None	11982	None	None	35695864	35718605	1	None	None
22	TOM1	ENSG00000100284	ENST00000439512	nonsense_mediated_decay	KNOWN	None	11982	252	83	35695867	35723331	1	None	None
22	TOM1	ENSG00000100284	ENST00000424387	nonsense_mediated_decay	KNOWN	None	11982	78	25	35695877	35743974	1	None	None
22	TOM1	ENSG00000100284	ENST00000395736	nonsense_mediated_decay	KNOWN	None	11982	402	133	35695883	35719803	1	None	None
22	TOM1	ENSG00000100284	ENST00000449508	nonsense_mediated_decay	KNOWN	None	11982	294	97	35695887	35719867	1	None	None
22	TOM1	ENSG00000100284	ENST00000443206	protein_coding	PUTATIVE	None	11982	454	150	35707055	35719812	1	None	None
22	TOM1	ENSG00000100284	ENST00000497448	retained_intron	KNOWN	None	11982	None	None	35719333	35719907	1	None	None
22	TOM1	ENSG00000100284	ENST00000491987	retained_intron	KNOWN	None	11982	None	None	35719861	35734781	1	None	None
22	TOM1	ENSG00000100284	ENST00000492723	retained_intron	KNOWN	None	11982	None	None	35740179	35743976	1	None	None
22	TOM1	ENSG00000100284	ENST00000411850	protein_coding	KNOWN	CCDS46696	11982	1482	493	35695797	35743985	1	None	None
22	TOM1	ENSG00000100284	ENST00000425375	protein_coding	KNOWN	CCDS46697	11982	1344	447	35695797	35743985	1	None	None
22	TOM1	ENSG00000100284	ENST00000436462	protein_coding	KNOWN	None	11982	1365	454	35695887	35743691	1	None	None
22	TOM1	ENSG00000100284	ENST00000447733	protein_coding	KNOWN	CCDS46698	11982	1383	460	35695268	35743985	1	None	None
22	TOM1	ENSG00000100284	ENST00000382034	protein_coding	KNOWN	None	11982	798	265	35695887	35743965	1	None	None
X	TLR8-AS1	ENSG00000233338	ENST00000451564	antisense	KNOWN	None	40720	None	None	12920936	12926452	-1	None	None
2	RPIA	ENSG00000153574	ENST00000283646	protein_coding	KNOWN	CCDS2004	10297	936	311	88991162	89050452	1	None	None
1	None	ENSG00000237193	ENST00000420896	processed_pseudogene	KNOWN	None	None	None	None	227669954	227670155	1	None	None
3	SETP11	ENSG00000239570	ENST00000473027	processed_pseudogene	KNOWN	None	42930	None	None	150987228	150987917	1	None	None
HG388_HG400_PATCH	GNG5P3	ENSG00000263274	ENST00000574242	processed_pseudogene	KNOWN	None	33552	None	None	111734977	111735183	1	None	None
14	None	ENSG00000253364	ENST00000460164	lincRNA	KNOWN	None	None	None	None	106110833	106114892	-1	None	None
14	None	ENSG00000253364	ENST00000497397	lincRNA	KNOWN	None	None	None	None	106114261	106115394	-1	None	None
X	PGBD4P6	ENSG00000226064	ENST00000421501	processed_pseudogene	KNOWN	None	44071	None	None	142431769	142432378	1	None	None
11	None	ENSG00000255301	ENST00000528885	antisense	KNOWN	None	None	None	None	57243966	57245007	-1	None	None
X	MTND1P33	ENSG00000235539	ENST00000446251	processed_pseudogene	KNOWN	None	42082	None	None	142520836	142521752	1	None	None
X	None	ENSG00000261030	ENST00000568788	lincRNA	KNOWN	None	None	None	None	13111779	13112692	1	None	None
5	LSM11	ENSG00000155858	ENST00000286307	protein_coding	KNOWN	CCDS4342	30860	1083	360	157170703	157187717	1	None	FLJ38273
Y	None	ENSG00000226975	ENST00000413610	unprocessed_pseudogene	KNOWN	None	None	None	None	10007397	10007923	-1	None	None
12	None	ENSG00000251893	ENST00000516084	snoRNA	NOVEL	None	None	None	None	76082932	76083084	-1	None	None
14	None	ENSG00000258958	ENST00000555990	lincRNA	KNOWN	None	None	None	None	87790097	87798734	1	None	None
X	None	ENSG00000235385	ENST00000412485	lincRNA	KNOWN	None	None	None	None	13284167	13321511	-1	None	None
X	None	ENSG00000235385	ENST00000443965	lincRNA	KNOWN	None	None	None	None	13284661	13321571	-1	None	None
8	None	ENSG00000253283	ENST00000522168	processed_pseudogene	KNOWN	None	None	None	None	85998850	85999421	1	None	None
HG1032_PATCH	RARRES2P4	ENSG00000260709	ENST00000570040	processed_pseudogene	KNOWN	None	48703	None	None	190959071	190959554	-1	None	None
11	None	ENSG00000251995	ENST00000516186	misc_RNA	NOVEL	None	None	None	None	57278032	57278117	1	None	None
1	TUBB8P10	ENSG00000237469	ENST00000430210	unprocessed_pseudogene	KNOWN	None	42348	None	None	227680730	227682843	-1	None	None
5	None	ENSG00000249785	ENST00000512849	lincRNA	KNOWN	None	None	None	None	28286496	28287772	-1	None	None
1	RPL34P1	ENSG00000237049	ENST00000450455	processed_pseudogene	KNOWN	None	10341	None	None	168179854	168180207	1	None	None
11	None	ENSG00000254416	ENST00000526605	lincRNA	KNOWN	None	None	None	None	110225855	110277124	1	None	None
11	None	ENSG00000254416	ENST00000526703	lincRNA	KNOWN	None	None	None	None	110225924	110252710	1	None	None
3	ZMYND10-AS1	ENSG00000235058	ENST00000440013	antisense	KNOWN	None	40890	None	None	50378537	50383128	1	None	None
HSCHR17_1	None	ENSG00000265025	ENST00000579917	miRNA	NOVEL	None	None	None	None	43918344	43918413	-1	None	None
8	None	ENSG00000253702	ENST00000523038	lincRNA	KNOWN	None	None	None	None	49510018	49533578	-1	None	None
15	HEXA-AS1	ENSG00000260339	ENST00000567598	antisense	KNOWN	None	25810	None	None	72668454	72671129	1	C15orf34	FLJ13315
19	KIR3DP1	ENSG00000264257	ENST00000580853	transcribed_unprocessed_pseudogene	KNOWN	None	16343	None	None	55297807	55301770	1	None	KIRX, KIR48, KIR2DS6, KIR3DS2P, CD158C
HSCHR17_1	None	ENSG00000257775	ENST00000551852	pseudogene	NOVEL	None	None	None	None	43956274	43956914	1	None	None
11	JAM3	ENSG00000166086	ENST00000299106	protein_coding	KNOWN	CCDS8494	15532	933	310	133938820	134021896	1	None	JAM-C, JAMC
11	JAM3	ENSG00000166086	ENST00000532252	nonsense_mediated_decay	KNOWN	None	15532	117	38	133938966	134014721	1	None	JAM-C, JAMC
11	JAM3	ENSG00000166086	ENST00000534549	protein_coding	NOVEL	None	15532	372	123	133938966	134014829	1	None	JAM-C, JAMC
11	JAM3	ENSG00000166086	ENST00000441717	protein_coding	NOVEL	CCDS55799	15532	780	259	133938966	134021646	1	None	JAM-C, JAMC
11	JAM3	ENSG00000166086	ENST00000531302	retained_intron	KNOWN	None	15532	None	None	133938980	134015326	1	None	JAM-C, JAMC
11	JAM3	ENSG00000166086	ENST00000524969	processed_transcript	KNOWN	None	15532	None	None	133996234	134014891	1	None	JAM-C, JAMC
11	JAM3	ENSG00000166086	ENST00000532165	processed_transcript	KNOWN	None	15532	None	None	134009535	134014907	1	None	JAM-C, JAMC
11	JAM3	ENSG00000166086	ENST00000533711	retained_intron	KNOWN	None	15532	None	None	134017693	134019103	1	None	JAM-C, JAMC
11	JAM3	ENSG00000166086	ENST00000529443	protein_coding	KNOWN	None	15532	1068	355	133938820	134021636	1	None	JAM-C, JAMC
11	C11orf94	ENSG00000234776	ENST00000449465	protein_coding	KNOWN	CCDS44577	37213	297	98	45928085	45928833	-1	None	None
5	RNU6-909P	ENSG00000252867	ENST00000517058	snRNA	KNOWN	None	47872	None	None	28624764	28624870	1	None	None
11	RPS4XP13	ENSG00000240371	ENST00000483219	processed_pseudogene	KNOWN	None	36522	None	None	57343765	57344553	-1	RPS4P13	None
17	KCNH6	ENSG00000173826	ENST00000581784	protein_coding	KNOWN	CCDS11639	18862	2718	905	61600695	61626338	1	None	Kv11.2, erg2, HERG2
17	KCNH6	ENSG00000173826	ENST00000580652	protein_coding	KNOWN	None	18862	1509	502	61600718	61613574	1	None	Kv11.2, erg2, HERG2
17	KCNH6	ENSG00000173826	ENST00000583465	nonsense_mediated_decay	KNOWN	None	18862	198	65	61600720	61623437	1	None	Kv11.2, erg2, HERG2
17	KCNH6	ENSG00000173826	ENST00000314672	protein_coding	NOVEL	None	18862	2877	958	61600722	61623395	1	None	Kv11.2, erg2, HERG2
17	KCNH6	ENSG00000173826	ENST00000583023	protein_coding	KNOWN	CCDS11638	18862	2985	994	61600764	61624088	1	None	Kv11.2, erg2, HERG2
17	KCNH6	ENSG00000173826	ENST00000456941	protein_coding	KNOWN	CCDS11639	18862	2718	905	61600695	61623600	1	None	Kv11.2, erg2, HERG2
8	RN7SL781P	ENSG00000264328	ENST00000582428	misc_RNA	KNOWN	None	46797	None	None	29000210	29000484	1	None	None
8	None	ENSG00000260493	ENST00000562577	antisense	KNOWN	None	None	None	None	86084312	86089276	-1	None	None
8	None	ENSG00000260493	ENST00000566000	antisense	KNOWN	None	None	None	None	86088034	86089297	-1	None	None
19	RNU6-222P	ENSG00000199308	ENST00000362438	snRNA	KNOWN	None	47185	None	None	55380394	55380500	-1	None	None
14	None	ENSG00000258859	ENST00000557070	lincRNA	KNOWN	None	None	None	None	87819414	88039366	-1	None	None
5	None	ENSG00000250453	ENST00000504398	lincRNA	KNOWN	None	None	None	None	28782785	28809356	-1	None	None
1	None	ENSG00000237131	ENST00000451806	processed_pseudogene	KNOWN	None	None	None	None	168184643	168184890	1	None	None
19	None	ENSG00000268734	ENST00000594721	lincRNA	KNOWN	None	None	None	None	55402039	55402786	1	None	None
3	MRPL42P6	ENSG00000242810	ENST00000486397	processed_pseudogene	KNOWN	None	44533	None	None	151193592	151193962	-1	None	None
HG1032_PATCH	None	ENSG00000261162	ENST00000566539	processed_pseudogene	KNOWN	None	None	None	None	190962497	190964569	1	None	None
19	None	ENSG00000267502	ENST00000591771	antisense	KNOWN	None	None	None	None	55463002	55463961	1	None	None
15	None	ENSG00000259754	ENST00000560900	lincRNA	KNOWN	None	None	None	None	48176507	48341309	1	None	None
15	TMCO5B	ENSG00000215296	ENST00000529696	processed_transcript	KNOWN	None	34243	None	None	33527753	33534491	-1	None	None
15	TMCO5B	ENSG00000215296	ENST00000530020	unitary_pseudogene	KNOWN	None	34243	None	None	33528794	33538098	-1	None	None
15	TMCO5B	ENSG00000215296	ENST00000530871	processed_transcript	KNOWN	None	34243	None	None	33534892	33539755	-1	None	None
15	TMCO5B	ENSG00000215296	ENST00000529623	processed_transcript	KNOWN	None	34243	None	None	33534921	33539822	-1	None	None
15	TMCO5B	ENSG00000215296	ENST00000528283	processed_transcript	KNOWN	None	34243	None	None	33535940	33537188	-1	None	None
15	TMCO5B	ENSG00000215296	ENST00000526835	retained_intron	KNOWN	None	34243	None	None	33537176	33538038	-1	None	None
19	None	ENSG00000243494	ENST00000466725	processed_pseudogene	KNOWN	None	None	None	None	55485185	55485785	1	None	None
1	ANKRD36BP1	ENSG00000214262	ENST00000358576	processed_transcript	KNOWN	None	28169	None	None	168214803	168216581	-1	ANKRD26L1, ANKRD36BL1	MGC12538
1	ANKRD36BP1	ENSG00000214262	ENST00000604892	transcribed_processed_pseudogene	KNOWN	None	28169	None	None	168215026	168216442	-1	ANKRD26L1, ANKRD36BL1	MGC12538
15	None	ENSG00000243007	ENST00000477007	processed_pseudogene	KNOWN	None	None	None	None	72671556	72672051	-1	None	None
X	None	ENSG00000231216	ENST00000431486	antisense	KNOWN	None	None	None	None	13328771	13338052	1	None	None
12	None	ENSG00000258088	ENST00000548702	lincRNA	KNOWN	None	None	None	None	76087790	76092596	-1	None	None
17	DDX42	ENSG00000198231	ENST00000581135	protein_coding	KNOWN	None	18676	314	103	61850963	61869864	1	None	RNAHP, RHELP, SF3b125
17	DDX42	ENSG00000198231	ENST00000578681	protein_coding	KNOWN	CCDS32704	18676	2817	938	61851223	61896677	1	None	RNAHP, RHELP, SF3b125
17	DDX42	ENSG00000198231	ENST00000583590	protein_coding	KNOWN	CCDS32704	18676	2817	938	61851244	61896677	1	None	RNAHP, RHELP, SF3b125
17	DDX42	ENSG00000198231	ENST00000359353	protein_coding	NOVEL	None	18676	2460	819	61851550	61895758	1	None	RNAHP, RHELP, SF3b125
17	DDX42	ENSG00000198231	ENST00000580108	retained_intron	KNOWN	None	18676	None	None	61864396	61875556	1	None	RNAHP, RHELP, SF3b125
17	DDX42	ENSG00000198231	ENST00000578137	nonsense_mediated_decay	KNOWN	None	18676	480	159	61864398	61882647	1	None	RNAHP, RHELP, SF3b125
17	DDX42	ENSG00000198231	ENST00000584261	nonsense_mediated_decay	KNOWN	None	18676	212	69	61869846	61884010	1	None	RNAHP, RHELP, SF3b125
17	DDX42	ENSG00000198231	ENST00000577940	nonsense_mediated_decay	KNOWN	None	18676	298	98	61869889	61890650	1	None	RNAHP, RHELP, SF3b125
17	DDX42	ENSG00000198231	ENST00000579511	retained_intron	KNOWN	None	18676	None	None	61877511	61883916	1	None	RNAHP, RHELP, SF3b125
17	DDX42	ENSG00000198231	ENST00000577978	retained_intron	KNOWN	None	18676	None	None	61877537	61883902	1	None	RNAHP, RHELP, SF3b125
17	DDX42	ENSG00000198231	ENST00000584010	retained_intron	KNOWN	None	18676	None	None	61882868	61896569	1	None	RNAHP, RHELP, SF3b125
17	DDX42	ENSG00000198231	ENST00000581477	retained_intron	KNOWN	None	18676	None	None	61887623	61888631	1	None	RNAHP, RHELP, SF3b125
17	DDX42	ENSG00000198231	ENST00000578593	retained_intron	KNOWN	None	18676	None	None	61888641	61896607	1	None	RNAHP, RHELP, SF3b125
17	DDX42	ENSG00000198231	ENST00000584951	retained_intron	KNOWN	None	18676	None	None	61890632	61893330	1	None	RNAHP, RHELP, SF3b125
17	DDX42	ENSG00000198231	ENST00000579539	retained_intron	KNOWN	None	18676	None	None	61893949	61895246	1	None	RNAHP, RHELP, SF3b125
17	DDX42	ENSG00000198231	ENST00000582985	processed_transcript	PUTATIVE	None	18676	None	None	61894328	61896459	1	None	RNAHP, RHELP, SF3b125
17	DDX42	ENSG00000198231	ENST00000581767	retained_intron	KNOWN	None	18676	None	None	61894433	61896676	1	None	RNAHP, RHELP, SF3b125
17	DDX42	ENSG00000198231	ENST00000389924	protein_coding	KNOWN	CCDS32704	18676	2817	938	61851567	61896676	1	None	RNAHP, RHELP, SF3b125
17	DDX42	ENSG00000198231	ENST00000457800	protein_coding	KNOWN	CCDS32704	18676	2817	938	61864410	61896676	1	None	RNAHP, RHELP, SF3b125
16	FTO	ENSG00000140718	ENST00000471389	protein_coding	KNOWN	CCDS32448	24678	1518	505	53737875	54155853	1	None	KIAA1752, MGC5149, ALKBH9
16	FTO	ENSG00000140718	ENST00000570395	processed_transcript	KNOWN	None	24678	None	None	53738068	53859880	1	None	KIAA1752, MGC5149, ALKBH9
16	FTO	ENSG00000140718	ENST00000464071	nonsense_mediated_decay	KNOWN	None	24678	213	70	53738094	54145999	1	None	KIAA1752, MGC5149, ALKBH9
16	FTO	ENSG00000140718	ENST00000431610	protein_coding	KNOWN	None	24678	321	106	53920829	54146050	1	None	KIAA1752, MGC5149, ALKBH9
16	FTO	ENSG00000140718	ENST00000460382	protein_coding	KNOWN	None	24678	321	106	53920842	54146899	1	None	KIAA1752, MGC5149, ALKBH9
16	FTO	ENSG00000140718	ENST00000463855	protein_coding	KNOWN	None	24678	384	127	53945168	54148375	1	None	KIAA1752, MGC5149, ALKBH9
16	FTO	ENSG00000140718	ENST00000268349	protein_coding	PUTATIVE	None	24678	390	129	53967942	54148375	1	None	KIAA1752, MGC5149, ALKBH9
16	FTO	ENSG00000140718	ENST00000472835	processed_transcript	KNOWN	None	24678	None	None	54097549	54146214	1	None	KIAA1752, MGC5149, ALKBH9
16	FTO	ENSG00000140718	ENST00000394647	protein_coding	KNOWN	None	24678	630	209	53738094	54145999	1	None	KIAA1752, MGC5149, ALKBH9
8	None	ENSG00000253455	ENST00000521660	lincRNA	KNOWN	None	None	None	None	49533025	49536455	1	None	None
Y	None	ENSG00000231411	ENST00000446466	unprocessed_pseudogene	KNOWN	None	None	None	None	10009199	10010334	-1	None	None
X	None	ENSG00000234792	ENST00000453276	processed_pseudogene	KNOWN	None	None	None	None	52641706	52642573	1	None	None
3	FAM19A1	ENSG00000183662	ENST00000478136	protein_coding	KNOWN	CCDS54606	21587	402	133	68053359	68594776	1	None	TAFA-1
3	FAM19A1	ENSG00000183662	ENST00000496687	protein_coding	KNOWN	CCDS54606	21587	402	133	68055373	68594772	1	None	TAFA-1
3	FAM19A1	ENSG00000183662	ENST00000491017	processed_transcript	KNOWN	None	21587	None	None	68295961	68466571	1	None	TAFA-1
11	None	ENSG00000271758	ENST00000527565	lincRNA	KNOWN	None	None	None	None	7726175	7904494	-1	None	None
11	None	ENSG00000271758	ENST00000502624	lincRNA	KNOWN	None	None	None	None	7903541	7904464	-1	None	None
HG388_HG400_PATCH	RPL37AP8	ENSG00000262958	ENST00000575745	processed_pseudogene	KNOWN	None	35645	None	None	111759922	111760194	-1	None	None
14	IGHGP	ENSG00000253755	ENST00000390555	IG_C_pseudogene	KNOWN	None	5529	None	None	106130970	106136180	-1	IGHGP1	None
3	None	ENSG00000242119	ENST00000491120	processed_pseudogene	KNOWN	None	None	None	None	151217427	151217594	1	None	None
15	None	ENSG00000259730	ENST00000558370	lincRNA	KNOWN	None	None	None	None	48236241	48241706	1	None	None
1	RNU6-1310P	ENSG00000206880	ENST00000384153	snRNA	KNOWN	None	48273	None	None	168232613	168232719	-1	None	None
11	ACY3	ENSG00000132744	ENST00000255082	protein_coding	KNOWN	CCDS8175	24104	960	319	67410026	67418130	-1	None	HCBP1, MGC9740, ACY-3
11	ACY3	ENSG00000132744	ENST00000529256	protein_coding	PUTATIVE	None	24104	597	198	67410172	67415054	-1	None	HCBP1, MGC9740, ACY-3
10	None	ENSG00000232934	ENST00000449782	antisense	KNOWN	None	None	None	None	114165977	114169248	-1	None	None
10	None	ENSG00000232934	ENST00000598447	antisense	KNOWN	None	None	None	None	114166032	114169248	-1	None	None
10	None	ENSG00000232934	ENST00000594870	antisense	KNOWN	None	None	None	None	114166052	114169252	-1	None	None
12	None	ENSG00000264062	ENST00000584830	miRNA	NOVEL	None	None	None	None	76118233	76118321	-1	None	None
3	None	ENSG00000271858	ENST00000606259	antisense	KNOWN	None	None	None	None	50402765	50405276	1	None	None
3	None	ENSG00000271858	ENST00000607121	antisense	KNOWN	None	None	None	None	50402805	50405628	1	None	None
3	None	ENSG00000271858	ENST00000606665	antisense	KNOWN	None	None	None	None	50402816	50405628	1	None	None
3	None	ENSG00000271858	ENST00000607583	antisense	KNOWN	None	None	None	None	50402827	50404894	1	None	None
3	None	ENSG00000271858	ENST00000607088	antisense	KNOWN	None	None	None	None	50403654	50405628	1	None	None
3	None	ENSG00000271858	ENST00000607362	antisense	KNOWN	None	None	None	None	50404896	50405628	1	None	None
1	None	ENSG00000227722	ENST00000421214	processed_pseudogene	KNOWN	None	None	None	None	168338292	168338839	1	None	None
14	None	ENSG00000259028	ENST00000554205	lincRNA	KNOWN	None	None	None	None	88034525	88035743	1	None	None
2	FEZ2	ENSG00000171055	ENST00000414288	nonsense_mediated_decay	KNOWN	None	3660	416	137	36778570	36805975	-1	None	None
2	FEZ2	ENSG00000171055	ENST00000475815	retained_intron	KNOWN	None	3660	None	None	36779401	36786398	-1	None	None
2	FEZ2	ENSG00000171055	ENST00000441005	protein_coding	NOVEL	None	3660	550	182	36779401	36808470	-1	None	None
2	FEZ2	ENSG00000171055	ENST00000413938	nonsense_mediated_decay	KNOWN	None	3660	192	63	36779401	36821709	-1	None	None
2	FEZ2	ENSG00000171055	ENST00000379245	protein_coding	NOVEL	CCDS46258	3660	1143	380	36779401	36825334	-1	None	None
2	FEZ2	ENSG00000171055	ENST00000405912	protein_coding	KNOWN	CCDS46257	3660	1062	353	36779437	36825285	-1	None	None
2	FEZ2	ENSG00000171055	ENST00000451623	nonsense_mediated_decay	KNOWN	None	3660	918	305	36779447	36825309	-1	None	None
2	FEZ2	ENSG00000171055	ENST00000432869	nonsense_mediated_decay	KNOWN	None	3660	211	69	36779854	36787988	-1	None	None
2	FEZ2	ENSG00000171055	ENST00000487919	processed_transcript	KNOWN	None	3660	None	None	36779926	36788641	-1	None	None
2	FEZ2	ENSG00000171055	ENST00000487282	processed_transcript	KNOWN	None	3660	None	None	36780090	36806233	-1	None	None
2	FEZ2	ENSG00000171055	ENST00000484205	retained_intron	KNOWN	None	3660	None	None	36782432	36785780	-1	None	None
2	FEZ2	ENSG00000171055	ENST00000464964	processed_transcript	KNOWN	None	3660	None	None	36782826	36811201	-1	None	None
2	FEZ2	ENSG00000171055	ENST00000357996	protein_coding	NOVEL	None	3660	737	244	36782831	36873230	-1	None	None
2	FEZ2	ENSG00000171055	ENST00000305852	protein_coding	KNOWN	None	3660	549	182	36779406	36818154	-1	None	None
1	TUBB8P9	ENSG00000235827	ENST00000422534	unprocessed_pseudogene	KNOWN	None	42347	None	None	227693883	227695993	1	None	None
HSCHR17_1	None	ENSG00000264709	ENST00000578852	misc_RNA	NOVEL	None	None	None	None	43958570	43958671	1	None	None
7	None	ENSG00000240571	ENST00000483283	antisense	KNOWN	None	None	None	None	129813558	129845201	1	None	None
12	C12orf55	ENSG00000188596	ENST00000554621	retained_intron	KNOWN	None	26456	None	None	96883349	96894979	1	C12orf63	FLJ31514, FLJ44112
12	C12orf55	ENSG00000188596	ENST00000553778	protein_coding	NOVEL	None	26456	1800	599	96883353	96932314	1	C12orf63	FLJ31514, FLJ44112
12	C12orf55	ENSG00000188596	ENST00000602373	protein_coding	PUTATIVE	None	26456	2077	691	96883365	96934765	1	C12orf63	FLJ31514, FLJ44112
12	C12orf55	ENSG00000188596	ENST00000554108	processed_transcript	KNOWN	None	26456	None	None	96933915	97024344	1	C12orf63	FLJ31514, FLJ44112
12	C12orf55	ENSG00000188596	ENST00000554821	retained_intron	KNOWN	None	26456	None	None	96941705	96948746	1	C12orf63	FLJ31514, FLJ44112
12	C12orf55	ENSG00000188596	ENST00000556591	processed_transcript	KNOWN	None	26456	None	None	96947965	96970476	1	C12orf63	FLJ31514, FLJ44112
12	C12orf55	ENSG00000188596	ENST00000550977	protein_coding	PUTATIVE	None	26456	796	264	97015490	97040905	1	C12orf63	FLJ31514, FLJ44112
12	C12orf55	ENSG00000188596	ENST00000298953	protein_coding	KNOWN	None	26456	2415	804	96883385	96948585	1	C12orf63	FLJ31514, FLJ44112
12	None	ENSG00000258091	ENST00000547483	processed_pseudogene	KNOWN	None	None	None	None	76319993	76320247	1	None	None
4	None	ENSG00000249754	ENST00000511646	processed_pseudogene	KNOWN	None	None	None	None	141235317	141235704	-1	None	None
2	LMAN2L	ENSG00000114988	ENST00000264963	protein_coding	KNOWN	CCDS2023	19263	1047	348	97371666	97405800	-1	None	DKFZp564L2423, VIPL
2	LMAN2L	ENSG00000114988	ENST00000434524	nonsense_mediated_decay	KNOWN	None	19263	324	107	97371712	97405778	-1	None	DKFZp564L2423, VIPL
2	LMAN2L	ENSG00000114988	ENST00000377079	protein_coding	KNOWN	CCDS46365	19263	1080	359	97372077	97405801	-1	None	DKFZp564L2423, VIPL
2	LMAN2L	ENSG00000114988	ENST00000446780	nonsense_mediated_decay	KNOWN	None	19263	510	169	97372614	97405801	-1	None	DKFZp564L2423, VIPL
2	LMAN2L	ENSG00000114988	ENST00000434865	nonsense_mediated_decay	KNOWN	None	19263	372	123	97372781	97405800	-1	None	DKFZp564L2423, VIPL
2	LMAN2L	ENSG00000114988	ENST00000440610	nonsense_mediated_decay	KNOWN	None	19263	336	111	97372854	97405801	-1	None	DKFZp564L2423, VIPL
2	LMAN2L	ENSG00000114988	ENST00000449221	nonsense_mediated_decay	KNOWN	None	19263	372	123	97372917	97405801	-1	None	DKFZp564L2423, VIPL
2	LMAN2L	ENSG00000114988	ENST00000474494	retained_intron	KNOWN	None	19263	None	None	97373415	97377651	-1	None	DKFZp564L2423, VIPL
2	LMAN2L	ENSG00000114988	ENST00000480869	retained_intron	KNOWN	None	19263	None	None	97377463	97400424	-1	None	DKFZp564L2423, VIPL
2	LMAN2L	ENSG00000114988	ENST00000426463	protein_coding	KNOWN	None	19263	645	214	97372614	97405801	-1	None	DKFZp564L2423, VIPL
2	LMAN2L	ENSG00000114988	ENST00000534882	protein_coding	KNOWN	None	19263	612	203	97372854	97405801	-1	None	DKFZp564L2423, VIPL
2	LMAN2L	ENSG00000114988	ENST00000537039	protein_coding	KNOWN	None	19263	633	210	97372781	97405800	-1	None	DKFZp564L2423, VIPL
1	MIR557	ENSG00000207974	ENST00000385239	miRNA	KNOWN	None	32813	None	None	168344762	168344859	1	MIRN557	hsa-mir-557
HSCHR17_1	None	ENSG00000266414	ENST00000582682	snRNA	NOVEL	None	None	None	None	44046140	44046195	-1	None	None
12	None	ENSG00000256209	ENST00000535133	lincRNA	KNOWN	None	None	None	None	131953856	131977496	-1	None	None
8	None	ENSG00000253892	ENST00000518620	lincRNA	KNOWN	None	None	None	None	49569820	49571454	-1	None	None
HG388_HG400_PATCH	None	ENSG00000261954	ENST00000572486	rRNA	NOVEL	None	None	None	None	111799123	111799231	1	None	None
3	MIR5186	ENSG00000264330	ENST00000577504	miRNA	KNOWN	None	43459	None	None	151283664	151283783	-1	None	hsa-mir-5186
1	None	ENSG00000228697	ENST00000441851	lincRNA	KNOWN	None	None	None	None	168370067	168391894	-1	None	None
1	None	ENSG00000228697	ENST00000422548	lincRNA	KNOWN	None	None	None	None	168370721	168376512	-1	None	None
15	None	ENSG00000266143	ENST00000583682	miRNA	NOVEL	None	None	None	None	48454002	48454100	1	None	None
11	None	ENSG00000254707	ENST00000527443	antisense	KNOWN	None	None	None	None	7726835	7731064	1	None	None
17	SPEM1	ENSG00000181323	ENST00000323675	protein_coding	KNOWN	CCDS42254	32429	930	309	7323679	7324951	1	C17orf83	FLJ40081
15	None	ENSG00000261423	ENST00000562573	lincRNA	KNOWN	None	None	None	None	72700119	72766550	-1	None	None
15	None	ENSG00000261423	ENST00000565181	lincRNA	KNOWN	None	None	None	None	72765185	72767509	-1	None	None
15	RNU6-1111P	ENSG00000212420	ENST00000391118	snRNA	KNOWN	None	48074	None	None	90429717	90429823	-1	None	None
13	FARP1	ENSG00000152767	ENST00000595437	protein_coding	KNOWN	None	3591	3231	1076	98794816	99102027	1	None	CDEP, PLEKHC2, MGC87400, PPP1R75
13	FARP1	ENSG00000152767	ENST00000600648	processed_transcript	KNOWN	None	3591	None	None	98795434	98865486	1	None	CDEP, PLEKHC2, MGC87400, PPP1R75
13	FARP1	ENSG00000152767	ENST00000319562	protein_coding	KNOWN	CCDS9487	3591	3138	1045	98795505	99102023	1	None	CDEP, PLEKHC2, MGC87400, PPP1R75
13	FARP1	ENSG00000152767	ENST00000376581	protein_coding	KNOWN	CCDS32000	3591	390	129	98795734	98897558	1	None	CDEP, PLEKHC2, MGC87400, PPP1R75
13	FARP1	ENSG00000152767	ENST00000598389	protein_coding	KNOWN	None	3591	611	202	98830071	99037098	1	None	CDEP, PLEKHC2, MGC87400, PPP1R75
13	FARP1	ENSG00000152767	ENST00000601361	processed_transcript	KNOWN	None	3591	None	None	98980445	98996066	1	None	CDEP, PLEKHC2, MGC87400, PPP1R75
13	FARP1	ENSG00000152767	ENST00000595817	processed_transcript	KNOWN	None	3591	None	None	98980482	99037085	1	None	CDEP, PLEKHC2, MGC87400, PPP1R75
13	FARP1	ENSG00000152767	ENST00000427404	processed_transcript	KNOWN	None	3591	None	None	98980972	98985492	1	None	CDEP, PLEKHC2, MGC87400, PPP1R75
13	FARP1	ENSG00000152767	ENST00000601656	processed_transcript	KNOWN	None	3591	None	None	98981032	98982008	1	None	CDEP, PLEKHC2, MGC87400, PPP1R75
13	FARP1	ENSG00000152767	ENST00000602015	processed_transcript	KNOWN	None	3591	None	None	98981032	98982238	1	None	CDEP, PLEKHC2, MGC87400, PPP1R75
13	FARP1	ENSG00000152767	ENST00000598698	processed_transcript	KNOWN	None	3591	None	None	98981032	98985125	1	None	CDEP, PLEKHC2, MGC87400, PPP1R75
13	FARP1	ENSG00000152767	ENST00000599151	processed_transcript	KNOWN	None	3591	None	None	98981032	98985134	1	None	CDEP, PLEKHC2, MGC87400, PPP1R75
13	FARP1	ENSG00000152767	ENST00000601762	processed_transcript	KNOWN	None	3591	None	None	98981032	98985489	1	None	CDEP, PLEKHC2, MGC87400, PPP1R75
13	FARP1	ENSG00000152767	ENST00000595366	processed_transcript	KNOWN	None	3591	None	None	98981032	98985492	1	None	CDEP, PLEKHC2, MGC87400, PPP1R75
13	FARP1	ENSG00000152767	ENST00000596545	processed_transcript	KNOWN	None	3591	None	None	98981032	98986603	1	None	CDEP, PLEKHC2, MGC87400, PPP1R75
13	FARP1	ENSG00000152767	ENST00000602272	processed_transcript	KNOWN	None	3591	None	None	98981032	98991012	1	None	CDEP, PLEKHC2, MGC87400, PPP1R75
13	FARP1	ENSG00000152767	ENST00000598346	processed_transcript	KNOWN	None	3591	None	None	98981032	98991133	1	None	CDEP, PLEKHC2, MGC87400, PPP1R75
13	FARP1	ENSG00000152767	ENST00000602171	processed_transcript	KNOWN	None	3591	None	None	98981032	98991133	1	None	CDEP, PLEKHC2, MGC87400, PPP1R75
13	FARP1	ENSG00000152767	ENST00000596613	processed_transcript	KNOWN	None	3591	None	None	98981032	99030172	1	None	CDEP, PLEKHC2, MGC87400, PPP1R75
13	FARP1	ENSG00000152767	ENST00000601853	processed_transcript	KNOWN	None	3591	None	None	98981032	99034794	1	None	CDEP, PLEKHC2, MGC87400, PPP1R75
13	FARP1	ENSG00000152767	ENST00000600032	processed_transcript	KNOWN	None	3591	None	None	98981032	99037086	1	None	CDEP, PLEKHC2, MGC87400, PPP1R75
13	FARP1	ENSG00000152767	ENST00000596467	retained_intron	KNOWN	None	3591	None	None	98981032	99038249	1	None	CDEP, PLEKHC2, MGC87400, PPP1R75
13	FARP1	ENSG00000152767	ENST00000595380	processed_transcript	KNOWN	None	3591	None	None	98981032	99040732	1	None	CDEP, PLEKHC2, MGC87400, PPP1R75
13	FARP1	ENSG00000152767	ENST00000601133	processed_transcript	KNOWN	None	3591	None	None	98981034	98997864	1	None	CDEP, PLEKHC2, MGC87400, PPP1R75
13	FARP1	ENSG00000152767	ENST00000593990	processed_transcript	KNOWN	None	3591	None	None	98981037	98985415	1	None	CDEP, PLEKHC2, MGC87400, PPP1R75
13	FARP1	ENSG00000152767	ENST00000594657	processed_transcript	KNOWN	None	3591	None	None	98981039	98986022	1	None	CDEP, PLEKHC2, MGC87400, PPP1R75
13	FARP1	ENSG00000152767	ENST00000457431	processed_transcript	KNOWN	None	3591	None	None	98981134	98985492	1	None	CDEP, PLEKHC2, MGC87400, PPP1R75
13	FARP1	ENSG00000152767	ENST00000599040	protein_coding	PUTATIVE	None	3591	30	9	98984012	99038008	1	None	CDEP, PLEKHC2, MGC87400, PPP1R75
13	FARP1	ENSG00000152767	ENST00000602263	processed_transcript	KNOWN	None	3591	None	None	98992943	99038020	1	None	CDEP, PLEKHC2, MGC87400, PPP1R75
13	FARP1	ENSG00000152767	ENST00000601009	protein_coding	PUTATIVE	None	3591	514	170	99030075	99041947	1	None	CDEP, PLEKHC2, MGC87400, PPP1R75
13	FARP1	ENSG00000152767	ENST00000593548	processed_transcript	KNOWN	None	3591	None	None	99035860	99038020	1	None	CDEP, PLEKHC2, MGC87400, PPP1R75
13	FARP1	ENSG00000152767	ENST00000490389	retained_intron	KNOWN	None	3591	None	None	99036615	99038040	1	None	CDEP, PLEKHC2, MGC87400, PPP1R75
13	FARP1	ENSG00000152767	ENST00000600190	retained_intron	KNOWN	None	3591	None	None	99042839	99047674	1	None	CDEP, PLEKHC2, MGC87400, PPP1R75
13	FARP1	ENSG00000152767	ENST00000596580	retained_intron	KNOWN	None	3591	None	None	99051540	99059748	1	None	CDEP, PLEKHC2, MGC87400, PPP1R75
13	FARP1	ENSG00000152767	ENST00000457029	processed_transcript	KNOWN	None	3591	None	None	99056325	99077752	1	None	CDEP, PLEKHC2, MGC87400, PPP1R75
13	FARP1	ENSG00000152767	ENST00000423063	protein_coding	PUTATIVE	None	3591	648	215	99083297	99088355	1	None	CDEP, PLEKHC2, MGC87400, PPP1R75
13	FARP1	ENSG00000152767	ENST00000596256	protein_coding	NOVEL	None	3591	744	247	99083335	99093050	1	None	CDEP, PLEKHC2, MGC87400, PPP1R75
13	FARP1	ENSG00000152767	ENST00000597777	retained_intron	KNOWN	None	3591	None	None	99083411	99087251	1	None	CDEP, PLEKHC2, MGC87400, PPP1R75
13	FARP1	ENSG00000152767	ENST00000594346	retained_intron	KNOWN	None	3591	None	None	99097407	99100098	1	None	CDEP, PLEKHC2, MGC87400, PPP1R75
13	FARP1	ENSG00000152767	ENST00000600380	processed_transcript	KNOWN	None	3591	None	None	99101128	99101769	1	None	CDEP, PLEKHC2, MGC87400, PPP1R75
13	FARP1	ENSG00000152767	ENST00000597596	processed_transcript	KNOWN	None	3591	None	None	99101265	99102024	1	None	CDEP, PLEKHC2, MGC87400, PPP1R75
13	FARP1	ENSG00000152767	ENST00000376586	protein_coding	KNOWN	None	3591	3231	1076	98795434	99102016	1	None	CDEP, PLEKHC2, MGC87400, PPP1R75
HG1032_PATCH	None	ENSG00000261591	ENST00000568442	unprocessed_pseudogene	KNOWN	None	None	None	None	190979057	190984160	-1	None	None
15	RNU7-111P	ENSG00000252645	ENST00000516836	snRNA	KNOWN	None	45645	None	None	90440808	90440869	1	None	None
11	NOX4	ENSG00000086991	ENST00000343727	protein_coding	KNOWN	CCDS44696	7891	1665	554	89058536	89224299	-1	None	KOX-1, KOX
11	NOX4	ENSG00000086991	ENST00000534731	protein_coding	KNOWN	CCDS44695	7891	1617	538	89059467	89224496	-1	None	KOX-1, KOX
11	NOX4	ENSG00000086991	ENST00000525196	protein_coding	PUTATIVE	None	7891	1029	342	89059512	89224528	-1	None	KOX-1, KOX
11	NOX4	ENSG00000086991	ENST00000263317	protein_coding	KNOWN	CCDS8285	7891	1737	578	89059512	89224653	-1	None	KOX-1, KOX
11	NOX4	ENSG00000086991	ENST00000532825	protein_coding	NOVEL	None	7891	1545	514	89059515	89225358	-1	None	KOX-1, KOX
11	NOX4	ENSG00000086991	ENST00000527956	protein_coding	KNOWN	CCDS44696	7891	1665	554	89059515	89231355	-1	None	KOX-1, KOX
11	NOX4	ENSG00000086991	ENST00000524473	retained_intron	KNOWN	None	7891	None	None	89059529	89069251	-1	None	KOX-1, KOX
11	NOX4	ENSG00000086991	ENST00000527626	protein_coding	PUTATIVE	None	7891	1176	391	89059584	89224496	-1	None	KOX-1, KOX
11	NOX4	ENSG00000086991	ENST00000528341	protein_coding	PUTATIVE	None	7891	1662	553	89059735	89223900	-1	None	KOX-1, KOX
11	NOX4	ENSG00000086991	ENST00000531342	protein_coding	KNOWN	None	7891	696	231	89059924	89224414	-1	None	KOX-1, KOX
11	NOX4	ENSG00000086991	ENST00000375979	protein_coding	KNOWN	None	7891	816	271	89059924	89224414	-1	None	KOX-1, KOX
11	NOX4	ENSG00000086991	ENST00000529343	nonsense_mediated_decay	KNOWN	None	7891	675	224	89059924	89224525	-1	None	KOX-1, KOX
11	NOX4	ENSG00000086991	ENST00000525278	retained_intron	KNOWN	None	7891	None	None	89176589	89224562	-1	None	KOX-1, KOX
11	NOX4	ENSG00000086991	ENST00000393282	protein_coding	KNOWN	None	7891	165	54	89222074	89224733	-1	None	KOX-1, KOX
11	NOX4	ENSG00000086991	ENST00000413594	protein_coding	KNOWN	None	7891	1800	599	89059905	89224146	-1	None	KOX-1, KOX
11	NOX4	ENSG00000086991	ENST00000424319	protein_coding	KNOWN	CCDS44696	7891	1665	554	89057524	89225392	-1	None	KOX-1, KOX
11	NOX4	ENSG00000086991	ENST00000535633	protein_coding	KNOWN	CCDS44696	7891	1665	554	89057524	89224653	-1	None	KOX-1, KOX
11	NOX4	ENSG00000086991	ENST00000542487	protein_coding	KNOWN	CCDS44696	7891	1665	554	89059515	89322779	-1	None	KOX-1, KOX
11	HNRNPA1P60	ENSG00000233497	ENST00000526810	processed_pseudogene	KNOWN	None	48790	None	None	110658749	110659699	-1	None	None
11	HNRNPA1P60	ENSG00000233497	ENST00000415310	processed_pseudogene	KNOWN	None	48790	None	None	110658755	110659735	-1	None	None
4	None	ENSG00000248984	ENST00000515111	antisense	KNOWN	None	None	None	None	92029174	92033941	-1	None	None
2	ACTR3BP2	ENSG00000226481	ENST00000413404	processed_pseudogene	KNOWN	None	38677	None	None	92128694	92130066	1	None	FKSG73
2	ACTR3BP2	ENSG00000226481	ENST00000444826	processed_pseudogene	KNOWN	None	38677	None	None	92129159	92130496	1	None	FKSG73
7	SSMEM1	ENSG00000165120	ENST00000297819	protein_coding	KNOWN	CCDS5816	29580	735	244	129847700	129856683	1	C7orf45	FLJ40316
X	SSX8	ENSG00000157965	ENST00000506270	unprocessed_pseudogene	KNOWN	None	19654	None	None	52654048	52661945	1	None	None
X	SSX8	ENSG00000157965	ENST00000414360	unprocessed_pseudogene	KNOWN	None	19654	None	None	52651985	52662998	1	None	None
X	SSX8	ENSG00000157965	ENST00000454586	unprocessed_pseudogene	KNOWN	None	19654	None	None	52651985	52659458	1	None	None
15	None	ENSG00000259273	ENST00000560204	processed_pseudogene	KNOWN	None	None	None	None	90479724	90480237	1	None	None
7	None	ENSG00000270992	ENST00000604299	processed_pseudogene	KNOWN	None	None	None	None	129895742	129902610	1	None	None
19	GSK3A	ENSG00000105723	ENST00000222330	protein_coding	KNOWN	CCDS12599	4616	1452	483	42734338	42746745	-1	None	None
19	GSK3A	ENSG00000105723	ENST00000398249	protein_coding	NOVEL	None	4616	1206	401	42734342	42746045	-1	None	None
19	GSK3A	ENSG00000105723	ENST00000453535	nonsense_mediated_decay	KNOWN	CCDS12599	4616	1452	483	42734374	42746777	-1	None	None
19	GSK3A	ENSG00000105723	ENST00000493059	retained_intron	KNOWN	None	4616	None	None	42734694	42736989	-1	None	None
8	None	ENSG00000233109	ENST00000522657	processed_pseudogene	KNOWN	None	None	None	None	49826475	49826939	1	None	None
8	None	ENSG00000233109	ENST00000438521	processed_pseudogene	KNOWN	None	None	None	None	49826419	49826822	1	None	None
4	KRT19P6	ENSG00000249891	ENST00000510983	processed_pseudogene	KNOWN	None	45076	None	None	92806197	92806405	-1	None	None
5	SERF1B	ENSG00000205572	ENST00000380751	protein_coding	KNOWN	CCDS54866	10756	189	62	69321074	69328523	1	None	FAM2B, H4F5C
5	SERF1B	ENSG00000205572	ENST00000380750	protein_coding	KNOWN	CCDS43326	10756	333	110	69321096	69338940	1	None	FAM2B, H4F5C
5	SERF1B	ENSG00000205572	ENST00000503931	protein_coding	PUTATIVE	None	10756	228	75	69321183	69325949	1	None	FAM2B, H4F5C
5	SERF1B	ENSG00000205572	ENST00000506542	protein_coding	PUTATIVE	None	10756	246	81	69321200	69338930	1	None	FAM2B, H4F5C
5	SERF1B	ENSG00000205572	ENST00000515588	protein_coding	PUTATIVE	None	10756	291	96	69321361	69337835	1	None	FAM2B, H4F5C
5	SERF1B	ENSG00000205572	ENST00000507177	processed_transcript	KNOWN	None	10756	None	None	69321390	69322342	1	None	FAM2B, H4F5C
5	SERF1B	ENSG00000205572	ENST00000514285	processed_transcript	KNOWN	None	10756	None	None	69321414	69328320	1	None	FAM2B, H4F5C
5	SERF1B	ENSG00000205572	ENST00000513144	retained_intron	KNOWN	None	10756	None	None	69322091	69328521	1	None	FAM2B, H4F5C
9	PTGDS	ENSG00000107317	ENST00000457950	protein_coding	KNOWN	None	9592	587	194	139871957	139874671	1	None	PGDS, L-PGDS
9	PTGDS	ENSG00000107317	ENST00000371625	protein_coding	KNOWN	CCDS7019	9592	573	190	139871957	139876190	1	None	PGDS, L-PGDS
9	PTGDS	ENSG00000107317	ENST00000371623	protein_coding	KNOWN	None	9592	483	160	139871968	139874278	1	None	PGDS, L-PGDS
9	PTGDS	ENSG00000107317	ENST00000471521	nonsense_mediated_decay	KNOWN	CCDS7019	9592	573	190	139871970	139879887	1	None	PGDS, L-PGDS
9	PTGDS	ENSG00000107317	ENST00000446677	protein_coding	KNOWN	None	9592	640	212	139873264	139876144	1	None	PGDS, L-PGDS
9	PTGDS	ENSG00000107317	ENST00000460340	processed_transcript	KNOWN	None	9592	None	None	139873295	139874000	1	None	PGDS, L-PGDS
9	PTGDS	ENSG00000107317	ENST00000492068	processed_transcript	KNOWN	None	9592	None	None	139873532	139876189	1	None	PGDS, L-PGDS
9	PTGDS	ENSG00000107317	ENST00000462514	processed_transcript	KNOWN	None	9592	None	None	139874368	139875508	1	None	PGDS, L-PGDS
9	PTGDS	ENSG00000107317	ENST00000444903	protein_coding	KNOWN	None	9592	187	61	139874707	139876193	1	None	PGDS, L-PGDS
9	PTGDS	ENSG00000107317	ENST00000467871	processed_transcript	KNOWN	None	9592	None	None	139875285	139876190	1	None	PGDS, L-PGDS
9	PTGDS	ENSG00000107317	ENST00000224167	protein_coding	KNOWN	None	9592	675	224	139871956	139876193	1	None	PGDS, L-PGDS
11	OR5P4P	ENSG00000227892	ENST00000424698	unprocessed_pseudogene	KNOWN	None	15295	None	None	7767537	7768453	1	None	OST730
1	QRSL1P1	ENSG00000215833	ENST00000400977	processed_pseudogene	KNOWN	None	43667	None	None	168418910	168420449	-1	None	None
15	MIR3174	ENSG00000265871	ENST00000583440	miRNA	KNOWN	None	38264	None	None	90549987	90550073	1	None	hsa-mir-3174
7	None	ENSG00000217455	ENST00000458648	protein_coding	PUTATIVE	None	None	155	50	3179868	3197888	-1	None	None
7	None	ENSG00000217455	ENST00000402115	protein_coding	PUTATIVE	None	None	291	96	3180134	3198204	-1	None	None
7	None	ENSG00000217455	ENST00000403226	protein_coding	PUTATIVE	None	None	291	96	3180551	3198204	-1	None	None
7	None	ENSG00000217455	ENST00000457522	nonsense_mediated_decay	KNOWN	None	None	80	25	3180554	3197888	-1	None	None
7	None	ENSG00000217455	ENST00000404626	protein_coding	PUTATIVE	None	None	213	70	3186626	3214287	-1	None	None
1	PRDM16	ENSG00000142611	ENST00000511072	protein_coding	PUTATIVE	None	14000	3537	1178	2985732	3350906	1	None	MEL1, PFM13, KIAA1675, MGC166915
1	PRDM16	ENSG00000142611	ENST00000607632	retained_intron	KNOWN	None	14000	None	None	2985747	3103155	1	None	MEL1, PFM13, KIAA1675, MGC166915
1	PRDM16	ENSG00000142611	ENST00000378391	protein_coding	NOVEL	CCDS44048	14000	3774	1257	2985761	3351985	1	None	MEL1, PFM13, KIAA1675, MGC166915
1	PRDM16	ENSG00000142611	ENST00000514189	protein_coding	PUTATIVE	None	14000	3534	1177	2985775	3350906	1	None	MEL1, PFM13, KIAA1675, MGC166915
1	PRDM16	ENSG00000142611	ENST00000270722	protein_coding	KNOWN	CCDS41236	14000	3831	1276	2985775	3355185	1	None	MEL1, PFM13, KIAA1675, MGC166915
1	PRDM16	ENSG00000142611	ENST00000512462	processed_transcript	KNOWN	None	14000	None	None	3154495	3350489	1	None	MEL1, PFM13, KIAA1675, MGC166915
1	PRDM16	ENSG00000142611	ENST00000463591	protein_coding	PUTATIVE	None	14000	162	53	3160696	3303482	1	None	MEL1, PFM13, KIAA1675, MGC166915
1	PRDM16	ENSG00000142611	ENST00000509860	protein_coding	KNOWN	None	14000	3255	1084	3313055	3350857	1	None	MEL1, PFM13, KIAA1675, MGC166915
1	PRDM16	ENSG00000142611	ENST00000378389	processed_transcript	KNOWN	None	14000	None	None	3341483	3350659	1	None	MEL1, PFM13, KIAA1675, MGC166915
1	PRDM16	ENSG00000142611	ENST00000606170	retained_intron	KNOWN	None	14000	None	None	3341780	3342636	1	None	MEL1, PFM13, KIAA1675, MGC166915
1	PRDM16	ENSG00000142611	ENST00000378398	protein_coding	KNOWN	None	14000	3831	1276	2985742	3355183	1	None	MEL1, PFM13, KIAA1675, MGC166915
1	PRDM16	ENSG00000142611	ENST00000441472	protein_coding	KNOWN	None	14000	3828	1275	2985742	3355183	1	None	MEL1, PFM13, KIAA1675, MGC166915
1	PRDM16	ENSG00000142611	ENST00000442529	protein_coding	KNOWN	None	14000	3771	1256	2985742	3355183	1	None	MEL1, PFM13, KIAA1675, MGC166915
8	None	ENSG00000254208	ENST00000520129	antisense	KNOWN	None	None	None	None	86089757	86090385	-1	None	None
15	None	ENSG00000259291	ENST00000558334	antisense	KNOWN	None	None	None	None	90617747	90625439	-1	None	None
HSCHR17_1	None	ENSG00000257348	ENST00000551343	pseudogene	NOVEL	None	None	None	None	44153192	44153384	1	None	None
15	None	ENSG00000259235	ENST00000560339	lincRNA	KNOWN	None	None	None	None	48481234	48483228	-1	None	None
15	None	ENSG00000259235	ENST00000561094	lincRNA	KNOWN	None	None	None	None	48481317	48483157	-1	None	None
15	None	ENSG00000259235	ENST00000560623	lincRNA	KNOWN	None	None	None	None	48481584	48483888	-1	None	None
7	None	ENSG00000238336	ENST00000459210	snoRNA	NOVEL	None	None	None	None	129959119	129959222	1	None	None
13	DHRS12	ENSG00000102796	ENST00000444610	protein_coding	KNOWN	CCDS58292	25832	954	317	52342129	52378259	-1	None	FLJ13639, SDR40C1
13	DHRS12	ENSG00000102796	ENST00000218981	protein_coding	KNOWN	CCDS9430	25832	729	242	52342131	52378293	-1	None	FLJ13639, SDR40C1
13	DHRS12	ENSG00000102796	ENST00000469957	retained_intron	KNOWN	None	25832	None	None	52342751	52348260	-1	None	FLJ13639, SDR40C1
13	DHRS12	ENSG00000102796	ENST00000280056	protein_coding	KNOWN	CCDS31976	25832	816	271	52344920	52378234	-1	None	FLJ13639, SDR40C1
13	DHRS12	ENSG00000102796	ENST00000472372	processed_transcript	KNOWN	None	25832	None	None	52345957	52351519	-1	None	FLJ13639, SDR40C1
13	DHRS12	ENSG00000102796	ENST00000489680	processed_transcript	KNOWN	None	25832	None	None	52345957	52364212	-1	None	FLJ13639, SDR40C1
13	DHRS12	ENSG00000102796	ENST00000490949	processed_transcript	KNOWN	None	25832	None	None	52345957	52378293	-1	None	FLJ13639, SDR40C1
13	DHRS12	ENSG00000102796	ENST00000461948	processed_transcript	KNOWN	None	25832	None	None	52346902	52364198	-1	None	FLJ13639, SDR40C1
13	DHRS12	ENSG00000102796	ENST00000497151	processed_transcript	KNOWN	None	25832	None	None	52364159	52377859	-1	None	FLJ13639, SDR40C1
12	None	ENSG00000255704	ENST00000541343	processed_pseudogene	KNOWN	None	None	None	None	132081402	132081660	-1	None	None
17	HOXB8	ENSG00000120068	ENST00000498634	protein_coding	PUTATIVE	None	5119	386	127	46688739	46690841	-1	HOX2, HOX2D	None
17	HOXB8	ENSG00000120068	ENST00000239144	protein_coding	KNOWN	CCDS11533	5119	732	243	46689708	46692301	-1	HOX2, HOX2D	None
17	HOXB8	ENSG00000120068	ENST00000576562	protein_coding	NOVEL	None	5119	729	242	46690550	46692066	-1	HOX2, HOX2D	None
17	HOXB8	ENSG00000120068	ENST00000468443	protein_coding	KNOWN	None	5119	98	31	46691969	46692478	-1	HOX2, HOX2D	None
15	None	ENSG00000259685	ENST00000561101	lincRNA	KNOWN	None	None	None	None	90645881	90676674	1	None	None
11	None	ENSG00000254602	ENST00000528466	sense_overlapping	KNOWN	None	None	None	None	57405497	57418182	1	None	None
11	None	ENSG00000254602	ENST00000530595	sense_overlapping	KNOWN	None	None	None	None	57405849	57420263	1	None	None
11	None	ENSG00000254602	ENST00000525988	sense_overlapping	KNOWN	None	None	None	None	57414359	57418205	1	None	None
11	None	ENSG00000254602	ENST00000529908	sense_overlapping	KNOWN	None	None	None	None	57415819	57418248	1	None	None
11	None	ENSG00000254602	ENST00000526243	sense_overlapping	KNOWN	None	None	None	None	57416692	57418286	1	None	None
HG388_HG400_PATCH	None	ENSG00000262129	ENST00000573390	processed_pseudogene	KNOWN	None	None	None	None	111816367	111817615	-1	None	None
1	None	ENSG00000233730	ENST00000448680	lincRNA	KNOWN	None	None	None	None	115642293	115645279	1	None	None
Y	PCMTD1P1	ENSG00000226061	ENST00000455560	unprocessed_pseudogene	KNOWN	None	38804	None	None	10011462	10011816	1	None	None
15	RN7SL755P	ENSG00000263714	ENST00000578588	misc_RNA	KNOWN	None	46771	None	None	90673649	90673945	1	None	None
6	PERP	ENSG00000112378	ENST00000421351	protein_coding	KNOWN	CCDS5188	17637	582	193	138409642	138428648	-1	None	PIGPC1, dJ496H19.1, KCP1, THW, KRTCAP1
1	None	ENSG00000228035	ENST00000425449	antisense	KNOWN	None	None	None	None	115825655	115910693	1	None	None
1	None	ENSG00000237658	ENST00000422253	lincRNA	KNOWN	None	None	None	None	168433452	168464882	-1	None	None
3	None	ENSG00000222833	ENST00000410901	miRNA	NOVEL	None	None	None	None	151352138	151352251	1	None	None
3	FAM19A4	ENSG00000163377	ENST00000295569	protein_coding	KNOWN	CCDS2907	21591	423	140	68780917	68981761	-1	None	TAFA-4
3	FAM19A4	ENSG00000163377	ENST00000495737	protein_coding	KNOWN	None	21591	233	76	68802067	68981719	-1	None	TAFA-4
5	ANXA2R	ENSG00000177721	ENST00000314890	protein_coding	KNOWN	CCDS34153	33463	582	193	43039335	43043272	-1	C5orf39	AXIIR
2	CHEK2P3	ENSG00000234898	ENST00000416118	unprocessed_pseudogene	KNOWN	None	43579	None	None	92145462	92151636	1	None	None
3	GRM7-AS3	ENSG00000226258	ENST00000455623	lincRNA	KNOWN	None	42444	None	None	6673376	6686581	-1	None	None
3	GRM7-AS3	ENSG00000226258	ENST00000445675	lincRNA	KNOWN	None	42444	None	None	6673587	6706593	-1	None	None
3	GRM7-AS3	ENSG00000226258	ENST00000412629	lincRNA	KNOWN	None	42444	None	None	6674045	6847136	-1	None	None
3	GRM7-AS3	ENSG00000226258	ENST00000458713	lincRNA	KNOWN	None	42444	None	None	6674223	6706630	-1	None	None
3	GRM7-AS3	ENSG00000226258	ENST00000449158	lincRNA	KNOWN	None	42444	None	None	6763002	6832792	-1	None	None
3	GRM7-AS3	ENSG00000226258	ENST00000417482	lincRNA	KNOWN	None	42444	None	None	6772859	6847125	-1	None	None
3	GRM7-AS3	ENSG00000226258	ENST00000424366	lincRNA	KNOWN	None	42444	None	None	6781225	6847114	-1	None	None
3	GRM7-AS3	ENSG00000226258	ENST00000452244	lincRNA	KNOWN	None	42444	None	None	6782054	6784374	-1	None	None
3	GRM7-AS3	ENSG00000226258	ENST00000454410	lincRNA	KNOWN	None	42444	None	None	6830621	6847096	-1	None	None
12	RN7SL734P	ENSG00000243420	ENST00000460858	misc_RNA	KNOWN	None	46750	None	None	76351614	76351910	-1	None	None
6	PBX2	ENSG00000204304	ENST00000375050	protein_coding	KNOWN	CCDS4748	8633	1293	430	32152512	32157963	-1	None	G17, HOX12, PBX2MHC
6	PBX2	ENSG00000204304	ENST00000559458	processed_transcript	KNOWN	None	8633	None	None	32152516	32153659	-1	None	G17, HOX12, PBX2MHC
6	PBX2	ENSG00000204304	ENST00000495300	retained_intron	KNOWN	None	8633	None	None	32154033	32155292	-1	None	G17, HOX12, PBX2MHC
6	PBX2	ENSG00000204304	ENST00000478678	retained_intron	KNOWN	None	8633	None	None	32154750	32157719	-1	None	G17, HOX12, PBX2MHC
6	PBX2	ENSG00000204304	ENST00000496171	retained_intron	KNOWN	None	8633	None	None	32155010	32156593	-1	None	G17, HOX12, PBX2MHC
6	PBX2	ENSG00000204304	ENST00000480254	retained_intron	KNOWN	None	8633	None	None	32156057	32156854	-1	None	G17, HOX12, PBX2MHC
1	None	ENSG00000227777	ENST00000449688	processed_pseudogene	KNOWN	None	None	None	None	168511975	168512592	1	None	None
14	None	ENSG00000258770	ENST00000557784	lincRNA	KNOWN	None	None	None	None	88100723	88121638	-1	None	None
1	None	ENSG00000226973	ENST00000457493	unprocessed_pseudogene	KNOWN	None	None	None	None	116014562	116018648	1	None	None
3	None	ENSG00000241151	ENST00000492731	lincRNA	KNOWN	None	None	None	None	151354962	151375754	1	None	None
8	HMGB1P23	ENSG00000253770	ENST00000518743	processed_pseudogene	KNOWN	None	39114	None	None	29076422	29076989	1	None	None
HG185_PATCH	KLHL11	ENSG00000259896	ENST00000569845	protein_coding	KNOWN	None	19008	2127	708	40009797	40021683	-1	None	FLJ10572
2	None	ENSG00000235147	ENST00000436016	processed_pseudogene	KNOWN	None	None	None	None	92194706	92195147	-1	None	None
5	ATG10	ENSG00000152348	ENST00000355178	protein_coding	KNOWN	None	20315	378	125	81267844	81443936	1	APG10L	DKFZP586I0418, FLJ13954
5	ATG10	ENSG00000152348	ENST00000282185	protein_coding	KNOWN	CCDS4057	20315	663	220	81267844	81551958	1	APG10L	DKFZP586I0418, FLJ13954
5	ATG10	ENSG00000152348	ENST00000510085	protein_coding	PUTATIVE	None	20315	109	35	81267845	81283498	1	APG10L	DKFZP586I0418, FLJ13954
5	ATG10	ENSG00000152348	ENST00000458350	protein_coding	KNOWN	CCDS4057	20315	663	220	81267870	81550611	1	APG10L	DKFZP586I0418, FLJ13954
5	ATG10	ENSG00000152348	ENST00000513443	protein_coding	PUTATIVE	None	20315	378	125	81267976	81443323	1	APG10L	DKFZP586I0418, FLJ13954
5	ATG10	ENSG00000152348	ENST00000504770	nonsense_mediated_decay	KNOWN	None	20315	516	171	81268080	81549250	1	APG10L	DKFZP586I0418, FLJ13954
5	ATG10	ENSG00000152348	ENST00000513634	protein_coding	PUTATIVE	None	20315	555	184	81283377	81548532	1	APG10L	DKFZP586I0418, FLJ13954
5	ATG10	ENSG00000152348	ENST00000508814	processed_transcript	KNOWN	None	20315	None	None	81407211	81572116	1	APG10L	DKFZP586I0418, FLJ13954
5	ATG10	ENSG00000152348	ENST00000514253	processed_transcript	KNOWN	None	20315	None	None	81460264	81572676	1	APG10L	DKFZP586I0418, FLJ13954
7	PRRT4	ENSG00000224940	ENST00000489835	protein_coding	NOVEL	CCDS47698	37280	1290	429	127990379	128001658	-1	None	None
7	PRRT4	ENSG00000224940	ENST00000480290	protein_coding	PUTATIVE	None	37280	1258	418	127990408	127999689	-1	None	None
7	PRRT4	ENSG00000224940	ENST00000489517	protein_coding	NOVEL	None	37280	1439	478	127992171	128001735	-1	None	None
7	PRRT4	ENSG00000224940	ENST00000464607	protein_coding	NOVEL	None	37280	625	207	127999421	128001683	-1	None	None
7	PRRT4	ENSG00000224940	ENST00000495931	protein_coding	NOVEL	None	37280	617	204	127999429	128001739	-1	None	None
7	PRRT4	ENSG00000224940	ENST00000446477	protein_coding	KNOWN	CCDS55160	37280	2700	899	127990380	128001739	-1	None	None
7	PRRT4	ENSG00000224940	ENST00000535159	protein_coding	KNOWN	CCDS55160	37280	2700	899	127990910	128001739	-1	None	None
7	PRRT4	ENSG00000224940	ENST00000435512	protein_coding	KNOWN	None	37280	2082	693	127990910	128001739	-1	None	None
12	None	ENSG00000256258	ENST00000542797	lincRNA	KNOWN	None	None	None	None	132106436	132107748	-1	None	None
12	None	ENSG00000257329	ENST00000549888	lincRNA	KNOWN	None	None	None	None	76358220	76360842	1	None	None
11	TSSC4	ENSG00000184281	ENST00000380996	protein_coding	KNOWN	None	12386	798	265	2421718	2425106	1	None	None
11	TSSC4	ENSG00000184281	ENST00000333256	protein_coding	KNOWN	CCDS7735	12386	990	329	2421766	2425106	1	None	None
11	TSSC4	ENSG00000184281	ENST00000380992	protein_coding	PUTATIVE	None	12386	384	127	2421858	2424931	1	None	None
11	TSSC4	ENSG00000184281	ENST00000437110	protein_coding	KNOWN	None	12386	610	202	2421986	2424473	1	None	None
11	TSSC4	ENSG00000184281	ENST00000435795	protein_coding	KNOWN	None	12386	338	111	2421993	2424201	1	None	None
11	TSSC4	ENSG00000184281	ENST00000485682	protein_coding	KNOWN	None	12386	331	109	2422248	2424194	1	None	None
11	TSSC4	ENSG00000184281	ENST00000440813	protein_coding	KNOWN	None	12386	623	206	2423330	2424678	1	None	None
11	TSSC4	ENSG00000184281	ENST00000496468	protein_coding	KNOWN	None	12386	574	190	2423366	2424437	1	None	None
11	TSSC4	ENSG00000184281	ENST00000467308	processed_transcript	PUTATIVE	None	12386	None	None	2424331	2425106	1	None	None
11	TSSC4	ENSG00000184281	ENST00000451491	protein_coding	KNOWN	CCDS7735	12386	990	329	2423523	2425105	1	None	None
15	RN7SL346P	ENSG00000240470	ENST00000491561	misc_RNA	KNOWN	None	46362	None	None	90709465	90709756	1	None	None
8	None	ENSG00000212034	ENST00000390745	miRNA	NOVEL	None	None	None	None	29127491	29127578	-1	None	None
12	HIGD1AP8	ENSG00000237303	ENST00000453927	processed_pseudogene	KNOWN	None	43003	None	None	11634317	11634590	1	None	None
15	RPS12P26	ENSG00000225193	ENST00000492017	transcribed_processed_pseudogene	KNOWN	None	36320	None	None	90749804	90750199	1	None	None
X	None	ENSG00000230130	ENST00000457230	processed_pseudogene	KNOWN	None	None	None	None	142522311	142523074	1	None	None
1	None	ENSG00000227711	ENST00000422837	lincRNA	KNOWN	None	None	None	None	227698297	227708178	-1	None	None
1	None	ENSG00000229757	ENST00000426573	processed_pseudogene	KNOWN	None	None	None	None	168547891	168548677	-1	None	None
12	PCNPP1	ENSG00000258359	ENST00000552501	processed_pseudogene	KNOWN	None	32440	None	None	112107656	112108166	-1	PCNPP	None
8	LRRCC1	ENSG00000133739	ENST00000360375	protein_coding	KNOWN	CCDS43750	29373	3099	1032	86019382	86058311	1	None	KIAA1764, CLERC, VFL1
8	LRRCC1	ENSG00000133739	ENST00000522567	nonsense_mediated_decay	KNOWN	None	29373	111	36	86019450	86050409	1	None	KIAA1764, CLERC, VFL1
8	LRRCC1	ENSG00000133739	ENST00000523669	nonsense_mediated_decay	KNOWN	None	29373	111	36	86019473	86044165	1	None	KIAA1764, CLERC, VFL1
8	LRRCC1	ENSG00000133739	ENST00000517875	nonsense_mediated_decay	KNOWN	None	29373	111	36	86019473	86050309	1	None	KIAA1764, CLERC, VFL1
8	LRRCC1	ENSG00000133739	ENST00000522770	nonsense_mediated_decay	KNOWN	None	29373	108	35	86019473	86050405	1	None	KIAA1764, CLERC, VFL1
8	LRRCC1	ENSG00000133739	ENST00000414626	protein_coding	KNOWN	None	29373	3039	1012	86020897	86058311	1	None	KIAA1764, CLERC, VFL1
14	None	ENSG00000258807	ENST00000554305	lincRNA	KNOWN	None	None	None	None	88176763	88338635	-1	None	None
14	None	ENSG00000258807	ENST00000556168	lincRNA	KNOWN	None	None	None	None	88192299	88200642	-1	None	None
14	None	ENSG00000258807	ENST00000554519	lincRNA	KNOWN	None	None	None	None	88202746	88282595	-1	None	None
2	None	ENSG00000223816	ENST00000451163	unprocessed_pseudogene	KNOWN	None	None	None	None	92222548	92223026	-1	None	None
2	None	ENSG00000223816	ENST00000540327	unprocessed_pseudogene	KNOWN	None	None	None	None	92222172	92222840	-1	None	None
12	None	ENSG00000270863	ENST00000603334	processed_pseudogene	KNOWN	None	None	None	None	11665657	11667070	1	None	None
7	CPA2	ENSG00000158516	ENST00000222481	protein_coding	KNOWN	CCDS5817	2297	1260	419	129906667	129929638	1	None	None
7	CPA2	ENSG00000158516	ENST00000480781	retained_intron	KNOWN	None	2297	None	None	129906705	129913080	1	None	None
7	CPA2	ENSG00000158516	ENST00000487259	retained_intron	KNOWN	None	2297	None	None	129906707	129916872	1	None	None
7	CPA2	ENSG00000158516	ENST00000416698	nonsense_mediated_decay	KNOWN	None	2297	549	182	129906721	129916578	1	None	None
3	None	ENSG00000242908	ENST00000483843	antisense	KNOWN	None	None	None	None	151469231	151645956	-1	None	None
3	None	ENSG00000242908	ENST00000475855	antisense	KNOWN	None	None	None	None	151469259	151645963	-1	None	None
20	None	ENSG00000230990	ENST00000444792	lincRNA	KNOWN	None	None	None	None	11214818	11282173	-1	None	None
20	None	ENSG00000230990	ENST00000412405	lincRNA	KNOWN	None	None	None	None	11246764	11249483	-1	None	None
9	None	ENSG00000224603	ENST00000438252	processed_pseudogene	KNOWN	None	None	None	None	46755557	46755935	-1	None	None
12	None	ENSG00000256237	ENST00000536492	lincRNA	KNOWN	None	None	None	None	11694329	11708772	-1	None	None
HSCHR6_MHC_QBL	DDX39BP2	ENSG00000234140	ENST00000442907	unprocessed_pseudogene	KNOWN	None	33461	None	None	29950408	29950803	1	BAT1P2	BPG309N1.15
8	WHSC1L1	ENSG00000147548	ENST00000317025	protein_coding	KNOWN	CCDS43729	12767	4314	1437	38127215	38239790	-1	None	FLJ20353, NSD3
8	WHSC1L1	ENSG00000147548	ENST00000433384	protein_coding	KNOWN	None	12767	4167	1388	38132544	38239763	-1	None	FLJ20353, NSD3
8	WHSC1L1	ENSG00000147548	ENST00000528828	retained_intron	KNOWN	None	12767	None	None	38133008	38137728	-1	None	FLJ20353, NSD3
8	WHSC1L1	ENSG00000147548	ENST00000527502	protein_coding	NOVEL	None	12767	4281	1426	38133061	38239364	-1	None	FLJ20353, NSD3
8	WHSC1L1	ENSG00000147548	ENST00000526050	retained_intron	KNOWN	None	12767	None	None	38146939	38148266	-1	None	FLJ20353, NSD3
8	WHSC1L1	ENSG00000147548	ENST00000528304	retained_intron	KNOWN	None	12767	None	None	38153314	38157312	-1	None	FLJ20353, NSD3
8	WHSC1L1	ENSG00000147548	ENST00000316985	protein_coding	KNOWN	CCDS6105	12767	1938	645	38173935	38239790	-1	None	FLJ20353, NSD3
8	WHSC1L1	ENSG00000147548	ENST00000525081	processed_transcript	KNOWN	None	12767	None	None	38174373	38176809	-1	None	FLJ20353, NSD3
8	WHSC1L1	ENSG00000147548	ENST00000528627	protein_coding	PUTATIVE	None	12767	234	77	38177273	38184353	-1	None	FLJ20353, NSD3
8	WHSC1L1	ENSG00000147548	ENST00000529223	protein_coding	KNOWN	None	12767	846	281	38194887	38239249	-1	None	FLJ20353, NSD3
8	WHSC1L1	ENSG00000147548	ENST00000534155	protein_coding	KNOWN	None	12767	76	24	38205614	38239745	-1	None	FLJ20353, NSD3
8	WHSC1L1	ENSG00000147548	ENST00000534539	protein_coding	KNOWN	None	12767	45	14	38205645	38238339	-1	None	FLJ20353, NSD3
9	None	ENSG00000204801	ENST00000514120	unprocessed_pseudogene	KNOWN	None	None	None	None	46786249	46787634	-1	None	None
12	None	ENSG00000221128	ENST00000408201	miRNA	NOVEL	None	None	None	None	11694857	11694979	-1	None	None
19	None	ENSG00000267265	ENST00000593060	antisense	KNOWN	None	None	None	None	55517561	55559454	1	None	None
19	None	ENSG00000267265	ENST00000586845	antisense	KNOWN	None	None	None	None	55517573	55554619	1	None	None
19	None	ENSG00000267265	ENST00000586961	antisense	KNOWN	None	None	None	None	55538990	55555685	1	None	None
2	CNN2P11	ENSG00000237383	ENST00000429351	processed_pseudogene	KNOWN	None	39536	None	None	95391419	95391680	-1	None	None
X	RNA5SP514	ENSG00000200587	ENST00000363717	rRNA	KNOWN	None	43414	None	None	131072874	131072984	-1	RN5S514	None
3	RNA5SP131	ENSG00000202322	ENST00000365452	rRNA	KNOWN	None	43031	None	None	50457212	50457330	1	RN5S131	None
8	None	ENSG00000263392	ENST00000577231	miRNA	NOVEL	None	None	None	None	29171273	29171365	-1	None	None
1	None	ENSG00000265534	ENST00000579604	miRNA	NOVEL	None	None	None	None	116028272	116028364	1	None	None
8	None	ENSG00000253474	ENST00000518222	lincRNA	KNOWN	None	None	None	None	50081098	50141484	1	None	None
8	None	ENSG00000253474	ENST00000519828	lincRNA	KNOWN	None	None	None	None	50081241	50137588	1	None	None
12	None	ENSG00000256424	ENST00000537280	lincRNA	KNOWN	None	None	None	None	132131658	132132666	-1	None	None
6	TMEM170B	ENSG00000205269	ENST00000379426	protein_coding	NOVEL	CCDS43425	34244	399	132	11538511	11583757	1	None	None
6	TMEM170B	ENSG00000205269	ENST00000543875	protein_coding	KNOWN	CCDS43425	34244	399	132	11537938	11575876	1	None	None
14	None	ENSG00000259019	ENST00000554881	transcribed_processed_pseudogene	KNOWN	None	None	None	None	44546737	44547087	-1	None	None
8	None	ENSG00000266476	ENST00000577225	miRNA	NOVEL	None	None	None	None	29180781	29180873	-1	None	None
11	MIR130A	ENSG00000208009	ENST00000385274	miRNA	KNOWN	None	31514	None	None	57408671	57408759	1	MIRN130A	hsa-mir-130a
12	None	ENSG00000198923	ENST00000552179	processed_pseudogene	KNOWN	None	None	None	None	76358579	76358775	1	None	None
12	None	ENSG00000198923	ENST00000361500	processed_pseudogene	KNOWN	None	None	None	None	76357812	76358780	1	None	None
1	TCEB1P20	ENSG00000229101	ENST00000422460	unprocessed_pseudogene	KNOWN	None	38156	None	None	116099447	116100096	1	None	None
Y	CDC27P2	ENSG00000237447	ENST00000425026	processed_pseudogene	KNOWN	None	38092	None	None	10027986	10029907	-1	None	None
1	RNA5SP77	ENSG00000202264	ENST00000365394	rRNA	KNOWN	None	42854	None	None	227748882	227749001	1	RN5S77	None
1	None	ENSG00000221578	ENST00000408651	miRNA	NOVEL	None	None	None	None	168717034	168717120	-1	None	None
8	RN7SKP294	ENSG00000199640	ENST00000362770	misc_RNA	KNOWN	None	46018	None	None	50242769	50243106	1	None	None
HSCHR17_1	None	ENSG00000257565	ENST00000550594	pseudogene	NOVEL	None	None	None	None	44449947	44450193	1	None	None
8	None	ENSG00000260253	ENST00000567818	sense_overlapping	KNOWN	None	None	None	None	29209937	29210687	-1	None	None
12	RNU7-60P	ENSG00000251747	ENST00000515938	snRNA	KNOWN	None	34156	None	None	11699413	11699474	1	None	U7.60
2	None	ENSG00000227265	ENST00000424978	processed_pseudogene	KNOWN	None	None	None	None	95400400	95401589	-1	None	None
1	None	ENSG00000235736	ENST00000457405	lincRNA	KNOWN	None	None	None	None	168732603	168743728	-1	None	None
1	None	ENSG00000225934	ENST00000414330	processed_pseudogene	KNOWN	None	None	None	None	227786125	227786795	-1	None	None
15	None	ENSG00000259385	ENST00000559875	antisense	KNOWN	None	None	None	None	48484388	48493881	-1	None	None
12	None	ENSG00000257877	ENST00000551450	3prime_overlapping_ncrna	KNOWN	None	None	None	None	112250597	112251224	1	None	None
3	MIR4787	ENSG00000272543	ENST00000607364	miRNA	KNOWN	None	41653	None	None	50712511	50712594	1	None	hsa-mir-4787
8	RNU6-842P	ENSG00000206996	ENST00000384269	snRNA	KNOWN	None	47805	None	None	12901859	12901965	1	None	None
X	None	ENSG00000221505	ENST00000408578	miRNA	NOVEL	None	None	None	None	142533993	142534122	-1	None	None
X	None	ENSG00000265686	ENST00000408077	miRNA	NOVEL	None	None	None	None	131130873	131130961	1	None	None
1	LINC00626	ENSG00000225826	ENST00000420691	lincRNA	KNOWN	None	44257	None	None	168756177	168762124	1	None	MGC4473
1	CNOT7P2	ENSG00000232185	ENST00000441051	processed_pseudogene	KNOWN	None	44249	None	None	116107222	116108053	1	None	None
8	None	ENSG00000253632	ENST00000521101	lincRNA	KNOWN	None	None	None	None	29384829	29387840	1	None	None
14	None	ENSG00000259137	ENST00000555080	processed_pseudogene	KNOWN	None	None	None	None	44589413	44589964	-1	None	None
12	None	ENSG00000247157	ENST00000499291	lincRNA	KNOWN	None	None	None	None	11700964	11717337	1	None	None
12	None	ENSG00000247157	ENST00000545239	lincRNA	KNOWN	None	None	None	None	11708634	11709986	1	None	None
12	None	ENSG00000247157	ENST00000541162	lincRNA	KNOWN	None	None	None	None	11709900	11743303	1	None	None
12	RNA5SP377	ENSG00000212154	ENST00000390852	rRNA	KNOWN	None	43277	None	None	132145608	132145719	1	RN5S377	None
2	CNN2P8	ENSG00000213355	ENST00000421872	processed_pseudogene	KNOWN	None	39533	None	None	95403082	95403994	1	None	None
1	None	ENSG00000265216	ENST00000580546	miRNA	NOVEL	None	None	None	None	227832981	227833067	1	None	None
1	IFFO2	ENSG00000169991	ENST00000455833	protein_coding	KNOWN	CCDS44076	27006	1554	517	19230775	19283180	-1	None	None
1	IFFO2	ENSG00000169991	ENST00000355609	protein_coding	NOVEL	None	27006	267	88	19234785	19238486	-1	None	None
1	IFFO2	ENSG00000169991	ENST00000416166	protein_coding	NOVEL	None	27006	779	258	19234834	19282192	-1	None	None
9	None	ENSG00000232827	ENST00000428440	lincRNA	KNOWN	None	None	None	None	46826492	46833319	1	None	None
4	SULT1E1	ENSG00000109193	ENST00000506796	nonsense_mediated_decay	KNOWN	None	11377	383	126	70676498	70713504	-1	STE	EST
4	SULT1E1	ENSG00000109193	ENST00000226444	protein_coding	KNOWN	CCDS3531	11377	885	294	70706930	70725870	-1	STE	EST
4	SULT1E1	ENSG00000109193	ENST00000504002	retained_intron	KNOWN	None	11377	None	None	70714844	70725863	-1	STE	EST
8	RFPL4AP7	ENSG00000254268	ENST00000520120	processed_pseudogene	KNOWN	None	45143	None	None	50265189	50265403	-1	None	None
X	None	ENSG00000227675	ENST00000453484	processed_pseudogene	KNOWN	None	None	None	None	142627592	142631882	1	None	None
8	None	ENSG00000200630	ENST00000363760	misc_RNA	NOVEL	None	None	None	None	13017687	13017788	1	None	None
1	ZNF847P	ENSG00000215812	ENST00000412638	unprocessed_pseudogene	KNOWN	None	34384	None	None	227884593	227894400	-1	None	gm127
1	ZNF847P	ENSG00000215812	ENST00000540735	unprocessed_pseudogene	KNOWN	None	34384	None	None	227885250	227885408	-1	None	gm127
1	ZNF847P	ENSG00000215812	ENST00000400949	unprocessed_pseudogene	KNOWN	None	34384	None	None	227893751	227894412	-1	None	gm127
10	LRRC18	ENSG00000165383	ENST00000374160	protein_coding	KNOWN	CCDS31197	23199	786	261	50117528	50122277	-1	None	UNQ933, MGC34773, UNQ9338, VKGE9338
10	LRRC18	ENSG00000165383	ENST00000298124	protein_coding	KNOWN	None	23199	768	255	50121294	50143242	-1	None	UNQ933, MGC34773, UNQ9338, VKGE9338
X	None	ENSG00000251646	ENST00000513703	processed_transcript	PUTATIVE	None	None	None	None	131234662	131261900	-1	None	None
2	None	ENSG00000234837	ENST00000422564	processed_pseudogene	KNOWN	None	None	None	None	95416327	95417038	1	None	None
21	CLDN14	ENSG00000159261	ENST00000399139	protein_coding	KNOWN	CCDS13645	2035	720	239	37832919	37838739	-1	DFNB29	None
21	CLDN14	ENSG00000159261	ENST00000399137	protein_coding	KNOWN	CCDS13645	2035	720	239	37832919	37852388	-1	DFNB29	None
21	CLDN14	ENSG00000159261	ENST00000399135	protein_coding	KNOWN	CCDS13645	2035	720	239	37832919	37852388	-1	DFNB29	None
21	CLDN14	ENSG00000159261	ENST00000399136	protein_coding	KNOWN	CCDS13645	2035	720	239	37832919	37914898	-1	DFNB29	None
21	CLDN14	ENSG00000159261	ENST00000342108	protein_coding	KNOWN	CCDS13645	2035	720	239	37832919	37948867	-1	DFNB29	None
21	CLDN14	ENSG00000159261	ENST00000478313	processed_transcript	KNOWN	None	2035	None	None	37898578	37915153	-1	DFNB29	None
14	None	ENSG00000259077	ENST00000555913	lincRNA	KNOWN	None	None	None	None	88277326	88304683	1	None	None
11	None	ENSG00000236082	ENST00000421650	antisense	KNOWN	None	None	None	None	131416556	131443494	-1	None	None
HG388_HG400_PATCH	PPIHP1	ENSG00000262501	ENST00000574994	processed_pseudogene	KNOWN	None	31355	None	None	111900558	111901090	-1	None	None
8	None	ENSG00000253932	ENST00000523495	antisense	KNOWN	None	None	None	None	13196083	13200263	1	None	None
9	FOXE1	ENSG00000178919	ENST00000375123	protein_coding	KNOWN	CCDS35078	3806	1122	373	100615536	100618986	1	FKHL15, TITF2, FOXE2	TTF-2, HFKH4
9	None	ENSG00000226007	ENST00000450704	lincRNA	KNOWN	None	None	None	None	46843638	46846025	1	None	None
9	None	ENSG00000226007	ENST00000446626	lincRNA	KNOWN	None	None	None	None	46843665	46846023	1	None	None
9	None	ENSG00000226007	ENST00000420615	lincRNA	KNOWN	None	None	None	None	46844359	46845159	1	None	None
7	None	ENSG00000231484	ENST00000430646	unprocessed_pseudogene	KNOWN	None	None	None	None	57888037	57896752	1	None	None
1	SUMO1P2	ENSG00000229612	ENST00000452524	processed_pseudogene	KNOWN	None	33149	None	None	168867374	168867677	1	None	None
12	None	ENSG00000249926	ENST00000508145	lincRNA	KNOWN	None	None	None	None	132147141	132149249	1	None	None
1	None	ENSG00000270631	ENST00000605135	processed_pseudogene	KNOWN	None	None	None	None	116119850	116120407	-1	None	None
14	None	ENSG00000259148	ENST00000556286	processed_pseudogene	KNOWN	None	None	None	None	44760200	44760921	-1	None	None
HSCHR17_1	None	ENSG00000257889	ENST00000548072	pseudogene	NOVEL	None	None	None	None	44499892	44500132	-1	None	None
7	None	ENSG00000239044	ENST00000459205	snoRNA	NOVEL	None	None	None	None	129984255	129984358	1	None	None
2	CYP4F32P	ENSG00000223564	ENST00000426492	unprocessed_pseudogene	KNOWN	None	39951	None	None	95425004	95426024	-1	None	CYP4F-se5[6:8]
8	None	ENSG00000253380	ENST00000518854	lincRNA	KNOWN	None	None	None	None	50409322	50424739	-1	None	None
14	XRCC3	ENSG00000126215	ENST00000554913	protein_coding	KNOWN	CCDS9984	12830	1041	346	104163946	104181780	-1	None	None
14	XRCC3	ENSG00000126215	ENST00000352127	protein_coding	KNOWN	CCDS9984	12830	1041	346	104163954	104181841	-1	None	None
14	XRCC3	ENSG00000126215	ENST00000554811	retained_intron	KNOWN	None	12830	None	None	104163955	104175192	-1	None	None
14	XRCC3	ENSG00000126215	ENST00000553264	protein_coding	KNOWN	CCDS9984	12830	1041	346	104163955	104178441	-1	None	None
14	XRCC3	ENSG00000126215	ENST00000555055	protein_coding	KNOWN	CCDS9984	12830	1041	346	104163955	104181806	-1	None	None
14	XRCC3	ENSG00000126215	ENST00000554974	protein_coding	PUTATIVE	None	12830	426	141	104165076	104181796	-1	None	None
14	XRCC3	ENSG00000126215	ENST00000554774	retained_intron	KNOWN	None	12830	None	None	104165280	104169684	-1	None	None
14	XRCC3	ENSG00000126215	ENST00000555451	processed_transcript	PUTATIVE	None	12830	None	None	104166790	104169664	-1	None	None
14	XRCC3	ENSG00000126215	ENST00000555832	processed_transcript	PUTATIVE	None	12830	None	None	104168353	104169574	-1	None	None
14	XRCC3	ENSG00000126215	ENST00000553807	retained_intron	KNOWN	None	12830	None	None	104169615	104175163	-1	None	None
14	XRCC3	ENSG00000126215	ENST00000557439	nonsense_mediated_decay	KNOWN	None	12830	453	150	104170733	104181820	-1	None	None
14	XRCC3	ENSG00000126215	ENST00000553361	protein_coding	NOVEL	None	12830	450	149	104172669	104181796	-1	None	None
14	XRCC3	ENSG00000126215	ENST00000556980	protein_coding	KNOWN	None	12830	338	111	104173408	104180587	-1	None	None
14	XRCC3	ENSG00000126215	ENST00000555964	protein_coding	KNOWN	None	12830	306	101	104173440	104181821	-1	None	None
14	XRCC3	ENSG00000126215	ENST00000555231	retained_intron	KNOWN	None	12830	None	None	104174766	104181796	-1	None	None
14	XRCC3	ENSG00000126215	ENST00000556682	protein_coding	KNOWN	None	12830	185	60	104174867	104181821	-1	None	None
14	XRCC3	ENSG00000126215	ENST00000553332	protein_coding	KNOWN	None	12830	143	46	104174909	104181823	-1	None	None
14	XRCC3	ENSG00000126215	ENST00000554170	protein_coding	KNOWN	None	12830	136	44	104174916	104180550	-1	None	None
14	XRCC3	ENSG00000126215	ENST00000445556	protein_coding	KNOWN	CCDS9984	12830	1041	346	104163955	104181823	-1	None	None
8	None	ENSG00000253182	ENST00000522028	lincRNA	KNOWN	None	None	None	None	29405688	29421858	1	None	None
7	None	ENSG00000259920	ENST00000562524	lincRNA	KNOWN	None	None	None	None	130121332	130124233	-1	None	None
16	MIR1972-2	ENSG00000239118	ENST00000458813	miRNA	KNOWN	None	38252	None	None	70064249	70064325	1	None	hsa-mir-1972-2
HG388_HG400_PATCH	None	ENSG00000262805	ENST00000571799	snRNA	NOVEL	None	None	None	None	111903222	111903321	-1	None	None
15	None	ENSG00000259488	ENST00000560323	antisense	KNOWN	None	None	None	None	48604550	48624053	-1	None	None
15	None	ENSG00000259488	ENST00000559134	antisense	KNOWN	None	None	None	None	48622543	48623989	-1	None	None
X	None	ENSG00000228819	ENST00000424708	processed_pseudogene	KNOWN	None	None	None	None	131264119	131265380	-1	None	None
1	LINC00970	ENSG00000203601	ENST00000366408	antisense	KNOWN	None	48730	None	None	168873143	169056243	-1	None	None
1	RN7SL420P	ENSG00000239984	ENST00000463843	misc_RNA	KNOWN	None	46436	None	None	116149092	116149390	1	None	None
5	CLINT1	ENSG00000113282	ENST00000523094	protein_coding	KNOWN	CCDS56388	23186	1878	625	157212751	157286153	-1	None	ENTH, KIAA0171, EPNR, CLINT
5	CLINT1	ENSG00000113282	ENST00000524306	retained_intron	KNOWN	None	23186	None	None	157213295	157217569	-1	None	ENTH, KIAA0171, EPNR, CLINT
5	CLINT1	ENSG00000113282	ENST00000530742	protein_coding	KNOWN	CCDS56388	23186	1878	625	157213295	157286141	-1	None	ENTH, KIAA0171, EPNR, CLINT
5	CLINT1	ENSG00000113282	ENST00000411809	protein_coding	KNOWN	CCDS47330	23186	1878	625	157213297	157286183	-1	None	ENTH, KIAA0171, EPNR, CLINT
5	CLINT1	ENSG00000113282	ENST00000518855	retained_intron	KNOWN	None	23186	None	None	157213299	157223153	-1	None	ENTH, KIAA0171, EPNR, CLINT
5	CLINT1	ENSG00000113282	ENST00000523908	protein_coding	NOVEL	CCDS56389	23186	1932	643	157214413	157286151	-1	None	ENTH, KIAA0171, EPNR, CLINT
5	CLINT1	ENSG00000113282	ENST00000522381	protein_coding	PUTATIVE	None	23186	199	65	157214479	157218732	-1	None	ENTH, KIAA0171, EPNR, CLINT
5	CLINT1	ENSG00000113282	ENST00000521047	nonsense_mediated_decay	KNOWN	None	23186	166	54	157214610	157218849	-1	None	ENTH, KIAA0171, EPNR, CLINT
5	CLINT1	ENSG00000113282	ENST00000530302	retained_intron	KNOWN	None	23186	None	None	157218628	157233020	-1	None	ENTH, KIAA0171, EPNR, CLINT
5	CLINT1	ENSG00000113282	ENST00000521615	protein_coding	NOVEL	None	23186	399	132	157218766	157232964	-1	None	ENTH, KIAA0171, EPNR, CLINT
5	CLINT1	ENSG00000113282	ENST00000296951	protein_coding	KNOWN	CCDS56388	23186	1878	625	157213297	157286168	-1	None	ENTH, KIAA0171, EPNR, CLINT
X	HNRNPH1P2	ENSG00000213924	ENST00000396845	processed_pseudogene	KNOWN	None	48810	None	None	142760232	142761441	-1	None	None
1	SNAP47-AS1	ENSG00000230005	ENST00000413347	antisense	KNOWN	None	41501	None	None	227931532	227934892	-1	SNAP47-IT1	None
Y	None	ENSG00000251966	ENST00000516157	miRNA	NOVEL	None	None	None	None	10033981	10034093	1	None	None
HG1032_PATCH	None	ENSG00000266404	ENST00000579567	miRNA	NOVEL	None	None	None	None	190981535	190981630	-1	None	None
11	None	ENSG00000224795	ENST00000416725	lincRNA	KNOWN	None	None	None	None	131532025	131533477	-1	None	None
1	PLEKHN1	ENSG00000187583	ENST00000379410	protein_coding	KNOWN	CCDS4	25284	1836	611	901877	910488	1	None	DKFZP434H2010
1	PLEKHN1	ENSG00000187583	ENST00000480267	retained_intron	KNOWN	None	25284	None	None	906255	906903	1	None	DKFZP434H2010
1	PLEKHN1	ENSG00000187583	ENST00000491024	protein_coding	PUTATIVE	None	25284	531	176	908892	911245	1	None	DKFZP434H2010
1	PLEKHN1	ENSG00000187583	ENST00000379407	protein_coding	KNOWN	CCDS53256	25284	1731	576	901877	910476	1	None	DKFZP434H2010
1	PLEKHN1	ENSG00000187583	ENST00000379409	protein_coding	KNOWN	None	25284	1992	663	901882	910388	1	None	DKFZP434H2010
1	None	ENSG00000207502	ENST00000384771	snoRNA	NOVEL	None	None	None	None	116164493	116164626	-1	None	None
17	COIL	ENSG00000121058	ENST00000240316	protein_coding	KNOWN	CCDS11592	2184	1731	576	55015548	55038415	-1	None	CLN80, p80-coilin
17	COIL	ENSG00000121058	ENST00000573008	protein_coding	PUTATIVE	None	2184	113	36	55028274	55038137	-1	None	CLN80, p80-coilin
8	MTND4P7	ENSG00000253257	ENST00000523876	processed_pseudogene	KNOWN	None	42234	None	None	13210910	13211039	-1	None	None
11	None	ENSG00000254951	ENST00000529488	sense_overlapping	KNOWN	None	None	None	None	7775940	7904529	-1	None	None
11	None	ENSG00000254951	ENST00000527847	sense_overlapping	KNOWN	None	None	None	None	7872298	7927502	-1	None	None
11	None	ENSG00000254951	ENST00000533634	sense_overlapping	KNOWN	None	None	None	None	7902528	7904529	-1	None	None
1	MIR5008	ENSG00000264483	ENST00000584300	miRNA	KNOWN	None	43546	None	None	228129291	228129384	-1	None	hsa-mir-5008
1	HNRNPA1P43	ENSG00000214204	ENST00000452680	processed_pseudogene	KNOWN	None	48772	None	None	116399531	116400440	-1	None	None
10	CYP2E1	ENSG00000130649	ENST00000463117	protein_coding	KNOWN	CCDS7686	2631	1482	493	135333910	135352626	1	CYP2E	None
10	CYP2E1	ENSG00000130649	ENST00000541261	protein_coding	KNOWN	None	2631	260	85	135339048	135342067	1	CYP2E	None
10	CYP2E1	ENSG00000130649	ENST00000477500	processed_transcript	KNOWN	None	2631	None	None	135340939	135346372	1	CYP2E	None
10	CYP2E1	ENSG00000130649	ENST00000541080	nonsense_mediated_decay	KNOWN	None	2631	130	42	135341001	135352315	1	CYP2E	None
10	CYP2E1	ENSG00000130649	ENST00000421586	protein_coding	NOVEL	None	2631	1068	355	135341001	135352315	1	CYP2E	None
10	CYP2E1	ENSG00000130649	ENST00000418356	protein_coding	NOVEL	None	2631	918	305	135341001	135352315	1	CYP2E	None
10	CYP2E1	ENSG00000130649	ENST00000480558	processed_transcript	KNOWN	None	2631	None	None	135341583	135345668	1	CYP2E	None
10	CYP2E1	ENSG00000130649	ENST00000368520	retained_intron	KNOWN	None	2631	None	None	135345080	135374724	1	CYP2E	None
10	CYP2E1	ENSG00000130649	ENST00000469258	processed_transcript	KNOWN	None	2631	None	None	135351004	135352622	1	CYP2E	None
10	CYP2E1	ENSG00000130649	ENST00000252945	protein_coding	KNOWN	CCDS7686	2631	1482	493	135340867	135352620	1	CYP2E	None
6	HINT3	ENSG00000111911	ENST00000229633	protein_coding	KNOWN	CCDS5133	18468	549	182	126277927	126301387	1	None	FLJ33126
11	CCDC84	ENSG00000186166	ENST00000334418	protein_coding	KNOWN	CCDS8405	30460	999	332	118868852	118886455	1	None	DLNB14
11	CCDC84	ENSG00000186166	ENST00000524670	retained_intron	KNOWN	None	30460	None	None	118868855	118882972	1	None	DLNB14
11	CCDC84	ENSG00000186166	ENST00000526463	nonsense_mediated_decay	KNOWN	None	30460	447	148	118868865	118886351	1	None	DLNB14
11	CCDC84	ENSG00000186166	ENST00000532132	nonsense_mediated_decay	KNOWN	None	30460	585	194	118868878	118886351	1	None	DLNB14
11	CCDC84	ENSG00000186166	ENST00000534656	retained_intron	KNOWN	None	30460	None	None	118868885	118870001	1	None	DLNB14
11	CCDC84	ENSG00000186166	ENST00000580556	processed_transcript	KNOWN	None	30460	None	None	118869751	118885056	1	None	DLNB14
11	CCDC84	ENSG00000186166	ENST00000528088	retained_intron	KNOWN	None	30460	None	None	118880244	118882887	1	None	DLNB14
11	CCDC84	ENSG00000186166	ENST00000583842	retained_intron	KNOWN	None	30460	None	None	118881917	118885802	1	None	DLNB14
11	CCDC84	ENSG00000186166	ENST00000527356	retained_intron	KNOWN	None	30460	None	None	118882669	118886501	1	None	DLNB14
11	CCDC84	ENSG00000186166	ENST00000533787	retained_intron	KNOWN	None	30460	None	None	118884776	118886138	1	None	DLNB14
HSCHR6_MHC_MCF	RXRB	ENSG00000235712	ENST00000431161	protein_coding	NOVEL	None	10478	1614	537	33331732	33338755	-1	None	NR2B2, H-2RIIBP, RCoR-1
HSCHR6_MHC_MCF	RXRB	ENSG00000235712	ENST00000415909	protein_coding	KNOWN	None	10478	1602	533	33331732	33338829	-1	None	NR2B2, H-2RIIBP, RCoR-1
HSCHR6_MHC_MCF	RXRB	ENSG00000235712	ENST00000465169	nonsense_mediated_decay	KNOWN	None	10478	240	79	33332364	33338778	-1	None	NR2B2, H-2RIIBP, RCoR-1
HSCHR6_MHC_MCF	RXRB	ENSG00000235712	ENST00000471999	retained_intron	KNOWN	None	10478	None	None	33332808	33333504	-1	None	NR2B2, H-2RIIBP, RCoR-1
HSCHR6_MHC_MCF	RXRB	ENSG00000235712	ENST00000415668	protein_coding	NOVEL	None	10478	287	94	33333193	33334580	-1	None	NR2B2, H-2RIIBP, RCoR-1
HSCHR6_MHC_MCF	RXRB	ENSG00000235712	ENST00000483648	retained_intron	KNOWN	None	10478	None	None	33333929	33336777	-1	None	NR2B2, H-2RIIBP, RCoR-1
HSCHR6_MHC_MCF	RXRB	ENSG00000235712	ENST00000549662	protein_coding	KNOWN	None	10478	1179	392	33331733	33338796	-1	None	NR2B2, H-2RIIBP, RCoR-1
HSCHR6_MHC_MCF	RXRB	ENSG00000235712	ENST00000548862	protein_coding	KNOWN	None	10478	1170	389	33331733	33338796	-1	None	NR2B2, H-2RIIBP, RCoR-1
14	FAM35CP	ENSG00000259096	ENST00000554755	processed_pseudogene	KNOWN	None	31427	None	None	88418871	88421547	1	FAM35AP, FAM35A2	None
1	RPL29P7	ENSG00000213063	ENST00000440227	processed_pseudogene	KNOWN	None	36859	None	None	168907705	168908161	1	None	None
1	CICP26	ENSG00000233003	ENST00000425003	unprocessed_pseudogene	KNOWN	None	48834	None	None	228163091	228165894	-1	None	None
1	CICP26	ENSG00000233003	ENST00000507432	pseudogene	KNOWN	None	48834	None	None	228162980	228163386	-1	None	None
14	None	ENSG00000259126	ENST00000557721	lincRNA	KNOWN	None	None	None	None	44861734	44862914	-1	None	None
14	None	ENSG00000259126	ENST00000557506	lincRNA	KNOWN	None	None	None	None	44861745	44862919	-1	None	None
2	None	ENSG00000232502	ENST00000412994	processed_pseudogene	KNOWN	None	None	None	None	95426519	95426861	-1	None	None
17	None	ENSG00000265666	ENST00000581080	antisense	KNOWN	None	None	None	None	38497119	38499388	-1	None	None
1	None	ENSG00000271143	ENST00000604645	processed_pseudogene	KNOWN	None	None	None	None	116459118	116459320	1	None	None
17	UTP6	ENSG00000108651	ENST00000261708	protein_coding	KNOWN	CCDS11269	18279	1794	597	30187923	30228784	-1	C17orf40	HCA66
17	UTP6	ENSG00000108651	ENST00000581012	protein_coding	PUTATIVE	None	18279	184	60	30190192	30200414	-1	C17orf40	HCA66
17	UTP6	ENSG00000108651	ENST00000579459	protein_coding	PUTATIVE	None	18279	88	28	30190193	30195131	-1	C17orf40	HCA66
17	UTP6	ENSG00000108651	ENST00000477128	retained_intron	KNOWN	None	18279	None	None	30190193	30215240	-1	C17orf40	HCA66
17	UTP6	ENSG00000108651	ENST00000484661	retained_intron	KNOWN	None	18279	None	None	30190368	30200967	-1	C17orf40	HCA66
17	UTP6	ENSG00000108651	ENST00000477860	retained_intron	KNOWN	None	18279	None	None	30200203	30200863	-1	C17orf40	HCA66
17	UTP6	ENSG00000108651	ENST00000583408	retained_intron	KNOWN	None	18279	None	None	30207200	30228727	-1	C17orf40	HCA66
17	UTP6	ENSG00000108651	ENST00000490218	processed_transcript	KNOWN	None	18279	None	None	30211912	30228359	-1	C17orf40	HCA66
17	UTP6	ENSG00000108651	ENST00000579878	retained_intron	KNOWN	None	18279	None	None	30219167	30228692	-1	C17orf40	HCA66
9	TRPM3	ENSG00000083067	ENST00000377111	protein_coding	NOVEL	None	17992	3978	1325	73149949	73736514	-1	None	KIAA1616, LTRPC3, GON-2
9	TRPM3	ENSG00000083067	ENST00000377110	protein_coding	KNOWN	CCDS43835	17992	5124	1707	73149968	73736514	-1	None	KIAA1616, LTRPC3, GON-2
9	TRPM3	ENSG00000083067	ENST00000357533	protein_coding	PUTATIVE	None	17992	5136	1711	73150860	74061751	-1	None	KIAA1616, LTRPC3, GON-2
9	TRPM3	ENSG00000083067	ENST00000396285	protein_coding	NOVEL	None	17992	4701	1566	73150869	73477826	-1	None	KIAA1616, LTRPC3, GON-2
9	TRPM3	ENSG00000083067	ENST00000396292	protein_coding	KNOWN	CCDS6635	17992	4740	1579	73150869	73477826	-1	None	KIAA1616, LTRPC3, GON-2
9	TRPM3	ENSG00000083067	ENST00000396280	protein_coding	NOVEL	None	17992	4671	1556	73150869	73477826	-1	None	KIAA1616, LTRPC3, GON-2
9	TRPM3	ENSG00000083067	ENST00000358082	protein_coding	KNOWN	CCDS6636	17992	4710	1569	73150869	73477826	-1	None	KIAA1616, LTRPC3, GON-2
9	TRPM3	ENSG00000083067	ENST00000408909	protein_coding	KNOWN	CCDS6634	17992	4701	1566	73150869	73477826	-1	None	KIAA1616, LTRPC3, GON-2
9	TRPM3	ENSG00000083067	ENST00000377101	protein_coding	PUTATIVE	None	17992	972	323	73375604	73483968	-1	None	KIAA1616, LTRPC3, GON-2
9	TRPM3	ENSG00000083067	ENST00000396283	protein_coding	PUTATIVE	None	17992	828	275	73389004	73483939	-1	None	KIAA1616, LTRPC3, GON-2
9	TRPM3	ENSG00000083067	ENST00000361823	protein_coding	KNOWN	CCDS6637	17992	693	230	73398776	73483945	-1	None	KIAA1616, LTRPC3, GON-2
9	TRPM3	ENSG00000083067	ENST00000354500	retained_intron	KNOWN	None	17992	None	None	73439352	74061820	-1	None	KIAA1616, LTRPC3, GON-2
9	TRPM3	ENSG00000083067	ENST00000377097	protein_coding	PUTATIVE	None	17992	372	123	73457835	73477954	-1	None	KIAA1616, LTRPC3, GON-2
9	TRPM3	ENSG00000083067	ENST00000437699	processed_transcript	KNOWN	None	17992	None	None	73477838	73480385	-1	None	KIAA1616, LTRPC3, GON-2
9	TRPM3	ENSG00000083067	ENST00000423814	protein_coding	KNOWN	None	17992	5205	1734	73150869	74061751	-1	None	KIAA1616, LTRPC3, GON-2
9	TRPM3	ENSG00000083067	ENST00000377106	protein_coding	KNOWN	CCDS6635	17992	4740	1579	73149968	73483974	-1	None	KIAA1616, LTRPC3, GON-2
9	TRPM3	ENSG00000083067	ENST00000360823	protein_coding	KNOWN	CCDS6636	17992	4710	1569	73149968	73483974	-1	None	KIAA1616, LTRPC3, GON-2
9	TRPM3	ENSG00000083067	ENST00000377105	protein_coding	KNOWN	CCDS6634	17992	4701	1566	73149968	73483974	-1	None	KIAA1616, LTRPC3, GON-2
8	RNA5SP255	ENSG00000252179	ENST00000516370	rRNA	KNOWN	None	43155	None	None	13393538	13393644	1	RN5S255	None
8	PSAT1P1	ENSG00000253810	ENST00000518968	processed_pseudogene	KNOWN	None	15785	None	None	50652776	50653881	-1	C8orf62	None
2	SNX18P14	ENSG00000235571	ENST00000429308	processed_pseudogene	KNOWN	None	39622	None	None	95452433	95453006	-1	None	None
Y	None	ENSG00000225840	ENST00000445125	processed_pseudogene	KNOWN	None	None	None	None	10036113	10036711	-1	None	None
19	CCNE1	ENSG00000105173	ENST00000262643	protein_coding	KNOWN	CCDS12419	1589	1233	410	30302805	30315215	1	CCNE	None
19	CCNE1	ENSG00000105173	ENST00000575243	protein_coding	NOVEL	None	1589	647	214	30302911	30312675	1	CCNE	None
19	CCNE1	ENSG00000105173	ENST00000444983	protein_coding	PUTATIVE	None	1589	1188	395	30303561	30315119	1	CCNE	None
19	CCNE1	ENSG00000105173	ENST00000586912	retained_intron	KNOWN	None	1589	None	None	30303632	30304238	1	CCNE	None
19	CCNE1	ENSG00000105173	ENST00000576532	protein_coding	NOVEL	None	1589	852	283	30308110	30314917	1	CCNE	None
19	CCNE1	ENSG00000105173	ENST00000574121	retained_intron	KNOWN	None	1589	None	None	30312639	30315187	1	CCNE	None
19	CCNE1	ENSG00000105173	ENST00000357943	protein_coding	KNOWN	None	1589	1104	367	30302911	30315214	1	CCNE	None
1	RNA5SP66	ENSG00000252987	ENST00000517178	rRNA	KNOWN	None	42843	None	None	169036502	169036602	1	RN5S66	None
14	RNU6-835P	ENSG00000252783	ENST00000516974	snRNA	KNOWN	None	47798	None	None	88462689	88462792	-1	None	None
9	FSD1L	ENSG00000106701	ENST00000495708	protein_coding	NOVEL	None	13753	1146	381	108210077	108293244	1	CSDUFD1, CCDC10, FSD1NL, FSD1CL	None
9	FSD1L	ENSG00000106701	ENST00000469022	retained_intron	KNOWN	None	13753	None	None	108210326	108235601	1	CSDUFD1, CCDC10, FSD1NL, FSD1CL	None
9	FSD1L	ENSG00000106701	ENST00000374710	protein_coding	NOVEL	CCDS6765	13753	1497	498	108210326	108314714	1	CSDUFD1, CCDC10, FSD1NL, FSD1CL	None
9	FSD1L	ENSG00000106701	ENST00000481272	protein_coding	NOVEL	CCDS47999	13753	1593	530	108210383	108308856	1	CSDUFD1, CCDC10, FSD1NL, FSD1CL	None
9	FSD1L	ENSG00000106701	ENST00000484973	protein_coding	NOVEL	None	13753	1494	497	108210404	108308883	1	CSDUFD1, CCDC10, FSD1NL, FSD1CL	None
9	FSD1L	ENSG00000106701	ENST00000394926	protein_coding	NOVEL	None	13753	1530	509	108210404	108309083	1	CSDUFD1, CCDC10, FSD1NL, FSD1CL	None
9	FSD1L	ENSG00000106701	ENST00000480279	processed_transcript	KNOWN	None	13753	None	None	108210417	108268756	1	CSDUFD1, CCDC10, FSD1NL, FSD1CL	None
9	FSD1L	ENSG00000106701	ENST00000374707	protein_coding	NOVEL	None	13753	936	311	108262940	108314714	1	CSDUFD1, CCDC10, FSD1NL, FSD1CL	None
9	FSD1L	ENSG00000106701	ENST00000374716	protein_coding	KNOWN	CCDS6764	13753	438	145	108210315	108234412	1	CSDUFD1, CCDC10, FSD1NL, FSD1CL	None
9	FSD1L	ENSG00000106701	ENST00000539376	protein_coding	KNOWN	None	13753	1152	383	108210404	108309083	1	CSDUFD1, CCDC10, FSD1NL, FSD1CL	None
12	RPS6P21	ENSG00000243499	ENST00000497352	processed_pseudogene	KNOWN	None	36478	None	None	132152037	132152791	1	None	None
2	None	ENSG00000204717	ENST00000429823	unprocessed_pseudogene	KNOWN	None	None	None	None	95461553	95472197	-1	None	None
1	None	ENSG00000228127	ENST00000438885	lincRNA	KNOWN	None	None	None	None	116461997	116468529	1	None	None
1	None	ENSG00000237707	ENST00000415637	antisense	KNOWN	None	None	None	None	169073362	169074145	1	None	None
17	None	ENSG00000264655	ENST00000583752	processed_pseudogene	KNOWN	None	None	None	None	38524204	38524690	1	None	None
2	SAG	ENSG00000130561	ENST00000447536	protein_coding	KNOWN	None	10521	507	168	234216462	234235838	1	None	ARRESTIN, RP47
2	SAG	ENSG00000130561	ENST00000476500	retained_intron	KNOWN	None	10521	None	None	234216462	234255700	1	None	ARRESTIN, RP47
2	SAG	ENSG00000130561	ENST00000409110	protein_coding	KNOWN	CCDS46545	10521	1218	405	234216467	234255701	1	None	ARRESTIN, RP47
2	SAG	ENSG00000130561	ENST00000462487	processed_transcript	KNOWN	None	10521	None	None	234216525	234231615	1	None	ARRESTIN, RP47
2	SAG	ENSG00000130561	ENST00000471884	retained_intron	KNOWN	None	10521	None	None	234216526	234255700	1	None	ARRESTIN, RP47
2	SAG	ENSG00000130561	ENST00000479450	processed_transcript	PUTATIVE	None	10521	None	None	234216530	234231650	1	None	ARRESTIN, RP47
2	SAG	ENSG00000130561	ENST00000415974	protein_coding	NOVEL	None	10521	390	129	234216531	234227650	1	None	ARRESTIN, RP47
2	SAG	ENSG00000130561	ENST00000412969	retained_intron	KNOWN	None	10521	None	None	234216578	234255701	1	None	ARRESTIN, RP47
2	SAG	ENSG00000130561	ENST00000453143	nonsense_mediated_decay	KNOWN	None	10521	108	35	234216620	234235822	1	None	ARRESTIN, RP47
2	SAG	ENSG00000130561	ENST00000474206	processed_transcript	KNOWN	None	10521	None	None	234224736	234237259	1	None	ARRESTIN, RP47
2	SAG	ENSG00000130561	ENST00000461532	processed_transcript	PUTATIVE	None	10521	None	None	234228194	234229370	1	None	ARRESTIN, RP47
2	SAG	ENSG00000130561	ENST00000469222	retained_intron	KNOWN	None	10521	None	None	234236595	234254837	1	None	ARRESTIN, RP47
2	SAG	ENSG00000130561	ENST00000483231	retained_intron	KNOWN	None	10521	None	None	234240169	234255058	1	None	ARRESTIN, RP47
2	SAG	ENSG00000130561	ENST00000473771	retained_intron	KNOWN	None	10521	None	None	234243362	234249120	1	None	ARRESTIN, RP47
2	SAG	ENSG00000130561	ENST00000474220	retained_intron	KNOWN	None	10521	None	None	234247172	234255701	1	None	ARRESTIN, RP47
2	SAG	ENSG00000130561	ENST00000492629	processed_transcript	PUTATIVE	None	10521	None	None	234252334	234255701	1	None	ARRESTIN, RP47
2	SAG	ENSG00000130561	ENST00000449594	protein_coding	KNOWN	None	10521	708	235	234228194	234252399	1	None	ARRESTIN, RP47
1	MIR3620	ENSG00000264944	ENST00000584469	miRNA	KNOWN	None	38917	None	None	228284964	228285042	1	None	hsa-mir-3620
1	None	ENSG00000235575	ENST00000432081	antisense	KNOWN	None	None	None	None	169279903	169291717	1	None	None
X	None	ENSG00000232160	ENST00000421483	antisense	KNOWN	None	None	None	None	131351175	131564190	1	None	None
X	None	ENSG00000232160	ENST00000441399	antisense	KNOWN	None	None	None	None	131352535	131566890	1	None	None
8	None	ENSG00000253484	ENST00000522408	lincRNA	KNOWN	None	None	None	None	50730146	50733504	-1	None	None
1	FAM96AP2	ENSG00000224566	ENST00000414727	processed_pseudogene	KNOWN	None	43862	None	None	228302698	228303174	-1	None	None
2	KRTCAP3	ENSG00000157992	ENST00000288873	protein_coding	KNOWN	CCDS1754	28943	723	240	27665248	27667164	1	None	KCP3
2	KRTCAP3	ENSG00000157992	ENST00000453171	nonsense_mediated_decay	KNOWN	None	28943	207	68	27665265	27667162	1	None	KCP3
2	KRTCAP3	ENSG00000157992	ENST00000407293	protein_coding	KNOWN	None	28943	669	222	27665313	27667164	1	None	KCP3
2	KRTCAP3	ENSG00000157992	ENST00000464699	retained_intron	KNOWN	None	28943	None	None	27665612	27667164	1	None	KCP3
2	KRTCAP3	ENSG00000157992	ENST00000494572	retained_intron	KNOWN	None	28943	None	None	27666121	27667158	1	None	KCP3
2	KRTCAP3	ENSG00000157992	ENST00000452499	protein_coding	KNOWN	None	28943	189	62	27666319	27669346	1	None	KCP3
2	KRTCAP3	ENSG00000157992	ENST00000543753	protein_coding	KNOWN	CCDS1754	28943	723	240	27665233	27669348	1	None	KCP3
1	None	ENSG00000237993	ENST00000453128	antisense	KNOWN	None	None	None	None	116556434	116560326	-1	None	None
1	None	ENSG00000234437	ENST00000445428	lincRNA	KNOWN	None	None	None	None	169411876	169429690	-1	None	None
1	None	ENSG00000234437	ENST00000437857	retained_intron	KNOWN	None	None	None	None	169423629	169429659	-1	None	None
3	C3orf52	ENSG00000114529	ENST00000480282	nonsense_mediated_decay	KNOWN	None	26255	444	147	111805182	111847596	1	None	FLJ23186, TTMP
3	C3orf52	ENSG00000114529	ENST00000264848	protein_coding	KNOWN	CCDS46887	26255	654	217	111805196	111837057	1	None	FLJ23186, TTMP
3	C3orf52	ENSG00000114529	ENST00000484828	protein_coding	PUTATIVE	None	26255	724	240	111805284	111836086	1	None	FLJ23186, TTMP
3	C3orf52	ENSG00000114529	ENST00000497610	retained_intron	KNOWN	None	26255	None	None	111805285	111828675	1	None	FLJ23186, TTMP
3	C3orf52	ENSG00000114529	ENST00000494096	processed_transcript	PUTATIVE	None	26255	None	None	111830299	111831865	1	None	FLJ23186, TTMP
3	C3orf52	ENSG00000114529	ENST00000467942	processed_transcript	KNOWN	None	26255	None	None	111830301	111849851	1	None	FLJ23186, TTMP
3	C3orf52	ENSG00000114529	ENST00000430855	protein_coding	KNOWN	None	26255	444	147	111805182	111838363	1	None	FLJ23186, TTMP
3	C3orf52	ENSG00000114529	ENST00000431717	protein_coding	KNOWN	CCDS54620	26255	753	250	111805182	111837073	1	None	FLJ23186, TTMP
14	None	ENSG00000258407	ENST00000554433	antisense	KNOWN	None	None	None	None	88477131	88481955	-1	None	None
17	RNA5SP441	ENSG00000252618	ENST00000516809	rRNA	KNOWN	None	43341	None	None	38530341	38530428	1	RN5S441	None
HSCHR6_MHC_COX	NEU1	ENSG00000227315	ENST00000465161	retained_intron	KNOWN	None	7758	None	None	31812978	31818116	-1	NEU	None
HSCHR6_MHC_COX	NEU1	ENSG00000227315	ENST00000492929	retained_intron	KNOWN	None	7758	None	None	31814372	31818125	-1	NEU	None
HSCHR6_MHC_COX	NEU1	ENSG00000227315	ENST00000473972	nonsense_mediated_decay	KNOWN	None	7758	804	267	31814372	31818142	-1	NEU	None
HSCHR6_MHC_COX	NEU1	ENSG00000227315	ENST00000439648	protein_coding	KNOWN	None	7758	1248	415	31814372	31818226	-1	NEU	None
HSCHR6_MHC_COX	NEU1	ENSG00000227315	ENST00000477637	nonsense_mediated_decay	KNOWN	None	7758	219	72	31814555	31818136	-1	NEU	None
2	ANKRD20A8P	ENSG00000229089	ENST00000590226	retained_intron	KNOWN	None	23666	None	None	95476791	95483546	-1	ANKRD20B	None
2	ANKRD20A8P	ENSG00000229089	ENST00000432432	processed_transcript	KNOWN	None	23666	None	None	95479849	95523027	-1	ANKRD20B	None
2	ANKRD20A8P	ENSG00000229089	ENST00000446135	transcribed_unprocessed_pseudogene	KNOWN	None	23666	None	None	95480775	95522914	-1	ANKRD20B	None
HSCHR6_MHC_QBL	MCCD1P2	ENSG00000234970	ENST00000456843	unprocessed_pseudogene	KNOWN	None	33462	None	None	29951635	29952512	-1	None	BPG309N1.16
17	None	ENSG00000222881	ENST00000410949	misc_RNA	NOVEL	None	None	None	None	38547484	38547590	-1	None	None
1	None	ENSG00000235933	ENST00000426515	lincRNA	KNOWN	None	None	None	None	116706905	116708862	1	None	None
15	None	ENSG00000202542	ENST00000365672	misc_RNA	NOVEL	None	None	None	None	48617755	48617868	-1	None	None
Y	RNA5-8SP6	ENSG00000251705	ENST00000515896	rRNA	KNOWN	None	41960	None	None	10037764	10037915	1	RN5-8S6	None
17	None	ENSG00000240125	ENST00000491601	processed_pseudogene	KNOWN	None	None	None	None	38595719	38596169	-1	None	None
12	None	ENSG00000258133	ENST00000552027	processed_pseudogene	KNOWN	None	None	None	None	58788379	58788921	1	None	None
1	None	ENSG00000227625	ENST00000413855	processed_pseudogene	KNOWN	None	None	None	None	228322486	228322693	-1	None	None
8	None	ENSG00000271148	ENST00000603280	lincRNA	KNOWN	None	None	None	None	50819423	50820006	-1	None	None
1	None	ENSG00000221040	ENST00000408113	snoRNA	NOVEL	None	None	None	None	116821228	116821442	1	None	None
20	RN7SL636P	ENSG00000244376	ENST00000497504	misc_RNA	KNOWN	None	46652	None	None	49045729	49046020	-1	None	None
19	None	ENSG00000267693	ENST00000586571	processed_pseudogene	KNOWN	None	None	None	None	19879540	19879798	1	None	None
6	None	ENSG00000217331	ENST00000407101	processed_pseudogene	KNOWN	None	None	None	None	97120005	97120845	-1	None	None
12	None	ENSG00000255933	ENST00000537032	lincRNA	KNOWN	None	None	None	None	132241511	132242592	-1	None	None
15	None	ENSG00000259705	ENST00000558061	lincRNA	KNOWN	None	None	None	None	48938148	48944213	1	None	None
9	C9orf156	ENSG00000136932	ENST00000375119	protein_coding	KNOWN	CCDS6730	30967	1326	441	100666771	100684852	-1	None	HSPC219, NAP1
9	C9orf156	ENSG00000136932	ENST00000375118	protein_coding	KNOWN	None	30967	888	295	100666816	100674753	-1	None	HSPC219, NAP1
9	C9orf156	ENSG00000136932	ENST00000478126	processed_transcript	KNOWN	None	30967	None	None	100672271	100684754	-1	None	HSPC219, NAP1
9	C9orf156	ENSG00000136932	ENST00000375117	protein_coding	KNOWN	None	30967	480	159	100672565	100684772	-1	None	HSPC219, NAP1
9	C9orf156	ENSG00000136932	ENST00000471580	processed_transcript	KNOWN	None	30967	None	None	100672785	100684750	-1	None	HSPC219, NAP1
9	C9orf156	ENSG00000136932	ENST00000455506	protein_coding	KNOWN	None	30967	519	172	100675534	100684769	-1	None	HSPC219, NAP1
1	None	ENSG00000234604	ENST00000452472	processed_pseudogene	KNOWN	None	None	None	None	169443298	169443397	-1	None	None
10	LINC00839	ENSG00000185904	ENST00000429940	lincRNA	KNOWN	None	28269	None	None	42970991	42990784	1	None	None
10	LINC00839	ENSG00000185904	ENST00000424751	lincRNA	KNOWN	None	28269	None	None	42971076	42990784	1	None	None
18	None	ENSG00000252921	ENST00000517112	snoRNA	NOVEL	None	None	None	None	23879079	23879219	-1	None	None
2	LIMS3	ENSG00000256977	ENST00000437679	protein_coding	KNOWN	CCDS2084	30047	354	117	110656005	110664033	1	None	None
2	LIMS3	ENSG00000256977	ENST00000482065	retained_intron	KNOWN	None	30047	None	None	110656150	110661181	1	None	None
2	LIMS3	ENSG00000256977	ENST00000479168	retained_intron	KNOWN	None	30047	None	None	110656247	110672212	1	None	None
2	LIMS3	ENSG00000256977	ENST00000487150	processed_transcript	KNOWN	None	30047	None	None	110659119	110664031	1	None	None
2	LIMS3	ENSG00000256977	ENST00000553749	protein_coding	KNOWN	None	30047	747	248	110656268	110677180	1	None	None
1	ATP1A1OS	ENSG00000203865	ENST00000493908	processed_transcript	KNOWN	None	28262	None	None	116941622	116961197	-1	C1orf203	MGC16179
1	ATP1A1OS	ENSG00000203865	ENST00000369491	antisense	KNOWN	None	28262	None	None	116948131	116961158	-1	C1orf203	MGC16179
1	ATP1A1OS	ENSG00000203865	ENST00000369492	antisense	KNOWN	None	28262	None	None	116948134	116961186	-1	C1orf203	MGC16179
HG348_PATCH	None	ENSG00000263346	ENST00000573344	unprocessed_pseudogene	KNOWN	None	None	None	None	94745023	94745697	1	None	None
5	DIAPH1	ENSG00000131504	ENST00000476339	retained_intron	KNOWN	None	2876	None	None	140894583	140904322	-1	DFNA1	hDIA1, LFHL1
5	DIAPH1	ENSG00000131504	ENST00000389054	protein_coding	KNOWN	None	2876	3810	1269	140894583	140998622	-1	DFNA1	hDIA1, LFHL1
5	DIAPH1	ENSG00000131504	ENST00000520569	protein_coding	NOVEL	None	2876	3648	1215	140894589	140966764	-1	DFNA1	hDIA1, LFHL1
5	DIAPH1	ENSG00000131504	ENST00000448451	protein_coding	PUTATIVE	None	2876	289	95	140894724	140905714	-1	DFNA1	hDIA1, LFHL1
5	DIAPH1	ENSG00000131504	ENST00000518047	protein_coding	NOVEL	None	2876	3783	1260	140895542	140998481	-1	DFNA1	hDIA1, LFHL1
5	DIAPH1	ENSG00000131504	ENST00000468119	processed_transcript	PUTATIVE	None	2876	None	None	140896139	140904337	-1	DFNA1	hDIA1, LFHL1
5	DIAPH1	ENSG00000131504	ENST00000521457	nonsense_mediated_decay	KNOWN	None	2876	2592	863	140896366	140998499	-1	DFNA1	hDIA1, LFHL1
5	DIAPH1	ENSG00000131504	ENST00000491754	processed_transcript	KNOWN	None	2876	None	None	140908111	140940268	-1	DFNA1	hDIA1, LFHL1
5	DIAPH1	ENSG00000131504	ENST00000494967	processed_transcript	PUTATIVE	None	2876	None	None	140908112	140914055	-1	DFNA1	hDIA1, LFHL1
5	DIAPH1	ENSG00000131504	ENST00000518484	processed_transcript	KNOWN	None	2876	None	None	140908367	140937421	-1	DFNA1	hDIA1, LFHL1
5	DIAPH1	ENSG00000131504	ENST00000523100	nonsense_mediated_decay	KNOWN	None	2876	606	201	140957060	140998566	-1	DFNA1	hDIA1, LFHL1
5	DIAPH1	ENSG00000131504	ENST00000472516	retained_intron	KNOWN	None	2876	None	None	140957556	140958696	-1	DFNA1	hDIA1, LFHL1
5	DIAPH1	ENSG00000131504	ENST00000524301	protein_coding	NOVEL	None	2876	337	111	140963086	140967052	-1	DFNA1	hDIA1, LFHL1
5	DIAPH1	ENSG00000131504	ENST00000398562	protein_coding	KNOWN	None	2876	3747	1248	140894589	140998622	-1	DFNA1	hDIA1, LFHL1
5	DIAPH1	ENSG00000131504	ENST00000389057	protein_coding	KNOWN	CCDS43373	2876	3792	1263	140894589	140998622	-1	DFNA1	hDIA1, LFHL1
5	DIAPH1	ENSG00000131504	ENST00000398566	protein_coding	KNOWN	None	2876	3795	1264	140894589	140998622	-1	DFNA1	hDIA1, LFHL1
5	DIAPH1	ENSG00000131504	ENST00000398557	protein_coding	KNOWN	CCDS43374	2876	3819	1272	140894589	140998622	-1	DFNA1	hDIA1, LFHL1
5	DIAPH1	ENSG00000131504	ENST00000253811	protein_coding	KNOWN	None	2876	3822	1273	140894589	140998622	-1	DFNA1	hDIA1, LFHL1
1	None	ENSG00000269890	ENST00000602517	antisense	KNOWN	None	None	None	None	228458144	228462098	-1	None	None
11	None	ENSG00000255184	ENST00000525033	unprocessed_pseudogene	KNOWN	None	None	None	None	89750779	89757679	-1	None	None
18	None	ENSG00000264911	ENST00000582910	processed_pseudogene	KNOWN	None	None	None	None	23928311	23928968	1	None	None
1	None	ENSG00000213062	ENST00000392097	pseudogene	KNOWN	None	None	None	None	169455380	169456846	1	None	None
HSCHR10_1_CTG5	None	ENSG00000261956	ENST00000571117	snRNA	NOVEL	None	None	None	None	45684238	45684344	-1	None	None
20	COX6CP2	ENSG00000231715	ENST00000444980	processed_pseudogene	KNOWN	None	16600	None	None	49096304	49096528	1	None	dJ894K16.1
19	GPI	ENSG00000105220	ENST00000587521	protein_coding	KNOWN	None	4458	330	109	34850385	34857340	1	None	AMF, NLK
19	GPI	ENSG00000105220	ENST00000587384	protein_coding	KNOWN	None	4458	400	132	34850492	34857757	1	None	AMF, NLK
19	GPI	ENSG00000105220	ENST00000592277	protein_coding	KNOWN	None	4458	438	145	34850639	34859526	1	None	AMF, NLK
19	GPI	ENSG00000105220	ENST00000415930	protein_coding	KNOWN	CCDS54246	4458	1710	569	34855645	34893061	1	None	AMF, NLK
19	GPI	ENSG00000105220	ENST00000588991	protein_coding	NOVEL	None	4458	1722	573	34855887	34891240	1	None	AMF, NLK
19	GPI	ENSG00000105220	ENST00000592144	nonsense_mediated_decay	KNOWN	None	4458	32	9	34855897	34868725	1	None	AMF, NLK
19	GPI	ENSG00000105220	ENST00000589504	retained_intron	KNOWN	None	4458	None	None	34855904	34859713	1	None	AMF, NLK
19	GPI	ENSG00000105220	ENST00000590375	protein_coding	KNOWN	None	4458	478	158	34855927	34868483	1	None	AMF, NLK
19	GPI	ENSG00000105220	ENST00000356487	protein_coding	KNOWN	CCDS12437	4458	1677	558	34855931	34891233	1	None	AMF, NLK
19	GPI	ENSG00000105220	ENST00000589399	protein_coding	NOVEL	None	4458	485	160	34856092	34868704	1	None	AMF, NLK
19	GPI	ENSG00000105220	ENST00000589640	protein_coding	NOVEL	None	4458	500	165	34856101	34868737	1	None	AMF, NLK
19	GPI	ENSG00000105220	ENST00000591204	protein_coding	NOVEL	None	4458	488	161	34856101	34868761	1	None	AMF, NLK
19	GPI	ENSG00000105220	ENST00000586425	protein_coding	NOVEL	None	4458	1425	474	34856147	34891181	1	None	AMF, NLK
19	GPI	ENSG00000105220	ENST00000590362	retained_intron	KNOWN	None	4458	None	None	34869883	34870772	1	None	AMF, NLK
19	GPI	ENSG00000105220	ENST00000589985	retained_intron	KNOWN	None	4458	None	None	34883101	34887561	1	None	AMF, NLK
19	GPI	ENSG00000105220	ENST00000586392	retained_intron	KNOWN	None	4458	None	None	34884172	34891232	1	None	AMF, NLK
19	GPI	ENSG00000105220	ENST00000586077	retained_intron	KNOWN	None	4458	None	None	34888188	34891240	1	None	AMF, NLK
1	None	ENSG00000269934	ENST00000602529	antisense	KNOWN	None	None	None	None	228462285	228463767	-1	None	None
1	None	ENSG00000269934	ENST00000602947	antisense	KNOWN	None	None	None	None	228462570	228463747	-1	None	None
4	None	ENSG00000241923	ENST00000476715	processed_pseudogene	KNOWN	None	None	None	None	141287394	141288015	-1	None	None
7	None	ENSG00000271696	ENST00000604991	processed_pseudogene	KNOWN	None	None	None	None	57895015	57895957	-1	None	None
HSCHR10_1_CTG5	CUBNP2	ENSG00000262027	ENST00000573797	unprocessed_pseudogene	KNOWN	None	44984	None	None	45727474	45742809	-1	None	None
12	MAPKAPK5-AS1	ENSG00000234608	ENST00000443596	lincRNA	KNOWN	None	24091	None	None	112277571	112279706	-1	C12orf47	FLJ39616
12	MAPKAPK5-AS1	ENSG00000234608	ENST00000456429	lincRNA	KNOWN	None	24091	None	None	112277572	112280706	-1	C12orf47	FLJ39616
12	MAPKAPK5-AS1	ENSG00000234608	ENST00000428207	lincRNA	KNOWN	None	24091	None	None	112277573	112280706	-1	C12orf47	FLJ39616
12	MAPKAPK5-AS1	ENSG00000234608	ENST00000442119	lincRNA	KNOWN	None	24091	None	None	112277574	112279710	-1	C12orf47	FLJ39616
12	MAPKAPK5-AS1	ENSG00000234608	ENST00000590479	lincRNA	KNOWN	None	24091	None	None	112277581	112279514	-1	C12orf47	FLJ39616
Y	None	ENSG00000271365	ENST00000605663	processed_pseudogene	KNOWN	None	None	None	None	13262741	13262939	-1	None	None
8	None	ENSG00000255069	ENST00000529018	antisense	KNOWN	None	None	None	None	13415166	13462119	-1	None	None
HSCHR6_MHC_QBL	None	ENSG00000235814	ENST00000435338	antisense	KNOWN	None	None	None	None	29958305	30018309	-1	None	None
HSCHR6_MHC_QBL	None	ENSG00000235814	ENST00000411477	antisense	KNOWN	None	None	None	None	29958305	30018524	-1	None	None
HSCHR6_MHC_QBL	None	ENSG00000235814	ENST00000427107	antisense	KNOWN	None	None	None	None	29958305	30018525	-1	None	None
HSCHR6_MHC_QBL	None	ENSG00000235814	ENST00000432187	antisense	KNOWN	None	None	None	None	29958305	30018565	-1	None	None
HSCHR6_MHC_QBL	None	ENSG00000235814	ENST00000454051	antisense	KNOWN	None	None	None	None	29969382	29992343	-1	None	None
HSCHR6_MHC_QBL	None	ENSG00000235814	ENST00000455027	antisense	KNOWN	None	None	None	None	29977074	30019022	-1	None	None
HSCHR6_MHC_QBL	None	ENSG00000235814	ENST00000444812	antisense	KNOWN	None	None	None	None	29992263	30016127	-1	None	None
HSCHR6_MHC_QBL	None	ENSG00000235814	ENST00000427310	antisense	KNOWN	None	None	None	None	29992758	30018570	-1	None	None
HSCHR6_MHC_QBL	None	ENSG00000235814	ENST00000413102	antisense	KNOWN	None	None	None	None	30011976	30018560	-1	None	None
HSCHR6_MHC_QBL	None	ENSG00000235814	ENST00000448262	antisense	KNOWN	None	None	None	None	30014128	30018360	-1	None	None
10	CDH23	ENSG00000107736	ENST00000461841	protein_coding	KNOWN	None	13733	1728	575	73156693	73406537	1	DFNB12, USH1D	CDHR23
10	CDH23	ENSG00000107736	ENST00000299366	protein_coding	PUTATIVE	None	13733	3321	1106	73156694	73467267	1	DFNB12, USH1D	CDHR23
10	CDH23	ENSG00000107736	ENST00000224721	protein_coding	PUTATIVE	None	13733	10080	3359	73199584	73575035	1	DFNB12, USH1D	CDHR23
10	CDH23	ENSG00000107736	ENST00000466757	protein_coding	PUTATIVE	None	13733	2863	953	73330552	73476629	1	DFNB12, USH1D	CDHR23
10	CDH23	ENSG00000107736	ENST00000470494	processed_transcript	KNOWN	None	13733	None	None	73377042	73407661	1	DFNB12, USH1D	CDHR23
10	CDH23	ENSG00000107736	ENST00000442677	protein_coding	PUTATIVE	None	13733	2411	802	73405673	73476635	1	DFNB12, USH1D	CDHR23
10	CDH23	ENSG00000107736	ENST00000398792	processed_transcript	KNOWN	None	13733	None	None	73472361	73501793	1	DFNB12, USH1D	CDHR23
10	CDH23	ENSG00000107736	ENST00000475158	processed_transcript	KNOWN	None	13733	None	None	73556613	73575653	1	DFNB12, USH1D	CDHR23
10	CDH23	ENSG00000107736	ENST00000398809	protein_coding	KNOWN	CCDS44429	13733	1593	530	73156691	73407219	1	DFNB12, USH1D	CDHR23
10	CDH23	ENSG00000107736	ENST00000398842	protein_coding	KNOWN	None	13733	1593	530	73156691	73406518	1	DFNB12, USH1D	CDHR23
10	CDH23	ENSG00000107736	ENST00000398788	protein_coding	KNOWN	CCDS53540	13733	3345	1114	73555528	73575702	1	DFNB12, USH1D	CDHR23
7	None	ENSG00000233918	ENST00000454392	processed_pseudogene	KNOWN	None	None	None	None	61821869	61822186	1	None	None
14	None	ENSG00000258826	ENST00000557631	lincRNA	KNOWN	None	None	None	None	88484949	88492656	-1	None	None
14	None	ENSG00000258826	ENST00000553921	lincRNA	KNOWN	None	None	None	None	88484949	88502663	-1	None	None
1	None	ENSG00000230704	ENST00000454271	lincRNA	KNOWN	None	None	None	None	169732070	169733789	-1	None	None
1	None	ENSG00000270110	ENST00000602778	antisense	KNOWN	None	None	None	None	228483612	228490699	-1	None	None
18	RNU6-1289P	ENSG00000207160	ENST00000384431	snRNA	KNOWN	None	48252	None	None	23946265	23946370	-1	None	None
7	RNU6-417P	ENSG00000207443	ENST00000384712	snRNA	KNOWN	None	47380	None	None	62471841	62471947	-1	None	None
4	RN7SL152P	ENSG00000242102	ENST00000484176	misc_RNA	KNOWN	None	46168	None	None	141499079	141499374	1	None	None
14	None	ENSG00000258487	ENST00000556472	lincRNA	KNOWN	None	None	None	None	44913950	44949820	-1	None	None
14	None	ENSG00000258487	ENST00000553386	lincRNA	KNOWN	None	None	None	None	44936161	44949821	-1	None	None
7	None	ENSG00000227148	ENST00000450891	lincRNA	KNOWN	None	None	None	None	62505205	62514809	-1	None	None
17	None	ENSG00000266088	ENST00000578280	lincRNA	KNOWN	None	None	None	None	38673278	38683254	1	None	None
17	None	ENSG00000266088	ENST00000577557	lincRNA	KNOWN	None	None	None	None	38681813	38683254	1	None	None
18	None	ENSG00000263862	ENST00000578367	lincRNA	KNOWN	None	None	None	None	24002959	24006065	1	None	None
4	None	ENSG00000248621	ENST00000512540	processed_pseudogene	KNOWN	None	None	None	None	141521555	141521729	-1	None	None
1	None	ENSG00000270104	ENST00000602345	lincRNA	KNOWN	None	None	None	None	228571815	228572717	-1	None	None
1	RN7SL333P	ENSG00000239494	ENST00000476398	misc_RNA	KNOWN	None	46349	None	None	169828897	169829193	1	None	None
20	RN7SL672P	ENSG00000239742	ENST00000474091	misc_RNA	KNOWN	None	46688	None	None	49174221	49174535	-1	None	None
8	None	ENSG00000253849	ENST00000523907	sense_intronic	KNOWN	None	None	None	None	51293575	51294835	1	None	None
HG348_PATCH	None	ENSG00000262799	ENST00000573701	processed_pseudogene	KNOWN	None	None	None	None	94770647	94771621	1	None	None
7	None	ENSG00000233454	ENST00000440210	unprocessed_pseudogene	KNOWN	None	None	None	None	62517831	62520462	1	None	None
1	RN7SL269P	ENSG00000243051	ENST00000467795	misc_RNA	KNOWN	None	46285	None	None	169927085	169927387	-1	None	None
1	None	ENSG00000270094	ENST00000602963	antisense	KNOWN	None	None	None	None	228581991	228584668	1	None	None
4	TNRC18P1	ENSG00000249661	ENST00000502875	processed_pseudogene	KNOWN	None	43881	None	None	141562994	141566643	-1	None	None
HG348_PATCH	None	ENSG00000263291	ENST00000572432	unprocessed_pseudogene	KNOWN	None	None	None	None	94773581	94774736	1	None	None
17	None	ENSG00000271876	ENST00000607244	miRNA	NOVEL	None	None	None	None	38821876	38821975	1	None	None
3	GPR160	ENSG00000173890	ENST00000355897	protein_coding	KNOWN	CCDS3211	23693	1017	338	169755717	169803191	1	None	GPCR150, GPCR1
3	GPR160	ENSG00000173890	ENST00000492492	protein_coding	KNOWN	None	23693	99	32	169755926	169801859	1	None	GPCR150, GPCR1
3	GPR160	ENSG00000173890	ENST00000482813	processed_transcript	PUTATIVE	None	23693	None	None	169755987	169780939	1	None	GPCR150, GPCR1
3	GPR160	ENSG00000173890	ENST00000491740	processed_transcript	PUTATIVE	None	23693	None	None	169755992	169795064	1	None	GPCR150, GPCR1
3	GPR160	ENSG00000173890	ENST00000478364	processed_transcript	PUTATIVE	None	23693	None	None	169756574	169795129	1	None	GPCR150, GPCR1
3	GPR160	ENSG00000173890	ENST00000485735	protein_coding	PUTATIVE	None	23693	489	162	169767643	169802249	1	None	GPCR150, GPCR1
3	GPR160	ENSG00000173890	ENST00000476668	processed_transcript	PUTATIVE	None	23693	None	None	169775629	169781056	1	None	GPCR150, GPCR1
3	GPR160	ENSG00000173890	ENST00000482710	protein_coding	KNOWN	None	23693	265	87	169794922	169802025	1	None	GPCR150, GPCR1
3	GPR160	ENSG00000173890	ENST00000492924	processed_transcript	PUTATIVE	None	23693	None	None	169795008	169795759	1	None	GPCR150, GPCR1
3	GPR160	ENSG00000173890	ENST00000473675	protein_coding	KNOWN	None	23693	431	142	169797560	169802191	1	None	GPCR150, GPCR1
8	None	ENSG00000254491	ENST00000530718	processed_pseudogene	KNOWN	None	None	None	None	13441398	13442042	-1	None	None
1	MRPS10P1	ENSG00000235378	ENST00000448483	processed_pseudogene	KNOWN	None	29728	None	None	169959208	169959337	1	None	None
15	None	ENSG00000259216	ENST00000559987	processed_pseudogene	KNOWN	None	None	None	None	49017535	49018024	1	None	None
1	RNU6-817P	ENSG00000212385	ENST00000391083	snRNA	KNOWN	None	47780	None	None	116956388	116956491	-1	None	None
12	None	ENSG00000257259	ENST00000550678	lincRNA	KNOWN	None	None	None	None	58959743	59175498	-1	None	None
12	None	ENSG00000257259	ENST00000552201	lincRNA	KNOWN	None	None	None	None	59105966	59175529	-1	None	None
HG185_PATCH	ACLY	ENSG00000260245	ENST00000564506	protein_coding	KNOWN	None	115	3306	1101	40023160	40075239	-1	None	ATPCL, CLATP, ACL
HG185_PATCH	ACLY	ENSG00000260245	ENST00000567793	protein_coding	KNOWN	None	115	3276	1091	40023826	40070148	-1	None	ATPCL, CLATP, ACL
20	None	ENSG00000201501	ENST00000364631	misc_RNA	NOVEL	None	None	None	None	49179546	49179647	1	None	None
17	None	ENSG00000224244	ENST00000428866	unprocessed_pseudogene	KNOWN	None	None	None	None	38843290	38845612	-1	None	None
9	RNU6-714P	ENSG00000252772	ENST00000516963	snRNA	KNOWN	None	47677	None	None	95583259	95583361	1	None	None
HG348_PATCH	None	ENSG00000261874	ENST00000576187	unprocessed_pseudogene	KNOWN	None	None	None	None	94782587	94784110	1	None	None
4	None	ENSG00000207155	ENST00000384426	misc_RNA	NOVEL	None	None	None	None	141621989	141622096	-1	None	None
18	None	ENSG00000252846	ENST00000517037	miRNA	NOVEL	None	None	None	None	24166678	24166762	-1	None	None
7	None	ENSG00000265865	ENST00000581408	miRNA	NOVEL	None	None	None	None	62528465	62528529	-1	None	None
1	None	ENSG00000231563	ENST00000436779	antisense	KNOWN	None	None	None	None	228595082	228597395	1	None	None
1	None	ENSG00000203260	ENST00000366091	pseudogene	KNOWN	None	None	None	None	169990599	169991390	-1	None	None
HSCHR10_1_CTG5	OR6D1P	ENSG00000262072	ENST00000573194	processed_pseudogene	KNOWN	None	14849	None	None	45753633	45754571	1	None	None
9	EEF1DP2	ENSG00000226721	ENST00000433698	processed_pseudogene	KNOWN	None	33523	None	None	95599108	95599950	-1	None	None
8	None	ENSG00000255457	ENST00000532664	processed_pseudogene	KNOWN	None	None	None	None	13553083	13563015	1	None	None
17	KRT223P	ENSG00000229028	ENST00000422957	processed_transcript	KNOWN	None	32968	None	None	38873487	38875392	-1	None	None
17	KRT223P	ENSG00000229028	ENST00000449164	transcribed_unprocessed_pseudogene	KNOWN	None	32968	None	None	38875286	38878184	-1	None	None
8	None	ENSG00000254392	ENST00000523425	processed_pseudogene	KNOWN	None	None	None	None	51403355	51404025	1	None	None
4	None	ENSG00000248335	ENST00000503844	antisense	KNOWN	None	None	None	None	141633322	141637235	1	None	None
18	CIAPIN1P	ENSG00000263846	ENST00000584883	processed_pseudogene	KNOWN	None	31087	None	None	24179372	24180302	1	None	HsT2384
7	ZNF90P3	ENSG00000233782	ENST00000450345	processed_pseudogene	KNOWN	None	39882	None	None	62547448	62548639	-1	None	None
4	FGA	ENSG00000171560	ENST00000302053	protein_coding	KNOWN	CCDS3787	3661	2601	866	155504278	155511918	-1	None	None
4	FGA	ENSG00000171560	ENST00000403106	protein_coding	KNOWN	CCDS47152	3661	1935	644	155506412	155511918	-1	None	None
1	None	ENSG00000232959	ENST00000440321	antisense	PUTATIVE	None	None	None	None	169993218	169993824	1	None	None
HG348_PATCH	None	ENSG00000263465	ENST00000577503	processed_transcript	KNOWN	None	None	None	None	94800157	94801323	1	None	None
HG348_PATCH	None	ENSG00000263465	ENST00000587424	transcribed_processed_pseudogene	KNOWN	None	None	None	None	94800392	94801240	1	None	None
1	None	ENSG00000233154	ENST00000423907	lincRNA	KNOWN	None	None	None	None	116966346	117021430	-1	None	None
1	None	ENSG00000233154	ENST00000443219	lincRNA	KNOWN	None	None	None	None	116995268	117021464	-1	None	None
1	None	ENSG00000233154	ENST00000437308	lincRNA	KNOWN	None	None	None	None	116995656	117009064	-1	None	None
1	None	ENSG00000233154	ENST00000430316	lincRNA	KNOWN	None	None	None	None	116995657	117020849	-1	None	None
1	None	ENSG00000233154	ENST00000434879	lincRNA	KNOWN	None	None	None	None	116995657	117021448	-1	None	None
1	None	ENSG00000233154	ENST00000430107	lincRNA	KNOWN	None	None	None	None	117006343	117009074	-1	None	None
Y	None	ENSG00000271309	ENST00000604370	processed_pseudogene	KNOWN	None	None	None	None	13263065	13263272	-1	None	None
1	None	ENSG00000230841	ENST00000450202	processed_pseudogene	KNOWN	None	None	None	None	228636864	228637322	-1	None	None
9	IFNWP15	ENSG00000232281	ENST00000442022	unprocessed_pseudogene	KNOWN	None	5449	None	None	21178588	21179187	-1	None	None
20	None	ENSG00000232043	ENST00000431019	antisense	KNOWN	None	None	None	None	49187512	49194578	-1	None	None
3	None	ENSG00000261167	ENST00000565095	sense_overlapping	KNOWN	None	None	None	None	131173970	131177442	-1	None	None
1	SIGLEC30P	ENSG00000224896	ENST00000455569	processed_pseudogene	KNOWN	None	15623	None	None	170084777	170085717	1	SIGLECP14	None
14	None	ENSG00000258747	ENST00000557465	antisense	KNOWN	None	None	None	None	44976610	44978686	1	None	None
14	None	ENSG00000258747	ENST00000555433	antisense	KNOWN	None	None	None	None	44976612	45007716	1	None	None
14	None	ENSG00000258747	ENST00000556228	antisense	KNOWN	None	None	None	None	44978206	45007714	1	None	None
14	None	ENSG00000258930	ENST00000555418	transcribed_processed_pseudogene	KNOWN	None	None	None	None	71498403	71498687	-1	None	None
HSCHR10_1_CTG5	None	ENSG00000262212	ENST00000575987	antisense	KNOWN	None	None	None	None	45956081	45964632	-1	None	None
4	None	ENSG00000249052	ENST00000505511	lincRNA	KNOWN	None	None	None	None	92809037	92825486	1	None	None
9	None	ENSG00000226668	ENST00000411450	processed_transcript	KNOWN	None	None	None	None	95644849	95647333	1	None	None
9	None	ENSG00000226668	ENST00000433000	processed_transcript	KNOWN	None	None	None	None	95644865	95660887	1	None	None
9	None	ENSG00000226668	ENST00000451452	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	95644883	95650700	1	None	None
9	None	ENSG00000226668	ENST00000425090	processed_transcript	KNOWN	None	None	None	None	95646193	95661890	1	None	None
9	None	ENSG00000226668	ENST00000446878	processed_transcript	PUTATIVE	None	None	None	None	95646467	95648440	1	None	None
14	None	ENSG00000258867	ENST00000556033	lincRNA	KNOWN	None	None	None	None	88490894	88553690	1	None	None
14	None	ENSG00000258867	ENST00000553929	lincRNA	KNOWN	None	None	None	None	88490894	88562927	1	None	None
14	None	ENSG00000258867	ENST00000555996	lincRNA	KNOWN	None	None	None	None	88490935	88545593	1	None	None
14	None	ENSG00000258867	ENST00000556673	lincRNA	KNOWN	None	None	None	None	88490953	88563276	1	None	None
14	None	ENSG00000258867	ENST00000557339	lincRNA	KNOWN	None	None	None	None	88490958	88545713	1	None	None
14	None	ENSG00000258867	ENST00000556684	lincRNA	KNOWN	None	None	None	None	88490962	88511192	1	None	None
14	None	ENSG00000258867	ENST00000557355	lincRNA	KNOWN	None	None	None	None	88503281	88514483	1	None	None
14	None	ENSG00000258867	ENST00000553496	lincRNA	KNOWN	None	None	None	None	88511072	88559509	1	None	None
5	None	ENSG00000270495	ENST00000603374	processed_pseudogene	KNOWN	None	None	None	None	28808645	28809362	1	None	None
X	None	ENSG00000260081	ENST00000562749	antisense	KNOWN	None	None	None	None	152864795	152865348	1	None	None
X	None	ENSG00000260081	ENST00000569906	antisense	KNOWN	None	None	None	None	152864827	152869808	1	None	None
9	IFNWP9	ENSG00000226597	ENST00000448683	unprocessed_pseudogene	KNOWN	None	5455	None	None	21190653	21191243	-1	None	None
1	MIR3119-1	ENSG00000263390	ENST00000577602	miRNA	KNOWN	None	38253	None	None	170120519	170120603	1	None	hsa-mir-3119-1
1	MIR3119-2	ENSG00000263390	ENST00000577602	miRNA	KNOWN	None	38315	None	None	170120519	170120603	1	None	hsa-mir-3119-2
20	MIR645	ENSG00000208018	ENST00000385283	miRNA	KNOWN	None	32901	None	None	49202323	49202416	1	MIRN645	hsa-mir-645
8	None	ENSG00000255413	ENST00000534017	processed_pseudogene	KNOWN	None	None	None	None	13599318	13600290	1	None	None
17	None	ENSG00000264488	ENST00000582101	lincRNA	KNOWN	None	None	None	None	38959996	38965548	1	None	None
6	None	ENSG00000230372	ENST00000424868	lincRNA	KNOWN	None	None	None	None	25061853	25063735	-1	None	None
6	None	ENSG00000272446	ENST00000585874	processed_transcript	KNOWN	None	None	None	None	139480294	139566661	-1	None	None
1	None	ENSG00000233985	ENST00000439184	lincRNA	KNOWN	None	None	None	None	170143544	170210428	1	None	None
4	None	ENSG00000256889	ENST00000544445	pseudogene	NOVEL	None	None	None	None	92949929	92950119	1	None	None
11	None	ENSG00000254803	ENST00000533949	processed_pseudogene	KNOWN	None	None	None	None	89783113	89783434	1	None	None
8	None	ENSG00000254753	ENST00000525673	lincRNA	KNOWN	None	None	None	None	13701610	13706618	-1	None	None
17	FAM106A	ENSG00000213077	ENST00000392176	protein_coding	KNOWN	None	25682	510	169	18427880	18430160	-1	None	FLJ11800
18	AQP4-AS1	ENSG00000260372	ENST00000582605	antisense	KNOWN	None	26399	None	None	24235706	24510721	1	C18orf16, CHST9-AS1	FLJ30507
18	AQP4-AS1	ENSG00000260372	ENST00000579964	antisense	KNOWN	None	26399	None	None	24235707	24513049	1	C18orf16, CHST9-AS1	FLJ30507
18	AQP4-AS1	ENSG00000260372	ENST00000578701	antisense	KNOWN	None	26399	None	None	24445271	24770662	1	C18orf16, CHST9-AS1	FLJ30507
18	AQP4-AS1	ENSG00000260372	ENST00000568797	antisense	KNOWN	None	26399	None	None	24445272	24515910	1	C18orf16, CHST9-AS1	FLJ30507
14	None	ENSG00000258966	ENST00000557014	transcribed_processed_pseudogene	KNOWN	None	None	None	None	71511092	71511357	-1	None	None
9	IFNWP18	ENSG00000223684	ENST00000437472	unprocessed_pseudogene	KNOWN	None	5450	None	None	21209188	21209778	-1	None	pseudo-IFN-alpha-m
2	IGKC	ENSG00000211592	ENST00000390237	IG_C_gene	KNOWN	None	5716	323	106	89156674	89157196	-1	None	HCAK1
4	None	ENSG00000248817	ENST00000508114	processed_pseudogene	KNOWN	None	None	None	None	93103628	93105203	-1	None	None
Y	None	ENSG00000270570	ENST00000603467	processed_pseudogene	KNOWN	None	None	None	None	13263395	13263563	-1	None	None
3	SNORA58	ENSG00000249020	ENST00000505219	sense_intronic	KNOWN	None	32652	None	None	131197941	131198077	-1	None	ACA58
1	MIR4666A	ENSG00000266174	ENST00000580160	miRNA	KNOWN	None	41750	None	None	228649775	228649853	1	MIR4666	hsa-mir-4666
5	ZNF131	ENSG00000172262	ENST00000503599	retained_intron	KNOWN	None	12915	None	None	43065278	43080445	1	None	ZBTB35, pHZ-10
5	ZNF131	ENSG00000172262	ENST00000499046	processed_transcript	KNOWN	None	12915	None	None	43067683	43093660	1	None	ZBTB35, pHZ-10
5	ZNF131	ENSG00000172262	ENST00000508795	processed_transcript	KNOWN	None	12915	None	None	43068153	43080605	1	None	ZBTB35, pHZ-10
5	ZNF131	ENSG00000172262	ENST00000507393	protein_coding	PUTATIVE	None	12915	238	78	43068159	43122249	1	None	ZBTB35, pHZ-10
5	ZNF131	ENSG00000172262	ENST00000514169	processed_transcript	KNOWN	None	12915	None	None	43068218	43099440	1	None	ZBTB35, pHZ-10
5	ZNF131	ENSG00000172262	ENST00000515326	protein_coding	KNOWN	None	12915	794	263	43120985	43161875	1	None	ZBTB35, pHZ-10
5	ZNF131	ENSG00000172262	ENST00000510026	nonsense_mediated_decay	KNOWN	None	12915	762	253	43121020	43175836	1	None	ZBTB35, pHZ-10
5	ZNF131	ENSG00000172262	ENST00000504359	processed_transcript	KNOWN	None	12915	None	None	43121022	43161470	1	None	ZBTB35, pHZ-10
5	ZNF131	ENSG00000172262	ENST00000509156	protein_coding	KNOWN	None	12915	1872	623	43121610	43175390	1	None	ZBTB35, pHZ-10
5	ZNF131	ENSG00000172262	ENST00000508259	protein_coding	KNOWN	None	12915	455	150	43121635	43161434	1	None	ZBTB35, pHZ-10
5	ZNF131	ENSG00000172262	ENST00000507218	nonsense_mediated_decay	KNOWN	None	12915	252	83	43121638	43174817	1	None	ZBTB35, pHZ-10
5	ZNF131	ENSG00000172262	ENST00000306938	protein_coding	KNOWN	CCDS43313	12915	1770	589	43121642	43175821	1	None	ZBTB35, pHZ-10
5	ZNF131	ENSG00000172262	ENST00000505606	protein_coding	KNOWN	CCDS43313	12915	1770	589	43121698	43176426	1	None	ZBTB35, pHZ-10
5	ZNF131	ENSG00000172262	ENST00000509634	protein_coding	KNOWN	CCDS43313	12915	1770	589	43121700	43176349	1	None	ZBTB35, pHZ-10
5	ZNF131	ENSG00000172262	ENST00000509341	protein_coding	KNOWN	None	12915	417	138	43121786	43161396	1	None	ZBTB35, pHZ-10
5	ZNF131	ENSG00000172262	ENST00000509931	protein_coding	PUTATIVE	None	12915	201	66	43122141	43176346	1	None	ZBTB35, pHZ-10
5	ZNF131	ENSG00000172262	ENST00000511736	nonsense_mediated_decay	KNOWN	None	12915	375	124	43122141	43192123	1	None	ZBTB35, pHZ-10
5	ZNF131	ENSG00000172262	ENST00000510037	retained_intron	KNOWN	None	12915	None	None	43122191	43125148	1	None	ZBTB35, pHZ-10
5	ZNF131	ENSG00000172262	ENST00000502623	nonsense_mediated_decay	KNOWN	None	12915	205	67	43161933	43175937	1	None	ZBTB35, pHZ-10
5	ZNF131	ENSG00000172262	ENST00000507231	retained_intron	KNOWN	None	12915	None	None	43173234	43174769	1	None	ZBTB35, pHZ-10
5	ZNF131	ENSG00000172262	ENST00000399534	protein_coding	KNOWN	None	12915	1872	623	43121642	43175821	1	None	ZBTB35, pHZ-10
9	IFNWP5	ENSG00000232138	ENST00000445100	unprocessed_pseudogene	KNOWN	None	5454	None	None	21231265	21231852	-1	None	None
14	PTTG4P	ENSG00000258571	ENST00000556391	processed_pseudogene	KNOWN	None	20055	None	None	71552199	71552550	-1	None	None
11	None	ENSG00000254916	ENST00000530158	unprocessed_pseudogene	KNOWN	None	None	None	None	89785005	89786904	-1	None	None
13	None	ENSG00000221519	ENST00000408592	miRNA	NOVEL	None	None	None	None	36068551	36068674	-1	None	None
20	MIR1302-5	ENSG00000221091	ENST00000408164	miRNA	KNOWN	None	35297	None	None	49231173	49231322	-1	MIRN1302-5	hsa-mir-1302-5
1	ISCUP1	ENSG00000238051	ENST00000454451	processed_pseudogene	KNOWN	None	38021	None	None	170180151	170180598	-1	None	None
X	RNU6-98P	ENSG00000206900	ENST00000384173	snRNA	KNOWN	None	47061	None	None	131714145	131714251	-1	None	None
17	None	ENSG00000265359	ENST00000579136	antisense	KNOWN	None	None	None	None	39007052	39019534	1	None	None
19	TEX101	ENSG00000131126	ENST00000602198	protein_coding	KNOWN	CCDS12619	30722	804	267	43905648	43922749	1	None	MGC4766, SGRG, CT131, SPATA44
19	TEX101	ENSG00000131126	ENST00000601707	processed_transcript	KNOWN	None	30722	None	None	43919040	43922749	1	None	MGC4766, SGRG, CT131, SPATA44
19	TEX101	ENSG00000131126	ENST00000598265	protein_coding	KNOWN	CCDS59393	30722	750	249	43919064	43922745	1	None	MGC4766, SGRG, CT131, SPATA44
19	TEX101	ENSG00000131126	ENST00000253435	protein_coding	KNOWN	CCDS12619	30722	804	267	43910657	43922763	1	None	MGC4766, SGRG, CT131, SPATA44
9	IFNA22P	ENSG00000224416	ENST00000458710	unprocessed_pseudogene	KNOWN	None	5431	None	None	21278049	21278618	-1	IFNAP22	None
17	MYH10	ENSG00000133026	ENST00000360416	protein_coding	PUTATIVE	CCDS58515	7568	6024	2007	8377523	8534079	-1	None	NMMHCB
17	MYH10	ENSG00000133026	ENST00000269243	protein_coding	KNOWN	CCDS11144	7568	5931	1976	8377530	8534079	-1	None	NMMHCB
17	MYH10	ENSG00000133026	ENST00000476737	retained_intron	KNOWN	None	7568	None	None	8381630	8384763	-1	None	NMMHCB
17	MYH10	ENSG00000133026	ENST00000488329	retained_intron	KNOWN	None	7568	None	None	8395971	8397216	-1	None	NMMHCB
17	MYH10	ENSG00000133026	ENST00000465458	retained_intron	KNOWN	None	7568	None	None	8409247	8413243	-1	None	NMMHCB
17	MYH10	ENSG00000133026	ENST00000469865	retained_intron	KNOWN	None	7568	None	None	8424242	8424837	-1	None	NMMHCB
17	MYH10	ENSG00000133026	ENST00000584124	retained_intron	KNOWN	None	7568	None	None	8445368	8448851	-1	None	NMMHCB
17	MYH10	ENSG00000133026	ENST00000459986	retained_intron	KNOWN	None	7568	None	None	8449944	8457607	-1	None	NMMHCB
17	MYH10	ENSG00000133026	ENST00000472728	retained_intron	KNOWN	None	7568	None	None	8457246	8508211	-1	None	NMMHCB
17	MYH10	ENSG00000133026	ENST00000411957	protein_coding	KNOWN	None	7568	563	186	8480624	8534035	-1	None	NMMHCB
17	MYH10	ENSG00000133026	ENST00000396239	protein_coding	KNOWN	None	7568	5994	1997	8377530	8534036	-1	None	NMMHCB
17	MYH10	ENSG00000133026	ENST00000379980	protein_coding	KNOWN	None	7568	5979	1992	8377530	8534036	-1	None	NMMHCB
5	None	ENSG00000251367	ENST00000509496	lincRNA	KNOWN	None	None	None	None	108803054	108803653	1	None	None
5	None	ENSG00000271035	ENST00000603743	processed_pseudogene	KNOWN	None	None	None	None	28897892	28898381	-1	None	None
14	None	ENSG00000238501	ENST00000459335	snoRNA	NOVEL	None	None	None	None	45036116	45036209	-1	None	None
13	LINC00445	ENSG00000236036	ENST00000422430	lincRNA	KNOWN	None	42782	None	None	36271661	36273138	1	None	None
13	LINC00445	ENSG00000236036	ENST00000456848	lincRNA	KNOWN	None	42782	None	None	36271864	36273393	1	None	None
1	HIST3H2BA	ENSG00000181201	ENST00000436555	unitary_pseudogene	KNOWN	None	20515	None	None	228651804	228652327	-1	None	None
1	HIST3H2BA	ENSG00000181201	ENST00000320387	pseudogene	KNOWN	None	20515	None	None	228651914	228652295	-1	None	None
6	None	ENSG00000226571	ENST00000441249	antisense	KNOWN	None	None	None	None	139592499	139608444	1	None	None
6	None	ENSG00000226571	ENST00000440518	antisense	KNOWN	None	None	None	None	139604244	139608444	1	None	None
X	HS6ST2-AS1	ENSG00000235849	ENST00000455269	antisense	KNOWN	None	40870	None	None	131801670	131803916	1	None	None
5	None	ENSG00000248876	ENST00000505002	lincRNA	KNOWN	None	None	None	None	108806544	108807287	1	None	None
12	GOLGA3	ENSG00000090615	ENST00000450791	protein_coding	KNOWN	CCDS9281	4426	4497	1498	133345501	133398898	-1	None	golgin-160, GCP170, MEA-2
12	GOLGA3	ENSG00000090615	ENST00000541013	retained_intron	KNOWN	None	4426	None	None	133349846	133353278	-1	None	golgin-160, GCP170, MEA-2
12	GOLGA3	ENSG00000090615	ENST00000456883	protein_coding	KNOWN	None	4426	4173	1390	133351084	133405439	-1	None	golgin-160, GCP170, MEA-2
12	GOLGA3	ENSG00000090615	ENST00000537452	protein_coding	PUTATIVE	CCDS53846	4426	3405	1134	133360454	133398898	-1	None	golgin-160, GCP170, MEA-2
12	GOLGA3	ENSG00000090615	ENST00000537317	processed_transcript	KNOWN	None	4426	None	None	133398858	133405444	-1	None	golgin-160, GCP170, MEA-2
12	GOLGA3	ENSG00000090615	ENST00000534967	processed_transcript	KNOWN	None	4426	None	None	133404410	133405317	-1	None	golgin-160, GCP170, MEA-2
12	GOLGA3	ENSG00000090615	ENST00000204726	protein_coding	KNOWN	CCDS9281	4426	4497	1498	133345495	133405288	-1	None	golgin-160, GCP170, MEA-2
12	GOLGA3	ENSG00000090615	ENST00000545875	protein_coding	KNOWN	CCDS53846	4426	3405	1134	133360454	133405426	-1	None	golgin-160, GCP170, MEA-2
2	IGKJ5	ENSG00000211593	ENST00000390238	IG_J_gene	KNOWN	None	5723	38	11	89160080	89160117	-1	None	None
11	TIRAP	ENSG00000150455	ENST00000462401	processed_transcript	KNOWN	None	17192	None	None	126152960	126161464	1	None	Mal, wyatt
11	TIRAP	ENSG00000150455	ENST00000488598	nonsense_mediated_decay	KNOWN	None	17192	150	49	126152968	126162582	1	None	Mal, wyatt
11	TIRAP	ENSG00000150455	ENST00000392679	protein_coding	KNOWN	CCDS8472	17192	666	221	126152982	126164828	1	None	Mal, wyatt
11	TIRAP	ENSG00000150455	ENST00000467006	processed_transcript	KNOWN	None	17192	None	None	126153001	126160792	1	None	Mal, wyatt
11	TIRAP	ENSG00000150455	ENST00000392678	protein_coding	KNOWN	CCDS41731	17192	708	235	126153005	126163139	1	None	Mal, wyatt
11	TIRAP	ENSG00000150455	ENST00000392680	protein_coding	PUTATIVE	CCDS8472	17192	666	221	126153013	126164579	1	None	Mal, wyatt
11	TIRAP	ENSG00000150455	ENST00000479770	nonsense_mediated_decay	KNOWN	CCDS8472	17192	666	221	126160751	126168740	1	None	Mal, wyatt
5	LSP1P3	ENSG00000162685	ENST00000449530	processed_pseudogene	KNOWN	None	39718	None	None	28926923	28927130	1	None	None
5	LSP1P3	ENSG00000162685	ENST00000601986	processed_pseudogene	KNOWN	None	39718	None	None	28925707	28927696	1	None	None
2	RNU6-1320P	ENSG00000212140	ENST00000390838	snRNA	KNOWN	None	48283	None	None	95512278	95512384	-1	None	None
7	SDK1	ENSG00000146555	ENST00000404826	protein_coding	KNOWN	CCDS34590	19307	6642	2213	3341080	4308632	1	None	FLJ31425
7	SDK1	ENSG00000146555	ENST00000389531	protein_coding	NOVEL	None	19307	6582	2193	3341219	4306040	1	None	FLJ31425
7	SDK1	ENSG00000146555	ENST00000426596	protein_coding	PUTATIVE	None	19307	323	106	3990552	3997919	1	None	FLJ31425
7	SDK1	ENSG00000146555	ENST00000478527	retained_intron	KNOWN	None	19307	None	None	3990553	3991741	1	None	FLJ31425
7	SDK1	ENSG00000146555	ENST00000484011	retained_intron	KNOWN	None	19307	None	None	4011098	4014390	1	None	FLJ31425
7	SDK1	ENSG00000146555	ENST00000476701	retained_intron	KNOWN	None	19307	None	None	4169317	4308632	1	None	FLJ31425
7	SDK1	ENSG00000146555	ENST00000481856	processed_transcript	KNOWN	None	19307	None	None	4213854	4218890	1	None	FLJ31425
7	SDK1	ENSG00000146555	ENST00000466611	processed_transcript	KNOWN	None	19307	None	None	4266787	4306040	1	None	FLJ31425
7	SDK1	ENSG00000146555	ENST00000467827	retained_intron	KNOWN	None	19307	None	None	4272519	4277303	1	None	FLJ31425
14	None	ENSG00000258998	ENST00000556405	lincRNA	KNOWN	None	None	None	None	45232360	45252032	-1	None	None
12	None	ENSG00000257443	ENST00000547590	antisense	KNOWN	None	None	None	None	59314420	59458019	1	None	None
1	None	ENSG00000224286	ENST00000440404	lincRNA	KNOWN	None	None	None	None	170240744	170248073	-1	None	None
1	None	ENSG00000224286	ENST00000451439	lincRNA	KNOWN	None	None	None	None	170240908	170253349	-1	None	None
14	None	ENSG00000257635	ENST00000547616	transcribed_processed_pseudogene	KNOWN	None	None	None	None	19475116	19476455	-1	None	None
Y	None	ENSG00000263502	ENST00000584011	miRNA	NOVEL	None	None	None	None	13340359	13340440	-1	None	None
1	None	ENSG00000230381	ENST00000449303	lincRNA	KNOWN	None	None	None	None	116971671	116975990	-1	None	None
14	None	ENSG00000269927	ENST00000602957	lincRNA	KNOWN	None	None	None	None	71607842	71609970	-1	None	None
16	AHSP	ENSG00000169877	ENST00000302312	protein_coding	KNOWN	CCDS10716	18075	309	102	31539185	31540124	1	ERAF	EDRF
16	AHSP	ENSG00000169877	ENST00000569954	processed_transcript	KNOWN	None	18075	None	None	31539235	31540124	1	ERAF	EDRF
16	AHSP	ENSG00000169877	ENST00000564707	protein_coding	KNOWN	None	18075	171	56	31539298	31539874	1	ERAF	EDRF
17	None	ENSG00000234477	ENST00000418393	antisense	KNOWN	None	None	None	None	39077682	39132178	1	None	None
2	None	ENSG00000259848	ENST00000568768	processed_transcript	KNOWN	None	None	None	None	95533231	95613086	-1	None	None
2	None	ENSG00000259848	ENST00000582835	processed_transcript	KNOWN	None	None	None	None	95534430	95613086	-1	None	None
2	None	ENSG00000259848	ENST00000400783	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	95552606	95558501	-1	None	None
2	None	ENSG00000259848	ENST00000597308	unprocessed_pseudogene	KNOWN	None	None	None	None	95534432	95601129	-1	None	None
20	RPL36P2	ENSG00000231302	ENST00000426026	processed_pseudogene	KNOWN	None	16570	None	None	49237300	49237614	1	None	dJ530I15.5
1	BTNL10	ENSG00000215811	ENST00000595971	unitary_pseudogene	KNOWN	None	42540	None	None	228696356	228700006	-1	None	None
1	BTNL10	ENSG00000215811	ENST00000400948	processed_transcript	KNOWN	None	42540	None	None	228698126	228700004	-1	None	None
1	BTNL10	ENSG00000215811	ENST00000413130	processed_transcript	KNOWN	None	42540	None	None	228698237	228699989	-1	None	None
8	None	ENSG00000254425	ENST00000526681	processed_pseudogene	KNOWN	None	None	None	None	13766740	13767289	-1	None	None
3	None	ENSG00000248468	ENST00000503006	antisense	KNOWN	None	None	None	None	131236675	131239724	1	None	None
1	None	ENSG00000200547	ENST00000363677	misc_RNA	NOVEL	None	None	None	None	116995158	116995249	1	None	None
14	None	ENSG00000259907	ENST00000561794	lincRNA	KNOWN	None	None	None	None	71648173	71648823	1	None	None
17	KRTAP3-4P	ENSG00000226776	ENST00000430780	unprocessed_pseudogene	KNOWN	None	18919	None	None	39160733	39161012	-1	KRTAP3P1	KAP3A
X	RPSAP8	ENSG00000230592	ENST00000429844	processed_pseudogene	KNOWN	None	31462	None	None	99410883	99411771	-1	LAMR1P8	None
6	None	ENSG00000218565	ENST00000403909	processed_pseudogene	KNOWN	None	None	None	None	139659155	139660717	1	None	None
1	None	ENSG00000224950	ENST00000456414	lincRNA	KNOWN	None	None	None	None	117035645	117041834	-1	None	None
2	MALL	ENSG00000144063	ENST00000272462	protein_coding	KNOWN	CCDS2085	6818	462	153	110841447	110874143	-1	None	BENE
2	MALL	ENSG00000144063	ENST00000427178	protein_coding	NOVEL	None	6818	168	55	110842600	110873599	-1	None	BENE
2	MALL	ENSG00000144063	ENST00000424988	nonsense_mediated_decay	KNOWN	None	6818	363	120	110843289	110873398	-1	None	BENE
12	RPS6P22	ENSG00000244390	ENST00000497406	processed_pseudogene	KNOWN	None	35655	None	None	59413950	59414675	1	None	None
X	None	ENSG00000227064	ENST00000428456	processed_pseudogene	KNOWN	None	None	None	None	132041307	132041603	-1	None	None
5	SLC25A46	ENSG00000164209	ENST00000508781	processed_transcript	KNOWN	None	25198	None	None	110073837	110092731	1	None	None
5	SLC25A46	ENSG00000164209	ENST00000513807	protein_coding	NOVEL	None	25198	771	256	110073862	110097967	1	None	None
5	SLC25A46	ENSG00000164209	ENST00000355943	protein_coding	KNOWN	CCDS4100	25198	1257	418	110074695	110098484	1	None	None
5	SLC25A46	ENSG00000164209	ENST00000447245	protein_coding	NOVEL	None	25198	1014	337	110074742	110097964	1	None	None
5	SLC25A46	ENSG00000164209	ENST00000504098	protein_coding	NOVEL	None	25198	819	272	110077379	110098484	1	None	None
5	SLC25A46	ENSG00000164209	ENST00000502462	retained_intron	KNOWN	None	25198	None	None	110081270	110097355	1	None	None
5	SLC25A46	ENSG00000164209	ENST00000513706	processed_transcript	PUTATIVE	None	25198	None	None	110089002	110100857	1	None	None
5	SLC25A46	ENSG00000164209	ENST00000509432	protein_coding	NOVEL	None	25198	618	205	110090820	110097913	1	None	None
5	SLC25A46	ENSG00000164209	ENST00000509442	protein_coding	KNOWN	None	25198	984	327	110073862	110097955	1	None	None
14	GCH1	ENSG00000131979	ENST00000543643	protein_coding	NOVEL	CCDS41954	4193	702	233	55308734	55369525	-1	GCH, DYT5, DYT14	GTPCH1, DYT5a
14	GCH1	ENSG00000131979	ENST00000491895	protein_coding	NOVEL	CCDS9720	4193	753	250	55308734	55369570	-1	GCH, DYT5, DYT14	GTPCH1, DYT5a
14	GCH1	ENSG00000131979	ENST00000254299	processed_transcript	KNOWN	None	4193	None	None	55308735	55369529	-1	GCH, DYT5, DYT14	GTPCH1, DYT5a
14	GCH1	ENSG00000131979	ENST00000536224	protein_coding	NOVEL	CCDS45110	4193	642	213	55308747	55369534	-1	GCH, DYT5, DYT14	GTPCH1, DYT5a
14	GCH1	ENSG00000131979	ENST00000395521	processed_transcript	KNOWN	None	4193	None	None	55309714	55369164	-1	GCH, DYT5, DYT14	GTPCH1, DYT5a
14	GCH1	ENSG00000131979	ENST00000395514	protein_coding	KNOWN	CCDS9720	4193	753	250	55308726	55369542	-1	GCH, DYT5, DYT14	GTPCH1, DYT5a
1	HAUS4P1	ENSG00000226967	ENST00000406739	processed_pseudogene	KNOWN	None	43763	None	None	170338364	170339508	-1	None	None
2	IGKJ4	ENSG00000211594	ENST00000390239	IG_J_gene	KNOWN	None	5722	37	11	89160398	89160434	-1	None	None
21	None	ENSG00000267976	ENST00000595927	protein_coding	NOVEL	None	None	657	218	37858165	37860058	1	None	None
2	DDX11L2	ENSG00000236397	ENST00000437401	unprocessed_pseudogene	KNOWN	None	37103	None	None	114356613	114358838	-1	None	None
2	DDX11L2	ENSG00000236397	ENST00000457993	unprocessed_pseudogene	KNOWN	None	37103	None	None	114356613	114358838	-1	None	None
2	DDX11L2	ENSG00000236397	ENST00000535848	unprocessed_pseudogene	KNOWN	None	37103	None	None	114356606	114359144	-1	None	None
11	TRIM64EP	ENSG00000223709	ENST00000531233	unprocessed_pseudogene	KNOWN	None	43975	None	None	89790773	89796167	-1	None	None
11	TRIM64EP	ENSG00000223709	ENST00000436580	unprocessed_pseudogene	KNOWN	None	43975	None	None	89789145	89796165	-1	None	None
15	None	ENSG00000259469	ENST00000559165	lincRNA	KNOWN	None	None	None	None	49021277	49022041	-1	None	None
14	None	ENSG00000259000	ENST00000553480	processed_pseudogene	KNOWN	None	None	None	None	45329519	45335450	-1	None	None
Y	None	ENSG00000252855	ENST00000517046	miRNA	NOVEL	None	None	None	None	13340551	13340633	-1	None	None
1	NAP1L4P1	ENSG00000177173	ENST00000319092	processed_pseudogene	KNOWN	None	39740	None	None	117075558	117076714	-1	None	None
7	ARHGEF34P	ENSG00000204959	ENST00000483587	unprocessed_pseudogene	KNOWN	None	38086	None	None	143969538	143984059	-1	None	None
7	ARHGEF34P	ENSG00000204959	ENST00000378112	unprocessed_pseudogene	KNOWN	None	38086	None	None	143970526	143991256	-1	None	None
1	None	ENSG00000263384	ENST00000579029	miRNA	NOVEL	None	None	None	None	170339354	170339436	-1	None	None
14	None	ENSG00000258517	ENST00000553621	lincRNA	KNOWN	None	None	None	None	71679350	71684933	1	None	None
8	RPL17P33	ENSG00000243844	ENST00000498256	processed_pseudogene	KNOWN	None	36654	None	None	29489607	29490160	1	None	None
5	RIOK2	ENSG00000058729	ENST00000283109	protein_coding	KNOWN	CCDS4089	18999	1659	552	96496571	96518964	-1	None	FLJ11159
5	RIOK2	ENSG00000058729	ENST00000511293	protein_coding	NOVEL	None	18999	478	158	96498640	96503281	-1	None	FLJ11159
5	RIOK2	ENSG00000058729	ENST00000511012	protein_coding	PUTATIVE	None	18999	422	139	96500663	96503423	-1	None	FLJ11159
5	RIOK2	ENSG00000058729	ENST00000508447	protein_coding	PUTATIVE	CCDS54884	18999	1425	474	96502450	96518926	-1	None	FLJ11159
5	RIOK2	ENSG00000058729	ENST00000508991	retained_intron	KNOWN	None	18999	None	None	96512708	96518874	-1	None	FLJ11159
5	RIOK2	ENSG00000058729	ENST00000511920	retained_intron	KNOWN	None	18999	None	None	96514534	96518864	-1	None	FLJ11159
5	RIOK2	ENSG00000058729	ENST00000510384	nonsense_mediated_decay	KNOWN	None	18999	114	37	96514847	96518946	-1	None	FLJ11159
17	KRTAP2-5P	ENSG00000237230	ENST00000446109	unprocessed_pseudogene	KNOWN	None	18920	None	None	39228198	39228593	1	KRTAP2P1	KAP2A
7	GPER	ENSG00000164850	ENST00000401670	protein_coding	KNOWN	CCDS5322	4485	1128	375	1121844	1132517	1	CMKRL2, GPR30, GPER	FEG-1, GPCR-Br, LERGU, LERGU2, DRY12, LyGPR, CEPR
7	GPER	ENSG00000164850	ENST00000413368	protein_coding	KNOWN	None	4485	221	72	1126443	1131585	1	CMKRL2, GPR30, GPER	FEG-1, GPCR-Br, LERGU, LERGU2, DRY12, LyGPR, CEPR
7	GPER	ENSG00000164850	ENST00000297469	protein_coding	KNOWN	CCDS5322	4485	1128	375	1126512	1133451	1	CMKRL2, GPR30, GPER	FEG-1, GPCR-Br, LERGU, LERGU2, DRY12, LyGPR, CEPR
7	GPER	ENSG00000164850	ENST00000397088	protein_coding	KNOWN	CCDS5322	4485	1128	375	1127723	1133446	1	CMKRL2, GPR30, GPER	FEG-1, GPCR-Br, LERGU, LERGU2, DRY12, LyGPR, CEPR
7	GPER	ENSG00000164850	ENST00000397092	protein_coding	KNOWN	CCDS5322	4485	1128	375	1126443	1133451	1	CMKRL2, GPR30, GPER	FEG-1, GPCR-Br, LERGU, LERGU2, DRY12, LyGPR, CEPR
11	ATHL1	ENSG00000142102	ENST00000474221	retained_intron	KNOWN	None	26210	None	None	289135	295678	1	None	FLJ22635
11	ATHL1	ENSG00000142102	ENST00000409548	protein_coding	KNOWN	CCDS31322	26210	2214	737	289138	296107	1	None	FLJ22635
11	ATHL1	ENSG00000142102	ENST00000409655	protein_coding	PUTATIVE	None	26210	1470	489	289172	295676	1	None	FLJ22635
11	ATHL1	ENSG00000142102	ENST00000529087	retained_intron	KNOWN	None	26210	None	None	289178	290800	1	None	FLJ22635
11	ATHL1	ENSG00000142102	ENST00000409479	protein_coding	NOVEL	None	26210	2295	764	289559	295258	1	None	FLJ22635
11	ATHL1	ENSG00000142102	ENST00000482937	nonsense_mediated_decay	KNOWN	None	26210	611	202	289920	292576	1	None	FLJ22635
11	ATHL1	ENSG00000142102	ENST00000476372	retained_intron	KNOWN	None	26210	None	None	291560	295683	1	None	FLJ22635
11	ATHL1	ENSG00000142102	ENST00000397660	protein_coding	NOVEL	None	26210	578	191	293679	294732	1	None	FLJ22635
1	NHLH1	ENSG00000171786	ENST00000302101	protein_coding	KNOWN	CCDS1204	7817	402	133	160336857	160342638	1	HEN1	NSCL, NSCL1, bHLHa35
8	None	ENSG00000255437	ENST00000534576	processed_pseudogene	KNOWN	None	None	None	None	13880196	13880931	-1	None	None
1	None	ENSG00000231407	ENST00000416416	antisense	KNOWN	None	None	None	None	170429594	170486847	-1	None	None
1	None	ENSG00000231407	ENST00000446102	antisense	KNOWN	None	None	None	None	170430458	170463681	-1	None	None
1	None	ENSG00000231407	ENST00000456083	antisense	KNOWN	None	None	None	None	170431350	170501788	-1	None	None
1	None	ENSG00000231407	ENST00000421020	antisense	KNOWN	None	None	None	None	170479102	170501141	-1	None	None
14	None	ENSG00000257224	ENST00000551315	transcribed_processed_pseudogene	KNOWN	None	None	None	None	19478758	19478940	-1	None	None
8	LINC00589	ENSG00000251191	ENST00000518623	lincRNA	KNOWN	None	32299	None	None	29531438	29592739	-1	C8orf75	None
8	LINC00589	ENSG00000251191	ENST00000506121	lincRNA	KNOWN	None	32299	None	None	29578770	29605625	-1	C8orf75	None
8	None	ENSG00000254358	ENST00000517555	processed_pseudogene	KNOWN	None	None	None	None	51675020	51675358	-1	None	None
14	None	ENSG00000269945	ENST00000602396	lincRNA	KNOWN	None	None	None	None	71685817	71689441	1	None	None
2	IGKJ3	ENSG00000211595	ENST00000390240	IG_J_gene	KNOWN	None	5721	38	11	89160733	89160770	-1	None	None
4	ADAM20P3	ENSG00000249162	ENST00000508710	processed_pseudogene	KNOWN	None	43902	None	None	188667248	188669353	-1	None	None
17	TBC1D28	ENSG00000189375	ENST00000345096	protein_coding	KNOWN	CCDS42273	26858	633	210	18538319	18545737	-1	None	FLJ40244
17	TBC1D28	ENSG00000189375	ENST00000570881	retained_intron	KNOWN	None	26858	None	None	18542174	18565263	-1	None	FLJ40244
17	TBC1D28	ENSG00000189375	ENST00000575220	protein_coding	KNOWN	None	26858	197	64	18542489	18547731	-1	None	FLJ40244
17	TBC1D28	ENSG00000189375	ENST00000572213	protein_coding	KNOWN	None	26858	158	51	18544335	18547740	-1	None	FLJ40244
17	TBC1D28	ENSG00000189375	ENST00000573652	protein_coding	KNOWN	None	26858	47	14	18544619	18547740	-1	None	FLJ40244
17	TBC1D28	ENSG00000189375	ENST00000575211	protein_coding	KNOWN	None	26858	41	12	18544625	18546151	-1	None	FLJ40244
17	TBC1D28	ENSG00000189375	ENST00000575570	processed_transcript	KNOWN	None	26858	None	None	18544978	18546142	-1	None	FLJ40244
17	TBC1D28	ENSG00000189375	ENST00000575970	processed_transcript	KNOWN	None	26858	None	None	18544982	18547679	-1	None	FLJ40244
17	TBC1D28	ENSG00000189375	ENST00000579178	processed_transcript	KNOWN	None	26858	None	None	18545152	18547730	-1	None	FLJ40244
17	TBC1D28	ENSG00000189375	ENST00000405044	protein_coding	KNOWN	CCDS42273	26858	633	210	18538842	18547740	-1	None	FLJ40244
20	None	ENSG00000234693	ENST00000452336	antisense	KNOWN	None	None	None	None	49262008	49276828	1	None	None
20	None	ENSG00000234693	ENST00000435177	antisense	KNOWN	None	None	None	None	49269739	49278812	1	None	None
X	None	ENSG00000225949	ENST00000444622	processed_pseudogene	KNOWN	None	None	None	None	132275328	132277968	-1	None	None
X	KRT18P48	ENSG00000217889	ENST00000434763	processed_pseudogene	KNOWN	None	33418	None	None	152869952	152870803	-1	None	None
17	MSL1	ENSG00000188895	ENST00000398532	protein_coding	KNOWN	None	27905	1845	614	38278551	38291643	1	None	hMSL1, MSL-1, DKFZp686P24239
17	MSL1	ENSG00000188895	ENST00000577454	protein_coding	KNOWN	None	27905	1386	461	38278826	38286546	1	None	hMSL1, MSL-1, DKFZp686P24239
17	MSL1	ENSG00000188895	ENST00000578648	protein_coding	KNOWN	None	27905	1797	598	38278837	38291063	1	None	hMSL1, MSL-1, DKFZp686P24239
17	MSL1	ENSG00000188895	ENST00000579565	protein_coding	KNOWN	CCDS45670	27905	1056	351	38278867	38290703	1	None	hMSL1, MSL-1, DKFZp686P24239
17	MSL1	ENSG00000188895	ENST00000578826	retained_intron	KNOWN	None	27905	None	None	38279350	38283113	1	None	hMSL1, MSL-1, DKFZp686P24239
17	MSL1	ENSG00000188895	ENST00000582920	protein_coding	PUTATIVE	None	27905	348	115	38280830	38285513	1	None	hMSL1, MSL-1, DKFZp686P24239
17	MSL1	ENSG00000188895	ENST00000582884	nonsense_mediated_decay	KNOWN	None	27905	441	146	38282646	38288295	1	None	hMSL1, MSL-1, DKFZp686P24239
17	MSL1	ENSG00000188895	ENST00000581246	retained_intron	KNOWN	None	27905	None	None	38287183	38289348	1	None	hMSL1, MSL-1, DKFZp686P24239
17	MSL1	ENSG00000188895	ENST00000339569	retained_intron	KNOWN	None	27905	None	None	38287254	38293040	1	None	hMSL1, MSL-1, DKFZp686P24239
17	MSL1	ENSG00000188895	ENST00000583127	retained_intron	KNOWN	None	27905	None	None	38288033	38290139	1	None	hMSL1, MSL-1, DKFZp686P24239
17	MSL1	ENSG00000188895	ENST00000580086	retained_intron	KNOWN	None	27905	None	None	38288244	38292371	1	None	hMSL1, MSL-1, DKFZp686P24239
6	None	ENSG00000238099	ENST00000454788	lincRNA	KNOWN	None	None	None	None	139791301	139794192	-1	None	None
15	None	ENSG00000259481	ENST00000560876	antisense	KNOWN	None	None	None	None	61473448	61488137	1	None	None
22	GALR3	ENSG00000128310	ENST00000249041	protein_coding	KNOWN	CCDS13958	4134	1107	368	38219389	38221502	1	None	None
14	NF1P4	ENSG00000257990	ENST00000551666	transcribed_unprocessed_pseudogene	KNOWN	None	7769	None	None	19485970	19495426	-1	NF1L4	None
4	None	ENSG00000213331	ENST00000508231	processed_pseudogene	KNOWN	None	None	None	None	188891427	188892438	1	None	None
Y	DUX4L16	ENSG00000258567	ENST00000555130	unprocessed_pseudogene	KNOWN	None	37719	None	None	13462594	13463857	1	None	DUXY1
1	MIR548AC	ENSG00000264419	ENST00000585049	miRNA	KNOWN	None	41626	None	None	117102646	117102733	-1	None	hsa-mir-548ac
17	None	ENSG00000251439	ENST00000508151	unprocessed_pseudogene	KNOWN	None	None	None	None	39343196	39343388	-1	None	None
17	KRTAP9-12P	ENSG00000248807	ENST00000514388	unprocessed_pseudogene	KNOWN	None	48873	None	None	39368958	39369489	1	None	None
15	None	ENSG00000259575	ENST00000558572	antisense	KNOWN	None	None	None	None	61504112	61506430	1	None	None
14	None	ENSG00000259146	ENST00000555771	antisense	KNOWN	None	None	None	None	71759442	71788531	-1	None	None
14	None	ENSG00000259146	ENST00000554634	antisense	KNOWN	None	None	None	None	71773887	71778076	-1	None	None
14	None	ENSG00000258633	ENST00000554389	antisense	KNOWN	None	None	None	None	45346077	45366280	-1	None	None
X	ARHGAP6	ENSG00000047648	ENST00000380736	protein_coding	KNOWN	CCDS14141	676	2316	771	11155663	11445893	-1	None	rhoGAPX-1
X	ARHGAP6	ENSG00000047648	ENST00000303025	protein_coding	KNOWN	CCDS14141	676	2316	771	11155664	11284095	-1	None	rhoGAPX-1
X	ARHGAP6	ENSG00000047648	ENST00000337414	protein_coding	KNOWN	CCDS14140	676	2925	974	11155664	11683821	-1	None	rhoGAPX-1
X	ARHGAP6	ENSG00000047648	ENST00000495242	nonsense_mediated_decay	KNOWN	None	676	2073	690	11155664	11683821	-1	None	rhoGAPX-1
X	ARHGAP6	ENSG00000047648	ENST00000489330	retained_intron	KNOWN	None	676	None	None	11155667	11683203	-1	None	rhoGAPX-1
X	ARHGAP6	ENSG00000047648	ENST00000380717	protein_coding	KNOWN	None	676	1806	601	11161517	11308598	-1	None	rhoGAPX-1
X	ARHGAP6	ENSG00000047648	ENST00000380718	protein_coding	KNOWN	CCDS14142	676	2298	765	11161517	11683821	-1	None	rhoGAPX-1
X	ARHGAP6	ENSG00000047648	ENST00000491514	processed_transcript	KNOWN	None	676	None	None	11187276	11200194	-1	None	rhoGAPX-1
X	ARHGAP6	ENSG00000047648	ENST00000534860	protein_coding	KNOWN	None	676	1815	604	11136239	11284124	-1	None	rhoGAPX-1
X	ARHGAP6	ENSG00000047648	ENST00000380732	protein_coding	KNOWN	None	676	2073	690	11166770	11682948	-1	None	rhoGAPX-1
X	ARHGAP6	ENSG00000047648	ENST00000413512	protein_coding	KNOWN	None	676	1404	467	11162134	11369656	-1	None	rhoGAPX-1
20	TLDC2	ENSG00000101342	ENST00000602922	protein_coding	KNOWN	CCDS33465	16112	648	215	35504524	35518266	1	C20orf118	dJ132F21.2
20	TLDC2	ENSG00000101342	ENST00000217320	protein_coding	KNOWN	CCDS33465	16112	648	215	35504534	35522638	1	C20orf118	dJ132F21.2
20	TLDC2	ENSG00000101342	ENST00000436941	protein_coding	PUTATIVE	None	16112	84	27	35515858	35522638	1	C20orf118	dJ132F21.2
1	None	ENSG00000238532	ENST00000458881	miRNA	NOVEL	None	None	None	None	117134728	117134821	-1	None	None
4	None	ENSG00000241011	ENST00000464002	processed_pseudogene	KNOWN	None	None	None	None	189027712	189028068	1	None	None
2	IGKJ2	ENSG00000211596	ENST00000390241	IG_J_gene	KNOWN	None	5720	38	11	89161037	89161074	-1	None	J2
2	None	ENSG00000237055	ENST00000448024	processed_pseudogene	KNOWN	None	None	None	None	95565311	95566406	-1	None	None
8	None	ENSG00000254575	ENST00000527110	antisense	KNOWN	None	None	None	None	14018806	14022868	1	None	None
8	MIR124-2	ENSG00000207816	ENST00000385081	miRNA	KNOWN	None	31503	None	None	65291706	65291814	1	MIRN124A2, MIRN124-2	hsa-mir-124a-2, hsa-mir-124-2
1	MIR320B1	ENSG00000211543	ENST00000390209	miRNA	KNOWN	None	35247	None	None	117214371	117214449	1	MIRN320B1	hsa-mir-320b-1
1	RNA5SP19	ENSG00000202056	ENST00000365186	rRNA	KNOWN	None	42587	None	None	228743494	228743602	1	RN5S19	None
20	APMAP	ENSG00000101474	ENST00000451442	protein_coding	KNOWN	None	13238	1229	408	24943561	24973278	-1	C20orf3	BSCv
20	APMAP	ENSG00000101474	ENST00000217456	protein_coding	KNOWN	CCDS13166	13238	1251	416	24943561	24973615	-1	C20orf3	BSCv
20	APMAP	ENSG00000101474	ENST00000447138	protein_coding	KNOWN	None	13238	870	289	24943581	24973360	-1	C20orf3	BSCv
1	None	ENSG00000225545	ENST00000426090	lincRNA	KNOWN	None	None	None	None	170556390	170557377	-1	None	None
1	RNA5S1	ENSG00000199352	ENST00000362482	rRNA	KNOWN	None	34362	None	None	228746015	228746133	-1	RN5S1	None
15	None	ENSG00000259616	ENST00000559783	lincRNA	KNOWN	None	None	None	None	61592525	61927648	-1	None	None
17	KRTAP9-11P	ENSG00000229351	ENST00000431013	unprocessed_pseudogene	KNOWN	None	18918	None	None	39427563	39428087	1	KRTAP9P1	KAP9A
X	None	ENSG00000213391	ENST00000406288	processed_pseudogene	KNOWN	None	None	None	None	152871972	152872343	1	None	None
17	KRTAP9-10P	ENSG00000237183	ENST00000435672	unprocessed_pseudogene	KNOWN	None	34210	None	None	39436856	39437062	1	None	None
2	None	ENSG00000232128	ENST00000443036	processed_pseudogene	KNOWN	None	None	None	None	95566735	95567347	1	None	None
HG325_PATCH	SEMA3B	ENSG00000262015	ENST00000591428	protein_coding	KNOWN	None	10724	642	213	50304990	50308890	1	SEMAA	SemA, semaV, LUCA-1, sema5
HG325_PATCH	SEMA3B	ENSG00000262015	ENST00000587203	retained_intron	KNOWN	None	10724	None	None	50306306	50314571	1	SEMAA	SemA, semaV, LUCA-1, sema5
HG325_PATCH	SEMA3B	ENSG00000262015	ENST00000575064	protein_coding	KNOWN	None	10724	2250	749	50306438	50314572	1	SEMAA	SemA, semaV, LUCA-1, sema5
HG325_PATCH	SEMA3B	ENSG00000262015	ENST00000586533	retained_intron	KNOWN	None	10724	None	None	50306597	50311112	1	SEMAA	SemA, semaV, LUCA-1, sema5
HG325_PATCH	SEMA3B	ENSG00000262015	ENST00000587144	protein_coding	NOVEL	None	10724	2265	754	50306646	50314146	1	SEMAA	SemA, semaV, LUCA-1, sema5
HG325_PATCH	SEMA3B	ENSG00000262015	ENST00000588851	retained_intron	KNOWN	None	10724	None	None	50307993	50314602	1	SEMAA	SemA, semaV, LUCA-1, sema5
HG325_PATCH	SEMA3B	ENSG00000262015	ENST00000586936	protein_coding	PUTATIVE	None	10724	1221	406	50310551	50314597	1	SEMAA	SemA, semaV, LUCA-1, sema5
HG325_PATCH	SEMA3B	ENSG00000262015	ENST00000592833	processed_transcript	KNOWN	None	10724	None	None	50310562	50311962	1	SEMAA	SemA, semaV, LUCA-1, sema5
HG325_PATCH	SEMA3B	ENSG00000262015	ENST00000589719	retained_intron	KNOWN	None	10724	None	None	50310584	50311772	1	SEMAA	SemA, semaV, LUCA-1, sema5
HG325_PATCH	SEMA3B	ENSG00000262015	ENST00000589282	processed_transcript	KNOWN	None	10724	None	None	50310589	50314978	1	SEMAA	SemA, semaV, LUCA-1, sema5
HG325_PATCH	SEMA3B	ENSG00000262015	ENST00000587415	protein_coding	PUTATIVE	None	10724	1221	406	50310592	50314308	1	SEMAA	SemA, semaV, LUCA-1, sema5
HG325_PATCH	SEMA3B	ENSG00000262015	ENST00000590742	retained_intron	KNOWN	None	10724	None	None	50310778	50314593	1	SEMAA	SemA, semaV, LUCA-1, sema5
HG325_PATCH	SEMA3B	ENSG00000262015	ENST00000592028	retained_intron	KNOWN	None	10724	None	None	50312066	50313876	1	SEMAA	SemA, semaV, LUCA-1, sema5
1	None	ENSG00000235303	ENST00000413005	lincRNA	KNOWN	None	None	None	None	170567995	170616480	1	None	None
3	None	ENSG00000248530	ENST00000508390	processed_pseudogene	KNOWN	None	None	None	None	131245291	131246023	1	None	None
17	AOC2	ENSG00000131480	ENST00000253799	protein_coding	KNOWN	CCDS11443	549	2271	756	40996617	41002724	1	None	RAO, DAO2
17	AOC2	ENSG00000131480	ENST00000452774	protein_coding	KNOWN	CCDS45690	549	2190	729	40996618	41002721	1	None	RAO, DAO2
11	KIAA1549L	ENSG00000110427	ENST00000526400	protein_coding	PUTATIVE	None	24836	2507	834	33563618	33631438	1	C11orf69, C11orf41	G2, MGC34830
11	KIAA1549L	ENSG00000110427	ENST00000321505	protein_coding	KNOWN	CCDS44565	24836	5550	1849	33563821	33695648	1	C11orf69, C11orf41	G2, MGC34830
11	KIAA1549L	ENSG00000110427	ENST00000265654	protein_coding	KNOWN	None	24836	3708	1235	33563877	33621040	1	C11orf69, C11orf41	G2, MGC34830
11	KIAA1549L	ENSG00000110427	ENST00000389726	protein_coding	KNOWN	None	24836	5568	1855	33563877	33695648	1	C11orf69, C11orf41	G2, MGC34830
1	RNA5S2	ENSG00000201588	ENST00000364718	rRNA	KNOWN	None	34363	None	None	228748256	228748374	-1	RN5S2	None
8	None	ENSG00000253750	ENST00000520009	processed_pseudogene	KNOWN	None	None	None	None	65466793	65467032	-1	None	None
14	None	ENSG00000258509	ENST00000557196	processed_pseudogene	KNOWN	None	None	None	None	45356637	45356944	-1	None	None
1	GAPDHP64	ENSG00000231072	ENST00000419696	processed_pseudogene	KNOWN	None	4158	None	None	117256455	117257457	-1	GAPDL9, GAPDHL9	None
2	IGKJ1	ENSG00000211597	ENST00000390242	IG_J_gene	KNOWN	None	5719	38	11	89161398	89161435	-1	None	J1
11	None	ENSG00000213592	ENST00000530952	processed_pseudogene	KNOWN	None	None	None	None	57485516	57486002	-1	None	None
9	TESK1	ENSG00000107140	ENST00000336395	protein_coding	KNOWN	CCDS6580	11731	1881	626	35605367	35610029	1	None	None
9	TESK1	ENSG00000107140	ENST00000498522	processed_transcript	KNOWN	None	11731	None	None	35605488	35610038	1	None	None
9	TESK1	ENSG00000107140	ENST00000467424	processed_transcript	KNOWN	None	11731	None	None	35606969	35608279	1	None	None
9	TESK1	ENSG00000107140	ENST00000463897	processed_transcript	KNOWN	None	11731	None	None	35607222	35608224	1	None	None
9	TESK1	ENSG00000107140	ENST00000480077	processed_transcript	KNOWN	None	11731	None	None	35607663	35608432	1	None	None
11	None	ENSG00000271624	ENST00000604842	processed_pseudogene	KNOWN	None	None	None	None	131640689	131641532	-1	None	None
1	None	ENSG00000271811	ENST00000606154	lincRNA	KNOWN	None	None	None	None	170636522	170638566	1	None	None
X	None	ENSG00000228616	ENST00000446370	lincRNA	KNOWN	None	None	None	None	152876149	152878380	1	None	None
12	None	ENSG00000257288	ENST00000550567	processed_pseudogene	KNOWN	None	None	None	None	59446761	59447965	-1	None	None
5	MRP63P6	ENSG00000249449	ENST00000506570	processed_pseudogene	KNOWN	None	29689	None	None	162466297	162466605	1	None	None
1	VANGL2	ENSG00000162738	ENST00000368061	protein_coding	KNOWN	CCDS30915	15511	1566	521	160370376	160398468	1	None	KIAA1215, LTAP, LPP1, STBM, STB1, STBM1, MGC119403, MGC119404
1	VANGL2	ENSG00000162738	ENST00000483408	processed_transcript	KNOWN	None	15511	None	None	160389283	160393937	1	None	KIAA1215, LTAP, LPP1, STBM, STB1, STBM1, MGC119403, MGC119404
1	RNA5S3	ENSG00000199337	ENST00000362467	rRNA	KNOWN	None	34364	None	None	228750497	228750615	-1	RN5S3	None
1	None	ENSG00000215924	ENST00000401105	miRNA	NOVEL	None	None	None	None	171010488	171010581	-1	None	None
3	None	ENSG00000251447	ENST00000512197	unprocessed_pseudogene	KNOWN	None	None	None	None	131256415	131256529	-1	None	None
15	None	ENSG00000259530	ENST00000561182	lincRNA	KNOWN	None	None	None	None	61890713	61897440	1	None	None
16	None	ENSG00000241183	ENST00000472115	processed_pseudogene	KNOWN	None	None	None	None	70113032	70113527	-1	None	None
2	None	ENSG00000233158	ENST00000452670	processed_pseudogene	KNOWN	None	None	None	None	95578177	95578576	1	None	None
3	None	ENSG00000228337	ENST00000423991	processed_pseudogene	KNOWN	None	None	None	None	50722982	50723222	-1	None	None
21	SIM2	ENSG00000159263	ENST00000460783	processed_transcript	KNOWN	None	10883	None	None	38071433	38082913	1	SIM	MGC119447, bHLHe15
21	SIM2	ENSG00000159263	ENST00000481185	retained_intron	KNOWN	None	10883	None	None	38071434	38118625	1	SIM	MGC119447, bHLHe15
21	SIM2	ENSG00000159263	ENST00000290399	protein_coding	KNOWN	CCDS13646	10883	2004	667	38071434	38122218	1	SIM	MGC119447, bHLHe15
21	SIM2	ENSG00000159263	ENST00000431229	protein_coding	PUTATIVE	None	10883	1441	479	38081481	38118172	1	SIM	MGC119447, bHLHe15
21	SIM2	ENSG00000159263	ENST00000483178	processed_transcript	KNOWN	None	10883	None	None	38084866	38092662	1	SIM	MGC119447, bHLHe15
21	SIM2	ENSG00000159263	ENST00000430056	protein_coding	KNOWN	CCDS46647	10883	1713	570	38071991	38118219	1	SIM	MGC119447, bHLHe15
17	TBC1D3P7	ENSG00000233014	ENST00000428328	unprocessed_pseudogene	KNOWN	None	43569	None	None	39479679	39485797	1	None	None
12	None	ENSG00000258214	ENST00000547088	lincRNA	KNOWN	None	None	None	None	59759999	59804952	-1	None	None
5	None	ENSG00000250114	ENST00000506922	unprocessed_pseudogene	KNOWN	None	None	None	None	162843531	162843737	1	None	None
1	None	ENSG00000226552	ENST00000452221	processed_pseudogene	KNOWN	None	None	None	None	171052706	171054346	1	None	None
6	MRPS18A	ENSG00000096080	ENST00000372133	protein_coding	KNOWN	CCDS4906	14515	591	196	43639040	43655528	-1	None	FLJ10548, MRPS18-3
6	MRPS18A	ENSG00000096080	ENST00000372116	protein_coding	KNOWN	CCDS55006	14515	384	127	43639247	43655528	-1	None	FLJ10548, MRPS18-3
6	MRPS18A	ENSG00000096080	ENST00000427312	protein_coding	KNOWN	None	14515	791	262	43639521	43655528	-1	None	FLJ10548, MRPS18-3
X	None	ENSG00000207100	ENST00000384372	snoRNA	NOVEL	None	None	None	None	132286782	132286920	1	None	None
17	None	ENSG00000108516	ENST00000435883	unprocessed_pseudogene	KNOWN	None	None	None	None	39490884	39491985	1	None	None
X	RNU1-115P	ENSG00000202199	ENST00000365329	snRNA	KNOWN	None	48457	None	None	132372685	132372844	-1	None	None
20	TMSB4XP6	ENSG00000230043	ENST00000415187	processed_pseudogene	KNOWN	None	11888	None	None	49457152	49457286	-1	TMSB4L, TMSL6	dJ1071L10.1
11	None	ENSG00000255303	ENST00000529722	processed_pseudogene	KNOWN	None	None	None	None	57633770	57634751	-1	None	None
1	RNA5S4	ENSG00000200381	ENST00000363511	rRNA	KNOWN	None	34365	None	None	228752738	228752856	-1	RN5S4	None
8	None	ENSG00000253800	ENST00000517809	processed_pseudogene	KNOWN	None	None	None	None	65483470	65483889	-1	None	None
14	None	ENSG00000259079	ENST00000554427	processed_pseudogene	KNOWN	None	None	None	None	71797059	71797455	-1	None	None
11	None	ENSG00000238117	ENST00000419440	antisense	KNOWN	None	None	None	None	131747574	131767002	-1	None	None
5	None	ENSG00000251018	ENST00000521666	antisense	KNOWN	None	None	None	None	162910071	162921040	-1	None	None
5	None	ENSG00000251018	ENST00000514724	antisense	KNOWN	None	None	None	None	162910182	162921064	-1	None	None
Y	DUX4L17	ENSG00000259154	ENST00000557360	unprocessed_pseudogene	KNOWN	None	37717	None	None	13470597	13471863	1	None	DUXY3
8	None	ENSG00000214366	ENST00000528228	processed_pseudogene	KNOWN	None	None	None	None	14166542	14167181	1	None	None
16	None	ENSG00000247228	ENST00000566989	antisense	KNOWN	None	None	None	None	70190243	70207322	-1	None	None
16	None	ENSG00000247228	ENST00000502126	antisense	KNOWN	None	None	None	None	70192860	70207351	-1	None	None
3	MIR5704	ENSG00000265859	ENST00000584029	miRNA	KNOWN	None	43469	None	None	131704699	131704775	-1	None	hsa-mir-5704
2	RPL23AP7	ENSG00000240356	ENST00000416673	processed_transcript	KNOWN	None	17336	None	None	114368079	114384617	-1	None	RPL23AL1, bA395L14.9
2	RPL23AP7	ENSG00000240356	ENST00000391616	processed_transcript	KNOWN	None	17336	None	None	114369261	114384667	-1	None	RPL23AL1, bA395L14.9
2	RPL23AP7	ENSG00000240356	ENST00000449021	transcribed_processed_pseudogene	KNOWN	None	17336	None	None	114369356	114369824	-1	None	RPL23AL1, bA395L14.9
2	IGKV4-1	ENSG00000211598	ENST00000390243	IG_V_gene	KNOWN	None	5834	363	120	89184913	89185669	1	None	IGKV41, B3
1	NEFHP1	ENSG00000223489	ENST00000412845	processed_pseudogene	KNOWN	None	7738	None	None	117282603	117285231	-1	NEFHL	None
2	None	ENSG00000231331	ENST00000428055	unprocessed_pseudogene	KNOWN	None	None	None	None	95618906	95619338	-1	None	None
12	None	ENSG00000261799	ENST00000570140	sense_overlapping	KNOWN	None	None	None	None	383120	386289	-1	None	None
3	None	ENSG00000213587	ENST00000431082	processed_pseudogene	KNOWN	None	None	None	None	50756913	50757382	-1	None	None
3	None	ENSG00000240854	ENST00000470499	processed_pseudogene	KNOWN	None	None	None	None	131894246	131895555	1	None	None
1	RNA5S5	ENSG00000199396	ENST00000362526	rRNA	KNOWN	None	34366	None	None	228754979	228755097	-1	RN5S5	None
15	None	ENSG00000259675	ENST00000560686	lincRNA	KNOWN	None	None	None	None	61931548	61945400	-1	None	None
15	None	ENSG00000259675	ENST00000559590	lincRNA	KNOWN	None	None	None	None	61931574	62007370	-1	None	None
2	ELMOD3	ENSG00000115459	ENST00000462396	processed_transcript	PUTATIVE	None	26158	None	None	85581517	85584148	1	RBM29, RBED1	FLJ21977
2	ELMOD3	ENSG00000115459	ENST00000409331	protein_coding	KNOWN	None	26158	608	201	85581843	85598686	1	RBM29, RBED1	FLJ21977
2	ELMOD3	ENSG00000115459	ENST00000409013	protein_coding	KNOWN	CCDS46352	26158	1146	381	85581843	85618871	1	RBM29, RBED1	FLJ21977
2	ELMOD3	ENSG00000115459	ENST00000490508	processed_transcript	KNOWN	None	26158	None	None	85581849	85618875	1	RBM29, RBED1	FLJ21977
2	ELMOD3	ENSG00000115459	ENST00000446464	nonsense_mediated_decay	KNOWN	None	26158	765	254	85581869	85618871	1	RBM29, RBED1	FLJ21977
2	ELMOD3	ENSG00000115459	ENST00000423095	nonsense_mediated_decay	KNOWN	None	26158	489	162	85581874	85618875	1	RBM29, RBED1	FLJ21977
2	ELMOD3	ENSG00000115459	ENST00000409344	protein_coding	KNOWN	CCDS46352	26158	1146	381	85581876	85618871	1	RBM29, RBED1	FLJ21977
2	ELMOD3	ENSG00000115459	ENST00000393852	protein_coding	KNOWN	CCDS46352	26158	1146	381	85581880	85618871	1	RBM29, RBED1	FLJ21977
2	ELMOD3	ENSG00000115459	ENST00000476734	processed_transcript	KNOWN	None	26158	None	None	85581892	85595863	1	RBM29, RBED1	FLJ21977
2	ELMOD3	ENSG00000115459	ENST00000429764	nonsense_mediated_decay	KNOWN	None	26158	255	84	85581892	85614322	1	RBM29, RBED1	FLJ21977
2	ELMOD3	ENSG00000115459	ENST00000466467	retained_intron	KNOWN	None	26158	None	None	85581902	85584701	1	RBM29, RBED1	FLJ21977
2	ELMOD3	ENSG00000115459	ENST00000315658	protein_coding	KNOWN	CCDS1973	26158	1176	391	85581926	85618871	1	RBM29, RBED1	FLJ21977
2	ELMOD3	ENSG00000115459	ENST00000462891	protein_coding	KNOWN	None	26158	379	125	85581929	85598227	1	RBM29, RBED1	FLJ21977
2	ELMOD3	ENSG00000115459	ENST00000418268	protein_coding	KNOWN	None	26158	360	119	85583040	85596953	1	RBM29, RBED1	FLJ21977
2	ELMOD3	ENSG00000115459	ENST00000414593	nonsense_mediated_decay	KNOWN	None	26158	486	161	85584203	85618875	1	RBM29, RBED1	FLJ21977
2	ELMOD3	ENSG00000115459	ENST00000410106	nonsense_mediated_decay	KNOWN	None	26158	558	185	85584314	85618093	1	RBM29, RBED1	FLJ21977
2	ELMOD3	ENSG00000115459	ENST00000444108	nonsense_mediated_decay	KNOWN	None	26158	765	254	85584314	85618217	1	RBM29, RBED1	FLJ21977
2	ELMOD3	ENSG00000115459	ENST00000440462	nonsense_mediated_decay	KNOWN	None	26158	135	44	85584321	85598476	1	RBM29, RBED1	FLJ21977
2	ELMOD3	ENSG00000115459	ENST00000488150	retained_intron	KNOWN	None	26158	None	None	85589356	85600032	1	RBM29, RBED1	FLJ21977
2	ELMOD3	ENSG00000115459	ENST00000496957	processed_transcript	KNOWN	None	26158	None	None	85604005	85618118	1	RBM29, RBED1	FLJ21977
2	ELMOD3	ENSG00000115459	ENST00000486908	retained_intron	KNOWN	None	26158	None	None	85616671	85617777	1	RBM29, RBED1	FLJ21977
2	ELMOD3	ENSG00000115459	ENST00000409890	protein_coding	KNOWN	CCDS46352	26158	1146	381	85581843	85618873	1	RBM29, RBED1	FLJ21977
2	ELMOD3	ENSG00000115459	ENST00000428955	protein_coding	KNOWN	None	26158	765	254	85581880	85614247	1	RBM29, RBED1	FLJ21977
X	None	ENSG00000261295	ENST00000568809	antisense	KNOWN	None	None	None	None	99928327	99928978	1	None	None
14	None	ENSG00000259046	ENST00000555741	processed_pseudogene	KNOWN	None	None	None	None	45357759	45358244	-1	None	None
11	None	ENSG00000255450	ENST00000525759	processed_pseudogene	KNOWN	None	None	None	None	29297202	29298112	1	None	None
14	None	ENSG00000258038	ENST00000550827	lincRNA	KNOWN	None	None	None	None	29299450	29311543	1	None	None
14	None	ENSG00000258038	ENST00000548087	lincRNA	KNOWN	None	None	None	None	29299453	29306923	1	None	None
14	None	ENSG00000258038	ENST00000551588	lincRNA	KNOWN	None	None	None	None	29299454	29437606	1	None	None
14	None	ENSG00000258038	ENST00000550122	lincRNA	KNOWN	None	None	None	None	29299456	29306864	1	None	None
14	None	ENSG00000258038	ENST00000548775	lincRNA	KNOWN	None	None	None	None	29299651	29311288	1	None	None
14	None	ENSG00000258038	ENST00000550990	lincRNA	KNOWN	None	None	None	None	29400776	29437598	1	None	None
11	None	ENSG00000255266	ENST00000530974	processed_pseudogene	KNOWN	None	None	None	None	57637794	57638043	-1	None	None
12	RNU6-279P	ENSG00000212599	ENST00000391297	snRNA	KNOWN	None	47242	None	None	59762832	59762932	-1	None	None
1	RNA5S6	ENSG00000200624	ENST00000363754	rRNA	KNOWN	None	34367	None	None	228757194	228757312	-1	RN5S6	None
X	None	ENSG00000223819	ENST00000446082	processed_pseudogene	KNOWN	None	None	None	None	100055292	100055773	-1	None	None
X	None	ENSG00000265471	ENST00000584892	miRNA	NOVEL	None	None	None	None	132425321	132425399	1	None	None
12	RNU6-871P	ENSG00000251931	ENST00000516122	snRNA	KNOWN	None	47834	None	None	59844454	59844553	-1	None	None
17	None	ENSG00000234859	ENST00000430006	antisense	KNOWN	None	None	None	None	39558668	39568840	1	None	None
17	None	ENSG00000234859	ENST00000432258	antisense	KNOWN	None	None	None	None	39558675	39581301	1	None	None
2	None	ENSG00000232594	ENST00000454384	unprocessed_pseudogene	KNOWN	None	None	None	None	95626792	95627248	-1	None	None
5	UGT3A1	ENSG00000145626	ENST00000274278	protein_coding	KNOWN	CCDS3913	26625	1572	523	35951112	35991700	-1	None	FLJ34658
5	UGT3A1	ENSG00000145626	ENST00000515801	nonsense_mediated_decay	KNOWN	None	26625	174	57	35953210	35991707	-1	None	FLJ34658
5	UGT3A1	ENSG00000145626	ENST00000503189	protein_coding	PUTATIVE	None	26625	1311	436	35955297	35991499	-1	None	FLJ34658
5	UGT3A1	ENSG00000145626	ENST00000507113	protein_coding	PUTATIVE	None	26625	1209	402	35955483	35991535	-1	None	FLJ34658
5	UGT3A1	ENSG00000145626	ENST00000513233	processed_transcript	PUTATIVE	None	26625	None	None	35955831	35991436	-1	None	FLJ34658
5	UGT3A1	ENSG00000145626	ENST00000333811	protein_coding	KNOWN	CCDS54841	26625	759	252	35960858	36001130	-1	None	FLJ34658
11	None	ENSG00000224700	ENST00000446631	antisense	KNOWN	None	None	None	None	131850990	131854555	-1	None	None
9	PPP3R2	ENSG00000188386	ENST00000374806	protein_coding	KNOWN	CCDS6759	9318	522	173	104353897	104357283	-1	None	PPP3RL
1	MIR1295A	ENSG00000221390	ENST00000408463	miRNA	KNOWN	None	35288	None	None	171070869	171070947	-1	MIRN1295, MIR1295	hsa-mir-1295
3	None	ENSG00000242899	ENST00000479738	processed_pseudogene	KNOWN	None	None	None	None	131962372	131963109	-1	None	None
3	ZNF652P1	ENSG00000235278	ENST00000442420	processed_pseudogene	KNOWN	None	35166	None	None	50824105	50825716	-1	ZNF652P	None
1	RNA5S7	ENSG00000202521	ENST00000365651	rRNA	KNOWN	None	34368	None	None	228759414	228759532	-1	RN5S7	None
20	None	ENSG00000265062	ENST00000582676	miRNA	NOVEL	None	None	None	None	49477445	49477523	1	None	None
1	FTH1P22	ENSG00000225079	ENST00000456305	processed_pseudogene	KNOWN	None	37640	None	None	117317726	117318245	-1	FTHL22	None
12	None	ENSG00000266724	ENST00000580442	miRNA	NOVEL	None	None	None	None	59921840	59921922	-1	None	None
1	None	ENSG00000231424	ENST00000455124	antisense	KNOWN	None	None	None	None	171137243	171220933	-1	None	None
3	LINC00691	ENSG00000224074	ENST00000436123	lincRNA	KNOWN	None	44514	None	None	24137760	24144714	-1	None	None
3	LINC00691	ENSG00000224074	ENST00000432505	lincRNA	KNOWN	None	44514	None	None	24141465	24144729	-1	None	None
X	None	ENSG00000238116	ENST00000414579	processed_pseudogene	KNOWN	None	None	None	None	100056177	100058049	1	None	None
12	OAS1	ENSG00000089127	ENST00000202917	protein_coding	KNOWN	CCDS41838	8086	1203	400	113344582	113357708	1	OIAS	OIASI, IFI-4
12	OAS1	ENSG00000089127	ENST00000445409	protein_coding	KNOWN	CCDS31905	8086	1245	414	113344588	113357680	1	OIAS	OIASI, IFI-4
12	OAS1	ENSG00000089127	ENST00000452357	protein_coding	KNOWN	CCDS44980	8086	1095	364	113344655	113356267	1	OIAS	OIASI, IFI-4
12	OAS1	ENSG00000089127	ENST00000550883	protein_coding	PUTATIVE	None	8086	250	82	113344771	113354383	1	OIAS	OIASI, IFI-4
12	OAS1	ENSG00000089127	ENST00000549820	retained_intron	KNOWN	None	8086	None	None	113344778	113354760	1	OIAS	OIASI, IFI-4
12	OAS1	ENSG00000089127	ENST00000551241	protein_coding	PUTATIVE	None	8086	1083	360	113344812	113369990	1	OIAS	OIASI, IFI-4
12	OAS1	ENSG00000089127	ENST00000553185	protein_coding	PUTATIVE	None	8086	534	177	113344843	113346822	1	OIAS	OIASI, IFI-4
12	OAS1	ENSG00000089127	ENST00000550689	protein_coding	PUTATIVE	None	8086	909	302	113344857	113354621	1	OIAS	OIASI, IFI-4
12	OAS1	ENSG00000089127	ENST00000553152	protein_coding	PUTATIVE	None	8086	393	130	113354422	113357015	1	OIAS	OIASI, IFI-4
12	OAS1	ENSG00000089127	ENST00000552526	protein_coding	PUTATIVE	None	8086	48	15	113357194	113369947	1	OIAS	OIASI, IFI-4
12	OAS1	ENSG00000089127	ENST00000540589	nonsense_mediated_decay	KNOWN	None	8086	68	21	113357291	113369947	1	OIAS	OIASI, IFI-4
22	TRMT2A	ENSG00000099899	ENST00000252136	protein_coding	KNOWN	CCDS13774	24974	1878	625	20099389	20104818	-1	None	HTF9C
22	TRMT2A	ENSG00000099899	ENST00000403707	protein_coding	KNOWN	CCDS13774	24974	1878	625	20099398	20104915	-1	None	HTF9C
22	TRMT2A	ENSG00000099899	ENST00000480339	retained_intron	KNOWN	None	24974	None	None	20099824	20100701	-1	None	HTF9C
22	TRMT2A	ENSG00000099899	ENST00000444845	protein_coding	NOVEL	None	24974	477	158	20099824	20101030	-1	None	HTF9C
22	TRMT2A	ENSG00000099899	ENST00000404751	protein_coding	KNOWN	CCDS58793	24974	1689	562	20099827	20104768	-1	None	HTF9C
22	TRMT2A	ENSG00000099899	ENST00000487668	retained_intron	KNOWN	None	24974	None	None	20099851	20101321	-1	None	HTF9C
22	TRMT2A	ENSG00000099899	ENST00000439169	protein_coding	NOVEL	None	24974	1932	643	20099861	20104745	-1	None	HTF9C
22	TRMT2A	ENSG00000099899	ENST00000487378	retained_intron	KNOWN	None	24974	None	None	20100022	20100901	-1	None	HTF9C
22	TRMT2A	ENSG00000099899	ENST00000444256	protein_coding	NOVEL	None	24974	426	141	20100091	20101331	-1	None	HTF9C
22	TRMT2A	ENSG00000099899	ENST00000494820	retained_intron	KNOWN	None	24974	None	None	20100415	20103335	-1	None	HTF9C
22	TRMT2A	ENSG00000099899	ENST00000492988	processed_transcript	KNOWN	None	24974	None	None	20100641	20103211	-1	None	HTF9C
22	TRMT2A	ENSG00000099899	ENST00000471040	retained_intron	KNOWN	None	24974	None	None	20101009	20102962	-1	None	HTF9C
22	TRMT2A	ENSG00000099899	ENST00000488335	processed_transcript	PUTATIVE	None	24974	None	None	20101173	20102391	-1	None	HTF9C
22	TRMT2A	ENSG00000099899	ENST00000463710	retained_intron	KNOWN	None	24974	None	None	20101227	20102915	-1	None	HTF9C
22	TRMT2A	ENSG00000099899	ENST00000459644	retained_intron	KNOWN	None	24974	None	None	20102290	20103145	-1	None	HTF9C
22	TRMT2A	ENSG00000099899	ENST00000468917	retained_intron	KNOWN	None	24974	None	None	20102860	20104073	-1	None	HTF9C
22	TRMT2A	ENSG00000099899	ENST00000480460	processed_transcript	PUTATIVE	None	24974	None	None	20102872	20103623	-1	None	HTF9C
22	TRMT2A	ENSG00000099899	ENST00000494641	retained_intron	KNOWN	None	24974	None	None	20103100	20104706	-1	None	HTF9C
22	TRMT2A	ENSG00000099899	ENST00000464535	retained_intron	KNOWN	None	24974	None	None	20103133	20104726	-1	None	HTF9C
22	TRMT2A	ENSG00000099899	ENST00000445045	protein_coding	PUTATIVE	None	24974	359	118	20103765	20104762	-1	None	HTF9C
11	None	ENSG00000255011	ENST00000532034	unprocessed_pseudogene	KNOWN	None	None	None	None	89804304	89806223	1	None	None
1	RNA5S8	ENSG00000200343	ENST00000363473	rRNA	KNOWN	None	34369	None	None	228761656	228761774	-1	RN5S8	None
1	None	ENSG00000225243	ENST00000422841	antisense	KNOWN	None	None	None	None	171168383	171193423	-1	None	None
1	None	ENSG00000225243	ENST00000445909	antisense	KNOWN	None	None	None	None	171168386	171196864	-1	None	None
1	None	ENSG00000225243	ENST00000445290	antisense	KNOWN	None	None	None	None	171168386	171196927	-1	None	None
2	None	ENSG00000233105	ENST00000455643	unprocessed_pseudogene	KNOWN	None	None	None	None	95630218	95630581	-1	None	None
20	PSMD10P1	ENSG00000228663	ENST00000436861	processed_pseudogene	KNOWN	None	16602	None	None	49530268	49530948	1	PSMD10P	dJ914P20.4
11	OR5AZ1P	ENSG00000180714	ENST00000527448	processed_pseudogene	KNOWN	None	15262	None	None	57684769	57685711	-1	None	None
11	OR5AZ1P	ENSG00000180714	ENST00000319748	processed_pseudogene	KNOWN	None	15262	None	None	57684771	57685702	-1	None	None
1	RNA5S9	ENSG00000201321	ENST00000364451	rRNA	KNOWN	None	34370	None	None	228763895	228764013	-1	RN5S9	None
Y	DUX4L18	ENSG00000259029	ENST00000553347	unprocessed_pseudogene	KNOWN	None	37716	None	None	13477233	13478499	1	None	DUXY2
X	None	ENSG00000202231	ENST00000365361	snoRNA	NOVEL	None	None	None	None	100077609	100077741	-1	None	None
11	NTM-IT	ENSG00000238262	ENST00000421651	sense_intronic	KNOWN	None	41437	None	None	132154196	132154975	1	NTM-IT3	None
7	SSBP1	ENSG00000106028	ENST00000265304	protein_coding	KNOWN	CCDS5866	11317	447	148	141438121	141450261	1	None	SSBP, mtSSB
7	SSBP1	ENSG00000106028	ENST00000496622	retained_intron	KNOWN	None	11317	None	None	141438158	141441490	1	None	SSBP, mtSSB
7	SSBP1	ENSG00000106028	ENST00000498107	protein_coding	KNOWN	CCDS5866	11317	447	148	141438158	141450154	1	None	SSBP, mtSSB
7	SSBP1	ENSG00000106028	ENST00000489378	retained_intron	KNOWN	None	11317	None	None	141438165	141446326	1	None	SSBP, mtSSB
7	SSBP1	ENSG00000106028	ENST00000469123	processed_transcript	KNOWN	None	11317	None	None	141438191	141450256	1	None	SSBP, mtSSB
7	SSBP1	ENSG00000106028	ENST00000467681	protein_coding	KNOWN	None	11317	407	134	141438196	141450114	1	None	SSBP, mtSSB
7	SSBP1	ENSG00000106028	ENST00000465582	protein_coding	KNOWN	CCDS5866	11317	447	148	141438200	141487722	1	None	SSBP, mtSSB
7	SSBP1	ENSG00000106028	ENST00000461433	retained_intron	KNOWN	None	11317	None	None	141438201	141440514	1	None	SSBP, mtSSB
7	SSBP1	ENSG00000106028	ENST00000463093	protein_coding	KNOWN	None	11317	364	120	141438201	141445345	1	None	SSBP, mtSSB
7	SSBP1	ENSG00000106028	ENST00000465167	processed_transcript	KNOWN	None	11317	None	None	141438206	141450132	1	None	SSBP, mtSSB
7	SSBP1	ENSG00000106028	ENST00000468267	retained_intron	KNOWN	None	11317	None	None	141438209	141439556	1	None	SSBP, mtSSB
7	SSBP1	ENSG00000106028	ENST00000484178	protein_coding	KNOWN	CCDS5866	11317	447	148	141438400	141450261	1	None	SSBP, mtSSB
7	SSBP1	ENSG00000106028	ENST00000473783	protein_coding	KNOWN	None	11317	85	27	141438403	141442029	1	None	SSBP, mtSSB
7	SSBP1	ENSG00000106028	ENST00000481508	protein_coding	KNOWN	CCDS5866	11317	447	148	141438407	141450261	1	None	SSBP, mtSSB
HSCHR6_MHC_APD	EHMT2	ENSG00000232045	ENST00000495638	processed_transcript	KNOWN	None	14129	None	None	31858893	31863940	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_APD	EHMT2	ENSG00000232045	ENST00000495740	retained_intron	KNOWN	None	14129	None	None	31858893	31864275	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_APD	EHMT2	ENSG00000232045	ENST00000488695	retained_intron	KNOWN	None	14129	None	None	31858893	31865571	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_APD	EHMT2	ENSG00000232045	ENST00000498185	processed_transcript	KNOWN	None	14129	None	None	31858893	31875645	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_APD	EHMT2	ENSG00000232045	ENST00000415323	protein_coding	KNOWN	None	14129	3804	1267	31858893	31876343	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_APD	EHMT2	ENSG00000232045	ENST00000450323	protein_coding	KNOWN	None	14129	3702	1233	31858893	31876363	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_APD	EHMT2	ENSG00000232045	ENST00000440987	protein_coding	KNOWN	None	14129	3531	1176	31858893	31876818	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_APD	EHMT2	ENSG00000232045	ENST00000421926	protein_coding	KNOWN	None	14129	3633	1210	31858893	31876825	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_APD	EHMT2	ENSG00000232045	ENST00000448415	protein_coding	KNOWN	None	14129	894	297	31862953	31866198	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_APD	EHMT2	ENSG00000232045	ENST00000488847	retained_intron	KNOWN	None	14129	None	None	31863807	31866253	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_APD	EHMT2	ENSG00000232045	ENST00000466439	retained_intron	KNOWN	None	14129	None	None	31871556	31872324	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_APD	EHMT2	ENSG00000232045	ENST00000476424	retained_intron	KNOWN	None	14129	None	None	31874542	31876828	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_APD	EHMT2	ENSG00000232045	ENST00000551865	protein_coding	KNOWN	None	14129	3096	1031	31858899	31872523	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
2	IGKV5-2	ENSG00000211599	ENST00000390244	IG_V_gene	KNOWN	None	5835	345	114	89196748	89197300	1	None	IGKV52, B2
1	None	ENSG00000221425	ENST00000408498	miRNA	NOVEL	None	None	None	None	117447772	117447916	1	None	None
16	SULT1A3	ENSG00000261052	ENST00000567309	retained_intron	KNOWN	None	11455	None	None	30210549	30214743	1	STM	TL-PST
16	SULT1A3	ENSG00000261052	ENST00000338971	protein_coding	KNOWN	CCDS10674	11455	888	295	30210552	30215349	1	STM	TL-PST
16	SULT1A3	ENSG00000261052	ENST00000395138	protein_coding	KNOWN	CCDS10674	11455	888	295	30211181	30215631	1	STM	TL-PST
16	SULT1A3	ENSG00000261052	ENST00000569409	retained_intron	KNOWN	None	11455	None	None	30211726	30212583	1	STM	TL-PST
16	SULT1A3	ENSG00000261052	ENST00000563322	protein_coding	NOVEL	None	11455	906	301	30212050	30215241	1	STM	TL-PST
16	SULT1A3	ENSG00000261052	ENST00000569485	protein_coding	NOVEL	None	11455	405	134	30212378	30215001	1	STM	TL-PST
16	SULT1A3	ENSG00000261052	ENST00000562257	retained_intron	KNOWN	None	11455	None	None	30212382	30214398	1	STM	TL-PST
16	SULT1A3	ENSG00000261052	ENST00000563638	nonsense_mediated_decay	KNOWN	None	11455	152	49	30212389	30215353	1	STM	TL-PST
16	SULT1A3	ENSG00000261052	ENST00000561549	retained_intron	KNOWN	None	11455	None	None	30212393	30214621	1	STM	TL-PST
16	SULT1A3	ENSG00000261052	ENST00000561533	retained_intron	KNOWN	None	11455	None	None	30212394	30215280	1	STM	TL-PST
16	SULT1A3	ENSG00000261052	ENST00000354723	protein_coding	KNOWN	CCDS10674	11455	888	295	30205754	30215627	1	STM	TL-PST
16	SULT1A3	ENSG00000261052	ENST00000355544	protein_coding	KNOWN	CCDS10674	11455	888	295	30205820	30215622	1	STM	TL-PST
16	SULT1A3	ENSG00000261052	ENST00000395137	protein_coding	KNOWN	CCDS10674	11455	888	295	30207122	30215329	1	STM	TL-PST
1	RNA5S10	ENSG00000199910	ENST00000363040	rRNA	KNOWN	None	34371	None	None	228766137	228766255	-1	RN5S10	None
10	HMGA1P5	ENSG00000233313	ENST00000412453	processed_pseudogene	KNOWN	None	19120	None	None	77036134	77036404	-1	HMGA1L5	None
12	None	ENSG00000256020	ENST00000538943	sense_intronic	KNOWN	None	None	None	None	695031	695652	-1	None	None
2	None	ENSG00000144158	ENST00000272567	processed_pseudogene	KNOWN	None	None	None	None	114415485	114416252	1	None	None
8	None	ENSG00000254102	ENST00000520834	antisense	KNOWN	None	None	None	None	65486863	65489820	-1	None	None
8	None	ENSG00000254102	ENST00000517909	antisense	KNOWN	None	None	None	None	65486868	65494445	-1	None	None
1	RNA5SP55	ENSG00000252510	ENST00000516701	rRNA	KNOWN	None	42832	None	None	117504969	117505093	-1	RN5S55	None
2	None	ENSG00000224585	ENST00000429316	unprocessed_pseudogene	KNOWN	None	None	None	None	95637699	95637912	-1	None	None
1	None	ENSG00000206692	ENST00000383965	misc_RNA	NOVEL	None	None	None	None	171223045	171223161	-1	None	None
14	MED15P1	ENSG00000257853	ENST00000548141	transcribed_unprocessed_pseudogene	KNOWN	None	19271	None	None	19498565	19502394	-1	PCQAPP, MED15P	None
14	MED15P1	ENSG00000257853	ENST00000552968	processed_transcript	KNOWN	None	19271	None	None	19499846	19502296	-1	PCQAPP, MED15P	None
12	None	ENSG00000265430	ENST00000578302	miRNA	NOVEL	None	None	None	None	59921958	59922049	-1	None	None
11	None	ENSG00000211499	ENST00000390165	miRNA	NOVEL	None	None	None	None	29298236	29298352	1	None	None
1	RNA5S11	ENSG00000199334	ENST00000362464	rRNA	KNOWN	None	34372	None	None	228768378	228768496	-1	RN5S11	None
1	None	ENSG00000236137	ENST00000445523	antisense	KNOWN	None	None	None	None	117568104	117602112	-1	None	None
1	None	ENSG00000236137	ENST00000421254	antisense	KNOWN	None	None	None	None	117568919	117575143	-1	None	None
1	HMGB1P11	ENSG00000230547	ENST00000413899	processed_pseudogene	KNOWN	None	13316	None	None	171240093	171240729	-1	HMGB1L11	None
3	None	ENSG00000238701	ENST00000459132	snoRNA	NOVEL	None	None	None	None	131999462	131999522	1	None	None
10	None	ENSG00000270087	ENST00000418818	lincRNA	KNOWN	None	None	None	None	77039484	77161004	-1	None	None
10	None	ENSG00000270087	ENST00000445450	lincRNA	KNOWN	None	None	None	None	77039489	77043104	-1	None	None
20	None	ENSG00000259456	ENST00000558899	antisense	KNOWN	None	None	None	None	49547521	49561671	1	None	None
11	None	ENSG00000254530	ENST00000525097	lincRNA	KNOWN	None	None	None	None	29357425	29615842	-1	None	None
11	None	ENSG00000254530	ENST00000528553	lincRNA	KNOWN	None	None	None	None	29357445	29371896	-1	None	None
3	ST13P14	ENSG00000240959	ENST00000474095	processed_pseudogene	KNOWN	None	38849	None	None	50914143	50915088	-1	None	None
2	IGKV1-5	ENSG00000243466	ENST00000496168	IG_V_gene	KNOWN	None	5741	351	116	89246819	89247475	-1	None	None
12	RNU4-20P	ENSG00000202471	ENST00000365601	snRNA	KNOWN	None	46956	None	None	59980574	59980724	-1	None	None
1	RNA5S12	ENSG00000199270	ENST00000362400	rRNA	KNOWN	None	34373	None	None	228770618	228770736	-1	RN5S12	None
11	RNU6-1182P	ENSG00000252703	ENST00000516894	snRNA	KNOWN	None	48145	None	None	132395703	132395781	1	None	None
3	None	ENSG00000240890	ENST00000468439	processed_pseudogene	KNOWN	None	None	None	None	132105366	132107918	1	None	None
1	None	ENSG00000225704	ENST00000450334	processed_pseudogene	KNOWN	None	None	None	None	171314228	171314459	1	None	None
6	ATP5F1P6	ENSG00000219806	ENST00000402768	processed_pseudogene	KNOWN	None	39747	None	None	139935575	139936341	-1	None	None
2	None	ENSG00000233447	ENST00000432787	unprocessed_pseudogene	KNOWN	None	None	None	None	95640289	95640583	-1	None	None
1	RNA5S13	ENSG00000202526	ENST00000365656	rRNA	KNOWN	None	34374	None	None	228772843	228772961	-1	RN5S13	None
1	MIR942	ENSG00000215930	ENST00000401111	miRNA	KNOWN	None	33688	None	None	117637265	117637350	1	MIRN942	hsa-mir-942
12	RNU7-103P	ENSG00000238370	ENST00000459238	snRNA	KNOWN	None	45637	None	None	698696	698755	-1	None	None
17	KRT41P	ENSG00000225438	ENST00000393988	unprocessed_pseudogene	KNOWN	None	6457	None	None	39562764	39568027	-1	KRTHAP1	None
2	None	ENSG00000235186	ENST00000415716	unprocessed_pseudogene	KNOWN	None	None	None	None	95657625	95660107	1	None	None
3	ROBO1	ENSG00000169855	ENST00000464233	protein_coding	KNOWN	CCDS54611	10249	4956	1651	78646391	79816965	-1	None	DUTT1, FLJ21882, SAX3
3	ROBO1	ENSG00000169855	ENST00000495273	protein_coding	KNOWN	CCDS46872	10249	4821	1606	78647838	79068165	-1	None	DUTT1, FLJ21882, SAX3
3	ROBO1	ENSG00000169855	ENST00000467549	protein_coding	KNOWN	CCDS54610	10249	4656	1551	78647961	79067694	-1	None	DUTT1, FLJ21882, SAX3
3	ROBO1	ENSG00000169855	ENST00000466906	processed_transcript	KNOWN	None	10249	None	None	78649263	78656439	-1	None	DUTT1, FLJ21882, SAX3
3	ROBO1	ENSG00000169855	ENST00000498428	retained_intron	KNOWN	None	10249	None	None	78655958	78719690	-1	None	DUTT1, FLJ21882, SAX3
3	ROBO1	ENSG00000169855	ENST00000472273	protein_coding	PUTATIVE	None	10249	569	188	78676557	78683730	-1	None	DUTT1, FLJ21882, SAX3
3	ROBO1	ENSG00000169855	ENST00000484514	retained_intron	KNOWN	None	10249	None	None	78709089	78764407	-1	None	DUTT1, FLJ21882, SAX3
3	ROBO1	ENSG00000169855	ENST00000495961	protein_coding	PUTATIVE	None	10249	577	191	78717033	78719392	-1	None	DUTT1, FLJ21882, SAX3
3	ROBO1	ENSG00000169855	ENST00000488735	retained_intron	KNOWN	None	10249	None	None	78742038	78763670	-1	None	DUTT1, FLJ21882, SAX3
3	ROBO1	ENSG00000169855	ENST00000492990	nonsense_mediated_decay	KNOWN	None	10249	126	41	79561955	79639092	-1	None	DUTT1, FLJ21882, SAX3
3	ROBO1	ENSG00000169855	ENST00000436010	protein_coding	KNOWN	None	10249	4839	1612	78646390	79068609	-1	None	DUTT1, FLJ21882, SAX3
X	None	ENSG00000237903	ENST00000414435	sense_intronic	KNOWN	None	None	None	None	118556880	118557510	1	None	None
11	OPCML-IT2	ENSG00000255371	ENST00000533260	sense_intronic	KNOWN	None	41365	None	None	132729140	132729972	-1	None	None
7	RNU6-956P	ENSG00000239030	ENST00000458868	snRNA	KNOWN	None	47919	None	None	94341721	94341823	1	None	None
3	NPM1P23	ENSG00000242109	ENST00000440193	transcribed_processed_pseudogene	KNOWN	None	44513	None	None	24138003	24138851	-1	None	None
6	KIAA1244	ENSG00000112379	ENST00000251691	protein_coding	KNOWN	CCDS5189	21213	6534	2177	138483058	138665800	1	C6orf92	dJ171N11.1, BIG3, PPP1R33
1	TOP1P1	ENSG00000268062	ENST00000599419	processed_pseudogene	KNOWN	None	11987	None	None	171314244	171314446	-1	None	None
1	C1orf170	ENSG00000187642	ENST00000341290	protein_coding	PUTATIVE	None	28208	2031	676	910584	917473	-1	None	MGC13275, RP11-54O7.8
1	C1orf170	ENSG00000187642	ENST00000479361	retained_intron	KNOWN	None	28208	None	None	910585	912021	-1	None	MGC13275, RP11-54O7.8
1	C1orf170	ENSG00000187642	ENST00000433179	protein_coding	KNOWN	None	28208	2091	696	910579	917497	-1	None	MGC13275, RP11-54O7.8
7	ATP5F1P2	ENSG00000214342	ENST00000398143	processed_pseudogene	KNOWN	None	39743	None	None	94367964	94368723	1	None	None
Y	DUX4L19	ENSG00000258991	ENST00000557448	unprocessed_pseudogene	KNOWN	None	37718	None	None	13488005	13489271	1	None	DUXY4
6	None	ENSG00000205695	ENST00000381279	processed_pseudogene	KNOWN	None	None	None	None	139981065	139982650	1	None	None
1	RNA5S14	ENSG00000201355	ENST00000364485	rRNA	KNOWN	None	34375	None	None	228775084	228775202	-1	RN5S14	None
12	None	ENSG00000198134	ENST00000539347	processed_pseudogene	KNOWN	None	None	None	None	12264097	12264423	1	None	None
12	None	ENSG00000198134	ENST00000358818	pseudogene	KNOWN	None	None	None	None	12264097	12264422	1	None	None
6	CDC40	ENSG00000168438	ENST00000606893	retained_intron	KNOWN	None	17350	None	None	110501344	110551536	1	None	PRP17, EHB3, PRPF17, FLJ10564
6	CDC40	ENSG00000168438	ENST00000368932	protein_coding	KNOWN	CCDS5081	17350	1740	579	110501344	110553420	1	None	PRP17, EHB3, PRPF17, FLJ10564
6	CDC40	ENSG00000168438	ENST00000368933	protein_coding	NOVEL	None	17350	1620	539	110501344	110575478	1	None	PRP17, EHB3, PRPF17, FLJ10564
6	CDC40	ENSG00000168438	ENST00000368930	protein_coding	NOVEL	None	17350	1620	539	110501624	110575478	1	None	PRP17, EHB3, PRPF17, FLJ10564
6	CDC40	ENSG00000168438	ENST00000453107	processed_transcript	KNOWN	None	17350	None	None	110520178	110530315	1	None	PRP17, EHB3, PRPF17, FLJ10564
6	CDC40	ENSG00000168438	ENST00000431461	retained_intron	KNOWN	None	17350	None	None	110522808	110530519	1	None	PRP17, EHB3, PRPF17, FLJ10564
6	CDC40	ENSG00000168438	ENST00000445340	processed_transcript	KNOWN	None	17350	None	None	110545499	110552874	1	None	PRP17, EHB3, PRPF17, FLJ10564
6	CDC40	ENSG00000168438	ENST00000307731	protein_coding	KNOWN	CCDS5081	17350	1740	579	110501624	110553418	1	None	PRP17, EHB3, PRPF17, FLJ10564
15	None	ENSG00000271195	ENST00000604770	processed_pseudogene	KNOWN	None	None	None	None	61966966	61967411	1	None	None
8	None	ENSG00000254311	ENST00000520330	processed_pseudogene	KNOWN	None	None	None	None	7974267	7974471	-1	None	None
1	None	ENSG00000228453	ENST00000439856	processed_pseudogene	KNOWN	None	None	None	None	117680851	117681231	1	None	None
12	None	ENSG00000257146	ENST00000550105	processed_pseudogene	KNOWN	None	None	None	None	60113479	60113725	-1	None	None
2	RN7SL575P	ENSG00000242822	ENST00000490287	misc_RNA	KNOWN	None	46591	None	None	95669292	95669588	-1	None	None
22	ANKRD54	ENSG00000100124	ENST00000215941	protein_coding	KNOWN	CCDS13959	25185	903	300	38226862	38240438	-1	None	LIAR
22	ANKRD54	ENSG00000100124	ENST00000498417	processed_transcript	KNOWN	None	25185	None	None	38226863	38230735	-1	None	LIAR
22	ANKRD54	ENSG00000100124	ENST00000406423	protein_coding	PUTATIVE	None	25185	543	180	38227832	38239889	-1	None	LIAR
22	ANKRD54	ENSG00000100124	ENST00000411961	protein_coding	NOVEL	None	25185	855	284	38227942	38240328	-1	None	LIAR
22	ANKRD54	ENSG00000100124	ENST00000458278	protein_coding	KNOWN	None	25185	623	206	38227977	38240013	-1	None	LIAR
22	ANKRD54	ENSG00000100124	ENST00000407117	nonsense_mediated_decay	KNOWN	None	25185	468	155	38227986	38240177	-1	None	LIAR
22	ANKRD54	ENSG00000100124	ENST00000464849	processed_transcript	KNOWN	None	25185	None	None	38228683	38236241	-1	None	LIAR
22	ANKRD54	ENSG00000100124	ENST00000413497	nonsense_mediated_decay	KNOWN	None	25185	536	177	38229000	38240283	-1	None	LIAR
22	ANKRD54	ENSG00000100124	ENST00000424350	protein_coding	PUTATIVE	None	25185	270	89	38229016	38239889	-1	None	LIAR
22	ANKRD54	ENSG00000100124	ENST00000434930	protein_coding	PUTATIVE	None	25185	650	215	38229048	38240330	-1	None	LIAR
12	None	ENSG00000255825	ENST00000538067	antisense	KNOWN	None	None	None	None	699799	700435	1	None	None
10	ZNF365	ENSG00000138311	ENST00000395254	protein_coding	KNOWN	CCDS31209	18194	1224	407	64133951	64162217	1	None	KIAA0844, UAN
10	ZNF365	ENSG00000138311	ENST00000395255	protein_coding	KNOWN	CCDS41531	18194	1002	333	64133951	64240047	1	None	KIAA0844, UAN
10	ZNF365	ENSG00000138311	ENST00000410046	protein_coding	KNOWN	CCDS7264	18194	1389	462	64133951	64431771	1	None	KIAA0844, UAN
10	ZNF365	ENSG00000138311	ENST00000466727	processed_transcript	KNOWN	None	18194	None	None	64134112	64162217	1	None	KIAA0844, UAN
10	ZNF365	ENSG00000138311	ENST00000421210	protein_coding	KNOWN	None	18194	159	52	64135303	64136111	1	None	KIAA0844, UAN
10	ZNF365	ENSG00000138311	ENST00000395251	protein_coding	KNOWN	CCDS7265	18194	651	216	64280207	64431771	1	None	KIAA0844, UAN
10	ZNF365	ENSG00000138311	ENST00000395249	protein_coding	PUTATIVE	None	18194	207	68	64403533	64430134	1	None	KIAA0844, UAN
10	ZNF365	ENSG00000138311	ENST00000373784	nonsense_mediated_decay	KNOWN	None	18194	198	65	64403533	64430134	1	None	KIAA0844, UAN
10	ZNF365	ENSG00000138311	ENST00000344640	nonsense_mediated_decay	KNOWN	None	18194	198	65	64403533	64430134	1	None	KIAA0844, UAN
10	ZNF365	ENSG00000138311	ENST00000461412	processed_transcript	KNOWN	None	18194	None	None	64403631	64419032	1	None	KIAA0844, UAN
8	None	ENSG00000221027	ENST00000408100	miRNA	NOVEL	None	None	None	None	7996350	7996453	-1	None	None
X	None	ENSG00000235592	ENST00000458400	unprocessed_pseudogene	KNOWN	None	None	None	None	13346056	13347986	1	None	None
2	None	ENSG00000233850	ENST00000448734	antisense	KNOWN	None	None	None	None	95690938	95692454	-1	None	None
15	None	ENSG00000259284	ENST00000561386	lincRNA	KNOWN	None	None	None	None	62022049	62023588	1	None	None
X	RNU1-67P	ENSG00000207175	ENST00000384446	snRNA	KNOWN	None	48409	None	None	118557705	118557868	1	None	None
1	RNA5S15	ENSG00000201925	ENST00000365055	rRNA	KNOWN	None	34376	None	None	228777315	228777433	-1	RN5S15	None
1	GM2AP2	ENSG00000239428	ENST00000491764	processed_pseudogene	KNOWN	None	38002	None	None	171361368	171361929	1	None	None
11	None	ENSG00000254749	ENST00000532527	processed_pseudogene	KNOWN	None	None	None	None	57713070	57713886	-1	None	None
1	None	ENSG00000235202	ENST00000442182	lincRNA	KNOWN	None	None	None	None	117838142	117863958	1	None	None
8	ENPP7P1	ENSG00000249188	ENST00000509557	unprocessed_pseudogene	KNOWN	None	48699	None	None	8011830	8074438	1	None	None
20	None	ENSG00000265582	ENST00000584882	miRNA	NOVEL	None	None	None	None	49555183	49555269	1	None	None
3	RPL31P20	ENSG00000229756	ENST00000449593	processed_pseudogene	KNOWN	None	36303	None	None	24472239	24472598	1	None	None
2	None	ENSG00000231062	ENST00000442200	antisense	KNOWN	None	None	None	None	95717140	95718921	-1	None	None
20	SAMHD1	ENSG00000101347	ENST00000262878	protein_coding	KNOWN	CCDS13288	15925	1881	626	35518632	35580246	-1	None	SBBI88, Mg11, HDDC1, MOP-5, AGS5
20	SAMHD1	ENSG00000101347	ENST00000465985	retained_intron	KNOWN	None	15925	None	None	35525971	35533797	-1	None	SBBI88, Mg11, HDDC1, MOP-5, AGS5
20	SAMHD1	ENSG00000101347	ENST00000373694	protein_coding	KNOWN	None	15925	513	170	35540751	35580111	-1	None	SBBI88, Mg11, HDDC1, MOP-5, AGS5
11	OPCML-IT1	ENSG00000254896	ENST00000533859	sense_intronic	KNOWN	None	41366	None	None	133229924	133235975	-1	None	None
1	RNA5S16	ENSG00000202257	ENST00000365387	rRNA	KNOWN	None	34377	None	None	228779556	228779674	-1	RN5S16	None
17	C17orf74	ENSG00000184560	ENST00000333870	protein_coding	KNOWN	CCDS42255	27315	1506	501	7328934	7330887	1	None	None
17	C17orf74	ENSG00000184560	ENST00000574034	protein_coding	PUTATIVE	None	27315	378	125	7328960	7330887	1	None	None
2	IGKV1-6	ENSG00000239855	ENST00000464162	IG_V_gene	KNOWN	None	5742	351	116	89265781	89266286	-1	None	None
12	None	ENSG00000242405	ENST00000472093	processed_pseudogene	KNOWN	None	None	None	None	12308196	12308706	1	None	None
7	GRPEL2P3	ENSG00000230682	ENST00000448626	processed_pseudogene	KNOWN	None	41971	None	None	94412198	94412837	1	None	None
3	THRB-IT1	ENSG00000224822	ENST00000425296	sense_intronic	KNOWN	None	41390	None	None	24496627	24500925	-1	None	None
3	MLF1	ENSG00000178053	ENST00000491767	protein_coding	PUTATIVE	None	7125	575	190	158288952	158322981	1	None	None
3	MLF1	ENSG00000178053	ENST00000355893	protein_coding	KNOWN	CCDS3182	7125	807	268	158288952	158324249	1	None	None
3	MLF1	ENSG00000178053	ENST00000484955	protein_coding	PUTATIVE	CCDS46945	7125	732	243	158288962	158323186	1	None	None
3	MLF1	ENSG00000178053	ENST00000359117	protein_coding	PUTATIVE	CCDS46945	7125	732	243	158288973	158324245	1	None	None
3	MLF1	ENSG00000178053	ENST00000498592	protein_coding	PUTATIVE	None	7125	566	187	158288980	158320728	1	None	None
3	MLF1	ENSG00000178053	ENST00000477042	protein_coding	PUTATIVE	None	7125	524	173	158288983	158317948	1	None	None
3	MLF1	ENSG00000178053	ENST00000495452	nonsense_mediated_decay	KNOWN	None	7125	153	50	158288983	158317964	1	None	None
3	MLF1	ENSG00000178053	ENST00000471745	protein_coding	PUTATIVE	CCDS56287	7125	777	258	158288983	158323181	1	None	None
3	MLF1	ENSG00000178053	ENST00000497004	processed_transcript	KNOWN	None	7125	None	None	158288983	158325041	1	None	None
3	MLF1	ENSG00000178053	ENST00000469452	protein_coding	PUTATIVE	CCDS56288	7125	603	200	158288984	158323188	1	None	None
3	MLF1	ENSG00000178053	ENST00000482628	protein_coding	PUTATIVE	CCDS46945	7125	732	243	158288999	158323007	1	None	None
3	MLF1	ENSG00000178053	ENST00000478894	protein_coding	PUTATIVE	CCDS56287	7125	777	258	158289043	158323190	1	None	None
3	MLF1	ENSG00000178053	ENST00000487838	nonsense_mediated_decay	KNOWN	None	7125	123	40	158289050	158315949	1	None	None
3	MLF1	ENSG00000178053	ENST00000466246	protein_coding	NOVEL	None	7125	613	203	158289050	158317962	1	None	None
3	MLF1	ENSG00000178053	ENST00000392822	protein_coding	KNOWN	CCDS56286	7125	900	299	158289049	158323190	1	None	None
X	None	ENSG00000226985	ENST00000419566	lincRNA	KNOWN	None	None	None	None	13353360	13359944	1	None	None
X	None	ENSG00000226985	ENST00000456091	lincRNA	KNOWN	None	None	None	None	13354500	13391753	1	None	None
1	RNU6-290P	ENSG00000202082	ENST00000365212	snRNA	KNOWN	None	47253	None	None	171387783	171387889	-1	None	None
2	None	ENSG00000233757	ENST00000425953	lincRNA	KNOWN	None	None	None	None	95873283	95880597	1	None	None
2	None	ENSG00000233757	ENST00000444043	lincRNA	KNOWN	None	None	None	None	95880039	95881351	1	None	None
20	None	ENSG00000232358	ENST00000424566	antisense	KNOWN	None	None	None	None	49615907	49626556	1	None	None
1	None	ENSG00000234333	ENST00000455540	processed_pseudogene	KNOWN	None	None	None	None	171413838	171414102	-1	None	None
2	EHD3	ENSG00000013016	ENST00000322054	protein_coding	KNOWN	CCDS1774	3244	1608	535	31457203	31492313	1	PAST3	None
2	EHD3	ENSG00000013016	ENST00000541626	protein_coding	KNOWN	None	3244	528	175	31456880	31491260	1	PAST3	None
1	RNA5S17	ENSG00000200370	ENST00000363500	rRNA	KNOWN	None	34378	None	None	228781787	228781905	-1	RN5S17	None
11	None	ENSG00000255281	ENST00000265458	processed_pseudogene	KNOWN	None	None	None	None	29413072	29415391	1	None	None
17	KRT43P	ENSG00000236473	ENST00000434019	unprocessed_pseudogene	KNOWN	None	48870	None	None	39604435	39610307	-1	None	None
6	None	ENSG00000231426	ENST00000414038	lincRNA	KNOWN	None	None	None	None	140175987	140180945	1	None	None
6	None	ENSG00000231426	ENST00000431609	lincRNA	KNOWN	None	None	None	None	140176056	140181288	1	None	None
3	None	ENSG00000270692	ENST00000605061	processed_pseudogene	KNOWN	None	None	None	None	51469985	51470468	1	None	None
5	None	ENSG00000226400	ENST00000412374	processed_pseudogene	KNOWN	None	None	None	None	28927136	28927391	1	None	None
X	None	ENSG00000264952	ENST00000580102	miRNA	NOVEL	None	None	None	None	118558028	118558079	1	None	None
1	None	ENSG00000271427	ENST00000604156	lincRNA	KNOWN	None	None	None	None	117907521	117908095	-1	None	None
1	RNA5SP18	ENSG00000212237	ENST00000390935	rRNA	KNOWN	None	42586	None	None	228783659	228783779	-1	RN5S18	None
11	None	ENSG00000254601	ENST00000534107	processed_pseudogene	KNOWN	None	None	None	None	57772858	57773177	1	None	None
X	RN7SL118P	ENSG00000266420	ENST00000580570	misc_RNA	KNOWN	None	46134	None	None	118568482	118568781	1	None	None
19	KISS1R	ENSG00000116014	ENST00000592648	protein_coding	NOVEL	None	4510	291	96	917287	919536	1	GPR54	HOT7T175, AXOR12
19	KISS1R	ENSG00000116014	ENST00000234371	protein_coding	KNOWN	CCDS12049	4510	1197	398	917350	921015	1	GPR54	HOT7T175, AXOR12
19	KISS1R	ENSG00000116014	ENST00000606939	protein_coding	NOVEL	None	4510	681	226	917503	920710	1	GPR54	HOT7T175, AXOR12
16	IGHV3OR16-15	ENSG00000261834	ENST00000565463	IG_V_pseudogene	KNOWN	None	5639	None	None	32914763	32915215	1	None	IGHV3/OR16-15
1	None	ENSG00000238859	ENST00000459496	snoRNA	NOVEL	None	None	None	None	171451046	171451148	1	None	None
1	VPS25P1	ENSG00000226755	ENST00000455691	processed_pseudogene	KNOWN	None	44250	None	None	118092037	118092544	1	None	None
8	FAM85B	ENSG00000253893	ENST00000519726	antisense	KNOWN	None	32160	None	None	8025341	8084136	-1	None	None
1	DUSP5P1	ENSG00000183929	ENST00000441325	processed_pseudogene	KNOWN	None	32020	None	None	228785988	228787126	1	DUSP5P	FLJ34941
1	DUSP5P1	ENSG00000183929	ENST00000327449	processed_pseudogene	KNOWN	None	32020	None	None	228744885	228788150	1	DUSP5P	FLJ34941
4	None	ENSG00000249152	ENST00000502518	lincRNA	KNOWN	None	None	None	None	93189918	93198226	-1	None	None
1	RN7SL425P	ENSG00000239373	ENST00000461095	misc_RNA	KNOWN	None	46441	None	None	171461550	171461858	1	None	None
5	SUCLG2P4	ENSG00000249226	ENST00000514739	processed_pseudogene	KNOWN	None	43999	None	None	29001867	29003464	1	None	None
2	None	ENSG00000175509	ENST00000419351	processed_pseudogene	KNOWN	None	None	None	None	114425055	114426198	-1	None	None
4	SEC24B	ENSG00000138802	ENST00000504968	protein_coding	NOVEL	None	10704	3897	1298	110354928	110460902	1	None	None
4	SEC24B	ENSG00000138802	ENST00000399100	protein_coding	KNOWN	CCDS43260	10704	3702	1233	110354969	110460852	1	None	None
4	SEC24B	ENSG00000138802	ENST00000265175	protein_coding	KNOWN	CCDS47124	10704	3807	1268	110354971	110462052	1	None	None
1	RNU6-773P	ENSG00000201126	ENST00000364256	snRNA	KNOWN	None	47736	None	None	171488955	171489052	-1	None	None
7	None	ENSG00000234312	ENST00000424595	processed_pseudogene	KNOWN	None	None	None	None	62574013	62575183	-1	None	None
12	None	ENSG00000248594	ENST00000507132	pseudogene	NOVEL	None	None	None	None	112277571	112279211	-1	None	None
1	None	ENSG00000244531	ENST00000483518	antisense	KNOWN	None	None	None	None	171591383	171595732	1	None	None
20	None	ENSG00000248832	ENST00000506387	processed_transcript	KNOWN	None	None	None	None	49620194	49624577	-1	None	None
2	None	ENSG00000233479	ENST00000439382	lincRNA	KNOWN	None	None	None	None	114426743	114430768	1	None	None
12	RNA5SP360	ENSG00000252364	ENST00000516555	rRNA	KNOWN	None	43260	None	None	42052478	42052595	1	RN5S360	None
X	None	ENSG00000252147	ENST00000516338	misc_RNA	NOVEL	None	None	None	None	118590521	118590621	1	None	None
12	None	ENSG00000177406	ENST00000537514	antisense	KNOWN	None	None	None	None	740057	755044	1	None	None
12	None	ENSG00000177406	ENST00000543884	antisense	KNOWN	None	None	None	None	751840	772872	1	None	None
12	None	ENSG00000177406	ENST00000318291	antisense	KNOWN	None	None	None	None	752147	754581	1	None	None
16	IGHV3OR16-6	ENSG00000270864	ENST00000568775	IG_V_pseudogene	KNOWN	None	5641	None	None	32926395	32926857	1	None	IGHV3/OR16-6
Y	PABPC1P5	ENSG00000270455	ENST00000603738	processed_pseudogene	KNOWN	None	37985	None	None	13491303	13493369	1	None	None
17	KIF19	ENSG00000196169	ENST00000551294	protein_coding	NOVEL	None	26735	1840	612	72322349	72348465	1	None	FLJ37300, KIF19A
17	KIF19	ENSG00000196169	ENST00000389916	protein_coding	KNOWN	CCDS32718	26735	2997	998	72322351	72351959	1	None	FLJ37300, KIF19A
17	KIF19	ENSG00000196169	ENST00000551017	retained_intron	KNOWN	None	26735	None	None	72322365	72325605	1	None	FLJ37300, KIF19A
17	KIF19	ENSG00000196169	ENST00000359939	retained_intron	KNOWN	None	26735	None	None	72322370	72347484	1	None	FLJ37300, KIF19A
17	KIF19	ENSG00000196169	ENST00000547389	retained_intron	KNOWN	None	26735	None	None	72322396	72347458	1	None	FLJ37300, KIF19A
17	KIF19	ENSG00000196169	ENST00000549637	retained_intron	KNOWN	None	26735	None	None	72344729	72346620	1	None	FLJ37300, KIF19A
2	FABP7P2	ENSG00000235129	ENST00000429946	processed_pseudogene	KNOWN	None	41952	None	None	96034255	96034633	-1	None	None
10	None	ENSG00000215033	ENST00000335083	protein_coding	NOVEL	None	None	486	161	47746962	47770871	1	None	None
12	MTND2P17	ENSG00000258239	ENST00000550281	unprocessed_pseudogene	KNOWN	None	42118	None	None	42092297	42092984	-1	None	None
1	None	ENSG00000236866	ENST00000440801	antisense	KNOWN	None	None	None	None	118139454	118148333	-1	None	None
1	None	ENSG00000236866	ENST00000425010	antisense	KNOWN	None	None	None	None	118146621	118148392	-1	None	None
1	None	ENSG00000236866	ENST00000456126	antisense	KNOWN	None	None	None	None	118147246	118148307	-1	None	None
1	None	ENSG00000206878	ENST00000384151	snoRNA	NOVEL	None	None	None	None	228788183	228788307	1	None	None
3	RNU6ATAC29P	ENSG00000221015	ENST00000408088	snRNA	KNOWN	None	46928	None	None	51645454	51645578	-1	None	None
11	TEAD1	ENSG00000187079	ENST00000527636	protein_coding	KNOWN	CCDS7810	11714	1281	426	12696138	12959581	1	TCF13, AA	TEF-1
11	TEAD1	ENSG00000187079	ENST00000527376	protein_coding	KNOWN	None	11714	205	67	12696164	12785984	1	TCF13, AA	TEF-1
11	TEAD1	ENSG00000187079	ENST00000527575	protein_coding	NOVEL	None	11714	1107	368	12697050	12960612	1	TCF13, AA	TEF-1
11	TEAD1	ENSG00000187079	ENST00000525312	retained_intron	KNOWN	None	11714	None	None	12849668	12887086	1	TCF13, AA	TEF-1
11	TEAD1	ENSG00000187079	ENST00000526600	protein_coding	PUTATIVE	None	11714	993	330	12900990	12966030	1	TCF13, AA	TEF-1
11	TEAD1	ENSG00000187079	ENST00000361985	protein_coding	KNOWN	CCDS7810	11714	1281	426	12766588	12965490	1	TCF13, AA	TEF-1
11	TEAD1	ENSG00000187079	ENST00000361905	protein_coding	KNOWN	None	11714	1236	411	12695969	12966298	1	TCF13, AA	TEF-1
11	TEAD1	ENSG00000187079	ENST00000334310	protein_coding	KNOWN	None	11714	1074	357	12697050	12960612	1	TCF13, AA	TEF-1
X	SLC25A5-AS1	ENSG00000224281	ENST00000446986	processed_transcript	KNOWN	None	43438	None	None	118599997	118602225	-1	None	None
X	SLC25A5-AS1	ENSG00000224281	ENST00000445759	processed_transcript	KNOWN	None	43438	None	None	118600387	118603061	-1	None	None
X	SLC25A5-AS1	ENSG00000224281	ENST00000395539	processed_transcript	KNOWN	None	43438	None	None	118599997	118603058	-1	None	None
1	PFN1P1	ENSG00000233328	ENST00000442087	processed_pseudogene	KNOWN	None	42989	None	None	171639657	171640079	-1	None	None
12	RNU6-545P	ENSG00000199551	ENST00000362681	snRNA	KNOWN	None	47508	None	None	12379608	12379711	1	None	None
16	KIAA0895L	ENSG00000196123	ENST00000562514	processed_transcript	PUTATIVE	None	34408	None	None	67209505	67210358	-1	None	LOC653319
16	KIAA0895L	ENSG00000196123	ENST00000561679	protein_coding	KNOWN	None	34408	951	316	67209507	67213455	-1	None	LOC653319
16	KIAA0895L	ENSG00000196123	ENST00000568563	protein_coding	NOVEL	None	34408	616	204	67209507	67213965	-1	None	LOC653319
16	KIAA0895L	ENSG00000196123	ENST00000569349	nonsense_mediated_decay	KNOWN	None	34408	483	160	67209507	67217467	-1	None	LOC653319
16	KIAA0895L	ENSG00000196123	ENST00000561621	protein_coding	KNOWN	None	34408	1227	408	67209507	67217855	-1	None	LOC653319
16	KIAA0895L	ENSG00000196123	ENST00000290881	protein_coding	KNOWN	CCDS42177	34408	1416	471	67209507	67217943	-1	None	LOC653319
16	KIAA0895L	ENSG00000196123	ENST00000563918	processed_transcript	KNOWN	None	34408	None	None	67210553	67213231	-1	None	LOC653319
16	KIAA0895L	ENSG00000196123	ENST00000563902	protein_coding	KNOWN	CCDS42177	34408	1416	471	67210633	67217844	-1	None	LOC653319
16	KIAA0895L	ENSG00000196123	ENST00000563831	processed_transcript	KNOWN	None	34408	None	None	67210674	67217489	-1	None	LOC653319
16	KIAA0895L	ENSG00000196123	ENST00000570009	processed_transcript	KNOWN	None	34408	None	None	67212348	67214258	-1	None	LOC653319
16	KIAA0895L	ENSG00000196123	ENST00000564835	retained_intron	KNOWN	None	34408	None	None	67213021	67213864	-1	None	LOC653319
16	KIAA0895L	ENSG00000196123	ENST00000564423	protein_coding	PUTATIVE	None	34408	160	52	67213333	67217865	-1	None	LOC653319
16	KIAA0895L	ENSG00000196123	ENST00000568165	retained_intron	KNOWN	None	34408	None	None	67213384	67213992	-1	None	LOC653319
2	IGKV3-7	ENSG00000243063	ENST00000390247	IG_V_gene	KNOWN	None	5821	348	115	89277987	89278600	-1	None	None
3	RNA5SP132	ENSG00000201595	ENST00000364725	rRNA	KNOWN	None	43032	None	None	51728481	51728598	-1	RN5S132	None
3	None	ENSG00000242911	ENST00000489238	processed_pseudogene	KNOWN	None	None	None	None	94654604	94654964	-1	None	None
3	EOGT	ENSG00000163378	ENST00000383701	protein_coding	KNOWN	None	28526	1584	527	69024365	69063112	-1	C3orf64	AER61, FLJ33770
3	EOGT	ENSG00000163378	ENST00000295571	protein_coding	KNOWN	CCDS2908	28526	1332	443	69024368	69062774	-1	C3orf64	AER61, FLJ33770
3	EOGT	ENSG00000163378	ENST00000496647	retained_intron	KNOWN	None	28526	None	None	69024383	69050792	-1	C3orf64	AER61, FLJ33770
3	EOGT	ENSG00000163378	ENST00000403140	nonsense_mediated_decay	KNOWN	None	28526	621	206	69026331	69062801	-1	C3orf64	AER61, FLJ33770
3	EOGT	ENSG00000163378	ENST00000480846	retained_intron	KNOWN	None	28526	None	None	69031888	69037010	-1	C3orf64	AER61, FLJ33770
3	EOGT	ENSG00000163378	ENST00000424374	protein_coding	KNOWN	None	28526	396	131	69056888	69062750	-1	C3orf64	AER61, FLJ33770
3	EOGT	ENSG00000163378	ENST00000456376	protein_coding	KNOWN	None	28526	371	122	69056913	69062822	-1	C3orf64	AER61, FLJ33770
3	EOGT	ENSG00000163378	ENST00000540764	protein_coding	KNOWN	None	28526	1281	426	69026419	69057681	-1	C3orf64	AER61, FLJ33770
3	EOGT	ENSG00000163378	ENST00000540955	protein_coding	KNOWN	None	28526	756	251	69026331	69062801	-1	C3orf64	AER61, FLJ33770
2	None	ENSG00000248821	ENST00000512705	unprocessed_pseudogene	KNOWN	None	None	None	None	96079204	96080044	-1	None	None
20	RPSAP1	ENSG00000228820	ENST00000421328	processed_pseudogene	KNOWN	None	16560	None	None	49747325	49748204	-1	LAMR1P, LAMR1P1	dJ1193N1.1
12	MTND1P24	ENSG00000257858	ENST00000552175	unprocessed_pseudogene	KNOWN	None	42073	None	None	42093193	42094053	-1	None	None
16	ABCC6	ENSG00000091262	ENST00000205557	protein_coding	KNOWN	CCDS10568	57	4512	1503	16242785	16317321	-1	ARA, PXE	MRP6, EST349056, MLP1, URG7
16	ABCC6	ENSG00000091262	ENST00000576204	retained_intron	KNOWN	None	57	None	None	16243451	16249633	-1	ARA, PXE	MRP6, EST349056, MLP1, URG7
16	ABCC6	ENSG00000091262	ENST00000456970	nonsense_mediated_decay	KNOWN	None	57	2616	871	16243990	16317291	-1	ARA, PXE	MRP6, EST349056, MLP1, URG7
16	ABCC6	ENSG00000091262	ENST00000576683	retained_intron	KNOWN	None	57	None	None	16266939	16271378	-1	ARA, PXE	MRP6, EST349056, MLP1, URG7
16	ABCC6	ENSG00000091262	ENST00000574094	processed_transcript	KNOWN	None	57	None	None	16275562	16317351	-1	ARA, PXE	MRP6, EST349056, MLP1, URG7
16	ABCC6	ENSG00000091262	ENST00000577103	nonsense_mediated_decay	KNOWN	None	57	249	82	16295857	16317379	-1	ARA, PXE	MRP6, EST349056, MLP1, URG7
16	ABCC6	ENSG00000091262	ENST00000575728	protein_coding	PUTATIVE	CCDS58430	57	300	99	16315044	16317324	-1	ARA, PXE	MRP6, EST349056, MLP1, URG7
12	None	ENSG00000270857	ENST00000604544	processed_pseudogene	KNOWN	None	None	None	None	12401925	12402361	1	None	None
2	None	ENSG00000227359	ENST00000424612	lincRNA	KNOWN	None	None	None	None	114435279	114461655	-1	None	None
2	RNA5SP121	ENSG00000252346	ENST00000516537	rRNA	KNOWN	None	42919	None	None	228627768	228627868	-1	RN5S121	None
19	CD97	ENSG00000123146	ENST00000587728	processed_transcript	KNOWN	None	1711	None	None	14491313	14508616	1	None	TM7LN1
19	CD97	ENSG00000123146	ENST00000358600	protein_coding	KNOWN	CCDS32931	1711	2229	742	14491968	14519087	1	None	TM7LN1
19	CD97	ENSG00000123146	ENST00000587535	retained_intron	KNOWN	None	1711	None	None	14492177	14508182	1	None	TM7LN1
19	CD97	ENSG00000123146	ENST00000587606	protein_coding	PUTATIVE	None	1711	464	153	14492228	14502009	1	None	TM7LN1
19	CD97	ENSG00000123146	ENST00000586517	protein_coding	PUTATIVE	None	1711	470	155	14492228	14508728	1	None	TM7LN1
19	CD97	ENSG00000123146	ENST00000591080	protein_coding	PUTATIVE	None	1711	448	148	14492230	14502304	1	None	TM7LN1
19	CD97	ENSG00000123146	ENST00000357355	protein_coding	KNOWN	CCDS32930	1711	2361	786	14492247	14519537	1	None	TM7LN1
19	CD97	ENSG00000123146	ENST00000592261	protein_coding	PUTATIVE	None	1711	493	163	14492256	14508035	1	None	TM7LN1
19	CD97	ENSG00000123146	ENST00000242786	protein_coding	KNOWN	CCDS32929	1711	2508	835	14492256	14519533	1	None	TM7LN1
19	CD97	ENSG00000123146	ENST00000591737	retained_intron	KNOWN	None	1711	None	None	14507062	14508723	1	None	TM7LN1
19	CD97	ENSG00000123146	ENST00000593028	retained_intron	KNOWN	None	1711	None	None	14508226	14508792	1	None	TM7LN1
19	CD97	ENSG00000123146	ENST00000586849	retained_intron	KNOWN	None	1711	None	None	14508292	14512315	1	None	TM7LN1
19	CD97	ENSG00000123146	ENST00000590567	retained_intron	KNOWN	None	1711	None	None	14508545	14509080	1	None	TM7LN1
19	CD97	ENSG00000123146	ENST00000587319	retained_intron	KNOWN	None	1711	None	None	14508545	14509088	1	None	TM7LN1
19	CD97	ENSG00000123146	ENST00000592341	retained_intron	KNOWN	None	1711	None	None	14508545	14509147	1	None	TM7LN1
19	CD97	ENSG00000123146	ENST00000591565	retained_intron	KNOWN	None	1711	None	None	14515182	14516417	1	None	TM7LN1
X	HNRNPA1P26	ENSG00000239345	ENST00000457695	processed_pseudogene	KNOWN	None	39544	None	None	100110277	100111368	-1	None	None
1	RPL4P3	ENSG00000230364	ENST00000428881	processed_pseudogene	KNOWN	None	35773	None	None	171652268	171653578	-1	None	None
2	None	ENSG00000233275	ENST00000431026	processed_pseudogene	KNOWN	None	None	None	None	96100507	96100861	1	None	None
2	RNU6-744P	ENSG00000202427	ENST00000365557	snRNA	KNOWN	None	47707	None	None	114438688	114438794	1	None	None
2	SNRPGP8	ENSG00000226718	ENST00000454064	processed_pseudogene	KNOWN	None	39327	None	None	228643226	228643451	-1	None	None
3	WDR82P1	ENSG00000234629	ENST00000439836	processed_pseudogene	KNOWN	None	32447	None	None	94655930	94656868	-1	WDR82	SW2, hCG26824, WDR82B
2	None	ENSG00000227120	ENST00000442165	processed_pseudogene	KNOWN	None	None	None	None	96101881	96102304	1	None	None
3	None	ENSG00000224792	ENST00000433169	processed_transcript	KNOWN	None	None	None	None	51851619	51853361	1	None	None
3	None	ENSG00000224792	ENST00000441610	retained_intron	KNOWN	None	None	None	None	51851620	51852330	1	None	None
3	None	ENSG00000224792	ENST00000414493	processed_transcript	KNOWN	None	None	None	None	51851631	51852355	1	None	None
3	None	ENSG00000224792	ENST00000422896	processed_transcript	KNOWN	None	None	None	None	51852048	51853651	1	None	None
3	None	ENSG00000224792	ENST00000428561	transcribed_processed_pseudogene	KNOWN	None	None	None	None	51853216	51853635	1	None	None
2	IGKV1-8	ENSG00000240671	ENST00000495489	IG_V_gene	KNOWN	None	5743	345	114	89291928	89292450	-1	None	IGKV18, L9
1	None	ENSG00000232261	ENST00000413827	unprocessed_pseudogene	KNOWN	None	None	None	None	171720683	171721165	-1	None	None
3	THRB-AS1	ENSG00000228791	ENST00000432368	lincRNA	KNOWN	None	44515	None	None	24535578	24541833	1	None	None
3	THRB-AS1	ENSG00000228791	ENST00000438096	lincRNA	KNOWN	None	44515	None	None	24535799	24538672	1	None	None
3	THRB-AS1	ENSG00000228791	ENST00000594183	lincRNA	KNOWN	None	44515	None	None	24540116	24541109	1	None	None
X	HNRNPA1P27	ENSG00000233680	ENST00000412087	processed_pseudogene	KNOWN	None	39545	None	None	100142625	100143579	-1	None	None
2	UBTFL5	ENSG00000204705	ENST00000443682	unprocessed_pseudogene	KNOWN	None	35405	None	None	96116058	96117248	-1	None	None
2	UBTFL5	ENSG00000204705	ENST00000377176	unprocessed_pseudogene	KNOWN	None	35405	None	None	96111911	96122840	-1	None	None
3	C3orf14	ENSG00000114405	ENST00000462069	protein_coding	KNOWN	CCDS2896	25024	387	128	62304648	62319101	1	None	HT021
3	C3orf14	ENSG00000114405	ENST00000486169	processed_transcript	KNOWN	None	25024	None	None	62304690	62309808	1	None	HT021
3	C3orf14	ENSG00000114405	ENST00000232519	protein_coding	KNOWN	CCDS2896	25024	387	128	62304697	62319321	1	None	HT021
3	C3orf14	ENSG00000114405	ENST00000465142	protein_coding	KNOWN	None	25024	188	61	62304707	62317010	1	None	HT021
3	C3orf14	ENSG00000114405	ENST00000494481	protein_coding	KNOWN	CCDS2896	25024	387	128	62304718	62321888	1	None	HT021
3	C3orf14	ENSG00000114405	ENST00000491323	retained_intron	KNOWN	None	25024	None	None	62304747	62308194	1	None	HT021
3	C3orf14	ENSG00000114405	ENST00000542214	protein_coding	KNOWN	CCDS2896	25024	387	128	62305396	62319318	1	None	HT021
11	MIR3161	ENSG00000263693	ENST00000577977	miRNA	KNOWN	None	38285	None	None	48118334	48118410	1	None	hsa-mir-3161
8	FAM86B3P	ENSG00000173295	ENST00000522601	processed_transcript	KNOWN	None	44371	None	None	8086117	8102387	1	None	None
8	FAM86B3P	ENSG00000173295	ENST00000588728	processed_transcript	KNOWN	None	44371	None	None	8086122	8097552	1	None	None
8	FAM86B3P	ENSG00000173295	ENST00000523992	transcribed_unprocessed_pseudogene	KNOWN	None	44371	None	None	8086127	8094763	1	None	None
8	FAM86B3P	ENSG00000173295	ENST00000591069	processed_transcript	KNOWN	None	44371	None	None	8093733	8101818	1	None	None
8	FAM86B3P	ENSG00000173295	ENST00000590591	processed_transcript	KNOWN	None	44371	None	None	8094730	8096448	1	None	None
8	FAM86B3P	ENSG00000173295	ENST00000310542	processed_transcript	KNOWN	None	44371	None	None	8097891	8102385	1	None	None
8	FAM86B3P	ENSG00000173295	ENST00000588159	processed_transcript	KNOWN	None	44371	None	None	8098797	8101707	1	None	None
8	FAM86B3P	ENSG00000173295	ENST00000587202	processed_transcript	KNOWN	None	44371	None	None	8099150	8101684	1	None	None
12	None	ENSG00000257784	ENST00000552712	lincRNA	KNOWN	None	None	None	None	42157991	42159383	1	None	None
12	None	ENSG00000257784	ENST00000548210	lincRNA	KNOWN	None	None	None	None	42158025	42159360	1	None	None
1	None	ENSG00000213262	ENST00000430995	processed_pseudogene	KNOWN	None	None	None	None	118183434	118184261	-1	None	None
2	None	ENSG00000229172	ENST00000411678	processed_pseudogene	KNOWN	None	None	None	None	228666556	228669421	1	None	None
7	None	ENSG00000241456	ENST00000465549	antisense	KNOWN	None	None	None	None	151124769	151136210	1	None	None
17	RNU2-32P	ENSG00000223125	ENST00000411193	snRNA	KNOWN	None	48525	None	None	39624208	39624398	1	None	None
1	HES4	ENSG00000188290	ENST00000428771	protein_coding	KNOWN	CCDS44034	24149	744	247	934342	935552	-1	None	bHLHb42
1	HES4	ENSG00000188290	ENST00000304952	protein_coding	KNOWN	CCDS5	24149	666	221	934344	935491	-1	None	bHLHb42
1	HES4	ENSG00000188290	ENST00000481869	retained_intron	KNOWN	None	24149	None	None	934346	935476	-1	None	bHLHb42
1	HES4	ENSG00000188290	ENST00000484667	protein_coding	NOVEL	None	24149	570	189	934350	935361	-1	None	bHLHb42
17	None	ENSG00000229732	ENST00000411759	antisense	KNOWN	None	None	None	None	39657235	39658661	1	None	None
11	None	ENSG00000255227	ENST00000527727	lincRNA	KNOWN	None	None	None	None	29467034	29478940	1	None	None
X	None	ENSG00000179031	ENST00000447373	processed_pseudogene	KNOWN	None	None	None	None	100165701	100166478	1	None	None
17	LINC00974	ENSG00000226629	ENST00000456403	lincRNA	KNOWN	None	27105	None	None	39705858	39710747	-1	None	None
2	None	ENSG00000234903	ENST00000429100	unprocessed_pseudogene	KNOWN	None	None	None	None	96134611	96135526	-1	None	None
11	OR4B2P	ENSG00000255514	ENST00000527724	unprocessed_pseudogene	KNOWN	None	8291	None	None	48248981	48249862	1	None	hg449
9	None	ENSG00000239353	ENST00000427778	lincRNA	KNOWN	None	None	None	None	132264269	132275965	1	None	None
1	None	ENSG00000271459	ENST00000604447	processed_pseudogene	KNOWN	None	None	None	None	171724943	171725463	-1	None	None
2	IGKV1-9	ENSG00000241755	ENST00000493819	IG_V_gene	KNOWN	None	5744	351	116	89309479	89310012	-1	None	IGKV19, L8
1	None	ENSG00000212266	ENST00000390964	snoRNA	NOVEL	None	None	None	None	118231243	118231364	-1	None	None
7	OR2A9P	ENSG00000228960	ENST00000479102	processed_transcript	PUTATIVE	None	8236	None	None	143991573	143998027	1	OR2A9	HSDJ0798C17
7	OR2A9P	ENSG00000228960	ENST00000461471	processed_transcript	PUTATIVE	None	8236	None	None	143995112	143998024	1	OR2A9	HSDJ0798C17
7	OR2A9P	ENSG00000228960	ENST00000484189	transcribed_unprocessed_pseudogene	KNOWN	None	8236	None	None	143996466	143997398	1	OR2A9	HSDJ0798C17
7	OR2A9P	ENSG00000228960	ENST00000436257	unprocessed_pseudogene	KNOWN	None	8236	None	None	143996614	143997598	1	OR2A9	HSDJ0798C17
1	None	ENSG00000236741	ENST00000468716	processed_pseudogene	KNOWN	None	None	None	None	171731214	171731664	1	None	None
3	LINC00879	ENSG00000239589	ENST00000462219	lincRNA	KNOWN	None	48566	None	None	94657016	94871146	1	None	None
3	LINC00879	ENSG00000239589	ENST00000463200	lincRNA	KNOWN	None	48566	None	None	94657107	94710172	1	None	None
3	LINC00879	ENSG00000239589	ENST00000466089	lincRNA	KNOWN	None	48566	None	None	94657118	94708914	1	None	None
3	LINC00879	ENSG00000239589	ENST00000470465	lincRNA	KNOWN	None	48566	None	None	94657121	94871353	1	None	None
3	LINC00879	ENSG00000239589	ENST00000466560	lincRNA	KNOWN	None	48566	None	None	94681774	94710087	1	None	None
2	TRIM43B	ENSG00000144010	ENST00000432468	unprocessed_pseudogene	KNOWN	None	37146	None	None	96142912	96148462	-1	None	None
2	TRIM43B	ENSG00000144010	ENST00000454263	unprocessed_pseudogene	KNOWN	None	37146	None	None	96142715	96150479	-1	None	None
X	None	ENSG00000182574	ENST00000332270	processed_pseudogene	KNOWN	None	None	None	None	100211582	100212527	1	None	None
X	None	ENSG00000182574	ENST00000538938	processed_pseudogene	KNOWN	None	None	None	None	100212364	100212528	1	None	None
19	None	ENSG00000267419	ENST00000591884	antisense	KNOWN	None	None	None	None	19887411	19945736	1	None	None
19	None	ENSG00000267419	ENST00000589657	antisense	KNOWN	None	None	None	None	19887445	19917185	1	None	None
19	None	ENSG00000267419	ENST00000586924	retained_intron	KNOWN	None	None	None	None	19887633	19897693	1	None	None
21	None	ENSG00000223975	ENST00000436359	lincRNA	KNOWN	None	None	None	None	44885189	44887178	1	None	None
1	None	ENSG00000270719	ENST00000605704	processed_pseudogene	KNOWN	None	None	None	None	118242651	118242864	-1	None	None
11	None	ENSG00000238693	ENST00000459525	snoRNA	NOVEL	None	None	None	None	133306833	133306934	-1	None	None
12	RNU6-1295P	ENSG00000207010	ENST00000384283	snRNA	KNOWN	None	48258	None	None	12442161	12442263	-1	None	None
3	RN7SL567P	ENSG00000240203	ENST00000462015	misc_RNA	KNOWN	None	46583	None	None	42717684	42717983	-1	None	None
1	SLAMF6	ENSG00000162739	ENST00000368059	protein_coding	KNOWN	CCDS1205	21392	996	331	160454820	160493052	-1	None	KALI, NTBA, KALIb, Ly108, SF2000, NTB-A, CD352
1	SLAMF6	ENSG00000162739	ENST00000368057	protein_coding	KNOWN	CCDS53394	21392	999	332	160454845	160493043	-1	None	KALI, NTBA, KALIb, Ly108, SF2000, NTB-A, CD352
1	SLAMF6	ENSG00000162739	ENST00000368055	protein_coding	KNOWN	CCDS53393	21392	666	221	160456483	160493032	-1	None	KALI, NTBA, KALIb, Ly108, SF2000, NTB-A, CD352
11	RNU6-899P	ENSG00000200817	ENST00000363947	snRNA	KNOWN	None	47862	None	None	57794178	57794284	-1	None	None
12	None	ENSG00000221307	ENST00000408380	miRNA	NOVEL	None	None	None	None	8476927	8477027	1	None	None
21	RPL31P1	ENSG00000214326	ENST00000398116	processed_pseudogene	KNOWN	None	10335	None	None	44971110	44971481	1	RPL31P	None
10	FAM21B	ENSG00000152726	ENST00000358474	protein_coding	KNOWN	CCDS44379	23417	3762	1253	47894023	47948853	1	None	bA98I6.1, FLJ10824
10	FAM21B	ENSG00000152726	ENST00000355876	protein_coding	NOVEL	None	23417	3672	1223	47894572	47949412	1	None	bA98I6.1, FLJ10824
10	FAM21B	ENSG00000152726	ENST00000490584	processed_transcript	KNOWN	None	23417	None	None	47896774	47901503	1	None	bA98I6.1, FLJ10824
12	None	ENSG00000243141	ENST00000494341	processed_pseudogene	KNOWN	None	None	None	None	12491710	12492188	1	None	None
4	SCLT1	ENSG00000151466	ENST00000503565	processed_transcript	KNOWN	None	26406	None	None	129786076	129857859	-1	None	hCAP-1A, FLJ30655
4	SCLT1	ENSG00000151466	ENST00000281142	protein_coding	KNOWN	CCDS3740	26406	2067	688	129805148	130014762	-1	None	hCAP-1A, FLJ30655
4	SCLT1	ENSG00000151466	ENST00000506233	retained_intron	KNOWN	None	26406	None	None	129805152	129893527	-1	None	hCAP-1A, FLJ30655
4	SCLT1	ENSG00000151466	ENST00000439369	protein_coding	KNOWN	None	26406	528	175	129805501	130014565	-1	None	hCAP-1A, FLJ30655
4	SCLT1	ENSG00000151466	ENST00000503215	protein_coding	NOVEL	None	26406	855	284	129805501	130014567	-1	None	hCAP-1A, FLJ30655
4	SCLT1	ENSG00000151466	ENST00000502495	processed_transcript	KNOWN	None	26406	None	None	129805545	129918440	-1	None	hCAP-1A, FLJ30655
4	SCLT1	ENSG00000151466	ENST00000506368	protein_coding	NOVEL	None	26406	396	131	129957750	130014532	-1	None	hCAP-1A, FLJ30655
4	SCLT1	ENSG00000151466	ENST00000511426	protein_coding	KNOWN	None	26406	240	79	129960348	130014700	-1	None	hCAP-1A, FLJ30655
4	SCLT1	ENSG00000151466	ENST00000503401	protein_coding	PUTATIVE	None	26406	171	56	129960385	130014718	-1	None	hCAP-1A, FLJ30655
4	SCLT1	ENSG00000151466	ENST00000434680	protein_coding	KNOWN	None	26406	924	307	129805152	130014764	-1	None	hCAP-1A, FLJ30655
7	CPA4	ENSG00000128510	ENST00000222482	protein_coding	KNOWN	CCDS5818	15740	1266	421	129932993	129964019	1	None	CPA3
7	CPA4	ENSG00000128510	ENST00000497388	retained_intron	KNOWN	None	15740	None	None	129933001	129939494	1	None	CPA3
7	CPA4	ENSG00000128510	ENST00000470542	nonsense_mediated_decay	KNOWN	None	15740	495	164	129933001	129945708	1	None	CPA3
7	CPA4	ENSG00000128510	ENST00000474254	retained_intron	KNOWN	None	15740	None	None	129933001	129946116	1	None	CPA3
7	CPA4	ENSG00000128510	ENST00000492072	protein_coding	NOVEL	None	15740	515	170	129933001	129946655	1	None	CPA3
7	CPA4	ENSG00000128510	ENST00000490117	retained_intron	KNOWN	None	15740	None	None	129933003	129944483	1	None	CPA3
7	CPA4	ENSG00000128510	ENST00000473956	protein_coding	NOVEL	None	15740	533	176	129933003	129946667	1	None	CPA3
7	CPA4	ENSG00000128510	ENST00000493259	protein_coding	PUTATIVE	None	15740	954	317	129933003	129962961	1	None	CPA3
7	CPA4	ENSG00000128510	ENST00000486598	protein_coding	PUTATIVE	None	15740	87	28	129933119	129944332	1	None	CPA3
7	CPA4	ENSG00000128510	ENST00000488025	retained_intron	KNOWN	None	15740	None	None	129947972	129951962	1	None	CPA3
7	CPA4	ENSG00000128510	ENST00000445470	protein_coding	KNOWN	CCDS55163	15740	1167	388	129932974	129964020	1	None	CPA3
11	DRAP1	ENSG00000175550	ENST00000312515	protein_coding	KNOWN	CCDS8123	3019	618	205	65686728	65689032	1	None	NC2-alpha
11	DRAP1	ENSG00000175550	ENST00000525501	protein_coding	PUTATIVE	None	3019	467	154	65686745	65688872	1	None	NC2-alpha
11	DRAP1	ENSG00000175550	ENST00000376991	protein_coding	NOVEL	None	3019	639	212	65686806	65688919	1	None	NC2-alpha
11	DRAP1	ENSG00000175550	ENST00000531121	retained_intron	KNOWN	None	3019	None	None	65686908	65688443	1	None	NC2-alpha
11	DRAP1	ENSG00000175550	ENST00000527119	protein_coding	NOVEL	None	3019	486	161	65686973	65689001	1	None	NC2-alpha
11	DRAP1	ENSG00000175550	ENST00000532933	protein_coding	PUTATIVE	None	3019	558	185	65687195	65689025	1	None	NC2-alpha
11	DRAP1	ENSG00000175550	ENST00000530791	retained_intron	KNOWN	None	3019	None	None	65687601	65689015	1	None	NC2-alpha
11	DRAP1	ENSG00000175550	ENST00000534333	retained_intron	KNOWN	None	3019	None	None	65687785	65688921	1	None	NC2-alpha
11	DRAP1	ENSG00000175550	ENST00000525190	retained_intron	KNOWN	None	3019	None	None	65688523	65688996	1	None	NC2-alpha
3	HHATL-AS1	ENSG00000230970	ENST00000423165	antisense	KNOWN	None	42439	None	None	42744145	42746120	1	None	None
3	HHATL-AS1	ENSG00000230970	ENST00000600839	antisense	KNOWN	None	42439	None	None	42744203	42748154	1	None	None
3	RN7SL637P	ENSG00000266670	ENST00000582828	misc_RNA	KNOWN	None	46653	None	None	185699825	185700083	-1	None	None
3	MIR4792	ENSG00000265028	ENST00000580344	miRNA	KNOWN	None	41577	None	None	24562853	24562926	-1	None	hsa-mir-4792, miR-4792
X	None	ENSG00000228609	ENST00000456301	lincRNA	KNOWN	None	None	None	None	100258821	100262962	-1	None	None
11	VN2R9P	ENSG00000236541	ENST00000431428	unitary_pseudogene	KNOWN	None	33215	None	None	57808180	57809132	-1	None	None
1	None	ENSG00000228217	ENST00000423940	processed_pseudogene	KNOWN	None	None	None	None	118320709	118321128	-1	None	None
1	None	ENSG00000253060	ENST00000517251	snoRNA	NOVEL	None	None	None	None	171737210	171737315	1	None	None
11	None	ENSG00000255029	ENST00000530389	lincRNA	KNOWN	None	None	None	None	29540623	29574186	1	None	None
12	RPS3AP43	ENSG00000242661	ENST00000479743	processed_pseudogene	KNOWN	None	36684	None	None	8511650	8512430	-1	None	None
12	None	ENSG00000271370	ENST00000605743	processed_pseudogene	KNOWN	None	None	None	None	12605037	12605415	-1	None	None
1	None	ENSG00000213060	ENST00000392075	processed_pseudogene	KNOWN	None	None	None	None	171772657	171773079	1	None	None
1	RNA5SP56	ENSG00000222209	ENST00000410277	rRNA	KNOWN	None	42833	None	None	118806995	118807112	-1	RN5S56	None
14	None	ENSG00000257891	ENST00000551565	lincRNA	KNOWN	None	None	None	None	19505871	19515575	1	None	None
14	None	ENSG00000257891	ENST00000551067	lincRNA	KNOWN	None	None	None	None	19515341	19519837	1	None	None
17	KRT42P	ENSG00000214514	ENST00000438131	processed_transcript	KNOWN	None	27581	None	None	39782579	39791665	-1	None	None
17	KRT42P	ENSG00000214514	ENST00000398469	processed_transcript	KNOWN	None	27581	None	None	39782579	39796451	-1	None	None
17	KRT42P	ENSG00000214514	ENST00000458343	transcribed_unprocessed_pseudogene	KNOWN	None	27581	None	None	39784139	39786844	-1	None	None
17	KRT42P	ENSG00000214514	ENST00000587335	retained_intron	KNOWN	None	27581	None	None	39784202	39785018	-1	None	None
17	KRT42P	ENSG00000214514	ENST00000587390	processed_transcript	KNOWN	None	27581	None	None	39786729	39791804	-1	None	None
17	KRT42P	ENSG00000214514	ENST00000589633	processed_transcript	KNOWN	None	27581	None	None	39786806	39791926	-1	None	None
11	None	ENSG00000238504	ENST00000459213	miRNA	NOVEL	None	None	None	None	133372772	133372851	1	None	None
3	EIF3KP2	ENSG00000233544	ENST00000415266	processed_pseudogene	KNOWN	None	44017	None	None	24597325	24597950	1	None	None
11	None	ENSG00000254888	ENST00000527814	processed_pseudogene	KNOWN	None	None	None	None	89808007	89808264	-1	None	None
7	MIR3907	ENSG00000265810	ENST00000579424	miRNA	KNOWN	None	38988	None	None	151130575	151130725	-1	None	hsa-mir-3907
11	None	ENSG00000255146	ENST00000526131	lincRNA	KNOWN	None	None	None	None	57811582	57827610	-1	None	None
7	C7orf63	ENSG00000105792	ENST00000389297	protein_coding	KNOWN	CCDS43613	26107	2826	941	89874488	89940377	1	None	FLJ21062
7	C7orf63	ENSG00000105792	ENST00000485791	processed_transcript	KNOWN	None	26107	None	None	89874509	89894681	1	None	FLJ21062
7	C7orf63	ENSG00000105792	ENST00000427396	nonsense_mediated_decay	KNOWN	None	26107	360	119	89874509	89936219	1	None	FLJ21062
7	C7orf63	ENSG00000105792	ENST00000451029	nonsense_mediated_decay	KNOWN	None	26107	690	229	89874525	89934067	1	None	FLJ21062
7	C7orf63	ENSG00000105792	ENST00000497910	protein_coding	NOVEL	CCDS55122	26107	2772	923	89874529	89939602	1	None	FLJ21062
7	C7orf63	ENSG00000105792	ENST00000463311	processed_transcript	KNOWN	None	26107	None	None	89874739	89903308	1	None	FLJ21062
7	C7orf63	ENSG00000105792	ENST00000457170	protein_coding	NOVEL	None	26107	1545	514	89887412	89929318	1	None	FLJ21062
7	C7orf63	ENSG00000105792	ENST00000418199	protein_coding	PUTATIVE	None	26107	269	88	89900903	89901533	1	None	FLJ21062
7	C7orf63	ENSG00000105792	ENST00000475031	retained_intron	KNOWN	None	26107	None	None	89901217	89939702	1	None	FLJ21062
7	C7orf63	ENSG00000105792	ENST00000449577	protein_coding	KNOWN	None	26107	1437	478	89909087	89939604	1	None	FLJ21062
7	C7orf63	ENSG00000105792	ENST00000491886	retained_intron	KNOWN	None	26107	None	None	89909103	89915763	1	None	FLJ21062
7	C7orf63	ENSG00000105792	ENST00000412839	protein_coding	NOVEL	None	26107	511	169	89933350	89939614	1	None	FLJ21062
7	C7orf63	ENSG00000105792	ENST00000445156	protein_coding	NOVEL	None	26107	280	92	89936391	89939883	1	None	FLJ21062
7	C7orf63	ENSG00000105792	ENST00000316089	protein_coding	KNOWN	None	26107	2688	895	89874488	89940375	1	None	FLJ21062
1	PSMC1P12	ENSG00000226126	ENST00000436509	processed_pseudogene	KNOWN	None	39787	None	None	119156956	119158269	-1	None	None
21	H2BFS	ENSG00000234289	ENST00000464664	processed_pseudogene	KNOWN	None	4762	None	None	44985120	44985500	1	None	None
21	H2BFS	ENSG00000234289	ENST00000599962	processed_pseudogene	KNOWN	None	4762	None	None	44985070	44985529	1	None	None
2	TDGF1P2	ENSG00000183514	ENST00000413322	processed_pseudogene	KNOWN	None	11702	None	None	228734799	228735360	-1	TDGF2	CR-2, CRIPTO-2
X	TRMT2B-AS1	ENSG00000225839	ENST00000443801	antisense	KNOWN	None	41116	None	None	100297573	100298694	1	None	None
11	NXPE2	ENSG00000204361	ENST00000389586	protein_coding	KNOWN	CCDS44738	26331	1680	559	114549108	114577655	1	FAM55B	FLJ25224
11	NXPE2	ENSG00000204361	ENST00000375475	protein_coding	PUTATIVE	None	26331	1098	365	114549200	114579362	1	FAM55B	FLJ25224
11	None	ENSG00000255117	ENST00000527492	lincRNA	KNOWN	None	None	None	None	29616465	29652211	1	None	None
11	None	ENSG00000255117	ENST00000528119	lincRNA	KNOWN	None	None	None	None	29640349	29652211	1	None	None
11	None	ENSG00000197161	ENST00000551663	unprocessed_pseudogene	KNOWN	None	None	None	None	48366903	48373999	-1	None	None
11	None	ENSG00000197161	ENST00000415304	unprocessed_pseudogene	KNOWN	None	None	None	None	48366900	48373999	-1	None	None
3	NIP7P2	ENSG00000213264	ENST00000485801	processed_pseudogene	KNOWN	None	45181	None	None	132120097	132120640	1	None	None
10	NFKB2	ENSG00000077150	ENST00000593908	processed_transcript	KNOWN	None	7795	None	None	104153867	104155715	1	None	LYT-10, p52, p105, NF-kB2
10	NFKB2	ENSG00000077150	ENST00000601386	protein_coding	KNOWN	None	7795	67	21	104153867	104156055	1	None	LYT-10, p52, p105, NF-kB2
10	NFKB2	ENSG00000077150	ENST00000369966	protein_coding	KNOWN	CCDS41564	7795	2703	900	104154354	104162281	1	None	LYT-10, p52, p105, NF-kB2
10	NFKB2	ENSG00000077150	ENST00000471698	protein_coding	KNOWN	None	7795	205	67	104155450	104156542	1	None	LYT-10, p52, p105, NF-kB2
10	NFKB2	ENSG00000077150	ENST00000467116	retained_intron	KNOWN	None	7795	None	None	104155463	104158975	1	None	LYT-10, p52, p105, NF-kB2
10	NFKB2	ENSG00000077150	ENST00000189444	protein_coding	KNOWN	CCDS41565	7795	2700	899	104155463	104162281	1	None	LYT-10, p52, p105, NF-kB2
10	NFKB2	ENSG00000077150	ENST00000336486	processed_transcript	KNOWN	None	7795	None	None	104157830	104159818	1	None	LYT-10, p52, p105, NF-kB2
10	NFKB2	ENSG00000077150	ENST00000473400	retained_intron	KNOWN	None	7795	None	None	104160335	104161026	1	None	LYT-10, p52, p105, NF-kB2
10	NFKB2	ENSG00000077150	ENST00000428099	protein_coding	KNOWN	CCDS41565	7795	2700	899	104154229	104162280	1	None	LYT-10, p52, p105, NF-kB2
12	None	ENSG00000255670	ENST00000544086	lincRNA	KNOWN	None	None	None	None	12638287	12644515	1	None	None
14	None	ENSG00000258265	ENST00000549951	lincRNA	KNOWN	None	None	None	None	19529958	19530898	1	None	None
3	ETV5-AS1	ENSG00000234197	ENST00000453370	antisense	KNOWN	None	40222	None	None	185796959	185798736	1	None	None
HSCHR6_MHC_QBL	HCG4P3	ENSG00000237884	ENST00000457533	unprocessed_pseudogene	KNOWN	None	22922	None	None	29963417	29964413	-1	None	HCGIV-03, HCGIV.2, HCGIV-3
12	None	ENSG00000257239	ENST00000550874	lincRNA	KNOWN	None	None	None	None	42223700	42326394	-1	None	None
11	None	ENSG00000254853	ENST00000531556	processed_pseudogene	KNOWN	None	None	None	None	57839850	57842910	-1	None	None
2	None	ENSG00000238162	ENST00000425635	processed_pseudogene	KNOWN	None	None	None	None	96151289	96151553	1	None	None
X	None	ENSG00000231643	ENST00000490943	processed_pseudogene	KNOWN	None	None	None	None	100446104	100446398	-1	None	None
1	None	ENSG00000252134	ENST00000516325	misc_RNA	NOVEL	None	None	None	None	171783652	171783766	1	None	None
12	None	ENSG00000237176	ENST00000549280	processed_pseudogene	KNOWN	None	None	None	None	60205883	60206357	1	None	None
12	None	ENSG00000237176	ENST00000437085	processed_pseudogene	KNOWN	None	None	None	None	60205944	60206357	1	None	None
15	None	ENSG00000259894	ENST00000565730	lincRNA	KNOWN	None	None	None	None	90788645	90789043	1	None	None
12	None	ENSG00000257128	ENST00000546669	processed_pseudogene	KNOWN	None	None	None	None	42305058	42306014	1	None	None
12	None	ENSG00000256672	ENST00000541881	lincRNA	KNOWN	None	None	None	None	783967	793293	-1	None	None
1	None	ENSG00000224600	ENST00000498507	processed_pseudogene	KNOWN	None	None	None	None	171793750	171794099	-1	None	None
1	None	ENSG00000224600	ENST00000600496	processed_pseudogene	KNOWN	None	None	None	None	171793763	171794101	-1	None	None
17	SCPEP1	ENSG00000121064	ENST00000262288	protein_coding	KNOWN	CCDS11593	29507	1359	452	55055466	55084124	1	None	RISC
17	SCPEP1	ENSG00000121064	ENST00000575423	nonsense_mediated_decay	KNOWN	None	29507	210	69	55055490	55083966	1	None	RISC
17	SCPEP1	ENSG00000121064	ENST00000571345	processed_transcript	KNOWN	None	29507	None	None	55055492	55072336	1	None	RISC
17	SCPEP1	ENSG00000121064	ENST00000572591	nonsense_mediated_decay	KNOWN	None	29507	444	147	55055492	55074357	1	None	RISC
17	SCPEP1	ENSG00000121064	ENST00000572710	protein_coding	NOVEL	None	29507	529	175	55055495	55068532	1	None	RISC
17	SCPEP1	ENSG00000121064	ENST00000575395	protein_coding	PUTATIVE	None	29507	287	94	55055495	55072905	1	None	RISC
17	SCPEP1	ENSG00000121064	ENST00000573823	processed_transcript	KNOWN	None	29507	None	None	55055498	55065206	1	None	RISC
17	SCPEP1	ENSG00000121064	ENST00000576154	nonsense_mediated_decay	KNOWN	None	29507	891	296	55055509	55084129	1	None	RISC
17	SCPEP1	ENSG00000121064	ENST00000571898	processed_transcript	KNOWN	None	29507	None	None	55055514	55072865	1	None	RISC
17	SCPEP1	ENSG00000121064	ENST00000570480	retained_intron	KNOWN	None	29507	None	None	55064451	55074463	1	None	RISC
17	SCPEP1	ENSG00000121064	ENST00000570589	retained_intron	KNOWN	None	29507	None	None	55064923	55074496	1	None	RISC
17	SCPEP1	ENSG00000121064	ENST00000573789	retained_intron	KNOWN	None	29507	None	None	55065113	55073236	1	None	RISC
17	SCPEP1	ENSG00000121064	ENST00000570505	retained_intron	KNOWN	None	29507	None	None	55072921	55075686	1	None	RISC
17	SCPEP1	ENSG00000121064	ENST00000573239	protein_coding	NOVEL	None	29507	407	134	55074375	55084119	1	None	RISC
17	SCPEP1	ENSG00000121064	ENST00000570479	retained_intron	KNOWN	None	29507	None	None	55075652	55083947	1	None	RISC
19	C19orf55	ENSG00000167595	ENST00000444637	protein_coding	PUTATIVE	None	25204	259	85	36249044	36253231	1	None	FLJ30657
19	C19orf55	ENSG00000167595	ENST00000544099	protein_coding	KNOWN	None	25204	1278	425	36249054	36260090	1	None	FLJ30657
19	C19orf55	ENSG00000167595	ENST00000301165	protein_coding	NOVEL	None	25204	766	254	36249057	36256077	1	None	FLJ30657
19	C19orf55	ENSG00000167595	ENST00000544876	processed_transcript	PUTATIVE	None	25204	None	None	36249070	36258257	1	None	FLJ30657
19	C19orf55	ENSG00000167595	ENST00000536950	protein_coding	NOVEL	None	25204	582	193	36249080	36253946	1	None	FLJ30657
19	C19orf55	ENSG00000167595	ENST00000535581	nonsense_mediated_decay	KNOWN	None	25204	975	324	36249085	36260766	1	None	FLJ30657
19	C19orf55	ENSG00000167595	ENST00000537459	protein_coding	KNOWN	None	25204	585	194	36249095	36253464	1	None	FLJ30657
19	C19orf55	ENSG00000167595	ENST00000421853	protein_coding	PUTATIVE	None	25204	285	94	36249099	36253646	1	None	FLJ30657
19	C19orf55	ENSG00000167595	ENST00000600988	retained_intron	KNOWN	None	25204	None	None	36249100	36253929	1	None	FLJ30657
19	C19orf55	ENSG00000167595	ENST00000545674	protein_coding	PUTATIVE	None	25204	281	92	36250188	36253253	1	None	FLJ30657
19	C19orf55	ENSG00000167595	ENST00000539771	nonsense_mediated_decay	KNOWN	None	25204	158	51	36250289	36253332	1	None	FLJ30657
19	C19orf55	ENSG00000167595	ENST00000601095	nonsense_mediated_decay	KNOWN	None	25204	503	166	36250346	36256001	1	None	FLJ30657
19	C19orf55	ENSG00000167595	ENST00000542134	protein_coding	PUTATIVE	None	25204	273	90	36250786	36253273	1	None	FLJ30657
19	C19orf55	ENSG00000167595	ENST00000542591	processed_transcript	PUTATIVE	None	25204	None	None	36256003	36258355	1	None	FLJ30657
19	C19orf55	ENSG00000167595	ENST00000544158	retained_intron	KNOWN	None	25204	None	None	36259104	36261930	1	None	FLJ30657
19	C19orf55	ENSG00000167595	ENST00000536037	processed_transcript	PUTATIVE	None	25204	None	None	36259312	36260237	1	None	FLJ30657
19	C19orf55	ENSG00000167595	ENST00000396908	protein_coding	KNOWN	None	25204	1440	479	36249044	36260077	1	None	FLJ30657
21	None	ENSG00000241238	ENST00000438837	processed_transcript	PUTATIVE	None	None	None	None	45141573	45152146	1	None	None
2	None	ENSG00000223917	ENST00000442127	unprocessed_pseudogene	KNOWN	None	None	None	None	96152228	96154375	-1	None	None
15	None	ENSG00000228998	ENST00000411845	processed_transcript	KNOWN	None	None	None	None	90818266	90820841	1	None	None
15	None	ENSG00000228998	ENST00000579581	transcribed_processed_pseudogene	KNOWN	None	None	None	None	90818361	90818948	1	None	None
1	None	ENSG00000229911	ENST00000427122	processed_pseudogene	KNOWN	None	None	None	None	119255622	119256301	1	None	None
12	None	ENSG00000221104	ENST00000408177	miRNA	NOVEL	None	None	None	None	8519282	8519427	1	None	None
3	None	ENSG00000237838	ENST00000455576	lincRNA	KNOWN	None	None	None	None	24729410	25215796	1	None	None
2	None	ENSG00000272237	ENST00000607153	snoRNA	NOVEL	None	None	None	None	228752347	228752460	1	None	None
11	UBTFL1	ENSG00000255009	ENST00000530464	processed_pseudogene	KNOWN	None	14533	None	None	89819081	89820102	1	C11orf27	None
11	UBTFL1	ENSG00000255009	ENST00000544527	processed_pseudogene	KNOWN	None	14533	None	None	89819118	89820299	1	C11orf27	None
21	TMEM97P1	ENSG00000234030	ENST00000452969	processed_pseudogene	KNOWN	None	39640	None	None	45203004	45203454	1	None	None
15	None	ENSG00000259670	ENST00000558304	antisense	KNOWN	None	None	None	None	49075387	49076318	1	None	None
7	RN7SL76P	ENSG00000241959	ENST00000482435	misc_RNA	KNOWN	None	46092	None	None	151161738	151162024	-1	None	None
16	PKD1P1	ENSG00000244257	ENST00000458669	unprocessed_pseudogene	KNOWN	None	30065	None	None	16404198	16428047	1	None	None
16	PKD1P1	ENSG00000244257	ENST00000541915	unprocessed_pseudogene	KNOWN	None	30065	None	None	16411466	16418660	1	None	None
HSCHR6_MHC_QBL	HLA-J	ENSG00000243336	ENST00000461713	processed_transcript	KNOWN	None	4967	None	None	29963880	29967239	1	HLA-CDA12, D6S203	CDA12, HLA-59
HSCHR6_MHC_QBL	HLA-J	ENSG00000243336	ENST00000460173	processed_transcript	KNOWN	None	4967	None	None	29963884	29967239	1	HLA-CDA12, D6S203	CDA12, HLA-59
HSCHR6_MHC_QBL	HLA-J	ENSG00000243336	ENST00000488715	processed_transcript	KNOWN	None	4967	None	None	29963893	29967239	1	HLA-CDA12, D6S203	CDA12, HLA-59
HSCHR6_MHC_QBL	HLA-J	ENSG00000243336	ENST00000490720	transcribed_unprocessed_pseudogene	KNOWN	None	4967	None	None	29963903	29966822	1	HLA-CDA12, D6S203	CDA12, HLA-59
9	CYLC2	ENSG00000155833	ENST00000374798	protein_coding	KNOWN	CCDS35085	2583	1047	348	105757593	105780770	1	None	None
9	CYLC2	ENSG00000155833	ENST00000487798	protein_coding	KNOWN	CCDS35085	2583	1047	348	105757626	105780770	1	None	None
9	CYLC2	ENSG00000155833	ENST00000590560	processed_transcript	KNOWN	None	2583	None	None	105774341	105780770	1	None	None
2	RNU6-624P	ENSG00000200281	ENST00000363411	snRNA	KNOWN	None	47587	None	None	229034459	229034565	1	None	None
13	RNU6-71P	ENSG00000207203	ENST00000384474	snRNA	KNOWN	None	42561	None	None	36841305	36841411	1	RNU6-71	None
12	None	ENSG00000240424	ENST00000483524	processed_pseudogene	KNOWN	None	None	None	None	12721135	12721710	-1	None	None
2	None	ENSG00000237308	ENST00000414112	processed_pseudogene	KNOWN	None	None	None	None	96161770	96162279	-1	None	None
11	None	ENSG00000255258	ENST00000526254	lincRNA	KNOWN	None	None	None	None	133653566	133680271	-1	None	None
12	None	ENSG00000271379	ENST00000604396	processed_pseudogene	KNOWN	None	None	None	None	42463737	42464427	-1	None	None
3	CCDC13-AS1	ENSG00000173811	ENST00000446950	antisense	KNOWN	None	41142	None	None	42774067	42786650	1	None	None
3	CCDC13-AS1	ENSG00000173811	ENST00000418161	antisense	KNOWN	None	41142	None	None	42774069	42788260	1	None	None
8	None	ENSG00000253340	ENST00000523624	processed_pseudogene	KNOWN	None	None	None	None	51772090	51772622	1	None	None
13	None	ENSG00000266047	ENST00000581522	miRNA	NOVEL	None	None	None	None	36929928	36930015	1	None	None
1	DNM3-IT1	ENSG00000233540	ENST00000450800	sense_intronic	KNOWN	None	41494	None	None	171833327	171833827	1	None	None
12	RNU4ATAC16P	ENSG00000221439	ENST00000408512	snRNA	KNOWN	None	46902	None	None	890299	890424	1	None	None
8	None	ENSG00000253741	ENST00000520572	antisense	KNOWN	None	None	None	None	143783670	143808391	-1	None	None
2	None	ENSG00000203387	ENST00000428788	processed_pseudogene	KNOWN	None	None	None	None	229216836	229217931	-1	None	None
12	None	ENSG00000222884	ENST00000410952	miRNA	NOVEL	None	None	None	None	42473563	42473684	1	None	None
21	None	ENSG00000215458	ENST00000437258	antisense	KNOWN	None	None	None	None	45225639	45230212	-1	None	None
21	None	ENSG00000215458	ENST00000448247	antisense	KNOWN	None	None	None	None	45225639	45230242	-1	None	None
21	None	ENSG00000215458	ENST00000400385	antisense	KNOWN	None	None	None	None	45225639	45232448	-1	None	None
21	None	ENSG00000215458	ENST00000543603	antisense	KNOWN	None	None	None	None	45228911	45230242	-1	None	None
13	HIST1H2APS6	ENSG00000223383	ENST00000448609	processed_pseudogene	KNOWN	None	42647	None	None	37064215	37064578	-1	None	None
14	None	ENSG00000258252	ENST00000548748	lincRNA	KNOWN	None	None	None	None	19562689	19566731	-1	None	None
1	None	ENSG00000226172	ENST00000439394	lincRNA	KNOWN	None	None	None	None	119542967	119544015	-1	None	None
3	HSPA8P19	ENSG00000251614	ENST00000505359	processed_pseudogene	KNOWN	None	44935	None	None	132364675	132369227	1	None	None
2	None	ENSG00000224719	ENST00000421358	unprocessed_pseudogene	KNOWN	None	None	None	None	96168539	96170807	1	None	None
12	RN7SL10P	ENSG00000241710	ENST00000490073	misc_RNA	KNOWN	None	46026	None	None	42636017	42636316	1	None	None
1	MIR214	ENSG00000207949	ENST00000385214	miRNA	KNOWN	None	31591	None	None	172107938	172108047	-1	MIRN214	hsa-mir-214
12	None	ENSG00000250132	ENST00000503602	antisense	KNOWN	None	None	None	None	1083299	1099207	-1	None	None
12	None	ENSG00000250132	ENST00000545629	antisense	KNOWN	None	None	None	None	1085970	1100288	-1	None	None
12	None	ENSG00000250132	ENST00000539259	antisense	KNOWN	None	None	None	None	1086145	1100356	-1	None	None
12	None	ENSG00000250132	ENST00000543290	antisense	KNOWN	None	None	None	None	1099018	1099774	-1	None	None
3	None	ENSG00000244048	ENST00000476880	processed_pseudogene	KNOWN	None	None	None	None	94890764	94891221	1	None	None
12	None	ENSG00000271215	ENST00000605378	processed_pseudogene	KNOWN	None	None	None	None	12767293	12768841	-1	None	None
8	None	ENSG00000253806	ENST00000519782	antisense	KNOWN	None	None	None	None	143808701	143809108	-1	None	None
19	None	ENSG00000267481	ENST00000590697	sense_intronic	KNOWN	None	None	None	None	19899564	19901340	-1	None	None
1	DNM3OS	ENSG00000230630	ENST00000417354	antisense	KNOWN	None	41228	None	None	172109461	172113934	-1	None	MIR199A2HG, DNM3-AS1
12	GDF11	ENSG00000135414	ENST00000257868	protein_coding	KNOWN	CCDS8891	4216	1224	407	56137064	56146136	1	None	BMP-11
12	GDF11	ENSG00000135414	ENST00000546799	protein_coding	KNOWN	None	4216	1142	379	56137183	56150911	1	None	BMP-11
6	CMAHP	ENSG00000168405	ENST00000471416	retained_intron	KNOWN	None	2098	None	None	25081640	25085013	-1	CMAH	None
6	CMAHP	ENSG00000168405	ENST00000377989	processed_transcript	KNOWN	None	2098	None	None	25081798	25138821	-1	CMAH	None
6	CMAHP	ENSG00000168405	ENST00000493257	processed_transcript	KNOWN	None	2098	None	None	25082031	25106678	-1	CMAH	None
6	CMAHP	ENSG00000168405	ENST00000377993	unitary_pseudogene	KNOWN	None	2098	None	None	25082090	25138309	-1	CMAH	None
6	CMAHP	ENSG00000168405	ENST00000490939	retained_intron	KNOWN	None	2098	None	None	25086845	25108910	-1	CMAH	None
6	CMAHP	ENSG00000168405	ENST00000493981	processed_transcript	KNOWN	None	2098	None	None	25106040	25109754	-1	CMAH	None
6	CMAHP	ENSG00000168405	ENST00000458373	processed_transcript	KNOWN	None	2098	None	None	25109730	25166783	-1	CMAH	None
6	CMAHP	ENSG00000168405	ENST00000462823	processed_transcript	KNOWN	None	2098	None	None	25127774	25138557	-1	CMAH	None
6	CMAHP	ENSG00000168405	ENST00000436589	unitary_pseudogene	KNOWN	None	2098	None	None	25081548	25138029	-1	CMAH	None
6	CMAHP	ENSG00000168405	ENST00000424282	unitary_pseudogene	KNOWN	None	2098	None	None	25093903	25166793	-1	CMAH	None
12	None	ENSG00000257674	ENST00000550858	processed_pseudogene	KNOWN	None	None	None	None	42680713	42682362	1	None	None
7	ETF1P2	ENSG00000240132	ENST00000478788	processed_pseudogene	KNOWN	None	3479	None	None	151198964	151200549	1	SUP45L3	None
12	RAN	ENSG00000132341	ENST00000543796	protein_coding	KNOWN	CCDS9271	9846	651	216	131356424	131362223	1	None	ARA24, TC4, Gsp1
12	RAN	ENSG00000132341	ENST00000448750	protein_coding	PUTATIVE	None	9846	705	234	131356582	131362221	1	None	ARA24, TC4, Gsp1
12	RAN	ENSG00000132341	ENST00000536606	nonsense_mediated_decay	KNOWN	None	9846	311	102	131356592	131360254	1	None	ARA24, TC4, Gsp1
12	RAN	ENSG00000132341	ENST00000537745	retained_intron	KNOWN	None	9846	None	None	131356611	131358384	1	None	ARA24, TC4, Gsp1
12	RAN	ENSG00000132341	ENST00000541630	protein_coding	PUTATIVE	None	9846	387	128	131356611	131361278	1	None	ARA24, TC4, Gsp1
12	RAN	ENSG00000132341	ENST00000477395	retained_intron	KNOWN	None	9846	None	None	131356615	131360210	1	None	ARA24, TC4, Gsp1
12	RAN	ENSG00000132341	ENST00000392369	protein_coding	KNOWN	CCDS9271	9846	651	216	131356615	131360826	1	None	ARA24, TC4, Gsp1
12	RAN	ENSG00000132341	ENST00000535090	protein_coding	PUTATIVE	None	9846	596	197	131356621	131360329	1	None	ARA24, TC4, Gsp1
12	RAN	ENSG00000132341	ENST00000541679	retained_intron	KNOWN	None	9846	None	None	131356627	131360779	1	None	ARA24, TC4, Gsp1
12	RAN	ENSG00000132341	ENST00000464211	retained_intron	KNOWN	None	9846	None	None	131356641	131360469	1	None	ARA24, TC4, Gsp1
12	RAN	ENSG00000132341	ENST00000392367	protein_coding	NOVEL	None	9846	702	233	131356641	131360508	1	None	ARA24, TC4, Gsp1
12	RAN	ENSG00000132341	ENST00000539498	retained_intron	KNOWN	None	9846	None	None	131357648	131360184	1	None	ARA24, TC4, Gsp1
12	RAN	ENSG00000132341	ENST00000254675	protein_coding	KNOWN	None	9846	387	128	131356618	131360795	1	None	ARA24, TC4, Gsp1
14	RNU6-1239P	ENSG00000212612	ENST00000391310	snRNA	KNOWN	None	48202	None	None	19564785	19564891	1	None	None
1	None	ENSG00000239216	ENST00000449439	lincRNA	KNOWN	None	None	None	None	119543241	119544028	-1	None	None
3	RN7SL504P	ENSG00000241789	ENST00000494496	misc_RNA	KNOWN	None	46520	None	None	51906221	51906467	1	None	None
10	ZNF37BP	ENSG00000234420	ENST00000452075	processed_transcript	KNOWN	None	13103	None	None	43015073	43048242	-1	ZNF37B	KOX21, FLJ23327
10	ZNF37BP	ENSG00000234420	ENST00000452306	transcribed_processed_pseudogene	KNOWN	None	13103	None	None	43015143	43016494	-1	ZNF37B	KOX21, FLJ23327
10	ZNF37BP	ENSG00000234420	ENST00000435805	processed_transcript	KNOWN	None	13103	None	None	43016235	43048270	-1	ZNF37B	KOX21, FLJ23327
10	ZNF37BP	ENSG00000234420	ENST00000473592	processed_transcript	KNOWN	None	13103	None	None	43016271	43048256	-1	ZNF37B	KOX21, FLJ23327
4	None	ENSG00000222613	ENST00000410681	misc_RNA	NOVEL	None	None	None	None	141700193	141700295	-1	None	None
12	None	ENSG00000256136	ENST00000545435	processed_pseudogene	KNOWN	None	None	None	None	8559429	8559791	-1	None	None
15	None	ENSG00000259700	ENST00000560237	antisense	KNOWN	None	None	None	None	49102898	49103785	1	None	None
X	None	ENSG00000222203	ENST00000410271	misc_RNA	NOVEL	None	None	None	None	100543905	100543999	-1	None	None
11	None	ENSG00000255131	ENST00000529493	processed_pseudogene	KNOWN	None	None	None	None	57844848	57846042	-1	None	None
13	None	ENSG00000222602	ENST00000410670	miRNA	NOVEL	None	None	None	None	37302739	37302829	-1	None	None
2	TRIM64FP	ENSG00000226185	ENST00000427305	unprocessed_pseudogene	KNOWN	None	43976	None	None	96180575	96185855	1	None	None
19	None	ENSG00000270325	ENST00000603714	processed_pseudogene	KNOWN	None	None	None	None	19967784	19968336	1	None	None
4	None	ENSG00000248747	ENST00000514347	lincRNA	KNOWN	None	None	None	None	142161893	142199943	-1	None	None
2	MIR4782	ENSG00000265429	ENST00000577987	miRNA	KNOWN	None	41635	None	None	114478867	114478945	-1	None	hsa-mir-4782
1	MIR199A2	ENSG00000208024	ENST00000385289	miRNA	KNOWN	None	31572	None	None	172113675	172113784	-1	MIRN199A2	hsa-mir-199a-2
1	WARS2-IT1	ENSG00000224238	ENST00000423984	antisense	KNOWN	None	41393	None	None	119590028	119607408	1	None	None
13	GAPDHP34	ENSG00000235306	ENST00000432112	processed_pseudogene	KNOWN	None	37786	None	None	37314178	37315000	1	None	None
14	None	ENSG00000258314	ENST00000546734	lincRNA	KNOWN	None	None	None	None	19611768	19643377	1	None	None
14	None	ENSG00000258314	ENST00000548416	lincRNA	KNOWN	None	None	None	None	19642023	19643233	1	None	None
3	IQCF5-AS1	ENSG00000235455	ENST00000440723	antisense	KNOWN	None	41297	None	None	51907612	51909783	1	None	None
2	None	ENSG00000244063	ENST00000435407	lincRNA	KNOWN	None	None	None	None	114586967	114588696	-1	None	None
1	None	ENSG00000252354	ENST00000516545	snoRNA	NOVEL	None	None	None	None	172317283	172317357	1	None	None
8	None	ENSG00000201316	ENST00000364446	snoRNA	NOVEL	None	None	None	None	51927581	51927725	1	None	None
1	RBMX2P3	ENSG00000223575	ENST00000450122	processed_pseudogene	KNOWN	None	39925	None	None	119627621	119628577	-1	None	None
19	None	ENSG00000270270	ENST00000605360	processed_pseudogene	KNOWN	None	None	None	None	19981532	19982108	-1	None	None
7	None	ENSG00000242048	ENST00000481153	retained_intron	KNOWN	None	None	None	None	151503744	151504728	1	None	None
7	None	ENSG00000242048	ENST00000462083	antisense	KNOWN	None	None	None	None	151503820	151507906	1	None	None
1	RNU6-157P	ENSG00000206684	ENST00000383957	snRNA	KNOWN	None	47120	None	None	172335680	172335786	1	None	None
HSCHR6_MHC_DBB	HLA-DQB1	ENSG00000233209	ENST00000479570	retained_intron	KNOWN	None	4944	None	None	32602484	32609674	-1	HLA-DQB	IDDM1, CELIAC1
HSCHR6_MHC_DBB	HLA-DQB1	ENSG00000233209	ENST00000490862	nonsense_mediated_decay	KNOWN	None	4944	411	136	32602484	32609674	-1	HLA-DQB	IDDM1, CELIAC1
HSCHR6_MHC_DBB	HLA-DQB1	ENSG00000233209	ENST00000434886	protein_coding	KNOWN	None	4944	675	224	32602484	32609683	-1	HLA-DQB	IDDM1, CELIAC1
HSCHR6_MHC_DBB	HLA-DQB1	ENSG00000233209	ENST00000430790	protein_coding	KNOWN	None	4944	405	134	32602484	32609688	-1	HLA-DQB	IDDM1, CELIAC1
HSCHR6_MHC_DBB	HLA-DQB1	ENSG00000233209	ENST00000416192	protein_coding	KNOWN	None	4944	786	261	32602484	32609730	-1	HLA-DQB	IDDM1, CELIAC1
HSCHR6_MHC_DBB	HLA-DQB1	ENSG00000233209	ENST00000399074	protein_coding	KNOWN	None	4944	810	269	32602484	32609853	-1	HLA-DQB	IDDM1, CELIAC1
HSCHR6_MHC_DBB	HLA-DQB1	ENSG00000233209	ENST00000422950	protein_coding	KNOWN	None	4944	786	261	32602484	32612425	-1	HLA-DQB	IDDM1, CELIAC1
HSCHR6_MHC_DBB	HLA-DQB1	ENSG00000233209	ENST00000486521	processed_transcript	KNOWN	None	4944	None	None	32602903	32603457	-1	HLA-DQB	IDDM1, CELIAC1
HSCHR6_MHC_DBB	HLA-DQB1	ENSG00000233209	ENST00000432856	protein_coding	KNOWN	None	4944	434	143	32605044	32609693	-1	HLA-DQB	IDDM1, CELIAC1
4	None	ENSG00000238695	ENST00000459515	snoRNA	NOVEL	None	None	None	None	142218928	142219032	-1	None	None
12	ITPR2	ENSG00000123104	ENST00000381340	protein_coding	KNOWN	CCDS41764	6181	8106	2701	26490342	26986131	-1	None	IP3R2
12	ITPR2	ENSG00000123104	ENST00000451599	nonsense_mediated_decay	KNOWN	None	6181	309	102	26540475	26647166	-1	None	IP3R2
12	ITPR2	ENSG00000123104	ENST00000538984	retained_intron	KNOWN	None	6181	None	None	26564146	26580870	-1	None	IP3R2
12	ITPR2	ENSG00000123104	ENST00000540429	retained_intron	KNOWN	None	6181	None	None	26646968	26648178	-1	None	IP3R2
12	ITPR2	ENSG00000123104	ENST00000543958	retained_intron	KNOWN	None	6181	None	None	26647139	26648493	-1	None	IP3R2
12	ITPR2	ENSG00000123104	ENST00000545902	processed_transcript	KNOWN	None	6181	None	None	26774115	26783647	-1	None	IP3R2
12	ITPR2	ENSG00000123104	ENST00000540791	processed_transcript	KNOWN	None	6181	None	None	26848535	26868661	-1	None	IP3R2
12	ITPR2	ENSG00000123104	ENST00000545235	nonsense_mediated_decay	KNOWN	None	6181	240	79	26869095	26985719	-1	None	IP3R2
12	ITPR2	ENSG00000123104	ENST00000242737	protein_coding	KNOWN	None	6181	546	181	26874220	26985714	-1	None	IP3R2
12	ITPR2	ENSG00000123104	ENST00000536627	processed_transcript	KNOWN	None	6181	None	None	26875371	26878946	-1	None	IP3R2
15	None	ENSG00000235883	ENST00000441252	pseudogene	NOVEL	None	None	None	None	49170346	49170937	1	None	None
12	None	ENSG00000257004	ENST00000539988	lincRNA	KNOWN	None	None	None	None	12821916	12838009	1	None	None
1	RNU6-693P	ENSG00000251943	ENST00000516134	snRNA	KNOWN	None	47656	None	None	172582568	172582674	-1	None	None
2	IGKV3-11	ENSG00000241351	ENST00000483158	IG_V_gene	KNOWN	None	5815	345	114	89326668	89327228	-1	None	None
2	LTBP1	ENSG00000049323	ENST00000404816	protein_coding	KNOWN	CCDS33177	6714	5166	1721	33172039	33624426	1	None	None
2	LTBP1	ENSG00000049323	ENST00000432635	protein_coding	PUTATIVE	None	6714	305	100	33359473	33413743	1	None	None
2	LTBP1	ENSG00000049323	ENST00000402934	protein_coding	NOVEL	None	6714	4023	1340	33359692	33624424	1	None	None
2	LTBP1	ENSG00000049323	ENST00000404525	protein_coding	NOVEL	CCDS54345	6714	4029	1342	33359706	33624576	1	None	None
2	LTBP1	ENSG00000049323	ENST00000407925	protein_coding	KNOWN	CCDS33178	6714	4188	1395	33359724	33624430	1	None	None
2	LTBP1	ENSG00000049323	ENST00000413303	protein_coding	NOVEL	None	6714	657	218	33468729	33498778	1	None	None
2	LTBP1	ENSG00000049323	ENST00000468091	protein_coding	PUTATIVE	None	6714	662	219	33477794	33498813	1	None	None
2	LTBP1	ENSG00000049323	ENST00000415140	protein_coding	NOVEL	None	6714	799	265	33500976	33572476	1	None	None
2	LTBP1	ENSG00000049323	ENST00000498013	processed_transcript	KNOWN	None	6714	None	None	33516551	33534549	1	None	None
2	LTBP1	ENSG00000049323	ENST00000422669	protein_coding	NOVEL	None	6714	810	269	33526597	33588488	1	None	None
2	LTBP1	ENSG00000049323	ENST00000489740	processed_transcript	KNOWN	None	6714	None	None	33526699	33543007	1	None	None
2	LTBP1	ENSG00000049323	ENST00000354476	protein_coding	KNOWN	None	6714	5169	1722	33172369	33624573	1	None	None
2	LTBP1	ENSG00000049323	ENST00000390003	protein_coding	KNOWN	None	6714	4191	1396	33359664	33624573	1	None	None
2	LTBP1	ENSG00000049323	ENST00000418533	protein_coding	KNOWN	CCDS54344	6714	4062	1353	33359664	33624573	1	None	None
2	LTBP1	ENSG00000049323	ENST00000272273	protein_coding	KNOWN	None	6714	1860	619	33516715	33623755	1	None	None
2	None	ENSG00000228857	ENST00000420579	lincRNA	KNOWN	None	None	None	None	114588626	114589304	-1	None	None
2	None	ENSG00000228857	ENST00000446401	lincRNA	KNOWN	None	None	None	None	114588765	114600933	-1	None	None
7	None	ENSG00000242978	ENST00000462678	processed_pseudogene	KNOWN	None	None	None	None	144131919	144132407	-1	None	None
1	RPS3AP12	ENSG00000236804	ENST00000443616	processed_pseudogene	KNOWN	None	35527	None	None	119669162	119669914	-1	None	None
1	SLC25A38P1	ENSG00000229785	ENST00000458247	processed_pseudogene	KNOWN	None	43858	None	None	172717700	172718642	1	None	None
4	None	ENSG00000248810	ENST00000506645	lincRNA	KNOWN	None	None	None	None	142240604	142244716	-1	None	None
4	None	ENSG00000248810	ENST00000509161	lincRNA	KNOWN	None	None	None	None	142242283	142247161	-1	None	None
4	None	ENSG00000248810	ENST00000511213	lincRNA	KNOWN	None	None	None	None	142244625	142253772	-1	None	None
X	RNU6-934P	ENSG00000202024	ENST00000365154	snRNA	KNOWN	None	47897	None	None	100580392	100580498	1	None	None
19	MEX3D	ENSG00000181588	ENST00000402693	protein_coding	KNOWN	CCDS32865	16734	1956	651	1554668	1568057	-1	RKHD1	Tino, KIAA2031, OK/SW-cl.4, RNF193
19	MEX3D	ENSG00000181588	ENST00000605173	protein_coding	PUTATIVE	None	16734	1473	490	1554672	1567529	-1	RKHD1	Tino, KIAA2031, OK/SW-cl.4, RNF193
19	MEX3D	ENSG00000181588	ENST00000388824	protein_coding	KNOWN	None	16734	2001	666	1554669	1568057	-1	RKHD1	Tino, KIAA2031, OK/SW-cl.4, RNF193
11	OR9I2P	ENSG00000186508	ENST00000427941	unprocessed_pseudogene	KNOWN	None	15324	None	None	57911967	57912869	1	None	None
X	NANOGNBP3	ENSG00000270813	ENST00000603059	processed_pseudogene	KNOWN	None	42160	None	None	100592713	100593277	-1	None	None
12	None	ENSG00000264437	ENST00000578779	miRNA	NOVEL	None	None	None	None	60420552	60420638	-1	None	None
3	ARHGAP31	ENSG00000031081	ENST00000264245	protein_coding	KNOWN	CCDS43135	29216	4335	1444	119013220	119139561	1	None	CDGAP
3	ARHGAP31	ENSG00000031081	ENST00000482743	protein_coding	PUTATIVE	None	29216	497	164	119043739	119101975	1	None	CDGAP
X	MIR766	ENSG00000211578	ENST00000390223	miRNA	KNOWN	None	33139	None	None	118780701	118780811	-1	MIRN766	hsa-mir-766
21	MYL6P1	ENSG00000226543	ENST00000449877	processed_pseudogene	KNOWN	None	7588	None	None	45275771	45276223	-1	MYL6P	None
21	MYL6P1	ENSG00000226543	ENST00000434430	processed_pseudogene	KNOWN	None	7588	None	None	45275969	45276136	-1	MYL6P	None
19	None	ENSG00000265339	ENST00000578823	miRNA	NOVEL	None	None	None	None	20001968	20002050	1	None	None
13	TCEAL4P1	ENSG00000223543	ENST00000453620	processed_pseudogene	KNOWN	None	39582	None	None	37316015	37316602	-1	None	None
3	RN7SL216P	ENSG00000244404	ENST00000471607	misc_RNA	KNOWN	None	46232	None	None	25061654	25061954	-1	None	None
1	None	ENSG00000224228	ENST00000432694	antisense	KNOWN	None	None	None	None	172745045	173033155	1	None	None
HG1032_PATCH	None	ENSG00000260020	ENST00000567882	unprocessed_pseudogene	KNOWN	None	None	None	None	190986386	190987070	1	None	None
11	None	ENSG00000254436	ENST00000529682	processed_pseudogene	KNOWN	None	None	None	None	89831589	89831985	-1	None	None
2	NPHP1	ENSG00000144061	ENST00000316534	protein_coding	KNOWN	CCDS2086	7905	2202	733	110879888	110962619	-1	NPH1	JBTS4
2	NPHP1	ENSG00000144061	ENST00000445609	protein_coding	KNOWN	CCDS46386	7905	2034	677	110880913	110962569	-1	NPH1	JBTS4
2	NPHP1	ENSG00000144061	ENST00000393272	protein_coding	KNOWN	CCDS46385	7905	2199	732	110880913	110962643	-1	NPH1	JBTS4
2	NPHP1	ENSG00000144061	ENST00000496524	retained_intron	KNOWN	None	7905	None	None	110880925	110962594	-1	NPH1	JBTS4
2	NPHP1	ENSG00000144061	ENST00000461707	retained_intron	KNOWN	None	7905	None	None	110881165	110962578	-1	NPH1	JBTS4
2	NPHP1	ENSG00000144061	ENST00000355301	protein_coding	KNOWN	CCDS46384	7905	1845	614	110881285	110962549	-1	NPH1	JBTS4
2	NPHP1	ENSG00000144061	ENST00000417665	protein_coding	NOVEL	None	7905	2136	711	110881285	110962572	-1	NPH1	JBTS4
2	NPHP1	ENSG00000144061	ENST00000422492	protein_coding	PUTATIVE	None	7905	143	46	110882976	110886836	-1	NPH1	JBTS4
2	NPHP1	ENSG00000144061	ENST00000493051	retained_intron	KNOWN	None	7905	None	None	110886529	110902125	-1	NPH1	JBTS4
2	NPHP1	ENSG00000144061	ENST00000418527	protein_coding	PUTATIVE	None	7905	366	121	110935618	110962576	-1	NPH1	JBTS4
2	NPHP1	ENSG00000144061	ENST00000449600	nonsense_mediated_decay	KNOWN	None	7905	137	44	110936331	110962538	-1	NPH1	JBTS4
X	RPL21P132	ENSG00000183911	ENST00000331267	processed_pseudogene	KNOWN	None	35865	None	None	100594905	100595922	1	None	None
14	None	ENSG00000258065	ENST00000546905	processed_pseudogene	KNOWN	None	None	None	None	29326590	29327907	-1	None	None
13	ARL2BPP3	ENSG00000215486	ENST00000580773	processed_transcript	KNOWN	None	39447	None	None	37363469	37369067	1	None	None
13	ARL2BPP3	ENSG00000215486	ENST00000421226	transcribed_processed_pseudogene	KNOWN	None	39447	None	None	37368621	37369187	1	None	None
13	ARL2BPP3	ENSG00000215486	ENST00000400435	processed_pseudogene	KNOWN	None	39447	None	None	37368621	37369187	1	None	None
11	HNRNPRP2	ENSG00000255047	ENST00000528421	processed_pseudogene	KNOWN	None	44908	None	None	29690433	29691175	-1	None	None
12	None	ENSG00000238152	ENST00000425390	processed_pseudogene	KNOWN	None	None	None	None	8567376	8568401	-1	None	None
3	None	ENSG00000234548	ENST00000414102	lincRNA	KNOWN	None	None	None	None	186158134	186162980	1	None	None
3	None	ENSG00000234548	ENST00000435548	lincRNA	KNOWN	None	None	None	None	186158169	186163031	1	None	None
3	None	ENSG00000234548	ENST00000421006	lincRNA	KNOWN	None	None	None	None	186158193	186162847	1	None	None
3	None	ENSG00000234548	ENST00000434896	lincRNA	KNOWN	None	None	None	None	186158777	186168485	1	None	None
2	IGKV1-12	ENSG00000243290	ENST00000480492	IG_V_gene	KNOWN	None	5730	351	116	89339721	89340242	-1	None	IGKV112, L19
1	AIMP1P2	ENSG00000227177	ENST00000425294	processed_pseudogene	KNOWN	None	43693	None	None	172855087	172855398	-1	None	None
12	None	ENSG00000257294	ENST00000552378	lincRNA	KNOWN	None	None	None	None	60486645	60489632	1	None	None
HSCHR17_1	None	ENSG00000257311	ENST00000548339	pseudogene	NOVEL	None	None	None	None	44544030	44544362	-1	None	None
3	ARL8B	ENSG00000134108	ENST00000256496	protein_coding	KNOWN	CCDS2566	25564	561	186	5163905	5222596	1	ARL10C	FLJ10702, Gie1
3	ARL8B	ENSG00000134108	ENST00000429403	nonsense_mediated_decay	KNOWN	None	25564	309	102	5163934	5214420	1	ARL10C	FLJ10702, Gie1
3	ARL8B	ENSG00000134108	ENST00000444332	retained_intron	KNOWN	None	25564	None	None	5163977	5212622	1	ARL10C	FLJ10702, Gie1
3	ARL8B	ENSG00000134108	ENST00000455168	nonsense_mediated_decay	KNOWN	None	25564	312	103	5163977	5221331	1	ARL10C	FLJ10702, Gie1
3	ARL8B	ENSG00000134108	ENST00000419534	protein_coding	KNOWN	None	25564	492	163	5163981	5221490	1	ARL10C	FLJ10702, Gie1
3	ARL8B	ENSG00000134108	ENST00000468010	processed_transcript	KNOWN	None	25564	None	None	5212237	5220654	1	ARL10C	FLJ10702, Gie1
3	ARL8B	ENSG00000134108	ENST00000476343	retained_intron	KNOWN	None	25564	None	None	5215938	5220393	1	ARL10C	FLJ10702, Gie1
8	None	ENSG00000253664	ENST00000521294	antisense	KNOWN	None	None	None	None	52170248	52233678	1	None	None
14	ELK2AP	ENSG00000213140	ENST00000392510	processed_pseudogene	KNOWN	None	3323	None	None	106138645	106139651	-1	ELK2, ELK2P1	ELK2.1
21	RNU6-859P	ENSG00000199598	ENST00000362728	snRNA	KNOWN	None	47822	None	None	45339676	45339782	-1	None	None
2	None	ENSG00000239077	ENST00000459478	snoRNA	NOVEL	None	None	None	None	114605710	114605813	-1	None	None
11	None	ENSG00000207299	ENST00000384569	snoRNA	NOVEL	None	None	None	None	89851559	89851629	1	None	None
21	RNU6-1150P	ENSG00000252606	ENST00000516797	snRNA	KNOWN	None	48113	None	None	45416203	45416301	-1	None	None
4	NKX3-2	ENSG00000109705	ENST00000382438	protein_coding	KNOWN	CCDS3410	951	1002	333	13542454	13546674	-1	BAPX1	NKX3B, NKX3.2
1	None	ENSG00000231365	ENST00000425884	antisense	KNOWN	None	None	None	None	119683019	119693557	1	None	None
1	None	ENSG00000231365	ENST00000440150	antisense	KNOWN	None	None	None	None	119683048	119726446	1	None	None
1	None	ENSG00000231365	ENST00000457043	antisense	KNOWN	None	None	None	None	119683331	119684823	1	None	None
1	None	ENSG00000231365	ENST00000413531	antisense	KNOWN	None	None	None	None	119683353	119776804	1	None	None
1	None	ENSG00000231365	ENST00000418015	antisense	KNOWN	None	None	None	None	119683353	119818596	1	None	None
1	None	ENSG00000231365	ENST00000445565	antisense	KNOWN	None	None	None	None	119689032	119689656	1	None	None
2	None	ENSG00000232023	ENST00000432481	lincRNA	KNOWN	None	None	None	None	229347977	229476111	-1	None	None
2	None	ENSG00000270019	ENST00000602760	lincRNA	KNOWN	None	None	None	None	114645780	114647327	-1	None	None
8	None	ENSG00000254025	ENST00000521785	processed_pseudogene	KNOWN	None	None	None	None	52348162	52349069	1	None	None
11	OR4C2P	ENSG00000182565	ENST00000530855	unprocessed_pseudogene	KNOWN	None	14696	None	None	48441762	48442825	1	OR4C8P	None
1	None	ENSG00000224000	ENST00000452366	lincRNA	KNOWN	None	None	None	None	172876040	172876824	1	None	None
3	None	ENSG00000254782	ENST00000488257	processed_transcript	KNOWN	None	None	None	None	51995228	52008047	-1	None	None
21	H2AFZP1	ENSG00000213440	ENST00000416034	processed_pseudogene	KNOWN	None	4742	None	None	45466228	45466922	-1	H2AFZP	None
HG1032_PATCH	None	ENSG00000261806	ENST00000569861	unprocessed_pseudogene	KNOWN	None	None	None	None	190989171	190990605	1	None	None
3	RNA5SP125	ENSG00000201713	ENST00000364843	rRNA	KNOWN	None	43025	None	None	25066498	25066617	1	RN5S125	None
12	None	ENSG00000258184	ENST00000551882	processed_pseudogene	KNOWN	None	None	None	None	60609775	60610165	1	None	None
8	None	ENSG00000253549	ENST00000517697	antisense	KNOWN	None	None	None	None	86354080	86376562	-1	None	None
8	None	ENSG00000253549	ENST00000521761	antisense	KNOWN	None	None	None	None	86354276	86377144	-1	None	None
8	None	ENSG00000253549	ENST00000524052	antisense	KNOWN	None	None	None	None	86368852	86375283	-1	None	None
2	None	ENSG00000234199	ENST00000412690	lincRNA	KNOWN	None	None	None	None	114737146	114764879	1	None	None
3	CFL1P7	ENSG00000213877	ENST00000424759	processed_pseudogene	KNOWN	None	39959	None	None	25365665	25366150	1	None	None
2	None	ENSG00000251801	ENST00000515992	snoRNA	NOVEL	None	None	None	None	229452519	229452589	-1	None	None
17	GH1	ENSG00000259384	ENST00000351388	protein_coding	KNOWN	CCDS11654	4261	534	177	61994560	61996178	-1	None	GH-N, GHN, GH, hGH-N
17	GH1	ENSG00000259384	ENST00000458650	protein_coding	KNOWN	CCDS45760	4261	609	202	61994563	61996177	-1	None	GH-N, GHN, GH, hGH-N
17	GH1	ENSG00000259384	ENST00000323322	protein_coding	KNOWN	CCDS11653	4261	654	217	61994563	61996179	-1	None	GH-N, GHN, GH, hGH-N
17	GH1	ENSG00000259384	ENST00000342364	protein_coding	KNOWN	CCDS42371	4261	369	122	61994669	61996136	-1	None	GH-N, GHN, GH, hGH-N
17	GH1	ENSG00000259384	ENST00000579711	retained_intron	KNOWN	None	4261	None	None	61994854	61996028	-1	None	GH-N, GHN, GH, hGH-N
HSCHR17_1	None	ENSG00000257305	ENST00000549737	pseudogene	NOVEL	None	None	None	None	44560986	44561298	1	None	None
12	None	ENSG00000256658	ENST00000542291	antisense	KNOWN	None	None	None	None	12876231	12876945	-1	None	None
1	GOT2P2	ENSG00000230849	ENST00000450663	processed_pseudogene	KNOWN	None	4435	None	None	173110239	173111489	-1	GOT2L2	None
2	None	ENSG00000228226	ENST00000442062	lincRNA	KNOWN	None	None	None	None	229548253	229549296	-1	None	None
2	None	ENSG00000243179	ENST00000420161	lincRNA	KNOWN	None	None	None	None	114737486	114740835	1	None	None
13	None	ENSG00000271337	ENST00000605569	processed_pseudogene	KNOWN	None	None	None	None	37378335	37379439	-1	None	None
2	IGKV3-15	ENSG00000244437	ENST00000390252	IG_V_gene	KNOWN	None	5816	345	114	89384673	89385283	-1	None	None
15	None	ENSG00000259602	ENST00000559620	antisense	KNOWN	None	None	None	None	49230433	49240228	1	None	None
15	GOLGA6C	ENSG00000167195	ENST00000300576	protein_coding	KNOWN	CCDS58388	32206	2082	693	75550940	75562540	1	None	None
3	None	ENSG00000225611	ENST00000432377	antisense	KNOWN	None	None	None	None	42812104	42815127	1	None	None
2	None	ENSG00000213283	ENST00000393279	unprocessed_pseudogene	KNOWN	None	None	None	None	96191093	96192968	1	None	None
HSCHR17_1	None	ENSG00000257468	ENST00000548525	pseudogene	NOVEL	None	None	None	None	44588766	44589837	-1	None	None
3	ALDOAP1	ENSG00000242849	ENST00000491506	processed_pseudogene	KNOWN	None	415	None	None	52227186	52228801	1	None	None
2	None	ENSG00000215984	ENST00000401165	miRNA	NOVEL	None	None	None	None	114747587	114747673	-1	None	None
14	None	ENSG00000257608	ENST00000550534	processed_pseudogene	KNOWN	None	None	None	None	19614216	19615884	-1	None	None
12	None	ENSG00000266218	ENST00000581233	miRNA	NOVEL	None	None	None	None	8579196	8579283	-1	None	None
2	RPL7L1P10	ENSG00000237322	ENST00000427790	processed_pseudogene	KNOWN	None	39492	None	None	229618040	229618502	1	None	None
7	ABCB8	ENSG00000197150	ENST00000461373	protein_coding	PUTATIVE	None	49	444	147	150725510	150730929	1	None	EST328128, M-ABC1, MABC1
7	ABCB8	ENSG00000197150	ENST00000358849	protein_coding	KNOWN	CCDS5913	49	2157	718	150725510	150744869	1	None	EST328128, M-ABC1, MABC1
7	ABCB8	ENSG00000197150	ENST00000482309	nonsense_mediated_decay	KNOWN	None	49	120	39	150725513	150742496	1	None	EST328128, M-ABC1, MABC1
7	ABCB8	ENSG00000197150	ENST00000488826	processed_transcript	KNOWN	None	49	None	None	150725524	150730837	1	None	EST328128, M-ABC1, MABC1
7	ABCB8	ENSG00000197150	ENST00000489192	nonsense_mediated_decay	KNOWN	None	49	177	58	150725525	150731638	1	None	EST328128, M-ABC1, MABC1
7	ABCB8	ENSG00000197150	ENST00000471796	processed_transcript	KNOWN	None	49	None	None	150725537	150730121	1	None	EST328128, M-ABC1, MABC1
7	ABCB8	ENSG00000197150	ENST00000462605	retained_intron	KNOWN	None	49	None	None	150725537	150730329	1	None	EST328128, M-ABC1, MABC1
7	ABCB8	ENSG00000197150	ENST00000466956	processed_transcript	KNOWN	None	49	None	None	150725537	150731686	1	None	EST328128, M-ABC1, MABC1
7	ABCB8	ENSG00000197150	ENST00000470645	nonsense_mediated_decay	KNOWN	None	49	147	48	150725537	150739117	1	None	EST328128, M-ABC1, MABC1
7	ABCB8	ENSG00000197150	ENST00000297504	protein_coding	KNOWN	None	49	2208	735	150725537	150742649	1	None	EST328128, M-ABC1, MABC1
7	ABCB8	ENSG00000197150	ENST00000466514	nonsense_mediated_decay	KNOWN	None	49	120	39	150725537	150742649	1	None	EST328128, M-ABC1, MABC1
7	ABCB8	ENSG00000197150	ENST00000498578	protein_coding	NOVEL	None	49	2082	693	150725549	150742650	1	None	EST328128, M-ABC1, MABC1
7	ABCB8	ENSG00000197150	ENST00000477719	protein_coding	NOVEL	None	49	1230	409	150725551	150734611	1	None	EST328128, M-ABC1, MABC1
7	ABCB8	ENSG00000197150	ENST00000477092	protein_coding	NOVEL	None	49	1296	431	150725554	150734657	1	None	EST328128, M-ABC1, MABC1
7	ABCB8	ENSG00000197150	ENST00000472698	processed_transcript	KNOWN	None	49	None	None	150725560	150728713	1	None	EST328128, M-ABC1, MABC1
7	ABCB8	ENSG00000197150	ENST00000488370	processed_transcript	KNOWN	None	49	None	None	150725563	150730785	1	None	EST328128, M-ABC1, MABC1
7	ABCB8	ENSG00000197150	ENST00000488551	nonsense_mediated_decay	KNOWN	None	49	147	48	150725563	150731634	1	None	EST328128, M-ABC1, MABC1
7	ABCB8	ENSG00000197150	ENST00000469410	processed_transcript	KNOWN	None	49	None	None	150725744	150730147	1	None	EST328128, M-ABC1, MABC1
7	ABCB8	ENSG00000197150	ENST00000493338	processed_transcript	KNOWN	None	49	None	None	150730017	150731684	1	None	EST328128, M-ABC1, MABC1
7	ABCB8	ENSG00000197150	ENST00000491920	protein_coding	PUTATIVE	None	49	421	139	150732706	150734673	1	None	EST328128, M-ABC1, MABC1
7	ABCB8	ENSG00000197150	ENST00000482899	retained_intron	KNOWN	None	49	None	None	150734775	150742649	1	None	EST328128, M-ABC1, MABC1
7	ABCB8	ENSG00000197150	ENST00000542328	protein_coding	KNOWN	None	49	1893	630	150725537	150742496	1	None	EST328128, M-ABC1, MABC1
7	ABCB8	ENSG00000197150	ENST00000356058	protein_coding	KNOWN	None	49	1404	467	150725549	150742649	1	None	EST328128, M-ABC1, MABC1
2	None	ENSG00000212182	ENST00000390880	snoRNA	NOVEL	None	None	None	None	114763018	114763232	-1	None	None
8	None	ENSG00000254225	ENST00000522014	processed_pseudogene	KNOWN	None	None	None	None	52634230	52634724	-1	None	None
13	SMAD9-AS1	ENSG00000236711	ENST00000437983	antisense	KNOWN	None	39963	None	None	37423503	37424183	-1	None	None
3	None	ENSG00000235288	ENST00000449063	antisense	KNOWN	None	None	None	None	42846696	42893920	-1	None	None
8	None	ENSG00000254330	ENST00000519680	sense_intronic	KNOWN	None	None	None	None	65616331	65647016	-1	None	None
14	None	ENSG00000253701	ENST00000497872	lincRNA	KNOWN	None	None	None	None	106170301	106170939	-1	None	None
11	DISC1FP1	ENSG00000261645	ENST00000562245	lincRNA	KNOWN	None	33625	None	None	89984400	90648220	1	None	None
11	DISC1FP1	ENSG00000261645	ENST00000561596	lincRNA	KNOWN	None	33625	None	None	89984453	90596527	1	None	None
11	DISC1FP1	ENSG00000261645	ENST00000562678	lincRNA	KNOWN	None	33625	None	None	90222478	90596864	1	None	None
11	DISC1FP1	ENSG00000261645	ENST00000563681	lincRNA	KNOWN	None	33625	None	None	90224887	90585825	1	None	None
11	DISC1FP1	ENSG00000261645	ENST00000569513	retained_intron	KNOWN	None	33625	None	None	90585233	90586966	1	None	None
2	None	ENSG00000235242	ENST00000450325	lincRNA	KNOWN	None	None	None	None	114879851	114880870	-1	None	None
HSCHR6_MHC_QBL	ETF1P1	ENSG00000232516	ENST00000417770	processed_pseudogene	KNOWN	None	3478	None	None	29989038	29990327	1	SUP45L2	HCGVII
7	RNU6ATAC40P	ENSG00000221507	ENST00000408580	snRNA	KNOWN	None	46939	None	None	144148774	144148910	1	None	None
2	None	ENSG00000236431	ENST00000445492	processed_pseudogene	KNOWN	None	None	None	None	96201865	96202243	-1	None	None
13	LAMTOR3P1	ENSG00000228825	ENST00000428620	processed_pseudogene	KNOWN	None	39726	None	None	37496676	37497045	1	None	None
5	MARCH6	ENSG00000145495	ENST00000449913	protein_coding	NOVEL	CCDS59487	30550	2589	862	10353815	10434073	1	None	TEB4, MARCH-VI, RNF176
5	MARCH6	ENSG00000145495	ENST00000502795	nonsense_mediated_decay	KNOWN	None	30550	234	77	10353823	10391686	1	None	TEB4, MARCH-VI, RNF176
5	MARCH6	ENSG00000145495	ENST00000511802	retained_intron	KNOWN	None	30550	None	None	10353827	10434397	1	None	TEB4, MARCH-VI, RNF176
5	MARCH6	ENSG00000145495	ENST00000503788	protein_coding	NOVEL	CCDS59488	30550	2418	805	10353828	10434069	1	None	TEB4, MARCH-VI, RNF176
5	MARCH6	ENSG00000145495	ENST00000274140	protein_coding	KNOWN	CCDS34135	30550	2733	910	10353879	10440500	1	None	TEB4, MARCH-VI, RNF176
5	MARCH6	ENSG00000145495	ENST00000510872	processed_transcript	KNOWN	None	30550	None	None	10354080	10390603	1	None	TEB4, MARCH-VI, RNF176
5	MARCH6	ENSG00000145495	ENST00000507863	processed_transcript	KNOWN	None	30550	None	None	10354751	10390604	1	None	TEB4, MARCH-VI, RNF176
5	MARCH6	ENSG00000145495	ENST00000506131	retained_intron	KNOWN	None	30550	None	None	10387037	10390612	1	None	TEB4, MARCH-VI, RNF176
5	MARCH6	ENSG00000145495	ENST00000514961	retained_intron	KNOWN	None	30550	None	None	10401045	10402563	1	None	TEB4, MARCH-VI, RNF176
5	MARCH6	ENSG00000145495	ENST00000510792	protein_coding	PUTATIVE	None	30550	1827	608	10401969	10433796	1	None	TEB4, MARCH-VI, RNF176
5	MARCH6	ENSG00000145495	ENST00000512449	retained_intron	KNOWN	None	30550	None	None	10410265	10423947	1	None	TEB4, MARCH-VI, RNF176
5	MARCH6	ENSG00000145495	ENST00000505253	processed_transcript	KNOWN	None	30550	None	None	10413386	10422148	1	None	TEB4, MARCH-VI, RNF176
5	MARCH6	ENSG00000145495	ENST00000514312	retained_intron	KNOWN	None	30550	None	None	10415711	10417563	1	None	TEB4, MARCH-VI, RNF176
5	MARCH6	ENSG00000145495	ENST00000606497	processed_transcript	KNOWN	None	30550	None	None	10434041	10437961	1	None	TEB4, MARCH-VI, RNF176
15	None	ENSG00000271072	ENST00000603694	processed_pseudogene	KNOWN	None	None	None	None	72742998	72743815	1	None	None
11	None	ENSG00000254734	ENST00000530249	lincRNA	KNOWN	None	None	None	None	29735456	29903261	1	None	None
1	None	ENSG00000226375	ENST00000436974	lincRNA	KNOWN	None	None	None	None	173143439	173144642	-1	None	None
HG1032_PATCH	None	ENSG00000261914	ENST00000571193	processed_pseudogene	KNOWN	None	None	None	None	191116882	191117345	1	None	None
2	IGKV1-16	ENSG00000240864	ENST00000479981	IG_V_gene	KNOWN	None	5732	351	116	89399352	89399854	-1	None	IGKV116, L1
11	OR4C10P	ENSG00000184789	ENST00000434991	unprocessed_pseudogene	KNOWN	None	14800	None	None	48453769	48454699	-1	None	None
15	None	ENSG00000266349	ENST00000578388	miRNA	NOVEL	None	None	None	None	62036140	62036218	1	None	None
14	None	ENSG00000264024	ENST00000581070	miRNA	NOVEL	None	None	None	None	106178260	106178329	-1	None	None
13	RPL29P28	ENSG00000232378	ENST00000421928	processed_pseudogene	KNOWN	None	36842	None	None	37500575	37501356	-1	None	None
15	KRT8P24	ENSG00000259500	ENST00000560290	processed_pseudogene	KNOWN	None	33376	None	None	49264000	49265558	1	None	None
1	ISG15	ENSG00000187608	ENST00000379389	protein_coding	KNOWN	CCDS6	4053	498	165	948803	949920	1	G1P2	IFI15, UCRP
7	EEF1A1P10	ENSG00000243746	ENST00000475365	processed_pseudogene	KNOWN	None	3205	None	None	144344279	144345668	-1	EEF1AL8	None
2	None	ENSG00000233037	ENST00000414271	processed_pseudogene	KNOWN	None	None	None	None	96208478	96208978	-1	None	None
15	None	ENSG00000259564	ENST00000559251	antisense	KNOWN	None	None	None	None	62126951	62144351	1	None	None
11	EIF4A2P3	ENSG00000254589	ENST00000525903	processed_pseudogene	KNOWN	None	45100	None	None	58009515	58010569	-1	None	None
14	IGHEP1	ENSG00000253692	ENST00000521393	IG_C_pseudogene	KNOWN	None	5523	None	None	106188131	106188864	-1	None	None
14	IGHEP1	ENSG00000253692	ENST00000558023	IG_C_pseudogene	KNOWN	None	5523	None	None	106185955	106188274	-1	None	None
HSCHR17_1	None	ENSG00000257537	ENST00000552071	pseudogene	NOVEL	None	None	None	None	44811786	44811978	1	None	None
1	None	ENSG00000251817	ENST00000516008	snoRNA	NOVEL	None	None	None	None	173250216	173250309	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000264165	ENST00000581009	miRNA	NOVEL	None	None	None	None	30046174	30046306	-1	None	None
8	None	ENSG00000254006	ENST00000522106	lincRNA	KNOWN	None	None	None	None	65713793	65730130	-1	None	None
8	None	ENSG00000254006	ENST00000523769	lincRNA	KNOWN	None	None	None	None	65713915	65718257	-1	None	None
12	None	ENSG00000214487	ENST00000439409	processed_pseudogene	KNOWN	None	None	None	None	8580236	8581206	-1	None	None
1	None	ENSG00000232751	ENST00000433683	processed_pseudogene	KNOWN	None	None	None	None	173320828	173321143	1	None	None
2	OR7E102P	ENSG00000168992	ENST00000448855	unprocessed_pseudogene	KNOWN	None	15043	None	None	96212279	96213293	1	OR7E102	None
2	OR7E102P	ENSG00000168992	ENST00000306515	unprocessed_pseudogene	KNOWN	None	15043	None	None	96212287	96213315	1	OR7E102	None
1	None	ENSG00000227056	ENST00000425480	processed_pseudogene	KNOWN	None	None	None	None	119761937	119762719	-1	None	None
HSCHR6_MHC_QBL	TRIM31-AS1	ENSG00000229223	ENST00000413394	processed_transcript	KNOWN	None	39761	None	None	30062586	30072064	1	None	None
3	NPHP3-AS1	ENSG00000248724	ENST00000489343	antisense	KNOWN	None	24129	None	None	132440594	132469621	1	NCRNA00119	None
3	NPHP3-AS1	ENSG00000248724	ENST00000504440	antisense	KNOWN	None	24129	None	None	132441186	132593067	1	NCRNA00119	None
HSCHR17_1	None	ENSG00000265274	ENST00000579570	misc_RNA	NOVEL	None	None	None	None	44856602	44856882	1	None	None
2	IGKV1-17	ENSG00000240382	ENST00000490686	IG_V_gene	KNOWN	None	5733	351	116	89416833	89417335	-1	None	IGKV117, A30
HSCHR6_MHC_QBL	None	ENSG00000265602	ENST00000583665	snoRNA	NOVEL	None	None	None	None	30090143	30090303	-1	None	None
14	None	ENSG00000225210	ENST00000432001	lincRNA	KNOWN	None	None	None	None	19650018	19691922	1	None	None
14	None	ENSG00000225210	ENST00000547220	lincRNA	KNOWN	None	None	None	None	19650021	19656210	1	None	None
14	None	ENSG00000225210	ENST00000412017	lincRNA	KNOWN	None	None	None	None	19650021	19691583	1	None	None
14	None	ENSG00000225210	ENST00000441500	lincRNA	KNOWN	None	None	None	None	19650032	19692921	1	None	None
14	None	ENSG00000225210	ENST00000418499	lincRNA	KNOWN	None	None	None	None	19650037	19687565	1	None	None
14	None	ENSG00000225210	ENST00000553119	lincRNA	KNOWN	None	None	None	None	19650042	19718563	1	None	None
14	None	ENSG00000225210	ENST00000549484	lincRNA	KNOWN	None	None	None	None	19650060	19656228	1	None	None
14	None	ENSG00000225210	ENST00000548475	lincRNA	KNOWN	None	None	None	None	19650061	19691701	1	None	None
14	None	ENSG00000225210	ENST00000431094	lincRNA	KNOWN	None	None	None	None	19650061	19695180	1	None	None
14	None	ENSG00000225210	ENST00000438128	lincRNA	KNOWN	None	None	None	None	19650066	19681593	1	None	None
14	None	ENSG00000225210	ENST00000551881	lincRNA	KNOWN	None	None	None	None	19650078	19663469	1	None	None
14	None	ENSG00000225210	ENST00000548271	lincRNA	KNOWN	None	None	None	None	19653908	19683250	1	None	None
14	None	ENSG00000225210	ENST00000427798	lincRNA	KNOWN	None	None	None	None	19653940	19681519	1	None	None
14	None	ENSG00000225210	ENST00000546389	lincRNA	KNOWN	None	None	None	None	19655782	19656886	1	None	None
14	None	ENSG00000225210	ENST00000550570	lincRNA	KNOWN	None	None	None	None	19680591	19683870	1	None	None
13	EIF4A1P5	ENSG00000226161	ENST00000428062	processed_pseudogene	KNOWN	None	37924	None	None	37512537	37513631	-1	None	None
3	HNRNPA1P22	ENSG00000236459	ENST00000437295	processed_pseudogene	KNOWN	None	39540	None	None	42930853	42931798	1	None	None
14	None	ENSG00000258975	ENST00000556546	lincRNA	KNOWN	None	None	None	None	88603077	88626189	-1	None	None
HSCHR6_MHC_QBL	PAIP1P1	ENSG00000228227	ENST00000415446	processed_pseudogene	KNOWN	None	18240	None	None	30144093	30145917	-1	None	bQB44E15.5, bPG254M11.3, bCX300M20.3
15	None	ENSG00000261187	ENST00000568345	lincRNA	KNOWN	None	None	None	None	72757469	72758603	-1	None	None
HSCHR6_MHC_DBB	None	ENSG00000258166	ENST00000546797	protein_coding	NOVEL	None	None	285	94	31612912	31644296	1	None	None
9	IFNA20P	ENSG00000226393	ENST00000436840	unprocessed_pseudogene	KNOWN	None	5444	None	None	21321299	21321826	1	IFNP20	None
1	None	ENSG00000231615	ENST00000432815	processed_pseudogene	KNOWN	None	None	None	None	173331536	173332872	-1	None	None
13	None	ENSG00000221100	ENST00000408173	miRNA	NOVEL	None	None	None	None	37608814	37608929	-1	None	None
1	None	ENSG00000238679	ENST00000459311	snoRNA	NOVEL	None	None	None	None	119801664	119801764	1	None	None
11	RN7SL240P	ENSG00000243505	ENST00000485204	misc_RNA	KNOWN	None	46256	None	None	29742946	29743238	-1	None	None
2	None	ENSG00000226297	ENST00000445757	processed_pseudogene	KNOWN	None	None	None	None	229868602	229869116	1	None	None
12	MIR613	ENSG00000207983	ENST00000385248	miRNA	KNOWN	None	32869	None	None	12917583	12917677	1	MIRN613	hsa-mir-613
8	None	ENSG00000272076	ENST00000605991	lincRNA	KNOWN	None	None	None	None	52722670	52723241	-1	None	None
13	RN7SKP1	ENSG00000202395	ENST00000365525	misc_RNA	KNOWN	None	42619	None	None	37740489	37740795	-1	None	None
11	OR4C9P	ENSG00000254925	ENST00000532368	unprocessed_pseudogene	KNOWN	None	14796	None	None	48485605	48486529	-1	None	None
3	RNA5SP126	ENSG00000201962	ENST00000365092	rRNA	KNOWN	None	43026	None	None	25393775	25393883	-1	RN5S126	None
1	None	ENSG00000227712	ENST00000457719	lincRNA	KNOWN	None	None	None	None	119802888	119869926	-1	None	None
10	None	ENSG00000223428	ENST00000447646	transcribed_processed_pseudogene	KNOWN	None	None	None	None	77048091	77048440	-1	None	None
2	TRIM51JP	ENSG00000232717	ENST00000443564	unprocessed_pseudogene	KNOWN	None	43978	None	None	96240647	96246512	1	None	None
14	None	ENSG00000259998	ENST00000563140	lincRNA	KNOWN	None	None	None	None	88624584	88626935	-1	None	None
15	RN7SL613P	ENSG00000264376	ENST00000584412	misc_RNA	KNOWN	None	46629	None	None	62206624	62206875	1	None	None
13	RPS12P24	ENSG00000230283	ENST00000412619	processed_pseudogene	KNOWN	None	35561	None	None	37794997	37795383	-1	None	None
17	RNA5SP442	ENSG00000201920	ENST00000365050	rRNA	KNOWN	None	43342	None	None	39874406	39874512	1	RN5S442	None
4	RNU6-173P	ENSG00000201085	ENST00000364215	snRNA	KNOWN	None	47136	None	None	189042685	189042788	-1	None	None
3	None	ENSG00000243224	ENST00000483834	antisense	KNOWN	None	None	None	None	52273274	52275113	1	None	None
3	None	ENSG00000243224	ENST00000464958	antisense	KNOWN	None	None	None	None	52273316	52275113	1	None	None
HSCHR6_MHC_QBL	HCG17	ENSG00000244695	ENST00000412040	processed_transcript	PUTATIVE	None	31339	None	None	30191334	30191772	-1	None	NCRNA00046, LINC00046
HSCHR6_MHC_QBL	HCG17	ENSG00000244695	ENST00000439480	processed_transcript	KNOWN	None	31339	None	None	30191334	30283408	-1	None	NCRNA00046, LINC00046
11	RPL7AP58	ENSG00000240554	ENST00000498657	processed_pseudogene	KNOWN	None	36586	None	None	29747311	29748112	1	None	None
1	None	ENSG00000203739	ENST00000367716	antisense	KNOWN	None	None	None	None	173386932	173430501	-1	None	None
1	None	ENSG00000203739	ENST00000437190	antisense	KNOWN	None	None	None	None	173387213	173411236	-1	None	None
15	None	ENSG00000270322	ENST00000605079	unprocessed_pseudogene	KNOWN	None	None	None	None	90825080	90825263	-1	None	None
8	None	ENSG00000253475	ENST00000518507	sense_intronic	KNOWN	None	None	None	None	52808517	52808934	-1	None	None
9	None	ENSG00000261696	ENST00000569618	lincRNA	KNOWN	None	None	None	None	21394887	21396345	-1	None	None
17	RN7SL399P	ENSG00000239542	ENST00000471648	misc_RNA	KNOWN	None	46415	None	None	39886381	39886657	-1	None	None
4	None	ENSG00000247130	ENST00000501322	antisense	KNOWN	None	None	None	None	189061976	189064533	-1	None	None
8	None	ENSG00000254380	ENST00000520459	lincRNA	KNOWN	None	None	None	None	86436128	86452740	1	None	None
2	SEPHS1P7	ENSG00000231926	ENST00000452995	processed_pseudogene	KNOWN	None	42167	None	None	115017627	115018803	-1	None	None
15	None	ENSG00000259251	ENST00000560813	antisense	KNOWN	None	None	None	None	62352702	62353473	1	None	None
15	None	ENSG00000259251	ENST00000558368	antisense	KNOWN	None	None	None	None	62352713	62354633	1	None	None
12	None	ENSG00000177586	ENST00000544395	processed_pseudogene	KNOWN	None	None	None	None	8589999	8591021	-1	None	None
2	IGKV3-20	ENSG00000239951	ENST00000492167	IG_V_gene	KNOWN	None	5817	348	115	89442057	89442643	-1	None	None
9	IFNA11P	ENSG00000231195	ENST00000446352	unprocessed_pseudogene	KNOWN	None	5442	None	None	21398613	21399138	-1	IFNP11	None
15	None	ENSG00000207105	ENST00000384377	misc_RNA	NOVEL	None	None	None	None	49288109	49288219	-1	None	None
4	None	ENSG00000248370	ENST00000502419	lincRNA	KNOWN	None	None	None	None	189081219	189082293	1	None	None
HG79_PATCH	C9orf96	ENSG00000260489	ENST00000570203	protein_coding	KNOWN	None	28669	2043	680	136251902	136281631	1	None	MGC43306
HG79_PATCH	C9orf96	ENSG00000260489	ENST00000566031	processed_transcript	KNOWN	None	28669	None	None	136254573	136260090	1	None	MGC43306
HG79_PATCH	C9orf96	ENSG00000260489	ENST00000566643	processed_transcript	KNOWN	None	28669	None	None	136254592	136260290	1	None	MGC43306
HG79_PATCH	C9orf96	ENSG00000260489	ENST00000567361	processed_transcript	KNOWN	None	28669	None	None	136269406	136271339	1	None	MGC43306
HG79_PATCH	C9orf96	ENSG00000260489	ENST00000566171	processed_transcript	KNOWN	None	28669	None	None	136270322	136271618	1	None	MGC43306
9	IFNA12P	ENSG00000235108	ENST00000413147	unprocessed_pseudogene	KNOWN	None	5443	None	None	21403080	21403650	1	IFNP12	None
1	None	ENSG00000232650	ENST00000420059	lincRNA	KNOWN	None	None	None	None	119870799	119873438	1	None	None
1	None	ENSG00000232650	ENST00000457683	lincRNA	KNOWN	None	None	None	None	119870875	119898805	1	None	None
3	None	ENSG00000229421	ENST00000443015	processed_pseudogene	KNOWN	None	None	None	None	25482655	25482993	-1	None	None
13	None	ENSG00000230390	ENST00000414480	lincRNA	KNOWN	None	None	None	None	38055604	38058906	-1	None	None
14	None	ENSG00000258538	ENST00000553487	lincRNA	KNOWN	None	None	None	None	88641735	88646542	1	None	None
14	None	ENSG00000258538	ENST00000556789	lincRNA	KNOWN	None	None	None	None	88643477	88646542	1	None	None
4	None	ENSG00000242169	ENST00000494861	processed_pseudogene	KNOWN	None	None	None	None	189270530	189271178	-1	None	None
7	PRKAG2-AS1	ENSG00000239911	ENST00000464464	antisense	KNOWN	None	40468	None	None	151574127	151575899	1	None	None
7	PRKAG2-AS1	ENSG00000239911	ENST00000467458	antisense	KNOWN	None	40468	None	None	151574550	151576299	1	None	None
12	None	ENSG00000252607	ENST00000516798	misc_RNA	NOVEL	None	None	None	None	60735605	60735722	-1	None	None
4	NARG2P1	ENSG00000248880	ENST00000512800	processed_pseudogene	KNOWN	None	48856	None	None	189308625	189310820	-1	None	None
11	None	ENSG00000213153	ENST00000529222	processed_pseudogene	KNOWN	None	None	None	None	133734772	133735522	-1	None	None
12	None	ENSG00000251822	ENST00000516013	snoRNA	NOVEL	None	None	None	None	60757603	60757716	1	None	None
17	RN7SL871P	ENSG00000263830	ENST00000583512	misc_RNA	KNOWN	None	46887	None	None	39993316	39993580	-1	None	None
12	None	ENSG00000270296	ENST00000603161	processed_pseudogene	KNOWN	None	None	None	None	12924285	12924639	-1	None	None
1	None	ENSG00000238272	ENST00000431459	antisense	KNOWN	None	None	None	None	173524390	173581911	1	None	None
7	None	ENSG00000270823	ENST00000604666	antisense	KNOWN	None	None	None	None	130135635	130138268	-1	None	None
2	None	ENSG00000238520	ENST00000458817	snoRNA	NOVEL	None	None	None	None	115038661	115038752	-1	None	None
6	LY86	ENSG00000112799	ENST00000379953	protein_coding	KNOWN	CCDS4498	16837	489	162	6588341	6655216	1	None	MD-1, dJ80N2.1
6	LY86	ENSG00000112799	ENST00000230568	protein_coding	KNOWN	CCDS4498	16837	489	162	6588902	6654864	1	None	MD-1, dJ80N2.1
15	RN7SL577P	ENSG00000265942	ENST00000584532	misc_RNA	KNOWN	None	46593	None	None	49334540	49334840	-1	None	None
12	None	ENSG00000257865	ENST00000546569	processed_pseudogene	KNOWN	None	None	None	None	60812764	60813074	1	None	None
13	RNA5SP26	ENSG00000199276	ENST00000362406	rRNA	KNOWN	None	42602	None	None	38428989	38429107	-1	RN5S26	None
X	RNU6-203P	ENSG00000206765	ENST00000384038	snRNA	KNOWN	None	47166	None	None	132665751	132665854	-1	None	None
17	None	ENSG00000259623	ENST00000560400	sense_overlapping	KNOWN	None	None	None	None	40004770	40007699	-1	None	None
11	None	ENSG00000255218	ENST00000529327	processed_pseudogene	KNOWN	None	None	None	None	58085109	58085847	-1	None	None
2	RNU2-41P	ENSG00000222923	ENST00000410991	snRNA	KNOWN	None	48534	None	None	115177702	115177879	1	None	None
11	COMMD9	ENSG00000110442	ENST00000263401	protein_coding	KNOWN	CCDS7900	25014	597	198	36295051	36310979	-1	None	HSPC166, FLJ31106
11	COMMD9	ENSG00000110442	ENST00000533308	processed_transcript	KNOWN	None	25014	None	None	36295510	36296233	-1	None	HSPC166, FLJ31106
11	COMMD9	ENSG00000110442	ENST00000452374	protein_coding	NOVEL	CCDS44571	25014	471	156	36295773	36310999	-1	None	HSPC166, FLJ31106
11	COMMD9	ENSG00000110442	ENST00000532705	protein_coding	NOVEL	None	25014	558	185	36295875	36310974	-1	None	HSPC166, FLJ31106
11	COMMD9	ENSG00000110442	ENST00000533643	retained_intron	KNOWN	None	25014	None	None	36296023	36297966	-1	None	HSPC166, FLJ31106
11	COMMD9	ENSG00000110442	ENST00000528608	retained_intron	KNOWN	None	25014	None	None	36298017	36310976	-1	None	HSPC166, FLJ31106
11	COMMD9	ENSG00000110442	ENST00000526789	retained_intron	KNOWN	None	25014	None	None	36299751	36310978	-1	None	HSPC166, FLJ31106
7	MIR335	ENSG00000199043	ENST00000362173	miRNA	KNOWN	None	31773	None	None	130135952	130136045	1	MIRN335	hsa-mir-335
8	None	ENSG00000253493	ENST00000520501	processed_pseudogene	KNOWN	None	None	None	None	65885723	65886083	-1	None	None
2	None	ENSG00000230083	ENST00000441078	processed_pseudogene	KNOWN	None	None	None	None	96256717	96256954	-1	None	None
13	HSPD1P9	ENSG00000228036	ENST00000420325	processed_pseudogene	KNOWN	None	35132	None	None	38567222	38568857	-1	None	HSPD1-14P
9	IFNWP2	ENSG00000237691	ENST00000431203	unprocessed_pseudogene	KNOWN	None	5452	None	None	21420233	21420812	1	None	None
1	None	ENSG00000232113	ENST00000417563	antisense	KNOWN	None	None	None	None	173604912	173606273	1	None	None
6	GCLC	ENSG00000001084	ENST00000509541	retained_intron	KNOWN	None	4311	None	None	53362139	53375246	-1	GLCLC, GLCL	GCS
6	GCLC	ENSG00000001084	ENST00000229416	protein_coding	KNOWN	CCDS4952	4311	1914	637	53362139	53409927	-1	GLCLC, GLCL	GCS
6	GCLC	ENSG00000001084	ENST00000515580	retained_intron	KNOWN	None	4311	None	None	53362940	53366148	-1	GLCLC, GLCL	GCS
6	GCLC	ENSG00000001084	ENST00000510837	retained_intron	KNOWN	None	4311	None	None	53363570	53370462	-1	GLCLC, GLCL	GCS
6	GCLC	ENSG00000001084	ENST00000504353	retained_intron	KNOWN	None	4311	None	None	53364998	53371876	-1	GLCLC, GLCL	GCS
6	GCLC	ENSG00000001084	ENST00000514373	protein_coding	PUTATIVE	None	4311	284	93	53370059	53371712	-1	GLCLC, GLCL	GCS
6	GCLC	ENSG00000001084	ENST00000504525	nonsense_mediated_decay	KNOWN	None	4311	165	54	53373395	53409886	-1	GLCLC, GLCL	GCS
6	GCLC	ENSG00000001084	ENST00000514004	protein_coding	PUTATIVE	None	4311	759	252	53377787	53409831	-1	GLCLC, GLCL	GCS
6	GCLC	ENSG00000001084	ENST00000505294	nonsense_mediated_decay	KNOWN	None	4311	369	122	53379005	53387577	-1	GLCLC, GLCL	GCS
6	GCLC	ENSG00000001084	ENST00000513939	protein_coding	NOVEL	None	4311	519	172	53379085	53409406	-1	GLCLC, GLCL	GCS
6	GCLC	ENSG00000001084	ENST00000514933	protein_coding	PUTATIVE	None	4311	463	153	53379133	53388122	-1	GLCLC, GLCL	GCS
6	GCLC	ENSG00000001084	ENST00000505197	protein_coding	PUTATIVE	None	4311	54	17	53387263	53481768	-1	GLCLC, GLCL	GCS
7	None	ENSG00000270953	ENST00000604965	antisense	KNOWN	None	None	None	None	130147501	130148123	1	None	None
1	RNU1-75P	ENSG00000194297	ENST00000347264	snRNA	KNOWN	None	48417	None	None	119874020	119874148	-1	None	None
12	None	ENSG00000257308	ENST00000548612	processed_pseudogene	KNOWN	None	None	None	None	61624940	61626718	-1	None	None
2	IGKV6-21	ENSG00000211611	ENST00000390256	IG_V_gene	KNOWN	None	5836	342	113	89459235	89459850	-1	None	IGKV621, A26
2	RN7SKP283	ENSG00000253006	ENST00000517197	misc_RNA	KNOWN	None	46007	None	None	230101056	230101325	-1	None	None
8	None	ENSG00000228801	ENST00000518942	antisense	KNOWN	None	None	None	None	52811885	52859165	1	None	None
8	None	ENSG00000228801	ENST00000423716	antisense	KNOWN	None	None	None	None	52812209	52859733	1	None	None
8	None	ENSG00000228801	ENST00000520357	antisense	KNOWN	None	None	None	None	52812275	52825698	1	None	None
8	None	ENSG00000228801	ENST00000521612	antisense	KNOWN	None	None	None	None	52812294	52824289	1	None	None
1	None	ENSG00000238430	ENST00000459202	snoRNA	NOVEL	None	None	None	None	173629236	173629339	-1	None	None
14	None	ENSG00000258949	ENST00000555157	antisense	KNOWN	None	None	None	None	45368111	45381066	-1	None	None
1	HAO2-IT1	ENSG00000230921	ENST00000419144	sense_intronic	KNOWN	None	41342	None	None	119911569	119912954	1	None	None
2	RNU7-9P	ENSG00000238782	ENST00000459349	snRNA	KNOWN	None	34105	None	None	230470954	230471015	1	None	U7.9
2	None	ENSG00000236026	ENST00000447357	processed_pseudogene	KNOWN	None	None	None	None	96272672	96272900	1	None	None
3	KRBOX1-AS1	ENSG00000206552	ENST00000447834	antisense	KNOWN	None	42942	None	None	42975744	42978277	-1	None	FLJ32776
1	None	ENSG00000225591	ENST00000455497	processed_pseudogene	KNOWN	None	None	None	None	173710813	173711067	1	None	None
15	NPM1P47	ENSG00000259466	ENST00000560843	processed_pseudogene	KNOWN	None	45226	None	None	62374649	62375504	-1	None	None
12	None	ENSG00000242329	ENST00000464893	processed_pseudogene	KNOWN	None	None	None	None	12993738	12994013	-1	None	None
9	IFNWP19	ENSG00000238271	ENST00000438727	unprocessed_pseudogene	KNOWN	None	5451	None	None	21455483	21456048	1	None	None
2	None	ENSG00000235993	ENST00000428736	processed_pseudogene	KNOWN	None	None	None	None	230566510	230566864	1	None	None
11	None	ENSG00000214391	ENST00000530835	processed_pseudogene	KNOWN	None	None	None	None	90015728	90017340	1	None	None
1	None	ENSG00000232780	ENST00000449411	processed_pseudogene	KNOWN	None	None	None	None	119977079	119977703	-1	None	None
11	OR4R1P	ENSG00000255215	ENST00000529879	unprocessed_pseudogene	KNOWN	None	14798	None	None	48507915	48508377	-1	None	None
2	DGKD	ENSG00000077044	ENST00000264057	protein_coding	KNOWN	CCDS2504	2851	3645	1214	234263153	234380746	1	None	KIAA0145, DGKdelta
2	DGKD	ENSG00000077044	ENST00000427930	protein_coding	NOVEL	None	2851	471	156	234263154	234344540	1	None	KIAA0145, DGKdelta
2	DGKD	ENSG00000077044	ENST00000447484	protein_coding	NOVEL	None	2851	494	163	234294591	234343545	1	None	KIAA0145, DGKdelta
2	DGKD	ENSG00000077044	ENST00000489613	processed_transcript	PUTATIVE	None	2851	None	None	234294700	234297631	1	None	KIAA0145, DGKdelta
2	DGKD	ENSG00000077044	ENST00000409813	protein_coding	KNOWN	CCDS46546	2851	3513	1170	234296800	234380742	1	None	KIAA0145, DGKdelta
2	DGKD	ENSG00000077044	ENST00000472732	processed_transcript	KNOWN	None	2851	None	None	234317537	234344570	1	None	KIAA0145, DGKdelta
2	DGKD	ENSG00000077044	ENST00000490764	retained_intron	KNOWN	None	2851	None	None	234327887	234366463	1	None	KIAA0145, DGKdelta
2	DGKD	ENSG00000077044	ENST00000474488	retained_intron	KNOWN	None	2851	None	None	234343113	234351237	1	None	KIAA0145, DGKdelta
2	DGKD	ENSG00000077044	ENST00000430834	nonsense_mediated_decay	KNOWN	None	2851	1355	450	234346959	234380750	1	None	KIAA0145, DGKdelta
2	DGKD	ENSG00000077044	ENST00000480535	processed_transcript	KNOWN	None	2851	None	None	234356347	234357801	1	None	KIAA0145, DGKdelta
2	DGKD	ENSG00000077044	ENST00000465569	retained_intron	KNOWN	None	2851	None	None	234356676	234357818	1	None	KIAA0145, DGKdelta
2	DGKD	ENSG00000077044	ENST00000471764	retained_intron	KNOWN	None	2851	None	None	234366885	234368513	1	None	KIAA0145, DGKdelta
2	DGKD	ENSG00000077044	ENST00000495901	retained_intron	KNOWN	None	2851	None	None	234372460	234375796	1	None	KIAA0145, DGKdelta
11	MIR4697	ENSG00000264919	ENST00000582977	miRNA	KNOWN	None	41570	None	None	133768399	133768476	-1	None	hsa-mir-4697
4	BOD1L1	ENSG00000038219	ENST00000040738	protein_coding	KNOWN	CCDS3411	31792	9156	3051	13570362	13629347	-1	FAM44A, BOD1L	FLJ33215, KIAA1327
4	BOD1L1	ENSG00000038219	ENST00000507943	protein_coding	NOVEL	None	31792	623	206	13571130	13582672	-1	FAM44A, BOD1L	FLJ33215, KIAA1327
4	BOD1L1	ENSG00000038219	ENST00000505343	retained_intron	KNOWN	None	31792	None	None	13571410	13579825	-1	FAM44A, BOD1L	FLJ33215, KIAA1327
4	BOD1L1	ENSG00000038219	ENST00000509897	retained_intron	KNOWN	None	31792	None	None	13579205	13581690	-1	FAM44A, BOD1L	FLJ33215, KIAA1327
4	BOD1L1	ENSG00000038219	ENST00000511119	retained_intron	KNOWN	None	31792	None	None	13583854	13595144	-1	FAM44A, BOD1L	FLJ33215, KIAA1327
4	BOD1L1	ENSG00000038219	ENST00000482713	nonsense_mediated_decay	KNOWN	None	31792	282	93	13615130	13629325	-1	FAM44A, BOD1L	FLJ33215, KIAA1327
7	RN7SKP174	ENSG00000200673	ENST00000363803	misc_RNA	KNOWN	None	45898	None	None	144546848	144547177	-1	None	None
2	None	ENSG00000271003	ENST00000603193	unprocessed_pseudogene	KNOWN	None	None	None	None	96272821	96282340	1	None	None
8	RNU7-153P	ENSG00000252264	ENST00000516455	snRNA	KNOWN	None	45687	None	None	14176964	14177025	1	None	None
12	RN7SL852P	ENSG00000265997	ENST00000579950	misc_RNA	KNOWN	None	46868	None	None	1119501	1119792	1	None	None
1	RN7SKP160	ENSG00000200674	ENST00000363804	misc_RNA	KNOWN	None	45884	None	None	173760686	173761025	1	None	None
2	None	ENSG00000270193	ENST00000604755	processed_pseudogene	KNOWN	None	None	None	None	96282240	96282981	1	None	None
15	None	ENSG00000259656	ENST00000557910	lincRNA	KNOWN	None	None	None	None	49393988	49395461	1	None	None
X	None	ENSG00000227008	ENST00000426577	processed_pseudogene	KNOWN	None	None	None	None	132804999	132805414	1	None	None
9	LPAR1	ENSG00000198121	ENST00000374431	protein_coding	KNOWN	CCDS6777	3166	1095	364	113635543	113800323	-1	EDG2	edg-2, rec.1.3, vzg-1, Gpcr26, Mrec1.3, LPA1, GPR26
9	LPAR1	ENSG00000198121	ENST00000374430	protein_coding	KNOWN	CCDS6777	3166	1095	364	113636058	113761746	-1	EDG2	edg-2, rec.1.3, vzg-1, Gpcr26, Mrec1.3, LPA1, GPR26
9	LPAR1	ENSG00000198121	ENST00000358883	protein_coding	KNOWN	CCDS6777	3166	1095	364	113636457	113800365	-1	EDG2	edg-2, rec.1.3, vzg-1, Gpcr26, Mrec1.3, LPA1, GPR26
9	LPAR1	ENSG00000198121	ENST00000441240	protein_coding	KNOWN	None	3166	546	181	113703948	113800738	-1	EDG2	edg-2, rec.1.3, vzg-1, Gpcr26, Mrec1.3, LPA1, GPR26
9	LPAR1	ENSG00000198121	ENST00000538760	protein_coding	KNOWN	None	3166	1098	365	113637456	113800981	-1	EDG2	edg-2, rec.1.3, vzg-1, Gpcr26, Mrec1.3, LPA1, GPR26
9	LPAR1	ENSG00000198121	ENST00000541779	protein_coding	KNOWN	None	3166	1098	365	113635544	113761720	-1	EDG2	edg-2, rec.1.3, vzg-1, Gpcr26, Mrec1.3, LPA1, GPR26
7	EI24P4	ENSG00000236343	ENST00000423683	processed_pseudogene	KNOWN	None	44589	None	None	144702151	144703228	1	None	None
8	RPL31P41	ENSG00000239261	ENST00000477967	processed_pseudogene	KNOWN	None	36720	None	None	66067642	66068013	1	None	None
12	None	ENSG00000243830	ENST00000477936	processed_pseudogene	KNOWN	None	None	None	None	8613214	8613828	1	None	None
1	None	ENSG00000252357	ENST00000516548	misc_RNA	NOVEL	None	None	None	None	173777627	173777760	1	None	None
10	SH3PXD2A	ENSG00000107957	ENST00000369774	protein_coding	KNOWN	None	23664	3402	1133	105353784	105615301	-1	SH3MD1	FISH, KIAA0418
10	SH3PXD2A	ENSG00000107957	ENST00000315994	processed_transcript	KNOWN	None	23664	None	None	105359277	105453381	-1	SH3MD1	FISH, KIAA0418
10	SH3PXD2A	ENSG00000107957	ENST00000420222	protein_coding	KNOWN	None	23664	3181	1059	105361503	105561055	-1	SH3MD1	FISH, KIAA0418
10	SH3PXD2A	ENSG00000107957	ENST00000427662	protein_coding	KNOWN	None	23664	1110	369	105348285	105452930	-1	SH3MD1	FISH, KIAA0418
10	SH3PXD2A	ENSG00000107957	ENST00000355946	protein_coding	KNOWN	CCDS31278	23664	3318	1105	105353786	105615164	-1	SH3MD1	FISH, KIAA0418
10	SH3PXD2A	ENSG00000107957	ENST00000540321	protein_coding	KNOWN	None	23664	3003	1000	105361470	105437922	-1	SH3MD1	FISH, KIAA0418
10	SH3PXD2A	ENSG00000107957	ENST00000538130	protein_coding	KNOWN	None	23664	2907	968	105361532	105421462	-1	SH3MD1	FISH, KIAA0418
17	TTC25	ENSG00000204815	ENST00000593239	processed_transcript	KNOWN	None	25280	None	None	40086888	40094943	1	None	DKFZP434H0115
17	TTC25	ENSG00000204815	ENST00000591658	processed_transcript	KNOWN	None	25280	None	None	40086909	40117363	1	None	DKFZP434H0115
17	TTC25	ENSG00000204815	ENST00000585530	processed_transcript	KNOWN	None	25280	None	None	40091551	40093294	1	None	DKFZP434H0115
17	TTC25	ENSG00000204815	ENST00000377540	processed_transcript	KNOWN	None	25280	None	None	40086898	40117648	1	None	DKFZP434H0115
1	GAS5-AS1	ENSG00000270084	ENST00000602767	antisense	KNOWN	None	44119	None	None	173832386	173833079	1	None	None
8	None	ENSG00000213873	ENST00000518241	processed_pseudogene	KNOWN	None	None	None	None	66289827	66290346	1	None	None
2	UBTFL3	ENSG00000204699	ENST00000418934	unprocessed_pseudogene	KNOWN	None	35402	None	None	96290961	96291984	1	None	None
2	UBTFL3	ENSG00000204699	ENST00000377168	unprocessed_pseudogene	KNOWN	None	35402	None	None	96285392	96296321	1	None	None
2	RNU6-613P	ENSG00000222344	ENST00000410412	snRNA	KNOWN	None	47576	None	None	230759062	230759169	1	None	None
14	None	ENSG00000258983	ENST00000555444	antisense	KNOWN	None	None	None	None	88965678	88981433	1	None	None
HSCHR1_2_CTG31	CLK2	ENSG00000261893	ENST00000572269	protein_coding	KNOWN	None	2069	1497	498	155248063	155258482	-1	None	clk2
HSCHR1_2_CTG31	CLK2	ENSG00000261893	ENST00000574445	protein_coding	KNOWN	None	2069	1500	499	155248063	155258711	-1	None	clk2
HSCHR1_2_CTG31	CLK2	ENSG00000261893	ENST00000570717	processed_transcript	KNOWN	None	2069	None	None	155248069	155258524	-1	None	clk2
HSCHR1_2_CTG31	CLK2	ENSG00000261893	ENST00000576584	protein_coding	KNOWN	None	2069	1494	497	155248069	155258677	-1	None	clk2
HSCHR1_2_CTG31	CLK2	ENSG00000261893	ENST00000574877	processed_transcript	KNOWN	None	2069	None	None	155248075	155254558	-1	None	clk2
HSCHR1_2_CTG31	CLK2	ENSG00000261893	ENST00000575900	processed_transcript	KNOWN	None	2069	None	None	155253289	155263686	-1	None	clk2
HSCHR1_2_CTG31	CLK2	ENSG00000261893	ENST00000570684	processed_transcript	KNOWN	None	2069	None	None	155254361	155256036	-1	None	clk2
11	None	ENSG00000261340	ENST00000561816	lincRNA	KNOWN	None	None	None	None	30001660	30003939	-1	None	None
3	None	ENSG00000232375	ENST00000417304	unprocessed_pseudogene	KNOWN	None	None	None	None	43078613	43078943	1	None	None
1	HSD3BP2	ENSG00000203858	ENST00000457615	unprocessed_pseudogene	KNOWN	None	5220	None	None	119981624	119988709	1	None	None
1	HSD3BP2	ENSG00000203858	ENST00000369414	unprocessed_pseudogene	KNOWN	None	5220	None	None	119981630	119985862	1	None	None
2	RNU6-964P	ENSG00000252333	ENST00000516524	snRNA	KNOWN	None	47927	None	None	230802530	230802598	-1	None	None
8	None	ENSG00000206950	ENST00000384223	misc_RNA	NOVEL	None	None	None	None	14190064	14190172	1	None	None
12	None	ENSG00000205056	ENST00000504409	lincRNA	KNOWN	None	None	None	None	92860227	92885867	1	None	None
3	None	ENSG00000227245	ENST00000457115	lincRNA	KNOWN	None	None	None	None	43128971	43129560	1	None	None
12	RPS2P41	ENSG00000244060	ENST00000493495	processed_pseudogene	KNOWN	None	36357	None	None	112317142	112318053	-1	None	None
2	FBXO36-IT1	ENSG00000231534	ENST00000432957	sense_intronic	KNOWN	None	41489	None	None	230807444	230809853	1	None	None
19	LENG1	ENSG00000105617	ENST00000222224	protein_coding	KNOWN	CCDS12881	15502	795	264	54658899	54663620	-1	None	None
8	RNU6-397P	ENSG00000252035	ENST00000516226	snRNA	KNOWN	None	47360	None	None	14345285	14345388	-1	None	None
X	None	ENSG00000221132	ENST00000408205	miRNA	NOVEL	None	None	None	None	100682381	100682483	-1	None	None
15	None	ENSG00000259697	ENST00000559985	lincRNA	KNOWN	None	None	None	None	62488344	62495517	-1	None	None
15	None	ENSG00000200120	ENST00000363250	misc_RNA	NOVEL	None	None	None	None	49429959	49430060	-1	None	None
HSCHR6_MHC_QBL	PPP1R11	ENSG00000206501	ENST00000400658	protein_coding	KNOWN	None	9285	225	74	30024068	30027692	1	TCTE5	HCGV, Tctex5, HCG-V
HSCHR6_MHC_QBL	PPP1R11	ENSG00000206501	ENST00000383612	protein_coding	KNOWN	None	9285	381	126	30024447	30027692	1	TCTE5	HCGV, Tctex5, HCG-V
HSCHR6_MHC_QBL	PPP1R11	ENSG00000206501	ENST00000400657	protein_coding	KNOWN	None	9285	225	74	30024564	30027692	1	TCTE5	HCGV, Tctex5, HCG-V
HSCHR6_MHC_QBL	PPP1R11	ENSG00000206501	ENST00000400656	protein_coding	KNOWN	None	9285	225	74	30024899	30027692	1	TCTE5	HCGV, Tctex5, HCG-V
HSCHR6_MHC_QBL	PPP1R11	ENSG00000206501	ENST00000400655	protein_coding	KNOWN	None	9285	225	74	30024935	30027692	1	TCTE5	HCGV, Tctex5, HCG-V
HSCHR6_MHC_QBL	PPP1R11	ENSG00000206501	ENST00000400654	protein_coding	KNOWN	None	9285	225	74	30025565	30027692	1	TCTE5	HCGV, Tctex5, HCG-V
1	PGBD2	ENSG00000185220	ENST00000355360	protein_coding	KNOWN	CCDS31129	19399	1026	341	249200395	249214145	1	None	None
1	PGBD2	ENSG00000185220	ENST00000329291	protein_coding	KNOWN	CCDS31128	19399	1779	592	249200442	249212772	1	None	None
1	PGBD2	ENSG00000185220	ENST00000462488	processed_transcript	KNOWN	None	19399	None	None	249200571	249211600	1	None	None
1	PGBD2	ENSG00000185220	ENST00000539153	protein_coding	KNOWN	None	19399	1770	589	249200464	249212769	1	None	None
4	ATP8A1	ENSG00000124406	ENST00000514372	nonsense_mediated_decay	KNOWN	None	13531	228	75	42410390	42509171	-1	None	ATPIA
4	ATP8A1	ENSG00000124406	ENST00000381668	protein_coding	KNOWN	CCDS3466	13531	3495	1164	42410390	42659122	-1	None	ATPIA
4	ATP8A1	ENSG00000124406	ENST00000264449	protein_coding	KNOWN	CCDS47049	13531	3450	1149	42410394	42659110	-1	None	ATPIA
4	ATP8A1	ENSG00000124406	ENST00000511858	retained_intron	KNOWN	None	13531	None	None	42414992	42417164	-1	None	ATPIA
4	ATP8A1	ENSG00000124406	ENST00000506602	nonsense_mediated_decay	KNOWN	None	13531	427	141	42425634	42487530	-1	None	ATPIA
4	ATP8A1	ENSG00000124406	ENST00000515872	nonsense_mediated_decay	KNOWN	None	13531	342	113	42461375	42467092	-1	None	ATPIA
4	ATP8A1	ENSG00000124406	ENST00000506713	retained_intron	KNOWN	None	13531	None	None	42554572	42558252	-1	None	ATPIA
4	ATP8A1	ENSG00000124406	ENST00000504510	retained_intron	KNOWN	None	13531	None	None	42583699	42590634	-1	None	ATPIA
4	ATP8A1	ENSG00000124406	ENST00000504024	nonsense_mediated_decay	KNOWN	None	13531	90	29	42583709	42618095	-1	None	ATPIA
4	ATP8A1	ENSG00000124406	ENST00000510289	protein_coding	PUTATIVE	None	13531	168	55	42627158	42659110	-1	None	ATPIA
14	None	ENSG00000249163	ENST00000556389	antisense	KNOWN	None	None	None	None	45552248	45553180	-1	None	None
11	OR4A48P	ENSG00000255113	ENST00000531359	unprocessed_pseudogene	KNOWN	None	31267	None	None	48513578	48513968	1	None	None
15	NDUFAF4P1	ENSG00000259467	ENST00000559425	processed_pseudogene	KNOWN	None	44194	None	None	49448526	49449044	1	None	None
X	None	ENSG00000234557	ENST00000414193	processed_pseudogene	KNOWN	None	None	None	None	100698695	100699091	-1	None	None
2	None	ENSG00000235959	ENST00000446969	processed_pseudogene	KNOWN	None	None	None	None	96305929	96306352	-1	None	None
2	RNU6-1027P	ENSG00000206725	ENST00000383998	snRNA	KNOWN	None	47990	None	None	230838031	230838137	1	None	None
11	ALDH3B2	ENSG00000132746	ENST00000530069	protein_coding	KNOWN	CCDS31622	411	1158	385	67429633	67448671	-1	ALDH8	None
11	ALDH3B2	ENSG00000132746	ENST00000531248	protein_coding	PUTATIVE	None	411	385	127	67430538	67432772	-1	ALDH8	None
11	ALDH3B2	ENSG00000132746	ENST00000534425	retained_intron	KNOWN	None	411	None	None	67431700	67435106	-1	ALDH8	None
11	ALDH3B2	ENSG00000132746	ENST00000525827	protein_coding	KNOWN	None	411	443	146	67433019	67442202	-1	ALDH8	None
11	ALDH3B2	ENSG00000132746	ENST00000528756	protein_coding	KNOWN	None	411	284	93	67433628	67435441	-1	ALDH8	None
11	ALDH3B2	ENSG00000132746	ENST00000531881	processed_transcript	KNOWN	None	411	None	None	67434045	67441262	-1	ALDH8	None
11	ALDH3B2	ENSG00000132746	ENST00000533962	processed_transcript	KNOWN	None	411	None	None	67434118	67438796	-1	ALDH8	None
11	ALDH3B2	ENSG00000132746	ENST00000349015	protein_coding	KNOWN	CCDS31622	411	1158	385	67429634	67442102	-1	ALDH8	None
HSCHR6_MHC_DBB	CSNK2B	ENSG00000230700	ENST00000424502	protein_coding	PUTATIVE	None	2460	705	234	31615195	31620030	1	None	None
HSCHR6_MHC_DBB	CSNK2B	ENSG00000230700	ENST00000443673	protein_coding	KNOWN	None	2460	648	215	31616024	31620030	1	None	None
HSCHR6_MHC_DBB	CSNK2B	ENSG00000230700	ENST00000490307	retained_intron	KNOWN	None	2460	None	None	31616041	31620303	1	None	None
HSCHR6_MHC_DBB	CSNK2B	ENSG00000230700	ENST00000476584	retained_intron	KNOWN	None	2460	None	None	31616047	31618201	1	None	None
HSCHR6_MHC_DBB	CSNK2B	ENSG00000230700	ENST00000492499	retained_intron	KNOWN	None	2460	None	None	31616054	31619424	1	None	None
HSCHR6_MHC_DBB	CSNK2B	ENSG00000230700	ENST00000485003	processed_transcript	KNOWN	None	2460	None	None	31616058	31620030	1	None	None
HSCHR6_MHC_DBB	CSNK2B	ENSG00000230700	ENST00000550832	retained_intron	KNOWN	None	2460	None	None	31616062	31617790	1	None	None
HSCHR6_MHC_DBB	CSNK2B	ENSG00000230700	ENST00000429633	protein_coding	KNOWN	None	2460	648	215	31616252	31620030	1	None	None
HSCHR6_MHC_DBB	CSNK2B	ENSG00000230700	ENST00000455161	protein_coding	KNOWN	None	2460	648	215	31616315	31620030	1	None	None
7	EIF2AK1	ENSG00000086232	ENST00000199389	protein_coding	KNOWN	CCDS5345	24921	1893	630	6061881	6098861	-1	None	HRI, KIAA1369
7	EIF2AK1	ENSG00000086232	ENST00000422786	protein_coding	PUTATIVE	None	24921	217	71	6062807	6066183	-1	None	HRI, KIAA1369
7	EIF2AK1	ENSG00000086232	ENST00000490523	retained_intron	KNOWN	None	24921	None	None	6063987	6068470	-1	None	HRI, KIAA1369
7	EIF2AK1	ENSG00000086232	ENST00000495565	processed_transcript	KNOWN	None	24921	None	None	6080590	6086533	-1	None	HRI, KIAA1369
7	EIF2AK1	ENSG00000086232	ENST00000474029	processed_transcript	KNOWN	None	24921	None	None	6080607	6086611	-1	None	HRI, KIAA1369
7	EIF2AK1	ENSG00000086232	ENST00000470168	retained_intron	KNOWN	None	24921	None	None	6080784	6086068	-1	None	HRI, KIAA1369
7	EIF2AK1	ENSG00000086232	ENST00000431744	nonsense_mediated_decay	KNOWN	None	24921	246	81	6085702	6098795	-1	None	HRI, KIAA1369
7	EIF2AK1	ENSG00000086232	ENST00000463213	retained_intron	KNOWN	None	24921	None	None	6086354	6098687	-1	None	HRI, KIAA1369
7	EIF2AK1	ENSG00000086232	ENST00000446699	protein_coding	NOVEL	None	24921	492	163	6086835	6098795	-1	None	HRI, KIAA1369
7	EIF2AK1	ENSG00000086232	ENST00000461493	retained_intron	KNOWN	None	24921	None	None	6089415	6098806	-1	None	HRI, KIAA1369
7	EIF2AK1	ENSG00000086232	ENST00000536084	protein_coding	KNOWN	None	24921	1734	577	6063256	6098795	-1	None	HRI, KIAA1369
12	None	ENSG00000249028	ENST00000513082	antisense	KNOWN	None	None	None	None	1489226	1500668	-1	None	None
2	RNY4P19	ENSG00000199400	ENST00000362530	misc_RNA	KNOWN	None	34069	None	None	230922945	230923040	-1	None	None
8	None	ENSG00000254081	ENST00000520902	lincRNA	KNOWN	None	None	None	None	66439243	66475015	-1	None	None
14	RNU4-22P	ENSG00000222990	ENST00000411058	snRNA	KNOWN	None	46958	None	None	88979842	88980007	1	None	None
X	None	ENSG00000211495	ENST00000390161	miRNA	NOVEL	None	None	None	None	132880775	132880873	-1	None	None
12	RNU6-275P	ENSG00000201780	ENST00000364910	snRNA	KNOWN	None	47238	None	None	8637342	8637448	1	None	None
2	None	ENSG00000231578	ENST00000445199	antisense	KNOWN	None	None	None	None	230990026	231032210	1	None	None
11	CADM1	ENSG00000182985	ENST00000545960	processed_transcript	KNOWN	None	5951	None	None	115039938	115069160	-1	TSLC1, IGSF4	NECL2, ST17, BL2, SYNCAM, IGSF4A, Necl-2, SYNCAM1, RA175
11	CADM1	ENSG00000182985	ENST00000603607	retained_intron	KNOWN	None	5951	None	None	115039956	115043922	-1	TSLC1, IGSF4	NECL2, ST17, BL2, SYNCAM, IGSF4A, Necl-2, SYNCAM1, RA175
11	CADM1	ENSG00000182985	ENST00000537140	processed_transcript	KNOWN	None	5951	None	None	115039956	115375241	-1	TSLC1, IGSF4	NECL2, ST17, BL2, SYNCAM, IGSF4A, Necl-2, SYNCAM1, RA175
11	CADM1	ENSG00000182985	ENST00000542447	protein_coding	KNOWN	CCDS53711	5951	1245	414	115044345	115375241	-1	TSLC1, IGSF4	NECL2, ST17, BL2, SYNCAM, IGSF4A, Necl-2, SYNCAM1, RA175
11	CADM1	ENSG00000182985	ENST00000452722	protein_coding	KNOWN	CCDS8373	5951	1329	442	115045027	115375133	-1	TSLC1, IGSF4	NECL2, ST17, BL2, SYNCAM, IGSF4A, Necl-2, SYNCAM1, RA175
11	CADM1	ENSG00000182985	ENST00000537058	protein_coding	NOVEL	None	5951	1362	453	115045027	115375133	-1	TSLC1, IGSF4	NECL2, ST17, BL2, SYNCAM, IGSF4A, Necl-2, SYNCAM1, RA175
11	CADM1	ENSG00000182985	ENST00000536727	protein_coding	NOVEL	None	5951	1332	443	115045027	115375133	-1	TSLC1, IGSF4	NECL2, ST17, BL2, SYNCAM, IGSF4A, Necl-2, SYNCAM1, RA175
11	CADM1	ENSG00000182985	ENST00000545380	protein_coding	NOVEL	None	5951	1240	412	115046061	115375107	-1	TSLC1, IGSF4	NECL2, ST17, BL2, SYNCAM, IGSF4A, Necl-2, SYNCAM1, RA175
11	CADM1	ENSG00000182985	ENST00000331581	protein_coding	NOVEL	None	5951	1416	471	115047015	115375283	-1	TSLC1, IGSF4	NECL2, ST17, BL2, SYNCAM, IGSF4A, Necl-2, SYNCAM1, RA175
11	CADM1	ENSG00000182985	ENST00000546000	retained_intron	KNOWN	None	5951	None	None	115047047	115049831	-1	TSLC1, IGSF4	NECL2, ST17, BL2, SYNCAM, IGSF4A, Necl-2, SYNCAM1, RA175
11	CADM1	ENSG00000182985	ENST00000543375	processed_transcript	PUTATIVE	None	5951	None	None	115047050	115064830	-1	TSLC1, IGSF4	NECL2, ST17, BL2, SYNCAM, IGSF4A, Necl-2, SYNCAM1, RA175
11	CADM1	ENSG00000182985	ENST00000540852	retained_intron	KNOWN	None	5951	None	None	115047128	115061766	-1	TSLC1, IGSF4	NECL2, ST17, BL2, SYNCAM, IGSF4A, Necl-2, SYNCAM1, RA175
11	CADM1	ENSG00000182985	ENST00000441886	processed_transcript	KNOWN	None	5951	None	None	115061329	115085414	-1	TSLC1, IGSF4	NECL2, ST17, BL2, SYNCAM, IGSF4A, Necl-2, SYNCAM1, RA175
11	CADM1	ENSG00000182985	ENST00000541434	retained_intron	KNOWN	None	5951	None	None	115085210	115375112	-1	TSLC1, IGSF4	NECL2, ST17, BL2, SYNCAM, IGSF4A, Necl-2, SYNCAM1, RA175
11	CADM1	ENSG00000182985	ENST00000540373	retained_intron	KNOWN	None	5951	None	None	115085419	115088864	-1	TSLC1, IGSF4	NECL2, ST17, BL2, SYNCAM, IGSF4A, Necl-2, SYNCAM1, RA175
11	CADM1	ENSG00000182985	ENST00000542450	protein_coding	PUTATIVE	None	5951	332	109	115088660	115111700	-1	TSLC1, IGSF4	NECL2, ST17, BL2, SYNCAM, IGSF4A, Necl-2, SYNCAM1, RA175
11	CADM1	ENSG00000182985	ENST00000543540	protein_coding	PUTATIVE	None	5951	237	78	115099876	115158197	-1	TSLC1, IGSF4	NECL2, ST17, BL2, SYNCAM, IGSF4A, Necl-2, SYNCAM1, RA175
11	CADM1	ENSG00000182985	ENST00000545094	protein_coding	PUTATIVE	None	5951	546	181	115099909	115127611	-1	TSLC1, IGSF4	NECL2, ST17, BL2, SYNCAM, IGSF4A, Necl-2, SYNCAM1, RA175
11	CADM1	ENSG00000182985	ENST00000543249	protein_coding	PUTATIVE	None	5951	565	187	115099940	115375675	-1	TSLC1, IGSF4	NECL2, ST17, BL2, SYNCAM, IGSF4A, Necl-2, SYNCAM1, RA175
11	CADM1	ENSG00000182985	ENST00000540951	nonsense_mediated_decay	KNOWN	None	5951	204	67	115102160	115375133	-1	TSLC1, IGSF4	NECL2, ST17, BL2, SYNCAM, IGSF4A, Necl-2, SYNCAM1, RA175
11	CADM1	ENSG00000182985	ENST00000536781	processed_transcript	PUTATIVE	None	5951	None	None	115269802	115375133	-1	TSLC1, IGSF4	NECL2, ST17, BL2, SYNCAM, IGSF4A, Necl-2, SYNCAM1, RA175
14	None	ENSG00000258789	ENST00000556328	antisense	KNOWN	None	None	None	None	89017941	89018837	1	None	None
8	None	ENSG00000263415	ENST00000580600	miRNA	NOVEL	None	None	None	None	14372250	14372374	1	None	None
12	None	ENSG00000246115	ENST00000501248	processed_pseudogene	KNOWN	None	None	None	None	8664970	8665322	-1	None	None
2	None	ENSG00000236750	ENST00000414800	processed_pseudogene	KNOWN	None	None	None	None	96307382	96307728	-1	None	None
7	None	ENSG00000214035	ENST00000423226	processed_pseudogene	KNOWN	None	None	None	None	144707054	144708086	1	None	None
X	RPSAP63	ENSG00000233260	ENST00000412013	processed_pseudogene	KNOWN	None	35581	None	None	132896823	132897710	1	None	None
17	ATP6V0A1	ENSG00000033627	ENST00000393829	protein_coding	KNOWN	CCDS11426	865	2496	831	40610862	40673503	1	VPP1, ATP6N1, ATP6N1A	a1, Vph1, Stv1
17	ATP6V0A1	ENSG00000033627	ENST00000588629	retained_intron	KNOWN	None	865	None	None	40610876	40623457	1	VPP1, ATP6N1, ATP6N1A	a1, Vph1, Stv1
17	ATP6V0A1	ENSG00000033627	ENST00000588901	nonsense_mediated_decay	KNOWN	None	865	207	68	40610896	40630528	1	VPP1, ATP6N1, ATP6N1A	a1, Vph1, Stv1
17	ATP6V0A1	ENSG00000033627	ENST00000537728	protein_coding	NOVEL	None	865	2367	788	40610896	40673412	1	VPP1, ATP6N1, ATP6N1A	a1, Vph1, Stv1
17	ATP6V0A1	ENSG00000033627	ENST00000264649	protein_coding	KNOWN	CCDS45683	865	2517	838	40610898	40674600	1	VPP1, ATP6N1, ATP6N1A	a1, Vph1, Stv1
17	ATP6V0A1	ENSG00000033627	ENST00000585525	protein_coding	NOVEL	None	865	2385	794	40610906	40673309	1	VPP1, ATP6N1, ATP6N1A	a1, Vph1, Stv1
17	ATP6V0A1	ENSG00000033627	ENST00000343619	protein_coding	KNOWN	CCDS45684	865	2514	837	40610906	40674629	1	VPP1, ATP6N1, ATP6N1A	a1, Vph1, Stv1
17	ATP6V0A1	ENSG00000033627	ENST00000589727	protein_coding	NOVEL	None	865	594	197	40610959	40635110	1	VPP1, ATP6N1, ATP6N1A	a1, Vph1, Stv1
17	ATP6V0A1	ENSG00000033627	ENST00000587824	protein_coding	KNOWN	None	865	392	129	40611087	40622205	1	VPP1, ATP6N1, ATP6N1A	a1, Vph1, Stv1
17	ATP6V0A1	ENSG00000033627	ENST00000589213	protein_coding	KNOWN	None	865	280	92	40612201	40620111	1	VPP1, ATP6N1, ATP6N1A	a1, Vph1, Stv1
17	ATP6V0A1	ENSG00000033627	ENST00000592324	protein_coding	NOVEL	None	865	585	194	40620054	40632735	1	VPP1, ATP6N1, ATP6N1A	a1, Vph1, Stv1
17	ATP6V0A1	ENSG00000033627	ENST00000587375	retained_intron	KNOWN	None	865	None	None	40622200	40632983	1	VPP1, ATP6N1, ATP6N1A	a1, Vph1, Stv1
17	ATP6V0A1	ENSG00000033627	ENST00000586001	retained_intron	KNOWN	None	865	None	None	40629661	40630967	1	VPP1, ATP6N1, ATP6N1A	a1, Vph1, Stv1
17	ATP6V0A1	ENSG00000033627	ENST00000587882	retained_intron	KNOWN	None	865	None	None	40632281	40639371	1	VPP1, ATP6N1, ATP6N1A	a1, Vph1, Stv1
17	ATP6V0A1	ENSG00000033627	ENST00000589759	processed_transcript	KNOWN	None	865	None	None	40633304	40642626	1	VPP1, ATP6N1, ATP6N1A	a1, Vph1, Stv1
17	ATP6V0A1	ENSG00000033627	ENST00000586315	retained_intron	KNOWN	None	865	None	None	40642555	40646607	1	VPP1, ATP6N1, ATP6N1A	a1, Vph1, Stv1
17	ATP6V0A1	ENSG00000033627	ENST00000587510	nonsense_mediated_decay	KNOWN	None	865	388	128	40652800	40665959	1	VPP1, ATP6N1, ATP6N1A	a1, Vph1, Stv1
17	ATP6V0A1	ENSG00000033627	ENST00000586201	protein_coding	PUTATIVE	None	865	567	188	40652831	40673462	1	VPP1, ATP6N1, ATP6N1A	a1, Vph1, Stv1
17	ATP6V0A1	ENSG00000033627	ENST00000588138	protein_coding	NOVEL	None	865	573	190	40653260	40673063	1	VPP1, ATP6N1, ATP6N1A	a1, Vph1, Stv1
17	ATP6V0A1	ENSG00000033627	ENST00000585828	retained_intron	KNOWN	None	865	None	None	40659353	40674600	1	VPP1, ATP6N1, ATP6N1A	a1, Vph1, Stv1
17	ATP6V0A1	ENSG00000033627	ENST00000588806	retained_intron	KNOWN	None	865	None	None	40665460	40673177	1	VPP1, ATP6N1, ATP6N1A	a1, Vph1, Stv1
17	ATP6V0A1	ENSG00000033627	ENST00000592831	retained_intron	KNOWN	None	865	None	None	40669945	40674596	1	VPP1, ATP6N1, ATP6N1A	a1, Vph1, Stv1
17	ATP6V0A1	ENSG00000033627	ENST00000587797	processed_transcript	KNOWN	None	865	None	None	40672353	40674595	1	VPP1, ATP6N1, ATP6N1A	a1, Vph1, Stv1
17	ATP6V0A1	ENSG00000033627	ENST00000587299	processed_transcript	KNOWN	None	865	None	None	40672401	40673803	1	VPP1, ATP6N1, ATP6N1A	a1, Vph1, Stv1
17	ATP6V0A1	ENSG00000033627	ENST00000546249	protein_coding	KNOWN	None	865	2514	837	40610862	40673503	1	VPP1, ATP6N1, ATP6N1A	a1, Vph1, Stv1
17	ATP6V0A1	ENSG00000033627	ENST00000544137	protein_coding	KNOWN	None	865	1452	483	40610922	40674596	1	VPP1, ATP6N1, ATP6N1A	a1, Vph1, Stv1
11	None	ENSG00000264674	ENST00000582427	miRNA	NOVEL	None	None	None	None	133826696	133826764	-1	None	None
15	MIR4716	ENSG00000264210	ENST00000579628	miRNA	KNOWN	None	41812	None	None	49461267	49461350	-1	None	hsa-mir-4716
21	HLCS	ENSG00000159267	ENST00000399120	protein_coding	KNOWN	CCDS13647	4976	2181	726	38123493	38338773	-1	None	HCS
21	HLCS	ENSG00000159267	ENST00000336648	protein_coding	KNOWN	CCDS13647	4976	2181	726	38123493	38362536	-1	None	HCS
21	HLCS	ENSG00000159267	ENST00000482273	processed_transcript	PUTATIVE	None	4976	None	None	38268870	38302717	-1	None	HCS
21	HLCS	ENSG00000159267	ENST00000448340	protein_coding	KNOWN	None	4976	277	91	38309468	38352928	-1	None	HCS
21	HLCS	ENSG00000159267	ENST00000419461	protein_coding	KNOWN	None	4976	260	85	38309485	38338939	-1	None	HCS
21	HLCS	ENSG00000159267	ENST00000427746	protein_coding	KNOWN	None	4976	231	76	38309514	38362524	-1	None	HCS
2	None	ENSG00000225963	ENST00000594622	antisense	KNOWN	None	None	None	None	231036815	231038539	1	None	None
2	None	ENSG00000225963	ENST00000600787	antisense	KNOWN	None	None	None	None	231036839	231038277	1	None	None
2	None	ENSG00000225963	ENST00000454058	antisense	KNOWN	None	None	None	None	231036839	231038822	1	None	None
2	None	ENSG00000225963	ENST00000595586	antisense	KNOWN	None	None	None	None	231036839	231038939	1	None	None
5	RNU6-1311P	ENSG00000207459	ENST00000384728	snRNA	KNOWN	None	48274	None	None	133970529	133970635	-1	None	None
5	BASP1	ENSG00000176788	ENST00000606445	protein_coding	KNOWN	None	957	137	44	17065707	17275462	1	None	NAP-22, NAP22, CAP23, CAP-23
5	BASP1	ENSG00000176788	ENST00000322611	protein_coding	KNOWN	CCDS3888	957	684	227	17217669	17276943	1	None	NAP-22, NAP22, CAP23, CAP-23
3	None	ENSG00000222331	ENST00000410399	miRNA	NOVEL	None	None	None	None	43252233	43252363	-1	None	None
3	None	ENSG00000241596	ENST00000491321	sense_intronic	KNOWN	None	None	None	None	115377380	115380126	1	None	None
8	None	ENSG00000272024	ENST00000607201	lincRNA	KNOWN	None	None	None	None	52862844	52863250	1	None	None
10	BEND7	ENSG00000165626	ENST00000486542	processed_transcript	KNOWN	None	23514	None	None	13480484	13502083	-1	C10orf30	FLJ40283
10	BEND7	ENSG00000165626	ENST00000341083	protein_coding	KNOWN	CCDS7099	23514	1407	468	13480637	13544976	-1	C10orf30	FLJ40283
10	BEND7	ENSG00000165626	ENST00000440282	protein_coding	KNOWN	None	23514	354	117	13483088	13523073	-1	C10orf30	FLJ40283
10	BEND7	ENSG00000165626	ENST00000378605	protein_coding	KNOWN	CCDS41490	23514	1125	374	13483355	13544945	-1	C10orf30	FLJ40283
10	BEND7	ENSG00000165626	ENST00000480703	processed_transcript	KNOWN	None	23514	None	None	13484980	13494614	-1	C10orf30	FLJ40283
10	BEND7	ENSG00000165626	ENST00000463303	processed_transcript	KNOWN	None	23514	None	None	13487290	13494637	-1	C10orf30	FLJ40283
10	BEND7	ENSG00000165626	ENST00000469555	processed_transcript	KNOWN	None	23514	None	None	13487316	13522976	-1	C10orf30	FLJ40283
10	BEND7	ENSG00000165626	ENST00000492675	processed_transcript	KNOWN	None	23514	None	None	13534692	13538929	-1	C10orf30	FLJ40283
10	BEND7	ENSG00000165626	ENST00000466271	processed_transcript	KNOWN	None	23514	None	None	13538788	13570974	-1	C10orf30	FLJ40283
10	BEND7	ENSG00000165626	ENST00000396900	protein_coding	KNOWN	None	23514	1560	519	13480501	13570533	-1	C10orf30	FLJ40283
10	BEND7	ENSG00000165626	ENST00000396898	protein_coding	KNOWN	None	23514	1281	426	13483090	13570533	-1	C10orf30	FLJ40283
12	None	ENSG00000267285	ENST00000537181	sense_intronic	KNOWN	None	None	None	None	1494999	1496153	1	None	None
8	None	ENSG00000255365	ENST00000530195	processed_pseudogene	KNOWN	None	None	None	None	14547891	14548128	1	None	None
5	RNU6-1164P	ENSG00000201298	ENST00000364428	snRNA	KNOWN	None	48127	None	None	134036862	134036968	-1	None	None
2	None	ENSG00000235584	ENST00000425887	lincRNA	KNOWN	None	None	None	None	96331832	96334463	1	None	None
7	RNU6-604P	ENSG00000212219	ENST00000390917	snRNA	KNOWN	None	47567	None	None	151597360	151597459	1	None	None
1	GAPDHP23	ENSG00000235595	ENST00000444823	processed_pseudogene	KNOWN	None	37775	None	None	120004652	120005644	-1	None	None
8	None	ENSG00000253844	ENST00000521188	lincRNA	KNOWN	None	None	None	None	52874018	52935534	1	None	None
18	SLC14A1	ENSG00000141469	ENST00000321925	protein_coding	KNOWN	CCDS11925	10918	1170	389	43304092	43332485	1	JK	HsT1341, RACH1, RACH2
18	SLC14A1	ENSG00000141469	ENST00000587601	protein_coding	PUTATIVE	None	10918	85	27	43304115	43314297	1	JK	HsT1341, RACH1, RACH2
18	SLC14A1	ENSG00000141469	ENST00000502059	protein_coding	PUTATIVE	None	10918	846	281	43304144	43331141	1	JK	HsT1341, RACH1, RACH2
18	SLC14A1	ENSG00000141469	ENST00000586951	protein_coding	KNOWN	None	10918	307	101	43304149	43311135	1	JK	HsT1341, RACH1, RACH2
18	SLC14A1	ENSG00000141469	ENST00000589322	protein_coding	PUTATIVE	None	10918	507	168	43304149	43319584	1	JK	HsT1341, RACH1, RACH2
18	SLC14A1	ENSG00000141469	ENST00000415427	protein_coding	KNOWN	CCDS45860	10918	1338	445	43304149	43329967	1	JK	HsT1341, RACH1, RACH2
18	SLC14A1	ENSG00000141469	ENST00000535474	protein_coding	PUTATIVE	None	10918	774	257	43304149	43329981	1	JK	HsT1341, RACH1, RACH2
18	SLC14A1	ENSG00000141469	ENST00000402943	protein_coding	PUTATIVE	None	10918	855	284	43304149	43330133	1	JK	HsT1341, RACH1, RACH2
18	SLC14A1	ENSG00000141469	ENST00000588179	nonsense_mediated_decay	KNOWN	None	10918	645	214	43304161	43330300	1	JK	HsT1341, RACH1, RACH2
18	SLC14A1	ENSG00000141469	ENST00000586056	protein_coding	KNOWN	None	10918	408	135	43304856	43314305	1	JK	HsT1341, RACH1, RACH2
18	SLC14A1	ENSG00000141469	ENST00000436407	protein_coding	KNOWN	CCDS45860	10918	1338	445	43306690	43330295	1	JK	HsT1341, RACH1, RACH2
18	SLC14A1	ENSG00000141469	ENST00000589891	protein_coding	PUTATIVE	None	10918	388	128	43307023	43311048	1	JK	HsT1341, RACH1, RACH2
18	SLC14A1	ENSG00000141469	ENST00000590246	protein_coding	PUTATIVE	None	10918	348	115	43307339	43316613	1	JK	HsT1341, RACH1, RACH2
18	SLC14A1	ENSG00000141469	ENST00000591943	processed_transcript	KNOWN	None	10918	None	None	43307339	43319186	1	JK	HsT1341, RACH1, RACH2
18	SLC14A1	ENSG00000141469	ENST00000586142	protein_coding	KNOWN	CCDS11925	10918	1170	389	43308994	43330300	1	JK	HsT1341, RACH1, RACH2
18	SLC14A1	ENSG00000141469	ENST00000589700	protein_coding	PUTATIVE	None	10918	909	302	43310286	43329916	1	JK	HsT1341, RACH1, RACH2
18	SLC14A1	ENSG00000141469	ENST00000590377	protein_coding	PUTATIVE	None	10918	521	172	43311106	43332485	1	JK	HsT1341, RACH1, RACH2
18	SLC14A1	ENSG00000141469	ENST00000591642	retained_intron	KNOWN	None	10918	None	None	43314082	43319213	1	JK	HsT1341, RACH1, RACH2
18	SLC14A1	ENSG00000141469	ENST00000586854	retained_intron	KNOWN	None	10918	None	None	43316518	43319825	1	JK	HsT1341, RACH1, RACH2
18	SLC14A1	ENSG00000141469	ENST00000591541	protein_coding	PUTATIVE	None	10918	282	93	43319467	43330085	1	JK	HsT1341, RACH1, RACH2
5	RNU6-757P	ENSG00000222266	ENST00000410334	snRNA	KNOWN	None	47720	None	None	134051173	134051272	1	None	None
12	None	ENSG00000261586	ENST00000562343	lincRNA	KNOWN	None	None	None	None	52211683	52213934	1	None	None
14	None	ENSG00000212615	ENST00000391313	snoRNA	NOVEL	None	None	None	None	45557446	45557511	1	None	None
11	OR4A46P	ENSG00000255304	ENST00000527255	unprocessed_pseudogene	KNOWN	None	31265	None	None	48517900	48518832	1	None	None
5	None	ENSG00000241179	ENST00000473936	processed_pseudogene	KNOWN	None	None	None	None	134140468	134140822	-1	None	None
2	XDH	ENSG00000158125	ENST00000379416	protein_coding	KNOWN	CCDS1775	12805	4002	1333	31557187	31637581	-1	None	XOR, XO
2	XDH	ENSG00000158125	ENST00000491727	processed_transcript	KNOWN	None	12805	None	None	31605867	31612499	-1	None	XOR, XO
2	XDH	ENSG00000158125	ENST00000476043	processed_transcript	KNOWN	None	12805	None	None	31605948	31607261	-1	None	XOR, XO
2	RN7SL834P	ENSG00000243650	ENST00000461450	misc_RNA	KNOWN	None	46850	None	None	231371816	231372099	1	None	None
11	None	ENSG00000254532	ENST00000527819	lincRNA	KNOWN	None	None	None	None	30065605	30105890	-1	None	None
14	RNU4-92P	ENSG00000200653	ENST00000363783	snRNA	KNOWN	None	47028	None	None	89286641	89286776	1	None	None
11	None	ENSG00000255406	ENST00000532272	lincRNA	KNOWN	None	None	None	None	133896882	133898013	1	None	None
3	RN7SL815P	ENSG00000243359	ENST00000470970	misc_RNA	KNOWN	None	46831	None	None	115556715	115557005	1	None	None
5	None	ENSG00000181495	ENST00000326958	protein_coding	NOVEL	None	None	366	121	32788945	32791819	1	None	None
5	None	ENSG00000270892	ENST00000604746	processed_pseudogene	KNOWN	None	None	None	None	134198781	134199123	-1	None	None
3	None	ENSG00000272166	ENST00000607246	snoRNA	NOVEL	None	None	None	None	25597034	25597097	-1	None	None
15	None	ENSG00000259545	ENST00000560630	processed_pseudogene	KNOWN	None	None	None	None	49469807	49470938	-1	None	None
3	LSAMP-AS1	ENSG00000240922	ENST00000490351	antisense	KNOWN	None	40350	None	None	116078871	116088937	1	None	None
5	None	ENSG00000244921	ENST00000501056	processed_pseudogene	KNOWN	None	None	None	None	134258993	134259739	-1	None	None
8	MIR383	ENSG00000199127	ENST00000362257	miRNA	KNOWN	None	31876	None	None	14710947	14711019	-1	MIRN383	hsa-mir-383
1	AGRN	ENSG00000188157	ENST00000379370	protein_coding	KNOWN	CCDS30551	329	6138	2045	955503	991496	1	None	AGRIN
1	AGRN	ENSG00000188157	ENST00000477585	processed_transcript	KNOWN	None	329	None	None	969486	976105	1	None	AGRIN
1	AGRN	ENSG00000188157	ENST00000469403	retained_intron	KNOWN	None	329	None	None	970247	976777	1	None	AGRIN
1	AGRN	ENSG00000188157	ENST00000479707	retained_intron	KNOWN	None	329	None	None	980779	981729	1	None	AGRIN
1	AGRN	ENSG00000188157	ENST00000466223	retained_intron	KNOWN	None	329	None	None	982581	983245	1	None	AGRIN
1	AGRN	ENSG00000188157	ENST00000478677	retained_intron	KNOWN	None	329	None	None	982855	983218	1	None	AGRIN
1	AGRN	ENSG00000188157	ENST00000492947	retained_intron	KNOWN	None	329	None	None	983909	984774	1	None	AGRIN
1	AGRN	ENSG00000188157	ENST00000419249	protein_coding	KNOWN	None	329	813	270	985936	989330	1	None	AGRIN
1	AGRN	ENSG00000188157	ENST00000461111	retained_intron	KNOWN	None	329	None	None	987366	991492	1	None	AGRIN
7	None	ENSG00000225918	ENST00000447700	processed_pseudogene	KNOWN	None	None	None	None	144737092	144738034	-1	None	None
18	None	ENSG00000265369	ENST00000579458	lincRNA	KNOWN	None	None	None	None	24267585	24283602	-1	None	None
18	None	ENSG00000265369	ENST00000391065	snoRNA	KNOWN	None	None	None	None	24269281	24269493	-1	None	None
1	HSD3BP1	ENSG00000187481	ENST00000286193	unprocessed_pseudogene	KNOWN	None	5219	None	None	120009844	120016426	1	None	None
20	ACSS1	ENSG00000154930	ENST00000484396	processed_transcript	KNOWN	None	16091	None	None	24986868	24992962	-1	ACAS2L	dJ568C11.3, AceCS2L, MGC33843
20	ACSS1	ENSG00000154930	ENST00000323482	protein_coding	KNOWN	CCDS13167	16091	2070	689	24986868	25038818	-1	ACAS2L	dJ568C11.3, AceCS2L, MGC33843
20	ACSS1	ENSG00000154930	ENST00000376726	protein_coding	KNOWN	None	16091	462	153	25026574	25039616	-1	ACAS2L	dJ568C11.3, AceCS2L, MGC33843
20	ACSS1	ENSG00000154930	ENST00000432802	protein_coding	KNOWN	CCDS58765	16091	1728	575	24987496	25039616	-1	ACAS2L	dJ568C11.3, AceCS2L, MGC33843
20	ACSS1	ENSG00000154930	ENST00000542618	protein_coding	KNOWN	CCDS58764	16091	1707	568	24988144	25013339	-1	ACAS2L	dJ568C11.3, AceCS2L, MGC33843
20	ACSS1	ENSG00000154930	ENST00000537502	protein_coding	KNOWN	None	16091	1821	606	24986874	25013308	-1	ACAS2L	dJ568C11.3, AceCS2L, MGC33843
14	TOX4	ENSG00000092203	ENST00000416256	protein_coding	PUTATIVE	None	20161	666	221	21944756	21957009	1	C14orf92, KIAA0737	LCP1
14	TOX4	ENSG00000092203	ENST00000405508	protein_coding	KNOWN	CCDS32043	20161	1866	621	21944914	21967319	1	C14orf92, KIAA0737	LCP1
14	TOX4	ENSG00000092203	ENST00000476180	retained_intron	KNOWN	None	20161	None	None	21945341	21964385	1	C14orf92, KIAA0737	LCP1
14	TOX4	ENSG00000092203	ENST00000455393	nonsense_mediated_decay	KNOWN	None	20161	246	81	21945362	21964913	1	C14orf92, KIAA0737	LCP1
14	TOX4	ENSG00000092203	ENST00000447695	nonsense_mediated_decay	KNOWN	None	20161	132	43	21945383	21956948	1	C14orf92, KIAA0737	LCP1
14	TOX4	ENSG00000092203	ENST00000457430	protein_coding	NOVEL	None	20161	510	169	21945383	21957009	1	C14orf92, KIAA0737	LCP1
14	TOX4	ENSG00000092203	ENST00000494242	processed_transcript	KNOWN	None	20161	None	None	21945392	21956867	1	C14orf92, KIAA0737	LCP1
14	TOX4	ENSG00000092203	ENST00000455138	nonsense_mediated_decay	KNOWN	None	20161	129	42	21945397	21956910	1	C14orf92, KIAA0737	LCP1
14	TOX4	ENSG00000092203	ENST00000487242	retained_intron	KNOWN	None	20161	None	None	21945423	21955852	1	C14orf92, KIAA0737	LCP1
14	TOX4	ENSG00000092203	ENST00000473176	retained_intron	KNOWN	None	20161	None	None	21956717	21960765	1	C14orf92, KIAA0737	LCP1
14	TOX4	ENSG00000092203	ENST00000463119	retained_intron	KNOWN	None	20161	None	None	21960256	21960971	1	C14orf92, KIAA0737	LCP1
14	TOX4	ENSG00000092203	ENST00000262709	protein_coding	KNOWN	CCDS32043	20161	1866	621	21945335	21967315	1	C14orf92, KIAA0737	LCP1
14	TOX4	ENSG00000092203	ENST00000448790	protein_coding	KNOWN	None	20161	1797	598	21945383	21964929	1	C14orf92, KIAA0737	LCP1
3	RN7SL517P	ENSG00000241939	ENST00000462240	misc_RNA	KNOWN	None	46533	None	None	43356443	43356745	1	None	None
14	SNORD127	ENSG00000239043	ENST00000458892	snoRNA	KNOWN	None	33555	None	None	45580086	45580171	1	None	None
2	HMGB1P3	ENSG00000250011	ENST00000502802	processed_pseudogene	KNOWN	None	4995	None	None	231379738	231380353	1	HMG1L3, HMGB1L3	None
7	None	ENSG00000222941	ENST00000411009	misc_RNA	NOVEL	None	None	None	None	151613412	151613503	1	None	None
X	None	ENSG00000232068	ENST00000455649	unprocessed_pseudogene	KNOWN	None	None	None	None	133123470	133124113	1	None	None
7	NOBOX	ENSG00000106410	ENST00000483238	protein_coding	NOVEL	None	22448	1980	659	144094333	144107320	-1	None	OG2, Og2x
7	NOBOX	ENSG00000106410	ENST00000467773	protein_coding	KNOWN	None	22448	2076	691	144094333	144107320	-1	None	OG2, Og2x
7	NOBOX	ENSG00000106410	ENST00000223140	protein_coding	KNOWN	None	22448	1725	574	144094333	144100786	-1	None	OG2, Og2x
16	None	ENSG00000260610	ENST00000563896	processed_pseudogene	KNOWN	None	None	None	None	32943089	32943890	-1	None	None
14	None	ENSG00000207342	ENST00000384612	misc_RNA	KNOWN	None	None	None	None	89306509	89306607	1	None	None
14	None	ENSG00000270371	ENST00000603832	processed_pseudogene	KNOWN	None	None	None	None	106251842	106252168	-1	None	None
3	None	ENSG00000271941	ENST00000607513	antisense	KNOWN	None	None	None	None	43388415	43389135	-1	None	None
8	None	ENSG00000254136	ENST00000523810	lincRNA	KNOWN	None	None	None	None	52908770	52920915	-1	None	None
17	AOC3	ENSG00000131471	ENST00000308423	protein_coding	KNOWN	CCDS11444	550	2292	763	41003201	41010141	1	None	VAP1, HPAO, VAP-1
17	AOC3	ENSG00000131471	ENST00000587330	nonsense_mediated_decay	KNOWN	None	550	433	143	41004770	41008318	1	None	VAP1, HPAO, VAP-1
17	AOC3	ENSG00000131471	ENST00000592999	protein_coding	PUTATIVE	None	550	456	151	41005294	41008360	1	None	VAP1, HPAO, VAP-1
17	AOC3	ENSG00000131471	ENST00000591562	protein_coding	PUTATIVE	None	550	663	220	41006095	41010147	1	None	VAP1, HPAO, VAP-1
17	AOC3	ENSG00000131471	ENST00000588033	protein_coding	PUTATIVE	None	550	336	111	41006144	41007539	1	None	VAP1, HPAO, VAP-1
15	MIR630	ENSG00000207690	ENST00000384957	miRNA	KNOWN	None	32886	None	None	72879558	72879654	1	MIRN630	hsa-mir-630
3	MIR4442	ENSG00000264219	ENST00000583412	miRNA	KNOWN	None	41718	None	None	25706364	25706430	-1	None	hsa-mir-4442
16	None	ENSG00000261259	ENST00000567619	processed_transcript	KNOWN	None	None	None	None	32963314	33039358	-1	None	None
16	None	ENSG00000261259	ENST00000562500	transcribed_processed_pseudogene	KNOWN	None	None	None	None	33038866	33039082	-1	None	None
12	None	ENSG00000255801	ENST00000542819	lincRNA	KNOWN	None	None	None	None	8700957	8720209	-1	None	None
12	None	ENSG00000270018	ENST00000602695	lincRNA	KNOWN	None	None	None	None	112335140	112335710	1	None	None
HG871_PATCH	AKR1C2	ENSG00000265231	ENST00000580545	protein_coding	KNOWN	None	385	972	323	5029587	5060192	-1	DDH2	DD, BABP, DD2, HAKRD, MCDR2
HG871_PATCH	AKR1C2	ENSG00000265231	ENST00000578591	protein_coding	KNOWN	None	385	894	297	5031626	5046052	-1	DDH2	DD, BABP, DD2, HAKRD, MCDR2
HG871_PATCH	AKR1C2	ENSG00000265231	ENST00000579718	retained_intron	KNOWN	None	385	None	None	5031981	5060207	-1	DDH2	DD, BABP, DD2, HAKRD, MCDR2
HG871_PATCH	AKR1C2	ENSG00000265231	ENST00000580345	protein_coding	KNOWN	None	385	602	199	5038026	5060147	-1	DDH2	DD, BABP, DD2, HAKRD, MCDR2
HG871_PATCH	AKR1C2	ENSG00000265231	ENST00000585272	processed_transcript	KNOWN	None	385	None	None	5042495	5046053	-1	DDH2	DD, BABP, DD2, HAKRD, MCDR2
HG871_PATCH	AKR1C2	ENSG00000265231	ENST00000603048	processed_transcript	KNOWN	None	385	None	None	5048187	5060223	-1	DDH2	DD, BABP, DD2, HAKRD, MCDR2
HG871_PATCH	AKR1C2	ENSG00000265231	ENST00000605195	processed_transcript	KNOWN	None	385	None	None	5048654	5060126	-1	DDH2	DD, BABP, DD2, HAKRD, MCDR2
HG871_PATCH	AKR1C2	ENSG00000265231	ENST00000605706	processed_transcript	KNOWN	None	385	None	None	5052655	5058084	-1	DDH2	DD, BABP, DD2, HAKRD, MCDR2
HG871_PATCH	AKR1C2	ENSG00000265231	ENST00000603671	processed_transcript	KNOWN	None	385	None	None	5055499	5057240	-1	DDH2	DD, BABP, DD2, HAKRD, MCDR2
8	None	ENSG00000253680	ENST00000521474	processed_pseudogene	KNOWN	None	None	None	None	86529573	86529741	-1	None	None
11	None	ENSG00000255288	ENST00000528537	processed_pseudogene	KNOWN	None	None	None	None	30188710	30188853	1	None	None
12	None	ENSG00000261308	ENST00000564840	processed_pseudogene	KNOWN	None	None	None	None	52214243	52216199	-1	None	None
15	None	ENSG00000166104	ENST00000561706	processed_transcript	KNOWN	None	None	None	None	62520095	62535281	-1	None	None
15	None	ENSG00000166104	ENST00000563606	processed_transcript	KNOWN	None	None	None	None	62526601	62535379	-1	None	None
15	None	ENSG00000166104	ENST00000562306	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	62534950	62545434	-1	None	None
15	None	ENSG00000166104	ENST00000570077	processed_transcript	KNOWN	None	None	None	None	62537906	62540994	-1	None	None
15	None	ENSG00000166104	ENST00000429274	unprocessed_pseudogene	KNOWN	None	None	None	None	62534728	62540994	-1	None	None
18	None	ENSG00000263677	ENST00000583852	processed_transcript	KNOWN	None	None	None	None	24268075	24269632	1	None	None
17	None	ENSG00000266820	ENST00000584190	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	62746036	62754721	-1	None	None
X	None	ENSG00000237682	ENST00000392722	processed_pseudogene	KNOWN	None	None	None	None	100792472	100794263	-1	None	None
14	None	ENSG00000265612	ENST00000579784	miRNA	KNOWN	None	None	None	None	106323682	106323741	-1	None	None
7	None	ENSG00000227562	ENST00000446340	antisense	KNOWN	None	None	None	None	151647471	151652070	-1	None	None
12	None	ENSG00000260473	ENST00000567167	lincRNA	KNOWN	None	None	None	None	52217287	52229280	1	None	None
10	HERC4	ENSG00000148634	ENST00000277817	protein_coding	KNOWN	None	24521	2844	947	69681665	69799724	-1	None	DKFZP564G092, KIAA1593
10	HERC4	ENSG00000148634	ENST00000412272	protein_coding	KNOWN	None	24521	2940	979	69681665	69835040	-1	None	DKFZP564G092, KIAA1593
10	HERC4	ENSG00000148634	ENST00000395198	protein_coding	KNOWN	CCDS41533	24521	3174	1057	69681665	69835040	-1	None	DKFZP564G092, KIAA1593
10	HERC4	ENSG00000148634	ENST00000427635	nonsense_mediated_decay	KNOWN	None	24521	1198	398	69682241	69832854	-1	None	DKFZP564G092, KIAA1593
10	HERC4	ENSG00000148634	ENST00000473533	nonsense_mediated_decay	KNOWN	None	24521	354	117	69682241	69835040	-1	None	DKFZP564G092, KIAA1593
10	HERC4	ENSG00000148634	ENST00000373700	protein_coding	KNOWN	CCDS7274	24521	3150	1049	69682246	69835105	-1	None	DKFZP564G092, KIAA1593
10	HERC4	ENSG00000148634	ENST00000480158	processed_transcript	KNOWN	None	24521	None	None	69713957	69716618	-1	None	DKFZP564G092, KIAA1593
10	HERC4	ENSG00000148634	ENST00000460168	retained_intron	KNOWN	None	24521	None	None	69724549	69749998	-1	None	DKFZP564G092, KIAA1593
10	HERC4	ENSG00000148634	ENST00000463478	retained_intron	KNOWN	None	24521	None	None	69792576	69798122	-1	None	DKFZP564G092, KIAA1593
10	HERC4	ENSG00000148634	ENST00000513996	protein_coding	NOVEL	None	24521	722	239	69793757	69835014	-1	None	DKFZP564G092, KIAA1593
10	HERC4	ENSG00000148634	ENST00000395185	processed_transcript	KNOWN	None	24521	None	None	69826842	69835058	-1	None	DKFZP564G092, KIAA1593
10	HERC4	ENSG00000148634	ENST00000505760	processed_transcript	KNOWN	None	24521	None	None	69826939	69834614	-1	None	DKFZP564G092, KIAA1593
10	HERC4	ENSG00000148634	ENST00000492996	protein_coding	KNOWN	None	24521	333	110	69828762	69835040	-1	None	DKFZP564G092, KIAA1593
10	HERC4	ENSG00000148634	ENST00000506515	protein_coding	KNOWN	None	24521	88	28	69832778	69833894	-1	None	DKFZP564G092, KIAA1593
10	HERC4	ENSG00000148634	ENST00000515753	processed_transcript	PUTATIVE	None	24521	None	None	69832892	69833950	-1	None	DKFZP564G092, KIAA1593
10	HERC4	ENSG00000148634	ENST00000395187	protein_coding	KNOWN	None	24521	354	117	69682756	69834983	-1	None	DKFZP564G092, KIAA1593
18	None	ENSG00000263382	ENST00000584560	lincRNA	KNOWN	None	None	None	None	24402777	24403943	-1	None	None
16	IGHV1OR16-2	ENSG00000259852	ENST00000564937	IG_V_pseudogene	KNOWN	None	5571	None	None	32989782	32990212	1	None	IGHV1/OR16-2
15	None	ENSG00000260534	ENST00000566291	sense_overlapping	KNOWN	None	None	None	None	72882032	72884186	1	None	None
2	IGKV2-24	ENSG00000241294	ENST00000484817	IG_V_gene	KNOWN	None	5781	360	119	89475812	89476644	-1	None	None
14	None	ENSG00000258990	ENST00000557286	processed_pseudogene	KNOWN	None	None	None	None	89576492	89577567	-1	None	None
9	CDC14B	ENSG00000081377	ENST00000474602	nonsense_mediated_decay	KNOWN	None	1719	1416	471	99252523	99382112	-1	None	Cdc14B1, Cdc14B2, CDC14B3, hCDC14B
9	CDC14B	ENSG00000081377	ENST00000412285	nonsense_mediated_decay	KNOWN	None	1719	1443	480	99262395	99381645	-1	None	Cdc14B1, Cdc14B2, CDC14B3, hCDC14B
9	CDC14B	ENSG00000081377	ENST00000375241	protein_coding	KNOWN	CCDS6722	1719	1497	498	99262395	99382112	-1	None	Cdc14B1, Cdc14B2, CDC14B3, hCDC14B
9	CDC14B	ENSG00000081377	ENST00000375240	protein_coding	KNOWN	CCDS6721	1719	1380	459	99264868	99381660	-1	None	Cdc14B1, Cdc14B2, CDC14B3, hCDC14B
9	CDC14B	ENSG00000081377	ENST00000375242	protein_coding	KNOWN	CCDS43853	1719	1386	461	99264894	99329536	-1	None	Cdc14B1, Cdc14B2, CDC14B3, hCDC14B
9	CDC14B	ENSG00000081377	ENST00000463569	protein_coding	KNOWN	None	1719	1458	485	99265847	99381682	-1	None	Cdc14B1, Cdc14B2, CDC14B3, hCDC14B
9	CDC14B	ENSG00000081377	ENST00000481149	processed_transcript	KNOWN	None	1719	None	None	99276785	99284885	-1	None	Cdc14B1, Cdc14B2, CDC14B3, hCDC14B
9	CDC14B	ENSG00000081377	ENST00000452280	protein_coding	PUTATIVE	None	1719	804	267	99296283	99329112	-1	None	Cdc14B1, Cdc14B2, CDC14B3, hCDC14B
9	CDC14B	ENSG00000081377	ENST00000415608	protein_coding	PUTATIVE	None	1719	684	227	99296423	99380888	-1	None	Cdc14B1, Cdc14B2, CDC14B3, hCDC14B
9	CDC14B	ENSG00000081377	ENST00000480920	processed_transcript	KNOWN	None	1719	None	None	99300909	99327118	-1	None	Cdc14B1, Cdc14B2, CDC14B3, hCDC14B
9	CDC14B	ENSG00000081377	ENST00000496750	retained_intron	KNOWN	None	1719	None	None	99301257	99381579	-1	None	Cdc14B1, Cdc14B2, CDC14B3, hCDC14B
9	CDC14B	ENSG00000081377	ENST00000463547	processed_transcript	KNOWN	None	1719	None	None	99314083	99381025	-1	None	Cdc14B1, Cdc14B2, CDC14B3, hCDC14B
9	CDC14B	ENSG00000081377	ENST00000484948	retained_intron	KNOWN	None	1719	None	None	99324830	99327710	-1	None	Cdc14B1, Cdc14B2, CDC14B3, hCDC14B
9	CDC14B	ENSG00000081377	ENST00000265659	protein_coding	KNOWN	None	1719	1416	471	99258569	99382112	-1	None	Cdc14B1, Cdc14B2, CDC14B3, hCDC14B
9	CDC14B	ENSG00000081377	ENST00000375236	protein_coding	KNOWN	None	1719	1458	485	99277960	99382112	-1	None	Cdc14B1, Cdc14B2, CDC14B3, hCDC14B
22	MIR3200	ENSG00000264661	ENST00000580767	miRNA	KNOWN	None	38227	None	None	31127544	31127628	1	None	hsa-mir-3200
3	SNRK-AS1	ENSG00000234617	ENST00000422681	antisense	KNOWN	None	41269	None	None	43391136	43393454	-1	None	None
12	LINC00942	ENSG00000249628	ENST00000515614	lincRNA	KNOWN	None	48636	None	None	1609691	1616484	-1	None	None
18	None	ENSG00000266184	ENST00000583051	processed_pseudogene	KNOWN	None	None	None	None	24411484	24412396	-1	None	None
22	None	ENSG00000237977	ENST00000424380	processed_pseudogene	KNOWN	None	None	None	None	31298206	31298768	1	None	None
3	LINC00903	ENSG00000241397	ENST00000497854	antisense	KNOWN	None	40351	None	None	116271320	116287111	1	LSAMP-AS2	None
11	OR4A40P	ENSG00000254832	ENST00000533878	unprocessed_pseudogene	KNOWN	None	31259	None	None	48533825	48534772	1	None	None
2	IGKV1-27	ENSG00000244575	ENST00000498435	IG_V_gene	KNOWN	None	5735	351	116	89512908	89513413	-1	None	IGKV127, A20
18	None	ENSG00000266549	ENST00000580510	processed_pseudogene	KNOWN	None	None	None	None	24532165	24532522	-1	None	None
3	RN7SL582P	ENSG00000241156	ENST00000491078	misc_RNA	KNOWN	None	46598	None	None	116301401	116301677	-1	None	None
22	MORC2-AS1	ENSG00000235989	ENST00000432624	antisense	KNOWN	None	26662	None	None	31318295	31322537	1	C22orf27, NCRNA00325	FLJ35801
22	MORC2-AS1	ENSG00000235989	ENST00000422995	antisense	KNOWN	None	26662	None	None	31318332	31322537	1	C22orf27, NCRNA00325	FLJ35801
22	MORC2-AS1	ENSG00000235989	ENST00000441558	antisense	KNOWN	None	26662	None	None	31318436	31328436	1	C22orf27, NCRNA00325	FLJ35801
17	None	ENSG00000265298	ENST00000583145	unprocessed_pseudogene	KNOWN	None	None	None	None	62746538	62747429	1	None	None
15	RN7SL307P	ENSG00000243338	ENST00000490342	misc_RNA	KNOWN	None	46323	None	None	49491099	49491391	-1	None	None
2	None	ENSG00000235419	ENST00000455357	antisense	KNOWN	None	None	None	None	231385309	231444721	-1	None	None
2	None	ENSG00000235419	ENST00000414539	antisense	KNOWN	None	None	None	None	231403003	231444648	-1	None	None
12	None	ENSG00000259887	ENST00000562996	lincRNA	KNOWN	None	None	None	None	52242007	52246513	1	None	None
3	MTND3P7	ENSG00000240824	ENST00000474435	processed_pseudogene	KNOWN	None	42147	None	None	165878565	165878907	-1	None	None
8	None	ENSG00000254314	ENST00000520496	antisense	KNOWN	None	None	None	None	53063380	53067452	1	None	None
16	None	ENSG00000261145	ENST00000569264	processed_pseudogene	KNOWN	None	None	None	None	70236257	70236362	1	None	None
17	None	ENSG00000263647	ENST00000579209	unprocessed_pseudogene	KNOWN	None	None	None	None	62758030	62758828	-1	None	None
16	None	ENSG00000260921	ENST00000568904	lincRNA	KNOWN	None	None	None	None	33006858	33008091	1	None	None
X	None	ENSG00000204072	ENST00000372828	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	100852488	100853049	1	None	None
X	None	ENSG00000204072	ENST00000602449	processed_transcript	KNOWN	None	None	None	None	100852995	100853649	1	None	None
12	ADAM1A	ENSG00000229186	ENST00000424240	unitary_pseudogene	KNOWN	None	187	None	None	112337067	112339195	1	ADAM1	FTNAP, PH-30a, Ftna, ADAM1P
12	ADAM1A	ENSG00000229186	ENST00000602903	processed_transcript	KNOWN	None	187	None	None	112337435	112340042	1	ADAM1	FTNAP, PH-30a, Ftna, ADAM1P
12	None	ENSG00000238943	ENST00000459455	misc_RNA	NOVEL	None	None	None	None	8745072	8745181	1	None	None
18	None	ENSG00000265374	ENST00000583148	lincRNA	KNOWN	None	None	None	None	24805706	24827152	1	None	None
3	BZW1P2	ENSG00000198406	ENST00000473537	processed_pseudogene	KNOWN	None	33954	None	None	116364749	116365574	-1	BZW1L1	None
3	BZW1P2	ENSG00000198406	ENST00000409521	processed_pseudogene	KNOWN	None	33954	None	None	116364592	116365252	-1	BZW1L1	None
7	None	ENSG00000239045	ENST00000458808	snoRNA	NOVEL	None	None	None	None	151765985	151766090	-1	None	None
HG7_PATCH	TRPV5	ENSG00000261264	ENST00000566839	protein_coding	KNOWN	None	3145	2190	729	142668776	142694414	-1	ECAC1	CaT2
HG7_PATCH	TRPV5	ENSG00000261264	ENST00000570190	protein_coding	NOVEL	None	3145	2025	674	142669189	142694047	-1	ECAC1	CaT2
HG7_PATCH	TRPV5	ENSG00000261264	ENST00000562600	protein_coding	NOVEL	None	3145	1146	381	142685399	142694329	-1	ECAC1	CaT2
3	CRIP1P2	ENSG00000238225	ENST00000425396	processed_pseudogene	KNOWN	None	44517	None	None	25728387	25728614	1	None	None
16	TIGD7	ENSG00000140993	ENST00000396862	protein_coding	KNOWN	CCDS10500	18331	1650	549	3348832	3355645	-1	None	Sancho
16	TIGD7	ENSG00000140993	ENST00000573608	protein_coding	KNOWN	None	18331	348	115	3350267	3355705	-1	None	Sancho
16	TIGD7	ENSG00000140993	ENST00000574598	processed_transcript	PUTATIVE	None	18331	None	None	3351323	3353872	-1	None	Sancho
16	TIGD7	ENSG00000140993	ENST00000572297	processed_transcript	PUTATIVE	None	18331	None	None	3351494	3355071	-1	None	Sancho
16	TIGD7	ENSG00000140993	ENST00000570634	processed_transcript	PUTATIVE	None	18331	None	None	3351647	3355729	-1	None	Sancho
16	TIGD7	ENSG00000140993	ENST00000573695	processed_transcript	PUTATIVE	None	18331	None	None	3351679	3355430	-1	None	Sancho
16	TIGD7	ENSG00000140993	ENST00000576104	processed_transcript	PUTATIVE	None	18331	None	None	3351842	3355727	-1	None	Sancho
16	TIGD7	ENSG00000140993	ENST00000571748	processed_transcript	PUTATIVE	None	18331	None	None	3351863	3355150	-1	None	Sancho
16	TIGD7	ENSG00000140993	ENST00000268674	protein_coding	KNOWN	CCDS10500	18331	1650	549	3348965	3350614	-1	None	Sancho
16	IGHV1OR16-4	ENSG00000259997	ENST00000566350	IG_V_pseudogene	KNOWN	None	5573	None	None	33013654	33013942	1	None	IGHV1/OR16-4
3	None	ENSG00000251811	ENST00000516002	misc_RNA	NOVEL	None	None	None	None	43513969	43514088	1	None	None
10	SPA17P1	ENSG00000236797	ENST00000416656	transcribed_processed_pseudogene	KNOWN	None	23224	None	None	77142151	77142602	-1	None	Sp17-2
22	SHANK3	ENSG00000251322	ENST00000414786	protein_coding	KNOWN	None	14294	5181	1726	51112843	51171726	1	None	SPANK-2, prosap2, KIAA1650, PSAP2
22	SHANK3	ENSG00000251322	ENST00000262795	protein_coding	KNOWN	None	14294	5244	1747	51113070	51171641	1	None	SPANK-2, prosap2, KIAA1650, PSAP2
22	SHANK3	ENSG00000251322	ENST00000445220	protein_coding	KNOWN	None	14294	5229	1742	51113070	51171641	1	None	SPANK-2, prosap2, KIAA1650, PSAP2
15	None	ENSG00000259531	ENST00000560489	processed_pseudogene	KNOWN	None	None	None	None	49657321	49658882	-1	None	None
2	IGKV2-28	ENSG00000244116	ENST00000482769	IG_V_gene	KNOWN	None	5783	360	119	89521179	89521942	-1	None	None
1	GAPDHP58	ENSG00000229570	ENST00000438477	processed_pseudogene	KNOWN	None	4142	None	None	120038459	120039464	-1	GAPDL1, GAPDHL1	None
17	None	ENSG00000265982	ENST00000583567	unprocessed_pseudogene	KNOWN	None	None	None	None	62774960	62775055	-1	None	None
12	None	ENSG00000252727	ENST00000516918	snoRNA	NOVEL	None	None	None	None	8750105	8750236	1	None	None
16	None	ENSG00000261556	ENST00000573141	processed_transcript	KNOWN	None	None	None	None	70253477	70255197	-1	None	None
16	None	ENSG00000261556	ENST00000581050	processed_transcript	KNOWN	None	None	None	None	70253484	70259936	-1	None	None
16	None	ENSG00000261556	ENST00000565246	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	70253773	70279519	-1	None	None
16	None	ENSG00000261556	ENST00000568855	processed_transcript	KNOWN	None	None	None	None	70263707	70269272	-1	None	None
11	None	ENSG00000200256	ENST00000363386	misc_RNA	NOVEL	None	None	None	None	75546260	75546368	-1	None	None
3	None	ENSG00000223916	ENST00000413663	processed_pseudogene	KNOWN	None	None	None	None	43526464	43527372	-1	None	None
12	None	ENSG00000258021	ENST00000552112	processed_pseudogene	KNOWN	None	None	None	None	52294349	52295120	1	None	None
2	IGKV2-30	ENSG00000243238	ENST00000468494	IG_V_gene	KNOWN	None	5785	360	119	89544264	89545079	-1	None	None
3	MTHFD2P1	ENSG00000244681	ENST00000494840	processed_transcript	KNOWN	None	48859	None	None	95373267	95402037	-1	None	None
3	MTHFD2P1	ENSG00000244681	ENST00000489784	transcribed_processed_pseudogene	KNOWN	None	48859	None	None	95373812	95374682	-1	None	None
3	MTHFD2P1	ENSG00000244681	ENST00000463799	processed_transcript	KNOWN	None	48859	None	None	95387164	95401565	-1	None	None
11	None	ENSG00000199362	ENST00000362492	misc_RNA	NOVEL	None	None	None	None	75548589	75548690	-1	None	None
2	TPM3P8	ENSG00000183022	ENST00000330554	processed_pseudogene	KNOWN	None	39171	None	None	231437882	231438524	-1	None	None
7	None	ENSG00000229591	ENST00000424630	antisense	KNOWN	None	None	None	None	151817086	151818802	-1	None	None
18	None	ENSG00000264151	ENST00000584546	lincRNA	KNOWN	None	None	None	None	24916343	25175128	-1	None	None
18	None	ENSG00000264151	ENST00000582108	lincRNA	KNOWN	None	None	None	None	24916657	24972831	-1	None	None
18	None	ENSG00000264151	ENST00000580699	lincRNA	KNOWN	None	None	None	None	24916955	24922654	-1	None	None
18	None	ENSG00000264151	ENST00000582893	lincRNA	KNOWN	None	None	None	None	24920706	24922648	-1	None	None
18	None	ENSG00000264151	ENST00000580883	lincRNA	KNOWN	None	None	None	None	25158820	25174999	-1	None	None
11	PPP1R1AP1	ENSG00000255255	ENST00000525622	processed_pseudogene	KNOWN	None	16316	None	None	75622248	75622672	-1	None	None
17	None	ENSG00000267548	ENST00000590979	3prime_overlapping_ncrna	KNOWN	None	None	None	None	40127182	40129749	1	None	None
3	None	ENSG00000242456	ENST00000468910	processed_pseudogene	KNOWN	None	None	None	None	165878991	165879756	-1	None	None
16	None	ENSG00000260141	ENST00000561541	lincRNA	KNOWN	None	None	None	None	33054930	33102910	-1	None	None
16	None	ENSG00000260141	ENST00000564165	lincRNA	KNOWN	None	None	None	None	33057850	33106752	-1	None	None
6	None	ENSG00000225148	ENST00000445585	lincRNA	KNOWN	None	None	None	None	140177241	140198528	-1	None	None
2	IGKV1-33	ENSG00000242076	ENST00000473726	IG_V_gene	KNOWN	None	5737	351	116	89567758	89568263	-1	None	IGKV133, O18
1	GAPDHP32	ENSG00000226443	ENST00000433816	processed_pseudogene	KNOWN	None	37784	None	None	120076372	120077369	-1	None	None
11	OR4A43P	ENSG00000255534	ENST00000532938	unprocessed_pseudogene	KNOWN	None	31262	None	None	48547616	48548523	1	None	None
17	IFT20	ENSG00000109083	ENST00000583796	retained_intron	KNOWN	None	30989	None	None	26655352	26656836	-1	None	None
17	IFT20	ENSG00000109083	ENST00000579419	protein_coding	PUTATIVE	CCDS58533	30989	345	114	26655352	26662465	-1	None	None
17	IFT20	ENSG00000109083	ENST00000578009	protein_coding	NOVEL	None	30989	216	71	26655353	26659002	-1	None	None
17	IFT20	ENSG00000109083	ENST00000357896	protein_coding	KNOWN	CCDS32593	30989	447	148	26655353	26662495	-1	None	None
17	IFT20	ENSG00000109083	ENST00000395418	protein_coding	NOVEL	CCDS58534	30989	399	132	26655355	26662466	-1	None	None
17	IFT20	ENSG00000109083	ENST00000585089	protein_coding	KNOWN	CCDS58535	30989	477	158	26655355	26662475	-1	None	None
17	IFT20	ENSG00000109083	ENST00000585313	protein_coding	NOVEL	CCDS58534	30989	399	132	26655363	26662465	-1	None	None
17	IFT20	ENSG00000109083	ENST00000578122	protein_coding	PUTATIVE	None	30989	426	141	26655913	26662461	-1	None	None
17	IFT20	ENSG00000109083	ENST00000578985	protein_coding	PUTATIVE	None	30989	399	132	26656025	26662466	-1	None	None
17	IFT20	ENSG00000109083	ENST00000582797	retained_intron	KNOWN	None	30989	None	None	26656711	26662496	-1	None	None
17	IFT20	ENSG00000109083	ENST00000322326	retained_intron	KNOWN	None	30989	None	None	26657217	26662481	-1	None	None
17	IFT20	ENSG00000109083	ENST00000577498	protein_coding	KNOWN	None	30989	257	84	26657503	26662470	-1	None	None
17	IFT20	ENSG00000109083	ENST00000580357	retained_intron	KNOWN	None	30989	None	None	26658412	26662515	-1	None	None
17	IFT20	ENSG00000109083	ENST00000578547	retained_intron	KNOWN	None	30989	None	None	26658428	26662504	-1	None	None
17	IFT20	ENSG00000109083	ENST00000580991	retained_intron	KNOWN	None	30989	None	None	26658629	26662498	-1	None	None
17	PLEKHM1P	ENSG00000214176	ENST00000578036	processed_transcript	KNOWN	None	35411	None	None	62775377	62833257	-1	None	LOC440456
17	PLEKHM1P	ENSG00000214176	ENST00000582986	processed_transcript	KNOWN	None	35411	None	None	62778837	62833272	-1	None	LOC440456
17	PLEKHM1P	ENSG00000214176	ENST00000582201	transcribed_unprocessed_pseudogene	KNOWN	None	35411	None	None	62781377	62825326	-1	None	LOC440456
17	PLEKHM1P	ENSG00000214176	ENST00000580919	processed_transcript	KNOWN	None	35411	None	None	62800960	62833266	-1	None	LOC440456
17	PLEKHM1P	ENSG00000214176	ENST00000397718	processed_transcript	KNOWN	None	35411	None	None	62815914	62833243	-1	None	LOC440456
17	PLEKHM1P	ENSG00000214176	ENST00000584585	processed_transcript	KNOWN	None	35411	None	None	62816812	62833254	-1	None	LOC440456
17	PLEKHM1P	ENSG00000214176	ENST00000440036	unprocessed_pseudogene	KNOWN	None	35411	None	None	62796901	62833243	-1	None	LOC440456
12	None	ENSG00000252917	ENST00000517108	snoRNA	NOVEL	None	None	None	None	42740863	42741016	-1	None	None
14	CAP2P1	ENSG00000259151	ENST00000557743	transcribed_processed_pseudogene	KNOWN	None	20142	None	None	89756549	89757938	-1	None	None
11	None	ENSG00000242353	ENST00000488389	processed_pseudogene	KNOWN	None	None	None	None	30389695	30390193	1	None	None
1	CD84	ENSG00000066294	ENST00000368054	protein_coding	NOVEL	CCDS1206	1704	987	328	160510888	160549263	-1	None	SLAMF5, hCD84, mCD84
1	CD84	ENSG00000066294	ENST00000466767	processed_transcript	KNOWN	None	1704	None	None	160517879	160521200	-1	None	SLAMF5, hCD84, mCD84
1	CD84	ENSG00000066294	ENST00000368048	protein_coding	NOVEL	None	1704	1020	339	160518035	160549294	-1	None	SLAMF5, hCD84, mCD84
1	CD84	ENSG00000066294	ENST00000311224	protein_coding	NOVEL	CCDS53396	1704	1038	345	160518035	160549294	-1	None	SLAMF5, hCD84, mCD84
1	CD84	ENSG00000066294	ENST00000368051	protein_coding	NOVEL	CCDS53397	1704	819	272	160518037	160549294	-1	None	SLAMF5, hCD84, mCD84
1	CD84	ENSG00000066294	ENST00000360056	retained_intron	KNOWN	None	1704	None	None	160522697	160549294	-1	None	SLAMF5, hCD84, mCD84
1	CD84	ENSG00000066294	ENST00000368047	processed_transcript	KNOWN	None	1704	None	None	160523536	160549294	-1	None	SLAMF5, hCD84, mCD84
1	CD84	ENSG00000066294	ENST00000534968	protein_coding	KNOWN	CCDS53395	1704	645	214	160510885	160549306	-1	None	SLAMF5, hCD84, mCD84
12	RNU6-249P	ENSG00000199886	ENST00000363016	snRNA	KNOWN	None	47212	None	None	42792352	42792453	1	None	None
6	None	ENSG00000236013	ENST00000456896	lincRNA	KNOWN	None	None	None	None	140388572	140414858	1	None	None
6	None	ENSG00000236013	ENST00000418834	lincRNA	KNOWN	None	None	None	None	140404232	140409567	1	None	None
6	None	ENSG00000236013	ENST00000446458	lincRNA	KNOWN	None	None	None	None	140407819	140414802	1	None	None
22	TUG1	ENSG00000253352	ENST00000540687	antisense	KNOWN	None	26066	None	None	31366663	31372049	1	None	FLJ20618, NCRNA00080, LINC00080
22	TUG1	ENSG00000253352	ENST00000566220	antisense	KNOWN	None	26066	None	None	31367034	31369414	1	None	FLJ20618, NCRNA00080, LINC00080
22	TUG1	ENSG00000253352	ENST00000519077	antisense	KNOWN	None	26066	None	None	31367052	31375381	1	None	FLJ20618, NCRNA00080, LINC00080
22	TUG1	ENSG00000253352	ENST00000521091	antisense	KNOWN	None	26066	None	None	31367353	31372049	1	None	FLJ20618, NCRNA00080, LINC00080
22	TUG1	ENSG00000253352	ENST00000569149	antisense	KNOWN	None	26066	None	None	31367425	31369342	1	None	FLJ20618, NCRNA00080, LINC00080
22	TUG1	ENSG00000253352	ENST00000563812	antisense	KNOWN	None	26066	None	None	31367466	31369095	1	None	FLJ20618, NCRNA00080, LINC00080
22	TUG1	ENSG00000253352	ENST00000602393	antisense	KNOWN	None	26066	None	None	31368249	31372049	1	None	FLJ20618, NCRNA00080, LINC00080
22	TUG1	ENSG00000253352	ENST00000602971	antisense	KNOWN	None	26066	None	None	31368887	31372067	1	None	FLJ20618, NCRNA00080, LINC00080
22	TUG1	ENSG00000253352	ENST00000569384	antisense	KNOWN	None	26066	None	None	31369398	31371465	1	None	FLJ20618, NCRNA00080, LINC00080
17	None	ENSG00000270010	ENST00000602842	sense_intronic	KNOWN	None	None	None	None	40190250	40190752	-1	None	None
3	TUSC7	ENSG00000243197	ENST00000477539	antisense	KNOWN	None	27701	None	None	116428253	116436168	1	NCRNA00295, LSAMP-AS3	LINC00902, LOC285194
3	TUSC7	ENSG00000243197	ENST00000477805	antisense	KNOWN	None	27701	None	None	116428626	116442428	1	NCRNA00295, LSAMP-AS3	LINC00902, LOC285194
3	TUSC7	ENSG00000243197	ENST00000496154	antisense	KNOWN	None	27701	None	None	116428671	116431318	1	NCRNA00295, LSAMP-AS3	LINC00902, LOC285194
3	TUSC7	ENSG00000243197	ENST00000466856	antisense	KNOWN	None	27701	None	None	116428680	116435282	1	NCRNA00295, LSAMP-AS3	LINC00902, LOC285194
3	TUSC7	ENSG00000243197	ENST00000496242	antisense	KNOWN	None	27701	None	None	116428816	116435278	1	NCRNA00295, LSAMP-AS3	LINC00902, LOC285194
3	TUSC7	ENSG00000243197	ENST00000466156	antisense	KNOWN	None	27701	None	None	116428816	116435278	1	NCRNA00295, LSAMP-AS3	LINC00902, LOC285194
12	None	ENSG00000257376	ENST00000547729	processed_pseudogene	KNOWN	None	None	None	None	42825467	42827159	-1	None	None
16	None	ENSG00000260900	ENST00000569033	processed_pseudogene	KNOWN	None	None	None	None	33071257	33071419	1	None	None
12	None	ENSG00000255967	ENST00000540341	processed_pseudogene	KNOWN	None	None	None	None	8786963	8790204	1	None	None
21	PTTG1IP	ENSG00000183255	ENST00000397887	protein_coding	NOVEL	None	13524	324	107	46269500	46293624	-1	C21orf3, C21orf1	PBF
21	PTTG1IP	ENSG00000183255	ENST00000330938	protein_coding	KNOWN	CCDS13715	13524	543	180	46269500	46293752	-1	C21orf3, C21orf1	PBF
21	PTTG1IP	ENSG00000183255	ENST00000397886	protein_coding	PUTATIVE	None	13524	480	159	46271322	46281848	-1	C21orf3, C21orf1	PBF
21	PTTG1IP	ENSG00000183255	ENST00000474737	retained_intron	KNOWN	None	13524	None	None	46275143	46285811	-1	C21orf3, C21orf1	PBF
21	PTTG1IP	ENSG00000183255	ENST00000494690	processed_transcript	KNOWN	None	13524	None	None	46275153	46292947	-1	C21orf3, C21orf1	PBF
21	PTTG1IP	ENSG00000183255	ENST00000480234	processed_transcript	KNOWN	None	13524	None	None	46281089	46293583	-1	C21orf3, C21orf1	PBF
21	PTTG1IP	ENSG00000183255	ENST00000445724	protein_coding	KNOWN	None	13524	429	142	46270581	46293606	-1	C21orf3, C21orf1	PBF
X	None	ENSG00000226434	ENST00000446964	lincRNA	KNOWN	None	None	None	None	13395307	13421138	1	None	None
X	None	ENSG00000226434	ENST00000420403	lincRNA	KNOWN	None	None	None	None	13413379	13421125	1	None	None
10	ZNF503-AS2	ENSG00000237149	ENST00000466942	antisense	KNOWN	None	23525	None	None	77161277	77167699	1	C10orf41, NCRNA00245	None
10	ZNF503-AS2	ENSG00000237149	ENST00000486015	antisense	KNOWN	None	23525	None	None	77162655	77167453	1	C10orf41, NCRNA00245	None
10	ZNF503-AS2	ENSG00000237149	ENST00000425916	antisense	KNOWN	None	23525	None	None	77162812	77168738	1	C10orf41, NCRNA00245	None
10	ZNF503-AS2	ENSG00000237149	ENST00000491557	processed_transcript	KNOWN	None	23525	None	None	77163514	77167716	1	C10orf41, NCRNA00245	None
10	ZNF503-AS2	ENSG00000237149	ENST00000484411	processed_transcript	KNOWN	None	23525	None	None	77163634	77168066	1	C10orf41, NCRNA00245	None
10	ZNF503-AS2	ENSG00000237149	ENST00000527641	processed_transcript	KNOWN	None	23525	None	None	77163923	77167452	1	C10orf41, NCRNA00245	None
10	ZNF503-AS2	ENSG00000237149	ENST00000438638	processed_transcript	KNOWN	None	23525	None	None	77160759	77161385	1	C10orf41, NCRNA00245	None
7	None	ENSG00000226592	ENST00000416316	processed_pseudogene	KNOWN	None	None	None	None	144966607	144967477	1	None	None
3	None	ENSG00000242326	ENST00000494226	processed_pseudogene	KNOWN	None	None	None	None	165899101	165899608	-1	None	None
2	RNU6-451P	ENSG00000199791	ENST00000362921	snRNA	KNOWN	None	47414	None	None	231451836	231451942	1	None	None
3	ACTR8	ENSG00000113812	ENST00000335754	protein_coding	KNOWN	CCDS2875	14672	1875	624	53901093	53916229	-1	None	INO80N
3	ACTR8	ENSG00000113812	ENST00000488802	processed_transcript	KNOWN	None	14672	None	None	53902523	53904324	-1	None	INO80N
3	ACTR8	ENSG00000113812	ENST00000482349	protein_coding	PUTATIVE	None	14672	1542	513	53902529	53915851	-1	None	INO80N
3	ACTR8	ENSG00000113812	ENST00000486794	protein_coding	NOVEL	None	14672	1136	377	53902680	53911320	-1	None	INO80N
3	ACTR8	ENSG00000113812	ENST00000495993	retained_intron	KNOWN	None	14672	None	None	53905185	53907095	-1	None	INO80N
3	ACTR8	ENSG00000113812	ENST00000498740	protein_coding	PUTATIVE	None	14672	306	101	53911286	53915884	-1	None	INO80N
3	ACTR8	ENSG00000113812	ENST00000231909	protein_coding	KNOWN	None	14672	990	329	53902684	53911320	-1	None	INO80N
8	ZNF16	ENSG00000170631	ENST00000276816	protein_coding	KNOWN	CCDS6437	12947	2049	682	146155744	146176274	-1	None	KOX9
8	ZNF16	ENSG00000170631	ENST00000394909	protein_coding	KNOWN	CCDS6437	12947	2049	682	146155771	146176274	-1	None	KOX9
8	ZNF16	ENSG00000170631	ENST00000532351	protein_coding	KNOWN	None	12947	664	220	146157509	146176205	-1	None	KOX9
8	ZNF16	ENSG00000170631	ENST00000532811	retained_intron	KNOWN	None	12947	None	None	146157530	146173421	-1	None	KOX9
8	ZNF16	ENSG00000170631	ENST00000527512	retained_intron	KNOWN	None	12947	None	None	146157791	146176261	-1	None	KOX9
8	ZNF16	ENSG00000170631	ENST00000527811	protein_coding	KNOWN	None	12947	372	123	146157801	146175981	-1	None	KOX9
8	ZNF16	ENSG00000170631	ENST00000527427	retained_intron	KNOWN	None	12947	None	None	146169475	146176261	-1	None	KOX9
8	ZNF16	ENSG00000170631	ENST00000529378	retained_intron	KNOWN	None	12947	None	None	146171310	146173916	-1	None	KOX9
2	None	ENSG00000226125	ENST00000415174	lincRNA	KNOWN	None	None	None	None	231555636	231565244	-1	None	None
4	MTND1P19	ENSG00000251449	ENST00000511780	processed_pseudogene	KNOWN	None	42094	None	None	93623496	93623810	1	None	None
19	None	ENSG00000269353	ENST00000597260	sense_intronic	KNOWN	None	None	None	None	41452252	41453355	1	None	None
1	HSD3BP3	ENSG00000249798	ENST00000514706	unprocessed_pseudogene	KNOWN	None	5221	None	None	120081132	120088536	1	None	None
2	IGKV1-37	ENSG00000239862	ENST00000465170	IG_V_gene	KNOWN	None	5739	351	116	89597021	89597542	-1	None	IGKV137, O14
4	None	ENSG00000249239	ENST00000510601	processed_pseudogene	KNOWN	None	None	None	None	93743137	93744069	-1	None	None
11	None	ENSG00000255480	ENST00000529078	antisense	KNOWN	None	None	None	None	30447099	30450815	1	None	None
11	C11orf53	ENSG00000150750	ENST00000280325	protein_coding	KNOWN	CCDS31674	30527	711	236	111126707	111157126	1	None	MGC50104
3	None	ENSG00000235886	ENST00000432423	lincRNA	KNOWN	None	None	None	None	43820453	43821474	-1	None	None
5	None	ENSG00000248440	ENST00000506330	lincRNA	KNOWN	None	None	None	None	108833578	108834809	1	None	None
2	BANF1P3	ENSG00000237758	ENST00000412556	processed_pseudogene	KNOWN	None	43883	None	None	231589858	231590118	-1	None	None
4	None	ENSG00000248627	ENST00000502570	antisense	KNOWN	None	None	None	None	93754836	93759993	-1	None	None
12	MIR3649	ENSG00000266043	ENST00000577921	miRNA	KNOWN	None	38948	None	None	1769481	1769546	-1	None	hsa-mir-3649
16	HERC2P8	ENSG00000261599	ENST00000564795	processed_transcript	KNOWN	None	38747	None	None	33105525	33106792	-1	None	None
16	HERC2P8	ENSG00000261599	ENST00000564334	transcribed_unprocessed_pseudogene	KNOWN	None	38747	None	None	33106350	33128499	-1	None	None
16	HERC2P8	ENSG00000261599	ENST00000562229	processed_transcript	KNOWN	None	38747	None	None	33110129	33120786	-1	None	None
16	HERC2P8	ENSG00000261599	ENST00000567073	processed_transcript	KNOWN	None	38747	None	None	33123003	33131859	-1	None	None
16	HERC2P8	ENSG00000261599	ENST00000564498	processed_transcript	KNOWN	None	38747	None	None	33131700	33140411	-1	None	None
19	CYP2A7P1	ENSG00000213908	ENST00000595391	unprocessed_pseudogene	KNOWN	None	2612	None	None	41530173	41533625	-1	CYP2A7P2	CYP2A18PN, CYP2A7PT, CYP2A18PC
19	CYP2A7P1	ENSG00000213908	ENST00000301171	unprocessed_pseudogene	KNOWN	None	2612	None	None	41530172	41533615	-1	CYP2A7P2	CYP2A18PN, CYP2A7PT, CYP2A18PC
7	YBX1P4	ENSG00000213188	ENST00000392794	processed_pseudogene	KNOWN	None	42425	None	None	151825964	151826771	1	None	None
12	ZNF384	ENSG00000126746	ENST00000396801	protein_coding	NOVEL	CCDS44817	11955	1734	577	6775814	6798676	-1	TNRC1	CAGH1A, CIZ, NMP4, NP
12	ZNF384	ENSG00000126746	ENST00000361959	protein_coding	KNOWN	CCDS44817	11955	1734	577	6775896	6798458	-1	TNRC1	CAGH1A, CIZ, NMP4, NP
12	ZNF384	ENSG00000126746	ENST00000355772	protein_coding	NOVEL	CCDS31732	11955	1386	461	6775904	6798620	-1	TNRC1	CAGH1A, CIZ, NMP4, NP
12	ZNF384	ENSG00000126746	ENST00000396799	protein_coding	KNOWN	CCDS8557	11955	1551	516	6776400	6798676	-1	TNRC1	CAGH1A, CIZ, NMP4, NP
12	ZNF384	ENSG00000126746	ENST00000545946	protein_coding	PUTATIVE	None	11955	478	158	6776858	6778323	-1	TNRC1	CAGH1A, CIZ, NMP4, NP
12	ZNF384	ENSG00000126746	ENST00000537383	retained_intron	KNOWN	None	11955	None	None	6781207	6782561	-1	TNRC1	CAGH1A, CIZ, NMP4, NP
12	ZNF384	ENSG00000126746	ENST00000417772	protein_coding	PUTATIVE	None	11955	1133	376	6781570	6798621	-1	TNRC1	CAGH1A, CIZ, NMP4, NP
12	ZNF384	ENSG00000126746	ENST00000542519	retained_intron	KNOWN	None	11955	None	None	6782226	6787708	-1	TNRC1	CAGH1A, CIZ, NMP4, NP
12	ZNF384	ENSG00000126746	ENST00000436774	protein_coding	PUTATIVE	None	11955	831	276	6782414	6798463	-1	TNRC1	CAGH1A, CIZ, NMP4, NP
12	ZNF384	ENSG00000126746	ENST00000540915	protein_coding	PUTATIVE	None	11955	612	203	6787367	6797855	-1	TNRC1	CAGH1A, CIZ, NMP4, NP
12	ZNF384	ENSG00000126746	ENST00000535485	protein_coding	PUTATIVE	None	11955	504	167	6787427	6797735	-1	TNRC1	CAGH1A, CIZ, NMP4, NP
12	ZNF384	ENSG00000126746	ENST00000538829	protein_coding	PUTATIVE	None	11955	381	126	6787598	6798062	-1	TNRC1	CAGH1A, CIZ, NMP4, NP
12	ZNF384	ENSG00000126746	ENST00000542351	protein_coding	PUTATIVE	None	11955	354	117	6787827	6798025	-1	TNRC1	CAGH1A, CIZ, NMP4, NP
12	ZNF384	ENSG00000126746	ENST00000544482	protein_coding	PUTATIVE	None	11955	350	115	6787831	6798465	-1	TNRC1	CAGH1A, CIZ, NMP4, NP
12	ZNF384	ENSG00000126746	ENST00000537248	retained_intron	KNOWN	None	11955	None	None	6787976	6798622	-1	TNRC1	CAGH1A, CIZ, NMP4, NP
12	ZNF384	ENSG00000126746	ENST00000542605	retained_intron	KNOWN	None	11955	None	None	6788386	6798738	-1	TNRC1	CAGH1A, CIZ, NMP4, NP
12	ZNF384	ENSG00000126746	ENST00000319770	protein_coding	KNOWN	None	11955	1503	500	6775643	6798527	-1	TNRC1	CAGH1A, CIZ, NMP4, NP
12	ZNF384	ENSG00000126746	ENST00000396795	protein_coding	KNOWN	CCDS8557	11955	1551	516	6775643	6797825	-1	TNRC1	CAGH1A, CIZ, NMP4, NP
7	None	ENSG00000231839	ENST00000456901	processed_pseudogene	KNOWN	None	None	None	None	145280290	145281910	1	None	None
4	None	ENSG00000248750	ENST00000505161	processed_pseudogene	KNOWN	None	None	None	None	93805814	93806258	1	None	None
3	None	ENSG00000221477	ENST00000408550	miRNA	NOVEL	None	None	None	None	95885661	95885746	-1	None	None
3	None	ENSG00000244429	ENST00000468627	processed_pseudogene	KNOWN	None	None	None	None	166011544	166012141	1	None	None
19	TMC4	ENSG00000167608	ENST00000494594	retained_intron	KNOWN	None	22998	None	None	54663846	54664386	-1	None	None
19	TMC4	ENSG00000167608	ENST00000449860	nonsense_mediated_decay	KNOWN	None	22998	168	55	54663846	54664709	-1	None	None
19	TMC4	ENSG00000167608	ENST00000465790	retained_intron	KNOWN	None	22998	None	None	54663846	54668450	-1	None	None
19	TMC4	ENSG00000167608	ENST00000301187	protein_coding	KNOWN	CCDS12882	22998	2121	706	54663846	54676865	-1	None	None
19	TMC4	ENSG00000167608	ENST00000376591	protein_coding	NOVEL	CCDS46174	22998	2139	712	54663902	54676944	-1	None	None
19	TMC4	ENSG00000167608	ENST00000468343	retained_intron	KNOWN	None	22998	None	None	54665074	54667213	-1	None	None
19	TMC4	ENSG00000167608	ENST00000495398	retained_intron	KNOWN	None	22998	None	None	54665962	54667000	-1	None	None
19	TMC4	ENSG00000167608	ENST00000479750	processed_transcript	KNOWN	None	22998	None	None	54666841	54676854	-1	None	None
19	TMC4	ENSG00000167608	ENST00000476013	processed_transcript	KNOWN	None	22998	None	None	54668273	54675718	-1	None	None
19	TMC4	ENSG00000167608	ENST00000497518	retained_intron	KNOWN	None	22998	None	None	54668286	54672208	-1	None	None
19	TMC4	ENSG00000167608	ENST00000446291	protein_coding	NOVEL	None	22998	527	174	54671897	54676447	-1	None	None
19	TMC4	ENSG00000167608	ENST00000416963	protein_coding	KNOWN	None	22998	885	294	54663847	54667425	-1	None	None
4	None	ENSG00000250908	ENST00000505498	antisense	KNOWN	None	None	None	None	94239774	94240937	-1	None	None
3	None	ENSG00000271671	ENST00000604229	processed_pseudogene	KNOWN	None	None	None	None	95963576	95964179	-1	None	None
17	None	ENSG00000267221	ENST00000587304	sense_intronic	KNOWN	None	None	None	None	40192731	40195135	-1	None	None
3	HNRNPKP4	ENSG00000243547	ENST00000485383	processed_pseudogene	KNOWN	None	42377	None	None	96068398	96069783	1	None	None
11	OR4A45P	ENSG00000213607	ENST00000529954	unprocessed_pseudogene	KNOWN	None	31264	None	None	48600988	48601888	1	None	None
HSCHR6_MHC_QBL	RNF5	ENSG00000183574	ENST00000432616	protein_coding	KNOWN	None	10068	543	180	32103754	32106193	1	None	NG2, G16, RING5, RMA1
HSCHR6_MHC_QBL	RNF5	ENSG00000183574	ENST00000485235	processed_transcript	KNOWN	None	10068	None	None	32103837	32105173	1	None	NG2, G16, RING5, RMA1
3	None	ENSG00000213872	ENST00000458542	processed_pseudogene	KNOWN	None	None	None	None	25790979	25791387	1	None	None
1	GAPDHP27	ENSG00000239873	ENST00000447427	processed_pseudogene	KNOWN	None	37779	None	None	120101378	120102397	-1	None	None
3	None	ENSG00000216136	ENST00000401317	miRNA	NOVEL	None	None	None	None	96152159	96152254	-1	None	None
12	RNU6-574P	ENSG00000206992	ENST00000384265	snRNA	KNOWN	None	47537	None	None	52381441	52381547	1	None	None
19	CEACAM16	ENSG00000213892	ENST00000587331	protein_coding	KNOWN	CCDS54278	31948	1278	425	45202421	45213986	1	None	None
19	CEACAM16	ENSG00000213892	ENST00000405314	protein_coding	KNOWN	CCDS54278	31948	1278	425	45204630	45213986	1	None	None
12	None	ENSG00000207142	ENST00000384413	misc_RNA	NOVEL	None	None	None	None	42848522	42848623	1	None	None
17	None	ENSG00000267658	ENST00000586351	lincRNA	KNOWN	None	None	None	None	40306618	40307990	1	None	None
6	IMPG1	ENSG00000112706	ENST00000369950	protein_coding	KNOWN	CCDS4985	6055	2394	797	76630832	76782395	-1	SPACR	IPM150, GP147
6	IMPG1	ENSG00000112706	ENST00000369952	protein_coding	KNOWN	None	6055	477	158	76631448	76644766	-1	SPACR	IPM150, GP147
6	IMPG1	ENSG00000112706	ENST00000369963	protein_coding	KNOWN	None	6055	444	147	76630832	76782395	-1	SPACR	IPM150, GP147
14	None	ENSG00000266706	ENST00000582202	miRNA	NOVEL	None	None	None	None	106323742	106323801	-1	None	None
12	None	ENSG00000259884	ENST00000564531	lincRNA	KNOWN	None	None	None	None	52452243	52453116	-1	None	None
12	None	ENSG00000259884	ENST00000564363	lincRNA	KNOWN	None	None	None	None	52452534	52453287	-1	None	None
3	None	ENSG00000241815	ENST00000466902	processed_pseudogene	KNOWN	None	None	None	None	96285201	96285947	1	None	None
18	None	ENSG00000264790	ENST00000584547	lincRNA	KNOWN	None	None	None	None	24923216	24926074	1	None	None
19	ZSCAN5D	ENSG00000267908	ENST00000600684	protein_coding	KNOWN	None	37706	1491	496	56751773	56758863	1	None	ZNF495D
4	RNA5SP164	ENSG00000252342	ENST00000516533	rRNA	KNOWN	None	43064	None	None	94741322	94741431	1	RN5S164	None
12	None	ENSG00000255829	ENST00000539089	antisense	KNOWN	None	None	None	None	8816607	8821576	1	None	None
12	None	ENSG00000255829	ENST00000544922	antisense	KNOWN	None	None	None	None	8816633	8821607	1	None	None
8	None	ENSG00000270971	ENST00000604378	processed_pseudogene	KNOWN	None	None	None	None	86554958	86556701	-1	None	None
11	None	ENSG00000204241	ENST00000533922	lincRNA	KNOWN	None	None	None	None	133902167	133911143	1	None	None
11	None	ENSG00000204241	ENST00000532706	lincRNA	KNOWN	None	None	None	None	133902282	133909725	1	None	None
11	None	ENSG00000204241	ENST00000529070	lincRNA	KNOWN	None	None	None	None	133902547	133908870	1	None	None
11	None	ENSG00000204241	ENST00000533091	lincRNA	KNOWN	None	None	None	None	133902691	133910162	1	None	None
11	None	ENSG00000204241	ENST00000527712	lincRNA	KNOWN	None	None	None	None	133902700	133916744	1	None	None
11	None	ENSG00000204241	ENST00000531938	lincRNA	KNOWN	None	None	None	None	133907004	133909834	1	None	None
11	None	ENSG00000204241	ENST00000532327	lincRNA	KNOWN	None	None	None	None	133908538	133911143	1	None	None
12	None	ENSG00000271500	ENST00000603687	processed_pseudogene	KNOWN	None	None	None	None	1804996	1807210	-1	None	None
8	None	ENSG00000253196	ENST00000523657	antisense	KNOWN	None	None	None	None	143844534	143847845	1	None	None
2	IGKV1-39	ENSG00000242371	ENST00000498574	IG_V_gene	KNOWN	None	5740	351	116	89619383	89619904	-1	None	None
12	None	ENSG00000257225	ENST00000547824	antisense	KNOWN	None	None	None	None	42853168	42859930	1	None	None
4	None	ENSG00000246541	ENST00000501965	lincRNA	KNOWN	None	None	None	None	95038943	95128707	-1	None	None
1	HSD3BP4	ENSG00000203855	ENST00000511509	unprocessed_pseudogene	KNOWN	None	5222	None	None	120106689	120114690	1	None	None
1	HSD3BP4	ENSG00000203855	ENST00000335580	processed_pseudogene	KNOWN	None	5222	None	None	120113918	120114734	1	None	None
14	None	ENSG00000265517	ENST00000581918	miRNA	NOVEL	None	None	None	None	106323912	106323971	-1	None	None
3	None	ENSG00000271192	ENST00000605537	lincRNA	KNOWN	None	None	None	None	44038388	44038935	1	None	None
11	None	ENSG00000255081	ENST00000531215	sense_intronic	KNOWN	None	None	None	None	75625245	75626257	1	None	None
6	TUBB2A	ENSG00000137267	ENST00000333628	protein_coding	KNOWN	CCDS4484	12412	1338	445	3153903	3157760	-1	TUBB, TUBB2	dJ40E16.7
6	TUBB2A	ENSG00000137267	ENST00000489942	processed_transcript	KNOWN	None	12412	None	None	3154813	3157760	-1	TUBB, TUBB2	dJ40E16.7
15	None	ENSG00000260144	ENST00000563214	unprocessed_pseudogene	KNOWN	None	None	None	None	72897524	72904667	1	None	None
3	RNU6-1094P	ENSG00000199286	ENST00000362416	snRNA	KNOWN	None	48057	None	None	96327658	96327761	-1	None	None
18	UBA52P9	ENSG00000244329	ENST00000483523	processed_pseudogene	KNOWN	None	36169	None	None	24935370	24935728	-1	None	None
7	POR	ENSG00000127948	ENST00000453773	protein_coding	KNOWN	None	9208	421	139	75528518	75609711	1	None	CYPOR, FLJ26468
7	POR	ENSG00000127948	ENST00000439963	protein_coding	KNOWN	None	9208	565	187	75536894	75610414	1	None	CYPOR, FLJ26468
7	POR	ENSG00000127948	ENST00000461988	protein_coding	KNOWN	CCDS5579	9208	2043	680	75544397	75616173	1	None	CYPOR, FLJ26468
7	POR	ENSG00000127948	ENST00000448410	nonsense_mediated_decay	KNOWN	None	9208	306	101	75544467	75610056	1	None	CYPOR, FLJ26468
7	POR	ENSG00000127948	ENST00000421059	protein_coding	KNOWN	None	9208	117	38	75544475	75583427	1	None	CYPOR, FLJ26468
7	POR	ENSG00000127948	ENST00000471238	retained_intron	KNOWN	None	9208	None	None	75544475	75609104	1	None	CYPOR, FLJ26468
7	POR	ENSG00000127948	ENST00000394893	protein_coding	PUTATIVE	None	9208	1902	633	75544482	75616173	1	None	CYPOR, FLJ26468
7	POR	ENSG00000127948	ENST00000412521	protein_coding	KNOWN	None	9208	439	145	75544492	75609729	1	None	CYPOR, FLJ26468
7	POR	ENSG00000127948	ENST00000414186	protein_coding	KNOWN	None	9208	516	171	75544500	75609806	1	None	CYPOR, FLJ26468
7	POR	ENSG00000127948	ENST00000432753	protein_coding	KNOWN	None	9208	499	165	75547962	75609789	1	None	CYPOR, FLJ26468
7	POR	ENSG00000127948	ENST00000449920	protein_coding	KNOWN	None	9208	188	61	75550479	75583498	1	None	CYPOR, FLJ26468
7	POR	ENSG00000127948	ENST00000418341	protein_coding	KNOWN	None	9208	188	61	75574640	75583498	1	None	CYPOR, FLJ26468
7	POR	ENSG00000127948	ENST00000412064	nonsense_mediated_decay	KNOWN	None	9208	636	211	75583307	75615858	1	None	CYPOR, FLJ26468
7	POR	ENSG00000127948	ENST00000454934	nonsense_mediated_decay	KNOWN	None	9208	570	189	75583307	75616172	1	None	CYPOR, FLJ26468
7	POR	ENSG00000127948	ENST00000447222	protein_coding	PUTATIVE	None	9208	2176	724	75583394	75615917	1	None	CYPOR, FLJ26468
7	POR	ENSG00000127948	ENST00000426184	protein_coding	PUTATIVE	None	9208	326	107	75597161	75609757	1	None	CYPOR, FLJ26468
7	POR	ENSG00000127948	ENST00000439297	protein_coding	PUTATIVE	None	9208	163	53	75597163	75608855	1	None	CYPOR, FLJ26468
7	POR	ENSG00000127948	ENST00000475509	processed_transcript	KNOWN	None	9208	None	None	75597163	75609678	1	None	CYPOR, FLJ26468
7	POR	ENSG00000127948	ENST00000460892	retained_intron	KNOWN	None	9208	None	None	75610250	75613111	1	None	CYPOR, FLJ26468
7	POR	ENSG00000127948	ENST00000439269	protein_coding	PUTATIVE	None	9208	1257	418	75611229	75616150	1	None	CYPOR, FLJ26468
7	POR	ENSG00000127948	ENST00000496888	retained_intron	KNOWN	None	9208	None	None	75612634	75615063	1	None	CYPOR, FLJ26468
7	POR	ENSG00000127948	ENST00000487247	retained_intron	KNOWN	None	9208	None	None	75612754	75614625	1	None	CYPOR, FLJ26468
7	POR	ENSG00000127948	ENST00000495770	retained_intron	KNOWN	None	9208	None	None	75613107	75614684	1	None	CYPOR, FLJ26468
7	POR	ENSG00000127948	ENST00000493973	retained_intron	KNOWN	None	9208	None	None	75614888	75616173	1	None	CYPOR, FLJ26468
7	POR	ENSG00000127948	ENST00000545601	protein_coding	KNOWN	None	9208	1467	488	75609677	75616172	1	None	CYPOR, FLJ26468
7	POR	ENSG00000127948	ENST00000450476	protein_coding	KNOWN	None	9208	1722	573	75609818	75615917	1	None	CYPOR, FLJ26468
7	POR	ENSG00000127948	ENST00000419840	protein_coding	KNOWN	None	9208	1107	368	75544420	75616172	1	None	CYPOR, FLJ26468
15	None	ENSG00000271396	ENST00000605689	processed_pseudogene	KNOWN	None	None	None	None	90827608	90828812	-1	None	None
11	RNA5SP344	ENSG00000223013	ENST00000411081	rRNA	KNOWN	None	43244	None	None	75645980	75646083	1	RN5S344	None
12	None	ENSG00000258262	ENST00000552900	processed_pseudogene	KNOWN	None	None	None	None	92924236	92925100	1	None	None
12	None	ENSG00000258068	ENST00000547898	sense_intronic	KNOWN	None	None	None	None	42879155	42883821	-1	None	None
7	None	ENSG00000270405	ENST00000603054	processed_pseudogene	KNOWN	None	None	None	None	152063848	152064100	1	None	None
17	TLK2	ENSG00000146872	ENST00000582809	protein_coding	PUTATIVE	None	11842	1806	601	60536019	60691025	1	None	PKU-ALPHA, MGC44450
17	TLK2	ENSG00000146872	ENST00000583843	protein_coding	PUTATIVE	None	11842	122	39	60548294	60629700	1	None	PKU-ALPHA, MGC44450
17	TLK2	ENSG00000146872	ENST00000579450	protein_coding	KNOWN	None	11842	218	71	60548303	60599629	1	None	PKU-ALPHA, MGC44450
17	TLK2	ENSG00000146872	ENST00000577616	processed_transcript	KNOWN	None	11842	None	None	60548320	60585872	1	None	PKU-ALPHA, MGC44450
17	TLK2	ENSG00000146872	ENST00000582195	protein_coding	KNOWN	None	11842	267	88	60555200	60600538	1	None	PKU-ALPHA, MGC44450
17	TLK2	ENSG00000146872	ENST00000580705	protein_coding	NOVEL	None	11842	529	175	60555427	60637395	1	None	PKU-ALPHA, MGC44450
17	TLK2	ENSG00000146872	ENST00000346027	protein_coding	KNOWN	CCDS11633	11842	2253	750	60556386	60690851	1	None	PKU-ALPHA, MGC44450
17	TLK2	ENSG00000146872	ENST00000326270	protein_coding	KNOWN	None	11842	2319	772	60556386	60690851	1	None	PKU-ALPHA, MGC44450
17	TLK2	ENSG00000146872	ENST00000343388	protein_coding	KNOWN	CCDS45753	11842	2157	718	60556511	60690850	1	None	PKU-ALPHA, MGC44450
17	TLK2	ENSG00000146872	ENST00000583690	nonsense_mediated_decay	KNOWN	None	11842	156	51	60556607	60600502	1	None	PKU-ALPHA, MGC44450
17	TLK2	ENSG00000146872	ENST00000581041	protein_coding	NOVEL	None	11842	1779	592	60558482	60683602	1	None	PKU-ALPHA, MGC44450
17	TLK2	ENSG00000146872	ENST00000578697	protein_coding	NOVEL	None	11842	530	175	60629666	60654105	1	None	PKU-ALPHA, MGC44450
17	TLK2	ENSG00000146872	ENST00000581286	retained_intron	KNOWN	None	11842	None	None	60630805	60637670	1	None	PKU-ALPHA, MGC44450
17	TLK2	ENSG00000146872	ENST00000584367	retained_intron	KNOWN	None	11842	None	None	60650208	60654089	1	None	PKU-ALPHA, MGC44450
17	TLK2	ENSG00000146872	ENST00000582660	retained_intron	KNOWN	None	11842	None	None	60662957	60678128	1	None	PKU-ALPHA, MGC44450
17	TLK2	ENSG00000146872	ENST00000578931	processed_transcript	KNOWN	None	11842	None	None	60677639	60683549	1	None	PKU-ALPHA, MGC44450
17	TLK2	ENSG00000146872	ENST00000583310	retained_intron	KNOWN	None	11842	None	None	60683457	60689934	1	None	PKU-ALPHA, MGC44450
17	TLK2	ENSG00000146872	ENST00000580203	retained_intron	KNOWN	None	11842	None	None	60689307	60692842	1	None	PKU-ALPHA, MGC44450
17	TLK2	ENSG00000146872	ENST00000542523	protein_coding	KNOWN	CCDS45753	11842	2157	718	60558129	60690255	1	None	PKU-ALPHA, MGC44450
12	LEMD3	ENSG00000174106	ENST00000308330	protein_coding	KNOWN	CCDS8972	28887	2736	911	65563351	65642107	1	None	MAN1
12	LEMD3	ENSG00000174106	ENST00000541171	processed_transcript	KNOWN	None	28887	None	None	65563363	65604725	1	None	MAN1
12	LEMD3	ENSG00000174106	ENST00000542032	retained_intron	KNOWN	None	28887	None	None	65634346	65639489	1	None	MAN1
12	LEMD3	ENSG00000174106	ENST00000544506	retained_intron	KNOWN	None	28887	None	None	65637229	65640061	1	None	MAN1
12	LEMD3	ENSG00000174106	ENST00000539442	retained_intron	KNOWN	None	28887	None	None	65639080	65640319	1	None	MAN1
12	LEMD3	ENSG00000174106	ENST00000545026	retained_intron	KNOWN	None	28887	None	None	65639330	65640170	1	None	MAN1
11	None	ENSG00000254489	ENST00000531002	antisense	KNOWN	None	None	None	None	30605677	30652055	1	None	None
11	None	ENSG00000254489	ENST00000525871	antisense	KNOWN	None	None	None	None	30605710	30606507	1	None	None
19	ARID3A	ENSG00000116017	ENST00000585895	processed_transcript	KNOWN	None	3031	None	None	925781	929498	1	DRIL1	BRIGHT
19	ARID3A	ENSG00000116017	ENST00000263620	protein_coding	KNOWN	CCDS12050	3031	1782	593	926000	975939	1	DRIL1	BRIGHT
19	ARID3A	ENSG00000116017	ENST00000592916	processed_transcript	KNOWN	None	3031	None	None	926062	929508	1	DRIL1	BRIGHT
19	ARID3A	ENSG00000116017	ENST00000592216	processed_transcript	KNOWN	None	3031	None	None	928678	929363	1	DRIL1	BRIGHT
19	ARID3A	ENSG00000116017	ENST00000587532	protein_coding	NOVEL	None	3031	842	279	932509	968507	1	DRIL1	BRIGHT
19	ARID3A	ENSG00000116017	ENST00000585733	retained_intron	KNOWN	None	3031	None	None	959167	965270	1	DRIL1	BRIGHT
19	ARID3A	ENSG00000116017	ENST00000590251	retained_intron	KNOWN	None	3031	None	None	966547	972064	1	DRIL1	BRIGHT
19	ARID3A	ENSG00000116017	ENST00000590749	retained_intron	KNOWN	None	3031	None	None	966787	968795	1	DRIL1	BRIGHT
11	None	ENSG00000254915	ENST00000530091	processed_pseudogene	KNOWN	None	None	None	None	75653173	75653479	-1	None	None
3	None	ENSG00000272121	ENST00000606217	lincRNA	KNOWN	None	None	None	None	44039573	44040641	-1	None	None
17	None	ENSG00000267758	ENST00000592536	antisense	KNOWN	None	None	None	None	40420605	40421825	1	None	None
3	RPL18AP8	ENSG00000218754	ENST00000486071	processed_pseudogene	KNOWN	None	36984	None	None	96338148	96338675	1	None	None
11	C11orf92	ENSG00000196167	ENST00000532918	protein_coding	KNOWN	None	33789	375	124	111164114	111175770	-1	C11orf92	FLJ45803, CASC12
11	C11orf92	ENSG00000196167	ENST00000355430	protein_coding	KNOWN	None	33789	375	124	111164171	111170539	-1	C11orf92	FLJ45803, CASC12
11	C11orf92	ENSG00000196167	ENST00000526150	processed_transcript	PUTATIVE	None	33789	None	None	111169068	111170734	-1	C11orf92	FLJ45803, CASC12
11	C11orf92	ENSG00000196167	ENST00000540738	protein_coding	KNOWN	None	33789	375	124	111166829	111167203	-1	C11orf92	FLJ45803, CASC12
6	HSPA1L	ENSG00000204390	ENST00000375654	protein_coding	KNOWN	CCDS34413	5234	1926	641	31777396	31782842	-1	None	HSP70-HOM, hum70t
6	HSPA1L	ENSG00000204390	ENST00000417199	protein_coding	KNOWN	CCDS34413	5234	1926	641	31777824	31783437	-1	None	HSP70-HOM, hum70t
HG79_PATCH	REXO4	ENSG00000261493	ENST00000562216	protein_coding	KNOWN	None	12820	1125	374	136281597	136293334	-1	XPMC2H	None
HG79_PATCH	REXO4	ENSG00000261493	ENST00000568937	protein_coding	KNOWN	None	12820	1269	422	136281597	136293579	-1	XPMC2H	None
HG79_PATCH	REXO4	ENSG00000261493	ENST00000570226	protein_coding	KNOWN	None	12820	700	232	136282541	136293512	-1	XPMC2H	None
HG79_PATCH	REXO4	ENSG00000261493	ENST00000567265	processed_transcript	KNOWN	None	12820	None	None	136286539	136293489	-1	XPMC2H	None
HG79_PATCH	REXO4	ENSG00000261493	ENST00000569212	processed_transcript	KNOWN	None	12820	None	None	136287834	136293494	-1	XPMC2H	None
HG79_PATCH	REXO4	ENSG00000261493	ENST00000569763	protein_coding	KNOWN	None	12820	567	188	136287898	136291435	-1	XPMC2H	None
12	None	ENSG00000257510	ENST00000550337	lincRNA	KNOWN	None	None	None	None	43009305	43040300	-1	None	None
12	None	ENSG00000257663	ENST00000550301	antisense	KNOWN	None	None	None	None	52470625	52475868	-1	None	None
8	None	ENSG00000270416	ENST00000603433	processed_pseudogene	KNOWN	None	None	None	None	86726454	86728113	1	None	None
2	IGKV2-40	ENSG00000211619	ENST00000390264	IG_V_gene	KNOWN	None	5789	314	103	89629873	89630186	-1	None	None
18	None	ENSG00000263611	ENST00000584566	lincRNA	KNOWN	None	None	None	None	24977916	24981868	1	None	None
11	OR4A41P	ENSG00000255297	ENST00000533053	unprocessed_pseudogene	KNOWN	None	31260	None	None	48611312	48612239	1	None	None
19	None	ENSG00000267710	ENST00000593116	nonsense_mediated_decay	KNOWN	None	None	120	39	56784138	56813412	1	None	None
19	None	ENSG00000267710	ENST00000586573	protein_coding	PUTATIVE	None	None	201	66	56795503	56798049	1	None	None
19	None	ENSG00000267710	ENST00000588026	protein_coding	PUTATIVE	None	None	331	109	56795550	56813464	1	None	None
19	None	ENSG00000267710	ENST00000591188	processed_transcript	KNOWN	None	None	None	None	56806436	56816195	1	None	None
19	None	ENSG00000267710	ENST00000588154	retained_intron	KNOWN	None	None	None	None	56807197	56809238	1	None	None
19	None	ENSG00000267710	ENST00000591810	processed_transcript	KNOWN	None	None	None	None	56809460	56813446	1	None	None
19	None	ENSG00000267710	ENST00000593151	protein_coding	PUTATIVE	None	None	195	64	56813305	56821815	1	None	None
19	None	ENSG00000267710	ENST00000587247	nonsense_mediated_decay	KNOWN	None	None	102	33	56813359	56821819	1	None	None
4	HMGB3P15	ENSG00000250897	ENST00000507326	processed_pseudogene	KNOWN	None	39307	None	None	95117091	95117664	-1	None	None
11	None	ENSG00000255421	ENST00000529298	antisense	KNOWN	None	None	None	None	75848359	75848775	-1	None	None
14	None	ENSG00000264473	ENST00000581318	miRNA	KNOWN	None	None	None	None	106324334	106324411	-1	None	None
7	None	ENSG00000230746	ENST00000422084	lincRNA	KNOWN	None	None	None	None	145372975	145378462	-1	None	None
3	None	ENSG00000212031	ENST00000390742	miRNA	NOVEL	None	None	None	None	96385038	96385123	-1	None	None
18	RBM22P1	ENSG00000265097	ENST00000578589	processed_pseudogene	KNOWN	None	31466	None	None	24998848	25000399	-1	None	None
14	None	ENSG00000263751	ENST00000581354	miRNA	NOVEL	None	None	None	None	106324504	106324581	-1	None	None
2	IFT172	ENSG00000138002	ENST00000260570	protein_coding	KNOWN	CCDS1755	30391	5250	1749	27667238	27712624	-1	None	SLB, wim, osm-1, NPHP17
2	IFT172	ENSG00000138002	ENST00000509128	nonsense_mediated_decay	KNOWN	None	30391	973	323	27667244	27676954	-1	None	SLB, wim, osm-1, NPHP17
2	IFT172	ENSG00000138002	ENST00000507184	retained_intron	KNOWN	None	30391	None	None	27667265	27712568	-1	None	SLB, wim, osm-1, NPHP17
2	IFT172	ENSG00000138002	ENST00000494163	retained_intron	KNOWN	None	30391	None	None	27667887	27669063	-1	None	SLB, wim, osm-1, NPHP17
2	IFT172	ENSG00000138002	ENST00000479419	retained_intron	KNOWN	None	30391	None	None	27668174	27669072	-1	None	SLB, wim, osm-1, NPHP17
2	IFT172	ENSG00000138002	ENST00000420854	nonsense_mediated_decay	KNOWN	None	30391	489	162	27668311	27670789	-1	None	SLB, wim, osm-1, NPHP17
2	IFT172	ENSG00000138002	ENST00000480892	retained_intron	KNOWN	None	30391	None	None	27668808	27670443	-1	None	SLB, wim, osm-1, NPHP17
2	IFT172	ENSG00000138002	ENST00000450564	nonsense_mediated_decay	KNOWN	None	30391	291	96	27671782	27677001	-1	None	SLB, wim, osm-1, NPHP17
2	IFT172	ENSG00000138002	ENST00000443889	protein_coding	PUTATIVE	None	30391	589	195	27676004	27677503	-1	None	SLB, wim, osm-1, NPHP17
2	IFT172	ENSG00000138002	ENST00000475909	retained_intron	KNOWN	None	30391	None	None	27676005	27676635	-1	None	SLB, wim, osm-1, NPHP17
2	IFT172	ENSG00000138002	ENST00000476693	retained_intron	KNOWN	None	30391	None	None	27680760	27681980	-1	None	SLB, wim, osm-1, NPHP17
2	IFT172	ENSG00000138002	ENST00000489492	retained_intron	KNOWN	None	30391	None	None	27688069	27688948	-1	None	SLB, wim, osm-1, NPHP17
2	IFT172	ENSG00000138002	ENST00000463613	retained_intron	KNOWN	None	30391	None	None	27693648	27694144	-1	None	SLB, wim, osm-1, NPHP17
2	IFT172	ENSG00000138002	ENST00000511842	retained_intron	KNOWN	None	30391	None	None	27693680	27712545	-1	None	SLB, wim, osm-1, NPHP17
2	IFT172	ENSG00000138002	ENST00000359466	protein_coding	PUTATIVE	None	30391	1599	532	27694554	27712640	-1	None	SLB, wim, osm-1, NPHP17
2	IFT172	ENSG00000138002	ENST00000416524	protein_coding	KNOWN	None	30391	1536	511	27694879	27712656	-1	None	SLB, wim, osm-1, NPHP17
2	IFT172	ENSG00000138002	ENST00000476264	retained_intron	KNOWN	None	30391	None	None	27695210	27712600	-1	None	SLB, wim, osm-1, NPHP17
2	IFT172	ENSG00000138002	ENST00000475476	retained_intron	KNOWN	None	30391	None	None	27706750	27712621	-1	None	SLB, wim, osm-1, NPHP17
17	None	ENSG00000236194	ENST00000597755	sense_intronic	KNOWN	None	None	None	None	40422535	40423389	-1	None	None
17	None	ENSG00000236194	ENST00000436061	sense_intronic	KNOWN	None	None	None	None	40423352	40424701	-1	None	None
11	RBM14	ENSG00000239306	ENST00000310137	protein_coding	KNOWN	CCDS8147	14219	2010	669	66384053	66394818	1	None	SIP, SYTIP1, COAA, DKFZp779J0927
11	RBM14	ENSG00000239306	ENST00000393979	protein_coding	NOVEL	CCDS55772	14219	471	156	66384097	66394814	1	None	SIP, SYTIP1, COAA, DKFZp779J0927
11	RBM14	ENSG00000239306	ENST00000512283	processed_transcript	PUTATIVE	None	14219	None	None	66384101	66384844	1	None	SIP, SYTIP1, COAA, DKFZp779J0927
11	RBM14	ENSG00000239306	ENST00000409372	protein_coding	PUTATIVE	None	14219	480	159	66384101	66392064	1	None	SIP, SYTIP1, COAA, DKFZp779J0927
11	RBM14	ENSG00000239306	ENST00000511114	processed_transcript	KNOWN	None	14219	None	None	66384101	66406124	1	None	SIP, SYTIP1, COAA, DKFZp779J0927
11	RBM14	ENSG00000239306	ENST00000443702	protein_coding	PUTATIVE	None	14219	390	129	66384117	66391938	1	None	SIP, SYTIP1, COAA, DKFZp779J0927
11	RBM14	ENSG00000239306	ENST00000409738	protein_coding	PUTATIVE	CCDS55773	14219	360	119	66384186	66393960	1	None	SIP, SYTIP1, COAA, DKFZp779J0927
11	RBM14	ENSG00000239306	ENST00000460762	processed_transcript	PUTATIVE	None	14219	None	None	66384600	66386003	1	None	SIP, SYTIP1, COAA, DKFZp779J0927
11	RBM14	ENSG00000239306	ENST00000461478	processed_transcript	PUTATIVE	None	14219	None	None	66384614	66391969	1	None	SIP, SYTIP1, COAA, DKFZp779J0927
11	RBM14	ENSG00000239306	ENST00000496694	processed_transcript	PUTATIVE	None	14219	None	None	66386516	66391693	1	None	SIP, SYTIP1, COAA, DKFZp779J0927
15	SLCO3A1	ENSG00000176463	ENST00000318445	protein_coding	KNOWN	CCDS10371	10952	2133	710	92396925	92709133	1	SLC21A11	OATP-D, OATP3A1
15	SLCO3A1	ENSG00000176463	ENST00000553653	retained_intron	KNOWN	None	10952	None	None	92396953	92694446	1	SLC21A11	OATP-D, OATP3A1
15	SLCO3A1	ENSG00000176463	ENST00000424469	protein_coding	PUTATIVE	CCDS45354	10952	2079	692	92397086	92715665	1	SLC21A11	OATP-D, OATP3A1
15	SLCO3A1	ENSG00000176463	ENST00000555111	processed_transcript	KNOWN	None	10952	None	None	92397255	92451989	1	SLC21A11	OATP-D, OATP3A1
15	SLCO3A1	ENSG00000176463	ENST00000553304	protein_coding	PUTATIVE	None	10952	392	129	92397351	92459608	1	SLC21A11	OATP-D, OATP3A1
15	SLCO3A1	ENSG00000176463	ENST00000555769	processed_transcript	KNOWN	None	10952	None	None	92397566	92698499	1	SLC21A11	OATP-D, OATP3A1
15	SLCO3A1	ENSG00000176463	ENST00000556649	processed_transcript	KNOWN	None	10952	None	None	92484548	92647767	1	SLC21A11	OATP-D, OATP3A1
15	SLCO3A1	ENSG00000176463	ENST00000555549	processed_transcript	KNOWN	None	10952	None	None	92641160	92706776	1	SLC21A11	OATP-D, OATP3A1
15	SLCO3A1	ENSG00000176463	ENST00000555892	nonsense_mediated_decay	KNOWN	None	10952	264	87	92669414	92715077	1	SLC21A11	OATP-D, OATP3A1
15	SLCO3A1	ENSG00000176463	ENST00000555210	nonsense_mediated_decay	KNOWN	None	10952	328	108	92669416	92706176	1	SLC21A11	OATP-D, OATP3A1
15	SLCO3A1	ENSG00000176463	ENST00000555439	processed_transcript	KNOWN	None	10952	None	None	92669428	92706573	1	SLC21A11	OATP-D, OATP3A1
15	SLCO3A1	ENSG00000176463	ENST00000555513	processed_transcript	KNOWN	None	10952	None	None	92696793	92706438	1	SLC21A11	OATP-D, OATP3A1
15	SLCO3A1	ENSG00000176463	ENST00000564072	retained_intron	KNOWN	None	10952	None	None	92704805	92706776	1	SLC21A11	OATP-D, OATP3A1
15	SLCO3A1	ENSG00000176463	ENST00000566477	retained_intron	KNOWN	None	10952	None	None	92714102	92715665	1	SLC21A11	OATP-D, OATP3A1
8	REXO1L9P	ENSG00000271381	ENST00000604264	processed_pseudogene	KNOWN	None	44432	None	None	86775087	86776836	-1	None	None
12	RPS4XP14	ENSG00000243663	ENST00000493072	processed_pseudogene	KNOWN	None	36737	None	None	1866397	1867177	-1	RPS4P14	None
3	RCC2P5	ENSG00000241018	ENST00000492126	processed_pseudogene	KNOWN	None	42381	None	None	96472029	96473515	1	None	None
4	None	ENSG00000241103	ENST00000478069	processed_pseudogene	KNOWN	None	None	None	None	95290984	95291314	1	None	None
1	GAS5	ENSG00000234741	ENST00000449289	lincRNA	KNOWN	None	16355	None	None	173833038	173837127	-1	None	SNHG2, NCRNA00030
1	GAS5	ENSG00000234741	ENST00000414075	lincRNA	KNOWN	None	16355	None	None	173833039	173835344	-1	None	SNHG2, NCRNA00030
1	GAS5	ENSG00000234741	ENST00000448718	lincRNA	KNOWN	None	16355	None	None	173833039	173836181	-1	None	SNHG2, NCRNA00030
1	GAS5	ENSG00000234741	ENST00000436285	retained_intron	KNOWN	None	16355	None	None	173833039	173836181	-1	None	SNHG2, NCRNA00030
1	GAS5	ENSG00000234741	ENST00000456812	retained_intron	KNOWN	None	16355	None	None	173833039	173836181	-1	None	SNHG2, NCRNA00030
1	GAS5	ENSG00000234741	ENST00000452197	lincRNA	KNOWN	None	16355	None	None	173833039	173837121	-1	None	SNHG2, NCRNA00030
1	GAS5	ENSG00000234741	ENST00000450589	lincRNA	KNOWN	None	16355	None	None	173833039	173837125	-1	None	SNHG2, NCRNA00030
1	GAS5	ENSG00000234741	ENST00000412059	retained_intron	KNOWN	None	16355	None	None	173833039	173837125	-1	None	SNHG2, NCRNA00030
1	GAS5	ENSG00000234741	ENST00000431268	retained_intron	KNOWN	None	16355	None	None	173833039	173837127	-1	None	SNHG2, NCRNA00030
1	GAS5	ENSG00000234741	ENST00000436656	retained_intron	KNOWN	None	16355	None	None	173833039	173837127	-1	None	SNHG2, NCRNA00030
1	GAS5	ENSG00000234741	ENST00000430245	lincRNA	KNOWN	None	16355	None	None	173833039	173838020	-1	None	SNHG2, NCRNA00030
1	GAS5	ENSG00000234741	ENST00000454813	retained_intron	KNOWN	None	16355	None	None	173833040	173834009	-1	None	SNHG2, NCRNA00030
1	GAS5	ENSG00000234741	ENST00000422183	retained_intron	KNOWN	None	16355	None	None	173833040	173836181	-1	None	SNHG2, NCRNA00030
1	GAS5	ENSG00000234741	ENST00000422207	retained_intron	KNOWN	None	16355	None	None	173833042	173834044	-1	None	SNHG2, NCRNA00030
1	GAS5	ENSG00000234741	ENST00000454068	lincRNA	KNOWN	None	16355	None	None	173833049	173836953	-1	None	SNHG2, NCRNA00030
1	GAS5	ENSG00000234741	ENST00000444470	retained_intron	KNOWN	None	16355	None	None	173833092	173834043	-1	None	SNHG2, NCRNA00030
1	GAS5	ENSG00000234741	ENST00000434796	retained_intron	KNOWN	None	16355	None	None	173833118	173834039	-1	None	SNHG2, NCRNA00030
1	GAS5	ENSG00000234741	ENST00000449589	retained_intron	KNOWN	None	16355	None	None	173833154	173837127	-1	None	SNHG2, NCRNA00030
1	GAS5	ENSG00000234741	ENST00000422008	retained_intron	KNOWN	None	16355	None	None	173833622	173836168	-1	None	SNHG2, NCRNA00030
1	GAS5	ENSG00000234741	ENST00000442067	retained_intron	KNOWN	None	16355	None	None	173833769	173836181	-1	None	SNHG2, NCRNA00030
1	GAS5	ENSG00000234741	ENST00000455838	retained_intron	KNOWN	None	16355	None	None	173834093	173837127	-1	None	SNHG2, NCRNA00030
1	GAS5	ENSG00000234741	ENST00000416952	retained_intron	KNOWN	None	16355	None	None	173834306	173837126	-1	None	SNHG2, NCRNA00030
1	GAS5	ENSG00000234741	ENST00000456293	retained_intron	KNOWN	None	16355	None	None	173834387	173837129	-1	None	SNHG2, NCRNA00030
1	GAS5	ENSG00000234741	ENST00000443799	retained_intron	KNOWN	None	16355	None	None	173834491	173837127	-1	None	SNHG2, NCRNA00030
1	GAS5	ENSG00000234741	ENST00000451607	lincRNA	KNOWN	None	16355	None	None	173834662	173836867	-1	None	SNHG2, NCRNA00030
1	GAS5	ENSG00000234741	ENST00000421068	retained_intron	KNOWN	None	16355	None	None	173834956	173837125	-1	None	SNHG2, NCRNA00030
1	GAS5	ENSG00000234741	ENST00000432536	lincRNA	KNOWN	None	16355	None	None	173834997	173836827	-1	None	SNHG2, NCRNA00030
1	GAS5	ENSG00000234741	ENST00000425771	lincRNA	KNOWN	None	16355	None	None	173835005	173836178	-1	None	SNHG2, NCRNA00030
1	GAS5	ENSG00000234741	ENST00000458220	retained_intron	KNOWN	None	16355	None	None	173835354	173837125	-1	None	SNHG2, NCRNA00030
1	GAS5	ENSG00000234741	ENST00000363840	snoRNA	KNOWN	None	16355	None	None	173833284	173833360	-1	None	SNHG2, NCRNA00030
1	GAS5	ENSG00000234741	ENST00000365524	snoRNA	KNOWN	None	16355	None	None	173833507	173833583	-1	None	SNHG2, NCRNA00030
1	GAS5	ENSG00000234741	ENST00000364822	snoRNA	KNOWN	None	16355	None	None	173833965	173834046	-1	None	SNHG2, NCRNA00030
1	GAS5	ENSG00000234741	ENST00000363859	snoRNA	KNOWN	None	16355	None	None	173834486	173834570	-1	None	SNHG2, NCRNA00030
1	GAS5	ENSG00000234741	ENST00000385578	snoRNA	KNOWN	None	16355	None	None	173835438	173835509	-1	None	SNHG2, NCRNA00030
1	GAS5	ENSG00000234741	ENST00000363146	snoRNA	KNOWN	None	16355	None	None	173835772	173835853	-1	None	SNHG2, NCRNA00030
1	GAS5	ENSG00000234741	ENST00000364084	snoRNA	KNOWN	None	16355	None	None	173836809	173836888	-1	None	SNHG2, NCRNA00030
14	None	ENSG00000266408	ENST00000581720	miRNA	NOVEL	None	None	None	None	106324723	106324792	-1	None	None
12	OR7E47P	ENSG00000257542	ENST00000546390	processed_transcript	KNOWN	None	8421	None	None	52473480	52502023	1	None	OR7E141
12	OR7E47P	ENSG00000257542	ENST00000575924	processed_transcript	KNOWN	None	8421	None	None	52478528	52486069	1	None	OR7E141
12	OR7E47P	ENSG00000257542	ENST00000546981	processed_transcript	KNOWN	None	8421	None	None	52487353	52502034	1	None	OR7E141
12	OR7E47P	ENSG00000257542	ENST00000548970	transcribed_processed_pseudogene	KNOWN	None	8421	None	None	52501062	52502045	1	None	OR7E141
3	TAF9BP1	ENSG00000213871	ENST00000396646	processed_pseudogene	KNOWN	None	30687	None	None	25796416	25797161	1	None	None
12	None	ENSG00000256004	ENST00000545370	processed_pseudogene	KNOWN	None	None	None	None	8831369	8832266	1	None	None
4	None	ENSG00000203436	ENST00000356560	pseudogene	NOVEL	None	None	None	None	95371802	95372043	-1	None	None
1	GAPDHP33	ENSG00000240244	ENST00000443168	processed_pseudogene	KNOWN	None	37785	None	None	120138790	120139802	-1	None	None
14	None	ENSG00000264781	ENST00000581717	miRNA	KNOWN	None	None	None	None	106325653	106325722	-1	None	None
4	None	ENSG00000249951	ENST00000514304	lincRNA	KNOWN	None	None	None	None	95596396	95623721	1	None	None
2	IGKV2D-40	ENSG00000251039	ENST00000429992	IG_V_gene	KNOWN	None	5804	332	109	89890601	89891303	1	None	None
2	IGKV2D-40	ENSG00000251039	ENST00000560045	IG_V_gene	KNOWN	None	5804	312	103	89890996	89891307	1	None	None
8	REXO1L2P	ENSG00000270375	ENST00000605109	processed_pseudogene	KNOWN	None	32239	None	None	86839131	86840877	-1	None	None
5	KRT18P42	ENSG00000214794	ENST00000505048	processed_pseudogene	KNOWN	None	33412	None	None	108924039	108925293	1	None	None
6	KIAA1586	ENSG00000168116	ENST00000370733	protein_coding	KNOWN	CCDS34480	21360	2364	787	56911347	56920023	1	None	None
6	KIAA1586	ENSG00000168116	ENST00000488682	processed_transcript	KNOWN	None	21360	None	None	56911545	56917844	1	None	None
6	KIAA1586	ENSG00000168116	ENST00000545356	protein_coding	KNOWN	None	21360	2283	760	56911524	56919836	1	None	None
3	None	ENSG00000244321	ENST00000495159	lincRNA	KNOWN	None	None	None	None	166287481	166288551	-1	None	None
1	DDX11L1	ENSG00000223972	ENST00000456328	processed_transcript	KNOWN	None	37102	None	None	11869	14409	1	None	None
1	DDX11L1	ENSG00000223972	ENST00000450305	transcribed_unprocessed_pseudogene	KNOWN	None	37102	None	None	12010	13670	1	None	None
1	DDX11L1	ENSG00000223972	ENST00000515242	unprocessed_pseudogene	KNOWN	None	37102	None	None	11872	14412	1	None	None
1	DDX11L1	ENSG00000223972	ENST00000518655	unprocessed_pseudogene	KNOWN	None	37102	None	None	11874	14409	1	None	None
18	PA2G4P3	ENSG00000263405	ENST00000577406	processed_pseudogene	KNOWN	None	31731	None	None	25032478	25033621	-1	None	HsT2542, PA2G4L4
7	None	ENSG00000235837	ENST00000418907	antisense	KNOWN	None	None	None	None	16735496	16759523	-1	None	None
14	None	ENSG00000265714	ENST00000580379	miRNA	NOVEL	None	None	None	None	106325958	106326024	-1	None	None
19	None	ENSG00000269855	ENST00000601382	protein_coding	KNOWN	None	None	951	316	58907457	58908407	1	None	None
7	None	ENSG00000204894	ENST00000472406	processed_pseudogene	KNOWN	None	None	None	None	152064256	152064345	1	None	None
4	None	ENSG00000249599	ENST00000510795	lincRNA	KNOWN	None	None	None	None	95664951	95678684	-1	None	None
15	None	ENSG00000259783	ENST00000565305	lincRNA	KNOWN	None	None	None	None	72900828	72929229	-1	None	None
15	None	ENSG00000259783	ENST00000565543	lincRNA	KNOWN	None	None	None	None	72900978	72929260	-1	None	None
18	None	ENSG00000227279	ENST00000423367	antisense	KNOWN	None	None	None	None	25534483	25543651	1	None	None
12	None	ENSG00000257687	ENST00000550076	processed_pseudogene	KNOWN	None	None	None	None	43020810	43020939	-1	None	None
3	RNU6-367P	ENSG00000252980	ENST00000517171	snRNA	KNOWN	None	47330	None	None	44112579	44112678	1	None	None
1	LINC00622	ENSG00000260941	ENST00000562811	sense_overlapping	KNOWN	None	44251	None	None	120140325	120141894	-1	None	None
3	MIR138-1	ENSG00000207954	ENST00000385219	miRNA	KNOWN	None	31524	None	None	44155704	44155802	1	MIRN138-1	hsa-mir-138-1
7	RN7SL207P	ENSG00000264018	ENST00000583134	misc_RNA	KNOWN	None	46223	None	None	145793180	145793471	1	None	None
18	ARIH2P1	ENSG00000266296	ENST00000584680	processed_pseudogene	KNOWN	None	31732	None	None	26231696	26233172	1	ARIH2P	None
17	None	ENSG00000221020	ENST00000408093	miRNA	NOVEL	None	None	None	None	40551027	40551109	1	None	None
12	None	ENSG00000257405	ENST00000550326	processed_pseudogene	KNOWN	None	None	None	None	43030617	43030913	-1	None	None
17	RNU7-97P	ENSG00000238704	ENST00000459399	snRNA	KNOWN	None	45631	None	None	40592216	40592277	-1	None	None
12	None	ENSG00000256706	ENST00000544163	antisense	KNOWN	None	None	None	None	2027117	2032033	1	None	None
7	SEPT7P6	ENSG00000241007	ENST00000469999	processed_pseudogene	KNOWN	None	38042	None	None	152064604	152065746	1	None	None
18	None	ENSG00000265994	ENST00000582726	lincRNA	KNOWN	None	None	None	None	26365032	26369224	1	None	None
11	PEX16	ENSG00000121680	ENST00000241041	protein_coding	KNOWN	CCDS7917	8857	1041	346	45931220	45939380	-1	None	None
11	PEX16	ENSG00000121680	ENST00000523721	processed_transcript	PUTATIVE	None	8857	None	None	45931721	45933566	-1	None	None
11	PEX16	ENSG00000121680	ENST00000378750	protein_coding	KNOWN	CCDS31472	8857	1011	336	45931725	45939606	-1	None	None
11	PEX16	ENSG00000121680	ENST00000532681	protein_coding	PUTATIVE	None	8857	726	241	45931756	45940363	-1	None	None
11	PEX16	ENSG00000121680	ENST00000533151	protein_coding	NOVEL	None	8857	549	182	45935396	45939376	-1	None	None
11	PEX16	ENSG00000121680	ENST00000532554	processed_transcript	KNOWN	None	8857	None	None	45935674	45939418	-1	None	None
11	PEX16	ENSG00000121680	ENST00000525192	protein_coding	PUTATIVE	None	8857	482	159	45935682	45939572	-1	None	None
11	PEX16	ENSG00000121680	ENST00000527371	retained_intron	KNOWN	None	8857	None	None	45935815	45937094	-1	None	None
11	PEX16	ENSG00000121680	ENST00000525229	nonsense_mediated_decay	KNOWN	None	8857	159	52	45937020	45939379	-1	None	None
11	PEX16	ENSG00000121680	ENST00000528674	nonsense_mediated_decay	KNOWN	None	8857	195	64	45937047	45939631	-1	None	None
11	PEX16	ENSG00000121680	ENST00000529030	nonsense_mediated_decay	KNOWN	None	8857	183	60	45937254	45939629	-1	None	None
14	IGHJ3P	ENSG00000237111	ENST00000436826	IG_J_pseudogene	KNOWN	None	5537	None	None	106329626	106329675	-1	None	Jpsi3
7	NAPEPLD	ENSG00000161048	ENST00000414118	retained_intron	KNOWN	None	21683	None	None	102740223	102755787	-1	None	FMP30, C7orf18, NAPE-PLD
7	NAPEPLD	ENSG00000161048	ENST00000341533	protein_coding	KNOWN	CCDS5729	21683	1182	393	102740223	102789679	-1	None	FMP30, C7orf18, NAPE-PLD
7	NAPEPLD	ENSG00000161048	ENST00000417955	protein_coding	KNOWN	CCDS5729	21683	1182	393	102740225	102789629	-1	None	FMP30, C7orf18, NAPE-PLD
7	NAPEPLD	ENSG00000161048	ENST00000422589	nonsense_mediated_decay	KNOWN	CCDS5729	21683	1182	393	102740346	102789335	-1	None	FMP30, C7orf18, NAPE-PLD
7	NAPEPLD	ENSG00000161048	ENST00000465647	protein_coding	KNOWN	CCDS5729	21683	1182	393	102742957	102789520	-1	None	FMP30, C7orf18, NAPE-PLD
7	NAPEPLD	ENSG00000161048	ENST00000420631	nonsense_mediated_decay	KNOWN	None	21683	431	142	102742971	102760213	-1	None	FMP30, C7orf18, NAPE-PLD
7	NAPEPLD	ENSG00000161048	ENST00000427257	protein_coding	KNOWN	CCDS5729	21683	1182	393	102743534	102790007	-1	None	FMP30, C7orf18, NAPE-PLD
7	NAPEPLD	ENSG00000161048	ENST00000418294	protein_coding	KNOWN	None	21683	372	123	102760593	102789546	-1	None	FMP30, C7orf18, NAPE-PLD
7	NAPEPLD	ENSG00000161048	ENST00000479761	retained_intron	KNOWN	None	21683	None	None	102767237	102789423	-1	None	FMP30, C7orf18, NAPE-PLD
7	NAPEPLD	ENSG00000161048	ENST00000425379	protein_coding	KNOWN	None	21683	17	4	102769207	102789682	-1	None	FMP30, C7orf18, NAPE-PLD
7	NAPEPLD	ENSG00000161048	ENST00000455523	protein_coding	KNOWN	None	21683	1401	466	102743534	102790007	-1	None	FMP30, C7orf18, NAPE-PLD
1	HSD3BP5	ENSG00000198857	ENST00000434856	transcribed_unprocessed_pseudogene	KNOWN	None	5223	None	None	120143963	120151873	1	None	None
17	MIR548AT	ENSG00000264314	ENST00000578714	miRNA	KNOWN	None	43517	None	None	40646791	40646848	1	None	hsa-mir-548at
11	OR4A42P	ENSG00000254674	ENST00000531397	unprocessed_pseudogene	KNOWN	None	31261	None	None	48631615	48632552	1	None	None
11	None	ENSG00000251968	ENST00000516159	miRNA	NOVEL	None	None	None	None	31195471	31195552	1	None	None
8	None	ENSG00000253154	ENST00000517368	lincRNA	KNOWN	None	None	None	None	86851934	86920842	1	None	None
8	None	ENSG00000253154	ENST00000518266	lincRNA	KNOWN	None	None	None	None	86901752	86963312	1	None	None
18	None	ENSG00000271238	ENST00000603176	processed_pseudogene	KNOWN	None	None	None	None	26404616	26404790	-1	None	None
6	ADTRP	ENSG00000111863	ENST00000505099	nonsense_mediated_decay	KNOWN	None	21214	362	119	11712287	11766565	-1	C6orf105	dJ413H6.1, AIG1L
6	ADTRP	ENSG00000111863	ENST00000414691	protein_coding	KNOWN	CCDS4521	21214	693	230	11713757	11779403	-1	C6orf105	dJ413H6.1, AIG1L
6	ADTRP	ENSG00000111863	ENST00000514824	processed_transcript	KNOWN	None	21214	None	None	11713908	11736947	-1	C6orf105	dJ413H6.1, AIG1L
6	ADTRP	ENSG00000111863	ENST00000513651	processed_transcript	KNOWN	None	21214	None	None	11714187	11728790	-1	C6orf105	dJ413H6.1, AIG1L
6	ADTRP	ENSG00000111863	ENST00000512139	processed_transcript	KNOWN	None	21214	None	None	11714554	11768037	-1	C6orf105	dJ413H6.1, AIG1L
6	ADTRP	ENSG00000111863	ENST00000229583	protein_coding	KNOWN	CCDS47374	21214	747	248	11714611	11779036	-1	C6orf105	dJ413H6.1, AIG1L
6	ADTRP	ENSG00000111863	ENST00000503285	protein_coding	PUTATIVE	None	21214	351	116	11717363	11735889	-1	C6orf105	dJ413H6.1, AIG1L
6	ADTRP	ENSG00000111863	ENST00000379415	protein_coding	KNOWN	None	21214	506	167	11735801	11807279	-1	C6orf105	dJ413H6.1, AIG1L
6	ADTRP	ENSG00000111863	ENST00000506810	protein_coding	KNOWN	None	21214	504	167	11735803	11779861	-1	C6orf105	dJ413H6.1, AIG1L
6	ADTRP	ENSG00000111863	ENST00000485323	nonsense_mediated_decay	KNOWN	None	21214	261	86	11738766	11778992	-1	C6orf105	dJ413H6.1, AIG1L
6	ADTRP	ENSG00000111863	ENST00000379413	protein_coding	KNOWN	None	21214	768	255	11717538	11779280	-1	C6orf105	dJ413H6.1, AIG1L
17	RN7SL409P	ENSG00000263804	ENST00000579918	misc_RNA	KNOWN	None	46425	None	None	62813308	62813597	-1	None	None
7	None	ENSG00000221766	ENST00000408839	miRNA	NOVEL	None	None	None	None	146593689	146593785	-1	None	None
10	NKX2-3	ENSG00000119919	ENST00000344586	protein_coding	KNOWN	CCDS41558	7836	1095	364	101292690	101296278	1	NKX2C	NKX2.3, CSX3, NKX4-3
2	IGKV1D-39	ENSG00000251546	ENST00000448155	IG_V_gene	KNOWN	None	5756	353	116	89901292	89901791	1	None	None
18	RNU6-408P	ENSG00000251719	ENST00000515910	snRNA	KNOWN	None	47371	None	None	26628584	26628683	1	None	None
17	RNU7-115P	ENSG00000252242	ENST00000516433	snRNA	KNOWN	None	45649	None	None	62821883	62821937	-1	None	None
12	RPSAP51	ENSG00000244131	ENST00000497462	processed_pseudogene	KNOWN	None	36224	None	None	8895024	8895668	1	None	None
11	None	ENSG00000221629	ENST00000408702	miRNA	NOVEL	None	None	None	None	31227306	31227441	1	None	None
18	None	ENSG00000265730	ENST00000580562	miRNA	NOVEL	None	None	None	None	26675539	26675643	-1	None	None
12	None	ENSG00000238865	ENST00000459090	snoRNA	NOVEL	None	None	None	None	92938668	92938763	-1	None	None
7	None	ENSG00000270593	ENST00000603589	processed_pseudogene	KNOWN	None	None	None	None	16889581	16890349	-1	None	None
11	None	ENSG00000254933	ENST00000527314	antisense	KNOWN	None	None	None	None	75901769	75906115	1	None	None
3	CDV3P1	ENSG00000176243	ENST00000471403	processed_pseudogene	KNOWN	None	42387	None	None	96495789	96496527	1	None	None
HSCHR6_MHC_QBL	TRIM26BP	ENSG00000235923	ENST00000435139	unprocessed_pseudogene	KNOWN	None	31338	None	None	30195596	30199572	1	TRIM26P	Em:AB023053.1, TRIM26P1
17	None	ENSG00000272400	ENST00000606504	unprocessed_pseudogene	KNOWN	None	None	None	None	62843504	62843846	1	None	None
18	None	ENSG00000212085	ENST00000390796	miRNA	NOVEL	None	None	None	None	26776406	26776492	-1	None	None
7	None	ENSG00000236795	ENST00000434887	antisense	KNOWN	None	None	None	None	146778026	146794701	-1	None	None
3	ZMAT3	ENSG00000172667	ENST00000311417	protein_coding	KNOWN	CCDS3224	29983	870	289	178735011	178790067	-1	None	WIG1, MGC10613, FLJ12296, WIG-1, PAG608
3	ZMAT3	ENSG00000172667	ENST00000432729	protein_coding	KNOWN	CCDS46962	29983	867	288	178741527	178790003	-1	None	WIG1, MGC10613, FLJ12296, WIG-1, PAG608
3	ZMAT3	ENSG00000172667	ENST00000414084	protein_coding	KNOWN	None	29983	446	147	178745545	178789354	-1	None	WIG1, MGC10613, FLJ12296, WIG-1, PAG608
5	TARS	ENSG00000113407	ENST00000502553	protein_coding	KNOWN	CCDS3899	11572	2172	723	33440802	33468038	1	None	None
5	TARS	ENSG00000113407	ENST00000514259	protein_coding	KNOWN	None	11572	387	128	33440845	33453451	1	None	None
5	TARS	ENSG00000113407	ENST00000265112	protein_coding	KNOWN	CCDS3899	11572	2172	723	33440882	33469644	1	None	None
5	TARS	ENSG00000113407	ENST00000502508	processed_transcript	KNOWN	None	11572	None	None	33440911	33446303	1	None	None
5	TARS	ENSG00000113407	ENST00000508361	nonsense_mediated_decay	KNOWN	None	11572	171	56	33441070	33468190	1	None	None
5	TARS	ENSG00000113407	ENST00000455217	protein_coding	NOVEL	CCDS58943	11572	2271	756	33441071	33467943	1	None	None
5	TARS	ENSG00000113407	ENST00000507716	nonsense_mediated_decay	KNOWN	None	11572	396	131	33441083	33468167	1	None	None
5	TARS	ENSG00000113407	ENST00000509731	nonsense_mediated_decay	KNOWN	None	11572	168	55	33441099	33467022	1	None	None
5	TARS	ENSG00000113407	ENST00000505012	nonsense_mediated_decay	KNOWN	None	11572	357	118	33441101	33455117	1	None	None
5	TARS	ENSG00000113407	ENST00000513066	nonsense_mediated_decay	KNOWN	None	11572	201	66	33441102	33453471	1	None	None
5	TARS	ENSG00000113407	ENST00000506040	protein_coding	PUTATIVE	None	11572	151	49	33441487	33448836	1	None	None
5	TARS	ENSG00000113407	ENST00000504698	retained_intron	KNOWN	None	11572	None	None	33456139	33460074	1	None	None
5	TARS	ENSG00000113407	ENST00000509410	processed_transcript	KNOWN	None	11572	None	None	33461113	33466321	1	None	None
5	TARS	ENSG00000113407	ENST00000503422	retained_intron	KNOWN	None	11572	None	None	33466863	33468196	1	None	None
5	TARS	ENSG00000113407	ENST00000541634	protein_coding	KNOWN	None	11572	1860	619	33441070	33468167	1	None	None
5	TARS	ENSG00000113407	ENST00000414361	protein_coding	KNOWN	None	11572	1809	602	33441083	33468167	1	None	None
1	ARHGEF16	ENSG00000130762	ENST00000378378	protein_coding	KNOWN	CCDS46	15515	2130	709	3370990	3397677	1	None	NBR, GEF16
1	ARHGEF16	ENSG00000130762	ENST00000378373	protein_coding	PUTATIVE	None	15515	1266	421	3382569	3397677	1	None	NBR, GEF16
1	ARHGEF16	ENSG00000130762	ENST00000378371	protein_coding	PUTATIVE	None	15515	1266	421	3383535	3397677	1	None	NBR, GEF16
1	ARHGEF16	ENSG00000130762	ENST00000445297	protein_coding	PUTATIVE	None	15515	440	145	3385108	3390085	1	None	NBR, GEF16
1	ARHGEF16	ENSG00000130762	ENST00000464620	retained_intron	KNOWN	None	15515	None	None	3388171	3391021	1	None	NBR, GEF16
1	ARHGEF16	ENSG00000130762	ENST00000418137	protein_coding	PUTATIVE	None	15515	542	179	3388188	3392583	1	None	NBR, GEF16
1	ARHGEF16	ENSG00000130762	ENST00000485984	retained_intron	KNOWN	None	15515	None	None	3389333	3397677	1	None	NBR, GEF16
1	ARHGEF16	ENSG00000130762	ENST00000413250	protein_coding	KNOWN	None	15515	1242	413	3388188	3397379	1	None	NBR, GEF16
18	None	ENSG00000266479	ENST00000581934	processed_pseudogene	KNOWN	None	None	None	None	26836782	26837025	-1	None	None
17	RN7SL404P	ENSG00000264840	ENST00000582421	misc_RNA	KNOWN	None	46420	None	None	62867622	62867902	-1	None	None
14	IGHJ2P	ENSG00000237547	ENST00000454480	IG_J_pseudogene	KNOWN	None	5535	None	None	106331003	106331062	-1	None	Jpsi2
3	None	ENSG00000261786	ENST00000568686	lincRNA	KNOWN	None	None	None	None	44158791	44163857	1	None	None
19	ZNF584	ENSG00000171574	ENST00000596921	processed_transcript	KNOWN	None	27318	None	None	58912871	58928486	1	None	FLJ39899
19	ZNF584	ENSG00000171574	ENST00000594993	processed_transcript	KNOWN	None	27318	None	None	58912938	58928378	1	None	FLJ39899
19	ZNF584	ENSG00000171574	ENST00000306910	protein_coding	KNOWN	CCDS12979	27318	1266	421	58919992	58929694	1	None	FLJ39899
19	ZNF584	ENSG00000171574	ENST00000598901	protein_coding	PUTATIVE	None	27318	88	28	58920041	58926919	1	None	FLJ39899
19	ZNF584	ENSG00000171574	ENST00000593920	protein_coding	PUTATIVE	None	27318	1131	376	58920055	58929677	1	None	FLJ39899
19	ZNF584	ENSG00000171574	ENST00000596281	protein_coding	PUTATIVE	None	27318	99	32	58920056	58926988	1	None	FLJ39899
19	ZNF584	ENSG00000171574	ENST00000599238	protein_coding	PUTATIVE	None	27318	282	93	58920119	58929694	1	None	FLJ39899
19	ZNF584	ENSG00000171574	ENST00000322834	protein_coding	PUTATIVE	None	27318	438	145	58920144	58928458	1	None	FLJ39899
19	ZNF584	ENSG00000171574	ENST00000599145	retained_intron	KNOWN	None	27318	None	None	58926982	58929690	1	None	FLJ39899
17	None	ENSG00000272134	ENST00000607821	processed_pseudogene	KNOWN	None	None	None	None	62877209	62877299	1	None	None
14	IGHJ1P	ENSG00000227335	ENST00000450690	IG_J_pseudogene	KNOWN	None	5533	None	None	106331834	106331888	-1	None	Jpsi1
11	None	ENSG00000255362	ENST00000531538	lincRNA	KNOWN	None	None	None	None	75922000	75927069	-1	None	None
18	None	ENSG00000265980	ENST00000577674	lincRNA	KNOWN	None	None	None	None	26858474	26941928	-1	None	None
17	None	ENSG00000267222	ENST00000591343	sense_intronic	KNOWN	None	None	None	None	40647885	40648568	1	None	None
15	RN7SL485P	ENSG00000243790	ENST00000478458	misc_RNA	KNOWN	None	46501	None	None	72904161	72904401	1	None	None
12	LINC00940	ENSG00000235049	ENST00000418006	lincRNA	KNOWN	None	48634	None	None	2038368	2045740	-1	None	None
18	None	ENSG00000221731	ENST00000408804	miRNA	NOVEL	None	None	None	None	27063293	27063388	1	None	None
17	None	ENSG00000267632	ENST00000591237	sense_intronic	KNOWN	None	None	None	None	40661802	40663537	1	None	None
17	None	ENSG00000272220	ENST00000607347	transcribed_processed_pseudogene	KNOWN	None	None	None	None	62888846	62888963	1	None	None
7	RAD17P1	ENSG00000232400	ENST00000418130	processed_pseudogene	KNOWN	None	9808	None	None	16903891	16905932	-1	None	HRAD17P1
14	None	ENSG00000244620	ENST00000414005	lincRNA	KNOWN	None	None	None	None	106355942	106361967	1	None	None
14	None	ENSG00000244620	ENST00000418566	lincRNA	KNOWN	None	None	None	None	106360504	106362435	1	None	None
12	None	ENSG00000258012	ENST00000551090	processed_pseudogene	KNOWN	None	None	None	None	93251855	93253049	1	None	None
17	MIR5010	ENSG00000265611	ENST00000582846	miRNA	KNOWN	None	43484	None	None	40666206	40666325	1	None	hsa-mir-5010
18	None	ENSG00000264587	ENST00000584482	lincRNA	KNOWN	None	None	None	None	27098224	27118358	1	None	None
18	None	ENSG00000264587	ENST00000581532	lincRNA	KNOWN	None	None	None	None	27108268	27128206	1	None	None
11	None	ENSG00000255306	ENST00000532296	antisense	KNOWN	None	None	None	None	67792277	67797928	-1	None	None
6	RNA5SP220	ENSG00000252107	ENST00000516298	rRNA	KNOWN	None	43120	None	None	140479728	140479831	-1	RN5S220	None
17	None	ENSG00000265218	ENST00000577938	antisense	KNOWN	None	None	None	None	62888847	62892521	1	None	None
17	None	ENSG00000265218	ENST00000584131	antisense	KNOWN	None	None	None	None	62888919	62897399	1	None	None
17	None	ENSG00000265218	ENST00000584959	antisense	KNOWN	None	None	None	None	62888942	62906298	1	None	None
HSCHR6_MHC_QBL	HLA-L	ENSG00000244721	ENST00000460301	processed_transcript	KNOWN	None	4970	None	None	30216891	30224208	1	HLA92, HLAL	HLA-92
HSCHR6_MHC_QBL	HLA-L	ENSG00000244721	ENST00000475567	transcribed_unprocessed_pseudogene	KNOWN	None	4970	None	None	30216909	30219629	1	HLA92, HLAL	HLA-92
HSCHR6_MHC_QBL	HLA-L	ENSG00000244721	ENST00000546605	unprocessed_pseudogene	KNOWN	None	4970	None	None	30216878	30250298	1	HLA92, HLAL	HLA-92
6	MIR3668	ENSG00000263514	ENST00000582138	miRNA	KNOWN	None	38982	None	None	140526389	140526463	1	None	hsa-mir-3668
3	MIR4447	ENSG00000265433	ENST00000580126	miRNA	KNOWN	None	41850	None	None	116569124	116569214	-1	None	hsa-mir-4447
2	IGKV1D-37	ENSG00000250036	ENST00000509129	IG_V_gene	KNOWN	None	5755	353	116	89923550	89924026	1	None	IGKV1D37, O4
6	None	ENSG00000221336	ENST00000408409	miRNA	NOVEL	None	None	None	None	140981760	140981850	-1	None	None
12	CNPY2	ENSG00000257727	ENST00000546466	nonsense_mediated_decay	KNOWN	None	13529	243	80	56703626	56705096	-1	TMEM4	HP10390, ZSIG9, Cnpy2
12	CNPY2	ENSG00000257727	ENST00000546937	retained_intron	KNOWN	None	13529	None	None	56704212	56705713	-1	TMEM4	HP10390, ZSIG9, Cnpy2
12	CNPY2	ENSG00000257727	ENST00000553191	nonsense_mediated_decay	KNOWN	None	13529	124	40	56704217	56708752	-1	TMEM4	HP10390, ZSIG9, Cnpy2
12	CNPY2	ENSG00000257727	ENST00000273308	protein_coding	KNOWN	CCDS8914	13529	549	182	56704217	56710120	-1	TMEM4	HP10390, ZSIG9, Cnpy2
12	CNPY2	ENSG00000257727	ENST00000551475	protein_coding	KNOWN	None	13529	505	167	56704742	56709834	-1	TMEM4	HP10390, ZSIG9, Cnpy2
12	CNPY2	ENSG00000257727	ENST00000551286	protein_coding	PUTATIVE	None	13529	306	101	56704785	56709714	-1	TMEM4	HP10390, ZSIG9, Cnpy2
12	CNPY2	ENSG00000257727	ENST00000551720	processed_transcript	KNOWN	None	13529	None	None	56705122	56709903	-1	TMEM4	HP10390, ZSIG9, Cnpy2
12	CNPY2	ENSG00000257727	ENST00000551276	processed_transcript	KNOWN	None	13529	None	None	56706307	56708990	-1	TMEM4	HP10390, ZSIG9, Cnpy2
12	CNPY2	ENSG00000257727	ENST00000547570	retained_intron	KNOWN	None	13529	None	None	56708274	56709534	-1	TMEM4	HP10390, ZSIG9, Cnpy2
12	CNPY2	ENSG00000257727	ENST00000548013	retained_intron	KNOWN	None	13529	None	None	56708274	56709831	-1	TMEM4	HP10390, ZSIG9, Cnpy2
12	CNPY2	ENSG00000257727	ENST00000553164	retained_intron	KNOWN	None	13529	None	None	56708292	56709784	-1	TMEM4	HP10390, ZSIG9, Cnpy2
12	CNPY2	ENSG00000257727	ENST00000546388	retained_intron	KNOWN	None	13529	None	None	56708434	56709681	-1	TMEM4	HP10390, ZSIG9, Cnpy2
1	NBPF7	ENSG00000215864	ENST00000445758	unprocessed_pseudogene	KNOWN	None	31989	None	None	120377493	120387137	-1	None	None
1	NBPF7	ENSG00000215864	ENST00000401014	unprocessed_pseudogene	KNOWN	None	31989	None	None	120377388	120387779	-1	None	None
11	None	ENSG00000272301	ENST00000606980	sense_intronic	KNOWN	None	None	None	None	76100692	76101172	1	None	None
7	None	ENSG00000253088	ENST00000517279	misc_RNA	NOVEL	None	None	None	None	152099865	152099978	1	None	None
12	None	ENSG00000257164	ENST00000548764	lincRNA	KNOWN	None	None	None	None	43040385	43076618	1	None	None
12	None	ENSG00000257164	ENST00000546982	lincRNA	KNOWN	None	None	None	None	43040385	43080503	1	None	None
15	None	ENSG00000260672	ENST00000563464	lincRNA	KNOWN	None	None	None	None	72908151	72910591	1	None	None
18	None	ENSG00000266196	ENST00000583089	lincRNA	KNOWN	None	None	None	None	28293241	28294252	1	None	None
7	FABP5P3	ENSG00000241735	ENST00000477993	processed_transcript	KNOWN	None	22573	None	None	152133980	152140272	1	FABP5L3	TCAG_1781704
7	FABP5P3	ENSG00000241735	ENST00000437960	transcribed_processed_pseudogene	KNOWN	None	22573	None	None	152139628	152140035	1	FABP5L3	TCAG_1781704
HG104_HG975_PATCH	PUF60	ENSG00000260485	ENST00000563311	protein_coding	KNOWN	None	17042	1680	559	144898514	144912029	-1	None	FIR, SIAHBP1, RoBPI
HG104_HG975_PATCH	PUF60	ENSG00000260485	ENST00000563654	protein_coding	KNOWN	None	17042	1551	516	144898547	144911196	-1	None	FIR, SIAHBP1, RoBPI
HG104_HG975_PATCH	PUF60	ENSG00000260485	ENST00000568960	protein_coding	KNOWN	None	17042	1500	499	144898547	144911209	-1	None	FIR, SIAHBP1, RoBPI
HG104_HG975_PATCH	PUF60	ENSG00000260485	ENST00000566765	protein_coding	PUTATIVE	None	17042	1593	530	144898547	144911473	-1	None	FIR, SIAHBP1, RoBPI
HG104_HG975_PATCH	PUF60	ENSG00000260485	ENST00000569567	protein_coding	KNOWN	None	17042	1629	542	144898547	144911522	-1	None	FIR, SIAHBP1, RoBPI
HG104_HG975_PATCH	PUF60	ENSG00000260485	ENST00000567937	protein_coding	PUTATIVE	None	17042	1542	513	144898690	144911490	-1	None	FIR, SIAHBP1, RoBPI
HG104_HG975_PATCH	PUF60	ENSG00000260485	ENST00000565721	processed_transcript	KNOWN	None	17042	None	None	144899212	144905452	-1	None	FIR, SIAHBP1, RoBPI
HG104_HG975_PATCH	PUF60	ENSG00000260485	ENST00000565048	protein_coding	PUTATIVE	None	17042	819	272	144899250	144900646	-1	None	FIR, SIAHBP1, RoBPI
HG104_HG975_PATCH	PUF60	ENSG00000260485	ENST00000563703	protein_coding	NOVEL	None	17042	968	321	144899748	144911508	-1	None	FIR, SIAHBP1, RoBPI
HG104_HG975_PATCH	PUF60	ENSG00000260485	ENST00000570243	protein_coding	NOVEL	None	17042	1007	334	144899756	144911469	-1	None	FIR, SIAHBP1, RoBPI
HG104_HG975_PATCH	PUF60	ENSG00000260485	ENST00000563452	processed_transcript	KNOWN	None	17042	None	None	144900036	144911198	-1	None	FIR, SIAHBP1, RoBPI
HG104_HG975_PATCH	PUF60	ENSG00000260485	ENST00000562123	retained_intron	KNOWN	None	17042	None	None	144900056	144906569	-1	None	FIR, SIAHBP1, RoBPI
HG104_HG975_PATCH	PUF60	ENSG00000260485	ENST00000562964	protein_coding	PUTATIVE	None	17042	789	262	144900120	144911214	-1	None	FIR, SIAHBP1, RoBPI
HG104_HG975_PATCH	PUF60	ENSG00000260485	ENST00000566994	processed_transcript	KNOWN	None	17042	None	None	144900149	144901207	-1	None	FIR, SIAHBP1, RoBPI
HG104_HG975_PATCH	PUF60	ENSG00000260485	ENST00000565711	protein_coding	PUTATIVE	None	17042	743	246	144900166	144911474	-1	None	FIR, SIAHBP1, RoBPI
HG104_HG975_PATCH	PUF60	ENSG00000260485	ENST00000562551	retained_intron	KNOWN	None	17042	None	None	144900363	144901133	-1	None	FIR, SIAHBP1, RoBPI
HG104_HG975_PATCH	PUF60	ENSG00000260485	ENST00000561582	protein_coding	PUTATIVE	None	17042	685	227	144900392	144911508	-1	None	FIR, SIAHBP1, RoBPI
HG104_HG975_PATCH	PUF60	ENSG00000260485	ENST00000567748	retained_intron	KNOWN	None	17042	None	None	144900543	144906630	-1	None	FIR, SIAHBP1, RoBPI
HG104_HG975_PATCH	PUF60	ENSG00000260485	ENST00000566300	retained_intron	KNOWN	None	17042	None	None	144902403	144903913	-1	None	FIR, SIAHBP1, RoBPI
HG104_HG975_PATCH	PUF60	ENSG00000260485	ENST00000565303	retained_intron	KNOWN	None	17042	None	None	144902596	144911489	-1	None	FIR, SIAHBP1, RoBPI
HG104_HG975_PATCH	PUF60	ENSG00000260485	ENST00000569269	retained_intron	KNOWN	None	17042	None	None	144903519	144911485	-1	None	FIR, SIAHBP1, RoBPI
HG104_HG975_PATCH	PUF60	ENSG00000260485	ENST00000569067	processed_transcript	KNOWN	None	17042	None	None	144903767	144907310	-1	None	FIR, SIAHBP1, RoBPI
17	None	ENSG00000266644	ENST00000581622	processed_transcript	KNOWN	None	None	None	None	62895884	62896834	1	None	None
3	LINC00901	ENSG00000242385	ENST00000487512	antisense	KNOWN	None	40352	None	None	116640278	116651085	1	LSAMP-AS4	None
17	None	ENSG00000256929	ENST00000540989	pseudogene	NOVEL	None	None	None	None	40673736	40674065	1	None	None
14	SNORD56B	ENSG00000207444	ENST00000384713	snoRNA	KNOWN	None	19771	None	None	71865054	71865124	1	RNU56B	None
18	None	ENSG00000265670	ENST00000583580	lincRNA	KNOWN	None	None	None	None	28534786	28560883	-1	None	None
6	HSPA1A	ENSG00000204389	ENST00000375651	protein_coding	KNOWN	CCDS34414	5232	1926	641	31783291	31785717	1	HSPA1	HSP70-1
6	HSPA1A	ENSG00000204389	ENST00000458062	protein_coding	KNOWN	None	5232	1653	550	31783320	31785459	1	HSPA1	HSP70-1
17	None	ENSG00000271974	ENST00000606708	transcribed_processed_pseudogene	KNOWN	None	None	None	None	62902001	62902136	-1	None	None
7	None	ENSG00000227965	ENST00000413158	processed_pseudogene	KNOWN	None	None	None	None	16928245	16928509	1	None	None
8	None	ENSG00000227753	ENST00000493084	processed_pseudogene	KNOWN	None	None	None	None	87029048	87029355	1	None	None
3	None	ENSG00000251172	ENST00000381974	processed_pseudogene	KNOWN	None	None	None	None	97200021	97200350	-1	None	None
17	PTP4A2P1	ENSG00000267185	ENST00000590314	processed_pseudogene	KNOWN	None	9637	None	None	40685550	40686027	1	PTP4AP1	h-PRL-1
15	FAM189A1	ENSG00000104059	ENST00000261275	protein_coding	KNOWN	CCDS45198	29075	1620	539	29412457	29862927	-1	None	KIAA0574, TMEM228
15	FAM189A1	ENSG00000104059	ENST00000560021	retained_intron	KNOWN	None	29075	None	None	29415518	29488891	-1	None	KIAA0574, TMEM228
15	FAM189A1	ENSG00000104059	ENST00000560082	protein_coding	PUTATIVE	None	29075	234	77	29488634	29745003	-1	None	KIAA0574, TMEM228
15	FAM189A1	ENSG00000104059	ENST00000560050	processed_transcript	KNOWN	None	29075	None	None	29673975	29862189	-1	None	KIAA0574, TMEM228
X	RPL18AP16	ENSG00000237793	ENST00000424057	processed_pseudogene	KNOWN	None	36288	None	None	152927617	152928147	1	None	None
X	RPL18AP16	ENSG00000237793	ENST00000537422	processed_pseudogene	KNOWN	None	36288	None	None	152927611	152928147	1	None	None
11	CYCSP25	ENSG00000255370	ENST00000525280	processed_pseudogene	KNOWN	None	24399	None	None	31302219	31302534	-1	None	HC10, HCP25
11	None	ENSG00000271757	ENST00000607673	sense_intronic	KNOWN	None	None	None	None	76103240	76103949	1	None	None
11	MIR4691	ENSG00000266737	ENST00000583764	miRNA	KNOWN	None	41796	None	None	67801364	67801448	1	None	hsa-mir-4691
18	RNU6-857P	ENSG00000251702	ENST00000515893	snRNA	KNOWN	None	47820	None	None	28564072	28564181	1	None	None
19	None	ENSG00000269307	ENST00000596542	nonsense_mediated_decay	KNOWN	None	None	555	184	17378227	17393775	1	None	None
18	None	ENSG00000261521	ENST00000568243	lincRNA	KNOWN	None	None	None	None	28638806	28639359	-1	None	None
3	None	ENSG00000261292	ENST00000562191	sense_overlapping	KNOWN	None	None	None	None	97478367	97480374	1	None	None
3	RNU5E-8P	ENSG00000200372	ENST00000363502	snRNA	KNOWN	None	42528	None	None	116683959	116684074	-1	None	None
3	None	ENSG00000263385	ENST00000577400	miRNA	NOVEL	None	None	None	None	25810151	25810202	-1	None	None
13	CCDC70	ENSG00000123171	ENST00000242819	protein_coding	KNOWN	CCDS9431	25303	702	233	52436117	52440366	1	None	DKFZP434K1172, FLJ25853
1	PFN1P9	ENSG00000227205	ENST00000475753	processed_pseudogene	KNOWN	None	42991	None	None	120395939	120396371	1	None	None
15	None	ENSG00000259909	ENST00000569853	unprocessed_pseudogene	KNOWN	None	None	None	None	72931162	72932466	1	None	None
3	LRRFIP2	ENSG00000093167	ENST00000354379	protein_coding	KNOWN	CCDS2665	6703	1203	400	37094147	37217851	-1	None	HUFI-2
3	LRRFIP2	ENSG00000093167	ENST00000336686	protein_coding	KNOWN	CCDS2664	6703	2166	721	37094381	37216055	-1	None	HUFI-2
3	LRRFIP2	ENSG00000093167	ENST00000460646	retained_intron	KNOWN	None	6703	None	None	37094495	37106825	-1	None	HUFI-2
3	LRRFIP2	ENSG00000093167	ENST00000421276	protein_coding	NOVEL	CCDS46791	6703	1275	424	37094495	37217828	-1	None	HUFI-2
3	LRRFIP2	ENSG00000093167	ENST00000496479	retained_intron	KNOWN	None	6703	None	None	37095178	37110254	-1	None	HUFI-2
3	LRRFIP2	ENSG00000093167	ENST00000396428	protein_coding	NOVEL	None	6703	1512	503	37095212	37216680	-1	None	HUFI-2
3	LRRFIP2	ENSG00000093167	ENST00000440230	protein_coding	NOVEL	CCDS46791	6703	1275	424	37095241	37217799	-1	None	HUFI-2
3	LRRFIP2	ENSG00000093167	ENST00000440742	protein_coding	PUTATIVE	None	6703	545	180	37100350	37125241	-1	None	HUFI-2
3	LRRFIP2	ENSG00000093167	ENST00000487246	retained_intron	KNOWN	None	6703	None	None	37105233	37108175	-1	None	HUFI-2
3	LRRFIP2	ENSG00000093167	ENST00000416425	protein_coding	PUTATIVE	None	6703	675	224	37116515	37218023	-1	None	HUFI-2
3	LRRFIP2	ENSG00000093167	ENST00000481682	processed_transcript	KNOWN	None	6703	None	None	37125136	37153406	-1	None	HUFI-2
3	LRRFIP2	ENSG00000093167	ENST00000461672	retained_intron	KNOWN	None	6703	None	None	37162955	37225180	-1	None	HUFI-2
3	LRRFIP2	ENSG00000093167	ENST00000438374	protein_coding	NOVEL	None	6703	203	66	37163157	37217742	-1	None	HUFI-2
3	LRRFIP2	ENSG00000093167	ENST00000434749	protein_coding	KNOWN	None	6703	177	58	37170554	37216626	-1	None	HUFI-2
3	LRRFIP2	ENSG00000093167	ENST00000436858	protein_coding	KNOWN	None	6703	177	58	37170554	37216700	-1	None	HUFI-2
3	LRRFIP2	ENSG00000093167	ENST00000452742	protein_coding	KNOWN	None	6703	177	58	37170554	37216706	-1	None	HUFI-2
3	LRRFIP2	ENSG00000093167	ENST00000482466	processed_transcript	KNOWN	None	6703	None	None	37190418	37217548	-1	None	HUFI-2
3	LRRFIP2	ENSG00000093167	ENST00000490597	processed_transcript	KNOWN	None	6703	None	None	37211824	37217793	-1	None	HUFI-2
3	LRRFIP2	ENSG00000093167	ENST00000496825	processed_transcript	KNOWN	None	6703	None	None	37214261	37217635	-1	None	HUFI-2
3	LRRFIP2	ENSG00000093167	ENST00000483306	processed_transcript	KNOWN	None	6703	None	None	37215610	37217818	-1	None	HUFI-2
3	LRRFIP2	ENSG00000093167	ENST00000421307	protein_coding	KNOWN	CCDS2664	6703	2166	721	37094117	37217851	-1	None	HUFI-2
11	None	ENSG00000201756	ENST00000364886	misc_RNA	NOVEL	None	None	None	None	76115184	76115296	-1	None	None
15	GOLGA6D	ENSG00000140478	ENST00000434739	protein_coding	KNOWN	CCDS45308	32204	2082	693	75575176	75586816	1	None	None
17	None	ENSG00000264057	ENST00000579873	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	62923752	62927404	1	None	None
17	None	ENSG00000264057	ENST00000585187	processed_transcript	KNOWN	None	None	None	None	62923862	62926923	1	None	None
17	None	ENSG00000264057	ENST00000583052	processed_transcript	KNOWN	None	None	None	None	62926267	62930321	1	None	None
18	None	ENSG00000238376	ENST00000459603	snoRNA	NOVEL	None	None	None	None	28652470	28652573	1	None	None
3	NXPE3	ENSG00000144815	ENST00000495842	protein_coding	KNOWN	None	28238	10	2	101498046	101504450	1	FAM55C	MGC15606
3	NXPE3	ENSG00000144815	ENST00000273347	protein_coding	KNOWN	CCDS2945	28238	1680	559	101498074	101542467	1	FAM55C	MGC15606
3	NXPE3	ENSG00000144815	ENST00000474165	protein_coding	KNOWN	None	28238	159	52	101498090	101520144	1	FAM55C	MGC15606
3	NXPE3	ENSG00000144815	ENST00000491511	protein_coding	KNOWN	CCDS2945	28238	1680	559	101498286	101542771	1	FAM55C	MGC15606
3	NXPE3	ENSG00000144815	ENST00000487830	processed_transcript	KNOWN	None	28238	None	None	101498339	101501133	1	FAM55C	MGC15606
3	NXPE3	ENSG00000144815	ENST00000477909	protein_coding	KNOWN	CCDS2945	28238	1680	559	101500550	101541667	1	FAM55C	MGC15606
3	NXPE3	ENSG00000144815	ENST00000422132	protein_coding	KNOWN	CCDS2945	28238	1680	559	101504244	101547073	1	FAM55C	MGC15606
3	RPEP2	ENSG00000234158	ENST00000432149	processed_pseudogene	KNOWN	None	44521	None	None	26057160	26057860	1	None	None
3	PTMAP8	ENSG00000243014	ENST00000397729	processed_pseudogene	KNOWN	None	42437	None	None	116745545	116745886	1	None	None
20	RBL1	ENSG00000080839	ENST00000373664	protein_coding	KNOWN	CCDS13289	9893	3207	1068	35624752	35724398	-1	None	p107, cp107, PRB1
20	RBL1	ENSG00000080839	ENST00000344359	protein_coding	KNOWN	CCDS13290	9893	3045	1014	35631977	35724392	-1	None	p107, cp107, PRB1
20	RBL1	ENSG00000080839	ENST00000525052	protein_coding	NOVEL	None	9893	763	253	35684563	35696458	-1	None	p107, cp107, PRB1
20	RBL1	ENSG00000080839	ENST00000527999	nonsense_mediated_decay	KNOWN	None	9893	342	113	35696490	35724398	-1	None	p107, cp107, PRB1
11	MS4A6E	ENSG00000166926	ENST00000300182	protein_coding	KNOWN	CCDS7984	14285	444	147	60102304	60108441	1	None	None
11	MS4A6E	ENSG00000166926	ENST00000532756	nonsense_mediated_decay	KNOWN	None	14285	369	122	60102444	60164069	1	None	None
11	MS4A6E	ENSG00000166926	ENST00000530509	nonsense_mediated_decay	KNOWN	None	14285	180	59	60102450	60106173	1	None	None
11	OR4A44P	ENSG00000255053	ENST00000524504	unprocessed_pseudogene	KNOWN	None	31263	None	None	48649098	48650045	1	None	None
3	None	ENSG00000271263	ENST00000605054	processed_pseudogene	KNOWN	None	None	None	None	166325031	166325361	1	None	None
11	None	ENSG00000255135	ENST00000530759	lincRNA	KNOWN	None	None	None	None	76152382	76155618	-1	None	None
11	None	ENSG00000255135	ENST00000572035	lincRNA	KNOWN	None	None	None	None	76152398	76155700	-1	None	None
11	None	ENSG00000255031	ENST00000529934	antisense	KNOWN	None	None	None	None	67818207	67820852	1	None	None
11	None	ENSG00000255031	ENST00000526897	antisense	KNOWN	None	None	None	None	67819560	67821161	1	None	None
11	None	ENSG00000255031	ENST00000534517	antisense	KNOWN	None	None	None	None	67820290	67821229	1	None	None
22	ACR	ENSG00000100312	ENST00000533930	retained_intron	KNOWN	None	126	None	None	51176624	51178787	1	None	None
22	ACR	ENSG00000100312	ENST00000216139	protein_coding	KNOWN	CCDS14101	126	1266	421	51176624	51183762	1	None	None
22	ACR	ENSG00000100312	ENST00000529621	protein_coding	PUTATIVE	None	126	639	212	51176658	51179185	1	None	None
22	ACR	ENSG00000100312	ENST00000527761	processed_transcript	KNOWN	None	126	None	None	51182572	51183338	1	None	None
14	RN7SL683P	ENSG00000242330	ENST00000460552	misc_RNA	KNOWN	None	46699	None	None	71915406	71915673	1	None	None
1	NOTCH2P1	ENSG00000226446	ENST00000443481	processed_pseudogene	KNOWN	None	44253	None	None	120428927	120429550	1	None	None
12	None	ENSG00000257411	ENST00000548861	protein_coding	PUTATIVE	None	None	489	162	56495115	56503073	1	None	None
9	None	ENSG00000212951	ENST00000473402	unprocessed_pseudogene	KNOWN	None	None	None	None	46843698	46844154	-1	None	None
9	None	ENSG00000212951	ENST00000546150	unprocessed_pseudogene	KNOWN	None	None	None	None	46842616	46844326	-1	None	None
14	None	ENSG00000266869	ENST00000555581	lincRNA	KNOWN	None	None	None	None	72315323	72375147	1	None	None
10	None	ENSG00000236842	ENST00000427610	antisense	KNOWN	None	None	None	None	77190329	77191346	-1	None	None
12	A2ML1-AS1	ENSG00000256661	ENST00000537288	antisense	KNOWN	None	41022	None	None	8928815	8983543	-1	None	None
12	None	ENSG00000257989	ENST00000547538	processed_transcript	PUTATIVE	None	None	None	None	52486269	52498081	-1	None	None
8	None	ENSG00000243761	ENST00000465398	processed_pseudogene	KNOWN	None	None	None	None	87055331	87055736	1	None	None
7	None	ENSG00000223867	ENST00000419352	processed_pseudogene	KNOWN	None	None	None	None	16977849	16978181	1	None	None
2	IGKV1D-33	ENSG00000239975	ENST00000390265	IG_V_gene	KNOWN	None	5753	351	116	89952792	89953355	1	None	None
3	None	ENSG00000198843	ENST00000480740	protein_coding	PUTATIVE	None	None	414	137	150320662	150345618	1	None	None
3	None	ENSG00000198843	ENST00000471696	protein_coding	KNOWN	CCDS46936	None	588	195	150321075	150348222	1	None	None
3	None	ENSG00000198843	ENST00000477889	protein_coding	PUTATIVE	None	None	414	137	150321078	150345480	1	None	None
3	None	ENSG00000198843	ENST00000492132	nonsense_mediated_decay	KNOWN	None	None	138	45	150321115	150345517	1	None	None
3	None	ENSG00000198843	ENST00000485923	protein_coding	PUTATIVE	None	None	414	137	150321123	150345692	1	None	None
3	None	ENSG00000198843	ENST00000466234	retained_intron	KNOWN	None	None	None	None	150344698	150345777	1	None	None
4	None	ENSG00000250189	ENST00000515103	processed_pseudogene	KNOWN	None	None	None	None	142326326	142328740	1	None	None
9	RBPJP7	ENSG00000234217	ENST00000442803	processed_pseudogene	KNOWN	None	37487	None	None	46912527	46913973	1	None	None
10	MIR606	ENSG00000207583	ENST00000384851	miRNA	KNOWN	None	32862	None	None	77312216	77312311	1	MIRN606	hsa-mir-606
3	None	ENSG00000271937	ENST00000607510	antisense	KNOWN	None	None	None	None	44379433	44380044	-1	None	None
3	RNU6-1200P	ENSG00000206889	ENST00000384162	snRNA	KNOWN	None	48163	None	None	117263052	117263158	1	None	None
3	RN7SKP298	ENSG00000251759	ENST00000515950	misc_RNA	KNOWN	None	46022	None	None	166387817	166387910	-1	None	None
7	DUTP3	ENSG00000226857	ENST00000450025	processed_pseudogene	KNOWN	None	39516	None	None	146843434	146843848	1	None	None
10	None	ENSG00000268659	ENST00000595383	sense_intronic	KNOWN	None	None	None	None	77402234	77402857	1	None	None
17	None	ENSG00000266155	ENST00000578601	unprocessed_pseudogene	KNOWN	None	None	None	None	62932603	62936347	-1	None	None
16	None	ENSG00000238734	ENST00000459379	snoRNA	NOVEL	None	None	None	None	70266882	70266985	-1	None	None
12	None	ENSG00000240759	ENST00000486977	processed_pseudogene	KNOWN	None	None	None	None	43072675	43072926	-1	None	None
3	None	ENSG00000239268	ENST00000484092	lincRNA	KNOWN	None	None	None	None	117391001	117716439	-1	None	None
12	None	ENSG00000249790	ENST00000422780	lincRNA	KNOWN	None	None	None	None	8940853	8947093	1	None	None
12	None	ENSG00000249790	ENST00000540299	lincRNA	KNOWN	None	None	None	None	8940870	8946932	1	None	None
12	None	ENSG00000249790	ENST00000514568	lincRNA	KNOWN	None	None	None	None	8940870	8948385	1	None	None
17	None	ENSG00000266929	ENST00000585572	processed_transcript	KNOWN	None	None	None	None	40688528	40714080	1	None	None
16	RN7SL407P	ENSG00000265230	ENST00000583724	misc_RNA	KNOWN	None	46423	None	None	70298072	70298383	-1	None	None
10	None	ENSG00000228280	ENST00000445111	sense_intronic	KNOWN	None	None	None	None	77502498	77503513	1	None	None
1	None	ENSG00000261662	ENST00000566949	sense_overlapping	KNOWN	None	None	None	None	120451878	120453236	-1	None	None
11	None	ENSG00000255525	ENST00000528872	antisense	KNOWN	None	None	None	None	31327232	31336095	1	None	None
12	None	ENSG00000265009	ENST00000582209	miRNA	NOVEL	None	None	None	None	52504418	52504488	-1	None	None
16	RN7SL279P	ENSG00000265648	ENST00000582185	misc_RNA	KNOWN	None	46295	None	None	70309972	70310251	1	None	None
3	OR5BM1P	ENSG00000250750	ENST00000512021	unprocessed_pseudogene	KNOWN	None	14835	None	None	97772218	97772583	1	None	None
1	RNU6-465P	ENSG00000207149	ENST00000384420	snRNA	KNOWN	None	47428	None	None	120669562	120669662	1	None	None
11	None	ENSG00000254755	ENST00000527320	processed_pseudogene	KNOWN	None	None	None	None	76302067	76302255	1	None	None
HSCHR6_MHC_QBL	HCG18	ENSG00000234893	ENST00000448343	processed_transcript	KNOWN	None	31337	None	None	30248298	30284125	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
HSCHR6_MHC_QBL	HCG18	ENSG00000234893	ENST00000443909	processed_transcript	KNOWN	None	31337	None	None	30248298	30284424	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
HSCHR6_MHC_QBL	HCG18	ENSG00000234893	ENST00000433236	processed_transcript	KNOWN	None	31337	None	None	30248086	30283661	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
HSCHR6_MHC_QBL	HCG18	ENSG00000234893	ENST00000418806	processed_transcript	KNOWN	None	31337	None	None	30248298	30283660	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
HSCHR6_MHC_QBL	HCG18	ENSG00000234893	ENST00000443641	processed_transcript	KNOWN	None	31337	None	None	30248298	30284171	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
HSCHR6_MHC_QBL	HCG18	ENSG00000234893	ENST00000432631	processed_transcript	KNOWN	None	31337	None	None	30248298	30283620	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
HSCHR6_MHC_QBL	HCG18	ENSG00000234893	ENST00000448669	processed_transcript	KNOWN	None	31337	None	None	30248298	30283650	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
HSCHR6_MHC_QBL	HCG18	ENSG00000234893	ENST00000457778	processed_transcript	KNOWN	None	31337	None	None	30248298	30283608	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
7	None	ENSG00000232841	ENST00000428816	processed_pseudogene	KNOWN	None	None	None	None	17072713	17073102	-1	None	None
3	PSAT1P4	ENSG00000224962	ENST00000466500	processed_pseudogene	KNOWN	None	43990	None	None	166408975	166409500	1	None	None
3	PSAT1P4	ENSG00000224962	ENST00000454471	processed_pseudogene	KNOWN	None	43990	None	None	166408976	166409503	1	None	None
12	None	ENSG00000257114	ENST00000550177	lincRNA	KNOWN	None	None	None	None	43086018	43110653	1	None	None
11	None	ENSG00000255551	ENST00000525520	unprocessed_pseudogene	KNOWN	None	None	None	None	48901663	48906789	1	None	None
16	None	ENSG00000261777	ENST00000562077	antisense	KNOWN	None	None	None	None	70349543	70380650	-1	None	None
16	None	ENSG00000261777	ENST00000570278	retained_intron	KNOWN	None	None	None	None	70367686	70380650	-1	None	None
17	None	ENSG00000272346	ENST00000606688	processed_transcript	KNOWN	None	None	None	None	62936700	62937105	1	None	None
2	None	ENSG00000206961	ENST00000384234	snoRNA	NOVEL	None	None	None	None	170584382	170584513	1	None	None
5	ADRB2	ENSG00000169252	ENST00000305988	protein_coding	KNOWN	CCDS4292	286	1242	413	148206156	148208196	1	ADRB2R	ADRBR, BAR, B2AR
3	None	ENSG00000224406	ENST00000427474	lincRNA	KNOWN	None	None	None	None	186172771	186173825	-1	None	None
3	None	ENSG00000224406	ENST00000427914	lincRNA	KNOWN	None	None	None	None	186172780	186211450	-1	None	None
3	None	ENSG00000224406	ENST00000458099	lincRNA	KNOWN	None	None	None	None	186173328	186175194	-1	None	None
3	None	ENSG00000224406	ENST00000441169	lincRNA	KNOWN	None	None	None	None	186175242	186176271	-1	None	None
2	IGKV2D-30	ENSG00000239571	ENST00000474213	IG_V_gene	KNOWN	None	5801	360	119	89975669	89976489	1	None	None
1	None	ENSG00000236933	ENST00000412759	antisense	KNOWN	None	None	None	None	120835810	120838343	-1	None	None
17	DOC2B	ENSG00000262359	ENST00000343572	protein_coding	KNOWN	None	2986	927	308	5810	31427	-1	DOC2BL	None
17	DOC2B	ENSG00000262359	ENST00000575802	processed_transcript	KNOWN	None	2986	None	None	13331	30961	-1	DOC2BL	None
2	PTCHD3P2	ENSG00000231550	ENST00000424937	processed_pseudogene	KNOWN	None	44946	None	None	170623695	170625309	-1	None	None
13	MICU2	ENSG00000165487	ENST00000479790	processed_transcript	KNOWN	None	31830	None	None	22066836	22077212	-1	EFHA1	None
13	MICU2	ENSG00000165487	ENST00000382374	protein_coding	KNOWN	CCDS9297	31830	1305	434	22066839	22178353	-1	EFHA1	None
13	MICU2	ENSG00000165487	ENST00000460488	processed_transcript	KNOWN	None	31830	None	None	22067076	22077237	-1	EFHA1	None
13	MICU2	ENSG00000165487	ENST00000478700	processed_transcript	KNOWN	None	31830	None	None	22067243	22070791	-1	EFHA1	None
13	MICU2	ENSG00000165487	ENST00000480341	processed_transcript	KNOWN	None	31830	None	None	22076966	22089800	-1	EFHA1	None
13	MICU2	ENSG00000165487	ENST00000476895	processed_transcript	KNOWN	None	31830	None	None	22084166	22177850	-1	EFHA1	None
13	MICU2	ENSG00000165487	ENST00000469058	processed_transcript	KNOWN	None	31830	None	None	22084166	22178304	-1	EFHA1	None
13	MICU2	ENSG00000165487	ENST00000468222	protein_coding	NOVEL	None	31830	709	235	22084222	22178320	-1	EFHA1	None
3	LINC00694	ENSG00000225873	ENST00000416124	lincRNA	KNOWN	None	44570	None	None	44462619	44465499	-1	None	None
3	None	ENSG00000249225	ENST00000508964	antisense	KNOWN	None	None	None	None	97818752	97866978	-1	None	None
17	SLC16A6P1	ENSG00000232457	ENST00000577423	processed_transcript	KNOWN	None	48932	None	None	62936720	62952520	1	None	None
17	SLC16A6P1	ENSG00000232457	ENST00000413214	transcribed_unprocessed_pseudogene	KNOWN	None	48932	None	None	62949801	62952664	1	None	None
12	None	ENSG00000265804	ENST00000578580	miRNA	NOVEL	None	None	None	None	52507709	52507796	1	None	None
9	COL15A1	ENSG00000204291	ENST00000467052	processed_transcript	PUTATIVE	None	2192	None	None	101705461	101706470	1	None	None
9	COL15A1	ENSG00000204291	ENST00000471477	retained_intron	KNOWN	None	2192	None	None	101705921	101748735	1	None	None
9	COL15A1	ENSG00000204291	ENST00000375001	protein_coding	KNOWN	CCDS35081	2192	4167	1388	101705921	101833069	1	None	None
9	COL15A1	ENSG00000204291	ENST00000496686	retained_intron	KNOWN	None	2192	None	None	101800955	101803659	1	None	None
17	None	ENSG00000266651	ENST00000585048	lincRNA	KNOWN	None	None	None	None	16343793	16344266	-1	None	None
17	HSD17B1P1	ENSG00000108785	ENST00000590052	unprocessed_pseudogene	KNOWN	None	5216	None	None	40698782	40700724	1	EDHB17, EDH17B1, HSD17BP1	SDR28C1P1
1	None	ENSG00000227193	ENST00000427872	lincRNA	KNOWN	None	None	None	None	120876495	120905159	-1	None	None
11	None	ENSG00000255236	ENST00000527519	antisense	KNOWN	None	None	None	None	67889520	67897985	1	None	None
11	None	ENSG00000255236	ENST00000530842	antisense	KNOWN	None	None	None	None	67897265	67897911	1	None	None
11	None	ENSG00000254728	ENST00000530465	unprocessed_pseudogene	KNOWN	None	None	None	None	48903275	48923733	-1	None	None
3	None	ENSG00000240393	ENST00000461787	processed_pseudogene	KNOWN	None	None	None	None	117393189	117393991	-1	None	None
17	None	ENSG00000266803	ENST00000580311	sense_intronic	KNOWN	None	None	None	None	16461299	16462583	-1	None	None
Y	None	ENSG00000270242	ENST00000605584	processed_pseudogene	KNOWN	None	None	None	None	13551375	13552752	1	None	None
3	OR5AC4P	ENSG00000251090	ENST00000509306	unprocessed_pseudogene	KNOWN	None	31284	None	None	97823598	97824516	1	None	None
7	None	ENSG00000231523	ENST00000458703	unprocessed_pseudogene	KNOWN	None	None	None	None	62577879	62615312	-1	None	None
4	None	ENSG00000250753	ENST00000507498	processed_pseudogene	KNOWN	None	None	None	None	49581850	49582206	1	None	None
11	C11orf93	ENSG00000214290	ENST00000528846	protein_coding	KNOWN	None	26978	320	105	111169565	111179017	1	C11orf93	CASC13
11	C11orf93	ENSG00000214290	ENST00000398035	protein_coding	KNOWN	CCDS44728	26978	465	154	111169976	111179353	1	C11orf93	CASC13
11	C11orf93	ENSG00000214290	ENST00000526216	protein_coding	KNOWN	CCDS44728	26978	465	154	111170458	111179460	1	C11orf93	CASC13
17	None	ENSG00000235554	ENST00000414124	processed_pseudogene	KNOWN	None	None	None	None	16520162	16521195	-1	None	None
12	None	ENSG00000271272	ENST00000603420	processed_pseudogene	KNOWN	None	None	None	None	43323651	43324382	-1	None	None
1	None	ENSG00000268993	ENST00000419150	processed_pseudogene	KNOWN	None	None	None	None	120880883	120881270	1	None	None
2	None	ENSG00000214369	ENST00000379462	processed_pseudogene	KNOWN	None	None	None	None	170646603	170647395	1	None	None
16	ZNF720	ENSG00000197302	ENST00000529943	nonsense_mediated_decay	KNOWN	None	26987	159	52	31724550	31765857	1	None	None
16	ZNF720	ENSG00000197302	ENST00000539915	protein_coding	NOVEL	None	26987	171	56	31724553	31771162	1	None	None
16	ZNF720	ENSG00000197302	ENST00000316491	protein_coding	KNOWN	CCDS45473	26987	381	126	31724555	31772886	1	None	None
16	ZNF720	ENSG00000197302	ENST00000534277	nonsense_mediated_decay	KNOWN	None	26987	159	52	31724566	31771207	1	None	None
16	ZNF720	ENSG00000197302	ENST00000531864	processed_transcript	KNOWN	None	26987	None	None	31724568	31806190	1	None	None
16	ZNF720	ENSG00000197302	ENST00000398707	nonsense_mediated_decay	KNOWN	None	26987	249	82	31724590	31767415	1	None	None
16	ZNF720	ENSG00000197302	ENST00000533488	processed_transcript	KNOWN	None	26987	None	None	31724594	31766116	1	None	None
16	ZNF720	ENSG00000197302	ENST00000398696	protein_coding	KNOWN	None	26987	537	178	31724594	31766249	1	None	None
16	ZNF720	ENSG00000197302	ENST00000534369	protein_coding	NOVEL	None	26987	357	118	31724598	31805476	1	None	None
16	ZNF720	ENSG00000197302	ENST00000542684	processed_transcript	KNOWN	None	26987	None	None	31724608	31770874	1	None	None
16	ZNF720	ENSG00000197302	ENST00000544044	processed_transcript	KNOWN	None	26987	None	None	31724614	31805028	1	None	None
16	ZNF720	ENSG00000197302	ENST00000530881	protein_coding	PUTATIVE	None	26987	440	145	31724624	31765177	1	None	None
16	ZNF720	ENSG00000197302	ENST00000529515	protein_coding	PUTATIVE	None	26987	391	129	31724627	31765805	1	None	None
16	ZNF720	ENSG00000197302	ENST00000399681	protein_coding	KNOWN	None	26987	1428	475	31724590	31767415	1	None	None
12	HNRNPA1P50	ENSG00000257195	ENST00000546565	processed_pseudogene	KNOWN	None	48780	None	None	93277549	93278476	1	None	None
4	None	ENSG00000265591	ENST00000579348	miRNA	NOVEL	None	None	None	None	49585042	49585116	-1	None	None
12	C12orf80	ENSG00000257137	ENST00000551894	lincRNA	KNOWN	None	27473	None	None	52599368	52604607	-1	None	None
12	C12orf80	ENSG00000257137	ENST00000551332	lincRNA	KNOWN	None	27473	None	None	52599569	52602186	-1	None	None
12	C12orf80	ENSG00000257137	ENST00000553017	lincRNA	KNOWN	None	27473	None	None	52603533	52604639	-1	None	None
2	IGKV2D-29	ENSG00000243264	ENST00000491977	IG_V_gene	KNOWN	None	5800	360	119	89986322	89987079	1	None	None
3	POU5F1P7	ENSG00000248365	ENST00000508759	processed_pseudogene	KNOWN	None	33313	None	None	97838035	97838575	1	None	None
4	SNX18P25	ENSG00000249337	ENST00000510539	processed_pseudogene	KNOWN	None	39633	None	None	49590789	49591546	1	None	None
17	None	ENSG00000265912	ENST00000583416	processed_transcript	KNOWN	None	None	None	None	62939380	62947172	1	None	None
17	None	ENSG00000264765	ENST00000577569	lincRNA	KNOWN	None	None	None	None	16557218	16558101	1	None	None
3	None	ENSG00000264774	ENST00000581863	miRNA	NOVEL	None	None	None	None	44556708	44556793	-1	None	None
4	None	ENSG00000221075	ENST00000408148	miRNA	NOVEL	None	None	None	None	49597627	49597709	-1	None	None
17	None	ENSG00000266962	ENST00000590513	antisense	KNOWN	None	None	None	None	40704456	40706766	-1	None	None
13	LINC00571	ENSG00000223685	ENST00000434565	lincRNA	KNOWN	None	43721	None	None	38624954	38717369	-1	None	None
13	LINC00571	ENSG00000223685	ENST00000454060	lincRNA	KNOWN	None	43721	None	None	38627835	38635585	-1	None	None
13	LINC00571	ENSG00000223685	ENST00000451826	lincRNA	KNOWN	None	43721	None	None	38628057	38635590	-1	None	None
17	None	ENSG00000272006	ENST00000606668	processed_pseudogene	KNOWN	None	None	None	None	62947616	62947727	-1	None	None
7	None	ENSG00000221454	ENST00000408527	miRNA	NOVEL	None	None	None	None	152136306	152136393	1	None	None
17	NEK4P2	ENSG00000264359	ENST00000580004	processed_pseudogene	KNOWN	None	39650	None	None	16569421	16570432	-1	None	None
4	None	ENSG00000221334	ENST00000408407	miRNA	NOVEL	None	None	None	None	49600440	49600522	-1	None	None
6	TRIM39	ENSG00000204599	ENST00000458516	protein_coding	KNOWN	None	10065	434	143	30294256	30297528	1	RNF23	None
6	TRIM39	ENSG00000204599	ENST00000440271	protein_coding	KNOWN	None	10065	222	73	30294612	30297316	1	RNF23	None
6	TRIM39	ENSG00000204599	ENST00000396551	protein_coding	KNOWN	CCDS34378	10065	1467	488	30294621	30311506	1	RNF23	None
6	TRIM39	ENSG00000204599	ENST00000428728	protein_coding	KNOWN	None	10065	782	259	30294682	30303754	1	RNF23	None
6	TRIM39	ENSG00000204599	ENST00000396548	protein_coding	KNOWN	CCDS34378	10065	1467	488	30294697	30311506	1	RNF23	None
6	TRIM39	ENSG00000204599	ENST00000428404	protein_coding	KNOWN	None	10065	178	58	30294734	30297272	1	RNF23	None
6	TRIM39	ENSG00000204599	ENST00000376659	protein_coding	KNOWN	CCDS34378	10065	1467	488	30295036	30311506	1	RNF23	None
6	TRIM39	ENSG00000204599	ENST00000428555	protein_coding	KNOWN	None	10065	145	47	30295300	30297239	1	RNF23	None
6	TRIM39	ENSG00000204599	ENST00000396547	protein_coding	KNOWN	CCDS34377	10065	1557	518	30296666	30311506	1	RNF23	None
6	TRIM39	ENSG00000204599	ENST00000420746	protein_coding	KNOWN	None	10065	683	226	30297306	30309247	1	RNF23	None
6	TRIM39	ENSG00000204599	ENST00000376656	protein_coding	KNOWN	CCDS34377	10065	1557	518	30294621	30311505	1	RNF23	None
6	TRIM39	ENSG00000204599	ENST00000540416	protein_coding	KNOWN	None	10065	1467	488	30294621	30311505	1	RNF23	None
17	ATP5LP7	ENSG00000267189	ENST00000589299	processed_pseudogene	KNOWN	None	38169	None	None	40799852	40800161	1	None	None
12	None	ENSG00000257849	ENST00000553006	lincRNA	KNOWN	None	None	None	None	43359925	43361156	1	None	None
1	HIST2H3DP1	ENSG00000213244	ENST00000401004	unprocessed_pseudogene	KNOWN	None	43797	None	None	120904675	120905090	1	None	p05
4	None	ENSG00000221082	ENST00000408155	miRNA	NOVEL	None	None	None	None	49600632	49600714	-1	None	None
3	EI24P3	ENSG00000214825	ENST00000399046	processed_pseudogene	KNOWN	None	44588	None	None	44566236	44567297	-1	None	None
7	None	ENSG00000237773	ENST00000436175	antisense	KNOWN	None	None	None	None	17319458	17320927	-1	None	None
7	None	ENSG00000237773	ENST00000419382	antisense	KNOWN	None	None	None	None	17319459	17338070	-1	None	None
7	None	ENSG00000237773	ENST00000443664	antisense	KNOWN	None	None	None	None	17319568	17320930	-1	None	None
7	None	ENSG00000237773	ENST00000433005	antisense	KNOWN	None	None	None	None	17325899	17338981	-1	None	None
7	None	ENSG00000237773	ENST00000424101	antisense	KNOWN	None	None	None	None	17325901	17334846	-1	None	None
7	None	ENSG00000237773	ENST00000448664	antisense	KNOWN	None	None	None	None	17325901	17334885	-1	None	None
7	None	ENSG00000237773	ENST00000452249	antisense	KNOWN	None	None	None	None	17325903	17338070	-1	None	None
7	None	ENSG00000237773	ENST00000415246	antisense	KNOWN	None	None	None	None	17325903	17338083	-1	None	None
17	RNASEH1P2	ENSG00000231458	ENST00000419919	processed_pseudogene	KNOWN	None	18715	None	None	16586752	16587541	1	None	None
12	None	ENSG00000177340	ENST00000313737	protein_coding	KNOWN	None	None	480	159	31477250	31478879	1	None	None
11	NDUFA3P2	ENSG00000254856	ENST00000531434	processed_pseudogene	KNOWN	None	45051	None	None	68256077	68256308	-1	None	None
Y	None	ENSG00000271375	ENST00000604178	processed_pseudogene	KNOWN	None	None	None	None	13629403	13629913	-1	None	None
9	None	ENSG00000227619	ENST00000443993	antisense	KNOWN	None	None	None	None	132337688	132346835	1	None	None
17	AMZ2P1	ENSG00000214174	ENST00000430983	processed_transcript	KNOWN	None	26491	None	None	62962668	62971686	-1	None	FLJ32065
17	AMZ2P1	ENSG00000214174	ENST00000397713	processed_transcript	KNOWN	None	26491	None	None	62964156	62971694	-1	None	FLJ32065
17	AMZ2P1	ENSG00000214174	ENST00000565833	transcribed_unprocessed_pseudogene	KNOWN	None	26491	None	None	62964340	62969635	-1	None	FLJ32065
17	RNU6-405P	ENSG00000252446	ENST00000516637	snRNA	KNOWN	None	47368	None	None	16595112	16595221	1	None	None
2	IGKV2D-28	ENSG00000242534	ENST00000453166	IG_V_gene	KNOWN	None	5799	360	119	89998789	89999558	1	None	None
2	IGKV2D-28	ENSG00000242534	ENST00000558026	IG_V_gene	KNOWN	None	5799	306	101	89999259	89999564	1	None	None
3	KLHL18	ENSG00000114648	ENST00000433449	nonsense_mediated_decay	KNOWN	None	29120	192	63	47324407	47364197	1	None	KIAA0795, FLJ13703
3	KLHL18	ENSG00000114648	ENST00000437353	protein_coding	PUTATIVE	None	29120	402	133	47324436	47364199	1	None	KIAA0795, FLJ13703
3	KLHL18	ENSG00000114648	ENST00000461084	retained_intron	KNOWN	None	29120	None	None	47324436	47380312	1	None	KIAA0795, FLJ13703
3	KLHL18	ENSG00000114648	ENST00000232766	protein_coding	KNOWN	CCDS33749	29120	1725	574	47324436	47388306	1	None	KIAA0795, FLJ13703
3	KLHL18	ENSG00000114648	ENST00000442272	nonsense_mediated_decay	KNOWN	None	29120	180	59	47324437	47386067	1	None	KIAA0795, FLJ13703
3	KLHL18	ENSG00000114648	ENST00000483201	processed_transcript	KNOWN	None	29120	None	None	47324449	47328948	1	None	KIAA0795, FLJ13703
3	KLHL18	ENSG00000114648	ENST00000455924	protein_coding	KNOWN	None	29120	1389	462	47324437	47386067	1	None	KIAA0795, FLJ13703
10	SLC25A28	ENSG00000155287	ENST00000434701	protein_coding	NOVEL	None	23472	678	225	101370282	101379904	-1	None	MRS3/4, MRS4L
10	SLC25A28	ENSG00000155287	ENST00000370495	protein_coding	KNOWN	CCDS41559	23472	1095	364	101370282	101380121	-1	None	MRS3/4, MRS4L
10	SLC25A28	ENSG00000155287	ENST00000496035	processed_transcript	KNOWN	None	23472	None	None	101370743	101380366	-1	None	MRS3/4, MRS4L
10	SLC25A28	ENSG00000155287	ENST00000479722	processed_transcript	KNOWN	None	23472	None	None	101373226	101379926	-1	None	MRS3/4, MRS4L
22	EIF3L	ENSG00000100129	ENST00000412331	protein_coding	KNOWN	CCDS13960	18138	1695	564	38244875	38285414	1	EIF3S6IP, EIF3EIP	HSPC021, HSPC025, EIF3S11
22	EIF3L	ENSG00000100129	ENST00000439997	nonsense_mediated_decay	KNOWN	None	18138	384	127	38245418	38266280	1	EIF3S6IP, EIF3EIP	HSPC021, HSPC025, EIF3S11
22	EIF3L	ENSG00000100129	ENST00000476955	processed_transcript	KNOWN	None	18138	None	None	38245424	38267291	1	EIF3S6IP, EIF3EIP	HSPC021, HSPC025, EIF3S11
22	EIF3L	ENSG00000100129	ENST00000381683	protein_coding	KNOWN	CCDS56230	18138	1551	516	38245424	38284486	1	EIF3S6IP, EIF3EIP	HSPC021, HSPC025, EIF3S11
22	EIF3L	ENSG00000100129	ENST00000414316	protein_coding	NOVEL	None	18138	551	182	38245427	38259040	1	EIF3S6IP, EIF3EIP	HSPC021, HSPC025, EIF3S11
22	EIF3L	ENSG00000100129	ENST00000436452	nonsense_mediated_decay	KNOWN	None	18138	123	40	38245427	38266196	1	EIF3S6IP, EIF3EIP	HSPC021, HSPC025, EIF3S11
22	EIF3L	ENSG00000100129	ENST00000477256	retained_intron	KNOWN	None	18138	None	None	38245428	38282875	1	EIF3S6IP, EIF3EIP	HSPC021, HSPC025, EIF3S11
22	EIF3L	ENSG00000100129	ENST00000406934	protein_coding	NOVEL	None	18138	1401	466	38245488	38284637	1	EIF3S6IP, EIF3EIP	HSPC021, HSPC025, EIF3S11
22	EIF3L	ENSG00000100129	ENST00000451427	protein_coding	KNOWN	None	18138	450	149	38245627	38259295	1	EIF3S6IP, EIF3EIP	HSPC021, HSPC025, EIF3S11
22	EIF3L	ENSG00000100129	ENST00000464790	processed_transcript	KNOWN	None	18138	None	None	38254572	38267297	1	EIF3S6IP, EIF3EIP	HSPC021, HSPC025, EIF3S11
22	EIF3L	ENSG00000100129	ENST00000482600	retained_intron	KNOWN	None	18138	None	None	38266172	38284638	1	EIF3S6IP, EIF3EIP	HSPC021, HSPC025, EIF3S11
22	EIF3L	ENSG00000100129	ENST00000450376	protein_coding	PUTATIVE	None	18138	330	109	38274068	38284638	1	EIF3S6IP, EIF3EIP	HSPC021, HSPC025, EIF3S11
22	EIF3L	ENSG00000100129	ENST00000460638	retained_intron	KNOWN	None	18138	None	None	38282711	38284638	1	EIF3S6IP, EIF3EIP	HSPC021, HSPC025, EIF3S11
11	None	ENSG00000255479	ENST00000528781	lincRNA	KNOWN	None	None	None	None	76336506	76337878	-1	None	None
17	RN7SL620P	ENSG00000265680	ENST00000580704	misc_RNA	KNOWN	None	46636	None	None	16613373	16613673	1	None	None
3	None	ENSG00000240458	ENST00000485059	processed_pseudogene	KNOWN	None	None	None	None	166439246	166439398	1	None	None
17	UPF3AP1	ENSG00000226478	ENST00000413731	processed_pseudogene	KNOWN	None	30568	None	None	16648950	16650075	-1	None	None
17	UPF3AP1	ENSG00000226478	ENST00000441471	processed_pseudogene	KNOWN	None	30568	None	None	16648945	16649400	-1	None	None
9	None	ENSG00000216181	ENST00000401362	miRNA	NOVEL	None	None	None	None	132353755	132353841	-1	None	None
3	OR5H5P	ENSG00000249321	ENST00000503164	unprocessed_pseudogene	KNOWN	None	14765	None	None	97916055	97916982	1	None	None
13	None	ENSG00000236354	ENST00000414161	lincRNA	KNOWN	None	None	None	None	39107480	39119436	-1	None	None
1	HIST2H2BA	ENSG00000223345	ENST00000430394	processed_transcript	KNOWN	None	20560	None	None	120906028	120915073	1	None	None
1	HIST2H2BA	ENSG00000223345	ENST00000412169	transcribed_unprocessed_pseudogene	KNOWN	None	20560	None	None	120906043	120906423	1	None	None
7	None	ENSG00000199231	ENST00000362361	snoRNA	NOVEL	None	None	None	None	62636318	62636397	-1	None	None
19	ICAM4	ENSG00000105371	ENST00000380770	protein_coding	KNOWN	CCDS12232	5347	816	271	10397643	10399129	1	LW	CD242
19	ICAM4	ENSG00000105371	ENST00000340992	protein_coding	KNOWN	CCDS32904	5347	819	272	10397650	10399178	1	LW	CD242
19	ICAM4	ENSG00000105371	ENST00000393717	protein_coding	KNOWN	CCDS42500	5347	714	237	10397680	10399198	1	LW	CD242
12	None	ENSG00000257373	ENST00000551279	lincRNA	KNOWN	None	None	None	None	43373057	43390289	-1	None	None
9	None	ENSG00000234789	ENST00000455074	antisense	KNOWN	None	None	None	None	132402755	132403561	1	None	None
2	ATRAID	ENSG00000138085	ENST00000380171	protein_coding	KNOWN	CCDS1741	24090	855	284	27434895	27440024	1	C2orf28	HSPC013, p18, APR3
2	ATRAID	ENSG00000138085	ENST00000484646	retained_intron	KNOWN	None	24090	None	None	27435045	27436301	1	C2orf28	HSPC013, p18, APR3
2	ATRAID	ENSG00000138085	ENST00000606999	protein_coding	NOVEL	None	24090	690	229	27435179	27440024	1	C2orf28	HSPC013, p18, APR3
2	ATRAID	ENSG00000138085	ENST00000405489	protein_coding	KNOWN	CCDS46243	24090	516	171	27435238	27440046	1	C2orf28	HSPC013, p18, APR3
2	ATRAID	ENSG00000138085	ENST00000419744	protein_coding	KNOWN	None	24090	226	74	27435734	27438534	1	C2orf28	HSPC013, p18, APR3
2	ATRAID	ENSG00000138085	ENST00000491220	retained_intron	KNOWN	None	24090	None	None	27436063	27438282	1	C2orf28	HSPC013, p18, APR3
2	ATRAID	ENSG00000138085	ENST00000472515	retained_intron	KNOWN	None	24090	None	None	27439242	27440025	1	C2orf28	HSPC013, p18, APR3
3	None	ENSG00000241213	ENST00000493545	lincRNA	KNOWN	None	None	None	None	117397540	117409777	-1	None	None
3	None	ENSG00000241213	ENST00000462528	lincRNA	KNOWN	None	None	None	None	117401761	117407708	-1	None	None
3	None	ENSG00000241213	ENST00000496994	lincRNA	KNOWN	None	None	None	None	117407426	117409779	-1	None	None
17	HMGB3P27	ENSG00000267132	ENST00000589177	processed_pseudogene	KNOWN	None	39319	None	None	40800196	40800756	1	None	None
13	LINC00366	ENSG00000229437	ENST00000441430	lincRNA	KNOWN	None	42688	None	None	39150777	39153131	1	None	None
7	None	ENSG00000237572	ENST00000453012	unprocessed_pseudogene	KNOWN	None	None	None	None	62669597	62672200	1	None	None
3	GCSAM	ENSG00000174500	ENST00000308910	protein_coding	KNOWN	CCDS2964	20253	537	178	111839688	111852152	-1	GCET2	MGC40441, HGAL
3	GCSAM	ENSG00000174500	ENST00000484193	protein_coding	NOVEL	CCDS54622	20253	543	180	111841943	111852101	-1	GCET2	MGC40441, HGAL
3	GCSAM	ENSG00000174500	ENST00000470085	nonsense_mediated_decay	KNOWN	None	20253	144	47	111842072	111852105	-1	GCET2	MGC40441, HGAL
3	GCSAM	ENSG00000174500	ENST00000495418	nonsense_mediated_decay	KNOWN	None	20253	144	47	111842152	111852013	-1	GCET2	MGC40441, HGAL
3	GCSAM	ENSG00000174500	ENST00000460387	protein_coding	NOVEL	CCDS54621	20253	492	163	111842302	111852098	-1	GCET2	MGC40441, HGAL
3	GCSAM	ENSG00000174500	ENST00000488580	protein_coding	NOVEL	None	20253	380	125	111842408	111852072	-1	GCET2	MGC40441, HGAL
3	GCSAM	ENSG00000174500	ENST00000487901	protein_coding	NOVEL	None	20253	334	110	111842454	111852117	-1	GCET2	MGC40441, HGAL
2	None	ENSG00000252981	ENST00000517172	snoRNA	NOVEL	None	None	None	None	170672789	170672888	1	None	None
5	SFXN1	ENSG00000164466	ENST00000507017	protein_coding	KNOWN	None	16085	434	143	174904065	174937210	1	None	FLJ12876
5	SFXN1	ENSG00000164466	ENST00000321442	protein_coding	KNOWN	CCDS4394	16085	969	322	174905398	174956745	1	None	FLJ12876
5	SFXN1	ENSG00000164466	ENST00000508290	retained_intron	KNOWN	None	16085	None	None	174905567	174936406	1	None	FLJ12876
5	SFXN1	ENSG00000164466	ENST00000507395	retained_intron	KNOWN	None	16085	None	None	174905568	174919549	1	None	FLJ12876
5	SFXN1	ENSG00000164466	ENST00000515791	processed_transcript	KNOWN	None	16085	None	None	174905569	174918991	1	None	FLJ12876
5	SFXN1	ENSG00000164466	ENST00000502393	protein_coding	PUTATIVE	None	16085	534	177	174905578	174938582	1	None	FLJ12876
5	SFXN1	ENSG00000164466	ENST00000507823	nonsense_mediated_decay	KNOWN	None	16085	171	56	174905593	174951106	1	None	FLJ12876
5	SFXN1	ENSG00000164466	ENST00000513725	retained_intron	KNOWN	None	16085	None	None	174905594	174937315	1	None	FLJ12876
5	SFXN1	ENSG00000164466	ENST00000506963	protein_coding	KNOWN	None	16085	581	192	174905595	174939184	1	None	FLJ12876
5	SFXN1	ENSG00000164466	ENST00000502865	nonsense_mediated_decay	KNOWN	None	16085	68	21	174919210	174943665	1	None	FLJ12876
5	SFXN1	ENSG00000164466	ENST00000515736	retained_intron	KNOWN	None	16085	None	None	174938439	174940741	1	None	FLJ12876
5	SFXN1	ENSG00000164466	ENST00000421887	retained_intron	KNOWN	None	16085	None	None	174948889	174953886	1	None	FLJ12876
11	None	ENSG00000222339	ENST00000410407	miRNA	NOVEL	None	None	None	None	68273040	68273119	-1	None	None
9	None	ENSG00000236024	ENST00000440413	antisense	KNOWN	None	None	None	None	132475175	132480914	-1	None	None
3	OR5H3P	ENSG00000249975	ENST00000502817	unprocessed_pseudogene	KNOWN	None	14753	None	None	97926267	97927185	1	None	None
22	None	ENSG00000269987	ENST00000602847	lincRNA	KNOWN	None	None	None	None	31372501	31374834	-1	None	None
2	None	ENSG00000227176	ENST00000440229	processed_pseudogene	KNOWN	None	None	None	None	170933734	170934804	-1	None	None
22	None	ENSG00000269972	ENST00000602955	lincRNA	KNOWN	None	None	None	None	31373502	31373844	-1	None	None
12	RNU6-1329P	ENSG00000202534	ENST00000365664	snRNA	KNOWN	None	48292	None	None	93346415	93346521	1	None	None
12	MRPS36P5	ENSG00000257927	ENST00000551909	processed_pseudogene	KNOWN	None	29775	None	None	43447892	43448189	-1	None	None
13	PRDX3P3	ENSG00000234701	ENST00000447765	processed_pseudogene	KNOWN	None	39266	None	None	39191556	39192077	-1	None	None
7	PHKG1P1	ENSG00000226075	ENST00000442924	unprocessed_pseudogene	KNOWN	None	33916	None	None	62693413	62694623	-1	None	None
Y	RCC2P1	ENSG00000234385	ENST00000452257	processed_pseudogene	KNOWN	None	37710	None	None	13901758	13903233	-1	None	None
15	STRC	ENSG00000242866	ENST00000450892	protein_coding	KNOWN	CCDS10098	16035	5328	1775	43891596	43910998	-1	DFNB16	None
15	STRC	ENSG00000242866	ENST00000471703	retained_intron	KNOWN	None	16035	None	None	43891788	43905303	-1	DFNB16	None
15	STRC	ENSG00000242866	ENST00000448437	retained_intron	KNOWN	None	16035	None	None	43891800	43905385	-1	DFNB16	None
15	STRC	ENSG00000242866	ENST00000485556	retained_intron	KNOWN	None	16035	None	None	43891800	43905412	-1	DFNB16	None
15	STRC	ENSG00000242866	ENST00000428650	nonsense_mediated_decay	KNOWN	None	16035	2910	969	43891831	43910996	-1	DFNB16	None
15	STRC	ENSG00000242866	ENST00000440125	nonsense_mediated_decay	KNOWN	None	16035	1056	351	43891831	43910996	-1	DFNB16	None
15	STRC	ENSG00000242866	ENST00000460952	retained_intron	KNOWN	None	16035	None	None	43892761	43893873	-1	DFNB16	None
15	STRC	ENSG00000242866	ENST00000493750	retained_intron	KNOWN	None	16035	None	None	43893197	43895780	-1	DFNB16	None
15	STRC	ENSG00000242866	ENST00000455136	nonsense_mediated_decay	KNOWN	None	16035	359	118	43896902	43905433	-1	DFNB16	None
15	STRC	ENSG00000242866	ENST00000483250	retained_intron	KNOWN	None	16035	None	None	43903392	43905223	-1	DFNB16	None
15	STRC	ENSG00000242866	ENST00000470279	retained_intron	KNOWN	None	16035	None	None	43903397	43905218	-1	DFNB16	None
15	STRC	ENSG00000242866	ENST00000432436	protein_coding	PUTATIVE	None	16035	1992	663	43907325	43910438	-1	DFNB16	None
15	STRC	ENSG00000242866	ENST00000541030	protein_coding	KNOWN	None	16035	3009	1002	43891831	44010458	-1	DFNB16	None
17	None	ENSG00000267042	ENST00000593139	antisense	KNOWN	None	None	None	None	40831981	40834038	1	None	None
22	RN7SL633P	ENSG00000240186	ENST00000488974	misc_RNA	KNOWN	None	46649	None	None	31455975	31456269	1	None	None
9	None	ENSG00000255824	ENST00000435588	pseudogene	NOVEL	None	None	None	None	132500629	132501902	-1	None	None
1	None	ENSG00000234998	ENST00000426275	antisense	KNOWN	None	None	None	None	120906609	120935761	1	None	None
7	CCT8L1P	ENSG00000020219	ENST00000465400	processed_pseudogene	KNOWN	None	32153	None	None	152142562	152144235	1	CCT8L1	None
7	CCT8L1P	ENSG00000020219	ENST00000021776	processed_pseudogene	KNOWN	None	32153	None	None	152142562	152144172	1	CCT8L1	None
11	None	ENSG00000255363	ENST00000532413	lincRNA	KNOWN	None	None	None	None	76339140	76341407	-1	None	None
11	None	ENSG00000212093	ENST00000390804	miRNA	NOVEL	None	None	None	None	68273551	68273634	-1	None	None
22	None	ENSG00000248603	ENST00000504335	processed_transcript	PUTATIVE	None	None	None	None	31497862	31500743	1	None	None
13	RNU6-56P	ENSG00000252795	ENST00000516986	snRNA	KNOWN	None	42546	None	None	39353561	39353653	1	RNU6-56	None
3	OR5H4P	ENSG00000248507	ENST00000510851	unprocessed_pseudogene	KNOWN	None	14763	None	None	97940888	97941810	1	None	None
11	None	ENSG00000254810	ENST00000531511	lincRNA	KNOWN	None	None	None	None	76365213	76367756	-1	None	None
1	None	ENSG00000233029	ENST00000457996	antisense	KNOWN	None	None	None	None	120925634	120933000	1	None	None
5	CDH18	ENSG00000145526	ENST00000510297	processed_transcript	KNOWN	None	1757	None	None	19473060	19478745	-1	None	CDH14, EY-CADHERIN
5	CDH18	ENSG00000145526	ENST00000382275	protein_coding	KNOWN	CCDS3889	1757	2373	790	19473141	19988339	-1	None	CDH14, EY-CADHERIN
5	CDH18	ENSG00000145526	ENST00000507958	protein_coding	KNOWN	CCDS3889	1757	2373	790	19473157	20575982	-1	None	CDH14, EY-CADHERIN
5	CDH18	ENSG00000145526	ENST00000506372	protein_coding	PUTATIVE	None	1757	1728	575	19473682	19886381	-1	None	CDH14, EY-CADHERIN
5	CDH18	ENSG00000145526	ENST00000502796	protein_coding	PUTATIVE	CCDS54835	1757	1725	574	19473688	19988294	-1	None	CDH14, EY-CADHERIN
5	CDH18	ENSG00000145526	ENST00000515257	protein_coding	PUTATIVE	None	1757	1326	441	19473724	19838933	-1	None	CDH14, EY-CADHERIN
5	CDH18	ENSG00000145526	ENST00000511273	protein_coding	PUTATIVE	None	1757	1773	590	19502791	19988316	-1	None	CDH14, EY-CADHERIN
5	CDH18	ENSG00000145526	ENST00000508350	processed_transcript	KNOWN	None	1757	None	None	19721500	19804137	-1	None	CDH14, EY-CADHERIN
5	CDH18	ENSG00000145526	ENST00000511423	processed_transcript	KNOWN	None	1757	None	None	19839081	19988307	-1	None	CDH14, EY-CADHERIN
5	CDH18	ENSG00000145526	ENST00000507632	processed_transcript	KNOWN	None	1757	None	None	19839159	20575972	-1	None	CDH14, EY-CADHERIN
5	CDH18	ENSG00000145526	ENST00000503132	processed_transcript	KNOWN	None	1757	None	None	19839248	19988308	-1	None	CDH14, EY-CADHERIN
5	CDH18	ENSG00000145526	ENST00000274170	protein_coding	KNOWN	CCDS3889	1757	2373	790	19473335	19886381	-1	None	CDH14, EY-CADHERIN
9	UBE2V1P4	ENSG00000233909	ENST00000425374	processed_pseudogene	KNOWN	None	44886	None	None	132553475	132554116	1	None	None
12	None	ENSG00000257345	ENST00000552353	lincRNA	KNOWN	None	None	None	None	93392994	93413596	1	None	None
12	None	ENSG00000257345	ENST00000549914	lincRNA	KNOWN	None	None	None	None	93397191	93400033	1	None	None
13	None	ENSG00000212049	ENST00000390760	miRNA	NOVEL	None	None	None	None	39364781	39364891	1	None	None
16	None	ENSG00000261682	ENST00000562827	lincRNA	KNOWN	None	None	None	None	33140637	33145820	1	None	None
17	USP32P1	ENSG00000188933	ENST00000417524	processed_transcript	KNOWN	None	43570	None	None	16689803	16701743	1	None	None
17	USP32P1	ENSG00000188933	ENST00000578986	processed_transcript	PUTATIVE	None	43570	None	None	16690018	16699466	1	None	None
17	USP32P1	ENSG00000188933	ENST00000393005	processed_transcript	KNOWN	None	43570	None	None	16690304	16707769	1	None	None
17	USP32P1	ENSG00000188933	ENST00000445583	processed_transcript	KNOWN	None	43570	None	None	16691073	16704440	1	None	None
17	USP32P1	ENSG00000188933	ENST00000602730	processed_transcript	KNOWN	None	43570	None	None	16691371	16719854	1	None	None
17	USP32P1	ENSG00000188933	ENST00000577603	processed_transcript	PUTATIVE	None	43570	None	None	16694977	16699518	1	None	None
17	USP32P1	ENSG00000188933	ENST00000456071	processed_transcript	KNOWN	None	43570	None	None	16695291	16703442	1	None	None
17	USP32P1	ENSG00000188933	ENST00000444558	processed_transcript	KNOWN	None	43570	None	None	16697780	16704957	1	None	None
17	USP32P1	ENSG00000188933	ENST00000582011	processed_transcript	PUTATIVE	None	43570	None	None	16697849	16701834	1	None	None
17	USP32P1	ENSG00000188933	ENST00000437217	processed_transcript	PUTATIVE	None	43570	None	None	16697908	16701836	1	None	None
17	USP32P1	ENSG00000188933	ENST00000506594	transcribed_unprocessed_pseudogene	KNOWN	None	43570	None	None	16699357	16705741	1	None	None
17	USP32P1	ENSG00000188933	ENST00000341745	processed_transcript	KNOWN	None	43570	None	None	16701323	16707769	1	None	None
2	IGKV2D-26	ENSG00000211623	ENST00000390268	IG_V_gene	KNOWN	None	5798	360	119	90024732	90025512	1	None	None
Y	None	ENSG00000265161	ENST00000580394	miRNA	NOVEL	None	None	None	None	13947443	13947512	-1	None	None
11	None	ENSG00000236304	ENST00000447519	antisense	KNOWN	None	None	None	None	76368100	76374910	1	None	None
11	None	ENSG00000260808	ENST00000565199	lincRNA	KNOWN	None	None	None	None	68380367	68383698	-1	None	None
11	None	ENSG00000260808	ENST00000565473	lincRNA	KNOWN	None	None	None	None	68383213	68383915	-1	None	None
11	None	ENSG00000260808	ENST00000564469	lincRNA	KNOWN	None	None	None	None	68383260	68384179	-1	None	None
12	A2ML1-AS2	ENSG00000256904	ENST00000394240	antisense	KNOWN	None	41523	None	None	8972412	8973309	-1	None	None
11	POU2AF1	ENSG00000110777	ENST00000393067	protein_coding	KNOWN	CCDS31675	9211	771	256	111222977	111250417	-1	None	OBF1
11	POU2AF1	ENSG00000110777	ENST00000525584	processed_transcript	PUTATIVE	None	9211	None	None	111225262	111230131	-1	None	OBF1
11	POU2AF1	ENSG00000110777	ENST00000531398	protein_coding	PUTATIVE	None	9211	381	126	111228251	111320706	-1	None	OBF1
11	POU2AF1	ENSG00000110777	ENST00000530793	processed_transcript	PUTATIVE	None	9211	None	None	111229533	111250000	-1	None	OBF1
11	POU2AF1	ENSG00000110777	ENST00000525662	processed_transcript	PUTATIVE	None	9211	None	None	111229542	111235002	-1	None	OBF1
11	POU2AF1	ENSG00000110777	ENST00000526535	processed_transcript	PUTATIVE	None	9211	None	None	111233696	111250000	-1	None	OBF1
11	POU2AF1	ENSG00000110777	ENST00000525499	processed_transcript	PUTATIVE	None	9211	None	None	111234056	111235023	-1	None	OBF1
11	POU2AF1	ENSG00000110777	ENST00000515029	processed_transcript	PUTATIVE	None	9211	None	None	111255462	111305769	-1	None	OBF1
11	POU2AF1	ENSG00000110777	ENST00000530229	processed_transcript	PUTATIVE	None	9211	None	None	111267523	111268770	-1	None	OBF1
11	POU2AF1	ENSG00000110777	ENST00000525527	processed_transcript	PUTATIVE	None	9211	None	None	111267523	111269876	-1	None	OBF1
11	POU2AF1	ENSG00000110777	ENST00000529065	processed_transcript	PUTATIVE	None	9211	None	None	111267523	111271766	-1	None	OBF1
11	POU2AF1	ENSG00000110777	ENST00000525890	processed_transcript	PUTATIVE	None	9211	None	None	111275365	111326355	-1	None	OBF1
1	None	ENSG00000230806	ENST00000437515	lincRNA	KNOWN	None	None	None	None	121102017	121139765	-1	None	None
1	None	ENSG00000230806	ENST00000429055	lincRNA	KNOWN	None	None	None	None	121139338	121140666	-1	None	None
16	None	ENSG00000259800	ENST00000567426	processed_pseudogene	KNOWN	None	None	None	None	33141556	33141763	1	None	None
8	None	ENSG00000253715	ENST00000510610	antisense	KNOWN	None	None	None	None	143866790	143893536	1	None	None
7	None	ENSG00000244550	ENST00000451381	processed_transcript	PUTATIVE	None	None	None	None	62693493	62702023	-1	None	None
12	None	ENSG00000257105	ENST00000545706	antisense	KNOWN	None	None	None	None	9139771	9149162	-1	None	None
16	SPNS1	ENSG00000169682	ENST00000567771	protein_coding	KNOWN	None	30621	534	177	28985542	28990565	1	None	HSpin1, nrs, SPINL, PP2030, SPIN1, LAT
16	SPNS1	ENSG00000169682	ENST00000568388	protein_coding	KNOWN	None	30621	428	141	28985642	28990776	1	None	HSpin1, nrs, SPINL, PP2030, SPIN1, LAT
16	SPNS1	ENSG00000169682	ENST00000565975	protein_coding	PUTATIVE	None	30621	1722	573	28986093	28995869	1	None	HSpin1, nrs, SPINL, PP2030, SPIN1, LAT
16	SPNS1	ENSG00000169682	ENST00000311008	protein_coding	KNOWN	CCDS10646	30621	1587	528	28986096	28995864	1	None	HSpin1, nrs, SPINL, PP2030, SPIN1, LAT
16	SPNS1	ENSG00000169682	ENST00000568900	retained_intron	KNOWN	None	30621	None	None	28986099	28992008	1	None	HSpin1, nrs, SPINL, PP2030, SPIN1, LAT
16	SPNS1	ENSG00000169682	ENST00000323081	protein_coding	KNOWN	CCDS45454	30621	1368	455	28986115	28995864	1	None	HSpin1, nrs, SPINL, PP2030, SPIN1, LAT
16	SPNS1	ENSG00000169682	ENST00000334536	protein_coding	KNOWN	CCDS45452	30621	1431	476	28986122	28995865	1	None	HSpin1, nrs, SPINL, PP2030, SPIN1, LAT
16	SPNS1	ENSG00000169682	ENST00000352260	protein_coding	KNOWN	CCDS45453	30621	1365	454	28986134	28995864	1	None	HSpin1, nrs, SPINL, PP2030, SPIN1, LAT
16	SPNS1	ENSG00000169682	ENST00000566059	protein_coding	PUTATIVE	None	30621	1615	537	28986506	28995838	1	None	HSpin1, nrs, SPINL, PP2030, SPIN1, LAT
16	SPNS1	ENSG00000169682	ENST00000564476	protein_coding	PUTATIVE	None	30621	824	273	28986519	28995379	1	None	HSpin1, nrs, SPINL, PP2030, SPIN1, LAT
16	SPNS1	ENSG00000169682	ENST00000561868	processed_transcript	KNOWN	None	30621	None	None	28986823	28993696	1	None	HSpin1, nrs, SPINL, PP2030, SPIN1, LAT
16	SPNS1	ENSG00000169682	ENST00000568829	protein_coding	NOVEL	None	30621	539	178	28989259	28995861	1	None	HSpin1, nrs, SPINL, PP2030, SPIN1, LAT
17	None	ENSG00000267765	ENST00000592440	antisense	KNOWN	None	None	None	None	40835205	40851484	-1	None	None
15	None	ENSG00000214433	ENST00000505201	unprocessed_pseudogene	KNOWN	None	None	None	None	90835194	90838915	1	None	None
3	None	ENSG00000242816	ENST00000482766	lincRNA	KNOWN	None	None	None	None	117509520	117512612	1	None	None
16	None	ENSG00000261536	ENST00000561925	unprocessed_pseudogene	KNOWN	None	None	None	None	33152171	33155118	1	None	None
7	SEPT7P4	ENSG00000240651	ENST00000437076	unprocessed_pseudogene	KNOWN	None	38039	None	None	62701968	62708699	-1	None	None
11	None	ENSG00000254920	ENST00000534243	unprocessed_pseudogene	KNOWN	None	None	None	None	48914808	48920255	1	None	None
9	None	ENSG00000224988	ENST00000417984	processed_pseudogene	KNOWN	None	None	None	None	132645972	132646449	-1	None	None
3	ARL6	ENSG00000113966	ENST00000493990	nonsense_mediated_decay	KNOWN	CCDS2928	13210	561	186	97483365	97519953	1	BBS3	None
3	ARL6	ENSG00000113966	ENST00000463745	protein_coding	KNOWN	CCDS2928	13210	561	186	97483372	97517373	1	BBS3	None
3	ARL6	ENSG00000113966	ENST00000462412	protein_coding	KNOWN	None	13210	363	120	97483377	97506847	1	BBS3	None
3	ARL6	ENSG00000113966	ENST00000496713	processed_transcript	KNOWN	None	13210	None	None	97483611	97510191	1	BBS3	None
3	ARL6	ENSG00000113966	ENST00000476753	protein_coding	PUTATIVE	None	13210	164	53	97503861	97517379	1	BBS3	None
3	ARL6	ENSG00000113966	ENST00000494363	processed_transcript	KNOWN	None	13210	None	None	97512216	97519951	1	BBS3	None
3	ARL6	ENSG00000113966	ENST00000335979	protein_coding	KNOWN	CCDS2928	13210	561	186	97483595	97517369	1	BBS3	None
3	ARL6	ENSG00000113966	ENST00000394206	protein_coding	KNOWN	CCDS2928	13210	561	186	97483595	97517369	1	BBS3	None
HG7_PATCH	C7orf34	ENSG00000260557	ENST00000564474	protein_coding	PUTATIVE	None	21750	460	152	142699949	142701440	1	None	CTM-1
HG7_PATCH	C7orf34	ENSG00000260557	ENST00000566460	protein_coding	KNOWN	None	21750	444	147	142700112	142701464	1	None	CTM-1
12	LINC00592	ENSG00000258279	ENST00000549830	lincRNA	KNOWN	None	27474	None	None	52604714	52617588	1	None	None
2	IGKV2D-24	ENSG00000241566	ENST00000462693	IG_V_gene	KNOWN	None	5797	360	119	90043607	90044439	1	None	None
Y	ASS1P6	ENSG00000215583	ENST00000421118	processed_pseudogene	KNOWN	None	769	None	None	14043242	14044475	-1	ASSP6	None
12	None	ENSG00000258331	ENST00000553211	lincRNA	KNOWN	None	None	None	None	43549118	43556913	1	None	None
6	RREB1	ENSG00000124782	ENST00000379933	protein_coding	KNOWN	CCDS34336	10449	5064	1687	7107830	7249507	1	None	HNT
6	RREB1	ENSG00000124782	ENST00000491191	protein_coding	KNOWN	None	10449	409	135	7108032	7189539	1	None	HNT
6	RREB1	ENSG00000124782	ENST00000379938	protein_coding	KNOWN	CCDS34335	10449	5229	1742	7108041	7252213	1	None	HNT
6	RREB1	ENSG00000124782	ENST00000471433	protein_coding	KNOWN	None	10449	493	163	7108054	7211104	1	None	HNT
6	RREB1	ENSG00000124782	ENST00000467782	protein_coding	KNOWN	None	10449	12	3	7108259	7182156	1	None	HNT
6	RREB1	ENSG00000124782	ENST00000334984	protein_coding	KNOWN	CCDS54963	10449	4431	1476	7108264	7250245	1	None	HNT
6	RREB1	ENSG00000124782	ENST00000349384	protein_coding	KNOWN	CCDS34336	10449	5064	1687	7108264	7251263	1	None	HNT
6	RREB1	ENSG00000124782	ENST00000475946	retained_intron	KNOWN	None	10449	None	None	7108865	7219324	1	None	HNT
6	RREB1	ENSG00000124782	ENST00000483150	protein_coding	KNOWN	None	10449	2334	777	7139478	7230666	1	None	HNT
17	None	ENSG00000266598	ENST00000581796	antisense	KNOWN	None	None	None	None	63048027	63049426	1	None	None
8	ANGPT2	ENSG00000091879	ENST00000325203	protein_coding	KNOWN	CCDS5958	485	1491	496	6357172	6420930	-1	None	Ang2
8	ANGPT2	ENSG00000091879	ENST00000338312	protein_coding	NOVEL	CCDS47761	485	1335	444	6360601	6420565	-1	None	Ang2
8	ANGPT2	ENSG00000091879	ENST00000523120	protein_coding	PUTATIVE	None	485	1380	459	6365085	6420766	-1	None	Ang2
8	ANGPT2	ENSG00000091879	ENST00000415216	protein_coding	KNOWN	CCDS47762	485	1488	495	6357195	6420784	-1	None	Ang2
19	RASIP1	ENSG00000105538	ENST00000601530	retained_intron	KNOWN	None	24716	None	None	49223844	49228838	-1	None	FLJ20401, RAIN
19	RASIP1	ENSG00000105538	ENST00000222145	protein_coding	KNOWN	CCDS12731	24716	2892	963	49223844	49243978	-1	None	FLJ20401, RAIN
19	RASIP1	ENSG00000105538	ENST00000599291	protein_coding	NOVEL	None	24716	546	181	49228087	49242275	-1	None	FLJ20401, RAIN
19	RASIP1	ENSG00000105538	ENST00000594232	processed_transcript	KNOWN	None	24716	None	None	49232810	49241962	-1	None	FLJ20401, RAIN
3	None	ENSG00000251088	ENST00000508616	lincRNA	KNOWN	None	None	None	None	97952495	98176742	1	None	None
2	RNU6-1006P	ENSG00000252807	ENST00000516998	snRNA	KNOWN	None	47969	None	None	170976506	170976608	-1	None	None
11	None	ENSG00000254975	ENST00000533588	lincRNA	KNOWN	None	None	None	None	76386123	76414239	1	None	None
7	None	ENSG00000261455	ENST00000564834	lincRNA	KNOWN	None	None	None	None	152160871	152162634	1	None	None
7	None	ENSG00000236638	ENST00000422502	processed_pseudogene	KNOWN	None	None	None	None	62723443	62723834	1	None	None
17	None	ENSG00000263470	ENST00000582940	lincRNA	KNOWN	None	None	None	None	63096930	63107176	1	None	None
1	SRGAP2C	ENSG00000171943	ENST00000304465	unprocessed_pseudogene	KNOWN	None	30584	None	None	121107154	121129692	1	SRGAP2P1	None
1	SRGAP2C	ENSG00000171943	ENST00000367123	unprocessed_pseudogene	KNOWN	None	30584	None	None	121107124	121129949	1	SRGAP2P1	None
11	P4HA3	ENSG00000149380	ENST00000540363	processed_transcript	PUTATIVE	None	30135	None	None	73946846	73958955	-1	None	C-P4Halpha(III)
11	P4HA3	ENSG00000149380	ENST00000524388	nonsense_mediated_decay	KNOWN	None	30135	774	257	73958532	74022676	-1	None	C-P4Halpha(III)
11	P4HA3	ENSG00000149380	ENST00000532689	nonsense_mediated_decay	KNOWN	None	30135	186	61	73970886	73980714	-1	None	C-P4Halpha(III)
11	P4HA3	ENSG00000149380	ENST00000331597	protein_coding	KNOWN	CCDS8230	30135	1635	544	73977700	74022702	-1	None	C-P4Halpha(III)
11	P4HA3	ENSG00000149380	ENST00000525968	nonsense_mediated_decay	KNOWN	None	30135	315	104	73977702	74022669	-1	None	C-P4Halpha(III)
11	P4HA3	ENSG00000149380	ENST00000427714	protein_coding	PUTATIVE	None	30135	1815	604	73977702	74022685	-1	None	C-P4Halpha(III)
11	P4HA3	ENSG00000149380	ENST00000531716	retained_intron	KNOWN	None	30135	None	None	73996478	73997300	-1	None	C-P4Halpha(III)
6	TRMT11	ENSG00000066651	ENST00000461129	nonsense_mediated_decay	KNOWN	None	21080	249	82	126307625	126329626	1	C6orf75	MDS024, dJ187J11.2, TRM11, TRMT11-1
6	TRMT11	ENSG00000066651	ENST00000479748	nonsense_mediated_decay	KNOWN	None	21080	774	257	126307625	126360422	1	C6orf75	MDS024, dJ187J11.2, TRM11, TRMT11-1
6	TRMT11	ENSG00000066651	ENST00000368332	protein_coding	KNOWN	None	21080	1377	458	126307625	126360422	1	C6orf75	MDS024, dJ187J11.2, TRM11, TRMT11-1
6	TRMT11	ENSG00000066651	ENST00000481529	nonsense_mediated_decay	KNOWN	None	21080	1026	341	126307625	126360937	1	C6orf75	MDS024, dJ187J11.2, TRM11, TRMT11-1
6	TRMT11	ENSG00000066651	ENST00000468097	nonsense_mediated_decay	KNOWN	None	21080	693	230	126307672	126332420	1	C6orf75	MDS024, dJ187J11.2, TRM11, TRMT11-1
6	TRMT11	ENSG00000066651	ENST00000473273	protein_coding	NOVEL	None	21080	258	85	126307697	126319280	1	C6orf75	MDS024, dJ187J11.2, TRM11, TRMT11-1
6	TRMT11	ENSG00000066651	ENST00000444121	protein_coding	KNOWN	None	21080	279	92	126307699	126319776	1	C6orf75	MDS024, dJ187J11.2, TRM11, TRMT11-1
6	TRMT11	ENSG00000066651	ENST00000446681	protein_coding	KNOWN	None	21080	402	133	126307699	126320671	1	C6orf75	MDS024, dJ187J11.2, TRM11, TRMT11-1
6	TRMT11	ENSG00000066651	ENST00000489934	processed_transcript	KNOWN	None	21080	None	None	126308060	126319244	1	C6orf75	MDS024, dJ187J11.2, TRM11, TRMT11-1
6	TRMT11	ENSG00000066651	ENST00000453993	protein_coding	KNOWN	None	21080	509	168	126320686	126334231	1	C6orf75	MDS024, dJ187J11.2, TRM11, TRMT11-1
6	TRMT11	ENSG00000066651	ENST00000466316	nonsense_mediated_decay	KNOWN	None	21080	14	3	126327988	126359899	1	C6orf75	MDS024, dJ187J11.2, TRM11, TRMT11-1
6	TRMT11	ENSG00000066651	ENST00000334379	protein_coding	KNOWN	CCDS35496	21080	1392	463	126307576	126360418	1	C6orf75	MDS024, dJ187J11.2, TRM11, TRMT11-1
6	TRMT11	ENSG00000066651	ENST00000450358	protein_coding	KNOWN	None	21080	774	257	126307576	126329816	1	C6orf75	MDS024, dJ187J11.2, TRM11, TRMT11-1
17	None	ENSG00000239671	ENST00000479088	processed_pseudogene	KNOWN	None	None	None	None	40866317	40866661	1	None	None
8	None	ENSG00000253728	ENST00000519281	antisense	KNOWN	None	None	None	None	143915554	143916204	-1	None	None
8	None	ENSG00000253728	ENST00000519411	antisense	KNOWN	None	None	None	None	143915554	143916356	-1	None	None
3	None	ENSG00000243276	ENST00000482142	lincRNA	KNOWN	None	None	None	None	117723666	118276515	-1	None	None
3	None	ENSG00000243276	ENST00000476460	lincRNA	KNOWN	None	None	None	None	118227258	118276514	-1	None	None
3	CBX1P5	ENSG00000231516	ENST00000475330	processed_pseudogene	KNOWN	None	21006	None	None	166528797	166529355	1	CBX9	None
12	NCAPD2	ENSG00000010292	ENST00000541399	processed_transcript	KNOWN	None	24305	None	None	6602522	6620358	1	None	CNAP1, hCAP-D2, CAP-D2, KIAA0159
12	NCAPD2	ENSG00000010292	ENST00000315579	protein_coding	KNOWN	CCDS8548	24305	4206	1401	6602545	6641121	1	None	CNAP1, hCAP-D2, CAP-D2, KIAA0159
12	NCAPD2	ENSG00000010292	ENST00000539714	protein_coding	PUTATIVE	None	24305	354	117	6602553	6619886	1	None	CNAP1, hCAP-D2, CAP-D2, KIAA0159
12	NCAPD2	ENSG00000010292	ENST00000536538	processed_transcript	PUTATIVE	None	24305	None	None	6602567	6604331	1	None	CNAP1, hCAP-D2, CAP-D2, KIAA0159
12	NCAPD2	ENSG00000010292	ENST00000382457	protein_coding	NOVEL	None	24305	2759	918	6603259	6637257	1	None	CNAP1, hCAP-D2, CAP-D2, KIAA0159
12	NCAPD2	ENSG00000010292	ENST00000539084	nonsense_mediated_decay	KNOWN	None	24305	246	81	6603265	6640642	1	None	CNAP1, hCAP-D2, CAP-D2, KIAA0159
12	NCAPD2	ENSG00000010292	ENST00000545732	retained_intron	KNOWN	None	24305	None	None	6620391	6626037	1	None	CNAP1, hCAP-D2, CAP-D2, KIAA0159
12	NCAPD2	ENSG00000010292	ENST00000536090	processed_transcript	PUTATIVE	None	24305	None	None	6626525	6627369	1	None	CNAP1, hCAP-D2, CAP-D2, KIAA0159
12	NCAPD2	ENSG00000010292	ENST00000542472	processed_transcript	PUTATIVE	None	24305	None	None	6626959	6631099	1	None	CNAP1, hCAP-D2, CAP-D2, KIAA0159
12	NCAPD2	ENSG00000010292	ENST00000538600	processed_transcript	PUTATIVE	None	24305	None	None	6631086	6632480	1	None	CNAP1, hCAP-D2, CAP-D2, KIAA0159
12	NCAPD2	ENSG00000010292	ENST00000542492	processed_transcript	KNOWN	None	24305	None	None	6632366	6637233	1	None	CNAP1, hCAP-D2, CAP-D2, KIAA0159
12	NCAPD2	ENSG00000010292	ENST00000535804	processed_transcript	PUTATIVE	None	24305	None	None	6637713	6638337	1	None	CNAP1, hCAP-D2, CAP-D2, KIAA0159
12	NCAPD2	ENSG00000010292	ENST00000539885	processed_transcript	PUTATIVE	None	24305	None	None	6638426	6639896	1	None	CNAP1, hCAP-D2, CAP-D2, KIAA0159
12	NCAPD2	ENSG00000010292	ENST00000545962	protein_coding	KNOWN	None	24305	4071	1356	6603265	6640642	1	None	CNAP1, hCAP-D2, CAP-D2, KIAA0159
17	None	ENSG00000265883	ENST00000582031	processed_pseudogene	KNOWN	None	None	None	None	63181437	63181600	-1	None	None
7	ZNF733P	ENSG00000185037	ENST00000444809	transcribed_unprocessed_pseudogene	KNOWN	None	32473	None	None	62751896	62764366	-1	ZNF733	None
7	ZNF733P	ENSG00000185037	ENST00000331425	processed_transcript	KNOWN	None	32473	None	None	62751930	62764434	-1	ZNF733	None
12	HNRNPA1P34	ENSG00000213049	ENST00000391992	processed_pseudogene	KNOWN	None	48763	None	None	9180128	9181685	-1	None	None
19	ANKLE1	ENSG00000160117	ENST00000404261	nonsense_mediated_decay	KNOWN	None	26812	1158	385	17392454	17397314	1	ANKRD41	FLJ39369, LEMD6
19	ANKLE1	ENSG00000160117	ENST00000394458	protein_coding	KNOWN	CCDS12354	26812	1848	615	17392454	17398455	1	ANKRD41	FLJ39369, LEMD6
19	ANKLE1	ENSG00000160117	ENST00000601401	retained_intron	KNOWN	None	26812	None	None	17392472	17393684	1	ANKRD41	FLJ39369, LEMD6
19	ANKLE1	ENSG00000160117	ENST00000404085	protein_coding	PUTATIVE	None	26812	1836	611	17392508	17398455	1	ANKRD41	FLJ39369, LEMD6
19	ANKLE1	ENSG00000160117	ENST00000594072	protein_coding	NOVEL	None	26812	1737	578	17392686	17397663	1	ANKRD41	FLJ39369, LEMD6
19	ANKLE1	ENSG00000160117	ENST00000596626	retained_intron	KNOWN	None	26812	None	None	17392686	17397663	1	ANKRD41	FLJ39369, LEMD6
19	ANKLE1	ENSG00000160117	ENST00000598347	protein_coding	PUTATIVE	None	26812	1794	597	17392728	17397731	1	ANKRD41	FLJ39369, LEMD6
19	ANKLE1	ENSG00000160117	ENST00000596834	retained_intron	KNOWN	None	26812	None	None	17392858	17393857	1	ANKRD41	FLJ39369, LEMD6
19	ANKLE1	ENSG00000160117	ENST00000596099	retained_intron	KNOWN	None	26812	None	None	17392903	17393986	1	ANKRD41	FLJ39369, LEMD6
19	ANKLE1	ENSG00000160117	ENST00000433424	protein_coding	KNOWN	None	26812	1320	439	17392454	17397314	1	ANKRD41	FLJ39369, LEMD6
17	TMEM102	ENSG00000181284	ENST00000323206	protein_coding	KNOWN	CCDS11104	26722	1527	508	7338762	7340998	1	None	FLJ36878
17	TMEM102	ENSG00000181284	ENST00000396568	protein_coding	KNOWN	CCDS11104	26722	1527	508	7338773	7340842	1	None	FLJ36878
17	None	ENSG00000265189	ENST00000582954	miRNA	NOVEL	None	None	None	None	63416701	63416778	-1	None	None
4	None	ENSG00000223099	ENST00000411167	miRNA	NOVEL	None	None	None	None	49601445	49601526	-1	None	None
8	ZNHIT1P1	ENSG00000253421	ENST00000523947	processed_pseudogene	KNOWN	None	44474	None	None	143939770	143940213	1	None	None
17	None	ENSG00000263520	ENST00000579474	processed_transcript	KNOWN	None	None	None	None	63453659	63454526	1	None	None
X	PHKA2	ENSG00000044446	ENST00000379942	protein_coding	KNOWN	CCDS14190	8926	3708	1235	18910418	19002716	-1	PHK, PYK	None
X	PHKA2	ENSG00000044446	ENST00000481718	processed_transcript	KNOWN	None	8926	None	None	18911090	18914752	-1	PHK, PYK	None
X	PHKA2	ENSG00000044446	ENST00000469485	processed_transcript	KNOWN	None	8926	None	None	18911091	18916287	-1	PHK, PYK	None
X	PHKA2	ENSG00000044446	ENST00000473597	processed_transcript	KNOWN	None	8926	None	None	18911566	18913360	-1	PHK, PYK	None
X	PHKA2	ENSG00000044446	ENST00000473739	processed_transcript	KNOWN	None	8926	None	None	18912200	18919721	-1	PHK, PYK	None
X	PHKA2	ENSG00000044446	ENST00000469645	processed_transcript	KNOWN	None	8926	None	None	18913264	18924920	-1	PHK, PYK	None
X	PHKA2	ENSG00000044446	ENST00000486231	processed_transcript	KNOWN	None	8926	None	None	18918797	18923933	-1	PHK, PYK	None
X	PHKA2	ENSG00000044446	ENST00000464455	processed_transcript	KNOWN	None	8926	None	None	18942282	18944598	-1	PHK, PYK	None
2	None	ENSG00000231898	ENST00000597915	antisense	KNOWN	None	None	None	None	171190438	171201438	-1	None	None
2	None	ENSG00000231898	ENST00000595528	antisense	KNOWN	None	None	None	None	171190492	171201438	-1	None	None
2	None	ENSG00000231898	ENST00000593578	antisense	KNOWN	None	None	None	None	171190523	171201438	-1	None	None
2	None	ENSG00000231898	ENST00000594762	antisense	KNOWN	None	None	None	None	171190609	171201438	-1	None	None
2	None	ENSG00000231898	ENST00000599635	antisense	KNOWN	None	None	None	None	171190882	171201438	-1	None	None
2	None	ENSG00000231898	ENST00000600436	antisense	KNOWN	None	None	None	None	171190882	171201438	-1	None	None
2	None	ENSG00000231898	ENST00000593861	antisense	KNOWN	None	None	None	None	171191275	171201438	-1	None	None
2	None	ENSG00000231898	ENST00000600365	antisense	KNOWN	None	None	None	None	171191369	171201438	-1	None	None
2	None	ENSG00000231898	ENST00000596641	antisense	KNOWN	None	None	None	None	171197033	171201438	-1	None	None
2	None	ENSG00000231898	ENST00000598749	antisense	KNOWN	None	None	None	None	171197200	171201438	-1	None	None
2	None	ENSG00000231898	ENST00000424391	antisense	KNOWN	None	None	None	None	171197611	171207453	-1	None	None
2	None	ENSG00000231898	ENST00000413923	antisense	KNOWN	None	None	None	None	171197624	171201438	-1	None	None
2	None	ENSG00000231898	ENST00000593599	antisense	KNOWN	None	None	None	None	171197701	171201438	-1	None	None
2	None	ENSG00000231898	ENST00000595011	antisense	KNOWN	None	None	None	None	171197773	171207618	-1	None	None
2	None	ENSG00000231898	ENST00000457834	antisense	KNOWN	None	None	None	None	171201309	171207621	-1	None	None
2	None	ENSG00000231898	ENST00000600489	antisense	KNOWN	None	None	None	None	171201309	171207628	-1	None	None
2	None	ENSG00000231898	ENST00000438635	antisense	KNOWN	None	None	None	None	171201359	171207565	-1	None	None
19	None	ENSG00000267565	ENST00000585571	antisense	KNOWN	None	None	None	None	20003242	20006656	-1	None	None
7	TPK1	ENSG00000196511	ENST00000482940	nonsense_mediated_decay	KNOWN	None	17358	240	79	144149034	144436015	-1	None	HTPK1, PP20
7	TPK1	ENSG00000196511	ENST00000360057	protein_coding	KNOWN	CCDS5888	17358	732	243	144149034	144533146	-1	None	HTPK1, PP20
7	TPK1	ENSG00000196511	ENST00000538212	protein_coding	PUTATIVE	None	17358	570	189	144149036	144421252	-1	None	HTPK1, PP20
7	TPK1	ENSG00000196511	ENST00000378098	nonsense_mediated_decay	KNOWN	None	17358	366	121	144149675	144533146	-1	None	HTPK1, PP20
7	TPK1	ENSG00000196511	ENST00000547966	processed_transcript	KNOWN	None	17358	None	None	144150521	144363795	-1	None	HTPK1, PP20
7	TPK1	ENSG00000196511	ENST00000551062	processed_transcript	KNOWN	None	17358	None	None	144228203	144363811	-1	None	HTPK1, PP20
7	TPK1	ENSG00000196511	ENST00000548831	processed_transcript	KNOWN	None	17358	None	None	144288230	144343207	-1	None	HTPK1, PP20
7	TPK1	ENSG00000196511	ENST00000552881	protein_coding	KNOWN	None	17358	500	165	144288517	144533488	-1	None	HTPK1, PP20
7	TPK1	ENSG00000196511	ENST00000481645	retained_intron	KNOWN	None	17358	None	None	144316274	144436570	-1	None	HTPK1, PP20
7	TPK1	ENSG00000196511	ENST00000489798	nonsense_mediated_decay	KNOWN	None	17358	129	42	144340637	144436017	-1	None	HTPK1, PP20
7	TPK1	ENSG00000196511	ENST00000546806	processed_transcript	KNOWN	None	17358	None	None	144378833	144435984	-1	None	HTPK1, PP20
7	TPK1	ENSG00000196511	ENST00000548460	processed_transcript	KNOWN	None	17358	None	None	144532226	144533092	-1	None	HTPK1, PP20
7	TPK1	ENSG00000196511	ENST00000378099	protein_coding	KNOWN	CCDS55178	17358	585	194	144149043	144533146	-1	None	HTPK1, PP20
7	TPK1	ENSG00000196511	ENST00000549981	protein_coding	KNOWN	None	17358	375	124	144149043	144436015	-1	None	HTPK1, PP20
19	None	ENSG00000267268	ENST00000592245	lincRNA	KNOWN	None	None	None	None	20011777	20074273	1	None	None
3	None	ENSG00000250355	ENST00000502370	processed_pseudogene	KNOWN	None	None	None	None	132575913	132576068	1	None	None
17	None	ENSG00000271587	ENST00000603178	processed_pseudogene	KNOWN	None	None	None	None	63640426	63640735	1	None	None
2	IGKV6D-21	ENSG00000225523	ENST00000436451	IG_V_gene	KNOWN	None	5837	342	113	90060377	90060995	1	None	IGKV6D21, A10
8	None	ENSG00000247317	ENST00000517833	lincRNA	KNOWN	None	None	None	None	144063155	144099807	-1	None	None
8	None	ENSG00000247317	ENST00000522060	lincRNA	KNOWN	None	None	None	None	144063466	144099798	-1	None	None
8	None	ENSG00000247317	ENST00000518024	lincRNA	KNOWN	None	None	None	None	144076293	144093994	-1	None	None
8	None	ENSG00000247317	ENST00000502167	lincRNA	KNOWN	None	None	None	None	144089170	144099814	-1	None	None
8	None	ENSG00000247317	ENST00000518831	lincRNA	KNOWN	None	None	None	None	144098083	144099854	-1	None	None
Y	MXRA5P1	ENSG00000235649	ENST00000420610	unprocessed_pseudogene	KNOWN	None	23932	None	None	14077914	14108092	1	MXRA5P	ADLICANP
12	None	ENSG00000258336	ENST00000549363	processed_pseudogene	KNOWN	None	None	None	None	61994231	61994624	-1	None	None
3	None	ENSG00000240033	ENST00000496403	lincRNA	KNOWN	None	None	None	None	166552809	166562744	-1	None	None
19	None	ENSG00000264441	ENST00000578235	miRNA	NOVEL	None	None	None	None	20137836	20137926	-1	None	None
HG7_PATCH	KEL	ENSG00000260040	ENST00000561891	protein_coding	KNOWN	None	6308	2199	732	142701710	142723277	-1	None	ECE3, CD238
HG7_PATCH	KEL	ENSG00000260040	ENST00000567600	retained_intron	KNOWN	None	6308	None	None	142702662	142704435	-1	None	ECE3, CD238
HG7_PATCH	KEL	ENSG00000260040	ENST00000566694	retained_intron	KNOWN	None	6308	None	None	142703055	142703750	-1	None	ECE3, CD238
HG7_PATCH	KEL	ENSG00000260040	ENST00000562671	retained_intron	KNOWN	None	6308	None	None	142704145	142705512	-1	None	ECE3, CD238
HG7_PATCH	KEL	ENSG00000260040	ENST00000567604	retained_intron	KNOWN	None	6308	None	None	142706667	142722920	-1	None	ECE3, CD238
HG7_PATCH	KEL	ENSG00000260040	ENST00000568480	processed_transcript	KNOWN	None	6308	None	None	142714882	142719023	-1	None	ECE3, CD238
HG7_PATCH	KEL	ENSG00000260040	ENST00000562036	protein_coding	NOVEL	None	6308	554	183	142714940	142722897	-1	None	ECE3, CD238
HG7_PATCH	KEL	ENSG00000260040	ENST00000565337	protein_coding	PUTATIVE	None	6308	612	203	142718426	142722923	-1	None	ECE3, CD238
HG7_PATCH	KEL	ENSG00000260040	ENST00000568726	protein_coding	NOVEL	None	6308	556	184	142718900	142722744	-1	None	ECE3, CD238
17	None	ENSG00000270870	ENST00000605382	processed_pseudogene	KNOWN	None	None	None	None	63651032	63651513	1	None	None
19	None	ENSG00000268070	ENST00000601729	processed_pseudogene	KNOWN	None	None	None	None	20144253	20145141	1	None	None
11	None	ENSG00000223101	ENST00000411169	miRNA	NOVEL	None	None	None	None	90057944	90058052	1	None	None
21	None	ENSG00000225331	ENST00000411694	lincRNA	KNOWN	None	None	None	None	45578623	45579955	-1	None	None
21	None	ENSG00000225331	ENST00000424921	lincRNA	KNOWN	None	None	None	None	45578898	45579959	-1	None	None
3	None	ENSG00000249725	ENST00000505557	lincRNA	KNOWN	None	None	None	None	132733848	132755896	-1	None	None
19	PPM1N	ENSG00000213889	ENST00000401705	protein_coding	KNOWN	None	26845	339	112	45992035	46005557	1	None	FLJ40125
19	PPM1N	ENSG00000213889	ENST00000456399	protein_coding	PUTATIVE	None	26845	393	130	46000489	46005560	1	None	FLJ40125
19	PPM1N	ENSG00000213889	ENST00000396737	protein_coding	KNOWN	None	26845	339	112	46000509	46005768	1	None	FLJ40125
19	PPM1N	ENSG00000213889	ENST00000451287	protein_coding	KNOWN	CCDS46115	26845	1293	430	46001731	46005343	1	None	FLJ40125
19	PPM1N	ENSG00000213889	ENST00000415077	nonsense_mediated_decay	KNOWN	None	26845	1123	373	46001865	46005600	1	None	FLJ40125
19	PPM1N	ENSG00000213889	ENST00000396735	protein_coding	KNOWN	None	26845	339	112	46002868	46005768	1	None	FLJ40125
19	PPM1N	ENSG00000213889	ENST00000401593	protein_coding	PUTATIVE	None	26845	423	140	46003207	46005568	1	None	FLJ40125
19	PPM1N	ENSG00000213889	ENST00000396736	protein_coding	PUTATIVE	None	26845	414	137	46003219	46005568	1	None	FLJ40125
19	PPM1N	ENSG00000213889	ENST00000324688	protein_coding	KNOWN	None	26845	1023	340	46001865	46005566	1	None	FLJ40125
17	PSMD7P1	ENSG00000266707	ENST00000579375	processed_pseudogene	KNOWN	None	7202	None	None	64193811	64194356	1	MOV34L, PSMD7L	None
12	METTL7AP1	ENSG00000257649	ENST00000547343	processed_pseudogene	KNOWN	None	48874	None	None	52622877	52623372	-1	None	None
17	CD79B	ENSG00000007312	ENST00000392795	protein_coding	KNOWN	CCDS42372	1699	693	230	62006100	62009696	-1	IGB	B29
17	CD79B	ENSG00000007312	ENST00000006750	protein_coding	KNOWN	CCDS11655	1699	690	229	62006100	62009714	-1	IGB	B29
17	CD79B	ENSG00000007312	ENST00000559358	retained_intron	KNOWN	None	1699	None	None	62006128	62007874	-1	IGB	B29
17	CD79B	ENSG00000007312	ENST00000349817	protein_coding	KNOWN	CCDS11656	1699	378	125	62006586	62009621	-1	IGB	B29
17	CD79B	ENSG00000007312	ENST00000558969	retained_intron	KNOWN	None	1699	None	None	62008320	62009691	-1	IGB	B29
17	CD79B	ENSG00000007312	ENST00000583260	retained_intron	KNOWN	None	1699	None	None	62009251	62009683	-1	IGB	B29
12	RILPL2	ENSG00000150977	ENST00000280571	protein_coding	KNOWN	CCDS9248	28787	636	211	123899936	123921264	-1	None	MGC7036, FLJ30380, FLJ32372
17	HMGN2P15	ENSG00000214578	ENST00000585707	processed_pseudogene	KNOWN	None	39020	None	None	40905548	40905817	-1	None	None
17	HMGN2P15	ENSG00000214578	ENST00000397765	processed_pseudogene	KNOWN	None	39020	None	None	40904898	40905817	-1	None	None
11	MIR4490	ENSG00000266703	ENST00000582647	miRNA	KNOWN	None	41871	None	None	90288942	90289025	-1	None	hsa-mir-4490
X	SNORA69	ENSG00000206622	ENST00000383895	snoRNA	KNOWN	None	10226	None	None	118921316	118921447	-1	RNU69	U69
19	None	ENSG00000269154	ENST00000599968	processed_pseudogene	KNOWN	None	None	None	None	20173564	20174129	1	None	None
12	RPL21P104	ENSG00000242922	ENST00000464143	processed_pseudogene	KNOWN	None	36918	None	None	62169704	62170181	1	None	None
11	GUCY2EP	ENSG00000204529	ENST00000531117	transcribed_unprocessed_pseudogene	KNOWN	None	4690	None	None	76405087	76418685	-1	GUCY2E	GC-E
11	GUCY2EP	ENSG00000204529	ENST00000526984	processed_transcript	KNOWN	None	4690	None	None	76414318	76415523	-1	GUCY2E	GC-E
6	B3GAT2	ENSG00000112309	ENST00000230053	protein_coding	KNOWN	CCDS4974	922	972	323	71566382	71666741	-1	None	GlcAT-S
X	None	ENSG00000227285	ENST00000455986	antisense	KNOWN	None	None	None	None	119055224	119056803	-1	None	None
17	RNA5SP444	ENSG00000252653	ENST00000516844	rRNA	KNOWN	None	43344	None	None	64263861	64263966	1	RN5S444	None
5	None	ENSG00000266090	ENST00000583099	miRNA	NOVEL	None	None	None	None	109021281	109021393	1	None	None
3	None	ENSG00000236869	ENST00000457331	antisense	KNOWN	None	None	None	None	44598849	44727145	-1	None	None
17	RN7SL735P	ENSG00000244044	ENST00000471015	misc_RNA	KNOWN	None	46751	None	None	64360147	64360436	1	None	None
16	None	ENSG00000263325	ENST00000577140	antisense	KNOWN	None	None	None	None	2907899	2909727	1	None	None
3	None	ENSG00000251011	ENST00000504993	antisense	KNOWN	None	None	None	None	132964950	132975892	-1	None	None
3	None	ENSG00000251011	ENST00000505721	antisense	KNOWN	None	None	None	None	132965270	132976032	-1	None	None
19	None	ENSG00000240673	ENST00000481419	processed_pseudogene	KNOWN	None	None	None	None	20190627	20191348	-1	None	None
14	None	ENSG00000207164	ENST00000384435	misc_RNA	NOVEL	None	None	None	None	29370442	29370553	-1	None	None
11	None	ENSG00000255527	ENST00000533838	unprocessed_pseudogene	KNOWN	None	None	None	None	48928655	48930498	1	None	None
7	None	ENSG00000226587	ENST00000426550	processed_transcript	PUTATIVE	None	None	None	None	62787052	62814704	-1	None	None
2	IGKV3D-20	ENSG00000211625	ENST00000390270	IG_V_gene	KNOWN	None	5825	348	115	90077680	90078311	1	None	None
17	None	ENSG00000264630	ENST00000584715	antisense	KNOWN	None	None	None	None	64394187	64412972	-1	None	None
17	None	ENSG00000264630	ENST00000584614	antisense	KNOWN	None	None	None	None	64399756	64411091	-1	None	None
17	None	ENSG00000264630	ENST00000583421	antisense	KNOWN	None	None	None	None	64411686	64412909	-1	None	None
1	SLAMF1	ENSG00000117090	ENST00000302035	protein_coding	KNOWN	CCDS1207	10903	1008	335	160577890	160617085	-1	SLAM	CD150
1	SLAMF1	ENSG00000117090	ENST00000497223	processed_transcript	KNOWN	None	10903	None	None	160579968	160616869	-1	SLAM	CD150
1	SLAMF1	ENSG00000117090	ENST00000494463	processed_transcript	KNOWN	None	10903	None	None	160606801	160616811	-1	SLAM	CD150
1	SLAMF1	ENSG00000117090	ENST00000235739	protein_coding	KNOWN	None	10903	918	305	160579892	160617081	-1	SLAM	CD150
1	SLAMF1	ENSG00000117090	ENST00000538290	protein_coding	KNOWN	None	10903	810	269	160580527	160616811	-1	SLAM	CD150
1	SLAMF1	ENSG00000117090	ENST00000355199	protein_coding	KNOWN	None	10903	897	298	160585526	160617081	-1	SLAM	CD150
14	None	ENSG00000258028	ENST00000551227	lincRNA	KNOWN	None	None	None	None	29406095	29497969	1	None	None
5	None	ENSG00000271849	ENST00000606424	lincRNA	KNOWN	None	None	None	None	109023503	109024030	-1	None	None
15	RN7SL736P	ENSG00000242620	ENST00000469674	misc_RNA	KNOWN	None	46752	None	None	90837183	90837455	1	None	None
7	RN7SKP129	ENSG00000222220	ENST00000410288	misc_RNA	KNOWN	None	45853	None	None	94430826	94431124	1	None	None
HSCHR1_2_CTG31	HCN3	ENSG00000263324	ENST00000575670	protein_coding	KNOWN	None	19183	2325	774	155262778	155275043	1	None	KIAA1535
HSCHR1_2_CTG31	HCN3	ENSG00000263324	ENST00000572822	processed_transcript	KNOWN	None	19183	None	None	155262894	155275042	1	None	KIAA1535
HSCHR1_2_CTG31	HCN3	ENSG00000263324	ENST00000576844	processed_transcript	KNOWN	None	19183	None	None	155267733	155273098	1	None	KIAA1535
HSCHR1_2_CTG31	HCN3	ENSG00000263324	ENST00000573962	processed_transcript	KNOWN	None	19183	None	None	155273799	155274713	1	None	KIAA1535
15	None	ENSG00000221309	ENST00000408382	miRNA	NOVEL	None	None	None	None	90838273	90838355	1	None	None
5	RN7SKP230	ENSG00000202512	ENST00000365642	misc_RNA	KNOWN	None	45954	None	None	109035201	109035535	-1	None	None
11	SART1	ENSG00000175467	ENST00000312397	protein_coding	KNOWN	CCDS31611	10538	2403	800	65729160	65747299	1	None	Ara1, Snu66, SNRNP110
11	SART1	ENSG00000175467	ENST00000532333	retained_intron	KNOWN	None	10538	None	None	65729199	65731983	1	None	Ara1, Snu66, SNRNP110
11	SART1	ENSG00000175467	ENST00000529532	retained_intron	KNOWN	None	10538	None	None	65729199	65734787	1	None	Ara1, Snu66, SNRNP110
11	SART1	ENSG00000175467	ENST00000528573	processed_transcript	KNOWN	None	10538	None	None	65729200	65732600	1	None	Ara1, Snu66, SNRNP110
11	SART1	ENSG00000175467	ENST00000530251	nonsense_mediated_decay	KNOWN	None	10538	495	164	65729200	65732918	1	None	Ara1, Snu66, SNRNP110
11	SART1	ENSG00000175467	ENST00000533386	retained_intron	KNOWN	None	10538	None	None	65744220	65745623	1	None	Ara1, Snu66, SNRNP110
11	SART1	ENSG00000175467	ENST00000529580	retained_intron	KNOWN	None	10538	None	None	65745236	65746428	1	None	Ara1, Snu66, SNRNP110
11	SART1	ENSG00000175467	ENST00000528137	retained_intron	KNOWN	None	10538	None	None	65745958	65746560	1	None	Ara1, Snu66, SNRNP110
X	None	ENSG00000264392	ENST00000581061	miRNA	NOVEL	None	None	None	None	119058424	119058513	-1	None	None
12	None	ENSG00000257322	ENST00000550324	antisense	KNOWN	None	None	None	None	93397191	93532908	-1	None	None
12	None	ENSG00000257322	ENST00000549930	antisense	KNOWN	None	None	None	None	93397534	93609455	-1	None	None
12	None	ENSG00000257322	ENST00000552451	antisense	KNOWN	None	None	None	None	93521440	93532867	-1	None	None
12	None	ENSG00000257322	ENST00000547432	antisense	KNOWN	None	None	None	None	93573434	93609450	-1	None	None
11	PRMT3	ENSG00000185238	ENST00000331079	protein_coding	KNOWN	CCDS7853	30163	1596	531	20409076	20530799	1	HRMT1L3	None
11	PRMT3	ENSG00000185238	ENST00000330796	nonsense_mediated_decay	KNOWN	None	30163	141	46	20409104	20530840	1	HRMT1L3	None
11	PRMT3	ENSG00000185238	ENST00000525188	nonsense_mediated_decay	KNOWN	None	30163	141	46	20409186	20419208	1	HRMT1L3	None
11	PRMT3	ENSG00000185238	ENST00000437750	protein_coding	KNOWN	CCDS44554	30163	1410	469	20409262	20530254	1	HRMT1L3	None
11	PRMT3	ENSG00000185238	ENST00000526583	nonsense_mediated_decay	KNOWN	None	30163	165	54	20409293	20413797	1	HRMT1L3	None
11	PRMT3	ENSG00000185238	ENST00000529592	retained_intron	KNOWN	None	30163	None	None	20426992	20530828	1	HRMT1L3	None
X	GPX1P1	ENSG00000197582	ENST00000388829	processed_pseudogene	KNOWN	None	4560	None	None	13396854	13397459	-1	GPXL2, GPXP1	None
15	NDUFA3P4	ENSG00000259262	ENST00000560814	processed_pseudogene	KNOWN	None	45053	None	None	90929046	90929295	1	None	None
11	MIR1261	ENSG00000221586	ENST00000408659	miRNA	KNOWN	None	35327	None	None	90602289	90602370	-1	MIRN1261	hsa-mir-1261
16	None	ENSG00000263280	ENST00000575693	lincRNA	KNOWN	None	None	None	None	2916349	2917619	-1	None	None
X	None	ENSG00000234493	ENST00000454625	lincRNA	KNOWN	None	None	None	None	119144675	119149501	-1	None	None
2	HMGB1P4	ENSG00000214821	ENST00000455362	processed_pseudogene	KNOWN	None	4996	None	None	171458172	171458738	-1	HMG1L4, HMG1L4P, HMGB1L4	None
2	HMGB1P4	ENSG00000214821	ENST00000420678	processed_pseudogene	KNOWN	None	4996	None	None	171458589	171458738	-1	HMG1L4, HMG1L4P, HMGB1L4	None
17	RNU6-928P	ENSG00000252685	ENST00000516876	snRNA	KNOWN	None	47891	None	None	64634389	64634492	1	None	None
3	MPRIPP1	ENSG00000214820	ENST00000452433	processed_pseudogene	KNOWN	None	44594	None	None	44621430	44622518	-1	None	None
12	KRT8P19	ENSG00000257528	ENST00000551916	processed_pseudogene	KNOWN	None	33371	None	None	62273099	62274553	1	None	None
17	RNA5SP445	ENSG00000251698	ENST00000515889	rRNA	KNOWN	None	43345	None	None	64635387	64635501	1	RN5S445	None
4	CSN1S1	ENSG00000126545	ENST00000246891	protein_coding	KNOWN	CCDS47067	2445	558	185	70796799	70812289	1	CASA, CSN1	None
4	CSN1S1	ENSG00000126545	ENST00000507763	protein_coding	NOVEL	CCDS54769	2445	531	176	70798263	70811969	1	CASA, CSN1	None
4	CSN1S1	ENSG00000126545	ENST00000507772	protein_coding	NOVEL	None	2445	534	177	70798274	70812275	1	CASA, CSN1	None
4	CSN1S1	ENSG00000126545	ENST00000505782	protein_coding	KNOWN	None	2445	510	169	70798274	70812275	1	CASA, CSN1	None
4	CSN1S1	ENSG00000126545	ENST00000510936	protein_coding	PUTATIVE	None	2445	231	76	70804894	70812279	1	CASA, CSN1	None
4	CSN1S1	ENSG00000126545	ENST00000444405	protein_coding	KNOWN	CCDS54769	2445	531	176	70796799	70812288	1	CASA, CSN1	None
5	None	ENSG00000249068	ENST00000510014	processed_pseudogene	KNOWN	None	None	None	None	109175829	109176393	-1	None	None
X	GK	ENSG00000198814	ENST00000378946	protein_coding	KNOWN	CCDS14225	4289	1593	530	30671476	30748725	1	None	GK1, GKD
X	GK	ENSG00000198814	ENST00000378943	protein_coding	KNOWN	CCDS48090	4289	1662	553	30671476	30748725	1	None	GK1, GKD
X	GK	ENSG00000198814	ENST00000378945	protein_coding	KNOWN	CCDS35224	4289	1575	524	30671595	30747287	1	None	GK1, GKD
X	GK	ENSG00000198814	ENST00000481024	nonsense_mediated_decay	KNOWN	None	4289	309	102	30671606	30747366	1	None	GK1, GKD
X	GK	ENSG00000198814	ENST00000479048	nonsense_mediated_decay	KNOWN	None	4289	240	79	30671613	30714203	1	None	GK1, GKD
X	GK	ENSG00000198814	ENST00000487652	nonsense_mediated_decay	KNOWN	None	4289	114	37	30671617	30714779	1	None	GK1, GKD
X	GK	ENSG00000198814	ENST00000471362	nonsense_mediated_decay	KNOWN	None	4289	273	90	30671624	30714179	1	None	GK1, GKD
X	GK	ENSG00000198814	ENST00000378941	protein_coding	PUTATIVE	None	4289	357	118	30671655	30696231	1	None	GK1, GKD
X	GK	ENSG00000198814	ENST00000425166	protein_coding	PUTATIVE	None	4289	371	122	30705640	30714220	1	None	GK1, GKD
X	GK	ENSG00000198814	ENST00000488296	nonsense_mediated_decay	KNOWN	None	4289	126	41	30707589	30719002	1	None	GK1, GKD
X	GK	ENSG00000198814	ENST00000378938	protein_coding	KNOWN	None	4289	285	94	30738735	30739308	1	None	GK1, GKD
X	GK	ENSG00000198814	ENST00000427190	protein_coding	KNOWN	None	4289	1065	354	30671606	30747366	1	None	GK1, GKD
2	RNU6-268P	ENSG00000201044	ENST00000364174	snRNA	KNOWN	None	47231	None	None	231616856	231616962	1	None	None
15	None	ENSG00000259177	ENST00000560578	antisense	KNOWN	None	None	None	None	90936722	90941113	-1	None	None
13	None	ENSG00000270581	ENST00000418923	processed_transcript	KNOWN	None	None	None	None	103053821	103054807	-1	None	None
12	DENND5B	ENSG00000170456	ENST00000389082	protein_coding	KNOWN	CCDS44857	28338	3825	1274	31535157	31744031	-1	None	MGC24039
12	DENND5B	ENSG00000170456	ENST00000536562	protein_coding	KNOWN	None	28338	3930	1309	31540327	31743376	-1	None	MGC24039
12	DENND5B	ENSG00000170456	ENST00000537061	retained_intron	KNOWN	None	28338	None	None	31577503	31579685	-1	None	MGC24039
12	DENND5B	ENSG00000170456	ENST00000354285	protein_coding	KNOWN	None	28338	2217	738	31585309	31743946	-1	None	MGC24039
12	DENND5B	ENSG00000170456	ENST00000546299	protein_coding	NOVEL	None	28338	1614	537	31604636	31648836	-1	None	MGC24039
12	DENND5B	ENSG00000170456	ENST00000545147	processed_transcript	KNOWN	None	28338	None	None	31613173	31743952	-1	None	MGC24039
12	DENND5B	ENSG00000170456	ENST00000544698	nonsense_mediated_decay	KNOWN	None	28338	192	63	31633063	31743933	-1	None	MGC24039
12	DENND5B	ENSG00000170456	ENST00000306833	protein_coding	KNOWN	None	28338	3930	1309	31535157	31653492	-1	None	MGC24039
17	None	ENSG00000229330	ENST00000457168	sense_intronic	KNOWN	None	None	None	None	64672490	64673522	1	None	None
5	PGAM5P1	ENSG00000253224	ENST00000518923	processed_pseudogene	KNOWN	None	42467	None	None	109220311	109221124	-1	None	None
17	RAMP2-AS1	ENSG00000197291	ENST00000592670	lincRNA	KNOWN	None	44358	None	None	40905932	40913121	-1	None	None
17	RAMP2-AS1	ENSG00000197291	ENST00000589716	lincRNA	KNOWN	None	44358	None	None	40905932	40913275	-1	None	None
17	RAMP2-AS1	ENSG00000197291	ENST00000587694	lincRNA	KNOWN	None	44358	None	None	40905949	40913135	-1	None	None
17	RAMP2-AS1	ENSG00000197291	ENST00000591082	lincRNA	KNOWN	None	44358	None	None	40908217	40913137	-1	None	None
17	RAMP2-AS1	ENSG00000197291	ENST00000592195	lincRNA	KNOWN	None	44358	None	None	40910313	40913029	-1	None	None
17	RAMP2-AS1	ENSG00000197291	ENST00000360166	lincRNA	KNOWN	None	44358	None	None	40905951	40913275	-1	None	None
2	None	ENSG00000270891	ENST00000603556	processed_pseudogene	KNOWN	None	None	None	None	231701624	231702100	1	None	None
X	RPL30P15	ENSG00000233357	ENST00000457129	processed_pseudogene	KNOWN	None	36542	None	None	13592865	13593185	1	None	None
14	None	ENSG00000257523	ENST00000552028	lincRNA	KNOWN	None	None	None	None	29445042	29448130	-1	None	None
12	SNRNP35	ENSG00000184209	ENST00000526639	protein_coding	KNOWN	CCDS9249	30852	741	246	123942188	123951483	1	None	U1SNRNPBP
12	SNRNP35	ENSG00000184209	ENST00000529904	processed_transcript	KNOWN	None	30852	None	None	123942635	123943763	1	None	U1SNRNPBP
12	SNRNP35	ENSG00000184209	ENST00000527158	processed_transcript	KNOWN	None	30852	None	None	123942666	123957701	1	None	U1SNRNPBP
12	SNRNP35	ENSG00000184209	ENST00000529201	processed_transcript	PUTATIVE	None	30852	None	None	123942674	123949446	1	None	U1SNRNPBP
12	SNRNP35	ENSG00000184209	ENST00000412157	protein_coding	KNOWN	CCDS45005	30852	756	251	123944070	123950846	1	None	U1SNRNPBP
12	SNRNP35	ENSG00000184209	ENST00000350887	protein_coding	KNOWN	CCDS9249	30852	741	246	123949053	123950937	1	None	U1SNRNPBP
1	None	ENSG00000269996	ENST00000602412	lincRNA	KNOWN	None	None	None	None	121133256	121134581	1	None	None
1	PRKACB	ENSG00000142875	ENST00000370689	protein_coding	KNOWN	CCDS691	9381	1056	351	84543745	84704181	1	None	PKACb
1	PRKACB	ENSG00000142875	ENST00000370688	protein_coding	KNOWN	CCDS692	9381	774	257	84543827	84671122	1	None	PKACb
1	PRKACB	ENSG00000142875	ENST00000370685	protein_coding	KNOWN	CCDS693	9381	1197	398	84609954	84704181	1	None	PKACb
1	PRKACB	ENSG00000142875	ENST00000470673	processed_transcript	KNOWN	None	9381	None	None	84610005	84662379	1	None	PKACb
1	PRKACB	ENSG00000142875	ENST00000446538	protein_coding	KNOWN	None	9381	527	174	84629985	84662385	1	None	PKACb
1	PRKACB	ENSG00000142875	ENST00000370684	protein_coding	KNOWN	None	9381	738	245	84630000	84670208	1	None	PKACb
1	PRKACB	ENSG00000142875	ENST00000436133	protein_coding	KNOWN	None	9381	558	185	84630006	84662425	1	None	PKACb
1	PRKACB	ENSG00000142875	ENST00000432111	protein_coding	KNOWN	None	9381	643	213	84630077	84668378	1	None	PKACb
1	PRKACB	ENSG00000142875	ENST00000450730	protein_coding	KNOWN	None	9381	618	205	84630364	84663474	1	None	PKACb
1	PRKACB	ENSG00000142875	ENST00000370680	protein_coding	KNOWN	None	9381	795	264	84630378	84670980	1	None	PKACb
1	PRKACB	ENSG00000142875	ENST00000413538	protein_coding	KNOWN	None	9381	627	208	84630587	84663507	1	None	PKACb
1	PRKACB	ENSG00000142875	ENST00000417530	protein_coding	KNOWN	None	9381	591	196	84630595	84663495	1	None	PKACb
1	PRKACB	ENSG00000142875	ENST00000394839	protein_coding	KNOWN	CCDS55611	9381	966	321	84630649	84704181	1	None	PKACb
1	PRKACB	ENSG00000142875	ENST00000467507	processed_transcript	KNOWN	None	9381	None	None	84644518	84649729	1	None	PKACb
1	PRKACB	ENSG00000142875	ENST00000394838	protein_coding	KNOWN	CCDS55609	9381	1077	358	84630065	84704172	1	None	PKACb
1	PRKACB	ENSG00000142875	ENST00000370682	protein_coding	KNOWN	CCDS55610	9381	1068	355	84630065	84704172	1	None	PKACb
13	LINC00555	ENSG00000261057	ENST00000569288	antisense	KNOWN	None	43699	None	None	103241722	103242163	-1	None	None
11	OSBPL9P2	ENSG00000254677	ENST00000526582	processed_pseudogene	KNOWN	None	48732	None	None	90847892	90849119	-1	None	None
17	MIR634	ENSG00000207943	ENST00000385208	miRNA	KNOWN	None	32890	None	None	64783190	64783286	1	MIRN634	hsa-mir-634
2	None	ENSG00000213981	ENST00000423519	antisense	KNOWN	None	None	None	None	171475138	171500454	-1	None	None
2	None	ENSG00000213981	ENST00000428156	antisense	KNOWN	None	None	None	None	171496884	171551884	-1	None	None
16	None	ENSG00000262959	ENST00000573796	processed_pseudogene	KNOWN	None	None	None	None	2972663	2973203	-1	None	None
1	None	ENSG00000227082	ENST00000417218	lincRNA	KNOWN	None	None	None	None	121138614	121204983	1	None	None
13	None	ENSG00000269942	ENST00000602560	lincRNA	KNOWN	None	None	None	None	103331776	103332308	1	None	None
17	RNA5SP446	ENSG00000251764	ENST00000515955	rRNA	KNOWN	None	43346	None	None	64891608	64891689	1	RN5S446	None
17	FGF11	ENSG00000161958	ENST00000575235	protein_coding	PUTATIVE	None	3667	306	101	7341592	7346650	1	None	FHF3, FLJ16061, MGC45269, MGC102953
17	FGF11	ENSG00000161958	ENST00000293829	protein_coding	KNOWN	CCDS11105	3667	678	225	7342346	7348256	1	None	FHF3, FLJ16061, MGC45269, MGC102953
17	FGF11	ENSG00000161958	ENST00000575331	protein_coding	PUTATIVE	None	3667	300	99	7342825	7349285	1	None	FHF3, FLJ16061, MGC45269, MGC102953
17	FGF11	ENSG00000161958	ENST00000572907	protein_coding	PUTATIVE	None	3667	306	101	7343199	7346747	1	None	FHF3, FLJ16061, MGC45269, MGC102953
17	FGF11	ENSG00000161958	ENST00000575398	protein_coding	PUTATIVE	None	3667	306	101	7344061	7346875	1	None	FHF3, FLJ16061, MGC45269, MGC102953
17	FGF11	ENSG00000161958	ENST00000575082	protein_coding	PUTATIVE	None	3667	306	101	7344062	7348221	1	None	FHF3, FLJ16061, MGC45269, MGC102953
17	FGF11	ENSG00000161958	ENST00000576328	retained_intron	KNOWN	None	3667	None	None	7344092	7345851	1	None	FHF3, FLJ16061, MGC45269, MGC102953
7	None	ENSG00000231139	ENST00000427666	unprocessed_pseudogene	KNOWN	None	None	None	None	152287726	152288026	-1	None	None
17	None	ENSG00000264491	ENST00000584277	antisense	KNOWN	None	None	None	None	65016050	65017859	-1	None	None
X	RN7SKP20	ENSG00000199622	ENST00000362752	misc_RNA	KNOWN	None	45744	None	None	13614355	13614667	1	None	None
2	None	ENSG00000232520	ENST00000447074	antisense	KNOWN	None	None	None	None	231751215	231760183	1	None	None
2	None	ENSG00000232520	ENST00000455128	antisense	KNOWN	None	None	None	None	231751221	231758789	1	None	None
2	None	ENSG00000232520	ENST00000415628	antisense	KNOWN	None	None	None	None	231751261	231761806	1	None	None
2	None	ENSG00000232520	ENST00000434807	antisense	KNOWN	None	None	None	None	231751530	231752453	1	None	None
1	None	ENSG00000231429	ENST00000445260	lincRNA	KNOWN	None	None	None	None	121154579	121171134	1	None	None
17	None	ENSG00000265664	ENST00000579138	antisense	KNOWN	None	None	None	None	65028525	65029406	-1	None	None
13	None	ENSG00000238869	ENST00000459526	snoRNA	NOVEL	None	None	None	None	103374152	103374255	1	None	None
X	None	ENSG00000233535	ENST00000448948	lincRNA	KNOWN	None	None	None	None	13973512	13982023	1	None	None
12	RPS3P6	ENSG00000213363	ENST00000487417	processed_pseudogene	KNOWN	None	36061	None	None	62415351	62415955	-1	None	None
12	None	ENSG00000257671	ENST00000546686	antisense	KNOWN	None	None	None	None	52638832	52641232	-1	None	None
1	None	ENSG00000228826	ENST00000437523	lincRNA	KNOWN	None	None	None	None	121236177	121252295	-1	None	None
13	LINC00283	ENSG00000231633	ENST00000430111	antisense	KNOWN	None	38809	None	None	103395340	103397574	1	NCRNA00283	None
3	RPUSD3	ENSG00000156990	ENST00000423108	protein_coding	PUTATIVE	None	28437	434	143	9879533	9882301	-1	None	MGC29784
3	RPUSD3	ENSG00000156990	ENST00000433535	protein_coding	KNOWN	CCDS46744	28437	1011	336	9879533	9885698	-1	None	MGC29784
3	RPUSD3	ENSG00000156990	ENST00000383820	protein_coding	KNOWN	CCDS2586	28437	1056	351	9879533	9885700	-1	None	MGC29784
3	RPUSD3	ENSG00000156990	ENST00000464783	retained_intron	KNOWN	None	28437	None	None	9879566	9882550	-1	None	MGC29784
3	RPUSD3	ENSG00000156990	ENST00000466141	retained_intron	KNOWN	None	28437	None	None	9879578	9881397	-1	None	MGC29784
3	RPUSD3	ENSG00000156990	ENST00000424438	protein_coding	NOVEL	None	28437	639	212	9879704	9885626	-1	None	MGC29784
3	RPUSD3	ENSG00000156990	ENST00000427174	protein_coding	PUTATIVE	None	28437	842	279	9879849	9885670	-1	None	MGC29784
3	RPUSD3	ENSG00000156990	ENST00000475470	retained_intron	KNOWN	None	28437	None	None	9881585	9885255	-1	None	MGC29784
3	RPUSD3	ENSG00000156990	ENST00000484134	retained_intron	KNOWN	None	28437	None	None	9881585	9885700	-1	None	MGC29784
3	RPUSD3	ENSG00000156990	ENST00000418713	protein_coding	PUTATIVE	None	28437	741	246	9881625	9885686	-1	None	MGC29784
3	RPUSD3	ENSG00000156990	ENST00000472381	retained_intron	KNOWN	None	28437	None	None	9882366	9885702	-1	None	MGC29784
3	RPUSD3	ENSG00000156990	ENST00000433972	protein_coding	PUTATIVE	None	28437	456	151	9882941	9885743	-1	None	MGC29784
3	RPUSD3	ENSG00000156990	ENST00000433555	protein_coding	NOVEL	None	28437	307	101	9883092	9885660	-1	None	MGC29784
3	RPUSD3	ENSG00000156990	ENST00000451405	nonsense_mediated_decay	KNOWN	None	28437	110	35	9883382	9885679	-1	None	MGC29784
3	RPUSD3	ENSG00000156990	ENST00000485705	processed_transcript	KNOWN	None	28437	None	None	9883420	9886286	-1	None	MGC29784
3	RPUSD3	ENSG00000156990	ENST00000473522	processed_transcript	KNOWN	None	28437	None	None	9883538	9885421	-1	None	MGC29784
3	RPUSD3	ENSG00000156990	ENST00000460909	retained_intron	KNOWN	None	28437	None	None	9884835	9885700	-1	None	MGC29784
17	None	ENSG00000264421	ENST00000583452	antisense	KNOWN	None	None	None	None	65220419	65221657	1	None	None
X	None	ENSG00000212663	ENST00000391359	lincRNA	KNOWN	None	None	None	None	13998185	14006939	-1	None	None
11	TRIM51CP	ENSG00000249910	ENST00000505076	unprocessed_pseudogene	KNOWN	None	43968	None	None	48967246	48973447	1	None	None
11	TRIM51CP	ENSG00000249910	ENST00000544390	unprocessed_pseudogene	KNOWN	None	43968	None	None	48967246	48970074	1	None	None
1	None	ENSG00000233432	ENST00000425455	processed_pseudogene	KNOWN	None	None	None	None	121244142	121245689	1	None	None
20	HSPA12B	ENSG00000132622	ENST00000254963	protein_coding	KNOWN	CCDS13061	16193	2061	686	3713314	3733758	1	C20orf60	dJ1009E24.2
20	HSPA12B	ENSG00000132622	ENST00000399701	protein_coding	KNOWN	None	16193	1803	600	3713358	3733758	1	C20orf60	dJ1009E24.2
20	HSPA12B	ENSG00000132622	ENST00000542646	protein_coding	KNOWN	None	16193	1563	520	3713323	3732943	1	C20orf60	dJ1009E24.2
13	RNY5P8	ENSG00000222301	ENST00000410369	misc_RNA	KNOWN	None	34089	None	None	103472343	103472419	1	None	None
11	OSBPL9P3	ENSG00000255070	ENST00000534523	processed_pseudogene	KNOWN	None	48733	None	None	90849129	90849723	1	None	None
HG7_PATCH	None	ENSG00000261686	ENST00000564856	protein_coding	KNOWN	None	None	933	310	142786754	142787791	-1	None	None
X	None	ENSG00000264331	ENST00000582836	miRNA	NOVEL	None	None	None	None	14093910	14094010	-1	None	None
2	None	ENSG00000234350	ENST00000442456	lincRNA	KNOWN	None	None	None	None	171579719	171627276	-1	None	None
1	EMBP1	ENSG00000231752	ENST00000458200	unprocessed_pseudogene	KNOWN	None	38661	None	None	121261143	121310591	1	None	None
X	None	ENSG00000233247	ENST00000411687	processed_pseudogene	KNOWN	None	None	None	None	14262504	14263050	1	None	None
X	None	ENSG00000233247	ENST00000305934	processed_pseudogene	KNOWN	None	None	None	None	14262325	14263544	1	None	None
18	KIAA1468	ENSG00000134444	ENST00000256858	protein_coding	KNOWN	None	29289	3753	1250	59854491	59974345	1	None	HsT885, HsT3308, FLJ33841
18	KIAA1468	ENSG00000134444	ENST00000398130	protein_coding	KNOWN	CCDS11979	29289	3651	1216	59854507	59974355	1	None	HsT885, HsT3308, FLJ33841
18	KIAA1468	ENSG00000134444	ENST00000587725	non_stop_decay	KNOWN	None	29289	3053	1016	59854524	59942804	1	None	HsT885, HsT3308, FLJ33841
18	KIAA1468	ENSG00000134444	ENST00000590713	retained_intron	KNOWN	None	29289	None	None	59888093	59894683	1	None	HsT885, HsT3308, FLJ33841
18	KIAA1468	ENSG00000134444	ENST00000592479	processed_transcript	KNOWN	None	29289	None	None	59895618	59902640	1	None	HsT885, HsT3308, FLJ33841
18	KIAA1468	ENSG00000134444	ENST00000591227	processed_transcript	KNOWN	None	29289	None	None	59895673	59921944	1	None	HsT885, HsT3308, FLJ33841
18	KIAA1468	ENSG00000134444	ENST00000588446	non_stop_decay	KNOWN	None	29289	764	253	59928844	59942805	1	None	HsT885, HsT3308, FLJ33841
18	KIAA1468	ENSG00000134444	ENST00000586920	retained_intron	KNOWN	None	29289	None	None	59935748	59941275	1	None	HsT885, HsT3308, FLJ33841
18	KIAA1468	ENSG00000134444	ENST00000587764	processed_transcript	KNOWN	None	29289	None	None	59944829	59958849	1	None	HsT885, HsT3308, FLJ33841
18	KIAA1468	ENSG00000134444	ENST00000587198	retained_intron	KNOWN	None	29289	None	None	59947559	59966081	1	None	HsT885, HsT3308, FLJ33841
18	KIAA1468	ENSG00000134444	ENST00000587714	processed_transcript	KNOWN	None	29289	None	None	59949549	59952781	1	None	HsT885, HsT3308, FLJ33841
18	KIAA1468	ENSG00000134444	ENST00000593217	processed_transcript	KNOWN	None	29289	None	None	59949553	59953206	1	None	HsT885, HsT3308, FLJ33841
12	None	ENSG00000255776	ENST00000544463	processed_pseudogene	KNOWN	None	None	None	None	9188940	9189840	1	None	None
HG183_PATCH	PECAM1	ENSG00000261371	ENST00000563924	protein_coding	KNOWN	None	8823	2217	738	62399863	62468238	-1	None	CD31
HG183_PATCH	PECAM1	ENSG00000261371	ENST00000568702	processed_transcript	KNOWN	None	8823	None	None	62440646	62447605	-1	None	CD31
HG183_PATCH	PECAM1	ENSG00000261371	ENST00000566422	processed_transcript	KNOWN	None	8823	None	None	62440708	62447775	-1	None	CD31
HG183_PATCH	PECAM1	ENSG00000261371	ENST00000564866	protein_coding	KNOWN	None	8823	691	229	62452411	62491136	-1	None	CD31
HG183_PATCH	PECAM1	ENSG00000261371	ENST00000563523	protein_coding	PUTATIVE	None	8823	551	182	62452536	62467952	-1	None	CD31
HG183_PATCH	PECAM1	ENSG00000261371	ENST00000561739	processed_transcript	KNOWN	None	8823	None	None	62452547	62456452	-1	None	CD31
HG183_PATCH	PECAM1	ENSG00000261371	ENST00000566616	processed_transcript	KNOWN	None	8823	None	None	62452548	62456227	-1	None	CD31
HG183_PATCH	PECAM1	ENSG00000261371	ENST00000569967	protein_coding	KNOWN	None	8823	404	133	62452698	62475751	-1	None	CD31
HG183_PATCH	PECAM1	ENSG00000261371	ENST00000569530	processed_transcript	KNOWN	None	8823	None	None	62454934	62456234	-1	None	CD31
3	None	ENSG00000249820	ENST00000510575	processed_pseudogene	KNOWN	None	None	None	None	133128799	133129687	1	None	None
HG7_PATCH	None	ENSG00000261323	ENST00000561873	protein_coding	KNOWN	None	None	942	313	142812926	142813953	1	None	None
10	TRUB1	ENSG00000165832	ENST00000298746	protein_coding	KNOWN	CCDS7591	16060	1050	349	116697952	116737430	1	None	PUS4
10	TRUB1	ENSG00000165832	ENST00000485065	processed_transcript	KNOWN	None	16060	None	None	116698145	116719759	1	None	PUS4
6	MIR4465	ENSG00000264390	ENST00000583434	miRNA	KNOWN	None	41842	None	None	141004951	141005020	1	None	hsa-mir-4465
12	KRT121P	ENSG00000135477	ENST00000534226	transcribed_unprocessed_pseudogene	KNOWN	None	30198	None	None	52644250	52652337	-1	KRTHBP4	HBD
12	KRT121P	ENSG00000135477	ENST00000529785	processed_transcript	KNOWN	None	30198	None	None	52644328	52652651	-1	KRTHBP4	HBD
12	KRT121P	ENSG00000135477	ENST00000257935	unprocessed_pseudogene	KNOWN	None	30198	None	None	52644250	52652651	-1	KRTHBP4	HBD
3	None	ENSG00000249993	ENST00000515542	antisense	KNOWN	None	None	None	None	133148113	133174620	-1	None	None
2	None	ENSG00000230385	ENST00000454890	antisense	KNOWN	None	None	None	None	231773567	231774817	1	None	None
10	None	ENSG00000270599	ENST00000424422	antisense	KNOWN	None	None	None	None	114172053	114179765	-1	None	None
19	ZNF132	ENSG00000131849	ENST00000254166	protein_coding	KNOWN	CCDS12980	12916	2121	706	58944181	58951589	-1	None	pHZ-12
19	ZNF132	ENSG00000131849	ENST00000599148	retained_intron	KNOWN	None	12916	None	None	58944596	58946951	-1	None	pHZ-12
HG7_PATCH	OR9A3P	ENSG00000260791	ENST00000566060	transcribed_unprocessed_pseudogene	KNOWN	None	15094	None	None	141562660	141563537	1	OR9A6P	None
HG7_PATCH	OR9A3P	ENSG00000260791	ENST00000565804	processed_transcript	KNOWN	None	15094	None	None	141562904	141563362	1	OR9A6P	None
3	None	ENSG00000239227	ENST00000494739	processed_pseudogene	KNOWN	None	None	None	None	166579732	166579898	1	None	None
16	DNASE1L2	ENSG00000167968	ENST00000564065	protein_coding	KNOWN	CCDS42105	2958	900	299	2285817	2288712	1	None	DNAS1L2
16	DNASE1L2	ENSG00000167968	ENST00000320700	protein_coding	KNOWN	CCDS42105	2958	900	299	2286468	2288712	1	None	DNAS1L2
16	DNASE1L2	ENSG00000167968	ENST00000567494	protein_coding	KNOWN	CCDS42105	2958	900	299	2286470	2288712	1	None	DNAS1L2
16	DNASE1L2	ENSG00000167968	ENST00000382437	protein_coding	NOVEL	None	2958	837	278	2286726	2288712	1	None	DNAS1L2
16	DNASE1L2	ENSG00000167968	ENST00000569184	protein_coding	NOVEL	None	2958	762	253	2286827	2288001	1	None	DNAS1L2
2	EIF2S2P4	ENSG00000128692	ENST00000461070	processed_pseudogene	KNOWN	None	37626	None	None	171608315	171609298	1	None	None
2	EIF2S2P4	ENSG00000128692	ENST00000543391	processed_pseudogene	KNOWN	None	37626	None	None	171608221	171609562	1	None	None
6	None	ENSG00000217684	ENST00000407896	processed_pseudogene	KNOWN	None	None	None	None	141082666	141083399	1	None	None
19	BCL3	ENSG00000069399	ENST00000403534	retained_intron	KNOWN	None	998	None	None	45250962	45262743	1	D19S37, BCL4	None
19	BCL3	ENSG00000069399	ENST00000487394	processed_transcript	KNOWN	None	998	None	None	45251093	45252261	1	D19S37, BCL4	None
19	BCL3	ENSG00000069399	ENST00000164227	protein_coding	KNOWN	CCDS12642	998	1365	454	45251804	45263301	1	D19S37, BCL4	None
19	BCL3	ENSG00000069399	ENST00000444487	protein_coding	NOVEL	None	998	923	306	45254578	45262720	1	D19S37, BCL4	None
19	BCL3	ENSG00000069399	ENST00000473468	processed_transcript	KNOWN	None	998	None	None	45258406	45260425	1	D19S37, BCL4	None
19	BCL3	ENSG00000069399	ENST00000464319	retained_intron	KNOWN	None	998	None	None	45259402	45260621	1	D19S37, BCL4	None
19	BCL3	ENSG00000069399	ENST00000474300	retained_intron	KNOWN	None	998	None	None	45260846	45263082	1	D19S37, BCL4	None
19	BCL3	ENSG00000069399	ENST00000477832	retained_intron	KNOWN	None	998	None	None	45260914	45261820	1	D19S37, BCL4	None
19	BCL3	ENSG00000069399	ENST00000473473	retained_intron	KNOWN	None	998	None	None	45261785	45262815	1	D19S37, BCL4	None
10	None	ENSG00000234017	ENST00000430685	processed_pseudogene	KNOWN	None	None	None	None	114308391	114308631	-1	None	None
3	ZNF197-AS1	ENSG00000233509	ENST00000447691	antisense	KNOWN	None	40620	None	None	44658620	44666289	-1	None	None
2	COX20P2	ENSG00000235013	ENST00000452636	processed_pseudogene	KNOWN	None	43772	None	None	231822308	231822665	1	None	None
HG7_PATCH	OR9A1P	ENSG00000260363	ENST00000566363	transcribed_unprocessed_pseudogene	KNOWN	None	8486	None	None	141586948	141587892	1	OR9A1	HTPCRX06, HSHTPCRX06
HG7_PATCH	OR9A1P	ENSG00000260363	ENST00000570128	processed_transcript	KNOWN	None	8486	None	None	141587322	141587664	1	OR9A1	HTPCRX06, HSHTPCRX06
12	None	ENSG00000252883	ENST00000517074	snoRNA	NOVEL	None	None	None	None	62511668	62511739	-1	None	None
5	MTND6P4	ENSG00000249119	ENST00000506002	processed_pseudogene	KNOWN	None	39467	None	None	134259813	134260334	1	None	None
X	None	ENSG00000221278	ENST00000408351	miRNA	NOVEL	None	None	None	None	14783097	14783239	-1	None	None
7	RNA5SP250	ENSG00000199404	ENST00000362534	rRNA	KNOWN	None	43150	None	None	152290058	152290176	-1	RN5S250	None
10	MIR4295	ENSG00000264763	ENST00000585286	miRNA	KNOWN	None	38220	None	None	114393929	114394013	1	None	hsa-mir-4295
2	CNNM4	ENSG00000158158	ENST00000377075	protein_coding	KNOWN	CCDS2024	105	2328	775	97426639	97477628	1	ACDP4	KIAA1592
2	CNNM4	ENSG00000158158	ENST00000482716	processed_transcript	KNOWN	None	105	None	None	97454327	97463347	1	ACDP4	KIAA1592
2	CNNM4	ENSG00000158158	ENST00000496186	processed_transcript	KNOWN	None	105	None	None	97454327	97474423	1	ACDP4	KIAA1592
2	CNNM4	ENSG00000158158	ENST00000493384	processed_transcript	KNOWN	None	105	None	None	97454356	97464921	1	ACDP4	KIAA1592
2	CNNM4	ENSG00000158158	ENST00000540067	protein_coding	KNOWN	None	105	792	263	97454322	97475521	1	ACDP4	KIAA1592
11	None	ENSG00000255187	ENST00000526509	lincRNA	KNOWN	None	None	None	None	90891251	90900462	1	None	None
14	None	ENSG00000200298	ENST00000363428	misc_RNA	NOVEL	None	None	None	None	72489124	72489233	-1	None	None
X	NPM1P9	ENSG00000231066	ENST00000453156	processed_pseudogene	KNOWN	None	7929	None	None	14852598	14853441	-1	None	None
1	None	ENSG00000224857	ENST00000450546	lincRNA	KNOWN	None	None	None	None	121315744	121322322	-1	None	None
2	None	ENSG00000239467	ENST00000429172	lincRNA	KNOWN	None	None	None	None	171627623	171634252	1	None	None
2	None	ENSG00000239467	ENST00000426475	lincRNA	KNOWN	None	None	None	None	171627623	171634658	1	None	None
10	None	ENSG00000233340	ENST00000443652	antisense	KNOWN	None	None	None	None	114431571	114437578	-1	None	None
14	None	ENSG00000258871	ENST00000555303	lincRNA	KNOWN	None	None	None	None	73019288	73061833	-1	None	None
3	None	ENSG00000215922	ENST00000401103	miRNA	NOVEL	None	None	None	None	166743201	166743287	1	None	None
19	MBD3	ENSG00000071655	ENST00000590550	protein_coding	PUTATIVE	None	6918	708	235	1576639	1585529	-1	None	None
19	MBD3	ENSG00000071655	ENST00000434436	protein_coding	KNOWN	CCDS12072	6918	876	291	1576671	1592760	-1	None	None
19	MBD3	ENSG00000071655	ENST00000592012	protein_coding	KNOWN	None	6918	780	259	1576677	1592882	-1	None	None
19	MBD3	ENSG00000071655	ENST00000585903	processed_transcript	KNOWN	None	6918	None	None	1581107	1584572	-1	None	None
19	MBD3	ENSG00000071655	ENST00000585967	processed_transcript	KNOWN	None	6918	None	None	1581158	1592358	-1	None	None
19	MBD3	ENSG00000071655	ENST00000589064	retained_intron	KNOWN	None	6918	None	None	1582324	1584930	-1	None	None
19	MBD3	ENSG00000071655	ENST00000592361	retained_intron	KNOWN	None	6918	None	None	1582597	1586361	-1	None	None
19	MBD3	ENSG00000071655	ENST00000592965	processed_transcript	KNOWN	None	6918	None	None	1585056	1592391	-1	None	None
19	MBD3	ENSG00000071655	ENST00000156825	protein_coding	KNOWN	CCDS12072	6918	876	291	1576678	1592652	-1	None	None
5	MTND5P11	ENSG00000248923	ENST00000511037	processed_pseudogene	KNOWN	None	42273	None	None	134260338	134262149	-1	None	None
X	None	ENSG00000235929	ENST00000448018	processed_pseudogene	KNOWN	None	None	None	None	14996081	14996585	-1	None	None
12	None	ENSG00000257880	ENST00000547084	sense_intronic	KNOWN	None	None	None	None	62533780	62539424	-1	None	None
10	None	ENSG00000215921	ENST00000401102	miRNA	NOVEL	None	None	None	None	77583444	77583536	-1	None	None
9	SMC2	ENSG00000136824	ENST00000440179	protein_coding	KNOWN	None	14011	435	144	106856577	106864474	1	SMC2L1	hCAP-E, CAP-E
9	SMC2	ENSG00000136824	ENST00000374793	protein_coding	KNOWN	CCDS35086	14011	3594	1197	106856607	106903698	1	SMC2L1	hCAP-E, CAP-E
9	SMC2	ENSG00000136824	ENST00000374787	protein_coding	KNOWN	CCDS35086	14011	3594	1197	106856845	106901932	1	SMC2L1	hCAP-E, CAP-E
9	SMC2	ENSG00000136824	ENST00000493955	nonsense_mediated_decay	KNOWN	None	14011	501	166	106889688	106901933	1	SMC2L1	hCAP-E, CAP-E
9	SMC2	ENSG00000136824	ENST00000286398	protein_coding	KNOWN	CCDS35086	14011	3594	1197	106856541	106903690	1	SMC2L1	hCAP-E, CAP-E
9	SMC2	ENSG00000136824	ENST00000303219	protein_coding	KNOWN	None	14011	3300	1099	106856831	106898179	1	SMC2L1	hCAP-E, CAP-E
X	RN7SL687P	ENSG00000244335	ENST00000480496	misc_RNA	KNOWN	None	46703	None	None	152931681	152931970	1	None	None
5	MTND4P12	ENSG00000247627	ENST00000498999	processed_pseudogene	KNOWN	None	42199	None	None	134262350	134263726	-1	None	None
2	None	ENSG00000231538	ENST00000417844	antisense	KNOWN	None	None	None	None	115586009	115591125	-1	None	None
X	None	ENSG00000232725	ENST00000434284	antisense	KNOWN	None	None	None	None	153001080	153031908	-1	None	None
X	None	ENSG00000232725	ENST00000416854	antisense	KNOWN	None	None	None	None	153025945	153031933	-1	None	None
11	None	ENSG00000255332	ENST00000577699	lincRNA	KNOWN	None	None	None	None	91527528	91534097	1	None	None
11	None	ENSG00000255332	ENST00000581290	lincRNA	KNOWN	None	None	None	None	91528473	91536658	1	None	None
11	None	ENSG00000255332	ENST00000525832	lincRNA	KNOWN	None	None	None	None	91536521	91545460	1	None	None
3	PCYT1A	ENSG00000161217	ENST00000441879	protein_coding	PUTATIVE	None	8754	638	211	195941093	196014561	-1	PCYT1	CT, CTPCT
3	PCYT1A	ENSG00000161217	ENST00000419333	protein_coding	PUTATIVE	None	8754	1143	380	195956713	195997412	-1	PCYT1	CT, CTPCT
3	PCYT1A	ENSG00000161217	ENST00000292823	protein_coding	KNOWN	CCDS3315	8754	1104	367	195961239	196014584	-1	PCYT1	CT, CTPCT
3	PCYT1A	ENSG00000161217	ENST00000431016	protein_coding	KNOWN	CCDS3315	8754	1104	367	195965422	196014716	-1	PCYT1	CT, CTPCT
3	PCYT1A	ENSG00000161217	ENST00000460827	retained_intron	KNOWN	None	8754	None	None	195965662	195966875	-1	PCYT1	CT, CTPCT
3	PCYT1A	ENSG00000161217	ENST00000411591	protein_coding	KNOWN	None	8754	879	292	195966436	196014597	-1	PCYT1	CT, CTPCT
3	PCYT1A	ENSG00000161217	ENST00000433733	protein_coding	NOVEL	None	8754	411	136	195968399	195974342	-1	PCYT1	CT, CTPCT
3	PCYT1A	ENSG00000161217	ENST00000430755	protein_coding	PUTATIVE	None	8754	606	201	195968531	195984677	-1	PCYT1	CT, CTPCT
3	PCYT1A	ENSG00000161217	ENST00000473978	retained_intron	KNOWN	None	8754	None	None	195968938	196014545	-1	PCYT1	CT, CTPCT
3	PCYT1A	ENSG00000161217	ENST00000488235	retained_intron	KNOWN	None	8754	None	None	195969265	195975144	-1	PCYT1	CT, CTPCT
3	PCYT1A	ENSG00000161217	ENST00000460677	retained_intron	KNOWN	None	8754	None	None	195969441	196014623	-1	PCYT1	CT, CTPCT
3	PCYT1A	ENSG00000161217	ENST00000444822	nonsense_mediated_decay	KNOWN	None	8754	405	134	195969485	196014561	-1	PCYT1	CT, CTPCT
3	PCYT1A	ENSG00000161217	ENST00000412869	protein_coding	KNOWN	None	8754	401	132	195974323	196014134	-1	PCYT1	CT, CTPCT
3	PCYT1A	ENSG00000161217	ENST00000438634	nonsense_mediated_decay	KNOWN	None	8754	273	90	195974328	196014548	-1	PCYT1	CT, CTPCT
3	PCYT1A	ENSG00000161217	ENST00000491544	processed_transcript	KNOWN	None	8754	None	None	195974338	196014534	-1	PCYT1	CT, CTPCT
3	PCYT1A	ENSG00000161217	ENST00000443555	protein_coding	KNOWN	None	8754	345	114	195974379	196014828	-1	PCYT1	CT, CTPCT
5	MIR4461	ENSG00000198868	ENST00000454092	processed_pseudogene	KNOWN	None	41656	None	None	134263720	134264016	-1	None	hsa-mir-4461
3	None	ENSG00000220343	ENST00000469748	processed_pseudogene	KNOWN	None	None	None	None	166783619	166784108	1	None	None
3	None	ENSG00000220343	ENST00000407723	processed_pseudogene	KNOWN	None	None	None	None	166783553	166784113	1	None	None
20	C20orf112	ENSG00000197183	ENST00000359676	protein_coding	KNOWN	CCDS13202	16106	1311	436	31030862	31071274	-1	C20orf113	dJ1184F4.2, DKFZP566G1424, dJ1184F4.4
20	C20orf112	ENSG00000197183	ENST00000475781	processed_transcript	KNOWN	None	16106	None	None	31040687	31071300	-1	C20orf113	dJ1184F4.2, DKFZP566G1424, dJ1184F4.4
20	C20orf112	ENSG00000197183	ENST00000326071	protein_coding	KNOWN	None	16106	276	91	31052583	31071385	-1	C20orf113	dJ1184F4.2, DKFZP566G1424, dJ1184F4.4
20	C20orf112	ENSG00000197183	ENST00000375677	protein_coding	KNOWN	None	16106	342	113	31052583	31099210	-1	C20orf113	dJ1184F4.2, DKFZP566G1424, dJ1184F4.4
20	C20orf112	ENSG00000197183	ENST00000375678	protein_coding	KNOWN	None	16106	468	155	31052583	31124200	-1	C20orf113	dJ1184F4.2, DKFZP566G1424, dJ1184F4.4
20	C20orf112	ENSG00000197183	ENST00000201961	protein_coding	KNOWN	None	16106	528	175	31073340	31172630	-1	C20orf113	dJ1184F4.2, DKFZP566G1424, dJ1184F4.4
20	C20orf112	ENSG00000197183	ENST00000419612	protein_coding	KNOWN	None	16106	229	75	31097587	31108657	-1	C20orf113	dJ1184F4.2, DKFZP566G1424, dJ1184F4.4
20	C20orf112	ENSG00000197183	ENST00000470428	processed_transcript	KNOWN	None	16106	None	None	31115568	31123401	-1	C20orf113	dJ1184F4.2, DKFZP566G1424, dJ1184F4.4
20	C20orf112	ENSG00000197183	ENST00000485364	processed_transcript	KNOWN	None	16106	None	None	31136309	31172876	-1	C20orf113	dJ1184F4.2, DKFZP566G1424, dJ1184F4.4
2	None	ENSG00000235717	ENST00000446992	antisense	KNOWN	None	None	None	None	115591407	115593165	-1	None	None
1	None	ENSG00000227552	ENST00000445662	lincRNA	KNOWN	None	None	None	None	142553293	142559170	1	None	None
16	None	ENSG00000260111	ENST00000566960	antisense	KNOWN	None	None	None	None	70413360	70433405	1	None	None
14	None	ENSG00000206751	ENST00000384024	misc_RNA	NOVEL	None	None	None	None	73319932	73320039	-1	None	None
5	MIR4461	ENSG00000263963	ENST00000580862	miRNA	KNOWN	None	41656	None	None	134263729	134263802	1	None	hsa-mir-4461
17	G6PC	ENSG00000131482	ENST00000592383	protein_coding	PUTATIVE	CCDS59291	4056	531	176	41052814	41063353	1	G6PT	GSD1a
17	G6PC	ENSG00000131482	ENST00000253801	protein_coding	KNOWN	CCDS11446	4056	1074	357	41052815	41065386	1	G6PT	GSD1a
17	G6PC	ENSG00000131482	ENST00000585489	protein_coding	PUTATIVE	None	4056	492	163	41052817	41063505	1	G6PT	GSD1a
17	G6PC	ENSG00000131482	ENST00000588481	retained_intron	KNOWN	None	4056	None	None	41052829	41056256	1	G6PT	GSD1a
2	None	ENSG00000238062	ENST00000414876	lincRNA	KNOWN	None	None	None	None	231849083	231860746	-1	None	None
2	None	ENSG00000238062	ENST00000446741	lincRNA	KNOWN	None	None	None	None	231852357	231860747	-1	None	None
2	None	ENSG00000238062	ENST00000434094	lincRNA	KNOWN	None	None	None	None	231852508	231860723	-1	None	None
2	None	ENSG00000238062	ENST00000418330	lincRNA	KNOWN	None	None	None	None	231852694	231860727	-1	None	None
2	None	ENSG00000238062	ENST00000426904	lincRNA	KNOWN	None	None	None	None	231852760	231860747	-1	None	None
2	None	ENSG00000238062	ENST00000441063	lincRNA	KNOWN	None	None	None	None	231852843	231860596	-1	None	None
2	None	ENSG00000238062	ENST00000457803	lincRNA	KNOWN	None	None	None	None	231852886	231860744	-1	None	None
14	None	ENSG00000238972	ENST00000458957	snoRNA	NOVEL	None	None	None	None	73376145	73376231	-1	None	None
16	RPS27P26	ENSG00000240043	ENST00000494583	processed_pseudogene	KNOWN	None	36904	None	None	70478577	70478815	-1	None	None
2	None	ENSG00000222509	ENST00000410577	misc_RNA	NOVEL	None	None	None	None	171639677	171639781	1	None	None
1	None	ENSG00000233798	ENST00000415979	lincRNA	KNOWN	None	None	None	None	142569266	142588233	-1	None	None
5	None	ENSG00000249192	ENST00000509243	processed_pseudogene	KNOWN	None	None	None	None	134264083	134264217	-1	None	None
2	None	ENSG00000235026	ENST00000448663	antisense	KNOWN	None	None	None	None	115888512	115918768	-1	None	None
2	None	ENSG00000235026	ENST00000432658	antisense	KNOWN	None	None	None	None	115901625	115918920	-1	None	None
HG185_PATCH	TTC25	ENSG00000260703	ENST00000569427	nonsense_mediated_decay	KNOWN	None	25280	258	85	40086887	40094942	1	None	DKFZP434H0115
HG185_PATCH	TTC25	ENSG00000260703	ENST00000561994	nonsense_mediated_decay	KNOWN	None	25280	1149	382	40086897	40121882	1	None	DKFZP434H0115
HG185_PATCH	TTC25	ENSG00000260703	ENST00000569541	protein_coding	KNOWN	None	25280	2019	672	40086908	40121903	1	None	DKFZP434H0115
HG185_PATCH	TTC25	ENSG00000260703	ENST00000565052	nonsense_mediated_decay	KNOWN	None	25280	63	20	40091550	40093293	1	None	DKFZP434H0115
14	None	ENSG00000176043	ENST00000488095	processed_pseudogene	KNOWN	None	None	None	None	73396320	73396638	-1	None	None
14	None	ENSG00000176043	ENST00000323718	pseudogene	KNOWN	None	None	None	None	73396320	73396638	-1	None	None
2	IGKV6D-41	ENSG00000211626	ENST00000390271	IG_V_gene	KNOWN	None	5838	345	114	90108504	90109080	1	None	None
1	SNORD78	ENSG00000208317	ENST00000385582	snoRNA	KNOWN	None	32738	None	None	173834760	173834824	-1	None	U78
2	None	ENSG00000235934	ENST00000451730	antisense	KNOWN	None	None	None	None	171672803	171673682	-1	None	None
2	None	ENSG00000235934	ENST00000418106	antisense	KNOWN	None	None	None	None	171672813	171674405	-1	None	None
2	None	ENSG00000235934	ENST00000455988	antisense	KNOWN	None	None	None	None	171672915	171674547	-1	None	None
1	RNA5SP67	ENSG00000252231	ENST00000516422	rRNA	KNOWN	None	42844	None	None	173890208	173890338	1	RN5S67	None
3	None	ENSG00000214301	ENST00000512176	processed_pseudogene	KNOWN	None	None	None	None	133209668	133210349	1	None	None
1	RNA5SP68	ENSG00000200755	ENST00000363885	rRNA	KNOWN	None	42845	None	None	173938456	173938574	-1	RN5S68	None
15	RNU6-188P	ENSG00000201077	ENST00000364207	snRNA	KNOWN	None	47151	None	None	42719789	42719895	-1	None	None
2	IGKV1D-17	ENSG00000242766	ENST00000483379	IG_V_gene	KNOWN	None	5749	351	116	90121477	90122133	1	None	None
5	None	ENSG00000250513	ENST00000507641	antisense	KNOWN	None	None	None	None	134369072	134482890	1	None	None
5	None	ENSG00000250513	ENST00000505828	antisense	KNOWN	None	None	None	None	134369132	134551255	1	None	None
5	None	ENSG00000250513	ENST00000513931	antisense	KNOWN	None	None	None	None	134463845	134509862	1	None	None
12	None	ENSG00000258316	ENST00000547105	processed_pseudogene	KNOWN	None	None	None	None	62628171	62629296	-1	None	None
1	RC3H1-IT1	ENSG00000236535	ENST00000421851	sense_intronic	KNOWN	None	41496	None	None	173978405	173985344	-1	None	None
15	None	ENSG00000261684	ENST00000564805	antisense	KNOWN	None	None	None	None	42824065	42825038	-1	None	None
1	None	ENSG00000230880	ENST00000446205	lincRNA	KNOWN	None	None	None	None	142618769	142692387	1	None	None
1	None	ENSG00000230880	ENST00000400755	lincRNA	KNOWN	None	None	None	None	142618771	142679074	1	None	None
1	None	ENSG00000230880	ENST00000412092	lincRNA	KNOWN	None	None	None	None	142618795	142621538	1	None	None
1	None	ENSG00000230880	ENST00000413650	lincRNA	KNOWN	None	None	None	None	142618808	142621059	1	None	None
1	None	ENSG00000230880	ENST00000426408	lincRNA	KNOWN	None	None	None	None	142619123	142665640	1	None	None
1	None	ENSG00000230880	ENST00000411746	lincRNA	KNOWN	None	None	None	None	142619123	142729975	1	None	None
7	None	ENSG00000227298	ENST00000454154	processed_pseudogene	KNOWN	None	None	None	None	62803089	62803578	1	None	None
3	None	ENSG00000250983	ENST00000512424	processed_pseudogene	KNOWN	None	None	None	None	133264915	133265116	-1	None	None
3	None	ENSG00000241669	ENST00000498413	lincRNA	KNOWN	None	None	None	None	167110584	167126307	1	None	None
1	None	ENSG00000224977	ENST00000424181	lincRNA	KNOWN	None	None	None	None	173991647	173992123	1	None	None
12	RNU6-595P	ENSG00000200814	ENST00000363944	snRNA	KNOWN	None	47558	None	None	62727872	62727978	-1	None	None
7	FAM180A	ENSG00000189320	ENST00000435869	nonsense_mediated_decay	KNOWN	None	33773	333	110	135413096	135433561	-1	None	HWKM1940, UNQ1940
7	FAM180A	ENSG00000189320	ENST00000444083	nonsense_mediated_decay	KNOWN	CCDS5841	33773	522	173	135414355	135433367	-1	None	HWKM1940, UNQ1940
7	FAM180A	ENSG00000189320	ENST00000415751	protein_coding	KNOWN	CCDS5841	33773	522	173	135418304	135433460	-1	None	HWKM1940, UNQ1940
7	FAM180A	ENSG00000189320	ENST00000338588	protein_coding	KNOWN	CCDS5841	33773	522	173	135414347	135433594	-1	None	HWKM1940, UNQ1940
X	None	ENSG00000184844	ENST00000402289	processed_pseudogene	KNOWN	None	None	None	None	153106706	153107020	1	None	None
2	IGKV1D-16	ENSG00000241244	ENST00000492446	IG_V_gene	KNOWN	None	5748	351	116	90139078	90139580	1	None	None
2	None	ENSG00000266020	ENST00000583255	miRNA	NOVEL	None	None	None	None	171772719	171772804	1	None	None
7	None	ENSG00000232165	ENST00000426192	processed_pseudogene	KNOWN	None	None	None	None	62806218	62807110	1	None	None
12	None	ENSG00000257568	ENST00000551713	antisense	KNOWN	None	None	None	None	62876129	62878712	-1	None	None
20	None	ENSG00000263592	ENST00000580154	miRNA	NOVEL	None	None	None	None	49794042	49794136	1	None	None
2	None	ENSG00000238567	ENST00000459000	snoRNA	NOVEL	None	None	None	None	172002840	172002937	1	None	None
15	SLTM	ENSG00000137776	ENST00000380516	protein_coding	KNOWN	CCDS10168	20709	3105	1034	59171244	59225852	-1	None	Met, FLJ13213
15	SLTM	ENSG00000137776	ENST00000432750	protein_coding	NOVEL	None	20709	1803	600	59171618	59189319	-1	None	Met, FLJ13213
15	SLTM	ENSG00000137776	ENST00000560494	protein_coding	KNOWN	None	20709	303	100	59171624	59179206	-1	None	Met, FLJ13213
15	SLTM	ENSG00000137776	ENST00000492526	nonsense_mediated_decay	KNOWN	None	20709	534	177	59171628	59225778	-1	None	Met, FLJ13213
15	SLTM	ENSG00000137776	ENST00000493062	retained_intron	KNOWN	None	20709	None	None	59171631	59179323	-1	None	Met, FLJ13213
15	SLTM	ENSG00000137776	ENST00000557924	nonsense_mediated_decay	KNOWN	None	20709	189	62	59171759	59225798	-1	None	Met, FLJ13213
15	SLTM	ENSG00000137776	ENST00000558052	retained_intron	KNOWN	None	20709	None	None	59175678	59180621	-1	None	Met, FLJ13213
15	SLTM	ENSG00000137776	ENST00000560695	retained_intron	KNOWN	None	20709	None	None	59179491	59180928	-1	None	Met, FLJ13213
15	SLTM	ENSG00000137776	ENST00000557791	protein_coding	NOVEL	None	20709	334	110	59179656	59181689	-1	None	Met, FLJ13213
15	SLTM	ENSG00000137776	ENST00000558734	retained_intron	KNOWN	None	20709	None	None	59181343	59185491	-1	None	Met, FLJ13213
15	SLTM	ENSG00000137776	ENST00000497088	retained_intron	KNOWN	None	20709	None	None	59186125	59191282	-1	None	Met, FLJ13213
15	SLTM	ENSG00000137776	ENST00000558756	nonsense_mediated_decay	KNOWN	None	20709	616	204	59186289	59225648	-1	None	Met, FLJ13213
15	SLTM	ENSG00000137776	ENST00000249736	protein_coding	NOVEL	None	20709	1359	452	59186357	59225778	-1	None	Met, FLJ13213
15	SLTM	ENSG00000137776	ENST00000473359	retained_intron	KNOWN	None	20709	None	None	59186388	59189763	-1	None	Met, FLJ13213
15	SLTM	ENSG00000137776	ENST00000559305	nonsense_mediated_decay	KNOWN	None	20709	189	62	59186658	59225775	-1	None	Met, FLJ13213
15	SLTM	ENSG00000137776	ENST00000480144	retained_intron	KNOWN	None	20709	None	None	59190181	59225799	-1	None	Met, FLJ13213
15	SLTM	ENSG00000137776	ENST00000559880	protein_coding	NOVEL	None	20709	688	228	59191810	59225793	-1	None	Met, FLJ13213
15	SLTM	ENSG00000137776	ENST00000558486	protein_coding	NOVEL	None	20709	576	191	59191904	59225773	-1	None	Met, FLJ13213
15	SLTM	ENSG00000137776	ENST00000560682	protein_coding	NOVEL	None	20709	484	160	59191990	59225775	-1	None	Met, FLJ13213
15	SLTM	ENSG00000137776	ENST00000557950	processed_transcript	KNOWN	None	20709	None	None	59192616	59225757	-1	None	Met, FLJ13213
15	SLTM	ENSG00000137776	ENST00000560532	retained_intron	KNOWN	None	20709	None	None	59193167	59205000	-1	None	Met, FLJ13213
15	SLTM	ENSG00000137776	ENST00000559261	nonsense_mediated_decay	KNOWN	None	20709	270	89	59205698	59225799	-1	None	Met, FLJ13213
15	SLTM	ENSG00000137776	ENST00000560012	processed_transcript	KNOWN	None	20709	None	None	59205756	59225780	-1	None	Met, FLJ13213
15	SLTM	ENSG00000137776	ENST00000484498	retained_intron	KNOWN	None	20709	None	None	59208773	59225773	-1	None	Met, FLJ13213
15	SLTM	ENSG00000137776	ENST00000474342	retained_intron	KNOWN	None	20709	None	None	59224351	59225815	-1	None	Met, FLJ13213
15	SLTM	ENSG00000137776	ENST00000536328	protein_coding	KNOWN	None	20709	1812	603	59171759	59225798	-1	None	Met, FLJ13213
3	None	ENSG00000201827	ENST00000364957	snoRNA	NOVEL	None	None	None	None	133270030	133270159	1	None	None
2	None	ENSG00000224553	ENST00000428525	processed_pseudogene	KNOWN	None	None	None	None	172231441	172231788	-1	None	None
1	RPL30P1	ENSG00000225713	ENST00000488676	processed_pseudogene	KNOWN	None	36642	None	None	174059274	174059612	-1	None	None
1	RPL30P1	ENSG00000225713	ENST00000598110	processed_pseudogene	KNOWN	None	36642	None	None	174059281	174059610	-1	None	None
5	LPCAT1	ENSG00000153395	ENST00000475622	nonsense_mediated_decay	KNOWN	CCDS3864	25718	1605	534	1456595	1524077	-1	AYTL2	FLJ12443
5	LPCAT1	ENSG00000153395	ENST00000283415	protein_coding	KNOWN	CCDS3864	25718	1605	534	1461538	1524092	-1	AYTL2	FLJ12443
5	LPCAT1	ENSG00000153395	ENST00000503252	processed_transcript	KNOWN	None	25718	None	None	1461544	1467440	-1	AYTL2	FLJ12443
5	LPCAT1	ENSG00000153395	ENST00000513757	retained_intron	KNOWN	None	25718	None	None	1479591	1494893	-1	AYTL2	FLJ12443
5	LPCAT1	ENSG00000153395	ENST00000514484	processed_transcript	KNOWN	None	25718	None	None	1483543	1523855	-1	AYTL2	FLJ12443
5	LPCAT1	ENSG00000153395	ENST00000507282	retained_intron	KNOWN	None	25718	None	None	1488492	1495043	-1	AYTL2	FLJ12443
5	None	ENSG00000249082	ENST00000507035	lincRNA	KNOWN	None	None	None	None	134374528	134375737	-1	None	None
5	None	ENSG00000249082	ENST00000511256	lincRNA	KNOWN	None	None	None	None	134374531	134375386	-1	None	None
7	None	ENSG00000227545	ENST00000429931	processed_pseudogene	KNOWN	None	None	None	None	62809532	62810437	-1	None	None
4	None	ENSG00000249378	ENST00000512839	lincRNA	KNOWN	None	None	None	None	189321890	189407019	1	None	None
4	None	ENSG00000249378	ENST00000513313	lincRNA	KNOWN	None	None	None	None	189321890	189407019	1	None	None
4	None	ENSG00000249378	ENST00000510832	lincRNA	KNOWN	None	None	None	None	189376732	189459706	1	None	None
4	None	ENSG00000249378	ENST00000510005	lincRNA	KNOWN	None	None	None	None	189376747	189523062	1	None	None
4	None	ENSG00000249378	ENST00000503458	lincRNA	KNOWN	None	None	None	None	189376779	189523060	1	None	None
4	None	ENSG00000249378	ENST00000503580	lincRNA	KNOWN	None	None	None	None	189406933	189602205	1	None	None
2	IGKV3D-15	ENSG00000224041	ENST00000417279	IG_V_gene	KNOWN	None	5824	345	114	90153696	90154258	1	None	None
HSCHR6_MHC_DBB	HLA-E	ENSG00000229252	ENST00000415289	protein_coding	KNOWN	None	4962	1077	358	30447487	30452225	1	None	None
HSCHR6_MHC_DBB	HLA-E	ENSG00000229252	ENST00000486452	retained_intron	KNOWN	None	4962	None	None	30447530	30448385	1	None	None
HSCHR6_MHC_DBB	HLA-E	ENSG00000229252	ENST00000462399	retained_intron	KNOWN	None	4962	None	None	30447532	30449303	1	None	None
3	HMGN1P8	ENSG00000241120	ENST00000463578	processed_pseudogene	KNOWN	None	39351	None	None	167412143	167412430	-1	None	None
20	None	ENSG00000263645	ENST00000516531	miRNA	NOVEL	None	None	None	None	49993772	49993858	-1	None	None
1	WASH7P	ENSG00000227232	ENST00000488147	unprocessed_pseudogene	KNOWN	None	38034	None	None	14404	29570	-1	None	FAM39F
1	WASH7P	ENSG00000227232	ENST00000538476	unprocessed_pseudogene	KNOWN	None	38034	None	None	14411	29806	-1	None	FAM39F
1	WASH7P	ENSG00000227232	ENST00000438504	unprocessed_pseudogene	KNOWN	None	38034	None	None	14363	29370	-1	None	FAM39F
1	WASH7P	ENSG00000227232	ENST00000541675	unprocessed_pseudogene	KNOWN	None	38034	None	None	14363	24886	-1	None	FAM39F
1	WASH7P	ENSG00000227232	ENST00000423562	unprocessed_pseudogene	KNOWN	None	38034	None	None	14363	29370	-1	None	FAM39F
2	DAP3P2	ENSG00000228507	ENST00000458547	processed_pseudogene	KNOWN	None	29762	None	None	172347932	172348441	1	MRPS29P2	None
13	ATP7B	ENSG00000123191	ENST00000242839	protein_coding	KNOWN	CCDS41892	870	4398	1465	52506809	52585630	-1	WND	None
13	ATP7B	ENSG00000123191	ENST00000482841	processed_transcript	KNOWN	None	870	None	None	52515207	52548911	-1	WND	None
13	ATP7B	ENSG00000123191	ENST00000466629	processed_transcript	KNOWN	None	870	None	None	52518245	52520699	-1	WND	None
13	ATP7B	ENSG00000123191	ENST00000483772	processed_transcript	KNOWN	None	870	None	None	52538910	52548111	-1	WND	None
13	ATP7B	ENSG00000123191	ENST00000400366	protein_coding	KNOWN	CCDS58293	870	4065	1354	52506810	52585630	-1	WND	None
13	ATP7B	ENSG00000123191	ENST00000344297	protein_coding	KNOWN	CCDS45049	870	3777	1258	52506810	52585630	-1	WND	None
13	ATP7B	ENSG00000123191	ENST00000448424	protein_coding	KNOWN	None	870	4164	1387	52508822	52585547	-1	WND	None
13	ATP7B	ENSG00000123191	ENST00000400370	protein_coding	KNOWN	None	870	3108	1035	52508822	52585547	-1	WND	None
13	ATP7B	ENSG00000123191	ENST00000418097	protein_coding	KNOWN	None	870	4203	1400	52508829	52585547	-1	WND	None
13	ATP7B	ENSG00000123191	ENST00000417240	protein_coding	KNOWN	None	870	2031	676	52508740	52536051	-1	WND	None
13	ATP7B	ENSG00000123191	ENST00000542656	protein_coding	KNOWN	None	870	1587	528	52532500	52549304	-1	WND	None
X	ARMCX3-AS1	ENSG00000228275	ENST00000454228	antisense	KNOWN	None	41038	None	None	100877973	100879154	-1	None	None
2	None	ENSG00000230391	ENST00000446095	processed_pseudogene	KNOWN	None	None	None	None	116225632	116226514	1	None	None
7	None	ENSG00000227923	ENST00000454641	processed_pseudogene	KNOWN	None	None	None	None	62814411	62814743	1	None	None
3	TFP1	ENSG00000242337	ENST00000490470	processed_transcript	KNOWN	None	11759	None	None	133380842	133426516	1	TFP	None
3	TFP1	ENSG00000242337	ENST00000460564	processed_transcript	KNOWN	None	11759	None	None	133380842	133473420	1	TFP	None
3	TFP1	ENSG00000242337	ENST00000497521	processed_transcript	KNOWN	None	11759	None	None	133380843	133419086	1	TFP	None
3	TFP1	ENSG00000242337	ENST00000475455	transcribed_unprocessed_pseudogene	KNOWN	None	11759	None	None	133407036	133431646	1	TFP	None
14	None	ENSG00000259015	ENST00000555304	processed_pseudogene	KNOWN	None	None	None	None	73427303	73428701	1	None	None
2	None	ENSG00000234061	ENST00000441891	processed_pseudogene	KNOWN	None	None	None	None	172349415	172349605	1	None	None
20	MIR3194	ENSG00000266761	ENST00000582236	miRNA	KNOWN	None	38346	None	None	50069442	50069514	-1	None	hsa-mir-3194
2	IGKV1D-13	ENSG00000211630	ENST00000390275	IG_V_gene	KNOWN	None	5747	351	116	90192768	90193424	1	None	None
X	None	ENSG00000261101	ENST00000564612	sense_overlapping	KNOWN	None	None	None	None	100882858	100883508	1	None	None
15	None	ENSG00000261822	ENST00000561902	antisense	KNOWN	None	None	None	None	42859229	42862192	-1	None	None
15	None	ENSG00000261822	ENST00000567089	antisense	KNOWN	None	None	None	None	42861496	42862192	-1	None	None
5	None	ENSG00000248753	ENST00000507058	lincRNA	KNOWN	None	None	None	None	134456216	134475371	1	None	None
1	None	ENSG00000227373	ENST00000426899	lincRNA	KNOWN	None	None	None	None	174084438	174128291	-1	None	None
1	None	ENSG00000227373	ENST00000419983	lincRNA	KNOWN	None	None	None	None	174084521	174129142	-1	None	None
1	None	ENSG00000227373	ENST00000454467	lincRNA	KNOWN	None	None	None	None	174084739	174128271	-1	None	None
1	None	ENSG00000227373	ENST00000430592	lincRNA	KNOWN	None	None	None	None	174090776	174128425	-1	None	None
11	None	ENSG00000255062	ENST00000524964	protein_coding	PUTATIVE	None	None	192	63	126164193	126174213	-1	None	None
11	None	ENSG00000255062	ENST00000528876	processed_transcript	PUTATIVE	None	None	None	None	126164202	126167021	-1	None	None
6	None	ENSG00000219682	ENST00000405676	processed_pseudogene	KNOWN	None	None	None	None	25140231	25141631	1	None	None
6	None	ENSG00000219682	ENST00000509438	processed_pseudogene	KNOWN	None	None	None	None	25140212	25141649	1	None	None
5	None	ENSG00000248482	ENST00000509530	lincRNA	KNOWN	None	None	None	None	134460070	134466939	-1	None	None
1	None	ENSG00000203849	ENST00000369381	lincRNA	KNOWN	None	None	None	None	142620645	142714605	-1	None	None
X	RNU6-30P	ENSG00000207291	ENST00000384561	snRNA	KNOWN	None	34274	None	None	100888994	100889100	-1	RNU6-30	None
2	None	ENSG00000233762	ENST00000433675	processed_pseudogene	KNOWN	None	None	None	None	172373780	172374226	-1	None	None
2	None	ENSG00000233762	ENST00000397084	processed_pseudogene	KNOWN	None	None	None	None	172373749	172374232	-1	None	None
10	FGFBP3	ENSG00000174721	ENST00000311575	protein_coding	KNOWN	CCDS7418	23428	777	258	93666346	93669240	-1	C10orf13	MGC39320
6	PXT1	ENSG00000179165	ENST00000454782	protein_coding	PUTATIVE	CCDS4820	18312	405	134	36358328	36410666	-1	None	STEPP
2	IGKV1D-12	ENSG00000240834	ENST00000390276	IG_V_gene	KNOWN	None	5746	351	116	90198535	90199190	1	None	None
14	None	ENSG00000239544	ENST00000478589	processed_pseudogene	KNOWN	None	None	None	None	73430353	73430716	-1	None	None
HSCHR6_MHC_QBL	PRRC2A	ENSG00000206427	ENST00000383464	protein_coding	KNOWN	None	13918	6474	2157	31578741	31595788	1	BAT2	G2, D6S51E
HSCHR6_MHC_QBL	PRRC2A	ENSG00000206427	ENST00000470109	processed_transcript	KNOWN	None	13918	None	None	31578745	31584881	1	BAT2	G2, D6S51E
HSCHR6_MHC_QBL	PRRC2A	ENSG00000206427	ENST00000383455	protein_coding	KNOWN	None	13918	6474	2157	31578746	31595788	1	BAT2	G2, D6S51E
HSCHR6_MHC_QBL	PRRC2A	ENSG00000206427	ENST00000480541	retained_intron	KNOWN	None	13918	None	None	31582921	31583516	1	BAT2	G2, D6S51E
HSCHR6_MHC_QBL	PRRC2A	ENSG00000206427	ENST00000467770	retained_intron	KNOWN	None	13918	None	None	31583773	31585093	1	BAT2	G2, D6S51E
HSCHR6_MHC_QBL	PRRC2A	ENSG00000206427	ENST00000487905	retained_intron	KNOWN	None	13918	None	None	31586659	31587787	1	BAT2	G2, D6S51E
HSCHR6_MHC_QBL	PRRC2A	ENSG00000206427	ENST00000478637	retained_intron	KNOWN	None	13918	None	None	31591971	31592773	1	BAT2	G2, D6S51E
HSCHR6_MHC_QBL	PRRC2A	ENSG00000206427	ENST00000486537	retained_intron	KNOWN	None	13918	None	None	31592424	31593333	1	BAT2	G2, D6S51E
HSCHR6_MHC_QBL	PRRC2A	ENSG00000206427	ENST00000466085	retained_intron	KNOWN	None	13918	None	None	31593259	31593726	1	BAT2	G2, D6S51E
HSCHR6_MHC_QBL	PRRC2A	ENSG00000206427	ENST00000481289	retained_intron	KNOWN	None	13918	None	None	31593377	31594267	1	BAT2	G2, D6S51E
HSCHR6_MHC_QBL	PRRC2A	ENSG00000206427	ENST00000474452	retained_intron	KNOWN	None	13918	None	None	31593393	31594828	1	BAT2	G2, D6S51E
HSCHR6_MHC_QBL	PRRC2A	ENSG00000206427	ENST00000489811	retained_intron	KNOWN	None	13918	None	None	31594264	31595788	1	BAT2	G2, D6S51E
HSCHR6_MHC_QBL	PRRC2A	ENSG00000206427	ENST00000478634	retained_intron	KNOWN	None	13918	None	None	31594553	31595788	1	BAT2	G2, D6S51E
HSCHR6_MHC_QBL	PRRC2A	ENSG00000206427	ENST00000497052	retained_intron	KNOWN	None	13918	None	None	31594852	31595788	1	BAT2	G2, D6S51E
HSCHR6_MHC_QBL	PRRC2A	ENSG00000206427	ENST00000547457	protein_coding	KNOWN	None	13918	6417	2138	31578694	31595777	1	BAT2	G2, D6S51E
HSCHR6_MHC_QBL	PRRC2A	ENSG00000206427	ENST00000551341	protein_coding	KNOWN	None	13918	6450	2149	31578694	31595777	1	BAT2	G2, D6S51E
2	None	ENSG00000271667	ENST00000605241	processed_pseudogene	KNOWN	None	None	None	None	117444794	117444963	-1	None	None
X	None	ENSG00000223753	ENST00000454247	processed_pseudogene	KNOWN	None	None	None	None	100938779	100939448	1	None	None
12	None	ENSG00000207365	ENST00000384635	misc_RNA	NOVEL	None	None	None	None	93415382	93415488	1	None	None
2	None	ENSG00000224869	ENST00000355719	processed_pseudogene	KNOWN	None	None	None	None	117484029	117484347	-1	None	None
5	None	ENSG00000249647	ENST00000505663	lincRNA	KNOWN	None	None	None	None	134571924	134583869	-1	None	None
5	None	ENSG00000249647	ENST00000555344	lincRNA	KNOWN	None	None	None	None	134582736	134583505	-1	None	None
14	RN7SL586P	ENSG00000241487	ENST00000479137	misc_RNA	KNOWN	None	46602	None	None	73507329	73507622	-1	None	None
7	None	ENSG00000229301	ENST00000418297	lincRNA	KNOWN	None	None	None	None	62814835	62819684	1	None	None
HG7_PATCH	None	ENSG00000260935	ENST00000563431	processed_transcript	KNOWN	None	None	None	None	141611017	141611349	1	None	None
HG7_PATCH	None	ENSG00000260935	ENST00000569806	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	141611263	141611743	1	None	None
X	RNU6-587P	ENSG00000212584	ENST00000391282	snRNA	KNOWN	None	47550	None	None	100946553	100946658	1	None	None
20	None	ENSG00000215444	ENST00000400354	processed_pseudogene	KNOWN	None	None	None	None	50351072	50351606	1	None	None
6	None	ENSG00000262400	ENST00000573276	processed_pseudogene	KNOWN	None	None	None	None	25152775	25153111	1	None	None
1	None	ENSG00000238872	ENST00000459580	snoRNA	NOVEL	None	None	None	None	174169267	174169368	-1	None	None
8	None	ENSG00000253551	ENST00000522541	antisense	KNOWN	None	None	None	None	53106922	53112140	1	None	None
2	None	ENSG00000226341	ENST00000437562	processed_pseudogene	KNOWN	None	None	None	None	117508734	117509224	1	None	None
2	RPL21P38	ENSG00000233934	ENST00000418090	processed_pseudogene	KNOWN	None	36349	None	None	172443603	172443769	1	None	None
1	None	ENSG00000266125	ENST00000585310	miRNA	NOVEL	None	None	None	None	174317403	174317493	1	None	None
7	VN1R31P	ENSG00000236284	ENST00000417498	processed_pseudogene	KNOWN	None	37351	None	None	62827805	62828534	-1	None	None
2	None	ENSG00000235871	ENST00000420950	processed_pseudogene	KNOWN	None	None	None	None	117575662	117576337	1	None	None
12	None	ENSG00000270506	ENST00000605469	processed_pseudogene	KNOWN	None	None	None	None	93429037	93429520	1	None	None
1	None	ENSG00000237317	ENST00000423946	processed_pseudogene	KNOWN	None	None	None	None	174336243	174337177	-1	None	None
15	None	ENSG00000261597	ENST00000569135	sense_overlapping	KNOWN	None	None	None	None	49944336	49948429	1	None	None
HG871_PATCH	AKR1C3	ENSG00000265685	ENST00000604704	processed_transcript	KNOWN	None	386	None	None	5077546	5144683	1	HSD17B5	KIAA0119, DDX, HAKRB, PGFS
HG871_PATCH	AKR1C3	ENSG00000265685	ENST00000582869	processed_transcript	KNOWN	None	386	None	None	5077549	5139725	1	HSD17B5	KIAA0119, DDX, HAKRB, PGFS
HG871_PATCH	AKR1C3	ENSG00000265685	ENST00000581124	processed_transcript	KNOWN	None	386	None	None	5077550	5139729	1	HSD17B5	KIAA0119, DDX, HAKRB, PGFS
HG871_PATCH	AKR1C3	ENSG00000265685	ENST00000603402	protein_coding	PUTATIVE	None	386	466	154	5090981	5141606	1	HSD17B5	KIAA0119, DDX, HAKRB, PGFS
HG871_PATCH	AKR1C3	ENSG00000265685	ENST00000585191	protein_coding	PUTATIVE	None	386	903	300	5119830	5149872	1	HSD17B5	KIAA0119, DDX, HAKRB, PGFS
HG871_PATCH	AKR1C3	ENSG00000265685	ENST00000583876	protein_coding	KNOWN	None	386	972	323	5135985	5149878	1	HSD17B5	KIAA0119, DDX, HAKRB, PGFS
HG871_PATCH	AKR1C3	ENSG00000265685	ENST00000580992	retained_intron	KNOWN	None	386	None	None	5136606	5140368	1	HSD17B5	KIAA0119, DDX, HAKRB, PGFS
HG871_PATCH	AKR1C3	ENSG00000265685	ENST00000605101	retained_intron	KNOWN	None	386	None	None	5136610	5142085	1	HSD17B5	KIAA0119, DDX, HAKRB, PGFS
HG871_PATCH	AKR1C3	ENSG00000265685	ENST00000604302	retained_intron	KNOWN	None	386	None	None	5138337	5139720	1	HSD17B5	KIAA0119, DDX, HAKRB, PGFS
HG871_PATCH	AKR1C3	ENSG00000265685	ENST00000604388	retained_intron	KNOWN	None	386	None	None	5147467	5149878	1	HSD17B5	KIAA0119, DDX, HAKRB, PGFS
2	None	ENSG00000261829	ENST00000568958	sense_overlapping	KNOWN	None	None	None	None	231916755	231917352	1	None	None
6	None	ENSG00000217805	ENST00000407885	processed_pseudogene	KNOWN	None	None	None	None	25181587	25181973	1	None	None
2	MTND1P28	ENSG00000230158	ENST00000435623	unprocessed_pseudogene	KNOWN	None	42077	None	None	117781494	117782443	1	None	None
HG7_PATCH	MOXD2P	ENSG00000260446	ENST00000565444	transcribed_unprocessed_pseudogene	KNOWN	None	33605	None	None	141940559	141946886	-1	MOXD2	None
HG7_PATCH	MOXD2P	ENSG00000260446	ENST00000565105	processed_transcript	KNOWN	None	33605	None	None	141940593	141943603	-1	MOXD2	None
HG7_PATCH	MOXD2P	ENSG00000260446	ENST00000567750	processed_transcript	KNOWN	None	33605	None	None	141943929	141945505	-1	MOXD2	None
17	AOC4P	ENSG00000260105	ENST00000569586	processed_transcript	KNOWN	None	48869	None	None	41017939	41019723	1	None	None
17	AOC4P	ENSG00000260105	ENST00000585538	processed_transcript	KNOWN	None	48869	None	None	41019162	41021234	1	None	None
17	AOC4P	ENSG00000260105	ENST00000566825	transcribed_unprocessed_pseudogene	KNOWN	None	48869	None	None	41019296	41026386	1	None	None
17	AOC4P	ENSG00000260105	ENST00000562301	processed_transcript	KNOWN	None	48869	None	None	41019564	41021364	1	None	None
17	AOC4P	ENSG00000260105	ENST00000563852	processed_transcript	KNOWN	None	48869	None	None	41020508	41025481	1	None	None
17	AOC4P	ENSG00000260105	ENST00000570207	processed_transcript	KNOWN	None	48869	None	None	41020767	41026263	1	None	None
1	BANF1P4	ENSG00000223828	ENST00000420029	processed_pseudogene	KNOWN	None	43884	None	None	174725988	174726257	-1	None	None
19	HCN2	ENSG00000099822	ENST00000251287	protein_coding	KNOWN	CCDS12035	4846	2670	889	589893	617159	1	BCNG2	BCNG-2, HAC-1
2	RNU1-93P	ENSG00000201574	ENST00000364704	snRNA	KNOWN	None	48435	None	None	231998176	231998344	1	None	None
2	None	ENSG00000228389	ENST00000416361	antisense	KNOWN	None	None	None	None	172629992	172632354	1	None	None
2	CAPG	ENSG00000042493	ENST00000263867	protein_coding	KNOWN	CCDS1974	1474	1047	348	85621871	85637676	-1	AFCP	MCP
2	CAPG	ENSG00000042493	ENST00000453973	protein_coding	NOVEL	None	1474	312	103	85621876	85625857	-1	AFCP	MCP
2	CAPG	ENSG00000042493	ENST00000409921	protein_coding	NOVEL	CCDS58715	1474	1002	333	85621890	85637493	-1	AFCP	MCP
2	CAPG	ENSG00000042493	ENST00000409670	protein_coding	KNOWN	CCDS1974	1474	1047	348	85621951	85641165	-1	AFCP	MCP
2	CAPG	ENSG00000042493	ENST00000409724	protein_coding	KNOWN	CCDS1974	1474	1047	348	85622016	85641197	-1	AFCP	MCP
2	CAPG	ENSG00000042493	ENST00000471064	retained_intron	KNOWN	None	1474	None	None	85622018	85625475	-1	AFCP	MCP
2	CAPG	ENSG00000042493	ENST00000483659	processed_transcript	KNOWN	None	1474	None	None	85622698	85628794	-1	AFCP	MCP
2	CAPG	ENSG00000042493	ENST00000439385	protein_coding	KNOWN	None	1474	759	252	85625813	85635938	-1	AFCP	MCP
2	CAPG	ENSG00000042493	ENST00000449030	protein_coding	KNOWN	None	1474	759	252	85625813	85636955	-1	AFCP	MCP
2	CAPG	ENSG00000042493	ENST00000447219	protein_coding	KNOWN	None	1474	759	252	85625813	85641162	-1	AFCP	MCP
2	CAPG	ENSG00000042493	ENST00000459793	retained_intron	KNOWN	None	1474	None	None	85625843	85637475	-1	AFCP	MCP
2	CAPG	ENSG00000042493	ENST00000409275	protein_coding	KNOWN	None	1474	656	217	85626269	85645555	-1	AFCP	MCP
2	CAPG	ENSG00000042493	ENST00000415012	processed_transcript	KNOWN	None	1474	None	None	85628295	85640336	-1	AFCP	MCP
2	CAPG	ENSG00000042493	ENST00000491267	retained_intron	KNOWN	None	1474	None	None	85628768	85641141	-1	AFCP	MCP
2	CAPG	ENSG00000042493	ENST00000479651	processed_transcript	KNOWN	None	1474	None	None	85629261	85641097	-1	AFCP	MCP
15	None	ENSG00000259548	ENST00000560760	lincRNA	KNOWN	None	None	None	None	80124808	80125896	-1	None	None
1	None	ENSG00000266657	ENST00000580249	miRNA	NOVEL	None	None	None	None	142653525	142653607	1	None	None
2	None	ENSG00000237039	ENST00000441378	processed_pseudogene	KNOWN	None	None	None	None	232120810	232121019	1	None	None
16	None	ENSG00000206706	ENST00000383979	misc_RNA	NOVEL	None	None	None	None	16407969	16408068	-1	None	None
6	RNY5P5	ENSG00000222373	ENST00000410441	misc_RNA	KNOWN	None	34086	None	None	25192641	25192718	1	None	None
2	RNU6-182P	ENSG00000252779	ENST00000516970	snRNA	KNOWN	None	47145	None	None	172713076	172713180	-1	None	None
3	None	ENSG00000242924	ENST00000463642	lincRNA	KNOWN	None	None	None	None	167582561	167594705	1	None	None
1	None	ENSG00000239012	ENST00000459390	miRNA	NOVEL	None	None	None	None	142653718	142653799	1	None	None
3	CCDC71	ENSG00000177352	ENST00000321895	protein_coding	KNOWN	CCDS2790	25760	1404	467	49199968	49203754	-1	None	FLJ12800
1	NDUFAF4P4	ENSG00000231378	ENST00000454883	processed_pseudogene	KNOWN	None	44543	None	None	174818805	174819306	-1	None	None
2	MTND2P21	ENSG00000230950	ENST00000436242	unprocessed_pseudogene	KNOWN	None	42122	None	None	117782653	117783694	1	None	None
8	None	ENSG00000238372	ENST00000459507	snoRNA	NOVEL	None	None	None	None	102859484	102859588	-1	None	None
14	None	ENSG00000258752	ENST00000555407	antisense	KNOWN	None	None	None	None	89816629	89820137	1	None	None
14	None	ENSG00000258752	ENST00000556942	antisense	KNOWN	None	None	None	None	89816646	89831043	1	None	None
2	None	ENSG00000236651	ENST00000448117	lincRNA	KNOWN	None	None	None	None	172967734	172974710	1	None	None
1	None	ENSG00000265466	ENST00000582446	miRNA	NOVEL	None	None	None	None	142656062	142656144	1	None	None
8	MIR5680	ENSG00000266756	ENST00000577577	miRNA	KNOWN	None	43492	None	None	103137660	103137743	1	None	hsa-mir-5680
2	None	ENSG00000257207	ENST00000603767	nonsense_mediated_decay	KNOWN	None	None	747	248	111160511	111230652	-1	None	None
2	None	ENSG00000257207	ENST00000447537	protein_coding	KNOWN	None	None	747	248	111209481	111230393	-1	None	None
16	None	ENSG00000227827	ENST00000532739	unprocessed_pseudogene	KNOWN	None	None	None	None	16450081	16471364	1	None	None
1	SNX18P15	ENSG00000225015	ENST00000434482	processed_pseudogene	KNOWN	None	39623	None	None	142660017	142660749	-1	None	None
20	None	ENSG00000227964	ENST00000438154	lincRNA	KNOWN	None	None	None	None	50448336	50479451	-1	None	None
15	None	ENSG00000261229	ENST00000567415	lincRNA	KNOWN	None	None	None	None	80135889	80136646	-1	None	None
11	DCPS	ENSG00000110063	ENST00000263579	protein_coding	KNOWN	CCDS8473	29812	1014	337	126173647	126215644	1	None	HSPC015, HINT-5, HSL1
11	DCPS	ENSG00000110063	ENST00000530860	processed_transcript	KNOWN	None	29812	None	None	126201299	126215644	1	None	HSPC015, HINT-5, HSL1
11	DCPS	ENSG00000110063	ENST00000529149	retained_intron	KNOWN	None	29812	None	None	126206309	126215611	1	None	HSPC015, HINT-5, HSL1
2	MIR4777	ENSG00000263641	ENST00000583710	miRNA	KNOWN	None	41773	None	None	232227419	232227504	1	None	hsa-mir-4777
12	RNU6-399P	ENSG00000202034	ENST00000365164	snRNA	KNOWN	None	47362	None	None	62939362	62939459	-1	None	None
14	RNU6-864P	ENSG00000252065	ENST00000516256	snRNA	KNOWN	None	47827	None	None	29451509	29451616	-1	None	None
1	MIR3118-1	ENSG00000265715	ENST00000584066	miRNA	KNOWN	None	38265	None	None	142667289	142667363	1	None	hsa-mir-3118-1
1	MIR3118-3	ENSG00000265715	ENST00000584066	miRNA	KNOWN	None	38274	None	None	142667289	142667363	1	None	hsa-mir-3118-3
1	MIR3118-2	ENSG00000265715	ENST00000584066	miRNA	KNOWN	None	38324	None	None	142667289	142667363	1	None	hsa-mir-3118-2
GL000212.1	None	ENSG00000212857	ENST00000391545	protein_coding	KNOWN	None	None	1668	555	64252	65919	1	None	None
11	TUBB4BP4	ENSG00000254961	ENST00000527023	processed_pseudogene	KNOWN	None	42333	None	None	91682897	91683200	-1	None	None
5	None	ENSG00000224012	ENST00000520558	processed_pseudogene	KNOWN	None	None	None	None	163136216	163136520	-1	None	None
1	None	ENSG00000237249	ENST00000448158	processed_pseudogene	KNOWN	None	None	None	None	174861554	174862292	1	None	None
2	None	ENSG00000228898	ENST00000431831	unprocessed_pseudogene	KNOWN	None	None	None	None	117784113	117784600	1	None	None
12	C12orf23	ENSG00000151135	ENST00000548125	protein_coding	KNOWN	CCDS9110	28281	351	116	107349497	107367814	1	None	MGC17943
12	C12orf23	ENSG00000151135	ENST00000280756	protein_coding	KNOWN	CCDS9110	28281	351	116	107349500	107367762	1	None	MGC17943
12	C12orf23	ENSG00000151135	ENST00000547242	protein_coding	KNOWN	CCDS9110	28281	351	116	107349606	107365219	1	None	MGC17943
12	C12orf23	ENSG00000151135	ENST00000551489	protein_coding	PUTATIVE	None	28281	171	56	107349622	107365024	1	None	MGC17943
12	C12orf23	ENSG00000151135	ENST00000550344	protein_coding	KNOWN	CCDS9110	28281	351	116	107349645	107365354	1	None	MGC17943
12	C12orf23	ENSG00000151135	ENST00000547081	protein_coding	KNOWN	CCDS9110	28281	351	116	107350563	107365280	1	None	MGC17943
12	C12orf23	ENSG00000151135	ENST00000551813	protein_coding	KNOWN	CCDS9110	28281	351	116	107360713	107366119	1	None	MGC17943
12	C12orf23	ENSG00000151135	ENST00000548806	processed_transcript	PUTATIVE	None	28281	None	None	107365207	107372556	1	None	MGC17943
12	C12orf23	ENSG00000151135	ENST00000551237	processed_transcript	PUTATIVE	None	28281	None	None	107365249	107372535	1	None	MGC17943
2	None	ENSG00000238572	ENST00000458880	snoRNA	NOVEL	None	None	None	None	173020757	173020848	-1	None	None
GL000212.1	None	ENSG00000215719	ENST00000369958	processed_pseudogene	NOVEL	None	None	None	None	35322	36221	-1	None	None
2	None	ENSG00000224376	ENST00000415129	lincRNA	KNOWN	None	None	None	None	232253687	232259695	1	None	None
2	None	ENSG00000224376	ENST00000418050	retained_intron	KNOWN	None	None	None	None	232258390	232259702	1	None	None
2	None	ENSG00000224376	ENST00000454416	lincRNA	KNOWN	None	None	None	None	232258493	232259702	1	None	None
1	SNX18P16	ENSG00000233218	ENST00000417988	processed_pseudogene	KNOWN	None	39624	None	None	142688379	142688925	-1	None	None
12	None	ENSG00000256393	ENST00000536425	processed_pseudogene	NOVEL	None	None	None	None	93477374	93477451	-1	None	None
3	TTC21A	ENSG00000168026	ENST00000431162	protein_coding	KNOWN	CCDS46800	30761	3963	1320	39149195	39180391	1	None	STI2
3	TTC21A	ENSG00000168026	ENST00000479954	retained_intron	KNOWN	None	30761	None	None	39149208	39161148	1	None	STI2
3	TTC21A	ENSG00000168026	ENST00000430597	nonsense_mediated_decay	KNOWN	None	30761	3432	1143	39149220	39180350	1	None	STI2
3	TTC21A	ENSG00000168026	ENST00000493337	retained_intron	KNOWN	None	30761	None	None	39149221	39161122	1	None	STI2
3	TTC21A	ENSG00000168026	ENST00000431559	nonsense_mediated_decay	KNOWN	None	30761	333	110	39149221	39161459	1	None	STI2
3	TTC21A	ENSG00000168026	ENST00000490036	retained_intron	KNOWN	None	30761	None	None	39149223	39151866	1	None	STI2
3	TTC21A	ENSG00000168026	ENST00000459702	retained_intron	KNOWN	None	30761	None	None	39149234	39161160	1	None	STI2
3	TTC21A	ENSG00000168026	ENST00000425163	nonsense_mediated_decay	KNOWN	None	30761	387	128	39149297	39152509	1	None	STI2
3	TTC21A	ENSG00000168026	ENST00000440121	protein_coding	KNOWN	CCDS43068	30761	3819	1272	39149298	39180370	1	None	STI2
3	TTC21A	ENSG00000168026	ENST00000466875	processed_transcript	PUTATIVE	None	30761	None	None	39170302	39171651	1	None	STI2
3	TTC21A	ENSG00000168026	ENST00000471025	processed_transcript	PUTATIVE	None	30761	None	None	39170583	39171919	1	None	STI2
3	TTC21A	ENSG00000168026	ENST00000473587	retained_intron	KNOWN	None	30761	None	None	39172457	39176076	1	None	STI2
3	TTC21A	ENSG00000168026	ENST00000472866	processed_transcript	KNOWN	None	30761	None	None	39173012	39180390	1	None	STI2
3	TTC21A	ENSG00000168026	ENST00000493856	processed_transcript	KNOWN	None	30761	None	None	39174212	39180393	1	None	STI2
3	TTC21A	ENSG00000168026	ENST00000481734	processed_transcript	PUTATIVE	None	30761	None	None	39174466	39176351	1	None	STI2
3	TTC21A	ENSG00000168026	ENST00000465962	processed_transcript	PUTATIVE	None	30761	None	None	39177688	39178518	1	None	STI2
3	TTC21A	ENSG00000168026	ENST00000490245	processed_transcript	PUTATIVE	None	30761	None	None	39178223	39179284	1	None	STI2
3	TTC21A	ENSG00000168026	ENST00000460460	retained_intron	KNOWN	None	30761	None	None	39179755	39180394	1	None	STI2
3	TTC21A	ENSG00000168026	ENST00000301819	protein_coding	KNOWN	None	30761	3966	1321	39149152	39180394	1	None	STI2
X	None	ENSG00000258545	ENST00000553843	antisense	KNOWN	None	None	None	None	119170201	119280760	1	None	None
X	None	ENSG00000258545	ENST00000555831	antisense	KNOWN	None	None	None	None	119254460	119261010	1	None	None
X	None	ENSG00000258545	ENST00000557073	antisense	KNOWN	None	None	None	None	119254462	119255772	1	None	None
8	None	ENSG00000254492	ENST00000528550	processed_pseudogene	KNOWN	None	None	None	None	103166778	103166953	1	None	None
2	EIF2B4	ENSG00000115211	ENST00000347454	protein_coding	KNOWN	CCDS33164	3260	1572	523	27587219	27593353	-1	None	EIF2Bdelta, EIF-2B, DKFZP586J0119, EIF2B
2	EIF2B4	ENSG00000115211	ENST00000478311	retained_intron	KNOWN	None	3260	None	None	27587225	27587949	-1	None	EIF2Bdelta, EIF-2B, DKFZP586J0119, EIF2B
2	EIF2B4	ENSG00000115211	ENST00000405940	nonsense_mediated_decay	KNOWN	None	3260	708	235	27587244	27593182	-1	None	EIF2Bdelta, EIF-2B, DKFZP586J0119, EIF2B
2	EIF2B4	ENSG00000115211	ENST00000445933	protein_coding	NOVEL	CCDS46244	3260	1569	522	27587248	27593201	-1	None	EIF2Bdelta, EIF-2B, DKFZP586J0119, EIF2B
2	EIF2B4	ENSG00000115211	ENST00000451130	protein_coding	PUTATIVE	CCDS46245	3260	1632	543	27587266	27592880	-1	None	EIF2Bdelta, EIF-2B, DKFZP586J0119, EIF2B
2	EIF2B4	ENSG00000115211	ENST00000493344	protein_coding	PUTATIVE	None	3260	1635	544	27587266	27593193	-1	None	EIF2Bdelta, EIF-2B, DKFZP586J0119, EIF2B
2	EIF2B4	ENSG00000115211	ENST00000475582	retained_intron	KNOWN	None	3260	None	None	27588425	27593190	-1	None	EIF2Bdelta, EIF-2B, DKFZP586J0119, EIF2B
2	EIF2B4	ENSG00000115211	ENST00000417567	nonsense_mediated_decay	KNOWN	None	3260	584	193	27589630	27591594	-1	None	EIF2Bdelta, EIF-2B, DKFZP586J0119, EIF2B
2	EIF2B4	ENSG00000115211	ENST00000418146	nonsense_mediated_decay	KNOWN	None	3260	39	12	27591280	27593196	-1	None	EIF2Bdelta, EIF-2B, DKFZP586J0119, EIF2B
2	EIF2B4	ENSG00000115211	ENST00000462749	retained_intron	KNOWN	None	3260	None	None	27591537	27593193	-1	None	EIF2Bdelta, EIF-2B, DKFZP586J0119, EIF2B
2	None	ENSG00000232555	ENST00000445613	lincRNA	KNOWN	None	None	None	None	173180015	173188465	1	None	None
8	None	ENSG00000253924	ENST00000522228	lincRNA	KNOWN	None	None	None	None	53207015	53214502	1	None	None
GL000212.1	None	ENSG00000238993	ENST00000459239	miRNA	NOVEL	None	None	None	None	111481	111574	-1	None	None
12	None	ENSG00000257354	ENST00000550290	antisense	KNOWN	None	None	None	None	62996532	63007855	1	None	None
5	RNU6-168P	ENSG00000251998	ENST00000516189	snRNA	KNOWN	None	47131	None	None	163223071	163223171	-1	None	None
2	RNU7-190P	ENSG00000239185	ENST00000459241	snRNA	KNOWN	None	45724	None	None	117897291	117897351	-1	None	None
GL000231.1	None	ENSG00000265557	ENST00000581649	miRNA	NOVEL	None	None	None	None	21878	21950	-1	None	None
7	LSMEM1	ENSG00000181016	ENST00000439068	protein_coding	KNOWN	CCDS5756	22036	396	131	112120908	112130203	1	C7orf53	FLJ39575
7	LSMEM1	ENSG00000181016	ENST00000455302	nonsense_mediated_decay	KNOWN	None	22036	180	59	112120922	112130025	1	C7orf53	FLJ39575
7	LSMEM1	ENSG00000181016	ENST00000312849	protein_coding	KNOWN	CCDS5756	22036	396	131	112121046	112131117	1	C7orf53	FLJ39575
7	LSMEM1	ENSG00000181016	ENST00000486022	processed_transcript	PUTATIVE	None	22036	None	None	112126178	112130022	1	C7orf53	FLJ39575
7	LSMEM1	ENSG00000181016	ENST00000471030	processed_transcript	PUTATIVE	None	22036	None	None	112126896	112130136	1	C7orf53	FLJ39575
7	LSMEM1	ENSG00000181016	ENST00000429049	protein_coding	KNOWN	None	22036	180	59	112121046	112126459	1	C7orf53	FLJ39575
5	None	ENSG00000271679	ENST00000604911	processed_pseudogene	KNOWN	None	None	None	None	163314512	163314833	-1	None	None
1	UBR4	ENSG00000127481	ENST00000375254	protein_coding	KNOWN	CCDS189	30313	15552	5183	19401000	19536770	-1	ZUBR1	KIAA1307, KIAA0462, RBAF600
1	UBR4	ENSG00000127481	ENST00000375225	protein_coding	KNOWN	None	30313	777	258	19401004	19408734	-1	ZUBR1	KIAA1307, KIAA0462, RBAF600
1	UBR4	ENSG00000127481	ENST00000375224	protein_coding	KNOWN	None	30313	2673	890	19401008	19431410	-1	ZUBR1	KIAA1307, KIAA0462, RBAF600
1	UBR4	ENSG00000127481	ENST00000459947	retained_intron	KNOWN	None	30313	None	None	19401012	19407800	-1	ZUBR1	KIAA1307, KIAA0462, RBAF600
1	UBR4	ENSG00000127481	ENST00000486515	processed_transcript	KNOWN	None	30313	None	None	19401061	19404321	-1	ZUBR1	KIAA1307, KIAA0462, RBAF600
1	UBR4	ENSG00000127481	ENST00000492606	retained_intron	KNOWN	None	30313	None	None	19419227	19419934	-1	ZUBR1	KIAA1307, KIAA0462, RBAF600
1	UBR4	ENSG00000127481	ENST00000467272	processed_transcript	KNOWN	None	30313	None	None	19419855	19426620	-1	ZUBR1	KIAA1307, KIAA0462, RBAF600
1	UBR4	ENSG00000127481	ENST00000483922	retained_intron	KNOWN	None	30313	None	None	19420589	19422416	-1	ZUBR1	KIAA1307, KIAA0462, RBAF600
1	UBR4	ENSG00000127481	ENST00000494503	processed_transcript	KNOWN	None	30313	None	None	19433060	19437052	-1	ZUBR1	KIAA1307, KIAA0462, RBAF600
1	UBR4	ENSG00000127481	ENST00000466969	processed_transcript	KNOWN	None	30313	None	None	19436981	19439181	-1	ZUBR1	KIAA1307, KIAA0462, RBAF600
1	UBR4	ENSG00000127481	ENST00000375218	protein_coding	KNOWN	None	30313	639	212	19438134	19445343	-1	ZUBR1	KIAA1307, KIAA0462, RBAF600
1	UBR4	ENSG00000127481	ENST00000425413	protein_coding	KNOWN	None	30313	2954	983	19447694	19478194	-1	ZUBR1	KIAA1307, KIAA0462, RBAF600
1	UBR4	ENSG00000127481	ENST00000417040	protein_coding	KNOWN	None	30313	6175	2057	19447707	19494549	-1	ZUBR1	KIAA1307, KIAA0462, RBAF600
1	UBR4	ENSG00000127481	ENST00000475973	processed_transcript	KNOWN	None	30313	None	None	19450971	19454195	-1	ZUBR1	KIAA1307, KIAA0462, RBAF600
1	UBR4	ENSG00000127481	ENST00000465036	processed_transcript	KNOWN	None	30313	None	None	19471346	19472622	-1	ZUBR1	KIAA1307, KIAA0462, RBAF600
1	UBR4	ENSG00000127481	ENST00000419533	retained_intron	KNOWN	None	30313	None	None	19477418	19504239	-1	ZUBR1	KIAA1307, KIAA0462, RBAF600
1	UBR4	ENSG00000127481	ENST00000497018	processed_transcript	KNOWN	None	30313	None	None	19480333	19481533	-1	ZUBR1	KIAA1307, KIAA0462, RBAF600
1	UBR4	ENSG00000127481	ENST00000375267	protein_coding	KNOWN	None	30313	15615	5204	19401000	19536746	-1	ZUBR1	KIAA1307, KIAA0462, RBAF600
1	UBR4	ENSG00000127481	ENST00000375217	protein_coding	KNOWN	None	30313	15531	5176	19401000	19536746	-1	ZUBR1	KIAA1307, KIAA0462, RBAF600
1	UBR4	ENSG00000127481	ENST00000375226	protein_coding	KNOWN	None	30313	15480	5159	19401000	19536746	-1	ZUBR1	KIAA1307, KIAA0462, RBAF600
1	UBR4	ENSG00000127481	ENST00000543981	protein_coding	KNOWN	None	30313	2544	847	19401298	19428121	-1	ZUBR1	KIAA1307, KIAA0462, RBAF600
1	UBR4	ENSG00000127481	ENST00000429347	protein_coding	KNOWN	None	30313	2121	706	19401008	19426149	-1	ZUBR1	KIAA1307, KIAA0462, RBAF600
12	MIRLET7I	ENSG00000199179	ENST00000362309	miRNA	KNOWN	None	31486	None	None	62997466	62997550	1	MIRNLET7I	hsa-let-7i
2	None	ENSG00000226963	ENST00000441212	antisense	KNOWN	None	None	None	None	173292502	173293331	-1	None	None
15	None	ENSG00000259770	ENST00000557880	processed_pseudogene	KNOWN	None	None	None	None	80236840	80237920	1	None	None
1	RABGAP1L-IT1	ENSG00000223525	ENST00000414890	sense_intronic	KNOWN	None	41471	None	None	174866095	174867133	1	None	None
2	None	ENSG00000227291	ENST00000440211	processed_pseudogene	KNOWN	None	None	None	None	117938468	117939138	-1	None	None
15	None	ENSG00000259388	ENST00000558657	processed_pseudogene	KNOWN	None	None	None	None	50086443	50088294	1	None	None
5	None	ENSG00000253331	ENST00000521805	lincRNA	KNOWN	None	None	None	None	163546104	163661103	-1	None	None
11	RPL7AP57	ENSG00000242248	ENST00000497708	processed_pseudogene	KNOWN	None	36551	None	None	91894272	91895055	1	None	None
20	RNU6-347P	ENSG00000252467	ENST00000516658	snRNA	KNOWN	None	47310	None	None	50518830	50518934	1	None	None
1	None	ENSG00000235869	ENST00000441426	processed_pseudogene	KNOWN	None	None	None	None	174891244	174891577	-1	None	None
GL000212.1	None	ENSG00000215608	ENST00000400673	pseudogene	KNOWN	None	None	None	None	126294	128249	1	None	None
16	None	ENSG00000260367	ENST00000567209	antisense	KNOWN	None	None	None	None	28986294	28990145	-1	None	None
3	None	ENSG00000244214	ENST00000464514	lincRNA	KNOWN	None	None	None	None	167582637	167584402	1	None	None
1	ANKRD20A12P	ENSG00000242676	ENST00000416817	transcribed_unprocessed_pseudogene	KNOWN	None	43603	None	None	142697653	142729971	-1	None	None
1	ANKRD20A12P	ENSG00000242676	ENST00000595144	processed_transcript	KNOWN	None	43603	None	None	142714978	142729967	-1	None	None
3	IGSF11-AS1	ENSG00000239877	ENST00000477009	antisense	KNOWN	None	40777	None	None	118661920	118667088	1	None	None
2	None	ENSG00000232788	ENST00000458314	antisense	KNOWN	None	None	None	None	173328990	173330750	-1	None	None
2	None	ENSG00000232788	ENST00000417539	antisense	KNOWN	None	None	None	None	173329875	173330740	-1	None	None
2	ZBTB8OSP2	ENSG00000172799	ENST00000423890	processed_pseudogene	KNOWN	None	30326	None	None	232298634	232299137	-1	None	None
12	None	ENSG00000238475	ENST00000459527	snoRNA	NOVEL	None	None	None	None	63044955	63045058	1	None	None
2	None	ENSG00000238207	ENST00000457110	antisense	KNOWN	None	None	None	None	118515139	118561750	-1	None	None
3	PHC3	ENSG00000173889	ENST00000484068	protein_coding	KNOWN	None	15682	485	160	169804520	169820687	-1	None	EDR3, FLJ12967, FLJ12729, HPH3
3	PHC3	ENSG00000173889	ENST00000494943	protein_coding	KNOWN	None	15682	2952	983	169813009	169899521	-1	None	EDR3, FLJ12967, FLJ12729, HPH3
3	PHC3	ENSG00000173889	ENST00000495893	protein_coding	KNOWN	CCDS46952	15682	2988	995	169814679	169899535	-1	None	EDR3, FLJ12967, FLJ12729, HPH3
3	PHC3	ENSG00000173889	ENST00000467570	protein_coding	PUTATIVE	None	15682	2487	828	169820355	169899537	-1	None	EDR3, FLJ12967, FLJ12729, HPH3
3	PHC3	ENSG00000173889	ENST00000486042	protein_coding	PUTATIVE	None	15682	670	222	169834911	169846595	-1	None	EDR3, FLJ12967, FLJ12729, HPH3
3	PHC3	ENSG00000173889	ENST00000484931	protein_coding	NOVEL	None	15682	642	213	169847096	169899518	-1	None	EDR3, FLJ12967, FLJ12729, HPH3
3	PHC3	ENSG00000173889	ENST00000497171	retained_intron	KNOWN	None	15682	None	None	169847173	169854458	-1	None	EDR3, FLJ12967, FLJ12729, HPH3
3	PHC3	ENSG00000173889	ENST00000479467	nonsense_mediated_decay	KNOWN	None	15682	600	199	169854154	169899535	-1	None	EDR3, FLJ12967, FLJ12729, HPH3
3	PHC3	ENSG00000173889	ENST00000466189	protein_coding	NOVEL	None	15682	546	181	169854322	169899537	-1	None	EDR3, FLJ12967, FLJ12729, HPH3
3	PHC3	ENSG00000173889	ENST00000475729	protein_coding	KNOWN	None	15682	742	246	169854384	169899533	-1	None	EDR3, FLJ12967, FLJ12729, HPH3
3	PHC3	ENSG00000173889	ENST00000474275	protein_coding	KNOWN	None	15682	561	186	169865036	169899516	-1	None	EDR3, FLJ12967, FLJ12729, HPH3
3	PHC3	ENSG00000173889	ENST00000472330	nonsense_mediated_decay	KNOWN	None	15682	174	57	169866922	169899511	-1	None	EDR3, FLJ12967, FLJ12729, HPH3
3	PHC3	ENSG00000173889	ENST00000465896	protein_coding	PUTATIVE	None	15682	517	171	169868395	169899524	-1	None	EDR3, FLJ12967, FLJ12729, HPH3
3	PHC3	ENSG00000173889	ENST00000497658	protein_coding	KNOWN	None	15682	456	151	169887506	169899521	-1	None	EDR3, FLJ12967, FLJ12729, HPH3
3	PHC3	ENSG00000173889	ENST00000481639	protein_coding	KNOWN	None	15682	444	147	169888520	169899535	-1	None	EDR3, FLJ12967, FLJ12729, HPH3
3	PHC3	ENSG00000173889	ENST00000491258	retained_intron	KNOWN	None	15682	None	None	169888874	169899521	-1	None	EDR3, FLJ12967, FLJ12729, HPH3
3	PHC3	ENSG00000173889	ENST00000490723	retained_intron	KNOWN	None	15682	None	None	169889051	169890420	-1	None	EDR3, FLJ12967, FLJ12729, HPH3
17	RPL36AP48	ENSG00000213180	ENST00000485521	processed_pseudogene	KNOWN	None	36721	None	None	65220844	65221157	1	None	None
8	RPL34P17	ENSG00000240534	ENST00000472160	processed_pseudogene	KNOWN	None	36636	None	None	53225714	53226060	-1	None	None
3	TMEM39A	ENSG00000176142	ENST00000473684	nonsense_mediated_decay	KNOWN	None	25600	57	18	119148347	119155663	-1	None	FLJ10902
3	TMEM39A	ENSG00000176142	ENST00000438581	nonsense_mediated_decay	KNOWN	None	25600	441	146	119148347	119182444	-1	None	FLJ10902
3	TMEM39A	ENSG00000176142	ENST00000319172	protein_coding	KNOWN	CCDS2987	25600	1467	488	119148347	119182529	-1	None	FLJ10902
3	TMEM39A	ENSG00000176142	ENST00000468545	retained_intron	KNOWN	None	25600	None	None	119155436	119156786	-1	None	FLJ10902
3	TMEM39A	ENSG00000176142	ENST00000491685	protein_coding	PUTATIVE	None	25600	497	164	119155791	119182463	-1	None	FLJ10902
3	TMEM39A	ENSG00000176142	ENST00000486159	processed_transcript	KNOWN	None	25600	None	None	119156781	119182428	-1	None	FLJ10902
3	TMEM39A	ENSG00000176142	ENST00000486235	retained_intron	KNOWN	None	25600	None	None	119165489	119180855	-1	None	FLJ10902
3	TMEM39A	ENSG00000176142	ENST00000468676	protein_coding	KNOWN	None	25600	575	190	119165865	119182512	-1	None	FLJ10902
3	TMEM39A	ENSG00000176142	ENST00000490099	nonsense_mediated_decay	KNOWN	None	25600	141	46	119165866	119182458	-1	None	FLJ10902
3	TMEM39A	ENSG00000176142	ENST00000497993	protein_coding	KNOWN	None	25600	420	139	119171294	119187677	-1	None	FLJ10902
3	TMEM39A	ENSG00000176142	ENST00000482162	processed_transcript	KNOWN	None	25600	None	None	119171356	119182461	-1	None	FLJ10902
3	TMEM39A	ENSG00000176142	ENST00000461654	protein_coding	KNOWN	None	25600	336	111	119176865	119182493	-1	None	FLJ10902
8	None	ENSG00000246263	ENST00000520820	antisense	KNOWN	None	None	None	None	103251622	103264402	1	None	None
8	None	ENSG00000246263	ENST00000499653	antisense	KNOWN	None	None	None	None	103255837	103265561	1	None	None
5	None	ENSG00000253538	ENST00000522426	lincRNA	KNOWN	None	None	None	None	163636637	163638898	1	None	None
11	NDUFB11P1	ENSG00000235547	ENST00000455818	processed_pseudogene	KNOWN	None	33980	None	None	92069198	92069662	-1	NDUFB11P	None
3	KLHDC8B	ENSG00000185909	ENST00000332780	protein_coding	KNOWN	CCDS2791	28557	1065	354	49209044	49213917	1	None	MGC35097
3	KLHDC8B	ENSG00000185909	ENST00000459846	processed_transcript	KNOWN	None	28557	None	None	49209055	49212600	1	None	MGC35097
3	KLHDC8B	ENSG00000185909	ENST00000476495	processed_transcript	KNOWN	None	28557	None	None	49210146	49212399	1	None	MGC35097
3	KLHDC8B	ENSG00000185909	ENST00000471811	retained_intron	KNOWN	None	28557	None	None	49211621	49212619	1	None	MGC35097
3	KLHDC8B	ENSG00000185909	ENST00000462582	processed_transcript	KNOWN	None	28557	None	None	49212366	49213835	1	None	MGC35097
14	None	ENSG00000257522	ENST00000551040	antisense	KNOWN	None	None	None	None	29734031	29847862	-1	None	None
14	None	ENSG00000257522	ENST00000550975	lincRNA	KNOWN	None	None	None	None	29734050	29847766	-1	None	None
14	None	ENSG00000257522	ENST00000551110	lincRNA	KNOWN	None	None	None	None	29736798	29850501	-1	None	None
14	None	ENSG00000257522	ENST00000548665	lincRNA	KNOWN	None	None	None	None	29743929	29823008	-1	None	None
14	None	ENSG00000257522	ENST00000548306	lincRNA	KNOWN	None	None	None	None	29743959	29850496	-1	None	None
2	None	ENSG00000230047	ENST00000417000	processed_pseudogene	KNOWN	None	None	None	None	232301812	232302132	-1	None	None
20	None	ENSG00000269846	ENST00000598590	protein_coding	KNOWN	None	None	372	123	35724188	35725581	1	None	None
16	None	ENSG00000261552	ENST00000561471	antisense	KNOWN	None	None	None	None	29000461	29002099	-1	None	None
2	IGKV3D-11	ENSG00000211632	ENST00000390277	IG_V_gene	KNOWN	None	5823	345	114	90211643	90212253	1	None	None
HG7_PATCH	None	ENSG00000260491	ENST00000568039	unitary_pseudogene	KNOWN	None	None	None	None	141965650	141971157	-1	None	None
HG7_PATCH	None	ENSG00000260491	ENST00000565429	processed_transcript	KNOWN	None	None	None	None	141968101	141972054	-1	None	None
2	None	ENSG00000236255	ENST00000420330	lincRNA	KNOWN	None	None	None	None	118591513	118599234	1	None	None
2	None	ENSG00000236255	ENST00000439955	lincRNA	KNOWN	None	None	None	None	118593926	118595780	1	None	None
2	None	ENSG00000236255	ENST00000445332	lincRNA	KNOWN	None	None	None	None	118595320	118596965	1	None	None
20	RNU7-6P	ENSG00000252654	ENST00000516845	snRNA	KNOWN	None	34102	None	None	50521508	50521569	1	None	U7.6
14	None	ENSG00000258699	ENST00000556926	antisense	KNOWN	None	None	None	None	89821404	89822915	1	None	None
16	SLC5A11	ENSG00000158865	ENST00000347898	protein_coding	KNOWN	CCDS10625	23091	2028	675	24857162	24922949	1	None	KST1, SMIT2, SGLT6
16	SLC5A11	ENSG00000158865	ENST00000488922	nonsense_mediated_decay	KNOWN	None	23091	189	62	24857184	24922947	1	None	KST1, SMIT2, SGLT6
16	SLC5A11	ENSG00000158865	ENST00000564125	retained_intron	KNOWN	None	23091	None	None	24857279	24858074	1	None	KST1, SMIT2, SGLT6
16	SLC5A11	ENSG00000158865	ENST00000565769	protein_coding	PUTATIVE	CCDS58439	23091	1836	611	24857310	24922944	1	None	KST1, SMIT2, SGLT6
16	SLC5A11	ENSG00000158865	ENST00000569520	protein_coding	KNOWN	None	23091	273	90	24857319	24881287	1	None	KST1, SMIT2, SGLT6
16	SLC5A11	ENSG00000158865	ENST00000568579	protein_coding	NOVEL	CCDS58438	23091	1818	605	24857552	24922943	1	None	KST1, SMIT2, SGLT6
16	SLC5A11	ENSG00000158865	ENST00000567758	protein_coding	NOVEL	CCDS58437	23091	1923	640	24857552	24922945	1	None	KST1, SMIT2, SGLT6
16	SLC5A11	ENSG00000158865	ENST00000569071	protein_coding	PUTATIVE	CCDS58440	23091	1560	519	24857552	24922948	1	None	KST1, SMIT2, SGLT6
16	SLC5A11	ENSG00000158865	ENST00000565586	retained_intron	KNOWN	None	23091	None	None	24888425	24902323	1	None	KST1, SMIT2, SGLT6
16	SLC5A11	ENSG00000158865	ENST00000424767	protein_coding	KNOWN	CCDS58437	23091	1923	640	24857316	24922945	1	None	KST1, SMIT2, SGLT6
16	SLC5A11	ENSG00000158865	ENST00000545376	protein_coding	KNOWN	CCDS58438	23091	1818	605	24857316	24922943	1	None	KST1, SMIT2, SGLT6
16	SLC5A11	ENSG00000158865	ENST00000449109	protein_coding	KNOWN	CCDS58440	23091	1560	519	24857314	24922943	1	None	KST1, SMIT2, SGLT6
16	SLC5A11	ENSG00000158865	ENST00000539472	protein_coding	KNOWN	CCDS58439	23091	1836	611	24857608	24922899	1	None	KST1, SMIT2, SGLT6
2	SNORA75	ENSG00000206885	ENST00000384158	snoRNA	KNOWN	None	32661	None	None	232320511	232320647	-1	None	U23
12	RPL32P26	ENSG00000241941	ENST00000480482	processed_pseudogene	KNOWN	None	36027	None	None	63052603	63053005	1	None	None
19	ZNF324B	ENSG00000249471	ENST00000336614	protein_coding	KNOWN	CCDS33138	33107	1635	544	58962971	58969200	1	None	FLJ45850
19	ZNF324B	ENSG00000249471	ENST00000545523	protein_coding	KNOWN	CCDS33138	33107	1635	544	58962978	58968499	1	None	FLJ45850
19	ZNF324B	ENSG00000249471	ENST00000599194	protein_coding	KNOWN	None	33107	415	137	58962986	58966726	1	None	FLJ45850
19	ZNF324B	ENSG00000249471	ENST00000598244	protein_coding	KNOWN	None	33107	238	78	58962992	58965711	1	None	FLJ45850
19	ZNF324B	ENSG00000249471	ENST00000599193	protein_coding	KNOWN	None	33107	443	146	58962992	58966754	1	None	FLJ45850
19	ZNF324B	ENSG00000249471	ENST00000594214	protein_coding	PUTATIVE	None	33107	393	130	58963014	58965973	1	None	FLJ45850
19	ZNF324B	ENSG00000249471	ENST00000391696	protein_coding	KNOWN	None	33107	1605	534	58963014	58969179	1	None	FLJ45850
15	None	ENSG00000271364	ENST00000603605	processed_pseudogene	KNOWN	None	None	None	None	80276493	80278066	1	None	None
2	None	ENSG00000225205	ENST00000442417	antisense	KNOWN	None	None	None	None	173345568	173421257	-1	None	None
2	None	ENSG00000225205	ENST00000450443	antisense	KNOWN	None	None	None	None	173368167	173421324	-1	None	None
2	None	ENSG00000225205	ENST00000416080	antisense	KNOWN	None	None	None	None	173373757	173377238	-1	None	None
2	None	ENSG00000225205	ENST00000444919	antisense	KNOWN	None	None	None	None	173417343	173421136	-1	None	None
2	None	ENSG00000225205	ENST00000436922	antisense	KNOWN	None	None	None	None	173420154	173421135	-1	None	None
10	BTAF1	ENSG00000095564	ENST00000265990	protein_coding	KNOWN	CCDS7419	17307	5550	1849	93683526	93790082	1	None	TAFII170, TAF172, MOT1, TAF-172, TAF(II)170
10	BTAF1	ENSG00000095564	ENST00000471217	processed_transcript	KNOWN	None	17307	None	None	93716378	93749152	1	None	TAFII170, TAF172, MOT1, TAF-172, TAF(II)170
10	BTAF1	ENSG00000095564	ENST00000476401	processed_transcript	KNOWN	None	17307	None	None	93740277	93742172	1	None	TAFII170, TAF172, MOT1, TAF-172, TAF(II)170
10	BTAF1	ENSG00000095564	ENST00000544642	protein_coding	KNOWN	None	17307	2034	677	93756147	93788887	1	None	TAFII170, TAF172, MOT1, TAF-172, TAF(II)170
2	IGKV1D-42	ENSG00000211633	ENST00000390278	IG_V_gene	KNOWN	None	5757	351	116	90229045	90229531	1	None	None
1	None	ENSG00000229531	ENST00000452442	antisense	KNOWN	None	None	None	None	174904084	174923398	-1	None	None
1	None	ENSG00000229531	ENST00000448686	antisense	KNOWN	None	None	None	None	174914660	174918013	-1	None	None
5	None	ENSG00000270021	ENST00000602502	antisense	KNOWN	None	None	None	None	134734970	134736986	1	None	None
11	PGAM1P9	ENSG00000249255	ENST00000503887	processed_pseudogene	KNOWN	None	42456	None	None	92099662	92100416	-1	None	None
1	CD48	ENSG00000117091	ENST00000368046	protein_coding	KNOWN	CCDS1208	1683	732	243	160648536	160681641	-1	BCM1	BLAST, mCD48, hCD48, SLAMF2
1	CD48	ENSG00000117091	ENST00000368045	protein_coding	KNOWN	None	1683	510	169	160653309	160681593	-1	BCM1	BLAST, mCD48, hCD48, SLAMF2
12	RNA5SP378	ENSG00000200516	ENST00000363646	rRNA	KNOWN	None	43278	None	None	132285860	132285979	-1	RN5S378	None
3	B4GALT4-AS1	ENSG00000240254	ENST00000470790	antisense	KNOWN	None	40090	None	None	118945333	119009513	1	None	None
18	DLGAP1	ENSG00000170579	ENST00000400147	protein_coding	KNOWN	CCDS42406	2905	2028	675	3496030	3845359	-1	None	GKAP, SAPAP1, DAP-1
18	DLGAP1	ENSG00000170579	ENST00000400149	protein_coding	NOVEL	None	2905	2004	667	3496030	3874274	-1	None	GKAP, SAPAP1, DAP-1
18	DLGAP1	ENSG00000170579	ENST00000400155	protein_coding	NOVEL	CCDS56051	2905	2052	683	3496030	3874280	-1	None	GKAP, SAPAP1, DAP-1
18	DLGAP1	ENSG00000170579	ENST00000400150	protein_coding	NOVEL	None	2905	2082	693	3496030	3874325	-1	None	GKAP, SAPAP1, DAP-1
18	DLGAP1	ENSG00000170579	ENST00000315677	protein_coding	KNOWN	CCDS11836	2905	2934	977	3496030	4455335	-1	None	GKAP, SAPAP1, DAP-1
18	DLGAP1	ENSG00000170579	ENST00000534970	protein_coding	KNOWN	CCDS56052	2905	1986	661	3498865	3874767	-1	None	GKAP, SAPAP1, DAP-1
18	DLGAP1	ENSG00000170579	ENST00000539435	protein_coding	KNOWN	CCDS56050	2905	2058	685	3498915	3845358	-1	None	GKAP, SAPAP1, DAP-1
18	DLGAP1	ENSG00000170579	ENST00000581699	protein_coding	KNOWN	CCDS56051	2905	2052	683	3499002	3874253	-1	None	GKAP, SAPAP1, DAP-1
18	DLGAP1	ENSG00000170579	ENST00000400145	protein_coding	KNOWN	CCDS56049	2905	1884	627	3502135	3845296	-1	None	GKAP, SAPAP1, DAP-1
18	DLGAP1	ENSG00000170579	ENST00000581527	protein_coding	KNOWN	CCDS56053	2905	2790	929	3502217	4455266	-1	None	GKAP, SAPAP1, DAP-1
18	DLGAP1	ENSG00000170579	ENST00000485480	processed_transcript	PUTATIVE	None	2905	None	None	3679844	3742515	-1	None	GKAP, SAPAP1, DAP-1
18	DLGAP1	ENSG00000170579	ENST00000498188	processed_transcript	KNOWN	None	2905	None	None	3708342	3880076	-1	None	GKAP, SAPAP1, DAP-1
18	DLGAP1	ENSG00000170579	ENST00000478161	processed_transcript	KNOWN	None	2905	None	None	3721512	3874737	-1	None	GKAP, SAPAP1, DAP-1
18	DLGAP1	ENSG00000170579	ENST00000486430	processed_transcript	PUTATIVE	None	2905	None	None	3727709	3729378	-1	None	GKAP, SAPAP1, DAP-1
18	DLGAP1	ENSG00000170579	ENST00000484845	processed_transcript	KNOWN	None	2905	None	None	3774205	3845327	-1	None	GKAP, SAPAP1, DAP-1
18	DLGAP1	ENSG00000170579	ENST00000581550	processed_transcript	KNOWN	None	2905	None	None	3983108	4248697	-1	None	GKAP, SAPAP1, DAP-1
18	DLGAP1	ENSG00000170579	ENST00000582051	processed_transcript	KNOWN	None	2905	None	None	3986417	4005259	-1	None	GKAP, SAPAP1, DAP-1
18	DLGAP1	ENSG00000170579	ENST00000578250	processed_transcript	KNOWN	None	2905	None	None	4005025	4151287	-1	None	GKAP, SAPAP1, DAP-1
18	DLGAP1	ENSG00000170579	ENST00000577430	processed_transcript	KNOWN	None	2905	None	None	4005116	4248719	-1	None	GKAP, SAPAP1, DAP-1
18	DLGAP1	ENSG00000170579	ENST00000579652	processed_transcript	KNOWN	None	2905	None	None	4430577	4455022	-1	None	GKAP, SAPAP1, DAP-1
18	DLGAP1	ENSG00000170579	ENST00000584874	protein_coding	KNOWN	CCDS11836	2905	2934	977	3498837	3880135	-1	None	GKAP, SAPAP1, DAP-1
18	DLGAP1	ENSG00000170579	ENST00000515196	protein_coding	KNOWN	CCDS56053	2905	2790	929	3502217	4151290	-1	None	GKAP, SAPAP1, DAP-1
8	None	ENSG00000253328	ENST00000518920	unprocessed_pseudogene	KNOWN	None	None	None	None	103254268	103254847	-1	None	None
20	RN7SL603P	ENSG00000263659	ENST00000582949	misc_RNA	KNOWN	None	46619	None	None	50557083	50557372	-1	None	None
12	None	ENSG00000257746	ENST00000551928	lincRNA	KNOWN	None	None	None	None	93484298	93501376	1	None	None
2	LIMS3L	ENSG00000256671	ENST00000413601	protein_coding	NOVEL	CCDS54387	39941	354	117	111222628	111230393	-1	None	None
2	LIMS3L	ENSG00000256671	ENST00000480598	retained_intron	KNOWN	None	39941	None	None	111225491	111230511	-1	None	None
2	IGKV1D-43	ENSG00000242580	ENST00000468879	IG_V_gene	KNOWN	None	5758	351	116	90248739	90249395	1	None	None
2	HTR5BP	ENSG00000125631	ENST00000430851	transcribed_unprocessed_pseudogene	KNOWN	None	16291	None	None	118617003	118660914	1	GPR134, HTR5B	5-HT5B
2	HTR5BP	ENSG00000125631	ENST00000434708	processed_transcript	KNOWN	None	16291	None	None	118617909	118692518	1	GPR134, HTR5B	5-HT5B
17	ABCA5	ENSG00000154265	ENST00000392676	protein_coding	KNOWN	CCDS11685	35	4929	1642	67240452	67323242	-1	None	EST90625
17	ABCA5	ENSG00000154265	ENST00000588877	protein_coding	KNOWN	CCDS11685	35	4929	1642	67243092	67311566	-1	None	EST90625
17	ABCA5	ENSG00000154265	ENST00000591234	nonsense_mediated_decay	KNOWN	None	35	192	63	67243286	67282402	-1	None	EST90625
17	ABCA5	ENSG00000154265	ENST00000586995	nonsense_mediated_decay	KNOWN	None	35	1296	431	67243487	67298990	-1	None	EST90625
17	ABCA5	ENSG00000154265	ENST00000586601	retained_intron	KNOWN	None	35	None	None	67243517	67245282	-1	None	EST90625
17	ABCA5	ENSG00000154265	ENST00000586811	protein_coding	PUTATIVE	None	35	1721	572	67244401	67265015	-1	None	EST90625
17	ABCA5	ENSG00000154265	ENST00000588106	retained_intron	KNOWN	None	35	None	None	67245429	67247769	-1	None	EST90625
17	ABCA5	ENSG00000154265	ENST00000593153	protein_coding	KNOWN	None	35	2752	916	67270112	67323323	-1	None	EST90625
17	ABCA5	ENSG00000154265	ENST00000589975	protein_coding	PUTATIVE	None	35	577	191	67300235	67305461	-1	None	EST90625
17	ABCA5	ENSG00000154265	ENST00000593253	non_stop_decay	KNOWN	None	35	750	249	67302904	67311501	-1	None	EST90625
17	ABCA5	ENSG00000154265	ENST00000587607	non_stop_decay	KNOWN	None	35	750	249	67302904	67323231	-1	None	EST90625
17	ABCA5	ENSG00000154265	ENST00000592568	protein_coding	KNOWN	None	35	382	126	67305490	67323238	-1	None	EST90625
17	ABCA5	ENSG00000154265	ENST00000588665	protein_coding	KNOWN	None	35	114	37	67309426	67323385	-1	None	EST90625
17	ABCA5	ENSG00000154265	ENST00000589609	processed_transcript	KNOWN	None	35	None	None	67313041	67323252	-1	None	EST90625
17	ABCA5	ENSG00000154265	ENST00000392677	protein_coding	KNOWN	None	35	4932	1643	67240576	67323323	-1	None	EST90625
12	GAPDHP44	ENSG00000213352	ENST00000513513	processed_pseudogene	KNOWN	None	37801	None	None	63149007	63150013	1	None	None
6	None	ENSG00000231113	ENST00000450671	antisense	KNOWN	None	None	None	None	42908102	42911708	1	None	None
6	None	ENSG00000231113	ENST00000607218	antisense	KNOWN	None	None	None	None	42911478	42916098	1	None	None
19	ZNF44	ENSG00000197857	ENST00000600003	nonsense_mediated_decay	KNOWN	None	13110	465	154	12335501	12405637	-1	ZNF58, ZNF55	KOX7, ZNF504
19	ZNF44	ENSG00000197857	ENST00000597563	processed_transcript	KNOWN	None	13110	None	None	12336974	12348404	-1	ZNF58, ZNF55	KOX7, ZNF504
19	ZNF44	ENSG00000197857	ENST00000393337	nonsense_mediated_decay	KNOWN	None	13110	1914	637	12358458	12405609	-1	ZNF58, ZNF55	KOX7, ZNF504
19	ZNF44	ENSG00000197857	ENST00000397742	nonsense_mediated_decay	KNOWN	None	13110	1770	589	12359218	12405649	-1	ZNF58, ZNF55	KOX7, ZNF504
19	ZNF44	ENSG00000197857	ENST00000356109	protein_coding	NOVEL	CCDS54223	13110	1992	663	12382627	12405628	-1	ZNF58, ZNF55	KOX7, ZNF504
19	ZNF44	ENSG00000197857	ENST00000355684	protein_coding	KNOWN	CCDS45988	13110	1848	615	12383144	12405702	-1	ZNF58, ZNF55	KOX7, ZNF504
19	ZNF44	ENSG00000197857	ENST00000354656	nonsense_mediated_decay	KNOWN	None	13110	195	64	12385794	12405666	-1	ZNF58, ZNF55	KOX7, ZNF504
19	ZNF44	ENSG00000197857	ENST00000483826	retained_intron	KNOWN	None	13110	None	None	12401843	12405695	-1	ZNF58, ZNF55	KOX7, ZNF504
19	ZNF44	ENSG00000197857	ENST00000426973	protein_coding	KNOWN	None	13110	1623	540	12358092	12361618	-1	ZNF58, ZNF55	KOX7, ZNF504
7	CHN2	ENSG00000106069	ENST00000582692	processed_transcript	PUTATIVE	None	1944	None	None	29161956	29166195	1	None	ARHGAP3, RhoGAP3
7	CHN2	ENSG00000106069	ENST00000578605	processed_transcript	KNOWN	None	1944	None	None	29162069	29185839	1	None	ARHGAP3, RhoGAP3
7	CHN2	ENSG00000106069	ENST00000606897	processed_transcript	KNOWN	None	1944	None	None	29164598	29167766	1	None	ARHGAP3, RhoGAP3
7	CHN2	ENSG00000106069	ENST00000443025	processed_transcript	PUTATIVE	None	1944	None	None	29164649	29167788	1	None	ARHGAP3, RhoGAP3
7	CHN2	ENSG00000106069	ENST00000588769	processed_transcript	KNOWN	None	1944	None	None	29164671	29167783	1	None	ARHGAP3, RhoGAP3
7	CHN2	ENSG00000106069	ENST00000423511	protein_coding	PUTATIVE	None	1944	112	36	29167637	29186311	1	None	ARHGAP3, RhoGAP3
7	CHN2	ENSG00000106069	ENST00000439384	protein_coding	PUTATIVE	None	1944	563	186	29186185	29440206	1	None	ARHGAP3, RhoGAP3
7	CHN2	ENSG00000106069	ENST00000461824	processed_transcript	KNOWN	None	1944	None	None	29186205	29188273	1	None	ARHGAP3, RhoGAP3
7	CHN2	ENSG00000106069	ENST00000474070	nonsense_mediated_decay	KNOWN	None	1944	410	135	29186213	29519972	1	None	ARHGAP3, RhoGAP3
7	CHN2	ENSG00000106069	ENST00000470261	retained_intron	KNOWN	None	1944	None	None	29186248	29186920	1	None	ARHGAP3, RhoGAP3
7	CHN2	ENSG00000106069	ENST00000222792	protein_coding	KNOWN	CCDS5420	1944	1407	468	29234028	29553944	1	None	ARHGAP3, RhoGAP3
7	CHN2	ENSG00000106069	ENST00000409350	protein_coding	KNOWN	None	1944	522	173	29234541	29440351	1	None	ARHGAP3, RhoGAP3
7	CHN2	ENSG00000106069	ENST00000409964	processed_transcript	KNOWN	None	1944	None	None	29237541	29440216	1	None	ARHGAP3, RhoGAP3
7	CHN2	ENSG00000106069	ENST00000409922	processed_transcript	KNOWN	None	1944	None	None	29328497	29440397	1	None	ARHGAP3, RhoGAP3
7	CHN2	ENSG00000106069	ENST00000412536	processed_transcript	KNOWN	None	1944	None	None	29374121	29440312	1	None	ARHGAP3, RhoGAP3
7	CHN2	ENSG00000106069	ENST00000478128	processed_transcript	KNOWN	None	1944	None	None	29374124	29440233	1	None	ARHGAP3, RhoGAP3
7	CHN2	ENSG00000106069	ENST00000482820	processed_transcript	KNOWN	None	1944	None	None	29374134	29438101	1	None	ARHGAP3, RhoGAP3
7	CHN2	ENSG00000106069	ENST00000483081	processed_transcript	KNOWN	None	1944	None	None	29375323	29407587	1	None	ARHGAP3, RhoGAP3
7	CHN2	ENSG00000106069	ENST00000491856	retained_intron	KNOWN	None	1944	None	None	29436264	29440897	1	None	ARHGAP3, RhoGAP3
7	CHN2	ENSG00000106069	ENST00000446446	protein_coding	PUTATIVE	None	1944	542	179	29440316	29546919	1	None	ARHGAP3, RhoGAP3
7	CHN2	ENSG00000106069	ENST00000412711	retained_intron	KNOWN	None	1944	None	None	29519328	29553944	1	None	ARHGAP3, RhoGAP3
7	CHN2	ENSG00000106069	ENST00000467441	processed_transcript	KNOWN	None	1944	None	None	29519562	29546917	1	None	ARHGAP3, RhoGAP3
7	CHN2	ENSG00000106069	ENST00000493906	processed_transcript	KNOWN	None	1944	None	None	29519627	29544436	1	None	ARHGAP3, RhoGAP3
7	CHN2	ENSG00000106069	ENST00000410098	processed_transcript	KNOWN	None	1944	None	None	29523432	29552356	1	None	ARHGAP3, RhoGAP3
7	CHN2	ENSG00000106069	ENST00000433720	protein_coding	PUTATIVE	None	1944	275	90	29544411	29549297	1	None	ARHGAP3, RhoGAP3
7	CHN2	ENSG00000106069	ENST00000539406	protein_coding	KNOWN	None	1944	1632	543	29186200	29552351	1	None	ARHGAP3, RhoGAP3
7	CHN2	ENSG00000106069	ENST00000435288	protein_coding	KNOWN	None	1944	579	192	29234121	29553943	1	None	ARHGAP3, RhoGAP3
7	CHN2	ENSG00000106069	ENST00000495789	protein_coding	KNOWN	None	1944	1446	481	29234541	29552404	1	None	ARHGAP3, RhoGAP3
7	CHN2	ENSG00000106069	ENST00000539389	protein_coding	KNOWN	None	1944	975	324	29234558	29552351	1	None	ARHGAP3, RhoGAP3
7	CHN2	ENSG00000106069	ENST00000546235	protein_coding	KNOWN	None	1944	1362	453	29237357	29552603	1	None	ARHGAP3, RhoGAP3
7	CHN2	ENSG00000106069	ENST00000409041	protein_coding	KNOWN	CCDS47566	1944	999	332	29519486	29553943	1	None	ARHGAP3, RhoGAP3
7	CHN2	ENSG00000106069	ENST00000424025	protein_coding	KNOWN	None	1944	864	287	29519669	29552624	1	None	ARHGAP3, RhoGAP3
7	CHN2	ENSG00000106069	ENST00000439711	protein_coding	KNOWN	None	1944	861	286	29519727	29552351	1	None	ARHGAP3, RhoGAP3
7	CHN2	ENSG00000106069	ENST00000421775	protein_coding	KNOWN	None	1944	825	274	29519727	29552351	1	None	ARHGAP3, RhoGAP3
6	KCTD20	ENSG00000112078	ENST00000373731	protein_coding	KNOWN	CCDS4821	21052	1260	419	36410544	36458920	1	C6orf69	dJ108K11.3, MGC14254
6	KCTD20	ENSG00000112078	ENST00000483557	protein_coding	KNOWN	None	21052	329	108	36410784	36442734	1	C6orf69	dJ108K11.3, MGC14254
6	KCTD20	ENSG00000112078	ENST00000443316	processed_transcript	KNOWN	None	21052	None	None	36410789	36411500	1	C6orf69	dJ108K11.3, MGC14254
6	KCTD20	ENSG00000112078	ENST00000498267	protein_coding	KNOWN	None	21052	293	96	36410794	36442698	1	C6orf69	dJ108K11.3, MGC14254
6	KCTD20	ENSG00000112078	ENST00000474988	processed_transcript	KNOWN	None	21052	None	None	36410794	36455873	1	C6orf69	dJ108K11.3, MGC14254
6	KCTD20	ENSG00000112078	ENST00000481911	nonsense_mediated_decay	KNOWN	None	21052	279	92	36410798	36455444	1	C6orf69	dJ108K11.3, MGC14254
6	KCTD20	ENSG00000112078	ENST00000449081	protein_coding	KNOWN	None	21052	762	253	36410805	36458154	1	C6orf69	dJ108K11.3, MGC14254
6	KCTD20	ENSG00000112078	ENST00000265344	nonsense_mediated_decay	KNOWN	None	21052	384	127	36410813	36455183	1	C6orf69	dJ108K11.3, MGC14254
6	KCTD20	ENSG00000112078	ENST00000460983	protein_coding	KNOWN	None	21052	261	86	36410815	36442666	1	C6orf69	dJ108K11.3, MGC14254
6	KCTD20	ENSG00000112078	ENST00000536244	protein_coding	KNOWN	None	21052	825	274	36410813	36455183	1	C6orf69	dJ108K11.3, MGC14254
6	KCTD20	ENSG00000112078	ENST00000544295	protein_coding	KNOWN	None	21052	522	173	36410798	36455444	1	C6orf69	dJ108K11.3, MGC14254
15	None	ENSG00000180725	ENST00000318816	pseudogene	NOVEL	None	None	None	None	80282247	80282948	1	None	None
1	None	ENSG00000230446	ENST00000444462	unprocessed_pseudogene	KNOWN	None	None	None	None	142790233	142790520	-1	None	None
20	ERP29P1	ENSG00000233347	ENST00000442902	processed_pseudogene	KNOWN	None	24625	None	None	50726883	50727588	-1	None	ERP28P
1	RNU6-307P	ENSG00000252552	ENST00000516743	snRNA	KNOWN	None	47270	None	None	174965661	174965766	1	None	None
12	RNU6-1017P	ENSG00000200483	ENST00000363613	snRNA	KNOWN	None	47980	None	None	132299808	132299913	-1	None	None
2	IGKV1D-8	ENSG00000239819	ENST00000471857	IG_V_gene	KNOWN	None	5759	351	116	90259593	90260248	1	None	None
X	None	ENSG00000228139	ENST00000422226	lincRNA	KNOWN	None	None	None	None	119251552	119253610	-1	None	None
5	None	ENSG00000241956	ENST00000517508	antisense	KNOWN	None	None	None	None	163723702	164192411	1	None	None
5	None	ENSG00000241956	ENST00000523648	antisense	KNOWN	None	None	None	None	163723924	163920118	1	None	None
5	None	ENSG00000241956	ENST00000524297	antisense	KNOWN	None	None	None	None	163723975	163970368	1	None	None
5	None	ENSG00000241956	ENST00000519570	antisense	KNOWN	None	None	None	None	163723984	164598649	1	None	None
5	None	ENSG00000241956	ENST00000523704	antisense	KNOWN	None	None	None	None	163723990	164149813	1	None	None
5	None	ENSG00000241956	ENST00000522686	antisense	KNOWN	None	None	None	None	163723992	163981931	1	None	None
5	None	ENSG00000241956	ENST00000522303	antisense	KNOWN	None	None	None	None	163724068	164598619	1	None	None
5	None	ENSG00000241956	ENST00000522646	antisense	KNOWN	None	None	None	None	163724135	164598619	1	None	None
5	None	ENSG00000241956	ENST00000486913	antisense	KNOWN	None	None	None	None	163781146	164029440	1	None	None
5	None	ENSG00000241956	ENST00000519329	antisense	KNOWN	None	None	None	None	163781159	163914148	1	None	None
5	None	ENSG00000241956	ENST00000519327	antisense	KNOWN	None	None	None	None	163894296	163969113	1	None	None
5	None	ENSG00000241956	ENST00000519901	antisense	KNOWN	None	None	None	None	163894967	163895651	1	None	None
5	None	ENSG00000241956	ENST00000519904	antisense	KNOWN	None	None	None	None	163895872	163914043	1	None	None
5	None	ENSG00000241956	ENST00000522762	antisense	KNOWN	None	None	None	None	163897285	163969990	1	None	None
5	None	ENSG00000241956	ENST00000519750	antisense	KNOWN	None	None	None	None	164028229	164151144	1	None	None
5	None	ENSG00000241956	ENST00000519267	antisense	KNOWN	None	None	None	None	164400494	164557239	1	None	None
11	None	ENSG00000254705	ENST00000531176	antisense	KNOWN	None	None	None	None	92133357	92141342	-1	None	None
12	None	ENSG00000215993	ENST00000401174	miRNA	NOVEL	None	None	None	None	43685298	43685383	-1	None	None
1	None	ENSG00000206659	ENST00000383932	misc_RNA	NOVEL	None	None	None	None	174991615	174991716	-1	None	None
15	None	ENSG00000251881	ENST00000516072	snoRNA	NOVEL	None	None	None	None	80434400	80434469	1	None	None
5	SH3TC2	ENSG00000169247	ENST00000504690	nonsense_mediated_decay	KNOWN	None	29427	3780	1259	148303202	148442726	-1	None	KIAA1985, CMT4C
5	SH3TC2	ENSG00000169247	ENST00000510350	processed_transcript	KNOWN	None	29427	None	None	148334364	148386674	-1	None	KIAA1985, CMT4C
5	SH3TC2	ENSG00000169247	ENST00000323829	nonsense_mediated_decay	KNOWN	None	29427	684	227	148380911	148442607	-1	None	KIAA1985, CMT4C
5	SH3TC2	ENSG00000169247	ENST00000515229	processed_transcript	KNOWN	None	29427	None	None	148382391	148388553	-1	None	KIAA1985, CMT4C
5	SH3TC2	ENSG00000169247	ENST00000504517	nonsense_mediated_decay	KNOWN	None	29427	426	141	148383510	148421109	-1	None	KIAA1985, CMT4C
5	SH3TC2	ENSG00000169247	ENST00000502274	protein_coding	KNOWN	None	29427	453	150	148383516	148388174	-1	None	KIAA1985, CMT4C
5	SH3TC2	ENSG00000169247	ENST00000510779	nonsense_mediated_decay	KNOWN	None	29427	113	36	148384114	148411179	-1	None	KIAA1985, CMT4C
5	SH3TC2	ENSG00000169247	ENST00000515425	protein_coding	KNOWN	CCDS4293	29427	3867	1288	148384184	148442687	-1	None	KIAA1985, CMT4C
5	SH3TC2	ENSG00000169247	ENST00000512049	protein_coding	NOVEL	None	29427	3846	1281	148384185	148442652	-1	None	KIAA1985, CMT4C
5	SH3TC2	ENSG00000169247	ENST00000513604	nonsense_mediated_decay	KNOWN	None	29427	684	227	148405341	148442610	-1	None	KIAA1985, CMT4C
5	SH3TC2	ENSG00000169247	ENST00000511307	nonsense_mediated_decay	KNOWN	None	29427	288	95	148406127	148442625	-1	None	KIAA1985, CMT4C
5	SH3TC2	ENSG00000169247	ENST00000513340	processed_transcript	KNOWN	None	29427	None	None	148407948	148415584	-1	None	KIAA1985, CMT4C
5	SH3TC2	ENSG00000169247	ENST00000503071	processed_transcript	KNOWN	None	29427	None	None	148411149	148422310	-1	None	KIAA1985, CMT4C
5	SH3TC2	ENSG00000169247	ENST00000511949	retained_intron	KNOWN	None	29427	None	None	148422283	148442625	-1	None	KIAA1985, CMT4C
5	SH3TC2	ENSG00000169247	ENST00000504091	retained_intron	KNOWN	None	29427	None	None	148423218	148442621	-1	None	KIAA1985, CMT4C
5	SH3TC2	ENSG00000169247	ENST00000538184	protein_coding	KNOWN	None	29427	2181	726	148383510	148421109	-1	None	KIAA1985, CMT4C
5	SH3TC2	ENSG00000169247	ENST00000394358	protein_coding	KNOWN	None	29427	2805	934	148406127	148442625	-1	None	KIAA1985, CMT4C
14	None	ENSG00000258813	ENST00000554737	lincRNA	KNOWN	None	None	None	None	73525139	73526123	-1	None	None
18	None	ENSG00000265888	ENST00000581836	antisense	KNOWN	None	None	None	None	28681551	28742752	1	None	None
3	OR5H7P	ENSG00000187900	ENST00000514084	unprocessed_pseudogene	KNOWN	None	14771	None	None	97957196	97958125	1	None	None
11	None	ENSG00000254761	ENST00000525328	lincRNA	KNOWN	None	None	None	None	76423440	76430652	-1	None	None
1	SDCCAG3P2	ENSG00000181101	ENST00000326105	processed_pseudogene	KNOWN	None	39164	None	None	175013762	175014784	-1	None	None
15	None	ENSG00000259967	ENST00000568836	lincRNA	KNOWN	None	None	None	None	80458265	80459322	1	None	None
4	ELOVL6	ENSG00000170522	ENST00000394607	protein_coding	KNOWN	CCDS3690	15829	798	265	110967002	111119809	-1	None	FLJ23378, MGC5487, LCE
4	ELOVL6	ENSG00000170522	ENST00000302274	protein_coding	NOVEL	CCDS3690	15829	798	265	110970543	111119832	-1	None	FLJ23378, MGC5487, LCE
4	ELOVL6	ENSG00000170522	ENST00000514184	nonsense_mediated_decay	KNOWN	None	15829	297	98	110972826	111120335	-1	None	FLJ23378, MGC5487, LCE
4	ELOVL6	ENSG00000170522	ENST00000507451	retained_intron	KNOWN	None	15829	None	None	110972850	110981195	-1	None	FLJ23378, MGC5487, LCE
4	ELOVL6	ENSG00000170522	ENST00000506625	protein_coding	KNOWN	None	15829	410	135	110972882	111120165	-1	None	FLJ23378, MGC5487, LCE
4	ELOVL6	ENSG00000170522	ENST00000506461	processed_transcript	KNOWN	None	15829	None	None	110980801	111119706	-1	None	FLJ23378, MGC5487, LCE
4	ELOVL6	ENSG00000170522	ENST00000503885	protein_coding	KNOWN	None	15829	326	107	110980806	111120355	-1	None	FLJ23378, MGC5487, LCE
4	ELOVL6	ENSG00000170522	ENST00000513003	processed_transcript	PUTATIVE	None	15829	None	None	111119047	111119522	-1	None	FLJ23378, MGC5487, LCE
6	RPL24P4	ENSG00000181524	ENST00000326586	processed_pseudogene	KNOWN	None	21371	None	None	42924083	42924503	-1	None	dJ125M3.1
12	None	ENSG00000241251	ENST00000479116	processed_pseudogene	KNOWN	None	None	None	None	43954587	43955100	-1	None	None
17	None	ENSG00000266473	ENST00000585193	antisense	KNOWN	None	None	None	None	65240953	65241922	1	None	None
2	None	ENSG00000199866	ENST00000362996	misc_RNA	NOVEL	None	None	None	None	173422879	173422980	-1	None	None
X	None	ENSG00000251846	ENST00000516037	snoRNA	NOVEL	None	None	None	None	153121158	153121222	1	None	None
1	None	ENSG00000236055	ENST00000433591	unprocessed_pseudogene	KNOWN	None	None	None	None	142790583	142791175	-1	None	None
16	None	ENSG00000262482	ENST00000573260	antisense	KNOWN	None	None	None	None	2989715	3004277	-1	None	None
1	None	ENSG00000230687	ENST00000412357	lincRNA	KNOWN	None	None	None	None	175172364	175173985	-1	None	None
3	UBFD1P1	ENSG00000244653	ENST00000473259	processed_pseudogene	KNOWN	None	42389	None	None	98152878	98153691	1	None	None
2	None	ENSG00000230104	ENST00000455767	processed_pseudogene	KNOWN	None	None	None	None	173538940	173539626	-1	None	None
12	PCBP2	ENSG00000197111	ENST00000359282	protein_coding	NOVEL	CCDS44903	8648	996	331	53845886	53873610	1	None	HNRPE2, hnRNP-E2, HNRNPE2
12	PCBP2	ENSG00000197111	ENST00000549863	protein_coding	NOVEL	None	8648	966	321	53845910	53873553	1	None	HNRPE2, hnRNP-E2, HNRNPE2
12	PCBP2	ENSG00000197111	ENST00000359462	protein_coding	NOVEL	CCDS44900	8648	1101	366	53845913	53873616	1	None	HNRPE2, hnRNP-E2, HNRNPE2
12	PCBP2	ENSG00000197111	ENST00000550520	protein_coding	NOVEL	None	8648	480	159	53845963	53854927	1	None	HNRPE2, hnRNP-E2, HNRNPE2
12	PCBP2	ENSG00000197111	ENST00000546463	protein_coding	KNOWN	CCDS8859	8648	1089	362	53846109	53873467	1	None	HNRPE2, hnRNP-E2, HNRNPE2
12	PCBP2	ENSG00000197111	ENST00000552296	protein_coding	NOVEL	CCDS55830	8648	1086	361	53846152	53873398	1	None	HNRPE2, hnRNP-E2, HNRNPE2
12	PCBP2	ENSG00000197111	ENST00000550192	protein_coding	KNOWN	None	8648	192	63	53846601	53849734	1	None	HNRPE2, hnRNP-E2, HNRNPE2
12	PCBP2	ENSG00000197111	ENST00000551104	protein_coding	KNOWN	None	8648	474	157	53846628	53854897	1	None	HNRPE2, hnRNP-E2, HNRNPE2
12	PCBP2	ENSG00000197111	ENST00000552980	protein_coding	KNOWN	None	8648	110	35	53848168	53849261	1	None	HNRPE2, hnRNP-E2, HNRNPE2
12	PCBP2	ENSG00000197111	ENST00000552819	protein_coding	NOVEL	None	8648	969	322	53848518	53873608	1	None	HNRPE2, hnRNP-E2, HNRNPE2
12	PCBP2	ENSG00000197111	ENST00000550910	retained_intron	KNOWN	None	8648	None	None	53848520	53849836	1	None	HNRPE2, hnRNP-E2, HNRNPE2
12	PCBP2	ENSG00000197111	ENST00000455667	protein_coding	NOVEL	CCDS44904	8648	957	318	53848521	53874946	1	None	HNRPE2, hnRNP-E2, HNRNPE2
12	PCBP2	ENSG00000197111	ENST00000439930	protein_coding	NOVEL	CCDS44901	8648	1098	365	53848563	53873402	1	None	HNRPE2, hnRNP-E2, HNRNPE2
12	PCBP2	ENSG00000197111	ENST00000548933	protein_coding	NOVEL	CCDS44902	8648	1008	335	53848569	53873404	1	None	HNRPE2, hnRNP-E2, HNRNPE2
12	PCBP2	ENSG00000197111	ENST00000546652	nonsense_mediated_decay	KNOWN	None	8648	609	202	53848594	53861069	1	None	HNRPE2, hnRNP-E2, HNRNPE2
12	PCBP2	ENSG00000197111	ENST00000562264	protein_coding	NOVEL	None	8648	904	300	53848644	53873467	1	None	HNRPE2, hnRNP-E2, HNRNPE2
12	PCBP2	ENSG00000197111	ENST00000548190	retained_intron	KNOWN	None	8648	None	None	53849693	53854470	1	None	HNRPE2, hnRNP-E2, HNRNPE2
12	PCBP2	ENSG00000197111	ENST00000550585	nonsense_mediated_decay	KNOWN	None	8648	338	111	53849724	53873634	1	None	HNRPE2, hnRNP-E2, HNRNPE2
12	PCBP2	ENSG00000197111	ENST00000547987	retained_intron	KNOWN	None	8648	None	None	53853169	53861450	1	None	HNRPE2, hnRNP-E2, HNRNPE2
12	PCBP2	ENSG00000197111	ENST00000553064	protein_coding	PUTATIVE	None	8648	933	310	53854799	53869854	1	None	HNRPE2, hnRNP-E2, HNRNPE2
12	PCBP2	ENSG00000197111	ENST00000547859	protein_coding	NOVEL	None	8648	554	183	53854920	53874591	1	None	HNRPE2, hnRNP-E2, HNRNPE2
12	PCBP2	ENSG00000197111	ENST00000549272	retained_intron	KNOWN	None	8648	None	None	53856298	53861353	1	None	HNRPE2, hnRNP-E2, HNRNPE2
12	PCBP2	ENSG00000197111	ENST00000547048	retained_intron	KNOWN	None	8648	None	None	53861507	53873605	1	None	HNRPE2, hnRNP-E2, HNRNPE2
12	PCBP2	ENSG00000197111	ENST00000550733	retained_intron	KNOWN	None	8648	None	None	53862252	53873408	1	None	HNRPE2, hnRNP-E2, HNRNPE2
12	PCBP2	ENSG00000197111	ENST00000603815	protein_coding	KNOWN	CCDS44901	8648	1098	365	53845886	53874945	1	None	HNRPE2, hnRNP-E2, HNRNPE2
12	PCBP2	ENSG00000197111	ENST00000447282	protein_coding	KNOWN	CCDS44902	8648	1008	335	53845886	53874945	1	None	HNRPE2, hnRNP-E2, HNRNPE2
12	PCBP2	ENSG00000197111	ENST00000437231	protein_coding	KNOWN	CCDS44904	8648	957	318	53845886	53874945	1	None	HNRPE2, hnRNP-E2, HNRNPE2
12	PCBP2	ENSG00000197111	ENST00000541275	protein_coding	KNOWN	None	8648	906	301	53835525	53861312	1	None	HNRPE2, hnRNP-E2, HNRNPE2
11	None	ENSG00000254632	ENST00000533437	antisense	KNOWN	None	None	None	None	76470960	76479267	-1	None	None
12	None	ENSG00000256955	ENST00000542763	lincRNA	KNOWN	None	None	None	None	132341965	132348596	1	None	None
15	None	ENSG00000260490	ENST00000569826	processed_pseudogene	KNOWN	None	None	None	None	42864125	42864631	1	None	None
10	VSTM4	ENSG00000165633	ENST00000332853	protein_coding	KNOWN	CCDS31198	26470	963	320	50226490	50323554	-1	C10orf72	FLJ31737
10	VSTM4	ENSG00000165633	ENST00000476018	retained_intron	KNOWN	None	26470	None	None	50272196	50285336	-1	C10orf72	FLJ31737
10	VSTM4	ENSG00000165633	ENST00000298454	protein_coding	KNOWN	CCDS7228	26470	576	191	50310217	50323554	-1	C10orf72	FLJ31737
17	RNA5SP447	ENSG00000200619	ENST00000363749	rRNA	KNOWN	None	43347	None	None	65264226	65264344	1	RN5S447	None
5	None	ENSG00000269215	ENST00000593965	protein_coding	KNOWN	None	None	207	68	39105358	39107350	1	None	None
18	None	ENSG00000263698	ENST00000582307	antisense	KNOWN	None	None	None	None	28711419	28712457	1	None	None
2	IGKV3D-7	ENSG00000235896	ENST00000423080	IG_V_gene	KNOWN	None	5829	357	118	90273679	90274235	1	None	None
X	NKAPP1	ENSG00000233382	ENST00000555168	processed_transcript	KNOWN	None	26706	None	None	119254863	119378743	-1	CXorf42	FLJ36576
X	NKAPP1	ENSG00000233382	ENST00000554109	processed_transcript	KNOWN	None	26706	None	None	119312343	119379122	-1	CXorf42	FLJ36576
X	NKAPP1	ENSG00000233382	ENST00000554946	processed_transcript	KNOWN	None	26706	None	None	119355196	119378916	-1	CXorf42	FLJ36576
X	NKAPP1	ENSG00000233382	ENST00000452254	processed_transcript	KNOWN	None	26706	None	None	119370311	119379088	-1	CXorf42	FLJ36576
X	NKAPP1	ENSG00000233382	ENST00000592037	processed_transcript	KNOWN	None	26706	None	None	119374136	119379075	-1	CXorf42	FLJ36576
X	NKAPP1	ENSG00000233382	ENST00000585790	transcribed_processed_pseudogene	KNOWN	None	26706	None	None	119378614	119378980	-1	CXorf42	FLJ36576
X	NKAPP1	ENSG00000233382	ENST00000536487	processed_pseudogene	KNOWN	None	26706	None	None	119377874	119379122	-1	CXorf42	FLJ36576
5	MIR548F3	ENSG00000221436	ENST00000408509	miRNA	KNOWN	None	35307	None	None	109849530	109849616	-1	MIRN548F3	hsa-mir-548f-3
3	None	ENSG00000233280	ENST00000419587	protein_coding	PUTATIVE	None	None	4094	1363	97540884	97594132	1	None	None
4	SLC9B2	ENSG00000164038	ENST00000362026	protein_coding	KNOWN	CCDS3662	25143	1614	537	103941025	103997460	-1	NHEDC2	FLJ23984, NHA2
4	SLC9B2	ENSG00000164038	ENST00000506288	protein_coding	NOVEL	None	25143	1065	354	103941387	103979099	-1	NHEDC2	FLJ23984, NHA2
4	SLC9B2	ENSG00000164038	ENST00000394785	protein_coding	KNOWN	CCDS3662	25143	1614	537	103946647	103997930	-1	NHEDC2	FLJ23984, NHA2
4	SLC9B2	ENSG00000164038	ENST00000503103	protein_coding	NOVEL	None	25143	1254	417	103947113	103997489	-1	NHEDC2	FLJ23984, NHA2
4	SLC9B2	ENSG00000164038	ENST00000503230	protein_coding	NOVEL	None	25143	1443	480	103947321	103998439	-1	NHEDC2	FLJ23984, NHA2
4	SLC9B2	ENSG00000164038	ENST00000510976	processed_transcript	KNOWN	None	25143	None	None	103963202	103966148	-1	NHEDC2	FLJ23984, NHA2
4	SLC9B2	ENSG00000164038	ENST00000515424	processed_transcript	KNOWN	None	25143	None	None	103969748	103988656	-1	NHEDC2	FLJ23984, NHA2
4	SLC9B2	ENSG00000164038	ENST00000503818	protein_coding	KNOWN	None	25143	429	142	103978971	103998481	-1	NHEDC2	FLJ23984, NHA2
4	SLC9B2	ENSG00000164038	ENST00000505838	processed_transcript	KNOWN	None	25143	None	None	103986568	103997493	-1	NHEDC2	FLJ23984, NHA2
4	SLC9B2	ENSG00000164038	ENST00000508136	nonsense_mediated_decay	KNOWN	None	25143	339	112	103987616	104006986	-1	NHEDC2	FLJ23984, NHA2
4	SLC9B2	ENSG00000164038	ENST00000512806	processed_transcript	KNOWN	None	25143	None	None	103997584	103998359	-1	NHEDC2	FLJ23984, NHA2
4	SLC9B2	ENSG00000164038	ENST00000339611	protein_coding	KNOWN	None	25143	1365	454	103941437	103998170	-1	NHEDC2	FLJ23984, NHA2
11	None	ENSG00000266854	ENST00000577192	miRNA	NOVEL	None	None	None	None	68386967	68387063	1	None	None
17	None	ENSG00000207410	ENST00000384679	snoRNA	NOVEL	None	None	None	None	65267585	65267723	1	None	None
8	None	ENSG00000272037	ENST00000606361	antisense	KNOWN	None	None	None	None	103268620	103270049	1	None	None
3	RPS26P21	ENSG00000242829	ENST00000475397	processed_pseudogene	KNOWN	None	36469	None	None	119017512	119017859	1	None	None
1	None	ENSG00000233946	ENST00000414733	processed_pseudogene	KNOWN	None	None	None	None	175266216	175266376	1	None	None
11	RPS3AP42	ENSG00000244244	ENST00000471604	processed_pseudogene	KNOWN	None	35605	None	None	92231318	92232101	-1	None	None
12	None	ENSG00000257813	ENST00000551685	processed_pseudogene	KNOWN	None	None	None	None	43963572	43965841	-1	None	None
17	None	ENSG00000264093	ENST00000582714	processed_pseudogene	KNOWN	None	None	None	None	65272234	65272467	-1	None	None
2	RAPGEF4-AS1	ENSG00000228016	ENST00000430128	antisense	KNOWN	None	28081	None	None	173541869	173543755	-1	None	None
2	RAPGEF4-AS1	ENSG00000228016	ENST00000455435	antisense	KNOWN	None	28081	None	None	173541876	173599097	-1	None	None
2	RAPGEF4-AS1	ENSG00000228016	ENST00000435328	antisense	KNOWN	None	28081	None	None	173587914	173600934	-1	None	None
X	HCFC1-AS1	ENSG00000235802	ENST00000438219	antisense	KNOWN	None	40273	None	None	153234776	153235538	1	None	None
15	None	ENSG00000259417	ENST00000560778	lincRNA	KNOWN	None	None	None	None	80487826	80544555	-1	None	None
11	None	ENSG00000255100	ENST00000528075	antisense	KNOWN	None	None	None	None	76493625	76494106	-1	None	None
11	None	ENSG00000255100	ENST00000526585	antisense	KNOWN	None	None	None	None	76493674	76494103	-1	None	None
11	None	ENSG00000255100	ENST00000527778	antisense	KNOWN	None	None	None	None	76493684	76494104	-1	None	None
16	LINC00514	ENSG00000262152	ENST00000573465	lincRNA	KNOWN	None	27549	None	None	3038962	3042960	1	None	None
16	LINC00514	ENSG00000262152	ENST00000572266	lincRNA	KNOWN	None	27549	None	None	3039055	3043505	1	None	None
16	LINC00514	ENSG00000262152	ENST00000571152	lincRNA	KNOWN	None	27549	None	None	3040195	3044510	1	None	None
18	None	ENSG00000266729	ENST00000581856	antisense	KNOWN	None	None	None	None	28923331	29006890	-1	None	None
18	None	ENSG00000266729	ENST00000578119	antisense	KNOWN	None	None	None	None	28923347	28933899	-1	None	None
18	None	ENSG00000266729	ENST00000578477	antisense	KNOWN	None	None	None	None	28927631	29006951	-1	None	None
18	None	ENSG00000266729	ENST00000581452	antisense	KNOWN	None	None	None	None	28933925	28981630	-1	None	None
2	None	ENSG00000224967	ENST00000426307	processed_pseudogene	KNOWN	None	None	None	None	118691601	118692365	-1	None	None
17	None	ENSG00000238612	ENST00000459293	snoRNA	NOVEL	None	None	None	None	65403959	65404062	-1	None	None
3	RNU6-678P	ENSG00000252641	ENST00000516832	snRNA	KNOWN	None	47641	None	None	133383779	133383878	1	None	None
3	None	ENSG00000248839	ENST00000502999	antisense	KNOWN	None	None	None	None	98241414	98244178	1	None	None
14	None	ENSG00000258448	ENST00000554385	processed_pseudogene	KNOWN	None	None	None	None	73534816	73535326	-1	None	None
12	None	ENSG00000255992	ENST00000539078	lincRNA	KNOWN	None	None	None	None	132409281	132413896	-1	None	None
6	PKHD1	ENSG00000170927	ENST00000371117	protein_coding	KNOWN	CCDS4935	9016	12225	4074	51480098	51952423	-1	TIGM1	ARPKD, FCYT
6	PKHD1	ENSG00000170927	ENST00000340994	protein_coding	KNOWN	CCDS4936	9016	10191	3396	51585647	51952408	-1	TIGM1	ARPKD, FCYT
HSCHR6_MHC_SSTO	ZFP57	ENSG00000234669	ENST00000446005	protein_coding	KNOWN	None	18791	1551	516	29639955	29648580	-1	C6orf40	ZNF698, bA145L22, bA145L22.2
HSCHR6_MHC_SSTO	ZFP57	ENSG00000234669	ENST00000547911	protein_coding	KNOWN	None	18791	1356	451	29639972	29658187	-1	C6orf40	ZNF698, bA145L22, bA145L22.2
HSCHR6_MHC_SSTO	ZFP57	ENSG00000234669	ENST00000553137	protein_coding	KNOWN	None	18791	1611	536	29639864	29644624	-1	C6orf40	ZNF698, bA145L22, bA145L22.2
HSCHR6_MHC_SSTO	ZFP57	ENSG00000234669	ENST00000549312	protein_coding	KNOWN	None	18791	1551	516	29639864	29644473	-1	C6orf40	ZNF698, bA145L22, bA145L22.2
1	None	ENSG00000260990	ENST00000569593	antisense	KNOWN	None	None	None	None	175276354	175304595	1	None	None
12	RNU1-83P	ENSG00000200296	ENST00000363426	snRNA	KNOWN	None	48425	None	None	63244518	63244681	-1	None	None
17	None	ENSG00000201547	ENST00000364677	misc_RNA	NOVEL	None	None	None	None	65404890	65404997	-1	None	None
14	None	ENSG00000259109	ENST00000554078	processed_pseudogene	KNOWN	None	None	None	None	73656471	73656712	1	None	None
11	None	ENSG00000250508	ENST00000512200	lincRNA	KNOWN	None	None	None	None	68638132	68642010	1	None	None
2	None	ENSG00000235066	ENST00000413179	antisense	KNOWN	None	None	None	None	118753186	118754186	1	None	None
2	None	ENSG00000235066	ENST00000585381	antisense	KNOWN	None	None	None	None	118753226	118754611	1	None	None
2	None	ENSG00000235066	ENST00000590516	antisense	KNOWN	None	None	None	None	118754300	118770258	1	None	None
2	None	ENSG00000235066	ENST00000588042	antisense	KNOWN	None	None	None	None	118754593	118770295	1	None	None
2	None	ENSG00000235066	ENST00000588733	antisense	KNOWN	None	None	None	None	118755517	118757824	1	None	None
2	None	ENSG00000235066	ENST00000591103	antisense	KNOWN	None	None	None	None	118756321	118757056	1	None	None
17	RN7SL756P	ENSG00000244610	ENST00000488739	misc_RNA	KNOWN	None	46772	None	None	65453141	65453406	-1	None	None
3	RNA5SP140	ENSG00000201394	ENST00000364524	rRNA	KNOWN	None	43040	None	None	133428920	133429011	-1	RN5S140	None
17	LINC00671	ENSG00000213373	ENST00000301683	lincRNA	KNOWN	None	44339	None	None	41026687	41050721	-1	None	None
17	LINC00671	ENSG00000213373	ENST00000417193	lincRNA	KNOWN	None	44339	None	None	41031505	41050717	-1	None	None
17	LINC00671	ENSG00000213373	ENST00000436546	lincRNA	KNOWN	None	44339	None	None	41031607	41050721	-1	None	None
17	LINC00671	ENSG00000213373	ENST00000431109	lincRNA	KNOWN	None	44339	None	None	41031197	41050751	-1	None	None
1	None	ENSG00000230255	ENST00000458414	unprocessed_pseudogene	KNOWN	None	None	None	None	142791488	142792556	1	None	None
11	None	ENSG00000255741	ENST00000542410	antisense	KNOWN	None	None	None	None	68708971	68710320	-1	None	None
15	None	ENSG00000260282	ENST00000563883	processed_pseudogene	KNOWN	None	None	None	None	42873354	42873686	-1	None	None
7	NAA38	ENSG00000128534	ENST00000249299	protein_coding	KNOWN	CCDS5775	20471	291	96	117824086	117832878	1	LSM8	YJR022W
7	NAA38	ENSG00000128534	ENST00000424702	protein_coding	PUTATIVE	None	20471	204	67	117824198	117832209	1	LSM8	YJR022W
7	NAA38	ENSG00000128534	ENST00000422760	protein_coding	PUTATIVE	None	20471	228	75	117824210	117832218	1	LSM8	YJR022W
7	NAA38	ENSG00000128534	ENST00000411938	protein_coding	NOVEL	None	20471	233	76	117824221	117828459	1	LSM8	YJR022W
17	MIR548D2	ENSG00000207688	ENST00000384955	miRNA	KNOWN	None	32802	None	None	65467605	65467701	1	MIRN548D2	hsa-mir-548d-2
17	MIR548AA2	ENSG00000207688	ENST00000384955	miRNA	KNOWN	None	38921	None	None	65467605	65467701	1	None	hsa-mir-548aa-2
12	None	ENSG00000252660	ENST00000516851	misc_RNA	NOVEL	None	None	None	None	63329481	63329582	1	None	None
3	ARHGAP31-AS1	ENSG00000241155	ENST00000466292	antisense	KNOWN	None	41235	None	None	119033140	119041607	-1	None	None
1	ASNSP5	ENSG00000229683	ENST00000433327	unprocessed_pseudogene	KNOWN	None	39401	None	None	142799587	142799739	1	None	None
X	MIR3202-1	ENSG00000265176	ENST00000580198	miRNA	KNOWN	None	38224	None	None	153246548	153246628	1	None	hsa-mir-3202-1
X	MIR3202-2	ENSG00000265176	ENST00000580198	miRNA	KNOWN	None	38228	None	None	153246548	153246628	1	None	hsa-mir-3202-2
11	None	ENSG00000239086	ENST00000459289	snoRNA	NOVEL	None	None	None	None	92462496	92462581	-1	None	None
12	None	ENSG00000271508	ENST00000605601	processed_pseudogene	KNOWN	None	None	None	None	44026896	44027084	1	None	None
1	TNR-IT1	ENSG00000235628	ENST00000455447	sense_intronic	KNOWN	None	41391	None	None	175507911	175525954	-1	None	None
17	None	ENSG00000264754	ENST00000577544	sense_intronic	KNOWN	None	None	None	None	65520597	65521538	1	None	None
2	None	ENSG00000239041	ENST00000458863	snoRNA	NOVEL	None	None	None	None	173556027	173556130	1	None	None
3	RNU6-1127P	ENSG00000207310	ENST00000384580	snRNA	KNOWN	None	48090	None	None	119060681	119060787	-1	None	None
3	RPL38P4	ENSG00000250562	ENST00000502376	processed_pseudogene	KNOWN	None	48867	None	None	98243905	98244118	-1	None	None
11	MS4A7	ENSG00000166927	ENST00000300184	protein_coding	KNOWN	CCDS7985	13378	723	240	60145955	60162284	1	None	CD20L4, CFFM4, MS4A8
11	MS4A7	ENSG00000166927	ENST00000534016	protein_coding	KNOWN	CCDS7986	13378	588	195	60145974	60161995	1	None	CD20L4, CFFM4, MS4A8
11	MS4A7	ENSG00000166927	ENST00000530614	protein_coding	KNOWN	None	13378	507	168	60146001	60160253	1	None	CD20L4, CFFM4, MS4A8
11	MS4A7	ENSG00000166927	ENST00000530027	protein_coding	NOVEL	None	13378	483	160	60146001	60161286	1	None	CD20L4, CFFM4, MS4A8
11	MS4A7	ENSG00000166927	ENST00000528808	retained_intron	KNOWN	None	13378	None	None	60146005	60157458	1	None	CD20L4, CFFM4, MS4A8
11	MS4A7	ENSG00000166927	ENST00000530234	protein_coding	PUTATIVE	None	13378	297	98	60146012	60162727	1	None	CD20L4, CFFM4, MS4A8
11	MS4A7	ENSG00000166927	ENST00000528500	retained_intron	KNOWN	None	13378	None	None	60146022	60151139	1	None	CD20L4, CFFM4, MS4A8
11	MS4A7	ENSG00000166927	ENST00000528215	protein_coding	PUTATIVE	None	13378	118	38	60146037	60154247	1	None	CD20L4, CFFM4, MS4A8
11	MS4A7	ENSG00000166927	ENST00000534310	retained_intron	KNOWN	None	13378	None	None	60153973	60160259	1	None	CD20L4, CFFM4, MS4A8
11	MS4A7	ENSG00000166927	ENST00000528587	retained_intron	KNOWN	None	13378	None	None	60156509	60161450	1	None	CD20L4, CFFM4, MS4A8
11	MS4A7	ENSG00000166927	ENST00000533849	retained_intron	KNOWN	None	13378	None	None	60156655	60161450	1	None	CD20L4, CFFM4, MS4A8
11	MS4A7	ENSG00000166927	ENST00000358246	protein_coding	KNOWN	CCDS7986	13378	588	195	60145958	60163424	1	None	CD20L4, CFFM4, MS4A8
14	None	ENSG00000258376	ENST00000554614	antisense	KNOWN	None	None	None	None	73710726	73712687	-1	None	None
HSCHR1_2_CTG31	PKLR	ENSG00000262785	ENST00000571194	protein_coding	KNOWN	None	9020	1632	543	155275034	155286196	-1	None	None
HSCHR1_2_CTG31	PKLR	ENSG00000262785	ENST00000572740	protein_coding	KNOWN	None	9020	1725	574	155275448	155286629	-1	None	None
HSCHR1_2_CTG31	PKLR	ENSG00000262785	ENST00000573938	nonsense_mediated_decay	KNOWN	None	9020	141	46	155280330	155286151	-1	None	None
12	RPL14P1	ENSG00000139239	ENST00000484568	processed_pseudogene	KNOWN	None	31384	None	None	63359105	63359749	1	RPL14L	bcm1298
12	RPL14P1	ENSG00000139239	ENST00000266610	processed_pseudogene	KNOWN	None	31384	None	None	63359095	63359764	1	RPL14L	bcm1298
3	None	ENSG00000242052	ENST00000495649	processed_pseudogene	KNOWN	None	None	None	None	119354373	119354997	-1	None	None
3	None	ENSG00000240827	ENST00000465006	processed_pseudogene	KNOWN	None	None	None	None	98338909	98339462	1	None	None
1	None	ENSG00000234978	ENST00000423385	lincRNA	KNOWN	None	None	None	None	142803224	142816004	-1	None	None
2	ALDH7A1P2	ENSG00000232292	ENST00000456501	processed_pseudogene	KNOWN	None	879	None	None	173758491	173759111	-1	ATQL2	None
17	SNORA38B	ENSG00000200394	ENST00000363524	snoRNA	KNOWN	None	33617	None	None	65736785	65736915	1	None	None
2	RN7SL111P	ENSG00000243510	ENST00000468841	misc_RNA	KNOWN	None	46127	None	None	118773958	118774243	1	None	None
1	None	ENSG00000224718	ENST00000457217	lincRNA	KNOWN	None	None	None	None	175846479	175849604	1	None	None
12	EEF1A1P17	ENSG00000257907	ENST00000547505	processed_pseudogene	KNOWN	None	37890	None	None	44053630	44054904	1	None	None
3	None	ENSG00000239994	ENST00000489428	antisense	KNOWN	None	None	None	None	119462986	119469197	-1	None	None
2	None	ENSG00000265709	ENST00000579510	miRNA	NOVEL	None	None	None	None	173926460	173926540	1	None	None
9	None	ENSG00000236825	ENST00000454299	processed_pseudogene	KNOWN	None	None	None	None	46918098	46919049	-1	None	None
12	None	ENSG00000271905	ENST00000607851	miRNA	NOVEL	None	None	None	None	132486235	132486320	-1	None	None
18	RNU6-167P	ENSG00000207019	ENST00000384292	snRNA	KNOWN	None	47130	None	None	28925325	28925430	-1	None	None
17	None	ENSG00000266858	ENST00000584105	unprocessed_pseudogene	KNOWN	None	None	None	None	65770707	65773440	-1	None	None
11	None	ENSG00000261625	ENST00000562276	sense_overlapping	KNOWN	None	None	None	None	68768233	68769516	-1	None	None
2	None	ENSG00000226856	ENST00000414886	lincRNA	KNOWN	None	None	None	None	118889704	118943962	-1	None	None
2	None	ENSG00000226856	ENST00000449075	lincRNA	KNOWN	None	None	None	None	118940515	118943949	-1	None	None
2	None	ENSG00000226856	ENST00000449819	lincRNA	KNOWN	None	None	None	None	118940597	118943962	-1	None	None
18	None	ENSG00000207240	ENST00000384511	misc_RNA	NOVEL	None	None	None	None	28962280	28962393	1	None	None
6	C6orf195	ENSG00000164385	ENST00000296847	protein_coding	KNOWN	CCDS43416	21600	384	127	2622147	2634837	-1	None	FLJ31934, bA145H9.2
11	None	ENSG00000261578	ENST00000566747	sense_overlapping	KNOWN	None	None	None	None	76511408	76515599	1	None	None
9	None	ENSG00000234451	ENST00000443013	processed_pseudogene	KNOWN	None	None	None	None	46921026	46922100	-1	None	None
2	MLK7-AS1	ENSG00000238133	ENST00000419609	antisense	KNOWN	None	27935	None	None	174031174	174072340	-1	None	None
2	MLK7-AS1	ENSG00000238133	ENST00000422703	antisense	KNOWN	None	27935	None	None	174031458	174136348	-1	None	None
2	MLK7-AS1	ENSG00000238133	ENST00000423106	antisense	KNOWN	None	27935	None	None	174062440	174146764	-1	None	None
1	None	ENSG00000227740	ENST00000426575	lincRNA	KNOWN	None	None	None	None	175873898	175889649	-1	None	None
17	GIT1	ENSG00000108262	ENST00000225394	protein_coding	KNOWN	CCDS11250	4272	2286	761	27900487	27916645	-1	None	None
17	GIT1	ENSG00000108262	ENST00000473217	retained_intron	KNOWN	None	4272	None	None	27900493	27906348	-1	None	None
17	GIT1	ENSG00000108262	ENST00000394869	protein_coding	KNOWN	CCDS42290	4272	2313	770	27900493	27916567	-1	None	None
17	GIT1	ENSG00000108262	ENST00000581348	protein_coding	NOVEL	None	4272	2244	747	27901190	27916449	-1	None	None
17	GIT1	ENSG00000108262	ENST00000579937	protein_coding	PUTATIVE	None	4272	2085	694	27901469	27916610	-1	None	None
17	GIT1	ENSG00000108262	ENST00000578670	nonsense_mediated_decay	KNOWN	None	4272	449	148	27901531	27903452	-1	None	None
17	GIT1	ENSG00000108262	ENST00000578266	protein_coding	PUTATIVE	None	4272	534	177	27902004	27903149	-1	None	None
17	GIT1	ENSG00000108262	ENST00000491377	retained_intron	KNOWN	None	4272	None	None	27902833	27903989	-1	None	None
17	GIT1	ENSG00000108262	ENST00000585148	protein_coding	NOVEL	None	4272	686	227	27903398	27908399	-1	None	None
17	GIT1	ENSG00000108262	ENST00000586574	retained_intron	KNOWN	None	4272	None	None	27903906	27908490	-1	None	None
17	GIT1	ENSG00000108262	ENST00000581925	retained_intron	KNOWN	None	4272	None	None	27903906	27908497	-1	None	None
17	GIT1	ENSG00000108262	ENST00000579536	retained_intron	KNOWN	None	4272	None	None	27908065	27909920	-1	None	None
17	GIT1	ENSG00000108262	ENST00000583413	protein_coding	PUTATIVE	None	4272	521	172	27909083	27921072	-1	None	None
17	GIT1	ENSG00000108262	ENST00000335356	protein_coding	NOVEL	None	4272	442	146	27909101	27916614	-1	None	None
17	GIT1	ENSG00000108262	ENST00000577466	protein_coding	PUTATIVE	None	4272	157	51	27909778	27910890	-1	None	None
18	None	ENSG00000266521	ENST00000580937	lincRNA	KNOWN	None	None	None	None	29076608	29077158	-1	None	None
3	None	ENSG00000244062	ENST00000474389	processed_pseudogene	KNOWN	None	None	None	None	133479144	133481207	1	None	None
6	None	ENSG00000264238	ENST00000583770	miRNA	NOVEL	None	None	None	None	25203481	25203568	1	None	None
1	ANKRD20A14P	ENSG00000232745	ENST00000457776	unprocessed_pseudogene	KNOWN	None	43605	None	None	142803532	142827235	1	None	None
1	None	ENSG00000230777	ENST00000452777	processed_pseudogene	KNOWN	None	None	None	None	175891111	175891281	1	None	None
12	SNORA49	ENSG00000208892	ENST00000386157	snoRNA	KNOWN	None	32642	None	None	132515769	132515904	1	None	ACA49
3	PHBP8	ENSG00000240471	ENST00000493810	processed_pseudogene	KNOWN	None	39287	None	None	119510676	119511400	1	None	None
14	IGHVII-1-1	ENSG00000254279	ENST00000517907	IG_V_pseudogene	KNOWN	None	5670	None	None	106411066	106411245	-1	None	IGHV(II)-1-1
11	OR5P1P	ENSG00000166408	ENST00000299512	unprocessed_pseudogene	KNOWN	None	14779	None	None	7794437	7795361	-1	None	None
11	OR5P1P	ENSG00000166408	ENST00000335392	unprocessed_pseudogene	KNOWN	None	14779	None	None	7794503	7795018	-1	None	None
18	None	ENSG00000264859	ENST00000583706	antisense	KNOWN	None	None	None	None	29122109	29136874	-1	None	None
18	None	ENSG00000264859	ENST00000579251	antisense	KNOWN	None	None	None	None	29130095	29136868	-1	None	None
6	None	ENSG00000219681	ENST00000401481	processed_pseudogene	KNOWN	None	None	None	None	25218916	25219297	1	None	None
14	ADAM6	ENSG00000233988	ENST00000452053	lincRNA	KNOWN	None	213	None	None	106435819	106438358	-1	C14orf96	tMDCIV
5	None	ENSG00000207177	ENST00000384448	snoRNA	KNOWN	None	None	None	None	110020495	110020628	-1	None	None
3	None	ENSG00000266233	ENST00000578668	miRNA	NOVEL	None	None	None	None	98342793	98342888	-1	None	None
11	None	ENSG00000255506	ENST00000529884	antisense	KNOWN	None	None	None	None	92481898	92500033	-1	None	None
1	SCARNA3	ENSG00000252906	ENST00000517097	snoRNA	KNOWN	None	32577	None	None	175937534	175937676	-1	None	HBI-100
14	RNU6-419P	ENSG00000252839	ENST00000517030	snRNA	KNOWN	None	47382	None	None	73713526	73713588	-1	None	None
11	None	ENSG00000212030	ENST00000390741	miRNA	NOVEL	None	None	None	None	76589276	76589362	1	None	None
5	None	ENSG00000270779	ENST00000603386	processed_pseudogene	KNOWN	None	None	None	None	110243983	110244412	1	None	None
3	None	ENSG00000244153	ENST00000466609	processed_pseudogene	KNOWN	None	None	None	None	98376646	98379414	1	None	None
7	RNA5SP246	ENSG00000239021	ENST00000458909	rRNA	KNOWN	None	43146	None	None	130287672	130287790	-1	RN5S246	None
3	CRYBG3	ENSG00000080200	ENST00000182096	protein_coding	KNOWN	None	34427	3069	1022	97595819	97663807	1	None	DKFZp667G2110
3	CRYBG3	ENSG00000080200	ENST00000495403	protein_coding	KNOWN	None	34427	393	130	97643056	97660105	1	None	DKFZp667G2110
3	CRYBG3	ENSG00000080200	ENST00000485253	processed_transcript	KNOWN	None	34427	None	None	97643056	97663801	1	None	DKFZp667G2110
3	CRYBG3	ENSG00000080200	ENST00000389622	protein_coding	KNOWN	None	34427	690	229	97651956	97663810	1	None	DKFZp667G2110
X	MIR718	ENSG00000211524	ENST00000390190	miRNA	KNOWN	None	37317	None	None	153285371	153285440	-1	None	hsa-mir-718
11	None	ENSG00000254988	ENST00000530190	antisense	KNOWN	None	None	None	None	76666461	76689663	-1	None	None
1	None	ENSG00000228686	ENST00000426030	antisense	KNOWN	None	None	None	None	175986413	175987896	1	None	None
12	None	ENSG00000257742	ENST00000553202	lincRNA	KNOWN	None	None	None	None	44112796	44117803	-1	None	None
11	EEF1A1P18	ENSG00000255127	ENST00000528208	unprocessed_pseudogene	KNOWN	None	37891	None	None	92647768	92649757	1	None	None
2	None	ENSG00000258910	ENST00000584273	lincRNA	KNOWN	None	None	None	None	119591276	119592185	-1	None	None
2	None	ENSG00000258910	ENST00000557729	lincRNA	KNOWN	None	None	None	None	119591401	119592686	-1	None	None
14	None	ENSG00000258107	ENST00000549515	lincRNA	KNOWN	None	None	None	None	29859552	29905618	1	None	None
7	None	ENSG00000226045	ENST00000406065	processed_pseudogene	KNOWN	None	None	None	None	130330095	130330464	-1	None	None
8	None	ENSG00000253675	ENST00000522679	antisense	KNOWN	None	None	None	None	87111194	87166454	-1	None	None
8	None	ENSG00000253675	ENST00000524253	antisense	KNOWN	None	None	None	None	87165663	87166435	-1	None	None
13	METTL21EP	ENSG00000250878	ENST00000605100	processed_transcript	KNOWN	None	41948	None	None	103532449	103548383	1	METTL21CP1	None
13	METTL21EP	ENSG00000250878	ENST00000298105	transcribed_unprocessed_pseudogene	KNOWN	None	41948	None	None	103543661	103548035	1	METTL21CP1	None
14	None	ENSG00000258944	ENST00000556578	antisense	KNOWN	None	None	None	None	73738890	73740789	-1	None	None
3	None	ENSG00000239835	ENST00000482027	processed_pseudogene	KNOWN	None	None	None	None	119747587	119748715	1	None	None
5	C9	ENSG00000113600	ENST00000263408	protein_coding	KNOWN	CCDS3929	1358	1680	559	39284364	39364662	-1	None	None
5	C9	ENSG00000113600	ENST00000509186	processed_transcript	KNOWN	None	1358	None	None	39315871	39371392	-1	None	None
5	C9	ENSG00000113600	ENST00000483232	processed_transcript	KNOWN	None	1358	None	None	39331875	39424970	-1	None	None
5	C9	ENSG00000113600	ENST00000467285	retained_intron	KNOWN	None	1358	None	None	39341183	39364597	-1	None	None
12	None	ENSG00000257000	ENST00000542422	antisense	KNOWN	None	None	None	None	132562348	132565005	-1	None	None
6	None	ENSG00000234147	ENST00000455011	lincRNA	KNOWN	None	None	None	None	141167095	141174061	-1	None	None
11	None	ENSG00000255093	ENST00000528953	protein_coding	PUTATIVE	None	None	573	190	111322064	111327330	1	None	None
11	None	ENSG00000255093	ENST00000527555	processed_transcript	PUTATIVE	None	None	None	None	111325710	111328876	1	None	None
7	None	ENSG00000271522	ENST00000604514	lincRNA	KNOWN	None	None	None	None	130474967	130476483	1	None	None
1	None	ENSG00000236021	ENST00000456125	antisense	KNOWN	None	None	None	None	176176784	176198466	1	None	None
18	RNU6-1002P	ENSG00000252379	ENST00000516570	snRNA	KNOWN	None	47965	None	None	29249252	29249341	-1	None	None
1	None	ENSG00000231182	ENST00000424640	lincRNA	KNOWN	None	None	None	None	142950985	142956716	-1	None	None
11	None	ENSG00000261276	ENST00000562506	antisense	KNOWN	None	None	None	None	68771862	68772568	1	None	None
11	None	ENSG00000221338	ENST00000408411	miRNA	NOVEL	None	None	None	None	31457017	31457110	-1	None	None
2	None	ENSG00000231735	ENST00000433054	processed_pseudogene	KNOWN	None	None	None	None	174162357	174163240	1	None	None
18	None	ENSG00000259985	ENST00000565978	antisense	KNOWN	None	None	None	None	29265618	29266786	1	None	None
15	None	ENSG00000239025	ENST00000459502	snoRNA	NOVEL	None	None	None	None	43000890	43000990	-1	None	None
2	None	ENSG00000259094	ENST00000556770	antisense	KNOWN	None	None	None	None	119706882	119710559	-1	None	None
6	None	ENSG00000216548	ENST00000407538	processed_pseudogene	KNOWN	None	None	None	None	141243594	141244047	-1	None	None
11	None	ENSG00000241008	ENST00000480271	processed_pseudogene	KNOWN	None	None	None	None	7805244	7805954	1	None	None
7	RANP2	ENSG00000232391	ENST00000456833	processed_pseudogene	KNOWN	None	39857	None	None	146864436	146864664	1	None	None
1	None	ENSG00000232463	ENST00000434367	processed_pseudogene	KNOWN	None	None	None	None	176200336	176200966	-1	None	None
11	None	ENSG00000224829	ENST00000534518	processed_pseudogene	KNOWN	None	None	None	None	77024651	77025077	1	None	None
14	None	ENSG00000225200	ENST00000392301	processed_pseudogene	KNOWN	None	None	None	None	106444607	106445233	-1	None	None
HSCHR6_MHC_QBL	AGER	ENSG00000206320	ENST00000469751	retained_intron	KNOWN	None	320	None	None	32106368	32107035	-1	None	RAGE
HSCHR6_MHC_QBL	AGER	ENSG00000206320	ENST00000497583	retained_intron	KNOWN	None	320	None	None	32106368	32108331	-1	None	RAGE
HSCHR6_MHC_QBL	AGER	ENSG00000206320	ENST00000468699	retained_intron	KNOWN	None	320	None	None	32106368	32108331	-1	None	RAGE
HSCHR6_MHC_QBL	AGER	ENSG00000206320	ENST00000383279	protein_coding	KNOWN	None	320	1029	342	32106368	32109637	-1	None	RAGE
HSCHR6_MHC_QBL	AGER	ENSG00000206320	ENST00000383275	protein_coding	KNOWN	None	320	1044	347	32106368	32109646	-1	None	RAGE
HSCHR6_MHC_QBL	AGER	ENSG00000206320	ENST00000462045	retained_intron	KNOWN	None	320	None	None	32106368	32109646	-1	None	RAGE
HSCHR6_MHC_QBL	AGER	ENSG00000206320	ENST00000451115	protein_coding	KNOWN	None	320	1215	404	32106368	32109724	-1	None	RAGE
HSCHR6_MHC_QBL	AGER	ENSG00000206320	ENST00000415973	protein_coding	KNOWN	None	320	703	233	32108268	32109635	-1	None	RAGE
HSCHR6_MHC_QBL	AGER	ENSG00000206320	ENST00000453119	protein_coding	KNOWN	None	320	700	232	32108280	32109637	-1	None	RAGE
HSCHR6_MHC_QBL	AGER	ENSG00000206320	ENST00000548034	protein_coding	KNOWN	None	320	462	153	32106522	32109632	-1	None	RAGE
HSCHR6_MHC_QBL	AGER	ENSG00000206320	ENST00000549168	protein_coding	KNOWN	None	320	885	294	32106543	32109622	-1	None	RAGE
HSCHR6_MHC_QBL	AGER	ENSG00000206320	ENST00000549776	protein_coding	KNOWN	None	320	402	133	32106543	32109622	-1	None	RAGE
HSCHR6_MHC_QBL	AGER	ENSG00000206320	ENST00000551254	protein_coding	KNOWN	None	320	1092	363	32106522	32109632	-1	None	RAGE
HSCHR6_MHC_QBL	AGER	ENSG00000206320	ENST00000547328	protein_coding	KNOWN	None	320	366	121	32106522	32109632	-1	None	RAGE
HSCHR6_MHC_QBL	AGER	ENSG00000206320	ENST00000550854	protein_coding	KNOWN	None	320	387	128	32108809	32109622	-1	None	RAGE
2	None	ENSG00000236391	ENST00000434546	transcribed_processed_pseudogene	KNOWN	None	None	None	None	174202947	174203189	-1	None	None
2	None	ENSG00000236391	ENST00000437243	processed_transcript	KNOWN	None	None	None	None	174203068	174220936	-1	None	None
18	RN7SKP44	ENSG00000200472	ENST00000363602	misc_RNA	KNOWN	None	45768	None	None	29298856	29299171	1	None	None
2	RN7SL468P	ENSG00000264833	ENST00000582256	misc_RNA	KNOWN	None	46484	None	None	119927398	119927691	1	None	None
3	ST3GAL6-AS1	ENSG00000239445	ENST00000488132	antisense	KNOWN	None	40828	None	None	98433174	98451492	-1	None	None
3	ST3GAL6-AS1	ENSG00000239445	ENST00000475816	antisense	KNOWN	None	40828	None	None	98433176	98451352	-1	None	None
3	ST3GAL6-AS1	ENSG00000239445	ENST00000461931	antisense	KNOWN	None	40828	None	None	98434149	98451495	-1	None	None
6	TMEM200A	ENSG00000164484	ENST00000296978	protein_coding	KNOWN	CCDS5140	21075	1476	491	130686879	130764208	1	KIAA1913	TTMC
6	TMEM200A	ENSG00000164484	ENST00000545622	protein_coding	KNOWN	CCDS5140	21075	1476	491	130742247	130763111	1	KIAA1913	TTMC
6	TMEM200A	ENSG00000164484	ENST00000392429	protein_coding	KNOWN	CCDS5140	21075	1476	491	130758262	130764206	1	KIAA1913	TTMC
2	RGPD6	ENSG00000183054	ENST00000463822	retained_intron	KNOWN	None	32419	None	None	111271389	111288707	-1	None	RGP6
2	RGPD6	ENSG00000183054	ENST00000329516	protein_coding	KNOWN	CCDS46388	32419	5298	1765	111271398	111334678	-1	None	RGP6
2	RGPD6	ENSG00000183054	ENST00000437167	protein_coding	PUTATIVE	None	32419	606	201	111290091	111291587	-1	None	RGP6
2	RGPD6	ENSG00000183054	ENST00000484024	nonsense_mediated_decay	KNOWN	None	32419	297	98	111293168	111325012	-1	None	RGP6
2	RGPD6	ENSG00000183054	ENST00000330331	protein_coding	KNOWN	CCDS42729	32419	2715	904	111296065	111334678	-1	None	RGP6
2	RGPD6	ENSG00000183054	ENST00000473101	retained_intron	KNOWN	None	32419	None	None	111303109	111304574	-1	None	RGP6
2	RGPD6	ENSG00000183054	ENST00000459645	retained_intron	KNOWN	None	32419	None	None	111315316	111320847	-1	None	RGP6
2	RGPD6	ENSG00000183054	ENST00000490990	processed_transcript	KNOWN	None	32419	None	None	111320773	111334667	-1	None	RGP6
2	RGPD6	ENSG00000183054	ENST00000446930	protein_coding	PUTATIVE	None	32419	405	134	111320908	111334762	-1	None	RGP6
2	RGPD6	ENSG00000183054	ENST00000480894	retained_intron	KNOWN	None	32419	None	None	111324529	111325609	-1	None	RGP6
2	RGPD6	ENSG00000183054	ENST00000455695	protein_coding	PUTATIVE	None	32419	170	55	111325545	111334400	-1	None	RGP6
2	STEAP3-AS1	ENSG00000229867	ENST00000454260	antisense	KNOWN	None	41053	None	None	120001998	120006647	-1	None	None
15	RN7SL853P	ENSG00000244666	ENST00000477951	misc_RNA	KNOWN	None	46869	None	None	72956896	72957171	1	None	None
2	None	ENSG00000270999	ENST00000603238	protein_coding	PUTATIVE	None	None	347	114	90458201	90458671	1	None	None
18	LRRC37A7P	ENSG00000265158	ENST00000583900	processed_transcript	KNOWN	None	43792	None	None	29304161	29306919	1	None	None
18	LRRC37A7P	ENSG00000265158	ENST00000585232	transcribed_processed_pseudogene	KNOWN	None	43792	None	None	29304191	29305727	1	None	None
6	None	ENSG00000259828	ENST00000565399	lincRNA	KNOWN	None	None	None	None	141768148	141772143	1	None	None
3	None	ENSG00000241546	ENST00000491262	processed_pseudogene	KNOWN	None	None	None	None	119760037	119760384	1	None	None
1	RNU2-12P	ENSG00000253025	ENST00000517216	snRNA	KNOWN	None	48505	None	None	176212998	176213165	-1	None	None
7	VN1R32P	ENSG00000230361	ENST00000452234	unitary_pseudogene	KNOWN	None	37352	None	None	62837707	62838611	1	None	None
11	None	ENSG00000228061	ENST00000429821	antisense	KNOWN	None	None	None	None	31658875	31789501	-1	None	None
11	None	ENSG00000228061	ENST00000454509	antisense	KNOWN	None	None	None	None	31710730	31789373	-1	None	None
11	None	ENSG00000228061	ENST00000434742	antisense	KNOWN	None	None	None	None	31749333	31789373	-1	None	None
8	None	ENSG00000253699	ENST00000523112	antisense	KNOWN	None	None	None	None	87192647	87224465	1	None	None
8	ALG1L13P	ENSG00000253981	ENST00000518201	processed_transcript	KNOWN	None	44382	None	None	8093525	8095872	-1	None	None
8	ALG1L13P	ENSG00000253981	ENST00000523017	processed_transcript	KNOWN	None	44382	None	None	8095196	8102189	-1	None	None
8	ALG1L13P	ENSG00000253981	ENST00000519320	transcribed_unprocessed_pseudogene	KNOWN	None	44382	None	None	8095696	8098933	-1	None	None
8	ALG1L13P	ENSG00000253981	ENST00000522393	processed_transcript	KNOWN	None	44382	None	None	8097746	8102015	-1	None	None
13	None	ENSG00000272542	ENST00000607072	lincRNA	KNOWN	None	None	None	None	103541208	103542184	1	None	None
11	RNU7-59P	ENSG00000238880	ENST00000459101	snRNA	KNOWN	None	34155	None	None	77277979	77278039	-1	None	U7.59
3	None	ENSG00000243832	ENST00000483245	lincRNA	KNOWN	None	None	None	None	133774100	133776492	-1	None	None
6	None	ENSG00000272223	ENST00000607790	antisense	KNOWN	None	None	None	None	43001635	43002143	-1	None	None
1	None	ENSG00000227815	ENST00000440296	unprocessed_pseudogene	KNOWN	None	None	None	None	176241619	176242538	1	None	None
1	None	ENSG00000232274	ENST00000422129	lincRNA	KNOWN	None	None	None	None	143118704	143195711	-1	None	None
1	None	ENSG00000232274	ENST00000412204	lincRNA	KNOWN	None	None	None	None	143118705	143211070	-1	None	None
1	None	ENSG00000232274	ENST00000437267	lincRNA	KNOWN	None	None	None	None	143186156	143194239	-1	None	None
1	None	ENSG00000232274	ENST00000420598	lincRNA	KNOWN	None	None	None	None	143188509	143195834	-1	None	None
1	None	ENSG00000232274	ENST00000413897	lincRNA	KNOWN	None	None	None	None	143188509	143196803	-1	None	None
1	None	ENSG00000232274	ENST00000447389	lincRNA	KNOWN	None	None	None	None	143188795	143196803	-1	None	None
1	None	ENSG00000232274	ENST00000452738	lincRNA	KNOWN	None	None	None	None	143193889	143195886	-1	None	None
1	None	ENSG00000232274	ENST00000435913	lincRNA	KNOWN	None	None	None	None	143193902	143196803	-1	None	None
7	None	ENSG00000229858	ENST00000417179	processed_pseudogene	KNOWN	None	None	None	None	130507627	130507978	-1	None	None
20	MROH8	ENSG00000101353	ENST00000417458	protein_coding	KNOWN	None	16125	2011	669	35729629	35787307	-1	C20orf131, C20orf132	dJ621N11.4, dJ621N11.3
20	MROH8	ENSG00000101353	ENST00000343811	protein_coding	KNOWN	None	16125	3209	1068	35729629	35807962	-1	C20orf131, C20orf132	dJ621N11.4, dJ621N11.3
20	MROH8	ENSG00000101353	ENST00000466091	processed_transcript	KNOWN	None	16125	None	None	35729633	35737067	-1	C20orf131, C20orf132	dJ621N11.4, dJ621N11.3
20	MROH8	ENSG00000101353	ENST00000400440	protein_coding	KNOWN	None	16125	1889	628	35757224	35807974	-1	C20orf131, C20orf132	dJ621N11.4, dJ621N11.3
20	MROH8	ENSG00000101353	ENST00000421643	protein_coding	KNOWN	None	16125	1801	599	35757224	35807991	-1	C20orf131, C20orf132	dJ621N11.4, dJ621N11.3
20	MROH8	ENSG00000101353	ENST00000434295	protein_coding	KNOWN	None	16125	104	33	35787374	35807741	-1	C20orf131, C20orf132	dJ621N11.4, dJ621N11.3
20	MROH8	ENSG00000101353	ENST00000422138	protein_coding	KNOWN	None	16125	74	23	35787404	35807369	-1	C20orf131, C20orf132	dJ621N11.4, dJ621N11.3
20	MROH8	ENSG00000101353	ENST00000400441	protein_coding	KNOWN	None	16125	3129	1042	35729638	35807883	-1	C20orf131, C20orf132	dJ621N11.4, dJ621N11.3
20	MROH8	ENSG00000101353	ENST00000217333	protein_coding	KNOWN	None	16125	2616	871	35729638	35802521	-1	C20orf131, C20orf132	dJ621N11.4, dJ621N11.3
20	MROH8	ENSG00000101353	ENST00000441008	protein_coding	KNOWN	None	16125	2799	932	35729630	35807847	-1	C20orf131, C20orf132	dJ621N11.4, dJ621N11.3
12	None	ENSG00000256804	ENST00000540993	processed_pseudogene	KNOWN	None	None	None	None	132611006	132611309	-1	None	None
X	None	ENSG00000228354	ENST00000450868	processed_pseudogene	KNOWN	None	None	None	None	52684257	52686304	1	None	None
6	RN7SKP106	ENSG00000222764	ENST00000410832	misc_RNA	KNOWN	None	45830	None	None	141807278	141807549	-1	None	None
1	SLAMF7	ENSG00000026751	ENST00000488819	processed_transcript	KNOWN	None	21394	None	None	160709037	160718158	1	None	CRACC, 19A, CS1, CD319
1	SLAMF7	ENSG00000026751	ENST00000368043	protein_coding	KNOWN	CCDS1209	21394	1008	335	160709055	160724611	1	None	CRACC, 19A, CS1, CD319
1	SLAMF7	ENSG00000026751	ENST00000368042	protein_coding	KNOWN	None	21394	687	228	160709058	160724611	1	None	CRACC, 19A, CS1, CD319
1	SLAMF7	ENSG00000026751	ENST00000359331	protein_coding	NOVEL	None	21394	891	296	160709081	160724611	1	None	CRACC, 19A, CS1, CD319
1	SLAMF7	ENSG00000026751	ENST00000495334	protein_coding	PUTATIVE	None	21394	708	235	160709094	160722036	1	None	CRACC, 19A, CS1, CD319
1	SLAMF7	ENSG00000026751	ENST00000484221	retained_intron	KNOWN	None	21394	None	None	160720213	160724611	1	None	CRACC, 19A, CS1, CD319
1	SLAMF7	ENSG00000026751	ENST00000441662	protein_coding	KNOWN	None	21394	615	204	160709040	160723655	1	None	CRACC, 19A, CS1, CD319
1	SLAMF7	ENSG00000026751	ENST00000458602	protein_coding	KNOWN	None	21394	567	188	160709060	160723720	1	None	CRACC, 19A, CS1, CD319
1	SLAMF7	ENSG00000026751	ENST00000444090	protein_coding	KNOWN	None	21394	498	165	160709039	160723442	1	None	CRACC, 19A, CS1, CD319
1	SLAMF7	ENSG00000026751	ENST00000458104	protein_coding	KNOWN	None	21394	450	149	160709067	160723392	1	None	CRACC, 19A, CS1, CD319
2	None	ENSG00000213148	ENST00000456671	processed_pseudogene	KNOWN	None	None	None	None	174296077	174296540	-1	None	None
13	None	ENSG00000234551	ENST00000444795	lincRNA	KNOWN	None	None	None	None	104077550	104080035	1	None	None
2	CNNM3	ENSG00000168763	ENST00000377060	protein_coding	KNOWN	CCDS2026	104	1980	659	97481982	97499648	1	ACDP3	None
2	CNNM3	ENSG00000168763	ENST00000305510	protein_coding	KNOWN	CCDS2025	104	2124	707	97481987	97499648	1	ACDP3	None
2	CNNM3	ENSG00000168763	ENST00000465224	retained_intron	KNOWN	None	104	None	None	97490912	97499314	1	ACDP3	None
2	CNNM3	ENSG00000168763	ENST00000494595	retained_intron	KNOWN	None	104	None	None	97492570	97493717	1	ACDP3	None
2	CNNM3	ENSG00000168763	ENST00000480035	processed_transcript	KNOWN	None	104	None	None	97494303	97498310	1	ACDP3	None
2	None	ENSG00000228325	ENST00000443397	protein_coding	PUTATIVE	None	None	359	118	90537839	90538397	-1	None	None
7	None	ENSG00000230600	ENST00000425228	lincRNA	KNOWN	None	None	None	None	62840844	62846167	-1	None	None
2	None	ENSG00000231013	ENST00000413602	antisense	KNOWN	None	None	None	None	120234024	120244922	1	None	None
2	None	ENSG00000231013	ENST00000457436	antisense	KNOWN	None	None	None	None	120234266	120243585	1	None	None
3	None	ENSG00000242622	ENST00000484076	lincRNA	KNOWN	None	None	None	None	119813742	119855630	1	None	None
3	None	ENSG00000242622	ENST00000469070	lincRNA	KNOWN	None	None	None	None	119814117	119818033	1	None	None
3	None	ENSG00000242622	ENST00000485898	lincRNA	KNOWN	None	None	None	None	119814477	119817634	1	None	None
HSCHR1_2_CTG31	None	ENSG00000262734	ENST00000574204	unprocessed_pseudogene	KNOWN	None	None	None	None	155180970	155183462	-1	None	None
6	RN7SL403P	ENSG00000240625	ENST00000481783	misc_RNA	KNOWN	None	46419	None	None	43003936	43004238	-1	None	None
15	None	ENSG00000261281	ENST00000564938	transcribed_processed_pseudogene	KNOWN	None	None	None	None	72974607	72975245	-1	None	None
7	MTPN	ENSG00000105887	ENST00000393085	protein_coding	KNOWN	CCDS5842	15667	357	118	135611509	135662064	-1	None	MYOTROPHIN, GCDP, V-1
7	MTPN	ENSG00000105887	ENST00000435723	protein_coding	PUTATIVE	None	15667	159	52	135614207	135662101	-1	None	MYOTROPHIN, GCDP, V-1
7	ARF1P1	ENSG00000219807	ENST00000406466	processed_pseudogene	KNOWN	None	22500	None	None	94463216	94463759	1	None	None
1	MEGF6	ENSG00000162591	ENST00000294599	protein_coding	KNOWN	None	3232	3690	1229	3406484	3448012	-1	EGFL3	None
1	MEGF6	ENSG00000162591	ENST00000356575	protein_coding	KNOWN	CCDS41237	3232	4626	1541	3406490	3528059	-1	EGFL3	None
1	MEGF6	ENSG00000162591	ENST00000494257	retained_intron	KNOWN	None	3232	None	None	3406876	3410050	-1	EGFL3	None
1	MEGF6	ENSG00000162591	ENST00000485002	nonsense_mediated_decay	KNOWN	None	3232	3972	1323	3407126	3527841	-1	EGFL3	None
1	MEGF6	ENSG00000162591	ENST00000491842	protein_coding	NOVEL	None	3232	743	246	3407489	3413281	-1	EGFL3	None
1	MEGF6	ENSG00000162591	ENST00000475790	retained_intron	KNOWN	None	3232	None	None	3409203	3412578	-1	EGFL3	None
1	MEGF6	ENSG00000162591	ENST00000461795	retained_intron	KNOWN	None	3232	None	None	3409292	3410808	-1	EGFL3	None
13	ATP6V1G1P7	ENSG00000230474	ENST00000415853	processed_pseudogene	KNOWN	None	39852	None	None	104096970	104097318	-1	None	None
6	None	ENSG00000272170	ENST00000606123	antisense	KNOWN	None	None	None	None	43042069	43042477	-1	None	None
12	None	ENSG00000270032	ENST00000342887	retained_intron	KNOWN	None	None	None	None	97041753	97159048	1	None	None
12	None	ENSG00000270032	ENST00000524981	protein_coding	PUTATIVE	None	None	4644	1547	97041753	97269333	1	None	None
2	None	ENSG00000236832	ENST00000448468	processed_pseudogene	KNOWN	None	None	None	None	174342724	174343128	-1	None	None
18	None	ENSG00000263772	ENST00000584628	processed_pseudogene	KNOWN	None	None	None	None	29306006	29306360	-1	None	None
4	DUTP7	ENSG00000250473	ENST00000507982	processed_pseudogene	KNOWN	None	39520	None	None	52731216	52731701	-1	None	None
12	None	ENSG00000257779	ENST00000546650	processed_pseudogene	KNOWN	None	None	None	None	63396249	63396575	1	None	None
1	None	ENSG00000231020	ENST00000432461	processed_pseudogene	KNOWN	None	None	None	None	176274808	176275231	-1	None	None
7	None	ENSG00000232817	ENST00000450077	lincRNA	KNOWN	None	None	None	None	62849186	62854035	-1	None	None
6	None	ENSG00000245261	ENST00000500590	antisense	KNOWN	None	None	None	None	43181539	43191598	-1	None	None
17	CHRNB1	ENSG00000170175	ENST00000306071	protein_coding	KNOWN	CCDS11106	1961	1506	501	7348380	7361026	1	CHRNB	None
17	CHRNB1	ENSG00000170175	ENST00000572857	protein_coding	NOVEL	None	1961	475	157	7348383	7350408	1	CHRNB	None
17	CHRNB1	ENSG00000170175	ENST00000574054	retained_intron	KNOWN	None	1961	None	None	7348427	7349093	1	CHRNB	None
17	CHRNB1	ENSG00000170175	ENST00000570557	protein_coding	NOVEL	None	1961	947	314	7348658	7359179	1	CHRNB	None
17	CHRNB1	ENSG00000170175	ENST00000536404	protein_coding	PUTATIVE	None	1961	1290	429	7348822	7360245	1	CHRNB	None
17	CHRNB1	ENSG00000170175	ENST00000576360	protein_coding	PUTATIVE	None	1961	1143	380	7348850	7360634	1	CHRNB	None
17	CHRNB1	ENSG00000170175	ENST00000573209	retained_intron	KNOWN	None	1961	None	None	7348862	7359008	1	CHRNB	None
17	CHRNB1	ENSG00000170175	ENST00000575379	protein_coding	PUTATIVE	None	1961	114	37	7358913	7360648	1	CHRNB	None
12	None	ENSG00000203593	ENST00000354425	antisense	KNOWN	None	None	None	None	2113832	2120558	1	None	None
X	RNA5SP504	ENSG00000222608	ENST00000410676	rRNA	KNOWN	None	43404	None	None	52694281	52694397	1	RN5S504	None
13	RPL7P45	ENSG00000225823	ENST00000455851	processed_pseudogene	KNOWN	None	35522	None	None	105466678	105467420	1	None	None
16	None	ENSG00000260908	ENST00000567688	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	29065053	29118766	-1	None	None
16	None	ENSG00000260908	ENST00000562618	processed_transcript	KNOWN	None	None	None	None	29114978	29119032	-1	None	None
16	None	ENSG00000260908	ENST00000565800	processed_transcript	KNOWN	None	None	None	None	29118978	29119429	-1	None	None
7	None	ENSG00000240680	ENST00000438302	processed_pseudogene	KNOWN	None	None	None	None	130507964	130508270	-1	None	None
3	None	ENSG00000242097	ENST00000489539	processed_pseudogene	KNOWN	None	None	None	None	151477535	151479799	-1	None	None
3	HMGB3P14	ENSG00000231845	ENST00000494195	processed_pseudogene	KNOWN	None	39306	None	None	133889331	133889929	1	None	None
18	None	ENSG00000263924	ENST00000582269	antisense	KNOWN	None	None	None	None	29424351	29425141	1	None	None
2	None	ENSG00000226131	ENST00000440938	processed_pseudogene	KNOWN	None	None	None	None	174350593	174351090	-1	None	None
4	None	ENSG00000243929	ENST00000473096	processed_pseudogene	KNOWN	None	None	None	None	52844245	52844538	-1	None	None
6	None	ENSG00000219222	ENST00000406185	processed_pseudogene	KNOWN	None	None	None	None	43277969	43278095	1	None	None
X	None	ENSG00000225508	ENST00000443473	unprocessed_pseudogene	KNOWN	None	None	None	None	52701768	52706101	1	None	None
7	None	ENSG00000223889	ENST00000442493	processed_pseudogene	KNOWN	None	None	None	None	62854127	62854487	-1	None	None
7	MIR548F4	ENSG00000221442	ENST00000408515	miRNA	KNOWN	None	35308	None	None	147075109	147075213	-1	MIRN548F4	hsa-mir-548f-4
3	None	ENSG00000240006	ENST00000482019	lincRNA	KNOWN	None	None	None	None	134032418	134040013	1	None	None
13	DAOA-AS1	ENSG00000232307	ENST00000448407	antisense	KNOWN	None	30243	None	None	106111404	106158030	-1	DAOAAS, DAOA-AS	G30
10	FXYD6P1	ENSG00000270762	ENST00000604857	processed_pseudogene	KNOWN	None	4031	None	None	43050888	43051172	1	None	None
1	MORF4L1P7	ENSG00000225904	ENST00000426038	processed_pseudogene	KNOWN	None	39259	None	None	176336835	176337537	-1	None	None
14	IGHVIII-2-1	ENSG00000253780	ENST00000518843	IG_V_pseudogene	KNOWN	None	5695	None	None	106467677	106467967	-1	None	IGHV(III)-2-1
2	None	ENSG00000265553	ENST00000579646	miRNA	NOVEL	None	None	None	None	120328476	120328576	1	None	None
15	None	ENSG00000259212	ENST00000558389	antisense	KNOWN	None	None	None	None	91139072	91139679	-1	None	None
21	None	ENSG00000237604	ENST00000411956	lincRNA	KNOWN	None	None	None	None	45595372	45596336	1	None	None
4	None	ENSG00000251040	ENST00000511875	lincRNA	KNOWN	None	None	None	None	52910971	52913120	1	None	None
18	None	ENSG00000270518	ENST00000604384	processed_pseudogene	KNOWN	None	None	None	None	29462583	29462865	1	None	None
11	None	ENSG00000271767	ENST00000607263	miRNA	NOVEL	None	None	None	None	77306156	77306224	-1	None	None
12	None	ENSG00000257896	ENST00000552999	processed_transcript	KNOWN	None	None	None	None	44130431	44132992	1	None	None
12	None	ENSG00000257896	ENST00000549403	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	44132632	44133657	1	None	None
12	None	ENSG00000257896	ENST00000548437	processed_transcript	KNOWN	None	None	None	None	44133438	44134870	1	None	None
7	None	ENSG00000227305	ENST00000424036	processed_transcript	PUTATIVE	None	None	None	None	62854166	62882424	1	None	None
1	None	ENSG00000230220	ENST00000454327	sense_intronic	KNOWN	None	None	None	None	176477904	176478979	1	None	None
10	EIF3LP2	ENSG00000233837	ENST00000457262	processed_pseudogene	KNOWN	None	24657	None	None	43062125	43062931	1	EIF3S6IPP2, EIF3EIPP2	None
18	None	ENSG00000270879	ENST00000605421	processed_pseudogene	KNOWN	None	None	None	None	29464821	29465106	1	None	None
11	None	ENSG00000206816	ENST00000384089	misc_RNA	NOVEL	None	None	None	None	77402695	77402796	1	None	None
8	None	ENSG00000254231	ENST00000521326	lincRNA	KNOWN	None	None	None	None	87345503	87355543	-1	None	None
8	None	ENSG00000254231	ENST00000523218	retained_intron	KNOWN	None	None	None	None	87350162	87355421	-1	None	None
2	None	ENSG00000237016	ENST00000436223	processed_pseudogene	KNOWN	None	None	None	None	174439838	174441069	-1	None	None
HG1063_PATCH	C5orf30	ENSG00000261887	ENST00000575217	protein_coding	KNOWN	None	25052	621	206	102594406	102614364	1	None	FLJ25291
HG1063_PATCH	C5orf30	ENSG00000261887	ENST00000570651	protein_coding	KNOWN	None	25052	621	206	102594740	102612932	1	None	FLJ25291
HG1063_PATCH	C5orf30	ENSG00000261887	ENST00000573864	protein_coding	KNOWN	None	25052	621	206	102595128	102614075	1	None	FLJ25291
8	CDC42P3	ENSG00000253971	ENST00000518493	processed_pseudogene	KNOWN	None	44427	None	None	144077267	144077899	1	None	None
3	HMGB3P12	ENSG00000237603	ENST00000438745	processed_pseudogene	KNOWN	None	39304	None	None	26257813	26258368	1	None	None
6	None	ENSG00000220614	ENST00000406943	processed_pseudogene	KNOWN	None	None	None	None	43295872	43296214	1	None	None
16	None	ENSG00000238699	ENST00000458995	snoRNA	NOVEL	None	None	None	None	29077576	29077679	-1	None	None
11	RSF1-IT2	ENSG00000254985	ENST00000529656	sense_intronic	KNOWN	None	41438	None	None	77428757	77429456	-1	None	None
18	RNU6-1050P	ENSG00000222320	ENST00000410388	snRNA	KNOWN	None	48013	None	None	29517496	29517602	1	None	None
2	None	ENSG00000229326	ENST00000432914	processed_pseudogene	KNOWN	None	None	None	None	120456199	120457727	1	None	None
2	None	ENSG00000229326	ENST00000541202	processed_pseudogene	KNOWN	None	None	None	None	120457510	120457733	1	None	None
12	None	ENSG00000256576	ENST00000538731	lincRNA	KNOWN	None	None	None	None	132671287	132674240	-1	None	None
12	LDHAL6CP	ENSG00000250517	ENST00000502352	transcribed_processed_pseudogene	KNOWN	None	39423	None	None	63397333	63398474	1	None	LDH6C
12	LDHAL6CP	ENSG00000250517	ENST00000550738	processed_transcript	KNOWN	None	39423	None	None	63397459	63400682	1	None	LDH6C
X	None	ENSG00000236929	ENST00000444401	processed_pseudogene	KNOWN	None	None	None	None	15135559	15135890	-1	None	None
21	None	ENSG00000232124	ENST00000437557	antisense	KNOWN	None	None	None	None	45621173	45622579	1	None	None
2	TEKT4	ENSG00000163060	ENST00000468063	retained_intron	KNOWN	None	31012	None	None	95537178	95542568	1	None	MGC27019
2	TEKT4	ENSG00000163060	ENST00000295201	protein_coding	KNOWN	CCDS2005	31012	1308	435	95537188	95542574	1	None	MGC27019
2	TEKT4	ENSG00000163060	ENST00000427593	protein_coding	KNOWN	None	31012	678	225	95537253	95539126	1	None	MGC27019
18	None	ENSG00000263823	ENST00000580420	antisense	KNOWN	None	None	None	None	29522538	29524119	1	None	None
11	OR5E1P	ENSG00000170688	ENST00000305754	unprocessed_pseudogene	KNOWN	None	8342	None	None	7870247	7871173	1	OR5E1	TPCR24, HSTPCR24
11	OR5E1P	ENSG00000170688	ENST00000539139	unprocessed_pseudogene	KNOWN	None	8342	None	None	7870598	7871182	1	OR5E1	TPCR24, HSTPCR24
1	PTP4A1P7	ENSG00000237514	ENST00000423476	processed_pseudogene	KNOWN	None	41934	None	None	176585409	176585922	-1	None	None
1	PTP4A1P7	ENSG00000237514	ENST00000422603	processed_pseudogene	KNOWN	None	41934	None	None	176585404	176585925	-1	None	None
5	None	ENSG00000248966	ENST00000505813	processed_pseudogene	KNOWN	None	None	None	None	110283728	110286479	-1	None	None
4	None	ENSG00000251286	ENST00000507811	processed_pseudogene	KNOWN	None	None	None	None	53306660	53307701	-1	None	None
19	CYP2G2P	ENSG00000268101	ENST00000594920	unprocessed_pseudogene	KNOWN	None	15653	None	None	41556354	41568349	-1	CYP2G2	CYP2GP2
15	None	ENSG00000259314	ENST00000559839	antisense	KNOWN	None	None	None	None	91147457	91157790	-1	None	None
14	IGHVIII-5-1	ENSG00000253387	ENST00000523059	IG_V_pseudogene	KNOWN	None	5702	None	None	106495898	106495996	-1	None	IGHV(III)-5-1
11	FTH1P16	ENSG00000227376	ENST00000435241	processed_pseudogene	KNOWN	None	3986	None	None	77445520	77446071	-1	FTH2, FTHL16	None
18	PGDP1	ENSG00000265273	ENST00000581802	processed_pseudogene	KNOWN	None	8892	None	None	29542141	29543581	1	PGDL1	None
21	None	ENSG00000232698	ENST00000423967	lincRNA	KNOWN	None	None	None	None	45626408	45627282	-1	None	None
13	LINC00343	ENSG00000226620	ENST00000596398	lincRNA	KNOWN	None	42500	None	None	106357848	106359968	1	NCRNA00343	None
13	LINC00343	ENSG00000226620	ENST00000601607	lincRNA	KNOWN	None	42500	None	None	106358271	106359967	1	NCRNA00343	None
13	LINC00343	ENSG00000226620	ENST00000599179	lincRNA	KNOWN	None	42500	None	None	106358448	106359967	1	NCRNA00343	None
13	LINC00343	ENSG00000226620	ENST00000598478	lincRNA	KNOWN	None	42500	None	None	106358978	106359968	1	NCRNA00343	None
13	LINC00343	ENSG00000226620	ENST00000454555	lincRNA	KNOWN	None	42500	None	None	106358994	106414449	1	NCRNA00343	None
13	LINC00343	ENSG00000226620	ENST00000599264	lincRNA	KNOWN	None	42500	None	None	106359248	106370899	1	NCRNA00343	None
13	LINC00343	ENSG00000226620	ENST00000415294	lincRNA	KNOWN	None	42500	None	None	106359825	106416789	1	NCRNA00343	None
13	LINC00343	ENSG00000226620	ENST00000598229	lincRNA	KNOWN	None	42500	None	None	106413678	106416591	1	NCRNA00343	None
8	None	ENSG00000271555	ENST00000605049	sense_intronic	KNOWN	None	None	None	None	53635463	53635701	1	None	None
5	None	ENSG00000248428	ENST00000507627	lincRNA	KNOWN	None	None	None	None	110306650	110344598	-1	None	None
11	None	ENSG00000255287	ENST00000533275	processed_pseudogene	KNOWN	None	None	None	None	92670607	92670832	1	None	None
8	AK3P2	ENSG00000250115	ENST00000507976	processed_pseudogene	KNOWN	None	31099	None	None	144138477	144139233	-1	None	HsT26053
19	ZNF582	ENSG00000018869	ENST00000589143	protein_coding	PUTATIVE	None	26421	310	102	56887413	56904847	-1	None	FLJ30927
19	ZNF582	ENSG00000018869	ENST00000301310	protein_coding	KNOWN	CCDS33121	26421	1554	517	56894121	56904889	-1	None	FLJ30927
19	ZNF582	ENSG00000018869	ENST00000586929	protein_coding	KNOWN	CCDS33121	26421	1554	517	56895139	56904914	-1	None	FLJ30927
19	ZNF582	ENSG00000018869	ENST00000587778	non_stop_decay	KNOWN	None	26421	544	180	56896242	56904697	-1	None	FLJ30927
19	ZNF582	ENSG00000018869	ENST00000593145	non_stop_decay	KNOWN	None	26421	535	177	56896251	56904907	-1	None	FLJ30927
19	ZNF582	ENSG00000018869	ENST00000589895	protein_coding	KNOWN	None	26421	235	77	56901367	56904799	-1	None	FLJ30927
11	None	ENSG00000255149	ENST00000530590	processed_pseudogene	KNOWN	None	None	None	None	110747718	110747901	-1	None	None
X	None	ENSG00000237275	ENST00000440592	processed_pseudogene	KNOWN	None	None	None	None	52716413	52716683	-1	None	None
14	RNU11-5P	ENSG00000212518	ENST00000391216	snRNA	KNOWN	None	46945	None	None	29945990	29946118	1	None	None
X	None	ENSG00000225833	ENST00000421585	antisense	KNOWN	None	None	None	None	15621004	15639607	1	None	None
4	RNU6-1252P	ENSG00000199924	ENST00000363054	snRNA	KNOWN	None	48215	None	None	53361015	53361118	1	None	None
15	None	ENSG00000259188	ENST00000560375	antisense	KNOWN	None	None	None	None	50171801	50175720	1	None	None
15	None	ENSG00000259188	ENST00000558150	antisense	KNOWN	None	None	None	None	50172622	50175722	1	None	None
10	None	ENSG00000272373	ENST00000462075	processed_transcript	KNOWN	None	None	None	None	43069633	43090115	-1	None	None
10	None	ENSG00000272373	ENST00000486187	processed_transcript	KNOWN	None	None	None	None	43077042	43134001	-1	None	None
10	None	ENSG00000272373	ENST00000465206	processed_transcript	KNOWN	None	None	None	None	43078139	43127815	-1	None	None
10	None	ENSG00000272373	ENST00000476796	processed_transcript	KNOWN	None	None	None	None	43127256	43133969	-1	None	None
10	None	ENSG00000272373	ENST00000493285	processed_transcript	KNOWN	None	None	None	None	43127377	43133999	-1	None	None
10	None	ENSG00000272373	ENST00000486614	processed_transcript	KNOWN	None	None	None	None	43132274	43134016	-1	None	None
14	None	ENSG00000257120	ENST00000550941	antisense	KNOWN	None	None	None	None	30122015	30127122	1	None	None
3	None	ENSG00000223719	ENST00000454211	processed_pseudogene	KNOWN	None	None	None	None	6734006	6734775	1	None	None
4	None	ENSG00000239068	ENST00000459377	snoRNA	NOVEL	None	None	None	None	53376179	53376282	1	None	None
14	SPTLC2	ENSG00000100596	ENST00000216484	protein_coding	KNOWN	CCDS9865	11278	1689	562	77972340	78083116	-1	None	KIAA0526, LCB2, LCB2A, hLCB2a
14	SPTLC2	ENSG00000100596	ENST00000556607	nonsense_mediated_decay	KNOWN	None	11278	123	40	77978684	78018535	-1	None	KIAA0526, LCB2, LCB2A, hLCB2a
14	SPTLC2	ENSG00000100596	ENST00000554901	protein_coding	PUTATIVE	None	11278	1222	406	78001943	78063664	-1	None	KIAA0526, LCB2, LCB2A, hLCB2a
14	SPTLC2	ENSG00000100596	ENST00000554365	retained_intron	KNOWN	None	11278	None	None	78018463	78023664	-1	None	KIAA0526, LCB2, LCB2A, hLCB2a
14	SPTLC2	ENSG00000100596	ENST00000556264	processed_transcript	PUTATIVE	None	11278	None	None	78018472	78021269	-1	None	KIAA0526, LCB2, LCB2A, hLCB2a
14	SPTLC2	ENSG00000100596	ENST00000557566	retained_intron	KNOWN	None	11278	None	None	78045109	78063694	-1	None	KIAA0526, LCB2, LCB2A, hLCB2a
21	None	ENSG00000232010	ENST00000442785	antisense	KNOWN	None	None	None	None	45670696	45671403	1	None	None
18	None	ENSG00000266105	ENST00000582538	processed_pseudogene	KNOWN	None	None	None	None	29546923	29547508	1	None	None
3	None	ENSG00000260633	ENST00000568384	lincRNA	KNOWN	None	None	None	None	134066130	134068075	-1	None	None
19	None	ENSG00000271299	ENST00000605729	processed_pseudogene	KNOWN	None	None	None	None	41579709	41580012	-1	None	None
4	USP46-AS1	ENSG00000248866	ENST00000503051	lincRNA	KNOWN	None	43991	None	None	53525573	53527835	1	None	None
2	None	ENSG00000237617	ENST00000422627	processed_pseudogene	KNOWN	None	None	None	None	174570676	174570876	-1	None	None
7	None	ENSG00000271159	ENST00000604731	processed_pseudogene	KNOWN	None	None	None	None	94647475	94647709	-1	None	None
X	None	ENSG00000223958	ENST00000435089	processed_pseudogene	KNOWN	None	None	None	None	52736652	52738983	1	None	None
3	RN7SL762P	ENSG00000244308	ENST00000469864	misc_RNA	KNOWN	None	46778	None	None	119829345	119829633	-1	None	None
HG79_PATCH	ADAMTS13	ENSG00000260099	ENST00000569414	processed_transcript	KNOWN	None	1366	None	None	136289893	136334921	1	C9orf8	VWFCP, TTP, vWF-CP, FLJ42993, MGC118899, MGC118900, DKFZp434C2322
HG79_PATCH	ADAMTS13	ENSG00000260099	ENST00000563979	protein_coding	KNOWN	None	1366	4284	1427	136297535	136334921	1	C9orf8	VWFCP, TTP, vWF-CP, FLJ42993, MGC118899, MGC118900, DKFZp434C2322
HG79_PATCH	ADAMTS13	ENSG00000260099	ENST00000563076	nonsense_mediated_decay	KNOWN	None	1366	1035	344	136297859	136325491	1	C9orf8	VWFCP, TTP, vWF-CP, FLJ42993, MGC118899, MGC118900, DKFZp434C2322
HG79_PATCH	ADAMTS13	ENSG00000260099	ENST00000568644	protein_coding	KNOWN	None	1366	4116	1371	136297859	136334921	1	C9orf8	VWFCP, TTP, vWF-CP, FLJ42993, MGC118899, MGC118900, DKFZp434C2322
HG79_PATCH	ADAMTS13	ENSG00000260099	ENST00000562694	protein_coding	KNOWN	None	1366	4023	1340	136297859	136334921	1	C9orf8	VWFCP, TTP, vWF-CP, FLJ42993, MGC118899, MGC118900, DKFZp434C2322
HG79_PATCH	ADAMTS13	ENSG00000260099	ENST00000568892	nonsense_mediated_decay	KNOWN	None	1366	831	276	136297860	136324144	1	C9orf8	VWFCP, TTP, vWF-CP, FLJ42993, MGC118899, MGC118900, DKFZp434C2322
HG79_PATCH	ADAMTS13	ENSG00000260099	ENST00000562382	protein_coding	KNOWN	None	1366	672	223	136331183	136334921	1	C9orf8	VWFCP, TTP, vWF-CP, FLJ42993, MGC118899, MGC118900, DKFZp434C2322
14	None	ENSG00000264797	ENST00000579683	miRNA	NOVEL	None	None	None	None	30174505	30174608	-1	None	None
X	None	ENSG00000237539	ENST00000334569	processed_pseudogene	KNOWN	None	None	None	None	15664290	15664998	-1	None	None
11	None	ENSG00000256508	ENST00000569432	antisense	KNOWN	None	None	None	None	68779751	68781534	1	None	None
11	None	ENSG00000256508	ENST00000569428	antisense	KNOWN	None	None	None	None	68779822	68780795	1	None	None
11	None	ENSG00000256508	ENST00000538407	antisense	KNOWN	None	None	None	None	68779899	68785915	1	None	None
11	None	ENSG00000254874	ENST00000532770	lincRNA	KNOWN	None	None	None	None	92698963	92699769	1	None	None
HSCHR1_2_CTG31	None	ENSG00000261905	ENST00000573136	unprocessed_pseudogene	KNOWN	None	None	None	None	155195549	155198898	1	None	None
12	RILPL1	ENSG00000188026	ENST00000376874	protein_coding	KNOWN	CCDS45006	26814	1212	403	123955925	124018265	-1	None	FLJ39378
12	RILPL1	ENSG00000188026	ENST00000340724	protein_coding	PUTATIVE	None	26814	852	283	123956615	123998975	-1	None	FLJ39378
12	RILPL1	ENSG00000188026	ENST00000544468	protein_coding	PUTATIVE	None	26814	231	76	123956714	123969521	-1	None	FLJ39378
5	None	ENSG00000251627	ENST00000509899	processed_pseudogene	KNOWN	None	None	None	None	110319262	110320165	-1	None	None
11	RSF1-IT1	ENSG00000255409	ENST00000528233	sense_intronic	KNOWN	None	41439	None	None	77449725	77450613	-1	None	None
2	None	ENSG00000270460	ENST00000604994	lincRNA	KNOWN	None	None	None	None	174675804	174676120	1	None	None
14	RNU6-1234P	ENSG00000252686	ENST00000516877	snRNA	KNOWN	None	48197	None	None	30281122	30281224	1	None	None
15	None	ENSG00000259736	ENST00000559531	antisense	KNOWN	None	None	None	None	91163239	91260372	-1	None	None
15	None	ENSG00000259736	ENST00000558105	antisense	KNOWN	None	None	None	None	91256224	91260280	-1	None	None
7	None	ENSG00000231153	ENST00000437672	processed_pseudogene	KNOWN	None	None	None	None	94647719	94647866	1	None	None
21	None	ENSG00000241728	ENST00000422357	processed_transcript	PUTATIVE	None	None	None	None	45748827	45749929	-1	None	None
21	None	ENSG00000241728	ENST00000444409	processed_transcript	PUTATIVE	None	None	None	None	45748827	45750104	-1	None	None
16	RRN3P2	ENSG00000103472	ENST00000564580	processed_transcript	KNOWN	None	37619	None	None	29086297	29128039	1	None	None
16	RRN3P2	ENSG00000103472	ENST00000427965	processed_transcript	KNOWN	None	37619	None	None	29086340	29127519	1	None	None
16	RRN3P2	ENSG00000103472	ENST00000566038	transcribed_unprocessed_pseudogene	KNOWN	None	37619	None	None	29086343	29115483	1	None	None
16	RRN3P2	ENSG00000103472	ENST00000415221	unprocessed_pseudogene	KNOWN	None	37619	None	None	29086163	29108619	1	None	None
16	RRN3P2	ENSG00000103472	ENST00000219758	unprocessed_pseudogene	KNOWN	None	37619	None	None	29086343	29107484	1	None	None
7	None	ENSG00000232716	ENST00000446451	processed_pseudogene	KNOWN	None	None	None	None	130524963	130528484	-1	None	None
1	MIR488	ENSG00000202609	ENST00000365739	miRNA	KNOWN	None	32073	None	None	176998499	176998581	-1	MIRN488	hsa-mir-488
14	None	ENSG00000257904	ENST00000553082	antisense	KNOWN	None	None	None	None	30409951	30449418	1	None	None
16	None	ENSG00000270097	ENST00000572086	lincRNA	KNOWN	None	None	None	None	3049903	3050390	1	None	None
3	RPL39P5	ENSG00000214289	ENST00000273411	processed_transcript	KNOWN	None	26015	None	None	134070694	134075403	-1	None	None
3	RPL39P5	ENSG00000214289	ENST00000512505	transcribed_processed_pseudogene	KNOWN	None	26015	None	None	134070781	134070931	-1	None	None
16	ZNF75A	ENSG00000162086	ENST00000498240	processed_transcript	KNOWN	None	13146	None	None	3355406	3368574	1	None	FLJ31529
16	ZNF75A	ENSG00000162086	ENST00000575234	retained_intron	KNOWN	None	13146	None	None	3355484	3359472	1	None	FLJ31529
16	ZNF75A	ENSG00000162086	ENST00000574298	protein_coding	KNOWN	CCDS10501	13146	891	296	3355486	3368852	1	None	FLJ31529
16	ZNF75A	ENSG00000162086	ENST00000571101	processed_transcript	KNOWN	None	13146	None	None	3355508	3367252	1	None	FLJ31529
16	ZNF75A	ENSG00000162086	ENST00000575812	retained_intron	KNOWN	None	13146	None	None	3358738	3362365	1	None	FLJ31529
16	ZNF75A	ENSG00000162086	ENST00000573828	processed_transcript	PUTATIVE	None	13146	None	None	3360611	3361906	1	None	FLJ31529
16	ZNF75A	ENSG00000162086	ENST00000572999	protein_coding	KNOWN	None	13146	113	36	3361620	3366924	1	None	FLJ31529
16	ZNF75A	ENSG00000162086	ENST00000575253	retained_intron	KNOWN	None	13146	None	None	3365991	3367446	1	None	FLJ31529
2	RPL5P7	ENSG00000234415	ENST00000444235	processed_pseudogene	KNOWN	None	36583	None	None	174736381	174737193	-1	None	None
1	None	ENSG00000222749	ENST00000410817	miRNA	NOVEL	None	None	None	None	177155496	177155588	-1	None	None
18	None	ENSG00000263917	ENST00000583184	processed_transcript	KNOWN	None	None	None	None	29598792	29691742	1	None	None
19	CYP2T3P	ENSG00000268529	ENST00000601990	unprocessed_pseudogene	KNOWN	None	18853	None	None	41640627	41643213	1	None	None
12	None	ENSG00000256312	ENST00000535242	lincRNA	KNOWN	None	None	None	None	132674758	132675542	1	None	None
3	RN7SL397P	ENSG00000244139	ENST00000487309	misc_RNA	KNOWN	None	46413	None	None	119840756	119841051	1	None	None
12	None	ENSG00000257453	ENST00000552367	antisense	KNOWN	None	None	None	None	76424274	76425158	1	None	None
22	None	ENSG00000235573	ENST00000420779	processed_pseudogene	KNOWN	None	None	None	None	31509003	31509382	1	None	None
1	None	ENSG00000224968	ENST00000451341	lincRNA	KNOWN	None	None	None	None	177320722	177335408	1	None	None
5	None	ENSG00000253613	ENST00000507269	antisense	KNOWN	None	None	None	None	110412619	110427813	-1	None	None
3	None	ENSG00000206721	ENST00000383994	misc_RNA	NOVEL	None	None	None	None	119929167	119929268	1	None	None
19	None	ENSG00000267149	ENST00000585492	processed_transcript	KNOWN	None	None	None	None	55538961	55565296	-1	None	None
19	None	ENSG00000267149	ENST00000591868	processed_transcript	KNOWN	None	None	None	None	55553407	55556317	-1	None	None
8	None	ENSG00000243328	ENST00000485679	processed_pseudogene	KNOWN	None	None	None	None	144147332	144148004	-1	None	None
X	CA5BP1	ENSG00000186312	ENST00000380336	processed_transcript	KNOWN	None	29544	None	None	15693055	15715874	1	CA5BL, CA5BP	PRO2325
X	CA5BP1	ENSG00000186312	ENST00000448692	processed_transcript	KNOWN	None	29544	None	None	15693096	15709364	1	CA5BL, CA5BP	PRO2325
X	CA5BP1	ENSG00000186312	ENST00000380334	processed_transcript	KNOWN	None	29544	None	None	15693669	15721847	1	CA5BL, CA5BP	PRO2325
X	CA5BP1	ENSG00000186312	ENST00000380333	processed_transcript	KNOWN	None	29544	None	None	15693838	15721472	1	CA5BL, CA5BP	PRO2325
X	CA5BP1	ENSG00000186312	ENST00000380331	processed_transcript	KNOWN	None	29544	None	None	15694417	15715583	1	CA5BL, CA5BP	PRO2325
X	CA5BP1	ENSG00000186312	ENST00000435806	transcribed_unprocessed_pseudogene	KNOWN	None	29544	None	None	15699176	15715888	1	CA5BL, CA5BP	PRO2325
14	None	ENSG00000258380	ENST00000556383	antisense	KNOWN	None	None	None	None	89866339	89875813	1	None	None
13	LINC00344	ENSG00000225562	ENST00000414368	lincRNA	KNOWN	None	42501	None	None	106382235	106384063	1	NCRNA00344	None
21	None	ENSG00000184441	ENST00000448927	processed_transcript	PUTATIVE	None	None	None	None	45751117	45755734	1	None	None
2	None	ENSG00000224638	ENST00000418620	lincRNA	KNOWN	None	None	None	None	174745593	174764156	-1	None	None
1	None	ENSG00000230850	ENST00000454861	lincRNA	KNOWN	None	None	None	None	143119061	143158071	1	None	None
1	None	ENSG00000230850	ENST00000447407	lincRNA	KNOWN	None	None	None	None	143119061	143231756	1	None	None
1	None	ENSG00000230850	ENST00000428930	lincRNA	KNOWN	None	None	None	None	143119061	143232318	1	None	None
1	None	ENSG00000230850	ENST00000438000	lincRNA	KNOWN	None	None	None	None	143119061	143233417	1	None	None
11	None	ENSG00000219529	ENST00000404439	processed_pseudogene	KNOWN	None	None	None	None	77524365	77524722	-1	None	None
12	None	ENSG00000257839	ENST00000547721	processed_transcript	PUTATIVE	None	None	None	None	76426438	76427677	1	None	None
22	None	ENSG00000214125	ENST00000397595	processed_pseudogene	KNOWN	None	None	None	None	31551952	31552633	-1	None	None
18	None	ENSG00000265063	ENST00000582018	miRNA	NOVEL	None	None	None	None	29640868	29640952	-1	None	None
13	None	ENSG00000252550	ENST00000516741	snoRNA	NOVEL	None	None	None	None	106549872	106549992	-1	None	None
16	None	ENSG00000260414	ENST00000568623	processed_pseudogene	KNOWN	None	None	None	None	33165673	33165796	-1	None	None
3	None	ENSG00000249274	ENST00000504327	processed_pseudogene	KNOWN	None	None	None	None	98501032	98502037	1	None	None
12	None	ENSG00000257235	ENST00000552996	lincRNA	KNOWN	None	None	None	None	63398118	63400321	-1	None	None
8	None	ENSG00000248911	ENST00000511357	processed_pseudogene	KNOWN	None	None	None	None	53887671	53888676	-1	None	None
1	None	ENSG00000227579	ENST00000438575	lincRNA	KNOWN	None	None	None	None	177362423	177546084	-1	None	None
1	None	ENSG00000227579	ENST00000458070	lincRNA	KNOWN	None	None	None	None	177362815	177566844	-1	None	None
21	None	ENSG00000255902	ENST00000333748	pseudogene	NOVEL	None	None	None	None	45751119	45751543	1	None	None
6	SMLR1	ENSG00000256162	ENST00000541421	protein_coding	PUTATIVE	CCDS59036	44670	324	107	131148546	131158275	1	None	None
13	None	ENSG00000222643	ENST00000410711	miRNA	NOVEL	None	None	None	None	106780720	106780837	1	None	None
16	None	ENSG00000260419	ENST00000569850	antisense	KNOWN	None	None	None	None	33202882	33206675	-1	None	None
18	None	ENSG00000214917	ENST00000484967	processed_pseudogene	KNOWN	None	None	None	None	29655848	29656235	-1	None	None
2	None	ENSG00000271151	ENST00000605739	lincRNA	KNOWN	None	None	None	None	174833079	174834146	1	None	None
3	None	ENSG00000240882	ENST00000498792	processed_pseudogene	KNOWN	None	None	None	None	120025573	120026799	1	None	None
13	RNA5SP38	ENSG00000222682	ENST00000410750	rRNA	KNOWN	None	42614	None	None	106807721	106807839	-1	RN5S38	None
21	None	ENSG00000232969	ENST00000426029	antisense	KNOWN	None	None	None	None	45759259	45760353	1	None	None
5	GOLPH3	ENSG00000113384	ENST00000265070	protein_coding	KNOWN	CCDS3896	15452	897	298	32124810	32174456	-1	None	GPP34, GOPP1, MIDAS
5	GOLPH3	ENSG00000113384	ENST00000503610	nonsense_mediated_decay	KNOWN	None	15452	282	93	32126473	32174408	-1	None	GPP34, GOPP1, MIDAS
5	GOLPH3	ENSG00000113384	ENST00000512668	processed_transcript	KNOWN	None	15452	None	None	32126701	32174423	-1	None	GPP34, GOPP1, MIDAS
11	MIR3164	ENSG00000265539	ENST00000581178	miRNA	KNOWN	None	38288	None	None	68850644	68850726	1	None	hsa-mir-3164
11	RPL26P31	ENSG00000242807	ENST00000463604	processed_pseudogene	KNOWN	None	36907	None	None	92785561	92785993	-1	None	None
18	None	ENSG00000265008	ENST00000582233	antisense	KNOWN	None	None	None	None	29671258	29672082	-1	None	None
15	NDNL2	ENSG00000185115	ENST00000332303	protein_coding	KNOWN	CCDS10023	7677	915	304	29560353	29562033	-1	None	HCA4, MAGEG1, MAGEL3, NSE3, NSMCE3
16	None	ENSG00000260827	ENST00000563960	lincRNA	KNOWN	None	None	None	None	33215094	33217783	-1	None	None
16	None	ENSG00000260827	ENST00000565847	lincRNA	KNOWN	None	None	None	None	33215175	33216055	-1	None	None
12	None	ENSG00000258212	ENST00000546499	processed_pseudogene	KNOWN	None	None	None	None	44402423	44403946	-1	None	None
12	None	ENSG00000257830	ENST00000549788	antisense	KNOWN	None	None	None	None	52668431	52672940	-1	None	None
21	None	ENSG00000260256	ENST00000568332	lincRNA	KNOWN	None	None	None	None	45767650	45768178	-1	None	None
10	None	ENSG00000272319	ENST00000607292	unprocessed_pseudogene	KNOWN	None	None	None	None	43075172	43078220	1	None	None
13	LINC00460	ENSG00000233532	ENST00000439790	lincRNA	KNOWN	None	42809	None	None	107028911	107029723	1	None	None
13	LINC00460	ENSG00000233532	ENST00000435024	lincRNA	KNOWN	None	42809	None	None	107028911	107030565	1	None	None
13	LINC00460	ENSG00000233532	ENST00000444865	lincRNA	KNOWN	None	42809	None	None	107029140	107029993	1	None	None
16	None	ENSG00000270168	ENST00000573315	lincRNA	KNOWN	None	None	None	None	3051301	3052017	1	None	None
1	None	ENSG00000266393	ENST00000390740	miRNA	NOVEL	None	None	None	None	177522005	177522095	1	None	None
2	None	ENSG00000260868	ENST00000563759	lincRNA	KNOWN	None	None	None	None	174890008	174891891	1	None	None
17	DDX52	ENSG00000141141	ENST00000591354	nonsense_mediated_decay	KNOWN	None	20038	346	114	35969787	35981218	-1	None	ROK1
17	DDX52	ENSG00000141141	ENST00000349699	protein_coding	KNOWN	CCDS11323	20038	1800	599	35969826	36003493	-1	None	ROK1
17	DDX52	ENSG00000141141	ENST00000488402	nonsense_mediated_decay	KNOWN	None	20038	339	112	35973158	36003474	-1	None	ROK1
17	DDX52	ENSG00000141141	ENST00000592520	retained_intron	KNOWN	None	20038	None	None	35973800	36003447	-1	None	ROK1
17	DDX52	ENSG00000141141	ENST00000460080	nonsense_mediated_decay	KNOWN	None	20038	294	97	35979813	36003475	-1	None	ROK1
17	DDX52	ENSG00000141141	ENST00000589411	retained_intron	KNOWN	None	20038	None	None	35984101	35986132	-1	None	ROK1
17	DDX52	ENSG00000141141	ENST00000587431	nonsense_mediated_decay	KNOWN	None	20038	306	101	35986872	36003462	-1	None	ROK1
17	DDX52	ENSG00000141141	ENST00000491963	retained_intron	KNOWN	None	20038	None	None	35990839	36002800	-1	None	ROK1
17	DDX52	ENSG00000141141	ENST00000394367	protein_coding	KNOWN	None	20038	1476	491	35972413	36003487	-1	None	ROK1
3	RNU6-26P	ENSG00000206712	ENST00000383985	snRNA	KNOWN	None	34252	None	None	98523822	98523928	-1	RNU6-26	None
11	None	ENSG00000255445	ENST00000527756	processed_pseudogene	KNOWN	None	None	None	None	92885241	92885916	1	None	None
11	BTG4	ENSG00000137707	ENST00000356018	protein_coding	KNOWN	CCDS8346	13862	672	223	111338251	111383079	-1	None	PC3B
11	BTG4	ENSG00000137707	ENST00000525791	protein_coding	PUTATIVE	None	13862	621	206	111367237	111383064	-1	None	PC3B
11	BTG4	ENSG00000137707	ENST00000456861	protein_coding	KNOWN	None	13862	482	159	111367964	111383067	-1	None	PC3B
12	CACNA1C-IT1	ENSG00000256837	ENST00000542984	sense_intronic	KNOWN	None	41312	None	None	2127379	2129698	1	None	None
3	None	ENSG00000240602	ENST00000471766	processed_transcript	KNOWN	None	None	None	None	151488216	151491740	1	None	None
3	None	ENSG00000240602	ENST00000483636	processed_transcript	KNOWN	None	None	None	None	151488248	151502682	1	None	None
3	None	ENSG00000240602	ENST00000561502	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	151488262	151502209	1	None	None
3	None	ENSG00000240602	ENST00000463420	processed_transcript	KNOWN	None	None	None	None	151488266	151502205	1	None	None
3	None	ENSG00000240602	ENST00000496128	processed_transcript	KNOWN	None	None	None	None	151488360	151494700	1	None	None
3	None	ENSG00000240602	ENST00000462937	processed_transcript	KNOWN	None	None	None	None	151491267	151501697	1	None	None
16	APOBR	ENSG00000184730	ENST00000564831	protein_coding	KNOWN	CCDS58442	24087	3294	1097	28505970	28510291	1	None	APOB48R, APOB100R
16	APOBR	ENSG00000184730	ENST00000328423	protein_coding	KNOWN	None	24087	3210	1069	28505993	28510242	1	None	APOB48R, APOB100R
16	APOBR	ENSG00000184730	ENST00000431282	protein_coding	KNOWN	None	24087	3267	1088	28505993	28509963	1	None	APOB48R, APOB100R
21	None	ENSG00000230061	ENST00000423310	processed_transcript	KNOWN	None	None	None	None	45834473	45845155	-1	None	None
21	None	ENSG00000230061	ENST00000456880	processed_transcript	KNOWN	None	None	None	None	45834478	45836623	-1	None	None
12	GAS2L3	ENSG00000139354	ENST00000266754	protein_coding	KNOWN	CCDS9079	27475	2085	694	100967461	101018668	1	None	None
12	GAS2L3	ENSG00000139354	ENST00000547754	protein_coding	KNOWN	CCDS9079	27475	2085	694	100967489	101018697	1	None	None
12	GAS2L3	ENSG00000139354	ENST00000547739	processed_transcript	KNOWN	None	27475	None	None	100967501	100985579	1	None	None
12	GAS2L3	ENSG00000139354	ENST00000550295	protein_coding	KNOWN	None	27475	148	48	100967587	100994289	1	None	None
12	GAS2L3	ENSG00000139354	ENST00000537247	protein_coding	PUTATIVE	None	27475	1773	590	100987396	101018683	1	None	None
12	GAS2L3	ENSG00000139354	ENST00000548113	retained_intron	KNOWN	None	27475	None	None	100995420	101006312	1	None	None
12	GAS2L3	ENSG00000139354	ENST00000548067	retained_intron	KNOWN	None	27475	None	None	101005879	101012465	1	None	None
12	GAS2L3	ENSG00000139354	ENST00000552854	nonsense_mediated_decay	KNOWN	None	27475	1176	391	101017493	101022064	1	None	None
12	GAS2L3	ENSG00000139354	ENST00000539410	protein_coding	KNOWN	CCDS9079	27475	2085	694	100987396	101018683	1	None	None
11	None	ENSG00000254459	ENST00000525594	antisense	KNOWN	None	None	None	None	77540700	77583308	-1	None	None
1	None	ENSG00000236720	ENST00000427173	lincRNA	KNOWN	None	None	None	None	177669659	177679465	1	None	None
11	None	ENSG00000260895	ENST00000567925	lincRNA	KNOWN	None	None	None	None	68870961	68876562	1	None	None
14	None	ENSG00000259053	ENST00000555070	processed_transcript	KNOWN	None	None	None	None	89878656	90421003	-1	None	None
2	None	ENSG00000235414	ENST00000461543	processed_pseudogene	KNOWN	None	None	None	None	174907736	174908608	1	None	None
3	None	ENSG00000240661	ENST00000494869	antisense	KNOWN	None	None	None	None	120068357	120086845	1	None	None
10	None	ENSG00000272387	ENST00000606307	unprocessed_pseudogene	KNOWN	None	None	None	None	43078683	43078835	1	None	None
7	None	ENSG00000230190	ENST00000448131	sense_intronic	KNOWN	None	None	None	None	147368803	147370235	1	None	None
12	RSL24D1P5	ENSG00000257664	ENST00000553036	processed_pseudogene	KNOWN	None	37870	None	None	63449055	63449545	-1	None	None
17	None	ENSG00000259753	ENST00000560629	nonsense_mediated_decay	KNOWN	None	None	2362	786	45331263	45421658	1	None	None
14	RNU6-552P	ENSG00000199739	ENST00000362869	snRNA	KNOWN	None	47515	None	None	45743562	45743680	-1	None	None
14	NUDT14	ENSG00000183828	ENST00000550912	processed_transcript	KNOWN	None	20141	None	None	105639275	105640034	-1	None	UGPP
14	NUDT14	ENSG00000183828	ENST00000392568	protein_coding	KNOWN	CCDS10000	20141	669	222	105639276	105647640	-1	None	UGPP
14	NUDT14	ENSG00000183828	ENST00000551024	retained_intron	KNOWN	None	20141	None	None	105641825	105647660	-1	None	UGPP
14	NUDT14	ENSG00000183828	ENST00000550002	retained_intron	KNOWN	None	20141	None	None	105642202	105644094	-1	None	UGPP
14	NUDT14	ENSG00000183828	ENST00000339418	retained_intron	KNOWN	None	20141	None	None	105642763	105647580	-1	None	UGPP
14	NUDT14	ENSG00000183828	ENST00000546553	nonsense_mediated_decay	KNOWN	None	20141	291	96	105643078	105647649	-1	None	UGPP
9	SLC2A6	ENSG00000160326	ENST00000371897	protein_coding	KNOWN	CCDS48052	11011	1338	445	136336217	136344218	-1	None	GLUT9, GLUT6, HSA011372
9	SLC2A6	ENSG00000160326	ENST00000485978	processed_transcript	KNOWN	None	11011	None	None	136336217	136344218	-1	None	GLUT9, GLUT6, HSA011372
9	SLC2A6	ENSG00000160326	ENST00000371899	protein_coding	KNOWN	CCDS6975	11011	1524	507	136336217	136344259	-1	None	GLUT9, GLUT6, HSA011372
9	SLC2A6	ENSG00000160326	ENST00000432868	protein_coding	KNOWN	None	11011	659	218	136340522	136344249	-1	None	GLUT9, GLUT6, HSA011372
9	SLC2A6	ENSG00000160326	ENST00000414172	protein_coding	KNOWN	None	11011	438	145	136340528	136344197	-1	None	GLUT9, GLUT6, HSA011372
12	None	ENSG00000257947	ENST00000552558	antisense	KNOWN	None	None	None	None	44638177	44657765	-1	None	None
5	None	ENSG00000250728	ENST00000508225	processed_pseudogene	KNOWN	None	None	None	None	110490942	110491850	-1	None	None
17	HOXB9	ENSG00000170689	ENST00000311177	protein_coding	KNOWN	CCDS11534	5120	753	250	46698518	46703839	-1	HOX2E, HOX2	None
17	HOXB9	ENSG00000170689	ENST00000550387	protein_coding	PUTATIVE	None	5120	405	134	46699843	46703835	-1	HOX2E, HOX2	None
8	None	ENSG00000255076	ENST00000532973	sense_intronic	KNOWN	None	None	None	None	14736566	14737328	-1	None	None
12	None	ENSG00000257829	ENST00000552441	antisense	KNOWN	None	None	None	None	52700400	52702155	-1	None	None
12	None	ENSG00000256943	ENST00000543317	antisense	KNOWN	None	None	None	None	132851977	132853092	1	None	None
12	None	ENSG00000256943	ENST00000376617	antisense	KNOWN	None	None	None	None	132852030	132854915	1	None	None
1	None	ENSG00000237291	ENST00000424474	lincRNA	KNOWN	None	None	None	None	143154493	143169717	1	None	None
3	HMGN1P9	ENSG00000248377	ENST00000515212	processed_pseudogene	KNOWN	None	39352	None	None	134104039	134104336	1	None	None
10	None	ENSG00000271831	ENST00000606517	unprocessed_pseudogene	KNOWN	None	None	None	None	43079215	43079241	1	None	None
21	None	ENSG00000266692	ENST00000581669	snoRNA	NOVEL	None	None	None	None	45857004	45857058	1	None	None
2	None	ENSG00000270799	ENST00000605472	processed_pseudogene	KNOWN	None	None	None	None	175036619	175037453	1	None	None
3	None	ENSG00000239462	ENST00000474798	antisense	KNOWN	None	None	None	None	98621268	98737406	1	None	None
1	RNF223	ENSG00000237330	ENST00000453464	protein_coding	KNOWN	CCDS53257	40020	750	249	1006346	1009687	-1	None	None
X	None	ENSG00000200572	ENST00000363702	misc_RNA	NOVEL	None	None	None	None	133276258	133276370	-1	None	None
1	MIR3118-2	ENSG00000265661	ENST00000582397	miRNA	KNOWN	None	38324	None	None	143163750	143163822	1	None	hsa-mir-3118-2
11	None	ENSG00000254691	ENST00000527012	antisense	KNOWN	None	None	None	None	77561650	77562557	1	None	None
21	None	ENSG00000264452	ENST00000583496	snoRNA	NOVEL	None	None	None	None	45858918	45858993	1	None	None
1	None	ENSG00000242193	ENST00000476232	processed_transcript	KNOWN	None	None	None	None	177975271	178007085	-1	None	None
1	None	ENSG00000242193	ENST00000462729	unitary_pseudogene	KNOWN	None	None	None	None	177977219	178007081	-1	None	None
1	None	ENSG00000242193	ENST00000512906	processed_transcript	KNOWN	None	None	None	None	177991546	178007082	-1	None	None
1	None	ENSG00000242193	ENST00000481349	processed_transcript	PUTATIVE	None	None	None	None	178004409	178007059	-1	None	None
22	MIR3928	ENSG00000264141	ENST00000583386	miRNA	KNOWN	None	38933	None	None	31556048	31556105	-1	None	hsa-mir-3928
12	CACNA1C-IT2	ENSG00000256257	ENST00000541871	sense_intronic	KNOWN	None	41313	None	None	2157518	2158629	1	None	None
14	DNAJC19P9	ENSG00000258608	ENST00000555084	processed_pseudogene	KNOWN	None	45072	None	None	45759239	45759589	1	None	None
11	None	ENSG00000233737	ENST00000531740	processed_pseudogene	KNOWN	None	None	None	None	92954652	92954796	-1	None	None
2	RN7SL65P	ENSG00000243770	ENST00000485221	misc_RNA	KNOWN	None	46081	None	None	175104870	175105146	-1	None	None
4	None	ENSG00000271474	ENST00000605849	antisense	KNOWN	None	None	None	None	96470280	96473608	1	None	None
21	LRRC3-AS1	ENSG00000229356	ENST00000426578	antisense	KNOWN	None	43636	None	None	45870869	45875167	-1	None	None
22	RNF185-AS1	ENSG00000254835	ENST00000526089	antisense	KNOWN	None	41161	None	None	31601250	31601602	-1	None	None
16	None	ENSG00000262362	ENST00000570515	sense_overlapping	KNOWN	None	None	None	None	3053432	3055102	-1	None	None
12	None	ENSG00000258253	ENST00000547174	antisense	KNOWN	None	None	None	None	52774244	52796191	1	None	None
2	None	ENSG00000201088	ENST00000364218	misc_RNA	NOVEL	None	None	None	None	175129606	175129709	-1	None	None
11	None	ENSG00000261070	ENST00000562772	lincRNA	KNOWN	None	None	None	None	68914696	68939032	-1	None	None
17	RNU6-287P	ENSG00000252039	ENST00000516230	snRNA	KNOWN	None	47250	None	None	41043355	41043452	-1	None	None
1	None	ENSG00000232336	ENST00000425124	lincRNA	KNOWN	None	None	None	None	143188828	143189695	1	None	None
11	None	ENSG00000203504	ENST00000366319	pseudogene	KNOWN	None	None	None	None	31705636	31707478	1	None	None
12	HNRNPA1P69	ENSG00000257332	ENST00000552536	processed_pseudogene	KNOWN	None	48799	None	None	63665184	63666116	1	None	None
17	RNY4P2	ENSG00000200510	ENST00000363640	misc_RNA	KNOWN	None	10246	None	None	41084865	41084959	-1	None	hY4.B7
X	TIMM8BP2	ENSG00000224908	ENST00000445940	processed_pseudogene	KNOWN	None	39212	None	None	133300712	133300962	1	None	None
2	None	ENSG00000227180	ENST00000430717	processed_pseudogene	KNOWN	None	None	None	None	175164052	175165684	-1	None	None
11	None	ENSG00000255449	ENST00000530972	antisense	KNOWN	None	None	None	None	77577458	77581137	-1	None	None
17	None	ENSG00000212149	ENST00000390847	snoRNA	NOVEL	None	None	None	None	41092592	41092719	-1	None	None
2	USP40	ENSG00000085982	ENST00000483519	retained_intron	KNOWN	None	20069	None	None	234384172	234398286	-1	None	FLJ10785
2	USP40	ENSG00000085982	ENST00000251722	protein_coding	KNOWN	None	20069	3708	1235	234384172	234475428	-1	None	FLJ10785
2	USP40	ENSG00000085982	ENST00000427112	protein_coding	KNOWN	None	20069	3708	1235	234386038	234474236	-1	None	FLJ10785
2	USP40	ENSG00000085982	ENST00000464956	processed_transcript	PUTATIVE	None	20069	None	None	234389882	234390288	-1	None	FLJ10785
2	USP40	ENSG00000085982	ENST00000450940	nonsense_mediated_decay	KNOWN	None	20069	292	96	234394187	234402123	-1	None	FLJ10785
2	USP40	ENSG00000085982	ENST00000496298	processed_transcript	KNOWN	None	20069	None	None	234394212	234398515	-1	None	FLJ10785
2	USP40	ENSG00000085982	ENST00000454354	protein_coding	NOVEL	None	20069	348	115	234394233	234398107	-1	None	FLJ10785
2	USP40	ENSG00000085982	ENST00000473191	retained_intron	KNOWN	None	20069	None	None	234394252	234399985	-1	None	FLJ10785
2	USP40	ENSG00000085982	ENST00000430158	protein_coding	PUTATIVE	None	20069	740	245	234396327	234420404	-1	None	FLJ10785
2	USP40	ENSG00000085982	ENST00000409945	protein_coding	KNOWN	None	20069	492	163	234401310	234421148	-1	None	FLJ10785
2	USP40	ENSG00000085982	ENST00000483216	retained_intron	KNOWN	None	20069	None	None	234405440	234421538	-1	None	FLJ10785
2	USP40	ENSG00000085982	ENST00000452724	protein_coding	PUTATIVE	None	20069	297	98	234428072	234431898	-1	None	FLJ10785
2	USP40	ENSG00000085982	ENST00000485943	processed_transcript	KNOWN	None	20069	None	None	234434157	234451262	-1	None	FLJ10785
2	USP40	ENSG00000085982	ENST00000427947	retained_intron	KNOWN	None	20069	None	None	234462971	234475356	-1	None	FLJ10785
2	USP40	ENSG00000085982	ENST00000484528	retained_intron	KNOWN	None	20069	None	None	234465232	234475428	-1	None	FLJ10785
2	USP40	ENSG00000085982	ENST00000443711	protein_coding	PUTATIVE	None	20069	297	98	234469389	234475380	-1	None	FLJ10785
2	USP40	ENSG00000085982	ENST00000450966	protein_coding	KNOWN	CCDS46547	20069	3744	1247	234384166	234474236	-1	None	FLJ10785
11	RNU6-943P	ENSG00000252769	ENST00000516960	snRNA	KNOWN	None	47906	None	None	7910729	7910826	-1	None	None
12	None	ENSG00000257864	ENST00000548007	processed_pseudogene	KNOWN	None	None	None	None	44642215	44642787	-1	None	None
4	RPL30P6	ENSG00000242936	ENST00000475925	processed_pseudogene	KNOWN	None	37015	None	None	96566103	96566444	-1	None	None
8	None	ENSG00000249368	ENST00000506833	processed_pseudogene	KNOWN	None	None	None	None	15182805	15183078	1	None	None
7	None	ENSG00000270634	ENST00000603254	processed_pseudogene	KNOWN	None	None	None	None	147401386	147401667	-1	None	None
17	None	ENSG00000267230	ENST00000587526	sense_intronic	KNOWN	None	None	None	None	41127706	41129292	-1	None	None
3	MRPS36P1	ENSG00000236152	ENST00000421291	processed_pseudogene	KNOWN	None	29771	None	None	6814724	6815030	-1	None	None
3	None	ENSG00000242613	ENST00000467756	processed_pseudogene	KNOWN	None	None	None	None	120106876	120108162	1	None	None
6	CUL9	ENSG00000112659	ENST00000252050	protein_coding	KNOWN	CCDS4890	15982	7554	2517	43149913	43192325	1	None	H7AP1, KIAA0708, PARC
6	CUL9	ENSG00000112659	ENST00000451399	retained_intron	KNOWN	None	15982	None	None	43149922	43156696	1	None	H7AP1, KIAA0708, PARC
6	CUL9	ENSG00000112659	ENST00000515773	retained_intron	KNOWN	None	15982	None	None	43149922	43192325	1	None	H7AP1, KIAA0708, PARC
6	CUL9	ENSG00000112659	ENST00000372647	protein_coding	NOVEL	None	15982	7470	2489	43149923	43192323	1	None	H7AP1, KIAA0708, PARC
6	CUL9	ENSG00000112659	ENST00000510282	retained_intron	KNOWN	None	15982	None	None	43154666	43156696	1	None	H7AP1, KIAA0708, PARC
6	CUL9	ENSG00000112659	ENST00000515344	retained_intron	KNOWN	None	15982	None	None	43171011	43171870	1	None	H7AP1, KIAA0708, PARC
6	CUL9	ENSG00000112659	ENST00000512408	retained_intron	KNOWN	None	15982	None	None	43171894	43172853	1	None	H7AP1, KIAA0708, PARC
6	CUL9	ENSG00000112659	ENST00000504485	retained_intron	KNOWN	None	15982	None	None	43172910	43181235	1	None	H7AP1, KIAA0708, PARC
6	CUL9	ENSG00000112659	ENST00000502719	nonsense_mediated_decay	KNOWN	None	15982	282	93	43173821	43183062	1	None	H7AP1, KIAA0708, PARC
6	CUL9	ENSG00000112659	ENST00000505172	retained_intron	KNOWN	None	15982	None	None	43174092	43181443	1	None	H7AP1, KIAA0708, PARC
6	CUL9	ENSG00000112659	ENST00000502937	processed_transcript	KNOWN	None	15982	None	None	43174119	43181590	1	None	H7AP1, KIAA0708, PARC
6	CUL9	ENSG00000112659	ENST00000513904	retained_intron	KNOWN	None	15982	None	None	43180507	43182898	1	None	H7AP1, KIAA0708, PARC
6	CUL9	ENSG00000112659	ENST00000508656	retained_intron	KNOWN	None	15982	None	None	43181386	43188219	1	None	H7AP1, KIAA0708, PARC
6	CUL9	ENSG00000112659	ENST00000506830	nonsense_mediated_decay	KNOWN	None	15982	588	195	43181561	43192323	1	None	H7AP1, KIAA0708, PARC
6	CUL9	ENSG00000112659	ENST00000512423	retained_intron	KNOWN	None	15982	None	None	43188304	43189016	1	None	H7AP1, KIAA0708, PARC
6	CUL9	ENSG00000112659	ENST00000503766	retained_intron	KNOWN	None	15982	None	None	43189243	43192322	1	None	H7AP1, KIAA0708, PARC
6	CUL9	ENSG00000112659	ENST00000505405	retained_intron	KNOWN	None	15982	None	None	43189495	43190735	1	None	H7AP1, KIAA0708, PARC
6	CUL9	ENSG00000112659	ENST00000504647	retained_intron	KNOWN	None	15982	None	None	43190978	43192322	1	None	H7AP1, KIAA0708, PARC
6	CUL9	ENSG00000112659	ENST00000354495	protein_coding	KNOWN	None	15982	7224	2407	43149922	43192325	1	None	H7AP1, KIAA0708, PARC
2	HNRNPA1P39	ENSG00000237804	ENST00000440547	processed_pseudogene	KNOWN	None	48768	None	None	175174743	175175702	-1	None	None
HG1308_PATCH	CPA5	ENSG00000266292	ENST00000579156	protein_coding	KNOWN	None	15722	25	7	129984656	129986351	1	None	None
HG1308_PATCH	CPA5	ENSG00000266292	ENST00000580493	protein_coding	KNOWN	None	15722	370	122	129984656	129999466	1	None	None
HG1308_PATCH	CPA5	ENSG00000266292	ENST00000579032	protein_coding	KNOWN	None	15722	1311	436	129984656	130008438	1	None	None
HG1308_PATCH	CPA5	ENSG00000266292	ENST00000584885	retained_intron	KNOWN	None	15722	None	None	129984656	130008571	1	None	None
HG1308_PATCH	CPA5	ENSG00000266292	ENST00000582541	protein_coding	KNOWN	None	15722	96	31	129984659	129986422	1	None	None
HG1308_PATCH	CPA5	ENSG00000266292	ENST00000579725	protein_coding	KNOWN	None	15722	1311	436	129984666	130008571	1	None	None
HG1308_PATCH	CPA5	ENSG00000266292	ENST00000582999	protein_coding	KNOWN	None	15722	1311	436	129984687	130008571	1	None	None
HG1308_PATCH	CPA5	ENSG00000266292	ENST00000584835	protein_coding	KNOWN	None	15722	1212	403	129984694	130008570	1	None	None
HG1308_PATCH	CPA5	ENSG00000266292	ENST00000583967	protein_coding	KNOWN	None	15722	1311	436	129984701	130008571	1	None	None
HG1308_PATCH	CPA5	ENSG00000266292	ENST00000583996	protein_coding	KNOWN	None	15722	1311	436	129986327	130008571	1	None	None
HG1308_PATCH	CPA5	ENSG00000266292	ENST00000584241	protein_coding	NOVEL	None	15722	257	84	130003282	130008571	1	None	None
3	RNU6-1263P	ENSG00000207331	ENST00000384601	snRNA	KNOWN	None	48226	None	None	98627303	98627408	1	None	None
20	SPAG4	ENSG00000061656	ENST00000374273	protein_coding	KNOWN	CCDS13259	11214	1314	437	34203814	34208971	1	None	SUN4, CT127
20	SPAG4	ENSG00000061656	ENST00000463973	retained_intron	KNOWN	None	11214	None	None	34204802	34206818	1	None	SUN4, CT127
20	SPAG4	ENSG00000061656	ENST00000462896	processed_transcript	KNOWN	None	11214	None	None	34204946	34206774	1	None	SUN4, CT127
20	SPAG4	ENSG00000061656	ENST00000454819	protein_coding	PUTATIVE	None	11214	644	213	34204946	34207610	1	None	SUN4, CT127
20	SPAG4	ENSG00000061656	ENST00000468248	retained_intron	KNOWN	None	11214	None	None	34204968	34207658	1	None	SUN4, CT127
20	SPAG4	ENSG00000061656	ENST00000498203	retained_intron	KNOWN	None	11214	None	None	34205611	34208856	1	None	SUN4, CT127
20	SPAG4	ENSG00000061656	ENST00000430878	protein_coding	NOVEL	None	11214	426	141	34207507	34208971	1	None	SUN4, CT127
3	CISH	ENSG00000114737	ENST00000491847	retained_intron	KNOWN	None	1984	None	None	50643921	50649192	-1	None	CIS, G18, CIS-1, SOCS
3	CISH	ENSG00000114737	ENST00000443053	protein_coding	KNOWN	CCDS46834	1984	828	275	50643927	50649203	-1	None	CIS, G18, CIS-1, SOCS
3	CISH	ENSG00000114737	ENST00000348721	protein_coding	KNOWN	CCDS2831	1984	777	258	50643953	50649262	-1	None	CIS, G18, CIS-1, SOCS
3	None	ENSG00000221313	ENST00000408386	miRNA	NOVEL	None	None	None	None	134128886	134128982	-1	None	None
21	None	ENSG00000224747	ENST00000443300	processed_pseudogene	KNOWN	None	None	None	None	45889812	45892399	-1	None	None
11	None	ENSG00000203418	ENST00000366237	pseudogene	NOVEL	None	None	None	None	31706615	31706873	-1	None	None
17	None	ENSG00000200127	ENST00000363257	misc_RNA	NOVEL	None	None	None	None	41149933	41150024	-1	None	None
11	COX6CP5	ENSG00000254642	ENST00000527162	processed_pseudogene	KNOWN	None	42791	None	None	7999028	7999255	1	None	None
11	None	ENSG00000259799	ENST00000565145	antisense	KNOWN	None	None	None	None	68923378	68927208	1	None	None
11	None	ENSG00000259799	ENST00000568942	antisense	KNOWN	None	None	None	None	68926554	68927220	1	None	None
11	None	ENSG00000255233	ENST00000531846	lincRNA	KNOWN	None	None	None	None	92973299	92974334	1	None	None
18	TIMM21	ENSG00000075336	ENST00000169551	protein_coding	KNOWN	CCDS12003	25010	747	248	71815746	71826197	1	C18orf55	HSPC154, TIM21
18	TIMM21	ENSG00000075336	ENST00000580087	protein_coding	PUTATIVE	None	25010	519	172	71815758	71825247	1	C18orf55	HSPC154, TIM21
18	TIMM21	ENSG00000075336	ENST00000577952	retained_intron	KNOWN	None	25010	None	None	71815773	71825275	1	C18orf55	HSPC154, TIM21
18	TIMM21	ENSG00000075336	ENST00000581467	retained_intron	KNOWN	None	25010	None	None	71816017	71822728	1	C18orf55	HSPC154, TIM21
18	TIMM21	ENSG00000075336	ENST00000584925	retained_intron	KNOWN	None	25010	None	None	71822330	71825711	1	C18orf55	HSPC154, TIM21
18	TIMM21	ENSG00000075336	ENST00000579071	protein_coding	PUTATIVE	None	25010	383	126	71822410	71826021	1	C18orf55	HSPC154, TIM21
17	None	ENSG00000267267	ENST00000225973	lincRNA	KNOWN	None	None	None	None	41181274	41184051	1	None	None
12	None	ENSG00000257941	ENST00000552477	processed_pseudogene	KNOWN	None	None	None	None	76451318	76451895	1	None	None
17	CYB5D2	ENSG00000167740	ENST00000577075	protein_coding	PUTATIVE	CCDS58501	28471	459	152	4046462	4060379	1	None	MGC32124
17	CYB5D2	ENSG00000167740	ENST00000575251	protein_coding	PUTATIVE	CCDS58501	28471	459	152	4046505	4060866	1	None	MGC32124
17	CYB5D2	ENSG00000167740	ENST00000301391	protein_coding	KNOWN	CCDS11044	28471	795	264	4046550	4060991	1	None	MGC32124
17	CYB5D2	ENSG00000167740	ENST00000573984	protein_coding	PUTATIVE	None	28471	321	106	4046996	4090605	1	None	MGC32124
17	CYB5D2	ENSG00000167740	ENST00000575411	processed_transcript	KNOWN	None	28471	None	None	4053185	4060749	1	None	MGC32124
12	CACNA1C-AS4	ENSG00000256025	ENST00000544415	antisense	KNOWN	None	40116	None	None	2329703	2332645	-1	None	None
5	PRLR	ENSG00000113494	ENST00000231423	protein_coding	KNOWN	CCDS56361	9446	1131	376	35048861	35089739	-1	None	None
5	PRLR	ENSG00000113494	ENST00000513753	protein_coding	KNOWN	CCDS56360	9446	867	288	35048861	35089739	-1	None	None
5	PRLR	ENSG00000113494	ENST00000514088	nonsense_mediated_decay	KNOWN	None	9446	105	34	35048877	35089739	-1	None	None
5	PRLR	ENSG00000113494	ENST00000348262	protein_coding	KNOWN	CCDS56359	9446	807	268	35048877	35089739	-1	None	None
5	PRLR	ENSG00000113494	ENST00000509140	nonsense_mediated_decay	KNOWN	None	9446	105	34	35048877	35089739	-1	None	None
5	PRLR	ENSG00000113494	ENST00000382002	protein_coding	KNOWN	CCDS3909	9446	1869	622	35055807	35230691	-1	None	None
5	PRLR	ENSG00000113494	ENST00000508107	nonsense_mediated_decay	KNOWN	None	9446	102	33	35064900	35230511	-1	None	None
5	PRLR	ENSG00000113494	ENST00000511486	protein_coding	KNOWN	CCDS56358	9446	1566	521	35065191	35089722	-1	None	None
5	PRLR	ENSG00000113494	ENST00000310101	protein_coding	KNOWN	CCDS56362	9446	1050	349	35065191	35089722	-1	None	None
5	PRLR	ENSG00000113494	ENST00000509934	processed_transcript	KNOWN	None	9446	None	None	35068332	35086440	-1	None	None
5	PRLR	ENSG00000113494	ENST00000514206	protein_coding	KNOWN	None	9446	361	119	35084584	35130446	-1	None	None
5	PRLR	ENSG00000113494	ENST00000509839	protein_coding	KNOWN	None	9446	334	110	35084611	35195344	-1	None	None
5	PRLR	ENSG00000113494	ENST00000503330	protein_coding	KNOWN	None	9446	308	101	35084637	35135553	-1	None	None
5	PRLR	ENSG00000113494	ENST00000504500	protein_coding	KNOWN	None	9446	186	61	35086327	35230474	-1	None	None
5	PRLR	ENSG00000113494	ENST00000515839	protein_coding	KNOWN	None	9446	103	33	35086410	35230579	-1	None	None
5	PRLR	ENSG00000113494	ENST00000542609	protein_coding	KNOWN	None	9446	930	309	35049116	35089739	-1	None	None
5	PRLR	ENSG00000113494	ENST00000397391	protein_coding	KNOWN	None	9446	594	197	35048877	35089739	-1	None	None
5	PRLR	ENSG00000113494	ENST00000342362	protein_coding	KNOWN	CCDS56358	9446	1566	521	35055802	35230794	-1	None	None
19	RPL36P16	ENSG00000224476	ENST00000496996	processed_pseudogene	KNOWN	None	37010	None	None	41675766	41676071	1	None	None
17	RPL21P4	ENSG00000240828	ENST00000497954	processed_pseudogene	KNOWN	None	17959	None	None	41231319	41231797	1	None	None
12	None	ENSG00000257500	ENST00000548135	antisense	KNOWN	None	None	None	None	52801364	52822278	1	None	None
5	UGT3A2	ENSG00000168671	ENST00000282507	protein_coding	KNOWN	CCDS3914	27266	1572	523	36035119	36066993	-1	None	None
5	UGT3A2	ENSG00000168671	ENST00000513300	protein_coding	NOVEL	CCDS54842	27266	1470	489	36035439	36066984	-1	None	None
5	UGT3A2	ENSG00000168671	ENST00000504685	nonsense_mediated_decay	KNOWN	None	27266	363	120	36035457	36066984	-1	None	None
5	UGT3A2	ENSG00000168671	ENST00000504954	processed_transcript	KNOWN	None	27266	None	None	36039762	36071460	-1	None	None
5	UGT3A2	ENSG00000168671	ENST00000515131	protein_coding	KNOWN	None	27266	415	137	36049419	36067386	-1	None	None
5	UGT3A2	ENSG00000168671	ENST00000545528	protein_coding	KNOWN	None	27266	666	221	36035457	36066984	-1	None	None
3	HMGB3P13	ENSG00000214288	ENST00000511263	processed_pseudogene	KNOWN	None	39305	None	None	134156447	134157053	1	None	None
2	None	ENSG00000231453	ENST00000420866	lincRNA	KNOWN	None	None	None	None	175190755	175195371	1	None	None
2	None	ENSG00000231453	ENST00000436820	lincRNA	KNOWN	None	None	None	None	175193500	175195270	1	None	None
11	RNA5SP350	ENSG00000200168	ENST00000363298	rRNA	KNOWN	None	43250	None	None	110910822	110910932	-1	RN5S350	None
3	LINC00973	ENSG00000240476	ENST00000473756	lincRNA	KNOWN	None	48868	None	None	98699902	98701940	1	None	CTD-2021J15.2
3	GRM7-AS2	ENSG00000237665	ENST00000427748	antisense	KNOWN	None	40266	None	None	6934319	6935709	-1	None	None
14	None	ENSG00000260046	ENST00000566976	lincRNA	KNOWN	None	None	None	None	45838418	45840042	1	None	None
11	None	ENSG00000221565	ENST00000408638	miRNA	NOVEL	None	None	None	None	93140991	93141079	-1	None	None
1	None	ENSG00000225278	ENST00000437865	retained_intron	KNOWN	None	None	None	None	143211628	143226664	-1	None	None
1	None	ENSG00000225278	ENST00000422716	lincRNA	KNOWN	None	None	None	None	143213237	143240439	-1	None	None
1	None	ENSG00000225278	ENST00000435585	lincRNA	KNOWN	None	None	None	None	143216056	143226395	-1	None	None
1	None	ENSG00000225278	ENST00000456937	lincRNA	KNOWN	None	None	None	None	143220187	143226381	-1	None	None
1	None	ENSG00000225278	ENST00000429121	lincRNA	KNOWN	None	None	None	None	143223331	143240429	-1	None	None
1	None	ENSG00000225278	ENST00000427309	lincRNA	KNOWN	None	None	None	None	143229766	143233121	-1	None	None
1	None	ENSG00000225278	ENST00000412196	lincRNA	KNOWN	None	None	None	None	143236905	143237715	-1	None	None
1	None	ENSG00000225278	ENST00000449527	lincRNA	KNOWN	None	None	None	None	143236905	143237715	-1	None	None
1	None	ENSG00000225278	ENST00000453561	lincRNA	KNOWN	None	None	None	None	143236905	143240414	-1	None	None
11	None	ENSG00000241782	ENST00000495378	processed_pseudogene	KNOWN	None	None	None	None	77579768	77580241	-1	None	None
12	None	ENSG00000258304	ENST00000552852	processed_pseudogene	KNOWN	None	None	None	None	76509491	76509880	1	None	None
12	None	ENSG00000258117	ENST00000551729	lincRNA	KNOWN	None	None	None	None	63686409	63753817	-1	None	None
X	MIR363	ENSG00000207572	ENST00000384840	miRNA	KNOWN	None	32023	None	None	133303408	133303482	-1	MIRN363	hsa-mir-363, MIR-363
16	TMEM204	ENSG00000131634	ENST00000253934	protein_coding	KNOWN	CCDS42098	14158	681	226	1578689	1605581	1	C16orf30	FLJ20898
16	TMEM204	ENSG00000131634	ENST00000566264	protein_coding	KNOWN	CCDS42098	14158	681	226	1583574	1605581	1	C16orf30	FLJ20898
7	RNU6-1184P	ENSG00000207318	ENST00000384588	snRNA	KNOWN	None	48147	None	None	147528862	147528969	1	None	None
14	None	ENSG00000257900	ENST00000546784	lincRNA	KNOWN	None	None	None	None	45846471	45858489	1	None	None
11	None	ENSG00000271390	ENST00000604700	lincRNA	KNOWN	None	None	None	None	110960594	110961092	-1	None	None
3	MIR4788	ENSG00000263554	ENST00000581508	miRNA	KNOWN	None	41676	None	None	134156669	134156748	1	None	hsa-mir-4788
3	None	ENSG00000240774	ENST00000478134	processed_pseudogene	KNOWN	None	None	None	None	120203018	120203374	-1	None	None
12	None	ENSG00000201788	ENST00000364918	misc_RNA	NOVEL	None	None	None	None	45274651	45274752	-1	None	None
11	None	ENSG00000272286	ENST00000606377	lincRNA	KNOWN	None	None	None	None	31807987	31808519	-1	None	None
11	None	ENSG00000255420	ENST00000534076	antisense	KNOWN	None	None	None	None	8032825	8038036	-1	None	None
HSCHR6_MHC_SSTO	HLA-F	ENSG00000229698	ENST00000444891	protein_coding	KNOWN	None	4963	1041	346	29687514	29691199	1	None	None
HSCHR6_MHC_SSTO	HLA-F	ENSG00000229698	ENST00000444057	protein_coding	KNOWN	None	4963	393	130	29687978	29688930	1	None	None
HSCHR6_MHC_SSTO	HLA-F	ENSG00000229698	ENST00000479217	processed_transcript	KNOWN	None	4963	None	None	29688091	29689114	1	None	None
HSCHR6_MHC_SSTO	HLA-F	ENSG00000229698	ENST00000430472	protein_coding	KNOWN	None	4963	1329	442	29688107	29691965	1	None	None
HSCHR6_MHC_SSTO	HLA-F	ENSG00000229698	ENST00000471304	processed_transcript	KNOWN	None	4963	None	None	29688126	29691199	1	None	None
HSCHR6_MHC_SSTO	HLA-F	ENSG00000229698	ENST00000492175	processed_transcript	KNOWN	None	4963	None	None	29688133	29689759	1	None	None
HSCHR6_MHC_SSTO	HLA-F	ENSG00000229698	ENST00000376848	protein_coding	KNOWN	None	4963	765	254	29688163	29691199	1	None	None
HSCHR6_MHC_SSTO	HLA-F	ENSG00000229698	ENST00000474650	processed_transcript	KNOWN	None	4963	None	None	29688203	29689051	1	None	None
HSCHR6_MHC_SSTO	HLA-F	ENSG00000229698	ENST00000461939	processed_transcript	KNOWN	None	4963	None	None	29688639	29689971	1	None	None
HSCHR6_MHC_SSTO	HLA-F	ENSG00000229698	ENST00000454779	protein_coding	KNOWN	None	4963	677	224	29688738	29691199	1	None	None
HSCHR6_MHC_SSTO	HLA-F	ENSG00000229698	ENST00000476710	processed_transcript	KNOWN	None	4963	None	None	29688856	29691199	1	None	None
HSCHR6_MHC_SSTO	HLA-F	ENSG00000229698	ENST00000471952	processed_transcript	KNOWN	None	4963	None	None	29689726	29703210	1	None	None
HSCHR6_MHC_SSTO	HLA-F	ENSG00000229698	ENST00000463731	processed_transcript	KNOWN	None	4963	None	None	29690126	29694019	1	None	None
HSCHR6_MHC_SSTO	HLA-F	ENSG00000229698	ENST00000448064	protein_coding	KNOWN	None	4963	374	123	29690206	29691965	1	None	None
HSCHR6_MHC_SSTO	HLA-F	ENSG00000229698	ENST00000549254	protein_coding	KNOWN	None	4963	1308	435	29688039	29692775	1	None	None
HSCHR6_MHC_SSTO	HLA-F	ENSG00000229698	ENST00000552880	protein_coding	KNOWN	None	4963	1260	419	29688039	29691844	1	None	None
HSCHR6_MHC_SSTO	HLA-F	ENSG00000229698	ENST00000549422	protein_coding	KNOWN	None	4963	1041	346	29688039	29691196	1	None	None
12	None	ENSG00000257872	ENST00000553021	processed_pseudogene	KNOWN	None	None	None	None	76531205	76532390	1	None	None
1	RASAL2-AS1	ENSG00000224687	ENST00000421505	lincRNA	KNOWN	None	44170	None	None	178060643	178063119	-1	None	None
1	RASAL2-AS1	ENSG00000224687	ENST00000419458	lincRNA	KNOWN	None	44170	None	None	178060644	178062735	-1	None	None
1	RASAL2-AS1	ENSG00000224687	ENST00000452867	lincRNA	KNOWN	None	44170	None	None	178062285	178062707	-1	None	None
12	None	ENSG00000257319	ENST00000548424	antisense	KNOWN	None	None	None	None	45444684	45496890	1	None	None
X	MIR92A2	ENSG00000208034	ENST00000385299	miRNA	KNOWN	None	31644	None	None	133303568	133303642	-1	MIRN92-2, MIRN92A2	hsa-mir-92-2, hsa-mir-92a-2
11	None	ENSG00000234106	ENST00000533701	processed_pseudogene	KNOWN	None	None	None	None	93268634	93268982	1	None	None
7	RNA5SP249	ENSG00000251936	ENST00000516127	rRNA	KNOWN	None	43149	None	None	147546976	147547074	1	RN5S249	None
5	RGMB	ENSG00000174136	ENST00000504776	processed_transcript	KNOWN	None	26896	None	None	98104354	98115623	1	None	FLJ90406
5	RGMB	ENSG00000174136	ENST00000505265	processed_transcript	KNOWN	None	26896	None	None	98104998	98106170	1	None	FLJ90406
5	RGMB	ENSG00000174136	ENST00000434027	retained_intron	KNOWN	None	26896	None	None	98104998	98116889	1	None	FLJ90406
5	RGMB	ENSG00000174136	ENST00000308234	protein_coding	KNOWN	CCDS47251	26896	1437	478	98104999	98132198	1	None	FLJ90406
5	RGMB	ENSG00000174136	ENST00000507054	processed_transcript	KNOWN	None	26896	None	None	98105140	98108679	1	None	FLJ90406
5	RGMB	ENSG00000174136	ENST00000513185	protein_coding	KNOWN	None	26896	1314	437	98109339	98129759	1	None	FLJ90406
5	RGMB	ENSG00000174136	ENST00000508978	processed_transcript	KNOWN	None	26896	None	None	98115549	98134347	1	None	FLJ90406
2	None	ENSG00000226853	ENST00000444196	lincRNA	KNOWN	None	None	None	None	175352117	175352884	1	None	None
2	None	ENSG00000226853	ENST00000417038	lincRNA	KNOWN	None	None	None	None	175352131	175353028	1	None	None
2	None	ENSG00000226853	ENST00000606406	lincRNA	KNOWN	None	None	None	None	175352240	175353114	1	None	None
21	MTND6P21	ENSG00000223431	ENST00000443620	processed_pseudogene	KNOWN	None	39639	None	None	45892778	45893622	1	None	None
8	None	ENSG00000223214	ENST00000411282	miRNA	NOVEL	None	None	None	None	15379393	15379475	1	None	None
3	None	ENSG00000241305	ENST00000486987	processed_pseudogene	KNOWN	None	None	None	None	98934068	98935110	-1	None	None
19	None	ENSG00000267507	ENST00000587647	processed_pseudogene	KNOWN	None	None	None	None	55630618	55631751	-1	None	None
6	None	ENSG00000218351	ENST00000574601	processed_transcript	KNOWN	None	None	None	None	141956787	141957472	-1	None	None
6	None	ENSG00000218351	ENST00000401762	transcribed_processed_pseudogene	KNOWN	None	None	None	None	141956857	141957640	-1	None	None
3	None	ENSG00000249691	ENST00000509658	processed_pseudogene	KNOWN	None	None	None	None	134229373	134230255	-1	None	None
10	ECD	ENSG00000122882	ENST00000494307	protein_coding	PUTATIVE	None	17029	262	86	74889913	74894512	-1	None	hSGT1, GCR2
10	ECD	ENSG00000122882	ENST00000372979	protein_coding	KNOWN	CCDS7321	17029	1935	644	74893414	74927817	-1	None	hSGT1, GCR2
10	ECD	ENSG00000122882	ENST00000484976	nonsense_mediated_decay	KNOWN	None	17029	492	163	74906034	74927699	-1	None	hSGT1, GCR2
10	ECD	ENSG00000122882	ENST00000453402	protein_coding	KNOWN	None	17029	637	211	74912104	74927853	-1	None	hSGT1, GCR2
10	ECD	ENSG00000122882	ENST00000413026	protein_coding	KNOWN	None	17029	651	216	74914068	74927836	-1	None	hSGT1, GCR2
10	ECD	ENSG00000122882	ENST00000430082	protein_coding	KNOWN	CCDS44434	17029	2034	677	74894283	74927853	-1	None	hSGT1, GCR2
10	ECD	ENSG00000122882	ENST00000454759	protein_coding	KNOWN	CCDS44433	17029	1806	601	74894283	74927853	-1	None	hSGT1, GCR2
19	None	ENSG00000267577	ENST00000591665	antisense	KNOWN	None	None	None	None	55670307	55688908	1	None	None
11	None	ENSG00000254584	ENST00000531962	antisense	KNOWN	None	None	None	None	32057527	32062864	-1	None	None
11	None	ENSG00000254584	ENST00000531627	antisense	KNOWN	None	None	None	None	32061652	32062794	-1	None	None
8	None	ENSG00000248423	ENST00000506768	processed_pseudogene	KNOWN	None	None	None	None	15546423	15547071	-1	None	None
3	GRM7-AS1	ENSG00000236202	ENST00000420230	antisense	KNOWN	None	40267	None	None	7561428	7576971	-1	None	None
3	GRM7-AS1	ENSG00000236202	ENST00000427273	antisense	KNOWN	None	40267	None	None	7561825	7602020	-1	None	None
11	None	ENSG00000271584	ENST00000603154	lincRNA	KNOWN	None	None	None	None	110962656	110968081	-1	None	None
4	None	ENSG00000260120	ENST00000564513	lincRNA	KNOWN	None	None	None	None	53546776	53558816	1	None	None
11	IFITM9P	ENSG00000213275	ENST00000535743	processed_pseudogene	KNOWN	None	33972	None	None	69070879	69071274	-1	None	None
12	KRT124P	ENSG00000257844	ENST00000549264	unprocessed_pseudogene	KNOWN	None	30195	None	None	52807744	52815660	-1	KRTHBP1	HBA
HSCHR6_MHC_COX	SLC39A7	ENSG00000226614	ENST00000429042	protein_coding	KNOWN	None	4927	662	219	33089852	33092099	1	HKE4	H2-KE4, D6S2244E, KE4, RING5, ZIP7
HSCHR6_MHC_COX	SLC39A7	ENSG00000226614	ENST00000423043	protein_coding	KNOWN	None	4927	1410	469	33090233	33093846	1	HKE4	H2-KE4, D6S2244E, KE4, RING5, ZIP7
HSCHR6_MHC_COX	SLC39A7	ENSG00000226614	ENST00000418477	protein_coding	KNOWN	None	4927	1410	469	33090280	33093846	1	HKE4	H2-KE4, D6S2244E, KE4, RING5, ZIP7
HSCHR6_MHC_COX	SLC39A7	ENSG00000226614	ENST00000486338	processed_transcript	PUTATIVE	None	4927	None	None	33090332	33093846	1	HKE4	H2-KE4, D6S2244E, KE4, RING5, ZIP7
HSCHR6_MHC_COX	SLC39A7	ENSG00000226614	ENST00000465516	processed_transcript	PUTATIVE	None	4927	None	None	33090653	33093846	1	HKE4	H2-KE4, D6S2244E, KE4, RING5, ZIP7
HSCHR6_MHC_COX	SLC39A7	ENSG00000226614	ENST00000474514	processed_transcript	PUTATIVE	None	4927	None	None	33091662	33093846	1	HKE4	H2-KE4, D6S2244E, KE4, RING5, ZIP7
12	None	ENSG00000249753	ENST00000509615	antisense	KNOWN	None	None	None	None	64017568	64189498	-1	None	None
7	None	ENSG00000234387	ENST00000451103	lincRNA	KNOWN	None	None	None	None	62854655	62855817	1	None	None
1	None	ENSG00000270575	ENST00000605307	processed_pseudogene	KNOWN	None	None	None	None	178163477	178163844	-1	None	None
21	MTND5P1	ENSG00000227999	ENST00000445440	processed_pseudogene	KNOWN	None	39644	None	None	45893606	45894980	-1	None	None
2	MAL	ENSG00000172005	ENST00000489399	processed_transcript	KNOWN	None	6817	None	None	95691422	95710378	1	None	None
2	MAL	ENSG00000172005	ENST00000309988	protein_coding	KNOWN	CCDS2006	6817	462	153	95691429	95719737	1	None	None
2	MAL	ENSG00000172005	ENST00000353004	protein_coding	KNOWN	CCDS2007	6817	336	111	95691538	95719737	1	None	None
2	MAL	ENSG00000172005	ENST00000354078	protein_coding	KNOWN	CCDS2008	6817	294	97	95691538	95719737	1	None	None
2	MAL	ENSG00000172005	ENST00000349807	protein_coding	KNOWN	CCDS2009	6817	168	55	95691538	95719737	1	None	None
11	RN7SL223P	ENSG00000240202	ENST00000470401	misc_RNA	KNOWN	None	46239	None	None	93290079	93290369	1	None	None
12	None	ENSG00000257331	ENST00000550663	processed_pseudogene	KNOWN	None	None	None	None	45457256	45459134	-1	None	None
4	DANCR	ENSG00000226950	ENST00000411630	lincRNA	KNOWN	None	28964	None	None	53578597	53580304	1	KIAA0114, SNHG13	ANCR, AGU2
4	DANCR	ENSG00000226950	ENST00000441504	retained_intron	KNOWN	None	28964	None	None	53578665	53579296	1	KIAA0114, SNHG13	ANCR, AGU2
4	DANCR	ENSG00000226950	ENST00000425653	retained_intron	KNOWN	None	28964	None	None	53578948	53580304	1	KIAA0114, SNHG13	ANCR, AGU2
4	DANCR	ENSG00000226950	ENST00000444958	lincRNA	KNOWN	None	28964	None	None	53578991	53586518	1	KIAA0114, SNHG13	ANCR, AGU2
2	ADCY3	ENSG00000138031	ENST00000260600	protein_coding	KNOWN	CCDS1715	234	3435	1144	25042038	25142708	-1	None	AC3
2	ADCY3	ENSG00000138031	ENST00000606682	protein_coding	NOVEL	None	234	2376	791	25042041	25064505	-1	None	AC3
2	ADCY3	ENSG00000138031	ENST00000498288	protein_coding	PUTATIVE	None	234	148	48	25042238	25043665	-1	None	AC3
2	ADCY3	ENSG00000138031	ENST00000485887	retained_intron	KNOWN	None	234	None	None	25043115	25046232	-1	None	AC3
2	ADCY3	ENSG00000138031	ENST00000455323	protein_coding	PUTATIVE	None	234	595	197	25048916	25054602	-1	None	AC3
2	ADCY3	ENSG00000138031	ENST00000450524	processed_transcript	KNOWN	None	234	None	None	25050432	25055054	-1	None	AC3
2	ADCY3	ENSG00000138031	ENST00000454027	processed_transcript	KNOWN	None	234	None	None	25057795	25063472	-1	None	AC3
2	ADCY3	ENSG00000138031	ENST00000427849	protein_coding	PUTATIVE	None	234	894	297	25059822	25095561	-1	None	AC3
2	ADCY3	ENSG00000138031	ENST00000435135	protein_coding	PUTATIVE	None	234	1447	481	25059851	25142708	-1	None	AC3
2	ADCY3	ENSG00000138031	ENST00000479517	retained_intron	KNOWN	None	234	None	None	25062876	25065461	-1	None	AC3
2	ADCY3	ENSG00000138031	ENST00000433852	protein_coding	PUTATIVE	None	234	464	153	25064194	25100896	-1	None	AC3
2	ADCY3	ENSG00000138031	ENST00000438445	protein_coding	KNOWN	None	234	336	111	25141521	25142381	-1	None	AC3
2	ADCY3	ENSG00000138031	ENST00000405392	protein_coding	KNOWN	None	234	2196	731	25042041	25064505	-1	None	AC3
15	None	ENSG00000254398	ENST00000531834	unprocessed_pseudogene	KNOWN	None	None	None	None	28924551	28927398	-1	None	None
16	RHBDF1	ENSG00000007384	ENST00000262316	protein_coding	KNOWN	CCDS32344	20561	2568	855	108058	122629	-1	C16orf8	EGFR-RS, FLJ2235, Dist1
16	RHBDF1	ENSG00000007384	ENST00000428730	nonsense_mediated_decay	KNOWN	None	20561	567	188	108061	115037	-1	C16orf8	EGFR-RS, FLJ2235, Dist1
16	RHBDF1	ENSG00000007384	ENST00000448893	protein_coding	NOVEL	None	20561	698	231	108136	109760	-1	C16orf8	EGFR-RS, FLJ2235, Dist1
16	RHBDF1	ENSG00000007384	ENST00000486045	retained_intron	KNOWN	None	20561	None	None	108972	110191	-1	C16orf8	EGFR-RS, FLJ2235, Dist1
16	RHBDF1	ENSG00000007384	ENST00000493647	retained_intron	KNOWN	None	20561	None	None	109231	110678	-1	C16orf8	EGFR-RS, FLJ2235, Dist1
16	RHBDF1	ENSG00000007384	ENST00000482904	retained_intron	KNOWN	None	20561	None	None	111423	112204	-1	C16orf8	EGFR-RS, FLJ2235, Dist1
16	RHBDF1	ENSG00000007384	ENST00000417043	nonsense_mediated_decay	KNOWN	None	20561	267	88	112971	115035	-1	C16orf8	EGFR-RS, FLJ2235, Dist1
16	RHBDF1	ENSG00000007384	ENST00000487201	retained_intron	KNOWN	None	20561	None	None	113035	122619	-1	C16orf8	EGFR-RS, FLJ2235, Dist1
16	RHBDF1	ENSG00000007384	ENST00000450643	protein_coding	KNOWN	None	20561	488	161	113155	126354	-1	C16orf8	EGFR-RS, FLJ2235, Dist1
16	RHBDF1	ENSG00000007384	ENST00000419764	protein_coding	NOVEL	None	20561	411	136	113741	115037	-1	C16orf8	EGFR-RS, FLJ2235, Dist1
16	RHBDF1	ENSG00000007384	ENST00000472390	retained_intron	KNOWN	None	20561	None	None	114550	126340	-1	C16orf8	EGFR-RS, FLJ2235, Dist1
16	RHBDF1	ENSG00000007384	ENST00000454039	protein_coding	KNOWN	None	20561	1740	579	111031	126351	-1	C16orf8	EGFR-RS, FLJ2235, Dist1
1	None	ENSG00000226585	ENST00000422475	antisense	KNOWN	None	None	None	None	178326311	178333230	-1	None	None
11	None	ENSG00000239354	ENST00000475609	processed_pseudogene	KNOWN	None	None	None	None	110976271	110976619	-1	None	None
3	RNU6-1174P	ENSG00000253087	ENST00000517278	snRNA	KNOWN	None	48137	None	None	134499369	134499469	-1	None	None
22	RABL2B	ENSG00000079974	ENST00000354869	protein_coding	KNOWN	CCDS33683	9800	690	229	51205932	51222049	-1	None	None
22	RABL2B	ENSG00000079974	ENST00000425098	nonsense_mediated_decay	KNOWN	None	9800	306	101	51205934	51220742	-1	None	None
22	RABL2B	ENSG00000079974	ENST00000395593	protein_coding	NOVEL	CCDS46738	9800	717	238	51205934	51222070	-1	None	None
22	RABL2B	ENSG00000079974	ENST00000395598	protein_coding	KNOWN	CCDS14102	9800	687	228	51205934	51222087	-1	None	None
22	RABL2B	ENSG00000079974	ENST00000395591	protein_coding	NOVEL	None	9800	498	165	51205934	51222090	-1	None	None
22	RABL2B	ENSG00000079974	ENST00000395595	protein_coding	KNOWN	CCDS33683	9800	690	229	51205934	51222091	-1	None	None
22	RABL2B	ENSG00000079974	ENST00000465063	processed_transcript	KNOWN	None	9800	None	None	51205937	51208930	-1	None	None
22	RABL2B	ENSG00000079974	ENST00000436958	nonsense_mediated_decay	KNOWN	None	9800	306	101	51205958	51222066	-1	None	None
22	RABL2B	ENSG00000079974	ENST00000482308	retained_intron	KNOWN	None	9800	None	None	51207955	51214261	-1	None	None
22	RABL2B	ENSG00000079974	ENST00000464678	retained_intron	KNOWN	None	9800	None	None	51208210	51221714	-1	None	None
22	RABL2B	ENSG00000079974	ENST00000395590	protein_coding	PUTATIVE	None	9800	300	99	51209638	51222058	-1	None	None
22	RABL2B	ENSG00000079974	ENST00000468451	nonsense_mediated_decay	KNOWN	None	9800	120	39	51214199	51222028	-1	None	None
22	RABL2B	ENSG00000079974	ENST00000464740	retained_intron	KNOWN	None	9800	None	None	51216088	51222058	-1	None	None
22	RABL2B	ENSG00000079974	ENST00000413505	protein_coding	KNOWN	None	9800	61	19	51220662	51221473	-1	None	None
22	RABL2B	ENSG00000079974	ENST00000435118	protein_coding	KNOWN	CCDS14102	9800	687	228	51205929	51222090	-1	None	None
11	UNC93B1	ENSG00000110057	ENST00000533966	processed_transcript	KNOWN	None	13481	None	None	67758575	67766664	-1	None	UNC93
11	UNC93B1	ENSG00000110057	ENST00000530331	processed_transcript	KNOWN	None	13481	None	None	67758575	67771593	-1	None	UNC93
11	UNC93B1	ENSG00000110057	ENST00000525368	retained_intron	KNOWN	None	13481	None	None	67759289	67763451	-1	None	UNC93
11	UNC93B1	ENSG00000110057	ENST00000525743	retained_intron	KNOWN	None	13481	None	None	67765138	67771511	-1	None	UNC93
11	UNC93B1	ENSG00000110057	ENST00000533424	retained_intron	KNOWN	None	13481	None	None	67765829	67771526	-1	None	UNC93
11	UNC93B1	ENSG00000110057	ENST00000524455	nonsense_mediated_decay	KNOWN	None	13481	645	214	67765847	67771516	-1	None	UNC93
11	UNC93B1	ENSG00000110057	ENST00000528423	protein_coding	PUTATIVE	None	13481	540	179	67765857	67772452	-1	None	UNC93
11	UNC93B1	ENSG00000110057	ENST00000528096	retained_intron	KNOWN	None	13481	None	None	67766646	67770939	-1	None	UNC93
11	UNC93B1	ENSG00000110057	ENST00000530138	retained_intron	KNOWN	None	13481	None	None	67766786	67771577	-1	None	UNC93
11	UNC93B1	ENSG00000110057	ENST00000531152	nonsense_mediated_decay	KNOWN	None	13481	408	135	67766989	67771539	-1	None	UNC93
11	UNC93B1	ENSG00000110057	ENST00000227471	protein_coding	KNOWN	None	13481	1791	596	67758575	67771593	-1	None	UNC93
19	None	ENSG00000239137	ENST00000459370	snoRNA	NOVEL	None	None	None	None	55678539	55678642	1	None	None
14	None	ENSG00000248975	ENST00000548124	lincRNA	KNOWN	None	None	None	None	30421603	30449460	-1	None	None
14	None	ENSG00000248975	ENST00000549360	lincRNA	KNOWN	None	None	None	None	30441875	30766223	-1	None	None
14	None	ENSG00000248975	ENST00000508469	lincRNA	KNOWN	None	None	None	None	30637040	30766249	-1	None	None
11	None	ENSG00000255515	ENST00000527217	processed_pseudogene	KNOWN	None	None	None	None	93342926	93343499	-1	None	None
11	None	ENSG00000254921	ENST00000526646	antisense	KNOWN	None	None	None	None	8056993	8061265	-1	None	None
11	None	ENSG00000254921	ENST00000528151	antisense	KNOWN	None	None	None	None	8060136	8061246	-1	None	None
3	None	ENSG00000240572	ENST00000459991	processed_pseudogene	KNOWN	None	None	None	None	99045221	99045396	-1	None	None
9	BSPRY	ENSG00000119411	ENST00000374183	protein_coding	KNOWN	CCDS43868	18232	1209	402	116111821	116133513	1	None	FLJ20150
9	BSPRY	ENSG00000119411	ENST00000462085	processed_transcript	KNOWN	None	18232	None	None	116111822	116133513	1	None	FLJ20150
7	SLC25A1P2	ENSG00000234467	ENST00000430693	processed_pseudogene	KNOWN	None	43847	None	None	62858424	62859335	1	None	None
7	RN7SL456P	ENSG00000242266	ENST00000469290	misc_RNA	KNOWN	None	46472	None	None	147637096	147637391	1	None	None
2	None	ENSG00000179997	ENST00000313760	processed_pseudogene	KNOWN	None	None	None	None	175366680	175367040	1	None	None
2	None	ENSG00000179997	ENST00000545980	processed_pseudogene	KNOWN	None	None	None	None	175366680	175367043	1	None	None
19	None	ENSG00000267649	ENST00000585911	lincRNA	KNOWN	None	None	None	None	55728028	55732984	1	None	None
19	None	ENSG00000267649	ENST00000591484	lincRNA	KNOWN	None	None	None	None	55728050	55728797	1	None	None
12	RNU6-1271P	ENSG00000252858	ENST00000517049	snRNA	KNOWN	None	48234	None	None	76533347	76533451	1	None	None
1	None	ENSG00000213058	ENST00000455621	processed_pseudogene	KNOWN	None	None	None	None	178380751	178381107	1	None	None
11	None	ENSG00000260877	ENST00000561588	lincRNA	KNOWN	None	None	None	None	69186231	69187279	1	None	None
3	RNA5SP141	ENSG00000201413	ENST00000364543	rRNA	KNOWN	None	43041	None	None	134502278	134502397	-1	RN5S141	None
X	CCDC22	ENSG00000101997	ENST00000376227	protein_coding	KNOWN	CCDS14322	28909	1884	627	49091927	49106987	1	CXorf37	JM1
X	CCDC22	ENSG00000101997	ENST00000496651	processed_transcript	KNOWN	None	28909	None	None	49091956	49099932	1	CXorf37	JM1
X	CCDC22	ENSG00000101997	ENST00000490300	processed_transcript	KNOWN	None	28909	None	None	49093360	49099812	1	CXorf37	JM1
X	CCDC22	ENSG00000101997	ENST00000492334	processed_transcript	KNOWN	None	28909	None	None	49104172	49106976	1	CXorf37	JM1
14	None	ENSG00000258746	ENST00000553933	processed_pseudogene	KNOWN	None	None	None	None	45971945	45972343	-1	None	None
14	IGHVIII-5-2	ENSG00000254053	ENST00000522505	IG_V_pseudogene	KNOWN	None	5703	None	None	106501831	106502091	-1	None	IGHV(III)-5-2
21	None	ENSG00000228709	ENST00000449713	processed_transcript	PUTATIVE	None	None	None	None	45905460	45910171	1	None	None
12	PA2G4	ENSG00000170515	ENST00000303305	protein_coding	KNOWN	CCDS8902	8550	1185	394	56498103	56507645	1	None	None
12	PA2G4	ENSG00000170515	ENST00000552766	protein_coding	PUTATIVE	None	8550	855	284	56498321	56507691	1	None	None
12	PA2G4	ENSG00000170515	ENST00000553057	protein_coding	PUTATIVE	None	8550	562	186	56498703	56503685	1	None	None
12	PA2G4	ENSG00000170515	ENST00000551061	protein_coding	PUTATIVE	None	8550	194	63	56499946	56501003	1	None	None
12	PA2G4	ENSG00000170515	ENST00000550166	retained_intron	KNOWN	None	8550	None	None	56500477	56503712	1	None	None
12	PA2G4	ENSG00000170515	ENST00000552528	retained_intron	KNOWN	None	8550	None	None	56503653	56504404	1	None	None
12	PA2G4	ENSG00000170515	ENST00000552266	retained_intron	KNOWN	None	8550	None	None	56504349	56505293	1	None	None
7	VN1R33P	ENSG00000227426	ENST00000411800	unitary_pseudogene	KNOWN	None	37353	None	None	62861763	62862649	-1	None	None
12	None	ENSG00000257219	ENST00000550380	lincRNA	KNOWN	None	None	None	None	76653619	76696593	1	None	None
12	None	ENSG00000257219	ENST00000553247	lincRNA	KNOWN	None	None	None	None	76653685	76698911	1	None	None
12	None	ENSG00000257005	ENST00000545814	processed_pseudogene	KNOWN	None	None	None	None	64045407	64045710	1	None	None
3	None	ENSG00000266030	ENST00000581307	miRNA	NOVEL	None	None	None	None	99085645	99085733	-1	None	None
3	None	ENSG00000270207	ENST00000604028	antisense	KNOWN	None	None	None	None	7648577	7649584	-1	None	None
8	None	ENSG00000253505	ENST00000517681	lincRNA	KNOWN	None	None	None	None	8272200	8282088	-1	None	None
8	None	ENSG00000253505	ENST00000519814	lincRNA	KNOWN	None	None	None	None	8279934	8282142	-1	None	None
3	None	ENSG00000243296	ENST00000471993	lincRNA	KNOWN	None	None	None	None	99219191	99224352	1	None	None
8	None	ENSG00000238533	ENST00000459247	snoRNA	NOVEL	None	None	None	None	103400754	103400863	-1	None	None
X	MIR19B2	ENSG00000207812	ENST00000385077	miRNA	KNOWN	None	31576	None	None	133303701	133303797	-1	MIRN19B2	hsa-mir-19b-2
21	TSPEAR-AS1	ENSG00000235890	ENST00000451035	antisense	KNOWN	None	1271	None	None	45926690	45935738	1	None	None
21	TSPEAR-AS1	ENSG00000235890	ENST00000430181	antisense	KNOWN	None	1271	None	None	45930569	45935506	1	None	None
17	WIPI1	ENSG00000070540	ENST00000592645	nonsense_mediated_decay	KNOWN	None	25471	247	81	66417089	66423373	-1	None	FLJ10055, WIPI49, Atg18, ATG18A
17	WIPI1	ENSG00000070540	ENST00000262139	protein_coding	KNOWN	CCDS11677	25471	1341	446	66417423	66453562	-1	None	FLJ10055, WIPI49, Atg18, ATG18A
17	WIPI1	ENSG00000070540	ENST00000589459	processed_transcript	KNOWN	None	25471	None	None	66417450	66453640	-1	None	FLJ10055, WIPI49, Atg18, ATG18A
17	WIPI1	ENSG00000070540	ENST00000589316	nonsense_mediated_decay	KNOWN	None	25471	1110	369	66417451	66453640	-1	None	FLJ10055, WIPI49, Atg18, ATG18A
17	WIPI1	ENSG00000070540	ENST00000585393	protein_coding	PUTATIVE	None	25471	163	53	66417627	66423316	-1	None	FLJ10055, WIPI49, Atg18, ATG18A
17	WIPI1	ENSG00000070540	ENST00000546360	protein_coding	PUTATIVE	None	25471	1095	364	66417655	66453620	-1	None	FLJ10055, WIPI49, Atg18, ATG18A
17	WIPI1	ENSG00000070540	ENST00000590402	retained_intron	KNOWN	None	25471	None	None	66422067	66423710	-1	None	FLJ10055, WIPI49, Atg18, ATG18A
17	WIPI1	ENSG00000070540	ENST00000591744	protein_coding	PUTATIVE	None	25471	618	205	66422071	66429712	-1	None	FLJ10055, WIPI49, Atg18, ATG18A
17	WIPI1	ENSG00000070540	ENST00000587731	retained_intron	KNOWN	None	25471	None	None	66424386	66426273	-1	None	FLJ10055, WIPI49, Atg18, ATG18A
17	WIPI1	ENSG00000070540	ENST00000591494	processed_transcript	KNOWN	None	25471	None	None	66425018	66444581	-1	None	FLJ10055, WIPI49, Atg18, ATG18A
17	WIPI1	ENSG00000070540	ENST00000586815	processed_transcript	KNOWN	None	25471	None	None	66429650	66453654	-1	None	FLJ10055, WIPI49, Atg18, ATG18A
6	EEF1GP6	ENSG00000216518	ENST00000402309	processed_pseudogene	KNOWN	None	44561	None	None	97198700	97199604	1	None	None
7	None	ENSG00000224368	ENST00000440565	processed_pseudogene	KNOWN	None	None	None	None	62865220	62865778	-1	None	None
15	ADPGK-AS1	ENSG00000260898	ENST00000563592	antisense	KNOWN	None	44144	None	None	73075176	73090540	1	None	None
15	ADPGK-AS1	ENSG00000260898	ENST00000566745	antisense	KNOWN	None	44144	None	None	73077353	73085304	1	None	None
1	None	ENSG00000260938	ENST00000564300	sense_overlapping	KNOWN	None	None	None	None	178449742	178450341	1	None	None
8	None	ENSG00000253923	ENST00000517692	processed_pseudogene	KNOWN	None	None	None	None	103430207	103431181	1	None	None
11	None	ENSG00000199875	ENST00000363005	misc_RNA	NOVEL	None	None	None	None	93452769	93452881	1	None	None
6	None	ENSG00000224384	ENST00000442184	antisense	KNOWN	None	None	None	None	97233013	97243697	1	None	None
14	None	ENSG00000258845	ENST00000554319	lincRNA	KNOWN	None	None	None	None	46037198	46038272	1	None	None
7	None	ENSG00000233559	ENST00000447430	processed_transcript	KNOWN	None	None	None	None	130538479	130613408	1	None	None
11	None	ENSG00000259854	ENST00000562341	lincRNA	KNOWN	None	None	None	None	69229075	69231600	1	None	None
11	None	ENSG00000270202	ENST00000604639	processed_pseudogene	KNOWN	None	None	None	None	110977784	110978474	-1	None	None
1	LINC00083	ENSG00000188585	ENST00000445098	processed_transcript	KNOWN	None	34521	None	None	178465031	178468769	-1	NCRNA00083	FLJ44005, RP4-593C16.2
14	None	ENSG00000240201	ENST00000493565	processed_pseudogene	KNOWN	None	None	None	None	30524416	30525160	1	None	None
2	None	ENSG00000236449	ENST00000442996	antisense	KNOWN	None	None	None	None	175411869	175639555	1	None	None
2	None	ENSG00000236449	ENST00000412835	antisense	KNOWN	None	None	None	None	175412102	175530417	1	None	None
7	ZNF734P	ENSG00000197990	ENST00000419494	unprocessed_pseudogene	KNOWN	None	32465	None	None	62910197	62917065	1	ZNF734	None
19	ZNF324	ENSG00000083812	ENST00000536459	protein_coding	KNOWN	CCDS12981	14096	1662	553	58978423	58984945	1	None	ZF5128, ZNF324A
19	ZNF324	ENSG00000083812	ENST00000196482	protein_coding	KNOWN	CCDS12981	14096	1662	553	58978463	58984765	1	None	ZF5128, ZNF324A
19	ZNF324	ENSG00000083812	ENST00000593925	protein_coding	KNOWN	None	14096	1237	411	58982285	58984781	1	None	ZF5128, ZNF324A
19	ZNF324	ENSG00000083812	ENST00000535298	protein_coding	KNOWN	None	14096	993	330	58982285	58984781	1	None	ZF5128, ZNF324A
11	MIR4491	ENSG00000264032	ENST00000581087	miRNA	KNOWN	None	41808	None	None	111218482	111218549	1	None	hsa-mir-4491
8	PPM1AP1	ENSG00000250483	ENST00000502740	processed_pseudogene	KNOWN	None	30175	None	None	15663658	15664792	-1	None	None
8	RNU6ATAC8P	ENSG00000221387	ENST00000408460	snRNA	KNOWN	None	46907	None	None	103433425	103433550	1	None	None
6	RN7SL509P	ENSG00000263479	ENST00000579670	misc_RNA	KNOWN	None	46525	None	None	97362577	97362871	-1	None	None
17	PRAC	ENSG00000159182	ENST00000290294	protein_coding	KNOWN	CCDS11535	30591	174	57	46799084	46799884	-1	C17orf92, PRAC	None
3	None	ENSG00000240086	ENST00000466206	lincRNA	KNOWN	None	None	None	None	135074909	135158671	-1	None	None
3	None	ENSG00000240086	ENST00000459861	lincRNA	KNOWN	None	None	None	None	135092637	135158664	-1	None	None
3	None	ENSG00000240086	ENST00000473001	retained_intron	KNOWN	None	None	None	None	135097888	135158730	-1	None	None
8	None	ENSG00000254153	ENST00000521218	lincRNA	KNOWN	None	None	None	None	8314419	8318847	-1	None	None
8	NTAN1P2	ENSG00000250569	ENST00000515730	processed_pseudogene	KNOWN	None	45262	None	None	87493983	87495231	-1	None	None
X	CXorf56	ENSG00000018610	ENST00000486230	protein_coding	KNOWN	CCDS14579	26239	669	222	118672112	118699336	-1	None	FLJ22965
X	CXorf56	ENSG00000018610	ENST00000320339	protein_coding	KNOWN	CCDS55484	26239	522	173	118672112	118699336	-1	None	FLJ22965
X	CXorf56	ENSG00000018610	ENST00000476164	protein_coding	KNOWN	CCDS14579	26239	669	222	118672115	118699336	-1	None	FLJ22965
X	CXorf56	ENSG00000018610	ENST00000469448	processed_transcript	KNOWN	None	26239	None	None	118673533	118676730	-1	None	FLJ22965
X	CXorf56	ENSG00000018610	ENST00000371594	protein_coding	KNOWN	CCDS14579	26239	669	222	118672112	118699397	-1	None	FLJ22965
X	CXorf56	ENSG00000018610	ENST00000536133	protein_coding	KNOWN	CCDS55485	26239	627	208	118672112	118699397	-1	None	FLJ22965
HG183_PATCH	MILR1	ENSG00000263304	ENST00000571603	protein_coding	KNOWN	None	27570	1158	385	62526397	62546003	1	C17orf60	Allergin-1, MCA-32
HG183_PATCH	MILR1	ENSG00000263304	ENST00000580250	protein_coding	KNOWN	None	27570	776	257	62526500	62545785	1	C17orf60	Allergin-1, MCA-32
HG183_PATCH	MILR1	ENSG00000263304	ENST00000583625	protein_coding	KNOWN	None	27570	1038	345	62526523	62545310	1	C17orf60	Allergin-1, MCA-32
HG183_PATCH	MILR1	ENSG00000263304	ENST00000585046	protein_coding	KNOWN	None	27570	762	253	62526529	62544977	1	C17orf60	Allergin-1, MCA-32
12	None	ENSG00000257572	ENST00000549925	processed_pseudogene	KNOWN	None	None	None	None	45465552	45466626	1	None	None
11	RNU2-60P	ENSG00000253099	ENST00000517290	snRNA	KNOWN	None	48553	None	None	111253817	111253944	1	None	None
8	None	ENSG00000271612	ENST00000605812	processed_pseudogene	KNOWN	None	None	None	None	103463991	103464711	1	None	None
3	PIK3CA	ENSG00000121879	ENST00000477735	protein_coding	KNOWN	None	8975	63	20	178865902	178916676	1	None	PI3K
3	PIK3CA	ENSG00000121879	ENST00000263967	protein_coding	KNOWN	CCDS43171	8975	3207	1068	178866311	178957881	1	None	PI3K
3	PIK3CA	ENSG00000121879	ENST00000468036	protein_coding	KNOWN	None	8975	354	117	178867315	178916967	1	None	PI3K
3	PIK3CA	ENSG00000121879	ENST00000462255	retained_intron	KNOWN	None	8975	None	None	178937339	178943805	1	None	PI3K
11	None	ENSG00000255115	ENST00000532139	processed_pseudogene	KNOWN	None	None	None	None	77626036	77626321	-1	None	None
6	None	ENSG00000226684	ENST00000457513	lincRNA	KNOWN	None	None	None	None	97731179	97753974	1	None	None
6	None	ENSG00000226684	ENST00000574739	lincRNA	KNOWN	None	None	None	None	97753462	97757924	1	None	None
9	LCNL1	ENSG00000214402	ENST00000482657	nonsense_mediated_decay	KNOWN	None	34436	126	41	139876356	139880210	1	None	FLJ45224
9	LCNL1	ENSG00000214402	ENST00000408973	protein_coding	KNOWN	CCDS43908	34436	495	164	139877445	139880213	1	None	FLJ45224
9	LCNL1	ENSG00000214402	ENST00000460177	nonsense_mediated_decay	KNOWN	None	34436	126	41	139877776	139880210	1	None	FLJ45224
9	LCNL1	ENSG00000214402	ENST00000432827	processed_transcript	KNOWN	None	34436	None	None	139878454	139880862	1	None	FLJ45224
12	RN7SKP172	ENSG00000223273	ENST00000411341	misc_RNA	KNOWN	None	45896	None	None	76709531	76709828	1	None	None
3	None	ENSG00000243089	ENST00000484675	lincRNA	KNOWN	None	None	None	None	99226031	99245957	-1	None	None
X	None	ENSG00000200620	ENST00000363750	snoRNA	NOVEL	None	None	None	None	15734331	15734469	1	None	None
3	LMCD1-AS1	ENSG00000227110	ENST00000441861	antisense	KNOWN	None	44477	None	None	7994492	8057994	-1	None	None
3	LMCD1-AS1	ENSG00000227110	ENST00000446281	antisense	KNOWN	None	44477	None	None	7996326	8543284	-1	None	None
3	LMCD1-AS1	ENSG00000227110	ENST00000452802	antisense	KNOWN	None	44477	None	None	8235936	8543332	-1	None	None
3	LMCD1-AS1	ENSG00000227110	ENST00000420095	antisense	KNOWN	None	44477	None	None	8262834	8543341	-1	None	None
3	LMCD1-AS1	ENSG00000227110	ENST00000455811	antisense	KNOWN	None	44477	None	None	8540171	8543315	-1	None	None
3	LMCD1-AS1	ENSG00000227110	ENST00000439407	antisense	KNOWN	None	44477	None	None	8540295	8653610	-1	None	None
3	LMCD1-AS1	ENSG00000227110	ENST00000458666	antisense	KNOWN	None	44477	None	None	8651124	8653586	-1	None	None
3	NFKBIZ	ENSG00000144802	ENST00000461724	protein_coding	KNOWN	None	29805	331	109	101546835	101570970	1	None	MAIL, FLJ34463, INAP
3	NFKBIZ	ENSG00000144802	ENST00000483180	protein_coding	KNOWN	None	29805	1803	600	101546837	101576303	1	None	MAIL, FLJ34463, INAP
3	NFKBIZ	ENSG00000144802	ENST00000394054	protein_coding	KNOWN	CCDS43123	29805	1857	618	101546837	101579866	1	None	MAIL, FLJ34463, INAP
3	NFKBIZ	ENSG00000144802	ENST00000326151	protein_coding	KNOWN	None	29805	1791	596	101568358	101578367	1	None	MAIL, FLJ34463, INAP
3	NFKBIZ	ENSG00000144802	ENST00000326172	protein_coding	KNOWN	CCDS2946	29805	2157	718	101568358	101579866	1	None	MAIL, FLJ34463, INAP
3	NFKBIZ	ENSG00000144802	ENST00000486444	retained_intron	KNOWN	None	29805	None	None	101568370	101571662	1	None	MAIL, FLJ34463, INAP
3	NFKBIZ	ENSG00000144802	ENST00000491281	protein_coding	KNOWN	None	29805	389	128	101569107	101572059	1	None	MAIL, FLJ34463, INAP
3	NFKBIZ	ENSG00000144802	ENST00000465476	retained_intron	KNOWN	None	29805	None	None	101573492	101574861	1	None	MAIL, FLJ34463, INAP
3	NFKBIZ	ENSG00000144802	ENST00000477601	protein_coding	NOVEL	None	29805	392	129	101574577	101578371	1	None	MAIL, FLJ34463, INAP
3	NFKBIZ	ENSG00000144802	ENST00000495089	retained_intron	KNOWN	None	29805	None	None	101575525	101578367	1	None	MAIL, FLJ34463, INAP
3	NFKBIZ	ENSG00000144802	ENST00000495719	retained_intron	KNOWN	None	29805	None	None	101576044	101578383	1	None	MAIL, FLJ34463, INAP
14	None	ENSG00000257636	ENST00000552511	antisense	KNOWN	None	None	None	None	30907198	31042835	-1	None	None
14	None	ENSG00000257636	ENST00000550680	antisense	KNOWN	None	None	None	None	30907212	30943433	-1	None	None
14	None	ENSG00000257636	ENST00000548631	antisense	KNOWN	None	None	None	None	30919566	30943276	-1	None	None
14	None	ENSG00000257636	ENST00000550118	antisense	KNOWN	None	None	None	None	30938382	30972477	-1	None	None
11	None	ENSG00000255428	ENST00000528614	sense_intronic	KNOWN	None	None	None	None	111284967	111288911	-1	None	None
17	DCAF7	ENSG00000136485	ENST00000577702	processed_transcript	KNOWN	None	30915	None	None	61627822	61671628	1	WDR68	HAN11, SWAN-1
17	DCAF7	ENSG00000136485	ENST00000582103	processed_transcript	KNOWN	None	30915	None	None	61627843	61671628	1	WDR68	HAN11, SWAN-1
17	DCAF7	ENSG00000136485	ENST00000415273	protein_coding	NOVEL	None	30915	429	142	61627861	61667147	1	WDR68	HAN11, SWAN-1
17	DCAF7	ENSG00000136485	ENST00000582274	processed_transcript	KNOWN	None	30915	None	None	61627871	61629916	1	WDR68	HAN11, SWAN-1
17	DCAF7	ENSG00000136485	ENST00000585252	processed_transcript	KNOWN	None	30915	None	None	61627908	61662613	1	WDR68	HAN11, SWAN-1
17	DCAF7	ENSG00000136485	ENST00000580091	processed_transcript	KNOWN	None	30915	None	None	61666426	61671621	1	WDR68	HAN11, SWAN-1
17	DCAF7	ENSG00000136485	ENST00000431926	protein_coding	KNOWN	None	30915	498	165	61627843	61666675	1	WDR68	HAN11, SWAN-1
17	DCAF7	ENSG00000136485	ENST00000310827	protein_coding	KNOWN	None	30915	1029	342	61627822	61671639	1	WDR68	HAN11, SWAN-1
3	None	ENSG00000244441	ENST00000496098	processed_pseudogene	KNOWN	None	None	None	None	120231697	120232035	1	None	None
X	RNU5F-7P	ENSG00000200566	ENST00000363696	snRNA	KNOWN	None	42524	None	None	15934312	15934426	-1	None	None
12	None	ENSG00000256542	ENST00000537762	antisense	KNOWN	None	None	None	None	132853935	132855447	1	None	None
2	RNU6-5P	ENSG00000206965	ENST00000384238	snRNA	KNOWN	None	34249	None	None	175422694	175422800	-1	RNU6-5	U6-5
6	None	ENSG00000224849	ENST00000433637	lincRNA	KNOWN	None	None	None	None	98150157	98155979	1	None	None
15	LINC00927	ENSG00000259361	ENST00000558913	lincRNA	KNOWN	None	27522	None	None	80555410	80634110	-1	None	None
15	LINC00927	ENSG00000259361	ENST00000558244	lincRNA	KNOWN	None	27522	None	None	80572473	80634147	-1	None	None
15	LINC00927	ENSG00000259361	ENST00000561432	lincRNA	KNOWN	None	27522	None	None	80613341	80634109	-1	None	None
15	LINC00927	ENSG00000259361	ENST00000558578	lincRNA	KNOWN	None	27522	None	None	80631549	80634115	-1	None	None
14	IGHV3-6	ENSG00000253763	ENST00000518407	IG_V_pseudogene	KNOWN	None	5613	None	None	106511782	106512231	-1	None	None
12	RNA5SP361	ENSG00000199556	ENST00000362686	rRNA	KNOWN	None	43261	None	None	45511554	45511671	1	RN5S361	None
11	None	ENSG00000254829	ENST00000533697	antisense	KNOWN	None	None	None	None	77726761	77727541	1	None	None
X	MIR20B	ENSG00000207710	ENST00000384977	miRNA	KNOWN	None	32024	None	None	133303839	133303907	-1	MIRN20B	hsa-mir-20b
7	None	ENSG00000230132	ENST00000420733	processed_pseudogene	KNOWN	None	None	None	None	62940976	62941367	-1	None	None
X	SETP15	ENSG00000226536	ENST00000412724	processed_pseudogene	KNOWN	None	42934	None	None	15935671	15936754	1	None	None
2	None	ENSG00000237798	ENST00000454203	antisense	KNOWN	None	None	None	None	175439955	175452454	1	None	None
11	None	ENSG00000255980	ENST00000545202	lincRNA	KNOWN	None	None	None	None	69240458	69244389	1	None	None
3	None	ENSG00000250271	ENST00000485020	lincRNA	KNOWN	None	None	None	None	151515272	151526037	1	None	None
21	None	ENSG00000256212	ENST00000339001	pseudogene	NOVEL	None	None	None	None	46020522	46021649	1	None	None
15	None	ENSG00000238340	ENST00000459082	miRNA	NOVEL	None	None	None	None	28947708	28947790	-1	None	None
11	SCARNA9	ENSG00000254911	ENST00000530422	antisense	KNOWN	None	32566	None	None	93454679	93455031	1	None	mgU2-19/30, Z32
11	SCARNA9	ENSG00000254911	ENST00000364329	snoRNA	KNOWN	None	32566	None	None	93454708	93454787	1	None	mgU2-19/30, Z32
11	SCARNA9	ENSG00000254911	ENST00000362805	snoRNA	KNOWN	None	32566	None	None	93454963	93455032	1	None	mgU2-19/30, Z32
14	IGHV2-10	ENSG00000254117	ENST00000517302	IG_V_pseudogene	KNOWN	None	5574	None	None	106559546	106559975	-1	None	None
3	None	ENSG00000196095	ENST00000357829	pseudogene	NOVEL	None	None	None	None	120262892	120263292	-1	None	None
19	None	ENSG00000266462	ENST00000581390	miRNA	NOVEL	None	None	None	None	55745495	55745564	1	None	None
8	SLC2A3P4	ENSG00000254088	ENST00000521259	processed_pseudogene	KNOWN	None	31076	None	None	87515820	87517290	1	None	None
2	H3F3AP4	ENSG00000235655	ENST00000369387	processed_pseudogene	KNOWN	None	42980	None	None	175584636	175585046	1	None	p13
2	H3F3AP4	ENSG00000235655	ENST00000316450	processed_pseudogene	KNOWN	None	42980	None	None	175584505	175585526	1	None	p13
12	None	ENSG00000257526	ENST00000551082	processed_transcript	PUTATIVE	None	None	None	None	76956074	77009211	1	None	None
19	None	ENSG00000268729	ENST00000596786	processed_transcript	KNOWN	None	None	None	None	55823397	55823863	-1	None	None
7	SEPT7P5	ENSG00000164740	ENST00000434048	processed_pseudogene	KNOWN	None	38041	None	None	62956177	62962914	1	None	None
11	None	ENSG00000254675	ENST00000526730	antisense	KNOWN	None	None	None	None	77733979	77734767	1	None	None
14	None	ENSG00000258616	ENST00000557602	lincRNA	KNOWN	None	None	None	None	46175453	46183656	-1	None	None
14	None	ENSG00000258616	ENST00000554711	lincRNA	KNOWN	None	None	None	None	46175461	46184690	-1	None	None
14	None	ENSG00000258616	ENST00000554810	lincRNA	KNOWN	None	None	None	None	46175461	46184894	-1	None	None
14	None	ENSG00000258616	ENST00000554431	lincRNA	KNOWN	None	None	None	None	46175463	46183623	-1	None	None
14	None	ENSG00000258616	ENST00000555442	lincRNA	KNOWN	None	None	None	None	46175475	46185155	-1	None	None
12	PLEKHA8P1	ENSG00000134297	ENST00000256692	processed_transcript	KNOWN	None	30222	None	None	45566847	45609789	-1	PLEKHA9	FLJ14156
12	PLEKHA8P1	ENSG00000134297	ENST00000336399	transcribed_processed_pseudogene	KNOWN	None	30222	None	None	45566973	45568496	-1	PLEKHA9	FLJ14156
12	PLEKHA8P1	ENSG00000134297	ENST00000550498	processed_transcript	KNOWN	None	30222	None	None	45569817	45609809	-1	PLEKHA9	FLJ14156
12	PLEKHA8P1	ENSG00000134297	ENST00000545609	processed_transcript	KNOWN	None	30222	None	None	45570210	45609824	-1	PLEKHA9	FLJ14156
1	None	ENSG00000231289	ENST00000411717	processed_pseudogene	KNOWN	None	None	None	None	143243809	143244859	-1	None	None
15	NPM1P42	ENSG00000259259	ENST00000560329	processed_pseudogene	KNOWN	None	45221	None	None	73191740	73192601	-1	None	None
19	None	ENSG00000269275	ENST00000595064	antisense	KNOWN	None	None	None	None	55888947	55889493	-1	None	None
3	None	ENSG00000239941	ENST00000482382	lincRNA	KNOWN	None	None	None	None	151835962	151869513	-1	None	None
12	None	ENSG00000255583	ENST00000541353	processed_transcript	KNOWN	None	None	None	None	64078523	64109256	-1	None	None
12	None	ENSG00000255583	ENST00000543539	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	64078528	64118715	-1	None	None
10	DPCD	ENSG00000166171	ENST00000470165	processed_transcript	KNOWN	None	24542	None	None	103330317	103356408	1	None	DKFZP566F084, RP11-529I10.4
10	DPCD	ENSG00000166171	ENST00000370151	protein_coding	KNOWN	CCDS7514	24542	612	203	103348045	103369425	1	None	DKFZP566F084, RP11-529I10.4
10	DPCD	ENSG00000166171	ENST00000370147	protein_coding	KNOWN	None	24542	513	170	103348082	103369204	1	None	DKFZP566F084, RP11-529I10.4
10	DPCD	ENSG00000166171	ENST00000434727	protein_coding	KNOWN	None	24542	351	116	103354459	103369196	1	None	DKFZP566F084, RP11-529I10.4
10	DPCD	ENSG00000166171	ENST00000475443	processed_transcript	KNOWN	None	24542	None	None	103360496	103369418	1	None	DKFZP566F084, RP11-529I10.4
10	DPCD	ENSG00000166171	ENST00000416979	protein_coding	KNOWN	None	24542	741	246	103330406	103348654	1	None	DKFZP566F084, RP11-529I10.4
10	DPCD	ENSG00000166171	ENST00000370148	protein_coding	KNOWN	None	24542	513	170	103348089	103368659	1	None	DKFZP566F084, RP11-529I10.4
8	None	ENSG00000253343	ENST00000524008	lincRNA	KNOWN	None	None	None	None	8413248	8418475	-1	None	None
10	RNU6-1170P	ENSG00000251783	ENST00000515974	snRNA	KNOWN	None	48133	None	None	43100606	43100711	1	None	None
3	None	ENSG00000240452	ENST00000496868	unprocessed_pseudogene	KNOWN	None	None	None	None	120440871	120441158	1	None	None
7	PHKG1P2	ENSG00000228645	ENST00000457537	processed_pseudogene	KNOWN	None	33917	None	None	62969681	62970543	1	None	None
11	None	ENSG00000255208	ENST00000531009	antisense	KNOWN	None	None	None	None	111320593	111322036	1	None	None
X	None	ENSG00000227541	ENST00000403720	processed_pseudogene	KNOWN	None	None	None	None	119335910	119336597	-1	None	None
10	None	ENSG00000232109	ENST00000435210	processed_pseudogene	KNOWN	None	None	None	None	43156176	43157224	1	None	None
8	RPS12P15	ENSG00000240724	ENST00000489699	processed_pseudogene	KNOWN	None	35610	None	None	103515981	103516365	1	None	None
19	None	ENSG00000267093	ENST00000589101	lincRNA	KNOWN	None	None	None	None	55911113	55911787	-1	None	None
17	RPL17P41	ENSG00000213179	ENST00000469329	processed_pseudogene	KNOWN	None	36292	None	None	65780869	65781409	1	None	None
11	RNU6-126P	ENSG00000252494	ENST00000516685	snRNA	KNOWN	None	47089	None	None	77844466	77844568	-1	None	None
1	None	ENSG00000229420	ENST00000453629	processed_pseudogene	KNOWN	None	None	None	None	143245164	143245590	1	None	None
10	None	ENSG00000233515	ENST00000411439	lincRNA	KNOWN	None	None	None	None	43169645	43187171	-1	None	None
2	None	ENSG00000237104	ENST00000416004	lincRNA	KNOWN	None	None	None	None	175647774	175652656	-1	None	None
10	ASAH2C	ENSG00000072444	ENST00000420079	protein_coding	KNOWN	None	23457	1838	611	48001781	48050538	-1	None	bA98I6.3
10	ASAH2C	ENSG00000072444	ENST00000426610	protein_coding	KNOWN	None	23457	1869	622	48001603	48055018	-1	None	bA98I6.3
1	None	ENSG00000234654	ENST00000445742	unprocessed_pseudogene	KNOWN	None	None	None	None	143245823	143246210	1	None	None
14	IGHVIII-11-1	ENSG00000254215	ENST00000522733	IG_V_pseudogene	KNOWN	None	5692	None	None	106576803	106577069	-1	None	IGHV(III)-11-1
12	None	ENSG00000213272	ENST00000484287	processed_pseudogene	KNOWN	None	None	None	None	76993451	76994250	1	None	None
21	IMMTP1	ENSG00000229880	ENST00000435590	processed_pseudogene	KNOWN	None	6048	None	None	46095785	46098003	-1	IMMTP	None
17	None	ENSG00000222548	ENST00000410616	miRNA	NOVEL	None	None	None	None	65809698	65809770	1	None	None
11	None	ENSG00000248332	ENST00000530466	sense_intronic	KNOWN	None	None	None	None	8081585	8089487	1	None	None
11	None	ENSG00000248332	ENST00000506601	sense_intronic	KNOWN	None	None	None	None	8081585	8090920	1	None	None
8	None	ENSG00000253292	ENST00000521205	processed_pseudogene	KNOWN	None	None	None	None	87605983	87606817	-1	None	None
8	RNU6-1224P	ENSG00000252593	ENST00000516784	snRNA	KNOWN	None	48187	None	None	103545469	103545567	-1	None	None
2	None	ENSG00000201425	ENST00000364555	misc_RNA	NOVEL	None	None	None	None	175842531	175842625	1	None	None
10	CUBNP1	ENSG00000231009	ENST00000412710	unprocessed_pseudogene	KNOWN	None	44983	None	None	43189819	43210023	-1	None	None
17	None	ENSG00000265086	ENST00000579808	miRNA	NOVEL	None	None	None	None	65840061	65840130	1	None	None
11	KCTD21-AS1	ENSG00000246174	ENST00000532831	antisense	KNOWN	None	48674	None	None	77850817	77853105	1	None	None
11	KCTD21-AS1	ENSG00000246174	ENST00000523626	antisense	KNOWN	None	48674	None	None	77850839	77885023	1	None	None
11	KCTD21-AS1	ENSG00000246174	ENST00000530261	antisense	KNOWN	None	48674	None	None	77850841	77884852	1	None	None
11	KCTD21-AS1	ENSG00000246174	ENST00000500113	antisense	KNOWN	None	48674	None	None	77850849	77854134	1	None	None
11	KCTD21-AS1	ENSG00000246174	ENST00000527321	antisense	KNOWN	None	48674	None	None	77850861	77852968	1	None	None
11	KCTD21-AS1	ENSG00000246174	ENST00000528468	antisense	KNOWN	None	48674	None	None	77878227	77884940	1	None	None
11	KCTD21-AS1	ENSG00000246174	ENST00000600795	antisense	KNOWN	None	48674	None	None	77884821	77886369	1	None	None
3	None	ENSG00000244464	ENST00000462011	lincRNA	KNOWN	None	None	None	None	99316908	99342664	1	None	None
1	None	ENSG00000225010	ENST00000427452	processed_pseudogene	KNOWN	None	None	None	None	143342844	143343247	-1	None	None
2	RNU6-763P	ENSG00000212167	ENST00000390865	snRNA	KNOWN	None	47726	None	None	175886942	175887047	1	None	None
8	POU5F1P2	ENSG00000253382	ENST00000521750	processed_pseudogene	KNOWN	None	33309	None	None	103633737	103634559	-1	None	None
17	None	ENSG00000266717	ENST00000577385	antisense	KNOWN	None	None	None	None	65947001	65947862	-1	None	None
17	HOXB13	ENSG00000159184	ENST00000290295	protein_coding	KNOWN	CCDS11536	5112	855	284	46802125	46806540	-1	None	None
6	None	ENSG00000235733	ENST00000413898	antisense	KNOWN	None	None	None	None	25245584	25261639	-1	None	None
10	FAM170B	ENSG00000172538	ENST00000311787	protein_coding	KNOWN	CCDS53536	19736	852	283	50339199	50342053	-1	C10orf73	Em:AC084727.4
12	None	ENSG00000255916	ENST00000537720	antisense	KNOWN	None	None	None	None	132906436	132908161	1	None	None
2	RNU6-1290P	ENSG00000199827	ENST00000362957	snRNA	KNOWN	None	48253	None	None	175894497	175894605	1	None	None
14	IGHV1-12	ENSG00000254174	ENST00000518307	IG_V_pseudogene	KNOWN	None	5546	None	None	106579014	106579303	-1	None	None
15	RN7SL719P	ENSG00000241075	ENST00000487967	misc_RNA	KNOWN	None	46735	None	None	28948669	28948947	-1	None	None
11	None	ENSG00000255606	ENST00000544004	lincRNA	KNOWN	None	None	None	None	69253133	69259511	-1	None	None
21	KRTAP10-13P	ENSG00000236382	ENST00000412914	unprocessed_pseudogene	KNOWN	None	34213	None	None	46122136	46122706	1	None	None
3	None	ENSG00000201217	ENST00000364347	misc_RNA	NOVEL	None	None	None	None	152167061	152167173	1	None	None
X	None	ENSG00000229090	ENST00000423552	processed_pseudogene	KNOWN	None	None	None	None	100975313	100976682	-1	None	None
X	MIR18B	ENSG00000239594	ENST00000454574	miRNA	KNOWN	None	32025	None	None	133304064	133304146	-1	MIRN18B	hsa-mir-18b
11	SNORA25	ENSG00000207112	ENST00000384384	snoRNA	KNOWN	None	32615	None	None	93463679	93463812	-1	None	ACA25
17	RN7SL622P	ENSG00000265052	ENST00000585292	misc_RNA	KNOWN	None	46638	None	None	65973814	65974084	1	None	None
2	None	ENSG00000227187	ENST00000421086	processed_pseudogene	KNOWN	None	None	None	None	175898506	175898920	-1	None	None
8	None	ENSG00000250684	ENST00000514945	processed_pseudogene	KNOWN	None	None	None	None	103700545	103701134	-1	None	None
3	None	ENSG00000243305	ENST00000463255	antisense	KNOWN	None	None	None	None	152175548	152214602	-1	None	None
3	None	ENSG00000263810	ENST00000584795	miRNA	NOVEL	None	None	None	None	99410324	99410415	-1	None	None
17	None	ENSG00000266176	ENST00000580729	lincRNA	KNOWN	None	None	None	None	65989996	65992547	-1	None	None
7	ANKRD7	ENSG00000106013	ENST00000477532	processed_transcript	KNOWN	None	18588	None	None	117854727	117880041	1	None	TSA806
7	ANKRD7	ENSG00000106013	ENST00000265224	protein_coding	KNOWN	CCDS43638	18588	765	254	117864730	117882743	1	None	TSA806
7	ANKRD7	ENSG00000106013	ENST00000486422	protein_coding	NOVEL	None	18588	312	103	117864761	117874557	1	None	TSA806
7	ANKRD7	ENSG00000106013	ENST00000417525	protein_coding	PUTATIVE	None	18588	633	210	117864785	117882746	1	None	TSA806
7	ANKRD7	ENSG00000106013	ENST00000433239	protein_coding	KNOWN	None	18588	606	201	117864951	117882769	1	None	TSA806
7	ANKRD7	ENSG00000106013	ENST00000490445	retained_intron	KNOWN	None	18588	None	None	117879882	117882769	1	None	TSA806
7	ANKRD7	ENSG00000106013	ENST00000357099	protein_coding	KNOWN	None	18588	825	274	117864712	117882785	1	None	TSA806
11	SNORA32	ENSG00000206799	ENST00000384072	snoRNA	KNOWN	None	32622	None	None	93464145	93464265	-1	None	ACA32
8	GOLGA2P1	ENSG00000205333	ENST00000512938	processed_pseudogene	KNOWN	None	31052	None	None	87669616	87672521	-1	None	None
2	None	ENSG00000266510	ENST00000580447	miRNA	NOVEL	None	None	None	None	175899245	175899318	-1	None	None
15	None	ENSG00000261480	ENST00000568033	lincRNA	KNOWN	None	None	None	None	28964523	28983577	-1	None	None
1	None	ENSG00000232571	ENST00000429729	processed_pseudogene	KNOWN	None	None	None	None	143343559	143344609	1	None	None
11	None	ENSG00000261347	ENST00000567742	lincRNA	KNOWN	None	None	None	None	69282366	69284473	1	None	None
7	MIR29A	ENSG00000198981	ENST00000362111	miRNA	KNOWN	None	31616	None	None	130561495	130561580	-1	MIRN29, MIRN29A	hsa-mir-29, hsa-mir-29a
11	MIR34B	ENSG00000207811	ENST00000385076	miRNA	KNOWN	None	31636	None	None	111383663	111383746	1	MIRN34B	hsa-mir-34b
3	None	ENSG00000253004	ENST00000517195	snoRNA	NOVEL	None	None	None	None	135518536	135518622	-1	None	None
2	MIR933	ENSG00000215973	ENST00000401154	miRNA	KNOWN	None	33676	None	None	176032361	176032437	-1	MIRN933	hsa-mir-933
5	None	ENSG00000249639	ENST00000510230	antisense	KNOWN	None	None	None	None	134786303	134794387	1	None	None
17	None	ENSG00000266117	ENST00000579006	processed_pseudogene	NOVEL	None	None	None	None	66091209	66091898	1	None	None
21	None	ENSG00000236519	ENST00000417820	antisense	KNOWN	None	None	None	None	46222492	46224632	1	None	None
X	None	ENSG00000178146	ENST00000328462	processed_pseudogene	KNOWN	None	None	None	None	101033942	101035511	-1	None	None
11	SNORD6	ENSG00000202314	ENST00000365444	snoRNA	KNOWN	None	32703	None	None	93464668	93464740	-1	None	mgh28S-2412
3	MIR3921	ENSG00000264897	ENST00000577308	miRNA	KNOWN	None	38936	None	None	99683158	99683242	-1	None	hsa-mir-3921
7	MIR29B1	ENSG00000207748	ENST00000385015	miRNA	KNOWN	None	31619	None	None	130562218	130562298	-1	MIRN29B1	hsa-mir-29b-1
8	None	ENSG00000226836	ENST00000492214	processed_pseudogene	KNOWN	None	None	None	None	15800636	15801041	1	None	None
8	None	ENSG00000226836	ENST00000392642	processed_pseudogene	KNOWN	None	None	None	None	15800634	15801041	1	None	None
2	None	ENSG00000229750	ENST00000449168	antisense	KNOWN	None	None	None	None	176032632	176033250	1	None	None
12	YWHAQP7	ENSG00000271142	ENST00000603536	processed_pseudogene	KNOWN	None	37686	None	None	77013166	77013823	1	None	None
5	None	ENSG00000250167	ENST00000509372	antisense	KNOWN	None	None	None	None	134895267	134970564	1	None	None
5	None	ENSG00000250167	ENST00000514446	antisense	KNOWN	None	None	None	None	134914875	134970542	1	None	None
3	None	ENSG00000242222	ENST00000481235	processed_pseudogene	KNOWN	None	None	None	None	135644733	135645009	1	None	None
11	None	ENSG00000255774	ENST00000542064	lincRNA	KNOWN	None	None	None	None	69291901	69294708	-1	None	None
11	MIR34C	ENSG00000207562	ENST00000384831	miRNA	KNOWN	None	31637	None	None	111384164	111384240	1	MIRN34C	hsa-mir-34c
X	None	ENSG00000235196	ENST00000429048	processed_pseudogene	KNOWN	None	None	None	None	101166502	101167045	1	None	None
15	None	ENSG00000258010	ENST00000548231	antisense	KNOWN	None	None	None	None	80726136	80737493	-1	None	None
15	None	ENSG00000258010	ENST00000594607	antisense	KNOWN	None	None	None	None	80726136	80737493	-1	None	None
2	None	ENSG00000200121	ENST00000363251	misc_RNA	NOVEL	None	None	None	None	176041227	176041318	-1	None	None
13	RPL35P9	ENSG00000174418	ENST00000446059	processed_pseudogene	KNOWN	None	39402	None	None	107078121	107078470	1	None	None
17	None	ENSG00000265055	ENST00000579629	lincRNA	KNOWN	None	None	None	None	66092187	66097615	-1	None	None
17	None	ENSG00000265055	ENST00000584047	lincRNA	KNOWN	None	None	None	None	66092243	66097610	-1	None	None
3	None	ENSG00000244545	ENST00000496084	lincRNA	KNOWN	None	None	None	None	152365935	152368236	1	None	None
X	None	ENSG00000225397	ENST00000454598	processed_pseudogene	KNOWN	None	None	None	None	52751387	52751573	1	None	None
2	None	ENSG00000233131	ENST00000416186	processed_pseudogene	KNOWN	None	None	None	None	176048943	176049335	1	None	None
12	None	ENSG00000240027	ENST00000473404	processed_pseudogene	KNOWN	None	None	None	None	64154138	64154392	-1	None	None
15	FKBP1AP2	ENSG00000259691	ENST00000560953	processed_pseudogene	KNOWN	None	3715	None	None	73435577	73435859	-1	FKBP1P2	None
7	None	ENSG00000226380	ENST00000432045	processed_transcript	KNOWN	None	None	None	None	130565751	130598069	-1	None	None
7	None	ENSG00000226380	ENST00000447307	processed_transcript	KNOWN	None	None	None	None	130566521	130597935	-1	None	None
7	None	ENSG00000226380	ENST00000418546	retained_intron	KNOWN	None	None	None	None	130568868	130597956	-1	None	None
12	None	ENSG00000256783	ENST00000542627	lincRNA	KNOWN	None	None	None	None	133033746	133036610	1	None	None
21	ITGB2-AS1	ENSG00000227039	ENST00000441379	antisense	KNOWN	None	44304	None	None	46340966	46349593	1	None	None
21	ITGB2-AS1	ENSG00000227039	ENST00000429132	antisense	KNOWN	None	44304	None	None	46341241	46347943	1	None	None
4	RNU6-1059P	ENSG00000200622	ENST00000363752	snRNA	KNOWN	None	48022	None	None	96789818	96789915	-1	None	None
17	NBR2	ENSG00000198496	ENST00000460115	processed_transcript	KNOWN	None	20691	None	None	41277627	41297130	1	None	NCRNA00192
17	NBR2	ENSG00000198496	ENST00000356906	processed_transcript	KNOWN	None	20691	None	None	41277657	41292350	1	None	NCRNA00192
17	NBR2	ENSG00000198496	ENST00000467245	processed_transcript	KNOWN	None	20691	None	None	41277661	41305688	1	None	NCRNA00192
17	NBR2	ENSG00000198496	ENST00000587322	transcribed_unprocessed_pseudogene	KNOWN	None	20691	None	None	41283225	41283287	1	None	NCRNA00192
3	None	ENSG00000261533	ENST00000569034	sense_overlapping	KNOWN	None	None	None	None	99898411	99900574	1	None	None
16	None	ENSG00000261181	ENST00000564015	unprocessed_pseudogene	KNOWN	None	None	None	None	16488769	16492451	-1	None	None
12	None	ENSG00000243071	ENST00000485945	processed_pseudogene	KNOWN	None	None	None	None	77054185	77054664	1	None	None
16	ECI1	ENSG00000167969	ENST00000301729	protein_coding	KNOWN	CCDS10464	2703	909	302	2289396	2301615	-1	DCI	None
16	ECI1	ENSG00000167969	ENST00000562238	protein_coding	KNOWN	CCDS58410	2703	858	285	2289896	2301573	-1	DCI	None
16	ECI1	ENSG00000167969	ENST00000570258	protein_coding	PUTATIVE	None	2703	732	243	2289941	2302301	-1	DCI	None
16	ECI1	ENSG00000167969	ENST00000566379	protein_coding	PUTATIVE	None	2703	674	223	2290038	2301592	-1	DCI	None
16	ECI1	ENSG00000167969	ENST00000563447	retained_intron	KNOWN	None	2703	None	None	2292416	2294439	-1	DCI	None
16	ECI1	ENSG00000167969	ENST00000563029	retained_intron	KNOWN	None	2703	None	None	2293170	2301546	-1	DCI	None
16	ECI1	ENSG00000167969	ENST00000561688	retained_intron	KNOWN	None	2703	None	None	2294139	2301563	-1	DCI	None
4	RNU6-34P	ENSG00000201744	ENST00000364874	snRNA	KNOWN	None	34278	None	None	97073448	97073554	-1	RNU6-34	None
11	SNORA1	ENSG00000206834	ENST00000384107	snoRNA	KNOWN	None	32557	None	None	93465170	93465299	-1	None	ACA1
14	None	ENSG00000228294	ENST00000550512	lincRNA	KNOWN	None	None	None	None	19670480	19673623	-1	None	None
14	None	ENSG00000228294	ENST00000413661	lincRNA	KNOWN	None	None	None	None	19670792	19681014	-1	None	None
14	None	ENSG00000228294	ENST00000444357	lincRNA	KNOWN	None	None	None	None	19670906	19686002	-1	None	None
X	None	ENSG00000229826	ENST00000443639	processed_pseudogene	KNOWN	None	None	None	None	52764990	52765196	-1	None	None
5	None	ENSG00000251045	ENST00000508452	lincRNA	KNOWN	None	None	None	None	134984273	134989624	-1	None	None
2	None	ENSG00000229066	ENST00000444567	lincRNA	KNOWN	None	None	None	None	176121978	176319368	1	None	None
2	None	ENSG00000229066	ENST00000438963	lincRNA	KNOWN	None	None	None	None	176122070	176307696	1	None	None
X	MIR106A	ENSG00000207602	ENST00000384870	miRNA	KNOWN	None	31494	None	None	133304228	133304308	-1	MIRN106A	hsa-mir-106a
3	None	ENSG00000256425	ENST00000542319	pseudogene	NOVEL	None	None	None	None	135656150	135656226	1	None	None
12	None	ENSG00000257495	ENST00000551089	antisense	KNOWN	None	None	None	None	52995251	53007389	1	None	None
12	None	ENSG00000257495	ENST00000552364	antisense	KNOWN	None	None	None	None	53003635	53009089	1	None	None
12	None	ENSG00000257495	ENST00000549180	antisense	KNOWN	None	None	None	None	53005072	53007846	1	None	None
3	None	ENSG00000238377	ENST00000459442	snoRNA	NOVEL	None	None	None	None	99940365	99940436	-1	None	None
17	LINC00674	ENSG00000237854	ENST00000590734	transcribed_unprocessed_pseudogene	KNOWN	None	44355	None	None	66098049	66110668	1	None	None
17	LINC00674	ENSG00000237854	ENST00000435469	processed_transcript	KNOWN	None	44355	None	None	66099084	66111659	1	None	None
11	None	ENSG00000254980	ENST00000530283	antisense	KNOWN	None	None	None	None	111384768	111397480	-1	None	None
14	IGHVIII-13-1	ENSG00000253412	ENST00000517613	IG_V_pseudogene	KNOWN	None	5693	None	None	106598995	106599285	-1	None	IGHV(III)-13-1
1	None	ENSG00000242569	ENST00000424820	lincRNA	KNOWN	None	None	None	None	143347958	143365041	1	None	None
1	None	ENSG00000242569	ENST00000430699	lincRNA	KNOWN	None	None	None	None	143347970	143376699	1	None	None
1	None	ENSG00000242569	ENST00000416527	lincRNA	KNOWN	None	None	None	None	143347979	143351483	1	None	None
1	None	ENSG00000242569	ENST00000421330	lincRNA	KNOWN	None	None	None	None	143348830	143351483	1	None	None
1	None	ENSG00000242569	ENST00000431621	lincRNA	KNOWN	None	None	None	None	143355262	143379903	1	None	None
1	None	ENSG00000242569	ENST00000444754	lincRNA	KNOWN	None	None	None	None	143361708	143376737	1	None	None
1	None	ENSG00000242569	ENST00000446530	lincRNA	KNOWN	None	None	None	None	143361974	143372316	1	None	None
1	None	ENSG00000242569	ENST00000411775	lincRNA	KNOWN	None	None	None	None	143361977	143375173	1	None	None
1	None	ENSG00000242569	ENST00000442663	lincRNA	KNOWN	None	None	None	None	143361991	143368190	1	None	None
11	None	ENSG00000256441	ENST00000413963	processed_pseudogene	KNOWN	None	None	None	None	69552066	69552785	-1	None	None
14	IGHV1-14	ENSG00000253709	ENST00000523391	IG_V_pseudogene	KNOWN	None	5547	None	None	106602580	106602820	-1	None	None
3	ATP5LP5	ENSG00000242561	ENST00000483050	processed_pseudogene	KNOWN	None	38167	None	None	152518223	152518521	-1	None	None
11	SNORA8	ENSG00000207304	ENST00000384574	snoRNA	KNOWN	None	32596	None	None	93465527	93465665	-1	None	ACA8
8	None	ENSG00000266799	ENST00000401101	miRNA	NOVEL	None	None	None	None	103745863	103745947	-1	None	None
13	LINC00551	ENSG00000272274	ENST00000607593	lincRNA	KNOWN	None	43691	None	None	107270158	107283707	1	None	None
16	None	ENSG00000261362	ENST00000563361	processed_pseudogene	KNOWN	None	None	None	None	16635074	16635704	-1	None	None
3	VTI1BP1	ENSG00000243974	ENST00000486325	processed_pseudogene	KNOWN	None	43727	None	None	99944218	99944917	1	None	None
19	None	ENSG00000269859	ENST00000596646	antisense	KNOWN	None	None	None	None	55987350	55987849	-1	None	None
11	None	ENSG00000235286	ENST00000425960	processed_pseudogene	KNOWN	None	None	None	None	111541680	111543128	-1	None	None
12	TMEM5-AS1	ENSG00000255850	ENST00000546214	antisense	KNOWN	None	48910	None	None	64202625	64215936	-1	None	None
4	None	ENSG00000250141	ENST00000508388	lincRNA	KNOWN	None	None	None	None	142491084	142497230	-1	None	None
11	None	ENSG00000246820	ENST00000499752	lincRNA	KNOWN	None	None	None	None	8190714	8200450	1	None	None
2	None	ENSG00000221347	ENST00000408420	miRNA	NOVEL	None	None	None	None	176195101	176195200	1	None	None
15	WHAMMP2	ENSG00000248334	ENST00000563942	transcribed_unprocessed_pseudogene	KNOWN	None	32360	None	None	28982729	29000015	1	WHDC1L2, WHAMML2	None
15	WHAMMP2	ENSG00000248334	ENST00000515318	retained_intron	KNOWN	None	32360	None	None	28983168	28993572	1	WHDC1L2, WHAMML2	None
15	WHAMMP2	ENSG00000248334	ENST00000508764	processed_transcript	PUTATIVE	None	32360	None	None	28986247	28999701	1	WHDC1L2, WHAMML2	None
15	WHAMMP2	ENSG00000248334	ENST00000512149	processed_transcript	PUTATIVE	None	32360	None	None	28992917	29002537	1	WHDC1L2, WHAMML2	None
8	None	ENSG00000221137	ENST00000408210	miRNA	NOVEL	None	None	None	None	87670098	87670180	-1	None	None
5	None	ENSG00000252601	ENST00000516792	snoRNA	NOVEL	None	None	None	None	29070603	29070717	1	None	None
8	None	ENSG00000253669	ENST00000522715	lincRNA	KNOWN	None	None	None	None	103817745	103821794	1	None	None
8	None	ENSG00000253669	ENST00000517910	lincRNA	KNOWN	None	None	None	None	103819050	103822199	1	None	None
12	None	ENSG00000257738	ENST00000548155	processed_pseudogene	KNOWN	None	None	None	None	45594600	45595334	1	None	None
4	RPL5P13	ENSG00000242134	ENST00000462840	processed_pseudogene	KNOWN	None	37023	None	None	143208070	143208778	-1	None	None
11	None	ENSG00000173727	ENST00000309775	protein_coding	NOVEL	None	None	339	112	65222728	65234028	1	None	None
2	EXTL2P1	ENSG00000223976	ENST00000446218	processed_pseudogene	KNOWN	None	3517	None	None	176707615	176708030	1	EXTL2P	None
11	C11orf91	ENSG00000205177	ENST00000379011	protein_coding	KNOWN	CCDS53615	34444	582	193	33719807	33722347	-1	None	None
11	C11orf91	ENSG00000205177	ENST00000531145	protein_coding	NOVEL	None	34444	212	69	33720003	33721943	-1	None	None
11	C11orf91	ENSG00000205177	ENST00000451594	protein_coding	KNOWN	None	34444	555	184	33721108	33722286	-1	None	None
15	NPM1P43	ENSG00000259440	ENST00000558669	processed_pseudogene	KNOWN	None	45222	None	None	73454120	73455269	-1	None	None
5	None	ENSG00000248687	ENST00000512207	unprocessed_pseudogene	KNOWN	None	None	None	None	29104987	29105545	1	None	None
X	RNU6-345P	ENSG00000252810	ENST00000517001	snRNA	KNOWN	None	47308	None	None	101170562	101170668	1	None	None
3	None	ENSG00000241905	ENST00000485187	processed_pseudogene	KNOWN	None	None	None	None	135678117	135678432	-1	None	None
3	None	ENSG00000241732	ENST00000460407	lincRNA	KNOWN	None	None	None	None	152557179	152559228	1	None	None
2	None	ENSG00000235047	ENST00000453206	antisense	KNOWN	None	None	None	None	176762064	176768960	1	None	None
11	None	ENSG00000255191	ENST00000534086	lincRNA	KNOWN	None	None	None	None	69831982	69861921	1	None	None
19	SYT5	ENSG00000129990	ENST00000590851	protein_coding	NOVEL	None	11513	1149	382	55682567	55690758	-1	None	None
19	SYT5	ENSG00000129990	ENST00000354308	protein_coding	KNOWN	CCDS12919	11513	1161	386	55682591	55691809	-1	None	None
19	SYT5	ENSG00000129990	ENST00000592935	processed_transcript	KNOWN	None	11513	None	None	55683055	55684461	-1	None	None
19	SYT5	ENSG00000129990	ENST00000537500	protein_coding	KNOWN	CCDS12919	11513	1161	386	55684464	55691472	-1	None	None
19	SYT5	ENSG00000129990	ENST00000588305	retained_intron	KNOWN	None	11513	None	None	55684963	55687625	-1	None	None
19	SYT5	ENSG00000129990	ENST00000592956	retained_intron	KNOWN	None	11513	None	None	55684966	55686712	-1	None	None
19	SYT5	ENSG00000129990	ENST00000590859	protein_coding	PUTATIVE	None	11513	68	21	55685008	55685934	-1	None	None
19	SYT5	ENSG00000129990	ENST00000587067	protein_coding	NOVEL	None	11513	201	66	55685008	55686399	-1	None	None
19	SYT5	ENSG00000129990	ENST00000585461	nonsense_mediated_decay	KNOWN	None	11513	150	49	55686655	55690758	-1	None	None
19	SYT5	ENSG00000129990	ENST00000589172	protein_coding	KNOWN	None	11513	464	153	55687153	55691402	-1	None	None
19	SYT5	ENSG00000129990	ENST00000592470	protein_coding	KNOWN	None	11513	456	151	55687161	55691644	-1	None	None
5	None	ENSG00000238393	ENST00000458850	miRNA	NOVEL	None	None	None	None	135048808	135048905	-1	None	None
3	None	ENSG00000243257	ENST00000465212	unprocessed_pseudogene	KNOWN	None	None	None	None	120441305	120441493	1	None	None
13	LINC00443	ENSG00000230156	ENST00000421601	lincRNA	KNOWN	None	42780	None	None	107306264	107324511	1	None	None
15	TJP1	ENSG00000104067	ENST00000346128	protein_coding	KNOWN	CCDS42007	11827	5247	1748	29991571	30114706	-1	None	ZO-1, MGC133289, DKFZp686M05161
15	TJP1	ENSG00000104067	ENST00000400011	protein_coding	NOVEL	None	11827	5079	1692	29992356	30113751	-1	None	ZO-1, MGC133289, DKFZp686M05161
15	TJP1	ENSG00000104067	ENST00000356107	protein_coding	NOVEL	None	11827	5307	1768	29992359	30114231	-1	None	ZO-1, MGC133289, DKFZp686M05161
15	TJP1	ENSG00000104067	ENST00000400007	protein_coding	PUTATIVE	None	11827	682	226	29993449	30001026	-1	None	ZO-1, MGC133289, DKFZp686M05161
15	TJP1	ENSG00000104067	ENST00000545208	protein_coding	KNOWN	CCDS45199	11827	5007	1668	29993799	30114231	-1	None	ZO-1, MGC133289, DKFZp686M05161
15	TJP1	ENSG00000104067	ENST00000579042	protein_coding	PUTATIVE	None	11827	128	41	29995564	29996418	-1	None	ZO-1, MGC133289, DKFZp686M05161
15	TJP1	ENSG00000104067	ENST00000561307	retained_intron	KNOWN	None	11827	None	None	30011097	30012332	-1	None	ZO-1, MGC133289, DKFZp686M05161
15	TJP1	ENSG00000104067	ENST00000462916	retained_intron	KNOWN	None	11827	None	None	30024338	30025137	-1	None	ZO-1, MGC133289, DKFZp686M05161
15	TJP1	ENSG00000104067	ENST00000485381	retained_intron	KNOWN	None	11827	None	None	30033226	30035233	-1	None	ZO-1, MGC133289, DKFZp686M05161
15	TJP1	ENSG00000104067	ENST00000495972	protein_coding	PUTATIVE	None	11827	1152	383	30051106	30114705	-1	None	ZO-1, MGC133289, DKFZp686M05161
15	TJP1	ENSG00000104067	ENST00000558447	protein_coding	PUTATIVE	None	11827	694	230	30058643	30261068	-1	None	ZO-1, MGC133289, DKFZp686M05161
15	TJP1	ENSG00000104067	ENST00000473741	retained_intron	KNOWN	None	11827	None	None	30092699	30248497	-1	None	ZO-1, MGC133289, DKFZp686M05161
X	None	ENSG00000235976	ENST00000445127	processed_pseudogene	KNOWN	None	None	None	None	101244454	101244845	-1	None	None
11	None	ENSG00000252778	ENST00000516969	snoRNA	NOVEL	None	None	None	None	8576563	8576693	1	None	None
11	SNORD5	ENSG00000239195	ENST00000459342	snoRNA	KNOWN	None	32702	None	None	93466394	93466466	-1	None	mgh28S-2410
16	RN7SL90P	ENSG00000264752	ENST00000581840	misc_RNA	KNOWN	None	46106	None	None	16731112	16731387	-1	None	None
2	None	ENSG00000229779	ENST00000458254	lincRNA	KNOWN	None	None	None	None	176769099	176770230	-1	None	None
12	None	ENSG00000256875	ENST00000537742	lincRNA	KNOWN	None	None	None	None	133038828	133039442	1	None	None
3	None	ENSG00000252989	ENST00000517180	snoRNA	NOVEL	None	None	None	None	100364965	100365041	1	None	None
13	FREM2-AS1	ENSG00000225350	ENST00000448887	antisense	KNOWN	None	39964	None	None	39395935	39401707	-1	None	None
11	None	ENSG00000254900	ENST00000534169	antisense	KNOWN	None	None	None	None	8700636	8702460	1	None	None
14	FOXN3-AS1	ENSG00000258920	ENST00000555562	antisense	KNOWN	None	44290	None	None	89883698	89886137	1	None	None
5	None	ENSG00000223539	ENST00000512971	unprocessed_pseudogene	KNOWN	None	None	None	None	135078151	135082045	-1	None	None
17	None	ENSG00000267681	ENST00000464237	transcribed_processed_pseudogene	KNOWN	None	None	None	None	41296973	41297272	1	None	None
3	NAP1L1P3	ENSG00000213371	ENST00000462291	processed_pseudogene	KNOWN	None	38007	None	None	120524713	120525592	1	None	None
3	None	ENSG00000227267	ENST00000477611	processed_pseudogene	KNOWN	None	None	None	None	135774026	135774606	1	None	None
11	CYB5R2	ENSG00000166394	ENST00000524790	protein_coding	KNOWN	None	24376	714	237	7686331	7694703	-1	None	None
11	CYB5R2	ENSG00000166394	ENST00000299498	protein_coding	KNOWN	CCDS7780	24376	831	276	7686331	7694732	-1	None	None
11	CYB5R2	ENSG00000166394	ENST00000528585	processed_transcript	KNOWN	None	24376	None	None	7686335	7690548	-1	None	None
11	CYB5R2	ENSG00000166394	ENST00000533558	protein_coding	KNOWN	CCDS7780	24376	831	276	7686335	7695439	-1	None	None
11	CYB5R2	ENSG00000166394	ENST00000526084	retained_intron	KNOWN	None	24376	None	None	7686336	7694686	-1	None	None
11	CYB5R2	ENSG00000166394	ENST00000534698	processed_transcript	KNOWN	None	24376	None	None	7686365	7688991	-1	None	None
11	CYB5R2	ENSG00000166394	ENST00000532621	retained_intron	KNOWN	None	24376	None	None	7686513	7687915	-1	None	None
11	CYB5R2	ENSG00000166394	ENST00000534443	retained_intron	KNOWN	None	24376	None	None	7688774	7694121	-1	None	None
11	CYB5R2	ENSG00000166394	ENST00000531096	protein_coding	KNOWN	None	24376	514	170	7689003	7695474	-1	None	None
11	CYB5R2	ENSG00000166394	ENST00000527542	protein_coding	KNOWN	None	24376	438	145	7689743	7695449	-1	None	None
11	CYB5R2	ENSG00000166394	ENST00000532920	retained_intron	KNOWN	None	24376	None	None	7690250	7694037	-1	None	None
11	CYB5R2	ENSG00000166394	ENST00000524608	protein_coding	PUTATIVE	None	24376	568	188	7690436	7698453	-1	None	None
11	CYB5R2	ENSG00000166394	ENST00000436351	protein_coding	KNOWN	None	24376	349	115	7690475	7695001	-1	None	None
11	CYB5R2	ENSG00000166394	ENST00000525307	retained_intron	KNOWN	None	24376	None	None	7693859	7695442	-1	None	None
11	CYB5R2	ENSG00000166394	ENST00000299497	protein_coding	KNOWN	None	24376	714	237	7687115	7694729	-1	None	None
15	RAD51	ENSG00000051180	ENST00000527860	protein_coding	KNOWN	None	9817	517	171	40986972	41011084	1	RAD51A, RECA	HsRad51, HsT16930, BRCC5
15	RAD51	ENSG00000051180	ENST00000423169	protein_coding	KNOWN	CCDS53932	9817	843	280	40987327	41023790	1	RAD51A, RECA	HsRad51, HsT16930, BRCC5
15	RAD51	ENSG00000051180	ENST00000267868	protein_coding	KNOWN	CCDS10062	9817	1020	339	40987358	41024354	1	RAD51A, RECA	HsRad51, HsT16930, BRCC5
15	RAD51	ENSG00000051180	ENST00000557850	protein_coding	PUTATIVE	None	9817	729	242	40987370	41023788	1	RAD51A, RECA	HsRad51, HsT16930, BRCC5
15	RAD51	ENSG00000051180	ENST00000532743	protein_coding	KNOWN	CCDS53931	9817	1023	340	40987372	41023614	1	RAD51A, RECA	HsRad51, HsT16930, BRCC5
15	RAD51	ENSG00000051180	ENST00000382643	protein_coding	KNOWN	CCDS53931	9817	1023	340	40987372	41023791	1	RAD51A, RECA	HsRad51, HsT16930, BRCC5
15	RAD51	ENSG00000051180	ENST00000525066	nonsense_mediated_decay	KNOWN	None	9817	456	151	40987385	41023755	1	RAD51A, RECA	HsRad51, HsT16930, BRCC5
15	RAD51	ENSG00000051180	ENST00000526763	protein_coding	KNOWN	None	9817	225	74	40987661	40993399	1	RAD51A, RECA	HsRad51, HsT16930, BRCC5
15	RAD51	ENSG00000051180	ENST00000531277	nonsense_mediated_decay	KNOWN	None	9817	303	100	40990955	41021832	1	RAD51A, RECA	HsRad51, HsT16930, BRCC5
15	RAD51	ENSG00000051180	ENST00000533741	nonsense_mediated_decay	KNOWN	None	9817	197	64	40993329	41011025	1	RAD51A, RECA	HsRad51, HsT16930, BRCC5
15	RAD51	ENSG00000051180	ENST00000530766	processed_transcript	KNOWN	None	9817	None	None	41021704	41023557	1	RAD51A, RECA	HsRad51, HsT16930, BRCC5
3	GMFBP1	ENSG00000243495	ENST00000467831	processed_pseudogene	KNOWN	None	38654	None	None	100383894	100384320	-1	None	None
12	None	ENSG00000241045	ENST00000478876	processed_pseudogene	KNOWN	None	None	None	None	77115314	77116066	1	None	None
13	ATP5G1P5	ENSG00000227590	ENST00000429024	processed_pseudogene	KNOWN	None	39508	None	None	107315785	107316195	1	None	None
13	ATP5G1P5	ENSG00000227590	ENST00000452440	processed_pseudogene	KNOWN	None	39508	None	None	107315785	107316162	1	None	None
11	SNORA3	ENSG00000200983	ENST00000364113	snoRNA	KNOWN	None	32586	None	None	8705774	8705903	1	None	ACA3
2	None	ENSG00000216193	ENST00000401374	miRNA	NOVEL	None	None	None	None	176973371	176973458	1	None	None
5	None	ENSG00000270430	ENST00000605642	processed_pseudogene	KNOWN	None	None	None	None	29105675	29106968	-1	None	None
13	PLA2G12AP2	ENSG00000225221	ENST00000424744	processed_pseudogene	KNOWN	None	39249	None	None	39476524	39476787	1	None	None
17	LRRC37A16P	ENSG00000267023	ENST00000586022	transcribed_unprocessed_pseudogene	KNOWN	None	43820	None	None	66121918	66148609	-1	None	None
17	LRRC37A16P	ENSG00000267023	ENST00000585915	processed_transcript	KNOWN	None	43820	None	None	66124481	66143664	-1	None	None
17	LRRC37A16P	ENSG00000267023	ENST00000590019	processed_transcript	KNOWN	None	43820	None	None	66126391	66141736	-1	None	None
17	None	ENSG00000267002	ENST00000590740	lincRNA	KNOWN	None	None	None	None	41316200	41322420	-1	None	None
6	GPSM3	ENSG00000213654	ENST00000487761	protein_coding	PUTATIVE	None	13945	474	157	32158543	32160645	-1	C6orf9	NG1, G18, G18.1a, G18.1b, G18.2, AGS4
6	GPSM3	ENSG00000213654	ENST00000472768	nonsense_mediated_decay	KNOWN	None	13945	150	49	32158543	32160662	-1	C6orf9	NG1, G18, G18.1a, G18.1b, G18.2, AGS4
6	GPSM3	ENSG00000213654	ENST00000375040	protein_coding	KNOWN	CCDS34419	13945	483	160	32158543	32160683	-1	C6orf9	NG1, G18, G18.1a, G18.1b, G18.2, AGS4
6	GPSM3	ENSG00000213654	ENST00000375043	protein_coding	KNOWN	CCDS34419	13945	483	160	32158543	32163300	-1	C6orf9	NG1, G18, G18.1a, G18.1b, G18.2, AGS4
7	None	ENSG00000271204	ENST00000605249	lincRNA	KNOWN	None	None	None	None	130614968	130616965	-1	None	None
17	PTGES3L-AARSD1	ENSG00000108825	ENST00000360221	protein_coding	KNOWN	CCDS11447	43946	1578	525	41102543	41132020	-1	None	None
17	PTGES3L-AARSD1	ENSG00000108825	ENST00000409399	protein_coding	KNOWN	CCDS45691	43946	1761	586	41102547	41132507	-1	None	None
17	PTGES3L-AARSD1	ENSG00000108825	ENST00000409103	protein_coding	NOVEL	None	43946	1488	495	41102563	41132010	-1	None	None
17	PTGES3L-AARSD1	ENSG00000108825	ENST00000421990	protein_coding	KNOWN	CCDS45691	43946	1761	586	41102567	41132545	-1	None	None
17	PTGES3L-AARSD1	ENSG00000108825	ENST00000423601	nonsense_mediated_decay	KNOWN	None	43946	160	52	41106968	41132155	-1	None	None
17	PTGES3L-AARSD1	ENSG00000108825	ENST00000452752	protein_coding	PUTATIVE	None	43946	566	187	41113281	41131680	-1	None	None
17	PTGES3L-AARSD1	ENSG00000108825	ENST00000454303	protein_coding	KNOWN	None	43946	397	131	41116236	41132103	-1	None	None
3	None	ENSG00000243593	ENST00000490647	lincRNA	KNOWN	None	None	None	None	120552287	120555207	-1	None	None
11	RN7SKP273	ENSG00000223324	ENST00000411392	misc_RNA	KNOWN	None	45997	None	None	111553835	111554148	1	None	None
18	None	ENSG00000238982	ENST00000459168	snoRNA	NOVEL	None	None	None	None	29674467	29674569	1	None	None
2	HOXD-AS2	ENSG00000237380	ENST00000440016	antisense	KNOWN	None	43756	None	None	176986339	177001741	-1	None	None
2	HOXD-AS2	ENSG00000237380	ENST00000426965	antisense	KNOWN	None	43756	None	None	176999334	177001826	-1	None	None
12	None	ENSG00000257368	ENST00000546680	processed_pseudogene	KNOWN	None	None	None	None	45838549	45839221	1	None	None
11	SNORA45	ENSG00000212607	ENST00000391305	snoRNA	KNOWN	None	32638	None	None	8706986	8707116	1	None	ACA3-2
17	None	ENSG00000267595	ENST00000589464	unprocessed_pseudogene	KNOWN	None	None	None	None	41320187	41320266	-1	None	None
12	PABPC1P4	ENSG00000255642	ENST00000539977	processed_pseudogene	KNOWN	None	8563	None	None	64215801	64217675	1	PABPL2, PABPCP5	None
8	None	ENSG00000233915	ENST00000514854	processed_pseudogene	KNOWN	None	None	None	None	87672753	87674150	-1	None	None
13	ANKRD26P2	ENSG00000235550	ENST00000445530	unprocessed_pseudogene	KNOWN	None	39687	None	None	39496864	39510336	-1	None	None
18	None	ENSG00000263393	ENST00000583138	antisense	KNOWN	None	None	None	None	29702363	29704441	-1	None	None
3	LAMP3	ENSG00000078081	ENST00000265598	protein_coding	KNOWN	CCDS3242	14582	1251	416	182840001	182880699	-1	None	LAMP, TSC403, DC-LAMP, DCLAMP, CD208
3	LAMP3	ENSG00000078081	ENST00000466939	protein_coding	PUTATIVE	None	14582	1179	392	182841713	182879803	-1	None	LAMP, TSC403, DC-LAMP, DCLAMP, CD208
3	LAMP3	ENSG00000078081	ENST00000476015	protein_coding	KNOWN	None	14582	540	179	182871689	182881627	-1	None	LAMP, TSC403, DC-LAMP, DCLAMP, CD208
3	LAMP3	ENSG00000078081	ENST00000470251	protein_coding	PUTATIVE	None	14582	429	142	182871728	182880670	-1	None	LAMP, TSC403, DC-LAMP, DCLAMP, CD208
3	LAMP3	ENSG00000078081	ENST00000486686	processed_transcript	KNOWN	None	14582	None	None	182875901	182881626	-1	None	LAMP, TSC403, DC-LAMP, DCLAMP, CD208
3	None	ENSG00000266293	ENST00000584638	miRNA	NOVEL	None	None	None	None	8048164	8048248	-1	None	None
HSCHR1_2_CTG31	None	ENSG00000263231	ENST00000575568	unprocessed_pseudogene	KNOWN	None	None	None	None	155199568	155204076	-1	None	None
8	None	ENSG00000265835	ENST00000578249	miRNA	NOVEL	None	None	None	None	53907922	53907993	-1	None	None
11	None	ENSG00000254990	ENST00000529841	lincRNA	KNOWN	None	None	None	None	111639392	111649030	-1	None	None
11	None	ENSG00000254990	ENST00000534218	lincRNA	KNOWN	None	None	None	None	111639581	111649074	-1	None	None
12	KRT128P	ENSG00000258120	ENST00000550729	unprocessed_pseudogene	KNOWN	None	48882	None	None	53026650	53028240	-1	None	None
18	RNA5SP453	ENSG00000199373	ENST00000362503	rRNA	KNOWN	None	43353	None	None	29756013	29756131	-1	RN5S453	None
8	None	ENSG00000251871	ENST00000516062	miRNA	NOVEL	None	None	None	None	53950189	53950309	-1	None	None
14	DUXAP10	ENSG00000257227	ENST00000550588	transcribed_processed_pseudogene	KNOWN	None	32189	None	None	19691780	19692374	1	None	None
11	SNORA18	ENSG00000207145	ENST00000384416	snoRNA	KNOWN	None	32608	None	None	93466632	93466763	-1	None	ACA18
17	SRP68P1	ENSG00000266129	ENST00000584247	processed_pseudogene	KNOWN	None	30427	None	None	16690549	16691455	-1	SRPSMCR	None
11	None	ENSG00000254605	ENST00000528507	lincRNA	KNOWN	None	None	None	None	69860964	69867165	-1	None	None
11	None	ENSG00000254605	ENST00000533170	lincRNA	KNOWN	None	None	None	None	69860973	69862556	-1	None	None
17	None	ENSG00000267340	ENST00000589047	processed_pseudogene	KNOWN	None	None	None	None	41321897	41322094	-1	None	None
18	None	ENSG00000265279	ENST00000580789	processed_pseudogene	KNOWN	None	None	None	None	29775989	29776929	-1	None	None
15	RNA5SP394	ENSG00000201086	ENST00000364216	rRNA	KNOWN	None	43294	None	None	50274640	50274758	1	RN5S394	None
11	MIR1304	ENSG00000221170	ENST00000408243	miRNA	KNOWN	None	35302	None	None	93466840	93466930	-1	MIRN1304	hsa-mir-1304
8	None	ENSG00000250494	ENST00000510455	processed_pseudogene	KNOWN	None	None	None	None	54074899	54075547	1	None	None
17	None	ENSG00000264673	ENST00000578710	antisense	KNOWN	None	None	None	None	16691562	16692548	-1	None	None
10	None	ENSG00000234864	ENST00000439913	lincRNA	KNOWN	None	None	None	None	43191483	43201901	1	None	None
12	None	ENSG00000265796	ENST00000577842	miRNA	NOVEL	None	None	None	None	64224534	64224603	-1	None	None
14	IGHVII-15-1	ENSG00000253458	ENST00000517931	IG_V_pseudogene	KNOWN	None	5671	None	None	106620270	106620489	-1	None	IGHV(II)-15-1
3	None	ENSG00000270782	ENST00000605023	processed_pseudogene	KNOWN	None	None	None	None	120643459	120644005	-1	None	None
3	None	ENSG00000213431	ENST00000496877	processed_pseudogene	KNOWN	None	None	None	None	100629819	100631019	-1	None	None
7	None	ENSG00000231721	ENST00000423414	lincRNA	KNOWN	None	None	None	None	130626519	130792822	-1	None	None
7	None	ENSG00000231721	ENST00000433079	lincRNA	KNOWN	None	None	None	None	130628921	130791789	-1	None	None
7	None	ENSG00000231721	ENST00000451786	lincRNA	KNOWN	None	None	None	None	130628926	130794935	-1	None	None
7	None	ENSG00000231721	ENST00000443623	processed_transcript	KNOWN	None	None	None	None	130628927	130668868	-1	None	None
7	None	ENSG00000231721	ENST00000435523	lincRNA	KNOWN	None	None	None	None	130629555	130773233	-1	None	None
7	None	ENSG00000231721	ENST00000431189	lincRNA	KNOWN	None	None	None	None	130630369	130792738	-1	None	None
7	None	ENSG00000231721	ENST00000416999	lincRNA	KNOWN	None	None	None	None	130727595	130737309	-1	None	None
7	None	ENSG00000231721	ENST00000429901	lincRNA	KNOWN	None	None	None	None	130737203	130792858	-1	None	None
17	FAM106CP	ENSG00000266486	ENST00000582212	processed_pseudogene	KNOWN	None	38396	None	None	16692215	16692721	1	FAM106C	None
3	MIR5682	ENSG00000264477	ENST00000584864	miRNA	KNOWN	None	43477	None	None	120768487	120768562	1	None	hsa-mir-5682
18	None	ENSG00000263904	ENST00000581134	sense_intronic	KNOWN	None	None	None	None	29825909	29828995	-1	None	None
HG1063_PATCH	None	ENSG00000262789	ENST00000575503	antisense	KNOWN	None	None	None	None	102581752	102589223	-1	None	None
15	None	ENSG00000200605	ENST00000363735	misc_RNA	NOVEL	None	None	None	None	50514085	50514193	1	None	None
14	IGHVIII-16-1	ENSG00000254210	ENST00000518774	IG_V_pseudogene	KNOWN	None	5694	None	None	106627589	106627721	-1	None	IGHV(III)-16-1
X	None	ENSG00000226119	ENST00000436830	processed_pseudogene	KNOWN	None	None	None	None	101261856	101262267	1	None	None
12	LRCOL1	ENSG00000204583	ENST00000544018	lincRNA	KNOWN	None	44160	None	None	133179736	133186983	-1	None	None
12	LRCOL1	ENSG00000204583	ENST00000545517	lincRNA	KNOWN	None	44160	None	None	133180601	133182850	-1	None	None
12	LRCOL1	ENSG00000204583	ENST00000536100	lincRNA	KNOWN	None	44160	None	None	133182400	133187037	-1	None	None
12	LRCOL1	ENSG00000204583	ENST00000376608	lincRNA	KNOWN	None	44160	None	None	133179738	133181405	-1	None	None
X	None	ENSG00000238178	ENST00000422438	antisense	KNOWN	None	None	None	None	16171064	16175952	-1	None	None
X	None	ENSG00000238178	ENST00000454712	antisense	KNOWN	None	None	None	None	16171343	16177795	-1	None	None
X	None	ENSG00000238178	ENST00000435789	antisense	KNOWN	None	None	None	None	16171343	16188992	-1	None	None
12	None	ENSG00000257700	ENST00000547533	antisense	KNOWN	None	None	None	None	53086389	53090572	1	None	None
17	None	ENSG00000264729	ENST00000582895	lincRNA	KNOWN	None	None	None	None	16707941	16709021	1	None	None
18	None	ENSG00000222395	ENST00000410463	misc_RNA	NOVEL	None	None	None	None	29843098	29843201	-1	None	None
13	PPIAP24	ENSG00000174408	ENST00000328558	processed_pseudogene	KNOWN	None	39269	None	None	107516164	107516634	-1	None	None
X	LARP1BP3	ENSG00000232664	ENST00000437229	processed_pseudogene	KNOWN	None	44085	None	None	133338383	133339946	1	None	None
15	COMMD4	ENSG00000140365	ENST00000267935	protein_coding	KNOWN	CCDS10277	26027	600	199	75628232	75632614	1	None	FLJ20452
15	COMMD4	ENSG00000140365	ENST00000567195	protein_coding	NOVEL	None	26027	342	113	75628361	75632611	1	None	FLJ20452
15	COMMD4	ENSG00000140365	ENST00000566843	retained_intron	KNOWN	None	26027	None	None	75628362	75632614	1	None	FLJ20452
15	COMMD4	ENSG00000140365	ENST00000564815	protein_coding	NOVEL	None	26027	534	177	75628394	75632414	1	None	FLJ20452
15	COMMD4	ENSG00000140365	ENST00000562610	nonsense_mediated_decay	KNOWN	None	26027	333	110	75628395	75632612	1	None	FLJ20452
15	COMMD4	ENSG00000140365	ENST00000338995	protein_coding	KNOWN	None	26027	423	140	75628400	75632614	1	None	FLJ20452
15	COMMD4	ENSG00000140365	ENST00000567023	retained_intron	KNOWN	None	26027	None	None	75628401	75631741	1	None	FLJ20452
15	COMMD4	ENSG00000140365	ENST00000567720	nonsense_mediated_decay	KNOWN	None	26027	159	52	75628402	75632105	1	None	FLJ20452
15	COMMD4	ENSG00000140365	ENST00000566230	retained_intron	KNOWN	None	26027	None	None	75628404	75631087	1	None	FLJ20452
15	COMMD4	ENSG00000140365	ENST00000564587	retained_intron	KNOWN	None	26027	None	None	75628404	75631181	1	None	FLJ20452
15	COMMD4	ENSG00000140365	ENST00000565517	retained_intron	KNOWN	None	26027	None	None	75628404	75631648	1	None	FLJ20452
15	COMMD4	ENSG00000140365	ENST00000564068	retained_intron	KNOWN	None	26027	None	None	75628404	75632607	1	None	FLJ20452
15	COMMD4	ENSG00000140365	ENST00000480484	nonsense_mediated_decay	KNOWN	CCDS10277	26027	600	199	75628417	75634268	1	None	FLJ20452
15	COMMD4	ENSG00000140365	ENST00000567399	retained_intron	KNOWN	None	26027	None	None	75628425	75631893	1	None	FLJ20452
15	COMMD4	ENSG00000140365	ENST00000561662	processed_transcript	KNOWN	None	26027	None	None	75628427	75630715	1	None	FLJ20452
15	COMMD4	ENSG00000140365	ENST00000568034	retained_intron	KNOWN	None	26027	None	None	75628427	75631351	1	None	FLJ20452
15	COMMD4	ENSG00000140365	ENST00000567377	protein_coding	PUTATIVE	None	26027	410	135	75628428	75632118	1	None	FLJ20452
15	COMMD4	ENSG00000140365	ENST00000562789	protein_coding	PUTATIVE	None	26027	441	146	75628440	75632612	1	None	FLJ20452
15	COMMD4	ENSG00000140365	ENST00000568301	protein_coding	PUTATIVE	None	26027	633	210	75628446	75632212	1	None	FLJ20452
15	COMMD4	ENSG00000140365	ENST00000568877	retained_intron	KNOWN	None	26027	None	None	75630402	75631916	1	None	FLJ20452
15	COMMD4	ENSG00000140365	ENST00000565834	retained_intron	KNOWN	None	26027	None	None	75630402	75632457	1	None	FLJ20452
15	COMMD4	ENSG00000140365	ENST00000563220	retained_intron	KNOWN	None	26027	None	None	75630403	75632610	1	None	FLJ20452
15	COMMD4	ENSG00000140365	ENST00000569245	retained_intron	KNOWN	None	26027	None	None	75630605	75632597	1	None	FLJ20452
15	COMMD4	ENSG00000140365	ENST00000562310	retained_intron	KNOWN	None	26027	None	None	75630822	75632204	1	None	FLJ20452
15	COMMD4	ENSG00000140365	ENST00000567935	retained_intron	KNOWN	None	26027	None	None	75630895	75633539	1	None	FLJ20452
12	None	ENSG00000257657	ENST00000551229	lincRNA	KNOWN	None	None	None	None	45875654	46004373	-1	None	None
12	None	ENSG00000257657	ENST00000549223	retained_intron	KNOWN	None	None	None	None	45993925	46004403	-1	None	None
20	C20orf27	ENSG00000101220	ENST00000399683	protein_coding	KNOWN	None	15873	383	126	3734155	3739325	-1	None	FLJ20550
20	C20orf27	ENSG00000101220	ENST00000217195	protein_coding	KNOWN	CCDS33436	15873	600	199	3734155	3748375	-1	None	FLJ20550
20	C20orf27	ENSG00000101220	ENST00000399672	protein_coding	KNOWN	CCDS58763	15873	525	174	3734155	3748428	-1	None	FLJ20550
20	C20orf27	ENSG00000101220	ENST00000379772	protein_coding	KNOWN	CCDS58763	15873	525	174	3734155	3749034	-1	None	FLJ20550
17	LINC00854	ENSG00000236383	ENST00000427995	antisense	KNOWN	None	43658	None	None	41368960	41376546	-1	TMEM106A-AS1	None
17	LINC00854	ENSG00000236383	ENST00000593624	antisense	KNOWN	None	43658	None	None	41371075	41376487	-1	TMEM106A-AS1	None
17	LINC00854	ENSG00000236383	ENST00000595400	antisense	KNOWN	None	43658	None	None	41371183	41376484	-1	TMEM106A-AS1	None
17	LINC00854	ENSG00000236383	ENST00000433702	antisense	KNOWN	None	43658	None	None	41373437	41383338	-1	TMEM106A-AS1	None
17	LINC00854	ENSG00000236383	ENST00000598568	antisense	KNOWN	None	43658	None	None	41373443	41376487	-1	TMEM106A-AS1	None
17	LINC00854	ENSG00000236383	ENST00000594691	antisense	KNOWN	None	43658	None	None	41373448	41376487	-1	TMEM106A-AS1	None
17	LINC00854	ENSG00000236383	ENST00000597948	antisense	KNOWN	None	43658	None	None	41373449	41376487	-1	TMEM106A-AS1	None
17	LINC00854	ENSG00000236383	ENST00000598128	antisense	KNOWN	None	43658	None	None	41373449	41376487	-1	TMEM106A-AS1	None
17	LINC00854	ENSG00000236383	ENST00000599491	antisense	KNOWN	None	43658	None	None	41373449	41376487	-1	TMEM106A-AS1	None
17	LINC00854	ENSG00000236383	ENST00000598934	antisense	KNOWN	None	43658	None	None	41373450	41376487	-1	TMEM106A-AS1	None
17	LINC00854	ENSG00000236383	ENST00000594857	retained_intron	KNOWN	None	43658	None	None	41373551	41376486	-1	TMEM106A-AS1	None
17	LINC00854	ENSG00000236383	ENST00000600764	antisense	KNOWN	None	43658	None	None	41376376	41380674	-1	TMEM106A-AS1	None
12	None	ENSG00000258090	ENST00000548926	processed_pseudogene	KNOWN	None	None	None	None	77150971	77151694	1	None	None
18	None	ENSG00000264982	ENST00000579580	antisense	KNOWN	None	None	None	None	29867400	29870303	1	None	None
X	MTND6P13	ENSG00000234901	ENST00000443510	processed_pseudogene	KNOWN	None	39476	None	None	101263497	101264019	-1	None	None
12	SARNP	ENSG00000205323	ENST00000546604	nonsense_mediated_decay	KNOWN	CCDS8892	24432	633	210	56146247	56211508	-1	None	THO1, Hcc-1, CIP29
12	SARNP	ENSG00000205323	ENST00000552884	nonsense_mediated_decay	KNOWN	None	24432	159	52	56146364	56211506	-1	None	THO1, Hcc-1, CIP29
12	SARNP	ENSG00000205323	ENST00000552946	retained_intron	KNOWN	None	24432	None	None	56151055	56154569	-1	None	THO1, Hcc-1, CIP29
12	SARNP	ENSG00000205323	ENST00000336133	protein_coding	KNOWN	CCDS8892	24432	633	210	56151058	56211540	-1	None	THO1, Hcc-1, CIP29
12	SARNP	ENSG00000205323	ENST00000552080	protein_coding	PUTATIVE	None	24432	642	213	56154208	56211493	-1	None	THO1, Hcc-1, CIP29
12	SARNP	ENSG00000205323	ENST00000552207	retained_intron	KNOWN	None	24432	None	None	56186326	56211504	-1	None	THO1, Hcc-1, CIP29
12	SARNP	ENSG00000205323	ENST00000444631	protein_coding	KNOWN	None	24432	453	150	56146366	56211506	-1	None	THO1, Hcc-1, CIP29
17	None	ENSG00000264892	ENST00000582696	processed_pseudogene	KNOWN	None	None	None	None	16715761	16715965	1	None	None
8	None	ENSG00000254115	ENST00000519041	antisense	KNOWN	None	None	None	None	87719775	87777251	1	None	None
5	EBF1	ENSG00000164330	ENST00000519890	retained_intron	KNOWN	None	3126	None	None	158122928	158500802	-1	EBF	OLF1
5	EBF1	ENSG00000164330	ENST00000519739	retained_intron	KNOWN	None	3126	None	None	158122928	158523378	-1	EBF	OLF1
5	EBF1	ENSG00000164330	ENST00000518836	processed_transcript	KNOWN	None	3126	None	None	158122928	158526765	-1	EBF	OLF1
5	EBF1	ENSG00000164330	ENST00000313708	protein_coding	KNOWN	CCDS4343	3126	1776	591	158122928	158526769	-1	EBF	OLF1
5	EBF1	ENSG00000164330	ENST00000518323	processed_transcript	KNOWN	None	3126	None	None	158125649	158135017	-1	EBF	OLF1
5	EBF1	ENSG00000164330	ENST00000380654	protein_coding	KNOWN	None	3126	1683	560	158125672	158526701	-1	EBF	OLF1
5	EBF1	ENSG00000164330	ENST00000517373	protein_coding	NOVEL	None	3126	1572	523	158125697	158526769	-1	EBF	OLF1
5	EBF1	ENSG00000164330	ENST00000522192	retained_intron	KNOWN	None	3126	None	None	158125893	158523614	-1	EBF	OLF1
5	EBF1	ENSG00000164330	ENST00000523464	processed_transcript	KNOWN	None	3126	None	None	158158052	158446137	-1	EBF	OLF1
5	EBF1	ENSG00000164330	ENST00000523315	processed_transcript	KNOWN	None	3126	None	None	158511674	158524631	-1	EBF	OLF1
9	MIR31HG	ENSG00000171889	ENST00000304425	sense_overlapping	KNOWN	None	37187	None	None	21455641	21559668	-1	None	None
14	FOXN3-AS2	ENSG00000259073	ENST00000554071	antisense	KNOWN	None	30119	None	None	90042560	90043821	1	None	PRO1768
1	C1orf159	ENSG00000131591	ENST00000379339	protein_coding	KNOWN	None	26062	1143	380	1017198	1051461	-1	None	FLJ20584
1	C1orf159	ENSG00000131591	ENST00000465822	retained_intron	KNOWN	None	26062	None	None	1017203	1027457	-1	None	FLJ20584
1	C1orf159	ENSG00000131591	ENST00000379325	nonsense_mediated_decay	KNOWN	None	26062	570	189	1017203	1051475	-1	None	FLJ20584
1	C1orf159	ENSG00000131591	ENST00000421241	protein_coding	KNOWN	CCDS7	26062	597	198	1017203	1051478	-1	None	FLJ20584
1	C1orf159	ENSG00000131591	ENST00000487177	retained_intron	KNOWN	None	26062	None	None	1017205	1023016	-1	None	FLJ20584
1	C1orf159	ENSG00000131591	ENST00000477196	nonsense_mediated_decay	KNOWN	None	26062	297	98	1017205	1051469	-1	None	FLJ20584
1	C1orf159	ENSG00000131591	ENST00000467751	nonsense_mediated_decay	KNOWN	None	26062	336	111	1017205	1051469	-1	None	FLJ20584
1	C1orf159	ENSG00000131591	ENST00000464905	processed_transcript	KNOWN	None	26062	None	None	1017526	1019452	-1	None	FLJ20584
1	C1orf159	ENSG00000131591	ENST00000379320	protein_coding	NOVEL	None	26062	1035	344	1017615	1027554	-1	None	FLJ20584
1	C1orf159	ENSG00000131591	ENST00000379319	protein_coding	KNOWN	CCDS7	26062	597	198	1018080	1041507	-1	None	FLJ20584
1	C1orf159	ENSG00000131591	ENST00000434641	protein_coding	PUTATIVE	None	26062	671	222	1018296	1051475	-1	None	FLJ20584
1	C1orf159	ENSG00000131591	ENST00000482816	processed_transcript	KNOWN	None	26062	None	None	1019306	1051623	-1	None	FLJ20584
1	C1orf159	ENSG00000131591	ENST00000462097	protein_coding	KNOWN	None	26062	310	102	1022519	1051736	-1	None	FLJ20584
1	C1orf159	ENSG00000131591	ENST00000473600	retained_intron	KNOWN	None	26062	None	None	1022521	1027674	-1	None	FLJ20584
1	C1orf159	ENSG00000131591	ENST00000475119	protein_coding	KNOWN	None	26062	259	85	1022570	1051741	-1	None	FLJ20584
1	C1orf159	ENSG00000131591	ENST00000442117	protein_coding	KNOWN	None	26062	171	56	1022955	1028193	-1	None	FLJ20584
1	C1orf159	ENSG00000131591	ENST00000427787	protein_coding	PUTATIVE	None	26062	192	63	1025786	1028193	-1	None	FLJ20584
1	C1orf159	ENSG00000131591	ENST00000472741	retained_intron	KNOWN	None	26062	None	None	1026426	1051467	-1	None	FLJ20584
1	C1orf159	ENSG00000131591	ENST00000480643	protein_coding	KNOWN	None	26062	44	13	1026880	1051469	-1	None	FLJ20584
1	C1orf159	ENSG00000131591	ENST00000448924	protein_coding	KNOWN	None	26062	1143	380	1017198	1051736	-1	None	FLJ20584
1	C1orf159	ENSG00000131591	ENST00000294576	protein_coding	KNOWN	None	26062	1035	344	1017198	1051736	-1	None	FLJ20584
1	C1orf159	ENSG00000131591	ENST00000437760	protein_coding	KNOWN	None	26062	558	185	1019834	1051736	-1	None	FLJ20584
18	HNRNPA1P7	ENSG00000215492	ENST00000521273	processed_pseudogene	KNOWN	None	31015	None	None	29992177	29993139	-1	HNRPA1L3	None
18	HNRNPA1P7	ENSG00000215492	ENST00000400448	processed_pseudogene	KNOWN	None	31015	None	None	29991471	29993167	-1	HNRPA1L3	None
X	None	ENSG00000272244	ENST00000605926	misc_RNA	NOVEL	None	None	None	None	133348416	133348694	-1	None	None
3	None	ENSG00000243813	ENST00000469870	processed_pseudogene	KNOWN	None	None	None	None	120817955	120818621	1	None	None
3	HMGN2P13	ENSG00000241810	ENST00000476476	processed_pseudogene	KNOWN	None	33557	None	None	152785067	152785340	1	None	None
15	None	ENSG00000259528	ENST00000560337	antisense	KNOWN	None	None	None	None	73547675	73548450	-1	None	None
12	CACNA1C-IT3	ENSG00000256721	ENST00000542680	sense_intronic	KNOWN	None	41314	None	None	2378942	2398103	1	None	None
8	None	ENSG00000253648	ENST00000517369	lincRNA	KNOWN	None	None	None	None	15830824	15857833	1	None	None
3	None	ENSG00000241671	ENST00000477323	processed_pseudogene	KNOWN	None	None	None	None	152846863	152847429	-1	None	None
2	MIR10B	ENSG00000207744	ENST00000385011	miRNA	KNOWN	None	31498	None	None	177015031	177015140	1	MIRN10B	hsa-mir-10b
HG75_PATCH	TBC1D3B	ENSG00000260069	ENST00000565346	protein_coding	KNOWN	None	27011	1584	527	34493132	34503164	-1	TBC1D3I	PRC17
HG75_PATCH	TBC1D3B	ENSG00000260069	ENST00000568769	protein_coding	KNOWN	None	27011	1650	549	34493132	34503984	-1	TBC1D3I	PRC17
14	None	ENSG00000257573	ENST00000550526	transcribed_processed_pseudogene	KNOWN	None	None	None	None	19719545	19720589	-1	None	None
3	RNU6-865P	ENSG00000201642	ENST00000364772	snRNA	KNOWN	None	47828	None	None	100671471	100671577	1	None	None
8	None	ENSG00000253778	ENST00000520649	lincRNA	KNOWN	None	None	None	None	87778163	87830786	1	None	None
15	RN7SL494P	ENSG00000241175	ENST00000461517	misc_RNA	KNOWN	None	46510	None	None	50536828	50537128	-1	None	None
20	None	ENSG00000204393	ENST00000375670	protein_coding	KNOWN	None	None	423	140	31175281	31196695	1	None	None
20	None	ENSG00000204393	ENST00000375671	protein_coding	KNOWN	None	None	423	140	31189439	31196571	1	None	None
6	None	ENSG00000179157	ENST00000314255	processed_pseudogene	KNOWN	None	None	None	None	43331217	43331957	1	None	None
9	MIR31	ENSG00000199177	ENST00000362307	miRNA	KNOWN	None	31630	None	None	21512114	21512184	-1	MIRN31	hsa-mir-31
2	DPY30	ENSG00000162961	ENST00000446765	processed_transcript	KNOWN	None	24590	None	None	32092878	32248826	-1	None	Saf19, HDPY-30, Cps25
2	DPY30	ENSG00000162961	ENST00000452582	processed_transcript	KNOWN	None	24590	None	None	32236955	32264823	-1	None	Saf19, HDPY-30, Cps25
2	DPY30	ENSG00000162961	ENST00000414013	processed_transcript	KNOWN	None	24590	None	None	32236976	32264862	-1	None	Saf19, HDPY-30, Cps25
2	DPY30	ENSG00000162961	ENST00000430665	processed_transcript	KNOWN	None	24590	None	None	32246009	32264849	-1	None	Saf19, HDPY-30, Cps25
2	DPY30	ENSG00000162961	ENST00000422413	processed_transcript	KNOWN	None	24590	None	None	32246089	32264874	-1	None	Saf19, HDPY-30, Cps25
2	DPY30	ENSG00000162961	ENST00000342166	protein_coding	KNOWN	CCDS1777	24590	300	99	32248961	32264881	-1	None	Saf19, HDPY-30, Cps25
2	DPY30	ENSG00000162961	ENST00000295066	protein_coding	KNOWN	CCDS1777	24590	300	99	32249171	32264874	-1	None	Saf19, HDPY-30, Cps25
X	None	ENSG00000214961	ENST00000399325	processed_pseudogene	KNOWN	None	None	None	None	133406317	133407688	1	None	None
13	NXT1P1	ENSG00000214823	ENST00000458481	processed_pseudogene	KNOWN	None	39708	None	None	39743773	39744088	-1	None	None
7	None	ENSG00000199370	ENST00000362500	snoRNA	NOVEL	None	None	None	None	148086741	148086950	1	None	None
17	None	ENSG00000226145	ENST00000417510	processed_transcript	KNOWN	None	None	None	None	16721297	16725893	-1	None	None
17	None	ENSG00000226145	ENST00000584481	processed_transcript	PUTATIVE	None	None	None	None	16721306	16722677	-1	None	None
17	None	ENSG00000226145	ENST00000425692	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	16721456	16725806	-1	None	None
17	None	ENSG00000226145	ENST00000583748	processed_transcript	KNOWN	None	None	None	None	16722827	16725442	-1	None	None
12	None	ENSG00000257910	ENST00000552426	processed_transcript	PUTATIVE	None	None	None	None	77271973	77274132	1	None	None
11	None	ENSG00000248844	ENST00000528316	lincRNA	KNOWN	None	None	None	None	69902336	69910030	-1	None	None
11	None	ENSG00000248844	ENST00000511013	lincRNA	KNOWN	None	None	None	None	69902336	69911477	-1	None	None
8	None	ENSG00000254687	ENST00000529837	antisense	KNOWN	None	None	None	None	54090131	54128983	1	None	None
8	None	ENSG00000254687	ENST00000524425	antisense	KNOWN	None	None	None	None	54090147	54155243	1	None	None
3	VENTXP4	ENSG00000230465	ENST00000449029	processed_pseudogene	KNOWN	None	30903	None	None	26388172	26389129	-1	None	None
8	None	ENSG00000253951	ENST00000518788	processed_pseudogene	KNOWN	None	None	None	None	16133190	16133805	1	None	None
9	None	ENSG00000264379	ENST00000579995	snoRNA	NOVEL	None	None	None	None	21524306	21524381	-1	None	None
13	None	ENSG00000238408	ENST00000459206	snoRNA	NOVEL	None	None	None	None	40021252	40021353	-1	None	None
11	None	ENSG00000254420	ENST00000534168	antisense	KNOWN	None	None	None	None	78035804	78155095	1	None	None
13	None	ENSG00000216014	ENST00000401195	miRNA	NOVEL	None	None	None	None	40226715	40226806	1	None	None
18	WBP11P1	ENSG00000260389	ENST00000567636	processed_transcript	KNOWN	None	26250	None	None	30091626	30094597	1	None	HsT3017
18	WBP11P1	ENSG00000260389	ENST00000562560	transcribed_processed_pseudogene	KNOWN	None	26250	None	None	30091823	30093753	1	None	HsT3017
13	None	ENSG00000196777	ENST00000356139	pseudogene	KNOWN	None	None	None	None	107594562	107594907	-1	None	None
3	None	ENSG00000244268	ENST00000487827	antisense	KNOWN	None	None	None	None	152874300	152879564	-1	None	None
14	IGHV1-17	ENSG00000254046	ENST00000520119	IG_V_pseudogene	KNOWN	None	5548	None	None	106631031	106631449	-1	None	None
6	None	ENSG00000226558	ENST00000428602	processed_pseudogene	KNOWN	None	None	None	None	43331958	43332032	1	None	None
7	RN7SL72P	ENSG00000243374	ENST00000460697	misc_RNA	KNOWN	None	46088	None	None	148135401	148135667	1	None	None
3	ACTR3P3	ENSG00000242573	ENST00000480448	processed_pseudogene	KNOWN	None	38679	None	None	100881938	100882830	1	None	None
15	None	ENSG00000271819	ENST00000607728	snRNA	NOVEL	None	None	None	None	50639620	50639726	-1	None	None
12	KRT126P	ENSG00000257402	ENST00000549467	unprocessed_pseudogene	KNOWN	None	32970	None	None	53109351	53112824	-1	None	None
13	MIR4305	ENSG00000264171	ENST00000583252	miRNA	KNOWN	None	38301	None	None	40238171	40238272	-1	None	hsa-mir-4305
6	RNU6-1113P	ENSG00000207076	ENST00000384348	snRNA	KNOWN	None	48076	None	None	43441924	43442030	1	None	None
12	CACNA1C-AS3	ENSG00000256769	ENST00000543559	antisense	KNOWN	None	40117	None	None	2712516	2716606	-1	None	None
4	MTTP	ENSG00000138823	ENST00000513404	nonsense_mediated_decay	KNOWN	None	7467	129	42	100484918	100504573	1	MTP	ABL
4	MTTP	ENSG00000138823	ENST00000505142	nonsense_mediated_decay	KNOWN	None	7467	168	55	100484982	100503163	1	MTP	ABL
4	MTTP	ENSG00000138823	ENST00000506883	protein_coding	KNOWN	None	7467	536	177	100484985	100512396	1	MTP	ABL
4	MTTP	ENSG00000138823	ENST00000515141	nonsense_mediated_decay	KNOWN	None	7467	180	59	100485238	100504631	1	MTP	ABL
4	MTTP	ENSG00000138823	ENST00000504724	nonsense_mediated_decay	KNOWN	None	7467	171	56	100485240	100496010	1	MTP	ABL
4	MTTP	ENSG00000138823	ENST00000511610	nonsense_mediated_decay	KNOWN	None	7467	219	72	100485240	100503129	1	MTP	ABL
4	MTTP	ENSG00000138823	ENST00000505094	nonsense_mediated_decay	KNOWN	None	7467	153	50	100485240	100504579	1	MTP	ABL
4	MTTP	ENSG00000138823	ENST00000511045	protein_coding	PUTATIVE	None	7467	2766	921	100485240	100544380	1	MTP	ABL
4	MTTP	ENSG00000138823	ENST00000265517	protein_coding	KNOWN	CCDS3651	7467	2685	894	100495864	100545154	1	MTP	ABL
4	MTTP	ENSG00000138823	ENST00000422897	protein_coding	PUTATIVE	None	7467	456	151	100495981	100505350	1	MTP	ABL
4	MTTP	ENSG00000138823	ENST00000457717	protein_coding	KNOWN	CCDS3651	7467	2685	894	100485240	100545156	1	MTP	ABL
14	None	ENSG00000252522	ENST00000516713	misc_RNA	NOVEL	None	None	None	None	90052006	90052105	1	None	None
3	RN7SL300P	ENSG00000265813	ENST00000582522	misc_RNA	KNOWN	None	46316	None	None	152917491	152917806	-1	None	None
4	SYNPO2	ENSG00000172403	ENST00000307142	protein_coding	KNOWN	CCDS34054	17732	3786	1261	119809996	119982402	1	None	MYOPODIN
4	SYNPO2	ENSG00000172403	ENST00000429713	protein_coding	KNOWN	CCDS47129	17732	3282	1093	119810010	119956990	1	None	MYOPODIN
4	SYNPO2	ENSG00000172403	ENST00000434046	protein_coding	KNOWN	CCDS47128	17732	3330	1109	119810192	119958538	1	None	MYOPODIN
4	SYNPO2	ENSG00000172403	ENST00000504178	protein_coding	NOVEL	None	17732	3466	1154	119944626	119982402	1	None	MYOPODIN
4	SYNPO2	ENSG00000172403	ENST00000448416	protein_coding	KNOWN	None	17732	372	123	119810009	119979447	1	None	MYOPODIN
13	RNY4P14	ENSG00000200526	ENST00000363656	misc_RNA	KNOWN	None	34064	None	None	40359552	40359647	-1	None	None
3	GFM1	ENSG00000168827	ENST00000486715	protein_coding	KNOWN	CCDS33885	13780	2256	751	158362067	158410364	1	None	EFGM, GFM, EGF1
3	GFM1	ENSG00000168827	ENST00000478576	protein_coding	PUTATIVE	None	13780	1776	591	158362317	158400222	1	None	EFGM, GFM, EGF1
3	GFM1	ENSG00000168827	ENST00000478254	nonsense_mediated_decay	KNOWN	None	13780	1362	453	158362317	158410361	1	None	EFGM, GFM, EGF1
3	GFM1	ENSG00000168827	ENST00000264263	protein_coding	NOVEL	None	13780	2313	770	158362386	158410358	1	None	EFGM, GFM, EGF1
3	GFM1	ENSG00000168827	ENST00000464732	protein_coding	PUTATIVE	None	13780	181	59	158362494	158364570	1	None	EFGM, GFM, EGF1
3	GFM1	ENSG00000168827	ENST00000478251	retained_intron	KNOWN	None	13780	None	None	158364677	158368809	1	None	EFGM, GFM, EGF1
3	GFM1	ENSG00000168827	ENST00000312756	retained_intron	KNOWN	None	13780	None	None	158369987	158375307	1	None	EFGM, GFM, EGF1
3	GFM1	ENSG00000168827	ENST00000490261	processed_transcript	KNOWN	None	13780	None	None	158378053	158383196	1	None	EFGM, GFM, EGF1
3	GFM1	ENSG00000168827	ENST00000477721	retained_intron	KNOWN	None	13780	None	None	158399777	158408375	1	None	EFGM, GFM, EGF1
3	GFM1	ENSG00000168827	ENST00000481468	retained_intron	KNOWN	None	13780	None	None	158399896	158403103	1	None	EFGM, GFM, EGF1
3	GFM1	ENSG00000168827	ENST00000472383	protein_coding	PUTATIVE	None	13780	52	16	158402420	158409688	1	None	EFGM, GFM, EGF1
6	None	ENSG00000271754	ENST00000607571	antisense	KNOWN	None	None	None	None	43486918	43487462	-1	None	None
X	TCP11X3P	ENSG00000251525	ENST00000514289	transcribed_unprocessed_pseudogene	KNOWN	None	48370	None	None	101428072	101439994	1	None	None
X	TCP11X3P	ENSG00000251525	ENST00000508552	processed_transcript	KNOWN	None	48370	None	None	101437288	101439872	1	None	None
14	PLEKHD1	ENSG00000175985	ENST00000556123	retained_intron	KNOWN	None	20148	None	None	69951409	69970407	1	None	UPF0639
14	PLEKHD1	ENSG00000175985	ENST00000322564	protein_coding	KNOWN	CCDS53903	20148	1521	506	69951471	69995215	1	None	UPF0639
14	RN7SKP107	ENSG00000201027	ENST00000364157	misc_RNA	KNOWN	None	45831	None	None	90088262	90088551	1	None	None
14	None	ENSG00000264420	ENST00000577680	miRNA	NOVEL	None	None	None	None	46285346	46285432	-1	None	None
3	None	ENSG00000238312	ENST00000459246	snoRNA	NOVEL	None	None	None	None	100920676	100920779	1	None	None
12	MYO1A	ENSG00000166866	ENST00000300119	protein_coding	KNOWN	CCDS8929	7595	3132	1043	57422301	57443901	-1	MYHL, DFNA48	None
12	MYO1A	ENSG00000166866	ENST00000442789	protein_coding	KNOWN	CCDS8929	7595	3132	1043	57422301	57444549	-1	MYHL, DFNA48	None
12	MYO1A	ENSG00000166866	ENST00000554234	nonsense_mediated_decay	KNOWN	None	7595	2067	688	57422402	57441614	-1	MYHL, DFNA48	None
12	MYO1A	ENSG00000166866	ENST00000477864	processed_transcript	PUTATIVE	None	7595	None	None	57423150	57424870	-1	MYHL, DFNA48	None
12	MYO1A	ENSG00000166866	ENST00000487083	retained_intron	KNOWN	None	7595	None	None	57423747	57424871	-1	MYHL, DFNA48	None
12	MYO1A	ENSG00000166866	ENST00000476795	processed_transcript	PUTATIVE	None	7595	None	None	57432222	57433224	-1	MYHL, DFNA48	None
12	MYO1A	ENSG00000166866	ENST00000492945	protein_coding	PUTATIVE	None	7595	221	72	57435247	57444611	-1	MYHL, DFNA48	None
12	MYO1A	ENSG00000166866	ENST00000433964	protein_coding	KNOWN	None	7595	289	95	57441447	57444959	-1	MYHL, DFNA48	None
12	MYO1A	ENSG00000166866	ENST00000471791	processed_transcript	PUTATIVE	None	7595	None	None	57441715	57444982	-1	MYHL, DFNA48	None
12	MYO1A	ENSG00000166866	ENST00000544473	protein_coding	KNOWN	None	7595	2646	881	57422402	57441614	-1	MYHL, DFNA48	None
13	CDKN2AIPNLP3	ENSG00000224351	ENST00000418361	processed_pseudogene	KNOWN	None	39853	None	None	40391878	40392186	-1	None	None
6	None	ENSG00000219470	ENST00000402069	processed_pseudogene	KNOWN	None	None	None	None	43506559	43507440	-1	None	None
12	None	ENSG00000257199	ENST00000552481	processed_pseudogene	KNOWN	None	None	None	None	77377859	77378449	-1	None	None
X	None	ENSG00000251962	ENST00000516153	miRNA	NOVEL	None	None	None	None	133537328	133537412	-1	None	None
18	None	ENSG00000221621	ENST00000408694	miRNA	NOVEL	None	None	None	None	30106105	30106185	1	None	None
7	None	ENSG00000213210	ENST00000456995	processed_pseudogene	KNOWN	None	None	None	None	148277493	148277891	1	None	None
7	None	ENSG00000213210	ENST00000392888	processed_pseudogene	KNOWN	None	None	None	None	148277493	148277822	1	None	None
12	RNU6-671P	ENSG00000239178	ENST00000458848	snRNA	KNOWN	None	47634	None	None	45948373	45948442	-1	None	None
HSCHR1_2_CTG31	MTX1P1	ENSG00000263037	ENST00000573868	unprocessed_pseudogene	KNOWN	None	7505	None	None	155216170	155219520	1	MTXP, MTX1P	None
11	None	ENSG00000254665	ENST00000529883	antisense	KNOWN	None	None	None	None	8714904	8718154	1	None	None
18	None	ENSG00000263688	ENST00000578349	lincRNA	KNOWN	None	None	None	None	30161491	30162791	1	None	None
13	None	ENSG00000270444	ENST00000603479	processed_pseudogene	KNOWN	None	None	None	None	40430847	40431231	-1	None	None
15	None	ENSG00000259650	ENST00000558742	antisense	KNOWN	None	None	None	None	73627601	73634698	1	None	None
15	None	ENSG00000259650	ENST00000557981	antisense	KNOWN	None	None	None	None	73627617	73634728	1	None	None
17	SH3GL1P3	ENSG00000267352	ENST00000590010	processed_pseudogene	KNOWN	None	10837	None	None	66130816	66131745	-1	SH3GLP3	CNSA-P3
2	HOXD-AS1	ENSG00000224189	ENST00000416928	antisense	KNOWN	None	43755	None	None	177037923	177043012	-1	None	None
2	HOXD-AS1	ENSG00000224189	ENST00000417086	antisense	KNOWN	None	43755	None	None	177040722	177053268	-1	None	None
2	HOXD-AS1	ENSG00000224189	ENST00000547207	antisense	KNOWN	None	43755	None	None	177040887	177042296	-1	None	None
2	HOXD-AS1	ENSG00000224189	ENST00000436126	antisense	KNOWN	None	43755	None	None	177040914	177052997	-1	None	None
2	HOXD-AS1	ENSG00000224189	ENST00000447538	antisense	KNOWN	None	43755	None	None	177041108	177042812	-1	None	None
2	HOXD-AS1	ENSG00000224189	ENST00000549329	antisense	KNOWN	None	43755	None	None	177041114	177042770	-1	None	None
2	HOXD-AS1	ENSG00000224189	ENST00000546798	antisense	KNOWN	None	43755	None	None	177041114	177042853	-1	None	None
2	HOXD-AS1	ENSG00000224189	ENST00000413969	antisense	KNOWN	None	43755	None	None	177041184	177053686	-1	None	None
2	HOXD-AS1	ENSG00000224189	ENST00000552156	antisense	KNOWN	None	43755	None	None	177041200	177042811	-1	None	None
2	HOXD-AS1	ENSG00000224189	ENST00000456876	antisense	KNOWN	None	43755	None	None	177041200	177042853	-1	None	None
2	HOXD-AS1	ENSG00000224189	ENST00000425005	antisense	KNOWN	None	43755	None	None	177041208	177053207	-1	None	None
2	HOXD-AS1	ENSG00000224189	ENST00000452365	antisense	KNOWN	None	43755	None	None	177041252	177053259	-1	None	None
15	GABPB1-AS1	ENSG00000244879	ENST00000560359	antisense	KNOWN	None	44157	None	None	50647525	50648567	1	None	None
15	GABPB1-AS1	ENSG00000244879	ENST00000499624	antisense	KNOWN	None	44157	None	None	50647664	50650527	1	None	None
15	GABPB1-AS1	ENSG00000244879	ENST00000561289	antisense	KNOWN	None	44157	None	None	50647742	50648611	1	None	None
15	GABPB1-AS1	ENSG00000244879	ENST00000499326	antisense	KNOWN	None	44157	None	None	50647750	50648633	1	None	None
15	GABPB1-AS1	ENSG00000244879	ENST00000558593	antisense	KNOWN	None	44157	None	None	50648668	50659636	1	None	None
11	None	ENSG00000254649	ENST00000527030	antisense	KNOWN	None	None	None	None	78099107	78103451	1	None	None
11	ANO1-AS2	ENSG00000254417	ENST00000531347	antisense	KNOWN	None	33275	None	None	69918540	69921539	-1	C11orf78, NCRNA00224	None
11	ANO1-AS2	ENSG00000254417	ENST00000533327	antisense	KNOWN	None	33275	None	None	69918846	69921454	-1	C11orf78, NCRNA00224	None
10	None	ENSG00000260917	ENST00000564352	sense_overlapping	KNOWN	None	None	None	None	114583249	114587485	1	None	None
13	None	ENSG00000212553	ENST00000391251	snoRNA	NOVEL	None	None	None	None	40431272	40431364	-1	None	None
18	None	ENSG00000243355	ENST00000485809	processed_pseudogene	KNOWN	None	None	None	None	30359002	30359249	1	None	None
14	LINC00871	ENSG00000258700	ENST00000555246	lincRNA	KNOWN	None	47038	None	None	46410146	46916578	1	None	RP11-1A16.1
14	LINC00871	ENSG00000258700	ENST00000556886	lincRNA	KNOWN	None	47038	None	None	46533362	46971026	1	None	RP11-1A16.1
14	LINC00871	ENSG00000258700	ENST00000556071	lincRNA	KNOWN	None	47038	None	None	46940562	46970814	1	None	RP11-1A16.1
14	LINC00871	ENSG00000258700	ENST00000556869	lincRNA	KNOWN	None	47038	None	None	46940564	46970814	1	None	RP11-1A16.1
3	None	ENSG00000242103	ENST00000481228	processed_pseudogene	KNOWN	None	None	None	None	121075838	121076787	1	None	None
1	None	ENSG00000185044	ENST00000423249	lincRNA	KNOWN	None	None	None	None	143354963	143465438	-1	None	None
1	None	ENSG00000185044	ENST00000443548	lincRNA	KNOWN	None	None	None	None	143356065	143467532	-1	None	None
1	None	ENSG00000185044	ENST00000424068	lincRNA	KNOWN	None	None	None	None	143356625	143467304	-1	None	None
1	None	ENSG00000185044	ENST00000432361	lincRNA	KNOWN	None	None	None	None	143382245	143467632	-1	None	None
1	None	ENSG00000185044	ENST00000443766	lincRNA	KNOWN	None	None	None	None	143399412	143467658	-1	None	None
1	None	ENSG00000185044	ENST00000436326	lincRNA	KNOWN	None	None	None	None	143429879	143467630	-1	None	None
1	None	ENSG00000185044	ENST00000419027	retained_intron	KNOWN	None	None	None	None	143464645	143467613	-1	None	None
1	None	ENSG00000185044	ENST00000329536	lincRNA	KNOWN	None	None	None	None	143465380	143467604	-1	None	None
11	ALG9-IT1	ENSG00000254450	ENST00000531305	sense_intronic	KNOWN	None	41409	None	None	111687938	111699936	-1	None	None
13	LINC00332	ENSG00000230710	ENST00000455241	lincRNA	KNOWN	None	42049	None	None	40755946	40763165	1	NCRNA00332	None
10	None	ENSG00000225292	ENST00000428766	sense_intronic	KNOWN	None	None	None	None	114648494	114665870	1	None	None
1	SAMD13	ENSG00000203943	ENST00000370673	protein_coding	KNOWN	CCDS30760	24582	351	116	84764049	84816479	1	None	None
1	SAMD13	ENSG00000203943	ENST00000370671	protein_coding	KNOWN	None	24582	369	122	84765241	84815753	1	None	None
1	SAMD13	ENSG00000203943	ENST00000394834	protein_coding	NOVEL	CCDS44166	24582	309	102	84767289	84815705	1	None	None
1	SAMD13	ENSG00000203943	ENST00000463429	retained_intron	KNOWN	None	24582	None	None	84767339	84769961	1	None	None
1	SAMD13	ENSG00000203943	ENST00000370669	protein_coding	NOVEL	CCDS44166	24582	309	102	84767403	84815677	1	None	None
1	SAMD13	ENSG00000203943	ENST00000479082	retained_intron	KNOWN	None	24582	None	None	84767406	84769571	1	None	None
1	SAMD13	ENSG00000203943	ENST00000370668	protein_coding	NOVEL	CCDS44166	24582	309	102	84768334	84816479	1	None	None
1	SAMD13	ENSG00000203943	ENST00000370670	protein_coding	NOVEL	CCDS44166	24582	309	102	84768716	84815613	1	None	None
1	SAMD13	ENSG00000203943	ENST00000454967	protein_coding	PUTATIVE	None	24582	153	50	84791363	84855640	1	None	None
1	SAMD13	ENSG00000203943	ENST00000370667	protein_coding	KNOWN	None	24582	279	92	84810519	84816480	1	None	None
19	None	ENSG00000224730	ENST00000456337	protein_coding	PUTATIVE	None	None	201	66	55147173	55150343	-1	None	None
7	NXPH1	ENSG00000122584	ENST00000405863	protein_coding	KNOWN	CCDS47540	20693	816	271	8473585	8792593	1	None	None
7	NXPH1	ENSG00000122584	ENST00000438764	protein_coding	KNOWN	None	20693	418	138	8474693	8791001	1	None	None
7	NXPH1	ENSG00000122584	ENST00000429542	protein_coding	KNOWN	None	20693	430	142	8474825	8791013	1	None	None
7	NXPH1	ENSG00000122584	ENST00000497400	processed_transcript	KNOWN	None	20693	None	None	8729917	8791617	1	None	None
7	NXPH1	ENSG00000122584	ENST00000602349	protein_coding	KNOWN	None	20693	465	154	8474225	8791501	1	None	None
11	None	ENSG00000251323	ENST00000513207	lincRNA	KNOWN	None	None	None	None	78135028	78140882	-1	None	None
18	None	ENSG00000263765	ENST00000583612	antisense	KNOWN	None	None	None	None	30413417	30420403	1	None	None
18	None	ENSG00000263765	ENST00000582239	antisense	KNOWN	None	None	None	None	30413430	30435253	1	None	None
18	None	ENSG00000263765	ENST00000578782	antisense	KNOWN	None	None	None	None	30414952	30418141	1	None	None
18	None	ENSG00000263765	ENST00000579160	antisense	KNOWN	None	None	None	None	30415063	30416276	1	None	None
18	None	ENSG00000263765	ENST00000580366	antisense	KNOWN	None	None	None	None	30415128	30518280	1	None	None
3	None	ENSG00000241220	ENST00000498457	lincRNA	KNOWN	None	None	None	None	153074896	153091975	1	None	None
8	None	ENSG00000253568	ENST00000519251	processed_pseudogene	KNOWN	None	None	None	None	87788707	87788866	-1	None	None
5	FEM1C	ENSG00000145780	ENST00000274457	protein_coding	KNOWN	CCDS4118	16933	1854	617	114856608	114880591	-1	None	KIAA1785, EUROIMAGE686608, EUROIMAGE783647, FEM1A
22	SYNGR1	ENSG00000100321	ENST00000318801	protein_coding	KNOWN	CCDS13990	11498	576	191	39745930	39774386	1	None	None
22	SYNGR1	ENSG00000100321	ENST00000216155	protein_coding	PUTATIVE	None	11498	357	118	39745954	39772038	1	None	None
22	SYNGR1	ENSG00000100321	ENST00000415332	nonsense_mediated_decay	KNOWN	None	11498	435	144	39745992	39773916	1	None	None
22	SYNGR1	ENSG00000100321	ENST00000406293	protein_coding	PUTATIVE	None	11498	510	169	39745996	39773080	1	None	None
22	SYNGR1	ENSG00000100321	ENST00000328933	protein_coding	KNOWN	CCDS13989	11498	702	233	39746001	39781593	1	None	None
22	SYNGR1	ENSG00000100321	ENST00000489206	retained_intron	KNOWN	None	11498	None	None	39746011	39772215	1	None	None
22	SYNGR1	ENSG00000100321	ENST00000381535	protein_coding	KNOWN	CCDS13991	11498	579	192	39760175	39774386	1	None	None
7	ZFAND2A	ENSG00000178381	ENST00000401903	protein_coding	PUTATIVE	None	28073	543	180	1191707	1199814	-1	None	AIRAP
7	ZFAND2A	ENSG00000178381	ENST00000397083	protein_coding	PUTATIVE	None	28073	617	204	1192543	1199789	-1	None	AIRAP
7	ZFAND2A	ENSG00000178381	ENST00000316495	protein_coding	KNOWN	CCDS5323	28073	438	145	1192543	1199814	-1	None	AIRAP
7	ZFAND2A	ENSG00000178381	ENST00000471448	retained_intron	KNOWN	None	28073	None	None	1192544	1195313	-1	None	AIRAP
7	ZFAND2A	ENSG00000178381	ENST00000574135	protein_coding	PUTATIVE	None	28073	272	89	1192544	1197368	-1	None	AIRAP
7	ZFAND2A	ENSG00000178381	ENST00000484977	retained_intron	KNOWN	None	28073	None	None	1196659	1199855	-1	None	AIRAP
7	ZFAND2A	ENSG00000178381	ENST00000478137	processed_transcript	KNOWN	None	28073	None	None	1199662	1200395	-1	None	AIRAP
13	None	ENSG00000271429	ENST00000605218	processed_pseudogene	KNOWN	None	None	None	None	40798762	40798999	-1	None	None
6	None	ENSG00000252218	ENST00000516409	snoRNA	NOVEL	None	None	None	None	43511881	43512007	1	None	None
14	SLC20A1P2	ENSG00000235506	ENST00000438667	processed_pseudogene	KNOWN	None	42539	None	None	106636402	106637113	-1	None	None
11	GNG5P3	ENSG00000254949	ENST00000530977	processed_pseudogene	KNOWN	None	33552	None	None	111734977	111735183	1	None	None
20	COMMD7	ENSG00000149600	ENST00000278980	protein_coding	KNOWN	CCDS42864	16223	603	200	31290493	31331803	-1	C20orf92	dJ1085F17.3
20	COMMD7	ENSG00000149600	ENST00000474815	processed_transcript	KNOWN	None	16223	None	None	31315697	31315949	-1	C20orf92	dJ1085F17.3
20	COMMD7	ENSG00000149600	ENST00000446419	protein_coding	KNOWN	CCDS46587	16223	600	199	31290494	31331814	-1	C20orf92	dJ1085F17.3
3	ZNF90P1	ENSG00000241738	ENST00000480493	processed_pseudogene	KNOWN	None	12888	None	None	101076136	101078086	1	ZNF108, ZNF108P	None
3	None	ENSG00000225386	ENST00000435884	lincRNA	KNOWN	None	None	None	None	26660821	26664181	-1	None	None
3	RPL7AP11	ENSG00000242445	ENST00000486538	processed_pseudogene	KNOWN	None	35242	None	None	121212957	121213755	1	None	None
1	LY9	ENSG00000122224	ENST00000474998	retained_intron	KNOWN	None	6730	None	None	160765896	160770017	1	None	CD229, mLY9, SLAMF3, hly9
1	LY9	ENSG00000122224	ENST00000263285	protein_coding	KNOWN	CCDS30916	6730	1968	655	160765948	160798045	1	None	CD229, mLY9, SLAMF3, hly9
1	LY9	ENSG00000122224	ENST00000368039	protein_coding	PUTATIVE	CCDS30917	6730	582	193	160765977	160772488	1	None	CD229, mLY9, SLAMF3, hly9
1	LY9	ENSG00000122224	ENST00000480837	processed_transcript	KNOWN	None	6730	None	None	160765989	160783620	1	None	CD229, mLY9, SLAMF3, hly9
1	LY9	ENSG00000122224	ENST00000490902	nonsense_mediated_decay	KNOWN	None	6730	216	71	160765990	160771755	1	None	CD229, mLY9, SLAMF3, hly9
1	LY9	ENSG00000122224	ENST00000471816	processed_transcript	KNOWN	None	6730	None	None	160765998	160784433	1	None	CD229, mLY9, SLAMF3, hly9
1	LY9	ENSG00000122224	ENST00000485624	processed_transcript	KNOWN	None	6730	None	None	160766001	160769454	1	None	CD229, mLY9, SLAMF3, hly9
1	LY9	ENSG00000122224	ENST00000392203	protein_coding	PUTATIVE	None	6730	1648	548	160766028	160798045	1	None	CD229, mLY9, SLAMF3, hly9
1	LY9	ENSG00000122224	ENST00000368037	protein_coding	PUTATIVE	None	6730	1833	610	160766071	160798045	1	None	CD229, mLY9, SLAMF3, hly9
1	LY9	ENSG00000122224	ENST00000479663	retained_intron	KNOWN	None	6730	None	None	160779539	160785129	1	None	CD229, mLY9, SLAMF3, hly9
1	LY9	ENSG00000122224	ENST00000368035	protein_coding	KNOWN	None	6730	813	270	160784313	160798045	1	None	CD229, mLY9, SLAMF3, hly9
1	LY9	ENSG00000122224	ENST00000341032	protein_coding	KNOWN	None	6730	1566	521	160765928	160798039	1	None	CD229, mLY9, SLAMF3, hly9
1	LY9	ENSG00000122224	ENST00000368041	protein_coding	KNOWN	None	6730	1581	526	160765928	160798039	1	None	CD229, mLY9, SLAMF3, hly9
1	LY9	ENSG00000122224	ENST00000368040	protein_coding	KNOWN	None	6730	813	270	160765928	160798039	1	None	CD229, mLY9, SLAMF3, hly9
12	None	ENSG00000238769	ENST00000458955	snoRNA	NOVEL	None	None	None	None	77556706	77556805	-1	None	None
8	None	ENSG00000253500	ENST00000440763	antisense	KNOWN	None	None	None	None	88554214	88767923	-1	None	None
8	None	ENSG00000253500	ENST00000517711	antisense	KNOWN	None	None	None	None	88578398	88746071	-1	None	None
8	None	ENSG00000253500	ENST00000518494	antisense	KNOWN	None	None	None	None	88578708	88767946	-1	None	None
12	None	ENSG00000257616	ENST00000552545	processed_pseudogene	KNOWN	None	None	None	None	53124209	53126649	1	None	None
3	None	ENSG00000241912	ENST00000462300	lincRNA	KNOWN	None	None	None	None	153094620	153095351	1	None	None
X	None	ENSG00000226107	ENST00000438135	processed_pseudogene	KNOWN	None	None	None	None	133656732	133657020	1	None	None
16	TAOK2	ENSG00000149930	ENST00000308893	protein_coding	KNOWN	CCDS10663	16835	3708	1235	29984962	29999719	1	None	TAO1, KIAA0881, PSK, PSK1, TAO2, MAP3K17
16	TAOK2	ENSG00000149930	ENST00000543033	protein_coding	NOVEL	CCDS58448	16835	3369	1122	29985503	29999502	1	None	TAO1, KIAA0881, PSK, PSK1, TAO2, MAP3K17
16	TAOK2	ENSG00000149930	ENST00000279394	protein_coding	KNOWN	CCDS10662	16835	3150	1049	29985602	30003582	1	None	TAO1, KIAA0881, PSK, PSK1, TAO2, MAP3K17
16	TAOK2	ENSG00000149930	ENST00000416441	protein_coding	KNOWN	None	16835	3189	1062	29991673	29999719	1	None	TAO1, KIAA0881, PSK, PSK1, TAO2, MAP3K17
16	TAOK2	ENSG00000149930	ENST00000566552	retained_intron	KNOWN	None	16835	None	None	29996439	29999292	1	None	TAO1, KIAA0881, PSK, PSK1, TAO2, MAP3K17
16	TAOK2	ENSG00000149930	ENST00000570844	retained_intron	KNOWN	None	16835	None	None	30001231	30003031	1	None	TAO1, KIAA0881, PSK, PSK1, TAO2, MAP3K17
14	None	ENSG00000257310	ENST00000551932	lincRNA	KNOWN	None	None	None	None	19740033	19742744	-1	None	None
HG871_PATCH	AKR1C4	ENSG00000266359	ENST00000582488	processed_transcript	KNOWN	None	387	None	None	5237654	5239114	1	CHDR	DD4, HAKRA, C11, 3-alpha-HSD, CDR, MGC22581
HG871_PATCH	AKR1C4	ENSG00000266359	ENST00000583238	protein_coding	KNOWN	None	387	972	323	5239053	5261139	1	CHDR	DD4, HAKRA, C11, 3-alpha-HSD, CDR, MGC22581
12	RNA5SP379	ENSG00000201469	ENST00000364599	rRNA	KNOWN	None	43279	None	None	133300531	133300643	-1	RN5S379	None
3	None	ENSG00000238670	ENST00000459366	snoRNA	NOVEL	None	None	None	None	121310141	121310241	1	None	None
12	None	ENSG00000257677	ENST00000552060	lincRNA	KNOWN	None	None	None	None	77613383	77622473	-1	None	None
13	RNY3P9	ENSG00000207458	ENST00000384727	misc_RNA	KNOWN	None	42493	None	None	40800964	40801069	1	None	None
12	None	ENSG00000203648	ENST00000366455	processed_pseudogene	KNOWN	None	None	None	None	2769103	2770135	1	None	None
12	RN7SL246P	ENSG00000265093	ENST00000584467	misc_RNA	KNOWN	None	46262	None	None	46267812	46268111	1	None	None
13	None	ENSG00000230058	ENST00000400432	lincRNA	KNOWN	None	None	None	None	40918094	40924440	-1	None	None
11	None	ENSG00000255084	ENST00000526976	antisense	KNOWN	None	None	None	None	78244222	78269611	1	None	None
12	KNOP1P2	ENSG00000270429	ENST00000605379	processed_pseudogene	KNOWN	None	48920	None	None	46274733	46276049	-1	None	None
14	None	ENSG00000258781	ENST00000547821	unprocessed_pseudogene	KNOWN	None	None	None	None	19742775	19758782	1	None	None
3	STAG1	ENSG00000118007	ENST00000383202	protein_coding	KNOWN	CCDS3090	11354	3777	1258	136055077	136471210	-1	None	SA-1, SCC3A
3	STAG1	ENSG00000118007	ENST00000236698	protein_coding	NOVEL	None	11354	3666	1221	136055078	136471220	-1	None	SA-1, SCC3A
3	STAG1	ENSG00000118007	ENST00000483235	nonsense_mediated_decay	KNOWN	None	11354	306	101	136056230	136471220	-1	None	SA-1, SCC3A
3	STAG1	ENSG00000118007	ENST00000465961	retained_intron	KNOWN	None	11354	None	None	136067631	136078031	-1	None	SA-1, SCC3A
3	STAG1	ENSG00000118007	ENST00000487065	nonsense_mediated_decay	KNOWN	None	11354	486	161	136136400	136471219	-1	None	SA-1, SCC3A
3	STAG1	ENSG00000118007	ENST00000492318	protein_coding	PUTATIVE	None	11354	570	189	136141799	136192445	-1	None	SA-1, SCC3A
3	STAG1	ENSG00000118007	ENST00000462818	retained_intron	KNOWN	None	11354	None	None	136218608	136323315	-1	None	SA-1, SCC3A
3	STAG1	ENSG00000118007	ENST00000480733	protein_coding	PUTATIVE	None	11354	699	232	136236885	136471208	-1	None	SA-1, SCC3A
3	STAG1	ENSG00000118007	ENST00000434713	protein_coding	KNOWN	None	11354	2997	998	136056232	136471220	-1	None	SA-1, SCC3A
3	STAG1	ENSG00000118007	ENST00000536929	protein_coding	KNOWN	None	11354	2529	842	136056822	136192445	-1	None	SA-1, SCC3A
14	None	ENSG00000252655	ENST00000516846	misc_RNA	NOVEL	None	None	None	None	90117137	90117247	-1	None	None
13	RN7SKP2	ENSG00000252812	ENST00000517003	misc_RNA	KNOWN	None	42620	None	None	40981259	40981577	-1	None	None
8	None	ENSG00000260484	ENST00000566892	lincRNA	KNOWN	None	None	None	None	54301261	54303432	-1	None	None
16	CTCF	ENSG00000102974	ENST00000264010	protein_coding	KNOWN	CCDS10841	13723	2184	727	67596310	67673086	1	None	None
16	CTCF	ENSG00000102974	ENST00000401394	protein_coding	KNOWN	CCDS54029	13723	1200	399	67596310	67673086	1	None	None
16	CTCF	ENSG00000102974	ENST00000566078	retained_intron	KNOWN	None	13723	None	None	67596441	67646049	1	None	None
12	None	ENSG00000256108	ENST00000539323	processed_pseudogene	KNOWN	None	None	None	None	133321742	133322315	1	None	None
3	RN7SL172P	ENSG00000243544	ENST00000460535	misc_RNA	KNOWN	None	46188	None	None	121372843	121373143	-1	None	None
15	None	ENSG00000258488	ENST00000554836	unprocessed_pseudogene	KNOWN	None	None	None	None	20721492	20725870	1	None	None
2	ANKRD23	ENSG00000163126	ENST00000476975	processed_transcript	KNOWN	None	24470	None	None	97490263	97507854	-1	None	DARP, FLJ32449, MARP3
2	ANKRD23	ENSG00000163126	ENST00000318357	protein_coding	KNOWN	CCDS2027	24470	918	305	97503649	97509771	-1	None	DARP, FLJ32449, MARP3
2	ANKRD23	ENSG00000163126	ENST00000418232	protein_coding	KNOWN	CCDS2027	24470	918	305	97503651	97509742	-1	None	DARP, FLJ32449, MARP3
2	ANKRD23	ENSG00000163126	ENST00000331001	protein_coding	KNOWN	None	24470	792	263	97503652	97509758	-1	None	DARP, FLJ32449, MARP3
2	ANKRD23	ENSG00000163126	ENST00000482175	retained_intron	KNOWN	None	24470	None	None	97504469	97506979	-1	None	DARP, FLJ32449, MARP3
2	ANKRD23	ENSG00000163126	ENST00000462692	processed_transcript	KNOWN	None	24470	None	None	97505796	97523671	-1	None	DARP, FLJ32449, MARP3
13	LINC00598	ENSG00000215483	ENST00000400430	lincRNA	KNOWN	None	42770	None	None	41025131	41055143	-1	None	TTL
13	LINC00598	ENSG00000215483	ENST00000400431	lincRNA	KNOWN	None	42770	None	None	41026794	41034546	-1	None	TTL
13	LINC00598	ENSG00000215483	ENST00000542632	lincRNA	KNOWN	None	42770	None	None	41032671	41040785	-1	None	TTL
8	MRPL49P2	ENSG00000253934	ENST00000521066	processed_pseudogene	KNOWN	None	29718	None	None	16232127	16232591	1	None	None
19	None	ENSG00000267730	ENST00000589396	lincRNA	KNOWN	None	None	None	None	56088136	56088780	-1	None	None
3	None	ENSG00000238755	ENST00000492569	lincRNA	KNOWN	None	None	None	None	153102723	153105157	-1	None	None
3	None	ENSG00000238755	ENST00000493214	antisense	KNOWN	None	None	None	None	153102898	153480315	-1	None	None
3	None	ENSG00000238755	ENST00000488210	antisense	KNOWN	None	None	None	None	153448550	153697975	-1	None	None
12	KRT125P	ENSG00000258036	ENST00000546827	unprocessed_pseudogene	KNOWN	None	48875	None	None	53129050	53129926	-1	None	None
7	None	ENSG00000238557	ENST00000459593	snoRNA	NOVEL	None	None	None	None	152293008	152293115	1	None	None
5	SMN2	ENSG00000205571	ENST00000380743	protein_coding	KNOWN	CCDS4007	11118	885	294	69345439	69373419	1	None	BCD541, SMNC, GEMIN1, TDRD16B
5	SMN2	ENSG00000205571	ENST00000511812	protein_coding	NOVEL	None	11118	684	227	69345465	69372533	1	None	BCD541, SMNC, GEMIN1, TDRD16B
5	SMN2	ENSG00000205571	ENST00000506734	nonsense_mediated_decay	KNOWN	None	11118	885	294	69345484	69373423	1	None	BCD541, SMNC, GEMIN1, TDRD16B
5	SMN2	ENSG00000205571	ENST00000380742	protein_coding	KNOWN	CCDS4008	11118	789	262	69345491	69373419	1	None	BCD541, SMNC, GEMIN1, TDRD16B
5	SMN2	ENSG00000205571	ENST00000503678	retained_intron	KNOWN	None	11118	None	None	69359238	69366582	1	None	BCD541, SMNC, GEMIN1, TDRD16B
5	SMN2	ENSG00000205571	ENST00000511873	nonsense_mediated_decay	KNOWN	None	11118	240	79	69362911	69366481	1	None	BCD541, SMNC, GEMIN1, TDRD16B
5	SMN2	ENSG00000205571	ENST00000509805	retained_intron	KNOWN	None	11118	None	None	69362921	69366676	1	None	BCD541, SMNC, GEMIN1, TDRD16B
5	SMN2	ENSG00000205571	ENST00000505346	retained_intron	KNOWN	None	11118	None	None	69362926	69372754	1	None	BCD541, SMNC, GEMIN1, TDRD16B
5	SMN2	ENSG00000205571	ENST00000514914	retained_intron	KNOWN	None	11118	None	None	69363106	69373078	1	None	BCD541, SMNC, GEMIN1, TDRD16B
5	SMN2	ENSG00000205571	ENST00000508258	retained_intron	KNOWN	None	11118	None	None	69365060	69366580	1	None	BCD541, SMNC, GEMIN1, TDRD16B
5	SMN2	ENSG00000205571	ENST00000507458	nonsense_mediated_decay	KNOWN	None	11118	139	45	69366491	69374349	1	None	BCD541, SMNC, GEMIN1, TDRD16B
5	SMN2	ENSG00000205571	ENST00000380741	protein_coding	KNOWN	CCDS54867	11118	849	282	69345350	69373421	1	None	BCD541, SMNC, GEMIN1, TDRD16B
3	None	ENSG00000272077	ENST00000606008	lincRNA	KNOWN	None	None	None	None	44708904	44710856	1	None	None
4	None	ENSG00000250655	ENST00000515870	processed_pseudogene	KNOWN	None	None	None	None	97133430	97134251	1	None	None
14	RN7SKP255	ENSG00000200312	ENST00000363442	misc_RNA	KNOWN	None	45979	None	None	90178855	90179167	1	None	None
X	MIR450B	ENSG00000216001	ENST00000401182	miRNA	KNOWN	None	33642	None	None	133674215	133674292	-1	MIRN450B	hsa-mir-450b
11	None	ENSG00000254836	ENST00000525382	antisense	KNOWN	None	None	None	None	32074389	32074806	-1	None	None
12	LINC00612	ENSG00000214851	ENST00000538094	processed_transcript	KNOWN	None	28621	None	None	9208182	9217666	-1	C12orf33	MGC40170, FLJ41814
14	None	ENSG00000271632	ENST00000604121	processed_pseudogene	KNOWN	None	None	None	None	19787427	19787943	1	None	None
17	KRT16P2	ENSG00000227300	ENST00000414673	transcribed_unprocessed_pseudogene	KNOWN	None	37807	None	None	16733313	16736067	-1	None	None
17	KRT16P2	ENSG00000227300	ENST00000579062	processed_transcript	KNOWN	None	37807	None	None	16734753	16736144	-1	None	None
17	KRT16P2	ENSG00000227300	ENST00000399048	unprocessed_pseudogene	KNOWN	None	37807	None	None	16733797	16736147	-1	None	None
3	RNU4-62P	ENSG00000222057	ENST00000410125	snRNA	KNOWN	None	46998	None	None	121374322	121374451	-1	None	None
19	None	ENSG00000267523	ENST00000589456	antisense	KNOWN	None	None	None	None	56173267	56186081	-1	None	None
19	None	ENSG00000267523	ENST00000585940	antisense	KNOWN	None	None	None	None	56173278	56186076	-1	None	None
8	None	ENSG00000253184	ENST00000521055	lincRNA	KNOWN	None	None	None	None	16461764	16522388	1	None	None
2	MRPS5	ENSG00000144029	ENST00000272418	protein_coding	KNOWN	CCDS2010	14498	1293	430	95752952	95787745	-1	None	MRP-S5, S5mt
2	MRPS5	ENSG00000144029	ENST00000482821	retained_intron	KNOWN	None	14498	None	None	95752953	95759436	-1	None	MRP-S5, S5mt
2	MRPS5	ENSG00000144029	ENST00000345084	nonsense_mediated_decay	KNOWN	None	14498	756	251	95752953	95787544	-1	None	MRP-S5, S5mt
2	MRPS5	ENSG00000144029	ENST00000461916	retained_intron	KNOWN	None	14498	None	None	95753069	95767698	-1	None	MRP-S5, S5mt
2	MRPS5	ENSG00000144029	ENST00000482568	retained_intron	KNOWN	None	14498	None	None	95753152	95772398	-1	None	MRP-S5, S5mt
2	MRPS5	ENSG00000144029	ENST00000475895	retained_intron	KNOWN	None	14498	None	None	95769498	95787558	-1	None	MRP-S5, S5mt
2	MRPS5	ENSG00000144029	ENST00000464458	retained_intron	KNOWN	None	14498	None	None	95770094	95772433	-1	None	MRP-S5, S5mt
2	MRPS5	ENSG00000144029	ENST00000475040	processed_transcript	KNOWN	None	14498	None	None	95780867	95815179	-1	None	MRP-S5, S5mt
10	H2AFY2	ENSG00000099284	ENST00000373255	protein_coding	KNOWN	CCDS7296	14453	1119	372	71812552	71872036	1	None	macroH2A2
10	H2AFY2	ENSG00000099284	ENST00000455786	protein_coding	NOVEL	None	14453	728	241	71812636	71868936	1	None	macroH2A2
3	None	ENSG00000263678	ENST00000581491	miRNA	NOVEL	None	None	None	None	121640945	121641029	-1	None	None
3	None	ENSG00000234165	ENST00000446601	lincRNA	KNOWN	None	None	None	None	26753798	26754855	1	None	None
9	None	ENSG00000230684	ENST00000414926	antisense	KNOWN	None	None	None	None	132695815	132698820	1	None	None
14	OR11H13P	ENSG00000196143	ENST00000359695	processed_pseudogene	KNOWN	None	29997	None	None	19806437	19807415	-1	None	None
X	MIR450A1	ENSG00000199132	ENST00000362262	miRNA	KNOWN	None	28008	None	None	133674371	133674461	-1	MIRN450, MIRN450-1, MIRN450A1	hsa-mir-450, hsa-mir-450-1, hsa-mir-450a-1
7	None	ENSG00000225416	ENST00000451203	processed_pseudogene	KNOWN	None	None	None	None	152299298	152299977	-1	None	None
4	None	ENSG00000250523	ENST00000504783	processed_pseudogene	KNOWN	None	None	None	None	189552078	189552901	1	None	None
12	None	ENSG00000257343	ENST00000550077	unprocessed_pseudogene	KNOWN	None	None	None	None	53140380	53142092	-1	None	None
HG75_PATCH	CCL3L3	ENSG00000260199	ENST00000562375	retained_intron	KNOWN	None	30554	None	None	34522245	34524123	-1	None	MGC12815
HG75_PATCH	CCL3L3	ENSG00000260199	ENST00000565629	protein_coding	KNOWN	None	30554	282	93	34522245	34524134	-1	None	MGC12815
HG75_PATCH	CCL3L3	ENSG00000260199	ENST00000563033	nonsense_mediated_decay	KNOWN	None	30554	126	41	34522248	34524119	-1	None	MGC12815
2	MAPRE3	ENSG00000084764	ENST00000233121	protein_coding	KNOWN	CCDS1731	6892	846	281	27193480	27250064	1	None	RP3, EB3
2	MAPRE3	ENSG00000084764	ENST00000494788	retained_intron	KNOWN	None	6892	None	None	27193505	27245487	1	None	RP3, EB3
2	MAPRE3	ENSG00000084764	ENST00000405074	protein_coding	KNOWN	None	6892	801	266	27193526	27250064	1	None	RP3, EB3
2	MAPRE3	ENSG00000084764	ENST00000475633	retained_intron	KNOWN	None	6892	None	None	27193529	27247089	1	None	RP3, EB3
2	MAPRE3	ENSG00000084764	ENST00000481222	retained_intron	KNOWN	None	6892	None	None	27224914	27246813	1	None	RP3, EB3
2	MAPRE3	ENSG00000084764	ENST00000491354	processed_transcript	PUTATIVE	None	6892	None	None	27225724	27245719	1	None	RP3, EB3
2	MAPRE3	ENSG00000084764	ENST00000474367	retained_intron	KNOWN	None	6892	None	None	27237633	27246402	1	None	RP3, EB3
2	MAPRE3	ENSG00000084764	ENST00000458529	protein_coding	KNOWN	None	6892	654	217	27237636	27248777	1	None	RP3, EB3
2	MAPRE3	ENSG00000084764	ENST00000402218	protein_coding	KNOWN	None	6892	801	266	27237667	27249223	1	None	RP3, EB3
9	None	ENSG00000270755	ENST00000605780	lincRNA	KNOWN	None	None	None	None	132806992	132807360	1	None	None
4	None	ENSG00000248510	ENST00000513393	lincRNA	KNOWN	None	None	None	None	97231852	97285603	1	None	None
4	None	ENSG00000248510	ENST00000522173	lincRNA	KNOWN	None	None	None	None	97231883	97740015	1	None	None
11	None	ENSG00000254627	ENST00000533832	sense_intronic	KNOWN	None	None	None	None	32086458	32093719	1	None	None
11	RPL37AP8	ENSG00000176343	ENST00000494116	processed_pseudogene	KNOWN	None	35645	None	None	111759923	111760198	-1	None	None
8	None	ENSG00000253496	ENST00000521411	lincRNA	KNOWN	None	None	None	None	16534414	16772553	-1	None	None
8	None	ENSG00000253496	ENST00000519280	lincRNA	KNOWN	None	None	None	None	16544446	16548471	-1	None	None
13	RLIMP1	ENSG00000229456	ENST00000339626	processed_pseudogene	KNOWN	None	39682	None	None	41192875	41195485	1	None	None
9	None	ENSG00000223188	ENST00000411256	misc_RNA	NOVEL	None	None	None	None	132883085	132883191	1	None	None
11	RNA5SP351	ENSG00000238965	ENST00000459480	rRNA	KNOWN	None	43251	None	None	111799124	111799232	1	RN5S351	None
11	RNU6-311P	ENSG00000252033	ENST00000516224	snRNA	KNOWN	None	47274	None	None	78290300	78290401	-1	None	None
9	RN7SL665P	ENSG00000264169	ENST00000578793	misc_RNA	KNOWN	None	46681	None	None	133275653	133275950	1	None	None
11	None	ENSG00000254517	ENST00000528030	unprocessed_pseudogene	KNOWN	None	None	None	None	48981480	48983362	1	None	None
15	None	ENSG00000258797	ENST00000557027	unprocessed_pseudogene	KNOWN	None	None	None	None	20750883	20754751	-1	None	None
7	None	ENSG00000213209	ENST00000392885	processed_pseudogene	KNOWN	None	None	None	None	148334271	148334679	1	None	None
3	None	ENSG00000202388	ENST00000365518	misc_RNA	NOVEL	None	None	None	None	121744042	121744151	-1	None	None
9	None	ENSG00000238298	ENST00000458976	snoRNA	NOVEL	None	None	None	None	133325241	133325342	1	None	None
12	None	ENSG00000231121	ENST00000550042	lincRNA	KNOWN	None	None	None	None	77718421	77966055	1	None	None
12	None	ENSG00000231121	ENST00000443873	lincRNA	KNOWN	None	None	None	None	77965921	77966046	1	None	None
12	RPS11P5	ENSG00000232888	ENST00000488441	processed_pseudogene	KNOWN	None	36312	None	None	133402287	133402770	1	None	None
12	RPS11P5	ENSG00000232888	ENST00000425052	processed_pseudogene	KNOWN	None	36312	None	None	133402287	133402772	1	None	None
16	CRAMP1L	ENSG00000007545	ENST00000397412	protein_coding	KNOWN	CCDS10440	14122	3810	1269	1662326	1727909	1	None	KIAA1426
16	CRAMP1L	ENSG00000007545	ENST00000492778	retained_intron	KNOWN	None	14122	None	None	1712463	1718064	1	None	KIAA1426
16	CRAMP1L	ENSG00000007545	ENST00000498594	retained_intron	KNOWN	None	14122	None	None	1712468	1716514	1	None	KIAA1426
16	CRAMP1L	ENSG00000007545	ENST00000415022	protein_coding	NOVEL	None	14122	550	182	1712606	1718109	1	None	KIAA1426
16	CRAMP1L	ENSG00000007545	ENST00000466562	retained_intron	KNOWN	None	14122	None	None	1712700	1717366	1	None	KIAA1426
16	CRAMP1L	ENSG00000007545	ENST00000467286	retained_intron	KNOWN	None	14122	None	None	1715777	1717418	1	None	KIAA1426
16	CRAMP1L	ENSG00000007545	ENST00000468839	retained_intron	KNOWN	None	14122	None	None	1720468	1723989	1	None	KIAA1426
16	CRAMP1L	ENSG00000007545	ENST00000293925	protein_coding	KNOWN	CCDS10440	14122	3810	1269	1664641	1727907	1	None	KIAA1426
16	CRAMP1L	ENSG00000007545	ENST00000436138	protein_coding	KNOWN	None	14122	3801	1266	1664641	1727126	1	None	KIAA1426
16	CRAMP1L	ENSG00000007545	ENST00000262317	protein_coding	KNOWN	None	14122	1935	644	1705913	1727907	1	None	KIAA1426
1	None	ENSG00000238261	ENST00000428624	lincRNA	KNOWN	None	None	None	None	143377281	143398889	1	None	None
1	None	ENSG00000238261	ENST00000423394	lincRNA	KNOWN	None	None	None	None	143378736	143380964	1	None	None
1	None	ENSG00000238261	ENST00000456460	lincRNA	KNOWN	None	None	None	None	143386117	143399809	1	None	None
1	None	ENSG00000238261	ENST00000412492	lincRNA	KNOWN	None	None	None	None	143391526	143392104	1	None	None
1	None	ENSG00000238261	ENST00000421640	lincRNA	KNOWN	None	None	None	None	143391568	143394444	1	None	None
1	None	ENSG00000238261	ENST00000458155	lincRNA	KNOWN	None	None	None	None	143391568	143399528	1	None	None
1	None	ENSG00000238261	ENST00000448665	lincRNA	KNOWN	None	None	None	None	143391568	143399813	1	None	None
1	None	ENSG00000238261	ENST00000448844	lincRNA	KNOWN	None	None	None	None	143391568	143401533	1	None	None
1	None	ENSG00000238261	ENST00000415543	lincRNA	KNOWN	None	None	None	None	143392450	143394444	1	None	None
1	None	ENSG00000238261	ENST00000433980	lincRNA	KNOWN	None	None	None	None	143394094	143404415	1	None	None
1	None	ENSG00000238261	ENST00000431700	lincRNA	KNOWN	None	None	None	None	143394151	143399814	1	None	None
19	GATAD2A	ENSG00000167491	ENST00000417582	protein_coding	KNOWN	None	29989	533	176	19496639	19603520	1	None	p66alpha
19	GATAD2A	ENSG00000167491	ENST00000494516	processed_transcript	KNOWN	None	29989	None	None	19496784	19609295	1	None	p66alpha
19	GATAD2A	ENSG00000167491	ENST00000457895	protein_coding	KNOWN	None	29989	506	167	19516605	19603493	1	None	p66alpha
19	GATAD2A	ENSG00000167491	ENST00000448576	processed_transcript	KNOWN	None	29989	None	None	19516653	19547028	1	None	p66alpha
19	GATAD2A	ENSG00000167491	ENST00000432704	protein_coding	KNOWN	None	29989	418	138	19538325	19603405	1	None	p66alpha
19	GATAD2A	ENSG00000167491	ENST00000404158	protein_coding	KNOWN	None	29989	1905	634	19538336	19619736	1	None	p66alpha
19	GATAD2A	ENSG00000167491	ENST00000429242	protein_coding	KNOWN	None	29989	380	125	19567923	19603225	1	None	p66alpha
19	GATAD2A	ENSG00000167491	ENST00000358713	protein_coding	KNOWN	CCDS12402	29989	1902	633	19569275	19619736	1	None	p66alpha
19	GATAD2A	ENSG00000167491	ENST00000444839	protein_coding	KNOWN	None	29989	280	92	19575491	19603125	1	None	p66alpha
19	GATAD2A	ENSG00000167491	ENST00000473184	processed_transcript	KNOWN	None	29989	None	None	19583219	19603238	1	None	p66alpha
19	GATAD2A	ENSG00000167491	ENST00000418032	nonsense_mediated_decay	KNOWN	None	29989	63	20	19609385	19618150	1	None	p66alpha
19	GATAD2A	ENSG00000167491	ENST00000360315	protein_coding	KNOWN	CCDS12402	29989	1902	633	19496642	19619740	1	None	p66alpha
19	GATAD2A	ENSG00000167491	ENST00000252577	protein_coding	KNOWN	None	29989	1827	608	19496642	19619740	1	None	p66alpha
19	GATAD2A	ENSG00000167491	ENST00000429563	protein_coding	KNOWN	None	29989	1311	436	19576290	19616573	1	None	p66alpha
19	GATAD2A	ENSG00000167491	ENST00000537887	protein_coding	KNOWN	None	29989	789	262	19496780	19616516	1	None	p66alpha
15	None	ENSG00000260844	ENST00000562515	processed_pseudogene	KNOWN	None	None	None	None	29008586	29009297	-1	None	None
3	None	ENSG00000221438	ENST00000408511	miRNA	NOVEL	None	None	None	None	26795428	26795567	-1	None	None
3	SOCS5P3	ENSG00000235805	ENST00000425115	processed_pseudogene	KNOWN	None	44599	None	None	44750803	44752378	-1	None	None
11	COPS8P3	ENSG00000254697	ENST00000526024	processed_pseudogene	KNOWN	None	45271	None	None	78292720	78293201	1	None	None
22	MICALL1	ENSG00000100139	ENST00000445494	protein_coding	KNOWN	None	29804	632	209	38301664	38318293	1	None	MIRAB13, KIAA1668, MICAL-L1
22	MICALL1	ENSG00000100139	ENST00000215957	protein_coding	KNOWN	CCDS13961	29804	2592	863	38302304	38338829	1	None	MIRAB13, KIAA1668, MICAL-L1
22	MICALL1	ENSG00000100139	ENST00000489812	processed_transcript	KNOWN	None	29804	None	None	38302889	38318043	1	None	MIRAB13, KIAA1668, MICAL-L1
22	MICALL1	ENSG00000100139	ENST00000454685	protein_coding	PUTATIVE	None	29804	1108	368	38321854	38333160	1	None	MIRAB13, KIAA1668, MICAL-L1
22	MICALL1	ENSG00000100139	ENST00000402631	processed_transcript	KNOWN	None	29804	None	None	38322570	38338016	1	None	MIRAB13, KIAA1668, MICAL-L1
22	MICALL1	ENSG00000100139	ENST00000424008	protein_coding	PUTATIVE	None	29804	561	186	38328602	38337194	1	None	MIRAB13, KIAA1668, MICAL-L1
11	None	ENSG00000212551	ENST00000391249	snoRNA	NOVEL	None	None	None	None	32103310	32103518	1	None	None
17	SCN4A	ENSG00000007314	ENST00000578147	protein_coding	KNOWN	None	10591	5511	1836	62015914	62050278	-1	HYKPP	Nav1.4, HYPP, SkM1
17	SCN4A	ENSG00000007314	ENST00000584310	retained_intron	KNOWN	None	10591	None	None	62025314	62027064	-1	HYKPP	Nav1.4, HYPP, SkM1
17	SCN4A	ENSG00000007314	ENST00000581514	retained_intron	KNOWN	None	10591	None	None	62036733	62039053	-1	HYKPP	Nav1.4, HYPP, SkM1
17	SCN4A	ENSG00000007314	ENST00000435607	protein_coding	KNOWN	CCDS45761	10591	5511	1836	62015914	62050278	-1	HYKPP	Nav1.4, HYPP, SkM1
5	TICAM2	ENSG00000243414	ENST00000427199	protein_coding	KNOWN	CCDS4119	21354	708	235	114914347	114938176	-1	None	TRAM, TICAM-2, TIRP
5	TICAM2	ENSG00000243414	ENST00000513729	processed_transcript	PUTATIVE	None	21354	None	None	114917427	114937886	-1	None	TRAM, TICAM-2, TIRP
5	TICAM2	ENSG00000243414	ENST00000408996	protein_coding	KNOWN	CCDS54887	21354	1215	404	114914339	114961876	-1	None	TRAM, TICAM-2, TIRP
X	MIR450A2	ENSG00000207755	ENST00000385022	miRNA	KNOWN	None	32137	None	None	133674538	133674637	-1	MIRN450-2, MIRN450A2	hsa-mir-450-2, hsa-mir-450a-2
3	MINOS1P3	ENSG00000224237	ENST00000457048	processed_pseudogene	KNOWN	None	44093	None	None	27256307	27256509	-1	None	None
19	ICAM5	ENSG00000105376	ENST00000221980	protein_coding	KNOWN	CCDS12233	5348	2775	924	10400657	10407454	1	TLCN	TLN
19	ICAM5	ENSG00000105376	ENST00000588912	retained_intron	KNOWN	None	5348	None	None	10400669	10401596	1	TLCN	TLN
19	ICAM5	ENSG00000105376	ENST00000586004	processed_transcript	KNOWN	None	5348	None	None	10400700	10402384	1	TLCN	TLN
19	ICAM5	ENSG00000105376	ENST00000587398	protein_coding	PUTATIVE	None	5348	236	77	10401653	10402423	1	TLCN	TLN
19	ICAM5	ENSG00000105376	ENST00000586480	retained_intron	KNOWN	None	5348	None	None	10402149	10407452	1	TLCN	TLN
11	None	ENSG00000255286	ENST00000530827	processed_pseudogene	KNOWN	None	None	None	None	111816363	111817616	-1	None	None
14	None	ENSG00000251735	ENST00000515926	snoRNA	NOVEL	None	None	None	None	47429626	47429749	1	None	None
12	CLIP1	ENSG00000130779	ENST00000361654	protein_coding	NOVEL	None	10461	3951	1316	122755979	122907135	-1	RSN	CYLN1, CLIP170, CLIP, CLIP-170
12	CLIP1	ENSG00000130779	ENST00000545889	protein_coding	PUTATIVE	None	10461	3042	1013	122755981	122848564	-1	RSN	CYLN1, CLIP170, CLIP, CLIP-170
12	CLIP1	ENSG00000130779	ENST00000302528	protein_coding	KNOWN	CCDS9232	10461	4284	1427	122755981	122865107	-1	RSN	CYLN1, CLIP170, CLIP, CLIP-170
12	CLIP1	ENSG00000130779	ENST00000537178	protein_coding	KNOWN	CCDS9233	10461	4179	1392	122756590	122907179	-1	RSN	CYLN1, CLIP170, CLIP, CLIP-170
12	CLIP1	ENSG00000130779	ENST00000501271	retained_intron	KNOWN	None	10461	None	None	122757008	122760370	-1	RSN	CYLN1, CLIP170, CLIP, CLIP-170
12	CLIP1	ENSG00000130779	ENST00000536634	processed_transcript	KNOWN	None	10461	None	None	122757146	122763694	-1	RSN	CYLN1, CLIP170, CLIP, CLIP-170
12	CLIP1	ENSG00000130779	ENST00000540539	protein_coding	PUTATIVE	None	10461	354	117	122757215	122763019	-1	RSN	CYLN1, CLIP170, CLIP, CLIP-170
12	CLIP1	ENSG00000130779	ENST00000538120	retained_intron	KNOWN	None	10461	None	None	122757353	122765425	-1	RSN	CYLN1, CLIP170, CLIP, CLIP-170
12	CLIP1	ENSG00000130779	ENST00000540338	protein_coding	KNOWN	CCDS58285	10461	4317	1438	122757381	122865041	-1	RSN	CYLN1, CLIP170, CLIP, CLIP-170
12	CLIP1	ENSG00000130779	ENST00000543205	retained_intron	KNOWN	None	10461	None	None	122761915	122764605	-1	RSN	CYLN1, CLIP170, CLIP, CLIP-170
12	CLIP1	ENSG00000130779	ENST00000540304	protein_coding	PUTATIVE	None	10461	2410	802	122817532	122879974	-1	RSN	CYLN1, CLIP170, CLIP, CLIP-170
12	CLIP1	ENSG00000130779	ENST00000514271	retained_intron	KNOWN	None	10461	None	None	122818632	122828591	-1	RSN	CYLN1, CLIP170, CLIP, CLIP-170
12	CLIP1	ENSG00000130779	ENST00000541410	retained_intron	KNOWN	None	10461	None	None	122825635	122840707	-1	RSN	CYLN1, CLIP170, CLIP, CLIP-170
12	CLIP1	ENSG00000130779	ENST00000537004	protein_coding	PUTATIVE	None	10461	1286	427	122835575	122880544	-1	RSN	CYLN1, CLIP170, CLIP, CLIP-170
12	CLIP1	ENSG00000130779	ENST00000541108	nonsense_mediated_decay	KNOWN	None	10461	1053	350	122839457	122865106	-1	RSN	CYLN1, CLIP170, CLIP, CLIP-170
12	CLIP1	ENSG00000130779	ENST00000535290	protein_coding	KNOWN	None	10461	325	107	122862268	122884561	-1	RSN	CYLN1, CLIP170, CLIP, CLIP-170
12	CLIP1	ENSG00000130779	ENST00000539080	protein_coding	KNOWN	None	10461	250	82	122862343	122907159	-1	RSN	CYLN1, CLIP170, CLIP, CLIP-170
12	CLIP1	ENSG00000130779	ENST00000358808	protein_coding	KNOWN	CCDS9232	10461	4284	1427	122755981	122907116	-1	RSN	CYLN1, CLIP170, CLIP, CLIP-170
15	GOLGA8CP	ENSG00000181984	ENST00000446144	unprocessed_pseudogene	KNOWN	None	32375	None	None	20767700	20781019	1	GOLGA8C	None
15	GOLGA8CP	ENSG00000181984	ENST00000454611	unprocessed_pseudogene	KNOWN	None	32375	None	None	20768766	20778659	1	GOLGA8C	None
12	A2M-AS1	ENSG00000245105	ENST00000499762	antisense	KNOWN	None	27057	None	None	9217773	9220651	1	None	None
3	None	ENSG00000252170	ENST00000516361	snoRNA	NOVEL	None	None	None	None	121964613	121964684	1	None	None
14	RPA2P1	ENSG00000258392	ENST00000556557	processed_pseudogene	KNOWN	None	19676	None	None	47465657	47466377	1	RPA2P	None
11	None	ENSG00000255334	ENST00000530733	sense_intronic	KNOWN	None	None	None	None	111886031	111886848	1	None	None
13	MIR320D1	ENSG00000211491	ENST00000390157	miRNA	KNOWN	None	35386	None	None	41301964	41302011	-1	MIRN320D1	hsa-mir-320d-1
12	None	ENSG00000257675	ENST00000549824	processed_pseudogene	KNOWN	None	None	None	None	53142560	53143911	1	None	None
12	None	ENSG00000257835	ENST00000552736	lincRNA	KNOWN	None	None	None	None	77773600	77784644	1	None	None
3	None	ENSG00000238958	ENST00000459037	miRNA	NOVEL	None	None	None	None	44834507	44834597	-1	None	None
13	MIR621	ENSG00000207652	ENST00000384919	miRNA	KNOWN	None	32877	None	None	41384902	41384997	1	MIRN621	hsa-mir-621
3	TDGF1P6	ENSG00000241438	ENST00000463873	processed_pseudogene	KNOWN	None	11706	None	None	135874391	135874838	1	TDGF6	CR-6, CRIPTO-6
3	None	ENSG00000221474	ENST00000408547	miRNA	NOVEL	None	None	None	None	122000700	122000769	1	None	None
7	None	ENSG00000212590	ENST00000391288	snoRNA	NOVEL	None	None	None	None	152306398	152306519	1	None	None
15	None	ENSG00000232431	ENST00000430589	processed_transcript	PUTATIVE	None	None	None	None	29033389	29034538	1	None	None
15	None	ENSG00000232431	ENST00000567053	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	29033748	29037148	1	None	None
6	SAMD5	ENSG00000203727	ENST00000367474	protein_coding	KNOWN	CCDS34548	21180	522	173	147830063	147891157	1	None	dJ875H10.1
6	SAMD5	ENSG00000203727	ENST00000566741	protein_coding	PUTATIVE	None	21180	294	97	147830362	148058683	1	None	dJ875H10.1
11	PPIHP1	ENSG00000230911	ENST00000428428	processed_pseudogene	KNOWN	None	31355	None	None	111900582	111901091	-1	None	None
11	None	ENSG00000254563	ENST00000526741	antisense	KNOWN	None	None	None	None	78460295	78467525	1	None	None
11	TRIM51GP	ENSG00000220948	ENST00000534741	unprocessed_pseudogene	KNOWN	None	43972	None	None	48997053	49003247	-1	None	None
12	None	ENSG00000241352	ENST00000475592	processed_pseudogene	KNOWN	None	None	None	None	13003916	13004674	1	None	None
12	None	ENSG00000241352	ENST00000597760	processed_pseudogene	KNOWN	None	None	None	None	13003916	13004638	1	None	None
3	None	ENSG00000243012	ENST00000462835	lincRNA	KNOWN	None	None	None	None	153149645	153161320	1	None	None
12	RPL36AP41	ENSG00000242087	ENST00000493820	processed_pseudogene	KNOWN	None	35813	None	None	64265519	64265824	-1	None	None
12	CACNA1C-AS2	ENSG00000256271	ENST00000545526	antisense	KNOWN	None	40118	None	None	2777666	2781386	-1	None	None
5	None	ENSG00000259786	ENST00000602470	lincRNA	KNOWN	None	None	None	None	29143610	29162565	1	None	None
5	None	ENSG00000259786	ENST00000602801	lincRNA	KNOWN	None	None	None	None	29143619	29153592	1	None	None
5	None	ENSG00000259786	ENST00000565798	lincRNA	KNOWN	None	None	None	None	29153643	29172465	1	None	None
5	None	ENSG00000259786	ENST00000602740	lincRNA	KNOWN	None	None	None	None	29164532	29167904	1	None	None
3	HNRNPA1P23	ENSG00000240236	ENST00000491091	processed_pseudogene	KNOWN	None	39541	None	None	122036456	122037588	1	None	None
11	RNU6-893P	ENSG00000238444	ENST00000458841	snRNA	KNOWN	None	47856	None	None	111903223	111903322	-1	None	None
X	MIR542	ENSG00000207784	ENST00000385050	miRNA	KNOWN	None	32534	None	None	133675371	133675467	-1	MIRN542	hsa-mir-542
2	BUB1	ENSG00000169679	ENST00000409311	protein_coding	PUTATIVE	None	1148	3087	1028	111395409	111435640	-1	BUB1L	hBUB1, BUB1A
2	BUB1	ENSG00000169679	ENST00000302759	protein_coding	KNOWN	CCDS33273	1148	3258	1085	111395411	111435691	-1	BUB1L	hBUB1, BUB1A
2	BUB1	ENSG00000169679	ENST00000478175	processed_transcript	KNOWN	None	1148	None	None	111398903	111400367	-1	BUB1L	hBUB1, BUB1A
2	BUB1	ENSG00000169679	ENST00000466333	retained_intron	KNOWN	None	1148	None	None	111399691	111435605	-1	BUB1L	hBUB1, BUB1A
2	BUB1	ENSG00000169679	ENST00000490632	retained_intron	KNOWN	None	1148	None	None	111406394	111408316	-1	BUB1L	hBUB1, BUB1A
2	BUB1	ENSG00000169679	ENST00000465029	retained_intron	KNOWN	None	1148	None	None	111418445	111435640	-1	BUB1L	hBUB1, BUB1A
2	BUB1	ENSG00000169679	ENST00000477481	retained_intron	KNOWN	None	1148	None	None	111418933	111425142	-1	BUB1L	hBUB1, BUB1A
2	BUB1	ENSG00000169679	ENST00000468927	retained_intron	KNOWN	None	1148	None	None	111423539	111427052	-1	BUB1L	hBUB1, BUB1A
2	BUB1	ENSG00000169679	ENST00000447014	protein_coding	PUTATIVE	None	1148	439	145	111428102	111435610	-1	BUB1L	hBUB1, BUB1A
2	BUB1	ENSG00000169679	ENST00000420328	protein_coding	PUTATIVE	None	1148	402	133	111428139	111435618	-1	BUB1L	hBUB1, BUB1A
2	BUB1	ENSG00000169679	ENST00000436916	protein_coding	PUTATIVE	None	1148	168	55	111431693	111432874	-1	BUB1L	hBUB1, BUB1A
2	BUB1	ENSG00000169679	ENST00000535254	protein_coding	KNOWN	None	1148	3198	1065	111395275	111435640	-1	BUB1L	hBUB1, BUB1A
11	EIF4A2P5	ENSG00000255490	ENST00000529914	processed_pseudogene	KNOWN	None	45102	None	None	32106657	32107258	1	None	None
11	SNORA40	ENSG00000210825	ENST00000388090	snoRNA	KNOWN	None	32633	None	None	93468277	93468402	-1	None	ACA40
3	RNU6-901P	ENSG00000207323	ENST00000384593	snRNA	KNOWN	None	47864	None	None	153189255	153189360	-1	None	None
17	KRT17P1	ENSG00000131885	ENST00000399211	transcribed_unprocessed_pseudogene	KNOWN	None	6428	None	None	16744057	16749197	-1	None	None
17	KRT17P1	ENSG00000131885	ENST00000582047	retained_intron	KNOWN	None	6428	None	None	16744853	16745763	-1	None	None
17	KRT17P1	ENSG00000131885	ENST00000582224	retained_intron	KNOWN	None	6428	None	None	16746264	16747884	-1	None	None
17	KRT17P1	ENSG00000131885	ENST00000577449	retained_intron	KNOWN	None	6428	None	None	16746801	16748913	-1	None	None
17	KRT17P1	ENSG00000131885	ENST00000580363	processed_transcript	KNOWN	None	6428	None	None	16747179	16749195	-1	None	None
17	KRT17P1	ENSG00000131885	ENST00000340966	unprocessed_pseudogene	KNOWN	None	6428	None	None	16745430	16749195	-1	None	None
11	None	ENSG00000238437	ENST00000459243	snoRNA	NOVEL	None	None	None	None	93530379	93530479	1	None	None
10	None	ENSG00000221232	ENST00000408305	miRNA	NOVEL	None	None	None	None	77887009	77887069	-1	None	None
12	None	ENSG00000258066	ENST00000549993	lincRNA	KNOWN	None	None	None	None	78169563	78177356	1	None	None
3	MIR564	ENSG00000207783	ENST00000385049	miRNA	KNOWN	None	32820	None	None	44903380	44903473	1	MIRN564	hsa-mir-564
3	None	ENSG00000244740	ENST00000477176	processed_pseudogene	KNOWN	None	None	None	None	135924382	135924757	-1	None	None
HG7_PATCH	None	ENSG00000261640	ENST00000564753	lincRNA	KNOWN	None	None	None	None	141985579	141988698	1	None	None
12	RNU6-327P	ENSG00000252079	ENST00000516270	snRNA	KNOWN	None	47290	None	None	133411960	133412086	-1	None	None
7	RN7SL811P	ENSG00000265439	ENST00000580735	misc_RNA	KNOWN	None	46827	None	None	152435527	152435815	-1	None	None
12	None	ENSG00000256571	ENST00000541870	sense_intronic	KNOWN	None	None	None	None	64272567	64273254	1	None	None
11	None	ENSG00000255431	ENST00000531766	processed_pseudogene	KNOWN	None	None	None	None	58111210	58112137	-1	None	None
19	LILRB4	ENSG00000186818	ENST00000461839	processed_transcript	KNOWN	None	6608	None	None	55155340	55161049	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
19	LILRB4	ENSG00000186818	ENST00000391736	protein_coding	KNOWN	CCDS12902	6608	1347	448	55173579	55181810	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
19	LILRB4	ENSG00000186818	ENST00000494796	processed_transcript	KNOWN	None	6608	None	None	55173609	55179150	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
19	LILRB4	ENSG00000186818	ENST00000430952	protein_coding	NOVEL	CCDS42618	6608	1344	447	55174447	55179848	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
19	LILRB4	ENSG00000186818	ENST00000391734	protein_coding	NOVEL	None	6608	1188	395	55174450	55179848	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
19	LILRB4	ENSG00000186818	ENST00000391733	protein_coding	NOVEL	None	6608	1350	449	55174472	55179848	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
19	LILRB4	ENSG00000186818	ENST00000434286	protein_coding	PUTATIVE	None	6608	1197	398	55174479	55179244	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
19	LILRB4	ENSG00000186818	ENST00000470943	retained_intron	KNOWN	None	6608	None	None	55177249	55178841	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
19	LILRB4	ENSG00000186818	ENST00000461262	processed_transcript	KNOWN	None	6608	None	None	55177737	55178489	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
19	LILRB4	ENSG00000186818	ENST00000270452	protein_coding	KNOWN	CCDS12902	6608	1347	448	55174124	55179844	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
7	None	ENSG00000270200	ENST00000603438	processed_pseudogene	KNOWN	None	None	None	None	148346639	148347332	1	None	None
X	UBE2A	ENSG00000077721	ENST00000371558	protein_coding	KNOWN	CCDS14580	12472	459	152	118708501	118718381	1	None	UBC2, HHR6A, RAD6A
X	UBE2A	ENSG00000077721	ENST00000346330	protein_coding	KNOWN	CCDS14581	12472	369	122	118708640	118717426	1	None	UBC2, HHR6A, RAD6A
X	UBE2A	ENSG00000077721	ENST00000469205	processed_transcript	KNOWN	None	12472	None	None	118708702	118709646	1	None	UBC2, HHR6A, RAD6A
X	UBE2A	ENSG00000077721	ENST00000371569	protein_coding	KNOWN	CCDS14582	12472	234	77	118714298	118718381	1	None	UBC2, HHR6A, RAD6A
HG7_PATCH	PRSS3P3	ENSG00000260474	ENST00000564175	transcribed_unprocessed_pseudogene	KNOWN	None	43790	None	None	141987080	141989609	-1	None	TRY3
HG7_PATCH	PRSS3P3	ENSG00000260474	ENST00000567179	processed_transcript	KNOWN	None	43790	None	None	141987201	141991423	-1	None	TRY3
11	None	ENSG00000271025	ENST00000604143	processed_pseudogene	KNOWN	None	None	None	None	111907351	111907587	-1	None	None
12	None	ENSG00000256937	ENST00000540749	processed_pseudogene	KNOWN	None	None	None	None	9280379	9281241	1	None	None
12	KRT127P	ENSG00000257125	ENST00000547183	unprocessed_pseudogene	KNOWN	None	40019	None	None	53145762	53147605	-1	KRT3P1	None
3	None	ENSG00000200162	ENST00000363292	misc_RNA	NOVEL	None	None	None	None	153325166	153325268	1	None	None
11	RN7SL195P	ENSG00000265292	ENST00000582088	misc_RNA	KNOWN	None	46211	None	None	93533649	93533916	1	None	None
3	MIRLET7G	ENSG00000199150	ENST00000362280	miRNA	KNOWN	None	31485	None	None	52302292	52302379	-1	MIRNLET7G	hsa-let-7g
2	SNORD20	ENSG00000207280	ENST00000384550	snoRNA	KNOWN	None	10143	None	None	232321155	232321234	-1	RNU20	U20
11	None	ENSG00000254638	ENST00000527589	antisense	KNOWN	None	None	None	None	112035920	112043329	-1	None	None
3	RNU6-1284P	ENSG00000200571	ENST00000363701	snRNA	KNOWN	None	48247	None	None	136148926	136149025	-1	None	None
11	None	ENSG00000266550	ENST00000579300	miRNA	NOVEL	None	None	None	None	78684766	78684854	-1	None	None
12	CACNA1C-AS1	ENSG00000246627	ENST00000501371	antisense	KNOWN	None	40119	None	None	2785167	2800284	-1	None	None
12	CACNA1C-AS1	ENSG00000246627	ENST00000544517	antisense	KNOWN	None	40119	None	None	2799029	2800366	-1	None	None
12	CACNA1C-AS1	ENSG00000246627	ENST00000541673	antisense	KNOWN	None	40119	None	None	2799064	2800323	-1	None	None
2	SNORD82	ENSG00000202400	ENST00000365530	snoRNA	KNOWN	None	10240	None	None	232325082	232325151	-1	RNU82	Z25, U82
11	None	ENSG00000206911	ENST00000384184	misc_RNA	NOVEL	None	None	None	None	93560788	93560900	1	None	None
12	None	ENSG00000236617	ENST00000424075	antisense	KNOWN	None	None	None	None	133464428	133465169	1	None	None
3	GLYCTK-AS1	ENSG00000242797	ENST00000493616	antisense	KNOWN	None	41043	None	None	52322599	52333040	-1	None	None
3	GLYCTK-AS1	ENSG00000242797	ENST00000467187	retained_intron	KNOWN	None	41043	None	None	52326746	52333083	-1	None	None
3	GLYCTK-AS1	ENSG00000242797	ENST00000472761	antisense	KNOWN	None	41043	None	None	52330673	52332930	-1	None	None
12	ARL2BPP2	ENSG00000258071	ENST00000550907	processed_pseudogene	KNOWN	None	31036	None	None	53157189	53157677	1	ARL2BPL	bcm1040
3	RNY4P4	ENSG00000200843	ENST00000363973	misc_RNA	KNOWN	None	34050	None	None	136307051	136307153	1	None	None
9	TEX10	ENSG00000136891	ENST00000374902	protein_coding	KNOWN	CCDS6748	25988	2790	929	103064366	103115221	-1	None	FLJ20287, bA208F1.2, Ipi1
9	TEX10	ENSG00000136891	ENST00000477648	processed_transcript	KNOWN	None	25988	None	None	103064368	103070151	-1	None	FLJ20287, bA208F1.2, Ipi1
9	TEX10	ENSG00000136891	ENST00000429235	protein_coding	KNOWN	None	25988	514	170	103091468	103109586	-1	None	FLJ20287, bA208F1.2, Ipi1
9	TEX10	ENSG00000136891	ENST00000535814	protein_coding	KNOWN	CCDS55330	25988	2742	913	103064359	103114853	-1	None	FLJ20287, bA208F1.2, Ipi1
9	TEX10	ENSG00000136891	ENST00000537512	protein_coding	KNOWN	None	25988	1302	433	103091846	103115165	-1	None	FLJ20287, bA208F1.2, Ipi1
2	None	ENSG00000263774	ENST00000584251	miRNA	NOVEL	None	None	None	None	232354915	232355000	-1	None	None
15	None	ENSG00000259175	ENST00000558208	antisense	KNOWN	None	None	None	None	80846950	80855285	-1	None	None
3	None	ENSG00000243486	ENST00000463297	lincRNA	KNOWN	None	None	None	None	153599315	153658625	1	None	None
11	HPRTP4	ENSG00000255995	ENST00000534879	processed_pseudogene	KNOWN	None	5162	None	None	93724512	93724595	-1	None	None
7	ATP5F1P3	ENSG00000214003	ENST00000397213	processed_pseudogene	KNOWN	None	39744	None	None	152446164	152446820	1	None	None
2	RNU2-22P	ENSG00000223198	ENST00000411266	snRNA	KNOWN	None	48515	None	None	232366701	232366912	-1	None	None
Y	RPS24P1	ENSG00000236477	ENST00000438550	processed_pseudogene	KNOWN	None	10412	None	None	14365457	14366162	1	RPS24P	None
HG243_PATCH	DGAT1	ENSG00000261698	ENST00000565657	protein_coding	KNOWN	None	2843	1467	488	145371194	145381813	-1	None	ARGP1, DGAT
HG243_PATCH	DGAT1	ENSG00000261698	ENST00000566444	retained_intron	KNOWN	None	2843	None	None	145371223	145373627	-1	None	ARGP1, DGAT
HG243_PATCH	DGAT1	ENSG00000261698	ENST00000564602	protein_coding	NOVEL	None	2843	948	315	145371228	145381813	-1	None	ARGP1, DGAT
HG243_PATCH	DGAT1	ENSG00000261698	ENST00000565392	retained_intron	KNOWN	None	2843	None	None	145371746	145372536	-1	None	ARGP1, DGAT
HG243_PATCH	DGAT1	ENSG00000261698	ENST00000567463	processed_transcript	KNOWN	None	2843	None	None	145371978	145373224	-1	None	ARGP1, DGAT
HG243_PATCH	DGAT1	ENSG00000261698	ENST00000561737	retained_intron	KNOWN	None	2843	None	None	145372820	145381577	-1	None	ARGP1, DGAT
HG243_PATCH	DGAT1	ENSG00000261698	ENST00000569868	retained_intron	KNOWN	None	2843	None	None	145372997	145381570	-1	None	ARGP1, DGAT
12	None	ENSG00000256399	ENST00000534985	processed_pseudogene	KNOWN	None	None	None	None	64281159	64282378	-1	None	None
2	LINC00471	ENSG00000181798	ENST00000313064	processed_transcript	KNOWN	None	28668	None	None	232373137	232379050	-1	C2orf52	MGC43122
8	None	ENSG00000253774	ENST00000524073	lincRNA	KNOWN	None	None	None	None	8417404	8419634	1	None	None
3	None	ENSG00000235845	ENST00000427258	antisense	KNOWN	None	None	None	None	44940670	44942417	1	None	None
12	None	ENSG00000258225	ENST00000549103	antisense	KNOWN	None	None	None	None	78445961	78485517	-1	None	None
5	RPS23	ENSG00000186468	ENST00000296674	protein_coding	KNOWN	CCDS47241	10410	432	143	81569177	81574396	-1	None	S23
5	RPS23	ENSG00000186468	ENST00000510210	protein_coding	PUTATIVE	None	10410	405	134	81570343	81574160	-1	None	S23
5	RPS23	ENSG00000186468	ENST00000512493	protein_coding	PUTATIVE	None	10410	405	134	81571063	81574170	-1	None	S23
5	RPS23	ENSG00000186468	ENST00000510019	protein_coding	PUTATIVE	None	10410	258	85	81571240	81574215	-1	None	S23
5	RPS23	ENSG00000186468	ENST00000507980	protein_coding	PUTATIVE	None	10410	372	123	81571697	81574173	-1	None	S23
5	RPS23	ENSG00000186468	ENST00000504293	retained_intron	KNOWN	None	10410	None	None	81571879	81573770	-1	None	S23
5	RPS23	ENSG00000186468	ENST00000503605	processed_transcript	KNOWN	None	10410	None	None	81571974	81573962	-1	None	S23
5	RPS23	ENSG00000186468	ENST00000511844	protein_coding	PUTATIVE	None	10410	168	55	81573178	81574174	-1	None	S23
7	RNU4-16P	ENSG00000201607	ENST00000364737	snRNA	KNOWN	None	46952	None	None	94727539	94727679	1	None	None
11	OR5B10P	ENSG00000255096	ENST00000532869	processed_pseudogene	KNOWN	None	8320	None	None	58116389	58117298	-1	OR5B11P, OR5B4P, OR5B10, OR5B11, OR5B18P	OR13-67, OR13-34, OR13-64
1	MIR3118-1	ENSG00000266811	ENST00000584879	miRNA	KNOWN	None	38265	None	None	143424141	143424215	-1	None	hsa-mir-3118-1
1	MIR3118-3	ENSG00000266811	ENST00000584879	miRNA	KNOWN	None	38274	None	None	143424141	143424215	-1	None	hsa-mir-3118-3
1	MIR3118-2	ENSG00000266811	ENST00000584879	miRNA	KNOWN	None	38324	None	None	143424141	143424215	-1	None	hsa-mir-3118-2
11	None	ENSG00000255345	ENST00000525952	lincRNA	KNOWN	None	None	None	None	78803893	78804880	1	None	None
11	None	ENSG00000255345	ENST00000534593	lincRNA	KNOWN	None	None	None	None	78804331	78809048	1	None	None
11	None	ENSG00000255345	ENST00000526091	lincRNA	KNOWN	None	None	None	None	78804344	78808899	1	None	None
7	None	ENSG00000236197	ENST00000417881	antisense	KNOWN	None	None	None	None	94784025	94843644	-1	None	None
3	RPL12P44	ENSG00000227123	ENST00000442319	processed_pseudogene	KNOWN	None	44603	None	None	44979165	44979974	1	None	None
3	HMGN1P10	ENSG00000244101	ENST00000474557	processed_pseudogene	KNOWN	None	39353	None	None	136327892	136328444	1	None	None
HG185_PATCH	CNP	ENSG00000260283	ENST00000562963	protein_coding	KNOWN	None	2158	1266	421	40122993	40131426	1	None	None
HG185_PATCH	CNP	ENSG00000260283	ENST00000564914	processed_transcript	KNOWN	None	2158	None	None	40123015	40130480	1	None	None
HG185_PATCH	CNP	ENSG00000260283	ENST00000563912	protein_coding	PUTATIVE	None	2158	1206	401	40123067	40131428	1	None	None
HG185_PATCH	CNP	ENSG00000260283	ENST00000567931	protein_coding	PUTATIVE	None	2158	170	55	40123193	40124546	1	None	None
HG185_PATCH	CNP	ENSG00000260283	ENST00000569092	retained_intron	KNOWN	None	2158	None	None	40127861	40130214	1	None	None
3	None	ENSG00000201398	ENST00000364528	snoRNA	NOVEL	None	None	None	None	153725156	153725291	-1	None	None
HSCHR6_MHC_MCF	None	ENSG00000272493	ENST00000606753	protein_coding	NOVEL	None	None	108	35	28730486	28730593	1	None	None
1	None	ENSG00000272302	ENST00000607106	miRNA	NOVEL	None	None	None	None	143437327	143437409	-1	None	None
X	EEF1A1P30	ENSG00000237757	ENST00000429708	processed_pseudogene	KNOWN	None	37906	None	None	119344309	119346528	-1	None	None
11	None	ENSG00000255333	ENST00000528539	processed_pseudogene	KNOWN	None	None	None	None	58121477	58121972	-1	None	None
7	None	ENSG00000238384	ENST00000459298	snoRNA	NOVEL	None	None	None	None	94905898	94905996	1	None	None
7	RN7SL845P	ENSG00000244328	ENST00000484385	misc_RNA	KNOWN	None	46861	None	None	152454747	152455034	1	None	None
1	None	ENSG00000226897	ENST00000429884	lincRNA	KNOWN	None	None	None	None	143498344	143517299	1	None	None
11	None	ENSG00000214264	ENST00000526766	processed_pseudogene	KNOWN	None	None	None	None	112051496	112053914	1	None	None
19	QTRT1	ENSG00000213339	ENST00000589488	retained_intron	KNOWN	None	23797	None	None	10812106	10824021	1	None	TGT
19	QTRT1	ENSG00000213339	ENST00000250237	protein_coding	KNOWN	CCDS12248	23797	1212	403	10812127	10824041	1	None	TGT
19	QTRT1	ENSG00000213339	ENST00000585885	processed_transcript	KNOWN	None	23797	None	None	10812130	10819814	1	None	TGT
19	QTRT1	ENSG00000213339	ENST00000590705	retained_intron	KNOWN	None	23797	None	None	10812130	10822932	1	None	TGT
19	QTRT1	ENSG00000213339	ENST00000421333	nonsense_mediated_decay	KNOWN	None	23797	678	225	10812130	10824113	1	None	TGT
19	QTRT1	ENSG00000213339	ENST00000587599	nonsense_mediated_decay	KNOWN	None	23797	610	202	10812142	10823073	1	None	TGT
19	QTRT1	ENSG00000213339	ENST00000592254	protein_coding	NOVEL	None	23797	539	178	10812147	10818239	1	None	TGT
19	QTRT1	ENSG00000213339	ENST00000591643	protein_coding	NOVEL	None	23797	370	122	10817982	10822931	1	None	TGT
19	QTRT1	ENSG00000213339	ENST00000587861	retained_intron	KNOWN	None	23797	None	None	10821716	10824040	1	None	TGT
19	QTRT1	ENSG00000213339	ENST00000592376	protein_coding	NOVEL	None	23797	411	136	10823239	10824035	1	None	TGT
19	QTRT1	ENSG00000213339	ENST00000587500	retained_intron	KNOWN	None	23797	None	None	10823339	10824040	1	None	TGT
19	QTRT1	ENSG00000213339	ENST00000592531	retained_intron	KNOWN	None	23797	None	None	10823594	10824040	1	None	TGT
7	None	ENSG00000237160	ENST00000413824	processed_pseudogene	KNOWN	None	None	None	None	94977558	94978545	-1	None	None
12	None	ENSG00000255703	ENST00000536775	processed_pseudogene	KNOWN	None	None	None	None	133476570	133476954	1	None	None
2	None	ENSG00000231494	ENST00000452720	processed_pseudogene	KNOWN	None	None	None	None	232424614	232425075	1	None	None
7	None	ENSG00000264918	ENST00000578165	miRNA	NOVEL	None	None	None	None	148427921	148428020	-1	None	None
11	TRIM53CP	ENSG00000254764	ENST00000531490	unprocessed_pseudogene	KNOWN	None	43979	None	None	49007423	49013433	-1	None	None
19	AMH	ENSG00000104899	ENST00000221496	protein_coding	KNOWN	CCDS12085	464	1683	560	2248666	2252072	1	None	MIS
19	AMH	ENSG00000104899	ENST00000592877	protein_coding	NOVEL	None	464	510	169	2249308	2250748	1	None	MIS
19	AMH	ENSG00000104899	ENST00000589313	retained_intron	KNOWN	None	464	None	None	2249451	2251563	1	None	MIS
1	MMP23B	ENSG00000189409	ENST00000356026	protein_coding	KNOWN	CCDS30559	7171	1173	390	1567474	1570030	1	MMP22	MIFR, MIFR-1
1	MMP23B	ENSG00000189409	ENST00000472264	protein_coding	PUTATIVE	None	7171	500	165	1567542	1568499	1	MMP22	MIFR, MIFR-1
1	MMP23B	ENSG00000189409	ENST00000512731	nonsense_mediated_decay	KNOWN	None	7171	717	238	1567557	1569850	1	MMP22	MIFR, MIFR-1
1	MMP23B	ENSG00000189409	ENST00000378675	protein_coding	PUTATIVE	None	7171	1161	386	1567558	1570030	1	MMP22	MIFR, MIFR-1
1	MMP23B	ENSG00000189409	ENST00000479814	protein_coding	PUTATIVE	None	7171	798	265	1568162	1570027	1	MMP22	MIFR, MIFR-1
1	MMP23B	ENSG00000189409	ENST00000435358	protein_coding	PUTATIVE	None	7171	728	241	1568582	1569944	1	MMP22	MIFR, MIFR-1
1	MMP23B	ENSG00000189409	ENST00000503792	protein_coding	PUTATIVE	None	7171	777	258	1568582	1569944	1	MMP22	MIFR, MIFR-1
1	MMP23B	ENSG00000189409	ENST00000489782	retained_intron	KNOWN	None	7171	None	None	1569058	1569980	1	MMP22	MIFR, MIFR-1
1	MMP23B	ENSG00000189409	ENST00000486400	retained_intron	KNOWN	None	7171	None	None	1569381	1569984	1	MMP22	MIFR, MIFR-1
1	MMP23B	ENSG00000189409	ENST00000490017	nonsense_mediated_decay	KNOWN	None	7171	264	87	1569619	1570639	1	MMP22	MIFR, MIFR-1
7	None	ENSG00000228751	ENST00000447766	processed_pseudogene	KNOWN	None	None	None	None	94979476	94980541	1	None	None
11	HPRTP3	ENSG00000256752	ENST00000539521	processed_pseudogene	KNOWN	None	5161	None	None	93731809	93732384	-1	None	None
17	TTLL6	ENSG00000170703	ENST00000433608	protein_coding	KNOWN	CCDS11537	26664	1755	584	46839597	46871696	-1	None	FLJ35808
17	TTLL6	ENSG00000170703	ENST00000416950	nonsense_mediated_decay	KNOWN	None	26664	627	208	46839603	46871696	-1	None	FLJ35808
17	TTLL6	ENSG00000170703	ENST00000490027	retained_intron	KNOWN	None	26664	None	None	46839603	46894415	-1	None	FLJ35808
17	TTLL6	ENSG00000170703	ENST00000393382	protein_coding	KNOWN	CCDS45724	26664	2676	891	46839603	46894576	-1	None	FLJ35808
17	TTLL6	ENSG00000170703	ENST00000376681	nonsense_mediated_decay	KNOWN	None	26664	557	184	46839605	46894439	-1	None	FLJ35808
17	TTLL6	ENSG00000170703	ENST00000424018	nonsense_mediated_decay	KNOWN	None	26664	84	27	46863611	46871656	-1	None	FLJ35808
17	TTLL6	ENSG00000170703	ENST00000509809	retained_intron	KNOWN	None	26664	None	None	46874492	46881348	-1	None	FLJ35808
17	TTLL6	ENSG00000170703	ENST00000456415	nonsense_mediated_decay	KNOWN	None	26664	147	48	46878921	46894503	-1	None	FLJ35808
17	TTLL6	ENSG00000170703	ENST00000470462	processed_transcript	KNOWN	None	26664	None	None	46883536	46894473	-1	None	FLJ35808
11	None	ENSG00000255252	ENST00000533009	antisense	KNOWN	None	None	None	None	32118689	32126637	-1	None	None
1	None	ENSG00000235566	ENST00000418607	lincRNA	KNOWN	None	None	None	None	143527555	143533272	-1	None	None
19	IZUMO1	ENSG00000182264	ENST00000599871	retained_intron	KNOWN	None	28539	None	None	49244109	49244780	-1	None	IZUMO, MGC34799, OBF
19	IZUMO1	ENSG00000182264	ENST00000332955	protein_coding	KNOWN	CCDS12732	28539	1053	350	49244145	49250166	-1	None	IZUMO, MGC34799, OBF
19	IZUMO1	ENSG00000182264	ENST00000595937	nonsense_mediated_decay	KNOWN	None	28539	585	194	49244165	49249116	-1	None	IZUMO, MGC34799, OBF
19	IZUMO1	ENSG00000182264	ENST00000595517	nonsense_mediated_decay	KNOWN	None	28539	207	68	49244165	49249116	-1	None	IZUMO, MGC34799, OBF
19	IZUMO1	ENSG00000182264	ENST00000597553	retained_intron	KNOWN	None	28539	None	None	49246289	49249437	-1	None	IZUMO, MGC34799, OBF
19	IZUMO1	ENSG00000182264	ENST00000602105	protein_coding	PUTATIVE	None	28539	47	14	49247721	49250054	-1	None	IZUMO, MGC34799, OBF
12	RPL13AP20	ENSG00000234498	ENST00000459725	processed_pseudogene	KNOWN	None	35709	None	None	13028433	13029041	1	None	None
12	RPL13AP20	ENSG00000234498	ENST00000424500	processed_pseudogene	KNOWN	None	35709	None	None	13028433	13029044	1	None	None
1	RNVU1-1	ENSG00000238603	ENST00000459096	snRNA	KNOWN	None	10133	None	None	143647014	143647177	-1	RNU1P10, RNU1-10P	vU1.1, U1P14, U1.4
12	None	ENSG00000211542	ENST00000390208	miRNA	NOVEL	None	None	None	None	9280467	9280581	1	None	None
3	None	ENSG00000242531	ENST00000472671	unprocessed_pseudogene	KNOWN	None	None	None	None	122135729	122135859	-1	None	None
7	RNU7-20P	ENSG00000251712	ENST00000515903	snRNA	KNOWN	None	34116	None	None	148518104	148518165	1	None	U7.20
2	None	ENSG00000228884	ENST00000412728	processed_pseudogene	KNOWN	None	None	None	None	232450575	232451038	1	None	None
3	FEZF2	ENSG00000153266	ENST00000486811	protein_coding	KNOWN	CCDS2897	13506	1380	459	62355356	62359999	-1	ZNF312	FLJ10142, FKSG36, TOF, FEZL, Zfp312
3	FEZF2	ENSG00000153266	ENST00000283268	protein_coding	KNOWN	CCDS2897	13506	1380	459	62355359	62359190	-1	ZNF312	FLJ10142, FKSG36, TOF, FEZL, Zfp312
3	FEZF2	ENSG00000153266	ENST00000475839	protein_coding	KNOWN	CCDS2897	13506	1380	459	62355367	62358690	-1	ZNF312	FLJ10142, FKSG36, TOF, FEZL, Zfp312
7	None	ENSG00000265275	ENST00000584395	miRNA	NOVEL	None	None	None	None	152753822	152753904	1	None	None
9	SNX18P2	ENSG00000232843	ENST00000438540	processed_pseudogene	KNOWN	None	39610	None	None	95655980	95656787	-1	None	None
12	None	ENSG00000257220	ENST00000418757	processed_pseudogene	KNOWN	None	None	None	None	78524117	78524784	-1	None	None
3	RNU6-342P	ENSG00000207251	ENST00000384521	snRNA	KNOWN	None	47305	None	None	27307071	27307174	-1	None	None
3	RNU5B-3P	ENSG00000252410	ENST00000516601	snRNA	KNOWN	None	34183	None	None	45075966	45076080	-1	None	None
8	None	ENSG00000253716	ENST00000523031	antisense	KNOWN	None	None	None	None	144362331	144363019	-1	None	None
8	None	ENSG00000253716	ENST00000517411	antisense	KNOWN	None	None	None	None	144362336	144363830	-1	None	None
8	None	ENSG00000253716	ENST00000519852	antisense	KNOWN	None	None	None	None	144362998	144363420	-1	None	None
8	None	ENSG00000253716	ENST00000518073	antisense	KNOWN	None	None	None	None	144362998	144363860	-1	None	None
8	None	ENSG00000253716	ENST00000521207	antisense	KNOWN	None	None	None	None	144363196	144363780	-1	None	None
8	None	ENSG00000253716	ENST00000524335	antisense	KNOWN	None	None	None	None	144363240	144363835	-1	None	None
12	None	ENSG00000255780	ENST00000537101	processed_pseudogene	KNOWN	None	None	None	None	64426192	64426445	1	None	None
1	None	ENSG00000223804	ENST00000440199	lincRNA	KNOWN	None	None	None	None	143647638	143663987	-1	None	None
1	None	ENSG00000223804	ENST00000445753	lincRNA	KNOWN	None	None	None	None	143647639	143744410	-1	None	None
1	None	ENSG00000223804	ENST00000418192	lincRNA	KNOWN	None	None	None	None	143743240	143744355	-1	None	None
1	None	ENSG00000223804	ENST00000440862	lincRNA	KNOWN	None	None	None	None	143744199	143744717	-1	None	None
1	None	ENSG00000223804	ENST00000429388	lincRNA	KNOWN	None	None	None	None	143744199	143745417	-1	None	None
3	None	ENSG00000270901	ENST00000605754	processed_pseudogene	KNOWN	None	None	None	None	122203844	122204083	1	None	None
11	None	ENSG00000227160	ENST00000419556	unitary_pseudogene	KNOWN	None	None	None	None	32133595	32275941	-1	None	None
11	None	ENSG00000227160	ENST00000525689	processed_transcript	KNOWN	None	None	None	None	32251270	32364955	-1	None	None
17	None	ENSG00000205312	ENST00000579355	retained_intron	KNOWN	None	None	None	None	16750949	16751727	-1	None	None
17	None	ENSG00000205312	ENST00000579946	retained_intron	KNOWN	None	None	None	None	16750949	16756090	-1	None	None
17	None	ENSG00000205312	ENST00000429445	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	16751166	16755222	-1	None	None
17	None	ENSG00000205312	ENST00000578037	processed_transcript	KNOWN	None	None	None	None	16751438	16753672	-1	None	None
17	None	ENSG00000205312	ENST00000584151	retained_intron	KNOWN	None	None	None	None	16754816	16756091	-1	None	None
17	None	ENSG00000205312	ENST00000579363	retained_intron	KNOWN	None	None	None	None	16754829	16755976	-1	None	None
12	None	ENSG00000256720	ENST00000540396	processed_pseudogene	KNOWN	None	None	None	None	9287680	9288187	1	None	None
8	None	ENSG00000272010	ENST00000606963	lincRNA	KNOWN	None	None	None	None	66504085	66504707	-1	None	None
2	RN7SL499P	ENSG00000239202	ENST00000481141	misc_RNA	KNOWN	None	46515	None	None	232510711	232510984	-1	None	None
20	VSX1	ENSG00000100987	ENST00000429762	protein_coding	KNOWN	CCDS58767	12723	906	301	25051521	25062767	-1	PPCD	PPD
20	VSX1	ENSG00000100987	ENST00000409958	nonsense_mediated_decay	KNOWN	None	12723	657	218	25052120	25062767	-1	PPCD	PPD
20	VSX1	ENSG00000100987	ENST00000409285	nonsense_mediated_decay	KNOWN	None	12723	843	280	25052121	25062767	-1	PPCD	PPD
20	VSX1	ENSG00000100987	ENST00000444511	protein_coding	KNOWN	CCDS58766	12723	711	236	25052122	25062767	-1	PPCD	PPD
20	VSX1	ENSG00000100987	ENST00000376709	protein_coding	KNOWN	CCDS13168	12723	1098	365	25056104	25062996	-1	PPCD	PPD
20	VSX1	ENSG00000100987	ENST00000557285	retained_intron	KNOWN	None	12723	None	None	25056944	25058635	-1	PPCD	PPD
20	VSX1	ENSG00000100987	ENST00000376707	protein_coding	KNOWN	CCDS13169	12723	720	239	25059179	25062767	-1	PPCD	PPD
20	VSX1	ENSG00000100987	ENST00000424574	protein_coding	KNOWN	None	12723	843	280	25053245	25062996	-1	PPCD	PPD
20	VSX1	ENSG00000100987	ENST00000451258	protein_coding	KNOWN	None	12723	657	218	25053250	25062996	-1	PPCD	PPD
20	VSX1	ENSG00000100987	ENST00000398332	protein_coding	KNOWN	None	12723	432	143	25062077	25062996	-1	PPCD	PPD
12	None	ENSG00000257404	ENST00000547968	processed_pseudogene	KNOWN	None	None	None	None	53176434	53176623	1	None	None
3	RPL21P42	ENSG00000240068	ENST00000488408	processed_pseudogene	KNOWN	None	37017	None	None	153741624	153742087	1	None	None
6	TXNDC5	ENSG00000239264	ENST00000460138	retained_intron	KNOWN	None	21073	None	None	7881750	7889678	-1	None	MGC3178, FLJ21353, FLJ90810, EndoPDI, Hcc-2, ERp46, PDIA15
6	TXNDC5	ENSG00000239264	ENST00000379757	protein_coding	KNOWN	CCDS4505	21073	1299	432	7881750	7911047	-1	None	MGC3178, FLJ21353, FLJ90810, EndoPDI, Hcc-2, ERp46, PDIA15
6	TXNDC5	ENSG00000239264	ENST00000473453	protein_coding	PUTATIVE	CCDS47369	21073	975	324	7883377	7910310	-1	None	MGC3178, FLJ21353, FLJ90810, EndoPDI, Hcc-2, ERp46, PDIA15
6	TXNDC5	ENSG00000239264	ENST00000475802	retained_intron	KNOWN	None	21073	None	None	7883388	7889194	-1	None	MGC3178, FLJ21353, FLJ90810, EndoPDI, Hcc-2, ERp46, PDIA15
6	TXNDC5	ENSG00000239264	ENST00000469459	retained_intron	KNOWN	None	21073	None	None	7895388	7900475	-1	None	MGC3178, FLJ21353, FLJ90810, EndoPDI, Hcc-2, ERp46, PDIA15
3	RNU7-198P	ENSG00000251708	ENST00000515899	snRNA	KNOWN	None	45732	None	None	136351990	136352048	1	None	None
7	None	ENSG00000233942	ENST00000416593	lincRNA	KNOWN	None	None	None	None	95101147	95103310	1	None	None
9	ALOX15P2	ENSG00000188101	ENST00000340858	unprocessed_pseudogene	KNOWN	None	39027	None	None	95675438	95683842	1	None	None
8	None	ENSG00000200714	ENST00000363844	misc_RNA	NOVEL	None	None	None	None	66504966	66505055	1	None	None
2	None	ENSG00000237641	ENST00000452854	processed_pseudogene	KNOWN	None	None	None	None	232654191	232654597	-1	None	None
3	EIF4BP8	ENSG00000243918	ENST00000464704	processed_pseudogene	KNOWN	None	37941	None	None	122379460	122381285	1	None	None
11	OR5B1P	ENSG00000233499	ENST00000456493	unprocessed_pseudogene	KNOWN	None	8322	None	None	58133309	58134236	-1	OR5B9P, OR5B9, OR5B5P, OR5B14P, OR5B7P, OR5B7, OR5B8, OR5B8P, OR5B5, OR5B6, OR5B6P	OR8-122, OR8-123, OR6-57, OR6-55, OR3-144, OR912-92
4	RNU7-192P	ENSG00000252275	ENST00000516466	snRNA	KNOWN	None	45726	None	None	189637819	189637879	-1	None	None
12	None	ENSG00000255886	ENST00000535594	antisense	KNOWN	None	None	None	None	64432342	64491398	-1	None	None
12	None	ENSG00000250790	ENST00000503695	lincRNA	KNOWN	None	None	None	None	133488056	133489173	1	None	None
HSCHR6_MHC_MCF	TRIM27	ENSG00000233948	ENST00000445968	protein_coding	KNOWN	None	9975	623	206	28870945	28875205	-1	RFP	RNF76
HSCHR6_MHC_MCF	TRIM27	ENSG00000233948	ENST00000440169	protein_coding	KNOWN	None	9975	158	51	28870945	28875205	-1	RFP	RNF76
HSCHR6_MHC_MCF	TRIM27	ENSG00000233948	ENST00000443804	protein_coding	KNOWN	None	9975	695	230	28870945	28875506	-1	RFP	RNF76
HSCHR6_MHC_MCF	TRIM27	ENSG00000233948	ENST00000493318	retained_intron	KNOWN	None	9975	None	None	28870945	28876032	-1	RFP	RNF76
HSCHR6_MHC_MCF	TRIM27	ENSG00000233948	ENST00000468364	processed_transcript	KNOWN	None	9975	None	None	28872417	28875527	-1	RFP	RNF76
HSCHR6_MHC_MCF	TRIM27	ENSG00000233948	ENST00000466688	processed_transcript	KNOWN	None	9975	None	None	28887956	28888127	-1	RFP	RNF76
HSCHR6_MHC_MCF	TRIM27	ENSG00000233948	ENST00000498464	processed_transcript	KNOWN	None	9975	None	None	28887956	28889919	-1	RFP	RNF76
HSCHR6_MHC_MCF	TRIM27	ENSG00000233948	ENST00000455861	protein_coding	KNOWN	None	9975	747	248	28887956	28891932	-1	RFP	RNF76
HSCHR6_MHC_MCF	TRIM27	ENSG00000233948	ENST00000430891	protein_coding	KNOWN	None	9975	747	248	28887956	28891931	-1	RFP	RNF76
HSCHR6_MHC_MCF	TRIM27	ENSG00000233948	ENST00000478495	retained_intron	KNOWN	None	9975	None	None	28887956	28891931	-1	RFP	RNF76
8	None	ENSG00000272155	ENST00000606067	antisense	KNOWN	None	None	None	None	66626569	66627013	-1	None	None
17	SGSM2	ENSG00000141258	ENST00000572875	protein_coding	PUTATIVE	None	29026	144	47	2240792	2265451	1	RUTBC1	KIAA0397
17	SGSM2	ENSG00000141258	ENST00000573062	retained_intron	KNOWN	None	29026	None	None	2240800	2268259	1	RUTBC1	KIAA0397
17	SGSM2	ENSG00000141258	ENST00000268989	protein_coding	KNOWN	CCDS32526	29026	3156	1051	2240806	2284344	1	RUTBC1	KIAA0397
17	SGSM2	ENSG00000141258	ENST00000426855	protein_coding	KNOWN	CCDS45570	29026	3021	1006	2240808	2284352	1	RUTBC1	KIAA0397
17	SGSM2	ENSG00000141258	ENST00000574563	protein_coding	NOVEL	None	29026	2964	987	2240916	2283969	1	RUTBC1	KIAA0397
17	SGSM2	ENSG00000141258	ENST00000574650	processed_transcript	PUTATIVE	None	29026	None	None	2265071	2266339	1	RUTBC1	KIAA0397
17	SGSM2	ENSG00000141258	ENST00000570431	nonsense_mediated_decay	KNOWN	None	29026	49	15	2266856	2268292	1	RUTBC1	KIAA0397
17	SGSM2	ENSG00000141258	ENST00000574857	retained_intron	KNOWN	None	29026	None	None	2267139	2277874	1	RUTBC1	KIAA0397
17	SGSM2	ENSG00000141258	ENST00000575367	retained_intron	KNOWN	None	29026	None	None	2269822	2275114	1	RUTBC1	KIAA0397
17	SGSM2	ENSG00000141258	ENST00000573717	retained_intron	KNOWN	None	29026	None	None	2270211	2277873	1	RUTBC1	KIAA0397
17	SGSM2	ENSG00000141258	ENST00000574250	retained_intron	KNOWN	None	29026	None	None	2275875	2276679	1	RUTBC1	KIAA0397
17	SGSM2	ENSG00000141258	ENST00000572841	retained_intron	KNOWN	None	29026	None	None	2279654	2284344	1	RUTBC1	KIAA0397
17	SGSM2	ENSG00000141258	ENST00000573851	protein_coding	PUTATIVE	None	29026	343	113	2281207	2282859	1	RUTBC1	KIAA0397
17	SGSM2	ENSG00000141258	ENST00000572925	protein_coding	PUTATIVE	None	29026	123	40	2282462	2284104	1	RUTBC1	KIAA0397
7	None	ENSG00000224104	ENST00000415468	processed_pseudogene	KNOWN	None	None	None	None	152841398	152841673	-1	None	None
7	None	ENSG00000203505	ENST00000366320	pseudogene	NOVEL	None	None	None	None	95159502	95159787	-1	None	None
7	RN7SL569P	ENSG00000239468	ENST00000494652	misc_RNA	KNOWN	None	46585	None	None	148587306	148587607	1	None	None
2	None	ENSG00000261096	ENST00000563949	sense_overlapping	KNOWN	None	None	None	None	232674556	232677062	1	None	None
4	None	ENSG00000180015	ENST00000504731	processed_pseudogene	KNOWN	None	None	None	None	189659527	189660648	1	None	None
4	None	ENSG00000180015	ENST00000448646	processed_pseudogene	KNOWN	None	None	None	None	189659506	189660648	1	None	None
8	None	ENSG00000272192	ENST00000607622	lincRNA	KNOWN	None	None	None	None	66754987	66755566	1	None	None
3	None	ENSG00000221573	ENST00000408646	miRNA	NOVEL	None	None	None	None	27404057	27404149	-1	None	None
3	RNU6-789P	ENSG00000252914	ENST00000517105	snRNA	KNOWN	None	47752	None	None	136440236	136440337	-1	None	None
3	ARHGEF26-AS1	ENSG00000243069	ENST00000491862	antisense	KNOWN	None	41048	None	None	153742190	153838999	-1	None	None
3	ARHGEF26-AS1	ENSG00000243069	ENST00000467912	antisense	KNOWN	None	41048	None	None	153744266	153839121	-1	None	None
3	ARHGEF26-AS1	ENSG00000243069	ENST00000480639	antisense	KNOWN	None	41048	None	None	153744268	153839052	-1	None	None
3	ARHGEF26-AS1	ENSG00000243069	ENST00000479270	antisense	KNOWN	None	41048	None	None	153744318	153839121	-1	None	None
3	ARHGEF26-AS1	ENSG00000243069	ENST00000601822	antisense	KNOWN	None	41048	None	None	153744332	153748089	-1	None	None
3	ARHGEF26-AS1	ENSG00000243069	ENST00000597231	antisense	KNOWN	None	41048	None	None	153744333	153748153	-1	None	None
2	None	ENSG00000260622	ENST00000569668	processed_pseudogene	KNOWN	None	None	None	None	232675058	232675554	-1	None	None
3	MIR135A1	ENSG00000207926	ENST00000385191	miRNA	KNOWN	None	31520	None	None	52328235	52328324	-1	MIRN135-1, MIRN135A1	hsa-mir-135-1, hsa-mir-135a-1
7	None	ENSG00000231170	ENST00000416502	antisense	KNOWN	None	None	None	None	95225994	95236456	1	None	None
7	None	ENSG00000231170	ENST00000432265	antisense	KNOWN	None	None	None	None	95225994	95243031	1	None	None
7	None	ENSG00000231170	ENST00000411728	antisense	KNOWN	None	None	None	None	95239108	95242853	1	None	None
3	None	ENSG00000224094	ENST00000431490	processed_pseudogene	KNOWN	None	None	None	None	45201266	45201667	-1	None	None
4	None	ENSG00000249269	ENST00000505178	lincRNA	KNOWN	None	None	None	None	189678833	189700133	1	None	None
8	None	ENSG00000253130	ENST00000518846	lincRNA	KNOWN	None	None	None	None	8418901	8422045	1	None	None
8	None	ENSG00000253130	ENST00000522661	lincRNA	KNOWN	None	None	None	None	8418904	8427198	1	None	None
7	RNY5	ENSG00000252310	ENST00000516501	misc_RNA	KNOWN	None	10248	None	None	148638580	148638658	1	None	None
8	None	ENSG00000253190	ENST00000520930	lincRNA	KNOWN	None	None	None	None	67024902	67027014	1	None	None
8	None	ENSG00000253190	ENST00000517961	lincRNA	KNOWN	None	None	None	None	67025522	67027440	1	None	None
11	None	ENSG00000227593	ENST00000446318	processed_pseudogene	KNOWN	None	None	None	None	93788189	93789138	-1	None	None
11	SCYL1	ENSG00000142186	ENST00000270176	protein_coding	KNOWN	CCDS41672	14372	2427	808	65292548	65306175	1	NTKL	HT019, P105, GKLP, NKTL, TAPK, TRAP, TEIF, MGC78454
11	SCYL1	ENSG00000142186	ENST00000525364	protein_coding	KNOWN	None	14372	2343	780	65292548	65306175	1	NTKL	HT019, P105, GKLP, NKTL, TAPK, TRAP, TEIF, MGC78454
11	SCYL1	ENSG00000142186	ENST00000420247	protein_coding	KNOWN	CCDS44646	14372	2376	791	65292556	65306175	1	NTKL	HT019, P105, GKLP, NKTL, TAPK, TRAP, TEIF, MGC78454
11	SCYL1	ENSG00000142186	ENST00000533862	protein_coding	KNOWN	None	14372	2364	787	65292583	65306175	1	NTKL	HT019, P105, GKLP, NKTL, TAPK, TRAP, TEIF, MGC78454
11	SCYL1	ENSG00000142186	ENST00000527630	protein_coding	KNOWN	None	14372	2124	707	65292584	65306175	1	NTKL	HT019, P105, GKLP, NKTL, TAPK, TRAP, TEIF, MGC78454
11	SCYL1	ENSG00000142186	ENST00000524944	protein_coding	PUTATIVE	None	14372	2328	775	65292592	65306175	1	NTKL	HT019, P105, GKLP, NKTL, TAPK, TRAP, TEIF, MGC78454
11	SCYL1	ENSG00000142186	ENST00000527009	protein_coding	PUTATIVE	None	14372	1998	665	65292884	65306146	1	NTKL	HT019, P105, GKLP, NKTL, TAPK, TRAP, TEIF, MGC78454
11	SCYL1	ENSG00000142186	ENST00000529178	retained_intron	KNOWN	None	14372	None	None	65298238	65300729	1	NTKL	HT019, P105, GKLP, NKTL, TAPK, TRAP, TEIF, MGC78454
11	SCYL1	ENSG00000142186	ENST00000531601	nonsense_mediated_decay	KNOWN	None	14372	526	174	65300219	65305479	1	NTKL	HT019, P105, GKLP, NKTL, TAPK, TRAP, TEIF, MGC78454
11	SCYL1	ENSG00000142186	ENST00000524897	retained_intron	KNOWN	None	14372	None	None	65302602	65304594	1	NTKL	HT019, P105, GKLP, NKTL, TAPK, TRAP, TEIF, MGC78454
11	SCYL1	ENSG00000142186	ENST00000526454	retained_intron	KNOWN	None	14372	None	None	65302805	65303875	1	NTKL	HT019, P105, GKLP, NKTL, TAPK, TRAP, TEIF, MGC78454
11	SCYL1	ENSG00000142186	ENST00000529981	retained_intron	KNOWN	None	14372	None	None	65302912	65304097	1	NTKL	HT019, P105, GKLP, NKTL, TAPK, TRAP, TEIF, MGC78454
11	SCYL1	ENSG00000142186	ENST00000528545	protein_coding	PUTATIVE	None	14372	843	280	65303736	65306175	1	NTKL	HT019, P105, GKLP, NKTL, TAPK, TRAP, TEIF, MGC78454
11	SCYL1	ENSG00000142186	ENST00000534462	processed_transcript	KNOWN	None	14372	None	None	65305302	65306175	1	NTKL	HT019, P105, GKLP, NKTL, TAPK, TRAP, TEIF, MGC78454
11	SCYL1	ENSG00000142186	ENST00000532290	retained_intron	KNOWN	None	14372	None	None	65305320	65306175	1	NTKL	HT019, P105, GKLP, NKTL, TAPK, TRAP, TEIF, MGC78454
11	SCYL1	ENSG00000142186	ENST00000279270	protein_coding	KNOWN	None	14372	2346	781	65292584	65306172	1	NTKL	HT019, P105, GKLP, NKTL, TAPK, TRAP, TEIF, MGC78454
9	None	ENSG00000227443	ENST00000424386	processed_pseudogene	KNOWN	None	None	None	None	21638284	21638675	1	None	None
15	None	ENSG00000246283	ENST00000567456	lincRNA	KNOWN	None	None	None	None	43031316	43034395	1	None	None
15	None	ENSG00000246283	ENST00000500850	lincRNA	KNOWN	None	None	None	None	43032946	43035400	1	None	None
12	MIR614	ENSG00000207817	ENST00000385082	miRNA	KNOWN	None	32870	None	None	13068763	13068852	1	MIRN614	hsa-mir-614
3	RN7SL859P	ENSG00000264625	ENST00000578725	misc_RNA	KNOWN	None	46875	None	None	27460829	27461125	-1	None	None
11	None	ENSG00000205044	ENST00000534734	unprocessed_pseudogene	KNOWN	None	None	None	None	49035495	49037446	-1	None	None
11	PRR5L	ENSG00000135362	ENST00000531269	processed_transcript	KNOWN	None	25878	None	None	36317838	36350891	1	None	FLJ14213, PROTOR-2
11	PRR5L	ENSG00000135362	ENST00000529034	processed_transcript	KNOWN	None	25878	None	None	36317838	36453443	1	None	FLJ14213, PROTOR-2
11	PRR5L	ENSG00000135362	ENST00000530639	protein_coding	KNOWN	CCDS31463	25878	1107	368	36317838	36485194	1	None	FLJ14213, PROTOR-2
11	PRR5L	ENSG00000135362	ENST00000527172	protein_coding	KNOWN	None	25878	143	46	36322511	36422814	1	None	FLJ14213, PROTOR-2
11	PRR5L	ENSG00000135362	ENST00000532121	protein_coding	KNOWN	None	25878	249	82	36371418	36440808	1	None	FLJ14213, PROTOR-2
11	PRR5L	ENSG00000135362	ENST00000526728	protein_coding	KNOWN	None	25878	227	74	36383658	36424910	1	None	FLJ14213, PROTOR-2
11	PRR5L	ENSG00000135362	ENST00000378867	protein_coding	KNOWN	CCDS31463	25878	1107	368	36397555	36486754	1	None	FLJ14213, PROTOR-2
11	PRR5L	ENSG00000135362	ENST00000389693	processed_transcript	KNOWN	None	25878	None	None	36397588	36486515	1	None	FLJ14213, PROTOR-2
11	PRR5L	ENSG00000135362	ENST00000524380	protein_coding	KNOWN	None	25878	145	47	36397752	36422816	1	None	FLJ14213, PROTOR-2
11	PRR5L	ENSG00000135362	ENST00000526682	protein_coding	KNOWN	None	25878	190	62	36397931	36424873	1	None	FLJ14213, PROTOR-2
11	PRR5L	ENSG00000135362	ENST00000532843	processed_transcript	KNOWN	None	25878	None	None	36397932	36403245	1	None	FLJ14213, PROTOR-2
11	PRR5L	ENSG00000135362	ENST00000527751	processed_transcript	KNOWN	None	25878	None	None	36397951	36417746	1	None	FLJ14213, PROTOR-2
11	PRR5L	ENSG00000135362	ENST00000530252	protein_coding	KNOWN	None	25878	149	48	36397952	36422820	1	None	FLJ14213, PROTOR-2
11	PRR5L	ENSG00000135362	ENST00000532578	processed_transcript	KNOWN	None	25878	None	None	36398094	36415984	1	None	FLJ14213, PROTOR-2
11	PRR5L	ENSG00000135362	ENST00000530050	protein_coding	KNOWN	None	25878	226	74	36399072	36424909	1	None	FLJ14213, PROTOR-2
11	PRR5L	ENSG00000135362	ENST00000526679	protein_coding	KNOWN	None	25878	242	79	36419962	36424925	1	None	FLJ14213, PROTOR-2
11	PRR5L	ENSG00000135362	ENST00000527487	protein_coding	PUTATIVE	CCDS53617	25878	618	205	36422615	36483989	1	None	FLJ14213, PROTOR-2
11	PRR5L	ENSG00000135362	ENST00000525672	processed_transcript	KNOWN	None	25878	None	None	36475500	36484331	1	None	FLJ14213, PROTOR-2
11	PRR5L	ENSG00000135362	ENST00000529020	processed_transcript	KNOWN	None	25878	None	None	36475509	36484163	1	None	FLJ14213, PROTOR-2
11	PRR5L	ENSG00000135362	ENST00000530627	processed_transcript	KNOWN	None	25878	None	None	36476839	36485226	1	None	FLJ14213, PROTOR-2
11	PRR5L	ENSG00000135362	ENST00000311599	protein_coding	KNOWN	None	25878	888	295	36397535	36486753	1	None	FLJ14213, PROTOR-2
14	None	ENSG00000259522	ENST00000561419	nonsense_mediated_decay	KNOWN	None	None	431	142	24649601	24659622	-1	None	None
2	MIR1471	ENSG00000222246	ENST00000410314	miRNA	KNOWN	None	35380	None	None	232756952	232757008	-1	MIRN1471	hsa-mir-1471
4	None	ENSG00000251619	ENST00000504165	lincRNA	KNOWN	None	None	None	None	189697811	189706665	1	None	None
3	None	ENSG00000239557	ENST00000495716	processed_pseudogene	KNOWN	None	None	None	None	52407668	52408898	1	None	None
3	RPS20P15	ENSG00000227523	ENST00000412792	processed_pseudogene	KNOWN	None	36340	None	None	27503997	27504307	1	None	None
2	None	ENSG00000227033	ENST00000413841	antisense	KNOWN	None	None	None	None	232843198	232880430	-1	None	None
4	None	ENSG00000250626	ENST00000514297	lincRNA	KNOWN	None	None	None	None	189698833	189717787	-1	None	None
9	KHSRPP1	ENSG00000229835	ENST00000427983	processed_pseudogene	KNOWN	None	39198	None	None	21695175	21696942	1	None	None
7	MIR591	ENSG00000208025	ENST00000385290	miRNA	KNOWN	None	32847	None	None	95848974	95849068	-1	MIRN591	hsa-mir-591
14	SYF2P1	ENSG00000258350	ENST00000550658	processed_pseudogene	KNOWN	None	19925	None	None	31010982	31011394	-1	CBPINP, SYF2P	None
X	None	ENSG00000231830	ENST00000433825	antisense	KNOWN	None	None	None	None	153562310	153563387	-1	None	None
3	None	ENSG00000240695	ENST00000468074	processed_pseudogene	KNOWN	None	None	None	None	136455342	136456071	-1	None	None
1	RNVU1-2	ENSG00000252135	ENST00000516326	snRNA	KNOWN	None	48308	None	None	143670468	143670602	-1	None	vU1.2, RNU1-71
12	NANOGNBP2	ENSG00000256563	ENST00000544753	processed_pseudogene	KNOWN	None	42159	None	None	133548924	133549476	-1	None	None
8	LINC00967	ENSG00000253138	ENST00000518412	lincRNA	KNOWN	None	48725	None	None	67104328	67105522	1	None	None
8	LINC00967	ENSG00000253138	ENST00000518035	lincRNA	KNOWN	None	48725	None	None	67104346	67109550	1	None	None
8	LINC00967	ENSG00000253138	ENST00000517725	lincRNA	KNOWN	None	48725	None	None	67104350	67105532	1	None	None
8	LINC00967	ENSG00000253138	ENST00000517689	lincRNA	KNOWN	None	48725	None	None	67104944	67108625	1	None	None
7	None	ENSG00000237551	ENST00000437724	processed_pseudogene	KNOWN	None	None	None	None	95912669	95913116	1	None	None
3	None	ENSG00000178550	ENST00000325090	pseudogene	NOVEL	None	None	None	None	45266617	45267519	-1	None	None
1	RNU1-13P	ENSG00000238825	ENST00000384499	snRNA	KNOWN	None	10138	None	None	143673129	143673290	-1	RNU1P6	U1P1, U1.1
2	MIR562	ENSG00000207626	ENST00000384894	miRNA	KNOWN	None	32818	None	None	233037363	233037457	1	MIRN562	hsa-mir-562
11	None	ENSG00000255299	ENST00000531715	lincRNA	KNOWN	None	None	None	None	58265361	58270509	-1	None	None
11	None	ENSG00000255299	ENST00000528978	lincRNA	KNOWN	None	None	None	None	58265388	58273068	-1	None	None
11	None	ENSG00000255299	ENST00000527054	lincRNA	KNOWN	None	None	None	None	58265457	58273231	-1	None	None
15	None	ENSG00000259746	ENST00000559254	processed_pseudogene	KNOWN	None	None	None	None	91177957	91178265	1	None	None
4	None	ENSG00000250024	ENST00000508799	lincRNA	KNOWN	None	None	None	None	189911869	189923229	-1	None	None
7	None	ENSG00000220987	ENST00000408060	miRNA	NOVEL	None	None	None	None	95936072	95936172	-1	None	None
13	KL	ENSG00000133116	ENST00000487852	processed_transcript	KNOWN	None	6344	None	None	33590571	33638440	1	None	None
13	KL	ENSG00000133116	ENST00000380099	protein_coding	KNOWN	CCDS9347	6344	3039	1012	33590571	33640282	1	None	None
13	KL	ENSG00000133116	ENST00000426690	protein_coding	KNOWN	None	6344	729	242	33590207	33635665	1	None	None
12	ACSS3	ENSG00000111058	ENST00000549175	protein_coding	PUTATIVE	None	24723	280	92	81331594	81528742	1	None	FLJ21963
12	ACSS3	ENSG00000111058	ENST00000548058	protein_coding	KNOWN	CCDS9022	24723	2061	686	81470990	81650533	1	None	FLJ21963
12	ACSS3	ENSG00000111058	ENST00000261206	protein_coding	NOVEL	None	24723	2058	685	81471836	81649245	1	None	FLJ21963
12	ACSS3	ENSG00000111058	ENST00000548387	retained_intron	KNOWN	None	24723	None	None	81528574	81537281	1	None	FLJ21963
12	ACSS3	ENSG00000111058	ENST00000548324	protein_coding	KNOWN	None	24723	1107	368	81545430	81649582	1	None	FLJ21963
12	ACSS3	ENSG00000111058	ENST00000551745	retained_intron	KNOWN	None	24723	None	None	81568337	81593601	1	None	FLJ21963
12	ACSS3	ENSG00000111058	ENST00000546664	nonsense_mediated_decay	KNOWN	None	24723	226	74	81568611	81613810	1	None	FLJ21963
19	RN7SL718P	ENSG00000264423	ENST00000581254	misc_RNA	KNOWN	None	46734	None	None	41696852	41697134	-1	None	None
1	DNASE2B	ENSG00000137976	ENST00000370665	protein_coding	KNOWN	CCDS44167	28875	1086	361	84864215	84880701	1	None	DLAD
1	DNASE2B	ENSG00000137976	ENST00000370662	protein_coding	KNOWN	CCDS694	28875	462	153	84873913	84880691	1	None	DLAD
9	RN7SL151P	ENSG00000244230	ENST00000460537	misc_RNA	KNOWN	None	46167	None	None	21699313	21699569	1	None	None
7	RNU6-532P	ENSG00000207045	ENST00000384318	snRNA	KNOWN	None	47495	None	None	95959950	95960056	1	None	None
2	None	ENSG00000251485	ENST00000513620	processed_pseudogene	KNOWN	None	None	None	None	233207826	233208613	1	None	None
12	None	ENSG00000255817	ENST00000535806	antisense	KNOWN	None	None	None	None	64502543	64514269	-1	None	None
8	TMEM75	ENSG00000256655	ENST00000539634	protein_coding	KNOWN	None	32295	417	138	128959126	128960591	-1	None	FLJ36105
4	None	ENSG00000251310	ENST00000514966	lincRNA	KNOWN	None	None	None	None	190114254	190126031	1	None	None
19	None	ENSG00000269652	ENST00000598541	antisense	KNOWN	None	None	None	None	41727331	41727956	-1	None	None
9	None	ENSG00000266732	ENST00000582560	miRNA	NOVEL	None	None	None	None	21808057	21808123	-1	None	None
12	None	ENSG00000256817	ENST00000448968	processed_pseudogene	KNOWN	None	None	None	None	9308477	9308968	-1	None	None
7	RNU6-364P	ENSG00000207115	ENST00000384387	snRNA	KNOWN	None	47327	None	None	95970452	95970558	1	None	None
6	None	ENSG00000242486	ENST00000417315	lincRNA	KNOWN	None	None	None	None	98155635	98180588	1	None	None
15	None	ENSG00000245479	ENST00000500496	sense_overlapping	KNOWN	None	None	None	None	91203465	91208198	1	None	None
15	None	ENSG00000245479	ENST00000559473	sense_overlapping	KNOWN	None	None	None	None	91203970	91207917	1	None	None
11	None	ENSG00000256745	ENST00000397300	processed_pseudogene	KNOWN	None	None	None	None	93921615	93922163	-1	None	None
9	TUBB8P1	ENSG00000229298	ENST00000447235	processed_pseudogene	KNOWN	None	42182	None	None	21811620	21812346	-1	None	None
4	None	ENSG00000249877	ENST00000504057	lincRNA	KNOWN	None	None	None	None	190209831	190212490	-1	None	None
12	None	ENSG00000258220	ENST00000548512	lincRNA	KNOWN	None	None	None	None	78720460	78753526	-1	None	None
7	RNU7-188P	ENSG00000252872	ENST00000517063	snRNA	KNOWN	None	45722	None	None	96007169	96007232	1	None	None
2	ECEL1P3	ENSG00000230122	ENST00000427961	unprocessed_pseudogene	KNOWN	None	14018	None	None	233214464	233216019	-1	None	None
7	None	ENSG00000238385	ENST00000459512	miRNA	NOVEL	None	None	None	None	96097643	96097734	-1	None	None
6	None	ENSG00000226207	ENST00000432438	lincRNA	KNOWN	None	None	None	None	98158829	98165073	-1	None	None
1	None	ENSG00000231734	ENST00000432384	lincRNA	KNOWN	None	None	None	None	143687097	143705763	1	None	None
1	None	ENSG00000231734	ENST00000457439	lincRNA	KNOWN	None	None	None	None	143687152	143713485	1	None	None
1	None	ENSG00000231734	ENST00000426533	lincRNA	KNOWN	None	None	None	None	143687158	143712593	1	None	None
1	None	ENSG00000231734	ENST00000411954	lincRNA	KNOWN	None	None	None	None	143687243	143716941	1	None	None
1	None	ENSG00000231734	ENST00000455004	lincRNA	KNOWN	None	None	None	None	143699873	143713999	1	None	None
1	None	ENSG00000231734	ENST00000417260	lincRNA	KNOWN	None	None	None	None	143699873	143720401	1	None	None
11	ST3GAL4	ENSG00000110080	ENST00000534733	nonsense_mediated_decay	KNOWN	None	10864	142	46	126225535	126276921	1	CGS23, SIAT4, NANTA3, SIAT4C	STZ, SAT3, FLJ11867
11	ST3GAL4	ENSG00000110080	ENST00000227495	protein_coding	PUTATIVE	CCDS8474	10864	990	329	126225555	126284499	1	CGS23, SIAT4, NANTA3, SIAT4C	STZ, SAT3, FLJ11867
11	ST3GAL4	ENSG00000110080	ENST00000531217	nonsense_mediated_decay	KNOWN	None	10864	381	126	126225555	126284503	1	CGS23, SIAT4, NANTA3, SIAT4C	STZ, SAT3, FLJ11867
11	ST3GAL4	ENSG00000110080	ENST00000444328	protein_coding	KNOWN	CCDS58193	10864	1002	333	126225579	126284533	1	CGS23, SIAT4, NANTA3, SIAT4C	STZ, SAT3, FLJ11867
11	ST3GAL4	ENSG00000110080	ENST00000530591	protein_coding	KNOWN	CCDS8474	10864	990	329	126225789	126283942	1	CGS23, SIAT4, NANTA3, SIAT4C	STZ, SAT3, FLJ11867
11	ST3GAL4	ENSG00000110080	ENST00000534083	protein_coding	KNOWN	CCDS58193	10864	1002	333	126225869	126284470	1	CGS23, SIAT4, NANTA3, SIAT4C	STZ, SAT3, FLJ11867
11	ST3GAL4	ENSG00000110080	ENST00000528605	retained_intron	KNOWN	None	10864	None	None	126244915	126278699	1	CGS23, SIAT4, NANTA3, SIAT4C	STZ, SAT3, FLJ11867
11	ST3GAL4	ENSG00000110080	ENST00000526311	protein_coding	PUTATIVE	None	10864	334	110	126262070	126277522	1	CGS23, SIAT4, NANTA3, SIAT4C	STZ, SAT3, FLJ11867
11	ST3GAL4	ENSG00000110080	ENST00000528858	protein_coding	PUTATIVE	None	10864	627	208	126263123	126278391	1	CGS23, SIAT4, NANTA3, SIAT4C	STZ, SAT3, FLJ11867
11	ST3GAL4	ENSG00000110080	ENST00000534452	protein_coding	PUTATIVE	None	10864	280	92	126273113	126277244	1	CGS23, SIAT4, NANTA3, SIAT4C	STZ, SAT3, FLJ11867
11	ST3GAL4	ENSG00000110080	ENST00000392669	protein_coding	PUTATIVE	CCDS58193	10864	1002	333	126273311	126284533	1	CGS23, SIAT4, NANTA3, SIAT4C	STZ, SAT3, FLJ11867
11	ST3GAL4	ENSG00000110080	ENST00000526756	processed_transcript	KNOWN	None	10864	None	None	126275482	126278393	1	CGS23, SIAT4, NANTA3, SIAT4C	STZ, SAT3, FLJ11867
11	ST3GAL4	ENSG00000110080	ENST00000526727	protein_coding	PUTATIVE	CCDS58193	10864	1002	333	126275677	126284533	1	CGS23, SIAT4, NANTA3, SIAT4C	STZ, SAT3, FLJ11867
11	ST3GAL4	ENSG00000110080	ENST00000449406	protein_coding	PUTATIVE	None	10864	969	322	126276082	126284501	1	CGS23, SIAT4, NANTA3, SIAT4C	STZ, SAT3, FLJ11867
11	ST3GAL4	ENSG00000110080	ENST00000532243	protein_coding	KNOWN	CCDS58194	10864	999	332	126276090	126284503	1	CGS23, SIAT4, NANTA3, SIAT4C	STZ, SAT3, FLJ11867
11	ST3GAL4	ENSG00000110080	ENST00000534457	protein_coding	PUTATIVE	None	10864	987	328	126276355	126283942	1	CGS23, SIAT4, NANTA3, SIAT4C	STZ, SAT3, FLJ11867
11	ST3GAL4	ENSG00000110080	ENST00000524834	processed_transcript	KNOWN	None	10864	None	None	126276398	126310239	1	CGS23, SIAT4, NANTA3, SIAT4C	STZ, SAT3, FLJ11867
11	ST3GAL4	ENSG00000110080	ENST00000524860	protein_coding	PUTATIVE	None	10864	460	152	126276677	126283892	1	CGS23, SIAT4, NANTA3, SIAT4C	STZ, SAT3, FLJ11867
11	ST3GAL4	ENSG00000110080	ENST00000533826	retained_intron	KNOWN	None	10864	None	None	126278345	126284449	1	CGS23, SIAT4, NANTA3, SIAT4C	STZ, SAT3, FLJ11867
11	ST3GAL4	ENSG00000110080	ENST00000356132	protein_coding	KNOWN	None	10864	1020	339	126225587	126284513	1	CGS23, SIAT4, NANTA3, SIAT4C	STZ, SAT3, FLJ11867
3	None	ENSG00000261758	ENST00000564748	antisense	KNOWN	None	None	None	None	136471472	136474622	1	None	None
12	RNU4ATAC12P	ENSG00000252269	ENST00000516460	snRNA	KNOWN	None	46898	None	None	133571776	133571888	-1	None	None
4	HSP90AA4P	ENSG00000205100	ENST00000506915	transcribed_processed_pseudogene	KNOWN	None	5255	None	None	190394119	190396346	1	HSPCAL2	None
4	HSP90AA4P	ENSG00000205100	ENST00000378770	processed_transcript	KNOWN	None	5255	None	None	190394301	190396344	1	HSPCAL2	None
7	RNY4	ENSG00000252316	ENST00000516507	misc_RNA	KNOWN	None	10244	None	None	148660407	148660502	1	None	HY4
7	None	ENSG00000272377	ENST00000606019	lincRNA	KNOWN	None	None	None	None	96251318	96293650	-1	None	None
6	MYLK4	ENSG00000145949	ENST00000274643	protein_coding	KNOWN	CCDS34330	27972	1167	388	2663871	2751200	-1	None	SgK085
6	MYLK4	ENSG00000145949	ENST00000268446	protein_coding	KNOWN	None	27972	1167	388	2663863	2751154	-1	None	SgK085
9	None	ENSG00000265194	ENST00000581788	antisense	KNOWN	None	None	None	None	21858909	21861925	-1	None	None
12	None	ENSG00000255629	ENST00000536455	antisense	KNOWN	None	None	None	None	64540168	64541637	-1	None	None
7	None	ENSG00000234722	ENST00000454441	lincRNA	KNOWN	None	None	None	None	153097005	153109319	-1	None	None
7	None	ENSG00000234722	ENST00000453187	lincRNA	KNOWN	None	None	None	None	153102578	153111021	-1	None	None
7	None	ENSG00000234722	ENST00000416982	lincRNA	KNOWN	None	None	None	None	153108319	153111048	-1	None	None
8	RN7SL178P	ENSG00000263616	ENST00000582930	misc_RNA	KNOWN	None	46194	None	None	8439864	8440165	-1	None	None
13	None	ENSG00000239050	ENST00000459108	miRNA	NOVEL	None	None	None	None	107627286	107627374	-1	None	None
HG7_PATCH	TRBV1	ENSG00000260168	ENST00000567768	TR_V_pseudogene	KNOWN	None	12176	None	None	141999017	141999300	1	None	TCRBV27S1P, TCRBV1S1P
11	None	ENSG00000255375	ENST00000525133	lincRNA	KNOWN	None	None	None	None	32154245	32165125	1	None	None
2	None	ENSG00000224516	ENST00000441266	antisense	KNOWN	None	None	None	None	233244345	233246384	-1	None	None
2	None	ENSG00000224516	ENST00000439072	antisense	KNOWN	None	None	None	None	233244469	233245747	-1	None	None
8	None	ENSG00000264445	ENST00000577242	miRNA	NOVEL	None	None	None	None	8490974	8491058	1	None	None
15	None	ENSG00000200677	ENST00000363807	snoRNA	NOVEL	None	None	None	None	91298473	91298542	-1	None	None
13	None	ENSG00000221316	ENST00000408389	miRNA	NOVEL	None	None	None	None	107773381	107773471	1	None	None
10	None	ENSG00000233547	ENST00000369391	antisense	KNOWN	None	None	None	None	114710405	114711634	-1	None	None
12	None	ENSG00000247498	ENST00000545914	antisense	KNOWN	None	None	None	None	13080660	13133241	1	None	None
12	None	ENSG00000247498	ENST00000540198	antisense	KNOWN	None	None	None	None	13080661	13105684	1	None	None
12	None	ENSG00000247498	ENST00000543515	antisense	KNOWN	None	None	None	None	13080692	13133496	1	None	None
12	None	ENSG00000247498	ENST00000542078	antisense	KNOWN	None	None	None	None	13080696	13136747	1	None	None
12	None	ENSG00000247498	ENST00000536029	antisense	KNOWN	None	None	None	None	13080698	13133028	1	None	None
12	None	ENSG00000247498	ENST00000394742	antisense	KNOWN	None	None	None	None	13100085	13106891	1	None	None
12	None	ENSG00000247498	ENST00000538231	antisense	KNOWN	None	None	None	None	13100099	13101511	1	None	None
12	None	ENSG00000247498	ENST00000499948	antisense	KNOWN	None	None	None	None	13132771	13137579	1	None	None
3	None	ENSG00000242968	ENST00000459808	processed_pseudogene	KNOWN	None	None	None	None	136527393	136528465	-1	None	None
8	None	ENSG00000246145	ENST00000499642	lincRNA	KNOWN	None	None	None	None	67331824	67341212	-1	None	None
8	GSDMC	ENSG00000147697	ENST00000522273	retained_intron	KNOWN	None	7151	None	None	130760442	130765132	-1	MLZE	None
8	GSDMC	ENSG00000147697	ENST00000276708	protein_coding	KNOWN	CCDS6360	7151	1527	508	130760442	130799134	-1	MLZE	None
8	GSDMC	ENSG00000147697	ENST00000521365	retained_intron	KNOWN	None	7151	None	None	130763954	130765003	-1	MLZE	None
15	None	ENSG00000259704	ENST00000558221	sense_overlapping	KNOWN	None	None	None	None	91382954	91384608	1	None	None
8	None	ENSG00000176305	ENST00000389800	pseudogene	NOVEL	None	None	None	None	8559666	8561616	1	None	None
7	RNY3	ENSG00000202354	ENST00000365484	misc_RNA	KNOWN	None	10243	None	None	148680847	148680948	1	None	hY3
HG7_PATCH	TRBV3-2	ENSG00000260849	ENST00000569503	TR_V_pseudogene	KNOWN	None	12213	None	None	142059022	142059481	1	None	TRBV32, TCRBV3S2, TCRBV9S2A2PT
13	None	ENSG00000201847	ENST00000364977	snoRNA	NOVEL	None	None	None	None	107973243	107973311	-1	None	None
7	MARK2P10	ENSG00000227284	ENST00000454959	processed_pseudogene	KNOWN	None	39801	None	None	96487494	96488930	1	None	None
14	IGHV3-19	ENSG00000253883	ENST00000521488	IG_V_pseudogene	KNOWN	None	5584	None	None	106653371	106653661	-1	None	None
13	MIR1267	ENSG00000221650	ENST00000408723	miRNA	KNOWN	None	35335	None	None	108183519	108183596	-1	MIRN1267	hsa-mir-1267
6	ASF1A	ENSG00000111875	ENST00000229595	protein_coding	KNOWN	CCDS47469	20995	615	204	119215384	119230332	1	None	DKFZP547E2110, CIA
6	ASF1A	ENSG00000111875	ENST00000511766	retained_intron	KNOWN	None	20995	None	None	119215385	119222201	1	None	DKFZP547E2110, CIA
12	None	ENSG00000256150	ENST00000540093	lincRNA	KNOWN	None	None	None	None	2851792	2881074	-1	None	None
11	MRPS36P4	ENSG00000255231	ENST00000534436	processed_pseudogene	KNOWN	None	29774	None	None	112079324	112079621	1	None	None
15	RN7SL363P	ENSG00000241869	ENST00000482412	misc_RNA	KNOWN	None	46379	None	None	91399167	91399437	-1	None	None
8	None	ENSG00000253623	ENST00000520029	processed_pseudogene	KNOWN	None	None	None	None	67392883	67393721	1	None	None
7	RN7SL252P	ENSG00000244318	ENST00000496274	misc_RNA	KNOWN	None	46268	None	None	96569382	96569676	-1	None	None
11	None	ENSG00000250519	ENST00000506309	lincRNA	KNOWN	None	None	None	None	93971316	94012195	1	None	None
11	None	ENSG00000250519	ENST00000515097	lincRNA	KNOWN	None	None	None	None	93971316	94012372	1	None	None
14	None	ENSG00000258188	ENST00000548109	lincRNA	KNOWN	None	None	None	None	19812176	19859970	1	None	None
13	None	ENSG00000221473	ENST00000408546	miRNA	KNOWN	None	None	None	None	108288379	108288464	1	None	None
6	None	ENSG00000271860	ENST00000607823	lincRNA	KNOWN	None	None	None	None	98264585	98847748	1	None	None
6	None	ENSG00000271860	ENST00000606913	lincRNA	KNOWN	None	None	None	None	98333377	98846739	1	None	None
6	None	ENSG00000271860	ENST00000607032	lincRNA	KNOWN	None	None	None	None	98386665	98846647	1	None	None
12	None	ENSG00000239397	ENST00000480555	processed_pseudogene	KNOWN	None	None	None	None	46397821	46398468	-1	None	None
HG7_PATCH	TRBV8-1	ENSG00000260925	ENST00000562113	TR_V_pseudogene	KNOWN	None	12244	None	None	142080131	142080409	1	None	TRBV81, TCRBV30S1P, TCRBV8S1P
2	ECEL1P2	ENSG00000244280	ENST00000461596	processed_transcript	PUTATIVE	None	14019	None	None	233250460	233251754	-1	None	ECEL2
2	ECEL1P2	ENSG00000244280	ENST00000465689	transcribed_unprocessed_pseudogene	KNOWN	None	14019	None	None	233251411	233252167	-1	None	ECEL2
8	None	ENSG00000272172	ENST00000607376	antisense	KNOWN	None	None	None	None	144372569	144372791	-1	None	None
15	MRPS15P1	ENSG00000259186	ENST00000559052	processed_pseudogene	KNOWN	None	29730	None	None	73775537	73776284	-1	None	None
12	None	ENSG00000246394	ENST00000592296	lincRNA	KNOWN	None	None	None	None	133606975	133613497	-1	None	None
12	None	ENSG00000246394	ENST00000443154	lincRNA	KNOWN	None	None	None	None	133609245	133613808	-1	None	None
7	RNY1	ENSG00000201098	ENST00000364228	misc_RNA	KNOWN	None	10242	None	None	148684228	148684340	-1	None	hY1
13	FAM155A-IT1	ENSG00000227248	ENST00000449551	sense_intronic	KNOWN	None	41503	None	None	108440690	108487799	-1	None	None
11	RPS12P21	ENSG00000243930	ENST00000471647	processed_pseudogene	KNOWN	None	36464	None	None	112089049	112089443	1	None	None
15	None	ENSG00000259878	ENST00000565136	lincRNA	KNOWN	None	None	None	None	62522583	62524094	-1	None	None
14	None	ENSG00000271201	ENST00000605005	lincRNA	KNOWN	None	None	None	None	106663246	106665214	1	None	None
X	None	ENSG00000226613	ENST00000450175	unprocessed_pseudogene	KNOWN	None	None	None	None	101514031	101516680	1	None	None
17	COTL1P1	ENSG00000229749	ENST00000422309	processed_pseudogene	KNOWN	None	2086	None	None	16757249	16757623	1	CLPSMCR	None
HG7_PATCH	TRBV5-2	ENSG00000259951	ENST00000568941	TR_V_pseudogene	KNOWN	None	12219	None	None	142094141	142094414	1	None	TRBV52, TCRBV31S1, TCRBV5S2P
13	RNA5SP39	ENSG00000223177	ENST00000411245	rRNA	KNOWN	None	42615	None	None	108953560	108953679	-1	RN5S39	None
12	RNU6-1009P	ENSG00000212298	ENST00000390996	snRNA	KNOWN	None	47972	None	None	64598573	64598679	1	None	None
15	None	ENSG00000260469	ENST00000562031	lincRNA	KNOWN	None	None	None	None	74060555	74061978	1	None	None
16	None	ENSG00000261507	ENST00000569199	lincRNA	KNOWN	None	None	None	None	33217752	33231583	-1	None	None
6	OGFRL1	ENSG00000119900	ENST00000370435	protein_coding	KNOWN	CCDS34482	21378	1356	451	71998506	72018653	1	None	dJ331H24.1
6	OGFRL1	ENSG00000119900	ENST00000467503	processed_transcript	KNOWN	None	21378	None	None	72001065	72003315	1	None	dJ331H24.1
2	None	ENSG00000204121	ENST00000373592	unprocessed_pseudogene	KNOWN	None	None	None	None	233280528	233284526	-1	None	None
3	None	ENSG00000202268	ENST00000365398	snoRNA	NOVEL	None	None	None	None	45296902	45297112	-1	None	None
13	HCFC2P1	ENSG00000232087	ENST00000392864	processed_pseudogene	KNOWN	None	39815	None	None	109132574	109134165	1	None	None
8	RNU6-1324P	ENSG00000206949	ENST00000384222	snRNA	KNOWN	None	48287	None	None	67413440	67413546	-1	None	None
7	DLX6-AS1	ENSG00000231764	ENST00000430027	antisense	KNOWN	None	37151	None	None	96594839	96643377	-1	NCRNA00212	FLJ34048, Evf-2
7	DLX6-AS1	ENSG00000231764	ENST00000431497	antisense	KNOWN	None	37151	None	None	96594840	96633610	-1	NCRNA00212	FLJ34048, Evf-2
7	DLX6-AS1	ENSG00000231764	ENST00000605417	antisense	KNOWN	None	37151	None	None	96594840	96643337	-1	NCRNA00212	FLJ34048, Evf-2
7	DLX6-AS1	ENSG00000231764	ENST00000437331	antisense	KNOWN	None	37151	None	None	96594840	96643372	-1	NCRNA00212	FLJ34048, Evf-2
7	DLX6-AS1	ENSG00000231764	ENST00000452769	antisense	KNOWN	None	37151	None	None	96594840	96643376	-1	NCRNA00212	FLJ34048, Evf-2
7	DLX6-AS1	ENSG00000231764	ENST00000430404	antisense	KNOWN	None	37151	None	None	96597841	96641194	-1	NCRNA00212	FLJ34048, Evf-2
7	DLX6-AS1	ENSG00000231764	ENST00000458352	antisense	KNOWN	None	37151	None	None	96607780	96641361	-1	NCRNA00212	FLJ34048, Evf-2
7	DLX6-AS1	ENSG00000231764	ENST00000437541	antisense	KNOWN	None	37151	None	None	96608393	96641194	-1	NCRNA00212	FLJ34048, Evf-2
19	MED26	ENSG00000105085	ENST00000597244	retained_intron	KNOWN	None	2376	None	None	16685718	16689588	-1	CRSP7	CRSP70
19	MED26	ENSG00000105085	ENST00000263390	protein_coding	KNOWN	CCDS12347	2376	1803	600	16685730	16739017	-1	CRSP7	CRSP70
19	MED26	ENSG00000105085	ENST00000598492	protein_coding	PUTATIVE	None	2376	332	109	16688228	16698412	-1	CRSP7	CRSP70
19	MED26	ENSG00000105085	ENST00000598608	protein_coding	PUTATIVE	None	2376	639	212	16688368	16739873	-1	CRSP7	CRSP70
19	MED26	ENSG00000105085	ENST00000601478	protein_coding	PUTATIVE	None	2376	164	53	16688396	16735472	-1	CRSP7	CRSP70
19	MED26	ENSG00000105085	ENST00000600060	protein_coding	PUTATIVE	None	2376	248	81	16689045	16738984	-1	CRSP7	CRSP70
11	RPS6P16	ENSG00000243250	ENST00000479691	processed_pseudogene	KNOWN	None	35668	None	None	112106094	112106748	-1	None	None
11	WT1-AS	ENSG00000183242	ENST00000494911	antisense	KNOWN	None	18135	None	None	32457064	32460253	1	WIT1	WIT-1, WT1AS, WT1-AS1
11	WT1-AS	ENSG00000183242	ENST00000395900	antisense	KNOWN	None	18135	None	None	32457125	32462950	1	WIT1	WIT-1, WT1AS, WT1-AS1
11	WT1-AS	ENSG00000183242	ENST00000459866	antisense	KNOWN	None	18135	None	None	32457322	32458597	1	WIT1	WIT-1, WT1AS, WT1-AS1
11	WT1-AS	ENSG00000183242	ENST00000525436	antisense	KNOWN	None	18135	None	None	32457347	32480315	1	WIT1	WIT-1, WT1AS, WT1-AS1
11	WT1-AS	ENSG00000183242	ENST00000478367	antisense	KNOWN	None	18135	None	None	32459169	32459872	1	WIT1	WIT-1, WT1AS, WT1-AS1
11	WT1-AS	ENSG00000183242	ENST00000442957	antisense	KNOWN	None	18135	None	None	32459916	32460678	1	WIT1	WIT-1, WT1AS, WT1-AS1
11	WT1-AS	ENSG00000183242	ENST00000426618	antisense	KNOWN	None	18135	None	None	32459475	32461618	1	WIT1	WIT-1, WT1AS, WT1-AS1
3	None	ENSG00000232830	ENST00000468519	processed_pseudogene	KNOWN	None	None	None	None	101133072	101133477	1	None	None
3	None	ENSG00000232830	ENST00000437254	processed_pseudogene	KNOWN	None	None	None	None	101133091	101133477	1	None	None
14	None	ENSG00000221180	ENST00000408253	miRNA	NOVEL	None	None	None	None	106663421	106663529	1	None	None
16	None	ENSG00000263337	ENST00000572906	processed_pseudogene	KNOWN	None	None	None	None	33246423	33246597	1	None	None
8	None	ENSG00000201365	ENST00000364495	misc_RNA	NOVEL	None	None	None	None	67565704	67565811	1	None	None
3	LARS2-AS1	ENSG00000232455	ENST00000442534	antisense	KNOWN	None	40796	None	None	45525466	45551037	-1	None	None
HG281_PATCH	OR4C13	ENSG00000259991	ENST00000563758	protein_coding	KNOWN	None	15169	930	309	49973943	49974971	1	None	None
6	EPB41L2	ENSG00000079819	ENST00000452150	retained_intron	KNOWN	None	3379	None	None	131160487	131190047	-1	None	4.1-G
6	EPB41L2	ENSG00000079819	ENST00000531410	protein_coding	NOVEL	None	3379	381	126	131160487	131203022	-1	None	4.1-G
6	EPB41L2	ENSG00000079819	ENST00000528282	protein_coding	NOVEL	CCDS59037	3379	2244	747	131160487	131321907	-1	None	4.1-G
6	EPB41L2	ENSG00000079819	ENST00000530481	protein_coding	NOVEL	CCDS56450	3379	2559	852	131160487	131384365	-1	None	4.1-G
6	EPB41L2	ENSG00000079819	ENST00000445890	protein_coding	NOVEL	CCDS59037	3379	2244	747	131160487	131384443	-1	None	4.1-G
6	EPB41L2	ENSG00000079819	ENST00000337057	protein_coding	KNOWN	CCDS5141	3379	3018	1005	131160487	131384462	-1	None	4.1-G
6	EPB41L2	ENSG00000079819	ENST00000530757	protein_coding	NOVEL	None	3379	606	201	131160490	131204234	-1	None	4.1-G
6	EPB41L2	ENSG00000079819	ENST00000392427	protein_coding	KNOWN	CCDS47474	3379	2022	673	131160490	131384373	-1	None	4.1-G
6	EPB41L2	ENSG00000079819	ENST00000368128	protein_coding	KNOWN	CCDS5141	3379	3018	1005	131160492	131384458	-1	None	4.1-G
6	EPB41L2	ENSG00000079819	ENST00000527411	protein_coding	NOVEL	None	3379	2808	935	131160493	131384398	-1	None	4.1-G
6	EPB41L2	ENSG00000079819	ENST00000524581	protein_coding	NOVEL	None	3379	1152	383	131161275	131203203	-1	None	4.1-G
6	EPB41L2	ENSG00000079819	ENST00000525271	protein_coding	KNOWN	CCDS47474	3379	2022	673	131161322	131384391	-1	None	4.1-G
6	EPB41L2	ENSG00000079819	ENST00000526782	retained_intron	KNOWN	None	3379	None	None	131161513	131179468	-1	None	4.1-G
6	EPB41L2	ENSG00000079819	ENST00000368126	retained_intron	KNOWN	None	3379	None	None	131161516	131186973	-1	None	4.1-G
6	EPB41L2	ENSG00000079819	ENST00000525193	protein_coding	NOVEL	None	3379	2121	706	131179276	131277625	-1	None	4.1-G
6	EPB41L2	ENSG00000079819	ENST00000527659	protein_coding	NOVEL	None	3379	2436	811	131179276	131277625	-1	None	4.1-G
6	EPB41L2	ENSG00000079819	ENST00000529208	protein_coding	NOVEL	None	3379	2808	935	131179276	131291623	-1	None	4.1-G
6	EPB41L2	ENSG00000079819	ENST00000527017	protein_coding	NOVEL	None	3379	721	239	131179365	131201629	-1	None	4.1-G
6	EPB41L2	ENSG00000079819	ENST00000527423	protein_coding	NOVEL	None	3379	804	267	131190703	131201892	-1	None	4.1-G
6	EPB41L2	ENSG00000079819	ENST00000456097	protein_coding	NOVEL	None	3379	1138	378	131190799	131211564	-1	None	4.1-G
6	EPB41L2	ENSG00000079819	ENST00000533912	processed_transcript	KNOWN	None	3379	None	None	131190992	131199354	-1	None	4.1-G
6	EPB41L2	ENSG00000079819	ENST00000525198	protein_coding	NOVEL	None	3379	674	223	131190992	131202041	-1	None	4.1-G
6	EPB41L2	ENSG00000079819	ENST00000534166	retained_intron	KNOWN	None	3379	None	None	131191217	131199765	-1	None	4.1-G
6	EPB41L2	ENSG00000079819	ENST00000530148	processed_transcript	KNOWN	None	3379	None	None	131220634	131291558	-1	None	4.1-G
6	EPB41L2	ENSG00000079819	ENST00000528179	processed_transcript	KNOWN	None	3379	None	None	131220693	131384385	-1	None	4.1-G
6	EPB41L2	ENSG00000079819	ENST00000526333	processed_transcript	KNOWN	None	3379	None	None	131220715	131384383	-1	None	4.1-G
6	EPB41L2	ENSG00000079819	ENST00000529709	protein_coding	KNOWN	None	3379	537	178	131276413	131334735	-1	None	4.1-G
6	EPB41L2	ENSG00000079819	ENST00000532499	protein_coding	KNOWN	None	3379	488	161	131277138	131335331	-1	None	4.1-G
6	EPB41L2	ENSG00000079819	ENST00000526983	protein_coding	KNOWN	None	3379	461	152	131277165	131336982	-1	None	4.1-G
6	EPB41L2	ENSG00000079819	ENST00000531356	protein_coding	KNOWN	None	3379	382	126	131277244	131299936	-1	None	4.1-G
6	EPB41L2	ENSG00000079819	ENST00000530707	protein_coding	KNOWN	None	3379	354	117	131277272	131383716	-1	None	4.1-G
15	None	ENSG00000221141	ENST00000408214	miRNA	NOVEL	None	None	None	None	62535565	62535647	-1	None	None
8	None	ENSG00000253401	ENST00000520205	processed_pseudogene	KNOWN	None	None	None	None	88587826	88588736	-1	None	None
HSCHR6_MHC_COX	DOM3Z	ENSG00000225682	ENST00000477150	processed_transcript	KNOWN	None	2992	None	None	31925139	31926186	-1	DOM3Z	None
HSCHR6_MHC_COX	DOM3Z	ENSG00000225682	ENST00000474901	retained_intron	KNOWN	None	2992	None	None	31925139	31927012	-1	DOM3Z	None
HSCHR6_MHC_COX	DOM3Z	ENSG00000225682	ENST00000469210	retained_intron	KNOWN	None	2992	None	None	31925139	31927014	-1	DOM3Z	None
HSCHR6_MHC_COX	DOM3Z	ENSG00000225682	ENST00000427690	protein_coding	KNOWN	None	2992	1191	396	31925139	31927300	-1	DOM3Z	None
HSCHR6_MHC_COX	DOM3Z	ENSG00000225682	ENST00000482729	retained_intron	KNOWN	None	2992	None	None	31925139	31927424	-1	DOM3Z	None
HSCHR6_MHC_COX	DOM3Z	ENSG00000225682	ENST00000426498	protein_coding	KNOWN	None	2992	1191	396	31925139	31927465	-1	DOM3Z	None
HSCHR6_MHC_COX	DOM3Z	ENSG00000225682	ENST00000463797	retained_intron	KNOWN	None	2992	None	None	31925139	31927538	-1	DOM3Z	None
HSCHR6_MHC_COX	DOM3Z	ENSG00000225682	ENST00000482682	retained_intron	KNOWN	None	2992	None	None	31925139	31927567	-1	DOM3Z	None
HSCHR6_MHC_COX	DOM3Z	ENSG00000225682	ENST00000474276	retained_intron	KNOWN	None	2992	None	None	31925139	31927581	-1	DOM3Z	None
HSCHR6_MHC_COX	DOM3Z	ENSG00000225682	ENST00000453742	protein_coding	KNOWN	None	2992	1191	396	31925139	31927621	-1	DOM3Z	None
HSCHR6_MHC_COX	DOM3Z	ENSG00000225682	ENST00000497174	processed_transcript	KNOWN	None	2992	None	None	31925713	31927465	-1	DOM3Z	None
HSCHR6_MHC_COX	DOM3Z	ENSG00000225682	ENST00000496516	processed_transcript	KNOWN	None	2992	None	None	31925940	31927427	-1	DOM3Z	None
HSCHR6_MHC_COX	DOM3Z	ENSG00000225682	ENST00000492473	processed_transcript	KNOWN	None	2992	None	None	31925972	31927318	-1	DOM3Z	None
HSCHR6_MHC_COX	DOM3Z	ENSG00000225682	ENST00000469008	processed_transcript	KNOWN	None	2992	None	None	31926231	31927338	-1	DOM3Z	None
16	None	ENSG00000261009	ENST00000565415	lincRNA	KNOWN	None	None	None	None	33271714	33272594	-1	None	None
16	None	ENSG00000261009	ENST00000570288	lincRNA	KNOWN	None	None	None	None	33271714	33274156	-1	None	None
8	PTTG3P	ENSG00000213005	ENST00000521862	processed_pseudogene	KNOWN	None	13422	None	None	67679635	67680240	-1	PTTG3	None
8	PTTG3P	ENSG00000213005	ENST00000391687	processed_pseudogene	KNOWN	None	13422	None	None	67679632	67680240	-1	PTTG3	None
2	UGT1A8	ENSG00000242366	ENST00000373450	protein_coding	KNOWN	CCDS33402	12540	1593	530	234526291	234681956	1	None	UGT1H
HG7_PATCH	TRBV8-2	ENSG00000260554	ENST00000565040	TR_V_pseudogene	KNOWN	None	12245	None	None	142107887	142108157	1	None	TRBV82, TCRBV32S1P
11	None	ENSG00000254801	ENST00000529105	processed_pseudogene	KNOWN	None	None	None	None	49092304	49092552	-1	None	None
12	None	ENSG00000258084	ENST00000552230	lincRNA	KNOWN	None	None	None	None	78746299	78876799	1	None	None
12	None	ENSG00000258084	ENST00000548963	lincRNA	KNOWN	None	None	None	None	78790387	78876589	1	None	None
14	IGHVII-20-1	ENSG00000253996	ENST00000520338	IG_V_pseudogene	KNOWN	None	5672	None	None	106669468	106669951	-1	None	IGHV(II)-20-1
13	MYO16-AS2	ENSG00000229938	ENST00000412809	antisense	KNOWN	None	39914	None	None	109753609	109754267	-1	None	None
2	None	ENSG00000237087	ENST00000437095	lincRNA	KNOWN	None	None	None	None	233285371	233286171	-1	None	None
12	RNU7-189P	ENSG00000238831	ENST00000459276	snRNA	KNOWN	None	45723	None	None	9362159	9362217	1	None	None
6	MIR2113	ENSG00000238367	ENST00000459007	miRNA	KNOWN	None	37058	None	None	98472407	98472497	1	None	hsa-mir-2113
3	RNU6-856P	ENSG00000252768	ENST00000516959	snRNA	KNOWN	None	47819	None	None	52585862	52585959	-1	None	None
5	None	ENSG00000248391	ENST00000506492	lincRNA	KNOWN	None	None	None	None	29380403	29396088	-1	None	None
5	None	ENSG00000248391	ENST00000507876	lincRNA	KNOWN	None	None	None	None	29383211	29390047	-1	None	None
8	None	ENSG00000251563	ENST00000508226	processed_pseudogene	KNOWN	None	None	None	None	88610690	88613862	-1	None	None
14	None	ENSG00000257749	ENST00000548443	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	19832617	19857070	-1	None	None
3	RNU6ATAC16P	ENSG00000221518	ENST00000408591	snRNA	KNOWN	None	46915	None	None	52594586	52594723	1	None	None
2	DIS3L2P1	ENSG00000223788	ENST00000509197	unprocessed_pseudogene	KNOWN	None	14021	None	None	233306744	233312128	1	FAM6B, DIS3L2P	None
15	None	ENSG00000260062	ENST00000562660	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	62545929	62562879	-1	None	None
15	None	ENSG00000260062	ENST00000567230	processed_transcript	KNOWN	None	None	None	None	62555443	62558483	-1	None	None
11	RNU6-1175P	ENSG00000202070	ENST00000365200	snRNA	KNOWN	None	48138	None	None	69921469	69921575	1	None	None
3	None	ENSG00000252787	ENST00000516978	snoRNA	NOVEL	None	None	None	None	52722898	52722977	1	None	None
HG281_PATCH	OR4C12	ENSG00000261383	ENST00000561558	protein_coding	KNOWN	None	15168	930	309	50003006	50004068	-1	None	None
11	None	ENSG00000215954	ENST00000401135	miRNA	NOVEL	None	None	None	None	112118553	112118647	1	None	None
17	APOH	ENSG00000091583	ENST00000205948	protein_coding	KNOWN	CCDS11663	616	1038	345	64208151	64225535	-1	B2G1	BG
17	APOH	ENSG00000091583	ENST00000585162	protein_coding	NOVEL	None	616	313	103	64208157	64216748	-1	B2G1	BG
17	APOH	ENSG00000091583	ENST00000581797	protein_coding	PUTATIVE	None	616	601	199	64212909	64224755	-1	B2G1	BG
17	APOH	ENSG00000091583	ENST00000577982	protein_coding	KNOWN	None	616	544	180	64216732	64252643	-1	B2G1	BG
11	None	ENSG00000255143	ENST00000530525	sense_overlapping	KNOWN	None	None	None	None	69975403	69995729	1	None	None
21	LINC00163	ENSG00000234880	ENST00000439088	lincRNA	KNOWN	None	33165	None	None	46409779	46413984	-1	C21orf134, NCRNA00163	NLC1-A, NLC1A
21	LINC00163	ENSG00000234880	ENST00000434081	lincRNA	KNOWN	None	33165	None	None	46409779	46414001	-1	C21orf134, NCRNA00163	NLC1-A, NLC1A
3	SNORD19	ENSG00000212493	ENST00000391191	snoRNA	KNOWN	None	32717	None	None	52723264	52723331	1	None	HBII-108
10	DPYSL4	ENSG00000151640	ENST00000338492	protein_coding	KNOWN	CCDS7665	3016	1719	572	134000404	134019280	1	None	ULIP4, DRP-4
10	DPYSL4	ENSG00000151640	ENST00000493927	processed_transcript	KNOWN	None	3016	None	None	134000482	134006336	1	None	ULIP4, DRP-4
10	DPYSL4	ENSG00000151640	ENST00000493882	processed_transcript	KNOWN	None	3016	None	None	134000563	134010397	1	None	ULIP4, DRP-4
10	DPYSL4	ENSG00000151640	ENST00000368627	protein_coding	KNOWN	None	3016	1239	412	134006264	134018739	1	None	ULIP4, DRP-4
10	DPYSL4	ENSG00000151640	ENST00000471544	processed_transcript	KNOWN	None	3016	None	None	134017057	134018411	1	None	ULIP4, DRP-4
10	DPYSL4	ENSG00000151640	ENST00000368629	protein_coding	KNOWN	None	3016	1239	412	134000404	134019266	1	None	ULIP4, DRP-4
11	ST13P10	ENSG00000213234	ENST00000526466	processed_pseudogene	KNOWN	None	38745	None	None	112138013	112139094	-1	None	None
11	ANO1-AS1	ENSG00000254902	ENST00000524987	antisense	KNOWN	None	40016	None	None	70033894	70034615	-1	None	None
2	MIR5001	ENSG00000266620	ENST00000580185	miRNA	KNOWN	None	43462	None	None	233415184	233415283	-1	None	hsa-mir-5001
12	A2MP1	ENSG00000256069	ENST00000543404	processed_transcript	KNOWN	None	8	None	None	9381129	9386803	-1	A2MP	None
12	A2MP1	ENSG00000256069	ENST00000566278	transcribed_unprocessed_pseudogene	KNOWN	None	8	None	None	9381972	9428413	-1	A2MP	None
12	A2MP1	ENSG00000256069	ENST00000545343	processed_transcript	KNOWN	None	8	None	None	9400252	9412153	-1	A2MP	None
12	A2MP1	ENSG00000256069	ENST00000544183	processed_transcript	KNOWN	None	8	None	None	9406181	9420709	-1	A2MP	None
11	None	ENSG00000265783	ENST00000578530	miRNA	NOVEL	None	None	None	None	58433274	58433366	1	None	None
5	UBL5P1	ENSG00000248418	ENST00000507979	processed_pseudogene	KNOWN	None	44639	None	None	29600783	29600975	1	None	None
12	ADAM1B	ENSG00000226469	ENST00000454683	unitary_pseudogene	KNOWN	None	44366	None	None	112364822	112366821	1	None	None
HG7_PATCH	TRBV12-1	ENSG00000260215	ENST00000565002	TR_V_pseudogene	KNOWN	None	12183	None	None	142136731	142137173	1	None	TRBV121, TCRBV12S1, TCRBV8S4P
1	MIR1302-2	ENSG00000243485	ENST00000473358	lincRNA	KNOWN	None	35294	None	None	29554	31097	1	MIRN1302-2	hsa-mir-1302-2
1	MIR1302-2	ENSG00000243485	ENST00000469289	lincRNA	KNOWN	None	35294	None	None	30267	31109	1	MIRN1302-2	hsa-mir-1302-2
1	MIR1302-2	ENSG00000243485	ENST00000607096	miRNA	KNOWN	None	35294	None	None	30366	30503	1	MIRN1302-2	hsa-mir-1302-2
1	MIR1302-9	ENSG00000243485	ENST00000473358	lincRNA	KNOWN	None	38218	None	None	29554	31097	1	None	hsa-mir-1302-9
1	MIR1302-9	ENSG00000243485	ENST00000469289	lincRNA	KNOWN	None	38218	None	None	30267	31109	1	None	hsa-mir-1302-9
1	MIR1302-9	ENSG00000243485	ENST00000607096	miRNA	KNOWN	None	38218	None	None	30366	30503	1	None	hsa-mir-1302-9
1	MIR1302-10	ENSG00000243485	ENST00000473358	lincRNA	KNOWN	None	38233	None	None	29554	31097	1	None	hsa-mir-1302-10
1	MIR1302-10	ENSG00000243485	ENST00000469289	lincRNA	KNOWN	None	38233	None	None	30267	31109	1	None	hsa-mir-1302-10
1	MIR1302-10	ENSG00000243485	ENST00000607096	miRNA	KNOWN	None	38233	None	None	30366	30503	1	None	hsa-mir-1302-10
1	MIR1302-11	ENSG00000243485	ENST00000473358	lincRNA	KNOWN	None	38246	None	None	29554	31097	1	None	hsa-mir-1302-11
1	MIR1302-11	ENSG00000243485	ENST00000469289	lincRNA	KNOWN	None	38246	None	None	30267	31109	1	None	hsa-mir-1302-11
1	MIR1302-11	ENSG00000243485	ENST00000607096	miRNA	KNOWN	None	38246	None	None	30366	30503	1	None	hsa-mir-1302-11
3	SNORD19B	ENSG00000238862	ENST00000459623	snoRNA	KNOWN	None	33570	None	None	52724760	52724843	1	None	None
12	None	ENSG00000258096	ENST00000550319	antisense	KNOWN	None	None	None	None	46765246	46767561	1	None	None
15	None	ENSG00000260624	ENST00000562667	antisense	KNOWN	None	None	None	None	74163291	74164348	-1	None	None
15	None	ENSG00000260624	ENST00000569137	antisense	KNOWN	None	None	None	None	74163292	74165707	-1	None	None
19	FOXA3	ENSG00000170608	ENST00000594297	protein_coding	PUTATIVE	None	5023	305	100	46367247	46375667	1	HNF3G	None
19	FOXA3	ENSG00000170608	ENST00000302177	protein_coding	KNOWN	CCDS12677	5023	1053	350	46367518	46377055	1	HNF3G	None
12	PTP4A1P2	ENSG00000255807	ENST00000546033	processed_pseudogene	KNOWN	None	41929	None	None	133610089	133610542	1	None	None
1	RNVU1-3	ENSG00000206694	ENST00000383967	snRNA	KNOWN	None	48311	None	None	143687359	143687519	1	None	vU1.3, RNU1-113
12	SLC25A3P2	ENSG00000258373	ENST00000547720	processed_pseudogene	KNOWN	None	43784	None	None	112430800	112431679	1	None	None
17	CEP95	ENSG00000258890	ENST00000556440	protein_coding	KNOWN	CCDS45763	25141	2466	821	62502706	62534060	1	CCDC45	DKFZp667E1824
17	CEP95	ENSG00000258890	ENST00000579860	nonsense_mediated_decay	KNOWN	None	25141	474	157	62502983	62518872	1	CCDC45	DKFZp667E1824
17	CEP95	ENSG00000258890	ENST00000580188	protein_coding	PUTATIVE	None	25141	170	55	62503093	62517592	1	CCDC45	DKFZp667E1824
17	CEP95	ENSG00000258890	ENST00000581056	protein_coding	PUTATIVE	None	25141	471	156	62503129	62510925	1	CCDC45	DKFZp667E1824
17	CEP95	ENSG00000258890	ENST00000553956	nonsense_mediated_decay	KNOWN	None	25141	300	99	62503203	62534064	1	CCDC45	DKFZp667E1824
17	CEP95	ENSG00000258890	ENST00000582724	protein_coding	PUTATIVE	None	25141	214	70	62506361	62512207	1	CCDC45	DKFZp667E1824
17	CEP95	ENSG00000258890	ENST00000577960	nonsense_mediated_decay	KNOWN	None	25141	223	73	62515439	62521952	1	CCDC45	DKFZp667E1824
17	CEP95	ENSG00000258890	ENST00000577476	processed_transcript	KNOWN	None	25141	None	None	62522193	62528046	1	CCDC45	DKFZp667E1824
17	CEP95	ENSG00000258890	ENST00000579117	retained_intron	KNOWN	None	25141	None	None	62522215	62527219	1	CCDC45	DKFZp667E1824
17	CEP95	ENSG00000258890	ENST00000583457	protein_coding	PUTATIVE	None	25141	404	133	62522284	62528082	1	CCDC45	DKFZp667E1824
17	CEP95	ENSG00000258890	ENST00000579478	retained_intron	KNOWN	None	25141	None	None	62523158	62527219	1	CCDC45	DKFZp667E1824
17	CEP95	ENSG00000258890	ENST00000584857	retained_intron	KNOWN	None	25141	None	None	62523253	62528203	1	CCDC45	DKFZp667E1824
17	CEP95	ENSG00000258890	ENST00000579637	retained_intron	KNOWN	None	25141	None	None	62525467	62528329	1	CCDC45	DKFZp667E1824
17	CEP95	ENSG00000258890	ENST00000582698	retained_intron	KNOWN	None	25141	None	None	62528819	62530761	1	CCDC45	DKFZp667E1824
17	CEP95	ENSG00000258890	ENST00000580285	retained_intron	KNOWN	None	25141	None	None	62529106	62534069	1	CCDC45	DKFZp667E1824
17	CEP95	ENSG00000258890	ENST00000581885	retained_intron	KNOWN	None	25141	None	None	62530134	62534066	1	CCDC45	DKFZp667E1824
17	CEP95	ENSG00000258890	ENST00000583676	protein_coding	PUTATIVE	None	25141	309	102	62532720	62538579	1	CCDC45	DKFZp667E1824
17	CEP95	ENSG00000258890	ENST00000581980	retained_intron	KNOWN	None	25141	None	None	62532977	62534064	1	CCDC45	DKFZp667E1824
17	CEP95	ENSG00000258890	ENST00000553412	protein_coding	KNOWN	None	25141	1974	657	62503153	62534060	1	CCDC45	DKFZp667E1824
20	RPN2	ENSG00000118705	ENST00000456102	protein_coding	PUTATIVE	None	10382	500	165	35806813	35838553	1	None	SWP1, RPNII, RIBIIR, RPN-II
20	RPN2	ENSG00000118705	ENST00000237530	protein_coding	KNOWN	CCDS13291	10382	1896	631	35807449	35870022	1	None	SWP1, RPNII, RIBIIR, RPN-II
20	RPN2	ENSG00000118705	ENST00000373622	protein_coding	NOVEL	CCDS46599	10382	1848	615	35807564	35870022	1	None	SWP1, RPNII, RIBIIR, RPN-II
20	RPN2	ENSG00000118705	ENST00000373632	protein_coding	NOVEL	None	10382	1034	343	35807721	35838568	1	None	SWP1, RPNII, RIBIIR, RPN-II
20	RPN2	ENSG00000118705	ENST00000462163	nonsense_mediated_decay	KNOWN	None	10382	486	161	35807733	35835846	1	None	SWP1, RPNII, RIBIIR, RPN-II
20	RPN2	ENSG00000118705	ENST00000437329	protein_coding	NOVEL	None	10382	417	138	35857037	35869821	1	None	SWP1, RPNII, RIBIIR, RPN-II
20	RPN2	ENSG00000118705	ENST00000456400	protein_coding	PUTATIVE	None	10382	442	146	35857081	35869832	1	None	SWP1, RPNII, RIBIIR, RPN-II
20	RPN2	ENSG00000118705	ENST00000470352	processed_transcript	PUTATIVE	None	10382	None	None	35858273	35869820	1	None	SWP1, RPNII, RIBIIR, RPN-II
HG281_PATCH	None	ENSG00000265973	ENST00000582128	unprocessed_pseudogene	KNOWN	None	None	None	None	49865040	49868085	-1	None	None
12	None	ENSG00000257879	ENST00000547569	processed_transcript	PUTATIVE	None	None	None	None	78820606	78836732	-1	None	None
1	None	ENSG00000226637	ENST00000442423	lincRNA	KNOWN	None	None	None	None	143719663	143721171	-1	None	None
16	RNU6-23P	ENSG00000200153	ENST00000363283	snRNA	KNOWN	None	34267	None	None	70479196	70479302	-1	RNU6-23	None
11	None	ENSG00000197254	ENST00000526692	processed_pseudogene	KNOWN	None	None	None	None	58452559	58459334	1	None	None
11	None	ENSG00000197254	ENST00000359225	pseudogene	KNOWN	None	None	None	None	58458942	58459341	1	None	None
10	ATRNL1	ENSG00000107518	ENST00000485327	processed_transcript	KNOWN	None	29063	None	None	116853124	116931125	1	None	KIAA0534, FLJ45344, ALP
10	ATRNL1	ENSG00000107518	ENST00000529665	processed_transcript	KNOWN	None	29063	None	None	116853124	116931132	1	None	KIAA0534, FLJ45344, ALP
10	ATRNL1	ENSG00000107518	ENST00000526946	protein_coding	PUTATIVE	None	29063	758	251	116853130	116919930	1	None	KIAA0534, FLJ45344, ALP
10	ATRNL1	ENSG00000107518	ENST00000527407	protein_coding	NOVEL	None	29063	1197	398	116853222	116931085	1	None	KIAA0534, FLJ45344, ALP
10	ATRNL1	ENSG00000107518	ENST00000355044	protein_coding	KNOWN	CCDS7592	29063	4140	1379	116853384	117708503	1	None	KIAA0534, FLJ45344, ALP
10	ATRNL1	ENSG00000107518	ENST00000524503	processed_transcript	PUTATIVE	None	29063	None	None	116931011	116980218	1	None	KIAA0534, FLJ45344, ALP
10	ATRNL1	ENSG00000107518	ENST00000526373	protein_coding	NOVEL	None	29063	648	215	117059741	117221526	1	None	KIAA0534, FLJ45344, ALP
10	ATRNL1	ENSG00000107518	ENST00000534530	processed_transcript	KNOWN	None	29063	None	None	117061483	117309037	1	None	KIAA0534, FLJ45344, ALP
10	ATRNL1	ENSG00000107518	ENST00000424738	processed_transcript	KNOWN	None	29063	None	None	117226684	117357492	1	None	KIAA0534, FLJ45344, ALP
10	ATRNL1	ENSG00000107518	ENST00000449616	processed_transcript	PUTATIVE	None	29063	None	None	117668862	117704470	1	None	KIAA0534, FLJ45344, ALP
10	ATRNL1	ENSG00000107518	ENST00000423111	protein_coding	KNOWN	None	29063	1293	430	117059741	117704546	1	None	KIAA0534, FLJ45344, ALP
10	ATRNL1	ENSG00000107518	ENST00000303745	protein_coding	KNOWN	None	29063	519	172	117061483	117704697	1	None	KIAA0534, FLJ45344, ALP
3	None	ENSG00000201554	ENST00000364684	misc_RNA	NOVEL	None	None	None	None	101177374	101177470	1	None	None
9	WDR34	ENSG00000119333	ENST00000372715	protein_coding	KNOWN	CCDS6906	28296	1611	536	131395940	131419066	-1	None	DIC5, MGC20486, bA216B9.3
9	WDR34	ENSG00000119333	ENST00000483181	processed_transcript	KNOWN	None	28296	None	None	131396974	131398342	-1	None	DIC5, MGC20486, bA216B9.3
9	WDR34	ENSG00000119333	ENST00000480613	processed_transcript	KNOWN	None	28296	None	None	131397458	131418960	-1	None	DIC5, MGC20486, bA216B9.3
9	WDR34	ENSG00000119333	ENST00000473486	processed_transcript	KNOWN	None	28296	None	None	131397602	131399307	-1	None	DIC5, MGC20486, bA216B9.3
9	WDR34	ENSG00000119333	ENST00000451652	protein_coding	KNOWN	None	28296	819	272	131398197	131418978	-1	None	DIC5, MGC20486, bA216B9.3
9	WDR34	ENSG00000119333	ENST00000419989	protein_coding	KNOWN	None	28296	420	139	131398363	131418960	-1	None	DIC5, MGC20486, bA216B9.3
21	RIPPLY3	ENSG00000183145	ENST00000485272	processed_transcript	KNOWN	None	3047	None	None	38378450	38391959	1	DSCR6	None
21	RIPPLY3	ENSG00000183145	ENST00000490393	processed_transcript	KNOWN	None	3047	None	None	38378502	38391959	1	DSCR6	None
21	RIPPLY3	ENSG00000183145	ENST00000329553	protein_coding	KNOWN	CCDS13648	3047	573	190	38378863	38391959	1	DSCR6	None
21	None	ENSG00000261706	ENST00000569966	lincRNA	KNOWN	None	None	None	None	46414277	46415100	-1	None	None
16	SNORD111B	ENSG00000221514	ENST00000408587	snoRNA	KNOWN	None	33579	None	None	70563412	70563491	1	MIR3647	hsa-mir-3647
11	None	ENSG00000254721	ENST00000526174	antisense	KNOWN	None	None	None	None	70052397	70053496	-1	None	None
11	None	ENSG00000254721	ENST00000527232	antisense	KNOWN	None	None	None	None	70052677	70053493	-1	None	None
2	None	ENSG00000237126	ENST00000415506	antisense	KNOWN	None	None	None	None	233445658	233476681	-1	None	None
2	None	ENSG00000237126	ENST00000447488	antisense	KNOWN	None	None	None	None	233445861	233449247	-1	None	None
2	None	ENSG00000237126	ENST00000595732	antisense	KNOWN	None	None	None	None	233445902	233476508	-1	None	None
2	None	ENSG00000237126	ENST00000601434	antisense	KNOWN	None	None	None	None	233445903	233450971	-1	None	None
2	None	ENSG00000237126	ENST00000600482	antisense	KNOWN	None	None	None	None	233449024	233460646	-1	None	None
2	None	ENSG00000237126	ENST00000597193	antisense	KNOWN	None	None	None	None	233450959	233476681	-1	None	None
2	None	ENSG00000237126	ENST00000604677	antisense	KNOWN	None	None	None	None	233451021	233456532	-1	None	None
2	None	ENSG00000237126	ENST00000597495	antisense	KNOWN	None	None	None	None	233451370	233476588	-1	None	None
2	None	ENSG00000237126	ENST00000598700	antisense	KNOWN	None	None	None	None	233460167	233476681	-1	None	None
2	None	ENSG00000237126	ENST00000600865	antisense	KNOWN	None	None	None	None	233460247	233476681	-1	None	None
2	None	ENSG00000237126	ENST00000596622	antisense	KNOWN	None	None	None	None	233460477	233476681	-1	None	None
21	LINC00162	ENSG00000224930	ENST00000422199	lincRNA	KNOWN	None	19725	None	None	46419122	46424642	-1	C21orf113, NCRNA00162	PRED74, NLC1-C
2	SH2D6	ENSG00000152292	ENST00000469800	processed_transcript	KNOWN	None	30439	None	None	85645844	85649815	1	None	FLJ35993
2	SH2D6	ENSG00000152292	ENST00000389938	protein_coding	KNOWN	None	30439	432	143	85646054	85664150	1	None	FLJ35993
2	SH2D6	ENSG00000152292	ENST00000488657	processed_transcript	KNOWN	None	30439	None	None	85647978	85657163	1	None	FLJ35993
2	SH2D6	ENSG00000152292	ENST00000474753	processed_transcript	PUTATIVE	None	30439	None	None	85648523	85649593	1	None	FLJ35993
2	SH2D6	ENSG00000152292	ENST00000481395	retained_intron	KNOWN	None	30439	None	None	85656699	85664008	1	None	FLJ35993
2	SH2D6	ENSG00000152292	ENST00000481426	processed_transcript	KNOWN	None	30439	None	None	85657505	85664044	1	None	FLJ35993
2	SH2D6	ENSG00000152292	ENST00000477170	processed_transcript	KNOWN	None	30439	None	None	85661189	85664150	1	None	FLJ35993
2	SH2D6	ENSG00000152292	ENST00000340326	protein_coding	KNOWN	CCDS1976	30439	528	175	85661918	85664152	1	None	FLJ35993
2	SH2D6	ENSG00000152292	ENST00000488219	processed_transcript	KNOWN	None	30439	None	None	85662543	85663861	1	None	FLJ35993
14	IGHV3-22	ENSG00000253957	ENST00000520721	IG_V_pseudogene	KNOWN	None	5587	None	None	106714360	106714821	-1	None	None
1	None	ENSG00000240007	ENST00000423202	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	143719704	143721519	1	None	None
3	None	ENSG00000230807	ENST00000408928	processed_pseudogene	KNOWN	None	None	None	None	27527738	27528108	1	None	None
3	None	ENSG00000226859	ENST00000456535	lincRNA	KNOWN	None	None	None	None	186194516	186196159	1	None	None
18	CYB5A	ENSG00000166347	ENST00000580678	retained_intron	KNOWN	None	2570	None	None	71920530	71928916	-1	CYB5	None
18	CYB5A	ENSG00000166347	ENST00000299438	protein_coding	PUTATIVE	None	2570	183	60	71920531	71958276	-1	CYB5	None
18	CYB5A	ENSG00000166347	ENST00000340533	protein_coding	KNOWN	CCDS12004	2570	405	134	71920531	71959251	-1	CYB5	None
18	CYB5A	ENSG00000166347	ENST00000494131	nonsense_mediated_decay	KNOWN	CCDS12005	2570	297	98	71920532	71959170	-1	CYB5	None
18	CYB5A	ENSG00000166347	ENST00000583418	retained_intron	KNOWN	None	2570	None	None	71920532	71959192	-1	CYB5	None
18	CYB5A	ENSG00000166347	ENST00000397914	protein_coding	KNOWN	CCDS54188	2570	375	124	71920673	71959208	-1	CYB5	None
18	CYB5A	ENSG00000166347	ENST00000579405	processed_transcript	PUTATIVE	None	2570	None	None	71920731	71922212	-1	CYB5	None
18	CYB5A	ENSG00000166347	ENST00000579064	processed_transcript	KNOWN	None	2570	None	None	71920789	71928412	-1	CYB5	None
11	None	ENSG00000250303	ENST00000504610	processed_transcript	PUTATIVE	None	None	None	None	112141472	112233257	1	None	None
11	None	ENSG00000250303	ENST00000532168	processed_transcript	PUTATIVE	None	None	None	None	112151209	112162495	1	None	None
11	None	ENSG00000250303	ENST00000419895	processed_transcript	PUTATIVE	None	None	None	None	112160924	112163444	1	None	None
11	None	ENSG00000250303	ENST00000529938	processed_transcript	PUTATIVE	None	None	None	None	112160991	112162893	1	None	None
11	None	ENSG00000250303	ENST00000527511	processed_transcript	PUTATIVE	None	None	None	None	112163296	112164839	1	None	None
17	None	ENSG00000267708	ENST00000592752	unprocessed_pseudogene	KNOWN	None	None	None	None	66148917	66155184	-1	None	None
16	None	ENSG00000263204	ENST00000576091	processed_pseudogene	KNOWN	None	None	None	None	33287358	33287592	1	None	None
16	C16orf59	ENSG00000162062	ENST00000361837	protein_coding	KNOWN	CCDS10468	25849	1302	433	2510081	2514964	1	None	FLJ13909
16	C16orf59	ENSG00000162062	ENST00000569496	protein_coding	PUTATIVE	None	25849	1218	405	2510087	2514927	1	None	FLJ13909
16	C16orf59	ENSG00000162062	ENST00000567489	protein_coding	NOVEL	None	25849	856	284	2510095	2512724	1	None	FLJ13909
16	C16orf59	ENSG00000162062	ENST00000565537	retained_intron	KNOWN	None	25849	None	None	2510103	2510758	1	None	FLJ13909
16	C16orf59	ENSG00000162062	ENST00000569665	retained_intron	KNOWN	None	25849	None	None	2510119	2511053	1	None	FLJ13909
16	C16orf59	ENSG00000162062	ENST00000569994	retained_intron	KNOWN	None	25849	None	None	2510119	2514963	1	None	FLJ13909
16	C16orf59	ENSG00000162062	ENST00000563531	protein_coding	PUTATIVE	None	25849	1218	405	2510135	2514928	1	None	FLJ13909
16	C16orf59	ENSG00000162062	ENST00000569664	retained_intron	KNOWN	None	25849	None	None	2510146	2512169	1	None	FLJ13909
16	C16orf59	ENSG00000162062	ENST00000483320	protein_coding	KNOWN	None	25849	801	266	2510146	2514964	1	None	FLJ13909
16	C16orf59	ENSG00000162062	ENST00000562253	retained_intron	KNOWN	None	25849	None	None	2510158	2511450	1	None	FLJ13909
16	C16orf59	ENSG00000162062	ENST00000568753	protein_coding	PUTATIVE	None	25849	299	98	2510477	2514112	1	None	FLJ13909
16	C16orf59	ENSG00000162062	ENST00000565716	nonsense_mediated_decay	KNOWN	None	25849	515	170	2510938	2514964	1	None	FLJ13909
16	C16orf59	ENSG00000162062	ENST00000566580	retained_intron	KNOWN	None	25849	None	None	2511548	2512433	1	None	FLJ13909
1	None	ENSG00000263497	ENST00000459198	miRNA	NOVEL	None	None	None	None	143876891	143876982	-1	None	None
6	HTR1B	ENSG00000135312	ENST00000369947	protein_coding	KNOWN	CCDS4986	5287	1173	390	78171948	78173490	-1	None	S12, 5-HT1B, HTR1D2, 5-HT1DB
HG7_PATCH	TRBV11-2	ENSG00000260241	ENST00000567505	lincRNA	KNOWN	None	12181	None	None	142155394	142155893	1	None	TRBV112, TCRBV11S2, TCRBV21S3A2N2T
12	None	ENSG00000257624	ENST00000549244	processed_pseudogene	KNOWN	None	None	None	None	112438543	112438789	-1	None	None
3	None	ENSG00000238525	ENST00000459410	snoRNA	NOVEL	None	None	None	None	101220999	101221101	1	None	None
17	EFCAB13	ENSG00000178852	ENST00000518170	protein_coding	KNOWN	None	26864	18	5	45400656	45405737	1	C17orf57	FLJ40342
17	EFCAB13	ENSG00000178852	ENST00000523285	protein_coding	KNOWN	None	26864	111	36	45400894	45412642	1	C17orf57	FLJ40342
17	EFCAB13	ENSG00000178852	ENST00000517310	protein_coding	PUTATIVE	None	26864	313	103	45401142	45452005	1	C17orf57	FLJ40342
17	EFCAB13	ENSG00000178852	ENST00000520802	processed_transcript	KNOWN	None	26864	None	None	45401327	45419393	1	C17orf57	FLJ40342
17	EFCAB13	ENSG00000178852	ENST00000331493	protein_coding	KNOWN	CCDS11512	26864	2922	973	45401347	45518678	1	C17orf57	FLJ40342
17	EFCAB13	ENSG00000178852	ENST00000519772	protein_coding	KNOWN	None	26864	161	52	45401391	45412692	1	C17orf57	FLJ40342
17	EFCAB13	ENSG00000178852	ENST00000517484	protein_coding	NOVEL	CCDS56034	26864	2355	784	45401391	45508076	1	C17orf57	FLJ40342
17	EFCAB13	ENSG00000178852	ENST00000520776	retained_intron	KNOWN	None	26864	None	None	45403705	45473387	1	C17orf57	FLJ40342
17	EFCAB13	ENSG00000178852	ENST00000518646	retained_intron	KNOWN	None	26864	None	None	45405414	45418817	1	C17orf57	FLJ40342
17	EFCAB13	ENSG00000178852	ENST00000518081	processed_transcript	PUTATIVE	None	26864	None	None	45407217	45417454	1	C17orf57	FLJ40342
17	EFCAB13	ENSG00000178852	ENST00000523978	processed_transcript	PUTATIVE	None	26864	None	None	45446982	45452004	1	C17orf57	FLJ40342
17	EFCAB13	ENSG00000178852	ENST00000522326	retained_intron	KNOWN	None	26864	None	None	45455020	45471465	1	C17orf57	FLJ40342
17	EFCAB13	ENSG00000178852	ENST00000523842	protein_coding	PUTATIVE	None	26864	603	200	45455182	45492341	1	C17orf57	FLJ40342
16	None	ENSG00000262090	ENST00000573021	processed_pseudogene	KNOWN	None	None	None	None	33298410	33298560	-1	None	None
4	TRPC3	ENSG00000138741	ENST00000264811	protein_coding	KNOWN	CCDS3725	12335	2547	848	122800182	122854612	-1	None	None
4	TRPC3	ENSG00000138741	ENST00000379645	protein_coding	KNOWN	CCDS47130	12335	2766	921	122800183	122872909	-1	None	None
4	TRPC3	ENSG00000138741	ENST00000506449	nonsense_mediated_decay	KNOWN	None	12335	831	276	122800871	122854268	-1	None	None
4	TRPC3	ENSG00000138741	ENST00000513531	protein_coding	NOVEL	None	12335	2382	793	122800891	122854193	-1	None	None
4	TRPC3	ENSG00000138741	ENST00000502968	protein_coding	KNOWN	None	12335	279	92	122853915	122872029	-1	None	None
16	OR2C1	ENSG00000168158	ENST00000304936	protein_coding	KNOWN	CCDS10502	8242	939	312	3405889	3406924	1	OR2C2P	OLFmf3
12	None	ENSG00000200066	ENST00000363196	misc_RNA	NOVEL	None	None	None	None	133664099	133664201	-1	None	None
21	SSR4P1	ENSG00000235374	ENST00000429427	processed_transcript	KNOWN	None	23131	None	None	46491648	46494080	-1	C21orf122	PRED90, MGC10960, PRED57
21	SSR4P1	ENSG00000235374	ENST00000415143	transcribed_processed_pseudogene	KNOWN	None	23131	None	None	46491743	46492154	-1	C21orf122	PRED90, MGC10960, PRED57
12	None	ENSG00000257261	ENST00000551503	lincRNA	KNOWN	None	None	None	None	46777462	46850051	1	None	None
12	None	ENSG00000257261	ENST00000551021	lincRNA	KNOWN	None	None	None	None	46777890	46781755	1	None	None
19	RYR1	ENSG00000196218	ENST00000355481	protein_coding	KNOWN	CCDS42563	10483	15102	5033	38924339	39078204	1	MHS, MHS1, CCO	RYR
19	RYR1	ENSG00000196218	ENST00000359596	protein_coding	KNOWN	CCDS33011	10483	15117	5038	38924470	39078060	1	MHS, MHS1, CCO	RYR
19	RYR1	ENSG00000196218	ENST00000594111	retained_intron	KNOWN	None	10483	None	None	38956768	38958526	1	MHS, MHS1, CCO	RYR
19	RYR1	ENSG00000196218	ENST00000594335	nonsense_mediated_decay	KNOWN	None	10483	2659	885	38986855	39055868	1	MHS, MHS1, CCO	RYR
19	RYR1	ENSG00000196218	ENST00000599547	protein_coding	NOVEL	None	10483	2200	732	39002211	39025814	1	MHS, MHS1, CCO	RYR
19	RYR1	ENSG00000196218	ENST00000600337	retained_intron	KNOWN	None	10483	None	None	39013707	39014228	1	MHS, MHS1, CCO	RYR
19	RYR1	ENSG00000196218	ENST00000601514	protein_coding	PUTATIVE	None	10483	863	286	39018730	39026702	1	MHS, MHS1, CCO	RYR
19	RYR1	ENSG00000196218	ENST00000596431	protein_coding	PUTATIVE	None	10483	515	170	39025372	39029313	1	MHS, MHS1, CCO	RYR
19	RYR1	ENSG00000196218	ENST00000593322	nonsense_mediated_decay	KNOWN	None	10483	239	78	39025400	39039012	1	MHS, MHS1, CCO	RYR
19	RYR1	ENSG00000196218	ENST00000593677	protein_coding	NOVEL	None	10483	432	143	39057567	39062884	1	MHS, MHS1, CCO	RYR
19	RYR1	ENSG00000196218	ENST00000360985	protein_coding	KNOWN	None	10483	15102	5033	38924340	39078204	1	MHS, MHS1, CCO	RYR
3	None	ENSG00000222345	ENST00000410413	snoRNA	NOVEL	None	None	None	None	52725394	52725469	1	None	None
HG281_PATCH	None	ENSG00000260354	ENST00000568257	unprocessed_pseudogene	KNOWN	None	None	None	None	49893378	49895619	-1	None	None
Y	SRY	ENSG00000184895	ENST00000383070	protein_coding	KNOWN	CCDS14772	11311	615	204	2654896	2655740	-1	None	TDF
Y	SRY	ENSG00000184895	ENST00000525526	protein_coding	KNOWN	None	11311	591	196	2655049	2655644	-1	None	TDF
Y	SRY	ENSG00000184895	ENST00000534739	protein_coding	KNOWN	None	11311	498	165	2655145	2655644	-1	None	TDF
1	SRGAP2B	ENSG00000196369	ENST00000467933	processed_transcript	KNOWN	None	35237	None	None	143913615	144094424	1	SRGAP2P2	None
1	SRGAP2B	ENSG00000196369	ENST00000463366	processed_transcript	KNOWN	None	35237	None	None	143913617	143916100	1	SRGAP2P2	None
1	SRGAP2B	ENSG00000196369	ENST00000494534	processed_transcript	KNOWN	None	35237	None	None	143914178	143916090	1	SRGAP2P2	None
1	SRGAP2B	ENSG00000196369	ENST00000491897	transcribed_unprocessed_pseudogene	KNOWN	None	35237	None	None	143916242	144094424	1	SRGAP2P2	None
3	None	ENSG00000236524	ENST00000428501	antisense	KNOWN	None	None	None	None	186359299	186383496	-1	None	None
3	None	ENSG00000236524	ENST00000455926	antisense	KNOWN	None	None	None	None	186359304	186383492	-1	None	None
3	SNORD69	ENSG00000212452	ENST00000391150	snoRNA	KNOWN	None	32730	None	None	52726752	52726828	1	None	HBII-210
12	None	ENSG00000256902	ENST00000538799	processed_pseudogene	KNOWN	None	None	None	None	2861763	2862298	-1	None	None
HG7_PATCH	TRBV12-2	ENSG00000261214	ENST00000562487	TR_V_pseudogene	KNOWN	None	12184	None	None	142162383	142162825	1	None	TRBV122, TCRBV12S2, TCRBV8S5P
19	IRF2BP1	ENSG00000170604	ENST00000302165	protein_coding	KNOWN	CCDS12678	21728	1755	584	46386866	46389376	-1	None	DKFZP434M154, IRF-2BP1
16	PABPN1L	ENSG00000205022	ENST00000419291	protein_coding	KNOWN	CCDS45547	37237	837	278	88929741	88933026	-1	None	ePABP2
16	PABPN1L	ENSG00000205022	ENST00000411789	protein_coding	KNOWN	None	37237	768	255	88930094	88933068	-1	None	ePABP2
16	PABPN1L	ENSG00000205022	ENST00000547152	protein_coding	NOVEL	None	37237	800	265	88930094	88933068	-1	None	ePABP2
16	PABPN1L	ENSG00000205022	ENST00000378358	protein_coding	KNOWN	None	37237	870	289	88928034	88933014	-1	None	ePABP2
16	PABPN1L	ENSG00000205022	ENST00000427766	protein_coding	KNOWN	None	37237	894	297	88929744	88933026	-1	None	ePABP2
3	None	ENSG00000270941	ENST00000603259	processed_pseudogene	KNOWN	None	None	None	None	52768751	52769029	1	None	None
5	MTMR12	ENSG00000150712	ENST00000280285	protein_coding	KNOWN	None	18191	2082	693	32227100	32313044	-1	PIP3AP	3-PAP, FLJ20476, KIAA1682, 3PAP
5	MTMR12	ENSG00000150712	ENST00000382142	protein_coding	KNOWN	CCDS34138	18191	2244	747	32227112	32313115	-1	PIP3AP	3-PAP, FLJ20476, KIAA1682, 3PAP
5	MTMR12	ENSG00000150712	ENST00000264934	protein_coding	KNOWN	None	18191	1914	637	32229714	32313075	-1	PIP3AP	3-PAP, FLJ20476, KIAA1682, 3PAP
5	MTMR12	ENSG00000150712	ENST00000510216	processed_transcript	KNOWN	None	18191	None	None	32230191	32233999	-1	PIP3AP	3-PAP, FLJ20476, KIAA1682, 3PAP
5	MTMR12	ENSG00000150712	ENST00000504049	retained_intron	KNOWN	None	18191	None	None	32243627	32256043	-1	PIP3AP	3-PAP, FLJ20476, KIAA1682, 3PAP
5	MTMR12	ENSG00000150712	ENST00000505419	nonsense_mediated_decay	KNOWN	None	18191	117	38	32268807	32313093	-1	PIP3AP	3-PAP, FLJ20476, KIAA1682, 3PAP
5	MTMR12	ENSG00000150712	ENST00000513622	nonsense_mediated_decay	KNOWN	None	18191	120	39	32271939	32313030	-1	PIP3AP	3-PAP, FLJ20476, KIAA1682, 3PAP
7	RNU6-650P	ENSG00000202528	ENST00000365658	snRNA	KNOWN	None	47613	None	None	148730149	148730259	1	None	None
10	C10orf128	ENSG00000204161	ENST00000374156	nonsense_mediated_decay	KNOWN	None	27274	432	143	50362773	50386446	-1	None	Em:AC084727.5
10	C10orf128	ENSG00000204161	ENST00000374153	protein_coding	NOVEL	None	27274	390	129	50362798	50396421	-1	None	Em:AC084727.5
10	C10orf128	ENSG00000204161	ENST00000488276	processed_transcript	KNOWN	None	27274	None	None	50363614	50375038	-1	None	Em:AC084727.5
10	C10orf128	ENSG00000204161	ENST00000474718	protein_coding	KNOWN	CCDS41519	27274	318	105	50363657	50396404	-1	None	Em:AC084727.5
10	C10orf128	ENSG00000204161	ENST00000453436	protein_coding	KNOWN	None	27274	348	115	50363813	50396357	-1	None	Em:AC084727.5
10	C10orf128	ENSG00000204161	ENST00000374148	protein_coding	NOVEL	None	27274	480	159	50368393	50396436	-1	None	Em:AC084727.5
10	C10orf128	ENSG00000204161	ENST00000470884	processed_transcript	KNOWN	None	27274	None	None	50374813	50396630	-1	None	Em:AC084727.5
10	C10orf128	ENSG00000204161	ENST00000374151	protein_coding	KNOWN	None	27274	519	172	50364236	50396424	-1	None	Em:AC084727.5
14	IGHVII-22-1	ENSG00000253345	ENST00000517888	IG_V_pseudogene	KNOWN	None	5673	None	None	106719955	106720219	-1	None	IGHV(II)-22-1
HG281_PATCH	None	ENSG00000265906	ENST00000581936	unprocessed_pseudogene	KNOWN	None	None	None	None	49895725	49898365	1	None	None
3	FAM172BP	ENSG00000175841	ENST00000487497	processed_pseudogene	KNOWN	None	34336	None	None	101240735	101241823	1	FAM172B	LOC131909, FLJ45679
3	FAM172BP	ENSG00000175841	ENST00000313598	processed_pseudogene	KNOWN	None	34336	None	None	101237711	101242731	1	FAM172B	LOC131909, FLJ45679
7	COX6B1P1	ENSG00000234565	ENST00000415962	processed_pseudogene	KNOWN	None	2281	None	None	148751053	148751265	1	COX6BP1	None
11	None	ENSG00000254926	ENST00000526644	unprocessed_pseudogene	KNOWN	None	None	None	None	58516472	58528526	-1	None	None
12	None	ENSG00000271963	ENST00000606110	antisense	KNOWN	None	None	None	None	133692278	133698926	1	None	None
6	FAM217A	ENSG00000145975	ENST00000463904	processed_transcript	KNOWN	None	21362	None	None	4049668	4050752	-1	C6orf146	MGC43581
6	FAM217A	ENSG00000145975	ENST00000469157	processed_transcript	KNOWN	None	21362	None	None	4050695	4087566	-1	C6orf146	MGC43581
6	FAM217A	ENSG00000145975	ENST00000274673	protein_coding	KNOWN	CCDS4489	21362	1527	508	4068596	4079455	-1	C6orf146	MGC43581
6	FAM217A	ENSG00000145975	ENST00000380188	processed_transcript	KNOWN	None	21362	None	None	4068601	4087578	-1	C6orf146	MGC43581
6	FAM217A	ENSG00000145975	ENST00000498677	protein_coding	PUTATIVE	None	21362	143	46	4070125	4079368	-1	C6orf146	MGC43581
6	FAM217A	ENSG00000145975	ENST00000492651	protein_coding	PUTATIVE	None	21362	96	31	4073526	4079334	-1	C6orf146	MGC43581
6	FAM217A	ENSG00000145975	ENST00000478714	processed_transcript	KNOWN	None	21362	None	None	4073692	4079455	-1	C6orf146	MGC43581
8	C8orf33	ENSG00000182307	ENST00000331434	protein_coding	KNOWN	CCDS34974	26104	690	229	146277764	146281416	1	None	FLJ20989
8	C8orf33	ENSG00000182307	ENST00000524395	retained_intron	KNOWN	None	26104	None	None	146277851	146279824	1	None	FLJ20989
8	C8orf33	ENSG00000182307	ENST00000534350	retained_intron	KNOWN	None	26104	None	None	146277853	146279580	1	None	FLJ20989
8	C8orf33	ENSG00000182307	ENST00000530455	retained_intron	KNOWN	None	26104	None	None	146277853	146281416	1	None	FLJ20989
8	C8orf33	ENSG00000182307	ENST00000529593	retained_intron	KNOWN	None	26104	None	None	146277854	146278823	1	None	FLJ20989
17	None	ENSG00000267731	ENST00000591222	lincRNA	KNOWN	None	None	None	None	66186025	66188943	1	None	None
12	MIR3657	ENSG00000266370	ENST00000584818	miRNA	KNOWN	None	38906	None	None	112475403	112475519	-1	None	hsa-mir-3657
2	RN7SL359P	ENSG00000244384	ENST00000473502	misc_RNA	KNOWN	None	46375	None	None	233514559	233514845	1	None	None
6	None	ENSG00000269964	ENST00000602452	protein_coding	NOVEL	None	None	1158	385	78400375	78636691	1	None	None
21	LINC00334	ENSG00000182586	ENST00000584169	lincRNA	KNOWN	None	16425	None	None	46654255	46677182	1	C21orf89, NCRNA00334	None
21	LINC00334	ENSG00000182586	ENST00000328344	lincRNA	KNOWN	None	16425	None	None	46654267	46678645	1	C21orf89, NCRNA00334	None
8	SOX5P	ENSG00000254376	ENST00000524155	processed_pseudogene	KNOWN	None	11202	None	None	88800790	88801916	-1	None	SOX29
11	None	ENSG00000254648	ENST00000526377	lincRNA	KNOWN	None	None	None	None	133905727	133907002	-1	None	None
2	None	ENSG00000239170	ENST00000459149	snoRNA	NOVEL	None	None	None	None	233543673	233543775	1	None	None
17	None	ENSG00000267472	ENST00000589904	processed_pseudogene	KNOWN	None	None	None	None	66195062	66195737	1	None	None
12	None	ENSG00000255669	ENST00000536497	lincRNA	KNOWN	None	None	None	None	2870366	2879621	-1	None	None
HG7_PATCH	TRBV7-5	ENSG00000259903	ENST00000565640	TR_V_pseudogene	KNOWN	None	12239	None	None	142195614	142196085	1	None	TRBV75, TCRBV6S9P, TCRBV7S5
3	TCTEX1D2	ENSG00000213123	ENST00000431391	nonsense_mediated_decay	KNOWN	None	28482	321	106	195975101	196045093	-1	None	MGC33212
3	TCTEX1D2	ENSG00000213123	ENST00000491186	processed_transcript	PUTATIVE	None	28482	None	None	196018090	196019415	-1	None	MGC33212
3	TCTEX1D2	ENSG00000213123	ENST00000465757	retained_intron	KNOWN	None	28482	None	None	196018090	196023177	-1	None	MGC33212
3	TCTEX1D2	ENSG00000213123	ENST00000426563	nonsense_mediated_decay	KNOWN	None	28482	138	45	196018090	196045085	-1	None	MGC33212
3	TCTEX1D2	ENSG00000213123	ENST00000325318	protein_coding	KNOWN	CCDS33929	28482	429	142	196018090	196045159	-1	None	MGC33212
3	TCTEX1D2	ENSG00000213123	ENST00000446494	nonsense_mediated_decay	KNOWN	None	28482	399	132	196018092	196045170	-1	None	MGC33212
16	None	ENSG00000260626	ENST00000567464	lincRNA	KNOWN	None	None	None	None	33336283	33337443	-1	None	None
11	H2AFZP4	ENSG00000255329	ENST00000534148	processed_pseudogene	KNOWN	None	38015	None	None	70125027	70125403	-1	None	None
2	None	ENSG00000213055	ENST00000451177	processed_pseudogene	KNOWN	None	None	None	None	233594233	233594908	-1	None	None
16	MTRNR2L4	ENSG00000232196	ENST00000399974	protein_coding	KNOWN	None	37161	87	28	3421053	3422283	-1	None	None
3	None	ENSG00000271137	ENST00000603353	processed_pseudogene	KNOWN	None	None	None	None	52787542	52788706	1	None	None
12	None	ENSG00000258323	ENST00000551125	antisense	KNOWN	None	None	None	None	112501713	112503559	1	None	None
17	None	ENSG00000265100	ENST00000577698	antisense	KNOWN	None	None	None	None	66242770	66244079	-1	None	None
3	None	ENSG00000271922	ENST00000607291	snoRNA	NOVEL	None	None	None	None	154047505	154047608	1	None	None
14	None	ENSG00000251393	ENST00000515412	antisense	KNOWN	None	None	None	None	73929129	73943880	1	None	None
14	None	ENSG00000251393	ENST00000561382	retained_intron	KNOWN	None	None	None	None	73929204	73930585	1	None	None
9	None	ENSG00000264801	ENST00000578561	transcribed_processed_pseudogene	KNOWN	None	None	None	None	21929456	21931072	1	None	None
3	None	ENSG00000242299	ENST00000496294	processed_pseudogene	KNOWN	None	None	None	None	101295333	101295791	-1	None	None
16	None	ENSG00000261200	ENST00000568752	lincRNA	KNOWN	None	None	None	None	33344309	33348279	-1	None	None
3	ITIH4-AS1	ENSG00000239799	ENST00000478366	antisense	KNOWN	None	40310	None	None	52857951	52859330	1	None	None
7	RN7SL521P	ENSG00000240877	ENST00000488398	misc_RNA	KNOWN	None	46537	None	None	148822785	148823078	-1	None	None
2	None	ENSG00000241409	ENST00000427571	3prime_overlapping_ncrna	KNOWN	None	None	None	None	233624856	233632659	-1	None	None
14	IGHVIII-22-2	ENSG00000254045	ENST00000518246	IG_V_pseudogene	KNOWN	None	5696	None	None	106721281	106721308	-1	None	IGHV(III)-22-2
3	DDX50P2	ENSG00000240048	ENST00000463545	processed_pseudogene	KNOWN	None	18975	None	None	154069925	154072588	-1	None	RH_II/GuBp2
HSCHR6_MHC_QBL	HLA-N	ENSG00000236688	ENST00000413337	unprocessed_pseudogene	KNOWN	None	19406	None	None	30308697	30308831	1	None	HLA-30
3	RNU1-96P	ENSG00000201033	ENST00000364163	snRNA	KNOWN	None	48438	None	None	27555362	27555523	1	None	None
17	None	ENSG00000267009	ENST00000591567	processed_transcript	KNOWN	None	None	None	None	66409783	66437236	1	None	None
17	None	ENSG00000267009	ENST00000586515	processed_transcript	KNOWN	None	None	None	None	66409871	66489811	1	None	None
17	None	ENSG00000267009	ENST00000592030	processed_transcript	KNOWN	None	None	None	None	66409881	66424904	1	None	None
21	None	ENSG00000215447	ENST00000454115	processed_transcript	KNOWN	None	None	None	None	46707967	46710493	1	None	None
21	None	ENSG00000215447	ENST00000400362	processed_transcript	KNOWN	None	None	None	None	46707977	46711653	1	None	None
8	None	ENSG00000253171	ENST00000518129	antisense	KNOWN	None	None	None	None	88986393	89031341	1	None	None
HG281_PATCH	TRIM51DP	ENSG00000260435	ENST00000569350	processed_pseudogene	KNOWN	None	43969	None	None	49897788	49898190	1	None	None
1	None	ENSG00000271644	ENST00000604134	processed_pseudogene	KNOWN	None	None	None	None	144043972	144044082	-1	None	None
7	None	ENSG00000239719	ENST00000461005	processed_pseudogene	KNOWN	None	None	None	None	148888135	148888315	-1	None	None
11	TMA16P1	ENSG00000255265	ENST00000529148	processed_pseudogene	KNOWN	None	43780	None	None	58563710	58564327	-1	None	None
12	RPL23AP67	ENSG00000240991	ENST00000465341	processed_pseudogene	KNOWN	None	36658	None	None	133702065	133702538	1	None	None
X	SNORA70	ENSG00000207165	ENST00000384436	snoRNA	KNOWN	None	10231	None	None	153628622	153628756	1	RNU70	U70, DXS648E
12	ATXN2	ENSG00000204842	ENST00000389154	protein_coding	PUTATIVE	None	10555	1275	424	111890018	111926416	-1	SCA2, TNRC13	ATX2
12	ATXN2	ENSG00000204842	ENST00000389153	protein_coding	NOVEL	None	10555	3153	1050	111890018	112036626	-1	SCA2, TNRC13	ATX2
12	ATXN2	ENSG00000204842	ENST00000377617	protein_coding	KNOWN	CCDS31902	10555	3942	1313	111890018	112037480	-1	SCA2, TNRC13	ATX2
12	ATXN2	ENSG00000204842	ENST00000483311	nonsense_mediated_decay	KNOWN	None	10555	2750	915	111890100	112037080	-1	SCA2, TNRC13	ATX2
12	ATXN2	ENSG00000204842	ENST00000484991	retained_intron	KNOWN	None	10555	None	None	111890235	111891863	-1	SCA2, TNRC13	ATX2
12	ATXN2	ENSG00000204842	ENST00000482777	retained_intron	KNOWN	None	10555	None	None	111890255	111908645	-1	SCA2, TNRC13	ATX2
12	ATXN2	ENSG00000204842	ENST00000535949	protein_coding	PUTATIVE	None	10555	3021	1006	111890558	112037477	-1	SCA2, TNRC13	ATX2
12	ATXN2	ENSG00000204842	ENST00000542287	protein_coding	PUTATIVE	None	10555	3222	1073	111890558	112037477	-1	SCA2, TNRC13	ATX2
12	ATXN2	ENSG00000204842	ENST00000475132	protein_coding	PUTATIVE	None	10555	360	119	111891124	111893916	-1	SCA2, TNRC13	ATX2
12	ATXN2	ENSG00000204842	ENST00000550844	protein_coding	PUTATIVE	None	10555	594	197	111891290	111908364	-1	SCA2, TNRC13	ATX2
12	ATXN2	ENSG00000204842	ENST00000468920	retained_intron	KNOWN	None	10555	None	None	111893719	111895243	-1	SCA2, TNRC13	ATX2
12	ATXN2	ENSG00000204842	ENST00000551551	retained_intron	KNOWN	None	10555	None	None	111893993	111896205	-1	SCA2, TNRC13	ATX2
12	ATXN2	ENSG00000204842	ENST00000550889	retained_intron	KNOWN	None	10555	None	None	111894025	111909749	-1	SCA2, TNRC13	ATX2
12	ATXN2	ENSG00000204842	ENST00000551755	nonsense_mediated_decay	KNOWN	None	10555	322	106	111902466	111924628	-1	SCA2, TNRC13	ATX2
12	ATXN2	ENSG00000204842	ENST00000495342	retained_intron	KNOWN	None	10555	None	None	111907622	111923654	-1	SCA2, TNRC13	ATX2
12	ATXN2	ENSG00000204842	ENST00000552323	retained_intron	KNOWN	None	10555	None	None	111922913	111924618	-1	SCA2, TNRC13	ATX2
12	ATXN2	ENSG00000204842	ENST00000492467	protein_coding	PUTATIVE	None	10555	854	283	111926279	111954143	-1	SCA2, TNRC13	ATX2
12	ATXN2	ENSG00000204842	ENST00000546483	retained_intron	KNOWN	None	10555	None	None	111926389	111949911	-1	SCA2, TNRC13	ATX2
12	ATXN2	ENSG00000204842	ENST00000550236	protein_coding	PUTATIVE	None	10555	704	233	111947723	111958749	-1	SCA2, TNRC13	ATX2
12	ATXN2	ENSG00000204842	ENST00000392645	retained_intron	KNOWN	None	10555	None	None	111950277	112036370	-1	SCA2, TNRC13	ATX2
12	ATXN2	ENSG00000204842	ENST00000481331	processed_transcript	KNOWN	None	10555	None	None	111951278	111957771	-1	SCA2, TNRC13	ATX2
12	ATXN2	ENSG00000204842	ENST00000471866	retained_intron	KNOWN	None	10555	None	None	111957717	111990538	-1	SCA2, TNRC13	ATX2
12	ATXN2	ENSG00000204842	ENST00000549455	processed_transcript	KNOWN	None	10555	None	None	111957809	112036866	-1	SCA2, TNRC13	ATX2
12	ATXN2	ENSG00000204842	ENST00000548492	protein_coding	PUTATIVE	None	10555	554	183	111957824	112035611	-1	SCA2, TNRC13	ATX2
12	ATXN2	ENSG00000204842	ENST00000550104	protein_coding	KNOWN	None	10555	2988	995	111890072	112037480	-1	SCA2, TNRC13	ATX2
2	RNU6-107P	ENSG00000252452	ENST00000516643	snRNA	KNOWN	None	47070	None	None	233647375	233647476	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000258067	ENST00000549496	pseudogene	NOVEL	None	None	None	None	30313513	30313600	-1	None	None
11	None	ENSG00000254604	ENST00000528607	antisense	KNOWN	None	None	None	None	70128473	70209474	-1	None	None
1	None	ENSG00000224363	ENST00000441760	lincRNA	KNOWN	None	None	None	None	144089214	144091946	-1	None	None
15	None	ENSG00000222064	ENST00000410132	miRNA	NOVEL	None	None	None	None	74183750	74183828	1	None	None
2	None	ENSG00000199781	ENST00000362911	misc_RNA	NOVEL	None	None	None	None	233693363	233693461	1	None	None
10	RSU1P1	ENSG00000230425	ENST00000453416	unprocessed_pseudogene	KNOWN	None	31114	None	None	43221305	43232607	1	None	Y214H10.6
12	None	ENSG00000257165	ENST00000546865	lincRNA	KNOWN	None	None	None	None	78842775	78934455	-1	None	None
12	None	ENSG00000257165	ENST00000547089	lincRNA	KNOWN	None	None	None	None	78893080	78934455	-1	None	None
3	None	ENSG00000228351	ENST00000428171	lincRNA	KNOWN	None	None	None	None	8121009	8154611	1	None	None
3	None	ENSG00000251927	ENST00000516118	miRNA	NOVEL	None	None	None	None	45633747	45633819	1	None	None
8	None	ENSG00000254067	ENST00000518465	lincRNA	KNOWN	None	None	None	None	39413665	39416052	1	None	None
3	None	ENSG00000266635	ENST00000580208	miRNA	NOVEL	None	None	None	None	53087014	53087110	1	None	None
HSCHR6_MHC_QBL	HCG19P	ENSG00000227100	ENST00000452951	processed_pseudogene	KNOWN	None	31336	None	None	30316559	30317192	-1	None	AB014085.4
12	None	ENSG00000257496	ENST00000552634	lincRNA	KNOWN	None	None	None	None	46778016	46780774	-1	None	None
17	MIR635	ENSG00000207561	ENST00000384830	miRNA	KNOWN	None	32891	None	None	66420592	66420689	-1	MIRN635	hsa-mir-635
3	None	ENSG00000232167	ENST00000419075	processed_pseudogene	KNOWN	None	None	None	None	27566844	27566885	1	None	None
14	None	ENSG00000238275	ENST00000451621	processed_pseudogene	KNOWN	None	None	None	None	106743406	106744252	-1	None	None
2	RN7SL32P	ENSG00000263941	ENST00000580514	misc_RNA	KNOWN	None	46048	None	None	234113845	234114121	1	None	None
12	None	ENSG00000256011	ENST00000545158	antisense	KNOWN	None	None	None	None	13115234	13116473	1	None	None
19	MYPOP	ENSG00000176182	ENST00000322217	protein_coding	KNOWN	CCDS33055	20178	1200	399	46393278	46405862	-1	None	P42pop
11	UBTFL7	ENSG00000229361	ENST00000418789	processed_pseudogene	KNOWN	None	35404	None	None	49103459	49104649	1	None	None
11	UBTFL7	ENSG00000229361	ENST00000543325	processed_pseudogene	KNOWN	None	35404	None	None	49103468	49104637	1	None	None
17	None	ENSG00000267461	ENST00000589826	lincRNA	KNOWN	None	None	None	None	66553657	66578718	1	None	None
2	SCARNA5	ENSG00000252010	ENST00000516201	snoRNA	KNOWN	None	32561	None	None	234184373	234184648	1	None	U87
11	MIR548K	ENSG00000221333	ENST00000408406	miRNA	KNOWN	None	35285	None	None	70130061	70130176	1	MIRN548K	hsa-mir-548k
3	SERBP1P3	ENSG00000242142	ENST00000459980	processed_pseudogene	KNOWN	None	44630	None	None	53098299	53099107	-1	None	None
12	None	ENSG00000272369	ENST00000607353	lincRNA	KNOWN	None	None	None	None	46931285	47046333	1	None	None
2	SCARNA6	ENSG00000251791	ENST00000515982	snoRNA	KNOWN	None	32562	None	None	234197322	234197586	1	None	U88
3	None	ENSG00000243861	ENST00000498604	lincRNA	KNOWN	None	None	None	None	154229324	154257098	-1	None	None
11	None	ENSG00000255159	ENST00000532930	antisense	KNOWN	None	None	None	None	8790325	8807318	1	None	None
11	None	ENSG00000255159	ENST00000533843	antisense	KNOWN	None	None	None	None	8806088	8831776	1	None	None
11	None	ENSG00000255159	ENST00000527725	antisense	KNOWN	None	None	None	None	8806948	8831778	1	None	None
12	None	ENSG00000221611	ENST00000408684	snoRNA	NOVEL	None	None	None	None	13124987	13125077	1	None	None
6	IRAK1BP1	ENSG00000146243	ENST00000369940	protein_coding	KNOWN	CCDS34488	17368	783	260	79577189	79612819	1	None	AIP70, SIMPL
6	IRAK1BP1	ENSG00000146243	ENST00000606868	nonsense_mediated_decay	KNOWN	None	17368	534	177	79577324	79656157	1	None	AIP70, SIMPL
6	IRAK1BP1	ENSG00000146243	ENST00000607739	protein_coding	PUTATIVE	None	17368	579	192	79581008	79612818	1	None	AIP70, SIMPL
6	IRAK1BP1	ENSG00000146243	ENST00000606929	protein_coding	PUTATIVE	None	17368	134	43	79607909	79612819	1	None	AIP70, SIMPL
10	None	ENSG00000227560	ENST00000420976	processed_pseudogene	KNOWN	None	None	None	None	114747235	114747624	1	None	None
2	None	ENSG00000259793	ENST00000563747	antisense	KNOWN	None	None	None	None	234259778	234262062	-1	None	None
3	LIMD1-AS1	ENSG00000230530	ENST00000427644	antisense	KNOWN	None	44107	None	None	45720535	45730374	-1	None	None
3	LIMD1-AS1	ENSG00000230530	ENST00000429798	antisense	KNOWN	None	44107	None	None	45720724	45730626	-1	None	None
17	None	ENSG00000267659	ENST00000587999	lincRNA	KNOWN	None	None	None	None	66587937	66760023	1	None	None
17	None	ENSG00000267659	ENST00000589610	lincRNA	KNOWN	None	None	None	None	66587980	66746693	1	None	None
17	None	ENSG00000267659	ENST00000591754	lincRNA	KNOWN	None	None	None	None	66624244	66673307	1	None	None
17	None	ENSG00000267659	ENST00000585484	lincRNA	KNOWN	None	None	None	None	66624295	66675747	1	None	None
3	None	ENSG00000243396	ENST00000477747	processed_pseudogene	KNOWN	None	None	None	None	101318087	101318488	-1	None	None
12	None	ENSG00000224438	ENST00000468281	processed_pseudogene	KNOWN	None	None	None	None	2891070	2891537	1	None	None
12	None	ENSG00000257564	ENST00000546724	processed_pseudogene	KNOWN	None	None	None	None	79187306	79187894	-1	None	None
14	None	ENSG00000170468	ENST00000304061	pseudogene	KNOWN	None	None	None	None	73957644	73960105	1	None	None
11	GLYATL1P2	ENSG00000254717	ENST00000529451	processed_transcript	KNOWN	None	37863	None	None	58645775	58660445	1	None	None
11	GLYATL1P2	ENSG00000254717	ENST00000588046	transcribed_unprocessed_pseudogene	KNOWN	None	37863	None	None	58652420	58660933	1	None	None
HG185_PATCH	DNAJC7	ENSG00000262684	ENST00000572436	protein_coding	KNOWN	None	12392	1485	494	40132691	40173905	-1	TTC2	TPR2
HG185_PATCH	DNAJC7	ENSG00000262684	ENST00000577172	protein_coding	KNOWN	None	12392	1317	438	40132916	40173671	-1	TTC2	TPR2
21	LINC00205	ENSG00000223768	ENST00000433465	lincRNA	KNOWN	None	16420	None	None	46713200	46717269	1	C21orf86, NCRNA00205	None
2	None	ENSG00000243637	ENST00000442524	processed_transcript	KNOWN	None	None	None	None	234263220	234301045	1	None	None
11	None	ENSG00000254484	ENST00000531426	sense_intronic	KNOWN	None	None	None	None	70166034	70167521	1	None	None
16	None	ENSG00000261466	ENST00000568893	lincRNA	KNOWN	None	None	None	None	33350764	33356875	-1	None	None
12	None	ENSG00000255919	ENST00000544259	processed_pseudogene	KNOWN	None	None	None	None	133793796	133794261	-1	None	None
10	RNU7-165P	ENSG00000238380	ENST00000458864	snRNA	KNOWN	None	45699	None	None	115113184	115113243	1	None	None
1	RPF1	ENSG00000117133	ENST00000370656	protein_coding	KNOWN	None	30350	390	129	84944942	84949013	1	BXDC5	None
1	RPF1	ENSG00000117133	ENST00000370654	protein_coding	KNOWN	CCDS695	30350	1050	349	84944950	84963473	1	BXDC5	None
21	LINC00315	ENSG00000184274	ENST00000441947	lincRNA	KNOWN	None	16621	None	None	46720160	46725172	-1	C21orf93, NCRNA00315	None
12	None	ENSG00000271642	ENST00000604796	processed_pseudogene	KNOWN	None	None	None	None	47075854	47076496	-1	None	None
12	MSRB3	ENSG00000174099	ENST00000355192	protein_coding	KNOWN	CCDS8973	27375	579	192	65672423	65860686	1	DFNB74	FLJ36866, DKFZp686C1178
12	MSRB3	ENSG00000174099	ENST00000308259	protein_coding	KNOWN	CCDS31853	27375	558	185	65672423	65860687	1	DFNB74	FLJ36866, DKFZp686C1178
12	MSRB3	ENSG00000174099	ENST00000541897	nonsense_mediated_decay	KNOWN	None	27375	135	44	65672449	65856972	1	DFNB74	FLJ36866, DKFZp686C1178
12	MSRB3	ENSG00000174099	ENST00000538725	processed_transcript	PUTATIVE	None	27375	None	None	65672484	65710097	1	DFNB74	FLJ36866, DKFZp686C1178
12	MSRB3	ENSG00000174099	ENST00000540804	protein_coding	PUTATIVE	None	27375	483	160	65672512	65848041	1	DFNB74	FLJ36866, DKFZp686C1178
12	MSRB3	ENSG00000174099	ENST00000535664	protein_coding	KNOWN	CCDS31853	27375	558	185	65672522	65857169	1	DFNB74	FLJ36866, DKFZp686C1178
12	MSRB3	ENSG00000174099	ENST00000541189	protein_coding	PUTATIVE	None	27375	523	173	65672524	65881875	1	DFNB74	FLJ36866, DKFZp686C1178
12	MSRB3	ENSG00000174099	ENST00000538045	protein_coding	KNOWN	None	27375	352	116	65672706	65847567	1	DFNB74	FLJ36866, DKFZp686C1178
12	MSRB3	ENSG00000174099	ENST00000535239	protein_coding	KNOWN	None	27375	494	163	65672767	65857038	1	DFNB74	FLJ36866, DKFZp686C1178
12	MSRB3	ENSG00000174099	ENST00000446731	protein_coding	PUTATIVE	None	27375	352	116	65720655	65882024	1	DFNB74	FLJ36866, DKFZp686C1178
12	MSRB3	ENSG00000174099	ENST00000535143	processed_transcript	KNOWN	None	27375	None	None	65737914	65857124	1	DFNB74	FLJ36866, DKFZp686C1178
3	None	ENSG00000243154	ENST00000473622	processed_pseudogene	KNOWN	None	None	None	None	154369445	154370212	-1	None	None
16	None	ENSG00000261405	ENST00000568520	processed_transcript	KNOWN	None	None	None	None	33365116	33366813	-1	None	None
16	None	ENSG00000261405	ENST00000567422	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	33365497	33373402	-1	None	None
9	CDKN2B-AS1	ENSG00000240498	ENST00000468603	antisense	KNOWN	None	34341	None	None	21994777	22032955	1	None	ANRIL, CDKN2BAS, RP11-145E5.4, NCRNA00089, p15AS, CDKN2B-AS, PCAT12
9	CDKN2B-AS1	ENSG00000240498	ENST00000584351	antisense	KNOWN	None	34341	None	None	21994790	22077889	1	None	ANRIL, CDKN2BAS, RP11-145E5.4, NCRNA00089, p15AS, CDKN2B-AS, PCAT12
9	CDKN2B-AS1	ENSG00000240498	ENST00000583719	antisense	KNOWN	None	34341	None	None	21994790	22077889	1	None	ANRIL, CDKN2BAS, RP11-145E5.4, NCRNA00089, p15AS, CDKN2B-AS, PCAT12
9	CDKN2B-AS1	ENSG00000240498	ENST00000580467	antisense	KNOWN	None	34341	None	None	21994790	22077889	1	None	ANRIL, CDKN2BAS, RP11-145E5.4, NCRNA00089, p15AS, CDKN2B-AS, PCAT12
9	CDKN2B-AS1	ENSG00000240498	ENST00000585267	antisense	KNOWN	None	34341	None	None	21994790	22120543	1	None	ANRIL, CDKN2BAS, RP11-145E5.4, NCRNA00089, p15AS, CDKN2B-AS, PCAT12
9	CDKN2B-AS1	ENSG00000240498	ENST00000580576	antisense	KNOWN	None	34341	None	None	21994790	22120645	1	None	ANRIL, CDKN2BAS, RP11-145E5.4, NCRNA00089, p15AS, CDKN2B-AS, PCAT12
9	CDKN2B-AS1	ENSG00000240498	ENST00000428597	antisense	KNOWN	None	34341	None	None	21994790	22121094	1	None	ANRIL, CDKN2BAS, RP11-145E5.4, NCRNA00089, p15AS, CDKN2B-AS, PCAT12
9	CDKN2B-AS1	ENSG00000240498	ENST00000582301	antisense	KNOWN	None	34341	None	None	21994901	22077889	1	None	ANRIL, CDKN2BAS, RP11-145E5.4, NCRNA00089, p15AS, CDKN2B-AS, PCAT12
9	CDKN2B-AS1	ENSG00000240498	ENST00000584816	antisense	KNOWN	None	34341	None	None	21994901	22120571	1	None	ANRIL, CDKN2BAS, RP11-145E5.4, NCRNA00089, p15AS, CDKN2B-AS, PCAT12
9	CDKN2B-AS1	ENSG00000240498	ENST00000584020	antisense	KNOWN	None	34341	None	None	21994901	22120571	1	None	ANRIL, CDKN2BAS, RP11-145E5.4, NCRNA00089, p15AS, CDKN2B-AS, PCAT12
9	CDKN2B-AS1	ENSG00000240498	ENST00000577551	antisense	KNOWN	None	34341	None	None	21994901	22120571	1	None	ANRIL, CDKN2BAS, RP11-145E5.4, NCRNA00089, p15AS, CDKN2B-AS, PCAT12
9	CDKN2B-AS1	ENSG00000240498	ENST00000584637	antisense	KNOWN	None	34341	None	None	21994901	22120571	1	None	ANRIL, CDKN2BAS, RP11-145E5.4, NCRNA00089, p15AS, CDKN2B-AS, PCAT12
9	CDKN2B-AS1	ENSG00000240498	ENST00000581051	antisense	KNOWN	None	34341	None	None	21994901	22120571	1	None	ANRIL, CDKN2BAS, RP11-145E5.4, NCRNA00089, p15AS, CDKN2B-AS, PCAT12
9	CDKN2B-AS1	ENSG00000240498	ENST00000582072	antisense	KNOWN	None	34341	None	None	21994901	22120571	1	None	ANRIL, CDKN2BAS, RP11-145E5.4, NCRNA00089, p15AS, CDKN2B-AS, PCAT12
9	CDKN2B-AS1	ENSG00000240498	ENST00000455933	antisense	KNOWN	None	34341	None	None	21995094	22077890	1	None	ANRIL, CDKN2BAS, RP11-145E5.4, NCRNA00089, p15AS, CDKN2B-AS, PCAT12
9	CDKN2B-AS1	ENSG00000240498	ENST00000421632	antisense	KNOWN	None	34341	None	None	22046750	22118701	1	None	ANRIL, CDKN2BAS, RP11-145E5.4, NCRNA00089, p15AS, CDKN2B-AS, PCAT12
9	CDKN2B-AS1	ENSG00000240498	ENST00000422420	antisense	KNOWN	None	34341	None	None	22113677	22121096	1	None	ANRIL, CDKN2BAS, RP11-145E5.4, NCRNA00089, p15AS, CDKN2B-AS, PCAT12
2	None	ENSG00000201013	ENST00000364143	misc_RNA	NOVEL	None	None	None	None	234288489	234288601	-1	None	None
7	None	ENSG00000271664	ENST00000605566	unprocessed_pseudogene	KNOWN	None	None	None	None	148972710	148975083	-1	None	None
3	RNU6-1256P	ENSG00000252348	ENST00000516539	snRNA	KNOWN	None	48219	None	None	101334670	101334772	1	None	None
15	KRT8P50	ENSG00000260799	ENST00000562022	processed_pseudogene	KNOWN	None	48346	None	None	43093166	43094603	-1	None	None
1	LINC00623	ENSG00000235398	ENST00000426301	lincRNA	KNOWN	None	44252	None	None	144275918	144341077	-1	None	None
1	LINC00623	ENSG00000235398	ENST00000422036	lincRNA	KNOWN	None	44252	None	None	144276398	144311493	-1	None	None
1	LINC00623	ENSG00000235398	ENST00000446174	lincRNA	KNOWN	None	44252	None	None	144276398	144311564	-1	None	None
1	LINC00623	ENSG00000235398	ENST00000411795	lincRNA	KNOWN	None	44252	None	None	144276402	144340736	-1	None	None
1	LINC00623	ENSG00000235398	ENST00000429241	lincRNA	KNOWN	None	44252	None	None	144277291	144311564	-1	None	None
1	LINC00623	ENSG00000235398	ENST00000449092	lincRNA	KNOWN	None	44252	None	None	144280383	144281169	-1	None	None
1	LINC00623	ENSG00000235398	ENST00000452480	lincRNA	KNOWN	None	44252	None	None	144281154	144290308	-1	None	None
1	LINC00623	ENSG00000235398	ENST00000436211	lincRNA	KNOWN	None	44252	None	None	144281157	144289980	-1	None	None
1	LINC00623	ENSG00000235398	ENST00000418974	lincRNA	KNOWN	None	44252	None	None	144284105	144311653	-1	None	None
1	LINC00623	ENSG00000235398	ENST00000417976	lincRNA	KNOWN	None	44252	None	None	144299758	144301536	-1	None	None
1	LINC00623	ENSG00000235398	ENST00000441423	lincRNA	KNOWN	None	44252	None	None	144300512	144340671	-1	None	None
1	LINC00623	ENSG00000235398	ENST00000439332	lincRNA	KNOWN	None	44252	None	None	144300515	144340736	-1	None	None
1	LINC00623	ENSG00000235398	ENST00000457645	lincRNA	KNOWN	None	44252	None	None	144300517	144301385	-1	None	None
1	LINC00623	ENSG00000235398	ENST00000414119	lincRNA	KNOWN	None	44252	None	None	144301326	144341057	-1	None	None
1	LINC00623	ENSG00000235398	ENST00000422629	lincRNA	KNOWN	None	44252	None	None	144301398	144341756	-1	None	None
1	LINC00623	ENSG00000235398	ENST00000433598	lincRNA	KNOWN	None	44252	None	None	144325552	144340593	-1	None	None
1	LINC00623	ENSG00000235398	ENST00000412194	lincRNA	KNOWN	None	44252	None	None	144325839	144336254	-1	None	None
1	LINC00623	ENSG00000235398	ENST00000440719	lincRNA	KNOWN	None	44252	None	None	144326026	144340754	-1	None	None
2	None	ENSG00000271639	ENST00000604535	processed_pseudogene	KNOWN	None	None	None	None	234454128	234455678	1	None	None
2	QPCT	ENSG00000115828	ENST00000338415	protein_coding	KNOWN	CCDS1790	9753	1086	361	37571717	37600465	1	None	QC, GCT
2	QPCT	ENSG00000115828	ENST00000404976	protein_coding	NOVEL	None	9753	854	283	37571737	37599885	1	None	QC, GCT
2	QPCT	ENSG00000115828	ENST00000470075	retained_intron	KNOWN	None	9753	None	None	37571871	37587196	1	None	QC, GCT
2	QPCT	ENSG00000115828	ENST00000480050	retained_intron	KNOWN	None	9753	None	None	37585855	37596845	1	None	QC, GCT
2	QPCT	ENSG00000115828	ENST00000469098	retained_intron	KNOWN	None	9753	None	None	37594266	37600173	1	None	QC, GCT
2	QPCT	ENSG00000115828	ENST00000444022	protein_coding	PUTATIVE	None	9753	353	116	37595424	37599942	1	None	QC, GCT
2	QPCT	ENSG00000115828	ENST00000537448	protein_coding	KNOWN	None	9753	939	312	37571852	37600464	1	None	QC, GCT
11	RBM4	ENSG00000173933	ENST00000310092	protein_coding	KNOWN	CCDS41676	9901	1095	364	66406088	66413940	1	None	LARK, RBM4A, ZCRB3A, ZCCHC21
11	RBM4	ENSG00000173933	ENST00000396053	protein_coding	PUTATIVE	CCDS55777	9901	522	173	66406138	66434153	1	None	LARK, RBM4A, ZCRB3A, ZCCHC21
11	RBM4	ENSG00000173933	ENST00000408993	protein_coding	KNOWN	CCDS41676	9901	1095	364	66406143	66413923	1	None	LARK, RBM4A, ZCRB3A, ZCCHC21
11	RBM4	ENSG00000173933	ENST00000578778	protein_coding	PUTATIVE	None	9901	468	155	66406162	66419843	1	None	LARK, RBM4A, ZCRB3A, ZCCHC21
11	RBM4	ENSG00000173933	ENST00000483858	protein_coding	KNOWN	None	9901	534	177	66406169	66408663	1	None	LARK, RBM4A, ZCRB3A, ZCCHC21
11	RBM4	ENSG00000173933	ENST00000398692	protein_coding	PUTATIVE	CCDS55776	9901	432	143	66406169	66413939	1	None	LARK, RBM4A, ZCRB3A, ZCCHC21
11	RBM4	ENSG00000173933	ENST00000510173	protein_coding	PUTATIVE	None	9901	722	239	66406176	66411560	1	None	LARK, RBM4A, ZCRB3A, ZCCHC21
11	RBM4	ENSG00000173933	ENST00000528039	processed_transcript	PUTATIVE	None	9901	None	None	66406187	66413939	1	None	LARK, RBM4A, ZCRB3A, ZCCHC21
11	RBM4	ENSG00000173933	ENST00000506523	protein_coding	PUTATIVE	None	9901	453	150	66406189	66417401	1	None	LARK, RBM4A, ZCRB3A, ZCCHC21
11	RBM4	ENSG00000173933	ENST00000530235	protein_coding	PUTATIVE	CCDS55776	9901	432	143	66406191	66413910	1	None	LARK, RBM4A, ZCRB3A, ZCCHC21
11	RBM4	ENSG00000173933	ENST00000532968	protein_coding	KNOWN	None	9901	534	177	66406198	66407760	1	None	LARK, RBM4A, ZCRB3A, ZCCHC21
11	RBM4	ENSG00000173933	ENST00000409406	protein_coding	KNOWN	CCDS41676	9901	1095	364	66406406	66413938	1	None	LARK, RBM4A, ZCRB3A, ZCCHC21
11	RBM4	ENSG00000173933	ENST00000515838	processed_transcript	PUTATIVE	None	9901	None	None	66411221	66413939	1	None	LARK, RBM4A, ZCRB3A, ZCCHC21
11	RBM4	ENSG00000173933	ENST00000514361	protein_coding	KNOWN	CCDS55774	9901	1020	339	66384097	66413938	1	None	LARK, RBM4A, ZCRB3A, ZCCHC21
11	RBM4	ENSG00000173933	ENST00000503028	protein_coding	KNOWN	CCDS41676	9901	1095	364	66384102	66412103	1	None	LARK, RBM4A, ZCRB3A, ZCCHC21
3	None	ENSG00000242151	ENST00000467158	processed_pseudogene	KNOWN	None	None	None	None	154375083	154375352	1	None	None
11	None	ENSG00000255539	ENST00000526017	antisense	KNOWN	None	None	None	None	70170977	70173315	-1	None	None
6	CUTA	ENSG00000112514	ENST00000462802	retained_intron	KNOWN	None	21101	None	None	33384219	33385820	-1	C6orf82, ACHAP	None
6	CUTA	ENSG00000112514	ENST00000374500	protein_coding	KNOWN	CCDS34432	21101	597	198	33384219	33386094	-1	C6orf82, ACHAP	None
6	CUTA	ENSG00000112514	ENST00000479249	retained_intron	KNOWN	None	21101	None	None	33384319	33385320	-1	C6orf82, ACHAP	None
6	CUTA	ENSG00000112514	ENST00000488034	protein_coding	KNOWN	CCDS34433	21101	540	179	33384320	33385899	-1	C6orf82, ACHAP	None
6	CUTA	ENSG00000112514	ENST00000607266	protein_coding	KNOWN	CCDS4779	21101	471	156	33384327	33385708	-1	C6orf82, ACHAP	None
6	CUTA	ENSG00000112514	ENST00000494751	protein_coding	PUTATIVE	None	21101	408	135	33384327	33385835	-1	C6orf82, ACHAP	None
6	CUTA	ENSG00000112514	ENST00000488478	protein_coding	PUTATIVE	None	21101	468	155	33384327	33385863	-1	C6orf82, ACHAP	None
6	CUTA	ENSG00000112514	ENST00000482684	nonsense_mediated_decay	KNOWN	None	21101	129	42	33384327	33385884	-1	C6orf82, ACHAP	None
6	CUTA	ENSG00000112514	ENST00000374484	nonsense_mediated_decay	KNOWN	None	21101	335	110	33384327	33385919	-1	C6orf82, ACHAP	None
6	CUTA	ENSG00000112514	ENST00000465956	retained_intron	KNOWN	None	21101	None	None	33384328	33385666	-1	C6orf82, ACHAP	None
6	CUTA	ENSG00000112514	ENST00000440279	protein_coding	KNOWN	CCDS4779	21101	471	156	33384329	33385698	-1	C6orf82, ACHAP	None
6	CUTA	ENSG00000112514	ENST00000487637	retained_intron	KNOWN	None	21101	None	None	33384338	33385885	-1	C6orf82, ACHAP	None
6	CUTA	ENSG00000112514	ENST00000374496	protein_coding	KNOWN	CCDS4779	21101	471	156	33384396	33385847	-1	C6orf82, ACHAP	None
6	CUTA	ENSG00000112514	ENST00000492510	processed_transcript	KNOWN	None	21101	None	None	33385761	33385964	-1	C6orf82, ACHAP	None
15	LOXL1-AS1	ENSG00000261801	ENST00000565689	antisense	KNOWN	None	44169	None	None	74200424	74212211	-1	None	None
15	LOXL1-AS1	ENSG00000261801	ENST00000568229	antisense	KNOWN	None	44169	None	None	74200537	74218672	-1	None	None
15	LOXL1-AS1	ENSG00000261801	ENST00000568087	antisense	KNOWN	None	44169	None	None	74202113	74220283	-1	None	None
15	LOXL1-AS1	ENSG00000261801	ENST00000567644	antisense	KNOWN	None	44169	None	None	74208645	74218639	-1	None	None
15	LOXL1-AS1	ENSG00000261801	ENST00000567257	antisense	KNOWN	None	44169	None	None	74209937	74220127	-1	None	None
15	LOXL1-AS1	ENSG00000261801	ENST00000564194	antisense	KNOWN	None	44169	None	None	74209942	74220589	-1	None	None
15	LOXL1-AS1	ENSG00000261801	ENST00000565756	antisense	KNOWN	None	44169	None	None	74211102	74220300	-1	None	None
15	LOXL1-AS1	ENSG00000261801	ENST00000566675	antisense	KNOWN	None	44169	None	None	74211369	74220544	-1	None	None
15	LOXL1-AS1	ENSG00000261801	ENST00000562965	antisense	KNOWN	None	44169	None	None	74211381	74220301	-1	None	None
15	LOXL1-AS1	ENSG00000261801	ENST00000562739	antisense	KNOWN	None	44169	None	None	74211400	74220036	-1	None	None
15	LOXL1-AS1	ENSG00000261801	ENST00000562130	antisense	KNOWN	None	44169	None	None	74211496	74218683	-1	None	None
15	LOXL1-AS1	ENSG00000261801	ENST00000565416	antisense	KNOWN	None	44169	None	None	74211502	74220281	-1	None	None
15	LOXL1-AS1	ENSG00000261801	ENST00000564963	antisense	KNOWN	None	44169	None	None	74211544	74220036	-1	None	None
1	FAM138A	ENSG00000237613	ENST00000417324	lincRNA	KNOWN	None	32334	None	None	34554	36081	-1	None	F379
1	FAM138A	ENSG00000237613	ENST00000461467	lincRNA	KNOWN	None	32334	None	None	35245	36073	-1	None	F379
X	None	ENSG00000197180	ENST00000360656	pseudogene	KNOWN	None	None	None	None	153656537	153656795	-1	None	None
3	RNU4ATAC17P	ENSG00000253081	ENST00000517272	snRNA	KNOWN	None	46903	None	None	8406215	8406334	-1	None	None
11	None	ENSG00000255452	ENST00000530377	processed_pseudogene	KNOWN	None	None	None	None	49113956	49114319	1	None	None
3	None	ENSG00000238912	ENST00000391229	misc_RNA	NOVEL	None	None	None	None	27589248	27589349	-1	None	None
17	None	ENSG00000263690	ENST00000582790	miRNA	NOVEL	None	None	None	None	66762614	66762700	-1	None	None
21	None	ENSG00000229382	ENST00000445242	lincRNA	KNOWN	None	None	None	None	46756622	46758580	1	None	None
3	None	ENSG00000212319	ENST00000391017	misc_RNA	NOVEL	None	None	None	None	101347154	101347250	-1	None	None
8	None	ENSG00000252176	ENST00000516367	miRNA	NOVEL	None	None	None	None	39418456	39418546	1	None	None
3	None	ENSG00000252504	ENST00000516695	miRNA	NOVEL	None	None	None	None	53243969	53244062	-1	None	None
3	None	ENSG00000231401	ENST00000435368	lincRNA	KNOWN	None	None	None	None	8406393	8408078	-1	None	None
14	TM9SF1	ENSG00000100926	ENST00000261789	protein_coding	KNOWN	CCDS9617	11864	1821	606	24658349	24664893	-1	None	MP70, HMP70
14	TM9SF1	ENSG00000100926	ENST00000528669	protein_coding	PUTATIVE	None	11864	1770	589	24658355	24664614	-1	None	MP70, HMP70
14	TM9SF1	ENSG00000100926	ENST00000529332	nonsense_mediated_decay	KNOWN	None	11864	1263	420	24658398	24664659	-1	None	MP70, HMP70
14	TM9SF1	ENSG00000100926	ENST00000524835	protein_coding	NOVEL	None	11864	1560	519	24658607	24664843	-1	None	MP70, HMP70
14	TM9SF1	ENSG00000100926	ENST00000532632	protein_coding	PUTATIVE	None	11864	401	132	24658743	24664623	-1	None	MP70, HMP70
14	TM9SF1	ENSG00000100926	ENST00000396854	protein_coding	KNOWN	CCDS41934	11864	1470	489	24659248	24664824	-1	None	MP70, HMP70
14	TM9SF1	ENSG00000100926	ENST00000531406	retained_intron	KNOWN	None	11864	None	None	24660940	24662319	-1	None	MP70, HMP70
14	TM9SF1	ENSG00000100926	ENST00000528895	protein_coding	KNOWN	None	11864	902	299	24661919	24664556	-1	None	MP70, HMP70
14	TM9SF1	ENSG00000100926	ENST00000530563	protein_coding	NOVEL	None	11864	623	206	24661937	24664540	-1	None	MP70, HMP70
14	TM9SF1	ENSG00000100926	ENST00000530468	protein_coding	KNOWN	None	11864	772	256	24662049	24664790	-1	None	MP70, HMP70
14	TM9SF1	ENSG00000100926	ENST00000525592	protein_coding	KNOWN	None	11864	727	241	24662094	24664893	-1	None	MP70, HMP70
14	TM9SF1	ENSG00000100926	ENST00000528010	protein_coding	KNOWN	None	11864	630	209	24662191	24664793	-1	None	MP70, HMP70
14	TM9SF1	ENSG00000100926	ENST00000556387	protein_coding	KNOWN	None	11864	2448	815	24658363	24682679	-1	None	MP70, HMP70
17	None	ENSG00000267250	ENST00000591379	lincRNA	KNOWN	None	None	None	None	66789690	66793963	-1	None	None
12	RNU6-717P	ENSG00000239190	ENST00000459076	snRNA	KNOWN	None	47680	None	None	133814921	133815024	-1	None	None
X	None	ENSG00000264783	ENST00000582532	miRNA	NOVEL	None	None	None	None	153722476	153722545	1	None	None
3	None	ENSG00000201511	ENST00000364641	misc_RNA	NOVEL	None	None	None	None	101366265	101366366	1	None	None
12	CBX3P4	ENSG00000256030	ENST00000538909	transcribed_processed_pseudogene	KNOWN	None	42876	None	None	2896097	2896748	-1	None	None
12	CBX3P4	ENSG00000256030	ENST00000540428	processed_transcript	KNOWN	None	42876	None	None	2896530	2903461	-1	None	None
2	UGT1A12P	ENSG00000228949	ENST00000447084	unprocessed_pseudogene	KNOWN	None	12533	None	None	234494085	234494937	1	None	UGT1L
12	None	ENSG00000257948	ENST00000546563	processed_transcript	PUTATIVE	None	None	None	None	79198128	79202279	1	None	None
7	None	ENSG00000233489	ENST00000449315	processed_pseudogene	KNOWN	None	None	None	None	153146514	153146960	1	None	None
12	HTR7P1	ENSG00000183935	ENST00000535469	processed_transcript	KNOWN	None	30411	None	None	13153354	13157764	1	HTR7P	None
12	HTR7P1	ENSG00000183935	ENST00000538670	transcribed_processed_pseudogene	KNOWN	None	30411	None	None	13154433	13155768	1	HTR7P	None
12	HTR7P1	ENSG00000183935	ENST00000331998	processed_pseudogene	KNOWN	None	30411	None	None	13152812	13155177	1	HTR7P	None
15	FDPSP4	ENSG00000254793	ENST00000534629	processed_pseudogene	KNOWN	None	3635	None	None	43231508	43232556	-1	FPSL4, CHR39B, FDPSL4	None
11	None	ENSG00000254495	ENST00000324630	antisense	KNOWN	None	None	None	None	70204304	70204783	-1	None	None
9	ATP5A1P7	ENSG00000241571	ENST00000453978	processed_pseudogene	KNOWN	None	37665	None	None	46998213	46999491	1	None	None
17	ABCA9-AS1	ENSG00000231749	ENST00000458677	antisense	KNOWN	None	39983	None	None	67000855	67014464	1	None	None
12	RPS11P6	ENSG00000243024	ENST00000535684	processed_transcript	KNOWN	None	36693	None	None	64616117	64790845	1	None	None
12	RPS11P6	ENSG00000243024	ENST00000482431	processed_transcript	KNOWN	None	36693	None	None	64746097	64790845	1	None	None
12	RPS11P6	ENSG00000243024	ENST00000488306	processed_transcript	KNOWN	None	36693	None	None	64784522	64790845	1	None	None
12	RPS11P6	ENSG00000243024	ENST00000483430	transcribed_processed_pseudogene	KNOWN	None	36693	None	None	64790313	64790777	1	None	None
13	RNF113B	ENSG00000139797	ENST00000267291	protein_coding	KNOWN	CCDS9486	17267	969	322	98828039	98829519	-1	ZNF183L1	RNF161
11	None	ENSG00000254412	ENST00000525324	processed_pseudogene	KNOWN	None	None	None	None	49119715	49122720	-1	None	None
9	None	ENSG00000234276	ENST00000438345	processed_pseudogene	KNOWN	None	None	None	None	47001334	47001835	1	None	None
3	LINC00312	ENSG00000237697	ENST00000442796	lincRNA	KNOWN	None	6662	None	None	8613468	8615561	1	LOH3CR2A, NCRNA00312	NAG7, NAG-7, ERR10, ERR-10
8	None	ENSG00000254082	ENST00000519537	lincRNA	KNOWN	None	None	None	None	39424224	39437653	1	None	None
8	None	ENSG00000254082	ENST00000523523	lincRNA	KNOWN	None	None	None	None	39433113	39437653	1	None	None
12	None	ENSG00000258352	ENST00000553227	transcribed_processed_pseudogene	KNOWN	None	None	None	None	47529281	47529684	-1	None	None
12	None	ENSG00000258352	ENST00000548463	processed_transcript	KNOWN	None	None	None	None	47529545	47532153	-1	None	None
3	None	ENSG00000240601	ENST00000491096	processed_pseudogene	KNOWN	None	None	None	None	154394377	154394908	-1	None	None
12	None	ENSG00000238443	ENST00000459107	misc_RNA	NOVEL	None	None	None	None	133815041	133815135	1	None	None
8	None	ENSG00000253385	ENST00000519337	lincRNA	KNOWN	None	None	None	None	103866683	103868303	1	None	None
11	RNU6-44P	ENSG00000206772	ENST00000384045	snRNA	KNOWN	None	34288	None	None	112223279	112223385	-1	RNU6-44	None
3	RN7SL145P	ENSG00000244357	ENST00000469955	misc_RNA	KNOWN	None	46161	None	None	45784167	45784460	1	None	None
3	None	ENSG00000224884	ENST00000437047	lincRNA	KNOWN	None	None	None	None	8615412	8634810	-1	None	None
9	None	ENSG00000235256	ENST00000433874	processed_pseudogene	KNOWN	None	None	None	None	47021337	47022699	-1	None	None
2	UGT1A11P	ENSG00000227846	ENST00000456635	unprocessed_pseudogene	KNOWN	None	12532	None	None	234512199	234513047	1	None	UGT1K
19	NANOS2	ENSG00000188425	ENST00000341294	protein_coding	KNOWN	CCDS33056	23292	417	138	46416475	46418036	-1	None	NOS2
3	None	ENSG00000223968	ENST00000426040	processed_pseudogene	KNOWN	None	None	None	None	27665693	27665947	-1	None	None
3	None	ENSG00000236930	ENST00000425889	processed_pseudogene	KNOWN	None	None	None	None	45925132	45925605	-1	None	None
12	None	ENSG00000257191	ENST00000548384	antisense	KNOWN	None	None	None	None	79354038	79439424	-1	None	None
5	RPS14	ENSG00000164587	ENST00000401695	protein_coding	KNOWN	CCDS4307	10387	456	151	149822753	149829310	-1	None	EMTB, S14
5	RPS14	ENSG00000164587	ENST00000521466	protein_coding	KNOWN	CCDS4307	10387	456	151	149823796	149828476	-1	None	EMTB, S14
5	RPS14	ENSG00000164587	ENST00000518139	nonsense_mediated_decay	KNOWN	None	10387	405	134	149823801	149827298	-1	None	EMTB, S14
5	RPS14	ENSG00000164587	ENST00000312037	protein_coding	KNOWN	CCDS4307	10387	456	151	149823801	149829259	-1	None	EMTB, S14
5	RPS14	ENSG00000164587	ENST00000519690	retained_intron	KNOWN	None	10387	None	None	149823801	149829290	-1	None	EMTB, S14
5	RPS14	ENSG00000164587	ENST00000519855	protein_coding	PUTATIVE	None	10387	362	119	149824987	149826500	-1	None	EMTB, S14
5	RPS14	ENSG00000164587	ENST00000407193	protein_coding	KNOWN	CCDS4307	10387	456	151	149823794	149829319	-1	None	EMTB, S14
11	RNA5SP330	ENSG00000252905	ENST00000517096	rRNA	KNOWN	None	43230	None	None	8866810	8866905	1	RN5S330	None
15	None	ENSG00000270919	ENST00000603875	antisense	KNOWN	None	None	None	None	80872370	80872907	-1	None	None
13	TPTE2P5	ENSG00000168852	ENST00000458118	transcribed_unprocessed_pseudogene	KNOWN	None	42356	None	None	41396432	41438488	-1	None	None
13	TPTE2P5	ENSG00000168852	ENST00000432905	processed_transcript	KNOWN	None	42356	None	None	41400485	41429127	-1	None	None
13	TPTE2P5	ENSG00000168852	ENST00000379515	processed_transcript	KNOWN	None	42356	None	None	41400642	41495885	-1	None	None
13	TPTE2P5	ENSG00000168852	ENST00000456963	unprocessed_pseudogene	KNOWN	None	42356	None	None	41495610	41495890	-1	None	None
17	None	ENSG00000267361	ENST00000586611	processed_pseudogene	KNOWN	None	None	None	None	67090430	67091640	-1	None	None
7	None	ENSG00000226509	ENST00000439168	processed_pseudogene	KNOWN	None	None	None	None	153665750	153665911	-1	None	None
HG7_PATCH	TRBV21-1	ENSG00000260768	ENST00000563224	TR_V_pseudogene	KNOWN	None	12198	None	None	142378492	142378952	1	None	TRBV211, TCRBV10S1P, TCRBV21S1
3	None	ENSG00000201121	ENST00000364251	misc_RNA	NOVEL	None	None	None	None	101380904	101381008	-1	None	None
3	OR7E122P	ENSG00000215160	ENST00000383606	unprocessed_pseudogene	KNOWN	None	15050	None	None	8729829	8730845	1	None	OST719
8	None	ENSG00000253263	ENST00000523791	sense_intronic	KNOWN	None	None	None	None	103904104	103905836	1	None	None
11	None	ENSG00000255338	ENST00000532092	processed_pseudogene	KNOWN	None	None	None	None	49132308	49132772	1	None	None
3	PDCL3P4	ENSG00000244119	ENST00000489621	processed_pseudogene	KNOWN	None	44505	None	None	101431316	101432035	1	None	None
3	None	ENSG00000238565	ENST00000458956	snoRNA	NOVEL	None	None	None	None	53317216	53317319	-1	None	None
14	WDHD1	ENSG00000198554	ENST00000360586	protein_coding	KNOWN	CCDS9721	23170	3390	1129	55405668	55493795	-1	None	AND-1, CTF4, CHTF4
14	WDHD1	ENSG00000198554	ENST00000420358	protein_coding	KNOWN	CCDS41955	23170	3021	1006	55407877	55493823	-1	None	AND-1, CTF4, CHTF4
14	WDHD1	ENSG00000198554	ENST00000567693	nonsense_mediated_decay	KNOWN	None	23170	194	63	55407894	55458100	-1	None	AND-1, CTF4, CHTF4
14	WDHD1	ENSG00000198554	ENST00000475379	retained_intron	KNOWN	None	23170	None	None	55407989	55411325	-1	None	AND-1, CTF4, CHTF4
14	WDHD1	ENSG00000198554	ENST00000455555	protein_coding	KNOWN	None	23170	504	167	55475034	55493769	-1	None	AND-1, CTF4, CHTF4
14	WDHD1	ENSG00000198554	ENST00000421192	protein_coding	KNOWN	CCDS41955	23170	3021	1006	55408208	55493807	-1	None	AND-1, CTF4, CHTF4
14	WDHD1	ENSG00000198554	ENST00000359167	protein_coding	KNOWN	None	23170	1944	647	55407894	55458100	-1	None	AND-1, CTF4, CHTF4
3	None	ENSG00000243969	ENST00000478814	lincRNA	KNOWN	None	None	None	None	154544805	154578806	-1	None	None
HG281_PATCH	None	ENSG00000260061	ENST00000566381	processed_pseudogene	KNOWN	None	None	None	None	49904551	49904926	1	None	None
17	MIR4524A	ENSG00000265331	ENST00000581569	miRNA	KNOWN	None	41771	None	None	67095683	67095797	1	MIR4524	hsa-mir-4524
17	MIR4524B	ENSG00000265331	ENST00000581569	miRNA	KNOWN	None	43520	None	None	67095683	67095797	1	None	hsa-mir-4524b
11	None	ENSG00000202276	ENST00000365406	misc_RNA	NOVEL	None	None	None	None	8898964	8899065	-1	None	None
Y	RPS4Y1	ENSG00000129824	ENST00000250784	protein_coding	KNOWN	CCDS14773	10425	792	263	2709527	2735309	1	RPS4Y	MGC5070, MGC119100, S4
Y	RPS4Y1	ENSG00000129824	ENST00000430575	protein_coding	KNOWN	None	10425	787	261	2709961	2734903	1	RPS4Y	MGC5070, MGC119100, S4
Y	RPS4Y1	ENSG00000129824	ENST00000477725	processed_transcript	KNOWN	None	10425	None	None	2722137	2734997	1	RPS4Y	MGC5070, MGC119100, S4
3	None	ENSG00000244706	ENST00000470523	lincRNA	KNOWN	None	None	None	None	167584288	167588765	-1	None	None
15	None	ENSG00000266542	ENST00000583188	miRNA	KNOWN	None	None	None	None	80873444	80873580	1	None	None
3	None	ENSG00000265330	ENST00000584921	miRNA	NOVEL	None	None	None	None	8737000	8737076	1	None	None
14	None	ENSG00000224997	ENST00000429169	protein_coding	KNOWN	None	None	462	153	104177607	104179149	1	None	None
11	None	ENSG00000246889	ENST00000530690	antisense	KNOWN	None	None	None	None	70218352	70244468	-1	None	None
11	None	ENSG00000246889	ENST00000500185	antisense	KNOWN	None	None	None	None	70219516	70244594	-1	None	None
11	None	ENSG00000246889	ENST00000524619	antisense	KNOWN	None	None	None	None	70227197	70244408	-1	None	None
3	None	ENSG00000201635	ENST00000364765	misc_RNA	NOVEL	None	None	None	None	45944679	45944790	1	None	None
HG7_PATCH	TRBV22-1	ENSG00000261619	ENST00000565909	TR_V_pseudogene	KNOWN	None	12200	None	None	142383314	142383764	1	TRBV22	TCRBV22S1, TCRBV29S1P
15	RNU6-380P	ENSG00000222139	ENST00000410207	snRNA	KNOWN	None	47343	None	None	80956113	80956219	1	None	None
17	None	ENSG00000268626	ENST00000599136	protein_coding	KNOWN	None	None	405	134	72346906	72348271	-1	None	None
17	SNRPGP4	ENSG00000267203	ENST00000588924	processed_pseudogene	KNOWN	None	39323	None	None	67314874	67315102	1	None	None
7	None	ENSG00000244560	ENST00000426347	processed_transcript	KNOWN	None	None	None	None	148982372	148990853	1	None	None
7	None	ENSG00000244560	ENST00000463462	processed_transcript	KNOWN	None	None	None	None	148982372	148991144	1	None	None
7	None	ENSG00000244560	ENST00000481817	processed_transcript	KNOWN	None	None	None	None	148982402	148990914	1	None	None
7	None	ENSG00000244560	ENST00000481968	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	148984705	148985008	1	None	None
7	None	ENSG00000244560	ENST00000416232	processed_transcript	KNOWN	None	None	None	None	148984790	148994403	1	None	None
7	None	ENSG00000244560	ENST00000480864	processed_transcript	KNOWN	None	None	None	None	148991180	148994393	1	None	None
11	None	ENSG00000223080	ENST00000411148	misc_RNA	NOVEL	None	None	None	None	8964927	8965014	-1	None	None
9	CD72	ENSG00000137101	ENST00000396757	protein_coding	KNOWN	CCDS6581	1696	1080	359	35609530	35619539	-1	None	LYB2, CD72b
9	CD72	ENSG00000137101	ENST00000490239	processed_transcript	KNOWN	None	1696	None	None	35609982	35618410	-1	None	LYB2, CD72b
9	CD72	ENSG00000137101	ENST00000463720	processed_transcript	KNOWN	None	1696	None	None	35615940	35618350	-1	None	LYB2, CD72b
9	CD72	ENSG00000137101	ENST00000477364	processed_transcript	KNOWN	None	1696	None	None	35615940	35618352	-1	None	LYB2, CD72b
9	CD72	ENSG00000137101	ENST00000378431	protein_coding	KNOWN	None	1696	360	119	35616167	35618367	-1	None	LYB2, CD72b
9	CD72	ENSG00000137101	ENST00000470387	processed_transcript	KNOWN	None	1696	None	None	35616563	35619531	-1	None	LYB2, CD72b
9	CD72	ENSG00000137101	ENST00000465754	processed_transcript	KNOWN	None	1696	None	None	35616600	35646807	-1	None	LYB2, CD72b
9	CD72	ENSG00000137101	ENST00000482121	processed_transcript	KNOWN	None	1696	None	None	35616891	35618373	-1	None	LYB2, CD72b
9	CD72	ENSG00000137101	ENST00000378430	protein_coding	KNOWN	None	1696	363	120	35616936	35618386	-1	None	LYB2, CD72b
9	CD72	ENSG00000137101	ENST00000259633	protein_coding	KNOWN	CCDS6581	1696	1080	359	35609976	35618424	-1	None	LYB2, CD72b
7	None	ENSG00000270114	ENST00000446335	antisense	KNOWN	None	None	None	None	153723372	153735689	-1	None	None
8	RPL5P24	ENSG00000244052	ENST00000463742	processed_pseudogene	KNOWN	None	35828	None	None	103935599	103936483	-1	None	None
2	UGT1A13P	ENSG00000234143	ENST00000424780	unprocessed_pseudogene	KNOWN	None	32191	None	None	234556572	234557672	1	None	None
11	None	ENSG00000254968	ENST00000528496	lincRNA	KNOWN	None	None	None	None	112263841	112412639	1	None	None
11	None	ENSG00000254968	ENST00000529238	lincRNA	KNOWN	None	None	None	None	112352955	112492452	1	None	None
11	None	ENSG00000254968	ENST00000529827	lincRNA	KNOWN	None	None	None	None	112355068	112358559	1	None	None
21	LINC00316	ENSG00000237664	ENST00000416722	lincRNA	KNOWN	None	19723	None	None	46758505	46761905	-1	C21orf111, NCRNA00316	PRED59
7	DLX6-AS2	ENSG00000271956	ENST00000606174	antisense	KNOWN	None	40183	None	None	96635695	96637022	-1	None	None
3	None	ENSG00000239213	ENST00000461864	antisense	KNOWN	None	None	None	None	136560568	136580879	-1	None	None
3	None	ENSG00000239213	ENST00000474250	antisense	KNOWN	None	None	None	None	136561033	136580891	-1	None	None
3	None	ENSG00000239213	ENST00000470236	antisense	KNOWN	None	None	None	None	136561299	136580896	-1	None	None
3	None	ENSG00000264097	ENST00000579448	miRNA	NOVEL	None	None	None	None	8737735	8737803	-1	None	None
14	BTBD7	ENSG00000011114	ENST00000355125	nonsense_mediated_decay	KNOWN	None	18269	79	25	93703896	93760274	-1	None	FLJ10648, FUP1
14	BTBD7	ENSG00000011114	ENST00000334746	protein_coding	KNOWN	CCDS32146	18269	3399	1132	93703896	93799367	-1	None	FLJ10648, FUP1
14	BTBD7	ENSG00000011114	ENST00000554565	protein_coding	KNOWN	None	18269	2346	781	93708379	93799385	-1	None	FLJ10648, FUP1
14	BTBD7	ENSG00000011114	ENST00000553975	protein_coding	NOVEL	None	18269	2244	747	93708384	93760495	-1	None	FLJ10648, FUP1
14	BTBD7	ENSG00000011114	ENST00000554644	retained_intron	KNOWN	None	18269	None	None	93721856	93760963	-1	None	FLJ10648, FUP1
14	BTBD7	ENSG00000011114	ENST00000298896	protein_coding	KNOWN	CCDS32147	18269	1233	410	93753974	93799438	-1	None	FLJ10648, FUP1
14	BTBD7	ENSG00000011114	ENST00000555525	protein_coding	PUTATIVE	None	18269	1437	478	93754018	93762504	-1	None	FLJ10648, FUP1
14	BTBD7	ENSG00000011114	ENST00000554968	protein_coding	KNOWN	None	18269	167	54	93761199	93798692	-1	None	FLJ10648, FUP1
14	BTBD7	ENSG00000011114	ENST00000393170	protein_coding	KNOWN	None	18269	2121	706	93708384	93760495	-1	None	FLJ10648, FUP1
19	NOVA2	ENSG00000104967	ENST00000263257	protein_coding	KNOWN	CCDS12679	7887	1479	492	46436992	46476804	-1	NOVA3	ANOVA
19	NOVA2	ENSG00000104967	ENST00000596784	protein_coding	PUTATIVE	None	7887	121	39	46444152	46465864	-1	NOVA3	ANOVA
19	NOVA2	ENSG00000104967	ENST00000599462	processed_transcript	KNOWN	None	7887	None	None	46470652	46476567	-1	NOVA3	ANOVA
HG281_PATCH	None	ENSG00000259809	ENST00000570097	processed_pseudogene	KNOWN	None	None	None	None	49913814	49915329	-1	None	None
17	None	ENSG00000252352	ENST00000516543	snoRNA	NOVEL	None	None	None	None	67351274	67351359	-1	None	None
15	None	ENSG00000271983	ENST00000607458	lincRNA	KNOWN	None	None	None	None	80985557	80986048	-1	None	None
3	NRBF2P2	ENSG00000226933	ENST00000413087	processed_pseudogene	KNOWN	None	44605	None	None	46064788	46065648	1	None	None
11	TMEM9B-AS1	ENSG00000254860	ENST00000525484	antisense	KNOWN	None	19230	None	None	8986222	8997830	1	C11orf18	None
11	TMEM9B-AS1	ENSG00000254860	ENST00000532599	antisense	KNOWN	None	19230	None	None	8986595	8999019	1	C11orf18	None
11	TMEM9B-AS1	ENSG00000254860	ENST00000534349	antisense	KNOWN	None	19230	None	None	8988127	8999074	1	C11orf18	None
14	CCDC177	ENSG00000255994	ENST00000543986	protein_coding	KNOWN	None	23243	267	88	70037483	70038032	-1	C14orf162	PLPL
17	None	ENSG00000267653	ENST00000585537	lincRNA	KNOWN	None	None	None	None	67473280	67497896	-1	None	None
7	HMGB3P21	ENSG00000224551	ENST00000452483	processed_pseudogene	KNOWN	None	39313	None	None	96764327	96764873	-1	None	None
15	MIR549	ENSG00000208003	ENST00000385268	miRNA	KNOWN	None	32803	None	None	81134319	81134414	-1	MIRN549	hsa-mir-549
11	None	ENSG00000254993	ENST00000524985	unprocessed_pseudogene	KNOWN	None	None	None	None	49138571	49146122	-1	None	None
3	None	ENSG00000249474	ENST00000490324	antisense	KNOWN	None	None	None	None	101542637	101543842	-1	None	None
8	None	ENSG00000201216	ENST00000364346	misc_RNA	NOVEL	None	None	None	None	103962695	103962792	-1	None	None
21	MTCO1P3	ENSG00000228930	ENST00000429327	processed_pseudogene	KNOWN	None	39604	None	None	46796106	46796297	-1	None	None
17	None	ENSG00000267194	ENST00000588041	lincRNA	KNOWN	None	None	None	None	67547499	67550002	1	None	None
HG7_PATCH	TRBVA	ENSG00000260794	ENST00000563355	TR_V_pseudogene	KNOWN	None	12247	None	None	142421876	142422330	1	None	TCRBV33S1
14	None	ENSG00000267909	ENST00000599174	protein_coding	KNOWN	CCDS59245	None	2124	707	70038216	70040339	-1	None	None
8	None	ENSG00000265898	ENST00000585114	miRNA	NOVEL	None	None	None	None	103973041	103973148	-1	None	None
12	None	ENSG00000221617	ENST00000408690	miRNA	NOVEL	None	None	None	None	93491027	93491120	1	None	None
3	None	ENSG00000214407	ENST00000465215	lincRNA	KNOWN	None	None	None	None	101659703	101716770	1	None	None
HG7_PATCH	TRBV26	ENSG00000260346	ENST00000563034	TR_V_pseudogene	KNOWN	None	12207	None	None	142436169	142436653	1	None	TCRBV26S1, TCRBV28S1P
15	None	ENSG00000259546	ENST00000560873	processed_transcript	KNOWN	None	None	None	None	81188531	81241208	-1	None	None
3	FLT1P1	ENSG00000229515	ENST00000451650	processed_pseudogene	KNOWN	None	44609	None	None	46183850	46185169	-1	None	None
2	None	ENSG00000224814	ENST00000439336	antisense	KNOWN	None	None	None	None	234602080	234617345	-1	None	None
2	None	ENSG00000226363	ENST00000426615	lincRNA	KNOWN	None	None	None	None	177042445	177043736	1	None	None
17	BTBD17	ENSG00000204347	ENST00000375366	protein_coding	KNOWN	CCDS32719	33758	1437	478	72352555	72358085	-1	None	LGALS3BPL, BTBD17A, TANGO10A
4	CYP2U1	ENSG00000155016	ENST00000332884	protein_coding	KNOWN	CCDS34047	20582	1635	544	108852525	108874613	1	None	SPG49
4	CYP2U1	ENSG00000155016	ENST00000513302	processed_transcript	KNOWN	None	20582	None	None	108852741	108857763	1	None	SPG49
4	CYP2U1	ENSG00000155016	ENST00000508453	protein_coding	NOVEL	None	20582	1008	335	108852752	108872823	1	None	SPG49
HG281_PATCH	OR4A1P	ENSG00000261160	ENST00000563782	unprocessed_pseudogene	KNOWN	None	8289	None	None	49919819	49920738	-1	OR4A20P	OR11-30
5	None	ENSG00000253236	ENST00000519929	lincRNA	KNOWN	None	None	None	None	163875428	163894408	-1	None	None
3	UQCRC2P1	ENSG00000236736	ENST00000417777	processed_pseudogene	KNOWN	None	44309	None	None	46352082	46353413	-1	None	None
12	None	ENSG00000257894	ENST00000549527	lincRNA	KNOWN	None	None	None	None	79734985	79897176	-1	None	None
12	None	ENSG00000257894	ENST00000550268	lincRNA	KNOWN	None	None	None	None	79786697	79849240	-1	None	None
12	None	ENSG00000257894	ENST00000553165	lincRNA	KNOWN	None	None	None	None	79787452	79897142	-1	None	None
17	None	ENSG00000227517	ENST00000588501	lincRNA	KNOWN	None	None	None	None	67573392	67620875	1	None	None
17	None	ENSG00000227517	ENST00000591334	lincRNA	KNOWN	None	None	None	None	67590128	67899049	1	None	None
17	None	ENSG00000227517	ENST00000433856	lincRNA	KNOWN	None	None	None	None	67590926	67624492	1	None	None
17	None	ENSG00000227517	ENST00000588185	lincRNA	KNOWN	None	None	None	None	67591007	67842686	1	None	None
17	None	ENSG00000227517	ENST00000587241	lincRNA	KNOWN	None	None	None	None	67759818	67899141	1	None	None
5	None	ENSG00000250984	ENST00000510857	processed_pseudogene	KNOWN	None	None	None	None	29796045	29796375	1	None	None
14	KIAA0247	ENSG00000100647	ENST00000342745	protein_coding	KNOWN	CCDS9796	19956	912	303	70078313	70181859	1	None	None
14	KIAA0247	ENSG00000100647	ENST00000553497	processed_transcript	PUTATIVE	None	19956	None	None	70078355	70082468	1	None	None
14	KIAA0247	ENSG00000100647	ENST00000556993	retained_intron	KNOWN	None	19956	None	None	70125227	70170515	1	None	None
7	None	ENSG00000203335	ENST00000425591	antisense	KNOWN	None	None	None	None	153752670	153756646	-1	None	None
8	SNHG6	ENSG00000245910	ENST00000520348	lincRNA	KNOWN	None	32965	None	None	67833919	67837776	-1	None	U87HG, HBII-276HG, NCRNA00058
8	SNHG6	ENSG00000245910	ENST00000520944	lincRNA	KNOWN	None	32965	None	None	67834053	67837831	-1	None	U87HG, HBII-276HG, NCRNA00058
8	SNHG6	ENSG00000245910	ENST00000521399	lincRNA	KNOWN	None	32965	None	None	67834222	67837776	-1	None	U87HG, HBII-276HG, NCRNA00058
8	SNHG6	ENSG00000245910	ENST00000520619	lincRNA	KNOWN	None	32965	None	None	67834253	67838633	-1	None	U87HG, HBII-276HG, NCRNA00058
8	SNHG6	ENSG00000245910	ENST00000521127	retained_intron	KNOWN	None	32965	None	None	67834506	67837776	-1	None	U87HG, HBII-276HG, NCRNA00058
8	SNHG6	ENSG00000245910	ENST00000364849	snoRNA	KNOWN	None	32965	None	None	67834702	67834790	-1	None	U87HG, HBII-276HG, NCRNA00058
8	None	ENSG00000254281	ENST00000517983	lincRNA	KNOWN	None	None	None	None	103991013	104012412	1	None	None
3	None	ENSG00000240292	ENST00000475324	lincRNA	KNOWN	None	None	None	None	167584423	167601170	1	None	None
6	None	ENSG00000270983	ENST00000604304	processed_pseudogene	KNOWN	None	None	None	None	142383854	142384190	1	None	None
11	None	ENSG00000254567	ENST00000534504	processed_pseudogene	KNOWN	None	None	None	None	49155205	49156352	-1	None	None
5	None	ENSG00000253600	ENST00000522454	processed_pseudogene	KNOWN	None	None	None	None	164028008	164028458	-1	None	None
3	None	ENSG00000266275	ENST00000583001	miRNA	NOVEL	None	None	None	None	8737863	8737942	1	None	None
2	None	ENSG00000218175	ENST00000405359	processed_pseudogene	KNOWN	None	None	None	None	177065636	177065980	-1	None	None
3	SLC6A20	ENSG00000163817	ENST00000353278	protein_coding	KNOWN	CCDS2730	30927	1668	555	45796942	45837962	-1	None	XT3, Xtrp3
3	SLC6A20	ENSG00000163817	ENST00000358525	protein_coding	KNOWN	CCDS43077	30927	1779	592	45796942	45838027	-1	None	XT3, Xtrp3
3	SLC6A20	ENSG00000163817	ENST00000473146	retained_intron	KNOWN	None	30927	None	None	45799996	45813831	-1	None	XT3, Xtrp3
3	SLC6A20	ENSG00000163817	ENST00000493980	processed_transcript	PUTATIVE	None	30927	None	None	45801472	45807262	-1	None	XT3, Xtrp3
3	SLC6A20	ENSG00000163817	ENST00000413781	protein_coding	NOVEL	None	30927	794	263	45812709	45838027	-1	None	XT3, Xtrp3
3	SLC6A20	ENSG00000163817	ENST00000470226	processed_transcript	PUTATIVE	None	30927	None	None	45831793	45837852	-1	None	XT3, Xtrp3
3	SLC6A20	ENSG00000163817	ENST00000456124	protein_coding	KNOWN	None	30927	1644	547	45797496	45837975	-1	None	XT3, Xtrp3
5	None	ENSG00000249744	ENST00000512933	processed_pseudogene	KNOWN	None	None	None	None	29848791	29849325	-1	None	None
8	NPM1P52	ENSG00000253663	ENST00000518264	processed_pseudogene	KNOWN	None	45231	None	None	104028972	104029817	1	None	None
13	CYCSP34	ENSG00000176268	ENST00000458172	processed_pseudogene	KNOWN	None	24408	None	None	41437735	41438038	-1	None	HCP34
HG7_PATCH	None	ENSG00000261106	ENST00000567473	lincRNA	KNOWN	None	None	None	None	142445732	142458950	1	None	None
7	RNU6-1010P	ENSG00000199627	ENST00000362757	snRNA	KNOWN	None	47973	None	None	130739645	130739751	-1	None	None
6	HSPA1B	ENSG00000204388	ENST00000375650	protein_coding	KNOWN	CCDS34415	5233	1926	641	31795512	31798031	1	None	HSP70-2
6	HSPA1B	ENSG00000204388	ENST00000545241	protein_coding	KNOWN	None	5233	1653	550	31795728	31797653	1	None	HSP70-2
14	ZFYVE21	ENSG00000100711	ENST00000216602	protein_coding	KNOWN	CCDS55948	20760	759	252	104182067	104200005	1	None	MGC2550, ZF21
14	ZFYVE21	ENSG00000100711	ENST00000554255	retained_intron	KNOWN	None	20760	None	None	104182145	104194429	1	None	MGC2550, ZF21
14	ZFYVE21	ENSG00000100711	ENST00000311141	protein_coding	KNOWN	CCDS9985	20760	705	234	104182145	104199999	1	None	MGC2550, ZF21
14	ZFYVE21	ENSG00000100711	ENST00000553512	nonsense_mediated_decay	KNOWN	None	20760	282	93	104182164	104195320	1	None	MGC2550, ZF21
14	ZFYVE21	ENSG00000100711	ENST00000554630	retained_intron	KNOWN	None	20760	None	None	104182168	104195548	1	None	MGC2550, ZF21
14	ZFYVE21	ENSG00000100711	ENST00000556610	nonsense_mediated_decay	KNOWN	None	20760	189	62	104182176	104196184	1	None	MGC2550, ZF21
14	ZFYVE21	ENSG00000100711	ENST00000555501	retained_intron	KNOWN	None	20760	None	None	104190846	104200001	1	None	MGC2550, ZF21
14	ZFYVE21	ENSG00000100711	ENST00000553724	retained_intron	KNOWN	None	20760	None	None	104193791	104197782	1	None	MGC2550, ZF21
14	ZFYVE21	ENSG00000100711	ENST00000555163	protein_coding	PUTATIVE	None	20760	346	114	104194235	104196374	1	None	MGC2550, ZF21
14	ZFYVE21	ENSG00000100711	ENST00000556795	retained_intron	KNOWN	None	20760	None	None	104195123	104195731	1	None	MGC2550, ZF21
14	ZFYVE21	ENSG00000100711	ENST00000602552	retained_intron	KNOWN	None	20760	None	None	104195827	104196368	1	None	MGC2550, ZF21
14	ZFYVE21	ENSG00000100711	ENST00000554757	retained_intron	KNOWN	None	20760	None	None	104197768	104200000	1	None	MGC2550, ZF21
3	None	ENSG00000243953	ENST00000486545	lincRNA	KNOWN	None	None	None	None	154687072	154688012	-1	None	None
3	None	ENSG00000265169	ENST00000583533	miRNA	NOVEL	None	None	None	None	8741697	8741784	1	None	None
3	None	ENSG00000223552	ENST00000451485	antisense	KNOWN	None	None	None	None	46406446	46448550	-1	None	None
12	MIR4698	ENSG00000263838	ENST00000577795	miRNA	KNOWN	None	41867	None	None	47581595	47581674	1	None	hsa-mir-4698
2	None	ENSG00000230384	ENST00000412645	processed_pseudogene	KNOWN	None	None	None	None	177106839	177107721	1	None	None
6	None	ENSG00000236822	ENST00000454401	antisense	KNOWN	None	None	None	None	142409370	142410356	1	None	None
7	None	ENSG00000233287	ENST00000427253	processed_pseudogene	KNOWN	None	None	None	None	130927349	130927754	1	None	None
15	None	ENSG00000260619	ENST00000563737	lincRNA	KNOWN	None	None	None	None	81283145	81285599	-1	None	None
1	TPRG1L	ENSG00000158109	ENST00000378344	protein_coding	KNOWN	CCDS47	27007	819	272	3541566	3546691	1	FAM79A	RP11-46F15.3, FLJ21811
1	TPRG1L	ENSG00000158109	ENST00000344579	protein_coding	KNOWN	None	27007	642	213	3541614	3546691	1	FAM79A	RP11-46F15.3, FLJ21811
5	MAML1	ENSG00000161021	ENST00000292599	protein_coding	KNOWN	CCDS34315	13632	3051	1016	179159851	179204287	1	None	KIAA0200, Mam-1
5	MAML1	ENSG00000161021	ENST00000503050	processed_transcript	KNOWN	None	13632	None	None	179160371	179223512	1	None	KIAA0200, Mam-1
5	MAML1	ENSG00000161021	ENST00000507385	retained_intron	KNOWN	None	13632	None	None	179195853	179200952	1	None	KIAA0200, Mam-1
5	MAML1	ENSG00000161021	ENST00000511027	retained_intron	KNOWN	None	13632	None	None	179197929	179201469	1	None	KIAA0200, Mam-1
11	None	ENSG00000263966	ENST00000582258	miRNA	NOVEL	None	None	None	None	94149876	94149927	1	None	None
3	MME-AS1	ENSG00000240666	ENST00000484721	antisense	KNOWN	None	40376	None	None	154876530	154901074	-1	None	None
6	None	ENSG00000237494	ENST00000426166	lincRNA	KNOWN	None	None	None	None	142572984	142580769	-1	None	None
7	None	ENSG00000233363	ENST00000451116	antisense	KNOWN	None	None	None	None	153789286	153793128	-1	None	None
5	RNU6-209P	ENSG00000206845	ENST00000384118	snRNA	KNOWN	None	47172	None	None	164362168	164362274	-1	None	None
3	DCP1A	ENSG00000162290	ENST00000480258	processed_transcript	KNOWN	None	18714	None	None	53317448	53381637	-1	None	HSA275986, SMIF, SMAD4IP1
3	DCP1A	ENSG00000162290	ENST00000558034	retained_intron	KNOWN	None	18714	None	None	53321384	53322379	-1	None	HSA275986, SMIF, SMAD4IP1
3	DCP1A	ENSG00000162290	ENST00000494659	processed_transcript	KNOWN	None	18714	None	None	53321388	53381552	-1	None	HSA275986, SMIF, SMAD4IP1
3	DCP1A	ENSG00000162290	ENST00000560624	processed_transcript	KNOWN	None	18714	None	None	53326663	53381613	-1	None	HSA275986, SMIF, SMAD4IP1
3	DCP1A	ENSG00000162290	ENST00000559748	processed_transcript	KNOWN	None	18714	None	None	53338251	53381551	-1	None	HSA275986, SMIF, SMAD4IP1
3	DCP1A	ENSG00000162290	ENST00000560076	processed_transcript	KNOWN	None	18714	None	None	53338287	53381570	-1	None	HSA275986, SMIF, SMAD4IP1
3	DCP1A	ENSG00000162290	ENST00000607628	protein_coding	KNOWN	None	18714	1755	584	53317447	53381654	-1	None	HSA275986, SMIF, SMAD4IP1
3	DCP1A	ENSG00000162290	ENST00000294241	protein_coding	KNOWN	None	18714	1749	582	53321388	53381570	-1	None	HSA275986, SMIF, SMAD4IP1
3	DCP1A	ENSG00000162290	ENST00000606822	protein_coding	KNOWN	None	18714	1641	546	53321388	53381552	-1	None	HSA275986, SMIF, SMAD4IP1
3	None	ENSG00000266778	ENST00000579477	miRNA	KNOWN	None	None	None	None	8812877	8812973	1	None	None
11	MIR548L	ENSG00000221230	ENST00000408303	miRNA	KNOWN	None	35292	None	None	94199661	94199746	-1	MIRN548L	hsa-mir-548l
2	None	ENSG00000237260	ENST00000428657	processed_pseudogene	KNOWN	None	None	None	None	177203365	177203805	1	None	None
13	MYO16-AS1	ENSG00000236242	ENST00000439299	antisense	KNOWN	None	39913	None	None	109816250	109853831	-1	None	None
5	None	ENSG00000254066	ENST00000521341	lincRNA	KNOWN	None	None	None	None	164647583	164668758	-1	None	None
5	None	ENSG00000254066	ENST00000523538	lincRNA	KNOWN	None	None	None	None	164665489	164667766	-1	None	None
6	None	ENSG00000266843	ENST00000578433	miRNA	NOVEL	None	None	None	None	142583780	142583871	-1	None	None
13	SUGT1P3	ENSG00000239827	ENST00000604259	transcribed_unprocessed_pseudogene	KNOWN	None	20513	None	None	41482295	41495847	-1	SUGT1L1	None
13	SUGT1P3	ENSG00000239827	ENST00000304932	processed_transcript	KNOWN	None	20513	None	None	41486023	41495910	-1	SUGT1L1	None
11	None	ENSG00000255893	ENST00000541092	antisense	KNOWN	None	None	None	None	94206074	94206736	-1	None	None
8	None	ENSG00000254236	ENST00000522416	antisense	KNOWN	None	None	None	None	104032415	104033656	-1	None	None
19	JSRP1	ENSG00000167476	ENST00000586471	protein_coding	KNOWN	CCDS12086	24963	996	331	2252252	2255350	-1	None	JP-45, FLJ32416
19	JSRP1	ENSG00000167476	ENST00000300961	protein_coding	KNOWN	CCDS12086	24963	996	331	2252252	2256416	-1	None	JP-45, FLJ32416
19	JSRP1	ENSG00000167476	ENST00000593238	protein_coding	KNOWN	None	24963	263	86	2254185	2269758	-1	None	JP-45, FLJ32416
19	JSRP1	ENSG00000167476	ENST00000590976	processed_transcript	KNOWN	None	24963	None	None	2268486	2269407	-1	None	JP-45, FLJ32416
13	None	ENSG00000223617	ENST00000455487	lincRNA	KNOWN	None	None	None	None	109934321	109940081	1	None	None
2	None	ENSG00000265186	ENST00000579655	miRNA	NOVEL	None	None	None	None	177246960	177247060	-1	None	None
6	None	ENSG00000236366	ENST00000447311	lincRNA	KNOWN	None	None	None	None	142847592	142959026	-1	None	None
11	None	ENSG00000255532	ENST00000529674	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	49327266	49401040	1	None	None
11	None	ENSG00000255532	ENST00000529081	processed_transcript	KNOWN	None	None	None	None	49387623	49401221	1	None	None
5	None	ENSG00000253693	ENST00000522189	lincRNA	KNOWN	None	None	None	None	164776036	165205694	1	None	None
HG281_PATCH	OR4A49P	ENSG00000260559	ENST00000564110	unprocessed_pseudogene	KNOWN	None	31268	None	None	49936565	49937196	-1	None	None
3	None	ENSG00000241336	ENST00000462531	lincRNA	KNOWN	None	None	None	None	154958734	154960913	1	None	None
3	None	ENSG00000241336	ENST00000490497	lincRNA	KNOWN	None	None	None	None	154958737	154960933	1	None	None
15	MIR4514	ENSG00000265855	ENST00000581410	miRNA	KNOWN	None	41845	None	None	81289758	81289814	-1	None	hsa-mir-4514
11	None	ENSG00000257057	ENST00000542198	lincRNA	KNOWN	None	None	None	None	94245747	94265289	1	None	None
2	None	ENSG00000221304	ENST00000408377	miRNA	NOVEL	None	None	None	None	177248155	177248304	-1	None	None
7	None	ENSG00000236753	ENST00000429067	antisense	KNOWN	None	None	None	None	130994503	131012535	-1	None	None
7	None	ENSG00000236753	ENST00000444245	antisense	KNOWN	None	None	None	None	131008353	131012489	-1	None	None
7	None	ENSG00000236753	ENST00000447904	retained_intron	KNOWN	None	None	None	None	131008391	131012079	-1	None	None
7	None	ENSG00000236753	ENST00000416220	antisense	KNOWN	None	None	None	None	131008445	131012538	-1	None	None
7	None	ENSG00000236753	ENST00000454515	antisense	KNOWN	None	None	None	None	131008448	131012476	-1	None	None
7	None	ENSG00000236753	ENST00000447514	antisense	KNOWN	None	None	None	None	131008536	131012981	-1	None	None
12	PCED1B-AS1	ENSG00000247774	ENST00000547626	lincRNA	KNOWN	None	44166	None	None	47599681	47603157	-1	None	None
12	PCED1B-AS1	ENSG00000247774	ENST00000550426	lincRNA	KNOWN	None	44166	None	None	47599681	47609983	-1	None	None
12	PCED1B-AS1	ENSG00000247774	ENST00000552269	lincRNA	KNOWN	None	44166	None	None	47599681	47610191	-1	None	None
12	PCED1B-AS1	ENSG00000247774	ENST00000547600	lincRNA	KNOWN	None	44166	None	None	47599681	47610217	-1	None	None
12	PCED1B-AS1	ENSG00000247774	ENST00000551432	lincRNA	KNOWN	None	44166	None	None	47599682	47604520	-1	None	None
12	PCED1B-AS1	ENSG00000247774	ENST00000551898	lincRNA	KNOWN	None	44166	None	None	47599684	47609983	-1	None	None
12	PCED1B-AS1	ENSG00000247774	ENST00000552990	lincRNA	KNOWN	None	44166	None	None	47599684	47610227	-1	None	None
12	PCED1B-AS1	ENSG00000247774	ENST00000548222	lincRNA	KNOWN	None	44166	None	None	47599685	47610032	-1	None	None
12	PCED1B-AS1	ENSG00000247774	ENST00000552975	lincRNA	KNOWN	None	44166	None	None	47599724	47610239	-1	None	None
12	PCED1B-AS1	ENSG00000247774	ENST00000547851	lincRNA	KNOWN	None	44166	None	None	47600162	47610217	-1	None	None
12	PCED1B-AS1	ENSG00000247774	ENST00000500365	retained_intron	KNOWN	None	44166	None	None	47602203	47610218	-1	None	None
1	OR4G4P	ENSG00000268020	ENST00000606857	unprocessed_pseudogene	KNOWN	None	14822	None	None	52473	53312	1	None	None
1	OR4G4P	ENSG00000268020	ENST00000594647	unprocessed_pseudogene	KNOWN	None	14822	None	None	53049	54936	1	None	None
13	None	ENSG00000236053	ENST00000432575	lincRNA	KNOWN	None	None	None	None	109962483	109964121	1	None	None
2	UGT1A10	ENSG00000242515	ENST00000344644	protein_coding	KNOWN	CCDS33403	12531	1593	530	234545100	234681951	1	None	UGT1J
2	UGT1A10	ENSG00000242515	ENST00000373445	protein_coding	PUTATIVE	None	12531	1326	441	234545148	234678925	1	None	UGT1J
6	None	ENSG00000233138	ENST00000437067	antisense	KNOWN	None	None	None	None	143069580	143074896	1	None	None
8	MTND1P5	ENSG00000253795	ENST00000517906	processed_pseudogene	KNOWN	None	42104	None	None	104097879	104098818	1	None	None
2	None	ENSG00000229434	ENST00000412153	lincRNA	KNOWN	None	None	None	None	177370973	177372430	-1	None	None
19	POLRMT	ENSG00000099821	ENST00000588649	protein_coding	KNOWN	CCDS12036	9200	3693	1230	617223	633597	-1	None	h-mtRPOL, APOLMT, MTRNAP, MTRPOL
19	POLRMT	ENSG00000099821	ENST00000592633	retained_intron	KNOWN	None	9200	None	None	617224	617988	-1	None	h-mtRPOL, APOLMT, MTRNAP, MTRPOL
19	POLRMT	ENSG00000099821	ENST00000587057	retained_intron	KNOWN	None	9200	None	None	617227	618751	-1	None	h-mtRPOL, APOLMT, MTRNAP, MTRPOL
19	POLRMT	ENSG00000099821	ENST00000589961	retained_intron	KNOWN	None	9200	None	None	617269	617802	-1	None	h-mtRPOL, APOLMT, MTRNAP, MTRPOL
19	POLRMT	ENSG00000099821	ENST00000590336	protein_coding	NOVEL	None	9200	429	142	617278	618746	-1	None	h-mtRPOL, APOLMT, MTRNAP, MTRPOL
19	POLRMT	ENSG00000099821	ENST00000586384	retained_intron	KNOWN	None	9200	None	None	621600	625086	-1	None	h-mtRPOL, APOLMT, MTRNAP, MTRPOL
19	POLRMT	ENSG00000099821	ENST00000590709	retained_intron	KNOWN	None	9200	None	None	622535	625254	-1	None	h-mtRPOL, APOLMT, MTRNAP, MTRPOL
19	POLRMT	ENSG00000099821	ENST00000590573	protein_coding	NOVEL	None	9200	1048	348	623461	630168	-1	None	h-mtRPOL, APOLMT, MTRNAP, MTRPOL
19	POLRMT	ENSG00000099821	ENST00000588630	retained_intron	KNOWN	None	9200	None	None	624725	625509	-1	None	h-mtRPOL, APOLMT, MTRNAP, MTRPOL
19	POLRMT	ENSG00000099821	ENST00000592863	nonsense_mediated_decay	KNOWN	None	9200	171	56	630099	633525	-1	None	h-mtRPOL, APOLMT, MTRNAP, MTRPOL
19	POLRMT	ENSG00000099821	ENST00000607260	nonsense_mediated_decay	KNOWN	None	9200	189	62	630629	633504	-1	None	h-mtRPOL, APOLMT, MTRNAP, MTRPOL
13	None	ENSG00000229792	ENST00000439008	lincRNA	KNOWN	None	None	None	None	110053043	110053988	1	None	None
6	None	ENSG00000237851	ENST00000454411	lincRNA	KNOWN	None	None	None	None	143109260	143115223	1	None	None
12	None	ENSG00000257210	ENST00000552100	processed_pseudogene	KNOWN	None	None	None	None	93517839	93518319	-1	None	None
13	STARD13	ENSG00000133121	ENST00000336934	protein_coding	KNOWN	CCDS9348	19164	3342	1113	33677272	33859892	-1	LINC00464	GT650, DLC2, ARHGAP37
13	STARD13	ENSG00000133121	ENST00000255486	protein_coding	KNOWN	CCDS9349	19164	3318	1105	33677307	33760216	-1	LINC00464	GT650, DLC2, ARHGAP37
13	STARD13	ENSG00000133121	ENST00000399365	protein_coding	KNOWN	CCDS9350	19164	2988	995	33677307	33780143	-1	LINC00464	GT650, DLC2, ARHGAP37
13	STARD13	ENSG00000133121	ENST00000491333	processed_transcript	KNOWN	None	19164	None	None	33685921	33687330	-1	LINC00464	GT650, DLC2, ARHGAP37
13	STARD13	ENSG00000133121	ENST00000567873	protein_coding	PUTATIVE	None	19164	1820	605	33701567	33924767	-1	LINC00464	GT650, DLC2, ARHGAP37
13	STARD13	ENSG00000133121	ENST00000487412	processed_transcript	KNOWN	None	19164	None	None	33712566	33859892	-1	LINC00464	GT650, DLC2, ARHGAP37
13	STARD13	ENSG00000133121	ENST00000498019	processed_transcript	KNOWN	None	19164	None	None	33729573	33859844	-1	LINC00464	GT650, DLC2, ARHGAP37
13	STARD13	ENSG00000133121	ENST00000344312	processed_transcript	KNOWN	None	19164	None	None	33850088	33859873	-1	LINC00464	GT650, DLC2, ARHGAP37
13	STARD13	ENSG00000133121	ENST00000439831	protein_coding	PUTATIVE	None	19164	192	63	33922744	33924761	-1	LINC00464	GT650, DLC2, ARHGAP37
X	None	ENSG00000238127	ENST00000453703	processed_pseudogene	KNOWN	None	None	None	None	52777574	52779905	-1	None	None
13	RGS17P1	ENSG00000229473	ENST00000423358	processed_pseudogene	KNOWN	None	39729	None	None	41566915	41567467	-1	None	None
16	None	ENSG00000263277	ENST00000570636	processed_pseudogene	KNOWN	None	None	None	None	33379962	33380091	1	None	None
13	LINC00676	ENSG00000234854	ENST00000416090	antisense	KNOWN	None	44394	None	None	110380629	110382354	1	None	None
2	ANKRD39	ENSG00000213337	ENST00000443120	nonsense_mediated_decay	KNOWN	CCDS2028	28640	552	183	97502348	97523751	-1	None	MGC41816
2	ANKRD39	ENSG00000213337	ENST00000393537	protein_coding	KNOWN	CCDS2028	28640	552	183	97513722	97523832	-1	None	MGC41816
15	ANP32BP3	ENSG00000259461	ENST00000559213	processed_pseudogene	KNOWN	None	44089	None	None	81409976	81410681	-1	None	None
21	ITGB2	ENSG00000160255	ENST00000475170	retained_intron	KNOWN	None	6155	None	None	46305868	46313942	-1	CD18, MFI7	LFA-1, MAC-1
21	ITGB2	ENSG00000160255	ENST00000397852	protein_coding	KNOWN	CCDS13716	6155	2310	769	46305868	46330741	-1	CD18, MFI7	LFA-1, MAC-1
21	ITGB2	ENSG00000160255	ENST00000397857	protein_coding	KNOWN	CCDS13716	6155	2310	769	46305868	46331375	-1	CD18, MFI7	LFA-1, MAC-1
21	ITGB2	ENSG00000160255	ENST00000397854	protein_coding	NOVEL	None	6155	2139	712	46305868	46340770	-1	CD18, MFI7	LFA-1, MAC-1
21	ITGB2	ENSG00000160255	ENST00000498666	retained_intron	KNOWN	None	6155	None	None	46305868	46340875	-1	CD18, MFI7	LFA-1, MAC-1
21	ITGB2	ENSG00000160255	ENST00000355153	protein_coding	KNOWN	CCDS13716	6155	2310	769	46305868	46348753	-1	CD18, MFI7	LFA-1, MAC-1
21	ITGB2	ENSG00000160255	ENST00000397850	protein_coding	KNOWN	CCDS13716	6155	2310	769	46305868	46348788	-1	CD18, MFI7	LFA-1, MAC-1
21	ITGB2	ENSG00000160255	ENST00000523323	nonsense_mediated_decay	KNOWN	None	6155	216	71	46305871	46340790	-1	CD18, MFI7	LFA-1, MAC-1
21	ITGB2	ENSG00000160255	ENST00000479202	retained_intron	KNOWN	None	6155	None	None	46306248	46309046	-1	CD18, MFI7	LFA-1, MAC-1
21	ITGB2	ENSG00000160255	ENST00000320216	protein_coding	PUTATIVE	None	6155	966	321	46318982	46330545	-1	CD18, MFI7	LFA-1, MAC-1
21	ITGB2	ENSG00000160255	ENST00000521987	processed_transcript	PUTATIVE	None	6155	None	None	46321466	46340847	-1	CD18, MFI7	LFA-1, MAC-1
21	ITGB2	ENSG00000160255	ENST00000523663	protein_coding	KNOWN	None	6155	499	165	46323280	46331092	-1	CD18, MFI7	LFA-1, MAC-1
21	ITGB2	ENSG00000160255	ENST00000522931	protein_coding	KNOWN	None	6155	480	159	46323299	46334198	-1	CD18, MFI7	LFA-1, MAC-1
21	ITGB2	ENSG00000160255	ENST00000517563	protein_coding	KNOWN	None	6155	361	119	46323418	46348633	-1	CD18, MFI7	LFA-1, MAC-1
21	ITGB2	ENSG00000160255	ENST00000522688	protein_coding	PUTATIVE	None	6155	149	48	46323423	46340857	-1	CD18, MFI7	LFA-1, MAC-1
21	ITGB2	ENSG00000160255	ENST00000520389	nonsense_mediated_decay	KNOWN	None	6155	282	93	46323430	46340842	-1	CD18, MFI7	LFA-1, MAC-1
21	ITGB2	ENSG00000160255	ENST00000524251	protein_coding	PUTATIVE	None	6155	111	36	46326840	46340814	-1	CD18, MFI7	LFA-1, MAC-1
21	ITGB2	ENSG00000160255	ENST00000517819	protein_coding	KNOWN	None	6155	211	69	46326947	46341048	-1	CD18, MFI7	LFA-1, MAC-1
21	ITGB2	ENSG00000160255	ENST00000479849	processed_transcript	PUTATIVE	None	6155	None	None	46327902	46330656	-1	CD18, MFI7	LFA-1, MAC-1
21	ITGB2	ENSG00000160255	ENST00000397846	protein_coding	PUTATIVE	None	6155	327	108	46327902	46340811	-1	CD18, MFI7	LFA-1, MAC-1
21	ITGB2	ENSG00000160255	ENST00000523126	processed_transcript	PUTATIVE	None	6155	None	None	46329235	46330603	-1	CD18, MFI7	LFA-1, MAC-1
21	ITGB2	ENSG00000160255	ENST00000521995	protein_coding	KNOWN	None	6155	147	48	46330199	46351904	-1	CD18, MFI7	LFA-1, MAC-1
21	ITGB2	ENSG00000160255	ENST00000518033	retained_intron	KNOWN	None	6155	None	None	46330236	46340842	-1	CD18, MFI7	LFA-1, MAC-1
21	ITGB2	ENSG00000160255	ENST00000302347	protein_coding	KNOWN	CCDS13716	6155	2310	769	46305871	46340965	-1	CD18, MFI7	LFA-1, MAC-1
18	None	ENSG00000263450	ENST00000580071	antisense	KNOWN	None	None	None	None	30534039	30537962	1	None	None
1	CD244	ENSG00000122223	ENST00000368034	protein_coding	KNOWN	CCDS1210	18171	1098	365	160799950	160832645	-1	None	2B4, NAIL, NKR2B4, Nmrk, SLAMF4
1	CD244	ENSG00000122223	ENST00000368033	protein_coding	KNOWN	CCDS53399	18171	1113	370	160800973	160832550	-1	None	2B4, NAIL, NKR2B4, Nmrk, SLAMF4
1	CD244	ENSG00000122223	ENST00000492063	nonsense_mediated_decay	KNOWN	None	18171	990	329	160801061	160832490	-1	None	2B4, NAIL, NKR2B4, Nmrk, SLAMF4
1	CD244	ENSG00000122223	ENST00000322302	protein_coding	KNOWN	CCDS53398	18171	822	273	160801061	160832490	-1	None	2B4, NAIL, NKR2B4, Nmrk, SLAMF4
1	CD244	ENSG00000122223	ENST00000481677	processed_transcript	KNOWN	None	18171	None	None	160802309	160808955	-1	None	2B4, NAIL, NKR2B4, Nmrk, SLAMF4
1	CD244	ENSG00000122223	ENST00000368032	protein_coding	KNOWN	None	18171	990	329	160802480	160832692	-1	None	2B4, NAIL, NKR2B4, Nmrk, SLAMF4
2	None	ENSG00000236231	ENST00000431455	lincRNA	KNOWN	None	None	None	None	177389607	177396411	-1	None	None
13	MIR3168	ENSG00000264226	ENST00000577639	miRNA	KNOWN	None	38249	None	None	41675155	41675236	-1	None	hsa-mir-3168
13	None	ENSG00000255813	ENST00000430722	pseudogene	NOVEL	None	None	None	None	110407168	110407615	-1	None	None
7	None	ENSG00000236338	ENST00000416501	protein_coding	NOVEL	None	None	255	84	135611542	135613214	1	None	None
13	RN7SL597P	ENSG00000244264	ENST00000491551	misc_RNA	KNOWN	None	46613	None	None	41696012	41696305	1	None	None
13	RN7SKP10	ENSG00000201161	ENST00000364291	misc_RNA	KNOWN	None	42628	None	None	110567443	110567767	1	None	None
4	MIR4449	ENSG00000264585	ENST00000578365	miRNA	KNOWN	None	41864	None	None	53578849	53578914	1	None	hsa-mir-4449
3	None	ENSG00000213846	ENST00000368528	processed_pseudogene	KNOWN	None	None	None	None	27674467	27675211	1	None	None
3	None	ENSG00000213846	ENST00000545084	processed_pseudogene	KNOWN	None	None	None	None	27674555	27675211	1	None	None
12	None	ENSG00000238890	ENST00000458833	miRNA	NOVEL	None	None	None	None	79742099	79742171	1	None	None
12	GPRC5A	ENSG00000013588	ENST00000014914	protein_coding	KNOWN	CCDS8657	9836	1074	357	13043716	13070871	1	RAI3, GPCR5A	RAIG1
12	GPRC5A	ENSG00000013588	ENST00000537783	retained_intron	KNOWN	None	9836	None	None	13044493	13062810	1	RAI3, GPCR5A	RAIG1
12	GPRC5A	ENSG00000013588	ENST00000542056	processed_transcript	KNOWN	None	9836	None	None	13044513	13066067	1	RAI3, GPCR5A	RAIG1
12	GPRC5A	ENSG00000013588	ENST00000534831	protein_coding	KNOWN	None	9836	821	272	13044908	13062004	1	RAI3, GPCR5A	RAIG1
12	GPRC5A	ENSG00000013588	ENST00000540125	protein_coding	PUTATIVE	None	9836	201	66	13062003	13065443	1	RAI3, GPCR5A	RAIG1
16	None	ENSG00000259882	ENST00000566346	unprocessed_pseudogene	KNOWN	None	None	None	None	33390406	33425011	1	None	None
18	None	ENSG00000267642	ENST00000591558	lincRNA	KNOWN	None	None	None	None	31132087	31158151	-1	None	None
13	CALM2P3	ENSG00000215482	ENST00000400429	processed_pseudogene	KNOWN	None	1448	None	None	41744836	41745284	-1	None	None
13	None	ENSG00000231428	ENST00000411690	lincRNA	KNOWN	None	None	None	None	110705632	110707299	1	None	None
12	RNU5A-7P	ENSG00000251788	ENST00000515979	snRNA	KNOWN	None	42529	None	None	64622340	64622455	-1	None	None
4	SNORA26	ENSG00000212588	ENST00000391286	snoRNA	KNOWN	None	32616	None	None	53579416	53579537	1	None	HBI-6
4	None	ENSG00000269302	ENST00000596414	protein_coding	KNOWN	None	None	714	237	187111913	187112626	-1	None	None
X	None	ENSG00000236518	ENST00000416264	processed_pseudogene	KNOWN	None	None	None	None	52799880	52800150	1	None	None
HSCHR6_MHC_MCF	C2	ENSG00000226560	ENST00000476210	processed_transcript	PUTATIVE	None	1248	None	None	31942047	31989896	1	None	None
HSCHR6_MHC_MCF	C2	ENSG00000226560	ENST00000414609	protein_coding	KNOWN	None	1248	508	168	31945262	31983474	1	None	None
HSCHR6_MHC_MCF	C2	ENSG00000226560	ENST00000432285	protein_coding	KNOWN	None	1248	476	157	31945267	31978519	1	None	None
HSCHR6_MHC_MCF	C2	ENSG00000226560	ENST00000493064	processed_transcript	KNOWN	None	1248	None	None	31964215	31981682	1	None	None
HSCHR6_MHC_MCF	C2	ENSG00000226560	ENST00000458436	protein_coding	KNOWN	None	1248	419	138	31964258	31973169	1	None	None
HSCHR6_MHC_MCF	C2	ENSG00000226560	ENST00000479385	processed_transcript	KNOWN	None	1248	None	None	31964370	31980214	1	None	None
HSCHR6_MHC_MCF	C2	ENSG00000226560	ENST00000448206	protein_coding	KNOWN	None	1248	2259	752	31971767	31989896	1	None	None
HSCHR6_MHC_MCF	C2	ENSG00000226560	ENST00000447164	protein_coding	KNOWN	None	1248	377	124	31971800	31977954	1	None	None
HSCHR6_MHC_MCF	C2	ENSG00000226560	ENST00000416456	protein_coding	KNOWN	None	1248	1059	352	31971806	31987543	1	None	None
HSCHR6_MHC_MCF	C2	ENSG00000226560	ENST00000482802	retained_intron	KNOWN	None	1248	None	None	31971978	31979282	1	None	None
HSCHR6_MHC_MCF	C2	ENSG00000226560	ENST00000428140	protein_coding	KNOWN	None	1248	1578	525	31972038	31989896	1	None	None
HSCHR6_MHC_MCF	C2	ENSG00000226560	ENST00000495405	processed_transcript	PUTATIVE	None	1248	None	None	31976572	31978506	1	None	None
HSCHR6_MHC_MCF	C2	ENSG00000226560	ENST00000474222	processed_transcript	KNOWN	None	1248	None	None	31978507	31987982	1	None	None
HSCHR6_MHC_MCF	C2	ENSG00000226560	ENST00000485098	retained_intron	KNOWN	None	1248	None	None	31980279	31989896	1	None	None
HSCHR6_MHC_MCF	C2	ENSG00000226560	ENST00000460487	processed_transcript	KNOWN	None	1248	None	None	31987897	31989896	1	None	None
HSCHR6_MHC_MCF	C2	ENSG00000226560	ENST00000551648	protein_coding	KNOWN	None	1248	1863	620	31971764	31989893	1	None	None
HSCHR6_MHC_MCF	C2	ENSG00000226560	ENST00000552638	protein_coding	KNOWN	None	1248	1134	377	31971764	31989893	1	None	None
13	None	ENSG00000238651	ENST00000458837	snoRNA	NOVEL	None	None	None	None	41754117	41754223	-1	None	None
12	None	ENSG00000256192	ENST00000536546	processed_pseudogene	KNOWN	None	None	None	None	64660193	64660546	1	None	None
11	RPL23AP62	ENSG00000213233	ENST00000463396	processed_pseudogene	KNOWN	None	36276	None	None	112332191	112332643	-1	None	None
18	None	ENSG00000199204	ENST00000362334	misc_RNA	NOVEL	None	None	None	None	31581662	31581763	-1	None	None
4	None	ENSG00000248375	ENST00000512377	processed_pseudogene	KNOWN	None	None	None	None	53586248	53586998	-1	None	None
2	None	ENSG00000163364	ENST00000295549	lincRNA	KNOWN	None	None	None	None	177494317	177502659	-1	None	None
2	None	ENSG00000163364	ENST00000339037	lincRNA	KNOWN	None	None	None	None	177494893	177502290	-1	None	None
3	MEMO1P3	ENSG00000239238	ENST00000459811	processed_pseudogene	KNOWN	None	38503	None	None	167606202	167606503	1	None	None
10	RN7SL518P	ENSG00000265486	ENST00000491887	misc_RNA	KNOWN	None	46534	None	None	78001782	78002071	-1	None	None
1	OR4G11P	ENSG00000240361	ENST00000492842	unprocessed_pseudogene	KNOWN	None	31276	None	None	62948	63887	1	None	None
1	RNVU1-4	ENSG00000207106	ENST00000384378	snRNA	KNOWN	None	48312	None	None	144311213	144311376	-1	None	vU1.4, RNU1-102
13	RN7SL783P	ENSG00000265885	ENST00000577950	misc_RNA	KNOWN	None	46799	None	None	110750200	110750498	-1	None	None
13	MORF4L1P4	ENSG00000225133	ENST00000450245	processed_pseudogene	KNOWN	None	39257	None	None	41773968	41774943	-1	None	None
10	RNU6-673P	ENSG00000201954	ENST00000365084	snRNA	KNOWN	None	47636	None	None	78020558	78020661	-1	None	None
4	None	ENSG00000212490	ENST00000391188	snoRNA	NOVEL	None	None	None	None	53614304	53614426	1	None	None
17	TACO1	ENSG00000136463	ENST00000258975	protein_coding	KNOWN	CCDS11640	24316	894	297	61678231	61685725	1	CCDC44	None
17	TACO1	ENSG00000136463	ENST00000581120	retained_intron	KNOWN	None	24316	None	None	61678241	61685724	1	CCDC44	None
1	None	ENSG00000271223	ENST00000605865	processed_pseudogene	KNOWN	None	None	None	None	144392143	144392429	-1	None	None
13	None	ENSG00000238629	ENST00000459093	snoRNA	NOVEL	None	None	None	None	111066552	111066653	1	None	None
19	VASP	ENSG00000125753	ENST00000589627	protein_coding	KNOWN	None	12652	177	58	46009837	46021092	1	None	None
19	VASP	ENSG00000125753	ENST00000245932	protein_coding	KNOWN	CCDS33051	12652	1143	380	46010674	46030241	1	None	None
19	VASP	ENSG00000125753	ENST00000592139	protein_coding	NOVEL	None	12652	140	45	46010746	46025839	1	None	None
19	VASP	ENSG00000125753	ENST00000590603	protein_coding	NOVEL	None	12652	107	34	46010749	46025649	1	None	None
19	VASP	ENSG00000125753	ENST00000586014	nonsense_mediated_decay	KNOWN	None	12652	312	103	46010764	46030200	1	None	None
19	VASP	ENSG00000125753	ENST00000586619	processed_transcript	KNOWN	None	12652	None	None	46010768	46025475	1	None	None
19	VASP	ENSG00000125753	ENST00000588482	nonsense_mediated_decay	KNOWN	None	12652	551	182	46025814	46029590	1	None	None
19	VASP	ENSG00000125753	ENST00000590459	retained_intron	KNOWN	None	12652	None	None	46025992	46027221	1	None	None
19	VASP	ENSG00000125753	ENST00000588463	retained_intron	KNOWN	None	12652	None	None	46026047	46027671	1	None	None
19	VASP	ENSG00000125753	ENST00000588273	retained_intron	KNOWN	None	12652	None	None	46027295	46029460	1	None	None
19	VASP	ENSG00000125753	ENST00000587444	retained_intron	KNOWN	None	12652	None	None	46029052	46029427	1	None	None
3	None	ENSG00000264306	ENST00000583198	miRNA	NOVEL	None	None	None	None	46591996	46592047	-1	None	None
X	None	ENSG00000226867	ENST00000434905	unprocessed_pseudogene	KNOWN	None	None	None	None	52810501	52814830	-1	None	None
16	SNTB2	ENSG00000168807	ENST00000336278	protein_coding	KNOWN	CCDS10873	11169	1623	540	69221032	69342955	1	SNT2B2, SNTL, D16S2531E	EST25263, SNT3
16	SNTB2	ENSG00000168807	ENST00000467311	nonsense_mediated_decay	KNOWN	None	11169	804	267	69221050	69334884	1	SNT2B2, SNTL, D16S2531E	EST25263, SNT3
16	SNTB2	ENSG00000168807	ENST00000524887	nonsense_mediated_decay	KNOWN	None	11169	194	63	69221464	69294003	1	SNT2B2, SNTL, D16S2531E	EST25263, SNT3
16	SNTB2	ENSG00000168807	ENST00000525632	protein_coding	PUTATIVE	None	11169	488	161	69221464	69304103	1	SNT2B2, SNTL, D16S2531E	EST25263, SNT3
16	SNTB2	ENSG00000168807	ENST00000360496	protein_coding	PUTATIVE	None	11169	415	137	69221488	69294004	1	SNT2B2, SNTL, D16S2531E	EST25263, SNT3
16	SNTB2	ENSG00000168807	ENST00000528525	processed_transcript	KNOWN	None	11169	None	None	69221545	69304084	1	SNT2B2, SNTL, D16S2531E	EST25263, SNT3
12	MIR1252	ENSG00000221788	ENST00000408861	miRNA	KNOWN	None	35365	None	None	79813037	79813101	1	MIRN1252	hsa-mir-1252
10	None	ENSG00000230575	ENST00000412137	antisense	KNOWN	None	None	None	None	78197166	78198533	-1	None	None
13	COL4A2-AS2	ENSG00000224821	ENST00000458403	antisense	KNOWN	None	39849	None	None	111108743	111115634	-1	None	None
3	None	ENSG00000256354	ENST00000537000	pseudogene	NOVEL	None	None	None	None	46667272	46667698	1	None	None
3	None	ENSG00000214283	ENST00000484195	processed_pseudogene	KNOWN	None	None	None	None	136617918	136618918	-1	None	None
11	None	ENSG00000255484	ENST00000525984	lincRNA	KNOWN	None	None	None	None	112404945	112426525	-1	None	None
13	RAC1P3	ENSG00000231404	ENST00000416129	processed_pseudogene	KNOWN	None	31833	None	None	41861877	41862456	-1	None	Psi3Rac1
7	None	ENSG00000236408	ENST00000448767	antisense	KNOWN	None	None	None	None	154630098	154657193	-1	None	None
HG185_PATCH	NKIRAS2	ENSG00000260770	ENST00000562265	protein_coding	KNOWN	None	17898	576	191	40173272	40181893	1	None	KBRAS2, DKFZP434N1526, kappaB-Ras2
HG185_PATCH	NKIRAS2	ENSG00000260770	ENST00000569286	nonsense_mediated_decay	KNOWN	None	17898	177	58	40176330	40180517	1	None	KBRAS2, DKFZP434N1526, kappaB-Ras2
HG185_PATCH	NKIRAS2	ENSG00000260770	ENST00000561861	protein_coding	KNOWN	None	17898	576	191	40176349	40181026	1	None	KBRAS2, DKFZP434N1526, kappaB-Ras2
HG185_PATCH	NKIRAS2	ENSG00000260770	ENST00000568696	protein_coding	KNOWN	None	17898	576	191	40176349	40181026	1	None	KBRAS2, DKFZP434N1526, kappaB-Ras2
HG185_PATCH	NKIRAS2	ENSG00000260770	ENST00000569942	protein_coding	KNOWN	None	17898	576	191	40176349	40181310	1	None	KBRAS2, DKFZP434N1526, kappaB-Ras2
HG185_PATCH	NKIRAS2	ENSG00000260770	ENST00000564164	nonsense_mediated_decay	KNOWN	None	17898	129	42	40176356	40180472	1	None	KBRAS2, DKFZP434N1526, kappaB-Ras2
HG185_PATCH	NKIRAS2	ENSG00000260770	ENST00000570113	protein_coding	NOVEL	None	17898	408	135	40176358	40180351	1	None	KBRAS2, DKFZP434N1526, kappaB-Ras2
HG185_PATCH	NKIRAS2	ENSG00000260770	ENST00000563097	protein_coding	NOVEL	None	17898	690	229	40176375	40180192	1	None	KBRAS2, DKFZP434N1526, kappaB-Ras2
HG185_PATCH	NKIRAS2	ENSG00000260770	ENST00000563653	protein_coding	PUTATIVE	None	17898	294	97	40176381	40179989	1	None	KBRAS2, DKFZP434N1526, kappaB-Ras2
HG185_PATCH	NKIRAS2	ENSG00000260770	ENST00000567362	retained_intron	KNOWN	None	17898	None	None	40176668	40181893	1	None	KBRAS2, DKFZP434N1526, kappaB-Ras2
11	None	ENSG00000255929	ENST00000536540	antisense	KNOWN	None	None	None	None	94278496	94473435	-1	None	None
11	None	ENSG00000255929	ENST00000537874	antisense	KNOWN	None	None	None	None	94279357	94473521	-1	None	None
11	C11orf88	ENSG00000183644	ENST00000375618	protein_coding	KNOWN	CCDS41713	25061	510	169	111385510	111407754	1	None	FLJ46266
11	C11orf88	ENSG00000183644	ENST00000529167	protein_coding	KNOWN	None	25061	537	178	111385510	111407755	1	None	FLJ46266
11	C11orf88	ENSG00000183644	ENST00000332814	protein_coding	NOVEL	CCDS41712	25061	591	196	111385510	111407756	1	None	FLJ46266
11	C11orf88	ENSG00000183644	ENST00000529661	nonsense_mediated_decay	KNOWN	None	25061	90	29	111386767	111407756	1	None	FLJ46266
13	COL4A2-AS1	ENSG00000232814	ENST00000417970	antisense	KNOWN	None	40156	None	None	111154922	111160526	-1	None	None
3	None	ENSG00000199815	ENST00000362945	snoRNA	NOVEL	None	None	None	None	8973179	8973316	1	None	None
10	None	ENSG00000230018	ENST00000415988	processed_pseudogene	KNOWN	None	None	None	None	115242375	115242872	1	None	None
3	None	ENSG00000251967	ENST00000516158	snoRNA	NOVEL	None	None	None	None	46692000	46692080	1	None	None
3	SRGAP3-AS1	ENSG00000224808	ENST00000414633	antisense	KNOWN	None	40898	None	None	9055807	9057663	1	None	None
10	None	ENSG00000234393	ENST00000448834	antisense	KNOWN	None	None	None	None	115470440	115479091	-1	None	None
3	None	ENSG00000238013	ENST00000432156	processed_pseudogene	KNOWN	None	None	None	None	46839613	46839880	1	None	None
11	None	ENSG00000227726	ENST00000445532	sense_intronic	KNOWN	None	None	None	None	70323382	70323697	-1	None	None
12	None	ENSG00000266390	ENST00000578799	miRNA	NOVEL	None	None	None	None	79856244	79856330	-1	None	None
13	None	ENSG00000255831	ENST00000545740	pseudogene	NOVEL	None	None	None	None	111291555	111292340	1	None	None
11	NUCB2	ENSG00000070081	ENST00000528644	protein_coding	KNOWN	None	8044	101	32	17229700	17316971	1	None	NEFA
11	NUCB2	ENSG00000070081	ENST00000530527	protein_coding	KNOWN	None	8044	596	197	17281903	17332484	1	None	NEFA
11	NUCB2	ENSG00000070081	ENST00000533773	nonsense_mediated_decay	KNOWN	None	8044	1017	338	17282084	17353071	1	None	NEFA
11	NUCB2	ENSG00000070081	ENST00000526120	protein_coding	KNOWN	None	8044	207	68	17290745	17317713	1	None	NEFA
11	NUCB2	ENSG00000070081	ENST00000525637	processed_transcript	KNOWN	None	8044	None	None	17298278	17304417	1	None	NEFA
11	NUCB2	ENSG00000070081	ENST00000531172	protein_coding	KNOWN	None	8044	118	38	17298281	17316988	1	None	NEFA
11	NUCB2	ENSG00000070081	ENST00000533511	retained_intron	KNOWN	None	8044	None	None	17298288	17317151	1	None	NEFA
11	NUCB2	ENSG00000070081	ENST00000533738	protein_coding	KNOWN	None	8044	207	68	17298288	17317713	1	None	NEFA
11	NUCB2	ENSG00000070081	ENST00000323688	protein_coding	KNOWN	None	8044	1263	420	17298288	17352937	1	None	NEFA
11	NUCB2	ENSG00000070081	ENST00000529010	protein_coding	KNOWN	CCDS41623	8044	1263	420	17298312	17353758	1	None	NEFA
11	NUCB2	ENSG00000070081	ENST00000530964	protein_coding	KNOWN	None	8044	102	33	17298378	17316972	1	None	NEFA
11	NUCB2	ENSG00000070081	ENST00000529313	protein_coding	KNOWN	None	8044	586	194	17298531	17332474	1	None	NEFA
11	NUCB2	ENSG00000070081	ENST00000533926	protein_coding	KNOWN	None	8044	270	89	17298570	17323308	1	None	NEFA
11	NUCB2	ENSG00000070081	ENST00000527580	protein_coding	NOVEL	None	8044	595	197	17332467	17353072	1	None	NEFA
11	NUCB2	ENSG00000070081	ENST00000531242	retained_intron	KNOWN	None	8044	None	None	17333386	17353069	1	None	NEFA
11	NUCB2	ENSG00000070081	ENST00000527735	protein_coding	NOVEL	None	8044	220	72	17333628	17353063	1	None	NEFA
11	NUCB2	ENSG00000070081	ENST00000532240	processed_transcript	KNOWN	None	8044	None	None	17353589	17371521	1	None	NEFA
11	NUCB2	ENSG00000070081	ENST00000458064	protein_coding	KNOWN	None	8044	1173	390	17316871	17352997	1	None	NEFA
12	None	ENSG00000258171	ENST00000552584	lincRNA	KNOWN	None	None	None	None	93568142	93575608	1	None	None
X	None	ENSG00000229885	ENST00000452829	unprocessed_pseudogene	KNOWN	None	None	None	None	52830424	52830553	-1	None	None
7	None	ENSG00000228806	ENST00000436250	unprocessed_pseudogene	KNOWN	None	None	None	None	154898110	154898361	1	None	None
12	None	ENSG00000263757	ENST00000582521	miRNA	NOVEL	None	None	None	None	79874828	79874920	-1	None	None
13	RNU6-57P	ENSG00000223280	ENST00000411348	snRNA	KNOWN	None	42547	None	None	41928693	41928795	-1	RNU6-57	None
X	AMELX	ENSG00000125363	ENST00000380714	protein_coding	KNOWN	CCDS14144	461	576	191	11311533	11318881	1	AMG, AIH1	None
X	AMELX	ENSG00000125363	ENST00000380712	protein_coding	KNOWN	CCDS14145	461	618	205	11311533	11318881	1	AMG, AIH1	None
X	AMELX	ENSG00000125363	ENST00000348912	protein_coding	KNOWN	CCDS14146	461	528	175	11311533	11318873	1	AMG, AIH1	None
10	None	ENSG00000212589	ENST00000391287	snoRNA	NOVEL	None	None	None	None	115580218	115580349	1	None	None
4	CYP4V2	ENSG00000145476	ENST00000378802	protein_coding	KNOWN	CCDS34119	23198	1578	525	187112674	187131955	1	None	CYP4AH1
4	CYP4V2	ENSG00000145476	ENST00000507209	retained_intron	KNOWN	None	23198	None	None	187117242	187134165	1	None	CYP4AH1
4	CYP4V2	ENSG00000145476	ENST00000513354	processed_transcript	KNOWN	None	23198	None	None	187125535	187132189	1	None	CYP4AH1
4	CYP4V2	ENSG00000145476	ENST00000502665	processed_transcript	KNOWN	None	23198	None	None	187125991	187134610	1	None	CYP4AH1
3	None	ENSG00000240045	ENST00000489090	lincRNA	KNOWN	None	None	None	None	155008018	155011564	-1	None	None
3	SRGAP3-AS2	ENSG00000228723	ENST00000436032	antisense	KNOWN	None	40899	None	None	9234177	9235430	1	None	None
3	SRGAP3-AS2	ENSG00000228723	ENST00000450920	antisense	KNOWN	None	40899	None	None	9234219	9236137	1	None	None
3	SRGAP3-AS2	ENSG00000228723	ENST00000600323	antisense	KNOWN	None	40899	None	None	9235010	9236031	1	None	None
13	TUBBP2	ENSG00000214222	ENST00000454403	processed_pseudogene	KNOWN	None	12415	None	None	41958909	41959319	-1	None	None
10	RNU6-709P	ENSG00000253066	ENST00000517257	snRNA	KNOWN	None	47672	None	None	115871173	115871276	1	None	None
12	None	ENSG00000256293	ENST00000545001	processed_pseudogene	KNOWN	None	None	None	None	64731958	64732577	-1	None	None
11	RPLP2	ENSG00000177600	ENST00000321153	protein_coding	KNOWN	CCDS7717	10377	348	115	809647	812875	1	D11S2243E	P2, RPP2, MGC71408, LP2
11	RPLP2	ENSG00000177600	ENST00000532004	processed_transcript	KNOWN	None	10377	None	None	809965	812880	1	D11S2243E	P2, RPP2, MGC71408, LP2
11	RPLP2	ENSG00000177600	ENST00000530797	protein_coding	KNOWN	CCDS7717	10377	348	115	809984	812874	1	D11S2243E	P2, RPP2, MGC71408, LP2
11	RPLP2	ENSG00000177600	ENST00000524867	retained_intron	KNOWN	None	10377	None	None	810003	811839	1	D11S2243E	P2, RPP2, MGC71408, LP2
11	RPLP2	ENSG00000177600	ENST00000530398	protein_coding	PUTATIVE	None	10377	278	91	810269	812871	1	D11S2243E	P2, RPP2, MGC71408, LP2
11	RPLP2	ENSG00000177600	ENST00000526222	processed_transcript	KNOWN	None	10377	None	None	810398	812861	1	D11S2243E	P2, RPP2, MGC71408, LP2
11	RPLP2	ENSG00000177600	ENST00000525722	retained_intron	KNOWN	None	10377	None	None	811372	812875	1	D11S2243E	P2, RPP2, MGC71408, LP2
11	RPLP2	ENSG00000177600	ENST00000527517	retained_intron	KNOWN	None	10377	None	None	812079	812850	1	D11S2243E	P2, RPP2, MGC71408, LP2
3	PRSS44	ENSG00000226074	ENST00000515154	transcribed_unprocessed_pseudogene	KNOWN	None	37324	None	None	46850849	46854048	-1	None	TESSP4
3	PRSS44	ENSG00000226074	ENST00000522832	processed_transcript	KNOWN	None	37324	None	None	46850988	46852831	-1	None	TESSP4
13	RPL21P107	ENSG00000225239	ENST00000411449	processed_pseudogene	KNOWN	None	36313	None	None	111415021	111415480	-1	None	None
10	UBE2V1P5	ENSG00000226582	ENST00000440070	processed_pseudogene	KNOWN	None	44888	None	None	115876906	115877310	1	None	None
X	None	ENSG00000196395	ENST00000502642	unprocessed_pseudogene	KNOWN	None	None	None	None	52853318	52858317	-1	None	None
X	None	ENSG00000196395	ENST00000305824	unprocessed_pseudogene	KNOWN	None	None	None	None	52853316	52858317	-1	None	None
X	None	ENSG00000196395	ENST00000375496	unprocessed_pseudogene	KNOWN	None	None	None	None	52854316	52858317	-1	None	None
6	None	ENSG00000271970	ENST00000607635	antisense	KNOWN	None	None	None	None	43529609	43530156	1	None	None
16	ZSCAN32	ENSG00000140987	ENST00000571285	retained_intron	KNOWN	None	20812	None	None	3432085	3434061	-1	ZNF434	FLJ20417
16	ZSCAN32	ENSG00000140987	ENST00000304926	protein_coding	KNOWN	CCDS10503	20812	1458	485	3432085	3451025	-1	ZNF434	FLJ20417
16	ZSCAN32	ENSG00000140987	ENST00000396852	protein_coding	KNOWN	None	20812	2094	697	3432085	3451065	-1	ZNF434	FLJ20417
16	ZSCAN32	ENSG00000140987	ENST00000576500	nonsense_mediated_decay	KNOWN	None	20812	561	186	3432358	3450995	-1	ZNF434	FLJ20417
16	ZSCAN32	ENSG00000140987	ENST00000439568	protein_coding	PUTATIVE	None	20812	1227	408	3432499	3450994	-1	ZNF434	FLJ20417
16	ZSCAN32	ENSG00000140987	ENST00000573327	protein_coding	KNOWN	None	20812	1275	424	3433671	3450964	-1	ZNF434	FLJ20417
16	ZSCAN32	ENSG00000140987	ENST00000574940	protein_coding	PUTATIVE	None	20812	1284	427	3433701	3447745	-1	ZNF434	FLJ20417
16	ZSCAN32	ENSG00000140987	ENST00000422427	protein_coding	PUTATIVE	None	20812	648	215	3434084	3451013	-1	ZNF434	FLJ20417
16	ZSCAN32	ENSG00000140987	ENST00000574084	retained_intron	KNOWN	None	20812	None	None	3434302	3447391	-1	ZNF434	FLJ20417
16	ZSCAN32	ENSG00000140987	ENST00000573830	protein_coding	PUTATIVE	None	20812	417	138	3434319	3450989	-1	ZNF434	FLJ20417
16	ZSCAN32	ENSG00000140987	ENST00000575350	protein_coding	KNOWN	None	20812	559	185	3434498	3447194	-1	ZNF434	FLJ20417
16	ZSCAN32	ENSG00000140987	ENST00000573719	protein_coding	PUTATIVE	None	20812	653	216	3434821	3447745	-1	ZNF434	FLJ20417
16	ZSCAN32	ENSG00000140987	ENST00000571906	protein_coding	PUTATIVE	None	20812	687	228	3434840	3450976	-1	ZNF434	FLJ20417
16	ZSCAN32	ENSG00000140987	ENST00000396846	protein_coding	KNOWN	None	20812	2094	697	3432086	3447745	-1	ZNF434	FLJ20417
13	LINC00567	ENSG00000259831	ENST00000569854	lincRNA	KNOWN	None	43711	None	None	111462023	111465431	-1	None	None
13	STK24	ENSG00000102572	ENST00000376554	protein_coding	NOVEL	None	11403	630	209	99102455	99118815	-1	None	MST-3, MST3, MST3B, STK3, STE20
13	STK24	ENSG00000102572	ENST00000397517	protein_coding	KNOWN	CCDS32001	11403	1296	431	99102455	99229117	-1	None	MST-3, MST3, MST3B, STK3, STE20
13	STK24	ENSG00000102572	ENST00000376547	protein_coding	KNOWN	CCDS9488	11403	1332	443	99104413	99174252	-1	None	MST-3, MST3, MST3B, STK3, STE20
13	STK24	ENSG00000102572	ENST00000418038	protein_coding	PUTATIVE	None	11403	429	142	99107675	99116039	-1	None	MST-3, MST3, MST3B, STK3, STE20
13	STK24	ENSG00000102572	ENST00000444574	protein_coding	PUTATIVE	None	11403	1108	368	99108236	99171521	-1	None	MST-3, MST3, MST3B, STK3, STE20
13	STK24	ENSG00000102572	ENST00000491878	processed_transcript	KNOWN	None	11403	None	None	99127115	99230194	-1	None	MST-3, MST3, MST3B, STK3, STE20
13	STK24	ENSG00000102572	ENST00000481288	processed_transcript	KNOWN	None	11403	None	None	99157282	99228458	-1	None	MST-3, MST3, MST3B, STK3, STE20
13	STK24	ENSG00000102572	ENST00000539966	protein_coding	KNOWN	None	11403	1239	412	99105169	99229122	-1	None	MST-3, MST3, MST3B, STK3, STE20
4	LSM3P4	ENSG00000250835	ENST00000502948	processed_pseudogene	KNOWN	None	44349	None	None	143238391	143238699	1	None	None
6	None	ENSG00000203362	ENST00000417591	antisense	KNOWN	None	None	None	None	43555967	43559099	-1	None	None
1	None	ENSG00000236943	ENST00000430014	antisense	KNOWN	None	None	None	None	144456138	144521291	-1	None	None
1	None	ENSG00000236943	ENST00000443242	antisense	KNOWN	None	None	None	None	144456641	144491721	-1	None	None
1	None	ENSG00000236943	ENST00000454100	antisense	KNOWN	None	None	None	None	144456641	144491793	-1	None	None
1	None	ENSG00000236943	ENST00000437785	antisense	KNOWN	None	None	None	None	144456645	144520983	-1	None	None
1	None	ENSG00000236943	ENST00000444499	antisense	KNOWN	None	None	None	None	144457533	144491793	-1	None	None
1	None	ENSG00000236943	ENST00000456620	antisense	KNOWN	None	None	None	None	144460626	144461412	-1	None	None
1	None	ENSG00000236943	ENST00000421955	antisense	KNOWN	None	None	None	None	144461396	144470546	-1	None	None
1	None	ENSG00000236943	ENST00000428309	antisense	KNOWN	None	None	None	None	144461400	144470218	-1	None	None
1	None	ENSG00000236943	ENST00000429496	antisense	KNOWN	None	None	None	None	144464347	144491882	-1	None	None
1	None	ENSG00000236943	ENST00000431928	antisense	KNOWN	None	None	None	None	144479978	144481765	-1	None	None
1	None	ENSG00000236943	ENST00000411760	antisense	KNOWN	None	None	None	None	144480741	144520919	-1	None	None
1	None	ENSG00000236943	ENST00000442509	antisense	KNOWN	None	None	None	None	144480744	144520993	-1	None	None
1	None	ENSG00000236943	ENST00000434159	antisense	KNOWN	None	None	None	None	144480753	144481509	-1	None	None
1	None	ENSG00000236943	ENST00000414344	antisense	KNOWN	None	None	None	None	144481555	144521271	-1	None	None
1	None	ENSG00000236943	ENST00000426786	antisense	KNOWN	None	None	None	None	144481627	144521970	-1	None	None
1	None	ENSG00000236943	ENST00000435404	antisense	KNOWN	None	None	None	None	144505804	144520841	-1	None	None
1	None	ENSG00000236943	ENST00000444883	antisense	KNOWN	None	None	None	None	144506091	144516503	-1	None	None
1	None	ENSG00000236943	ENST00000411941	antisense	KNOWN	None	None	None	None	144506277	144521002	-1	None	None
1	None	ENSG00000236943	ENST00000458262	antisense	KNOWN	None	None	None	None	144516419	144520983	-1	None	None
12	None	ENSG00000257604	ENST00000553028	processed_pseudogene	KNOWN	None	None	None	None	79893899	79894467	-1	None	None
13	ANKRD10-IT1	ENSG00000229152	ENST00000426991	sense_intronic	KNOWN	None	39891	None	None	111547406	111551519	-1	None	None
3	IL20RB-AS1	ENSG00000249407	ENST00000462176	antisense	KNOWN	None	40298	None	None	136677967	136701038	-1	None	None
1	GNG5	ENSG00000174021	ENST00000487806	processed_transcript	KNOWN	None	4408	None	None	84964008	84969516	-1	None	None
1	GNG5	ENSG00000174021	ENST00000370645	protein_coding	KNOWN	CCDS696	4408	207	68	84964008	84972248	-1	None	None
1	GNG5	ENSG00000174021	ENST00000370641	protein_coding	KNOWN	CCDS696	4408	207	68	84964012	84972248	-1	None	None
6	None	ENSG00000218107	ENST00000406079	processed_pseudogene	KNOWN	None	None	None	None	43673686	43674488	-1	None	None
2	None	ENSG00000224577	ENST00000443670	lincRNA	KNOWN	None	None	None	None	177502438	177520686	1	None	None
4	None	ENSG00000251248	ENST00000514766	lincRNA	KNOWN	None	None	None	None	143435599	143440136	1	None	None
10	MIR2110	ENSG00000238742	ENST00000459421	miRNA	KNOWN	None	37071	None	None	115933864	115933938	-1	None	hsa-mir-2110
3	RNA5SP142	ENSG00000201325	ENST00000364455	rRNA	KNOWN	None	43042	None	None	137236976	137237097	-1	RN5S142	None
HSCHR1_2_CTG31	None	ENSG00000262403	ENST00000572520	miRNA	NOVEL	None	None	None	None	155221944	155222032	-1	None	None
4	None	ENSG00000249806	ENST00000509497	lincRNA	KNOWN	None	None	None	None	143487172	143582103	1	None	None
10	None	ENSG00000230165	ENST00000454983	processed_pseudogene	KNOWN	None	None	None	None	116005833	116006473	1	None	None
6	None	ENSG00000236961	ENST00000424283	lincRNA	KNOWN	None	None	None	None	43690523	43705571	-1	None	None
11	None	ENSG00000212397	ENST00000391095	snoRNA	NOVEL	None	None	None	None	112473077	112473175	-1	None	None
11	None	ENSG00000233536	ENST00000438416	lincRNA	KNOWN	None	None	None	None	94371204	94373999	1	None	None
1	None	ENSG00000238009	ENST00000466430	lincRNA	KNOWN	None	None	None	None	89295	120932	-1	None	None
1	None	ENSG00000238009	ENST00000477740	lincRNA	KNOWN	None	None	None	None	92230	129217	-1	None	None
1	None	ENSG00000238009	ENST00000471248	lincRNA	KNOWN	None	None	None	None	110953	129173	-1	None	None
1	None	ENSG00000238009	ENST00000453576	lincRNA	KNOWN	None	None	None	None	129081	133566	-1	None	None
11	None	ENSG00000254626	ENST00000524772	lincRNA	KNOWN	None	None	None	None	112658027	112666577	1	None	None
17	None	ENSG00000265853	ENST00000581889	processed_pseudogene	KNOWN	None	None	None	None	16796512	16796743	-1	None	None
6	None	ENSG00000272114	ENST00000607600	antisense	KNOWN	None	None	None	None	43738166	43738353	-1	None	None
HG871_PATCH	UCN3	ENSG00000265608	ENST00000579273	protein_coding	KNOWN	None	17781	486	161	5407201	5416884	1	None	UCNIII, SPC
11	None	ENSG00000253973	ENST00000531592	antisense	KNOWN	None	None	None	None	9025709	9078831	1	None	None
11	None	ENSG00000253973	ENST00000521394	antisense	KNOWN	None	None	None	None	9078798	9086701	1	None	None
2	None	ENSG00000238368	ENST00000459555	snoRNA	NOVEL	None	None	None	None	120674894	120675000	1	None	None
4	None	ENSG00000250326	ENST00000507826	antisense	KNOWN	None	None	None	None	143854348	144106014	-1	None	None
4	None	ENSG00000250326	ENST00000507486	antisense	KNOWN	None	None	None	None	144098813	144105982	-1	None	None
19	None	ENSG00000267096	ENST00000592252	sense_intronic	KNOWN	None	None	None	None	56181998	56183435	1	None	None
14	HMGB1P14	ENSG00000180189	ENST00000557424	processed_pseudogene	KNOWN	None	20014	None	None	58751491	58752081	1	HMGB1P, HMGB1L14	None
14	HMGB1P14	ENSG00000180189	ENST00000317199	processed_pseudogene	KNOWN	None	20014	None	None	58751601	58752116	1	HMGB1P, HMGB1L14	None
6	None	ENSG00000223469	ENST00000451910	lincRNA	KNOWN	None	None	None	None	43819494	43820070	-1	None	None
2	None	ENSG00000233741	ENST00000441321	processed_pseudogene	KNOWN	None	None	None	None	120750775	120751187	-1	None	None
12	RN7SL696P	ENSG00000243714	ENST00000477319	misc_RNA	KNOWN	None	46712	None	None	79918657	79918950	-1	None	None
19	None	ENSG00000211571	ENST00000390145	miRNA	NOVEL	None	None	None	None	56196138	56196282	1	None	None
HG281_PATCH	OR4A18P	ENSG00000261354	ENST00000569413	unprocessed_pseudogene	KNOWN	None	15155	None	None	49938943	49940030	-1	None	None
7	RN7SKP280	ENSG00000201066	ENST00000364196	misc_RNA	KNOWN	None	46004	None	None	154973591	154973894	1	None	None
12	None	ENSG00000238440	ENST00000459220	snoRNA	NOVEL	None	None	None	None	64749542	64749645	-1	None	None
2	PPP1CB	ENSG00000213639	ENST00000455580	protein_coding	PUTATIVE	None	9282	508	168	28974506	29006844	1	None	PP1B, PP-1B, PP1beta
2	PPP1CB	ENSG00000213639	ENST00000420282	protein_coding	KNOWN	None	9282	375	124	28974542	29001865	1	None	PP1B, PP-1B, PP1beta
2	PPP1CB	ENSG00000213639	ENST00000441461	protein_coding	KNOWN	None	9282	415	137	28974605	29001905	1	None	PP1B, PP-1B, PP1beta
2	PPP1CB	ENSG00000213639	ENST00000427786	nonsense_mediated_decay	KNOWN	None	9282	195	64	28974612	29001797	1	None	PP1B, PP-1B, PP1beta
2	PPP1CB	ENSG00000213639	ENST00000296122	protein_coding	KNOWN	CCDS33169	9282	984	327	28974680	29024514	1	None	PP1B, PP-1B, PP1beta
2	PPP1CB	ENSG00000213639	ENST00000395366	protein_coding	KNOWN	CCDS33169	9282	984	327	28974719	29025806	1	None	PP1B, PP-1B, PP1beta
2	PPP1CB	ENSG00000213639	ENST00000464273	retained_intron	KNOWN	None	9282	None	None	28974877	29000127	1	None	PP1B, PP-1B, PP1beta
2	PPP1CB	ENSG00000213639	ENST00000418910	protein_coding	PUTATIVE	None	9282	249	82	29001866	29004844	1	None	PP1B, PP-1B, PP1beta
2	PPP1CB	ENSG00000213639	ENST00000358506	protein_coding	KNOWN	CCDS33169	9282	984	327	28974614	29025796	1	None	PP1B, PP-1B, PP1beta
3	None	ENSG00000242790	ENST00000470024	lincRNA	KNOWN	None	None	None	None	155008977	155011965	1	None	None
10	ARMS2	ENSG00000254636	ENST00000528446	protein_coding	KNOWN	CCDS53585	32685	324	107	124214169	124216868	1	None	LOC387715, ARMD8
2	RPL17P11	ENSG00000233445	ENST00000417593	processed_pseudogene	KNOWN	None	36509	None	None	234630168	234630711	-1	None	None
11	NCAPD3	ENSG00000151503	ENST00000526787	processed_transcript	PUTATIVE	None	28952	None	None	134020014	134023944	-1	None	hCAP-D3, CAP-D3, hHCP-6, KIAA0056, FLJ42888, hcp-6
11	NCAPD3	ENSG00000151503	ENST00000534532	nonsense_mediated_decay	KNOWN	None	28952	3255	1084	134022337	134094426	-1	None	hCAP-D3, CAP-D3, hHCP-6, KIAA0056, FLJ42888, hcp-6
11	NCAPD3	ENSG00000151503	ENST00000534548	protein_coding	KNOWN	CCDS31723	28952	4497	1498	134022340	134093885	-1	None	hCAP-D3, CAP-D3, hHCP-6, KIAA0056, FLJ42888, hcp-6
11	NCAPD3	ENSG00000151503	ENST00000525964	nonsense_mediated_decay	KNOWN	None	28952	2499	832	134022742	134094110	-1	None	hCAP-D3, CAP-D3, hHCP-6, KIAA0056, FLJ42888, hcp-6
11	NCAPD3	ENSG00000151503	ENST00000525432	retained_intron	KNOWN	None	28952	None	None	134026770	134027944	-1	None	hCAP-D3, CAP-D3, hHCP-6, KIAA0056, FLJ42888, hcp-6
11	NCAPD3	ENSG00000151503	ENST00000527944	protein_coding	PUTATIVE	None	28952	584	193	134029785	134038367	-1	None	hCAP-D3, CAP-D3, hHCP-6, KIAA0056, FLJ42888, hcp-6
11	NCAPD3	ENSG00000151503	ENST00000530396	protein_coding	PUTATIVE	None	28952	793	263	134031675	134047970	-1	None	hCAP-D3, CAP-D3, hHCP-6, KIAA0056, FLJ42888, hcp-6
11	NCAPD3	ENSG00000151503	ENST00000534290	retained_intron	KNOWN	None	28952	None	None	134048378	134048809	-1	None	hCAP-D3, CAP-D3, hHCP-6, KIAA0056, FLJ42888, hcp-6
11	NCAPD3	ENSG00000151503	ENST00000533155	nonsense_mediated_decay	KNOWN	None	28952	228	75	134078765	134093835	-1	None	hCAP-D3, CAP-D3, hHCP-6, KIAA0056, FLJ42888, hcp-6
11	NCAPD3	ENSG00000151503	ENST00000528065	retained_intron	KNOWN	None	28952	None	None	134078773	134079628	-1	None	hCAP-D3, CAP-D3, hHCP-6, KIAA0056, FLJ42888, hcp-6
11	NCAPD3	ENSG00000151503	ENST00000525485	protein_coding	KNOWN	None	28952	222	73	134090463	134094439	-1	None	hCAP-D3, CAP-D3, hHCP-6, KIAA0056, FLJ42888, hcp-6
11	NCAPD3	ENSG00000151503	ENST00000534227	protein_coding	KNOWN	None	28952	105	34	134090580	134095348	-1	None	hCAP-D3, CAP-D3, hHCP-6, KIAA0056, FLJ42888, hcp-6
11	NCAPD3	ENSG00000151503	ENST00000526422	protein_coding	PUTATIVE	None	28952	114	37	134092992	134094426	-1	None	hCAP-D3, CAP-D3, hHCP-6, KIAA0056, FLJ42888, hcp-6
11	NCAPD3	ENSG00000151503	ENST00000532445	protein_coding	PUTATIVE	None	28952	100	32	134093341	134095348	-1	None	hCAP-D3, CAP-D3, hHCP-6, KIAA0056, FLJ42888, hcp-6
4	None	ENSG00000251300	ENST00000512793	processed_pseudogene	KNOWN	None	None	None	None	143966239	143967031	1	None	None
2	None	ENSG00000224789	ENST00000455707	antisense	KNOWN	None	None	None	None	120932461	120974120	-1	None	None
17	TBC1D27	ENSG00000128438	ENST00000261651	processed_transcript	KNOWN	None	28104	None	None	16826229	16838153	-1	None	None
17	TBC1D27	ENSG00000128438	ENST00000424239	transcribed_unprocessed_pseudogene	KNOWN	None	28104	None	None	16827310	16835819	-1	None	None
17	TBC1D27	ENSG00000128438	ENST00000582764	processed_transcript	KNOWN	None	28104	None	None	16832595	16836106	-1	None	None
6	None	ENSG00000237686	ENST00000422059	antisense	KNOWN	None	None	None	None	43963460	44042389	-1	None	None
6	None	ENSG00000237686	ENST00000607590	antisense	KNOWN	None	None	None	None	43964919	43971386	-1	None	None
3	None	ENSG00000243886	ENST00000474107	processed_pseudogene	KNOWN	None	None	None	None	137254414	137254984	-1	None	None
X	None	ENSG00000225970	ENST00000423667	processed_transcript	PUTATIVE	None	None	None	None	142840832	142911228	1	None	None
12	PTMAP4	ENSG00000231503	ENST00000426188	processed_pseudogene	KNOWN	None	9627	None	None	9392582	9392927	-1	None	None
12	PTMAP4	ENSG00000231503	ENST00000595695	processed_pseudogene	KNOWN	None	9627	None	None	9392613	9392927	-1	None	None
10	RN7SL384P	ENSG00000242912	ENST00000490382	misc_RNA	KNOWN	None	46400	None	None	116183531	116183826	-1	None	None
2	RNU6ATAC14P	ENSG00000252027	ENST00000516218	snRNA	KNOWN	None	46913	None	None	177529404	177529494	1	None	None
3	SRGAP3-AS3	ENSG00000227929	ENST00000432981	antisense	KNOWN	None	40900	None	None	9258579	9259771	1	None	None
HG7_PATCH	TRBVB	ENSG00000261735	ENST00000566425	TR_V_pseudogene	KNOWN	None	12248	None	None	142451885	142452425	1	None	TCRBV34S1
10	None	ENSG00000229668	ENST00000412744	processed_pseudogene	KNOWN	None	None	None	None	116261756	116262106	-1	None	None
19	None	ENSG00000267117	ENST00000585559	antisense	KNOWN	None	None	None	None	56205484	56205924	-1	None	None
12	None	ENSG00000257474	ENST00000548359	lincRNA	KNOWN	None	None	None	None	79933983	79940334	1	None	None
12	None	ENSG00000257474	ENST00000551032	lincRNA	KNOWN	None	None	None	None	79935986	79944126	1	None	None
12	None	ENSG00000257474	ENST00000552167	lincRNA	KNOWN	None	None	None	None	79939310	79944315	1	None	None
17	None	ENSG00000267184	ENST00000592511	processed_pseudogene	KNOWN	None	None	None	None	67703334	67703514	-1	None	None
14	CHORDC2P	ENSG00000259050	ENST00000557601	processed_pseudogene	KNOWN	None	20050	None	None	90203309	90204735	-1	None	None
2	None	ENSG00000202046	ENST00000365176	misc_RNA	NOVEL	None	None	None	None	120949821	120949933	1	None	None
4	None	ENSG00000250969	ENST00000512715	lincRNA	KNOWN	None	None	None	None	144207446	144251011	1	None	None
HG7_PATCH	PGBD4P1	ENSG00000260353	ENST00000561860	processed_pseudogene	KNOWN	None	44066	None	None	142462860	142463266	1	None	None
2	CDKL4	ENSG00000205111	ENST00000451199	protein_coding	NOVEL	None	19287	375	124	39402787	39414848	-1	None	None
2	CDKL4	ENSG00000205111	ENST00000378803	protein_coding	KNOWN	CCDS33184	19287	948	315	39405688	39456673	-1	None	None
2	CDKL4	ENSG00000205111	ENST00000395035	protein_coding	NOVEL	None	19287	1140	379	39405688	39456673	-1	None	None
2	CDKL4	ENSG00000205111	ENST00000419111	nonsense_mediated_decay	KNOWN	None	19287	177	58	39431668	39456729	-1	None	None
2	None	ENSG00000236878	ENST00000445926	processed_pseudogene	KNOWN	None	None	None	None	120968630	120969291	1	None	None
12	None	ENSG00000258325	ENST00000547834	antisense	KNOWN	None	None	None	None	2906043	2922068	-1	None	None
12	None	ENSG00000258325	ENST00000552469	antisense	KNOWN	None	None	None	None	2914300	2921547	-1	None	None
12	None	ENSG00000258325	ENST00000547794	antisense	KNOWN	None	None	None	None	2914300	2921982	-1	None	None
11	MIR5691	ENSG00000264984	ENST00000579525	miRNA	KNOWN	None	43545	None	None	9111859	9111926	-1	None	hsa-mir-5691
2	None	ENSG00000230552	ENST00000438143	lincRNA	KNOWN	None	None	None	None	177588996	177630839	-1	None	None
2	None	ENSG00000230552	ENST00000428283	retained_intron	KNOWN	None	None	None	None	177618128	177683978	-1	None	None
2	None	ENSG00000230552	ENST00000430460	lincRNA	KNOWN	None	None	None	None	177625965	177627344	-1	None	None
2	None	ENSG00000230552	ENST00000451851	lincRNA	KNOWN	None	None	None	None	177626136	177684038	-1	None	None
8	None	ENSG00000253490	ENST00000522158	lincRNA	KNOWN	None	None	None	None	29605825	29609813	1	None	None
8	None	ENSG00000253490	ENST00000523123	lincRNA	KNOWN	None	None	None	None	29605841	29656006	1	None	None
8	None	ENSG00000253490	ENST00000517491	lincRNA	KNOWN	None	None	None	None	29605866	29656008	1	None	None
7	None	ENSG00000228521	ENST00000454149	lincRNA	KNOWN	None	None	None	None	154995857	154996899	1	None	None
17	None	ENSG00000252100	ENST00000516291	miRNA	NOVEL	None	None	None	None	67945002	67945088	-1	None	None
19	None	ENSG00000267183	ENST00000587937	lincRNA	KNOWN	None	None	None	None	56207251	56209196	1	None	None
3	SRGAP3-AS4	ENSG00000235830	ENST00000449023	lincRNA	KNOWN	None	42434	None	None	9298443	9299191	1	None	None
HSCHR6_MHC_MCF	C6orf100	ENSG00000237313	ENST00000434916	protein_coding	KNOWN	None	21195	189	62	28911820	28912480	1	None	dJ25J6.5
HG281_PATCH	OR4A19P	ENSG00000259853	ENST00000570291	unprocessed_pseudogene	KNOWN	None	15156	None	None	49941864	49942966	-1	None	None
7	None	ENSG00000225612	ENST00000418523	lincRNA	KNOWN	None	None	None	None	155059009	155059762	1	None	None
17	None	ENSG00000237560	ENST00000455460	lincRNA	KNOWN	None	None	None	None	67957848	67979614	1	None	None
17	None	ENSG00000237560	ENST00000420427	lincRNA	KNOWN	None	None	None	None	67957903	67979679	1	None	None
2	None	ENSG00000248114	ENST00000509542	unprocessed_pseudogene	KNOWN	None	None	None	None	234647598	234650603	1	None	None
11	None	ENSG00000247416	ENST00000500537	antisense	KNOWN	None	None	None	None	112830002	112834182	-1	None	None
11	None	ENSG00000247416	ENST00000532002	antisense	KNOWN	None	None	None	None	112831050	112832021	-1	None	None
2	None	ENSG00000227788	ENST00000440974	processed_pseudogene	KNOWN	None	None	None	None	120969303	120970438	1	None	None
15	None	ENSG00000259661	ENST00000560522	antisense	KNOWN	None	None	None	None	91463448	91464416	-1	None	None
16	None	ENSG00000259517	ENST00000561084	protein_coding	PUTATIVE	None	None	256	84	54279456	54280877	-1	None	None
16	None	ENSG00000259517	ENST00000561336	protein_coding	PUTATIVE	None	None	240	79	54279532	54304658	-1	None	None
8	None	ENSG00000253369	ENST00000521558	lincRNA	KNOWN	None	None	None	None	54307771	54308506	-1	None	None
3	SPSB4	ENSG00000175093	ENST00000310546	protein_coding	KNOWN	CCDS3115	30630	822	273	140770244	140867453	1	None	SSB-4
3	SPSB4	ENSG00000175093	ENST00000508126	nonsense_mediated_decay	KNOWN	None	30630	271	89	140785480	140867452	1	None	SSB-4
3	SPSB4	ENSG00000175093	ENST00000508828	processed_transcript	PUTATIVE	None	30630	None	None	140795802	140799215	1	None	SSB-4
3	SPSB4	ENSG00000175093	ENST00000507895	processed_transcript	PUTATIVE	None	30630	None	None	140796288	140866302	1	None	SSB-4
HG7_PATCH	PRSS3P1	ENSG00000261225	ENST00000565447	unprocessed_pseudogene	KNOWN	None	43787	None	None	142500930	142504458	1	None	TRY5
3	None	ENSG00000271943	ENST00000607601	lincRNA	KNOWN	None	None	None	None	27679806	27680267	1	None	None
11	TYRL	ENSG00000123447	ENST00000531826	processed_pseudogene	KNOWN	None	12443	None	None	49426650	49426876	-1	None	None
11	TYRL	ENSG00000123447	ENST00000243152	processed_pseudogene	KNOWN	None	12443	None	None	49426527	49437299	-1	None	None
8	None	ENSG00000263660	ENST00000585120	miRNA	NOVEL	None	None	None	None	144397091	144397176	1	None	None
2	MTND3P10	ENSG00000233286	ENST00000450967	processed_pseudogene	KNOWN	None	42150	None	None	120970511	120970851	1	None	None
11	KRT8P41	ENSG00000213538	ENST00000533985	processed_pseudogene	KNOWN	None	39875	None	None	9115924	9117437	1	None	None
11	KRT8P41	ENSG00000213538	ENST00000440275	processed_pseudogene	KNOWN	None	39875	None	None	9115910	9117737	1	None	None
HG75_PATCH	CCL4L2	ENSG00000260717	ENST00000563802	protein_coding	NOVEL	None	24066	279	92	34538284	34540022	1	None	None
HG75_PATCH	CCL4L2	ENSG00000260717	ENST00000564234	protein_coding	KNOWN	None	24066	312	103	34538439	34540254	1	None	None
HG75_PATCH	CCL4L2	ENSG00000260717	ENST00000563132	protein_coding	KNOWN	None	24066	261	86	34538439	34540254	1	None	None
HG75_PATCH	CCL4L2	ENSG00000260717	ENST00000569856	protein_coding	KNOWN	None	24066	264	87	34538439	34540254	1	None	None
HG75_PATCH	CCL4L2	ENSG00000260717	ENST00000567858	protein_coding	NOVEL	None	24066	291	96	34538439	34540254	1	None	None
HG75_PATCH	CCL4L2	ENSG00000260717	ENST00000567807	protein_coding	NOVEL	None	24066	312	103	34538439	34540254	1	None	None
HG75_PATCH	CCL4L2	ENSG00000260717	ENST00000562236	protein_coding	PUTATIVE	None	24066	144	47	34538439	34540254	1	None	None
HG75_PATCH	CCL4L2	ENSG00000260717	ENST00000567608	protein_coding	KNOWN	None	24066	195	64	34538439	34540254	1	None	None
HSCHR6_MHC_MCF	OR2W1	ENSG00000228977	ENST00000420540	protein_coding	KNOWN	None	8281	963	320	29012143	29013170	-1	None	hs6M1-15
11	HNRNPA3P9	ENSG00000270903	ENST00000604913	processed_pseudogene	KNOWN	None	48755	None	None	32613339	32614317	-1	None	None
15	None	ENSG00000224441	ENST00000448987	antisense	KNOWN	None	None	None	None	91475816	91478360	-1	None	None
15	None	ENSG00000224441	ENST00000438890	antisense	KNOWN	None	None	None	None	91475832	91478284	-1	None	None
2	DNAJB3	ENSG00000227802	ENST00000449667	processed_transcript	KNOWN	None	32397	None	None	234651396	234652661	-1	None	HCG3
2	DNAJB3	ENSG00000227802	ENST00000446806	transcribed_processed_pseudogene	KNOWN	None	32397	None	None	234651834	234652562	-1	None	HCG3
2	None	ENSG00000243104	ENST00000429447	processed_pseudogene	KNOWN	None	None	None	None	120970920	120971207	1	None	None
12	LINC00987	ENSG00000237248	ENST00000427111	lincRNA	KNOWN	None	48911	None	None	9392599	9395635	1	None	None
11	PTP4A2P2	ENSG00000254481	ENST00000534330	processed_pseudogene	KNOWN	None	9638	None	None	133993723	133994224	-1	PTP4AP2	None
17	None	ENSG00000199801	ENST00000362931	misc_RNA	NOVEL	None	None	None	None	67982127	67982235	1	None	None
3	PABPC1P10	ENSG00000239443	ENST00000464731	processed_pseudogene	KNOWN	None	37992	None	None	155027216	155027596	-1	PABPL1	D3S3192
2	MTND4P26	ENSG00000234065	ENST00000415971	processed_pseudogene	KNOWN	None	42213	None	None	120971207	120972565	1	None	None
3	None	ENSG00000232766	ENST00000438957	processed_pseudogene	KNOWN	None	None	None	None	27744620	27745059	-1	None	None
3	None	ENSG00000248772	ENST00000513484	unprocessed_pseudogene	KNOWN	None	None	None	None	155093472	155093579	-1	None	None
7	None	ENSG00000224545	ENST00000447612	processed_pseudogene	KNOWN	None	None	None	None	131204896	131205262	1	None	None
17	None	ENSG00000230258	ENST00000435112	antisense	KNOWN	None	None	None	None	68013465	68125000	-1	None	None
17	None	ENSG00000230258	ENST00000587325	antisense	KNOWN	None	None	None	None	68014252	68069423	-1	None	None
2	MTND5P28	ENSG00000223549	ENST00000438005	processed_pseudogene	KNOWN	None	42290	None	None	120972757	120974855	1	None	None
2	FUCA1P1	ENSG00000237053	ENST00000374476	processed_pseudogene	KNOWN	None	4007	None	None	177669715	177671065	-1	FUCA1P	None
3	None	ENSG00000225175	ENST00000451768	unprocessed_pseudogene	KNOWN	None	None	None	None	186405118	186410295	1	None	None
3	None	ENSG00000244227	ENST00000481578	lincRNA	KNOWN	None	None	None	None	167613736	167641799	1	None	None
3	None	ENSG00000244227	ENST00000459923	lincRNA	KNOWN	None	None	None	None	167613744	167640761	1	None	None
3	None	ENSG00000244227	ENST00000490897	lincRNA	KNOWN	None	None	None	None	167613755	167632427	1	None	None
3	None	ENSG00000244227	ENST00000494887	lincRNA	KNOWN	None	None	None	None	167621115	167632819	1	None	None
3	None	ENSG00000244227	ENST00000469060	lincRNA	KNOWN	None	None	None	None	167621186	167640430	1	None	None
3	None	ENSG00000244227	ENST00000493529	lincRNA	KNOWN	None	None	None	None	167632847	167638537	1	None	None
3	None	ENSG00000244227	ENST00000496891	lincRNA	KNOWN	None	None	None	None	167632927	167640418	1	None	None
8	ADCK5	ENSG00000173137	ENST00000534714	processed_transcript	KNOWN	None	21738	None	None	145596790	145616264	1	None	FLJ35454
8	ADCK5	ENSG00000173137	ENST00000526231	processed_transcript	KNOWN	None	21738	None	None	145597526	145616910	1	None	FLJ35454
8	ADCK5	ENSG00000173137	ENST00000533715	nonsense_mediated_decay	KNOWN	None	21738	264	87	145597731	145616476	1	None	FLJ35454
8	ADCK5	ENSG00000173137	ENST00000529654	nonsense_mediated_decay	KNOWN	None	21738	390	129	145597735	145618457	1	None	FLJ35454
8	ADCK5	ENSG00000173137	ENST00000308860	protein_coding	KNOWN	CCDS34965	21738	1743	580	145597741	145618451	1	None	FLJ35454
8	ADCK5	ENSG00000173137	ENST00000525136	processed_transcript	KNOWN	None	21738	None	None	145597744	145603110	1	None	FLJ35454
8	ADCK5	ENSG00000173137	ENST00000532190	protein_coding	NOVEL	None	21738	348	115	145597750	145616084	1	None	FLJ35454
8	ADCK5	ENSG00000173137	ENST00000526833	nonsense_mediated_decay	KNOWN	None	21738	348	115	145597765	145616255	1	None	FLJ35454
11	RNU7-187P	ENSG00000238998	ENST00000458985	snRNA	KNOWN	None	45721	None	None	112848075	112848142	1	None	None
11	None	ENSG00000244535	ENST00000466686	processed_pseudogene	KNOWN	None	None	None	None	32779814	32780160	1	None	None
HSCHR6_MHC_MCF	OR2B3	ENSG00000233687	ENST00000450817	protein_coding	KNOWN	None	8238	942	313	29054126	29055231	-1	OR2B3P	OR6-4
7	CPA5	ENSG00000158525	ENST00000497503	protein_coding	KNOWN	None	15722	25	7	129984656	129986351	1	None	None
7	CPA5	ENSG00000158525	ENST00000463587	protein_coding	KNOWN	None	15722	370	122	129984656	129999466	1	None	None
7	CPA5	ENSG00000158525	ENST00000461828	protein_coding	KNOWN	CCDS5819	15722	1311	436	129984656	130008438	1	None	None
7	CPA5	ENSG00000158525	ENST00000495736	retained_intron	KNOWN	None	15722	None	None	129984656	130008571	1	None	None
7	CPA5	ENSG00000158525	ENST00000494311	protein_coding	KNOWN	None	15722	96	31	129984659	129986422	1	None	None
7	CPA5	ENSG00000158525	ENST00000466363	protein_coding	KNOWN	CCDS5819	15722	1311	436	129984666	130008571	1	None	None
7	CPA5	ENSG00000158525	ENST00000485477	protein_coding	KNOWN	CCDS5819	15722	1311	436	129984687	130008571	1	None	None
7	CPA5	ENSG00000158525	ENST00000431780	protein_coding	KNOWN	CCDS47713	15722	1212	403	129984694	130008570	1	None	None
7	CPA5	ENSG00000158525	ENST00000474905	protein_coding	KNOWN	CCDS5819	15722	1311	436	129984701	130008571	1	None	None
7	CPA5	ENSG00000158525	ENST00000393213	protein_coding	KNOWN	CCDS5819	15722	1311	436	129986327	130008571	1	None	None
7	CPA5	ENSG00000158525	ENST00000479492	protein_coding	NOVEL	None	15722	257	84	130003282	130008571	1	None	None
7	CPA5	ENSG00000158525	ENST00000355388	protein_coding	KNOWN	CCDS5819	15722	1311	436	129984630	130008567	1	None	None
3	None	ENSG00000243518	ENST00000476543	processed_pseudogene	KNOWN	None	None	None	None	155119118	155121188	-1	None	None
2	None	ENSG00000223777	ENST00000432828	processed_pseudogene	KNOWN	None	None	None	None	177674154	177674587	-1	None	None
8	RNU6-220P	ENSG00000212221	ENST00000390919	snRNA	KNOWN	None	47183	None	None	144432342	144432448	1	None	None
3	None	ENSG00000254485	ENST00000491930	antisense	KNOWN	None	None	None	None	9334272	9404713	-1	None	None
3	None	ENSG00000254485	ENST00000518331	antisense	KNOWN	None	None	None	None	9379286	9404987	-1	None	None
3	None	ENSG00000254485	ENST00000466431	antisense	KNOWN	None	None	None	None	9391369	9404625	-1	None	None
3	None	ENSG00000254485	ENST00000517846	antisense	KNOWN	None	None	None	None	9391369	9404690	-1	None	None
3	None	ENSG00000254485	ENST00000517687	antisense	KNOWN	None	None	None	None	9397456	9404662	-1	None	None
12	None	ENSG00000200688	ENST00000363818	misc_RNA	NOVEL	None	None	None	None	112506908	112507013	1	None	None
3	C3orf84	ENSG00000236980	ENST00000545770	protein_coding	KNOWN	CCDS58831	44666	615	204	49215065	49229291	-1	None	None
3	C3orf84	ENSG00000236980	ENST00000443990	processed_transcript	KNOWN	None	44666	None	None	49215069	49227457	-1	None	None
3	C3orf84	ENSG00000236980	ENST00000432035	protein_coding	NOVEL	None	44666	618	205	49215069	49229255	-1	None	None
7	None	ENSG00000260426	ENST00000569431	sense_overlapping	KNOWN	None	None	None	None	155192617	155194477	1	None	None
8	RHPN1-AS1	ENSG00000254389	ENST00000518049	antisense	KNOWN	None	28457	None	None	144448801	144450718	-1	C8orf51	MGC3113
8	RHPN1-AS1	ENSG00000254389	ENST00000596598	antisense	KNOWN	None	28457	None	None	144450336	144450515	-1	C8orf51	MGC3113
19	CCDC61	ENSG00000104983	ENST00000596161	retained_intron	KNOWN	None	33629	None	None	46498725	46506801	1	None	None
19	CCDC61	ENSG00000104983	ENST00000595358	protein_coding	NOVEL	CCDS46120	33629	1539	512	46498725	46521874	1	None	None
19	CCDC61	ENSG00000104983	ENST00000594672	protein_coding	NOVEL	None	33629	231	76	46498729	46506759	1	None	None
19	CCDC61	ENSG00000104983	ENST00000596687	nonsense_mediated_decay	KNOWN	None	33629	150	49	46498737	46518686	1	None	None
19	CCDC61	ENSG00000104983	ENST00000599044	retained_intron	KNOWN	None	33629	None	None	46506264	46518591	1	None	None
19	CCDC61	ENSG00000104983	ENST00000594087	protein_coding	NOVEL	None	33629	999	332	46506264	46521650	1	None	None
19	CCDC61	ENSG00000104983	ENST00000601763	processed_transcript	KNOWN	None	33629	None	None	46521637	46524576	1	None	None
19	CCDC61	ENSG00000104983	ENST00000263284	protein_coding	KNOWN	None	33629	1596	531	46498339	46521874	1	None	None
19	CCDC61	ENSG00000104983	ENST00000536603	protein_coding	KNOWN	None	33629	999	332	46498746	46521650	1	None	None
12	None	ENSG00000200135	ENST00000363265	misc_RNA	NOVEL	None	None	None	None	112587164	112587276	1	None	None
8	FGF20	ENSG00000078579	ENST00000180166	protein_coding	KNOWN	CCDS5998	3677	636	211	16849678	16859690	-1	None	None
8	FGF20	ENSG00000078579	ENST00000519941	protein_coding	PUTATIVE	None	3677	340	112	16850487	16859349	-1	None	None
2	None	ENSG00000235840	ENST00000437837	lincRNA	KNOWN	None	None	None	None	121076583	121083874	1	None	None
5	DAB2	ENSG00000153071	ENST00000339788	protein_coding	KNOWN	None	2662	1659	552	39371780	39425082	-1	None	DOC-2
5	DAB2	ENSG00000153071	ENST00000320816	protein_coding	KNOWN	CCDS34149	2662	2313	770	39371780	39425272	-1	None	DOC-2
5	DAB2	ENSG00000153071	ENST00000509337	protein_coding	NOVEL	CCDS58946	2662	2250	749	39373123	39394502	-1	None	DOC-2
5	DAB2	ENSG00000153071	ENST00000502879	retained_intron	KNOWN	None	2662	None	None	39374847	39376144	-1	None	DOC-2
5	DAB2	ENSG00000153071	ENST00000512525	processed_transcript	KNOWN	None	2662	None	None	39385270	39392541	-1	None	DOC-2
5	DAB2	ENSG00000153071	ENST00000505968	retained_intron	KNOWN	None	2662	None	None	39387799	39388959	-1	None	DOC-2
5	DAB2	ENSG00000153071	ENST00000507539	nonsense_mediated_decay	KNOWN	None	2662	351	116	39389210	39425015	-1	None	DOC-2
5	DAB2	ENSG00000153071	ENST00000511792	protein_coding	KNOWN	None	2662	227	74	39393360	39462402	-1	None	DOC-2
5	DAB2	ENSG00000153071	ENST00000503513	protein_coding	KNOWN	None	2662	201	66	39393386	39424970	-1	None	DOC-2
5	DAB2	ENSG00000153071	ENST00000515700	protein_coding	KNOWN	None	2662	116	37	39393471	39425078	-1	None	DOC-2
5	DAB2	ENSG00000153071	ENST00000513052	processed_transcript	KNOWN	None	2662	None	None	39394396	39408939	-1	None	DOC-2
5	DAB2	ENSG00000153071	ENST00000515269	processed_transcript	KNOWN	None	2662	None	None	39394456	39424972	-1	None	DOC-2
5	DAB2	ENSG00000153071	ENST00000511536	processed_transcript	KNOWN	None	2662	None	None	39417655	39424972	-1	None	DOC-2
5	DAB2	ENSG00000153071	ENST00000509457	processed_transcript	KNOWN	None	2662	None	None	39417675	39462256	-1	None	DOC-2
5	DAB2	ENSG00000153071	ENST00000502388	retained_intron	KNOWN	None	2662	None	None	39418048	39425061	-1	None	DOC-2
5	DAB2	ENSG00000153071	ENST00000507990	processed_transcript	KNOWN	None	2662	None	None	39460969	39462400	-1	None	DOC-2
5	DAB2	ENSG00000153071	ENST00000545653	protein_coding	KNOWN	CCDS58946	2662	2250	749	39371780	39425335	-1	None	DOC-2
HSCHR6_MHC_MANN	DHX16	ENSG00000233049	ENST00000414052	protein_coding	KNOWN	None	2739	1683	560	30665566	30674459	-1	DDX16	DBP2, Prp2, PRPF2
HSCHR6_MHC_MANN	DHX16	ENSG00000233049	ENST00000451456	protein_coding	KNOWN	None	2739	3126	1041	30665566	30685513	-1	DDX16	DBP2, Prp2, PRPF2
HSCHR6_MHC_MANN	DHX16	ENSG00000233049	ENST00000461170	processed_transcript	KNOWN	None	2739	None	None	30671949	30673053	-1	DDX16	DBP2, Prp2, PRPF2
HSCHR6_MHC_MANN	DHX16	ENSG00000233049	ENST00000447945	protein_coding	KNOWN	None	2739	886	294	30677606	30685464	-1	DDX16	DBP2, Prp2, PRPF2
15	None	ENSG00000259446	ENST00000561458	antisense	KNOWN	None	None	None	None	33595858	33602447	-1	None	None
15	None	ENSG00000259446	ENST00000559457	antisense	KNOWN	None	None	None	None	33595860	33602860	-1	None	None
17	None	ENSG00000267603	ENST00000586373	lincRNA	KNOWN	None	None	None	None	68047418	68064236	1	None	None
17	None	ENSG00000267603	ENST00000588782	lincRNA	KNOWN	None	None	None	None	68047519	68063632	1	None	None
11	None	ENSG00000254616	ENST00000532608	processed_pseudogene	KNOWN	None	None	None	None	134042990	134043575	1	None	None
2	None	ENSG00000227098	ENST00000432925	lincRNA	KNOWN	None	None	None	None	177710721	177714156	-1	None	None
2	None	ENSG00000227098	ENST00000457756	lincRNA	KNOWN	None	None	None	None	177710784	177714131	-1	None	None
11	NCAM1-AS1	ENSG00000227487	ENST00000533638	antisense	KNOWN	None	48675	None	None	113140254	113144528	-1	None	None
11	NCAM1-AS1	ENSG00000227487	ENST00000526229	antisense	KNOWN	None	48675	None	None	113140441	113144623	-1	None	None
3	None	ENSG00000272282	ENST00000606069	lincRNA	KNOWN	None	None	None	None	27754401	27755496	1	None	None
17	LINC00910	ENSG00000188825	ENST00000341011	lincRNA	KNOWN	None	44361	None	None	41447213	41465913	-1	None	None
17	LINC00910	ENSG00000188825	ENST00000592135	lincRNA	KNOWN	None	44361	None	None	41453296	41465680	-1	None	None
17	LINC00910	ENSG00000188825	ENST00000592094	lincRNA	KNOWN	None	44361	None	None	41454575	41465703	-1	None	None
17	LINC00910	ENSG00000188825	ENST00000587874	lincRNA	KNOWN	None	44361	None	None	41454943	41465699	-1	None	None
17	LINC00910	ENSG00000188825	ENST00000588654	lincRNA	KNOWN	None	44361	None	None	41458656	41465702	-1	None	None
17	LINC00910	ENSG00000188825	ENST00000586231	lincRNA	KNOWN	None	44361	None	None	41463231	41466567	-1	None	None
17	LINC00910	ENSG00000188825	ENST00000606190	snRNA	KNOWN	None	44361	None	None	41464594	41464785	-1	None	None
2	None	ENSG00000237614	ENST00000413991	lincRNA	KNOWN	None	None	None	None	121300485	121301902	-1	None	None
7	LUZP6	ENSG00000267697	ENST00000589735	protein_coding	KNOWN	CCDS59509	33955	177	58	135612022	135612198	-1	None	MTPNUT, MPD6
12	None	ENSG00000257494	ENST00000547401	antisense	KNOWN	None	None	None	None	112694604	112696895	1	None	None
11	RPS25	ENSG00000118181	ENST00000532567	nonsense_mediated_decay	KNOWN	None	10413	120	39	118886422	118889040	-1	None	S25
11	RPS25	ENSG00000118181	ENST00000527791	nonsense_mediated_decay	KNOWN	None	10413	120	39	118886422	118889388	-1	None	S25
11	RPS25	ENSG00000118181	ENST00000527673	protein_coding	KNOWN	CCDS8406	10413	378	125	118886422	118889400	-1	None	S25
11	RPS25	ENSG00000118181	ENST00000527853	retained_intron	KNOWN	None	10413	None	None	118886436	118889401	-1	None	S25
11	RPS25	ENSG00000118181	ENST00000524864	retained_intron	KNOWN	None	10413	None	None	118888071	118889376	-1	None	S25
11	RPS25	ENSG00000118181	ENST00000528547	processed_transcript	KNOWN	None	10413	None	None	118888408	118888754	-1	None	S25
17	None	ENSG00000230709	ENST00000428142	lincRNA	KNOWN	None	None	None	None	16879313	16884667	-1	None	None
3	NRADDP	ENSG00000236409	ENST00000437305	unitary_pseudogene	KNOWN	None	19337	None	None	47053032	47054636	1	None	None
6	FAM184A	ENSG00000111879	ENST00000521043	protein_coding	NOVEL	None	20991	807	268	119280928	119297153	-1	C6orf60	FLJ13942
6	FAM184A	ENSG00000111879	ENST00000517987	protein_coding	NOVEL	None	20991	211	69	119280994	119285925	-1	C6orf60	FLJ13942
6	FAM184A	ENSG00000111879	ENST00000338891	protein_coding	KNOWN	CCDS43499	20991	3423	1140	119280994	119399908	-1	C6orf60	FLJ13942
6	FAM184A	ENSG00000111879	ENST00000482219	retained_intron	KNOWN	None	20991	None	None	119280995	119285085	-1	C6orf60	FLJ13942
6	FAM184A	ENSG00000111879	ENST00000481884	protein_coding	NOVEL	None	20991	224	73	119280995	119285905	-1	C6orf60	FLJ13942
6	FAM184A	ENSG00000111879	ENST00000475529	nonsense_mediated_decay	KNOWN	None	20991	1115	370	119280995	119301367	-1	C6orf60	FLJ13942
6	FAM184A	ENSG00000111879	ENST00000352896	protein_coding	KNOWN	CCDS43500	20991	2916	971	119280995	119470552	-1	C6orf60	FLJ13942
6	FAM184A	ENSG00000111879	ENST00000368475	protein_coding	NOVEL	None	20991	2811	936	119280998	119470352	-1	C6orf60	FLJ13942
6	FAM184A	ENSG00000111879	ENST00000368472	protein_coding	NOVEL	None	20991	498	165	119281087	119295690	-1	C6orf60	FLJ13942
6	FAM184A	ENSG00000111879	ENST00000521531	protein_coding	PUTATIVE	None	20991	3171	1056	119281268	119399537	-1	C6orf60	FLJ13942
6	FAM184A	ENSG00000111879	ENST00000522284	protein_coding	PUTATIVE	None	20991	1590	529	119326452	119400344	-1	C6orf60	FLJ13942
6	FAM184A	ENSG00000111879	ENST00000448815	protein_coding	PUTATIVE	None	20991	425	140	119332342	119341231	-1	C6orf60	FLJ13942
11	None	ENSG00000200615	ENST00000363745	misc_RNA	NOVEL	None	None	None	None	33025796	33025891	-1	None	None
HSCHR6_MHC_MCF	OR2J1	ENSG00000226931	ENST00000427659	protein_coding	KNOWN	None	8259	939	312	29068534	29069806	1	OR2J1P	OR6-5, hs6M1-4, dJ80I19.2
9	OR2K2	ENSG00000171133	ENST00000302681	protein_coding	KNOWN	CCDS6778	8264	951	316	114089763	114090713	-1	OR2AR1P	HTPCRH06, HSHTPCRH06
9	OR2K2	ENSG00000171133	ENST00000374428	protein_coding	KNOWN	None	8264	1038	345	114089763	114090800	-1	OR2AR1P	HTPCRH06, HSHTPCRH06
2	UGT1A2P	ENSG00000228445	ENST00000454886	unprocessed_pseudogene	KNOWN	None	12534	None	None	234655860	234656725	1	None	UGT1BP
17	None	ENSG00000230969	ENST00000419151	lincRNA	KNOWN	None	None	None	None	16891643	16893491	1	None	None
12	None	ENSG00000258092	ENST00000547042	antisense	KNOWN	None	None	None	None	2906302	2913104	-1	None	None
3	None	ENSG00000226724	ENST00000413467	unprocessed_pseudogene	KNOWN	None	None	None	None	186416309	186426363	1	None	None
2	None	ENSG00000232140	ENST00000432474	lincRNA	KNOWN	None	None	None	None	121311319	121315685	-1	None	None
14	RNU6-341P	ENSG00000252782	ENST00000516973	snRNA	KNOWN	None	47304	None	None	58759011	58759106	-1	None	None
7	None	ENSG00000213261	ENST00000445713	processed_pseudogene	KNOWN	None	None	None	None	131346711	131347383	-1	None	None
19	KLK2	ENSG00000167751	ENST00000593493	protein_coding	PUTATIVE	None	6363	68	21	51364824	51379895	1	None	None
19	KLK2	ENSG00000167751	ENST00000595375	retained_intron	KNOWN	None	6363	None	None	51373857	51378307	1	None	None
19	KLK2	ENSG00000167751	ENST00000597509	processed_transcript	KNOWN	None	6363	None	None	51373871	51379813	1	None	None
19	KLK2	ENSG00000167751	ENST00000596950	processed_transcript	KNOWN	None	6363	None	None	51374001	51380198	1	None	None
19	KLK2	ENSG00000167751	ENST00000325321	protein_coding	KNOWN	CCDS12808	6363	786	261	51376505	51383823	1	None	None
19	KLK2	ENSG00000167751	ENST00000600690	protein_coding	NOVEL	None	6363	367	121	51376554	51380177	1	None	None
19	KLK2	ENSG00000167751	ENST00000599280	retained_intron	KNOWN	None	6363	None	None	51376689	51380551	1	None	None
19	KLK2	ENSG00000167751	ENST00000594174	nonsense_mediated_decay	KNOWN	None	6363	210	69	51376689	51381904	1	None	None
19	KLK2	ENSG00000167751	ENST00000597727	nonsense_mediated_decay	KNOWN	None	6363	150	49	51376692	51380477	1	None	None
19	KLK2	ENSG00000167751	ENST00000595316	nonsense_mediated_decay	KNOWN	None	6363	150	49	51376695	51380516	1	None	None
19	KLK2	ENSG00000167751	ENST00000599121	nonsense_mediated_decay	KNOWN	None	6363	150	49	51376695	51382046	1	None	None
19	KLK2	ENSG00000167751	ENST00000600755	retained_intron	KNOWN	None	6363	None	None	51376701	51382346	1	None	None
19	KLK2	ENSG00000167751	ENST00000600866	retained_intron	KNOWN	None	6363	None	None	51376701	51382346	1	None	None
19	KLK2	ENSG00000167751	ENST00000358049	protein_coding	KNOWN	CCDS42597	6363	672	223	51376714	51383823	1	None	None
19	KLK2	ENSG00000167751	ENST00000597439	nonsense_mediated_decay	KNOWN	None	6363	495	164	51376714	51383823	1	None	None
19	KLK2	ENSG00000167751	ENST00000601743	retained_intron	KNOWN	None	6363	None	None	51376730	51378036	1	None	None
19	KLK2	ENSG00000167751	ENST00000599568	protein_coding	PUTATIVE	None	6363	131	42	51378899	51379958	1	None	None
19	KLK2	ENSG00000167751	ENST00000595173	retained_intron	KNOWN	None	6363	None	None	51379287	51382471	1	None	None
19	KLK2	ENSG00000167751	ENST00000601114	retained_intron	KNOWN	None	6363	None	None	51379506	51380668	1	None	None
19	KLK2	ENSG00000167751	ENST00000595050	non_stop_decay	KNOWN	None	6363	550	182	51379857	51381861	1	None	None
19	KLK2	ENSG00000167751	ENST00000597911	nonsense_mediated_decay	KNOWN	None	6363	155	50	51380200	51381870	1	None	None
19	KLK2	ENSG00000167751	ENST00000597461	retained_intron	KNOWN	None	6363	None	None	51380700	51382144	1	None	None
19	KLK2	ENSG00000167751	ENST00000391810	protein_coding	KNOWN	CCDS58675	6363	480	159	51376695	51382046	1	None	None
2	RNU6-187P	ENSG00000206866	ENST00000384139	snRNA	KNOWN	None	47150	None	None	177794713	177794818	-1	None	None
HG873_PATCH	PDE3B	ENSG00000261923	ENST00000574273	protein_coding	KNOWN	None	8779	3339	1112	14665269	14892350	1	None	HcGIP1
HG873_PATCH	PDE3B	ENSG00000261923	ENST00000571586	protein_coding	KNOWN	None	8779	3186	1061	14665377	14891440	1	None	HcGIP1
HG873_PATCH	PDE3B	ENSG00000261923	ENST00000571500	processed_transcript	PUTATIVE	None	8779	None	None	14665806	14798209	1	None	HcGIP1
HG873_PATCH	PDE3B	ENSG00000261923	ENST00000572728	processed_transcript	PUTATIVE	None	8779	None	None	14720385	14722472	1	None	HcGIP1
HG873_PATCH	PDE3B	ENSG00000261923	ENST00000571416	processed_transcript	KNOWN	None	8779	None	None	14810485	14840752	1	None	HcGIP1
1	None	ENSG00000239945	ENST00000495576	lincRNA	KNOWN	None	None	None	None	89551	91105	-1	None	None
X	None	ENSG00000235729	ENST00000448562	processed_pseudogene	KNOWN	None	None	None	None	142889486	142889828	1	None	None
11	None	ENSG00000255097	ENST00000528520	sense_intronic	KNOWN	None	None	None	None	9263995	9267056	-1	None	None
2	None	ENSG00000201006	ENST00000364136	misc_RNA	NOVEL	None	None	None	None	121408849	121408950	1	None	None
6	None	ENSG00000265518	ENST00000579127	miRNA	NOVEL	None	None	None	None	43980738	43980838	1	None	None
2	MEMO1	ENSG00000162959	ENST00000295065	protein_coding	KNOWN	CCDS1776	14014	894	297	32092878	32235626	-1	C2orf4	CGI-27, MEMO
2	MEMO1	ENSG00000162959	ENST00000379383	protein_coding	KNOWN	None	14014	903	300	32092892	32188367	-1	C2orf4	CGI-27, MEMO
2	MEMO1	ENSG00000162959	ENST00000404530	protein_coding	KNOWN	CCDS1776	14014	894	297	32092892	32236043	-1	C2orf4	CGI-27, MEMO
2	MEMO1	ENSG00000162959	ENST00000490459	processed_transcript	KNOWN	None	14014	None	None	32092896	32236105	-1	C2orf4	CGI-27, MEMO
2	MEMO1	ENSG00000162959	ENST00000426310	protein_coding	KNOWN	CCDS46255	14014	825	274	32093047	32235444	-1	C2orf4	CGI-27, MEMO
2	MEMO1	ENSG00000162959	ENST00000422936	processed_transcript	KNOWN	None	14014	None	None	32094920	32168452	-1	C2orf4	CGI-27, MEMO
2	MEMO1	ENSG00000162959	ENST00000413686	processed_transcript	KNOWN	None	14014	None	None	32117122	32235486	-1	C2orf4	CGI-27, MEMO
2	MEMO1	ENSG00000162959	ENST00000407893	protein_coding	PUTATIVE	None	14014	303	100	32148585	32235567	-1	C2orf4	CGI-27, MEMO
2	MEMO1	ENSG00000162959	ENST00000437854	protein_coding	KNOWN	None	14014	61	19	32235256	32236299	-1	C2orf4	CGI-27, MEMO
8	None	ENSG00000253931	ENST00000523002	antisense	KNOWN	None	None	None	None	144494919	144499224	1	None	None
17	None	ENSG00000260328	ENST00000562897	lincRNA	KNOWN	None	None	None	None	16915228	16918304	-1	None	None
3	None	ENSG00000225548	ENST00000425195	lincRNA	KNOWN	None	None	None	None	27844253	27901816	1	None	None
3	None	ENSG00000225548	ENST00000414382	lincRNA	KNOWN	None	None	None	None	27862979	27932792	1	None	None
3	None	ENSG00000225548	ENST00000455984	lincRNA	KNOWN	None	None	None	None	27863089	27901683	1	None	None
2	None	ENSG00000236501	ENST00000452002	lincRNA	KNOWN	None	None	None	None	177855236	177921044	-1	None	None
2	None	ENSG00000236501	ENST00000441205	lincRNA	KNOWN	None	None	None	None	177855570	178029244	-1	None	None
6	None	ENSG00000231881	ENST00000455005	lincRNA	KNOWN	None	None	None	None	44041650	44045689	1	None	None
11	None	ENSG00000255348	ENST00000531710	antisense	KNOWN	None	None	None	None	134048719	134056061	1	None	None
2	None	ENSG00000229774	ENST00000444963	lincRNA	KNOWN	None	None	None	None	121444211	121468041	-1	None	None
2	None	ENSG00000229774	ENST00000421820	lincRNA	KNOWN	None	None	None	None	121466839	121468093	-1	None	None
7	None	ENSG00000236238	ENST00000437271	processed_pseudogene	KNOWN	None	None	None	None	131350266	131350617	1	None	None
17	MPRIP-AS1	ENSG00000225442	ENST00000428367	antisense	KNOWN	None	41263	None	None	16979352	16981066	-1	None	None
12	None	ENSG00000257956	ENST00000549457	processed_pseudogene	KNOWN	None	None	None	None	79952562	79952946	1	None	None
HSCHR6_MHC_MCF	OR2J3	ENSG00000230855	ENST00000422576	protein_coding	KNOWN	None	8261	774	257	29079818	29080591	1	None	OR6-6
15	None	ENSG00000258384	ENST00000553321	antisense	KNOWN	None	None	None	None	91495469	91498455	-1	None	None
11	None	ENSG00000254884	ENST00000533804	processed_pseudogene	KNOWN	None	None	None	None	9332831	9333236	-1	None	None
10	STOX1	ENSG00000165730	ENST00000298596	protein_coding	KNOWN	CCDS41535	23508	2970	989	70587298	70652816	1	C10orf24	FLJ25162
10	STOX1	ENSG00000165730	ENST00000399169	protein_coding	KNOWN	CCDS41535	23508	2970	989	70587298	70655188	1	C10orf24	FLJ25162
10	STOX1	ENSG00000165730	ENST00000399165	protein_coding	KNOWN	CCDS44417	23508	684	227	70587381	70652816	1	C10orf24	FLJ25162
10	STOX1	ENSG00000165730	ENST00000399162	protein_coding	KNOWN	CCDS44416	23508	510	169	70587381	70652816	1	C10orf24	FLJ25162
10	STOX1	ENSG00000165730	ENST00000421961	protein_coding	KNOWN	CCDS44418	23508	2640	879	70587563	70652815	1	C10orf24	FLJ25162
14	None	ENSG00000258658	ENST00000556390	antisense	KNOWN	None	None	None	None	58836741	58862359	-1	None	None
6	None	ENSG00000183239	ENST00000331979	processed_pseudogene	KNOWN	None	None	None	None	44056979	44057433	-1	None	None
12	RN7SKP71	ENSG00000201428	ENST00000364558	misc_RNA	KNOWN	None	45795	None	None	112704881	112705198	1	None	None
19	WDR18	ENSG00000065268	ENST00000591997	processed_transcript	KNOWN	None	17956	None	None	983174	990292	1	None	Ipi3
19	WDR18	ENSG00000065268	ENST00000251289	protein_coding	KNOWN	CCDS12051	17956	1299	432	984331	994569	1	None	Ipi3
19	WDR18	ENSG00000065268	ENST00000587001	protein_coding	NOVEL	None	17956	1230	409	984332	994553	1	None	Ipi3
19	WDR18	ENSG00000065268	ENST00000586317	retained_intron	KNOWN	None	17956	None	None	984341	990258	1	None	Ipi3
19	WDR18	ENSG00000065268	ENST00000607440	protein_coding	NOVEL	None	17956	1184	393	984358	994553	1	None	Ipi3
19	WDR18	ENSG00000065268	ENST00000591985	nonsense_mediated_decay	KNOWN	None	17956	806	267	984358	994557	1	None	Ipi3
19	WDR18	ENSG00000065268	ENST00000585809	nonsense_mediated_decay	KNOWN	None	17956	569	188	984385	991352	1	None	Ipi3
19	WDR18	ENSG00000065268	ENST00000590397	nonsense_mediated_decay	KNOWN	None	17956	63	20	985944	991286	1	None	Ipi3
19	WDR18	ENSG00000065268	ENST00000591276	retained_intron	KNOWN	None	17956	None	None	990647	991334	1	None	Ipi3
19	WDR18	ENSG00000065268	ENST00000590354	protein_coding	PUTATIVE	None	17956	126	41	991234	994556	1	None	Ipi3
19	WDR18	ENSG00000065268	ENST00000591155	retained_intron	KNOWN	None	17956	None	None	994013	994553	1	None	Ipi3
17	None	ENSG00000263624	ENST00000584203	antisense	KNOWN	None	None	None	None	17071260	17088868	-1	None	None
8	None	ENSG00000254338	ENST00000519762	antisense	KNOWN	None	None	None	None	144499849	144501320	1	None	None
3	None	ENSG00000242152	ENST00000487812	processed_pseudogene	KNOWN	None	None	None	None	155149018	155151187	-1	None	None
14	None	ENSG00000258378	ENST00000556734	antisense	KNOWN	None	None	None	None	58865275	58893843	1	None	None
6	ZNF451	ENSG00000112200	ENST00000515290	protein_coding	PUTATIVE	None	21091	120	39	56951642	56997952	1	None	KIAA0576, COASTER, dJ417I1.1, KIAA1702
6	ZNF451	ENSG00000112200	ENST00000510483	protein_coding	NOVEL	None	21091	475	157	56954808	56997974	1	None	KIAA0576, COASTER, dJ417I1.1, KIAA1702
6	ZNF451	ENSG00000112200	ENST00000370706	protein_coding	KNOWN	CCDS43477	21091	3186	1061	56954808	57035105	1	None	KIAA0576, COASTER, dJ417I1.1, KIAA1702
6	ZNF451	ENSG00000112200	ENST00000357489	protein_coding	KNOWN	CCDS4960	21091	3042	1013	56954828	57034999	1	None	KIAA0576, COASTER, dJ417I1.1, KIAA1702
6	ZNF451	ENSG00000112200	ENST00000370708	protein_coding	KNOWN	CCDS59026	21091	1680	559	56954874	56974514	1	None	KIAA0576, COASTER, dJ417I1.1, KIAA1702
6	ZNF451	ENSG00000112200	ENST00000370702	protein_coding	PUTATIVE	None	21091	222	73	56954875	56989321	1	None	KIAA0576, COASTER, dJ417I1.1, KIAA1702
6	ZNF451	ENSG00000112200	ENST00000444273	retained_intron	KNOWN	None	21091	None	None	56954911	57016169	1	None	KIAA0576, COASTER, dJ417I1.1, KIAA1702
6	ZNF451	ENSG00000112200	ENST00000370711	processed_transcript	KNOWN	None	21091	None	None	56954937	56993608	1	None	KIAA0576, COASTER, dJ417I1.1, KIAA1702
6	ZNF451	ENSG00000112200	ENST00000508603	protein_coding	NOVEL	None	21091	453	150	56954967	56965751	1	None	KIAA0576, COASTER, dJ417I1.1, KIAA1702
6	ZNF451	ENSG00000112200	ENST00000491832	protein_coding	PUTATIVE	None	21091	3126	1041	56954987	57019342	1	None	KIAA0576, COASTER, dJ417I1.1, KIAA1702
6	ZNF451	ENSG00000112200	ENST00000370710	protein_coding	PUTATIVE	None	21091	228	75	56955005	56964408	1	None	KIAA0576, COASTER, dJ417I1.1, KIAA1702
6	ZNF451	ENSG00000112200	ENST00000502749	nonsense_mediated_decay	KNOWN	None	21091	219	72	56955009	57006166	1	None	KIAA0576, COASTER, dJ417I1.1, KIAA1702
6	ZNF451	ENSG00000112200	ENST00000504603	nonsense_mediated_decay	KNOWN	None	21091	162	53	56955023	57033430	1	None	KIAA0576, COASTER, dJ417I1.1, KIAA1702
6	ZNF451	ENSG00000112200	ENST00000509071	processed_transcript	KNOWN	None	21091	None	None	56955581	56993584	1	None	KIAA0576, COASTER, dJ417I1.1, KIAA1702
6	ZNF451	ENSG00000112200	ENST00000510989	processed_transcript	KNOWN	None	21091	None	None	56956228	56965587	1	None	KIAA0576, COASTER, dJ417I1.1, KIAA1702
6	ZNF451	ENSG00000112200	ENST00000509251	processed_transcript	KNOWN	None	21091	None	None	56967359	56991397	1	None	KIAA0576, COASTER, dJ417I1.1, KIAA1702
6	ZNF451	ENSG00000112200	ENST00000508548	retained_intron	KNOWN	None	21091	None	None	57016955	57018958	1	None	KIAA0576, COASTER, dJ417I1.1, KIAA1702
6	ZNF451	ENSG00000112200	ENST00000504364	retained_intron	KNOWN	None	21091	None	None	57025606	57033631	1	None	KIAA0576, COASTER, dJ417I1.1, KIAA1702
12	RPL7AP60	ENSG00000213152	ENST00000469026	processed_pseudogene	KNOWN	None	35859	None	None	112739674	112740467	-1	None	None
2	RNA5SP112	ENSG00000251746	ENST00000515937	rRNA	KNOWN	None	42910	None	None	178003427	178003525	1	RN5S112	None
7	None	ENSG00000236395	ENST00000428212	processed_pseudogene	KNOWN	None	None	None	None	131387028	131387412	-1	None	None
11	CBX3P8	ENSG00000254496	ENST00000532412	processed_pseudogene	KNOWN	None	42880	None	None	49427742	49428266	1	None	None
11	PIGCP1	ENSG00000213713	ENST00000527583	processed_pseudogene	KNOWN	None	8961	None	None	33097112	33098006	-1	None	None
2	None	ENSG00000271709	ENST00000603720	lincRNA	KNOWN	None	None	None	None	121623953	121624978	-1	None	None
HSCHR6_MHC_MCF	OR2J2	ENSG00000196231	ENST00000358688	protein_coding	KNOWN	None	8260	939	312	29141459	29142499	1	None	OR6-8, hs6M1-6, dJ80I19.4
17	RNU6-767P	ENSG00000206859	ENST00000384132	snRNA	KNOWN	None	47730	None	None	17073397	17073503	1	None	None
19	RN7SL34P	ENSG00000239868	ENST00000497296	misc_RNA	KNOWN	None	46050	None	None	41792320	41792599	-1	None	None
X	None	ENSG00000224630	ENST00000436312	processed_pseudogene	KNOWN	None	None	None	None	143391959	143392205	-1	None	None
2	None	ENSG00000229337	ENST00000455416	antisense	KNOWN	None	None	None	None	178020350	178077390	-1	None	None
7	None	ENSG00000236281	ENST00000431248	processed_pseudogene	KNOWN	None	None	None	None	131438505	131439011	-1	None	None
2	None	ENSG00000221321	ENST00000408394	miRNA	NOVEL	None	None	None	None	121792649	121792794	1	None	None
17	RN7SL775P	ENSG00000243370	ENST00000498361	misc_RNA	KNOWN	None	46791	None	None	17081729	17082020	1	None	None
19	None	ENSG00000268987	ENST00000598988	sense_intronic	KNOWN	None	None	None	None	41905277	41906270	1	None	None
HG871_PATCH	TUBAL3	ENSG00000263440	ENST00000582002	protein_coding	KNOWN	None	23534	1341	446	5435290	5447022	-1	None	FLJ21665
HG871_PATCH	TUBAL3	ENSG00000263440	ENST00000581892	protein_coding	KNOWN	None	23534	1221	406	5435461	5447020	-1	None	FLJ21665
11	None	ENSG00000254442	ENST00000525536	processed_pseudogene	KNOWN	None	None	None	None	134186676	134186982	-1	None	None
11	SNORA23	ENSG00000201998	ENST00000365128	snoRNA	KNOWN	None	32613	None	None	9450320	9450501	1	None	ACA23
2	None	ENSG00000201584	ENST00000364714	misc_RNA	NOVEL	None	None	None	None	121798186	121798286	-1	None	None
8	AGPAT5	ENSG00000155189	ENST00000285518	protein_coding	KNOWN	CCDS34796	20886	1095	364	6565878	6617184	1	None	FLJ11210, LPAAT-e, LPAAT-epsilon
8	AGPAT5	ENSG00000155189	ENST00000523234	nonsense_mediated_decay	KNOWN	None	20886	267	88	6566187	6616406	1	None	FLJ11210, LPAAT-e, LPAAT-epsilon
8	AGPAT5	ENSG00000155189	ENST00000518327	protein_coding	PUTATIVE	None	20886	545	180	6566214	6615216	1	None	FLJ11210, LPAAT-e, LPAAT-epsilon
8	AGPAT5	ENSG00000155189	ENST00000523586	nonsense_mediated_decay	KNOWN	None	20886	214	70	6566381	6588264	1	None	FLJ11210, LPAAT-e, LPAAT-epsilon
8	AGPAT5	ENSG00000155189	ENST00000530716	processed_transcript	KNOWN	None	20886	None	None	6595897	6614707	1	None	FLJ11210, LPAAT-e, LPAAT-epsilon
8	AGPAT5	ENSG00000155189	ENST00000533648	processed_transcript	PUTATIVE	None	20886	None	None	6603276	6605263	1	None	FLJ11210, LPAAT-e, LPAAT-epsilon
8	AGPAT5	ENSG00000155189	ENST00000533159	processed_transcript	PUTATIVE	None	20886	None	None	6605205	6615026	1	None	FLJ11210, LPAAT-e, LPAAT-epsilon
17	None	ENSG00000266498	ENST00000584952	lincRNA	KNOWN	None	None	None	None	17138747	17139432	-1	None	None
12	None	ENSG00000222493	ENST00000410561	misc_RNA	NOVEL	None	None	None	None	2969115	2969199	1	None	None
1	CICP27	ENSG00000233750	ENST00000442987	processed_pseudogene	KNOWN	None	48835	None	None	131025	134836	1	None	None
2	None	ENSG00000226273	ENST00000416154	processed_pseudogene	KNOWN	None	None	None	None	178042423	178042983	1	None	None
4	FGG	ENSG00000171557	ENST00000404648	protein_coding	KNOWN	CCDS47153	3694	1314	437	155525286	155534001	-1	None	None
4	FGG	ENSG00000171557	ENST00000492082	retained_intron	KNOWN	None	3694	None	None	155525317	155533811	-1	None	None
4	FGG	ENSG00000171557	ENST00000465913	retained_intron	KNOWN	None	3694	None	None	155525323	155530995	-1	None	None
4	FGG	ENSG00000171557	ENST00000405164	protein_coding	NOVEL	None	3694	1338	445	155525325	155533795	-1	None	None
4	FGG	ENSG00000171557	ENST00000336098	protein_coding	KNOWN	CCDS3788	3694	1362	453	155525728	155533800	-1	None	None
4	FGG	ENSG00000171557	ENST00000407946	protein_coding	NOVEL	None	3694	1386	461	155525762	155533787	-1	None	None
4	FGG	ENSG00000171557	ENST00000443553	protein_coding	PUTATIVE	None	3694	369	122	155529791	155534119	-1	None	None
4	FGG	ENSG00000171557	ENST00000393846	protein_coding	PUTATIVE	None	3694	357	118	155530782	155533949	-1	None	None
4	FGG	ENSG00000171557	ENST00000464532	retained_intron	KNOWN	None	3694	None	None	155531095	155533808	-1	None	None
4	FGG	ENSG00000171557	ENST00000473393	retained_intron	KNOWN	None	3694	None	None	155532388	155533787	-1	None	None
4	FGG	ENSG00000171557	ENST00000465336	retained_intron	KNOWN	None	3694	None	None	155532991	155533808	-1	None	None
4	FGG	ENSG00000171557	ENST00000484695	retained_intron	KNOWN	None	3694	None	None	155533125	155533763	-1	None	None
19	None	ENSG00000268475	ENST00000598887	antisense	KNOWN	None	None	None	None	41931264	41932142	1	None	None
7	None	ENSG00000252811	ENST00000517002	miRNA	NOVEL	None	None	None	None	131537439	131537533	-1	None	None
2	None	ENSG00000234455	ENST00000441053	lincRNA	KNOWN	None	None	None	None	121839013	121846302	-1	None	None
15	None	ENSG00000200008	ENST00000363138	misc_RNA	NOVEL	None	None	None	None	34014693	34014797	1	None	None
12	RNU7-166P	ENSG00000238689	ENST00000459397	snRNA	KNOWN	None	45700	None	None	3038131	3038191	1	None	None
6	None	ENSG00000271108	ENST00000605015	processed_pseudogene	KNOWN	None	None	None	None	25248491	25249007	1	None	None
17	None	ENSG00000226359	ENST00000423783	processed_pseudogene	KNOWN	None	None	None	None	17145324	17146200	1	None	None
11	None	ENSG00000254397	ENST00000531111	antisense	KNOWN	None	None	None	None	9451903	9455033	-1	None	None
7	None	ENSG00000236544	ENST00000419225	lincRNA	KNOWN	None	None	None	None	155213901	155249794	-1	None	None
14	None	ENSG00000252198	ENST00000516389	misc_RNA	NOVEL	None	None	None	None	58908562	58908710	1	None	None
7	KCND2	ENSG00000184408	ENST00000331113	protein_coding	KNOWN	CCDS5776	6238	1893	630	119913722	120390385	1	None	Kv4.2, RK5, KIAA1044
7	KCND2	ENSG00000184408	ENST00000425288	protein_coding	NOVEL	None	6238	530	175	120380898	120387792	1	None	Kv4.2, RK5, KIAA1044
7	KCND2	ENSG00000184408	ENST00000473190	retained_intron	KNOWN	None	6238	None	None	120382375	120387776	1	None	Kv4.2, RK5, KIAA1044
2	None	ENSG00000236145	ENST00000432984	lincRNA	KNOWN	None	None	None	None	121935903	121940156	1	None	None
2	UGT1A9	ENSG00000241119	ENST00000354728	protein_coding	KNOWN	CCDS2505	12541	1593	530	234580499	234681946	1	None	HLUGP4, LUGP4, UGT1AI
11	CSTF3-AS1	ENSG00000247151	ENST00000531870	antisense	KNOWN	None	27882	None	None	33183203	33211840	1	None	None
11	CSTF3-AS1	ENSG00000247151	ENST00000500025	antisense	KNOWN	None	27882	None	None	33183234	33213144	1	None	None
HSCHR6_MHC_MCF	OR14J1	ENSG00000112459	ENST00000230221	protein_coding	KNOWN	None	13971	966	321	29274637	29275753	1	OR5U1	hs6M1-28
3	None	ENSG00000197099	ENST00000599314	antisense	KNOWN	None	None	None	None	186435038	186475457	-1	None	None
3	None	ENSG00000197099	ENST00000354642	antisense	KNOWN	None	None	None	None	186452559	186463919	-1	None	None
3	None	ENSG00000197099	ENST00000596632	antisense	KNOWN	None	None	None	None	186461494	186471544	-1	None	None
3	None	ENSG00000197099	ENST00000596329	antisense	KNOWN	None	None	None	None	186461497	186477057	-1	None	None
6	None	ENSG00000216718	ENST00000493462	processed_pseudogene	KNOWN	None	None	None	None	25261467	25261959	1	None	None
6	None	ENSG00000216718	ENST00000595835	processed_pseudogene	KNOWN	None	None	None	None	25261467	25261946	1	None	None
15	None	ENSG00000259408	ENST00000560404	antisense	KNOWN	None	None	None	None	34147101	34149010	-1	None	None
22	RNU6-1128P	ENSG00000199695	ENST00000362825	snRNA	KNOWN	None	48091	None	None	31618731	31618839	-1	None	None
7	None	ENSG00000233263	ENST00000418056	processed_pseudogene	KNOWN	None	None	None	None	131577375	131578374	-1	None	None
6	SASH1	ENSG00000111961	ENST00000367469	protein_coding	KNOWN	None	19182	255	84	148593440	148761830	1	None	KIAA0790, dJ323M4.1, SH3D6A
6	SASH1	ENSG00000111961	ENST00000367467	protein_coding	KNOWN	CCDS5212	19182	3744	1247	148663729	148873186	1	None	KIAA0790, dJ323M4.1, SH3D6A
6	SASH1	ENSG00000111961	ENST00000470750	processed_transcript	KNOWN	None	19182	None	None	148761494	148790247	1	None	KIAA0790, dJ323M4.1, SH3D6A
12	None	ENSG00000256427	ENST00000538219	lincRNA	KNOWN	None	None	None	None	9399093	9410556	1	None	None
1	RNVU1-5	ENSG00000206828	ENST00000384101	snRNA	KNOWN	None	48313	None	None	144491442	144491605	-1	None	vU1.5, RNU1-50
17	CCDC144A	ENSG00000170160	ENST00000478303	processed_transcript	PUTATIVE	None	29072	None	None	16592851	16598800	1	None	KIAA0565, FLJ43983
17	CCDC144A	ENSG00000170160	ENST00000340621	protein_coding	NOVEL	None	29072	1716	571	16593546	16615462	1	None	KIAA0565, FLJ43983
17	CCDC144A	ENSG00000170160	ENST00000436374	processed_transcript	KNOWN	None	29072	None	None	16593555	16612062	1	None	KIAA0565, FLJ43983
17	CCDC144A	ENSG00000170160	ENST00000399273	protein_coding	NOVEL	None	29072	4278	1425	16593555	16681195	1	None	KIAA0565, FLJ43983
17	CCDC144A	ENSG00000170160	ENST00000399264	retained_intron	KNOWN	None	29072	None	None	16593563	16610712	1	None	KIAA0565, FLJ43983
17	CCDC144A	ENSG00000170160	ENST00000360524	protein_coding	KNOWN	CCDS45621	29072	4284	1427	16593639	16678313	1	None	KIAA0565, FLJ43983
17	CCDC144A	ENSG00000170160	ENST00000360495	nonsense_mediated_decay	KNOWN	None	29072	2181	726	16593639	16678313	1	None	KIAA0565, FLJ43983
17	CCDC144A	ENSG00000170160	ENST00000420937	protein_coding	PUTATIVE	None	29072	534	177	16594026	16612216	1	None	KIAA0565, FLJ43983
17	CCDC144A	ENSG00000170160	ENST00000428950	processed_transcript	PUTATIVE	None	29072	None	None	16608598	16612773	1	None	KIAA0565, FLJ43983
17	CCDC144A	ENSG00000170160	ENST00000328495	retained_intron	KNOWN	None	29072	None	None	16610828	16668177	1	None	KIAA0565, FLJ43983
17	CCDC144A	ENSG00000170160	ENST00000463809	retained_intron	KNOWN	None	29072	None	None	16623831	16631209	1	None	KIAA0565, FLJ43983
17	CCDC144A	ENSG00000170160	ENST00000470068	retained_intron	KNOWN	None	29072	None	None	16634531	16670608	1	None	KIAA0565, FLJ43983
17	CCDC144A	ENSG00000170160	ENST00000443444	protein_coding	KNOWN	CCDS45621	29072	4284	1427	16593575	16707767	1	None	KIAA0565, FLJ43983
17	CCDC144A	ENSG00000170160	ENST00000456009	protein_coding	KNOWN	None	29072	3465	1154	16593639	16667558	1	None	KIAA0565, FLJ43983
22	None	ENSG00000202019	ENST00000365149	misc_RNA	NOVEL	None	None	None	None	31626057	31626158	-1	None	None
2	SEMA4C	ENSG00000168758	ENST00000305476	protein_coding	KNOWN	CCDS2029	10731	2502	833	97525453	97535708	-1	SEMAI	Semacl1, Semaf
2	SEMA4C	ENSG00000168758	ENST00000474420	retained_intron	KNOWN	None	10731	None	None	97525473	97528184	-1	SEMAI	Semacl1, Semaf
2	SEMA4C	ENSG00000168758	ENST00000482925	retained_intron	KNOWN	None	10731	None	None	97525479	97532667	-1	SEMAI	Semacl1, Semaf
2	SEMA4C	ENSG00000168758	ENST00000467747	retained_intron	KNOWN	None	10731	None	None	97525485	97529065	-1	SEMAI	Semacl1, Semaf
2	SEMA4C	ENSG00000168758	ENST00000442264	protein_coding	KNOWN	None	10731	604	200	97530971	97534325	-1	SEMAI	Semacl1, Semaf
2	SEMA4C	ENSG00000168758	ENST00000449330	protein_coding	KNOWN	None	10731	419	138	97531404	97536494	-1	SEMAI	Semacl1, Semaf
19	None	ENSG00000267107	ENST00000588495	lincRNA	KNOWN	None	None	None	None	41960074	42006554	-1	None	None
19	None	ENSG00000267107	ENST00000599801	lincRNA	KNOWN	None	None	None	None	41960443	41985049	-1	None	None
19	None	ENSG00000267107	ENST00000595837	lincRNA	KNOWN	None	None	None	None	41961222	42006554	-1	None	None
19	None	ENSG00000267107	ENST00000594315	lincRNA	KNOWN	None	None	None	None	41961601	42006559	-1	None	None
19	None	ENSG00000267107	ENST00000597702	lincRNA	KNOWN	None	None	None	None	41961684	42006539	-1	None	None
19	None	ENSG00000267107	ENST00000598215	lincRNA	KNOWN	None	None	None	None	41961934	41985051	-1	None	None
19	None	ENSG00000267107	ENST00000595063	lincRNA	KNOWN	None	None	None	None	41962161	41985049	-1	None	None
2	None	ENSG00000232723	ENST00000450311	processed_pseudogene	KNOWN	None	None	None	None	122067571	122067988	1	None	None
14	None	ENSG00000258650	ENST00000555205	processed_pseudogene	KNOWN	None	None	None	None	58930689	58930854	1	None	None
1	RNU1-59P	ENSG00000201699	ENST00000364829	snRNA	KNOWN	None	48401	None	None	144534038	144534199	1	None	None
22	None	ENSG00000228839	ENST00000440456	antisense	KNOWN	None	None	None	None	31688485	31734007	1	None	None
22	None	ENSG00000228839	ENST00000451161	antisense	KNOWN	None	None	None	None	31731335	31734007	1	None	None
3	PGAM1P4	ENSG00000214041	ENST00000397343	processed_pseudogene	KNOWN	None	42451	None	None	9390127	9390876	1	None	None
3	PGAM1P4	ENSG00000214041	ENST00000334645	processed_pseudogene	KNOWN	None	42451	None	None	9390071	9390952	1	None	None
11	None	ENSG00000226268	ENST00000526165	processed_pseudogene	KNOWN	None	None	None	None	49455032	49455990	-1	None	None
11	None	ENSG00000226268	ENST00000413181	processed_pseudogene	KNOWN	None	None	None	None	49455025	49455990	-1	None	None
17	None	ENSG00000265109	ENST00000577389	miRNA	NOVEL	None	None	None	None	17145878	17145961	1	None	None
12	None	ENSG00000258048	ENST00000551995	lincRNA	KNOWN	None	None	None	None	80083924	80172231	1	None	None
11	None	ENSG00000224119	ENST00000445654	sense_intronic	KNOWN	None	None	None	None	70412492	70417428	-1	None	None
HG281_PATCH	OR4R3P	ENSG00000260801	ENST00000565030	unprocessed_pseudogene	KNOWN	None	15182	None	None	49944601	49945438	1	None	None
7	CHRM2	ENSG00000181072	ENST00000445907	protein_coding	KNOWN	CCDS5843	1951	1401	466	136553416	136705002	1	None	None
7	CHRM2	ENSG00000181072	ENST00000471195	processed_transcript	KNOWN	None	1951	None	None	136553525	136554631	1	None	None
7	CHRM2	ENSG00000181072	ENST00000481598	processed_transcript	KNOWN	None	1951	None	None	136553832	136554918	1	None	None
7	CHRM2	ENSG00000181072	ENST00000480591	processed_transcript	KNOWN	None	1951	None	None	136553832	136556710	1	None	None
7	CHRM2	ENSG00000181072	ENST00000320658	protein_coding	KNOWN	CCDS5843	1951	1401	466	136553832	136701013	1	None	None
7	CHRM2	ENSG00000181072	ENST00000453373	protein_coding	KNOWN	CCDS5843	1951	1401	466	136553832	136701389	1	None	None
7	CHRM2	ENSG00000181072	ENST00000401861	protein_coding	KNOWN	CCDS5843	1951	1401	466	136553869	136701771	1	None	None
7	CHRM2	ENSG00000181072	ENST00000397608	protein_coding	KNOWN	CCDS5843	1951	1401	466	136553832	136701771	1	None	None
7	CHRM2	ENSG00000181072	ENST00000402486	protein_coding	KNOWN	CCDS5843	1951	1401	466	136553832	136701771	1	None	None
11	None	ENSG00000238387	ENST00000458785	snoRNA	NOVEL	None	None	None	None	9599575	9599678	1	None	None
17	RPL13P12	ENSG00000215030	ENST00000392730	processed_pseudogene	KNOWN	None	35701	None	None	17286691	17287326	-1	None	None
17	RPL13P12	ENSG00000215030	ENST00000396469	processed_pseudogene	KNOWN	None	35701	None	None	17286691	17287326	-1	None	None
X	RRM2P4	ENSG00000235598	ENST00000441721	processed_pseudogene	KNOWN	None	10456	None	None	143392257	143392818	1	None	None
14	SRSF5	ENSG00000100650	ENST00000553521	protein_coding	NOVEL	CCDS32109	10787	819	272	70193617	70238721	1	SFRS5	SRP40, HRS
14	SRSF5	ENSG00000100650	ENST00000394366	protein_coding	NOVEL	CCDS32109	10787	819	272	70233810	70238690	1	SFRS5	SRP40, HRS
14	SRSF5	ENSG00000100650	ENST00000554465	retained_intron	KNOWN	None	10787	None	None	70233810	70238721	1	SFRS5	SRP40, HRS
14	SRSF5	ENSG00000100650	ENST00000553548	protein_coding	PUTATIVE	None	10787	300	99	70233829	70235906	1	SFRS5	SRP40, HRS
14	SRSF5	ENSG00000100650	ENST00000553369	protein_coding	PUTATIVE	None	10787	415	137	70233829	70236311	1	SFRS5	SRP40, HRS
14	SRSF5	ENSG00000100650	ENST00000557435	retained_intron	KNOWN	None	10787	None	None	70233833	70235336	1	SFRS5	SRP40, HRS
14	SRSF5	ENSG00000100650	ENST00000557154	protein_coding	NOVEL	CCDS32109	10787	819	272	70233841	70238708	1	SFRS5	SRP40, HRS
14	SRSF5	ENSG00000100650	ENST00000553635	protein_coding	NOVEL	None	10787	810	269	70233874	70238666	1	SFRS5	SRP40, HRS
14	SRSF5	ENSG00000100650	ENST00000556184	retained_intron	KNOWN	None	10787	None	None	70233889	70238359	1	SFRS5	SRP40, HRS
14	SRSF5	ENSG00000100650	ENST00000557460	retained_intron	KNOWN	None	10787	None	None	70233892	70237825	1	SFRS5	SRP40, HRS
14	SRSF5	ENSG00000100650	ENST00000556587	processed_transcript	KNOWN	None	10787	None	None	70233899	70238722	1	SFRS5	SRP40, HRS
14	SRSF5	ENSG00000100650	ENST00000555547	nonsense_mediated_decay	KNOWN	None	10787	417	138	70233903	70238371	1	SFRS5	SRP40, HRS
14	SRSF5	ENSG00000100650	ENST00000556436	retained_intron	KNOWN	None	10787	None	None	70233957	70235645	1	SFRS5	SRP40, HRS
14	SRSF5	ENSG00000100650	ENST00000555412	retained_intron	KNOWN	None	10787	None	None	70234500	70235392	1	SFRS5	SRP40, HRS
14	SRSF5	ENSG00000100650	ENST00000555349	protein_coding	NOVEL	None	10787	375	124	70234657	70236100	1	SFRS5	SRP40, HRS
14	SRSF5	ENSG00000100650	ENST00000554021	protein_coding	NOVEL	None	10787	417	138	70234657	70236361	1	SFRS5	SRP40, HRS
14	SRSF5	ENSG00000100650	ENST00000556330	retained_intron	KNOWN	None	10787	None	None	70236463	70237974	1	SFRS5	SRP40, HRS
14	SRSF5	ENSG00000100650	ENST00000556647	processed_transcript	KNOWN	None	10787	None	None	70237165	70238722	1	SFRS5	SRP40, HRS
14	SRSF5	ENSG00000100650	ENST00000554929	retained_intron	KNOWN	None	10787	None	None	70237598	70238632	1	SFRS5	SRP40, HRS
14	SRSF5	ENSG00000100650	ENST00000451983	protein_coding	KNOWN	None	10787	417	138	70233862	70236553	1	SFRS5	SRP40, HRS
9	None	ENSG00000232172	ENST00000423330	processed_pseudogene	KNOWN	None	None	None	None	133527186	133527770	1	None	None
12	None	ENSG00000257389	ENST00000550463	processed_pseudogene	KNOWN	None	None	None	None	53231187	53231523	1	None	None
7	None	ENSG00000236386	ENST00000438972	processed_pseudogene	KNOWN	None	None	None	None	131578581	131578833	1	None	None
11	None	ENSG00000255523	ENST00000531918	antisense	KNOWN	None	None	None	None	58684488	58696162	-1	None	None
20	None	ENSG00000234948	ENST00000454600	processed_transcript	KNOWN	None	None	None	None	50827184	51263280	1	None	None
20	None	ENSG00000234948	ENST00000428009	processed_transcript	KNOWN	None	None	None	None	51237377	51266970	1	None	None
12	RNU6-1315P	ENSG00000252996	ENST00000517187	snRNA	KNOWN	None	48278	None	None	3063406	3063504	-1	None	None
22	RNA5SP496	ENSG00000212542	ENST00000391240	rRNA	KNOWN	None	43396	None	None	31701390	31701498	1	RN5S496	None
16	SNORD111	ENSG00000221066	ENST00000408139	snoRNA	KNOWN	None	32776	None	None	70571908	70572001	1	None	HBII-82
19	B3GNT3	ENSG00000179913	ENST00000599265	protein_coding	KNOWN	None	13528	750	249	17905637	17922562	1	TMEM3	B3GN-T3, beta3Gn-T3, HP10328, B3GNT-3
19	B3GNT3	ENSG00000179913	ENST00000318683	protein_coding	KNOWN	CCDS12364	13528	1119	372	17905919	17923891	1	TMEM3	B3GN-T3, beta3Gn-T3, HP10328, B3GNT-3
19	B3GNT3	ENSG00000179913	ENST00000600777	protein_coding	KNOWN	None	13528	382	126	17905945	17918998	1	TMEM3	B3GN-T3, beta3Gn-T3, HP10328, B3GNT-3
19	B3GNT3	ENSG00000179913	ENST00000595387	protein_coding	KNOWN	CCDS12364	13528	1119	372	17905966	17923042	1	TMEM3	B3GN-T3, beta3Gn-T3, HP10328, B3GNT-3
3	None	ENSG00000202177	ENST00000365307	misc_RNA	NOVEL	None	None	None	None	101673921	101674029	1	None	None
HSCHR6_MHC_MCF	OR5V1	ENSG00000112461	ENST00000400698	protein_coding	KNOWN	None	13972	966	321	29323244	29399524	-1	None	hs6M1-21
HSCHR6_MHC_MCF	OR5V1	ENSG00000112461	ENST00000230223	protein_coding	KNOWN	None	13972	966	321	29323244	29324291	-1	None	hs6M1-21
11	None	ENSG00000255545	ENST00000531319	lincRNA	KNOWN	None	None	None	None	134306367	134337169	1	None	None
11	None	ENSG00000255545	ENST00000533390	lincRNA	KNOWN	None	None	None	None	134306629	134374934	1	None	None
11	None	ENSG00000255545	ENST00000528482	lincRNA	KNOWN	None	None	None	None	134336079	134357809	1	None	None
11	None	ENSG00000255545	ENST00000532886	retained_intron	KNOWN	None	None	None	None	134349193	134375555	1	None	None
16	IL27	ENSG00000197272	ENST00000356897	protein_coding	KNOWN	CCDS10633	19157	732	243	28510683	28518155	-1	IL30	IL-27, p28, IL27p28, IL-27A, IL27A, MGC71873
16	IL27	ENSG00000197272	ENST00000568075	protein_coding	PUTATIVE	None	19157	71	22	28513295	28523372	-1	IL30	IL-27, p28, IL27p28, IL-27A, IL27A, MGC71873
22	RNU6-338P	ENSG00000206615	ENST00000383888	snRNA	KNOWN	None	47301	None	None	31784719	31784823	-1	None	None
1	None	ENSG00000268903	ENST00000494149	processed_pseudogene	KNOWN	None	None	None	None	135141	135895	-1	None	None
16	None	ENSG00000260023	ENST00000562874	lincRNA	KNOWN	None	None	None	None	70610204	70611571	1	None	None
3	None	ENSG00000229243	ENST00000432163	lincRNA	KNOWN	None	None	None	None	27872379	27875627	-1	None	None
12	None	ENSG00000255621	ENST00000543321	processed_transcript	KNOWN	None	None	None	None	13153385	13193613	1	None	None
3	None	ENSG00000241280	ENST00000483840	lincRNA	KNOWN	None	None	None	None	101679202	101716770	1	None	None
3	None	ENSG00000241280	ENST00000498624	lincRNA	KNOWN	None	None	None	None	101679230	101715376	1	None	None
17	None	ENSG00000227158	ENST00000381380	processed_pseudogene	KNOWN	None	None	None	None	17325995	17327018	1	None	None
HG7_PATCH	None	ENSG00000260250	ENST00000565732	unprocessed_pseudogene	KNOWN	None	None	None	None	142511506	142515082	1	None	None
3	None	ENSG00000238480	ENST00000459192	snoRNA	NOVEL	None	None	None	None	122469219	122469322	1	None	None
7	None	ENSG00000227365	ENST00000415333	antisense	KNOWN	None	None	None	None	155302978	155311318	1	None	None
22	None	ENSG00000240529	ENST00000441289	processed_transcript	PUTATIVE	None	None	None	None	31832963	31835893	-1	None	None
17	RNU6-1137P	ENSG00000252882	ENST00000517073	snRNA	KNOWN	None	48100	None	None	41473361	41473459	-1	None	None
16	None	ENSG00000260156	ENST00000567186	antisense	KNOWN	None	None	None	None	70780960	70781829	1	None	None
17	C17orf58	ENSG00000186665	ENST00000449250	protein_coding	KNOWN	CCDS45765	27568	294	97	65987217	65989640	-1	None	None
17	C17orf58	ENSG00000186665	ENST00000536693	protein_coding	KNOWN	CCDS42375	27568	228	75	65987218	65989668	-1	None	None
17	C17orf58	ENSG00000186665	ENST00000334461	protein_coding	KNOWN	CCDS42375	27568	228	75	65987246	65989765	-1	None	None
9	SPIN1	ENSG00000106723	ENST00000375859	protein_coding	KNOWN	CCDS43843	11243	789	262	91003334	91093609	1	SPIN	None
9	SPIN1	ENSG00000106723	ENST00000485804	processed_transcript	KNOWN	None	11243	None	None	91003345	91090160	1	SPIN	None
9	SPIN1	ENSG00000106723	ENST00000469017	processed_transcript	KNOWN	None	11243	None	None	91003346	91090829	1	SPIN	None
9	SPIN1	ENSG00000106723	ENST00000462844	processed_transcript	KNOWN	None	11243	None	None	91003359	91077553	1	SPIN	None
9	SPIN1	ENSG00000106723	ENST00000485565	processed_transcript	KNOWN	None	11243	None	None	91003367	91090118	1	SPIN	None
9	SPIN1	ENSG00000106723	ENST00000483785	processed_transcript	KNOWN	None	11243	None	None	91004286	91083392	1	SPIN	None
9	SPIN1	ENSG00000106723	ENST00000541629	protein_coding	KNOWN	CCDS43843	11243	789	262	91003346	91090829	1	SPIN	None
11	None	ENSG00000254885	ENST00000527440	lincRNA	KNOWN	None	None	None	None	78902603	78904205	1	None	None
17	RNU6-470P	ENSG00000251763	ENST00000515954	snRNA	KNOWN	None	47433	None	None	41489795	41489898	1	None	None
5	RN7SKP60	ENSG00000252794	ENST00000516985	misc_RNA	KNOWN	None	45784	None	None	165036446	165036684	1	None	None
17	TSEN15P1	ENSG00000230865	ENST00000423257	processed_pseudogene	KNOWN	None	43962	None	None	17359741	17360573	1	None	None
15	None	ENSG00000259287	ENST00000560268	antisense	KNOWN	None	None	None	None	34150918	34157026	-1	None	None
17	MIR2117	ENSG00000267151	ENST00000588060	lincRNA	KNOWN	None	37311	None	None	41522075	41528568	1	None	hsa-mir-2117
17	MIR2117	ENSG00000267151	ENST00000516780	miRNA	KNOWN	None	37311	None	None	41522174	41522253	1	None	hsa-mir-2117
16	ZNF319	ENSG00000166188	ENST00000299237	protein_coding	KNOWN	CCDS32462	13644	1749	582	58028572	58033762	-1	None	KIAA1388, Zfp319
16	ZNF319	ENSG00000166188	ENST00000562909	protein_coding	KNOWN	None	13644	207	68	58031963	58034357	-1	None	KIAA1388, Zfp319
12	RPL7P41	ENSG00000241146	ENST00000485823	processed_pseudogene	KNOWN	None	36297	None	None	53279213	53280169	1	None	None
7	IMPDH1	ENSG00000106348	ENST00000469328	nonsense_mediated_decay	KNOWN	None	6052	571	189	128032331	128045919	-1	RP10	sWSS2608, LCA11
7	IMPDH1	ENSG00000106348	ENST00000484496	nonsense_mediated_decay	KNOWN	None	6052	681	226	128032331	128049540	-1	RP10	sWSS2608, LCA11
7	IMPDH1	ENSG00000106348	ENST00000419067	protein_coding	NOVEL	CCDS47699	6052	1701	566	128032331	128049955	-1	RP10	sWSS2608, LCA11
7	IMPDH1	ENSG00000106348	ENST00000338791	protein_coding	KNOWN	CCDS34749	6052	1800	599	128032331	128050306	-1	RP10	sWSS2608, LCA11
7	IMPDH1	ENSG00000106348	ENST00000496200	protein_coding	PUTATIVE	CCDS47700	6052	1470	489	128032332	128046002	-1	RP10	sWSS2608, LCA11
7	IMPDH1	ENSG00000106348	ENST00000354269	protein_coding	KNOWN	CCDS43643	6052	1770	589	128032332	128050036	-1	RP10	sWSS2608, LCA11
7	IMPDH1	ENSG00000106348	ENST00000348127	protein_coding	KNOWN	CCDS34748	6052	1692	563	128032355	128050036	-1	RP10	sWSS2608, LCA11
7	IMPDH1	ENSG00000106348	ENST00000470772	protein_coding	PUTATIVE	None	6052	1542	513	128032793	128045996	-1	RP10	sWSS2608, LCA11
7	IMPDH1	ENSG00000106348	ENST00000480861	protein_coding	PUTATIVE	CCDS55161	6052	1530	509	128032904	128045996	-1	RP10	sWSS2608, LCA11
7	IMPDH1	ENSG00000106348	ENST00000460045	retained_intron	KNOWN	None	6052	None	None	128034329	128035225	-1	RP10	sWSS2608, LCA11
7	IMPDH1	ENSG00000106348	ENST00000497868	protein_coding	NOVEL	None	6052	867	288	128038468	128050040	-1	RP10	sWSS2608, LCA11
7	IMPDH1	ENSG00000106348	ENST00000468842	retained_intron	KNOWN	None	6052	None	None	128038544	128040739	-1	RP10	sWSS2608, LCA11
7	IMPDH1	ENSG00000106348	ENST00000489263	protein_coding	NOVEL	None	6052	552	183	128040189	128050001	-1	RP10	sWSS2608, LCA11
7	IMPDH1	ENSG00000106348	ENST00000496487	retained_intron	KNOWN	None	6052	None	None	128040726	128045993	-1	RP10	sWSS2608, LCA11
7	IMPDH1	ENSG00000106348	ENST00000491376	retained_intron	KNOWN	None	6052	None	None	128040871	128050036	-1	RP10	sWSS2608, LCA11
7	IMPDH1	ENSG00000106348	ENST00000473463	nonsense_mediated_decay	KNOWN	None	6052	210	69	128040897	128050036	-1	RP10	sWSS2608, LCA11
7	IMPDH1	ENSG00000106348	ENST00000378717	protein_coding	KNOWN	None	6052	1593	530	128032335	128049960	-1	RP10	sWSS2608, LCA11
7	IMPDH1	ENSG00000106348	ENST00000343214	protein_coding	KNOWN	CCDS47700	6052	1470	489	128032355	128050027	-1	RP10	sWSS2608, LCA11
5	None	ENSG00000253512	ENST00000521763	processed_pseudogene	KNOWN	None	None	None	None	165209810	165210139	-1	None	None
11	SHANK2-AS1	ENSG00000226627	ENST00000429561	antisense	KNOWN	None	40014	None	None	70477199	70481595	1	None	None
11	None	ENSG00000255240	ENST00000533954	antisense	KNOWN	None	None	None	None	58701116	58826132	-1	None	None
11	None	ENSG00000255240	ENST00000525714	antisense	KNOWN	None	None	None	None	58725690	58746758	-1	None	None
11	None	ENSG00000255240	ENST00000532098	antisense	KNOWN	None	None	None	None	58736426	58825923	-1	None	None
HG281_PATCH	OR4C48P	ENSG00000260079	ENST00000564716	unprocessed_pseudogene	KNOWN	None	31272	None	None	50040322	50041219	1	None	None
12	None	ENSG00000250899	ENST00000513358	processed_transcript	KNOWN	None	None	None	None	3150603	3154116	1	None	None
17	None	ENSG00000201741	ENST00000364871	misc_RNA	NOVEL	None	None	None	None	17363758	17363836	1	None	None
8	None	ENSG00000248964	ENST00000507496	lincRNA	KNOWN	None	None	None	None	29672520	29686020	-1	None	None
8	None	ENSG00000248964	ENST00000517356	lincRNA	KNOWN	None	None	None	None	29672520	29712059	-1	None	None
17	RNU6-406P	ENSG00000252279	ENST00000516470	snRNA	KNOWN	None	47369	None	None	41522875	41522981	1	None	None
2	None	ENSG00000265451	ENST00000577914	antisense	KNOWN	None	None	None	None	122287998	122290281	1	None	None
HG281_PATCH	OR4C45	ENSG00000260811	ENST00000568934	unprocessed_pseudogene	KNOWN	None	31270	None	None	50054412	50055332	1	None	None
HSCHR6_MHC_MCF	OR12D3	ENSG00000204692	ENST00000383556	protein_coding	KNOWN	None	13963	951	316	29341124	29417657	-1	None	hs6M1-27
HSCHR6_MHC_MCF	OR12D3	ENSG00000204692	ENST00000550681	protein_coding	KNOWN	None	13963	951	316	29341124	29342992	-1	None	hs6M1-27
1	None	ENSG00000269981	ENST00000595919	processed_pseudogene	KNOWN	None	None	None	None	137682	137965	-1	None	None
17	None	ENSG00000265511	ENST00000582325	antisense	KNOWN	None	None	None	None	17410665	17411622	1	None	None
17	RNU6-971P	ENSG00000252729	ENST00000516920	snRNA	KNOWN	None	47934	None	None	41550953	41551058	1	None	None
5	None	ENSG00000253946	ENST00000524271	processed_pseudogene	KNOWN	None	None	None	None	165332131	165332613	1	None	None
12	None	ENSG00000234589	ENST00000483097	processed_pseudogene	KNOWN	None	None	None	None	3180698	3181311	-1	None	None
12	None	ENSG00000234589	ENST00000425943	processed_pseudogene	KNOWN	None	None	None	None	3180700	3181314	-1	None	None
11	SHANK2-AS2	ENSG00000236262	ENST00000429268	antisense	KNOWN	None	40015	None	None	70492270	70493667	1	None	None
2	RNU4ATAC	ENSG00000264229	ENST00000580972	antisense	KNOWN	None	34016	None	None	122288457	122288583	1	None	RNU4ATAC1
X	None	ENSG00000231590	ENST00000456962	unitary_pseudogene	KNOWN	None	None	None	None	101680349	101682995	-1	None	None
HG7_PATCH	None	ENSG00000262987	ENST00000574286	unprocessed_pseudogene	KNOWN	None	None	None	None	142521598	142525182	1	None	None
17	RNU6-468P	ENSG00000206730	ENST00000384003	snRNA	KNOWN	None	47431	None	None	17481945	17482053	1	None	None
17	None	ENSG00000237888	ENST00000431445	processed_pseudogene	KNOWN	None	None	None	None	41553566	41554033	1	None	None
9	HDHD3	ENSG00000119431	ENST00000238379	protein_coding	KNOWN	CCDS6793	28171	756	251	116135699	116138455	-1	C9orf158	MGC12904
9	HDHD3	ENSG00000119431	ENST00000374180	protein_coding	KNOWN	CCDS6793	28171	756	251	116135699	116139279	-1	C9orf158	MGC12904
9	HDHD3	ENSG00000119431	ENST00000485934	processed_transcript	KNOWN	None	28171	None	None	116136168	116139205	-1	C9orf158	MGC12904
3	SETD5-AS1	ENSG00000206573	ENST00000468186	antisense	KNOWN	None	44478	None	None	9391373	9438338	-1	THUMPD3-AS1	None
3	SETD5-AS1	ENSG00000206573	ENST00000519043	antisense	KNOWN	None	44478	None	None	9426948	9440263	-1	THUMPD3-AS1	None
3	SETD5-AS1	ENSG00000206573	ENST00000521609	antisense	KNOWN	None	44478	None	None	9427479	9439112	-1	THUMPD3-AS1	None
3	SETD5-AS1	ENSG00000206573	ENST00000520629	antisense	KNOWN	None	44478	None	None	9427506	9438307	-1	THUMPD3-AS1	None
3	SETD5-AS1	ENSG00000206573	ENST00000523354	antisense	KNOWN	None	44478	None	None	9427520	9432303	-1	THUMPD3-AS1	None
3	SETD5-AS1	ENSG00000206573	ENST00000522525	antisense	KNOWN	None	44478	None	None	9430533	9439177	-1	THUMPD3-AS1	None
3	SETD5-AS1	ENSG00000206573	ENST00000520447	antisense	KNOWN	None	44478	None	None	9430567	9439179	-1	THUMPD3-AS1	None
3	SETD5-AS1	ENSG00000206573	ENST00000521267	antisense	KNOWN	None	44478	None	None	9431044	9438289	-1	THUMPD3-AS1	None
3	SETD5-AS1	ENSG00000206573	ENST00000467069	antisense	KNOWN	None	44478	None	None	9431176	9439113	-1	THUMPD3-AS1	None
3	SETD5-AS1	ENSG00000206573	ENST00000520396	antisense	KNOWN	None	44478	None	None	9431195	9438289	-1	THUMPD3-AS1	None
3	SETD5-AS1	ENSG00000206573	ENST00000494680	antisense	KNOWN	None	44478	None	None	9431383	9439123	-1	THUMPD3-AS1	None
3	SETD5-AS1	ENSG00000206573	ENST00000522221	antisense	KNOWN	None	44478	None	None	9431599	9433506	-1	THUMPD3-AS1	None
3	SETD5-AS1	ENSG00000206573	ENST00000481221	antisense	KNOWN	None	44478	None	None	9431772	9439158	-1	THUMPD3-AS1	None
3	SETD5-AS1	ENSG00000206573	ENST00000489616	antisense	KNOWN	None	44478	None	None	9431822	9438318	-1	THUMPD3-AS1	None
3	SETD5-AS1	ENSG00000206573	ENST00000469846	antisense	KNOWN	None	44478	None	None	9432996	9439188	-1	THUMPD3-AS1	None
3	SETD5-AS1	ENSG00000206573	ENST00000521708	antisense	KNOWN	None	44478	None	None	9433031	9440051	-1	THUMPD3-AS1	None
3	SETD5-AS1	ENSG00000206573	ENST00000480904	antisense	KNOWN	None	44478	None	None	9433049	9438716	-1	THUMPD3-AS1	None
3	SETD5-AS1	ENSG00000206573	ENST00000498199	antisense	KNOWN	None	44478	None	None	9433065	9438308	-1	THUMPD3-AS1	None
3	SETD5-AS1	ENSG00000206573	ENST00000518437	antisense	KNOWN	None	44478	None	None	9433344	9439180	-1	THUMPD3-AS1	None
3	SETD5-AS1	ENSG00000206573	ENST00000524210	antisense	KNOWN	None	44478	None	None	9433404	9438342	-1	THUMPD3-AS1	None
3	SETD5-AS1	ENSG00000206573	ENST00000383834	antisense	KNOWN	None	44478	None	None	9435634	9438752	-1	THUMPD3-AS1	None
2	None	ENSG00000222467	ENST00000410535	misc_RNA	NOVEL	None	None	None	None	122360649	122360740	-1	None	None
17	None	ENSG00000264666	ENST00000583662	antisense	KNOWN	None	None	None	None	17494742	17513799	1	None	None
3	None	ENSG00000221211	ENST00000408284	miRNA	NOVEL	None	None	None	None	122645843	122645968	-1	None	None
3	None	ENSG00000241754	ENST00000487772	lincRNA	KNOWN	None	None	None	None	102382007	102392757	-1	None	None
15	BTBD1	ENSG00000064726	ENST00000261721	protein_coding	KNOWN	CCDS10322	1120	1449	482	83685174	83736106	-1	None	None
15	BTBD1	ENSG00000064726	ENST00000379403	protein_coding	KNOWN	CCDS32313	1120	1158	385	83686713	83735903	-1	None	None
15	BTBD1	ENSG00000064726	ENST00000559652	nonsense_mediated_decay	KNOWN	None	1120	112	36	83687492	83725231	-1	None	None
15	BTBD1	ENSG00000064726	ENST00000558344	retained_intron	KNOWN	None	1120	None	None	83689498	83699518	-1	None	None
15	BTBD1	ENSG00000064726	ENST00000560015	processed_transcript	KNOWN	None	1120	None	None	83698295	83710573	-1	None	None
11	MIR708	ENSG00000211997	ENST00000390708	miRNA	KNOWN	None	33654	None	None	79113066	79113153	-1	MIRN708	hsa-mir-708
17	SMCR2	ENSG00000223979	ENST00000456090	lincRNA	KNOWN	None	17914	None	None	17577340	17581002	-1	None	None
7	PON1	ENSG00000005421	ENST00000222381	protein_coding	KNOWN	CCDS5638	9204	1068	355	94926988	94954019	-1	PON	ESA
7	PON1	ENSG00000005421	ENST00000462594	retained_intron	KNOWN	None	9204	None	None	94928061	94931715	-1	PON	ESA
7	PON1	ENSG00000005421	ENST00000433729	nonsense_mediated_decay	KNOWN	None	9204	234	77	94928226	94953788	-1	PON	ESA
7	PON1	ENSG00000005421	ENST00000470502	retained_intron	KNOWN	None	9204	None	None	94940802	94947899	-1	PON	ESA
7	PON1	ENSG00000005421	ENST00000542556	protein_coding	KNOWN	None	9204	1068	355	94928223	95025673	-1	PON	ESA
HG1308_PATCH	CPA1	ENSG00000264509	ENST00000580421	protein_coding	PUTATIVE	None	2296	311	102	130020180	130023323	1	CPA	None
HG1308_PATCH	CPA1	ENSG00000264509	ENST00000579597	protein_coding	KNOWN	None	2296	1260	419	130020212	130027929	1	CPA	None
HG1308_PATCH	CPA1	ENSG00000264509	ENST00000578731	retained_intron	KNOWN	None	2296	None	None	130020335	130024040	1	CPA	None
HG1308_PATCH	CPA1	ENSG00000264509	ENST00000603457	protein_coding	NOVEL	None	2296	573	190	130020335	130025709	1	CPA	None
HG1308_PATCH	CPA1	ENSG00000264509	ENST00000580470	protein_coding	PUTATIVE	None	2296	808	268	130020708	130025764	1	CPA	None
HG1308_PATCH	CPA1	ENSG00000264509	ENST00000584579	protein_coding	PUTATIVE	None	2296	996	331	130020777	130027955	1	CPA	None
HG1308_PATCH	CPA1	ENSG00000264509	ENST00000581879	retained_intron	KNOWN	None	2296	None	None	130023540	130024902	1	CPA	None
HG1308_PATCH	CPA1	ENSG00000264509	ENST00000579026	retained_intron	KNOWN	None	2296	None	None	130023625	130027948	1	CPA	None
HG1308_PATCH	CPA1	ENSG00000264509	ENST00000577631	retained_intron	KNOWN	None	2296	None	None	130024476	130025820	1	CPA	None
9	None	ENSG00000224797	ENST00000417156	processed_pseudogene	KNOWN	None	None	None	None	133600173	133600437	-1	None	None
HG281_PATCH	OR4C49P	ENSG00000260595	ENST00000563891	unprocessed_pseudogene	KNOWN	None	31273	None	None	50074948	50075847	-1	None	None
14	HNRNPCP1	ENSG00000258900	ENST00000556181	processed_pseudogene	KNOWN	None	20017	None	None	58987941	58988706	1	HNRPCP	None
11	None	ENSG00000207196	ENST00000384467	misc_RNA	NOVEL	None	None	None	None	70551272	70551374	-1	None	None
5	None	ENSG00000254252	ENST00000520308	processed_pseudogene	KNOWN	None	None	None	None	165455572	165456316	-1	None	None
17	None	ENSG00000267747	ENST00000588996	antisense	KNOWN	None	None	None	None	41622153	41687706	1	None	None
16	FANCA	ENSG00000187741	ENST00000389301	protein_coding	KNOWN	CCDS32515	3582	4368	1455	89803957	89883054	-1	FACA, FANCH	FAA, FA-H, FAH
16	FANCA	ENSG00000187741	ENST00000568369	protein_coding	NOVEL	None	3582	4275	1424	89804811	89883054	-1	FACA, FANCH	FAA, FA-H, FAH
16	FANCA	ENSG00000187741	ENST00000561722	protein_coding	NOVEL	None	3582	588	195	89804901	89806486	-1	FACA, FANCH	FAA, FA-H, FAH
16	FANCA	ENSG00000187741	ENST00000562424	retained_intron	KNOWN	None	3582	None	None	89804903	89806166	-1	FACA, FANCH	FAA, FA-H, FAH
16	FANCA	ENSG00000187741	ENST00000567879	protein_coding	PUTATIVE	None	3582	645	214	89805038	89811470	-1	FACA, FANCH	FAA, FA-H, FAH
16	FANCA	ENSG00000187741	ENST00000564475	protein_coding	PUTATIVE	None	3582	722	239	89805152	89809302	-1	FACA, FANCH	FAA, FA-H, FAH
16	FANCA	ENSG00000187741	ENST00000564870	protein_coding	NOVEL	None	3582	460	152	89805291	89809236	-1	FACA, FANCH	FAA, FA-H, FAH
16	FANCA	ENSG00000187741	ENST00000568626	nonsense_mediated_decay	KNOWN	None	3582	505	167	89805690	89816224	-1	FACA, FANCH	FAA, FA-H, FAH
16	FANCA	ENSG00000187741	ENST00000564969	retained_intron	KNOWN	None	3582	None	None	89805771	89811416	-1	FACA, FANCH	FAA, FA-H, FAH
16	FANCA	ENSG00000187741	ENST00000305699	retained_intron	KNOWN	None	3582	None	None	89806149	89831447	-1	FACA, FANCH	FAA, FA-H, FAH
16	FANCA	ENSG00000187741	ENST00000567988	nonsense_mediated_decay	KNOWN	None	3582	328	108	89809310	89831412	-1	FACA, FANCH	FAA, FA-H, FAH
16	FANCA	ENSG00000187741	ENST00000568983	retained_intron	KNOWN	None	3582	None	None	89811095	89816204	-1	FACA, FANCH	FAA, FA-H, FAH
16	FANCA	ENSG00000187741	ENST00000561660	nonsense_mediated_decay	KNOWN	None	3582	548	181	89811435	89831452	-1	FACA, FANCH	FAA, FA-H, FAH
16	FANCA	ENSG00000187741	ENST00000563510	nonsense_mediated_decay	KNOWN	None	3582	154	50	89815172	89831355	-1	FACA, FANCH	FAA, FA-H, FAH
16	FANCA	ENSG00000187741	ENST00000563318	nonsense_mediated_decay	KNOWN	None	3582	232	76	89818569	89833555	-1	FACA, FANCH	FAA, FA-H, FAH
16	FANCA	ENSG00000187741	ENST00000567205	nonsense_mediated_decay	KNOWN	None	3582	192	63	89833550	89836432	-1	FACA, FANCH	FAA, FA-H, FAH
16	FANCA	ENSG00000187741	ENST00000561667	retained_intron	KNOWN	None	3582	None	None	89836323	89836991	-1	FACA, FANCH	FAA, FA-H, FAH
16	FANCA	ENSG00000187741	ENST00000567284	processed_transcript	KNOWN	None	3582	None	None	89836838	89845258	-1	FACA, FANCH	FAA, FA-H, FAH
16	FANCA	ENSG00000187741	ENST00000567510	nonsense_mediated_decay	KNOWN	None	3582	306	101	89839728	89846365	-1	FACA, FANCH	FAA, FA-H, FAH
16	FANCA	ENSG00000187741	ENST00000563767	retained_intron	KNOWN	None	3582	None	None	89857452	89858419	-1	FACA, FANCH	FAA, FA-H, FAH
16	FANCA	ENSG00000187741	ENST00000567621	nonsense_mediated_decay	KNOWN	None	3582	377	124	89857916	89874774	-1	FACA, FANCH	FAA, FA-H, FAH
16	FANCA	ENSG00000187741	ENST00000566133	retained_intron	KNOWN	None	3582	None	None	89857971	89859133	-1	FACA, FANCH	FAA, FA-H, FAH
16	FANCA	ENSG00000187741	ENST00000566409	nonsense_mediated_decay	KNOWN	None	3582	125	40	89862314	89865640	-1	FACA, FANCH	FAA, FA-H, FAH
16	FANCA	ENSG00000187741	ENST00000566889	retained_intron	KNOWN	None	3582	None	None	89864762	89883055	-1	FACA, FANCH	FAA, FA-H, FAH
16	FANCA	ENSG00000187741	ENST00000389302	protein_coding	KNOWN	CCDS42221	3582	894	297	89864782	89883065	-1	FACA, FANCH	FAA, FA-H, FAH
16	FANCA	ENSG00000187741	ENST00000563673	protein_coding	PUTATIVE	None	3582	951	316	89864793	89883043	-1	FACA, FANCH	FAA, FA-H, FAH
16	FANCA	ENSG00000187741	ENST00000543736	protein_coding	PUTATIVE	None	3582	798	265	89865327	89883065	-1	FACA, FANCH	FAA, FA-H, FAH
16	FANCA	ENSG00000187741	ENST00000565582	nonsense_mediated_decay	KNOWN	None	3582	633	210	89865399	89882386	-1	FACA, FANCH	FAA, FA-H, FAH
16	FANCA	ENSG00000187741	ENST00000563513	nonsense_mediated_decay	KNOWN	None	3582	345	114	89874719	89883029	-1	FACA, FANCH	FAA, FA-H, FAH
16	FANCA	ENSG00000187741	ENST00000567883	retained_intron	KNOWN	None	3582	None	None	89876980	89883016	-1	FACA, FANCH	FAA, FA-H, FAH
16	FANCA	ENSG00000187741	ENST00000567943	nonsense_mediated_decay	KNOWN	None	3582	477	158	89877393	89883056	-1	FACA, FANCH	FAA, FA-H, FAH
16	FANCA	ENSG00000187741	ENST00000534992	protein_coding	KNOWN	None	3582	909	302	89865327	89883063	-1	FACA, FANCH	FAA, FA-H, FAH
3	RNU6-461P	ENSG00000201065	ENST00000364195	snRNA	KNOWN	None	47424	None	None	102473908	102474014	-1	None	None
12	None	ENSG00000111788	ENST00000539757	unprocessed_pseudogene	KNOWN	None	None	None	None	9429831	9465837	1	None	None
12	None	ENSG00000111788	ENST00000341155	unprocessed_pseudogene	KNOWN	None	None	None	None	9436253	9466684	1	None	None
12	None	ENSG00000111788	ENST00000415169	unprocessed_pseudogene	KNOWN	None	None	None	None	9436245	9465837	1	None	None
2	None	ENSG00000236859	ENST00000414554	antisense	KNOWN	None	None	None	None	122407226	122409111	1	None	None
2	None	ENSG00000236859	ENST00000413904	antisense	KNOWN	None	None	None	None	122407374	122409111	1	None	None
2	None	ENSG00000236859	ENST00000439321	antisense	KNOWN	None	None	None	None	122407559	122409114	1	None	None
2	None	ENSG00000236859	ENST00000447668	antisense	KNOWN	None	None	None	None	122407658	122409111	1	None	None
2	None	ENSG00000236859	ENST00000419902	antisense	KNOWN	None	None	None	None	122407676	122485784	1	None	None
HG281_PATCH	None	ENSG00000260562	ENST00000565889	processed_pseudogene	KNOWN	None	None	None	None	50124155	50124436	-1	None	None
3	MYLK-AS1	ENSG00000239523	ENST00000485162	antisense	KNOWN	None	42440	None	None	123304389	123363415	1	None	None
3	MYLK-AS1	ENSG00000239523	ENST00000463408	antisense	KNOWN	None	42440	None	None	123304403	123348669	1	None	None
3	MYLK-AS1	ENSG00000239523	ENST00000470449	antisense	KNOWN	None	42440	None	None	123304403	123349668	1	None	None
HSCHR6_MHC_MCF	OR12D2	ENSG00000204690	ENST00000377140	protein_coding	KNOWN	None	8178	924	307	29364201	29365233	1	None	hs6M1-20
4	None	ENSG00000266656	ENST00000579811	miRNA	NOVEL	None	None	None	None	53617314	53617379	-1	None	None
17	CASC3	ENSG00000108349	ENST00000418132	retained_intron	KNOWN	None	17040	None	None	38296571	38323333	1	None	MLN51, BTZ
17	CASC3	ENSG00000108349	ENST00000264645	protein_coding	KNOWN	CCDS11362	17040	2112	703	38296576	38328436	1	None	MLN51, BTZ
17	CASC3	ENSG00000108349	ENST00000581849	retained_intron	KNOWN	None	17040	None	None	38296790	38318276	1	None	MLN51, BTZ
17	CASC3	ENSG00000108349	ENST00000583649	retained_intron	KNOWN	None	17040	None	None	38296797	38297800	1	None	MLN51, BTZ
17	CASC3	ENSG00000108349	ENST00000584997	protein_coding	PUTATIVE	None	17040	199	65	38297095	38318117	1	None	MLN51, BTZ
17	CASC3	ENSG00000108349	ENST00000474190	nonsense_mediated_decay	KNOWN	None	17040	670	222	38318050	38323110	1	None	MLN51, BTZ
17	CASC3	ENSG00000108349	ENST00000577605	nonsense_mediated_decay	KNOWN	None	17040	389	128	38320165	38324508	1	None	MLN51, BTZ
17	CASC3	ENSG00000108349	ENST00000579238	retained_intron	KNOWN	None	17040	None	None	38323619	38324372	1	None	MLN51, BTZ
17	CASC3	ENSG00000108349	ENST00000583902	retained_intron	KNOWN	None	17040	None	None	38324170	38325632	1	None	MLN51, BTZ
17	CASC3	ENSG00000108349	ENST00000394114	retained_intron	KNOWN	None	17040	None	None	38324691	38328417	1	None	MLN51, BTZ
11	SHANK2-AS3	ENSG00000171671	ENST00000307548	antisense	KNOWN	None	25098	None	None	70708895	70711220	1	C11orf76	None
12	None	ENSG00000257658	ENST00000551552	processed_pseudogene	KNOWN	None	None	None	None	112759563	112760893	1	None	None
1	CTBS	ENSG00000117151	ENST00000477677	processed_transcript	KNOWN	None	2496	None	None	85018804	85040163	-1	CTB	None
1	CTBS	ENSG00000117151	ENST00000370630	protein_coding	KNOWN	CCDS698	2496	1158	385	85018807	85040147	-1	CTB	None
1	CTBS	ENSG00000117151	ENST00000465118	nonsense_mediated_decay	KNOWN	None	2496	234	77	85020221	85040113	-1	CTB	None
1	CTBS	ENSG00000117151	ENST00000370625	nonsense_mediated_decay	KNOWN	None	2496	234	77	85020536	85040104	-1	CTB	None
17	None	ENSG00000267440	ENST00000593169	lincRNA	KNOWN	None	None	None	None	41757641	41783252	1	None	None
4	None	ENSG00000199901	ENST00000363031	misc_RNA	NOVEL	None	None	None	None	53652704	53652805	1	None	None
1	None	ENSG00000225241	ENST00000429694	processed_transcript	KNOWN	None	None	None	None	144593363	144621656	1	None	None
1	None	ENSG00000225241	ENST00000421407	processed_transcript	KNOWN	None	None	None	None	144593678	144621656	1	None	None
1	None	ENSG00000225241	ENST00000447534	processed_transcript	KNOWN	None	None	None	None	144593720	144605701	1	None	None
1	None	ENSG00000225241	ENST00000439352	processed_transcript	PUTATIVE	None	None	None	None	144593736	144597070	1	None	None
1	None	ENSG00000225241	ENST00000428365	processed_transcript	KNOWN	None	None	None	None	144593808	144603193	1	None	None
1	None	ENSG00000225241	ENST00000449960	processed_transcript	KNOWN	None	None	None	None	144593907	144620039	1	None	None
1	None	ENSG00000225241	ENST00000419820	processed_transcript	KNOWN	None	None	None	None	144594045	144605891	1	None	None
1	None	ENSG00000225241	ENST00000423405	processed_transcript	KNOWN	None	None	None	None	144598512	144620094	1	None	None
1	None	ENSG00000225241	ENST00000448227	processed_transcript	PUTATIVE	None	None	None	None	144598614	144606278	1	None	None
1	None	ENSG00000225241	ENST00000437451	processed_transcript	PUTATIVE	None	None	None	None	144598651	144607547	1	None	None
1	None	ENSG00000225241	ENST00000437133	processed_transcript	KNOWN	None	None	None	None	144598655	144620094	1	None	None
1	None	ENSG00000225241	ENST00000446541	processed_transcript	KNOWN	None	None	None	None	144604417	144621656	1	None	None
1	None	ENSG00000225241	ENST00000428366	processed_transcript	KNOWN	None	None	None	None	144614388	144621656	1	None	None
1	None	ENSG00000225241	ENST00000448172	processed_transcript	KNOWN	None	None	None	None	144614532	144619419	1	None	None
1	None	ENSG00000225241	ENST00000589820	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	144615131	144621656	1	None	None
1	None	ENSG00000225241	ENST00000427261	processed_transcript	PUTATIVE	None	None	None	None	144618160	144621548	1	None	None
1	None	ENSG00000225241	ENST00000334866	unprocessed_pseudogene	KNOWN	None	None	None	None	144615131	144621655	1	None	None
17	RAI1-AS1	ENSG00000237328	ENST00000443696	antisense	KNOWN	None	40496	None	None	17662468	17674135	-1	None	None
1	None	ENSG00000239906	ENST00000493797	antisense	KNOWN	None	None	None	None	139790	140339	-1	None	None
8	MICU3	ENSG00000155970	ENST00000318063	protein_coding	KNOWN	CCDS5999	27820	1593	530	16884747	16980153	1	EFHA2	DKFZp313A0139
8	MICU3	ENSG00000155970	ENST00000522235	processed_transcript	KNOWN	None	27820	None	None	16885087	16935370	1	EFHA2	DKFZp313A0139
8	MICU3	ENSG00000155970	ENST00000519044	protein_coding	NOVEL	None	27820	1127	374	16921639	16977799	1	EFHA2	DKFZp313A0139
8	MICU3	ENSG00000155970	ENST00000517398	protein_coding	PUTATIVE	None	27820	301	99	16921694	16939476	1	EFHA2	DKFZp313A0139
8	MICU3	ENSG00000155970	ENST00000517447	retained_intron	KNOWN	None	27820	None	None	16921723	16948193	1	EFHA2	DKFZp313A0139
8	MICU3	ENSG00000155970	ENST00000519866	processed_transcript	KNOWN	None	27820	None	None	16959952	16963092	1	EFHA2	DKFZp313A0139
9	None	ENSG00000236658	ENST00000421067	antisense	KNOWN	None	None	None	None	133809238	133820907	1	None	None
15	None	ENSG00000259505	ENST00000561352	processed_pseudogene	KNOWN	None	None	None	None	34282887	34284249	1	None	None
HG7_PATCH	WBP1LP1	ENSG00000261808	ENST00000565217	processed_pseudogene	KNOWN	None	43948	None	None	142539536	142540431	-1	None	None
5	None	ENSG00000254171	ENST00000520075	lincRNA	KNOWN	None	None	None	None	165555503	165582444	1	None	None
9	None	ENSG00000252582	ENST00000516773	snoRNA	NOVEL	None	None	None	None	133896555	133896693	-1	None	None
17	None	ENSG00000267253	ENST00000587110	processed_pseudogene	KNOWN	None	None	None	None	41795682	41797804	-1	None	None
12	None	ENSG00000243129	ENST00000482174	processed_pseudogene	KNOWN	None	None	None	None	13174194	13174540	-1	None	None
9	RNU6-881P	ENSG00000252622	ENST00000516813	snRNA	KNOWN	None	47844	None	None	134002377	134002478	1	None	None
17	SMCR5	ENSG00000226746	ENST00000543475	antisense	KNOWN	None	17918	None	None	17680000	17682843	-1	None	NCRNA00034
12	KMT2D	ENSG00000167548	ENST00000301067	protein_coding	KNOWN	CCDS44873	7133	16614	5537	49412758	49449107	-1	TNRC21, MLL2	ALR, MLL4, CAGL114
12	KMT2D	ENSG00000167548	ENST00000526209	protein_coding	NOVEL	None	7133	657	218	49415361	49418407	-1	TNRC21, MLL2	ALR, MLL4, CAGL114
12	KMT2D	ENSG00000167548	ENST00000552391	retained_intron	KNOWN	None	7133	None	None	49424063	49425187	-1	TNRC21, MLL2	ALR, MLL4, CAGL114
12	KMT2D	ENSG00000167548	ENST00000549743	processed_transcript	PUTATIVE	None	7133	None	None	49429358	49431079	-1	TNRC21, MLL2	ALR, MLL4, CAGL114
12	KMT2D	ENSG00000167548	ENST00000549799	processed_transcript	PUTATIVE	None	7133	None	None	49432251	49433082	-1	TNRC21, MLL2	ALR, MLL4, CAGL114
12	KMT2D	ENSG00000167548	ENST00000550356	retained_intron	KNOWN	None	7133	None	None	49436861	49437481	-1	TNRC21, MLL2	ALR, MLL4, CAGL114
12	KMT2D	ENSG00000167548	ENST00000547610	protein_coding	KNOWN	None	7133	437	144	49448163	49453557	-1	TNRC21, MLL2	ALR, MLL4, CAGL114
8	None	ENSG00000254367	ENST00000522213	lincRNA	KNOWN	None	None	None	None	8581203	8639989	-1	None	None
8	None	ENSG00000254367	ENST00000519147	lincRNA	KNOWN	None	None	None	None	8608884	8638945	-1	None	None
17	None	ENSG00000215964	ENST00000401145	miRNA	NOVEL	None	None	None	None	41825568	41825631	1	None	None
1	WRAP73	ENSG00000116213	ENST00000378322	protein_coding	PUTATIVE	None	12759	1308	435	3547331	3566622	-1	WDR8	None
1	WRAP73	ENSG00000116213	ENST00000270708	protein_coding	KNOWN	CCDS48	12759	1383	460	3547331	3566637	-1	WDR8	None
1	WRAP73	ENSG00000116213	ENST00000471223	retained_intron	KNOWN	None	12759	None	None	3548450	3556189	-1	WDR8	None
1	WRAP73	ENSG00000116213	ENST00000424367	protein_coding	NOVEL	None	12759	913	303	3548777	3566590	-1	WDR8	None
1	WRAP73	ENSG00000116213	ENST00000497940	retained_intron	KNOWN	None	12759	None	None	3549330	3553621	-1	WDR8	None
1	WRAP73	ENSG00000116213	ENST00000469643	retained_intron	KNOWN	None	12759	None	None	3549874	3552014	-1	WDR8	None
1	WRAP73	ENSG00000116213	ENST00000494884	retained_intron	KNOWN	None	12759	None	None	3551480	3551997	-1	WDR8	None
1	WRAP73	ENSG00000116213	ENST00000465916	protein_coding	PUTATIVE	None	12759	601	199	3551578	3569325	-1	WDR8	None
1	WRAP73	ENSG00000116213	ENST00000419924	protein_coding	NOVEL	None	12759	539	178	3551836	3566627	-1	WDR8	None
1	WRAP73	ENSG00000116213	ENST00000479331	retained_intron	KNOWN	None	12759	None	None	3563810	3566625	-1	WDR8	None
3	RNU1-43P	ENSG00000201922	ENST00000365052	snRNA	KNOWN	None	48385	None	None	102878804	102878968	1	None	None
14	RPL9P5	ENSG00000239510	ENST00000479477	processed_pseudogene	KNOWN	None	23557	None	None	59030864	59031334	1	None	None
16	None	ENSG00000260517	ENST00000562902	lincRNA	KNOWN	None	None	None	None	29127448	29229181	1	None	None
16	None	ENSG00000260517	ENST00000563477	lincRNA	KNOWN	None	None	None	None	29150982	29228027	1	None	None
11	TRPM5	ENSG00000070985	ENST00000533881	protein_coding	KNOWN	None	14323	3480	1159	2425745	2444242	-1	None	LTRPC5, MTR1
11	TRPM5	ENSG00000070985	ENST00000155858	protein_coding	KNOWN	CCDS31340	14323	3498	1165	2425745	2444275	-1	None	LTRPC5, MTR1
11	TRPM5	ENSG00000070985	ENST00000533060	protein_coding	NOVEL	None	14323	3522	1173	2426133	2444272	-1	None	LTRPC5, MTR1
11	TRPM5	ENSG00000070985	ENST00000528453	protein_coding	NOVEL	None	14323	3501	1166	2426139	2444272	-1	None	LTRPC5, MTR1
11	TRPM5	ENSG00000070985	ENST00000452833	protein_coding	KNOWN	None	14323	3504	1167	2425748	2444275	-1	None	LTRPC5, MTR1
17	None	ENSG00000267604	ENST00000591540	antisense	KNOWN	None	None	None	None	41860172	41862050	-1	None	None
17	None	ENSG00000264167	ENST00000583598	sense_intronic	KNOWN	None	None	None	None	17681095	17682408	1	None	None
3	NDUFA4P2	ENSG00000236691	ENST00000489989	processed_pseudogene	KNOWN	None	31362	None	None	102959831	102960074	1	NDUFA4L	bcm1723
HG7_PATCH	None	ENSG00000261805	ENST00000568318	antisense	KNOWN	None	None	None	None	142636796	142653708	1	None	None
12	RNA5SP353	ENSG00000201476	ENST00000364606	rRNA	KNOWN	None	43253	None	None	13593818	13593935	-1	RN5S353	None
11	MIR5579	ENSG00000266570	ENST00000580400	miRNA	KNOWN	None	43485	None	None	79133213	79133270	-1	None	hsa-mir-5579
12	RNU6-590P	ENSG00000201909	ENST00000365039	snRNA	KNOWN	None	47553	None	None	13612604	13612710	-1	None	None
17	None	ENSG00000267166	ENST00000591374	antisense	KNOWN	None	None	None	None	41991801	41994767	-1	None	None
17	None	ENSG00000267166	ENST00000585329	antisense	KNOWN	None	None	None	None	41991801	42000369	-1	None	None
3	PSMD10P2	ENSG00000226652	ENST00000432890	processed_pseudogene	KNOWN	None	30151	None	None	186478893	186479564	1	None	None
X	HNRNPCP10	ENSG00000215054	ENST00000457130	processed_pseudogene	KNOWN	None	48821	None	None	143922298	143923181	1	None	None
12	None	ENSG00000265039	ENST00000581256	miRNA	NOVEL	None	None	None	None	53345492	53345579	1	None	None
HG7_PATCH	OR9P1P	ENSG00000260829	ENST00000568447	unprocessed_pseudogene	KNOWN	None	15097	None	None	142807823	142808190	-1	OR9P2P	None
14	None	ENSG00000244306	ENST00000551334	lincRNA	KNOWN	None	None	None	None	19854098	19925327	-1	None	None
14	None	ENSG00000244306	ENST00000546382	lincRNA	KNOWN	None	None	None	None	19872436	19925332	-1	None	None
14	None	ENSG00000244306	ENST00000552602	lincRNA	KNOWN	None	None	None	None	19880059	19925305	-1	None	None
14	None	ENSG00000244306	ENST00000553153	lincRNA	KNOWN	None	None	None	None	19880596	19925346	-1	None	None
14	None	ENSG00000244306	ENST00000455088	lincRNA	KNOWN	None	None	None	None	19882464	19925334	-1	None	None
14	None	ENSG00000244306	ENST00000549813	lincRNA	KNOWN	None	None	None	None	19883543	19925288	-1	None	None
14	None	ENSG00000244306	ENST00000547648	lincRNA	KNOWN	None	None	None	None	19883801	19925345	-1	None	None
14	None	ENSG00000244306	ENST00000547285	lincRNA	KNOWN	None	None	None	None	19891095	19925329	-1	None	None
14	None	ENSG00000244306	ENST00000550805	lincRNA	KNOWN	None	None	None	None	19891517	19894794	-1	None	None
14	None	ENSG00000244306	ENST00000548875	lincRNA	KNOWN	None	None	None	None	19892138	19921455	-1	None	None
14	None	ENSG00000244306	ENST00000400192	lincRNA	KNOWN	None	None	None	None	19893856	19925300	-1	None	None
14	None	ENSG00000244306	ENST00000548903	lincRNA	KNOWN	None	None	None	None	19894710	19925348	-1	None	None
14	None	ENSG00000244306	ENST00000548057	lincRNA	KNOWN	None	None	None	None	19912015	19919158	-1	None	None
14	None	ENSG00000244306	ENST00000546959	lincRNA	KNOWN	None	None	None	None	19918476	19919581	-1	None	None
14	None	ENSG00000244306	ENST00000549065	lincRNA	KNOWN	None	None	None	None	19919134	19925306	-1	None	None
12	None	ENSG00000258044	ENST00000548469	antisense	KNOWN	None	None	None	None	80217558	80219276	1	None	None
12	None	ENSG00000256306	ENST00000535528	antisense	KNOWN	None	None	None	None	13679788	13683809	1	None	None
12	None	ENSG00000256306	ENST00000543347	lincRNA	KNOWN	None	None	None	None	13683589	13700516	1	None	None
12	MIR1302-1	ENSG00000221560	ENST00000408633	miRNA	KNOWN	None	35293	None	None	113132839	113132981	-1	MIRN1302-1	hsa-mir-1302-1
11	None	ENSG00000255209	ENST00000526851	lincRNA	KNOWN	None	None	None	None	79316011	79323344	-1	None	None
14	UBE2CP1	ENSG00000258648	ENST00000557130	processed_pseudogene	KNOWN	None	19670	None	None	31152251	31152804	-1	None	None
5	None	ENSG00000264903	ENST00000583869	miRNA	NOVEL	None	None	None	None	165586438	165586525	-1	None	None
9	None	ENSG00000236986	ENST00000587264	antisense	KNOWN	None	None	None	None	134008252	134042892	-1	None	None
9	None	ENSG00000236986	ENST00000588378	antisense	KNOWN	None	None	None	None	134008359	134042892	-1	None	None
9	None	ENSG00000236986	ENST00000589540	antisense	KNOWN	None	None	None	None	134008395	134042892	-1	None	None
9	None	ENSG00000236986	ENST00000589667	antisense	KNOWN	None	None	None	None	134008396	134042892	-1	None	None
9	None	ENSG00000236986	ENST00000586290	antisense	KNOWN	None	None	None	None	134008432	134042892	-1	None	None
9	None	ENSG00000236986	ENST00000587408	antisense	KNOWN	None	None	None	None	134008491	134042701	-1	None	None
9	None	ENSG00000236986	ENST00000415391	antisense	KNOWN	None	None	None	None	134011856	134042892	-1	None	None
9	None	ENSG00000236986	ENST00000590461	antisense	KNOWN	None	None	None	None	134011952	134042892	-1	None	None
9	None	ENSG00000236986	ENST00000589128	antisense	KNOWN	None	None	None	None	134034390	134042795	-1	None	None
9	None	ENSG00000236986	ENST00000417798	antisense	KNOWN	None	None	None	None	134034765	134042852	-1	None	None
9	None	ENSG00000236986	ENST00000586662	antisense	KNOWN	None	None	None	None	134038233	134042712	-1	None	None
9	None	ENSG00000236986	ENST00000588325	antisense	KNOWN	None	None	None	None	134038661	134042707	-1	None	None
9	None	ENSG00000236986	ENST00000592466	antisense	KNOWN	None	None	None	None	134039638	134042712	-1	None	None
9	None	ENSG00000236986	ENST00000589095	antisense	KNOWN	None	None	None	None	134039747	134042712	-1	None	None
17	None	ENSG00000267420	ENST00000592842	lincRNA	KNOWN	None	None	None	None	42004931	42009990	1	None	None
3	RNU6-1105P	ENSG00000207505	ENST00000384774	snRNA	KNOWN	None	48068	None	None	186489630	186489736	-1	None	None
8	None	ENSG00000254086	ENST00000522967	lincRNA	KNOWN	None	None	None	None	29722160	29729177	1	None	None
16	None	ENSG00000260518	ENST00000567036	processed_transcript	KNOWN	None	None	None	None	33489492	33490548	-1	None	None
16	None	ENSG00000260518	ENST00000565049	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	33489797	33500971	-1	None	None
16	None	ENSG00000260518	ENST00000565156	processed_transcript	KNOWN	None	None	None	None	33497163	33499092	-1	None	None
5	None	ENSG00000229119	ENST00000518938	processed_pseudogene	KNOWN	None	None	None	None	165809310	165809604	1	None	None
12	None	ENSG00000257452	ENST00000552784	antisense	KNOWN	None	None	None	None	113345433	113455556	-1	None	None
17	None	ENSG00000221044	ENST00000408117	snoRNA	NOVEL	None	None	None	None	42102389	42102591	-1	None	None
15	None	ENSG00000243094	ENST00000487972	processed_pseudogene	KNOWN	None	None	None	None	34378112	34378515	-1	None	None
11	None	ENSG00000255129	ENST00000529416	antisense	KNOWN	None	None	None	None	113149159	113154712	-1	None	None
11	None	ENSG00000255129	ENST00000526487	antisense	KNOWN	None	None	None	None	113149275	113185146	-1	None	None
11	None	ENSG00000255129	ENST00000533504	antisense	KNOWN	None	None	None	None	113150105	113185159	-1	None	None
12	None	ENSG00000225410	ENST00000432903	pseudogene	NOVEL	None	None	None	None	53346500	53346686	-1	None	None
X	None	ENSG00000232042	ENST00000439244	processed_pseudogene	KNOWN	None	None	None	None	119406982	119407381	1	None	None
11	None	ENSG00000254877	ENST00000525517	processed_pseudogene	KNOWN	None	None	None	None	58735069	58735764	-1	None	None
11	RN7SL56P	ENSG00000243869	ENST00000470034	misc_RNA	KNOWN	None	46072	None	None	9602453	9602763	1	None	None
17	None	ENSG00000267638	ENST00000585899	processed_transcript	KNOWN	None	None	None	None	42193280	42197963	1	None	None
3	None	ENSG00000230951	ENST00000430745	processed_pseudogene	KNOWN	None	None	None	None	186490378	186491265	1	None	None
10	PRPF18	ENSG00000165630	ENST00000378572	protein_coding	KNOWN	CCDS7100	17351	1029	342	13628927	13672868	1	None	hPrp18
10	PRPF18	ENSG00000165630	ENST00000417658	protein_coding	PUTATIVE	None	17351	748	248	13628939	13656060	1	None	hPrp18
10	PRPF18	ENSG00000165630	ENST00000320054	protein_coding	PUTATIVE	None	17351	503	166	13628968	13653652	1	None	hPrp18
12	None	ENSG00000252445	ENST00000516636	miRNA	NOVEL	None	None	None	None	13740814	13740918	-1	None	None
7	None	ENSG00000243416	ENST00000452219	processed_transcript	KNOWN	None	None	None	None	131582400	131618070	1	None	None
12	None	ENSG00000238361	ENST00000459190	snoRNA	NOVEL	None	None	None	None	93659405	93659508	-1	None	None
14	None	ENSG00000258558	ENST00000554665	antisense	KNOWN	None	None	None	None	31204132	31291908	-1	None	None
14	None	ENSG00000221427	ENST00000408500	miRNA	NOVEL	None	None	None	None	59237870	59237964	-1	None	None
6	C6orf48	ENSG00000204387	ENST00000375640	protein_coding	KNOWN	CCDS34416	19078	228	75	31802385	31807538	1	None	D6S57, G8
6	C6orf48	ENSG00000204387	ENST00000375641	protein_coding	KNOWN	CCDS34416	19078	228	75	31802404	31807538	1	None	D6S57, G8
6	C6orf48	ENSG00000204387	ENST00000375639	protein_coding	KNOWN	CCDS34416	19078	228	75	31802685	31807538	1	None	D6S57, G8
6	C6orf48	ENSG00000204387	ENST00000375638	protein_coding	KNOWN	CCDS34416	19078	228	75	31802685	31807538	1	None	D6S57, G8
6	C6orf48	ENSG00000204387	ENST00000375635	protein_coding	KNOWN	CCDS34416	19078	228	75	31802685	31807538	1	None	D6S57, G8
6	C6orf48	ENSG00000204387	ENST00000375642	protein_coding	KNOWN	CCDS34416	19078	228	75	31802695	31807538	1	None	D6S57, G8
6	C6orf48	ENSG00000204387	ENST00000395789	protein_coding	KNOWN	CCDS34416	19078	228	75	31802709	31807538	1	None	D6S57, G8
6	C6orf48	ENSG00000204387	ENST00000375633	protein_coding	KNOWN	CCDS34416	19078	228	75	31803065	31807541	1	None	D6S57, G8
6	C6orf48	ENSG00000204387	ENST00000395788	protein_coding	KNOWN	CCDS34416	19078	228	75	31804620	31807541	1	None	D6S57, G8
3	None	ENSG00000263826	ENST00000577781	antisense	KNOWN	None	None	None	None	186499569	186501968	-1	None	None
9	None	ENSG00000223446	ENST00000428958	antisense	KNOWN	None	None	None	None	95857221	95857811	-1	None	None
1	None	ENSG00000241860	ENST00000484859	antisense	KNOWN	None	None	None	None	141474	149707	-1	None	None
1	None	ENSG00000241860	ENST00000490997	antisense	KNOWN	None	None	None	None	142808	146831	-1	None	None
1	None	ENSG00000241860	ENST00000466557	lincRNA	KNOWN	None	None	None	None	146386	173862	-1	None	None
1	None	ENSG00000241860	ENST00000491962	lincRNA	KNOWN	None	None	None	None	165889	168767	-1	None	None
HG183_PATCH	POLG2	ENSG00000262917	ENST00000581838	processed_transcript	KNOWN	None	9180	None	None	62555145	62561422	-1	None	MTPOLB, HP55
HG183_PATCH	POLG2	ENSG00000262917	ENST00000573512	protein_coding	KNOWN	None	9180	1458	485	62555145	62574426	-1	None	MTPOLB, HP55
HG183_PATCH	POLG2	ENSG00000262917	ENST00000579744	retained_intron	KNOWN	None	9180	None	None	62555148	62558155	-1	None	MTPOLB, HP55
HG183_PATCH	POLG2	ENSG00000262917	ENST00000583045	processed_transcript	KNOWN	None	9180	None	None	62557643	62564834	-1	None	MTPOLB, HP55
HG183_PATCH	POLG2	ENSG00000262917	ENST00000580137	retained_intron	KNOWN	None	9180	None	None	62557710	62560711	-1	None	MTPOLB, HP55
HG183_PATCH	POLG2	ENSG00000262917	ENST00000582952	processed_transcript	PUTATIVE	None	9180	None	None	62558684	62563154	-1	None	MTPOLB, HP55
HG183_PATCH	POLG2	ENSG00000262917	ENST00000578436	retained_intron	KNOWN	None	9180	None	None	62562954	62574379	-1	None	MTPOLB, HP55
HG183_PATCH	POLG2	ENSG00000262917	ENST00000583923	processed_transcript	KNOWN	None	9180	None	None	62564366	62570270	-1	None	MTPOLB, HP55
HG183_PATCH	POLG2	ENSG00000262917	ENST00000579819	processed_transcript	KNOWN	None	9180	None	None	62567831	62573784	-1	None	MTPOLB, HP55
HG183_PATCH	POLG2	ENSG00000262917	ENST00000585235	nonsense_mediated_decay	KNOWN	None	9180	246	81	62568222	62574115	-1	None	MTPOLB, HP55
12	RN7SKP162	ENSG00000200475	ENST00000363605	misc_RNA	KNOWN	None	45886	None	None	13836476	13836820	1	None	None
17	RNU6-131P	ENSG00000212446	ENST00000391144	snRNA	KNOWN	None	47094	None	None	42213251	42213357	-1	None	None
X	RN7SKP189	ENSG00000201912	ENST00000365042	misc_RNA	KNOWN	None	45913	None	None	144138628	144138957	1	None	None
Y	ZFY	ENSG00000067646	ENST00000383052	protein_coding	KNOWN	CCDS14774	12870	2406	801	2803322	2850547	1	None	ZNF911
Y	ZFY	ENSG00000067646	ENST00000469869	processed_transcript	KNOWN	None	12870	None	None	2803541	2846094	1	None	ZNF911
Y	ZFY	ENSG00000067646	ENST00000443793	protein_coding	KNOWN	None	12870	274	90	2803546	2829327	1	None	ZNF911
Y	ZFY	ENSG00000067646	ENST00000478783	processed_transcript	KNOWN	None	12870	None	None	2845860	2847391	1	None	ZNF911
Y	ZFY	ENSG00000067646	ENST00000431102	protein_coding	KNOWN	CCDS48200	12870	1833	610	2803112	2850546	1	None	ZNF911
Y	ZFY	ENSG00000067646	ENST00000155093	protein_coding	KNOWN	CCDS14774	12870	2406	801	2803518	2850546	1	None	ZNF911
Y	ZFY	ENSG00000067646	ENST00000449237	protein_coding	KNOWN	CCDS48201	12870	2175	724	2803518	2850546	1	None	ZNF911
8	RNU6-682P	ENSG00000200713	ENST00000363843	snRNA	KNOWN	None	47645	None	None	8753323	8753428	1	None	None
12	None	ENSG00000258159	ENST00000552954	processed_pseudogene	KNOWN	None	None	None	None	113453412	113453903	1	None	None
11	GLYATL1P1	ENSG00000255189	ENST00000528297	unprocessed_pseudogene	KNOWN	None	37866	None	None	58746260	58761593	1	None	None
8	None	ENSG00000253604	ENST00000521908	lincRNA	KNOWN	None	None	None	None	29763251	29766472	1	None	None
11	None	ENSG00000243964	ENST00000475608	processed_pseudogene	KNOWN	None	None	None	None	9627689	9628156	1	None	None
9	None	ENSG00000203364	ENST00000366188	lincRNA	KNOWN	None	None	None	None	95909322	95910838	1	None	None
12	None	ENSG00000201502	ENST00000364632	snoRNA	NOVEL	None	None	None	None	93659793	93659872	1	None	None
X	None	ENSG00000272179	ENST00000605987	snoRNA	NOVEL	None	None	None	None	119678170	119678273	1	None	None
17	ASB16-AS1	ENSG00000267080	ENST00000585457	antisense	KNOWN	None	25442	None	None	42253341	42264039	-1	C17orf65	DKFZp762C2414
17	ASB16-AS1	ENSG00000267080	ENST00000591166	antisense	KNOWN	None	25442	None	None	42253577	42263993	-1	C17orf65	DKFZp762C2414
17	ASB16-AS1	ENSG00000267080	ENST00000588785	antisense	KNOWN	None	25442	None	None	42253623	42264020	-1	C17orf65	DKFZp762C2414
17	ASB16-AS1	ENSG00000267080	ENST00000592897	antisense	KNOWN	None	25442	None	None	42255065	42264085	-1	C17orf65	DKFZp762C2414
3	SNORD2	ENSG00000238942	ENST00000459163	snoRNA	KNOWN	None	32678	None	None	186502585	186502653	1	None	R39B, snR39B
2	None	ENSG00000230993	ENST00000433385	processed_pseudogene	KNOWN	None	None	None	None	122416051	122416549	-1	None	None
8	None	ENSG00000270966	ENST00000603391	processed_pseudogene	KNOWN	None	None	None	None	8791231	8791516	-1	None	None
14	None	ENSG00000213598	ENST00000480540	processed_pseudogene	KNOWN	None	None	None	None	59261372	59261747	1	None	None
14	None	ENSG00000213598	ENST00000393325	processed_pseudogene	KNOWN	None	None	None	None	59261604	59261747	1	None	None
3	None	ENSG00000272096	ENST00000606972	misc_RNA	NOVEL	None	None	None	None	155155329	155155612	-1	None	None
X	FOXP3	ENSG00000049768	ENST00000376207	protein_coding	KNOWN	CCDS14323	6106	1296	431	49106897	49121288	-1	IPEX	JM2, XPID, AIID, PIDX, DIETER, SCURFIN
X	FOXP3	ENSG00000049768	ENST00000557224	protein_coding	PUTATIVE	None	6106	1371	456	49107795	49114962	-1	IPEX	JM2, XPID, AIID, PIDX, DIETER, SCURFIN
X	FOXP3	ENSG00000049768	ENST00000518685	protein_coding	KNOWN	CCDS48109	6106	1191	396	49107795	49114984	-1	IPEX	JM2, XPID, AIID, PIDX, DIETER, SCURFIN
X	FOXP3	ENSG00000049768	ENST00000376197	protein_coding	PUTATIVE	None	6106	1326	441	49107795	49115697	-1	IPEX	JM2, XPID, AIID, PIDX, DIETER, SCURFIN
X	FOXP3	ENSG00000049768	ENST00000376199	protein_coding	KNOWN	CCDS48109	6106	1191	396	49106900	49121288	-1	IPEX	JM2, XPID, AIID, PIDX, DIETER, SCURFIN
X	FOXP3	ENSG00000049768	ENST00000455775	protein_coding	KNOWN	None	6106	1215	404	49107795	49114962	-1	IPEX	JM2, XPID, AIID, PIDX, DIETER, SCURFIN
12	RPS15AP32	ENSG00000242461	ENST00000460336	processed_pseudogene	KNOWN	None	35879	None	None	113491867	113492240	1	None	None
12	RNA5SP363	ENSG00000201942	ENST00000365072	rRNA	KNOWN	None	43263	None	None	80272085	80272199	-1	RN5S363	None
14	None	ENSG00000243855	ENST00000475149	processed_pseudogene	KNOWN	None	None	None	None	31260304	31260695	1	None	None
7	None	ENSG00000224865	ENST00000415393	processed_transcript	KNOWN	None	None	None	None	131594979	131633712	1	None	None
9	RNU6-829P	ENSG00000200570	ENST00000363700	snRNA	KNOWN	None	47792	None	None	96137838	96137949	1	None	None
X	None	ENSG00000233548	ENST00000448560	processed_pseudogene	KNOWN	None	None	None	None	144258102	144258414	1	None	None
2	MAT2A	ENSG00000168906	ENST00000306434	protein_coding	KNOWN	CCDS1977	6904	1188	395	85766288	85772403	1	None	SAMS2, MATA2, MATII
2	MAT2A	ENSG00000168906	ENST00000465151	retained_intron	KNOWN	None	6904	None	None	85766291	85768577	1	None	SAMS2, MATA2, MATII
2	MAT2A	ENSG00000168906	ENST00000469221	retained_intron	KNOWN	None	6904	None	None	85766291	85768779	1	None	SAMS2, MATA2, MATII
2	MAT2A	ENSG00000168906	ENST00000481412	retained_intron	KNOWN	None	6904	None	None	85766727	85770341	1	None	SAMS2, MATA2, MATII
2	MAT2A	ENSG00000168906	ENST00000409017	protein_coding	PUTATIVE	None	6904	900	299	85766765	85770731	1	None	SAMS2, MATA2, MATII
2	MAT2A	ENSG00000168906	ENST00000490878	processed_transcript	PUTATIVE	None	6904	None	None	85768605	85769252	1	None	SAMS2, MATA2, MATII
3	PLCH1-AS1	ENSG00000239508	ENST00000475196	antisense	KNOWN	None	41231	None	None	155166973	155175542	1	None	None
X	None	ENSG00000244439	ENST00000424799	processed_transcript	KNOWN	None	None	None	None	119745184	119754929	1	None	None
12	None	ENSG00000257512	ENST00000547118	processed_transcript	KNOWN	None	None	None	None	93708585	93709717	1	None	None
12	None	ENSG00000257512	ENST00000552735	transcribed_processed_pseudogene	KNOWN	None	None	None	None	93709347	93709479	1	None	None
9	None	ENSG00000201074	ENST00000364204	misc_RNA	NOVEL	None	None	None	None	96180137	96180248	1	None	None
HG873_PATCH	CYP2R1	ENSG00000262968	ENST00000570468	nonsense_mediated_decay	KNOWN	None	20580	114	37	14899553	14908880	-1	None	None
HG873_PATCH	CYP2R1	ENSG00000262968	ENST00000573993	nonsense_mediated_decay	KNOWN	None	20580	114	37	14899555	14913186	-1	None	None
HG873_PATCH	CYP2R1	ENSG00000262968	ENST00000574765	nonsense_mediated_decay	KNOWN	None	20580	114	37	14899555	14913208	-1	None	None
HG873_PATCH	CYP2R1	ENSG00000262968	ENST00000571231	nonsense_mediated_decay	KNOWN	None	20580	98	31	14899558	14907387	-1	None	None
HG873_PATCH	CYP2R1	ENSG00000262968	ENST00000570338	protein_coding	PUTATIVE	None	20580	807	268	14899584	14913197	-1	None	None
HG873_PATCH	CYP2R1	ENSG00000262968	ENST00000572354	protein_coding	KNOWN	None	20580	1506	501	14899608	14913798	-1	None	None
HG873_PATCH	CYP2R1	ENSG00000262968	ENST00000572873	processed_transcript	PUTATIVE	None	20580	None	None	14901681	14912077	-1	None	None
HG873_PATCH	CYP2R1	ENSG00000262968	ENST00000576571	processed_transcript	PUTATIVE	None	20580	None	None	14901861	14913038	-1	None	None
HG873_PATCH	CYP2R1	ENSG00000262968	ENST00000571095	processed_transcript	PUTATIVE	None	20580	None	None	14901883	14907523	-1	None	None
HG873_PATCH	CYP2R1	ENSG00000262968	ENST00000575190	processed_transcript	KNOWN	None	20580	None	None	14902180	14913076	-1	None	None
17	C17orf72	ENSG00000224383	ENST00000577953	protein_coding	KNOWN	CCDS54159	25673	297	98	62075711	62079329	1	None	FLJ11724, DKFZp761M2312
17	C17orf72	ENSG00000224383	ENST00000582540	protein_coding	PUTATIVE	None	25673	417	138	62075711	62079580	1	None	FLJ11724, DKFZp761M2312
17	C17orf72	ENSG00000224383	ENST00000579184	protein_coding	KNOWN	CCDS58586	25673	549	182	62075711	62079610	1	None	FLJ11724, DKFZp761M2312
17	C17orf72	ENSG00000224383	ENST00000425164	protein_coding	KNOWN	CCDS54157	25673	711	236	62075711	62079876	1	None	FLJ11724, DKFZp761M2312
17	C17orf72	ENSG00000224383	ENST00000412177	protein_coding	KNOWN	CCDS54158	25673	570	189	62075711	62081664	1	None	FLJ11724, DKFZp761M2312
17	C17orf72	ENSG00000224383	ENST00000583891	protein_coding	PUTATIVE	None	25673	468	155	62075715	62079113	1	None	FLJ11724, DKFZp761M2312
17	C17orf72	ENSG00000224383	ENST00000580752	protein_coding	PUTATIVE	None	25673	114	37	62075715	62079409	1	None	FLJ11724, DKFZp761M2312
17	C17orf72	ENSG00000224383	ENST00000582530	retained_intron	KNOWN	None	25673	None	None	62075715	62080473	1	None	FLJ11724, DKFZp761M2312
17	C17orf72	ENSG00000224383	ENST00000225760	retained_intron	KNOWN	None	25673	None	None	62075815	62081645	1	None	FLJ11724, DKFZp761M2312
17	C17orf72	ENSG00000224383	ENST00000579222	retained_intron	KNOWN	None	25673	None	None	62078217	62079853	1	None	FLJ11724, DKFZp761M2312
17	C17orf72	ENSG00000224383	ENST00000539996	protein_coding	KNOWN	None	25673	420	139	62075711	62079580	1	None	FLJ11724, DKFZp761M2312
11	None	ENSG00000254573	ENST00000532652	lincRNA	KNOWN	None	None	None	None	134433290	134442950	1	None	None
12	None	ENSG00000256346	ENST00000546187	processed_pseudogene	KNOWN	None	None	None	None	14322680	14322811	1	None	None
17	GPR142	ENSG00000257008	ENST00000582579	nonsense_mediated_decay	KNOWN	None	20088	306	101	72363546	72368761	1	None	PGR2
17	GPR142	ENSG00000257008	ENST00000585308	nonsense_mediated_decay	KNOWN	None	20088	396	131	72363597	72367979	1	None	PGR2
17	GPR142	ENSG00000257008	ENST00000335666	protein_coding	KNOWN	CCDS11698	20088	1389	462	72363597	72368739	1	None	PGR2
9	None	ENSG00000237385	ENST00000443716	antisense	KNOWN	None	None	None	None	96192624	96193581	-1	None	None
8	None	ENSG00000233609	ENST00000520582	processed_transcript	KNOWN	None	None	None	None	8818710	8821298	1	None	None
8	None	ENSG00000233609	ENST00000519013	transcribed_processed_pseudogene	KNOWN	None	None	None	None	8819267	8819567	1	None	None
8	None	ENSG00000233609	ENST00000522289	processed_transcript	KNOWN	None	None	None	None	8819420	8836535	1	None	None
12	None	ENSG00000257557	ENST00000552885	antisense	KNOWN	None	None	None	None	80328681	80334448	1	None	None
12	NDUFA4L2	ENSG00000185633	ENST00000554503	protein_coding	KNOWN	CCDS8935	29836	264	87	57628686	57631121	-1	None	NUOMS, FLJ26118
12	NDUFA4L2	ENSG00000185633	ENST00000555173	retained_intron	KNOWN	None	29836	None	None	57628694	57630883	-1	None	NUOMS, FLJ26118
12	NDUFA4L2	ENSG00000185633	ENST00000556732	protein_coding	PUTATIVE	None	29836	282	93	57628863	57630875	-1	None	NUOMS, FLJ26118
12	NDUFA4L2	ENSG00000185633	ENST00000554688	retained_intron	KNOWN	None	29836	None	None	57629972	57630868	-1	None	NUOMS, FLJ26118
12	NDUFA4L2	ENSG00000185633	ENST00000556234	processed_transcript	PUTATIVE	None	29836	None	None	57631039	57634486	-1	None	NUOMS, FLJ26118
12	NDUFA4L2	ENSG00000185633	ENST00000557276	processed_transcript	PUTATIVE	None	29836	None	None	57633329	57634498	-1	None	NUOMS, FLJ26118
12	NDUFA4L2	ENSG00000185633	ENST00000393825	protein_coding	KNOWN	CCDS8935	29836	264	87	57628688	57634475	-1	None	NUOMS, FLJ26118
9	None	ENSG00000227603	ENST00000445280	antisense	KNOWN	None	None	None	None	96197614	96199403	-1	None	None
12	None	ENSG00000227760	ENST00000544546	processed_pseudogene	KNOWN	None	None	None	None	14344936	14345218	1	None	None
15	None	ENSG00000259468	ENST00000559867	antisense	KNOWN	None	None	None	None	34547487	34550033	1	None	None
3	None	ENSG00000200418	ENST00000363548	snoRNA	NOVEL	None	None	None	None	186504112	186504234	1	None	None
3	SNORA81	ENSG00000221420	ENST00000408493	snoRNA	KNOWN	None	32667	None	None	186504464	186504641	1	None	HBI-61
11	None	ENSG00000254786	ENST00000531997	unprocessed_pseudogene	KNOWN	None	None	None	None	58762912	58767162	-1	None	None
17	None	ENSG00000267394	ENST00000586560	antisense	KNOWN	None	None	None	None	42276250	42293933	1	None	None
3	PLCH1-AS2	ENSG00000242925	ENST00000472913	antisense	KNOWN	None	41232	None	None	155203592	155204910	1	None	None
8	FAM183CP	ENSG00000253279	ENST00000524059	lincRNA	KNOWN	None	27827	None	None	29779029	29810153	1	None	None
8	FAM183CP	ENSG00000253279	ENST00000521245	lincRNA	KNOWN	None	27827	None	None	29779335	29811240	1	None	None
12	None	ENSG00000199899	ENST00000363029	misc_RNA	NOVEL	None	None	None	None	113594570	113594666	-1	None	None
2	None	ENSG00000238341	ENST00000459010	snoRNA	NOVEL	None	None	None	None	122463543	122463633	-1	None	None
3	SNORA63	ENSG00000200320	ENST00000363450	snoRNA	KNOWN	None	10106	None	None	186505089	186505220	1	RNE3, RNU107	E3, E3-2
9	C9orf142	ENSG00000148362	ENST00000371620	protein_coding	KNOWN	CCDS7020	27849	615	204	139886870	139888428	1	None	None
9	C9orf142	ENSG00000148362	ENST00000468484	processed_transcript	KNOWN	None	27849	None	None	139886889	139887632	1	None	None
9	C9orf142	ENSG00000148362	ENST00000481187	processed_transcript	KNOWN	None	27849	None	None	139886894	139887864	1	None	None
9	C9orf142	ENSG00000148362	ENST00000483807	processed_transcript	KNOWN	None	27849	None	None	139886899	139888333	1	None	None
9	C9orf142	ENSG00000148362	ENST00000488678	processed_transcript	KNOWN	None	27849	None	None	139886915	139887850	1	None	None
9	C9orf142	ENSG00000148362	ENST00000493968	processed_transcript	KNOWN	None	27849	None	None	139886943	139888423	1	None	None
9	C9orf142	ENSG00000148362	ENST00000467845	processed_transcript	KNOWN	None	27849	None	None	139887092	139888427	1	None	None
9	C9orf142	ENSG00000148362	ENST00000492564	processed_transcript	KNOWN	None	27849	None	None	139887213	139888428	1	None	None
9	C9orf142	ENSG00000148362	ENST00000498095	processed_transcript	KNOWN	None	27849	None	None	139887309	139888436	1	None	None
9	C9orf142	ENSG00000148362	ENST00000463765	processed_transcript	KNOWN	None	27849	None	None	139887833	139888429	1	None	None
2	YPEL5	ENSG00000119801	ENST00000379520	protein_coding	KNOWN	CCDS1771	18329	366	121	30369807	30383399	1	None	CGI-127
2	YPEL5	ENSG00000119801	ENST00000379519	protein_coding	KNOWN	CCDS1771	18329	366	121	30369807	30383399	1	None	CGI-127
2	YPEL5	ENSG00000119801	ENST00000261353	protein_coding	KNOWN	CCDS1771	18329	366	121	30369827	30383399	1	None	CGI-127
2	YPEL5	ENSG00000119801	ENST00000490211	processed_transcript	KNOWN	None	18329	None	None	30369829	30379653	1	None	CGI-127
2	YPEL5	ENSG00000119801	ENST00000402003	protein_coding	KNOWN	CCDS1771	18329	366	121	30369873	30383399	1	None	CGI-127
2	YPEL5	ENSG00000119801	ENST00000402708	protein_coding	KNOWN	CCDS1771	18329	366	121	30370382	30382417	1	None	CGI-127
2	YPEL5	ENSG00000119801	ENST00000482474	processed_transcript	KNOWN	None	18329	None	None	30370427	30371200	1	None	CGI-127
2	YPEL5	ENSG00000119801	ENST00000470120	processed_transcript	KNOWN	None	18329	None	None	30370818	30381832	1	None	CGI-127
2	YPEL5	ENSG00000119801	ENST00000492439	processed_transcript	KNOWN	None	18329	None	None	30370823	30381613	1	None	CGI-127
2	YPEL5	ENSG00000119801	ENST00000495673	processed_transcript	KNOWN	None	18329	None	None	30379244	30382004	1	None	CGI-127
9	USP20	ENSG00000136878	ENST00000491053	processed_transcript	KNOWN	None	12619	None	None	132596977	132614915	1	None	KIAA1003
9	USP20	ENSG00000136878	ENST00000494971	processed_transcript	KNOWN	None	12619	None	None	132597696	132620826	1	None	KIAA1003
9	USP20	ENSG00000136878	ENST00000372429	protein_coding	KNOWN	CCDS43892	12619	2745	914	132597725	132644107	1	None	KIAA1003
9	USP20	ENSG00000136878	ENST00000315480	protein_coding	KNOWN	CCDS43892	12619	2745	914	132597749	132644107	1	None	KIAA1003
9	USP20	ENSG00000136878	ENST00000358355	protein_coding	KNOWN	CCDS43892	12619	2745	914	132597757	132644107	1	None	KIAA1003
9	USP20	ENSG00000136878	ENST00000474895	processed_transcript	KNOWN	None	12619	None	None	132630601	132640716	1	None	KIAA1003
9	USP20	ENSG00000136878	ENST00000491731	processed_transcript	KNOWN	None	12619	None	None	132630646	132632431	1	None	KIAA1003
9	USP20	ENSG00000136878	ENST00000496927	processed_transcript	KNOWN	None	12619	None	None	132637876	132642797	1	None	KIAA1003
9	USP20	ENSG00000136878	ENST00000472108	processed_transcript	KNOWN	None	12619	None	None	132641652	132644107	1	None	KIAA1003
17	None	ENSG00000260793	ENST00000588279	antisense	KNOWN	None	None	None	None	42298769	42300182	1	None	None
17	None	ENSG00000260793	ENST00000563394	antisense	KNOWN	None	None	None	None	42299283	42301078	1	None	None
2	NPM1P32	ENSG00000213239	ENST00000412580	processed_pseudogene	KNOWN	None	45211	None	None	122466088	122466691	-1	None	None
12	None	ENSG00000271496	ENST00000604477	processed_pseudogene	KNOWN	None	None	None	None	80382794	80382998	-1	None	None
11	None	ENSG00000254989	ENST00000529417	lincRNA	KNOWN	None	None	None	None	134541320	134541918	-1	None	None
5	PSD2	ENSG00000146005	ENST00000274710	protein_coding	KNOWN	CCDS4216	19092	2316	771	139175406	139224051	1	None	DKFZp761B0514
12	RN7SL46P	ENSG00000266749	ENST00000578989	misc_RNA	KNOWN	None	46062	None	None	14366028	14366299	1	None	None
11	None	ENSG00000270179	ENST00000602900	sense_intronic	KNOWN	None	None	None	None	113239200	113239839	1	None	None
14	None	ENSG00000240513	ENST00000480072	processed_pseudogene	KNOWN	None	None	None	None	31288920	31289120	1	None	None
22	TAB1	ENSG00000100324	ENST00000216160	protein_coding	KNOWN	CCDS13993	18157	1515	504	39795746	39827887	1	MAP3K7IP1	None
22	TAB1	ENSG00000100324	ENST00000473613	retained_intron	KNOWN	None	18157	None	None	39795783	39812854	1	MAP3K7IP1	None
22	TAB1	ENSG00000100324	ENST00000331454	protein_coding	NOVEL	CCDS13992	18157	1389	462	39795789	39832828	1	MAP3K7IP1	None
22	TAB1	ENSG00000100324	ENST00000461775	retained_intron	KNOWN	None	18157	None	None	39810735	39812801	1	MAP3K7IP1	None
22	TAB1	ENSG00000100324	ENST00000490819	retained_intron	KNOWN	None	18157	None	None	39812749	39813821	1	MAP3K7IP1	None
22	TAB1	ENSG00000100324	ENST00000473491	retained_intron	KNOWN	None	18157	None	None	39817740	39824139	1	MAP3K7IP1	None
22	TAB1	ENSG00000100324	ENST00000488859	processed_transcript	KNOWN	None	18157	None	None	39828436	39833065	1	MAP3K7IP1	None
8	None	ENSG00000253553	ENST00000523254	antisense	KNOWN	None	None	None	None	89339065	89554980	1	None	None
8	None	ENSG00000253553	ENST00000520849	antisense	KNOWN	None	None	None	None	89340073	89341696	1	None	None
8	None	ENSG00000253553	ENST00000521433	antisense	KNOWN	None	None	None	None	89340073	89721769	1	None	None
8	None	ENSG00000253553	ENST00000520312	antisense	KNOWN	None	None	None	None	89554833	89721956	1	None	None
8	None	ENSG00000253553	ENST00000518631	antisense	KNOWN	None	None	None	None	89554846	89721920	1	None	None
8	None	ENSG00000253553	ENST00000521936	antisense	KNOWN	None	None	None	None	89712520	89749363	1	None	None
12	None	ENSG00000256084	ENST00000538329	lincRNA	KNOWN	None	None	None	None	14369524	14374231	1	None	None
12	None	ENSG00000233796	ENST00000417436	pseudogene	NOVEL	None	None	None	None	113596556	113596917	1	None	None
17	SHC1P2	ENSG00000267691	ENST00000589195	processed_pseudogene	KNOWN	None	10842	None	None	42306128	42307596	-1	SHCL1	None
14	None	ENSG00000258734	ENST00000555790	processed_pseudogene	KNOWN	None	None	None	None	59294397	59294894	-1	None	None
X	None	ENSG00000181511	ENST00000427955	processed_pseudogene	KNOWN	None	None	None	None	119866948	119867250	1	None	None
12	None	ENSG00000257252	ENST00000552835	antisense	KNOWN	None	None	None	None	93710911	93771492	-1	None	None
12	None	ENSG00000257252	ENST00000549806	antisense	KNOWN	None	None	None	None	93721772	93771484	-1	None	None
12	None	ENSG00000257252	ENST00000548890	antisense	KNOWN	None	None	None	None	93721803	93771512	-1	None	None
11	GLYATL1P4	ENSG00000254399	ENST00000529326	unprocessed_pseudogene	KNOWN	None	37864	None	None	58810210	58818444	1	None	None
3	RPL6P7	ENSG00000239212	ENST00000488873	processed_pseudogene	KNOWN	None	35801	None	None	155375549	155376401	1	None	None
3	SNORA4	ENSG00000263776	ENST00000584302	snoRNA	KNOWN	None	32587	None	None	186505401	186505538	1	None	ACA4
X	FOXN3P1	ENSG00000176318	ENST00000325117	processed_pseudogene	KNOWN	None	43882	None	None	101801662	101803141	-1	None	None
17	RN7SL507P	ENSG00000239702	ENST00000474076	misc_RNA	KNOWN	None	46523	None	None	42368226	42368519	-1	None	None
12	None	ENSG00000239473	ENST00000488396	processed_pseudogene	KNOWN	None	None	None	None	80422673	80423411	1	None	None
2	ACOXL	ENSG00000153093	ENST00000389811	protein_coding	NOVEL	None	25621	1644	547	111490150	111851921	1	None	FLJ11042
2	ACOXL	ENSG00000153093	ENST00000439055	protein_coding	KNOWN	CCDS46389	25621	1743	580	111490150	111875799	1	None	FLJ11042
2	ACOXL	ENSG00000153093	ENST00000340561	protein_coding	KNOWN	None	25621	840	279	111490211	111645594	1	None	FLJ11042
2	ACOXL	ENSG00000153093	ENST00000448863	protein_coding	KNOWN	None	25621	210	69	111490432	111551277	1	None	FLJ11042
2	ACOXL	ENSG00000153093	ENST00000461340	processed_transcript	KNOWN	None	25621	None	None	111551646	111553758	1	None	FLJ11042
2	ACOXL	ENSG00000153093	ENST00000417074	protein_coding	NOVEL	None	25621	1068	355	111556617	111851800	1	None	FLJ11042
2	ACOXL	ENSG00000153093	ENST00000433706	protein_coding	PUTATIVE	None	25621	483	160	111562896	111753486	1	None	FLJ11042
2	ACOXL	ENSG00000153093	ENST00000443586	nonsense_mediated_decay	KNOWN	None	25621	321	106	111721201	111858828	1	None	FLJ11042
2	ACOXL	ENSG00000153093	ENST00000441974	protein_coding	PUTATIVE	None	25621	282	93	111744775	111875269	1	None	FLJ11042
2	ACOXL	ENSG00000153093	ENST00000496981	processed_transcript	PUTATIVE	None	25621	None	None	111753534	111775650	1	None	FLJ11042
14	None	ENSG00000213867	ENST00000468034	processed_pseudogene	KNOWN	None	None	None	None	31290625	31291049	1	None	None
19	None	ENSG00000267018	ENST00000589698	lincRNA	KNOWN	None	None	None	None	56207681	56208795	1	None	None
11	None	ENSG00000255344	ENST00000529922	lincRNA	KNOWN	None	None	None	None	134584436	134585816	1	None	None
15	None	ENSG00000207091	ENST00000384363	misc_RNA	NOVEL	None	None	None	None	34606929	34607029	1	None	None
17	None	ENSG00000267750	ENST00000588097	processed_transcript	KNOWN	None	None	None	None	42376942	42392683	-1	None	None
17	None	ENSG00000267750	ENST00000586388	processed_transcript	KNOWN	None	None	None	None	42379885	42385761	-1	None	None
19	None	ENSG00000203305	ENST00000366135	pseudogene	NOVEL	None	None	None	None	56208088	56208594	1	None	None
3	None	ENSG00000241307	ENST00000469035	processed_pseudogene	KNOWN	None	None	None	None	155478406	155479006	1	None	None
12	None	ENSG00000201208	ENST00000364338	misc_RNA	NOVEL	None	None	None	None	113616228	113616324	-1	None	None
12	ANO4	ENSG00000151572	ENST00000549155	nonsense_mediated_decay	KNOWN	None	23837	573	190	101111304	101413902	1	TMEM16D	FLJ34221, FLJ34272, FLJ35277
12	ANO4	ENSG00000151572	ENST00000551148	processed_transcript	PUTATIVE	None	23837	None	None	101188374	101295459	1	TMEM16D	FLJ34221, FLJ34272, FLJ35277
12	ANO4	ENSG00000151572	ENST00000546991	protein_coding	KNOWN	None	23837	33	10	101188556	101295596	1	TMEM16D	FLJ34221, FLJ34272, FLJ35277
12	ANO4	ENSG00000151572	ENST00000392979	protein_coding	KNOWN	CCDS31884	23837	2763	920	101188585	101522419	1	TMEM16D	FLJ34221, FLJ34272, FLJ35277
12	ANO4	ENSG00000151572	ENST00000392977	protein_coding	KNOWN	None	23837	2868	955	101188736	101522065	1	TMEM16D	FLJ34221, FLJ34272, FLJ35277
12	ANO4	ENSG00000151572	ENST00000549234	processed_transcript	KNOWN	None	23837	None	None	101380897	101436159	1	TMEM16D	FLJ34221, FLJ34272, FLJ35277
12	ANO4	ENSG00000151572	ENST00000548940	processed_transcript	KNOWN	None	23837	None	None	101436158	101480591	1	TMEM16D	FLJ34221, FLJ34272, FLJ35277
12	ANO4	ENSG00000151572	ENST00000550015	protein_coding	KNOWN	None	23837	1428	475	101441766	101522405	1	TMEM16D	FLJ34221, FLJ34272, FLJ35277
12	ANO4	ENSG00000151572	ENST00000538618	protein_coding	KNOWN	None	23837	1071	356	101111304	101413902	1	TMEM16D	FLJ34221, FLJ34272, FLJ35277
12	ANO4	ENSG00000151572	ENST00000299222	protein_coding	KNOWN	None	23837	1428	475	101188735	101522114	1	TMEM16D	FLJ34221, FLJ34272, FLJ35277
X	PA2G4P1	ENSG00000237828	ENST00000442248	processed_pseudogene	KNOWN	None	8551	None	None	120002465	120003661	-1	PA2G4P	None
12	MRPS18CP4	ENSG00000255763	ENST00000535821	processed_pseudogene	KNOWN	None	29745	None	None	14390025	14390255	1	None	None
2	None	ENSG00000270798	ENST00000603900	processed_pseudogene	KNOWN	None	None	None	None	122501055	122503497	-1	None	None
3	None	ENSG00000231724	ENST00000434957	antisense	KNOWN	None	None	None	None	186525481	186535910	1	None	None
11	TMPRSS4	ENSG00000137648	ENST00000519126	retained_intron	KNOWN	None	11878	None	None	117947753	117966115	1	None	TMPRSS3, MT-SP2
11	TMPRSS4	ENSG00000137648	ENST00000534111	protein_coding	KNOWN	CCDS53716	11878	1308	435	117947753	117992605	1	None	TMPRSS3, MT-SP2
11	TMPRSS4	ENSG00000137648	ENST00000519236	nonsense_mediated_decay	KNOWN	None	11878	1008	335	117947786	117989165	1	None	TMPRSS3, MT-SP2
11	TMPRSS4	ENSG00000137648	ENST00000522307	protein_coding	NOVEL	None	11878	873	290	117947791	117988806	1	None	TMPRSS3, MT-SP2
11	TMPRSS4	ENSG00000137648	ENST00000523251	protein_coding	NOVEL	CCDS53717	11878	1194	397	117947792	117988897	1	None	TMPRSS3, MT-SP2
11	TMPRSS4	ENSG00000137648	ENST00000517483	nonsense_mediated_decay	KNOWN	None	11878	180	59	117947793	117989159	1	None	TMPRSS3, MT-SP2
11	TMPRSS4	ENSG00000137648	ENST00000437212	protein_coding	KNOWN	CCDS31684	11878	1314	437	117947804	117989174	1	None	TMPRSS3, MT-SP2
11	TMPRSS4	ENSG00000137648	ENST00000522824	protein_coding	KNOWN	CCDS44743	11878	1299	432	117947809	117989172	1	None	TMPRSS3, MT-SP2
11	TMPRSS4	ENSG00000137648	ENST00000522151	protein_coding	NOVEL	None	11878	519	172	117947845	117982550	1	None	TMPRSS3, MT-SP2
11	TMPRSS4	ENSG00000137648	ENST00000520063	retained_intron	KNOWN	None	11878	None	None	117947888	117969886	1	None	TMPRSS3, MT-SP2
11	TMPRSS4	ENSG00000137648	ENST00000522462	retained_intron	KNOWN	None	11878	None	None	117965536	117978591	1	None	TMPRSS3, MT-SP2
11	TMPRSS4	ENSG00000137648	ENST00000517544	protein_coding	PUTATIVE	None	11878	445	147	117969758	117978938	1	None	TMPRSS3, MT-SP2
11	TMPRSS4	ENSG00000137648	ENST00000519813	retained_intron	KNOWN	None	11878	None	None	117973655	117979582	1	None	TMPRSS3, MT-SP2
11	TMPRSS4	ENSG00000137648	ENST00000528118	retained_intron	KNOWN	None	11878	None	None	117976282	117985934	1	None	TMPRSS3, MT-SP2
11	TMPRSS4	ENSG00000137648	ENST00000518413	processed_transcript	KNOWN	None	11878	None	None	117982586	117988870	1	None	TMPRSS3, MT-SP2
11	TMPRSS4	ENSG00000137648	ENST00000518610	retained_intron	KNOWN	None	11878	None	None	117983991	117985762	1	None	TMPRSS3, MT-SP2
11	TMPRSS4	ENSG00000137648	ENST00000524218	protein_coding	NOVEL	None	11878	188	61	117984007	117989165	1	None	TMPRSS3, MT-SP2
11	TMPRSS4	ENSG00000137648	ENST00000523770	retained_intron	KNOWN	None	11878	None	None	117985586	117986275	1	None	TMPRSS3, MT-SP2
11	None	ENSG00000256757	ENST00000546284	antisense	KNOWN	None	None	None	None	113276043	113282839	1	None	None
19	None	ENSG00000267689	ENST00000590920	processed_pseudogene	KNOWN	None	None	None	None	56217344	56217538	-1	None	None
6	NHLRC1	ENSG00000187566	ENST00000340650	protein_coding	KNOWN	CCDS4542	21576	1188	395	18120718	18122851	-1	None	bA204B7.2, EPM2B, malin
12	RNU6-491P	ENSG00000251908	ENST00000516099	snRNA	KNOWN	None	47454	None	None	14403166	14403275	-1	None	None
17	None	ENSG00000221496	ENST00000408569	snoRNA	NOVEL	None	None	None	None	42381382	42381570	1	None	None
12	None	ENSG00000257286	ENST00000552525	antisense	KNOWN	None	None	None	None	113623429	113629966	-1	None	None
19	None	ENSG00000268593	ENST00000600582	processed_transcript	KNOWN	None	None	None	None	56218707	56219113	1	None	None
19	None	ENSG00000268593	ENST00000597650	transcribed_processed_pseudogene	KNOWN	None	None	None	None	56218916	56219221	1	None	None
19	None	ENSG00000268593	ENST00000596381	processed_pseudogene	KNOWN	None	None	None	None	56218869	56219330	1	None	None
16	VAC14-AS1	ENSG00000214353	ENST00000562507	antisense	KNOWN	None	48605	None	None	70789001	70807154	1	None	None
16	VAC14-AS1	ENSG00000214353	ENST00000398177	antisense	KNOWN	None	48605	None	None	70789036	70807145	1	None	None
17	RNU6-453P	ENSG00000252628	ENST00000516819	snRNA	KNOWN	None	47416	None	None	42384456	42384541	1	None	None
2	None	ENSG00000224655	ENST00000438722	lincRNA	KNOWN	None	None	None	None	122548020	122554278	1	None	None
2	None	ENSG00000224655	ENST00000422238	lincRNA	KNOWN	None	None	None	None	122548036	122552616	1	None	None
2	None	ENSG00000224655	ENST00000435895	lincRNA	KNOWN	None	None	None	None	122548041	122553932	1	None	None
2	None	ENSG00000224655	ENST00000422649	lincRNA	KNOWN	None	None	None	None	122548068	122552495	1	None	None
11	GLYATL1P3	ENSG00000255151	ENST00000527482	unprocessed_pseudogene	KNOWN	None	37865	None	None	58853780	58862259	1	None	None
14	LINC00226	ENSG00000229084	ENST00000458560	lincRNA	KNOWN	None	20168	None	None	106744269	106744926	1	C14orf97, NCRNA00226	None
14	LINC00226	ENSG00000229084	ENST00000415154	lincRNA	KNOWN	None	20168	None	None	106744315	106744966	1	C14orf97, NCRNA00226	None
14	LINC00226	ENSG00000229084	ENST00000598484	lincRNA	KNOWN	None	20168	None	None	106744514	106744975	1	C14orf97, NCRNA00226	None
14	None	ENSG00000258525	ENST00000555108	antisense	KNOWN	None	None	None	None	31345385	31359014	-1	None	None
14	None	ENSG00000258525	ENST00000555421	antisense	KNOWN	None	None	None	None	31353671	31354394	-1	None	None
14	None	ENSG00000258525	ENST00000556786	antisense	KNOWN	None	None	None	None	31355389	31358879	-1	None	None
14	None	ENSG00000258525	ENST00000468444	antisense	KNOWN	None	None	None	None	31355435	31358897	-1	None	None
12	RNU7-106P	ENSG00000238842	ENST00000459514	snRNA	KNOWN	None	45640	None	None	80462471	80462537	-1	None	None
1	RNU6-1100P	ENSG00000222623	ENST00000410691	snRNA	KNOWN	None	48063	None	None	157784	157887	-1	None	None
17	None	ENSG00000267211	ENST00000588260	lincRNA	KNOWN	None	None	None	None	42405981	42408830	1	None	None
20	RPS11P1	ENSG00000235544	ENST00000451072	processed_pseudogene	KNOWN	None	16553	None	None	11326031	11326503	-1	None	dJ1060K6.1
16	None	ENSG00000260126	ENST00000567465	lincRNA	KNOWN	None	None	None	None	16752084	16757992	1	None	None
11	None	ENSG00000251226	ENST00000513405	lincRNA	KNOWN	None	None	None	None	134605490	134633704	1	None	None
3	SETP14	ENSG00000240489	ENST00000497538	processed_pseudogene	KNOWN	None	42933	None	None	155705093	155705965	1	None	None
17	RPL7L1P5	ENSG00000267634	ENST00000590816	processed_pseudogene	KNOWN	None	39487	None	None	42442382	42443119	-1	None	None
16	None	ENSG00000261748	ENST00000564217	processed_pseudogene	KNOWN	None	None	None	None	17046359	17047325	-1	None	None
16	USB1	ENSG00000103005	ENST00000561743	protein_coding	PUTATIVE	None	25792	645	214	58033450	58054446	1	C16orf57	FLJ13154, HVSL1, Mpn1
16	USB1	ENSG00000103005	ENST00000219281	protein_coding	KNOWN	CCDS10791	25792	798	265	58035277	58055522	1	C16orf57	FLJ13154, HVSL1, Mpn1
16	USB1	ENSG00000103005	ENST00000539737	protein_coding	NOVEL	CCDS55998	25792	744	247	58035309	58054538	1	C16orf57	FLJ13154, HVSL1, Mpn1
16	USB1	ENSG00000103005	ENST00000423271	protein_coding	PUTATIVE	CCDS55997	25792	561	186	58035311	58045612	1	C16orf57	FLJ13154, HVSL1, Mpn1
16	USB1	ENSG00000103005	ENST00000561568	protein_coding	PUTATIVE	None	25792	548	181	58035311	58051321	1	C16orf57	FLJ13154, HVSL1, Mpn1
16	USB1	ENSG00000103005	ENST00000565662	processed_transcript	KNOWN	None	25792	None	None	58035311	58052940	1	C16orf57	FLJ13154, HVSL1, Mpn1
16	USB1	ENSG00000103005	ENST00000566292	retained_intron	KNOWN	None	25792	None	None	58035320	58044074	1	C16orf57	FLJ13154, HVSL1, Mpn1
16	USB1	ENSG00000103005	ENST00000569252	processed_transcript	KNOWN	None	25792	None	None	58035320	58048214	1	C16orf57	FLJ13154, HVSL1, Mpn1
16	USB1	ENSG00000103005	ENST00000562534	processed_transcript	KNOWN	None	25792	None	None	58035320	58051344	1	C16orf57	FLJ13154, HVSL1, Mpn1
16	USB1	ENSG00000103005	ENST00000568848	processed_transcript	KNOWN	None	25792	None	None	58035323	58045379	1	C16orf57	FLJ13154, HVSL1, Mpn1
16	USB1	ENSG00000103005	ENST00000563149	protein_coding	PUTATIVE	None	25792	492	163	58035324	58047462	1	C16orf57	FLJ13154, HVSL1, Mpn1
16	USB1	ENSG00000103005	ENST00000564387	nonsense_mediated_decay	KNOWN	None	25792	288	95	58035325	58051284	1	C16orf57	FLJ13154, HVSL1, Mpn1
16	USB1	ENSG00000103005	ENST00000563207	processed_transcript	KNOWN	None	25792	None	None	58035328	58051322	1	C16orf57	FLJ13154, HVSL1, Mpn1
16	USB1	ENSG00000103005	ENST00000565151	retained_intron	KNOWN	None	25792	None	None	58047533	58052957	1	C16orf57	FLJ13154, HVSL1, Mpn1
16	USB1	ENSG00000103005	ENST00000566082	retained_intron	KNOWN	None	25792	None	None	58049017	58055521	1	C16orf57	FLJ13154, HVSL1, Mpn1
19	ZNF446	ENSG00000083838	ENST00000596341	protein_coding	NOVEL	None	21036	1200	399	58985384	58992595	1	None	ZKSCAN20, FLJ20626, ZSCAN52
19	ZNF446	ENSG00000083838	ENST00000599913	processed_transcript	KNOWN	None	21036	None	None	58986207	58986803	1	None	ZKSCAN20, FLJ20626, ZSCAN52
19	ZNF446	ENSG00000083838	ENST00000594468	retained_intron	KNOWN	None	21036	None	None	58987513	58989491	1	None	ZKSCAN20, FLJ20626, ZSCAN52
19	ZNF446	ENSG00000083838	ENST00000600013	protein_coding	KNOWN	None	21036	423	140	58987523	58989084	1	None	ZKSCAN20, FLJ20626, ZSCAN52
19	ZNF446	ENSG00000083838	ENST00000594369	protein_coding	KNOWN	CCDS12982	21036	1353	450	58987531	58992597	1	None	ZKSCAN20, FLJ20626, ZSCAN52
19	ZNF446	ENSG00000083838	ENST00000335841	protein_coding	PUTATIVE	None	21036	1011	336	58987795	58992597	1	None	ZKSCAN20, FLJ20626, ZSCAN52
19	ZNF446	ENSG00000083838	ENST00000391694	retained_intron	KNOWN	None	21036	None	None	58987817	58992597	1	None	ZKSCAN20, FLJ20626, ZSCAN52
17	RN7SL258P	ENSG00000240589	ENST00000478664	misc_RNA	KNOWN	None	46274	None	None	42486429	42486726	-1	None	None
12	None	ENSG00000230291	ENST00000492623	processed_pseudogene	KNOWN	None	None	None	None	80496679	80497113	-1	None	None
12	None	ENSG00000230291	ENST00000593589	processed_pseudogene	KNOWN	None	None	None	None	80496676	80497113	-1	None	None
12	None	ENSG00000239073	ENST00000459521	snoRNA	NOVEL	None	None	None	None	93744392	93744492	1	None	None
17	None	ENSG00000271222	ENST00000604227	processed_pseudogene	KNOWN	None	None	None	None	42673714	42674712	1	None	None
2	UGT1A7	ENSG00000244122	ENST00000373426	protein_coding	KNOWN	CCDS2506	12539	1593	530	234590584	234681945	1	None	UGT1G
2	UGT1A7	ENSG00000244122	ENST00000485022	protein_coding	PUTATIVE	None	12539	473	156	234591014	234600993	1	None	UGT1G
14	RAB42P1	ENSG00000230997	ENST00000555078	processed_pseudogene	KNOWN	None	19799	None	None	90358472	90358787	1	RAB42, RAB42P	None
14	RAB42P1	ENSG00000230997	ENST00000389290	processed_pseudogene	KNOWN	None	19799	None	None	90358132	90358788	1	RAB42, RAB42P	None
X	NXF4	ENSG00000196970	ENST00000360035	processed_transcript	KNOWN	None	8074	None	None	101804893	101826623	1	None	None
X	NXF4	ENSG00000196970	ENST00000416098	transcribed_unprocessed_pseudogene	KNOWN	None	8074	None	None	101816863	101826393	1	None	None
19	None	ENSG00000267865	ENST00000596293	sense_intronic	KNOWN	None	None	None	None	56220176	56220486	1	None	None
1	None	ENSG00000241599	ENST00000496488	lincRNA	KNOWN	None	None	None	None	160446	161525	1	None	None
17	None	ENSG00000267384	ENST00000592909	processed_pseudogene	KNOWN	None	None	None	None	42722779	42722955	1	None	None
17	None	ENSG00000267384	ENST00000596676	processed_pseudogene	KNOWN	None	None	None	None	42722779	42722958	1	None	None
12	GNAI2P1	ENSG00000255749	ENST00000541815	processed_pseudogene	KNOWN	None	4386	None	None	14407846	14408160	1	GNAI2A, GNAI2L	None
3	None	ENSG00000232233	ENST00000419745	lincRNA	KNOWN	None	None	None	None	186528669	186543310	-1	None	None
19	None	ENSG00000269574	ENST00000597680	sense_intronic	KNOWN	None	None	None	None	56220529	56220899	1	None	None
17	MAP3K3	ENSG00000198909	ENST00000579585	protein_coding	KNOWN	CCDS32701	6855	1974	657	61699775	61772449	1	MEKK3	MAPKKK3
17	MAP3K3	ENSG00000198909	ENST00000584573	protein_coding	NOVEL	None	6855	1962	653	61699785	61771320	1	MEKK3	MAPKKK3
17	MAP3K3	ENSG00000198909	ENST00000361733	protein_coding	KNOWN	CCDS32702	6855	1881	626	61699800	61772465	1	MEKK3	MAPKKK3
17	MAP3K3	ENSG00000198909	ENST00000361357	protein_coding	KNOWN	CCDS32701	6855	1974	657	61699802	61773663	1	MEKK3	MAPKKK3
17	MAP3K3	ENSG00000198909	ENST00000577395	protein_coding	NOVEL	None	6855	1869	622	61700070	61771234	1	MEKK3	MAPKKK3
17	MAP3K3	ENSG00000198909	ENST00000577597	nonsense_mediated_decay	KNOWN	None	6855	171	56	61700070	61771234	1	MEKK3	MAPKKK3
17	MAP3K3	ENSG00000198909	ENST00000585302	nonsense_mediated_decay	KNOWN	None	6855	95	30	61744346	61766228	1	MEKK3	MAPKKK3
17	MAP3K3	ENSG00000198909	ENST00000578622	retained_intron	KNOWN	None	6855	None	None	61765559	61766974	1	MEKK3	MAPKKK3
17	MAP3K3	ENSG00000198909	ENST00000577784	processed_transcript	KNOWN	None	6855	None	None	61765889	61767052	1	MEKK3	MAPKKK3
17	MAP3K3	ENSG00000198909	ENST00000577839	retained_intron	KNOWN	None	6855	None	None	61766102	61767357	1	MEKK3	MAPKKK3
17	MAP3K3	ENSG00000198909	ENST00000581732	nonsense_mediated_decay	KNOWN	None	6855	128	41	61767690	61769727	1	MEKK3	MAPKKK3
12	None	ENSG00000200011	ENST00000363141	misc_RNA	NOVEL	None	None	None	None	93854501	93854602	-1	None	None
8	None	ENSG00000254204	ENST00000521930	lincRNA	KNOWN	None	None	None	None	54427730	54428465	1	None	None
16	None	ENSG00000262890	ENST00000574178	lincRNA	KNOWN	None	None	None	None	70835986	70836743	-1	None	None
5	None	ENSG00000263840	ENST00000579104	miRNA	NOVEL	None	None	None	None	135136918	135137003	-1	None	None
12	RN7SL676P	ENSG00000265119	ENST00000584725	misc_RNA	KNOWN	None	46692	None	None	14464277	14464549	1	None	None
2	None	ENSG00000237856	ENST00000435441	lincRNA	KNOWN	None	None	None	None	123822897	123825298	1	None	None
17	None	ENSG00000266979	ENST00000589259	lincRNA	KNOWN	None	None	None	None	42723732	42727717	-1	None	None
5	MIR5692C1	ENSG00000265924	ENST00000585309	miRNA	KNOWN	None	43506	None	None	135138674	135138764	-1	None	hsa-mir-5692c-1
8	None	ENSG00000237807	ENST00000426023	lincRNA	KNOWN	None	None	None	None	54427731	54436491	-1	None	None
11	MIR4301	ENSG00000265140	ENST00000577203	miRNA	KNOWN	None	38323	None	None	113320745	113320810	-1	None	hsa-mir-4301
16	ENPP7P13	ENSG00000261580	ENST00000567922	processed_pseudogene	KNOWN	None	48696	None	None	33571888	33572146	1	None	None
12	RN7SL737P	ENSG00000243015	ENST00000490246	misc_RNA	KNOWN	None	46753	None	None	93903263	93903544	1	None	None
15	SNORD64	ENSG00000270704	ENST00000605533	sense_intronic	KNOWN	None	32725	None	None	25230011	25230320	1	None	HBII-13
15	SNORD64	ENSG00000270704	ENST00000386683	snoRNA	KNOWN	None	32725	None	None	25230247	25230313	1	None	HBII-13
2	None	ENSG00000232740	ENST00000432894	lincRNA	KNOWN	None	None	None	None	123823727	123831057	-1	None	None
16	None	ENSG00000260675	ENST00000567872	unprocessed_pseudogene	KNOWN	None	None	None	None	17188208	17188784	-1	None	None
15	None	ENSG00000269810	ENST00000595415	protein_coding	KNOWN	None	None	132	43	100038447	100038578	-1	None	None
12	RPL30P11	ENSG00000244573	ENST00000598995	processed_transcript	KNOWN	None	36260	None	None	14509776	14510085	-1	None	None
12	RPL30P11	ENSG00000244573	ENST00000495304	transcribed_processed_pseudogene	KNOWN	None	36260	None	None	14509799	14510451	-1	None	None
12	RPL30P11	ENSG00000244573	ENST00000509114	processed_transcript	KNOWN	None	36260	None	None	14510230	14518437	-1	None	None
12	None	ENSG00000257935	ENST00000551357	antisense	KNOWN	None	None	None	None	113909808	113918429	1	None	None
3	None	ENSG00000174930	ENST00000449668	unitary_pseudogene	KNOWN	None	None	None	None	155737435	155755436	1	None	None
3	None	ENSG00000174930	ENST00000312652	unitary_pseudogene	KNOWN	None	None	None	None	155754378	155755475	1	None	None
X	EIF4A2P4	ENSG00000224781	ENST00000458691	processed_pseudogene	KNOWN	None	45101	None	None	52861754	52862949	-1	None	None
16	RNU6ATAC25P	ENSG00000221725	ENST00000408798	snRNA	KNOWN	None	46924	None	None	70886601	70886717	1	None	None
8	RN7SL474P	ENSG00000264092	ENST00000583485	misc_RNA	KNOWN	None	46490	None	None	16720709	16721005	-1	None	None
14	None	ENSG00000258544	ENST00000555594	processed_pseudogene	KNOWN	None	None	None	None	90574019	90574339	1	None	None
2	None	ENSG00000226708	ENST00000451749	lincRNA	KNOWN	None	None	None	None	124200842	124202021	-1	None	None
16	None	ENSG00000260308	ENST00000563187	processed_pseudogene	KNOWN	None	None	None	None	33573502	33573715	1	None	None
16	None	ENSG00000251700	ENST00000515891	snoRNA	NOVEL	None	None	None	None	70902110	70902171	1	None	None
1	ITLN1	ENSG00000179914	ENST00000326245	protein_coding	KNOWN	CCDS1211	18259	942	313	160846329	160854960	-1	None	ITLN, FLJ20022, LFR, HL-1, hIntL
1	ITLN1	ENSG00000179914	ENST00000487531	processed_transcript	KNOWN	None	18259	None	None	160849102	160851311	-1	None	ITLN, FLJ20022, LFR, HL-1, hIntL
1	ITLN1	ENSG00000179914	ENST00000464077	processed_transcript	KNOWN	None	18259	None	None	160850944	160852085	-1	None	ITLN, FLJ20022, LFR, HL-1, hIntL
5	None	ENSG00000264039	ENST00000581644	miRNA	NOVEL	None	None	None	None	135140194	135140282	-1	None	None
X	None	ENSG00000271346	ENST00000604718	processed_pseudogene	KNOWN	None	None	None	None	120010406	120010659	1	None	None
12	None	ENSG00000258271	ENST00000548858	processed_pseudogene	KNOWN	None	None	None	None	93923336	93923765	-1	None	None
16	None	ENSG00000223316	ENST00000411384	miRNA	NOVEL	None	None	None	None	70907087	70907216	-1	None	None
5	None	ENSG00000250378	ENST00000506592	lincRNA	KNOWN	None	None	None	None	135148356	135162271	1	None	None
2	None	ENSG00000221689	ENST00000408762	miRNA	NOVEL	None	None	None	None	124439683	124439791	-1	None	None
HSCHR6_MHC_MCF	OR10C1	ENSG00000204689	ENST00000391549	protein_coding	KNOWN	None	8165	939	312	29406863	29408511	1	OR10C2	hs6M1-17, OR10C1P
HSCHR6_MHC_MCF	OR10C1	ENSG00000204689	ENST00000550017	protein_coding	KNOWN	None	8165	885	294	29384851	29408478	1	OR10C2	hs6M1-17, OR10C1P
16	None	ENSG00000261153	ENST00000566387	processed_pseudogene	KNOWN	None	None	None	None	33611245	33613234	1	None	None
3	None	ENSG00000231982	ENST00000448639	unprocessed_pseudogene	KNOWN	None	None	None	None	186544338	186545126	1	None	None
8	None	ENSG00000207244	ENST00000384515	snoRNA	NOVEL	None	None	None	None	8819085	8819218	1	None	None
20	None	ENSG00000271397	ENST00000603272	processed_pseudogene	KNOWN	None	None	None	None	11589084	11589696	-1	None	None
X	MIR503HG	ENSG00000223749	ENST00000440570	processed_transcript	KNOWN	None	28258	None	None	133677367	133680662	-1	None	MGC16121
X	MIR503HG	ENSG00000223749	ENST00000414769	processed_transcript	KNOWN	None	28258	None	None	133677473	133680660	-1	None	MGC16121
X	MIR503HG	ENSG00000223749	ENST00000445415	processed_transcript	KNOWN	None	28258	None	None	133677797	133678910	-1	None	MGC16121
X	MIR503HG	ENSG00000223749	ENST00000457876	processed_transcript	KNOWN	None	28258	None	None	133678456	133679768	-1	None	MGC16121
X	MIR503HG	ENSG00000223749	ENST00000441492	processed_transcript	KNOWN	None	28258	None	None	133678456	133680653	-1	None	MGC16121
X	MIR503HG	ENSG00000223749	ENST00000362227	miRNA	KNOWN	None	28258	None	None	133680644	133680741	-1	None	MGC16121
16	None	ENSG00000259833	ENST00000563968	antisense	KNOWN	None	None	None	None	71114769	71127570	1	None	None
16	None	ENSG00000259833	ENST00000568931	antisense	KNOWN	None	None	None	None	71114772	71124393	1	None	None
11	None	ENSG00000256091	ENST00000321235	processed_pseudogene	KNOWN	None	None	None	None	113582442	113583120	1	None	None
HG871_PATCH	None	ENSG00000265915	ENST00000579063	antisense	KNOWN	None	None	None	None	5037680	5039566	1	None	None
HG871_PATCH	None	ENSG00000265915	ENST00000581035	antisense	KNOWN	None	None	None	None	5038074	5039572	1	None	None
2	None	ENSG00000235640	ENST00000431242	processed_pseudogene	KNOWN	None	None	None	None	124452878	124454972	1	None	None
X	RPL6P30	ENSG00000215313	ENST00000443382	processed_pseudogene	KNOWN	None	36171	None	None	16216551	16217412	-1	None	None
16	None	ENSG00000260405	ENST00000566172	processed_pseudogene	KNOWN	None	None	None	None	17190059	17190278	-1	None	None
5	TMED7-TICAM2	ENSG00000251201	ENST00000282382	protein_coding	PUTATIVE	CCDS54887	33945	1215	404	114914339	114961858	-1	None	None
5	TMED7-TICAM2	ENSG00000251201	ENST00000333314	protein_coding	PUTATIVE	CCDS54888	33945	567	188	114914348	114961711	-1	None	None
5	TMED7-TICAM2	ENSG00000251201	ENST00000514548	retained_intron	KNOWN	None	33945	None	None	114916524	114952261	-1	None	None
8	None	ENSG00000240919	ENST00000471393	processed_pseudogene	KNOWN	None	None	None	None	54445468	54446264	1	None	None
11	None	ENSG00000255327	ENST00000528497	lincRNA	KNOWN	None	None	None	None	134820602	134821462	1	None	None
16	None	ENSG00000270924	ENST00000438532	unprocessed_pseudogene	KNOWN	None	None	None	None	33650943	33651111	-1	None	None
2	ZNF514	ENSG00000144026	ENST00000496060	retained_intron	KNOWN	None	25894	None	None	95813075	95821436	-1	None	FLJ14457
2	ZNF514	ENSG00000144026	ENST00000295208	protein_coding	KNOWN	CCDS2011	25894	1203	400	95813682	95825352	-1	None	FLJ14457
2	ZNF514	ENSG00000144026	ENST00000411425	protein_coding	KNOWN	CCDS2011	25894	1203	400	95814048	95825082	-1	None	FLJ14457
2	ZNF514	ENSG00000144026	ENST00000447814	protein_coding	PUTATIVE	None	25894	213	70	95818471	95831158	-1	None	FLJ14457
1	PFN1P2	ENSG00000203843	ENST00000476442	processed_pseudogene	KNOWN	None	24298	None	None	144612266	144612683	-1	C1orf152	COAS3
19	POLR2E	ENSG00000099817	ENST00000590060	processed_transcript	KNOWN	None	9192	None	None	1086594	1088642	-1	None	RPB5, RPABC1, XAP4, hRPB25, hsRPB5
19	POLR2E	ENSG00000099817	ENST00000586746	protein_coding	KNOWN	CCDS12056	9192	633	210	1086875	1095353	-1	None	RPB5, RPABC1, XAP4, hRPB25, hsRPB5
19	POLR2E	ENSG00000099817	ENST00000215587	protein_coding	KNOWN	CCDS12056	9192	633	210	1088147	1095598	-1	None	RPB5, RPABC1, XAP4, hRPB25, hsRPB5
19	POLR2E	ENSG00000099817	ENST00000586817	retained_intron	KNOWN	None	9192	None	None	1088166	1095374	-1	None	RPB5, RPABC1, XAP4, hRPB25, hsRPB5
19	POLR2E	ENSG00000099817	ENST00000591767	nonsense_mediated_decay	KNOWN	None	9192	207	68	1088320	1095335	-1	None	RPB5, RPABC1, XAP4, hRPB25, hsRPB5
19	POLR2E	ENSG00000099817	ENST00000586215	retained_intron	KNOWN	None	9192	None	None	1088423	1089929	-1	None	RPB5, RPABC1, XAP4, hRPB25, hsRPB5
19	POLR2E	ENSG00000099817	ENST00000585838	processed_transcript	KNOWN	None	9192	None	None	1088635	1092345	-1	None	RPB5, RPABC1, XAP4, hRPB25, hsRPB5
19	POLR2E	ENSG00000099817	ENST00000589737	nonsense_mediated_decay	KNOWN	None	9192	156	51	1088664	1095374	-1	None	RPB5, RPABC1, XAP4, hRPB25, hsRPB5
19	POLR2E	ENSG00000099817	ENST00000591709	retained_intron	KNOWN	None	9192	None	None	1091500	1095360	-1	None	RPB5, RPABC1, XAP4, hRPB25, hsRPB5
19	POLR2E	ENSG00000099817	ENST00000592597	retained_intron	KNOWN	None	9192	None	None	1093729	1095348	-1	None	RPB5, RPABC1, XAP4, hRPB25, hsRPB5
16	None	ENSG00000259798	ENST00000567556	antisense	KNOWN	None	None	None	None	71147255	71147903	1	None	None
22	None	ENSG00000240591	ENST00000464523	antisense	KNOWN	None	None	None	None	31850237	31860042	1	None	None
22	None	ENSG00000240591	ENST00000483736	antisense	KNOWN	None	None	None	None	31857650	31860190	1	None	None
HG871_PATCH	None	ENSG00000266815	ENST00000578019	unprocessed_pseudogene	KNOWN	None	None	None	None	5091004	5093862	1	None	None
4	HADH	ENSG00000138796	ENST00000403312	protein_coding	KNOWN	None	4799	1173	390	108910870	108956331	1	HADHSC	HADH1, SCHAD
4	HADH	ENSG00000138796	ENST00000309522	protein_coding	KNOWN	CCDS3678	4799	945	314	108910940	108956331	1	HADHSC	HADH1, SCHAD
4	HADH	ENSG00000138796	ENST00000511742	nonsense_mediated_decay	KNOWN	None	4799	159	52	108911011	108926490	1	HADHSC	HADH1, SCHAD
4	HADH	ENSG00000138796	ENST00000505878	protein_coding	NOVEL	None	4799	957	318	108911058	108956327	1	HADHSC	HADH1, SCHAD
4	HADH	ENSG00000138796	ENST00000507260	retained_intron	KNOWN	None	4799	None	None	108935626	108949090	1	HADHSC	HADH1, SCHAD
4	HADH	ENSG00000138796	ENST00000510728	processed_transcript	KNOWN	None	4799	None	None	108948668	108955648	1	HADHSC	HADH1, SCHAD
4	HADH	ENSG00000138796	ENST00000515462	retained_intron	KNOWN	None	4799	None	None	108948871	108955648	1	HADHSC	HADH1, SCHAD
4	HADH	ENSG00000138796	ENST00000514776	retained_intron	KNOWN	None	4799	None	None	108954156	108955648	1	HADHSC	HADH1, SCHAD
4	HADH	ENSG00000138796	ENST00000603302	protein_coding	KNOWN	CCDS54790	4799	996	331	108910870	108956330	1	HADHSC	HADH1, SCHAD
4	HADH	ENSG00000138796	ENST00000454409	protein_coding	KNOWN	None	4799	957	318	108925791	108956327	1	HADHSC	HADH1, SCHAD
X	None	ENSG00000252648	ENST00000516839	miRNA	NOVEL	None	None	None	None	16316513	16316597	1	None	None
5	None	ENSG00000254239	ENST00000522973	processed_transcript	PUTATIVE	None	None	None	None	135233326	135235939	1	None	None
16	None	ENSG00000261260	ENST00000567721	lincRNA	KNOWN	None	None	None	None	71335486	71336772	1	None	None
14	None	ENSG00000201351	ENST00000364481	misc_RNA	NOVEL	None	None	None	None	90643566	90643674	1	None	None
X	None	ENSG00000238623	ENST00000459470	miRNA	NOVEL	None	None	None	None	16393759	16393855	1	None	None
11	None	ENSG00000245571	ENST00000501817	lincRNA	KNOWN	None	None	None	None	58897606	58910228	-1	None	None
11	None	ENSG00000245571	ENST00000531708	lincRNA	KNOWN	None	None	None	None	58902763	58910488	-1	None	None
11	None	ENSG00000245571	ENST00000532845	lincRNA	KNOWN	None	None	None	None	58903398	58907588	-1	None	None
11	None	ENSG00000245571	ENST00000533220	lincRNA	KNOWN	None	None	None	None	58907188	58910244	-1	None	None
1	None	ENSG00000228463	ENST00000442116	lincRNA	KNOWN	None	None	None	None	227615	234484	-1	None	None
1	None	ENSG00000228463	ENST00000448958	lincRNA	KNOWN	None	None	None	None	227895	238558	-1	None	None
1	None	ENSG00000228463	ENST00000424587	lincRNA	KNOWN	None	None	None	None	236112	267253	-1	None	None
1	None	ENSG00000228463	ENST00000335577	lincRNA	KNOWN	None	None	None	None	257268	259121	-1	None	None
14	RPL21P11	ENSG00000242571	ENST00000461458	processed_pseudogene	KNOWN	None	19800	None	None	90833041	90833523	-1	None	None
12	RNU7-114P	ENSG00000238487	ENST00000459400	snRNA	KNOWN	None	45648	None	None	114040596	114040658	-1	None	None
1	None	ENSG00000215861	ENST00000313342	unprocessed_pseudogene	KNOWN	None	None	None	None	144676874	144679969	-1	None	None
5	None	ENSG00000253927	ENST00000523722	lincRNA	KNOWN	None	None	None	None	135236042	135253850	-1	None	None
22	None	ENSG00000224623	ENST00000439588	antisense	KNOWN	None	None	None	None	31857650	31860190	1	None	None
4	ARHGEF38	ENSG00000236699	ENST00000265154	protein_coding	KNOWN	CCDS3670	25968	660	219	106473777	106552837	1	None	FLJ20184
4	ARHGEF38	ENSG00000236699	ENST00000420470	protein_coding	PUTATIVE	CCDS56338	25968	2334	777	106473779	106602070	1	None	FLJ20184
4	ARHGEF38	ENSG00000236699	ENST00000506828	processed_transcript	KNOWN	None	25968	None	None	106474050	106566455	1	None	FLJ20184
4	ARHGEF38	ENSG00000236699	ENST00000508036	processed_transcript	KNOWN	None	25968	None	None	106553867	106588690	1	None	FLJ20184
4	ARHGEF38	ENSG00000236699	ENST00000503289	processed_transcript	KNOWN	None	25968	None	None	106599297	106616835	1	None	FLJ20184
4	ARHGEF38	ENSG00000236699	ENST00000510406	processed_transcript	KNOWN	None	25968	None	None	106616681	106629242	1	None	FLJ20184
4	ARHGEF38	ENSG00000236699	ENST00000508961	processed_transcript	KNOWN	None	25968	None	None	106621291	106629250	1	None	FLJ20184
15	LYSMD4	ENSG00000183060	ENST00000604213	processed_transcript	KNOWN	None	26571	None	None	100255902	100273596	-1	None	FLJ33008
15	LYSMD4	ENSG00000183060	ENST00000496108	processed_transcript	KNOWN	None	26571	None	None	100255906	100273649	-1	None	FLJ33008
15	LYSMD4	ENSG00000183060	ENST00000409796	protein_coding	KNOWN	None	26571	891	296	100267610	100273544	-1	None	FLJ33008
15	LYSMD4	ENSG00000183060	ENST00000344791	protein_coding	KNOWN	CCDS10381	26571	894	297	100267610	100273626	-1	None	FLJ33008
15	LYSMD4	ENSG00000183060	ENST00000479791	retained_intron	KNOWN	None	26571	None	None	100267614	100272214	-1	None	FLJ33008
15	LYSMD4	ENSG00000183060	ENST00000493256	retained_intron	KNOWN	None	26571	None	None	100269587	100273566	-1	None	FLJ33008
15	LYSMD4	ENSG00000183060	ENST00000484050	processed_transcript	KNOWN	None	26571	None	None	100269703	100273766	-1	None	FLJ33008
15	LYSMD4	ENSG00000183060	ENST00000450512	protein_coding	NOVEL	None	26571	370	122	100269837	100273642	-1	None	FLJ33008
15	LYSMD4	ENSG00000183060	ENST00000332728	protein_coding	KNOWN	None	26571	891	296	100267614	100273626	-1	None	FLJ33008
15	LYSMD4	ENSG00000183060	ENST00000545021	protein_coding	KNOWN	None	26571	513	170	100267614	100273592	-1	None	FLJ33008
HG7_PATCH	OR6W1P	ENSG00000260632	ENST00000562451	processed_transcript	KNOWN	None	15091	None	None	142822936	142824035	-1	OR6W1	sdolf
HG7_PATCH	OR6W1P	ENSG00000260632	ENST00000569255	transcribed_unprocessed_pseudogene	KNOWN	None	15091	None	None	142822936	142824191	-1	OR6W1	sdolf
20	PGAM3P	ENSG00000237256	ENST00000437662	processed_pseudogene	KNOWN	None	16557	None	None	11601699	11602125	1	None	dJ1128N12.1
HSCHR6_MHC_MCF	OR11A1	ENSG00000206472	ENST00000383551	protein_coding	KNOWN	None	8176	948	315	29393060	29396022	-1	OR11A2	hs6M1-18
HSCHR6_MHC_MCF	OR11A1	ENSG00000206472	ENST00000400696	protein_coding	KNOWN	None	8176	948	315	29393060	29424633	-1	OR11A2	hs6M1-18
HSCHR6_MHC_MCF	OR11A1	ENSG00000206472	ENST00000546665	protein_coding	KNOWN	None	8176	948	315	29393060	29395288	-1	OR11A2	hs6M1-18
2	None	ENSG00000227738	ENST00000427142	processed_pseudogene	KNOWN	None	None	None	None	124519747	124520647	1	None	None
22	RNU6-28P	ENSG00000199248	ENST00000362378	snRNA	KNOWN	None	34272	None	None	31875369	31875475	-1	RNU6-28	None
12	None	ENSG00000249550	ENST00000550905	lincRNA	KNOWN	None	None	None	None	114117264	114211486	-1	None	None
12	None	ENSG00000249550	ENST00000551982	lincRNA	KNOWN	None	None	None	None	114175253	114205014	-1	None	None
12	None	ENSG00000249550	ENST00000547963	lincRNA	KNOWN	None	None	None	None	114182382	114211488	-1	None	None
12	None	ENSG00000249550	ENST00000550223	lincRNA	KNOWN	None	None	None	None	114183509	114211468	-1	None	None
12	None	ENSG00000249550	ENST00000510694	lincRNA	KNOWN	None	None	None	None	114188819	114211444	-1	None	None
6	PBOV1	ENSG00000254440	ENST00000527246	protein_coding	KNOWN	CCDS5190	21079	408	135	138537129	138539627	-1	None	UC28, UROC28
9	KIAA0368	ENSG00000136813	ENST00000338205	protein_coding	NOVEL	None	29020	5520	1839	114122972	114246637	-1	None	FLJ22036, ECM29
9	KIAA0368	ENSG00000136813	ENST00000374383	protein_coding	NOVEL	None	29020	429	142	114124166	114134068	-1	None	FLJ22036, ECM29
9	KIAA0368	ENSG00000136813	ENST00000465499	processed_transcript	KNOWN	None	29020	None	None	114127834	114132884	-1	None	FLJ22036, ECM29
9	KIAA0368	ENSG00000136813	ENST00000602447	protein_coding	NOVEL	None	29020	2670	889	114170851	114245959	-1	None	FLJ22036, ECM29
9	KIAA0368	ENSG00000136813	ENST00000602978	protein_coding	PUTATIVE	None	29020	384	127	114204591	114246337	-1	None	FLJ22036, ECM29
9	KIAA0368	ENSG00000136813	ENST00000259335	protein_coding	KNOWN	CCDS48006	29020	6054	2017	114122973	114247025	-1	None	FLJ22036, ECM29
9	KIAA0368	ENSG00000136813	ENST00000374378	protein_coding	KNOWN	None	29020	390	129	114124310	114170865	-1	None	FLJ22036, ECM29
16	None	ENSG00000261448	ENST00000567344	antisense	KNOWN	None	None	None	None	17228361	17232593	1	None	None
4	HPGDS	ENSG00000163106	ENST00000295256	protein_coding	KNOWN	CCDS3640	17890	600	199	95219686	95264027	-1	None	GSTS, PGDS, H-PGDS, PGD2, GSTS1-1
4	HPGDS	ENSG00000163106	ENST00000514774	processed_transcript	KNOWN	None	17890	None	None	95224914	95264016	-1	None	GSTS, PGDS, H-PGDS, PGD2, GSTS1-1
4	HPGDS	ENSG00000163106	ENST00000506331	retained_intron	KNOWN	None	17890	None	None	95255332	95264027	-1	None	GSTS, PGDS, H-PGDS, PGD2, GSTS1-1
8	ENTPD4	ENSG00000197217	ENST00000518471	protein_coding	NOVEL	None	14573	645	214	23243296	23294605	-1	LYSAL1	LALP70, LAP70, KIAA0392, NTPDase-4, UDPase
8	ENTPD4	ENSG00000197217	ENST00000356206	protein_coding	PUTATIVE	None	14573	1716	571	23243296	23315208	-1	LYSAL1	LALP70, LAP70, KIAA0392, NTPDase-4, UDPase
8	ENTPD4	ENSG00000197217	ENST00000521321	processed_transcript	KNOWN	None	14573	None	None	23260119	23294490	-1	LYSAL1	LALP70, LAP70, KIAA0392, NTPDase-4, UDPase
8	ENTPD4	ENSG00000197217	ENST00000358689	protein_coding	KNOWN	CCDS6041	14573	1851	616	23286665	23315208	-1	LYSAL1	LALP70, LAP70, KIAA0392, NTPDase-4, UDPase
8	ENTPD4	ENSG00000197217	ENST00000522255	retained_intron	KNOWN	None	14573	None	None	23290159	23292251	-1	LYSAL1	LALP70, LAP70, KIAA0392, NTPDase-4, UDPase
8	ENTPD4	ENSG00000197217	ENST00000417069	protein_coding	KNOWN	CCDS47827	14573	1827	608	23290439	23315208	-1	LYSAL1	LALP70, LAP70, KIAA0392, NTPDase-4, UDPase
8	ENTPD4	ENSG00000197217	ENST00000523958	retained_intron	KNOWN	None	14573	None	None	23291606	23315152	-1	LYSAL1	LALP70, LAP70, KIAA0392, NTPDase-4, UDPase
8	ENTPD4	ENSG00000197217	ENST00000522913	processed_transcript	KNOWN	None	14573	None	None	23291928	23294666	-1	LYSAL1	LALP70, LAP70, KIAA0392, NTPDase-4, UDPase
8	ENTPD4	ENSG00000197217	ENST00000520936	retained_intron	KNOWN	None	14573	None	None	23294547	23297597	-1	LYSAL1	LALP70, LAP70, KIAA0392, NTPDase-4, UDPase
8	ENTPD4	ENSG00000197217	ENST00000519839	protein_coding	NOVEL	None	14573	351	116	23299520	23305300	-1	LYSAL1	LALP70, LAP70, KIAA0392, NTPDase-4, UDPase
8	ENTPD4	ENSG00000197217	ENST00000518718	protein_coding	PUTATIVE	None	14573	381	126	23302049	23315160	-1	LYSAL1	LALP70, LAP70, KIAA0392, NTPDase-4, UDPase
22	H2AFZP6	ENSG00000233733	ENST00000444403	processed_pseudogene	KNOWN	None	38019	None	None	31917185	31917578	-1	None	None
8	None	ENSG00000206144	ENST00000512867	processed_pseudogene	KNOWN	None	None	None	None	54449620	54452860	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000257313	ENST00000550466	protein_coding	NOVEL	None	None	762	253	32593633	32594538	-1	None	None
5	VTRNA2-1	ENSG00000270123	ENST00000602301	lincRNA	KNOWN	None	37054	None	None	135416160	135416286	-1	MIR886, MIRN886, VTRNA2	vtRNA2, hvg-5, CBL-3, hsa-mir-886, nc886
5	VTRNA2-1	ENSG00000270123	ENST00000365160	misc_RNA	KNOWN	None	37054	None	None	135416186	135416286	-1	MIR886, MIRN886, VTRNA2	vtRNA2, hvg-5, CBL-3, hsa-mir-886, nc886
14	RPL13AP2	ENSG00000244053	ENST00000488281	processed_pseudogene	KNOWN	None	19675	None	None	47669778	47670307	-1	None	None
6	None	ENSG00000262543	ENST00000573100	protein_coding	PUTATIVE	None	None	459	152	138699042	138704212	1	None	None
17	KPNA2	ENSG00000182481	ENST00000330459	protein_coding	KNOWN	CCDS32713	6395	1590	529	66031635	66042958	1	RCH1	SRP1alpha, IPOA1, QIP2
17	KPNA2	ENSG00000182481	ENST00000583269	nonsense_mediated_decay	KNOWN	None	6395	153	50	66031824	66038325	1	RCH1	SRP1alpha, IPOA1, QIP2
17	KPNA2	ENSG00000182481	ENST00000584026	protein_coding	KNOWN	None	6395	402	133	66031851	66038300	1	RCH1	SRP1alpha, IPOA1, QIP2
17	KPNA2	ENSG00000182481	ENST00000537025	protein_coding	KNOWN	CCDS32713	6395	1590	529	66032076	66042958	1	RCH1	SRP1alpha, IPOA1, QIP2
17	KPNA2	ENSG00000182481	ENST00000579754	protein_coding	KNOWN	None	6395	430	142	66033110	66038328	1	RCH1	SRP1alpha, IPOA1, QIP2
17	KPNA2	ENSG00000182481	ENST00000583392	retained_intron	KNOWN	None	6395	None	None	66039028	66040008	1	RCH1	SRP1alpha, IPOA1, QIP2
17	KPNA2	ENSG00000182481	ENST00000582898	processed_transcript	KNOWN	None	6395	None	None	66041584	66042745	1	RCH1	SRP1alpha, IPOA1, QIP2
1	None	ENSG00000254539	ENST00000466343	antisense	KNOWN	None	None	None	None	144833168	144835867	-1	None	None
12	SOCS2-AS1	ENSG00000246985	ENST00000499137	antisense	KNOWN	None	27054	None	None	93936239	93965544	-1	None	None
12	SOCS2-AS1	ENSG00000246985	ENST00000500986	antisense	KNOWN	None	27054	None	None	93936240	93965544	-1	None	None
12	SOCS2-AS1	ENSG00000246985	ENST00000547845	retained_intron	KNOWN	None	27054	None	None	93945209	93960955	-1	None	None
12	SOCS2-AS1	ENSG00000246985	ENST00000551626	antisense	KNOWN	None	27054	None	None	93959360	93965174	-1	None	None
16	None	ENSG00000221237	ENST00000408310	miRNA	NOVEL	None	None	None	None	71365092	71365202	1	None	None
12	None	ENSG00000255566	ENST00000543493	processed_pseudogene	KNOWN	None	None	None	None	64836290	64837110	-1	None	None
8	None	ENSG00000249258	ENST00000513892	lincRNA	KNOWN	None	None	None	None	16988690	17007298	1	None	None
12	None	ENSG00000255649	ENST00000544122	antisense	KNOWN	None	None	None	None	14683085	14686163	1	None	None
16	None	ENSG00000261348	ENST00000567469	lincRNA	KNOWN	None	None	None	None	71444343	71460367	-1	None	None
9	None	ENSG00000263875	ENST00000582353	miRNA	NOVEL	None	None	None	None	96327975	96328082	-1	None	None
16	None	ENSG00000260945	ENST00000568026	lincRNA	KNOWN	None	None	None	None	17634188	17634842	-1	None	None
12	SLC2A3	ENSG00000059804	ENST00000075120	protein_coding	KNOWN	CCDS8586	11007	1491	496	8071826	8088871	-1	GLUT3	None
12	SLC2A3	ENSG00000059804	ENST00000543435	processed_transcript	PUTATIVE	None	11007	None	None	8071827	8072346	-1	GLUT3	None
12	SLC2A3	ENSG00000059804	ENST00000486749	retained_intron	KNOWN	None	11007	None	None	8071827	8088763	-1	GLUT3	None
12	SLC2A3	ENSG00000059804	ENST00000469295	retained_intron	KNOWN	None	11007	None	None	8073667	8075885	-1	GLUT3	None
12	SLC2A3	ENSG00000059804	ENST00000479059	retained_intron	KNOWN	None	11007	None	None	8074141	8082651	-1	GLUT3	None
12	SLC2A3	ENSG00000059804	ENST00000490763	retained_intron	KNOWN	None	11007	None	None	8077954	8082631	-1	GLUT3	None
12	SLC2A3	ENSG00000059804	ENST00000495813	retained_intron	KNOWN	None	11007	None	None	8082100	8088765	-1	GLUT3	None
12	SLC2A3	ENSG00000059804	ENST00000544291	protein_coding	NOVEL	None	11007	425	140	8083231	8088782	-1	GLUT3	None
12	SLC2A3	ENSG00000059804	ENST00000544936	nonsense_mediated_decay	KNOWN	None	11007	147	48	8083947	8088783	-1	GLUT3	None
12	SLC2A3	ENSG00000059804	ENST00000476634	retained_intron	KNOWN	None	11007	None	None	8085242	8088783	-1	GLUT3	None
12	SLC2A3	ENSG00000059804	ENST00000541671	retained_intron	KNOWN	None	11007	None	None	8086074	8088780	-1	GLUT3	None
HSCHR6_MHC_DBB	None	ENSG00000258015	ENST00000550409	protein_coding	NOVEL	None	None	24	7	32674534	32678299	-1	None	None
1	None	ENSG00000255148	ENST00000532137	antisense	KNOWN	None	None	None	None	144858174	144865800	1	None	None
11	None	ENSG00000255381	ENST00000529891	processed_pseudogene	KNOWN	None	None	None	None	58909594	58910083	-1	None	None
22	None	ENSG00000229169	ENST00000416920	processed_pseudogene	KNOWN	None	None	None	None	31934338	31934575	-1	None	None
9	MIR4291	ENSG00000265347	ENST00000584984	miRNA	KNOWN	None	38267	None	None	96581639	96581703	1	None	hsa-mir-4291
15	None	ENSG00000256951	ENST00000431496	transcribed_processed_pseudogene	KNOWN	None	None	None	None	29034345	29034632	1	None	None
17	ALDOC	ENSG00000109107	ENST00000395319	protein_coding	NOVEL	None	418	1011	336	26900133	26903903	-1	None	None
17	ALDOC	ENSG00000109107	ENST00000395321	protein_coding	KNOWN	CCDS11236	418	1095	364	26900133	26903966	-1	None	None
17	ALDOC	ENSG00000109107	ENST00000226253	protein_coding	KNOWN	CCDS11236	418	1095	364	26900133	26904282	-1	None	None
17	ALDOC	ENSG00000109107	ENST00000460201	protein_coding	KNOWN	None	418	540	179	26901714	26902932	-1	None	None
17	ALDOC	ENSG00000109107	ENST00000584086	protein_coding	KNOWN	None	418	526	174	26901728	26903913	-1	None	None
17	ALDOC	ENSG00000109107	ENST00000581807	protein_coding	PUTATIVE	None	418	405	134	26901732	26903912	-1	None	None
17	ALDOC	ENSG00000109107	ENST00000435638	protein_coding	KNOWN	None	418	448	148	26901806	26903416	-1	None	None
17	ALDOC	ENSG00000109107	ENST00000578590	protein_coding	KNOWN	None	418	367	121	26901982	26903442	-1	None	None
17	ALDOC	ENSG00000109107	ENST00000582381	retained_intron	KNOWN	None	418	None	None	26901997	26903909	-1	None	None
15	None	ENSG00000259715	ENST00000558372	lincRNA	KNOWN	None	None	None	None	50651647	50652391	-1	None	None
3	MIR548AB	ENSG00000265328	ENST00000584917	miRNA	KNOWN	None	41825	None	None	103242877	103242960	-1	None	hsa-mir-548ab
16	None	ENSG00000261555	ENST00000564852	lincRNA	KNOWN	None	None	None	None	17919109	17920763	1	None	None
9	None	ENSG00000231990	ENST00000443771	lincRNA	KNOWN	None	None	None	None	96619365	96620615	1	None	None
11	MIR3664	ENSG00000263744	ENST00000579074	miRNA	KNOWN	None	38899	None	None	70718375	70718473	-1	None	hsa-mir-3664
1	None	ENSG00000254913	ENST00000531288	antisense	KNOWN	None	None	None	None	144874945	144878163	1	None	None
14	None	ENSG00000238758	ENST00000458940	miRNA	NOVEL	None	None	None	None	90847542	90847596	1	None	None
8	None	ENSG00000244113	ENST00000460497	processed_pseudogene	KNOWN	None	None	None	None	17007810	17008397	-1	None	None
3	ADIPOQ-AS1	ENSG00000226482	ENST00000422718	antisense	KNOWN	None	40648	None	None	186569675	186573912	-1	None	None
HG185_PATCH	ZNF385C	ENSG00000260320	ENST00000564742	retained_intron	KNOWN	None	33722	None	None	40181828	40184383	-1	None	None
HG185_PATCH	ZNF385C	ENSG00000260320	ENST00000565175	processed_transcript	KNOWN	None	33722	None	None	40181828	40184941	-1	None	None
HG185_PATCH	ZNF385C	ENSG00000260320	ENST00000565920	protein_coding	NOVEL	None	33722	1515	504	40183149	40219308	-1	None	None
HG185_PATCH	ZNF385C	ENSG00000260320	ENST00000568066	protein_coding	NOVEL	None	33722	1379	458	40183270	40219330	-1	None	None
3	NPM1P17	ENSG00000242070	ENST00000479221	processed_pseudogene	KNOWN	None	7919	None	None	137442616	137443385	1	None	None
14	None	ENSG00000258424	ENST00000555853	antisense	KNOWN	None	None	None	None	90868867	90871579	-1	None	None
2	RN7SKP102	ENSG00000223118	ENST00000411186	misc_RNA	KNOWN	None	45826	None	None	124626833	124627147	-1	None	None
3	None	ENSG00000240107	ENST00000478559	processed_pseudogene	KNOWN	None	None	None	None	103257479	103259331	-1	None	None
4	None	ENSG00000250739	ENST00000513681	lincRNA	KNOWN	None	None	None	None	190580759	190582640	1	None	None
5	SMAD5-AS1	ENSG00000164621	ENST00000297163	antisense	KNOWN	None	30586	None	None	135465196	135470579	-1	SMAD5OS	DAMS
22	None	ENSG00000214093	ENST00000445477	processed_pseudogene	KNOWN	None	None	None	None	31955469	31955925	1	None	None
14	RPS15AP3	ENSG00000214903	ENST00000497800	processed_pseudogene	KNOWN	None	19674	None	None	47913309	47913697	-1	None	None
1	CDK11B	ENSG00000248333	ENST00000513088	protein_coding	PUTATIVE	None	1729	1855	617	1570603	1580623	-1	CDC2L1	CDK11-p110, CDK11-p58, CDK11-p46
1	CDK11B	ENSG00000248333	ENST00000341028	protein_coding	PUTATIVE	None	1729	227	74	1586823	1590473	-1	CDC2L1	CDK11-p110, CDK11-p58, CDK11-p46
1	CDK11B	ENSG00000248333	ENST00000407249	protein_coding	KNOWN	None	1729	2358	785	1571100	1588935	-1	CDC2L1	CDK11-p110, CDK11-p58, CDK11-p46
1	CDK11B	ENSG00000248333	ENST00000317673	protein_coding	KNOWN	None	1729	2352	783	1571100	1588935	-1	CDC2L1	CDK11-p110, CDK11-p58, CDK11-p46
1	CDK11B	ENSG00000248333	ENST00000340677	protein_coding	KNOWN	None	1729	2319	772	1571100	1588935	-1	CDC2L1	CDK11-p110, CDK11-p58, CDK11-p46
1	CDK11B	ENSG00000248333	ENST00000341832	protein_coding	KNOWN	None	1729	2217	738	1571100	1588714	-1	CDC2L1	CDK11-p110, CDK11-p58, CDK11-p46
2	None	ENSG00000228400	ENST00000438816	antisense	KNOWN	None	None	None	None	124774435	124782750	-1	None	None
1	None	ENSG00000266739	ENST00000582173	miRNA	NOVEL	None	None	None	None	144877330	144877395	1	None	None
6	None	ENSG00000213972	ENST00000397093	processed_pseudogene	KNOWN	None	None	None	None	25272428	25273979	-1	None	None
3	RPS20P14	ENSG00000223803	ENST00000412545	processed_pseudogene	KNOWN	None	36692	None	None	186617987	186618346	1	None	None
15	MIR4712	ENSG00000264109	ENST00000583750	miRNA	KNOWN	None	41732	None	None	50652526	50652607	1	None	hsa-mir-4712
22	RN7SL20P	ENSG00000242251	ENST00000488827	misc_RNA	KNOWN	None	46036	None	None	32153188	32153482	1	None	None
HSCHR6_MHC_DBB	HLA-DQA2	ENSG00000223793	ENST00000447735	protein_coding	KNOWN	None	4943	768	255	32688301	32694153	1	HLA-DXA	None
HSCHR6_MHC_DBB	HLA-DQA2	ENSG00000223793	ENST00000551533	protein_coding	KNOWN	None	4943	768	255	32688387	32693340	1	HLA-DXA	None
1	RNU2-38P	ENSG00000222788	ENST00000410856	snRNA	KNOWN	None	48531	None	None	144944672	144944750	1	None	None
20	None	ENSG00000261411	ENST00000569833	lincRNA	KNOWN	None	None	None	None	11665792	11667971	-1	None	None
11	None	ENSG00000255666	ENST00000544019	lincRNA	KNOWN	None	None	None	None	94375073	94384794	1	None	None
11	None	ENSG00000255666	ENST00000541293	lincRNA	KNOWN	None	None	None	None	94375096	94381740	1	None	None
11	None	ENSG00000255666	ENST00000540151	lincRNA	KNOWN	None	None	None	None	94380610	94384797	1	None	None
11	None	ENSG00000255666	ENST00000542479	lincRNA	KNOWN	None	None	None	None	94380645	94384795	1	None	None
12	RN7SKP134	ENSG00000200830	ENST00000363960	misc_RNA	KNOWN	None	45858	None	None	14706636	14706904	-1	None	None
19	ACTL9	ENSG00000181786	ENST00000324436	protein_coding	KNOWN	CCDS12207	28494	1251	416	8807751	8809172	-1	None	MGC33407
9	None	ENSG00000235601	ENST00000454594	lincRNA	KNOWN	None	None	None	None	96717879	96721422	1	None	None
9	None	ENSG00000235601	ENST00000453045	lincRNA	KNOWN	None	None	None	None	96718116	96720204	1	None	None
HG104_HG975_PATCH	NRBP2	ENSG00000260533	ENST00000569525	retained_intron	KNOWN	None	19339	None	None	144915764	144923121	-1	None	DKFZp434P086
HG104_HG975_PATCH	NRBP2	ENSG00000260533	ENST00000569084	retained_intron	KNOWN	None	19339	None	None	144915770	144922199	-1	None	DKFZp434P086
HG104_HG975_PATCH	NRBP2	ENSG00000260533	ENST00000568732	protein_coding	NOVEL	None	19339	1506	501	144915891	144923144	-1	None	DKFZp434P086
HG104_HG975_PATCH	NRBP2	ENSG00000260533	ENST00000568050	retained_intron	KNOWN	None	19339	None	None	144915912	144920244	-1	None	DKFZp434P086
HG104_HG975_PATCH	NRBP2	ENSG00000260533	ENST00000568489	retained_intron	KNOWN	None	19339	None	None	144915917	144919320	-1	None	DKFZp434P086
HG104_HG975_PATCH	NRBP2	ENSG00000260533	ENST00000566502	protein_coding	PUTATIVE	None	19339	505	167	144917188	144919302	-1	None	DKFZp434P086
HG104_HG975_PATCH	NRBP2	ENSG00000260533	ENST00000567086	retained_intron	KNOWN	None	19339	None	None	144917700	144922383	-1	None	DKFZp434P086
HG104_HG975_PATCH	NRBP2	ENSG00000260533	ENST00000565026	retained_intron	KNOWN	None	19339	None	None	144917700	144922383	-1	None	DKFZp434P086
HG104_HG975_PATCH	NRBP2	ENSG00000260533	ENST00000566001	retained_intron	KNOWN	None	19339	None	None	144917832	144920232	-1	None	DKFZp434P086
HG104_HG975_PATCH	NRBP2	ENSG00000260533	ENST00000565001	protein_coding	PUTATIVE	None	19339	697	231	144920849	144922800	-1	None	DKFZp434P086
2	MTND5P22	ENSG00000238046	ENST00000458380	processed_pseudogene	KNOWN	None	42284	None	None	125438299	125438493	-1	None	None
8	None	ENSG00000253668	ENST00000517688	processed_pseudogene	KNOWN	None	None	None	None	54625257	54625456	1	None	None
22	None	ENSG00000236132	ENST00000429025	processed_pseudogene	KNOWN	None	None	None	None	32212365	32213477	-1	None	None
1	RN7SKP88	ENSG00000252656	ENST00000516847	misc_RNA	KNOWN	None	45812	None	None	145044651	145044900	1	None	None
8	None	ENSG00000271948	ENST00000606659	lincRNA	KNOWN	None	None	None	None	17082473	17082978	-1	None	None
11	None	ENSG00000172900	ENST00000460880	unitary_pseudogene	KNOWN	None	None	None	None	71093647	71118818	-1	None	None
11	None	ENSG00000172900	ENST00000331301	processed_transcript	KNOWN	None	None	None	None	71116792	71134400	-1	None	None
11	None	ENSG00000172900	ENST00000508543	processed_transcript	PUTATIVE	None	None	None	None	71125206	71134469	-1	None	None
16	RPL7P47	ENSG00000228071	ENST00000497299	processed_pseudogene	KNOWN	None	35913	None	None	18026577	18027132	1	None	None
14	C14orf169	ENSG00000255242	ENST00000531973	processed_transcript	KNOWN	None	20968	None	None	73957669	73960096	1	None	FLJ21802, NO66, MAPJD
4	RNU1-51P	ENSG00000202215	ENST00000365345	snRNA	KNOWN	None	48393	None	None	190630693	190630868	-1	None	None
12	None	ENSG00000256751	ENST00000545424	antisense	KNOWN	None	None	None	None	14720684	14772232	1	None	None
12	None	ENSG00000256751	ENST00000542401	antisense	KNOWN	None	None	None	None	14720925	14772689	1	None	None
1	None	ENSG00000271546	ENST00000605141	processed_pseudogene	KNOWN	None	None	None	None	145088039	145088567	-1	None	None
6	None	ENSG00000224460	ENST00000421237	lincRNA	KNOWN	None	None	None	None	143267184	143277835	-1	None	None
X	RN7SL697P	ENSG00000264484	ENST00000582484	misc_RNA	KNOWN	None	46713	None	None	153724167	153724463	-1	None	None
11	None	ENSG00000255512	ENST00000532071	lincRNA	KNOWN	None	None	None	None	134931675	134945793	-1	None	None
HSCHR6_MHC_MCF	OR2H1	ENSG00000206471	ENST00000400694	protein_coding	KNOWN	None	8252	951	316	29424743	29431890	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_MCF	OR2H1	ENSG00000206471	ENST00000400693	protein_coding	KNOWN	None	8252	951	316	29424750	29431890	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_MCF	OR2H1	ENSG00000206471	ENST00000494394	processed_transcript	KNOWN	None	8252	None	None	29424765	29428648	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_MCF	OR2H1	ENSG00000206471	ENST00000383550	protein_coding	KNOWN	None	8252	951	316	29427333	29431890	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_MCF	OR2H1	ENSG00000206471	ENST00000400689	protein_coding	KNOWN	None	8252	951	316	29429002	29430295	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_MCF	OR2H1	ENSG00000206471	ENST00000490560	processed_transcript	KNOWN	None	8252	None	None	29429057	29430282	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_MCF	OR2H1	ENSG00000206471	ENST00000483331	processed_transcript	KNOWN	None	8252	None	None	29429057	29430282	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_MCF	OR2H1	ENSG00000206471	ENST00000546570	protein_coding	KNOWN	None	8252	951	316	29426015	29431882	1	OR2H6, OR2H8	OR6-2
6	HEBP2	ENSG00000051620	ENST00000448741	protein_coding	PUTATIVE	None	15716	384	127	138724668	138734310	1	C6orf34	SOUL
6	HEBP2	ENSG00000051620	ENST00000607197	protein_coding	KNOWN	CCDS5191	15716	618	205	138725356	138743334	1	C6orf34	SOUL
6	HEBP2	ENSG00000051620	ENST00000367697	protein_coding	PUTATIVE	None	15716	351	116	138725384	138734310	1	C6orf34	SOUL
6	HEBP2	ENSG00000051620	ENST00000453452	nonsense_mediated_decay	KNOWN	None	15716	137	44	138727108	138734291	1	C6orf34	SOUL
9	None	ENSG00000227666	ENST00000445119	processed_pseudogene	KNOWN	None	None	None	None	96800312	96800627	1	None	None
1	SEC22B	ENSG00000223380	ENST00000453618	processed_transcript	KNOWN	None	10700	None	None	145096220	145116922	1	SEC22L1	sec22b, ERS-24
1	SEC22B	ENSG00000223380	ENST00000500203	processed_transcript	KNOWN	None	10700	None	None	145096531	145100984	1	SEC22L1	sec22b, ERS-24
6	None	ENSG00000232618	ENST00000417650	lincRNA	KNOWN	None	None	None	None	143271348	143277783	1	None	None
15	RPS3AP47	ENSG00000205871	ENST00000487100	processed_pseudogene	KNOWN	None	36744	None	None	43407900	43408691	-1	None	None
15	RPS3AP47	ENSG00000205871	ENST00000382175	processed_pseudogene	KNOWN	None	36744	None	None	43407897	43408565	-1	None	None
3	None	ENSG00000233565	ENST00000451924	processed_pseudogene	KNOWN	None	None	None	None	186640075	186640542	-1	None	None
2	None	ENSG00000270815	ENST00000605094	processed_pseudogene	KNOWN	None	None	None	None	125536031	125536217	-1	None	None
5	None	ENSG00000271824	ENST00000607574	lincRNA	KNOWN	None	None	None	None	135527156	135528822	-1	None	None
14	None	ENSG00000258678	ENST00000555413	lincRNA	KNOWN	None	None	None	None	90918407	90921461	-1	None	None
11	EIF1AD	ENSG00000175376	ENST00000526451	protein_coding	KNOWN	CCDS8124	28147	498	165	65764016	65769627	-1	None	MGC11102, haponin
11	EIF1AD	ENSG00000175376	ENST00000312234	protein_coding	KNOWN	CCDS8124	28147	498	165	65764016	65769628	-1	None	MGC11102, haponin
11	EIF1AD	ENSG00000175376	ENST00000525767	protein_coding	PUTATIVE	None	28147	342	113	65765860	65769632	-1	None	MGC11102, haponin
11	EIF1AD	ENSG00000175376	ENST00000529964	protein_coding	KNOWN	None	28147	438	145	65765904	65769637	-1	None	MGC11102, haponin
11	EIF1AD	ENSG00000175376	ENST00000533544	protein_coding	KNOWN	CCDS8124	28147	498	165	65765964	65769625	-1	None	MGC11102, haponin
11	EIF1AD	ENSG00000175376	ENST00000527249	protein_coding	KNOWN	CCDS8124	28147	498	165	65766038	65769647	-1	None	MGC11102, haponin
11	EIF1AD	ENSG00000175376	ENST00000529973	nonsense_mediated_decay	KNOWN	None	28147	195	64	65766085	65767953	-1	None	MGC11102, haponin
11	EIF1AD	ENSG00000175376	ENST00000530462	protein_coding	KNOWN	None	28147	343	113	65766831	65769631	-1	None	MGC11102, haponin
11	EIF1AD	ENSG00000175376	ENST00000532707	protein_coding	KNOWN	None	28147	340	112	65766834	65769607	-1	None	MGC11102, haponin
11	EIF1AD	ENSG00000175376	ENST00000527051	protein_coding	KNOWN	None	28147	235	77	65767108	65768213	-1	None	MGC11102, haponin
11	EIF1AD	ENSG00000175376	ENST00000526449	retained_intron	KNOWN	None	28147	None	None	65767369	65769628	-1	None	MGC11102, haponin
2	RNA5SP102	ENSG00000252674	ENST00000516865	rRNA	KNOWN	None	42900	None	None	125690492	125690597	1	RN5S102	None
3	None	ENSG00000203632	ENST00000366439	pseudogene	KNOWN	None	None	None	None	186650337	186652182	1	None	None
6	None	ENSG00000207286	ENST00000384556	misc_RNA	NOVEL	None	None	None	None	25287660	25287761	-1	None	None
2	RNU6-259P	ENSG00000206726	ENST00000383999	snRNA	KNOWN	None	47222	None	None	125746796	125746902	1	None	None
X	RN7SL742P	ENSG00000264631	ENST00000581854	misc_RNA	KNOWN	None	46758	None	None	153724534	153724819	-1	None	None
17	ANKFY1	ENSG00000185722	ENST00000341657	protein_coding	KNOWN	None	20763	3510	1169	4067201	4167272	-1	None	ANKHZN, KIAA1255, ZFYVE14, BTBD23
17	ANKFY1	ENSG00000185722	ENST00000570535	protein_coding	KNOWN	CCDS58502	20763	3636	1211	4068368	4167142	-1	None	ANKHZN, KIAA1255, ZFYVE14, BTBD23
17	ANKFY1	ENSG00000185722	ENST00000574367	protein_coding	KNOWN	CCDS42236	20763	3513	1170	4069568	4167251	-1	None	ANKHZN, KIAA1255, ZFYVE14, BTBD23
17	ANKFY1	ENSG00000185722	ENST00000572412	nonsense_mediated_decay	KNOWN	None	20763	210	69	4071130	4167251	-1	None	ANKHZN, KIAA1255, ZFYVE14, BTBD23
17	ANKFY1	ENSG00000185722	ENST00000575298	nonsense_mediated_decay	KNOWN	None	20763	242	79	4071445	4074155	-1	None	ANKHZN, KIAA1255, ZFYVE14, BTBD23
17	ANKFY1	ENSG00000185722	ENST00000572564	retained_intron	KNOWN	None	20763	None	None	4081177	4083731	-1	None	ANKHZN, KIAA1255, ZFYVE14, BTBD23
17	ANKFY1	ENSG00000185722	ENST00000571547	retained_intron	KNOWN	None	20763	None	None	4084321	4085593	-1	None	ANKHZN, KIAA1255, ZFYVE14, BTBD23
17	ANKFY1	ENSG00000185722	ENST00000574736	protein_coding	PUTATIVE	None	20763	180	59	4086821	4090404	-1	None	ANKHZN, KIAA1255, ZFYVE14, BTBD23
17	ANKFY1	ENSG00000185722	ENST00000573722	processed_transcript	KNOWN	None	20763	None	None	4088159	4094630	-1	None	ANKHZN, KIAA1255, ZFYVE14, BTBD23
17	ANKFY1	ENSG00000185722	ENST00000575509	retained_intron	KNOWN	None	20763	None	None	4089755	4092164	-1	None	ANKHZN, KIAA1255, ZFYVE14, BTBD23
17	ANKFY1	ENSG00000185722	ENST00000570934	retained_intron	KNOWN	None	20763	None	None	4097756	4145745	-1	None	ANKHZN, KIAA1255, ZFYVE14, BTBD23
17	ANKFY1	ENSG00000185722	ENST00000573250	retained_intron	KNOWN	None	20763	None	None	4098750	4111427	-1	None	ANKHZN, KIAA1255, ZFYVE14, BTBD23
17	ANKFY1	ENSG00000185722	ENST00000575955	retained_intron	KNOWN	None	20763	None	None	4119812	4167260	-1	None	ANKHZN, KIAA1255, ZFYVE14, BTBD23
17	ANKFY1	ENSG00000185722	ENST00000433651	protein_coding	KNOWN	None	20763	1464	487	4097775	4167274	-1	None	ANKHZN, KIAA1255, ZFYVE14, BTBD23
6	RNU6-987P	ENSG00000207490	ENST00000384759	snRNA	KNOWN	None	47950	None	None	25383827	25383930	1	None	None
3	RN7SL821P	ENSG00000263406	ENST00000579907	misc_RNA	KNOWN	None	46837	None	None	53322889	53323142	1	None	None
3	None	ENSG00000198491	ENST00000356133	antisense	KNOWN	None	None	None	None	186914878	186925417	-1	None	None
15	AHCYP7	ENSG00000259465	ENST00000560847	processed_pseudogene	KNOWN	None	44999	None	None	50709582	50710889	1	None	None
15	None	ENSG00000261377	ENST00000565892	processed_transcript	PUTATIVE	None	None	None	None	29034810	29035450	1	None	None
15	None	ENSG00000261377	ENST00000562423	processed_transcript	PUTATIVE	None	None	None	None	29034973	29053444	1	None	None
15	None	ENSG00000261377	ENST00000566321	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	29046512	29064145	1	None	None
15	None	ENSG00000261377	ENST00000563202	processed_transcript	PUTATIVE	None	None	None	None	29060492	29078483	1	None	None
15	None	ENSG00000261377	ENST00000566178	processed_transcript	PUTATIVE	None	None	None	None	29077467	29101361	1	None	None
15	None	ENSG00000261377	ENST00000564604	processed_transcript	PUTATIVE	None	None	None	None	29077477	29096703	1	None	None
15	None	ENSG00000261377	ENST00000563144	processed_transcript	PUTATIVE	None	None	None	None	29077526	29084129	1	None	None
14	None	ENSG00000258443	ENST00000553394	sense_intronic	KNOWN	None	None	None	None	73983937	73987352	-1	None	None
5	TRPC7-AS1	ENSG00000248211	ENST00000514459	antisense	KNOWN	None	40936	None	None	135549736	135557847	1	None	None
6	None	ENSG00000253017	ENST00000517208	miRNA	NOVEL	None	None	None	None	25408123	25408199	1	None	None
11	RN7SL42P	ENSG00000263999	ENST00000579786	misc_RNA	KNOWN	None	46058	None	None	58981880	58982172	-1	None	None
6	None	ENSG00000238322	ENST00000458807	snoRNA	NOVEL	None	None	None	None	25435508	25435590	1	None	None
19	ZNF563	ENSG00000188868	ENST00000293725	protein_coding	KNOWN	CCDS12270	30498	1431	476	12428291	12444502	-1	None	FLJ34797
19	ZNF563	ENSG00000188868	ENST00000594577	protein_coding	PUTATIVE	None	30498	582	193	12429993	12444306	-1	None	FLJ34797
19	ZNF563	ENSG00000188868	ENST00000595977	protein_coding	KNOWN	None	30498	690	229	12430001	12444534	-1	None	FLJ34797
19	ZNF563	ENSG00000188868	ENST00000601858	protein_coding	PUTATIVE	None	30498	387	128	12430356	12444316	-1	None	FLJ34797
X	None	ENSG00000261773	ENST00000567614	sense_overlapping	KNOWN	None	None	None	None	153746164	153746955	-1	None	None
3	None	ENSG00000206902	ENST00000384175	misc_RNA	NOVEL	None	None	None	None	53324658	53324769	1	None	None
22	RNU6-201P	ENSG00000252909	ENST00000517100	snRNA	KNOWN	None	47164	None	None	32233224	32233284	1	None	None
3	None	ENSG00000239513	ENST00000478772	lincRNA	KNOWN	None	None	None	None	137490791	137499720	1	None	None
3	None	ENSG00000239513	ENST00000465283	lincRNA	KNOWN	None	None	None	None	137493383	137496438	1	None	None
3	None	ENSG00000239513	ENST00000471091	lincRNA	KNOWN	None	None	None	None	137493386	137496438	1	None	None
3	None	ENSG00000239513	ENST00000469216	lincRNA	KNOWN	None	None	None	None	137493834	137496438	1	None	None
11	IFITM5	ENSG00000206013	ENST00000382614	protein_coding	KNOWN	CCDS31323	16644	399	132	298200	299526	-1	None	fragilis4, Hrmp1, BRIL
12	None	ENSG00000257231	ENST00000549314	processed_pseudogene	KNOWN	None	None	None	None	114227347	114227612	-1	None	None
16	None	ENSG00000259929	ENST00000569048	lincRNA	KNOWN	None	None	None	None	18027046	18066399	-1	None	None
16	None	ENSG00000259929	ENST00000567304	lincRNA	KNOWN	None	None	None	None	18061250	18245452	-1	None	None
6	PRELID1P2	ENSG00000217408	ENST00000407805	processed_pseudogene	KNOWN	None	43887	None	None	25678997	25679392	-1	None	None
1	NUDT4P1	ENSG00000177144	ENST00000360993	processed_pseudogene	KNOWN	None	18012	None	None	145139027	145139567	-1	None	None
1	NUDT4P1	ENSG00000177144	ENST00000322209	pseudogene	KNOWN	None	18012	None	None	145139025	145139569	-1	None	None
22	None	ENSG00000227813	ENST00000454534	processed_pseudogene	KNOWN	None	None	None	None	32286330	32287420	-1	None	None
14	None	ENSG00000258695	ENST00000555972	antisense	KNOWN	None	None	None	None	73989582	73997314	1	None	None
11	None	ENSG00000225802	ENST00000533936	unprocessed_pseudogene	KNOWN	None	None	None	None	59022833	59026959	1	None	None
15	SPCS2P1	ENSG00000260928	ENST00000561636	processed_pseudogene	KNOWN	None	31885	None	None	43423206	43423884	1	SPCS2P	None
20	LINC00687	ENSG00000228422	ENST00000558175	lincRNA	KNOWN	None	16194	None	None	11781111	11791074	-1	C20orf61	dJ1012F16.1
20	LINC00687	ENSG00000228422	ENST00000427835	lincRNA	KNOWN	None	16194	None	None	11790635	11830259	-1	C20orf61	dJ1012F16.1
20	LINC00687	ENSG00000228422	ENST00000557899	lincRNA	KNOWN	None	16194	None	None	11790669	11851363	-1	C20orf61	dJ1012F16.1
19	INSL3	ENSG00000248099	ENST00000317306	protein_coding	KNOWN	CCDS12365	6086	396	131	17927321	17932332	-1	RLNL	RLF, MGC119818, MGC119819
19	INSL3	ENSG00000248099	ENST00000598577	protein_coding	PUTATIVE	None	6086	215	70	17927322	17932314	-1	RLNL	RLF, MGC119818, MGC119819
19	INSL3	ENSG00000248099	ENST00000379695	protein_coding	PUTATIVE	CCDS58655	6086	474	157	17927323	17932383	-1	RLNL	RLF, MGC119818, MGC119819
12	None	ENSG00000257475	ENST00000435621	sense_intronic	KNOWN	None	None	None	None	53405888	53407705	1	None	None
22	None	ENSG00000238910	ENST00000459049	snoRNA	NOVEL	None	None	None	None	32349391	32349493	1	None	None
5	TRPC7-AS2	ENSG00000250947	ENST00000513958	antisense	KNOWN	None	40937	None	None	135639445	135651788	1	None	None
22	None	ENSG00000227519	ENST00000430449	lincRNA	KNOWN	None	None	None	None	32359344	32366387	1	None	None
19	ZNF583	ENSG00000198440	ENST00000588635	processed_transcript	KNOWN	None	26427	None	None	56909335	56918429	1	None	FLJ31030
19	ZNF583	ENSG00000198440	ENST00000537943	protein_coding	KNOWN	None	26427	389	128	56915383	56934416	1	None	FLJ31030
19	ZNF583	ENSG00000198440	ENST00000539211	retained_intron	KNOWN	None	26427	None	None	56915699	56925762	1	None	FLJ31030
19	ZNF583	ENSG00000198440	ENST00000333201	protein_coding	KNOWN	CCDS12943	26427	1710	569	56915701	56938733	1	None	FLJ31030
19	ZNF583	ENSG00000198440	ENST00000391778	protein_coding	KNOWN	None	26427	412	136	56915718	56934439	1	None	FLJ31030
19	ZNF583	ENSG00000198440	ENST00000436972	retained_intron	KNOWN	None	26427	None	None	56915725	56926169	1	None	FLJ31030
19	ZNF583	ENSG00000198440	ENST00000585612	processed_transcript	KNOWN	None	26427	None	None	56934519	56947404	1	None	FLJ31030
19	ZNF583	ENSG00000198440	ENST00000291598	protein_coding	KNOWN	CCDS12943	26427	1710	569	56915383	56936400	1	None	FLJ31030
8	None	ENSG00000272457	ENST00000606037	antisense	KNOWN	None	None	None	None	54788710	54789209	-1	None	None
6	HIST1H2BPS1	ENSG00000178762	ENST00000369177	processed_pseudogene	KNOWN	None	18719	None	None	25732010	25732319	-1	None	bA317E16.4, H2BFVP
6	HIST1H2BPS1	ENSG00000178762	ENST00000319443	pseudogene	KNOWN	None	18719	None	None	25732011	25732390	-1	None	bA317E16.4, H2BFVP
17	GPRC5C	ENSG00000170412	ENST00000582444	protein_coding	PUTATIVE	None	13309	436	144	72420990	72436351	1	None	RAIG-3
17	GPRC5C	ENSG00000170412	ENST00000392627	protein_coding	KNOWN	CCDS11699	13309	1461	486	72427052	72443568	1	None	RAIG-3
17	GPRC5C	ENSG00000170412	ENST00000342648	protein_coding	PUTATIVE	None	13309	381	126	72427523	72443568	1	None	RAIG-3
17	GPRC5C	ENSG00000170412	ENST00000481232	protein_coding	PUTATIVE	None	13309	453	150	72427667	72443568	1	None	RAIG-3
17	GPRC5C	ENSG00000170412	ENST00000392628	protein_coding	PUTATIVE	None	13309	1387	461	72428255	72445648	1	None	RAIG-3
17	GPRC5C	ENSG00000170412	ENST00000582473	protein_coding	PUTATIVE	None	13309	461	152	72428272	72436076	1	None	RAIG-3
17	GPRC5C	ENSG00000170412	ENST00000392629	protein_coding	KNOWN	CCDS42378	13309	1362	453	72429836	72443167	1	None	RAIG-3
17	GPRC5C	ENSG00000170412	ENST00000581590	protein_coding	PUTATIVE	None	13309	1066	354	72436035	72447792	1	None	RAIG-3
17	GPRC5C	ENSG00000170412	ENST00000582873	processed_transcript	KNOWN	None	13309	None	None	72439216	72443227	1	None	RAIG-3
17	GPRC5C	ENSG00000170412	ENST00000482723	retained_intron	KNOWN	None	13309	None	None	72439224	72446719	1	None	RAIG-3
17	GPRC5C	ENSG00000170412	ENST00000577663	retained_intron	KNOWN	None	13309	None	None	72441343	72443566	1	None	RAIG-3
3	None	ENSG00000207109	ENST00000384381	snoRNA	NOVEL	None	None	None	None	53367087	53367155	-1	None	None
11	None	ENSG00000221551	ENST00000408624	miRNA	NOVEL	None	None	None	None	79403423	79403573	1	None	None
5	HSPD1P18	ENSG00000248351	ENST00000504252	processed_pseudogene	KNOWN	None	35136	None	None	135716956	135717199	-1	None	None
17	None	ENSG00000267160	ENST00000591628	antisense	KNOWN	None	None	None	None	42751057	42753625	-1	None	None
X	ATF4P2	ENSG00000231342	ENST00000429373	processed_pseudogene	KNOWN	None	34025	None	None	153809189	153810261	1	None	None
3	None	ENSG00000212608	ENST00000391306	snoRNA	NOVEL	None	None	None	None	53421740	53421863	-1	None	None
7	BZW2	ENSG00000136261	ENST00000415365	protein_coding	KNOWN	None	18808	1224	407	16685756	16744287	1	None	HSPC028, MST017, MSTP017
7	BZW2	ENSG00000136261	ENST00000258761	protein_coding	KNOWN	CCDS5362	18808	1260	419	16685756	16746148	1	None	HSPC028, MST017, MSTP017
7	BZW2	ENSG00000136261	ENST00000432311	nonsense_mediated_decay	KNOWN	None	18808	486	161	16685785	16736672	1	None	HSPC028, MST017, MSTP017
7	BZW2	ENSG00000136261	ENST00000437745	nonsense_mediated_decay	KNOWN	None	18808	486	161	16685785	16746148	1	None	HSPC028, MST017, MSTP017
7	BZW2	ENSG00000136261	ENST00000436868	nonsense_mediated_decay	KNOWN	None	18808	513	170	16685799	16746134	1	None	HSPC028, MST017, MSTP017
7	BZW2	ENSG00000136261	ENST00000405202	protein_coding	PUTATIVE	None	18808	1032	343	16685820	16746106	1	None	HSPC028, MST017, MSTP017
7	BZW2	ENSG00000136261	ENST00000480517	retained_intron	KNOWN	None	18808	None	None	16700839	16727179	1	None	HSPC028, MST017, MSTP017
7	BZW2	ENSG00000136261	ENST00000446596	protein_coding	KNOWN	None	18808	822	273	16700848	16734629	1	None	HSPC028, MST017, MSTP017
7	BZW2	ENSG00000136261	ENST00000438834	protein_coding	KNOWN	None	18808	626	207	16700897	16729506	1	None	HSPC028, MST017, MSTP017
7	BZW2	ENSG00000136261	ENST00000430000	protein_coding	KNOWN	None	18808	488	161	16701758	16725612	1	None	HSPC028, MST017, MSTP017
7	BZW2	ENSG00000136261	ENST00000407633	protein_coding	PUTATIVE	None	18808	678	225	16728150	16745822	1	None	HSPC028, MST017, MSTP017
7	BZW2	ENSG00000136261	ENST00000433922	protein_coding	KNOWN	CCDS5362	18808	1260	419	16685759	16746137	1	None	HSPC028, MST017, MSTP017
7	BZW2	ENSG00000136261	ENST00000452975	protein_coding	KNOWN	None	18808	486	161	16685814	16737725	1	None	HSPC028, MST017, MSTP017
HG185_PATCH	DHX58	ENSG00000260178	ENST00000563880	protein_coding	KNOWN	None	29517	2037	678	40257656	40268985	-1	None	LGP2, D11LGP2
HG185_PATCH	DHX58	ENSG00000260178	ENST00000563345	protein_coding	KNOWN	None	29517	908	301	40263945	40268527	-1	None	LGP2, D11LGP2
HG185_PATCH	DHX58	ENSG00000260178	ENST00000565015	protein_coding	KNOWN	None	29517	468	155	40267068	40268715	-1	None	LGP2, D11LGP2
22	None	ENSG00000230866	ENST00000416995	lincRNA	KNOWN	None	None	None	None	32366810	32369461	1	None	None
22	None	ENSG00000230866	ENST00000436395	lincRNA	KNOWN	None	None	None	None	32366848	32369462	1	None	None
17	RN7SL819P	ENSG00000264251	ENST00000581896	misc_RNA	KNOWN	None	46835	None	None	42796232	42796498	-1	None	None
14	LINC00642	ENSG00000233208	ENST00000442515	lincRNA	KNOWN	None	44293	None	None	90921574	90925210	1	None	None
14	LINC00642	ENSG00000233208	ENST00000419459	lincRNA	KNOWN	None	44293	None	None	90921615	90925248	1	None	None
14	LINC00642	ENSG00000233208	ENST00000444942	lincRNA	KNOWN	None	44293	None	None	90921673	90925249	1	None	None
X	None	ENSG00000235071	ENST00000447112	processed_pseudogene	KNOWN	None	None	None	None	16492465	16493463	-1	None	None
12	None	ENSG00000214772	ENST00000501178	antisense	KNOWN	None	None	None	None	14818589	14910897	1	None	None
3	None	ENSG00000239093	ENST00000459452	snoRNA	KNOWN	None	None	None	None	187141103	187141207	1	None	None
X	MSL3	ENSG00000005302	ENST00000312196	protein_coding	KNOWN	CCDS14147	7370	1566	521	11776278	11793870	1	MSL3L1	None
X	MSL3	ENSG00000005302	ENST00000337339	protein_coding	KNOWN	CCDS14148	7370	1251	416	11776356	11786096	1	MSL3L1	None
X	MSL3	ENSG00000005302	ENST00000468149	nonsense_mediated_decay	KNOWN	None	7370	384	127	11776372	11793350	1	MSL3L1	None
X	MSL3	ENSG00000005302	ENST00000476743	protein_coding	KNOWN	None	7370	57	18	11776701	11780338	1	MSL3L1	None
X	MSL3	ENSG00000005302	ENST00000421368	protein_coding	PUTATIVE	None	7370	673	223	11776705	11781076	1	MSL3L1	None
X	MSL3	ENSG00000005302	ENST00000380693	protein_coding	KNOWN	CCDS14149	7370	1068	355	11777671	11793870	1	MSL3L1	None
X	MSL3	ENSG00000005302	ENST00000380692	protein_coding	KNOWN	None	7370	590	195	11777747	11783765	1	MSL3L1	None
X	MSL3	ENSG00000005302	ENST00000478462	retained_intron	KNOWN	None	7370	None	None	11777760	11779173	1	MSL3L1	None
X	MSL3	ENSG00000005302	ENST00000482871	retained_intron	KNOWN	None	7370	None	None	11778162	11781026	1	MSL3L1	None
X	MSL3	ENSG00000005302	ENST00000473806	processed_transcript	KNOWN	None	7370	None	None	11778257	11779701	1	MSL3L1	None
X	MSL3	ENSG00000005302	ENST00000483645	processed_transcript	KNOWN	None	7370	None	None	11778305	11781043	1	MSL3L1	None
X	MSL3	ENSG00000005302	ENST00000494268	retained_intron	KNOWN	None	7370	None	None	11778341	11782370	1	MSL3L1	None
X	MSL3	ENSG00000005302	ENST00000380691	nonsense_mediated_decay	KNOWN	None	7370	351	116	11781007	11786803	1	MSL3L1	None
X	MSL3	ENSG00000005302	ENST00000467141	processed_transcript	KNOWN	None	7370	None	None	11783780	11787221	1	MSL3L1	None
X	MSL3	ENSG00000005302	ENST00000473380	retained_intron	KNOWN	None	7370	None	None	11786432	11790337	1	MSL3L1	None
X	MSL3	ENSG00000005302	ENST00000398527	protein_coding	KNOWN	CCDS55369	7370	1530	509	11776728	11793574	1	MSL3L1	None
X	MSL3	ENSG00000005302	ENST00000361672	protein_coding	KNOWN	None	7370	1119	372	11776410	11793350	1	MSL3L1	None
8	None	ENSG00000221018	ENST00000408091	miRNA	KNOWN	None	None	None	None	39613601	39613707	-1	None	None
X	RN7SL658P	ENSG00000239333	ENST00000463595	misc_RNA	KNOWN	None	46674	None	None	16557262	16557562	-1	None	None
16	None	ENSG00000260242	ENST00000563866	lincRNA	KNOWN	None	None	None	None	18096663	18266920	-1	None	None
3	None	ENSG00000228952	ENST00000440726	lincRNA	KNOWN	None	None	None	None	187166633	187167238	1	None	None
17	None	ENSG00000240305	ENST00000472109	processed_pseudogene	KNOWN	None	None	None	None	42797128	42797965	-1	None	None
1	RNU6-1071P	ENSG00000201789	ENST00000364919	snRNA	KNOWN	None	48034	None	None	145149740	145149840	-1	None	None
3	None	ENSG00000227224	ENST00000418538	processed_pseudogene	KNOWN	None	None	None	None	53508727	53509116	-1	None	None
X	MIR548AM	ENSG00000265144	ENST00000584298	miRNA	KNOWN	None	41637	None	None	16645135	16645208	-1	None	hsa-mir-548am
14	NT5CP2	ENSG00000258408	ENST00000553305	processed_pseudogene	KNOWN	None	20047	None	None	74005925	74006485	-1	None	None
5	HNRNPA1P13	ENSG00000213568	ENST00000510646	processed_pseudogene	KNOWN	None	39131	None	None	135764581	135765543	1	None	None
1	None	ENSG00000227280	ENST00000421937	antisense	KNOWN	None	None	None	None	145373054	145375672	-1	None	None
11	SLC25A47P1	ENSG00000254799	ENST00000531577	processed_pseudogene	KNOWN	None	43860	None	None	59030862	59031275	-1	None	None
6	HIST1H2APS1	ENSG00000216436	ENST00000406683	processed_pseudogene	KNOWN	None	18720	None	None	25732725	25733055	1	None	bA317E16.5, H2AFSP
3	None	ENSG00000223401	ENST00000450760	lincRNA	KNOWN	None	None	None	None	187461474	187463208	1	None	None
3	TUBBP11	ENSG00000243195	ENST00000472255	processed_pseudogene	KNOWN	None	42184	None	None	103349505	103349756	1	None	None
8	None	ENSG00000253332	ENST00000518393	processed_pseudogene	KNOWN	None	None	None	None	39717738	39718044	1	None	None
3	None	ENSG00000251987	ENST00000516178	snoRNA	NOVEL	None	None	None	None	53564349	53564428	-1	None	None
11	ARNTL	ENSG00000133794	ENST00000529050	protein_coding	KNOWN	None	701	69	22	13298199	13375924	1	None	MOP3, JAP3, BMAL1, PASD3, bHLHe5
11	ARNTL	ENSG00000133794	ENST00000534544	protein_coding	KNOWN	None	701	179	58	13298199	13378324	1	None	MOP3, JAP3, BMAL1, PASD3, bHLHe5
11	ARNTL	ENSG00000133794	ENST00000527998	protein_coding	KNOWN	None	701	228	75	13299186	13379987	1	None	MOP3, JAP3, BMAL1, PASD3, bHLHe5
11	ARNTL	ENSG00000133794	ENST00000533520	protein_coding	KNOWN	None	701	302	99	13299340	13380061	1	None	MOP3, JAP3, BMAL1, PASD3, bHLHe5
11	ARNTL	ENSG00000133794	ENST00000529825	protein_coding	KNOWN	None	701	140	45	13299341	13380028	1	None	MOP3, JAP3, BMAL1, PASD3, bHLHe5
11	ARNTL	ENSG00000133794	ENST00000389707	protein_coding	KNOWN	CCDS31430	701	1878	625	13299345	13408813	1	None	MOP3, JAP3, BMAL1, PASD3, bHLHe5
11	ARNTL	ENSG00000133794	ENST00000401424	protein_coding	KNOWN	None	701	1752	583	13299345	13408813	1	None	MOP3, JAP3, BMAL1, PASD3, bHLHe5
11	ARNTL	ENSG00000133794	ENST00000529388	protein_coding	KNOWN	None	701	407	134	13299349	13381919	1	None	MOP3, JAP3, BMAL1, PASD3, bHLHe5
11	ARNTL	ENSG00000133794	ENST00000530357	protein_coding	KNOWN	None	701	423	140	13299362	13387139	1	None	MOP3, JAP3, BMAL1, PASD3, bHLHe5
11	ARNTL	ENSG00000133794	ENST00000480685	retained_intron	KNOWN	None	701	None	None	13299376	13378476	1	None	MOP3, JAP3, BMAL1, PASD3, bHLHe5
11	ARNTL	ENSG00000133794	ENST00000403290	protein_coding	KNOWN	None	701	1881	626	13299378	13408813	1	None	MOP3, JAP3, BMAL1, PASD3, bHLHe5
11	ARNTL	ENSG00000133794	ENST00000403510	protein_coding	KNOWN	CCDS44543	701	1749	582	13299389	13408810	1	None	MOP3, JAP3, BMAL1, PASD3, bHLHe5
11	ARNTL	ENSG00000133794	ENST00000482049	protein_coding	KNOWN	None	701	217	71	13299432	13380105	1	None	MOP3, JAP3, BMAL1, PASD3, bHLHe5
11	ARNTL	ENSG00000133794	ENST00000531665	protein_coding	PUTATIVE	None	701	183	60	13331533	13378644	1	None	MOP3, JAP3, BMAL1, PASD3, bHLHe5
11	ARNTL	ENSG00000133794	ENST00000485918	retained_intron	KNOWN	None	701	None	None	13371492	13376178	1	None	MOP3, JAP3, BMAL1, PASD3, bHLHe5
11	ARNTL	ENSG00000133794	ENST00000403482	protein_coding	PUTATIVE	None	701	1875	624	13378425	13408813	1	None	MOP3, JAP3, BMAL1, PASD3, bHLHe5
11	ARNTL	ENSG00000133794	ENST00000497429	processed_transcript	KNOWN	None	701	None	None	13379981	13393956	1	None	MOP3, JAP3, BMAL1, PASD3, bHLHe5
11	ARNTL	ENSG00000133794	ENST00000534102	retained_intron	KNOWN	None	701	None	None	13386963	13391287	1	None	MOP3, JAP3, BMAL1, PASD3, bHLHe5
11	ARNTL	ENSG00000133794	ENST00000529390	retained_intron	KNOWN	None	701	None	None	13393756	13398318	1	None	MOP3, JAP3, BMAL1, PASD3, bHLHe5
11	ARNTL	ENSG00000133794	ENST00000524392	nonsense_mediated_decay	KNOWN	None	701	516	171	13395640	13408813	1	None	MOP3, JAP3, BMAL1, PASD3, bHLHe5
11	ARNTL	ENSG00000133794	ENST00000472842	retained_intron	KNOWN	None	701	None	None	13397226	13408810	1	None	MOP3, JAP3, BMAL1, PASD3, bHLHe5
11	ARNTL	ENSG00000133794	ENST00000396441	protein_coding	KNOWN	CCDS31430	701	1878	625	13299325	13408808	1	None	MOP3, JAP3, BMAL1, PASD3, bHLHe5
11	ARNTL	ENSG00000133794	ENST00000361003	protein_coding	KNOWN	None	701	1527	508	13299378	13408808	1	None	MOP3, JAP3, BMAL1, PASD3, bHLHe5
11	ARNTL	ENSG00000133794	ENST00000389708	protein_coding	KNOWN	None	701	1581	526	13299378	13408808	1	None	MOP3, JAP3, BMAL1, PASD3, bHLHe5
12	None	ENSG00000257337	ENST00000549388	antisense	KNOWN	None	None	None	None	53408380	53412743	-1	None	None
12	None	ENSG00000257337	ENST00000552905	antisense	KNOWN	None	None	None	None	53408413	53440743	-1	None	None
12	None	ENSG00000257337	ENST00000546566	antisense	KNOWN	None	None	None	None	53433383	53440834	-1	None	None
12	None	ENSG00000257337	ENST00000550601	antisense	KNOWN	None	None	None	None	53433502	53448168	-1	None	None
12	None	ENSG00000257337	ENST00000607643	antisense	KNOWN	None	None	None	None	53436489	53439787	-1	None	None
12	None	ENSG00000257337	ENST00000546767	antisense	KNOWN	None	None	None	None	53436669	53439845	-1	None	None
12	None	ENSG00000257337	ENST00000546793	antisense	KNOWN	None	None	None	None	53436973	53448222	-1	None	None
12	None	ENSG00000257337	ENST00000551890	antisense	KNOWN	None	None	None	None	53446888	53448202	-1	None	None
1	None	ENSG00000241670	ENST00000450734	processed_pseudogene	KNOWN	None	None	None	None	228319	228775	-1	None	None
1	None	ENSG00000241670	ENST00000424429	processed_pseudogene	KNOWN	None	None	None	None	228292	228654	-1	None	None
12	None	ENSG00000257359	ENST00000550206	antisense	KNOWN	None	None	None	None	114370374	114375060	1	None	None
3	None	ENSG00000265076	ENST00000579051	miRNA	NOVEL	None	None	None	None	103773552	103773640	-1	None	None
1	None	ENSG00000233396	ENST00000433081	lincRNA	KNOWN	None	None	None	None	145376125	145382397	-1	None	None
1	None	ENSG00000233396	ENST00000452883	lincRNA	KNOWN	None	None	None	None	145376167	145377772	-1	None	None
1	None	ENSG00000233396	ENST00000419817	lincRNA	KNOWN	None	None	None	None	145376327	145382362	-1	None	None
1	None	ENSG00000233396	ENST00000457465	lincRNA	KNOWN	None	None	None	None	145377066	145378049	-1	None	None
12	None	ENSG00000261324	ENST00000562691	sense_overlapping	KNOWN	None	None	None	None	14915438	14920865	-1	None	None
8	None	ENSG00000244159	ENST00000498403	processed_pseudogene	KNOWN	None	None	None	None	54799568	54799804	-1	None	None
3	None	ENSG00000214405	ENST00000478270	processed_pseudogene	KNOWN	None	None	None	None	103781883	103782426	1	None	None
3	None	ENSG00000242036	ENST00000471495	processed_pseudogene	KNOWN	None	None	None	None	167674099	167674404	-1	None	None
5	MRPL36	ENSG00000171421	ENST00000505059	protein_coding	KNOWN	CCDS3865	14490	312	103	1798500	1799953	-1	None	BRIP1, RPMJ, L36mt, PRPL36, MRP-L36
5	MRPL36	ENSG00000171421	ENST00000505818	protein_coding	KNOWN	CCDS3865	14490	312	103	1798500	1801480	-1	None	BRIP1, RPMJ, L36mt, PRPL36, MRP-L36
5	MRPL36	ENSG00000171421	ENST00000508987	protein_coding	KNOWN	CCDS3865	14490	312	103	1798501	1800009	-1	None	BRIP1, RPMJ, L36mt, PRPL36, MRP-L36
5	MRPL36	ENSG00000171421	ENST00000382647	protein_coding	KNOWN	CCDS3865	14490	312	103	1798504	1799952	-1	None	BRIP1, RPMJ, L36mt, PRPL36, MRP-L36
5	MRPL36	ENSG00000171421	ENST00000510999	protein_coding	PUTATIVE	None	14490	107	34	1798943	1799864	-1	None	BRIP1, RPMJ, L36mt, PRPL36, MRP-L36
21	None	ENSG00000228355	ENST00000456613	antisense	KNOWN	None	None	None	None	46798116	46799539	-1	None	None
21	None	ENSG00000228355	ENST00000416468	antisense	KNOWN	None	None	None	None	46798251	46799550	-1	None	None
10	ENTPD7	ENSG00000198018	ENST00000370489	protein_coding	KNOWN	CCDS7480	19745	1815	604	101419263	101465997	1	None	LALP1, FLJ30978
10	ENTPD7	ENSG00000198018	ENST00000472998	nonsense_mediated_decay	KNOWN	None	19745	211	69	101458423	101462431	1	None	LALP1, FLJ30978
8	MIR4660	ENSG00000263407	ENST00000583549	miRNA	KNOWN	None	41861	None	None	8905955	8906028	1	None	hsa-mir-4660
3	None	ENSG00000224049	ENST00000433178	lincRNA	KNOWN	None	None	None	None	187513975	187523046	1	None	None
3	None	ENSG00000224049	ENST00000417384	lincRNA	KNOWN	None	None	None	None	187514043	187522925	1	None	None
16	None	ENSG00000260933	ENST00000566263	processed_pseudogene	KNOWN	None	None	None	None	18264213	18264816	1	None	None
15	RNA5SP395	ENSG00000252376	ENST00000516567	rRNA	KNOWN	None	43295	None	None	50755578	50755695	1	RN5S395	None
3	None	ENSG00000264327	ENST00000581952	miRNA	NOVEL	None	None	None	None	53631903	53631994	1	None	None
14	NT5CP1	ENSG00000258524	ENST00000554092	processed_pseudogene	KNOWN	None	20046	None	None	74037863	74038371	-1	None	None
3	None	ENSG00000243635	ENST00000486888	processed_pseudogene	KNOWN	None	None	None	None	104221544	104222110	1	None	None
8	ZDHHC2	ENSG00000104219	ENST00000262096	protein_coding	KNOWN	CCDS47810	18469	1104	367	17013538	17082308	1	None	ZNF372
8	ZDHHC2	ENSG00000104219	ENST00000523132	protein_coding	PUTATIVE	None	18469	22	6	17014943	17042324	1	None	ZNF372
8	ZDHHC2	ENSG00000104219	ENST00000522184	protein_coding	PUTATIVE	None	18469	391	129	17020308	17063213	1	None	ZNF372
8	ZDHHC2	ENSG00000104219	ENST00000517334	retained_intron	KNOWN	None	18469	None	None	17065522	17067694	1	None	ZNF372
12	None	ENSG00000256199	ENST00000541885	lincRNA	KNOWN	None	None	None	None	64900946	64927418	-1	None	None
X	None	ENSG00000270678	ENST00000603753	processed_pseudogene	KNOWN	None	None	None	None	120066755	120067006	1	None	None
8	RNU6-1331P	ENSG00000200528	ENST00000363658	snRNA	KNOWN	None	48294	None	None	54827279	54827384	1	None	None
11	None	ENSG00000214797	ENST00000399003	lincRNA	KNOWN	None	None	None	None	59036349	59051506	-1	None	None
17	RPH3AL	ENSG00000181031	ENST00000331302	protein_coding	KNOWN	CCDS10994	10296	948	315	62293	202598	-1	None	Noc2
17	RPH3AL	ENSG00000181031	ENST00000323434	protein_coding	KNOWN	CCDS54059	10296	861	286	62293	202888	-1	None	Noc2
17	RPH3AL	ENSG00000181031	ENST00000572965	retained_intron	KNOWN	None	10296	None	None	63115	65724	-1	None	Noc2
17	RPH3AL	ENSG00000181031	ENST00000536489	protein_coding	KNOWN	CCDS54059	10296	861	286	63436	202633	-1	None	Noc2
17	RPH3AL	ENSG00000181031	ENST00000572075	processed_transcript	KNOWN	None	10296	None	None	63595	84376	-1	None	Noc2
17	RPH3AL	ENSG00000181031	ENST00000570893	processed_transcript	KNOWN	None	10296	None	None	63615	97478	-1	None	Noc2
17	RPH3AL	ENSG00000181031	ENST00000576001	processed_transcript	KNOWN	None	10296	None	None	64493	169271	-1	None	Noc2
17	RPH3AL	ENSG00000181031	ENST00000570954	processed_transcript	KNOWN	None	10296	None	None	69488	156472	-1	None	Noc2
17	RPH3AL	ENSG00000181031	ENST00000576420	protein_coding	KNOWN	None	10296	604	200	96911	188836	-1	None	Noc2
17	RPH3AL	ENSG00000181031	ENST00000577079	protein_coding	KNOWN	None	10296	580	192	96935	202581	-1	None	Noc2
17	RPH3AL	ENSG00000181031	ENST00000574722	protein_coding	KNOWN	None	10296	446	147	96982	180818	-1	None	Noc2
17	RPH3AL	ENSG00000181031	ENST00000570638	protein_coding	KNOWN	None	10296	457	151	97058	188902	-1	None	Noc2
17	RPH3AL	ENSG00000181031	ENST00000574953	protein_coding	PUTATIVE	None	10296	474	157	111480	177322	-1	None	Noc2
17	RPH3AL	ENSG00000181031	ENST00000573780	protein_coding	KNOWN	None	10296	437	144	131560	236045	-1	None	Noc2
17	RPH3AL	ENSG00000181031	ENST00000575736	protein_coding	KNOWN	None	10296	378	125	131619	189450	-1	None	Noc2
17	RPH3AL	ENSG00000181031	ENST00000575130	protein_coding	KNOWN	None	10296	330	109	169232	236024	-1	None	Noc2
17	RPH3AL	ENSG00000181031	ENST00000575634	protein_coding	KNOWN	None	10296	264	87	169298	191214	-1	None	Noc2
17	RPH3AL	ENSG00000181031	ENST00000573588	protein_coding	KNOWN	None	10296	249	82	169313	183857	-1	None	Noc2
17	RPH3AL	ENSG00000181031	ENST00000573448	protein_coding	KNOWN	None	10296	113	36	171171	188664	-1	None	Noc2
17	RPH3AL	ENSG00000181031	ENST00000574011	processed_transcript	PUTATIVE	None	10296	None	None	182997	185813	-1	None	Noc2
17	RPH3AL	ENSG00000181031	ENST00000572866	processed_transcript	PUTATIVE	None	10296	None	None	198701	202592	-1	None	Noc2
21	COL18A1-AS2	ENSG00000224574	ENST00000446475	antisense	KNOWN	None	40155	None	None	46827301	46829980	-1	None	None
X	None	ENSG00000232155	ENST00000441884	processed_pseudogene	KNOWN	None	None	None	None	153834111	153834203	1	None	None
1	TTLL10	ENSG00000162571	ENST00000506177	processed_transcript	PUTATIVE	None	26693	None	None	1109264	1110414	1	TTLL5	FLJ36119
1	TTLL10	ENSG00000162571	ENST00000379290	protein_coding	KNOWN	CCDS44036	26693	2022	673	1109283	1133315	1	TTLL5	FLJ36119
1	TTLL10	ENSG00000162571	ENST00000379288	protein_coding	KNOWN	CCDS8	26693	1215	404	1115077	1121244	1	TTLL5	FLJ36119
1	TTLL10	ENSG00000162571	ENST00000460998	retained_intron	KNOWN	None	26693	None	None	1115864	1119307	1	TTLL5	FLJ36119
1	TTLL10	ENSG00000162571	ENST00000514695	retained_intron	KNOWN	None	26693	None	None	1115917	1116264	1	TTLL5	FLJ36119
1	TTLL10	ENSG00000162571	ENST00000486379	nonsense_mediated_decay	KNOWN	None	26693	137	44	1120416	1132855	1	TTLL5	FLJ36119
1	TTLL10	ENSG00000162571	ENST00000379289	protein_coding	KNOWN	CCDS44036	26693	2022	673	1109286	1133313	1	TTLL5	FLJ36119
1	ITLN2	ENSG00000158764	ENST00000368029	protein_coding	KNOWN	CCDS1212	20599	978	325	160914815	160924589	-1	None	HL-2
1	ITLN2	ENSG00000158764	ENST00000494442	processed_transcript	KNOWN	None	20599	None	None	160914884	160920802	-1	None	HL-2
1	ITLN2	ENSG00000158764	ENST00000490489	processed_transcript	KNOWN	None	20599	None	None	160920343	160921264	-1	None	HL-2
12	None	ENSG00000223294	ENST00000411362	snoRNA	NOVEL	None	None	None	None	64969445	64969521	1	None	None
15	SNORD108	ENSG00000239014	ENST00000459332	snoRNA	KNOWN	None	32772	None	None	25232072	25232142	1	None	HBII-437
12	None	ENSG00000257925	ENST00000547748	antisense	KNOWN	None	None	None	None	47631517	47672804	-1	None	None
14	MIR548Y	ENSG00000263945	ENST00000582739	miRNA	KNOWN	None	38980	None	None	48230198	48230307	-1	None	hsa-mir-548y
HSCHR6_MHC_QBL	UBQLN1P1	ENSG00000236122	ENST00000422739	processed_pseudogene	KNOWN	None	21633	None	None	30320389	30321557	-1	UBQLN1P	None
15	None	ENSG00000261687	ENST00000565685	antisense	KNOWN	None	None	None	None	43476277	43477339	-1	None	None
6	SLC22A2	ENSG00000112499	ENST00000486916	processed_transcript	KNOWN	None	10966	None	None	160592093	160666573	-1	None	OCT2
6	SLC22A2	ENSG00000112499	ENST00000366953	protein_coding	KNOWN	CCDS5276	10966	1668	555	160637794	160680048	-1	None	OCT2
6	SLC22A2	ENSG00000112499	ENST00000498556	processed_transcript	KNOWN	None	10966	None	None	160638046	160639316	-1	None	OCT2
6	SLC22A2	ENSG00000112499	ENST00000491092	processed_transcript	KNOWN	None	10966	None	None	160638485	160679790	-1	None	OCT2
6	SLC22A2	ENSG00000112499	ENST00000474259	processed_transcript	KNOWN	None	10966	None	None	160664741	160679821	-1	None	OCT2
6	SLC22A2	ENSG00000112499	ENST00000366952	protein_coding	KNOWN	None	10966	1005	334	160665217	160698670	-1	None	OCT2
6	SLC22A2	ENSG00000112499	ENST00000489644	processed_transcript	KNOWN	None	10966	None	None	160678782	160679771	-1	None	OCT2
22	MGAT3	ENSG00000128268	ENST00000341184	protein_coding	KNOWN	CCDS13994	7046	1602	533	39853349	39888199	1	None	GNT-III
22	MGAT3	ENSG00000128268	ENST00000429402	protein_coding	KNOWN	None	7046	483	160	39868793	39883835	1	None	GNT-III
22	MGAT3	ENSG00000128268	ENST00000418314	protein_coding	PUTATIVE	None	7046	325	107	39873518	39883593	1	None	GNT-III
12	None	ENSG00000256670	ENST00000546135	antisense	KNOWN	None	None	None	None	64992858	65003239	-1	None	None
3	None	ENSG00000271916	ENST00000607740	antisense	KNOWN	None	None	None	None	53831791	53832046	-1	None	None
8	None	ENSG00000252543	ENST00000516734	snoRNA	NOVEL	None	None	None	None	8916049	8916140	-1	None	None
12	RN7SKP261	ENSG00000222880	ENST00000410948	misc_RNA	KNOWN	None	45985	None	None	80737295	80737572	-1	None	None
8	ADAM24P	ENSG00000214607	ENST00000398655	unitary_pseudogene	KNOWN	None	203	None	None	17327027	17329127	1	None	None
8	RNU7-55P	ENSG00000239078	ENST00000459426	snRNA	KNOWN	None	10239	None	None	8929965	8930026	-1	RNU7P4	HSU7.36, U7.55
12	None	ENSG00000256339	ENST00000444324	antisense	KNOWN	None	None	None	None	14994026	14997642	1	None	None
3	None	ENSG00000244652	ENST00000493346	processed_pseudogene	KNOWN	None	None	None	None	106044584	106045140	-1	None	None
12	None	ENSG00000257603	ENST00000552413	lincRNA	KNOWN	None	None	None	None	114514938	114517707	1	None	None
14	None	ENSG00000258603	ENST00000555011	antisense	KNOWN	None	None	None	None	74083412	74100482	-1	None	None
14	None	ENSG00000258603	ENST00000555500	antisense	KNOWN	None	None	None	None	74086394	74100644	-1	None	None
20	None	ENSG00000256874	ENST00000544332	pseudogene	NOVEL	None	None	None	None	11790813	11791095	-1	None	None
HSCHR6_MHC_QBL	None	ENSG00000257478	ENST00000551857	pseudogene	NOVEL	None	None	None	None	30321757	30321880	1	None	None
11	None	ENSG00000243353	ENST00000479709	processed_pseudogene	KNOWN	None	None	None	None	113621838	113622008	-1	None	None
11	None	ENSG00000256469	ENST00000545958	antisense	KNOWN	None	None	None	None	94607217	94658686	-1	None	None
21	COL18A1-AS1	ENSG00000183535	ENST00000397787	processed_transcript	KNOWN	None	23132	None	None	46839631	46844955	-1	C21orf123, NCRNA00175	PRED80
21	COL18A1-AS1	ENSG00000183535	ENST00000485206	processed_transcript	KNOWN	None	23132	None	None	46839631	46844985	-1	C21orf123, NCRNA00175	PRED80
17	None	ENSG00000267505	ENST00000585620	lincRNA	KNOWN	None	None	None	None	42870567	42871842	1	None	None
15	None	ENSG00000271347	ENST00000604451	sense_intronic	KNOWN	None	None	None	None	25236633	25236900	1	None	None
3	None	ENSG00000200610	ENST00000363740	misc_RNA	NOVEL	None	None	None	None	106234744	106234845	1	None	None
3	None	ENSG00000271976	ENST00000607783	antisense	KNOWN	None	None	None	None	53893021	53895603	-1	None	None
12	MIR548C	ENSG00000207546	ENST00000384815	miRNA	KNOWN	None	32800	None	None	65016289	65016385	1	MIRN548C	hsa-mir-548c
HSCHR6_MHC_QBL	None	ENSG00000257299	ENST00000551687	pseudogene	NOVEL	None	None	None	None	30325459	30325567	-1	None	None
3	None	ENSG00000200361	ENST00000363491	misc_RNA	NOVEL	None	None	None	None	106407525	106407626	1	None	None
3	HMGN2P26	ENSG00000241203	ENST00000463169	processed_pseudogene	KNOWN	None	39393	None	None	167676532	167676870	1	None	None
X	None	ENSG00000270493	ENST00000605279	processed_pseudogene	KNOWN	None	None	None	None	120071616	120071869	1	None	None
17	None	ENSG00000267405	ENST00000591137	lincRNA	KNOWN	None	None	None	None	42872115	42875151	-1	None	None
12	None	ENSG00000257997	ENST00000549266	lincRNA	KNOWN	None	None	None	None	114518186	114551294	1	None	None
12	None	ENSG00000257997	ENST00000546791	lincRNA	KNOWN	None	None	None	None	114518194	114551294	1	None	None
3	ALG1L15P	ENSG00000242017	ENST00000482834	processed_pseudogene	KNOWN	None	44384	None	None	155761944	155762737	-1	None	None
11	ST13P11	ENSG00000213368	ENST00000439405	processed_pseudogene	KNOWN	None	38746	None	None	94646212	94646931	1	None	None
11	None	ENSG00000254704	ENST00000532980	processed_pseudogene	KNOWN	None	None	None	None	59054812	59056959	-1	None	None
4	None	ENSG00000245685	ENST00000506276	lincRNA	KNOWN	None	None	None	None	190701490	190861426	-1	None	None
4	None	ENSG00000245685	ENST00000511785	lincRNA	KNOWN	None	None	None	None	190742266	190838477	-1	None	None
4	None	ENSG00000245685	ENST00000508156	lincRNA	KNOWN	None	None	None	None	190742635	190860896	-1	None	None
4	None	ENSG00000245685	ENST00000501825	lincRNA	KNOWN	None	None	None	None	190785417	190860992	-1	None	None
12	None	ENSG00000258181	ENST00000547777	lincRNA	KNOWN	None	None	None	None	47641907	47643068	1	None	None
12	None	ENSG00000258181	ENST00000552063	lincRNA	KNOWN	None	None	None	None	47642919	47651322	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000258263	ENST00000549764	pseudogene	NOVEL	None	None	None	None	30339804	30339888	-1	None	None
12	None	ENSG00000257424	ENST00000551672	processed_transcript	KNOWN	None	None	None	None	80849275	80852604	-1	None	None
12	None	ENSG00000225195	ENST00000444853	processed_transcript	PUTATIVE	None	None	None	None	65022124	65023756	1	None	None
8	None	ENSG00000253233	ENST00000521358	processed_pseudogene	KNOWN	None	None	None	None	39724955	39725331	-1	None	None
8	None	ENSG00000254340	ENST00000520017	antisense	KNOWN	None	None	None	None	8998934	9002945	1	None	None
8	None	ENSG00000254340	ENST00000522057	antisense	KNOWN	None	None	None	None	8999032	9002933	1	None	None
9	None	ENSG00000269946	ENST00000602703	lincRNA	KNOWN	None	None	None	None	96928571	96962909	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000257665	ENST00000550452	pseudogene	NOVEL	None	None	None	None	30349771	30349858	1	None	None
3	None	ENSG00000222888	ENST00000410956	miRNA	NOVEL	None	None	None	None	53916213	53916296	-1	None	None
7	ZSCAN25	ENSG00000197037	ENST00000481424	retained_intron	KNOWN	None	21961	None	None	99214569	99230022	1	ZNF498	FLJ32468
7	ZSCAN25	ENSG00000197037	ENST00000394150	nonsense_mediated_decay	KNOWN	None	21961	489	162	99214571	99228527	1	ZNF498	FLJ32468
7	ZSCAN25	ENSG00000197037	ENST00000394152	protein_coding	KNOWN	CCDS5671	21961	1635	544	99214571	99230030	1	ZNF498	FLJ32468
7	ZSCAN25	ENSG00000197037	ENST00000473646	retained_intron	KNOWN	None	21961	None	None	99214576	99222107	1	ZNF498	FLJ32468
7	ZSCAN25	ENSG00000197037	ENST00000493443	processed_transcript	KNOWN	None	21961	None	None	99214576	99227091	1	ZNF498	FLJ32468
7	ZSCAN25	ENSG00000197037	ENST00000431485	protein_coding	KNOWN	None	21961	210	69	99214589	99217439	1	ZNF498	FLJ32468
7	ZSCAN25	ENSG00000197037	ENST00000466948	processed_transcript	KNOWN	None	21961	None	None	99217288	99228531	1	ZNF498	FLJ32468
7	ZSCAN25	ENSG00000197037	ENST00000485586	retained_intron	KNOWN	None	21961	None	None	99218684	99229994	1	ZNF498	FLJ32468
7	ZSCAN25	ENSG00000197037	ENST00000334715	protein_coding	KNOWN	CCDS5671	21961	1635	544	99217173	99230030	1	ZNF498	FLJ32468
7	ZSCAN25	ENSG00000197037	ENST00000262941	protein_coding	KNOWN	None	21961	1419	472	99217230	99230024	1	ZNF498	FLJ32468
14	LINC00648	ENSG00000259129	ENST00000555985	lincRNA	KNOWN	None	44302	None	None	48234157	48264217	-1	None	None
14	LINC00648	ENSG00000259129	ENST00000553747	lincRNA	KNOWN	None	44302	None	None	48235889	48259146	-1	None	None
14	LINC00648	ENSG00000259129	ENST00000557749	lincRNA	KNOWN	None	44302	None	None	48236268	48264295	-1	None	None
14	LINC00648	ENSG00000259129	ENST00000556923	lincRNA	KNOWN	None	44302	None	None	48236803	48259146	-1	None	None
20	DNMT3B	ENSG00000088305	ENST00000328111	protein_coding	KNOWN	CCDS13205	2979	2562	853	31350191	31397162	1	None	None
20	DNMT3B	ENSG00000088305	ENST00000353855	protein_coding	KNOWN	CCDS13206	2979	2502	833	31350230	31397162	1	None	None
20	DNMT3B	ENSG00000088305	ENST00000348286	protein_coding	KNOWN	CCDS13207	2979	2313	770	31350230	31397162	1	None	None
20	DNMT3B	ENSG00000088305	ENST00000443239	protein_coding	KNOWN	CCDS56183	2979	2187	728	31350402	31396086	1	None	None
20	DNMT3B	ENSG00000088305	ENST00000456297	protein_coding	KNOWN	CCDS56184	2979	2085	694	31350448	31395875	1	None	None
20	DNMT3B	ENSG00000088305	ENST00000201963	protein_coding	KNOWN	CCDS13204	2979	2538	845	31367658	31397162	1	None	None
20	DNMT3B	ENSG00000088305	ENST00000344505	protein_coding	KNOWN	None	2979	2379	792	31350415	31397161	1	None	None
20	DNMT3B	ENSG00000088305	ENST00000375623	protein_coding	KNOWN	None	2979	999	332	31350424	31388709	1	None	None
3	None	ENSG00000251938	ENST00000516129	snoRNA	NOVEL	None	None	None	None	47130098	47130169	1	None	None
9	MIRLET7A1	ENSG00000199165	ENST00000362295	miRNA	KNOWN	None	31476	None	None	96938234	96938325	1	MIRNLET7A1	hsa-let-7a-1
3	None	ENSG00000242537	ENST00000464884	processed_pseudogene	KNOWN	None	None	None	None	155829221	155831987	-1	None	None
17	RN7SL405P	ENSG00000264540	ENST00000582502	misc_RNA	KNOWN	None	46421	None	None	42961354	42961639	1	None	None
12	None	ENSG00000255727	ENST00000542689	lincRNA	KNOWN	None	None	None	None	15154767	15159617	1	None	None
X	ATF4P1	ENSG00000213338	ENST00000443279	processed_pseudogene	KNOWN	None	789	None	None	153850679	153851751	-1	TXREBP, ATF4P	TAXREB67P
7	TMEM168	ENSG00000146802	ENST00000312814	protein_coding	KNOWN	CCDS5757	25826	2094	697	112405718	112430647	-1	None	DKFZp564C012,FLJ13576
7	TMEM168	ENSG00000146802	ENST00000454074	protein_coding	KNOWN	CCDS5757	25826	2094	697	112407140	112430448	-1	None	DKFZp564C012,FLJ13576
7	TMEM168	ENSG00000146802	ENST00000447395	protein_coding	KNOWN	None	25826	942	313	112407191	112430478	-1	None	DKFZp564C012,FLJ13576
7	TMEM168	ENSG00000146802	ENST00000418785	protein_coding	NOVEL	None	25826	777	258	112407230	112423800	-1	None	DKFZp564C012,FLJ13576
7	TMEM168	ENSG00000146802	ENST00000449743	protein_coding	PUTATIVE	None	25826	373	123	112412857	112430434	-1	None	DKFZp564C012,FLJ13576
7	TMEM168	ENSG00000146802	ENST00000441474	protein_coding	PUTATIVE	None	25826	337	111	112413001	112430445	-1	None	DKFZp564C012,FLJ13576
7	TMEM168	ENSG00000146802	ENST00000480969	processed_transcript	PUTATIVE	None	25826	None	None	112413070	112418711	-1	None	DKFZp564C012,FLJ13576
7	None	ENSG00000221113	ENST00000408186	miRNA	NOVEL	None	None	None	None	155664585	155664701	1	None	None
16	PAQR4	ENSG00000162073	ENST00000318782	protein_coding	KNOWN	CCDS10485	26386	822	273	3019246	3023490	1	None	FLJ30002
16	PAQR4	ENSG00000162073	ENST00000293978	protein_coding	KNOWN	None	26386	705	234	3019271	3023483	1	None	FLJ30002
16	PAQR4	ENSG00000162073	ENST00000576565	protein_coding	PUTATIVE	None	26386	621	206	3019342	3022032	1	None	FLJ30002
16	PAQR4	ENSG00000162073	ENST00000572687	protein_coding	NOVEL	None	26386	600	199	3019559	3023483	1	None	FLJ30002
16	PAQR4	ENSG00000162073	ENST00000574988	protein_coding	PUTATIVE	None	26386	621	206	3020979	3021983	1	None	FLJ30002
20	RN7SKP111	ENSG00000222281	ENST00000410349	misc_RNA	KNOWN	None	45835	None	None	11799469	11799739	-1	None	None
9	MIRLET7F1	ENSG00000199072	ENST00000362202	miRNA	KNOWN	None	31483	None	None	96938629	96938715	1	MIRNLET7F1	hsa-let-7f-1
17	None	ENSG00000224911	ENST00000441312	antisense	KNOWN	None	None	None	None	42980529	42981914	-1	None	None
3	None	ENSG00000236864	ENST00000413056	lincRNA	KNOWN	None	None	None	None	187650552	187664009	-1	None	None
1	RNVU1-6	ENSG00000201558	ENST00000364688	snRNA	KNOWN	None	48314	None	None	145382757	145382920	1	None	vU1.6, RNU1-99
3	MCF2L2	ENSG00000053524	ENST00000328913	protein_coding	KNOWN	CCDS3243	30319	3345	1114	182895831	183146063	-1	None	KIAA0861, ARHGEF22
3	MCF2L2	ENSG00000053524	ENST00000473233	protein_coding	KNOWN	None	30319	3225	1074	182895838	183145765	-1	None	KIAA0861, ARHGEF22
3	MCF2L2	ENSG00000053524	ENST00000478652	retained_intron	KNOWN	None	30319	None	None	182897077	182898101	-1	None	KIAA0861, ARHGEF22
3	MCF2L2	ENSG00000053524	ENST00000464626	retained_intron	KNOWN	None	30319	None	None	182897158	182898099	-1	None	KIAA0861, ARHGEF22
3	MCF2L2	ENSG00000053524	ENST00000468976	processed_transcript	KNOWN	None	30319	None	None	182900290	182925488	-1	None	KIAA0861, ARHGEF22
3	MCF2L2	ENSG00000053524	ENST00000488149	retained_intron	KNOWN	None	30319	None	None	182910437	183118336	-1	None	KIAA0861, ARHGEF22
3	MCF2L2	ENSG00000053524	ENST00000447025	protein_coding	KNOWN	None	30319	2136	711	182945914	183145873	-1	None	KIAA0861, ARHGEF22
3	MCF2L2	ENSG00000053524	ENST00000414362	protein_coding	KNOWN	None	30319	1887	628	182989808	183145889	-1	None	KIAA0861, ARHGEF22
3	MCF2L2	ENSG00000053524	ENST00000475664	retained_intron	KNOWN	None	30319	None	None	182994454	183013154	-1	None	KIAA0861, ARHGEF22
3	MCF2L2	ENSG00000053524	ENST00000459750	retained_intron	KNOWN	None	30319	None	None	183016215	183118281	-1	None	KIAA0861, ARHGEF22
3	MCF2L2	ENSG00000053524	ENST00000492331	retained_intron	KNOWN	None	30319	None	None	183017557	183028815	-1	None	KIAA0861, ARHGEF22
3	MCF2L2	ENSG00000053524	ENST00000482017	protein_coding	PUTATIVE	None	30319	373	123	183056617	183146566	-1	None	KIAA0861, ARHGEF22
3	MCF2L2	ENSG00000053524	ENST00000461074	retained_intron	KNOWN	None	30319	None	None	183089807	183118327	-1	None	KIAA0861, ARHGEF22
15	None	ENSG00000257647	ENST00000546615	lincRNA	KNOWN	None	None	None	None	25272883	25277194	-1	None	None
15	None	ENSG00000202211	ENST00000365341	misc_RNA	NOVEL	None	None	None	None	43539878	43539979	1	None	None
3	KIF9-AS1	ENSG00000227398	ENST00000429315	antisense	KNOWN	None	26822	None	None	47205987	47288091	1	None	FLJ39534
11	None	ENSG00000257070	ENST00000397185	processed_pseudogene	KNOWN	None	None	None	None	113640382	113640716	1	None	None
9	None	ENSG00000269929	ENST00000602652	lincRNA	KNOWN	None	None	None	None	96938740	96940174	1	None	None
17	KCNJ2-AS1	ENSG00000267365	ENST00000590966	antisense	KNOWN	None	43720	None	None	68163102	68165543	-1	None	FLJ36644
3	None	ENSG00000266363	ENST00000584981	miRNA	NOVEL	None	None	None	None	167921297	167921388	1	None	None
15	ATP5HP1	ENSG00000261679	ENST00000567898	processed_pseudogene	KNOWN	None	31021	None	None	43560102	43560586	-1	None	HsT18164
3	None	ENSG00000224187	ENST00000423643	lincRNA	KNOWN	None	None	None	None	187676563	187684755	-1	None	None
3	None	ENSG00000224187	ENST00000446091	lincRNA	KNOWN	None	None	None	None	187683556	187694195	-1	None	None
X	None	ENSG00000271154	ENST00000604330	processed_pseudogene	KNOWN	None	None	None	None	120076477	120076729	1	None	None
3	ATP2B2	ENSG00000157087	ENST00000352432	protein_coding	KNOWN	CCDS33701	815	3732	1243	10365707	10491297	-1	None	PMCA2
3	ATP2B2	ENSG00000157087	ENST00000383800	protein_coding	KNOWN	CCDS2601	815	3597	1198	10365707	10547341	-1	None	PMCA2
3	ATP2B2	ENSG00000157087	ENST00000460129	nonsense_mediated_decay	KNOWN	None	815	3465	1154	10365707	10575817	-1	None	PMCA2
3	ATP2B2	ENSG00000157087	ENST00000397077	protein_coding	KNOWN	CCDS2601	815	3597	1198	10365707	10749716	-1	None	PMCA2
3	ATP2B2	ENSG00000157087	ENST00000452124	protein_coding	PUTATIVE	None	815	3300	1099	10369782	10452359	-1	None	PMCA2
3	ATP2B2	ENSG00000157087	ENST00000467702	processed_transcript	KNOWN	None	815	None	None	10370130	10377984	-1	None	PMCA2
3	ATP2B2	ENSG00000157087	ENST00000468426	processed_transcript	KNOWN	None	815	None	None	10370495	10374008	-1	None	PMCA2
3	ATP2B2	ENSG00000157087	ENST00000480680	retained_intron	KNOWN	None	815	None	None	10429568	10547268	-1	None	PMCA2
3	ATP2B2	ENSG00000157087	ENST00000360273	protein_coding	KNOWN	CCDS33701	815	3732	1243	10365707	10547268	-1	None	PMCA2
3	ATP2B2	ENSG00000157087	ENST00000343816	protein_coding	KNOWN	None	815	3690	1229	10365707	10547268	-1	None	PMCA2
19	None	ENSG00000224864	ENST00000497576	transcribed_processed_pseudogene	KNOWN	None	None	None	None	20235853	20236293	1	None	None
19	None	ENSG00000224864	ENST00000434475	processed_pseudogene	KNOWN	None	None	None	None	20235248	20236293	1	None	None
3	LINC00882	ENSG00000242759	ENST00000484698	lincRNA	KNOWN	None	48568	None	None	106555658	106959479	-1	None	None
3	LINC00882	ENSG00000242759	ENST00000606742	lincRNA	KNOWN	None	48568	None	None	106828637	106848838	-1	None	None
3	LINC00882	ENSG00000242759	ENST00000607542	lincRNA	KNOWN	None	48568	None	None	106828637	106848838	-1	None	None
3	LINC00882	ENSG00000242759	ENST00000607801	lincRNA	KNOWN	None	48568	None	None	106828637	106959436	-1	None	None
3	LINC00882	ENSG00000242759	ENST00000477210	lincRNA	KNOWN	None	48568	None	None	106828637	106959485	-1	None	None
3	LINC00882	ENSG00000242759	ENST00000479612	lincRNA	KNOWN	None	48568	None	None	106830332	106959474	-1	None	None
3	LINC00882	ENSG00000242759	ENST00000473636	lincRNA	KNOWN	None	48568	None	None	106830713	106959488	-1	None	None
17	CALM2P1	ENSG00000267170	ENST00000585658	processed_pseudogene	KNOWN	None	1446	None	None	68237465	68237902	1	None	None
14	IGHV3-25	ENSG00000253441	ENST00000518224	IG_V_pseudogene	KNOWN	None	5589	None	None	106745623	106746073	-1	None	None
11	RN7SL435P	ENSG00000263944	ENST00000584418	misc_RNA	KNOWN	None	46451	None	None	59058526	59058806	-1	None	None
17	TNFAIP1	ENSG00000109079	ENST00000544907	protein_coding	PUTATIVE	None	11894	639	212	26662628	26672281	1	EDP1	B61, B12, MGC2317, BTBD34
17	TNFAIP1	ENSG00000109079	ENST00000578158	protein_coding	KNOWN	None	11894	322	106	26662679	26667451	1	EDP1	B61, B12, MGC2317, BTBD34
17	TNFAIP1	ENSG00000109079	ENST00000226225	protein_coding	KNOWN	CCDS11227	11894	951	316	26662730	26674035	1	EDP1	B61, B12, MGC2317, BTBD34
17	TNFAIP1	ENSG00000109079	ENST00000583213	processed_transcript	KNOWN	None	11894	None	None	26662787	26671536	1	EDP1	B61, B12, MGC2317, BTBD34
17	TNFAIP1	ENSG00000109079	ENST00000582302	protein_coding	KNOWN	None	11894	375	124	26663493	26667504	1	EDP1	B61, B12, MGC2317, BTBD34
17	TNFAIP1	ENSG00000109079	ENST00000577535	protein_coding	PUTATIVE	None	11894	472	156	26667432	26669538	1	EDP1	B61, B12, MGC2317, BTBD34
17	None	ENSG00000267334	ENST00000591013	lincRNA	KNOWN	None	None	None	None	43025280	43026307	1	None	None
12	None	ENSG00000257786	ENST00000547384	processed_pseudogene	KNOWN	None	None	None	None	80954796	80955339	-1	None	None
X	RNU7-56P	ENSG00000238709	ENST00000458744	snRNA	KNOWN	None	34152	None	None	16785967	16786028	1	None	U7.56
14	HIGD1AP17	ENSG00000258886	ENST00000554576	processed_pseudogene	KNOWN	None	43012	None	None	31433553	31433828	1	None	None
11	OR5AN2P	ENSG00000235678	ENST00000534535	unprocessed_pseudogene	KNOWN	None	15256	None	None	59077154	59078049	-1	None	None
20	None	ENSG00000271298	ENST00000605565	processed_pseudogene	KNOWN	None	None	None	None	11819003	11819222	1	None	None
8	None	ENSG00000253939	ENST00000517623	antisense	KNOWN	None	None	None	None	39761294	39852767	-1	None	None
X	None	ENSG00000230180	ENST00000441100	processed_pseudogene	KNOWN	None	None	None	None	16821356	16821476	1	None	None
8	MIR548V	ENSG00000265520	ENST00000584165	miRNA	KNOWN	None	38302	None	None	17539087	17539166	-1	None	hsa-mir-548v
7	None	ENSG00000207061	ENST00000384333	misc_RNA	NOVEL	None	None	None	None	155978816	155978917	-1	None	None
17	None	ENSG00000267109	ENST00000592809	lincRNA	KNOWN	None	None	None	None	68308972	68365057	-1	None	None
2	UGT1A6	ENSG00000167165	ENST00000373424	protein_coding	NOVEL	CCDS2508	12538	798	265	234600253	234681314	1	None	HLUGP, GNT1, UGT1F
2	UGT1A6	ENSG00000167165	ENST00000441351	protein_coding	KNOWN	None	12538	567	188	234600290	234602217	1	None	HLUGP, GNT1, UGT1F
2	UGT1A6	ENSG00000167165	ENST00000480628	processed_transcript	KNOWN	None	12538	None	None	234600348	234664997	1	None	HLUGP, GNT1, UGT1F
2	UGT1A6	ENSG00000167165	ENST00000446481	nonsense_mediated_decay	KNOWN	None	12538	531	176	234600356	234681115	1	None	HLUGP, GNT1, UGT1F
2	UGT1A6	ENSG00000167165	ENST00000305139	protein_coding	KNOWN	CCDS2507	12538	1599	532	234601512	234681946	1	None	HLUGP, GNT1, UGT1F
2	UGT1A6	ENSG00000167165	ENST00000484784	nonsense_mediated_decay	KNOWN	None	12538	204	67	234602311	234675805	1	None	HLUGP, GNT1, UGT1F
2	UGT1A6	ENSG00000167165	ENST00000478062	processed_transcript	PUTATIVE	None	12538	None	None	234602331	234638563	1	None	HLUGP, GNT1, UGT1F
2	UGT1A6	ENSG00000167165	ENST00000406651	protein_coding	PUTATIVE	None	12538	531	176	234602338	234678347	1	None	HLUGP, GNT1, UGT1F
X	IKBKGP1	ENSG00000224882	ENST00000453062	unprocessed_pseudogene	KNOWN	None	24455	None	None	153868251	153876549	-1	IKBKGP	deltaNEMO
8	RNA5SP272	ENSG00000251904	ENST00000516095	rRNA	KNOWN	None	43172	None	None	89408666	89408776	-1	RN5S272	None
8	None	ENSG00000253168	ENST00000517454	antisense	KNOWN	None	None	None	None	17561497	17563696	1	None	None
3	None	ENSG00000227709	ENST00000490318	processed_pseudogene	KNOWN	None	None	None	None	155893641	155894700	-1	None	None
17	None	ENSG00000267471	ENST00000585581	processed_pseudogene	KNOWN	None	None	None	None	68625058	68625406	-1	None	None
1	None	ENSG00000234222	ENST00000600340	antisense	KNOWN	None	None	None	None	145475982	145507857	-1	None	None
1	None	ENSG00000234222	ENST00000598103	antisense	KNOWN	None	None	None	None	145484751	145507857	-1	None	None
1	None	ENSG00000234222	ENST00000598354	antisense	KNOWN	None	None	None	None	145486034	145507857	-1	None	None
1	None	ENSG00000234222	ENST00000599469	antisense	KNOWN	None	None	None	None	145486043	145507857	-1	None	None
1	None	ENSG00000234222	ENST00000597144	antisense	KNOWN	None	None	None	None	145486263	145507857	-1	None	None
1	None	ENSG00000234222	ENST00000437207	antisense	KNOWN	None	None	None	None	145486272	145493959	-1	None	None
1	None	ENSG00000234222	ENST00000595518	antisense	KNOWN	None	None	None	None	145490462	145507857	-1	None	None
1	None	ENSG00000234222	ENST00000366105	antisense	KNOWN	None	None	None	None	145492839	145493891	-1	None	None
1	None	ENSG00000234222	ENST00000595494	antisense	KNOWN	None	None	None	None	145493007	145507857	-1	None	None
1	None	ENSG00000234222	ENST00000421764	antisense	KNOWN	None	None	None	None	145493881	145507490	-1	None	None
1	None	ENSG00000234222	ENST00000448561	antisense	KNOWN	None	None	None	None	145493881	145507611	-1	None	None
1	None	ENSG00000234222	ENST00000599626	antisense	KNOWN	None	None	None	None	145493881	145507857	-1	None	None
1	None	ENSG00000234222	ENST00000599147	antisense	KNOWN	None	None	None	None	145493881	145507857	-1	None	None
1	None	ENSG00000234222	ENST00000437797	antisense	KNOWN	None	None	None	None	145493881	145507988	-1	None	None
1	None	ENSG00000234222	ENST00000412239	antisense	KNOWN	None	None	None	None	145493884	145508218	-1	None	None
1	None	ENSG00000234222	ENST00000601726	antisense	KNOWN	None	None	None	None	145493893	145507857	-1	None	None
1	None	ENSG00000234222	ENST00000447686	antisense	KNOWN	None	None	None	None	145507357	145508319	-1	None	None
1	None	ENSG00000234222	ENST00000596355	antisense	KNOWN	None	None	None	None	145507600	145508503	-1	None	None
11	LAYN	ENSG00000204381	ENST00000533999	protein_coding	PUTATIVE	None	29471	148	48	111411005	111425937	1	None	FLJ30977, FLJ31092
11	LAYN	ENSG00000204381	ENST00000375614	protein_coding	KNOWN	CCDS31676	29471	1125	374	111411233	111431788	1	None	FLJ30977, FLJ31092
11	LAYN	ENSG00000204381	ENST00000375615	protein_coding	KNOWN	CCDS58178	29471	1149	382	111411384	111431685	1	None	FLJ30977, FLJ31092
11	LAYN	ENSG00000204381	ENST00000525126	protein_coding	PUTATIVE	None	29471	813	270	111411434	111431658	1	None	FLJ30977, FLJ31092
11	LAYN	ENSG00000204381	ENST00000525866	nonsense_mediated_decay	KNOWN	None	29471	405	134	111411445	111432264	1	None	FLJ30977, FLJ31092
11	LAYN	ENSG00000204381	ENST00000533265	protein_coding	PUTATIVE	None	29471	789	262	111411455	111431643	1	None	FLJ30977, FLJ31092
11	LAYN	ENSG00000204381	ENST00000530962	protein_coding	PUTATIVE	None	29471	327	108	111412058	111428366	1	None	FLJ30977, FLJ31092
11	LAYN	ENSG00000204381	ENST00000528924	processed_transcript	PUTATIVE	None	29471	None	None	111412165	111428368	1	None	FLJ30977, FLJ31092
11	LAYN	ENSG00000204381	ENST00000528102	protein_coding	PUTATIVE	None	29471	193	63	111412277	111422141	1	None	FLJ30977, FLJ31092
11	LAYN	ENSG00000204381	ENST00000436913	protein_coding	KNOWN	CCDS58179	29471	690	229	111411445	111432264	1	None	FLJ30977, FLJ31092
20	GHRH	ENSG00000118702	ENST00000373614	protein_coding	KNOWN	CCDS13292	4265	327	108	35879489	35890238	-1	GHRF	None
20	GHRH	ENSG00000118702	ENST00000373611	protein_coding	KNOWN	CCDS54460	4265	324	107	35879563	35885292	-1	GHRF	None
20	GHRH	ENSG00000118702	ENST00000237527	protein_coding	KNOWN	CCDS13292	4265	327	108	35879489	35885299	-1	GHRF	None
3	CABYRP1	ENSG00000242983	ENST00000465493	processed_pseudogene	KNOWN	None	31902	None	None	54081776	54082820	-1	CABYRP	None
8	None	ENSG00000250962	ENST00000509499	processed_pseudogene	KNOWN	None	None	None	None	89497339	89498323	1	None	None
8	None	ENSG00000253556	ENST00000520516	processed_pseudogene	KNOWN	None	None	None	None	104101024	104102899	1	None	None
17	MIR33B	ENSG00000207839	ENST00000385104	miRNA	KNOWN	None	32791	None	None	17717150	17717245	-1	MIRN33B	hsa-mir-33b
8	RNA5SP256	ENSG00000212280	ENST00000390978	rRNA	KNOWN	None	43156	None	None	17605627	17605739	1	RN5S256	None
11	None	ENSG00000205035	ENST00000534201	processed_transcript	KNOWN	None	None	None	None	49580098	49831969	1	None	None
11	None	ENSG00000205035	ENST00000530858	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	49582370	49831969	1	None	None
11	None	ENSG00000205035	ENST00000527477	processed_transcript	KNOWN	None	None	None	None	49582370	49831971	1	None	None
11	None	ENSG00000254471	ENST00000528393	processed_pseudogene	KNOWN	None	None	None	None	79698556	79700673	1	None	None
5	TMED7	ENSG00000134970	ENST00000456936	protein_coding	KNOWN	CCDS4120	24253	675	224	114949205	114961870	-1	None	CGI-109, FLJ90481
5	TMED7	ENSG00000134970	ENST00000503010	processed_transcript	PUTATIVE	None	24253	None	None	114951763	114961733	-1	None	CGI-109, FLJ90481
5	TMED7	ENSG00000134970	ENST00000508420	protein_coding	KNOWN	None	24253	245	80	114956325	114968689	-1	None	CGI-109, FLJ90481
X	MIR503	ENSG00000208005	ENST00000385270	miRNA	KNOWN	None	32138	None	None	133680358	133680428	-1	MIRN503	hsa-mir-503
15	None	ENSG00000257151	ENST00000552334	lincRNA	KNOWN	None	None	None	None	25277020	25281637	1	None	None
22	FAM211B	ENSG00000178026	ENST00000318753	protein_coding	KNOWN	CCDS42991	33155	948	315	24981588	24989030	-1	C22orf36	MGC131773
22	FAM211B	ENSG00000178026	ENST00000446942	nonsense_mediated_decay	KNOWN	None	33155	327	108	24981588	24989033	-1	C22orf36	MGC131773
22	FAM211B	ENSG00000178026	ENST00000491910	retained_intron	KNOWN	None	33155	None	None	24981603	24989040	-1	C22orf36	MGC131773
22	FAM211B	ENSG00000178026	ENST00000404045	nonsense_mediated_decay	KNOWN	None	33155	225	74	24981617	24989031	-1	C22orf36	MGC131773
22	FAM211B	ENSG00000178026	ENST00000460524	retained_intron	KNOWN	None	33155	None	None	24981630	24989046	-1	C22orf36	MGC131773
22	FAM211B	ENSG00000178026	ENST00000495297	processed_transcript	KNOWN	None	33155	None	None	24984650	24988252	-1	C22orf36	MGC131773
22	FAM211B	ENSG00000178026	ENST00000465334	retained_intron	KNOWN	None	33155	None	None	24985133	24989001	-1	C22orf36	MGC131773
22	FAM211B	ENSG00000178026	ENST00000464490	processed_transcript	KNOWN	None	33155	None	None	24985374	24989175	-1	C22orf36	MGC131773
17	None	ENSG00000197815	ENST00000354746	pseudogene	KNOWN	None	None	None	None	17761583	17762295	1	None	None
12	RERG-IT1	ENSG00000256650	ENST00000539734	sense_intronic	KNOWN	None	39991	None	None	15265297	15267632	-1	None	None
14	None	ENSG00000259117	ENST00000556055	processed_pseudogene	KNOWN	None	None	None	None	48271129	48271404	-1	None	None
HSCHR6_MHC_SSTO	HLA-G	ENSG00000233095	ENST00000434881	protein_coding	KNOWN	None	4964	1032	343	29791438	29795610	1	None	None
HSCHR6_MHC_SSTO	HLA-G	ENSG00000233095	ENST00000423011	protein_coding	KNOWN	None	4964	1017	338	29792292	29795610	1	None	None
HSCHR6_MHC_SSTO	HLA-G	ENSG00000233095	ENST00000448306	protein_coding	KNOWN	None	4964	465	154	29792316	29795610	1	None	None
HSCHR6_MHC_SSTO	HLA-G	ENSG00000233095	ENST00000430253	protein_coding	KNOWN	None	4964	741	246	29792316	29795610	1	None	None
HSCHR6_MHC_SSTO	HLA-G	ENSG00000233095	ENST00000480953	retained_intron	KNOWN	None	4964	None	None	29792316	29795610	1	None	None
HSCHR6_MHC_SSTO	HLA-G	ENSG00000233095	ENST00000434907	protein_coding	KNOWN	None	4964	741	246	29792316	29795610	1	None	None
HSCHR6_MHC_SSTO	HLA-G	ENSG00000233095	ENST00000547241	protein_coding	KNOWN	None	4964	1017	338	29791450	29795607	1	None	None
11	None	ENSG00000256603	ENST00000543486	antisense	KNOWN	None	None	None	None	113641115	113642413	-1	None	None
2	CDC42EP3	ENSG00000163171	ENST00000295324	protein_coding	KNOWN	CCDS1791	16943	765	254	37869032	37899334	-1	None	CEP3, UB1, BORG2
2	CDC42EP3	ENSG00000163171	ENST00000457889	protein_coding	KNOWN	None	16943	647	214	37873084	37899342	-1	None	CEP3, UB1, BORG2
2	CDC42EP3	ENSG00000163171	ENST00000453555	protein_coding	KNOWN	None	16943	104	33	37873627	37965611	-1	None	CEP3, UB1, BORG2
2	CDC42EP3	ENSG00000163171	ENST00000422687	protein_coding	KNOWN	None	16943	42	13	37873689	37874801	-1	None	CEP3, UB1, BORG2
2	CDC42EP3	ENSG00000163171	ENST00000494083	retained_intron	KNOWN	None	16943	None	None	37911626	37915992	-1	None	CEP3, UB1, BORG2
17	None	ENSG00000271239	ENST00000605009	lincRNA	KNOWN	None	None	None	None	68774745	68775371	-1	None	None
17	PRKCA	ENSG00000154229	ENST00000578063	nonsense_mediated_decay	KNOWN	None	9393	927	308	64298754	64699982	1	PKCA	None
17	PRKCA	ENSG00000154229	ENST00000583361	processed_transcript	KNOWN	None	9393	None	None	64298926	64336178	1	PKCA	None
17	PRKCA	ENSG00000154229	ENST00000413366	protein_coding	KNOWN	CCDS11664	9393	2019	672	64298944	64806861	1	PKCA	None
17	PRKCA	ENSG00000154229	ENST00000284384	nonsense_mediated_decay	KNOWN	None	9393	451	149	64298978	64771245	1	PKCA	None
17	PRKCA	ENSG00000154229	ENST00000583775	retained_intron	KNOWN	None	9393	None	None	64299075	64302466	1	PKCA	None
6	None	ENSG00000229017	ENST00000419957	antisense	KNOWN	None	None	None	None	143287558	143359214	-1	None	None
6	None	ENSG00000229017	ENST00000446115	antisense	KNOWN	None	None	None	None	143288170	143343090	-1	None	None
3	MYLK-AS2	ENSG00000250174	ENST00000510827	antisense	KNOWN	None	40387	None	None	123408491	123411254	1	None	None
3	MYLK-AS2	ENSG00000250174	ENST00000515464	antisense	KNOWN	None	40387	None	None	123410097	123411254	1	None	None
19	None	ENSG00000267383	ENST00000590606	antisense	KNOWN	None	None	None	None	20236186	20261357	-1	None	None
19	None	ENSG00000267383	ENST00000593655	antisense	KNOWN	None	None	None	None	20236228	20432114	-1	None	None
19	None	ENSG00000267383	ENST00000586657	antisense	KNOWN	None	None	None	None	20236354	20349261	-1	None	None
19	None	ENSG00000267383	ENST00000585498	antisense	KNOWN	None	None	None	None	20286909	20349269	-1	None	None
19	None	ENSG00000267383	ENST00000592022	antisense	KNOWN	None	None	None	None	20326955	20331228	-1	None	None
19	None	ENSG00000267383	ENST00000585816	antisense	KNOWN	None	None	None	None	20338819	20349240	-1	None	None
8	None	ENSG00000253252	ENST00000521298	lincRNA	KNOWN	None	None	None	None	9037761	9040029	-1	None	None
17	None	ENSG00000271101	ENST00000604782	processed_pseudogene	KNOWN	None	None	None	None	69008138	69009728	1	None	None
HSCHR6_MHC_COX	C6orf10	ENSG00000234280	ENST00000449847	protein_coding	KNOWN	None	13922	1692	563	32209049	32287912	-1	None	TSBP
HSCHR6_MHC_COX	C6orf10	ENSG00000234280	ENST00000427082	protein_coding	KNOWN	None	13922	1689	562	32209049	32287940	-1	None	TSBP
12	None	ENSG00000257429	ENST00000550634	antisense	KNOWN	None	None	None	None	80977462	80987480	-1	None	None
17	None	ENSG00000230273	ENST00000430089	processed_pseudogene	KNOWN	None	None	None	None	17884506	17884886	-1	None	None
10	AGAP9	ENSG00000198035	ENST00000456984	protein_coding	KNOWN	CCDS55710	23463	1977	658	48215836	48237210	1	CTGLF6	bA301J7.2, FLJ00312
10	AGAP9	ENSG00000198035	ENST00000453919	protein_coding	KNOWN	None	23463	2112	703	48189612	48237508	1	CTGLF6	bA301J7.2, FLJ00312
14	NDUFB8P1	ENSG00000258972	ENST00000557330	processed_pseudogene	KNOWN	None	20023	None	None	74098179	74098723	1	None	None
X	None	ENSG00000271041	ENST00000605428	processed_pseudogene	KNOWN	None	None	None	None	120081337	120081589	1	None	None
11	OR5BR1P	ENSG00000255386	ENST00000524992	unprocessed_pseudogene	KNOWN	None	15279	None	None	59100230	59101559	-1	None	None
11	ATF4P4	ENSG00000256167	ENST00000393544	processed_transcript	KNOWN	None	787	None	None	113659953	113661882	1	ATF4B	None
11	ATF4P4	ENSG00000256167	ENST00000438498	transcribed_processed_pseudogene	KNOWN	None	787	None	None	113661040	113662088	1	ATF4B	None
8	None	ENSG00000253944	ENST00000522768	antisense	KNOWN	None	None	None	None	17658854	17718578	1	None	None
17	None	ENSG00000260785	ENST00000569074	lincRNA	KNOWN	None	None	None	None	69093916	69198318	-1	None	None
20	None	ENSG00000236526	ENST00000439529	antisense	KNOWN	None	None	None	None	11890052	11899325	-1	None	None
15	None	ENSG00000271725	ENST00000607019	3prime_overlapping_ncrna	KNOWN	None	None	None	None	81595556	81601732	-1	None	None
14	IGHVIII-25-1	ENSG00000253367	ENST00000522143	IG_V_pseudogene	KNOWN	None	5697	None	None	106750162	106750402	-1	None	IGHV(III)-25-1
17	None	ENSG00000201378	ENST00000364508	misc_RNA	NOVEL	None	None	None	None	17904415	17904509	-1	None	None
HG185_PATCH	KAT2A	ENSG00000259958	ENST00000564173	protein_coding	KNOWN	None	4201	2514	837	40269360	40277610	-1	GCN5L2	GCN5, PCAF-b
HG185_PATCH	KAT2A	ENSG00000259958	ENST00000567939	nonsense_mediated_decay	KNOWN	None	4201	831	276	40269370	40277310	-1	GCN5L2	GCN5, PCAF-b
X	LINC00629	ENSG00000227060	ENST00000434384	processed_transcript	KNOWN	None	44262	None	None	133684003	133693953	1	None	None
X	LINC00629	ENSG00000227060	ENST00000592070	processed_transcript	KNOWN	None	44262	None	None	133684054	133693939	1	None	None
11	None	ENSG00000254434	ENST00000532605	lincRNA	KNOWN	None	None	None	None	80032664	80038955	-1	None	None
17	None	ENSG00000232344	ENST00000457299	processed_pseudogene	KNOWN	None	None	None	None	17913957	17915136	1	None	None
2	ZNF2	ENSG00000163067	ENST00000398107	protein_coding	KNOWN	CCDS42713	12991	1155	384	95831177	95850065	1	None	A1-5, ZNF661, Zfp661
2	ZNF2	ENSG00000163067	ENST00000340539	protein_coding	KNOWN	CCDS42712	12991	1281	426	95831183	95848715	1	None	A1-5, ZNF661, Zfp661
2	ZNF2	ENSG00000163067	ENST00000425369	protein_coding	NOVEL	None	12991	1041	346	95831211	95850065	1	None	A1-5, ZNF661, Zfp661
2	ZNF2	ENSG00000163067	ENST00000295210	protein_coding	NOVEL	None	12991	1167	388	95831534	95848203	1	None	A1-5, ZNF661, Zfp661
2	ZNF2	ENSG00000163067	ENST00000453539	protein_coding	NOVEL	None	12991	1320	439	95831562	95847919	1	None	A1-5, ZNF661, Zfp661
17	RNU7-155P	ENSG00000238759	ENST00000459033	snRNA	KNOWN	None	45689	None	None	69294297	69294359	-1	None	None
8	None	ENSG00000248538	ENST00000512942	lincRNA	KNOWN	None	None	None	None	9046521	9060364	1	None	None
8	None	ENSG00000248538	ENST00000417333	lincRNA	KNOWN	None	None	None	None	9046856	9060000	1	None	None
8	None	ENSG00000248538	ENST00000523747	lincRNA	KNOWN	None	None	None	None	9047015	9060347	1	None	None
8	None	ENSG00000253838	ENST00000520185	sense_intronic	KNOWN	None	None	None	None	39771748	39773240	1	None	None
14	IGHVIII-26-1	ENSG00000253462	ENST00000520387	IG_V_pseudogene	KNOWN	None	5698	None	None	106765678	106765927	-1	None	IGHV(III)-26-1
12	CHFR	ENSG00000072609	ENST00000541341	protein_coding	PUTATIVE	None	20455	276	91	133398773	133424778	-1	None	FLJ10796, RNF196
12	CHFR	ENSG00000072609	ENST00000536843	retained_intron	KNOWN	None	20455	None	None	133416937	133425577	-1	None	FLJ10796, RNF196
12	CHFR	ENSG00000072609	ENST00000315585	protein_coding	KNOWN	CCDS31937	20455	1872	623	133416937	133464184	-1	None	FLJ10796, RNF196
12	CHFR	ENSG00000072609	ENST00000545046	retained_intron	KNOWN	None	20455	None	None	133416938	133424388	-1	None	FLJ10796, RNF196
12	CHFR	ENSG00000072609	ENST00000443047	protein_coding	PUTATIVE	CCDS53847	20455	1719	572	133416938	133464189	-1	None	FLJ10796, RNF196
12	CHFR	ENSG00000072609	ENST00000450056	protein_coding	KNOWN	CCDS53848	20455	1959	652	133416938	133464209	-1	None	FLJ10796, RNF196
12	CHFR	ENSG00000072609	ENST00000544268	retained_intron	KNOWN	None	20455	None	None	133416991	133430690	-1	None	FLJ10796, RNF196
12	CHFR	ENSG00000072609	ENST00000537522	protein_coding	PUTATIVE	None	20455	861	286	133417234	133434018	-1	None	FLJ10796, RNF196
12	CHFR	ENSG00000072609	ENST00000541837	processed_transcript	KNOWN	None	20455	None	None	133417496	133459603	-1	None	FLJ10796, RNF196
12	CHFR	ENSG00000072609	ENST00000432561	protein_coding	NOVEL	CCDS53849	20455	1995	664	133417561	133464194	-1	None	FLJ10796, RNF196
12	CHFR	ENSG00000072609	ENST00000545659	processed_transcript	KNOWN	None	20455	None	None	133417592	133424459	-1	None	FLJ10796, RNF196
12	CHFR	ENSG00000072609	ENST00000544093	processed_transcript	KNOWN	None	20455	None	None	133417711	133428244	-1	None	FLJ10796, RNF196
12	CHFR	ENSG00000072609	ENST00000535527	processed_transcript	KNOWN	None	20455	None	None	133417959	133433151	-1	None	FLJ10796, RNF196
12	CHFR	ENSG00000072609	ENST00000538235	processed_transcript	KNOWN	None	20455	None	None	133417979	133430075	-1	None	FLJ10796, RNF196
12	CHFR	ENSG00000072609	ENST00000502279	retained_intron	KNOWN	None	20455	None	None	133424741	133426546	-1	None	FLJ10796, RNF196
12	CHFR	ENSG00000072609	ENST00000511001	processed_transcript	KNOWN	None	20455	None	None	133430223	133431641	-1	None	FLJ10796, RNF196
12	CHFR	ENSG00000072609	ENST00000535897	retained_intron	KNOWN	None	20455	None	None	133435665	133438490	-1	None	FLJ10796, RNF196
12	CHFR	ENSG00000072609	ENST00000541817	protein_coding	PUTATIVE	None	20455	369	122	133438051	133481480	-1	None	FLJ10796, RNF196
12	CHFR	ENSG00000072609	ENST00000540963	protein_coding	KNOWN	None	20455	671	222	133438133	133464118	-1	None	FLJ10796, RNF196
12	CHFR	ENSG00000072609	ENST00000540537	protein_coding	PUTATIVE	None	20455	79	25	133446202	133485733	-1	None	FLJ10796, RNF196
12	CHFR	ENSG00000072609	ENST00000542714	protein_coding	PUTATIVE	None	20455	215	70	133446225	133481459	-1	None	FLJ10796, RNF196
12	CHFR	ENSG00000072609	ENST00000536932	protein_coding	PUTATIVE	None	20455	94	30	133446310	133532890	-1	None	FLJ10796, RNF196
12	CHFR	ENSG00000072609	ENST00000537551	processed_transcript	KNOWN	None	20455	None	None	133447311	133464108	-1	None	FLJ10796, RNF196
12	CHFR	ENSG00000072609	ENST00000535181	retained_intron	KNOWN	None	20455	None	None	133448491	133464150	-1	None	FLJ10796, RNF196
12	CHFR	ENSG00000072609	ENST00000536196	processed_transcript	KNOWN	None	20455	None	None	133448559	133464158	-1	None	FLJ10796, RNF196
12	CHFR	ENSG00000072609	ENST00000499045	processed_transcript	PUTATIVE	None	20455	None	None	133454147	133485772	-1	None	FLJ10796, RNF196
12	CHFR	ENSG00000072609	ENST00000266880	protein_coding	KNOWN	None	20455	1992	663	133416938	133464184	-1	None	FLJ10796, RNF196
15	None	ENSG00000259343	ENST00000559781	antisense	KNOWN	None	None	None	None	81616718	81654331	1	None	None
15	None	ENSG00000259343	ENST00000560973	antisense	KNOWN	None	None	None	None	81616779	81634051	1	None	None
15	None	ENSG00000259343	ENST00000560851	antisense	KNOWN	None	None	None	None	81624252	81654378	1	None	None
15	None	ENSG00000259343	ENST00000559277	antisense	KNOWN	None	None	None	None	81633989	81635491	1	None	None
17	RNU6-305P	ENSG00000222563	ENST00000410631	snRNA	KNOWN	None	47268	None	None	69307309	69307383	1	None	None
5	CDH12	ENSG00000154162	ENST00000504376	protein_coding	KNOWN	CCDS3890	1751	2385	794	21750782	22853450	-1	None	Br-cadherin, CDHB
5	CDH12	ENSG00000154162	ENST00000382254	protein_coding	KNOWN	CCDS3890	1751	2385	794	21751154	22853731	-1	None	Br-cadherin, CDHB
5	CDH12	ENSG00000154162	ENST00000522262	protein_coding	NOVEL	None	1751	2265	754	21751606	22213859	-1	None	Br-cadherin, CDHB
5	CDH12	ENSG00000154162	ENST00000521384	processed_transcript	KNOWN	None	1751	None	None	21751804	21889956	-1	None	Br-cadherin, CDHB
5	CDH12	ENSG00000154162	ENST00000517378	retained_intron	KNOWN	None	1751	None	None	21751846	22212878	-1	None	Br-cadherin, CDHB
5	CDH12	ENSG00000154162	ENST00000518209	processed_transcript	KNOWN	None	1751	None	None	22078593	22212597	-1	None	Br-cadherin, CDHB
5	CDH12	ENSG00000154162	ENST00000521745	processed_transcript	KNOWN	None	1751	None	None	22078810	22212838	-1	None	Br-cadherin, CDHB
5	CDH12	ENSG00000154162	ENST00000520668	processed_transcript	KNOWN	None	1751	None	None	22278120	22639103	-1	None	Br-cadherin, CDHB
11	RNU6-544P	ENSG00000200146	ENST00000363276	snRNA	KNOWN	None	47507	None	None	80239004	80239110	1	None	None
15	None	ENSG00000260406	ENST00000564058	antisense	KNOWN	None	None	None	None	43594294	43594970	1	None	None
3	KCNAB1-AS2	ENSG00000240596	ENST00000473876	antisense	KNOWN	None	40315	None	None	155933349	155945672	-1	None	None
21	PIGP	ENSG00000185808	ENST00000464265	protein_coding	KNOWN	CCDS13649	3046	477	158	38435146	38445111	-1	DSCR5	DCRC, DSRC
21	PIGP	ENSG00000185808	ENST00000360525	protein_coding	KNOWN	CCDS13650	3046	405	134	38436448	38445458	-1	DSCR5	DCRC, DSRC
21	PIGP	ENSG00000185808	ENST00000329667	processed_transcript	KNOWN	None	3046	None	None	38437674	38444837	-1	DSCR5	DCRC, DSRC
21	PIGP	ENSG00000185808	ENST00000399102	protein_coding	KNOWN	CCDS13650	3046	405	134	38437674	38445200	-1	DSCR5	DCRC, DSRC
21	PIGP	ENSG00000185808	ENST00000399103	protein_coding	KNOWN	CCDS13650	3046	405	134	38437674	38445311	-1	DSCR5	DCRC, DSRC
21	PIGP	ENSG00000185808	ENST00000399098	protein_coding	KNOWN	None	3046	327	108	38437674	38445470	-1	DSCR5	DCRC, DSRC
21	PIGP	ENSG00000185808	ENST00000479152	retained_intron	KNOWN	None	3046	None	None	38441567	38445023	-1	DSCR5	DCRC, DSRC
21	PIGP	ENSG00000185808	ENST00000430792	protein_coding	KNOWN	None	3046	77	24	38441852	38445297	-1	DSCR5	DCRC, DSRC
14	IGHVII-26-2	ENSG00000253482	ENST00000518751	IG_V_pseudogene	KNOWN	None	5674	None	None	106770914	106771238	-1	None	IGHV(II)-26-2
3	None	ENSG00000207002	ENST00000384275	snoRNA	KNOWN	None	None	None	None	123532924	123533054	1	None	None
17	None	ENSG00000225818	ENST00000442627	lincRNA	KNOWN	None	None	None	None	69592479	69593419	1	None	None
17	None	ENSG00000225818	ENST00000450826	lincRNA	KNOWN	None	None	None	None	69592617	69593420	1	None	None
3	RPS15P5	ENSG00000229806	ENST00000449885	processed_pseudogene	KNOWN	None	35536	None	None	54660242	54660673	1	None	None
8	None	ENSG00000271156	ENST00000604955	lincRNA	KNOWN	None	None	None	None	89820547	89821137	-1	None	None
8	None	ENSG00000254287	ENST00000522970	antisense	KNOWN	None	None	None	None	39775595	39778409	-1	None	None
11	ARL6IP1P3	ENSG00000255014	ENST00000524544	processed_pseudogene	KNOWN	None	44972	None	None	80364473	80365032	-1	None	None
17	None	ENSG00000238691	ENST00000459354	snoRNA	NOVEL	None	None	None	None	18049866	18049969	1	None	None
12	RERG-AS1	ENSG00000255660	ENST00000541243	lincRNA	KNOWN	None	39990	None	None	15304857	15308217	1	None	None
14	MIR624	ENSG00000207952	ENST00000385217	miRNA	KNOWN	None	32880	None	None	31483852	31483948	-1	MIRN624	hsa-mir-624
11	None	ENSG00000254682	ENST00000529369	antisense	KNOWN	None	None	None	None	71159720	71163203	1	None	None
8	None	ENSG00000253671	ENST00000520646	lincRNA	KNOWN	None	None	None	None	17666450	17678377	1	None	None
8	None	ENSG00000253671	ENST00000520156	retained_intron	KNOWN	None	None	None	None	17666720	17678134	1	None	None
14	IGHV7-27	ENSG00000254326	ENST00000522512	IG_V_pseudogene	KNOWN	None	5663	None	None	106774086	106774499	-1	None	None
12	None	ENSG00000257741	ENST00000548705	lincRNA	KNOWN	None	None	None	None	81156933	81163670	1	None	None
12	None	ENSG00000257741	ENST00000551399	lincRNA	KNOWN	None	None	None	None	81156933	81164496	1	None	None
3	None	ENSG00000238512	ENST00000459309	miRNA	NOVEL	None	None	None	None	123780841	123780931	-1	None	None
17	None	ENSG00000266677	ENST00000577847	antisense	KNOWN	None	None	None	None	18075939	18087981	-1	None	None
17	None	ENSG00000266677	ENST00000583062	antisense	KNOWN	None	None	None	None	18079879	18088067	-1	None	None
14	RNU6-240P	ENSG00000251907	ENST00000516098	snRNA	KNOWN	None	47203	None	None	74126267	74126363	-1	None	None
12	None	ENSG00000258116	ENST00000546707	processed_pseudogene	KNOWN	None	None	None	None	47735397	47735872	-1	None	None
15	SNORD109A	ENSG00000270246	ENST00000604135	sense_intronic	KNOWN	None	32773	None	None	25287065	25287575	1	None	HBII-438a
15	SNORD109A	ENSG00000270246	ENST00000459128	snoRNA	KNOWN	None	32773	None	None	25287121	25287187	1	None	HBII-438a
15	RN7SL487P	ENSG00000243871	ENST00000468140	misc_RNA	KNOWN	None	46503	None	None	43683633	43683925	-1	None	None
3	MIR5002	ENSG00000266383	ENST00000584713	miRNA	KNOWN	None	43470	None	None	123851776	123851872	1	None	hsa-mir-5002
17	None	ENSG00000228118	ENST00000412707	processed_pseudogene	KNOWN	None	None	None	None	69617119	69617577	1	None	None
17	None	ENSG00000228118	ENST00000545441	processed_pseudogene	KNOWN	None	None	None	None	69617122	69617577	1	None	None
7	None	ENSG00000270584	ENST00000605066	processed_pseudogene	KNOWN	None	None	None	None	156056241	156056496	1	None	None
7	TAS2R3	ENSG00000127362	ENST00000247879	protein_coding	KNOWN	CCDS5867	14910	951	316	141463897	141464997	1	None	T2R3
12	MTERFD3	ENSG00000120832	ENST00000392830	protein_coding	KNOWN	CCDS9111	30779	1158	385	107371069	107380927	-1	None	FLJ14062
12	MTERFD3	ENSG00000120832	ENST00000240050	protein_coding	KNOWN	CCDS9111	30779	1158	385	107371069	107380944	-1	None	FLJ14062
12	MTERFD3	ENSG00000120832	ENST00000552029	protein_coding	KNOWN	CCDS9111	30779	1158	385	107371327	107380904	-1	None	FLJ14062
12	MTERFD3	ENSG00000120832	ENST00000548101	protein_coding	KNOWN	None	30779	536	177	107371957	107380868	-1	None	FLJ14062
12	MTERFD3	ENSG00000120832	ENST00000550736	protein_coding	KNOWN	None	30779	259	85	107372234	107379064	-1	None	FLJ14062
12	MTERFD3	ENSG00000120832	ENST00000550496	protein_coding	KNOWN	None	30779	100	32	107372393	107380900	-1	None	FLJ14062
12	MTERFD3	ENSG00000120832	ENST00000547115	processed_transcript	PUTATIVE	None	30779	None	None	107379531	107380938	-1	None	FLJ14062
8	None	ENSG00000253621	ENST00000522047	processed_pseudogene	KNOWN	None	None	None	None	90255630	90256022	-1	None	None
3	ESRG	ENSG00000265992	ENST00000583516	sense_intronic	KNOWN	None	39079	None	None	54666149	54673884	-1	None	HESRG
11	None	ENSG00000255178	ENST00000526840	lincRNA	KNOWN	None	None	None	None	80462243	80473869	-1	None	None
7	None	ENSG00000228569	ENST00000426187	lincRNA	KNOWN	None	None	None	None	156225217	156228527	-1	None	None
22	RN7SL305P	ENSG00000240647	ENST00000464862	misc_RNA	KNOWN	None	46321	None	None	32377132	32377414	-1	None	None
17	None	ENSG00000260647	ENST00000566532	antisense	KNOWN	None	None	None	None	18171394	18172142	1	None	None
19	OR2Z1	ENSG00000181733	ENST00000324060	protein_coding	KNOWN	CCDS32895	15391	945	314	8841316	8842371	1	OR2Z2	None
X	None	ENSG00000270397	ENST00000604983	processed_pseudogene	KNOWN	None	None	None	None	120086198	120086449	1	None	None
14	None	ENSG00000258639	ENST00000556608	processed_pseudogene	KNOWN	None	None	None	None	48514684	48515419	1	None	None
22	None	ENSG00000232346	ENST00000423610	processed_pseudogene	KNOWN	None	None	None	None	32435477	32435883	1	None	None
11	OR5BB1P	ENSG00000198261	ENST00000528843	unprocessed_pseudogene	KNOWN	None	15271	None	None	59158827	59159765	-1	None	None
3	None	ENSG00000239128	ENST00000459492	snoRNA	NOVEL	None	None	None	None	47292013	47292116	-1	None	None
17	RPL7AP65	ENSG00000228000	ENST00000418183	processed_pseudogene	KNOWN	None	37031	None	None	18215218	18215965	1	None	None
14	IGHVII-28-1	ENSG00000254214	ENST00000519887	IG_V_pseudogene	KNOWN	None	5675	None	None	106785676	106785916	-1	None	IGHV(II)-28-1
20	None	ENSG00000235292	ENST00000455132	lincRNA	KNOWN	None	None	None	None	12224543	12224944	-1	None	None
3	None	ENSG00000240622	ENST00000461190	processed_pseudogene	KNOWN	None	None	None	None	123870807	123871910	-1	None	None
14	None	ENSG00000258968	ENST00000555149	processed_pseudogene	KNOWN	None	None	None	None	31487652	31488002	1	None	None
3	None	ENSG00000260236	ENST00000568593	antisense	KNOWN	None	None	None	None	47420579	47422489	-1	None	None
11	None	ENSG00000254924	ENST00000532468	processed_pseudogene	KNOWN	None	None	None	None	71217107	71217426	-1	None	None
4	None	ENSG00000266024	ENST00000583642	miRNA	NOVEL	None	None	None	None	190739823	190739892	1	None	None
1	GNRHR2	ENSG00000211451	ENST00000361928	processed_transcript	KNOWN	None	16341	None	None	145509752	145515745	-1	None	None
1	GNRHR2	ENSG00000211451	ENST00000312753	processed_transcript	KNOWN	None	16341	None	None	145509779	145516076	-1	None	None
1	GNRHR2	ENSG00000211451	ENST00000581100	unitary_pseudogene	KNOWN	None	16341	None	None	145509860	145515745	-1	None	None
1	GNRHR2	ENSG00000211451	ENST00000469718	processed_transcript	KNOWN	None	16341	None	None	145514188	145515899	-1	None	None
1	GNRHR2	ENSG00000211451	ENST00000604273	processed_transcript	KNOWN	None	16341	None	None	145514889	145516076	-1	None	None
3	CACNA2D3-AS1	ENSG00000243715	ENST00000471265	antisense	KNOWN	None	40702	None	None	54908632	54935282	-1	None	None
7	None	ENSG00000233878	ENST00000436670	lincRNA	KNOWN	None	None	None	None	156230483	156238282	-1	None	None
8	KRT8P4	ENSG00000248231	ENST00000509735	processed_pseudogene	KNOWN	None	31057	None	None	90424850	90427300	-1	None	None
11	None	ENSG00000254437	ENST00000531124	processed_pseudogene	KNOWN	None	None	None	None	80668360	80668677	1	None	None
X	None	ENSG00000271502	ENST00000605291	processed_pseudogene	KNOWN	None	None	None	None	120091081	120091333	1	None	None
22	AP1B1P1	ENSG00000234479	ENST00000432373	processed_transcript	KNOWN	None	297	None	None	32517964	32529456	1	ADTB1L1	dJ127L4.2
22	AP1B1P1	ENSG00000234479	ENST00000448124	transcribed_unprocessed_pseudogene	KNOWN	None	297	None	None	32528304	32528494	1	ADTB1L1	dJ127L4.2
17	None	ENSG00000228639	ENST00000430908	lincRNA	KNOWN	None	None	None	None	70017992	70022103	-1	None	None
17	None	ENSG00000228639	ENST00000543512	lincRNA	KNOWN	None	None	None	None	70017992	70030233	-1	None	None
3	None	ENSG00000268509	ENST00000600805	protein_coding	KNOWN	None	None	756	251	5229227	5229982	-1	None	None
4	None	ENSG00000250666	ENST00000503609	lincRNA	KNOWN	None	None	None	None	190802670	190806023	1	None	None
11	None	ENSG00000248903	ENST00000511464	processed_pseudogene	KNOWN	None	None	None	None	71279726	71279980	1	None	None
17	RPL21P121	ENSG00000237382	ENST00000439258	processed_pseudogene	KNOWN	None	36429	None	None	18216074	18216847	1	None	None
3	KCNAB1-AS1	ENSG00000242370	ENST00000467794	antisense	KNOWN	None	40316	None	None	156158946	156164694	-1	None	None
7	TAS2R4	ENSG00000127364	ENST00000247881	protein_coding	KNOWN	CCDS5868	14911	900	299	141478242	141479235	1	None	T2R4
8	None	ENSG00000253977	ENST00000517968	processed_pseudogene	KNOWN	None	None	None	None	104103491	104103737	1	None	None
8	FAM49B	ENSG00000153310	ENST00000519824	protein_coding	KNOWN	CCDS6361	25216	975	324	130851839	130952078	-1	None	BM-009
8	FAM49B	ENSG00000153310	ENST00000522746	protein_coding	KNOWN	CCDS6361	25216	975	324	130853716	130952000	-1	None	BM-009
8	FAM49B	ENSG00000153310	ENST00000523509	protein_coding	KNOWN	CCDS6361	25216	975	324	130853716	131028651	-1	None	BM-009
8	FAM49B	ENSG00000153310	ENST00000401979	protein_coding	KNOWN	CCDS6361	25216	975	324	130853716	131028697	-1	None	BM-009
8	FAM49B	ENSG00000153310	ENST00000519110	protein_coding	KNOWN	CCDS6361	25216	975	324	130853716	131028918	-1	None	BM-009
8	FAM49B	ENSG00000153310	ENST00000523288	retained_intron	KNOWN	None	25216	None	None	130853716	131028943	-1	None	BM-009
8	FAM49B	ENSG00000153310	ENST00000522250	protein_coding	PUTATIVE	None	25216	537	178	130853730	130951940	-1	None	BM-009
8	FAM49B	ENSG00000153310	ENST00000517654	protein_coding	KNOWN	CCDS6361	25216	975	324	130853730	131028697	-1	None	BM-009
8	FAM49B	ENSG00000153310	ENST00000519540	protein_coding	KNOWN	CCDS6361	25216	975	324	130853743	130952118	-1	None	BM-009
8	FAM49B	ENSG00000153310	ENST00000522941	protein_coding	PUTATIVE	None	25216	537	178	130853749	130951992	-1	None	BM-009
8	FAM49B	ENSG00000153310	ENST00000520887	retained_intron	KNOWN	None	25216	None	None	130854326	130859563	-1	None	BM-009
8	FAM49B	ENSG00000153310	ENST00000517801	retained_intron	KNOWN	None	25216	None	None	130862800	130874572	-1	None	BM-009
8	FAM49B	ENSG00000153310	ENST00000519142	protein_coding	KNOWN	None	25216	466	154	130867829	130983236	-1	None	BM-009
8	FAM49B	ENSG00000153310	ENST00000518879	processed_transcript	KNOWN	None	25216	None	None	130867857	131028911	-1	None	BM-009
8	FAM49B	ENSG00000153310	ENST00000522702	processed_transcript	KNOWN	None	25216	None	None	130867934	131028883	-1	None	BM-009
8	FAM49B	ENSG00000153310	ENST00000521223	processed_transcript	KNOWN	None	25216	None	None	130867944	131028699	-1	None	BM-009
8	FAM49B	ENSG00000153310	ENST00000520204	protein_coding	KNOWN	None	25216	301	99	130874475	130952009	-1	None	BM-009
8	FAM49B	ENSG00000153310	ENST00000518283	protein_coding	KNOWN	None	25216	296	97	130874480	131028883	-1	None	BM-009
8	FAM49B	ENSG00000153310	ENST00000523993	protein_coding	KNOWN	None	25216	280	92	130874496	131029375	-1	None	BM-009
8	FAM49B	ENSG00000153310	ENST00000520254	protein_coding	KNOWN	None	25216	236	77	130874540	130952064	-1	None	BM-009
8	FAM49B	ENSG00000153310	ENST00000519020	protein_coding	KNOWN	None	25216	204	67	130874572	131028804	-1	None	BM-009
8	FAM49B	ENSG00000153310	ENST00000518167	protein_coding	KNOWN	None	25216	195	64	130883621	131028709	-1	None	BM-009
8	FAM49B	ENSG00000153310	ENST00000517672	protein_coding	KNOWN	None	25216	189	62	130883627	130983218	-1	None	BM-009
8	FAM49B	ENSG00000153310	ENST00000519070	protein_coding	KNOWN	None	25216	143	46	130883673	130952052	-1	None	BM-009
8	FAM49B	ENSG00000153310	ENST00000522361	protein_coding	KNOWN	None	25216	137	44	130883679	131028697	-1	None	BM-009
8	FAM49B	ENSG00000153310	ENST00000518344	retained_intron	KNOWN	None	25216	None	None	130915207	130952017	-1	None	BM-009
8	FAM49B	ENSG00000153310	ENST00000523514	retained_intron	KNOWN	None	25216	None	None	130982755	131028898	-1	None	BM-009
8	FAM49B	ENSG00000153310	ENST00000518285	processed_transcript	KNOWN	None	25216	None	None	130982922	131028802	-1	None	BM-009
1	C1orf180	ENSG00000180869	ENST00000370624	protein_coding	KNOWN	None	26647	372	123	85093913	85100703	-1	None	FLJ35487
1	C1orf180	ENSG00000180869	ENST00000327308	protein_coding	KNOWN	None	26647	372	123	85093913	85097431	-1	None	FLJ35487
10	None	ENSG00000269256	ENST00000597938	antisense	KNOWN	None	None	None	None	78318108	78320752	-1	None	None
14	RPL21P5	ENSG00000258640	ENST00000554662	processed_pseudogene	KNOWN	None	23541	None	None	31580775	31581445	-1	None	None
16	ZG16B	ENSG00000162078	ENST00000382280	protein_coding	KNOWN	CCDS10479	30456	627	208	2880170	2882285	1	None	HRPE773, PRO1567, JCLN2
16	ZG16B	ENSG00000162078	ENST00000570670	protein_coding	PUTATIVE	None	30456	286	94	2880254	2888967	1	None	HRPE773, PRO1567, JCLN2
16	ZG16B	ENSG00000162078	ENST00000576423	retained_intron	KNOWN	None	30456	None	None	2880296	2880982	1	None	HRPE773, PRO1567, JCLN2
16	ZG16B	ENSG00000162078	ENST00000573019	retained_intron	KNOWN	None	30456	None	None	2880305	2881976	1	None	HRPE773, PRO1567, JCLN2
16	ZG16B	ENSG00000162078	ENST00000571723	protein_coding	PUTATIVE	None	30456	209	68	2880307	2881174	1	None	HRPE773, PRO1567, JCLN2
16	ZG16B	ENSG00000162078	ENST00000572863	protein_coding	PUTATIVE	None	30456	537	178	2880369	2882283	1	None	HRPE773, PRO1567, JCLN2
3	RNU6-143P	ENSG00000252751	ENST00000516942	snRNA	KNOWN	None	47106	None	None	124126538	124126630	1	None	None
1	None	ENSG00000237094	ENST00000440038	lincRNA	KNOWN	None	None	None	None	317720	324873	1	None	None
1	None	ENSG00000237094	ENST00000432964	lincRNA	KNOWN	None	None	None	None	320162	321056	1	None	None
1	None	ENSG00000237094	ENST00000423728	lincRNA	KNOWN	None	None	None	None	320162	324461	1	None	None
1	None	ENSG00000237094	ENST00000601486	lincRNA	KNOWN	None	None	None	None	320335	322097	1	None	None
1	None	ENSG00000237094	ENST00000599771	lincRNA	KNOWN	None	None	None	None	320881	322203	1	None	None
1	None	ENSG00000237094	ENST00000455464	lincRNA	KNOWN	None	None	None	None	322078	342806	1	None	None
1	None	ENSG00000237094	ENST00000419160	lincRNA	KNOWN	None	None	None	None	322672	324955	1	None	None
1	None	ENSG00000237094	ENST00000601814	lincRNA	KNOWN	None	None	None	None	323861	334505	1	None	None
1	None	ENSG00000237094	ENST00000431812	lincRNA	KNOWN	None	None	None	None	329784	334271	1	None	None
1	None	ENSG00000237094	ENST00000455207	lincRNA	KNOWN	None	None	None	None	334129	446155	1	None	None
1	None	ENSG00000237094	ENST00000440163	lincRNA	KNOWN	None	None	None	None	439365	453722	1	None	None
1	None	ENSG00000237094	ENST00000453935	lincRNA	KNOWN	None	None	None	None	450887	453942	1	None	None
1	None	ENSG00000237094	ENST00000431321	lincRNA	KNOWN	None	None	None	None	453217	453948	1	None	None
1	None	ENSG00000237094	ENST00000425496	lincRNA	KNOWN	None	None	None	None	324756	328453	1	None	None
X	None	ENSG00000235813	ENST00000440614	lincRNA	KNOWN	None	None	None	None	133733487	133740284	1	None	None
22	None	ENSG00000237439	ENST00000423412	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	32525676	32526599	1	None	None
4	MLLT10P2	ENSG00000249462	ENST00000506434	processed_pseudogene	KNOWN	None	39141	None	None	190894754	190895002	-1	None	None
10	None	ENSG00000252888	ENST00000517079	snoRNA	NOVEL	None	None	None	None	78595135	78595260	-1	None	None
11	None	ENSG00000254747	ENST00000526864	processed_pseudogene	KNOWN	None	None	None	None	81263268	81263558	1	None	None
1	F11R	ENSG00000158769	ENST00000368026	protein_coding	KNOWN	CCDS1213	14685	900	299	160965001	160991138	-1	JAM1	PAM-1, JCAM, JAM-1, JAM-A, JAMA, CD321
1	F11R	ENSG00000158769	ENST00000537746	protein_coding	NOVEL	None	14685	753	250	160968192	160990886	-1	JAM1	PAM-1, JCAM, JAM-1, JAM-A, JAMA, CD321
1	F11R	ENSG00000158769	ENST00000472573	processed_transcript	KNOWN	None	14685	None	None	160969700	160970967	-1	JAM1	PAM-1, JCAM, JAM-1, JAM-A, JAMA, CD321
1	F11R	ENSG00000158769	ENST00000335772	processed_transcript	KNOWN	None	14685	None	None	160970100	160990933	-1	JAM1	PAM-1, JCAM, JAM-1, JAM-A, JAMA, CD321
1	F11R	ENSG00000158769	ENST00000602966	retained_intron	KNOWN	None	14685	None	None	160970510	160990965	-1	JAM1	PAM-1, JCAM, JAM-1, JAM-A, JAMA, CD321
11	None	ENSG00000255870	ENST00000544730	processed_pseudogene	KNOWN	None	None	None	None	113659964	113660749	1	None	None
12	None	ENSG00000256283	ENST00000428182	processed_pseudogene	KNOWN	None	None	None	None	15408147	15408757	-1	None	None
22	AP1B1P2	ENSG00000232707	ENST00000416196	unprocessed_pseudogene	KNOWN	None	298	None	None	32530015	32530120	1	ADTB1L2	dJ127L4.3
8	None	ENSG00000265667	ENST00000579377	miRNA	NOVEL	None	None	None	None	104104852	104104949	-1	None	None
10	ATP5G1P8	ENSG00000224948	ENST00000416294	processed_pseudogene	KNOWN	None	39511	None	None	78596326	78596619	1	None	None
3	None	ENSG00000238350	ENST00000459156	snoRNA	NOVEL	None	None	None	None	47507839	47507938	1	None	None
8	None	ENSG00000253215	ENST00000519368	antisense	KNOWN	None	None	None	None	17739552	17740170	1	None	None
11	None	ENSG00000254640	ENST00000440461	processed_pseudogene	KNOWN	None	None	None	None	59235717	59236130	1	None	None
15	SNORD116-1	ENSG00000207063	ENST00000384335	snoRNA	KNOWN	None	33067	None	None	25296624	25296718	1	None	HBII-85-1
3	None	ENSG00000271161	ENST00000603861	transcribed_processed_pseudogene	KNOWN	None	None	None	None	47541331	47541580	1	None	None
3	None	ENSG00000271161	ENST00000604904	processed_transcript	KNOWN	None	None	None	None	47541331	47541897	1	None	None
12	None	ENSG00000243916	ENST00000469884	processed_pseudogene	KNOWN	None	None	None	None	15592461	15593335	1	None	None
12	HAUS8P1	ENSG00000257300	ENST00000549005	processed_pseudogene	KNOWN	None	43766	None	None	114535487	114536028	1	None	None
17	None	ENSG00000256124	ENST00000538693	lincRNA	KNOWN	None	None	None	None	70026432	70032457	1	None	None
17	None	ENSG00000256124	ENST00000472655	lincRNA	KNOWN	None	None	None	None	70026795	70034406	1	None	None
17	None	ENSG00000256124	ENST00000538810	lincRNA	KNOWN	None	None	None	None	70026795	70034889	1	None	None
3	None	ENSG00000263775	ENST00000584173	miRNA	NOVEL	None	None	None	None	124415785	124415883	-1	None	None
20	None	ENSG00000230437	ENST00000442389	lincRNA	KNOWN	None	None	None	None	12286261	12297133	-1	None	None
5	LTC4S	ENSG00000213316	ENST00000465572	retained_intron	KNOWN	None	6719	None	None	179220981	179223648	1	None	MGC33147
5	LTC4S	ENSG00000213316	ENST00000505170	nonsense_mediated_decay	KNOWN	None	6719	210	69	179220986	179223445	1	None	MGC33147
5	LTC4S	ENSG00000213316	ENST00000292596	protein_coding	KNOWN	CCDS34316	6719	453	150	179220987	179223513	1	None	MGC33147
5	LTC4S	ENSG00000213316	ENST00000401985	protein_coding	NOVEL	None	6719	282	93	179220994	179223511	1	None	MGC33147
5	LTC4S	ENSG00000213316	ENST00000466071	retained_intron	KNOWN	None	6719	None	None	179221014	179223022	1	None	MGC33147
5	LTC4S	ENSG00000213316	ENST00000486713	retained_intron	KNOWN	None	6719	None	None	179221034	179223160	1	None	MGC33147
5	LTC4S	ENSG00000213316	ENST00000510544	retained_intron	KNOWN	None	6719	None	None	179222309	179223315	1	None	MGC33147
5	LTC4S	ENSG00000213316	ENST00000509898	retained_intron	KNOWN	None	6719	None	None	179222556	179223376	1	None	MGC33147
22	None	ENSG00000239674	ENST00000436294	processed_transcript	PUTATIVE	None	None	None	None	32537254	32539259	1	None	None
22	SFI1	ENSG00000198089	ENST00000465646	processed_transcript	PUTATIVE	None	29064	None	None	31884674	31925053	1	None	KIAA0542, PISD
22	SFI1	ENSG00000198089	ENST00000432498	protein_coding	KNOWN	CCDS43005	29064	3636	1211	31892261	32014537	1	None	KIAA0542, PISD
22	SFI1	ENSG00000198089	ENST00000443011	protein_coding	NOVEL	None	29064	3270	1089	31892373	32014432	1	None	KIAA0542, PISD
22	SFI1	ENSG00000198089	ENST00000465437	processed_transcript	KNOWN	None	29064	None	None	31892450	31924852	1	None	KIAA0542, PISD
22	SFI1	ENSG00000198089	ENST00000411518	nonsense_mediated_decay	KNOWN	None	29064	309	102	31892505	31927091	1	None	KIAA0542, PISD
22	SFI1	ENSG00000198089	ENST00000400289	protein_coding	KNOWN	CCDS58804	29064	3483	1160	31892524	32014534	1	None	KIAA0542, PISD
22	SFI1	ENSG00000198089	ENST00000444859	protein_coding	KNOWN	None	29064	238	78	31892544	31924821	1	None	KIAA0542, PISD
22	SFI1	ENSG00000198089	ENST00000400288	protein_coding	KNOWN	CCDS43004	29064	3729	1242	31892549	32014572	1	None	KIAA0542, PISD
22	SFI1	ENSG00000198089	ENST00000382162	retained_intron	KNOWN	None	29064	None	None	31892569	32014534	1	None	KIAA0542, PISD
22	SFI1	ENSG00000198089	ENST00000524296	nonsense_mediated_decay	KNOWN	None	29064	1170	389	31904241	32009439	1	None	KIAA0542, PISD
22	SFI1	ENSG00000198089	ENST00000450787	protein_coding	NOVEL	None	29064	448	148	31924731	31957319	1	None	KIAA0542, PISD
22	SFI1	ENSG00000198089	ENST00000486708	retained_intron	KNOWN	None	29064	None	None	31924806	31946663	1	None	KIAA0542, PISD
22	SFI1	ENSG00000198089	ENST00000476010	retained_intron	KNOWN	None	29064	None	None	31968749	31979920	1	None	KIAA0542, PISD
22	SFI1	ENSG00000198089	ENST00000484806	retained_intron	KNOWN	None	29064	None	None	31968963	31979863	1	None	KIAA0542, PISD
22	SFI1	ENSG00000198089	ENST00000452250	nonsense_mediated_decay	KNOWN	None	29064	1468	488	31969160	32014533	1	None	KIAA0542, PISD
22	SFI1	ENSG00000198089	ENST00000478887	retained_intron	KNOWN	None	29064	None	None	31973934	31981112	1	None	KIAA0542, PISD
22	SFI1	ENSG00000198089	ENST00000467357	processed_transcript	PUTATIVE	None	29064	None	None	31976074	31979955	1	None	KIAA0542, PISD
22	SFI1	ENSG00000198089	ENST00000417682	protein_coding	NOVEL	None	29064	1817	604	31976258	32010846	1	None	KIAA0542, PISD
22	SFI1	ENSG00000198089	ENST00000425671	protein_coding	PUTATIVE	None	29064	173	56	31979892	31983898	1	None	KIAA0542, PISD
22	SFI1	ENSG00000198089	ENST00000488883	retained_intron	KNOWN	None	29064	None	None	32000300	32002712	1	None	KIAA0542, PISD
22	SFI1	ENSG00000198089	ENST00000466991	processed_transcript	KNOWN	None	29064	None	None	32000555	32007755	1	None	KIAA0542, PISD
22	SFI1	ENSG00000198089	ENST00000491973	retained_intron	KNOWN	None	29064	None	None	32003637	32007787	1	None	KIAA0542, PISD
22	SFI1	ENSG00000198089	ENST00000463436	processed_transcript	PUTATIVE	None	29064	None	None	32007752	32008428	1	None	KIAA0542, PISD
22	SFI1	ENSG00000198089	ENST00000495107	retained_intron	KNOWN	None	29064	None	None	32008759	32009701	1	None	KIAA0542, PISD
22	SFI1	ENSG00000198089	ENST00000474741	processed_transcript	KNOWN	None	29064	None	None	32009821	32014534	1	None	KIAA0542, PISD
22	SFI1	ENSG00000198089	ENST00000476577	retained_intron	KNOWN	None	29064	None	None	32010153	32014534	1	None	KIAA0542, PISD
22	SFI1	ENSG00000198089	ENST00000464333	retained_intron	KNOWN	None	29064	None	None	32010357	32014533	1	None	KIAA0542, PISD
22	SFI1	ENSG00000198089	ENST00000357852	retained_intron	KNOWN	None	29064	None	None	32010372	32014534	1	None	KIAA0542, PISD
22	SFI1	ENSG00000198089	ENST00000540643	protein_coding	KNOWN	CCDS58803	29064	3564	1187	31892261	32014533	1	None	KIAA0542, PISD
22	SFI1	ENSG00000198089	ENST00000443326	protein_coding	KNOWN	CCDS58804	29064	3483	1160	31892261	32014533	1	None	KIAA0542, PISD
22	SFI1	ENSG00000198089	ENST00000414585	protein_coding	KNOWN	None	29064	3096	1031	31892261	32014533	1	None	KIAA0542, PISD
8	None	ENSG00000254091	ENST00000522241	processed_pseudogene	KNOWN	None	None	None	None	9090523	9090959	1	None	None
3	TIPARP-AS1	ENSG00000243926	ENST00000492937	antisense	KNOWN	None	41028	None	None	156389651	156392167	-1	None	None
3	TIPARP-AS1	ENSG00000243926	ENST00000478005	antisense	KNOWN	None	41028	None	None	156389653	156391722	-1	None	None
3	TIPARP-AS1	ENSG00000243926	ENST00000463449	antisense	KNOWN	None	41028	None	None	156389711	156390659	-1	None	None
12	GLULP5	ENSG00000257915	ENST00000547831	processed_pseudogene	KNOWN	None	37989	None	None	114542347	114543736	1	None	None
19	None	ENSG00000267220	ENST00000592921	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	20242703	20262717	-1	None	None
22	None	ENSG00000230120	ENST00000426354	lincRNA	KNOWN	None	None	None	None	32555441	32556379	-1	None	None
3	None	ENSG00000260391	ENST00000568966	sense_overlapping	KNOWN	None	None	None	None	124442635	124445172	1	None	None
X	RPL21P133	ENSG00000236509	ENST00000443666	processed_pseudogene	KNOWN	None	36003	None	None	133741187	133741662	1	None	None
X	RNU4-6P	ENSG00000222736	ENST00000410804	snRNA	KNOWN	None	10199	None	None	16893269	16893390	-1	RNU4P6	U4, U4/8
2	None	ENSG00000248705	ENST00000506676	unprocessed_pseudogene	KNOWN	None	None	None	None	234659263	234662302	1	None	None
17	None	ENSG00000267350	ENST00000577764	lincRNA	KNOWN	None	None	None	None	18227536	18229211	1	None	None
9	MIRLET7DHG	ENSG00000230262	ENST00000416309	lincRNA	KNOWN	None	37186	None	None	96938884	96966825	-1	None	None
9	MIRLET7DHG	ENSG00000230262	ENST00000602602	lincRNA	KNOWN	None	37186	None	None	96938884	96966850	-1	None	None
19	OAZ1	ENSG00000104904	ENST00000582888	protein_coding	NOVEL	None	8095	681	226	2269519	2273238	1	OAZ	AZI, MGC138338
19	OAZ1	ENSG00000104904	ENST00000583542	protein_coding	NOVEL	None	8095	711	236	2269519	2273487	1	OAZ	AZI, MGC138338
19	OAZ1	ENSG00000104904	ENST00000602676	protein_coding	NOVEL	CCDS58639	8095	687	228	2269525	2273240	1	OAZ	AZI, MGC138338
19	OAZ1	ENSG00000104904	ENST00000581150	retained_intron	KNOWN	None	8095	None	None	2269529	2273213	1	OAZ	AZI, MGC138338
19	OAZ1	ENSG00000104904	ENST00000592787	retained_intron	KNOWN	None	8095	None	None	2269530	2272266	1	OAZ	AZI, MGC138338
19	OAZ1	ENSG00000104904	ENST00000590943	nonsense_mediated_decay	KNOWN	None	8095	159	52	2269530	2273485	1	OAZ	AZI, MGC138338
19	OAZ1	ENSG00000104904	ENST00000588673	nonsense_mediated_decay	KNOWN	None	8095	159	52	2269535	2273240	1	OAZ	AZI, MGC138338
19	OAZ1	ENSG00000104904	ENST00000593012	retained_intron	KNOWN	None	8095	None	None	2269548	2273324	1	OAZ	AZI, MGC138338
19	OAZ1	ENSG00000104904	ENST00000586054	retained_intron	KNOWN	None	8095	None	None	2270660	2273487	1	OAZ	AZI, MGC138338
19	OAZ1	ENSG00000104904	ENST00000589361	retained_intron	KNOWN	None	8095	None	None	2271320	2272776	1	OAZ	AZI, MGC138338
19	OAZ1	ENSG00000104904	ENST00000592727	processed_transcript	KNOWN	None	8095	None	None	2271369	2273240	1	OAZ	AZI, MGC138338
19	OAZ1	ENSG00000104904	ENST00000589739	retained_intron	KNOWN	None	8095	None	None	2272523	2273330	1	OAZ	AZI, MGC138338
19	OAZ1	ENSG00000104904	ENST00000322297	protein_coding	KNOWN	None	8095	684	227	2269520	2273487	1	OAZ	AZI, MGC138338
X	None	ENSG00000223498	ENST00000426556	processed_pseudogene	KNOWN	None	None	None	None	16915774	16916644	-1	None	None
17	None	ENSG00000254148	ENST00000540802	lincRNA	KNOWN	None	None	None	None	70030248	70053871	-1	None	None
19	None	ENSG00000270716	ENST00000604600	processed_pseudogene	KNOWN	None	None	None	None	20247742	20248042	1	None	None
11	OR4D8P	ENSG00000204989	ENST00000431137	unprocessed_pseudogene	KNOWN	None	15177	None	None	59259125	59260054	1	None	None
3	None	ENSG00000225058	ENST00000415940	lincRNA	KNOWN	None	None	None	None	187715210	187721778	-1	None	None
22	IGLCOR22-1	ENSG00000254127	ENST00000523725	IG_C_pseudogene	KNOWN	None	15696	None	None	32595906	32596221	1	None	IGLC/OR22-1
17	None	ENSG00000264177	ENST00000579352	antisense	KNOWN	None	None	None	None	18283169	18292298	-1	None	None
7	NDUFA4	ENSG00000189043	ENST00000339600	protein_coding	KNOWN	CCDS5357	7687	246	81	10971578	10979883	-1	None	MLRQ, CI-9k
7	NDUFA4	ENSG00000189043	ENST00000482299	retained_intron	KNOWN	None	7687	None	None	10973142	10978144	-1	None	MLRQ, CI-9k
7	NDUFA4	ENSG00000189043	ENST00000470761	retained_intron	KNOWN	None	7687	None	None	10973292	10979461	-1	None	MLRQ, CI-9k
7	NDUFA4	ENSG00000189043	ENST00000486007	retained_intron	KNOWN	None	7687	None	None	10977494	10979706	-1	None	MLRQ, CI-9k
7	NDUFA4	ENSG00000189043	ENST00000463308	retained_intron	KNOWN	None	7687	None	None	10977731	10978678	-1	None	MLRQ, CI-9k
7	NDUFA4	ENSG00000189043	ENST00000492822	processed_transcript	PUTATIVE	None	7687	None	None	10978840	10979762	-1	None	MLRQ, CI-9k
14	IGHV3-29	ENSG00000253464	ENST00000520707	IG_V_pseudogene	KNOWN	None	5590	None	None	106787368	106787804	-1	None	None
11	None	ENSG00000255316	ENST00000528711	unprocessed_pseudogene	KNOWN	None	None	None	None	81266952	81267467	-1	None	None
7	None	ENSG00000182648	ENST00000425712	processed_transcript	KNOWN	None	None	None	None	156264890	156395889	-1	None	None
7	None	ENSG00000182648	ENST00000447933	processed_transcript	KNOWN	None	None	None	None	156264940	156398458	-1	None	None
7	None	ENSG00000182648	ENST00000458645	processed_transcript	KNOWN	None	None	None	None	156376854	156433286	-1	None	None
7	None	ENSG00000182648	ENST00000418309	processed_transcript	KNOWN	None	None	None	None	156396312	156433275	-1	None	None
7	None	ENSG00000182648	ENST00000440711	processed_transcript	KNOWN	None	None	None	None	156397826	156398438	-1	None	None
7	None	ENSG00000182648	ENST00000435354	processed_transcript	KNOWN	None	None	None	None	156432126	156433257	-1	None	None
X	None	ENSG00000199410	ENST00000362540	misc_RNA	NOVEL	None	None	None	None	16930338	16930440	-1	None	None
12	None	ENSG00000257476	ENST00000551761	lincRNA	KNOWN	None	None	None	None	114676775	114679575	-1	None	None
10	None	ENSG00000236467	ENST00000429850	antisense	KNOWN	None	None	None	None	78647802	78664889	1	None	None
10	None	ENSG00000236467	ENST00000595702	antisense	KNOWN	None	None	None	None	78647820	78661610	1	None	None
10	None	ENSG00000236467	ENST00000458661	antisense	KNOWN	None	None	None	None	78647834	78738351	1	None	None
10	None	ENSG00000236467	ENST00000600782	antisense	KNOWN	None	None	None	None	78661576	78740382	1	None	None
10	None	ENSG00000236467	ENST00000426234	antisense	KNOWN	None	None	None	None	78664583	78709221	1	None	None
10	None	ENSG00000236467	ENST00000598613	antisense	KNOWN	None	None	None	None	78698866	78737562	1	None	None
X	None	ENSG00000271211	ENST00000604059	processed_pseudogene	KNOWN	None	None	None	None	120095941	120096193	1	None	None
17	None	ENSG00000267441	ENST00000586597	processed_pseudogene	KNOWN	None	None	None	None	18292185	18292773	1	None	None
3	None	ENSG00000239991	ENST00000485347	lincRNA	KNOWN	None	None	None	None	55200938	55209760	-1	None	None
3	None	ENSG00000236412	ENST00000444379	lincRNA	KNOWN	None	None	None	None	187719488	187721194	-1	None	None
7	PON3	ENSG00000105852	ENST00000265627	protein_coding	KNOWN	CCDS5639	9206	1065	354	94989256	95025673	-1	None	None
7	PON3	ENSG00000105852	ENST00000427422	protein_coding	PUTATIVE	None	9206	738	245	94989256	95025673	-1	None	None
7	PON3	ENSG00000105852	ENST00000451904	nonsense_mediated_decay	KNOWN	None	9206	813	270	94989258	95025675	-1	None	None
7	PON3	ENSG00000105852	ENST00000418617	nonsense_mediated_decay	KNOWN	None	9206	141	46	94989258	95025675	-1	None	None
7	PON3	ENSG00000105852	ENST00000442770	nonsense_mediated_decay	KNOWN	None	9206	141	46	94989258	95025675	-1	None	None
7	PON3	ENSG00000105852	ENST00000456855	nonsense_mediated_decay	KNOWN	None	9206	186	61	94989258	95025675	-1	None	None
7	PON3	ENSG00000105852	ENST00000492800	retained_intron	KNOWN	None	9206	None	None	94989273	94995225	-1	None	None
7	PON3	ENSG00000105852	ENST00000460248	retained_intron	KNOWN	None	9206	None	None	94989299	94992110	-1	None	None
7	PON3	ENSG00000105852	ENST00000482624	retained_intron	KNOWN	None	9206	None	None	94992794	95025680	-1	None	None
7	PON3	ENSG00000105852	ENST00000475439	processed_transcript	KNOWN	None	9206	None	None	95006845	95025434	-1	None	None
1	None	ENSG00000244619	ENST00000415065	antisense	KNOWN	None	None	None	None	145541593	145542229	-1	None	None
15	SNORD116-2	ENSG00000207001	ENST00000384274	snoRNA	KNOWN	None	33068	None	None	25299357	25299451	1	None	HBII-85-2
11	LRRC37A13P	ENSG00000257101	ENST00000546055	processed_pseudogene	KNOWN	None	43817	None	None	113662188	113662474	1	None	None
2	SPDYA	ENSG00000163806	ENST00000462832	processed_transcript	KNOWN	None	30613	None	None	29005383	29063667	1	SPDY1	SPY1, Ringo3
2	SPDYA	ENSG00000163806	ENST00000379579	protein_coding	KNOWN	CCDS1767	30613	942	313	29033685	29073477	1	SPDY1	SPY1, Ringo3
2	SPDYA	ENSG00000163806	ENST00000491044	processed_transcript	KNOWN	None	30613	None	None	29033695	29073196	1	SPDY1	SPY1, Ringo3
2	SPDYA	ENSG00000163806	ENST00000334056	protein_coding	KNOWN	CCDS1767	30613	942	313	29033717	29073477	1	SPDY1	SPY1, Ringo3
2	SPDYA	ENSG00000163806	ENST00000449210	protein_coding	KNOWN	None	30613	383	126	29033774	29045279	1	SPDY1	SPY1, Ringo3
2	SPDYA	ENSG00000163806	ENST00000439646	protein_coding	PUTATIVE	None	30613	173	56	29052016	29073300	1	SPDY1	SPY1, Ringo3
2	SPDYA	ENSG00000163806	ENST00000467226	processed_transcript	KNOWN	None	30613	None	None	29063224	29065142	1	SPDY1	SPY1, Ringo3
7	TAS2R5	ENSG00000127366	ENST00000247883	protein_coding	KNOWN	CCDS5869	14912	900	299	141490017	141491166	1	None	T2R5
2	None	ENSG00000178836	ENST00000421868	processed_transcript	KNOWN	None	None	None	None	234662951	234663991	-1	None	None
2	None	ENSG00000178836	ENST00000389816	processed_transcript	KNOWN	None	None	None	None	234663069	234663915	-1	None	None
2	None	ENSG00000178836	ENST00000450901	processed_transcript	KNOWN	None	None	None	None	234663069	234663980	-1	None	None
2	None	ENSG00000178836	ENST00000449669	transcribed_processed_pseudogene	KNOWN	None	None	None	None	234663188	234663915	-1	None	None
12	RNU6-251P	ENSG00000200105	ENST00000363235	snRNA	KNOWN	None	47214	None	None	15824641	15824744	-1	None	None
14	RNU6-541P	ENSG00000207440	ENST00000384709	snRNA	KNOWN	None	47504	None	None	31612145	31612254	1	None	None
16	SLX4	ENSG00000188827	ENST00000294008	protein_coding	KNOWN	CCDS10506	23845	5505	1834	3631182	3661599	-1	BTBD12	KIAA1784, KIAA1987, FANCP
16	SLX4	ENSG00000188827	ENST00000466154	retained_intron	KNOWN	None	23845	None	None	3645612	3659260	-1	BTBD12	KIAA1784, KIAA1987, FANCP
16	SLX4	ENSG00000188827	ENST00000486524	retained_intron	KNOWN	None	23845	None	None	3650622	3661586	-1	BTBD12	KIAA1784, KIAA1987, FANCP
3	EDEM1	ENSG00000134109	ENST00000434243	nonsense_mediated_decay	KNOWN	None	18967	237	78	5229331	5249857	1	None	KIAA0212, EDEM
3	EDEM1	ENSG00000134109	ENST00000256497	protein_coding	KNOWN	CCDS33686	18967	1974	657	5229358	5261642	1	None	KIAA0212, EDEM
3	EDEM1	ENSG00000134109	ENST00000465369	retained_intron	KNOWN	None	18967	None	None	5229405	5253091	1	None	KIAA0212, EDEM
3	EDEM1	ENSG00000134109	ENST00000443790	nonsense_mediated_decay	KNOWN	None	18967	162	53	5229449	5231268	1	None	KIAA0212, EDEM
3	EDEM1	ENSG00000134109	ENST00000465187	retained_intron	KNOWN	None	18967	None	None	5229491	5236969	1	None	KIAA0212, EDEM
3	EDEM1	ENSG00000134109	ENST00000445686	protein_coding	KNOWN	None	18967	1131	376	5230034	5252983	1	None	KIAA0212, EDEM
3	EDEM1	ENSG00000134109	ENST00000492751	retained_intron	KNOWN	None	18967	None	None	5236791	5243464	1	None	KIAA0212, EDEM
17	TBC1D3P4	ENSG00000204471	ENST00000338790	unprocessed_pseudogene	KNOWN	None	32409	None	None	18296794	18304275	1	USP6P2	None
3	None	ENSG00000243572	ENST00000496829	lincRNA	KNOWN	None	None	None	None	55212200	55223242	1	None	None
3	MIR544B	ENSG00000265981	ENST00000582372	miRNA	KNOWN	None	38361	None	None	124451286	124451363	1	None	hsa-mir-544b
3	MRPS25	ENSG00000131368	ENST00000496484	processed_transcript	KNOWN	None	14511	None	None	15083967	15091474	-1	None	MRP-S25, FLJ00023, DKFZp313H0817, RPMS25
3	MRPS25	ENSG00000131368	ENST00000474866	processed_transcript	KNOWN	None	14511	None	None	15086606	15091609	-1	None	MRP-S25, FLJ00023, DKFZp313H0817, RPMS25
3	MRPS25	ENSG00000131368	ENST00000253686	protein_coding	KNOWN	CCDS2622	14511	522	173	15090025	15106842	-1	None	MRP-S25, FLJ00023, DKFZp313H0817, RPMS25
3	MRPS25	ENSG00000131368	ENST00000449354	protein_coding	NOVEL	None	14511	438	145	15090719	15106767	-1	None	MRP-S25, FLJ00023, DKFZp313H0817, RPMS25
3	MRPS25	ENSG00000131368	ENST00000420267	nonsense_mediated_decay	KNOWN	None	14511	333	110	15091388	15106818	-1	None	MRP-S25, FLJ00023, DKFZp313H0817, RPMS25
3	MRPS25	ENSG00000131368	ENST00000444840	protein_coding	NOVEL	None	14511	390	129	15093224	15106824	-1	None	MRP-S25, FLJ00023, DKFZp313H0817, RPMS25
3	MRPS25	ENSG00000131368	ENST00000447299	nonsense_mediated_decay	KNOWN	None	14511	333	110	15093942	15106807	-1	None	MRP-S25, FLJ00023, DKFZp313H0817, RPMS25
15	SNORD116-3	ENSG00000207014	ENST00000384287	snoRNA	KNOWN	None	33069	None	None	25302007	25302101	1	None	HBII-85-3
12	MIR617	ENSG00000207763	ENST00000385030	miRNA	KNOWN	None	32873	None	None	81226312	81226408	-1	MIRN617	hsa-mir-617
14	None	ENSG00000270359	ENST00000604678	processed_pseudogene	KNOWN	None	None	None	None	48788271	48788597	-1	None	None
12	TBX5-AS1	ENSG00000255399	ENST00000531202	antisense	KNOWN	None	27402	None	None	114845996	114847817	1	None	None
12	TBX5-AS1	ENSG00000255399	ENST00000532697	antisense	KNOWN	None	27402	None	None	114846001	114847419	1	None	None
12	TBX5-AS1	ENSG00000255399	ENST00000531024	antisense	KNOWN	None	27402	None	None	114846010	114847804	1	None	None
12	TBX5-AS1	ENSG00000255399	ENST00000528549	antisense	KNOWN	None	27402	None	None	114846559	114850636	1	None	None
12	TBX5-AS1	ENSG00000255399	ENST00000595315	antisense	KNOWN	None	27402	None	None	114849094	114849329	1	None	None
1	None	ENSG00000235702	ENST00000437377	antisense	KNOWN	None	None	None	None	145827205	145833118	1	None	None
11	None	ENSG00000270701	ENST00000605877	processed_pseudogene	KNOWN	None	None	None	None	81553477	81553711	-1	None	None
4	None	ENSG00000250302	ENST00000514957	lincRNA	KNOWN	None	None	None	None	53656161	53681631	1	None	None
11	RNU6-779P	ENSG00000252418	ENST00000516609	snRNA	KNOWN	None	47742	None	None	59266465	59266539	1	None	None
16	None	ENSG00000271691	ENST00000603958	unprocessed_pseudogene	KNOWN	None	None	None	None	33654252	33654536	-1	None	None
11	None	ENSG00000256452	ENST00000399123	antisense	KNOWN	None	None	None	None	113688799	113693180	1	None	None
12	None	ENSG00000255565	ENST00000544015	lincRNA	KNOWN	None	None	None	None	15933002	15935054	1	None	None
8	None	ENSG00000254054	ENST00000519038	lincRNA	KNOWN	None	None	None	None	17763265	17765396	1	None	None
3	None	ENSG00000242199	ENST00000475510	processed_pseudogene	KNOWN	None	None	None	None	124452265	124452601	-1	None	None
8	None	ENSG00000254235	ENST00000522836	lincRNA	KNOWN	None	None	None	None	9106927	9112509	1	None	None
8	None	ENSG00000254235	ENST00000523246	lincRNA	KNOWN	None	None	None	None	9107050	9183486	1	None	None
8	None	ENSG00000254235	ENST00000520255	lincRNA	KNOWN	None	None	None	None	9107114	9271224	1	None	None
8	None	ENSG00000254235	ENST00000520390	lincRNA	KNOWN	None	None	None	None	9182561	9192590	1	None	None
8	None	ENSG00000254235	ENST00000518619	lincRNA	KNOWN	None	None	None	None	9183618	9225402	1	None	None
21	None	ENSG00000233922	ENST00000441095	processed_transcript	PUTATIVE	None	None	None	None	47013568	47016923	1	None	None
21	None	ENSG00000233922	ENST00000424569	processed_transcript	PUTATIVE	None	None	None	None	47013592	47017005	1	None	None
3	EGFEM1P	ENSG00000206120	ENST00000502332	processed_transcript	KNOWN	None	25149	None	None	167967310	168031945	1	C3orf50, NCRNA00259	None
3	EGFEM1P	ENSG00000206120	ENST00000502778	processed_transcript	KNOWN	None	25149	None	None	167967449	168237424	1	C3orf50, NCRNA00259	None
3	EGFEM1P	ENSG00000206120	ENST00000511230	processed_transcript	KNOWN	None	25149	None	None	167967453	168237409	1	C3orf50, NCRNA00259	None
3	EGFEM1P	ENSG00000206120	ENST00000431685	unitary_pseudogene	KNOWN	None	25149	None	None	167967729	168539123	1	C3orf50, NCRNA00259	None
3	EGFEM1P	ENSG00000206120	ENST00000506760	processed_transcript	KNOWN	None	25149	None	None	168237395	168525372	1	C3orf50, NCRNA00259	None
3	EGFEM1P	ENSG00000206120	ENST00000510136	processed_transcript	KNOWN	None	25149	None	None	168509929	168511902	1	C3orf50, NCRNA00259	None
3	EGFEM1P	ENSG00000206120	ENST00000483846	processed_transcript	KNOWN	None	25149	None	None	168525341	168548387	1	C3orf50, NCRNA00259	None
3	EGFEM1P	ENSG00000206120	ENST00000488647	processed_transcript	KNOWN	None	25149	None	None	168527564	168542773	1	C3orf50, NCRNA00259	None
3	EGFEM1P	ENSG00000206120	ENST00000482245	processed_transcript	KNOWN	None	25149	None	None	168527599	168530606	1	C3orf50, NCRNA00259	None
3	EGFEM1P	ENSG00000206120	ENST00000461151	processed_transcript	KNOWN	None	25149	None	None	168530083	168542771	1	C3orf50, NCRNA00259	None
3	EGFEM1P	ENSG00000206120	ENST00000491953	processed_transcript	KNOWN	None	25149	None	None	168530083	168542773	1	C3orf50, NCRNA00259	None
3	EGFEM1P	ENSG00000206120	ENST00000382864	processed_transcript	KNOWN	None	25149	None	None	168530083	168547410	1	C3orf50, NCRNA00259	None
3	EGFEM1P	ENSG00000206120	ENST00000486295	processed_transcript	KNOWN	None	25149	None	None	168538978	168547319	1	C3orf50, NCRNA00259	None
12	None	ENSG00000258215	ENST00000549144	processed_pseudogene	KNOWN	None	None	None	None	81254734	81255287	-1	None	None
10	AIFM2	ENSG00000042286	ENST00000373248	protein_coding	KNOWN	CCDS7297	21411	1122	373	71857979	71883858	-1	AMID	FLJ14497, PRG3
10	AIFM2	ENSG00000042286	ENST00000307864	protein_coding	KNOWN	CCDS7297	21411	1122	373	71872030	71892690	-1	AMID	FLJ14497, PRG3
10	AIFM2	ENSG00000042286	ENST00000482166	processed_transcript	KNOWN	None	21411	None	None	71874531	71878107	-1	AMID	FLJ14497, PRG3
4	CPEB2	ENSG00000137449	ENST00000507071	protein_coding	KNOWN	None	21745	1770	589	15005522	15068250	1	None	None
4	CPEB2	ENSG00000137449	ENST00000345451	protein_coding	KNOWN	None	21745	1680	559	15005522	15068250	1	None	None
4	CPEB2	ENSG00000137449	ENST00000259997	protein_coding	NOVEL	None	21745	1794	597	15005560	15071773	1	None	None
4	CPEB2	ENSG00000137449	ENST00000382395	protein_coding	KNOWN	None	21745	1704	567	15005560	15071775	1	None	None
4	CPEB2	ENSG00000137449	ENST00000382401	protein_coding	KNOWN	None	21745	1689	562	15005560	15071775	1	None	None
4	CPEB2	ENSG00000137449	ENST00000503926	retained_intron	KNOWN	None	21745	None	None	15008991	15019058	1	None	None
4	CPEB2	ENSG00000137449	ENST00000509684	protein_coding	PUTATIVE	None	21745	504	167	15055757	15065495	1	None	None
4	CPEB2	ENSG00000137449	ENST00000538197	protein_coding	KNOWN	CCDS56325	21745	3105	1034	15004298	15071777	1	None	None
4	CPEB2	ENSG00000137449	ENST00000541112	protein_coding	KNOWN	None	21745	3081	1026	15004298	15071777	1	None	None
4	CPEB2	ENSG00000137449	ENST00000442003	protein_coding	KNOWN	CCDS56326	21745	3024	1007	15004298	15071777	1	None	None
19	None	ENSG00000267641	ENST00000589779	processed_pseudogene	KNOWN	None	None	None	None	20285822	20287872	-1	None	None
11	OR4D7P	ENSG00000254770	ENST00000534196	unprocessed_pseudogene	KNOWN	None	15176	None	None	59299227	59300168	1	None	OST724
17	None	ENSG00000234899	ENST00000412640	lincRNA	KNOWN	None	None	None	None	70033455	70053860	-1	None	None
17	None	ENSG00000234899	ENST00000424417	lincRNA	KNOWN	None	None	None	None	70036788	70053875	-1	None	None
17	None	ENSG00000234899	ENST00000602213	lincRNA	KNOWN	None	None	None	None	70036855	70107844	-1	None	None
17	None	ENSG00000234899	ENST00000529667	lincRNA	KNOWN	None	None	None	None	70067183	70115634	-1	None	None
17	None	ENSG00000234899	ENST00000434703	lincRNA	KNOWN	None	None	None	None	70067184	70112157	-1	None	None
17	None	ENSG00000234899	ENST00000440093	lincRNA	KNOWN	None	None	None	None	70067184	70115589	-1	None	None
17	None	ENSG00000234899	ENST00000533996	retained_intron	KNOWN	None	None	None	None	70072627	70081642	-1	None	None
17	None	ENSG00000234899	ENST00000533232	retained_intron	KNOWN	None	None	None	None	70076079	70116934	-1	None	None
17	None	ENSG00000234899	ENST00000533039	lincRNA	KNOWN	None	None	None	None	70078062	70085261	-1	None	None
17	None	ENSG00000234899	ENST00000414600	lincRNA	KNOWN	None	None	None	None	70086600	70137921	-1	None	None
17	None	ENSG00000234899	ENST00000533179	lincRNA	KNOWN	None	None	None	None	70086896	70115664	-1	None	None
17	None	ENSG00000234899	ENST00000446332	lincRNA	KNOWN	None	None	None	None	70086962	70106689	-1	None	None
17	None	ENSG00000234899	ENST00000443037	lincRNA	KNOWN	None	None	None	None	70106319	70106865	-1	None	None
17	None	ENSG00000234899	ENST00000532249	retained_intron	KNOWN	None	None	None	None	70137527	70216859	-1	None	None
17	None	ENSG00000234899	ENST00000588177	lincRNA	KNOWN	None	None	None	None	70217271	70217977	-1	None	None
14	RNU6-297P	ENSG00000207366	ENST00000384636	snRNA	KNOWN	None	47260	None	None	48810429	48810535	-1	None	None
HG325_PATCH	None	ENSG00000261869	ENST00000575357	protein_coding	KNOWN	None	None	495	164	50316459	50325546	1	None	None
4	None	ENSG00000248115	ENST00000510351	antisense	KNOWN	None	None	None	None	53811816	53817189	1	None	None
4	None	ENSG00000248115	ENST00000504048	antisense	KNOWN	None	None	None	None	53811833	53814919	1	None	None
4	None	ENSG00000248115	ENST00000508813	antisense	KNOWN	None	None	None	None	53811856	53824254	1	None	None
6	None	ENSG00000227192	ENST00000454588	antisense	KNOWN	None	None	None	None	143360562	143363461	-1	None	None
11	None	ENSG00000245832	ENST00000530896	lincRNA	KNOWN	None	None	None	None	81590893	81811085	-1	None	None
11	None	ENSG00000245832	ENST00000500502	lincRNA	KNOWN	None	None	None	None	81590896	82114955	-1	None	None
11	None	ENSG00000245832	ENST00000532217	lincRNA	KNOWN	None	None	None	None	81811235	82429124	-1	None	None
11	None	ENSG00000255710	ENST00000536944	processed_pseudogene	KNOWN	None	None	None	None	113691578	113692607	-1	None	None
15	ST8SIA2	ENSG00000140557	ENST00000268164	protein_coding	KNOWN	CCDS10372	10870	1128	375	92937058	93011958	1	SIAT8B	STX, ST8SIA-II, HsT19690
15	ST8SIA2	ENSG00000140557	ENST00000539113	protein_coding	NOVEL	None	10870	1065	354	92937271	93007615	1	SIAT8B	STX, ST8SIA-II, HsT19690
15	ST8SIA2	ENSG00000140557	ENST00000555434	protein_coding	PUTATIVE	None	10870	998	331	92937295	93007614	1	SIAT8B	STX, ST8SIA-II, HsT19690
15	ST8SIA2	ENSG00000140557	ENST00000556382	retained_intron	KNOWN	None	10870	None	None	92977546	92988354	1	SIAT8B	STX, ST8SIA-II, HsT19690
1	PDZK1P1	ENSG00000215860	ENST00000401011	processed_transcript	KNOWN	None	31974	None	None	145924388	145942619	-1	None	OTTHUMT00000038524
1	PDZK1P1	ENSG00000215860	ENST00000449151	transcribed_unprocessed_pseudogene	KNOWN	None	31974	None	None	145924827	145940113	-1	None	OTTHUMT00000038524
8	E2F5	ENSG00000133740	ENST00000418930	protein_coding	KNOWN	CCDS47886	3119	1038	345	86089460	86126753	1	None	None
8	E2F5	ENSG00000133740	ENST00000416274	protein_coding	KNOWN	CCDS47885	3119	1041	346	86089622	86126750	1	None	None
8	E2F5	ENSG00000133740	ENST00000519128	processed_transcript	KNOWN	None	3119	None	None	86089847	86129387	1	None	None
8	E2F5	ENSG00000133740	ENST00000517476	protein_coding	KNOWN	CCDS55254	3119	558	185	86099920	86126272	1	None	None
8	E2F5	ENSG00000133740	ENST00000521429	protein_coding	PUTATIVE	None	3119	522	173	86099920	86126725	1	None	None
8	E2F5	ENSG00000133740	ENST00000521234	retained_intron	KNOWN	None	3119	None	None	86114020	86115497	1	None	None
8	E2F5	ENSG00000133740	ENST00000518234	protein_coding	KNOWN	None	3119	549	182	86118398	86128438	1	None	None
8	E2F5	ENSG00000133740	ENST00000520225	protein_coding	PUTATIVE	None	3119	391	129	86121448	86126753	1	None	None
8	E2F5	ENSG00000133740	ENST00000256117	protein_coding	KNOWN	None	3119	1044	347	86089619	86126751	1	None	None
X	None	ENSG00000234712	ENST00000414071	antisense	KNOWN	None	None	None	None	144314449	144315139	-1	None	None
6	None	ENSG00000225752	ENST00000423500	antisense	KNOWN	None	None	None	None	143415171	143420782	-1	None	None
10	HKDC1	ENSG00000156510	ENST00000354624	protein_coding	KNOWN	CCDS7288	23302	2754	917	70980059	71027315	1	None	FLJ37767, FLJ22761
10	HKDC1	ENSG00000156510	ENST00000488706	processed_transcript	KNOWN	None	23302	None	None	71007266	71008711	1	None	FLJ37767, FLJ22761
10	HKDC1	ENSG00000156510	ENST00000470920	processed_transcript	KNOWN	None	23302	None	None	71018627	71021393	1	None	FLJ37767, FLJ22761
10	HKDC1	ENSG00000156510	ENST00000395086	protein_coding	KNOWN	None	23302	2421	806	70980059	71021862	1	None	FLJ37767, FLJ22761
8	None	ENSG00000245281	ENST00000505114	antisense	KNOWN	None	None	None	None	17942377	17945720	1	None	None
8	None	ENSG00000245281	ENST00000499554	antisense	KNOWN	None	None	None	None	17942377	17953903	1	None	None
8	None	ENSG00000245281	ENST00000517747	antisense	KNOWN	None	None	None	None	17942398	17945001	1	None	None
8	None	ENSG00000245281	ENST00000521775	antisense	KNOWN	None	None	None	None	17942536	17953416	1	None	None
8	None	ENSG00000245281	ENST00000517798	antisense	KNOWN	None	None	None	None	17942558	17945550	1	None	None
16	None	ENSG00000260312	ENST00000563019	lincRNA	KNOWN	None	None	None	None	33660402	33661331	-1	None	None
3	None	ENSG00000240708	ENST00000492683	lincRNA	KNOWN	None	None	None	None	55330228	55334766	1	None	None
3	METTL15P1	ENSG00000174912	ENST00000481421	processed_pseudogene	KNOWN	None	31926	None	None	156431673	156432717	-1	METT5D2	None
3	METTL15P1	ENSG00000174912	ENST00000447575	processed_pseudogene	KNOWN	None	31926	None	None	156432013	156432717	-1	METT5D2	None
15	None	ENSG00000259904	ENST00000570019	processed_pseudogene	KNOWN	None	None	None	None	34665742	34666804	-1	None	None
3	None	ENSG00000272110	ENST00000607813	misc_RNA	NOVEL	None	None	None	None	47542573	47542672	1	None	None
16	IGHV3OR16-11	ENSG00000270318	ENST00000565524	IG_V_pseudogene	KNOWN	None	5635	None	None	33661363	33661819	-1	None	IGHV3/OR16-11
22	SMCR7L	ENSG00000100335	ENST00000464629	processed_transcript	KNOWN	None	25979	None	None	39895437	39900307	1	SMCR7L	FLJ20232, MiD51
22	SMCR7L	ENSG00000100335	ENST00000402881	protein_coding	NOVEL	None	25979	1437	478	39896105	39911713	1	SMCR7L	FLJ20232, MiD51
22	SMCR7L	ENSG00000100335	ENST00000467866	processed_transcript	KNOWN	None	25979	None	None	39896352	39900459	1	SMCR7L	FLJ20232, MiD51
22	SMCR7L	ENSG00000100335	ENST00000465564	processed_transcript	KNOWN	None	25979	None	None	39897736	39898390	1	SMCR7L	FLJ20232, MiD51
22	SMCR7L	ENSG00000100335	ENST00000489792	processed_transcript	KNOWN	None	25979	None	None	39898216	39899867	1	SMCR7L	FLJ20232, MiD51
22	SMCR7L	ENSG00000100335	ENST00000478342	processed_transcript	KNOWN	None	25979	None	None	39898257	39900539	1	SMCR7L	FLJ20232, MiD51
22	SMCR7L	ENSG00000100335	ENST00000481746	processed_transcript	KNOWN	None	25979	None	None	39898261	39900490	1	SMCR7L	FLJ20232, MiD51
22	SMCR7L	ENSG00000100335	ENST00000433117	nonsense_mediated_decay	KNOWN	None	25979	447	148	39898307	39912385	1	SMCR7L	FLJ20232, MiD51
22	SMCR7L	ENSG00000100335	ENST00000325301	protein_coding	KNOWN	CCDS13995	25979	1392	463	39898358	39914137	1	SMCR7L	FLJ20232, MiD51
22	SMCR7L	ENSG00000100335	ENST00000494219	retained_intron	KNOWN	None	25979	None	None	39898360	39900716	1	SMCR7L	FLJ20232, MiD51
22	SMCR7L	ENSG00000100335	ENST00000404569	protein_coding	KNOWN	CCDS13995	25979	1392	463	39898382	39912183	1	SMCR7L	FLJ20232, MiD51
22	SMCR7L	ENSG00000100335	ENST00000434364	protein_coding	KNOWN	None	25979	128	41	39898400	39907427	1	SMCR7L	FLJ20232, MiD51
22	SMCR7L	ENSG00000100335	ENST00000428069	nonsense_mediated_decay	KNOWN	None	25979	447	148	39898402	39909871	1	SMCR7L	FLJ20232, MiD51
22	SMCR7L	ENSG00000100335	ENST00000479514	processed_transcript	KNOWN	None	25979	None	None	39899462	39900515	1	SMCR7L	FLJ20232, MiD51
3	None	ENSG00000266443	ENST00000583674	miRNA	NOVEL	None	None	None	None	47581504	47581590	-1	None	None
6	HIST1H2APS2	ENSG00000242387	ENST00000454426	transcribed_processed_pseudogene	KNOWN	None	18804	None	None	25882254	25882623	-1	H2AFTP	dJ139G21.2, H2A/T
12	MIR618	ENSG00000208022	ENST00000385287	miRNA	KNOWN	None	32874	None	None	81329515	81329612	-1	MIRN618	hsa-mir-618
12	None	ENSG00000256627	ENST00000544148	processed_pseudogene	KNOWN	None	None	None	None	15956098	15957092	1	None	None
3	RN7SL870P	ENSG00000244732	ENST00000460111	misc_RNA	KNOWN	None	46886	None	None	47601721	47602014	-1	None	None
3	ITGB5-AS1	ENSG00000244286	ENST00000495917	antisense	KNOWN	None	40309	None	None	124500002	124506604	1	None	None
18	SIGLEC15	ENSG00000197046	ENST00000389474	protein_coding	KNOWN	CCDS32819	27596	987	328	43405477	43422521	1	CD33L3	HsT1361
18	SIGLEC15	ENSG00000197046	ENST00000602118	processed_transcript	KNOWN	None	27596	None	None	43409053	43422521	1	CD33L3	HsT1361
18	SIGLEC15	ENSG00000197046	ENST00000546268	protein_coding	PUTATIVE	None	27596	525	174	43409056	43422189	1	CD33L3	HsT1361
18	SIGLEC15	ENSG00000197046	ENST00000587418	protein_coding	PUTATIVE	None	27596	318	105	43417806	43421059	1	CD33L3	HsT1361
18	SIGLEC15	ENSG00000197046	ENST00000593178	retained_intron	KNOWN	None	27596	None	None	43418487	43424045	1	CD33L3	HsT1361
11	RNU6-1107P	ENSG00000201687	ENST00000364817	snRNA	KNOWN	None	48070	None	None	113730068	113730171	1	None	None
14	None	ENSG00000202402	ENST00000365532	misc_RNA	NOVEL	None	None	None	None	31713967	31714067	1	None	None
14	None	ENSG00000258583	ENST00000553762	lincRNA	KNOWN	None	None	None	None	59294952	59361002	1	None	None
14	None	ENSG00000258583	ENST00000555378	lincRNA	KNOWN	None	None	None	None	59295006	59475873	1	None	None
14	None	ENSG00000258583	ENST00000556815	lincRNA	KNOWN	None	None	None	None	59295006	59484046	1	None	None
14	None	ENSG00000258583	ENST00000556026	lincRNA	KNOWN	None	None	None	None	59360884	59484046	1	None	None
11	None	ENSG00000221112	ENST00000408185	miRNA	NOVEL	None	None	None	None	113957533	113957651	-1	None	None
7	SLC29A4P2	ENSG00000214660	ENST00000504749	unprocessed_pseudogene	KNOWN	None	43782	None	None	63016976	63022966	1	None	None
12	VTI1BP3	ENSG00000258074	ENST00000550220	processed_pseudogene	KNOWN	None	43729	None	None	53525134	53525769	1	None	None
16	None	ENSG00000260525	ENST00000566360	unprocessed_pseudogene	KNOWN	None	None	None	None	33677506	33677935	-1	None	None
3	None	ENSG00000234238	ENST00000449845	lincRNA	KNOWN	None	None	None	None	187824884	187864808	1	None	None
6	None	ENSG00000272065	ENST00000607586	lincRNA	KNOWN	None	None	None	None	25990989	25991454	1	None	None
X	None	ENSG00000270736	ENST00000605823	processed_pseudogene	KNOWN	None	None	None	None	120100802	120101053	1	None	None
4	None	ENSG00000200049	ENST00000363179	misc_RNA	NOVEL	None	None	None	None	144230619	144230719	1	None	None
2	MSL3P1	ENSG00000224287	ENST00000438684	processed_transcript	KNOWN	None	17837	None	None	234774083	234777090	-1	MSL3L2	None
2	MSL3P1	ENSG00000224287	ENST00000440028	transcribed_processed_pseudogene	KNOWN	None	17837	None	None	234774775	234776876	-1	MSL3L2	None
12	None	ENSG00000258026	ENST00000547123	antisense	KNOWN	None	None	None	None	81488154	81519624	-1	None	None
7	PRSS37	ENSG00000165076	ENST00000350549	protein_coding	KNOWN	CCDS34764	29211	708	235	141536086	141541221	-1	None	None
7	PRSS37	ENSG00000165076	ENST00000419085	nonsense_mediated_decay	KNOWN	None	29211	207	68	141536100	141541285	-1	None	None
7	PRSS37	ENSG00000165076	ENST00000438520	protein_coding	KNOWN	CCDS34764	29211	708	235	141536129	141541287	-1	None	None
7	PRSS37	ENSG00000165076	ENST00000452758	nonsense_mediated_decay	KNOWN	None	29211	198	65	141536159	141541011	-1	None	None
4	None	ENSG00000178972	ENST00000317872	pseudogene	KNOWN	None	None	None	None	144256418	144258970	-1	None	None
3	LPP-AS2	ENSG00000270959	ENST00000605573	antisense	KNOWN	None	27952	None	None	187868994	187871845	-1	None	None
14	None	ENSG00000257831	ENST00000551799	antisense	KNOWN	None	None	None	None	31717834	31771945	1	None	None
3	LPP-AS1	ENSG00000224563	ENST00000434996	antisense	KNOWN	None	40346	None	None	188280026	188286454	-1	None	None
3	ENO1P3	ENSG00000243986	ENST00000484903	processed_pseudogene	KNOWN	None	37944	None	None	124580941	124582164	-1	None	None
6	None	ENSG00000272462	ENST00000606723	lincRNA	KNOWN	None	None	None	None	25992890	25998545	1	None	None
16	NUPR1	ENSG00000176046	ENST00000324873	protein_coding	KNOWN	CCDS10634	29990	249	82	28548606	28550495	-1	None	COM1, p8
16	NUPR1	ENSG00000176046	ENST00000567646	nonsense_mediated_decay	KNOWN	None	29990	132	43	28548828	28550272	-1	None	COM1, p8
16	NUPR1	ENSG00000176046	ENST00000395641	protein_coding	NOVEL	CCDS42137	29990	303	100	28548858	28550329	-1	None	COM1, p8
3	LINC00886	ENSG00000240875	ENST00000472943	lincRNA	KNOWN	None	48572	None	None	156465135	156534823	-1	None	None
3	LINC00886	ENSG00000240875	ENST00000488584	lincRNA	KNOWN	None	48572	None	None	156467790	156469308	-1	None	None
3	LINC00886	ENSG00000240875	ENST00000473352	lincRNA	KNOWN	None	48572	None	None	156470852	156534851	-1	None	None
15	SNORD116-5	ENSG00000207191	ENST00000384462	snoRNA	KNOWN	None	33071	None	None	25307480	25307574	1	None	HBII-85-5
3	None	ENSG00000264114	ENST00000579504	miRNA	NOVEL	None	None	None	None	188348429	188348490	-1	None	None
8	CNOT7	ENSG00000198791	ENST00000361272	protein_coding	KNOWN	CCDS6000	14101	858	285	17086737	17104387	-1	CAF1	None
8	CNOT7	ENSG00000198791	ENST00000518541	protein_coding	NOVEL	None	14101	274	90	17088077	17092369	-1	CAF1	None
8	CNOT7	ENSG00000198791	ENST00000523917	protein_coding	KNOWN	CCDS55202	14101	735	244	17089079	17104387	-1	CAF1	None
8	CNOT7	ENSG00000198791	ENST00000519954	nonsense_mediated_decay	KNOWN	None	14101	156	51	17089838	17104366	-1	CAF1	None
8	CNOT7	ENSG00000198791	ENST00000519918	protein_coding	PUTATIVE	None	14101	626	207	17092102	17102600	-1	CAF1	None
8	CNOT7	ENSG00000198791	ENST00000522062	retained_intron	KNOWN	None	14101	None	None	17092310	17095104	-1	CAF1	None
8	CNOT7	ENSG00000198791	ENST00000524358	protein_coding	KNOWN	None	14101	443	146	17094751	17104118	-1	CAF1	None
8	CNOT7	ENSG00000198791	ENST00000519998	retained_intron	KNOWN	None	14101	None	None	17098803	17102561	-1	CAF1	None
8	CNOT7	ENSG00000198791	ENST00000518021	nonsense_mediated_decay	KNOWN	None	14101	189	62	17100503	17104366	-1	CAF1	None
8	CNOT7	ENSG00000198791	ENST00000520178	protein_coding	KNOWN	None	14101	122	39	17100690	17103957	-1	CAF1	None
8	CNOT7	ENSG00000198791	ENST00000518885	processed_transcript	KNOWN	None	14101	None	None	17101836	17104081	-1	CAF1	None
8	CNOT7	ENSG00000198791	ENST00000523649	retained_intron	KNOWN	None	14101	None	None	17102249	17104374	-1	CAF1	None
3	None	ENSG00000242568	ENST00000469806	lincRNA	KNOWN	None	None	None	None	55369490	55384943	-1	None	None
15	None	ENSG00000271616	ENST00000605667	processed_pseudogene	KNOWN	None	None	None	None	29075765	29076328	-1	None	None
X	None	ENSG00000270771	ENST00000605353	processed_pseudogene	KNOWN	None	None	None	None	120105662	120105913	1	None	None
3	MIR28	ENSG00000207651	ENST00000384918	miRNA	KNOWN	None	31615	None	None	188406569	188406654	1	MIRN28	hsa-mir-28
4	ENPEP	ENSG00000138792	ENST00000510961	processed_transcript	KNOWN	None	3355	None	None	111286889	111427414	1	None	gp160, CD249
4	ENPEP	ENSG00000138792	ENST00000265162	protein_coding	KNOWN	CCDS3691	3355	2874	957	111397229	111486441	1	None	gp160, CD249
4	ENPEP	ENSG00000138792	ENST00000509344	nonsense_mediated_decay	KNOWN	None	3355	433	143	111434645	111454583	1	None	gp160, CD249
4	ENPEP	ENSG00000138792	ENST00000502711	retained_intron	KNOWN	None	3355	None	None	111470584	111474673	1	None	gp160, CD249
4	ENPEP	ENSG00000138792	ENST00000504100	processed_transcript	PUTATIVE	None	3355	None	None	111480264	111486213	1	None	gp160, CD249
2	BCL2L11	ENSG00000153094	ENST00000432179	protein_coding	KNOWN	None	994	367	121	111876955	111881689	1	None	BOD, BimL, BimEL, BimS, BIM
2	BCL2L11	ENSG00000153094	ENST00000308659	protein_coding	KNOWN	CCDS42731	994	417	138	111878491	111922625	1	None	BOD, BimL, BimEL, BimS, BIM
2	BCL2L11	ENSG00000153094	ENST00000393256	protein_coding	KNOWN	CCDS2089	994	597	198	111878506	111926024	1	None	BOD, BimL, BimEL, BimS, BIM
2	BCL2L11	ENSG00000153094	ENST00000393252	protein_coding	KNOWN	None	994	215	70	111880247	111881537	1	None	BOD, BimL, BimEL, BimS, BIM
2	BCL2L11	ENSG00000153094	ENST00000433098	nonsense_mediated_decay	KNOWN	None	994	330	109	111880271	111922220	1	None	BOD, BimL, BimEL, BimS, BIM
2	BCL2L11	ENSG00000153094	ENST00000405953	protein_coding	PUTATIVE	CCDS2092	994	339	112	111881323	111886414	1	None	BOD, BimL, BimEL, BimS, BIM
2	BCL2L11	ENSG00000153094	ENST00000415458	nonsense_mediated_decay	KNOWN	CCDS56131	994	243	80	111881323	111921808	1	None	BOD, BimL, BimEL, BimS, BIM
2	BCL2L11	ENSG00000153094	ENST00000436733	nonsense_mediated_decay	KNOWN	CCDS56136	994	423	140	111881323	111921808	1	None	BOD, BimL, BimEL, BimS, BIM
2	BCL2L11	ENSG00000153094	ENST00000437029	nonsense_mediated_decay	KNOWN	CCDS56135	994	519	172	111881323	111921808	1	None	BOD, BimL, BimEL, BimS, BIM
2	BCL2L11	ENSG00000153094	ENST00000452231	nonsense_mediated_decay	KNOWN	CCDS56133	994	249	82	111881323	111921808	1	None	BOD, BimL, BimEL, BimS, BIM
2	BCL2L11	ENSG00000153094	ENST00000361493	nonsense_mediated_decay	KNOWN	None	994	228	75	111881323	111921808	1	None	BOD, BimL, BimEL, BimS, BIM
2	BCL2L11	ENSG00000153094	ENST00000431217	nonsense_mediated_decay	KNOWN	CCDS56134	994	408	135	111881323	111921929	1	None	BOD, BimL, BimEL, BimS, BIM
2	BCL2L11	ENSG00000153094	ENST00000439718	nonsense_mediated_decay	KNOWN	CCDS56132	994	258	85	111881323	111922220	1	None	BOD, BimL, BimEL, BimS, BIM
2	BCL2L11	ENSG00000153094	ENST00000438054	protein_coding	PUTATIVE	None	994	291	96	111881329	111903861	1	None	BOD, BimL, BimEL, BimS, BIM
2	BCL2L11	ENSG00000153094	ENST00000357757	protein_coding	KNOWN	CCDS56135	994	519	172	111878491	111919016	1	None	BOD, BimL, BimEL, BimS, BIM
2	BCL2L11	ENSG00000153094	ENST00000393253	protein_coding	KNOWN	CCDS56132	994	258	85	111878491	111909428	1	None	BOD, BimL, BimEL, BimS, BIM
2	BCL2L11	ENSG00000153094	ENST00000337565	protein_coding	KNOWN	CCDS2092	994	339	112	111878491	111886423	1	None	BOD, BimL, BimEL, BimS, BIM
17	None	ENSG00000220161	ENST00000577684	lincRNA	KNOWN	None	None	None	None	18314473	18317694	1	None	None
15	SNORD116-6	ENSG00000207442	ENST00000384711	snoRNA	KNOWN	None	33072	None	None	25310173	25310268	1	None	HBII-85-6
3	TPRG1-AS1	ENSG00000234076	ENST00000444488	lincRNA	KNOWN	None	42391	None	None	188659504	188665428	-1	None	None
14	None	ENSG00000258751	ENST00000555693	lincRNA	KNOWN	None	None	None	None	48865711	48960970	-1	None	None
12	RNU6-333P	ENSG00000238669	ENST00000459117	snRNA	KNOWN	None	47296	None	None	53532329	53532435	-1	None	None
11	RNU7-58P	ENSG00000252893	ENST00000517084	snRNA	KNOWN	None	34154	None	None	59326273	59326334	1	None	U7.58
16	ZNF267	ENSG00000185947	ENST00000300870	protein_coding	KNOWN	CCDS32440	13060	2232	743	31885079	31928668	1	None	HZF2
16	ZNF267	ENSG00000185947	ENST00000394846	protein_coding	PUTATIVE	None	13060	234	77	31885128	31926046	1	None	HZF2
16	ZNF267	ENSG00000185947	ENST00000566541	nonsense_mediated_decay	KNOWN	None	13060	154	50	31885152	31925879	1	None	HZF2
16	ZNF267	ENSG00000185947	ENST00000561814	nonsense_mediated_decay	KNOWN	None	13060	149	48	31885154	31925848	1	None	HZF2
16	ZNF267	ENSG00000185947	ENST00000562971	protein_coding	PUTATIVE	None	13060	275	90	31885387	31925941	1	None	HZF2
6	HIST1H1PS2	ENSG00000224447	ENST00000437528	unprocessed_pseudogene	KNOWN	None	4770	None	None	26016607	26016829	1	H3FEP	pH3/e
12	HIGD1AP1	ENSG00000258016	ENST00000550979	processed_pseudogene	KNOWN	None	22804	None	None	53535837	53536111	1	HIGD1D, HIGD1DP	None
14	None	ENSG00000199291	ENST00000362421	misc_RNA	NOVEL	None	None	None	None	31727814	31727915	-1	None	None
3	None	ENSG00000242775	ENST00000465946	lincRNA	KNOWN	None	None	None	None	55394471	55395857	-1	None	None
6	None	ENSG00000234816	ENST00000454320	unprocessed_pseudogene	KNOWN	None	None	None	None	26044217	26044585	1	None	None
HG871_PATCH	AKR1C5P	ENSG00000263428	ENST00000580408	unprocessed_pseudogene	KNOWN	None	44679	None	None	5164279	5177418	-1	None	None
3	None	ENSG00000236182	ENST00000411493	processed_pseudogene	KNOWN	None	None	None	None	188707171	188707924	-1	None	None
12	None	ENSG00000257790	ENST00000550578	processed_pseudogene	KNOWN	None	None	None	None	53547056	53548268	1	None	None
14	None	ENSG00000263784	ENST00000582500	miRNA	NOVEL	None	None	None	None	31779519	31779590	1	None	None
X	GPR112	ENSG00000156920	ENST00000394143	protein_coding	KNOWN	CCDS35409	18992	9243	3080	135383122	135499047	1	None	RP1-299I16, PGR17
X	GPR112	ENSG00000156920	ENST00000394141	protein_coding	NOVEL	None	18992	8628	2875	135388180	135498843	1	None	RP1-299I16, PGR17
X	GPR112	ENSG00000156920	ENST00000370652	protein_coding	KNOWN	CCDS35409	18992	9243	3080	135387012	135499047	1	None	RP1-299I16, PGR17
X	GPR112	ENSG00000156920	ENST00000412101	protein_coding	KNOWN	None	18992	8628	2875	135387012	135499047	1	None	RP1-299I16, PGR17
X	GPR112	ENSG00000156920	ENST00000287534	protein_coding	KNOWN	None	18992	8415	2804	135387012	135519215	1	None	RP1-299I16, PGR17
3	POGLUT1	ENSG00000163389	ENST00000295588	protein_coding	KNOWN	CCDS2988	22954	1179	392	119187785	119213555	1	C3orf9, KTELC1	MDS010, MGC32995, 9630046K23Rik, MDSRP, hCLP46, KDELCL1, Rumi
3	POGLUT1	ENSG00000163389	ENST00000476573	protein_coding	PUTATIVE	None	22954	567	188	119187810	119204204	1	C3orf9, KTELC1	MDS010, MGC32995, 9630046K23Rik, MDSRP, hCLP46, KDELCL1, Rumi
3	POGLUT1	ENSG00000163389	ENST00000497447	nonsense_mediated_decay	KNOWN	None	22954	564	187	119187810	119209514	1	C3orf9, KTELC1	MDS010, MGC32995, 9630046K23Rik, MDSRP, hCLP46, KDELCL1, Rumi
3	POGLUT1	ENSG00000163389	ENST00000486607	nonsense_mediated_decay	KNOWN	None	22954	492	163	119187810	119211324	1	C3orf9, KTELC1	MDS010, MGC32995, 9630046K23Rik, MDSRP, hCLP46, KDELCL1, Rumi
3	POGLUT1	ENSG00000163389	ENST00000390401	retained_intron	KNOWN	None	22954	None	None	119187822	119190663	1	C3orf9, KTELC1	MDS010, MGC32995, 9630046K23Rik, MDSRP, hCLP46, KDELCL1, Rumi
3	POGLUT1	ENSG00000163389	ENST00000460339	nonsense_mediated_decay	KNOWN	None	22954	336	111	119187847	119196254	1	C3orf9, KTELC1	MDS010, MGC32995, 9630046K23Rik, MDSRP, hCLP46, KDELCL1, Rumi
3	POGLUT1	ENSG00000163389	ENST00000481043	retained_intron	KNOWN	None	22954	None	None	119196970	119198826	1	C3orf9, KTELC1	MDS010, MGC32995, 9630046K23Rik, MDSRP, hCLP46, KDELCL1, Rumi
3	POGLUT1	ENSG00000163389	ENST00000473648	retained_intron	KNOWN	None	22954	None	None	119206890	119211993	1	C3orf9, KTELC1	MDS010, MGC32995, 9630046K23Rik, MDSRP, hCLP46, KDELCL1, Rumi
15	GOLGA6L7P	ENSG00000261649	ENST00000567390	transcribed_unprocessed_pseudogene	KNOWN	None	37442	None	None	29087381	29093728	-1	GOLGA6L7	None
15	GOLGA6L7P	ENSG00000261649	ENST00000569815	processed_transcript	PUTATIVE	None	37442	None	None	29090107	29093821	-1	GOLGA6L7	None
15	SNORD116-7	ENSG00000207133	ENST00000384404	snoRNA	KNOWN	None	33073	None	None	25312935	25313029	1	None	HBII-85-7
3	TPRG1-AS2	ENSG00000230115	ENST00000425454	antisense	KNOWN	None	41062	None	None	188956475	188958383	-1	None	None
6	LARP1P1	ENSG00000217159	ENST00000407692	processed_pseudogene	KNOWN	None	23183	None	None	26164300	26164591	1	HCG10P	dJ221C16.7
11	None	ENSG00000255008	ENST00000533552	lincRNA	KNOWN	None	None	None	None	59328619	59333547	-1	None	None
17	None	ENSG00000267788	ENST00000593177	lincRNA	KNOWN	None	None	None	None	43059882	43060140	1	None	None
8	None	ENSG00000221003	ENST00000408076	miRNA	NOVEL	None	None	None	None	29786121	29786205	1	None	None
17	None	ENSG00000205266	ENST00000445433	processed_transcript	KNOWN	None	None	None	None	18319042	18328409	1	None	None
17	None	ENSG00000205266	ENST00000579679	processed_transcript	KNOWN	None	None	None	None	18323281	18325631	1	None	None
17	None	ENSG00000205266	ENST00000444070	processed_transcript	KNOWN	None	None	None	None	18323282	18328411	1	None	None
17	None	ENSG00000205266	ENST00000584833	processed_transcript	PUTATIVE	None	None	None	None	18323396	18324540	1	None	None
17	None	ENSG00000205266	ENST00000581247	processed_transcript	PUTATIVE	None	None	None	None	18323443	18324553	1	None	None
17	None	ENSG00000205266	ENST00000583394	processed_transcript	PUTATIVE	None	None	None	None	18327635	18328411	1	None	None
3	RNA5SP137	ENSG00000252642	ENST00000516833	rRNA	KNOWN	None	43037	None	None	124777148	124777282	-1	RN5S137	None
2	None	ENSG00000237581	ENST00000455991	antisense	KNOWN	None	None	None	None	234854790	234864079	-1	None	None
X	None	ENSG00000270646	ENST00000605253	processed_pseudogene	KNOWN	None	None	None	None	120110522	120110773	1	None	None
14	None	ENSG00000258660	ENST00000557304	antisense	KNOWN	None	None	None	None	74164806	74167054	-1	None	None
17	None	ENSG00000200888	ENST00000364018	misc_RNA	NOVEL	None	None	None	None	43148810	43148911	1	None	None
3	FAM194A	ENSG00000163645	ENST00000491716	retained_intron	KNOWN	None	28602	None	None	150377672	150400106	-1	C3orf44	MGC39662
3	FAM194A	ENSG00000163645	ENST00000295910	protein_coding	KNOWN	CCDS3151	28602	1992	663	150377672	150421738	-1	C3orf44	MGC39662
3	FAM194A	ENSG00000163645	ENST00000491361	protein_coding	PUTATIVE	None	28602	1554	517	150377672	150421745	-1	C3orf44	MGC39662
3	FAM194A	ENSG00000163645	ENST00000474463	protein_coding	NOVEL	None	28602	492	163	150404125	150421719	-1	C3orf44	MGC39662
3	FAM194A	ENSG00000163645	ENST00000498386	protein_coding	NOVEL	None	28602	406	134	150416605	150421758	-1	C3orf44	MGC39662
15	None	ENSG00000266205	ENST00000582972	miRNA	NOVEL	None	None	None	None	34665990	34666072	-1	None	None
11	None	ENSG00000256947	ENST00000544925	antisense	KNOWN	None	None	None	None	114081338	114227293	-1	None	None
11	MIR4300	ENSG00000264110	ENST00000581016	miRNA	KNOWN	None	38184	None	None	81601783	81601878	-1	None	hsa-mir-4300
5	None	ENSG00000233787	ENST00000503762	processed_pseudogene	KNOWN	None	None	None	None	29881816	29883052	-1	None	None
6	HIST1H1PS1	ENSG00000216331	ENST00000404269	processed_pseudogene	KNOWN	None	19163	None	None	26195794	26195999	1	None	dJ34B20.16, FLJ39701, H1F6P
12	TMED2	ENSG00000086598	ENST00000262225	protein_coding	KNOWN	CCDS9250	16996	606	201	124069078	124083116	1	None	RNP24, P24A
12	TMED2	ENSG00000086598	ENST00000438031	protein_coding	PUTATIVE	None	16996	499	165	124069080	124074993	1	None	RNP24, P24A
12	TMED2	ENSG00000086598	ENST00000543425	retained_intron	KNOWN	None	16996	None	None	124069096	124081889	1	None	RNP24, P24A
12	TMED2	ENSG00000086598	ENST00000544188	retained_intron	KNOWN	None	16996	None	None	124069145	124071507	1	None	RNP24, P24A
12	TMED2	ENSG00000086598	ENST00000509052	protein_coding	PUTATIVE	None	16996	351	116	124070109	124081640	1	None	RNP24, P24A
12	RN7SKP216	ENSG00000222982	ENST00000411050	misc_RNA	KNOWN	None	45940	None	None	114942681	114942992	-1	None	None
12	None	ENSG00000256953	ENST00000545999	lincRNA	KNOWN	None	None	None	None	15966427	15981208	-1	None	None
X	None	ENSG00000231093	ENST00000443260	processed_pseudogene	KNOWN	None	None	None	None	144711736	144713893	1	None	None
17	None	ENSG00000224505	ENST00000589950	antisense	KNOWN	None	None	None	None	43227767	43238877	-1	None	None
17	None	ENSG00000224505	ENST00000452741	antisense	KNOWN	None	None	None	None	43227985	43236822	-1	None	None
15	RNU6-554P	ENSG00000222398	ENST00000410466	snRNA	KNOWN	None	47517	None	None	43894741	43894846	1	None	None
2	None	ENSG00000226442	ENST00000437967	lincRNA	KNOWN	None	None	None	None	235017725	235018125	1	None	None
3	RNU6-230P	ENSG00000199327	ENST00000362457	snRNA	KNOWN	None	47193	None	None	124837941	124838044	-1	None	None
14	None	ENSG00000250365	ENST00000549844	antisense	KNOWN	None	None	None	None	31889492	31909155	1	None	None
14	None	ENSG00000250365	ENST00000502430	antisense	KNOWN	None	None	None	None	31889964	31922089	1	None	None
14	None	ENSG00000250365	ENST00000550431	antisense	KNOWN	None	None	None	None	31890150	31909151	1	None	None
5	RN7SKP207	ENSG00000223136	ENST00000411204	misc_RNA	KNOWN	None	45931	None	None	29948935	29949237	1	None	None
12	MIR4699	ENSG00000265227	ENST00000578957	miRNA	KNOWN	None	41636	None	None	81552167	81552240	1	None	hsa-mir-4699
11	NDUFS3	ENSG00000213619	ENST00000533507	processed_transcript	KNOWN	None	7710	None	None	47586888	47606113	1	None	CI-30
11	NDUFS3	ENSG00000213619	ENST00000263774	protein_coding	KNOWN	CCDS7941	7710	795	264	47600562	47606114	1	None	CI-30
11	NDUFS3	ENSG00000213619	ENST00000529276	protein_coding	PUTATIVE	None	7710	204	67	47600581	47601248	1	None	CI-30
11	NDUFS3	ENSG00000213619	ENST00000528192	protein_coding	PUTATIVE	None	7710	486	161	47600592	47602855	1	None	CI-30
11	NDUFS3	ENSG00000213619	ENST00000530295	protein_coding	PUTATIVE	None	7710	233	76	47600624	47602454	1	None	CI-30
11	NDUFS3	ENSG00000213619	ENST00000534208	protein_coding	PUTATIVE	None	7710	366	121	47600624	47602506	1	None	CI-30
11	NDUFS3	ENSG00000213619	ENST00000534716	protein_coding	PUTATIVE	None	7710	399	132	47600626	47603400	1	None	CI-30
11	NDUFS3	ENSG00000213619	ENST00000533105	retained_intron	KNOWN	None	7710	None	None	47600637	47602393	1	None	CI-30
11	NDUFS3	ENSG00000213619	ENST00000524568	retained_intron	KNOWN	None	7710	None	None	47600651	47604023	1	None	CI-30
11	NDUFS3	ENSG00000213619	ENST00000531351	processed_transcript	PUTATIVE	None	7710	None	None	47600820	47602663	1	None	CI-30
11	NDUFS3	ENSG00000213619	ENST00000525378	retained_intron	KNOWN	None	7710	None	None	47603321	47606079	1	None	CI-30
11	NDUFS3	ENSG00000213619	ENST00000525212	processed_transcript	KNOWN	None	7710	None	None	47603604	47606113	1	None	CI-30
11	NDUFS3	ENSG00000213619	ENST00000527178	processed_transcript	PUTATIVE	None	7710	None	None	47603794	47605907	1	None	CI-30
8	None	ENSG00000253790	ENST00000522680	processed_pseudogene	KNOWN	None	None	None	None	39855388	39856018	-1	None	None
3	WNT5A-AS1	ENSG00000244586	ENST00000469484	antisense	KNOWN	None	40616	None	None	55521727	55522336	1	None	None
12	None	ENSG00000257808	ENST00000550908	lincRNA	KNOWN	None	None	None	None	53553370	53554784	1	None	None
8	MIR3148	ENSG00000264788	ENST00000579676	miRNA	KNOWN	None	38215	None	None	29814788	29814864	-1	None	hsa-mir-3148
5	None	ENSG00000250587	ENST00000505250	processed_pseudogene	KNOWN	None	None	None	None	30248457	30249000	1	None	None
2	None	ENSG00000261298	ENST00000565664	lincRNA	KNOWN	None	None	None	None	235131482	235132585	1	None	None
2	None	ENSG00000261298	ENST00000569111	lincRNA	KNOWN	None	None	None	None	235131958	235133158	1	None	None
6	ANKRD66	ENSG00000230062	ENST00000565422	protein_coding	KNOWN	CCDS59024	44669	756	251	46714654	46727243	1	None	None
6	ANKRD66	ENSG00000230062	ENST00000445060	protein_coding	PUTATIVE	None	44669	221	72	46721483	46726161	1	None	None
6	ANKRD66	ENSG00000230062	ENST00000536046	protein_coding	KNOWN	None	44669	669	222	46714699	46726942	1	None	None
11	None	ENSG00000256195	ENST00000534904	antisense	KNOWN	None	None	None	None	114231357	114250767	-1	None	None
11	MIR3162	ENSG00000264559	ENST00000581818	miRNA	KNOWN	None	38271	None	None	59362550	59362631	-1	None	hsa-mir-3162
15	MIR1233-1	ENSG00000221649	ENST00000408722	miRNA	KNOWN	None	33929	None	None	34674270	34674351	-1	MIRN1233, MIR1233	hsa-mir-1233
17	None	ENSG00000267288	ENST00000589796	antisense	KNOWN	None	None	None	None	43246172	43248852	-1	None	None
17	None	ENSG00000267288	ENST00000589451	antisense	KNOWN	None	None	None	None	43248049	43248951	-1	None	None
3	MIR5092	ENSG00000264986	ENST00000583139	miRNA	KNOWN	None	43467	None	None	124870309	124870396	-1	None	hsa-mir-5092
5	None	ENSG00000214784	ENST00000461022	processed_pseudogene	KNOWN	None	None	None	None	110527924	110528740	-1	None	None
8	MAP2K1P1	ENSG00000254013	ENST00000519737	processed_pseudogene	KNOWN	None	6841	None	None	29885229	29886416	1	None	None
12	None	ENSG00000256134	ENST00000541727	processed_pseudogene	KNOWN	None	None	None	None	16124824	16125543	-1	None	None
11	None	ENSG00000254511	ENST00000526154	lincRNA	KNOWN	None	None	None	None	81682036	81698855	1	None	None
2	None	ENSG00000237784	ENST00000430199	processed_pseudogene	KNOWN	None	None	None	None	235238127	235238482	1	None	None
15	SNORD116-8	ENSG00000207093	ENST00000384365	snoRNA	KNOWN	None	33074	None	None	25315579	25315673	1	None	HBII-85-8
X	None	ENSG00000270709	ENST00000603091	processed_pseudogene	KNOWN	None	None	None	None	144849613	144849860	1	None	None
3	DUTP1	ENSG00000229048	ENST00000493631	processed_pseudogene	KNOWN	None	31956	None	None	125029725	125030194	1	DUTL	None
3	DUTP1	ENSG00000229048	ENST00000596826	processed_pseudogene	KNOWN	None	31956	None	None	125029795	125030016	1	DUTL	None
X	None	ENSG00000270456	ENST00000605040	processed_pseudogene	KNOWN	None	None	None	None	120115383	120115633	1	None	None
15	None	ENSG00000238535	ENST00000459277	snoRNA	NOVEL	None	None	None	None	43905880	43905983	1	None	None
17	None	ENSG00000226101	ENST00000419257	lincRNA	KNOWN	None	None	None	None	70068474	70089622	1	None	None
2	UGT1A5	ENSG00000240224	ENST00000373414	protein_coding	KNOWN	CCDS33404	12537	1605	534	234621638	234681945	1	None	UGT1E
17	None	ENSG00000267121	ENST00000586376	antisense	KNOWN	None	None	None	None	43268298	43299132	-1	None	None
17	None	ENSG00000267121	ENST00000585471	antisense	KNOWN	None	None	None	None	43295623	43297792	-1	None	None
17	None	ENSG00000267121	ENST00000591365	antisense	KNOWN	None	None	None	None	43296717	43299589	-1	None	None
17	None	ENSG00000267121	ENST00000590522	antisense	KNOWN	None	None	None	None	43297102	43297699	-1	None	None
17	None	ENSG00000267121	ENST00000590495	antisense	KNOWN	None	None	None	None	43297634	43299132	-1	None	None
14	MIR4505	ENSG00000264741	ENST00000582238	miRNA	KNOWN	None	41743	None	None	74225450	74225522	1	None	hsa-mir-4505
3	None	ENSG00000242317	ENST00000472238	lincRNA	KNOWN	None	None	None	None	55527858	55539289	-1	None	None
11	None	ENSG00000252592	ENST00000516783	snoRNA	NOVEL	None	None	None	None	82283051	82283122	-1	None	None
X	RPS7P12	ENSG00000237432	ENST00000422385	processed_pseudogene	KNOWN	None	36147	None	None	133784860	133785441	1	None	None
15	SNORD116-9	ENSG00000206727	ENST00000384000	snoRNA	KNOWN	None	33075	None	None	25318254	25318348	1	None	HBII-85-9
2	None	ENSG00000228162	ENST00000418025	lincRNA	KNOWN	None	None	None	None	235346972	235370771	1	None	None
17	FTSJ3	ENSG00000108592	ENST00000427159	protein_coding	KNOWN	CCDS11644	17136	2544	847	61896793	61905031	-1	None	SPB1
17	FTSJ3	ENSG00000108592	ENST00000583202	retained_intron	KNOWN	None	17136	None	None	61897619	61899383	-1	None	SPB1
17	FTSJ3	ENSG00000108592	ENST00000583901	retained_intron	KNOWN	None	17136	None	None	61898275	61899549	-1	None	SPB1
17	FTSJ3	ENSG00000108592	ENST00000579831	nonsense_mediated_decay	KNOWN	None	17136	90	29	61898789	61901251	-1	None	SPB1
17	FTSJ3	ENSG00000108592	ENST00000580376	retained_intron	KNOWN	None	17136	None	None	61900950	61901746	-1	None	SPB1
17	FTSJ3	ENSG00000108592	ENST00000580129	retained_intron	KNOWN	None	17136	None	None	61901444	61901955	-1	None	SPB1
17	FTSJ3	ENSG00000108592	ENST00000579569	nonsense_mediated_decay	KNOWN	None	17136	204	67	61902703	61904270	-1	None	SPB1
17	FTSJ3	ENSG00000108592	ENST00000584193	nonsense_mediated_decay	KNOWN	None	17136	123	40	61902703	61904290	-1	None	SPB1
17	FTSJ3	ENSG00000108592	ENST00000580272	protein_coding	KNOWN	None	17136	453	150	61902744	61904424	-1	None	SPB1
17	FTSJ3	ENSG00000108592	ENST00000581209	protein_coding	KNOWN	None	17136	345	114	61902951	61904689	-1	None	SPB1
17	FTSJ3	ENSG00000108592	ENST00000577263	retained_intron	KNOWN	None	17136	None	None	61903191	61904458	-1	None	SPB1
17	FTSJ3	ENSG00000108592	ENST00000580290	retained_intron	KNOWN	None	17136	None	None	61903287	61904430	-1	None	SPB1
17	FTSJ3	ENSG00000108592	ENST00000582476	retained_intron	KNOWN	None	17136	None	None	61903432	61904466	-1	None	SPB1
17	FTSJ3	ENSG00000108592	ENST00000584574	protein_coding	KNOWN	None	17136	101	32	61903999	61905007	-1	None	SPB1
17	FTSJ3	ENSG00000108592	ENST00000585145	protein_coding	KNOWN	None	17136	58	18	61904205	61905007	-1	None	SPB1
17	FTSJ3	ENSG00000108592	ENST00000580295	processed_transcript	KNOWN	None	17136	None	None	61904475	61907372	-1	None	SPB1
19	URI1	ENSG00000105176	ENST00000360605	protein_coding	PUTATIVE	CCDS58658	13236	1428	475	30414551	30506602	1	C19orf2	RMP, NNX3, FLJ10575, URI, PPP1R19
19	URI1	ENSG00000105176	ENST00000570564	protein_coding	PUTATIVE	None	13236	99	32	30414564	30477284	1	C19orf2	RMP, NNX3, FLJ10575, URI, PPP1R19
19	URI1	ENSG00000105176	ENST00000574233	protein_coding	PUTATIVE	None	13236	215	70	30414598	30496343	1	C19orf2	RMP, NNX3, FLJ10575, URI, PPP1R19
19	URI1	ENSG00000105176	ENST00000574766	processed_transcript	KNOWN	None	13236	None	None	30414619	30428904	1	C19orf2	RMP, NNX3, FLJ10575, URI, PPP1R19
19	URI1	ENSG00000105176	ENST00000585655	protein_coding	PUTATIVE	None	13236	54	17	30414641	30416804	1	C19orf2	RMP, NNX3, FLJ10575, URI, PPP1R19
19	URI1	ENSG00000105176	ENST00000542441	protein_coding	KNOWN	CCDS12420	13236	1608	535	30433158	30506607	1	C19orf2	RMP, NNX3, FLJ10575, URI, PPP1R19
19	URI1	ENSG00000105176	ENST00000574110	nonsense_mediated_decay	KNOWN	None	13236	132	43	30433168	30506611	1	C19orf2	RMP, NNX3, FLJ10575, URI, PPP1R19
19	URI1	ENSG00000105176	ENST00000574666	nonsense_mediated_decay	KNOWN	None	13236	153	50	30433218	30496613	1	C19orf2	RMP, NNX3, FLJ10575, URI, PPP1R19
19	URI1	ENSG00000105176	ENST00000576442	protein_coding	PUTATIVE	None	13236	367	121	30462000	30498454	1	C19orf2	RMP, NNX3, FLJ10575, URI, PPP1R19
19	URI1	ENSG00000105176	ENST00000570704	processed_transcript	KNOWN	None	13236	None	None	30474140	30498486	1	C19orf2	RMP, NNX3, FLJ10575, URI, PPP1R19
19	URI1	ENSG00000105176	ENST00000574176	processed_transcript	KNOWN	None	13236	None	None	30495202	30499926	1	C19orf2	RMP, NNX3, FLJ10575, URI, PPP1R19
19	URI1	ENSG00000105176	ENST00000575242	protein_coding	PUTATIVE	None	13236	685	227	30499987	30503806	1	C19orf2	RMP, NNX3, FLJ10575, URI, PPP1R19
19	URI1	ENSG00000105176	ENST00000573052	protein_coding	PUTATIVE	None	13236	121	39	30503330	30505933	1	C19orf2	RMP, NNX3, FLJ10575, URI, PPP1R19
19	URI1	ENSG00000105176	ENST00000312051	protein_coding	KNOWN	None	13236	1488	495	30433425	30506611	1	C19orf2	RMP, NNX3, FLJ10575, URI, PPP1R19
19	URI1	ENSG00000105176	ENST00000392271	protein_coding	KNOWN	None	13236	1380	459	30433158	30506611	1	C19orf2	RMP, NNX3, FLJ10575, URI, PPP1R19
12	None	ENSG00000257605	ENST00000550263	antisense	KNOWN	None	None	None	None	53692449	53694098	-1	None	None
X	None	ENSG00000226141	ENST00000442033	unprocessed_pseudogene	KNOWN	None	None	None	None	153882820	153883599	1	None	None
16	None	ENSG00000272079	ENST00000607794	lincRNA	KNOWN	None	None	None	None	3056121	3057386	1	None	None
X	None	ENSG00000270251	ENST00000604752	processed_pseudogene	KNOWN	None	None	None	None	120120242	120120493	1	None	None
12	STAC3	ENSG00000185482	ENST00000554578	protein_coding	KNOWN	None	28423	978	325	57637236	57644967	-1	None	MGC2793
12	STAC3	ENSG00000185482	ENST00000332782	protein_coding	KNOWN	CCDS8936	28423	1095	364	57637236	57644976	-1	None	MGC2793
12	STAC3	ENSG00000185482	ENST00000557176	nonsense_mediated_decay	KNOWN	None	28423	315	104	57637242	57644969	-1	None	MGC2793
12	STAC3	ENSG00000185482	ENST00000546246	protein_coding	PUTATIVE	None	28423	537	178	57637437	57644968	-1	None	MGC2793
12	STAC3	ENSG00000185482	ENST00000554003	retained_intron	KNOWN	None	28423	None	None	57638540	57642147	-1	None	MGC2793
12	STAC3	ENSG00000185482	ENST00000553489	protein_coding	KNOWN	None	28423	505	167	57641909	57644971	-1	None	MGC2793
12	STAC3	ENSG00000185482	ENST00000553294	retained_intron	KNOWN	None	28423	None	None	57642802	57644969	-1	None	MGC2793
11	None	ENSG00000255139	ENST00000531108	antisense	KNOWN	None	None	None	None	59383902	59407015	1	None	None
11	None	ENSG00000255139	ENST00000531311	antisense	KNOWN	None	None	None	None	59387887	59407334	1	None	None
11	None	ENSG00000255246	ENST00000527364	lincRNA	KNOWN	None	None	None	None	82314785	82354461	-1	None	None
15	RNU6-610P	ENSG00000206991	ENST00000384264	snRNA	KNOWN	None	47573	None	None	43929830	43929936	-1	None	None
2	None	ENSG00000231682	ENST00000439798	lincRNA	KNOWN	None	None	None	None	235353234	235363239	-1	None	None
9	HEMGN	ENSG00000136929	ENST00000259456	protein_coding	KNOWN	CCDS6731	17509	1455	484	100689073	100707138	-1	None	EDAG
15	SNORD116-10	ENSG00000200661	ENST00000363791	snoRNA	KNOWN	None	33076	None	None	25319261	25319362	1	None	HBII-85-10
16	None	ENSG00000205890	ENST00000382225	antisense	KNOWN	None	None	None	None	3082482	3089134	1	None	None
14	None	ENSG00000258750	ENST00000555388	processed_pseudogene	KNOWN	None	None	None	None	48867513	48868578	1	None	None
1	RNU1-137P	ENSG00000201105	ENST00000364235	snRNA	KNOWN	None	48479	None	None	145944938	145945104	-1	None	None
4	RNU6-310P	ENSG00000207385	ENST00000384655	snRNA	KNOWN	None	47273	None	None	54131628	54131734	-1	None	None
17	ZNF286B	ENSG00000249459	ENST00000285274	protein_coding	PUTATIVE	None	33241	182	59	18561742	18585541	-1	ZNF286L, ZNF286C	ZNF590
17	ZNF286B	ENSG00000249459	ENST00000580145	protein_coding	PUTATIVE	None	33241	211	69	18576106	18585572	-1	ZNF286L, ZNF286C	ZNF590
17	ZNF286B	ENSG00000249459	ENST00000583002	protein_coding	PUTATIVE	None	33241	318	105	18576177	18585171	-1	ZNF286L, ZNF286C	ZNF590
17	ZNF286B	ENSG00000249459	ENST00000443457	protein_coding	PUTATIVE	None	33241	337	111	18584064	18585131	-1	ZNF286L, ZNF286C	ZNF590
17	ZNF286B	ENSG00000249459	ENST00000442380	retained_intron	KNOWN	None	33241	None	None	18584634	18585554	-1	ZNF286L, ZNF286C	ZNF590
17	ZNF286B	ENSG00000249459	ENST00000454745	retained_intron	KNOWN	None	33241	None	None	18584755	18585575	-1	ZNF286L, ZNF286C	ZNF590
17	ZNF286B	ENSG00000249459	ENST00000545289	protein_coding	KNOWN	CCDS58523	33241	1569	522	18561742	18585572	-1	ZNF286L, ZNF286C	ZNF590
8	None	ENSG00000253887	ENST00000518589	lincRNA	KNOWN	None	None	None	None	9112859	9117805	-1	None	None
2	None	ENSG00000232690	ENST00000440046	unprocessed_pseudogene	KNOWN	None	None	None	None	235363801	235364427	-1	None	None
1	None	ENSG00000234245	ENST00000428782	lincRNA	KNOWN	None	None	None	None	145952372	145956451	1	None	None
3	None	ENSG00000240777	ENST00000472243	lincRNA	KNOWN	None	None	None	None	55644631	55647132	1	None	None
3	None	ENSG00000243508	ENST00000485817	processed_pseudogene	KNOWN	None	None	None	None	125062929	125063641	-1	None	None
14	IGHVII-30-1	ENSG00000253491	ENST00000522218	IG_V_pseudogene	KNOWN	None	5676	None	None	106798646	106798877	-1	None	IGHV(II)-30-1
4	LNX1-AS1	ENSG00000250930	ENST00000502373	antisense	KNOWN	None	40345	None	None	54362567	54366669	1	None	None
4	LNX1-AS1	ENSG00000250930	ENST00000510785	antisense	KNOWN	None	40345	None	None	54366245	54389441	1	None	None
4	LNX1-AS1	ENSG00000250930	ENST00000511989	antisense	KNOWN	None	40345	None	None	54368031	54415745	1	None	None
4	LNX1-AS1	ENSG00000250930	ENST00000514364	antisense	KNOWN	None	40345	None	None	54368058	54405515	1	None	None
21	SYNJ1	ENSG00000159082	ENST00000438952	protein_coding	NOVEL	None	11503	562	186	34001073	34018020	-1	None	INPP5G
21	SYNJ1	ENSG00000159082	ENST00000382499	protein_coding	KNOWN	CCDS33540	11503	4053	1350	34001074	34100351	-1	None	INPP5G
21	SYNJ1	ENSG00000159082	ENST00000433931	protein_coding	KNOWN	CCDS33539	11503	4839	1612	34003300	34100359	-1	None	INPP5G
21	SYNJ1	ENSG00000159082	ENST00000418301	protein_coding	NOVEL	None	11503	395	130	34004088	34014255	-1	None	INPP5G
21	SYNJ1	ENSG00000159082	ENST00000416083	protein_coding	PUTATIVE	None	11503	366	121	34011324	34018029	-1	None	INPP5G
21	SYNJ1	ENSG00000159082	ENST00000467445	retained_intron	KNOWN	None	11503	None	None	34022494	34026411	-1	None	INPP5G
21	SYNJ1	ENSG00000159082	ENST00000464778	processed_transcript	KNOWN	None	11503	None	None	34029001	34030871	-1	None	INPP5G
21	SYNJ1	ENSG00000159082	ENST00000429236	protein_coding	NOVEL	None	11503	2087	694	34038296	34100250	-1	None	INPP5G
21	SYNJ1	ENSG00000159082	ENST00000456084	protein_coding	PUTATIVE	None	11503	536	177	34067536	34099253	-1	None	INPP5G
21	SYNJ1	ENSG00000159082	ENST00000382491	protein_coding	KNOWN	CCDS54484	11503	4581	1526	34001069	34100250	-1	None	INPP5G
21	SYNJ1	ENSG00000159082	ENST00000322229	protein_coding	KNOWN	None	11503	4722	1573	34003305	34099206	-1	None	INPP5G
21	SYNJ1	ENSG00000159082	ENST00000357345	protein_coding	KNOWN	CCDS54483	11503	3888	1295	34001069	34100250	-1	None	INPP5G
14	None	ENSG00000239323	ENST00000484753	processed_pseudogene	KNOWN	None	None	None	None	31932001	31932577	-1	None	None
12	None	ENSG00000257467	ENST00000549161	lincRNA	KNOWN	None	None	None	None	81664454	81706090	1	None	None
12	None	ENSG00000257467	ENST00000550138	lincRNA	KNOWN	None	None	None	None	81664463	81691888	1	None	None
12	None	ENSG00000257467	ENST00000552534	lincRNA	KNOWN	None	None	None	None	81672964	81706152	1	None	None
12	None	ENSG00000257467	ENST00000551699	lincRNA	KNOWN	None	None	None	None	81672968	81686676	1	None	None
12	None	ENSG00000257467	ENST00000550938	lincRNA	KNOWN	None	None	None	None	81672971	81692206	1	None	None
12	None	ENSG00000257467	ENST00000550999	lincRNA	KNOWN	None	None	None	None	81672980	81692062	1	None	None
12	None	ENSG00000257467	ENST00000553197	lincRNA	KNOWN	None	None	None	None	81672980	81706068	1	None	None
12	None	ENSG00000257467	ENST00000551401	lincRNA	KNOWN	None	None	None	None	81676463	81706188	1	None	None
12	None	ENSG00000257467	ENST00000550302	lincRNA	KNOWN	None	None	None	None	81676465	81706201	1	None	None
12	None	ENSG00000257467	ENST00000547762	lincRNA	KNOWN	None	None	None	None	81676468	81706061	1	None	None
12	None	ENSG00000256238	ENST00000537175	processed_pseudogene	KNOWN	None	None	None	None	16552208	16555340	-1	None	None
19	CCDC159	ENSG00000183401	ENST00000589186	processed_transcript	KNOWN	None	26996	None	None	11455360	11456974	1	None	None
19	CCDC159	ENSG00000183401	ENST00000587100	processed_transcript	KNOWN	None	26996	None	None	11455371	11457142	1	None	None
19	CCDC159	ENSG00000183401	ENST00000588790	protein_coding	KNOWN	CCDS45976	26996	894	297	11455977	11465620	1	None	None
19	CCDC159	ENSG00000183401	ENST00000590919	nonsense_mediated_decay	KNOWN	None	26996	111	36	11457181	11461544	1	None	None
19	CCDC159	ENSG00000183401	ENST00000588821	retained_intron	KNOWN	None	26996	None	None	11457207	11462162	1	None	None
19	CCDC159	ENSG00000183401	ENST00000590054	retained_intron	KNOWN	None	26996	None	None	11457207	11463175	1	None	None
19	CCDC159	ENSG00000183401	ENST00000586451	protein_coding	PUTATIVE	None	26996	421	139	11457209	11462649	1	None	None
19	CCDC159	ENSG00000183401	ENST00000588592	protein_coding	PUTATIVE	None	26996	388	128	11457216	11462616	1	None	None
19	CCDC159	ENSG00000183401	ENST00000592723	nonsense_mediated_decay	KNOWN	None	26996	111	36	11457216	11464503	1	None	None
19	CCDC159	ENSG00000183401	ENST00000587531	protein_coding	PUTATIVE	None	26996	329	108	11457232	11461655	1	None	None
19	CCDC159	ENSG00000183401	ENST00000589016	retained_intron	KNOWN	None	26996	None	None	11457241	11462162	1	None	None
19	CCDC159	ENSG00000183401	ENST00000590636	nonsense_mediated_decay	KNOWN	None	26996	117	38	11457248	11461665	1	None	None
19	CCDC159	ENSG00000183401	ENST00000589477	retained_intron	KNOWN	None	26996	None	None	11457257	11460369	1	None	None
19	CCDC159	ENSG00000183401	ENST00000591260	protein_coding	NOVEL	None	26996	580	192	11460339	11465357	1	None	None
19	CCDC159	ENSG00000183401	ENST00000587868	retained_intron	KNOWN	None	26996	None	None	11461561	11465375	1	None	None
19	CCDC159	ENSG00000183401	ENST00000586479	processed_transcript	KNOWN	None	26996	None	None	11462424	11464425	1	None	None
19	CCDC159	ENSG00000183401	ENST00000588464	retained_intron	KNOWN	None	26996	None	None	11462469	11464413	1	None	None
19	CCDC159	ENSG00000183401	ENST00000589022	retained_intron	KNOWN	None	26996	None	None	11462608	11465620	1	None	None
19	CCDC159	ENSG00000183401	ENST00000591691	protein_coding	PUTATIVE	None	26996	467	154	11462638	11465619	1	None	None
19	CCDC159	ENSG00000183401	ENST00000458408	protein_coding	KNOWN	CCDS45976	26996	894	297	11457181	11465619	1	None	None
8	LETM2	ENSG00000165046	ENST00000527334	protein_coding	KNOWN	None	14648	349	115	38243725	38250361	1	None	FLJ25409
8	LETM2	ENSG00000165046	ENST00000519476	protein_coding	PUTATIVE	None	14648	522	173	38243821	38251952	1	None	FLJ25409
8	LETM2	ENSG00000165046	ENST00000297720	protein_coding	KNOWN	CCDS6106	14648	1191	396	38243959	38266062	1	None	FLJ25409
8	LETM2	ENSG00000165046	ENST00000524874	protein_coding	KNOWN	None	14648	1332	443	38243994	38265792	1	None	FLJ25409
8	LETM2	ENSG00000165046	ENST00000379957	protein_coding	KNOWN	None	14648	1476	491	38243994	38266062	1	None	FLJ25409
8	LETM2	ENSG00000165046	ENST00000518883	nonsense_mediated_decay	KNOWN	None	14648	369	122	38244019	38266006	1	None	FLJ25409
8	LETM2	ENSG00000165046	ENST00000523983	protein_coding	NOVEL	CCDS56534	14648	1335	444	38244019	38266061	1	None	FLJ25409
8	LETM2	ENSG00000165046	ENST00000523268	nonsense_mediated_decay	KNOWN	None	14648	510	169	38244020	38267045	1	None	FLJ25409
8	LETM2	ENSG00000165046	ENST00000518121	retained_intron	KNOWN	None	14648	None	None	38244063	38262351	1	None	FLJ25409
8	LETM2	ENSG00000165046	ENST00000526356	protein_coding	KNOWN	None	14648	427	141	38244660	38250439	1	None	FLJ25409
8	LETM2	ENSG00000165046	ENST00000527710	protein_coding	KNOWN	None	14648	834	277	38254491	38266062	1	None	FLJ25409
8	LETM2	ENSG00000165046	ENST00000528827	processed_transcript	KNOWN	None	14648	None	None	38258401	38264932	1	None	FLJ25409
8	LETM2	ENSG00000165046	ENST00000530448	retained_intron	KNOWN	None	14648	None	None	38261858	38266017	1	None	FLJ25409
8	LETM2	ENSG00000165046	ENST00000527175	protein_coding	NOVEL	None	14648	259	85	38261931	38266062	1	None	FLJ25409
8	LETM2	ENSG00000165046	ENST00000526075	retained_intron	KNOWN	None	14648	None	None	38264005	38266061	1	None	FLJ25409
10	ADO	ENSG00000181915	ENST00000373783	protein_coding	KNOWN	CCDS7266	23506	813	270	64564516	64568238	1	C10orf22	FLJ14547
15	SNORD116-11	ENSG00000206609	ENST00000383882	snoRNA	KNOWN	None	33077	None	None	25321076	25321167	1	None	HBII-85-11
2	None	ENSG00000235726	ENST00000427619	lincRNA	KNOWN	None	None	None	None	235742959	235822028	-1	None	None
2	None	ENSG00000235726	ENST00000435896	lincRNA	KNOWN	None	None	None	None	235743003	235797420	-1	None	None
2	None	ENSG00000235726	ENST00000413842	lincRNA	KNOWN	None	None	None	None	235790923	235797446	-1	None	None
2	None	ENSG00000235726	ENST00000434572	retained_intron	KNOWN	None	None	None	None	235796013	235797170	-1	None	None
12	None	ENSG00000257379	ENST00000547717	retained_intron	KNOWN	None	None	None	None	53835525	53861312	1	None	None
2	None	ENSG00000201853	ENST00000364983	snoRNA	NOVEL	None	None	None	None	125886409	125886490	1	None	None
5	None	ENSG00000249318	ENST00000511981	antisense	KNOWN	None	None	None	None	110601507	110605787	-1	None	None
X	None	ENSG00000233433	ENST00000424220	processed_pseudogene	KNOWN	None	None	None	None	120158818	120160417	-1	None	None
17	None	ENSG00000233175	ENST00000587534	antisense	KNOWN	None	None	None	None	43315395	43319101	-1	None	None
17	None	ENSG00000233175	ENST00000393507	antisense	KNOWN	None	None	None	None	43317682	43318564	-1	None	None
2	None	ENSG00000235491	ENST00000430692	lincRNA	KNOWN	None	None	None	None	126468546	126523419	1	None	None
HG873_PATCH	CALCA	ENSG00000262933	ENST00000573739	retained_intron	KNOWN	None	1437	None	None	14988217	14991562	-1	CALC1	None
HG873_PATCH	CALCA	ENSG00000262933	ENST00000574146	nonsense_mediated_decay	KNOWN	None	1437	426	141	14988586	14993821	-1	CALC1	None
HG873_PATCH	CALCA	ENSG00000262933	ENST00000570728	protein_coding	KNOWN	None	1437	387	128	14989241	14993815	-1	CALC1	None
HG873_PATCH	CALCA	ENSG00000262933	ENST00000571711	protein_coding	KNOWN	None	1437	426	141	14990050	14993819	-1	CALC1	None
HG873_PATCH	CALCA	ENSG00000262933	ENST00000570903	protein_coding	KNOWN	None	1437	426	141	14990050	14993851	-1	CALC1	None
5	None	ENSG00000248268	ENST00000504081	antisense	KNOWN	None	None	None	None	110613215	110638265	-1	None	None
14	None	ENSG00000258196	ENST00000547093	antisense	KNOWN	None	None	None	None	32022564	32027704	-1	None	None
X	RNU4-44P	ENSG00000199920	ENST00000363050	snRNA	KNOWN	None	46980	None	None	133894238	133894378	-1	None	None
2	None	ENSG00000224410	ENST00000444277	processed_pseudogene	KNOWN	None	None	None	None	126580685	126580892	1	None	None
3	MIR3938	ENSG00000264013	ENST00000582157	miRNA	KNOWN	None	38972	None	None	55886520	55886622	-1	None	hsa-mir-3938
22	RANBP1	ENSG00000099901	ENST00000432879	protein_coding	PUTATIVE	None	9847	497	164	20103461	20109900	1	None	HTF9A
22	RANBP1	ENSG00000099901	ENST00000435265	nonsense_mediated_decay	KNOWN	None	9847	222	73	20103461	20114704	1	None	HTF9A
22	RANBP1	ENSG00000099901	ENST00000402752	protein_coding	NOVEL	None	9847	603	200	20104947	20114878	1	None	HTF9A
22	RANBP1	ENSG00000099901	ENST00000488484	retained_intron	KNOWN	None	9847	None	None	20105047	20110207	1	None	HTF9A
22	RANBP1	ENSG00000099901	ENST00000331821	protein_coding	KNOWN	CCDS13775	9847	606	201	20105071	20114704	1	None	HTF9A
22	RANBP1	ENSG00000099901	ENST00000411892	protein_coding	PUTATIVE	None	9847	491	162	20105080	20113011	1	None	HTF9A
22	RANBP1	ENSG00000099901	ENST00000467920	processed_transcript	PUTATIVE	None	9847	None	None	20105176	20107052	1	None	HTF9A
22	RANBP1	ENSG00000099901	ENST00000416427	protein_coding	PUTATIVE	None	9847	160	52	20105305	20109944	1	None	HTF9A
22	RANBP1	ENSG00000099901	ENST00000421656	protein_coding	PUTATIVE	None	9847	160	52	20105398	20109944	1	None	HTF9A
22	RANBP1	ENSG00000099901	ENST00000423859	protein_coding	PUTATIVE	None	9847	614	203	20105457	20114150	1	None	HTF9A
22	RANBP1	ENSG00000099901	ENST00000418705	protein_coding	PUTATIVE	None	9847	436	144	20105476	20114558	1	None	HTF9A
22	RANBP1	ENSG00000099901	ENST00000448394	protein_coding	NOVEL	None	9847	387	128	20110130	20114876	1	None	HTF9A
22	RANBP1	ENSG00000099901	ENST00000486575	retained_intron	KNOWN	None	9847	None	None	20111662	20114704	1	None	HTF9A
22	RANBP1	ENSG00000099901	ENST00000430524	protein_coding	KNOWN	None	9847	546	181	20103461	20114704	1	None	HTF9A
7	None	ENSG00000224475	ENST00000429766	processed_pseudogene	KNOWN	None	None	None	None	96830020	96830795	-1	None	None
14	None	ENSG00000242417	ENST00000497218	processed_pseudogene	KNOWN	None	None	None	None	48959086	48959637	1	None	None
5	STARD4-AS1	ENSG00000246859	ENST00000500779	antisense	KNOWN	None	44117	None	None	110847924	111075423	1	None	None
5	STARD4-AS1	ENSG00000246859	ENST00000513221	antisense	KNOWN	None	44117	None	None	111066086	111067878	1	None	None
17	None	ENSG00000233483	ENST00000420431	antisense	KNOWN	None	None	None	None	43322553	43325706	-1	None	None
17	None	ENSG00000233483	ENST00000589518	antisense	KNOWN	None	None	None	None	43324634	43325210	-1	None	None
17	None	ENSG00000233483	ENST00000591361	antisense	KNOWN	None	None	None	None	43324918	43326203	-1	None	None
11	None	ENSG00000255355	ENST00000534120	antisense	KNOWN	None	None	None	None	59436785	59443268	1	None	None
11	None	ENSG00000255355	ENST00000531276	antisense	KNOWN	None	None	None	None	59442409	59443514	1	None	None
X	None	ENSG00000221299	ENST00000408372	miRNA	NOVEL	None	None	None	None	134029784	134029872	1	None	None
8	RNU6-1151P	ENSG00000207415	ENST00000384684	snRNA	KNOWN	None	48114	None	None	9144982	9145088	-1	None	None
11	None	ENSG00000227097	ENST00000473748	processed_pseudogene	KNOWN	None	None	None	None	82400601	82400810	1	None	None
11	None	ENSG00000227097	ENST00000536099	processed_pseudogene	KNOWN	None	None	None	None	82400571	82400944	1	None	None
1	SSX2IP	ENSG00000117155	ENST00000342203	protein_coding	KNOWN	CCDS699	16509	1845	614	85109390	85156228	-1	None	None
1	SSX2IP	ENSG00000117155	ENST00000481102	nonsense_mediated_decay	KNOWN	None	16509	1683	560	85113022	85155987	-1	None	None
1	SSX2IP	ENSG00000117155	ENST00000476905	nonsense_mediated_decay	KNOWN	None	16509	1515	504	85113024	85156440	-1	None	None
1	SSX2IP	ENSG00000117155	ENST00000605755	protein_coding	KNOWN	CCDS53337	16509	1764	587	85113059	85156127	-1	None	None
1	SSX2IP	ENSG00000117155	ENST00000603677	protein_coding	PUTATIVE	None	16509	264	87	85115313	85155972	-1	None	None
1	SSX2IP	ENSG00000117155	ENST00000490476	retained_intron	KNOWN	None	16509	None	None	85116054	85118124	-1	None	None
1	SSX2IP	ENSG00000117155	ENST00000459708	retained_intron	KNOWN	None	16509	None	None	85121001	85121696	-1	None	None
1	SSX2IP	ENSG00000117155	ENST00000460500	retained_intron	KNOWN	None	16509	None	None	85123890	85136998	-1	None	None
1	SSX2IP	ENSG00000117155	ENST00000422026	protein_coding	KNOWN	None	16509	540	179	85131802	85156486	-1	None	None
1	SSX2IP	ENSG00000117155	ENST00000437941	protein_coding	KNOWN	CCDS53337	16509	1764	587	85109390	85156151	-1	None	None
1	SSX2IP	ENSG00000117155	ENST00000370612	protein_coding	KNOWN	None	16509	1683	560	85115619	85156240	-1	None	None
15	SNORD116-12	ENSG00000207197	ENST00000384468	snoRNA	KNOWN	None	33078	None	None	25322198	25322289	1	None	HBII-85-12
7	None	ENSG00000221192	ENST00000408265	miRNA	NOVEL	None	None	None	None	96920826	96920908	-1	None	None
2	None	ENSG00000226542	ENST00000444926	lincRNA	KNOWN	None	None	None	None	235993466	235997230	-1	None	None
3	RN7SKP45	ENSG00000200379	ENST00000363509	misc_RNA	KNOWN	None	45769	None	None	56106132	56106435	1	None	None
7	None	ENSG00000226046	ENST00000457344	processed_pseudogene	KNOWN	None	None	None	None	97066830	97067208	1	None	None
12	None	ENSG00000215923	ENST00000401104	miRNA	NOVEL	None	None	None	None	16562189	16562265	-1	None	None
8	None	ENSG00000253735	ENST00000521143	lincRNA	KNOWN	None	None	None	None	9208748	9215951	-1	None	None
21	None	ENSG00000205424	ENST00000380008	antisense	KNOWN	None	None	None	None	47247875	47256333	-1	None	None
2	None	ENSG00000226813	ENST00000455174	lincRNA	KNOWN	None	None	None	None	126867676	126875562	-1	None	None
19	None	ENSG00000267771	ENST00000587562	unprocessed_pseudogene	KNOWN	None	None	None	None	20317653	20317763	-1	None	None
3	RNA5SP133	ENSG00000200238	ENST00000363368	rRNA	KNOWN	None	43033	None	None	56219132	56219250	1	RN5S133	None
2	None	ENSG00000231032	ENST00000419195	processed_pseudogene	KNOWN	None	None	None	None	236055660	236056144	-1	None	None
7	RN7SKP104	ENSG00000199475	ENST00000362605	misc_RNA	KNOWN	None	45828	None	None	97228245	97228572	-1	None	None
3	RNU6-232P	ENSG00000252953	ENST00000517144	snRNA	KNOWN	None	47195	None	None	125107778	125107841	1	None	None
19	None	ENSG00000271524	ENST00000605448	processed_pseudogene	KNOWN	None	None	None	None	20332678	20333272	1	None	None
16	None	ENSG00000205746	ENST00000525846	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	18428257	18446333	-1	None	None
16	None	ENSG00000205746	ENST00000545152	processed_transcript	KNOWN	None	None	None	None	18435479	18436954	-1	None	None
16	None	ENSG00000205746	ENST00000538220	processed_transcript	KNOWN	None	None	None	None	18435592	18437495	-1	None	None
16	None	ENSG00000205746	ENST00000433020	processed_transcript	KNOWN	None	None	None	None	18437281	18438025	-1	None	None
16	None	ENSG00000205746	ENST00000535716	processed_transcript	KNOWN	None	None	None	None	18437997	18440005	-1	None	None
16	None	ENSG00000205746	ENST00000539740	processed_transcript	KNOWN	None	None	None	None	18437997	18440175	-1	None	None
16	None	ENSG00000205746	ENST00000540339	unprocessed_pseudogene	KNOWN	None	None	None	None	18437721	18488396	-1	None	None
11	RN7SKP192	ENSG00000223223	ENST00000411291	misc_RNA	KNOWN	None	45916	None	None	59473530	59473856	-1	None	None
14	None	ENSG00000257155	ENST00000548096	antisense	KNOWN	None	None	None	None	32027713	32030540	-1	None	None
HSCHR6_MHC_DBB	None	ENSG00000258589	ENST00000443952	protein_coding	PUTATIVE	None	None	687	228	31616062	31622283	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000258589	ENST00000443812	protein_coding	PUTATIVE	None	None	639	212	31619078	31622410	1	None	None
3	None	ENSG00000238992	ENST00000458897	snoRNA	NOVEL	None	None	None	None	125164905	125165007	1	None	None
12	None	ENSG00000256450	ENST00000540992	processed_pseudogene	KNOWN	None	None	None	None	16666379	16667305	1	None	None
7	None	ENSG00000199473	ENST00000362603	snoRNA	NOVEL	None	None	None	None	17412825	17412950	-1	None	None
2	None	ENSG00000235293	ENST00000449362	lincRNA	KNOWN	None	None	None	None	236086540	236087549	1	None	None
3	None	ENSG00000201800	ENST00000364930	misc_RNA	NOVEL	None	None	None	None	125235823	125235930	1	None	None
6	WRNIP1	ENSG00000124535	ENST00000380773	protein_coding	KNOWN	CCDS4475	20876	1998	665	2765648	2785979	1	None	WHIP, FLJ22526, bA420G6.2
6	WRNIP1	ENSG00000124535	ENST00000380771	protein_coding	KNOWN	CCDS4476	20876	1923	640	2765648	2785979	1	None	WHIP, FLJ22526, bA420G6.2
6	WRNIP1	ENSG00000124535	ENST00000380769	protein_coding	NOVEL	None	20876	1338	445	2766286	2787186	1	None	WHIP, FLJ22526, bA420G6.2
6	WRNIP1	ENSG00000124535	ENST00000380764	protein_coding	KNOWN	None	20876	846	281	2769007	2785979	1	None	WHIP, FLJ22526, bA420G6.2
X	HSPA8P1	ENSG00000234176	ENST00000425843	processed_pseudogene	KNOWN	None	5245	None	None	120337036	120338868	-1	HSPAP1	None
19	None	ENSG00000268620	ENST00000599065	unprocessed_pseudogene	KNOWN	None	None	None	None	20359861	20361104	1	None	None
2	None	ENSG00000235774	ENST00000435352	lincRNA	KNOWN	None	None	None	None	127066087	127101569	1	None	None
2	None	ENSG00000235774	ENST00000419223	lincRNA	KNOWN	None	None	None	None	127069991	127086709	1	None	None
11	None	ENSG00000255382	ENST00000526305	lincRNA	KNOWN	None	None	None	None	82502704	82528188	1	None	None
21	None	ENSG00000224413	ENST00000451618	lincRNA	KNOWN	None	None	None	None	47456966	47459721	1	None	None
14	BRF1	ENSG00000185024	ENST00000392557	protein_coding	KNOWN	CCDS42001	11551	1422	473	105675623	105714231	-1	TAF3B2, TAF3C, GTF3B	TFIIIB90, BRF, hBRF
14	BRF1	ENSG00000185024	ENST00000379937	protein_coding	KNOWN	CCDS55952	11551	1953	650	105675623	105767062	-1	TAF3B2, TAF3C, GTF3B	TFIIIB90, BRF, hBRF
14	BRF1	ENSG00000185024	ENST00000546474	protein_coding	KNOWN	CCDS10001	11551	2034	677	105675623	105781926	-1	TAF3B2, TAF3C, GTF3B	TFIIIB90, BRF, hBRF
14	BRF1	ENSG00000185024	ENST00000547374	retained_intron	KNOWN	None	11551	None	None	105675626	105688157	-1	TAF3B2, TAF3C, GTF3B	TFIIIB90, BRF, hBRF
14	BRF1	ENSG00000185024	ENST00000547530	protein_coding	PUTATIVE	None	11551	612	203	105675626	105688882	-1	TAF3B2, TAF3C, GTF3B	TFIIIB90, BRF, hBRF
14	BRF1	ENSG00000185024	ENST00000446501	protein_coding	PUTATIVE	CCDS55949	11551	1320	439	105675626	105715741	-1	TAF3B2, TAF3C, GTF3B	TFIIIB90, BRF, hBRF
14	BRF1	ENSG00000185024	ENST00000551787	protein_coding	PUTATIVE	None	11551	486	161	105675766	105713530	-1	TAF3B2, TAF3C, GTF3B	TFIIIB90, BRF, hBRF
14	BRF1	ENSG00000185024	ENST00000546997	retained_intron	KNOWN	None	11551	None	None	105676415	105679765	-1	TAF3B2, TAF3C, GTF3B	TFIIIB90, BRF, hBRF
14	BRF1	ENSG00000185024	ENST00000327359	protein_coding	PUTATIVE	CCDS55950	11551	1689	562	105676615	105781827	-1	TAF3B2, TAF3C, GTF3B	TFIIIB90, BRF, hBRF
14	BRF1	ENSG00000185024	ENST00000440513	protein_coding	NOVEL	CCDS55951	11551	1755	584	105676704	105781926	-1	TAF3B2, TAF3C, GTF3B	TFIIIB90, BRF, hBRF
14	BRF1	ENSG00000185024	ENST00000549044	processed_transcript	KNOWN	None	11551	None	None	105683550	105686465	-1	TAF3B2, TAF3C, GTF3B	TFIIIB90, BRF, hBRF
14	BRF1	ENSG00000185024	ENST00000547562	protein_coding	PUTATIVE	None	11551	843	280	105683970	105694607	-1	TAF3B2, TAF3C, GTF3B	TFIIIB90, BRF, hBRF
14	BRF1	ENSG00000185024	ENST00000547052	retained_intron	KNOWN	None	11551	None	None	105685335	105688489	-1	TAF3B2, TAF3C, GTF3B	TFIIIB90, BRF, hBRF
14	BRF1	ENSG00000185024	ENST00000549655	protein_coding	KNOWN	None	11551	711	236	105687977	105708942	-1	TAF3B2, TAF3C, GTF3B	TFIIIB90, BRF, hBRF
14	BRF1	ENSG00000185024	ENST00000552127	protein_coding	KNOWN	None	11551	466	154	105688222	105715729	-1	TAF3B2, TAF3C, GTF3B	TFIIIB90, BRF, hBRF
14	BRF1	ENSG00000185024	ENST00000546417	protein_coding	PUTATIVE	None	11551	554	183	105692460	105766805	-1	TAF3B2, TAF3C, GTF3B	TFIIIB90, BRF, hBRF
14	BRF1	ENSG00000185024	ENST00000550208	protein_coding	KNOWN	None	11551	135	44	105695198	105715248	-1	TAF3B2, TAF3C, GTF3B	TFIIIB90, BRF, hBRF
14	BRF1	ENSG00000185024	ENST00000550375	protein_coding	KNOWN	None	11551	42	13	105707642	105714876	-1	TAF3B2, TAF3C, GTF3B	TFIIIB90, BRF, hBRF
14	BRF1	ENSG00000185024	ENST00000550692	protein_coding	PUTATIVE	None	11551	191	62	105718852	105781926	-1	TAF3B2, TAF3C, GTF3B	TFIIIB90, BRF, hBRF
14	BRF1	ENSG00000185024	ENST00000548421	protein_coding	PUTATIVE	CCDS55953	11551	627	208	105722525	105767615	-1	TAF3B2, TAF3C, GTF3B	TFIIIB90, BRF, hBRF
14	BRF1	ENSG00000185024	ENST00000379932	protein_coding	KNOWN	None	11551	555	184	105675766	105713530	-1	TAF3B2, TAF3C, GTF3B	TFIIIB90, BRF, hBRF
15	SNORD116-13	ENSG00000207137	ENST00000384408	snoRNA	KNOWN	None	33079	None	None	25324205	25324296	1	None	HBII-85-13
10	EGR2	ENSG00000122877	ENST00000242480	protein_coding	KNOWN	CCDS7267	3239	1431	476	64571756	64576115	-1	KROX20	None
10	EGR2	ENSG00000122877	ENST00000493899	processed_transcript	KNOWN	None	3239	None	None	64574193	64679660	-1	KROX20	None
10	EGR2	ENSG00000122877	ENST00000439032	protein_coding	KNOWN	CCDS7267	3239	1431	476	64571763	64578927	-1	KROX20	None
10	EGR2	ENSG00000122877	ENST00000411732	protein_coding	KNOWN	CCDS44409	3239	1281	426	64571763	64576126	-1	KROX20	None
7	None	ENSG00000236318	ENST00000419463	lincRNA	KNOWN	None	None	None	None	17414491	17506288	1	None	None
2	None	ENSG00000216002	ENST00000401183	miRNA	NOVEL	None	None	None	None	236235002	236235095	1	None	None
3	ARHGEF3-AS1	ENSG00000240198	ENST00000477246	antisense	KNOWN	None	40083	None	None	56974068	56994882	1	None	None
3	ARHGEF3-AS1	ENSG00000240198	ENST00000495939	antisense	KNOWN	None	40083	None	None	56974104	56975076	1	None	None
9	CLIC3	ENSG00000169583	ENST00000480181	processed_transcript	KNOWN	None	2064	None	None	139889087	139890199	-1	None	None
9	CLIC3	ENSG00000169583	ENST00000494426	protein_coding	KNOWN	CCDS7021	2064	711	236	139889087	139891255	-1	None	None
9	CLIC3	ENSG00000169583	ENST00000473911	processed_transcript	KNOWN	None	2064	None	None	139889186	139890989	-1	None	None
3	None	ENSG00000252965	ENST00000517156	misc_RNA	NOVEL	None	None	None	None	125247088	125247193	-1	None	None
2	FAM178B	ENSG00000168754	ENST00000393526	protein_coding	KNOWN	CCDS33252	28036	360	119	97541622	97563870	-1	None	LOC51252
2	FAM178B	ENSG00000168754	ENST00000490605	protein_coding	KNOWN	CCDS46366	28036	2040	679	97541622	97652329	-1	None	LOC51252
2	FAM178B	ENSG00000168754	ENST00000470789	processed_transcript	KNOWN	None	28036	None	None	97541763	97560879	-1	None	LOC51252
2	FAM178B	ENSG00000168754	ENST00000494172	retained_intron	KNOWN	None	28036	None	None	97543494	97560899	-1	None	LOC51252
2	FAM178B	ENSG00000168754	ENST00000478671	processed_transcript	KNOWN	None	28036	None	None	97587268	97615846	-1	None	LOC51252
2	FAM178B	ENSG00000168754	ENST00000520074	processed_transcript	KNOWN	None	28036	None	None	97589306	97617672	-1	None	LOC51252
2	FAM178B	ENSG00000168754	ENST00000417561	protein_coding	KNOWN	None	28036	2484	827	97541620	97684175	-1	None	LOC51252
2	FAM178B	ENSG00000168754	ENST00000327896	protein_coding	KNOWN	None	28036	1944	647	97541620	97652301	-1	None	LOC51252
14	RNU6-602P	ENSG00000223087	ENST00000411155	snRNA	KNOWN	None	47565	None	None	32131244	32131349	-1	None	None
2	AGAP1-IT1	ENSG00000235529	ENST00000440498	sense_intronic	KNOWN	None	41427	None	None	236414395	236416210	1	None	None
16	None	ENSG00000262120	ENST00000570323	unprocessed_pseudogene	KNOWN	None	None	None	None	71454386	71455421	1	None	None
19	None	ENSG00000213985	ENST00000521432	processed_pseudogene	KNOWN	None	None	None	None	20368529	20370227	1	None	None
12	None	ENSG00000270175	ENST00000602306	antisense	KNOWN	None	None	None	None	53893946	53894720	-1	None	None
16	None	ENSG00000261971	ENST00000576250	antisense	KNOWN	None	None	None	None	3101992	3109364	-1	None	None
16	None	ENSG00000261971	ENST00000573130	antisense	KNOWN	None	None	None	None	3103368	3106233	-1	None	None
16	None	ENSG00000261971	ENST00000572930	antisense	KNOWN	None	None	None	None	3103581	3106020	-1	None	None
16	None	ENSG00000261971	ENST00000573878	antisense	KNOWN	None	None	None	None	3103589	3107198	-1	None	None
16	None	ENSG00000261971	ENST00000570949	antisense	KNOWN	None	None	None	None	3104917	3107214	-1	None	None
16	None	ENSG00000261971	ENST00000572574	antisense	KNOWN	None	None	None	None	3104988	3109371	-1	None	None
16	None	ENSG00000261971	ENST00000573953	antisense	KNOWN	None	None	None	None	3107140	3108448	-1	None	None
16	None	ENSG00000261971	ENST00000572222	antisense	KNOWN	None	None	None	None	3107862	3109086	-1	None	None
16	None	ENSG00000261971	ENST00000572427	antisense	KNOWN	None	None	None	None	3108457	3109309	-1	None	None
16	None	ENSG00000261971	ENST00000597579	antisense	KNOWN	None	None	None	None	3103808	3104776	-1	None	None
X	None	ENSG00000201467	ENST00000364597	snoRNA	NOVEL	None	None	None	None	17062503	17062634	-1	None	None
16	None	ENSG00000258130	ENST00000550538	protein_coding	PUTATIVE	None	None	1320	439	30215637	30218503	-1	None	None
16	None	ENSG00000258130	ENST00000568353	protein_coding	PUTATIVE	None	None	464	153	30215805	30217365	-1	None	None
16	None	ENSG00000258130	ENST00000549390	protein_coding	PUTATIVE	None	None	432	143	30216043	30217483	-1	None	None
16	None	ENSG00000258130	ENST00000566470	retained_intron	KNOWN	None	None	None	None	30216044	30216776	-1	None	None
16	None	ENSG00000258130	ENST00000568109	processed_transcript	KNOWN	None	None	None	None	30218197	30220392	-1	None	None
19	ZGLP1	ENSG00000220201	ENST00000480726	retained_intron	KNOWN	None	37245	None	None	10415479	10416287	-1	None	GLP1, GLP-1, GATAD3
19	ZGLP1	ENSG00000220201	ENST00000403903	protein_coding	KNOWN	CCDS45959	37245	816	271	10415479	10420556	-1	None	GLP1, GLP-1, GATAD3
19	ZGLP1	ENSG00000220201	ENST00000403352	protein_coding	PUTATIVE	None	37245	564	187	10415751	10420459	-1	None	GLP1, GLP-1, GATAD3
2	None	ENSG00000236655	ENST00000433994	processed_pseudogene	KNOWN	None	None	None	None	127069043	127069504	-1	None	None
HSCHR6_MHC_QBL	None	ENSG00000257461	ENST00000546434	pseudogene	NOVEL	None	None	None	None	30350286	30350373	-1	None	None
X	CBX1P2	ENSG00000214322	ENST00000453841	processed_pseudogene	KNOWN	None	38656	None	None	17117905	17118362	-1	None	None
19	None	ENSG00000269055	ENST00000593976	processed_pseudogene	KNOWN	None	None	None	None	20378626	20379200	1	None	None
2	None	ENSG00000221704	ENST00000408777	miRNA	NOVEL	None	None	None	None	236480575	236480647	1	None	None
8	None	ENSG00000250929	ENST00000503718	antisense	KNOWN	None	None	None	None	104133260	104145194	1	None	None
2	YWHAZP2	ENSG00000213236	ENST00000440317	processed_pseudogene	KNOWN	None	31078	None	None	127315012	127315739	-1	None	None
3	None	ENSG00000243072	ENST00000492781	processed_pseudogene	KNOWN	None	None	None	None	125398417	125398625	1	None	None
11	OR10Y1P	ENSG00000254403	ENST00000528485	unprocessed_pseudogene	KNOWN	None	15140	None	None	59495992	59496965	1	None	None
HSCHR6_MHC_DBB	LY6G5B	ENSG00000244672	ENST00000426798	retained_intron	KNOWN	None	13931	None	None	31620339	31623506	1	C6orf19	G5b
HSCHR6_MHC_DBB	LY6G5B	ENSG00000244672	ENST00000484964	protein_coding	KNOWN	None	13931	606	201	31620911	31623506	1	C6orf19	G5b
HSCHR6_MHC_DBB	LY6G5B	ENSG00000244672	ENST00000556456	processed_transcript	KNOWN	None	13931	None	None	31622341	31623736	1	C6orf19	G5b
HSCHR6_MHC_QBL	MICC	ENSG00000237034	ENST00000454140	unprocessed_pseudogene	KNOWN	None	7092	None	None	30371999	30376604	1	None	PERB11.3
9	VN2R6P	ENSG00000237132	ENST00000426691	unitary_pseudogene	KNOWN	None	33212	None	None	47249606	47264801	1	None	None
8	MIR3151	ENSG00000265657	ENST00000583423	miRNA	KNOWN	None	38266	None	None	104166842	104166917	1	None	hsa-mir-3151
5	NRG2	ENSG00000158458	ENST00000289422	protein_coding	NOVEL	None	7998	2577	858	139227234	139422732	-1	None	Don-1, NTAK, HRG2
5	NRG2	ENSG00000158458	ENST00000361474	protein_coding	KNOWN	CCDS4217	7998	2553	850	139227260	139422879	-1	None	Don-1, NTAK, HRG2
5	NRG2	ENSG00000158458	ENST00000340391	protein_coding	NOVEL	None	7998	1944	647	139227502	139283982	-1	None	Don-1, NTAK, HRG2
5	NRG2	ENSG00000158458	ENST00000289409	protein_coding	PUTATIVE	None	7998	2535	844	139227502	139422654	-1	None	Don-1, NTAK, HRG2
5	NRG2	ENSG00000158458	ENST00000358522	protein_coding	PUTATIVE	None	7998	2559	852	139227502	139422654	-1	None	Don-1, NTAK, HRG2
5	NRG2	ENSG00000158458	ENST00000378238	protein_coding	PUTATIVE	None	7998	1278	425	139235334	139422654	-1	None	Don-1, NTAK, HRG2
5	NRG2	ENSG00000158458	ENST00000519478	processed_transcript	KNOWN	None	7998	None	None	139248984	139251388	-1	None	Don-1, NTAK, HRG2
5	NRG2	ENSG00000158458	ENST00000518130	processed_transcript	KNOWN	None	7998	None	None	139249123	139283895	-1	None	Don-1, NTAK, HRG2
5	NRG2	ENSG00000158458	ENST00000541337	protein_coding	KNOWN	CCDS54910	7998	2355	784	139226364	139422884	-1	None	Don-1, NTAK, HRG2
5	NRG2	ENSG00000158458	ENST00000545385	protein_coding	KNOWN	None	7998	2559	852	139227260	139422879	-1	None	Don-1, NTAK, HRG2
5	NRG2	ENSG00000158458	ENST00000394770	protein_coding	KNOWN	None	7998	1281	426	139227260	139422879	-1	None	Don-1, NTAK, HRG2
20	SPEF1	ENSG00000101222	ENST00000471499	processed_transcript	KNOWN	None	15874	None	None	3758151	3762095	-1	C20orf28	DKFZP434I114, SPEF1A
20	SPEF1	ENSG00000101222	ENST00000463490	processed_transcript	KNOWN	None	15874	None	None	3758151	3762095	-1	C20orf28	DKFZP434I114, SPEF1A
20	SPEF1	ENSG00000101222	ENST00000379756	protein_coding	KNOWN	CCDS13063	15874	711	236	3758151	3762095	-1	C20orf28	DKFZP434I114, SPEF1A
2	RMDN2	ENSG00000115841	ENST00000414644	protein_coding	KNOWN	None	26567	527	174	38150330	38201257	1	FAM82A, FAM82A1	FLJ32954, RMD2
2	RMDN2	ENSG00000115841	ENST00000354545	protein_coding	KNOWN	CCDS54351	26567	1233	410	38152462	38244407	1	FAM82A, FAM82A1	FLJ32954, RMD2
2	RMDN2	ENSG00000115841	ENST00000440353	nonsense_mediated_decay	KNOWN	None	26567	483	160	38152490	38225506	1	FAM82A, FAM82A1	FLJ32954, RMD2
2	RMDN2	ENSG00000115841	ENST00000406384	protein_coding	KNOWN	CCDS54351	26567	1233	410	38155902	38244887	1	FAM82A, FAM82A1	FLJ32954, RMD2
2	RMDN2	ENSG00000115841	ENST00000407257	protein_coding	PUTATIVE	None	26567	1716	571	38177575	38244701	1	FAM82A, FAM82A1	FLJ32954, RMD2
2	RMDN2	ENSG00000115841	ENST00000234195	protein_coding	KNOWN	CCDS1792	26567	1722	573	38177606	38294280	1	FAM82A, FAM82A1	FLJ32954, RMD2
2	RMDN2	ENSG00000115841	ENST00000442857	protein_coding	KNOWN	None	26567	715	237	38177607	38231330	1	FAM82A, FAM82A1	FLJ32954, RMD2
2	RMDN2	ENSG00000115841	ENST00000402091	protein_coding	PUTATIVE	None	26567	1077	358	38177644	38180253	1	FAM82A, FAM82A1	FLJ32954, RMD2
2	RMDN2	ENSG00000115841	ENST00000496735	retained_intron	KNOWN	None	26567	None	None	38201834	38216753	1	FAM82A, FAM82A1	FLJ32954, RMD2
2	RMDN2	ENSG00000115841	ENST00000425641	protein_coding	KNOWN	None	26567	451	149	38216690	38244870	1	FAM82A, FAM82A1	FLJ32954, RMD2
2	RMDN2	ENSG00000115841	ENST00000469469	processed_transcript	KNOWN	None	26567	None	None	38230011	38294285	1	FAM82A, FAM82A1	FLJ32954, RMD2
2	RMDN2	ENSG00000115841	ENST00000417700	protein_coding	KNOWN	CCDS54352	26567	798	265	38177596	38244884	1	FAM82A, FAM82A1	FLJ32954, RMD2
9	FKTN	ENSG00000106692	ENST00000602661	protein_coding	KNOWN	CCDS6766	3622	1386	461	108320411	108398519	1	FCMD	LGMD2M
9	FKTN	ENSG00000106692	ENST00000223528	protein_coding	KNOWN	CCDS6766	3622	1386	461	108320411	108403399	1	FCMD	LGMD2M
9	FKTN	ENSG00000106692	ENST00000448551	protein_coding	KNOWN	None	3622	1293	430	108320413	108402597	1	FCMD	LGMD2M
9	FKTN	ENSG00000106692	ENST00000490134	processed_transcript	KNOWN	None	3622	None	None	108320422	108359011	1	FCMD	LGMD2M
9	FKTN	ENSG00000106692	ENST00000479846	processed_transcript	KNOWN	None	3622	None	None	108320431	108337299	1	FCMD	LGMD2M
9	FKTN	ENSG00000106692	ENST00000602526	nonsense_mediated_decay	KNOWN	None	3622	204	67	108337282	108402921	1	FCMD	LGMD2M
9	FKTN	ENSG00000106692	ENST00000374705	protein_coding	NOVEL	None	3622	706	234	108337401	108370227	1	FCMD	LGMD2M
9	FKTN	ENSG00000106692	ENST00000457847	protein_coding	NOVEL	None	3622	482	159	108380240	108399199	1	FCMD	LGMD2M
9	FKTN	ENSG00000106692	ENST00000357998	protein_coding	KNOWN	None	3622	1293	430	108337198	108402597	1	FCMD	LGMD2M
9	FKTN	ENSG00000106692	ENST00000540160	protein_coding	KNOWN	None	3622	816	271	108320413	108397581	1	FCMD	LGMD2M
3	TM4SF19	ENSG00000145107	ENST00000442633	nonsense_mediated_decay	KNOWN	CCDS3316	25167	630	209	196042953	196065244	-1	None	None
3	TM4SF19	ENSG00000145107	ENST00000446879	protein_coding	PUTATIVE	None	25167	900	299	196046213	196065259	-1	None	None
3	TM4SF19	ENSG00000145107	ENST00000440822	protein_coding	PUTATIVE	None	25167	332	109	196050420	196051193	-1	None	None
3	TM4SF19	ENSG00000145107	ENST00000454715	protein_coding	NOVEL	CCDS56299	25167	552	183	196050420	196065374	-1	None	None
3	TM4SF19	ENSG00000145107	ENST00000273695	protein_coding	KNOWN	CCDS3316	25167	630	209	196050422	196065259	-1	None	None
11	None	ENSG00000255063	ENST00000528645	processed_pseudogene	KNOWN	None	None	None	None	82516396	82517551	1	None	None
19	None	ENSG00000269274	ENST00000593952	unprocessed_pseudogene	KNOWN	None	None	None	None	20405898	20414603	1	None	None
X	CBX1P4	ENSG00000214321	ENST00000439415	processed_pseudogene	KNOWN	None	38658	None	None	17300760	17301216	1	None	None
12	None	ENSG00000256564	ENST00000541892	antisense	KNOWN	None	None	None	None	16720345	16726874	1	None	None
11	CWC15	ENSG00000150316	ENST00000545018	processed_transcript	KNOWN	None	26939	None	None	94695787	94706776	-1	None	C11orf5, HSPC148, Cwf15
11	CWC15	ENSG00000150316	ENST00000540722	processed_transcript	KNOWN	None	26939	None	None	94696507	94703662	-1	None	C11orf5, HSPC148, Cwf15
11	CWC15	ENSG00000150316	ENST00000545971	retained_intron	KNOWN	None	26939	None	None	94696533	94706750	-1	None	C11orf5, HSPC148, Cwf15
11	CWC15	ENSG00000150316	ENST00000539856	retained_intron	KNOWN	None	26939	None	None	94703654	94706736	-1	None	C11orf5, HSPC148, Cwf15
11	CWC15	ENSG00000150316	ENST00000542907	retained_intron	KNOWN	None	26939	None	None	94703918	94706708	-1	None	C11orf5, HSPC148, Cwf15
11	CWC15	ENSG00000150316	ENST00000542165	retained_intron	KNOWN	None	26939	None	None	94704128	94706710	-1	None	C11orf5, HSPC148, Cwf15
11	CWC15	ENSG00000150316	ENST00000279839	protein_coding	KNOWN	None	26939	687	228	94695793	94706776	-1	None	C11orf5, HSPC148, Cwf15
15	None	ENSG00000260639	ENST00000567861	processed_pseudogene	KNOWN	None	None	None	None	34686795	34687132	1	None	None
16	None	ENSG00000260734	ENST00000572770	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	71464165	71466185	-1	None	None
16	None	ENSG00000260734	ENST00000561754	processed_transcript	KNOWN	None	None	None	None	71464590	71466068	-1	None	None
1	None	ENSG00000270149	ENST00000289779	nonsense_mediated_decay	KNOWN	None	None	186	61	160967747	161008734	-1	None	None
1	None	ENSG00000270149	ENST00000470694	nonsense_mediated_decay	KNOWN	None	None	108	35	160969936	161008752	-1	None	None
3	None	ENSG00000242001	ENST00000485294	processed_pseudogene	KNOWN	None	None	None	None	125400149	125400297	1	None	None
X	None	ENSG00000238764	ENST00000458802	snoRNA	NOVEL	None	None	None	None	17376053	17376156	1	None	None
8	None	ENSG00000247081	ENST00000521102	antisense	KNOWN	None	None	None	None	104169218	104184255	-1	None	None
8	None	ENSG00000247081	ENST00000500902	antisense	KNOWN	None	None	None	None	104177737	104184368	-1	None	None
8	None	ENSG00000247081	ENST00000499522	antisense	KNOWN	None	None	None	None	104178157	104298135	-1	None	None
8	None	ENSG00000247081	ENST00000523614	antisense	KNOWN	None	None	None	None	104203192	104310610	-1	None	None
8	None	ENSG00000247081	ENST00000523915	antisense	KNOWN	None	None	None	None	104203457	104215098	-1	None	None
8	None	ENSG00000247081	ENST00000519801	antisense	KNOWN	None	None	None	None	104258006	104298135	-1	None	None
8	None	ENSG00000247081	ENST00000521383	antisense	KNOWN	None	None	None	None	104258701	104310991	-1	None	None
8	None	ENSG00000247081	ENST00000523673	antisense	KNOWN	None	None	None	None	104279624	104298130	-1	None	None
8	None	ENSG00000247081	ENST00000520025	antisense	KNOWN	None	None	None	None	104280496	104298133	-1	None	None
8	None	ENSG00000247081	ENST00000522856	antisense	KNOWN	None	None	None	None	104297961	104311000	-1	None	None
11	OR10V3P	ENSG00000254743	ENST00000525712	unprocessed_pseudogene	KNOWN	None	15138	None	None	59508798	59509522	1	None	None
7	None	ENSG00000236039	ENST00000439046	lincRNA	KNOWN	None	None	None	None	17474101	17500296	-1	None	None
7	None	ENSG00000236039	ENST00000454003	lincRNA	KNOWN	None	None	None	None	17475654	17497060	-1	None	None
11	None	ENSG00000256533	ENST00000541631	processed_pseudogene	KNOWN	None	None	None	None	114323786	114324845	1	None	None
X	MIR4768	ENSG00000265465	ENST00000585270	miRNA	KNOWN	None	41592	None	None	17444004	17444077	1	None	hsa-mir-4768
12	None	ENSG00000257550	ENST00000548347	antisense	KNOWN	None	None	None	None	53907768	53911392	1	None	None
19	KXD1	ENSG00000105700	ENST00000222307	protein_coding	KNOWN	CCDS12381	28420	531	176	18668598	18680188	1	C19orf50	FLJ25480, MGC2749, KXDL
19	KXD1	ENSG00000105700	ENST00000600372	protein_coding	KNOWN	None	28420	395	130	18668616	18679305	1	C19orf50	FLJ25480, MGC2749, KXDL
19	KXD1	ENSG00000105700	ENST00000600796	processed_transcript	KNOWN	None	28420	None	None	18668648	18670596	1	C19orf50	FLJ25480, MGC2749, KXDL
19	KXD1	ENSG00000105700	ENST00000601630	protein_coding	NOVEL	None	28420	588	195	18668686	18680120	1	C19orf50	FLJ25480, MGC2749, KXDL
19	KXD1	ENSG00000105700	ENST00000599000	protein_coding	PUTATIVE	None	28420	387	128	18668689	18678128	1	C19orf50	FLJ25480, MGC2749, KXDL
19	KXD1	ENSG00000105700	ENST00000595073	protein_coding	KNOWN	CCDS12381	28420	531	176	18668698	18680107	1	C19orf50	FLJ25480, MGC2749, KXDL
19	KXD1	ENSG00000105700	ENST00000600654	nonsense_mediated_decay	KNOWN	CCDS12381	28420	531	176	18668702	18679901	1	C19orf50	FLJ25480, MGC2749, KXDL
19	KXD1	ENSG00000105700	ENST00000596785	protein_coding	KNOWN	None	28420	223	73	18668708	18675800	1	C19orf50	FLJ25480, MGC2749, KXDL
19	KXD1	ENSG00000105700	ENST00000599319	protein_coding	KNOWN	CCDS12381	28420	531	176	18669349	18679530	1	C19orf50	FLJ25480, MGC2749, KXDL
19	KXD1	ENSG00000105700	ENST00000597438	protein_coding	KNOWN	None	28420	501	166	18669464	18679411	1	C19orf50	FLJ25480, MGC2749, KXDL
19	KXD1	ENSG00000105700	ENST00000596244	protein_coding	KNOWN	None	28420	16	4	18669637	18672882	1	C19orf50	FLJ25480, MGC2749, KXDL
19	KXD1	ENSG00000105700	ENST00000602094	protein_coding	KNOWN	CCDS12381	28420	531	176	18669922	18680188	1	C19orf50	FLJ25480, MGC2749, KXDL
19	KXD1	ENSG00000105700	ENST00000598830	protein_coding	PUTATIVE	None	28420	387	128	18672330	18678082	1	C19orf50	FLJ25480, MGC2749, KXDL
19	KXD1	ENSG00000105700	ENST00000595870	protein_coding	KNOWN	None	28420	409	135	18672590	18679319	1	C19orf50	FLJ25480, MGC2749, KXDL
19	KXD1	ENSG00000105700	ENST00000600099	protein_coding	PUTATIVE	None	28420	257	84	18672901	18679508	1	C19orf50	FLJ25480, MGC2749, KXDL
19	KXD1	ENSG00000105700	ENST00000540691	protein_coding	KNOWN	CCDS12381	28420	531	176	18668572	18680197	1	C19orf50	FLJ25480, MGC2749, KXDL
19	KXD1	ENSG00000105700	ENST00000539106	protein_coding	KNOWN	CCDS12381	28420	531	176	18668572	18680197	1	C19orf50	FLJ25480, MGC2749, KXDL
19	None	ENSG00000266609	ENST00000583006	miRNA	NOVEL	None	None	None	None	20413399	20413481	1	None	None
11	KCNK4	ENSG00000182450	ENST00000538846	retained_intron	KNOWN	None	6279	None	None	64058774	64064898	1	None	K2p4.1, TRAAK
11	KCNK4	ENSG00000182450	ENST00000538767	protein_coding	PUTATIVE	None	6279	933	310	64058797	64067500	1	None	K2p4.1, TRAAK
11	KCNK4	ENSG00000182450	ENST00000422670	protein_coding	KNOWN	CCDS8067	6279	1182	393	64058881	64067478	1	None	K2p4.1, TRAAK
11	KCNK4	ENSG00000182450	ENST00000453423	retained_intron	KNOWN	None	6279	None	None	64058892	64066912	1	None	K2p4.1, TRAAK
11	KCNK4	ENSG00000182450	ENST00000539651	processed_transcript	KNOWN	None	6279	None	None	64059176	64065674	1	None	K2p4.1, TRAAK
11	KCNK4	ENSG00000182450	ENST00000541349	nonsense_mediated_decay	KNOWN	None	6279	477	158	64059204	64067483	1	None	K2p4.1, TRAAK
11	KCNK4	ENSG00000182450	ENST00000545838	retained_intron	KNOWN	None	6279	None	None	64059214	64064837	1	None	K2p4.1, TRAAK
11	KCNK4	ENSG00000182450	ENST00000394525	protein_coding	KNOWN	CCDS8067	6279	1182	393	64059482	64067503	1	None	K2p4.1, TRAAK
11	KCNK4	ENSG00000182450	ENST00000539216	protein_coding	KNOWN	CCDS8067	6279	1182	393	64060131	64067379	1	None	K2p4.1, TRAAK
11	KCNK4	ENSG00000182450	ENST00000536690	retained_intron	KNOWN	None	6279	None	None	64064334	64067445	1	None	K2p4.1, TRAAK
3	PA2G4P4	ENSG00000230457	ENST00000473864	processed_pseudogene	KNOWN	None	32217	None	None	156527340	156528521	-1	None	PA2G4L1
19	None	ENSG00000271638	ENST00000605397	processed_pseudogene	KNOWN	None	None	None	None	20434801	20435377	-1	None	None
2	GGCX	ENSG00000115486	ENST00000465637	processed_transcript	KNOWN	None	4247	None	None	85774743	85788616	-1	None	VKCFD1
2	GGCX	ENSG00000115486	ENST00000233838	protein_coding	KNOWN	CCDS1978	4247	2277	758	85776193	85788632	-1	None	VKCFD1
2	GGCX	ENSG00000115486	ENST00000430215	protein_coding	KNOWN	CCDS46353	4247	2106	701	85776953	85788655	-1	None	VKCFD1
2	GGCX	ENSG00000115486	ENST00000473665	processed_transcript	KNOWN	None	4247	None	None	85779602	85781647	-1	None	VKCFD1
2	GGCX	ENSG00000115486	ENST00000482662	processed_transcript	PUTATIVE	None	4247	None	None	85780046	85780926	-1	None	VKCFD1
2	GGCX	ENSG00000115486	ENST00000423570	nonsense_mediated_decay	KNOWN	None	4247	372	123	85781967	85788596	-1	None	VKCFD1
2	GGCX	ENSG00000115486	ENST00000421496	nonsense_mediated_decay	KNOWN	None	4247	201	66	85783305	85788616	-1	None	VKCFD1
2	GGCX	ENSG00000115486	ENST00000428479	nonsense_mediated_decay	KNOWN	None	4247	222	73	85783341	85788616	-1	None	VKCFD1
2	GGCX	ENSG00000115486	ENST00000481541	processed_transcript	PUTATIVE	None	4247	None	None	85785707	85788616	-1	None	VKCFD1
2	GGCX	ENSG00000115486	ENST00000496962	processed_transcript	PUTATIVE	None	4247	None	None	85785848	85788670	-1	None	VKCFD1
8	RNU6-1218P	ENSG00000239175	ENST00000458990	snRNA	KNOWN	None	48181	None	None	29901317	29901424	-1	None	None
3	None	ENSG00000272202	ENST00000607541	antisense	KNOWN	None	None	None	None	57112971	57114129	1	None	None
2	None	ENSG00000235128	ENST00000440018	processed_pseudogene	KNOWN	None	None	None	None	127437198	127437996	1	None	None
12	None	ENSG00000199566	ENST00000362696	snoRNA	NOVEL	None	None	None	None	47739949	47740080	-1	None	None
4	None	ENSG00000271307	ENST00000604941	processed_pseudogene	KNOWN	None	None	None	None	190901057	190901762	1	None	None
Y	TGIF2LY	ENSG00000176679	ENST00000321217	protein_coding	KNOWN	CCDS14775	18569	558	185	3447082	3448082	1	None	None
Y	TGIF2LY	ENSG00000176679	ENST00000559055	protein_coding	KNOWN	CCDS14775	18569	558	185	3447156	3448082	1	None	None
8	None	ENSG00000272256	ENST00000606596	antisense	KNOWN	None	None	None	None	29940274	29940983	1	None	None
11	NXPE2P1	ENSG00000255982	ENST00000543705	processed_pseudogene	KNOWN	None	44082	None	None	114383428	114384153	-1	None	None
2	RNU6-675P	ENSG00000206963	ENST00000384236	snRNA	KNOWN	None	47638	None	None	127460415	127460518	-1	None	None
11	KRTAP5-14P	ENSG00000249387	ENST00000502328	processed_pseudogene	KNOWN	None	23608	None	None	71290774	71290894	-1	KRTAP5P2	KRTAP5.P2
12	None	ENSG00000255871	ENST00000418574	lincRNA	KNOWN	None	None	None	None	16846734	16848911	1	None	None
5	NDUFS6	ENSG00000145494	ENST00000274137	protein_coding	KNOWN	CCDS3866	7713	375	124	1801514	1816719	1	None	CI-13kA
5	NDUFS6	ENSG00000145494	ENST00000469176	protein_coding	PUTATIVE	None	7713	519	172	1801529	1814813	1	None	CI-13kA
5	NDUFS6	ENSG00000145494	ENST00000510329	processed_transcript	KNOWN	None	7713	None	None	1801535	1802393	1	None	CI-13kA
12	None	ENSG00000257924	ENST00000550019	lincRNA	KNOWN	None	None	None	None	47747537	47763718	1	None	None
2	RNU7-182P	ENSG00000238788	ENST00000459009	snRNA	KNOWN	None	45716	None	None	127774997	127775058	1	None	None
12	NEDD1	ENSG00000139350	ENST00000266742	protein_coding	KNOWN	CCDS9063	7723	1983	660	97301001	97347129	1	None	GCP-WD, TUBGCP7
12	NEDD1	ENSG00000139350	ENST00000429527	protein_coding	KNOWN	CCDS9063	7723	1983	660	97301002	97347129	1	None	GCP-WD, TUBGCP7
12	NEDD1	ENSG00000139350	ENST00000554226	protein_coding	KNOWN	None	7723	503	166	97301008	97313896	1	None	GCP-WD, TUBGCP7
12	NEDD1	ENSG00000139350	ENST00000557478	protein_coding	KNOWN	None	7723	494	163	97301008	97328758	1	None	GCP-WD, TUBGCP7
12	NEDD1	ENSG00000139350	ENST00000557092	protein_coding	KNOWN	None	7723	302	99	97301011	97311469	1	None	GCP-WD, TUBGCP7
12	NEDD1	ENSG00000139350	ENST00000555806	nonsense_mediated_decay	KNOWN	None	7723	246	81	97301011	97330496	1	None	GCP-WD, TUBGCP7
12	NEDD1	ENSG00000139350	ENST00000555114	processed_transcript	KNOWN	None	7723	None	None	97301016	97330432	1	None	GCP-WD, TUBGCP7
12	NEDD1	ENSG00000139350	ENST00000411739	protein_coding	KNOWN	CCDS44956	7723	1716	571	97301016	97346253	1	None	GCP-WD, TUBGCP7
12	NEDD1	ENSG00000139350	ENST00000557400	processed_transcript	KNOWN	None	7723	None	None	97301035	97318673	1	None	GCP-WD, TUBGCP7
12	NEDD1	ENSG00000139350	ENST00000553609	protein_coding	KNOWN	None	7723	480	159	97301035	97330416	1	None	GCP-WD, TUBGCP7
12	NEDD1	ENSG00000139350	ENST00000557454	processed_transcript	KNOWN	None	7723	None	None	97301035	97330537	1	None	GCP-WD, TUBGCP7
12	NEDD1	ENSG00000139350	ENST00000557644	protein_coding	KNOWN	CCDS44955	7723	2004	667	97301244	97346048	1	None	GCP-WD, TUBGCP7
12	NEDD1	ENSG00000139350	ENST00000457368	protein_coding	KNOWN	CCDS44956	7723	1716	571	97306354	97346999	1	None	GCP-WD, TUBGCP7
X	None	ENSG00000216032	ENST00000401213	miRNA	NOVEL	None	None	None	None	145072385	145072455	-1	None	None
12	MMAB	ENSG00000139428	ENST00000545712	protein_coding	KNOWN	CCDS9131	19331	753	250	109991542	110011679	-1	None	cblB
12	MMAB	ENSG00000139428	ENST00000540016	protein_coding	PUTATIVE	None	19331	597	198	109994502	110011302	-1	None	cblB
12	MMAB	ENSG00000139428	ENST00000537496	nonsense_mediated_decay	KNOWN	None	19331	522	173	109994508	110011308	-1	None	cblB
12	MMAB	ENSG00000139428	ENST00000544051	nonsense_mediated_decay	KNOWN	None	19331	144	47	109994556	110011319	-1	None	cblB
12	MMAB	ENSG00000139428	ENST00000541763	nonsense_mediated_decay	KNOWN	None	19331	522	173	109994559	110011285	-1	None	cblB
12	MMAB	ENSG00000139428	ENST00000542390	retained_intron	KNOWN	None	19331	None	None	109999489	110011312	-1	None	cblB
12	MMAB	ENSG00000139428	ENST00000420167	nonsense_mediated_decay	KNOWN	None	19331	294	97	109999585	110011302	-1	None	cblB
12	MMAB	ENSG00000139428	ENST00000503497	nonsense_mediated_decay	KNOWN	None	19331	447	148	109999641	110011309	-1	None	cblB
12	MMAB	ENSG00000139428	ENST00000536760	retained_intron	KNOWN	None	19331	None	None	110002625	110011288	-1	None	cblB
12	MMAB	ENSG00000139428	ENST00000537236	retained_intron	KNOWN	None	19331	None	None	110006307	110011385	-1	None	cblB
12	MMAB	ENSG00000139428	ENST00000266839	protein_coding	KNOWN	None	19331	480	159	109994593	110011309	-1	None	cblB
3	KLF3P2	ENSG00000241879	ENST00000465138	processed_pseudogene	KNOWN	None	41519	None	None	156695347	156695614	1	None	None
3	None	ENSG00000229863	ENST00000438827	processed_pseudogene	KNOWN	None	None	None	None	57168170	57168751	1	None	None
2	None	ENSG00000260634	ENST00000567613	lincRNA	KNOWN	None	None	None	None	127781828	127783299	-1	None	None
4	TUBB7P	ENSG00000251297	ENST00000428444	unprocessed_pseudogene	KNOWN	None	12413	None	None	190903678	190906026	-1	TUBB4Q	None
11	OR7E87P	ENSG00000184055	ENST00000532397	unprocessed_pseudogene	KNOWN	None	14709	None	None	71304500	71305428	1	OR7E3P, OR7F3P	OR11-9
11	OR10V2P	ENSG00000255538	ENST00000525296	unprocessed_pseudogene	KNOWN	None	15137	None	None	59516284	59517047	1	None	None
2	None	ENSG00000260163	ENST00000564121	lincRNA	KNOWN	None	None	None	None	127782787	127787262	1	None	None
3	None	ENSG00000266857	ENST00000579826	miRNA	NOVEL	None	None	None	None	125409100	125409187	1	None	None
3	None	ENSG00000239706	ENST00000487061	processed_pseudogene	KNOWN	None	None	None	None	156705906	156706501	-1	None	None
HSCHR6_MHC_QBL	None	ENSG00000257425	ENST00000552859	pseudogene	NOVEL	None	None	None	None	30414329	30414452	1	None	None
19	ZNF826P	ENSG00000231205	ENST00000542380	processed_transcript	KNOWN	None	33875	None	None	20451078	20607775	-1	ZNF826	FLJ44894
19	ZNF826P	ENSG00000231205	ENST00000541160	processed_transcript	KNOWN	None	33875	None	None	20451177	20607765	-1	ZNF826	FLJ44894
19	ZNF826P	ENSG00000231205	ENST00000600513	processed_transcript	KNOWN	None	33875	None	None	20509467	20607727	-1	ZNF826	FLJ44894
19	ZNF826P	ENSG00000231205	ENST00000597334	processed_transcript	KNOWN	None	33875	None	None	20515776	20607775	-1	ZNF826	FLJ44894
19	ZNF826P	ENSG00000231205	ENST00000502675	processed_transcript	KNOWN	None	33875	None	None	20575923	20607762	-1	ZNF826	FLJ44894
19	ZNF826P	ENSG00000231205	ENST00000311237	transcribed_unprocessed_pseudogene	KNOWN	None	33875	None	None	20577388	20592757	-1	ZNF826	FLJ44894
19	ZNF826P	ENSG00000231205	ENST00000601992	processed_transcript	KNOWN	None	33875	None	None	20588513	20607679	-1	ZNF826	FLJ44894
19	ZNF826P	ENSG00000231205	ENST00000596724	processed_transcript	KNOWN	None	33875	None	None	20598111	20607762	-1	ZNF826	FLJ44894
7	TNRC18P2	ENSG00000223566	ENST00000417666	unprocessed_pseudogene	KNOWN	None	34014	None	None	63028121	63045453	-1	TNRC18B	None
11	None	ENSG00000254441	ENST00000527936	processed_pseudogene	KNOWN	None	None	None	None	82546551	82548264	1	None	None
2	MKI67IPP9	ENSG00000237630	ENST00000419265	processed_pseudogene	KNOWN	None	44957	None	None	127927587	127927807	1	None	None
HSCHR6_MHC_QBL	TMPOP1	ENSG00000235223	ENST00000457073	processed_pseudogene	KNOWN	None	21364	None	None	30423833	30425362	1	TMPOL1	Em:AB014080.3
12	MIR4494	ENSG00000264906	ENST00000577654	miRNA	KNOWN	None	41731	None	None	47757969	47758052	-1	None	hsa-mir-4494
12	None	ENSG00000255740	ENST00000539266	lincRNA	KNOWN	None	None	None	None	16939696	16940779	1	None	None
11	UNC93B6	ENSG00000255562	ENST00000525262	processed_transcript	KNOWN	None	34053	None	None	71314306	71319086	1	None	None
11	UNC93B6	ENSG00000255562	ENST00000528242	transcribed_processed_pseudogene	KNOWN	None	34053	None	None	71314307	71318638	1	None	None
2	None	ENSG00000226789	ENST00000412499	processed_pseudogene	KNOWN	None	None	None	None	128004834	128007658	1	None	None
4	INTS12	ENSG00000138785	ENST00000394735	protein_coding	KNOWN	CCDS3671	25067	1389	462	106603784	106629238	-1	PHF22	SBBI22, INT12
4	INTS12	ENSG00000138785	ENST00000340139	protein_coding	KNOWN	CCDS3671	25067	1389	462	106603784	106629838	-1	PHF22	SBBI22, INT12
4	INTS12	ENSG00000138785	ENST00000451321	protein_coding	KNOWN	CCDS3671	25067	1389	462	106603784	106630265	-1	PHF22	SBBI22, INT12
4	INTS12	ENSG00000138785	ENST00000493425	retained_intron	KNOWN	None	25067	None	None	106604219	106608236	-1	PHF22	SBBI22, INT12
4	INTS12	ENSG00000138785	ENST00000503746	protein_coding	KNOWN	None	25067	478	158	106614475	106629822	-1	PHF22	SBBI22, INT12
4	INTS12	ENSG00000138785	ENST00000420368	protein_coding	KNOWN	None	25067	395	130	106614558	106629816	-1	PHF22	SBBI22, INT12
4	INTS12	ENSG00000138785	ENST00000416543	protein_coding	KNOWN	None	25067	265	87	106616717	106629796	-1	PHF22	SBBI22, INT12
4	INTS12	ENSG00000138785	ENST00000433009	protein_coding	KNOWN	None	25067	263	86	106616719	106629840	-1	PHF22	SBBI22, INT12
4	INTS12	ENSG00000138785	ENST00000510876	protein_coding	PUTATIVE	None	25067	172	56	106621030	106817143	-1	PHF22	SBBI22, INT12
4	INTS12	ENSG00000138785	ENST00000515819	protein_coding	KNOWN	None	25067	55	17	106621108	106629813	-1	PHF22	SBBI22, INT12
3	None	ENSG00000238905	ENST00000459308	snoRNA	NOVEL	None	None	None	None	57455872	57455977	-1	None	None
4	None	ENSG00000173966	ENST00000513286	processed_pseudogene	KNOWN	None	None	None	None	54441880	54442554	1	None	None
3	None	ENSG00000212392	ENST00000391090	misc_RNA	NOVEL	None	None	None	None	57479394	57479507	1	None	None
19	None	ENSG00000268034	ENST00000600996	processed_pseudogene	KNOWN	None	None	None	None	42012068	42012814	1	None	None
5	None	ENSG00000249803	ENST00000511165	lincRNA	KNOWN	None	None	None	None	135802366	135844717	1	None	None
5	None	ENSG00000249803	ENST00000446720	lincRNA	KNOWN	None	None	None	None	135802366	135855987	1	None	None
HG79_PATCH	CACFD1	ENSG00000260502	ENST00000570003	protein_coding	KNOWN	None	1365	393	130	136335502	136346383	1	C9orf7	D9S2135, flower
HG79_PATCH	CACFD1	ENSG00000260502	ENST00000562718	processed_transcript	KNOWN	None	1365	None	None	136335522	136344154	1	C9orf7	D9S2135, flower
HG79_PATCH	CACFD1	ENSG00000260502	ENST00000568974	protein_coding	KNOWN	None	1365	519	172	136335522	136346383	1	C9orf7	D9S2135, flower
HG79_PATCH	CACFD1	ENSG00000260502	ENST00000564267	processed_transcript	KNOWN	None	1365	None	None	136335533	136341388	1	C9orf7	D9S2135, flower
HG79_PATCH	CACFD1	ENSG00000260502	ENST00000563353	protein_coding	KNOWN	None	1365	344	113	136337706	136343563	1	C9orf7	D9S2135, flower
14	RNASE11	ENSG00000173464	ENST00000335950	protein_coding	KNOWN	CCDS9553	19269	600	199	21051051	21058696	-1	C14orf6	None
14	RNASE11	ENSG00000173464	ENST00000553849	protein_coding	KNOWN	CCDS9553	19269	600	199	21051718	21055884	-1	C14orf6	None
14	RNASE11	ENSG00000173464	ENST00000555841	protein_coding	KNOWN	CCDS9553	19269	600	199	21051855	21056149	-1	C14orf6	None
14	RNASE11	ENSG00000173464	ENST00000398009	protein_coding	KNOWN	CCDS9553	19269	600	199	21051855	21056193	-1	C14orf6	None
14	RNASE11	ENSG00000173464	ENST00000398008	protein_coding	KNOWN	CCDS9553	19269	600	199	21051950	21056139	-1	C14orf6	None
14	RNASE11	ENSG00000173464	ENST00000432835	protein_coding	KNOWN	CCDS9553	19269	600	199	21052034	21056162	-1	C14orf6	None
14	RNASE11	ENSG00000173464	ENST00000443456	protein_coding	KNOWN	None	19269	536	177	21052098	21056156	-1	C14orf6	None
14	RNASE11	ENSG00000173464	ENST00000557503	protein_coding	KNOWN	None	19269	536	177	21052098	21056187	-1	C14orf6	None
14	RNASE11	ENSG00000173464	ENST00000557105	protein_coding	KNOWN	None	19269	515	170	21052119	21056121	-1	C14orf6	None
14	RNASE11	ENSG00000173464	ENST00000413502	protein_coding	KNOWN	None	19269	428	141	21052206	21078043	-1	C14orf6	None
14	RNASE11	ENSG00000173464	ENST00000554842	protein_coding	KNOWN	None	19269	409	135	21052225	21056206	-1	C14orf6	None
16	RAB26	ENSG00000167964	ENST00000565592	nonsense_mediated_decay	KNOWN	None	14259	195	64	2190804	2203071	1	None	None
16	RAB26	ENSG00000167964	ENST00000541451	protein_coding	PUTATIVE	None	14259	573	190	2198145	2203422	1	None	None
16	RAB26	ENSG00000167964	ENST00000564426	retained_intron	KNOWN	None	14259	None	None	2198274	2204140	1	None	None
16	RAB26	ENSG00000167964	ENST00000562735	retained_intron	KNOWN	None	14259	None	None	2198625	2204111	1	None	None
16	RAB26	ENSG00000167964	ENST00000210187	protein_coding	KNOWN	CCDS10460	14259	771	256	2198625	2204166	1	None	None
16	RAB26	ENSG00000167964	ENST00000561600	retained_intron	KNOWN	None	14259	None	None	2199983	2203390	1	None	None
16	RAB26	ENSG00000167964	ENST00000567145	retained_intron	KNOWN	None	14259	None	None	2201577	2203377	1	None	None
16	RAB26	ENSG00000167964	ENST00000566724	protein_coding	PUTATIVE	None	14259	409	135	2203043	2204141	1	None	None
HSCHR6_MHC_QBL	SUCLA2P1	ENSG00000223693	ENST00000422122	processed_pseudogene	KNOWN	None	21632	None	None	30426181	30427550	1	SUCLA2P	Em:AB014080.4
HSCHR6_MHC_QBL	SUCLA2P1	ENSG00000223693	ENST00000548723	pseudogene	KNOWN	None	21632	None	None	30426922	30427550	1	SUCLA2P	Em:AB014080.4
12	None	ENSG00000256211	ENST00000444513	processed_pseudogene	KNOWN	None	None	None	None	17142060	17142870	1	None	None
HG1308_PATCH	CEP41	ENSG00000265594	ENST00000580443	protein_coding	KNOWN	None	12370	1122	373	130036375	130081078	-1	TSGA14	DKFZp762H1311, FLJ22445, JBTS15
HG1308_PATCH	CEP41	ENSG00000265594	ENST00000581420	retained_intron	KNOWN	None	12370	None	None	130037349	130040987	-1	TSGA14	DKFZp762H1311, FLJ22445, JBTS15
HG1308_PATCH	CEP41	ENSG00000265594	ENST00000578772	nonsense_mediated_decay	KNOWN	None	12370	378	125	130038570	130080868	-1	TSGA14	DKFZp762H1311, FLJ22445, JBTS15
HG1308_PATCH	CEP41	ENSG00000265594	ENST00000577507	protein_coding	KNOWN	None	12370	906	301	130038580	130080836	-1	TSGA14	DKFZp762H1311, FLJ22445, JBTS15
HG1308_PATCH	CEP41	ENSG00000265594	ENST00000583790	retained_intron	KNOWN	None	12370	None	None	130038683	130041050	-1	TSGA14	DKFZp762H1311, FLJ22445, JBTS15
HG1308_PATCH	CEP41	ENSG00000265594	ENST00000581306	retained_intron	KNOWN	None	12370	None	None	130040109	130042527	-1	TSGA14	DKFZp762H1311, FLJ22445, JBTS15
HG1308_PATCH	CEP41	ENSG00000265594	ENST00000578060	protein_coding	PUTATIVE	None	12370	579	192	130040621	130066571	-1	TSGA14	DKFZp762H1311, FLJ22445, JBTS15
HG1308_PATCH	CEP41	ENSG00000265594	ENST00000579704	protein_coding	PUTATIVE	None	12370	485	160	130041774	130066820	-1	TSGA14	DKFZp762H1311, FLJ22445, JBTS15
HG1308_PATCH	CEP41	ENSG00000265594	ENST00000582998	protein_coding	PUTATIVE	None	12370	544	180	130042510	130082274	-1	TSGA14	DKFZp762H1311, FLJ22445, JBTS15
HG1308_PATCH	CEP41	ENSG00000265594	ENST00000582105	protein_coding	PUTATIVE	None	12370	422	139	130042536	130057173	-1	TSGA14	DKFZp762H1311, FLJ22445, JBTS15
HG1308_PATCH	CEP41	ENSG00000265594	ENST00000582189	nonsense_mediated_decay	KNOWN	None	12370	210	69	130044440	130080898	-1	TSGA14	DKFZp762H1311, FLJ22445, JBTS15
HG1308_PATCH	CEP41	ENSG00000265594	ENST00000584280	retained_intron	KNOWN	None	12370	None	None	130050717	130080867	-1	TSGA14	DKFZp762H1311, FLJ22445, JBTS15
HG1308_PATCH	CEP41	ENSG00000265594	ENST00000578879	protein_coding	PUTATIVE	None	12370	195	64	130051006	130080689	-1	TSGA14	DKFZp762H1311, FLJ22445, JBTS15
HG1308_PATCH	CEP41	ENSG00000265594	ENST00000583323	retained_intron	KNOWN	None	12370	None	None	130051860	130066554	-1	TSGA14	DKFZp762H1311, FLJ22445, JBTS15
HG1308_PATCH	CEP41	ENSG00000265594	ENST00000580536	protein_coding	KNOWN	None	12370	165	54	130058875	130080897	-1	TSGA14	DKFZp762H1311, FLJ22445, JBTS15
HG1308_PATCH	CEP41	ENSG00000265594	ENST00000584404	processed_transcript	KNOWN	None	12370	None	None	130061276	130080870	-1	TSGA14	DKFZp762H1311, FLJ22445, JBTS15
HG1308_PATCH	CEP41	ENSG00000265594	ENST00000581074	processed_transcript	KNOWN	None	12370	None	None	130061694	130080865	-1	TSGA14	DKFZp762H1311, FLJ22445, JBTS15
3	OR7E130P	ENSG00000234458	ENST00000509527	unprocessed_pseudogene	KNOWN	None	15053	None	None	125422193	125423156	1	None	OST702
3	OR7E130P	ENSG00000234458	ENST00000415577	unprocessed_pseudogene	KNOWN	None	15053	None	None	125422249	125423154	1	None	OST702
19	ZNF558	ENSG00000167785	ENST00000601372	protein_coding	KNOWN	CCDS12208	26422	1209	402	8920380	8943004	-1	None	FLJ30932
19	ZNF558	ENSG00000167785	ENST00000301475	protein_coding	KNOWN	CCDS12208	26422	1209	402	8920382	8933565	-1	None	FLJ30932
19	ZNF558	ENSG00000167785	ENST00000597304	retained_intron	KNOWN	None	26422	None	None	8921614	8935775	-1	None	FLJ30932
19	ZNF558	ENSG00000167785	ENST00000599938	processed_transcript	KNOWN	None	26422	None	None	8933384	8942990	-1	None	FLJ30932
19	ZNF558	ENSG00000167785	ENST00000595786	processed_transcript	KNOWN	None	26422	None	None	8934857	8942945	-1	None	FLJ30932
19	ZNF558	ENSG00000167785	ENST00000596172	processed_transcript	KNOWN	None	26422	None	None	8934956	8942980	-1	None	FLJ30932
19	ZNF558	ENSG00000167785	ENST00000593891	retained_intron	KNOWN	None	26422	None	None	8941820	8942918	-1	None	FLJ30932
19	ZNF558	ENSG00000167785	ENST00000444186	protein_coding	KNOWN	None	26422	996	331	8921614	8932507	-1	None	FLJ30932
19	None	ENSG00000269800	ENST00000598554	processed_pseudogene	KNOWN	None	None	None	None	42027403	42028349	-1	None	None
19	ZNF442	ENSG00000198342	ENST00000242804	protein_coding	KNOWN	CCDS12271	20877	1884	627	12460185	12476447	-1	None	FLJ14356
19	ZNF442	ENSG00000198342	ENST00000438182	protein_coding	PUTATIVE	None	20877	1677	558	12460397	12476455	-1	None	FLJ14356
19	ZNF442	ENSG00000198342	ENST00000424168	protein_coding	PUTATIVE	None	20877	462	153	12461730	12476719	-1	None	FLJ14356
19	ZNF442	ENSG00000198342	ENST00000462995	retained_intron	KNOWN	None	20877	None	None	12462605	12476475	-1	None	FLJ14356
HSCHR6_MHC_DBB	LY6G5C	ENSG00000226404	ENST00000477809	processed_transcript	KNOWN	None	13932	None	None	31626644	31630325	-1	C6orf20	G5c, NG33
HSCHR6_MHC_DBB	LY6G5C	ENSG00000226404	ENST00000493167	retained_intron	KNOWN	None	13932	None	None	31626644	31630325	-1	C6orf20	G5c, NG33
HSCHR6_MHC_DBB	LY6G5C	ENSG00000226404	ENST00000455753	protein_coding	KNOWN	None	13932	453	150	31626644	31630338	-1	C6orf20	G5c, NG33
HSCHR6_MHC_DBB	LY6G5C	ENSG00000226404	ENST00000477760	processed_transcript	KNOWN	None	13932	None	None	31626644	31631438	-1	C6orf20	G5c, NG33
HSCHR6_MHC_DBB	LY6G5C	ENSG00000226404	ENST00000479313	processed_transcript	KNOWN	None	13932	None	None	31626644	31633171	-1	C6orf20	G5c, NG33
HSCHR6_MHC_DBB	LY6G5C	ENSG00000226404	ENST00000486182	processed_transcript	KNOWN	None	13932	None	None	31626644	31634001	-1	C6orf20	G5c, NG33
HSCHR6_MHC_DBB	LY6G5C	ENSG00000226404	ENST00000435280	protein_coding	KNOWN	None	13932	677	224	31626644	31634001	-1	C6orf20	G5c, NG33
HSCHR6_MHC_DBB	LY6G5C	ENSG00000226404	ENST00000495371	processed_transcript	KNOWN	None	13932	None	None	31631310	31631922	-1	C6orf20	G5c, NG33
HSCHR6_MHC_DBB	LY6G5C	ENSG00000226404	ENST00000549664	protein_coding	KNOWN	None	13932	447	148	31626644	31634001	-1	C6orf20	G5c, NG33
HSCHR6_MHC_MCF	MAS1L	ENSG00000206470	ENST00000383549	protein_coding	KNOWN	None	13961	1137	378	29454259	29455523	-1	None	MAS-L, MRG, dJ994E9.2
7	MLXIPL	ENSG00000009950	ENST00000414749	protein_coding	KNOWN	CCDS47606	12744	2553	850	73007524	73038822	-1	WBSCR14	WS-bHLH, MIO, CHREBP, MONDOB, bHLHd14
7	MLXIPL	ENSG00000009950	ENST00000429400	protein_coding	KNOWN	CCDS47605	12744	2502	833	73007524	73038822	-1	WBSCR14	WS-bHLH, MIO, CHREBP, MONDOB, bHLHd14
7	MLXIPL	ENSG00000009950	ENST00000345114	nonsense_mediated_decay	KNOWN	None	12744	1728	575	73007524	73038822	-1	WBSCR14	WS-bHLH, MIO, CHREBP, MONDOB, bHLHd14
7	MLXIPL	ENSG00000009950	ENST00000313375	protein_coding	KNOWN	CCDS5553	12744	2559	852	73007524	73038870	-1	WBSCR14	WS-bHLH, MIO, CHREBP, MONDOB, bHLHd14
7	MLXIPL	ENSG00000009950	ENST00000354613	protein_coding	KNOWN	CCDS5554	12744	2496	831	73007524	73038870	-1	WBSCR14	WS-bHLH, MIO, CHREBP, MONDOB, bHLHd14
7	MLXIPL	ENSG00000009950	ENST00000434326	protein_coding	PUTATIVE	None	12744	2166	721	73007532	73038844	-1	WBSCR14	WS-bHLH, MIO, CHREBP, MONDOB, bHLHd14
7	MLXIPL	ENSG00000009950	ENST00000467221	retained_intron	KNOWN	None	12744	None	None	73010504	73011692	-1	WBSCR14	WS-bHLH, MIO, CHREBP, MONDOB, bHLHd14
7	MLXIPL	ENSG00000009950	ENST00000476404	retained_intron	KNOWN	None	12744	None	None	73011040	73021154	-1	WBSCR14	WS-bHLH, MIO, CHREBP, MONDOB, bHLHd14
7	MLXIPL	ENSG00000009950	ENST00000453275	protein_coding	PUTATIVE	None	12744	639	212	73011975	73038873	-1	WBSCR14	WS-bHLH, MIO, CHREBP, MONDOB, bHLHd14
7	MLXIPL	ENSG00000009950	ENST00000488212	retained_intron	KNOWN	None	12744	None	None	73013922	73021450	-1	WBSCR14	WS-bHLH, MIO, CHREBP, MONDOB, bHLHd14
7	MLXIPL	ENSG00000009950	ENST00000456640	protein_coding	PUTATIVE	None	12744	706	234	73020240	73030491	-1	WBSCR14	WS-bHLH, MIO, CHREBP, MONDOB, bHLHd14
7	MLXIPL	ENSG00000009950	ENST00000395189	protein_coding	KNOWN	None	12744	2280	759	73007524	73038870	-1	WBSCR14	WS-bHLH, MIO, CHREBP, MONDOB, bHLHd14
2	RNU6-1147P	ENSG00000200250	ENST00000363380	snRNA	KNOWN	None	48110	None	None	128074449	128074555	1	None	None
2	UGT1A4	ENSG00000244474	ENST00000373409	protein_coding	KNOWN	CCDS33405	12536	1605	534	234627424	234681945	1	None	HUG-BR2, UGT1D
2	UGT1A4	ENSG00000244474	ENST00000450233	nonsense_mediated_decay	KNOWN	None	12536	1338	445	234627467	234681652	1	None	HUG-BR2, UGT1D
4	MYOZ2	ENSG00000172399	ENST00000307128	protein_coding	KNOWN	CCDS3711	1330	795	264	120056939	120108944	1	C4orf5	CS-1
7	RN7SL855P	ENSG00000266487	ENST00000579120	misc_RNA	KNOWN	None	46871	None	None	63071823	63072082	-1	None	None
2	None	ENSG00000236682	ENST00000433673	lincRNA	KNOWN	None	None	None	None	128146706	128158156	1	None	None
12	None	ENSG00000257906	ENST00000552320	lincRNA	KNOWN	None	None	None	None	47808791	47813962	1	None	None
HSCHR6_MHC_QBL	RANP1	ENSG00000229038	ENST00000445316	processed_pseudogene	KNOWN	None	21631	None	None	30443238	30443888	1	None	Em:AB014080.2
HSCHR6_MHC_QBL	RANP1	ENSG00000229038	ENST00000548300	processed_pseudogene	KNOWN	None	21631	None	None	30443238	30443567	1	None	Em:AB014080.2
11	None	ENSG00000254477	ENST00000525337	antisense	KNOWN	None	None	None	None	59520488	59522448	-1	None	None
7	MIR4283-1	ENSG00000265214	ENST00000578980	miRNA	KNOWN	None	38238	None	None	63081468	63081547	1	None	hsa-mir-4283-1
7	MIR4283-2	ENSG00000265214	ENST00000578980	miRNA	KNOWN	None	38296	None	None	63081468	63081547	1	None	hsa-mir-4283-2
19	None	ENSG00000268355	ENST00000599316	lincRNA	KNOWN	None	None	None	None	42037566	42038237	1	None	None
19	None	ENSG00000268355	ENST00000599770	lincRNA	KNOWN	None	None	None	None	42037647	42038534	1	None	None
2	MIR4783	ENSG00000264075	ENST00000580343	miRNA	KNOWN	None	41874	None	None	128181113	128181194	-1	None	hsa-mir-4783
3	RNU6-1181P	ENSG00000206918	ENST00000384191	snRNA	KNOWN	None	48144	None	None	57498177	57498282	1	None	None
7	None	ENSG00000226401	ENST00000429970	unprocessed_pseudogene	KNOWN	None	None	None	None	63092986	63096995	1	None	None
3	None	ENSG00000235493	ENST00000356047	lincRNA	KNOWN	None	None	None	None	28038701	28070095	-1	None	None
3	None	ENSG00000235493	ENST00000437506	lincRNA	KNOWN	None	None	None	None	28039035	28070094	-1	None	None
20	MANBAL	ENSG00000101363	ENST00000373606	protein_coding	KNOWN	CCDS13293	15799	258	85	35918041	35945663	1	None	dJ1141E15.2
20	MANBAL	ENSG00000101363	ENST00000397150	protein_coding	PUTATIVE	None	15799	171	56	35918052	35945042	1	None	dJ1141E15.2
20	MANBAL	ENSG00000101363	ENST00000397152	protein_coding	KNOWN	CCDS13293	15799	258	85	35918066	35945663	1	None	dJ1141E15.2
20	MANBAL	ENSG00000101363	ENST00000373605	protein_coding	KNOWN	CCDS13293	15799	258	85	35925299	35945663	1	None	dJ1141E15.2
20	MANBAL	ENSG00000101363	ENST00000397151	protein_coding	KNOWN	CCDS13293	15799	258	85	35925748	35945663	1	None	dJ1141E15.2
20	MANBAL	ENSG00000101363	ENST00000397156	protein_coding	KNOWN	CCDS13293	15799	258	85	35918051	35945659	1	None	dJ1141E15.2
3	RNF7P1	ENSG00000239831	ENST00000478598	processed_pseudogene	KNOWN	None	43425	None	None	57505396	57505737	-1	None	None
5	None	ENSG00000221310	ENST00000408383	miRNA	NOVEL	None	None	None	None	110891593	110891678	1	None	None
14	ALKBH1	ENSG00000100601	ENST00000216489	protein_coding	KNOWN	CCDS32127	17911	1170	389	78138747	78174363	-1	ALKBH	hABH, alkB, ABH
14	ALKBH1	ENSG00000100601	ENST00000557057	nonsense_mediated_decay	KNOWN	None	17911	351	116	78139418	78174353	-1	ALKBH	hABH, alkB, ABH
14	ALKBH1	ENSG00000100601	ENST00000555100	nonsense_mediated_decay	KNOWN	None	17911	339	112	78140446	78174335	-1	ALKBH	hABH, alkB, ABH
14	ALKBH1	ENSG00000100601	ENST00000554097	processed_transcript	KNOWN	None	17911	None	None	78158076	78170795	-1	ALKBH	hABH, alkB, ABH
3	FCF1P3	ENSG00000239997	ENST00000496394	processed_pseudogene	KNOWN	None	44615	None	None	106567518	106568107	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000257656	ENST00000549636	pseudogene	NOVEL	None	None	None	None	30445600	30445684	1	None	None
X	None	ENSG00000235834	ENST00000433228	sense_intronic	KNOWN	None	None	None	None	17546558	17605281	1	None	None
1	None	ENSG00000250575	ENST00000514436	unprocessed_pseudogene	KNOWN	None	None	None	None	326096	328112	1	None	None
5	HMGN1P13	ENSG00000249619	ENST00000505795	processed_pseudogene	KNOWN	None	39357	None	None	110907799	110907936	-1	None	None
2	None	ENSG00000231731	ENST00000596439	antisense	KNOWN	None	None	None	None	128221218	128247336	1	None	None
2	None	ENSG00000231731	ENST00000454503	antisense	KNOWN	None	None	None	None	128225153	128247366	1	None	None
2	None	ENSG00000231731	ENST00000598696	antisense	KNOWN	None	None	None	None	128225284	128228427	1	None	None
2	None	ENSG00000231731	ENST00000598065	antisense	KNOWN	None	None	None	None	128225284	128247361	1	None	None
2	None	ENSG00000231731	ENST00000595561	antisense	KNOWN	None	None	None	None	128225284	128247368	1	None	None
2	None	ENSG00000231731	ENST00000599001	antisense	KNOWN	None	None	None	None	128225284	128263373	1	None	None
16	CCDC101	ENSG00000176476	ENST00000564682	retained_intron	KNOWN	None	25156	None	None	28565236	28596724	1	None	FLJ32446, SGF29
16	CCDC101	ENSG00000176476	ENST00000569581	retained_intron	KNOWN	None	25156	None	None	28565241	28600741	1	None	FLJ32446, SGF29
16	CCDC101	ENSG00000176476	ENST00000317058	protein_coding	KNOWN	CCDS10635	25156	882	293	28565247	28603111	1	None	FLJ32446, SGF29
16	CCDC101	ENSG00000176476	ENST00000567564	nonsense_mediated_decay	KNOWN	None	25156	399	132	28565293	28601762	1	None	FLJ32446, SGF29
16	CCDC101	ENSG00000176476	ENST00000567447	retained_intron	KNOWN	None	25156	None	None	28601438	28603111	1	None	FLJ32446, SGF29
16	CCDC101	ENSG00000176476	ENST00000564023	protein_coding	NOVEL	None	25156	272	89	28601706	28603109	1	None	FLJ32446, SGF29
16	CCDC101	ENSG00000176476	ENST00000565945	retained_intron	KNOWN	None	25156	None	None	28601921	28603109	1	None	FLJ32446, SGF29
12	None	ENSG00000258369	ENST00000549509	processed_pseudogene	KNOWN	None	None	None	None	47856870	47857404	1	None	None
7	None	ENSG00000226411	ENST00000421770	unprocessed_pseudogene	KNOWN	None	None	None	None	63159768	63160819	1	None	None
19	None	ENSG00000270164	ENST00000597199	lincRNA	KNOWN	None	None	None	None	42041545	42043262	1	None	None
19	None	ENSG00000270164	ENST00000487420	lincRNA	KNOWN	None	None	None	None	42041702	42043264	1	None	None
19	None	ENSG00000270164	ENST00000483481	lincRNA	KNOWN	None	None	None	None	42041860	42043266	1	None	None
19	None	ENSG00000270164	ENST00000494375	lincRNA	KNOWN	None	None	None	None	42041929	42043266	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000258228	ENST00000549657	pseudogene	NOVEL	None	None	None	None	30446021	30446144	-1	None	None
11	FABP5P7	ENSG00000234964	ENST00000524732	processed_pseudogene	KNOWN	None	31070	None	None	59548791	59549195	-1	FABP5L7	None
11	FABP5P7	ENSG00000234964	ENST00000458175	processed_pseudogene	KNOWN	None	31070	None	None	59548786	59549193	-1	FABP5L7	None
X	RNU6-616P	ENSG00000207081	ENST00000384353	snRNA	KNOWN	None	47579	None	None	134052340	134052446	-1	None	None
5	None	ENSG00000251099	ENST00000504843	processed_pseudogene	KNOWN	None	None	None	None	110907933	110908095	1	None	None
11	None	ENSG00000206808	ENST00000384081	misc_RNA	NOVEL	None	None	None	None	33192927	33193036	-1	None	None
14	None	ENSG00000251731	ENST00000515922	miRNA	NOVEL	None	None	None	None	48963136	48963267	-1	None	None
HSCHR6_MHC_QBL	None	ENSG00000257423	ENST00000548864	pseudogene	NOVEL	None	None	None	None	30449135	30449219	1	None	None
2	LBH	ENSG00000213626	ENST00000395323	protein_coding	KNOWN	CCDS33173	29532	318	105	30454397	30482894	1	None	None
2	LBH	ENSG00000213626	ENST00000412933	nonsense_mediated_decay	KNOWN	None	29532	132	43	30454402	30480414	1	None	None
2	LBH	ENSG00000213626	ENST00000464412	processed_transcript	KNOWN	None	29532	None	None	30454403	30479567	1	None	None
2	LBH	ENSG00000213626	ENST00000406087	protein_coding	PUTATIVE	None	29532	159	52	30454403	30480522	1	None	None
2	LBH	ENSG00000213626	ENST00000404397	protein_coding	PUTATIVE	None	29532	147	48	30454403	30546596	1	None	None
2	LBH	ENSG00000213626	ENST00000401506	protein_coding	PUTATIVE	None	29532	336	111	30455019	30480626	1	None	None
2	LBH	ENSG00000213626	ENST00000467242	processed_transcript	KNOWN	None	29532	None	None	30455023	30480906	1	None	None
2	LBH	ENSG00000213626	ENST00000407930	protein_coding	PUTATIVE	None	29532	267	88	30455046	30480536	1	None	None
2	LBH	ENSG00000213626	ENST00000484150	processed_transcript	KNOWN	None	29532	None	None	30457132	30480566	1	None	None
7	CICP24	ENSG00000271466	ENST00000605464	processed_pseudogene	KNOWN	None	48831	None	None	63228635	63231425	-1	None	None
11	RPL29P23	ENSG00000241950	ENST00000486188	processed_pseudogene	KNOWN	None	35946	None	None	33211608	33212049	-1	None	None
14	None	ENSG00000258381	ENST00000555346	processed_pseudogene	KNOWN	None	None	None	None	49288563	49288796	1	None	None
5	RN7SKP57	ENSG00000253057	ENST00000517248	misc_RNA	KNOWN	None	45781	None	None	111055466	111055758	-1	None	None
3	None	ENSG00000237186	ENST00000415328	processed_pseudogene	KNOWN	None	None	None	None	57516072	57516694	-1	None	None
19	PPP1R37	ENSG00000104866	ENST00000593240	processed_transcript	PUTATIVE	None	27607	None	None	45594654	45596414	1	LRRC68	None
19	PPP1R37	ENSG00000104866	ENST00000542809	processed_transcript	PUTATIVE	None	27607	None	None	45595050	45596529	1	LRRC68	None
19	PPP1R37	ENSG00000104866	ENST00000221462	protein_coding	KNOWN	CCDS56096	27607	2076	691	45596220	45650543	1	LRRC68	None
19	PPP1R37	ENSG00000104866	ENST00000544069	protein_coding	NOVEL	None	27607	560	185	45596432	45645455	1	LRRC68	None
19	PPP1R37	ENSG00000104866	ENST00000496125	processed_transcript	PUTATIVE	None	27607	None	None	45596463	45612176	1	LRRC68	None
19	PPP1R37	ENSG00000104866	ENST00000544897	processed_transcript	KNOWN	None	27607	None	None	45603322	45644644	1	LRRC68	None
19	PPP1R37	ENSG00000104866	ENST00000545910	processed_transcript	KNOWN	None	27607	None	None	45641834	45644644	1	LRRC68	None
19	PPP1R37	ENSG00000104866	ENST00000422370	retained_intron	KNOWN	None	27607	None	None	45644676	45651335	1	LRRC68	None
19	PPP1R37	ENSG00000104866	ENST00000540059	retained_intron	KNOWN	None	27607	None	None	45648390	45650538	1	LRRC68	None
19	PPP1R37	ENSG00000104866	ENST00000421905	protein_coding	KNOWN	None	27607	2064	687	45596218	45649730	1	LRRC68	None
HSCHR6_MHC_QBL	None	ENSG00000257892	ENST00000550092	pseudogene	NOVEL	None	None	None	None	30455663	30456253	1	None	None
5	HMGN1P14	ENSG00000249439	ENST00000412459	processed_pseudogene	KNOWN	None	39358	None	None	111181747	111182263	-1	None	None
9	PLIN2	ENSG00000147872	ENST00000464326	processed_transcript	KNOWN	None	248	None	None	19108373	19118444	-1	ADFP	ADRP
9	PLIN2	ENSG00000147872	ENST00000276914	protein_coding	KNOWN	CCDS6490	248	1314	437	19115768	19127574	-1	ADFP	ADRP
9	PLIN2	ENSG00000147872	ENST00000434144	protein_coding	KNOWN	None	248	375	124	19121098	19149276	-1	ADFP	ADRP
9	PLIN2	ENSG00000147872	ENST00000380465	protein_coding	KNOWN	None	248	381	126	19123233	19127474	-1	ADFP	ADRP
9	PLIN2	ENSG00000147872	ENST00000380464	protein_coding	KNOWN	None	248	333	110	19123311	19127488	-1	ADFP	ADRP
9	PLIN2	ENSG00000147872	ENST00000475923	processed_transcript	KNOWN	None	248	None	None	19125504	19127473	-1	ADFP	ADRP
9	PLIN2	ENSG00000147872	ENST00000472715	processed_transcript	KNOWN	None	248	None	None	19125631	19127488	-1	ADFP	ADRP
9	PLIN2	ENSG00000147872	ENST00000494753	processed_transcript	KNOWN	None	248	None	None	19129735	19149288	-1	ADFP	ADRP
9	PLIN2	ENSG00000147872	ENST00000411567	protein_coding	KNOWN	None	248	1071	356	19115760	19127573	-1	ADFP	ADRP
X	None	ENSG00000236091	ENST00000441841	lincRNA	KNOWN	None	None	None	None	134083579	134087412	1	None	None
3	MYD88	ENSG00000172936	ENST00000396334	protein_coding	KNOWN	CCDS2674	7562	930	309	38179969	38184513	1	None	None
3	MYD88	ENSG00000172936	ENST00000424893	protein_coding	NOVEL	CCDS54567	7562	795	264	38180043	38183151	1	None	None
3	MYD88	ENSG00000172936	ENST00000416282	retained_intron	KNOWN	None	7562	None	None	38180142	38184513	1	None	None
3	MYD88	ENSG00000172936	ENST00000460295	retained_intron	KNOWN	None	7562	None	None	38180148	38182070	1	None	None
3	MYD88	ENSG00000172936	ENST00000495303	protein_coding	NOVEL	CCDS54568	7562	480	159	38180148	38183134	1	None	None
3	MYD88	ENSG00000172936	ENST00000443433	protein_coding	NOVEL	CCDS54566	7562	615	204	38180152	38182941	1	None	None
3	MYD88	ENSG00000172936	ENST00000421516	protein_coding	NOVEL	None	7562	951	316	38180156	38184513	1	None	None
3	MYD88	ENSG00000172936	ENST00000481122	processed_transcript	KNOWN	None	7562	None	None	38180643	38182805	1	None	None
3	MYD88	ENSG00000172936	ENST00000484513	retained_intron	KNOWN	None	7562	None	None	38180914	38184510	1	None	None
3	MYD88	ENSG00000172936	ENST00000463956	processed_transcript	KNOWN	None	7562	None	None	38181231	38182756	1	None	None
3	MYD88	ENSG00000172936	ENST00000417037	protein_coding	KNOWN	CCDS54565	7562	954	317	38179969	38184510	1	None	None
12	EEF1A1P16	ENSG00000213235	ENST00000325349	processed_pseudogene	KNOWN	None	37889	None	None	17143604	17145017	1	None	None
3	MTND4P16	ENSG00000241787	ENST00000466108	unprocessed_pseudogene	KNOWN	None	42203	None	None	106613199	106614565	-1	None	None
3	FAM96AP1	ENSG00000234048	ENST00000430879	processed_pseudogene	KNOWN	None	43861	None	None	28469454	28469935	-1	None	None
7	None	ENSG00000227397	ENST00000440057	processed_pseudogene	KNOWN	None	None	None	None	63250287	63250476	1	None	None
2	RNU4-48P	ENSG00000202429	ENST00000365559	snRNA	KNOWN	None	46984	None	None	128229810	128229991	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000258299	ENST00000548466	pseudogene	NOVEL	None	None	None	None	30461218	30461339	-1	None	None
12	TSPAN9-IT1	ENSG00000256197	ENST00000539784	sense_intronic	KNOWN	None	41462	None	None	3258963	3260642	1	None	None
16	None	ENSG00000223931	ENST00000426099	protein_coding	NOVEL	None	None	291	96	32063311	32063601	1	None	None
2	RNY4P7	ENSG00000201470	ENST00000364600	misc_RNA	KNOWN	None	34056	None	None	128556477	128556572	-1	None	None
11	OR7E4P	ENSG00000255261	ENST00000530317	processed_pseudogene	KNOWN	None	8424	None	None	71331066	71332078	1	OR7F4P	OR11-11a
14	None	ENSG00000251824	ENST00000516015	snoRNA	NOVEL	None	None	None	None	49410650	49410717	-1	None	None
7	None	ENSG00000236574	ENST00000418558	processed_pseudogene	KNOWN	None	None	None	None	63303692	63303883	1	None	None
11	None	ENSG00000200485	ENST00000363615	misc_RNA	NOVEL	None	None	None	None	33218093	33218183	-1	None	None
3	RNU6-108P	ENSG00000202428	ENST00000365558	snRNA	KNOWN	None	47071	None	None	57521979	57522085	-1	None	None
5	NREP-AS1	ENSG00000250095	ENST00000507222	antisense	KNOWN	None	40780	None	None	111248205	111353003	1	None	None
5	NREP-AS1	ENSG00000250095	ENST00000508389	antisense	KNOWN	None	40780	None	None	111275750	111284685	1	None	None
5	NREP-AS1	ENSG00000250095	ENST00000503242	antisense	KNOWN	None	40780	None	None	111305149	111353006	1	None	None
2	None	ENSG00000200390	ENST00000363520	misc_RNA	NOVEL	None	None	None	None	128587321	128587426	-1	None	None
HSCHR6_MHC_QBL	None	ENSG00000257980	ENST00000549174	pseudogene	NOVEL	None	None	None	None	30468711	30468795	-1	None	None
16	IGHV3OR16-9	ENSG00000270472	ENST00000354689	IG_V_gene	KNOWN	None	5644	294	97	32077386	32077679	1	None	IGHV3/OR16-9
7	None	ENSG00000252557	ENST00000516748	snoRNA	NOVEL	None	None	None	None	148983533	148983604	-1	None	None
21	None	ENSG00000228235	ENST00000429512	lincRNA	KNOWN	None	None	None	None	47472510	47473019	1	None	None
3	RNU6-483P	ENSG00000206815	ENST00000384088	snRNA	KNOWN	None	47446	None	None	57534565	57534672	1	None	None
8	None	ENSG00000253384	ENST00000517431	processed_pseudogene	KNOWN	None	None	None	None	17946078	17947196	-1	None	None
2	None	ENSG00000270081	ENST00000602909	lincRNA	KNOWN	None	None	None	None	128601127	128603261	-1	None	None
14	None	ENSG00000258868	ENST00000557062	lincRNA	KNOWN	None	None	None	None	49524431	49544223	-1	None	None
HSCHR6_MHC_QBL	None	ENSG00000257937	ENST00000550741	pseudogene	NOVEL	None	None	None	None	30469811	30469898	-1	None	None
20	None	ENSG00000225785	ENST00000414598	lincRNA	KNOWN	None	None	None	None	51068003	51072158	-1	None	None
6	None	ENSG00000262179	ENST00000573382	lincRNA	KNOWN	None	None	None	None	44184676	44185973	1	None	None
6	None	ENSG00000262179	ENST00000576476	lincRNA	KNOWN	None	None	None	None	44184699	44185835	1	None	None
11	None	ENSG00000241255	ENST00000473603	processed_pseudogene	KNOWN	None	None	None	None	33258554	33258955	1	None	None
11	None	ENSG00000270929	ENST00000603021	processed_pseudogene	KNOWN	None	None	None	None	59665658	59666606	1	None	None
7	None	ENSG00000225451	ENST00000428146	processed_pseudogene	KNOWN	None	None	None	None	63336719	63337728	1	None	None
1	CICP7	ENSG00000233653	ENST00000432723	processed_pseudogene	KNOWN	None	37756	None	None	329431	332236	-1	None	None
2	RNU6-395P	ENSG00000202532	ENST00000365662	snRNA	KNOWN	None	47358	None	None	128602810	128602915	1	None	None
21	None	ENSG00000226115	ENST00000435738	lincRNA	KNOWN	None	None	None	None	47476430	47477481	1	None	None
3	SLC9C1	ENSG00000172139	ENST00000305815	protein_coding	KNOWN	CCDS33817	31401	3534	1177	111859734	112013105	-1	SLC9A10	NHE
3	SLC9C1	ENSG00000172139	ENST00000487372	protein_coding	KNOWN	None	31401	3390	1129	111859752	112013074	-1	SLC9A10	NHE
3	SLC9C1	ENSG00000172139	ENST00000471295	nonsense_mediated_decay	KNOWN	None	31401	726	241	111860063	112005726	-1	SLC9A10	NHE
3	SLC9C1	ENSG00000172139	ENST00000486574	protein_coding	PUTATIVE	None	31401	255	84	111996552	112013074	-1	SLC9A10	NHE
3	SLC9C1	ENSG00000172139	ENST00000467397	processed_transcript	KNOWN	None	31401	None	None	111997615	112013063	-1	SLC9A10	NHE
19	None	ENSG00000268027	ENST00000595649	lincRNA	KNOWN	None	None	None	None	42051554	42061621	1	None	None
19	None	ENSG00000268027	ENST00000601116	lincRNA	KNOWN	None	None	None	None	42055888	42057073	1	None	None
19	None	ENSG00000268027	ENST00000595395	lincRNA	KNOWN	None	None	None	None	42055888	42061832	1	None	None
X	HMGB3P31	ENSG00000231929	ENST00000413333	processed_pseudogene	KNOWN	None	39334	None	None	134095741	134096335	-1	None	None
HSCHR6_MHC_QBL	None	ENSG00000236934	ENST00000450556	processed_transcript	PUTATIVE	None	None	None	None	30473552	30476506	1	None	None
3	None	ENSG00000272146	ENST00000606192	antisense	KNOWN	None	None	None	None	57583442	57586647	1	None	None
3	None	ENSG00000272146	ENST00000607297	antisense	KNOWN	None	None	None	None	57583516	57586643	1	None	None
3	None	ENSG00000272146	ENST00000607782	antisense	KNOWN	None	None	None	None	57583523	57586654	1	None	None
2	None	ENSG00000244563	ENST00000442758	processed_pseudogene	KNOWN	None	None	None	None	128604310	128604658	-1	None	None
3	None	ENSG00000230480	ENST00000436725	processed_pseudogene	KNOWN	None	None	None	None	28489216	28489564	1	None	None
21	PSMA6P3	ENSG00000233767	ENST00000428242	processed_pseudogene	KNOWN	None	39608	None	None	47491999	47492162	-1	None	None
6	None	ENSG00000217495	ENST00000404020	processed_pseudogene	KNOWN	None	None	None	None	143619907	143620691	-1	None	None
HSCHR6_MHC_QBL	None	ENSG00000257324	ENST00000551292	pseudogene	NOVEL	None	None	None	None	30487773	30488859	1	None	None
7	None	ENSG00000236299	ENST00000433918	lincRNA	KNOWN	None	None	None	None	63348578	63359219	-1	None	None
7	None	ENSG00000236299	ENST00000587736	lincRNA	KNOWN	None	None	None	None	63348578	63359705	-1	None	None
7	None	ENSG00000236299	ENST00000596855	lincRNA	KNOWN	None	None	None	None	63348603	63353856	-1	None	None
7	None	ENSG00000236299	ENST00000594855	lincRNA	KNOWN	None	None	None	None	63348603	63359287	-1	None	None
7	None	ENSG00000236299	ENST00000587704	lincRNA	KNOWN	None	None	None	None	63348603	63361113	-1	None	None
7	None	ENSG00000236299	ENST00000593670	lincRNA	KNOWN	None	None	None	None	63348694	63360168	-1	None	None
7	None	ENSG00000236299	ENST00000596569	lincRNA	KNOWN	None	None	None	None	63359204	63360181	-1	None	None
7	None	ENSG00000236299	ENST00000600182	lincRNA	KNOWN	None	None	None	None	63359257	63361113	-1	None	None
7	None	ENSG00000236299	ENST00000594887	lincRNA	KNOWN	None	None	None	None	63359257	63361113	-1	None	None
7	None	ENSG00000226744	ENST00000429197	processed_pseudogene	KNOWN	None	None	None	None	97499479	97499601	1	None	None
12	None	ENSG00000227081	ENST00000495392	processed_pseudogene	KNOWN	None	None	None	None	3320829	3321083	-1	None	None
12	None	ENSG00000227081	ENST00000536809	processed_pseudogene	KNOWN	None	None	None	None	3320775	3321096	-1	None	None
3	None	ENSG00000261146	ENST00000566529	lincRNA	KNOWN	None	None	None	None	137510815	137515520	1	None	None
15	None	ENSG00000270301	ENST00000603069	processed_pseudogene	KNOWN	None	None	None	None	29103028	29103544	-1	None	None
12	RNU6-837P	ENSG00000212358	ENST00000391056	snRNA	KNOWN	None	47800	None	None	17224332	17224439	-1	None	None
21	None	ENSG00000227438	ENST00000454245	antisense	KNOWN	None	None	None	None	47513178	47517444	-1	None	None
7	None	ENSG00000235982	ENST00000413484	processed_pseudogene	KNOWN	None	None	None	None	97512594	97513107	1	None	None
Y	PCDH11Y	ENSG00000099715	ENST00000333703	protein_coding	KNOWN	CCDS14776	15813	3114	1037	4868267	4973485	1	PCDH22	PCDHY
Y	PCDH11Y	ENSG00000099715	ENST00000362095	protein_coding	KNOWN	CCDS14777	15813	3147	1048	4924131	4972741	1	PCDH22	PCDHY
Y	PCDH11Y	ENSG00000099715	ENST00000400457	protein_coding	KNOWN	None	15813	3958	1318	4924930	5610265	1	PCDH22	PCDHY
Y	PCDH11Y	ENSG00000099715	ENST00000215473	protein_coding	KNOWN	None	15813	4023	1340	4924865	5605983	1	PCDH22	PCDHY
8	None	ENSG00000254015	ENST00000518144	processed_pseudogene	KNOWN	None	None	None	None	18058433	18058714	-1	None	None
12	None	ENSG00000256314	ENST00000545821	antisense	KNOWN	None	None	None	None	65047840	65048799	-1	None	None
11	None	ENSG00000255393	ENST00000534388	lincRNA	KNOWN	None	None	None	None	59792381	59798550	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000257251	ENST00000552727	pseudogene	NOVEL	None	None	None	None	30490178	30490302	1	None	None
5	EPB41L4A-AS1	ENSG00000224032	ENST00000413221	lincRNA	KNOWN	None	30749	None	None	111496223	111499973	1	C5orf26, NCRNA00219	TIGA1
5	EPB41L4A-AS1	ENSG00000224032	ENST00000427306	lincRNA	KNOWN	None	30749	None	None	111496226	111497999	1	C5orf26, NCRNA00219	TIGA1
5	EPB41L4A-AS1	ENSG00000224032	ENST00000442823	lincRNA	KNOWN	None	30749	None	None	111496589	111498021	1	C5orf26, NCRNA00219	TIGA1
5	EPB41L4A-AS1	ENSG00000224032	ENST00000508590	lincRNA	KNOWN	None	30749	None	None	111496631	111498008	1	C5orf26, NCRNA00219	TIGA1
21	FTCD-AS1	ENSG00000237338	ENST00000446649	antisense	KNOWN	None	40243	None	None	47571528	47572561	1	None	None
6	DUSP22	ENSG00000112679	ENST00000603296	protein_coding	PUTATIVE	None	16077	226	74	291630	348194	1	None	MKPX, JSP1, JKAP, VHX
6	DUSP22	ENSG00000112679	ENST00000344450	protein_coding	KNOWN	CCDS4468	16077	555	184	292097	351355	1	None	MKPX, JSP1, JKAP, VHX
6	DUSP22	ENSG00000112679	ENST00000603453	protein_coding	PUTATIVE	None	16077	309	102	292274	348954	1	None	MKPX, JSP1, JKAP, VHX
6	DUSP22	ENSG00000112679	ENST00000605315	protein_coding	PUTATIVE	None	16077	309	102	292275	349102	1	None	MKPX, JSP1, JKAP, VHX
6	DUSP22	ENSG00000112679	ENST00000603881	protein_coding	PUTATIVE	None	16077	56	17	292384	348232	1	None	MKPX, JSP1, JKAP, VHX
6	DUSP22	ENSG00000112679	ENST00000603795	nonsense_mediated_decay	KNOWN	None	16077	165	54	292462	349471	1	None	MKPX, JSP1, JKAP, VHX
6	DUSP22	ENSG00000112679	ENST00000419235	protein_coding	KNOWN	None	16077	618	205	292462	351353	1	None	MKPX, JSP1, JKAP, VHX
6	DUSP22	ENSG00000112679	ENST00000605035	protein_coding	PUTATIVE	None	16077	141	46	292477	349057	1	None	MKPX, JSP1, JKAP, VHX
6	DUSP22	ENSG00000112679	ENST00000605863	protein_coding	PUTATIVE	None	16077	141	46	292479	348496	1	None	MKPX, JSP1, JKAP, VHX
6	DUSP22	ENSG00000112679	ENST00000603005	processed_transcript	KNOWN	None	16077	None	None	292520	348269	1	None	MKPX, JSP1, JKAP, VHX
6	DUSP22	ENSG00000112679	ENST00000603726	nonsense_mediated_decay	KNOWN	None	16077	165	54	292540	350950	1	None	MKPX, JSP1, JKAP, VHX
6	DUSP22	ENSG00000112679	ENST00000603290	processed_transcript	KNOWN	None	16077	None	None	319926	345912	1	None	MKPX, JSP1, JKAP, VHX
6	DUSP22	ENSG00000112679	ENST00000605391	processed_transcript	KNOWN	None	16077	None	None	319952	348161	1	None	MKPX, JSP1, JKAP, VHX
6	DUSP22	ENSG00000112679	ENST00000604971	protein_coding	NOVEL	None	16077	309	102	325167	351353	1	None	MKPX, JSP1, JKAP, VHX
6	DUSP22	ENSG00000112679	ENST00000604914	processed_transcript	KNOWN	None	16077	None	None	337039	348908	1	None	MKPX, JSP1, JKAP, VHX
6	DUSP22	ENSG00000112679	ENST00000604988	processed_transcript	KNOWN	None	16077	None	None	338006	350928	1	None	MKPX, JSP1, JKAP, VHX
22	None	ENSG00000242082	ENST00000434942	processed_transcript	KNOWN	None	None	None	None	32601102	32665653	1	None	None
7	None	ENSG00000231812	ENST00000417250	processed_pseudogene	KNOWN	None	None	None	None	97515180	97515386	1	None	None
7	None	ENSG00000231397	ENST00000427009	processed_pseudogene	KNOWN	None	None	None	None	149018956	149019183	-1	None	None
1	TSTD1	ENSG00000215845	ENST00000462952	retained_intron	KNOWN	None	35410	None	None	161007421	161008097	-1	None	KAT
1	TSTD1	ENSG00000215845	ENST00000318289	protein_coding	KNOWN	CCDS44258	35410	330	109	161007421	161008727	-1	None	KAT
1	TSTD1	ENSG00000215845	ENST00000368023	protein_coding	KNOWN	None	35410	369	122	161007421	161008740	-1	None	KAT
1	TSTD1	ENSG00000215845	ENST00000368024	protein_coding	KNOWN	CCDS44257	35410	225	74	161007421	161008767	-1	None	KAT
1	TSTD1	ENSG00000215845	ENST00000423014	protein_coding	KNOWN	CCDS53400	35410	348	115	161007421	161008780	-1	None	KAT
1	TSTD1	ENSG00000215845	ENST00000466967	protein_coding	PUTATIVE	None	35410	189	62	161007482	161008519	-1	None	KAT
1	TSTD1	ENSG00000215845	ENST00000486084	retained_intron	KNOWN	None	35410	None	None	161007688	161008706	-1	None	KAT
3	HSPA8P9	ENSG00000241478	ENST00000485881	processed_pseudogene	KNOWN	None	44924	None	None	137599137	137601079	1	None	None
14	None	ENSG00000258401	ENST00000554200	processed_pseudogene	KNOWN	None	None	None	None	49840684	49841101	1	None	None
5	CDO1	ENSG00000129596	ENST00000250535	protein_coding	KNOWN	CCDS4121	1795	603	200	115140430	115152651	-1	None	None
5	CDO1	ENSG00000129596	ENST00000502631	processed_transcript	KNOWN	None	1795	None	None	115140961	115152354	-1	None	None
5	CDO1	ENSG00000129596	ENST00000504877	processed_transcript	PUTATIVE	None	1795	None	None	115148879	115150178	-1	None	None
5	CDO1	ENSG00000129596	ENST00000504613	processed_transcript	PUTATIVE	None	1795	None	None	115148886	115152354	-1	None	None
20	None	ENSG00000232465	ENST00000416237	lincRNA	KNOWN	None	None	None	None	51104461	51117130	-1	None	None
HSCHR6_MHC_QBL	None	ENSG00000257618	ENST00000550054	pseudogene	NOVEL	None	None	None	None	30495959	30496179	1	None	None
7	RPS3AP29	ENSG00000237818	ENST00000437728	processed_pseudogene	KNOWN	None	35531	None	None	97527659	97528427	-1	None	None
6	STK38	ENSG00000112079	ENST00000229812	protein_coding	KNOWN	CCDS4822	17847	1398	465	36461669	36515247	-1	None	NDR
12	None	ENSG00000215159	ENST00000434563	antisense	KNOWN	None	None	None	None	65153301	65173098	1	None	None
21	None	ENSG00000228404	ENST00000415026	antisense	KNOWN	None	None	None	None	47604993	47608855	1	None	None
8	AACP	ENSG00000253937	ENST00000523491	unprocessed_pseudogene	KNOWN	None	15	None	None	18228116	18228993	1	AACP	NATP1
12	None	ENSG00000242991	ENST00000481703	processed_pseudogene	KNOWN	None	None	None	None	17274650	17275394	1	None	None
7	None	ENSG00000221048	ENST00000408121	miRNA	NOVEL	None	None	None	None	97535284	97535431	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000257854	ENST00000547143	pseudogene	NOVEL	None	None	None	None	30506291	30506412	1	None	None
3	KRT8P36	ENSG00000240668	ENST00000489121	processed_pseudogene	KNOWN	None	39870	None	None	137820320	137821759	-1	None	None
7	None	ENSG00000231859	ENST00000441505	processed_pseudogene	KNOWN	None	None	None	None	97535741	97536134	1	None	None
22	CPSF1P1	ENSG00000214076	ENST00000397477	processed_pseudogene	KNOWN	None	19251	None	None	32665368	32669097	1	None	dJ90G24.5
3	LINC00693	ENSG00000228214	ENST00000432518	antisense	KNOWN	None	44526	None	None	28616282	28799831	1	None	None
3	LINC00693	ENSG00000228214	ENST00000443912	antisense	KNOWN	None	44526	None	None	28617902	28799028	1	None	None
3	LINC00693	ENSG00000228214	ENST00000445077	antisense	KNOWN	None	44526	None	None	28617919	28799086	1	None	None
1	None	ENSG00000224813	ENST00000445840	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	334126	334305	1	None	None
21	None	ENSG00000223901	ENST00000418029	antisense	KNOWN	None	None	None	None	47640183	47641992	1	None	None
15	None	ENSG00000259277	ENST00000560531	antisense	KNOWN	None	None	None	None	29262399	29269667	-1	None	None
2	PROM2	ENSG00000155066	ENST00000403131	protein_coding	KNOWN	CCDS2012	20685	2505	834	95940201	95957054	1	None	None
2	PROM2	ENSG00000155066	ENST00000317668	protein_coding	KNOWN	CCDS2012	20685	2505	834	95940201	95957056	1	None	None
2	PROM2	ENSG00000155066	ENST00000487138	retained_intron	KNOWN	None	20685	None	None	95940221	95957015	1	None	None
2	PROM2	ENSG00000155066	ENST00000463580	processed_transcript	KNOWN	None	20685	None	None	95940240	95943744	1	None	None
2	PROM2	ENSG00000155066	ENST00000431567	nonsense_mediated_decay	KNOWN	None	20685	510	169	95940249	95957056	1	None	None
2	PROM2	ENSG00000155066	ENST00000477767	processed_transcript	KNOWN	None	20685	None	None	95940727	95941840	1	None	None
2	PROM2	ENSG00000155066	ENST00000478295	retained_intron	KNOWN	None	20685	None	None	95943564	95945687	1	None	None
2	PROM2	ENSG00000155066	ENST00000497110	processed_transcript	KNOWN	None	20685	None	None	95945614	95952287	1	None	None
2	PROM2	ENSG00000155066	ENST00000495540	processed_transcript	PUTATIVE	None	20685	None	None	95954255	95955123	1	None	None
2	PROM2	ENSG00000155066	ENST00000462029	processed_transcript	PUTATIVE	None	20685	None	None	95954263	95955396	1	None	None
2	PROM2	ENSG00000155066	ENST00000317620	protein_coding	KNOWN	CCDS2012	20685	2505	834	95940201	95957051	1	None	None
2	PROM2	ENSG00000155066	ENST00000542147	protein_coding	KNOWN	None	20685	2358	785	95940245	95956061	1	None	None
7	None	ENSG00000232032	ENST00000446424	processed_pseudogene	KNOWN	None	None	None	None	97537568	97537736	1	None	None
17	AMZ2	ENSG00000196704	ENST00000359904	protein_coding	KNOWN	CCDS11674	28041	1083	360	66243715	66253297	1	None	None
17	AMZ2	ENSG00000196704	ENST00000580548	protein_coding	KNOWN	None	28041	586	194	66244071	66247319	1	None	None
17	AMZ2	ENSG00000196704	ENST00000580753	protein_coding	KNOWN	CCDS11674	28041	1083	360	66244176	66253280	1	None	None
17	AMZ2	ENSG00000196704	ENST00000392720	protein_coding	KNOWN	CCDS11674	28041	1083	360	66244184	66253295	1	None	None
17	AMZ2	ENSG00000196704	ENST00000359783	protein_coding	KNOWN	CCDS32714	28041	909	302	66244192	66253268	1	None	None
17	AMZ2	ENSG00000196704	ENST00000584837	protein_coding	PUTATIVE	None	28041	665	220	66244199	66250707	1	None	None
17	AMZ2	ENSG00000196704	ENST00000578175	retained_intron	KNOWN	None	28041	None	None	66244211	66253294	1	None	None
17	AMZ2	ENSG00000196704	ENST00000579724	protein_coding	KNOWN	None	28041	620	205	66244216	66250578	1	None	None
17	AMZ2	ENSG00000196704	ENST00000584494	protein_coding	KNOWN	None	28041	745	247	66244218	66250703	1	None	None
17	AMZ2	ENSG00000196704	ENST00000580837	protein_coding	KNOWN	None	28041	591	196	66244243	66250549	1	None	None
17	AMZ2	ENSG00000196704	ENST00000577866	protein_coding	KNOWN	CCDS11674	28041	1083	360	66244645	66253231	1	None	None
17	AMZ2	ENSG00000196704	ENST00000585050	processed_transcript	KNOWN	None	28041	None	None	66244676	66253067	1	None	None
17	AMZ2	ENSG00000196704	ENST00000582430	processed_transcript	KNOWN	None	28041	None	None	66245152	66247206	1	None	None
17	AMZ2	ENSG00000196704	ENST00000577985	protein_coding	KNOWN	CCDS11674	28041	1083	360	66245341	66253296	1	None	None
17	AMZ2	ENSG00000196704	ENST00000577273	protein_coding	PUTATIVE	None	28041	606	201	66246328	66253262	1	None	None
17	AMZ2	ENSG00000196704	ENST00000584836	nonsense_mediated_decay	KNOWN	None	28041	229	75	66246424	66251958	1	None	None
17	AMZ2	ENSG00000196704	ENST00000584350	nonsense_mediated_decay	KNOWN	None	28041	72	23	66246587	66253294	1	None	None
17	AMZ2	ENSG00000196704	ENST00000581779	processed_transcript	KNOWN	None	28041	None	None	66247427	66253296	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000263700	ENST00000577884	miRNA	KNOWN	None	None	None	None	30541620	30541705	1	None	None
6	None	ENSG00000216642	ENST00000403591	processed_pseudogene	KNOWN	None	None	None	None	143648412	143648792	1	None	None
11	None	ENSG00000255331	ENST00000528891	processed_pseudogene	KNOWN	None	None	None	None	59844823	59845874	1	None	None
14	RNA5SP384	ENSG00000252424	ENST00000516615	rRNA	KNOWN	None	43284	None	None	50019351	50019466	1	RN5S384	None
7	None	ENSG00000232097	ENST00000449110	processed_pseudogene	KNOWN	None	None	None	None	97567751	97568106	-1	None	None
HG75_PATCH	None	ENSG00000259795	ENST00000563420	protein_coding	PUTATIVE	None	None	876	291	34581015	34591890	-1	None	None
HG75_PATCH	None	ENSG00000259795	ENST00000564188	protein_coding	KNOWN	None	None	1650	549	34581018	34591935	-1	None	None
15	None	ENSG00000259372	ENST00000558086	lincRNA	KNOWN	None	None	None	None	81702858	81703608	1	None	None
15	None	ENSG00000259372	ENST00000559698	lincRNA	KNOWN	None	None	None	None	81702946	81711358	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000266361	ENST00000582750	miRNA	KNOWN	None	None	None	None	30573516	30573592	-1	None	None
12	None	ENSG00000238592	ENST00000458789	snoRNA	NOVEL	None	None	None	None	65154648	65154753	-1	None	None
X	NCLP2	ENSG00000234228	ENST00000416078	processed_pseudogene	KNOWN	None	35473	None	None	134209166	134210627	-1	None	bA85L21.1
HSCHR6_MHC_QBL	PTMAP1	ENSG00000235757	ENST00000442851	processed_pseudogene	KNOWN	None	9624	None	None	30590916	30591185	1	None	Em:AB023049.6
HSCHR6_MHC_QBL	PTMAP1	ENSG00000235757	ENST00000547434	pseudogene	KNOWN	None	9624	None	None	30590919	30591163	1	None	Em:AB023049.6
12	None	ENSG00000243020	ENST00000481157	processed_pseudogene	KNOWN	None	None	None	None	65261736	65262479	-1	None	None
20	MRPS33P4	ENSG00000234821	ENST00000434892	processed_pseudogene	KNOWN	None	29767	None	None	51127791	51128107	1	None	None
5	None	ENSG00000254130	ENST00000523742	lincRNA	KNOWN	None	None	None	None	166332227	166353375	-1	None	None
15	None	ENSG00000259543	ENST00000559211	lincRNA	KNOWN	None	None	None	None	81719789	82047558	1	None	None
21	MCM3AP-AS1	ENSG00000215424	ENST00000590829	antisense	KNOWN	None	16417	None	None	47649131	47679304	1	C21orf85, MCM3APAS, MCM3AP-AS	FLJ10508, NCRNA00031
21	MCM3AP-AS1	ENSG00000215424	ENST00000591223	antisense	KNOWN	None	16417	None	None	47649139	47663664	1	C21orf85, MCM3APAS, MCM3AP-AS	FLJ10508, NCRNA00031
21	MCM3AP-AS1	ENSG00000215424	ENST00000414659	antisense	KNOWN	None	16417	None	None	47649145	47671615	1	C21orf85, MCM3APAS, MCM3AP-AS	FLJ10508, NCRNA00031
21	MCM3AP-AS1	ENSG00000215424	ENST00000432735	antisense	KNOWN	None	16417	None	None	47649148	47662913	1	C21orf85, MCM3APAS, MCM3AP-AS	FLJ10508, NCRNA00031
21	MCM3AP-AS1	ENSG00000215424	ENST00000444998	antisense	KNOWN	None	16417	None	None	47649154	47662913	1	C21orf85, MCM3APAS, MCM3AP-AS	FLJ10508, NCRNA00031
21	MCM3AP-AS1	ENSG00000215424	ENST00000455567	antisense	KNOWN	None	16417	None	None	47649158	47671615	1	C21orf85, MCM3APAS, MCM3AP-AS	FLJ10508, NCRNA00031
21	MCM3AP-AS1	ENSG00000215424	ENST00000421927	antisense	KNOWN	None	16417	None	None	47649161	47662913	1	C21orf85, MCM3APAS, MCM3AP-AS	FLJ10508, NCRNA00031
21	MCM3AP-AS1	ENSG00000215424	ENST00000588753	antisense	KNOWN	None	16417	None	None	47649187	47664779	1	C21orf85, MCM3APAS, MCM3AP-AS	FLJ10508, NCRNA00031
21	MCM3AP-AS1	ENSG00000215424	ENST00000420074	antisense	KNOWN	None	16417	None	None	47649438	47655367	1	C21orf85, MCM3APAS, MCM3AP-AS	FLJ10508, NCRNA00031
7	PMPCB	ENSG00000105819	ENST00000249269	protein_coding	KNOWN	CCDS5730	9119	1470	489	102937869	102953682	1	None	MPPB, MPPP52
7	PMPCB	ENSG00000105819	ENST00000428154	protein_coding	NOVEL	None	9119	1473	490	102937882	102952862	1	None	MPPB, MPPP52
7	PMPCB	ENSG00000105819	ENST00000456433	nonsense_mediated_decay	KNOWN	None	9119	609	202	102937900	102950922	1	None	MPPB, MPPP52
7	PMPCB	ENSG00000105819	ENST00000443722	nonsense_mediated_decay	KNOWN	None	9119	369	122	102937901	102952812	1	None	MPPB, MPPP52
7	PMPCB	ENSG00000105819	ENST00000498530	retained_intron	KNOWN	None	9119	None	None	102937903	102949706	1	None	MPPB, MPPP52
7	PMPCB	ENSG00000105819	ENST00000444457	nonsense_mediated_decay	KNOWN	None	9119	369	122	102937903	102969958	1	None	MPPB, MPPP52
7	PMPCB	ENSG00000105819	ENST00000453466	nonsense_mediated_decay	KNOWN	None	9119	360	119	102937904	102952759	1	None	MPPB, MPPP52
7	PMPCB	ENSG00000105819	ENST00000469560	retained_intron	KNOWN	None	9119	None	None	102951025	102952798	1	None	MPPB, MPPP52
7	PMPCB	ENSG00000105819	ENST00000420236	protein_coding	KNOWN	None	9119	1212	403	102937903	102969958	1	None	MPPB, MPPP52
22	None	ENSG00000224050	ENST00000452181	lincRNA	KNOWN	None	None	None	None	32669407	32673173	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000264807	ENST00000577876	miRNA	NOVEL	None	None	None	None	30605953	30606046	1	None	None
16	None	ENSG00000259807	ENST00000566070	lincRNA	KNOWN	None	None	None	None	29228491	29231352	-1	None	None
3	None	ENSG00000174715	ENST00000491837	processed_pseudogene	KNOWN	None	None	None	None	138362716	138363536	-1	None	None
12	OAS3	ENSG00000111331	ENST00000228928	protein_coding	KNOWN	CCDS44981	8088	3264	1087	113376157	113411054	1	None	None
12	OAS3	ENSG00000111331	ENST00000551007	protein_coding	PUTATIVE	None	8088	534	177	113376249	113380108	1	None	None
12	OAS3	ENSG00000111331	ENST00000548514	protein_coding	PUTATIVE	None	8088	672	223	113376265	113383141	1	None	None
12	OAS3	ENSG00000111331	ENST00000546638	processed_transcript	KNOWN	None	8088	None	None	113376351	113384784	1	None	None
12	OAS3	ENSG00000111331	ENST00000546800	retained_intron	KNOWN	None	8088	None	None	113388378	113399029	1	None	None
12	OAS3	ENSG00000111331	ENST00000546973	protein_coding	PUTATIVE	None	8088	499	165	113402143	113405859	1	None	None
12	OAS3	ENSG00000111331	ENST00000549918	retained_intron	KNOWN	None	8088	None	None	113407137	113408510	1	None	None
12	PSMC1P8	ENSG00000256896	ENST00000536820	processed_pseudogene	KNOWN	None	39783	None	None	17536286	17537581	-1	None	None
19	LYPD3	ENSG00000124466	ENST00000244333	protein_coding	KNOWN	CCDS12620	24880	1041	346	43964939	43969812	-1	None	C4.4A
19	LYPD3	ENSG00000124466	ENST00000597741	retained_intron	KNOWN	None	24880	None	None	43965595	43969758	-1	None	C4.4A
19	LYPD3	ENSG00000124466	ENST00000594326	retained_intron	KNOWN	None	24880	None	None	43965953	43968115	-1	None	C4.4A
19	LYPD3	ENSG00000124466	ENST00000595970	retained_intron	KNOWN	None	24880	None	None	43968157	43969760	-1	None	C4.4A
15	None	ENSG00000259594	ENST00000558141	lincRNA	KNOWN	None	None	None	None	81846344	81989121	1	None	None
15	None	ENSG00000259594	ENST00000558153	lincRNA	KNOWN	None	None	None	None	81944573	81980886	1	None	None
22	None	ENSG00000234626	ENST00000446543	antisense	KNOWN	None	None	None	None	32723158	32739092	-1	None	None
HSCHR6_MHC_QBL	RPL7P4	ENSG00000238255	ENST00000412592	processed_pseudogene	KNOWN	None	21634	None	None	30654118	30654847	-1	None	Em:AB023049.2
1	TNFRSF18	ENSG00000186891	ENST00000328596	protein_coding	KNOWN	CCDS9	11914	768	255	1138888	1141951	-1	None	AITR, GITR, CD357
1	TNFRSF18	ENSG00000186891	ENST00000379268	protein_coding	KNOWN	CCDS10	11914	726	241	1138891	1142071	-1	None	AITR, GITR, CD357
1	TNFRSF18	ENSG00000186891	ENST00000486728	protein_coding	PUTATIVE	None	11914	510	169	1139224	1141060	-1	None	AITR, GITR, CD357
1	TNFRSF18	ENSG00000186891	ENST00000379265	protein_coding	KNOWN	CCDS30552	11914	705	234	1139224	1141951	-1	None	AITR, GITR, CD357
1	WBP1LP7	ENSG00000269732	ENST00000437905	processed_pseudogene	KNOWN	None	43955	None	None	379105	379467	-1	None	None
5	None	ENSG00000253713	ENST00000522292	lincRNA	KNOWN	None	None	None	None	166543323	166546590	-1	None	None
3	RNU6ATAC26P	ENSG00000210841	ENST00000388106	snRNA	KNOWN	None	46925	None	None	57605174	57605299	1	None	None
16	None	ENSG00000196927	ENST00000355407	pseudogene	NOVEL	None	None	None	None	29259550	29261449	1	None	None
HSCHR6_MHC_QBL	MDC1-AS1	ENSG00000227899	ENST00000420050	processed_transcript	KNOWN	None	39764	None	None	30660380	30670495	1	None	None
6	None	ENSG00000217648	ENST00000402907	processed_pseudogene	KNOWN	None	None	None	None	143663383	143664520	1	None	None
15	None	ENSG00000259610	ENST00000559428	lincRNA	KNOWN	None	None	None	None	81926228	81934531	-1	None	None
3	None	ENSG00000239801	ENST00000470427	antisense	KNOWN	None	None	None	None	57614537	57640645	1	None	None
12	None	ENSG00000213470	ENST00000462065	processed_pseudogene	KNOWN	None	None	None	None	54026572	54026935	-1	None	None
12	None	ENSG00000255693	ENST00000535058	lincRNA	KNOWN	None	None	None	None	65277174	65371302	1	None	None
12	None	ENSG00000255693	ENST00000540024	lincRNA	KNOWN	None	None	None	None	65277554	65368391	1	None	None
16	ARHGAP23P1	ENSG00000260781	ENST00000562773	transcribed_unprocessed_pseudogene	KNOWN	None	45039	None	None	33709886	33739491	-1	None	None
16	ARHGAP23P1	ENSG00000260781	ENST00000567025	processed_transcript	KNOWN	None	45039	None	None	33738897	33739634	-1	None	None
5	None	ENSG00000253469	ENST00000518330	lincRNA	KNOWN	None	None	None	None	166591939	166595406	-1	None	None
11	None	ENSG00000223134	ENST00000411202	miRNA	NOVEL	None	None	None	None	33376011	33376091	1	None	None
15	None	ENSG00000259692	ENST00000560054	lincRNA	KNOWN	None	None	None	None	81952823	82090465	-1	None	None
15	None	ENSG00000259692	ENST00000560097	lincRNA	KNOWN	None	None	None	None	81952823	82163466	-1	None	None
6	None	ENSG00000270655	ENST00000604177	processed_pseudogene	KNOWN	None	None	None	None	143707718	143708546	1	None	None
12	None	ENSG00000256756	ENST00000545713	processed_pseudogene	KNOWN	None	None	None	None	17553333	17553848	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000265955	ENST00000585173	misc_RNA	NOVEL	None	None	None	None	30693620	30693730	-1	None	None
7	MGAM	ENSG00000257335	ENST00000465654	protein_coding	KNOWN	None	7043	555	184	141607613	141720880	1	None	MGA
7	MGAM	ENSG00000257335	ENST00000497554	processed_transcript	KNOWN	None	7043	None	None	141607633	141631649	1	None	MGA
7	MGAM	ENSG00000257335	ENST00000549489	protein_coding	KNOWN	CCDS47727	7043	5574	1857	141695638	141806547	1	None	MGA
7	MGAM	ENSG00000257335	ENST00000497673	protein_coding	PUTATIVE	None	7043	429	142	141695679	141719100	1	None	MGA
7	MGAM	ENSG00000257335	ENST00000475668	protein_coding	PUTATIVE	None	7043	8262	2753	141695679	141806547	1	None	MGA
7	MGAM	ENSG00000257335	ENST00000495045	retained_intron	KNOWN	None	7043	None	None	141730027	141731594	1	None	MGA
7	MGAM	ENSG00000257335	ENST00000490593	retained_intron	KNOWN	None	7043	None	None	141738346	141740241	1	None	MGA
7	MGAM	ENSG00000257335	ENST00000485078	retained_intron	KNOWN	None	7043	None	None	141794574	141795810	1	None	MGA
7	NPM1P12	ENSG00000215311	ENST00000423757	processed_pseudogene	KNOWN	None	7914	None	None	149031115	149031948	1	None	None
3	OR7E29P	ENSG00000243429	ENST00000463158	unprocessed_pseudogene	KNOWN	None	8401	None	None	125430983	125431889	1	None	OST032
14	RPL32P29	ENSG00000244270	ENST00000497398	processed_pseudogene	KNOWN	None	35771	None	None	50044110	50044512	-1	None	None
16	None	ENSG00000260953	ENST00000567984	lincRNA	KNOWN	None	None	None	None	29273594	29275800	-1	None	None
11	None	ENSG00000254952	ENST00000533106	lincRNA	KNOWN	None	None	None	None	59927160	59928295	-1	None	None
11	None	ENSG00000254537	ENST00000532231	processed_pseudogene	KNOWN	None	None	None	None	33424762	33425151	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000264688	ENST00000585032	misc_RNA	NOVEL	None	None	None	None	30708329	30708576	1	None	None
6	TUBB8P2	ENSG00000218896	ENST00000402141	processed_pseudogene	KNOWN	None	42334	None	None	143757353	143757847	1	None	None
5	None	ENSG00000254365	ENST00000521697	antisense	KNOWN	None	None	None	None	166714325	166721278	-1	None	None
8	None	ENSG00000244593	ENST00000465163	processed_pseudogene	KNOWN	None	None	None	None	18240784	18241427	-1	None	None
12	None	ENSG00000260492	ENST00000570015	lincRNA	KNOWN	None	None	None	None	54144231	54145619	-1	None	None
14	IGHV3-30-2	ENSG00000253587	ENST00000517460	IG_V_pseudogene	KNOWN	None	5592	None	None	106800319	106800757	-1	None	None
3	None	ENSG00000241933	ENST00000465933	lincRNA	KNOWN	None	None	None	None	57678932	57682323	1	None	None
12	None	ENSG00000250770	ENST00000505276	lincRNA	KNOWN	None	None	None	None	3405368	3409390	-1	None	None
15	None	ENSG00000224677	ENST00000428073	unprocessed_pseudogene	KNOWN	None	None	None	None	43941321	43941478	1	None	None
3	GAPDHP39	ENSG00000239207	ENST00000481866	processed_pseudogene	KNOWN	None	37796	None	None	138496674	138497652	1	None	None
15	None	ENSG00000259299	ENST00000560524	processed_pseudogene	KNOWN	None	None	None	None	29525877	29527341	-1	None	None
6	RNA5SP221	ENSG00000223203	ENST00000411271	rRNA	KNOWN	None	43121	None	None	143770946	143771048	1	RN5S221	None
HSCHR6_MHC_QBL	HCG20	ENSG00000224133	ENST00000437931	processed_transcript	KNOWN	None	31334	None	None	30724117	30749533	1	None	AB023051.1, NCRNA00149
HSCHR6_MHC_QBL	HCG20	ENSG00000224133	ENST00000437173	processed_transcript	KNOWN	None	31334	None	None	30739242	30749533	1	None	AB023051.1, NCRNA00149
2	DNAJC27	ENSG00000115137	ENST00000264711	protein_coding	KNOWN	CCDS1716	30290	822	273	25166505	25194963	-1	RBJ	RabJS
2	DNAJC27	ENSG00000115137	ENST00000380809	nonsense_mediated_decay	KNOWN	None	30290	273	90	25170228	25194931	-1	RBJ	RabJS
2	DNAJC27	ENSG00000115137	ENST00000494239	processed_transcript	PUTATIVE	None	30290	None	None	25174379	25194485	-1	RBJ	RabJS
2	DNAJC27	ENSG00000115137	ENST00000468467	processed_transcript	PUTATIVE	None	30290	None	None	25180689	25194482	-1	RBJ	RabJS
2	DNAJC27	ENSG00000115137	ENST00000468750	processed_transcript	PUTATIVE	None	30290	None	None	25180735	25194485	-1	RBJ	RabJS
2	DNAJC27	ENSG00000115137	ENST00000492985	retained_intron	KNOWN	None	30290	None	None	25185984	25194728	-1	RBJ	RabJS
2	DNAJC27	ENSG00000115137	ENST00000534855	protein_coding	KNOWN	None	30290	609	202	25169866	25194485	-1	RBJ	RabJS
7	None	ENSG00000228151	ENST00000417506	antisense	KNOWN	None	None	None	None	149095295	149098547	1	None	None
HG873_PATCH	CALCP	ENSG00000262196	ENST00000571286	unprocessed_pseudogene	KNOWN	None	1439	None	None	14929064	14929532	1	None	CALC3
22	ZDHHC8	ENSG00000099904	ENST00000436518	protein_coding	PUTATIVE	None	18474	541	179	20116979	20127432	1	None	ZNF378, KIAA1292
22	ZDHHC8	ENSG00000099904	ENST00000334554	protein_coding	KNOWN	CCDS13776	18474	2298	765	20119330	20135530	1	None	ZNF378, KIAA1292
22	ZDHHC8	ENSG00000099904	ENST00000320602	protein_coding	KNOWN	None	18474	2022	673	20119471	20133973	1	None	ZNF378, KIAA1292
22	ZDHHC8	ENSG00000099904	ENST00000405930	protein_coding	KNOWN	CCDS54502	18474	2337	778	20119471	20135529	1	None	ZNF378, KIAA1292
22	ZDHHC8	ENSG00000099904	ENST00000468112	processed_transcript	KNOWN	None	18474	None	None	20119518	20129055	1	None	ZNF378, KIAA1292
22	ZDHHC8	ENSG00000099904	ENST00000469212	retained_intron	KNOWN	None	18474	None	None	20127460	20128849	1	None	ZNF378, KIAA1292
22	ZDHHC8	ENSG00000099904	ENST00000472497	retained_intron	KNOWN	None	18474	None	None	20127928	20130510	1	None	ZNF378, KIAA1292
16	SNX29P2	ENSG00000198106	ENST00000604430	lincRNA	KNOWN	None	31914	None	None	29302541	29383431	1	RUNDC2C	None
16	SNX29P2	ENSG00000198106	ENST00000398878	lincRNA	KNOWN	None	31914	None	None	29262829	29519817	1	RUNDC2C	None
16	SNX29P2	ENSG00000198106	ENST00000356328	lincRNA	KNOWN	None	31914	None	None	29370433	29382543	1	RUNDC2C	None
14	None	ENSG00000259065	ENST00000556194	antisense	KNOWN	None	None	None	None	74254063	74269920	1	None	None
14	None	ENSG00000259065	ENST00000553470	antisense	KNOWN	None	None	None	None	74255668	74269973	1	None	None
14	RN7SL1	ENSG00000258486	ENST00000553637	antisense	KNOWN	None	10038	None	None	50053297	50053596	1	RN7SL	7SL, 7L1a, RNSRP1
14	RN7SL1	ENSG00000258486	ENST00000580625	misc_RNA	KNOWN	None	10038	None	None	50053298	50053594	1	RN7SL	7SL, 7L1a, RNSRP1
3	None	ENSG00000242321	ENST00000487630	processed_pseudogene	KNOWN	None	None	None	None	138515693	138516082	1	None	None
6	None	ENSG00000220505	ENST00000403144	processed_pseudogene	KNOWN	None	None	None	None	98627375	98627708	-1	None	None
11	None	ENSG00000238995	ENST00000459069	snoRNA	NOVEL	None	None	None	None	82554927	82555027	1	None	None
12	None	ENSG00000256994	ENST00000540399	lincRNA	KNOWN	None	None	None	None	17662287	17742926	-1	None	None
19	CBLC	ENSG00000142273	ENST00000270279	protein_coding	KNOWN	CCDS12643	15961	1425	474	45281126	45303891	1	None	CBL-3, CBL-SL, RNF57
19	CBLC	ENSG00000142273	ENST00000341505	protein_coding	KNOWN	CCDS46109	15961	1287	428	45281126	45303891	1	None	CBL-3, CBL-SL, RNF57
19	FUT1	ENSG00000174951	ENST00000310160	protein_coding	KNOWN	CCDS12733	4012	1098	365	49251268	49258647	-1	H, HSC	None
19	FUT1	ENSG00000174951	ENST00000601931	processed_transcript	KNOWN	None	4012	None	None	49255869	49256917	-1	H, HSC	None
19	FUT1	ENSG00000174951	ENST00000599826	processed_transcript	KNOWN	None	4012	None	None	49255869	49256917	-1	H, HSC	None
19	FUT1	ENSG00000174951	ENST00000597220	processed_transcript	KNOWN	None	4012	None	None	49255869	49258647	-1	H, HSC	None
19	FUT1	ENSG00000174951	ENST00000601988	processed_transcript	KNOWN	None	4012	None	None	49255869	49258647	-1	H, HSC	None
11	None	ENSG00000255207	ENST00000527476	processed_pseudogene	KNOWN	None	None	None	None	33472192	33472489	1	None	None
11	None	ENSG00000242279	ENST00000474462	processed_pseudogene	KNOWN	None	None	None	None	82668465	82669258	1	None	None
1	None	ENSG00000256186	ENST00000540477	pseudogene	NOVEL	None	None	None	None	450820	450910	-1	None	None
HSCHR19LRC_LRC_S_CTG1	None	ENSG00000261865	ENST00000571461	snRNA	NOVEL	None	None	None	None	55379765	55379871	-1	None	None
3	EEF1A1P25	ENSG00000241429	ENST00000495704	processed_pseudogene	KNOWN	None	37898	None	None	138543905	138545171	1	None	None
6	BLOC1S5	ENSG00000188428	ENST00000397457	protein_coding	KNOWN	CCDS4506	18561	564	187	8013800	8064647	-1	MUTED	MU, dJ303A1.3
6	BLOC1S5	ENSG00000188428	ENST00000244777	nonsense_mediated_decay	KNOWN	None	18561	345	114	8014211	8064626	-1	MUTED	MU, dJ303A1.3
6	BLOC1S5	ENSG00000188428	ENST00000475998	processed_transcript	KNOWN	None	18561	None	None	8015318	8018292	-1	MUTED	MU, dJ303A1.3
6	BLOC1S5	ENSG00000188428	ENST00000486432	processed_transcript	KNOWN	None	18561	None	None	8015890	8042141	-1	MUTED	MU, dJ303A1.3
6	BLOC1S5	ENSG00000188428	ENST00000543936	protein_coding	KNOWN	CCDS56395	18561	372	123	8015296	8064629	-1	MUTED	MU, dJ303A1.3
8	None	ENSG00000271654	ENST00000605477	processed_pseudogene	KNOWN	None	None	None	None	18244618	18245287	-1	None	None
4	MIR3139	ENSG00000265623	ENST00000579145	miRNA	KNOWN	None	38201	None	None	144264613	144264688	1	None	hsa-mir-3139
20	None	ENSG00000232294	ENST00000421642	lincRNA	KNOWN	None	None	None	None	51288456	51307147	1	None	None
20	None	ENSG00000232294	ENST00000413070	lincRNA	KNOWN	None	None	None	None	51290950	51298117	1	None	None
20	None	ENSG00000232294	ENST00000448013	lincRNA	KNOWN	None	None	None	None	51297967	51307119	1	None	None
20	None	ENSG00000232294	ENST00000425279	lincRNA	KNOWN	None	None	None	None	51297967	51307119	1	None	None
20	None	ENSG00000232294	ENST00000437987	lincRNA	KNOWN	None	None	None	None	51297967	51307119	1	None	None
20	None	ENSG00000232294	ENST00000422666	lincRNA	KNOWN	None	None	None	None	51301661	51307468	1	None	None
6	None	ENSG00000236920	ENST00000418652	lincRNA	KNOWN	None	None	None	None	98657896	98662559	1	None	None
12	None	ENSG00000236908	ENST00000432994	lincRNA	KNOWN	None	None	None	None	3427884	3434509	1	None	None
12	None	ENSG00000236908	ENST00000543036	lincRNA	KNOWN	None	None	None	None	3428607	3434506	1	None	None
4	None	ENSG00000228981	ENST00000475555	processed_pseudogene	KNOWN	None	None	None	None	144270428	144271270	-1	None	None
8	None	ENSG00000253381	ENST00000524098	lincRNA	KNOWN	None	None	None	None	39961688	39965454	1	None	None
15	None	ENSG00000252868	ENST00000517059	snoRNA	NOVEL	None	None	None	None	29526072	29526183	1	None	None
3	OR7E93P	ENSG00000228963	ENST00000508347	unprocessed_pseudogene	KNOWN	None	14780	None	None	125443382	125444288	1	OR7E131P	None
2	None	ENSG00000201102	ENST00000364232	misc_RNA	NOVEL	None	None	None	None	178059711	178059823	1	None	None
6	None	ENSG00000235504	ENST00000424521	lincRNA	KNOWN	None	None	None	None	99006310	99006447	1	None	None
15	None	ENSG00000260375	ENST00000566935	unprocessed_pseudogene	KNOWN	None	None	None	None	62547885	62548620	-1	None	None
8	None	ENSG00000251136	ENST00000519655	lincRNA	KNOWN	None	None	None	None	90621638	90769955	-1	None	None
8	None	ENSG00000251136	ENST00000524166	lincRNA	KNOWN	None	None	None	None	90623585	90629386	-1	None	None
8	None	ENSG00000251136	ENST00000520306	lincRNA	KNOWN	None	None	None	None	90629158	90633104	-1	None	None
8	None	ENSG00000251136	ENST00000519854	lincRNA	KNOWN	None	None	None	None	90629222	90635433	-1	None	None
8	None	ENSG00000251136	ENST00000524190	lincRNA	KNOWN	None	None	None	None	90640394	90769422	-1	None	None
8	None	ENSG00000251136	ENST00000504145	lincRNA	KNOWN	None	None	None	None	90729656	90769939	-1	None	None
8	None	ENSG00000251136	ENST00000521996	lincRNA	KNOWN	None	None	None	None	90733132	90737158	-1	None	None
8	None	ENSG00000251136	ENST00000523995	lincRNA	KNOWN	None	None	None	None	90733172	90734578	-1	None	None
8	None	ENSG00000251136	ENST00000523859	lincRNA	KNOWN	None	None	None	None	90768463	90769592	-1	None	None
15	None	ENSG00000259690	ENST00000558671	sense_intronic	KNOWN	None	None	None	None	29665806	29669160	-1	None	None
19	None	ENSG00000268643	ENST00000594664	protein_coding	NOVEL	None	None	501	166	42738735	42759284	-1	None	None
X	OR3B1P	ENSG00000237619	ENST00000437536	unprocessed_pseudogene	KNOWN	None	14839	None	None	153887064	153887956	-1	None	None
2	KRT8P40	ENSG00000213069	ENST00000392131	processed_pseudogene	KNOWN	None	39874	None	None	178062713	178063275	1	None	None
14	None	ENSG00000252919	ENST00000517110	misc_RNA	NOVEL	None	None	None	None	50058954	50059055	-1	None	None
12	None	ENSG00000260030	ENST00000566418	lincRNA	KNOWN	None	None	None	None	54148142	54155888	1	None	None
3	None	ENSG00000223192	ENST00000411260	misc_RNA	NOVEL	None	None	None	None	57685500	57685575	1	None	None
6	None	ENSG00000187472	ENST00000340697	processed_pseudogene	KNOWN	None	None	None	None	99228133	99241868	-1	None	None
12	CRY1	ENSG00000008405	ENST00000008527	protein_coding	KNOWN	CCDS9112	2384	1761	586	107385142	107487607	-1	PHLL1	None
12	CRY1	ENSG00000008405	ENST00000552790	retained_intron	KNOWN	None	2384	None	None	107385145	107444137	-1	PHLL1	None
12	CRY1	ENSG00000008405	ENST00000549356	protein_coding	PUTATIVE	None	2384	321	106	107386265	107391317	-1	PHLL1	None
12	CRY1	ENSG00000008405	ENST00000546722	retained_intron	KNOWN	None	2384	None	None	107393567	107395629	-1	PHLL1	None
12	CRY1	ENSG00000008405	ENST00000550633	processed_transcript	PUTATIVE	None	2384	None	None	107466713	107487291	-1	PHLL1	None
2	MIR4444-1	ENSG00000263721	ENST00000581696	miRNA	KNOWN	None	41710	None	None	178077454	178077527	1	MIR4444	hsa-mir-4444
7	None	ENSG00000261842	ENST00000568729	lincRNA	KNOWN	None	None	None	None	149119766	149121981	1	None	None
12	None	ENSG00000248995	ENST00000510459	lincRNA	KNOWN	None	None	None	None	65314625	65376304	-1	None	None
9	PSMB7	ENSG00000136930	ENST00000498485	processed_transcript	KNOWN	None	9544	None	None	127115745	127177570	-1	None	Z
9	PSMB7	ENSG00000136930	ENST00000259457	protein_coding	KNOWN	CCDS6855	9544	834	277	127115745	127177718	-1	None	Z
9	PSMB7	ENSG00000136930	ENST00000474081	processed_transcript	KNOWN	None	9544	None	None	127145875	127146935	-1	None	Z
9	PSMB7	ENSG00000136930	ENST00000478817	processed_transcript	KNOWN	None	9544	None	None	127145901	127146935	-1	None	Z
9	PSMB7	ENSG00000136930	ENST00000441097	protein_coding	KNOWN	None	9544	631	209	127159039	127177723	-1	None	Z
9	PSMB7	ENSG00000136930	ENST00000466951	processed_transcript	KNOWN	None	9544	None	None	127174679	127177586	-1	None	Z
9	PSMB7	ENSG00000136930	ENST00000536392	protein_coding	KNOWN	None	9544	429	142	127118678	127177721	-1	None	Z
8	None	ENSG00000187229	ENST00000524252	antisense	KNOWN	None	None	None	None	18578415	18591915	1	None	None
15	None	ENSG00000261296	ENST00000561701	lincRNA	KNOWN	None	None	None	None	62566362	62570557	1	None	None
15	None	ENSG00000261296	ENST00000568092	lincRNA	KNOWN	None	None	None	None	62567054	62570564	1	None	None
4	None	ENSG00000243175	ENST00000494591	processed_transcript	KNOWN	None	None	None	None	144345906	144347166	1	None	None
4	None	ENSG00000243175	ENST00000465940	transcribed_processed_pseudogene	KNOWN	None	None	None	None	144346205	144347073	1	None	None
11	None	ENSG00000254698	ENST00000527550	sense_overlapping	KNOWN	None	None	None	None	82674723	82750157	-1	None	None
1	None	ENSG00000236601	ENST00000450983	lincRNA	KNOWN	None	None	None	None	453633	460480	-1	None	None
1	None	ENSG00000236601	ENST00000412666	lincRNA	KNOWN	None	None	None	None	453827	460465	-1	None	None
5	None	ENSG00000250118	ENST00000502347	processed_pseudogene	KNOWN	None	None	None	None	30365512	30365791	-1	None	None
3	ATP5G1P3	ENSG00000242244	ENST00000463301	processed_pseudogene	KNOWN	None	39506	None	None	138608097	138608799	-1	None	None
11	None	ENSG00000255202	ENST00000534431	antisense	KNOWN	None	None	None	None	33686766	33718247	-1	None	None
2	DNAJC19P5	ENSG00000225808	ENST00000443295	processed_pseudogene	KNOWN	None	45068	None	None	178093919	178094234	-1	None	None
3	ACPL2	ENSG00000155893	ENST00000505013	protein_coding	KNOWN	None	26303	437	144	140947568	141006227	1	None	FLJ23751
3	ACPL2	ENSG00000155893	ENST00000514880	nonsense_mediated_decay	KNOWN	None	26303	81	26	140950667	141011379	1	None	FLJ23751
3	ACPL2	ENSG00000155893	ENST00000286353	protein_coding	KNOWN	CCDS3116	26303	1443	480	140950670	141013748	1	None	FLJ23751
3	ACPL2	ENSG00000155893	ENST00000502783	protein_coding	PUTATIVE	None	26303	1329	442	140950682	141012447	1	None	FLJ23751
3	ACPL2	ENSG00000155893	ENST00000393010	protein_coding	KNOWN	CCDS3116	26303	1443	480	140950703	141013486	1	None	FLJ23751
3	ACPL2	ENSG00000155893	ENST00000511968	retained_intron	KNOWN	None	26303	None	None	140950709	140954263	1	None	FLJ23751
3	ACPL2	ENSG00000155893	ENST00000514680	protein_coding	KNOWN	None	26303	286	94	140950718	140998267	1	None	FLJ23751
3	ACPL2	ENSG00000155893	ENST00000513528	nonsense_mediated_decay	KNOWN	None	26303	81	26	140950721	140998317	1	None	FLJ23751
3	ACPL2	ENSG00000155893	ENST00000505502	processed_transcript	KNOWN	None	26303	None	None	140950724	140955231	1	None	FLJ23751
3	ACPL2	ENSG00000155893	ENST00000513007	retained_intron	KNOWN	None	26303	None	None	140950756	140981467	1	None	FLJ23751
3	ACPL2	ENSG00000155893	ENST00000512457	protein_coding	PUTATIVE	None	26303	392	129	140980848	141006296	1	None	FLJ23751
3	ACPL2	ENSG00000155893	ENST00000504264	protein_coding	PUTATIVE	None	26303	1392	463	140981456	141012346	1	None	FLJ23751
3	ACPL2	ENSG00000155893	ENST00000508812	protein_coding	PUTATIVE	None	26303	1416	471	140991507	141012882	1	None	FLJ23751
3	ACPL2	ENSG00000155893	ENST00000514263	processed_transcript	PUTATIVE	None	26303	None	None	141006201	141011158	1	None	FLJ23751
3	ACPL2	ENSG00000155893	ENST00000393007	protein_coding	KNOWN	None	26303	1395	464	140993435	141013483	1	None	FLJ23751
3	OR7E53P	ENSG00000239978	ENST00000418098	unprocessed_pseudogene	KNOWN	None	8428	None	None	125453138	125454041	1	OR7E78P, OR7E78, OR7E132P	OR3-143, OR3-142
6	None	ENSG00000271042	ENST00000603824	processed_pseudogene	KNOWN	None	None	None	None	99530325	99530637	1	None	None
11	LINC00301	ENSG00000181995	ENST00000412599	lincRNA	KNOWN	None	28603	None	None	60383209	60454622	1	C11orf64, NCRNA00301	MGC39681
11	LINC00301	ENSG00000181995	ENST00000320202	lincRNA	KNOWN	None	28603	None	None	60383224	60454622	1	C11orf64, NCRNA00301	MGC39681
11	LINC00301	ENSG00000181995	ENST00000527161	lincRNA	KNOWN	None	28603	None	None	60414754	60454622	1	C11orf64, NCRNA00301	MGC39681
11	LINC00301	ENSG00000181995	ENST00000532591	lincRNA	KNOWN	None	28603	None	None	60421191	60454622	1	C11orf64, NCRNA00301	MGC39681
HG1293_PATCH	C1orf186	ENSG00000263961	ENST00000604113	processed_transcript	KNOWN	None	25341	None	None	206098792	206116698	1	None	FLJ16052
HG1293_PATCH	C1orf186	ENSG00000263961	ENST00000585172	processed_transcript	KNOWN	None	25341	None	None	206098808	206116895	1	None	FLJ16052
HG1293_PATCH	C1orf186	ENSG00000263961	ENST00000582619	processed_transcript	KNOWN	None	25341	None	None	206115352	206116662	1	None	FLJ16052
HG1293_PATCH	C1orf186	ENSG00000263961	ENST00000582070	protein_coding	KNOWN	None	25341	519	172	206116284	206166009	1	None	FLJ16052
HG1293_PATCH	C1orf186	ENSG00000263961	ENST00000582596	processed_transcript	KNOWN	None	25341	None	None	206116406	206125818	1	None	FLJ16052
HG1293_PATCH	C1orf186	ENSG00000263961	ENST00000584198	processed_transcript	KNOWN	None	25341	None	None	206119932	206125485	1	None	FLJ16052
HG1293_PATCH	C1orf186	ENSG00000263961	ENST00000577298	processed_transcript	KNOWN	None	25341	None	None	206124719	206125474	1	None	FLJ16052
HG1293_PATCH	C1orf186	ENSG00000263961	ENST00000603378	protein_coding	NOVEL	None	25341	375	124	206147124	206165568	1	None	FLJ16052
HG1293_PATCH	C1orf186	ENSG00000263961	ENST00000603488	protein_coding	KNOWN	None	25341	519	172	206147132	206165545	1	None	FLJ16052
HG1293_PATCH	C1orf186	ENSG00000263961	ENST00000604112	retained_intron	KNOWN	None	25341	None	None	206161222	206162098	1	None	FLJ16052
2	MIR3128	ENSG00000265396	ENST00000581957	miRNA	KNOWN	None	38188	None	None	178120673	178120738	-1	None	hsa-mir-3128
2	DDX1	ENSG00000079785	ENST00000381341	protein_coding	KNOWN	CCDS1686	2734	2223	740	15731302	15771235	1	None	DBP-RB
2	DDX1	ENSG00000079785	ENST00000434671	protein_coding	KNOWN	None	2734	49	15	15731607	15735301	1	None	DBP-RB
2	DDX1	ENSG00000079785	ENST00000459706	retained_intron	KNOWN	None	2734	None	None	15757429	15761511	1	None	DBP-RB
2	DDX1	ENSG00000079785	ENST00000470674	retained_intron	KNOWN	None	2734	None	None	15761216	15768860	1	None	DBP-RB
2	DDX1	ENSG00000079785	ENST00000478695	retained_intron	KNOWN	None	2734	None	None	15763657	15767681	1	None	DBP-RB
2	DDX1	ENSG00000079785	ENST00000233084	protein_coding	KNOWN	CCDS1686	2734	2223	740	15731770	15771225	1	None	DBP-RB
4	None	ENSG00000250540	ENST00000502445	processed_pseudogene	KNOWN	None	None	None	None	144418565	144419279	-1	None	None
14	RHOQP1	ENSG00000258568	ENST00000555758	processed_pseudogene	KNOWN	None	20003	None	None	50066712	50067290	1	ARHQP, RHOQP	None
15	None	ENSG00000260957	ENST00000569913	lincRNA	KNOWN	None	None	None	None	62576389	62577205	1	None	None
5	None	ENSG00000241668	ENST00000495944	processed_pseudogene	KNOWN	None	None	None	None	31053672	31054260	1	None	None
6	MIR548AI	ENSG00000265226	ENST00000579940	miRNA	KNOWN	None	41854	None	None	99572485	99572572	1	None	hsa-mir-548ai
12	RNU6ATAC42P	ENSG00000221564	ENST00000408637	snRNA	KNOWN	None	46941	None	None	65332803	65332897	1	None	None
2	None	ENSG00000222043	ENST00000428541	antisense	KNOWN	None	None	None	None	178129087	178130243	1	None	None
X	LINC00087	ENSG00000196972	ENST00000433425	lincRNA	KNOWN	None	34500	None	None	134229058	134232664	-1	NCRNA00087	RP11-85L21.2
X	LINC00087	ENSG00000196972	ENST00000535837	lincRNA	KNOWN	None	34500	None	None	134232427	134232630	-1	NCRNA00087	RP11-85L21.2
19	None	ENSG00000204957	ENST00000378108	protein_coding	KNOWN	None	None	456	151	42746927	42749125	1	None	None
15	HMGN1P26	ENSG00000259557	ENST00000558737	processed_pseudogene	KNOWN	None	39370	None	None	62654228	62654530	-1	None	None
15	None	ENSG00000249839	ENST00000510070	unprocessed_pseudogene	KNOWN	None	None	None	None	43955852	43976537	-1	None	None
6	BDH2P1	ENSG00000232699	ENST00000602288	processed_pseudogene	KNOWN	None	21476	None	None	99622620	99623355	1	DHRS6P1	bA758C21.1
6	BDH2P1	ENSG00000232699	ENST00000413107	processed_pseudogene	KNOWN	None	21476	None	None	99622620	99623357	1	DHRS6P1	bA758C21.1
12	None	ENSG00000223213	ENST00000411281	snoRNA	NOVEL	None	None	None	None	54185089	54185131	1	None	None
3	None	ENSG00000244578	ENST00000495287	lincRNA	KNOWN	None	None	None	None	138654031	138662862	-1	None	None
3	None	ENSG00000244578	ENST00000483650	lincRNA	KNOWN	None	None	None	None	138656750	138662845	-1	None	None
3	None	ENSG00000244578	ENST00000477059	lincRNA	KNOWN	None	None	None	None	138659270	138661420	-1	None	None
11	None	ENSG00000254522	ENST00000530976	processed_pseudogene	KNOWN	None	None	None	None	82751848	82752445	-1	None	None
4	SMARCA5-AS1	ENSG00000245112	ENST00000500800	antisense	KNOWN	None	39982	None	None	144434625	144435788	-1	None	None
10	MASTL	ENSG00000120539	ENST00000375946	protein_coding	KNOWN	CCDS7153	19042	2637	878	27443753	27475848	1	None	FLJ14813, THC2
10	MASTL	ENSG00000120539	ENST00000375940	protein_coding	KNOWN	CCDS53502	19042	2640	879	27444299	27475848	1	None	FLJ14813, THC2
10	MASTL	ENSG00000120539	ENST00000342386	protein_coding	KNOWN	CCDS53503	19042	2523	840	27444299	27475853	1	None	FLJ14813, THC2
10	MASTL	ENSG00000120539	ENST00000477034	processed_transcript	KNOWN	None	19042	None	None	27458873	27475647	1	None	FLJ14813, THC2
2	None	ENSG00000213963	ENST00000397057	sense_overlapping	KNOWN	None	None	None	None	178148236	178257415	-1	None	None
2	None	ENSG00000213963	ENST00000456746	sense_overlapping	KNOWN	None	None	None	None	178148240	178257419	-1	None	None
2	None	ENSG00000213963	ENST00000430416	sense_overlapping	KNOWN	None	None	None	None	178148242	178187892	-1	None	None
2	None	ENSG00000213963	ENST00000443132	sense_overlapping	KNOWN	None	None	None	None	178175455	178179646	-1	None	None
2	None	ENSG00000213963	ENST00000447413	sense_overlapping	KNOWN	None	None	None	None	178186335	178257409	-1	None	None
7	ZNF767	ENSG00000133624	ENST00000463567	processed_transcript	KNOWN	None	21884	None	None	149244245	149321818	-1	None	FLJ12700
7	ZNF767	ENSG00000133624	ENST00000472212	processed_transcript	KNOWN	None	21884	None	None	149244250	149321843	-1	None	FLJ12700
7	ZNF767	ENSG00000133624	ENST00000486492	processed_transcript	KNOWN	None	21884	None	None	149246174	149321719	-1	None	FLJ12700
7	ZNF767	ENSG00000133624	ENST00000481762	processed_transcript	KNOWN	None	21884	None	None	149255877	149318241	-1	None	FLJ12700
7	ZNF767	ENSG00000133624	ENST00000493198	retained_intron	KNOWN	None	21884	None	None	149316840	149318435	-1	None	FLJ12700
7	ZNF767	ENSG00000133624	ENST00000513792	transcribed_unprocessed_pseudogene	KNOWN	None	21884	None	None	149317015	149321656	-1	None	FLJ12700
17	RPL23A	ENSG00000198242	ENST00000422514	protein_coding	KNOWN	CCDS11241	10317	471	156	27046411	27051377	1	None	L23A
17	RPL23A	ENSG00000198242	ENST00000582736	retained_intron	KNOWN	None	10317	None	None	27047009	27048279	1	None	L23A
17	RPL23A	ENSG00000198242	ENST00000496182	protein_coding	PUTATIVE	None	10317	213	70	27047097	27050954	1	None	L23A
17	RPL23A	ENSG00000198242	ENST00000394938	protein_coding	PUTATIVE	None	10317	585	194	27047262	27050954	1	None	L23A
17	RPL23A	ENSG00000198242	ENST00000394935	protein_coding	NOVEL	None	10317	528	175	27047282	27050951	1	None	L23A
17	RPL23A	ENSG00000198242	ENST00000355731	protein_coding	PUTATIVE	None	10317	476	157	27047317	27051010	1	None	L23A
17	RPL23A	ENSG00000198242	ENST00000472628	protein_coding	PUTATIVE	None	10317	213	70	27047587	27050954	1	None	L23A
17	RPL23A	ENSG00000198242	ENST00000578181	protein_coding	PUTATIVE	None	10317	511	169	27047723	27050818	1	None	L23A
17	RPL23A	ENSG00000198242	ENST00000580755	retained_intron	KNOWN	None	10317	None	None	27050318	27050955	1	None	L23A
4	LNX1-AS2	ENSG00000248494	ENST00000509974	sense_intronic	KNOWN	None	41450	None	None	54459123	54470214	1	None	None
4	LNX1-AS2	ENSG00000248494	ENST00000502410	sense_intronic	KNOWN	None	41450	None	None	54459152	54460270	1	None	None
2	UGT1A3	ENSG00000243135	ENST00000482026	protein_coding	KNOWN	CCDS2509	12535	1605	534	234637754	234681945	1	None	UGT1C
6	None	ENSG00000228506	ENST00000418945	antisense	KNOWN	None	None	None	None	99872798	99879249	1	None	None
5	None	ENSG00000254297	ENST00000523497	antisense	KNOWN	None	None	None	None	166723239	166730377	-1	None	None
5	None	ENSG00000250284	ENST00000502421	lincRNA	KNOWN	None	None	None	None	136070616	136090375	1	None	None
15	None	ENSG00000259814	ENST00000567616	lincRNA	KNOWN	None	None	None	None	29901880	29903416	-1	None	None
6	MEP1A	ENSG00000112818	ENST00000230588	protein_coding	KNOWN	CCDS4918	7015	2241	746	46761127	46807515	1	None	PPHA
5	None	ENSG00000253527	ENST00000519892	antisense	KNOWN	None	None	None	None	166733278	166736875	-1	None	None
14	None	ENSG00000258377	ENST00000555043	antisense	KNOWN	None	None	None	None	50087533	50090198	-1	None	None
12	None	ENSG00000198671	ENST00000360528	lincRNA	KNOWN	None	None	None	None	65411248	65413586	1	None	None
5	None	ENSG00000248616	ENST00000511236	processed_pseudogene	KNOWN	None	None	None	None	136193317	136194031	1	None	None
12	RNU6-166P	ENSG00000207099	ENST00000384371	snRNA	KNOWN	None	47129	None	None	65489529	65489635	1	None	None
12	RN7SKP289	ENSG00000253053	ENST00000517244	misc_RNA	KNOWN	None	46013	None	None	54209969	54210263	1	None	None
19	ERF	ENSG00000105722	ENST00000222329	protein_coding	KNOWN	CCDS12600	3444	1647	548	42751724	42759309	-1	None	PE-2, PE2
19	ERF	ENSG00000105722	ENST00000440177	protein_coding	PUTATIVE	None	3444	1422	473	42752309	42758787	-1	None	PE-2, PE2
19	ERF	ENSG00000105722	ENST00000595448	retained_intron	KNOWN	None	3444	None	None	42753680	42754324	-1	None	PE-2, PE2
19	ERF	ENSG00000105722	ENST00000593944	protein_coding	PUTATIVE	None	3444	294	97	42753745	42758051	-1	None	PE-2, PE2
19	ERF	ENSG00000105722	ENST00000598965	protein_coding	PUTATIVE	None	3444	185	60	42753774	42754593	-1	None	PE-2, PE2
19	ERF	ENSG00000105722	ENST00000596818	retained_intron	KNOWN	None	3444	None	None	42754282	42759259	-1	None	PE-2, PE2
19	ERF	ENSG00000105722	ENST00000595941	processed_transcript	KNOWN	None	3444	None	None	42754596	42758046	-1	None	PE-2, PE2
4	None	ENSG00000248924	ENST00000515019	transcribed_processed_pseudogene	KNOWN	None	None	None	None	144476235	144476555	-1	None	None
4	None	ENSG00000248924	ENST00000512366	processed_transcript	KNOWN	None	None	None	None	144476277	144476736	-1	None	None
8	RPL35P6	ENSG00000244018	ENST00000490024	processed_pseudogene	KNOWN	None	35520	None	None	18632057	18632428	-1	None	None
5	None	ENSG00000254187	ENST00000522956	antisense	KNOWN	None	None	None	None	167080233	167087486	-1	None	None
12	APOOP3	ENSG00000255700	ENST00000536787	processed_pseudogene	KNOWN	None	48741	None	None	65528468	65529053	1	None	None
4	None	ENSG00000249341	ENST00000508112	sense_intronic	KNOWN	None	None	None	None	54525375	54603323	1	None	None
4	None	ENSG00000249341	ENST00000506950	sense_intronic	KNOWN	None	None	None	None	54562068	54600525	1	None	None
5	RNA5SP193	ENSG00000222285	ENST00000410353	rRNA	KNOWN	None	43093	None	None	136304889	136304995	-1	RN5S193	None
3	None	ENSG00000265166	ENST00000583219	miRNA	NOVEL	None	None	None	None	125455059	125455146	1	None	None
1	None	ENSG00000236743	ENST00000441866	lincRNA	KNOWN	None	None	None	None	459656	461954	1	None	None
6	TSTD3	ENSG00000228439	ENST00000452647	antisense	KNOWN	None	40910	None	None	99968569	99979794	1	None	None
6	TSTD3	ENSG00000228439	ENST00000384290	misc_RNA	KNOWN	None	40910	None	None	99973973	99974081	1	None	None
15	TUBBP8	ENSG00000259300	ENST00000560273	processed_pseudogene	KNOWN	None	42179	None	None	29904774	29906478	1	None	None
5	None	ENSG00000221612	ENST00000408685	miRNA	NOVEL	None	None	None	None	136869143	136869210	1	None	None
12	HOXC-AS5	ENSG00000249641	ENST00000512916	antisense	KNOWN	None	43753	None	None	54329112	54333427	-1	None	None
5	None	ENSG00000253357	ENST00000517346	sense_intronic	KNOWN	None	None	None	None	167148368	167156129	1	None	None
20	None	ENSG00000232286	ENST00000426963	lincRNA	KNOWN	None	None	None	None	51474877	51479394	-1	None	None
12	None	ENSG00000250280	ENST00000545709	sense_intronic	KNOWN	None	None	None	None	65675437	65680508	1	None	None
5	None	ENSG00000221741	ENST00000408814	miRNA	NOVEL	None	None	None	None	167297550	167297670	-1	None	None
3	CCDC36	ENSG00000173421	ENST00000296449	protein_coding	KNOWN	CCDS33755	27945	1785	594	49235861	49295156	1	None	FLJ25320, CT74
3	CCDC36	ENSG00000173421	ENST00000452691	protein_coding	KNOWN	CCDS33755	27945	1785	594	49236933	49295156	1	None	FLJ25320, CT74
3	CCDC36	ENSG00000173421	ENST00000366429	protein_coding	KNOWN	None	27945	612	203	49236943	49283172	1	None	FLJ25320, CT74
3	CCDC36	ENSG00000173421	ENST00000493870	processed_transcript	PUTATIVE	None	27945	None	None	49237050	49274007	1	None	FLJ25320, CT74
3	CCDC36	ENSG00000173421	ENST00000438782	protein_coding	KNOWN	CCDS33755	27945	1785	594	49236320	49295537	1	None	FLJ25320, CT74
3	CCDC36	ENSG00000173421	ENST00000451634	protein_coding	KNOWN	None	27945	582	193	49265751	49283167	1	None	FLJ25320, CT74
5	None	ENSG00000253660	ENST00000523050	antisense	KNOWN	None	None	None	None	167364722	167380474	-1	None	None
3	RPL7L1P7	ENSG00000251137	ENST00000509986	processed_pseudogene	KNOWN	None	39489	None	None	138800496	138801219	-1	None	None
11	IFITM2	ENSG00000185201	ENST00000533141	protein_coding	PUTATIVE	None	5413	339	112	307631	309230	1	None	1-8D
11	IFITM2	ENSG00000185201	ENST00000399817	protein_coding	KNOWN	CCDS41583	5413	399	132	308163	309395	1	None	1-8D
11	IFITM2	ENSG00000185201	ENST00000602569	protein_coding	PUTATIVE	None	5413	339	112	308217	309395	1	None	1-8D
11	IFITM2	ENSG00000185201	ENST00000527146	nonsense_mediated_decay	KNOWN	None	5413	167	54	308320	309392	1	None	1-8D
11	IFITM2	ENSG00000185201	ENST00000399815	protein_coding	PUTATIVE	None	5413	223	73	308408	315272	1	None	1-8D
3	None	ENSG00000270772	ENST00000603779	processed_pseudogene	KNOWN	None	None	None	None	57785783	57787175	-1	None	None
HG325_PATCH	IFRD2	ENSG00000263093	ENST00000571492	protein_coding	KNOWN	None	5457	1329	442	50325164	50330027	-1	None	SKMc15, SM15, IFNRP
HG325_PATCH	IFRD2	ENSG00000263093	ENST00000576857	protein_coding	NOVEL	None	5457	216	71	50325175	50326071	-1	None	SKMc15, SM15, IFNRP
HG325_PATCH	IFRD2	ENSG00000263093	ENST00000575887	protein_coding	KNOWN	None	5457	1329	442	50325175	50330350	-1	None	SKMc15, SM15, IFNRP
HG325_PATCH	IFRD2	ENSG00000263093	ENST00000576212	retained_intron	KNOWN	None	5457	None	None	50325373	50329856	-1	None	SKMc15, SM15, IFNRP
HG325_PATCH	IFRD2	ENSG00000263093	ENST00000573661	retained_intron	KNOWN	None	5457	None	None	50325563	50327033	-1	None	SKMc15, SM15, IFNRP
HG325_PATCH	IFRD2	ENSG00000263093	ENST00000574373	retained_intron	KNOWN	None	5457	None	None	50325803	50326492	-1	None	SKMc15, SM15, IFNRP
HG325_PATCH	IFRD2	ENSG00000263093	ENST00000573302	nonsense_mediated_decay	KNOWN	None	5457	513	170	50325862	50327683	-1	None	SKMc15, SM15, IFNRP
HG325_PATCH	IFRD2	ENSG00000263093	ENST00000575710	retained_intron	KNOWN	None	5457	None	None	50325944	50326658	-1	None	SKMc15, SM15, IFNRP
HG325_PATCH	IFRD2	ENSG00000263093	ENST00000575588	retained_intron	KNOWN	None	5457	None	None	50326095	50326695	-1	None	SKMc15, SM15, IFNRP
HG325_PATCH	IFRD2	ENSG00000263093	ENST00000575030	nonsense_mediated_decay	KNOWN	None	5457	225	74	50326231	50329821	-1	None	SKMc15, SM15, IFNRP
HG325_PATCH	IFRD2	ENSG00000263093	ENST00000573997	retained_intron	KNOWN	None	5457	None	None	50326640	50327502	-1	None	SKMc15, SM15, IFNRP
HG325_PATCH	IFRD2	ENSG00000263093	ENST00000576349	retained_intron	KNOWN	None	5457	None	None	50326680	50329852	-1	None	SKMc15, SM15, IFNRP
HG325_PATCH	IFRD2	ENSG00000263093	ENST00000572012	processed_transcript	KNOWN	None	5457	None	None	50327438	50329481	-1	None	SKMc15, SM15, IFNRP
HG325_PATCH	IFRD2	ENSG00000263093	ENST00000570804	retained_intron	KNOWN	None	5457	None	None	50327441	50329868	-1	None	SKMc15, SM15, IFNRP
HG325_PATCH	IFRD2	ENSG00000263093	ENST00000570675	processed_transcript	KNOWN	None	5457	None	None	50327613	50329488	-1	None	SKMc15, SM15, IFNRP
3	OR7E97P	ENSG00000179170	ENST00000466578	unprocessed_pseudogene	KNOWN	None	14834	None	None	125465927	125466941	1	None	None
22	PIWIL3	ENSG00000184571	ENST00000332271	protein_coding	KNOWN	CCDS33623	18443	2649	882	25115001	25170683	-1	None	HIWI3
22	PIWIL3	ENSG00000184571	ENST00000533313	protein_coding	PUTATIVE	None	18443	2295	764	25115217	25170444	-1	None	HIWI3
22	PIWIL3	ENSG00000184571	ENST00000527701	protein_coding	PUTATIVE	None	18443	2295	764	25115217	25170444	-1	None	HIWI3
22	PIWIL3	ENSG00000184571	ENST00000532537	processed_transcript	KNOWN	None	18443	None	None	25115439	25170687	-1	None	HIWI3
20	SRC	ENSG00000197122	ENST00000497734	processed_transcript	KNOWN	None	11283	None	None	35973088	36011190	1	SRC1	ASV, c-src
20	SRC	ENSG00000197122	ENST00000373578	protein_coding	KNOWN	CCDS13294	11283	1611	536	35974557	36034453	1	SRC1	ASV, c-src
20	SRC	ENSG00000197122	ENST00000373567	protein_coding	KNOWN	CCDS13294	11283	1611	536	36012071	36034453	1	SRC1	ASV, c-src
20	SRC	ENSG00000197122	ENST00000373558	protein_coding	NOVEL	None	11283	1629	542	36012553	36034453	1	SRC1	ASV, c-src
20	SRC	ENSG00000197122	ENST00000472968	processed_transcript	PUTATIVE	None	11283	None	None	36012726	36022577	1	SRC1	ASV, c-src
20	SRC	ENSG00000197122	ENST00000489153	processed_transcript	PUTATIVE	None	11283	None	None	36022148	36026149	1	SRC1	ASV, c-src
20	SRC	ENSG00000197122	ENST00000477066	processed_transcript	KNOWN	None	11283	None	None	36024829	36033825	1	SRC1	ASV, c-src
20	SRC	ENSG00000197122	ENST00000467556	retained_intron	KNOWN	None	11283	None	None	36028552	36030360	1	SRC1	ASV, c-src
20	SRC	ENSG00000197122	ENST00000477475	processed_transcript	PUTATIVE	None	11283	None	None	36028654	36030695	1	SRC1	ASV, c-src
20	SRC	ENSG00000197122	ENST00000493775	processed_transcript	PUTATIVE	None	11283	None	None	36030716	36031434	1	SRC1	ASV, c-src
20	SRC	ENSG00000197122	ENST00000445403	protein_coding	KNOWN	CCDS13294	11283	1611	536	35973088	36033817	1	SRC1	ASV, c-src
20	SRC	ENSG00000197122	ENST00000360723	protein_coding	KNOWN	None	11283	1629	542	36011092	36033817	1	SRC1	ASV, c-src
20	SRC	ENSG00000197122	ENST00000358208	protein_coding	KNOWN	CCDS13294	11283	1611	536	36011092	36033817	1	SRC1	ASV, c-src
5	None	ENSG00000253947	ENST00000518837	antisense	KNOWN	None	None	None	None	167392192	167394091	-1	None	None
11	None	ENSG00000255653	ENST00000545768	unprocessed_pseudogene	KNOWN	None	None	None	None	94745022	94745696	1	None	None
16	EXOC3L1	ENSG00000179044	ENST00000314586	protein_coding	KNOWN	CCDS10832	27540	2241	746	67218269	67224107	-1	EXOC3L	FLJ35539, FLJ35587
16	EXOC3L1	ENSG00000179044	ENST00000545725	protein_coding	NOVEL	None	27540	2038	678	67218282	67224075	-1	EXOC3L	FLJ35539, FLJ35587
16	EXOC3L1	ENSG00000179044	ENST00000564324	nonsense_mediated_decay	KNOWN	None	27540	243	80	67218283	67224002	-1	EXOC3L	FLJ35539, FLJ35587
16	EXOC3L1	ENSG00000179044	ENST00000563889	protein_coding	NOVEL	None	27540	2052	683	67218283	67224039	-1	EXOC3L	FLJ35539, FLJ35587
16	EXOC3L1	ENSG00000179044	ENST00000563536	retained_intron	KNOWN	None	27540	None	None	67218284	67219567	-1	EXOC3L	FLJ35539, FLJ35587
16	EXOC3L1	ENSG00000179044	ENST00000562887	processed_transcript	KNOWN	None	27540	None	None	67220934	67224088	-1	EXOC3L	FLJ35539, FLJ35587
16	EXOC3L1	ENSG00000179044	ENST00000564418	protein_coding	PUTATIVE	None	27540	544	180	67221624	67224041	-1	EXOC3L	FLJ35539, FLJ35587
12	None	ENSG00000255830	ENST00000548774	processed_pseudogene	KNOWN	None	None	None	None	114986659	114987657	1	None	None
6	None	ENSG00000272017	ENST00000607332	antisense	KNOWN	None	None	None	None	100015973	100016972	1	None	None
11	None	ENSG00000256779	ENST00000442518	processed_pseudogene	KNOWN	None	None	None	None	94770646	94771620	1	None	None
8	None	ENSG00000251963	ENST00000516154	miRNA	NOVEL	None	None	None	None	18667010	18667136	-1	None	None
11	SNORA70E	ENSG00000207221	ENST00000384492	snoRNA	KNOWN	None	34357	None	None	82752506	82752640	-1	None	U70E
1	TP73	ENSG00000078900	ENST00000378295	protein_coding	KNOWN	CCDS49	12003	1911	636	3569084	3652765	1	None	P73
1	TP73	ENSG00000078900	ENST00000604074	protein_coding	NOVEL	None	12003	1212	403	3569084	3652765	1	None	P73
1	TP73	ENSG00000078900	ENST00000354437	protein_coding	KNOWN	CCDS55566	12003	1500	499	3569129	3649856	1	None	P73
1	TP73	ENSG00000078900	ENST00000603362	protein_coding	KNOWN	CCDS55567	12003	1668	555	3598930	3649643	1	None	P73
1	TP73	ENSG00000078900	ENST00000604479	protein_coding	KNOWN	CCDS55568	12003	1623	540	3598930	3649643	1	None	P73
1	TP73	ENSG00000078900	ENST00000378285	protein_coding	KNOWN	CCDS44050	12003	1353	450	3607236	3649856	1	None	P73
1	TP73	ENSG00000078900	ENST00000378280	protein_coding	KNOWN	CCDS44051	12003	1281	426	3607236	3649856	1	None	P73
1	TP73	ENSG00000078900	ENST00000378288	protein_coding	KNOWN	CCDS44049	12003	1764	587	3607236	3652765	1	None	P73
1	TP73	ENSG00000078900	ENST00000603364	retained_intron	KNOWN	None	12003	None	None	3607271	3646315	1	None	P73
1	TP73	ENSG00000078900	ENST00000604194	retained_intron	KNOWN	None	12003	None	None	3614610	3625098	1	None	P73
1	TP73	ENSG00000078900	ENST00000378290	protein_coding	NOVEL	CCDS55569	12003	1698	565	3614622	3649655	1	None	P73
1	TP73	ENSG00000078900	ENST00000604566	retained_intron	KNOWN	None	12003	None	None	3644042	3649931	1	None	P73
1	TP73	ENSG00000078900	ENST00000357733	protein_coding	KNOWN	CCDS55567	12003	1668	555	3569129	3650467	1	None	P73
1	TP73	ENSG00000078900	ENST00000346387	protein_coding	KNOWN	CCDS55568	12003	1623	540	3569129	3650467	1	None	P73
17	SUZ12	ENSG00000178691	ENST00000322652	protein_coding	KNOWN	CCDS11270	17101	2220	739	30264037	30328064	1	None	JJAZ1, KIAA0160, CHET9
17	SUZ12	ENSG00000178691	ENST00000580398	protein_coding	NOVEL	None	17101	2151	716	30264086	30327668	1	None	JJAZ1, KIAA0160, CHET9
17	SUZ12	ENSG00000178691	ENST00000494429	retained_intron	KNOWN	None	17101	None	None	30292714	30294608	1	None	JJAZ1, KIAA0160, CHET9
17	SUZ12	ENSG00000178691	ENST00000578106	retained_intron	KNOWN	None	17101	None	None	30321372	30326395	1	None	JJAZ1, KIAA0160, CHET9
3	PPIAP16	ENSG00000213509	ENST00000462517	processed_pseudogene	KNOWN	None	9269	None	None	57927545	57928031	1	PPIP6	None
20	RPL36P1	ENSG00000230636	ENST00000419720	processed_pseudogene	KNOWN	None	16338	None	None	51506701	51506925	1	None	bA80K6.3
3	BPESC1	ENSG00000232416	ENST00000418282	lincRNA	KNOWN	None	13228	None	None	138823027	138844009	1	None	NCRNA00187
14	None	ENSG00000258450	ENST00000556657	sense_intronic	KNOWN	None	None	None	None	50096009	50096608	-1	None	None
16	None	ENSG00000260413	ENST00000569730	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	29323671	29342598	1	None	None
3	None	ENSG00000239432	ENST00000467186	processed_pseudogene	KNOWN	None	None	None	None	125474929	125475305	1	None	None
6	None	ENSG00000219755	ENST00000407121	processed_pseudogene	KNOWN	None	None	None	None	100023588	100024332	1	None	None
3	None	ENSG00000227971	ENST00000427601	processed_pseudogene	KNOWN	None	None	None	None	189363116	189363255	-1	None	None
Y	ARSFP1	ENSG00000232226	ENST00000398758	unprocessed_pseudogene	KNOWN	None	722	None	None	14373025	14378737	-1	ARSFP	None
1	None	ENSG00000236679	ENST00000458203	processed_pseudogene	KNOWN	None	None	None	None	470971	471355	1	None	None
8	None	ENSG00000201157	ENST00000364287	snoRNA	NOVEL	None	None	None	None	18837129	18837282	1	None	None
3	MAPKAPK3	ENSG00000114738	ENST00000486712	processed_transcript	KNOWN	None	6888	None	None	50648951	50651331	1	None	3pK, MAPKAP3, 3PK
3	MAPKAPK3	ENSG00000114738	ENST00000446044	protein_coding	KNOWN	CCDS2832	6888	1149	382	50649339	50686720	1	None	3pK, MAPKAP3, 3PK
3	MAPKAPK3	ENSG00000114738	ENST00000497283	processed_transcript	KNOWN	None	6888	None	None	50649759	50651548	1	None	3pK, MAPKAP3, 3PK
3	MAPKAPK3	ENSG00000114738	ENST00000430409	protein_coding	KNOWN	None	6888	997	331	50654562	50684635	1	None	3pK, MAPKAP3, 3PK
3	MAPKAPK3	ENSG00000114738	ENST00000357955	protein_coding	KNOWN	CCDS2832	6888	1149	382	50654601	50686719	1	None	3pK, MAPKAP3, 3PK
3	MAPKAPK3	ENSG00000114738	ENST00000457064	protein_coding	KNOWN	None	6888	359	118	50654821	50677936	1	None	3pK, MAPKAP3, 3PK
3	MAPKAPK3	ENSG00000114738	ENST00000451680	protein_coding	PUTATIVE	None	6888	292	96	50683643	50686058	1	None	3pK, MAPKAP3, 3PK
16	TP53TG3D	ENSG00000205456	ENST00000398664	protein_coding	KNOWN	CCDS58456	44657	375	124	32264040	32267240	1	None	None
16	TP53TG3D	ENSG00000205456	ENST00000380148	nonsense_mediated_decay	KNOWN	None	44657	399	132	32264643	32267240	1	None	None
16	TP53TG3D	ENSG00000205456	ENST00000569631	protein_coding	PUTATIVE	None	44657	309	102	32264645	32266558	1	None	None
16	TP53TG3D	ENSG00000205456	ENST00000563025	nonsense_mediated_decay	KNOWN	None	44657	309	102	32264665	32266256	1	None	None
16	TP53TG3D	ENSG00000205456	ENST00000568044	nonsense_mediated_decay	KNOWN	None	44657	22	6	32265157	32266955	1	None	None
16	TP53TG3D	ENSG00000205456	ENST00000564810	processed_transcript	KNOWN	None	44657	None	None	32265373	32266535	1	None	None
16	TP53TG3D	ENSG00000205456	ENST00000567978	retained_intron	KNOWN	None	44657	None	None	32265533	32266386	1	None	None
16	TP53TG3D	ENSG00000205456	ENST00000354614	protein_coding	KNOWN	None	44657	399	132	32264662	32265178	1	None	None
17	LINC00511	ENSG00000227036	ENST00000579631	lincRNA	KNOWN	None	43564	None	None	70319264	70322090	-1	None	None
17	LINC00511	ENSG00000227036	ENST00000580199	lincRNA	KNOWN	None	43564	None	None	70319286	70322073	-1	None	None
17	LINC00511	ENSG00000227036	ENST00000581801	lincRNA	KNOWN	None	43564	None	None	70319299	70588494	-1	None	None
17	LINC00511	ENSG00000227036	ENST00000581183	lincRNA	KNOWN	None	43564	None	None	70320204	70335708	-1	None	None
17	LINC00511	ENSG00000227036	ENST00000583460	processed_transcript	KNOWN	None	43564	None	None	70379096	70381264	-1	None	None
17	LINC00511	ENSG00000227036	ENST00000453722	lincRNA	KNOWN	None	43564	None	None	70380443	70588943	-1	None	None
17	LINC00511	ENSG00000227036	ENST00000457958	lincRNA	KNOWN	None	43564	None	None	70399463	70588479	-1	None	None
17	LINC00511	ENSG00000227036	ENST00000578206	lincRNA	KNOWN	None	43564	None	None	70400292	70419167	-1	None	None
17	LINC00511	ENSG00000227036	ENST00000580500	lincRNA	KNOWN	None	43564	None	None	70400663	70441259	-1	None	None
17	LINC00511	ENSG00000227036	ENST00000577828	lincRNA	KNOWN	None	43564	None	None	70400780	70427300	-1	None	None
17	LINC00511	ENSG00000227036	ENST00000580948	lincRNA	KNOWN	None	43564	None	None	70400801	70417365	-1	None	None
17	LINC00511	ENSG00000227036	ENST00000582712	lincRNA	KNOWN	None	43564	None	None	70417121	70424430	-1	None	None
17	LINC00511	ENSG00000227036	ENST00000577773	lincRNA	KNOWN	None	43564	None	None	70417970	70419211	-1	None	None
17	LINC00511	ENSG00000227036	ENST00000584749	lincRNA	KNOWN	None	43564	None	None	70424113	70427332	-1	None	None
17	LINC00511	ENSG00000227036	ENST00000580175	lincRNA	KNOWN	None	43564	None	None	70424409	70466506	-1	None	None
17	LINC00511	ENSG00000227036	ENST00000580861	lincRNA	KNOWN	None	43564	None	None	70427305	70599647	-1	None	None
17	LINC00511	ENSG00000227036	ENST00000581549	lincRNA	KNOWN	None	43564	None	None	70594180	70636611	-1	None	None
12	None	ENSG00000256389	ENST00000539105	lincRNA	KNOWN	None	None	None	None	17742191	17768397	1	None	None
X	None	ENSG00000228372	ENST00000453528	processed_transcript	KNOWN	None	None	None	None	134250684	134257880	1	None	None
3	MIR944	ENSG00000216058	ENST00000401239	miRNA	KNOWN	None	33690	None	None	189547711	189547798	1	MIRN944	hsa-mir-944
9	TMEM8C	ENSG00000187616	ENST00000339996	protein_coding	KNOWN	CCDS35170	33778	666	221	136379708	136390068	-1	None	TMEM226
9	TMEM8C	ENSG00000187616	ENST00000413714	processed_transcript	KNOWN	None	33778	None	None	136380653	136393734	-1	None	TMEM226
2	None	ENSG00000271825	ENST00000606180	antisense	KNOWN	None	None	None	None	178165328	178166734	1	None	None
12	None	ENSG00000265632	ENST00000581515	miRNA	NOVEL	None	None	None	None	114988567	114988654	-1	None	None
12	KRT18P60	ENSG00000215208	ENST00000312876	processed_pseudogene	KNOWN	None	48887	None	None	65812511	65813807	-1	None	None
19	RN7SKP109	ENSG00000222524	ENST00000410592	misc_RNA	KNOWN	None	45833	None	None	56248651	56248966	1	None	None
14	IGHVII-31-1	ENSG00000253149	ENST00000521012	IG_V_pseudogene	KNOWN	None	5677	None	None	106810597	106810633	-1	None	IGHV(II)-31-1
2	None	ENSG00000271996	ENST00000606200	antisense	KNOWN	None	None	None	None	178171101	178175300	1	None	None
GL000221.1	None	ENSG00000268276	ENST00000600459	protein_coding	KNOWN	None	None	183	60	62571	62753	-1	None	None
3	MTAPP2	ENSG00000230077	ENST00000437063	processed_pseudogene	KNOWN	None	42443	None	None	189686819	189687650	-1	None	None
19	FDX1L	ENSG00000267673	ENST00000393708	protein_coding	KNOWN	CCDS32905	30546	552	183	10420721	10426691	-1	None	MGC19604
19	FDX1L	ENSG00000267673	ENST00000492239	processed_transcript	KNOWN	None	30546	None	None	10420893	10426471	-1	None	MGC19604
19	FDX1L	ENSG00000267673	ENST00000494368	protein_coding	PUTATIVE	None	30546	147	48	10421031	10426691	-1	None	MGC19604
19	FDX1L	ENSG00000267673	ENST00000460631	retained_intron	KNOWN	None	30546	None	None	10421149	10426672	-1	None	MGC19604
19	FDX1L	ENSG00000267673	ENST00000343376	retained_intron	KNOWN	None	30546	None	None	10421172	10426689	-1	None	MGC19604
19	FDX1L	ENSG00000267673	ENST00000453681	retained_intron	KNOWN	None	30546	None	None	10421185	10426686	-1	None	MGC19604
19	FDX1L	ENSG00000267673	ENST00000486454	retained_intron	KNOWN	None	30546	None	None	10426007	10426682	-1	None	MGC19604
19	FDX1L	ENSG00000267673	ENST00000541276	protein_coding	KNOWN	None	30546	438	145	10416103	10426685	-1	None	MGC19604
19	RFPL4AP1	ENSG00000255238	ENST00000530883	processed_pseudogene	KNOWN	None	45138	None	None	56288919	56290266	1	None	None
8	None	ENSG00000253335	ENST00000522670	antisense	KNOWN	None	None	None	None	18846789	18858462	1	None	None
2	None	ENSG00000237178	ENST00000453859	processed_pseudogene	KNOWN	None	None	None	None	178209171	178209564	1	None	None
11	RAB30-AS1	ENSG00000246067	ENST00000501011	lincRNA	KNOWN	None	48672	None	None	82783108	82784688	1	None	None
11	RAB30-AS1	ENSG00000246067	ENST00000527627	lincRNA	KNOWN	None	48672	None	None	82783108	82817761	1	None	None
11	RAB30-AS1	ENSG00000246067	ENST00000526795	lincRNA	KNOWN	None	48672	None	None	82783124	82788215	1	None	None
11	RAB30-AS1	ENSG00000246067	ENST00000533528	lincRNA	KNOWN	None	48672	None	None	82783146	82803380	1	None	None
11	RAB30-AS1	ENSG00000246067	ENST00000533708	lincRNA	KNOWN	None	48672	None	None	82783160	82784425	1	None	None
11	RAB30-AS1	ENSG00000246067	ENST00000534499	lincRNA	KNOWN	None	48672	None	None	82783164	82784236	1	None	None
11	RAB30-AS1	ENSG00000246067	ENST00000528156	lincRNA	KNOWN	None	48672	None	None	82783385	82784642	1	None	None
11	RAB30-AS1	ENSG00000246067	ENST00000530270	lincRNA	KNOWN	None	48672	None	None	82783397	82785010	1	None	None
HSCHR12_2_CTG2_1	None	ENSG00000262592	ENST00000573768	antisense	KNOWN	None	None	None	None	59314420	59465068	1	None	None
15	DNM1P33	ENSG00000260096	ENST00000565222	unprocessed_pseudogene	KNOWN	None	35180	None	None	74355121	74356126	1	DNM1DN7@	DNM1DN7-2
3	FLNB-AS1	ENSG00000244161	ENST00000488720	antisense	KNOWN	None	40239	None	None	58148274	58156363	-1	None	None
3	FLNB-AS1	ENSG00000244161	ENST00000472922	antisense	KNOWN	None	40239	None	None	58149700	58151041	-1	None	None
19	None	ENSG00000267522	ENST00000587218	lincRNA	KNOWN	None	None	None	None	56578050	56590167	1	None	None
12	OSTF1P1	ENSG00000258244	ENST00000550242	processed_pseudogene	KNOWN	None	31439	None	None	115025999	115026607	1	OSTF1P	None
5	None	ENSG00000253065	ENST00000517256	snoRNA	NOVEL	None	None	None	None	167460096	167460210	-1	None	None
11	None	ENSG00000257012	ENST00000542623	unprocessed_pseudogene	KNOWN	None	None	None	None	94773575	94774735	1	None	None
2	None	ENSG00000238295	ENST00000459157	snoRNA	NOVEL	None	None	None	None	178210586	178210689	-1	None	None
4	None	ENSG00000178636	ENST00000503243	protein_coding	PUTATIVE	None	None	457	151	120113928	120133667	-1	None	None
4	None	ENSG00000178636	ENST00000515843	processed_transcript	KNOWN	None	None	None	None	120114843	120133799	-1	None	None
4	None	ENSG00000178636	ENST00000326780	protein_coding	KNOWN	None	None	402	133	120113928	120133667	-1	None	None
14	None	ENSG00000259155	ENST00000554632	processed_pseudogene	KNOWN	None	None	None	None	50144087	50144611	1	None	None
HSCHR12_1_CTG5	None	ENSG00000262850	ENST00000574966	lincRNA	KNOWN	None	None	None	None	126848622	126849484	1	None	None
20	None	ENSG00000252629	ENST00000516820	miRNA	NOVEL	None	None	None	None	51679156	51679240	1	None	None
2	None	ENSG00000237655	ENST00000357045	antisense	KNOWN	None	None	None	None	178467817	178483300	1	None	None
HSCHR6_MHC_DBB	ABHD16A	ENSG00000231488	ENST00000488822	retained_intron	KNOWN	None	13921	None	None	31636907	31638341	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_DBB	ABHD16A	ENSG00000231488	ENST00000475221	retained_intron	KNOWN	None	13921	None	None	31636907	31640554	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_DBB	ABHD16A	ENSG00000231488	ENST00000494438	processed_transcript	KNOWN	None	13921	None	None	31636907	31653025	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_DBB	ABHD16A	ENSG00000231488	ENST00000490636	processed_transcript	KNOWN	None	13921	None	None	31636907	31653292	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_DBB	ABHD16A	ENSG00000231488	ENST00000413853	protein_coding	KNOWN	None	13921	1806	601	31636907	31653368	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_DBB	ABHD16A	ENSG00000231488	ENST00000475565	retained_intron	KNOWN	None	13921	None	None	31637339	31638273	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_DBB	ABHD16A	ENSG00000231488	ENST00000483036	retained_intron	KNOWN	None	13921	None	None	31637527	31638255	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_DBB	ABHD16A	ENSG00000231488	ENST00000498795	processed_transcript	KNOWN	None	13921	None	None	31637605	31640197	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_DBB	ABHD16A	ENSG00000231488	ENST00000471072	retained_intron	KNOWN	None	13921	None	None	31637725	31641598	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_DBB	ABHD16A	ENSG00000231488	ENST00000497893	processed_transcript	KNOWN	None	13921	None	None	31638967	31653285	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_DBB	ABHD16A	ENSG00000231488	ENST00000422404	protein_coding	KNOWN	None	13921	791	262	31640508	31652818	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_DBB	ABHD16A	ENSG00000231488	ENST00000465691	processed_transcript	KNOWN	None	13921	None	None	31641398	31643008	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_DBB	ABHD16A	ENSG00000231488	ENST00000481370	retained_intron	KNOWN	None	13921	None	None	31641541	31642246	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_DBB	ABHD16A	ENSG00000231488	ENST00000549543	protein_coding	KNOWN	None	13921	1677	558	31636901	31653312	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_DBB	ABHD16A	ENSG00000231488	ENST00000551038	protein_coding	KNOWN	None	13921	1578	525	31636901	31653025	-1	BAT5	NG26, D6S82E
14	IGHV3-32	ENSG00000254289	ENST00000519182	IG_V_pseudogene	KNOWN	None	5595	None	None	106812091	106812517	-1	None	None
5	None	ENSG00000253925	ENST00000517408	antisense	KNOWN	None	None	None	None	167512334	167614724	-1	None	None
3	RN7SL486P	ENSG00000265045	ENST00000577954	misc_RNA	KNOWN	None	46502	None	None	189831723	189832061	1	None	None
19	None	ENSG00000223060	ENST00000411128	misc_RNA	NOVEL	None	None	None	None	56616785	56616879	1	None	None
15	None	ENSG00000256802	ENST00000536835	antisense	KNOWN	None	None	None	None	29967194	29971372	1	None	None
15	None	ENSG00000256802	ENST00000560994	antisense	KNOWN	None	None	None	None	29969417	29973161	1	None	None
12	None	ENSG00000258254	ENST00000547819	lincRNA	KNOWN	None	None	None	None	115059566	115060727	1	None	None
3	RPL32	ENSG00000144713	ENST00000429711	protein_coding	KNOWN	CCDS2614	10336	408	135	12875984	12883087	-1	None	L32
3	RPL32	ENSG00000144713	ENST00000273223	protein_coding	NOVEL	None	10336	462	153	12877546	12883045	-1	None	L32
3	RPL32	ENSG00000144713	ENST00000435983	protein_coding	KNOWN	CCDS2614	10336	408	135	12877549	12883044	-1	None	L32
3	RPL32	ENSG00000144713	ENST00000396953	protein_coding	KNOWN	CCDS2614	10336	408	135	12877559	12883028	-1	None	L32
3	RPL32	ENSG00000144713	ENST00000457131	protein_coding	KNOWN	None	10336	400	132	12877601	12883043	-1	None	L32
3	RPL32	ENSG00000144713	ENST00000452606	retained_intron	KNOWN	None	10336	None	None	12880550	12883042	-1	None	L32
3	RPL32	ENSG00000144713	ENST00000434963	protein_coding	KNOWN	None	10336	186	61	12880940	12882381	-1	None	L32
3	RPL32	ENSG00000144713	ENST00000396957	protein_coding	KNOWN	CCDS2614	10336	408	135	12876445	12883081	-1	None	L32
19	None	ENSG00000242411	ENST00000474329	processed_pseudogene	KNOWN	None	None	None	None	56728537	56729146	-1	None	None
2	None	ENSG00000204399	ENST00000423267	processed_pseudogene	KNOWN	None	None	None	None	128688901	128689014	1	None	None
8	RRM2B	ENSG00000048392	ENST00000251810	protein_coding	KNOWN	CCDS34932	17296	1056	351	103216730	103251346	-1	None	p53R2
8	RRM2B	ENSG00000048392	ENST00000522368	protein_coding	PUTATIVE	None	17296	1225	407	103219973	103251003	-1	None	p53R2
8	RRM2B	ENSG00000048392	ENST00000395910	retained_intron	KNOWN	None	17296	None	None	103220004	103226457	-1	None	p53R2
8	RRM2B	ENSG00000048392	ENST00000519962	protein_coding	KNOWN	None	17296	201	66	103220361	103251102	-1	None	p53R2
8	RRM2B	ENSG00000048392	ENST00000519317	protein_coding	KNOWN	None	17296	420	139	103220361	103251102	-1	None	p53R2
8	RRM2B	ENSG00000048392	ENST00000395912	protein_coding	KNOWN	CCDS55267	17296	900	299	103220361	103251102	-1	None	p53R2
8	RRM2B	ENSG00000048392	ENST00000522394	nonsense_mediated_decay	KNOWN	None	17296	132	43	103220361	103251102	-1	None	p53R2
8	RRM2B	ENSG00000048392	ENST00000519125	retained_intron	KNOWN	None	17296	None	None	103225004	103231243	-1	None	p53R2
8	RRM2B	ENSG00000048392	ENST00000523957	nonsense_mediated_decay	KNOWN	None	17296	198	65	103237151	103251167	-1	None	p53R2
8	RRM2B	ENSG00000048392	ENST00000517517	retained_intron	KNOWN	None	17296	None	None	103238203	103251025	-1	None	p53R2
15	RN7SL429P	ENSG00000244612	ENST00000479090	misc_RNA	KNOWN	None	46445	None	None	74364764	74365039	-1	None	None
12	None	ENSG00000206662	ENST00000383935	misc_RNA	NOVEL	None	None	None	None	17863868	17863980	1	None	None
20	RN7SKP184	ENSG00000199218	ENST00000362348	misc_RNA	KNOWN	None	45908	None	None	51714191	51714523	1	None	None
1	None	ENSG00000231709	ENST00000417636	lincRNA	KNOWN	None	None	None	None	521369	523833	-1	None	None
2	None	ENSG00000229941	ENST00000412133	antisense	KNOWN	None	None	None	None	178563157	178588017	1	None	None
2	None	ENSG00000229941	ENST00000450227	antisense	KNOWN	None	None	None	None	178563218	178588017	1	None	None
12	None	ENSG00000250748	ENST00000537250	lincRNA	KNOWN	None	None	None	None	65860600	66035978	-1	None	None
12	None	ENSG00000250748	ENST00000535315	lincRNA	KNOWN	None	None	None	None	65893471	66035937	-1	None	None
12	None	ENSG00000250748	ENST00000540652	lincRNA	KNOWN	None	None	None	None	65893667	65952469	-1	None	None
12	None	ENSG00000250748	ENST00000539653	lincRNA	KNOWN	None	None	None	None	65893679	66036142	-1	None	None
12	None	ENSG00000250748	ENST00000538294	lincRNA	KNOWN	None	None	None	None	65917043	65932479	-1	None	None
12	None	ENSG00000250748	ENST00000511935	lincRNA	KNOWN	None	None	None	None	65938018	65951091	-1	None	None
12	None	ENSG00000250748	ENST00000546198	lincRNA	KNOWN	None	None	None	None	65951914	66035922	-1	None	None
12	None	ENSG00000250748	ENST00000537298	lincRNA	KNOWN	None	None	None	None	65952208	66035940	-1	None	None
12	None	ENSG00000250748	ENST00000544557	lincRNA	KNOWN	None	None	None	None	65952211	66036152	-1	None	None
12	None	ENSG00000250748	ENST00000355869	lincRNA	KNOWN	None	None	None	None	66002251	66007009	-1	None	None
12	None	ENSG00000255892	ENST00000543144	processed_pseudogene	KNOWN	None	None	None	None	18511377	18511901	-1	None	None
8	None	ENSG00000270255	ENST00000603110	processed_pseudogene	KNOWN	None	None	None	None	18859137	18859460	1	None	None
19	None	ENSG00000267298	ENST00000591936	sense_intronic	KNOWN	None	None	None	None	56823297	56823855	-1	None	None
15	None	ENSG00000214702	ENST00000565063	unprocessed_pseudogene	KNOWN	None	None	None	None	74389447	74390755	-1	None	None
15	None	ENSG00000214702	ENST00000398821	unprocessed_pseudogene	KNOWN	None	None	None	None	74387926	74390758	-1	None	None
2	None	ENSG00000234044	ENST00000456388	processed_pseudogene	KNOWN	None	None	None	None	128824768	128824981	1	None	None
3	LEPREL1-AS1	ENSG00000225764	ENST00000412203	antisense	KNOWN	None	40886	None	None	189838753	189862635	1	None	None
14	None	ENSG00000258462	ENST00000554984	processed_pseudogene	KNOWN	None	None	None	None	50148020	50148604	1	None	None
4	PDLIM5	ENSG00000163110	ENST00000359265	protein_coding	PUTATIVE	CCDS58915	17468	411	136	95373037	95378332	1	None	LIM, Enh
4	PDLIM5	ENSG00000163110	ENST00000317968	protein_coding	KNOWN	CCDS3641	17468	1791	596	95373053	95589374	1	None	LIM, Enh
4	PDLIM5	ENSG00000163110	ENST00000514830	processed_transcript	KNOWN	None	17468	None	None	95373059	95503986	1	None	LIM, Enh
4	PDLIM5	ENSG00000163110	ENST00000512274	protein_coding	PUTATIVE	None	17468	144	47	95373071	95376693	1	None	LIM, Enh
4	PDLIM5	ENSG00000163110	ENST00000509333	retained_intron	KNOWN	None	17468	None	None	95373079	95494886	1	None	LIM, Enh
4	PDLIM5	ENSG00000163110	ENST00000503974	protein_coding	PUTATIVE	CCDS58917	17468	1452	483	95373086	95587703	1	None	LIM, Enh
4	PDLIM5	ENSG00000163110	ENST00000504489	protein_coding	PUTATIVE	None	17468	117	38	95373093	95377315	1	None	LIM, Enh
4	PDLIM5	ENSG00000163110	ENST00000508216	protein_coding	PUTATIVE	CCDS47103	17468	705	234	95376396	95509278	1	None	LIM, Enh
4	PDLIM5	ENSG00000163110	ENST00000514743	protein_coding	NOVEL	CCDS58916	17468	1878	625	95376396	95586652	1	None	LIM, Enh
4	PDLIM5	ENSG00000163110	ENST00000511767	processed_transcript	KNOWN	None	17468	None	None	95376418	95471137	1	None	LIM, Enh
4	PDLIM5	ENSG00000163110	ENST00000510099	processed_transcript	KNOWN	None	17468	None	None	95410186	95497089	1	None	LIM, Enh
4	PDLIM5	ENSG00000163110	ENST00000509357	nonsense_mediated_decay	KNOWN	None	17468	258	85	95444875	95539303	1	None	LIM, Enh
4	PDLIM5	ENSG00000163110	ENST00000513341	protein_coding	PUTATIVE	None	17468	590	195	95444876	95508437	1	None	LIM, Enh
4	PDLIM5	ENSG00000163110	ENST00000508531	processed_transcript	KNOWN	None	17468	None	None	95444982	95504150	1	None	LIM, Enh
4	PDLIM5	ENSG00000163110	ENST00000511586	processed_transcript	KNOWN	None	17468	None	None	95500372	95539342	1	None	LIM, Enh
4	PDLIM5	ENSG00000163110	ENST00000380176	processed_transcript	KNOWN	None	17468	None	None	95505552	95586632	1	None	LIM, Enh
4	PDLIM5	ENSG00000163110	ENST00000506632	nonsense_mediated_decay	KNOWN	None	17468	695	230	95506778	95578698	1	None	LIM, Enh
4	PDLIM5	ENSG00000163110	ENST00000437932	protein_coding	KNOWN	CCDS47102	17468	1464	487	95373038	95589377	1	None	LIM, Enh
4	PDLIM5	ENSG00000163110	ENST00000380180	protein_coding	KNOWN	CCDS47103	17468	705	234	95373038	95509367	1	None	LIM, Enh
4	PDLIM5	ENSG00000163110	ENST00000318007	protein_coding	KNOWN	CCDS47104	17468	645	214	95373038	95509367	1	None	LIM, Enh
4	PDLIM5	ENSG00000163110	ENST00000450793	protein_coding	KNOWN	None	17468	705	234	95373038	95508233	1	None	LIM, Enh
4	PDLIM5	ENSG00000163110	ENST00000538141	protein_coding	KNOWN	None	17468	645	214	95373038	95508233	1	None	LIM, Enh
4	PDLIM5	ENSG00000163110	ENST00000542407	protein_coding	KNOWN	CCDS58918	17468	1425	474	95373094	95585337	1	None	LIM, Enh
12	C12orf73	ENSG00000204954	ENST00000543740	processed_transcript	KNOWN	None	34450	None	None	104343980	104359473	-1	None	FLJ13975, DKFZp547P055
12	C12orf73	ENSG00000204954	ENST00000378090	protein_coding	KNOWN	CCDS44964	34450	216	71	104343985	104351042	-1	None	FLJ13975, DKFZp547P055
12	C12orf73	ENSG00000204954	ENST00000547975	protein_coding	PUTATIVE	None	34450	180	59	104344518	104350959	-1	None	FLJ13975, DKFZp547P055
12	C12orf73	ENSG00000204954	ENST00000549478	protein_coding	KNOWN	CCDS44964	34450	216	71	104344523	104350968	-1	None	FLJ13975, DKFZp547P055
12	C12orf73	ENSG00000204954	ENST00000553183	protein_coding	KNOWN	CCDS44964	34450	216	71	104345060	104359486	-1	None	FLJ13975, DKFZp547P055
12	C12orf73	ENSG00000204954	ENST00000549960	nonsense_mediated_decay	KNOWN	None	34450	162	53	104345188	104350912	-1	None	FLJ13975, DKFZp547P055
12	C12orf73	ENSG00000204954	ENST00000547945	protein_coding	KNOWN	CCDS44964	34450	216	71	104345198	104351051	-1	None	FLJ13975, DKFZp547P055
12	C12orf73	ENSG00000204954	ENST00000552460	nonsense_mediated_decay	KNOWN	None	34450	114	37	104345258	104350516	-1	None	FLJ13975, DKFZp547P055
12	C12orf73	ENSG00000204954	ENST00000552940	protein_coding	PUTATIVE	None	34450	180	59	104345362	104350925	-1	None	FLJ13975, DKFZp547P055
12	C12orf73	ENSG00000204954	ENST00000546819	protein_coding	PUTATIVE	None	34450	162	53	104348430	104350993	-1	None	FLJ13975, DKFZp547P055
12	C12orf73	ENSG00000204954	ENST00000546540	protein_coding	PUTATIVE	None	34450	141	46	104350082	104350991	-1	None	FLJ13975, DKFZp547P055
3	None	ENSG00000272182	ENST00000607214	antisense	KNOWN	None	None	None	None	58413982	58414542	1	None	None
GL000242.1	None	ENSG00000251180	ENST00000507732	protein_coding	KNOWN	None	None	4530	1509	12836	34543	1	None	None
19	None	ENSG00000267549	ENST00000587004	processed_transcript	KNOWN	None	None	None	None	56826072	56852656	1	None	None
19	None	ENSG00000267549	ENST00000587620	processed_transcript	KNOWN	None	None	None	None	56826623	56828172	1	None	None
19	None	ENSG00000267549	ENST00000587448	antisense	KNOWN	None	None	None	None	56826968	56852374	1	None	None
20	None	ENSG00000223492	ENST00000432706	antisense	KNOWN	None	None	None	None	51785182	51796089	-1	None	None
Y	RN7SL702P	ENSG00000243980	ENST00000488394	misc_RNA	KNOWN	None	46718	None	None	14394177	14394465	1	None	None
15	None	ENSG00000259445	ENST00000559299	lincRNA	KNOWN	None	None	None	None	82245644	82288007	-1	None	None
12	None	ENSG00000255960	ENST00000535964	processed_pseudogene	KNOWN	None	None	None	None	18577597	18578074	1	None	None
12	None	ENSG00000199220	ENST00000362350	misc_RNA	NOVEL	None	None	None	None	115095754	115095867	-1	None	None
5	None	ENSG00000269983	ENST00000602697	lincRNA	KNOWN	None	None	None	None	69745463	69746180	1	None	None
3	MINA	ENSG00000170854	ENST00000333396	protein_coding	KNOWN	CCDS43114	19441	1398	465	97663086	97691301	-1	None	MINA53, FLJ14393, mdig
3	MINA	ENSG00000170854	ENST00000394198	protein_coding	KNOWN	CCDS43114	19441	1398	465	97663195	97691295	-1	None	MINA53, FLJ14393, mdig
3	MINA	ENSG00000170854	ENST00000506682	retained_intron	KNOWN	None	19441	None	None	97663250	97668868	-1	None	MINA53, FLJ14393, mdig
3	MINA	ENSG00000170854	ENST00000360258	protein_coding	KNOWN	CCDS2929	19441	1395	464	97663404	97690931	-1	None	MINA53, FLJ14393, mdig
3	MINA	ENSG00000170854	ENST00000503517	retained_intron	KNOWN	None	19441	None	None	97664021	97670027	-1	None	MINA53, FLJ14393, mdig
3	MINA	ENSG00000170854	ENST00000503097	protein_coding	PUTATIVE	None	19441	84	27	97664182	97666245	-1	None	MINA53, FLJ14393, mdig
3	MINA	ENSG00000170854	ENST00000514314	nonsense_mediated_decay	KNOWN	None	19441	843	280	97666260	97686467	-1	None	MINA53, FLJ14393, mdig
3	MINA	ENSG00000170854	ENST00000507612	protein_coding	PUTATIVE	None	19441	327	108	97672851	97680522	-1	None	MINA53, FLJ14393, mdig
3	MINA	ENSG00000170854	ENST00000506099	protein_coding	KNOWN	None	19441	337	111	97686101	97690721	-1	None	MINA53, FLJ14393, mdig
3	MINA	ENSG00000170854	ENST00000330299	protein_coding	KNOWN	None	19441	843	280	97671039	97691224	-1	None	MINA53, FLJ14393, mdig
12	None	ENSG00000257817	ENST00000551875	lincRNA	KNOWN	None	None	None	None	115151616	115205762	1	None	None
8	None	ENSG00000253851	ENST00000523775	antisense	KNOWN	None	None	None	None	104240653	104241542	-1	None	None
3	None	ENSG00000214773	ENST00000398957	sense_intronic	KNOWN	None	None	None	None	47643205	47646167	-1	None	None
3	None	ENSG00000272360	ENST00000607592	lincRNA	KNOWN	None	None	None	None	58476557	58477018	-1	None	None
2	None	ENSG00000200432	ENST00000363562	misc_RNA	NOVEL	None	None	None	None	128825374	128825475	1	None	None
1	USF1	ENSG00000158773	ENST00000368020	protein_coding	KNOWN	CCDS1214	12593	933	310	161009041	161014731	-1	None	UEF, MLTFI, bHLHb11
1	USF1	ENSG00000158773	ENST00000368021	protein_coding	KNOWN	CCDS1214	12593	933	310	161009041	161015767	-1	None	UEF, MLTFI, bHLHb11
1	USF1	ENSG00000158773	ENST00000472217	retained_intron	KNOWN	None	12593	None	None	161009085	161010373	-1	None	UEF, MLTFI, bHLHb11
1	USF1	ENSG00000158773	ENST00000368019	protein_coding	NOVEL	None	12593	849	282	161009645	161013149	-1	None	UEF, MLTFI, bHLHb11
1	USF1	ENSG00000158773	ENST00000473969	nonsense_mediated_decay	KNOWN	None	12593	147	48	161009710	161015752	-1	None	UEF, MLTFI, bHLHb11
1	USF1	ENSG00000158773	ENST00000528768	protein_coding	PUTATIVE	None	12593	496	164	161009730	161011511	-1	None	UEF, MLTFI, bHLHb11
1	USF1	ENSG00000158773	ENST00000531842	protein_coding	NOVEL	None	12593	653	216	161009999	161013132	-1	None	UEF, MLTFI, bHLHb11
1	USF1	ENSG00000158773	ENST00000496363	retained_intron	KNOWN	None	12593	None	None	161010230	161015702	-1	None	UEF, MLTFI, bHLHb11
1	USF1	ENSG00000158773	ENST00000491629	retained_intron	KNOWN	None	12593	None	None	161011116	161015698	-1	None	UEF, MLTFI, bHLHb11
1	USF1	ENSG00000158773	ENST00000534633	protein_coding	PUTATIVE	None	12593	317	104	161011180	161015663	-1	None	UEF, MLTFI, bHLHb11
1	USF1	ENSG00000158773	ENST00000529476	retained_intron	KNOWN	None	12593	None	None	161011397	161015729	-1	None	UEF, MLTFI, bHLHb11
1	USF1	ENSG00000158773	ENST00000435396	protein_coding	KNOWN	None	12593	756	251	161009042	161015757	-1	None	UEF, MLTFI, bHLHb11
4	LARP7	ENSG00000174720	ENST00000344442	protein_coding	KNOWN	CCDS3701	24912	1749	582	113558120	113578742	1	None	HDCMA18P, PIP7S, DKFZP564K112
4	LARP7	ENSG00000174720	ENST00000512589	nonsense_mediated_decay	KNOWN	None	24912	306	101	113558263	113567749	1	None	HDCMA18P, PIP7S, DKFZP564K112
4	LARP7	ENSG00000174720	ENST00000509061	protein_coding	PUTATIVE	CCDS58924	24912	1770	589	113558282	113578742	1	None	HDCMA18P, PIP7S, DKFZP564K112
4	LARP7	ENSG00000174720	ENST00000509622	nonsense_mediated_decay	KNOWN	None	24912	138	45	113558283	113578742	1	None	HDCMA18P, PIP7S, DKFZP564K112
4	LARP7	ENSG00000174720	ENST00000508577	protein_coding	KNOWN	None	24912	358	118	113558321	113567798	1	None	HDCMA18P, PIP7S, DKFZP564K112
4	LARP7	ENSG00000174720	ENST00000513553	protein_coding	PUTATIVE	None	24912	467	154	113558337	113574279	1	None	HDCMA18P, PIP7S, DKFZP564K112
4	LARP7	ENSG00000174720	ENST00000504079	retained_intron	KNOWN	None	24912	None	None	113558349	113559176	1	None	HDCMA18P, PIP7S, DKFZP564K112
4	LARP7	ENSG00000174720	ENST00000505034	protein_coding	KNOWN	None	24912	897	298	113558612	113568605	1	None	HDCMA18P, PIP7S, DKFZP564K112
4	LARP7	ENSG00000174720	ENST00000505216	nonsense_mediated_decay	KNOWN	None	24912	138	45	113558681	113568058	1	None	HDCMA18P, PIP7S, DKFZP564K112
4	LARP7	ENSG00000174720	ENST00000507443	protein_coding	KNOWN	None	24912	387	128	113565460	113567827	1	None	HDCMA18P, PIP7S, DKFZP564K112
4	LARP7	ENSG00000174720	ENST00000503316	processed_transcript	KNOWN	None	24912	None	None	113568046	113568494	1	None	HDCMA18P, PIP7S, DKFZP564K112
4	LARP7	ENSG00000174720	ENST00000511529	protein_coding	NOVEL	None	24912	1003	333	113568367	113575269	1	None	HDCMA18P, PIP7S, DKFZP564K112
4	LARP7	ENSG00000174720	ENST00000512361	retained_intron	KNOWN	None	24912	None	None	113574254	113575918	1	None	HDCMA18P, PIP7S, DKFZP564K112
4	LARP7	ENSG00000174720	ENST00000503898	processed_transcript	PUTATIVE	None	24912	None	None	113576519	113578748	1	None	HDCMA18P, PIP7S, DKFZP564K112
4	LARP7	ENSG00000174720	ENST00000324052	protein_coding	KNOWN	CCDS3701	24912	1749	582	113558612	113578741	1	None	HDCMA18P, PIP7S, DKFZP564K112
5	None	ENSG00000253940	ENST00000519101	processed_pseudogene	KNOWN	None	None	None	None	31066077	31066239	-1	None	None
2	None	ENSG00000236664	ENST00000457053	sense_intronic	KNOWN	None	None	None	None	178817838	178876716	-1	None	None
3	None	ENSG00000236722	ENST00000412199	processed_pseudogene	KNOWN	None	None	None	None	58497037	58497403	1	None	None
15	None	ENSG00000259622	ENST00000558741	processed_pseudogene	KNOWN	None	None	None	None	82302553	82302948	-1	None	None
X	LINC00633	ENSG00000224107	ENST00000426364	processed_transcript	KNOWN	None	44269	None	None	134252881	134253674	-1	None	None
X	LINC00633	ENSG00000224107	ENST00000423661	processed_transcript	KNOWN	None	44269	None	None	134252881	134254454	-1	None	None
2	RN7SL206P	ENSG00000264856	ENST00000580933	misc_RNA	KNOWN	None	46222	None	None	128879655	128879963	1	None	None
HSCHR5_2_CTG1	CT49	ENSG00000262032	ENST00000576242	processed_transcript	KNOWN	None	37171	None	None	12574969	12655799	1	None	TAG
HSCHR5_2_CTG1	CT49	ENSG00000262032	ENST00000573067	processed_transcript	KNOWN	None	37171	None	None	12574969	12779903	1	None	TAG
HSCHR5_2_CTG1	CT49	ENSG00000262032	ENST00000571599	processed_transcript	KNOWN	None	37171	None	None	12574969	12824618	1	None	TAG
3	None	ENSG00000252733	ENST00000516924	miRNA	NOVEL	None	None	None	None	189861445	189861532	1	None	None
11	None	ENSG00000254487	ENST00000532682	unprocessed_pseudogene	KNOWN	None	None	None	None	49839330	49847105	1	None	None
5	None	ENSG00000250687	ENST00000504546	processed_transcript	KNOWN	None	None	None	None	69758071	69775011	1	None	None
5	None	ENSG00000250687	ENST00000425529	processed_transcript	KNOWN	None	None	None	None	69758071	69775042	1	None	None
5	None	ENSG00000250687	ENST00000502493	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	69769275	69774408	1	None	None
Y	FAM8A4P	ENSG00000232730	ENST00000435433	processed_pseudogene	KNOWN	None	16375	None	None	14442350	14443562	1	FAM8A8P	None
3	RNU6-1109P	ENSG00000212489	ENST00000391187	snRNA	KNOWN	None	48072	None	None	189883206	189883312	-1	None	None
4	RNA5SP174	ENSG00000199572	ENST00000362702	rRNA	KNOWN	None	43074	None	None	190936293	190936410	1	RN5S174	None
2	None	ENSG00000229173	ENST00000411629	processed_pseudogene	KNOWN	None	None	None	None	128897366	128898090	-1	None	None
11	None	ENSG00000255845	ENST00000541495	antisense	KNOWN	None	None	None	None	60581405	60589212	-1	None	None
8	None	ENSG00000266289	ENST00000577199	lincRNA	KNOWN	None	None	None	None	104395306	104396082	-1	None	None
20	None	ENSG00000227705	ENST00000435057	antisense	KNOWN	None	None	None	None	51812768	51825244	-1	None	None
2	API5P2	ENSG00000213962	ENST00000397055	processed_pseudogene	KNOWN	None	39070	None	None	178862000	178863497	-1	None	None
4	RNA5SP175	ENSG00000201145	ENST00000364275	rRNA	KNOWN	None	43075	None	None	190938851	190938969	1	RN5S175	None
3	None	ENSG00000238077	ENST00000457517	processed_pseudogene	KNOWN	None	None	None	None	189884553	189885440	1	None	None
HSCHR12_1_CTG5	None	ENSG00000262653	ENST00000575376	lincRNA	KNOWN	None	None	None	None	126849890	126851653	1	None	None
11	CD59	ENSG00000085063	ENST00000534312	protein_coding	PUTATIVE	None	1689	393	130	33719807	33744002	-1	MIC11, MIN1, MSK21, MIN2, MIN3	16.3A5, EJ16, EJ30, EL32, G344, p18-20
11	CD59	ENSG00000085063	ENST00000527926	nonsense_mediated_decay	KNOWN	None	1689	327	108	33719808	33743994	-1	MIC11, MIN1, MSK21, MIN2, MIN3	16.3A5, EJ16, EJ30, EL32, G344, p18-20
11	CD59	ENSG00000085063	ENST00000525763	nonsense_mediated_decay	KNOWN	CCDS7886	1689	387	128	33719901	33744013	-1	MIC11, MIN1, MSK21, MIN2, MIN3	16.3A5, EJ16, EJ30, EL32, G344, p18-20
11	CD59	ENSG00000085063	ENST00000533181	nonsense_mediated_decay	KNOWN	None	1689	158	51	33724238	33731829	-1	MIC11, MIN1, MSK21, MIN2, MIN3	16.3A5, EJ16, EJ30, EL32, G344, p18-20
11	CD59	ENSG00000085063	ENST00000395850	protein_coding	KNOWN	CCDS7886	1689	387	128	33730246	33757985	-1	MIC11, MIN1, MSK21, MIN2, MIN3	16.3A5, EJ16, EJ30, EL32, G344, p18-20
11	CD59	ENSG00000085063	ENST00000533403	protein_coding	NOVEL	None	1689	360	119	33730379	33757954	-1	MIC11, MIN1, MSK21, MIN2, MIN3	16.3A5, EJ16, EJ30, EL32, G344, p18-20
11	CD59	ENSG00000085063	ENST00000351554	protein_coding	KNOWN	CCDS7886	1689	387	128	33730411	33757991	-1	MIC11, MIN1, MSK21, MIN2, MIN3	16.3A5, EJ16, EJ30, EL32, G344, p18-20
11	CD59	ENSG00000085063	ENST00000528987	retained_intron	KNOWN	None	1689	None	None	33730416	33741157	-1	MIC11, MIN1, MSK21, MIN2, MIN3	16.3A5, EJ16, EJ30, EL32, G344, p18-20
11	CD59	ENSG00000085063	ENST00000415002	protein_coding	KNOWN	CCDS7886	1689	387	128	33730446	33744256	-1	MIC11, MIN1, MSK21, MIN2, MIN3	16.3A5, EJ16, EJ30, EL32, G344, p18-20
11	CD59	ENSG00000085063	ENST00000445143	protein_coding	KNOWN	CCDS7886	1689	387	128	33731344	33744273	-1	MIC11, MIN1, MSK21, MIN2, MIN3	16.3A5, EJ16, EJ30, EL32, G344, p18-20
11	CD59	ENSG00000085063	ENST00000426650	protein_coding	KNOWN	CCDS7886	1689	387	128	33731372	33744498	-1	MIC11, MIN1, MSK21, MIN2, MIN3	16.3A5, EJ16, EJ30, EL32, G344, p18-20
11	CD59	ENSG00000085063	ENST00000437761	protein_coding	KNOWN	CCDS7886	1689	387	128	33731475	33744272	-1	MIC11, MIN1, MSK21, MIN2, MIN3	16.3A5, EJ16, EJ30, EL32, G344, p18-20
11	CD59	ENSG00000085063	ENST00000527577	protein_coding	KNOWN	CCDS7886	1689	387	128	33731551	33757971	-1	MIC11, MIN1, MSK21, MIN2, MIN3	16.3A5, EJ16, EJ30, EL32, G344, p18-20
11	CD59	ENSG00000085063	ENST00000528700	protein_coding	KNOWN	CCDS7886	1689	387	128	33731627	33757968	-1	MIC11, MIN1, MSK21, MIN2, MIN3	16.3A5, EJ16, EJ30, EL32, G344, p18-20
8	RNU6-1011P	ENSG00000207399	ENST00000384668	snRNA	KNOWN	None	47974	None	None	104397189	104397295	1	None	None
4	DUX4L9	ENSG00000224807	ENST00000449051	unprocessed_pseudogene	KNOWN	None	33855	None	None	190942562	190943820	-1	None	None
3	None	ENSG00000235695	ENST00000427885	processed_pseudogene	KNOWN	None	None	None	None	47705116	47705424	1	None	None
12	None	ENSG00000256138	ENST00000543668	processed_pseudogene	KNOWN	None	None	None	None	18645985	18646657	1	None	None
HSCHR12_2_CTG2_1	RPS6P22	ENSG00000262159	ENST00000572611	processed_pseudogene	KNOWN	None	35655	None	None	59420999	59421724	1	None	None
15	None	ENSG00000222521	ENST00000410589	miRNA	NOVEL	None	None	None	None	82336635	82336717	1	None	None
4	RARRES2P4	ENSG00000250053	ENST00000514074	processed_pseudogene	KNOWN	None	48703	None	None	190959071	190959554	-1	None	None
2	None	ENSG00000229744	ENST00000430884	processed_pseudogene	KNOWN	None	None	None	None	178882720	178883192	1	None	None
12	None	ENSG00000252459	ENST00000516650	snoRNA	NOVEL	None	None	None	None	115175509	115175603	1	None	None
11	None	ENSG00000255268	ENST00000528639	unprocessed_pseudogene	KNOWN	None	None	None	None	49846391	49848276	-1	None	None
4	AGGF1P1	ENSG00000214273	ENST00000509500	processed_pseudogene	KNOWN	None	38051	None	None	190962497	190964569	1	None	None
3	NIT2	ENSG00000114021	ENST00000394140	protein_coding	KNOWN	CCDS33806	29878	831	276	100053545	100074449	1	None	None
3	NIT2	ENSG00000114021	ENST00000465368	retained_intron	KNOWN	None	29878	None	None	100053583	100074195	1	None	None
3	NIT2	ENSG00000114021	ENST00000478856	retained_intron	KNOWN	None	29878	None	None	100053601	100068855	1	None	None
3	NIT2	ENSG00000114021	ENST00000480073	nonsense_mediated_decay	KNOWN	None	29878	279	92	100053614	100067725	1	None	None
3	NIT2	ENSG00000114021	ENST00000460317	nonsense_mediated_decay	KNOWN	None	29878	135	44	100053620	100059987	1	None	None
3	NIT2	ENSG00000114021	ENST00000497785	protein_coding	KNOWN	None	29878	795	264	100053655	100065109	1	None	None
3	NIT2	ENSG00000114021	ENST00000472392	retained_intron	KNOWN	None	29878	None	None	100057938	100064667	1	None	None
8	None	ENSG00000253557	ENST00000520920	lincRNA	KNOWN	None	None	None	None	18942502	19116979	-1	None	None
8	None	ENSG00000253557	ENST00000517949	lincRNA	KNOWN	None	None	None	None	18944405	19102999	-1	None	None
8	None	ENSG00000253557	ENST00000518417	lincRNA	KNOWN	None	None	None	None	19041184	19093187	-1	None	None
2	None	ENSG00000232101	ENST00000434626	processed_pseudogene	KNOWN	None	None	None	None	128908728	128908878	-1	None	None
1	None	ENSG00000235146	ENST00000423796	lincRNA	KNOWN	None	None	None	None	523009	530148	1	None	None
1	None	ENSG00000235146	ENST00000450696	lincRNA	KNOWN	None	None	None	None	523048	529954	1	None	None
12	None	ENSG00000257517	ENST00000547876	lincRNA	KNOWN	None	None	None	None	115206479	115209656	1	None	None
5	None	ENSG00000254138	ENST00000523584	antisense	KNOWN	None	None	None	None	31094084	31267717	-1	None	None
2	RNU6-629P	ENSG00000206788	ENST00000384061	snRNA	KNOWN	None	47592	None	None	178903629	178903731	1	None	None
11	None	ENSG00000254508	ENST00000533046	antisense	KNOWN	None	None	None	None	33796245	33797216	1	None	None
11	None	ENSG00000254508	ENST00000530352	antisense	KNOWN	None	None	None	None	33796251	33797216	1	None	None
3	GCNT1P3	ENSG00000231047	ENST00000450607	processed_pseudogene	KNOWN	None	37973	None	None	190342384	190342958	1	None	None
2	CYCTP	ENSG00000249909	ENST00000504253	unitary_pseudogene	KNOWN	None	24424	None	None	178957230	178969197	-1	None	HCP9
15	RN7SL759P	ENSG00000242443	ENST00000485130	misc_RNA	KNOWN	None	46775	None	None	20776218	20776496	1	None	None
4	CLUHP4	ENSG00000249003	ENST00000507604	unprocessed_pseudogene	KNOWN	None	38470	None	None	190979057	190984160	-1	KIAA0664P4	KIAA0664L4
3	None	ENSG00000266457	ENST00000577585	miRNA	NOVEL	None	None	None	None	47810601	47810701	1	None	None
3	RN7SKP296	ENSG00000223117	ENST00000411185	misc_RNA	KNOWN	None	46020	None	None	190359952	190360292	1	None	None
5	None	ENSG00000237075	ENST00000506152	unprocessed_pseudogene	KNOWN	None	None	None	None	69783429	69786959	1	None	None
2	DYNLT3P2	ENSG00000229758	ENST00000442517	processed_pseudogene	KNOWN	None	37081	None	None	128957475	128957769	1	None	None
15	None	ENSG00000221354	ENST00000408427	miRNA	NOVEL	None	None	None	None	20777370	20777452	1	None	None
3	None	ENSG00000243384	ENST00000472513	antisense	KNOWN	None	None	None	None	58558471	58560046	1	None	None
20	None	ENSG00000271774	ENST00000606932	antisense	KNOWN	None	None	None	None	51872518	52103813	-1	None	None
3	MIR1226	ENSG00000221585	ENST00000408658	miRNA	KNOWN	None	33922	None	None	47891045	47891119	1	MIRN1226	hsa-mir-1226
9	FAM206A	ENSG00000119328	ENST00000322940	protein_coding	KNOWN	CCDS6774	1364	546	181	111696461	111703235	1	C9orf6	CG-8, FLJ20457
9	FAM206A	ENSG00000119328	ENST00000466200	processed_transcript	KNOWN	None	1364	None	None	111696723	111698355	1	C9orf6	CG-8, FLJ20457
9	FAM206A	ENSG00000119328	ENST00000374624	protein_coding	KNOWN	None	1364	348	115	111696767	111713024	1	C9orf6	CG-8, FLJ20457
9	FAM206A	ENSG00000119328	ENST00000445175	protein_coding	NOVEL	None	1364	389	128	111696820	111701914	1	C9orf6	CG-8, FLJ20457
12	None	ENSG00000257958	ENST00000548488	lincRNA	KNOWN	None	None	None	None	115515130	115517958	1	None	None
15	SPATA31E2P	ENSG00000258916	ENST00000554414	unprocessed_pseudogene	KNOWN	None	43827	None	None	20798818	20804500	-1	FAM75E2P	None
HSCHR19_2_CTG3	ZNF100	ENSG00000262022	ENST00000574050	protein_coding	KNOWN	None	12880	1629	542	21915047	21959807	-1	None	None
19	CEACAMP3	ENSG00000239736	ENST00000483806	transcribed_unprocessed_pseudogene	KNOWN	None	1825	None	None	42106090	42111576	1	CGM10, CEACAM24P	None
19	CEACAMP3	ENSG00000239736	ENST00000473762	processed_transcript	KNOWN	None	1825	None	None	42108598	42112339	1	CGM10, CEACAM24P	None
3	None	ENSG00000228730	ENST00000438156	lincRNA	KNOWN	None	None	None	None	190415712	190416637	-1	None	None
19	PGLYRP1	ENSG00000008438	ENST00000008938	protein_coding	KNOWN	CCDS12680	8904	591	196	46522411	46526323	-1	TNFSF3L, PGLYRP	TAG7, PGRP, PGRP-S, PGRPS
11	TRIM51FP	ENSG00000219061	ENST00000526452	unprocessed_pseudogene	KNOWN	None	43966	None	None	49854692	49860872	-1	None	None
11	None	ENSG00000255959	ENST00000539897	antisense	KNOWN	None	None	None	None	60603469	60610438	-1	None	None
5	ATP6AP1L	ENSG00000205464	ENST00000380167	protein_coding	KNOWN	CCDS34196	28091	675	224	81575281	81614622	1	None	None
5	ATP6AP1L	ENSG00000205464	ENST00000508366	processed_transcript	KNOWN	None	28091	None	None	81604678	81682796	1	None	None
5	ATP6AP1L	ENSG00000205464	ENST00000514672	retained_intron	KNOWN	None	28091	None	None	81605855	81614199	1	None	None
5	ATP6AP1L	ENSG00000205464	ENST00000502523	processed_transcript	PUTATIVE	None	28091	None	None	81678764	81682335	1	None	None
5	ATP6AP1L	ENSG00000205464	ENST00000439350	protein_coding	KNOWN	CCDS34196	28091	675	224	81601166	81614147	1	None	None
2	ANAPC1	ENSG00000153107	ENST00000427997	protein_coding	NOVEL	None	19988	4357	1451	112523848	112614424	-1	None	MCPR, TSG24, APC1
2	ANAPC1	ENSG00000153107	ENST00000341068	protein_coding	KNOWN	CCDS2093	19988	5835	1944	112525217	112642267	-1	None	MCPR, TSG24, APC1
2	ANAPC1	ENSG00000153107	ENST00000462785	retained_intron	KNOWN	None	19988	None	None	112526642	112538330	-1	None	MCPR, TSG24, APC1
2	ANAPC1	ENSG00000153107	ENST00000464695	retained_intron	KNOWN	None	19988	None	None	112549948	112552617	-1	None	MCPR, TSG24, APC1
2	ANAPC1	ENSG00000153107	ENST00000485325	retained_intron	KNOWN	None	19988	None	None	112560110	112579333	-1	None	MCPR, TSG24, APC1
2	ANAPC1	ENSG00000153107	ENST00000482177	retained_intron	KNOWN	None	19988	None	None	112613955	112614642	-1	None	MCPR, TSG24, APC1
2	ANAPC1	ENSG00000153107	ENST00000451367	nonsense_mediated_decay	KNOWN	None	19988	450	149	112625575	112638455	-1	None	MCPR, TSG24, APC1
2	ANAPC1	ENSG00000153107	ENST00000489177	processed_transcript	KNOWN	None	19988	None	None	112630377	112642267	-1	None	MCPR, TSG24, APC1
2	ANAPC1	ENSG00000153107	ENST00000467878	retained_intron	KNOWN	None	19988	None	None	112638087	112641758	-1	None	MCPR, TSG24, APC1
5	None	ENSG00000253333	ENST00000509969	unprocessed_pseudogene	KNOWN	None	None	None	None	69790927	69796730	-1	None	None
3	None	ENSG00000238470	ENST00000459261	miRNA	NOVEL	None	None	None	None	29052733	29052827	1	None	None
15	None	ENSG00000259644	ENST00000560740	sense_intronic	KNOWN	None	None	None	None	30020390	30021735	-1	None	None
15	None	ENSG00000258707	ENST00000553844	processed_pseudogene	KNOWN	None	None	None	None	20832122	20832668	-1	None	None
11	None	ENSG00000256813	ENST00000538705	antisense	KNOWN	None	None	None	None	60609279	60618554	-1	None	None
12	None	ENSG00000257048	ENST00000542449	lincRNA	KNOWN	None	None	None	None	3476999	3480512	1	None	None
17	None	ENSG00000264026	ENST00000577573	processed_transcript	KNOWN	None	None	None	None	70339081	70351277	1	None	None
12	None	ENSG00000271090	ENST00000603432	lincRNA	KNOWN	None	None	None	None	54350318	54352745	1	None	None
15	HMGN2P5	ENSG00000234664	ENST00000436882	processed_pseudogene	KNOWN	None	33568	None	None	30022917	30023189	1	HMGN2L5	None
2	None	ENSG00000227241	ENST00000433403	processed_pseudogene	KNOWN	None	None	None	None	178970364	178970480	1	None	None
12	None	ENSG00000257519	ENST00000546696	lincRNA	KNOWN	None	None	None	None	115700975	115708401	1	None	None
11	None	ENSG00000255855	ENST00000545950	unprocessed_pseudogene	KNOWN	None	None	None	None	94782586	94784109	1	None	None
HSCHR12_1_CTG5	None	ENSG00000262385	ENST00000570617	lincRNA	KNOWN	None	None	None	None	126891380	126896116	-1	None	None
3	None	ENSG00000244383	ENST00000464125	antisense	KNOWN	None	None	None	None	58592807	58620167	1	None	None
3	RNU6-736P	ENSG00000252245	ENST00000516436	snRNA	KNOWN	None	47699	None	None	139107119	139107206	1	None	None
3	CCT6P4	ENSG00000232610	ENST00000430443	processed_pseudogene	KNOWN	None	35148	None	None	190432600	190434188	1	None	None
3	MESTP4	ENSG00000215004	ENST00000412333	processed_pseudogene	KNOWN	None	38554	None	None	29128887	29130090	1	None	None
15	None	ENSG00000242737	ENST00000495139	processed_pseudogene	KNOWN	None	None	None	None	50758935	50759293	1	None	None
11	SRSF8	ENSG00000180771	ENST00000446101	pseudogene	KNOWN	None	16988	None	None	94800056	94804388	1	SFRS2B	SRP46
17	None	ENSG00000263680	ENST00000577281	processed_transcript	PUTATIVE	None	None	None	None	70422080	70424796	1	None	None
12	None	ENSG00000257390	ENST00000546837	protein_coding	PUTATIVE	None	None	1570	522	56151059	56221330	-1	None	None
12	None	ENSG00000257390	ENST00000550124	nonsense_mediated_decay	KNOWN	None	None	336	111	56197473	56216443	-1	None	None
12	None	ENSG00000257390	ENST00000546813	nonsense_mediated_decay	KNOWN	None	None	518	171	56197473	56216460	-1	None	None
12	None	ENSG00000257390	ENST00000548593	nonsense_mediated_decay	KNOWN	None	None	366	121	56197473	56216473	-1	None	None
12	None	ENSG00000257390	ENST00000552719	processed_transcript	KNOWN	None	None	None	None	56197473	56216503	-1	None	None
8	NSMAF	ENSG00000035681	ENST00000038176	protein_coding	KNOWN	CCDS6173	8017	2754	917	59496063	59572403	-1	None	FAN
8	NSMAF	ENSG00000035681	ENST00000427130	protein_coding	KNOWN	CCDS47864	8017	2847	948	59496329	59572093	-1	None	FAN
8	NSMAF	ENSG00000035681	ENST00000521972	retained_intron	KNOWN	None	8017	None	None	59496368	59499137	-1	None	FAN
8	NSMAF	ENSG00000035681	ENST00000517612	retained_intron	KNOWN	None	8017	None	None	59498908	59503568	-1	None	FAN
8	NSMAF	ENSG00000035681	ENST00000521712	retained_intron	KNOWN	None	8017	None	None	59498918	59502215	-1	None	FAN
8	NSMAF	ENSG00000035681	ENST00000523177	processed_transcript	KNOWN	None	8017	None	None	59500208	59508461	-1	None	FAN
8	NSMAF	ENSG00000035681	ENST00000519166	retained_intron	KNOWN	None	8017	None	None	59502081	59506859	-1	None	FAN
8	NSMAF	ENSG00000035681	ENST00000524148	retained_intron	KNOWN	None	8017	None	None	59502311	59507437	-1	None	FAN
8	NSMAF	ENSG00000035681	ENST00000523106	retained_intron	KNOWN	None	8017	None	None	59502560	59512039	-1	None	FAN
8	NSMAF	ENSG00000035681	ENST00000519174	retained_intron	KNOWN	None	8017	None	None	59503425	59507306	-1	None	FAN
8	NSMAF	ENSG00000035681	ENST00000523982	processed_transcript	KNOWN	None	8017	None	None	59509962	59512737	-1	None	FAN
8	NSMAF	ENSG00000035681	ENST00000519227	retained_intron	KNOWN	None	8017	None	None	59510032	59512737	-1	None	FAN
8	NSMAF	ENSG00000035681	ENST00000519858	processed_transcript	KNOWN	None	8017	None	None	59513727	59535978	-1	None	FAN
8	NSMAF	ENSG00000035681	ENST00000518229	nonsense_mediated_decay	KNOWN	None	8017	198	65	59536306	59572197	-1	None	FAN
8	NSMAF	ENSG00000035681	ENST00000518159	nonsense_mediated_decay	KNOWN	None	8017	165	54	59536310	59572223	-1	None	FAN
8	NSMAF	ENSG00000035681	ENST00000522645	retained_intron	KNOWN	None	8017	None	None	59543924	59572257	-1	None	FAN
8	NSMAF	ENSG00000035681	ENST00000519871	retained_intron	KNOWN	None	8017	None	None	59543987	59571773	-1	None	FAN
3	None	ENSG00000239804	ENST00000486999	processed_pseudogene	KNOWN	None	None	None	None	125506731	125506989	-1	None	None
12	PSMC1P9	ENSG00000255993	ENST00000396338	processed_pseudogene	KNOWN	None	39784	None	None	18845696	18847030	1	None	None
GL000222.1	None	ENSG00000220903	ENST00000403385	protein_coding	NOVEL	None	None	849	282	86430	89304	-1	None	None
12	None	ENSG00000271579	ENST00000603439	lincRNA	KNOWN	None	None	None	None	115737393	115738513	-1	None	None
2	RNU5E-9P	ENSG00000223096	ENST00000411164	snRNA	KNOWN	None	42532	None	None	179007275	179007378	1	None	None
14	None	ENSG00000258198	ENST00000550868	processed_pseudogene	KNOWN	None	None	None	None	19854816	19855864	1	None	None
2	ITGB1BP1	ENSG00000119185	ENST00000360635	protein_coding	KNOWN	CCDS1662	23927	603	200	9543604	9563358	-1	None	ICAP-1A, ICAP-1B, ICAP1, ICAP1A, ICAP1B, ICAP-1alpha
2	ITGB1BP1	ENSG00000119185	ENST00000238091	protein_coding	NOVEL	CCDS1663	23927	453	150	9545813	9563635	-1	None	ICAP-1A, ICAP-1B, ICAP1, ICAP1A, ICAP1B, ICAP-1alpha
2	ITGB1BP1	ENSG00000119185	ENST00000355346	protein_coding	KNOWN	CCDS1662	23927	603	200	9545813	9563676	-1	None	ICAP-1A, ICAP-1B, ICAP1, ICAP1A, ICAP1B, ICAP-1alpha
2	ITGB1BP1	ENSG00000119185	ENST00000483795	nonsense_mediated_decay	KNOWN	None	23927	324	107	9545823	9563585	-1	None	ICAP-1A, ICAP-1B, ICAP1, ICAP1A, ICAP1B, ICAP-1alpha
2	ITGB1BP1	ENSG00000119185	ENST00000490426	processed_transcript	KNOWN	None	23927	None	None	9546478	9563591	-1	None	ICAP-1A, ICAP-1B, ICAP1, ICAP1A, ICAP1B, ICAP-1alpha
2	ITGB1BP1	ENSG00000119185	ENST00000497031	processed_transcript	KNOWN	None	23927	None	None	9546777	9563573	-1	None	ICAP-1A, ICAP-1B, ICAP1, ICAP1A, ICAP1B, ICAP-1alpha
2	ITGB1BP1	ENSG00000119185	ENST00000464228	nonsense_mediated_decay	KNOWN	None	23927	117	38	9546789	9563629	-1	None	ICAP-1A, ICAP-1B, ICAP1, ICAP1A, ICAP1B, ICAP-1alpha
2	ITGB1BP1	ENSG00000119185	ENST00000460720	retained_intron	KNOWN	None	23927	None	None	9546790	9548428	-1	None	ICAP-1A, ICAP-1B, ICAP1, ICAP1A, ICAP1B, ICAP-1alpha
2	ITGB1BP1	ENSG00000119185	ENST00000465527	retained_intron	KNOWN	None	23927	None	None	9546790	9552846	-1	None	ICAP-1A, ICAP-1B, ICAP1, ICAP1A, ICAP1B, ICAP-1alpha
2	ITGB1BP1	ENSG00000119185	ENST00000359712	protein_coding	PUTATIVE	None	23927	555	184	9546790	9563379	-1	None	ICAP-1A, ICAP-1B, ICAP1, ICAP1A, ICAP1B, ICAP-1alpha
2	ITGB1BP1	ENSG00000119185	ENST00000488451	protein_coding	NOVEL	CCDS1663	23927	453	150	9546796	9563609	-1	None	ICAP-1A, ICAP-1B, ICAP1, ICAP1A, ICAP1B, ICAP-1alpha
2	ITGB1BP1	ENSG00000119185	ENST00000470507	retained_intron	KNOWN	None	23927	None	None	9546943	9548533	-1	None	ICAP-1A, ICAP-1B, ICAP1, ICAP1A, ICAP1B, ICAP-1alpha
2	ITGB1BP1	ENSG00000119185	ENST00000456913	protein_coding	PUTATIVE	None	23927	555	184	9547159	9563559	-1	None	ICAP-1A, ICAP-1B, ICAP1, ICAP1A, ICAP1B, ICAP-1alpha
2	ITGB1BP1	ENSG00000119185	ENST00000482798	processed_transcript	KNOWN	None	23927	None	None	9547672	9562695	-1	None	ICAP-1A, ICAP-1B, ICAP1, ICAP1A, ICAP1B, ICAP-1alpha
2	ITGB1BP1	ENSG00000119185	ENST00000492079	protein_coding	KNOWN	None	23927	408	135	9547701	9560423	-1	None	ICAP-1A, ICAP-1B, ICAP1, ICAP1A, ICAP1B, ICAP-1alpha
2	ITGB1BP1	ENSG00000119185	ENST00000463190	retained_intron	KNOWN	None	23927	None	None	9548131	9563651	-1	None	ICAP-1A, ICAP-1B, ICAP1, ICAP1A, ICAP1B, ICAP-1alpha
2	ITGB1BP1	ENSG00000119185	ENST00000494563	protein_coding	KNOWN	None	23927	342	113	9548281	9563305	-1	None	ICAP-1A, ICAP-1B, ICAP1, ICAP1A, ICAP1B, ICAP-1alpha
2	ITGB1BP1	ENSG00000119185	ENST00000467606	protein_coding	KNOWN	None	23927	288	95	9552398	9563216	-1	None	ICAP-1A, ICAP-1B, ICAP1, ICAP1A, ICAP1B, ICAP-1alpha
2	ITGB1BP1	ENSG00000119185	ENST00000484735	protein_coding	KNOWN	None	23927	260	85	9552426	9563469	-1	None	ICAP-1A, ICAP-1B, ICAP1, ICAP1A, ICAP1B, ICAP-1alpha
2	ITGB1BP1	ENSG00000119185	ENST00000460001	protein_coding	KNOWN	None	23927	253	83	9552433	9563305	-1	None	ICAP-1A, ICAP-1B, ICAP1, ICAP1A, ICAP1B, ICAP-1alpha
2	ITGB1BP1	ENSG00000119185	ENST00000497105	protein_coding	KNOWN	None	23927	197	64	9552489	9563357	-1	None	ICAP-1A, ICAP-1B, ICAP1, ICAP1A, ICAP1B, ICAP-1alpha
17	RPL32P33	ENSG00000243514	ENST00000487023	processed_pseudogene	KNOWN	None	36231	None	None	70623370	70623763	1	None	None
8	None	ENSG00000253667	ENST00000523153	processed_pseudogene	KNOWN	None	None	None	None	54883791	54886770	1	None	None
2	None	ENSG00000260931	ENST00000565104	lincRNA	KNOWN	None	None	None	None	179265561	179267618	1	None	None
3	None	ENSG00000199591	ENST00000362721	misc_RNA	NOVEL	None	None	None	None	47973298	47973404	-1	None	None
2	None	ENSG00000185631	ENST00000333650	processed_pseudogene	KNOWN	None	None	None	None	128960935	128961349	1	None	None
HSCHR12_2_CTG2_1	None	ENSG00000262036	ENST00000574532	processed_pseudogene	KNOWN	None	None	None	None	59453810	59455014	-1	None	None
11	None	ENSG00000257052	ENST00000544421	antisense	KNOWN	None	None	None	None	60674261	60677214	1	None	None
17	None	ENSG00000263893	ENST00000584975	processed_transcript	PUTATIVE	None	None	None	None	70638870	70640152	1	None	None
3	VPS26BP1	ENSG00000224895	ENST00000417155	processed_pseudogene	KNOWN	None	44612	None	None	48001817	48002571	-1	None	None
20	None	ENSG00000231703	ENST00000436286	antisense	KNOWN	None	None	None	None	52014199	52029448	-1	None	None
3	None	ENSG00000214147	ENST00000397646	processed_pseudogene	KNOWN	None	None	None	None	190548754	190549962	1	None	None
19	DNAJC19P2	ENSG00000269266	ENST00000593340	processed_pseudogene	KNOWN	None	45065	None	None	42111696	42112026	-1	None	None
16	None	ENSG00000198064	ENST00000520915	protein_coding	PUTATIVE	None	None	3417	1138	30234258	30257122	-1	None	None
16	None	ENSG00000198064	ENST00000562937	nonsense_mediated_decay	KNOWN	None	None	207	68	30236924	30246837	-1	None	None
16	None	ENSG00000198064	ENST00000568053	protein_coding	PUTATIVE	None	None	252	83	30246769	30265831	-1	None	None
16	None	ENSG00000198064	ENST00000564502	nonsense_mediated_decay	KNOWN	None	None	123	40	30246820	30257150	-1	None	None
16	None	ENSG00000198064	ENST00000564219	nonsense_mediated_decay	KNOWN	None	None	150	49	30246841	30257198	-1	None	None
16	None	ENSG00000198064	ENST00000543463	protein_coding	KNOWN	None	None	1263	420	30234303	30237150	-1	None	None
10	NRBF2	ENSG00000148572	ENST00000277746	protein_coding	KNOWN	CCDS7268	19692	864	287	64893050	64914783	1	None	DKFZp564C1664, FLJ30395, COPR1, COPR2
10	NRBF2	ENSG00000148572	ENST00000435510	protein_coding	KNOWN	None	19692	834	277	64893085	64914630	1	None	DKFZp564C1664, FLJ30395, COPR1, COPR2
12	HOTAIR	ENSG00000228630	ENST00000424518	antisense	KNOWN	None	33510	None	None	54356092	54368740	-1	None	HOXC-AS4, HOXC11-AS1, NCRNA00072
12	HOTAIR	ENSG00000228630	ENST00000455246	antisense	KNOWN	None	33510	None	None	54357533	54368731	-1	None	HOXC-AS4, HOXC11-AS1, NCRNA00072
12	HOTAIR	ENSG00000228630	ENST00000425595	antisense	KNOWN	None	33510	None	None	54357586	54360414	-1	None	HOXC-AS4, HOXC11-AS1, NCRNA00072
12	HOTAIR	ENSG00000228630	ENST00000453875	antisense	KNOWN	None	33510	None	None	54357685	54361139	-1	None	HOXC-AS4, HOXC11-AS1, NCRNA00072
12	HOTAIR	ENSG00000228630	ENST00000439545	antisense	KNOWN	None	33510	None	None	54357869	54362698	-1	None	HOXC-AS4, HOXC11-AS1, NCRNA00072
17	RN7SKP180	ENSG00000200783	ENST00000363913	misc_RNA	KNOWN	None	45904	None	None	70659962	70660291	-1	None	None
12	KSR2	ENSG00000171435	ENST00000339824	protein_coding	KNOWN	None	18610	2853	950	117904156	118406788	-1	None	FLJ25965
12	KSR2	ENSG00000171435	ENST00000545002	processed_transcript	KNOWN	None	18610	None	None	117955511	118115056	-1	None	FLJ25965
12	KSR2	ENSG00000171435	ENST00000543793	retained_intron	KNOWN	None	18610	None	None	117977277	117993034	-1	None	FLJ25965
12	KSR2	ENSG00000171435	ENST00000425217	protein_coding	KNOWN	None	18610	2766	921	117890817	118406028	-1	None	FLJ25965
12	KSR2	ENSG00000171435	ENST00000302438	protein_coding	KNOWN	None	18610	1308	435	117907466	118112196	-1	None	FLJ25965
12	None	ENSG00000258108	ENST00000550378	processed_transcript	KNOWN	None	None	None	None	116007469	116019544	1	None	None
HSCHR3_1_CTG1	None	ENSG00000266488	ENST00000581685	unprocessed_pseudogene	KNOWN	None	None	None	None	11901147	11934974	1	None	None
17	None	ENSG00000222545	ENST00000410613	miRNA	NOVEL	None	None	None	None	70710522	70710610	-1	None	None
3	None	ENSG00000242428	ENST00000493123	antisense	KNOWN	None	None	None	None	58810163	59003363	1	None	None
3	None	ENSG00000242428	ENST00000492031	antisense	KNOWN	None	None	None	None	58810167	58956454	1	None	None
3	None	ENSG00000242428	ENST00000463703	antisense	KNOWN	None	None	None	None	58810197	58956386	1	None	None
3	None	ENSG00000242428	ENST00000482372	antisense	KNOWN	None	None	None	None	58810197	59004819	1	None	None
3	None	ENSG00000270285	ENST00000604416	processed_pseudogene	KNOWN	None	None	None	None	48080757	48080980	1	None	None
14	None	ENSG00000259789	ENST00000567837	lincRNA	KNOWN	None	None	None	None	90955356	90957981	-1	None	None
15	IGHV1OR15-6	ENSG00000270685	ENST00000603166	IG_V_pseudogene	KNOWN	None	5568	None	None	20844768	20845194	-1	None	IGHV1/OR15-6
17	None	ENSG00000252274	ENST00000516465	snoRNA	NOVEL	None	None	None	None	70814975	70815111	-1	None	None
19	DNAJC19P3	ENSG00000268997	ENST00000594491	processed_pseudogene	KNOWN	None	45066	None	None	42144937	42145267	-1	None	None
17	C17orf53	ENSG00000125319	ENST00000319977	protein_coding	KNOWN	CCDS11477	28460	1944	647	42219274	42239844	1	None	MGC3130
17	C17orf53	ENSG00000125319	ENST00000585683	protein_coding	NOVEL	CCDS59293	28460	1941	646	42219276	42239653	1	None	MGC3130
17	C17orf53	ENSG00000125319	ENST00000245382	protein_coding	PUTATIVE	None	28460	1566	521	42219390	42239844	1	None	MGC3130
17	C17orf53	ENSG00000125319	ENST00000588434	retained_intron	KNOWN	None	28460	None	None	42225139	42230135	1	None	MGC3130
17	C17orf53	ENSG00000125319	ENST00000588073	retained_intron	KNOWN	None	28460	None	None	42231728	42239372	1	None	MGC3130
15	None	ENSG00000259618	ENST00000560159	lincRNA	KNOWN	None	None	None	None	50786215	50789277	-1	None	None
11	None	ENSG00000254714	ENST00000534129	unprocessed_pseudogene	KNOWN	None	None	None	None	49872181	49884080	1	None	None
2	None	ENSG00000238180	ENST00000416102	processed_pseudogene	KNOWN	None	None	None	None	128975162	128975646	1	None	None
17	None	ENSG00000264196	ENST00000583916	antisense	KNOWN	None	None	None	None	70835178	70835857	1	None	None
11	None	ENSG00000270204	ENST00000604893	processed_pseudogene	KNOWN	None	None	None	None	114388586	114389093	1	None	None
3	OSTN-AS1	ENSG00000233308	ENST00000430375	antisense	KNOWN	None	41250	None	None	190931080	190952394	-1	None	None
3	None	ENSG00000248932	ENST00000504670	antisense	KNOWN	None	None	None	None	139108657	139163205	1	None	None
3	None	ENSG00000248932	ENST00000507362	antisense	KNOWN	None	None	None	None	139108660	139163167	1	None	None
3	None	ENSG00000248932	ENST00000512622	antisense	KNOWN	None	None	None	None	139108672	139142235	1	None	None
3	None	ENSG00000248932	ENST00000510068	antisense	KNOWN	None	None	None	None	139108680	139171082	1	None	None
3	None	ENSG00000248932	ENST00000515247	antisense	KNOWN	None	None	None	None	139108682	139302161	1	None	None
3	None	ENSG00000248932	ENST00000514729	antisense	KNOWN	None	None	None	None	139108718	139141891	1	None	None
3	None	ENSG00000248932	ENST00000381790	antisense	KNOWN	None	None	None	None	139258758	139302096	1	None	None
20	PA2G4P2	ENSG00000235698	ENST00000414718	processed_pseudogene	KNOWN	None	16531	None	None	12360704	12361903	1	None	bA102J14.2, PA2G4L5
14	None	ENSG00000252748	ENST00000516939	miRNA	NOVEL	None	None	None	None	91031485	91031569	1	None	None
20	PPIAP10	ENSG00000224530	ENST00000438675	processed_pseudogene	KNOWN	None	9264	None	None	52037738	52038195	1	PPIAL2, PPIP10	CRP
2	None	ENSG00000223960	ENST00000420672	antisense	KNOWN	None	None	None	None	179278666	179295551	1	None	None
2	None	ENSG00000223960	ENST00000454488	antisense	KNOWN	None	None	None	None	179278672	179298242	1	None	None
2	None	ENSG00000223960	ENST00000450044	antisense	KNOWN	None	None	None	None	179278695	179296068	1	None	None
2	None	ENSG00000223960	ENST00000442036	antisense	KNOWN	None	None	None	None	179278714	179283850	1	None	None
2	None	ENSG00000223960	ENST00000453026	antisense	KNOWN	None	None	None	None	179278721	179304970	1	None	None
2	None	ENSG00000223960	ENST00000436616	antisense	KNOWN	None	None	None	None	179278726	179298818	1	None	None
2	None	ENSG00000223960	ENST00000415236	antisense	KNOWN	None	None	None	None	179278750	179297009	1	None	None
3	RN7SKP177	ENSG00000222499	ENST00000410567	misc_RNA	KNOWN	None	45901	None	None	156735131	156735485	1	None	None
1	None	ENSG00000239664	ENST00000440196	lincRNA	KNOWN	None	None	None	None	529833	530597	-1	None	None
1	None	ENSG00000239664	ENST00000357876	lincRNA	KNOWN	None	None	None	None	529839	532878	-1	None	None
17	None	ENSG00000266501	ENST00000578331	processed_pseudogene	KNOWN	None	None	None	None	71064009	71064427	-1	None	None
5	LIFR	ENSG00000113594	ENST00000263409	protein_coding	KNOWN	CCDS3927	6597	3294	1097	38475065	38595506	-1	None	CD118
5	LIFR	ENSG00000113594	ENST00000453190	protein_coding	KNOWN	CCDS3927	6597	3294	1097	38481070	38556748	-1	None	CD118
5	LIFR	ENSG00000113594	ENST00000508477	retained_intron	KNOWN	None	6597	None	None	38485699	38489347	-1	None	CD118
5	LIFR	ENSG00000113594	ENST00000506003	nonsense_mediated_decay	KNOWN	None	6597	200	65	38486039	38502777	-1	None	CD118
5	LIFR	ENSG00000113594	ENST00000503088	processed_transcript	KNOWN	None	6597	None	None	38490722	38595506	-1	None	CD118
5	LIFR	ENSG00000113594	ENST00000506990	protein_coding	KNOWN	None	6597	377	124	38527277	38556738	-1	None	CD118
5	LIFR	ENSG00000113594	ENST00000512723	retained_intron	KNOWN	None	6597	None	None	38528774	38531019	-1	None	CD118
5	LIFR	ENSG00000113594	ENST00000511561	protein_coding	KNOWN	None	6597	224	73	38528861	38557567	-1	None	CD118
5	LIFR	ENSG00000113594	ENST00000507786	processed_transcript	KNOWN	None	6597	None	None	38595073	38608456	-1	None	CD118
12	None	ENSG00000258280	ENST00000548457	lincRNA	KNOWN	None	None	None	None	116014481	116015420	1	None	None
19	None	ENSG00000269354	ENST00000597858	processed_pseudogene	KNOWN	None	None	None	None	42146027	42146970	-1	None	None
11	None	ENSG00000238724	ENST00000459372	snoRNA	NOVEL	None	None	None	None	114397851	114397954	1	None	None
8	None	ENSG00000260955	ENST00000565668	lincRNA	KNOWN	None	None	None	None	54955549	54958189	-1	None	None
17	POLR3KP2	ENSG00000265469	ENST00000581517	processed_pseudogene	KNOWN	None	39578	None	None	71159174	71159498	-1	None	None
19	PHLDB3	ENSG00000176531	ENST00000595498	retained_intron	KNOWN	None	30499	None	None	43979106	43999846	-1	None	FLJ40193
19	PHLDB3	ENSG00000176531	ENST00000292140	protein_coding	KNOWN	CCDS12621	30499	1923	640	43979255	44009087	-1	None	FLJ40193
19	PHLDB3	ENSG00000176531	ENST00000600660	protein_coding	NOVEL	None	30499	696	231	43983602	44001980	-1	None	FLJ40193
19	PHLDB3	ENSG00000176531	ENST00000598849	retained_intron	KNOWN	None	30499	None	None	43983606	43991193	-1	None	FLJ40193
19	PHLDB3	ENSG00000176531	ENST00000596141	protein_coding	NOVEL	None	30499	366	121	43983665	43998902	-1	None	FLJ40193
19	PHLDB3	ENSG00000176531	ENST00000599242	protein_coding	KNOWN	None	30499	840	279	44000170	44009087	-1	None	FLJ40193
19	PHLDB3	ENSG00000176531	ENST00000596902	retained_intron	KNOWN	None	30499	None	None	44005682	44008796	-1	None	FLJ40193
19	PHLDB3	ENSG00000176531	ENST00000594808	protein_coding	KNOWN	None	30499	331	109	44006318	44008566	-1	None	FLJ40193
19	PHLDB3	ENSG00000176531	ENST00000601646	protein_coding	KNOWN	None	30499	303	100	44006346	44008863	-1	None	FLJ40193
3	LINC00880	ENSG00000243629	ENST00000471357	lincRNA	KNOWN	None	27948	None	None	156799456	156840793	-1	None	None
HSCHR19_2_CTG3	None	ENSG00000262618	ENST00000575565	unprocessed_pseudogene	KNOWN	None	None	None	None	21837956	21839341	1	None	None
3	None	ENSG00000223812	ENST00000439804	lincRNA	KNOWN	None	None	None	None	191275113	191308145	1	None	None
3	None	ENSG00000223812	ENST00000438488	lincRNA	KNOWN	None	None	None	None	191286324	191291298	1	None	None
14	None	ENSG00000258935	ENST00000557622	lincRNA	KNOWN	None	None	None	None	91033839	91036320	1	None	None
6	None	ENSG00000199303	ENST00000362433	misc_RNA	NOVEL	None	None	None	None	100090113	100090223	-1	None	None
3	RN7SL664P	ENSG00000265078	ENST00000584239	misc_RNA	KNOWN	None	46680	None	None	48136293	48136595	-1	None	None
17	None	ENSG00000264860	ENST00000580671	processed_transcript	KNOWN	None	None	None	None	71161116	71192732	1	None	None
2	None	ENSG00000252742	ENST00000516933	misc_RNA	NOVEL	None	None	None	None	129108403	129108501	-1	None	None
HSCHR6_MHC_QBL	RNF39	ENSG00000206500	ENST00000376750	protein_coding	KNOWN	None	18064	1065	354	30027629	30033203	-1	None	HZFw1, LIRF
HSCHR6_MHC_QBL	RNF39	ENSG00000206500	ENST00000383611	protein_coding	KNOWN	None	18064	1263	420	30027629	30033205	-1	None	HZFw1, LIRF
HSCHR6_MHC_QBL	RNF39	ENSG00000206500	ENST00000551675	protein_coding	KNOWN	None	18064	756	251	30028138	30033143	-1	None	HZFw1, LIRF
12	None	ENSG00000255648	ENST00000536931	antisense	KNOWN	None	None	None	None	18867729	18890812	1	None	None
5	None	ENSG00000250482	ENST00000508172	processed_pseudogene	KNOWN	None	None	None	None	31249986	31250307	1	None	None
3	None	ENSG00000236768	ENST00000444020	processed_pseudogene	KNOWN	None	None	None	None	48162159	48162705	-1	None	None
2	RNA5SP103	ENSG00000238379	ENST00000459503	rRNA	KNOWN	None	42901	None	None	129202655	129202772	-1	RN5S103	None
15	None	ENSG00000259298	ENST00000560380	antisense	KNOWN	None	None	None	None	50789392	50790941	-1	None	None
GL000222.1	None	ENSG00000233094	ENST00000427326	protein_coding	NOVEL	None	None	645	214	129789	134090	1	None	None
3	ZPLD1	ENSG00000170044	ENST00000491959	protein_coding	KNOWN	None	27022	1248	415	101818088	102196521	1	None	None
3	ZPLD1	ENSG00000170044	ENST00000478083	processed_transcript	KNOWN	None	27022	None	None	101894527	102017017	1	None	None
3	ZPLD1	ENSG00000170044	ENST00000306176	protein_coding	KNOWN	CCDS2947	27022	1296	431	102153859	102198685	1	None	None
3	ZPLD1	ENSG00000170044	ENST00000466937	protein_coding	KNOWN	None	27022	1248	415	102153877	102196501	1	None	None
6	None	ENSG00000229315	ENST00000443234	lincRNA	KNOWN	None	None	None	None	100441820	100524287	1	None	None
6	None	ENSG00000229315	ENST00000430122	lincRNA	KNOWN	None	None	None	None	100441932	100524287	1	None	None
6	None	ENSG00000229315	ENST00000452482	lincRNA	KNOWN	None	None	None	None	100441942	100474260	1	None	None
6	None	ENSG00000229315	ENST00000451220	lincRNA	KNOWN	None	None	None	None	100448816	100524282	1	None	None
11	None	ENSG00000256674	ENST00000536916	processed_pseudogene	KNOWN	None	None	None	None	114453975	114455414	1	None	None
11	None	ENSG00000256944	ENST00000543275	antisense	KNOWN	None	None	None	None	60680638	60681524	-1	None	None
5	WDR55	ENSG00000120314	ENST00000358337	protein_coding	KNOWN	CCDS4235	25971	1152	383	140044261	140051930	1	None	FLJ20195, FLJ21702
5	WDR55	ENSG00000120314	ENST00000506393	nonsense_mediated_decay	KNOWN	None	25971	414	137	140044453	140051929	1	None	FLJ20195, FLJ21702
5	WDR55	ENSG00000120314	ENST00000511232	retained_intron	KNOWN	None	25971	None	None	140046160	140051929	1	None	FLJ20195, FLJ21702
5	WDR55	ENSG00000120314	ENST00000504897	nonsense_mediated_decay	KNOWN	None	25971	669	222	140047819	140053709	1	None	FLJ20195, FLJ21702
5	WDR55	ENSG00000120314	ENST00000520764	processed_transcript	KNOWN	None	25971	None	None	140048506	140051951	1	None	FLJ20195, FLJ21702
19	None	ENSG00000268582	ENST00000600532	processed_pseudogene	KNOWN	None	None	None	None	42156601	42156888	1	None	None
5	None	ENSG00000206682	ENST00000383955	misc_RNA	NOVEL	None	None	None	None	31505791	31505895	1	None	None
2	UGT1A1	ENSG00000241635	ENST00000305208	protein_coding	KNOWN	CCDS2510	12530	1602	533	234668894	234681945	1	UGT1, GNT1	UGT1A
2	UGT1A1	ENSG00000241635	ENST00000360418	protein_coding	KNOWN	None	12530	1335	444	234668934	234680261	1	UGT1, GNT1	UGT1A
12	None	ENSG00000257407	ENST00000551531	lincRNA	KNOWN	None	None	None	None	116019866	116039526	-1	None	None
12	None	ENSG00000257407	ENST00000551940	lincRNA	KNOWN	None	None	None	None	116020570	116077539	-1	None	None
20	None	ENSG00000233048	ENST00000456265	lincRNA	KNOWN	None	None	None	None	12845850	12933167	-1	None	None
7	None	ENSG00000241558	ENST00000414767	lincRNA	KNOWN	None	None	None	None	156376854	156398076	-1	None	None
7	None	ENSG00000241558	ENST00000439364	lincRNA	KNOWN	None	None	None	None	156396312	156398461	-1	None	None
7	None	ENSG00000241558	ENST00000417810	lincRNA	KNOWN	None	None	None	None	156397826	156398438	-1	None	None
HSCHR19_2_CTG3	None	ENSG00000263925	ENST00000579041	miRNA	NOVEL	None	None	None	None	21889688	21889796	1	None	None
3	None	ENSG00000241544	ENST00000469196	lincRNA	KNOWN	None	None	None	None	156799630	156806336	1	None	None
12	None	ENSG00000227525	ENST00000480903	processed_pseudogene	KNOWN	None	None	None	None	19242085	19242822	1	None	None
12	None	ENSG00000227525	ENST00000449390	processed_pseudogene	KNOWN	None	None	None	None	19241974	19242825	1	None	None
20	None	ENSG00000259723	ENST00000558738	antisense	KNOWN	None	None	None	None	52069597	52120853	-1	None	None
1	TNFRSF4	ENSG00000186827	ENST00000379236	protein_coding	KNOWN	CCDS11	11918	834	277	1146706	1149512	-1	TXGP1L	ACT35, OX40, CD134
1	TNFRSF4	ENSG00000186827	ENST00000497869	retained_intron	KNOWN	None	11918	None	None	1146720	1149518	-1	TXGP1L	ACT35, OX40, CD134
1	TNFRSF4	ENSG00000186827	ENST00000453580	processed_transcript	KNOWN	None	11918	None	None	1147399	1148878	-1	TXGP1L	ACT35, OX40, CD134
19	None	ENSG00000268833	ENST00000601409	antisense	KNOWN	None	None	None	None	42261806	42290801	-1	None	None
HSCHR19_2_CTG3	None	ENSG00000265998	ENST00000581965	miRNA	NOVEL	None	None	None	None	21945292	21945364	1	None	None
11	None	ENSG00000270689	ENST00000603676	processed_pseudogene	KNOWN	None	None	None	None	94876801	94878289	1	None	None
3	None	ENSG00000201860	ENST00000364990	misc_RNA	NOVEL	None	None	None	None	191358924	191359026	1	None	None
GL000222.1	MIR4273	ENSG00000266831	ENST00000580641	miRNA	KNOWN	None	38339	None	None	15194	15277	-1	None	hsa-mir-4273
11	None	ENSG00000252870	ENST00000517061	snoRNA	NOVEL	None	None	None	None	114998938	114999093	-1	None	None
19	HNRNPA1P52	ENSG00000269119	ENST00000599047	processed_pseudogene	KNOWN	None	48782	None	None	42333746	42334992	1	None	None
3	None	ENSG00000200270	ENST00000363400	misc_RNA	NOVEL	None	None	None	None	191359118	191359213	-1	None	None
19	ZNF667	ENSG00000198046	ENST00000591790	protein_coding	PUTATIVE	None	28854	384	127	56950694	56984437	-1	None	FLJ14011
19	ZNF667	ENSG00000198046	ENST00000504904	protein_coding	KNOWN	CCDS12944	28854	1833	610	56950694	56988699	-1	None	FLJ14011
19	ZNF667	ENSG00000198046	ENST00000292069	protein_coding	KNOWN	CCDS12944	28854	1833	610	56950694	56988743	-1	None	FLJ14011
19	ZNF667	ENSG00000198046	ENST00000592189	nonsense_mediated_decay	KNOWN	None	28854	276	91	56950699	56988736	-1	None	FLJ14011
19	ZNF667	ENSG00000198046	ENST00000587555	protein_coding	KNOWN	None	28854	475	157	56953889	56989434	-1	None	FLJ14011
19	ZNF667	ENSG00000198046	ENST00000589946	protein_coding	KNOWN	None	28854	253	83	56969524	56988487	-1	None	FLJ14011
19	ZNF667	ENSG00000198046	ENST00000589652	processed_transcript	KNOWN	None	28854	None	None	56979088	56987270	-1	None	FLJ14011
19	ZNF667	ENSG00000198046	ENST00000342634	protein_coding	KNOWN	None	28854	2217	738	56950696	56981424	-1	None	FLJ14011
11	None	ENSG00000270578	ENST00000604432	processed_pseudogene	KNOWN	None	None	None	None	94878601	94879168	1	None	None
11	None	ENSG00000256972	ENST00000545593	lincRNA	KNOWN	None	None	None	None	115204296	115210981	1	None	None
3	None	ENSG00000237653	ENST00000434379	processed_pseudogene	KNOWN	None	None	None	None	191670138	191670615	-1	None	None
8	None	ENSG00000261670	ENST00000562917	lincRNA	KNOWN	None	None	None	None	104476617	104481213	1	None	None
20	NELFCD	ENSG00000101158	ENST00000602795	protein_coding	KNOWN	CCDS13473	15934	1800	599	57556263	57570188	1	TH1L	HSPC130, TH1, NELF-C, NELF-D
20	NELFCD	ENSG00000101158	ENST00000471621	retained_intron	KNOWN	None	15934	None	None	57556307	57562476	1	TH1L	HSPC130, TH1, NELF-C, NELF-D
20	NELFCD	ENSG00000101158	ENST00000492016	retained_intron	KNOWN	None	15934	None	None	57556307	57563024	1	TH1L	HSPC130, TH1, NELF-C, NELF-D
20	NELFCD	ENSG00000101158	ENST00000464363	retained_intron	KNOWN	None	15934	None	None	57556330	57561816	1	TH1L	HSPC130, TH1, NELF-C, NELF-D
20	NELFCD	ENSG00000101158	ENST00000482747	retained_intron	KNOWN	None	15934	None	None	57556330	57565455	1	TH1L	HSPC130, TH1, NELF-C, NELF-D
20	NELFCD	ENSG00000101158	ENST00000460601	nonsense_mediated_decay	KNOWN	None	15934	1781	592	57556330	57570188	1	TH1L	HSPC130, TH1, NELF-C, NELF-D
20	NELFCD	ENSG00000101158	ENST00000477741	retained_intron	KNOWN	None	15934	None	None	57562765	57570188	1	TH1L	HSPC130, TH1, NELF-C, NELF-D
20	NELFCD	ENSG00000101158	ENST00000474543	retained_intron	KNOWN	None	15934	None	None	57564074	57570188	1	TH1L	HSPC130, TH1, NELF-C, NELF-D
20	NELFCD	ENSG00000101158	ENST00000478389	retained_intron	KNOWN	None	15934	None	None	57565150	57570188	1	TH1L	HSPC130, TH1, NELF-C, NELF-D
20	NELFCD	ENSG00000101158	ENST00000497935	processed_transcript	PUTATIVE	None	15934	None	None	57565951	57568599	1	TH1L	HSPC130, TH1, NELF-C, NELF-D
20	NELFCD	ENSG00000101158	ENST00000490205	retained_intron	KNOWN	None	15934	None	None	57566092	57566977	1	TH1L	HSPC130, TH1, NELF-C, NELF-D
20	NELFCD	ENSG00000101158	ENST00000479207	processed_transcript	KNOWN	None	15934	None	None	57566367	57570188	1	TH1L	HSPC130, TH1, NELF-C, NELF-D
20	NELFCD	ENSG00000101158	ENST00000486263	retained_intron	KNOWN	None	15934	None	None	57568978	57570188	1	TH1L	HSPC130, TH1, NELF-C, NELF-D
20	NELFCD	ENSG00000101158	ENST00000344018	protein_coding	KNOWN	None	15934	1773	590	57556311	57570186	1	TH1L	HSPC130, TH1, NELF-C, NELF-D
9	FANCC	ENSG00000158169	ENST00000289081	protein_coding	KNOWN	CCDS35071	3584	1677	558	97861336	98079984	-1	FACC	FAC, FA3
9	FANCC	ENSG00000158169	ENST00000375305	protein_coding	KNOWN	CCDS35071	3584	1677	558	97861337	98079507	-1	FACC	FAC, FA3
9	FANCC	ENSG00000158169	ENST00000464627	processed_transcript	KNOWN	None	3584	None	None	97869383	97889200	-1	FACC	FAC, FA3
9	FANCC	ENSG00000158169	ENST00000480712	processed_transcript	KNOWN	None	3584	None	None	97869630	97897655	-1	FACC	FAC, FA3
9	FANCC	ENSG00000158169	ENST00000477942	processed_transcript	KNOWN	None	3584	None	None	97871879	97897825	-1	FACC	FAC, FA3
9	FANCC	ENSG00000158169	ENST00000490972	processed_transcript	KNOWN	None	3584	None	None	97873230	97888856	-1	FACC	FAC, FA3
9	FANCC	ENSG00000158169	ENST00000464653	processed_transcript	KNOWN	None	3584	None	None	97876417	97889702	-1	FACC	FAC, FA3
9	FANCC	ENSG00000158169	ENST00000493098	processed_transcript	KNOWN	None	3584	None	None	97907552	97912315	-1	FACC	FAC, FA3
9	FANCC	ENSG00000158169	ENST00000474949	processed_transcript	KNOWN	None	3584	None	None	97933398	98079991	-1	FACC	FAC, FA3
9	FANCC	ENSG00000158169	ENST00000433829	protein_coding	KNOWN	None	3584	450	149	97934325	98079176	-1	FACC	FAC, FA3
HSCHR17_5_CTG4	KRTAP9-2	ENSG00000263090	ENST00000572513	protein_coding	KNOWN	None	16926	525	174	39382900	39383904	1	None	KAP9.2
15	RNU1-77P	ENSG00000212170	ENST00000390868	snRNA	KNOWN	None	48419	None	None	82466565	82466726	-1	None	None
12	UBA52P7	ENSG00000241656	ENST00000486088	processed_pseudogene	KNOWN	None	36615	None	None	116030409	116030788	-1	None	None
2	None	ENSG00000238082	ENST00000437039	processed_pseudogene	KNOWN	None	None	None	None	179319443	179320155	1	None	None
20	None	ENSG00000206959	ENST00000384232	misc_RNA	NOVEL	None	None	None	None	52161154	52161264	1	None	None
GL000222.1	None	ENSG00000265343	ENST00000580064	misc_RNA	NOVEL	None	None	None	None	40456	40754	1	None	None
3	LINC00881	ENSG00000241135	ENST00000467995	lincRNA	KNOWN	None	48567	None	None	156807670	156817618	1	None	None
3	LINC00881	ENSG00000241135	ENST00000474477	lincRNA	KNOWN	None	48567	None	None	156807670	156817945	1	None	None
3	LINC00881	ENSG00000241135	ENST00000471719	lincRNA	KNOWN	None	48567	None	None	156807670	156818924	1	None	None
3	SNRPFP4	ENSG00000235627	ENST00000456366	processed_pseudogene	KNOWN	None	39667	None	None	48202666	48202907	1	None	None
11	None	ENSG00000256196	ENST00000543907	antisense	KNOWN	None	None	None	None	60685941	60692869	-1	None	None
8	None	ENSG00000253665	ENST00000521257	lincRNA	KNOWN	None	None	None	None	39972170	39984987	1	None	None
19	None	ENSG00000267839	ENST00000593354	lincRNA	KNOWN	None	None	None	None	42337740	42340005	-1	None	None
5	LMBRD2	ENSG00000164187	ENST00000296603	protein_coding	KNOWN	CCDS34145	25287	2088	695	36098514	36152063	-1	None	DKFZp434H2226
5	LMBRD2	ENSG00000164187	ENST00000505524	retained_intron	KNOWN	None	25287	None	None	36108624	36115156	-1	None	DKFZp434H2226
5	LMBRD2	ENSG00000164187	ENST00000503535	retained_intron	KNOWN	None	25287	None	None	36141143	36142859	-1	None	DKFZp434H2226
3	None	ENSG00000216020	ENST00000401201	miRNA	NOVEL	None	None	None	None	191693743	191693813	1	None	None
11	IFITM1	ENSG00000185885	ENST00000528780	protein_coding	KNOWN	CCDS41584	5412	378	125	313506	315272	1	IFI17	9-27, CD225
11	IFITM1	ENSG00000185885	ENST00000328221	protein_coding	KNOWN	CCDS41584	5412	378	125	313527	315240	1	IFI17	9-27, CD225
11	IFITM1	ENSG00000185885	ENST00000408968	protein_coding	KNOWN	CCDS41584	5412	378	125	313853	315272	1	IFI17	9-27, CD225
11	IFITM1	ENSG00000185885	ENST00000525554	processed_transcript	KNOWN	None	5412	None	None	314418	314962	1	IFI17	9-27, CD225
11	RNU6-933P	ENSG00000207153	ENST00000384424	snRNA	KNOWN	None	47896	None	None	60752533	60752639	-1	None	None
X	SNORA36A	ENSG00000206948	ENST00000384221	snoRNA	KNOWN	None	32628	None	None	153996803	153996934	1	None	ACA36
11	None	ENSG00000245552	ENST00000501356	antisense	KNOWN	None	None	None	None	94883703	94892312	1	None	None
11	None	ENSG00000245552	ENST00000534864	antisense	KNOWN	None	None	None	None	94884217	94938044	1	None	None
11	None	ENSG00000245552	ENST00000545216	antisense	KNOWN	None	None	None	None	94884503	94891221	1	None	None
11	None	ENSG00000245552	ENST00000534891	antisense	KNOWN	None	None	None	None	94884910	94966854	1	None	None
11	None	ENSG00000245552	ENST00000536683	antisense	KNOWN	None	None	None	None	94963350	94967093	1	None	None
11	None	ENSG00000245552	ENST00000543150	antisense	KNOWN	None	None	None	None	94963560	94966907	1	None	None
11	None	ENSG00000245552	ENST00000540692	antisense	KNOWN	None	None	None	None	94964897	94966510	1	None	None
11	None	ENSG00000245552	ENST00000543573	antisense	KNOWN	None	None	None	None	94965735	94967268	1	None	None
20	None	ENSG00000197670	ENST00000424252	antisense	KNOWN	None	None	None	None	52169309	52191847	1	None	None
7	None	ENSG00000238228	ENST00000455678	processed_pseudogene	KNOWN	None	None	None	None	97576299	97577310	-1	None	None
11	None	ENSG00000256733	ENST00000536495	lincRNA	KNOWN	None	None	None	None	60823209	60835007	1	None	None
14	None	ENSG00000238330	ENST00000458969	snoRNA	NOVEL	None	None	None	None	74265718	74265821	1	None	None
3	None	ENSG00000232353	ENST00000452657	lincRNA	KNOWN	None	None	None	None	191747669	191754031	1	None	None
3	None	ENSG00000232353	ENST00000444729	lincRNA	KNOWN	None	None	None	None	191747669	191754346	1	None	None
3	None	ENSG00000232353	ENST00000412486	lincRNA	KNOWN	None	None	None	None	191749998	191754178	1	None	None
3	MIR548I1	ENSG00000221737	ENST00000408810	miRNA	KNOWN	None	35352	None	None	125509247	125509395	-1	MIRN548I1	hsa-mir-548i-1
11	None	ENSG00000255550	ENST00000532033	unprocessed_pseudogene	KNOWN	None	None	None	None	49875632	49880954	-1	None	None
7	MIR5692A2	ENSG00000266318	ENST00000580523	miRNA	KNOWN	None	43466	None	None	97592970	97593038	1	None	hsa-mir-5692a-2
7	MIR5692A1	ENSG00000266318	ENST00000580523	miRNA	KNOWN	None	43533	None	None	97592970	97593038	1	None	hsa-mir-5692a-1
14	RNU6ATAC30P	ENSG00000221114	ENST00000408187	snRNA	KNOWN	None	46929	None	None	50151262	50151383	1	None	None
11	PNPLA2	ENSG00000177666	ENST00000336615	protein_coding	KNOWN	CCDS7718	30802	1515	504	818902	825573	1	None	desnutrin, TTS-2.2, ATGL, FP17548, iPLA2zeta
11	PNPLA2	ENSG00000177666	ENST00000525250	retained_intron	KNOWN	None	30802	None	None	820835	825219	1	None	desnutrin, TTS-2.2, ATGL, FP17548, iPLA2zeta
11	PNPLA2	ENSG00000177666	ENST00000534561	retained_intron	KNOWN	None	30802	None	None	821774	822258	1	None	desnutrin, TTS-2.2, ATGL, FP17548, iPLA2zeta
11	PNPLA2	ENSG00000177666	ENST00000531923	retained_intron	KNOWN	None	30802	None	None	822016	823572	1	None	desnutrin, TTS-2.2, ATGL, FP17548, iPLA2zeta
11	PNPLA2	ENSG00000177666	ENST00000529255	retained_intron	KNOWN	None	30802	None	None	823543	825218	1	None	desnutrin, TTS-2.2, ATGL, FP17548, iPLA2zeta
11	PNPLA2	ENSG00000177666	ENST00000526083	retained_intron	KNOWN	None	30802	None	None	823648	824437	1	None	desnutrin, TTS-2.2, ATGL, FP17548, iPLA2zeta
8	None	ENSG00000254143	ENST00000520487	lincRNA	KNOWN	None	None	None	None	40018977	40030131	1	None	None
3	RPS3AP14	ENSG00000242229	ENST00000483907	processed_pseudogene	KNOWN	None	35715	None	None	125513949	125514728	1	None	None
7	MIR5692C2	ENSG00000266668	ENST00000577959	miRNA	KNOWN	None	43448	None	None	97593717	97593793	-1	None	hsa-mir-5692c-2
20	None	ENSG00000269931	ENST00000602702	lincRNA	KNOWN	None	None	None	None	12915525	12916431	-1	None	None
3	None	ENSG00000243295	ENST00000487624	lincRNA	KNOWN	None	None	None	None	59050876	59105235	1	None	None
14	None	ENSG00000258400	ENST00000557160	antisense	KNOWN	None	None	None	None	50174385	50175510	-1	None	None
11	None	ENSG00000255214	ENST00000526053	unprocessed_pseudogene	KNOWN	None	None	None	None	49893378	49895619	-1	None	None
7	None	ENSG00000183444	ENST00000442908	processed_pseudogene	KNOWN	None	None	None	None	97595402	97596335	-1	None	None
12	None	ENSG00000256844	ENST00000502742	processed_pseudogene	KNOWN	None	None	None	None	19260788	19261117	-1	None	None
3	RNU7-128P	ENSG00000253056	ENST00000517247	snRNA	KNOWN	None	45662	None	None	48221818	48221879	1	None	None
2	FAHD2B	ENSG00000144199	ENST00000414820	protein_coding	KNOWN	CCDS2030	25318	945	314	97749320	97760576	-1	None	DKFZp434N062
2	FAHD2B	ENSG00000144199	ENST00000272610	protein_coding	KNOWN	CCDS2030	25318	945	314	97749320	97760619	-1	None	DKFZp434N062
2	FAHD2B	ENSG00000144199	ENST00000474849	retained_intron	KNOWN	None	25318	None	None	97749627	97760557	-1	None	DKFZp434N062
2	FAHD2B	ENSG00000144199	ENST00000463096	retained_intron	KNOWN	None	25318	None	None	97749667	97760610	-1	None	DKFZp434N062
2	FAHD2B	ENSG00000144199	ENST00000468548	processed_transcript	KNOWN	None	25318	None	None	97752285	97760585	-1	None	DKFZp434N062
2	FAHD2B	ENSG00000144199	ENST00000483657	retained_intron	KNOWN	None	25318	None	None	97755493	97760572	-1	None	DKFZp434N062
2	FAHD2B	ENSG00000144199	ENST00000440566	protein_coding	KNOWN	CCDS2030	25318	945	314	97749324	97757443	-1	None	DKFZp434N062
16	None	ENSG00000262008	ENST00000571789	unprocessed_pseudogene	KNOWN	None	None	None	None	71476958	71477759	-1	None	None
3	None	ENSG00000241346	ENST00000492453	processed_pseudogene	KNOWN	None	None	None	None	125534925	125535129	-1	None	None
15	None	ENSG00000259523	ENST00000557989	antisense	KNOWN	None	None	None	None	30114834	30116284	1	None	None
3	NDUFB1P1	ENSG00000231884	ENST00000435191	processed_pseudogene	KNOWN	None	30893	None	None	48223037	48223216	1	NDUFB1P	bcm3095
7	None	ENSG00000243554	ENST00000453589	unprocessed_pseudogene	KNOWN	None	None	None	None	97598317	97601566	-1	None	None
3	PLSCR2	ENSG00000163746	ENST00000463633	nonsense_mediated_decay	KNOWN	None	16494	117	38	146109208	146177861	-1	None	None
3	PLSCR2	ENSG00000163746	ENST00000336685	protein_coding	KNOWN	None	16494	675	224	146151082	146213722	-1	None	None
3	PLSCR2	ENSG00000163746	ENST00000497985	protein_coding	PUTATIVE	CCDS56284	16494	894	297	146151232	146187088	-1	None	None
3	PLSCR2	ENSG00000163746	ENST00000489015	protein_coding	KNOWN	None	16494	483	160	146171789	146213778	-1	None	None
3	PLSCR2	ENSG00000163746	ENST00000474418	processed_transcript	PUTATIVE	None	16494	None	None	146212381	146213741	-1	None	None
11	None	ENSG00000256220	ENST00000537594	processed_transcript	PUTATIVE	None	None	None	None	60994640	61016005	1	None	None
X	None	ENSG00000256815	ENST00000536712	pseudogene	NOVEL	None	None	None	None	134252983	134253091	-1	None	None
9	ADAMTSL2	ENSG00000197859	ENST00000354484	protein_coding	KNOWN	CCDS6976	14631	2856	951	136397286	136440641	1	None	KIAA0605
9	ADAMTSL2	ENSG00000197859	ENST00000393061	protein_coding	KNOWN	None	14631	3183	1060	136399431	136440641	1	None	KIAA0605
9	ADAMTSL2	ENSG00000197859	ENST00000393060	protein_coding	KNOWN	CCDS6976	14631	2856	951	136399975	136440640	1	None	KIAA0605
12	RN7SL865P	ENSG00000240205	ENST00000466711	misc_RNA	KNOWN	None	46881	None	None	116155530	116155816	1	None	None
11	TRIM51DP	ENSG00000255190	ENST00000529746	processed_pseudogene	KNOWN	None	43969	None	None	49896497	49898190	1	None	None
11	None	ENSG00000255580	ENST00000535704	lincRNA	KNOWN	None	None	None	None	115234348	115248649	1	None	None
3	None	ENSG00000243903	ENST00000497258	lincRNA	KNOWN	None	None	None	None	59365750	59374430	-1	None	None
HG75_PATCH	None	ENSG00000260287	ENST00000569055	protein_coding	KNOWN	None	None	1650	549	34651203	34662129	1	None	None
7	RN7SL478P	ENSG00000263819	ENST00000584358	misc_RNA	KNOWN	None	46494	None	None	97627637	97627932	1	None	None
12	None	ENSG00000257781	ENST00000549163	lincRNA	KNOWN	None	None	None	None	116193067	116237741	1	None	None
3	None	ENSG00000241288	ENST00000601985	lincRNA	KNOWN	None	None	None	None	125546081	125592691	-1	None	None
3	None	ENSG00000241288	ENST00000599350	lincRNA	KNOWN	None	None	None	None	125546081	125604811	-1	None	None
3	None	ENSG00000241288	ENST00000594843	lincRNA	KNOWN	None	None	None	None	125546100	125604920	-1	None	None
3	None	ENSG00000241288	ENST00000599176	lincRNA	KNOWN	None	None	None	None	125579510	125581916	-1	None	None
3	None	ENSG00000241288	ENST00000600280	lincRNA	KNOWN	None	None	None	None	125579658	125581916	-1	None	None
3	None	ENSG00000241288	ENST00000468859	lincRNA	KNOWN	None	None	None	None	125581417	125606178	-1	None	None
3	None	ENSG00000241288	ENST00000597749	lincRNA	KNOWN	None	None	None	None	125605679	125607543	-1	None	None
3	None	ENSG00000241288	ENST00000600712	lincRNA	KNOWN	None	None	None	None	125605679	125607696	-1	None	None
14	RNU6-539P	ENSG00000252474	ENST00000516665	snRNA	KNOWN	None	47502	None	None	50306443	50306545	1	None	None
15	CATSPER2	ENSG00000166762	ENST00000396879	protein_coding	KNOWN	CCDS32216	18810	1587	528	43920701	43941042	-1	None	None
15	CATSPER2	ENSG00000166762	ENST00000381761	protein_coding	PUTATIVE	None	18810	1605	534	43922760	43941046	-1	None	None
15	CATSPER2	ENSG00000166762	ENST00000469461	retained_intron	KNOWN	None	18810	None	None	43922760	43941075	-1	None	None
15	CATSPER2	ENSG00000166762	ENST00000450810	nonsense_mediated_decay	KNOWN	None	18810	224	73	43922769	43924935	-1	None	None
15	CATSPER2	ENSG00000166762	ENST00000433380	nonsense_mediated_decay	KNOWN	None	18810	1245	414	43922806	43940259	-1	None	None
15	CATSPER2	ENSG00000166762	ENST00000321596	protein_coding	KNOWN	CCDS10099	18810	1593	530	43922872	43941024	-1	None	None
15	CATSPER2	ENSG00000166762	ENST00000419262	nonsense_mediated_decay	KNOWN	None	18810	40	12	43924397	43927590	-1	None	None
15	CATSPER2	ENSG00000166762	ENST00000472960	retained_intron	KNOWN	None	18810	None	None	43924469	43925417	-1	None	None
15	CATSPER2	ENSG00000166762	ENST00000415968	retained_intron	KNOWN	None	18810	None	None	43931620	43941045	-1	None	None
15	CATSPER2	ENSG00000166762	ENST00000464721	processed_transcript	KNOWN	None	18810	None	None	43939547	43959900	-1	None	None
15	CATSPER2	ENSG00000166762	ENST00000432420	protein_coding	KNOWN	None	18810	239	78	43939572	43941023	-1	None	None
15	CATSPER2	ENSG00000166762	ENST00000409481	protein_coding	KNOWN	None	18810	193	63	43939618	43960316	-1	None	None
15	CATSPER2	ENSG00000166762	ENST00000354127	protein_coding	KNOWN	CCDS32216	18810	1587	528	43922783	43941039	-1	None	None
15	CATSPER2	ENSG00000166762	ENST00000355438	protein_coding	KNOWN	None	18810	1245	414	43922783	43941039	-1	None	None
20	None	ENSG00000235415	ENST00000444112	lincRNA	KNOWN	None	None	None	None	52224893	52251129	1	None	None
12	PAN2	ENSG00000135473	ENST00000551359	retained_intron	KNOWN	None	20074	None	None	56710720	56727447	-1	USP52	KIAA0710, hPAN2
12	PAN2	ENSG00000135473	ENST00000440411	protein_coding	KNOWN	CCDS8915	20074	3597	1198	56710720	56727837	-1	USP52	KIAA0710, hPAN2
12	PAN2	ENSG00000135473	ENST00000257931	protein_coding	KNOWN	CCDS53802	20074	3606	1201	56710721	56727790	-1	USP52	KIAA0710, hPAN2
12	PAN2	ENSG00000135473	ENST00000547226	retained_intron	KNOWN	None	20074	None	None	56710725	56717971	-1	USP52	KIAA0710, hPAN2
12	PAN2	ENSG00000135473	ENST00000548043	protein_coding	KNOWN	CCDS44922	20074	3609	1202	56710731	56727527	-1	USP52	KIAA0710, hPAN2
12	PAN2	ENSG00000135473	ENST00000553230	retained_intron	KNOWN	None	20074	None	None	56711132	56712358	-1	USP52	KIAA0710, hPAN2
12	PAN2	ENSG00000135473	ENST00000547100	retained_intron	KNOWN	None	20074	None	None	56711347	56713273	-1	USP52	KIAA0710, hPAN2
12	PAN2	ENSG00000135473	ENST00000549090	processed_transcript	KNOWN	None	20074	None	None	56711385	56713273	-1	USP52	KIAA0710, hPAN2
12	PAN2	ENSG00000135473	ENST00000550028	retained_intron	KNOWN	None	20074	None	None	56713179	56716303	-1	USP52	KIAA0710, hPAN2
12	PAN2	ENSG00000135473	ENST00000552630	retained_intron	KNOWN	None	20074	None	None	56713740	56716420	-1	USP52	KIAA0710, hPAN2
12	PAN2	ENSG00000135473	ENST00000549348	retained_intron	KNOWN	None	20074	None	None	56716801	56717690	-1	USP52	KIAA0710, hPAN2
12	PAN2	ENSG00000135473	ENST00000547994	retained_intron	KNOWN	None	20074	None	None	56717591	56727721	-1	USP52	KIAA0710, hPAN2
12	PAN2	ENSG00000135473	ENST00000552868	retained_intron	KNOWN	None	20074	None	None	56717602	56718178	-1	USP52	KIAA0710, hPAN2
12	PAN2	ENSG00000135473	ENST00000548982	retained_intron	KNOWN	None	20074	None	None	56717667	56718185	-1	USP52	KIAA0710, hPAN2
12	PAN2	ENSG00000135473	ENST00000549073	retained_intron	KNOWN	None	20074	None	None	56718201	56720237	-1	USP52	KIAA0710, hPAN2
12	PAN2	ENSG00000135473	ENST00000550555	retained_intron	KNOWN	None	20074	None	None	56718835	56720199	-1	USP52	KIAA0710, hPAN2
12	PAN2	ENSG00000135473	ENST00000547572	protein_coding	PUTATIVE	None	20074	335	110	56721315	56727760	-1	USP52	KIAA0710, hPAN2
12	PAN2	ENSG00000135473	ENST00000547518	retained_intron	KNOWN	None	20074	None	None	56721677	56726665	-1	USP52	KIAA0710, hPAN2
12	PAN2	ENSG00000135473	ENST00000549964	retained_intron	KNOWN	None	20074	None	None	56726518	56727765	-1	USP52	KIAA0710, hPAN2
12	PAN2	ENSG00000135473	ENST00000425394	protein_coding	KNOWN	CCDS44922	20074	3609	1202	56710007	56727533	-1	USP52	KIAA0710, hPAN2
12	None	ENSG00000253284	ENST00000501211	sense_intronic	KNOWN	None	None	None	None	19300008	19307593	1	None	None
15	None	ENSG00000259749	ENST00000557911	unprocessed_pseudogene	KNOWN	None	None	None	None	30297408	30298633	1	None	None
12	None	ENSG00000257683	ENST00000546414	lincRNA	KNOWN	None	None	None	None	116248164	116323942	-1	None	None
11	None	ENSG00000256315	ENST00000543182	lincRNA	KNOWN	None	None	None	None	115267474	115268376	1	None	None
11	None	ENSG00000256315	ENST00000539685	antisense	KNOWN	None	None	None	None	115267538	115268295	1	None	None
11	None	ENSG00000256315	ENST00000540545	antisense	KNOWN	None	None	None	None	115267569	115268337	1	None	None
16	RNPS1	ENSG00000205937	ENST00000397086	protein_coding	KNOWN	CCDS10465	10080	918	305	2303117	2317849	-1	None	None
16	RNPS1	ENSG00000205937	ENST00000320225	protein_coding	KNOWN	CCDS10465	10080	918	305	2303117	2318413	-1	None	None
16	RNPS1	ENSG00000205937	ENST00000566458	protein_coding	KNOWN	None	10080	849	282	2303118	2318398	-1	None	None
16	RNPS1	ENSG00000205937	ENST00000562205	retained_intron	KNOWN	None	10080	None	None	2303124	2306867	-1	None	None
16	RNPS1	ENSG00000205937	ENST00000566397	protein_coding	PUTATIVE	None	10080	387	128	2303127	2314332	-1	None	None
16	RNPS1	ENSG00000205937	ENST00000565678	protein_coding	KNOWN	CCDS10465	10080	918	305	2303131	2317604	-1	None	None
16	RNPS1	ENSG00000205937	ENST00000561718	protein_coding	PUTATIVE	None	10080	387	128	2303140	2318067	-1	None	None
16	RNPS1	ENSG00000205937	ENST00000568631	protein_coding	KNOWN	CCDS10465	10080	918	305	2303829	2317830	-1	None	None
16	RNPS1	ENSG00000205937	ENST00000569598	protein_coding	NOVEL	None	10080	636	211	2303841	2318096	-1	None	None
16	RNPS1	ENSG00000205937	ENST00000301730	protein_coding	KNOWN	CCDS10465	10080	918	305	2303847	2318115	-1	None	None
16	RNPS1	ENSG00000205937	ENST00000567147	protein_coding	PUTATIVE	None	10080	774	257	2303857	2318072	-1	None	None
16	RNPS1	ENSG00000205937	ENST00000565243	retained_intron	KNOWN	None	10080	None	None	2303900	2308757	-1	None	None
16	RNPS1	ENSG00000205937	ENST00000565870	protein_coding	KNOWN	None	10080	907	301	2303976	2315251	-1	None	None
16	RNPS1	ENSG00000205937	ENST00000561518	protein_coding	KNOWN	None	10080	853	283	2304030	2318055	-1	None	None
16	RNPS1	ENSG00000205937	ENST00000564311	nonsense_mediated_decay	KNOWN	None	10080	471	156	2305642	2318092	-1	None	None
16	RNPS1	ENSG00000205937	ENST00000570051	retained_intron	KNOWN	None	10080	None	None	2312209	2318115	-1	None	None
16	RNPS1	ENSG00000205937	ENST00000564601	protein_coding	KNOWN	None	10080	508	168	2312755	2317853	-1	None	None
16	RNPS1	ENSG00000205937	ENST00000564764	protein_coding	KNOWN	None	10080	450	149	2312813	2317247	-1	None	None
16	RNPS1	ENSG00000205937	ENST00000566180	protein_coding	KNOWN	None	10080	419	138	2313097	2317834	-1	None	None
16	RNPS1	ENSG00000205937	ENST00000562690	protein_coding	KNOWN	None	10080	381	126	2313135	2318095	-1	None	None
16	RNPS1	ENSG00000205937	ENST00000569709	protein_coding	NOVEL	None	10080	294	97	2313215	2317338	-1	None	None
16	RNPS1	ENSG00000205937	ENST00000565333	protein_coding	KNOWN	None	10080	255	84	2313261	2317307	-1	None	None
16	RNPS1	ENSG00000205937	ENST00000563857	retained_intron	KNOWN	None	10080	None	None	2313898	2314877	-1	None	None
16	RNPS1	ENSG00000205937	ENST00000565589	protein_coding	KNOWN	None	10080	135	44	2314269	2316524	-1	None	None
16	RNPS1	ENSG00000205937	ENST00000564822	protein_coding	KNOWN	None	10080	88	28	2314316	2318115	-1	None	None
16	RNPS1	ENSG00000205937	ENST00000566783	retained_intron	KNOWN	None	10080	None	None	2315504	2317329	-1	None	None
18	IMPACT	ENSG00000154059	ENST00000284202	protein_coding	KNOWN	CCDS11886	20387	963	320	22006580	22033499	1	None	RWDD5
18	IMPACT	ENSG00000154059	ENST00000580706	retained_intron	KNOWN	None	20387	None	None	22006611	22031560	1	None	RWDD5
18	IMPACT	ENSG00000154059	ENST00000585067	protein_coding	PUTATIVE	None	20387	542	179	22006663	22025358	1	None	RWDD5
18	IMPACT	ENSG00000154059	ENST00000578221	protein_coding	PUTATIVE	None	20387	555	184	22006706	22023083	1	None	RWDD5
18	IMPACT	ENSG00000154059	ENST00000581278	protein_coding	PUTATIVE	None	20387	321	106	22028103	22033495	1	None	RWDD5
18	IMPACT	ENSG00000154059	ENST00000580035	nonsense_mediated_decay	KNOWN	None	20387	55	17	22030757	22033493	1	None	RWDD5
6	TRIM39-RPP21	ENSG00000248167	ENST00000513556	protein_coding	NOVEL	None	38845	1248	415	30297359	30314631	1	None	None
20	None	ENSG00000234265	ENST00000432244	lincRNA	KNOWN	None	None	None	None	12930986	12932275	1	None	None
11	RN7SL23P	ENSG00000240823	ENST00000484055	misc_RNA	KNOWN	None	46039	None	None	61211602	61211899	1	None	None
3	RN7SKP222	ENSG00000222583	ENST00000410651	misc_RNA	KNOWN	None	45946	None	None	191810911	191811225	1	None	None
14	RN7SL3	ENSG00000266037	ENST00000578231	misc_RNA	KNOWN	None	23135	None	None	50320336	50320632	-1	RN7SL631P	7L30.2, RNSRP3
7	None	ENSG00000234450	ENST00000431047	processed_pseudogene	KNOWN	None	None	None	None	156426049	156426481	1	None	None
3	None	ENSG00000242545	ENST00000486137	lincRNA	KNOWN	None	None	None	None	59450056	59496404	-1	None	None
1	None	ENSG00000230021	ENST00000440200	lincRNA	KNOWN	None	None	None	None	536816	655580	-1	None	None
1	None	ENSG00000230021	ENST00000441245	lincRNA	KNOWN	None	None	None	None	637316	655530	-1	None	None
1	None	ENSG00000230021	ENST00000419394	lincRNA	KNOWN	None	None	None	None	639065	655574	-1	None	None
1	None	ENSG00000230021	ENST00000448605	lincRNA	KNOWN	None	None	None	None	639065	741274	-1	None	None
1	None	ENSG00000230021	ENST00000414688	lincRNA	KNOWN	None	None	None	None	646722	655580	-1	None	None
1	None	ENSG00000230021	ENST00000447954	lincRNA	KNOWN	None	None	None	None	655438	659930	-1	None	None
9	None	ENSG00000203372	ENST00000366195	lincRNA	KNOWN	None	None	None	None	65467783	65469026	1	None	None
12	None	ENSG00000200112	ENST00000363242	snoRNA	NOVEL	None	None	None	None	116290453	116290523	-1	None	None
X	None	ENSG00000223809	ENST00000416873	lincRNA	KNOWN	None	None	None	None	134257167	134257532	-1	None	None
4	GUSBP5	ENSG00000236296	ENST00000510805	processed_transcript	KNOWN	None	42319	None	None	144480625	144482613	1	None	None
4	GUSBP5	ENSG00000236296	ENST00000509369	processed_transcript	KNOWN	None	42319	None	None	144480625	144489313	1	None	None
4	GUSBP5	ENSG00000236296	ENST00000418136	transcribed_processed_pseudogene	KNOWN	None	42319	None	None	144480640	144481217	1	None	None
4	GUSBP5	ENSG00000236296	ENST00000514475	processed_transcript	KNOWN	None	42319	None	None	144480848	144493877	1	None	None
4	GUSBP5	ENSG00000236296	ENST00000511042	processed_transcript	KNOWN	None	42319	None	None	144481280	144570458	1	None	None
4	GUSBP5	ENSG00000236296	ENST00000396724	processed_transcript	KNOWN	None	42319	None	None	144493566	144494827	1	None	None
3	MIR4443	ENSG00000265483	ENST00000585052	miRNA	KNOWN	None	41830	None	None	48238054	48238106	1	None	hsa-mir-4443
20	CENPB	ENSG00000125817	ENST00000379751	protein_coding	KNOWN	CCDS13064	1852	1800	599	3764498	3767337	-1	None	None
3	KCNMB3	ENSG00000171121	ENST00000486944	processed_transcript	PUTATIVE	None	6287	None	None	178957530	178961077	-1	KCNMB2, KCNMBL	None
3	KCNMB3	ENSG00000171121	ENST00000497599	protein_coding	PUTATIVE	CCDS54683	6287	522	173	178957594	178984790	-1	KCNMB2, KCNMBL	None
3	KCNMB3	ENSG00000171121	ENST00000392686	nonsense_mediated_decay	KNOWN	CCDS43172	6287	774	257	178957609	178977679	-1	KCNMB2, KCNMBL	None
3	KCNMB3	ENSG00000171121	ENST00000392685	protein_coding	KNOWN	CCDS43173	6287	828	275	178960552	178969418	-1	KCNMB2, KCNMBL	None
3	KCNMB3	ENSG00000171121	ENST00000314235	protein_coding	KNOWN	CCDS3226	6287	840	279	178960559	178969403	-1	KCNMB2, KCNMBL	None
3	KCNMB3	ENSG00000171121	ENST00000349697	protein_coding	KNOWN	CCDS3225	6287	834	277	178960559	178984759	-1	KCNMB2, KCNMBL	None
3	KCNMB3	ENSG00000171121	ENST00000485523	protein_coding	KNOWN	CCDS43172	6287	774	257	178960566	178976996	-1	KCNMB2, KCNMBL	None
11	None	ENSG00000255931	ENST00000534856	lincRNA	KNOWN	None	None	None	None	61263912	61267548	1	None	None
3	FGF12-AS1	ENSG00000231383	ENST00000530635	antisense	KNOWN	None	40234	None	None	191955826	191962776	1	None	None
3	FGF12-AS1	ENSG00000231383	ENST00000414920	antisense	KNOWN	None	40234	None	None	191956419	192000886	1	None	None
7	None	ENSG00000224903	ENST00000455709	antisense	KNOWN	None	None	None	None	156446879	156450387	-1	None	None
9	FAM74A4	ENSG00000229746	ENST00000377512	lincRNA	KNOWN	None	32032	None	None	65487273	65494248	-1	None	FLJ45202
9	FAM74A4	ENSG00000229746	ENST00000418603	lincRNA	KNOWN	None	32032	None	None	65488296	65494240	-1	None	FLJ45202
6	None	ENSG00000217275	ENST00000405418	processed_pseudogene	KNOWN	None	None	None	None	26202384	26202882	1	None	None
3	None	ENSG00000201778	ENST00000364908	misc_RNA	NOVEL	None	None	None	None	156871337	156871429	1	None	None
8	None	ENSG00000254242	ENST00000518324	lincRNA	KNOWN	None	None	None	None	18949243	18972534	1	None	None
12	RN7SL459P	ENSG00000240993	ENST00000481078	misc_RNA	KNOWN	None	46475	None	None	19329225	19329523	-1	None	None
HG79_PATCH	SLC2A6	ENSG00000261768	ENST00000567240	protein_coding	KNOWN	None	11011	1338	445	136346630	136354631	-1	None	GLUT9, GLUT6, HSA011372
HG79_PATCH	SLC2A6	ENSG00000261768	ENST00000561613	processed_transcript	KNOWN	None	11011	None	None	136346630	136354631	-1	None	GLUT9, GLUT6, HSA011372
HG79_PATCH	SLC2A6	ENSG00000261768	ENST00000563527	protein_coding	KNOWN	None	11011	1524	507	136346630	136354672	-1	None	GLUT9, GLUT6, HSA011372
HG79_PATCH	SLC2A6	ENSG00000261768	ENST00000564829	protein_coding	KNOWN	None	11011	659	218	136350935	136354662	-1	None	GLUT9, GLUT6, HSA011372
HG79_PATCH	SLC2A6	ENSG00000261768	ENST00000567183	protein_coding	KNOWN	None	11011	438	145	136350941	136354610	-1	None	GLUT9, GLUT6, HSA011372
4	USP53	ENSG00000145390	ENST00000514665	retained_intron	KNOWN	None	29255	None	None	120133742	120142650	1	None	KIAA1350
4	USP53	ENSG00000145390	ENST00000274030	protein_coding	KNOWN	CCDS43265	29255	3222	1073	120133791	120215901	1	None	KIAA1350
4	USP53	ENSG00000145390	ENST00000507597	processed_transcript	KNOWN	None	29255	None	None	120133896	120160496	1	None	KIAA1350
4	USP53	ENSG00000145390	ENST00000514305	processed_transcript	KNOWN	None	29255	None	None	120133898	120141366	1	None	KIAA1350
4	USP53	ENSG00000145390	ENST00000510737	processed_transcript	KNOWN	None	29255	None	None	120134334	120160467	1	None	KIAA1350
4	USP53	ENSG00000145390	ENST00000509769	nonsense_mediated_decay	KNOWN	None	29255	984	327	120160795	120215793	1	None	KIAA1350
4	USP53	ENSG00000145390	ENST00000507906	nonsense_mediated_decay	KNOWN	None	29255	195	64	120182948	120192508	1	None	KIAA1350
4	USP53	ENSG00000145390	ENST00000510852	retained_intron	KNOWN	None	29255	None	None	120188536	120194485	1	None	KIAA1350
4	USP53	ENSG00000145390	ENST00000450251	protein_coding	KNOWN	CCDS43265	29255	3222	1073	120160371	120216672	1	None	KIAA1350
12	RN7SL67P	ENSG00000243854	ENST00000492147	misc_RNA	KNOWN	None	46083	None	None	19456414	19456710	1	None	None
3	KRT18P34	ENSG00000244515	ENST00000488218	processed_pseudogene	KNOWN	None	33403	None	None	156880452	156881721	-1	None	None
10	HTRA1	ENSG00000166033	ENST00000368984	protein_coding	KNOWN	CCDS7630	9476	1443	480	124221041	124274424	1	PRSS11	HtrA, IGFBP5-protease, ARMD7
10	HTRA1	ENSG00000166033	ENST00000420892	protein_coding	KNOWN	None	9476	666	221	124266207	124274423	1	PRSS11	HtrA, IGFBP5-protease, ARMD7
11	None	ENSG00000254800	ENST00000530696	processed_pseudogene	KNOWN	None	None	None	None	49904551	49905645	1	None	None
14	RN7SL2	ENSG00000265150	ENST00000490232	misc_RNA	KNOWN	None	23134	None	None	50329271	50329567	-1	None	7SL1c, 7L30.1, RNSRP2
12	None	ENSG00000258034	ENST00000549725	antisense	KNOWN	None	None	None	None	116398992	116400538	1	None	None
3	None	ENSG00000241804	ENST00000482313	processed_pseudogene	KNOWN	None	None	None	None	59521589	59522141	1	None	None
4	RN7SKP28	ENSG00000201640	ENST00000364770	misc_RNA	KNOWN	None	45752	None	None	97269889	97270189	-1	None	None
6	HIST1H2APS3	ENSG00000218281	ENST00000403259	processed_pseudogene	KNOWN	None	18805	None	None	26233350	26233483	1	None	dJ34B20.8, H2AFUP
19	FGF21	ENSG00000105550	ENST00000593756	protein_coding	KNOWN	CCDS12734	3678	630	209	49258816	49261587	1	None	None
19	FGF21	ENSG00000105550	ENST00000222157	protein_coding	KNOWN	CCDS12734	3678	630	209	49259344	49261580	1	None	None
4	COX7A2P2	ENSG00000236764	ENST00000505291	processed_pseudogene	KNOWN	None	2290	None	None	97823952	97824201	1	COX7A3, COX7AP2	COX7AL2
12	RNU6-1188P	ENSG00000200665	ENST00000363795	snRNA	KNOWN	None	48151	None	None	116520375	116520481	1	None	None
6	HIST1H2APS4	ENSG00000218690	ENST00000362070	processed_pseudogene	KNOWN	None	4732	None	None	26272421	26272768	-1	H2AFK, H2AFKP	pH2A/k, dJ34B20.2
11	None	ENSG00000256281	ENST00000544663	lincRNA	KNOWN	None	None	None	None	115403040	115403671	-1	None	None
11	MIR4488	ENSG00000266006	ENST00000577388	miRNA	KNOWN	None	41599	None	None	61276068	61276129	1	None	hsa-mir-4488
12	MIR620	ENSG00000207967	ENST00000385232	miRNA	KNOWN	None	32876	None	None	116586365	116586459	-1	MIRN620	hsa-mir-620
15	None	ENSG00000259647	ENST00000561392	lincRNA	KNOWN	None	None	None	None	30297646	30338051	-1	None	None
12	None	ENSG00000255909	ENST00000543528	processed_pseudogene	KNOWN	None	None	None	None	19566087	19566395	1	None	None
3	FGF12-AS2	ENSG00000230126	ENST00000443165	antisense	KNOWN	None	40235	None	None	192232811	192234362	1	None	None
3	MRPS18AP1	ENSG00000229759	ENST00000414458	processed_pseudogene	KNOWN	None	29740	None	None	48297840	48298428	-1	None	None
4	None	ENSG00000253170	ENST00000517407	lincRNA	KNOWN	None	None	None	None	98041852	98056210	1	None	None
2	ISCA1P6	ENSG00000227653	ENST00000427740	processed_pseudogene	KNOWN	None	38027	None	None	129276362	129276751	-1	None	None
6	HIST1H3PS1	ENSG00000220875	ENST00000404612	processed_pseudogene	KNOWN	None	18982	None	None	26322104	26322520	-1	None	dJ45P21.6, H3F3AP1
12	None	ENSG00000258162	ENST00000546936	antisense	KNOWN	None	None	None	None	81771821	81824122	1	None	None
12	None	ENSG00000258162	ENST00000550272	antisense	KNOWN	None	None	None	None	81811040	81866733	1	None	None
8	None	ENSG00000250316	ENST00000507289	unprocessed_pseudogene	KNOWN	None	None	None	None	19095247	19099422	1	None	None
19	SLC8A2	ENSG00000118160	ENST00000236877	protein_coding	KNOWN	CCDS33065	11069	2766	921	47931274	47975425	-1	None	NCX2, KIAA1087
19	SLC8A2	ENSG00000118160	ENST00000539381	protein_coding	PUTATIVE	None	11069	1155	384	47932997	47975120	-1	None	NCX2, KIAA1087
19	SLC8A2	ENSG00000118160	ENST00000542837	protein_coding	PUTATIVE	None	11069	2034	677	47933076	47975129	-1	None	NCX2, KIAA1087
19	SLC8A2	ENSG00000118160	ENST00000600576	retained_intron	KNOWN	None	11069	None	None	47933492	47935825	-1	None	NCX2, KIAA1087
19	SLC8A2	ENSG00000118160	ENST00000601757	processed_transcript	KNOWN	None	11069	None	None	47935664	47950879	-1	None	NCX2, KIAA1087
19	SLC8A2	ENSG00000118160	ENST00000594353	protein_coding	PUTATIVE	None	11069	478	158	47960770	47975125	-1	None	NCX2, KIAA1087
19	SLC8A2	ENSG00000118160	ENST00000597014	protein_coding	PUTATIVE	None	11069	435	144	47968992	47975150	-1	None	NCX2, KIAA1087
4	None	ENSG00000254044	ENST00000521680	sense_overlapping	KNOWN	None	None	None	None	98255786	98554962	-1	None	None
4	None	ENSG00000254044	ENST00000518105	sense_overlapping	KNOWN	None	None	None	None	98307111	98554974	-1	None	None
12	None	ENSG00000257979	ENST00000553000	processed_pseudogene	KNOWN	None	None	None	None	116606850	116607063	1	None	None
7	None	ENSG00000225666	ENST00000430825	antisense	KNOWN	None	None	None	None	156461646	156469257	-1	None	None
6	RNU6-1259P	ENSG00000252399	ENST00000516590	snRNA	KNOWN	None	48222	None	None	26353199	26353264	-1	None	None
6	None	ENSG00000215979	ENST00000401160	miRNA	NOVEL	None	None	None	None	26365704	26365780	-1	None	None
12	RERGL	ENSG00000111404	ENST00000229002	protein_coding	KNOWN	CCDS8679	26213	618	205	18233803	18243127	-1	None	FLJ22655
12	RERGL	ENSG00000111404	ENST00000538724	protein_coding	PUTATIVE	None	26213	615	204	18233816	18243123	-1	None	FLJ22655
12	RERGL	ENSG00000111404	ENST00000540148	processed_transcript	KNOWN	None	26213	None	None	18234152	18355004	-1	None	FLJ22655
12	RERGL	ENSG00000111404	ENST00000536890	protein_coding	PUTATIVE	None	26213	189	62	18234271	18243075	-1	None	FLJ22655
12	RERGL	ENSG00000111404	ENST00000541632	processed_transcript	KNOWN	None	26213	None	None	18234298	18473041	-1	None	FLJ22655
11	None	ENSG00000256443	ENST00000540906	lincRNA	KNOWN	None	None	None	None	61306988	61309731	-1	None	None
19	ARHGAP33	ENSG00000004777	ENST00000589133	processed_transcript	KNOWN	None	23085	None	None	36265434	36269451	1	SNX26	FLJ39019, TCGAP
19	ARHGAP33	ENSG00000004777	ENST00000378944	protein_coding	KNOWN	CCDS54254	23085	3372	1123	36266417	36279724	1	SNX26	FLJ39019, TCGAP
19	ARHGAP33	ENSG00000004777	ENST00000590893	nonsense_mediated_decay	KNOWN	None	23085	297	98	36266445	36271116	1	SNX26	FLJ39019, TCGAP
19	ARHGAP33	ENSG00000004777	ENST00000314737	protein_coding	KNOWN	CCDS12477	23085	3381	1126	36266477	36279724	1	SNX26	FLJ39019, TCGAP
19	ARHGAP33	ENSG00000004777	ENST00000221905	processed_transcript	KNOWN	None	23085	None	None	36268487	36270893	1	SNX26	FLJ39019, TCGAP
19	ARHGAP33	ENSG00000004777	ENST00000601474	retained_intron	KNOWN	None	23085	None	None	36272072	36275295	1	SNX26	FLJ39019, TCGAP
19	ARHGAP33	ENSG00000004777	ENST00000588248	protein_coding	NOVEL	None	23085	1987	661	36273275	36279701	1	SNX26	FLJ39019, TCGAP
19	ARHGAP33	ENSG00000004777	ENST00000591438	processed_transcript	KNOWN	None	23085	None	None	36273375	36275439	1	SNX26	FLJ39019, TCGAP
19	ARHGAP33	ENSG00000004777	ENST00000586918	retained_intron	KNOWN	None	23085	None	None	36273527	36273814	1	SNX26	FLJ39019, TCGAP
19	ARHGAP33	ENSG00000004777	ENST00000587447	protein_coding	NOVEL	None	23085	2590	862	36273543	36279724	1	SNX26	FLJ39019, TCGAP
19	ARHGAP33	ENSG00000004777	ENST00000593034	retained_intron	KNOWN	None	23085	None	None	36275734	36277500	1	SNX26	FLJ39019, TCGAP
19	ARHGAP33	ENSG00000004777	ENST00000587984	retained_intron	KNOWN	None	23085	None	None	36275809	36277652	1	SNX26	FLJ39019, TCGAP
19	ARHGAP33	ENSG00000004777	ENST00000007510	protein_coding	KNOWN	None	23085	3864	1287	36266417	36279724	1	SNX26	FLJ39019, TCGAP
3	UBXN7	ENSG00000163960	ENST00000296328	protein_coding	KNOWN	CCDS43191	29119	1470	489	196074533	196159345	-1	UBXD7	KIAA0794
3	UBXN7	ENSG00000163960	ENST00000429160	nonsense_mediated_decay	KNOWN	None	29119	228	75	196081748	196159298	-1	UBXD7	KIAA0794
3	UBXN7	ENSG00000163960	ENST00000428095	protein_coding	PUTATIVE	None	29119	984	327	196083489	196159301	-1	UBXD7	KIAA0794
3	UBXN7	ENSG00000163960	ENST00000381887	protein_coding	NOVEL	None	29119	375	124	196118709	196159268	-1	UBXD7	KIAA0794
3	UBXN7	ENSG00000163960	ENST00000413584	protein_coding	PUTATIVE	None	29119	229	75	196120452	196143106	-1	UBXD7	KIAA0794
3	UBXN7	ENSG00000163960	ENST00000493566	retained_intron	KNOWN	None	29119	None	None	196127000	196159298	-1	UBXD7	KIAA0794
3	UBXN7	ENSG00000163960	ENST00000535858	protein_coding	KNOWN	None	29119	1026	341	196083508	196159298	-1	UBXD7	KIAA0794
4	None	ENSG00000246448	ENST00000499587	antisense	KNOWN	None	None	None	None	144621410	144786225	1	None	None
3	None	ENSG00000199476	ENST00000362606	misc_RNA	NOVEL	None	None	None	None	48330077	48330184	1	None	None
3	FGF12-AS3	ENSG00000226709	ENST00000452848	antisense	KNOWN	None	40236	None	None	192234620	192239187	1	None	None
3	None	ENSG00000241770	ENST00000480817	antisense	KNOWN	None	None	None	None	156881241	156886922	1	None	None
3	None	ENSG00000248790	ENST00000512398	antisense	KNOWN	None	None	None	None	139185272	139185637	1	None	None
3	FCF1P2	ENSG00000228638	ENST00000415284	processed_pseudogene	KNOWN	None	44614	None	None	48332283	48332865	-1	None	None
1	LPAR3	ENSG00000171517	ENST00000440886	protein_coding	KNOWN	CCDS700	14298	1062	353	85277285	85331842	-1	EDG7	LP-A3, Edg-7, RP4-678I3, HOFNH30, LPA3
1	LPAR3	ENSG00000171517	ENST00000491034	processed_transcript	KNOWN	None	14298	None	None	85279599	85331827	-1	EDG7	LP-A3, Edg-7, RP4-678I3, HOFNH30, LPA3
1	LPAR3	ENSG00000171517	ENST00000370611	protein_coding	KNOWN	CCDS700	14298	1062	353	85279087	85358896	-1	EDG7	LP-A3, Edg-7, RP4-678I3, HOFNH30, LPA3
3	None	ENSG00000240097	ENST00000467363	processed_pseudogene	KNOWN	None	None	None	None	60602555	60603812	1	None	None
12	None	ENSG00000258337	ENST00000549373	sense_intronic	KNOWN	None	None	None	None	116612307	116619100	-1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000585625	antisense	KNOWN	None	44124	None	None	179385910	179396305	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000419746	antisense	KNOWN	None	44124	None	None	179387554	179470132	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000587568	antisense	KNOWN	None	44124	None	None	179387742	179396305	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000442329	antisense	KNOWN	None	44124	None	None	179387894	179400555	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000431259	antisense	KNOWN	None	44124	None	None	179387894	179402395	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000589434	antisense	KNOWN	None	44124	None	None	179387942	179403980	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000592161	antisense	KNOWN	None	44124	None	None	179387943	179392088	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000456053	antisense	KNOWN	None	44124	None	None	179387951	179484941	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000588804	antisense	KNOWN	None	44124	None	None	179388019	179403519	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000585487	antisense	KNOWN	None	44124	None	None	179388019	179403649	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000590040	antisense	KNOWN	None	44124	None	None	179388019	179408159	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000586707	antisense	KNOWN	None	44124	None	None	179388019	179449579	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000592600	antisense	KNOWN	None	44124	None	None	179388019	179449716	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000591332	antisense	KNOWN	None	44124	None	None	179388019	179462408	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000592750	antisense	KNOWN	None	44124	None	None	179388019	179484615	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000592630	antisense	KNOWN	None	44124	None	None	179388019	179578627	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000585451	antisense	KNOWN	None	44124	None	None	179388166	179639385	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000587576	antisense	KNOWN	None	44124	None	None	179388284	179392104	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000604571	antisense	KNOWN	None	44124	None	None	179388631	179396307	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000592182	antisense	KNOWN	None	44124	None	None	179392720	179403497	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000587944	antisense	KNOWN	None	44124	None	None	179393338	179396305	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000589842	antisense	KNOWN	None	44124	None	None	179393467	179401804	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000588257	antisense	KNOWN	None	44124	None	None	179393467	179401854	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000591867	antisense	KNOWN	None	44124	None	None	179393467	179402185	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000591466	antisense	KNOWN	None	44124	None	None	179393467	179402327	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000588244	antisense	KNOWN	None	44124	None	None	179393467	179403556	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000589391	antisense	KNOWN	None	44124	None	None	179393467	179403582	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000585358	antisense	KNOWN	None	44124	None	None	179393467	179403630	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000588716	antisense	KNOWN	None	44124	None	None	179393467	179403630	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000592836	antisense	KNOWN	None	44124	None	None	179393467	179403630	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000450692	antisense	KNOWN	None	44124	None	None	179393467	179403645	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000586831	antisense	KNOWN	None	44124	None	None	179393467	179449543	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000592689	antisense	KNOWN	None	44124	None	None	179393467	179462627	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000586452	antisense	KNOWN	None	44124	None	None	179393467	179469529	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000590807	antisense	KNOWN	None	44124	None	None	179393467	179509228	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000589355	antisense	KNOWN	None	44124	None	None	179395542	179396292	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000415561	antisense	KNOWN	None	44124	None	None	179402114	179403631	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000438095	antisense	KNOWN	None	44124	None	None	179404843	179447390	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000590932	antisense	KNOWN	None	44124	None	None	179406474	179462408	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000590743	antisense	KNOWN	None	44124	None	None	179449300	179456025	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000589907	antisense	KNOWN	None	44124	None	None	179449301	179497163	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000589234	antisense	KNOWN	None	44124	None	None	179455885	179479002	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000589830	antisense	KNOWN	None	44124	None	None	179462323	179578556	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000589487	antisense	KNOWN	None	44124	None	None	179465285	179559372	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000604956	antisense	KNOWN	None	44124	None	None	179483585	179484944	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000418062	antisense	KNOWN	None	44124	None	None	179501287	179510650	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000431752	antisense	KNOWN	None	44124	None	None	179501302	179578965	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000582847	antisense	KNOWN	None	44124	None	None	179597664	179607697	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000590773	antisense	KNOWN	None	44124	None	None	179602868	179625737	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000578746	antisense	KNOWN	None	44124	None	None	179609506	179629339	1	None	None
2	TTN-AS1	ENSG00000237298	ENST00000584485	antisense	KNOWN	None	44124	None	None	179637674	179639402	1	None	None
15	RPLP1	ENSG00000137818	ENST00000260379	protein_coding	KNOWN	CCDS10233	10372	345	114	69745123	69748255	1	None	LP1
15	RPLP1	ENSG00000137818	ENST00000357790	protein_coding	KNOWN	CCDS10234	10372	270	89	69745153	69747886	1	None	LP1
15	RPLP1	ENSG00000137818	ENST00000487304	retained_intron	KNOWN	None	10372	None	None	69745158	69747885	1	None	LP1
15	RPLP1	ENSG00000137818	ENST00000560274	protein_coding	PUTATIVE	None	10372	165	54	69745223	69747885	1	None	LP1
15	RPLP1	ENSG00000137818	ENST00000488122	retained_intron	KNOWN	None	10372	None	None	69745358	69747885	1	None	LP1
11	None	ENSG00000257087	ENST00000537926	processed_pseudogene	KNOWN	None	None	None	None	115409587	115410102	-1	None	None
16	IGHV3OR16-7	ENSG00000271620	ENST00000604106	IG_V_pseudogene	KNOWN	None	5642	None	None	33740804	33741266	-1	None	IGHV3/OR16-7
3	ACTG1P1	ENSG00000178631	ENST00000415794	processed_pseudogene	KNOWN	None	146	None	None	139212651	139213779	1	ACTGP1, ACT1GP1	None
4	None	ENSG00000250345	ENST00000506341	processed_pseudogene	KNOWN	None	None	None	None	144681552	144683246	-1	None	None
11	None	ENSG00000255111	ENST00000525742	processed_pseudogene	KNOWN	None	None	None	None	49913814	49915329	-1	None	None
12	None	ENSG00000271462	ENST00000603848	processed_pseudogene	KNOWN	None	None	None	None	19571861	19572095	-1	None	None
3	None	ENSG00000238902	ENST00000459180	snoRNA	NOVEL	None	None	None	None	192251798	192251901	-1	None	None
Y	ARSEP1	ENSG00000224060	ENST00000420443	unprocessed_pseudogene	KNOWN	None	720	None	None	14460540	14468218	1	ARSEP	None
14	RNU6-189P	ENSG00000251929	ENST00000516120	snRNA	KNOWN	None	47152	None	None	50368568	50368668	-1	None	None
3	None	ENSG00000263538	ENST00000580166	miRNA	NOVEL	None	None	None	None	139213460	139213543	1	None	None
2	None	ENSG00000237532	ENST00000412312	lincRNA	KNOWN	None	None	None	None	129338065	129339150	-1	None	None
3	RNU1-20P	ENSG00000200184	ENST00000363314	snRNA	KNOWN	None	41946	None	None	192447344	192447505	-1	None	None
3	None	ENSG00000214280	ENST00000514454	processed_pseudogene	KNOWN	None	None	None	None	139301770	139302435	-1	None	None
X	None	ENSG00000256182	ENST00000536362	pseudogene	NOVEL	None	None	None	None	134257168	134257528	1	None	None
6	RPP21	ENSG00000241370	ENST00000433076	protein_coding	KNOWN	CCDS56409	21300	489	162	30312908	30314634	1	C6orf135	FLJ22638, Em:AB014085.3
6	RPP21	ENSG00000241370	ENST00000466327	processed_transcript	KNOWN	None	21300	None	None	30312911	30314270	1	C6orf135	FLJ22638, Em:AB014085.3
6	RPP21	ENSG00000241370	ENST00000498414	retained_intron	KNOWN	None	21300	None	None	30312919	30314634	1	C6orf135	FLJ22638, Em:AB014085.3
6	RPP21	ENSG00000241370	ENST00000489124	processed_transcript	KNOWN	None	21300	None	None	30312928	30314634	1	C6orf135	FLJ22638, Em:AB014085.3
6	RPP21	ENSG00000241370	ENST00000491477	processed_transcript	KNOWN	None	21300	None	None	30312930	30314661	1	C6orf135	FLJ22638, Em:AB014085.3
6	RPP21	ENSG00000241370	ENST00000473266	retained_intron	KNOWN	None	21300	None	None	30312932	30314634	1	C6orf135	FLJ22638, Em:AB014085.3
6	RPP21	ENSG00000241370	ENST00000442966	protein_coding	KNOWN	CCDS4679	21300	465	154	30312936	30314634	1	C6orf135	FLJ22638, Em:AB014085.3
6	RPP21	ENSG00000241370	ENST00000428040	protein_coding	KNOWN	None	21300	534	177	30312936	30314634	1	C6orf135	FLJ22638, Em:AB014085.3
6	RPP21	ENSG00000241370	ENST00000436442	protein_coding	KNOWN	CCDS56410	21300	435	144	30312946	30314634	1	C6orf135	FLJ22638, Em:AB014085.3
2	CAD	ENSG00000084774	ENST00000264705	protein_coding	KNOWN	CCDS1742	1424	6678	2225	27440258	27466811	1	None	None
2	CAD	ENSG00000084774	ENST00000403525	protein_coding	NOVEL	None	1424	6489	2162	27440276	27466653	1	None	None
2	CAD	ENSG00000084774	ENST00000491891	retained_intron	KNOWN	None	1424	None	None	27449092	27454440	1	None	None
2	CAD	ENSG00000084774	ENST00000464159	processed_transcript	KNOWN	None	1424	None	None	27450369	27455511	1	None	None
2	CAD	ENSG00000084774	ENST00000475695	retained_intron	KNOWN	None	1424	None	None	27455947	27457003	1	None	None
2	CAD	ENSG00000084774	ENST00000479002	retained_intron	KNOWN	None	1424	None	None	27457464	27458744	1	None	None
2	CAD	ENSG00000084774	ENST00000458503	protein_coding	NOVEL	None	1424	806	267	27458501	27461046	1	None	None
2	CAD	ENSG00000084774	ENST00000456311	protein_coding	NOVEL	None	1424	837	278	27461986	27464819	1	None	None
2	CAD	ENSG00000084774	ENST00000487239	retained_intron	KNOWN	None	1424	None	None	27462020	27463090	1	None	None
2	CAD	ENSG00000084774	ENST00000491461	processed_transcript	KNOWN	None	1424	None	None	27462199	27463086	1	None	None
2	CAD	ENSG00000084774	ENST00000428460	protein_coding	PUTATIVE	None	1424	881	292	27464789	27466458	1	None	None
6	BTN2A3P	ENSG00000124549	ENST00000465856	processed_transcript	KNOWN	None	13229	None	None	26421619	26430816	1	BTN2A3	None
6	BTN2A3P	ENSG00000124549	ENST00000377662	transcribed_unprocessed_pseudogene	KNOWN	None	13229	None	None	26422347	26431843	1	BTN2A3	None
6	BTN2A3P	ENSG00000124549	ENST00000466808	processed_transcript	KNOWN	None	13229	None	None	26422347	26432611	1	BTN2A3	None
6	BTN2A3P	ENSG00000124549	ENST00000475151	processed_transcript	KNOWN	None	13229	None	None	26423780	26428899	1	BTN2A3	None
6	BTN2A3P	ENSG00000124549	ENST00000463944	processed_transcript	KNOWN	None	13229	None	None	26423958	26428259	1	BTN2A3	None
6	BTN2A3P	ENSG00000124549	ENST00000297020	unprocessed_pseudogene	KNOWN	None	13229	None	None	26421619	26431843	1	BTN2A3	None
10	None	ENSG00000225497	ENST00000428936	antisense	KNOWN	None	None	None	None	78907410	78909858	1	None	None
10	None	ENSG00000225497	ENST00000430464	antisense	KNOWN	None	None	None	None	78908050	78909858	1	None	None
3	RNA5SP146	ENSG00000222675	ENST00000410743	rRNA	KNOWN	None	43046	None	None	156891707	156891829	-1	RN5S146	None
6	TPMT	ENSG00000137364	ENST00000309983	protein_coding	KNOWN	CCDS4543	12014	738	245	18128542	18155305	-1	None	None
3	None	ENSG00000232130	ENST00000414895	lincRNA	KNOWN	None	None	None	None	192862253	192894653	-1	None	None
2	None	ENSG00000238277	ENST00000413403	lincRNA	KNOWN	None	None	None	None	129821419	129829298	-1	None	None
3	RN7SKP124	ENSG00000201600	ENST00000364730	misc_RNA	KNOWN	None	45848	None	None	139302947	139303287	-1	None	None
11	None	ENSG00000250230	ENST00000506329	lincRNA	KNOWN	None	None	None	None	61355966	61375022	1	None	None
11	None	ENSG00000255903	ENST00000436610	processed_pseudogene	KNOWN	None	None	None	None	115448767	115448961	1	None	None
7	RNU4-31P	ENSG00000206938	ENST00000384211	snRNA	KNOWN	None	46967	None	None	156664772	156664912	1	None	None
22	ATF4	ENSG00000128272	ENST00000404241	protein_coding	KNOWN	CCDS13996	786	1056	351	39915700	39918688	1	TXREB	TAXREB67, CREB-2
22	ATF4	ENSG00000128272	ENST00000337304	protein_coding	KNOWN	CCDS13996	786	1056	351	39916569	39918688	1	TXREB	TAXREB67, CREB-2
22	ATF4	ENSG00000128272	ENST00000396680	protein_coding	KNOWN	CCDS13996	786	1056	351	39916569	39918691	1	TXREB	TAXREB67, CREB-2
3	RN7SL724P	ENSG00000244692	ENST00000461895	misc_RNA	KNOWN	None	46740	None	None	139328513	139328781	-1	None	None
19	IGFL4	ENSG00000204869	ENST00000377697	protein_coding	KNOWN	CCDS33057	32931	375	124	46543006	46544274	-1	None	None
19	IGFL4	ENSG00000204869	ENST00000601672	protein_coding	PUTATIVE	None	32931	93	30	46543082	46580352	-1	None	None
19	IGFL4	ENSG00000204869	ENST00000595006	processed_transcript	KNOWN	None	32931	None	None	46543581	46566186	-1	None	None
19	IGFL4	ENSG00000204869	ENST00000596694	retained_intron	KNOWN	None	32931	None	None	46560932	46580376	-1	None	None
2	None	ENSG00000204460	ENST00000375987	lincRNA	KNOWN	None	None	None	None	129999746	130031421	-1	None	None
7	None	ENSG00000230033	ENST00000427073	lincRNA	KNOWN	None	None	None	None	156737415	156738339	1	None	None
10	None	ENSG00000224500	ENST00000413564	antisense	KNOWN	None	None	None	None	79073699	79075452	1	None	None
14	None	ENSG00000258946	ENST00000556434	lincRNA	KNOWN	None	None	None	None	50394289	50428678	-1	None	None
14	None	ENSG00000258946	ENST00000556913	lincRNA	KNOWN	None	None	None	None	50408654	50428678	-1	None	None
14	None	ENSG00000258946	ENST00000556130	lincRNA	KNOWN	None	None	None	None	50412872	50427380	-1	None	None
3	None	ENSG00000261763	ENST00000563865	lincRNA	KNOWN	None	None	None	None	139397462	139401406	-1	None	None
X	SSR4	ENSG00000180879	ENST00000320857	protein_coding	KNOWN	CCDS14731	11326	522	173	153058971	153063953	1	None	TRAPD
X	SSR4	ENSG00000180879	ENST00000491833	processed_transcript	KNOWN	None	11326	None	None	153059630	153061797	1	None	TRAPD
X	SSR4	ENSG00000180879	ENST00000370087	protein_coding	KNOWN	CCDS14731	11326	522	173	153059646	153063953	1	None	TRAPD
X	SSR4	ENSG00000180879	ENST00000482902	processed_transcript	KNOWN	None	11326	None	None	153059904	153063948	1	None	TRAPD
X	SSR4	ENSG00000180879	ENST00000370086	protein_coding	KNOWN	CCDS14731	11326	522	173	153060094	153063960	1	None	TRAPD
X	SSR4	ENSG00000180879	ENST00000460616	processed_transcript	KNOWN	None	11326	None	None	153060114	153063948	1	None	TRAPD
X	SSR4	ENSG00000180879	ENST00000370085	protein_coding	KNOWN	None	11326	447	148	153060129	153063953	1	None	TRAPD
X	SSR4	ENSG00000180879	ENST00000471724	processed_transcript	KNOWN	None	11326	None	None	153060131	153062958	1	None	TRAPD
X	SSR4	ENSG00000180879	ENST00000471880	processed_transcript	KNOWN	None	11326	None	None	153060134	153063948	1	None	TRAPD
X	SSR4	ENSG00000180879	ENST00000489777	processed_transcript	KNOWN	None	11326	None	None	153060161	153061681	1	None	TRAPD
X	SSR4	ENSG00000180879	ENST00000486204	processed_transcript	KNOWN	None	11326	None	None	153060503	153063952	1	None	TRAPD
X	SSR4	ENSG00000180879	ENST00000485612	processed_transcript	KNOWN	None	11326	None	None	153061707	153063952	1	None	TRAPD
X	SSR4	ENSG00000180879	ENST00000447375	protein_coding	KNOWN	None	11326	362	119	153063079	153063953	1	None	TRAPD
3	MIR2115	ENSG00000252466	ENST00000516657	miRNA	KNOWN	None	37309	None	None	48357850	48357949	-1	None	hsa-mir-2115
3	None	ENSG00000232407	ENST00000496953	processed_pseudogene	KNOWN	None	None	None	None	60675958	60676452	-1	None	None
12	None	ENSG00000263768	ENST00000578007	miRNA	NOVEL	None	None	None	None	116693688	116693793	-1	None	None
12	None	ENSG00000255866	ENST00000545750	lincRNA	KNOWN	None	None	None	None	65953371	65954669	1	None	None
3	None	ENSG00000243176	ENST00000460796	retained_intron	KNOWN	None	None	None	None	156893012	156957753	1	None	None
3	None	ENSG00000243176	ENST00000487238	antisense	KNOWN	None	None	None	None	156893058	157099054	1	None	None
3	None	ENSG00000243176	ENST00000488040	antisense	KNOWN	None	None	None	None	156893136	157003080	1	None	None
3	None	ENSG00000243176	ENST00000475102	antisense	KNOWN	None	None	None	None	156948068	157033684	1	None	None
3	None	ENSG00000243176	ENST00000494885	antisense	KNOWN	None	None	None	None	157003949	157033934	1	None	None
11	OR4A1P	ENSG00000254408	ENST00000532342	unprocessed_pseudogene	KNOWN	None	8289	None	None	49919819	49920738	-1	OR4A20P	OR11-30
12	None	ENSG00000258346	ENST00000548506	lincRNA	KNOWN	None	None	None	None	116806569	116827276	1	None	None
16	None	ENSG00000271699	ENST00000507381	processed_transcript	KNOWN	None	None	None	None	29362067	29381593	1	None	None
16	None	ENSG00000271699	ENST00000509141	processed_transcript	KNOWN	None	None	None	None	29362943	29372819	1	None	None
16	None	ENSG00000271699	ENST00000603801	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	29367108	29376380	1	None	None
16	None	ENSG00000271699	ENST00000502626	retained_intron	KNOWN	None	None	None	None	29370409	29376380	1	None	None
3	None	ENSG00000225673	ENST00000460282	processed_pseudogene	KNOWN	None	None	None	None	60715788	60716377	-1	None	None
2	None	ENSG00000238546	ENST00000459114	snoRNA	NOVEL	None	None	None	None	130184995	130185098	1	None	None
3	None	ENSG00000250543	ENST00000506934	lincRNA	KNOWN	None	None	None	None	139407245	139408184	-1	None	None
9	None	ENSG00000246851	ENST00000502188	antisense	KNOWN	None	None	None	None	134065297	134069592	-1	None	None
10	None	ENSG00000225652	ENST00000418515	antisense	KNOWN	None	None	None	None	79114162	79136371	1	None	None
2	None	ENSG00000233428	ENST00000418508	processed_pseudogene	KNOWN	None	None	None	None	130253870	130254361	1	None	None
HG183_PATCH	DDX5	ENSG00000263077	ENST00000570644	retained_intron	KNOWN	None	2746	None	None	62576980	62583649	-1	HLR1, G17P1	p68
HG183_PATCH	DDX5	ENSG00000263077	ENST00000574715	protein_coding	KNOWN	None	2746	1845	614	62576980	62583881	-1	HLR1, G17P1	p68
HG183_PATCH	DDX5	ENSG00000263077	ENST00000576550	protein_coding	PUTATIVE	None	2746	1845	614	62577274	62583316	-1	HLR1, G17P1	p68
HG183_PATCH	DDX5	ENSG00000263077	ENST00000582032	protein_coding	PUTATIVE	None	2746	461	152	62579635	62580795	-1	HLR1, G17P1	p68
HG183_PATCH	DDX5	ENSG00000263077	ENST00000577776	retained_intron	KNOWN	None	2746	None	None	62579916	62581183	-1	HLR1, G17P1	p68
HG183_PATCH	DDX5	ENSG00000263077	ENST00000584452	retained_intron	KNOWN	None	2746	None	None	62580334	62581666	-1	HLR1, G17P1	p68
HG183_PATCH	DDX5	ENSG00000263077	ENST00000580373	protein_coding	KNOWN	None	2746	808	268	62580550	62584554	-1	HLR1, G17P1	p68
HG183_PATCH	DDX5	ENSG00000263077	ENST00000584448	nonsense_mediated_decay	KNOWN	None	2746	279	92	62580683	62583636	-1	HLR1, G17P1	p68
HG183_PATCH	DDX5	ENSG00000263077	ENST00000582247	retained_intron	KNOWN	None	2746	None	None	62581080	62581649	-1	HLR1, G17P1	p68
HG183_PATCH	DDX5	ENSG00000263077	ENST00000579418	protein_coding	PUTATIVE	None	2746	114	37	62581355	62582887	-1	HLR1, G17P1	p68
HG183_PATCH	DDX5	ENSG00000263077	ENST00000579166	protein_coding	PUTATIVE	None	2746	94	30	62581375	62582811	-1	HLR1, G17P1	p68
HG183_PATCH	DDX5	ENSG00000263077	ENST00000577338	protein_coding	PUTATIVE	None	2746	49	15	62581420	62583649	-1	HLR1, G17P1	p68
HG183_PATCH	DDX5	ENSG00000263077	ENST00000578316	processed_transcript	KNOWN	None	2746	None	None	62581601	62582764	-1	HLR1, G17P1	p68
HG183_PATCH	DDX5	ENSG00000263077	ENST00000582001	protein_coding	KNOWN	None	2746	278	91	62581611	62584020	-1	HLR1, G17P1	p68
HG183_PATCH	DDX5	ENSG00000263077	ENST00000579675	processed_transcript	KNOWN	None	2746	None	None	62581637	62582781	-1	HLR1, G17P1	p68
HG183_PATCH	DDX5	ENSG00000263077	ENST00000578797	protein_coding	KNOWN	None	2746	249	82	62581640	62584273	-1	HLR1, G17P1	p68
HG183_PATCH	DDX5	ENSG00000263077	ENST00000585209	protein_coding	KNOWN	None	2746	215	70	62581674	62584091	-1	HLR1, G17P1	p68
HG183_PATCH	DDX5	ENSG00000263077	ENST00000584543	retained_intron	KNOWN	None	2746	None	None	62581818	62583649	-1	HLR1, G17P1	p68
HG183_PATCH	DDX5	ENSG00000263077	ENST00000577555	processed_transcript	KNOWN	None	2746	None	None	62582090	62582764	-1	HLR1, G17P1	p68
HG183_PATCH	DDX5	ENSG00000263077	ENST00000580202	processed_transcript	PUTATIVE	None	2746	None	None	62584376	62585072	-1	HLR1, G17P1	p68
7	None	ENSG00000235029	ENST00000429228	antisense	KNOWN	None	None	None	None	156799001	156799826	1	None	None
3	VEZF1P1	ENSG00000236229	ENST00000423931	processed_pseudogene	KNOWN	None	32320	None	None	192873245	192874997	-1	ZNF161L1, VEZF1L1	None
11	None	ENSG00000255463	ENST00000527568	processed_pseudogene	KNOWN	None	None	None	None	9652555	9652906	-1	None	None
12	RNU6-254P	ENSG00000200247	ENST00000363377	snRNA	KNOWN	None	47217	None	None	19598883	19598989	-1	None	None
19	None	ENSG00000271704	ENST00000604827	processed_pseudogene	KNOWN	None	None	None	None	20462311	20462888	1	None	None
3	RN7SL321P	ENSG00000265053	ENST00000581742	misc_RNA	KNOWN	None	46337	None	None	48421324	48421620	1	None	None
20	CPNE1	ENSG00000214078	ENST00000352393	protein_coding	KNOWN	CCDS13260	2314	1614	537	34213953	34252808	-1	None	CPN1
20	CPNE1	ENSG00000214078	ENST00000462352	processed_transcript	PUTATIVE	None	2314	None	None	34213966	34214775	-1	None	CPN1
20	CPNE1	ENSG00000214078	ENST00000473373	retained_intron	KNOWN	None	2314	None	None	34213966	34215262	-1	None	CPN1
20	CPNE1	ENSG00000214078	ENST00000498814	processed_transcript	KNOWN	None	2314	None	None	34213966	34215321	-1	None	CPN1
20	CPNE1	ENSG00000214078	ENST00000415920	protein_coding	PUTATIVE	None	2314	626	207	34213966	34218378	-1	None	CPN1
20	CPNE1	ENSG00000214078	ENST00000317677	protein_coding	KNOWN	CCDS46595	2314	1629	542	34213966	34241599	-1	None	CPN1
20	CPNE1	ENSG00000214078	ENST00000483359	retained_intron	KNOWN	None	2314	None	None	34213980	34252783	-1	None	CPN1
20	CPNE1	ENSG00000214078	ENST00000397442	protein_coding	NOVEL	None	2314	1446	481	34213988	34252797	-1	None	CPN1
20	CPNE1	ENSG00000214078	ENST00000483495	retained_intron	KNOWN	None	2314	None	None	34214008	34220476	-1	None	CPN1
20	CPNE1	ENSG00000214078	ENST00000401607	nonsense_mediated_decay	KNOWN	None	2314	1284	427	34214081	34252799	-1	None	CPN1
20	CPNE1	ENSG00000214078	ENST00000437340	protein_coding	NOVEL	None	2314	1600	532	34214174	34252878	-1	None	CPN1
20	CPNE1	ENSG00000214078	ENST00000498056	processed_transcript	PUTATIVE	None	2314	None	None	34214616	34215453	-1	None	CPN1
20	CPNE1	ENSG00000214078	ENST00000430570	protein_coding	NOVEL	None	2314	1159	385	34215207	34252854	-1	None	CPN1
20	CPNE1	ENSG00000214078	ENST00000412056	protein_coding	NOVEL	None	2314	916	304	34218830	34252805	-1	None	CPN1
20	CPNE1	ENSG00000214078	ENST00000486021	retained_intron	KNOWN	None	2314	None	None	34218880	34219971	-1	None	CPN1
20	CPNE1	ENSG00000214078	ENST00000414664	protein_coding	KNOWN	None	2314	913	303	34218905	34252838	-1	None	CPN1
20	CPNE1	ENSG00000214078	ENST00000416778	protein_coding	NOVEL	None	2314	640	212	34219416	34252785	-1	None	CPN1
20	CPNE1	ENSG00000214078	ENST00000439806	protein_coding	KNOWN	None	2314	694	230	34219434	34252854	-1	None	CPN1
20	CPNE1	ENSG00000214078	ENST00000439669	nonsense_mediated_decay	KNOWN	None	2314	417	138	34219481	34252804	-1	None	CPN1
20	CPNE1	ENSG00000214078	ENST00000420363	protein_coding	KNOWN	None	2314	627	208	34219610	34252822	-1	None	CPN1
20	CPNE1	ENSG00000214078	ENST00000434795	protein_coding	KNOWN	None	2314	605	200	34219632	34252822	-1	None	CPN1
20	CPNE1	ENSG00000214078	ENST00000440240	protein_coding	KNOWN	None	2314	522	173	34219882	34252804	-1	None	CPN1
20	CPNE1	ENSG00000214078	ENST00000458038	protein_coding	NOVEL	None	2314	413	136	34219919	34252811	-1	None	CPN1
20	CPNE1	ENSG00000214078	ENST00000437100	protein_coding	KNOWN	None	2314	456	151	34220085	34252823	-1	None	CPN1
20	CPNE1	ENSG00000214078	ENST00000414711	protein_coding	KNOWN	None	2314	409	135	34220132	34252759	-1	None	CPN1
20	CPNE1	ENSG00000214078	ENST00000435747	protein_coding	KNOWN	None	2314	200	65	34220548	34252480	-1	None	CPN1
20	CPNE1	ENSG00000214078	ENST00000475146	processed_transcript	KNOWN	None	2314	None	None	34246852	34252822	-1	None	CPN1
20	CPNE1	ENSG00000214078	ENST00000317619	protein_coding	KNOWN	CCDS13260	2314	1614	537	34213968	34252848	-1	None	CPN1
20	CPNE1	ENSG00000214078	ENST00000397446	protein_coding	KNOWN	CCDS13260	2314	1614	537	34213968	34252848	-1	None	CPN1
20	CPNE1	ENSG00000214078	ENST00000397445	protein_coding	KNOWN	CCDS13260	2314	1614	537	34213968	34252848	-1	None	CPN1
20	CPNE1	ENSG00000214078	ENST00000397443	protein_coding	KNOWN	CCDS13260	2314	1614	537	34213968	34252848	-1	None	CPN1
12	MIR4472-2	ENSG00000264037	ENST00000582069	miRNA	KNOWN	None	41752	None	None	116866057	116866123	-1	None	hsa-mir-4472-2
Y	None	ENSG00000239204	ENST00000430152	processed_transcript	PUTATIVE	None	None	None	None	14465804	14468226	1	None	None
9	None	ENSG00000226987	ENST00000446606	processed_pseudogene	KNOWN	None	None	None	None	134116074	134117111	1	None	None
2	None	ENSG00000229536	ENST00000450531	lincRNA	KNOWN	None	None	None	None	130626766	130635126	-1	None	None
3	None	ENSG00000244380	ENST00000438872	antisense	KNOWN	None	None	None	None	48481762	48488036	-1	None	None
3	None	ENSG00000244380	ENST00000435578	antisense	KNOWN	None	None	None	None	48482189	48488060	-1	None	None
7	None	ENSG00000252849	ENST00000517040	snoRNA	NOVEL	None	None	None	None	131600994	131601081	-1	None	None
3	ATP13A5-AS1	ENSG00000236508	ENST00000414634	antisense	KNOWN	None	41281	None	None	193025033	193032151	1	None	None
19	None	ENSG00000221181	ENST00000408254	miRNA	NOVEL	None	None	None	None	20473327	20473432	-1	None	None
12	None	ENSG00000256268	ENST00000539116	lincRNA	KNOWN	None	None	None	None	65996649	66000283	1	None	None
12	None	ENSG00000256268	ENST00000541391	lincRNA	KNOWN	None	None	None	None	65996658	66006777	1	None	None
19	MIR1270-1	ENSG00000238517	ENST00000459320	miRNA	KNOWN	None	35338	None	None	20510081	20510163	-1	MIRN1270, MIR1270	hsa-mir-1270
15	None	ENSG00000260174	ENST00000569699	processed_pseudogene	KNOWN	None	None	None	None	30336658	30337499	1	None	None
11	RPLP0P2	ENSG00000243742	ENST00000496593	processed_transcript	KNOWN	None	17960	None	None	61382508	61406921	1	None	None
11	RPLP0P2	ENSG00000243742	ENST00000478959	processed_transcript	PUTATIVE	None	17960	None	None	61382509	61403713	1	None	None
11	RPLP0P2	ENSG00000243742	ENST00000475561	processed_transcript	PUTATIVE	None	17960	None	None	61396245	61403784	1	None	None
11	RPLP0P2	ENSG00000243742	ENST00000475331	processed_transcript	PUTATIVE	None	17960	None	None	61396300	61403859	1	None	None
11	RPLP0P2	ENSG00000243742	ENST00000492786	processed_transcript	PUTATIVE	None	17960	None	None	61396333	61403994	1	None	None
11	RPLP0P2	ENSG00000243742	ENST00000490750	transcribed_processed_pseudogene	KNOWN	None	17960	None	None	61404152	61405112	1	None	None
11	None	ENSG00000239470	ENST00000472300	processed_pseudogene	KNOWN	None	None	None	None	9681985	9682467	1	None	None
11	None	ENSG00000239470	ENST00000540439	processed_pseudogene	KNOWN	None	None	None	None	9681946	9682503	1	None	None
6	MIR4647	ENSG00000265700	ENST00000583964	miRNA	KNOWN	None	41594	None	None	44221943	44222022	-1	None	hsa-mir-4647
12	None	ENSG00000258375	ENST00000551366	processed_pseudogene	KNOWN	None	None	None	None	81939105	81940229	-1	None	None
12	None	ENSG00000258018	ENST00000552992	lincRNA	KNOWN	None	None	None	None	116955663	116956625	1	None	None
19	SLC27A5	ENSG00000083807	ENST00000595851	nonsense_mediated_decay	KNOWN	None	10999	288	95	58990879	59010630	-1	None	FATP5, VLACSR, VLCS-H2, VLCSH2, FACVL3, FLJ22987, ACSVL6, ACSB
19	SLC27A5	ENSG00000083807	ENST00000594786	protein_coding	PUTATIVE	None	10999	288	95	59009700	59010642	-1	None	FATP5, VLACSR, VLCS-H2, VLCSH2, FACVL3, FLJ22987, ACSVL6, ACSB
19	SLC27A5	ENSG00000083807	ENST00000599700	processed_transcript	KNOWN	None	10999	None	None	59009704	59010608	-1	None	FATP5, VLACSR, VLCS-H2, VLCSH2, FACVL3, FLJ22987, ACSVL6, ACSB
19	SLC27A5	ENSG00000083807	ENST00000263093	protein_coding	KNOWN	CCDS12983	10999	2073	690	59009704	59023432	-1	None	FATP5, VLACSR, VLCS-H2, VLCSH2, FACVL3, FLJ22987, ACSVL6, ACSB
19	SLC27A5	ENSG00000083807	ENST00000601355	protein_coding	NOVEL	None	10999	1821	606	59009753	59023359	-1	None	FATP5, VLACSR, VLCS-H2, VLCSH2, FACVL3, FLJ22987, ACSVL6, ACSB
19	SLC27A5	ENSG00000083807	ENST00000601997	retained_intron	KNOWN	None	10999	None	None	59009842	59010509	-1	None	FATP5, VLACSR, VLCS-H2, VLCSH2, FACVL3, FLJ22987, ACSVL6, ACSB
19	SLC27A5	ENSG00000083807	ENST00000594683	retained_intron	KNOWN	None	10999	None	None	59011961	59021539	-1	None	FATP5, VLACSR, VLCS-H2, VLCSH2, FACVL3, FLJ22987, ACSVL6, ACSB
19	SLC27A5	ENSG00000083807	ENST00000593745	retained_intron	KNOWN	None	10999	None	None	59018749	59023780	-1	None	FATP5, VLACSR, VLCS-H2, VLCSH2, FACVL3, FLJ22987, ACSVL6, ACSB
5	TSLP	ENSG00000145777	ENST00000420978	protein_coding	PUTATIVE	None	30743	480	159	110405760	110412491	1	None	None
5	TSLP	ENSG00000145777	ENST00000344895	protein_coding	KNOWN	CCDS4101	30743	480	159	110407390	110411829	1	None	None
5	TSLP	ENSG00000145777	ENST00000379706	protein_coding	PUTATIVE	None	30743	192	63	110409012	110413722	1	None	None
11	OR4A49P	ENSG00000254472	ENST00000527050	unprocessed_pseudogene	KNOWN	None	31268	None	None	49936565	49937196	-1	None	None
6	MIR4642	ENSG00000266619	ENST00000583943	miRNA	KNOWN	None	41865	None	None	44403378	44403459	1	None	hsa-mir-4642
19	MIR1270-2	ENSG00000221147	ENST00000408220	miRNA	KNOWN	None	38387	None	None	20579240	20579322	-1	None	hsa-mir-1270-2
11	NDUFS8	ENSG00000110717	ENST00000432321	retained_intron	KNOWN	None	7715	None	None	67798084	67801197	1	None	TYKY, CI-23k
11	NDUFS8	ENSG00000110717	ENST00000313468	protein_coding	KNOWN	CCDS8176	7715	633	210	67798094	67804111	1	None	TYKY, CI-23k
11	NDUFS8	ENSG00000110717	ENST00000531796	retained_intron	KNOWN	None	7715	None	None	67798120	67800152	1	None	TYKY, CI-23k
11	NDUFS8	ENSG00000110717	ENST00000453471	protein_coding	KNOWN	None	7715	373	123	67798132	67800751	1	None	TYKY, CI-23k
11	NDUFS8	ENSG00000110717	ENST00000526446	nonsense_mediated_decay	KNOWN	None	7715	132	43	67798151	67804004	1	None	TYKY, CI-23k
11	NDUFS8	ENSG00000110717	ENST00000528492	protein_coding	PUTATIVE	None	7715	195	64	67798155	67804106	1	None	TYKY, CI-23k
11	NDUFS8	ENSG00000110717	ENST00000532399	retained_intron	KNOWN	None	7715	None	None	67798180	67802745	1	None	TYKY, CI-23k
11	NDUFS8	ENSG00000110717	ENST00000531228	nonsense_mediated_decay	KNOWN	None	7715	213	70	67798210	67800690	1	None	TYKY, CI-23k
11	NDUFS8	ENSG00000110717	ENST00000526339	protein_coding	KNOWN	None	7715	554	183	67798210	67803981	1	None	TYKY, CI-23k
11	NDUFS8	ENSG00000110717	ENST00000525419	protein_coding	PUTATIVE	None	7715	414	137	67798227	67803815	1	None	TYKY, CI-23k
11	NDUFS8	ENSG00000110717	ENST00000525628	protein_coding	KNOWN	None	7715	330	109	67798433	67800708	1	None	TYKY, CI-23k
11	NDUFS8	ENSG00000110717	ENST00000529645	nonsense_mediated_decay	KNOWN	None	7715	123	40	67799628	67803150	1	None	TYKY, CI-23k
11	NDUFS8	ENSG00000110717	ENST00000524810	nonsense_mediated_decay	KNOWN	None	7715	281	92	67800608	67804111	1	None	TYKY, CI-23k
11	NDUFS8	ENSG00000110717	ENST00000526542	processed_transcript	PUTATIVE	None	7715	None	None	67801319	67803768	1	None	TYKY, CI-23k
11	NDUFS8	ENSG00000110717	ENST00000531282	retained_intron	KNOWN	None	7715	None	None	67803496	67804111	1	None	TYKY, CI-23k
5	None	ENSG00000253978	ENST00000519795	antisense	KNOWN	None	None	None	None	167656588	167659362	-1	None	None
16	None	ENSG00000261607	ENST00000567603	unprocessed_pseudogene	KNOWN	None	None	None	None	33750745	33751015	-1	None	None
10	RUFY2	ENSG00000204130	ENST00000466493	nonsense_mediated_decay	KNOWN	None	19761	1862	619	70100864	70166707	-1	None	RABIP4R, FLJ10063, KIAA1537, ZFYVE13
10	RUFY2	ENSG00000204130	ENST00000484083	processed_transcript	KNOWN	None	19761	None	None	70100887	70136703	-1	None	RABIP4R, FLJ10063, KIAA1537, ZFYVE13
10	RUFY2	ENSG00000204130	ENST00000463210	protein_coding	NOVEL	None	19761	392	129	70100910	70123787	-1	None	RABIP4R, FLJ10063, KIAA1537, ZFYVE13
10	RUFY2	ENSG00000204130	ENST00000466187	retained_intron	KNOWN	None	19761	None	None	70103163	70106481	-1	None	RABIP4R, FLJ10063, KIAA1537, ZFYVE13
10	RUFY2	ENSG00000204130	ENST00000602465	protein_coding	KNOWN	None	19761	1821	606	70103584	70167047	-1	None	RABIP4R, FLJ10063, KIAA1537, ZFYVE13
10	RUFY2	ENSG00000204130	ENST00000265865	protein_coding	KNOWN	None	19761	591	196	70104902	70137523	-1	None	RABIP4R, FLJ10063, KIAA1537, ZFYVE13
10	RUFY2	ENSG00000204130	ENST00000473398	processed_transcript	KNOWN	None	19761	None	None	70105490	70115455	-1	None	RABIP4R, FLJ10063, KIAA1537, ZFYVE13
10	RUFY2	ENSG00000204130	ENST00000491118	processed_transcript	KNOWN	None	19761	None	None	70138892	70141013	-1	None	RABIP4R, FLJ10063, KIAA1537, ZFYVE13
10	RUFY2	ENSG00000204130	ENST00000472394	processed_transcript	KNOWN	None	19761	None	None	70139250	70166993	-1	None	RABIP4R, FLJ10063, KIAA1537, ZFYVE13
10	RUFY2	ENSG00000204130	ENST00000342616	protein_coding	KNOWN	None	19761	699	232	70153521	70167034	-1	None	RABIP4R, FLJ10063, KIAA1537, ZFYVE13
10	RUFY2	ENSG00000204130	ENST00000388768	protein_coding	KNOWN	CCDS41534	19761	1926	641	70103266	70166946	-1	None	RABIP4R, FLJ10063, KIAA1537, ZFYVE13
10	RUFY2	ENSG00000204130	ENST00000399200	protein_coding	KNOWN	CCDS44414	19761	1212	403	70136951	70167051	-1	None	RABIP4R, FLJ10063, KIAA1537, ZFYVE13
10	RUFY2	ENSG00000204130	ENST00000454950	protein_coding	KNOWN	None	19761	1140	379	70137932	70167034	-1	None	RABIP4R, FLJ10063, KIAA1537, ZFYVE13
9	MIRLET7D	ENSG00000199133	ENST00000362263	miRNA	KNOWN	None	31481	None	None	96941116	96941202	1	MIRNLET7D	hsa-let-7d
6	None	ENSG00000237530	ENST00000436113	lincRNA	KNOWN	None	None	None	None	44492996	44494491	1	None	None
2	LCLAT1	ENSG00000172954	ENST00000466477	protein_coding	PUTATIVE	None	26756	421	139	30670092	30775415	1	LYCAT	FLJ37965, ALCAT1, AGPAT8
2	LCLAT1	ENSG00000172954	ENST00000465200	protein_coding	PUTATIVE	None	26756	409	135	30670102	30785056	1	LYCAT	FLJ37965, ALCAT1, AGPAT8
2	LCLAT1	ENSG00000172954	ENST00000379509	protein_coding	KNOWN	CCDS42670	26756	1131	376	30670102	30867090	1	LYCAT	FLJ37965, ALCAT1, AGPAT8
2	LCLAT1	ENSG00000172954	ENST00000319406	protein_coding	KNOWN	None	26756	927	308	30670109	30830711	1	LYCAT	FLJ37965, ALCAT1, AGPAT8
2	LCLAT1	ENSG00000172954	ENST00000491680	processed_transcript	KNOWN	None	26756	None	None	30670112	30863813	1	LYCAT	FLJ37965, ALCAT1, AGPAT8
2	LCLAT1	ENSG00000172954	ENST00000488144	protein_coding	PUTATIVE	None	26756	316	104	30670115	30756132	1	LYCAT	FLJ37965, ALCAT1, AGPAT8
2	LCLAT1	ENSG00000172954	ENST00000465538	protein_coding	PUTATIVE	None	26756	369	122	30670122	30756185	1	LYCAT	FLJ37965, ALCAT1, AGPAT8
2	LCLAT1	ENSG00000172954	ENST00000309052	protein_coding	KNOWN	CCDS1772	26756	1245	414	30670123	30867091	1	LYCAT	FLJ37965, ALCAT1, AGPAT8
2	LCLAT1	ENSG00000172954	ENST00000478015	nonsense_mediated_decay	KNOWN	None	26756	201	66	30670139	30863696	1	LYCAT	FLJ37965, ALCAT1, AGPAT8
2	LCLAT1	ENSG00000172954	ENST00000476038	protein_coding	PUTATIVE	None	26756	472	156	30670142	30791033	1	LYCAT	FLJ37965, ALCAT1, AGPAT8
2	LCLAT1	ENSG00000172954	ENST00000497423	protein_coding	KNOWN	None	26756	461	152	30670254	30756163	1	LYCAT	FLJ37965, ALCAT1, AGPAT8
2	LCLAT1	ENSG00000172954	ENST00000476535	protein_coding	PUTATIVE	None	26756	412	136	30670269	30785059	1	LYCAT	FLJ37965, ALCAT1, AGPAT8
2	LCLAT1	ENSG00000172954	ENST00000359433	protein_coding	KNOWN	None	26756	927	308	30670123	30829066	1	LYCAT	FLJ37965, ALCAT1, AGPAT8
2	LCLAT1	ENSG00000172954	ENST00000540623	protein_coding	KNOWN	CCDS42670	26756	1131	376	30670139	30863696	1	LYCAT	FLJ37965, ALCAT1, AGPAT8
19	None	ENSG00000269372	ENST00000599499	unprocessed_pseudogene	KNOWN	None	None	None	None	20585356	20585532	1	None	None
3	ATP13A4-AS1	ENSG00000225473	ENST00000431512	antisense	KNOWN	None	41095	None	None	193271002	193272877	1	None	None
3	ATP13A4-AS1	ENSG00000225473	ENST00000426459	antisense	KNOWN	None	41095	None	None	193271201	193272701	1	None	None
9	None	ENSG00000235496	ENST00000432262	processed_pseudogene	KNOWN	None	None	None	None	65496525	65496924	1	None	None
7	None	ENSG00000243479	ENST00000480284	antisense	KNOWN	None	None	None	None	156803499	156809120	1	None	None
X	None	ENSG00000232582	ENST00000454984	processed_pseudogene	KNOWN	None	None	None	None	134269077	134269698	-1	None	None
19	None	ENSG00000268174	ENST00000593399	processed_pseudogene	KNOWN	None	None	None	None	20599320	20599875	1	None	None
3	None	ENSG00000251471	ENST00000504735	lincRNA	KNOWN	None	None	None	None	139556062	139578736	1	None	None
6	NUDT19P4	ENSG00000270900	ENST00000605501	processed_pseudogene	KNOWN	None	43588	None	None	44866448	44867032	1	None	None
9	SNORD62A	ENSG00000235284	ENST00000428514	sense_intronic	KNOWN	None	10219	None	None	134361052	134361137	1	RNU62	U62, U62A
16	IGHV3OR16-13	ENSG00000259842	ENST00000563644	unprocessed_pseudogene	KNOWN	None	5637	None	None	33752443	33752887	-1	None	IGHV3/OR16-13
5	SLC2A3P1	ENSG00000253861	ENST00000519666	processed_pseudogene	KNOWN	None	11008	None	None	167979282	167980732	-1	GLUT6, GLUT3P1, SLC2A3P	None
6	None	ENSG00000229036	ENST00000591892	antisense	KNOWN	None	None	None	None	143806116	143828464	1	None	None
6	None	ENSG00000229036	ENST00000589563	antisense	KNOWN	None	None	None	None	143811842	143827239	1	None	None
6	None	ENSG00000229036	ENST00000415586	antisense	KNOWN	None	None	None	None	143824531	143827475	1	None	None
6	None	ENSG00000229036	ENST00000593045	antisense	KNOWN	None	None	None	None	143824807	143827295	1	None	None
6	None	ENSG00000229036	ENST00000590703	antisense	KNOWN	None	None	None	None	143825121	143826252	1	None	None
6	None	ENSG00000229036	ENST00000593175	antisense	KNOWN	None	None	None	None	143825121	143826940	1	None	None
6	None	ENSG00000229036	ENST00000591189	antisense	KNOWN	None	None	None	None	143825121	143827284	1	None	None
6	None	ENSG00000229036	ENST00000589489	antisense	KNOWN	None	None	None	None	143826035	143827543	1	None	None
6	LYRM2	ENSG00000083099	ENST00000520897	processed_transcript	KNOWN	None	25229	None	None	90277863	90348201	-1	None	DJ122O8.2
6	LYRM2	ENSG00000083099	ENST00000412237	nonsense_mediated_decay	KNOWN	None	25229	297	98	90311320	90348453	-1	None	DJ122O8.2
6	LYRM2	ENSG00000083099	ENST00000523793	processed_transcript	KNOWN	None	25229	None	None	90329316	90348216	-1	None	DJ122O8.2
6	LYRM2	ENSG00000083099	ENST00000520441	protein_coding	PUTATIVE	None	25229	234	77	90331098	90348453	-1	None	DJ122O8.2
6	LYRM2	ENSG00000083099	ENST00000523377	protein_coding	KNOWN	CCDS5023	25229	267	88	90341943	90348472	-1	None	DJ122O8.2
6	LYRM2	ENSG00000083099	ENST00000517396	processed_transcript	KNOWN	None	25229	None	None	90344526	90348120	-1	None	DJ122O8.2
6	LYRM2	ENSG00000083099	ENST00000524153	processed_transcript	KNOWN	None	25229	None	None	90346576	90348205	-1	None	DJ122O8.2
6	LYRM2	ENSG00000083099	ENST00000520318	protein_coding	PUTATIVE	None	25229	219	72	90346632	90348468	-1	None	DJ122O8.2
6	LYRM2	ENSG00000083099	ENST00000521961	processed_transcript	KNOWN	None	25229	None	None	90346746	90348202	-1	None	DJ122O8.2
6	LYRM2	ENSG00000083099	ENST00000523075	processed_transcript	KNOWN	None	25229	None	None	90346767	90348151	-1	None	DJ122O8.2
7	None	ENSG00000229532	ENST00000433754	processed_pseudogene	KNOWN	None	None	None	None	131771025	131772751	1	None	None
9	SET	ENSG00000119335	ENST00000454747	protein_coding	KNOWN	None	10760	96	31	131445703	131446270	1	None	PHAPII, 2PP2A, IPP2A2
9	SET	ENSG00000119335	ENST00000372692	protein_coding	KNOWN	CCDS48037	10760	873	290	131445934	131458679	1	None	PHAPII, 2PP2A, IPP2A2
9	SET	ENSG00000119335	ENST00000409104	protein_coding	PUTATIVE	CCDS59149	10760	807	268	131447362	131457013	1	None	PHAPII, 2PP2A, IPP2A2
9	SET	ENSG00000119335	ENST00000322030	protein_coding	KNOWN	CCDS6907	10760	834	277	131451505	131458667	1	None	PHAPII, 2PP2A, IPP2A2
9	SET	ENSG00000119335	ENST00000372686	protein_coding	PUTATIVE	None	10760	798	265	131452268	131457173	1	None	PHAPII, 2PP2A, IPP2A2
9	SET	ENSG00000119335	ENST00000466009	processed_transcript	KNOWN	None	10760	None	None	131452529	131454197	1	None	PHAPII, 2PP2A, IPP2A2
9	SET	ENSG00000119335	ENST00000477806	processed_transcript	KNOWN	None	10760	None	None	131452560	131456277	1	None	PHAPII, 2PP2A, IPP2A2
9	SET	ENSG00000119335	ENST00000480217	processed_transcript	KNOWN	None	10760	None	None	131452564	131455195	1	None	PHAPII, 2PP2A, IPP2A2
9	SET	ENSG00000119335	ENST00000480536	retained_intron	KNOWN	None	10760	None	None	131453357	131455035	1	None	PHAPII, 2PP2A, IPP2A2
9	SET	ENSG00000119335	ENST00000485056	retained_intron	KNOWN	None	10760	None	None	131454630	131455214	1	None	PHAPII, 2PP2A, IPP2A2
9	SET	ENSG00000119335	ENST00000372688	protein_coding	KNOWN	CCDS59150	10760	801	266	131452266	131457421	1	None	PHAPII, 2PP2A, IPP2A2
9	SNORD62B	ENSG00000231587	ENST00000426867	sense_intronic	KNOWN	None	23031	None	None	134365873	134365958	1	None	U62, U62B
19	None	ENSG00000269043	ENST00000598131	lincRNA	KNOWN	None	None	None	None	20615358	20711421	1	None	None
Y	ARSDP1	ENSG00000225117	ENST00000443820	unprocessed_pseudogene	KNOWN	None	718	None	None	14474827	14499123	1	ARSDP	ARSDY1
19	None	ENSG00000268335	ENST00000599655	processed_pseudogene	KNOWN	None	None	None	None	20626021	20626531	-1	None	None
5	MIR103A1	ENSG00000199035	ENST00000362165	miRNA	KNOWN	None	31490	None	None	167987897	167987982	-1	MIRN103-1, MIR103-1	hsa-mir-103-1, hsa-mir-103a-1
7	None	ENSG00000225144	ENST00000445459	antisense	KNOWN	None	None	None	None	131948911	131956028	1	None	None
9	None	ENSG00000237792	ENST00000435173	unprocessed_pseudogene	KNOWN	None	None	None	None	65585692	65661972	1	None	None
9	None	ENSG00000237792	ENST00000377505	unprocessed_pseudogene	KNOWN	None	None	None	None	65635651	65661972	1	None	None
12	LINC00173	ENSG00000196668	ENST00000480237	lincRNA	KNOWN	None	33791	None	None	116971227	116973326	1	NCRNA00173	FLJ42957
12	LINC00173	ENSG00000196668	ENST00000470091	lincRNA	KNOWN	None	33791	None	None	116971240	116974318	1	NCRNA00173	FLJ42957
12	LINC00173	ENSG00000196668	ENST00000489452	lincRNA	KNOWN	None	33791	None	None	116971273	116972164	1	NCRNA00173	FLJ42957
12	LINC00173	ENSG00000196668	ENST00000477702	retained_intron	KNOWN	None	33791	None	None	116973869	116974323	1	NCRNA00173	FLJ42957
16	None	ENSG00000270401	ENST00000561990	unprocessed_pseudogene	KNOWN	None	None	None	None	33768122	33768558	-1	None	None
19	None	ENSG00000269110	ENST00000595094	lincRNA	KNOWN	None	None	None	None	20736598	20844389	-1	None	None
11	OR4A18P	ENSG00000254637	ENST00000529103	unprocessed_pseudogene	KNOWN	None	15155	None	None	49938943	49940030	-1	None	None
5	None	ENSG00000233913	ENST00000522551	processed_pseudogene	KNOWN	None	None	None	None	168043357	168044001	1	None	None
5	None	ENSG00000233913	ENST00000406049	processed_pseudogene	KNOWN	None	None	None	None	168043317	168044059	1	None	None
7	None	ENSG00000223436	ENST00000455442	antisense	KNOWN	None	None	None	None	132037093	132052735	1	None	None
HSCHR6_MHC_COX	HSD17B8	ENSG00000228712	ENST00000427295	protein_coding	KNOWN	None	3554	786	261	33094049	33096234	1	FABGL	HKE6, D6S2245E, RING2, KE6, H2-KE6, SDR30C1
HSCHR6_MHC_COX	HSD17B8	ENSG00000228712	ENST00000490492	processed_transcript	KNOWN	None	3554	None	None	33094093	33095852	1	FABGL	HKE6, D6S2245E, RING2, KE6, H2-KE6, SDR30C1
X	None	ENSG00000252219	ENST00000516410	miRNA	KNOWN	None	None	None	None	145074271	145074343	-1	None	None
6	None	ENSG00000241847	ENST00000406025	processed_pseudogene	KNOWN	None	None	None	None	143811652	143812504	1	None	None
10	DUXAP3	ENSG00000270552	ENST00000603616	unprocessed_pseudogene	KNOWN	None	32182	None	None	43242992	43244135	-1	None	None
19	VN1R78P	ENSG00000268272	ENST00000597393	unprocessed_pseudogene	KNOWN	None	37399	None	None	20765890	20766453	-1	None	None
8	RPS15AP24	ENSG00000241511	ENST00000492525	processed_pseudogene	KNOWN	None	36174	None	None	29974900	29975295	-1	None	None
11	RN7SKP50	ENSG00000201564	ENST00000364694	misc_RNA	KNOWN	None	45774	None	None	9702471	9702785	1	None	None
3	None	ENSG00000264209	ENST00000579939	miRNA	NOVEL	None	None	None	None	48529745	48529838	-1	None	None
14	None	ENSG00000258685	ENST00000556311	processed_pseudogene	KNOWN	None	None	None	None	59602206	59603139	-1	None	None
6	None	ENSG00000235740	ENST00000450575	antisense	KNOWN	None	None	None	None	143875462	143883168	-1	None	None
11	None	ENSG00000245522	ENST00000500698	lincRNA	KNOWN	None	None	None	None	9776317	9781080	-1	None	None
11	None	ENSG00000245522	ENST00000525154	lincRNA	KNOWN	None	None	None	None	9776676	9779711	-1	None	None
3	None	ENSG00000244183	ENST00000483456	processed_pseudogene	KNOWN	None	None	None	None	60717877	60718369	-1	None	None
3	MIR711	ENSG00000211535	ENST00000390201	miRNA	KNOWN	None	37316	None	None	48616335	48616410	-1	None	hsa-mir-711
10	None	ENSG00000271728	ENST00000606860	processed_pseudogene	KNOWN	None	None	None	None	43243132	43243302	-1	None	None
19	None	ENSG00000268560	ENST00000598116	lincRNA	KNOWN	None	None	None	None	20794365	20798195	1	None	None
7	None	ENSG00000236102	ENST00000426169	lincRNA	KNOWN	None	None	None	None	156850403	156851208	-1	None	None
15	None	ENSG00000229389	ENST00000421447	lincRNA	KNOWN	None	None	None	None	30345145	30365267	-1	None	None
15	None	ENSG00000261081	ENST00000562061	unprocessed_pseudogene	KNOWN	None	None	None	None	34701826	34702795	1	None	None
12	EEF1A1P4	ENSG00000245205	ENST00000359165	processed_pseudogene	KNOWN	None	3199	None	None	19609178	19610582	-1	EEF1AL2	None
19	None	ENSG00000269779	ENST00000595195	unprocessed_pseudogene	KNOWN	None	None	None	None	20874142	20880421	1	None	None
6	None	ENSG00000270890	ENST00000604280	processed_pseudogene	KNOWN	None	None	None	None	144179199	144179826	-1	None	None
11	OR4A19P	ENSG00000254940	ENST00000533579	unprocessed_pseudogene	KNOWN	None	15156	None	None	49941864	49942966	-1	None	None
16	None	ENSG00000254634	ENST00000532337	unprocessed_pseudogene	KNOWN	None	None	None	None	29437121	29458347	-1	None	None
16	None	ENSG00000254634	ENST00000380596	unprocessed_pseudogene	KNOWN	None	None	None	None	29454226	29465435	-1	None	None
17	None	ENSG00000266162	ENST00000580066	processed_pseudogene	KNOWN	None	None	None	None	18321509	18321620	-1	None	None
3	None	ENSG00000236297	ENST00000420064	transcribed_processed_pseudogene	KNOWN	None	None	None	None	193296601	193297202	-1	None	None
3	None	ENSG00000236297	ENST00000449483	processed_transcript	KNOWN	None	None	None	None	193296790	193310879	-1	None	None
4	None	ENSG00000249741	ENST00000502554	processed_pseudogene	KNOWN	None	None	None	None	144832667	144833206	-1	None	None
8	None	ENSG00000254201	ENST00000519185	lincRNA	KNOWN	None	None	None	None	19103860	19106750	1	None	None
X	MIR890	ENSG00000216075	ENST00000401256	miRNA	KNOWN	None	33644	None	None	145075793	145075869	-1	MIRN890	hsa-mir-890
3	MIR4793	ENSG00000263898	ENST00000577502	miRNA	KNOWN	None	41538	None	None	48681627	48681713	-1	None	hsa-mir-4793
1	None	ENSG00000223659	ENST00000452176	lincRNA	KNOWN	None	None	None	None	562757	564390	-1	None	None
13	FGF9	ENSG00000102678	ENST00000382353	protein_coding	KNOWN	CCDS9298	3687	627	208	22245522	22278637	1	None	None
13	FGF9	ENSG00000102678	ENST00000461657	processed_transcript	KNOWN	None	3687	None	None	22248141	22275437	1	None	None
13	FGF9	ENSG00000102678	ENST00000478546	processed_transcript	KNOWN	None	3687	None	None	22255252	22275971	1	None	None
HSCHR6_MHC_COX	HCG4	ENSG00000225346	ENST00000449827	unprocessed_pseudogene	KNOWN	None	21241	None	None	29753438	29754412	-1	HCG4P10	HCGIV-10, HCGIV.9
10	None	ENSG00000259869	ENST00000568976	lincRNA	KNOWN	None	None	None	None	43246626	43247593	-1	None	None
6	None	ENSG00000217231	ENST00000401791	processed_pseudogene	KNOWN	None	None	None	None	144357755	144358841	1	None	None
7	None	ENSG00000201009	ENST00000364139	snoRNA	NOVEL	None	None	None	None	132437783	132437886	1	None	None
19	None	ENSG00000200646	ENST00000363776	misc_RNA	NOVEL	None	None	None	None	56827893	56828005	-1	None	None
7	None	ENSG00000229365	ENST00000467608	processed_pseudogene	KNOWN	None	None	None	None	156880649	156881237	-1	None	None
17	None	ENSG00000240279	ENST00000332088	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	18324133	18328200	1	None	None
7	TSPAN12	ENSG00000106025	ENST00000222747	protein_coding	KNOWN	CCDS5777	21641	918	305	120427376	120498411	-1	TM4SF12	NET-2
7	TSPAN12	ENSG00000106025	ENST00000450414	nonsense_mediated_decay	KNOWN	None	21641	129	42	120428376	120478851	-1	TM4SF12	NET-2
7	TSPAN12	ENSG00000106025	ENST00000415871	protein_coding	KNOWN	CCDS5777	21641	918	305	120428428	120498377	-1	TM4SF12	NET-2
7	TSPAN12	ENSG00000106025	ENST00000441017	protein_coding	KNOWN	None	21641	442	146	120450543	120497178	-1	TM4SF12	NET-2
7	TSPAN12	ENSG00000106025	ENST00000433758	protein_coding	KNOWN	None	21641	360	119	120455783	120497407	-1	TM4SF12	NET-2
7	TSPAN12	ENSG00000106025	ENST00000424710	protein_coding	KNOWN	None	21641	338	111	120455805	120497253	-1	TM4SF12	NET-2
7	TSPAN12	ENSG00000106025	ENST00000430985	protein_coding	KNOWN	None	21641	285	94	120478831	120498456	-1	TM4SF12	NET-2
2	SPAST	ENSG00000021574	ENST00000345662	protein_coding	KNOWN	CCDS1779	11233	1755	584	32288680	32382705	1	SPG4	FSP2, ADPSP, KIAA1083
2	SPAST	ENSG00000021574	ENST00000315285	protein_coding	KNOWN	CCDS1778	11233	1851	616	32288776	32382706	1	SPG4	FSP2, ADPSP, KIAA1083
22	RPS19BP1	ENSG00000187051	ENST00000334678	protein_coding	KNOWN	CCDS13997	28749	411	136	39925098	39928860	-1	None	MGC52010, FLJ21770
22	RPS19BP1	ENSG00000187051	ENST00000488602	retained_intron	KNOWN	None	28749	None	None	39925102	39928098	-1	None	MGC52010, FLJ21770
22	RPS19BP1	ENSG00000187051	ENST00000420879	nonsense_mediated_decay	KNOWN	None	28749	210	69	39925161	39928766	-1	None	MGC52010, FLJ21770
22	RPS19BP1	ENSG00000187051	ENST00000459956	retained_intron	KNOWN	None	28749	None	None	39925219	39928743	-1	None	MGC52010, FLJ21770
22	RPS19BP1	ENSG00000187051	ENST00000491966	retained_intron	KNOWN	None	28749	None	None	39925451	39928737	-1	None	MGC52010, FLJ21770
22	RPS19BP1	ENSG00000187051	ENST00000472291	retained_intron	KNOWN	None	28749	None	None	39927734	39928765	-1	None	MGC52010, FLJ21770
14	None	ENSG00000258996	ENST00000555184	processed_pseudogene	KNOWN	None	None	None	None	59648311	59648658	1	None	None
12	DYRK4	ENSG00000010219	ENST00000542744	protein_coding	PUTATIVE	None	3095	1635	544	4671370	4721853	1	None	None
12	DYRK4	ENSG00000010219	ENST00000539701	nonsense_mediated_decay	KNOWN	None	3095	207	68	4671376	4700326	1	None	None
12	DYRK4	ENSG00000010219	ENST00000537719	nonsense_mediated_decay	KNOWN	None	3095	180	59	4671380	4699550	1	None	None
12	DYRK4	ENSG00000010219	ENST00000539309	nonsense_mediated_decay	KNOWN	None	3095	132	43	4671389	4700326	1	None	None
12	DYRK4	ENSG00000010219	ENST00000538520	retained_intron	KNOWN	None	3095	None	None	4676483	4699666	1	None	None
12	DYRK4	ENSG00000010219	ENST00000539490	processed_transcript	KNOWN	None	3095	None	None	4677121	4682364	1	None	None
12	DYRK4	ENSG00000010219	ENST00000540757	protein_coding	KNOWN	CCDS8530	3095	1563	520	4699244	4723217	1	None	None
12	DYRK4	ENSG00000010219	ENST00000536157	retained_intron	KNOWN	None	3095	None	None	4699265	4706339	1	None	None
12	DYRK4	ENSG00000010219	ENST00000542905	retained_intron	KNOWN	None	3095	None	None	4699267	4700984	1	None	None
12	DYRK4	ENSG00000010219	ENST00000536645	processed_transcript	KNOWN	None	3095	None	None	4699519	4701871	1	None	None
12	DYRK4	ENSG00000010219	ENST00000543431	protein_coding	KNOWN	None	3095	1560	519	4699562	4723040	1	None	None
12	DYRK4	ENSG00000010219	ENST00000540644	retained_intron	KNOWN	None	3095	None	None	4708791	4716555	1	None	None
12	DYRK4	ENSG00000010219	ENST00000545571	retained_intron	KNOWN	None	3095	None	None	4714063	4723039	1	None	None
12	DYRK4	ENSG00000010219	ENST00000536137	retained_intron	KNOWN	None	3095	None	None	4714123	4719689	1	None	None
12	DYRK4	ENSG00000010219	ENST00000541024	retained_intron	KNOWN	None	3095	None	None	4719105	4722742	1	None	None
12	DYRK4	ENSG00000010219	ENST00000544671	protein_coding	PUTATIVE	None	3095	361	119	4719322	4722049	1	None	None
12	DYRK4	ENSG00000010219	ENST00000544050	retained_intron	KNOWN	None	3095	None	None	4721683	4722989	1	None	None
12	DYRK4	ENSG00000010219	ENST00000010132	protein_coding	KNOWN	CCDS8530	3095	1563	520	4699486	4723030	1	None	None
12	DYRK4	ENSG00000010219	ENST00000545342	protein_coding	KNOWN	None	3095	474	157	4714151	4723325	1	None	None
8	None	ENSG00000253280	ENST00000521016	lincRNA	KNOWN	None	None	None	None	19111751	19114844	-1	None	None
7	None	ENSG00000225881	ENST00000436379	antisense	KNOWN	None	None	None	None	132443730	132445392	1	None	None
19	VN2R17P	ENSG00000213014	ENST00000391712	processed_pseudogene	KNOWN	None	33223	None	None	56828546	56829377	-1	None	None
X	None	ENSG00000271147	ENST00000602463	processed_transcript	KNOWN	None	None	None	None	101854440	101969510	1	None	None
X	None	ENSG00000271147	ENST00000465548	processed_transcript	KNOWN	None	None	None	None	101854448	101860820	1	None	None
X	None	ENSG00000271147	ENST00000460026	processed_transcript	KNOWN	None	None	None	None	101854453	101894466	1	None	None
X	None	ENSG00000271147	ENST00000475738	processed_transcript	KNOWN	None	None	None	None	101854454	101894455	1	None	None
X	None	ENSG00000271147	ENST00000466616	processed_transcript	KNOWN	None	None	None	None	101854454	101905073	1	None	None
X	None	ENSG00000271147	ENST00000602366	processed_transcript	KNOWN	None	None	None	None	101854454	101969127	1	None	None
X	None	ENSG00000271147	ENST00000476910	processed_transcript	KNOWN	None	None	None	None	101854465	101895435	1	None	None
X	None	ENSG00000271147	ENST00000486740	processed_transcript	KNOWN	None	None	None	None	101854465	101969599	1	None	None
X	None	ENSG00000271147	ENST00000460793	processed_transcript	KNOWN	None	None	None	None	101854468	101894552	1	None	None
1	MCOLN2	ENSG00000153898	ENST00000370608	protein_coding	KNOWN	CCDS30762	13357	1701	566	85391268	85462623	-1	None	TRPML2, FLJ36691, TRP-ML2
1	MCOLN2	ENSG00000153898	ENST00000463065	nonsense_mediated_decay	KNOWN	None	13357	750	249	85391591	85462796	-1	None	TRPML2, FLJ36691, TRP-ML2
1	MCOLN2	ENSG00000153898	ENST00000530971	retained_intron	KNOWN	None	13357	None	None	85392109	85395527	-1	None	TRPML2, FLJ36691, TRP-ML2
1	MCOLN2	ENSG00000153898	ENST00000284027	protein_coding	PUTATIVE	None	13357	1617	538	85392368	85462795	-1	None	TRPML2, FLJ36691, TRP-ML2
1	MCOLN2	ENSG00000153898	ENST00000531325	processed_transcript	KNOWN	None	13357	None	None	85403143	85462796	-1	None	TRPML2, FLJ36691, TRP-ML2
1	MCOLN2	ENSG00000153898	ENST00000531874	processed_transcript	KNOWN	None	13357	None	None	85431232	85462796	-1	None	TRPML2, FLJ36691, TRP-ML2
3	OPA1-AS1	ENSG00000224855	ENST00000433105	antisense	KNOWN	None	40421	None	None	193336398	193345121	-1	None	None
3	OPA1-AS1	ENSG00000224855	ENST00000444085	antisense	KNOWN	None	40421	None	None	193336398	193345126	-1	None	None
3	None	ENSG00000228350	ENST00000421275	antisense	KNOWN	None	None	None	None	48701209	48706607	1	None	None
15	RN7SL673P	ENSG00000239955	ENST00000473279	misc_RNA	KNOWN	None	46689	None	None	30383854	30384132	1	None	None
10	None	ENSG00000235020	ENST00000457058	antisense	KNOWN	None	None	None	None	18523097	18550123	-1	None	None
10	None	ENSG00000235020	ENST00000601195	retained_intron	KNOWN	None	None	None	None	18549329	18550121	-1	None	None
6	None	ENSG00000256014	ENST00000540366	pseudogene	NOVEL	None	None	None	None	144438986	144439062	-1	None	None
5	None	ENSG00000205565	ENST00000512224	unprocessed_pseudogene	KNOWN	None	None	None	None	69803906	69808240	1	None	None
5	None	ENSG00000205565	ENST00000545024	pseudogene	KNOWN	None	None	None	None	69806033	69808422	1	None	None
17	HEXIM1	ENSG00000186834	ENST00000332499	protein_coding	KNOWN	CCDS11495	24953	1080	359	43224684	43229468	1	None	CLP-1, HIS1, MAQ1, EDG1
1	SDF4	ENSG00000078808	ENST00000360001	protein_coding	KNOWN	CCDS30553	24188	1089	362	1152288	1167381	-1	None	Cab45
1	SDF4	ENSG00000078808	ENST00000465727	nonsense_mediated_decay	KNOWN	None	24188	765	254	1152311	1167411	-1	None	Cab45
1	SDF4	ENSG00000078808	ENST00000263741	protein_coding	KNOWN	CCDS12	24188	1047	348	1152311	1167411	-1	None	Cab45
1	SDF4	ENSG00000078808	ENST00000494748	retained_intron	KNOWN	None	24188	None	None	1152312	1156731	-1	None	Cab45
1	SDF4	ENSG00000078808	ENST00000478938	retained_intron	KNOWN	None	24188	None	None	1152314	1155673	-1	None	Cab45
1	SDF4	ENSG00000078808	ENST00000403997	protein_coding	KNOWN	None	24188	728	241	1153903	1163976	-1	None	Cab45
1	SDF4	ENSG00000078808	ENST00000459994	processed_transcript	KNOWN	None	24188	None	None	1162652	1167348	-1	None	Cab45
1	SDF4	ENSG00000078808	ENST00000545427	protein_coding	KNOWN	None	24188	609	202	1156079	1167370	-1	None	Cab45
15	None	ENSG00000221250	ENST00000408323	miRNA	NOVEL	None	None	None	None	30385012	30385094	1	None	None
19	None	ENSG00000266907	ENST00000587908	processed_pseudogene	KNOWN	None	None	None	None	56831159	56833679	-1	None	None
11	OR4R3P	ENSG00000254624	ENST00000525084	unprocessed_pseudogene	KNOWN	None	15182	None	None	49944601	49945438	1	None	None
3	None	ENSG00000212211	ENST00000390909	snoRNA	NOVEL	None	None	None	None	60842062	60842277	-1	None	None
10	None	ENSG00000238732	ENST00000458874	snoRNA	NOVEL	None	None	None	None	43305675	43305778	-1	None	None
4	None	ENSG00000221407	ENST00000408480	miRNA	NOVEL	None	None	None	None	190981535	190981630	-1	None	None
8	None	ENSG00000253270	ENST00000519803	lincRNA	KNOWN	None	None	None	None	19536083	19546445	1	None	None
18	EPG5	ENSG00000152223	ENST00000590854	protein_coding	KNOWN	None	29331	1517	504	43427574	43447715	-1	KIAA1632	hEPG5
18	EPG5	ENSG00000152223	ENST00000282041	protein_coding	KNOWN	CCDS11926	29331	7740	2579	43427574	43547240	-1	KIAA1632	hEPG5
18	EPG5	ENSG00000152223	ENST00000587262	processed_transcript	KNOWN	None	29331	None	None	43435318	43438616	-1	KIAA1632	hEPG5
18	EPG5	ENSG00000152223	ENST00000585906	processed_transcript	KNOWN	None	29331	None	None	43437691	43497661	-1	KIAA1632	hEPG5
18	EPG5	ENSG00000152223	ENST00000592272	nonsense_mediated_decay	KNOWN	None	29331	2571	856	43437787	43496419	-1	KIAA1632	hEPG5
18	EPG5	ENSG00000152223	ENST00000590884	nonsense_mediated_decay	KNOWN	None	29331	1974	657	43437787	43496419	-1	KIAA1632	hEPG5
18	EPG5	ENSG00000152223	ENST00000587884	nonsense_mediated_decay	KNOWN	None	29331	1011	336	43437787	43496419	-1	KIAA1632	hEPG5
18	EPG5	ENSG00000152223	ENST00000587973	processed_transcript	KNOWN	None	29331	None	None	43467816	43470156	-1	KIAA1632	hEPG5
18	EPG5	ENSG00000152223	ENST00000587974	retained_intron	KNOWN	None	29331	None	None	43487830	43547240	-1	KIAA1632	hEPG5
18	EPG5	ENSG00000152223	ENST00000586655	processed_transcript	KNOWN	None	29331	None	None	43496003	43496770	-1	KIAA1632	hEPG5
3	None	ENSG00000252420	ENST00000516611	misc_RNA	NOVEL	None	None	None	None	61724801	61724903	-1	None	None
6	MRPL42P3	ENSG00000219297	ENST00000401492	processed_pseudogene	KNOWN	None	29712	None	None	144457587	144457912	1	None	None
4	None	ENSG00000258475	ENST00000556779	unprocessed_pseudogene	KNOWN	None	None	None	None	190986388	190987069	1	None	None
17	None	ENSG00000260248	ENST00000569655	lincRNA	KNOWN	None	None	None	None	71171622	71172772	1	None	None
19	None	ENSG00000267145	ENST00000592968	processed_pseudogene	KNOWN	None	None	None	None	56849657	56850017	-1	None	None
HSCHR6_MHC_COX	HLA-P	ENSG00000260055	ENST00000566459	unprocessed_pseudogene	KNOWN	None	21196	None	None	29761890	29763899	1	C6orf101, HLA-90	dJ377H14.3
12	None	ENSG00000258102	ENST00000547114	lincRNA	KNOWN	None	None	None	None	116985911	116992186	1	None	None
3	RPL10AP6	ENSG00000226360	ENST00000472730	processed_pseudogene	KNOWN	None	36504	None	None	61728129	61728780	-1	None	None
3	RPL10AP6	ENSG00000226360	ENST00000399893	processed_pseudogene	KNOWN	None	36504	None	None	61728129	61728776	-1	None	None
5	MIR874	ENSG00000216009	ENST00000401190	miRNA	KNOWN	None	33643	None	None	136983261	136983338	-1	MIRN874	hsa-mir-874
3	None	ENSG00000271973	ENST00000607025	lincRNA	KNOWN	None	None	None	None	48709888	48710166	1	None	None
17	None	ENSG00000265010	ENST00000579037	sense_intronic	KNOWN	None	None	None	None	71239232	71240845	1	None	None
10	RNU6-885P	ENSG00000252416	ENST00000516607	snRNA	KNOWN	None	47848	None	None	43327895	43327998	-1	None	None
4	DUX4L8	ENSG00000250537	ENST00000509250	unprocessed_pseudogene	KNOWN	None	38670	None	None	190989226	190990222	1	None	None
4	DUX4L8	ENSG00000250537	ENST00000536428	unprocessed_pseudogene	KNOWN	None	38670	None	None	190988796	190990406	1	None	None
8	None	ENSG00000271869	ENST00000607315	lincRNA	KNOWN	None	None	None	None	30013346	30013748	-1	None	None
2	MROH2A	ENSG00000185038	ENST00000430892	protein_coding	PUTATIVE	None	27936	206	67	234684370	234688428	1	HEATR7B1	None
2	MROH2A	ENSG00000185038	ENST00000428446	protein_coding	PUTATIVE	None	27936	206	67	234684370	234688428	1	HEATR7B1	None
2	MROH2A	ENSG00000185038	ENST00000454283	protein_coding	PUTATIVE	None	27936	29	8	234684370	234688428	1	HEATR7B1	None
2	MROH2A	ENSG00000185038	ENST00000389758	protein_coding	NOVEL	None	27936	5031	1676	234686976	234742069	1	HEATR7B1	None
2	MROH2A	ENSG00000185038	ENST00000480634	processed_transcript	KNOWN	None	27936	None	None	234688317	234702463	1	HEATR7B1	None
2	MROH2A	ENSG00000185038	ENST00000477506	retained_intron	KNOWN	None	27936	None	None	234704934	234711114	1	HEATR7B1	None
2	MROH2A	ENSG00000185038	ENST00000487979	retained_intron	KNOWN	None	27936	None	None	234737201	234742064	1	HEATR7B1	None
5	None	ENSG00000196302	ENST00000508439	unprocessed_pseudogene	KNOWN	None	None	None	None	69812214	69851093	-1	None	None
5	None	ENSG00000270237	ENST00000603314	lincRNA	KNOWN	None	None	None	None	137081340	137081840	-1	None	None
14	None	ENSG00000258929	ENST00000557142	lincRNA	KNOWN	None	None	None	None	50474031	50505944	-1	None	None
14	None	ENSG00000258929	ENST00000603474	lincRNA	KNOWN	None	None	None	None	50474036	50505806	-1	None	None
14	None	ENSG00000258929	ENST00000553463	lincRNA	KNOWN	None	None	None	None	50474052	50478107	-1	None	None
14	None	ENSG00000258929	ENST00000553914	lincRNA	KNOWN	None	None	None	None	50477680	50506602	-1	None	None
14	None	ENSG00000258929	ENST00000554129	lincRNA	KNOWN	None	None	None	None	50504313	50507947	-1	None	None
3	None	ENSG00000207370	ENST00000384640	misc_RNA	NOVEL	None	None	None	None	193341978	193342090	1	None	None
7	None	ENSG00000225224	ENST00000429552	processed_pseudogene	KNOWN	None	None	None	None	156985062	156985526	1	None	None
17	None	ENSG00000264985	ENST00000583547	antisense	KNOWN	None	None	None	None	71509824	71514909	1	None	None
6	None	ENSG00000217027	ENST00000403538	processed_pseudogene	KNOWN	None	None	None	None	144521584	144522102	-1	None	None
15	HNRNPLP2	ENSG00000259917	ENST00000568980	unprocessed_pseudogene	KNOWN	None	48747	None	None	34781203	34782772	-1	None	None
5	None	ENSG00000270697	ENST00000604680	lincRNA	KNOWN	None	None	None	None	137097235	137097625	1	None	None
3	RN7SL447P	ENSG00000243991	ENST00000494711	misc_RNA	KNOWN	None	46463	None	None	193458262	193458510	-1	None	None
10	OBFC1	ENSG00000107960	ENST00000224950	protein_coding	KNOWN	CCDS7552	26200	1107	368	105642300	105677963	-1	None	FLJ22559, bA541N10.2
10	OBFC1	ENSG00000107960	ENST00000369764	protein_coding	KNOWN	CCDS7552	26200	1107	368	105642313	105677427	-1	None	FLJ22559, bA541N10.2
10	OBFC1	ENSG00000107960	ENST00000466828	processed_transcript	KNOWN	None	26200	None	None	105642313	105677888	-1	None	FLJ22559, bA541N10.2
10	OBFC1	ENSG00000107960	ENST00000472951	processed_transcript	KNOWN	None	26200	None	None	105642503	105659911	-1	None	FLJ22559, bA541N10.2
6	NPM1P38	ENSG00000219257	ENST00000403835	processed_pseudogene	KNOWN	None	45217	None	None	100498248	100499112	-1	None	None
19	None	ENSG00000266932	ENST00000589958	transcribed_processed_pseudogene	KNOWN	None	None	None	None	56853801	56854788	-1	None	None
5	None	ENSG00000250918	ENST00000509075	unprocessed_pseudogene	KNOWN	None	None	None	None	69825198	69826377	1	None	None
17	None	ENSG00000265780	ENST00000583712	antisense	KNOWN	None	None	None	None	71515985	71517546	1	None	None
12	None	ENSG00000258249	ENST00000550742	lincRNA	KNOWN	None	None	None	None	117037075	117041390	1	None	None
5	NPY6R	ENSG00000226306	ENST00000510937	processed_transcript	KNOWN	None	7959	None	None	137136882	137146440	1	None	PP2, NPY1RL, NPY6RP
5	NPY6R	ENSG00000226306	ENST00000503807	transcribed_processed_pseudogene	KNOWN	None	7959	None	None	137143900	137145011	1	None	PP2, NPY1RL, NPY6RP
10	None	ENSG00000234944	ENST00000421320	lincRNA	KNOWN	None	None	None	None	43366969	43369508	1	None	None
X	MIR888	ENSG00000216005	ENST00000401186	miRNA	KNOWN	None	33648	None	None	145076302	145076378	-1	MIRN888	hsa-mir-888
HSCHR6_MHC_MCF	GABBR1	ENSG00000206466	ENST00000383543	protein_coding	KNOWN	None	4070	2535	844	29523204	29595620	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_MCF	GABBR1	ENSG00000206466	ENST00000383542	protein_coding	KNOWN	None	4070	2886	961	29569813	29600741	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_MCF	GABBR1	ENSG00000206466	ENST00000383537	protein_coding	KNOWN	None	4070	2535	844	29569813	29595595	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_MCF	GABBR1	ENSG00000206466	ENST00000383541	protein_coding	KNOWN	None	4070	2700	899	29569813	29600716	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_MCF	GABBR1	ENSG00000206466	ENST00000493602	processed_transcript	KNOWN	None	4070	None	None	29569813	29600515	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_MCF	GABBR1	ENSG00000206466	ENST00000471385	processed_transcript	KNOWN	None	4070	None	None	29569813	29576316	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_MCF	GABBR1	ENSG00000206466	ENST00000498610	processed_transcript	KNOWN	None	4070	None	None	29570897	29572732	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_MCF	GABBR1	ENSG00000206466	ENST00000495291	processed_transcript	KNOWN	None	4070	None	None	29572496	29599966	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_MCF	GABBR1	ENSG00000206466	ENST00000482350	processed_transcript	KNOWN	None	4070	None	None	29572993	29574172	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_MCF	GABBR1	ENSG00000206466	ENST00000478066	processed_transcript	KNOWN	None	4070	None	None	29576037	29580182	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_MCF	GABBR1	ENSG00000206466	ENST00000489481	processed_transcript	KNOWN	None	4070	None	None	29589386	29591843	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_MCF	GABBR1	ENSG00000206466	ENST00000462863	processed_transcript	KNOWN	None	4070	None	None	29597481	29600648	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_MCF	GABBR1	ENSG00000206466	ENST00000552399	protein_coding	KNOWN	None	4070	1737	578	29569812	29600766	-1	None	hGB1a, GPRC3A
17	None	ENSG00000264750	ENST00000579100	antisense	KNOWN	None	None	None	None	71637165	71639245	1	None	None
11	None	ENSG00000255199	ENST00000526931	unprocessed_pseudogene	KNOWN	None	None	None	None	50060063	50062069	-1	None	None
3	None	ENSG00000223986	ENST00000447462	processed_pseudogene	KNOWN	None	None	None	None	193483470	193483792	1	None	None
19	None	ENSG00000267429	ENST00000593258	sense_intronic	KNOWN	None	None	None	None	56858450	56859552	-1	None	None
12	None	ENSG00000240328	ENST00000498395	processed_pseudogene	KNOWN	None	None	None	None	19661838	19662179	1	None	None
7	ANKIB1	ENSG00000001629	ENST00000265742	protein_coding	KNOWN	CCDS47639	22215	3270	1089	91875548	92030698	1	None	DKFZP434A0225, KIAA1386
7	ANKIB1	ENSG00000001629	ENST00000442183	protein_coding	KNOWN	None	22215	402	133	91923776	91936886	1	None	DKFZP434A0225, KIAA1386
7	ANKIB1	ENSG00000001629	ENST00000439883	nonsense_mediated_decay	KNOWN	None	22215	487	161	91936673	91972431	1	None	DKFZP434A0225, KIAA1386
7	ANKIB1	ENSG00000001629	ENST00000486698	processed_transcript	KNOWN	None	22215	None	None	91948736	91949280	1	None	DKFZP434A0225, KIAA1386
7	ANKIB1	ENSG00000001629	ENST00000413588	nonsense_mediated_decay	KNOWN	None	22215	254	83	91972452	91991574	1	None	DKFZP434A0225, KIAA1386
7	ANKIB1	ENSG00000001629	ENST00000422095	nonsense_mediated_decay	KNOWN	None	22215	163	53	92000886	92028662	1	None	DKFZP434A0225, KIAA1386
7	ANKIB1	ENSG00000001629	ENST00000465883	retained_intron	KNOWN	None	22215	None	None	92025183	92027151	1	None	DKFZP434A0225, KIAA1386
4	None	ENSG00000249706	ENST00000512405	sense_intronic	KNOWN	None	None	None	None	54766038	54783002	1	None	None
8	None	ENSG00000253708	ENST00000523733	antisense	KNOWN	None	None	None	None	30034070	30038404	-1	None	None
17	None	ENSG00000265935	ENST00000584916	processed_transcript	PUTATIVE	None	None	None	None	71658707	71659987	-1	None	None
3	None	ENSG00000113811	ENST00000495461	protein_coding	KNOWN	CCDS54597	None	285	94	53918437	53926015	-1	None	None
3	None	ENSG00000113811	ENST00000488746	nonsense_mediated_decay	KNOWN	None	None	219	72	53919328	53925892	-1	None	None
3	None	ENSG00000113811	ENST00000487571	retained_intron	KNOWN	None	None	None	None	53922023	53925882	-1	None	None
3	None	ENSG00000113811	ENST00000485414	processed_transcript	KNOWN	None	None	None	None	53922422	53925912	-1	None	None
3	None	ENSG00000113811	ENST00000541726	protein_coding	KNOWN	None	None	276	91	53919227	53925989	-1	None	None
3	None	ENSG00000229155	ENST00000439074	lincRNA	KNOWN	None	None	None	None	193560349	193561798	-1	None	None
3	None	ENSG00000229155	ENST00000445168	lincRNA	KNOWN	None	None	None	None	193560600	193561813	-1	None	None
17	KRT17P2	ENSG00000186831	ENST00000326333	processed_transcript	KNOWN	None	6429	None	None	18330175	18333941	1	None	None
17	KRT17P2	ENSG00000186831	ENST00000300992	transcribed_unprocessed_pseudogene	KNOWN	None	6429	None	None	18330241	18335162	1	None	None
17	KRT17P2	ENSG00000186831	ENST00000584769	processed_transcript	KNOWN	None	6429	None	None	18331486	18333938	1	None	None
17	KRT17P2	ENSG00000186831	ENST00000581146	retained_intron	KNOWN	None	6429	None	None	18333541	18334536	1	None	None
5	None	ENSG00000253366	ENST00000505516	unprocessed_pseudogene	KNOWN	None	None	None	None	70047011	70091741	1	None	None
5	None	ENSG00000253366	ENST00000433447	unprocessed_pseudogene	KNOWN	None	None	None	None	70046954	70087189	1	None	None
5	None	ENSG00000253366	ENST00000545488	unprocessed_pseudogene	KNOWN	None	None	None	None	70091602	70149508	1	None	None
6	PRDX2P4	ENSG00000213177	ENST00000447134	processed_pseudogene	KNOWN	None	44969	None	None	100583940	100584539	1	None	None
Y	GYG2P1	ENSG00000206159	ENST00000382966	processed_transcript	KNOWN	None	4701	None	None	14475147	14532255	-1	GYG2P	None
Y	GYG2P1	ENSG00000206159	ENST00000493160	processed_transcript	KNOWN	None	4701	None	None	14494992	14530093	-1	GYG2P	None
Y	GYG2P1	ENSG00000206159	ENST00000357871	processed_transcript	KNOWN	None	4701	None	None	14514046	14532255	-1	GYG2P	None
Y	GYG2P1	ENSG00000206159	ENST00000382963	processed_transcript	KNOWN	None	4701	None	None	14517922	14532171	-1	GYG2P	None
Y	GYG2P1	ENSG00000206159	ENST00000382965	transcribed_unprocessed_pseudogene	KNOWN	None	4701	None	None	14518595	14532121	-1	GYG2P	None
3	RNU2-10P	ENSG00000252184	ENST00000516375	snRNA	KNOWN	None	48503	None	None	62103974	62104184	-1	None	None
3	SIAH2	ENSG00000181788	ENST00000312960	protein_coding	KNOWN	CCDS3152	10858	975	324	150458914	150481164	-1	None	None
3	SIAH2	ENSG00000181788	ENST00000482706	protein_coding	PUTATIVE	None	10858	250	82	150460275	150481218	-1	None	None
3	SIAH2	ENSG00000181788	ENST00000472885	processed_transcript	PUTATIVE	None	10858	None	None	150480243	150481264	-1	None	None
2	VIT	ENSG00000205221	ENST00000379242	protein_coding	KNOWN	CCDS33180	12697	2082	693	36923833	37041930	1	None	None
2	VIT	ENSG00000205221	ENST00000457137	protein_coding	KNOWN	CCDS54350	12697	612	203	36923907	36986818	1	None	None
2	VIT	ENSG00000205221	ENST00000497382	protein_coding	KNOWN	None	12697	1044	347	36923948	37041930	1	None	None
2	VIT	ENSG00000205221	ENST00000404084	protein_coding	NOVEL	None	12697	1893	630	36923969	37041883	1	None	None
2	VIT	ENSG00000205221	ENST00000379241	protein_coding	KNOWN	CCDS54349	12697	1971	656	36924009	37041932	1	None	None
2	VIT	ENSG00000205221	ENST00000401530	protein_coding	NOVEL	CCDS54348	12697	1974	657	36924020	37041576	1	None	None
2	VIT	ENSG00000205221	ENST00000464309	protein_coding	PUTATIVE	None	12697	404	133	37000955	37015197	1	None	None
2	VIT	ENSG00000205221	ENST00000389975	protein_coding	KNOWN	CCDS54347	12697	2037	678	36923833	37041935	1	None	None
3	PRKAR2A-AS1	ENSG00000224424	ENST00000435419	antisense	KNOWN	None	40471	None	None	48885005	48885926	1	None	None
3	PRKAR2A-AS1	ENSG00000224424	ENST00000431705	antisense	KNOWN	None	40471	None	None	48885370	48886618	1	None	None
3	PRKAR2A-AS1	ENSG00000224424	ENST00000412171	antisense	KNOWN	None	40471	None	None	48885370	48886887	1	None	None
3	PRKAR2A-AS1	ENSG00000224424	ENST00000416209	antisense	KNOWN	None	40471	None	None	48885390	48889414	1	None	None
4	None	ENSG00000250815	ENST00000508433	processed_pseudogene	KNOWN	None	None	None	None	54793666	54794305	-1	None	None
1	EMC1	ENSG00000127463	ENST00000477853	protein_coding	KNOWN	CCDS190	28957	2982	993	19542158	19578046	-1	KIAA0090	None
1	EMC1	ENSG00000127463	ENST00000480380	processed_transcript	KNOWN	None	28957	None	None	19543368	19548410	-1	KIAA0090	None
1	EMC1	ENSG00000127463	ENST00000375199	protein_coding	KNOWN	CCDS59191	28957	2979	992	19543368	19578003	-1	KIAA0090	None
1	EMC1	ENSG00000127463	ENST00000375208	protein_coding	KNOWN	CCDS59190	28957	2916	971	19544642	19578016	-1	KIAA0090	None
1	EMC1	ENSG00000127463	ENST00000461353	processed_transcript	KNOWN	None	28957	None	None	19545439	19547699	-1	KIAA0090	None
1	EMC1	ENSG00000127463	ENST00000486405	protein_coding	PUTATIVE	None	28957	537	178	19545864	19550000	-1	KIAA0090	None
1	EMC1	ENSG00000127463	ENST00000486238	nonsense_mediated_decay	KNOWN	None	28957	260	85	19545876	19549255	-1	KIAA0090	None
1	EMC1	ENSG00000127463	ENST00000494770	processed_transcript	KNOWN	None	28957	None	None	19546062	19555889	-1	KIAA0090	None
1	EMC1	ENSG00000127463	ENST00000462505	retained_intron	KNOWN	None	28957	None	None	19546109	19549501	-1	KIAA0090	None
1	EMC1	ENSG00000127463	ENST00000496654	processed_transcript	KNOWN	None	28957	None	None	19546144	19549180	-1	KIAA0090	None
1	EMC1	ENSG00000127463	ENST00000467423	processed_transcript	KNOWN	None	28957	None	None	19565121	19567198	-1	KIAA0090	None
1	EMC1	ENSG00000127463	ENST00000475079	nonsense_mediated_decay	KNOWN	None	28957	228	75	19570114	19578019	-1	KIAA0090	None
1	EMC1	ENSG00000127463	ENST00000488681	retained_intron	KNOWN	None	28957	None	None	19571076	19578021	-1	KIAA0090	None
1	EMC1	ENSG00000127463	ENST00000356068	protein_coding	KNOWN	None	28957	228	75	19571283	19578021	-1	KIAA0090	None
19	None	ENSG00000268041	ENST00000597630	processed_transcript	KNOWN	None	None	None	None	42412671	42414217	-1	None	None
19	None	ENSG00000268041	ENST00000598387	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	42413529	42414249	-1	None	None
12	RNU1-146P	ENSG00000200885	ENST00000364015	snRNA	KNOWN	None	48488	None	None	19877369	19877533	1	None	None
15	None	ENSG00000261559	ENST00000568912	processed_pseudogene	KNOWN	None	None	None	None	34786621	34788101	1	None	None
17	None	ENSG00000263574	ENST00000583854	lincRNA	KNOWN	None	None	None	None	71733993	71752696	1	None	None
HG75_PATCH	None	ENSG00000259801	ENST00000562779	protein_coding	NOVEL	None	None	1650	549	34704907	34715799	-1	None	None
10	None	ENSG00000229630	ENST00000431395	lincRNA	KNOWN	None	None	None	None	43474465	43476955	-1	None	None
1	MTND1P23	ENSG00000225972	ENST00000416931	unprocessed_pseudogene	KNOWN	None	42092	None	None	564442	564813	1	None	None
2	RASGRP3	ENSG00000152689	ENST00000402538	protein_coding	KNOWN	CCDS46256	14545	2073	690	33661391	33789817	1	None	KIAA0846, GRP3
2	RASGRP3	ENSG00000152689	ENST00000484909	retained_intron	KNOWN	None	14545	None	None	33661393	33708003	1	None	KIAA0846, GRP3
2	RASGRP3	ENSG00000152689	ENST00000497723	processed_transcript	KNOWN	None	14545	None	None	33661480	33736909	1	None	KIAA0846, GRP3
2	RASGRP3	ENSG00000152689	ENST00000479528	retained_intron	KNOWN	None	14545	None	None	33661634	33741760	1	None	KIAA0846, GRP3
2	RASGRP3	ENSG00000152689	ENST00000437184	protein_coding	KNOWN	None	14545	516	171	33683113	33747169	1	None	KIAA0846, GRP3
2	RASGRP3	ENSG00000152689	ENST00000403687	protein_coding	KNOWN	CCDS46256	14545	2073	690	33701295	33789798	1	None	KIAA0846, GRP3
2	RASGRP3	ENSG00000152689	ENST00000482857	retained_intron	KNOWN	None	14545	None	None	33701664	33741855	1	None	KIAA0846, GRP3
2	RASGRP3	ENSG00000152689	ENST00000442390	protein_coding	KNOWN	None	14545	231	76	33701690	33745076	1	None	KIAA0846, GRP3
2	RASGRP3	ENSG00000152689	ENST00000425210	protein_coding	KNOWN	None	14545	102	33	33701716	33741640	1	None	KIAA0846, GRP3
2	RASGRP3	ENSG00000152689	ENST00000444784	protein_coding	KNOWN	None	14545	337	111	33701716	33745720	1	None	KIAA0846, GRP3
2	RASGRP3	ENSG00000152689	ENST00000423159	protein_coding	KNOWN	None	14545	340	112	33701716	33745723	1	None	KIAA0846, GRP3
2	RASGRP3	ENSG00000152689	ENST00000494927	retained_intron	KNOWN	None	14545	None	None	33701732	33707081	1	None	KIAA0846, GRP3
2	RASGRP3	ENSG00000152689	ENST00000407811	protein_coding	KNOWN	CCDS54346	14545	2070	689	33738942	33789672	1	None	KIAA0846, GRP3
2	RASGRP3	ENSG00000152689	ENST00000477927	processed_transcript	KNOWN	None	14545	None	None	33749497	33756011	1	None	KIAA0846, GRP3
2	RASGRP3	ENSG00000152689	ENST00000490150	retained_intron	KNOWN	None	14545	None	None	33752248	33764416	1	None	KIAA0846, GRP3
2	RASGRP3	ENSG00000152689	ENST00000419772	nonsense_mediated_decay	KNOWN	None	14545	417	138	33752270	33765056	1	None	KIAA0846, GRP3
2	RASGRP3	ENSG00000152689	ENST00000468856	retained_intron	KNOWN	None	14545	None	None	33756792	33765248	1	None	KIAA0846, GRP3
2	RASGRP3	ENSG00000152689	ENST00000482731	processed_transcript	KNOWN	None	14545	None	None	33764718	33768694	1	None	KIAA0846, GRP3
1	ARHGAP30	ENSG00000186517	ENST00000461003	retained_intron	KNOWN	None	27414	None	None	161016736	161039660	-1	None	FLJ00267
1	ARHGAP30	ENSG00000186517	ENST00000368016	protein_coding	KNOWN	CCDS1215	27414	2673	890	161016738	161039456	-1	None	FLJ00267
1	ARHGAP30	ENSG00000186517	ENST00000368013	protein_coding	KNOWN	CCDS30918	27414	3306	1101	161016738	161039735	-1	None	FLJ00267
1	ARHGAP30	ENSG00000186517	ENST00000368015	protein_coding	PUTATIVE	None	27414	2775	924	161016739	161039760	-1	None	FLJ00267
1	ARHGAP30	ENSG00000186517	ENST00000490279	nonsense_mediated_decay	KNOWN	None	27414	210	69	161018580	161039593	-1	None	FLJ00267
1	ARHGAP30	ENSG00000186517	ENST00000368018	nonsense_mediated_decay	KNOWN	None	27414	192	63	161023165	161039465	-1	None	FLJ00267
1	ARHGAP30	ENSG00000186517	ENST00000471492	nonsense_mediated_decay	KNOWN	None	27414	126	41	161024192	161039705	-1	None	FLJ00267
3	None	ENSG00000237456	ENST00000462623	processed_pseudogene	KNOWN	None	None	None	None	62109878	62110282	-1	None	None
4	RPL21P44	ENSG00000229585	ENST00000491826	processed_pseudogene	KNOWN	None	33820	None	None	54852754	54853225	-1	None	None
5	None	ENSG00000250159	ENST00000514616	antisense	KNOWN	None	None	None	None	137150022	137225006	-1	None	None
5	None	ENSG00000250159	ENST00000508281	antisense	KNOWN	None	None	None	None	137218482	137225025	-1	None	None
10	None	ENSG00000240291	ENST00000425669	antisense	KNOWN	None	None	None	None	18802044	18834580	-1	None	None
10	None	ENSG00000240291	ENST00000436485	antisense	KNOWN	None	None	None	None	18830515	18833316	-1	None	None
19	None	ENSG00000268744	ENST00000435033	nonsense_mediated_decay	KNOWN	None	None	141	46	12490003	12512088	-1	None	None
8	TDGF1P5	ENSG00000254274	ENST00000523009	processed_pseudogene	KNOWN	None	11705	None	None	54985674	54986126	1	TDGF5	CR-5, CRIPTO-5
14	None	ENSG00000252869	ENST00000517060	miRNA	NOVEL	None	None	None	None	59866741	59866869	1	None	None
12	None	ENSG00000255910	ENST00000535764	processed_transcript	KNOWN	None	None	None	None	19928385	20162871	1	None	None
12	None	ENSG00000257883	ENST00000546835	lincRNA	KNOWN	None	None	None	None	117099387	117135870	1	None	None
15	DNM1P28	ENSG00000261792	ENST00000565702	unprocessed_pseudogene	KNOWN	None	35175	None	None	30391029	30394296	-1	DNM1DN3@	DNM1DN3-1, DNM1DN3-3
4	None	ENSG00000251105	ENST00000510278	processed_pseudogene	KNOWN	None	None	None	None	54942792	54943015	1	None	None
X	MIR892A	ENSG00000215943	ENST00000401124	miRNA	KNOWN	None	33639	None	None	145078187	145078261	-1	MIRN892A	hsa-mir-892a
11	BUD13	ENSG00000137656	ENST00000419189	nonsense_mediated_decay	KNOWN	None	28199	355	117	116618886	116633552	-1	None	MGC13125, fSAP71, Cwc26
11	BUD13	ENSG00000137656	ENST00000375445	protein_coding	NOVEL	CCDS53712	28199	1458	485	116618886	116643703	-1	None	MGC13125, fSAP71, Cwc26
11	BUD13	ENSG00000137656	ENST00000260210	protein_coding	KNOWN	CCDS8374	28199	1860	619	116618886	116643704	-1	None	MGC13125, fSAP71, Cwc26
19	None	ENSG00000268525	ENST00000594531	antisense	KNOWN	None	None	None	None	42582740	42584259	-1	None	None
5	None	ENSG00000266475	ENST00000582317	miRNA	NOVEL	None	None	None	None	137316150	137316247	-1	None	None
8	None	ENSG00000272375	ENST00000606555	lincRNA	KNOWN	None	None	None	None	30054920	30055564	1	None	None
17	LINC00469	ENSG00000177338	ENST00000321800	lincRNA	KNOWN	None	26863	None	None	71746469	71824659	-1	C17orf54	FLJ40319
17	LINC00469	ENSG00000177338	ENST00000544677	lincRNA	KNOWN	None	26863	None	None	71746469	71824659	-1	C17orf54	FLJ40319
17	LINC00469	ENSG00000177338	ENST00000579749	lincRNA	KNOWN	None	26863	None	None	71757143	71772896	-1	C17orf54	FLJ40319
14	None	ENSG00000259163	ENST00000553826	antisense	KNOWN	None	None	None	None	91108982	91111479	1	None	None
14	None	ENSG00000259163	ENST00000557007	antisense	KNOWN	None	None	None	None	91108984	91115238	1	None	None
HSCHR6_MHC_COX	RPL7AP7	ENSG00000233462	ENST00000445592	processed_pseudogene	KNOWN	None	21395	None	None	29764669	29765465	-1	None	RPL7B, dJ377H14.2
HSCHR6_MHC_COX	RPL7AP7	ENSG00000233462	ENST00000551097	pseudogene	KNOWN	None	21395	None	None	29764669	29765465	-1	None	RPL7B, dJ377H14.2
4	MORF4L2P1	ENSG00000250147	ENST00000503761	processed_pseudogene	KNOWN	None	20403	None	None	54953093	54953950	1	MORF4LP4	MRG4
15	None	ENSG00000259756	ENST00000559589	antisense	KNOWN	None	None	None	None	62975115	62982647	-1	None	None
15	NBEAP1	ENSG00000258590	ENST00000554452	transcribed_unprocessed_pseudogene	KNOWN	None	1007	None	None	20862967	20893737	-1	BCL8	BCL8A
15	NBEAP1	ENSG00000258590	ENST00000556948	retained_intron	KNOWN	None	1007	None	None	20870054	20876600	-1	BCL8	BCL8A
X	None	ENSG00000236491	ENST00000441416	unprocessed_pseudogene	KNOWN	None	None	None	None	134314179	134328610	-1	None	None
14	None	ENSG00000258782	ENST00000554253	processed_transcript	KNOWN	None	None	None	None	59945992	59992155	-1	None	None
9	None	ENSG00000176868	ENST00000321081	pseudogene	NOVEL	None	None	None	None	134374796	134375537	-1	None	None
11	None	ENSG00000255442	ENST00000533593	unprocessed_pseudogene	KNOWN	None	None	None	None	50129327	50149612	1	None	None
15	None	ENSG00000265317	ENST00000577415	miRNA	NOVEL	None	None	None	None	63079006	63079093	1	None	None
GL000222.1	None	ENSG00000238524	ENST00000459466	miRNA	NOVEL	None	None	None	None	122779	122874	-1	None	None
3	PTPRG-AS1	ENSG00000241472	ENST00000469148	antisense	KNOWN	None	44638	None	None	62246540	62248415	-1	None	None
3	PTPRG-AS1	ENSG00000241472	ENST00000474795	antisense	KNOWN	None	44638	None	None	62247498	62304622	-1	None	None
3	PTPRG-AS1	ENSG00000241472	ENST00000462497	antisense	KNOWN	None	44638	None	None	62247500	62304598	-1	None	None
3	PTPRG-AS1	ENSG00000241472	ENST00000475371	antisense	KNOWN	None	44638	None	None	62249550	62304567	-1	None	None
3	PTPRG-AS1	ENSG00000241472	ENST00000479018	antisense	KNOWN	None	44638	None	None	62249604	62304610	-1	None	None
3	PTPRG-AS1	ENSG00000241472	ENST00000495542	antisense	KNOWN	None	44638	None	None	62249717	62355005	-1	None	None
3	PTPRG-AS1	ENSG00000241472	ENST00000466893	antisense	KNOWN	None	44638	None	None	62262102	62304567	-1	None	None
3	PTPRG-AS1	ENSG00000241472	ENST00000490916	antisense	KNOWN	None	44638	None	None	62262450	62355001	-1	None	None
3	PTPRG-AS1	ENSG00000241472	ENST00000498655	antisense	KNOWN	None	44638	None	None	62278309	62304453	-1	None	None
3	PTPRG-AS1	ENSG00000241472	ENST00000479588	retained_intron	KNOWN	None	44638	None	None	62279948	62304307	-1	None	None
1	MTND2P28	ENSG00000225630	ENST00000457540	unprocessed_pseudogene	KNOWN	None	42129	None	None	565020	566063	1	None	None
8	None	ENSG00000253775	ENST00000519197	antisense	KNOWN	None	None	None	None	19936816	19975953	1	None	None
19	OPA3	ENSG00000125741	ENST00000323060	protein_coding	KNOWN	CCDS33052	8142	543	180	46030685	46088100	-1	None	FLJ22187, MGA3
19	OPA3	ENSG00000125741	ENST00000263275	protein_coding	KNOWN	CCDS12668	8142	540	179	46049539	46088077	-1	None	FLJ22187, MGA3
19	OPA3	ENSG00000125741	ENST00000544371	protein_coding	PUTATIVE	None	8142	381	126	46056142	46105470	-1	None	FLJ22187, MGA3
15	MIR190A	ENSG00000211137	ENST00000388402	miRNA	KNOWN	None	31560	None	None	63116156	63116240	1	MIRN190, MIR190	hsa-mir-190
9	None	ENSG00000230289	ENST00000415423	antisense	KNOWN	None	None	None	None	134391945	134397616	-1	None	None
HSCHR3_1_CTG1	None	ENSG00000264064	ENST00000581473	processed_pseudogene	KNOWN	None	None	None	None	11922258	11922531	-1	None	None
8	RPL30P9	ENSG00000242709	ENST00000465586	processed_pseudogene	KNOWN	None	35763	None	None	19970854	19971183	-1	None	None
8	SNORD87	ENSG00000254341	ENST00000522478	sense_overlapping	KNOWN	None	32746	None	None	67834709	67834786	-1	None	HBII-276, U87
7	PTN	ENSG00000105894	ENST00000348225	protein_coding	KNOWN	CCDS5844	9630	507	168	136912088	137028611	-1	NEGF1	HBNF, HBGF8
7	PTN	ENSG00000105894	ENST00000393083	protein_coding	NOVEL	None	9630	501	166	136912111	137028520	-1	NEGF1	HBNF, HBGF8
9	RN7SL328P	ENSG00000240853	ENST00000484033	misc_RNA	KNOWN	None	46344	None	None	134600556	134600854	-1	None	None
15	None	ENSG00000259684	ENST00000558237	antisense	KNOWN	None	None	None	None	50849798	50852697	1	None	None
19	ZNF799	ENSG00000196466	ENST00000460935	retained_intron	KNOWN	None	28071	None	None	12500830	12505934	-1	ZNF842	HIT-40, MGC71805
19	ZNF799	ENSG00000196466	ENST00000419318	protein_coding	PUTATIVE	None	28071	1836	611	12500830	12511794	-1	ZNF842	HIT-40, MGC71805
19	ZNF799	ENSG00000196466	ENST00000430385	protein_coding	KNOWN	CCDS45989	28071	1932	643	12500830	12512085	-1	ZNF842	HIT-40, MGC71805
19	ZNF799	ENSG00000196466	ENST00000595766	protein_coding	PUTATIVE	None	28071	276	91	12502952	12512082	-1	ZNF842	HIT-40, MGC71805
8	HSPA8P11	ENSG00000248159	ENST00000508840	unprocessed_pseudogene	KNOWN	None	44926	None	None	30094898	30098513	1	None	None
6	None	ENSG00000216475	ENST00000404655	processed_pseudogene	KNOWN	None	None	None	None	144578170	144578760	-1	None	None
HSCHR17_5_CTG4	KRTAP9-3	ENSG00000262749	ENST00000571096	protein_coding	KNOWN	None	16927	480	159	39388714	39389705	1	None	KAP9.3
16	None	ENSG00000262086	ENST00000576258	sense_overlapping	KNOWN	None	None	None	None	71481500	71486552	-1	None	None
9	EIF4A1P3	ENSG00000231018	ENST00000411521	processed_pseudogene	KNOWN	None	37922	None	None	134657957	134658200	-1	None	None
15	None	ENSG00000259370	ENST00000558888	antisense	KNOWN	None	None	None	None	63124323	63127596	-1	None	None
15	None	ENSG00000259370	ENST00000558404	antisense	KNOWN	None	None	None	None	63126859	63135272	-1	None	None
15	None	ENSG00000259370	ENST00000560963	antisense	KNOWN	None	None	None	None	63134323	63136780	-1	None	None
15	None	ENSG00000259370	ENST00000557994	antisense	KNOWN	None	None	None	None	63135088	63176233	-1	None	None
8	RNU6ATAC32P	ENSG00000251835	ENST00000516026	snRNA	KNOWN	None	46931	None	None	55065367	55065442	-1	None	None
17	RAPGEFL1	ENSG00000108352	ENST00000456989	protein_coding	PUTATIVE	None	17428	1536	511	38333263	38350040	1	None	Link-GEFII
17	RAPGEFL1	ENSG00000108352	ENST00000543876	protein_coding	KNOWN	None	17428	447	148	38333308	38345578	1	None	Link-GEFII
17	RAPGEFL1	ENSG00000108352	ENST00000544503	protein_coding	PUTATIVE	None	17428	1518	505	38333330	38350442	1	None	Link-GEFII
17	RAPGEFL1	ENSG00000108352	ENST00000264644	protein_coding	KNOWN	CCDS11363	17428	1371	456	38333348	38351908	1	None	Link-GEFII
17	RAPGEFL1	ENSG00000108352	ENST00000538884	protein_coding	KNOWN	None	17428	62	19	38333368	38340546	1	None	Link-GEFII
17	RAPGEFL1	ENSG00000108352	ENST00000540388	processed_transcript	KNOWN	None	17428	None	None	38333748	38347609	1	None	Link-GEFII
17	RAPGEFL1	ENSG00000108352	ENST00000541245	protein_coding	PUTATIVE	None	17428	187	61	38334501	38340560	1	None	Link-GEFII
17	RAPGEFL1	ENSG00000108352	ENST00000538981	protein_coding	KNOWN	None	17428	304	100	38337491	38345206	1	None	Link-GEFII
17	RAPGEFL1	ENSG00000108352	ENST00000545893	retained_intron	KNOWN	None	17428	None	None	38344790	38350083	1	None	Link-GEFII
17	RAPGEFL1	ENSG00000108352	ENST00000469209	retained_intron	KNOWN	None	17428	None	None	38345462	38347289	1	None	Link-GEFII
17	RAPGEFL1	ENSG00000108352	ENST00000496032	retained_intron	KNOWN	None	17428	None	None	38347722	38349218	1	None	Link-GEFII
17	RAPGEFL1	ENSG00000108352	ENST00000436615	protein_coding	KNOWN	CCDS11363	17428	1371	456	38334242	38351906	1	None	Link-GEFII
HSCHR6_MHC_MCF	SLC39A7	ENSG00000224399	ENST00000414757	protein_coding	KNOWN	None	4927	662	219	33338586	33340833	1	HKE4	H2-KE4, D6S2244E, KE4, RING5, ZIP7
HSCHR6_MHC_MCF	SLC39A7	ENSG00000224399	ENST00000441953	protein_coding	KNOWN	None	4927	1410	469	33338967	33342580	1	HKE4	H2-KE4, D6S2244E, KE4, RING5, ZIP7
HSCHR6_MHC_MCF	SLC39A7	ENSG00000224399	ENST00000431735	protein_coding	KNOWN	None	4927	1410	469	33339014	33342580	1	HKE4	H2-KE4, D6S2244E, KE4, RING5, ZIP7
HSCHR6_MHC_MCF	SLC39A7	ENSG00000224399	ENST00000462670	processed_transcript	PUTATIVE	None	4927	None	None	33339066	33342580	1	HKE4	H2-KE4, D6S2244E, KE4, RING5, ZIP7
HSCHR6_MHC_MCF	SLC39A7	ENSG00000224399	ENST00000491795	processed_transcript	PUTATIVE	None	4927	None	None	33339387	33342580	1	HKE4	H2-KE4, D6S2244E, KE4, RING5, ZIP7
HSCHR6_MHC_MCF	SLC39A7	ENSG00000224399	ENST00000468378	processed_transcript	PUTATIVE	None	4927	None	None	33340396	33342580	1	HKE4	H2-KE4, D6S2244E, KE4, RING5, ZIP7
7	SP8	ENSG00000164651	ENST00000418710	protein_coding	KNOWN	CCDS43555	19196	1527	508	20823906	20826505	-1	None	None
7	SP8	ENSG00000164651	ENST00000361443	protein_coding	KNOWN	CCDS5372	19196	1473	490	20823906	20826505	-1	None	None
16	None	ENSG00000247324	ENST00000500612	antisense	KNOWN	None	None	None	None	71496181	71499844	1	None	None
16	None	ENSG00000247324	ENST00000567341	antisense	KNOWN	None	None	None	None	71496230	71497970	1	None	None
GL000220.1	None	ENSG00000263806	ENST00000585135	miRNA	NOVEL	None	None	None	None	100714	100791	1	None	None
8	None	ENSG00000270980	ENST00000603811	processed_pseudogene	KNOWN	None	None	None	None	55104142	55104595	-1	None	None
11	TRAPPC4	ENSG00000196655	ENST00000533632	protein_coding	KNOWN	CCDS8407	19943	660	219	118889142	118894844	1	None	TRS23, SBDN, PTD009
11	TRAPPC4	ENSG00000196655	ENST00000527680	retained_intron	KNOWN	None	19943	None	None	118889473	118890213	1	None	TRS23, SBDN, PTD009
11	TRAPPC4	ENSG00000196655	ENST00000447216	retained_intron	KNOWN	None	19943	None	None	118889476	118891459	1	None	TRS23, SBDN, PTD009
11	TRAPPC4	ENSG00000196655	ENST00000528230	protein_coding	NOVEL	None	19943	531	176	118889476	118894131	1	None	TRS23, SBDN, PTD009
11	TRAPPC4	ENSG00000196655	ENST00000525303	protein_coding	NOVEL	None	19943	381	126	118889476	118894352	1	None	TRS23, SBDN, PTD009
11	TRAPPC4	ENSG00000196655	ENST00000434101	protein_coding	NOVEL	None	19943	498	165	118889476	118894375	1	None	TRS23, SBDN, PTD009
11	TRAPPC4	ENSG00000196655	ENST00000531290	retained_intron	KNOWN	None	19943	None	None	118889476	118894382	1	None	TRS23, SBDN, PTD009
11	TRAPPC4	ENSG00000196655	ENST00000359005	protein_coding	NOVEL	None	19943	546	181	118889476	118894382	1	None	TRS23, SBDN, PTD009
11	TRAPPC4	ENSG00000196655	ENST00000533058	protein_coding	PUTATIVE	None	19943	774	257	118889476	118896164	1	None	TRS23, SBDN, PTD009
11	TRAPPC4	ENSG00000196655	ENST00000525079	nonsense_mediated_decay	KNOWN	None	19943	354	117	118889500	118894104	1	None	TRS23, SBDN, PTD009
11	TRAPPC4	ENSG00000196655	ENST00000533012	nonsense_mediated_decay	KNOWN	None	19943	381	126	118889505	118894369	1	None	TRS23, SBDN, PTD009
11	TRAPPC4	ENSG00000196655	ENST00000533149	retained_intron	KNOWN	None	19943	None	None	118890102	118894381	1	None	TRS23, SBDN, PTD009
11	TRAPPC4	ENSG00000196655	ENST00000524797	retained_intron	KNOWN	None	19943	None	None	118891027	118894384	1	None	TRS23, SBDN, PTD009
11	TRAPPC4	ENSG00000196655	ENST00000526141	processed_transcript	KNOWN	None	19943	None	None	118892478	118893992	1	None	TRS23, SBDN, PTD009
10	None	ENSG00000225527	ENST00000433526	antisense	KNOWN	None	None	None	None	18820778	18822265	-1	None	None
9	None	ENSG00000212395	ENST00000391093	snoRNA	NOVEL	None	None	None	None	134658247	134658345	-1	None	None
GL000229.1	None	ENSG00000238643	ENST00000459109	miRNA	NOVEL	None	None	None	None	17285	17399	1	None	None
17	None	ENSG00000234721	ENST00000584660	lincRNA	KNOWN	None	None	None	None	71782941	71786855	1	None	None
17	None	ENSG00000234721	ENST00000455366	lincRNA	KNOWN	None	None	None	None	71782961	71796932	1	None	None
15	RN7SL354P	ENSG00000243027	ENST00000469282	misc_RNA	KNOWN	None	46370	None	None	50981097	50981388	1	None	None
16	DOK4	ENSG00000125170	ENST00000566936	protein_coding	PUTATIVE	None	19868	1098	365	57505863	57513717	-1	None	FLJ10488
16	DOK4	ENSG00000125170	ENST00000340099	protein_coding	KNOWN	CCDS10783	19868	981	326	57505870	57520407	-1	None	FLJ10488
16	DOK4	ENSG00000125170	ENST00000569548	protein_coding	KNOWN	CCDS10783	19868	981	326	57506789	57513786	-1	None	FLJ10488
16	DOK4	ENSG00000125170	ENST00000569010	protein_coding	KNOWN	None	19868	738	245	57507813	57518010	-1	None	FLJ10488
16	DOK4	ENSG00000125170	ENST00000561659	nonsense_mediated_decay	KNOWN	None	19868	180	59	57508624	57513668	-1	None	FLJ10488
16	DOK4	ENSG00000125170	ENST00000561918	processed_transcript	KNOWN	None	19868	None	None	57508802	57513706	-1	None	FLJ10488
16	DOK4	ENSG00000125170	ENST00000569250	protein_coding	KNOWN	None	19868	366	121	57509055	57513811	-1	None	FLJ10488
16	DOK4	ENSG00000125170	ENST00000564378	protein_coding	KNOWN	None	19868	348	115	57509073	57513826	-1	None	FLJ10488
16	DOK4	ENSG00000125170	ENST00000562737	protein_coding	KNOWN	None	19868	347	114	57509074	57515765	-1	None	FLJ10488
16	DOK4	ENSG00000125170	ENST00000568617	protein_coding	KNOWN	None	19868	340	112	57509081	57513784	-1	None	FLJ10488
16	DOK4	ENSG00000125170	ENST00000567276	protein_coding	KNOWN	None	19868	340	112	57509081	57513784	-1	None	FLJ10488
16	DOK4	ENSG00000125170	ENST00000566588	protein_coding	KNOWN	None	19868	339	112	57509082	57521051	-1	None	FLJ10488
16	DOK4	ENSG00000125170	ENST00000567214	protein_coding	KNOWN	None	19868	310	102	57509111	57514329	-1	None	FLJ10488
16	DOK4	ENSG00000125170	ENST00000569538	protein_coding	KNOWN	None	19868	300	99	57509121	57521234	-1	None	FLJ10488
16	DOK4	ENSG00000125170	ENST00000563483	retained_intron	KNOWN	None	19868	None	None	57509426	57510222	-1	None	FLJ10488
16	DOK4	ENSG00000125170	ENST00000566705	protein_coding	KNOWN	None	19868	236	77	57509471	57518206	-1	None	FLJ10488
16	DOK4	ENSG00000125170	ENST00000562008	protein_coding	KNOWN	None	19868	231	76	57509476	57514289	-1	None	FLJ10488
16	DOK4	ENSG00000125170	ENST00000567175	protein_coding	KNOWN	None	19868	161	52	57509775	57521239	-1	None	FLJ10488
5	None	ENSG00000197284	ENST00000502466	unprocessed_pseudogene	KNOWN	None	None	None	None	70070478	70074135	-1	None	None
14	None	ENSG00000257977	ENST00000550323	transcribed_processed_pseudogene	KNOWN	None	None	None	None	19882993	19883606	-1	None	None
8	None	ENSG00000253840	ENST00000519514	processed_pseudogene	KNOWN	None	None	None	None	55160193	55160466	1	None	None
5	CDH12P1	ENSG00000254335	ENST00000518435	unprocessed_pseudogene	KNOWN	None	37698	None	None	70156112	70156406	-1	None	None
HSCHR3_1_CTG1	NUP210P2	ENSG00000265773	ENST00000583281	unprocessed_pseudogene	KNOWN	None	42707	None	None	11943406	11944640	1	None	None
1	None	ENSG00000237973	ENST00000414273	unprocessed_pseudogene	KNOWN	None	None	None	None	566454	567996	1	None	None
6	None	ENSG00000225311	ENST00000431309	antisense	KNOWN	None	None	None	None	144632835	144654437	-1	None	None
5	None	ENSG00000254353	ENST00000520085	lincRNA	KNOWN	None	None	None	None	70328995	70330227	-1	None	None
6	None	ENSG00000219409	ENST00000402856	processed_pseudogene	KNOWN	None	None	None	None	144719095	144719888	1	None	None
10	ARL5B-AS1	ENSG00000152487	ENST00000456217	lincRNA	KNOWN	None	44882	None	None	18940195	18948196	-1	None	None
10	ARL5B-AS1	ENSG00000152487	ENST00000607346	lincRNA	KNOWN	None	44882	None	None	18942213	18948214	-1	None	None
10	ARL5B-AS1	ENSG00000152487	ENST00000449529	lincRNA	KNOWN	None	44882	None	None	18943480	18948185	-1	None	None
10	ARL5B-AS1	ENSG00000152487	ENST00000444660	lincRNA	KNOWN	None	44882	None	None	18943617	18948196	-1	None	None
10	ARL5B-AS1	ENSG00000152487	ENST00000414939	lincRNA	KNOWN	None	44882	None	None	18943793	18948167	-1	None	None
15	None	ENSG00000259773	ENST00000558317	antisense	KNOWN	None	None	None	None	51038906	51042026	1	None	None
17	MAP2K6	ENSG00000108984	ENST00000590474	protein_coding	KNOWN	CCDS11686	6846	1005	334	67410839	67539472	1	PRKMK6	MEK6, MKK6, SAPKK3, MAPKK6
17	MAP2K6	ENSG00000108984	ENST00000586641	retained_intron	KNOWN	None	6846	None	None	67410852	67517974	1	PRKMK6	MEK6, MKK6, SAPKK3, MAPKK6
17	MAP2K6	ENSG00000108984	ENST00000359094	nonsense_mediated_decay	KNOWN	None	6846	207	68	67410975	67538651	1	PRKMK6	MEK6, MKK6, SAPKK3, MAPKK6
17	MAP2K6	ENSG00000108984	ENST00000589295	protein_coding	KNOWN	None	6846	253	83	67498295	67516465	1	PRKMK6	MEK6, MKK6, SAPKK3, MAPKK6
17	MAP2K6	ENSG00000108984	ENST00000588110	protein_coding	PUTATIVE	None	6846	384	127	67498407	67516419	1	PRKMK6	MEK6, MKK6, SAPKK3, MAPKK6
17	MAP2K6	ENSG00000108984	ENST00000589647	protein_coding	KNOWN	None	6846	837	278	67498570	67538160	1	PRKMK6	MEK6, MKK6, SAPKK3, MAPKK6
17	MAP2K6	ENSG00000108984	ENST00000591445	retained_intron	KNOWN	None	6846	None	None	67501589	67517967	1	PRKMK6	MEK6, MKK6, SAPKK3, MAPKK6
17	MAP2K6	ENSG00000108984	ENST00000592348	retained_intron	KNOWN	None	6846	None	None	67532207	67538152	1	PRKMK6	MEK6, MKK6, SAPKK3, MAPKK6
13	ALG11	ENSG00000253710	ENST00000523764	protein_coding	NOVEL	None	32456	111	36	52586534	52603793	1	None	KIAA0266
13	ALG11	ENSG00000253710	ENST00000521508	protein_coding	KNOWN	CCDS31977	32456	1479	492	52586550	52603800	1	None	KIAA0266
13	ALG11	ENSG00000253710	ENST00000519151	processed_transcript	KNOWN	None	32456	None	None	52594705	52602885	1	None	KIAA0266
6	RIMS1	ENSG00000079841	ENST00000370419	retained_intron	KNOWN	None	17282	None	None	72596406	72973707	1	RAB3IP2, CORD7	RIM, KIAA0340, RIM1
6	RIMS1	ENSG00000079841	ENST00000491071	protein_coding	KNOWN	None	17282	4446	1481	72596406	73110696	1	RAB3IP2, CORD7	RIM, KIAA0340, RIM1
6	RIMS1	ENSG00000079841	ENST00000517960	protein_coding	PUTATIVE	None	17282	4428	1475	72596727	73110416	1	RAB3IP2, CORD7	RIM, KIAA0340, RIM1
6	RIMS1	ENSG00000079841	ENST00000518273	protein_coding	PUTATIVE	None	17282	4116	1371	72596727	73110416	1	RAB3IP2, CORD7	RIM, KIAA0340, RIM1
6	RIMS1	ENSG00000079841	ENST00000522291	protein_coding	PUTATIVE	None	17282	3876	1291	72596727	73110416	1	RAB3IP2, CORD7	RIM, KIAA0340, RIM1
6	RIMS1	ENSG00000079841	ENST00000521978	protein_coding	KNOWN	CCDS47449	17282	5079	1692	72596727	73110416	1	RAB3IP2, CORD7	RIM, KIAA0340, RIM1
6	RIMS1	ENSG00000079841	ENST00000520567	protein_coding	PUTATIVE	None	17282	4029	1342	72596727	73110829	1	RAB3IP2, CORD7	RIM, KIAA0340, RIM1
6	RIMS1	ENSG00000079841	ENST00000264839	protein_coding	PUTATIVE	None	17282	4626	1541	72596727	73112845	1	RAB3IP2, CORD7	RIM, KIAA0340, RIM1
6	RIMS1	ENSG00000079841	ENST00000517433	protein_coding	NOVEL	None	17282	3115	1037	72892455	73110790	1	RAB3IP2, CORD7	RIM, KIAA0340, RIM1
6	RIMS1	ENSG00000079841	ENST00000401910	protein_coding	PUTATIVE	CCDS55030	17282	3039	1012	72922514	73110607	1	RAB3IP2, CORD7	RIM, KIAA0340, RIM1
6	RIMS1	ENSG00000079841	ENST00000523963	protein_coding	PUTATIVE	CCDS55029	17282	2454	817	72922596	73110829	1	RAB3IP2, CORD7	RIM, KIAA0340, RIM1
6	RIMS1	ENSG00000079841	ENST00000425662	protein_coding	NOVEL	CCDS55032	17282	2283	760	72926145	73110592	1	RAB3IP2, CORD7	RIM, KIAA0340, RIM1
6	RIMS1	ENSG00000079841	ENST00000453976	protein_coding	NOVEL	None	17282	2260	752	72926245	73108701	1	RAB3IP2, CORD7	RIM, KIAA0340, RIM1
6	RIMS1	ENSG00000079841	ENST00000524197	retained_intron	KNOWN	None	17282	None	None	72926463	72976016	1	RAB3IP2, CORD7	RIM, KIAA0340, RIM1
6	RIMS1	ENSG00000079841	ENST00000517827	protein_coding	PUTATIVE	CCDS55031	17282	2481	826	72926463	73110571	1	RAB3IP2, CORD7	RIM, KIAA0340, RIM1
6	RIMS1	ENSG00000079841	ENST00000370420	protein_coding	NOVEL	None	17282	2223	740	72960117	73110416	1	RAB3IP2, CORD7	RIM, KIAA0340, RIM1
6	RIMS1	ENSG00000079841	ENST00000522211	protein_coding	NOVEL	None	17282	1832	609	72962494	73110869	1	RAB3IP2, CORD7	RIM, KIAA0340, RIM1
6	RIMS1	ENSG00000079841	ENST00000463023	retained_intron	KNOWN	None	17282	None	None	72970402	73110962	1	RAB3IP2, CORD7	RIM, KIAA0340, RIM1
6	RIMS1	ENSG00000079841	ENST00000431478	processed_transcript	KNOWN	None	17282	None	None	73075476	73111353	1	RAB3IP2, CORD7	RIM, KIAA0340, RIM1
6	RIMS1	ENSG00000079841	ENST00000414192	protein_coding	PUTATIVE	CCDS55033	17282	660	219	73076432	73111353	1	RAB3IP2, CORD7	RIM, KIAA0340, RIM1
6	RIMS1	ENSG00000079841	ENST00000348717	protein_coding	KNOWN	None	17282	4428	1475	72596650	73112845	1	RAB3IP2, CORD7	RIM, KIAA0340, RIM1
6	RIMS1	ENSG00000079841	ENST00000538414	protein_coding	KNOWN	None	17282	1497	498	72962494	73110869	1	RAB3IP2, CORD7	RIM, KIAA0340, RIM1
17	None	ENSG00000265927	ENST00000580370	lincRNA	KNOWN	None	None	None	None	71827711	71832158	-1	None	None
17	None	ENSG00000265927	ENST00000580776	lincRNA	KNOWN	None	None	None	None	71830906	71832118	-1	None	None
14	None	ENSG00000258437	ENST00000554967	antisense	KNOWN	None	None	None	None	91141462	91142638	1	None	None
5	None	ENSG00000230847	ENST00000445744	unprocessed_pseudogene	KNOWN	None	None	None	None	70370052	70389020	-1	None	None
8	None	ENSG00000253223	ENST00000519029	processed_pseudogene	KNOWN	None	None	None	None	67896370	67898422	-1	None	None
14	IGHVII-33-1	ENSG00000254203	ENST00000524010	IG_V_pseudogene	KNOWN	None	5678	None	None	106823315	106823594	-1	None	IGHV(II)-33-1
X	MIR892B	ENSG00000216098	ENST00000401279	miRNA	KNOWN	None	33649	None	None	145078716	145078792	-1	MIRN892B	hsa-mir-892b
15	None	ENSG00000241130	ENST00000470304	processed_pseudogene	KNOWN	None	None	None	None	51090867	51091148	1	None	None
16	None	ENSG00000260520	ENST00000569271	antisense	KNOWN	None	None	None	None	71547766	71551752	1	None	None
12	POU6F1	ENSG00000184271	ENST00000389243	protein_coding	KNOWN	CCDS31803	9224	906	301	51580719	51611477	-1	None	BRN5, MPOU, TCFB1
12	POU6F1	ENSG00000184271	ENST00000333640	protein_coding	KNOWN	CCDS31803	9224	906	301	51582944	51591950	-1	None	BRN5, MPOU, TCFB1
12	POU6F1	ENSG00000184271	ENST00000550824	protein_coding	KNOWN	CCDS31803	9224	906	301	51582945	51590818	-1	None	BRN5, MPOU, TCFB1
12	POU6F1	ENSG00000184271	ENST00000552305	processed_transcript	KNOWN	None	9224	None	None	51586173	51591811	-1	None	BRN5, MPOU, TCFB1
12	POU6F1	ENSG00000184271	ENST00000547855	protein_coding	KNOWN	None	9224	88	28	51589914	51591568	-1	None	BRN5, MPOU, TCFB1
12	POU6F1	ENSG00000184271	ENST00000549309	processed_transcript	KNOWN	None	9224	None	None	51591758	51611477	-1	None	BRN5, MPOU, TCFB1
12	POU6F1	ENSG00000184271	ENST00000546685	processed_transcript	KNOWN	None	9224	None	None	51592423	51611451	-1	None	BRN5, MPOU, TCFB1
12	POU6F1	ENSG00000184271	ENST00000548692	processed_transcript	KNOWN	None	9224	None	None	51592482	51598151	-1	None	BRN5, MPOU, TCFB1
12	POU6F1	ENSG00000184271	ENST00000547854	processed_transcript	KNOWN	None	9224	None	None	51598104	51601477	-1	None	BRN5, MPOU, TCFB1
14	LINC00516	ENSG00000215394	ENST00000551908	lincRNA	KNOWN	None	19436	None	None	19889386	19904458	1	C14orf17, LINC00516	None
14	LINC00516	ENSG00000215394	ENST00000551545	lincRNA	KNOWN	None	19436	None	None	19894369	19904572	1	C14orf17, LINC00516	None
14	LINC00516	ENSG00000215394	ENST00000549877	lincRNA	KNOWN	None	19436	None	None	19901742	19904890	1	C14orf17, LINC00516	None
3	CADPS	ENSG00000163618	ENST00000383710	protein_coding	KNOWN	CCDS46858	1426	4062	1353	62384022	62861054	-1	None	CAPS, KIAA1121, CAPS1
3	CADPS	ENSG00000163618	ENST00000486172	retained_intron	KNOWN	None	1426	None	None	62384023	62390550	-1	None	CAPS, KIAA1121, CAPS1
3	CADPS	ENSG00000163618	ENST00000473635	protein_coding	KNOWN	None	1426	1037	344	62384023	62467530	-1	None	CAPS, KIAA1121, CAPS1
3	CADPS	ENSG00000163618	ENST00000357948	protein_coding	KNOWN	CCDS2898	1426	3825	1274	62384025	62861013	-1	None	CAPS, KIAA1121, CAPS1
3	CADPS	ENSG00000163618	ENST00000474560	retained_intron	KNOWN	None	1426	None	None	62384027	62426810	-1	None	CAPS, KIAA1121, CAPS1
3	CADPS	ENSG00000163618	ENST00000283269	protein_coding	KNOWN	CCDS2899	1426	3945	1314	62384647	62860916	-1	None	CAPS, KIAA1121, CAPS1
3	CADPS	ENSG00000163618	ENST00000466621	protein_coding	NOVEL	None	1426	570	189	62388769	62463998	-1	None	CAPS, KIAA1121, CAPS1
3	CADPS	ENSG00000163618	ENST00000469292	retained_intron	KNOWN	None	1426	None	None	62451042	62452356	-1	None	CAPS, KIAA1121, CAPS1
3	CADPS	ENSG00000163618	ENST00000462768	processed_transcript	KNOWN	None	1426	None	None	62451042	62456429	-1	None	CAPS, KIAA1121, CAPS1
3	CADPS	ENSG00000163618	ENST00000478408	retained_intron	KNOWN	None	1426	None	None	62459383	62463991	-1	None	CAPS, KIAA1121, CAPS1
3	CADPS	ENSG00000163618	ENST00000478570	retained_intron	KNOWN	None	1426	None	None	62459848	62486281	-1	None	CAPS, KIAA1121, CAPS1
3	CADPS	ENSG00000163618	ENST00000463002	retained_intron	KNOWN	None	1426	None	None	62463681	62478021	-1	None	CAPS, KIAA1121, CAPS1
3	CADPS	ENSG00000163618	ENST00000491424	protein_coding	NOVEL	None	1426	933	310	62477014	62522141	-1	None	CAPS, KIAA1121, CAPS1
3	CADPS	ENSG00000163618	ENST00000468271	protein_coding	PUTATIVE	None	1426	719	238	62501789	62522256	-1	None	CAPS, KIAA1121, CAPS1
3	CADPS	ENSG00000163618	ENST00000478434	protein_coding	PUTATIVE	None	1426	535	177	62518594	62536564	-1	None	CAPS, KIAA1121, CAPS1
3	CADPS	ENSG00000163618	ENST00000542833	protein_coding	NOVEL	None	1426	637	211	62518697	62570921	-1	None	CAPS, KIAA1121, CAPS1
3	CADPS	ENSG00000163618	ENST00000490424	retained_intron	KNOWN	None	1426	None	None	62521691	62535789	-1	None	CAPS, KIAA1121, CAPS1
3	CADPS	ENSG00000163618	ENST00000490353	protein_coding	NOVEL	None	1426	1374	457	62610905	62860704	-1	None	CAPS, KIAA1121, CAPS1
8	None	ENSG00000266491	ENST00000578628	miRNA	NOVEL	None	None	None	None	67971141	67971238	1	None	None
14	IGHV3-33-2	ENSG00000253440	ENST00000517703	IG_V_pseudogene	KNOWN	None	5597	None	None	106825038	106825477	-1	None	None
1	None	ENSG00000229344	ENST00000427426	unprocessed_pseudogene	KNOWN	None	None	None	None	568137	568818	1	None	None
17	None	ENSG00000265785	ENST00000580052	processed_transcript	PUTATIVE	None	None	None	None	18330504	18379234	1	None	None
15	MIR1233-2	ENSG00000221065	ENST00000408138	miRNA	KNOWN	None	38277	None	None	34820491	34820572	-1	None	hsa-mir-1233-2
8	RNA5SP268	ENSG00000252637	ENST00000516828	rRNA	KNOWN	None	43168	None	None	68011537	68011660	1	RN5S268	None
20	BLCAP	ENSG00000166619	ENST00000467603	processed_transcript	KNOWN	None	1055	None	None	36130816	36156264	-1	None	BC10
20	BLCAP	ENSG00000166619	ENST00000397137	protein_coding	KNOWN	CCDS13295	1055	264	87	36145819	36156134	-1	None	BC10
20	BLCAP	ENSG00000166619	ENST00000373537	protein_coding	KNOWN	CCDS13295	1055	264	87	36145819	36156333	-1	None	BC10
20	BLCAP	ENSG00000166619	ENST00000397135	protein_coding	KNOWN	CCDS13295	1055	264	87	36147218	36156125	-1	None	BC10
20	BLCAP	ENSG00000166619	ENST00000397134	protein_coding	KNOWN	CCDS13295	1055	264	87	36147255	36148705	-1	None	BC10
20	BLCAP	ENSG00000166619	ENST00000397131	protein_coding	KNOWN	CCDS13295	1055	264	87	36147295	36152953	-1	None	BC10
20	BLCAP	ENSG00000166619	ENST00000432507	protein_coding	KNOWN	None	1055	263	86	36147314	36148991	-1	None	BC10
20	BLCAP	ENSG00000166619	ENST00000445723	protein_coding	KNOWN	None	1055	235	77	36147342	36156280	-1	None	BC10
20	BLCAP	ENSG00000166619	ENST00000414080	protein_coding	KNOWN	None	1055	186	61	36147391	36156280	-1	None	BC10
20	BLCAP	ENSG00000166619	ENST00000456058	protein_coding	KNOWN	None	1055	21	6	36147556	36150095	-1	None	BC10
20	BLCAP	ENSG00000166619	ENST00000414542	protein_coding	KNOWN	CCDS13295	1055	264	87	36145820	36156333	-1	None	BC10
7	RUNDC3B	ENSG00000105784	ENST00000466676	processed_transcript	KNOWN	None	30286	None	None	87256864	87370853	1	None	RPIP9, RPIB9
7	RUNDC3B	ENSG00000105784	ENST00000497788	processed_transcript	KNOWN	None	30286	None	None	87256988	87329866	1	None	RPIP9, RPIB9
7	RUNDC3B	ENSG00000105784	ENST00000338056	protein_coding	KNOWN	CCDS5609	30286	1422	473	87257729	87461611	1	None	RPIP9, RPIB9
7	RUNDC3B	ENSG00000105784	ENST00000476114	retained_intron	KNOWN	None	30286	None	None	87257766	87329888	1	None	RPIP9, RPIB9
7	RUNDC3B	ENSG00000105784	ENST00000493037	protein_coding	KNOWN	CCDS47636	30286	1224	407	87257770	87459771	1	None	RPIP9, RPIB9
7	RUNDC3B	ENSG00000105784	ENST00000394654	protein_coding	KNOWN	CCDS47635	30286	1371	456	87257931	87459829	1	None	RPIP9, RPIB9
7	RUNDC3B	ENSG00000105784	ENST00000489461	processed_transcript	KNOWN	None	30286	None	None	87258546	87370892	1	None	RPIP9, RPIB9
7	RUNDC3B	ENSG00000105784	ENST00000312373	retained_intron	KNOWN	None	30286	None	None	87329732	87461608	1	None	RPIP9, RPIB9
7	RUNDC3B	ENSG00000105784	ENST00000496000	processed_transcript	KNOWN	None	30286	None	None	87338566	87399973	1	None	RPIP9, RPIB9
17	None	ENSG00000266765	ENST00000581911	lincRNA	KNOWN	None	None	None	None	71890888	71908017	-1	None	None
16	None	ENSG00000262588	ENST00000572693	3prime_overlapping_ncrna	KNOWN	None	None	None	None	71570489	71571821	1	None	None
14	None	ENSG00000258716	ENST00000553712	antisense	KNOWN	None	None	None	None	91163677	91165718	1	None	None
7	CNTNAP2	ENSG00000174469	ENST00000361727	protein_coding	KNOWN	CCDS5889	13830	3996	1331	145813453	148118090	1	None	Caspr2, KIAA0868, NRXN4
7	CNTNAP2	ENSG00000174469	ENST00000455301	protein_coding	PUTATIVE	None	13830	556	184	147335901	147675081	1	None	Caspr2, KIAA0868, NRXN4
7	CNTNAP2	ENSG00000174469	ENST00000602734	processed_transcript	KNOWN	None	13830	None	None	148036564	148113776	1	None	Caspr2, KIAA0868, NRXN4
7	CNTNAP2	ENSG00000174469	ENST00000463592	processed_transcript	KNOWN	None	13830	None	None	148036564	148118090	1	None	Caspr2, KIAA0868, NRXN4
7	CNTNAP2	ENSG00000174469	ENST00000538075	protein_coding	KNOWN	None	13830	1173	390	147830776	148113032	1	None	Caspr2, KIAA0868, NRXN4
2	MAP4K3	ENSG00000011566	ENST00000263881	protein_coding	KNOWN	CCDS1803	6865	2685	894	39476407	39664453	-1	RAB8IPL1	GLK, MAPKKKK3
2	MAP4K3	ENSG00000011566	ENST00000437545	protein_coding	PUTATIVE	None	6865	2433	810	39476419	39606950	-1	RAB8IPL1	GLK, MAPKKKK3
2	MAP4K3	ENSG00000011566	ENST00000341681	protein_coding	KNOWN	CCDS58707	6865	2622	873	39476424	39664442	-1	RAB8IPL1	GLK, MAPKKKK3
2	MAP4K3	ENSG00000011566	ENST00000479708	retained_intron	KNOWN	None	6865	None	None	39485664	39488258	-1	RAB8IPL1	GLK, MAPKKKK3
2	MAP4K3	ENSG00000011566	ENST00000475457	retained_intron	KNOWN	None	6865	None	None	39487832	39494566	-1	RAB8IPL1	GLK, MAPKKKK3
2	MAP4K3	ENSG00000011566	ENST00000495648	retained_intron	KNOWN	None	6865	None	None	39499052	39499686	-1	RAB8IPL1	GLK, MAPKKKK3
2	MAP4K3	ENSG00000011566	ENST00000497566	retained_intron	KNOWN	None	6865	None	None	39515356	39542658	-1	RAB8IPL1	GLK, MAPKKKK3
2	MAP4K3	ENSG00000011566	ENST00000474502	processed_transcript	KNOWN	None	6865	None	None	39517469	39521438	-1	RAB8IPL1	GLK, MAPKKKK3
2	MAP4K3	ENSG00000011566	ENST00000465701	retained_intron	KNOWN	None	6865	None	None	39517471	39526986	-1	RAB8IPL1	GLK, MAPKKKK3
2	MAP4K3	ENSG00000011566	ENST00000414968	nonsense_mediated_decay	KNOWN	None	6865	432	143	39520384	39553074	-1	RAB8IPL1	GLK, MAPKKKK3
2	MAP4K3	ENSG00000011566	ENST00000429397	nonsense_mediated_decay	KNOWN	None	6865	396	131	39552929	39664288	-1	RAB8IPL1	GLK, MAPKKKK3
2	MAP4K3	ENSG00000011566	ENST00000437968	nonsense_mediated_decay	KNOWN	None	6865	135	44	39564716	39664369	-1	RAB8IPL1	GLK, MAPKKKK3
2	MAP4K3	ENSG00000011566	ENST00000484274	retained_intron	KNOWN	None	6865	None	None	39583306	39664206	-1	RAB8IPL1	GLK, MAPKKKK3
2	MAP4K3	ENSG00000011566	ENST00000536018	protein_coding	KNOWN	None	6865	1344	447	39477234	39553074	-1	RAB8IPL1	GLK, MAPKKKK3
8	None	ENSG00000250869	ENST00000508335	processed_pseudogene	KNOWN	None	None	None	None	68045789	68048146	-1	None	None
1	SLC35E2B	ENSG00000189339	ENST00000378662	protein_coding	KNOWN	CCDS44041	33941	1218	405	1592939	1624083	-1	None	None
1	SLC35E2B	ENSG00000189339	ENST00000234800	protein_coding	KNOWN	CCDS44041	33941	1218	405	1592940	1624167	-1	None	None
1	SLC35E2B	ENSG00000189339	ENST00000480991	retained_intron	KNOWN	None	33941	None	None	1595221	1601578	-1	None	None
1	SLC35E2B	ENSG00000189339	ENST00000481276	retained_intron	KNOWN	None	33941	None	None	1601864	1624148	-1	None	None
14	MIR5586	ENSG00000263629	ENST00000582927	miRNA	KNOWN	None	43493	None	None	60113680	60113738	-1	None	hsa-mir-5586
16	None	ENSG00000260015	ENST00000568523	sense_intronic	KNOWN	None	None	None	None	71573737	71575728	-1	None	None
HSCHR6_MHC_COX	MICG	ENSG00000229995	ENST00000425269	processed_pseudogene	KNOWN	None	16802	None	None	29774037	29774168	-1	None	None
5	None	ENSG00000254192	ENST00000520041	antisense	KNOWN	None	None	None	None	168081518	168094766	1	None	None
14	IGHV7-34-1	ENSG00000253325	ENST00000519200	IG_V_pseudogene	KNOWN	None	5664	None	None	106833231	106833664	-1	None	None
HSCHR3_1_CTG2_1	AADACL2	ENSG00000261846	ENST00000576369	nonsense_mediated_decay	KNOWN	None	24427	162	53	151462242	151489665	1	None	MGC72001
HSCHR3_1_CTG2_1	AADACL2	ENSG00000261846	ENST00000570799	protein_coding	KNOWN	None	24427	1206	401	151462253	151486092	1	None	MGC72001
15	None	ENSG00000259892	ENST00000565286	unprocessed_pseudogene	KNOWN	None	None	None	None	34848071	34849021	1	None	None
17	None	ENSG00000266357	ENST00000581028	lincRNA	KNOWN	None	None	None	None	72039591	72109038	-1	None	None
17	None	ENSG00000266357	ENST00000584003	lincRNA	KNOWN	None	None	None	None	72060496	72150351	-1	None	None
HSCHR6_MHC_COX	HCG4P8	ENSG00000234681	ENST00000445011	unprocessed_pseudogene	KNOWN	None	22927	None	None	29788849	29789829	-1	None	HCGIV-08, HCGIV.7, HCGIV-8
8	RNU105C	ENSG00000199212	ENST00000362342	snoRNA	KNOWN	None	10104	None	None	55243247	55243455	1	None	E1-5, E1-6, U105C
16	RNU6-1061P	ENSG00000252339	ENST00000516530	snRNA	KNOWN	None	48024	None	None	71597333	71597431	-1	None	None
16	None	ENSG00000260886	ENST00000561529	antisense	KNOWN	None	None	None	None	71599692	71612090	1	None	None
8	RN7SL250P	ENSG00000244107	ENST00000475154	misc_RNA	KNOWN	None	46266	None	None	55333028	55333338	1	None	None
HSCHR6_MHC_COX	MICF	ENSG00000224118	ENST00000440129	unprocessed_pseudogene	KNOWN	None	16801	None	None	29817322	29817471	-1	None	None
5	None	ENSG00000238451	ENST00000458747	snoRNA	NOVEL	None	None	None	None	70384459	70384562	1	None	None
15	None	ENSG00000260409	ENST00000564214	lincRNA	KNOWN	None	None	None	None	20935076	20961512	-1	None	None
X	MIR891B	ENSG00000216064	ENST00000401245	miRNA	KNOWN	None	33645	None	None	145082571	145082649	-1	MIRN891B	hsa-mir-891b
5	None	ENSG00000254042	ENST00000522615	antisense	KNOWN	None	None	None	None	168133572	168147889	1	None	None
5	None	ENSG00000254042	ENST00000521870	antisense	KNOWN	None	None	None	None	168133932	168137086	1	None	None
HSCHR6_MHC_COX	HCG4P7	ENSG00000226152	ENST00000427251	unprocessed_pseudogene	KNOWN	None	22926	None	None	29846611	29847577	-1	None	HCGIV-07, HCGIV.C, HCGIV-7
15	DCAF13P3	ENSG00000259378	ENST00000561147	processed_pseudogene	KNOWN	None	43868	None	None	51236860	51238193	1	None	None
17	KRT16P1	ENSG00000214856	ENST00000581027	processed_transcript	KNOWN	None	6420	None	None	18335365	18345183	1	KRT14P	None
17	KRT16P1	ENSG00000214856	ENST00000584962	retained_intron	KNOWN	None	6420	None	None	18343219	18346206	1	KRT14P	None
17	KRT16P1	ENSG00000214856	ENST00000581210	processed_transcript	KNOWN	None	6420	None	None	18343220	18344334	1	KRT14P	None
17	KRT16P1	ENSG00000214856	ENST00000584135	processed_transcript	KNOWN	None	6420	None	None	18343222	18344613	1	KRT14P	None
17	KRT16P1	ENSG00000214856	ENST00000399124	transcribed_unprocessed_pseudogene	KNOWN	None	6420	None	None	18343299	18346048	1	KRT14P	None
17	KRT16P1	ENSG00000214856	ENST00000577750	retained_intron	KNOWN	None	6420	None	None	18345437	18346209	1	KRT14P	None
17	KRT16P1	ENSG00000214856	ENST00000411877	unprocessed_pseudogene	KNOWN	None	6420	None	None	18343224	18344641	1	KRT14P	None
5	None	ENSG00000251634	ENST00000512908	unprocessed_pseudogene	KNOWN	None	None	None	None	70398725	70424580	-1	None	None
14	IGHV3-36	ENSG00000253240	ENST00000520848	IG_V_pseudogene	KNOWN	None	5599	None	None	106848685	106849142	-1	None	None
15	RNU6-498P	ENSG00000238478	ENST00000459468	snRNA	KNOWN	None	47461	None	None	20944008	20944114	1	None	None
14	None	ENSG00000261120	ENST00000565968	antisense	KNOWN	None	None	None	None	60386141	60387057	-1	None	None
16	None	ENSG00000260593	ENST00000562763	antisense	KNOWN	None	None	None	None	71657611	71660719	-1	None	None
11	None	ENSG00000255947	ENST00000542121	lincRNA	KNOWN	None	None	None	None	61422137	61423174	-1	None	None
14	None	ENSG00000257931	ENST00000547577	lincRNA	KNOWN	None	None	None	None	19932012	19963645	-1	None	None
14	None	ENSG00000257931	ENST00000550892	lincRNA	KNOWN	None	None	None	None	19932156	19933365	-1	None	None
14	None	ENSG00000257931	ENST00000547399	lincRNA	KNOWN	None	None	None	None	19935898	19972292	-1	None	None
15	None	ENSG00000259785	ENST00000566355	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	82590891	82626963	1	None	None
15	None	ENSG00000259785	ENST00000563256	processed_transcript	KNOWN	None	None	None	None	82591001	82598152	1	None	None
15	None	ENSG00000259785	ENST00000566781	processed_transcript	KNOWN	None	None	None	None	82591194	82597197	1	None	None
15	None	ENSG00000259785	ENST00000438558	processed_pseudogene	KNOWN	None	None	None	None	82620233	82620571	1	None	None
14	None	ENSG00000213315	ENST00000472287	processed_pseudogene	KNOWN	None	None	None	None	91232875	91233333	1	None	None
14	None	ENSG00000213315	ENST00000393407	processed_pseudogene	KNOWN	None	None	None	None	91232917	91233333	1	None	None
1	MTATP8P1	ENSG00000240409	ENST00000467115	unprocessed_pseudogene	KNOWN	None	44571	None	None	568915	569121	1	None	None
15	None	ENSG00000261543	ENST00000561647	antisense	KNOWN	None	None	None	None	74445141	74471567	-1	None	None
11	KCNA4	ENSG00000182255	ENST00000328224	protein_coding	KNOWN	CCDS41629	6222	1962	653	30031288	30038570	-1	KCNA4L	Kv1.4, HK1, HPCN2
11	KCNA4	ENSG00000182255	ENST00000526518	processed_transcript	PUTATIVE	None	6222	None	None	30034486	30037906	-1	KCNA4L	Kv1.4, HK1, HPCN2
12	None	ENSG00000256849	ENST00000414406	processed_pseudogene	KNOWN	None	None	None	None	20094455	20095952	1	None	None
8	None	ENSG00000270275	ENST00000603133	processed_pseudogene	KNOWN	None	None	None	None	55392157	55392523	-1	None	None
19	OR4F17	ENSG00000176695	ENST00000585993	protein_coding	KNOWN	CCDS32854	15381	918	305	107471	111696	1	OR4F19, OR4F11P, OR4F18	None
19	OR4F17	ENSG00000176695	ENST00000318050	protein_coding	KNOWN	CCDS32854	15381	918	305	110679	111596	1	OR4F19, OR4F11P, OR4F18	None
7	RN7SL13P	ENSG00000239610	ENST00000486009	misc_RNA	KNOWN	None	46029	None	None	97653041	97653288	1	None	None
14	None	ENSG00000258884	ENST00000555975	lincRNA	KNOWN	None	None	None	None	91288709	91294472	-1	None	None
6	C6orf201	ENSG00000185689	ENST00000380175	protein_coding	KNOWN	CCDS43419	21620	423	140	4079443	4131185	1	None	dJ1013A10.5
6	C6orf201	ENSG00000185689	ENST00000427996	nonsense_mediated_decay	KNOWN	None	21620	396	131	4079451	4130999	1	None	dJ1013A10.5
6	C6orf201	ENSG00000185689	ENST00000483580	processed_transcript	KNOWN	None	21620	None	None	4087631	4101595	1	None	dJ1013A10.5
6	C6orf201	ENSG00000185689	ENST00000451679	nonsense_mediated_decay	KNOWN	None	21620	417	138	4087658	4130516	1	None	dJ1013A10.5
6	C6orf201	ENSG00000185689	ENST00000360378	processed_transcript	KNOWN	None	21620	None	None	4087673	4115804	1	None	dJ1013A10.5
6	C6orf201	ENSG00000185689	ENST00000436110	nonsense_mediated_decay	KNOWN	None	21620	348	115	4087673	4130992	1	None	dJ1013A10.5
6	C6orf201	ENSG00000185689	ENST00000496987	processed_transcript	KNOWN	None	21620	None	None	4122166	4130569	1	None	dJ1013A10.5
6	C6orf201	ENSG00000185689	ENST00000333388	protein_coding	KNOWN	None	21620	432	143	4079440	4130998	1	None	dJ1013A10.5
6	C6orf201	ENSG00000185689	ENST00000430835	protein_coding	KNOWN	None	21620	387	128	4087673	4125640	1	None	dJ1013A10.5
7	RPS3AP26	ENSG00000214389	ENST00000398259	processed_pseudogene	KNOWN	None	36513	None	None	98015113	98015896	-1	None	None
7	None	ENSG00000213455	ENST00000452411	processed_pseudogene	KNOWN	None	None	None	None	98083431	98083929	-1	None	None
6	TCF21	ENSG00000118526	ENST00000367882	protein_coding	KNOWN	CCDS5167	11632	540	179	134210276	134216691	1	None	POD1, bHLHa23
6	TCF21	ENSG00000118526	ENST00000237316	protein_coding	KNOWN	CCDS5167	11632	540	179	134210473	134216691	1	None	POD1, bHLHa23
15	PRC1-AS1	ENSG00000258725	ENST00000556200	antisense	KNOWN	None	48587	None	None	91509575	91516336	1	None	None
15	PRC1-AS1	ENSG00000258725	ENST00000554388	antisense	KNOWN	None	48587	None	None	91509602	91531854	1	None	None
8	None	ENSG00000226098	ENST00000518383	processed_pseudogene	KNOWN	None	None	None	None	55435359	55435857	-1	None	None
8	None	ENSG00000226098	ENST00000413112	processed_pseudogene	KNOWN	None	None	None	None	55435339	55435875	-1	None	None
1	MTATP6P1	ENSG00000248527	ENST00000514057	unprocessed_pseudogene	KNOWN	None	44575	None	None	569076	569756	1	None	None
16	CD2BP2	ENSG00000169217	ENST00000305596	protein_coding	KNOWN	CCDS10675	1656	1026	341	30362087	30366682	-1	None	LIN1, Snu40, PPP1R59
16	CD2BP2	ENSG00000169217	ENST00000569466	protein_coding	KNOWN	CCDS10675	1656	1026	341	30364168	30366255	-1	None	LIN1, Snu40, PPP1R59
16	CD2BP2	ENSG00000169217	ENST00000564525	retained_intron	KNOWN	None	1656	None	None	30365287	30366612	-1	None	LIN1, Snu40, PPP1R59
2	TMEM214	ENSG00000119777	ENST00000495312	retained_intron	KNOWN	None	25983	None	None	27255778	27258349	1	None	FLJ20254
2	TMEM214	ENSG00000119777	ENST00000321326	nonsense_mediated_decay	KNOWN	CCDS42664	25983	2070	689	27255822	27264562	1	None	FLJ20254
2	TMEM214	ENSG00000119777	ENST00000238788	protein_coding	KNOWN	CCDS42664	25983	2070	689	27255822	27264563	1	None	FLJ20254
2	TMEM214	ENSG00000119777	ENST00000404032	protein_coding	KNOWN	CCDS46242	25983	1935	644	27255845	27264561	1	None	FLJ20254
2	TMEM214	ENSG00000119777	ENST00000478980	retained_intron	KNOWN	None	25983	None	None	27256006	27257477	1	None	FLJ20254
2	TMEM214	ENSG00000119777	ENST00000435172	nonsense_mediated_decay	KNOWN	None	25983	678	225	27258138	27263284	1	None	FLJ20254
2	TMEM214	ENSG00000119777	ENST00000475258	retained_intron	KNOWN	None	25983	None	None	27258388	27260532	1	None	FLJ20254
2	TMEM214	ENSG00000119777	ENST00000425720	protein_coding	PUTATIVE	None	25983	740	245	27259359	27261662	1	None	FLJ20254
2	TMEM214	ENSG00000119777	ENST00000460904	retained_intron	KNOWN	None	25983	None	None	27259394	27260683	1	None	FLJ20254
2	TMEM214	ENSG00000119777	ENST00000444135	protein_coding	PUTATIVE	None	25983	919	305	27260743	27263360	1	None	FLJ20254
2	TMEM214	ENSG00000119777	ENST00000434544	nonsense_mediated_decay	KNOWN	None	25983	421	139	27261578	27263867	1	None	FLJ20254
2	TMEM214	ENSG00000119777	ENST00000460665	retained_intron	KNOWN	None	25983	None	None	27262229	27264555	1	None	FLJ20254
2	TMEM214	ENSG00000119777	ENST00000469445	retained_intron	KNOWN	None	25983	None	None	27262788	27263901	1	None	FLJ20254
7	None	ENSG00000223402	ENST00000441836	processed_pseudogene	KNOWN	None	None	None	None	98107863	98108537	-1	None	None
15	None	ENSG00000259383	ENST00000559621	lincRNA	KNOWN	None	None	None	None	20964640	20980123	-1	None	None
10	MIR5100	ENSG00000263795	ENST00000579544	miRNA	KNOWN	None	43540	None	None	43493011	43493129	1	None	hsa-mir-5100
X	MIR891A	ENSG00000216056	ENST00000401237	miRNA	KNOWN	None	33635	None	None	145109312	145109390	-1	MIRN891A	hsa-mir-891a
7	RNU6-393P	ENSG00000207204	ENST00000384475	snRNA	KNOWN	None	47356	None	None	98392341	98392447	-1	None	None
11	None	ENSG00000124915	ENST00000536405	lincRNA	KNOWN	None	None	None	None	61513965	61525121	-1	None	None
11	None	ENSG00000124915	ENST00000541891	lincRNA	KNOWN	None	None	None	None	61514397	61516165	-1	None	None
11	None	ENSG00000124915	ENST00000244906	lincRNA	KNOWN	None	None	None	None	61521501	61525127	-1	None	None
15	None	ENSG00000259443	ENST00000560839	lincRNA	KNOWN	None	None	None	None	20978413	20980200	1	None	None
13	UTP14C	ENSG00000253797	ENST00000521776	protein_coding	KNOWN	CCDS31978	20321	2301	766	52598827	52607736	1	KIAA0266	2700066J21Rik
7	MIR3609	ENSG00000266019	ENST00000582661	miRNA	KNOWN	None	38956	None	None	98479273	98479352	1	None	hsa-mir-3609
15	None	ENSG00000252425	ENST00000516616	snoRNA	NOVEL	None	None	None	None	34889659	34889759	-1	None	None
4	NAA11	ENSG00000156269	ENST00000511542	nonsense_mediated_decay	KNOWN	None	28125	336	111	80146848	80246677	-1	ARD1B	ARD2, hARD2
4	NAA11	ENSG00000156269	ENST00000513733	processed_transcript	KNOWN	None	28125	None	None	80147134	80246622	-1	ARD1B	ARD2, hARD2
4	NAA11	ENSG00000156269	ENST00000286794	protein_coding	KNOWN	CCDS47084	28125	690	229	80237807	80247204	-1	ARD1B	ARD2, hARD2
14	METTL3	ENSG00000165819	ENST00000539760	nonsense_mediated_decay	KNOWN	None	17563	1009	335	21966277	21971972	-1	None	Spo8, M6A, MT-A70
14	METTL3	ENSG00000165819	ENST00000298717	protein_coding	KNOWN	CCDS32044	17563	1743	580	21966282	21979517	-1	None	Spo8, M6A, MT-A70
14	METTL3	ENSG00000165819	ENST00000544500	retained_intron	KNOWN	None	17563	None	None	21966290	21971972	-1	None	Spo8, M6A, MT-A70
14	METTL3	ENSG00000165819	ENST00000396522	retained_intron	KNOWN	None	17563	None	None	21966290	21973085	-1	None	Spo8, M6A, MT-A70
14	METTL3	ENSG00000165819	ENST00000537163	nonsense_mediated_decay	KNOWN	None	17563	462	153	21966306	21979482	-1	None	Spo8, M6A, MT-A70
14	METTL3	ENSG00000165819	ENST00000543235	nonsense_mediated_decay	KNOWN	None	17563	777	258	21966317	21979452	-1	None	Spo8, M6A, MT-A70
14	METTL3	ENSG00000165819	ENST00000544248	nonsense_mediated_decay	KNOWN	None	17563	738	245	21967169	21979480	-1	None	Spo8, M6A, MT-A70
14	METTL3	ENSG00000165819	ENST00000536201	retained_intron	KNOWN	None	17563	None	None	21969294	21979482	-1	None	Spo8, M6A, MT-A70
14	METTL3	ENSG00000165819	ENST00000542054	retained_intron	KNOWN	None	17563	None	None	21969832	21979482	-1	None	Spo8, M6A, MT-A70
14	METTL3	ENSG00000165819	ENST00000539910	retained_intron	KNOWN	None	17563	None	None	21970520	21979401	-1	None	Spo8, M6A, MT-A70
14	METTL3	ENSG00000165819	ENST00000377543	protein_coding	PUTATIVE	None	17563	27	8	21971547	21977696	-1	None	Spo8, M6A, MT-A70
14	METTL3	ENSG00000165819	ENST00000367606	processed_transcript	PUTATIVE	None	17563	None	None	21976035	21979482	-1	None	Spo8, M6A, MT-A70
14	METTL3	ENSG00000165819	ENST00000545319	processed_transcript	PUTATIVE	None	17563	None	None	21978710	21979482	-1	None	Spo8, M6A, MT-A70
14	METTL3	ENSG00000165819	ENST00000545788	processed_transcript	KNOWN	None	17563	None	None	21978797	21979484	-1	None	Spo8, M6A, MT-A70
14	METTL3	ENSG00000165819	ENST00000538267	protein_coding	KNOWN	None	17563	462	153	21969149	21979482	-1	None	Spo8, M6A, MT-A70
6	None	ENSG00000219384	ENST00000405824	processed_pseudogene	KNOWN	None	None	None	None	45126607	45127248	1	None	None
10	CPEB3	ENSG00000107864	ENST00000412050	protein_coding	KNOWN	CCDS53553	21746	2055	684	93806449	94003003	-1	None	KIAA0940
10	CPEB3	ENSG00000107864	ENST00000265997	protein_coding	KNOWN	CCDS31246	21746	2097	698	93809388	94050844	-1	None	KIAA0940
GL000220.1	None	ENSG00000244180	ENST00000488948	miRNA	NOVEL	None	None	None	None	107448	107561	1	None	None
10	None	ENSG00000224265	ENST00000451438	lincRNA	KNOWN	None	None	None	None	43819113	43823380	1	None	None
13	PARP1P1	ENSG00000227105	ENST00000413631	processed_pseudogene	KNOWN	None	275	None	None	111589106	111592131	1	PPOLP1, ADPRTP1	None
7	None	ENSG00000238459	ENST00000459139	snoRNA	NOVEL	None	None	None	None	98482613	98482713	-1	None	None
14	None	ENSG00000258553	ENST00000555432	antisense	KNOWN	None	None	None	None	60435834	60524369	-1	None	None
14	None	ENSG00000258553	ENST00000554123	antisense	KNOWN	None	None	None	None	60435834	60558501	-1	None	None
7	None	ENSG00000238109	ENST00000442161	processed_pseudogene	KNOWN	None	None	None	None	98596161	98597553	-1	None	None
15	None	ENSG00000258420	ENST00000556676	processed_pseudogene	KNOWN	None	None	None	None	20980793	20981327	-1	None	None
6	MIR586	ENSG00000207769	ENST00000385035	miRNA	KNOWN	None	32842	None	None	45165411	45165507	-1	MIRN586	hsa-mir-586
HSCHR17_5_CTG4	KRTAP9-4	ENSG00000262512	ENST00000575341	protein_coding	KNOWN	None	18902	465	154	39405871	39406837	1	None	KAP9.4
15	None	ENSG00000259240	ENST00000559909	lincRNA	KNOWN	None	None	None	None	51329685	51586109	1	None	None
12	PIK3C2G	ENSG00000139144	ENST00000535651	protein_coding	PUTATIVE	None	8973	1752	583	18400548	18516022	1	None	None
12	PIK3C2G	ENSG00000139144	ENST00000546003	nonsense_mediated_decay	KNOWN	None	8973	696	231	18434978	18801029	1	None	None
12	PIK3C2G	ENSG00000139144	ENST00000266497	protein_coding	KNOWN	CCDS44839	8973	4338	1445	18434978	18801340	1	None	None
12	PIK3C2G	ENSG00000139144	ENST00000536967	processed_transcript	KNOWN	None	8973	None	None	18435641	18467572	1	None	None
12	PIK3C2G	ENSG00000139144	ENST00000538458	processed_transcript	PUTATIVE	None	8973	None	None	18524115	18525649	1	None	None
12	PIK3C2G	ENSG00000139144	ENST00000433979	protein_coding	KNOWN	CCDS44839	8973	4338	1445	18414474	18801348	1	None	None
12	PIK3C2G	ENSG00000139144	ENST00000538779	protein_coding	KNOWN	None	8973	4461	1486	18434978	18801029	1	None	None
14	None	ENSG00000258363	ENST00000550321	processed_pseudogene	KNOWN	None	None	None	None	19959517	19961162	1	None	None
7	PHF14	ENSG00000106443	ENST00000521747	nonsense_mediated_decay	KNOWN	None	22203	129	42	11013499	11142273	1	None	KIAA0783
7	PHF14	ENSG00000106443	ENST00000403050	protein_coding	KNOWN	CCDS47542	22203	2667	888	11013499	11143282	1	None	KIAA0783
7	PHF14	ENSG00000106443	ENST00000476009	processed_transcript	KNOWN	None	22203	None	None	11013516	11068387	1	None	KIAA0783
7	PHF14	ENSG00000106443	ENST00000423760	nonsense_mediated_decay	KNOWN	None	22203	129	42	11013516	11209250	1	None	KIAA0783
7	PHF14	ENSG00000106443	ENST00000490957	retained_intron	KNOWN	None	22203	None	None	11013534	11102699	1	None	KIAA0783
7	PHF14	ENSG00000106443	ENST00000476774	processed_transcript	PUTATIVE	None	22203	None	None	11053448	11054846	1	None	KIAA0783
7	PHF14	ENSG00000106443	ENST00000497851	retained_intron	KNOWN	None	22203	None	None	11075212	11076460	1	None	KIAA0783
7	PHF14	ENSG00000106443	ENST00000481418	processed_transcript	KNOWN	None	22203	None	None	11082307	11143309	1	None	KIAA0783
7	PHF14	ENSG00000106443	ENST00000470665	retained_intron	KNOWN	None	22203	None	None	11100912	11209250	1	None	KIAA0783
7	PHF14	ENSG00000106443	ENST00000498784	retained_intron	KNOWN	None	22203	None	None	11101377	11102216	1	None	KIAA0783
7	PHF14	ENSG00000106443	ENST00000489305	retained_intron	KNOWN	None	22203	None	None	11101443	11102620	1	None	KIAA0783
7	PHF14	ENSG00000106443	ENST00000493922	processed_transcript	KNOWN	None	22203	None	None	11148188	11209250	1	None	KIAA0783
7	PHF14	ENSG00000106443	ENST00000469407	processed_transcript	KNOWN	None	22203	None	None	11148514	11209250	1	None	KIAA0783
7	PHF14	ENSG00000106443	ENST00000473050	retained_intron	KNOWN	None	22203	None	None	11150608	11209250	1	None	KIAA0783
7	PHF14	ENSG00000106443	ENST00000445996	protein_coding	KNOWN	None	22203	1992	663	11013499	11209117	1	None	KIAA0783
6	None	ENSG00000271857	ENST00000606796	antisense	KNOWN	None	None	None	None	45388816	45389742	-1	None	None
14	RNU7-30P	ENSG00000252644	ENST00000516835	snRNA	KNOWN	None	34126	None	None	91557421	91557482	1	None	U7.30
1	None	ENSG00000198744	ENST00000416718	unprocessed_pseudogene	KNOWN	None	None	None	None	569756	570302	1	None	None
8	None	ENSG00000254859	ENST00000530600	antisense	KNOWN	None	None	None	None	144624143	144631899	-1	None	None
HSCHR6_MHC_COX	HLA-H	ENSG00000226893	ENST00000442199	unprocessed_pseudogene	KNOWN	None	4965	None	None	29847067	29849789	1	None	None
7	None	ENSG00000242687	ENST00000360902	antisense	KNOWN	None	None	None	None	98610788	98634100	1	None	None
7	None	ENSG00000242687	ENST00000468960	antisense	KNOWN	None	None	None	None	98630550	98645710	1	None	None
7	None	ENSG00000242687	ENST00000482799	antisense	KNOWN	None	None	None	None	98643206	98645863	1	None	None
4	None	ENSG00000251600	ENST00000509873	lincRNA	KNOWN	None	None	None	None	144833484	144903607	1	None	None
4	None	ENSG00000251600	ENST00000510536	lincRNA	KNOWN	None	None	None	None	144859020	144903069	1	None	None
4	None	ENSG00000251600	ENST00000505000	lincRNA	KNOWN	None	None	None	None	144898385	144903069	1	None	None
15	None	ENSG00000261304	ENST00000565706	lincRNA	KNOWN	None	None	None	None	34943336	34947965	-1	None	None
10	RNU6ATAC11P	ENSG00000221468	ENST00000408541	snRNA	KNOWN	None	46910	None	None	43837234	43837358	1	None	None
15	None	ENSG00000259204	ENST00000558938	sense_intronic	KNOWN	None	None	None	None	51356806	51361783	-1	None	None
6	None	ENSG00000261080	ENST00000563807	lincRNA	KNOWN	None	None	None	None	45541083	45544507	-1	None	None
GL000220.1	None	ENSG00000264827	ENST00000584459	miRNA	NOVEL	None	None	None	None	107909	108088	1	None	None
15	None	ENSG00000259089	ENST00000557243	unprocessed_pseudogene	KNOWN	None	None	None	None	21018628	21020287	1	None	None
8	None	ENSG00000254144	ENST00000517300	antisense	KNOWN	None	None	None	None	144624280	144624570	1	None	None
8	None	ENSG00000254144	ENST00000408472	misc_RNA	NOVEL	None	None	None	None	144624280	144624568	1	None	None
6	NHSL1	ENSG00000135540	ENST00000427025	protein_coding	KNOWN	CCDS55063	21021	4833	1610	138743180	138893677	-1	C6orf63	bA43P8.1, KIAA1357
6	NHSL1	ENSG00000135540	ENST00000343505	protein_coding	KNOWN	CCDS47487	21021	4821	1606	138743708	138820631	-1	C6orf63	bA43P8.1, KIAA1357
6	NHSL1	ENSG00000135540	ENST00000342260	protein_coding	PUTATIVE	None	21021	663	220	138754645	138866848	-1	C6orf63	bA43P8.1, KIAA1357
6	NHSL1	ENSG00000135540	ENST00000426841	retained_intron	KNOWN	None	21021	None	None	138767927	138820631	-1	C6orf63	bA43P8.1, KIAA1357
6	NHSL1	ENSG00000135540	ENST00000491526	protein_coding	PUTATIVE	None	21021	506	167	138768202	139013708	-1	C6orf63	bA43P8.1, KIAA1357
6	NHSL1	ENSG00000135540	ENST00000533765	protein_coding	PUTATIVE	None	21021	412	136	138768261	138833632	-1	C6orf63	bA43P8.1, KIAA1357
6	NHSL1	ENSG00000135540	ENST00000479393	processed_transcript	KNOWN	None	21021	None	None	138791678	138820505	-1	C6orf63	bA43P8.1, KIAA1357
6	NHSL1	ENSG00000135540	ENST00000534376	retained_intron	KNOWN	None	21021	None	None	138892667	138893599	-1	C6orf63	bA43P8.1, KIAA1357
6	NHSL1	ENSG00000135540	ENST00000468095	retained_intron	KNOWN	None	21021	None	None	138892836	139013708	-1	C6orf63	bA43P8.1, KIAA1357
GL000220.1	None	ENSG00000266219	ENST00000582791	miRNA	NOVEL	None	None	None	None	108280	108340	1	None	None
14	SNORA11B	ENSG00000221102	ENST00000408175	snoRNA	KNOWN	None	33620	None	None	91592769	91592897	1	None	None
13	None	ENSG00000225760	ENST00000440735	lincRNA	KNOWN	None	None	None	None	111635654	111642911	1	None	None
6	RNU6-515P	ENSG00000252738	ENST00000516929	snRNA	KNOWN	None	47478	None	None	45613841	45613912	1	None	None
10	None	ENSG00000221400	ENST00000408473	snoRNA	NOVEL	None	None	None	None	43912698	43912888	-1	None	None
GL000220.1	RNA18S5	ENSG00000272060	ENST00000606783	non_coding	KNOWN	None	37657	None	None	109078	110946	1	RN18S1	None
8	None	ENSG00000255050	ENST00000531730	antisense	KNOWN	None	None	None	None	144655660	144659567	1	None	None
14	None	ENSG00000257868	ENST00000547150	transcribed_processed_pseudogene	KNOWN	None	None	None	None	20004410	20004527	-1	None	None
6	RNU6-754P	ENSG00000212468	ENST00000391166	snRNA	KNOWN	None	47717	None	None	45986482	45986588	1	None	None
13	None	ENSG00000225870	ENST00000422994	lincRNA	KNOWN	None	None	None	None	111748185	111755444	1	None	None
X	RNA5SP517	ENSG00000201594	ENST00000364724	rRNA	KNOWN	None	43417	None	None	145508974	145509090	-1	RN5S517	None
10	None	ENSG00000230555	ENST00000442526	lincRNA	KNOWN	None	None	None	None	43916186	43917548	1	None	None
HSCHR17_5_CTG4	None	ENSG00000267728	ENST00000592900	protein_coding	NOVEL	None	None	525	174	39411573	39412558	1	None	None
8	None	ENSG00000254142	ENST00000522711	lincRNA	KNOWN	None	None	None	None	55466921	55471474	1	None	None
8	None	ENSG00000254142	ENST00000602362	lincRNA	KNOWN	None	None	None	None	55467143	55471480	1	None	None
8	None	ENSG00000254142	ENST00000518787	lincRNA	KNOWN	None	None	None	None	55471320	55474467	1	None	None
8	None	ENSG00000254142	ENST00000522001	lincRNA	KNOWN	None	None	None	None	55471630	55474487	1	None	None
8	None	ENSG00000254316	ENST00000519722	processed_pseudogene	KNOWN	None	None	None	None	30107018	30107608	-1	None	None
15	None	ENSG00000259214	ENST00000559474	processed_pseudogene	KNOWN	None	None	None	None	21031783	21031969	-1	None	None
15	None	ENSG00000200142	ENST00000363272	misc_RNA	NOVEL	None	None	None	None	91520438	91520535	-1	None	None
13	ARHGEF7-AS2	ENSG00000235875	ENST00000425094	antisense	KNOWN	None	40717	None	None	111766159	111768025	-1	None	None
HG871_PATCH	AKR1CL1	ENSG00000264006	ENST00000584929	transcribed_unprocessed_pseudogene	KNOWN	None	23469	None	None	5196335	5227296	-1	None	None
HG871_PATCH	AKR1CL1	ENSG00000264006	ENST00000578467	processed_transcript	KNOWN	None	23469	None	None	5196652	5227379	-1	None	None
6	None	ENSG00000231769	ENST00000444038	antisense	KNOWN	None	None	None	None	46064830	46097328	-1	None	None
6	None	ENSG00000231769	ENST00000437249	antisense	KNOWN	None	None	None	None	46070305	46097443	-1	None	None
22	None	ENSG00000234409	ENST00000439765	protein_coding	PUTATIVE	None	None	1099	365	20135970	20138399	-1	None	None
22	None	ENSG00000234409	ENST00000444532	retained_intron	KNOWN	None	None	None	None	20136109	20137426	-1	None	None
22	None	ENSG00000234409	ENST00000540078	protein_coding	KNOWN	None	None	660	219	20137086	20138302	-1	None	None
15	MIR3118-6	ENSG00000265322	ENST00000584700	miRNA	KNOWN	None	38210	None	None	21038124	21038198	1	None	hsa-mir-3118-6
15	MIR3118-4	ENSG00000265322	ENST00000584700	miRNA	KNOWN	None	38287	None	None	21038124	21038198	1	None	hsa-mir-3118-4
X	None	ENSG00000234748	ENST00000421173	processed_pseudogene	KNOWN	None	None	None	None	145619053	145619566	1	None	None
HSCHR3_1_CTG1	MARK2P14	ENSG00000266576	ENST00000580754	unprocessed_pseudogene	KNOWN	None	44495	None	None	11949922	11955708	1	None	None
10	AIFM1P1	ENSG00000225509	ENST00000413342	processed_pseudogene	KNOWN	None	44884	None	None	19024674	19027560	1	None	None
15	None	ENSG00000214432	ENST00000556904	antisense	KNOWN	None	None	None	None	91565849	91573936	1	None	None
15	None	ENSG00000214432	ENST00000557804	antisense	KNOWN	None	None	None	None	91565851	91579841	1	None	None
15	None	ENSG00000214432	ENST00000417221	antisense	KNOWN	None	None	None	None	91565852	91566931	1	None	None
15	None	ENSG00000214432	ENST00000501381	antisense	KNOWN	None	None	None	None	91565852	91574370	1	None	None
14	None	ENSG00000258276	ENST00000547584	lincRNA	KNOWN	None	None	None	None	20006913	20010958	1	None	None
13	ARHGEF7-IT1	ENSG00000233644	ENST00000423329	sense_intronic	KNOWN	None	41408	None	None	111774999	111796611	1	None	None
1	WBP1LP6	ENSG00000268663	ENST00000438434	processed_pseudogene	KNOWN	None	43956	None	None	610222	610645	1	None	None
GL000220.1	RNA5-8S5	ENSG00000242716	ENST00000474885	rRNA	KNOWN	None	37660	None	None	112025	112177	1	RN5-8S1	None
2	SNX17	ENSG00000115234	ENST00000233575	protein_coding	KNOWN	CCDS1750	14979	1413	470	27593389	27599995	1	None	KIAA0064
2	SNX17	ENSG00000115234	ENST00000484886	retained_intron	KNOWN	None	14979	None	None	27593482	27594511	1	None	KIAA0064
2	SNX17	ENSG00000115234	ENST00000440760	nonsense_mediated_decay	KNOWN	None	14979	162	53	27593484	27599994	1	None	KIAA0064
2	SNX17	ENSG00000115234	ENST00000494893	retained_intron	KNOWN	None	14979	None	None	27593487	27598388	1	None	KIAA0064
2	SNX17	ENSG00000115234	ENST00000427123	nonsense_mediated_decay	KNOWN	None	14979	264	87	27593495	27599990	1	None	KIAA0064
2	SNX17	ENSG00000115234	ENST00000464279	retained_intron	KNOWN	None	14979	None	None	27593511	27596306	1	None	KIAA0064
2	SNX17	ENSG00000115234	ENST00000489402	retained_intron	KNOWN	None	14979	None	None	27593513	27595996	1	None	KIAA0064
2	SNX17	ENSG00000115234	ENST00000453453	nonsense_mediated_decay	KNOWN	None	14979	210	69	27593532	27599995	1	None	KIAA0064
2	SNX17	ENSG00000115234	ENST00000493711	retained_intron	KNOWN	None	14979	None	None	27597275	27598464	1	None	KIAA0064
2	SNX17	ENSG00000115234	ENST00000537606	protein_coding	KNOWN	CCDS58704	14979	1338	445	27593503	27599591	1	None	KIAA0064
2	SNX17	ENSG00000115234	ENST00000543024	protein_coding	KNOWN	None	14979	771	256	27593484	27599806	1	None	KIAA0064
2	SNX17	ENSG00000115234	ENST00000542478	protein_coding	KNOWN	None	14979	771	256	27594120	27599990	1	None	KIAA0064
11	None	ENSG00000255503	ENST00000533329	lincRNA	KNOWN	None	None	None	None	82783444	82808238	-1	None	None
6	ACTG1P9	ENSG00000229349	ENST00000457622	processed_pseudogene	KNOWN	None	154	None	None	46172466	46175123	1	ACTGP9	None
14	None	ENSG00000258896	ENST00000554676	processed_pseudogene	KNOWN	None	None	None	None	60625694	60626042	1	None	None
X	None	ENSG00000270497	ENST00000605804	processed_pseudogene	KNOWN	None	None	None	None	53094235	53094730	-1	None	None
8	C8orf59	ENSG00000176731	ENST00000417663	protein_coding	KNOWN	CCDS55255	32235	297	98	86126311	86132603	-1	None	None
8	C8orf59	ENSG00000176731	ENST00000431163	protein_coding	NOVEL	None	32235	180	59	86126312	86132596	-1	None	None
8	C8orf59	ENSG00000176731	ENST00000421308	protein_coding	KNOWN	CCDS55255	32235	297	98	86126722	86132613	-1	None	None
8	C8orf59	ENSG00000176731	ENST00000520236	retained_intron	KNOWN	None	32235	None	None	86126737	86127363	-1	None	None
8	C8orf59	ENSG00000176731	ENST00000524353	protein_coding	KNOWN	CCDS55255	32235	297	98	86126737	86132604	-1	None	None
8	C8orf59	ENSG00000176731	ENST00000518562	protein_coding	NOVEL	None	32235	180	59	86126737	86132650	-1	None	None
8	C8orf59	ENSG00000176731	ENST00000518091	protein_coding	KNOWN	CCDS55255	32235	297	98	86126738	86129931	-1	None	None
8	C8orf59	ENSG00000176731	ENST00000458398	protein_coding	KNOWN	CCDS55255	32235	297	98	86126791	86132582	-1	None	None
8	C8orf59	ENSG00000176731	ENST00000523281	protein_coding	KNOWN	None	32235	137	44	86127244	86131551	-1	None	None
8	C8orf59	ENSG00000176731	ENST00000523245	retained_intron	KNOWN	None	32235	None	None	86129042	86132643	-1	None	None
8	C8orf59	ENSG00000176731	ENST00000321777	protein_coding	KNOWN	None	32235	132	43	86129389	86132568	-1	None	None
8	C8orf59	ENSG00000176731	ENST00000518786	retained_intron	KNOWN	None	32235	None	None	86130855	86132623	-1	None	None
8	C8orf59	ENSG00000176731	ENST00000521286	retained_intron	KNOWN	None	32235	None	None	86130900	86132603	-1	None	None
8	C8orf59	ENSG00000176731	ENST00000545322	protein_coding	KNOWN	None	32235	132	43	86129504	86132643	-1	None	None
13	ARHGEF7-AS1	ENSG00000227352	ENST00000435037	antisense	KNOWN	None	39816	None	None	111796652	111797080	-1	None	None
3	None	ENSG00000221681	ENST00000408754	miRNA	NOVEL	None	None	None	None	125551272	125551371	-1	None	None
X	None	ENSG00000270050	ENST00000602441	antisense	KNOWN	None	None	None	None	101854585	101914640	-1	None	None
11	CEP57	ENSG00000166037	ENST00000537677	protein_coding	PUTATIVE	None	30794	1422	473	95523129	95564431	1	None	Translokin, TSP57, KIAA0092
11	CEP57	ENSG00000166037	ENST00000325542	protein_coding	KNOWN	CCDS8304	30794	1503	500	95523625	95565857	1	None	Translokin, TSP57, KIAA0092
11	CEP57	ENSG00000166037	ENST00000538095	nonsense_mediated_decay	KNOWN	None	30794	159	52	95523662	95546143	1	None	Translokin, TSP57, KIAA0092
11	CEP57	ENSG00000166037	ENST00000544522	protein_coding	PUTATIVE	None	30794	594	197	95523677	95551067	1	None	Translokin, TSP57, KIAA0092
11	CEP57	ENSG00000166037	ENST00000539855	nonsense_mediated_decay	KNOWN	None	30794	249	82	95523680	95564445	1	None	Translokin, TSP57, KIAA0092
11	CEP57	ENSG00000166037	ENST00000541365	protein_coding	PUTATIVE	None	30794	617	204	95523686	95552067	1	None	Translokin, TSP57, KIAA0092
11	CEP57	ENSG00000166037	ENST00000535497	nonsense_mediated_decay	KNOWN	None	30794	126	41	95523695	95546684	1	None	Translokin, TSP57, KIAA0092
11	CEP57	ENSG00000166037	ENST00000540830	nonsense_mediated_decay	KNOWN	None	30794	216	71	95523697	95564707	1	None	Translokin, TSP57, KIAA0092
11	CEP57	ENSG00000166037	ENST00000538658	protein_coding	KNOWN	None	30794	813	270	95523823	95556379	1	None	Translokin, TSP57, KIAA0092
11	CEP57	ENSG00000166037	ENST00000536587	processed_transcript	KNOWN	None	30794	None	None	95546094	95548424	1	None	Translokin, TSP57, KIAA0092
11	CEP57	ENSG00000166037	ENST00000541768	retained_intron	KNOWN	None	30794	None	None	95546141	95551196	1	None	Translokin, TSP57, KIAA0092
11	CEP57	ENSG00000166037	ENST00000537093	protein_coding	NOVEL	None	30794	404	133	95550984	95561191	1	None	Translokin, TSP57, KIAA0092
11	CEP57	ENSG00000166037	ENST00000535224	protein_coding	NOVEL	None	30794	760	252	95551001	95564309	1	None	Translokin, TSP57, KIAA0092
11	CEP57	ENSG00000166037	ENST00000538158	retained_intron	KNOWN	None	30794	None	None	95558847	95564331	1	None	Translokin, TSP57, KIAA0092
11	CEP57	ENSG00000166037	ENST00000325486	protein_coding	KNOWN	CCDS58166	30794	1425	474	95523642	95565854	1	None	Translokin, TSP57, KIAA0092
11	CEP57	ENSG00000166037	ENST00000541150	protein_coding	KNOWN	CCDS58167	30794	1476	491	95528706	95565854	1	None	Translokin, TSP57, KIAA0092
HSCHR17_5_CTG4	None	ENSG00000267635	ENST00000574248	protein_coding	NOVEL	None	None	525	174	39421610	39422134	1	None	None
12	None	ENSG00000221679	ENST00000408752	miRNA	NOVEL	None	None	None	None	20125799	20125915	1	None	None
3	ENPP7P4	ENSG00000241278	ENST00000487446	unprocessed_pseudogene	KNOWN	None	48687	None	None	125567066	125628215	1	None	None
13	None	ENSG00000215881	ENST00000401043	sense_overlapping	KNOWN	None	None	None	None	112248356	112294426	1	None	None
12	None	ENSG00000256287	ENST00000536666	lincRNA	KNOWN	None	None	None	None	20167714	20251802	1	None	None
3	CACNA2D3	ENSG00000157445	ENST00000474759	protein_coding	KNOWN	CCDS54598	15460	3276	1091	54156693	55108584	1	None	HSA272268
3	CACNA2D3	ENSG00000157445	ENST00000490478	protein_coding	KNOWN	None	15460	2994	997	54157488	55108584	1	None	HSA272268
3	CACNA2D3	ENSG00000157445	ENST00000471363	nonsense_mediated_decay	KNOWN	None	15460	1560	519	54157488	55108584	1	None	HSA272268
3	CACNA2D3	ENSG00000157445	ENST00000477024	nonsense_mediated_decay	KNOWN	None	15460	1578	525	54157506	54922051	1	None	HSA272268
3	CACNA2D3	ENSG00000157445	ENST00000492460	protein_coding	KNOWN	None	15460	378	125	54211823	54596942	1	None	HSA272268
3	CACNA2D3	ENSG00000157445	ENST00000468658	nonsense_mediated_decay	KNOWN	None	15460	141	46	54231398	54919613	1	None	HSA272268
3	CACNA2D3	ENSG00000157445	ENST00000478466	processed_transcript	KNOWN	None	15460	None	None	54306801	54354568	1	None	HSA272268
3	CACNA2D3	ENSG00000157445	ENST00000478261	processed_transcript	KNOWN	None	15460	None	None	55021705	55108243	1	None	HSA272268
3	CACNA2D3	ENSG00000157445	ENST00000471865	retained_intron	KNOWN	None	15460	None	None	55041803	55108230	1	None	HSA272268
3	CACNA2D3	ENSG00000157445	ENST00000415676	protein_coding	KNOWN	None	15460	3276	1091	54156574	55108500	1	None	HSA272268
3	CACNA2D3	ENSG00000157445	ENST00000288197	protein_coding	KNOWN	None	15460	3276	1091	54156693	55108580	1	None	HSA272268
X	None	ENSG00000234019	ENST00000433646	lincRNA	KNOWN	None	None	None	None	53122892	53124040	-1	None	None
HSCHR6_MHC_COX	HLA-T	ENSG00000227027	ENST00000430761	unprocessed_pseudogene	KNOWN	None	23478	None	None	29855863	29856994	1	HLA-16	None
8	None	ENSG00000271830	ENST00000606457	lincRNA	KNOWN	None	None	None	None	104493494	104493847	-1	None	None
12	None	ENSG00000256499	ENST00000543778	lincRNA	KNOWN	None	None	None	None	20273914	20282747	-1	None	None
6	None	ENSG00000226541	ENST00000421403	processed_pseudogene	KNOWN	None	None	None	None	46406047	46406356	1	None	None
13	LINC00354	ENSG00000226903	ENST00000440860	lincRNA	KNOWN	None	42672	None	None	112554299	112555490	1	None	None
13	LINC00354	ENSG00000226903	ENST00000412119	lincRNA	KNOWN	None	42672	None	None	112554302	112555250	1	None	None
13	OR7E36P	ENSG00000205240	ENST00000419933	processed_pseudogene	KNOWN	None	8409	None	None	42005425	42006446	-1	OR7E119P	OST024
HSCHR4_1_CTG12	None	ENSG00000262505	ENST00000572394	protein_coding	KNOWN	None	None	1518	505	156750881	156787425	-1	None	None
19	BCAT2	ENSG00000105552	ENST00000545387	protein_coding	KNOWN	CCDS54290	977	903	300	49298319	49314269	-1	BCT2	BCAM
19	BCAT2	ENSG00000105552	ENST00000402551	protein_coding	PUTATIVE	None	977	1059	352	49298322	49314284	-1	BCT2	BCAM
19	BCAT2	ENSG00000105552	ENST00000316273	protein_coding	KNOWN	CCDS12735	977	1179	392	49298323	49314277	-1	BCT2	BCAM
19	BCAT2	ENSG00000105552	ENST00000593515	protein_coding	NOVEL	None	977	1338	445	49298357	49310331	-1	BCT2	BCAM
19	BCAT2	ENSG00000105552	ENST00000597011	protein_coding	PUTATIVE	None	977	1059	352	49298367	49314173	-1	BCT2	BCAM
19	BCAT2	ENSG00000105552	ENST00000599246	protein_coding	PUTATIVE	None	977	942	313	49299122	49314286	-1	BCT2	BCAM
19	BCAT2	ENSG00000105552	ENST00000599510	retained_intron	KNOWN	None	977	None	None	49299504	49300800	-1	BCT2	BCAM
19	BCAT2	ENSG00000105552	ENST00000598162	protein_coding	PUTATIVE	None	977	1218	405	49299516	49314284	-1	BCT2	BCAM
19	BCAT2	ENSG00000105552	ENST00000595376	retained_intron	KNOWN	None	977	None	None	49302067	49311049	-1	BCT2	BCAM
19	BCAT2	ENSG00000105552	ENST00000601681	protein_coding	PUTATIVE	None	977	326	107	49303323	49314178	-1	BCT2	BCAM
19	BCAT2	ENSG00000105552	ENST00000601496	processed_transcript	KNOWN	None	977	None	None	49310270	49314286	-1	BCT2	BCAM
19	BCAT2	ENSG00000105552	ENST00000596981	processed_transcript	KNOWN	None	977	None	None	49311046	49314286	-1	BCT2	BCAM
17	KRT16P4	ENSG00000229526	ENST00000453883	unprocessed_pseudogene	KNOWN	None	37809	None	None	18353558	18354079	1	None	None
17	MAP3K14-AS1	ENSG00000267278	ENST00000591263	antisense	KNOWN	None	44359	None	None	43325292	43344857	1	None	None
17	MAP3K14-AS1	ENSG00000267278	ENST00000588504	antisense	KNOWN	None	44359	None	None	43325303	43344955	1	None	None
17	MAP3K14-AS1	ENSG00000267278	ENST00000590100	antisense	KNOWN	None	44359	None	None	43325303	43345997	1	None	None
17	MAP3K14-AS1	ENSG00000267278	ENST00000585346	antisense	KNOWN	None	44359	None	None	43325321	43344833	1	None	None
17	MAP3K14-AS1	ENSG00000267278	ENST00000592422	antisense	KNOWN	None	44359	None	None	43325321	43345760	1	None	None
17	MAP3K14-AS1	ENSG00000267278	ENST00000588698	antisense	KNOWN	None	44359	None	None	43325332	43345496	1	None	None
17	MAP3K14-AS1	ENSG00000267278	ENST00000588160	antisense	KNOWN	None	44359	None	None	43332391	43344857	1	None	None
17	MAP3K14-AS1	ENSG00000267278	ENST00000585780	antisense	KNOWN	None	44359	None	None	43339144	43345426	1	None	None
17	MAP3K14-AS1	ENSG00000267278	ENST00000586450	antisense	KNOWN	None	44359	None	None	43339447	43345838	1	None	None
17	MAP3K14-AS1	ENSG00000267278	ENST00000585351	antisense	KNOWN	None	44359	None	None	43339558	43345630	1	None	None
8	None	ENSG00000253477	ENST00000517376	antisense	KNOWN	None	None	None	None	104495626	104511448	-1	None	None
8	None	ENSG00000253477	ENST00000523422	antisense	KNOWN	None	None	None	None	104495651	104513904	-1	None	None
12	None	ENSG00000256879	ENST00000535755	antisense	KNOWN	None	None	None	None	20514666	20523196	-1	None	None
6	None	ENSG00000236466	ENST00000415787	antisense	KNOWN	None	None	None	None	46459789	46500495	1	None	None
X	None	ENSG00000232593	ENST00000605526	lincRNA	KNOWN	None	None	None	None	53123327	53152924	1	None	None
X	None	ENSG00000232593	ENST00000604062	lincRNA	KNOWN	None	None	None	None	53123330	53152957	1	None	None
X	None	ENSG00000232593	ENST00000604369	lincRNA	KNOWN	None	None	None	None	53123330	53196196	1	None	None
X	None	ENSG00000232593	ENST00000366185	lincRNA	KNOWN	None	None	None	None	53123339	53171889	1	None	None
X	None	ENSG00000232593	ENST00000604849	lincRNA	KNOWN	None	None	None	None	53123371	53172633	1	None	None
8	None	ENSG00000254741	ENST00000529247	antisense	KNOWN	None	None	None	None	144661806	144662840	1	None	None
15	MIR4713	ENSG00000266593	ENST00000582691	miRNA	KNOWN	None	41899	None	None	51534387	51534461	1	None	hsa-mir-4713
11	None	ENSG00000255010	ENST00000527291	processed_pseudogene	KNOWN	None	None	None	None	82817622	82818003	-1	None	None
2	HJURP	ENSG00000123485	ENST00000433484	nonsense_mediated_decay	KNOWN	None	25444	206	67	234742062	234749384	-1	None	DKFZp762E1312, URLC9, hFLEG1, FAKTS
2	HJURP	ENSG00000123485	ENST00000411486	protein_coding	KNOWN	CCDS33406	25444	2247	748	234745349	234763212	-1	None	DKFZp762E1312, URLC9, hFLEG1, FAKTS
2	HJURP	ENSG00000123485	ENST00000414924	protein_coding	NOVEL	None	25444	1710	569	234749461	234763212	-1	None	DKFZp762E1312, URLC9, hFLEG1, FAKTS
2	HJURP	ENSG00000123485	ENST00000454020	protein_coding	PUTATIVE	None	25444	806	267	234750497	234763120	-1	None	DKFZp762E1312, URLC9, hFLEG1, FAKTS
2	HJURP	ENSG00000123485	ENST00000434039	processed_transcript	KNOWN	None	25444	None	None	234750539	234754445	-1	None	DKFZp762E1312, URLC9, hFLEG1, FAKTS
2	HJURP	ENSG00000123485	ENST00000453122	nonsense_mediated_decay	KNOWN	None	25444	369	122	234750762	234763181	-1	None	DKFZp762E1312, URLC9, hFLEG1, FAKTS
2	HJURP	ENSG00000123485	ENST00000373395	retained_intron	KNOWN	None	25444	None	None	234752871	234754781	-1	None	DKFZp762E1312, URLC9, hFLEG1, FAKTS
2	HJURP	ENSG00000123485	ENST00000432087	protein_coding	KNOWN	None	25444	2085	694	234745489	234763212	-1	None	DKFZp762E1312, URLC9, hFLEG1, FAKTS
2	HJURP	ENSG00000123485	ENST00000441687	protein_coding	KNOWN	None	25444	1992	663	234745489	234763212	-1	None	DKFZp762E1312, URLC9, hFLEG1, FAKTS
1	CICP3	ENSG00000229376	ENST00000440782	processed_pseudogene	KNOWN	None	37742	None	None	657472	660283	1	None	None
GL000216.1	None	ENSG00000238471	ENST00000459346	snRNA	NOVEL	None	None	None	None	88883	88995	-1	None	None
11	MIR611	ENSG00000207601	ENST00000384869	miRNA	KNOWN	None	32867	None	None	61559967	61560033	-1	MIRN611	hsa-mir-611
17	None	ENSG00000227919	ENST00000432936	unprocessed_pseudogene	KNOWN	None	None	None	None	18356269	18356376	1	None	None
14	RN7SL506P	ENSG00000266343	ENST00000583824	misc_RNA	KNOWN	None	46522	None	None	91614372	91614663	1	None	None
8	None	ENSG00000271912	ENST00000606452	lincRNA	KNOWN	None	None	None	None	144683416	144685394	1	None	None
11	FSHB	ENSG00000131808	ENST00000254122	protein_coding	KNOWN	CCDS7868	3964	390	129	30252563	30256586	1	None	None
11	FSHB	ENSG00000131808	ENST00000417547	protein_coding	KNOWN	CCDS7868	3964	390	129	30252563	30256808	1	None	None
11	FSHB	ENSG00000131808	ENST00000533718	protein_coding	KNOWN	CCDS7868	3964	390	129	30253420	30256295	1	None	None
12	UBE2L2	ENSG00000131982	ENST00000254302	processed_pseudogene	KNOWN	None	12487	None	None	20602589	20603017	-1	None	None
HSCHR19LRC_COX2_CTG1	MIR4752	ENSG00000265146	ENST00000577312	miRNA	KNOWN	None	41803	None	None	54785613	54785684	1	None	hsa-mir-4752
8	None	ENSG00000255105	ENST00000534173	processed_pseudogene	KNOWN	None	None	None	None	104571327	104571617	-1	None	None
7	MYH16	ENSG00000002079	ENST00000439784	unitary_pseudogene	KNOWN	None	31038	None	None	98836417	98908753	1	MYH5	MHC20, MYH16P
7	MYH16	ENSG00000002079	ENST00000453194	processed_transcript	KNOWN	None	31038	None	None	98836534	98855779	1	MYH5	MHC20, MYH16P
7	MYH16	ENSG00000002079	ENST00000413734	processed_transcript	KNOWN	None	31038	None	None	98855833	98859259	1	MYH5	MHC20, MYH16P
7	MYH16	ENSG00000002079	ENST00000425880	processed_transcript	KNOWN	None	31038	None	None	98861890	98868672	1	MYH5	MHC20, MYH16P
7	MYH16	ENSG00000002079	ENST00000452010	processed_transcript	KNOWN	None	31038	None	None	98895535	98899427	1	MYH5	MHC20, MYH16P
7	MYH16	ENSG00000002079	ENST00000429079	retained_intron	KNOWN	None	31038	None	None	98897040	98899397	1	MYH5	MHC20, MYH16P
7	MYH16	ENSG00000002079	ENST00000453378	processed_transcript	KNOWN	None	31038	None	None	98902269	98904274	1	MYH5	MHC20, MYH16P
7	MYH16	ENSG00000002079	ENST00000330888	unitary_pseudogene	KNOWN	None	31038	None	None	98870924	98895607	1	MYH5	MHC20, MYH16P
12	HOXC-AS3	ENSG00000251151	ENST00000567780	antisense	KNOWN	None	43751	None	None	54375293	54378108	-1	None	None
12	HOXC-AS3	ENSG00000251151	ENST00000509870	antisense	KNOWN	None	43751	None	None	54377234	54378622	-1	None	None
12	HOXC-AS3	ENSG00000251151	ENST00000513165	antisense	KNOWN	None	43751	None	None	54377455	54378542	-1	None	None
12	HOXC-AS3	ENSG00000251151	ENST00000514702	antisense	KNOWN	None	43751	None	None	54377735	54379303	-1	None	None
14	None	ENSG00000260810	ENST00000563574	lincRNA	KNOWN	None	None	None	None	91724643	91725347	1	None	None
17	None	ENSG00000267492	ENST00000586196	processed_pseudogene	KNOWN	None	None	None	None	18356888	18357053	-1	None	None
18	C18orf63	ENSG00000206043	ENST00000579455	protein_coding	KNOWN	CCDS54189	40037	2058	685	71983048	72026422	1	None	DKFZP781G0119
13	OR7E155P	ENSG00000234655	ENST00000412208	processed_pseudogene	KNOWN	None	31310	None	None	42013952	42015035	-1	None	None
13	OR7E155P	ENSG00000234655	ENST00000422155	processed_pseudogene	KNOWN	None	31310	None	None	42013982	42014911	-1	None	None
8	None	ENSG00000254644	ENST00000529260	processed_pseudogene	KNOWN	None	None	None	None	104580831	104581206	-1	None	None
15	None	ENSG00000259701	ENST00000560011	sense_intronic	KNOWN	None	None	None	None	51571124	51572212	-1	None	None
17	TNPO1P2	ENSG00000230662	ENST00000426249	processed_pseudogene	KNOWN	None	45121	None	None	18363705	18366369	1	None	None
HG185_PATCH	HSPB9	ENSG00000260325	ENST00000565659	protein_coding	KNOWN	None	30589	480	159	40277683	40279604	1	None	CT51
11	MIR1908	ENSG00000222326	ENST00000410394	miRNA	KNOWN	None	35392	None	None	61582633	61582712	-1	MIRN1908	hsa-mir-1908
8	None	ENSG00000238687	ENST00000459098	snoRNA	NOVEL	None	None	None	None	104677523	104677622	1	None	None
7	DGKI	ENSG00000157680	ENST00000494390	processed_transcript	KNOWN	None	2855	None	None	137073563	137137940	-1	None	DGK-IOTA
7	DGKI	ENSG00000157680	ENST00000453654	protein_coding	NOVEL	None	2855	2205	734	137073563	137531282	-1	None	DGK-IOTA
7	DGKI	ENSG00000157680	ENST00000288490	protein_coding	KNOWN	CCDS5845	2855	3198	1065	137075270	137531609	-1	None	DGK-IOTA
7	DGKI	ENSG00000157680	ENST00000446122	protein_coding	NOVEL	None	2855	3144	1047	137075270	137531838	-1	None	DGK-IOTA
7	DGKI	ENSG00000157680	ENST00000424189	protein_coding	NOVEL	None	2855	3237	1078	137075270	137531838	-1	None	DGK-IOTA
7	DGKI	ENSG00000157680	ENST00000477835	processed_transcript	KNOWN	None	2855	None	None	137075784	137139619	-1	None	DGK-IOTA
7	DGKI	ENSG00000157680	ENST00000486153	retained_intron	KNOWN	None	2855	None	None	137075831	137080719	-1	None	DGK-IOTA
7	DGKI	ENSG00000157680	ENST00000497321	processed_transcript	KNOWN	None	2855	None	None	137075901	137150781	-1	None	DGK-IOTA
7	DGKI	ENSG00000157680	ENST00000460662	processed_transcript	KNOWN	None	2855	None	None	137148235	137266674	-1	None	DGK-IOTA
7	DGKI	ENSG00000157680	ENST00000470895	processed_transcript	KNOWN	None	2855	None	None	137270007	137531838	-1	None	DGK-IOTA
7	DGKI	ENSG00000157680	ENST00000483619	processed_transcript	KNOWN	None	2855	None	None	137363353	137459736	-1	None	DGK-IOTA
7	DGKI	ENSG00000157680	ENST00000475388	processed_transcript	KNOWN	None	2855	None	None	137456345	137459395	-1	None	DGK-IOTA
14	None	ENSG00000265856	ENST00000581346	miRNA	NOVEL	None	None	None	None	91800057	91800167	1	None	None
6	SSR1	ENSG00000124783	ENST00000474597	protein_coding	NOVEL	None	11323	897	298	7268539	7313440	-1	None	TRAPA
6	SSR1	ENSG00000124783	ENST00000475213	processed_transcript	KNOWN	None	11323	None	None	7269171	7290083	-1	None	TRAPA
6	SSR1	ENSG00000124783	ENST00000244763	protein_coding	KNOWN	CCDS4499	11323	861	286	7281376	7313440	-1	None	TRAPA
6	SSR1	ENSG00000124783	ENST00000397511	protein_coding	NOVEL	None	11323	876	291	7287803	7313431	-1	None	TRAPA
6	SSR1	ENSG00000124783	ENST00000489567	protein_coding	NOVEL	None	11323	657	218	7288915	7313407	-1	None	TRAPA
6	SSR1	ENSG00000124783	ENST00000479365	protein_coding	PUTATIVE	None	11323	801	266	7289909	7313415	-1	None	TRAPA
6	SSR1	ENSG00000124783	ENST00000479485	protein_coding	PUTATIVE	None	11323	312	103	7295289	7301596	-1	None	TRAPA
6	SSR1	ENSG00000124783	ENST00000462112	protein_coding	PUTATIVE	None	11323	798	265	7297116	7313421	-1	None	TRAPA
6	SSR1	ENSG00000124783	ENST00000488834	processed_transcript	KNOWN	None	11323	None	None	7301566	7347679	-1	None	TRAPA
6	SSR1	ENSG00000124783	ENST00000483409	processed_transcript	KNOWN	None	11323	None	None	7301623	7313464	-1	None	TRAPA
6	SSR1	ENSG00000124783	ENST00000534851	protein_coding	KNOWN	None	11323	780	259	7287804	7313435	-1	None	TRAPA
8	None	ENSG00000239344	ENST00000481577	processed_pseudogene	KNOWN	None	None	None	None	104780509	104781257	1	None	None
12	None	ENSG00000256663	ENST00000540175	processed_pseudogene	KNOWN	None	None	None	None	20704524	20705946	1	None	None
17	NOS2P2	ENSG00000167494	ENST00000426269	unprocessed_pseudogene	KNOWN	None	7874	None	None	18400886	18404348	-1	NOS2B	None
10	JMJD1C	ENSG00000171988	ENST00000467356	retained_intron	KNOWN	None	12313	None	None	64926981	64936315	-1	TRIP8	DKFZp761F0118, KIAA1380, FLJ14374
10	JMJD1C	ENSG00000171988	ENST00000399262	protein_coding	KNOWN	CCDS41532	12313	7623	2540	64926981	65225641	-1	TRIP8	DKFZp761F0118, KIAA1380, FLJ14374
10	JMJD1C	ENSG00000171988	ENST00000327520	protein_coding	NOVEL	None	12313	2870	955	64936560	64967485	-1	TRIP8	DKFZp761F0118, KIAA1380, FLJ14374
10	JMJD1C	ENSG00000171988	ENST00000497922	processed_transcript	KNOWN	None	12313	None	None	64949047	64953097	-1	TRIP8	DKFZp761F0118, KIAA1380, FLJ14374
10	JMJD1C	ENSG00000171988	ENST00000490669	processed_transcript	KNOWN	None	12313	None	None	64952699	64953409	-1	TRIP8	DKFZp761F0118, KIAA1380, FLJ14374
10	JMJD1C	ENSG00000171988	ENST00000483298	processed_transcript	KNOWN	None	12313	None	None	64952870	64954454	-1	TRIP8	DKFZp761F0118, KIAA1380, FLJ14374
10	JMJD1C	ENSG00000171988	ENST00000469152	processed_transcript	KNOWN	None	12313	None	None	64975184	65028635	-1	TRIP8	DKFZp761F0118, KIAA1380, FLJ14374
10	JMJD1C	ENSG00000171988	ENST00000489372	processed_transcript	KNOWN	None	12313	None	None	64975198	65029013	-1	TRIP8	DKFZp761F0118, KIAA1380, FLJ14374
10	JMJD1C	ENSG00000171988	ENST00000542921	protein_coding	KNOWN	None	12313	7077	2358	64927350	65028826	-1	TRIP8	DKFZp761F0118, KIAA1380, FLJ14374
10	JMJD1C	ENSG00000171988	ENST00000402544	protein_coding	KNOWN	CCDS44410	12313	6912	2303	64926990	65028982	-1	TRIP8	DKFZp761F0118, KIAA1380, FLJ14374
10	JMJD1C	ENSG00000171988	ENST00000399251	protein_coding	KNOWN	None	12313	4443	1480	64926990	65225722	-1	TRIP8	DKFZp761F0118, KIAA1380, FLJ14374
GL000220.1	RNA28S5	ENSG00000266658	ENST00000607521	non_coding	KNOWN	None	37659	None	None	113348	118417	1	RN28S1	None
GL000220.1	RNA28S5	ENSG00000266658	ENST00000579027	miRNA	KNOWN	None	37659	None	None	114151	114242	1	RN28S1	None
GL000220.1	RNA28S5	ENSG00000266658	ENST00000582153	miRNA	KNOWN	None	37659	None	None	118197	118253	1	RN28S1	None
19	PPAP2C	ENSG00000141934	ENST00000269812	protein_coding	KNOWN	CCDS12023	9230	867	288	281040	291386	-1	None	PAP-2c, LPP2
19	PPAP2C	ENSG00000141934	ENST00000434325	protein_coding	KNOWN	CCDS45889	9230	699	232	281345	291393	-1	None	PAP-2c, LPP2
19	PPAP2C	ENSG00000141934	ENST00000327790	protein_coding	KNOWN	CCDS12024	9230	930	309	281388	291170	-1	None	PAP-2c, LPP2
19	PPAP2C	ENSG00000141934	ENST00000586998	protein_coding	PUTATIVE	None	9230	410	135	281991	287636	-1	None	PAP-2c, LPP2
19	PPAP2C	ENSG00000141934	ENST00000589672	retained_intron	KNOWN	None	9230	None	None	287161	288530	-1	None	PAP-2c, LPP2
19	PPAP2C	ENSG00000141934	ENST00000591572	protein_coding	NOVEL	None	9230	500	165	287474	291382	-1	None	PAP-2c, LPP2
X	None	ENSG00000235224	ENST00000433923	processed_pseudogene	KNOWN	None	None	None	None	53142200	53142456	-1	None	None
11	RNU6-1243P	ENSG00000200898	ENST00000364028	snRNA	KNOWN	None	48206	None	None	61705366	61705472	1	None	None
2	ANKRD36	ENSG00000135976	ENST00000461153	protein_coding	KNOWN	CCDS54379	24079	5826	1941	97779233	97915936	1	None	UNQ2430
2	ANKRD36	ENSG00000135976	ENST00000452478	retained_intron	KNOWN	None	24079	None	None	97779289	97784566	1	None	UNQ2430
2	ANKRD36	ENSG00000135976	ENST00000421946	retained_intron	KNOWN	None	24079	None	None	97878464	97914787	1	None	UNQ2430
2	ANKRD36	ENSG00000135976	ENST00000494336	retained_intron	KNOWN	None	24079	None	None	97911337	97915915	1	None	UNQ2430
2	ANKRD36	ENSG00000135976	ENST00000420699	protein_coding	KNOWN	CCDS54379	24079	5826	1941	97779233	97930258	1	None	UNQ2430
2	ANKRD36	ENSG00000135976	ENST00000357042	protein_coding	KNOWN	None	24079	384	127	97911580	97918145	1	None	UNQ2430
11	None	ENSG00000244176	ENST00000491725	processed_pseudogene	KNOWN	None	None	None	None	61779223	61780074	-1	None	None
HSCHR3_1_CTG1	None	ENSG00000266695	ENST00000583605	unprocessed_pseudogene	KNOWN	None	None	None	None	11953029	11954160	-1	None	None
11	None	ENSG00000254965	ENST00000525775	processed_pseudogene	KNOWN	None	None	None	None	82822102	82822484	-1	None	None
12	BTBD11	ENSG00000151136	ENST00000280758	protein_coding	KNOWN	CCDS31893	23844	3315	1104	107712190	108053419	1	None	FLJ33957, ABTB2B
12	BTBD11	ENSG00000151136	ENST00000420571	protein_coding	KNOWN	None	23844	2958	985	107712198	108051495	1	None	FLJ33957, ABTB2B
12	BTBD11	ENSG00000151136	ENST00000490090	protein_coding	KNOWN	None	23844	3024	1007	107712718	108044674	1	None	FLJ33957, ABTB2B
12	BTBD11	ENSG00000151136	ENST00000550706	protein_coding	NOVEL	None	23844	667	221	107713675	108004097	1	None	FLJ33957, ABTB2B
12	BTBD11	ENSG00000151136	ENST00000415943	protein_coding	PUTATIVE	None	23844	712	236	107714365	108004133	1	None	FLJ33957, ABTB2B
12	BTBD11	ENSG00000151136	ENST00000357167	protein_coding	KNOWN	CCDS41827	23844	1926	641	107974427	108053419	1	None	FLJ33957, ABTB2B
12	BTBD11	ENSG00000151136	ENST00000494235	protein_coding	KNOWN	None	23844	552	183	108028609	108051495	1	None	FLJ33957, ABTB2B
10	POLL	ENSG00000166169	ENST00000463515	processed_transcript	KNOWN	None	9184	None	None	103338639	103341982	-1	None	None
10	POLL	ENSG00000166169	ENST00000370168	protein_coding	KNOWN	None	9184	747	248	103338639	103342950	-1	None	None
10	POLL	ENSG00000166169	ENST00000370169	protein_coding	KNOWN	CCDS7513	9184	1728	575	103338639	103347178	-1	None	None
10	POLL	ENSG00000166169	ENST00000339310	protein_coding	KNOWN	None	9184	897	298	103338639	103347883	-1	None	None
10	POLL	ENSG00000166169	ENST00000299206	protein_coding	KNOWN	CCDS7513	9184	1728	575	103338639	103347966	-1	None	None
10	POLL	ENSG00000166169	ENST00000370172	protein_coding	KNOWN	None	9184	1464	487	103338639	103348005	-1	None	None
10	POLL	ENSG00000166169	ENST00000415897	protein_coding	KNOWN	None	9184	1411	469	103339272	103347163	-1	None	None
10	POLL	ENSG00000166169	ENST00000485369	processed_transcript	KNOWN	None	9184	None	None	103339432	103344676	-1	None	None
10	POLL	ENSG00000166169	ENST00000429502	protein_coding	KNOWN	None	9184	654	217	103339453	103347989	-1	None	None
10	POLL	ENSG00000166169	ENST00000470140	processed_transcript	KNOWN	None	9184	None	None	103340009	103347985	-1	None	None
10	POLL	ENSG00000166169	ENST00000426919	protein_coding	KNOWN	None	9184	1004	333	103343359	103347162	-1	None	None
10	POLL	ENSG00000166169	ENST00000454524	protein_coding	KNOWN	None	9184	455	150	103344368	103346957	-1	None	None
10	POLL	ENSG00000166169	ENST00000413344	protein_coding	KNOWN	None	9184	806	267	103344444	103347987	-1	None	None
10	POLL	ENSG00000166169	ENST00000461587	processed_transcript	KNOWN	None	9184	None	None	103344551	103347999	-1	None	None
10	POLL	ENSG00000166169	ENST00000430045	protein_coding	KNOWN	None	9184	565	187	103345081	103347989	-1	None	None
10	POLL	ENSG00000166169	ENST00000370162	protein_coding	KNOWN	CCDS7513	9184	1728	575	103338641	103348027	-1	None	None
10	POLL	ENSG00000166169	ENST00000370158	protein_coding	KNOWN	None	9184	903	300	103338641	103347883	-1	None	None
10	POLL	ENSG00000166169	ENST00000456836	protein_coding	KNOWN	None	9184	939	312	103338733	103347976	-1	None	None
10	POLL	ENSG00000166169	ENST00000436284	protein_coding	KNOWN	None	9184	516	171	103342847	103348012	-1	None	None
13	OR7E37P	ENSG00000215480	ENST00000421076	processed_pseudogene	KNOWN	None	8410	None	None	42016906	42017786	1	None	hg533
12	None	ENSG00000256157	ENST00000545978	processed_pseudogene	KNOWN	None	None	None	None	20997999	20998194	1	None	None
17	EIF1	ENSG00000173812	ENST00000462917	retained_intron	KNOWN	None	3249	None	None	39845137	39847898	1	None	EIF-1, ISO1, A121, SUI1, EIF1A
17	EIF1	ENSG00000173812	ENST00000591776	protein_coding	PUTATIVE	None	3249	366	121	39845139	39847464	1	None	EIF-1, ISO1, A121, SUI1, EIF1A
17	EIF1	ENSG00000173812	ENST00000469257	protein_coding	KNOWN	CCDS11403	3249	342	113	39845145	39848920	1	None	EIF-1, ISO1, A121, SUI1, EIF1A
17	EIF1	ENSG00000173812	ENST00000482111	retained_intron	KNOWN	None	3249	None	None	39845147	39847874	1	None	EIF-1, ISO1, A121, SUI1, EIF1A
17	EIF1	ENSG00000173812	ENST00000310837	processed_transcript	KNOWN	None	3249	None	None	39845153	39847882	1	None	EIF-1, ISO1, A121, SUI1, EIF1A
17	EIF1	ENSG00000173812	ENST00000469308	processed_transcript	KNOWN	None	3249	None	None	39845187	39847251	1	None	EIF-1, ISO1, A121, SUI1, EIF1A
17	EIF1	ENSG00000173812	ENST00000586699	protein_coding	PUTATIVE	None	3249	162	53	39846155	39846872	1	None	EIF-1, ISO1, A121, SUI1, EIF1A
3	None	ENSG00000248787	ENST00000510244	lincRNA	KNOWN	None	None	None	None	125626848	125629115	-1	None	None
12	DDX55	ENSG00000111364	ENST00000542286	retained_intron	KNOWN	None	20085	None	None	124086624	124104263	1	None	KIAA1595
12	DDX55	ENSG00000111364	ENST00000544429	retained_intron	KNOWN	None	20085	None	None	124086644	124092317	1	None	KIAA1595
12	DDX55	ENSG00000111364	ENST00000545042	retained_intron	KNOWN	None	20085	None	None	124086646	124092209	1	None	KIAA1595
12	DDX55	ENSG00000111364	ENST00000238146	protein_coding	KNOWN	CCDS9251	20085	1803	600	124086646	124105488	1	None	KIAA1595
12	DDX55	ENSG00000111364	ENST00000544738	nonsense_mediated_decay	KNOWN	None	20085	153	50	124086672	124102417	1	None	KIAA1595
12	DDX55	ENSG00000111364	ENST00000540763	nonsense_mediated_decay	KNOWN	None	20085	129	42	124086675	124094650	1	None	KIAA1595
12	DDX55	ENSG00000111364	ENST00000538744	protein_coding	NOVEL	None	20085	1710	569	124086675	124104691	1	None	KIAA1595
12	DDX55	ENSG00000111364	ENST00000354291	nonsense_mediated_decay	KNOWN	None	20085	576	191	124086677	124101150	1	None	KIAA1595
12	DDX55	ENSG00000111364	ENST00000536079	retained_intron	KNOWN	None	20085	None	None	124086690	124094617	1	None	KIAA1595
12	DDX55	ENSG00000111364	ENST00000539934	retained_intron	KNOWN	None	20085	None	None	124089420	124102700	1	None	KIAA1595
12	DDX55	ENSG00000111364	ENST00000541259	processed_transcript	KNOWN	None	20085	None	None	124097762	124104175	1	None	KIAA1595
12	DDX55	ENSG00000111364	ENST00000543016	retained_intron	KNOWN	None	20085	None	None	124101105	124103325	1	None	KIAA1595
12	DDX55	ENSG00000111364	ENST00000421670	protein_coding	PUTATIVE	None	20085	624	207	124102563	124104969	1	None	KIAA1595
12	METTL20	ENSG00000139160	ENST00000412352	protein_coding	KNOWN	CCDS8724	28739	789	262	31800094	31821009	1	C12orf72	DKFZp451L235, MGC50559
12	METTL20	ENSG00000139160	ENST00000395763	protein_coding	KNOWN	CCDS8724	28739	789	262	31812121	31821901	1	C12orf72	DKFZp451L235, MGC50559
12	METTL20	ENSG00000139160	ENST00000538463	protein_coding	KNOWN	CCDS8724	28739	789	262	31812622	31821314	1	C12orf72	DKFZp451L235, MGC50559
12	METTL20	ENSG00000139160	ENST00000357721	protein_coding	KNOWN	CCDS8724	28739	789	262	31812622	31826048	1	C12orf72	DKFZp451L235, MGC50559
12	METTL20	ENSG00000139160	ENST00000539633	protein_coding	KNOWN	None	28739	216	71	31812645	31815103	1	C12orf72	DKFZp451L235, MGC50559
12	METTL20	ENSG00000139160	ENST00000538391	protein_coding	PUTATIVE	None	28739	345	114	31814871	31821316	1	C12orf72	DKFZp451L235, MGC50559
11	None	ENSG00000254424	ENST00000529409	processed_pseudogene	KNOWN	None	None	None	None	61840354	61840524	-1	None	None
1	None	ENSG00000224956	ENST00000506640	unprocessed_pseudogene	KNOWN	None	None	None	None	661611	663527	-1	None	None
3	TRMT112P5	ENSG00000250161	ENST00000511173	processed_pseudogene	KNOWN	None	44024	None	None	139563920	139564253	-1	None	None
10	C10orf71	ENSG00000177354	ENST00000374144	protein_coding	KNOWN	CCDS44387	26973	4308	1435	50507238	50535532	1	None	FLJ45913
10	C10orf71	ENSG00000177354	ENST00000470615	processed_transcript	KNOWN	None	26973	None	None	50507319	50524292	1	None	FLJ45913
10	C10orf71	ENSG00000177354	ENST00000323868	protein_coding	KNOWN	None	26973	2160	719	50507187	50535537	1	None	FLJ45913
13	NEK5	ENSG00000197168	ENST00000529080	processed_transcript	KNOWN	None	7748	None	None	52611093	52636268	-1	None	None
13	NEK5	ENSG00000197168	ENST00000465811	nonsense_mediated_decay	KNOWN	None	7748	942	313	52611216	52701618	-1	None	None
13	NEK5	ENSG00000197168	ENST00000355568	protein_coding	KNOWN	CCDS31979	7748	2127	708	52638892	52703214	-1	None	None
17	USP32P2	ENSG00000233327	ENST00000425211	processed_transcript	KNOWN	None	30751	None	None	18414535	18445234	-1	None	TL132
17	USP32P2	ENSG00000233327	ENST00000412260	processed_transcript	KNOWN	None	30751	None	None	18414576	18424120	-1	None	TL132
17	USP32P2	ENSG00000233327	ENST00000581595	processed_transcript	KNOWN	None	30751	None	None	18416592	18432008	-1	None	TL132
17	USP32P2	ENSG00000233327	ENST00000508093	transcribed_unprocessed_pseudogene	KNOWN	None	30751	None	None	18416599	18422988	-1	None	TL132
17	USP32P2	ENSG00000233327	ENST00000414432	retained_intron	KNOWN	None	30751	None	None	18417386	18424566	-1	None	TL132
17	USP32P2	ENSG00000233327	ENST00000421108	processed_transcript	KNOWN	None	30751	None	None	18418989	18422885	-1	None	TL132
17	USP32P2	ENSG00000233327	ENST00000577869	processed_transcript	PUTATIVE	None	30751	None	None	18420507	18424438	-1	None	TL132
17	USP32P2	ENSG00000233327	ENST00000420856	processed_transcript	PUTATIVE	None	30751	None	None	18420604	18432126	-1	None	TL132
17	USP32P2	ENSG00000233327	ENST00000578409	processed_transcript	PUTATIVE	None	30751	None	None	18420633	18426609	-1	None	TL132
HG256_PATCH	SPON1	ENSG00000262655	ENST00000576479	protein_coding	KNOWN	None	11252	2424	807	13984236	14289351	1	None	KIAA0762, f-spondin
HG256_PATCH	SPON1	ENSG00000262655	ENST00000591785	retained_intron	KNOWN	None	11252	None	None	14283994	14287546	1	None	KIAA0762, f-spondin
11	BCAS2P1	ENSG00000255051	ENST00000528022	processed_pseudogene	KNOWN	None	39594	None	None	82843098	82845779	1	None	None
11	None	ENSG00000201204	ENST00000364334	misc_RNA	NOVEL	None	None	None	None	95206436	95206538	-1	None	None
5	MIR218-2	ENSG00000207739	ENST00000385006	miRNA	KNOWN	None	31596	None	None	168195151	168195260	-1	MIRN218-2	hsa-mir-218-2
15	TM6SF1	ENSG00000136404	ENST00000322019	protein_coding	KNOWN	CCDS10323	11860	1113	370	83776159	83806111	1	None	None
15	TM6SF1	ENSG00000136404	ENST00000379390	protein_coding	PUTATIVE	None	11860	567	188	83776324	83806160	1	None	None
15	TM6SF1	ENSG00000136404	ENST00000379384	nonsense_mediated_decay	KNOWN	None	11860	402	133	83776400	83806033	1	None	None
15	TM6SF1	ENSG00000136404	ENST00000258909	nonsense_mediated_decay	KNOWN	None	11860	438	145	83776410	83806160	1	None	None
15	TM6SF1	ENSG00000136404	ENST00000565774	protein_coding	KNOWN	CCDS45338	11860	1020	339	83776433	83805424	1	None	None
15	TM6SF1	ENSG00000136404	ENST00000564988	processed_transcript	KNOWN	None	11860	None	None	83776435	83788838	1	None	None
15	TM6SF1	ENSG00000136404	ENST00000565982	protein_coding	PUTATIVE	None	11860	499	165	83776463	83795570	1	None	None
15	TM6SF1	ENSG00000136404	ENST00000561551	protein_coding	PUTATIVE	None	11860	92	29	83796156	83813606	1	None	None
15	TM6SF1	ENSG00000136404	ENST00000379386	protein_coding	KNOWN	None	11860	1122	373	83776324	83806111	1	None	None
10	None	ENSG00000234244	ENST00000427232	lincRNA	KNOWN	None	None	None	None	19035362	19036782	1	None	None
3	None	ENSG00000225662	ENST00000424588	processed_pseudogene	KNOWN	None	None	None	None	62764851	62765460	-1	None	None
11	None	ENSG00000250390	ENST00000511947	lincRNA	KNOWN	None	None	None	None	95215570	95230717	1	None	None
5	None	ENSG00000202345	ENST00000365475	misc_RNA	NOVEL	None	None	None	None	168218503	168218615	1	None	None
9	ABCA2	ENSG00000107331	ENST00000341511	protein_coding	KNOWN	CCDS43909	32	7311	2436	139901686	139922642	-1	ABC2	None
9	ABCA2	ENSG00000107331	ENST00000479446	nonsense_mediated_decay	KNOWN	None	32	4325	1440	139901694	139912671	-1	ABC2	None
9	ABCA2	ENSG00000107331	ENST00000459850	nonsense_mediated_decay	KNOWN	None	32	6075	2024	139901829	139923367	-1	ABC2	None
9	ABCA2	ENSG00000107331	ENST00000487109	nonsense_mediated_decay	KNOWN	None	32	2970	989	139901829	139923367	-1	ABC2	None
9	ABCA2	ENSG00000107331	ENST00000464520	retained_intron	KNOWN	None	32	None	None	139902109	139903635	-1	ABC2	None
9	ABCA2	ENSG00000107331	ENST00000490486	protein_coding	NOVEL	None	32	588	195	139902303	139904030	-1	ABC2	None
9	ABCA2	ENSG00000107331	ENST00000448336	protein_coding	NOVEL	None	32	554	183	139902385	139903922	-1	ABC2	None
9	ABCA2	ENSG00000107331	ENST00000464157	processed_transcript	KNOWN	None	32	None	None	139902688	139903240	-1	ABC2	None
9	ABCA2	ENSG00000107331	ENST00000463603	processed_transcript	KNOWN	None	32	None	None	139903803	139905468	-1	ABC2	None
9	ABCA2	ENSG00000107331	ENST00000437791	processed_transcript	KNOWN	None	32	None	None	139903859	139904836	-1	ABC2	None
9	ABCA2	ENSG00000107331	ENST00000431584	retained_intron	KNOWN	None	32	None	None	139905929	139907401	-1	ABC2	None
9	ABCA2	ENSG00000107331	ENST00000488535	nonsense_mediated_decay	KNOWN	None	32	3201	1066	139906777	139912663	-1	ABC2	None
9	ABCA2	ENSG00000107331	ENST00000466707	processed_transcript	KNOWN	None	32	None	None	139912014	139912670	-1	ABC2	None
9	ABCA2	ENSG00000107331	ENST00000492260	processed_transcript	KNOWN	None	32	None	None	139912664	139922623	-1	ABC2	None
9	ABCA2	ENSG00000107331	ENST00000470535	protein_coding	NOVEL	None	32	586	194	139913235	139915257	-1	ABC2	None
9	ABCA2	ENSG00000107331	ENST00000467624	processed_transcript	KNOWN	None	32	None	None	139913407	139913815	-1	ABC2	None
9	ABCA2	ENSG00000107331	ENST00000464876	nonsense_mediated_decay	KNOWN	None	32	171	56	139913878	139922630	-1	ABC2	None
9	ABCA2	ENSG00000107331	ENST00000494046	retained_intron	KNOWN	None	32	None	None	139914635	139922636	-1	ABC2	None
9	ABCA2	ENSG00000107331	ENST00000476211	retained_intron	KNOWN	None	32	None	None	139916119	139923329	-1	ABC2	None
9	ABCA2	ENSG00000107331	ENST00000398207	processed_transcript	KNOWN	None	32	None	None	139916233	139923325	-1	ABC2	None
9	ABCA2	ENSG00000107331	ENST00000425423	retained_intron	KNOWN	None	32	None	None	139918265	139923259	-1	ABC2	None
9	ABCA2	ENSG00000107331	ENST00000265662	protein_coding	KNOWN	None	32	7311	2436	139901686	139922740	-1	ABC2	None
9	ABCA2	ENSG00000107331	ENST00000371605	protein_coding	KNOWN	None	32	7308	2435	139901686	139922740	-1	ABC2	None
HSCHR6_MHC_COX	DDX39BP1	ENSG00000233241	ENST00000437174	unprocessed_pseudogene	KNOWN	None	33450	None	None	29865828	29866194	1	BAT1P1	None
5	None	ENSG00000248965	ENST00000514811	antisense	KNOWN	None	None	None	None	168420005	168422682	1	None	None
12	None	ENSG00000256915	ENST00000540875	lincRNA	KNOWN	None	None	None	None	66038114	66057079	1	None	None
12	None	ENSG00000256915	ENST00000545188	lincRNA	KNOWN	None	None	None	None	66038177	66041635	1	None	None
HSCHR6_MHC_COX	MCCD1P1	ENSG00000231998	ENST00000436376	unprocessed_pseudogene	KNOWN	None	33449	None	None	29867067	29867931	-1	None	OTTHUMG00000130506
5	WDR36	ENSG00000134987	ENST00000506538	protein_coding	KNOWN	CCDS4102	30696	2856	951	110427414	110466200	1	GLC1G	TA-WDRP, UTP21
5	WDR36	ENSG00000134987	ENST00000513710	protein_coding	NOVEL	CCDS4102	30696	2856	951	110427983	110462643	1	GLC1G	TA-WDRP, UTP21
5	WDR36	ENSG00000134987	ENST00000505303	protein_coding	NOVEL	None	30696	1746	581	110428019	110447251	1	GLC1G	TA-WDRP, UTP21
5	WDR36	ENSG00000134987	ENST00000515784	retained_intron	KNOWN	None	30696	None	None	110428045	110430907	1	GLC1G	TA-WDRP, UTP21
5	WDR36	ENSG00000134987	ENST00000504122	protein_coding	PUTATIVE	None	30696	453	150	110432705	110439559	1	GLC1G	TA-WDRP, UTP21
HG1308_PATCH	MEST	ENSG00000264872	ENST00000585116	protein_coding	KNOWN	None	7028	981	326	130126046	130146133	1	None	PEG1
HG1308_PATCH	MEST	ENSG00000264872	ENST00000583523	protein_coding	NOVEL	None	7028	697	231	130126177	130142561	1	None	PEG1
HG1308_PATCH	MEST	ENSG00000264872	ENST00000578652	protein_coding	NOVEL	None	7028	879	292	130126195	130146133	1	None	PEG1
HG1308_PATCH	MEST	ENSG00000264872	ENST00000583792	protein_coding	NOVEL	None	7028	879	292	130126195	130146133	1	None	PEG1
HG1308_PATCH	MEST	ENSG00000264872	ENST00000581293	protein_coding	KNOWN	None	7028	353	116	130126812	130138020	1	None	PEG1
HG1308_PATCH	MEST	ENSG00000264872	ENST00000581984	protein_coding	KNOWN	None	7028	482	159	130126967	130138292	1	None	PEG1
HG1308_PATCH	MEST	ENSG00000264872	ENST00000578398	protein_coding	KNOWN	None	7028	621	206	130131174	130140374	1	None	PEG1
HG1308_PATCH	MEST	ENSG00000264872	ENST00000580802	protein_coding	KNOWN	None	7028	1008	335	130131934	130146133	1	None	PEG1
HG1308_PATCH	MEST	ENSG00000264872	ENST00000581860	protein_coding	NOVEL	None	7028	891	296	130131941	130145194	1	None	PEG1
HG1308_PATCH	MEST	ENSG00000264872	ENST00000580673	processed_transcript	PUTATIVE	None	7028	None	None	130132236	130135388	1	None	PEG1
HG1308_PATCH	MEST	ENSG00000264872	ENST00000580211	protein_coding	KNOWN	None	7028	380	125	130132313	130138047	1	None	PEG1
HG1308_PATCH	MEST	ENSG00000264872	ENST00000579484	protein_coding	KNOWN	None	7028	508	168	130134371	130138318	1	None	PEG1
HG1308_PATCH	MEST	ENSG00000264872	ENST00000582425	processed_transcript	KNOWN	None	7028	None	None	130137007	130142577	1	None	PEG1
HG1308_PATCH	MEST	ENSG00000264872	ENST00000585248	retained_intron	KNOWN	None	7028	None	None	130137518	130138642	1	None	PEG1
HG1308_PATCH	MEST	ENSG00000264872	ENST00000580369	retained_intron	KNOWN	None	7028	None	None	130138066	130139883	1	None	PEG1
HG1308_PATCH	MEST	ENSG00000264872	ENST00000579657	protein_coding	NOVEL	None	7028	522	173	130138067	130145139	1	None	PEG1
HG1308_PATCH	MEST	ENSG00000264872	ENST00000585231	retained_intron	KNOWN	None	7028	None	None	130138221	130140910	1	None	PEG1
6	HIVEP1	ENSG00000095951	ENST00000491710	protein_coding	KNOWN	None	4920	362	119	12008995	12120390	1	ZNF40	CIRIP, MBP-1, CRYBP1, PRDII-BF1, ZAS1, Schnurri-1, ZNF40A
6	HIVEP1	ENSG00000095951	ENST00000487103	protein_coding	KNOWN	None	4920	427	141	12012233	12120455	1	ZNF40	CIRIP, MBP-1, CRYBP1, PRDII-BF1, ZAS1, Schnurri-1, ZNF40A
6	HIVEP1	ENSG00000095951	ENST00000379388	protein_coding	KNOWN	CCDS43426	4920	8157	2718	12012571	12165232	1	ZNF40	CIRIP, MBP-1, CRYBP1, PRDII-BF1, ZAS1, Schnurri-1, ZNF40A
6	HIVEP1	ENSG00000095951	ENST00000442081	protein_coding	PUTATIVE	None	4920	721	239	12012724	12162124	1	ZNF40	CIRIP, MBP-1, CRYBP1, PRDII-BF1, ZAS1, Schnurri-1, ZNF40A
6	HIVEP1	ENSG00000095951	ENST00000478545	protein_coding	KNOWN	None	4920	385	127	12012935	12120413	1	ZNF40	CIRIP, MBP-1, CRYBP1, PRDII-BF1, ZAS1, Schnurri-1, ZNF40A
6	HIVEP1	ENSG00000095951	ENST00000484210	protein_coding	PUTATIVE	None	4920	144	47	12015820	12039478	1	ZNF40	CIRIP, MBP-1, CRYBP1, PRDII-BF1, ZAS1, Schnurri-1, ZNF40A
6	HIVEP1	ENSG00000095951	ENST00000399469	nonsense_mediated_decay	KNOWN	None	4920	131	42	12125979	12164808	1	ZNF40	CIRIP, MBP-1, CRYBP1, PRDII-BF1, ZAS1, Schnurri-1, ZNF40A
6	HIVEP1	ENSG00000095951	ENST00000541134	protein_coding	KNOWN	None	4920	1752	583	12125979	12164808	1	ZNF40	CIRIP, MBP-1, CRYBP1, PRDII-BF1, ZAS1, Schnurri-1, ZNF40A
17	ALDH3A2	ENSG00000072210	ENST00000446398	protein_coding	KNOWN	None	403	498	165	19551449	19559705	1	SLS, ALDH10	FALDH
17	ALDH3A2	ENSG00000072210	ENST00000467473	retained_intron	KNOWN	None	403	None	None	19551459	19555968	1	SLS, ALDH10	FALDH
17	ALDH3A2	ENSG00000072210	ENST00000580550	protein_coding	KNOWN	None	403	439	145	19551487	19555913	1	SLS, ALDH10	FALDH
17	ALDH3A2	ENSG00000072210	ENST00000176643	protein_coding	KNOWN	CCDS11210	403	1458	485	19551839	19580909	1	SLS, ALDH10	FALDH
17	ALDH3A2	ENSG00000072210	ENST00000582991	nonsense_mediated_decay	KNOWN	None	403	1182	393	19552036	19579430	1	SLS, ALDH10	FALDH
17	ALDH3A2	ENSG00000072210	ENST00000581518	protein_coding	KNOWN	CCDS32589	403	1527	508	19552036	19579838	1	SLS, ALDH10	FALDH
17	ALDH3A2	ENSG00000072210	ENST00000395575	protein_coding	KNOWN	CCDS11210	403	1458	485	19552036	19580909	1	SLS, ALDH10	FALDH
17	ALDH3A2	ENSG00000072210	ENST00000584332	protein_coding	PUTATIVE	None	403	380	125	19552064	19559683	1	SLS, ALDH10	FALDH
17	ALDH3A2	ENSG00000072210	ENST00000339618	protein_coding	KNOWN	CCDS32589	403	1527	508	19552064	19580909	1	SLS, ALDH10	FALDH
17	ALDH3A2	ENSG00000072210	ENST00000579855	protein_coding	KNOWN	CCDS11210	403	1458	485	19552064	19580911	1	SLS, ALDH10	FALDH
17	ALDH3A2	ENSG00000072210	ENST00000578614	nonsense_mediated_decay	KNOWN	None	403	165	54	19552091	19559772	1	SLS, ALDH10	FALDH
17	ALDH3A2	ENSG00000072210	ENST00000472059	nonsense_mediated_decay	KNOWN	None	403	549	182	19552164	19580909	1	SLS, ALDH10	FALDH
17	ALDH3A2	ENSG00000072210	ENST00000579403	retained_intron	KNOWN	None	403	None	None	19552239	19556010	1	SLS, ALDH10	FALDH
17	ALDH3A2	ENSG00000072210	ENST00000476965	retained_intron	KNOWN	None	403	None	None	19559458	19579060	1	SLS, ALDH10	FALDH
17	ALDH3A2	ENSG00000072210	ENST00000571537	protein_coding	PUTATIVE	None	403	489	162	19559715	19564755	1	SLS, ALDH10	FALDH
17	ALDH3A2	ENSG00000072210	ENST00000578696	protein_coding	NOVEL	None	403	400	132	19559801	19566674	1	SLS, ALDH10	FALDH
17	ALDH3A2	ENSG00000072210	ENST00000574078	processed_transcript	KNOWN	None	403	None	None	19562886	19566812	1	SLS, ALDH10	FALDH
17	ALDH3A2	ENSG00000072210	ENST00000571163	protein_coding	NOVEL	None	403	294	97	19566687	19579234	1	SLS, ALDH10	FALDH
17	ALDH3A2	ENSG00000072210	ENST00000573947	nonsense_mediated_decay	KNOWN	None	403	189	62	19566699	19579092	1	SLS, ALDH10	FALDH
17	ALDH3A2	ENSG00000072210	ENST00000575384	protein_coding	NOVEL	None	403	258	85	19575081	19579055	1	SLS, ALDH10	FALDH
17	ALDH3A2	ENSG00000072210	ENST00000573565	nonsense_mediated_decay	KNOWN	None	403	176	57	19575112	19579220	1	SLS, ALDH10	FALDH
17	ALDH3A2	ENSG00000072210	ENST00000574597	processed_transcript	KNOWN	None	403	None	None	19575665	19579193	1	SLS, ALDH10	FALDH
17	ALDH3A2	ENSG00000072210	ENST00000573505	retained_intron	KNOWN	None	403	None	None	19577397	19580908	1	SLS, ALDH10	FALDH
13	None	ENSG00000264989	ENST00000578654	miRNA	NOVEL	None	None	None	None	112563079	112563148	-1	None	None
11	MS4A14	ENSG00000166928	ENST00000531787	protein_coding	KNOWN	None	30706	1704	567	60146003	60185161	1	MS4A16	NYD-SP21, FLJ32856, DKFZp434H092
11	MS4A14	ENSG00000166928	ENST00000300187	protein_coding	KNOWN	CCDS31569	30706	2040	679	60163775	60185161	1	MS4A16	NYD-SP21, FLJ32856, DKFZp434H092
11	MS4A14	ENSG00000166928	ENST00000395005	protein_coding	KNOWN	CCDS41652	30706	1989	662	60163908	60185161	1	MS4A16	NYD-SP21, FLJ32856, DKFZp434H092
11	MS4A14	ENSG00000166928	ENST00000526375	protein_coding	NOVEL	None	30706	445	147	60163938	60173389	1	MS4A16	NYD-SP21, FLJ32856, DKFZp434H092
11	MS4A14	ENSG00000166928	ENST00000530662	nonsense_mediated_decay	KNOWN	None	30706	462	153	60163941	60185158	1	MS4A16	NYD-SP21, FLJ32856, DKFZp434H092
11	MS4A14	ENSG00000166928	ENST00000527841	nonsense_mediated_decay	KNOWN	None	30706	462	153	60163941	60185158	1	MS4A16	NYD-SP21, FLJ32856, DKFZp434H092
11	MS4A14	ENSG00000166928	ENST00000525397	nonsense_mediated_decay	KNOWN	None	30706	513	170	60163953	60185036	1	MS4A16	NYD-SP21, FLJ32856, DKFZp434H092
11	MS4A14	ENSG00000166928	ENST00000531783	protein_coding	NOVEL	CCDS58136	30706	2139	712	60163961	60185161	1	MS4A16	NYD-SP21, FLJ32856, DKFZp434H092
11	MS4A14	ENSG00000166928	ENST00000531949	nonsense_mediated_decay	KNOWN	None	30706	285	94	60163969	60167925	1	MS4A16	NYD-SP21, FLJ32856, DKFZp434H092
11	MS4A14	ENSG00000166928	ENST00000534688	protein_coding	PUTATIVE	None	30706	419	138	60164176	60170641	1	MS4A16	NYD-SP21, FLJ32856, DKFZp434H092
11	MS4A14	ENSG00000166928	ENST00000395001	protein_coding	KNOWN	None	30706	177	58	60163980	60183766	1	MS4A16	NYD-SP21, FLJ32856, DKFZp434H092
10	None	ENSG00000234813	ENST00000441557	processed_pseudogene	KNOWN	None	None	None	None	19229430	19229882	1	None	None
17	MAP3K14	ENSG00000006062	ENST00000587332	processed_transcript	KNOWN	None	6853	None	None	43340495	43394406	-1	None	NIK, HSNIK, FTDCR1B, HS
17	MAP3K14	ENSG00000006062	ENST00000592267	retained_intron	KNOWN	None	6853	None	None	43340502	43351333	-1	None	NIK, HSNIK, FTDCR1B, HS
17	MAP3K14	ENSG00000006062	ENST00000586644	retained_intron	KNOWN	None	6853	None	None	43348119	43350969	-1	None	NIK, HSNIK, FTDCR1B, HS
17	MAP3K14	ENSG00000006062	ENST00000344686	processed_transcript	KNOWN	None	6853	None	None	43340488	43394414	-1	None	NIK, HSNIK, FTDCR1B, HS
17	MAP3K14	ENSG00000006062	ENST00000376926	processed_transcript	KNOWN	None	6853	None	None	43348119	43364324	-1	None	NIK, HSNIK, FTDCR1B, HS
8	None	ENSG00000271966	ENST00000607397	lincRNA	KNOWN	None	None	None	None	68256210	68257322	1	None	None
13	None	ENSG00000200072	ENST00000363202	snoRNA	NOVEL	None	None	None	None	112706392	112706452	1	None	None
3	FAM86JP	ENSG00000171084	ENST00000467239	processed_transcript	KNOWN	None	44097	None	None	125635463	125648853	1	None	None
3	FAM86JP	ENSG00000171084	ENST00000484500	transcribed_unprocessed_pseudogene	KNOWN	None	44097	None	None	125635467	125647438	1	None	None
3	FAM86JP	ENSG00000171084	ENST00000486431	processed_transcript	KNOWN	None	44097	None	None	125635468	125648832	1	None	None
3	FAM86JP	ENSG00000171084	ENST00000485843	processed_transcript	KNOWN	None	44097	None	None	125635473	125648867	1	None	None
13	None	ENSG00000260385	ENST00000567967	lincRNA	KNOWN	None	None	None	None	112737863	112739785	1	None	None
1	None	ENSG00000235373	ENST00000416385	lincRNA	KNOWN	None	None	None	None	677193	685396	-1	None	None
16	None	ENSG00000205452	ENST00000380145	processed_transcript	KNOWN	None	None	None	None	33775379	33777744	-1	None	None
16	None	ENSG00000205452	ENST00000561642	processed_transcript	KNOWN	None	None	None	None	33775514	33778813	-1	None	None
16	None	ENSG00000205452	ENST00000569527	processed_transcript	KNOWN	None	None	None	None	33776476	33777550	-1	None	None
8	None	ENSG00000241961	ENST00000483964	processed_pseudogene	KNOWN	None	None	None	None	68318750	68319307	1	None	None
13	LINC00404	ENSG00000229520	ENST00000418660	lincRNA	KNOWN	None	42734	None	None	112760409	112761196	-1	None	None
12	None	ENSG00000256021	ENST00000540463	processed_pseudogene	KNOWN	None	None	None	None	21600479	21601248	-1	None	None
16	RNU1-125P	ENSG00000252561	ENST00000516752	snRNA	KNOWN	None	48467	None	None	3119524	3119652	1	None	None
14	None	ENSG00000254692	ENST00000530611	protein_coding	PUTATIVE	None	None	2448	815	24658363	24682679	-1	None	None
15	None	ENSG00000259727	ENST00000557900	lincRNA	KNOWN	None	None	None	None	63188011	63191742	1	None	None
5	SNORA13	ENSG00000238363	ENST00000458790	snoRNA	KNOWN	None	32601	None	None	111497182	111497314	1	None	ACA13
HSCHR19LRC_COX2_CTG1	None	ENSG00000262931	ENST00000574193	snRNA	NOVEL	None	None	None	None	55043099	55043205	-1	None	None
10	DDX50	ENSG00000107625	ENST00000373585	protein_coding	KNOWN	CCDS7283	17906	2214	737	70661034	70706603	1	None	GU2, MGC3199, GUB, RH-II/GuB
10	DDX50	ENSG00000107625	ENST00000483593	nonsense_mediated_decay	KNOWN	None	17906	120	39	70661042	70673262	1	None	GU2, MGC3199, GUB, RH-II/GuB
10	DDX50	ENSG00000107625	ENST00000471475	nonsense_mediated_decay	KNOWN	None	17906	156	51	70661073	70672986	1	None	GU2, MGC3199, GUB, RH-II/GuB
10	DDX50	ENSG00000107625	ENST00000460470	processed_transcript	KNOWN	None	17906	None	None	70673183	70694639	1	None	GU2, MGC3199, GUB, RH-II/GuB
10	DDX50	ENSG00000107625	ENST00000466265	processed_transcript	KNOWN	None	17906	None	None	70679610	70706309	1	None	GU2, MGC3199, GUB, RH-II/GuB
9	GPR144	ENSG00000180264	ENST00000334810	protein_coding	KNOWN	CCDS48016	18651	2892	963	127213423	127239379	1	None	PGR24
11	None	ENSG00000255553	ENST00000524942	lincRNA	KNOWN	None	None	None	None	61844749	61849656	-1	None	None
5	None	ENSG00000248222	ENST00000509170	antisense	KNOWN	None	None	None	None	168440232	168463413	1	None	None
5	None	ENSG00000248222	ENST00000504527	antisense	KNOWN	None	None	None	None	168440253	168445707	1	None	None
5	None	ENSG00000248222	ENST00000513790	antisense	KNOWN	None	None	None	None	168440253	168449876	1	None	None
5	None	ENSG00000248222	ENST00000508547	antisense	KNOWN	None	None	None	None	168440253	168451093	1	None	None
5	None	ENSG00000248222	ENST00000512417	antisense	KNOWN	None	None	None	None	168440253	168453636	1	None	None
5	None	ENSG00000248222	ENST00000511447	antisense	KNOWN	None	None	None	None	168440253	168463475	1	None	None
5	None	ENSG00000248222	ENST00000507092	antisense	KNOWN	None	None	None	None	168440266	168453396	1	None	None
5	None	ENSG00000248222	ENST00000508600	antisense	KNOWN	None	None	None	None	168440267	168449216	1	None	None
5	None	ENSG00000248222	ENST00000507304	antisense	KNOWN	None	None	None	None	168440269	168451992	1	None	None
5	None	ENSG00000248222	ENST00000508470	antisense	KNOWN	None	None	None	None	168457443	168465003	1	None	None
19	None	ENSG00000267606	ENST00000591630	processed_transcript	KNOWN	None	None	None	None	56865862	56877318	-1	None	None
19	None	ENSG00000267606	ENST00000586010	processed_transcript	KNOWN	None	None	None	None	56874545	56876366	-1	None	None
19	None	ENSG00000267606	ENST00000591036	processed_transcript	KNOWN	None	None	None	None	56877084	56879422	-1	None	None
HSCHR6_MHC_COX	HCG4B	ENSG00000227956	ENST00000435665	unprocessed_pseudogene	KNOWN	None	22919	None	None	29885238	29886228	-1	HCG4P6	HCGIV-6, HCGIV.5, HCGIV-06, bCX67J3.3, Em:AB023056.16, bPG309N1.1, bQB90C11.3
16	None	ENSG00000262370	ENST00000577123	lincRNA	KNOWN	None	None	None	None	3126912	3128691	-1	None	None
16	None	ENSG00000262370	ENST00000571404	lincRNA	KNOWN	None	None	None	None	3126912	3137101	-1	None	None
16	None	ENSG00000262370	ENST00000574387	lincRNA	KNOWN	None	None	None	None	3128321	3137088	-1	None	None
8	None	ENSG00000254253	ENST00000522981	processed_pseudogene	KNOWN	None	None	None	None	68481651	68482313	1	None	None
17	CACNG5	ENSG00000075429	ENST00000533854	protein_coding	KNOWN	CCDS11665	1409	828	275	64831235	64881603	1	None	None
17	CACNG5	ENSG00000075429	ENST00000307139	protein_coding	KNOWN	CCDS11665	1409	828	275	64873451	64881357	1	None	None
17	CACNG5	ENSG00000075429	ENST00000169565	protein_coding	KNOWN	None	1409	891	296	64873451	64881099	1	None	None
13	LINC00403	ENSG00000224243	ENST00000421423	lincRNA	KNOWN	None	42733	None	None	112761433	112762329	1	None	None
X	RNU7-37P	ENSG00000251707	ENST00000515898	snRNA	KNOWN	None	34133	None	None	53159663	53159723	1	None	U7.37
11	None	ENSG00000255689	ENST00000306533	lincRNA	KNOWN	None	None	None	None	115453015	115471057	1	None	None
14	MIR2392	ENSG00000266461	ENST00000584881	miRNA	KNOWN	None	41843	None	None	101280828	101280911	1	None	hsa-mir-2392
17	HEXIM2	ENSG00000168517	ENST00000307275	protein_coding	KNOWN	CCDS11496	28591	861	286	43238067	43247407	1	None	FLJ32384
17	HEXIM2	ENSG00000168517	ENST00000585340	protein_coding	PUTATIVE	None	28591	611	202	43238097	43246860	1	None	FLJ32384
17	HEXIM2	ENSG00000168517	ENST00000593138	protein_coding	KNOWN	None	28591	366	121	43238445	43246681	1	None	FLJ32384
17	HEXIM2	ENSG00000168517	ENST00000586681	protein_coding	KNOWN	None	28591	432	143	43238461	43246747	1	None	FLJ32384
17	HEXIM2	ENSG00000168517	ENST00000589230	protein_coding	KNOWN	None	28591	417	138	43239212	43246732	1	None	FLJ32384
17	HEXIM2	ENSG00000168517	ENST00000591576	protein_coding	KNOWN	CCDS11496	28591	861	286	43239262	43247402	1	None	FLJ32384
17	HEXIM2	ENSG00000168517	ENST00000591070	protein_coding	KNOWN	None	28591	237	78	43239263	43246552	1	None	FLJ32384
17	HEXIM2	ENSG00000168517	ENST00000592695	protein_coding	KNOWN	CCDS11496	28591	861	286	43239284	43247402	1	None	FLJ32384
X	ACTG1P10	ENSG00000231340	ENST00000428275	processed_pseudogene	KNOWN	None	155	None	None	53172014	53173095	-1	ACTL1, ACTGP10	None
HSCHR17_5_CTG4	KRTAP29-1	ENSG00000262218	ENST00000576125	protein_coding	KNOWN	None	34211	1026	341	39447756	39448781	-1	None	KAP29.2
HSCHR6_MHC_COX	HLA-K	ENSG00000232331	ENST00000418780	unprocessed_pseudogene	KNOWN	None	4969	None	None	29885712	29888489	1	HLAK, HLA70	HLA-70
13	SGCG	ENSG00000102683	ENST00000218867	protein_coding	KNOWN	CCDS9299	10809	876	291	23755091	23899304	1	DMDA1, MAM, LGMD2C	SCARMD2, DAGA4, SCG3, DMDA, TYPE, A4, MGC130048
13	SGCG	ENSG00000102683	ENST00000537476	protein_coding	KNOWN	CCDS9299	10809	876	291	23755105	23899080	1	DMDA1, MAM, LGMD2C	SCARMD2, DAGA4, SCG3, DMDA, TYPE, A4, MGC130048
13	SGCG	ENSG00000102683	ENST00000545013	protein_coding	KNOWN	CCDS9299	10809	876	291	23755145	23898680	1	DMDA1, MAM, LGMD2C	SCARMD2, DAGA4, SCG3, DMDA, TYPE, A4, MGC130048
12	None	ENSG00000257609	ENST00000548110	processed_pseudogene	KNOWN	None	None	None	None	82262147	82262825	1	None	None
12	None	ENSG00000256615	ENST00000541860	antisense	KNOWN	None	None	None	None	21815247	21912966	1	None	None
8	None	ENSG00000221660	ENST00000408733	miRNA	NOVEL	None	None	None	None	68623867	68623958	1	None	None
X	None	ENSG00000266700	ENST00000578198	miRNA	NOVEL	None	None	None	None	53172216	53172299	-1	None	None
14	None	ENSG00000258663	ENST00000554041	antisense	KNOWN	None	None	None	None	101300769	101327363	-1	None	None
11	None	ENSG00000236607	ENST00000534760	processed_pseudogene	KNOWN	None	None	None	None	61936765	61937300	1	None	None
16	DNASE1	ENSG00000213918	ENST00000570769	nonsense_mediated_decay	KNOWN	None	2956	261	86	3661729	3708096	1	DNL1	None
16	DNASE1	ENSG00000213918	ENST00000576050	nonsense_mediated_decay	KNOWN	None	2956	183	60	3692881	3707828	1	DNL1	None
16	DNASE1	ENSG00000213918	ENST00000570761	processed_transcript	PUTATIVE	None	2956	None	None	3692939	3702115	1	DNL1	None
16	DNASE1	ENSG00000213918	ENST00000407479	protein_coding	KNOWN	CCDS10507	2956	849	282	3692939	3708095	1	DNL1	None
16	DNASE1	ENSG00000213918	ENST00000246949	protein_coding	KNOWN	CCDS10507	2956	849	282	3701838	3708096	1	DNL1	None
16	DNASE1	ENSG00000213918	ENST00000571460	nonsense_mediated_decay	KNOWN	None	2956	183	60	3704668	3713727	1	DNL1	None
16	DNASE1	ENSG00000213918	ENST00000570520	retained_intron	KNOWN	None	2956	None	None	3704827	3706057	1	DNL1	None
16	DNASE1	ENSG00000213918	ENST00000570376	nonsense_mediated_decay	KNOWN	None	2956	183	60	3704861	3707048	1	DNL1	None
16	DNASE1	ENSG00000213918	ENST00000573804	retained_intron	KNOWN	None	2956	None	None	3706071	3707745	1	DNL1	None
16	DNASE1	ENSG00000213918	ENST00000570807	nonsense_mediated_decay	KNOWN	None	2956	272	89	3706120	3708089	1	DNL1	None
16	DNASE1	ENSG00000213918	ENST00000572237	nonsense_mediated_decay	KNOWN	None	2956	227	74	3706165	3707858	1	DNL1	None
16	DNASE1	ENSG00000213918	ENST00000570664	protein_coding	PUTATIVE	None	2956	327	108	3706712	3708096	1	DNL1	None
16	DNASE1	ENSG00000213918	ENST00000576792	protein_coding	PUTATIVE	None	2956	219	72	3707251	3708208	1	DNL1	None
16	DNASE1	ENSG00000213918	ENST00000575479	protein_coding	PUTATIVE	None	2956	197	64	3707273	3730144	1	DNL1	None
16	DNASE1	ENSG00000213918	ENST00000575152	processed_transcript	KNOWN	None	2956	None	None	3710743	3715473	1	DNL1	None
16	DNASE1	ENSG00000213918	ENST00000414110	protein_coding	KNOWN	None	2956	564	187	3704836	3713727	1	DNL1	None
13	None	ENSG00000260102	ENST00000561786	lincRNA	KNOWN	None	None	None	None	112851664	112855314	1	None	None
15	None	ENSG00000259394	ENST00000560358	processed_pseudogene	KNOWN	None	None	None	None	63245372	63246323	1	None	None
X	None	ENSG00000227329	ENST00000421137	processed_pseudogene	KNOWN	None	None	None	None	53193573	53193739	-1	None	None
11	ZNHIT2	ENSG00000174276	ENST00000528598	protein_coding	PUTATIVE	None	1177	559	185	64884072	64885145	-1	C11orf5	FON
11	ZNHIT2	ENSG00000174276	ENST00000310597	protein_coding	KNOWN	CCDS8094	1177	1212	403	64883875	64885170	-1	C11orf5	FON
3	RN7SL863P	ENSG00000244632	ENST00000462370	misc_RNA	KNOWN	None	46879	None	None	62781801	62782094	-1	None	None
11	None	ENSG00000239153	ENST00000458951	snoRNA	NOVEL	None	None	None	None	115497800	115497903	-1	None	None
19	IGFL3	ENSG00000188624	ENST00000341415	protein_coding	KNOWN	CCDS33058	32930	378	125	46623328	46627931	-1	None	UNQ483
16	None	ENSG00000260185	ENST00000567077	antisense	KNOWN	None	None	None	None	71688930	71698115	1	None	None
13	None	ENSG00000260343	ENST00000565936	lincRNA	KNOWN	None	None	None	None	112967781	112976072	1	None	None
1	RNU6-1199P	ENSG00000223181	ENST00000411249	snRNA	KNOWN	None	48162	None	None	693613	693716	-1	None	None
3	RNU6-139P	ENSG00000252449	ENST00000516640	snRNA	KNOWN	None	47102	None	None	62800057	62800166	1	None	None
4	BDH2	ENSG00000164039	ENST00000296424	protein_coding	KNOWN	CCDS3663	32389	738	245	104000592	104021040	-1	DHRS6	UCPA-OR, FLJ13261, UNQ6308, PRO20933, SDR15C1
4	BDH2	ENSG00000164039	ENST00000492366	retained_intron	KNOWN	None	32389	None	None	104000634	104020985	-1	DHRS6	UCPA-OR, FLJ13261, UNQ6308, PRO20933, SDR15C1
4	BDH2	ENSG00000164039	ENST00000464039	retained_intron	KNOWN	None	32389	None	None	104000636	104020965	-1	DHRS6	UCPA-OR, FLJ13261, UNQ6308, PRO20933, SDR15C1
4	BDH2	ENSG00000164039	ENST00000475058	retained_intron	KNOWN	None	32389	None	None	104000690	104020973	-1	DHRS6	UCPA-OR, FLJ13261, UNQ6308, PRO20933, SDR15C1
4	BDH2	ENSG00000164039	ENST00000506521	nonsense_mediated_decay	KNOWN	None	32389	195	64	104007635	104021027	-1	DHRS6	UCPA-OR, FLJ13261, UNQ6308, PRO20933, SDR15C1
4	BDH2	ENSG00000164039	ENST00000511354	nonsense_mediated_decay	KNOWN	None	32389	273	90	104007658	104020986	-1	DHRS6	UCPA-OR, FLJ13261, UNQ6308, PRO20933, SDR15C1
4	BDH2	ENSG00000164039	ENST00000504285	protein_coding	KNOWN	None	32389	392	129	104007663	104020986	-1	DHRS6	UCPA-OR, FLJ13261, UNQ6308, PRO20933, SDR15C1
4	BDH2	ENSG00000164039	ENST00000509245	protein_coding	KNOWN	None	32389	349	115	104012342	104021027	-1	DHRS6	UCPA-OR, FLJ13261, UNQ6308, PRO20933, SDR15C1
4	BDH2	ENSG00000164039	ENST00000513518	retained_intron	KNOWN	None	32389	None	None	104013533	104021019	-1	DHRS6	UCPA-OR, FLJ13261, UNQ6308, PRO20933, SDR15C1
11	None	ENSG00000255599	ENST00000424313	lincRNA	KNOWN	None	None	None	None	115498783	115500461	1	None	None
X	None	ENSG00000270189	ENST00000603385	lincRNA	KNOWN	None	None	None	None	53198279	53200096	1	None	None
16	RNU6-208P	ENSG00000199301	ENST00000362431	snRNA	KNOWN	None	47171	None	None	71699994	71700100	1	None	None
11	None	ENSG00000254404	ENST00000529875	antisense	KNOWN	None	None	None	None	61980899	62028021	-1	None	None
13	None	ENSG00000223626	ENST00000413637	lincRNA	KNOWN	None	None	None	None	112976881	112985539	-1	None	None
8	None	ENSG00000255130	ENST00000526382	antisense	KNOWN	None	None	None	None	68644822	68647900	1	None	None
10	UBE2V2P1	ENSG00000226255	ENST00000434717	processed_pseudogene	KNOWN	None	44885	None	None	19340384	19341099	1	None	None
2	TMSB10P1	ENSG00000228499	ENST00000415070	processed_pseudogene	KNOWN	None	41949	None	None	236791006	236791137	-1	None	None
14	None	ENSG00000258586	ENST00000555539	lincRNA	KNOWN	None	None	None	None	74289262	74296838	-1	None	None
12	None	ENSG00000255644	ENST00000542489	antisense	KNOWN	None	None	None	None	21912914	21919639	1	None	None
14	MIR770	ENSG00000211574	ENST00000390219	miRNA	KNOWN	None	33143	None	None	101318727	101318824	1	MIRN770	hsa-mir-770
12	None	ENSG00000257747	ENST00000550506	lincRNA	KNOWN	None	None	None	None	82347498	82386912	1	None	None
12	MIR196A2	ENSG00000207924	ENST00000385189	miRNA	KNOWN	None	31568	None	None	54385522	54385631	1	MIRN196-2, MIRN196A2	hsa-mir-196-2, hsa-mir-196a-2
HSCHR16_2_CTG3_1	CIRH1A	ENSG00000262788	ENST00000575702	protein_coding	KNOWN	None	1983	2061	686	69166418	69202911	1	None	NAIC, FLJ14728, KIAA1988, TEX292, CIRHIN, UTP4
HG142_HG150_NOVEL_TEST	None	ENSG00000263824	ENST00000584930	miRNA	NOVEL	None	None	None	None	56063544	56063651	1	None	None
8	NDUFS5P6	ENSG00000255531	ENST00000529136	processed_pseudogene	KNOWN	None	44044	None	None	68761279	68761573	1	None	None
3	ZFYVE20	ENSG00000131381	ENST00000253699	protein_coding	KNOWN	CCDS2623	20759	2355	784	15111580	15140655	-1	None	Rabenosyn-5
3	ZFYVE20	ENSG00000131381	ENST00000476527	protein_coding	KNOWN	CCDS2623	20759	2355	784	15115112	15140670	-1	None	Rabenosyn-5
3	ZFYVE20	ENSG00000131381	ENST00000426541	nonsense_mediated_decay	KNOWN	None	20759	470	155	15116412	15123947	-1	None	Rabenosyn-5
3	ZFYVE20	ENSG00000131381	ENST00000483098	processed_transcript	KNOWN	None	20759	None	None	15119617	15123067	-1	None	Rabenosyn-5
3	ZFYVE20	ENSG00000131381	ENST00000449964	processed_transcript	KNOWN	None	20759	None	None	15119664	15140655	-1	None	Rabenosyn-5
3	ZFYVE20	ENSG00000131381	ENST00000463214	retained_intron	KNOWN	None	20759	None	None	15123985	15127619	-1	None	Rabenosyn-5
3	ZFYVE20	ENSG00000131381	ENST00000441057	nonsense_mediated_decay	KNOWN	None	20759	168	55	15126242	15140640	-1	None	Rabenosyn-5
3	ZFYVE20	ENSG00000131381	ENST00000449050	protein_coding	PUTATIVE	None	20759	267	88	15137178	15140650	-1	None	Rabenosyn-5
3	ZFYVE20	ENSG00000131381	ENST00000507357	protein_coding	KNOWN	None	20759	123	40	15137505	15140643	-1	None	Rabenosyn-5
3	ZFYVE20	ENSG00000131381	ENST00000435849	protein_coding	KNOWN	None	20759	627	208	15122239	15140655	-1	None	Rabenosyn-5
2	RNU7-127P	ENSG00000238812	ENST00000458845	snRNA	KNOWN	None	45661	None	None	236945894	236945955	1	None	None
11	None	ENSG00000254676	ENST00000528133	sense_overlapping	KNOWN	None	None	None	None	82891186	82895562	1	None	None
3	None	ENSG00000226082	ENST00000456185	processed_pseudogene	KNOWN	None	None	None	None	62912046	62912557	1	None	None
11	RBM14-RBM4	ENSG00000248643	ENST00000412278	protein_coding	KNOWN	CCDS55774	38840	1020	339	66384097	66413940	1	None	None
11	RBM14-RBM4	ENSG00000248643	ENST00000421355	nonsense_mediated_decay	KNOWN	None	38840	444	147	66384102	66412103	1	None	None
11	RBM14-RBM4	ENSG00000248643	ENST00000500635	protein_coding	KNOWN	CCDS55775	38840	357	118	66384141	66413938	1	None	None
GL000230.1	None	ENSG00000264001	ENST00000585288	miRNA	NOVEL	None	None	None	None	19097	19180	1	None	None
1	None	ENSG00000268154	ENST00000600454	protein_coding	NOVEL	None	None	150	49	161035655	161035943	1	None	None
2	RN7SL204P	ENSG00000264676	ENST00000582831	misc_RNA	KNOWN	None	46220	None	None	236980939	236981196	1	None	None
HSCHR6_MHC_COX	HLA-U	ENSG00000223352	ENST00000419369	unprocessed_pseudogene	KNOWN	None	23477	None	None	29891600	29891785	1	HLA-21	Em:AB023056.13
HG871_PATCH	None	ENSG00000265761	ENST00000584873	processed_pseudogene	KNOWN	None	None	None	None	5249361	5249936	1	None	None
X	SNORA56	ENSG00000206693	ENST00000383966	snoRNA	KNOWN	None	32650	None	None	154003273	154003401	1	None	ACA56
14	MIR493	ENSG00000207989	ENST00000385254	miRNA	KNOWN	None	32082	None	None	101335397	101335485	1	MIRN493	hsa-mir-493
11	None	ENSG00000260254	ENST00000564619	lincRNA	KNOWN	None	None	None	None	115509281	115517680	1	None	None
2	None	ENSG00000207049	ENST00000384322	misc_RNA	NOVEL	None	None	None	None	237061715	237061816	-1	None	None
18	FAM69C	ENSG00000187773	ENST00000400291	protein_coding	KNOWN	None	31729	363	120	72102963	72125179	-1	C18orf51	None
18	FAM69C	ENSG00000187773	ENST00000343998	protein_coding	KNOWN	CCDS42445	31729	1260	419	72102992	72124503	-1	C18orf51	None
5	None	ENSG00000250882	ENST00000514411	antisense	KNOWN	None	None	None	None	111509267	111511245	1	None	None
HSCHR6_MHC_MANN	CFB	ENSG00000204359	ENST00000375443	protein_coding	KNOWN	None	1037	1768	588	31952850	31957964	1	BFD, BF	H2-Bf
HSCHR6_MHC_MANN	CFB	ENSG00000204359	ENST00000375455	protein_coding	KNOWN	None	1037	1768	588	31953194	31957964	1	BFD, BF	H2-Bf
HSCHR6_MHC_MANN	CFB	ENSG00000204359	ENST00000461569	retained_intron	KNOWN	None	1037	None	None	31953297	31954068	1	BFD, BF	H2-Bf
HSCHR6_MHC_MANN	CFB	ENSG00000204359	ENST00000489605	processed_transcript	PUTATIVE	None	1037	None	None	31953326	31955043	1	BFD, BF	H2-Bf
HSCHR6_MHC_MANN	CFB	ENSG00000204359	ENST00000477842	retained_intron	KNOWN	None	1037	None	None	31953422	31957847	1	BFD, BF	H2-Bf
HSCHR6_MHC_MANN	CFB	ENSG00000204359	ENST00000487158	retained_intron	KNOWN	None	1037	None	None	31954481	31956751	1	BFD, BF	H2-Bf
HSCHR6_MHC_MANN	CFB	ENSG00000204359	ENST00000463942	processed_transcript	KNOWN	None	1037	None	None	31954997	31956798	1	BFD, BF	H2-Bf
HSCHR6_MHC_MANN	CFB	ENSG00000204359	ENST00000498489	processed_transcript	KNOWN	None	1037	None	None	31955558	31956798	1	BFD, BF	H2-Bf
HSCHR6_MHC_MANN	CFB	ENSG00000204359	ENST00000487765	retained_intron	KNOWN	None	1037	None	None	31956198	31956798	1	BFD, BF	H2-Bf
HSCHR6_MHC_MANN	CFB	ENSG00000204359	ENST00000479302	retained_intron	KNOWN	None	1037	None	None	31956931	31957964	1	BFD, BF	H2-Bf
10	None	ENSG00000227734	ENST00000426818	antisense	KNOWN	None	None	None	None	19579152	19580409	-1	None	None
12	HOXC-AS2	ENSG00000250133	ENST00000604081	antisense	KNOWN	None	43750	None	None	54387594	54389683	-1	None	None
12	HOXC-AS2	ENSG00000250133	ENST00000513533	antisense	KNOWN	None	43750	None	None	54388992	54390569	-1	None	None
GL000230.1	None	ENSG00000266558	ENST00000579804	miRNA	NOVEL	None	None	None	None	33748	33830	-1	None	None
1	None	ENSG00000240618	ENST00000417659	lincRNA	KNOWN	None	None	None	None	694412	700305	-1	None	None
3	None	ENSG00000270981	ENST00000605443	processed_pseudogene	KNOWN	None	None	None	None	156948109	156948997	-1	None	None
14	TSSK4	ENSG00000139908	ENST00000554420	retained_intron	KNOWN	None	19825	None	None	24674903	24677454	1	C14orf20, STK22E	None
14	TSSK4	ENSG00000139908	ENST00000339917	protein_coding	KNOWN	CCDS53890	19825	1017	338	24674926	24677452	1	C14orf20, STK22E	None
14	TSSK4	ENSG00000139908	ENST00000556621	protein_coding	KNOWN	None	19825	759	252	24674934	24677409	1	C14orf20, STK22E	None
14	TSSK4	ENSG00000139908	ENST00000287913	protein_coding	KNOWN	CCDS9618	19825	987	328	24674962	24677454	1	C14orf20, STK22E	None
14	TSSK4	ENSG00000139908	ENST00000428351	protein_coding	PUTATIVE	None	19825	408	135	24675064	24677454	1	C14orf20, STK22E	None
14	TSSK4	ENSG00000139908	ENST00000555092	protein_coding	PUTATIVE	None	19825	430	142	24675147	24677454	1	C14orf20, STK22E	None
14	TSSK4	ENSG00000139908	ENST00000553766	protein_coding	PUTATIVE	None	19825	326	107	24676462	24677568	1	C14orf20, STK22E	None
2	None	ENSG00000233611	ENST00000415226	antisense	KNOWN	None	None	None	None	237076090	237203570	1	None	None
2	None	ENSG00000233611	ENST00000483218	antisense	KNOWN	None	None	None	None	237076108	237122868	1	None	None
15	None	ENSG00000259498	ENST00000561241	antisense	KNOWN	None	None	None	None	63338233	63341586	-1	None	None
15	None	ENSG00000259498	ENST00000560903	antisense	KNOWN	None	None	None	None	63339893	63341447	-1	None	None
GL000240.1	None	ENSG00000241000	ENST00000466464	miRNA	NOVEL	None	None	None	None	1481	1563	-1	None	None
HSCHR6_MHC_COX	HCG4P5	ENSG00000223708	ENST00000451967	unprocessed_pseudogene	KNOWN	None	22925	None	None	29899399	29900391	-1	None	HCGIV-05, HCGIV.4, HCGIV-5
5	None	ENSG00000251187	ENST00000515563	antisense	KNOWN	None	None	None	None	111527717	111532693	1	None	None
5	None	ENSG00000251187	ENST00000506875	antisense	KNOWN	None	None	None	None	111527883	111542760	1	None	None
5	None	ENSG00000251187	ENST00000505825	antisense	KNOWN	None	None	None	None	111540134	111545836	1	None	None
11	None	ENSG00000256717	ENST00000539305	lincRNA	KNOWN	None	None	None	None	115530376	115713864	1	None	None
HSCHR6_MHC_COX	HLA-W	ENSG00000232011	ENST00000453637	unprocessed_pseudogene	KNOWN	None	23425	None	None	29913886	29915860	1	HLA-80	None
19	ZNF542	ENSG00000240225	ENST00000467807	processed_transcript	KNOWN	None	25393	None	None	56879468	56890897	1	None	DKFZp686B2197
19	ZNF542	ENSG00000240225	ENST00000462524	processed_transcript	KNOWN	None	25393	None	None	56879490	56888340	1	None	DKFZp686B2197
19	ZNF542	ENSG00000240225	ENST00000589844	processed_transcript	KNOWN	None	25393	None	None	56879508	56888735	1	None	DKFZp686B2197
19	ZNF542	ENSG00000240225	ENST00000490123	processed_transcript	KNOWN	None	25393	None	None	56879508	56890922	1	None	DKFZp686B2197
19	ZNF542	ENSG00000240225	ENST00000468396	processed_transcript	KNOWN	None	25393	None	None	56879542	56888577	1	None	DKFZp686B2197
19	ZNF542	ENSG00000240225	ENST00000488113	processed_transcript	KNOWN	None	25393	None	None	56879688	56889719	1	None	DKFZp686B2197
19	ZNF542	ENSG00000240225	ENST00000495307	processed_transcript	KNOWN	None	25393	None	None	56879690	56891197	1	None	DKFZp686B2197
19	ZNF542	ENSG00000240225	ENST00000596094	retained_intron	KNOWN	None	25393	None	None	56879705	56885126	1	None	DKFZp686B2197
19	ZNF542	ENSG00000240225	ENST00000587341	retained_intron	KNOWN	None	25393	None	None	56879759	56885641	1	None	DKFZp686B2197
19	ZNF542	ENSG00000240225	ENST00000595222	processed_transcript	KNOWN	None	25393	None	None	56880014	56886088	1	None	DKFZp686B2197
19	ZNF542	ENSG00000240225	ENST00000587208	processed_transcript	KNOWN	None	25393	None	None	56880017	56888298	1	None	DKFZp686B2197
19	ZNF542	ENSG00000240225	ENST00000482727	transcribed_unprocessed_pseudogene	KNOWN	None	25393	None	None	56884619	56889341	1	None	DKFZp686B2197
17	SRP68P2	ENSG00000227689	ENST00000456184	processed_pseudogene	KNOWN	None	30426	None	None	18430871	18431775	1	None	SRPSMCR
16	RNF151	ENSG00000179580	ENST00000569210	protein_coding	PUTATIVE	None	23235	273	90	2016824	2018949	1	None	None
16	RNF151	ENSG00000179580	ENST00000569714	protein_coding	KNOWN	CCDS58405	23235	738	245	2016875	2018976	1	None	None
16	RNF151	ENSG00000179580	ENST00000321392	protein_coding	KNOWN	None	23235	735	244	2017275	2018976	1	None	None
12	None	ENSG00000258193	ENST00000546484	processed_pseudogene	KNOWN	None	None	None	None	82392411	82392741	1	None	None
HSCHR22_1_CTG2	APOBEC3A	ENSG00000262156	ENST00000572661	retained_intron	KNOWN	None	17343	None	None	39353528	39355688	1	None	ARP3, PHRBN
HSCHR22_1_CTG2	APOBEC3A	ENSG00000262156	ENST00000570508	protein_coding	KNOWN	None	17343	600	199	39353638	39358842	1	None	ARP3, PHRBN
2	RNU1-31P	ENSG00000200745	ENST00000363875	snRNA	KNOWN	None	48373	None	None	237119016	237119191	-1	None	None
16	SNORA70D	ENSG00000263666	ENST00000578836	sense_intronic	KNOWN	None	34356	None	None	71732470	71732604	-1	None	U70D
2	FNDC4	ENSG00000115226	ENST00000264703	protein_coding	KNOWN	CCDS1756	20239	705	234	27714750	27718112	-1	None	FLJ22362, FRCP1
2	FNDC4	ENSG00000115226	ENST00000491414	retained_intron	KNOWN	None	20239	None	None	27714768	27718029	-1	None	FLJ22362, FRCP1
2	FNDC4	ENSG00000115226	ENST00000476197	retained_intron	KNOWN	None	20239	None	None	27715580	27717679	-1	None	FLJ22362, FRCP1
2	None	ENSG00000270540	ENST00000605740	antisense	KNOWN	None	None	None	None	237276203	237277745	1	None	None
3	RN7SKP46	ENSG00000251751	ENST00000515942	misc_RNA	KNOWN	None	45770	None	None	157648281	157648514	-1	None	None
16	None	ENSG00000261513	ENST00000566738	antisense	KNOWN	None	None	None	None	71757083	71758133	1	None	None
1	PVRL4	ENSG00000143217	ENST00000368012	protein_coding	KNOWN	CCDS1216	19688	1533	510	161040785	161059389	-1	None	nectin-4, PRR4, LNIR
1	PVRL4	ENSG00000143217	ENST00000486694	processed_transcript	KNOWN	None	19688	None	None	161041930	161044048	-1	None	nectin-4, PRR4, LNIR
1	PVRL4	ENSG00000143217	ENST00000453926	protein_coding	KNOWN	None	19688	660	219	161042197	161046272	-1	None	nectin-4, PRR4, LNIR
2	None	ENSG00000214100	ENST00000397540	retained_intron	KNOWN	None	None	None	None	130680436	130681382	-1	None	None
2	None	ENSG00000214100	ENST00000433290	processed_transcript	KNOWN	None	None	None	None	130680436	130691890	-1	None	None
2	None	ENSG00000214100	ENST00000440031	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	130681131	130683361	-1	None	None
2	None	ENSG00000214100	ENST00000545651	unprocessed_pseudogene	KNOWN	None	None	None	None	130680435	130683298	-1	None	None
21	TTC3	ENSG00000182670	ENST00000492275	processed_transcript	KNOWN	None	12393	None	None	38445526	38507711	1	None	TPRD, TPRDI, DCRR1, TPRDII, TPRDIII, RNF105
21	TTC3	ENSG00000182670	ENST00000418766	protein_coding	KNOWN	None	12393	3537	1178	38445551	38538053	1	None	TPRD, TPRDI, DCRR1, TPRDII, TPRDIII, RNF105
21	TTC3	ENSG00000182670	ENST00000485402	processed_transcript	KNOWN	None	12393	None	None	38445558	38538067	1	None	TPRD, TPRDI, DCRR1, TPRDII, TPRDIII, RNF105
21	TTC3	ENSG00000182670	ENST00000450533	protein_coding	KNOWN	None	12393	2342	779	38445567	38524258	1	None	TPRD, TPRDI, DCRR1, TPRDII, TPRDIII, RNF105
21	TTC3	ENSG00000182670	ENST00000438055	protein_coding	NOVEL	None	12393	3497	1164	38445567	38538067	1	None	TPRD, TPRDI, DCRR1, TPRDII, TPRDIII, RNF105
21	TTC3	ENSG00000182670	ENST00000463216	processed_transcript	KNOWN	None	12393	None	None	38445577	38507726	1	None	TPRD, TPRDI, DCRR1, TPRDII, TPRDIII, RNF105
21	TTC3	ENSG00000182670	ENST00000481605	processed_transcript	KNOWN	None	12393	None	None	38445577	38524267	1	None	TPRD, TPRDI, DCRR1, TPRDII, TPRDIII, RNF105
21	TTC3	ENSG00000182670	ENST00000494243	processed_transcript	KNOWN	None	12393	None	None	38445581	38507752	1	None	TPRD, TPRDI, DCRR1, TPRDII, TPRDIII, RNF105
21	TTC3	ENSG00000182670	ENST00000540756	protein_coding	PUTATIVE	None	12393	1839	612	38445581	38525623	1	None	TPRD, TPRDI, DCRR1, TPRDII, TPRDIII, RNF105
21	TTC3	ENSG00000182670	ENST00000399010	protein_coding	PUTATIVE	None	12393	903	300	38445590	38471398	1	None	TPRD, TPRDI, DCRR1, TPRDII, TPRDIII, RNF105
21	TTC3	ENSG00000182670	ENST00000399017	protein_coding	KNOWN	CCDS13651	12393	6078	2025	38453896	38575413	1	None	TPRD, TPRDI, DCRR1, TPRDII, TPRDIII, RNF105
21	TTC3	ENSG00000182670	ENST00000484047	processed_transcript	KNOWN	None	12393	None	None	38455926	38465702	1	None	TPRD, TPRDI, DCRR1, TPRDII, TPRDIII, RNF105
21	TTC3	ENSG00000182670	ENST00000354749	protein_coding	KNOWN	CCDS13651	12393	6078	2025	38458090	38575413	1	None	TPRD, TPRDI, DCRR1, TPRDII, TPRDIII, RNF105
21	TTC3	ENSG00000182670	ENST00000479930	processed_transcript	KNOWN	None	12393	None	None	38458090	38575413	1	None	TPRD, TPRDI, DCRR1, TPRDII, TPRDIII, RNF105
21	TTC3	ENSG00000182670	ENST00000460328	retained_intron	KNOWN	None	12393	None	None	38463627	38469185	1	None	TPRD, TPRDI, DCRR1, TPRDII, TPRDIII, RNF105
21	TTC3	ENSG00000182670	ENST00000491952	processed_transcript	PUTATIVE	None	12393	None	None	38463694	38467790	1	None	TPRD, TPRDI, DCRR1, TPRDII, TPRDIII, RNF105
21	TTC3	ENSG00000182670	ENST00000476784	retained_intron	KNOWN	None	12393	None	None	38480038	38575413	1	None	TPRD, TPRDI, DCRR1, TPRDII, TPRDIII, RNF105
21	TTC3	ENSG00000182670	ENST00000414818	protein_coding	PUTATIVE	None	12393	831	276	38516860	38525577	1	None	TPRD, TPRDI, DCRR1, TPRDII, TPRDIII, RNF105
21	TTC3	ENSG00000182670	ENST00000411496	protein_coding	PUTATIVE	None	12393	893	296	38525425	38537942	1	None	TPRD, TPRDI, DCRR1, TPRDII, TPRDIII, RNF105
21	TTC3	ENSG00000182670	ENST00000487711	processed_transcript	KNOWN	None	12393	None	None	38525537	38538067	1	None	TPRD, TPRDI, DCRR1, TPRDII, TPRDIII, RNF105
21	TTC3	ENSG00000182670	ENST00000472398	retained_intron	KNOWN	None	12393	None	None	38529043	38558380	1	None	TPRD, TPRDI, DCRR1, TPRDII, TPRDIII, RNF105
21	TTC3	ENSG00000182670	ENST00000469939	processed_transcript	PUTATIVE	None	12393	None	None	38531821	38538067	1	None	TPRD, TPRDI, DCRR1, TPRDII, TPRDIII, RNF105
21	TTC3	ENSG00000182670	ENST00000428693	protein_coding	PUTATIVE	None	12393	952	316	38563635	38573922	1	None	TPRD, TPRDI, DCRR1, TPRDII, TPRDIII, RNF105
21	TTC3	ENSG00000182670	ENST00000488522	processed_transcript	KNOWN	None	12393	None	None	38566754	38570248	1	None	TPRD, TPRDI, DCRR1, TPRDII, TPRDIII, RNF105
21	TTC3	ENSG00000182670	ENST00000355666	protein_coding	KNOWN	CCDS13651	12393	6078	2025	38445571	38575404	1	None	TPRD, TPRDI, DCRR1, TPRDII, TPRDIII, RNF105
2	None	ENSG00000232893	ENST00000413353	antisense	KNOWN	None	None	None	None	237299717	237301031	1	None	None
3	None	ENSG00000263959	ENST00000580582	miRNA	NOVEL	None	None	None	None	140122262	140122345	1	None	None
3	None	ENSG00000239716	ENST00000491909	lincRNA	KNOWN	None	None	None	None	157694350	157695925	-1	None	None
16	RNU1-22P	ENSG00000200204	ENST00000363334	snRNA	KNOWN	None	41963	None	None	3136144	3136301	1	None	None
12	None	ENSG00000257654	ENST00000552718	lincRNA	KNOWN	None	None	None	None	117136141	117140935	1	None	None
16	None	ENSG00000260612	ENST00000563557	lincRNA	KNOWN	None	None	None	None	71760878	71761895	1	None	None
16	None	ENSG00000198555	ENST00000568600	unprocessed_pseudogene	KNOWN	None	None	None	None	33778506	33790097	1	None	None
16	None	ENSG00000263011	ENST00000570700	sense_overlapping	KNOWN	None	None	None	None	3156765	3159577	1	None	None
12	None	ENSG00000221260	ENST00000408333	miRNA	NOVEL	None	None	None	None	82658722	82658823	1	None	None
2	RPL3P5	ENSG00000231546	ENST00000441645	transcribed_processed_pseudogene	KNOWN	None	36934	None	None	237316489	237317720	-1	None	None
3	None	ENSG00000249290	ENST00000502712	antisense	KNOWN	None	None	None	None	140168277	140173573	-1	None	None
3	None	ENSG00000249290	ENST00000509191	antisense	KNOWN	None	None	None	None	140168352	140173595	-1	None	None
3	None	ENSG00000249290	ENST00000503357	antisense	KNOWN	None	None	None	None	140171370	140179193	-1	None	None
12	None	ENSG00000239374	ENST00000485147	processed_pseudogene	KNOWN	None	None	None	None	117193200	117193679	-1	None	None
11	ARL14EP	ENSG00000152219	ENST00000282032	protein_coding	KNOWN	CCDS7869	26798	783	260	30344598	30359774	1	C11orf46	FLJ38968, ARF7EP
11	ARL14EP	ENSG00000152219	ENST00000532047	retained_intron	KNOWN	None	26798	None	None	30344680	30352949	1	C11orf46	FLJ38968, ARF7EP
11	ARL14EP	ENSG00000152219	ENST00000530909	protein_coding	KNOWN	None	26798	504	167	30349583	30354490	1	C11orf46	FLJ38968, ARF7EP
11	ARL14EP	ENSG00000152219	ENST00000533457	processed_transcript	PUTATIVE	None	26798	None	None	30353191	30354488	1	C11orf46	FLJ38968, ARF7EP
11	None	ENSG00000247137	ENST00000602381	lincRNA	KNOWN	None	None	None	None	82895533	82902139	-1	None	None
11	None	ENSG00000247137	ENST00000528524	lincRNA	KNOWN	None	None	None	None	82902071	82904836	-1	None	None
11	None	ENSG00000247137	ENST00000530825	lincRNA	KNOWN	None	None	None	None	82902105	82903858	-1	None	None
11	None	ENSG00000247137	ENST00000529031	lincRNA	KNOWN	None	None	None	None	82902105	82904642	-1	None	None
11	None	ENSG00000247137	ENST00000529811	lincRNA	KNOWN	None	None	None	None	82902107	82904662	-1	None	None
11	None	ENSG00000247137	ENST00000529607	lincRNA	KNOWN	None	None	None	None	82903062	82904611	-1	None	None
11	None	ENSG00000247137	ENST00000500634	lincRNA	KNOWN	None	None	None	None	82903179	82904704	-1	None	None
11	None	ENSG00000247137	ENST00000528083	lincRNA	KNOWN	None	None	None	None	82903315	82904705	-1	None	None
3	None	ENSG00000214146	ENST00000397645	lincRNA	KNOWN	None	None	None	None	193675161	193721448	-1	None	None
3	None	ENSG00000214146	ENST00000414309	lincRNA	KNOWN	None	None	None	None	193719646	193721425	-1	None	None
1	WDR63	ENSG00000162643	ENST00000370596	protein_coding	KNOWN	None	30711	2559	852	85464830	85598821	1	None	DIC3, FLJ30067, NYD-SP29
1	WDR63	ENSG00000162643	ENST00000326813	protein_coding	KNOWN	None	30711	2559	852	85527995	85598821	1	None	DIC3, FLJ30067, NYD-SP29
1	WDR63	ENSG00000162643	ENST00000294664	protein_coding	KNOWN	CCDS702	30711	2676	891	85528004	85598820	1	None	DIC3, FLJ30067, NYD-SP29
1	WDR63	ENSG00000162643	ENST00000528899	protein_coding	NOVEL	None	30711	374	123	85528010	85550251	1	None	DIC3, FLJ30067, NYD-SP29
1	WDR63	ENSG00000162643	ENST00000464801	nonsense_mediated_decay	KNOWN	None	30711	1107	368	85528069	85598710	1	None	DIC3, FLJ30067, NYD-SP29
1	WDR63	ENSG00000162643	ENST00000484007	protein_coding	PUTATIVE	None	30711	387	128	85592236	85595864	1	None	DIC3, FLJ30067, NYD-SP29
11	LINC00900	ENSG00000246100	ENST00000499809	lincRNA	KNOWN	None	27444	None	None	115624966	115630912	-1	None	None
11	LINC00900	ENSG00000246100	ENST00000501294	lincRNA	KNOWN	None	27444	None	None	115628169	115631345	-1	None	None
11	LINC00900	ENSG00000246100	ENST00000514294	lincRNA	KNOWN	None	27444	None	None	115628181	115630915	-1	None	None
11	LINC00900	ENSG00000246100	ENST00000537070	lincRNA	KNOWN	None	27444	None	None	115628435	115630904	-1	None	None
11	LINC00900	ENSG00000246100	ENST00000535683	lincRNA	KNOWN	None	27444	None	None	115628638	115630918	-1	None	None
11	LINC00900	ENSG00000246100	ENST00000602803	lincRNA	KNOWN	None	27444	None	None	115628994	115629571	-1	None	None
2	None	ENSG00000237574	ENST00000450840	lincRNA	KNOWN	None	None	None	None	130680750	130704276	1	None	None
16	None	ENSG00000238639	ENST00000458775	snoRNA	NOVEL	None	None	None	None	29448818	29448921	-1	None	None
2	None	ENSG00000232328	ENST00000455068	lincRNA	KNOWN	None	None	None	None	237642025	237661449	1	None	None
2	None	ENSG00000232328	ENST00000413385	lincRNA	KNOWN	None	None	None	None	237661417	237663006	1	None	None
10	FAM25G	ENSG00000197910	ENST00000457620	protein_coding	KNOWN	CCDS44381	23590	270	89	48247669	48252143	1	None	bA301J7.4
10	FAM25G	ENSG00000197910	ENST00000466209	processed_transcript	KNOWN	None	23590	None	None	48248922	48252143	1	None	bA301J7.4
13	None	ENSG00000264726	ENST00000582601	miRNA	NOVEL	None	None	None	None	113372159	113372228	-1	None	None
1	None	ENSG00000229905	ENST00000422528	antisense	KNOWN	None	None	None	None	696291	697369	1	None	None
16	None	ENSG00000260335	ENST00000569081	unprocessed_pseudogene	KNOWN	None	None	None	None	29460512	29460946	1	None	None
13	ATP11A-AS1	ENSG00000232684	ENST00000446442	antisense	KNOWN	None	40645	None	None	113399763	113409007	-1	None	None
19	None	ENSG00000268416	ENST00000593903	lincRNA	KNOWN	None	None	None	None	20929729	20938056	-1	None	None
2	None	ENSG00000234559	ENST00000450665	processed_pseudogene	KNOWN	None	None	None	None	130697421	130697790	-1	None	None
19	VN1R79P	ENSG00000269885	ENST00000593540	unprocessed_pseudogene	KNOWN	None	37400	None	None	20941246	20941758	1	None	None
13	None	ENSG00000234603	ENST00000443849	pseudogene	NOVEL	None	None	None	None	113539551	113539994	1	None	None
2	RNU6-1051P	ENSG00000202341	ENST00000365471	snRNA	KNOWN	None	48014	None	None	237923847	237923948	-1	None	None
GL000230.1	None	ENSG00000241601	ENST00000478618	miRNA	NOVEL	None	None	None	None	33986	34068	-1	None	None
17	CCDC144B	ENSG00000154874	ENST00000446853	processed_transcript	KNOWN	None	26704	None	None	18431900	18454999	-1	None	FLJ36492
17	CCDC144B	ENSG00000154874	ENST00000457330	retained_intron	KNOWN	None	26704	None	None	18443761	18528921	-1	None	FLJ36492
17	CCDC144B	ENSG00000154874	ENST00000447265	transcribed_unprocessed_pseudogene	KNOWN	None	26704	None	None	18445402	18528760	-1	None	FLJ36492
17	CCDC144B	ENSG00000154874	ENST00000442583	processed_transcript	KNOWN	None	26704	None	None	18491593	18509704	-1	None	FLJ36492
17	CCDC144B	ENSG00000154874	ENST00000425214	processed_transcript	KNOWN	None	26704	None	None	18494173	18507053	-1	None	FLJ36492
17	CCDC144B	ENSG00000154874	ENST00000445752	retained_intron	KNOWN	None	26704	None	None	18506602	18528930	-1	None	FLJ36492
17	CCDC144B	ENSG00000154874	ENST00000455629	processed_transcript	KNOWN	None	26704	None	None	18509976	18528921	-1	None	FLJ36492
17	CCDC144B	ENSG00000154874	ENST00000450277	processed_transcript	KNOWN	None	26704	None	None	18523399	18528854	-1	None	FLJ36492
17	CCDC144B	ENSG00000154874	ENST00000285176	unprocessed_pseudogene	KNOWN	None	26704	None	None	18441117	18528921	-1	None	FLJ36492
8	RNU6-526P	ENSG00000201815	ENST00000364945	snRNA	KNOWN	None	47489	None	None	9228600	9228705	-1	None	None
GL000240.1	None	ENSG00000240779	ENST00000460303	miRNA	NOVEL	None	None	None	None	3055	3137	-1	None	None
14	RNU6-455P	ENSG00000207412	ENST00000384681	snRNA	KNOWN	None	47418	None	None	32155898	32156004	-1	None	None
2	None	ENSG00000124835	ENST00000244820	antisense	KNOWN	None	None	None	None	237957242	237964810	-1	None	None
2	None	ENSG00000225449	ENST00000412425	processed_transcript	KNOWN	None	None	None	None	130724165	130738039	-1	None	None
2	None	ENSG00000225449	ENST00000433431	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	130725831	130725953	-1	None	None
10	DRGX	ENSG00000165606	ENST00000374139	protein_coding	KNOWN	None	21536	792	263	50572237	50603497	-1	PRRXL1	DRG11
10	DRGX	ENSG00000165606	ENST00000434016	protein_coding	KNOWN	CCDS44388	21536	807	268	50574161	50599907	-1	PRRXL1	DRG11
HG871_PATCH	None	ENSG00000265913	ENST00000579143	lincRNA	KNOWN	None	None	None	None	5276550	5305600	1	None	None
15	SNORD116-14	ENSG00000206621	ENST00000383894	snoRNA	KNOWN	None	33080	None	None	25325289	25325380	1	None	HBII-85-14
19	GPR4	ENSG00000177464	ENST00000323040	protein_coding	KNOWN	CCDS12669	4497	1089	362	46093022	46105466	-1	None	None
19	GPR4	ENSG00000177464	ENST00000591614	processed_transcript	KNOWN	None	4497	None	None	46095491	46103011	-1	None	None
11	None	ENSG00000255605	ENST00000545912	lincRNA	KNOWN	None	None	None	None	95431250	95433787	1	None	None
10	RNU7-193P	ENSG00000252532	ENST00000516723	snRNA	KNOWN	None	45727	None	None	43953513	43953577	1	None	None
13	None	ENSG00000267868	ENST00000602192	lincRNA	KNOWN	None	None	None	None	113619149	113620445	-1	None	None
19	None	ENSG00000269040	ENST00000593398	processed_pseudogene	KNOWN	None	None	None	None	20967402	20967958	-1	None	None
GL000230.1	None	ENSG00000265604	ENST00000583385	miRNA	NOVEL	None	None	None	None	37003	37085	-1	None	None
8	None	ENSG00000254237	ENST00000522765	lincRNA	KNOWN	None	None	None	None	9229480	9232475	-1	None	None
8	None	ENSG00000254237	ENST00000522129	lincRNA	KNOWN	None	None	None	None	9232408	9293715	-1	None	None
8	None	ENSG00000254237	ENST00000521842	lincRNA	KNOWN	None	None	None	None	9237490	9273450	-1	None	None
19	None	ENSG00000266156	ENST00000582722	miRNA	NOVEL	None	None	None	None	20988317	20988400	1	None	None
2	CYP1B1	ENSG00000138061	ENST00000491456	processed_transcript	PUTATIVE	None	2597	None	None	38294116	38297840	-1	GLC3A	CP1B
2	CYP1B1	ENSG00000138061	ENST00000260630	protein_coding	KNOWN	CCDS1793	2597	1632	543	38294652	38303323	-1	GLC3A	CP1B
2	CYP1B1	ENSG00000138061	ENST00000494864	processed_transcript	KNOWN	None	2597	None	None	38297209	38337044	-1	GLC3A	CP1B
2	CYP1B1	ENSG00000138061	ENST00000407341	protein_coding	KNOWN	CCDS1793	2597	1632	543	38297625	38303218	-1	GLC3A	CP1B
2	CYP1B1	ENSG00000138061	ENST00000492443	processed_transcript	PUTATIVE	None	2597	None	None	38298130	38301079	-1	GLC3A	CP1B
2	CYP1B1	ENSG00000138061	ENST00000462864	processed_transcript	PUTATIVE	None	2597	None	None	38298319	38303296	-1	GLC3A	CP1B
2	CYP1B1	ENSG00000138061	ENST00000490576	processed_transcript	PUTATIVE	None	2597	None	None	38302102	38303296	-1	GLC3A	CP1B
GL000240.1	None	ENSG00000244656	ENST00000464427	miRNA	NOVEL	None	None	None	None	3772	3853	-1	None	None
11	None	ENSG00000256885	ENST00000542426	pseudogene	NOVEL	None	None	None	None	95556681	95557336	-1	None	None
10	None	ENSG00000236114	ENST00000421913	unprocessed_pseudogene	KNOWN	None	None	None	None	44018704	44020665	1	None	None
HSCHR6_MHC_COX	MSH5	ENSG00000235222	ENST00000445611	protein_coding	KNOWN	None	7328	582	193	31695173	31699401	1	None	None
HSCHR6_MHC_COX	MSH5	ENSG00000235222	ENST00000416549	protein_coding	KNOWN	None	7328	2505	834	31695179	31717835	1	None	None
HSCHR6_MHC_COX	MSH5	ENSG00000235222	ENST00000456839	protein_coding	KNOWN	None	7328	2505	834	31695182	31717835	1	None	None
HSCHR6_MHC_COX	MSH5	ENSG00000235222	ENST00000492444	retained_intron	KNOWN	None	7328	None	None	31695199	31698647	1	None	None
HSCHR6_MHC_COX	MSH5	ENSG00000235222	ENST00000478326	processed_transcript	KNOWN	None	7328	None	None	31695203	31713767	1	None	None
HSCHR6_MHC_COX	MSH5	ENSG00000235222	ENST00000419269	protein_coding	KNOWN	None	7328	2508	835	31695203	31717835	1	None	None
HSCHR6_MHC_COX	MSH5	ENSG00000235222	ENST00000458144	protein_coding	KNOWN	None	7328	2466	821	31695203	31717835	1	None	None
HSCHR6_MHC_COX	MSH5	ENSG00000235222	ENST00000475813	retained_intron	KNOWN	None	7328	None	None	31696428	31709207	1	None	None
HSCHR6_MHC_COX	MSH5	ENSG00000235222	ENST00000412201	protein_coding	KNOWN	None	7328	1000	332	31699145	31714650	1	None	None
HSCHR6_MHC_COX	MSH5	ENSG00000235222	ENST00000461588	processed_transcript	KNOWN	None	7328	None	None	31706659	31714293	1	None	None
HSCHR6_MHC_COX	MSH5	ENSG00000235222	ENST00000414412	protein_coding	KNOWN	None	7328	1527	508	31711751	31717835	1	None	None
HSCHR6_MHC_COX	MSH5	ENSG00000235222	ENST00000494492	retained_intron	KNOWN	None	7328	None	None	31713354	31714661	1	None	None
HSCHR6_MHC_COX	MSH5	ENSG00000235222	ENST00000486024	nonsense_mediated_decay	KNOWN	None	7328	501	166	31715076	31717835	1	None	None
HSCHR6_MHC_COX	MSH5	ENSG00000235222	ENST00000457795	protein_coding	KNOWN	None	7328	471	156	31716371	31717835	1	None	None
HSCHR6_MHC_COX	MSH5	ENSG00000235222	ENST00000460819	retained_intron	KNOWN	None	7328	None	None	31717082	31717835	1	None	None
19	None	ENSG00000269373	ENST00000597006	unprocessed_pseudogene	KNOWN	None	None	None	None	21021321	21030223	-1	None	None
GL000230.1	None	ENSG00000240010	ENST00000459404	miRNA	NOVEL	None	None	None	None	40401	40482	-1	None	None
13	MCF2L-AS1	ENSG00000235280	ENST00000446789	antisense	KNOWN	None	39825	None	None	113621798	113623138	-1	None	None
12	PCNPP3	ENSG00000213344	ENST00000393579	processed_pseudogene	KNOWN	None	41975	None	None	66039772	66040242	-1	None	None
GL000240.1	None	ENSG00000263760	ENST00000579797	miRNA	NOVEL	None	None	None	None	3916	3999	-1	None	None
6	None	ENSG00000242973	ENST00000422284	antisense	KNOWN	None	None	None	None	46638181	46655537	-1	None	None
6	None	ENSG00000242973	ENST00000571590	antisense	KNOWN	None	None	None	None	46638181	46655537	-1	None	None
6	None	ENSG00000242973	ENST00000434329	antisense	KNOWN	None	None	None	None	46638181	46655902	-1	None	None
16	IRX3	ENSG00000177508	ENST00000329734	protein_coding	KNOWN	CCDS10750	14360	1506	501	54317216	54320675	-1	None	IRX-1
16	IRX3	ENSG00000177508	ENST00000558054	protein_coding	NOVEL	None	14360	255	84	54317348	54319767	-1	None	IRX-1
16	IRX3	ENSG00000177508	ENST00000558180	retained_intron	KNOWN	None	14360	None	None	54318032	54320636	-1	None	IRX-1
HG871_PATCH	None	ENSG00000265622	ENST00000577946	lincRNA	KNOWN	None	None	None	None	5308225	5313428	-1	None	None
19	KRT18P40	ENSG00000269012	ENST00000599859	processed_pseudogene	KNOWN	None	33409	None	None	21143914	21146176	1	None	None
14	None	ENSG00000257472	ENST00000550309	lincRNA	KNOWN	None	None	None	None	32395007	32399352	-1	None	None
1	None	ENSG00000228327	ENST00000428504	lincRNA	KNOWN	None	None	None	None	700237	714006	-1	None	None
11	RNA5SP345	ENSG00000222578	ENST00000410646	rRNA	KNOWN	None	43245	None	None	95573181	95573288	-1	RN5S345	None
13	None	ENSG00000269356	ENST00000601559	sense_intronic	KNOWN	None	None	None	None	113663092	113663738	1	None	None
GL000199.1	None	ENSG00000221597	ENST00000408670	miRNA	NOVEL	None	None	None	None	1176	1259	1	None	None
2	None	ENSG00000227252	ENST00000418430	antisense	KNOWN	None	None	None	None	237968077	237994460	-1	None	None
19	None	ENSG00000269147	ENST00000598030	processed_pseudogene	KNOWN	None	None	None	None	21147641	21148000	1	None	None
11	None	ENSG00000242993	ENST00000472927	processed_pseudogene	KNOWN	None	None	None	None	95696383	95696788	1	None	None
10	HMGN1P20	ENSG00000239539	ENST00000411849	processed_pseudogene	KNOWN	None	39364	None	None	19778030	19778329	1	None	None
X	None	ENSG00000212032	ENST00000390743	miRNA	NOVEL	None	None	None	None	120466408	120466492	-1	None	None
9	TGFBR1	ENSG00000106799	ENST00000547314	protein_coding	PUTATIVE	None	11772	354	117	101866320	101895008	1	None	ALK-5, ACVRLK4
9	TGFBR1	ENSG00000106799	ENST00000552573	protein_coding	PUTATIVE	None	11772	379	125	101866352	101895021	1	None	ALK-5, ACVRLK4
9	TGFBR1	ENSG00000106799	ENST00000374994	protein_coding	KNOWN	CCDS6738	11772	1512	503	101867371	101916474	1	None	ALK-5, ACVRLK4
9	TGFBR1	ENSG00000106799	ENST00000374990	protein_coding	KNOWN	CCDS47998	11772	1281	426	101867393	101915931	1	None	ALK-5, ACVRLK4
9	TGFBR1	ENSG00000106799	ENST00000549766	nonsense_mediated_decay	KNOWN	None	11772	1152	383	101867432	101911810	1	None	ALK-5, ACVRLK4
9	TGFBR1	ENSG00000106799	ENST00000552516	protein_coding	NOVEL	None	11772	1524	507	101867432	101915940	1	None	ALK-5, ACVRLK4
9	TGFBR1	ENSG00000106799	ENST00000549021	protein_coding	PUTATIVE	None	11772	342	113	101890057	101900346	1	None	ALK-5, ACVRLK4
9	TGFBR1	ENSG00000106799	ENST00000548365	protein_coding	PUTATIVE	None	11772	343	113	101890156	101894985	1	None	ALK-5, ACVRLK4
9	TGFBR1	ENSG00000106799	ENST00000550253	protein_coding	PUTATIVE	None	11772	1305	434	101890198	101911623	1	None	ALK-5, ACVRLK4
9	TGFBR1	ENSG00000106799	ENST00000546584	protein_coding	PUTATIVE	None	11772	565	187	101890216	101895021	1	None	ALK-5, ACVRLK4
19	None	ENSG00000268326	ENST00000598137	lincRNA	KNOWN	None	None	None	None	21155068	21166016	1	None	None
HSCHR19LRC_LRC_T_CTG1	None	ENSG00000272271	ENST00000580614	miRNA	NOVEL	None	None	None	None	54530502	54530601	-1	None	None
4	STPG2-AS1	ENSG00000251620	ENST00000508933	antisense	KNOWN	None	41209	None	None	98288077	98411315	1	None	None
15	SNORD116-15	ENSG00000207174	ENST00000384445	snoRNA	KNOWN	None	33081	None	None	25326434	25326525	1	None	HBII-85-15
5	None	ENSG00000246323	ENST00000500267	antisense	KNOWN	None	None	None	None	137368463	137372955	1	None	None
2	None	ENSG00000224844	ENST00000416509	lincRNA	KNOWN	None	None	None	None	238031553	238032740	-1	None	None
GL000199.1	None	ENSG00000239867	ENST00000492089	miRNA	NOVEL	None	None	None	None	4722	4804	1	None	None
8	None	ENSG00000253346	ENST00000518744	processed_pseudogene	KNOWN	None	None	None	None	30189477	30189793	-1	None	None
10	None	ENSG00000236960	ENST00000427935	processed_pseudogene	KNOWN	None	None	None	None	19780001	19780228	-1	None	None
X	MIR3672	ENSG00000265456	ENST00000584290	miRNA	KNOWN	None	38957	None	None	120504826	120504907	1	None	hsa-mir-3672
4	None	ENSG00000271995	ENST00000606875	miRNA	NOVEL	None	None	None	None	98407957	98408047	1	None	None
19	None	ENSG00000271598	ENST00000603262	processed_pseudogene	KNOWN	None	None	None	None	21208721	21208847	-1	None	None
HSCHR19LRC_LRC_T_CTG1	None	ENSG00000263106	ENST00000572282	snRNA	NOVEL	None	None	None	None	55316415	55316521	-1	None	None
6	PHIP	ENSG00000146247	ENST00000275034	protein_coding	KNOWN	CCDS4987	15673	5466	1821	79645584	79787953	-1	WDR11	ndrp, FLJ20705, DCAF14, BRWD2
6	PHIP	ENSG00000146247	ENST00000479165	processed_transcript	KNOWN	None	15673	None	None	79650263	79692660	-1	WDR11	ndrp, FLJ20705, DCAF14, BRWD2
14	ARHGAP5-AS1	ENSG00000258655	ENST00000553596	antisense	KNOWN	None	20279	None	None	32544625	32545999	-1	C14orf128	MGC15504
15	None	ENSG00000250007	ENST00000503496	antisense	KNOWN	None	None	None	None	35047285	35105124	1	None	None
15	None	ENSG00000250007	ENST00000558707	antisense	KNOWN	None	None	None	None	35047363	35082374	1	None	None
4	None	ENSG00000250293	ENST00000504217	processed_pseudogene	KNOWN	None	None	None	None	98837504	98838552	-1	None	None
X	NHS-AS1	ENSG00000230020	ENST00000452788	antisense	KNOWN	None	40403	None	None	17570470	17575508	-1	None	None
6	None	ENSG00000236164	ENST00000438738	lincRNA	KNOWN	None	None	None	None	46726033	46728895	-1	None	None
12	RPSAP52	ENSG00000241749	ENST00000489520	processed_transcript	KNOWN	None	35752	None	None	66151800	66220754	-1	None	None
12	RPSAP52	ENSG00000241749	ENST00000493929	transcribed_processed_pseudogene	KNOWN	None	35752	None	None	66151901	66152778	-1	None	None
2	None	ENSG00000222032	ENST00000409910	lincRNA	KNOWN	None	None	None	None	238337563	238343465	-1	None	None
5	None	ENSG00000250260	ENST00000506911	lincRNA	KNOWN	None	None	None	None	137374888	137375668	1	None	None
12	None	ENSG00000221121	ENST00000408194	miRNA	NOVEL	None	None	None	None	82736375	82736489	-1	None	None
2	None	ENSG00000180178	ENST00000440931	processed_transcript	KNOWN	None	None	None	None	130748029	130785985	-1	None	None
2	None	ENSG00000180178	ENST00000444030	processed_transcript	KNOWN	None	None	None	None	130769638	130792272	-1	None	None
2	None	ENSG00000180178	ENST00000449170	retained_intron	KNOWN	None	None	None	None	130783576	130789491	-1	None	None
2	None	ENSG00000180178	ENST00000325390	processed_transcript	KNOWN	None	None	None	None	130784418	130808704	-1	None	None
2	None	ENSG00000180178	ENST00000449736	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	130785882	130798133	-1	None	None
2	None	ENSG00000180178	ENST00000428123	processed_transcript	KNOWN	None	None	None	None	130792361	130793009	-1	None	None
4	RPL5P12	ENSG00000242697	ENST00000477071	processed_pseudogene	KNOWN	None	36221	None	None	98946541	98947391	1	None	None
19	None	ENSG00000265650	ENST00000578233	miRNA	NOVEL	None	None	None	None	21238809	21238886	1	None	None
6	None	ENSG00000225730	ENST00000451135	antisense	KNOWN	None	None	None	None	46871208	46876815	1	None	None
3	None	ENSG00000242536	ENST00000488999	lincRNA	KNOWN	None	None	None	None	157734005	157806772	-1	None	None
3	None	ENSG00000242536	ENST00000498241	lincRNA	KNOWN	None	None	None	None	157734160	157806786	-1	None	None
HG871_PATCH	AKR1C7P	ENSG00000263758	ENST00000581336	transcribed_unprocessed_pseudogene	KNOWN	None	44681	None	None	5317365	5330662	-1	None	None
HG871_PATCH	AKR1C7P	ENSG00000263758	ENST00000584673	processed_transcript	KNOWN	None	44681	None	None	5317417	5328117	-1	None	None
2	RNU6-1140P	ENSG00000222449	ENST00000410517	snRNA	KNOWN	None	48103	None	None	238471808	238471913	1	None	None
15	SNORD116-16	ENSG00000207263	ENST00000384533	snoRNA	KNOWN	None	33082	None	None	25327915	25328006	1	None	HBII-85-16
21	C21orf67	ENSG00000183250	ENST00000397841	protein_coding	PUTATIVE	None	15707	657	218	46352729	46359828	-1	C21orf69	None
21	C21orf67	ENSG00000183250	ENST00000330551	protein_coding	PUTATIVE	None	15707	615	204	46354640	46359760	-1	C21orf69	None
21	C21orf67	ENSG00000183250	ENST00000380070	protein_coding	KNOWN	None	15707	249	82	46355573	46359828	-1	C21orf69	None
19	VN1R80P	ENSG00000268598	ENST00000597126	unprocessed_pseudogene	KNOWN	None	37329	None	None	21246730	21247067	1	None	None
X	KDM5C-IT1	ENSG00000235262	ENST00000412242	sense_intronic	KNOWN	None	41384	None	None	53241590	53243861	-1	None	None
14	None	ENSG00000258563	ENST00000555485	processed_pseudogene	KNOWN	None	None	None	None	60646100	60646734	1	None	None
2	None	ENSG00000227107	ENST00000417947	lincRNA	KNOWN	None	None	None	None	238521620	238535168	1	None	None
19	RNA5SP469	ENSG00000201035	ENST00000364165	rRNA	KNOWN	None	43369	None	None	21295934	21296042	-1	RN5S469	None
HG185_PATCH	RAB5C	ENSG00000261378	ENST00000565751	protein_coding	KNOWN	None	9785	651	216	40281228	40311269	-1	RABL	RAB5CL
HG185_PATCH	RAB5C	ENSG00000261378	ENST00000570252	protein_coding	PUTATIVE	None	9785	750	249	40281919	40311240	-1	RABL	RAB5CL
HG185_PATCH	RAB5C	ENSG00000261378	ENST00000568002	retained_intron	KNOWN	None	9785	None	None	40282775	40285011	-1	RABL	RAB5CL
HG185_PATCH	RAB5C	ENSG00000261378	ENST00000567952	protein_coding	KNOWN	None	9785	372	123	40284582	40292683	-1	RABL	RAB5CL
HG185_PATCH	RAB5C	ENSG00000261378	ENST00000563870	retained_intron	KNOWN	None	9785	None	None	40284803	40311244	-1	RABL	RAB5CL
HG185_PATCH	RAB5C	ENSG00000261378	ENST00000562910	protein_coding	KNOWN	None	9785	275	90	40284944	40292736	-1	RABL	RAB5CL
HG185_PATCH	RAB5C	ENSG00000261378	ENST00000569640	protein_coding	KNOWN	None	9785	223	73	40284996	40311216	-1	RABL	RAB5CL
HG185_PATCH	RAB5C	ENSG00000261378	ENST00000564151	retained_intron	KNOWN	None	9785	None	None	40286413	40311269	-1	RABL	RAB5CL
HSCHR6_MHC_COX	MICD	ENSG00000237395	ENST00000414068	unprocessed_pseudogene	KNOWN	None	7093	None	None	29928092	29929754	-1	None	PERB11.4
X	None	ENSG00000213498	ENST00000449760	processed_pseudogene	KNOWN	None	None	None	None	120997551	120998049	-1	None	None
8	None	ENSG00000254812	ENST00000524808	antisense	KNOWN	None	None	None	None	144714241	144715926	-1	None	None
19	None	ENSG00000256240	ENST00000456283	pseudogene	NOVEL	None	None	None	None	21301321	21301529	1	None	None
X	None	ENSG00000226299	ENST00000432596	processed_pseudogene	KNOWN	None	None	None	None	53352187	53353019	1	None	None
6	None	ENSG00000271328	ENST00000603673	processed_pseudogene	KNOWN	None	None	None	None	47336679	47336966	1	None	None
19	IGFL2	ENSG00000204866	ENST00000600243	processed_transcript	KNOWN	None	32929	None	None	46646363	46664545	1	None	UNQ645
19	IGFL2	ENSG00000204866	ENST00000434646	protein_coding	KNOWN	CCDS46122	32929	393	130	46651039	46664546	1	None	UNQ645
19	IGFL2	ENSG00000204866	ENST00000377693	protein_coding	KNOWN	CCDS46121	32929	360	119	46651500	46664556	1	None	UNQ645
19	IGFL2	ENSG00000204866	ENST00000593592	retained_intron	KNOWN	None	32929	None	None	46662303	46664555	1	None	UNQ645
19	IGFL2	ENSG00000204866	ENST00000601052	protein_coding	NOVEL	None	32929	255	84	46663900	46664545	1	None	UNQ645
15	C15orf41	ENSG00000186073	ENST00000566621	protein_coding	KNOWN	CCDS45215	26929	846	281	36871812	37102424	1	None	HH114, MGC11326, FLJ22851
15	C15orf41	ENSG00000186073	ENST00000570265	processed_transcript	KNOWN	None	26929	None	None	36871835	37039457	1	None	HH114, MGC11326, FLJ22851
15	C15orf41	ENSG00000186073	ENST00000567573	processed_transcript	KNOWN	None	26929	None	None	36871839	36940958	1	None	HH114, MGC11326, FLJ22851
15	C15orf41	ENSG00000186073	ENST00000564586	protein_coding	PUTATIVE	None	26929	305	100	36871843	36983955	1	None	HH114, MGC11326, FLJ22851
15	C15orf41	ENSG00000186073	ENST00000437989	protein_coding	KNOWN	CCDS45215	26929	846	281	36872045	37102445	1	None	HH114, MGC11326, FLJ22851
15	C15orf41	ENSG00000186073	ENST00000569302	protein_coding	PUTATIVE	None	26929	864	287	36872049	37101102	1	None	HH114, MGC11326, FLJ22851
15	C15orf41	ENSG00000186073	ENST00000566807	protein_coding	KNOWN	None	26929	367	121	36887070	37002107	1	None	HH114, MGC11326, FLJ22851
15	C15orf41	ENSG00000186073	ENST00000567389	protein_coding	KNOWN	CCDS45216	26929	552	183	36887095	37102447	1	None	HH114, MGC11326, FLJ22851
15	C15orf41	ENSG00000186073	ENST00000562877	protein_coding	KNOWN	CCDS45216	26929	552	183	36887101	37100654	1	None	HH114, MGC11326, FLJ22851
15	C15orf41	ENSG00000186073	ENST00000565792	processed_transcript	KNOWN	None	26929	None	None	36988608	37102449	1	None	HH114, MGC11326, FLJ22851
15	C15orf41	ENSG00000186073	ENST00000562489	protein_coding	PUTATIVE	None	26929	318	105	36994210	37100982	1	None	HH114, MGC11326, FLJ22851
15	C15orf41	ENSG00000186073	ENST00000566932	processed_transcript	KNOWN	None	26929	None	None	36994251	37100658	1	None	HH114, MGC11326, FLJ22851
15	C15orf41	ENSG00000186073	ENST00000566677	retained_intron	KNOWN	None	26929	None	None	36996514	37101699	1	None	HH114, MGC11326, FLJ22851
15	C15orf41	ENSG00000186073	ENST00000563167	protein_coding	PUTATIVE	None	26929	201	66	37048146	37101548	1	None	HH114, MGC11326, FLJ22851
15	C15orf41	ENSG00000186073	ENST00000338183	protein_coding	KNOWN	CCDS45216	26929	552	183	36932806	37102432	1	None	HH114, MGC11326, FLJ22851
11	MIR1260B	ENSG00000266192	ENST00000582890	miRNA	KNOWN	None	38258	None	None	96074602	96074690	1	None	hsa-mir-1260b
2	None	ENSG00000263723	ENST00000579216	snoRNA	NOVEL	None	None	None	None	238778547	238778625	1	None	None
4	DUTP8	ENSG00000214904	ENST00000418412	processed_pseudogene	KNOWN	None	39521	None	None	98969706	98970194	1	None	None
8	RNU7-109P	ENSG00000252075	ENST00000516266	snRNA	KNOWN	None	45643	None	None	144728080	144728139	-1	None	None
12	None	ENSG00000257875	ENST00000549715	processed_pseudogene	KNOWN	None	None	None	None	82862235	82862727	1	None	None
X	NKRF	ENSG00000186416	ENST00000371527	protein_coding	KNOWN	CCDS35375	19374	2073	690	118722300	118727113	-1	None	ITBA4, NRF
X	NKRF	ENSG00000186416	ENST00000304449	protein_coding	KNOWN	CCDS35375	19374	2073	690	118722300	118739858	-1	None	ITBA4, NRF
X	NKRF	ENSG00000186416	ENST00000487600	processed_transcript	KNOWN	None	19374	None	None	118722306	118725272	-1	None	ITBA4, NRF
X	NKRF	ENSG00000186416	ENST00000542113	protein_coding	KNOWN	CCDS55486	19374	2118	705	118722304	118739846	-1	None	ITBA4, NRF
8	None	ENSG00000254152	ENST00000519658	processed_pseudogene	KNOWN	None	None	None	None	30207382	30207863	-1	None	None
2	RNU6-1333P	ENSG00000251971	ENST00000516162	snRNA	KNOWN	None	48296	None	None	238937612	238937704	-1	None	None
3	None	ENSG00000251058	ENST00000483759	antisense	KNOWN	None	None	None	None	140179842	140181667	-1	None	None
19	VN1R81P	ENSG00000268357	ENST00000602085	unprocessed_pseudogene	KNOWN	None	37401	None	None	21306620	21306991	1	None	None
8	None	ENSG00000181097	ENST00000531565	antisense	KNOWN	None	None	None	None	144778324	144780583	1	None	None
14	RNU6-7	ENSG00000201654	ENST00000364784	snRNA	KNOWN	None	34284	None	None	32671251	32671357	1	None	U6-7
16	PKD1P5	ENSG00000254681	ENST00000532415	transcribed_unprocessed_pseudogene	KNOWN	None	30069	None	None	18468378	18495797	-1	None	None
16	PKD1P5	ENSG00000254681	ENST00000545364	processed_transcript	KNOWN	None	30069	None	None	18476564	18478361	-1	None	None
16	PKD1P5	ENSG00000254681	ENST00000542593	processed_transcript	KNOWN	None	30069	None	None	18477223	18484776	-1	None	None
16	PKD1P5	ENSG00000254681	ENST00000538166	processed_transcript	KNOWN	None	30069	None	None	18477328	18479086	-1	None	None
16	PKD1P5	ENSG00000254681	ENST00000545970	processed_transcript	KNOWN	None	30069	None	None	18479708	18483690	-1	None	None
16	PKD1P5	ENSG00000254681	ENST00000544578	processed_transcript	KNOWN	None	30069	None	None	18488829	18495782	-1	None	None
16	PKD1P5	ENSG00000254681	ENST00000356919	unprocessed_pseudogene	KNOWN	None	30069	None	None	18458147	18473188	-1	None	None
16	PKD1P5	ENSG00000254681	ENST00000439623	unprocessed_pseudogene	KNOWN	None	30069	None	None	18476939	18479311	-1	None	None
X	ELL2P4	ENSG00000226388	ENST00000446870	processed_pseudogene	KNOWN	None	39346	None	None	145635246	145637283	1	None	None
15	None	ENSG00000214397	ENST00000378904	protein_coding	KNOWN	None	None	396	131	100255908	100258029	-1	None	None
12	None	ENSG00000258170	ENST00000552532	lincRNA	KNOWN	None	None	None	None	82874897	82891339	-1	None	None
2	None	ENSG00000225057	ENST00000456601	antisense	KNOWN	None	None	None	None	239140325	239164274	1	None	None
2	None	ENSG00000225057	ENST00000438457	retained_intron	KNOWN	None	None	None	None	239143097	239145847	1	None	None
15	SNORD116-17	ENSG00000206656	ENST00000383929	snoRNA	KNOWN	None	33083	None	None	25328735	25328826	1	None	HBII-85-17
11	JRKL-AS1	ENSG00000255679	ENST00000511243	lincRNA	KNOWN	None	43670	None	None	96180296	96239990	-1	None	None
7	SP4	ENSG00000105866	ENST00000222584	protein_coding	KNOWN	CCDS5373	11209	2355	784	21467652	21554440	1	None	SPR-1, HF1B, MGC130008, MGC130009
7	SP4	ENSG00000105866	ENST00000432066	protein_coding	NOVEL	None	11209	168	55	21467661	21516857	1	None	SPR-1, HF1B, MGC130008, MGC130009
7	SP4	ENSG00000105866	ENST00000448246	nonsense_mediated_decay	KNOWN	None	11209	150	49	21467662	21554172	1	None	SPR-1, HF1B, MGC130008, MGC130009
7	SP4	ENSG00000105866	ENST00000440636	retained_intron	KNOWN	None	11209	None	None	21467813	21468518	1	None	SPR-1, HF1B, MGC130008, MGC130009
GL000220.1	None	ENSG00000243151	ENST00000459341	miRNA	NOVEL	None	None	None	None	151420	151533	1	None	None
10	None	ENSG00000200545	ENST00000363675	snoRNA	NOVEL	None	None	None	None	19887176	19887391	1	None	None
19	RPL7AP10	ENSG00000240522	ENST00000481016	processed_pseudogene	KNOWN	None	32433	None	None	21332451	21333241	-1	RPL7AP68	None
10	CUTC	ENSG00000119929	ENST00000493385	processed_transcript	KNOWN	None	24271	None	None	101462315	101503080	1	None	CGI-32
10	CUTC	ENSG00000119929	ENST00000370476	protein_coding	KNOWN	CCDS7483	24271	822	273	101491977	101515891	1	None	CGI-32
10	CUTC	ENSG00000119929	ENST00000471520	nonsense_mediated_decay	KNOWN	None	24271	585	194	101492038	101515465	1	None	CGI-32
10	CUTC	ENSG00000119929	ENST00000370472	protein_coding	KNOWN	None	24271	434	143	101492153	101514307	1	None	CGI-32
14	RNU6-8	ENSG00000202337	ENST00000365467	snRNA	KNOWN	None	34285	None	None	32672369	32672475	-1	None	U6-8
10	RNA5SP303	ENSG00000252001	ENST00000516192	rRNA	KNOWN	None	43203	None	None	19922612	19922741	-1	RN5S303	None
3	None	ENSG00000241723	ENST00000486836	processed_pseudogene	KNOWN	None	None	None	None	157993598	157994210	-1	None	None
HSCHR17_5_CTG4	None	ENSG00000267208	ENST00000593170	unprocessed_pseudogene	KNOWN	None	None	None	None	39394253	39394717	1	None	None
7	PON2	ENSG00000105854	ENST00000455123	nonsense_mediated_decay	KNOWN	None	9205	660	219	95034179	95064303	-1	None	None
7	PON2	ENSG00000105854	ENST00000433091	protein_coding	NOVEL	CCDS47644	9205	1029	342	95034192	95064510	-1	None	None
7	PON2	ENSG00000105854	ENST00000222572	protein_coding	KNOWN	CCDS5640	9205	1065	354	95034209	95064510	-1	None	None
7	PON2	ENSG00000105854	ENST00000483292	processed_transcript	KNOWN	None	9205	None	None	95034590	95041015	-1	None	None
7	PON2	ENSG00000105854	ENST00000446142	nonsense_mediated_decay	KNOWN	None	9205	153	50	95034651	95064288	-1	None	None
7	PON2	ENSG00000105854	ENST00000459842	retained_intron	KNOWN	None	9205	None	None	95038819	95040996	-1	None	None
7	PON2	ENSG00000105854	ENST00000469926	processed_transcript	KNOWN	None	9205	None	None	95039309	95064310	-1	None	None
7	PON2	ENSG00000105854	ENST00000491069	processed_transcript	KNOWN	None	9205	None	None	95040963	95064263	-1	None	None
7	PON2	ENSG00000105854	ENST00000490778	processed_transcript	KNOWN	None	9205	None	None	95040994	95064438	-1	None	None
7	PON2	ENSG00000105854	ENST00000493290	processed_transcript	KNOWN	None	9205	None	None	95041042	95064321	-1	None	None
7	PON2	ENSG00000105854	ENST00000478801	processed_transcript	KNOWN	None	9205	None	None	95041636	95064263	-1	None	None
7	PON2	ENSG00000105854	ENST00000460873	processed_transcript	KNOWN	None	9205	None	None	95042056	95064263	-1	None	None
7	PON2	ENSG00000105854	ENST00000493469	retained_intron	KNOWN	None	9205	None	None	95045188	95064275	-1	None	None
7	PON2	ENSG00000105854	ENST00000471883	processed_transcript	KNOWN	None	9205	None	None	95047488	95064342	-1	None	None
7	PON2	ENSG00000105854	ENST00000469716	retained_intron	KNOWN	None	9205	None	None	95053476	95064340	-1	None	None
7	PON2	ENSG00000105854	ENST00000536183	protein_coding	KNOWN	None	9205	1128	375	95034175	95064510	-1	None	None
12	None	ENSG00000211577	ENST00000390222	miRNA	NOVEL	None	None	None	None	66251793	66251912	1	None	None
8	None	ENSG00000249050	ENST00000507315	processed_pseudogene	KNOWN	None	None	None	None	9311208	9314928	1	None	None
15	None	ENSG00000259363	ENST00000559714	protein_coding	PUTATIVE	None	None	234	77	100347228	100417353	1	None	None
15	None	ENSG00000259363	ENST00000560059	protein_coding	PUTATIVE	None	None	234	77	100347264	100379270	1	None	None
15	None	ENSG00000259363	ENST00000558188	protein_coding	PUTATIVE	None	None	234	77	100348193	100417310	1	None	None
12	None	ENSG00000257837	ENST00000551856	lincRNA	KNOWN	None	None	None	None	82898990	82899967	-1	None	None
17	PTRH2	ENSG00000141378	ENST00000587935	processed_transcript	KNOWN	None	24265	None	None	57751997	57784776	-1	None	BIT1, CGI-147, PTH2
17	PTRH2	ENSG00000141378	ENST00000393038	protein_coding	KNOWN	CCDS11618	24265	540	179	57774667	57784959	-1	None	BIT1, CGI-147, PTH2
17	PTRH2	ENSG00000141378	ENST00000409433	protein_coding	PUTATIVE	None	24265	543	180	57774669	57784987	-1	None	BIT1, CGI-147, PTH2
17	PTRH2	ENSG00000141378	ENST00000470557	protein_coding	PUTATIVE	CCDS11618	24265	540	179	57774673	57778786	-1	None	BIT1, CGI-147, PTH2
17	PTRH2	ENSG00000141378	ENST00000579915	processed_transcript	KNOWN	None	24265	None	None	57776777	57784801	-1	None	BIT1, CGI-147, PTH2
17	PTRH2	ENSG00000141378	ENST00000537860	protein_coding	KNOWN	CCDS11618	24265	540	179	57774669	57784790	-1	None	BIT1, CGI-147, PTH2
3	None	ENSG00000216184	ENST00000401365	miRNA	NOVEL	None	None	None	None	140208894	140208986	-1	None	None
15	None	ENSG00000258542	ENST00000556118	transcribed_processed_pseudogene	KNOWN	None	None	None	None	91573118	91573226	1	None	None
GL000220.1	None	ENSG00000265807	ENST00000581046	miRNA	NOVEL	None	None	None	None	151881	152060	1	None	None
17	SHPK	ENSG00000197417	ENST00000225519	protein_coding	KNOWN	CCDS11030	1492	1437	478	3511556	3539616	-1	CARKL	SHK
2	None	ENSG00000232306	ENST00000437372	antisense	KNOWN	None	None	None	None	239207351	239209261	-1	None	None
11	RNA5SP346	ENSG00000200411	ENST00000363541	rRNA	KNOWN	None	43246	None	None	96207736	96207856	-1	RN5S346	None
3	None	ENSG00000243314	ENST00000484182	processed_pseudogene	KNOWN	None	None	None	None	158214350	158214723	1	None	None
12	None	ENSG00000256083	ENST00000544279	antisense	KNOWN	None	None	None	None	66328557	66342259	-1	None	None
9	ANP32B	ENSG00000136938	ENST00000339399	protein_coding	KNOWN	CCDS6732	16677	756	251	100745643	100778225	1	None	SSP29, PHAPI2, APRIL
9	ANP32B	ENSG00000136938	ENST00000473205	processed_transcript	KNOWN	None	16677	None	None	100746874	100767417	1	None	SSP29, PHAPI2, APRIL
9	ANP32B	ENSG00000136938	ENST00000486769	processed_transcript	KNOWN	None	16677	None	None	100760896	100767580	1	None	SSP29, PHAPI2, APRIL
8	None	ENSG00000254574	ENST00000527579	antisense	KNOWN	None	None	None	None	144791177	144795754	-1	None	None
12	None	ENSG00000257431	ENST00000548575	lincRNA	KNOWN	None	None	None	None	82906456	82909596	1	None	None
2	RNU6-234P	ENSG00000202099	ENST00000365229	snRNA	KNOWN	None	47197	None	None	239321283	239321386	1	None	None
15	SNORD116-18	ENSG00000206688	ENST00000383961	snoRNA	KNOWN	None	33084	None	None	25330532	25330623	1	None	HBII-85-18
2	None	ENSG00000229915	ENST00000447880	antisense	KNOWN	None	None	None	None	239335718	239336370	-1	None	None
3	None	ENSG00000250433	ENST00000513309	antisense	KNOWN	None	None	None	None	140224453	140227631	-1	None	None
12	RNU6-558P	ENSG00000201382	ENST00000364512	snRNA	KNOWN	None	47521	None	None	117219910	117220013	1	None	None
14	None	ENSG00000258619	ENST00000556497	processed_pseudogene	KNOWN	None	None	None	None	32710730	32712299	-1	None	None
3	None	ENSG00000243150	ENST00000475981	antisense	KNOWN	None	None	None	None	158263009	158288855	-1	None	None
3	None	ENSG00000243150	ENST00000479233	antisense	KNOWN	None	None	None	None	158271647	158288696	-1	None	None
HSCHR6_MHC_DBB	HLA-DQB2	ENSG00000228813	ENST00000430849	protein_coding	KNOWN	None	4945	807	268	32703042	32710481	-1	HLA-DXB	None
HSCHR6_MHC_DBB	HLA-DQB2	ENSG00000228813	ENST00000417780	protein_coding	KNOWN	None	4945	696	231	32703042	32710437	-1	HLA-DXB	None
HSCHR6_MHC_DBB	HLA-DQB2	ENSG00000228813	ENST00000433801	protein_coding	KNOWN	None	4945	840	279	32703043	32710479	-1	HLA-DXB	None
HSCHR6_MHC_DBB	HLA-DQB2	ENSG00000228813	ENST00000424579	protein_coding	KNOWN	None	4945	656	217	32703332	32710413	-1	HLA-DXB	None
HSCHR6_MHC_DBB	HLA-DQB2	ENSG00000228813	ENST00000547371	protein_coding	KNOWN	None	4945	627	208	32703042	32710500	-1	HLA-DXB	None
X	None	ENSG00000207408	ENST00000384677	misc_RNA	NOVEL	None	None	None	None	53353767	53353879	1	None	None
5	REEP2	ENSG00000132563	ENST00000378339	protein_coding	KNOWN	None	17975	765	254	137774706	137782653	1	C5orf19	SGC32445
5	REEP2	ENSG00000132563	ENST00000254901	protein_coding	KNOWN	CCDS4205	17975	759	252	137774776	137782658	1	C5orf19	SGC32445
5	REEP2	ENSG00000132563	ENST00000506158	protein_coding	PUTATIVE	None	17975	645	214	137774791	137781520	1	C5orf19	SGC32445
5	REEP2	ENSG00000132563	ENST00000464751	processed_transcript	KNOWN	None	17975	None	None	137774799	137779547	1	C5orf19	SGC32445
5	REEP2	ENSG00000132563	ENST00000503379	retained_intron	KNOWN	None	17975	None	None	137774800	137780394	1	C5orf19	SGC32445
5	REEP2	ENSG00000132563	ENST00000507511	nonsense_mediated_decay	KNOWN	None	17975	123	40	137774800	137781038	1	C5orf19	SGC32445
5	REEP2	ENSG00000132563	ENST00000510467	retained_intron	KNOWN	None	17975	None	None	137774857	137780807	1	C5orf19	SGC32445
5	REEP2	ENSG00000132563	ENST00000512126	protein_coding	PUTATIVE	None	17975	572	189	137775371	137780958	1	C5orf19	SGC32445
5	REEP2	ENSG00000132563	ENST00000507635	retained_intron	KNOWN	None	17975	None	None	137780017	137781487	1	C5orf19	SGC32445
5	REEP2	ENSG00000132563	ENST00000504163	retained_intron	KNOWN	None	17975	None	None	137780687	137781412	1	C5orf19	SGC32445
7	None	ENSG00000226598	ENST00000451792	lincRNA	KNOWN	None	None	None	None	17503069	17598533	-1	None	None
12	None	ENSG00000240100	ENST00000468934	processed_pseudogene	KNOWN	None	None	None	None	117346117	117346432	1	None	None
2	None	ENSG00000225493	ENST00000446979	lincRNA	KNOWN	None	None	None	None	239419331	239463695	-1	None	None
11	None	ENSG00000256684	ENST00000543403	lincRNA	KNOWN	None	None	None	None	96241589	96247912	1	None	None
X	None	ENSG00000236571	ENST00000448956	processed_pseudogene	KNOWN	None	None	None	None	53366989	53367179	-1	None	None
15	None	ENSG00000258665	ENST00000557387	unprocessed_pseudogene	KNOWN	None	None	None	None	91574942	91575665	-1	None	None
5	HRH2	ENSG00000113749	ENST00000377291	protein_coding	KNOWN	CCDS47344	5183	1194	397	175085033	175113245	1	None	None
5	HRH2	ENSG00000113749	ENST00000231683	protein_coding	KNOWN	CCDS4395	5183	1080	359	175108464	175111558	1	None	None
X	None	ENSG00000221217	ENST00000408290	miRNA	NOVEL	None	None	None	None	121002720	121002809	1	None	None
17	SMURF2	ENSG00000108854	ENST00000582081	nonsense_mediated_decay	KNOWN	None	16809	168	55	62538413	62658015	-1	None	None
17	SMURF2	ENSG00000108854	ENST00000578386	nonsense_mediated_decay	KNOWN	None	16809	207	68	62541186	62658046	-1	None	None
17	SMURF2	ENSG00000108854	ENST00000262435	protein_coding	KNOWN	CCDS32707	16809	2247	748	62541483	62658186	-1	None	None
17	SMURF2	ENSG00000108854	ENST00000585301	protein_coding	NOVEL	None	16809	1684	560	62550999	62658030	-1	None	None
17	SMURF2	ENSG00000108854	ENST00000580072	retained_intron	KNOWN	None	16809	None	None	62553759	62559283	-1	None	None
17	SMURF2	ENSG00000108854	ENST00000578200	processed_transcript	KNOWN	None	16809	None	None	62556958	62656980	-1	None	None
17	SMURF2	ENSG00000108854	ENST00000580246	retained_intron	KNOWN	None	16809	None	None	62589133	62594563	-1	None	None
19	None	ENSG00000268790	ENST00000593962	processed_transcript	KNOWN	None	None	None	None	16688453	16770915	-1	None	None
19	None	ENSG00000268790	ENST00000601636	nonsense_mediated_decay	KNOWN	None	None	192	63	16688460	16770811	-1	None	None
19	None	ENSG00000268790	ENST00000593991	nonsense_mediated_decay	KNOWN	None	None	222	73	16688461	16770915	-1	None	None
19	None	ENSG00000268790	ENST00000595505	nonsense_mediated_decay	KNOWN	None	None	150	49	16688461	16770926	-1	None	None
19	None	ENSG00000268790	ENST00000593459	protein_coding	NOVEL	None	None	189	62	16688462	16770915	-1	None	None
19	None	ENSG00000268790	ENST00000594509	nonsense_mediated_decay	KNOWN	None	None	222	73	16688462	16770915	-1	None	None
19	None	ENSG00000268790	ENST00000600705	nonsense_mediated_decay	KNOWN	None	None	150	49	16688557	16770926	-1	None	None
2	None	ENSG00000234279	ENST00000448543	lincRNA	KNOWN	None	None	None	None	239628965	239649421	1	None	None
19	MBOAT7	ENSG00000125505	ENST00000437868	nonsense_mediated_decay	KNOWN	None	15505	213	70	54677109	54693294	-1	LENG4	BB1, hMBOA-7, LPIAT
19	MBOAT7	ENSG00000125505	ENST00000338624	protein_coding	PUTATIVE	CCDS54315	15505	1200	399	54677109	54693419	-1	LENG4	BB1, hMBOA-7, LPIAT
19	MBOAT7	ENSG00000125505	ENST00000245615	protein_coding	KNOWN	CCDS12883	15505	1419	472	54677109	54693666	-1	LENG4	BB1, hMBOA-7, LPIAT
19	MBOAT7	ENSG00000125505	ENST00000494142	retained_intron	KNOWN	None	15505	None	None	54677113	54684507	-1	LENG4	BB1, hMBOA-7, LPIAT
19	MBOAT7	ENSG00000125505	ENST00000449249	protein_coding	PUTATIVE	None	15505	372	123	54677768	54692132	-1	LENG4	BB1, hMBOA-7, LPIAT
19	MBOAT7	ENSG00000125505	ENST00000391754	protein_coding	PUTATIVE	CCDS54316	15505	1035	344	54682054	54693523	-1	LENG4	BB1, hMBOA-7, LPIAT
19	MBOAT7	ENSG00000125505	ENST00000495279	protein_coding	PUTATIVE	None	15505	545	180	54683380	54687517	-1	LENG4	BB1, hMBOA-7, LPIAT
19	MBOAT7	ENSG00000125505	ENST00000414665	protein_coding	PUTATIVE	None	15505	768	255	54684576	54693146	-1	LENG4	BB1, hMBOA-7, LPIAT
19	MBOAT7	ENSG00000125505	ENST00000453320	protein_coding	KNOWN	None	15505	511	169	54684833	54693195	-1	LENG4	BB1, hMBOA-7, LPIAT
19	MBOAT7	ENSG00000125505	ENST00000464098	retained_intron	KNOWN	None	15505	None	None	54684841	54692266	-1	LENG4	BB1, hMBOA-7, LPIAT
19	MBOAT7	ENSG00000125505	ENST00000474910	processed_transcript	KNOWN	None	15505	None	None	54687404	54693400	-1	LENG4	BB1, hMBOA-7, LPIAT
19	MBOAT7	ENSG00000125505	ENST00000491216	retained_intron	KNOWN	None	15505	None	None	54690838	54693211	-1	LENG4	BB1, hMBOA-7, LPIAT
19	MBOAT7	ENSG00000125505	ENST00000495968	processed_transcript	KNOWN	None	15505	None	None	54691168	54693420	-1	LENG4	BB1, hMBOA-7, LPIAT
19	MBOAT7	ENSG00000125505	ENST00000431666	protein_coding	KNOWN	CCDS54315	15505	1200	399	54677107	54693733	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR4_1_CTG12	TDO2	ENSG00000262635	ENST00000570498	processed_transcript	KNOWN	None	11708	None	None	156775890	156826308	1	None	TDO, TPH2
HSCHR4_1_CTG12	TDO2	ENSG00000262635	ENST00000571694	processed_transcript	KNOWN	None	11708	None	None	156775909	156786254	1	None	TDO, TPH2
HSCHR4_1_CTG12	TDO2	ENSG00000262635	ENST00000574434	protein_coding	PUTATIVE	None	11708	196	64	156775914	156831262	1	None	TDO, TPH2
HSCHR4_1_CTG12	TDO2	ENSG00000262635	ENST00000573644	protein_coding	PUTATIVE	None	11708	148	48	156775923	156831214	1	None	TDO, TPH2
HSCHR4_1_CTG12	TDO2	ENSG00000262635	ENST00000576687	retained_intron	KNOWN	None	11708	None	None	156824845	156826946	1	None	TDO, TPH2
HSCHR4_1_CTG12	TDO2	ENSG00000262635	ENST00000573403	protein_coding	KNOWN	None	11708	1221	406	156824847	156841558	1	None	TDO, TPH2
HSCHR4_1_CTG12	TDO2	ENSG00000262635	ENST00000576270	retained_intron	KNOWN	None	11708	None	None	156826972	156841550	1	None	TDO, TPH2
HSCHR4_1_CTG12	TDO2	ENSG00000262635	ENST00000573999	processed_transcript	KNOWN	None	11708	None	None	156835493	156840011	1	None	TDO, TPH2
8	DEFB1	ENSG00000164825	ENST00000297439	protein_coding	KNOWN	CCDS5959	2766	207	68	6728097	6735544	-1	None	HBD-1, DEFB-1, DEFB101, HBD1, BD1, MGC51822
15	SNORD116-19	ENSG00000207460	ENST00000384729	snoRNA	KNOWN	None	33085	None	None	25331674	25331765	1	None	HBII-85-19
HSCHR21_2_CTG1_1	LINC00308	ENSG00000262510	ENST00000572717	lincRNA	KNOWN	None	16023	None	None	23470936	23488847	1	C21orf74, NCRNA00308	PRED16
17	KSR1	ENSG00000141068	ENST00000580163	protein_coding	NOVEL	None	6465	138	45	25783740	25909700	1	KSR	RSU2
17	KSR1	ENSG00000141068	ENST00000579309	processed_transcript	KNOWN	None	6465	None	None	25783756	25810881	1	KSR	RSU2
17	KSR1	ENSG00000141068	ENST00000583370	protein_coding	NOVEL	None	6465	466	154	25799031	25910028	1	KSR	RSU2
17	KSR1	ENSG00000141068	ENST00000398988	protein_coding	NOVEL	CCDS58532	6465	2289	762	25799036	25953461	1	KSR	RSU2
17	KSR1	ENSG00000141068	ENST00000582311	processed_transcript	KNOWN	None	6465	None	None	25799039	25909961	1	KSR	RSU2
17	KSR1	ENSG00000141068	ENST00000398985	retained_intron	KNOWN	None	6465	None	None	25887343	25906904	1	KSR	RSU2
17	KSR1	ENSG00000141068	ENST00000579399	retained_intron	KNOWN	None	6465	None	None	25904482	25912986	1	KSR	RSU2
17	KSR1	ENSG00000141068	ENST00000398982	protein_coding	NOVEL	None	6465	1839	612	25909947	25949170	1	KSR	RSU2
17	KSR1	ENSG00000141068	ENST00000577823	nonsense_mediated_decay	KNOWN	None	6465	296	97	25910035	25919640	1	KSR	RSU2
17	KSR1	ENSG00000141068	ENST00000581975	processed_transcript	KNOWN	None	6465	None	None	25912874	25931754	1	KSR	RSU2
17	KSR1	ENSG00000141068	ENST00000580822	processed_transcript	KNOWN	None	6465	None	None	25914138	25917881	1	KSR	RSU2
17	KSR1	ENSG00000141068	ENST00000579961	processed_transcript	KNOWN	None	6465	None	None	25919584	25931754	1	KSR	RSU2
17	KSR1	ENSG00000141068	ENST00000583525	retained_intron	KNOWN	None	6465	None	None	25928316	25932671	1	KSR	RSU2
17	KSR1	ENSG00000141068	ENST00000582410	protein_coding	PUTATIVE	None	6465	342	113	25936869	25950720	1	KSR	RSU2
17	KSR1	ENSG00000141068	ENST00000580430	protein_coding	NOVEL	None	6465	420	139	25937154	25950481	1	KSR	RSU2
17	KSR1	ENSG00000141068	ENST00000583998	processed_transcript	KNOWN	None	6465	None	None	25938335	25944454	1	KSR	RSU2
17	KSR1	ENSG00000141068	ENST00000578981	protein_coding	PUTATIVE	None	6465	393	130	25948061	25950848	1	KSR	RSU2
17	KSR1	ENSG00000141068	ENST00000319524	protein_coding	KNOWN	None	6465	2772	923	25783670	25950717	1	KSR	RSU2
17	KSR1	ENSG00000141068	ENST00000509603	protein_coding	KNOWN	None	6465	2631	876	25783670	25944768	1	KSR	RSU2
17	KSR1	ENSG00000141068	ENST00000268763	protein_coding	KNOWN	None	6465	2361	786	25799036	25950418	1	KSR	RSU2
12	None	ENSG00000257279	ENST00000548738	antisense	KNOWN	None	None	None	None	117415247	117425142	-1	None	None
X	None	ENSG00000260585	ENST00000569460	lincRNA	KNOWN	None	None	None	None	121005722	121010718	1	None	None
17	CACNG4	ENSG00000075461	ENST00000262138	protein_coding	KNOWN	CCDS11667	1408	984	327	64961026	65029514	1	None	MGC11138, MGC24983
12	RNU6-977P	ENSG00000252220	ENST00000516411	snRNA	KNOWN	None	47940	None	None	83415669	83415771	1	None	None
2	None	ENSG00000224252	ENST00000416747	processed_pseudogene	KNOWN	None	None	None	None	239643904	239644188	-1	None	None
8	None	ENSG00000254548	ENST00000527908	antisense	KNOWN	None	None	None	None	144800416	144801061	-1	None	None
12	RPL6P25	ENSG00000213270	ENST00000464696	processed_pseudogene	KNOWN	None	36840	None	None	83545110	83545969	1	None	None
3	None	ENSG00000238043	ENST00000426616	lincRNA	KNOWN	None	None	None	None	193698403	193723887	1	None	None
14	None	ENSG00000259086	ENST00000556746	processed_pseudogene	KNOWN	None	None	None	None	32741063	32741507	-1	None	None
14	None	ENSG00000259086	ENST00000599390	processed_pseudogene	KNOWN	None	None	None	None	32741061	32741510	-1	None	None
18	HRH4	ENSG00000134489	ENST00000256906	protein_coding	KNOWN	CCDS11887	17383	1173	390	22040593	22059921	1	None	H4R, HH4R, AXOR35, GPCR105, GPRv53
18	HRH4	ENSG00000134489	ENST00000426880	protein_coding	KNOWN	CCDS45841	17383	909	302	22040693	22057526	1	None	H4R, HH4R, AXOR35, GPCR105, GPRv53
7	None	ENSG00000228675	ENST00000448898	lincRNA	KNOWN	None	None	None	None	17719173	17720283	1	None	None
2	None	ENSG00000226992	ENST00000441444	lincRNA	KNOWN	None	None	None	None	239697289	239698357	-1	None	None
3	DPPA2P3	ENSG00000224403	ENST00000411853	processed_pseudogene	KNOWN	None	44628	None	None	193711120	193711774	-1	None	None
7	ING3	ENSG00000071243	ENST00000315870	protein_coding	KNOWN	CCDS5778	14587	1257	418	120590803	120617270	1	None	p47ING3, FLJ20089, Eaf4, MEAF4
7	ING3	ENSG00000071243	ENST00000339121	protein_coding	KNOWN	CCDS35497	14587	279	92	120590817	120597034	1	None	p47ING3, FLJ20089, Eaf4, MEAF4
7	ING3	ENSG00000071243	ENST00000427726	nonsense_mediated_decay	KNOWN	None	14587	282	93	120590839	120615344	1	None	p47ING3, FLJ20089, Eaf4, MEAF4
7	ING3	ENSG00000071243	ENST00000445699	protein_coding	PUTATIVE	None	14587	300	99	120590849	120597032	1	None	p47ING3, FLJ20089, Eaf4, MEAF4
7	ING3	ENSG00000071243	ENST00000431467	protein_coding	PUTATIVE	None	14587	1212	403	120591170	120615068	1	None	p47ING3, FLJ20089, Eaf4, MEAF4
7	ING3	ENSG00000071243	ENST00000497502	retained_intron	KNOWN	None	14587	None	None	120607550	120610934	1	None	p47ING3, FLJ20089, Eaf4, MEAF4
12	None	ENSG00000258338	ENST00000550279	lincRNA	KNOWN	None	None	None	None	83565369	83566519	1	None	None
2	None	ENSG00000250207	ENST00000511039	unprocessed_pseudogene	KNOWN	None	None	None	None	130750175	130750678	-1	None	None
11	NPM1P35	ENSG00000255213	ENST00000533043	processed_pseudogene	KNOWN	None	45214	None	None	62098418	62099285	1	None	None
15	None	ENSG00000258551	ENST00000555947	lincRNA	KNOWN	None	None	None	None	91951938	92148441	1	None	None
15	None	ENSG00000258551	ENST00000554333	lincRNA	KNOWN	None	None	None	None	92006567	92038080	1	None	None
2	None	ENSG00000227744	ENST00000455228	lincRNA	KNOWN	None	None	None	None	239840998	239847965	-1	None	None
1	MRTO4	ENSG00000053372	ENST00000330263	protein_coding	KNOWN	CCDS191	18477	720	239	19578033	19586622	1	C1orf33	dJ657E11.4, MRT4
1	MRTO4	ENSG00000053372	ENST00000493700	processed_transcript	KNOWN	None	18477	None	None	19578329	19582546	1	C1orf33	dJ657E11.4, MRT4
1	MRTO4	ENSG00000053372	ENST00000479559	processed_transcript	KNOWN	None	18477	None	None	19584206	19585233	1	C1orf33	dJ657E11.4, MRT4
12	None	ENSG00000258285	ENST00000547006	lincRNA	KNOWN	None	None	None	None	117537286	117579896	1	None	None
3	MTAPP1	ENSG00000243025	ENST00000489154	processed_pseudogene	KNOWN	None	42442	None	None	158327399	158328646	-1	None	None
2	None	ENSG00000217289	ENST00000401540	processed_pseudogene	KNOWN	None	None	None	None	130750462	130751613	1	None	None
19	None	ENSG00000254887	ENST00000527895	antisense	KNOWN	None	None	None	None	42636707	42641251	1	None	None
19	None	ENSG00000254887	ENST00000531517	antisense	KNOWN	None	None	None	None	42638656	42641239	1	None	None
1	KLHDC9	ENSG00000162755	ENST00000490724	processed_transcript	KNOWN	None	28489	None	None	161068151	161070088	1	None	KARCA1
1	KLHDC9	ENSG00000162755	ENST00000469647	processed_transcript	KNOWN	None	28489	None	None	161068153	161070133	1	None	KARCA1
1	KLHDC9	ENSG00000162755	ENST00000471613	retained_intron	KNOWN	None	28489	None	None	161068172	161069208	1	None	KARCA1
1	KLHDC9	ENSG00000162755	ENST00000368011	protein_coding	KNOWN	CCDS30919	28489	1050	349	161068184	161070136	1	None	KARCA1
1	KLHDC9	ENSG00000162755	ENST00000392192	protein_coding	KNOWN	CCDS41425	28489	867	288	161068184	161070136	1	None	KARCA1
1	KLHDC9	ENSG00000162755	ENST00000392191	processed_transcript	KNOWN	None	28489	None	None	161068230	161069525	1	None	KARCA1
1	KLHDC9	ENSG00000162755	ENST00000494418	processed_transcript	KNOWN	None	28489	None	None	161068235	161069534	1	None	KARCA1
1	KLHDC9	ENSG00000162755	ENST00000475934	retained_intron	KNOWN	None	28489	None	None	161069298	161070136	1	None	KARCA1
8	MIR4664	ENSG00000265660	ENST00000583819	miRNA	KNOWN	None	41777	None	None	144815253	144815323	-1	None	hsa-mir-4664
7	RNMTL1P2	ENSG00000236195	ENST00000454810	processed_pseudogene	KNOWN	None	44906	None	None	18001702	18002652	1	None	None
15	SNORD116-20	ENSG00000261069	ENST00000567527	lincRNA	KNOWN	None	33086	None	None	25332808	25334043	1	None	HBII-85-20
15	SNORD116-20	ENSG00000261069	ENST00000384529	snoRNA	KNOWN	None	33086	None	None	25332809	25332900	1	None	HBII-85-20
15	SNORD116-20	ENSG00000261069	ENST00000384507	snoRNA	KNOWN	None	33086	None	None	25333951	25334042	1	None	HBII-85-20
15	SNORD116-21	ENSG00000261069	ENST00000567527	lincRNA	KNOWN	None	33087	None	None	25332808	25334043	1	None	HBII-85-21
15	SNORD116-21	ENSG00000261069	ENST00000384529	snoRNA	KNOWN	None	33087	None	None	25332809	25332900	1	None	HBII-85-21
15	SNORD116-21	ENSG00000261069	ENST00000384507	snoRNA	KNOWN	None	33087	None	None	25333951	25334042	1	None	HBII-85-21
2	ARHGAP42P2	ENSG00000231147	ENST00000416089	unprocessed_pseudogene	KNOWN	None	43939	None	None	130763773	130766696	1	None	None
3	None	ENSG00000249305	ENST00000510247	processed_pseudogene	KNOWN	None	None	None	None	140338536	140338679	-1	None	None
12	None	ENSG00000257124	ENST00000547795	lincRNA	KNOWN	None	None	None	None	84054788	84055498	-1	None	None
8	DEFA6	ENSG00000164822	ENST00000297436	protein_coding	KNOWN	CCDS5960	2765	303	100	6782215	6783598	-1	None	HD-6, DEF6
3	LINC00698	ENSG00000244342	ENST00000475886	lincRNA	KNOWN	None	27720	None	None	62936105	63109888	1	None	None
3	LINC00698	ENSG00000244342	ENST00000465684	lincRNA	KNOWN	None	27720	None	None	62936133	63110738	1	None	None
3	LINC00698	ENSG00000244342	ENST00000465262	lincRNA	KNOWN	None	27720	None	None	62936146	63099387	1	None	None
3	LINC00698	ENSG00000244342	ENST00000468072	lincRNA	KNOWN	None	27720	None	None	62936146	63110738	1	None	None
3	LINC00698	ENSG00000244342	ENST00000497573	lincRNA	KNOWN	None	27720	None	None	63091651	63099571	1	None	None
12	None	ENSG00000256259	ENST00000536217	lincRNA	KNOWN	None	None	None	None	66421505	66424846	-1	None	None
8	FAM83H-AS1	ENSG00000203499	ENST00000533004	lincRNA	KNOWN	None	48720	None	None	144816310	144828507	1	None	None
8	FAM83H-AS1	ENSG00000203499	ENST00000534398	lincRNA	KNOWN	None	48720	None	None	144821566	144824305	1	None	None
8	FAM83H-AS1	ENSG00000203499	ENST00000435097	lincRNA	KNOWN	None	48720	None	None	144823268	144828506	1	None	None
8	None	ENSG00000272267	ENST00000607598	antisense	KNOWN	None	None	None	None	9412656	9414030	-1	None	None
X	HMGN5	ENSG00000198157	ENST00000358130	protein_coding	KNOWN	CCDS14448	8013	849	282	80369200	80457441	-1	NSBP1	None
X	HMGN5	ENSG00000198157	ENST00000447319	protein_coding	KNOWN	None	8013	603	200	80370334	80377187	-1	NSBP1	None
X	HMGN5	ENSG00000198157	ENST00000373250	protein_coding	KNOWN	None	8013	483	160	80370484	80377137	-1	NSBP1	None
X	HMGN5	ENSG00000198157	ENST00000430960	protein_coding	KNOWN	None	8013	444	147	80370553	80377182	-1	NSBP1	None
X	HMGN5	ENSG00000198157	ENST00000491275	processed_transcript	KNOWN	None	8013	None	None	80370610	80377187	-1	NSBP1	None
X	HMGN5	ENSG00000198157	ENST00000436386	protein_coding	KNOWN	None	8013	306	101	80370691	80457412	-1	NSBP1	None
X	HMGN5	ENSG00000198157	ENST00000451455	protein_coding	KNOWN	None	8013	267	88	80371703	80457385	-1	NSBP1	None
3	None	ENSG00000243165	ENST00000463883	processed_pseudogene	KNOWN	None	None	None	None	158344445	158344638	-1	None	None
7	None	ENSG00000265876	ENST00000579508	miRNA	NOVEL	None	None	None	None	18033058	18033123	-1	None	None
3	None	ENSG00000261826	ENST00000567488	lincRNA	KNOWN	None	None	None	None	140583917	140586625	-1	None	None
HSCHR17_1	None	ENSG00000257961	ENST00000549653	protein_coding	KNOWN	None	None	2589	862	43472821	43507633	-1	None	None
HSCHR17_1	None	ENSG00000257961	ENST00000546802	protein_coding	KNOWN	None	None	1647	548	43471268	43502999	-1	None	None
HSCHR17_1	None	ENSG00000257961	ENST00000548772	protein_coding	KNOWN	None	None	1647	548	43472821	43487751	-1	None	None
HSCHR17_1	None	ENSG00000257961	ENST00000550209	protein_coding	KNOWN	None	None	792	263	43506707	43510270	-1	None	None
8	PARP10	ENSG00000178685	ENST00000526007	retained_intron	KNOWN	None	25895	None	None	145051321	145058526	-1	None	FLJ14464
8	PARP10	ENSG00000178685	ENST00000524918	protein_coding	NOVEL	None	25895	3051	1016	145051321	145060614	-1	None	FLJ14464
8	PARP10	ENSG00000178685	ENST00000313028	protein_coding	KNOWN	CCDS34960	25895	3078	1025	145051328	145060622	-1	None	FLJ14464
8	PARP10	ENSG00000178685	ENST00000525773	protein_coding	PUTATIVE	None	25895	3114	1037	145051551	145060628	-1	None	FLJ14464
8	PARP10	ENSG00000178685	ENST00000527262	nonsense_mediated_decay	KNOWN	None	25895	2295	764	145051621	145060590	-1	None	FLJ14464
8	PARP10	ENSG00000178685	ENST00000528963	retained_intron	KNOWN	None	25895	None	None	145058010	145058807	-1	None	FLJ14464
8	PARP10	ENSG00000178685	ENST00000313059	protein_coding	PUTATIVE	None	25895	1019	338	145058896	145060598	-1	None	FLJ14464
8	PARP10	ENSG00000178685	ENST00000533665	processed_transcript	KNOWN	None	25895	None	None	145059151	145060622	-1	None	FLJ14464
8	PARP10	ENSG00000178685	ENST00000526985	retained_intron	KNOWN	None	25895	None	None	145059660	145060309	-1	None	FLJ14464
8	PARP10	ENSG00000178685	ENST00000525879	protein_coding	KNOWN	None	25895	535	177	145059718	145065101	-1	None	FLJ14464
8	PARP10	ENSG00000178685	ENST00000528625	protein_coding	KNOWN	None	25895	516	171	145059737	145064437	-1	None	FLJ14464
8	PARP10	ENSG00000178685	ENST00000525486	protein_coding	KNOWN	None	25895	439	145	145059886	145061349	-1	None	FLJ14464
8	PARP10	ENSG00000178685	ENST00000531537	protein_coding	KNOWN	None	25895	433	143	145059892	145061312	-1	None	FLJ14464
8	PARP10	ENSG00000178685	ENST00000529842	protein_coding	KNOWN	None	25895	432	143	145059893	145061267	-1	None	FLJ14464
8	PARP10	ENSG00000178685	ENST00000528914	protein_coding	KNOWN	None	25895	407	134	145059918	145065303	-1	None	FLJ14464
8	PARP10	ENSG00000178685	ENST00000528136	protein_coding	KNOWN	None	25895	386	127	145059939	145065207	-1	None	FLJ14464
8	PARP10	ENSG00000178685	ENST00000529311	protein_coding	KNOWN	None	25895	320	105	145060005	145063133	-1	None	FLJ14464
8	PARP10	ENSG00000178685	ENST00000528580	retained_intron	KNOWN	None	25895	None	None	145060017	145060628	-1	None	FLJ14464
8	PARP10	ENSG00000178685	ENST00000530478	protein_coding	KNOWN	None	25895	266	87	145060059	145086940	-1	None	FLJ14464
8	PARP10	ENSG00000178685	ENST00000532311	protein_coding	KNOWN	None	25895	249	82	145060076	145065356	-1	None	FLJ14464
8	PARP10	ENSG00000178685	ENST00000531707	protein_coding	KNOWN	None	25895	243	80	145060082	145061100	-1	None	FLJ14464
8	PARP10	ENSG00000178685	ENST00000534737	processed_transcript	KNOWN	None	25895	None	None	145060525	145064155	-1	None	FLJ14464
8	PARP10	ENSG00000178685	ENST00000532660	processed_transcript	KNOWN	None	25895	None	None	145060531	145064153	-1	None	FLJ14464
2	None	ENSG00000211566	ENST00000390140	miRNA	NOVEL	None	None	None	None	239894624	239894706	-1	None	None
3	None	ENSG00000272087	ENST00000607624	lincRNA	KNOWN	None	None	None	None	158410909	158411557	-1	None	None
X	None	ENSG00000237891	ENST00000457727	processed_pseudogene	KNOWN	None	None	None	None	121144829	121145465	-1	None	None
HSCHR6_MHC_COX	HCG9	ENSG00000236579	ENST00000445934	processed_transcript	KNOWN	None	21243	None	None	29932391	29935687	1	None	PERB11, HCGIX, HCGIX4, HCGIX-4
11	None	ENSG00000254587	ENST00000527528	lincRNA	KNOWN	None	None	None	None	96461317	96584822	1	None	None
2	None	ENSG00000260506	ENST00000567151	lincRNA	KNOWN	None	None	None	None	239928722	239931139	-1	None	None
3	None	ENSG00000230102	ENST00000599441	lincRNA	KNOWN	None	None	None	None	193723226	193767131	-1	None	None
3	None	ENSG00000230102	ENST00000458224	lincRNA	KNOWN	None	None	None	None	193723245	193788759	-1	None	None
3	None	ENSG00000230102	ENST00000449350	lincRNA	KNOWN	None	None	None	None	193727247	193788741	-1	None	None
3	None	ENSG00000230102	ENST00000420947	lincRNA	KNOWN	None	None	None	None	193733232	193775468	-1	None	None
3	None	ENSG00000230102	ENST00000598535	lincRNA	KNOWN	None	None	None	None	193760700	193767131	-1	None	None
3	None	ENSG00000230102	ENST00000593326	lincRNA	KNOWN	None	None	None	None	193760913	193766916	-1	None	None
3	None	ENSG00000230102	ENST00000597775	lincRNA	KNOWN	None	None	None	None	193760952	193767129	-1	None	None
3	None	ENSG00000230102	ENST00000601913	lincRNA	KNOWN	None	None	None	None	193760979	193767131	-1	None	None
3	None	ENSG00000230102	ENST00000593559	lincRNA	KNOWN	None	None	None	None	193761142	193767131	-1	None	None
3	None	ENSG00000230102	ENST00000599153	lincRNA	KNOWN	None	None	None	None	193761486	193767122	-1	None	None
3	None	ENSG00000230102	ENST00000432154	lincRNA	KNOWN	None	None	None	None	193766709	193787318	-1	None	None
3	None	ENSG00000230102	ENST00000443776	lincRNA	KNOWN	None	None	None	None	193770170	193776266	-1	None	None
3	None	ENSG00000230102	ENST00000601524	retained_intron	KNOWN	None	None	None	None	193773268	193776178	-1	None	None
3	None	ENSG00000230102	ENST00000597974	lincRNA	KNOWN	None	None	None	None	193773268	193776238	-1	None	None
3	None	ENSG00000230102	ENST00000599735	retained_intron	KNOWN	None	None	None	None	193773268	193776307	-1	None	None
7	MIR1302-6	ENSG00000221393	ENST00000408466	miRNA	KNOWN	None	35298	None	None	18166843	18166932	-1	MIRN1302-6	hsa-mir-1302-6
5	CHD1	ENSG00000153922	ENST00000514344	retained_intron	KNOWN	None	1915	None	None	98190908	98208261	-1	None	None
5	CHD1	ENSG00000153922	ENST00000512392	retained_intron	KNOWN	None	1915	None	None	98191436	98196386	-1	None	None
5	CHD1	ENSG00000153922	ENST00000284049	protein_coding	KNOWN	CCDS34204	1915	5133	1710	98191449	98262240	-1	None	None
5	CHD1	ENSG00000153922	ENST00000512844	nonsense_mediated_decay	KNOWN	None	1915	69	22	98191987	98204243	-1	None	None
5	CHD1	ENSG00000153922	ENST00000513064	retained_intron	KNOWN	None	1915	None	None	98192129	98194368	-1	None	None
5	CHD1	ENSG00000153922	ENST00000505657	nonsense_mediated_decay	KNOWN	None	1915	342	113	98192271	98204333	-1	None	None
5	CHD1	ENSG00000153922	ENST00000511067	processed_transcript	KNOWN	None	1915	None	None	98199112	98206494	-1	None	None
5	CHD1	ENSG00000153922	ENST00000508756	retained_intron	KNOWN	None	1915	None	None	98204634	98207884	-1	None	None
5	CHD1	ENSG00000153922	ENST00000414220	retained_intron	KNOWN	None	1915	None	None	98205183	98206420	-1	None	None
5	CHD1	ENSG00000153922	ENST00000511628	retained_intron	KNOWN	None	1915	None	None	98216951	98223890	-1	None	None
5	CHD1	ENSG00000153922	ENST00000505982	retained_intron	KNOWN	None	1915	None	None	98218838	98221935	-1	None	None
12	None	ENSG00000221148	ENST00000408221	snoRNA	NOVEL	None	None	None	None	84577103	84577227	-1	None	None
2	MIR4440	ENSG00000266109	ENST00000583986	miRNA	KNOWN	None	41740	None	None	239990513	239990610	-1	None	hsa-mir-4440
12	None	ENSG00000213343	ENST00000469899	processed_pseudogene	KNOWN	None	None	None	None	66431015	66431494	1	None	None
2	None	ENSG00000265332	ENST00000577291	miRNA	NOVEL	None	None	None	None	239990615	239990708	-1	None	None
5	CPLX2	ENSG00000145920	ENST00000359546	protein_coding	KNOWN	CCDS4396	2310	405	134	175223313	175311023	1	None	CPX-2, DKFZp547D155
5	CPLX2	ENSG00000145920	ENST00000506642	processed_transcript	KNOWN	None	2310	None	None	175223631	175264851	1	None	CPX-2, DKFZp547D155
5	CPLX2	ENSG00000145920	ENST00000515502	protein_coding	KNOWN	None	2310	20	5	175223745	175305762	1	None	CPX-2, DKFZp547D155
5	CPLX2	ENSG00000145920	ENST00000509837	protein_coding	KNOWN	None	2310	333	110	175288631	175306976	1	None	CPX-2, DKFZp547D155
5	CPLX2	ENSG00000145920	ENST00000393745	protein_coding	KNOWN	CCDS4396	2310	405	134	175298501	175307173	1	None	CPX-2, DKFZp547D155
5	CPLX2	ENSG00000145920	ENST00000512824	protein_coding	PUTATIVE	None	2310	213	70	175298581	175306829	1	None	CPX-2, DKFZp547D155
5	CPLX2	ENSG00000145920	ENST00000514150	protein_coding	KNOWN	None	2310	358	118	175298679	175307001	1	None	CPX-2, DKFZp547D155
5	CPLX2	ENSG00000145920	ENST00000502265	protein_coding	KNOWN	None	2310	233	76	175299813	175306876	1	None	CPX-2, DKFZp547D155
5	CPLX2	ENSG00000145920	ENST00000515025	protein_coding	KNOWN	None	2310	113	36	175305209	175305992	1	None	CPX-2, DKFZp547D155
5	CPLX2	ENSG00000145920	ENST00000515094	protein_coding	KNOWN	CCDS4396	2310	405	134	175305209	175307056	1	None	CPX-2, DKFZp547D155
11	None	ENSG00000257067	ENST00000537491	lincRNA	KNOWN	None	None	None	None	115803492	115813713	1	None	None
11	None	ENSG00000257067	ENST00000539222	lincRNA	KNOWN	None	None	None	None	115803575	115810928	1	None	None
8	None	ENSG00000253697	ENST00000520383	processed_pseudogene	KNOWN	None	None	None	None	9515805	9515948	-1	None	None
X	PPP1R3F	ENSG00000049769	ENST00000466508	protein_coding	PUTATIVE	CCDS55415	14944	1362	453	49126306	49143687	1	None	Hb2E
X	PPP1R3F	ENSG00000049769	ENST00000055335	protein_coding	KNOWN	CCDS35254	14944	2400	799	49126317	49144557	1	None	Hb2E
X	PPP1R3F	ENSG00000049769	ENST00000495799	protein_coding	PUTATIVE	CCDS55415	14944	1362	453	49126333	49143632	1	None	Hb2E
X	PPP1R3F	ENSG00000049769	ENST00000471261	protein_coding	PUTATIVE	None	14944	485	160	49127084	49157929	1	None	Hb2E
X	PPP1R3F	ENSG00000049769	ENST00000376188	protein_coding	PUTATIVE	CCDS55415	14944	1362	453	49137239	49143972	1	None	Hb2E
X	PPP1R3F	ENSG00000049769	ENST00000438316	protein_coding	KNOWN	None	14944	1413	470	49126306	49143687	1	None	Hb2E
19	MIR4323	ENSG00000266226	ENST00000582929	miRNA	KNOWN	None	38394	None	None	42637597	42637665	-1	None	hsa-mir-4323
3	None	ENSG00000224085	ENST00000484754	processed_pseudogene	KNOWN	None	None	None	None	140621036	140621493	1	None	None
2	None	ENSG00000266360	ENST00000579161	miRNA	NOVEL	None	None	None	None	239990762	239990855	-1	None	None
2	None	ENSG00000231240	ENST00000447438	processed_pseudogene	KNOWN	None	None	None	None	130794531	130795995	1	None	None
7	None	ENSG00000223030	ENST00000411098	miRNA	NOVEL	None	None	None	None	18336962	18337059	1	None	None
2	None	ENSG00000263743	ENST00000578555	miRNA	NOVEL	None	None	None	None	239990860	239990953	-1	None	None
15	None	ENSG00000258954	ENST00000553410	lincRNA	KNOWN	None	None	None	None	92076121	92078325	1	None	None
10	None	ENSG00000233968	ENST00000451713	antisense	KNOWN	None	None	None	None	19999257	20017479	-1	None	None
10	None	ENSG00000233968	ENST00000431157	antisense	KNOWN	None	None	None	None	20010517	20017479	-1	None	None
10	None	ENSG00000233968	ENST00000423551	antisense	KNOWN	None	None	None	None	20010907	20017479	-1	None	None
2	None	ENSG00000264103	ENST00000584260	miRNA	NOVEL	None	None	None	None	239991056	239991149	-1	None	None
1	None	ENSG00000237491	ENST00000457084	lincRNA	KNOWN	None	None	None	None	714162	717571	1	None	None
1	None	ENSG00000237491	ENST00000589899	lincRNA	KNOWN	None	None	None	None	714310	720035	1	None	None
1	None	ENSG00000237491	ENST00000429505	lincRNA	KNOWN	None	None	None	None	714436	740255	1	None	None
1	None	ENSG00000237491	ENST00000434264	lincRNA	KNOWN	None	None	None	None	717325	720070	1	None	None
1	None	ENSG00000237491	ENST00000585826	lincRNA	KNOWN	None	None	None	None	719750	720139	1	None	None
1	None	ENSG00000237491	ENST00000592547	lincRNA	KNOWN	None	None	None	None	719750	720357	1	None	None
1	None	ENSG00000237491	ENST00000586928	lincRNA	KNOWN	None	None	None	None	719750	722246	1	None	None
1	None	ENSG00000237491	ENST00000585745	lincRNA	KNOWN	None	None	None	None	719750	730893	1	None	None
1	None	ENSG00000237491	ENST00000585768	lincRNA	KNOWN	None	None	None	None	719750	737256	1	None	None
1	None	ENSG00000237491	ENST00000590848	lincRNA	KNOWN	None	None	None	None	719750	740212	1	None	None
1	None	ENSG00000237491	ENST00000587530	lincRNA	KNOWN	None	None	None	None	719750	740507	1	None	None
1	None	ENSG00000237491	ENST00000591440	lincRNA	KNOWN	None	None	None	None	719750	740507	1	None	None
1	None	ENSG00000237491	ENST00000593022	lincRNA	KNOWN	None	None	None	None	719750	741839	1	None	None
1	None	ENSG00000237491	ENST00000589531	lincRNA	KNOWN	None	None	None	None	719750	742694	1	None	None
1	None	ENSG00000237491	ENST00000588951	lincRNA	KNOWN	None	None	None	None	719750	745109	1	None	None
1	None	ENSG00000237491	ENST00000586288	lincRNA	KNOWN	None	None	None	None	719776	742701	1	None	None
1	None	ENSG00000237491	ENST00000591702	lincRNA	KNOWN	None	None	None	None	721180	723052	1	None	None
1	None	ENSG00000237491	ENST00000587126	lincRNA	KNOWN	None	None	None	None	740156	740650	1	None	None
1	None	ENSG00000237491	ENST00000443772	lincRNA	KNOWN	None	None	None	None	740179	742845	1	None	None
1	None	ENSG00000237491	ENST00000412115	lincRNA	KNOWN	None	None	None	None	740312	745440	1	None	None
1	None	ENSG00000237491	ENST00000358533	lincRNA	KNOWN	None	None	None	None	721320	722513	1	None	None
12	None	ENSG00000257022	ENST00000539874	antisense	KNOWN	None	None	None	None	21980144	22040891	1	None	None
11	None	ENSG00000255376	ENST00000529375	processed_pseudogene	KNOWN	None	None	None	None	96513671	96514225	-1	None	None
2	CYP4F27P	ENSG00000248313	ENST00000514557	unprocessed_pseudogene	KNOWN	None	39946	None	None	130805999	130807013	-1	None	CYP4F-se3[6:7:8]
2	None	ENSG00000264518	ENST00000577359	miRNA	NOVEL	None	None	None	None	239991154	239991247	-1	None	None
HSCHR12_1_CTG1	IQSEC3	ENSG00000262607	ENST00000575724	protein_coding	KNOWN	None	29193	3549	1182	120780	232475	1	None	KIAA1110, MGC30156
HSCHR12_1_CTG1	IQSEC3	ENSG00000262607	ENST00000571363	protein_coding	KNOWN	None	29193	2280	759	131391	225345	1	None	KIAA1110, MGC30156
HSCHR12_1_CTG1	IQSEC3	ENSG00000262607	ENST00000574111	retained_intron	KNOWN	None	29193	None	None	222993	225481	1	None	KIAA1110, MGC30156
HSCHR12_1_CTG1	IQSEC3	ENSG00000262607	ENST00000573139	processed_transcript	KNOWN	None	29193	None	None	223070	229374	1	None	KIAA1110, MGC30156
HSCHR12_1_CTG1	IQSEC3	ENSG00000262607	ENST00000573761	processed_transcript	PUTATIVE	None	29193	None	None	230497	232469	1	None	KIAA1110, MGC30156
HSCHR6_MHC_DBB	HLA-DOB	ENSG00000243496	ENST00000474604	nonsense_mediated_decay	KNOWN	None	4937	117	38	32758669	32762882	-1	None	None
HSCHR6_MHC_DBB	HLA-DOB	ENSG00000243496	ENST00000454286	protein_coding	KNOWN	None	4937	822	273	32758669	32762954	-1	None	None
HSCHR6_MHC_DBB	HLA-DOB	ENSG00000243496	ENST00000469995	retained_intron	KNOWN	None	4937	None	None	32758953	32762894	-1	None	None
HSCHR6_MHC_DBB	HLA-DOB	ENSG00000243496	ENST00000413252	protein_coding	KNOWN	None	4937	543	180	32760276	32762816	-1	None	None
7	None	ENSG00000225000	ENST00000411797	antisense	KNOWN	None	None	None	None	18468685	18470361	-1	None	None
10	ERCC6	ENSG00000225830	ENST00000355832	protein_coding	KNOWN	CCDS7229	3438	4482	1493	50663414	50747072	-1	CKN2	CSB, RAD26, ARMD5
10	ERCC6	ENSG00000225830	ENST00000465653	processed_transcript	KNOWN	None	3438	None	None	50668070	50678327	-1	CKN2	CSB, RAD26, ARMD5
10	ERCC6	ENSG00000225830	ENST00000475116	processed_transcript	KNOWN	None	3438	None	None	50691414	50714045	-1	CKN2	CSB, RAD26, ARMD5
10	ERCC6	ENSG00000225830	ENST00000479652	processed_transcript	KNOWN	None	3438	None	None	50732982	50738783	-1	CKN2	CSB, RAD26, ARMD5
10	ERCC6	ENSG00000225830	ENST00000462247	protein_coding	KNOWN	None	3438	539	178	50738770	50747584	-1	CKN2	CSB, RAD26, ARMD5
10	ERCC6	ENSG00000225830	ENST00000542458	protein_coding	KNOWN	None	3438	2592	863	50666834	50710168	-1	CKN2	CSB, RAD26, ARMD5
11	None	ENSG00000255118	ENST00000400902	antisense	KNOWN	None	None	None	None	62104383	62105562	-1	None	None
12	None	ENSG00000257729	ENST00000547882	lincRNA	KNOWN	None	None	None	None	84665119	84688341	1	None	None
12	None	ENSG00000257729	ENST00000548619	lincRNA	KNOWN	None	None	None	None	84678170	84688335	1	None	None
9	None	ENSG00000236687	ENST00000444708	lincRNA	KNOWN	None	None	None	None	134691579	134696375	1	None	None
2	None	ENSG00000265979	ENST00000581111	miRNA	NOVEL	None	None	None	None	239991301	239991394	-1	None	None
15	None	ENSG00000258765	ENST00000555396	lincRNA	KNOWN	None	None	None	None	92186247	92192344	-1	None	None
2	None	ENSG00000264730	ENST00000582834	miRNA	NOVEL	None	None	None	None	239991448	239991541	-1	None	None
15	None	ENSG00000258540	ENST00000556576	processed_pseudogene	KNOWN	None	None	None	None	92220001	92220290	1	None	None
12	None	ENSG00000255627	ENST00000541534	processed_pseudogene	KNOWN	None	None	None	None	22161282	22161814	1	None	None
2	None	ENSG00000228471	ENST00000423631	processed_pseudogene	KNOWN	None	None	None	None	130839665	130839793	-1	None	None
2	None	ENSG00000265891	ENST00000582701	miRNA	NOVEL	None	None	None	None	240007394	240007492	-1	None	None
7	CYP3A5	ENSG00000106258	ENST00000222982	protein_coding	KNOWN	CCDS5672	2638	1509	502	99245817	99277619	-1	None	PCN3, P450PCN3, CP35
7	CYP3A5	ENSG00000106258	ENST00000469887	retained_intron	KNOWN	None	2638	None	None	99245821	99274199	-1	None	PCN3, P450PCN3, CP35
7	CYP3A5	ENSG00000106258	ENST00000461920	retained_intron	KNOWN	None	2638	None	None	99245821	99277611	-1	None	PCN3, P450PCN3, CP35
7	CYP3A5	ENSG00000106258	ENST00000488187	retained_intron	KNOWN	None	2638	None	None	99249914	99258225	-1	None	PCN3, P450PCN3, CP35
7	CYP3A5	ENSG00000106258	ENST00000473347	retained_intron	KNOWN	None	2638	None	None	99256456	99261205	-1	None	PCN3, P450PCN3, CP35
7	CYP3A5	ENSG00000106258	ENST00000463364	retained_intron	KNOWN	None	2638	None	None	99257842	99277589	-1	None	PCN3, P450PCN3, CP35
7	CYP3A5	ENSG00000106258	ENST00000481825	retained_intron	KNOWN	None	2638	None	None	99257851	99277619	-1	None	PCN3, P450PCN3, CP35
7	CYP3A5	ENSG00000106258	ENST00000466061	retained_intron	KNOWN	None	2638	None	None	99261165	99277619	-1	None	PCN3, P450PCN3, CP35
7	CYP3A5	ENSG00000106258	ENST00000480723	processed_transcript	KNOWN	None	2638	None	None	99264339	99277576	-1	None	PCN3, P450PCN3, CP35
7	CYP3A5	ENSG00000106258	ENST00000463907	retained_intron	KNOWN	None	2638	None	None	99268533	99277619	-1	None	PCN3, P450PCN3, CP35
7	CYP3A5	ENSG00000106258	ENST00000439761	protein_coding	PUTATIVE	CCDS55134	2638	423	140	99268845	99277619	-1	None	PCN3, P450PCN3, CP35
7	CYP3A5	ENSG00000106258	ENST00000469622	retained_intron	KNOWN	None	2638	None	None	99270212	99277616	-1	None	PCN3, P450PCN3, CP35
7	CYP3A5	ENSG00000106258	ENST00000456417	nonsense_mediated_decay	KNOWN	None	2638	120	39	99270284	99277616	-1	None	PCN3, P450PCN3, CP35
7	CYP3A5	ENSG00000106258	ENST00000489231	retained_intron	KNOWN	None	2638	None	None	99271849	99277616	-1	None	PCN3, P450PCN3, CP35
7	CYP3A5	ENSG00000106258	ENST00000343703	protein_coding	KNOWN	None	2638	1479	492	99245823	99277616	-1	None	PCN3, P450PCN3, CP35
7	CYP3A5	ENSG00000106258	ENST00000339843	protein_coding	KNOWN	None	2638	120	39	99245823	99277621	-1	None	PCN3, P450PCN3, CP35
9	None	ENSG00000230940	ENST00000444872	processed_transcript	KNOWN	None	None	None	None	134907273	134952977	-1	None	None
12	RNA5SP362	ENSG00000251857	ENST00000516048	rRNA	KNOWN	None	43262	None	None	66460001	66460118	1	RN5S362	None
9	AAED1	ENSG00000158122	ENST00000411939	protein_coding	KNOWN	None	16881	332	109	99401859	99417030	-1	C9orf21	None
9	AAED1	ENSG00000158122	ENST00000375234	protein_coding	KNOWN	CCDS35073	16881	681	226	99401859	99417563	-1	C9orf21	None
9	AAED1	ENSG00000158122	ENST00000446045	protein_coding	KNOWN	None	16881	541	179	99401859	99417585	-1	C9orf21	None
9	AAED1	ENSG00000158122	ENST00000464512	processed_transcript	KNOWN	None	16881	None	None	99408272	99417254	-1	C9orf21	None
17	RNA5SP443	ENSG00000199953	ENST00000363083	rRNA	KNOWN	None	43343	None	None	43404732	43404863	-1	RN5S443	None
2	MIR4441	ENSG00000264810	ENST00000582623	miRNA	KNOWN	None	41728	None	None	240007523	240007622	-1	None	hsa-mir-4441
11	RCC2P6	ENSG00000254454	ENST00000526625	processed_pseudogene	KNOWN	None	42382	None	None	62138618	62140640	1	None	None
2	None	ENSG00000224087	ENST00000433507	antisense	KNOWN	None	None	None	None	130865257	130867314	1	None	None
3	None	ENSG00000248773	ENST00000513802	sense_intronic	KNOWN	None	None	None	None	140691586	140692097	1	None	None
7	RN7SKP266	ENSG00000222164	ENST00000410232	misc_RNA	KNOWN	None	45990	None	None	18847616	18847902	-1	None	None
8	DEFA4	ENSG00000164821	ENST00000297435	protein_coding	KNOWN	CCDS5961	2763	294	97	6793344	6795860	-1	DEF4	HP-4
17	None	ENSG00000267446	ENST00000589730	lincRNA	KNOWN	None	None	None	None	43448768	43449423	-1	None	None
9	None	ENSG00000221105	ENST00000408178	miRNA	NOVEL	None	None	None	None	135090138	135090262	-1	None	None
2	None	ENSG00000265416	ENST00000579869	miRNA	NOVEL	None	None	None	None	240008039	240008138	-1	None	None
5	RNU6-1148P	ENSG00000222924	ENST00000410992	snRNA	KNOWN	None	48111	None	None	137405044	137405147	-1	None	None
18	CNDP2	ENSG00000133313	ENST00000581272	protein_coding	KNOWN	None	24437	402	133	72163051	72176109	1	PEPA	FLJ10830, CN2, HsT2298, CPGL
18	CNDP2	ENSG00000133313	ENST00000324262	protein_coding	KNOWN	CCDS12006	24437	1428	475	72163443	72188363	1	PEPA	FLJ10830, CN2, HsT2298, CPGL
18	CNDP2	ENSG00000133313	ENST00000580672	protein_coding	NOVEL	None	24437	613	203	72163469	72179692	1	PEPA	FLJ10830, CN2, HsT2298, CPGL
18	CNDP2	ENSG00000133313	ENST00000583399	retained_intron	KNOWN	None	24437	None	None	72163542	72173263	1	PEPA	FLJ10830, CN2, HsT2298, CPGL
18	CNDP2	ENSG00000133313	ENST00000579847	protein_coding	KNOWN	CCDS12006	24437	1428	475	72163542	72188366	1	PEPA	FLJ10830, CN2, HsT2298, CPGL
18	CNDP2	ENSG00000133313	ENST00000583203	protein_coding	NOVEL	None	24437	415	137	72163552	72173177	1	PEPA	FLJ10830, CN2, HsT2298, CPGL
18	CNDP2	ENSG00000133313	ENST00000582260	nonsense_mediated_decay	KNOWN	None	24437	270	89	72163554	72176163	1	PEPA	FLJ10830, CN2, HsT2298, CPGL
18	CNDP2	ENSG00000133313	ENST00000581513	protein_coding	KNOWN	None	24437	371	122	72163594	72176078	1	PEPA	FLJ10830, CN2, HsT2298, CPGL
18	CNDP2	ENSG00000133313	ENST00000580229	processed_transcript	PUTATIVE	None	24437	None	None	72163597	72165259	1	PEPA	FLJ10830, CN2, HsT2298, CPGL
18	CNDP2	ENSG00000133313	ENST00000577600	protein_coding	KNOWN	None	24437	267	88	72163607	72173146	1	PEPA	FLJ10830, CN2, HsT2298, CPGL
18	CNDP2	ENSG00000133313	ENST00000579583	protein_coding	KNOWN	None	24437	415	137	72163609	72179692	1	PEPA	FLJ10830, CN2, HsT2298, CPGL
18	CNDP2	ENSG00000133313	ENST00000584613	protein_coding	KNOWN	None	24437	367	121	72163618	72173246	1	PEPA	FLJ10830, CN2, HsT2298, CPGL
18	CNDP2	ENSG00000133313	ENST00000583216	protein_coding	KNOWN	None	24437	448	148	72166577	72176155	1	PEPA	FLJ10830, CN2, HsT2298, CPGL
18	CNDP2	ENSG00000133313	ENST00000581912	protein_coding	KNOWN	None	24437	165	54	72166593	72168668	1	PEPA	FLJ10830, CN2, HsT2298, CPGL
18	CNDP2	ENSG00000133313	ENST00000582589	protein_coding	KNOWN	None	24437	385	127	72166656	72176092	1	PEPA	FLJ10830, CN2, HsT2298, CPGL
18	CNDP2	ENSG00000133313	ENST00000583785	protein_coding	KNOWN	None	24437	749	248	72166823	72180800	1	PEPA	FLJ10830, CN2, HsT2298, CPGL
18	CNDP2	ENSG00000133313	ENST00000324301	protein_coding	KNOWN	CCDS54190	24437	1176	391	72167096	72188363	1	PEPA	FLJ10830, CN2, HsT2298, CPGL
18	CNDP2	ENSG00000133313	ENST00000582620	processed_transcript	KNOWN	None	24437	None	None	72167164	72180821	1	PEPA	FLJ10830, CN2, HsT2298, CPGL
18	CNDP2	ENSG00000133313	ENST00000584768	retained_intron	KNOWN	None	24437	None	None	72167176	72176571	1	PEPA	FLJ10830, CN2, HsT2298, CPGL
18	CNDP2	ENSG00000133313	ENST00000582666	protein_coding	PUTATIVE	None	24437	264	87	72168325	72176100	1	PEPA	FLJ10830, CN2, HsT2298, CPGL
18	CNDP2	ENSG00000133313	ENST00000577355	processed_transcript	KNOWN	None	24437	None	None	72168621	72176570	1	PEPA	FLJ10830, CN2, HsT2298, CPGL
18	CNDP2	ENSG00000133313	ENST00000585263	retained_intron	KNOWN	None	24437	None	None	72174302	72176867	1	PEPA	FLJ10830, CN2, HsT2298, CPGL
18	CNDP2	ENSG00000133313	ENST00000584581	retained_intron	KNOWN	None	24437	None	None	72176080	72188356	1	PEPA	FLJ10830, CN2, HsT2298, CPGL
18	CNDP2	ENSG00000133313	ENST00000583938	retained_intron	KNOWN	None	24437	None	None	72178059	72181053	1	PEPA	FLJ10830, CN2, HsT2298, CPGL
18	CNDP2	ENSG00000133313	ENST00000579624	protein_coding	PUTATIVE	None	24437	330	109	72178111	72188339	1	PEPA	FLJ10830, CN2, HsT2298, CPGL
18	CNDP2	ENSG00000133313	ENST00000577669	processed_transcript	KNOWN	None	24437	None	None	72178222	72180932	1	PEPA	FLJ10830, CN2, HsT2298, CPGL
18	CNDP2	ENSG00000133313	ENST00000583695	processed_transcript	KNOWN	None	24437	None	None	72179248	72185793	1	PEPA	FLJ10830, CN2, HsT2298, CPGL
18	CNDP2	ENSG00000133313	ENST00000581600	retained_intron	KNOWN	None	24437	None	None	72180812	72183819	1	PEPA	FLJ10830, CN2, HsT2298, CPGL
18	CNDP2	ENSG00000133313	ENST00000577409	retained_intron	KNOWN	None	24437	None	None	72183566	72186093	1	PEPA	FLJ10830, CN2, HsT2298, CPGL
3	None	ENSG00000272440	ENST00000606185	lincRNA	KNOWN	None	None	None	None	158413156	158413370	1	None	None
10	None	ENSG00000268925	ENST00000599428	protein_coding	NOVEL	None	None	60	19	135341026	135342661	-1	None	None
2	RNU6-1049P	ENSG00000252223	ENST00000516414	snRNA	KNOWN	None	48012	None	None	130866777	130866883	-1	None	None
5	None	ENSG00000238605	ENST00000459094	snoRNA	NOVEL	None	None	None	None	137450891	137450993	-1	None	None
17	None	ENSG00000267344	ENST00000592389	antisense	KNOWN	None	None	None	None	43474298	43474843	1	None	None
2	MIR4269	ENSG00000265215	ENST00000578705	miRNA	KNOWN	None	38291	None	None	240227157	240227240	1	None	hsa-mir-4269
12	RNU1-149P	ENSG00000212172	ENST00000390870	snRNA	KNOWN	None	48491	None	None	22348403	22348563	-1	None	None
5	RNU6-460P	ENSG00000212460	ENST00000391158	snRNA	KNOWN	None	47423	None	None	137452262	137452369	1	None	None
7	None	ENSG00000226522	ENST00000447057	antisense	KNOWN	None	None	None	None	18931719	18939056	-1	None	None
17	None	ENSG00000264038	ENST00000583969	miRNA	NOVEL	None	None	None	None	43494179	43494272	-1	None	None
2	MIR2467	ENSG00000264292	ENST00000584559	miRNA	KNOWN	None	41881	None	None	240273419	240273499	-1	None	hsa-mir-2467
11	None	ENSG00000265696	ENST00000582515	miRNA	NOVEL	None	None	None	None	62140128	62140191	1	None	None
9	RNU5D-2P	ENSG00000252521	ENST00000516712	snRNA	KNOWN	None	42534	None	None	135297028	135297077	1	None	None
5	RNU6-888P	ENSG00000199880	ENST00000363010	snRNA	KNOWN	None	47851	None	None	137458700	137458800	-1	None	None
19	None	ENSG00000267059	ENST00000590830	retained_intron	KNOWN	None	None	None	None	1578011	1584953	-1	None	None
19	None	ENSG00000267059	ENST00000585937	nonsense_mediated_decay	KNOWN	CCDS12073	None	171	56	1578338	1605444	-1	None	None
19	None	ENSG00000267059	ENST00000589901	retained_intron	KNOWN	None	None	None	None	1578444	1581729	-1	None	None
19	None	ENSG00000267059	ENST00000262946	protein_coding	KNOWN	CCDS12073	None	171	56	1597154	1605483	-1	None	None
HSCHR6_MHC_COX	DDX39BP2	ENSG00000234242	ENST00000457735	unprocessed_pseudogene	KNOWN	None	33461	None	None	29950499	29950895	1	BAT1P2	BPG309N1.15
17	None	ENSG00000214167	ENST00000375684	protein_coding	NOVEL	None	None	651	216	65027509	65028198	1	None	None
2	CCDC74B-AS1	ENSG00000223760	ENST00000427638	processed_transcript	KNOWN	None	44130	None	None	130887194	130896990	1	CCDC74B-AS1	None
2	CCDC74B-AS1	ENSG00000223760	ENST00000424716	transcribed_unprocessed_pseudogene	KNOWN	None	44130	None	None	130893551	130895332	1	CCDC74B-AS1	None
22	None	ENSG00000236499	ENST00000423736	protein_coding	KNOWN	None	None	420	139	20194100	20194706	1	None	None
7	OSBPL3	ENSG00000070882	ENST00000313367	protein_coding	KNOWN	CCDS5390	16370	2664	887	24836158	25019807	-1	OSBP3	ORP-3, ORP3, KIAA0704
7	OSBPL3	ENSG00000070882	ENST00000409863	nonsense_mediated_decay	KNOWN	None	16370	1836	611	24839385	24932194	-1	OSBP3	ORP-3, ORP3, KIAA0704
7	OSBPL3	ENSG00000070882	ENST00000396431	protein_coding	KNOWN	CCDS5391	16370	2571	856	24839544	24932231	-1	OSBP3	ORP-3, ORP3, KIAA0704
7	OSBPL3	ENSG00000070882	ENST00000409452	nonsense_mediated_decay	KNOWN	None	16370	1929	642	24839624	24932194	-1	OSBP3	ORP-3, ORP3, KIAA0704
7	OSBPL3	ENSG00000070882	ENST00000409759	nonsense_mediated_decay	KNOWN	None	16370	1821	606	24839641	24932194	-1	OSBP3	ORP-3, ORP3, KIAA0704
7	OSBPL3	ENSG00000070882	ENST00000487020	processed_transcript	KNOWN	None	16370	None	None	24839648	24854712	-1	OSBP3	ORP-3, ORP3, KIAA0704
7	OSBPL3	ENSG00000070882	ENST00000409555	nonsense_mediated_decay	KNOWN	None	16370	1728	575	24839679	24932194	-1	OSBP3	ORP-3, ORP3, KIAA0704
7	OSBPL3	ENSG00000070882	ENST00000396429	protein_coding	KNOWN	CCDS5392	16370	2556	851	24839754	24932194	-1	OSBP3	ORP-3, ORP3, KIAA0704
7	OSBPL3	ENSG00000070882	ENST00000409069	protein_coding	KNOWN	CCDS47564	16370	2463	820	24839754	24932194	-1	OSBP3	ORP-3, ORP3, KIAA0704
7	OSBPL3	ENSG00000070882	ENST00000459987	retained_intron	KNOWN	None	16370	None	None	24846439	24849978	-1	OSBP3	ORP-3, ORP3, KIAA0704
7	OSBPL3	ENSG00000070882	ENST00000461835	retained_intron	KNOWN	None	16370	None	None	24881995	24888955	-1	OSBP3	ORP-3, ORP3, KIAA0704
7	OSBPL3	ENSG00000070882	ENST00000415162	protein_coding	KNOWN	None	16370	338	111	24910394	24957712	-1	OSBP3	ORP-3, ORP3, KIAA0704
7	OSBPL3	ENSG00000070882	ENST00000441059	protein_coding	KNOWN	None	16370	267	88	24911361	24957699	-1	OSBP3	ORP-3, ORP3, KIAA0704
7	OSBPL3	ENSG00000070882	ENST00000415952	protein_coding	KNOWN	None	16370	183	60	24911602	25021253	-1	OSBP3	ORP-3, ORP3, KIAA0704
7	OSBPL3	ENSG00000070882	ENST00000352860	protein_coding	KNOWN	CCDS5391	16370	2571	856	24836166	25019760	-1	OSBP3	ORP-3, ORP3, KIAA0704
7	OSBPL3	ENSG00000070882	ENST00000353930	protein_coding	KNOWN	CCDS5392	16370	2556	851	24836166	25019760	-1	OSBP3	ORP-3, ORP3, KIAA0704
7	OSBPL3	ENSG00000070882	ENST00000431825	protein_coding	KNOWN	CCDS47564	16370	2463	820	24836166	25019760	-1	OSBP3	ORP-3, ORP3, KIAA0704
12	None	ENSG00000256714	ENST00000536786	lincRNA	KNOWN	None	None	None	None	22548022	22551009	-1	None	None
17	None	ENSG00000236234	ENST00000433601	antisense	KNOWN	None	None	None	None	43530210	43541431	1	None	None
2	None	ENSG00000227459	ENST00000446029	lincRNA	KNOWN	None	None	None	None	240547392	240552533	1	None	None
HSCHR6_MHC_COX	MCCD1P2	ENSG00000235340	ENST00000441211	unprocessed_pseudogene	KNOWN	None	33462	None	None	29951727	29952604	-1	None	BPG309N1.16
12	None	ENSG00000239335	ENST00000510317	antisense	KNOWN	None	None	None	None	66524531	66528229	1	None	None
6	OR2A4	ENSG00000180658	ENST00000315453	protein_coding	KNOWN	CCDS5149	14729	933	310	132021520	132022635	-1	OR2A10	None
3	None	ENSG00000240207	ENST00000495318	antisense	KNOWN	None	None	None	None	158450052	158454851	1	None	None
3	None	ENSG00000240207	ENST00000465477	antisense	KNOWN	None	None	None	None	158450116	158501859	1	None	None
3	None	ENSG00000240207	ENST00000468242	antisense	KNOWN	None	None	None	None	158450167	158488878	1	None	None
3	None	ENSG00000240207	ENST00000607426	antisense	KNOWN	None	None	None	None	158453510	158455694	1	None	None
3	None	ENSG00000240207	ENST00000477589	antisense	KNOWN	None	None	None	None	158458206	158461381	1	None	None
3	None	ENSG00000240207	ENST00000496842	antisense	KNOWN	None	None	None	None	158458215	158461125	1	None	None
11	None	ENSG00000255126	ENST00000526045	antisense	KNOWN	None	None	None	None	62158988	62160844	-1	None	None
2	MERTK	ENSG00000153208	ENST00000295408	protein_coding	KNOWN	CCDS2094	7027	3000	999	112656056	112787138	1	None	mer, RP38
2	MERTK	ENSG00000153208	ENST00000409780	protein_coding	PUTATIVE	None	7027	2472	823	112656206	112786944	1	None	mer, RP38
2	MERTK	ENSG00000153208	ENST00000439966	nonsense_mediated_decay	KNOWN	None	7027	291	96	112656241	112786577	1	None	mer, RP38
2	MERTK	ENSG00000153208	ENST00000473065	retained_intron	KNOWN	None	7027	None	None	112754947	112761020	1	None	mer, RP38
2	MERTK	ENSG00000153208	ENST00000449344	protein_coding	NOVEL	None	7027	771	256	112776990	112786240	1	None	mer, RP38
2	MERTK	ENSG00000153208	ENST00000421804	protein_coding	KNOWN	CCDS2094	7027	3000	999	112656185	112786943	1	None	mer, RP38
17	RN7SL730P	ENSG00000264225	ENST00000583727	misc_RNA	KNOWN	None	46746	None	None	43547899	43548188	-1	None	None
12	GPRC5D	ENSG00000111291	ENST00000228887	protein_coding	KNOWN	CCDS8658	13310	1038	345	13093709	13103318	-1	None	None
12	GPRC5D	ENSG00000111291	ENST00000396333	protein_coding	KNOWN	None	13310	903	300	13093776	13103318	-1	None	None
12	GPRC5D	ENSG00000111291	ENST00000541128	protein_coding	KNOWN	None	13310	362	119	13102957	13105081	-1	None	None
2	None	ENSG00000259889	ENST00000567853	lincRNA	KNOWN	None	None	None	None	240656650	240657232	1	None	None
11	MED28P5	ENSG00000255205	ENST00000528254	processed_pseudogene	KNOWN	None	45082	None	None	96871274	96871711	-1	None	None
12	None	ENSG00000256973	ENST00000543604	lincRNA	KNOWN	None	None	None	None	22613453	22616848	-1	None	None
6	KLHL31	ENSG00000124743	ENST00000407079	protein_coding	KNOWN	CCDS34478	21353	1905	634	53516396	53520070	-1	KBTBD1	bA345L23.2, BKLHD6
6	KLHL31	ENSG00000124743	ENST00000370905	protein_coding	KNOWN	CCDS34478	21353	1905	634	53512699	53530506	-1	KBTBD1	bA345L23.2, BKLHD6
8	TUBBP1	ENSG00000127589	ENST00000518096	processed_transcript	KNOWN	None	12414	None	None	30209389	30211034	1	None	None
8	TUBBP1	ENSG00000127589	ENST00000248151	transcribed_processed_pseudogene	KNOWN	None	12414	None	None	30209524	30210858	1	None	None
7	NPM1P13	ENSG00000232492	ENST00000452663	processed_pseudogene	KNOWN	None	7915	None	None	18988521	18989385	-1	None	None
2	MIR4786	ENSG00000264279	ENST00000583954	miRNA	KNOWN	None	41751	None	None	240882432	240882511	-1	None	hsa-mir-4786
12	OAS2	ENSG00000111335	ENST00000342315	protein_coding	KNOWN	CCDS31906	8087	2160	719	113416200	113449528	1	None	None
12	OAS2	ENSG00000111335	ENST00000392583	protein_coding	KNOWN	CCDS41839	8087	2064	687	113416207	113449523	1	None	None
12	OAS2	ENSG00000111335	ENST00000449768	protein_coding	KNOWN	CCDS44982	8087	519	172	113416287	113426610	1	None	None
12	OAS2	ENSG00000111335	ENST00000552756	protein_coding	NOVEL	None	8087	810	269	113416345	113440763	1	None	None
12	OAS2	ENSG00000111335	ENST00000551603	nonsense_mediated_decay	KNOWN	None	8087	183	60	113416407	113436215	1	None	None
12	OAS2	ENSG00000111335	ENST00000548941	retained_intron	KNOWN	None	8087	None	None	113436050	113442922	1	None	None
11	None	ENSG00000255446	ENST00000528983	antisense	KNOWN	None	None	None	None	62189317	62194196	-1	None	None
17	LRRC37A4P	ENSG00000214425	ENST00000579913	processed_transcript	KNOWN	None	25479	None	None	43584107	43592522	-1	LRRC37A4	FLJ10120
17	LRRC37A4P	ENSG00000214425	ENST00000581296	transcribed_unprocessed_pseudogene	KNOWN	None	25479	None	None	43585475	43627701	-1	LRRC37A4	FLJ10120
17	LRRC37A4P	ENSG00000214425	ENST00000398305	unprocessed_pseudogene	KNOWN	None	25479	None	None	43578685	43595264	-1	LRRC37A4	FLJ10120
5	None	ENSG00000249851	ENST00000515536	processed_pseudogene	KNOWN	None	None	None	None	137602685	137603446	-1	None	None
2	TRPM8	ENSG00000144481	ENST00000324695	protein_coding	KNOWN	CCDS33407	17961	3315	1104	234826043	234928166	1	None	None
2	TRPM8	ENSG00000144481	ENST00000444298	nonsense_mediated_decay	KNOWN	None	17961	978	325	234826050	234925973	1	None	None
2	TRPM8	ENSG00000144481	ENST00000355722	protein_coding	KNOWN	None	17961	579	192	234838361	234851633	1	None	None
2	TRPM8	ENSG00000144481	ENST00000409625	protein_coding	KNOWN	None	17961	498	165	234838387	234851523	1	None	None
2	TRPM8	ENSG00000144481	ENST00000479332	processed_transcript	KNOWN	None	17961	None	None	234842385	234846094	1	None	None
2	TRPM8	ENSG00000144481	ENST00000487033	retained_intron	KNOWN	None	17961	None	None	234862353	234869568	1	None	None
2	TRPM8	ENSG00000144481	ENST00000490797	retained_intron	KNOWN	None	17961	None	None	234874626	234879183	1	None	None
2	TRPM8	ENSG00000144481	ENST00000456930	protein_coding	PUTATIVE	None	17961	1131	376	234875262	234926487	1	None	None
2	TRPM8	ENSG00000144481	ENST00000477698	retained_intron	KNOWN	None	17961	None	None	234875279	234878556	1	None	None
2	TRPM8	ENSG00000144481	ENST00000475044	processed_transcript	KNOWN	None	17961	None	None	234876806	234905160	1	None	None
2	TRPM8	ENSG00000144481	ENST00000477103	retained_intron	KNOWN	None	17961	None	None	234888766	234894439	1	None	None
2	TRPM8	ENSG00000144481	ENST00000439148	nonsense_mediated_decay	KNOWN	None	17961	420	139	234890452	234927082	1	None	None
2	TRPM8	ENSG00000144481	ENST00000466594	processed_transcript	PUTATIVE	None	17961	None	None	234921869	234923331	1	None	None
2	TRPM8	ENSG00000144481	ENST00000433712	protein_coding	KNOWN	None	17961	2049	682	234826050	234925973	1	None	None
2	OR9S24P	ENSG00000231278	ENST00000426985	unprocessed_pseudogene	KNOWN	None	31288	None	None	241018850	241019779	1	OR5J6P	None
17	CACNG1	ENSG00000108878	ENST00000226021	protein_coding	KNOWN	CCDS11668	1405	669	222	65040706	65052909	1	CACNLG	None
14	None	ENSG00000242135	ENST00000491913	processed_pseudogene	KNOWN	None	None	None	None	60679180	60679630	-1	None	None
22	RTN4R	ENSG00000040608	ENST00000416372	protein_coding	PUTATIVE	None	18601	1481	492	20228938	20255212	-1	None	NOGOR
22	RTN4R	ENSG00000040608	ENST00000043402	protein_coding	KNOWN	CCDS13777	18601	1422	473	20228938	20256054	-1	None	NOGOR
22	RTN4R	ENSG00000040608	ENST00000425986	protein_coding	PUTATIVE	None	18601	1679	558	20228940	20231207	-1	None	NOGOR
22	RTN4R	ENSG00000040608	ENST00000469601	processed_transcript	PUTATIVE	None	18601	None	None	20230120	20259270	-1	None	NOGOR
22	RTN4R	ENSG00000040608	ENST00000474642	processed_transcript	PUTATIVE	None	18601	None	None	20230372	20270769	-1	None	NOGOR
22	RTN4R	ENSG00000040608	ENST00000463936	processed_transcript	PUTATIVE	None	18601	None	None	20230543	20256888	-1	None	NOGOR
11	None	ENSG00000238861	ENST00000459509	miRNA	NOVEL	None	None	None	None	62231107	62231196	1	None	None
2	OR5S1P	ENSG00000213048	ENST00000453063	unitary_pseudogene	KNOWN	None	15040	None	None	241048519	241049469	1	None	None
15	None	ENSG00000259264	ENST00000560148	antisense	KNOWN	None	None	None	None	74495046	74513896	1	None	None
15	None	ENSG00000259264	ENST00000558645	antisense	KNOWN	None	None	None	None	74495351	74505829	1	None	None
15	None	ENSG00000259264	ENST00000561332	antisense	KNOWN	None	None	None	None	74495391	74505314	1	None	None
15	None	ENSG00000259264	ENST00000559243	antisense	KNOWN	None	None	None	None	74509542	74511130	1	None	None
X	None	ENSG00000231686	ENST00000445173	processed_pseudogene	KNOWN	None	None	None	None	145701115	145702102	-1	None	None
3	KRT8P35	ENSG00000242841	ENST00000483942	processed_pseudogene	KNOWN	None	39869	None	None	63082050	63083387	-1	None	None
12	None	ENSG00000257465	ENST00000548625	processed_pseudogene	KNOWN	None	None	None	None	117683356	117683969	-1	None	None
17	FMNL1	ENSG00000184922	ENST00000592415	processed_transcript	KNOWN	None	1212	None	None	43298811	43299464	1	C17orf1B, FMNL	C17orf1
17	FMNL1	ENSG00000184922	ENST00000331495	protein_coding	KNOWN	CCDS11497	1212	3303	1100	43299156	43324687	1	C17orf1B, FMNL	C17orf1
17	FMNL1	ENSG00000184922	ENST00000585852	retained_intron	KNOWN	None	1212	None	None	43308036	43312054	1	C17orf1B, FMNL	C17orf1
17	FMNL1	ENSG00000184922	ENST00000592006	processed_transcript	KNOWN	None	1212	None	None	43308794	43316421	1	C17orf1B, FMNL	C17orf1
17	FMNL1	ENSG00000184922	ENST00000592527	retained_intron	KNOWN	None	1212	None	None	43310229	43311320	1	C17orf1B, FMNL	C17orf1
17	FMNL1	ENSG00000184922	ENST00000587856	retained_intron	KNOWN	None	1212	None	None	43311251	43324686	1	C17orf1B, FMNL	C17orf1
17	FMNL1	ENSG00000184922	ENST00000591434	retained_intron	KNOWN	None	1212	None	None	43311447	43313961	1	C17orf1B, FMNL	C17orf1
17	FMNL1	ENSG00000184922	ENST00000587489	protein_coding	PUTATIVE	None	1212	2049	682	43318442	43324685	1	C17orf1B, FMNL	C17orf1
17	FMNL1	ENSG00000184922	ENST00000586643	protein_coding	PUTATIVE	None	1212	1467	488	43320485	43323971	1	C17orf1B, FMNL	C17orf1
17	FMNL1	ENSG00000184922	ENST00000589911	protein_coding	PUTATIVE	None	1212	384	127	43322691	43323920	1	C17orf1B, FMNL	C17orf1
17	FMNL1	ENSG00000184922	ENST00000586092	protein_coding	PUTATIVE	None	1212	453	150	43322693	43323842	1	C17orf1B, FMNL	C17orf1
17	FMNL1	ENSG00000184922	ENST00000328118	protein_coding	KNOWN	None	1212	3315	1104	43299292	43324681	1	C17orf1B, FMNL	C17orf1
2	None	ENSG00000227479	ENST00000457178	lincRNA	KNOWN	None	None	None	None	241166977	241195452	-1	None	None
12	None	ENSG00000255686	ENST00000540161	antisense	KNOWN	None	None	None	None	117890817	117894791	1	None	None
2	None	ENSG00000221412	ENST00000408485	miRNA	NOVEL	None	None	None	None	241201132	241201277	-1	None	None
8	DEFA1	ENSG00000206047	ENST00000382692	protein_coding	KNOWN	CCDS34797	2761	285	94	6835172	6837602	-1	DEF1, MRS, DEFA2	HNP-1
8	DEFA1	ENSG00000206047	ENST00000382679	protein_coding	KNOWN	CCDS34797	2761	285	94	6835171	6836156	-1	DEF1, MRS, DEFA2	HNP-1
11	MPPED2	ENSG00000066382	ENST00000448418	protein_coding	KNOWN	CCDS44560	1180	834	277	30406040	30607828	-1	C11orf8	239FB, D11S302E, Hs.46638, FAM1B, dJ873F21.1, dJ1024C24.1
11	MPPED2	ENSG00000066382	ENST00000358117	protein_coding	KNOWN	CCDS7870	1180	885	294	30431618	30602043	-1	C11orf8	239FB, D11S302E, Hs.46638, FAM1B, dJ873F21.1, dJ1024C24.1
11	MPPED2	ENSG00000066382	ENST00000524667	processed_transcript	KNOWN	None	1180	None	None	30432417	30490542	-1	C11orf8	239FB, D11S302E, Hs.46638, FAM1B, dJ873F21.1, dJ1024C24.1
11	MPPED2	ENSG00000066382	ENST00000529220	processed_transcript	PUTATIVE	None	1180	None	None	30432669	30462950	-1	C11orf8	239FB, D11S302E, Hs.46638, FAM1B, dJ873F21.1, dJ1024C24.1
11	MPPED2	ENSG00000066382	ENST00000526437	nonsense_mediated_decay	KNOWN	None	1180	354	117	30432728	30605750	-1	C11orf8	239FB, D11S302E, Hs.46638, FAM1B, dJ873F21.1, dJ1024C24.1
11	MPPED2	ENSG00000066382	ENST00000525519	processed_transcript	KNOWN	None	1180	None	None	30473201	30557631	-1	C11orf8	239FB, D11S302E, Hs.46638, FAM1B, dJ873F21.1, dJ1024C24.1
11	MPPED2	ENSG00000066382	ENST00000524636	retained_intron	KNOWN	None	1180	None	None	30516684	30557612	-1	C11orf8	239FB, D11S302E, Hs.46638, FAM1B, dJ873F21.1, dJ1024C24.1
11	MPPED2	ENSG00000066382	ENST00000528686	protein_coding	KNOWN	None	1180	129	42	30601792	30608419	-1	C11orf8	239FB, D11S302E, Hs.46638, FAM1B, dJ873F21.1, dJ1024C24.1
15	None	ENSG00000259751	ENST00000559655	processed_pseudogene	KNOWN	None	None	None	None	35141338	35142596	-1	None	None
12	None	ENSG00000256371	ENST00000542742	processed_pseudogene	KNOWN	None	None	None	None	22726359	22728039	1	None	None
12	None	ENSG00000256071	ENST00000544667	antisense	KNOWN	None	None	None	None	118327259	118328813	1	None	None
2	None	ENSG00000255735	ENST00000538012	pseudogene	NOVEL	None	None	None	None	241390181	241391848	-1	None	None
GL000220.1	None	ENSG00000265525	ENST00000577630	miRNA	NOVEL	None	None	None	None	152252	152312	1	None	None
6	CTAGE9	ENSG00000236761	ENST00000314099	protein_coding	KNOWN	CCDS47475	37275	2334	777	132029581	132032206	-1	None	None
12	None	ENSG00000256691	ENST00000546078	antisense	KNOWN	None	None	None	None	3571884	3572752	-1	None	None
8	None	ENSG00000216113	ENST00000401294	miRNA	NOVEL	None	None	None	None	104863827	104863916	1	None	None
2	MIR149	ENSG00000207611	ENST00000384879	miRNA	KNOWN	None	31536	None	None	241395418	241395506	1	MIRN149	hsa-mir-149
HSCHR17_5_CTG4	KRTAP9-10P	ENSG00000263103	ENST00000570916	unprocessed_pseudogene	KNOWN	None	34210	None	None	39426534	39426740	1	None	None
10	CAP1P2	ENSG00000232004	ENST00000417455	processed_pseudogene	KNOWN	None	31970	None	None	44100291	44101699	-1	None	None
8	None	ENSG00000179577	ENST00000319051	pseudogene	NOVEL	None	None	None	None	105432721	105433132	-1	None	None
12	None	ENSG00000221280	ENST00000408353	miRNA	NOVEL	None	None	None	None	118604604	118604676	1	None	None
3	None	ENSG00000251270	ENST00000512277	antisense	KNOWN	None	None	None	None	140833966	140843024	-1	None	None
3	RBMS3-AS3	ENSG00000235904	ENST00000413430	antisense	KNOWN	None	39989	None	None	29305685	29332217	-1	None	None
2	CAPN10-AS1	ENSG00000260942	ENST00000567819	antisense	KNOWN	None	48839	None	None	241522117	241526116	-1	None	None
GL000220.1	RNA5-8S5	ENSG00000241335	ENST00000459522	rRNA	KNOWN	None	37660	None	None	155997	156149	1	RN5-8S1	None
11	None	ENSG00000250659	ENST00000544108	antisense	KNOWN	None	None	None	None	62304784	62309490	1	None	None
8	None	ENSG00000222158	ENST00000410226	miRNA	NOVEL	None	None	None	None	105437587	105437666	1	None	None
12	RPS2P5	ENSG00000240342	ENST00000488803	processed_pseudogene	KNOWN	None	31386	None	None	118683889	118684767	1	None	bcm384
12	RPS2P5	ENSG00000240342	ENST00000358708	processed_pseudogene	KNOWN	None	31386	None	None	118683877	118684807	1	None	bcm384
14	IGHV3-37	ENSG00000253359	ENST00000518544	IG_V_pseudogene	KNOWN	None	5600	None	None	106852588	106853026	-1	None	None
1	B3GALT6	ENSG00000176022	ENST00000379198	protein_coding	KNOWN	CCDS13	17978	990	329	1167629	1170421	1	None	beta3GalT6
8	None	ENSG00000266734	ENST00000579547	miRNA	NOVEL	None	None	None	None	105447681	105447774	-1	None	None
GL000220.1	None	ENSG00000265830	ENST00000581141	miRNA	NOVEL	None	None	None	None	158123	158214	1	None	None
11	None	ENSG00000255272	ENST00000528779	antisense	KNOWN	None	None	None	None	33797734	33801041	1	None	None
3	UBL5P3	ENSG00000240359	ENST00000475112	processed_pseudogene	KNOWN	None	44641	None	None	63188894	63189124	-1	None	None
10	SYCE1	ENSG00000171772	ENST00000479535	retained_intron	KNOWN	None	28852	None	None	135367405	135379087	-1	C10orf94	bA108K14.6, CT76
10	SYCE1	ENSG00000171772	ENST00000368517	protein_coding	KNOWN	CCDS7687	28852	849	282	135367405	135381795	-1	C10orf94	bA108K14.6, CT76
10	SYCE1	ENSG00000171772	ENST00000303903	protein_coding	KNOWN	CCDS44500	28852	957	318	135367794	135379087	-1	C10orf94	bA108K14.6, CT76
10	SYCE1	ENSG00000171772	ENST00000432597	protein_coding	KNOWN	CCDS7687	28852	849	282	135367404	135382876	-1	C10orf94	bA108K14.6, CT76
10	SYCE1	ENSG00000171772	ENST00000343131	protein_coding	KNOWN	CCDS44501	28852	1056	351	135368348	135379138	-1	C10orf94	bA108K14.6, CT76
10	ZNF32-AS3	ENSG00000223910	ENST00000458063	processed_transcript	KNOWN	None	23583	None	None	44124265	44170151	1	C10orf44	bA402L1.3
2	VAMP8	ENSG00000118640	ENST00000432071	protein_coding	PUTATIVE	None	12647	225	74	85788685	85809120	1	None	EDB
2	VAMP8	ENSG00000118640	ENST00000263864	protein_coding	KNOWN	CCDS1979	12647	303	100	85804614	85809154	1	None	EDB
2	VAMP8	ENSG00000118640	ENST00000409760	protein_coding	PUTATIVE	None	12647	300	99	85804716	85809154	1	None	EDB
12	RBMS1P1	ENSG00000225422	ENST00000417216	processed_pseudogene	KNOWN	None	9908	None	None	66627859	66629014	-1	RBMS1P	MSSP1
12	RBMS1P1	ENSG00000225422	ENST00000537583	processed_pseudogene	KNOWN	None	9908	None	None	66628822	66628974	-1	RBMS1P	MSSP1
11	SIK2	ENSG00000170145	ENST00000304987	protein_coding	KNOWN	CCDS8347	21680	2781	926	111473115	111601577	1	SNF1LK2	KIAA0781, QIK, DKFZp434K1115, LOH11CR1I
11	SIK2	ENSG00000170145	ENST00000533868	processed_transcript	PUTATIVE	None	21680	None	None	111589466	111591398	1	SNF1LK2	KIAA0781, QIK, DKFZp434K1115, LOH11CR1I
8	MIR548A3	ENSG00000208032	ENST00000385297	miRNA	KNOWN	None	32798	None	None	105496597	105496693	-1	MIRN548A3	hsa-mir-548a-3
2	None	ENSG00000219159	ENST00000407635	lincRNA	KNOWN	None	None	None	None	241625751	241629831	1	None	None
2	None	ENSG00000219159	ENST00000600041	lincRNA	KNOWN	None	None	None	None	241628882	241629830	1	None	None
19	PTPRH	ENSG00000080031	ENST00000376350	protein_coding	KNOWN	CCDS33110	9672	3348	1115	55692616	55720824	-1	None	SAP-1
19	PTPRH	ENSG00000080031	ENST00000263434	protein_coding	KNOWN	CCDS54321	9672	2814	937	55692616	55720824	-1	None	SAP-1
19	PTPRH	ENSG00000080031	ENST00000588559	processed_transcript	KNOWN	None	9672	None	None	55705382	55720874	-1	None	SAP-1
19	PTPRH	ENSG00000080031	ENST00000586852	processed_transcript	KNOWN	None	9672	None	None	55715360	55718622	-1	None	SAP-1
19	PTPRH	ENSG00000080031	ENST00000586310	processed_transcript	PUTATIVE	None	9672	None	None	55716760	55718607	-1	None	SAP-1
19	PTPRH	ENSG00000080031	ENST00000588370	processed_transcript	PUTATIVE	None	9672	None	None	55716772	55718638	-1	None	SAP-1
19	PTPRH	ENSG00000080031	ENST00000587662	processed_transcript	KNOWN	None	9672	None	None	55716870	55720868	-1	None	SAP-1
5	RN7SL682P	ENSG00000266285	ENST00000584194	misc_RNA	KNOWN	None	46698	None	None	137614783	137615041	1	None	None
5	None	ENSG00000177453	ENST00000509362	processed_transcript	KNOWN	None	None	None	None	43192173	43245432	1	None	None
5	None	ENSG00000177453	ENST00000326035	protein_coding	KNOWN	CCDS3943	None	1311	436	43192327	43280952	1	None	None
5	None	ENSG00000177453	ENST00000513797	processed_transcript	KNOWN	None	None	None	None	43192333	43245464	1	None	None
5	None	ENSG00000177453	ENST00000440285	processed_transcript	KNOWN	None	None	None	None	43192372	43245303	1	None	None
5	None	ENSG00000177453	ENST00000512796	protein_coding	KNOWN	CCDS3943	None	1311	436	43192954	43280950	1	None	None
7	UNCX	ENSG00000164853	ENST00000316333	protein_coding	KNOWN	CCDS34583	33194	1596	531	1272543	1276954	1	None	Uncx4.1
7	None	ENSG00000260214	ENST00000564613	sense_overlapping	KNOWN	None	None	None	None	19037466	19042039	1	None	None
3	ALCAM	ENSG00000170017	ENST00000306107	protein_coding	KNOWN	CCDS33810	400	1752	583	105085753	105295744	1	None	CD166, MEMD
3	ALCAM	ENSG00000170017	ENST00000470756	retained_intron	KNOWN	None	400	None	None	105085762	105244237	1	None	CD166, MEMD
3	ALCAM	ENSG00000170017	ENST00000472644	protein_coding	KNOWN	CCDS58841	400	1713	570	105086187	105295705	1	None	CD166, MEMD
3	ALCAM	ENSG00000170017	ENST00000481337	processed_transcript	KNOWN	None	400	None	None	105158182	105264154	1	None	CD166, MEMD
3	ALCAM	ENSG00000170017	ENST00000486979	protein_coding	PUTATIVE	None	400	1599	532	105232169	105293396	1	None	CD166, MEMD
3	ALCAM	ENSG00000170017	ENST00000460954	processed_transcript	KNOWN	None	400	None	None	105250079	105258901	1	None	CD166, MEMD
3	ALCAM	ENSG00000170017	ENST00000465413	protein_coding	NOVEL	None	400	1033	343	105252446	105294758	1	None	CD166, MEMD
3	ALCAM	ENSG00000170017	ENST00000491388	retained_intron	KNOWN	None	400	None	None	105263446	105294758	1	None	CD166, MEMD
3	ALCAM	ENSG00000170017	ENST00000489178	retained_intron	KNOWN	None	400	None	None	105269064	105272015	1	None	CD166, MEMD
3	ALCAM	ENSG00000170017	ENST00000389927	protein_coding	KNOWN	None	400	918	305	105252446	105294758	1	None	CD166, MEMD
8	NDUFA5P2	ENSG00000253454	ENST00000519723	processed_pseudogene	KNOWN	None	48855	None	None	105578314	105578657	1	None	None
11	None	ENSG00000257058	ENST00000538101	antisense	KNOWN	None	None	None	None	62313471	62315171	1	None	None
5	None	ENSG00000249971	ENST00000504539	antisense	KNOWN	None	None	None	None	137682716	137685330	-1	None	None
12	None	ENSG00000258358	ENST00000550884	processed_pseudogene	KNOWN	None	None	None	None	84842404	84843657	-1	None	None
12	None	ENSG00000270482	ENST00000605329	lincRNA	KNOWN	None	None	None	None	118813155	118814080	-1	None	None
11	None	ENSG00000270753	ENST00000604675	processed_pseudogene	KNOWN	None	None	None	None	96957160	96957682	-1	None	None
HG1293_PATCH	AVPR1B	ENSG00000265027	ENST00000580826	protein_coding	KNOWN	None	896	1275	424	206173253	206180916	-1	AVPR3	None
HG1293_PATCH	AVPR1B	ENSG00000265027	ENST00000604484	processed_transcript	KNOWN	None	896	None	None	206173576	206181260	-1	AVPR3	None
12	None	ENSG00000256774	ENST00000535801	processed_pseudogene	KNOWN	None	None	None	None	22749162	22749485	1	None	None
12	None	ENSG00000255714	ENST00000543558	lincRNA	KNOWN	None	None	None	None	119083120	119086529	-1	None	None
HG999_1_PATCH	LYPD8	ENSG00000259823	ENST00000566597	nonsense_mediated_decay	KNOWN	None	44208	164	53	248881950	248908580	-1	None	None
HG999_1_PATCH	LYPD8	ENSG00000259823	ENST00000567799	protein_coding	KNOWN	None	44208	714	237	248902720	248914431	-1	None	None
12	None	ENSG00000243507	ENST00000468701	processed_pseudogene	KNOWN	None	None	None	None	3578116	3578462	1	None	None
20	ENTPD6	ENSG00000197586	ENST00000354989	protein_coding	KNOWN	CCDS46586	3368	1404	467	25176329	25207365	1	CD39L2, IL6ST2	NTPDase-6, dJ738P15.3
20	ENTPD6	ENSG00000197586	ENST00000360031	protein_coding	KNOWN	None	3368	1452	483	25176337	25207365	1	CD39L2, IL6ST2	NTPDase-6, dJ738P15.3
20	ENTPD6	ENSG00000197586	ENST00000376652	protein_coding	KNOWN	CCDS13170	3368	1455	484	25176356	25207365	1	CD39L2, IL6ST2	NTPDase-6, dJ738P15.3
20	ENTPD6	ENSG00000197586	ENST00000439162	protein_coding	KNOWN	None	3368	889	295	25176362	25199250	1	CD39L2, IL6ST2	NTPDase-6, dJ738P15.3
20	ENTPD6	ENSG00000197586	ENST00000433417	protein_coding	KNOWN	None	3368	940	312	25176366	25203606	1	CD39L2, IL6ST2	NTPDase-6, dJ738P15.3
20	ENTPD6	ENSG00000197586	ENST00000417467	protein_coding	KNOWN	None	3368	680	225	25176372	25198217	1	CD39L2, IL6ST2	NTPDase-6, dJ738P15.3
20	ENTPD6	ENSG00000197586	ENST00000433259	protein_coding	KNOWN	None	3368	1314	437	25176393	25207365	1	CD39L2, IL6ST2	NTPDase-6, dJ738P15.3
20	ENTPD6	ENSG00000197586	ENST00000427553	protein_coding	KNOWN	None	3368	451	149	25176411	25198217	1	CD39L2, IL6ST2	NTPDase-6, dJ738P15.3
20	ENTPD6	ENSG00000197586	ENST00000435520	protein_coding	KNOWN	None	3368	564	187	25176428	25194012	1	CD39L2, IL6ST2	NTPDase-6, dJ738P15.3
20	ENTPD6	ENSG00000197586	ENST00000418890	protein_coding	KNOWN	None	3368	584	193	25176429	25197353	1	CD39L2, IL6ST2	NTPDase-6, dJ738P15.3
20	ENTPD6	ENSG00000197586	ENST00000425813	protein_coding	KNOWN	None	3368	901	299	25176475	25201969	1	CD39L2, IL6ST2	NTPDase-6, dJ738P15.3
20	ENTPD6	ENSG00000197586	ENST00000447877	protein_coding	KNOWN	None	3368	932	309	25187980	25205953	1	CD39L2, IL6ST2	NTPDase-6, dJ738P15.3
20	ENTPD6	ENSG00000197586	ENST00000376666	protein_coding	KNOWN	None	3368	886	294	25193976	25207365	1	CD39L2, IL6ST2	NTPDase-6, dJ738P15.3
20	ENTPD6	ENSG00000197586	ENST00000471478	processed_transcript	KNOWN	None	3368	None	None	25196334	25205338	1	CD39L2, IL6ST2	NTPDase-6, dJ738P15.3
20	ENTPD6	ENSG00000197586	ENST00000485936	processed_transcript	KNOWN	None	3368	None	None	25202428	25207365	1	CD39L2, IL6ST2	NTPDase-6, dJ738P15.3
20	ENTPD6	ENSG00000197586	ENST00000481322	processed_transcript	KNOWN	None	3368	None	None	25202695	25203519	1	CD39L2, IL6ST2	NTPDase-6, dJ738P15.3
20	ENTPD6	ENSG00000197586	ENST00000463734	processed_transcript	KNOWN	None	3368	None	None	25204503	25206369	1	CD39L2, IL6ST2	NTPDase-6, dJ738P15.3
20	ENTPD6	ENSG00000197586	ENST00000490187	processed_transcript	KNOWN	None	3368	None	None	25205267	25207365	1	CD39L2, IL6ST2	NTPDase-6, dJ738P15.3
8	DEFA1B	ENSG00000240247	ENST00000382689	protein_coding	KNOWN	CCDS43691	33596	285	94	6854288	6856717	-1	None	None
8	DEFA1B	ENSG00000240247	ENST00000535841	protein_coding	KNOWN	CCDS43691	33596	285	94	6854309	6875778	-1	None	None
3	None	ENSG00000241400	ENST00000481770	processed_pseudogene	KNOWN	None	None	None	None	140977260	140977621	1	None	None
3	None	ENSG00000252662	ENST00000516853	miRNA	NOVEL	None	None	None	None	63320463	63320543	1	None	None
6	None	ENSG00000265818	ENST00000397456	nonsense_mediated_decay	KNOWN	None	None	456	151	8015959	8102763	-1	None	None
12	RPL17P37	ENSG00000241590	ENST00000490729	processed_pseudogene	KNOWN	None	36854	None	None	119175769	119176316	-1	None	None
11	None	ENSG00000254964	ENST00000532626	antisense	KNOWN	None	None	None	None	62373633	62373877	1	None	None
14	None	ENSG00000258580	ENST00000557371	antisense	KNOWN	None	None	None	None	32842543	32887169	-1	None	None
14	None	ENSG00000258580	ENST00000556520	antisense	KNOWN	None	None	None	None	32872250	32887180	-1	None	None
12	None	ENSG00000269339	ENST00000599633	protein_coding	NOVEL	None	None	57	18	51619860	51620085	1	None	None
22	CACNA1I	ENSG00000100346	ENST00000407673	protein_coding	KNOWN	None	1396	5946	1981	39966758	40080533	1	None	Cav3.3
22	CACNA1I	ENSG00000100346	ENST00000401624	protein_coding	KNOWN	None	1396	6051	2016	39966758	40081216	1	None	Cav3.3
22	CACNA1I	ENSG00000100346	ENST00000404898	protein_coding	KNOWN	CCDS46711	1396	6567	2188	39966758	40085735	1	None	Cav3.3
22	CACNA1I	ENSG00000100346	ENST00000402142	protein_coding	KNOWN	CCDS46710	1396	6672	2223	39966758	40085742	1	None	Cav3.3
22	CACNA1I	ENSG00000100346	ENST00000471970	processed_transcript	KNOWN	None	1396	None	None	40038802	40039517	1	None	Cav3.3
22	CACNA1I	ENSG00000100346	ENST00000336649	protein_coding	KNOWN	None	1396	6690	2229	39966758	40085735	1	None	Cav3.3
22	CACNA1I	ENSG00000100346	ENST00000400164	protein_coding	KNOWN	None	1396	6567	2188	39966758	40085735	1	None	Cav3.3
3	None	ENSG00000216169	ENST00000401350	miRNA	NOVEL	None	None	None	None	29410828	29410912	-1	None	None
11	None	ENSG00000244259	ENST00000475768	processed_pseudogene	KNOWN	None	None	None	None	115820914	115821519	-1	None	None
11	None	ENSG00000255039	ENST00000529088	lincRNA	KNOWN	None	None	None	None	97093644	97130987	-1	None	None
2	None	ENSG00000233392	ENST00000418218	antisense	KNOWN	None	None	None	None	241894034	241906868	-1	None	None
2	None	ENSG00000233392	ENST00000457369	antisense	KNOWN	None	None	None	None	241894441	241898771	-1	None	None
2	None	ENSG00000233392	ENST00000438506	retained_intron	KNOWN	None	None	None	None	241898513	241899217	-1	None	None
3	SYNPR-AS1	ENSG00000241359	ENST00000488201	antisense	KNOWN	None	40774	None	None	63409272	63535727	-1	None	None
1	FAM132A	ENSG00000184163	ENST00000462849	retained_intron	KNOWN	None	32308	None	None	1177826	1178843	-1	C1QDC2	MGC105127, C1QTNF12, CTRP12
1	FAM132A	ENSG00000184163	ENST00000478606	retained_intron	KNOWN	None	32308	None	None	1177829	1178538	-1	C1QDC2	MGC105127, C1QTNF12, CTRP12
1	FAM132A	ENSG00000184163	ENST00000330388	protein_coding	KNOWN	CCDS30554	32308	909	302	1177833	1182102	-1	C1QDC2	MGC105127, C1QTNF12, CTRP12
1	FAM132A	ENSG00000184163	ENST00000468365	retained_intron	KNOWN	None	32308	None	None	1178646	1179798	-1	C1QDC2	MGC105127, C1QTNF12, CTRP12
1	FAM132A	ENSG00000184163	ENST00000486627	retained_intron	KNOWN	None	32308	None	None	1179361	1180104	-1	C1QDC2	MGC105127, C1QTNF12, CTRP12
14	None	ENSG00000254718	ENST00000532515	antisense	KNOWN	None	None	None	None	60706839	60712371	-1	None	None
14	None	ENSG00000254718	ENST00000529171	antisense	KNOWN	None	None	None	None	60706845	60715483	-1	None	None
14	None	ENSG00000254718	ENST00000553269	antisense	KNOWN	None	None	None	None	60706850	60712054	-1	None	None
14	None	ENSG00000254718	ENST00000553775	antisense	KNOWN	None	None	None	None	60706860	60712286	-1	None	None
10	TYSND1	ENSG00000156521	ENST00000494143	processed_transcript	KNOWN	None	28531	None	None	71897737	71904591	-1	None	MGC34695, NET41
10	TYSND1	ENSG00000156521	ENST00000287078	protein_coding	KNOWN	CCDS31213	28531	1701	566	71897737	71906342	-1	None	MGC34695, NET41
10	TYSND1	ENSG00000156521	ENST00000335494	protein_coding	KNOWN	CCDS31214	28531	1197	398	71897737	71906412	-1	None	MGC34695, NET41
10	TYSND1	ENSG00000156521	ENST00000479086	processed_transcript	KNOWN	None	28531	None	None	71897739	71906432	-1	None	MGC34695, NET41
8	None	ENSG00000263732	ENST00000583362	miRNA	NOVEL	None	None	None	None	105767334	105767403	-1	None	None
3	RPS12P5	ENSG00000226216	ENST00000423449	processed_pseudogene	KNOWN	None	36525	None	None	29432339	29432709	1	None	None
3	None	ENSG00000249417	ENST00000507698	antisense	KNOWN	None	None	None	None	140986195	141085979	-1	None	None
8	None	ENSG00000243939	ENST00000483263	processed_pseudogene	KNOWN	None	None	None	None	105993392	105993807	-1	None	None
17	RN7SL739P	ENSG00000265821	ENST00000585071	misc_RNA	KNOWN	None	46755	None	None	43603820	43604112	-1	None	None
12	None	ENSG00000257296	ENST00000546698	processed_pseudogene	KNOWN	None	None	None	None	85065377	85065805	1	None	None
21	FAM207A	ENSG00000160256	ENST00000291634	protein_coding	KNOWN	CCDS13718	15811	693	230	46359925	46396904	1	C21orf70	PRED56
21	FAM207A	ENSG00000160256	ENST00000397826	protein_coding	KNOWN	None	15811	648	215	46359927	46396904	1	C21orf70	PRED56
21	FAM207A	ENSG00000160256	ENST00000458015	protein_coding	PUTATIVE	None	15811	610	202	46359940	46389179	1	C21orf70	PRED56
21	FAM207A	ENSG00000160256	ENST00000479127	processed_transcript	KNOWN	None	15811	None	None	46378161	46396888	1	C21orf70	PRED56
21	FAM207A	ENSG00000160256	ENST00000485207	processed_transcript	PUTATIVE	None	15811	None	None	46392971	46396888	1	C21orf70	PRED56
15	SNORD116-23	ENSG00000207375	ENST00000384645	snoRNA	KNOWN	None	33089	None	None	25336933	25337024	1	None	HBII-85-23
12	None	ENSG00000250166	ENST00000508615	lincRNA	KNOWN	None	None	None	None	22754359	22771801	1	None	None
17	None	ENSG00000266918	ENST00000587960	lincRNA	KNOWN	None	None	None	None	43608943	43611204	1	None	None
12	None	ENSG00000266539	ENST00000580359	miRNA	NOVEL	None	None	None	None	66629336	66629402	-1	None	None
12	None	ENSG00000196138	ENST00000358444	pseudogene	NOVEL	None	None	None	None	3797876	3799650	-1	None	None
8	MIR597	ENSG00000207701	ENST00000384968	miRNA	KNOWN	None	32853	None	None	9599182	9599278	1	MIRN597	hsa-mir-597
11	SNORA57	ENSG00000206597	ENST00000383870	snoRNA	KNOWN	None	32651	None	None	62432894	62433042	1	None	U99
17	None	ENSG00000131484	ENST00000588189	antisense	KNOWN	None	None	None	None	43611329	43612076	1	None	None
17	None	ENSG00000131484	ENST00000253803	antisense	KNOWN	None	None	None	None	43580626	43611631	1	None	None
11	RNA5SP347	ENSG00000199315	ENST00000362445	rRNA	KNOWN	None	43247	None	None	97528464	97528582	1	RN5S347	None
X	None	ENSG00000221317	ENST00000408390	miRNA	NOVEL	None	None	None	None	121605578	121605671	-1	None	None
12	None	ENSG00000257023	ENST00000542076	antisense	KNOWN	None	None	None	None	22762162	22777949	-1	None	None
HG990_PATCH	C17orf97	ENSG00000260950	ENST00000567104	protein_coding	KNOWN	None	33800	1272	423	260118	264367	1	None	LOC400566
HG990_PATCH	C17orf97	ENSG00000260950	ENST00000569663	protein_coding	PUTATIVE	None	33800	630	209	260152	264096	1	None	LOC400566
11	None	ENSG00000255161	ENST00000529152	processed_pseudogene	KNOWN	None	None	None	None	33808600	33809341	-1	None	None
16	NOMO3	ENSG00000103226	ENST00000399336	protein_coding	KNOWN	CCDS42123	25242	3669	1222	16326352	16388668	1	None	None
16	NOMO3	ENSG00000103226	ENST00000576589	nonsense_mediated_decay	KNOWN	None	25242	186	61	16326387	16337084	1	None	None
16	NOMO3	ENSG00000103226	ENST00000263012	protein_coding	PUTATIVE	None	25242	3804	1267	16326458	16388663	1	None	None
16	NOMO3	ENSG00000103226	ENST00000575225	nonsense_mediated_decay	KNOWN	None	25242	417	138	16326490	16388656	1	None	None
16	NOMO3	ENSG00000103226	ENST00000572830	processed_transcript	KNOWN	None	25242	None	None	16340874	16345957	1	None	None
16	NOMO3	ENSG00000103226	ENST00000570519	processed_transcript	KNOWN	None	25242	None	None	16345407	16355406	1	None	None
16	NOMO3	ENSG00000103226	ENST00000576427	retained_intron	KNOWN	None	25242	None	None	16345609	16349911	1	None	None
16	NOMO3	ENSG00000103226	ENST00000576269	retained_intron	KNOWN	None	25242	None	None	16358912	16361169	1	None	None
16	NOMO3	ENSG00000103226	ENST00000576460	nonsense_mediated_decay	KNOWN	None	25242	286	94	16358913	16367630	1	None	None
16	NOMO3	ENSG00000103226	ENST00000572033	nonsense_mediated_decay	KNOWN	None	25242	242	79	16358990	16367709	1	None	None
16	NOMO3	ENSG00000103226	ENST00000574894	retained_intron	KNOWN	None	25242	None	None	16367698	16372058	1	None	None
16	NOMO3	ENSG00000103226	ENST00000574157	retained_intron	KNOWN	None	25242	None	None	16372343	16381677	1	None	None
16	NOMO3	ENSG00000103226	ENST00000572932	processed_transcript	KNOWN	None	25242	None	None	16374067	16382506	1	None	None
16	NOMO3	ENSG00000103226	ENST00000573635	retained_intron	KNOWN	None	25242	None	None	16380558	16388667	1	None	None
16	NOMO3	ENSG00000103226	ENST00000571167	processed_transcript	PUTATIVE	None	25242	None	None	16381576	16386328	1	None	None
16	NOMO3	ENSG00000103226	ENST00000570732	retained_intron	KNOWN	None	25242	None	None	16387069	16388134	1	None	None
16	NOMO3	ENSG00000103226	ENST00000570346	protein_coding	PUTATIVE	None	25242	152	49	16387540	16388160	1	None	None
16	NOMO3	ENSG00000103226	ENST00000538468	protein_coding	KNOWN	None	25242	3303	1100	16326490	16388656	1	None	None
12	None	ENSG00000256072	ENST00000536412	antisense	KNOWN	None	None	None	None	66645525	66651214	-1	None	None
15	SNORD116-24	ENSG00000207279	ENST00000384549	snoRNA	KNOWN	None	33090	None	None	25339184	25339275	1	None	HBII-85-24
11	KAT5	ENSG00000172977	ENST00000377046	protein_coding	KNOWN	CCDS31610	5275	1542	513	65479467	65487075	1	HTATIP	TIP60, PLIP, cPLA2, HTATIP1, ESA1, ZC2HC5
11	KAT5	ENSG00000172977	ENST00000352980	protein_coding	KNOWN	CCDS8109	5275	1386	461	65479489	65487075	1	HTATIP	TIP60, PLIP, cPLA2, HTATIP1, ESA1, ZC2HC5
11	KAT5	ENSG00000172977	ENST00000341318	protein_coding	KNOWN	CCDS8110	5275	1641	546	65479505	65487073	1	HTATIP	TIP60, PLIP, cPLA2, HTATIP1, ESA1, ZC2HC5
11	KAT5	ENSG00000172977	ENST00000532042	retained_intron	KNOWN	None	5275	None	None	65479522	65480790	1	HTATIP	TIP60, PLIP, cPLA2, HTATIP1, ESA1, ZC2HC5
11	KAT5	ENSG00000172977	ENST00000530446	protein_coding	PUTATIVE	CCDS55771	5275	1485	494	65479710	65486835	1	HTATIP	TIP60, PLIP, cPLA2, HTATIP1, ESA1, ZC2HC5
11	KAT5	ENSG00000172977	ENST00000534104	protein_coding	PUTATIVE	None	5275	48	15	65479717	65482055	1	HTATIP	TIP60, PLIP, cPLA2, HTATIP1, ESA1, ZC2HC5
11	KAT5	ENSG00000172977	ENST00000530605	protein_coding	NOVEL	None	5275	499	165	65479849	65481135	1	HTATIP	TIP60, PLIP, cPLA2, HTATIP1, ESA1, ZC2HC5
11	KAT5	ENSG00000172977	ENST00000534293	processed_transcript	KNOWN	None	5275	None	None	65479888	65482381	1	HTATIP	TIP60, PLIP, cPLA2, HTATIP1, ESA1, ZC2HC5
11	KAT5	ENSG00000172977	ENST00000527544	retained_intron	KNOWN	None	5275	None	None	65479895	65482409	1	HTATIP	TIP60, PLIP, cPLA2, HTATIP1, ESA1, ZC2HC5
11	KAT5	ENSG00000172977	ENST00000528198	protein_coding	PUTATIVE	None	5275	568	188	65479967	65482116	1	HTATIP	TIP60, PLIP, cPLA2, HTATIP1, ESA1, ZC2HC5
11	KAT5	ENSG00000172977	ENST00000531880	protein_coding	PUTATIVE	None	5275	808	268	65479971	65482200	1	HTATIP	TIP60, PLIP, cPLA2, HTATIP1, ESA1, ZC2HC5
11	KAT5	ENSG00000172977	ENST00000534650	protein_coding	PUTATIVE	None	5275	909	302	65480091	65487074	1	HTATIP	TIP60, PLIP, cPLA2, HTATIP1, ESA1, ZC2HC5
11	KAT5	ENSG00000172977	ENST00000525204	processed_transcript	KNOWN	None	5275	None	None	65480098	65481136	1	HTATIP	TIP60, PLIP, cPLA2, HTATIP1, ESA1, ZC2HC5
11	KAT5	ENSG00000172977	ENST00000534681	protein_coding	PUTATIVE	None	5275	137	44	65480276	65482144	1	HTATIP	TIP60, PLIP, cPLA2, HTATIP1, ESA1, ZC2HC5
11	KAT5	ENSG00000172977	ENST00000533441	retained_intron	KNOWN	None	5275	None	None	65483704	65484519	1	HTATIP	TIP60, PLIP, cPLA2, HTATIP1, ESA1, ZC2HC5
11	KAT5	ENSG00000172977	ENST00000525600	retained_intron	KNOWN	None	5275	None	None	65485815	65486541	1	HTATIP	TIP60, PLIP, cPLA2, HTATIP1, ESA1, ZC2HC5
11	KAT5	ENSG00000172977	ENST00000533596	protein_coding	PUTATIVE	None	5275	287	94	65486177	65487074	1	HTATIP	TIP60, PLIP, cPLA2, HTATIP1, ESA1, ZC2HC5
11	None	ENSG00000267811	ENST00000596071	antisense	KNOWN	None	None	None	None	62538592	62539078	-1	None	None
11	None	ENSG00000239600	ENST00000478870	processed_pseudogene	KNOWN	None	None	None	None	115821823	115822209	-1	None	None
1	PFDN2	ENSG00000143256	ENST00000468311	processed_transcript	KNOWN	None	8867	None	None	161070346	161087845	-1	None	None
1	PFDN2	ENSG00000143256	ENST00000368010	protein_coding	KNOWN	CCDS1217	8867	465	154	161070346	161087901	-1	None	None
HSCHR17_1_CTG4	KRTAP16-1	ENSG00000263186	ENST00000572734	protein_coding	KNOWN	None	18916	1554	517	39463952	39465505	-1	None	KAP16.1
12	RNU6-174P	ENSG00000222338	ENST00000410406	snRNA	KNOWN	None	47137	None	None	3835388	3835493	-1	None	None
8	RBPMS-AS1	ENSG00000254109	ENST00000517521	antisense	KNOWN	None	48721	None	None	30239635	30242917	-1	None	None
8	RBPMS-AS1	ENSG00000254109	ENST00000523643	antisense	KNOWN	None	48721	None	None	30239640	30242256	-1	None	None
8	RBPMS-AS1	ENSG00000254109	ENST00000519753	antisense	KNOWN	None	48721	None	None	30239640	30242809	-1	None	None
X	RPL3P12	ENSG00000232496	ENST00000436852	processed_pseudogene	KNOWN	None	36298	None	None	121672106	121673313	1	None	None
17	None	ENSG00000267198	ENST00000590995	lincRNA	KNOWN	None	None	None	None	43623170	43626847	1	None	None
17	None	ENSG00000267198	ENST00000587078	lincRNA	KNOWN	None	None	None	None	43623171	43636133	1	None	None
17	None	ENSG00000267198	ENST00000591950	lincRNA	KNOWN	None	None	None	None	43623243	43631736	1	None	None
17	None	ENSG00000267198	ENST00000586348	lincRNA	KNOWN	None	None	None	None	43623266	43640596	1	None	None
17	None	ENSG00000267198	ENST00000585761	lincRNA	KNOWN	None	None	None	None	43630221	43631171	1	None	None
7	None	ENSG00000232821	ENST00000419944	antisense	KNOWN	None	None	None	None	19152097	19153894	1	None	None
3	RNA5SP134	ENSG00000252301	ENST00000516492	rRNA	KNOWN	None	43034	None	None	63531116	63531211	1	RN5S134	None
HSCHR3_1_CTG2_1	None	ENSG00000262230	ENST00000576828	miRNA	NOVEL	None	None	None	None	151352138	151352251	1	None	None
3	RBMS3-AS2	ENSG00000203506	ENST00000366321	antisense	KNOWN	None	39988	None	None	29657466	29684300	-1	None	None
3	RBMS3-AS2	ENSG00000203506	ENST00000601343	antisense	KNOWN	None	39988	None	None	29657548	29658546	-1	None	None
17	CALCOCO2	ENSG00000136436	ENST00000258947	protein_coding	KNOWN	CCDS11538	29912	1341	446	46908350	46942607	1	None	MGC17318, NDP52
17	CALCOCO2	ENSG00000136436	ENST00000503463	retained_intron	KNOWN	None	29912	None	None	46908380	46925924	1	None	MGC17318, NDP52
17	CALCOCO2	ENSG00000136436	ENST00000509507	protein_coding	NOVEL	CCDS58558	29912	1404	467	46908388	46940412	1	None	MGC17318, NDP52
17	CALCOCO2	ENSG00000136436	ENST00000448105	protein_coding	NOVEL	CCDS58559	29912	1413	470	46908396	46940815	1	None	MGC17318, NDP52
17	CALCOCO2	ENSG00000136436	ENST00000510356	retained_intron	KNOWN	None	29912	None	None	46908397	46920024	1	None	MGC17318, NDP52
17	CALCOCO2	ENSG00000136436	ENST00000575560	retained_intron	KNOWN	None	29912	None	None	46908397	46925607	1	None	MGC17318, NDP52
17	CALCOCO2	ENSG00000136436	ENST00000570513	protein_coding	KNOWN	None	29912	363	120	46908397	46925763	1	None	MGC17318, NDP52
17	CALCOCO2	ENSG00000136436	ENST00000509415	protein_coding	NOVEL	None	29912	504	167	46908397	46928495	1	None	MGC17318, NDP52
17	CALCOCO2	ENSG00000136436	ENST00000513119	protein_coding	PUTATIVE	None	29912	779	258	46908397	46933536	1	None	MGC17318, NDP52
17	CALCOCO2	ENSG00000136436	ENST00000416445	protein_coding	NOVEL	CCDS58560	29912	1215	404	46908397	46940536	1	None	MGC17318, NDP52
17	CALCOCO2	ENSG00000136436	ENST00000508679	protein_coding	PUTATIVE	CCDS58561	29912	1125	374	46908397	46940558	1	None	MGC17318, NDP52
17	CALCOCO2	ENSG00000136436	ENST00000372317	processed_transcript	KNOWN	None	29912	None	None	46908399	46919656	1	None	MGC17318, NDP52
17	CALCOCO2	ENSG00000136436	ENST00000576582	nonsense_mediated_decay	KNOWN	None	29912	327	108	46908405	46925805	1	None	MGC17318, NDP52
17	CALCOCO2	ENSG00000136436	ENST00000511697	processed_transcript	PUTATIVE	None	29912	None	None	46908407	46919896	1	None	MGC17318, NDP52
17	CALCOCO2	ENSG00000136436	ENST00000505071	protein_coding	NOVEL	None	29912	462	153	46908418	46926631	1	None	MGC17318, NDP52
17	CALCOCO2	ENSG00000136436	ENST00000507076	protein_coding	PUTATIVE	None	29912	82	26	46908590	46925698	1	None	MGC17318, NDP52
17	CALCOCO2	ENSG00000136436	ENST00000502761	protein_coding	KNOWN	None	29912	579	192	46918925	46928486	1	None	MGC17318, NDP52
17	CALCOCO2	ENSG00000136436	ENST00000509014	retained_intron	KNOWN	None	29912	None	None	46925086	46925817	1	None	MGC17318, NDP52
17	CALCOCO2	ENSG00000136436	ENST00000514962	retained_intron	KNOWN	None	29912	None	None	46925571	46930397	1	None	MGC17318, NDP52
17	CALCOCO2	ENSG00000136436	ENST00000514267	retained_intron	KNOWN	None	29912	None	None	46928344	46929060	1	None	MGC17318, NDP52
17	CALCOCO2	ENSG00000136436	ENST00000514006	retained_intron	KNOWN	None	29912	None	None	46928463	46930220	1	None	MGC17318, NDP52
17	CALCOCO2	ENSG00000136436	ENST00000511816	retained_intron	KNOWN	None	29912	None	None	46928569	46930007	1	None	MGC17318, NDP52
17	CALCOCO2	ENSG00000136436	ENST00000509112	retained_intron	KNOWN	None	29912	None	None	46928965	46930597	1	None	MGC17318, NDP52
17	CALCOCO2	ENSG00000136436	ENST00000506971	retained_intron	KNOWN	None	29912	None	None	46929702	46937722	1	None	MGC17318, NDP52
17	CALCOCO2	ENSG00000136436	ENST00000507306	protein_coding	PUTATIVE	None	29912	388	128	46930323	46940583	1	None	MGC17318, NDP52
17	CALCOCO2	ENSG00000136436	ENST00000575461	retained_intron	KNOWN	None	29912	None	None	46933165	46933629	1	None	MGC17318, NDP52
17	CALCOCO2	ENSG00000136436	ENST00000509784	nonsense_mediated_decay	KNOWN	None	29912	132	43	46933463	46940487	1	None	MGC17318, NDP52
17	CALCOCO2	ENSG00000136436	ENST00000510997	processed_transcript	PUTATIVE	None	29912	None	None	46942447	46943884	1	None	MGC17318, NDP52
11	None	ENSG00000238625	ENST00000459137	snoRNA	NOVEL	None	None	None	None	116191061	116191162	1	None	None
11	None	ENSG00000255502	ENST00000526385	lincRNA	KNOWN	None	None	None	None	97749781	97813762	-1	None	None
11	None	ENSG00000255502	ENST00000527281	lincRNA	KNOWN	None	None	None	None	97789423	97813762	-1	None	None
HSCHR22_1_CTG2	None	ENSG00000262453	ENST00000576811	lincRNA	KNOWN	None	None	None	None	39317232	39320713	1	None	None
6	EEF1E1	ENSG00000124802	ENST00000429723	protein_coding	KNOWN	CCDS47370	3212	420	139	8073593	8102781	-1	P18	AIMP3
6	EEF1E1	ENSG00000124802	ENST00000502429	protein_coding	PUTATIVE	None	3212	410	135	8078727	8102714	-1	P18	AIMP3
6	EEF1E1	ENSG00000124802	ENST00000379715	protein_coding	KNOWN	CCDS4507	3212	525	174	8079628	8102811	-1	P18	AIMP3
6	EEF1E1	ENSG00000124802	ENST00000507463	protein_coding	PUTATIVE	None	3212	453	150	8090187	8102792	-1	P18	AIMP3
6	EEF1E1	ENSG00000124802	ENST00000515633	protein_coding	PUTATIVE	None	3212	171	56	8090218	8097544	-1	P18	AIMP3
6	EEF1E1	ENSG00000124802	ENST00000488226	protein_coding	PUTATIVE	None	3212	284	93	8097540	8102279	-1	P18	AIMP3
HSCHR3_1_CTG2_1	None	ENSG00000262411	ENST00000573278	lincRNA	PUTATIVE	None	None	None	None	151354962	151375744	1	None	None
2	None	ENSG00000223991	ENST00000425110	antisense	KNOWN	None	None	None	None	241920932	241925489	-1	None	None
11	None	ENSG00000236437	ENST00000452629	lincRNA	KNOWN	None	None	None	None	116367616	116371347	-1	None	None
12	None	ENSG00000118976	ENST00000237841	processed_pseudogene	KNOWN	None	None	None	None	3948625	3951691	1	None	None
GL000215.1	None	ENSG00000268851	ENST00000596945	protein_coding	KNOWN	None	None	420	139	23516	25354	-1	None	None
3	None	ENSG00000224479	ENST00000430831	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	63727969	63790769	-1	None	None
3	None	ENSG00000224479	ENST00000437462	processed_transcript	KNOWN	None	None	None	None	63739802	63790769	-1	None	None
3	None	ENSG00000224479	ENST00000436687	processed_transcript	PUTATIVE	None	None	None	None	63752743	63768775	-1	None	None
3	None	ENSG00000224479	ENST00000443346	processed_transcript	PUTATIVE	None	None	None	None	63771662	63813121	-1	None	None
8	None	ENSG00000254973	ENST00000529743	lincRNA	KNOWN	None	None	None	None	144840323	144853992	-1	None	None
HSCHR17_1_CTG4	KRTAP17-1	ENSG00000263341	ENST00000574858	protein_coding	KNOWN	None	18917	318	105	39471169	39471947	-1	None	KAP17.1
3	None	ENSG00000249540	ENST00000514722	processed_pseudogene	KNOWN	None	None	None	None	141026454	141026775	-1	None	None
2	None	ENSG00000229996	ENST00000425183	antisense	KNOWN	None	None	None	None	241949462	241950161	-1	None	None
11	None	ENSG00000255169	ENST00000534666	lincRNA	KNOWN	None	None	None	None	33826314	33827187	1	None	None
12	None	ENSG00000258073	ENST00000549459	processed_pseudogene	KNOWN	None	None	None	None	85333303	85333447	-1	None	None
2	None	ENSG00000225521	ENST00000458377	antisense	KNOWN	None	None	None	None	241955016	242003533	-1	None	None
15	None	ENSG00000259057	ENST00000556012	processed_pseudogene	KNOWN	None	None	None	None	92286071	92287185	-1	None	None
6	ENPP1	ENSG00000197594	ENST00000486853	retained_intron	KNOWN	None	3356	None	None	132129156	132172563	1	NPPS, M6S1, PDNP1	PC-1, PCA1
6	ENPP1	ENSG00000197594	ENST00000360971	protein_coding	KNOWN	CCDS5150	3356	2778	925	132129156	132216295	1	NPPS, M6S1, PDNP1	PC-1, PCA1
6	ENPP1	ENSG00000197594	ENST00000513998	nonsense_mediated_decay	KNOWN	None	3356	1137	378	132129174	132212004	1	NPPS, M6S1, PDNP1	PC-1, PCA1
6	ENPP1	ENSG00000197594	ENST00000459624	retained_intron	KNOWN	None	3356	None	None	132182750	132198997	1	NPPS, M6S1, PDNP1	PC-1, PCA1
6	LRRC1	ENSG00000137269	ENST00000487251	nonsense_mediated_decay	KNOWN	None	14307	594	197	53659295	53770160	1	None	dJ523E19.1, LANO, FLJ10775, FLJ11834
6	LRRC1	ENSG00000137269	ENST00000370888	protein_coding	KNOWN	CCDS4953	14307	1575	524	53659778	53788919	1	None	dJ523E19.1, LANO, FLJ10775, FLJ11834
6	LRRC1	ENSG00000137269	ENST00000370882	protein_coding	KNOWN	None	14307	465	154	53659888	53748943	1	None	dJ523E19.1, LANO, FLJ10775, FLJ11834
6	LRRC1	ENSG00000137269	ENST00000490222	retained_intron	KNOWN	None	14307	None	None	53784038	53785546	1	None	dJ523E19.1, LANO, FLJ10775, FLJ11834
4	KLKB1	ENSG00000164344	ENST00000511608	protein_coding	PUTATIVE	None	6371	2060	685	187130133	187179623	1	KLK3	None
4	KLKB1	ENSG00000164344	ENST00000428196	protein_coding	KNOWN	None	6371	444	147	187147592	187158050	1	KLK3	None
4	KLKB1	ENSG00000164344	ENST00000264690	protein_coding	KNOWN	CCDS34120	6371	1917	638	187148556	187179625	1	KLK3	None
4	KLKB1	ENSG00000164344	ENST00000446598	protein_coding	PUTATIVE	None	6371	423	140	187148661	187159458	1	KLK3	None
4	KLKB1	ENSG00000164344	ENST00000414291	protein_coding	PUTATIVE	None	6371	321	106	187148672	187158041	1	KLK3	None
4	KLKB1	ENSG00000164344	ENST00000513864	protein_coding	PUTATIVE	None	6371	1659	552	187148672	187179624	1	KLK3	None
4	KLKB1	ENSG00000164344	ENST00000511406	retained_intron	KNOWN	None	6371	None	None	187148713	187179446	1	KLK3	None
4	KLKB1	ENSG00000164344	ENST00000467271	retained_intron	KNOWN	None	6371	None	None	187172186	187173317	1	KLK3	None
HSCHR3_1_CTG2_1	None	ENSG00000262466	ENST00000570746	processed_transcript	KNOWN	None	None	None	None	151479769	151656494	-1	None	None
HSCHR3_1_CTG2_1	None	ENSG00000262466	ENST00000572981	processed_transcript	KNOWN	None	None	None	None	151479797	151656501	-1	None	None
12	None	ENSG00000256862	ENST00000537149	antisense	KNOWN	None	None	None	None	3980900	4019504	1	None	None
12	None	ENSG00000256862	ENST00000545357	antisense	KNOWN	None	None	None	None	4008219	4019472	1	None	None
12	None	ENSG00000256862	ENST00000545163	antisense	KNOWN	None	None	None	None	4014386	4019436	1	None	None
HSCHR18_2_CTG2	DSEL	ENSG00000262102	ENST00000572659	protein_coding	KNOWN	None	18144	3669	1222	65243268	65253666	-1	C18orf4	NCAG1, FLJ11477
14	CHMP4A	ENSG00000254505	ENST00000347519	protein_coding	KNOWN	CCDS9619	20274	798	265	24678789	24683075	-1	C14orf123	HSPC134, VPS32A
14	CHMP4A	ENSG00000254505	ENST00000530996	nonsense_mediated_decay	KNOWN	None	20274	104	33	24678830	24682695	-1	C14orf123	HSPC134, VPS32A
14	CHMP4A	ENSG00000254505	ENST00000533523	nonsense_mediated_decay	KNOWN	None	20274	501	166	24678881	24683036	-1	C14orf123	HSPC134, VPS32A
14	CHMP4A	ENSG00000254505	ENST00000542700	processed_transcript	KNOWN	None	20274	None	None	24678940	24682291	-1	C14orf123	HSPC134, VPS32A
14	CHMP4A	ENSG00000254505	ENST00000533011	protein_coding	PUTATIVE	None	20274	640	212	24679554	24681910	-1	C14orf123	HSPC134, VPS32A
14	CHMP4A	ENSG00000254505	ENST00000524955	retained_intron	KNOWN	None	20274	None	None	24679630	24680067	-1	C14orf123	HSPC134, VPS32A
14	CHMP4A	ENSG00000254505	ENST00000552620	retained_intron	KNOWN	None	20274	None	None	24679871	24681315	-1	C14orf123	HSPC134, VPS32A
14	CHMP4A	ENSG00000254505	ENST00000534106	nonsense_mediated_decay	KNOWN	None	20274	185	60	24679881	24682638	-1	C14orf123	HSPC134, VPS32A
14	CHMP4A	ENSG00000254505	ENST00000527154	retained_intron	KNOWN	None	20274	None	None	24680458	24682694	-1	C14orf123	HSPC134, VPS32A
14	CHMP4A	ENSG00000254505	ENST00000531158	processed_transcript	KNOWN	None	20274	None	None	24680716	24682301	-1	C14orf123	HSPC134, VPS32A
16	IRX5	ENSG00000176842	ENST00000394636	protein_coding	KNOWN	CCDS10751	14361	1452	483	54964774	54968397	1	None	IRX-2a
16	IRX5	ENSG00000176842	ENST00000560154	protein_coding	NOVEL	None	14361	792	263	54965111	54967872	1	None	IRX-2a
16	IRX5	ENSG00000176842	ENST00000320990	protein_coding	KNOWN	CCDS58462	14361	1449	482	54965111	54968397	1	None	IRX-2a
16	IRX5	ENSG00000176842	ENST00000558597	protein_coding	PUTATIVE	None	14361	1254	417	54965984	54967981	1	None	IRX-2a
2	None	ENSG00000235861	ENST00000434368	processed_pseudogene	KNOWN	None	None	None	None	242058140	242058358	1	None	None
17	None	ENSG00000267246	ENST00000586411	lincRNA	KNOWN	None	None	None	None	43627147	43636104	-1	None	None
X	CXorf51B	ENSG00000235699	ENST00000438525	lincRNA	KNOWN	None	42787	None	None	145891302	145891927	1	None	None
11	None	ENSG00000237937	ENST00000444123	lincRNA	KNOWN	None	None	None	None	116510139	116528969	1	None	None
11	None	ENSG00000237937	ENST00000439483	lincRNA	KNOWN	None	None	None	None	116510197	116525906	1	None	None
8	DEFA3	ENSG00000239839	ENST00000327857	protein_coding	KNOWN	CCDS5962	2762	285	94	6873391	6875823	-1	DEF3	HNP-3
8	None	ENSG00000239065	ENST00000458812	snoRNA	NOVEL	None	None	None	None	9724417	9724520	-1	None	None
2	None	ENSG00000266621	ENST00000578965	miRNA	NOVEL	None	None	None	None	242184617	242184714	-1	None	None
7	None	ENSG00000236536	ENST00000417460	antisense	KNOWN	None	None	None	None	19159556	19161539	1	None	None
8	None	ENSG00000214733	ENST00000534089	antisense	KNOWN	None	None	None	None	144871090	144872305	1	None	None
8	None	ENSG00000214733	ENST00000527139	antisense	KNOWN	None	None	None	None	144871149	144872629	1	None	None
8	None	ENSG00000214733	ENST00000532625	antisense	KNOWN	None	None	None	None	144871685	144872445	1	None	None
2	None	ENSG00000223374	ENST00000414896	antisense	KNOWN	None	None	None	None	242290755	242292519	-1	None	None
3	None	ENSG00000227795	ENST00000427694	processed_pseudogene	KNOWN	None	None	None	None	29839143	29839316	-1	None	None
8	LINC00599	ENSG00000253230	ENST00000518557	lincRNA	KNOWN	None	27231	None	None	9757574	9758710	-1	None	Rncr3
8	LINC00599	ENSG00000253230	ENST00000519461	lincRNA	KNOWN	None	27231	None	None	9757574	9760839	-1	None	Rncr3
8	LINC00599	ENSG00000253230	ENST00000517675	lincRNA	KNOWN	None	27231	None	None	9757574	9760907	-1	None	Rncr3
8	LINC00599	ENSG00000253230	ENST00000521863	lincRNA	KNOWN	None	27231	None	None	9760677	9761720	-1	None	Rncr3
8	LINC00599	ENSG00000253230	ENST00000521242	lincRNA	KNOWN	None	27231	None	None	9760971	9762876	-1	None	Rncr3
8	LINC00599	ENSG00000253230	ENST00000385275	miRNA	KNOWN	None	27231	None	None	9760898	9760982	-1	None	Rncr3
2	MIR3133	ENSG00000263752	ENST00000583157	miRNA	KNOWN	None	38305	None	None	242417320	242417397	1	None	hsa-mir-3133
12	GPR133	ENSG00000111452	ENST00000541143	retained_intron	KNOWN	None	19893	None	None	131438452	131472764	1	None	DKFZp434B1272, PGR25
12	GPR133	ENSG00000111452	ENST00000261654	protein_coding	KNOWN	CCDS9272	19893	2625	874	131438452	131625792	1	None	DKFZp434B1272, PGR25
12	GPR133	ENSG00000111452	ENST00000543826	protein_coding	PUTATIVE	None	19893	221	72	131438524	131451610	1	None	DKFZp434B1272, PGR25
12	GPR133	ENSG00000111452	ENST00000542091	protein_coding	PUTATIVE	None	19893	662	219	131438938	131476813	1	None	DKFZp434B1272, PGR25
12	GPR133	ENSG00000111452	ENST00000535015	protein_coding	NOVEL	None	19893	2721	906	131438981	131623833	1	None	DKFZp434B1272, PGR25
12	GPR133	ENSG00000111452	ENST00000541937	processed_transcript	KNOWN	None	19893	None	None	131451007	131457904	1	None	DKFZp434B1272, PGR25
12	GPR133	ENSG00000111452	ENST00000537600	protein_coding	PUTATIVE	None	19893	146	47	131471354	131476840	1	None	DKFZp434B1272, PGR25
12	GPR133	ENSG00000111452	ENST00000544673	protein_coding	PUTATIVE	None	19893	405	134	131478698	131490593	1	None	DKFZp434B1272, PGR25
12	GPR133	ENSG00000111452	ENST00000545900	protein_coding	PUTATIVE	None	19893	490	162	131478702	131498814	1	None	DKFZp434B1272, PGR25
12	GPR133	ENSG00000111452	ENST00000376682	protein_coding	PUTATIVE	None	19893	1683	560	131487044	131626005	1	None	DKFZp434B1272, PGR25
12	GPR133	ENSG00000111452	ENST00000446583	retained_intron	KNOWN	None	19893	None	None	131553758	131626014	1	None	DKFZp434B1272, PGR25
12	GPR133	ENSG00000111452	ENST00000335486	protein_coding	PUTATIVE	None	19893	686	227	131555398	131626014	1	None	DKFZp434B1272, PGR25
12	GPR133	ENSG00000111452	ENST00000543617	protein_coding	PUTATIVE	None	19893	1182	393	131561316	131623808	1	None	DKFZp434B1272, PGR25
12	GPR133	ENSG00000111452	ENST00000536988	processed_transcript	KNOWN	None	19893	None	None	131576457	131593381	1	None	DKFZp434B1272, PGR25
12	GPR133	ENSG00000111452	ENST00000537489	retained_intron	KNOWN	None	19893	None	None	131605244	131621648	1	None	DKFZp434B1272, PGR25
12	GPR133	ENSG00000111452	ENST00000540207	processed_transcript	KNOWN	None	19893	None	None	131606499	131624034	1	None	DKFZp434B1272, PGR25
17	None	ENSG00000266504	ENST00000579701	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	43631076	43636436	-1	None	None
11	None	ENSG00000254619	ENST00000527270	lincRNA	KNOWN	None	None	None	None	33831691	33832724	1	None	None
12	None	ENSG00000269916	ENST00000602731	lincRNA	KNOWN	None	None	None	None	85657322	85658235	1	None	None
HSCHR21_2_CTG1_1	None	ENSG00000262752	ENST00000574005	processed_pseudogene	KNOWN	None	None	None	None	23507018	23508403	-1	None	None
X	GPR64	ENSG00000173698	ENST00000379873	protein_coding	KNOWN	CCDS55379	4516	2901	966	19007427	19140755	-1	None	HE6, TM7LN2, EDDM6
X	GPR64	ENSG00000173698	ENST00000357991	protein_coding	KNOWN	CCDS14191	4516	3045	1014	19007432	19140579	-1	None	HE6, TM7LN2, EDDM6
X	GPR64	ENSG00000173698	ENST00000357544	protein_coding	KNOWN	CCDS55377	4516	2964	987	19007432	19140677	-1	None	HE6, TM7LN2, EDDM6
X	GPR64	ENSG00000173698	ENST00000379869	protein_coding	KNOWN	CCDS43923	4516	3054	1017	19007432	19140677	-1	None	HE6, TM7LN2, EDDM6
X	GPR64	ENSG00000173698	ENST00000360279	protein_coding	KNOWN	CCDS43921	4516	2988	995	19007432	19140677	-1	None	HE6, TM7LN2, EDDM6
X	GPR64	ENSG00000173698	ENST00000356606	protein_coding	KNOWN	CCDS43922	4516	3012	1003	19007433	19140582	-1	None	HE6, TM7LN2, EDDM6
X	GPR64	ENSG00000173698	ENST00000340581	protein_coding	NOVEL	None	4516	2697	898	19008128	19100861	-1	None	HE6, TM7LN2, EDDM6
X	GPR64	ENSG00000173698	ENST00000479496	retained_intron	KNOWN	None	4516	None	None	19037686	19054506	-1	None	HE6, TM7LN2, EDDM6
X	GPR64	ENSG00000173698	ENST00000379878	protein_coding	KNOWN	CCDS55378	4516	3006	1001	19007427	19140755	-1	None	HE6, TM7LN2, EDDM6
X	GPR64	ENSG00000173698	ENST00000354791	protein_coding	KNOWN	None	4516	3006	1001	19007427	19140755	-1	None	HE6, TM7LN2, EDDM6
X	GPR64	ENSG00000173698	ENST00000379876	protein_coding	KNOWN	CCDS55376	4516	2982	993	19007427	19140755	-1	None	HE6, TM7LN2, EDDM6
2	None	ENSG00000224232	ENST00000427818	processed_pseudogene	KNOWN	None	None	None	None	242417731	242418408	1	None	None
12	DAZAP2	ENSG00000183283	ENST00000412716	protein_coding	KNOWN	CCDS8809	2684	507	168	51632076	51637717	1	None	KIAA0058
12	DAZAP2	ENSG00000183283	ENST00000552173	processed_transcript	KNOWN	None	2684	None	None	51632602	51634855	1	None	KIAA0058
12	DAZAP2	ENSG00000183283	ENST00000549555	protein_coding	KNOWN	CCDS44885	2684	624	207	51632608	51636600	1	None	KIAA0058
12	DAZAP2	ENSG00000183283	ENST00000439799	protein_coding	KNOWN	CCDS44888	2684	261	86	51632610	51636600	1	None	KIAA0058
12	DAZAP2	ENSG00000183283	ENST00000425012	protein_coding	KNOWN	CCDS44884	2684	462	153	51632610	51640501	1	None	KIAA0058
12	DAZAP2	ENSG00000183283	ENST00000551919	processed_transcript	KNOWN	None	2684	None	None	51632611	51636258	1	None	KIAA0058
12	DAZAP2	ENSG00000183283	ENST00000549041	retained_intron	KNOWN	None	2684	None	None	51632621	51634640	1	None	KIAA0058
12	DAZAP2	ENSG00000183283	ENST00000549732	protein_coding	KNOWN	CCDS44887	2684	411	136	51632638	51636378	1	None	KIAA0058
12	DAZAP2	ENSG00000183283	ENST00000604900	protein_coding	PUTATIVE	None	2684	405	134	51632670	51665146	1	None	KIAA0058
12	DAZAP2	ENSG00000183283	ENST00000436900	nonsense_mediated_decay	KNOWN	None	2684	222	73	51632687	51637569	1	None	KIAA0058
12	DAZAP2	ENSG00000183283	ENST00000551534	processed_transcript	KNOWN	None	2684	None	None	51632689	51636215	1	None	KIAA0058
12	DAZAP2	ENSG00000183283	ENST00000552459	retained_intron	KNOWN	None	2684	None	None	51632692	51637568	1	None	KIAA0058
12	DAZAP2	ENSG00000183283	ENST00000549497	processed_transcript	KNOWN	None	2684	None	None	51632698	51636235	1	None	KIAA0058
12	DAZAP2	ENSG00000183283	ENST00000551313	protein_coding	PUTATIVE	None	2684	327	108	51633079	51636294	1	None	KIAA0058
12	DAZAP2	ENSG00000183283	ENST00000449723	protein_coding	KNOWN	CCDS44886	2684	441	146	51632508	51637715	1	None	KIAA0058
2	None	ENSG00000265280	ENST00000578074	miRNA	NOVEL	None	None	None	None	130941016	130941092	1	None	None
11	None	ENSG00000269176	ENST00000601484	antisense	KNOWN	None	None	None	None	62553498	62554257	-1	None	None
HSCHR22_1_CTG2	None	ENSG00000262536	ENST00000573437	unprocessed_pseudogene	KNOWN	None	None	None	None	39345118	39345132	1	None	None
3	RBMS3-AS1	ENSG00000235593	ENST00000414547	antisense	KNOWN	None	39987	None	None	29968302	29975647	-1	None	None
17	DND1P1	ENSG00000264070	ENST00000580842	processed_pseudogene	KNOWN	None	31444	None	None	43663237	43664295	1	None	None
2	BOK-AS1	ENSG00000234235	ENST00000434306	antisense	KNOWN	None	35125	None	None	242483818	242498392	-1	BOKAS	NCRNA00151, NAToB
HSCHR21_2_CTG1_1	None	ENSG00000261847	ENST00000572263	processed_pseudogene	KNOWN	None	None	None	None	23526270	23526619	-1	None	None
2	None	ENSG00000227632	ENST00000430381	unprocessed_pseudogene	KNOWN	None	None	None	None	130959885	130970201	1	None	None
5	CDH12P4	ENSG00000253900	ENST00000517835	unprocessed_pseudogene	KNOWN	None	37700	None	None	70428820	70429114	1	None	None
12	None	ENSG00000258815	ENST00000555596	lincRNA	KNOWN	None	None	None	None	85711838	85736690	1	None	None
15	None	ENSG00000231409	ENST00000491307	processed_pseudogene	KNOWN	None	None	None	None	35235281	35235595	1	None	None
17	None	ENSG00000263503	ENST00000580257	processed_pseudogene	KNOWN	None	None	None	None	43678235	43679706	-1	None	None
2	VAMP5	ENSG00000168899	ENST00000306384	protein_coding	KNOWN	CCDS1980	12646	351	116	85811531	85820535	1	None	None
2	VAMP5	ENSG00000168899	ENST00000462451	retained_intron	KNOWN	None	12646	None	None	85818720	85820366	1	None	None
2	RNA5SP122	ENSG00000207186	ENST00000384457	rRNA	KNOWN	None	42920	None	None	242524383	242524490	1	RN5S122	None
11	None	ENSG00000255133	ENST00000525320	lincRNA	KNOWN	None	None	None	None	33836423	33843641	-1	None	None
7	None	ENSG00000229533	ENST00000452700	antisense	KNOWN	None	None	None	None	19183916	19185876	1	None	None
3	None	ENSG00000243675	ENST00000460866	processed_pseudogene	KNOWN	None	None	None	None	158481220	158481542	1	None	None
GL000191.1	None	ENSG00000215700	ENST00000400776	protein_coding	KNOWN	None	None	420	139	29663	33264	1	None	None
15	None	ENSG00000238981	ENST00000459209	snoRNA	NOVEL	None	None	None	None	92378609	92378706	1	None	None
14	IGHVIII-38-1	ENSG00000253989	ENST00000521454	IG_V_pseudogene	KNOWN	None	5699	None	None	106873942	106873995	-1	None	IGHV(III)-38-1
12	None	ENSG00000256995	ENST00000413794	lincRNA	KNOWN	None	None	None	None	22852793	23040977	1	None	None
12	None	ENSG00000256995	ENST00000536744	lincRNA	KNOWN	None	None	None	None	22852875	23041867	1	None	None
12	None	ENSG00000256995	ENST00000590328	lincRNA	KNOWN	None	None	None	None	22939977	23040955	1	None	None
12	None	ENSG00000256995	ENST00000590955	lincRNA	KNOWN	None	None	None	None	23012099	23040955	1	None	None
12	None	ENSG00000256995	ENST00000538317	lincRNA	KNOWN	None	None	None	None	23012409	23123942	1	None	None
12	None	ENSG00000256995	ENST00000593117	lincRNA	KNOWN	None	None	None	None	23012465	23040955	1	None	None
12	None	ENSG00000256995	ENST00000540895	lincRNA	KNOWN	None	None	None	None	23117506	23327057	1	None	None
12	None	ENSG00000256995	ENST00000540994	lincRNA	KNOWN	None	None	None	None	23174721	23207175	1	None	None
2	None	ENSG00000228989	ENST00000433036	antisense	KNOWN	None	None	None	None	242629829	242633704	1	None	None
17	RPS26P8	ENSG00000204652	ENST00000393490	processed_pseudogene	KNOWN	None	31329	None	None	43685937	43686284	1	None	None
17	RPS26P8	ENSG00000204652	ENST00000536258	processed_pseudogene	KNOWN	None	31329	None	None	43685909	43686349	1	None	None
X	None	ENSG00000226153	ENST00000427102	processed_pseudogene	KNOWN	None	None	None	None	17723459	17723811	-1	None	None
14	None	ENSG00000258556	ENST00000554773	lincRNA	KNOWN	None	None	None	None	60789954	60790625	1	None	None
3	None	ENSG00000203652	ENST00000366459	pseudogene	KNOWN	None	None	None	None	30030355	30031951	1	None	None
15	None	ENSG00000260661	ENST00000561674	antisense	KNOWN	None	None	None	None	92691982	92874267	-1	None	None
12	None	ENSG00000257855	ENST00000550676	processed_pseudogene	KNOWN	None	None	None	None	85961656	85962017	1	None	None
17	AKAP1	ENSG00000121057	ENST00000575322	protein_coding	KNOWN	None	367	559	185	55162453	55183384	1	PRKA1	AKAP121, AKAP149, SAKAP84, S-AKAP84, AKAP84, D-AKAP1, PPP1R43, TDRD17
17	AKAP1	ENSG00000121057	ENST00000337714	protein_coding	KNOWN	CCDS11594	367	2712	903	55162551	55198710	1	PRKA1	AKAP121, AKAP149, SAKAP84, S-AKAP84, AKAP84, D-AKAP1, PPP1R43, TDRD17
17	AKAP1	ENSG00000121057	ENST00000571629	protein_coding	KNOWN	CCDS11594	367	2712	903	55163075	55197736	1	PRKA1	AKAP121, AKAP149, SAKAP84, S-AKAP84, AKAP84, D-AKAP1, PPP1R43, TDRD17
17	AKAP1	ENSG00000121057	ENST00000570423	protein_coding	KNOWN	None	367	21	6	55163078	55182846	1	PRKA1	AKAP121, AKAP149, SAKAP84, S-AKAP84, AKAP84, D-AKAP1, PPP1R43, TDRD17
17	AKAP1	ENSG00000121057	ENST00000575186	protein_coding	KNOWN	None	367	23	6	55163078	55182848	1	PRKA1	AKAP121, AKAP149, SAKAP84, S-AKAP84, AKAP84, D-AKAP1, PPP1R43, TDRD17
17	AKAP1	ENSG00000121057	ENST00000573085	protein_coding	KNOWN	None	367	141	46	55163117	55182966	1	PRKA1	AKAP121, AKAP149, SAKAP84, S-AKAP84, AKAP84, D-AKAP1, PPP1R43, TDRD17
17	AKAP1	ENSG00000121057	ENST00000572814	protein_coding	KNOWN	None	367	412	136	55163135	55183237	1	PRKA1	AKAP121, AKAP149, SAKAP84, S-AKAP84, AKAP84, D-AKAP1, PPP1R43, TDRD17
17	AKAP1	ENSG00000121057	ENST00000574683	protein_coding	KNOWN	None	367	285	94	55163620	55183110	1	PRKA1	AKAP121, AKAP149, SAKAP84, S-AKAP84, AKAP84, D-AKAP1, PPP1R43, TDRD17
17	AKAP1	ENSG00000121057	ENST00000572557	protein_coding	KNOWN	CCDS11594	367	2712	903	55173205	55197931	1	PRKA1	AKAP121, AKAP149, SAKAP84, S-AKAP84, AKAP84, D-AKAP1, PPP1R43, TDRD17
17	AKAP1	ENSG00000121057	ENST00000481416	nonsense_mediated_decay	KNOWN	None	367	1782	593	55173897	55198707	1	PRKA1	AKAP121, AKAP149, SAKAP84, S-AKAP84, AKAP84, D-AKAP1, PPP1R43, TDRD17
17	AKAP1	ENSG00000121057	ENST00000539273	protein_coding	KNOWN	CCDS11594	367	2712	903	55173939	55197916	1	PRKA1	AKAP121, AKAP149, SAKAP84, S-AKAP84, AKAP84, D-AKAP1, PPP1R43, TDRD17
17	AKAP1	ENSG00000121057	ENST00000576591	protein_coding	KNOWN	None	367	249	82	55173970	55183074	1	PRKA1	AKAP121, AKAP149, SAKAP84, S-AKAP84, AKAP84, D-AKAP1, PPP1R43, TDRD17
17	AKAP1	ENSG00000121057	ENST00000572156	protein_coding	KNOWN	None	367	548	181	55175798	55183373	1	PRKA1	AKAP121, AKAP149, SAKAP84, S-AKAP84, AKAP84, D-AKAP1, PPP1R43, TDRD17
17	AKAP1	ENSG00000121057	ENST00000576295	protein_coding	NOVEL	None	367	614	203	55183384	55189196	1	PRKA1	AKAP121, AKAP149, SAKAP84, S-AKAP84, AKAP84, D-AKAP1, PPP1R43, TDRD17
17	AKAP1	ENSG00000121057	ENST00000573326	nonsense_mediated_decay	KNOWN	None	367	1083	360	55184080	55197958	1	PRKA1	AKAP121, AKAP149, SAKAP84, S-AKAP84, AKAP84, D-AKAP1, PPP1R43, TDRD17
17	AKAP1	ENSG00000121057	ENST00000575032	protein_coding	PUTATIVE	None	367	540	179	55191850	55198705	1	PRKA1	AKAP121, AKAP149, SAKAP84, S-AKAP84, AKAP84, D-AKAP1, PPP1R43, TDRD17
17	AKAP1	ENSG00000121057	ENST00000572560	protein_coding	PUTATIVE	None	367	418	138	55193494	55198703	1	PRKA1	AKAP121, AKAP149, SAKAP84, S-AKAP84, AKAP84, D-AKAP1, PPP1R43, TDRD17
17	AKAP1	ENSG00000121057	ENST00000314126	protein_coding	KNOWN	None	367	1782	593	55162553	55185374	1	PRKA1	AKAP121, AKAP149, SAKAP84, S-AKAP84, AKAP84, D-AKAP1, PPP1R43, TDRD17
9	None	ENSG00000231379	ENST00000451714	unprocessed_pseudogene	KNOWN	None	None	None	None	65696702	65725786	-1	None	None
5	C5orf42	ENSG00000197603	ENST00000508244	protein_coding	KNOWN	CCDS34146	25801	9594	3197	37106330	37247894	-1	None	FLJ13231
5	C5orf42	ENSG00000197603	ENST00000509849	nonsense_mediated_decay	KNOWN	None	25801	5670	1889	37107080	37213724	-1	None	FLJ13231
5	C5orf42	ENSG00000197603	ENST00000514429	protein_coding	PUTATIVE	None	25801	6792	2263	37107080	37213724	-1	None	FLJ13231
5	C5orf42	ENSG00000197603	ENST00000512288	processed_transcript	KNOWN	None	25801	None	None	37120364	37142592	-1	None	FLJ13231
5	C5orf42	ENSG00000197603	ENST00000509957	retained_intron	KNOWN	None	25801	None	None	37124973	37158379	-1	None	FLJ13231
5	C5orf42	ENSG00000197603	ENST00000504716	retained_intron	KNOWN	None	25801	None	None	37138788	37139689	-1	None	FLJ13231
5	C5orf42	ENSG00000197603	ENST00000505121	retained_intron	KNOWN	None	25801	None	None	37138804	37142743	-1	None	FLJ13231
5	C5orf42	ENSG00000197603	ENST00000508405	processed_transcript	KNOWN	None	25801	None	None	37138891	37153946	-1	None	FLJ13231
5	C5orf42	ENSG00000197603	ENST00000511824	protein_coding	NOVEL	None	25801	1487	494	37153842	37169197	-1	None	FLJ13231
5	C5orf42	ENSG00000197603	ENST00000511210	processed_transcript	KNOWN	None	25801	None	None	37153963	37162601	-1	None	FLJ13231
5	C5orf42	ENSG00000197603	ENST00000515380	retained_intron	KNOWN	None	25801	None	None	37154007	37158034	-1	None	FLJ13231
5	C5orf42	ENSG00000197603	ENST00000510830	retained_intron	KNOWN	None	25801	None	None	37157770	37162756	-1	None	FLJ13231
5	C5orf42	ENSG00000197603	ENST00000511781	retained_intron	KNOWN	None	25801	None	None	37169634	37176201	-1	None	FLJ13231
5	C5orf42	ENSG00000197603	ENST00000505431	retained_intron	KNOWN	None	25801	None	None	37205296	37206484	-1	None	FLJ13231
5	C5orf42	ENSG00000197603	ENST00000425232	protein_coding	KNOWN	CCDS34146	25801	9594	3197	37106330	37249530	-1	None	FLJ13231
5	C5orf42	ENSG00000197603	ENST00000274258	protein_coding	KNOWN	None	25801	6288	2095	37106330	37249530	-1	None	FLJ13231
2	RHOQP3	ENSG00000230756	ENST00000437982	processed_pseudogene	KNOWN	None	37837	None	None	130970443	130971063	-1	None	None
14	IGHV7-40	ENSG00000253467	ENST00000520963	IG_V_pseudogene	KNOWN	None	5666	None	None	106881270	106881468	-1	None	None
2	None	ENSG00000235351	ENST00000435195	antisense	KNOWN	None	None	None	None	242664030	242665108	-1	None	None
15	None	ENSG00000258761	ENST00000557683	antisense	KNOWN	None	None	None	None	92706028	92715666	-1	None	None
15	None	ENSG00000259181	ENST00000560140	lincRNA	KNOWN	None	None	None	None	35285847	35295422	1	None	None
X	None	ENSG00000227873	ENST00000445666	processed_pseudogene	KNOWN	None	None	None	None	17787125	17787518	-1	None	None
2	None	ENSG00000213225	ENST00000452600	transcribed_processed_pseudogene	KNOWN	None	None	None	None	130986952	130989186	1	None	None
2	None	ENSG00000213225	ENST00000450578	processed_transcript	KNOWN	None	None	None	None	130988928	130989679	1	None	None
2	None	ENSG00000213225	ENST00000392970	processed_pseudogene	KNOWN	None	None	None	None	130986949	130988352	1	None	None
12	None	ENSG00000256969	ENST00000543206	lincRNA	KNOWN	None	None	None	None	4130143	4135824	1	None	None
12	None	ENSG00000256969	ENST00000536141	lincRNA	KNOWN	None	None	None	None	4135151	4135779	1	None	None
14	None	ENSG00000228757	ENST00000413798	unprocessed_pseudogene	KNOWN	None	None	None	None	106892325	106892465	-1	None	None
2	None	ENSG00000215692	ENST00000400768	antisense	KNOWN	None	None	None	None	242674130	242674913	-1	None	None
14	RBM8B	ENSG00000258427	ENST00000555532	processed_pseudogene	KNOWN	None	13426	None	None	60864475	60864999	1	None	None
15	DUXAP6	ENSG00000258726	ENST00000553858	processed_pseudogene	KNOWN	None	32185	None	None	92824714	92825314	1	None	None
X	None	ENSG00000225066	ENST00000418200	processed_pseudogene	KNOWN	None	None	None	None	17951469	17952943	1	None	None
3	None	ENSG00000271778	ENST00000606839	sense_intronic	KNOWN	None	None	None	None	158500336	158500913	1	None	None
2	None	ENSG00000234793	ENST00000417267	antisense	KNOWN	None	None	None	None	242694208	242695155	-1	None	None
HSCHR22_1_CTG2	APOBEC3B-AS1	ENSG00000262679	ENST00000572413	antisense	KNOWN	None	43836	None	None	39357616	39364275	-1	None	None
2	None	ENSG00000234398	ENST00000426461	unprocessed_pseudogene	KNOWN	None	None	None	None	131003544	131006343	1	None	None
4	None	ENSG00000248828	ENST00000506982	antisense	KNOWN	None	None	None	None	144874788	145047512	1	None	None
X	CXorf51A	ENSG00000224440	ENST00000458472	lincRNA	KNOWN	None	30533	None	None	145895624	145896244	-1	CXorf51	None
8	MIR937	ENSG00000216090	ENST00000401271	miRNA	KNOWN	None	33680	None	None	144895127	144895212	-1	MIRN937	hsa-mir-937
HSCHR6_MHC_SSTO	PBX2	ENSG00000224952	ENST00000433552	protein_coding	KNOWN	None	8633	1293	430	32159380	32164831	-1	None	G17, HOX12, PBX2MHC
HSCHR6_MHC_SSTO	PBX2	ENSG00000224952	ENST00000461053	retained_intron	KNOWN	None	8633	None	None	32160901	32162160	-1	None	G17, HOX12, PBX2MHC
HSCHR6_MHC_SSTO	PBX2	ENSG00000224952	ENST00000494630	retained_intron	KNOWN	None	8633	None	None	32161618	32164587	-1	None	G17, HOX12, PBX2MHC
HSCHR6_MHC_SSTO	PBX2	ENSG00000224952	ENST00000480009	retained_intron	KNOWN	None	8633	None	None	32161878	32163461	-1	None	G17, HOX12, PBX2MHC
HSCHR6_MHC_SSTO	PBX2	ENSG00000224952	ENST00000466640	retained_intron	KNOWN	None	8633	None	None	32162925	32163722	-1	None	G17, HOX12, PBX2MHC
HSCHR6_MHC_SSTO	PBX2	ENSG00000224952	ENST00000550227	protein_coding	KNOWN	None	8633	1332	443	32160347	32164601	-1	None	G17, HOX12, PBX2MHC
HSCHR6_MHC_SSTO	PBX2	ENSG00000224952	ENST00000548776	protein_coding	KNOWN	None	8633	1392	463	32160347	32164821	-1	None	G17, HOX12, PBX2MHC
HSCHR6_MHC_SSTO	PBX2	ENSG00000224952	ENST00000549969	protein_coding	KNOWN	None	8633	1317	438	32160347	32164821	-1	None	G17, HOX12, PBX2MHC
HG256_PATCH	RRAS2	ENSG00000262489	ENST00000574530	protein_coding	KNOWN	None	17271	384	127	14299511	14317406	-1	None	TC21
HG256_PATCH	RRAS2	ENSG00000262489	ENST00000572397	protein_coding	KNOWN	None	17271	384	127	14300229	14386053	-1	None	TC21
HG256_PATCH	RRAS2	ENSG00000262489	ENST00000572894	protein_coding	KNOWN	None	17271	615	204	14300297	14380731	-1	None	TC21
HG256_PATCH	RRAS2	ENSG00000262489	ENST00000573870	protein_coding	KNOWN	None	17271	384	127	14300486	14376047	-1	None	TC21
HG256_PATCH	RRAS2	ENSG00000262489	ENST00000571727	protein_coding	KNOWN	None	17271	384	127	14300650	14380032	-1	None	TC21
HG256_PATCH	RRAS2	ENSG00000262489	ENST00000572201	protein_coding	KNOWN	None	17271	384	127	14300657	14380032	-1	None	TC21
HG256_PATCH	RRAS2	ENSG00000262489	ENST00000575077	protein_coding	PUTATIVE	None	17271	498	165	14300944	14363641	-1	None	TC21
HG256_PATCH	RRAS2	ENSG00000262489	ENST00000571310	nonsense_mediated_decay	KNOWN	None	17271	144	47	14303149	14380694	-1	None	TC21
HG256_PATCH	RRAS2	ENSG00000262489	ENST00000574696	protein_coding	KNOWN	None	17271	208	68	14303237	14358713	-1	None	TC21
HG256_PATCH	RRAS2	ENSG00000262489	ENST00000571329	nonsense_mediated_decay	KNOWN	None	17271	159	52	14316007	14380702	-1	None	TC21
11	None	ENSG00000226645	ENST00000439104	antisense	KNOWN	None	None	None	None	116644105	116644921	1	None	None
3	None	ENSG00000264178	ENST00000582632	miRNA	NOVEL	None	None	None	None	30179739	30179806	1	None	None
7	None	ENSG00000227197	ENST00000453078	antisense	KNOWN	None	None	None	None	132515453	132534353	1	None	None
15	SNORD116-25	ENSG00000252326	ENST00000516517	snoRNA	KNOWN	None	33091	None	None	25342810	25342901	1	None	HBII-85-25
3	None	ENSG00000272247	ENST00000607044	antisense	KNOWN	None	None	None	None	158519046	158519724	-1	None	None
2	None	ENSG00000215023	ENST00000437438	antisense	KNOWN	None	None	None	None	242740331	242741322	-1	None	None
11	None	ENSG00000201867	ENST00000364997	misc_RNA	NOVEL	None	None	None	None	34210721	34210822	1	None	None
8	None	ENSG00000253997	ENST00000519012	processed_pseudogene	KNOWN	None	None	None	None	106002536	106002920	-1	None	None
14	RN7SL660P	ENSG00000265770	ENST00000577933	misc_RNA	KNOWN	None	46676	None	None	32911547	32911843	1	None	None
17	CRHR1-IT1	ENSG00000204650	ENST00000585118	processed_transcript	KNOWN	None	26327	None	None	43697694	43713760	1	C17orf69	FLJ25168
17	CRHR1-IT1	ENSG00000204650	ENST00000591271	processed_transcript	KNOWN	None	26327	None	None	43697706	43723557	1	C17orf69	FLJ25168
17	CRHR1-IT1	ENSG00000204650	ENST00000582491	retained_intron	KNOWN	None	26327	None	None	43697708	43707822	1	C17orf69	FLJ25168
17	CRHR1-IT1	ENSG00000204650	ENST00000583740	processed_transcript	KNOWN	None	26327	None	None	43697712	43707971	1	C17orf69	FLJ25168
17	CRHR1-IT1	ENSG00000204650	ENST00000585122	processed_transcript	KNOWN	None	26327	None	None	43697712	43713839	1	C17orf69	FLJ25168
17	CRHR1-IT1	ENSG00000204650	ENST00000455565	processed_transcript	KNOWN	None	26327	None	None	43697976	43715325	1	C17orf69	FLJ25168
17	CRHR1-IT1	ENSG00000204650	ENST00000580220	processed_transcript	KNOWN	None	26327	None	None	43699274	43713710	1	C17orf69	FLJ25168
17	CRHR1-IT1	ENSG00000204650	ENST00000444561	transcribed_unprocessed_pseudogene	KNOWN	None	26327	None	None	43710415	43713810	1	C17orf69	FLJ25168
17	CRHR1-IT1	ENSG00000204650	ENST00000586362	processed_transcript	KNOWN	None	26327	None	None	43714567	43723596	1	C17orf69	FLJ25168
17	CRHR1-IT1	ENSG00000204650	ENST00000578000	processed_transcript	KNOWN	None	26327	None	None	43716341	43719666	1	C17orf69	FLJ25168
17	CRHR1-IT1	ENSG00000204650	ENST00000585677	processed_transcript	KNOWN	None	26327	None	None	43716341	43723374	1	C17orf69	FLJ25168
17	CRHR1-IT1	ENSG00000204650	ENST00000592428	processed_transcript	KNOWN	None	26327	None	None	43716803	43723598	1	C17orf69	FLJ25168
17	CRHR1-IT1	ENSG00000204650	ENST00000580655	retained_intron	KNOWN	None	26327	None	None	43717728	43719669	1	C17orf69	FLJ25168
17	CRHR1-IT1	ENSG00000204650	ENST00000589868	processed_transcript	KNOWN	None	26327	None	None	43723037	43725582	1	C17orf69	FLJ25168
5	MGAT4B	ENSG00000161013	ENST00000518778	protein_coding	NOVEL	None	7048	1120	372	179224597	179228367	-1	None	GnT-Ivb
5	MGAT4B	ENSG00000161013	ENST00000337755	protein_coding	KNOWN	CCDS4449	7048	1692	563	179224597	179229998	-1	None	GnT-Ivb
5	MGAT4B	ENSG00000161013	ENST00000292591	protein_coding	KNOWN	CCDS4448	7048	1647	548	179224597	179233934	-1	None	GnT-Ivb
5	MGAT4B	ENSG00000161013	ENST00000519836	protein_coding	PUTATIVE	None	7048	1289	428	179224610	179228909	-1	None	GnT-Ivb
5	MGAT4B	ENSG00000161013	ENST00000520969	protein_coding	NOVEL	None	7048	722	239	179224671	179226636	-1	None	GnT-Ivb
5	MGAT4B	ENSG00000161013	ENST00000522293	processed_transcript	KNOWN	None	7048	None	None	179224884	179226576	-1	None	GnT-Ivb
5	MGAT4B	ENSG00000161013	ENST00000518980	protein_coding	PUTATIVE	None	7048	922	306	179224946	179227939	-1	None	GnT-Ivb
5	MGAT4B	ENSG00000161013	ENST00000522451	retained_intron	KNOWN	None	7048	None	None	179225106	179225835	-1	None	GnT-Ivb
5	MGAT4B	ENSG00000161013	ENST00000520875	protein_coding	NOVEL	None	7048	964	320	179225165	179227597	-1	None	GnT-Ivb
5	MGAT4B	ENSG00000161013	ENST00000523382	processed_transcript	KNOWN	None	7048	None	None	179225165	179228389	-1	None	GnT-Ivb
5	MGAT4B	ENSG00000161013	ENST00000518867	protein_coding	NOVEL	None	7048	732	243	179225407	179227945	-1	None	GnT-Ivb
5	MGAT4B	ENSG00000161013	ENST00000518702	retained_intron	KNOWN	None	7048	None	None	179226296	179227997	-1	None	GnT-Ivb
5	MGAT4B	ENSG00000161013	ENST00000520822	retained_intron	KNOWN	None	7048	None	None	179226506	179227589	-1	None	GnT-Ivb
5	MGAT4B	ENSG00000161013	ENST00000523108	protein_coding	PUTATIVE	None	7048	600	199	179226512	179233334	-1	None	GnT-Ivb
5	MGAT4B	ENSG00000161013	ENST00000521855	retained_intron	KNOWN	None	7048	None	None	179226724	179227431	-1	None	GnT-Ivb
5	MGAT4B	ENSG00000161013	ENST00000520918	nonsense_mediated_decay	KNOWN	None	7048	474	157	179226980	179229115	-1	None	GnT-Ivb
5	MGAT4B	ENSG00000161013	ENST00000521305	processed_transcript	KNOWN	None	7048	None	None	179227484	179230776	-1	None	GnT-Ivb
5	MGAT4B	ENSG00000161013	ENST00000523329	nonsense_mediated_decay	KNOWN	None	7048	451	149	179227938	179233554	-1	None	GnT-Ivb
5	MGAT4B	ENSG00000161013	ENST00000518168	retained_intron	KNOWN	None	7048	None	None	179228334	179233952	-1	None	GnT-Ivb
5	MGAT4B	ENSG00000161013	ENST00000520134	processed_transcript	KNOWN	None	7048	None	None	179228375	179233330	-1	None	GnT-Ivb
5	MGAT4B	ENSG00000161013	ENST00000519616	processed_transcript	PUTATIVE	None	7048	None	None	179228807	179233324	-1	None	GnT-Ivb
5	MGAT4B	ENSG00000161013	ENST00000520019	processed_transcript	PUTATIVE	None	7048	None	None	179229313	179233305	-1	None	GnT-Ivb
5	MGAT4B	ENSG00000161013	ENST00000519965	processed_transcript	PUTATIVE	None	7048	None	None	179229952	179232385	-1	None	GnT-Ivb
4	None	ENSG00000261129	ENST00000568324	lincRNA	KNOWN	None	None	None	None	145427052	145430153	1	None	None
11	None	ENSG00000254708	ENST00000531489	processed_pseudogene	KNOWN	None	None	None	None	34356665	34357550	-1	None	None
11	None	ENSG00000231611	ENST00000366405	lincRNA	KNOWN	None	None	None	None	116645826	116646592	-1	None	None
7	None	ENSG00000223838	ENST00000412563	lincRNA	KNOWN	None	None	None	None	19393157	19618229	1	None	None
HSCHR21_2_CTG1_1	None	ENSG00000262704	ENST00000572180	snRNA	NOVEL	None	None	None	None	23577511	23577651	1	None	None
14	None	ENSG00000259045	ENST00000554243	unprocessed_pseudogene	KNOWN	None	None	None	None	32953304	32954006	-1	None	None
15	None	ENSG00000259587	ENST00000560683	lincRNA	KNOWN	None	None	None	None	35300670	35303392	1	None	None
X	HMGN1P37	ENSG00000229237	ENST00000413805	processed_pseudogene	KNOWN	None	39421	None	None	154045374	154045676	-1	None	None
HSCHR18_2_CTG2	None	ENSG00000263322	ENST00000575446	lincRNA	KNOWN	None	None	None	None	65218480	65221652	-1	None	None
3	None	ENSG00000266546	ENST00000580690	miRNA	NOVEL	None	None	None	None	30180451	30180524	-1	None	None
11	None	ENSG00000269463	ENST00000596971	sense_intronic	KNOWN	None	None	None	None	62575154	62575535	-1	None	None
8	DEFA5	ENSG00000164816	ENST00000330590	protein_coding	KNOWN	CCDS5963	2764	285	94	6912831	6914256	-1	DEF5	HD-5
2	None	ENSG00000224272	ENST00000413820	antisense	KNOWN	None	None	None	None	242749407	242751732	-1	None	None
2	None	ENSG00000224272	ENST00000439270	antisense	KNOWN	None	None	None	None	242750205	242751718	-1	None	None
2	None	ENSG00000224272	ENST00000420272	antisense	KNOWN	None	None	None	None	242750793	242753111	-1	None	None
3	GPR79	ENSG00000232374	ENST00000498175	processed_pseudogene	KNOWN	None	4529	None	None	158558882	158559749	-1	None	GPR79P
3	GPR79	ENSG00000232374	ENST00000596453	processed_pseudogene	KNOWN	None	4529	None	None	158558788	158559873	-1	None	GPR79P
5	ATG12	ENSG00000145782	ENST00000509910	protein_coding	KNOWN	CCDS4122	588	423	140	115163897	115177555	-1	APG12L	APG12
5	ATG12	ENSG00000145782	ENST00000505252	retained_intron	KNOWN	None	588	None	None	115166038	115170049	-1	APG12L	APG12
5	ATG12	ENSG00000145782	ENST00000500945	protein_coding	KNOWN	None	588	225	74	115166370	115177262	-1	APG12L	APG12
5	ATG12	ENSG00000145782	ENST00000507793	retained_intron	KNOWN	None	588	None	None	115166972	115169363	-1	APG12L	APG12
5	ATG12	ENSG00000145782	ENST00000513292	processed_transcript	KNOWN	None	588	None	None	115167176	115170858	-1	APG12L	APG12
5	ATG12	ENSG00000145782	ENST00000508464	retained_intron	KNOWN	None	588	None	None	115167185	115174009	-1	APG12L	APG12
5	ATG12	ENSG00000145782	ENST00000513322	nonsense_mediated_decay	KNOWN	None	588	171	56	115167209	115177520	-1	APG12L	APG12
5	ATG12	ENSG00000145782	ENST00000511984	retained_intron	KNOWN	None	588	None	None	115167211	115173478	-1	APG12L	APG12
5	ATG12	ENSG00000145782	ENST00000379594	nonsense_mediated_decay	KNOWN	None	588	228	75	115167243	115177534	-1	APG12L	APG12
5	ATG12	ENSG00000145782	ENST00000509598	processed_transcript	KNOWN	None	588	None	None	115167279	115175191	-1	APG12L	APG12
5	ATG12	ENSG00000145782	ENST00000505993	nonsense_mediated_decay	KNOWN	None	588	199	65	115167281	115177262	-1	APG12L	APG12
5	ATG12	ENSG00000145782	ENST00000513167	nonsense_mediated_decay	KNOWN	None	588	178	58	115167417	115177241	-1	APG12L	APG12
5	ATG12	ENSG00000145782	ENST00000514775	processed_transcript	PUTATIVE	None	588	None	None	115176249	115177256	-1	APG12L	APG12
5	ATG12	ENSG00000145782	ENST00000274459	protein_coding	KNOWN	None	588	564	187	115163893	115177548	-1	APG12L	APG12
15	SNORD116-26	ENSG00000251815	ENST00000516006	snoRNA	KNOWN	None	33092	None	None	25344646	25344741	1	None	HBII-85-26
3	None	ENSG00000199927	ENST00000363057	snoRNA	NOVEL	None	None	None	None	30345813	30346027	-1	None	None
4	KRT18P51	ENSG00000250504	ENST00000504966	processed_pseudogene	KNOWN	None	33421	None	None	145493390	145494135	1	None	None
2	MED15P5	ENSG00000236595	ENST00000423150	processed_pseudogene	KNOWN	None	48654	None	None	131009141	131010132	1	None	None
19	UQCR11	ENSG00000127540	ENST00000591899	protein_coding	KNOWN	CCDS12073	30862	171	56	1597171	1605480	-1	UQCR	QCR10
19	UQCR11	ENSG00000127540	ENST00000593264	processed_transcript	KNOWN	None	30862	None	None	1598048	1602128	-1	UQCR	QCR10
19	UQCR11	ENSG00000127540	ENST00000589880	protein_coding	KNOWN	CCDS12073	30862	171	56	1598048	1605435	-1	UQCR	QCR10
19	UQCR11	ENSG00000127540	ENST00000593029	processed_transcript	KNOWN	None	30862	None	None	1598048	1605442	-1	UQCR	QCR10
19	UQCR11	ENSG00000127540	ENST00000585671	protein_coding	KNOWN	CCDS12073	30862	171	56	1598920	1605471	-1	UQCR	QCR10
8	None	ENSG00000253112	ENST00000522640	antisense	KNOWN	None	None	None	None	30454431	30455049	1	None	None
14	None	ENSG00000265244	ENST00000583762	miRNA	NOVEL	None	None	None	None	34446516	34446597	-1	None	None
HG990_PATCH	FAM101B	ENSG00000261321	ENST00000566692	protein_coding	KNOWN	None	28705	435	144	289769	295730	-1	None	MGC45871
11	None	ENSG00000220204	ENST00000405210	processed_pseudogene	KNOWN	None	None	None	None	34426210	34426496	-1	None	None
9	None	ENSG00000233022	ENST00000448485	lincRNA	KNOWN	None	None	None	None	65880533	65883885	-1	None	None
7	RSBN1L	ENSG00000187257	ENST00000334955	protein_coding	KNOWN	CCDS43607	24765	2541	846	77325760	77409008	1	None	FLJ42526, FLJ45813, MGC71764
7	RSBN1L	ENSG00000187257	ENST00000445288	protein_coding	KNOWN	None	24765	1731	576	77326468	77408999	1	None	FLJ42526, FLJ45813, MGC71764
7	RSBN1L	ENSG00000187257	ENST00000445512	protein_coding	PUTATIVE	None	24765	598	198	77388912	77407928	1	None	FLJ42526, FLJ45813, MGC71764
7	RSBN1L	ENSG00000187257	ENST00000468035	retained_intron	KNOWN	None	24765	None	None	77394808	77402763	1	None	FLJ42526, FLJ45813, MGC71764
7	RSBN1L	ENSG00000187257	ENST00000462800	retained_intron	KNOWN	None	24765	None	None	77397672	77402670	1	None	FLJ42526, FLJ45813, MGC71764
7	RSBN1L	ENSG00000187257	ENST00000441514	protein_coding	PUTATIVE	None	24765	534	177	77397978	77408135	1	None	FLJ42526, FLJ45813, MGC71764
X	SH3BGRL	ENSG00000131171	ENST00000373212	protein_coding	KNOWN	CCDS14449	10823	345	114	80457442	80554046	1	None	MGC117402
X	SH3BGRL	ENSG00000131171	ENST00000481106	processed_transcript	KNOWN	None	10823	None	None	80457627	80553096	1	None	MGC117402
X	SH3BGRL	ENSG00000131171	ENST00000463546	processed_transcript	KNOWN	None	10823	None	None	80458129	80553090	1	None	MGC117402
X	SH3BGRL	ENSG00000131171	ENST00000474113	processed_transcript	KNOWN	None	10823	None	None	80510993	80553015	1	None	MGC117402
14	None	ENSG00000270576	ENST00000604337	processed_pseudogene	KNOWN	None	None	None	None	74307223	74307312	-1	None	None
15	SNORD116-27	ENSG00000251896	ENST00000516087	snoRNA	KNOWN	None	33093	None	None	25346722	25346813	1	None	HBII-85-27
15	UBE2Q2P2	ENSG00000225273	ENST00000420908	processed_transcript	KNOWN	None	37440	None	None	82647360	82706943	1	UBE2QP2	None
15	UBE2Q2P2	ENSG00000225273	ENST00000560795	transcribed_unprocessed_pseudogene	KNOWN	None	37440	None	None	82684055	82712277	1	UBE2QP2	None
15	UBE2Q2P2	ENSG00000225273	ENST00000560062	processed_transcript	KNOWN	None	37440	None	None	82706886	82708217	1	UBE2QP2	None
15	UBE2Q2P2	ENSG00000225273	ENST00000558037	processed_transcript	KNOWN	None	37440	None	None	82707732	82711596	1	UBE2QP2	None
12	None	ENSG00000263449	ENST00000585055	miRNA	NOVEL	None	None	None	None	86041031	86041098	-1	None	None
20	CDC25B	ENSG00000101224	ENST00000467519	processed_transcript	KNOWN	None	1726	None	None	3776386	3785884	1	None	None
20	CDC25B	ENSG00000101224	ENST00000245960	protein_coding	KNOWN	CCDS13067	1726	1743	580	3776482	3786762	1	None	None
20	CDC25B	ENSG00000101224	ENST00000439880	protein_coding	KNOWN	CCDS13065	1726	1701	566	3776938	3786762	1	None	None
20	CDC25B	ENSG00000101224	ENST00000340833	protein_coding	KNOWN	CCDS13066	1726	1620	539	3777078	3785865	1	None	None
20	CDC25B	ENSG00000101224	ENST00000480816	processed_transcript	KNOWN	None	1726	None	None	3781718	3784104	1	None	None
20	CDC25B	ENSG00000101224	ENST00000468979	processed_transcript	KNOWN	None	1726	None	None	3782299	3783822	1	None	None
20	CDC25B	ENSG00000101224	ENST00000495915	processed_transcript	KNOWN	None	1726	None	None	3783416	3784080	1	None	None
20	CDC25B	ENSG00000101224	ENST00000344256	protein_coding	KNOWN	None	1726	1551	516	3767578	3786147	1	None	None
20	CDC25B	ENSG00000101224	ENST00000379598	protein_coding	KNOWN	None	1726	1470	489	3767614	3785729	1	None	None
11	RNU6-118P	ENSG00000252361	ENST00000516552	snRNA	KNOWN	None	47081	None	None	62583438	62583539	-1	None	None
14	GNRHR2P1	ENSG00000259169	ENST00000555315	unprocessed_pseudogene	KNOWN	None	39424	None	None	60865652	60866731	-1	None	None
11	None	ENSG00000236267	ENST00000457746	antisense	KNOWN	None	None	None	None	116683920	116684719	-1	None	None
9	ALAD	ENSG00000148218	ENST00000409155	protein_coding	KNOWN	CCDS6794	395	993	330	116148597	116163613	-1	None	ALADH, PBGS
9	ALAD	ENSG00000148218	ENST00000482847	retained_intron	KNOWN	None	395	None	None	116148599	116163523	-1	None	ALADH, PBGS
9	ALAD	ENSG00000148218	ENST00000468504	retained_intron	KNOWN	None	395	None	None	116152071	116163538	-1	None	ALADH, PBGS
9	ALAD	ENSG00000148218	ENST00000464749	retained_intron	KNOWN	None	395	None	None	116152908	116163564	-1	None	ALADH, PBGS
9	ALAD	ENSG00000148218	ENST00000448137	protein_coding	KNOWN	None	395	362	119	116153140	116163570	-1	None	ALADH, PBGS
9	ALAD	ENSG00000148218	ENST00000482001	processed_transcript	KNOWN	None	395	None	None	116153186	116154835	-1	None	ALADH, PBGS
9	ALAD	ENSG00000148218	ENST00000452726	protein_coding	KNOWN	None	395	178	58	116154412	116159682	-1	None	ALADH, PBGS
9	ALAD	ENSG00000148218	ENST00000494848	retained_intron	KNOWN	None	395	None	None	116155441	116163564	-1	None	ALADH, PBGS
9	ALAD	ENSG00000148218	ENST00000445750	protein_coding	KNOWN	None	395	42	13	116155825	116159155	-1	None	ALADH, PBGS
9	ALAD	ENSG00000148218	ENST00000277315	protein_coding	KNOWN	None	395	942	313	116150455	116163400	-1	None	ALADH, PBGS
11	SBF2-AS1	ENSG00000246273	ENST00000498905	antisense	KNOWN	None	27438	None	None	9779839	9832866	1	None	None
11	SBF2-AS1	ENSG00000246273	ENST00000527406	antisense	KNOWN	None	27438	None	None	9779841	9802378	1	None	None
11	SBF2-AS1	ENSG00000246273	ENST00000499953	antisense	KNOWN	None	27438	None	None	9779843	9812791	1	None	None
11	SBF2-AS1	ENSG00000246273	ENST00000525636	antisense	KNOWN	None	27438	None	None	9797192	9829585	1	None	None
11	SBF2-AS1	ENSG00000246273	ENST00000534671	antisense	KNOWN	None	27438	None	None	9797278	9829926	1	None	None
11	SBF2-AS1	ENSG00000246273	ENST00000526617	antisense	KNOWN	None	27438	None	None	9806698	9812784	1	None	None
14	None	ENSG00000258897	ENST00000555922	antisense	KNOWN	None	None	None	None	34509303	34528506	1	None	None
11	RN7SL119P	ENSG00000264442	ENST00000577689	misc_RNA	KNOWN	None	46135	None	None	62584302	62584561	-1	None	None
17	ASB16	ENSG00000161664	ENST00000591700	protein_coding	PUTATIVE	None	19768	213	70	42247815	42249577	1	None	FLJ30165
17	ASB16	ENSG00000161664	ENST00000293414	protein_coding	KNOWN	CCDS11478	19768	1362	453	42248074	42256451	1	None	FLJ30165
17	ASB16	ENSG00000161664	ENST00000589618	nonsense_mediated_decay	KNOWN	None	19768	822	273	42248092	42256363	1	None	FLJ30165
8	None	ENSG00000253802	ENST00000521363	lincRNA	KNOWN	None	None	None	None	40156260	40168780	-1	None	None
8	None	ENSG00000253802	ENST00000522486	lincRNA	KNOWN	None	None	None	None	40156594	40200921	-1	None	None
8	None	ENSG00000253802	ENST00000521030	lincRNA	KNOWN	None	None	None	None	40190692	40200882	-1	None	None
17	None	ENSG00000246731	ENST00000499670	antisense	KNOWN	None	None	None	None	72206119	72209460	-1	None	None
17	None	ENSG00000246731	ENST00000532794	antisense	KNOWN	None	None	None	None	72207625	72209481	-1	None	None
17	None	ENSG00000246731	ENST00000531617	antisense	KNOWN	None	None	None	None	72208813	72209447	-1	None	None
HG999_1_PATCH	AHCYP8	ENSG00000261495	ENST00000567846	processed_pseudogene	KNOWN	None	45000	None	None	248885294	248885502	-1	None	None
15	None	ENSG00000259665	ENST00000558497	processed_pseudogene	KNOWN	None	None	None	None	35373345	35373714	1	None	None
11	None	ENSG00000256690	ENST00000535817	antisense	KNOWN	None	None	None	None	62599706	62601515	1	None	None
11	None	ENSG00000256690	ENST00000535867	antisense	KNOWN	None	None	None	None	62600407	62601391	1	None	None
12	None	ENSG00000258206	ENST00000549998	processed_pseudogene	KNOWN	None	None	None	None	86175670	86176222	-1	None	None
3	None	ENSG00000227260	ENST00000450746	lincRNA	KNOWN	None	None	None	None	30566237	30568677	1	None	None
4	HHIP-AS1	ENSG00000248890	ENST00000508269	antisense	KNOWN	None	44182	None	None	145564074	145567139	-1	None	None
4	HHIP-AS1	ENSG00000248890	ENST00000503066	antisense	KNOWN	None	44182	None	None	145564376	145567064	-1	None	None
4	HHIP-AS1	ENSG00000248890	ENST00000512359	antisense	KNOWN	None	44182	None	None	145564524	145582509	-1	None	None
7	MIR3146	ENSG00000265932	ENST00000580367	miRNA	KNOWN	None	38368	None	None	19744981	19745059	-1	None	hsa-mir-3146
15	SNORD116-29	ENSG00000207245	ENST00000384516	snoRNA	KNOWN	None	33348	None	None	25351668	25351750	1	None	HBII-85-29
X	None	ENSG00000212321	ENST00000391019	snoRNA	NOVEL	None	None	None	None	121974279	121974497	1	None	None
8	RNU5A-3P	ENSG00000254172	ENST00000522581	sense_intronic	KNOWN	None	42519	None	None	30501206	30501319	1	None	None
2	None	ENSG00000235151	ENST00000442867	antisense	KNOWN	None	None	None	None	242786532	242787188	1	None	None
12	HOXC-AS1	ENSG00000250451	ENST00000512427	antisense	KNOWN	None	43749	None	None	54392806	54393404	-1	None	None
12	HOXC-AS1	ENSG00000250451	ENST00000505700	antisense	KNOWN	None	43749	None	None	54392806	54393794	-1	None	None
3	MIR3919	ENSG00000263634	ENST00000583286	miRNA	KNOWN	None	38890	None	None	159000435	159000523	1	None	hsa-mir-3919
12	HSPA8P5	ENSG00000256356	ENST00000456928	processed_pseudogene	KNOWN	None	44920	None	None	4206617	4208685	1	None	None
2	RNF181	ENSG00000168894	ENST00000461845	retained_intron	KNOWN	None	28037	None	None	85822848	85824139	1	None	HSPC238
2	RNF181	ENSG00000168894	ENST00000441634	protein_coding	PUTATIVE	None	28037	420	139	85822848	85824704	1	None	HSPC238
2	RNF181	ENSG00000168894	ENST00000306368	protein_coding	KNOWN	CCDS1981	28037	462	153	85822857	85824704	1	None	HSPC238
2	RNF181	ENSG00000168894	ENST00000414390	protein_coding	NOVEL	None	28037	311	102	85822871	85823943	1	None	HSPC238
2	RNF181	ENSG00000168894	ENST00000443647	nonsense_mediated_decay	KNOWN	None	28037	237	78	85822879	85824727	1	None	HSPC238
2	RNF181	ENSG00000168894	ENST00000456023	protein_coding	PUTATIVE	None	28037	511	169	85822940	85824736	1	None	HSPC238
11	RNU2-2P	ENSG00000222328	ENST00000410396	snRNA	KNOWN	None	10152	None	None	62609091	62609281	-1	RNU2B, RNU2-2	U2
14	None	ENSG00000223593	ENST00000422524	processed_pseudogene	KNOWN	None	None	None	None	34885893	34886808	-1	None	None
HG536_PATCH	FGF3	ENSG00000261155	ENST00000569169	protein_coding	KNOWN	None	3681	720	239	69624992	69633792	-1	INT2	HBGF-3
HSCHR21_2_CTG1_1	None	ENSG00000262476	ENST00000573610	lincRNA	KNOWN	None	None	None	None	23582258	23799841	1	None	None
11	None	ENSG00000235910	ENST00000444200	antisense	KNOWN	None	None	None	None	116706833	116726445	1	None	None
14	SALL4P7	ENSG00000258692	ENST00000555779	transcribed_processed_pseudogene	KNOWN	None	43900	None	None	60960484	60963603	-1	None	None
17	None	ENSG00000264272	ENST00000583018	antisense	KNOWN	None	None	None	None	72253035	72258159	-1	None	None
19	GPX4	ENSG00000167468	ENST00000354171	protein_coding	KNOWN	CCDS42457	4556	594	197	1103936	1106778	1	None	PHGPx, MCSP
19	GPX4	ENSG00000167468	ENST00000589115	protein_coding	PUTATIVE	None	4556	543	180	1104007	1106786	1	None	PHGPx, MCSP
19	GPX4	ENSG00000167468	ENST00000593032	protein_coding	NOVEL	None	4556	582	193	1104067	1106442	1	None	PHGPx, MCSP
19	GPX4	ENSG00000167468	ENST00000588919	protein_coding	NOVEL	None	4556	781	259	1104072	1106787	1	None	PHGPx, MCSP
19	GPX4	ENSG00000167468	ENST00000585362	protein_coding	PUTATIVE	None	4556	435	144	1104415	1105509	1	None	PHGPx, MCSP
19	GPX4	ENSG00000167468	ENST00000587648	protein_coding	PUTATIVE	None	4556	466	154	1105110	1106563	1	None	PHGPx, MCSP
19	GPX4	ENSG00000167468	ENST00000592940	retained_intron	KNOWN	None	4556	None	None	1105184	1106787	1	None	PHGPx, MCSP
19	GPX4	ENSG00000167468	ENST00000585480	non_stop_decay	KNOWN	None	4556	501	166	1105453	1106778	1	None	PHGPx, MCSP
19	GPX4	ENSG00000167468	ENST00000587932	retained_intron	KNOWN	None	4556	None	None	1105584	1105847	1	None	PHGPx, MCSP
12	None	ENSG00000258178	ENST00000547033	lincRNA	KNOWN	None	None	None	None	86352465	86354725	1	None	None
HSCHR6_MHC_COX	None	ENSG00000229653	ENST00000414171	processed_transcript	KNOWN	None	None	None	None	29977075	30019319	-1	None	None
HSCHR6_MHC_COX	None	ENSG00000229653	ENST00000439223	processed_transcript	KNOWN	None	None	None	None	29993067	30018868	-1	None	None
HSCHR6_MHC_COX	None	ENSG00000229653	ENST00000429571	processed_transcript	KNOWN	None	None	None	None	30014432	30018658	-1	None	None
HSCHR6_MHC_COX	None	ENSG00000229653	ENST00000454966	processed_transcript	KNOWN	None	None	None	None	29958301	30018863	-1	None	None
HSCHR6_MHC_COX	None	ENSG00000229653	ENST00000458335	processed_transcript	KNOWN	None	None	None	None	30012280	30018858	-1	None	None
HSCHR6_MHC_COX	None	ENSG00000229653	ENST00000420528	processed_transcript	KNOWN	None	None	None	None	29958301	30018823	-1	None	None
HSCHR6_MHC_COX	None	ENSG00000229653	ENST00000430880	processed_transcript	KNOWN	None	None	None	None	29958301	30018822	-1	None	None
HSCHR6_MHC_COX	None	ENSG00000229653	ENST00000448941	processed_transcript	KNOWN	None	None	None	None	29969386	29992652	-1	None	None
HSCHR6_MHC_COX	None	ENSG00000229653	ENST00000419584	processed_transcript	KNOWN	None	None	None	None	29958301	30018607	-1	None	None
HSCHR6_MHC_COX	None	ENSG00000229653	ENST00000443618	processed_transcript	KNOWN	None	None	None	None	29992572	30016426	-1	None	None
17	None	ENSG00000266106	ENST00000585167	processed_transcript	KNOWN	None	None	None	None	72303349	72305929	-1	None	None
2	None	ENSG00000233806	ENST00000430555	antisense	KNOWN	None	None	None	None	242823514	242908591	1	None	None
2	None	ENSG00000233806	ENST00000415434	antisense	KNOWN	None	None	None	None	242823517	243020873	1	None	None
2	None	ENSG00000233806	ENST00000457686	antisense	KNOWN	None	None	None	None	242823518	242908479	1	None	None
2	None	ENSG00000233806	ENST00000429947	antisense	KNOWN	None	None	None	None	242824099	242901084	1	None	None
2	None	ENSG00000233806	ENST00000439601	antisense	KNOWN	None	None	None	None	242875987	242908271	1	None	None
7	None	ENSG00000221576	ENST00000408649	miRNA	NOVEL	None	None	None	None	19759011	19759074	1	None	None
1	MCOLN3	ENSG00000055732	ENST00000370589	protein_coding	KNOWN	CCDS701	13358	1662	553	85483765	85514129	-1	None	TRPML3, FLJ11006, TRP-ML3
1	MCOLN3	ENSG00000055732	ENST00000474447	processed_transcript	KNOWN	None	13358	None	None	85483766	85489203	-1	None	TRPML3, FLJ11006, TRP-ML3
1	MCOLN3	ENSG00000055732	ENST00000341115	protein_coding	KNOWN	CCDS58009	13358	1494	497	85484591	85514129	-1	None	TRPML3, FLJ11006, TRP-ML3
1	MCOLN3	ENSG00000055732	ENST00000370587	protein_coding	PUTATIVE	None	13358	966	321	85490224	85514153	-1	None	TRPML3, FLJ11006, TRP-ML3
1	MCOLN3	ENSG00000055732	ENST00000490600	nonsense_mediated_decay	KNOWN	None	13358	426	141	85490240	85514182	-1	None	TRPML3, FLJ11006, TRP-ML3
1	MCOLN3	ENSG00000055732	ENST00000475312	processed_transcript	KNOWN	None	13358	None	None	85490507	85495642	-1	None	TRPML3, FLJ11006, TRP-ML3
X	MRRFP1	ENSG00000224236	ENST00000435941	processed_pseudogene	KNOWN	None	35238	None	None	122249960	122251634	-1	MRRFP	None
X	MRRFP1	ENSG00000224236	ENST00000536016	processed_pseudogene	KNOWN	None	35238	None	None	122250821	122251609	-1	MRRFP	None
8	ZNF705G	ENSG00000215372	ENST00000400156	protein_coding	KNOWN	None	37134	903	300	7213039	7243080	-1	None	None
8	ZNF705G	ENSG00000215372	ENST00000400078	protein_coding	KNOWN	None	37134	903	300	7215498	7220490	-1	None	None
14	None	ENSG00000223300	ENST00000411368	misc_RNA	NOVEL	None	None	None	None	74324764	74324868	-1	None	None
3	None	ENSG00000241439	ENST00000466506	processed_pseudogene	KNOWN	None	None	None	None	125677399	125677660	1	None	None
1	CDK11A	ENSG00000008128	ENST00000356200	protein_coding	PUTATIVE	None	1730	2241	746	1634169	1654270	-1	CDC2L3, CDC2L2	PITSLRE, CDK11-p110, CDK11-p58, CDK11-p46, p58GTA
1	CDK11A	ENSG00000008128	ENST00000463652	retained_intron	KNOWN	None	1730	None	None	1634205	1635692	-1	CDC2L3, CDC2L2	PITSLRE, CDK11-p110, CDK11-p58, CDK11-p46, p58GTA
1	CDK11A	ENSG00000008128	ENST00000356937	retained_intron	KNOWN	None	1730	None	None	1634320	1653094	-1	CDC2L3, CDC2L2	PITSLRE, CDK11-p110, CDK11-p58, CDK11-p46, p58GTA
1	CDK11A	ENSG00000008128	ENST00000378638	protein_coding	PUTATIVE	None	1730	2241	746	1634320	1654270	-1	CDC2L3, CDC2L2	PITSLRE, CDK11-p110, CDK11-p58, CDK11-p46, p58GTA
1	CDK11A	ENSG00000008128	ENST00000509982	nonsense_mediated_decay	KNOWN	None	1730	1263	420	1634320	1654271	-1	CDC2L3, CDC2L2	PITSLRE, CDK11-p110, CDK11-p58, CDK11-p46, p58GTA
1	CDK11A	ENSG00000008128	ENST00000404249	protein_coding	KNOWN	CCDS44042	1730	2343	780	1634320	1655763	-1	CDC2L3, CDC2L2	PITSLRE, CDK11-p110, CDK11-p58, CDK11-p46, p58GTA
1	CDK11A	ENSG00000008128	ENST00000460465	nonsense_mediated_decay	KNOWN	None	1730	1224	407	1634320	1655763	-1	CDC2L3, CDC2L2	PITSLRE, CDK11-p110, CDK11-p58, CDK11-p46, p58GTA
1	CDK11A	ENSG00000008128	ENST00000357760	protein_coding	KNOWN	None	1730	2340	779	1634320	1655763	-1	CDC2L3, CDC2L2	PITSLRE, CDK11-p110, CDK11-p58, CDK11-p46, p58GTA
1	CDK11A	ENSG00000008128	ENST00000358779	protein_coding	KNOWN	CCDS44043	1730	2313	770	1634320	1655763	-1	CDC2L3, CDC2L2	PITSLRE, CDK11-p110, CDK11-p58, CDK11-p46, p58GTA
1	CDK11A	ENSG00000008128	ENST00000378633	protein_coding	NOVEL	None	1730	2352	783	1634320	1655763	-1	CDC2L3, CDC2L2	PITSLRE, CDK11-p110, CDK11-p58, CDK11-p46, p58GTA
1	CDK11A	ENSG00000008128	ENST00000478901	retained_intron	KNOWN	None	1730	None	None	1634527	1635555	-1	CDC2L3, CDC2L2	PITSLRE, CDK11-p110, CDK11-p58, CDK11-p46, p58GTA
1	CDK11A	ENSG00000008128	ENST00000468397	retained_intron	KNOWN	None	1730	None	None	1634527	1635994	-1	CDC2L3, CDC2L2	PITSLRE, CDK11-p110, CDK11-p58, CDK11-p46, p58GTA
1	CDK11A	ENSG00000008128	ENST00000491311	retained_intron	KNOWN	None	1730	None	None	1635043	1636041	-1	CDC2L3, CDC2L2	PITSLRE, CDK11-p110, CDK11-p58, CDK11-p46, p58GTA
1	CDK11A	ENSG00000008128	ENST00000495016	processed_transcript	KNOWN	None	1730	None	None	1635307	1636024	-1	CDC2L3, CDC2L2	PITSLRE, CDK11-p110, CDK11-p58, CDK11-p46, p58GTA
1	CDK11A	ENSG00000008128	ENST00000468800	retained_intron	KNOWN	None	1730	None	None	1635488	1639000	-1	CDC2L3, CDC2L2	PITSLRE, CDK11-p110, CDK11-p58, CDK11-p46, p58GTA
1	CDK11A	ENSG00000008128	ENST00000464748	retained_intron	KNOWN	None	1730	None	None	1635538	1636199	-1	CDC2L3, CDC2L2	PITSLRE, CDK11-p110, CDK11-p58, CDK11-p46, p58GTA
1	CDK11A	ENSG00000008128	ENST00000489300	retained_intron	KNOWN	None	1730	None	None	1635682	1636463	-1	CDC2L3, CDC2L2	PITSLRE, CDK11-p110, CDK11-p58, CDK11-p46, p58GTA
1	CDK11A	ENSG00000008128	ENST00000492390	retained_intron	KNOWN	None	1730	None	None	1635789	1640315	-1	CDC2L3, CDC2L2	PITSLRE, CDK11-p110, CDK11-p58, CDK11-p46, p58GTA
1	CDK11A	ENSG00000008128	ENST00000474916	retained_intron	KNOWN	None	1730	None	None	1636047	1639670	-1	CDC2L3, CDC2L2	PITSLRE, CDK11-p110, CDK11-p58, CDK11-p46, p58GTA
1	CDK11A	ENSG00000008128	ENST00000479362	protein_coding	KNOWN	None	1730	454	150	1647789	1655471	-1	CDC2L3, CDC2L2	PITSLRE, CDK11-p110, CDK11-p58, CDK11-p46, p58GTA
1	CDK11A	ENSG00000008128	ENST00000498810	retained_intron	KNOWN	None	1730	None	None	1650605	1653318	-1	CDC2L3, CDC2L2	PITSLRE, CDK11-p110, CDK11-p58, CDK11-p46, p58GTA
1	CDK11A	ENSG00000008128	ENST00000487462	retained_intron	KNOWN	None	1730	None	None	1653905	1655458	-1	CDC2L3, CDC2L2	PITSLRE, CDK11-p110, CDK11-p58, CDK11-p46, p58GTA
1	CDK11A	ENSG00000008128	ENST00000401096	protein_coding	KNOWN	None	1730	111	36	1654147	1655713	-1	CDC2L3, CDC2L2	PITSLRE, CDK11-p110, CDK11-p58, CDK11-p46, p58GTA
1	CDK11A	ENSG00000008128	ENST00000378635	protein_coding	KNOWN	None	1730	699	232	1637078	1655766	-1	CDC2L3, CDC2L2	PITSLRE, CDK11-p110, CDK11-p58, CDK11-p46, p58GTA
3	None	ENSG00000244249	ENST00000462872	processed_pseudogene	KNOWN	None	None	None	None	159104545	159105229	-1	None	None
17	None	ENSG00000252785	ENST00000516976	miRNA	NOVEL	None	None	None	None	72303826	72303947	-1	None	None
3	FAM188B2	ENSG00000214237	ENST00000465419	protein_coding	NOVEL	None	35475	819	272	150588832	150608847	-1	C3orf76	None
3	FAM188B2	ENSG00000214237	ENST00000397891	protein_coding	KNOWN	None	35475	1071	356	150588832	150612089	-1	C3orf76	None
17	RNA5SP448	ENSG00000200021	ENST00000363151	rRNA	KNOWN	None	43348	None	None	72413733	72413843	-1	RN5S448	None
3	None	ENSG00000248607	ENST00000508263	antisense	KNOWN	None	None	None	None	125775766	125777071	1	None	None
14	None	ENSG00000258891	ENST00000554009	antisense	KNOWN	None	None	None	None	74362867	74389342	-1	None	None
14	None	ENSG00000258891	ENST00000555916	antisense	KNOWN	None	None	None	None	74379770	74404817	-1	None	None
HSCHR17_1_CTG4	KRT33A	ENSG00000261986	ENST00000576236	protein_coding	KNOWN	None	6450	1215	404	39502344	39507064	-1	KRTHA3A	Ha-3I, Krt1-3
11	SIK3-IT1	ENSG00000231865	ENST00000454832	sense_intronic	KNOWN	None	41495	None	None	116756762	116761437	-1	None	None
17	None	ENSG00000236770	ENST00000430386	unprocessed_pseudogene	KNOWN	None	None	None	None	72545538	72548876	-1	None	None
15	SNORD116-30	ENSG00000252277	ENST00000516468	snoRNA	KNOWN	None	42797	None	None	25353415	25353499	1	None	HBII-85-30
12	None	ENSG00000260597	ENST00000562848	lincRNA	KNOWN	None	None	None	None	54413694	54416373	1	None	None
7	None	ENSG00000237921	ENST00000418764	lincRNA	KNOWN	None	None	None	None	19853308	19857713	-1	None	None
14	None	ENSG00000237450	ENST00000470966	processed_pseudogene	KNOWN	None	None	None	None	34955185	34955653	1	None	None
14	None	ENSG00000237450	ENST00000601400	processed_pseudogene	KNOWN	None	None	None	None	34955185	34955649	1	None	None
3	None	ENSG00000265911	ENST00000581281	miRNA	NOVEL	None	None	None	None	125787907	125787990	1	None	None
3	None	ENSG00000243116	ENST00000485389	processed_pseudogene	KNOWN	None	None	None	None	159439313	159440190	-1	None	None
17	None	ENSG00000231027	ENST00000425002	unprocessed_pseudogene	KNOWN	None	None	None	None	72556855	72563482	-1	None	None
13	SACS	ENSG00000151835	ENST00000402364	protein_coding	KNOWN	None	10519	11490	3829	23902965	23949682	-1	None	ARSACS, KIAA0730, DKFZp686B15167, DNAJC29
13	SACS	ENSG00000151835	ENST00000382292	protein_coding	KNOWN	CCDS9300	10519	13740	4579	23902965	23985652	-1	None	ARSACS, KIAA0730, DKFZp686B15167, DNAJC29
13	SACS	ENSG00000151835	ENST00000455470	protein_coding	PUTATIVE	None	10519	2197	731	23902969	23942583	-1	None	ARSACS, KIAA0730, DKFZp686B15167, DNAJC29
13	SACS	ENSG00000151835	ENST00000423156	protein_coding	PUTATIVE	None	10519	1125	374	23902972	23929622	-1	None	ARSACS, KIAA0730, DKFZp686B15167, DNAJC29
13	SACS	ENSG00000151835	ENST00000476776	processed_transcript	PUTATIVE	None	10519	None	None	23927875	23929029	-1	None	ARSACS, KIAA0730, DKFZp686B15167, DNAJC29
13	SACS	ENSG00000151835	ENST00000382298	protein_coding	KNOWN	CCDS9300	10519	13740	4579	23902965	24007841	-1	None	ARSACS, KIAA0730, DKFZp686B15167, DNAJC29
3	None	ENSG00000227549	ENST00000431057	lincRNA	KNOWN	None	None	None	None	30566482	30567705	-1	None	None
3	None	ENSG00000250012	ENST00000511301	antisense	KNOWN	None	None	None	None	125803063	125804295	1	None	None
3	None	ENSG00000250012	ENST00000507924	antisense	KNOWN	None	None	None	None	125803170	125814192	1	None	None
X	MIR1184-1	ENSG00000221533	ENST00000408606	miRNA	KNOWN	None	35265	None	None	154115635	154115733	-1	MIRN1184, MIR1184	hsa-mir-1184
7	None	ENSG00000272393	ENST00000605893	snRNA	NOVEL	None	None	None	None	132767589	132767692	1	None	None
6	None	ENSG00000266330	ENST00000582442	miRNA	NOVEL	None	None	None	None	47430587	47430652	-1	None	None
5	SMAD5	ENSG00000113658	ENST00000514641	processed_transcript	KNOWN	None	6771	None	None	135468534	135518420	1	MADH5	Dwfc, JV5-1
5	SMAD5	ENSG00000113658	ENST00000507118	protein_coding	KNOWN	None	6771	384	127	135468536	135489833	1	MADH5	Dwfc, JV5-1
5	SMAD5	ENSG00000113658	ENST00000511116	protein_coding	KNOWN	None	6771	403	133	135468536	135489852	1	MADH5	Dwfc, JV5-1
5	SMAD5	ENSG00000113658	ENST00000514777	processed_transcript	KNOWN	None	6771	None	None	135468593	135513075	1	MADH5	Dwfc, JV5-1
5	SMAD5	ENSG00000113658	ENST00000509962	processed_transcript	KNOWN	None	6771	None	None	135468913	135489418	1	MADH5	Dwfc, JV5-1
5	SMAD5	ENSG00000113658	ENST00000509297	protein_coding	KNOWN	None	6771	3	0	135469042	135489452	1	MADH5	Dwfc, JV5-1
5	SMAD5	ENSG00000113658	ENST00000515005	protein_coding	KNOWN	None	6771	3	0	135469042	135489452	1	MADH5	Dwfc, JV5-1
5	SMAD5	ENSG00000113658	ENST00000506223	protein_coding	KNOWN	None	6771	242	79	135469512	135489691	1	MADH5	Dwfc, JV5-1
5	SMAD5	ENSG00000113658	ENST00000507245	retained_intron	KNOWN	None	6771	None	None	135483109	135489370	1	MADH5	Dwfc, JV5-1
5	SMAD5	ENSG00000113658	ENST00000507637	protein_coding	PUTATIVE	None	6771	523	173	135496675	135508518	1	MADH5	Dwfc, JV5-1
5	SMAD5	ENSG00000113658	ENST00000513418	nonsense_mediated_decay	KNOWN	None	6771	182	59	135510158	135524435	1	MADH5	Dwfc, JV5-1
5	SMAD5	ENSG00000113658	ENST00000545279	protein_coding	KNOWN	None	6771	1395	464	135468536	135518422	1	MADH5	Dwfc, JV5-1
5	SMAD5	ENSG00000113658	ENST00000545620	protein_coding	KNOWN	None	6771	1395	464	135468536	135518422	1	MADH5	Dwfc, JV5-1
GL000191.1	None	ENSG00000215699	ENST00000433682	protein_coding	KNOWN	None	None	498	165	36277	50281	-1	None	None
GL000191.1	None	ENSG00000215699	ENST00000374457	protein_coding	KNOWN	None	None	522	173	36277	50281	-1	None	None
GL000191.1	None	ENSG00000215699	ENST00000374449	protein_coding	KNOWN	None	None	789	262	38912	50281	-1	None	None
12	None	ENSG00000186076	ENST00000548270	processed_pseudogene	KNOWN	None	None	None	None	94034598	94035362	-1	None	None
12	None	ENSG00000186076	ENST00000397201	pseudogene	KNOWN	None	None	None	None	94034598	94035148	-1	None	None
7	None	ENSG00000237821	ENST00000421179	processed_pseudogene	KNOWN	None	None	None	None	132854174	132855272	-1	None	None
8	None	ENSG00000255343	ENST00000534006	3prime_overlapping_ncrna	KNOWN	None	None	None	None	144915440	144916233	-1	None	None
11	CIR1P3	ENSG00000216708	ENST00000405137	processed_pseudogene	KNOWN	None	44013	None	None	34452427	34453196	1	None	None
14	None	ENSG00000270140	ENST00000602874	sense_intronic	KNOWN	None	None	None	None	74371970	74372339	1	None	None
12	MIR615	ENSG00000207571	ENST00000384839	miRNA	KNOWN	None	32871	None	None	54427734	54427829	1	MIRN615	hsa-mir-615
17	HELZ	ENSG00000198265	ENST00000358691	protein_coding	KNOWN	CCDS42374	16878	5829	1942	65066554	65241299	-1	None	KIAA0054, HUMORF5, DHRC
17	HELZ	ENSG00000198265	ENST00000579953	nonsense_mediated_decay	KNOWN	None	16878	3492	1163	65074045	65235584	-1	None	KIAA0054, HUMORF5, DHRC
17	HELZ	ENSG00000198265	ENST00000580168	protein_coding	NOVEL	None	16878	5832	1943	65074088	65241299	-1	None	KIAA0054, HUMORF5, DHRC
17	HELZ	ENSG00000198265	ENST00000417253	non_stop_decay	KNOWN	None	16878	1701	566	65163642	65241303	-1	None	KIAA0054, HUMORF5, DHRC
17	HELZ	ENSG00000198265	ENST00000578783	protein_coding	NOVEL	None	16878	577	191	65163828	65184517	-1	None	KIAA0054, HUMORF5, DHRC
17	HELZ	ENSG00000198265	ENST00000578938	processed_transcript	KNOWN	None	16878	None	None	65172437	65184477	-1	None	KIAA0054, HUMORF5, DHRC
17	HELZ	ENSG00000198265	ENST00000582864	retained_intron	KNOWN	None	16878	None	None	65184334	65185730	-1	None	KIAA0054, HUMORF5, DHRC
17	HELZ	ENSG00000198265	ENST00000580662	processed_transcript	KNOWN	None	16878	None	None	65186305	65241294	-1	None	KIAA0054, HUMORF5, DHRC
17	HELZ	ENSG00000198265	ENST00000584641	retained_intron	KNOWN	None	16878	None	None	65196729	65241288	-1	None	KIAA0054, HUMORF5, DHRC
17	HELZ	ENSG00000198265	ENST00000581159	protein_coding	KNOWN	None	16878	311	102	65199496	65242105	-1	None	KIAA0054, HUMORF5, DHRC
17	HELZ	ENSG00000198265	ENST00000580963	retained_intron	KNOWN	None	16878	None	None	65211904	65241294	-1	None	KIAA0054, HUMORF5, DHRC
17	HELZ	ENSG00000198265	ENST00000579861	protein_coding	KNOWN	None	16878	197	64	65214724	65235916	-1	None	KIAA0054, HUMORF5, DHRC
10	ANXA8	ENSG00000165390	ENST00000357718	protein_coding	NOVEL	None	546	831	276	48255253	48271369	1	ANX8	None
10	ANXA8	ENSG00000165390	ENST00000602817	processed_transcript	KNOWN	None	546	None	None	48255279	48279200	1	ANX8	None
10	ANXA8	ENSG00000165390	ENST00000602354	retained_intron	KNOWN	None	546	None	None	48255300	48261706	1	ANX8	None
10	ANXA8	ENSG00000165390	ENST00000344416	protein_coding	KNOWN	CCDS31194	546	984	327	48255307	48271363	1	ANX8	None
10	ANXA8	ENSG00000165390	ENST00000535874	nonsense_mediated_decay	KNOWN	None	546	426	141	48255346	48270821	1	ANX8	None
10	ANXA8	ENSG00000165390	ENST00000602940	processed_transcript	KNOWN	None	546	None	None	48276679	48279171	1	ANX8	None
10	ANXA8	ENSG00000165390	ENST00000456111	protein_coding	KNOWN	None	546	798	265	48255353	48270820	1	ANX8	None
15	None	ENSG00000270523	ENST00000605703	sense_intronic	KNOWN	None	None	None	None	25376125	25376484	1	None	None
6	None	ENSG00000270761	ENST00000604014	lincRNA	KNOWN	None	None	None	None	47444979	47445308	-1	None	None
12	None	ENSG00000257897	ENST00000548429	processed_pseudogene	KNOWN	None	None	None	None	86409475	86410219	1	None	None
7	None	ENSG00000238844	ENST00000459021	miRNA	NOVEL	None	None	None	None	132947395	132947485	-1	None	None
15	NPM1P5	ENSG00000258925	ENST00000557228	processed_pseudogene	KNOWN	None	7925	None	None	92829071	92829908	1	NPMP5	NG5-4
1	NIT1	ENSG00000158793	ENST00000496768	processed_transcript	KNOWN	None	7828	None	None	161087876	161090022	1	None	None
1	NIT1	ENSG00000158793	ENST00000368009	protein_coding	KNOWN	CCDS1218	7828	984	327	161087891	161090857	1	None	None
1	NIT1	ENSG00000158793	ENST00000479266	processed_transcript	KNOWN	None	7828	None	None	161087895	161089742	1	None	None
1	NIT1	ENSG00000158793	ENST00000477684	processed_transcript	KNOWN	None	7828	None	None	161087902	161089687	1	None	None
1	NIT1	ENSG00000158793	ENST00000486962	processed_transcript	KNOWN	None	7828	None	None	161087904	161089401	1	None	None
1	NIT1	ENSG00000158793	ENST00000492411	processed_transcript	KNOWN	None	7828	None	None	161087908	161090022	1	None	None
1	NIT1	ENSG00000158793	ENST00000368008	protein_coding	KNOWN	CCDS53401	7828	732	243	161087908	161095235	1	None	None
1	NIT1	ENSG00000158793	ENST00000473918	processed_transcript	KNOWN	None	7828	None	None	161087915	161089031	1	None	None
1	NIT1	ENSG00000158793	ENST00000478277	processed_transcript	KNOWN	None	7828	None	None	161087930	161089097	1	None	None
1	NIT1	ENSG00000158793	ENST00000496861	processed_transcript	KNOWN	None	7828	None	None	161088010	161090358	1	None	None
1	NIT1	ENSG00000158793	ENST00000491497	processed_transcript	KNOWN	None	7828	None	None	161088171	161089706	1	None	None
1	NIT1	ENSG00000158793	ENST00000485594	processed_transcript	KNOWN	None	7828	None	None	161088576	161090594	1	None	None
1	NIT1	ENSG00000158793	ENST00000461376	processed_transcript	KNOWN	None	7828	None	None	161088698	161089733	1	None	None
1	NIT1	ENSG00000158793	ENST00000479728	processed_transcript	KNOWN	None	7828	None	None	161092097	161094601	1	None	None
1	NIT1	ENSG00000158793	ENST00000368007	protein_coding	KNOWN	CCDS53402	7828	939	312	161087907	161090983	1	None	None
1	NIT1	ENSG00000158793	ENST00000392190	protein_coding	KNOWN	CCDS53403	7828	876	291	161087908	161090983	1	None	None
15	None	ENSG00000212428	ENST00000391126	snoRNA	NOVEL	None	None	None	None	25404368	25404426	1	None	None
8	None	ENSG00000253354	ENST00000518722	lincRNA	KNOWN	None	None	None	None	40227547	40259367	1	None	None
7	None	ENSG00000235429	ENST00000419509	processed_pseudogene	KNOWN	None	None	None	None	132999763	133000167	-1	None	None
19	None	ENSG00000252356	ENST00000516547	snoRNA	NOVEL	None	None	None	None	42648206	42648277	-1	None	None
X	None	ENSG00000265082	ENST00000577653	miRNA	NOVEL	None	None	None	None	122598936	122599026	1	None	None
3	None	ENSG00000224618	ENST00000411661	processed_pseudogene	KNOWN	None	None	None	None	30667915	30668289	-1	None	None
11	None	ENSG00000264344	ENST00000584092	miRNA	NOVEL	None	None	None	None	116886146	116886245	-1	None	None
6	None	ENSG00000199762	ENST00000362892	misc_RNA	NOVEL	None	None	None	None	47456803	47456906	1	None	None
19	None	ENSG00000259436	ENST00000559786	antisense	KNOWN	None	None	None	None	42656721	42661675	1	None	None
X	None	ENSG00000224069	ENST00000419615	processed_pseudogene	KNOWN	None	None	None	None	154125836	154126367	-1	None	None
12	None	ENSG00000248265	ENST00000515617	lincRNA	KNOWN	None	None	None	None	54452038	54516018	1	None	None
15	None	ENSG00000270814	ENST00000604899	processed_pseudogene	KNOWN	None	None	None	None	25414484	25414823	-1	None	None
17	None	ENSG00000261222	ENST00000581412	lincRNA	KNOWN	None	None	None	None	72595979	72600408	1	None	None
17	None	ENSG00000261222	ENST00000569279	lincRNA	KNOWN	None	None	None	None	72599876	72603368	1	None	None
17	None	ENSG00000261222	ENST00000577560	lincRNA	KNOWN	None	None	None	None	72602646	72603330	1	None	None
14	None	ENSG00000199472	ENST00000362602	misc_RNA	NOVEL	None	None	None	None	74373019	74373130	-1	None	None
6	None	ENSG00000216813	ENST00000407698	processed_pseudogene	KNOWN	None	None	None	None	47530358	47530754	1	None	None
1	AKR7L	ENSG00000211454	ENST00000457194	polymorphic_pseudogene	KNOWN	None	24056	617	204	19592476	19600435	-1	None	AFAR3
1	AKR7L	ENSG00000211454	ENST00000429712	polymorphic_pseudogene	KNOWN	None	24056	996	331	19593597	19600688	-1	None	AFAR3
1	AKR7L	ENSG00000211454	ENST00000493176	retained_intron	KNOWN	None	24056	None	None	19597027	19597763	-1	None	AFAR3
1	AKR7L	ENSG00000211454	ENST00000420396	protein_coding	KNOWN	None	24056	462	153	19592478	19600568	-1	None	AFAR3
14	None	ENSG00000259002	ENST00000553697	processed_transcript	KNOWN	None	None	None	None	35011023	35011650	-1	None	None
8	None	ENSG00000264144	ENST00000585226	miRNA	NOVEL	None	None	None	None	144926240	144926325	1	None	None
8	None	ENSG00000272479	ENST00000606398	lincRNA	KNOWN	None	None	None	None	40377084	40377677	-1	None	None
1	CCDC27	ENSG00000162592	ENST00000294600	protein_coding	KNOWN	CCDS50	26546	1971	656	3668962	3688208	1	None	FLJ32825
1	CCDC27	ENSG00000162592	ENST00000462521	nonsense_mediated_decay	KNOWN	None	26546	609	202	3669009	3688209	1	None	FLJ32825
7	COX5BP3	ENSG00000235967	ENST00000454627	processed_pseudogene	KNOWN	None	2272	None	None	133412121	133412487	-1	COX5BL3	None
8	MIR661	ENSG00000207574	ENST00000384842	miRNA	KNOWN	None	32917	None	None	145019359	145019447	-1	MIRN661	hsa-mir-661
X	None	ENSG00000179101	ENST00000416267	processed_pseudogene	KNOWN	None	None	None	None	122648324	122648723	1	None	None
3	None	ENSG00000266001	ENST00000578447	miRNA	NOVEL	None	None	None	None	9467941	9468034	-1	None	None
19	None	ENSG00000265122	ENST00000583464	miRNA	NOVEL	None	None	None	None	42697230	42697281	1	None	None
3	ALDH1L1-AS1	ENSG00000250218	ENST00000512384	antisense	KNOWN	None	40244	None	None	125822483	125826912	1	None	None
15	None	ENSG00000239197	ENST00000458953	snoRNA	NOVEL	None	None	None	None	92960777	92960919	1	None	None
14	None	ENSG00000259114	ENST00000492026	processed_transcript	KNOWN	None	None	None	None	74498500	74549566	1	None	None
17	None	ENSG00000264659	ENST00000582959	antisense	KNOWN	None	None	None	None	72668851	72673739	-1	None	None
7	None	ENSG00000226205	ENST00000439081	processed_pseudogene	KNOWN	None	None	None	None	133417246	133418348	-1	None	None
8	DEFB4B	ENSG00000177257	ENST00000318157	protein_coding	KNOWN	CCDS55193	30193	195	64	7272382	7274385	-1	DEFB4P	None
6	RN7SKP116	ENSG00000252711	ENST00000516902	misc_RNA	KNOWN	None	45840	None	None	47683019	47683337	1	None	None
11	None	ENSG00000264667	ENST00000579311	miRNA	NOVEL	None	None	None	None	34505983	34506085	-1	None	None
X	GAGE10	ENSG00000215274	ENST00000407599	protein_coding	KNOWN	CCDS43938	30968	351	116	49160148	49176323	1	None	OTTHUMG00000024136
17	MIR3615	ENSG00000266036	ENST00000585285	antisense	KNOWN	None	38905	None	None	72743458	72745051	-1	None	hsa-mir-3615
3	None	ENSG00000269975	ENST00000602693	lincRNA	KNOWN	None	None	None	None	9540045	9541253	-1	None	None
15	SNORD115-1	ENSG00000201831	ENST00000364961	snoRNA	KNOWN	None	33020	None	None	25415870	25415951	1	None	HBII-52-1
6	None	ENSG00000226594	ENST00000446733	lincRNA	KNOWN	None	None	None	None	47697563	47708477	-1	None	None
8	None	ENSG00000238496	ENST00000458859	snoRNA	NOVEL	None	None	None	None	9789230	9789333	-1	None	None
11	None	ENSG00000255271	ENST00000527984	lincRNA	KNOWN	None	None	None	None	34554561	34579471	-1	None	None
3	DUSP5P2	ENSG00000235338	ENST00000426873	processed_pseudogene	KNOWN	None	44482	None	None	9642432	9644412	1	None	None
17	MIR3615	ENSG00000264624	ENST00000581999	miRNA	KNOWN	None	38905	None	None	72744752	72744838	1	None	hsa-mir-3615
19	LIPE-AS1	ENSG00000213904	ENST00000593491	antisense	KNOWN	None	48589	None	None	42901280	42912604	1	None	None
19	LIPE-AS1	ENSG00000213904	ENST00000597203	antisense	KNOWN	None	48589	None	None	42901320	42989746	1	None	None
19	LIPE-AS1	ENSG00000213904	ENST00000594624	antisense	KNOWN	None	48589	None	None	42901326	43156507	1	None	None
19	LIPE-AS1	ENSG00000213904	ENST00000599276	antisense	KNOWN	None	48589	None	None	42905734	42912594	1	None	None
19	LIPE-AS1	ENSG00000213904	ENST00000594688	antisense	KNOWN	None	48589	None	None	42927907	43156171	1	None	None
19	LIPE-AS1	ENSG00000213904	ENST00000457234	antisense	KNOWN	None	48589	None	None	42928421	43030021	1	None	None
19	LIPE-AS1	ENSG00000213904	ENST00000593740	antisense	KNOWN	None	48589	None	None	42928465	42989378	1	None	None
19	LIPE-AS1	ENSG00000213904	ENST00000596116	antisense	KNOWN	None	48589	None	None	42965000	42989625	1	None	None
14	None	ENSG00000258612	ENST00000556693	lincRNA	KNOWN	None	None	None	None	35013705	35015183	-1	None	None
6	None	ENSG00000216616	ENST00000403255	processed_pseudogene	KNOWN	None	None	None	None	47720564	47720976	-1	None	None
6	None	ENSG00000217195	ENST00000406602	processed_pseudogene	KNOWN	None	None	None	None	145027869	145028183	-1	None	None
8	UBXN8	ENSG00000104691	ENST00000522735	processed_transcript	KNOWN	None	30307	None	None	30589764	30620863	1	UBXD6	D8S2298E, REP8
8	UBXN8	ENSG00000104691	ENST00000522968	processed_transcript	KNOWN	None	30307	None	None	30590136	30609035	1	UBXD6	D8S2298E, REP8
8	UBXN8	ENSG00000104691	ENST00000517341	processed_transcript	KNOWN	None	30307	None	None	30601682	30624522	1	UBXD6	D8S2298E, REP8
8	UBXN8	ENSG00000104691	ENST00000519246	processed_transcript	KNOWN	None	30307	None	None	30601691	30624522	1	UBXD6	D8S2298E, REP8
8	UBXN8	ENSG00000104691	ENST00000523607	processed_transcript	KNOWN	None	30307	None	None	30601706	30624421	1	UBXD6	D8S2298E, REP8
8	UBXN8	ENSG00000104691	ENST00000518239	processed_transcript	KNOWN	None	30307	None	None	30601707	30623910	1	UBXD6	D8S2298E, REP8
8	UBXN8	ENSG00000104691	ENST00000518059	processed_transcript	KNOWN	None	30307	None	None	30608914	30620839	1	UBXD6	D8S2298E, REP8
8	UBXN8	ENSG00000104691	ENST00000521598	processed_transcript	KNOWN	None	30307	None	None	30613636	30623816	1	UBXD6	D8S2298E, REP8
8	UBXN8	ENSG00000104691	ENST00000520436	retained_intron	KNOWN	None	30307	None	None	30620663	30624068	1	UBXD6	D8S2298E, REP8
8	UBXN8	ENSG00000104691	ENST00000265616	processed_transcript	KNOWN	None	30307	None	None	30601690	30624522	1	UBXD6	D8S2298E, REP8
8	UBXN8	ENSG00000104691	ENST00000380154	processed_transcript	KNOWN	None	30307	None	None	30601690	30624522	1	UBXD6	D8S2298E, REP8
8	UBXN8	ENSG00000104691	ENST00000341403	processed_transcript	KNOWN	None	30307	None	None	30601690	30624522	1	UBXD6	D8S2298E, REP8
12	None	ENSG00000250654	ENST00000514503	processed_transcript	KNOWN	None	None	None	None	54470622	54475687	-1	None	None
12	None	ENSG00000250654	ENST00000607809	processed_transcript	KNOWN	None	None	None	None	54472707	54474217	-1	None	None
12	None	ENSG00000250654	ENST00000505259	processed_transcript	KNOWN	None	None	None	None	54472707	54475607	-1	None	None
12	None	ENSG00000250654	ENST00000510754	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	54473051	54474072	-1	None	None
2	KCNIP3	ENSG00000115041	ENST00000295225	protein_coding	KNOWN	CCDS2013	15523	771	256	95963052	96051825	1	CSEN	DREAM, KCHIP3, calsenilin
2	KCNIP3	ENSG00000115041	ENST00000486055	processed_transcript	KNOWN	None	15523	None	None	95963075	95964868	1	CSEN	DREAM, KCHIP3, calsenilin
2	KCNIP3	ENSG00000115041	ENST00000475491	retained_intron	KNOWN	None	15523	None	None	95963086	95979644	1	CSEN	DREAM, KCHIP3, calsenilin
2	KCNIP3	ENSG00000115041	ENST00000461336	processed_transcript	KNOWN	None	15523	None	None	95963095	95969251	1	CSEN	DREAM, KCHIP3, calsenilin
2	KCNIP3	ENSG00000115041	ENST00000377181	processed_transcript	KNOWN	None	15523	None	None	95963095	96051825	1	CSEN	DREAM, KCHIP3, calsenilin
2	KCNIP3	ENSG00000115041	ENST00000468529	protein_coding	KNOWN	CCDS33245	15523	693	230	96012476	96049797	1	CSEN	DREAM, KCHIP3, calsenilin
2	KCNIP3	ENSG00000115041	ENST00000360990	protein_coding	KNOWN	None	15523	705	234	95975970	96051824	1	CSEN	DREAM, KCHIP3, calsenilin
17	None	ENSG00000263586	ENST00000577295	antisense	KNOWN	None	None	None	None	72966799	72971823	1	None	None
8	None	ENSG00000260093	ENST00000562143	antisense	KNOWN	None	None	None	None	9907995	9911764	-1	None	None
7	None	ENSG00000231098	ENST00000420268	antisense	KNOWN	None	None	None	None	133969252	133970807	1	None	None
9	None	ENSG00000224992	ENST00000451318	sense_intronic	KNOWN	None	None	None	None	135644840	135645599	-1	None	None
7	None	ENSG00000236018	ENST00000451057	processed_pseudogene	KNOWN	None	None	None	None	156990294	156991205	-1	None	None
15	SNORD115-2	ENSG00000199712	ENST00000362842	snoRNA	KNOWN	None	33021	None	None	25417782	25417863	1	None	HBII-52-2
18	ZNF521	ENSG00000198795	ENST00000361524	protein_coding	KNOWN	CCDS32806	24605	3936	1311	22641890	22932116	-1	None	EHZF, Evi3
18	ZNF521	ENSG00000198795	ENST00000584787	protein_coding	PUTATIVE	None	24605	3276	1091	22642389	22932112	-1	None	EHZF, Evi3
18	ZNF521	ENSG00000198795	ENST00000399425	nonsense_mediated_decay	KNOWN	None	24605	3735	1244	22642415	22932035	-1	None	EHZF, Evi3
18	ZNF521	ENSG00000198795	ENST00000538137	protein_coding	KNOWN	CCDS32806	24605	3936	1311	22642557	22932119	-1	None	EHZF, Evi3
18	ZNF521	ENSG00000198795	ENST00000577775	protein_coding	PUTATIVE	None	24605	552	183	22716682	22804753	-1	None	EHZF, Evi3
18	ZNF521	ENSG00000198795	ENST00000577720	protein_coding	PUTATIVE	None	24605	555	184	22807167	22811494	-1	None	EHZF, Evi3
18	ZNF521	ENSG00000198795	ENST00000577801	protein_coding	KNOWN	None	24605	674	223	22807208	22931711	-1	None	EHZF, Evi3
18	ZNF521	ENSG00000198795	ENST00000581869	processed_transcript	KNOWN	None	24605	None	None	22807352	22881998	-1	None	EHZF, Evi3
18	ZNF521	ENSG00000198795	ENST00000580488	protein_coding	KNOWN	None	24605	432	143	22807450	22931579	-1	None	EHZF, Evi3
18	ZNF521	ENSG00000198795	ENST00000583005	processed_transcript	KNOWN	None	24605	None	None	22807551	22932134	-1	None	EHZF, Evi3
18	ZNF521	ENSG00000198795	ENST00000579111	processed_transcript	KNOWN	None	24605	None	None	22807571	22932154	-1	None	EHZF, Evi3
18	ZNF521	ENSG00000198795	ENST00000583398	retained_intron	KNOWN	None	24605	None	None	22807584	22902299	-1	None	EHZF, Evi3
18	ZNF521	ENSG00000198795	ENST00000582584	processed_transcript	KNOWN	None	24605	None	None	22895488	22932113	-1	None	EHZF, Evi3
18	ZNF521	ENSG00000198795	ENST00000577461	protein_coding	KNOWN	None	24605	91	29	22902101	22931157	-1	None	EHZF, Evi3
12	PPFIA2	ENSG00000139220	ENST00000549396	protein_coding	KNOWN	CCDS55857	9246	3774	1257	81652045	82153109	-1	None	None
12	PPFIA2	ENSG00000139220	ENST00000550584	protein_coding	PUTATIVE	CCDS59236	9246	3744	1247	81652046	82152472	-1	None	None
12	PPFIA2	ENSG00000139220	ENST00000549325	protein_coding	PUTATIVE	CCDS55854	9246	3699	1232	81652656	82152449	-1	None	None
12	PPFIA2	ENSG00000139220	ENST00000545296	processed_transcript	KNOWN	None	9246	None	None	81652880	81992035	-1	None	None
12	PPFIA2	ENSG00000139220	ENST00000541570	protein_coding	PUTATIVE	CCDS55851	9246	2352	783	81652945	81763193	-1	None	None
12	PPFIA2	ENSG00000139220	ENST00000551461	nonsense_mediated_decay	KNOWN	None	9246	246	81	81653047	81763128	-1	None	None
12	PPFIA2	ENSG00000139220	ENST00000550359	protein_coding	PUTATIVE	None	9246	3315	1104	81653215	81906141	-1	None	None
12	PPFIA2	ENSG00000139220	ENST00000407050	protein_coding	PUTATIVE	CCDS55853	9246	3471	1156	81653380	81992150	-1	None	None
12	PPFIA2	ENSG00000139220	ENST00000548586	protein_coding	NOVEL	CCDS55856	9246	3756	1251	81655740	82152432	-1	None	None
12	PPFIA2	ENSG00000139220	ENST00000443686	protein_coding	PUTATIVE	CCDS55852	9246	3459	1152	81655746	81992119	-1	None	None
12	PPFIA2	ENSG00000139220	ENST00000552948	protein_coding	NOVEL	CCDS55855	9246	3711	1236	81655746	82152426	-1	None	None
12	PPFIA2	ENSG00000139220	ENST00000550018	protein_coding	NOVEL	None	9246	563	186	81671151	81719589	-1	None	None
12	PPFIA2	ENSG00000139220	ENST00000551147	protein_coding	NOVEL	None	9246	564	187	81675117	81732993	-1	None	None
12	PPFIA2	ENSG00000139220	ENST00000547180	retained_intron	KNOWN	None	9246	None	None	81688361	81693110	-1	None	None
12	PPFIA2	ENSG00000139220	ENST00000549344	retained_intron	KNOWN	None	9246	None	None	81732967	81738547	-1	None	None
12	PPFIA2	ENSG00000139220	ENST00000549917	processed_transcript	KNOWN	None	9246	None	None	81732989	81744265	-1	None	None
12	PPFIA2	ENSG00000139220	ENST00000553058	protein_coding	PUTATIVE	None	9246	796	264	81741491	81763202	-1	None	None
12	PPFIA2	ENSG00000139220	ENST00000548670	protein_coding	PUTATIVE	None	9246	373	123	81751962	81763184	-1	None	None
12	PPFIA2	ENSG00000139220	ENST00000548790	protein_coding	NOVEL	None	9246	852	283	81762904	81839357	-1	None	None
12	PPFIA2	ENSG00000139220	ENST00000548453	processed_transcript	KNOWN	None	9246	None	None	81818628	81906163	-1	None	None
12	PPFIA2	ENSG00000139220	ENST00000552020	retained_intron	KNOWN	None	9246	None	None	81833659	82070626	-1	None	None
12	PPFIA2	ENSG00000139220	ENST00000551442	protein_coding	NOVEL	None	9246	441	146	81839410	82153332	-1	None	None
12	PPFIA2	ENSG00000139220	ENST00000547623	protein_coding	KNOWN	None	9246	364	120	81851585	82153092	-1	None	None
12	PPFIA2	ENSG00000139220	ENST00000552006	processed_transcript	PUTATIVE	None	9246	None	None	81899459	81906124	-1	None	None
12	PPFIA2	ENSG00000139220	ENST00000547273	processed_transcript	PUTATIVE	None	9246	None	None	82069265	82081339	-1	None	None
12	PPFIA2	ENSG00000139220	ENST00000550798	retained_intron	KNOWN	None	9246	None	None	82070436	82153093	-1	None	None
12	PPFIA2	ENSG00000139220	ENST00000333447	protein_coding	KNOWN	None	9246	3708	1235	81653411	82148000	-1	None	None
12	PPFIA2	ENSG00000139220	ENST00000541017	protein_coding	KNOWN	CCDS55850	9246	1332	443	81653047	81763128	-1	None	None
3	None	ENSG00000269886	ENST00000602768	antisense	KNOWN	None	None	None	None	9854446	9854781	-1	None	None
X	None	ENSG00000229733	ENST00000411430	processed_pseudogene	KNOWN	None	None	None	None	122692201	122692435	1	None	None
X	EEF1A1P31	ENSG00000237859	ENST00000415978	processed_pseudogene	KNOWN	None	37908	None	None	154137160	154147378	-1	None	None
11	None	ENSG00000236919	ENST00000529200	unprocessed_pseudogene	KNOWN	None	None	None	None	50205725	50206932	-1	None	None
17	ARSG	ENSG00000141337	ENST00000448504	protein_coding	KNOWN	CCDS11676	24102	1578	525	66255323	66418872	1	None	KIAA1001
17	ARSG	ENSG00000141337	ENST00000578726	processed_transcript	KNOWN	None	24102	None	None	66255542	66270705	1	None	KIAA1001
17	ARSG	ENSG00000141337	ENST00000581639	protein_coding	KNOWN	None	24102	86	27	66287632	66303720	1	None	KIAA1001
17	ARSG	ENSG00000141337	ENST00000452479	protein_coding	PUTATIVE	None	24102	1086	361	66287659	66416926	1	None	KIAA1001
17	ARSG	ENSG00000141337	ENST00000582154	processed_transcript	KNOWN	None	24102	None	None	66342888	66416666	1	None	KIAA1001
17	ARSG	ENSG00000141337	ENST00000581032	processed_transcript	KNOWN	None	24102	None	None	66343286	66355927	1	None	KIAA1001
17	ARSG	ENSG00000141337	ENST00000578554	processed_transcript	KNOWN	None	24102	None	None	66396297	66416806	1	None	KIAA1001
17	ARSG	ENSG00000141337	ENST00000590690	retained_intron	KNOWN	None	24102	None	None	66397183	66416711	1	None	KIAA1001
X	GAGE12J	ENSG00000224659	ENST00000442437	protein_coding	KNOWN	CCDS43939	17778	354	117	49178536	49185863	1	GAGE11	OTTHUMG00000024137
17	RNU6-362P	ENSG00000252545	ENST00000516736	snRNA	KNOWN	None	47325	None	None	73027192	73027281	1	None	None
2	ATL2	ENSG00000119787	ENST00000378954	protein_coding	KNOWN	CCDS46260	24047	1752	583	38522022	38604404	-1	ARL6IP2	None
2	ATL2	ENSG00000119787	ENST00000406122	protein_coding	NOVEL	None	24047	1242	413	38522296	38604427	-1	ARL6IP2	None
2	ATL2	ENSG00000119787	ENST00000402054	protein_coding	KNOWN	None	24047	1239	412	38522751	38603366	-1	ARL6IP2	None
2	ATL2	ENSG00000119787	ENST00000405384	nonsense_mediated_decay	KNOWN	None	24047	150	49	38522751	38604415	-1	ARL6IP2	None
2	ATL2	ENSG00000119787	ENST00000419554	protein_coding	KNOWN	CCDS1795	24047	1740	579	38523043	38604415	-1	ARL6IP2	None
2	ATL2	ENSG00000119787	ENST00000452935	protein_coding	NOVEL	None	24047	1698	565	38523050	38603736	-1	ARL6IP2	None
2	ATL2	ENSG00000119787	ENST00000477642	retained_intron	KNOWN	None	24047	None	None	38525073	38527460	-1	ARL6IP2	None
2	ATL2	ENSG00000119787	ENST00000489896	retained_intron	KNOWN	None	24047	None	None	38525360	38527575	-1	ARL6IP2	None
2	ATL2	ENSG00000119787	ENST00000449130	protein_coding	NOVEL	None	24047	526	174	38536520	38604403	-1	ARL6IP2	None
2	ATL2	ENSG00000119787	ENST00000443098	protein_coding	NOVEL	None	24047	775	257	38536573	38604398	-1	ARL6IP2	None
2	ATL2	ENSG00000119787	ENST00000456736	nonsense_mediated_decay	KNOWN	None	24047	261	86	38541751	38604404	-1	ARL6IP2	None
2	ATL2	ENSG00000119787	ENST00000474535	retained_intron	KNOWN	None	24047	None	None	38545468	38570557	-1	ARL6IP2	None
2	ATL2	ENSG00000119787	ENST00000472097	retained_intron	KNOWN	None	24047	None	None	38545977	38604415	-1	ARL6IP2	None
2	ATL2	ENSG00000119787	ENST00000451483	protein_coding	NOVEL	None	24047	557	184	38546079	38604421	-1	ARL6IP2	None
2	ATL2	ENSG00000119787	ENST00000486927	processed_transcript	KNOWN	None	24047	None	None	38570436	38586746	-1	ARL6IP2	None
2	ATL2	ENSG00000119787	ENST00000416222	nonsense_mediated_decay	KNOWN	None	24047	282	93	38570439	38604415	-1	ARL6IP2	None
2	ATL2	ENSG00000119787	ENST00000539122	protein_coding	KNOWN	None	24047	1239	412	38522956	38604415	-1	ARL6IP2	None
2	ATL2	ENSG00000119787	ENST00000332337	protein_coding	KNOWN	None	24047	1701	566	38523011	38603366	-1	ARL6IP2	None
2	ATL2	ENSG00000119787	ENST00000546051	protein_coding	KNOWN	None	24047	1242	413	38523362	38603366	-1	ARL6IP2	None
8	DEFB103B	ENSG00000177243	ENST00000318124	protein_coding	KNOWN	CCDS34810	31702	204	67	7286410	7287870	-1	None	None
19	ZBTB45	ENSG00000119574	ENST00000354590	protein_coding	KNOWN	CCDS12984	23715	1536	511	59024897	59030921	-1	ZNF499	FLJ14486
19	ZBTB45	ENSG00000119574	ENST00000594051	protein_coding	KNOWN	CCDS12984	23715	1536	511	59024897	59031589	-1	ZNF499	FLJ14486
19	ZBTB45	ENSG00000119574	ENST00000600990	protein_coding	KNOWN	CCDS12984	23715	1536	511	59024933	59031118	-1	ZNF499	FLJ14486
19	ZBTB45	ENSG00000119574	ENST00000600130	protein_coding	KNOWN	None	23715	365	120	59028676	59050278	-1	ZNF499	FLJ14486
19	ZBTB45	ENSG00000119574	ENST00000596739	protein_coding	KNOWN	None	23715	51	16	59028990	59030926	-1	ZNF499	FLJ14486
7	None	ENSG00000229177	ENST00000453087	lincRNA	KNOWN	None	None	None	None	134030823	134035543	-1	None	None
17	RN7SL573P	ENSG00000239607	ENST00000485340	misc_RNA	KNOWN	None	46589	None	None	73037830	73038102	1	None	None
6	VEGFA	ENSG00000112715	ENST00000476772	retained_intron	KNOWN	None	12680	None	None	43737921	43746501	1	VEGF	VEGF-A, VPF
6	VEGFA	ENSG00000112715	ENST00000372067	protein_coding	KNOWN	CCDS34458	12680	1116	371	43737950	43754224	1	VEGF	VEGF-A, VPF
6	VEGFA	ENSG00000112715	ENST00000324450	protein_coding	KNOWN	CCDS55007	12680	954	317	43738444	43752299	1	VEGF	VEGF-A, VPF
6	VEGFA	ENSG00000112715	ENST00000417285	protein_coding	KNOWN	CCDS47435	12680	1065	354	43738444	43752299	1	VEGF	VEGF-A, VPF
6	VEGFA	ENSG00000112715	ENST00000413642	protein_coding	KNOWN	CCDS47433	12680	1170	389	43738444	43752326	1	VEGF	VEGF-A, VPF
6	VEGFA	ENSG00000112715	ENST00000372055	protein_coding	KNOWN	CCDS34457	12680	1239	412	43738444	43752346	1	VEGF	VEGF-A, VPF
6	VEGFA	ENSG00000112715	ENST00000482630	protein_coding	KNOWN	CCDS47432	12680	1116	371	43738444	43752395	1	VEGF	VEGF-A, VPF
6	VEGFA	ENSG00000112715	ENST00000425836	protein_coding	KNOWN	CCDS4907	12680	1188	395	43738444	43752686	1	VEGF	VEGF-A, VPF
6	VEGFA	ENSG00000112715	ENST00000372064	protein_coding	KNOWN	CCDS47434	12680	984	327	43738444	43754224	1	VEGF	VEGF-A, VPF
6	VEGFA	ENSG00000112715	ENST00000372077	protein_coding	KNOWN	CCDS55014	12680	444	147	43738519	43754224	1	VEGF	VEGF-A, VPF
6	VEGFA	ENSG00000112715	ENST00000519767	protein_coding	PUTATIVE	None	12680	970	322	43738530	43752299	1	VEGF	VEGF-A, VPF
6	VEGFA	ENSG00000112715	ENST00000520948	protein_coding	KNOWN	CCDS55009	12680	648	215	43738820	43752686	1	VEGF	VEGF-A, VPF
6	VEGFA	ENSG00000112715	ENST00000518538	retained_intron	KNOWN	None	12680	None	None	43738890	43746674	1	VEGF	VEGF-A, VPF
6	VEGFA	ENSG00000112715	ENST00000523873	protein_coding	KNOWN	CCDS55010	12680	699	232	43738946	43752346	1	VEGF	VEGF-A, VPF
6	VEGFA	ENSG00000112715	ENST00000523950	protein_coding	KNOWN	CCDS55012	12680	576	191	43738946	43752639	1	VEGF	VEGF-A, VPF
6	VEGFA	ENSG00000112715	ENST00000512683	retained_intron	KNOWN	None	12680	None	None	43738984	43745562	1	VEGF	VEGF-A, VPF
6	VEGFA	ENSG00000112715	ENST00000457104	protein_coding	KNOWN	CCDS55015	12680	414	137	43738984	43752299	1	VEGF	VEGF-A, VPF
6	VEGFA	ENSG00000112715	ENST00000518689	protein_coding	KNOWN	CCDS55008	12680	630	209	43738984	43752299	1	VEGF	VEGF-A, VPF
6	VEGFA	ENSG00000112715	ENST00000523125	protein_coding	KNOWN	CCDS55011	12680	525	174	43738984	43752299	1	VEGF	VEGF-A, VPF
6	VEGFA	ENSG00000112715	ENST00000518824	protein_coding	KNOWN	CCDS55013	12680	576	191	43738984	43752395	1	VEGF	VEGF-A, VPF
6	VEGFA	ENSG00000112715	ENST00000230480	protein_coding	PUTATIVE	None	12680	492	163	43739729	43752672	1	VEGF	VEGF-A, VPF
6	VEGFA	ENSG00000112715	ENST00000480614	retained_intron	KNOWN	None	12680	None	None	43740909	43754221	1	VEGF	VEGF-A, VPF
6	VEGFA	ENSG00000112715	ENST00000520265	protein_coding	NOVEL	None	12680	336	111	43742090	43752299	1	VEGF	VEGF-A, VPF
6	VEGFA	ENSG00000112715	ENST00000497139	retained_intron	KNOWN	None	12680	None	None	43745457	43754176	1	VEGF	VEGF-A, VPF
6	VEGFA	ENSG00000112715	ENST00000493786	retained_intron	KNOWN	None	12680	None	None	43745909	43752301	1	VEGF	VEGF-A, VPF
3	SS18L2	ENSG00000008324	ENST00000447630	protein_coding	KNOWN	CCDS2701	15593	234	77	42623332	42636606	1	None	KIAA-iso
3	SS18L2	ENSG00000008324	ENST00000474941	retained_intron	KNOWN	None	15593	None	None	42632766	42636152	1	None	KIAA-iso
3	SS18L2	ENSG00000008324	ENST00000011691	protein_coding	KNOWN	CCDS2701	15593	234	77	42632298	42636490	1	None	KIAA-iso
17	None	ENSG00000270993	ENST00000604684	processed_pseudogene	KNOWN	None	None	None	None	73056586	73056715	-1	None	None
14	RNU1-27P	ENSG00000206596	ENST00000383869	snRNA	KNOWN	None	37497	None	None	35015920	35016083	1	RNU1-7P	None
11	None	ENSG00000255476	ENST00000533659	antisense	KNOWN	None	None	None	None	9860690	9950810	1	None	None
12	None	ENSG00000242444	ENST00000489396	transcribed_processed_pseudogene	KNOWN	None	None	None	None	4218827	4219381	-1	None	None
12	None	ENSG00000242444	ENST00000393388	processed_transcript	PUTATIVE	None	None	None	None	4219194	4227298	-1	None	None
3	None	ENSG00000272020	ENST00000606575	snRNA	NOVEL	None	None	None	None	125879126	125879288	-1	None	None
3	IQSEC1	ENSG00000144711	ENST00000273221	protein_coding	KNOWN	CCDS33703	29112	2892	963	12938719	13009168	-1	None	KIAA0763, GEP100, BRAG2, ARF-GEP100
3	IQSEC1	ENSG00000144711	ENST00000450726	protein_coding	KNOWN	None	29112	2812	936	12942076	13028536	-1	None	KIAA0763, GEP100, BRAG2, ARF-GEP100
3	IQSEC1	ENSG00000144711	ENST00000429247	protein_coding	KNOWN	None	29112	3480	1159	12942348	13114617	-1	None	KIAA0763, GEP100, BRAG2, ARF-GEP100
3	IQSEC1	ENSG00000144711	ENST00000473088	processed_transcript	PUTATIVE	None	29112	None	None	12978051	13036626	-1	None	KIAA0763, GEP100, BRAG2, ARF-GEP100
3	IQSEC1	ENSG00000144711	ENST00000474467	processed_transcript	PUTATIVE	None	29112	None	None	13001777	13008960	-1	None	KIAA0763, GEP100, BRAG2, ARF-GEP100
17	None	ENSG00000232724	ENST00000455685	unitary_pseudogene	KNOWN	None	None	None	None	73070401	73075644	1	None	None
X	GAGE13	ENSG00000237597	ENST00000381751	protein_coding	KNOWN	CCDS48110	29081	354	117	49188094	49195366	1	GAGE12A	OTTHUMG00000024138
11	None	ENSG00000255114	ENST00000531886	antisense	KNOWN	None	None	None	None	118914899	118916205	1	None	None
19	ZNF471	ENSG00000196263	ENST00000308031	protein_coding	KNOWN	CCDS12945	23226	1881	626	57019212	57041590	1	None	KIAA1396, Z1971
19	ZNF471	ENSG00000196263	ENST00000591537	protein_coding	PUTATIVE	None	23226	744	247	57019219	57041590	1	None	KIAA1396, Z1971
19	ZNF471	ENSG00000196263	ENST00000593197	processed_transcript	KNOWN	None	23226	None	None	57021466	57037390	1	None	KIAA1396, Z1971
19	ZNF471	ENSG00000196263	ENST00000591759	protein_coding	KNOWN	None	23226	230	75	57021991	57029920	1	None	KIAA1396, Z1971
3	ALDH1L1-AS2	ENSG00000246022	ENST00000500232	antisense	KNOWN	None	42446	None	None	125898908	125929012	1	None	None
3	ALDH1L1-AS2	ENSG00000246022	ENST00000502278	antisense	KNOWN	None	42446	None	None	125898919	125927344	1	None	None
3	ALDH1L1-AS2	ENSG00000246022	ENST00000500525	antisense	KNOWN	None	42446	None	None	125926098	125929009	1	None	None
3	RNU6-882P	ENSG00000212327	ENST00000391025	snRNA	KNOWN	None	47845	None	None	9960735	9960837	-1	None	None
HG748_PATCH	RBFOX3	ENSG00000267483	ENST00000588416	protein_coding	NOVEL	None	27097	1077	358	77085427	77478680	-1	None	FOX-3, NeuN, HRNBP3
HG748_PATCH	RBFOX3	ENSG00000267483	ENST00000592438	protein_coding	PUTATIVE	None	27097	987	328	77086882	77231887	-1	None	FOX-3, NeuN, HRNBP3
HG748_PATCH	RBFOX3	ENSG00000267483	ENST00000587301	retained_intron	KNOWN	None	27097	None	None	77086898	77094590	-1	None	FOX-3, NeuN, HRNBP3
HG748_PATCH	RBFOX3	ENSG00000267483	ENST00000588133	protein_coding	KNOWN	None	27097	939	312	77086898	77512230	-1	None	FOX-3, NeuN, HRNBP3
HG748_PATCH	RBFOX3	ENSG00000267483	ENST00000588608	retained_intron	KNOWN	None	27097	None	None	77086929	77096492	-1	None	FOX-3, NeuN, HRNBP3
HG748_PATCH	RBFOX3	ENSG00000267483	ENST00000588068	retained_intron	KNOWN	None	27097	None	None	77088052	77092775	-1	None	FOX-3, NeuN, HRNBP3
HG748_PATCH	RBFOX3	ENSG00000267483	ENST00000592592	retained_intron	KNOWN	None	27097	None	None	77088462	77093808	-1	None	FOX-3, NeuN, HRNBP3
HG748_PATCH	RBFOX3	ENSG00000267483	ENST00000589771	protein_coding	NOVEL	None	27097	978	325	77090339	77504950	-1	None	FOX-3, NeuN, HRNBP3
HG748_PATCH	RBFOX3	ENSG00000267483	ENST00000587454	processed_transcript	PUTATIVE	None	27097	None	None	77111780	77179554	-1	None	FOX-3, NeuN, HRNBP3
HG748_PATCH	RBFOX3	ENSG00000267483	ENST00000588876	processed_transcript	PUTATIVE	None	27097	None	None	77111785	77204638	-1	None	FOX-3, NeuN, HRNBP3
HG748_PATCH	RBFOX3	ENSG00000267483	ENST00000586034	processed_transcript	KNOWN	None	27097	None	None	77229709	77420202	-1	None	FOX-3, NeuN, HRNBP3
HG748_PATCH	RBFOX3	ENSG00000267483	ENST00000590394	processed_transcript	KNOWN	None	27097	None	None	77294286	77303909	-1	None	FOX-3, NeuN, HRNBP3
7	None	ENSG00000224629	ENST00000428733	processed_pseudogene	KNOWN	None	None	None	None	157055716	157055923	-1	None	None
15	RNU6-749P	ENSG00000238489	ENST00000459351	snRNA	KNOWN	None	47712	None	None	21060580	21060686	-1	None	None
3	None	ENSG00000261468	ENST00000561507	sense_overlapping	KNOWN	None	None	None	None	30739153	30741068	1	None	None
17	None	ENSG00000227077	ENST00000442562	processed_pseudogene	KNOWN	None	None	None	None	18476066	18476275	1	None	None
17	None	ENSG00000227077	ENST00000536115	processed_pseudogene	KNOWN	None	None	None	None	18476045	18476415	1	None	None
3	None	ENSG00000269894	ENST00000602411	sense_intronic	KNOWN	None	None	None	None	9977390	9977942	1	None	None
14	RNU6-1268P	ENSG00000212516	ENST00000391214	snRNA	KNOWN	None	48231	None	None	20008753	20008859	-1	None	None
7	None	ENSG00000229660	ENST00000442017	lincRNA	KNOWN	None	None	None	None	157074230	157075380	-1	None	None
8	None	ENSG00000254383	ENST00000518428	lincRNA	KNOWN	None	None	None	None	40757535	40759373	-1	None	None
X	None	ENSG00000227211	ENST00000446931	processed_pseudogene	KNOWN	None	None	None	None	101870401	101870748	-1	None	None
7	None	ENSG00000224375	ENST00000422042	lincRNA	KNOWN	None	None	None	None	134368896	134372742	1	None	None
12	None	ENSG00000212440	ENST00000391138	snoRNA	NOVEL	None	None	None	None	9439269	9439418	-1	None	None
8	RNU6-356P	ENSG00000206867	ENST00000384140	snRNA	KNOWN	None	47319	None	None	40890411	40890517	1	None	None
22	None	ENSG00000233866	ENST00000424770	lincRNA	KNOWN	None	None	None	None	16062157	16063236	1	None	None
11	None	ENSG00000255500	ENST00000525487	processed_pseudogene	KNOWN	None	None	None	None	50227332	50228444	1	None	None
8	MIR548AO	ENSG00000263372	ENST00000579992	miRNA	KNOWN	None	43539	None	None	41128567	41128662	-1	None	hsa-mir-548ao
7	None	ENSG00000243004	ENST00000457921	sense_overlapping	KNOWN	None	None	None	None	19958604	20007860	-1	None	None
7	None	ENSG00000243004	ENST00000449573	sense_overlapping	KNOWN	None	None	None	None	19958615	20042545	-1	None	None
7	None	ENSG00000243004	ENST00000435968	sense_overlapping	KNOWN	None	None	None	None	19958823	20179997	-1	None	None
7	None	ENSG00000243004	ENST00000415499	sense_overlapping	KNOWN	None	None	None	None	19970694	20164785	-1	None	None
7	None	ENSG00000243004	ENST00000437191	sense_overlapping	KNOWN	None	None	None	None	19970876	20180049	-1	None	None
7	None	ENSG00000243004	ENST00000424516	sense_overlapping	KNOWN	None	None	None	None	19982842	20042467	-1	None	None
7	None	ENSG00000243004	ENST00000418442	sense_overlapping	KNOWN	None	None	None	None	20046728	20171342	-1	None	None
7	None	ENSG00000243004	ENST00000428100	sense_overlapping	KNOWN	None	None	None	None	20173547	20180076	-1	None	None
3	PRRT3-AS1	ENSG00000230082	ENST00000431558	antisense	KNOWN	None	41151	None	None	9989088	9996471	1	None	None
16	HERPUD1	ENSG00000051108	ENST00000439977	protein_coding	KNOWN	CCDS10771	13744	1176	391	56965960	56977793	1	None	KIAA0025, Mif1, HERP, SUP
16	HERPUD1	ENSG00000051108	ENST00000562914	retained_intron	KNOWN	None	13744	None	None	56966054	56969466	1	None	KIAA0025, Mif1, HERP, SUP
16	HERPUD1	ENSG00000051108	ENST00000568676	retained_intron	KNOWN	None	13744	None	None	56966059	56969560	1	None	KIAA0025, Mif1, HERP, SUP
16	HERPUD1	ENSG00000051108	ENST00000569569	retained_intron	KNOWN	None	13744	None	None	56966059	56971325	1	None	KIAA0025, Mif1, HERP, SUP
16	HERPUD1	ENSG00000051108	ENST00000565966	nonsense_mediated_decay	KNOWN	None	13744	162	53	56966059	56973959	1	None	KIAA0025, Mif1, HERP, SUP
16	HERPUD1	ENSG00000051108	ENST00000344114	protein_coding	KNOWN	None	13744	699	232	56966059	56977793	1	None	KIAA0025, Mif1, HERP, SUP
16	HERPUD1	ENSG00000051108	ENST00000300302	protein_coding	KNOWN	CCDS45492	13744	1173	390	56966059	56977793	1	None	KIAA0025, Mif1, HERP, SUP
16	HERPUD1	ENSG00000051108	ENST00000570273	processed_transcript	KNOWN	None	13744	None	None	56966060	56977511	1	None	KIAA0025, Mif1, HERP, SUP
16	HERPUD1	ENSG00000051108	ENST00000379792	protein_coding	NOVEL	None	13744	1101	366	56966072	56977798	1	None	KIAA0025, Mif1, HERP, SUP
16	HERPUD1	ENSG00000051108	ENST00000569429	protein_coding	PUTATIVE	None	13744	451	149	56967096	56973904	1	None	KIAA0025, Mif1, HERP, SUP
16	HERPUD1	ENSG00000051108	ENST00000563343	protein_coding	PUTATIVE	None	13744	480	159	56967120	56973858	1	None	KIAA0025, Mif1, HERP, SUP
16	HERPUD1	ENSG00000051108	ENST00000566550	retained_intron	KNOWN	None	13744	None	None	56968877	56969475	1	None	KIAA0025, Mif1, HERP, SUP
16	HERPUD1	ENSG00000051108	ENST00000563781	processed_transcript	KNOWN	None	13744	None	None	56969290	56976114	1	None	KIAA0025, Mif1, HERP, SUP
16	HERPUD1	ENSG00000051108	ENST00000568358	protein_coding	PUTATIVE	None	13744	329	108	56969314	56977460	1	None	KIAA0025, Mif1, HERP, SUP
16	HERPUD1	ENSG00000051108	ENST00000564678	retained_intron	KNOWN	None	13744	None	None	56969863	56977789	1	None	KIAA0025, Mif1, HERP, SUP
16	HERPUD1	ENSG00000051108	ENST00000563911	protein_coding	PUTATIVE	None	13744	680	225	56970636	56977469	1	None	KIAA0025, Mif1, HERP, SUP
16	HERPUD1	ENSG00000051108	ENST00000567944	retained_intron	KNOWN	None	13744	None	None	56973056	56974025	1	None	KIAA0025, Mif1, HERP, SUP
16	HERPUD1	ENSG00000051108	ENST00000568651	protein_coding	PUTATIVE	None	13744	451	149	56973161	56977209	1	None	KIAA0025, Mif1, HERP, SUP
16	HERPUD1	ENSG00000051108	ENST00000568814	processed_transcript	KNOWN	None	13744	None	None	56975923	56977319	1	None	KIAA0025, Mif1, HERP, SUP
11	None	ENSG00000255427	ENST00000527135	lincRNA	KNOWN	None	None	None	None	34592423	34595529	1	None	None
11	FAU	ENSG00000149806	ENST00000529639	protein_coding	KNOWN	CCDS8095	3597	402	133	64888100	64889945	-1	None	RPS30, FLJ22986, Fub1, Fubi, MNSFbeta, asr1, S30
11	FAU	ENSG00000149806	ENST00000531743	protein_coding	KNOWN	CCDS8095	3597	402	133	64888102	64889529	-1	None	RPS30, FLJ22986, Fub1, Fubi, MNSFbeta, asr1, S30
11	FAU	ENSG00000149806	ENST00000525297	protein_coding	NOVEL	None	3597	297	98	64888103	64889293	-1	None	RPS30, FLJ22986, Fub1, Fubi, MNSFbeta, asr1, S30
11	FAU	ENSG00000149806	ENST00000527548	protein_coding	KNOWN	CCDS8095	3597	402	133	64888103	64889585	-1	None	RPS30, FLJ22986, Fub1, Fubi, MNSFbeta, asr1, S30
11	FAU	ENSG00000149806	ENST00000531357	retained_intron	KNOWN	None	3597	None	None	64888106	64889589	-1	None	RPS30, FLJ22986, Fub1, Fubi, MNSFbeta, asr1, S30
11	FAU	ENSG00000149806	ENST00000279259	protein_coding	PUTATIVE	None	3597	264	87	64888110	64889625	-1	None	RPS30, FLJ22986, Fub1, Fubi, MNSFbeta, asr1, S30
11	FAU	ENSG00000149806	ENST00000529259	protein_coding	PUTATIVE	None	3597	228	75	64888169	64889387	-1	None	RPS30, FLJ22986, Fub1, Fubi, MNSFbeta, asr1, S30
11	FAU	ENSG00000149806	ENST00000526555	protein_coding	KNOWN	None	3597	326	107	64888229	64889585	-1	None	RPS30, FLJ22986, Fub1, Fubi, MNSFbeta, asr1, S30
11	FAU	ENSG00000149806	ENST00000434372	protein_coding	PUTATIVE	None	3597	228	75	64888755	64889649	-1	None	RPS30, FLJ22986, Fub1, Fubi, MNSFbeta, asr1, S30
1	None	ENSG00000230092	ENST00000447500	processed_transcript	KNOWN	None	None	None	None	736259	745541	-1	None	None
1	None	ENSG00000230092	ENST00000590817	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	736259	745541	-1	None	None
17	None	ENSG00000206713	ENST00000383986	misc_RNA	NOVEL	None	None	None	None	73085957	73086069	-1	None	None
17	RN7SL639P	ENSG00000264948	ENST00000578843	misc_RNA	KNOWN	None	46655	None	None	18508369	18508669	-1	None	None
14	RN7SL530P	ENSG00000239910	ENST00000485097	misc_RNA	KNOWN	None	46546	None	None	74641159	74641454	1	None	None
12	None	ENSG00000258274	ENST00000550287	antisense	KNOWN	None	None	None	None	94101567	94131599	-1	None	None
12	None	ENSG00000258274	ENST00000551107	antisense	KNOWN	None	None	None	None	94108311	94129506	-1	None	None
22	None	ENSG00000229286	ENST00000448070	unprocessed_pseudogene	KNOWN	None	None	None	None	16076052	16076172	-1	None	None
15	None	ENSG00000261048	ENST00000568241	processed_pseudogene	KNOWN	None	None	None	None	21095535	21095935	-1	None	None
17	None	ENSG00000265800	ENST00000584339	sense_intronic	KNOWN	None	None	None	None	73134511	73137445	-1	None	None
12	None	ENSG00000255753	ENST00000543664	processed_pseudogene	KNOWN	None	None	None	None	9466998	9468769	-1	None	None
17	None	ENSG00000262262	ENST00000571884	transcribed_processed_pseudogene	KNOWN	None	None	None	None	18541332	18541683	-1	None	None
14	None	ENSG00000258513	ENST00000555526	transcribed_processed_pseudogene	KNOWN	None	None	None	None	74659292	74659526	1	None	None
11	SNHG1	ENSG00000255717	ENST00000539921	lincRNA	KNOWN	None	32688	None	None	62619460	62622708	-1	None	UHG, NCRNA00057, LINC00057
11	SNHG1	ENSG00000255717	ENST00000540725	lincRNA	KNOWN	None	32688	None	None	62619460	62623218	-1	None	UHG, NCRNA00057, LINC00057
11	SNHG1	ENSG00000255717	ENST00000537925	lincRNA	KNOWN	None	32688	None	None	62619460	62623339	-1	None	UHG, NCRNA00057, LINC00057
11	SNHG1	ENSG00000255717	ENST00000537068	lincRNA	KNOWN	None	32688	None	None	62619460	62623353	-1	None	UHG, NCRNA00057, LINC00057
11	SNHG1	ENSG00000255717	ENST00000538654	retained_intron	KNOWN	None	32688	None	None	62619461	62623357	-1	None	UHG, NCRNA00057, LINC00057
11	SNHG1	ENSG00000255717	ENST00000537869	lincRNA	KNOWN	None	32688	None	None	62619463	62622932	-1	None	UHG, NCRNA00057, LINC00057
11	SNHG1	ENSG00000255717	ENST00000539975	lincRNA	KNOWN	None	32688	None	None	62619492	62622708	-1	None	UHG, NCRNA00057, LINC00057
11	SNHG1	ENSG00000255717	ENST00000535076	retained_intron	KNOWN	None	32688	None	None	62619520	62621168	-1	None	UHG, NCRNA00057, LINC00057
11	SNHG1	ENSG00000255717	ENST00000545440	lincRNA	KNOWN	None	32688	None	None	62619724	62622960	-1	None	UHG, NCRNA00057, LINC00057
11	SNHG1	ENSG00000255717	ENST00000542112	lincRNA	KNOWN	None	32688	None	None	62619730	62623386	-1	None	UHG, NCRNA00057, LINC00057
11	SNHG1	ENSG00000255717	ENST00000541615	lincRNA	KNOWN	None	32688	None	None	62619762	62622960	-1	None	UHG, NCRNA00057, LINC00057
11	SNHG1	ENSG00000255717	ENST00000541578	lincRNA	KNOWN	None	32688	None	None	62619769	62622960	-1	None	UHG, NCRNA00057, LINC00057
11	SNHG1	ENSG00000255717	ENST00000538266	lincRNA	KNOWN	None	32688	None	None	62620081	62622939	-1	None	UHG, NCRNA00057, LINC00057
11	SNHG1	ENSG00000255717	ENST00000545688	retained_intron	KNOWN	None	32688	None	None	62620221	62622932	-1	None	UHG, NCRNA00057, LINC00057
11	SNHG1	ENSG00000255717	ENST00000544550	retained_intron	KNOWN	None	32688	None	None	62620304	62622960	-1	None	UHG, NCRNA00057, LINC00057
11	SNHG1	ENSG00000255717	ENST00000545920	retained_intron	KNOWN	None	32688	None	None	62620544	62621814	-1	None	UHG, NCRNA00057, LINC00057
11	SNHG1	ENSG00000255717	ENST00000540865	retained_intron	KNOWN	None	32688	None	None	62620545	62622960	-1	None	UHG, NCRNA00057, LINC00057
11	SNHG1	ENSG00000255717	ENST00000535689	retained_intron	KNOWN	None	32688	None	None	62620826	62622960	-1	None	UHG, NCRNA00057, LINC00057
11	SNHG1	ENSG00000255717	ENST00000537024	retained_intron	KNOWN	None	32688	None	None	62621019	62622951	-1	None	UHG, NCRNA00057, LINC00057
11	SNHG1	ENSG00000255717	ENST00000539303	lincRNA	KNOWN	None	32688	None	None	62621045	62622646	-1	None	UHG, NCRNA00057, LINC00057
11	SNHG1	ENSG00000255717	ENST00000541416	retained_intron	KNOWN	None	32688	None	None	62621552	62623284	-1	None	UHG, NCRNA00057, LINC00057
11	SNHG1	ENSG00000255717	ENST00000537965	retained_intron	KNOWN	None	32688	None	None	62621840	62622960	-1	None	UHG, NCRNA00057, LINC00057
11	SNHG1	ENSG00000255717	ENST00000545308	retained_intron	KNOWN	None	32688	None	None	62621914	62622960	-1	None	UHG, NCRNA00057, LINC00057
11	SNHG1	ENSG00000255717	ENST00000540904	retained_intron	KNOWN	None	32688	None	None	62622152	62622960	-1	None	UHG, NCRNA00057, LINC00057
11	SNHG1	ENSG00000255717	ENST00000544983	retained_intron	KNOWN	None	32688	None	None	62622154	62623230	-1	None	UHG, NCRNA00057, LINC00057
11	SNHG1	ENSG00000255717	ENST00000384756	snoRNA	KNOWN	None	32688	None	None	62620382	62620507	-1	None	UHG, NCRNA00057, LINC00057
11	SNHG1	ENSG00000255717	ENST00000364799	snoRNA	KNOWN	None	32688	None	None	62620797	62620867	-1	None	UHG, NCRNA00057, LINC00057
11	SNHG1	ENSG00000255717	ENST00000384693	snoRNA	KNOWN	None	32688	None	None	62621135	62621204	-1	None	UHG, NCRNA00057, LINC00057
11	SNHG1	ENSG00000255717	ENST00000383926	snoRNA	KNOWN	None	32688	None	None	62621376	62621440	-1	None	UHG, NCRNA00057, LINC00057
11	SNHG1	ENSG00000255717	ENST00000516331	snoRNA	KNOWN	None	32688	None	None	62621633	62621757	-1	None	UHG, NCRNA00057, LINC00057
11	SNHG1	ENSG00000255717	ENST00000384706	snoRNA	KNOWN	None	32688	None	None	62622093	62622167	-1	None	UHG, NCRNA00057, LINC00057
11	SNHG1	ENSG00000255717	ENST00000363981	snoRNA	KNOWN	None	32688	None	None	62622484	62622555	-1	None	UHG, NCRNA00057, LINC00057
11	SNHG1	ENSG00000255717	ENST00000384147	snoRNA	KNOWN	None	32688	None	None	62622764	62622838	-1	None	UHG, NCRNA00057, LINC00057
11	SNHG1	ENSG00000255717	ENST00000365607	snoRNA	KNOWN	None	32688	None	None	62623040	62623102	-1	None	UHG, NCRNA00057, LINC00057
11	None	ENSG00000269939	ENST00000602322	lincRNA	KNOWN	None	None	None	None	82896563	82898078	-1	None	None
14	UNC79	ENSG00000133958	ENST00000256339	protein_coding	KNOWN	CCDS9911	19966	7377	2458	93799565	94173618	1	KIAA1409	None
14	UNC79	ENSG00000133958	ENST00000555664	protein_coding	NOVEL	None	19966	7791	2596	93896683	94173250	1	KIAA1409	None
14	UNC79	ENSG00000133958	ENST00000553484	protein_coding	KNOWN	None	19966	7974	2657	93897222	94174222	1	KIAA1409	None
14	UNC79	ENSG00000133958	ENST00000393151	protein_coding	KNOWN	None	19966	7908	2635	93897376	94173250	1	KIAA1409	None
14	UNC79	ENSG00000133958	ENST00000554549	retained_intron	KNOWN	None	19966	None	None	94155339	94173689	1	KIAA1409	None
17	None	ENSG00000263786	ENST00000579554	sense_intronic	KNOWN	None	None	None	None	73141356	73142641	-1	None	None
16	TBL3	ENSG00000183751	ENST00000568546	protein_coding	KNOWN	CCDS10453	11587	2427	808	2022038	2032934	1	None	SAZD, UTP13
16	TBL3	ENSG00000183751	ENST00000561907	nonsense_mediated_decay	KNOWN	None	11587	234	77	2022072	2024792	1	None	SAZD, UTP13
16	TBL3	ENSG00000183751	ENST00000569628	retained_intron	KNOWN	None	11587	None	None	2022087	2028685	1	None	SAZD, UTP13
16	TBL3	ENSG00000183751	ENST00000332704	protein_coding	NOVEL	None	11587	2091	696	2024580	2028685	1	None	SAZD, UTP13
16	TBL3	ENSG00000183751	ENST00000569792	retained_intron	KNOWN	None	11587	None	None	2025998	2027769	1	None	SAZD, UTP13
16	TBL3	ENSG00000183751	ENST00000564171	retained_intron	KNOWN	None	11587	None	None	2026070	2027673	1	None	SAZD, UTP13
16	TBL3	ENSG00000183751	ENST00000567615	retained_intron	KNOWN	None	11587	None	None	2027027	2028718	1	None	SAZD, UTP13
11	RNU7-28P	ENSG00000252568	ENST00000516759	snRNA	KNOWN	None	34124	None	None	9865362	9865423	-1	None	U7.28
X	None	ENSG00000228922	ENST00000445718	unprocessed_pseudogene	KNOWN	None	None	None	None	134335662	134349163	1	None	None
14	MED15P6	ENSG00000257162	ENST00000548027	transcribed_unprocessed_pseudogene	KNOWN	None	48655	None	None	20071068	20074896	1	None	None
14	MED15P6	ENSG00000257162	ENST00000552070	processed_transcript	KNOWN	None	48655	None	None	20071162	20073466	1	None	None
17	None	ENSG00000174977	ENST00000447794	processed_pseudogene	KNOWN	None	None	None	None	18553508	18554855	1	None	None
17	None	ENSG00000174977	ENST00000308863	processed_pseudogene	KNOWN	None	None	None	None	18553509	18554855	1	None	None
7	TUBB3P2	ENSG00000230101	ENST00000480063	processed_pseudogene	KNOWN	None	42181	None	None	134419649	134419880	-1	None	None
7	TUBB3P2	ENSG00000230101	ENST00000536303	processed_pseudogene	KNOWN	None	42181	None	None	134419649	134419945	-1	None	None
17	None	ENSG00000252042	ENST00000516233	misc_RNA	NOVEL	None	None	None	None	73141765	73141857	1	None	None
11	None	ENSG00000255541	ENST00000533906	processed_pseudogene	KNOWN	None	None	None	None	82920441	82920676	1	None	None
HG1293_PATCH	FAM72A	ENSG00000263687	ENST00000584006	protein_coding	KNOWN	None	24044	450	149	206249817	206265981	-1	None	MGC57827, RP11-312O7.1
X	None	ENSG00000233688	ENST00000451418	processed_pseudogene	KNOWN	None	None	None	None	154147853	154148457	-1	None	None
17	None	ENSG00000265242	ENST00000580169	lincRNA	KNOWN	None	None	None	None	73161681	73163344	-1	None	None
7	RN7SL142P	ENSG00000266453	ENST00000585137	misc_RNA	KNOWN	None	46158	None	None	157098487	157098765	1	None	None
17	None	ENSG00000264885	ENST00000578214	sense_intronic	KNOWN	None	None	None	None	18570942	18572774	-1	None	None
2	TMEM87B	ENSG00000153214	ENST00000283206	protein_coding	KNOWN	CCDS33275	25913	1668	555	112812800	112876895	1	None	FLJ14681
2	TMEM87B	ENSG00000153214	ENST00000452614	protein_coding	NOVEL	None	25913	552	183	112813297	112838988	1	None	FLJ14681
2	TMEM87B	ENSG00000153214	ENST00000452029	nonsense_mediated_decay	KNOWN	None	25913	337	111	112813297	112838988	1	None	FLJ14681
2	TMEM87B	ENSG00000153214	ENST00000463427	processed_transcript	KNOWN	None	25913	None	None	112843601	112863487	1	None	FLJ14681
2	TMEM87B	ENSG00000153214	ENST00000471632	processed_transcript	KNOWN	None	25913	None	None	112847209	112873916	1	None	FLJ14681
3	None	ENSG00000269982	ENST00000602436	antisense	KNOWN	None	None	None	None	10000401	10004223	1	None	None
17	None	ENSG00000263843	ENST00000585075	antisense	KNOWN	None	None	None	None	73267450	73269976	1	None	None
17	None	ENSG00000263843	ENST00000582668	antisense	KNOWN	None	None	None	None	73267479	73269803	1	None	None
11	None	ENSG00000254551	ENST00000531869	antisense	KNOWN	None	None	None	None	82920473	82924421	-1	None	None
6	None	ENSG00000216378	ENST00000404225	processed_pseudogene	KNOWN	None	None	None	None	100625085	100626068	1	None	None
1	UBE2J2	ENSG00000160087	ENST00000450390	nonsense_mediated_decay	KNOWN	None	19268	132	43	1189289	1209233	-1	None	Ubc6p, NCUBE2
1	UBE2J2	ENSG00000160087	ENST00000349431	protein_coding	KNOWN	CCDS14	19268	780	259	1189850	1209265	-1	None	Ubc6p, NCUBE2
1	UBE2J2	ENSG00000160087	ENST00000400929	protein_coding	KNOWN	CCDS16	19268	624	207	1190365	1209235	-1	None	Ubc6p, NCUBE2
1	UBE2J2	ENSG00000160087	ENST00000464036	nonsense_mediated_decay	KNOWN	None	19268	318	105	1190428	1209244	-1	None	Ubc6p, NCUBE2
1	UBE2J2	ENSG00000160087	ENST00000360466	protein_coding	KNOWN	CCDS14	19268	780	259	1190544	1209106	-1	None	Ubc6p, NCUBE2
1	UBE2J2	ENSG00000160087	ENST00000400930	protein_coding	KNOWN	CCDS15	19268	828	275	1190558	1209213	-1	None	Ubc6p, NCUBE2
1	UBE2J2	ENSG00000160087	ENST00000467339	processed_transcript	KNOWN	None	19268	None	None	1190644	1191715	-1	None	Ubc6p, NCUBE2
1	UBE2J2	ENSG00000160087	ENST00000473215	nonsense_mediated_decay	KNOWN	None	19268	135	44	1190648	1209229	-1	None	Ubc6p, NCUBE2
1	UBE2J2	ENSG00000160087	ENST00000435198	protein_coding	KNOWN	None	19268	588	195	1190775	1209224	-1	None	Ubc6p, NCUBE2
1	UBE2J2	ENSG00000160087	ENST00000509720	protein_coding	PUTATIVE	None	19268	181	59	1190819	1209207	-1	None	Ubc6p, NCUBE2
1	UBE2J2	ENSG00000160087	ENST00000491779	processed_transcript	KNOWN	None	19268	None	None	1191429	1209170	-1	None	Ubc6p, NCUBE2
1	UBE2J2	ENSG00000160087	ENST00000466752	nonsense_mediated_decay	KNOWN	None	19268	135	44	1192372	1209195	-1	None	Ubc6p, NCUBE2
1	UBE2J2	ENSG00000160087	ENST00000503294	nonsense_mediated_decay	KNOWN	None	19268	135	44	1192391	1209213	-1	None	Ubc6p, NCUBE2
1	UBE2J2	ENSG00000160087	ENST00000477894	nonsense_mediated_decay	KNOWN	None	19268	303	100	1192429	1209234	-1	None	Ubc6p, NCUBE2
1	UBE2J2	ENSG00000160087	ENST00000471154	retained_intron	KNOWN	None	19268	None	None	1192502	1198949	-1	None	Ubc6p, NCUBE2
1	UBE2J2	ENSG00000160087	ENST00000422076	protein_coding	KNOWN	None	19268	304	100	1192607	1209217	-1	None	Ubc6p, NCUBE2
1	UBE2J2	ENSG00000160087	ENST00000502382	protein_coding	KNOWN	None	19268	213	70	1192650	1209234	-1	None	Ubc6p, NCUBE2
1	UBE2J2	ENSG00000160087	ENST00000461142	retained_intron	KNOWN	None	19268	None	None	1198233	1209217	-1	None	Ubc6p, NCUBE2
1	UBE2J2	ENSG00000160087	ENST00000488418	protein_coding	KNOWN	None	19268	131	42	1203242	1208851	-1	None	Ubc6p, NCUBE2
1	UBE2J2	ENSG00000160087	ENST00000339385	protein_coding	KNOWN	None	19268	675	224	1190285	1201503	-1	None	Ubc6p, NCUBE2
1	UBE2J2	ENSG00000160087	ENST00000347370	protein_coding	KNOWN	CCDS16	19268	624	207	1189294	1209234	-1	None	Ubc6p, NCUBE2
1	UBE2J2	ENSG00000160087	ENST00000348298	protein_coding	KNOWN	CCDS16	19268	624	207	1190285	1209244	-1	None	Ubc6p, NCUBE2
2	None	ENSG00000237940	ENST00000429456	lincRNA	KNOWN	None	None	None	None	242912834	242919427	1	None	None
2	None	ENSG00000237940	ENST00000416204	lincRNA	KNOWN	None	None	None	None	242913151	242914050	1	None	None
2	None	ENSG00000237940	ENST00000426962	lincRNA	KNOWN	None	None	None	None	242913429	242914075	1	None	None
2	None	ENSG00000237940	ENST00000451070	retained_intron	KNOWN	None	None	None	None	242914189	242916680	1	None	None
3	None	ENSG00000235236	ENST00000415982	antisense	KNOWN	None	None	None	None	49017351	49021418	-1	None	None
3	None	ENSG00000235236	ENST00000429681	antisense	KNOWN	None	None	None	None	49017365	49021299	-1	None	None
17	FOXO3B	ENSG00000240445	ENST00000395675	processed_pseudogene	KNOWN	None	3822	None	None	18574259	18576186	-1	FKHRL1P1	None
11	None	ENSG00000254765	ENST00000533128	processed_pseudogene	KNOWN	None	None	None	None	9980291	9981337	-1	None	None
1	AKR7A3	ENSG00000162482	ENST00000361640	protein_coding	KNOWN	CCDS193	390	996	331	19609052	19615744	-1	None	None
12	None	ENSG00000249388	ENST00000504891	lincRNA	KNOWN	None	None	None	None	54475902	54496477	1	None	None
8	RPS29P2	ENSG00000239281	ENST00000479278	processed_pseudogene	KNOWN	None	31083	None	None	41128950	41129085	1	None	HsT23291
15	ULK4P3	ENSG00000178081	ENST00000565158	processed_transcript	PUTATIVE	None	15777	None	None	30395923	30423430	1	FAM7A3	D-X
15	ULK4P3	ENSG00000178081	ENST00000566138	processed_transcript	PUTATIVE	None	15777	None	None	30395925	30406231	1	FAM7A3	D-X
15	ULK4P3	ENSG00000178081	ENST00000568274	processed_transcript	PUTATIVE	None	15777	None	None	30395926	30423413	1	FAM7A3	D-X
15	ULK4P3	ENSG00000178081	ENST00000568486	processed_transcript	PUTATIVE	None	15777	None	None	30395935	30423960	1	FAM7A3	D-X
15	ULK4P3	ENSG00000178081	ENST00000563895	transcribed_unprocessed_pseudogene	KNOWN	None	15777	None	None	30402505	30419988	1	FAM7A3	D-X
15	ULK4P3	ENSG00000178081	ENST00000341955	unprocessed_pseudogene	KNOWN	None	15777	None	None	30406142	30423944	1	FAM7A3	D-X
HG536_PATCH	None	ENSG00000260348	ENST00000563932	lincRNA	KNOWN	None	None	None	None	69723952	69725762	-1	None	None
17	None	ENSG00000257073	ENST00000535682	pseudogene	NOVEL	None	None	None	None	73314159	73315410	-1	None	None
14	None	ENSG00000258798	ENST00000557524	lincRNA	KNOWN	None	None	None	None	91884610	91887520	1	None	None
3	LXN	ENSG00000079257	ENST00000482640	protein_coding	PUTATIVE	None	13347	472	156	158363611	158387382	-1	None	None
3	LXN	ENSG00000079257	ENST00000264265	protein_coding	KNOWN	CCDS3183	13347	669	222	158384203	158390482	-1	None	None
6	None	ENSG00000228082	ENST00000411442	antisense	KNOWN	None	None	None	None	100874994	100885360	1	None	None
12	FAR2	ENSG00000064763	ENST00000551451	protein_coding	PUTATIVE	None	25531	132	43	29302036	29450011	1	MLSTD1	FLJ10462, SDR10E2
12	FAR2	ENSG00000064763	ENST00000536681	protein_coding	KNOWN	CCDS8717	25531	1548	515	29302133	29487006	1	MLSTD1	FLJ10462, SDR10E2
12	FAR2	ENSG00000064763	ENST00000549080	processed_transcript	PUTATIVE	None	25531	None	None	29302143	29324983	1	MLSTD1	FLJ10462, SDR10E2
12	FAR2	ENSG00000064763	ENST00000547411	processed_transcript	KNOWN	None	25531	None	None	29302186	29450129	1	MLSTD1	FLJ10462, SDR10E2
12	FAR2	ENSG00000064763	ENST00000550541	processed_transcript	KNOWN	None	25531	None	None	29302253	29304807	1	MLSTD1	FLJ10462, SDR10E2
12	FAR2	ENSG00000064763	ENST00000182377	protein_coding	KNOWN	CCDS8717	25531	1548	515	29376598	29487006	1	MLSTD1	FLJ10462, SDR10E2
12	FAR2	ENSG00000064763	ENST00000547116	protein_coding	PUTATIVE	None	25531	1257	418	29376678	29487005	1	MLSTD1	FLJ10462, SDR10E2
12	FAR2	ENSG00000064763	ENST00000552137	nonsense_mediated_decay	KNOWN	None	25531	204	67	29423382	29460768	1	MLSTD1	FLJ10462, SDR10E2
12	FAR2	ENSG00000064763	ENST00000551193	protein_coding	PUTATIVE	None	25531	258	85	29474837	29493913	1	MLSTD1	FLJ10462, SDR10E2
12	FAR2	ENSG00000064763	ENST00000547759	protein_coding	PUTATIVE	None	25531	68	21	29485621	29487005	1	MLSTD1	FLJ10462, SDR10E2
3	None	ENSG00000250934	ENST00000511512	lincRNA	KNOWN	None	None	None	None	125985639	126010122	1	None	None
3	None	ENSG00000250934	ENST00000512435	lincRNA	KNOWN	None	None	None	None	125985660	126007260	1	None	None
8	None	ENSG00000253509	ENST00000517495	sense_intronic	KNOWN	None	None	None	None	41132634	41134522	-1	None	None
7	None	ENSG00000234210	ENST00000444158	lincRNA	KNOWN	None	None	None	None	157258925	157292410	1	None	None
11	None	ENSG00000271751	ENST00000607857	lincRNA	KNOWN	None	None	None	None	118935974	118936388	-1	None	None
9	RNU6-357P	ENSG00000251723	ENST00000515914	snRNA	KNOWN	None	47320	None	None	135729205	135729269	1	None	None
7	None	ENSG00000223500	ENST00000427378	processed_pseudogene	KNOWN	None	None	None	None	134813196	134814437	1	None	None
15	None	ENSG00000259306	ENST00000559672	lincRNA	KNOWN	None	None	None	None	51608038	51614193	1	None	None
6	None	ENSG00000220695	ENST00000406773	processed_pseudogene	KNOWN	None	None	None	None	100978152	100978928	1	None	None
9	MIR548AW	ENSG00000263816	ENST00000584899	miRNA	KNOWN	None	43454	None	None	135821094	135821158	1	None	hsa-mir-548aw
14	None	ENSG00000258559	ENST00000554532	sense_overlapping	KNOWN	None	None	None	None	74755830	74761128	-1	None	None
20	RNU7-14P	ENSG00000238468	ENST00000459331	snRNA	KNOWN	None	34110	None	None	52285236	52285297	-1	None	U7.14
17	None	ENSG00000228007	ENST00000413334	processed_pseudogene	KNOWN	None	None	None	None	73334908	73335228	1	None	None
9	CTNNAL1	ENSG00000119326	ENST00000374595	protein_coding	KNOWN	None	2512	2157	718	111704851	111775802	-1	None	CLLP, alpha-CATU
9	CTNNAL1	ENSG00000119326	ENST00000325551	protein_coding	KNOWN	CCDS6775	2512	2205	734	111704851	111775809	-1	None	CLLP, alpha-CATU
9	CTNNAL1	ENSG00000119326	ENST00000374594	protein_coding	KNOWN	None	2512	408	135	111704859	111725835	-1	None	CLLP, alpha-CATU
9	CTNNAL1	ENSG00000119326	ENST00000488130	processed_transcript	KNOWN	None	2512	None	None	111734955	111739700	-1	None	CLLP, alpha-CATU
9	CTNNAL1	ENSG00000119326	ENST00000374593	protein_coding	KNOWN	None	2512	552	183	111754176	111775792	-1	None	CLLP, alpha-CATU
9	CTNNAL1	ENSG00000119326	ENST00000325580	protein_coding	KNOWN	None	2512	1953	650	111704858	111775779	-1	None	CLLP, alpha-CATU
11	None	ENSG00000255042	ENST00000531666	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	50246832	50254505	-1	None	None
9	None	ENSG00000233800	ENST00000443690	sense_intronic	KNOWN	None	None	None	None	135822456	135826943	1	None	None
9	None	ENSG00000233800	ENST00000524638	sense_intronic	KNOWN	None	None	None	None	135825077	135826940	1	None	None
5	RNU6-363P	ENSG00000199765	ENST00000362895	snRNA	KNOWN	None	47326	None	None	31595672	31595776	-1	None	None
X	None	ENSG00000235991	ENST00000502880	unprocessed_pseudogene	KNOWN	None	None	None	None	154365386	154384778	1	None	None
14	None	ENSG00000258446	ENST00000557756	processed_pseudogene	KNOWN	None	None	None	None	91885793	91886095	1	None	None
17	None	ENSG00000265987	ENST00000585081	antisense	KNOWN	None	None	None	None	73340486	73369743	1	None	None
5	None	ENSG00000248624	ENST00000509750	sense_intronic	KNOWN	None	None	None	None	31657325	31665174	1	None	None
3	None	ENSG00000180385	ENST00000366264	processed_transcript	KNOWN	None	None	None	None	10028577	10044449	1	None	None
3	None	ENSG00000180385	ENST00000326237	processed_transcript	KNOWN	None	None	None	None	10028595	10046928	1	None	None
3	None	ENSG00000180385	ENST00000440568	processed_transcript	KNOWN	None	None	None	None	10028899	10044781	1	None	None
3	None	ENSG00000180385	ENST00000438698	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	10029588	10036015	1	None	None
3	None	ENSG00000180385	ENST00000424904	processed_transcript	KNOWN	None	None	None	None	10030389	10044790	1	None	None
3	None	ENSG00000180385	ENST00000430621	processed_transcript	KNOWN	None	None	None	None	10045952	10048674	1	None	None
5	GUSBP9	ENSG00000215630	ENST00000510138	unprocessed_pseudogene	KNOWN	None	42323	None	None	70493473	70503957	-1	None	None
5	GUSBP9	ENSG00000215630	ENST00000546341	unprocessed_pseudogene	KNOWN	None	42323	None	None	70435716	70493614	-1	None	None
5	GUSBP9	ENSG00000215630	ENST00000453222	unprocessed_pseudogene	KNOWN	None	42323	None	None	70498111	70585611	-1	None	None
11	None	ENSG00000272186	ENST00000607709	antisense	KNOWN	None	None	None	None	118938085	118938409	-1	None	None
11	None	ENSG00000241020	ENST00000463987	processed_pseudogene	KNOWN	None	None	None	None	82924047	82924446	1	None	None
6	None	ENSG00000260000	ENST00000565695	antisense	KNOWN	None	None	None	None	101329347	101330863	1	None	None
17	None	ENSG00000264853	ENST00000578539	sense_intronic	KNOWN	None	None	None	None	73367028	73369817	-1	None	None
10	None	ENSG00000237389	ENST00000431956	lincRNA	KNOWN	None	None	None	None	44126330	44127012	-1	None	None
20	None	ENSG00000225563	ENST00000423233	lincRNA	KNOWN	None	None	None	None	52416362	52417857	-1	None	None
15	None	ENSG00000270378	ENST00000605745	processed_pseudogene	KNOWN	None	None	None	None	51643297	51643389	-1	None	None
17	None	ENSG00000265342	ENST00000578226	antisense	KNOWN	None	None	None	None	73390204	73391044	1	None	None
14	None	ENSG00000268295	ENST00000594073	transcribed_processed_pseudogene	KNOWN	None	None	None	None	92069517	92069777	-1	None	None
14	SOCS4	ENSG00000180008	ENST00000395472	protein_coding	KNOWN	CCDS9722	19392	1323	440	55493948	55516206	1	SOCS7	None
14	SOCS4	ENSG00000180008	ENST00000555846	protein_coding	KNOWN	CCDS9722	19392	1323	440	55493966	55513426	1	SOCS7	None
14	SOCS4	ENSG00000180008	ENST00000553735	processed_transcript	PUTATIVE	None	19392	None	None	55493999	55498712	1	SOCS7	None
14	SOCS4	ENSG00000180008	ENST00000339298	protein_coding	KNOWN	CCDS9722	19392	1323	440	55494345	55516204	1	SOCS7	None
12	None	ENSG00000260423	ENST00000567749	lincRNA	KNOWN	None	None	None	None	9520060	9550213	1	None	None
10	None	ENSG00000238263	ENST00000436649	processed_pseudogene	KNOWN	None	None	None	None	44126395	44126830	1	None	None
5	ZFR	ENSG00000056097	ENST00000265069	protein_coding	KNOWN	CCDS34139	17277	3225	1074	32354456	32444867	-1	None	ZFR1
5	ZFR	ENSG00000056097	ENST00000514356	retained_intron	KNOWN	None	17277	None	None	32354457	32380530	-1	None	ZFR1
5	ZFR	ENSG00000056097	ENST00000502988	retained_intron	KNOWN	None	17277	None	None	32354735	32365044	-1	None	ZFR1
5	ZFR	ENSG00000056097	ENST00000510369	processed_transcript	KNOWN	None	17277	None	None	32354958	32383925	-1	None	ZFR1
5	ZFR	ENSG00000056097	ENST00000507465	nonsense_mediated_decay	KNOWN	None	17277	547	181	32355754	32390423	-1	None	ZFR1
5	ZFR	ENSG00000056097	ENST00000505366	retained_intron	KNOWN	None	17277	None	None	32406832	32444844	-1	None	ZFR1
5	ZFR	ENSG00000056097	ENST00000505204	retained_intron	KNOWN	None	17277	None	None	32419925	32444602	-1	None	ZFR1
5	None	ENSG00000248878	ENST00000504053	transcribed_processed_pseudogene	KNOWN	None	None	None	None	31725646	31726009	-1	None	None
15	None	ENSG00000261554	ENST00000564941	processed_pseudogene	KNOWN	None	None	None	None	21098712	21099309	-1	None	None
17	MIR3678	ENSG00000264511	ENST00000578455	miRNA	KNOWN	None	38891	None	None	73402150	73402243	1	None	hsa-mir-3678
5	None	ENSG00000249114	ENST00000504817	sense_intronic	KNOWN	None	None	None	None	31738376	31738767	1	None	None
5	DND1	ENSG00000256453	ENST00000542735	protein_coding	KNOWN	CCDS4236	23799	1062	353	140050379	140053171	-1	None	MGC34750, RBMS4
7	None	ENSG00000223872	ENST00000449903	lincRNA	KNOWN	None	None	None	None	157294016	157296271	1	None	None
X	RNU6-589P	ENSG00000252294	ENST00000516485	snRNA	KNOWN	None	47552	None	None	101933635	101933741	-1	None	None
15	None	ENSG00000259194	ENST00000558785	sense_intronic	KNOWN	None	None	None	None	51659574	51661307	1	None	None
1	SMIM1	ENSG00000235169	ENST00000444870	protein_coding	NOVEL	CCDS57966	44204	237	78	3689352	3692546	1	None	Vel
1	SMIM1	ENSG00000235169	ENST00000452264	protein_coding	NOVEL	None	44204	15	4	3689389	3691952	1	None	Vel
1	SMIM1	ENSG00000235169	ENST00000561886	protein_coding	PUTATIVE	None	44204	114	37	3689627	3692234	1	None	Vel
17	RNU6-938P	ENSG00000223217	ENST00000411285	snRNA	KNOWN	None	47901	None	None	73405167	73405269	-1	None	None
12	None	ENSG00000257196	ENST00000550766	processed_transcript	KNOWN	None	None	None	None	94208912	94209885	1	None	None
15	None	ENSG00000258799	ENST00000557032	processed_pseudogene	KNOWN	None	None	None	None	21106770	21106938	-1	None	None
10	ZNF32-AS1	ENSG00000226245	ENST00000453284	antisense	KNOWN	None	23577	None	None	44139320	44140495	1	ZNF32OS1	bA402L1.8
8	None	ENSG00000254608	ENST00000521465	unprocessed_pseudogene	KNOWN	None	None	None	None	55561553	55782463	1	None	None
17	None	ENSG00000202332	ENST00000365462	misc_RNA	NOVEL	None	None	None	None	73428071	73428168	1	None	None
HG998_2_PATCH	GPSM1	ENSG00000260789	ENST00000563430	protein_coding	KNOWN	None	17858	1959	652	139242350	139267507	1	None	AGS3, DKFZP727I051
HG998_2_PATCH	GPSM1	ENSG00000260789	ENST00000562213	protein_coding	KNOWN	None	17858	501	166	139262710	139266445	1	None	AGS3, DKFZP727I051
HG998_2_PATCH	GPSM1	ENSG00000260789	ENST00000563222	protein_coding	KNOWN	None	17858	501	166	139263432	139267503	1	None	AGS3, DKFZP727I051
HG998_2_PATCH	GPSM1	ENSG00000260789	ENST00000561941	protein_coding	KNOWN	None	17858	1374	457	139235598	139249062	1	None	AGS3, DKFZP727I051
X	None	ENSG00000230320	ENST00000422058	processed_pseudogene	KNOWN	None	None	None	None	101960712	101961168	1	None	None
12	None	ENSG00000250432	ENST00000513381	lincRNA	KNOWN	None	None	None	None	54478916	54519614	-1	None	None
12	None	ENSG00000250432	ENST00000508763	lincRNA	KNOWN	None	None	None	None	54507797	54519675	-1	None	None
12	None	ENSG00000250432	ENST00000504278	lincRNA	KNOWN	None	None	None	None	54515060	54519678	-1	None	None
12	None	ENSG00000250432	ENST00000505661	retained_intron	KNOWN	None	None	None	None	54515063	54519776	-1	None	None
10	ZNF32-AS2	ENSG00000230565	ENST00000418966	antisense	KNOWN	None	23593	None	None	44141390	44143467	1	ZNF32OS2	b402L1.7
17	None	ENSG00000265636	ENST00000579379	miRNA	NOVEL	None	None	None	None	73492726	73492837	1	None	None
7	C7orf60	ENSG00000164603	ENST00000297145	protein_coding	KNOWN	CCDS43634	26475	1218	405	112459202	112579971	-1	None	DKFZp762M126, FLJ31818
7	C7orf60	ENSG00000164603	ENST00000432572	protein_coding	NOVEL	None	26475	1164	387	112461692	112579673	-1	None	DKFZp762M126, FLJ31818
7	C7orf60	ENSG00000164603	ENST00000485446	processed_transcript	KNOWN	None	26475	None	None	112462408	112579353	-1	None	DKFZp762M126, FLJ31818
6	None	ENSG00000220739	ENST00000402316	processed_pseudogene	KNOWN	None	None	None	None	145029242	145029633	-1	None	None
11	IFITM3	ENSG00000142089	ENST00000399808	protein_coding	KNOWN	CCDS41585	5414	402	133	319669	321050	-1	None	1-8U
11	IFITM3	ENSG00000142089	ENST00000531688	nonsense_mediated_decay	KNOWN	None	5414	167	54	319746	320683	-1	None	1-8U
11	IFITM3	ENSG00000142089	ENST00000526811	protein_coding	PUTATIVE	None	5414	339	112	319773	321340	-1	None	1-8U
11	IFITM3	ENSG00000142089	ENST00000602735	protein_coding	PUTATIVE	None	5414	339	112	319773	327537	-1	None	1-8U
17	None	ENSG00000264829	ENST00000583910	antisense	KNOWN	None	None	None	None	73675554	73676047	-1	None	None
HG990_PATCH	None	ENSG00000260707	ENST00000570071	antisense	PUTATIVE	None	None	None	None	254332	263814	-1	None	None
11	None	ENSG00000255001	ENST00000529536	processed_pseudogene	KNOWN	None	None	None	None	50249920	50250104	1	None	None
8	SPAG11B	ENSG00000164871	ENST00000528943	protein_coding	PUTATIVE	None	14534	321	106	7300206	7320974	-1	None	HE2, EP2, EP2C, EP2D, EDDM2B
8	SPAG11B	ENSG00000164871	ENST00000528767	nonsense_mediated_decay	KNOWN	None	14534	162	53	7305275	7320379	-1	None	HE2, EP2, EP2C, EP2D, EDDM2B
8	SPAG11B	ENSG00000164871	ENST00000359758	protein_coding	KNOWN	CCDS5964	14534	327	108	7305275	7321048	-1	None	HE2, EP2, EP2C, EP2D, EDDM2B
8	SPAG11B	ENSG00000164871	ENST00000361111	protein_coding	KNOWN	CCDS5965	14534	249	82	7305275	7321048	-1	None	HE2, EP2, EP2C, EP2D, EDDM2B
8	SPAG11B	ENSG00000164871	ENST00000297498	protein_coding	KNOWN	CCDS5966	14534	312	103	7308085	7321192	-1	None	HE2, EP2, EP2C, EP2D, EDDM2B
8	SPAG11B	ENSG00000164871	ENST00000458665	protein_coding	PUTATIVE	None	14534	243	80	7308086	7309887	-1	None	HE2, EP2, EP2C, EP2D, EDDM2B
8	SPAG11B	ENSG00000164871	ENST00000528168	protein_coding	PUTATIVE	None	14534	153	50	7308125	7309887	-1	None	HE2, EP2, EP2C, EP2D, EDDM2B
8	SPAG11B	ENSG00000164871	ENST00000398462	protein_coding	KNOWN	CCDS47774	14534	402	133	7308133	7321176	-1	None	HE2, EP2, EP2C, EP2D, EDDM2B
8	SPAG11B	ENSG00000164871	ENST00000317900	protein_coding	KNOWN	CCDS5967	14534	342	113	7318636	7321196	-1	None	HE2, EP2, EP2C, EP2D, EDDM2B
3	None	ENSG00000223343	ENST00000452042	antisense	KNOWN	None	None	None	None	49022482	49027421	-1	None	None
3	CIDEC	ENSG00000187288	ENST00000336832	protein_coding	KNOWN	CCDS2587	24229	717	238	9908398	9920740	-1	None	CIDE-3, FLJ20871, Fsp27
3	CIDEC	ENSG00000187288	ENST00000455015	protein_coding	KNOWN	None	24229	495	164	9908398	9920740	-1	None	CIDE-3, FLJ20871, Fsp27
3	CIDEC	ENSG00000187288	ENST00000423850	protein_coding	KNOWN	None	24229	495	164	9908398	9921935	-1	None	CIDE-3, FLJ20871, Fsp27
3	CIDEC	ENSG00000187288	ENST00000430427	protein_coding	NOVEL	CCDS56239	24229	747	248	9908713	9920195	-1	None	CIDE-3, FLJ20871, Fsp27
3	CIDEC	ENSG00000187288	ENST00000443115	protein_coding	NOVEL	None	24229	402	133	9908747	9920172	-1	None	CIDE-3, FLJ20871, Fsp27
3	CIDEC	ENSG00000187288	ENST00000487454	retained_intron	KNOWN	None	24229	None	None	9919567	9921938	-1	None	CIDE-3, FLJ20871, Fsp27
3	CIDEC	ENSG00000187288	ENST00000383817	protein_coding	KNOWN	None	24229	402	133	9908399	9920740	-1	None	CIDE-3, FLJ20871, Fsp27
1	None	ENSG00000240453	ENST00000435300	processed_transcript	KNOWN	None	None	None	None	745489	753092	-1	None	None
16	SNORD71	ENSG00000223224	ENST00000411292	snoRNA	KNOWN	None	32732	None	None	71792305	71792390	-1	MIRN768	HBII-239, hsa-mir-768
20	SUMO1P1	ENSG00000241721	ENST00000497904	processed_pseudogene	KNOWN	None	33148	None	None	52491791	52492096	-1	UBL2, UBL6	PIC1L
10	None	ENSG00000228426	ENST00000418426	lincRNA	KNOWN	None	None	None	None	44161116	44162453	1	None	None
15	NF1P1	ENSG00000270831	ENST00000604105	unprocessed_pseudogene	KNOWN	None	7772	None	None	21122015	21140987	-1	None	NF1HHS
14	IGHVII-40-1	ENSG00000253294	ENST00000517316	IG_V_pseudogene	KNOWN	None	5679	None	None	106896861	106896918	-1	None	IGHV(II)-40-1
16	CLDN9	ENSG00000213937	ENST00000445369	protein_coding	KNOWN	CCDS10487	2051	654	217	3062457	3064506	1	None	None
HG987_PATCH	KCNJ12	ENSG00000261309	ENST00000567955	protein_coding	KNOWN	None	6258	1302	433	21279699	21320404	1	KCNJN1	Kir2.2, Kir2.2v, IRK2, hIRK1
16	PRSS22	ENSG00000005001	ENST00000161006	protein_coding	KNOWN	CCDS10481	14368	954	317	2902728	2908171	-1	None	hBSSP-4, BSSP-4, SP001LA
16	PRSS22	ENSG00000005001	ENST00000571228	protein_coding	NOVEL	None	14368	624	207	2902731	2908155	-1	None	hBSSP-4, BSSP-4, SP001LA
16	PRSS22	ENSG00000005001	ENST00000575164	retained_intron	KNOWN	None	14368	None	None	2902743	2905985	-1	None	hBSSP-4, BSSP-4, SP001LA
16	PRSS22	ENSG00000005001	ENST00000576381	nonsense_mediated_decay	KNOWN	None	14368	350	115	2903941	2907927	-1	None	hBSSP-4, BSSP-4, SP001LA
16	PRSS22	ENSG00000005001	ENST00000572061	retained_intron	KNOWN	None	14368	None	None	2903991	2905934	-1	None	hBSSP-4, BSSP-4, SP001LA
16	PRSS22	ENSG00000005001	ENST00000574768	processed_transcript	KNOWN	None	14368	None	None	2905637	2908169	-1	None	hBSSP-4, BSSP-4, SP001LA
16	PRSS22	ENSG00000005001	ENST00000577177	processed_transcript	KNOWN	None	14368	None	None	2905671	2907904	-1	None	hBSSP-4, BSSP-4, SP001LA
16	PRSS22	ENSG00000005001	ENST00000570950	retained_intron	KNOWN	None	14368	None	None	2905818	2907170	-1	None	hBSSP-4, BSSP-4, SP001LA
16	None	ENSG00000262140	ENST00000571108	unprocessed_pseudogene	KNOWN	None	None	None	None	71867690	71869835	1	None	None
17	None	ENSG00000264270	ENST00000582093	antisense	KNOWN	None	None	None	None	73679623	73680122	-1	None	None
17	None	ENSG00000264270	ENST00000585020	antisense	KNOWN	None	None	None	None	73679628	73680879	-1	None	None
12	None	ENSG00000256673	ENST00000540982	unprocessed_pseudogene	KNOWN	None	None	None	None	9550951	9567447	-1	None	None
8	COX6B1P6	ENSG00000253349	ENST00000522347	processed_pseudogene	KNOWN	None	37676	None	None	90835776	90836030	-1	None	None
5	HMHB1	ENSG00000158497	ENST00000289448	protein_coding	KNOWN	CCDS43376	29677	126	41	143191726	143200284	1	None	HB-1
7	SSPO	ENSG00000197558	ENST00000486824	processed_transcript	KNOWN	None	21998	None	None	149473524	149480379	1	None	SCO-spondin, KIAA0543, FLJ36112
7	SSPO	ENSG00000197558	ENST00000465080	processed_transcript	KNOWN	None	21998	None	None	149475035	149476773	1	None	SCO-spondin, KIAA0543, FLJ36112
7	SSPO	ENSG00000197558	ENST00000477518	processed_transcript	KNOWN	None	21998	None	None	149479955	149481960	1	None	SCO-spondin, KIAA0543, FLJ36112
7	SSPO	ENSG00000197558	ENST00000493502	retained_intron	KNOWN	None	21998	None	None	149480359	149481404	1	None	SCO-spondin, KIAA0543, FLJ36112
7	SSPO	ENSG00000197558	ENST00000475488	retained_intron	KNOWN	None	21998	None	None	149483308	149496170	1	None	SCO-spondin, KIAA0543, FLJ36112
7	SSPO	ENSG00000197558	ENST00000472797	processed_transcript	KNOWN	None	21998	None	None	149493481	149497518	1	None	SCO-spondin, KIAA0543, FLJ36112
7	SSPO	ENSG00000197558	ENST00000484709	processed_transcript	KNOWN	None	21998	None	None	149498883	149503065	1	None	SCO-spondin, KIAA0543, FLJ36112
7	SSPO	ENSG00000197558	ENST00000481772	processed_transcript	KNOWN	None	21998	None	None	149508003	149509723	1	None	SCO-spondin, KIAA0543, FLJ36112
7	SSPO	ENSG00000197558	ENST00000478854	processed_transcript	KNOWN	None	21998	None	None	149510866	149513561	1	None	SCO-spondin, KIAA0543, FLJ36112
7	SSPO	ENSG00000197558	ENST00000464974	processed_transcript	KNOWN	None	21998	None	None	149514703	149519209	1	None	SCO-spondin, KIAA0543, FLJ36112
7	SSPO	ENSG00000197558	ENST00000493567	processed_transcript	KNOWN	None	21998	None	None	149519194	149531068	1	None	SCO-spondin, KIAA0543, FLJ36112
7	SSPO	ENSG00000197558	ENST00000492965	processed_transcript	KNOWN	None	21998	None	None	149519233	149524980	1	None	SCO-spondin, KIAA0543, FLJ36112
7	SSPO	ENSG00000197558	ENST00000488835	processed_transcript	KNOWN	None	21998	None	None	149519233	149524980	1	None	SCO-spondin, KIAA0543, FLJ36112
7	SSPO	ENSG00000197558	ENST00000461331	processed_transcript	KNOWN	None	21998	None	None	149519233	149524980	1	None	SCO-spondin, KIAA0543, FLJ36112
7	SSPO	ENSG00000197558	ENST00000465639	retained_intron	KNOWN	None	21998	None	None	149521342	149531068	1	None	SCO-spondin, KIAA0543, FLJ36112
7	SSPO	ENSG00000197558	ENST00000472850	retained_intron	KNOWN	None	21998	None	None	149521651	149531067	1	None	SCO-spondin, KIAA0543, FLJ36112
7	SSPO	ENSG00000197558	ENST00000378016	processed_transcript	KNOWN	None	21998	None	None	149473131	149531054	1	None	SCO-spondin, KIAA0543, FLJ36112
7	SSPO	ENSG00000197558	ENST00000262089	processed_transcript	KNOWN	None	21998	None	None	149473131	149493165	1	None	SCO-spondin, KIAA0543, FLJ36112
15	None	ENSG00000261384	ENST00000562561	sense_intronic	KNOWN	None	None	None	None	74595346	74596684	1	None	None
7	None	ENSG00000231794	ENST00000412549	antisense	KNOWN	None	None	None	None	134883153	134885057	1	None	None
7	None	ENSG00000231794	ENST00000595902	antisense	KNOWN	None	None	None	None	134884311	134887108	1	None	None
11	None	ENSG00000254518	ENST00000525654	lincRNA	KNOWN	None	None	None	None	50257750	50261299	1	None	None
11	None	ENSG00000254518	ENST00000529219	lincRNA	KNOWN	None	None	None	None	50257789	50263827	1	None	None
17	MIR4738	ENSG00000263565	ENST00000579134	miRNA	KNOWN	None	41679	None	None	73780602	73780688	-1	None	hsa-mir-4738
14	IGHV3-41	ENSG00000253705	ENST00000519687	IG_V_pseudogene	KNOWN	None	5602	None	None	106899044	106899493	-1	None	None
2	TMEM150A	ENSG00000168890	ENST00000306353	protein_coding	KNOWN	None	24677	657	218	85825671	85829821	-1	TMEM150	TM6P1, FLJ90024
2	TMEM150A	ENSG00000168890	ENST00000431593	retained_intron	KNOWN	None	24677	None	None	85825672	85829792	-1	TMEM150	TM6P1, FLJ90024
2	TMEM150A	ENSG00000168890	ENST00000334462	protein_coding	KNOWN	CCDS33233	24677	816	271	85825685	85829801	-1	TMEM150	TM6P1, FLJ90024
2	TMEM150A	ENSG00000168890	ENST00000444380	retained_intron	KNOWN	None	24677	None	None	85825701	85829782	-1	TMEM150	TM6P1, FLJ90024
2	TMEM150A	ENSG00000168890	ENST00000409668	protein_coding	KNOWN	CCDS33233	24677	816	271	85825707	85829539	-1	TMEM150	TM6P1, FLJ90024
2	TMEM150A	ENSG00000168890	ENST00000463363	retained_intron	KNOWN	None	24677	None	None	85825776	85827113	-1	TMEM150	TM6P1, FLJ90024
2	TMEM150A	ENSG00000168890	ENST00000422458	nonsense_mediated_decay	KNOWN	None	24677	138	45	85826208	85828605	-1	TMEM150	TM6P1, FLJ90024
2	TMEM150A	ENSG00000168890	ENST00000451147	nonsense_mediated_decay	KNOWN	None	24677	138	45	85826715	85828888	-1	TMEM150	TM6P1, FLJ90024
2	TMEM150A	ENSG00000168890	ENST00000417791	retained_intron	KNOWN	None	24677	None	None	85826741	85829788	-1	TMEM150	TM6P1, FLJ90024
2	TMEM150A	ENSG00000168890	ENST00000425160	protein_coding	KNOWN	None	24677	201	66	85827050	85828881	-1	TMEM150	TM6P1, FLJ90024
2	TMEM150A	ENSG00000168890	ENST00000433956	nonsense_mediated_decay	KNOWN	None	24677	180	59	85827468	85829777	-1	TMEM150	TM6P1, FLJ90024
2	TMEM150A	ENSG00000168890	ENST00000455852	retained_intron	KNOWN	None	24677	None	None	85828384	85830319	-1	TMEM150	TM6P1, FLJ90024
HSCHR6_MHC_MCF	HSD17B8	ENSG00000232357	ENST00000422433	protein_coding	KNOWN	None	3554	786	261	33342783	33344972	1	FABGL	HKE6, D6S2245E, RING2, KE6, H2-KE6, SDR30C1
HSCHR6_MHC_MCF	HSD17B8	ENSG00000232357	ENST00000461067	processed_transcript	KNOWN	None	3554	None	None	33342827	33344590	1	FABGL	HKE6, D6S2245E, RING2, KE6, H2-KE6, SDR30C1
11	None	ENSG00000254865	ENST00000532735	antisense	KNOWN	None	None	None	None	10170739	10186656	1	None	None
15	None	ENSG00000259678	ENST00000561007	antisense	KNOWN	None	None	None	None	51706294	51791030	1	None	None
17	None	ENSG00000266980	ENST00000586808	antisense	KNOWN	None	None	None	None	73814896	73816136	-1	None	None
3	MIR425	ENSG00000199032	ENST00000362162	miRNA	KNOWN	None	31882	None	None	49057581	49057667	-1	MIRN425	hsa-mir-425
8	RNU6-892P	ENSG00000222267	ENST00000410335	snRNA	KNOWN	None	47855	None	None	20087290	20087388	1	None	None
11	None	ENSG00000254719	ENST00000532615	processed_pseudogene	KNOWN	None	None	None	None	10293599	10293806	-1	None	None
11	None	ENSG00000255234	ENST00000530045	antisense	KNOWN	None	None	None	None	82997171	83134559	1	None	None
11	None	ENSG00000255234	ENST00000534572	antisense	KNOWN	None	None	None	None	82997402	83016167	1	None	None
8	RNU6-925P	ENSG00000207359	ENST00000384629	snRNA	KNOWN	None	47888	None	None	90912949	90913052	-1	None	None
5	None	ENSG00000254133	ENST00000523404	unprocessed_pseudogene	KNOWN	None	None	None	None	70511133	70512314	1	None	None
7	None	ENSG00000233191	ENST00000433660	antisense	KNOWN	None	None	None	None	157305988	157309535	1	None	None
17	None	ENSG00000267801	ENST00000586076	antisense	KNOWN	None	None	None	None	73872453	73875627	1	None	None
8	LZTS1-AS1	ENSG00000253733	ENST00000523103	lincRNA	KNOWN	None	43630	None	None	20133284	20147969	1	None	None
8	LZTS1-AS1	ENSG00000253733	ENST00000363023	rRNA	KNOWN	None	43630	None	None	20147685	20147800	1	None	None
16	ZNF205-AS1	ENSG00000263214	ENST00000572691	antisense	KNOWN	None	28586	None	None	3160461	3165599	-1	None	MGC3771
16	ZNF205-AS1	ENSG00000263214	ENST00000576943	antisense	KNOWN	None	28586	None	None	3160513	3162490	-1	None	MGC3771
14	NANOGP7	ENSG00000258774	ENST00000554450	transcribed_processed_pseudogene	KNOWN	None	23105	None	None	92070746	92071663	-1	None	NANOGP3
1	FAM87B	ENSG00000177757	ENST00000326734	lincRNA	KNOWN	None	32236	None	None	752751	755214	1	None	FLJ40008
HSCHR6_MHC_COX	RING1	ENSG00000226788	ENST00000415941	protein_coding	KNOWN	None	10018	1221	406	33097900	33102125	1	None	RNF1
HSCHR6_MHC_COX	RING1	ENSG00000226788	ENST00000479405	processed_transcript	PUTATIVE	None	10018	None	None	33098963	33102125	1	None	RNF1
17	None	ENSG00000267342	ENST00000587267	antisense	KNOWN	None	None	None	None	73893141	73896229	1	None	None
7	SDHDP2	ENSG00000227073	ENST00000436937	processed_pseudogene	KNOWN	None	10685	None	None	135129209	135129673	1	None	None
15	None	ENSG00000260266	ENST00000564109	processed_transcript	KNOWN	None	None	None	None	74643109	74654244	1	None	None
15	None	ENSG00000260266	ENST00000562009	processed_transcript	KNOWN	None	None	None	None	74646797	74656961	1	None	None
15	None	ENSG00000260266	ENST00000569235	transcribed_processed_pseudogene	KNOWN	None	None	None	None	74653893	74654382	1	None	None
7	CPA1	ENSG00000091704	ENST00000481342	protein_coding	PUTATIVE	None	2296	311	102	130020180	130023323	1	CPA	None
7	CPA1	ENSG00000091704	ENST00000011292	protein_coding	KNOWN	CCDS5820	2296	1260	419	130020212	130027929	1	CPA	None
7	CPA1	ENSG00000091704	ENST00000491460	retained_intron	KNOWN	None	2296	None	None	130020335	130024040	1	CPA	None
7	CPA1	ENSG00000091704	ENST00000604896	protein_coding	NOVEL	None	2296	573	190	130020335	130025709	1	CPA	None
7	CPA1	ENSG00000091704	ENST00000476062	protein_coding	PUTATIVE	None	2296	808	268	130020708	130025764	1	CPA	None
7	CPA1	ENSG00000091704	ENST00000484324	protein_coding	PUTATIVE	None	2296	996	331	130020934	130027955	1	CPA	None
7	CPA1	ENSG00000091704	ENST00000470838	retained_intron	KNOWN	None	2296	None	None	130023540	130024902	1	CPA	None
7	CPA1	ENSG00000091704	ENST00000479106	retained_intron	KNOWN	None	2296	None	None	130023625	130027948	1	CPA	None
7	CPA1	ENSG00000091704	ENST00000478096	retained_intron	KNOWN	None	2296	None	None	130024476	130025820	1	CPA	None
3	MIR191	ENSG00000207605	ENST00000384873	miRNA	KNOWN	None	31561	None	None	49058051	49058142	-1	MIRN191	hsa-mir-191
7	None	ENSG00000271414	ENST00000603668	processed_pseudogene	KNOWN	None	None	None	None	135335720	135336164	1	None	None
3	None	ENSG00000251448	ENST00000514281	lincRNA	KNOWN	None	None	None	None	126007710	126012867	-1	None	None
17	None	ENSG00000267615	ENST00000587348	antisense	KNOWN	None	None	None	None	73939913	73941223	1	None	None
2	None	ENSG00000226423	ENST00000412193	lincRNA	KNOWN	None	None	None	None	242967334	242968327	-1	None	None
14	None	ENSG00000258962	ENST00000556233	processed_pseudogene	KNOWN	None	None	None	None	92175455	92176961	1	None	None
11	None	ENSG00000254554	ENST00000526906	antisense	KNOWN	None	None	None	None	10324204	10325251	-1	None	None
X	None	ENSG00000264894	ENST00000577347	miRNA	NOVEL	None	None	None	None	134340492	134340577	1	None	None
22	DGCR6L	ENSG00000128185	ENST00000248879	protein_coding	KNOWN	CCDS13778	18551	663	220	20301799	20307603	-1	None	FLJ10666
22	DGCR6L	ENSG00000128185	ENST00000405465	protein_coding	NOVEL	None	18551	549	182	20301806	20307532	-1	None	FLJ10666
22	DGCR6L	ENSG00000128185	ENST00000443409	nonsense_mediated_decay	KNOWN	None	18551	294	97	20301917	20307603	-1	None	FLJ10666
14	SLIRP	ENSG00000119705	ENST00000557342	protein_coding	KNOWN	CCDS9866	20495	330	109	78174414	78183941	1	C14orf156	DC50
14	SLIRP	ENSG00000119705	ENST00000238688	protein_coding	NOVEL	CCDS58331	20495	324	107	78174422	78183941	1	C14orf156	DC50
14	SLIRP	ENSG00000119705	ENST00000557623	protein_coding	PUTATIVE	None	20495	297	98	78174446	78187450	1	C14orf156	DC50
14	SLIRP	ENSG00000119705	ENST00000557431	protein_coding	PUTATIVE	None	20495	375	124	78174446	78227447	1	C14orf156	DC50
14	SLIRP	ENSG00000119705	ENST00000555890	nonsense_mediated_decay	KNOWN	None	20495	121	39	78174457	78183936	1	C14orf156	DC50
14	SLIRP	ENSG00000119705	ENST00000556831	protein_coding	PUTATIVE	None	20495	290	95	78174462	78182694	1	C14orf156	DC50
14	SLIRP	ENSG00000119705	ENST00000554074	retained_intron	KNOWN	None	20495	None	None	78174464	78178381	1	C14orf156	DC50
14	SLIRP	ENSG00000119705	ENST00000556375	protein_coding	PUTATIVE	None	20495	219	72	78174503	78227295	1	C14orf156	DC50
14	SLIRP	ENSG00000119705	ENST00000556310	nonsense_mediated_decay	KNOWN	None	20495	231	76	78174503	78227295	1	C14orf156	DC50
14	SLIRP	ENSG00000119705	ENST00000553981	protein_coding	PUTATIVE	None	20495	171	56	78174521	78183941	1	C14orf156	DC50
14	SLIRP	ENSG00000119705	ENST00000556956	retained_intron	KNOWN	None	20495	None	None	78176987	78183927	1	C14orf156	DC50
12	TDG	ENSG00000139372	ENST00000392872	protein_coding	KNOWN	CCDS9095	11700	1233	410	104359582	104382652	1	None	None
12	TDG	ENSG00000139372	ENST00000436021	protein_coding	PUTATIVE	None	11700	415	137	104359600	104376588	1	None	None
12	TDG	ENSG00000139372	ENST00000545698	retained_intron	KNOWN	None	11700	None	None	104359620	104374251	1	None	None
12	TDG	ENSG00000139372	ENST00000266775	protein_coding	PUTATIVE	None	11700	1221	406	104359623	104380970	1	None	None
12	TDG	ENSG00000139372	ENST00000544861	protein_coding	PUTATIVE	None	11700	804	267	104359623	104380972	1	None	None
12	TDG	ENSG00000139372	ENST00000537100	protein_coding	NOVEL	None	11700	771	256	104359664	104377167	1	None	None
12	TDG	ENSG00000139372	ENST00000544060	retained_intron	KNOWN	None	11700	None	None	104359681	104374446	1	None	None
12	TDG	ENSG00000139372	ENST00000542926	retained_intron	KNOWN	None	11700	None	None	104373643	104380835	1	None	None
12	TDG	ENSG00000139372	ENST00000540956	nonsense_mediated_decay	KNOWN	None	11700	334	110	104373733	104381022	1	None	None
12	TDG	ENSG00000139372	ENST00000536395	processed_transcript	PUTATIVE	None	11700	None	None	104380012	104380803	1	None	None
12	TDG	ENSG00000139372	ENST00000542036	protein_coding	KNOWN	None	11700	621	206	104373733	104381022	1	None	None
3	None	ENSG00000249833	ENST00000506660	antisense	KNOWN	None	None	None	None	126111875	126113694	-1	None	None
3	None	ENSG00000249833	ENST00000511287	antisense	KNOWN	None	None	None	None	126111876	126113240	-1	None	None
3	None	ENSG00000249833	ENST00000505467	antisense	KNOWN	None	None	None	None	126111876	126113431	-1	None	None
4	C1QTNF7	ENSG00000163145	ENST00000397700	protein_coding	PUTATIVE	None	14342	454	150	15341442	15443986	1	None	CTRP7
4	C1QTNF7	ENSG00000163145	ENST00000295297	protein_coding	NOVEL	CCDS47025	14342	891	296	15341560	15447789	1	None	CTRP7
4	C1QTNF7	ENSG00000163145	ENST00000512144	processed_transcript	KNOWN	None	14342	None	None	15341612	15383491	1	None	CTRP7
4	C1QTNF7	ENSG00000163145	ENST00000510958	processed_transcript	KNOWN	None	14342	None	None	15341631	15375820	1	None	CTRP7
4	C1QTNF7	ENSG00000163145	ENST00000382383	protein_coding	KNOWN	None	14342	337	111	15376173	15443890	1	None	CTRP7
4	C1QTNF7	ENSG00000163145	ENST00000444304	protein_coding	NOVEL	CCDS3414	14342	870	289	15429413	15444760	1	None	CTRP7
4	C1QTNF7	ENSG00000163145	ENST00000429690	protein_coding	KNOWN	CCDS3414	14342	870	289	15376175	15447790	1	None	CTRP7
X	None	ENSG00000227792	ENST00000442950	processed_pseudogene	KNOWN	None	None	None	None	134370740	134371295	1	None	None
11	RBM4B	ENSG00000173914	ENST00000525754	protein_coding	KNOWN	CCDS8149	28842	1080	359	66432469	66445219	-1	RBM30	MGC10871, ZCCHC15, RBM4L, ZCRB3B, ZCCHC21B
11	RBM4B	ENSG00000173914	ENST00000310046	protein_coding	KNOWN	CCDS8149	28842	1080	359	66432469	66445392	-1	RBM30	MGC10871, ZCCHC15, RBM4L, ZCRB3B, ZCCHC21B
11	RBM4B	ENSG00000173914	ENST00000531969	protein_coding	PUTATIVE	None	28842	432	143	66432766	66445295	-1	RBM30	MGC10871, ZCCHC15, RBM4L, ZCRB3B, ZCCHC21B
11	RBM4B	ENSG00000173914	ENST00000534198	processed_transcript	PUTATIVE	None	28842	None	None	66432925	66433966	-1	RBM30	MGC10871, ZCCHC15, RBM4L, ZCRB3B, ZCCHC21B
11	RBM4B	ENSG00000173914	ENST00000528106	nonsense_mediated_decay	KNOWN	None	28842	62	19	66433019	66436156	-1	RBM30	MGC10871, ZCCHC15, RBM4L, ZCRB3B, ZCCHC21B
11	RBM4B	ENSG00000173914	ENST00000529195	processed_transcript	PUTATIVE	None	28842	None	None	66433377	66436306	-1	RBM30	MGC10871, ZCCHC15, RBM4L, ZCRB3B, ZCCHC21B
11	RBM4B	ENSG00000173914	ENST00000524637	protein_coding	PUTATIVE	None	28842	444	147	66436442	66445308	-1	RBM30	MGC10871, ZCCHC15, RBM4L, ZCRB3B, ZCCHC21B
11	RBM4B	ENSG00000173914	ENST00000531036	protein_coding	PUTATIVE	None	28842	456	151	66443031	66445348	-1	RBM30	MGC10871, ZCCHC15, RBM4L, ZCRB3B, ZCCHC21B
HG104_HG975_PATCH	EPPK1	ENSG00000261150	ENST00000568225	protein_coding	KNOWN	None	15577	15267	5088	144940157	144955423	-1	None	EPIPL1
HG536_PATCH	None	ENSG00000260679	ENST00000562094	lincRNA	KNOWN	None	None	None	None	69736406	69741581	-1	None	None
2	None	ENSG00000232002	ENST00000446593	lincRNA	KNOWN	None	None	None	None	242989846	243026289	-1	None	None
17	TEN1-CDK3	ENSG00000261408	ENST00000567351	retained_intron	KNOWN	None	44420	None	None	73975312	74002079	1	None	None
17	TEN1-CDK3	ENSG00000261408	ENST00000569284	retained_intron	KNOWN	None	44420	None	None	73975341	74002080	1	None	None
7	None	ENSG00000223718	ENST00000422772	processed_pseudogene	KNOWN	None	None	None	None	135344787	135345395	1	None	None
7	None	ENSG00000223718	ENST00000431303	processed_pseudogene	KNOWN	None	None	None	None	135344787	135345401	1	None	None
HG536_PATCH	None	ENSG00000260819	ENST00000566483	lincRNA	KNOWN	None	None	None	None	69800644	69830583	1	None	None
HG185_PATCH	None	ENSG00000263172	ENST00000573654	rRNA	NOVEL	None	None	None	None	39874406	39874512	1	None	None
2	None	ENSG00000261186	ENST00000567549	antisense	KNOWN	None	None	None	None	243029505	243030608	-1	None	None
19	ETHE1	ENSG00000105755	ENST00000292147	protein_coding	KNOWN	CCDS12622	23287	765	254	44010871	44031396	-1	None	YF13H12, HSCO
19	ETHE1	ENSG00000105755	ENST00000594342	nonsense_mediated_decay	KNOWN	None	23287	288	95	44010944	44031357	-1	None	YF13H12, HSCO
19	ETHE1	ENSG00000105755	ENST00000600651	protein_coding	PUTATIVE	None	23287	783	260	44011780	44031353	-1	None	YF13H12, HSCO
19	ETHE1	ENSG00000105755	ENST00000598330	nonsense_mediated_decay	KNOWN	None	23287	288	95	44011789	44031374	-1	None	YF13H12, HSCO
19	ETHE1	ENSG00000105755	ENST00000602138	nonsense_mediated_decay	KNOWN	None	23287	156	51	44015621	44031344	-1	None	YF13H12, HSCO
19	ETHE1	ENSG00000105755	ENST00000595115	retained_intron	KNOWN	None	23287	None	None	44030353	44031382	-1	None	YF13H12, HSCO
20	None	ENSG00000236352	ENST00000450473	antisense	KNOWN	None	None	None	None	52556699	52559047	1	None	None
8	LINC00534	ENSG00000253394	ENST00000523283	lincRNA	KNOWN	None	43643	None	None	91233716	91400216	1	None	None
8	LINC00534	ENSG00000253394	ENST00000517400	lincRNA	KNOWN	None	43643	None	None	91233716	91400373	1	None	None
8	LINC00534	ENSG00000253394	ENST00000524361	lincRNA	KNOWN	None	43643	None	None	91233745	91581546	1	None	None
8	LINC00534	ENSG00000253394	ENST00000523406	lincRNA	KNOWN	None	43643	None	None	91233766	91400180	1	None	None
5	TMEM167A	ENSG00000174695	ENST00000502346	protein_coding	KNOWN	CCDS34198	28330	219	72	82348665	82373315	-1	TMEM167	FLJ30508, MGC23909
5	TMEM167A	ENSG00000174695	ENST00000511450	processed_transcript	KNOWN	None	28330	None	None	82349881	82373186	-1	TMEM167	FLJ30508, MGC23909
5	TMEM167A	ENSG00000174695	ENST00000511118	retained_intron	KNOWN	None	28330	None	None	82352354	82357794	-1	TMEM167	FLJ30508, MGC23909
5	TMEM167A	ENSG00000174695	ENST00000504622	processed_transcript	KNOWN	None	28330	None	None	82352546	82373272	-1	TMEM167	FLJ30508, MGC23909
5	TMEM167A	ENSG00000174695	ENST00000509770	processed_transcript	KNOWN	None	28330	None	None	82352586	82373243	-1	TMEM167	FLJ30508, MGC23909
5	TMEM167A	ENSG00000174695	ENST00000503892	processed_transcript	KNOWN	None	28330	None	None	82352703	82373682	-1	TMEM167	FLJ30508, MGC23909
11	RNU6ATAC33P	ENSG00000221574	ENST00000408647	snRNA	KNOWN	None	46932	None	None	10420739	10420864	-1	None	None
X	LINC00630	ENSG00000223546	ENST00000440496	processed_transcript	KNOWN	None	44263	None	None	102024107	102140334	1	None	None
X	LINC00630	ENSG00000223546	ENST00000420471	processed_transcript	KNOWN	None	44263	None	None	102024109	102094892	1	None	None
X	LINC00630	ENSG00000223546	ENST00000435966	processed_transcript	KNOWN	None	44263	None	None	102024146	102082072	1	None	None
X	LINC00630	ENSG00000223546	ENST00000431616	processed_transcript	KNOWN	None	44263	None	None	102024089	102139094	1	None	None
X	LINC00630	ENSG00000223546	ENST00000416381	processed_transcript	KNOWN	None	44263	None	None	102094836	102121752	1	None	None
5	None	ENSG00000251076	ENST00000504004	antisense	KNOWN	None	None	None	None	111563980	111593006	1	None	None
HG243_PATCH	SCRT1	ENSG00000261678	ENST00000569446	protein_coding	KNOWN	None	15950	1047	348	145387965	145391184	-1	None	DKFZp547F072, ZNF898
11	None	ENSG00000255003	ENST00000534284	processed_pseudogene	KNOWN	None	None	None	None	83039969	83040289	1	None	None
15	None	ENSG00000259668	ENST00000559977	antisense	KNOWN	None	None	None	None	51749483	51752779	1	None	None
15	None	ENSG00000259668	ENST00000560727	antisense	KNOWN	None	None	None	None	51750101	51752764	1	None	None
15	None	ENSG00000259668	ENST00000559173	antisense	KNOWN	None	None	None	None	51750113	51752763	1	None	None
17	TRIM16L	ENSG00000108448	ENST00000572555	protein_coding	KNOWN	CCDS32588	32670	1047	348	18601311	18638980	1	None	TRIM70
17	TRIM16L	ENSG00000108448	ENST00000581904	processed_transcript	KNOWN	None	32670	None	None	18601321	18625558	1	None	TRIM70
17	TRIM16L	ENSG00000108448	ENST00000449552	protein_coding	KNOWN	CCDS32588	32670	1047	348	18601323	18639431	1	None	TRIM70
17	TRIM16L	ENSG00000108448	ENST00000449697	processed_transcript	KNOWN	None	32670	None	None	18601341	18607860	1	None	TRIM70
17	TRIM16L	ENSG00000108448	ENST00000571708	protein_coding	KNOWN	CCDS32588	32670	1047	348	18602528	18638803	1	None	TRIM70
17	TRIM16L	ENSG00000108448	ENST00000578086	processed_transcript	KNOWN	None	32670	None	None	18604670	18608078	1	None	TRIM70
17	TRIM16L	ENSG00000108448	ENST00000573443	protein_coding	KNOWN	None	32670	345	114	18625090	18634526	1	None	TRIM70
17	TRIM16L	ENSG00000108448	ENST00000395671	protein_coding	KNOWN	CCDS32588	32670	1047	348	18625336	18639431	1	None	TRIM70
17	TRIM16L	ENSG00000108448	ENST00000571542	protein_coding	KNOWN	None	32670	674	223	18625431	18638400	1	None	TRIM70
17	TRIM16L	ENSG00000108448	ENST00000414850	protein_coding	NOVEL	None	32670	423	140	18625432	18638740	1	None	TRIM70
17	TRIM16L	ENSG00000108448	ENST00000424146	protein_coding	NOVEL	None	32670	343	113	18625434	18638235	1	None	TRIM70
17	TRIM16L	ENSG00000108448	ENST00000571733	processed_transcript	KNOWN	None	32670	None	None	18625436	18634532	1	None	TRIM70
17	TRIM16L	ENSG00000108448	ENST00000577969	nonsense_mediated_decay	KNOWN	None	32670	162	53	18625560	18635447	1	None	TRIM70
17	TRIM16L	ENSG00000108448	ENST00000574042	protein_coding	PUTATIVE	None	32670	699	232	18630964	18639425	1	None	TRIM70
17	TRIM16L	ENSG00000108448	ENST00000395902	protein_coding	KNOWN	None	32670	1209	402	18601311	18638980	1	None	TRIM70
17	TRIM16L	ENSG00000108448	ENST00000395672	protein_coding	KNOWN	CCDS32588	32670	1047	348	18625431	18638895	1	None	TRIM70
11	MRVI1-AS1	ENSG00000177112	ENST00000529829	antisense	KNOWN	None	43434	None	None	10562819	10621479	1	None	None
11	MRVI1-AS1	ENSG00000177112	ENST00000529979	antisense	KNOWN	None	43434	None	None	10562844	10621424	1	None	None
11	MRVI1-AS1	ENSG00000177112	ENST00000525578	antisense	KNOWN	None	43434	None	None	10614744	10621453	1	None	None
19	KIR3DL1	ENSG00000167633	ENST00000391728	protein_coding	KNOWN	CCDS42621	6338	1335	444	55327923	55342233	1	KIR	cl-2, NKB1, cl-11, nkat3, NKB1B, AMB11, CD158e1/2, CD158e1, CD158e2
19	KIR3DL1	ENSG00000167633	ENST00000326542	protein_coding	NOVEL	None	6338	1284	427	55327942	55342232	1	KIR	cl-2, NKB1, cl-11, nkat3, NKB1B, AMB11, CD158e1/2, CD158e1, CD158e2
19	KIR3DL1	ENSG00000167633	ENST00000358178	protein_coding	NOVEL	None	6338	1050	349	55327945	55342233	1	KIR	cl-2, NKB1, cl-11, nkat3, NKB1B, AMB11, CD158e1/2, CD158e1, CD158e2
19	KIR3DL1	ENSG00000167633	ENST00000402254	protein_coding	KNOWN	None	6338	1368	455	55235969	55378448	1	KIR	cl-2, NKB1, cl-11, nkat3, NKB1B, AMB11, CD158e1/2, CD158e1, CD158e2
19	KIR3DL1	ENSG00000167633	ENST00000538269	protein_coding	KNOWN	None	6338	1335	444	55235975	55342232	1	KIR	cl-2, NKB1, cl-11, nkat3, NKB1B, AMB11, CD158e1/2, CD158e1, CD158e2
19	KIR3DL1	ENSG00000167633	ENST00000541392	protein_coding	KNOWN	None	6338	1284	427	55235978	55342232	1	KIR	cl-2, NKB1, cl-11, nkat3, NKB1B, AMB11, CD158e1/2, CD158e1, CD158e2
2	None	ENSG00000220804	ENST00000456398	processed_transcript	KNOWN	None	None	None	None	243030784	243082789	1	None	None
2	None	ENSG00000220804	ENST00000444990	retained_intron	KNOWN	None	None	None	None	243030830	243058523	1	None	None
2	None	ENSG00000220804	ENST00000403324	processed_transcript	KNOWN	None	None	None	None	243030835	243101525	1	None	None
2	None	ENSG00000220804	ENST00000431796	processed_transcript	KNOWN	None	None	None	None	243030844	243064556	1	None	None
2	None	ENSG00000220804	ENST00000442213	processed_transcript	KNOWN	None	None	None	None	243030847	243101633	1	None	None
2	None	ENSG00000220804	ENST00000416103	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	243037045	243061208	1	None	None
2	None	ENSG00000220804	ENST00000433444	processed_transcript	PUTATIVE	None	None	None	None	243064444	243081039	1	None	None
2	None	ENSG00000220804	ENST00000453598	unprocessed_pseudogene	KNOWN	None	None	None	None	243030844	243102304	1	None	None
1	LINC00115	ENSG00000225880	ENST00000473798	lincRNA	KNOWN	None	26211	None	None	761586	762902	-1	NCRNA00115	FLJ22639
1	LINC00115	ENSG00000225880	ENST00000536430	lincRNA	KNOWN	None	26211	None	None	761589	762886	-1	NCRNA00115	FLJ22639
14	None	ENSG00000228966	ENST00000455653	processed_pseudogene	KNOWN	None	None	None	None	106916017	106916980	-1	None	None
11	None	ENSG00000256466	ENST00000420284	pseudogene	NOVEL	None	None	None	None	83167649	83168256	-1	None	None
HG871_PATCH	None	ENSG00000266169	ENST00000584013	processed_pseudogene	KNOWN	None	None	None	None	5346623	5347057	-1	None	None
13	None	ENSG00000269376	ENST00000598534	sense_intronic	KNOWN	None	None	None	None	113663985	113664633	1	None	None
20	MIR4756	ENSG00000265595	ENST00000577874	miRNA	KNOWN	None	41529	None	None	52684947	52685024	-1	None	hsa-mir-4756
5	None	ENSG00000248350	ENST00000513509	processed_pseudogene	KNOWN	None	None	None	None	111699153	111699363	-1	None	None
17	RNF157-AS1	ENSG00000267128	ENST00000590137	antisense	KNOWN	None	44127	None	None	74136637	74150364	1	None	None
17	RNF157-AS1	ENSG00000267128	ENST00000585542	antisense	KNOWN	None	44127	None	None	74136662	74149564	1	None	None
17	RNF157-AS1	ENSG00000267128	ENST00000586627	antisense	KNOWN	None	44127	None	None	74137597	74149541	1	None	None
17	RNF157-AS1	ENSG00000267128	ENST00000586661	antisense	KNOWN	None	44127	None	None	74149793	74150724	1	None	None
17	RNF157-AS1	ENSG00000267128	ENST00000592748	antisense	KNOWN	None	44127	None	None	74150181	74150731	1	None	None
12	DDX12P	ENSG00000214826	ENST00000432996	unprocessed_pseudogene	KNOWN	None	2737	None	None	9571269	9600825	-1	DDX12	CHLR2
12	DDX12P	ENSG00000214826	ENST00000290818	unprocessed_pseudogene	KNOWN	None	2737	None	None	9570309	9600824	-1	DDX12	CHLR2
11	None	ENSG00000255311	ENST00000531424	antisense	KNOWN	None	None	None	None	83354645	83359086	1	None	None
11	None	ENSG00000255311	ENST00000533669	antisense	KNOWN	None	None	None	None	83356773	83436433	1	None	None
11	None	ENSG00000255311	ENST00000533101	antisense	KNOWN	None	None	None	None	83356827	83363053	1	None	None
11	None	ENSG00000255311	ENST00000526344	antisense	KNOWN	None	None	None	None	83357645	83359086	1	None	None
12	None	ENSG00000258185	ENST00000550014	lincRNA	KNOWN	None	None	None	None	86993355	87232775	-1	None	None
1	AKR7A2	ENSG00000053371	ENST00000235835	protein_coding	KNOWN	CCDS194	389	1080	359	19630459	19638640	-1	None	AFAR
1	AKR7A2	ENSG00000053371	ENST00000330072	protein_coding	NOVEL	None	389	945	314	19630493	19638588	-1	None	AFAR
1	AKR7A2	ENSG00000053371	ENST00000489286	protein_coding	PUTATIVE	None	389	617	204	19630660	19638401	-1	None	AFAR
1	AKR7A2	ENSG00000053371	ENST00000481966	nonsense_mediated_decay	KNOWN	None	389	168	55	19630779	19634999	-1	None	AFAR
1	AKR7A2	ENSG00000053371	ENST00000492217	retained_intron	KNOWN	None	389	None	None	19634233	19638597	-1	None	AFAR
14	IGHV3-42	ENSG00000254228	ENST00000520410	IG_V_pseudogene	KNOWN	None	5603	None	None	106919183	106919483	-1	None	None
8	None	ENSG00000253114	ENST00000520784	processed_pseudogene	KNOWN	None	None	None	None	55608958	55609687	1	None	None
13	F10-AS1	ENSG00000231882	ENST00000424635	antisense	KNOWN	None	40225	None	None	113782469	113783194	-1	None	None
3	IQCJ-SCHIP1-AS1	ENSG00000241211	ENST00000460574	antisense	KNOWN	None	41303	None	None	159483176	159486243	-1	None	None
3	IQCJ-SCHIP1-AS1	ENSG00000241211	ENST00000488247	antisense	KNOWN	None	41303	None	None	159486106	159486401	-1	None	None
13	KARSP2	ENSG00000230371	ENST00000415696	processed_pseudogene	KNOWN	None	39208	None	None	113784730	113786368	1	None	None
7	RNU6-1154P	ENSG00000212303	ENST00000391001	snRNA	KNOWN	None	48117	None	None	135350347	135350450	-1	None	None
14	IGHVII-43-1	ENSG00000253597	ENST00000522649	IG_V_pseudogene	KNOWN	None	5680	None	None	106928717	106928888	-1	None	IGHV(II)-43-1
20	RNU4ATAC7P	ENSG00000252089	ENST00000516280	snRNA	KNOWN	None	46893	None	None	53476227	53476351	-1	None	None
HG987_PATCH	C17orf51	ENSG00000259857	ENST00000563120	processed_transcript	KNOWN	None	27904	None	None	21428102	21432378	-1	None	FLJ12977, FLJ31874, FLJ33618
HG987_PATCH	C17orf51	ENSG00000259857	ENST00000568071	processed_transcript	KNOWN	None	27904	None	None	21430676	21438604	-1	None	FLJ12977, FLJ31874, FLJ33618
HG987_PATCH	C17orf51	ENSG00000259857	ENST00000566305	protein_coding	KNOWN	None	27904	666	221	21431622	21454990	-1	None	FLJ12977, FLJ31874, FLJ33618
HG987_PATCH	C17orf51	ENSG00000259857	ENST00000570239	processed_transcript	KNOWN	None	27904	None	None	21435789	21477615	-1	None	FLJ12977, FLJ31874, FLJ33618
HG987_PATCH	C17orf51	ENSG00000259857	ENST00000564820	processed_transcript	KNOWN	None	27904	None	None	21435927	21477829	-1	None	FLJ12977, FLJ31874, FLJ33618
HG987_PATCH	C17orf51	ENSG00000259857	ENST00000570089	processed_transcript	KNOWN	None	27904	None	None	21438362	21477770	-1	None	FLJ12977, FLJ31874, FLJ33618
HG987_PATCH	C17orf51	ENSG00000259857	ENST00000569911	protein_coding	PUTATIVE	None	27904	399	132	21438753	21454584	-1	None	FLJ12977, FLJ31874, FLJ33618
HG987_PATCH	C17orf51	ENSG00000259857	ENST00000564936	processed_transcript	KNOWN	None	27904	None	None	21469881	21476656	-1	None	FLJ12977, FLJ31874, FLJ33618
7	None	ENSG00000239652	ENST00000378428	processed_transcript	KNOWN	None	None	None	None	135392889	135413974	-1	None	None
7	None	ENSG00000239652	ENST00000422620	processed_transcript	KNOWN	None	None	None	None	135406141	135414006	-1	None	None
8	SBF1P1	ENSG00000248522	ENST00000444527	processed_pseudogene	KNOWN	None	31098	None	None	56362069	56367699	-1	None	None
11	RNY4P6	ENSG00000200537	ENST00000363667	misc_RNA	KNOWN	None	34055	None	None	116886613	116886708	1	None	None
16	None	ENSG00000263072	ENST00000576490	antisense	KNOWN	None	None	None	None	3166043	3174608	-1	None	None
16	None	ENSG00000263072	ENST00000575139	antisense	KNOWN	None	None	None	None	3166457	3182054	-1	None	None
16	None	ENSG00000263072	ENST00000570901	antisense	KNOWN	None	None	None	None	3175530	3179300	-1	None	None
16	None	ENSG00000263072	ENST00000573414	antisense	KNOWN	None	None	None	None	3175601	3179555	-1	None	None
16	None	ENSG00000263072	ENST00000571963	antisense	KNOWN	None	None	None	None	3178673	3184883	-1	None	None
16	None	ENSG00000263072	ENST00000573447	antisense	KNOWN	None	None	None	None	3178834	3182043	-1	None	None
16	None	ENSG00000263072	ENST00000577163	antisense	KNOWN	None	None	None	None	3181406	3182350	-1	None	None
16	None	ENSG00000263072	ENST00000575089	antisense	KNOWN	None	None	None	None	3181669	3184828	-1	None	None
16	None	ENSG00000263072	ENST00000571449	antisense	KNOWN	None	None	None	None	3181758	3184857	-1	None	None
16	None	ENSG00000263072	ENST00000576590	antisense	KNOWN	None	None	None	None	3181904	3184874	-1	None	None
15	None	ENSG00000261821	ENST00000568496	antisense	KNOWN	None	None	None	None	74657776	74659391	1	None	None
8	None	ENSG00000253620	ENST00000520139	processed_pseudogene	KNOWN	None	None	None	None	14091	14320	-1	None	None
11	None	ENSG00000234268	ENST00000438127	processed_pseudogene	KNOWN	None	None	None	None	116906513	116906767	-1	None	None
13	None	ENSG00000269125	ENST00000600642	antisense	KNOWN	None	None	None	None	113819316	113819497	-1	None	None
12	None	ENSG00000264077	ENST00000577262	miRNA	NOVEL	None	None	None	None	87138845	87138925	-1	None	None
13	LDHBP1	ENSG00000232662	ENST00000455730	processed_pseudogene	KNOWN	None	6542	None	None	113930931	113932049	1	LDHBL1	None
3	CYCSP10	ENSG00000232901	ENST00000417973	processed_pseudogene	KNOWN	None	24384	None	None	10042331	10042624	-1	None	HCP10
12	RPL23AP68	ENSG00000242850	ENST00000480924	processed_pseudogene	KNOWN	None	35489	None	None	87563762	87564206	-1	None	None
8	None	ENSG00000265157	ENST00000579342	miRNA	NOVEL	None	None	None	None	91475555	91475604	-1	None	None
14	IGHVIII-44	ENSG00000253588	ENST00000521827	IG_V_pseudogene	KNOWN	None	5700	None	None	106934226	106934399	-1	None	IGHV(III)-44
3	LEPREL1	ENSG00000090530	ENST00000319332	protein_coding	KNOWN	CCDS3294	19317	2127	708	189674517	189838718	-1	None	FLJ10718, MLAT4, P3H2
3	LEPREL1	ENSG00000090530	ENST00000427335	protein_coding	PUTATIVE	CCDS46981	19317	1584	527	189674620	189840226	-1	None	FLJ10718, MLAT4, P3H2
3	LEPREL1	ENSG00000090530	ENST00000490940	retained_intron	KNOWN	None	19317	None	None	189675486	189681910	-1	None	FLJ10718, MLAT4, P3H2
3	LEPREL1	ENSG00000090530	ENST00000463171	retained_intron	KNOWN	None	19317	None	None	189681248	189689716	-1	None	FLJ10718, MLAT4, P3H2
3	LEPREL1	ENSG00000090530	ENST00000467131	retained_intron	KNOWN	None	19317	None	None	189681839	189690973	-1	None	FLJ10718, MLAT4, P3H2
3	LEPREL1	ENSG00000090530	ENST00000482780	retained_intron	KNOWN	None	19317	None	None	189689337	189691979	-1	None	FLJ10718, MLAT4, P3H2
3	LEPREL1	ENSG00000090530	ENST00000470925	retained_intron	KNOWN	None	19317	None	None	189692357	189705554	-1	None	FLJ10718, MLAT4, P3H2
3	LEPREL1	ENSG00000090530	ENST00000475095	retained_intron	KNOWN	None	19317	None	None	189692362	189701273	-1	None	FLJ10718, MLAT4, P3H2
3	LEPREL1	ENSG00000090530	ENST00000444866	protein_coding	PUTATIVE	None	19317	412	136	189706696	189834437	-1	None	FLJ10718, MLAT4, P3H2
3	LEPREL1	ENSG00000090530	ENST00000426003	protein_coding	PUTATIVE	None	19317	404	133	189706704	189839467	-1	None	FLJ10718, MLAT4, P3H2
7	MICALL2	ENSG00000164877	ENST00000493998	retained_intron	KNOWN	None	29672	None	None	1468101	1477247	-1	None	MGC46023, FLJ23471, MICAL-L2, JRAB
7	MICALL2	ENSG00000164877	ENST00000496184	retained_intron	KNOWN	None	29672	None	None	1468115	1479067	-1	None	MGC46023, FLJ23471, MICAL-L2, JRAB
7	MICALL2	ENSG00000164877	ENST00000472100	retained_intron	KNOWN	None	29672	None	None	1468255	1499001	-1	None	MGC46023, FLJ23471, MICAL-L2, JRAB
7	MICALL2	ENSG00000164877	ENST00000467783	retained_intron	KNOWN	None	29672	None	None	1473995	1479658	-1	None	MGC46023, FLJ23471, MICAL-L2, JRAB
7	MICALL2	ENSG00000164877	ENST00000467394	retained_intron	KNOWN	None	29672	None	None	1473996	1481160	-1	None	MGC46023, FLJ23471, MICAL-L2, JRAB
7	MICALL2	ENSG00000164877	ENST00000470807	retained_intron	KNOWN	None	29672	None	None	1474002	1477549	-1	None	MGC46023, FLJ23471, MICAL-L2, JRAB
7	MICALL2	ENSG00000164877	ENST00000471899	processed_transcript	KNOWN	None	29672	None	None	1474002	1478598	-1	None	MGC46023, FLJ23471, MICAL-L2, JRAB
7	MICALL2	ENSG00000164877	ENST00000479007	retained_intron	KNOWN	None	29672	None	None	1474002	1479507	-1	None	MGC46023, FLJ23471, MICAL-L2, JRAB
7	MICALL2	ENSG00000164877	ENST00000413446	nonsense_mediated_decay	KNOWN	None	29672	2043	680	1474002	1490172	-1	None	MGC46023, FLJ23471, MICAL-L2, JRAB
7	MICALL2	ENSG00000164877	ENST00000297508	protein_coding	KNOWN	CCDS5324	29672	2715	904	1474002	1499138	-1	None	MGC46023, FLJ23471, MICAL-L2, JRAB
7	MICALL2	ENSG00000164877	ENST00000487187	retained_intron	KNOWN	None	29672	None	None	1476379	1478794	-1	None	MGC46023, FLJ23471, MICAL-L2, JRAB
7	MICALL2	ENSG00000164877	ENST00000460198	retained_intron	KNOWN	None	29672	None	None	1477172	1478101	-1	None	MGC46023, FLJ23471, MICAL-L2, JRAB
7	MICALL2	ENSG00000164877	ENST00000487156	retained_intron	KNOWN	None	29672	None	None	1478561	1480363	-1	None	MGC46023, FLJ23471, MICAL-L2, JRAB
7	MICALL2	ENSG00000164877	ENST00000482839	retained_intron	KNOWN	None	29672	None	None	1484707	1487588	-1	None	MGC46023, FLJ23471, MICAL-L2, JRAB
7	MICALL2	ENSG00000164877	ENST00000490608	retained_intron	KNOWN	None	29672	None	None	1486293	1487669	-1	None	MGC46023, FLJ23471, MICAL-L2, JRAB
7	MICALL2	ENSG00000164877	ENST00000405088	protein_coding	KNOWN	None	29672	2079	692	1473996	1498962	-1	None	MGC46023, FLJ23471, MICAL-L2, JRAB
3	RNA5SP138	ENSG00000201968	ENST00000365098	rRNA	KNOWN	None	43038	None	None	126283408	126283521	-1	RN5S138	None
11	None	ENSG00000224077	ENST00000442124	antisense	KNOWN	None	None	None	None	116969703	116978886	1	None	None
12	None	ENSG00000202146	ENST00000365276	misc_RNA	NOVEL	None	None	None	None	54492975	54493086	-1	None	None
X	None	ENSG00000225660	ENST00000421282	processed_pseudogene	KNOWN	None	None	None	None	146036593	146036727	1	None	None
13	GRTP1-AS1	ENSG00000225083	ENST00000419199	antisense	KNOWN	None	39917	None	None	114005988	114010049	1	None	None
13	GRTP1-AS1	ENSG00000225083	ENST00000423246	antisense	KNOWN	None	39917	None	None	114006131	114016183	1	None	None
19	VN1R82P	ENSG00000268995	ENST00000601481	unprocessed_pseudogene	KNOWN	None	37402	None	None	21371401	21371756	1	None	None
20	RPL12P4	ENSG00000185834	ENST00000432629	processed_pseudogene	KNOWN	None	16587	None	None	53691183	53691679	1	None	dJ800C24.1
20	RPL12P4	ENSG00000185834	ENST00000393148	pseudogene	KNOWN	None	16587	None	None	53691155	53691685	1	None	dJ800C24.1
3	None	ENSG00000206567	ENST00000383808	lincRNA	KNOWN	None	None	None	None	10048102	10052779	-1	None	None
3	None	ENSG00000206567	ENST00000420091	lincRNA	KNOWN	None	None	None	None	10048129	10050815	-1	None	None
3	None	ENSG00000206567	ENST00000437616	lincRNA	KNOWN	None	None	None	None	10049110	10052860	-1	None	None
3	None	ENSG00000206567	ENST00000454232	lincRNA	KNOWN	None	None	None	None	10049146	10052893	-1	None	None
3	None	ENSG00000206567	ENST00000426698	lincRNA	KNOWN	None	None	None	None	10049987	10052798	-1	None	None
3	None	ENSG00000206567	ENST00000429065	lincRNA	KNOWN	None	None	None	None	10051572	10052861	-1	None	None
8	RNA5SP273	ENSG00000199354	ENST00000362484	rRNA	KNOWN	None	43173	None	None	91523356	91523468	1	RN5S273	None
3	None	ENSG00000248557	ENST00000505008	processed_pseudogene	KNOWN	None	None	None	None	126343635	126344904	1	None	None
3	RNU2-31P	ENSG00000252763	ENST00000516954	snRNA	KNOWN	None	48524	None	None	159526205	159526359	-1	None	None
19	None	ENSG00000268892	ENST00000601088	unprocessed_pseudogene	KNOWN	None	None	None	None	21404447	21405548	-1	None	None
1	SYDE2	ENSG00000097096	ENST00000341460	protein_coding	KNOWN	CCDS44169	25841	3585	1194	85622556	85666729	-1	None	FLJ13815
1	SYDE2	ENSG00000097096	ENST00000234668	retained_intron	KNOWN	None	25841	None	None	85646842	85666196	-1	None	FLJ13815
11	TMEM126B	ENSG00000171204	ENST00000358867	protein_coding	KNOWN	CCDS8267	30883	693	230	85339629	85347546	1	None	HT007
11	TMEM126B	ENSG00000171204	ENST00000531718	nonsense_mediated_decay	KNOWN	None	30883	123	40	85339637	85346804	1	None	HT007
11	TMEM126B	ENSG00000171204	ENST00000531477	nonsense_mediated_decay	KNOWN	None	30883	132	43	85339637	85347254	1	None	HT007
11	TMEM126B	ENSG00000171204	ENST00000528361	nonsense_mediated_decay	KNOWN	None	30883	123	40	85339641	85346131	1	None	HT007
11	TMEM126B	ENSG00000171204	ENST00000530783	nonsense_mediated_decay	KNOWN	None	30883	132	43	85339641	85347172	1	None	HT007
11	TMEM126B	ENSG00000171204	ENST00000534341	protein_coding	KNOWN	None	30883	513	170	85339646	85347580	1	None	HT007
11	TMEM126B	ENSG00000171204	ENST00000526822	nonsense_mediated_decay	KNOWN	None	30883	177	58	85339648	85347551	1	None	HT007
11	TMEM126B	ENSG00000171204	ENST00000529197	nonsense_mediated_decay	KNOWN	None	30883	123	40	85339649	85347554	1	None	HT007
11	TMEM126B	ENSG00000171204	ENST00000530901	nonsense_mediated_decay	KNOWN	None	30883	121	39	85339663	85342835	1	None	HT007
11	TMEM126B	ENSG00000171204	ENST00000531274	protein_coding	NOVEL	None	30883	376	124	85339674	85347203	1	None	HT007
11	TMEM126B	ENSG00000171204	ENST00000393375	protein_coding	KNOWN	CCDS53686	30883	603	200	85339662	85347532	1	None	HT007
9	TDRD7	ENSG00000196116	ENST00000355295	protein_coding	KNOWN	CCDS6725	30831	3297	1098	100174232	100258407	1	None	PCTAIRE2BP
9	TDRD7	ENSG00000196116	ENST00000492428	processed_transcript	KNOWN	None	30831	None	None	100242624	100245228	1	None	PCTAIRE2BP
9	TDRD7	ENSG00000196116	ENST00000422139	protein_coding	KNOWN	None	30831	3075	1024	100174376	100258403	1	None	PCTAIRE2BP
9	TDRD7	ENSG00000196116	ENST00000540902	protein_coding	KNOWN	None	30831	1257	418	100230677	100258249	1	None	PCTAIRE2BP
11	None	ENSG00000225236	ENST00000447151	processed_pseudogene	KNOWN	None	None	None	None	116988510	116989897	-1	None	None
16	CLDN6	ENSG00000184697	ENST00000396925	protein_coding	KNOWN	CCDS10488	2048	663	220	3064713	3070072	-1	None	None
16	CLDN6	ENSG00000184697	ENST00000572154	protein_coding	PUTATIVE	None	2048	120	39	3064858	3068171	-1	None	None
16	CLDN6	ENSG00000184697	ENST00000328796	protein_coding	KNOWN	CCDS10488	2048	663	220	3064714	3068188	-1	None	None
11	VPS11	ENSG00000160695	ENST00000531528	processed_transcript	KNOWN	None	14583	None	None	118938403	118952688	1	None	RNF108, PEP5
11	VPS11	ENSG00000160695	ENST00000527798	processed_transcript	KNOWN	None	14583	None	None	118938532	118952677	1	None	RNF108, PEP5
11	VPS11	ENSG00000160695	ENST00000529838	retained_intron	KNOWN	None	14583	None	None	118938534	118952674	1	None	RNF108, PEP5
11	VPS11	ENSG00000160695	ENST00000529545	retained_intron	KNOWN	None	14583	None	None	118940263	118941494	1	None	RNF108, PEP5
11	VPS11	ENSG00000160695	ENST00000526829	retained_intron	KNOWN	None	14583	None	None	118942742	118947638	1	None	RNF108, PEP5
11	VPS11	ENSG00000160695	ENST00000530809	processed_transcript	KNOWN	None	14583	None	None	118944532	118948357	1	None	RNF108, PEP5
11	VPS11	ENSG00000160695	ENST00000534551	processed_transcript	KNOWN	None	14583	None	None	118947730	118949039	1	None	RNF108, PEP5
11	VPS11	ENSG00000160695	ENST00000524454	processed_transcript	KNOWN	None	14583	None	None	118949892	118952675	1	None	RNF108, PEP5
11	VPS11	ENSG00000160695	ENST00000300793	protein_coding	KNOWN	None	14583	2823	940	118938493	118952686	1	None	RNF108, PEP5
19	None	ENSG00000269839	ENST00000600135	unprocessed_pseudogene	KNOWN	None	None	None	None	21407900	21428043	-1	None	None
15	NANOGP8	ENSG00000255192	ENST00000528386	processed_pseudogene	KNOWN	None	23106	None	None	35376396	35377311	-1	None	None
15	NANOGP8	ENSG00000255192	ENST00000455486	pseudogene	KNOWN	None	23106	None	None	35376394	35377311	-1	None	None
13	DCUN1D2-AS	ENSG00000233613	ENST00000414992	antisense	KNOWN	None	39889	None	None	114123216	114130450	1	DCUN1D2-AS2	None
13	DCUN1D2-AS	ENSG00000233613	ENST00000453584	antisense	KNOWN	None	39889	None	None	114129705	114130450	1	DCUN1D2-AS2	None
5	PRDM9	ENSG00000164256	ENST00000502755	protein_coding	KNOWN	None	13994	301	99	23507264	23510136	1	MSBP3	PFM6, ZNF899
5	PRDM9	ENSG00000164256	ENST00000296682	protein_coding	KNOWN	CCDS43307	13994	2685	894	23507724	23528706	1	MSBP3	PFM6, ZNF899
2	COX5B	ENSG00000135940	ENST00000258424	protein_coding	KNOWN	CCDS2032	2269	390	129	98262503	98264846	1	None	None
2	COX5B	ENSG00000135940	ENST00000464949	processed_transcript	KNOWN	None	2269	None	None	98262560	98264654	1	None	None
2	COX5B	ENSG00000135940	ENST00000491989	processed_transcript	KNOWN	None	2269	None	None	98262752	98264642	1	None	None
2	COX5B	ENSG00000135940	ENST00000494306	retained_intron	KNOWN	None	2269	None	None	98262904	98263844	1	None	None
19	RPL36AP51	ENSG00000242291	ENST00000487216	processed_pseudogene	KNOWN	None	36632	None	None	21416137	21416454	1	None	None
3	None	ENSG00000264146	ENST00000579369	miRNA	NOVEL	None	None	None	None	159540401	159540484	-1	None	None
12	None	ENSG00000250742	ENST00000508564	lincRNA	KNOWN	None	None	None	None	54519882	54526627	1	None	None
12	None	ENSG00000258205	ENST00000547460	processed_pseudogene	KNOWN	None	None	None	None	88140344	88140460	1	None	None
13	RNU1-16P	ENSG00000202347	ENST00000365477	snRNA	KNOWN	None	39890	None	None	114133230	114133393	-1	None	U1.64
13	LINC00552	ENSG00000227208	ENST00000413535	pseudogene	KNOWN	None	43692	None	None	114451484	114454062	-1	None	None
19	None	ENSG00000268747	ENST00000595739	processed_pseudogene	KNOWN	None	None	None	None	21458825	21459134	-1	None	None
4	None	ENSG00000221219	ENST00000408292	miRNA	NOVEL	None	None	None	None	54969747	54969823	-1	None	None
5	None	ENSG00000271196	ENST00000604910	processed_pseudogene	KNOWN	None	None	None	None	137790229	137790421	-1	None	None
HG1293_PATCH	SRGAP2	ENSG00000266028	ENST00000579225	protein_coding	PUTATIVE	None	19751	260	85	206266906	206367034	1	FNBP2	KIAA0456, ARHGAP34, SRGAP2A
HG1293_PATCH	SRGAP2	ENSG00000266028	ENST00000603708	processed_transcript	KNOWN	None	19751	None	None	206266907	206269390	1	FNBP2	KIAA0456, ARHGAP34, SRGAP2A
HG1293_PATCH	SRGAP2	ENSG00000266028	ENST00000604329	TEC	KNOWN	None	19751	None	None	206267449	206271790	1	FNBP2	KIAA0456, ARHGAP34, SRGAP2A
HG1293_PATCH	SRGAP2	ENSG00000266028	ENST00000603575	processed_transcript	KNOWN	None	19751	None	None	206267469	206269380	1	FNBP2	KIAA0456, ARHGAP34, SRGAP2A
HG1293_PATCH	SRGAP2	ENSG00000266028	ENST00000605610	protein_coding	KNOWN	None	19751	2370	789	206269234	206518261	1	FNBP2	KIAA0456, ARHGAP34, SRGAP2A
HG1293_PATCH	SRGAP2	ENSG00000266028	ENST00000573034	protein_coding	KNOWN	None	19751	3216	1071	206269470	206527996	1	FNBP2	KIAA0456, ARHGAP34, SRGAP2A
HG1293_PATCH	SRGAP2	ENSG00000266028	ENST00000605242	processed_transcript	KNOWN	None	19751	None	None	206278066	206447627	1	FNBP2	KIAA0456, ARHGAP34, SRGAP2A
HG1293_PATCH	SRGAP2	ENSG00000266028	ENST00000572793	protein_coding	PUTATIVE	None	19751	354	117	206278284	206456318	1	FNBP2	KIAA0456, ARHGAP34, SRGAP2A
HG1293_PATCH	SRGAP2	ENSG00000266028	ENST00000604133	processed_transcript	KNOWN	None	19751	None	None	206375709	206456465	1	FNBP2	KIAA0456, ARHGAP34, SRGAP2A
HG1293_PATCH	SRGAP2	ENSG00000266028	ENST00000604423	retained_intron	KNOWN	None	19751	None	None	206468524	206471592	1	FNBP2	KIAA0456, ARHGAP34, SRGAP2A
HG1293_PATCH	SRGAP2	ENSG00000266028	ENST00000605476	protein_coding	PUTATIVE	None	19751	1353	450	206469938	206519720	1	FNBP2	KIAA0456, ARHGAP34, SRGAP2A
HG1293_PATCH	SRGAP2	ENSG00000266028	ENST00000604419	retained_intron	KNOWN	None	19751	None	None	206501180	206509765	1	FNBP2	KIAA0456, ARHGAP34, SRGAP2A
HG1293_PATCH	SRGAP2	ENSG00000266028	ENST00000604925	protein_coding	PUTATIVE	None	19751	673	223	206503622	206519692	1	FNBP2	KIAA0456, ARHGAP34, SRGAP2A
HG1293_PATCH	SRGAP2	ENSG00000266028	ENST00000604010	protein_coding	PUTATIVE	None	19751	884	293	206516760	206524788	1	FNBP2	KIAA0456, ARHGAP34, SRGAP2A
HG1293_PATCH	SRGAP2	ENSG00000266028	ENST00000604247	retained_intron	KNOWN	None	19751	None	None	206517222	206519720	1	FNBP2	KIAA0456, ARHGAP34, SRGAP2A
4	None	ENSG00000238753	ENST00000459598	snoRNA	NOVEL	None	None	None	None	54989267	54989371	-1	None	None
13	GAS6-AS1	ENSG00000233695	ENST00000458001	antisense	KNOWN	None	39826	None	None	114518603	114542321	1	None	None
X	None	ENSG00000271660	ENST00000603634	processed_pseudogene	KNOWN	None	None	None	None	146045694	146046003	-1	None	None
3	None	ENSG00000244040	ENST00000497452	antisense	KNOWN	None	None	None	None	159631189	159924879	-1	None	None
3	None	ENSG00000244040	ENST00000462431	antisense	KNOWN	None	None	None	None	159715961	159733648	-1	None	None
3	None	ENSG00000244040	ENST00000486168	antisense	KNOWN	None	None	None	None	159924296	159943086	-1	None	None
19	TRIM28	ENSG00000130726	ENST00000593582	protein_coding	PUTATIVE	None	16384	488	161	59055458	59058993	1	None	TIF1B, KAP1, TF1B, RNF96
19	TRIM28	ENSG00000130726	ENST00000594806	protein_coding	PUTATIVE	None	16384	534	177	59055824	59059255	1	None	TIF1B, KAP1, TF1B, RNF96
19	TRIM28	ENSG00000130726	ENST00000253024	protein_coding	KNOWN	CCDS12985	16384	2508	835	59055836	59062083	1	None	TIF1B, KAP1, TF1B, RNF96
19	TRIM28	ENSG00000130726	ENST00000341753	protein_coding	NOVEL	None	16384	2262	753	59055840	59062082	1	None	TIF1B, KAP1, TF1B, RNF96
19	TRIM28	ENSG00000130726	ENST00000597968	protein_coding	PUTATIVE	None	16384	184	60	59056534	59057263	1	None	TIF1B, KAP1, TF1B, RNF96
19	TRIM28	ENSG00000130726	ENST00000597618	retained_intron	KNOWN	None	16384	None	None	59058502	59059273	1	None	TIF1B, KAP1, TF1B, RNF96
19	TRIM28	ENSG00000130726	ENST00000597423	retained_intron	KNOWN	None	16384	None	None	59058507	59059539	1	None	TIF1B, KAP1, TF1B, RNF96
19	TRIM28	ENSG00000130726	ENST00000597172	retained_intron	KNOWN	None	16384	None	None	59058926	59059897	1	None	TIF1B, KAP1, TF1B, RNF96
19	TRIM28	ENSG00000130726	ENST00000601150	retained_intron	KNOWN	None	16384	None	None	59059058	59060591	1	None	TIF1B, KAP1, TF1B, RNF96
19	TRIM28	ENSG00000130726	ENST00000597995	retained_intron	KNOWN	None	16384	None	None	59059129	59060456	1	None	TIF1B, KAP1, TF1B, RNF96
19	TRIM28	ENSG00000130726	ENST00000597136	protein_coding	NOVEL	None	16384	1383	460	59059661	59062089	1	None	TIF1B, KAP1, TF1B, RNF96
19	TRIM28	ENSG00000130726	ENST00000595028	retained_intron	KNOWN	None	16384	None	None	59060236	59060811	1	None	TIF1B, KAP1, TF1B, RNF96
19	TRIM28	ENSG00000130726	ENST00000595974	retained_intron	KNOWN	None	16384	None	None	59060817	59061770	1	None	TIF1B, KAP1, TF1B, RNF96
19	TRIM28	ENSG00000130726	ENST00000600840	retained_intron	KNOWN	None	16384	None	None	59060923	59061434	1	None	TIF1B, KAP1, TF1B, RNF96
19	TRIM28	ENSG00000130726	ENST00000598355	retained_intron	KNOWN	None	16384	None	None	59061012	59062016	1	None	TIF1B, KAP1, TF1B, RNF96
19	VN1R83P	ENSG00000268521	ENST00000595685	unprocessed_pseudogene	KNOWN	None	37403	None	None	21472356	21472800	-1	None	None
4	None	ENSG00000242670	ENST00000493291	processed_pseudogene	KNOWN	None	None	None	None	55087293	55087639	1	None	None
3	NUP210P1	ENSG00000198284	ENST00000504322	transcribed_processed_pseudogene	KNOWN	None	27399	None	None	126379452	126386191	1	C3orf46	None
3	NUP210P1	ENSG00000198284	ENST00000357061	processed_transcript	KNOWN	None	27399	None	None	126380924	126390782	1	C3orf46	None
3	NUP210P1	ENSG00000198284	ENST00000514993	processed_transcript	KNOWN	None	27399	None	None	126380989	126386169	1	C3orf46	None
5	None	ENSG00000241458	ENST00000469948	processed_pseudogene	KNOWN	None	None	None	None	137809433	137810050	1	None	None
19	None	ENSG00000268322	ENST00000596023	processed_pseudogene	KNOWN	None	None	None	None	21500963	21501521	1	None	None
X	MIR513C	ENSG00000216171	ENST00000401352	miRNA	KNOWN	None	33934	None	None	146271222	146271305	-1	MIRN513C	hsa-mir-513c
4	None	ENSG00000248184	ENST00000511634	lincRNA	KNOWN	None	None	None	None	55199059	55222121	1	None	None
14	MAPK1IP1L	ENSG00000168175	ENST00000395468	protein_coding	KNOWN	CCDS32085	19840	738	245	55518349	55532931	1	C14orf32	None
14	MAPK1IP1L	ENSG00000168175	ENST00000554364	processed_transcript	PUTATIVE	None	19840	None	None	55518365	55529743	1	C14orf32	None
14	MAPK1IP1L	ENSG00000168175	ENST00000556515	processed_transcript	PUTATIVE	None	19840	None	None	55518409	55527500	1	C14orf32	None
14	MAPK1IP1L	ENSG00000168175	ENST00000553976	processed_transcript	PUTATIVE	None	19840	None	None	55529669	55531388	1	C14orf32	None
5	None	ENSG00000197830	ENST00000357294	pseudogene	KNOWN	None	None	None	None	137881629	137882992	-1	None	None
10	MTND2P16	ENSG00000230818	ENST00000419987	processed_pseudogene	KNOWN	None	42117	None	None	20036752	20037550	1	None	None
13	None	ENSG00000237699	ENST00000449453	lincRNA	KNOWN	None	None	None	None	114580581	114582349	1	None	None
14	None	ENSG00000258670	ENST00000557618	antisense	KNOWN	None	None	None	None	60981837	61021634	1	None	None
10	None	ENSG00000212072	ENST00000390783	miRNA	NOVEL	None	None	None	None	20072486	20072589	-1	None	None
5	None	ENSG00000235558	ENST00000505946	unprocessed_pseudogene	KNOWN	None	None	None	None	70516183	70555065	-1	None	None
5	None	ENSG00000232129	ENST00000432279	pseudogene	NOVEL	None	None	None	None	137887850	137888050	1	None	None
4	None	ENSG00000248518	ENST00000508241	lincRNA	KNOWN	None	None	None	None	55242169	55242919	1	None	None
16	None	ENSG00000261765	ENST00000561979	sense_intronic	KNOWN	None	None	None	None	71915456	71916176	-1	None	None
13	LINC00454	ENSG00000226921	ENST00000442500	lincRNA	KNOWN	None	42802	None	None	114581673	114584465	-1	None	None
13	LINC00454	ENSG00000226921	ENST00000430978	lincRNA	KNOWN	None	42802	None	None	114582226	114586528	-1	None	None
13	LINC00454	ENSG00000226921	ENST00000425483	lincRNA	KNOWN	None	42802	None	None	114583505	114584459	-1	None	None
X	MIR513B	ENSG00000207871	ENST00000385136	miRNA	KNOWN	None	33935	None	None	146280562	146280645	-1	MIRN513B	hsa-mir-513b
5	None	ENSG00000222937	ENST00000411005	snoRNA	NOVEL	None	None	None	None	137894659	137894728	-1	None	None
1	LRRC47	ENSG00000130764	ENST00000378251	protein_coding	KNOWN	CCDS51	29207	1752	583	3696784	3713068	-1	None	KIAA1185, RP1-286D6.3
1	LRRC47	ENSG00000130764	ENST00000462356	retained_intron	KNOWN	None	29207	None	None	3697699	3700739	-1	None	KIAA1185, RP1-286D6.3
1	LRRC47	ENSG00000130764	ENST00000479239	nonsense_mediated_decay	KNOWN	None	29207	152	49	3697854	3700611	-1	None	KIAA1185, RP1-286D6.3
5	HMGB3P16	ENSG00000248430	ENST00000508037	processed_pseudogene	KNOWN	None	39308	None	None	111788400	111788686	-1	None	None
16	None	ENSG00000261337	ENST00000567146	antisense	KNOWN	None	None	None	None	71952815	71959638	-1	None	None
5	SNORD63	ENSG00000206989	ENST00000384262	snoRNA	KNOWN	None	10220	None	None	137896732	137896799	-1	RNU63	U63
14	None	ENSG00000258764	ENST00000557593	transcribed_processed_pseudogene	KNOWN	None	None	None	None	61011118	61011372	1	None	None
8	RNU6-895P	ENSG00000206852	ENST00000384125	snRNA	KNOWN	None	47858	None	None	41155682	41155784	1	None	None
5	None	ENSG00000254276	ENST00000521765	unprocessed_pseudogene	KNOWN	None	None	None	None	70529154	70530335	1	None	None
14	None	ENSG00000200042	ENST00000363172	snoRNA	NOVEL	None	None	None	None	92181260	92181474	-1	None	None
6	None	ENSG00000221796	ENST00000408869	miRNA	NOVEL	None	None	None	None	145669894	145669985	1	None	None
14	SUB1P2	ENSG00000258737	ENST00000556401	translated_processed_pseudogene	KNOWN	None	43992	None	None	74772128	74772766	1	None	None
7	None	ENSG00000222219	ENST00000410287	miRNA	NOVEL	None	None	None	None	135482754	135482857	-1	None	None
13	LINC00453	ENSG00000230544	ENST00000455857	lincRNA	KNOWN	None	42801	None	None	114586640	114588308	1	None	None
14	None	ENSG00000260711	ENST00000565058	sense_intronic	KNOWN	None	None	None	None	92223103	92226142	-1	None	None
6	RNU1-33P	ENSG00000201119	ENST00000364249	snRNA	KNOWN	None	48375	None	None	145784374	145784535	-1	None	None
1	None	ENSG00000228794	ENST00000445118	lincRNA	KNOWN	None	None	None	None	762988	794826	1	None	None
1	None	ENSG00000228794	ENST00000441765	lincRNA	KNOWN	None	None	None	None	763047	777118	1	None	None
1	None	ENSG00000228794	ENST00000449005	lincRNA	KNOWN	None	None	None	None	763053	789006	1	None	None
1	None	ENSG00000228794	ENST00000416570	lincRNA	KNOWN	None	None	None	None	763079	788146	1	None	None
1	None	ENSG00000228794	ENST00000448975	lincRNA	KNOWN	None	None	None	None	763079	788146	1	None	None
1	None	ENSG00000228794	ENST00000415295	lincRNA	KNOWN	None	None	None	None	766985	777400	1	None	None
1	None	ENSG00000228794	ENST00000425657	retained_intron	KNOWN	None	None	None	None	786728	788132	1	None	None
5	None	ENSG00000250387	ENST00000502659	lincRNA	KNOWN	None	None	None	None	70647682	70742169	-1	None	None
5	None	ENSG00000250387	ENST00000517705	lincRNA	KNOWN	None	None	None	None	70649314	70742163	-1	None	None
15	None	ENSG00000259397	ENST00000594613	processed_pseudogene	KNOWN	None	None	None	None	35384682	35385411	1	None	None
15	None	ENSG00000259397	ENST00000558778	processed_pseudogene	KNOWN	None	None	None	None	35384682	35385413	1	None	None
4	None	ENSG00000200658	ENST00000363788	misc_RNA	NOVEL	None	None	None	None	99094935	99095030	1	None	None
6	UST	ENSG00000111962	ENST00000367463	protein_coding	KNOWN	CCDS5213	17223	1221	406	149068464	149398126	1	None	2OST
6	UST	ENSG00000111962	ENST00000473631	processed_transcript	KNOWN	None	17223	None	None	149275043	149326724	1	None	2OST
6	UST	ENSG00000111962	ENST00000466695	processed_transcript	KNOWN	None	17223	None	None	149387312	149395386	1	None	2OST
5	None	ENSG00000251014	ENST00000514243	processed_pseudogene	KNOWN	None	None	None	None	111882670	111883202	1	None	None
11	None	ENSG00000206858	ENST00000384131	misc_RNA	NOVEL	None	None	None	None	10747450	10747551	1	None	None
20	None	ENSG00000224008	ENST00000433766	lincRNA	KNOWN	None	None	None	None	54036874	54043735	-1	None	None
10	SAR1A	ENSG00000079332	ENST00000373238	protein_coding	KNOWN	CCDS7298	10534	597	198	71909960	71922787	-1	SARA1	SAR1, Sara
10	SAR1A	ENSG00000079332	ENST00000373241	protein_coding	KNOWN	CCDS7298	10534	597	198	71909960	71930279	-1	SARA1	SAR1, Sara
10	SAR1A	ENSG00000079332	ENST00000373242	protein_coding	KNOWN	CCDS7298	10534	597	198	71909960	71930279	-1	SARA1	SAR1, Sara
10	SAR1A	ENSG00000079332	ENST00000452767	protein_coding	KNOWN	None	10534	346	114	71911906	71917579	-1	SARA1	SAR1, Sara
10	SAR1A	ENSG00000079332	ENST00000373236	protein_coding	KNOWN	None	10534	366	121	71917431	71921671	-1	SARA1	SAR1, Sara
10	SAR1A	ENSG00000079332	ENST00000477464	processed_transcript	KNOWN	None	10534	None	None	71921040	71921687	-1	SARA1	SAR1, Sara
10	SAR1A	ENSG00000079332	ENST00000373239	protein_coding	KNOWN	None	10534	152	49	71921401	71930268	-1	SARA1	SAR1, Sara
10	SAR1A	ENSG00000079332	ENST00000431664	protein_coding	KNOWN	CCDS7298	10534	597	198	71909979	71921671	-1	SARA1	SAR1, Sara
10	SAR1A	ENSG00000079332	ENST00000458634	protein_coding	KNOWN	None	10534	468	155	71911713	71930228	-1	SARA1	SAR1, Sara
6	None	ENSG00000217612	ENST00000404707	processed_pseudogene	KNOWN	None	None	None	None	145810766	145813228	-1	None	None
4	None	ENSG00000214559	ENST00000356499	antisense	KNOWN	None	None	None	None	99172839	99182781	-1	None	None
7	None	ENSG00000224746	ENST00000419211	processed_transcript	KNOWN	None	None	None	None	135611203	135617629	1	None	None
15	None	ENSG00000263437	ENST00000583261	miRNA	NOVEL	None	None	None	None	51901894	51901963	-1	None	None
HG243_PATCH	None	ENSG00000261587	ENST00000561638	retained_intron	KNOWN	None	None	None	None	145407122	145408973	-1	None	None
HG243_PATCH	None	ENSG00000261587	ENST00000565365	protein_coding	KNOWN	None	None	708	235	145408131	145409817	-1	None	None
HG243_PATCH	None	ENSG00000261587	ENST00000562628	protein_coding	KNOWN	None	None	708	235	145408131	145410512	-1	None	None
HG243_PATCH	None	ENSG00000261587	ENST00000562477	protein_coding	NOVEL	None	None	647	214	145408217	145409748	-1	None	None
13	LINC00452	ENSG00000229373	ENST00000426859	lincRNA	KNOWN	None	42800	None	None	114598076	114624290	1	LINC00453	None
17	NPEPPS	ENSG00000141279	ENST00000527200	retained_intron	KNOWN	None	7900	None	None	45600306	45670039	1	None	PSA, MP100
17	NPEPPS	ENSG00000141279	ENST00000525007	protein_coding	NOVEL	None	7900	604	200	45600308	45660210	1	None	PSA, MP100
17	NPEPPS	ENSG00000141279	ENST00000525037	processed_transcript	KNOWN	None	7900	None	None	45600311	45669911	1	None	PSA, MP100
17	NPEPPS	ENSG00000141279	ENST00000528751	processed_transcript	KNOWN	None	7900	None	None	45600318	45656792	1	None	PSA, MP100
17	NPEPPS	ENSG00000141279	ENST00000530173	protein_coding	NOVEL	None	7900	2748	915	45600323	45699372	1	None	PSA, MP100
17	NPEPPS	ENSG00000141279	ENST00000526247	nonsense_mediated_decay	KNOWN	None	7900	405	134	45600334	45660138	1	None	PSA, MP100
17	NPEPPS	ENSG00000141279	ENST00000532729	nonsense_mediated_decay	KNOWN	None	7900	537	178	45600343	45660164	1	None	PSA, MP100
17	NPEPPS	ENSG00000141279	ENST00000322157	protein_coding	KNOWN	CCDS45721	7900	2760	919	45608430	45700642	1	None	PSA, MP100
17	NPEPPS	ENSG00000141279	ENST00000533573	processed_transcript	KNOWN	None	7900	None	None	45608582	45654502	1	None	PSA, MP100
17	NPEPPS	ENSG00000141279	ENST00000527298	nonsense_mediated_decay	KNOWN	None	7900	492	163	45608648	45670046	1	None	PSA, MP100
17	NPEPPS	ENSG00000141279	ENST00000534691	nonsense_mediated_decay	KNOWN	None	7900	426	141	45608754	45662873	1	None	PSA, MP100
17	NPEPPS	ENSG00000141279	ENST00000602788	retained_intron	KNOWN	None	7900	None	None	45625556	45670039	1	None	PSA, MP100
17	NPEPPS	ENSG00000141279	ENST00000527824	retained_intron	KNOWN	None	7900	None	None	45646795	45663309	1	None	PSA, MP100
17	NPEPPS	ENSG00000141279	ENST00000534727	retained_intron	KNOWN	None	7900	None	None	45660164	45663331	1	None	PSA, MP100
17	NPEPPS	ENSG00000141279	ENST00000534814	processed_transcript	KNOWN	None	7900	None	None	45663080	45669911	1	None	PSA, MP100
17	NPEPPS	ENSG00000141279	ENST00000525401	retained_intron	KNOWN	None	7900	None	None	45663514	45664027	1	None	PSA, MP100
17	NPEPPS	ENSG00000141279	ENST00000527964	protein_coding	PUTATIVE	None	7900	475	157	45663657	45669911	1	None	PSA, MP100
17	NPEPPS	ENSG00000141279	ENST00000530514	nonsense_mediated_decay	KNOWN	None	7900	384	127	45663702	45699483	1	None	PSA, MP100
17	NPEPPS	ENSG00000141279	ENST00000527360	protein_coding	PUTATIVE	None	7900	517	171	45663719	45669911	1	None	PSA, MP100
17	NPEPPS	ENSG00000141279	ENST00000533538	retained_intron	KNOWN	None	7900	None	None	45663889	45670039	1	None	PSA, MP100
17	NPEPPS	ENSG00000141279	ENST00000525021	retained_intron	KNOWN	None	7900	None	None	45664489	45670041	1	None	PSA, MP100
17	NPEPPS	ENSG00000141279	ENST00000529602	retained_intron	KNOWN	None	7900	None	None	45669095	45670030	1	None	PSA, MP100
17	NPEPPS	ENSG00000141279	ENST00000534807	retained_intron	KNOWN	None	7900	None	None	45673433	45679351	1	None	PSA, MP100
17	NPEPPS	ENSG00000141279	ENST00000525048	nonsense_mediated_decay	KNOWN	None	7900	197	64	45679082	45695795	1	None	PSA, MP100
17	NPEPPS	ENSG00000141279	ENST00000531486	retained_intron	KNOWN	None	7900	None	None	45680860	45697580	1	None	PSA, MP100
17	NPEPPS	ENSG00000141279	ENST00000528565	protein_coding	PUTATIVE	None	7900	510	169	45695716	45699334	1	None	PSA, MP100
17	NPEPPS	ENSG00000141279	ENST00000544660	protein_coding	KNOWN	None	7900	2520	839	45608693	45699483	1	None	PSA, MP100
8	None	ENSG00000254357	ENST00000522918	antisense	KNOWN	None	None	None	None	56429799	56433536	-1	None	None
11	None	ENSG00000255125	ENST00000532365	antisense	KNOWN	None	None	None	None	10804860	10823172	1	None	None
11	None	ENSG00000254851	ENST00000528464	unprocessed_pseudogene	KNOWN	None	None	None	None	117006244	117009298	1	None	None
16	PKD1L3	ENSG00000187008	ENST00000534738	processed_transcript	KNOWN	None	21716	None	None	71963441	72033877	-1	None	None
16	PKD1L3	ENSG00000187008	ENST00000335106	processed_transcript	KNOWN	None	21716	None	None	71963441	72033877	-1	None	None
9	CEL	ENSG00000170835	ENST00000372080	protein_coding	KNOWN	CCDS43896	1848	2271	756	135937365	135947248	1	None	BSSL, MODY8
9	CEL	ENSG00000170835	ENST00000351304	protein_coding	KNOWN	None	1848	2064	687	135937365	135947248	1	None	BSSL, MODY8
19	NKPD1	ENSG00000179846	ENST00000589776	protein_coding	KNOWN	None	24739	1833	610	45655161	45657110	-1	None	FLJ33600
19	NKPD1	ENSG00000179846	ENST00000438936	protein_coding	KNOWN	None	24739	1833	610	45655161	45661995	-1	None	FLJ33600
19	NKPD1	ENSG00000179846	ENST00000317951	protein_coding	KNOWN	None	24739	2499	832	45653008	45663408	-1	None	FLJ33600
19	NKPD1	ENSG00000179846	ENST00000429338	protein_coding	KNOWN	None	24739	1596	531	45655196	45657028	-1	None	FLJ33600
8	None	ENSG00000238936	ENST00000459126	snoRNA	NOVEL	None	None	None	None	41284174	41284246	1	None	None
7	RNU6-223P	ENSG00000199700	ENST00000362830	snRNA	KNOWN	None	47186	None	None	135645451	135645557	1	None	None
15	None	ENSG00000259241	ENST00000559918	lincRNA	KNOWN	None	None	None	None	51985413	51987962	-1	None	None
8	None	ENSG00000253396	ENST00000521725	lincRNA	KNOWN	None	None	None	None	41292817	41297938	1	None	None
11	SNORD97	ENSG00000238622	ENST00000459187	snoRNA	KNOWN	None	32760	None	None	10823014	10823155	-1	None	U97
9	SIT1	ENSG00000137078	ENST00000259608	protein_coding	KNOWN	CCDS6582	17710	591	196	35649292	35650937	-1	None	SIT
9	SIT1	ENSG00000137078	ENST00000486859	processed_transcript	KNOWN	None	17710	None	None	35649365	35650467	-1	None	SIT
9	SIT1	ENSG00000137078	ENST00000474403	processed_transcript	KNOWN	None	17710	None	None	35649424	35650907	-1	None	SIT
HSCHR6_MHC_DBB	TAP2	ENSG00000223481	ENST00000451907	protein_coding	KNOWN	None	44	1962	653	32767739	32784483	-1	ABCB3	PSF2, RING11, D6S217E
HSCHR6_MHC_DBB	TAP2	ENSG00000223481	ENST00000452371	protein_coding	KNOWN	None	44	2112	703	32771347	32784536	-1	ABCB3	PSF2, RING11, D6S217E
HSCHR6_MHC_DBB	TAP2	ENSG00000223481	ENST00000462883	retained_intron	KNOWN	None	44	None	None	32774703	32776486	-1	ABCB3	PSF2, RING11, D6S217E
HSCHR6_MHC_DBB	TAP2	ENSG00000223481	ENST00000468636	processed_transcript	PUTATIVE	None	44	None	None	32778054	32778492	-1	ABCB3	PSF2, RING11, D6S217E
12	None	ENSG00000260470	ENST00000564380	lincRNA	KNOWN	None	None	None	None	54538853	54541009	-1	None	None
5	ARSK	ENSG00000164291	ENST00000380009	protein_coding	KNOWN	CCDS4073	25239	1611	536	94890778	94940768	1	None	DKFZp313G1735, TSULF
5	ARSK	ENSG00000164291	ENST00000513814	nonsense_mediated_decay	KNOWN	None	25239	462	153	94890841	94939384	1	None	DKFZp313G1735, TSULF
5	ARSK	ENSG00000164291	ENST00000504763	protein_coding	PUTATIVE	None	25239	141	46	94890871	94892761	1	None	DKFZp313G1735, TSULF
5	ARSK	ENSG00000164291	ENST00000504873	nonsense_mediated_decay	KNOWN	None	25239	1188	395	94890887	94939384	1	None	DKFZp313G1735, TSULF
5	ARSK	ENSG00000164291	ENST00000512106	nonsense_mediated_decay	KNOWN	None	25239	279	92	94891061	94922376	1	None	DKFZp313G1735, TSULF
16	VPS4A	ENSG00000132612	ENST00000569775	processed_transcript	KNOWN	None	13488	None	None	69333562	69354653	1	None	VPS4, VPS4-1, FLJ22197, SKD2, SKD1, SKD1A
16	VPS4A	ENSG00000132612	ENST00000254950	protein_coding	KNOWN	CCDS45517	13488	1314	437	69345259	69358945	1	None	VPS4, VPS4-1, FLJ22197, SKD2, SKD1, SKD1A
16	VPS4A	ENSG00000132612	ENST00000562754	retained_intron	KNOWN	None	13488	None	None	69353392	69355019	1	None	VPS4, VPS4-1, FLJ22197, SKD2, SKD1, SKD1A
16	VPS4A	ENSG00000132612	ENST00000564399	processed_transcript	PUTATIVE	None	13488	None	None	69354996	69356173	1	None	VPS4, VPS4-1, FLJ22197, SKD2, SKD1, SKD1A
16	VPS4A	ENSG00000132612	ENST00000566354	retained_intron	KNOWN	None	13488	None	None	69355114	69358949	1	None	VPS4, VPS4-1, FLJ22197, SKD2, SKD1, SKD1A
7	None	ENSG00000230649	ENST00000440744	lincRNA	KNOWN	None	None	None	None	135710509	135769416	1	None	None
14	None	ENSG00000259020	ENST00000556323	processed_pseudogene	KNOWN	None	None	None	None	92492910	92493231	1	None	None
14	None	ENSG00000259020	ENST00000594284	processed_pseudogene	KNOWN	None	None	None	None	92492910	92493131	1	None	None
X	None	ENSG00000224978	ENST00000415016	processed_pseudogene	KNOWN	None	None	None	None	154441199	154441916	-1	None	None
13	LINC00565	ENSG00000260910	ENST00000562710	lincRNA	KNOWN	None	43709	None	None	114629487	114631817	-1	None	None
X	MIR513A1	ENSG00000207873	ENST00000385138	miRNA	KNOWN	None	32141	None	None	146294981	146295109	-1	MIRN513-1, MIRN513A1	hsa-mir-513-1, hsa-mir-513a-1
6	CENPW	ENSG00000203760	ENST00000368326	protein_coding	KNOWN	None	21488	204	67	126661320	126669754	1	C6orf173	CUG2
6	CENPW	ENSG00000203760	ENST00000368325	protein_coding	KNOWN	None	21488	312	103	126661320	126669754	1	C6orf173	CUG2
6	CENPW	ENSG00000203760	ENST00000368328	protein_coding	KNOWN	CCDS34529	21488	267	88	126661320	126670021	1	C6orf173	CUG2
13	RASA3-IT1	ENSG00000232487	ENST00000454005	sense_intronic	KNOWN	None	39938	None	None	114873044	114874295	-1	None	None
17	None	ENSG00000263715	ENST00000582044	processed_transcript	KNOWN	None	None	None	None	43699274	43893909	1	None	None
17	None	ENSG00000263715	ENST00000587305	processed_transcript	KNOWN	None	None	None	None	43699292	43893853	1	None	None
14	None	ENSG00000244756	ENST00000492636	processed_pseudogene	KNOWN	None	None	None	None	61038742	61039029	-1	None	None
11	None	ENSG00000246308	ENST00000499765	antisense	KNOWN	None	None	None	None	10830844	10844478	1	None	None
8	KRT18P37	ENSG00000253943	ENST00000520711	processed_pseudogene	KNOWN	None	33406	None	None	41368759	41370040	1	None	None
3	None	ENSG00000260234	ENST00000569170	nonsense_mediated_decay	KNOWN	None	None	218	71	150600784	150659530	-1	None	None
3	None	ENSG00000260234	ENST00000562308	nonsense_mediated_decay	KNOWN	None	None	148	48	150601486	150659472	-1	None	None
3	None	ENSG00000260234	ENST00000565169	nonsense_mediated_decay	KNOWN	None	None	206	67	150608725	150659530	-1	None	None
12	CYCSP30	ENSG00000257648	ENST00000546447	processed_pseudogene	KNOWN	None	24405	None	None	88143919	88144090	1	None	HCP30
1	C1orf52	ENSG00000162642	ENST00000294661	processed_transcript	KNOWN	None	24871	None	None	85715639	85725355	-1	None	gm117, FLJ44982
1	C1orf52	ENSG00000162642	ENST00000471115	protein_coding	KNOWN	CCDS703	24871	549	182	85717651	85725325	-1	None	gm117, FLJ44982
1	C1orf52	ENSG00000162642	ENST00000493514	processed_transcript	KNOWN	None	24871	None	None	85723126	85725316	-1	None	gm117, FLJ44982
1	C1orf52	ENSG00000162642	ENST00000344356	protein_coding	KNOWN	None	24871	504	167	85723126	85725316	-1	None	gm117, FLJ44982
13	MIR548AR	ENSG00000264539	ENST00000582191	miRNA	KNOWN	None	43455	None	None	115009980	115010036	1	None	hsa-mir-548ar
14	None	ENSG00000241354	ENST00000489560	processed_pseudogene	KNOWN	None	None	None	None	61068864	61069251	-1	None	None
8	None	ENSG00000253151	ENST00000518261	lincRNA	KNOWN	None	None	None	None	56438745	56446511	1	None	None
3	THOC7-AS1	ENSG00000240549	ENST00000468961	antisense	KNOWN	None	41249	None	None	63846321	63847495	1	None	None
13	MIR4502	ENSG00000265450	ENST00000580432	miRNA	KNOWN	None	41534	None	None	115039303	115039383	1	None	hsa-mir-4502
X	MIR513A2	ENSG00000207984	ENST00000385249	miRNA	KNOWN	None	32142	None	None	146307344	146307470	-1	MIRN513-2, MIRN513A-2, MIRN513A2	hsa-mir-513-2
12	None	ENSG00000258173	ENST00000549057	processed_pseudogene	KNOWN	None	None	None	None	88147191	88147224	-1	None	None
13	CLCP2	ENSG00000226158	ENST00000392050	processed_pseudogene	KNOWN	None	42536	None	None	115072121	115072541	1	None	LGALS10P1
7	None	ENSG00000232053	ENST00000445293	lincRNA	KNOWN	None	None	None	None	135777673	136121911	1	None	None
7	None	ENSG00000232053	ENST00000435996	lincRNA	KNOWN	None	None	None	None	135777705	136122174	1	None	None
7	None	ENSG00000232053	ENST00000437569	lincRNA	KNOWN	None	None	None	None	136090011	136122130	1	None	None
7	None	ENSG00000232053	ENST00000454735	lincRNA	KNOWN	None	None	None	None	136112143	136122158	1	None	None
17	None	ENSG00000265547	ENST00000578936	lincRNA	KNOWN	None	None	None	None	43809069	43810343	-1	None	None
13	NEK3	ENSG00000136098	ENST00000258597	nonsense_mediated_decay	KNOWN	None	7746	900	299	52706775	52733695	-1	None	HSPK36, MGC29949
13	NEK3	ENSG00000136098	ENST00000548127	nonsense_mediated_decay	KNOWN	None	7746	900	299	52706779	52733996	-1	None	HSPK36, MGC29949
13	NEK3	ENSG00000136098	ENST00000550331	retained_intron	KNOWN	None	7746	None	None	52706781	52707975	-1	None	HSPK36, MGC29949
13	NEK3	ENSG00000136098	ENST00000400357	protein_coding	KNOWN	CCDS53871	7746	1470	489	52706787	52731620	-1	None	HSPK36, MGC29949
13	NEK3	ENSG00000136098	ENST00000547820	nonsense_mediated_decay	KNOWN	None	7746	89	28	52707309	52718115	-1	None	HSPK36, MGC29949
13	NEK3	ENSG00000136098	ENST00000551355	nonsense_mediated_decay	KNOWN	None	7746	141	46	52718907	52733718	-1	None	HSPK36, MGC29949
13	NEK3	ENSG00000136098	ENST00000552973	retained_intron	KNOWN	None	7746	None	None	52722277	52733685	-1	None	HSPK36, MGC29949
13	NEK3	ENSG00000136098	ENST00000550841	protein_coding	KNOWN	None	7746	174	57	52728252	52733670	-1	None	HSPK36, MGC29949
13	NEK3	ENSG00000136098	ENST00000452082	protein_coding	KNOWN	None	7746	1533	510	52706787	52731620	-1	None	HSPK36, MGC29949
13	NEK3	ENSG00000136098	ENST00000339406	protein_coding	KNOWN	None	7746	1521	506	52706779	52733996	-1	None	HSPK36, MGC29949
13	NEK3	ENSG00000136098	ENST00000378101	protein_coding	KNOWN	None	7746	1521	506	52706779	52733510	-1	None	HSPK36, MGC29949
14	None	ENSG00000253014	ENST00000517205	snoRNA	NOVEL	None	None	None	None	61073785	61073883	1	None	None
15	None	ENSG00000259296	ENST00000557891	antisense	KNOWN	None	None	None	None	52000192	52007417	-1	None	None
14	RPS2P2	ENSG00000177776	ENST00000554490	processed_pseudogene	KNOWN	None	19790	None	None	74844521	74845121	-1	None	None
22	None	ENSG00000235265	ENST00000413156	unprocessed_pseudogene	KNOWN	None	None	None	None	16084249	16084826	-1	None	None
20	None	ENSG00000235166	ENST00000598445	lincRNA	KNOWN	None	None	None	None	54039558	54043230	1	None	None
20	None	ENSG00000235166	ENST00000416190	lincRNA	KNOWN	None	None	None	None	54039581	54084752	1	None	None
20	None	ENSG00000235166	ENST00000450623	lincRNA	KNOWN	None	None	None	None	54039603	54043328	1	None	None
20	None	ENSG00000235166	ENST00000596828	lincRNA	KNOWN	None	None	None	None	54039908	54043230	1	None	None
14	None	ENSG00000258952	ENST00000555871	lincRNA	KNOWN	None	None	None	None	61107448	61109307	1	None	None
17	None	ENSG00000265964	ENST00000580347	lincRNA	KNOWN	None	None	None	None	43810719	43812035	-1	None	None
13	None	ENSG00000229723	ENST00000446989	antisense	KNOWN	None	None	None	None	115095034	115099423	-1	None	None
11	None	ENSG00000254678	ENST00000525475	processed_pseudogene	KNOWN	None	None	None	None	117014607	117014907	-1	None	None
14	None	ENSG00000261372	ENST00000564606	sense_overlapping	KNOWN	None	None	None	None	92511119	92516739	-1	None	None
14	None	ENSG00000261372	ENST00000568290	sense_overlapping	KNOWN	None	None	None	None	92511150	92516990	-1	None	None
5	None	ENSG00000232174	ENST00000475257	processed_pseudogene	KNOWN	None	None	None	None	137956018	137956653	1	None	None
2	FBLN7	ENSG00000144152	ENST00000331203	protein_coding	KNOWN	CCDS2095	26740	1320	439	112895962	112945791	1	None	FLJ37440, TM14
2	FBLN7	ENSG00000144152	ENST00000409903	protein_coding	NOVEL	None	26740	1101	366	112896003	112945775	1	None	FLJ37440, TM14
2	FBLN7	ENSG00000144152	ENST00000409667	protein_coding	NOVEL	None	26740	918	305	112896160	112945216	1	None	FLJ37440, TM14
2	FBLN7	ENSG00000144152	ENST00000409450	protein_coding	NOVEL	CCDS46391	26740	1182	393	112896160	112945222	1	None	FLJ37440, TM14
2	FBLN7	ENSG00000144152	ENST00000472377	processed_transcript	KNOWN	None	26740	None	None	112908876	112935597	1	None	FLJ37440, TM14
2	FBLN7	ENSG00000144152	ENST00000441565	protein_coding	NOVEL	None	26740	819	272	112917325	112944900	1	None	FLJ37440, TM14
2	FBLN7	ENSG00000144152	ENST00000272559	protein_coding	NOVEL	None	26740	786	261	112939460	112945776	1	None	FLJ37440, TM14
X	MIR506	ENSG00000207731	ENST00000384998	miRNA	KNOWN	None	32143	None	None	146312238	146312361	-1	MIRN506	hsa-mir-506
22	NBEAP3	ENSG00000223875	ENST00000420638	unprocessed_pseudogene	KNOWN	None	40004	None	None	16100517	16124973	-1	None	BCL8C
17	MAPT-AS1	ENSG00000264589	ENST00000579244	antisense	KNOWN	None	43738	None	None	43921017	43972966	-1	None	None
17	MAPT-AS1	ENSG00000264589	ENST00000579599	antisense	KNOWN	None	43738	None	None	43921240	43972879	-1	None	None
17	MAPT-AS1	ENSG00000264589	ENST00000581125	antisense	KNOWN	None	43738	None	None	43921352	43922123	-1	None	None
12	MKRN9P	ENSG00000258128	ENST00000599191	processed_transcript	KNOWN	None	7116	None	None	88175940	88177233	-1	ZNF127L3, MKRN5, MKRNP6	MKRN9, RNF65
12	MKRN9P	ENSG00000258128	ENST00000546624	transcribed_processed_pseudogene	KNOWN	None	7116	None	None	88176895	88178345	-1	ZNF127L3, MKRN5, MKRNP6	MKRN9, RNF65
X	None	ENSG00000225008	ENST00000426370	processed_pseudogene	KNOWN	None	None	None	None	154519651	154520644	-1	None	None
5	None	ENSG00000238745	ENST00000459407	snoRNA	NOVEL	None	None	None	None	137959168	137959271	1	None	None
15	None	ENSG00000259336	ENST00000559246	lincRNA	KNOWN	None	None	None	None	35391223	35461899	-1	None	None
5	None	ENSG00000253404	ENST00000520838	antisense	KNOWN	None	None	None	None	138080123	138088998	-1	None	None
8	None	ENSG00000270907	ENST00000605536	lincRNA	KNOWN	None	None	None	None	56449431	56454613	1	None	None
14	None	ENSG00000258445	ENST00000556153	processed_pseudogene	KNOWN	None	None	None	None	61246696	61247313	1	None	None
X	None	ENSG00000228986	ENST00000452540	processed_pseudogene	KNOWN	None	None	None	None	154521460	154522731	1	None	None
6	None	ENSG00000270638	ENST00000603994	lincRNA	KNOWN	None	None	None	None	146056706	146058354	1	None	None
6	MDN1	ENSG00000112159	ENST00000369393	protein_coding	KNOWN	CCDS5024	18302	16791	5596	90352218	90529442	-1	None	KIAA0301
6	MDN1	ENSG00000112159	ENST00000487831	nonsense_mediated_decay	KNOWN	None	18302	189	62	90352494	90353912	-1	None	KIAA0301
6	MDN1	ENSG00000112159	ENST00000468568	processed_transcript	KNOWN	None	18302	None	None	90380637	90382293	-1	None	KIAA0301
6	MDN1	ENSG00000112159	ENST00000439638	protein_coding	KNOWN	None	18302	3543	1180	90458942	90529437	-1	None	KIAA0301
6	MDN1	ENSG00000112159	ENST00000428876	protein_coding	KNOWN	None	18302	16791	5596	90353231	90529442	-1	None	KIAA0301
19	BCAM	ENSG00000187244	ENST00000589651	retained_intron	KNOWN	None	6722	None	None	45312328	45323852	1	LU	CD239
19	BCAM	ENSG00000187244	ENST00000270233	protein_coding	KNOWN	CCDS12644	6722	1887	628	45312360	45324671	1	LU	CD239
19	BCAM	ENSG00000187244	ENST00000588303	retained_intron	KNOWN	None	6722	None	None	45312372	45315303	1	LU	CD239
19	BCAM	ENSG00000187244	ENST00000591520	protein_coding	NOVEL	None	6722	874	290	45312378	45317561	1	LU	CD239
19	BCAM	ENSG00000187244	ENST00000588603	retained_intron	KNOWN	None	6722	None	None	45312387	45316210	1	LU	CD239
19	BCAM	ENSG00000187244	ENST00000590108	retained_intron	KNOWN	None	6722	None	None	45316405	45316924	1	LU	CD239
19	BCAM	ENSG00000187244	ENST00000590196	nonsense_mediated_decay	KNOWN	None	6722	185	60	45316695	45322059	1	LU	CD239
19	BCAM	ENSG00000187244	ENST00000589558	retained_intron	KNOWN	None	6722	None	None	45321788	45322501	1	LU	CD239
19	BCAM	ENSG00000187244	ENST00000588714	retained_intron	KNOWN	None	6722	None	None	45322504	45323317	1	LU	CD239
19	BCAM	ENSG00000187244	ENST00000590624	retained_intron	KNOWN	None	6722	None	None	45323590	45324673	1	LU	CD239
19	BCAM	ENSG00000187244	ENST00000391955	protein_coding	KNOWN	CCDS42575	6722	1767	588	45312338	45323610	1	LU	CD239
11	None	ENSG00000252992	ENST00000517183	snoRNA	NOVEL	None	None	None	None	117134515	117134668	1	None	None
5	None	ENSG00000253985	ENST00000518473	lincRNA	KNOWN	None	None	None	None	70668503	70670725	-1	None	None
X	MIR507	ENSG00000207969	ENST00000385234	miRNA	KNOWN	None	32144	None	None	146312502	146312595	-1	MIRN507	hsa-mir-507
5	RN7SL867P	ENSG00000265361	ENST00000577579	misc_RNA	KNOWN	None	46883	None	None	138099909	138100243	1	None	None
14	None	ENSG00000270000	ENST00000602790	lincRNA	KNOWN	None	None	None	None	74938633	74939063	-1	None	None
1	DEDD	ENSG00000158796	ENST00000472996	processed_transcript	KNOWN	None	2755	None	None	161090764	161100887	-1	None	DEFT, FLDED1, CASP8IP1, KE05, DEDD1
1	DEDD	ENSG00000158796	ENST00000368006	protein_coding	KNOWN	CCDS1219	2755	957	318	161090764	161102458	-1	None	DEFT, FLDED1, CASP8IP1, KE05, DEDD1
1	DEDD	ENSG00000158796	ENST00000489249	processed_transcript	KNOWN	None	2755	None	None	161091534	161102362	-1	None	DEFT, FLDED1, CASP8IP1, KE05, DEDD1
1	DEDD	ENSG00000158796	ENST00000486041	processed_transcript	KNOWN	None	2755	None	None	161091720	161100637	-1	None	DEFT, FLDED1, CASP8IP1, KE05, DEDD1
1	DEDD	ENSG00000158796	ENST00000368005	protein_coding	KNOWN	None	2755	1047	348	161091815	161100627	-1	None	DEFT, FLDED1, CASP8IP1, KE05, DEDD1
1	DEDD	ENSG00000158796	ENST00000464113	processed_transcript	KNOWN	None	2755	None	None	161092032	161102378	-1	None	DEFT, FLDED1, CASP8IP1, KE05, DEDD1
1	DEDD	ENSG00000158796	ENST00000473679	processed_transcript	KNOWN	None	2755	None	None	161092053	161102240	-1	None	DEFT, FLDED1, CASP8IP1, KE05, DEDD1
1	DEDD	ENSG00000158796	ENST00000490843	processed_transcript	KNOWN	None	2755	None	None	161092116	161102457	-1	None	DEFT, FLDED1, CASP8IP1, KE05, DEDD1
1	DEDD	ENSG00000158796	ENST00000463227	processed_transcript	KNOWN	None	2755	None	None	161092123	161102266	-1	None	DEFT, FLDED1, CASP8IP1, KE05, DEDD1
1	DEDD	ENSG00000158796	ENST00000496632	processed_transcript	KNOWN	None	2755	None	None	161092141	161101941	-1	None	DEFT, FLDED1, CASP8IP1, KE05, DEDD1
1	DEDD	ENSG00000158796	ENST00000392188	protein_coding	KNOWN	None	2755	1047	348	161090767	161102478	-1	None	DEFT, FLDED1, CASP8IP1, KE05, DEDD1
1	DEDD	ENSG00000158796	ENST00000545495	protein_coding	KNOWN	CCDS1219	2755	957	318	161090767	161102478	-1	None	DEFT, FLDED1, CASP8IP1, KE05, DEDD1
1	DEDD	ENSG00000158796	ENST00000458050	protein_coding	KNOWN	CCDS1219	2755	957	318	161090767	161102256	-1	None	DEFT, FLDED1, CASP8IP1, KE05, DEDD1
11	None	ENSG00000250699	ENST00000504906	antisense	KNOWN	None	None	None	None	117187078	117198754	-1	None	None
6	None	ENSG00000270828	ENST00000603042	lincRNA	KNOWN	None	None	None	None	146058047	146058309	-1	None	None
5	RNA5SP194	ENSG00000201532	ENST00000364662	rRNA	KNOWN	None	43094	None	None	138348018	138348130	1	RN5S194	None
8	None	ENSG00000253133	ENST00000523081	antisense	KNOWN	None	None	None	None	41391674	41435887	-1	None	None
17	ATP5LP6	ENSG00000267376	ENST00000585651	processed_pseudogene	KNOWN	None	38168	None	None	74198725	74198877	-1	None	None
6	NOTCH4	ENSG00000204301	ENST00000491215	retained_intron	KNOWN	None	7884	None	None	32162620	32164754	-1	INT3	None
6	NOTCH4	ENSG00000204301	ENST00000474612	retained_intron	KNOWN	None	7884	None	None	32162620	32171947	-1	INT3	None
6	NOTCH4	ENSG00000204301	ENST00000375023	protein_coding	KNOWN	CCDS34420	7884	6012	2003	32162620	32191844	-1	INT3	None
6	NOTCH4	ENSG00000204301	ENST00000465528	processed_transcript	KNOWN	None	7884	None	None	32178703	32182014	-1	INT3	None
6	NOTCH4	ENSG00000204301	ENST00000473562	retained_intron	KNOWN	None	7884	None	None	32183637	32191834	-1	INT3	None
6	NOTCH4	ENSG00000204301	ENST00000443903	protein_coding	KNOWN	None	7884	561	186	32163399	32165355	-1	INT3	None
11	ZNF259	ENSG00000109917	ENST00000429220	protein_coding	NOVEL	None	13051	1159	385	116648436	116658695	-1	None	ZPR1
11	ZNF259	ENSG00000109917	ENST00000444935	protein_coding	NOVEL	None	13051	1292	429	116648436	116658705	-1	None	ZPR1
11	ZNF259	ENSG00000109917	ENST00000227322	protein_coding	KNOWN	CCDS8375	13051	1380	459	116648436	116658766	-1	None	ZPR1
11	ZNF259	ENSG00000109917	ENST00000449430	nonsense_mediated_decay	KNOWN	None	13051	309	102	116652874	116656559	-1	None	ZPR1
11	ZNF259	ENSG00000109917	ENST00000431973	nonsense_mediated_decay	KNOWN	None	13051	229	75	116656294	116658614	-1	None	ZPR1
11	ZNF259	ENSG00000109917	ENST00000425791	nonsense_mediated_decay	KNOWN	None	13051	150	49	116656512	116658755	-1	None	ZPR1
11	ZNF259	ENSG00000109917	ENST00000498065	retained_intron	KNOWN	None	13051	None	None	116657241	116658052	-1	None	ZPR1
11	ZNF259	ENSG00000109917	ENST00000487030	retained_intron	KNOWN	None	13051	None	None	116657728	116658703	-1	None	ZPR1
17	None	ENSG00000262881	ENST00000574252	antisense	KNOWN	None	None	None	None	43985036	43988145	-1	None	None
5	PMCHL2	ENSG00000169040	ENST00000450213	processed_transcript	KNOWN	None	9111	None	None	70671613	70681621	1	None	None
5	PMCHL2	ENSG00000169040	ENST00000415808	processed_transcript	KNOWN	None	9111	None	None	70671613	70681820	1	None	None
5	PMCHL2	ENSG00000169040	ENST00000457791	transcribed_unprocessed_pseudogene	KNOWN	None	9111	None	None	70671657	70672163	1	None	None
5	PMCHL2	ENSG00000169040	ENST00000523548	processed_transcript	PUTATIVE	None	9111	None	None	70673331	70675060	1	None	None
22	None	ENSG00000215270	ENST00000398242	processed_pseudogene	KNOWN	None	None	None	None	16122720	16123768	1	None	None
3	None	ENSG00000184100	ENST00000466133	processed_pseudogene	KNOWN	None	None	None	None	159818637	159820580	1	None	None
3	None	ENSG00000184100	ENST00000331842	processed_pseudogene	KNOWN	None	None	None	None	159818478	159820661	1	None	None
5	None	ENSG00000249593	ENST00000514207	antisense	KNOWN	None	None	None	None	138348336	138349377	1	None	None
5	None	ENSG00000249593	ENST00000504658	antisense	KNOWN	None	None	None	None	138348339	138349913	1	None	None
5	None	ENSG00000249593	ENST00000510110	antisense	KNOWN	None	None	None	None	138348339	138358297	1	None	None
5	None	ENSG00000249593	ENST00000512875	antisense	KNOWN	None	None	None	None	138348339	138386892	1	None	None
17	ATF4P3	ENSG00000228218	ENST00000433309	processed_pseudogene	KNOWN	None	788	None	None	74221832	74222887	-1	ATF4C	None
12	PDCL3P7	ENSG00000256777	ENST00000392251	processed_pseudogene	KNOWN	None	44508	None	None	66669720	66670431	-1	None	None
17	None	ENSG00000262372	ENST00000570454	antisense	KNOWN	None	None	None	None	44112679	44113136	1	None	None
6	None	ENSG00000235652	ENST00000606388	antisense	KNOWN	None	None	None	None	146136048	146207721	1	None	None
6	None	ENSG00000235652	ENST00000452617	antisense	KNOWN	None	None	None	None	146136377	146204575	1	None	None
6	None	ENSG00000235652	ENST00000587426	antisense	KNOWN	None	None	None	None	146136434	146176222	1	None	None
6	None	ENSG00000235652	ENST00000592775	antisense	KNOWN	None	None	None	None	146136434	146192629	1	None	None
6	None	ENSG00000235652	ENST00000591489	antisense	KNOWN	None	None	None	None	146136434	146204729	1	None	None
6	None	ENSG00000235652	ENST00000587540	antisense	KNOWN	None	None	None	None	146136434	146204797	1	None	None
22	HMOX1	ENSG00000100292	ENST00000412893	protein_coding	KNOWN	None	5013	561	186	35776354	35783094	1	None	bK286B10, HO-1
22	HMOX1	ENSG00000100292	ENST00000216117	protein_coding	KNOWN	CCDS13914	5013	867	288	35776828	35790207	1	None	bK286B10, HO-1
22	HMOX1	ENSG00000100292	ENST00000481190	retained_intron	KNOWN	None	5013	None	None	35777086	35782901	1	None	bK286B10, HO-1
22	HMOX1	ENSG00000100292	ENST00000494998	retained_intron	KNOWN	None	5013	None	None	35783033	35786286	1	None	bK286B10, HO-1
6	GPR116	ENSG00000069122	ENST00000265417	protein_coding	KNOWN	CCDS4919	19030	4041	1346	46820336	46922680	-1	None	DKFZp564O1923, KIAA0758
6	GPR116	ENSG00000069122	ENST00000498632	processed_transcript	KNOWN	None	19030	None	None	46827205	46831041	-1	None	DKFZp564O1923, KIAA0758
6	GPR116	ENSG00000069122	ENST00000478711	processed_transcript	KNOWN	None	19030	None	None	46854336	46856153	-1	None	DKFZp564O1923, KIAA0758
6	GPR116	ENSG00000069122	ENST00000283296	protein_coding	KNOWN	CCDS4919	19030	4041	1346	46820249	46889714	-1	None	DKFZp564O1923, KIAA0758
6	GPR116	ENSG00000069122	ENST00000362015	protein_coding	KNOWN	None	19030	3981	1326	46820249	46889714	-1	None	DKFZp564O1923, KIAA0758
6	GPR116	ENSG00000069122	ENST00000456426	protein_coding	KNOWN	None	19030	3615	1204	46820249	46889714	-1	None	DKFZp564O1923, KIAA0758
6	GPR116	ENSG00000069122	ENST00000545669	protein_coding	KNOWN	None	19030	2313	770	46821471	46839602	-1	None	DKFZp564O1923, KIAA0758
11	BANF1	ENSG00000175334	ENST00000312175	protein_coding	KNOWN	CCDS8125	17397	270	89	65769550	65771620	1	None	BAF
11	BANF1	ENSG00000175334	ENST00000445560	protein_coding	KNOWN	CCDS8125	17397	270	89	65769699	65771617	1	None	BAF
11	BANF1	ENSG00000175334	ENST00000530204	protein_coding	KNOWN	None	17397	85	27	65769727	65770806	1	None	BAF
11	BANF1	ENSG00000175334	ENST00000524663	processed_transcript	PUTATIVE	None	17397	None	None	65769787	65771149	1	None	BAF
11	BANF1	ENSG00000175334	ENST00000524628	processed_transcript	PUTATIVE	None	17397	None	None	65769951	65771617	1	None	BAF
11	BANF1	ENSG00000175334	ENST00000533166	protein_coding	KNOWN	CCDS8125	17397	270	89	65770052	65771602	1	None	BAF
11	BANF1	ENSG00000175334	ENST00000527348	protein_coding	KNOWN	CCDS8125	17397	270	89	65770253	65771369	1	None	BAF
11	BANF1	ENSG00000175334	ENST00000528648	processed_transcript	PUTATIVE	None	17397	None	None	65770707	65771364	1	None	BAF
17	CTNS	ENSG00000040531	ENST00000046640	protein_coding	KNOWN	CCDS11031	2518	1104	367	3539762	3564832	1	None	CTNS-LSB, PQLC4
17	CTNS	ENSG00000040531	ENST00000381870	protein_coding	KNOWN	CCDS32530	2518	1203	400	3539773	3564836	1	None	CTNS-LSB, PQLC4
17	CTNS	ENSG00000040531	ENST00000452111	protein_coding	KNOWN	None	2518	225	74	3540019	3552225	1	None	CTNS-LSB, PQLC4
17	CTNS	ENSG00000040531	ENST00000574776	protein_coding	PUTATIVE	None	2518	60	19	3540023	3559820	1	None	CTNS-LSB, PQLC4
17	CTNS	ENSG00000040531	ENST00000495445	retained_intron	KNOWN	None	2518	None	None	3540041	3550898	1	None	CTNS-LSB, PQLC4
17	CTNS	ENSG00000040531	ENST00000467663	nonsense_mediated_decay	KNOWN	None	2518	162	53	3540052	3558557	1	None	CTNS-LSB, PQLC4
17	CTNS	ENSG00000040531	ENST00000488623	processed_transcript	KNOWN	None	2518	None	None	3540054	3558382	1	None	CTNS-LSB, PQLC4
17	CTNS	ENSG00000040531	ENST00000574218	protein_coding	PUTATIVE	None	2518	85	27	3540056	3559845	1	None	CTNS-LSB, PQLC4
17	CTNS	ENSG00000040531	ENST00000399306	protein_coding	PUTATIVE	None	2518	369	122	3540398	3553813	1	None	CTNS-LSB, PQLC4
17	CTNS	ENSG00000040531	ENST00000576979	protein_coding	KNOWN	None	2518	488	161	3543441	3559807	1	None	CTNS-LSB, PQLC4
17	CTNS	ENSG00000040531	ENST00000441220	protein_coding	KNOWN	None	2518	879	292	3540023	3564331	1	None	CTNS-LSB, PQLC4
17	CTNS	ENSG00000040531	ENST00000414524	protein_coding	KNOWN	None	2518	663	220	3540026	3563980	1	None	CTNS-LSB, PQLC4
17	None	ENSG00000251779	ENST00000515970	misc_RNA	NOVEL	None	None	None	None	74315457	74315554	1	None	None
HG305_PATCH	MMP3	ENSG00000263313	ENST00000572537	protein_coding	KNOWN	None	7173	1434	477	102706532	102714534	-1	STMY1, STMY	None
HG305_PATCH	MMP3	ENSG00000263313	ENST00000574390	protein_coding	NOVEL	None	7173	296	97	102707228	102709441	-1	STMY1, STMY	None
HG305_PATCH	MMP3	ENSG00000263313	ENST00000575351	nonsense_mediated_decay	KNOWN	None	7173	129	42	102712983	102714338	-1	STMY1, STMY	None
17	RNU7-101P	ENSG00000252698	ENST00000516889	snRNA	KNOWN	None	45635	None	None	44204762	44204817	1	None	None
3	KRT18P35	ENSG00000215606	ENST00000510488	processed_pseudogene	KNOWN	None	33404	None	None	141189476	141190744	-1	None	None
11	None	ENSG00000271412	ENST00000603578	processed_pseudogene	KNOWN	None	None	None	None	117206972	117207347	-1	None	None
17	None	ENSG00000238418	ENST00000459275	snoRNA	NOVEL	None	None	None	None	74320277	74320380	1	None	None
14	None	ENSG00000259005	ENST00000556370	lincRNA	KNOWN	None	None	None	None	74940710	74941567	-1	None	None
17	KANSL1-AS1	ENSG00000214401	ENST00000398275	antisense	KNOWN	None	43740	None	None	44270942	44274087	1	None	None
17	KANSL1-AS1	ENSG00000214401	ENST00000572973	antisense	KNOWN	None	43740	None	None	44270998	44273903	1	None	None
17	KANSL1-AS1	ENSG00000214401	ENST00000572634	antisense	KNOWN	None	43740	None	None	44273424	44274089	1	None	None
17	RNU6-24P	ENSG00000207169	ENST00000384440	snRNA	KNOWN	None	34268	None	None	74333397	74333503	1	RNU6-24	None
9	NANS	ENSG00000095380	ENST00000210444	protein_coding	KNOWN	CCDS6733	19237	1080	359	100819021	100845357	1	None	SAS
9	NANS	ENSG00000095380	ENST00000495319	processed_transcript	KNOWN	None	19237	None	None	100819050	100840586	1	None	SAS
9	NANS	ENSG00000095380	ENST00000480925	processed_transcript	KNOWN	None	19237	None	None	100819052	100823541	1	None	SAS
9	NANS	ENSG00000095380	ENST00000461452	processed_transcript	KNOWN	None	19237	None	None	100836925	100845357	1	None	SAS
9	NANS	ENSG00000095380	ENST00000415280	protein_coding	KNOWN	None	19237	420	139	100839111	100843337	1	None	SAS
9	NANS	ENSG00000095380	ENST00000427646	protein_coding	KNOWN	None	19237	348	115	100840603	100844448	1	None	SAS
12	RN7SKP166	ENSG00000222744	ENST00000410812	misc_RNA	KNOWN	None	45890	None	None	66686463	66686767	1	None	None
17	None	ENSG00000267518	ENST00000586264	processed_pseudogene	KNOWN	None	None	None	None	74341842	74342162	1	None	None
14	LGALS3	ENSG00000131981	ENST00000553493	protein_coding	PUTATIVE	None	6563	266	87	55590828	55605010	1	LGALS2	MAC-2, GALIG
14	LGALS3	ENSG00000131981	ENST00000254301	protein_coding	KNOWN	CCDS41956	6563	753	250	55595762	55612121	1	LGALS2	MAC-2, GALIG
14	LGALS3	ENSG00000131981	ENST00000553755	processed_transcript	KNOWN	None	6563	None	None	55595974	55609473	1	LGALS2	MAC-2, GALIG
14	LGALS3	ENSG00000131981	ENST00000554715	protein_coding	PUTATIVE	None	6563	702	233	55595978	55610439	1	LGALS2	MAC-2, GALIG
14	LGALS3	ENSG00000131981	ENST00000556438	retained_intron	KNOWN	None	6563	None	None	55603906	55612126	1	LGALS2	MAC-2, GALIG
14	LGALS3	ENSG00000131981	ENST00000556322	processed_transcript	KNOWN	None	6563	None	None	55604087	55609396	1	LGALS2	MAC-2, GALIG
14	LGALS3	ENSG00000131981	ENST00000556263	processed_transcript	PUTATIVE	None	6563	None	None	55604762	55607158	1	LGALS2	MAC-2, GALIG
11	None	ENSG00000254555	ENST00000524605	processed_pseudogene	KNOWN	None	None	None	None	97779253	97779537	-1	None	None
11	PGAP2	ENSG00000148985	ENST00000528216	nonsense_mediated_decay	KNOWN	None	17893	171	56	3818954	3847601	1	None	FRAG1, CWH43-N
11	PGAP2	ENSG00000148985	ENST00000396986	protein_coding	NOVEL	None	17893	936	311	3819049	3847564	1	None	FRAG1, CWH43-N
11	PGAP2	ENSG00000148985	ENST00000300730	protein_coding	KNOWN	CCDS44523	17893	924	307	3819049	3847582	1	None	FRAG1, CWH43-N
11	PGAP2	ENSG00000148985	ENST00000532535	protein_coding	PUTATIVE	None	17893	411	136	3819128	3845286	1	None	FRAG1, CWH43-N
11	PGAP2	ENSG00000148985	ENST00000492246	nonsense_mediated_decay	KNOWN	None	17893	128	41	3819132	3847551	1	None	FRAG1, CWH43-N
11	PGAP2	ENSG00000148985	ENST00000465237	retained_intron	KNOWN	None	17893	None	None	3819138	3845977	1	None	FRAG1, CWH43-N
11	PGAP2	ENSG00000148985	ENST00000477358	nonsense_mediated_decay	KNOWN	None	17893	349	115	3819142	3847547	1	None	FRAG1, CWH43-N
11	PGAP2	ENSG00000148985	ENST00000532523	protein_coding	NOVEL	None	17893	681	226	3819143	3847564	1	None	FRAG1, CWH43-N
11	PGAP2	ENSG00000148985	ENST00000459679	protein_coding	PUTATIVE	None	17893	719	238	3819153	3845784	1	None	FRAG1, CWH43-N
11	PGAP2	ENSG00000148985	ENST00000464229	nonsense_mediated_decay	KNOWN	None	17893	106	34	3819154	3846882	1	None	FRAG1, CWH43-N
11	PGAP2	ENSG00000148985	ENST00000464261	protein_coding	NOVEL	None	17893	795	264	3819155	3846584	1	None	FRAG1, CWH43-N
11	PGAP2	ENSG00000148985	ENST00000490830	nonsense_mediated_decay	KNOWN	None	17893	105	34	3819155	3846739	1	None	FRAG1, CWH43-N
11	PGAP2	ENSG00000148985	ENST00000464906	protein_coding	NOVEL	None	17893	1037	344	3819156	3846910	1	None	FRAG1, CWH43-N
11	PGAP2	ENSG00000148985	ENST00000524661	nonsense_mediated_decay	KNOWN	None	17893	247	81	3819169	3845145	1	None	FRAG1, CWH43-N
11	PGAP2	ENSG00000148985	ENST00000485602	retained_intron	KNOWN	None	17893	None	None	3819171	3846092	1	None	FRAG1, CWH43-N
11	PGAP2	ENSG00000148985	ENST00000475884	nonsense_mediated_decay	KNOWN	None	17893	314	103	3819177	3846865	1	None	FRAG1, CWH43-N
11	PGAP2	ENSG00000148985	ENST00000489571	processed_transcript	KNOWN	None	17893	None	None	3819189	3845573	1	None	FRAG1, CWH43-N
11	PGAP2	ENSG00000148985	ENST00000464441	protein_coding	NOVEL	None	17893	241	79	3819202	3847007	1	None	FRAG1, CWH43-N
11	PGAP2	ENSG00000148985	ENST00000532017	processed_transcript	KNOWN	None	17893	None	None	3819219	3846983	1	None	FRAG1, CWH43-N
11	PGAP2	ENSG00000148985	ENST00000465307	protein_coding	PUTATIVE	None	17893	636	211	3829240	3846875	1	None	FRAG1, CWH43-N
11	PGAP2	ENSG00000148985	ENST00000493547	protein_coding	NOVEL	CCDS58113	17893	699	232	3829272	3847544	1	None	FRAG1, CWH43-N
11	PGAP2	ENSG00000148985	ENST00000495026	retained_intron	KNOWN	None	17893	None	None	3829286	3845671	1	None	FRAG1, CWH43-N
11	PGAP2	ENSG00000148985	ENST00000534498	retained_intron	KNOWN	None	17893	None	None	3829405	3845434	1	None	FRAG1, CWH43-N
11	PGAP2	ENSG00000148985	ENST00000278243	protein_coding	KNOWN	CCDS7747	17893	948	315	3829691	3847601	1	None	FRAG1, CWH43-N
11	PGAP2	ENSG00000148985	ENST00000525937	retained_intron	KNOWN	None	17893	None	None	3829771	3846298	1	None	FRAG1, CWH43-N
11	PGAP2	ENSG00000148985	ENST00000478773	retained_intron	KNOWN	None	17893	None	None	3829789	3846266	1	None	FRAG1, CWH43-N
11	PGAP2	ENSG00000148985	ENST00000483829	retained_intron	KNOWN	None	17893	None	None	3829795	3845535	1	None	FRAG1, CWH43-N
11	PGAP2	ENSG00000148985	ENST00000487112	retained_intron	KNOWN	None	17893	None	None	3829806	3845962	1	None	FRAG1, CWH43-N
11	PGAP2	ENSG00000148985	ENST00000463452	protein_coding	KNOWN	CCDS58112	17893	765	254	3829809	3846771	1	None	FRAG1, CWH43-N
11	PGAP2	ENSG00000148985	ENST00000479072	protein_coding	PUTATIVE	None	17893	285	94	3829824	3846808	1	None	FRAG1, CWH43-N
11	PGAP2	ENSG00000148985	ENST00000496834	protein_coding	PUTATIVE	None	17893	297	98	3829824	3847560	1	None	FRAG1, CWH43-N
11	PGAP2	ENSG00000148985	ENST00000469307	protein_coding	NOVEL	None	17893	735	244	3829829	3846670	1	None	FRAG1, CWH43-N
11	PGAP2	ENSG00000148985	ENST00000464590	retained_intron	KNOWN	None	17893	None	None	3832497	3845587	1	None	FRAG1, CWH43-N
11	PGAP2	ENSG00000148985	ENST00000529944	retained_intron	KNOWN	None	17893	None	None	3837419	3845402	1	None	FRAG1, CWH43-N
11	PGAP2	ENSG00000148985	ENST00000527810	retained_intron	KNOWN	None	17893	None	None	3844850	3845550	1	None	FRAG1, CWH43-N
11	PGAP2	ENSG00000148985	ENST00000528526	retained_intron	KNOWN	None	17893	None	None	3845801	3847105	1	None	FRAG1, CWH43-N
11	PGAP2	ENSG00000148985	ENST00000396993	protein_coding	KNOWN	None	17893	486	161	3819132	3847580	1	None	FRAG1, CWH43-N
11	PGAP2	ENSG00000148985	ENST00000396991	protein_coding	KNOWN	CCDS7747	17893	948	315	3819132	3847580	1	None	FRAG1, CWH43-N
X	None	ENSG00000230491	ENST00000419384	processed_pseudogene	KNOWN	None	None	None	None	154539560	154539803	1	None	None
17	None	ENSG00000242931	ENST00000471402	processed_pseudogene	KNOWN	None	None	None	None	74426499	74427206	-1	None	None
6	TUBB2B	ENSG00000137285	ENST00000259818	protein_coding	KNOWN	CCDS4485	30829	1338	445	3224495	3227969	-1	None	MGC8685, DKFZp566F223, bA506K6.1
6	TUBB2B	ENSG00000137285	ENST00000473006	processed_transcript	KNOWN	None	30829	None	None	3224517	3231964	-1	None	MGC8685, DKFZp566F223, bA506K6.1
12	None	ENSG00000238528	ENST00000458887	snoRNA	KNOWN	None	None	None	None	66739499	66739602	1	None	None
2	GCKR	ENSG00000084734	ENST00000264717	protein_coding	KNOWN	CCDS1757	4196	1878	625	27719709	27746551	1	None	None
2	GCKR	ENSG00000084734	ENST00000417872	nonsense_mediated_decay	KNOWN	None	4196	453	150	27719715	27724030	1	None	None
2	GCKR	ENSG00000084734	ENST00000472290	retained_intron	KNOWN	None	4196	None	None	27719750	27729758	1	None	None
2	GCKR	ENSG00000084734	ENST00000453813	protein_coding	PUTATIVE	None	4196	684	227	27720135	27724697	1	None	None
2	GCKR	ENSG00000084734	ENST00000411584	protein_coding	PUTATIVE	None	4196	569	188	27729377	27732658	1	None	None
2	GCKR	ENSG00000084734	ENST00000478147	retained_intron	KNOWN	None	4196	None	None	27730208	27731078	1	None	None
2	GCKR	ENSG00000084734	ENST00000424318	protein_coding	KNOWN	None	4196	1308	435	27719715	27746554	1	None	None
3	RASA2-IT1	ENSG00000250170	ENST00000507770	sense_intronic	KNOWN	None	41376	None	None	141243975	141244963	1	None	None
17	None	ENSG00000238723	ENST00000458981	misc_RNA	NOVEL	None	None	None	None	44292436	44292537	-1	None	None
2	SPP2	ENSG00000072080	ENST00000373368	protein_coding	KNOWN	CCDS2511	11256	636	211	234959323	234985774	1	None	SPP24
2	SPP2	ENSG00000072080	ENST00000168148	protein_coding	KNOWN	CCDS2511	11256	636	211	234959343	234985778	1	None	SPP24
2	SPP2	ENSG00000072080	ENST00000425558	protein_coding	PUTATIVE	None	11256	393	130	234959431	234978654	1	None	SPP24
2	SPP2	ENSG00000072080	ENST00000492481	processed_transcript	KNOWN	None	11256	None	None	234959481	234964922	1	None	SPP24
14	MIR4709	ENSG00000265649	ENST00000577272	miRNA	KNOWN	None	41690	None	None	74946836	74946907	-1	None	hsa-mir-4709
17	None	ENSG00000262500	ENST00000574657	processed_pseudogene	KNOWN	None	None	None	None	44320972	44322410	1	None	None
12	OSBPL9P5	ENSG00000256285	ENST00000542581	processed_pseudogene	KNOWN	None	48735	None	None	66957304	66957474	1	None	None
22	None	ENSG00000206195	ENST00000447898	lincRNA	KNOWN	None	None	None	None	16147979	16192971	-1	None	None
22	None	ENSG00000206195	ENST00000437781	lincRNA	KNOWN	None	None	None	None	16150255	16193000	-1	None	None
22	None	ENSG00000206195	ENST00000413768	lincRNA	KNOWN	None	None	None	None	16150529	16193004	-1	None	None
22	None	ENSG00000206195	ENST00000383038	processed_transcript	KNOWN	None	None	None	None	16158798	16192995	-1	None	None
22	None	ENSG00000206195	ENST00000458623	lincRNA	KNOWN	None	None	None	None	16186149	16187254	-1	None	None
2	CICP10	ENSG00000224160	ENST00000439497	processed_pseudogene	KNOWN	None	37901	None	None	243062007	243062204	-1	None	None
17	None	ENSG00000262539	ENST00000571422	processed_pseudogene	KNOWN	None	None	None	None	44336917	44337972	-1	None	None
8	None	ENSG00000253174	ENST00000524133	antisense	KNOWN	None	None	None	None	41397900	41402563	-1	None	None
8	None	ENSG00000253174	ENST00000578500	antisense	KNOWN	None	None	None	None	41399566	41402288	-1	None	None
5	None	ENSG00000248813	ENST00000506865	lincRNA	KNOWN	None	None	None	None	31741940	31742434	-1	None	None
11	None	ENSG00000216073	ENST00000401254	miRNA	NOVEL	None	None	None	None	97783797	97783889	-1	None	None
2	None	ENSG00000244528	ENST00000453405	processed_pseudogene	KNOWN	None	None	None	None	243064438	243064620	1	None	None
5	None	ENSG00000248378	ENST00000515358	lincRNA	KNOWN	None	None	None	None	31744095	31744558	-1	None	None
3	YWHAQP6	ENSG00000249986	ENST00000508556	processed_pseudogene	KNOWN	None	37685	None	None	141319118	141319421	-1	None	None
17	None	ENSG00000261575	ENST00000570002	processed_transcript	KNOWN	None	None	None	None	44344403	44344885	1	None	None
17	None	ENSG00000261575	ENST00000562555	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	44344778	44346060	1	None	None
17	None	ENSG00000267546	ENST00000589963	antisense	KNOWN	None	None	None	None	74541750	74553734	-1	None	None
17	None	ENSG00000267546	ENST00000591967	antisense	KNOWN	None	None	None	None	74546923	74553730	-1	None	None
17	None	ENSG00000267546	ENST00000592622	antisense	KNOWN	None	None	None	None	74547662	74553765	-1	None	None
17	None	ENSG00000267546	ENST00000607136	antisense	KNOWN	None	None	None	None	74547862	74549013	-1	None	None
2	None	ENSG00000271153	ENST00000605759	processed_pseudogene	KNOWN	None	None	None	None	243160372	243160825	-1	None	None
7	DNAH11	ENSG00000105877	ENST00000409508	protein_coding	KNOWN	None	2942	13551	4516	21582833	21941457	1	None	Dnahc11, DPL11, CILD7, DNAHC11, DNAHBL, DNHBL
7	DNAH11	ENSG00000105877	ENST00000607050	processed_transcript	KNOWN	None	2942	None	None	21583064	21584767	1	None	Dnahc11, DPL11, CILD7, DNAHC11, DNAHBL, DNHBL
7	DNAH11	ENSG00000105877	ENST00000483691	retained_intron	KNOWN	None	2942	None	None	21599333	21601064	1	None	Dnahc11, DPL11, CILD7, DNAHC11, DNAHBL, DNHBL
7	DNAH11	ENSG00000105877	ENST00000496218	retained_intron	KNOWN	None	2942	None	None	21600709	21610334	1	None	Dnahc11, DPL11, CILD7, DNAHC11, DNAHBL, DNHBL
7	DNAH11	ENSG00000105877	ENST00000465593	processed_transcript	KNOWN	None	2942	None	None	21657812	21675696	1	None	Dnahc11, DPL11, CILD7, DNAHC11, DNAHBL, DNHBL
7	DNAH11	ENSG00000105877	ENST00000465129	processed_transcript	KNOWN	None	2942	None	None	21742328	21743391	1	None	Dnahc11, DPL11, CILD7, DNAHC11, DNAHBL, DNHBL
7	DNAH11	ENSG00000105877	ENST00000605912	protein_coding	PUTATIVE	None	2942	524	173	21775258	21784537	1	None	Dnahc11, DPL11, CILD7, DNAHC11, DNAHBL, DNHBL
7	DNAH11	ENSG00000105877	ENST00000607413	protein_coding	PUTATIVE	None	2942	430	142	21890780	21901588	1	None	Dnahc11, DPL11, CILD7, DNAHC11, DNAHBL, DNHBL
7	DNAH11	ENSG00000105877	ENST00000421290	processed_transcript	KNOWN	None	2942	None	None	21891181	21901629	1	None	Dnahc11, DPL11, CILD7, DNAHC11, DNAHBL, DNHBL
7	DNAH11	ENSG00000105877	ENST00000479878	retained_intron	KNOWN	None	2942	None	None	21932243	21940734	1	None	Dnahc11, DPL11, CILD7, DNAHC11, DNAHBL, DNHBL
7	DNAH11	ENSG00000105877	ENST00000328843	protein_coding	KNOWN	None	2942	13572	4523	21582833	21941457	1	None	Dnahc11, DPL11, CILD7, DNAHC11, DNAHBL, DNHBL
14	None	ENSG00000258027	ENST00000549579	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	20078033	20087764	1	None	None
14	None	ENSG00000258027	ENST00000548217	processed_transcript	KNOWN	None	None	None	None	20085488	20145995	1	None	None
14	None	ENSG00000258027	ENST00000548261	processed_transcript	KNOWN	None	None	None	None	20085491	20146082	1	None	None
X	None	ENSG00000224216	ENST00000444722	antisense	KNOWN	None	None	None	None	154564167	154581240	-1	None	None
X	None	ENSG00000224216	ENST00000412436	antisense	KNOWN	None	None	None	None	154576450	154581271	-1	None	None
19	TRAPPC6A	ENSG00000007255	ENST00000006275	protein_coding	KNOWN	CCDS12655	23069	522	173	45666186	45681495	-1	None	TRS33, MGC2650, HSPC289
19	TRAPPC6A	ENSG00000007255	ENST00000588062	protein_coding	PUTATIVE	CCDS59396	23069	342	113	45666186	45681495	-1	None	TRS33, MGC2650, HSPC289
19	TRAPPC6A	ENSG00000007255	ENST00000585934	protein_coding	KNOWN	CCDS59397	23069	480	159	45666191	45681495	-1	None	TRS33, MGC2650, HSPC289
19	TRAPPC6A	ENSG00000007255	ENST00000592647	protein_coding	PUTATIVE	CCDS59395	23069	384	127	45666399	45681485	-1	None	TRS33, MGC2650, HSPC289
19	TRAPPC6A	ENSG00000007255	ENST00000587818	retained_intron	KNOWN	None	23069	None	None	45667983	45681469	-1	None	TRS33, MGC2650, HSPC289
HG75_PATCH	None	ENSG00000261256	ENST00000563049	protein_coding	KNOWN	None	None	1488	495	34756462	34765353	-1	None	None
17	MRC2	ENSG00000011028	ENST00000303375	protein_coding	KNOWN	CCDS11634	16875	4440	1479	60704762	60770958	1	None	KIAA0709, ENDO180, CLEC13E, CD280
17	MRC2	ENSG00000011028	ENST00000584265	retained_intron	KNOWN	None	16875	None	None	60705046	60753965	1	None	KIAA0709, ENDO180, CLEC13E, CD280
17	MRC2	ENSG00000011028	ENST00000584682	nonsense_mediated_decay	KNOWN	None	16875	473	156	60753755	60757555	1	None	KIAA0709, ENDO180, CLEC13E, CD280
17	MRC2	ENSG00000011028	ENST00000583597	retained_intron	KNOWN	None	16875	None	None	60757992	60770914	1	None	KIAA0709, ENDO180, CLEC13E, CD280
17	MRC2	ENSG00000011028	ENST00000579432	protein_coding	PUTATIVE	None	16875	105	34	60758814	60759684	1	None	KIAA0709, ENDO180, CLEC13E, CD280
17	MRC2	ENSG00000011028	ENST00000446119	protein_coding	PUTATIVE	None	16875	1038	345	60758819	60770956	1	None	KIAA0709, ENDO180, CLEC13E, CD280
17	MRC2	ENSG00000011028	ENST00000580916	processed_transcript	KNOWN	None	16875	None	None	60766219	60767294	1	None	KIAA0709, ENDO180, CLEC13E, CD280
11	None	ENSG00000255380	ENST00000531194	processed_pseudogene	KNOWN	None	None	None	None	98000967	98001926	-1	None	None
6	RSPO3	ENSG00000146374	ENST00000356698	protein_coding	KNOWN	CCDS5135	20866	819	272	127439749	127518441	1	THSD2	FLJ14440
6	RSPO3	ENSG00000146374	ENST00000368317	protein_coding	KNOWN	None	20866	879	292	127440183	127518910	1	THSD2	FLJ14440
6	RSPO3	ENSG00000146374	ENST00000485757	processed_transcript	KNOWN	None	20866	None	None	127440972	127476430	1	THSD2	FLJ14440
17	RN7SL656P	ENSG00000265411	ENST00000579044	misc_RNA	KNOWN	None	46672	None	None	44397045	44397325	1	None	None
12	OSBPL9P4	ENSG00000256420	ENST00000371707	processed_pseudogene	KNOWN	None	48734	None	None	66957747	66962974	-1	None	None
14	RAP1AP	ENSG00000258769	ENST00000554629	processed_pseudogene	KNOWN	None	9856	None	None	74949688	74950138	1	None	KREV1P, SMGP21A
17	NSFP1	ENSG00000260075	ENST00000570034	unprocessed_pseudogene	KNOWN	None	31405	None	None	44450221	44564507	1	NSFP	None
22	DUXAP8	ENSG00000271672	ENST00000456786	transcribed_processed_pseudogene	KNOWN	None	32187	None	None	16150776	16151397	-1	None	None
12	ORMDL2	ENSG00000123353	ENST00000243045	protein_coding	KNOWN	CCDS8893	16037	462	153	56211703	56215663	1	None	HSPC160, adoplin-2, MST095, MSTP095
12	ORMDL2	ENSG00000123353	ENST00000552672	protein_coding	PUTATIVE	None	16037	360	119	56211825	56214496	1	None	HSPC160, adoplin-2, MST095, MSTP095
12	ORMDL2	ENSG00000123353	ENST00000550836	protein_coding	PUTATIVE	None	16037	198	65	56211828	56214260	1	None	HSPC160, adoplin-2, MST095, MSTP095
12	ORMDL2	ENSG00000123353	ENST00000548974	protein_coding	KNOWN	CCDS8893	16037	462	153	56212114	56214297	1	None	HSPC160, adoplin-2, MST095, MSTP095
12	ORMDL2	ENSG00000123353	ENST00000546645	retained_intron	KNOWN	None	16037	None	None	56212140	56213204	1	None	HSPC160, adoplin-2, MST095, MSTP095
2	FAM98A	ENSG00000119812	ENST00000238823	protein_coding	KNOWN	CCDS33179	24520	1557	518	33808725	33824429	-1	None	DKFZP564F0522
2	FAM98A	ENSG00000119812	ENST00000474985	retained_intron	KNOWN	None	24520	None	None	33808729	33814915	-1	None	DKFZP564F0522
2	FAM98A	ENSG00000119812	ENST00000403368	protein_coding	PUTATIVE	None	24520	939	312	33808737	33824358	-1	None	DKFZP564F0522
2	FAM98A	ENSG00000119812	ENST00000475122	retained_intron	KNOWN	None	24520	None	None	33809956	33811936	-1	None	DKFZP564F0522
2	FAM98A	ENSG00000119812	ENST00000492649	retained_intron	KNOWN	None	24520	None	None	33810681	33812708	-1	None	DKFZP564F0522
2	FAM98A	ENSG00000119812	ENST00000498340	processed_transcript	KNOWN	None	24520	None	None	33811738	33824351	-1	None	DKFZP564F0522
2	FAM98A	ENSG00000119812	ENST00000464415	retained_intron	KNOWN	None	24520	None	None	33816990	33824449	-1	None	DKFZP564F0522
2	FAM98A	ENSG00000119812	ENST00000431950	protein_coding	PUTATIVE	None	24520	204	67	33820554	33824344	-1	None	DKFZP564F0522
2	FAM98A	ENSG00000119812	ENST00000441530	protein_coding	KNOWN	None	24520	972	323	33809746	33824358	-1	None	DKFZP564F0522
6	None	ENSG00000270987	ENST00000604292	processed_pseudogene	KNOWN	None	None	None	None	101337479	101338214	1	None	None
20	None	ENSG00000271426	ENST00000603234	processed_pseudogene	KNOWN	None	None	None	None	13054315	13054960	-1	None	None
6	None	ENSG00000238999	ENST00000459146	snoRNA	NOVEL	None	None	None	None	101405036	101405139	1	None	None
22	None	ENSG00000232775	ENST00000440946	processed_transcript	KNOWN	None	None	None	None	16162066	16172700	1	None	None
22	None	ENSG00000232775	ENST00000414726	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	16171460	16172116	1	None	None
8	None	ENSG00000264578	ENST00000581909	antisense	KNOWN	None	None	None	None	41467211	41479021	-1	None	None
12	RFC5	ENSG00000111445	ENST00000449641	protein_coding	PUTATIVE	None	9973	297	98	118451393	118462786	1	None	RFC36
12	RFC5	ENSG00000111445	ENST00000537315	protein_coding	PUTATIVE	None	9973	312	103	118454506	118462801	1	None	RFC36
12	RFC5	ENSG00000111445	ENST00000484086	protein_coding	PUTATIVE	None	9973	418	138	118454509	118458765	1	None	RFC36
12	RFC5	ENSG00000111445	ENST00000420967	protein_coding	KNOWN	None	9973	313	103	118454509	118460119	1	None	RFC36
12	RFC5	ENSG00000111445	ENST00000454402	protein_coding	KNOWN	CCDS9185	9973	1023	340	118454515	118469597	1	None	RFC36
12	RFC5	ENSG00000111445	ENST00000392542	protein_coding	KNOWN	CCDS41843	9973	960	319	118454527	118470032	1	None	RFC36
12	RFC5	ENSG00000111445	ENST00000535092	protein_coding	KNOWN	None	9973	190	62	118454534	118457559	1	None	RFC36
12	RFC5	ENSG00000111445	ENST00000472603	retained_intron	KNOWN	None	9973	None	None	118462721	118465197	1	None	RFC36
12	RFC5	ENSG00000111445	ENST00000543153	processed_transcript	KNOWN	None	9973	None	None	118464695	118470935	1	None	RFC36
12	RFC5	ENSG00000111445	ENST00000229043	protein_coding	KNOWN	None	9973	768	255	118454508	118470038	1	None	RFC36
3	None	ENSG00000242104	ENST00000474979	lincRNA	KNOWN	None	None	None	None	141382041	141439915	1	None	None
6	None	ENSG00000218475	ENST00000401561	processed_pseudogene	KNOWN	None	None	None	None	101878287	101879429	-1	None	None
6	METTL24	ENSG00000053328	ENST00000338882	protein_coding	KNOWN	CCDS43489	21566	1101	366	110567131	110679475	-1	C6orf186	dJ71D21.2
6	METTL24	ENSG00000053328	ENST00000490043	processed_transcript	KNOWN	None	21566	None	None	110643941	110679180	-1	C6orf186	dJ71D21.2
X	None	ENSG00000230578	ENST00000508429	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	154578066	154579025	1	None	None
X	None	ENSG00000230578	ENST00000453508	processed_transcript	KNOWN	None	None	None	None	154578072	154579111	1	None	None
6	None	ENSG00000218536	ENST00000405705	processed_pseudogene	KNOWN	None	None	None	None	102526747	102527430	1	None	None
6	RNU6-502P	ENSG00000199289	ENST00000362419	snRNA	KNOWN	None	47465	None	None	26519579	26519686	-1	None	None
22	None	ENSG00000271127	ENST00000603308	sense_intronic	KNOWN	None	None	None	None	16179617	16181004	-1	None	None
14	None	ENSG00000258425	ENST00000554552	lincRNA	KNOWN	None	None	None	None	75018884	75026751	1	None	None
20	ISM1-AS1	ENSG00000226263	ENST00000431407	antisense	KNOWN	None	44313	None	None	13218448	13220321	-1	None	None
2	ACTR1B	ENSG00000115073	ENST00000289228	protein_coding	KNOWN	CCDS2033	168	1131	376	98272431	98280570	-1	CTRN2	None
2	ACTR1B	ENSG00000115073	ENST00000451664	retained_intron	KNOWN	None	168	None	None	98274441	98280379	-1	CTRN2	None
2	ACTR1B	ENSG00000115073	ENST00000460427	retained_intron	KNOWN	None	168	None	None	98275277	98276354	-1	CTRN2	None
17	AARSD1	ENSG00000266967	ENST00000587023	retained_intron	KNOWN	None	28417	None	None	41102543	41104152	-1	None	MGC2744
17	AARSD1	ENSG00000266967	ENST00000593123	retained_intron	KNOWN	None	28417	None	None	41102543	41106093	-1	None	MGC2744
17	AARSD1	ENSG00000266967	ENST00000592136	retained_intron	KNOWN	None	28417	None	None	41102543	41107051	-1	None	MGC2744
17	AARSD1	ENSG00000266967	ENST00000486493	retained_intron	KNOWN	None	28417	None	None	41102543	41107278	-1	None	MGC2744
17	AARSD1	ENSG00000266967	ENST00000591096	nonsense_mediated_decay	KNOWN	None	28417	283	93	41102543	41107963	-1	None	MGC2744
17	AARSD1	ENSG00000266967	ENST00000474578	retained_intron	KNOWN	None	28417	None	None	41102550	41107362	-1	None	MGC2744
17	AARSD1	ENSG00000266967	ENST00000427569	protein_coding	KNOWN	CCDS58552	28417	1239	412	41102563	41116493	-1	None	MGC2744
17	AARSD1	ENSG00000266967	ENST00000483535	retained_intron	KNOWN	None	28417	None	None	41106866	41107473	-1	None	MGC2744
17	AARSD1	ENSG00000266967	ENST00000486664	retained_intron	KNOWN	None	28417	None	None	41107107	41108542	-1	None	MGC2744
17	AARSD1	ENSG00000266967	ENST00000478040	retained_intron	KNOWN	None	28417	None	None	41107291	41108556	-1	None	MGC2744
17	AARSD1	ENSG00000266967	ENST00000491665	retained_intron	KNOWN	None	28417	None	None	41107456	41108531	-1	None	MGC2744
17	AARSD1	ENSG00000266967	ENST00000450475	nonsense_mediated_decay	KNOWN	None	28417	255	84	41107872	41116499	-1	None	MGC2744
17	AARSD1	ENSG00000266967	ENST00000441280	retained_intron	KNOWN	None	28417	None	None	41107904	41116460	-1	None	MGC2744
17	AARSD1	ENSG00000266967	ENST00000430739	protein_coding	PUTATIVE	None	28417	420	139	41107918	41116515	-1	None	MGC2744
17	AARSD1	ENSG00000266967	ENST00000591910	nonsense_mediated_decay	KNOWN	None	28417	239	78	41107947	41116435	-1	None	MGC2744
17	AARSD1	ENSG00000266967	ENST00000483774	retained_intron	KNOWN	None	28417	None	None	41108045	41109549	-1	None	MGC2744
17	AARSD1	ENSG00000266967	ENST00000436545	nonsense_mediated_decay	KNOWN	None	28417	297	98	41108422	41116471	-1	None	MGC2744
17	AARSD1	ENSG00000266967	ENST00000416949	processed_transcript	KNOWN	None	28417	None	None	41108431	41116496	-1	None	MGC2744
17	AARSD1	ENSG00000266967	ENST00000492036	retained_intron	KNOWN	None	28417	None	None	41112959	41116483	-1	None	MGC2744
6	HCG11	ENSG00000228223	ENST00000411553	lincRNA	KNOWN	None	17707	None	None	26522076	26526807	1	None	bK14H9.3, FLJ14049, FLJ30357
8	None	ENSG00000254193	ENST00000520478	processed_pseudogene	KNOWN	None	None	None	None	100584	100728	-1	None	None
8	MIR486	ENSG00000221035	ENST00000408108	miRNA	KNOWN	None	32342	None	None	41517959	41518026	1	MIRN486	hsa-mir-486
8	WBP1LP3	ENSG00000253612	ENST00000523033	processed_pseudogene	KNOWN	None	43958	None	None	105274	105481	1	None	None
1	BCL10	ENSG00000142867	ENST00000370580	protein_coding	KNOWN	CCDS704	989	702	233	85731931	85742773	-1	None	CARMEN, CIPER, mE10, c-E10, CLAP
22	None	ENSG00000225255	ENST00000438574	lincRNA	KNOWN	None	None	None	None	16199666	16212276	-1	None	None
22	None	ENSG00000225255	ENST00000453395	lincRNA	KNOWN	None	None	None	None	16199666	16231333	-1	None	None
14	None	ENSG00000258976	ENST00000556652	lincRNA	KNOWN	None	None	None	None	75081396	75083315	-1	None	None
14	None	ENSG00000258976	ENST00000555313	lincRNA	KNOWN	None	None	None	None	75081510	75083350	-1	None	None
4	CSN2	ENSG00000135222	ENST00000353151	protein_coding	KNOWN	CCDS3532	2447	681	226	70820974	70826725	-1	CASB	None
8	None	ENSG00000255464	ENST00000508026	processed_pseudogene	KNOWN	None	None	None	None	150385	150562	-1	None	None
11	None	ENSG00000254939	ENST00000527289	processed_pseudogene	KNOWN	None	None	None	None	98435804	98437557	-1	None	None
6	None	ENSG00000219757	ENST00000407792	processed_pseudogene	KNOWN	None	None	None	None	102901242	102901667	-1	None	None
6	None	ENSG00000217120	ENST00000407015	processed_pseudogene	KNOWN	None	None	None	None	103450389	103451772	1	None	None
15	TLE3	ENSG00000140332	ENST00000558939	protein_coding	KNOWN	CCDS45293	11839	2319	772	70340129	70390515	-1	None	ESG, ESG3, KIAA1547, HsT18976, GRG3
15	TLE3	ENSG00000140332	ENST00000317509	protein_coding	KNOWN	CCDS58375	11839	2283	760	70340614	70390239	-1	None	ESG, ESG3, KIAA1547, HsT18976, GRG3
15	TLE3	ENSG00000140332	ENST00000557919	nonsense_mediated_decay	KNOWN	None	11839	1338	445	70341208	70389910	-1	None	ESG, ESG3, KIAA1547, HsT18976, GRG3
15	TLE3	ENSG00000140332	ENST00000560525	nonsense_mediated_decay	KNOWN	None	11839	1835	610	70341315	70389358	-1	None	ESG, ESG3, KIAA1547, HsT18976, GRG3
15	TLE3	ENSG00000140332	ENST00000557815	retained_intron	KNOWN	None	11839	None	None	70341316	70351129	-1	None	ESG, ESG3, KIAA1547, HsT18976, GRG3
15	TLE3	ENSG00000140332	ENST00000560589	protein_coding	PUTATIVE	None	11839	2151	716	70341430	70388289	-1	None	ESG, ESG3, KIAA1547, HsT18976, GRG3
15	TLE3	ENSG00000140332	ENST00000559929	protein_coding	NOVEL	None	11839	2349	782	70341430	70389190	-1	None	ESG, ESG3, KIAA1547, HsT18976, GRG3
15	TLE3	ENSG00000140332	ENST00000559048	protein_coding	KNOWN	None	11839	2319	772	70342138	70388943	-1	None	ESG, ESG3, KIAA1547, HsT18976, GRG3
15	TLE3	ENSG00000140332	ENST00000560939	protein_coding	PUTATIVE	None	11839	2325	774	70342138	70389040	-1	None	ESG, ESG3, KIAA1547, HsT18976, GRG3
15	TLE3	ENSG00000140332	ENST00000557997	protein_coding	NOVEL	None	11839	2295	764	70342138	70390227	-1	None	ESG, ESG3, KIAA1547, HsT18976, GRG3
15	TLE3	ENSG00000140332	ENST00000561453	nonsense_mediated_decay	KNOWN	None	11839	1347	448	70342138	70390256	-1	None	ESG, ESG3, KIAA1547, HsT18976, GRG3
15	TLE3	ENSG00000140332	ENST00000559608	retained_intron	KNOWN	None	11839	None	None	70342140	70343844	-1	None	ESG, ESG3, KIAA1547, HsT18976, GRG3
15	TLE3	ENSG00000140332	ENST00000539550	protein_coding	NOVEL	None	11839	2100	699	70342141	70387124	-1	None	ESG, ESG3, KIAA1547, HsT18976, GRG3
15	TLE3	ENSG00000140332	ENST00000558201	protein_coding	PUTATIVE	None	11839	2337	778	70342141	70388776	-1	None	ESG, ESG3, KIAA1547, HsT18976, GRG3
15	TLE3	ENSG00000140332	ENST00000440567	protein_coding	NOVEL	None	11839	2289	762	70342141	70389091	-1	None	ESG, ESG3, KIAA1547, HsT18976, GRG3
15	TLE3	ENSG00000140332	ENST00000559191	protein_coding	PUTATIVE	None	11839	1062	353	70342175	70390205	-1	None	ESG, ESG3, KIAA1547, HsT18976, GRG3
15	TLE3	ENSG00000140332	ENST00000557907	protein_coding	KNOWN	None	11839	2295	764	70342436	70389137	-1	None	ESG, ESG3, KIAA1547, HsT18976, GRG3
15	TLE3	ENSG00000140332	ENST00000558379	protein_coding	NOVEL	None	11839	2304	767	70342436	70389137	-1	None	ESG, ESG3, KIAA1547, HsT18976, GRG3
15	TLE3	ENSG00000140332	ENST00000451782	protein_coding	KNOWN	CCDS45294	11839	2310	769	70342436	70389183	-1	None	ESG, ESG3, KIAA1547, HsT18976, GRG3
15	TLE3	ENSG00000140332	ENST00000542329	retained_intron	KNOWN	None	11839	None	None	70345513	70347602	-1	None	ESG, ESG3, KIAA1547, HsT18976, GRG3
15	TLE3	ENSG00000140332	ENST00000559826	retained_intron	KNOWN	None	11839	None	None	70350430	70351154	-1	None	ESG, ESG3, KIAA1547, HsT18976, GRG3
15	TLE3	ENSG00000140332	ENST00000557984	protein_coding	PUTATIVE	None	11839	462	153	70358462	70387927	-1	None	ESG, ESG3, KIAA1547, HsT18976, GRG3
15	TLE3	ENSG00000140332	ENST00000560996	protein_coding	PUTATIVE	None	11839	310	102	70358482	70388641	-1	None	ESG, ESG3, KIAA1547, HsT18976, GRG3
15	TLE3	ENSG00000140332	ENST00000537387	nonsense_mediated_decay	KNOWN	None	11839	120	39	70358483	70366934	-1	None	ESG, ESG3, KIAA1547, HsT18976, GRG3
15	TLE3	ENSG00000140332	ENST00000559574	processed_transcript	KNOWN	None	11839	None	None	70389744	70390187	-1	None	ESG, ESG3, KIAA1547, HsT18976, GRG3
15	TLE3	ENSG00000140332	ENST00000442299	protein_coding	KNOWN	None	11839	2295	764	70340543	70390256	-1	None	ESG, ESG3, KIAA1547, HsT18976, GRG3
6	None	ENSG00000202283	ENST00000365413	snoRNA	NOVEL	None	None	None	None	104031010	104031143	1	None	None
8	None	ENSG00000253166	ENST00000522984	unprocessed_pseudogene	KNOWN	None	None	None	None	152660	152897	-1	None	None
6	R3HDM2P2	ENSG00000216817	ENST00000401880	processed_pseudogene	KNOWN	None	44057	None	None	104465508	104467623	-1	None	None
HSCHR17_1_CTG4	KRT33B	ENSG00000263012	ENST00000570596	protein_coding	KNOWN	None	6451	1215	404	39519746	39526052	-1	KRTHA3B	Ha-3II
8	None	ENSG00000253389	ENST00000522388	antisense	KNOWN	None	None	None	None	41518509	41523084	1	None	None
8	None	ENSG00000253389	ENST00000585088	antisense	KNOWN	None	None	None	None	41518804	41521504	1	None	None
8	None	ENSG00000253389	ENST00000520418	antisense	KNOWN	None	None	None	None	41518826	41521766	1	None	None
8	RPL23AP53	ENSG00000223508	ENST00000606975	processed_transcript	KNOWN	None	35921	None	None	163186	182211	-1	None	None
8	RPL23AP53	ENSG00000223508	ENST00000521854	transcribed_processed_pseudogene	KNOWN	None	35921	None	None	163251	163707	-1	None	None
8	RPL23AP53	ENSG00000223508	ENST00000606507	processed_transcript	KNOWN	None	35921	None	None	180008	182231	-1	None	None
X	None	ENSG00000225882	ENST00000453902	lincRNA	KNOWN	None	None	None	None	17988317	18122764	-1	None	None
22	GRAMD4P2	ENSG00000235992	ENST00000423297	processed_pseudogene	KNOWN	None	39654	None	None	16227138	16228807	1	None	None
12	HMGA2	ENSG00000149948	ENST00000403681	protein_coding	KNOWN	CCDS44936	5009	330	109	66217911	66360075	1	HMGIC	BABL, LIPO
12	HMGA2	ENSG00000149948	ENST00000537275	nonsense_mediated_decay	KNOWN	None	5009	312	103	66218240	66236697	1	HMGIC	BABL, LIPO
12	HMGA2	ENSG00000149948	ENST00000393578	protein_coding	PUTATIVE	None	5009	273	90	66218240	66236708	1	HMGIC	BABL, LIPO
12	HMGA2	ENSG00000149948	ENST00000537429	nonsense_mediated_decay	KNOWN	None	5009	261	86	66218240	66275670	1	HMGIC	BABL, LIPO
12	HMGA2	ENSG00000149948	ENST00000425208	protein_coding	PUTATIVE	None	5009	279	92	66218240	66275906	1	HMGIC	BABL, LIPO
12	HMGA2	ENSG00000149948	ENST00000536545	protein_coding	PUTATIVE	None	5009	444	147	66218240	66309227	1	HMGIC	BABL, LIPO
12	HMGA2	ENSG00000149948	ENST00000354636	protein_coding	KNOWN	CCDS31854	5009	321	106	66218240	66309307	1	HMGIC	BABL, LIPO
12	HMGA2	ENSG00000149948	ENST00000545998	retained_intron	KNOWN	None	5009	None	None	66218591	66222793	1	HMGIC	BABL, LIPO
12	HMGA2	ENSG00000149948	ENST00000541363	protein_coding	PUTATIVE	None	5009	300	99	66218678	66352634	1	HMGIC	BABL, LIPO
12	HMGA2	ENSG00000149948	ENST00000393577	protein_coding	PUTATIVE	None	5009	357	118	66218903	66346316	1	HMGIC	BABL, LIPO
12	HMGA2	ENSG00000149948	ENST00000539662	nonsense_mediated_decay	KNOWN	None	5009	168	55	66221781	66357190	1	HMGIC	BABL, LIPO
12	None	ENSG00000256248	ENST00000535721	lincRNA	KNOWN	None	None	None	None	67285656	67462942	-1	None	None
22	None	ENSG00000241838	ENST00000417657	processed_pseudogene	KNOWN	None	None	None	None	16255355	16256477	-1	None	None
22	None	ENSG00000241838	ENST00000339523	processed_pseudogene	KNOWN	None	None	None	None	16255919	16256227	-1	None	None
20	None	ENSG00000225956	ENST00000420044	antisense	KNOWN	None	None	None	None	13224711	13226016	-1	None	None
4	None	ENSG00000251264	ENST00000512628	lincRNA	KNOWN	None	None	None	None	55306669	55312890	-1	None	None
15	MIR5701-2	ENSG00000266545	ENST00000585138	miRNA	KNOWN	None	43510	None	None	21145581	21145662	1	None	hsa-mir-5701-2
15	MIR5701-1	ENSG00000266545	ENST00000585138	miRNA	KNOWN	None	43522	None	None	21145581	21145662	1	None	hsa-mir-5701-1
12	None	ENSG00000257083	ENST00000535917	lincRNA	KNOWN	None	None	None	None	67429288	67490186	-1	None	None
12	None	ENSG00000257083	ENST00000538008	lincRNA	KNOWN	None	None	None	None	67471406	67490064	-1	None	None
12	None	ENSG00000257083	ENST00000502700	lincRNA	KNOWN	None	None	None	None	67480558	67489334	-1	None	None
22	POTEH-AS1	ENSG00000236666	ENST00000422014	antisense	KNOWN	None	40058	None	None	16274560	16278602	1	None	None
X	MTND1P32	ENSG00000232282	ENST00000433043	processed_pseudogene	KNOWN	None	42081	None	None	102040595	102041532	1	None	None
3	None	ENSG00000225399	ENST00000440528	protein_coding	PUTATIVE	None	None	441	146	49297518	49298744	1	None	None
22	RNU6-816P	ENSG00000212216	ENST00000390914	snRNA	KNOWN	None	47779	None	None	16276398	16276504	-1	None	None
2	FAHD2A	ENSG00000115042	ENST00000445649	protein_coding	KNOWN	None	24252	244	80	96068469	96071550	1	None	CGI-105
2	FAHD2A	ENSG00000115042	ENST00000447036	protein_coding	KNOWN	CCDS2014	24252	945	314	96068471	96078844	1	None	CGI-105
2	FAHD2A	ENSG00000115042	ENST00000233379	protein_coding	KNOWN	CCDS2014	24252	945	314	96068474	96082364	1	None	CGI-105
2	FAHD2A	ENSG00000115042	ENST00000418606	protein_coding	KNOWN	None	24252	381	126	96068539	96072824	1	None	CGI-105
2	FAHD2A	ENSG00000115042	ENST00000463940	retained_intron	KNOWN	None	24252	None	None	96071022	96073261	1	None	CGI-105
2	FAHD2A	ENSG00000115042	ENST00000470100	retained_intron	KNOWN	None	24252	None	None	96072686	96078530	1	None	CGI-105
X	MIR1184-2	ENSG00000221190	ENST00000408263	miRNA	KNOWN	None	38211	None	None	154612749	154612847	-1	None	hsa-mir-1184-2
X	MIR1184-3	ENSG00000221190	ENST00000408263	miRNA	KNOWN	None	38389	None	None	154612749	154612847	-1	None	hsa-mir-1184-3
4	None	ENSG00000250456	ENST00000508484	lincRNA	KNOWN	None	None	None	None	55469378	55473298	-1	None	None
1	CEP104	ENSG00000116198	ENST00000378230	protein_coding	KNOWN	CCDS30571	24866	2778	925	3728645	3773763	-1	KIAA0562	GlyBP, RP1-286D6.4
1	CEP104	ENSG00000116198	ENST00000484420	retained_intron	KNOWN	None	24866	None	None	3731803	3733022	-1	KIAA0562	GlyBP, RP1-286D6.4
1	CEP104	ENSG00000116198	ENST00000438539	protein_coding	KNOWN	None	24866	572	189	3732713	3745870	-1	KIAA0562	GlyBP, RP1-286D6.4
1	CEP104	ENSG00000116198	ENST00000461667	protein_coding	PUTATIVE	None	24866	558	185	3739340	3745937	-1	KIAA0562	GlyBP, RP1-286D6.4
1	CEP104	ENSG00000116198	ENST00000495701	retained_intron	KNOWN	None	24866	None	None	3746256	3747788	-1	KIAA0562	GlyBP, RP1-286D6.4
1	CEP104	ENSG00000116198	ENST00000460038	processed_transcript	KNOWN	None	24866	None	None	3747655	3753700	-1	KIAA0562	GlyBP, RP1-286D6.4
1	CEP104	ENSG00000116198	ENST00000494653	retained_intron	KNOWN	None	24866	None	None	3750235	3773762	-1	KIAA0562	GlyBP, RP1-286D6.4
1	CEP104	ENSG00000116198	ENST00000443466	protein_coding	KNOWN	None	24866	430	142	3751626	3755674	-1	KIAA0562	GlyBP, RP1-286D6.4
1	CEP104	ENSG00000116198	ENST00000428079	protein_coding	KNOWN	None	24866	598	198	3755647	3773758	-1	KIAA0562	GlyBP, RP1-286D6.4
1	CEP104	ENSG00000116198	ENST00000494951	retained_intron	KNOWN	None	24866	None	None	3756321	3764268	-1	KIAA0562	GlyBP, RP1-286D6.4
1	CEP104	ENSG00000116198	ENST00000378223	protein_coding	KNOWN	None	24866	735	244	3759673	3773778	-1	KIAA0562	GlyBP, RP1-286D6.4
14	None	ENSG00000258439	ENST00000555623	processed_pseudogene	KNOWN	None	None	None	None	75124752	75125293	1	None	None
22	MED15P7	ENSG00000234381	ENST00000435410	unprocessed_pseudogene	KNOWN	None	48656	None	None	16333633	16342783	1	None	None
17	UBE2SP2	ENSG00000224126	ENST00000428091	processed_pseudogene	KNOWN	None	32196	None	None	18580574	18581070	1	None	None
4	None	ENSG00000249727	ENST00000512898	lincRNA	KNOWN	None	None	None	None	55702327	55711568	-1	None	None
14	LINC00221	ENSG00000187156	ENST00000433371	lincRNA	KNOWN	None	20169	None	None	106938445	106977000	1	C14orf98, NCRNA00221	None
14	LINC00221	ENSG00000187156	ENST00000449670	lincRNA	KNOWN	None	20169	None	None	106938455	106946494	1	C14orf98, NCRNA00221	None
14	LINC00221	ENSG00000187156	ENST00000334298	lincRNA	KNOWN	None	20169	None	None	106938474	106951462	1	C14orf98, NCRNA00221	None
6	DDO	ENSG00000203797	ENST00000368924	protein_coding	KNOWN	CCDS5082	2727	1110	369	110712974	110736765	-1	None	None
6	DDO	ENSG00000203797	ENST00000368923	protein_coding	KNOWN	CCDS5083	2727	933	310	110712974	110736765	-1	None	None
6	DDO	ENSG00000203797	ENST00000479373	nonsense_mediated_decay	KNOWN	None	2727	333	110	110712974	110736765	-1	None	None
6	DDO	ENSG00000203797	ENST00000368925	protein_coding	KNOWN	None	2727	1026	341	110712974	110740732	-1	None	None
4	None	ENSG00000251256	ENST00000514413	lincRNA	KNOWN	None	None	None	None	55711734	55725407	1	None	None
15	CT60	ENSG00000258710	ENST00000553416	lincRNA	KNOWN	None	28003	None	None	21145767	21198632	1	None	LOC348120
15	CT60	ENSG00000258710	ENST00000554817	lincRNA	KNOWN	None	28003	None	None	21184349	21196111	1	None	LOC348120
15	CT60	ENSG00000258710	ENST00000557312	lincRNA	KNOWN	None	28003	None	None	21184376	21196817	1	None	LOC348120
15	CT60	ENSG00000258710	ENST00000554209	lincRNA	KNOWN	None	28003	None	None	21184394	21188743	1	None	LOC348120
15	CT60	ENSG00000258710	ENST00000567916	lincRNA	KNOWN	None	28003	None	None	21195988	21198600	1	None	LOC348120
17	None	ENSG00000265693	ENST00000577873	transcribed_processed_pseudogene	KNOWN	None	None	None	None	18607953	18608082	1	None	None
1	PQLC2	ENSG00000040487	ENST00000375155	protein_coding	KNOWN	CCDS195	26001	876	291	19638820	19655794	1	None	FLJ20320
1	PQLC2	ENSG00000040487	ENST00000375153	protein_coding	KNOWN	CCDS195	26001	876	291	19638822	19655774	1	None	FLJ20320
1	PQLC2	ENSG00000040487	ENST00000469076	nonsense_mediated_decay	KNOWN	None	26001	108	35	19638824	19655778	1	None	FLJ20320
1	PQLC2	ENSG00000040487	ENST00000400548	protein_coding	KNOWN	CCDS30618	26001	681	226	19638835	19655794	1	None	FLJ20320
1	PQLC2	ENSG00000040487	ENST00000497827	nonsense_mediated_decay	KNOWN	None	26001	303	100	19639223	19655481	1	None	FLJ20320
1	PQLC2	ENSG00000040487	ENST00000432465	protein_coding	PUTATIVE	None	26001	384	127	19651248	19654575	1	None	FLJ20320
1	FAM41C	ENSG00000230368	ENST00000446136	lincRNA	KNOWN	None	27635	None	None	803451	812283	-1	None	None
1	FAM41C	ENSG00000230368	ENST00000432963	lincRNA	KNOWN	None	27635	None	None	803620	805581	-1	None	None
1	FAM41C	ENSG00000230368	ENST00000427857	lincRNA	KNOWN	None	27635	None	None	803783	812182	-1	None	None
20	GAPDHP2	ENSG00000236811	ENST00000432206	processed_pseudogene	KNOWN	None	16577	None	None	13373324	13374321	1	GAPDP2	dJ585I14.1
11	None	ENSG00000254599	ENST00000532109	lincRNA	KNOWN	None	None	None	None	98547121	98554465	1	None	None
4	None	ENSG00000248317	ENST00000509711	lincRNA	KNOWN	None	None	None	None	55809796	55822985	1	None	None
17	TLCD1	ENSG00000160606	ENST00000292090	protein_coding	KNOWN	CCDS11242	25177	744	247	27051366	27053226	-1	None	None
17	TLCD1	ENSG00000160606	ENST00000581236	protein_coding	PUTATIVE	None	25177	161	52	27051376	27051868	-1	None	None
17	TLCD1	ENSG00000160606	ENST00000394933	protein_coding	KNOWN	CCDS54102	25177	603	200	27051471	27053950	-1	None	None
17	TLCD1	ENSG00000160606	ENST00000580518	protein_coding	PUTATIVE	None	25177	442	146	27051617	27054953	-1	None	None
17	None	ENSG00000265478	ENST00000584957	lincRNA	KNOWN	None	None	None	None	18713269	18714253	-1	None	None
5	IRX4	ENSG00000113430	ENST00000231357	protein_coding	KNOWN	CCDS3867	6129	1560	519	1877541	1882880	-1	None	None
5	IRX4	ENSG00000113430	ENST00000505790	protein_coding	KNOWN	CCDS3867	6129	1560	519	1877562	1887332	-1	None	None
5	IRX4	ENSG00000113430	ENST00000508261	nonsense_mediated_decay	KNOWN	None	6129	591	196	1877928	1882866	-1	None	None
5	IRX4	ENSG00000113430	ENST00000513692	protein_coding	KNOWN	CCDS3867	6129	1560	519	1877928	1887350	-1	None	None
5	IRX4	ENSG00000113430	ENST00000505938	processed_transcript	KNOWN	None	6129	None	None	1878899	1881207	-1	None	None
5	IRX4	ENSG00000113430	ENST00000511126	protein_coding	NOVEL	None	6129	648	215	1879784	1882858	-1	None	None
16	SLX1B-SULT1A4	ENSG00000260280	ENST00000564950	sense_overlapping	KNOWN	None	48353	None	None	29466412	29476283	1	None	None
3	None	ENSG00000241899	ENST00000492841	processed_pseudogene	KNOWN	None	None	None	None	141427858	141428674	-1	None	None
20	NNAT	ENSG00000053438	ENST00000062104	protein_coding	KNOWN	CCDS13296	7860	246	81	36149617	36152092	1	None	Peg5
20	NNAT	ENSG00000053438	ENST00000346199	protein_coding	KNOWN	CCDS13297	7860	165	54	36149621	36152092	1	None	Peg5
HG185_PATCH	None	ENSG00000262688	ENST00000572049	misc_RNA	NOVEL	None	None	None	None	39886381	39886657	-1	None	None
4	RPL38P3	ENSG00000244422	ENST00000484463	processed_pseudogene	KNOWN	None	35980	None	None	55842326	55842538	-1	None	None
5	None	ENSG00000265132	ENST00000578031	miRNA	NOVEL	None	None	None	None	70683103	70683190	-1	None	None
2	ZC3H8	ENSG00000144161	ENST00000409573	protein_coding	KNOWN	CCDS46392	30941	876	291	112973254	113012688	-1	ZC3HDC8	Fliz1
2	ZC3H8	ENSG00000144161	ENST00000476902	processed_transcript	KNOWN	None	30941	None	None	112973482	112989462	-1	ZC3HDC8	Fliz1
2	ZC3H8	ENSG00000144161	ENST00000474234	processed_transcript	KNOWN	None	30941	None	None	112990903	113012600	-1	ZC3HDC8	Fliz1
2	ZC3H8	ENSG00000144161	ENST00000466259	retained_intron	KNOWN	None	30941	None	None	112990912	112996168	-1	ZC3HDC8	Fliz1
2	ZC3H8	ENSG00000144161	ENST00000464305	processed_transcript	KNOWN	None	30941	None	None	112994163	113012713	-1	ZC3HDC8	Fliz1
2	ZC3H8	ENSG00000144161	ENST00000495264	retained_intron	KNOWN	None	30941	None	None	113007684	113012637	-1	ZC3HDC8	Fliz1
2	ZC3H8	ENSG00000144161	ENST00000272570	protein_coding	KNOWN	None	30941	876	291	112973442	113012664	-1	ZC3HDC8	Fliz1
HG536_PATCH	None	ENSG00000261547	ENST00000563652	lincRNA	KNOWN	None	None	None	None	69829626	69835827	-1	None	None
HG536_PATCH	None	ENSG00000261547	ENST00000566544	lincRNA	KNOWN	None	None	None	None	69829635	69831218	-1	None	None
2	MTND1P29	ENSG00000237722	ENST00000448112	unprocessed_pseudogene	KNOWN	None	42078	None	None	131028169	131029845	1	None	None
4	None	ENSG00000264332	ENST00000582628	miRNA	NOVEL	None	None	None	None	55877000	55877099	-1	None	None
11	None	ENSG00000254830	ENST00000527345	lincRNA	KNOWN	None	None	None	None	98809642	98815809	-1	None	None
4	RNU6-410P	ENSG00000252815	ENST00000517006	snRNA	KNOWN	None	47373	None	None	55898132	55898238	-1	None	None
HG185_PATCH	None	ENSG00000266571	ENST00000583330	misc_RNA	NOVEL	None	None	None	None	39993316	39993580	-1	None	None
17	ZBTB4	ENSG00000174282	ENST00000380599	protein_coding	KNOWN	CCDS11107	23847	3042	1013	7362685	7382844	-1	None	KIAA1538, KAISO-L1, ZNF903
17	ZBTB4	ENSG00000174282	ENST00000311403	protein_coding	KNOWN	CCDS11107	23847	3042	1013	7362685	7387582	-1	None	KIAA1538, KAISO-L1, ZNF903
17	None	ENSG00000250111	ENST00000507171	unprocessed_pseudogene	KNOWN	None	None	None	None	18739020	18745677	1	None	None
8	None	ENSG00000253164	ENST00000519159	lincRNA	KNOWN	None	None	None	None	20207721	20227986	1	None	None
8	None	ENSG00000253164	ENST00000521139	lincRNA	KNOWN	None	None	None	None	20207767	20230280	1	None	None
19	KPTN	ENSG00000118162	ENST00000338134	protein_coding	KNOWN	CCDS42583	6404	1311	436	47978401	47987525	-1	None	2E4
19	KPTN	ENSG00000118162	ENST00000600551	processed_transcript	KNOWN	None	6404	None	None	47978407	47979444	-1	None	2E4
19	KPTN	ENSG00000118162	ENST00000594208	nonsense_mediated_decay	KNOWN	None	6404	453	150	47978450	47987419	-1	None	2E4
19	KPTN	ENSG00000118162	ENST00000595554	protein_coding	NOVEL	None	6404	790	262	47980101	47987433	-1	None	2E4
19	KPTN	ENSG00000118162	ENST00000600271	protein_coding	PUTATIVE	None	6404	128	41	47980978	47987476	-1	None	2E4
19	KPTN	ENSG00000118162	ENST00000594139	retained_intron	KNOWN	None	6404	None	None	47983814	47986835	-1	None	2E4
19	KPTN	ENSG00000118162	ENST00000595484	processed_transcript	KNOWN	None	6404	None	None	47983949	47987522	-1	None	2E4
19	KPTN	ENSG00000118162	ENST00000602193	processed_transcript	KNOWN	None	6404	None	None	47983980	47987518	-1	None	2E4
19	KPTN	ENSG00000118162	ENST00000598699	processed_transcript	KNOWN	None	6404	None	None	47984084	47987151	-1	None	2E4
19	KPTN	ENSG00000118162	ENST00000536339	protein_coding	KNOWN	None	6404	591	196	47978450	47987419	-1	None	2E4
7	TMEM60	ENSG00000135211	ENST00000257663	protein_coding	KNOWN	CCDS5593	21754	402	133	77423045	77427897	-1	C7orf35	DC32
4	None	ENSG00000250646	ENST00000511222	antisense	KNOWN	None	None	None	None	55919227	55958701	1	None	None
2	MTND2P22	ENSG00000231954	ENST00000444325	unprocessed_pseudogene	KNOWN	None	42123	None	None	131030052	131031084	1	None	None
6	SERPINB1	ENSG00000021355	ENST00000380739	protein_coding	KNOWN	CCDS4477	3311	1140	379	2832566	2842240	-1	ELANH2	EI, PI2, anti-elastase
6	SERPINB1	ENSG00000021355	ENST00000468511	processed_transcript	KNOWN	None	3311	None	None	2833746	2838233	-1	ELANH2	EI, PI2, anti-elastase
6	SERPINB1	ENSG00000021355	ENST00000490094	processed_transcript	KNOWN	None	3311	None	None	2836090	2842193	-1	ELANH2	EI, PI2, anti-elastase
6	SERPINB1	ENSG00000021355	ENST00000476896	processed_transcript	KNOWN	None	3311	None	None	2836342	2842082	-1	ELANH2	EI, PI2, anti-elastase
6	SERPINB1	ENSG00000021355	ENST00000460260	processed_transcript	KNOWN	None	3311	None	None	2838783	2842096	-1	ELANH2	EI, PI2, anti-elastase
6	SERPINB1	ENSG00000021355	ENST00000537185	protein_coding	KNOWN	None	3311	687	228	2833642	2842094	-1	ELANH2	EI, PI2, anti-elastase
17	RN7SL627P	ENSG00000264485	ENST00000577683	misc_RNA	KNOWN	None	46643	None	None	18743931	18744231	1	None	None
17	None	ENSG00000264273	ENST00000577360	antisense	KNOWN	None	None	None	None	18762667	18764779	-1	None	None
7	None	ENSG00000235720	ENST00000419271	processed_pseudogene	KNOWN	None	None	None	None	63353664	63355019	1	None	None
14	None	ENSG00000258391	ENST00000603228	lincRNA	KNOWN	None	None	None	None	50505863	50555913	-1	None	None
14	None	ENSG00000258391	ENST00000556019	lincRNA	KNOWN	None	None	None	None	50508361	50555893	-1	None	None
20	None	ENSG00000221328	ENST00000408401	miRNA	NOVEL	None	None	None	None	13936410	13936503	-1	None	None
21	None	ENSG00000228137	ENST00000444966	antisense	KNOWN	None	None	None	None	47666804	47667596	1	None	None
14	None	ENSG00000257432	ENST00000547023	processed_pseudogene	KNOWN	None	None	None	None	20097282	20098616	1	None	None
15	PRELID1P4	ENSG00000259592	ENST00000561466	processed_pseudogene	KNOWN	None	43889	None	None	35413774	35414285	-1	None	None
2	None	ENSG00000236211	ENST00000419523	unprocessed_pseudogene	KNOWN	None	None	None	None	131031481	131033022	1	None	None
17	None	ENSG00000235672	ENST00000434303	transcribed_processed_pseudogene	KNOWN	None	None	None	None	18811592	18812178	1	None	None
8	DEFB104B	ENSG00000177023	ENST00000316169	protein_coding	KNOWN	CCDS34812	26165	219	72	7327830	7332604	-1	None	None
7	None	ENSG00000226581	ENST00000450544	lincRNA	KNOWN	None	None	None	None	63361201	63378372	1	None	None
8	None	ENSG00000254180	ENST00000521975	processed_transcript	KNOWN	None	None	None	None	91546839	91632298	-1	None	None
21	None	ENSG00000239415	ENST00000447037	processed_transcript	KNOWN	None	None	None	None	47671463	47672748	-1	None	None
21	None	ENSG00000239415	ENST00000430259	processed_transcript	KNOWN	None	None	None	None	47671726	47674047	-1	None	None
2	None	ENSG00000230496	ENST00000446518	unprocessed_pseudogene	KNOWN	None	None	None	None	131033165	131033830	1	None	None
9	RBPJP2	ENSG00000237086	ENST00000451936	processed_pseudogene	KNOWN	None	5726	None	None	65973177	65974604	1	IGKJRBP2, RBPSUHP2	None
8	None	ENSG00000272240	ENST00000606572	antisense	KNOWN	None	None	None	None	184347	184887	-1	None	None
14	None	ENSG00000258892	ENST00000553946	processed_transcript	KNOWN	None	None	None	None	61346432	61449303	1	None	None
17	None	ENSG00000212618	ENST00000391316	snoRNA	NOVEL	None	None	None	None	18847312	18847386	1	None	None
X	None	ENSG00000238210	ENST00000427686	lincRNA	KNOWN	None	None	None	None	134386524	134387506	1	None	None
X	None	ENSG00000238210	ENST00000454551	lincRNA	KNOWN	None	None	None	None	134386740	134387531	1	None	None
2	MTATP6P7	ENSG00000232990	ENST00000453315	unprocessed_pseudogene	KNOWN	None	44581	None	None	131034080	131034760	1	None	None
7	GPR85	ENSG00000164604	ENST00000424100	protein_coding	KNOWN	CCDS5758	4536	1113	370	112722336	112726542	-1	None	SREB2
7	GPR85	ENSG00000164604	ENST00000297146	protein_coding	KNOWN	CCDS5758	4536	1113	370	112722336	112727810	-1	None	SREB2
7	GPR85	ENSG00000164604	ENST00000449591	protein_coding	KNOWN	CCDS5758	4536	1113	370	112723664	112726393	-1	None	SREB2
7	GPR85	ENSG00000164604	ENST00000449735	protein_coding	KNOWN	None	4536	364	120	112724413	112726424	-1	None	SREB2
7	GPR85	ENSG00000164604	ENST00000438062	protein_coding	KNOWN	None	4536	213	70	112724564	112726469	-1	None	SREB2
7	GPR85	ENSG00000164604	ENST00000487573	processed_transcript	KNOWN	None	4536	None	None	112724786	112727833	-1	None	SREB2
7	GPR85	ENSG00000164604	ENST00000501255	protein_coding	KNOWN	CCDS5758	4536	1113	370	112720468	112727833	-1	None	SREB2
X	MTND2P2	ENSG00000229954	ENST00000434633	processed_pseudogene	KNOWN	None	23767	None	None	102041741	102043315	1	None	None
15	UBL7-AS1	ENSG00000247240	ENST00000564137	antisense	KNOWN	None	48614	None	None	74753606	74771563	1	None	None
15	UBL7-AS1	ENSG00000247240	ENST00000499217	antisense	KNOWN	None	48614	None	None	74753606	74773643	1	None	None
15	UBL7-AS1	ENSG00000247240	ENST00000567286	antisense	KNOWN	None	48614	None	None	74753648	74771606	1	None	None
15	UBL7-AS1	ENSG00000247240	ENST00000564621	antisense	KNOWN	None	48614	None	None	74753677	74773632	1	None	None
15	UBL7-AS1	ENSG00000247240	ENST00000568853	antisense	KNOWN	None	48614	None	None	74753685	74773629	1	None	None
17	None	ENSG00000196893	ENST00000354432	antisense	KNOWN	None	None	None	None	18854938	18857462	-1	None	None
X	MIR508	ENSG00000207589	ENST00000384857	miRNA	KNOWN	None	32145	None	None	146318431	146318545	-1	MIRN508	hsa-mir-508
7	None	ENSG00000263891	ENST00000585312	miRNA	NOVEL	None	None	None	None	63361446	63361511	1	None	None
HG1091_PATCH	FHIT	ENSG00000262683	ENST00000571653	protein_coding	KNOWN	None	3701	444	147	59737133	61237194	-1	None	FRA3B, AP3Aase
HG1091_PATCH	FHIT	ENSG00000262683	ENST00000573237	protein_coding	KNOWN	None	3701	444	147	59735036	61237185	-1	None	FRA3B, AP3Aase
HG1091_PATCH	FHIT	ENSG00000262683	ENST00000574932	retained_intron	KNOWN	None	3701	None	None	60521543	61237119	-1	None	FRA3B, AP3Aase
HG1091_PATCH	FHIT	ENSG00000262683	ENST00000575876	processed_transcript	KNOWN	None	3701	None	None	59735428	60066566	-1	None	FRA3B, AP3Aase
HG1091_PATCH	FHIT	ENSG00000262683	ENST00000574398	processed_transcript	KNOWN	None	3701	None	None	61229745	61237147	-1	None	FRA3B, AP3Aase
HG1091_PATCH	FHIT	ENSG00000262683	ENST00000570847	protein_coding	KNOWN	None	3701	236	77	59999746	61237148	-1	None	FRA3B, AP3Aase
HG1091_PATCH	FHIT	ENSG00000262683	ENST00000571334	protein_coding	KNOWN	None	3701	444	147	59735036	61237148	-1	None	FRA3B, AP3Aase
8	SLC25A37	ENSG00000147454	ENST00000519973	protein_coding	KNOWN	CCDS47828	29786	1017	338	23386318	23432976	1	None	MSCP, MFRN, MFRN1
8	SLC25A37	ENSG00000147454	ENST00000417331	nonsense_mediated_decay	KNOWN	None	29786	480	159	23386469	23428976	1	None	MSCP, MFRN, MFRN1
8	SLC25A37	ENSG00000147454	ENST00000290075	nonsense_mediated_decay	KNOWN	None	29786	468	155	23386469	23429716	1	None	MSCP, MFRN, MFRN1
8	SLC25A37	ENSG00000147454	ENST00000518881	retained_intron	KNOWN	None	29786	None	None	23386480	23429734	1	None	MSCP, MFRN, MFRN1
8	SLC25A37	ENSG00000147454	ENST00000519192	processed_transcript	KNOWN	None	29786	None	None	23386488	23389438	1	None	MSCP, MFRN, MFRN1
8	SLC25A37	ENSG00000147454	ENST00000520654	retained_intron	KNOWN	None	29786	None	None	23386566	23426478	1	None	MSCP, MFRN, MFRN1
8	SLC25A37	ENSG00000147454	ENST00000523930	protein_coding	PUTATIVE	None	29786	462	153	23386573	23429371	1	None	MSCP, MFRN, MFRN1
8	SLC25A37	ENSG00000147454	ENST00000523883	retained_intron	KNOWN	None	29786	None	None	23398983	23429716	1	None	MSCP, MFRN, MFRN1
8	SLC25A37	ENSG00000147454	ENST00000517923	processed_transcript	PUTATIVE	None	29786	None	None	23399075	23423898	1	None	MSCP, MFRN, MFRN1
8	SLC25A37	ENSG00000147454	ENST00000520949	processed_transcript	KNOWN	None	29786	None	None	23399200	23423891	1	None	MSCP, MFRN, MFRN1
8	SLC25A37	ENSG00000147454	ENST00000522164	processed_transcript	KNOWN	None	29786	None	None	23424196	23429103	1	None	MSCP, MFRN, MFRN1
8	SLC25A37	ENSG00000147454	ENST00000521637	processed_transcript	KNOWN	None	29786	None	None	23424289	23429103	1	None	MSCP, MFRN, MFRN1
21	RPL18AP2	ENSG00000225043	ENST00000450007	processed_pseudogene	KNOWN	None	23774	None	None	47840467	47840948	-1	None	None
2	None	ENSG00000249997	ENST00000510008	unprocessed_pseudogene	KNOWN	None	None	None	None	131034757	131035530	1	None	None
7	NMD3P1	ENSG00000226342	ENST00000439704	processed_pseudogene	KNOWN	None	22672	None	None	63369344	63370831	-1	NMD3P	None
15	ANP32AP1	ENSG00000259516	ENST00000560832	processed_transcript	KNOWN	None	42949	None	None	35474000	35530398	1	None	None
15	ANP32AP1	ENSG00000259516	ENST00000559548	transcribed_processed_pseudogene	KNOWN	None	42949	None	None	35529527	35530263	1	None	None
17	None	ENSG00000263045	ENST00000573133	processed_pseudogene	KNOWN	None	None	None	None	18889461	18889647	-1	None	None
2	MTND4P27	ENSG00000230548	ENST00000450813	unprocessed_pseudogene	KNOWN	None	42214	None	None	131036330	131037683	1	None	None
21	DIP2A-IT1	ENSG00000223692	ENST00000442434	sense_intronic	KNOWN	None	41430	None	None	47882384	47889219	1	None	None
8	None	ENSG00000253178	ENST00000520905	unprocessed_pseudogene	KNOWN	None	None	None	None	20408712	20408916	1	None	None
7	None	ENSG00000227910	ENST00000419937	processed_transcript	PUTATIVE	None	None	None	None	63385165	63386124	-1	None	None
7	None	ENSG00000227910	ENST00000434426	processed_transcript	PUTATIVE	None	None	None	None	63385226	63386655	-1	None	None
7	None	ENSG00000227910	ENST00000451395	transcribed_processed_pseudogene	KNOWN	None	None	None	None	63386237	63386684	-1	None	None
5	None	ENSG00000249981	ENST00000510180	lincRNA	KNOWN	None	None	None	None	70741443	70742396	1	None	None
17	SNORD3B-1	ENSG00000265185	ENST00000577988	lincRNA	KNOWN	None	10168	None	None	18965225	18965807	1	RNU3A1	U3a, U3b1, U3b2
17	SNORD3B-1	ENSG00000265185	ENST00000363359	snoRNA	KNOWN	None	10168	None	None	18965225	18965440	1	RNU3A1	U3a, U3b1, U3b2
8	None	ENSG00000251944	ENST00000516135	snoRNA	NOVEL	None	None	None	None	20472340	20472437	-1	None	None
2	MTND5P29	ENSG00000234934	ENST00000458676	unprocessed_pseudogene	KNOWN	None	42291	None	None	131037872	131039678	1	None	None
14	None	ENSG00000257357	ENST00000551144	lincRNA	KNOWN	None	None	None	None	20105463	20109540	1	None	None
17	TMEM199	ENSG00000244045	ENST00000292114	protein_coding	KNOWN	CCDS11228	18085	627	208	26684604	26690705	1	C17orf32	MGC45714
17	TMEM199	ENSG00000244045	ENST00000555264	nonsense_mediated_decay	KNOWN	None	18085	378	125	26684665	26688199	1	C17orf32	MGC45714
17	TMEM199	ENSG00000244045	ENST00000580868	nonsense_mediated_decay	KNOWN	None	18085	270	89	26684670	26688251	1	C17orf32	MGC45714
17	TMEM199	ENSG00000244045	ENST00000581386	processed_transcript	KNOWN	None	18085	None	None	26684680	26686634	1	C17orf32	MGC45714
17	TMEM199	ENSG00000244045	ENST00000483505	retained_intron	KNOWN	None	18085	None	None	26684731	26688256	1	C17orf32	MGC45714
17	TMEM199	ENSG00000244045	ENST00000395404	protein_coding	PUTATIVE	None	18085	105	34	26685066	26688477	1	C17orf32	MGC45714
17	TMEM199	ENSG00000244045	ENST00000577317	retained_intron	KNOWN	None	18085	None	None	26686210	26688130	1	C17orf32	MGC45714
17	TMEM199	ENSG00000244045	ENST00000585027	retained_intron	KNOWN	None	18085	None	None	26687261	26688317	1	C17orf32	MGC45714
17	TMEM199	ENSG00000244045	ENST00000509083	protein_coding	KNOWN	None	18085	900	299	26684670	26708716	1	C17orf32	MGC45714
14	None	ENSG00000270788	ENST00000604187	processed_pseudogene	KNOWN	None	None	None	None	50517086	50518054	1	None	None
X	MIR514B	ENSG00000252583	ENST00000516774	miRNA	KNOWN	None	38292	None	None	146331669	146331748	-1	None	hsa-mir-514b
16	SULT1A2	ENSG00000197165	ENST00000534108	nonsense_mediated_decay	KNOWN	None	11454	666	221	28603264	28607695	-1	STP2	HAST4
16	SULT1A2	ENSG00000197165	ENST00000533150	protein_coding	NOVEL	None	11454	789	262	28603264	28608368	-1	STP2	HAST4
16	SULT1A2	ENSG00000197165	ENST00000335715	protein_coding	KNOWN	CCDS10636	11454	888	295	28603264	28608430	-1	STP2	HAST4
16	SULT1A2	ENSG00000197165	ENST00000526384	protein_coding	KNOWN	None	11454	576	191	28604591	28607616	-1	STP2	HAST4
16	SULT1A2	ENSG00000197165	ENST00000395630	protein_coding	KNOWN	CCDS10636	11454	888	295	28603266	28607801	-1	STP2	HAST4
5	None	ENSG00000253536	ENST00000522871	processed_pseudogene	KNOWN	None	None	None	None	70771588	70772143	-1	None	None
21	RNU6-396P	ENSG00000202239	ENST00000365369	snRNA	KNOWN	None	47359	None	None	47945531	47945635	1	None	None
14	None	ENSG00000258485	ENST00000553832	processed_pseudogene	KNOWN	None	None	None	None	61385958	61386873	-1	None	None
19	ABHD8	ENSG00000127220	ENST00000247706	protein_coding	KNOWN	CCDS12355	23759	1320	439	17402940	17414282	-1	None	FLJ11743, MGC14280, MGC2512
19	ABHD8	ENSG00000127220	ENST00000593489	protein_coding	PUTATIVE	None	23759	525	174	17411949	17421045	-1	None	FLJ11743, MGC14280, MGC2512
19	ABHD8	ENSG00000127220	ENST00000594194	protein_coding	PUTATIVE	None	23759	391	129	17412098	17414234	-1	None	FLJ11743, MGC14280, MGC2512
2	MTND6P8	ENSG00000248136	ENST00000503471	unprocessed_pseudogene	KNOWN	None	39471	None	None	131039658	131040179	-1	None	None
17	SNORD3B-2	ENSG00000262074	ENST00000571722	lincRNA	KNOWN	None	33190	None	None	18966762	18967449	-1	None	U3-2B, U3b2
17	SNORD3B-2	ENSG00000262074	ENST00000364880	snoRNA	KNOWN	None	33190	None	None	18967234	18967449	-1	None	U3-2B, U3b2
2	ARL4C	ENSG00000188042	ENST00000390645	protein_coding	KNOWN	CCDS2512	698	579	192	235401685	235405697	-1	ARL7	LAK
2	ARL4C	ENSG00000188042	ENST00000339728	protein_coding	KNOWN	None	698	606	201	235401685	235405244	-1	ARL7	LAK
8	None	ENSG00000253300	ENST00000517706	lincRNA	KNOWN	None	None	None	None	20513202	20557455	-1	None	None
8	None	ENSG00000253300	ENST00000518687	lincRNA	KNOWN	None	None	None	None	20525349	20557645	-1	None	None
21	None	ENSG00000272283	ENST00000607098	misc_RNA	NOVEL	None	None	None	None	47955709	47956003	1	None	None
5	None	ENSG00000250358	ENST00000508879	lincRNA	KNOWN	None	None	None	None	111964133	111967797	1	None	None
5	None	ENSG00000250358	ENST00000507565	lincRNA	KNOWN	None	None	None	None	111964297	111966399	1	None	None
5	None	ENSG00000250358	ENST00000513687	lincRNA	KNOWN	None	None	None	None	111964554	111966262	1	None	None
7	None	ENSG00000265017	ENST00000582948	miRNA	NOVEL	None	None	None	None	63387214	63387279	1	None	None
3	PLSCR1	ENSG00000188313	ENST00000342435	protein_coding	KNOWN	CCDS3135	9092	957	318	146232967	146262651	-1	None	MMTRA1B
3	PLSCR1	ENSG00000188313	ENST00000493432	nonsense_mediated_decay	KNOWN	None	9092	126	41	146232968	146262308	-1	None	MMTRA1B
3	PLSCR1	ENSG00000188313	ENST00000463777	nonsense_mediated_decay	KNOWN	None	9092	126	41	146233589	146262342	-1	None	MMTRA1B
3	PLSCR1	ENSG00000188313	ENST00000487389	protein_coding	PUTATIVE	None	9092	936	311	146233604	146262524	-1	None	MMTRA1B
3	PLSCR1	ENSG00000188313	ENST00000468985	nonsense_mediated_decay	KNOWN	None	9092	126	41	146233739	146262342	-1	None	MMTRA1B
3	PLSCR1	ENSG00000188313	ENST00000448787	protein_coding	PUTATIVE	None	9092	714	237	146233742	146262407	-1	None	MMTRA1B
3	PLSCR1	ENSG00000188313	ENST00000488253	nonsense_mediated_decay	KNOWN	None	9092	126	41	146233846	146262317	-1	None	MMTRA1B
3	PLSCR1	ENSG00000188313	ENST00000489775	nonsense_mediated_decay	KNOWN	None	9092	126	41	146233857	146262334	-1	None	MMTRA1B
3	PLSCR1	ENSG00000188313	ENST00000483300	protein_coding	NOVEL	None	9092	514	170	146233875	146246537	-1	None	MMTRA1B
3	PLSCR1	ENSG00000188313	ENST00000484560	processed_transcript	PUTATIVE	None	9092	None	None	146234227	146235181	-1	None	MMTRA1B
3	PLSCR1	ENSG00000188313	ENST00000478267	nonsense_mediated_decay	KNOWN	None	9092	126	41	146234690	146262325	-1	None	MMTRA1B
3	PLSCR1	ENSG00000188313	ENST00000470496	processed_transcript	PUTATIVE	None	9092	None	None	146234799	146239499	-1	None	MMTRA1B
3	PLSCR1	ENSG00000188313	ENST00000462666	protein_coding	NOVEL	None	9092	745	247	146234876	146262357	-1	None	MMTRA1B
3	PLSCR1	ENSG00000188313	ENST00000486631	protein_coding	PUTATIVE	None	9092	514	170	146234936	146262428	-1	None	MMTRA1B
3	PLSCR1	ENSG00000188313	ENST00000472349	protein_coding	KNOWN	None	9092	748	248	146234945	146262643	-1	None	MMTRA1B
3	PLSCR1	ENSG00000188313	ENST00000494568	retained_intron	KNOWN	None	9092	None	None	146239504	146262365	-1	None	MMTRA1B
3	PLSCR1	ENSG00000188313	ENST00000490745	retained_intron	KNOWN	None	9092	None	None	146243316	146254606	-1	None	MMTRA1B
3	PLSCR1	ENSG00000188313	ENST00000469266	retained_intron	KNOWN	None	9092	None	None	146245730	146262514	-1	None	MMTRA1B
3	PLSCR1	ENSG00000188313	ENST00000477974	processed_transcript	PUTATIVE	None	9092	None	None	146258640	146262340	-1	None	MMTRA1B
3	PLSCR1	ENSG00000188313	ENST00000448205	protein_coding	KNOWN	None	9092	93	30	146232968	146262308	-1	None	MMTRA1B
12	None	ENSG00000256750	ENST00000542577	lincRNA	KNOWN	None	None	None	None	119196559	119199484	-1	None	None
12	None	ENSG00000256750	ENST00000536572	lincRNA	KNOWN	None	None	None	None	119196610	119199462	-1	None	None
21	DSTNP1	ENSG00000230982	ENST00000419906	processed_pseudogene	KNOWN	None	23769	None	None	48073470	48073934	-1	None	None
HG185_PATCH	None	ENSG00000260752	ENST00000566311	sense_overlapping	KNOWN	None	None	None	None	40004770	40007699	-1	None	None
2	None	ENSG00000233550	ENST00000422855	unprocessed_pseudogene	KNOWN	None	None	None	None	131040252	131040902	1	None	None
8	None	ENSG00000253799	ENST00000517505	lincRNA	KNOWN	None	None	None	None	91605032	91618293	-1	None	None
7	SLC25A1P3	ENSG00000213645	ENST00000395415	processed_pseudogene	KNOWN	None	43846	None	None	63391519	63392346	1	None	None
8	None	ENSG00000254104	ENST00000522979	processed_pseudogene	KNOWN	None	None	None	None	214315	214672	1	None	None
X	None	ENSG00000229015	ENST00000439434	lincRNA	KNOWN	None	None	None	None	134530354	134531689	1	None	None
2	None	ENSG00000226915	ENST00000429272	processed_pseudogene	KNOWN	None	None	None	None	131051395	131051978	1	None	None
HSCHR12_1_CTG1	DDX11L8	ENSG00000272495	ENST00000572276	unprocessed_pseudogene	KNOWN	None	37101	None	None	62310	63501	1	None	None
7	VN1R34P	ENSG00000233173	ENST00000447387	unitary_pseudogene	KNOWN	None	37354	None	None	63394827	63395709	-1	None	None
8	None	ENSG00000246792	ENST00000501194	antisense	KNOWN	None	None	None	None	91658669	91663985	1	None	None
8	None	ENSG00000246792	ENST00000519233	antisense	KNOWN	None	None	None	None	91658686	91660969	1	None	None
8	None	ENSG00000246792	ENST00000522132	antisense	KNOWN	None	None	None	None	91660976	91668826	1	None	None
14	None	ENSG00000243038	ENST00000494283	processed_pseudogene	KNOWN	None	None	None	None	50519575	50520287	1	None	None
21	RPL23AP4	ENSG00000212932	ENST00000427757	processed_pseudogene	KNOWN	None	10321	None	None	48110676	48111138	1	None	None
21	RPL23AP4	ENSG00000212932	ENST00000434638	processed_pseudogene	KNOWN	None	10321	None	None	48110795	48111157	1	None	None
8	None	ENSG00000249868	ENST00000517765	processed_transcript	KNOWN	None	None	None	None	255306	281026	-1	None	None
2	None	ENSG00000271435	ENST00000605408	processed_pseudogene	KNOWN	None	None	None	None	131071507	131071984	-1	None	None
X	MIR509-2	ENSG00000212013	ENST00000390724	miRNA	KNOWN	None	33641	None	None	146340278	146340368	-1	MIRN509-2	hsa-mir-509-2
17	None	ENSG00000230197	ENST00000442355	lincRNA	KNOWN	None	None	None	None	18981088	18991191	1	None	None
17	None	ENSG00000230197	ENST00000435028	lincRNA	KNOWN	None	None	None	None	18981096	18991191	1	None	None
17	None	ENSG00000230197	ENST00000439868	lincRNA	KNOWN	None	None	None	None	18983301	18983942	1	None	None
12	None	ENSG00000255618	ENST00000545276	lincRNA	KNOWN	None	None	None	None	119210837	119212942	-1	None	None
2	None	ENSG00000224352	ENST00000449160	unprocessed_pseudogene	KNOWN	None	None	None	None	131087715	131087858	-1	None	None
10	None	ENSG00000239665	ENST00000601460	protein_coding	PUTATIVE	None	None	610	202	13652047	13697482	1	None	None
10	None	ENSG00000239665	ENST00000595538	nonsense_mediated_decay	KNOWN	None	None	104	33	13658531	13687072	1	None	None
10	None	ENSG00000239665	ENST00000596044	nonsense_mediated_decay	KNOWN	None	None	57	18	13672284	13687011	1	None	None
10	None	ENSG00000239665	ENST00000601075	processed_transcript	KNOWN	None	None	None	None	13673143	13686984	1	None	None
10	None	ENSG00000239665	ENST00000597920	retained_intron	KNOWN	None	None	None	None	13673288	13697482	1	None	None
10	None	ENSG00000239665	ENST00000440878	processed_transcript	KNOWN	None	None	None	None	13673333	13690230	1	None	None
10	None	ENSG00000239665	ENST00000601758	processed_transcript	KNOWN	None	None	None	None	13673722	13696427	1	None	None
10	None	ENSG00000239665	ENST00000599639	processed_transcript	KNOWN	None	None	None	None	13673768	13697482	1	None	None
10	None	ENSG00000239665	ENST00000596499	processed_transcript	KNOWN	None	None	None	None	13674680	13697482	1	None	None
10	None	ENSG00000239665	ENST00000599378	processed_transcript	KNOWN	None	None	None	None	13678997	13686980	1	None	None
10	None	ENSG00000239665	ENST00000437446	retained_intron	KNOWN	None	None	None	None	13680825	13687279	1	None	None
10	None	ENSG00000239665	ENST00000600249	processed_transcript	KNOWN	None	None	None	None	13685644	13695446	1	None	None
10	None	ENSG00000239665	ENST00000600501	retained_intron	KNOWN	None	None	None	None	13686576	13690773	1	None	None
10	None	ENSG00000239665	ENST00000596235	retained_intron	KNOWN	None	None	None	None	13686791	13697482	1	None	None
10	None	ENSG00000239665	ENST00000419851	retained_intron	KNOWN	None	None	None	None	13688670	13697796	1	None	None
10	None	ENSG00000239665	ENST00000594575	retained_intron	KNOWN	None	None	None	None	13688844	13697482	1	None	None
10	None	ENSG00000239665	ENST00000593351	processed_transcript	KNOWN	None	None	None	None	13690184	13710299	1	None	None
10	None	ENSG00000239665	ENST00000600511	processed_transcript	KNOWN	None	None	None	None	13691264	13697485	1	None	None
10	None	ENSG00000239665	ENST00000593358	processed_transcript	KNOWN	None	None	None	None	13691284	13697482	1	None	None
10	None	ENSG00000239665	ENST00000598625	retained_intron	KNOWN	None	None	None	None	13694052	13697476	1	None	None
10	None	ENSG00000239665	ENST00000430721	retained_intron	KNOWN	None	None	None	None	13695825	13697929	1	None	None
8	TMEM97P2	ENSG00000253866	ENST00000517841	processed_pseudogene	KNOWN	None	39641	None	None	20791946	20792348	-1	None	None
15	None	ENSG00000259710	ENST00000560892	processed_pseudogene	KNOWN	None	None	None	None	35574797	35575181	1	None	None
7	None	ENSG00000231264	ENST00000422172	processed_pseudogene	KNOWN	None	None	None	None	63398283	63398887	-1	None	None
3	C3orf62	ENSG00000188315	ENST00000479673	retained_intron	KNOWN	None	24771	None	None	49306035	49311967	-1	None	FLJ43654
3	C3orf62	ENSG00000188315	ENST00000343010	protein_coding	KNOWN	CCDS2792	24771	804	267	49306219	49315342	-1	None	FLJ43654
3	C3orf62	ENSG00000188315	ENST00000424960	nonsense_mediated_decay	KNOWN	None	24771	297	98	49308636	49314275	-1	None	FLJ43654
3	C3orf62	ENSG00000188315	ENST00000436325	protein_coding	PUTATIVE	None	24771	572	189	49308839	49314652	-1	None	FLJ43654
20	CTSZ	ENSG00000101160	ENST00000217131	protein_coding	KNOWN	CCDS13474	2547	912	303	57570240	57582302	-1	None	CTSX
20	CTSZ	ENSG00000101160	ENST00000503833	retained_intron	KNOWN	None	2547	None	None	57571642	57582285	-1	None	CTSX
20	CTSZ	ENSG00000101160	ENST00000488395	retained_intron	KNOWN	None	2547	None	None	57572447	57581481	-1	None	CTSX
20	CTSZ	ENSG00000101160	ENST00000472025	retained_intron	KNOWN	None	2547	None	None	57581097	57582160	-1	None	CTSX
12	None	ENSG00000255814	ENST00000538783	lincRNA	KNOWN	None	None	None	None	119256609	119271341	-1	None	None
X	LINC00086	ENSG00000178947	ENST00000417443	lincRNA	KNOWN	None	34499	None	None	134555868	134561999	1	NCRNA00086	MGC39606
X	TMSB10P2	ENSG00000235211	ENST00000416049	processed_pseudogene	KNOWN	None	41950	None	None	18359336	18359466	1	None	None
X	TMSB10P2	ENSG00000235211	ENST00000602489	processed_pseudogene	KNOWN	None	41950	None	None	18359336	18359466	1	None	None
X	MIR509-3	ENSG00000212014	ENST00000390725	miRNA	KNOWN	None	33675	None	None	146341170	146341244	-1	MIRN509-3	hsa-mir-509-3
14	None	ENSG00000258324	ENST00000550183	processed_pseudogene	KNOWN	None	None	None	None	20121785	20121904	-1	None	None
12	RNA5SP374	ENSG00000199809	ENST00000362939	rRNA	KNOWN	None	43274	None	None	119267486	119267610	1	RN5S374	None
1	DDAH1	ENSG00000153904	ENST00000535924	protein_coding	KNOWN	CCDS44170	2715	549	182	85784164	86043933	-1	None	DDAH
1	DDAH1	ENSG00000153904	ENST00000284031	protein_coding	KNOWN	CCDS705	2715	858	285	85784168	85930823	-1	None	DDAH
1	DDAH1	ENSG00000153904	ENST00000483110	processed_transcript	KNOWN	None	2715	None	None	85784168	86043933	-1	None	DDAH
1	DDAH1	ENSG00000153904	ENST00000488557	processed_transcript	KNOWN	None	2715	None	None	85947964	85961964	-1	None	DDAH
1	DDAH1	ENSG00000153904	ENST00000498304	processed_transcript	KNOWN	None	2715	None	None	85953982	86043933	-1	None	DDAH
1	DDAH1	ENSG00000153904	ENST00000467530	processed_transcript	KNOWN	None	2715	None	None	85960892	86043833	-1	None	DDAH
1	DDAH1	ENSG00000153904	ENST00000472448	processed_transcript	PUTATIVE	None	2715	None	None	85961114	85987493	-1	None	DDAH
1	DDAH1	ENSG00000153904	ENST00000467666	processed_transcript	KNOWN	None	2715	None	None	85961422	86042541	-1	None	DDAH
1	DDAH1	ENSG00000153904	ENST00000539042	protein_coding	KNOWN	CCDS705	2715	858	285	85784169	85930827	-1	None	DDAH
1	DDAH1	ENSG00000153904	ENST00000426972	protein_coding	KNOWN	None	2715	579	192	85786736	85930267	-1	None	DDAH
1	DDAH1	ENSG00000153904	ENST00000542148	protein_coding	KNOWN	None	2715	558	185	85786741	85870180	-1	None	DDAH
HG536_PATCH	None	ENSG00000260980	ENST00000567446	lincRNA	KNOWN	None	None	None	None	69870998	69878692	-1	None	None
HG536_PATCH	None	ENSG00000260980	ENST00000566826	lincRNA	KNOWN	None	None	None	None	69870998	69880139	-1	None	None
17	KYNUP2	ENSG00000265746	ENST00000582280	processed_pseudogene	KNOWN	None	39200	None	None	18985750	18988147	1	None	None
7	VN1R35P	ENSG00000228660	ENST00000428102	unprocessed_pseudogene	KNOWN	None	37355	None	None	63423809	63424501	-1	None	None
12	None	ENSG00000256149	ENST00000544515	lincRNA	KNOWN	None	None	None	None	119287159	119346735	-1	None	None
14	RN7SKP193	ENSG00000201358	ENST00000364488	misc_RNA	KNOWN	None	45917	None	None	50535286	50535591	1	None	None
X	None	ENSG00000207025	ENST00000384298	misc_RNA	NOVEL	None	None	None	None	18414114	18414215	-1	None	None
16	CBFA2T3	ENSG00000129993	ENST00000327483	protein_coding	KNOWN	CCDS10973	1537	1704	567	88941266	89007606	-1	None	MTGR2, ZMYND4, MTG16
16	CBFA2T3	ENSG00000129993	ENST00000268679	protein_coding	KNOWN	CCDS10972	1537	1962	653	88941266	89043612	-1	None	MTGR2, ZMYND4, MTG16
16	CBFA2T3	ENSG00000129993	ENST00000563856	retained_intron	KNOWN	None	1537	None	None	88941933	88947565	-1	None	MTGR2, ZMYND4, MTG16
16	CBFA2T3	ENSG00000129993	ENST00000563920	retained_intron	KNOWN	None	1537	None	None	88942636	88946444	-1	None	MTGR2, ZMYND4, MTG16
16	CBFA2T3	ENSG00000129993	ENST00000566868	nonsense_mediated_decay	KNOWN	None	1537	103	33	88945838	88947721	-1	None	MTGR2, ZMYND4, MTG16
16	CBFA2T3	ENSG00000129993	ENST00000569464	protein_coding	NOVEL	None	1537	1256	417	88947520	89008217	-1	None	MTGR2, ZMYND4, MTG16
16	CBFA2T3	ENSG00000129993	ENST00000569443	protein_coding	KNOWN	None	1537	363	120	88958652	89008252	-1	None	MTGR2, ZMYND4, MTG16
16	CBFA2T3	ENSG00000129993	ENST00000562719	protein_coding	NOVEL	None	1537	397	131	88958693	88968923	-1	None	MTGR2, ZMYND4, MTG16
16	CBFA2T3	ENSG00000129993	ENST00000563640	protein_coding	NOVEL	None	1537	391	129	88958807	89043488	-1	None	MTGR2, ZMYND4, MTG16
16	CBFA2T3	ENSG00000129993	ENST00000564416	protein_coding	NOVEL	None	1537	186	61	88964496	89007608	-1	None	MTGR2, ZMYND4, MTG16
16	CBFA2T3	ENSG00000129993	ENST00000570046	protein_coding	KNOWN	None	1537	67	21	88967966	89024183	-1	None	MTGR2, ZMYND4, MTG16
16	CBFA2T3	ENSG00000129993	ENST00000436887	protein_coding	KNOWN	None	1537	1848	615	88941267	89043401	-1	None	MTGR2, ZMYND4, MTG16
16	CBFA2T3	ENSG00000129993	ENST00000448839	protein_coding	KNOWN	None	1537	1734	577	88941267	89043401	-1	None	MTGR2, ZMYND4, MTG16
16	CBFA2T3	ENSG00000129993	ENST00000360302	protein_coding	KNOWN	CCDS10973	1537	1704	567	88941267	89043401	-1	None	MTGR2, ZMYND4, MTG16
14	None	ENSG00000251792	ENST00000515983	misc_RNA	NOVEL	None	None	None	None	50553700	50553801	1	None	None
X	GJA6P	ENSG00000236187	ENST00000415117	processed_pseudogene	KNOWN	None	32542	None	None	18553199	18554240	1	None	None
14	MIR4504	ENSG00000264712	ENST00000577413	miRNA	KNOWN	None	41624	None	None	50766573	50766664	-1	None	hsa-mir-4504
14	IGHVIV-44-1	ENSG00000253465	ENST00000519334	IG_V_pseudogene	KNOWN	None	5710	None	None	106945352	106945763	-1	None	IGHV(IV)-44-1
3	None	ENSG00000229964	ENST00000457815	lincRNA	KNOWN	None	None	None	None	193809350	193826963	1	None	None
2	EFR3B	ENSG00000084710	ENST00000401432	protein_coding	NOVEL	None	29155	2187	728	25264999	25370757	1	KIAA0953	FLJ37871
2	EFR3B	ENSG00000084710	ENST00000403714	protein_coding	KNOWN	CCDS46231	29155	2454	817	25264999	25378243	1	KIAA0953	FLJ37871
2	EFR3B	ENSG00000084710	ENST00000402191	protein_coding	PUTATIVE	None	29155	2349	782	25265332	25378243	1	KIAA0953	FLJ37871
2	EFR3B	ENSG00000084710	ENST00000405108	protein_coding	NOVEL	None	29155	2010	669	25338857	25377434	1	KIAA0953	FLJ37871
2	EFR3B	ENSG00000084710	ENST00000264719	protein_coding	PUTATIVE	None	29155	1959	652	25344542	25377230	1	KIAA0953	FLJ37871
2	None	ENSG00000178162	ENST00000424873	processed_transcript	KNOWN	None	None	None	None	131174328	131185559	-1	None	None
2	None	ENSG00000178162	ENST00000449066	processed_transcript	KNOWN	None	None	None	None	131174329	131182711	-1	None	None
2	None	ENSG00000178162	ENST00000430785	retained_intron	KNOWN	None	None	None	None	131175001	131184837	-1	None	None
2	None	ENSG00000178162	ENST00000423905	processed_transcript	KNOWN	None	None	None	None	131175724	131185315	-1	None	None
2	None	ENSG00000178162	ENST00000433703	processed_transcript	KNOWN	None	None	None	None	131175807	131185348	-1	None	None
2	None	ENSG00000178162	ENST00000413041	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	131176644	131188936	-1	None	None
2	None	ENSG00000178162	ENST00000438056	processed_transcript	KNOWN	None	None	None	None	131176732	131185315	-1	None	None
2	None	ENSG00000178162	ENST00000415406	processed_transcript	KNOWN	None	None	None	None	131183765	131185749	-1	None	None
16	None	ENSG00000261217	ENST00000565437	unprocessed_pseudogene	KNOWN	None	None	None	None	33790873	33794018	-1	None	None
7	VN1R36P	ENSG00000230639	ENST00000414936	unprocessed_pseudogene	KNOWN	None	37356	None	None	63426212	63426502	-1	None	None
8	None	ENSG00000254260	ENST00000523496	lincRNA	KNOWN	None	None	None	None	20798939	20807686	1	None	None
4	KIAA1109	ENSG00000138688	ENST00000264501	protein_coding	KNOWN	CCDS43267	26953	15018	5005	123073488	123283907	1	None	FLJ21404, FSA, KIAA1371, Tweek
4	KIAA1109	ENSG00000138688	ENST00000424425	protein_coding	NOVEL	None	26953	3741	1246	123107336	123161084	1	None	FLJ21404, FSA, KIAA1371, Tweek
4	KIAA1109	ENSG00000138688	ENST00000495260	processed_transcript	KNOWN	None	26953	None	None	123117904	123161084	1	None	FLJ21404, FSA, KIAA1371, Tweek
4	KIAA1109	ENSG00000138688	ENST00000482114	retained_intron	KNOWN	None	26953	None	None	123130329	123148902	1	None	FLJ21404, FSA, KIAA1371, Tweek
4	KIAA1109	ENSG00000138688	ENST00000449251	protein_coding	NOVEL	None	26953	492	163	123140624	123150350	1	None	FLJ21404, FSA, KIAA1371, Tweek
4	KIAA1109	ENSG00000138688	ENST00000446180	protein_coding	PUTATIVE	None	26953	4343	1446	123161120	123197344	1	None	FLJ21404, FSA, KIAA1371, Tweek
4	KIAA1109	ENSG00000138688	ENST00000470182	retained_intron	KNOWN	None	26953	None	None	123167375	123168843	1	None	FLJ21404, FSA, KIAA1371, Tweek
4	KIAA1109	ENSG00000138688	ENST00000419325	protein_coding	PUTATIVE	None	26953	4915	1637	123176014	123246939	1	None	FLJ21404, FSA, KIAA1371, Tweek
4	KIAA1109	ENSG00000138688	ENST00000421930	protein_coding	NOVEL	None	26953	624	207	123230421	123237949	1	None	FLJ21404, FSA, KIAA1371, Tweek
4	KIAA1109	ENSG00000138688	ENST00000438707	protein_coding	NOVEL	None	26953	5025	1674	123230520	123283905	1	None	FLJ21404, FSA, KIAA1371, Tweek
4	KIAA1109	ENSG00000138688	ENST00000306802	protein_coding	PUTATIVE	None	26953	4145	1380	123245619	123283907	1	None	FLJ21404, FSA, KIAA1371, Tweek
4	KIAA1109	ENSG00000138688	ENST00000480651	retained_intron	KNOWN	None	26953	None	None	123249027	123254964	1	None	FLJ21404, FSA, KIAA1371, Tweek
4	KIAA1109	ENSG00000138688	ENST00000483357	processed_transcript	PUTATIVE	None	26953	None	None	123257248	123258302	1	None	FLJ21404, FSA, KIAA1371, Tweek
4	KIAA1109	ENSG00000138688	ENST00000442707	protein_coding	PUTATIVE	None	26953	592	196	123260376	123265766	1	None	FLJ21404, FSA, KIAA1371, Tweek
4	KIAA1109	ENSG00000138688	ENST00000491933	retained_intron	KNOWN	None	26953	None	None	123270068	123271133	1	None	FLJ21404, FSA, KIAA1371, Tweek
4	KIAA1109	ENSG00000138688	ENST00000388738	protein_coding	KNOWN	CCDS43267	26953	15018	5005	123091758	123283913	1	None	FLJ21404, FSA, KIAA1371, Tweek
4	KIAA1109	ENSG00000138688	ENST00000455637	protein_coding	KNOWN	None	26953	11043	3680	123091758	123246887	1	None	FLJ21404, FSA, KIAA1371, Tweek
12	None	ENSG00000201042	ENST00000364172	snoRNA	NOVEL	None	None	None	None	119326239	119326369	-1	None	None
14	IGHVII-44-2	ENSG00000253895	ENST00000517728	IG_V_pseudogene	KNOWN	None	5681	None	None	106950148	106950397	-1	None	IGHV(II)-44-2
7	None	ENSG00000176232	ENST00000366505	unprocessed_pseudogene	KNOWN	None	None	None	None	63440763	63441855	-1	None	None
3	None	ENSG00000232874	ENST00000418353	antisense	KNOWN	None	None	None	None	193848405	193848990	-1	None	None
19	MIER2	ENSG00000105556	ENST00000264819	protein_coding	KNOWN	CCDS32855	29210	1638	545	305575	344793	-1	KIAA1193	None
19	MIER2	ENSG00000105556	ENST00000586994	retained_intron	KNOWN	None	29210	None	None	326652	336178	-1	KIAA1193	None
19	MIER2	ENSG00000105556	ENST00000592722	processed_transcript	KNOWN	None	29210	None	None	327864	340599	-1	KIAA1193	None
19	MIER2	ENSG00000105556	ENST00000587966	retained_intron	KNOWN	None	29210	None	None	334115	344798	-1	KIAA1193	None
X	RNA5SP515	ENSG00000201440	ENST00000364570	rRNA	KNOWN	None	43415	None	None	134562093	134562210	-1	RN5S515	None
7	None	ENSG00000241149	ENST00000330020	unprocessed_pseudogene	KNOWN	None	None	None	None	63465954	63476508	1	None	None
1	TUBB8P11	ENSG00000234711	ENST00000415481	unprocessed_pseudogene	KNOWN	None	32337	None	None	808672	809729	1	None	None
12	RN7SL508P	ENSG00000244112	ENST00000464472	misc_RNA	KNOWN	None	46524	None	None	119431662	119431956	1	None	None
14	None	ENSG00000259071	ENST00000555403	lincRNA	KNOWN	None	None	None	None	50793244	50794627	-1	None	None
17	None	ENSG00000263394	ENST00000583141	lincRNA	KNOWN	None	None	None	None	18994382	18995138	-1	None	None
8	None	ENSG00000254182	ENST00000520706	processed_pseudogene	KNOWN	None	None	None	None	91713310	91714104	1	None	None
12	None	ENSG00000256031	ENST00000534886	sense_intronic	KNOWN	None	None	None	None	119438581	119439647	1	None	None
16	None	ENSG00000259990	ENST00000568778	unprocessed_pseudogene	KNOWN	None	None	None	None	33815861	33816297	-1	None	None
7	None	ENSG00000228564	ENST00000441691	antisense	KNOWN	None	None	None	None	63488230	63489152	-1	None	None
7	None	ENSG00000228564	ENST00000451440	antisense	KNOWN	None	None	None	None	63488443	63490483	-1	None	None
X	CROCCP1	ENSG00000225769	ENST00000426910	processed_pseudogene	KNOWN	None	33602	None	None	134566885	134572559	1	CROCCP	None
HSCHR16_2_CTG3_1	SNTB2	ENSG00000260873	ENST00000562438	protein_coding	KNOWN	None	11169	1623	540	69221025	69348087	1	SNT2B2, SNTL, D16S2531E	EST25263, SNT3
HSCHR16_2_CTG3_1	SNTB2	ENSG00000260873	ENST00000571655	protein_coding	PUTATIVE	None	11169	576	191	69221043	69340016	1	SNT2B2, SNTL, D16S2531E	EST25263, SNT3
HSCHR16_2_CTG3_1	SNTB2	ENSG00000260873	ENST00000572013	processed_transcript	KNOWN	None	11169	None	None	69221457	69299135	1	SNT2B2, SNTL, D16S2531E	EST25263, SNT3
HSCHR16_2_CTG3_1	SNTB2	ENSG00000260873	ENST00000574270	protein_coding	PUTATIVE	None	11169	488	161	69221457	69309235	1	SNT2B2, SNTL, D16S2531E	EST25263, SNT3
HSCHR16_2_CTG3_1	SNTB2	ENSG00000260873	ENST00000577080	protein_coding	PUTATIVE	None	11169	415	137	69221481	69299136	1	SNT2B2, SNTL, D16S2531E	EST25263, SNT3
HSCHR16_2_CTG3_1	SNTB2	ENSG00000260873	ENST00000571496	protein_coding	PUTATIVE	None	11169	383	126	69221538	69309216	1	SNT2B2, SNTL, D16S2531E	EST25263, SNT3
HSCHR16_2_CTG3_1	SNTB2	ENSG00000260873	ENST00000576115	protein_coding	PUTATIVE	None	11169	263	86	69274780	69284810	1	SNT2B2, SNTL, D16S2531E	EST25263, SNT3
17	SNORD3D	ENSG00000262202	ENST00000573866	lincRNA	KNOWN	None	33192	None	None	19015313	19015949	-1	None	U3-4
17	SNORD3D	ENSG00000262202	ENST00000362793	snoRNA	KNOWN	None	33192	None	None	19015734	19015949	-1	None	U3-4
3	GBE1	ENSG00000114480	ENST00000429644	protein_coding	KNOWN	CCDS54612	4180	2109	702	81538850	81811312	-1	None	None
3	GBE1	ENSG00000114480	ENST00000489715	protein_coding	NOVEL	None	4180	1986	661	81539084	81792780	-1	None	None
3	GBE1	ENSG00000114480	ENST00000484687	retained_intron	KNOWN	None	4180	None	None	81583818	81627094	-1	None	None
3	GBE1	ENSG00000114480	ENST00000498468	retained_intron	KNOWN	None	4180	None	None	81691722	81699029	-1	None	None
3	GBE1	ENSG00000114480	ENST00000486920	retained_intron	KNOWN	None	4180	None	None	81698118	81699497	-1	None	None
3	GBE1	ENSG00000114480	ENST00000477426	processed_transcript	KNOWN	None	4180	None	None	81703730	81720133	-1	None	None
3	RN7SL215P	ENSG00000242201	ENST00000487718	misc_RNA	KNOWN	None	46231	None	None	193863463	193863756	1	None	None
2	SLC30A6	ENSG00000152683	ENST00000440718	protein_coding	NOVEL	None	19305	536	177	32390933	32422853	1	None	FLJ31101, ZNT6
2	SLC30A6	ENSG00000152683	ENST00000379343	protein_coding	NOVEL	CCDS54341	19305	1506	501	32390933	32446593	1	None	FLJ31101, ZNT6
2	SLC30A6	ENSG00000152683	ENST00000454324	nonsense_mediated_decay	KNOWN	None	19305	180	59	32390933	32446735	1	None	FLJ31101, ZNT6
2	SLC30A6	ENSG00000152683	ENST00000449777	nonsense_mediated_decay	KNOWN	None	19305	96	31	32390933	32446809	1	None	FLJ31101, ZNT6
2	SLC30A6	ENSG00000152683	ENST00000282587	protein_coding	KNOWN	CCDS1780	19305	1386	461	32390933	32449448	1	None	FLJ31101, ZNT6
2	SLC30A6	ENSG00000152683	ENST00000406369	protein_coding	PUTATIVE	None	19305	1164	387	32390938	32449168	1	None	FLJ31101, ZNT6
2	SLC30A6	ENSG00000152683	ENST00000457724	nonsense_mediated_decay	KNOWN	None	19305	369	122	32390951	32418020	1	None	FLJ31101, ZNT6
2	SLC30A6	ENSG00000152683	ENST00000435660	protein_coding	KNOWN	CCDS54342	19305	1317	438	32390933	32446809	1	None	FLJ31101, ZNT6
2	SLC30A6	ENSG00000152683	ENST00000538303	protein_coding	KNOWN	CCDS54343	19305	1299	432	32390933	32446216	1	None	FLJ31101, ZNT6
2	SLC30A6	ENSG00000152683	ENST00000357055	protein_coding	KNOWN	None	19305	795	264	32390933	32446735	1	None	FLJ31101, ZNT6
9	NXNL2	ENSG00000130045	ENST00000487646	processed_transcript	KNOWN	None	30482	None	None	91150020	91159895	1	C9orf121	None
9	NXNL2	ENSG00000130045	ENST00000375855	protein_coding	KNOWN	CCDS6679	30482	408	135	91150020	91190704	1	C9orf121	None
9	NXNL2	ENSG00000130045	ENST00000478686	processed_transcript	KNOWN	None	30482	None	None	91150101	91199189	1	C9orf121	None
9	NXNL2	ENSG00000130045	ENST00000375854	protein_coding	KNOWN	CCDS55325	30482	471	156	91150016	91159462	1	C9orf121	None
6	None	ENSG00000261353	ENST00000567732	lincRNA	KNOWN	None	None	None	None	26527291	26527632	1	None	None
3	None	ENSG00000225742	ENST00000415869	lincRNA	KNOWN	None	None	None	None	193920805	193967942	-1	None	None
3	None	ENSG00000225742	ENST00000432908	lincRNA	KNOWN	None	None	None	None	193921269	193924096	-1	None	None
7	None	ENSG00000214652	ENST00000445978	processed_transcript	KNOWN	None	None	None	None	63505821	63537792	1	None	None
7	None	ENSG00000214652	ENST00000456806	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	63529272	63539697	1	None	None
8	None	ENSG00000254092	ENST00000518967	lincRNA	KNOWN	None	None	None	None	20810156	20831388	-1	None	None
19	IGFL1	ENSG00000188293	ENST00000437936	protein_coding	KNOWN	CCDS46123	24093	333	110	46733009	46734500	1	None	UNQ644
1	UFC1	ENSG00000143222	ENST00000467540	processed_transcript	KNOWN	None	26941	None	None	161122566	161127989	1	None	HSPC155
1	UFC1	ENSG00000143222	ENST00000368003	protein_coding	KNOWN	CCDS1220	26941	504	167	161123542	161128646	1	None	HSPC155
1	UFC1	ENSG00000143222	ENST00000483191	processed_transcript	KNOWN	None	26941	None	None	161123774	161128472	1	None	HSPC155
1	UFC1	ENSG00000143222	ENST00000482672	processed_transcript	KNOWN	None	26941	None	None	161123775	161127145	1	None	HSPC155
1	UFC1	ENSG00000143222	ENST00000473766	processed_transcript	KNOWN	None	26941	None	None	161123784	161128035	1	None	HSPC155
1	UFC1	ENSG00000143222	ENST00000463735	processed_transcript	KNOWN	None	26941	None	None	161123847	161127250	1	None	HSPC155
6	None	ENSG00000271071	ENST00000602994	processed_pseudogene	KNOWN	None	None	None	None	26612131	26613337	-1	None	None
17	None	ENSG00000262319	ENST00000573168	antisense	KNOWN	None	None	None	None	19044330	19047002	-1	None	None
14	None	ENSG00000258857	ENST00000556713	lincRNA	KNOWN	None	None	None	None	50863731	50865063	1	None	None
X	BRS3	ENSG00000102239	ENST00000370648	protein_coding	KNOWN	CCDS14656	1113	1200	399	135570046	135575939	1	None	None
6	VN1R14P	ENSG00000218346	ENST00000406914	unprocessed_pseudogene	KNOWN	None	18721	None	None	26630782	26632007	-1	None	bA457M11.4, hs6M1-5p, VNR6I5P
7	None	ENSG00000244117	ENST00000430271	processed_transcript	PUTATIVE	None	None	None	None	63539167	63545179	1	None	None
1	None	ENSG00000272438	ENST00000607769	lincRNA	KNOWN	None	None	None	None	840214	851356	1	None	None
12	None	ENSG00000257095	ENST00000537730	antisense	KNOWN	None	None	None	None	119468844	119554766	-1	None	None
8	None	ENSG00000253147	ENST00000523852	lincRNA	KNOWN	None	None	None	None	20810638	20820406	1	None	None
8	None	ENSG00000253147	ENST00000523035	lincRNA	KNOWN	None	None	None	None	20811153	20826415	1	None	None
17	None	ENSG00000266664	ENST00000584365	sense_intronic	KNOWN	None	None	None	None	19053592	19054599	1	None	None
20	CTNNBL1	ENSG00000132792	ENST00000361383	protein_coding	PUTATIVE	CCDS13298	15879	1692	563	36322408	36500531	1	C20orf33	FLJ21108, P14L, P14, NAP, NYD-SP19
20	CTNNBL1	ENSG00000132792	ENST00000447935	protein_coding	KNOWN	None	15879	499	165	36322434	36393614	1	C20orf33	FLJ21108, P14L, P14, NAP, NYD-SP19
20	CTNNBL1	ENSG00000132792	ENST00000373473	protein_coding	PUTATIVE	None	15879	1131	376	36373047	36500531	1	C20orf33	FLJ21108, P14L, P14, NAP, NYD-SP19
20	CTNNBL1	ENSG00000132792	ENST00000473857	processed_transcript	KNOWN	None	15879	None	None	36378253	36500531	1	C20orf33	FLJ21108, P14L, P14, NAP, NYD-SP19
20	CTNNBL1	ENSG00000132792	ENST00000373469	protein_coding	PUTATIVE	None	15879	936	311	36405675	36500531	1	C20orf33	FLJ21108, P14L, P14, NAP, NYD-SP19
20	CTNNBL1	ENSG00000132792	ENST00000472237	processed_transcript	PUTATIVE	None	15879	None	None	36470656	36500531	1	C20orf33	FLJ21108, P14L, P14, NAP, NYD-SP19
20	CTNNBL1	ENSG00000132792	ENST00000481674	processed_transcript	KNOWN	None	15879	None	None	36476260	36500531	1	C20orf33	FLJ21108, P14L, P14, NAP, NYD-SP19
20	CTNNBL1	ENSG00000132792	ENST00000405275	protein_coding	KNOWN	None	15879	1611	536	36322464	36500519	1	C20orf33	FLJ21108, P14L, P14, NAP, NYD-SP19
6	None	ENSG00000233631	ENST00000456172	3prime_overlapping_ncrna	KNOWN	None	None	None	None	26634611	26637008	-1	None	None
6	None	ENSG00000233631	ENST00000607204	3prime_overlapping_ncrna	KNOWN	None	None	None	None	26634744	26635861	-1	None	None
15	ADAMTS17	ENSG00000140470	ENST00000268070	protein_coding	KNOWN	CCDS10383	17109	3288	1095	100511794	100882210	-1	None	FLJ32769, FLJ16363
15	ADAMTS17	ENSG00000140470	ENST00000557896	retained_intron	KNOWN	None	17109	None	None	100513161	100516484	-1	None	FLJ32769, FLJ16363
15	ADAMTS17	ENSG00000140470	ENST00000568565	protein_coding	PUTATIVE	None	17109	643	213	100591773	100649312	-1	None	FLJ32769, FLJ16363
15	ADAMTS17	ENSG00000140470	ENST00000378898	retained_intron	KNOWN	None	17109	None	None	100603819	100879334	-1	None	FLJ32769, FLJ16363
15	ADAMTS17	ENSG00000140470	ENST00000559976	processed_transcript	KNOWN	None	17109	None	None	100708593	100801710	-1	None	FLJ32769, FLJ16363
15	ADAMTS17	ENSG00000140470	ENST00000560486	processed_transcript	KNOWN	None	17109	None	None	100797069	100802592	-1	None	FLJ32769, FLJ16363
15	ADAMTS17	ENSG00000140470	ENST00000558960	nonsense_mediated_decay	KNOWN	None	17109	207	68	100802594	100882210	-1	None	FLJ32769, FLJ16363
15	ADAMTS17	ENSG00000140470	ENST00000561355	protein_coding	PUTATIVE	None	17109	362	119	100846093	100881341	-1	None	FLJ32769, FLJ16363
15	ADAMTS17	ENSG00000140470	ENST00000558930	processed_transcript	PUTATIVE	None	17109	None	None	100871219	100881387	-1	None	FLJ32769, FLJ16363
13	None	ENSG00000263907	ENST00000584422	miRNA	NOVEL	None	None	None	None	42019427	42019503	1	None	None
17	None	ENSG00000262292	ENST00000572818	lincRNA	KNOWN	None	None	None	None	19064102	19065587	1	None	None
10	None	ENSG00000228092	ENST00000426313	processed_pseudogene	KNOWN	None	None	None	None	79193330	79193540	-1	None	None
7	TRIM60P17	ENSG00000223558	ENST00000415181	processed_pseudogene	KNOWN	None	38489	None	None	63545938	63546954	1	None	None
13	None	ENSG00000263928	ENST00000582215	miRNA	NOVEL	None	None	None	None	42020193	42020261	-1	None	None
HSCHR4_1_CTG12	CTSO	ENSG00000263238	ENST00000573499	protein_coding	KNOWN	None	2542	966	321	156845270	156875063	-1	CTSO1	None
3	None	ENSG00000238097	ENST00000455821	lincRNA	KNOWN	None	None	None	None	193965437	193975561	1	None	None
13	None	ENSG00000264042	ENST00000582164	miRNA	NOVEL	None	None	None	None	42024148	42024235	1	None	None
22	SGSM1	ENSG00000167037	ENST00000400358	protein_coding	KNOWN	CCDS46675	29410	3282	1093	25202236	25323545	1	RUTBC2	KIAA1941
22	SGSM1	ENSG00000167037	ENST00000470591	processed_transcript	KNOWN	None	29410	None	None	25202274	25210159	1	RUTBC2	KIAA1941
22	SGSM1	ENSG00000167037	ENST00000400359	protein_coding	KNOWN	CCDS46674	29410	3447	1148	25202286	25321104	1	RUTBC2	KIAA1941
22	SGSM1	ENSG00000167037	ENST00000473458	retained_intron	KNOWN	None	29410	None	None	25239427	25321104	1	RUTBC2	KIAA1941
22	SGSM1	ENSG00000167037	ENST00000480523	retained_intron	KNOWN	None	29410	None	None	25240708	25320560	1	RUTBC2	KIAA1941
X	POU3F4	ENSG00000196767	ENST00000373200	protein_coding	KNOWN	CCDS14450	9217	1086	361	82763269	82764775	1	DFN3	BRN4, OTF9, DFNX2
16	ZNF174	ENSG00000103343	ENST00000575752	protein_coding	KNOWN	CCDS32380	12963	705	234	3451235	3455043	1	None	ZSCAN8
16	ZNF174	ENSG00000103343	ENST00000571936	protein_coding	KNOWN	CCDS10504	12963	1224	407	3451235	3458973	1	None	ZSCAN8
16	ZNF174	ENSG00000103343	ENST00000344823	protein_coding	KNOWN	CCDS32380	12963	705	234	3451244	3455079	1	None	ZSCAN8
16	ZNF174	ENSG00000103343	ENST00000268655	protein_coding	KNOWN	CCDS10504	12963	1224	407	3451420	3459370	1	None	ZSCAN8
16	ZNF174	ENSG00000103343	ENST00000572544	protein_coding	PUTATIVE	None	12963	750	249	3451974	3454994	1	None	ZSCAN8
22	MCM5	ENSG00000100297	ENST00000216122	protein_coding	KNOWN	CCDS13915	6948	2205	734	35796056	35821423	1	CDC46	None
22	MCM5	ENSG00000100297	ENST00000451351	nonsense_mediated_decay	KNOWN	None	6948	174	57	35796127	35799250	1	CDC46	None
22	MCM5	ENSG00000100297	ENST00000382011	protein_coding	NOVEL	None	6948	2076	691	35796130	35820494	1	CDC46	None
22	MCM5	ENSG00000100297	ENST00000416905	protein_coding	PUTATIVE	None	6948	692	229	35796163	35802718	1	CDC46	None
22	MCM5	ENSG00000100297	ENST00000444778	protein_coding	PUTATIVE	None	6948	452	149	35796424	35806865	1	CDC46	None
22	MCM5	ENSG00000100297	ENST00000464908	processed_transcript	KNOWN	None	6948	None	None	35806352	35811901	1	CDC46	None
22	MCM5	ENSG00000100297	ENST00000493076	retained_intron	KNOWN	None	6948	None	None	35806402	35820494	1	CDC46	None
22	MCM5	ENSG00000100297	ENST00000493569	processed_transcript	KNOWN	None	6948	None	None	35807237	35811958	1	CDC46	None
22	MCM5	ENSG00000100297	ENST00000465557	processed_transcript	KNOWN	None	6948	None	None	35807432	35812665	1	CDC46	None
13	MIR5006	ENSG00000264190	ENST00000583027	miRNA	KNOWN	None	43495	None	None	42142422	42142531	-1	None	hsa-mir-5006
16	None	ENSG00000261197	ENST00000566112	unprocessed_pseudogene	KNOWN	None	None	None	None	33817729	33853828	1	None	None
4	HSPD1P5	ENSG00000249193	ENST00000511127	processed_pseudogene	KNOWN	None	5266	None	None	145766777	145768496	1	HSPDP5	HSPD1-8P
15	None	ENSG00000207432	ENST00000384701	snoRNA	NOVEL	None	None	None	None	30404401	30404533	1	None	None
7	GUSBP6	ENSG00000224458	ENST00000438529	unprocessed_pseudogene	KNOWN	None	42320	None	None	63560683	63580922	1	None	None
3	PSMD6-AS2	ENSG00000239653	ENST00000472046	antisense	KNOWN	None	44125	None	None	63989698	63997824	1	None	None
2	SH3BP4	ENSG00000130147	ENST00000392011	protein_coding	KNOWN	CCDS2513	10826	2892	963	235860617	235964358	1	None	None
2	SH3BP4	ENSG00000130147	ENST00000484097	processed_transcript	PUTATIVE	None	10826	None	None	235860679	235861834	1	None	None
2	SH3BP4	ENSG00000130147	ENST00000416021	protein_coding	KNOWN	None	10826	366	121	235860720	235949779	1	None	None
2	SH3BP4	ENSG00000130147	ENST00000409212	protein_coding	KNOWN	CCDS2513	10826	2892	963	235887329	235964292	1	None	None
2	SH3BP4	ENSG00000130147	ENST00000489601	processed_transcript	PUTATIVE	None	10826	None	None	235887344	235888542	1	None	None
2	SH3BP4	ENSG00000130147	ENST00000344528	protein_coding	KNOWN	CCDS2513	10826	2892	963	235887347	235964292	1	None	None
2	SH3BP4	ENSG00000130147	ENST00000444916	protein_coding	KNOWN	None	10826	168	55	235887349	235949581	1	None	None
2	SH3BP4	ENSG00000130147	ENST00000446904	protein_coding	KNOWN	None	10826	519	172	235890268	235949932	1	None	None
2	SH3BP4	ENSG00000130147	ENST00000462602	processed_transcript	PUTATIVE	None	10826	None	None	235890278	235917238	1	None	None
2	SH3BP4	ENSG00000130147	ENST00000493436	processed_transcript	PUTATIVE	None	10826	None	None	235903168	235904637	1	None	None
2	SH3BP4	ENSG00000130147	ENST00000454947	protein_coding	KNOWN	None	10826	173	56	235903484	235949586	1	None	None
17	None	ENSG00000266311	ENST00000460772	lincRNA	KNOWN	None	None	None	None	19067522	19077741	-1	None	None
17	None	ENSG00000266311	ENST00000495691	lincRNA	KNOWN	None	None	None	None	19067522	19077749	-1	None	None
13	RN7SL515P	ENSG00000241406	ENST00000463999	misc_RNA	KNOWN	None	46531	None	None	42381813	42382108	1	None	None
12	HEBP1	ENSG00000013583	ENST00000014930	protein_coding	KNOWN	CCDS31749	17176	570	189	13127798	13153207	-1	None	HEBP, HBP
12	HEBP1	ENSG00000013583	ENST00000540916	processed_transcript	KNOWN	None	17176	None	None	13128249	13132729	-1	None	HEBP, HBP
12	HEBP1	ENSG00000013583	ENST00000535636	protein_coding	PUTATIVE	None	17176	189	62	13136395	13142214	-1	None	HEBP, HBP
12	HEBP1	ENSG00000013583	ENST00000536942	protein_coding	PUTATIVE	None	17176	402	133	13138579	13153199	-1	None	HEBP, HBP
14	None	ENSG00000259113	ENST00000555257	lincRNA	KNOWN	None	None	None	None	50915525	50923460	1	None	None
13	RNU6-74P	ENSG00000206962	ENST00000384235	snRNA	KNOWN	None	42564	None	None	42479254	42479360	1	RNU6-74	None
12	None	ENSG00000256884	ENST00000538405	antisense	KNOWN	None	None	None	None	119611870	119614289	-1	None	None
3	None	ENSG00000271843	ENST00000607115	lincRNA	KNOWN	None	None	None	None	63993758	63994368	-1	None	None
17	PFN1	ENSG00000108518	ENST00000225655	protein_coding	KNOWN	CCDS11061	8881	423	140	4848947	4852309	-1	None	None
17	PFN1	ENSG00000108518	ENST00000574872	protein_coding	PUTATIVE	None	8881	315	104	4848962	4850764	-1	None	None
17	PFN1	ENSG00000108518	ENST00000572383	protein_coding	PUTATIVE	None	8881	497	164	4849988	4852356	-1	None	None
15	RN7SL469P	ENSG00000241167	ENST00000491512	misc_RNA	KNOWN	None	46485	None	None	30435925	30436203	1	None	None
6	None	ENSG00000261584	ENST00000562904	lincRNA	KNOWN	None	None	None	None	26686469	26688192	1	None	None
11	OVCH2	ENSG00000183378	ENST00000533663	processed_transcript	KNOWN	None	29970	None	None	7710669	7716420	-1	None	OVTN
11	OVCH2	ENSG00000183378	ENST00000534193	polymorphic_pseudogene	KNOWN	None	29970	1749	582	7710895	7727968	-1	None	OVTN
11	OVCH2	ENSG00000183378	ENST00000534817	processed_transcript	KNOWN	None	29970	None	None	7718052	7718512	-1	None	OVTN
11	OVCH2	ENSG00000183378	ENST00000454689	protein_coding	KNOWN	None	29970	1695	564	7712444	7727941	-1	None	OVTN
13	KARSP1	ENSG00000229696	ENST00000451871	processed_pseudogene	KNOWN	None	39207	None	None	42499734	42501485	1	None	None
X	None	ENSG00000271158	ENST00000603663	processed_pseudogene	KNOWN	None	None	None	None	134598254	134599409	-1	None	None
3	None	ENSG00000243410	ENST00000462717	antisense	KNOWN	None	None	None	None	63997640	64001922	1	None	None
4	None	ENSG00000250406	ENST00000512833	lincRNA	KNOWN	None	None	None	None	145772724	145795939	1	None	None
22	GGTLC3	ENSG00000183038	ENST00000404912	protein_coding	KNOWN	None	33426	678	225	20366211	20368028	-1	None	None
22	GGTLC3	ENSG00000183038	ENST00000424787	protein_coding	KNOWN	None	33426	711	236	20366206	20367797	-1	None	None
1	None	ENSG00000230699	ENST00000448179	lincRNA	KNOWN	None	None	None	None	846815	850328	1	None	None
15	None	ENSG00000221785	ENST00000408858	miRNA	NOVEL	None	None	None	None	30437080	30437162	1	None	None
17	KYNUP1	ENSG00000261987	ENST00000466683	unprocessed_pseudogene	KNOWN	None	39199	None	None	19070209	19072981	-1	None	None
3	None	ENSG00000228271	ENST00000440556	lincRNA	KNOWN	None	None	None	None	193994471	194005157	1	None	None
12	RPS27P22	ENSG00000241451	ENST00000478056	processed_pseudogene	KNOWN	None	36090	None	None	22875163	22875403	1	None	None
14	None	ENSG00000201573	ENST00000364703	misc_RNA	NOVEL	None	None	None	None	50935115	50935216	-1	None	None
3	TIMMDC1	ENSG00000113845	ENST00000494664	protein_coding	KNOWN	CCDS33831	1321	858	285	119217379	119243937	1	C3orf1	FLJ22597
3	TIMMDC1	ENSG00000113845	ENST00000493694	protein_coding	PUTATIVE	None	1321	456	151	119217394	119242670	1	C3orf1	FLJ22597
3	TIMMDC1	ENSG00000113845	ENST00000264244	nonsense_mediated_decay	KNOWN	None	1321	528	175	119217399	119242913	1	C3orf1	FLJ22597
3	TIMMDC1	ENSG00000113845	ENST00000486418	nonsense_mediated_decay	KNOWN	None	1321	216	71	119217414	119236162	1	C3orf1	FLJ22597
3	TIMMDC1	ENSG00000113845	ENST00000492164	nonsense_mediated_decay	KNOWN	None	1321	273	90	119217422	119242477	1	C3orf1	FLJ22597
3	TIMMDC1	ENSG00000113845	ENST00000466984	protein_coding	PUTATIVE	None	1321	452	149	119217428	119236162	1	C3orf1	FLJ22597
3	TIMMDC1	ENSG00000113845	ENST00000463927	nonsense_mediated_decay	KNOWN	None	1321	198	65	119217430	119242485	1	C3orf1	FLJ22597
3	TIMMDC1	ENSG00000113845	ENST00000498399	nonsense_mediated_decay	KNOWN	None	1321	115	37	119217664	119242908	1	C3orf1	FLJ22597
3	TIMMDC1	ENSG00000113845	ENST00000469324	retained_intron	KNOWN	None	1321	None	None	119219221	119232566	1	C3orf1	FLJ22597
15	DNM1P30	ENSG00000260897	ENST00000563586	unprocessed_pseudogene	KNOWN	None	35177	None	None	30443075	30445612	-1	DNM1DN3@, DNM1DN4@	DNM1DN3-4, DNM1DN4-3
3	None	ENSG00000272181	ENST00000605919	antisense	KNOWN	None	None	None	None	64005184	64005601	1	None	None
17	None	ENSG00000266497	ENST00000582765	unprocessed_pseudogene	KNOWN	None	None	None	None	44581312	44586705	1	None	None
6	GUSBP2	ENSG00000241549	ENST00000479900	processed_transcript	KNOWN	None	18792	None	None	26839263	26924333	-1	SMAC3L2, GUSBL1	bA239L20.5, bA239L20.1, SMA3-L, bGLU-Lp, SMAC3L
6	GUSBP2	ENSG00000241549	ENST00000463434	processed_transcript	KNOWN	None	18792	None	None	26845700	26892992	-1	SMAC3L2, GUSBL1	bA239L20.5, bA239L20.1, SMA3-L, bGLU-Lp, SMAC3L
6	GUSBP2	ENSG00000241549	ENST00000492832	transcribed_unprocessed_pseudogene	KNOWN	None	18792	None	None	26846351	26856977	-1	SMAC3L2, GUSBL1	bA239L20.5, bA239L20.1, SMA3-L, bGLU-Lp, SMAC3L
6	GUSBP2	ENSG00000241549	ENST00000455720	unprocessed_pseudogene	KNOWN	None	18792	None	None	26846480	26846617	-1	SMAC3L2, GUSBL1	bA239L20.5, bA239L20.1, SMA3-L, bGLU-Lp, SMAC3L
6	GUSBP2	ENSG00000241549	ENST00000383335	unprocessed_pseudogene	KNOWN	None	18792	None	None	26851121	26918927	-1	SMAC3L2, GUSBL1	bA239L20.5, bA239L20.1, SMA3-L, bGLU-Lp, SMAC3L
12	None	ENSG00000256609	ENST00000535921	antisense	KNOWN	None	None	None	None	119619853	119621064	-1	None	None
4	None	ENSG00000251452	ENST00000509609	processed_pseudogene	KNOWN	None	None	None	None	145841865	145842316	-1	None	None
2	ZC3H6	ENSG00000188177	ENST00000409871	protein_coding	KNOWN	CCDS46393	24762	3570	1189	113033171	113097634	1	ZC3HDC6	FLJ41410, FLJ45877, KIAA2035
2	ZC3H6	ENSG00000188177	ENST00000476511	retained_intron	KNOWN	None	24762	None	None	113057433	113069769	1	ZC3HDC6	FLJ41410, FLJ45877, KIAA2035
2	ZC3H6	ENSG00000188177	ENST00000343936	protein_coding	KNOWN	None	24762	3570	1189	113033178	113097640	1	ZC3HDC6	FLJ41410, FLJ45877, KIAA2035
7	MTND4P2	ENSG00000248704	ENST00000507767	unprocessed_pseudogene	KNOWN	None	42189	None	None	63564471	63565673	-1	None	None
12	None	ENSG00000256923	ENST00000537293	lincRNA	KNOWN	None	None	None	None	22895516	22896025	1	None	None
X	DDX26B-AS1	ENSG00000225235	ENST00000430820	antisense	KNOWN	None	41180	None	None	134654008	134654599	-1	None	None
17	RN7SL199P	ENSG00000265315	ENST00000578752	misc_RNA	KNOWN	None	46215	None	None	44614900	44615180	1	None	None
4	RN7SKP235	ENSG00000222594	ENST00000410662	misc_RNA	KNOWN	None	45959	None	None	145956284	145956588	1	None	None
14	SNRPGP1	ENSG00000258577	ENST00000553864	processed_pseudogene	KNOWN	None	20033	None	None	51038637	51038858	-1	SNRPGP	None
3	None	ENSG00000241111	ENST00000482609	antisense	KNOWN	None	None	None	None	64053640	64088807	1	None	None
17	FAM215B	ENSG00000232300	ENST00000458392	sense_intronic	KNOWN	None	43639	None	None	44636196	44640161	-1	None	ARL17A-IT1
9	None	ENSG00000237191	ENST00000422499	processed_pseudogene	KNOWN	None	None	None	None	65978720	65979683	-1	None	None
13	RPS28P8	ENSG00000226093	ENST00000435020	processed_pseudogene	KNOWN	None	36938	None	None	42577566	42577773	1	None	None
17	SNORD3A	ENSG00000263934	ENST00000584923	lincRNA	KNOWN	None	33189	None	None	19091329	19092027	1	None	U3
17	SNORD3A	ENSG00000263934	ENST00000365494	snoRNA	KNOWN	None	33189	None	None	19091329	19091544	1	None	U3
4	None	ENSG00000238713	ENST00000459374	misc_RNA	NOVEL	None	None	None	None	146070689	146070801	-1	None	None
3	LINC00887	ENSG00000214145	ENST00000456816	lincRNA	KNOWN	None	48574	None	None	194014254	194030493	-1	None	None
3	LINC00887	ENSG00000214145	ENST00000429578	lincRNA	KNOWN	None	48574	None	None	194017424	194030592	-1	None	None
3	LINC00887	ENSG00000214145	ENST00000414120	lincRNA	KNOWN	None	48574	None	None	194018988	194030589	-1	None	None
3	LINC00887	ENSG00000214145	ENST00000397644	lincRNA	KNOWN	None	48574	None	None	194019235	194023820	-1	None	None
1	None	ENSG00000241180	ENST00000398216	lincRNA	KNOWN	None	None	None	None	849551	850351	1	None	None
7	POU6F2	ENSG00000106536	ENST00000403058	protein_coding	KNOWN	CCDS34620	21694	2076	691	39017598	39504390	1	None	RPF-1
7	POU6F2	ENSG00000106536	ENST00000518318	protein_coding	KNOWN	CCDS55103	21694	1968	655	39046408	39508200	1	None	RPF-1
7	POU6F2	ENSG00000106536	ENST00000517348	processed_transcript	KNOWN	None	21694	None	None	39052681	39413307	1	None	RPF-1
7	POU6F2	ENSG00000106536	ENST00000451021	protein_coding	PUTATIVE	None	21694	434	143	39073935	39247139	1	None	RPF-1
7	POU6F2	ENSG00000106536	ENST00000524147	protein_coding	PUTATIVE	None	21694	1237	411	39123161	39491300	1	None	RPF-1
7	POU6F2	ENSG00000106536	ENST00000520104	protein_coding	PUTATIVE	None	21694	1209	402	39124655	39472882	1	None	RPF-1
7	POU6F2	ENSG00000106536	ENST00000559001	protein_coding	PUTATIVE	None	21694	1911	636	39125365	39504680	1	None	RPF-1
7	POU6F2	ENSG00000106536	ENST00000464276	protein_coding	PUTATIVE	None	21694	189	62	39125461	39172266	1	None	RPF-1
7	POU6F2	ENSG00000106536	ENST00000416452	nonsense_mediated_decay	KNOWN	None	21694	429	142	39446217	39504309	1	None	RPF-1
7	POU6F2	ENSG00000106536	ENST00000426456	processed_transcript	KNOWN	None	21694	None	None	39504691	39532694	1	None	RPF-1
7	None	ENSG00000248315	ENST00000502312	unprocessed_pseudogene	KNOWN	None	None	None	None	63565670	63565954	-1	None	None
8	None	ENSG00000254026	ENST00000519605	lincRNA	KNOWN	None	None	None	None	20811523	20826415	1	None	None
17	RPS7P11	ENSG00000213326	ENST00000484240	processed_pseudogene	KNOWN	None	35841	None	None	44798948	44799533	-1	None	None
12	None	ENSG00000256321	ENST00000541288	lincRNA	KNOWN	None	None	None	None	23252302	23341472	1	None	None
12	None	ENSG00000256321	ENST00000534841	lincRNA	KNOWN	None	None	None	None	23328576	23341453	1	None	None
12	None	ENSG00000256321	ENST00000545400	lincRNA	KNOWN	None	None	None	None	23328582	23344521	1	None	None
13	None	ENSG00000231530	ENST00000413246	antisense	KNOWN	None	None	None	None	42617863	42618383	-1	None	None
15	None	ENSG00000261747	ENST00000567334	unprocessed_pseudogene	KNOWN	None	None	None	None	30446136	30446313	-1	None	None
15	None	ENSG00000261747	ENST00000601278	unprocessed_pseudogene	KNOWN	None	None	None	None	30446113	30446313	-1	None	None
4	STATH	ENSG00000126549	ENST00000246895	protein_coding	KNOWN	CCDS3533	11369	189	62	70861647	70868170	1	None	STR
4	STATH	ENSG00000126549	ENST00000507962	retained_intron	KNOWN	None	11369	None	None	70861683	70864861	1	None	STR
4	STATH	ENSG00000126549	ENST00000510010	retained_intron	KNOWN	None	11369	None	None	70861683	70866084	1	None	STR
4	STATH	ENSG00000126549	ENST00000381060	protein_coding	KNOWN	CCDS33998	11369	159	52	70861683	70868172	1	None	STR
4	STATH	ENSG00000126549	ENST00000507211	retained_intron	KNOWN	None	11369	None	None	70861686	70866068	1	None	STR
4	STATH	ENSG00000126549	ENST00000511658	retained_intron	KNOWN	None	11369	None	None	70864067	70865889	1	None	STR
4	STATH	ENSG00000126549	ENST00000506576	retained_intron	KNOWN	None	11369	None	None	70866498	70868287	1	None	STR
7	MTND3P2	ENSG00000230052	ENST00000438452	unprocessed_pseudogene	KNOWN	None	42142	None	None	63566032	63566373	-1	None	None
17	SNORD3C	ENSG00000264940	ENST00000580533	lincRNA	KNOWN	None	33191	None	None	19092978	19093558	-1	None	U3-3
17	SNORD3C	ENSG00000264940	ENST00000362428	snoRNA	KNOWN	None	33191	None	None	19093343	19093558	-1	None	U3-3
9	None	ENSG00000266446	ENST00000578935	sense_intronic	KNOWN	None	None	None	None	21995481	21996012	1	None	None
9	ATP5A1P10	ENSG00000243382	ENST00000411918	processed_pseudogene	KNOWN	None	37668	None	None	66058843	66060121	1	None	None
13	MAPK6PS3	ENSG00000237263	ENST00000403865	processed_pseudogene	KNOWN	None	18977	None	None	42643068	42645229	-1	None	None
6	SLC22A16	ENSG00000004809	ENST00000460159	processed_transcript	KNOWN	None	20302	None	None	110745890	110746585	-1	None	FLIPT2, CT2, OKB1, OAT6
6	SLC22A16	ENSG00000004809	ENST00000451557	protein_coding	KNOWN	None	20302	1299	432	110745890	110778024	-1	None	FLIPT2, CT2, OKB1, OAT6
6	SLC22A16	ENSG00000004809	ENST00000368919	protein_coding	KNOWN	CCDS5084	20302	1734	577	110745890	110797844	-1	None	FLIPT2, CT2, OKB1, OAT6
6	SLC22A16	ENSG00000004809	ENST00000434949	protein_coding	KNOWN	None	20302	801	266	110759923	110797643	-1	None	FLIPT2, CT2, OKB1, OAT6
6	SLC22A16	ENSG00000004809	ENST00000437378	protein_coding	KNOWN	None	20302	1054	350	110763447	110797601	-1	None	FLIPT2, CT2, OKB1, OAT6
6	SLC22A16	ENSG00000004809	ENST00000424139	protein_coding	KNOWN	None	20302	522	173	110768076	110797599	-1	None	FLIPT2, CT2, OKB1, OAT6
6	SLC22A16	ENSG00000004809	ENST00000461487	processed_transcript	KNOWN	None	20302	None	None	110776632	110797844	-1	None	FLIPT2, CT2, OKB1, OAT6
6	SLC22A16	ENSG00000004809	ENST00000330550	protein_coding	KNOWN	None	20302	1632	543	110745934	110796181	-1	None	FLIPT2, CT2, OKB1, OAT6
6	SLC22A16	ENSG00000004809	ENST00000439654	protein_coding	KNOWN	None	20302	1548	515	110746559	110797844	-1	None	FLIPT2, CT2, OKB1, OAT6
6	SLC22A16	ENSG00000004809	ENST00000456137	protein_coding	KNOWN	None	20302	600	199	110763604	110797816	-1	None	FLIPT2, CT2, OKB1, OAT6
7	None	ENSG00000233385	ENST00000453691	unprocessed_pseudogene	KNOWN	None	None	None	None	63566443	63567197	-1	None	None
14	RN7SL452P	ENSG00000243103	ENST00000482923	misc_RNA	KNOWN	None	46468	None	None	51104412	51104699	-1	None	None
9	UBA52P6	ENSG00000215221	ENST00000399822	processed_pseudogene	KNOWN	None	36763	None	None	22012154	22012535	1	None	None
11	None	ENSG00000254840	ENST00000528459	processed_transcript	KNOWN	None	None	None	None	50266852	50320877	1	None	None
11	None	ENSG00000254840	ENST00000532731	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	50274585	50274768	1	None	None
11	None	ENSG00000254840	ENST00000533230	processed_transcript	KNOWN	None	None	None	None	50279839	50303098	1	None	None
11	None	ENSG00000254840	ENST00000532103	processed_transcript	KNOWN	None	None	None	None	50301079	50303035	1	None	None
12	None	ENSG00000257912	ENST00000551280	lincRNA	KNOWN	None	None	None	None	88189510	88195805	1	None	None
13	None	ENSG00000265679	ENST00000582753	miRNA	NOVEL	None	None	None	None	42747126	42747223	-1	None	None
8	None	ENSG00000253199	ENST00000517573	lincRNA	KNOWN	None	None	None	None	20831308	20832540	1	None	None
8	None	ENSG00000253199	ENST00000522604	lincRNA	KNOWN	None	None	None	None	20831497	20852630	1	None	None
7	None	ENSG00000227035	ENST00000417994	unprocessed_pseudogene	KNOWN	None	None	None	None	63567200	63567950	-1	None	None
2	None	ENSG00000230646	ENST00000416807	processed_pseudogene	KNOWN	None	None	None	None	131185304	131186798	1	None	None
3	None	ENSG00000200222	ENST00000363352	snoRNA	NOVEL	None	None	None	None	64057484	64057695	-1	None	None
9	None	ENSG00000223449	ENST00000453387	processed_pseudogene	KNOWN	None	None	None	None	66061968	66062463	1	None	None
10	RNA5SP321	ENSG00000199592	ENST00000362722	rRNA	KNOWN	None	43221	None	None	79346807	79346917	1	RN5S321	None
17	None	ENSG00000236022	ENST00000428348	lincRNA	KNOWN	None	None	None	None	19107138	19117358	1	None	None
17	None	ENSG00000236022	ENST00000424109	lincRNA	KNOWN	None	None	None	None	19107146	19117358	1	None	None
17	None	ENSG00000236022	ENST00000447506	lincRNA	KNOWN	None	None	None	None	19109483	19110124	1	None	None
13	None	ENSG00000270809	ENST00000604283	processed_pseudogene	KNOWN	None	None	None	None	42755601	42756057	-1	None	None
13	TNFRSF19	ENSG00000127863	ENST00000248484	protein_coding	KNOWN	CCDS9301	11915	1254	417	24144509	24249028	1	None	TAJ-alpha, TROY, TAJ, TRADE
13	TNFRSF19	ENSG00000127863	ENST00000464735	processed_transcript	KNOWN	None	11915	None	None	24153498	24168550	1	None	TAJ-alpha, TROY, TAJ, TRADE
13	TNFRSF19	ENSG00000127863	ENST00000382258	protein_coding	KNOWN	CCDS9302	11915	1272	423	24153499	24243412	1	None	TAJ-alpha, TROY, TAJ, TRADE
13	TNFRSF19	ENSG00000127863	ENST00000382263	protein_coding	KNOWN	CCDS9301	11915	1254	417	24153519	24250232	1	None	TAJ-alpha, TROY, TAJ, TRADE
13	TNFRSF19	ENSG00000127863	ENST00000403372	protein_coding	KNOWN	CCDS55893	11915	858	285	24144803	24247638	1	None	TAJ-alpha, TROY, TAJ, TRADE
3	None	ENSG00000189196	ENST00000485805	lincRNA	KNOWN	None	None	None	None	64064037	64073039	-1	None	None
4	GK2	ENSG00000196475	ENST00000358842	protein_coding	KNOWN	CCDS3585	4291	1662	553	80327508	80329372	-1	GKP2	GKTA
9	None	ENSG00000236921	ENST00000435092	lincRNA	KNOWN	None	None	None	None	22203989	22214671	-1	None	None
15	STRCP1	ENSG00000166763	ENST00000509801	unprocessed_pseudogene	KNOWN	None	33915	None	None	43991686	44010382	-1	STRCP	None
11	None	ENSG00000270403	ENST00000604533	lincRNA	KNOWN	None	None	None	None	117539198	117539573	1	None	None
10	None	ENSG00000213514	ENST00000394628	processed_pseudogene	KNOWN	None	None	None	None	79490524	79494527	1	None	None
HG962_PATCH	CBWD3	ENSG00000265880	ENST00000578449	protein_coding	KNOWN	None	18519	1188	395	70856397	70914929	1	None	bA561O23.1
HG962_PATCH	CBWD3	ENSG00000265880	ENST00000579515	nonsense_mediated_decay	KNOWN	None	18519	177	58	70856861	70862963	1	None	bA561O23.1
HG962_PATCH	CBWD3	ENSG00000265880	ENST00000577357	nonsense_mediated_decay	KNOWN	None	18519	483	160	70856905	70914881	1	None	bA561O23.1
HG962_PATCH	CBWD3	ENSG00000265880	ENST00000584355	protein_coding	PUTATIVE	None	18519	333	110	70856957	70863947	1	None	bA561O23.1
HG962_PATCH	CBWD3	ENSG00000265880	ENST00000584211	retained_intron	KNOWN	None	18519	None	None	70871837	70885811	1	None	bA561O23.1
3	None	ENSG00000244078	ENST00000490320	antisense	KNOWN	None	None	None	None	159944270	159945841	1	None	None
9	None	ENSG00000242301	ENST00000424169	processed_pseudogene	KNOWN	None	None	None	None	66081972	66083332	-1	None	None
13	FHP1	ENSG00000234213	ENST00000442741	processed_pseudogene	KNOWN	None	39442	None	None	42830009	42830711	1	None	None
3	PRICKLE2-AS1	ENSG00000241572	ENST00000476308	antisense	KNOWN	None	40916	None	None	64084949	64086798	1	None	None
3	PRICKLE2-AS1	ENSG00000241572	ENST00000460946	antisense	KNOWN	None	40916	None	None	64085454	64086790	1	None	None
9	None	ENSG00000234840	ENST00000436786	lincRNA	KNOWN	None	None	None	None	22646199	22824212	1	None	None
9	None	ENSG00000234840	ENST00000433645	retained_intron	KNOWN	None	None	None	None	22682469	22687626	1	None	None
17	None	ENSG00000262031	ENST00000575126	lincRNA	KNOWN	None	None	None	None	44987108	44988878	-1	None	None
10	RNU6-1212P	ENSG00000252832	ENST00000517023	snRNA	KNOWN	None	48175	None	None	20081927	20082030	-1	None	None
8	None	ENSG00000255206	ENST00000526901	antisense	KNOWN	None	None	None	None	68994439	69007316	-1	None	None
7	None	ENSG00000234234	ENST00000412213	unprocessed_pseudogene	KNOWN	None	None	None	None	63568207	63568864	-1	None	None
2	CYP4F43P	ENSG00000239402	ENST00000455215	processed_transcript	KNOWN	None	39956	None	None	131187400	131193956	-1	None	CYP4F-se11[6:7:8]
2	CYP4F43P	ENSG00000239402	ENST00000439137	processed_transcript	KNOWN	None	39956	None	None	131193235	131198986	-1	None	CYP4F-se11[6:7:8]
2	CYP4F43P	ENSG00000239402	ENST00000417310	transcribed_unprocessed_pseudogene	KNOWN	None	39956	None	None	131196858	131197869	-1	None	CYP4F-se11[6:7:8]
2	CYP4F43P	ENSG00000239402	ENST00000321351	unprocessed_pseudogene	KNOWN	None	39956	None	None	131193227	131199048	-1	None	CYP4F-se11[6:7:8]
12	None	ENSG00000213144	ENST00000392530	processed_pseudogene	KNOWN	None	None	None	None	119632655	119633199	1	None	None
X	None	ENSG00000264284	ENST00000580703	miRNA	NOVEL	None	None	None	None	134702492	134702591	-1	None	None
10	None	ENSG00000238246	ENST00000451584	antisense	KNOWN	None	None	None	None	20359734	20380713	-1	None	None
11	None	ENSG00000254844	ENST00000531850	antisense	KNOWN	None	None	None	None	117689158	117692707	1	None	None
11	None	ENSG00000254844	ENST00000596805	antisense	KNOWN	None	None	None	None	117690926	117693172	1	None	None
14	MIR337	ENSG00000199151	ENST00000362281	miRNA	KNOWN	None	31774	None	None	101340830	101340922	1	MIRN337	hsa-mir-337
19	None	ENSG00000105520	ENST00000251473	protein_coding	KNOWN	CCDS12258	None	1032	343	11466062	11476374	1	None	None
19	None	ENSG00000105520	ENST00000591329	protein_coding	KNOWN	None	None	254	83	11466100	11470395	1	None	None
19	None	ENSG00000105520	ENST00000586431	processed_transcript	NOVEL	None	None	None	None	11466107	11470384	1	None	None
19	None	ENSG00000105520	ENST00000586380	protein_coding	KNOWN	None	None	198	65	11466142	11470514	1	None	None
19	None	ENSG00000105520	ENST00000591608	protein_coding	KNOWN	CCDS59352	None	1284	427	11466174	11476370	1	None	None
19	None	ENSG00000105520	ENST00000588196	retained_intron	NOVEL	None	None	None	None	11468372	11470570	1	None	None
19	None	ENSG00000105520	ENST00000587801	retained_intron	NOVEL	None	None	None	None	11470399	11474444	1	None	None
19	None	ENSG00000105520	ENST00000588360	retained_intron	NOVEL	None	None	None	None	11471942	11474891	1	None	None
13	FABP3P2	ENSG00000233259	ENST00000453169	processed_pseudogene	KNOWN	None	3558	None	None	42943395	42943793	-1	None	FABP3-ps, FABP3P
13	FABP3P2	ENSG00000233259	ENST00000458199	processed_pseudogene	KNOWN	None	3558	None	None	42943374	42943793	-1	None	FABP3-ps, FABP3P
9	None	ENSG00000237869	ENST00000442894	processed_pseudogene	KNOWN	None	None	None	None	66342521	66343121	-1	None	None
X	FRMPD4	ENSG00000169933	ENST00000380682	protein_coding	KNOWN	CCDS35201	29007	3969	1322	12156585	12742642	1	PDZK10, PDZD10	KIAA0316
14	None	ENSG00000269906	ENST00000602954	sense_intronic	KNOWN	None	None	None	None	51129229	51129896	-1	None	None
6	CCDC28A	ENSG00000024862	ENST00000332797	protein_coding	KNOWN	CCDS5192	21098	825	274	139094657	139114456	1	C6orf80	CCRL1AP, DKFZp586D0623
4	RN7SL424P	ENSG00000244034	ENST00000468013	misc_RNA	KNOWN	None	46440	None	None	55929902	55930196	1	None	None
10	RNU6-1266P	ENSG00000199664	ENST00000362794	snRNA	KNOWN	None	48229	None	None	79536709	79536813	-1	None	None
3	PRICKLE2-AS2	ENSG00000241101	ENST00000484703	antisense	KNOWN	None	40917	None	None	64089146	64091732	1	None	None
17	None	ENSG00000261886	ENST00000572349	processed_transcript	KNOWN	None	None	None	None	44994136	45000400	-1	None	None
14	MIR665	ENSG00000272291	ENST00000606903	miRNA	KNOWN	None	33662	None	None	101341370	101341441	1	MIRN665	hsa-mir-665
6	RNU1-105P	ENSG00000200340	ENST00000363470	snRNA	KNOWN	None	48447	None	None	47791126	47791286	1	None	None
12	None	ENSG00000256311	ENST00000536009	antisense	KNOWN	None	None	None	None	119663639	119696822	-1	None	None
10	AMD1P1	ENSG00000228339	ENST00000457220	processed_pseudogene	KNOWN	None	44898	None	None	20638978	20640029	1	None	None
14	PPP1R13B	ENSG00000088808	ENST00000557587	nonsense_mediated_decay	KNOWN	None	14950	320	105	104200089	104204153	-1	None	p53BP2-like, KIAA0771, p85, ASPP1
14	PPP1R13B	ENSG00000088808	ENST00000202556	protein_coding	KNOWN	CCDS41997	14950	3273	1090	104200089	104313927	-1	None	p53BP2-like, KIAA0771, p85, ASPP1
14	PPP1R13B	ENSG00000088808	ENST00000555825	retained_intron	KNOWN	None	14950	None	None	104200090	104204033	-1	None	p53BP2-like, KIAA0771, p85, ASPP1
14	PPP1R13B	ENSG00000088808	ENST00000556597	nonsense_mediated_decay	KNOWN	None	14950	1906	634	104200090	104212825	-1	None	p53BP2-like, KIAA0771, p85, ASPP1
14	PPP1R13B	ENSG00000088808	ENST00000557082	nonsense_mediated_decay	KNOWN	None	14950	369	122	104201229	104313222	-1	None	p53BP2-like, KIAA0771, p85, ASPP1
14	PPP1R13B	ENSG00000088808	ENST00000555391	processed_transcript	KNOWN	None	14950	None	None	104201230	104210352	-1	None	p53BP2-like, KIAA0771, p85, ASPP1
14	PPP1R13B	ENSG00000088808	ENST00000556334	retained_intron	KNOWN	None	14950	None	None	104201451	104205609	-1	None	p53BP2-like, KIAA0771, p85, ASPP1
14	PPP1R13B	ENSG00000088808	ENST00000554432	retained_intron	KNOWN	None	14950	None	None	104204726	104205593	-1	None	p53BP2-like, KIAA0771, p85, ASPP1
14	PPP1R13B	ENSG00000088808	ENST00000556325	processed_transcript	KNOWN	None	14950	None	None	104205016	104313912	-1	None	p53BP2-like, KIAA0771, p85, ASPP1
14	PPP1R13B	ENSG00000088808	ENST00000555991	processed_transcript	PUTATIVE	None	14950	None	None	104208329	104213734	-1	None	p53BP2-like, KIAA0771, p85, ASPP1
14	PPP1R13B	ENSG00000088808	ENST00000557744	retained_intron	KNOWN	None	14950	None	None	104208426	104209235	-1	None	p53BP2-like, KIAA0771, p85, ASPP1
14	PPP1R13B	ENSG00000088808	ENST00000555183	processed_transcript	PUTATIVE	None	14950	None	None	104212711	104213721	-1	None	p53BP2-like, KIAA0771, p85, ASPP1
14	PPP1R13B	ENSG00000088808	ENST00000555708	processed_transcript	PUTATIVE	None	14950	None	None	104213045	104213693	-1	None	p53BP2-like, KIAA0771, p85, ASPP1
14	PPP1R13B	ENSG00000088808	ENST00000554106	processed_transcript	KNOWN	None	14950	None	None	104220502	104306444	-1	None	p53BP2-like, KIAA0771, p85, ASPP1
14	PPP1R13B	ENSG00000088808	ENST00000555734	protein_coding	PUTATIVE	None	14950	448	148	104223986	104313400	-1	None	p53BP2-like, KIAA0771, p85, ASPP1
14	PPP1R13B	ENSG00000088808	ENST00000554136	retained_intron	KNOWN	None	14950	None	None	104244929	104313899	-1	None	p53BP2-like, KIAA0771, p85, ASPP1
14	PPP1R13B	ENSG00000088808	ENST00000553739	protein_coding	NOVEL	None	14950	431	142	104245092	104313824	-1	None	p53BP2-like, KIAA0771, p85, ASPP1
14	PPP1R13B	ENSG00000088808	ENST00000423488	protein_coding	KNOWN	None	14950	1197	398	104200090	104212825	-1	None	p53BP2-like, KIAA0771, p85, ASPP1
9	CNN2P5	ENSG00000233414	ENST00000424050	processed_pseudogene	KNOWN	None	39530	None	None	66345261	66346161	1	None	None
10	None	ENSG00000213513	ENST00000439688	processed_pseudogene	KNOWN	None	None	None	None	79540095	79541634	-1	None	None
9	None	ENSG00000236739	ENST00000453177	processed_pseudogene	KNOWN	None	None	None	None	22747699	22748233	1	None	None
1	None	ENSG00000223764	ENST00000417705	lincRNA	KNOWN	None	None	None	None	852250	855072	-1	None	None
1	None	ENSG00000223764	ENST00000432961	retained_intron	KNOWN	None	None	None	None	852750	853914	-1	None	None
7	MIR153-2	ENSG00000207960	ENST00000385225	miRNA	KNOWN	None	31540	None	None	157367028	157367114	-1	MIRN153-2	hsa-mir-153-2
8	None	ENSG00000254051	ENST00000518911	processed_pseudogene	KNOWN	None	None	None	None	69089003	69089456	1	None	None
17	RNU6ATAC3P	ENSG00000210709	ENST00000387974	snRNA	KNOWN	None	34093	None	None	44998490	44998615	1	None	None
6	HNRNPA3P4	ENSG00000226068	ENST00000427514	processed_pseudogene	KNOWN	None	39773	None	None	48116939	48117741	-1	None	None
X	None	ENSG00000237833	ENST00000439300	processed_pseudogene	KNOWN	None	None	None	None	134717576	134719085	-1	None	None
12	None	ENSG00000256353	ENST00000541161	processed_pseudogene	KNOWN	None	None	None	None	23261392	23261427	-1	None	None
19	None	ENSG00000167807	ENST00000452032	nonsense_mediated_decay	KNOWN	None	None	429	142	10416103	10426685	-1	None	None
19	None	ENSG00000167807	ENST00000493771	retained_intron	KNOWN	None	None	None	None	10419048	10426444	-1	None	None
3	None	ENSG00000272434	ENST00000607245	antisense	KNOWN	None	None	None	None	49066749	49067139	1	None	None
17	MIR5089	ENSG00000264999	ENST00000580047	miRNA	KNOWN	None	43536	None	None	45050383	45050466	1	None	hsa-mir-5089
16	None	ENSG00000206927	ENST00000384200	misc_RNA	NOVEL	None	None	None	None	18491794	18491893	1	None	None
3	CLDN1	ENSG00000163347	ENST00000295522	protein_coding	KNOWN	CCDS3295	2032	636	211	190023490	190040264	-1	None	SEMP1, ILVASC
3	CLDN1	ENSG00000163347	ENST00000490800	retained_intron	KNOWN	None	2032	None	None	190027958	190031007	-1	None	SEMP1, ILVASC
7	None	ENSG00000231515	ENST00000448541	sense_intronic	KNOWN	None	None	None	None	157531702	157533148	-1	None	None
12	None	ENSG00000257940	ENST00000548691	lincRNA	KNOWN	None	None	None	None	88210263	88211608	1	None	None
14	MIR431	ENSG00000208001	ENST00000385266	miRNA	KNOWN	None	32027	None	None	101347344	101347457	1	MIRN431	hsa-mir-431
5	None	ENSG00000242683	ENST00000472214	processed_pseudogene	KNOWN	None	None	None	None	138370837	138371676	-1	None	None
9	None	ENSG00000233171	ENST00000417634	processed_pseudogene	KNOWN	None	None	None	None	66358548	66359282	1	None	None
7	None	ENSG00000214194	ENST00000397764	protein_coding	NOVEL	None	None	180	59	112756773	112758668	-1	None	None
7	None	ENSG00000214194	ENST00000441359	protein_coding	NOVEL	None	None	180	59	112756916	112758615	-1	None	None
7	None	ENSG00000214194	ENST00000413744	protein_coding	NOVEL	None	None	180	59	112757312	112758589	-1	None	None
7	None	ENSG00000214194	ENST00000439551	protein_coding	NOVEL	None	None	96	31	112757538	112758609	-1	None	None
17	LRRC37A17P	ENSG00000263142	ENST00000570478	processed_transcript	KNOWN	None	48365	None	None	45055847	45126511	1	None	None
17	LRRC37A17P	ENSG00000263142	ENST00000570311	transcribed_unprocessed_pseudogene	KNOWN	None	48365	None	None	45094559	45131935	1	None	None
3	RN7SL182P	ENSG00000241461	ENST00000496499	misc_RNA	KNOWN	None	46198	None	None	49120666	49120963	1	None	None
15	None	ENSG00000259627	ENST00000558905	antisense	KNOWN	None	None	None	None	63362224	63364110	-1	None	None
3	PRDX3P4	ENSG00000239926	ENST00000470828	processed_pseudogene	KNOWN	None	44643	None	None	64160077	64160823	1	None	None
12	None	ENSG00000248636	ENST00000537366	lincRNA	KNOWN	None	None	None	None	119825792	120105884	-1	None	None
12	None	ENSG00000248636	ENST00000535511	lincRNA	KNOWN	None	None	None	None	119825796	120032045	-1	None	None
12	None	ENSG00000248636	ENST00000509470	lincRNA	KNOWN	None	None	None	None	119825796	120032306	-1	None	None
3	None	ENSG00000243687	ENST00000489757	processed_pseudogene	KNOWN	None	None	None	None	160060473	160060803	1	None	None
19	EML2	ENSG00000125746	ENST00000589876	protein_coding	PUTATIVE	None	18035	2322	773	46110252	46142661	-1	None	EMAP2, ELP70, EMAP-2
19	EML2	ENSG00000125746	ENST00000588308	nonsense_mediated_decay	KNOWN	None	18035	1284	427	46112658	46142649	-1	None	EMAP2, ELP70, EMAP-2
19	EML2	ENSG00000125746	ENST00000586195	nonsense_mediated_decay	KNOWN	None	18035	438	145	46112658	46142653	-1	None	EMAP2, ELP70, EMAP-2
19	EML2	ENSG00000125746	ENST00000245925	protein_coding	KNOWN	CCDS12670	18035	1950	649	46112658	46142685	-1	None	EMAP2, ELP70, EMAP-2
19	EML2	ENSG00000125746	ENST00000536630	protein_coding	KNOWN	CCDS54280	18035	2391	796	46112660	46146985	-1	None	EMAP2, ELP70, EMAP-2
19	EML2	ENSG00000125746	ENST00000587152	protein_coding	KNOWN	CCDS59399	18035	2553	850	46112896	46148887	-1	None	EMAP2, ELP70, EMAP-2
19	EML2	ENSG00000125746	ENST00000592433	retained_intron	KNOWN	None	18035	None	None	46112920	46119410	-1	None	EMAP2, ELP70, EMAP-2
19	EML2	ENSG00000125746	ENST00000586405	nonsense_mediated_decay	KNOWN	None	18035	230	75	46112978	46119753	-1	None	EMAP2, ELP70, EMAP-2
19	EML2	ENSG00000125746	ENST00000587484	protein_coding	NOVEL	None	18035	219	72	46119117	46122348	-1	None	EMAP2, ELP70, EMAP-2
19	EML2	ENSG00000125746	ENST00000592482	retained_intron	KNOWN	None	18035	None	None	46119743	46122752	-1	None	EMAP2, ELP70, EMAP-2
19	EML2	ENSG00000125746	ENST00000590819	nonsense_mediated_decay	KNOWN	None	18035	156	51	46119754	46130010	-1	None	EMAP2, ELP70, EMAP-2
19	EML2	ENSG00000125746	ENST00000399594	nonsense_mediated_decay	KNOWN	None	18035	1812	603	46119758	46148175	-1	None	EMAP2, ELP70, EMAP-2
19	EML2	ENSG00000125746	ENST00000590575	protein_coding	NOVEL	None	18035	543	180	46119776	46128040	-1	None	EMAP2, ELP70, EMAP-2
19	EML2	ENSG00000125746	ENST00000588272	protein_coding	NOVEL	None	18035	361	119	46120935	46133290	-1	None	EMAP2, ELP70, EMAP-2
19	EML2	ENSG00000125746	ENST00000588000	retained_intron	KNOWN	None	18035	None	None	46124070	46142659	-1	None	EMAP2, ELP70, EMAP-2
19	EML2	ENSG00000125746	ENST00000588610	retained_intron	KNOWN	None	18035	None	None	46124421	46142655	-1	None	EMAP2, ELP70, EMAP-2
19	EML2	ENSG00000125746	ENST00000588496	protein_coding	NOVEL	None	18035	669	222	46124465	46136369	-1	None	EMAP2, ELP70, EMAP-2
19	EML2	ENSG00000125746	ENST00000586902	processed_transcript	KNOWN	None	18035	None	None	46124812	46135920	-1	None	EMAP2, ELP70, EMAP-2
19	EML2	ENSG00000125746	ENST00000590580	processed_transcript	KNOWN	None	18035	None	None	46126714	46135920	-1	None	EMAP2, ELP70, EMAP-2
19	EML2	ENSG00000125746	ENST00000592853	nonsense_mediated_decay	KNOWN	None	18035	276	91	46127978	46136229	-1	None	EMAP2, ELP70, EMAP-2
19	EML2	ENSG00000125746	ENST00000586770	protein_coding	PUTATIVE	None	18035	675	224	46129963	46142362	-1	None	EMAP2, ELP70, EMAP-2
19	EML2	ENSG00000125746	ENST00000587804	retained_intron	KNOWN	None	18035	None	None	46133222	46137754	-1	None	EMAP2, ELP70, EMAP-2
19	EML2	ENSG00000125746	ENST00000591721	protein_coding	PUTATIVE	None	18035	444	147	46136119	46142500	-1	None	EMAP2, ELP70, EMAP-2
19	EML2	ENSG00000125746	ENST00000588889	retained_intron	KNOWN	None	18035	None	None	46136119	46145639	-1	None	EMAP2, ELP70, EMAP-2
19	EML2	ENSG00000125746	ENST00000593255	protein_coding	PUTATIVE	None	18035	399	132	46136164	46143389	-1	None	EMAP2, ELP70, EMAP-2
19	EML2	ENSG00000125746	ENST00000590043	protein_coding	PUTATIVE	None	18035	333	110	46136328	46142655	-1	None	EMAP2, ELP70, EMAP-2
19	EML2	ENSG00000125746	ENST00000590018	protein_coding	PUTATIVE	None	18035	295	97	46136366	46142131	-1	None	EMAP2, ELP70, EMAP-2
19	EML2	ENSG00000125746	ENST00000588420	retained_intron	KNOWN	None	18035	None	None	46143675	46146036	-1	None	EMAP2, ELP70, EMAP-2
19	EML2	ENSG00000125746	ENST00000585386	retained_intron	KNOWN	None	18035	None	None	46144188	46148607	-1	None	EMAP2, ELP70, EMAP-2
19	EML2	ENSG00000125746	ENST00000588172	protein_coding	PUTATIVE	None	18035	425	140	46144899	46145820	-1	None	EMAP2, ELP70, EMAP-2
19	EML2	ENSG00000125746	ENST00000592901	retained_intron	KNOWN	None	18035	None	None	46144930	46148614	-1	None	EMAP2, ELP70, EMAP-2
16	MIR3180-3	ENSG00000257563	ENST00000549796	lincRNA	KNOWN	None	38239	None	None	18496003	18497461	1	None	hsa-mir-3180-3
3	None	ENSG00000270441	ENST00000603877	unprocessed_pseudogene	KNOWN	None	None	None	None	49177519	49198284	-1	None	None
16	IRX6	ENSG00000159387	ENST00000290552	protein_coding	KNOWN	CCDS32449	14675	1341	446	55357672	55364672	1	IRX7	IRX-3
16	IRX6	ENSG00000159387	ENST00000558315	processed_transcript	KNOWN	None	14675	None	None	55359712	55361708	1	IRX7	IRX-3
8	None	ENSG00000252210	ENST00000516401	misc_RNA	NOVEL	None	None	None	None	69135553	69135637	-1	None	None
3	MIR15B	ENSG00000207779	ENST00000385045	miRNA	KNOWN	None	31544	None	None	160122376	160122473	1	MIRN15B	hsa-mir-15b
9	CYP4F61P	ENSG00000235327	ENST00000435658	unprocessed_pseudogene	KNOWN	None	42469	None	None	66366966	66367990	-1	None	CYP4F-se16[6:7:8]
14	MIR433	ENSG00000207569	ENST00000384837	miRNA	KNOWN	None	32026	None	None	101348220	101348343	1	MIRN433	hsa-mir-433
17	None	ENSG00000267543	ENST00000590241	sense_intronic	KNOWN	None	None	None	None	74546033	74546908	1	None	None
14	ZFP64P1	ENSG00000258491	ENST00000553836	processed_pseudogene	KNOWN	None	19820	None	None	51171061	51172229	-1	ZNF405P	None
10	None	ENSG00000270727	ENST00000604920	processed_pseudogene	KNOWN	None	None	None	None	20836100	20836351	1	None	None
8	RPL31P40	ENSG00000253964	ENST00000520506	processed_pseudogene	KNOWN	None	36134	None	None	69205681	69206053	-1	None	None
9	None	ENSG00000234907	ENST00000426171	processed_pseudogene	KNOWN	None	None	None	None	135837898	135838054	1	None	None
11	MAP4K2	ENSG00000168067	ENST00000435926	nonsense_mediated_decay	KNOWN	None	6864	174	57	64556290	64570634	-1	RAB8IP	GCK, BL44
11	MAP4K2	ENSG00000168067	ENST00000424945	nonsense_mediated_decay	KNOWN	None	6864	434	143	64556609	64563970	-1	RAB8IP	GCK, BL44
11	MAP4K2	ENSG00000168067	ENST00000470088	retained_intron	KNOWN	None	6864	None	None	64556609	64564815	-1	RAB8IP	GCK, BL44
11	MAP4K2	ENSG00000168067	ENST00000294066	protein_coding	KNOWN	CCDS8082	6864	2463	820	64556609	64570713	-1	RAB8IP	GCK, BL44
11	MAP4K2	ENSG00000168067	ENST00000377350	protein_coding	NOVEL	None	6864	2439	812	64556609	64570713	-1	RAB8IP	GCK, BL44
11	MAP4K2	ENSG00000168067	ENST00000433890	nonsense_mediated_decay	KNOWN	None	6864	174	57	64557009	64570621	-1	RAB8IP	GCK, BL44
11	MAP4K2	ENSG00000168067	ENST00000489952	retained_intron	KNOWN	None	6864	None	None	64557361	64567131	-1	RAB8IP	GCK, BL44
11	MAP4K2	ENSG00000168067	ENST00000467689	retained_intron	KNOWN	None	6864	None	None	64564443	64567106	-1	RAB8IP	GCK, BL44
11	MAP4K2	ENSG00000168067	ENST00000439069	protein_coding	NOVEL	None	6864	921	306	64566893	64570647	-1	RAB8IP	GCK, BL44
11	MAP4K2	ENSG00000168067	ENST00000493428	processed_transcript	KNOWN	None	6864	None	None	64567654	64569285	-1	RAB8IP	GCK, BL44
11	MAP4K2	ENSG00000168067	ENST00000482314	processed_transcript	KNOWN	None	6864	None	None	64567808	64570482	-1	RAB8IP	GCK, BL44
11	MAP4K2	ENSG00000168067	ENST00000468062	processed_transcript	KNOWN	None	6864	None	None	64567820	64570601	-1	RAB8IP	GCK, BL44
11	MAP4K2	ENSG00000168067	ENST00000444560	nonsense_mediated_decay	KNOWN	None	6864	177	58	64569182	64570699	-1	RAB8IP	GCK, BL44
12	None	ENSG00000258179	ENST00000549647	processed_pseudogene	KNOWN	None	None	None	None	88214431	88214695	-1	None	None
15	None	ENSG00000260103	ENST00000563287	processed_transcript	KNOWN	None	None	None	None	74770411	74782627	-1	None	None
15	None	ENSG00000260103	ENST00000568772	transcribed_processed_pseudogene	KNOWN	None	None	None	None	74773366	74773739	-1	None	None
17	None	ENSG00000272386	ENST00000607478	sense_intronic	KNOWN	None	None	None	None	74547434	74547832	1	None	None
9	RNU7-21P	ENSG00000238558	ENST00000459430	snRNA	KNOWN	None	34117	None	None	135839119	135839180	1	None	U7.21
2	None	ENSG00000256066	ENST00000546144	processed_pseudogene	NOVEL	None	None	None	None	131220959	131221267	-1	None	None
12	None	ENSG00000115934	ENST00000538297	lincRNA	KNOWN	None	None	None	None	23334268	23404433	-1	None	None
Y	None	ENSG00000269464	ENST00000601705	protein_coding	NOVEL	None	None	42	13	5306691	5312605	-1	None	None
2	RNU6-473P	ENSG00000251973	ENST00000516164	snRNA	KNOWN	None	47436	None	None	131255316	131255422	-1	None	None
11	ZBED5-AS1	ENSG00000247271	ENST00000501079	antisense	KNOWN	None	48646	None	None	10879806	10900823	1	None	None
11	ZBED5-AS1	ENSG00000247271	ENST00000529014	antisense	KNOWN	None	48646	None	None	10879815	10899956	1	None	None
11	ZBED5-AS1	ENSG00000247271	ENST00000530344	antisense	KNOWN	None	48646	None	None	10886808	10928349	1	None	None
15	None	ENSG00000259672	ENST00000560238	lincRNA	KNOWN	None	None	None	None	63391069	63402602	1	None	None
17	GAST	ENSG00000184502	ENST00000329402	protein_coding	KNOWN	CCDS11404	4164	306	101	39868578	39872221	1	GAS	None
12	None	ENSG00000256473	ENST00000546118	antisense	KNOWN	None	None	None	None	23790907	23791421	1	None	None
2	None	ENSG00000225819	ENST00000450486	antisense	KNOWN	None	None	None	None	131273570	131284264	-1	None	None
4	RN7SL822P	ENSG00000239545	ENST00000475674	misc_RNA	KNOWN	None	46838	None	None	56081793	56082079	-1	None	None
9	EEF1A1P5	ENSG00000196205	ENST00000436459	processed_pseudogene	KNOWN	None	3200	None	None	135894873	135896261	1	EEF1AL3	None
9	EEF1A1P5	ENSG00000196205	ENST00000501580	pseudogene	KNOWN	None	3200	None	None	135894816	135896553	1	EEF1AL3	None
21	None	ENSG00000268856	ENST00000599569	protein_coding	NOVEL	None	None	132	43	46492796	46492927	-1	None	None
18	TNFRSF11A	ENSG00000141655	ENST00000269485	protein_coding	NOVEL	CCDS59324	11908	900	299	59992520	60054892	1	None	RANK, CD265
18	TNFRSF11A	ENSG00000141655	ENST00000586569	protein_coding	KNOWN	CCDS11980	11908	1851	616	59992548	60058516	1	None	RANK, CD265
18	TNFRSF11A	ENSG00000141655	ENST00000592013	retained_intron	KNOWN	None	11908	None	None	59992559	60004019	1	None	RANK, CD265
18	TNFRSF11A	ENSG00000141655	ENST00000587697	retained_intron	KNOWN	None	11908	None	None	60025136	60027276	1	None	RANK, CD265
4	None	ENSG00000250812	ENST00000507445	processed_pseudogene	KNOWN	None	None	None	None	56085511	56086140	1	None	None
14	IGHVII-46-1	ENSG00000253808	ENST00000519794	IG_V_pseudogene	KNOWN	None	5682	None	None	106971752	106971788	-1	None	IGHV(II)-46-1
7	None	ENSG00000233038	ENST00000436151	antisense	KNOWN	None	None	None	None	157647221	157650544	1	None	None
7	None	ENSG00000233038	ENST00000438047	antisense	KNOWN	None	None	None	None	157647277	157658784	1	None	None
7	None	ENSG00000233038	ENST00000434059	antisense	KNOWN	None	None	None	None	157647300	157650274	1	None	None
7	None	ENSG00000233038	ENST00000443338	antisense	KNOWN	None	None	None	None	157647492	157655703	1	None	None
14	None	ENSG00000258656	ENST00000556317	processed_pseudogene	KNOWN	None	None	None	None	61438990	61439184	-1	None	None
3	PRICKLE2-AS3	ENSG00000226017	ENST00000473434	antisense	KNOWN	None	40918	None	None	64173220	64186641	1	None	None
2	None	ENSG00000225341	ENST00000422631	antisense	KNOWN	None	None	None	None	131287848	131294755	1	None	None
14	MIR127	ENSG00000207608	ENST00000384876	miRNA	KNOWN	None	31509	None	None	101349316	101349412	1	MIRN127	hsa-mir-127
HSCHR6_MHC_APD	TNXB	ENSG00000229341	ENST00000433037	protein_coding	KNOWN	None	11976	1902	633	32052787	32065237	-1	TNXB1, TNXB2	TNXBS, XBS, XB
14	RNU6-398P	ENSG00000206870	ENST00000384143	snRNA	KNOWN	None	47361	None	None	61441045	61441153	1	None	None
14	IGHV3-47	ENSG00000229092	ENST00000425060	IG_V_pseudogene	KNOWN	None	5605	None	None	106974509	106974954	-1	None	None
15	None	ENSG00000259585	ENST00000558517	processed_pseudogene	KNOWN	None	None	None	None	35590450	35591641	-1	None	None
12	MIR920	ENSG00000216192	ENST00000401373	miRNA	KNOWN	None	33670	None	None	24365355	24365429	1	MIRN920	hsa-mir-920
8	RPS15AP25	ENSG00000236191	ENST00000489168	processed_pseudogene	KNOWN	None	36848	None	None	69437752	69438141	-1	None	None
3	MIR16-2	ENSG00000198987	ENST00000362117	miRNA	KNOWN	None	31546	None	None	160122533	160122613	1	MIRN16-2	hsa-mir-16-2
17	SNHG16	ENSG00000163597	ENST00000591956	lincRNA	KNOWN	None	44352	None	None	74553848	74557833	1	None	ncRAN
17	SNHG16	ENSG00000163597	ENST00000586846	lincRNA	KNOWN	None	44352	None	None	74553849	74554542	1	None	ncRAN
17	SNHG16	ENSG00000163597	ENST00000587743	retained_intron	KNOWN	None	44352	None	None	74553851	74556515	1	None	ncRAN
17	SNHG16	ENSG00000163597	ENST00000586942	lincRNA	KNOWN	None	44352	None	None	74553851	74559242	1	None	ncRAN
17	SNHG16	ENSG00000163597	ENST00000493536	lincRNA	KNOWN	None	44352	None	None	74553852	74561425	1	None	ncRAN
17	SNHG16	ENSG00000163597	ENST00000448136	lincRNA	KNOWN	None	44352	None	None	74553860	74561430	1	None	ncRAN
17	SNHG16	ENSG00000163597	ENST00000590435	lincRNA	KNOWN	None	44352	None	None	74553874	74561361	1	None	ncRAN
17	SNHG16	ENSG00000163597	ENST00000587838	lincRNA	KNOWN	None	44352	None	None	74554545	74559835	1	None	ncRAN
17	SNHG16	ENSG00000163597	ENST00000363315	snoRNA	KNOWN	None	44352	None	None	74554873	74554950	1	None	ncRAN
17	SNHG16	ENSG00000163597	ENST00000364968	snoRNA	KNOWN	None	44352	None	None	74557716	74557787	1	None	ncRAN
4	RNU6-746P	ENSG00000206839	ENST00000384112	snRNA	KNOWN	None	47709	None	None	56160657	56160765	1	None	None
2	None	ENSG00000232408	ENST00000457169	antisense	KNOWN	None	None	None	None	131341122	131348036	-1	None	None
14	None	ENSG00000222604	ENST00000410672	snoRNA	NOVEL	None	None	None	None	75178654	75178748	1	None	None
14	None	ENSG00000252380	ENST00000516571	snoRNA	NOVEL	None	None	None	None	61729679	61729750	-1	None	None
15	None	ENSG00000259906	ENST00000563502	lincRNA	KNOWN	None	None	None	None	30462766	30471332	-1	None	None
15	None	ENSG00000259906	ENST00000567770	lincRNA	KNOWN	None	None	None	None	30471079	30472146	-1	None	None
4	None	ENSG00000250464	ENST00000514850	processed_pseudogene	KNOWN	None	None	None	None	56179178	56180091	-1	None	None
3	None	ENSG00000243993	ENST00000485770	lincRNA	KNOWN	None	None	None	None	64430158	64431152	-1	None	None
3	CIDECP	ENSG00000186162	ENST00000432401	processed_transcript	KNOWN	None	24230	None	None	10055932	10068041	-1	None	CICE
3	CIDECP	ENSG00000186162	ENST00000335507	processed_transcript	KNOWN	None	24230	None	None	10056807	10068044	-1	None	CICE
3	CIDECP	ENSG00000186162	ENST00000433871	transcribed_unprocessed_pseudogene	KNOWN	None	24230	None	None	10059181	10065431	-1	None	CICE
3	CIDECP	ENSG00000186162	ENST00000424691	processed_transcript	KNOWN	None	24230	None	None	10059181	10068049	-1	None	CICE
3	CIDECP	ENSG00000186162	ENST00000424471	processed_transcript	KNOWN	None	24230	None	None	10059437	10068041	-1	None	CICE
3	CIDECP	ENSG00000186162	ENST00000445082	processed_transcript	KNOWN	None	24230	None	None	10064611	10068010	-1	None	CICE
X	MIR1184-2	ENSG00000221603	ENST00000408676	miRNA	KNOWN	None	38211	None	None	154687178	154687276	1	None	hsa-mir-1184-2
X	MIR1184-3	ENSG00000221603	ENST00000408676	miRNA	KNOWN	None	38389	None	None	154687178	154687276	1	None	hsa-mir-1184-3
X	MIR509-1	ENSG00000208000	ENST00000385265	miRNA	KNOWN	None	32146	None	None	146342050	146342143	-1	MIRN509, MIRN509-1	hsa-mir-509, hsa-mir-509-1
8	None	ENSG00000254251	ENST00000517884	antisense	KNOWN	None	None	None	None	91818702	91871468	-1	None	None
11	None	ENSG00000254528	ENST00000534150	antisense	KNOWN	None	None	None	None	117704434	117708507	1	None	None
11	None	ENSG00000254528	ENST00000525260	antisense	KNOWN	None	None	None	None	117704608	117708370	1	None	None
11	None	ENSG00000254528	ENST00000581173	antisense	KNOWN	None	None	None	None	117704625	117709657	1	None	None
2	RNU6-848P	ENSG00000251757	ENST00000515948	snRNA	KNOWN	None	47811	None	None	131380411	131380517	1	None	None
3	None	ENSG00000244564	ENST00000487097	lincRNA	KNOWN	None	None	None	None	64430907	64440508	1	None	None
14	None	ENSG00000259606	ENST00000553381	antisense	KNOWN	None	None	None	None	75310727	75322378	1	None	None
4	None	ENSG00000242318	ENST00000485315	processed_pseudogene	KNOWN	None	None	None	None	99330441	99330914	1	None	None
9	SNX18P6	ENSG00000234430	ENST00000457659	unprocessed_pseudogene	KNOWN	None	39614	None	None	66394412	66395279	-1	None	None
2	None	ENSG00000257010	ENST00000535037	processed_pseudogene	NOVEL	None	None	None	None	131414572	131414880	1	None	None
4	FCF1P8	ENSG00000251111	ENST00000510322	processed_pseudogene	KNOWN	None	44620	None	None	56217979	56218575	-1	None	None
8	None	ENSG00000254040	ENST00000517994	lincRNA	KNOWN	None	None	None	None	20880807	20886569	1	None	None
14	MIR432	ENSG00000272458	ENST00000606207	miRNA	KNOWN	None	32083	None	None	101350820	101350913	1	MIRN432	hsa-mir-432
3	None	ENSG00000270538	ENST00000604776	processed_pseudogene	KNOWN	None	None	None	None	49289562	49289697	-1	None	None
8	None	ENSG00000240271	ENST00000465776	processed_pseudogene	KNOWN	None	None	None	None	106023335	106023796	1	None	None
4	None	ENSG00000251523	ENST00000505408	antisense	KNOWN	None	None	None	None	99417515	99431086	1	None	None
8	None	ENSG00000207101	ENST00000384373	misc_RNA	NOVEL	None	None	None	None	41660867	41660968	1	None	None
6	RBMXP1	ENSG00000216835	ENST00000408004	processed_pseudogene	KNOWN	None	9911	None	None	48181340	48182530	-1	HNRPG	HNRNP-G
17	KCNJ16	ENSG00000153822	ENST00000591891	protein_coding	KNOWN	None	6262	106	34	68049570	68128334	1	None	Kir5.1, BIR9
17	KCNJ16	ENSG00000153822	ENST00000588112	retained_intron	KNOWN	None	6262	None	None	68071387	68098351	1	None	Kir5.1, BIR9
17	KCNJ16	ENSG00000153822	ENST00000589377	protein_coding	KNOWN	CCDS11687	6262	1257	418	68071462	68131749	1	None	Kir5.1, BIR9
17	KCNJ16	ENSG00000153822	ENST00000586462	protein_coding	PUTATIVE	None	6262	1374	457	68092781	68129745	1	None	Kir5.1, BIR9
17	KCNJ16	ENSG00000153822	ENST00000585558	protein_coding	PUTATIVE	None	6262	1362	453	68100995	68131749	1	None	Kir5.1, BIR9
17	KCNJ16	ENSG00000153822	ENST00000587698	protein_coding	KNOWN	None	6262	193	63	68101139	68128421	1	None	Kir5.1, BIR9
17	KCNJ16	ENSG00000153822	ENST00000587892	protein_coding	KNOWN	None	6262	107	34	68101141	68128335	1	None	Kir5.1, BIR9
17	KCNJ16	ENSG00000153822	ENST00000283936	protein_coding	KNOWN	CCDS11687	6262	1257	418	68071426	68131744	1	None	Kir5.1, BIR9
17	KCNJ16	ENSG00000153822	ENST00000392671	protein_coding	KNOWN	CCDS11687	6262	1257	418	68071426	68131744	1	None	Kir5.1, BIR9
17	KCNJ16	ENSG00000153822	ENST00000392670	protein_coding	KNOWN	CCDS11687	6262	1257	418	68100995	68131744	1	None	Kir5.1, BIR9
14	IGHVIII-47-1	ENSG00000253862	ENST00000518187	IG_V_pseudogene	KNOWN	None	5701	None	None	106987143	106987473	-1	None	IGHV(III)-47-1
8	None	ENSG00000254041	ENST00000518927	antisense	KNOWN	None	None	None	None	106155088	106200834	-1	None	None
1	USP21	ENSG00000143258	ENST00000492950	processed_transcript	KNOWN	None	12620	None	None	161129240	161132158	1	USP23	USP16
1	USP21	ENSG00000143258	ENST00000289865	protein_coding	KNOWN	CCDS30920	12620	1698	565	161129269	161135513	1	USP23	USP16
1	USP21	ENSG00000143258	ENST00000479344	processed_transcript	KNOWN	None	12620	None	None	161129311	161130782	1	USP23	USP16
1	USP21	ENSG00000143258	ENST00000368001	protein_coding	KNOWN	None	12620	1656	551	161129327	161135513	1	USP23	USP16
1	USP21	ENSG00000143258	ENST00000486299	processed_transcript	KNOWN	None	12620	None	None	161130534	161132470	1	USP23	USP16
1	USP21	ENSG00000143258	ENST00000487163	processed_transcript	KNOWN	None	12620	None	None	161131153	161135513	1	USP23	USP16
1	USP21	ENSG00000143258	ENST00000482385	processed_transcript	KNOWN	None	12620	None	None	161132414	161134612	1	USP23	USP16
1	USP21	ENSG00000143258	ENST00000493054	processed_transcript	KNOWN	None	12620	None	None	161133345	161135417	1	USP23	USP16
1	USP21	ENSG00000143258	ENST00000485277	processed_transcript	KNOWN	None	12620	None	None	161133669	161135295	1	USP23	USP16
1	USP21	ENSG00000143258	ENST00000368002	protein_coding	KNOWN	CCDS30920	12620	1698	565	161129254	161135504	1	USP23	USP16
14	None	ENSG00000258587	ENST00000555980	processed_pseudogene	KNOWN	None	None	None	None	75340387	75340957	1	None	None
15	None	ENSG00000259459	ENST00000559379	lincRNA	KNOWN	None	None	None	None	63682335	63724376	1	None	None
15	None	ENSG00000259459	ENST00000559821	lincRNA	KNOWN	None	None	None	None	63682429	63729347	1	None	None
1	None	ENSG00000272512	ENST00000606034	lincRNA	KNOWN	None	None	None	None	931346	933431	-1	None	None
11	None	ENSG00000214883	ENST00000532521	unprocessed_pseudogene	KNOWN	None	None	None	None	50368213	50381487	1	None	None
15	None	ENSG00000225930	ENST00000562624	lincRNA	KNOWN	None	None	None	None	30488239	30506743	1	None	None
15	None	ENSG00000225930	ENST00000455163	lincRNA	KNOWN	None	None	None	None	30502611	30503009	1	None	None
17	None	ENSG00000262879	ENST00000575930	lincRNA	KNOWN	None	None	None	None	45061411	45144818	-1	None	None
17	None	ENSG00000262879	ENST00000571901	lincRNA	KNOWN	None	None	None	None	45076066	45144835	-1	None	None
17	None	ENSG00000262879	ENST00000570314	lincRNA	KNOWN	None	None	None	None	45082984	45098989	-1	None	None
17	None	ENSG00000262879	ENST00000571143	lincRNA	KNOWN	None	None	None	None	45087830	45099032	-1	None	None
17	None	ENSG00000262879	ENST00000575173	lincRNA	KNOWN	None	None	None	None	45095413	45144903	-1	None	None
17	None	ENSG00000262879	ENST00000570379	retained_intron	KNOWN	None	None	None	None	45133573	45144854	-1	None	None
17	None	ENSG00000262879	ENST00000573341	lincRNA	KNOWN	None	None	None	None	45133975	45177614	-1	None	None
17	None	ENSG00000262879	ENST00000572864	lincRNA	KNOWN	None	None	None	None	45148812	45177315	-1	None	None
17	None	ENSG00000262879	ENST00000576938	lincRNA	KNOWN	None	None	None	None	45148840	45177307	-1	None	None
17	None	ENSG00000262879	ENST00000574741	lincRNA	KNOWN	None	None	None	None	45159286	45177605	-1	None	None
17	None	ENSG00000262879	ENST00000571665	lincRNA	KNOWN	None	None	None	None	45177202	45177689	-1	None	None
2	CYP4F30P	ENSG00000214081	ENST00000438109	processed_transcript	KNOWN	None	25270	None	None	131437623	131443436	1	C2orf14	DKFZp434F1719, 4F-se9[6:7:8]
2	CYP4F30P	ENSG00000214081	ENST00000397485	processed_transcript	KNOWN	None	25270	None	None	131437683	131443425	1	C2orf14	DKFZp434F1719, 4F-se9[6:7:8]
2	CYP4F30P	ENSG00000214081	ENST00000450440	processed_transcript	KNOWN	None	25270	None	None	131438801	131449264	1	C2orf14	DKFZp434F1719, 4F-se9[6:7:8]
2	CYP4F30P	ENSG00000214081	ENST00000420048	transcribed_unprocessed_pseudogene	KNOWN	None	25270	None	None	131438802	131439528	1	C2orf14	DKFZp434F1719, 4F-se9[6:7:8]
12	None	ENSG00000255864	ENST00000540811	lincRNA	KNOWN	None	None	None	None	24366190	24715524	-1	None	None
12	None	ENSG00000255864	ENST00000446891	lincRNA	KNOWN	None	None	None	None	24366276	24715421	-1	None	None
12	None	ENSG00000255864	ENST00000536729	lincRNA	KNOWN	None	None	None	None	24366277	24510364	-1	None	None
12	None	ENSG00000255864	ENST00000429944	lincRNA	KNOWN	None	None	None	None	24430184	24715427	-1	None	None
12	None	ENSG00000255864	ENST00000456299	lincRNA	KNOWN	None	None	None	None	24484220	24715478	-1	None	None
12	None	ENSG00000255864	ENST00000538905	lincRNA	KNOWN	None	None	None	None	24520869	24715316	-1	None	None
4	None	ENSG00000260641	ENST00000569927	antisense	KNOWN	None	None	None	None	99580055	99585701	1	None	None
8	TMCC1P1	ENSG00000253318	ENST00000518897	processed_pseudogene	KNOWN	None	31901	None	None	106207218	106209197	-1	TMCC1P	None
12	FOXJ2	ENSG00000065970	ENST00000162391	protein_coding	KNOWN	CCDS8587	24818	1725	574	8185299	8208099	1	None	FHX
12	FOXJ2	ENSG00000065970	ENST00000428177	protein_coding	KNOWN	None	24818	1581	526	8185956	8202818	1	None	FHX
12	FOXJ2	ENSG00000065970	ENST00000539192	processed_transcript	KNOWN	None	24818	None	None	8202564	8205609	1	None	FHX
X	TMLHE-AS1	ENSG00000224533	ENST00000433624	antisense	KNOWN	None	44261	None	None	154696201	154723771	1	None	None
X	TMLHE-AS1	ENSG00000224533	ENST00000452506	antisense	KNOWN	None	44261	None	None	154718984	154841277	1	None	None
X	TMLHE-AS1	ENSG00000224533	ENST00000541151	antisense	KNOWN	None	44261	None	None	154695631	154697321	1	None	None
9	TAL2	ENSG00000186051	ENST00000334077	protein_coding	KNOWN	CCDS6767	11557	327	108	108424738	108425367	1	None	bHLHa19
4	SRD5A3-AS1	ENSG00000249700	ENST00000433175	antisense	KNOWN	None	44138	None	None	56230138	56249563	-1	None	None
4	SRD5A3-AS1	ENSG00000249700	ENST00000510637	antisense	KNOWN	None	44138	None	None	56232768	56251747	-1	None	None
4	SRD5A3-AS1	ENSG00000249700	ENST00000596312	antisense	KNOWN	None	44138	None	None	56233121	56248060	-1	None	None
4	SRD5A3-AS1	ENSG00000249700	ENST00000598906	antisense	KNOWN	None	44138	None	None	56233121	56250049	-1	None	None
4	SRD5A3-AS1	ENSG00000249700	ENST00000596289	antisense	KNOWN	None	44138	None	None	56233121	56251467	-1	None	None
4	SRD5A3-AS1	ENSG00000249700	ENST00000595103	antisense	KNOWN	None	44138	None	None	56233121	56251792	-1	None	None
4	SRD5A3-AS1	ENSG00000249700	ENST00000595734	antisense	KNOWN	None	44138	None	None	56233121	56251833	-1	None	None
4	SRD5A3-AS1	ENSG00000249700	ENST00000592823	antisense	KNOWN	None	44138	None	None	56241042	56262009	-1	None	None
4	SRD5A3-AS1	ENSG00000249700	ENST00000591915	antisense	KNOWN	None	44138	None	None	56243774	56253610	-1	None	None
4	SRD5A3-AS1	ENSG00000249700	ENST00000599135	antisense	KNOWN	None	44138	None	None	56243774	56262009	-1	None	None
4	SRD5A3-AS1	ENSG00000249700	ENST00000601433	antisense	KNOWN	None	44138	None	None	56248705	56262004	-1	None	None
4	SRD5A3-AS1	ENSG00000249700	ENST00000598819	antisense	KNOWN	None	44138	None	None	56253488	56261997	-1	None	None
7	None	ENSG00000234700	ENST00000416914	unprocessed_pseudogene	KNOWN	None	None	None	None	63569003	63570525	-1	None	None
HSCHR6_MHC_QBL	BAG6	ENSG00000096155	ENST00000490515	processed_transcript	PUTATIVE	None	13919	None	None	31597040	31597805	-1	BAT3	G3, D6S52E
HSCHR6_MHC_QBL	BAG6	ENSG00000096155	ENST00000496618	processed_transcript	PUTATIVE	None	13919	None	None	31597040	31598556	-1	BAT3	G3, D6S52E
HSCHR6_MHC_QBL	BAG6	ENSG00000096155	ENST00000458596	protein_coding	KNOWN	None	13919	410	135	31597040	31598954	-1	BAT3	G3, D6S52E
HSCHR6_MHC_QBL	BAG6	ENSG00000096155	ENST00000437959	protein_coding	KNOWN	None	13919	680	225	31597040	31599245	-1	BAT3	G3, D6S52E
HSCHR6_MHC_QBL	BAG6	ENSG00000096155	ENST00000383446	protein_coding	KNOWN	None	13919	3381	1126	31597040	31610411	-1	BAT3	G3, D6S52E
HSCHR6_MHC_QBL	BAG6	ENSG00000096155	ENST00000361076	protein_coding	KNOWN	None	13919	3399	1132	31597040	31610653	-1	BAT3	G3, D6S52E
HSCHR6_MHC_QBL	BAG6	ENSG00000096155	ENST00000383448	protein_coding	KNOWN	None	13919	3381	1126	31597040	31610723	-1	BAT3	G3, D6S52E
HSCHR6_MHC_QBL	BAG6	ENSG00000096155	ENST00000498760	retained_intron	KNOWN	None	13919	None	None	31598842	31600162	-1	BAT3	G3, D6S52E
HSCHR6_MHC_QBL	BAG6	ENSG00000096155	ENST00000471376	processed_transcript	PUTATIVE	None	13919	None	None	31599865	31602336	-1	BAT3	G3, D6S52E
HSCHR6_MHC_QBL	BAG6	ENSG00000096155	ENST00000418840	protein_coding	KNOWN	None	13919	2228	741	31600236	31610696	-1	BAT3	G3, D6S52E
HSCHR6_MHC_QBL	BAG6	ENSG00000096155	ENST00000478533	processed_transcript	PUTATIVE	None	13919	None	None	31600701	31602220	-1	BAT3	G3, D6S52E
HSCHR6_MHC_QBL	BAG6	ENSG00000096155	ENST00000417468	protein_coding	KNOWN	None	13919	714	237	31600849	31603089	-1	BAT3	G3, D6S52E
HSCHR6_MHC_QBL	BAG6	ENSG00000096155	ENST00000453241	protein_coding	KNOWN	None	13919	736	244	31600887	31603510	-1	BAT3	G3, D6S52E
HSCHR6_MHC_QBL	BAG6	ENSG00000096155	ENST00000482329	processed_transcript	KNOWN	None	13919	None	None	31600976	31603581	-1	BAT3	G3, D6S52E
HSCHR6_MHC_QBL	BAG6	ENSG00000096155	ENST00000431516	protein_coding	KNOWN	None	13919	554	183	31601130	31603523	-1	BAT3	G3, D6S52E
HSCHR6_MHC_QBL	BAG6	ENSG00000096155	ENST00000432539	protein_coding	KNOWN	None	13919	1545	514	31602337	31610375	-1	BAT3	G3, D6S52E
HSCHR6_MHC_QBL	BAG6	ENSG00000096155	ENST00000476290	processed_transcript	KNOWN	None	13919	None	None	31602514	31603205	-1	BAT3	G3, D6S52E
HSCHR6_MHC_QBL	BAG6	ENSG00000096155	ENST00000451534	protein_coding	KNOWN	None	13919	734	243	31605610	31609930	-1	BAT3	G3, D6S52E
HSCHR6_MHC_QBL	BAG6	ENSG00000096155	ENST00000415034	protein_coding	KNOWN	None	13919	788	261	31605610	31610168	-1	BAT3	G3, D6S52E
HSCHR6_MHC_QBL	BAG6	ENSG00000096155	ENST00000431049	protein_coding	KNOWN	None	13919	734	243	31605610	31610368	-1	BAT3	G3, D6S52E
HSCHR6_MHC_QBL	BAG6	ENSG00000096155	ENST00000412992	protein_coding	KNOWN	None	13919	786	261	31605612	31610163	-1	BAT3	G3, D6S52E
HSCHR6_MHC_QBL	BAG6	ENSG00000096155	ENST00000417419	protein_coding	KNOWN	None	13919	731	242	31605613	31610666	-1	BAT3	G3, D6S52E
HSCHR6_MHC_QBL	BAG6	ENSG00000096155	ENST00000446325	protein_coding	KNOWN	None	13919	779	258	31605619	31609985	-1	BAT3	G3, D6S52E
HSCHR6_MHC_QBL	BAG6	ENSG00000096155	ENST00000436807	protein_coding	KNOWN	None	13919	775	257	31605623	31610685	-1	BAT3	G3, D6S52E
HSCHR6_MHC_QBL	BAG6	ENSG00000096155	ENST00000414208	protein_coding	KNOWN	None	13919	645	214	31605699	31610333	-1	BAT3	G3, D6S52E
HSCHR6_MHC_QBL	BAG6	ENSG00000096155	ENST00000421991	protein_coding	KNOWN	None	13919	698	231	31605718	31610663	-1	BAT3	G3, D6S52E
HSCHR6_MHC_QBL	BAG6	ENSG00000096155	ENST00000455409	protein_coding	KNOWN	None	13919	619	205	31605725	31610463	-1	BAT3	G3, D6S52E
HSCHR6_MHC_QBL	BAG6	ENSG00000096155	ENST00000424003	protein_coding	KNOWN	None	13919	591	196	31605807	31609989	-1	BAT3	G3, D6S52E
HSCHR6_MHC_QBL	BAG6	ENSG00000096155	ENST00000483008	processed_transcript	PUTATIVE	None	13919	None	None	31606748	31610332	-1	BAT3	G3, D6S52E
HSCHR6_MHC_QBL	BAG6	ENSG00000096155	ENST00000442112	protein_coding	KNOWN	None	13919	476	157	31606932	31610125	-1	BAT3	G3, D6S52E
HSCHR6_MHC_QBL	BAG6	ENSG00000096155	ENST00000474730	processed_transcript	PUTATIVE	None	13919	None	None	31607250	31610656	-1	BAT3	G3, D6S52E
HSCHR6_MHC_QBL	BAG6	ENSG00000096155	ENST00000552605	protein_coding	KNOWN	None	13919	3489	1162	31597041	31610718	-1	BAT3	G3, D6S52E
22	NF1P6	ENSG00000224435	ENST00000426025	unprocessed_pseudogene	KNOWN	None	7771	None	None	16345912	16355362	1	NF1L6	Em:AP000532.C22.1
X	None	ENSG00000224539	ENST00000442271	unprocessed_pseudogene	KNOWN	None	None	None	None	134732852	134749356	1	None	None
17	TMUB2	ENSG00000168591	ENST00000446571	protein_coding	NOVEL	None	28459	795	264	42264338	42268594	1	None	MGC3123
17	TMUB2	ENSG00000168591	ENST00000538716	protein_coding	KNOWN	CCDS54134	28459	966	321	42264358	42269066	1	None	MGC3123
17	TMUB2	ENSG00000168591	ENST00000587989	protein_coding	KNOWN	CCDS54134	28459	966	321	42264417	42269082	1	None	MGC3123
17	TMUB2	ENSG00000168591	ENST00000590235	protein_coding	PUTATIVE	None	28459	285	94	42264418	42269099	1	None	MGC3123
17	TMUB2	ENSG00000168591	ENST00000319511	protein_coding	KNOWN	CCDS11479	28459	906	301	42264574	42269094	1	None	MGC3123
17	TMUB2	ENSG00000168591	ENST00000588413	nonsense_mediated_decay	KNOWN	None	28459	186	61	42264602	42268089	1	None	MGC3123
17	TMUB2	ENSG00000168591	ENST00000589785	protein_coding	KNOWN	CCDS11479	28459	906	301	42264630	42269080	1	None	MGC3123
17	TMUB2	ENSG00000168591	ENST00000592825	protein_coding	PUTATIVE	None	28459	285	94	42264640	42269079	1	None	MGC3123
17	TMUB2	ENSG00000168591	ENST00000589184	protein_coding	PUTATIVE	None	28459	228	75	42264643	42269079	1	None	MGC3123
17	TMUB2	ENSG00000168591	ENST00000589856	protein_coding	PUTATIVE	None	28459	546	181	42265022	42267717	1	None	MGC3123
17	TMUB2	ENSG00000168591	ENST00000587775	nonsense_mediated_decay	KNOWN	None	28459	186	61	42265300	42267921	1	None	MGC3123
17	TMUB2	ENSG00000168591	ENST00000587326	nonsense_mediated_decay	KNOWN	None	28459	294	97	42266219	42269093	1	None	MGC3123
17	TMUB2	ENSG00000168591	ENST00000587172	protein_coding	PUTATIVE	None	28459	285	94	42266301	42269099	1	None	MGC3123
17	TMUB2	ENSG00000168591	ENST00000587630	protein_coding	KNOWN	None	28459	583	193	42266738	42269059	1	None	MGC3123
17	TMUB2	ENSG00000168591	ENST00000357984	protein_coding	KNOWN	CCDS11479	28459	906	301	42264354	42269098	1	None	MGC3123
HSCHR6_MHC_MCF	None	ENSG00000234032	ENST00000493326	retained_intron	KNOWN	None	None	None	None	30954577	30972803	1	None	None
HSCHR6_MHC_MCF	None	ENSG00000234032	ENST00000450090	protein_coding	KNOWN	None	None	3192	1063	30960540	30972803	1	None	None
HSCHR6_MHC_MCF	None	ENSG00000234032	ENST00000446577	protein_coding	KNOWN	None	None	978	325	30960587	30964125	1	None	None
HSCHR6_MHC_MCF	None	ENSG00000234032	ENST00000494657	processed_transcript	KNOWN	None	None	None	None	30960601	30964132	1	None	None
HSCHR6_MHC_MCF	None	ENSG00000234032	ENST00000414570	protein_coding	KNOWN	None	None	345	114	30960717	30961751	1	None	None
HSCHR6_MHC_MCF	None	ENSG00000234032	ENST00000484577	retained_intron	KNOWN	None	None	None	None	30962755	30964087	1	None	None
HSCHR6_MHC_MCF	None	ENSG00000234032	ENST00000495393	retained_intron	KNOWN	None	None	None	None	30965086	30972803	1	None	None
HSCHR6_MHC_MCF	None	ENSG00000234032	ENST00000475174	processed_transcript	KNOWN	None	None	None	None	30966148	30972803	1	None	None
HSCHR6_MHC_MCF	None	ENSG00000234032	ENST00000481398	processed_transcript	KNOWN	None	None	None	None	30968469	30972018	1	None	None
HSCHR6_MHC_MCF	None	ENSG00000234032	ENST00000479526	retained_intron	KNOWN	None	None	None	None	30968922	30969844	1	None	None
HSCHR6_MHC_MCF	None	ENSG00000234032	ENST00000469818	retained_intron	KNOWN	None	None	None	None	30969547	30972803	1	None	None
HSCHR6_MHC_MCF	None	ENSG00000234032	ENST00000549458	protein_coding	KNOWN	None	None	3282	1093	30960666	30972800	1	None	None
HSCHR6_MHC_MCF	None	ENSG00000234032	ENST00000547340	protein_coding	KNOWN	None	None	2772	923	30960540	30972800	1	None	None
HG536_PATCH	ANO1-AS2	ENSG00000260606	ENST00000566923	antisense	KNOWN	None	33275	None	None	69887202	69890201	-1	C11orf78, NCRNA00224	None
HG536_PATCH	ANO1-AS2	ENSG00000260606	ENST00000569231	antisense	KNOWN	None	33275	None	None	69887508	69890116	-1	C11orf78, NCRNA00224	None
1	CYR61	ENSG00000142871	ENST00000451137	protein_coding	KNOWN	CCDS706	2654	1146	381	86046444	86049645	1	IGFBP10	GIG1, CCN1
1	CYR61	ENSG00000142871	ENST00000480413	processed_transcript	KNOWN	None	2654	None	None	86046883	86047782	1	IGFBP10	GIG1, CCN1
14	MIR136	ENSG00000207942	ENST00000385207	miRNA	KNOWN	None	31522	None	None	101351034	101351125	1	MIRN136	hsa-mir-136
8	None	ENSG00000243171	ENST00000485656	processed_pseudogene	KNOWN	None	None	None	None	106300058	106300593	-1	None	None
19	MRPL34	ENSG00000130312	ENST00000595444	protein_coding	PUTATIVE	None	14488	555	184	17403418	17417464	1	None	L34mt, MGC2633, MGC24974
19	MRPL34	ENSG00000130312	ENST00000600434	protein_coding	KNOWN	CCDS12356	14488	279	92	17403442	17417352	1	None	L34mt, MGC2633, MGC24974
19	MRPL34	ENSG00000130312	ENST00000597996	processed_transcript	PUTATIVE	None	14488	None	None	17408554	17409239	1	None	L34mt, MGC2633, MGC24974
19	MRPL34	ENSG00000130312	ENST00000594999	protein_coding	KNOWN	CCDS12356	14488	279	92	17413676	17417334	1	None	L34mt, MGC2633, MGC24974
19	MRPL34	ENSG00000130312	ENST00000252602	protein_coding	KNOWN	CCDS12356	14488	279	92	17416477	17417652	1	None	L34mt, MGC2633, MGC24974
19	MRPL34	ENSG00000130312	ENST00000602206	protein_coding	PUTATIVE	None	14488	111	36	17416681	17417591	1	None	L34mt, MGC2633, MGC24974
3	None	ENSG00000265376	ENST00000580653	miRNA	KNOWN	None	None	None	None	31203196	31203279	-1	None	None
15	None	ENSG00000261775	ENST00000562869	lincRNA	KNOWN	None	None	None	None	74781943	74809300	1	None	None
20	RNA5SP487	ENSG00000222118	ENST00000410186	rRNA	KNOWN	None	43387	None	None	54780108	54780229	-1	RN5S487	None
3	None	ENSG00000244009	ENST00000471720	processed_pseudogene	KNOWN	None	None	None	None	160170386	160171191	1	None	None
8	RNA5SP269	ENSG00000239184	ENST00000459032	rRNA	KNOWN	None	43169	None	None	69607878	69608014	1	RN5S269	None
8	None	ENSG00000253420	ENST00000520588	antisense	KNOWN	None	None	None	None	106674580	106697993	-1	None	None
12	None	ENSG00000256164	ENST00000539135	antisense	KNOWN	None	None	None	None	4357931	4385350	-1	None	None
8	None	ENSG00000260588	ENST00000563810	lincRNA	KNOWN	None	None	None	None	41685683	41687452	-1	None	None
8	None	ENSG00000254337	ENST00000522354	lincRNA	KNOWN	None	None	None	None	69760977	69764998	-1	None	None
12	RN7SL630P	ENSG00000264978	ENST00000483714	misc_RNA	KNOWN	None	46646	None	None	94224852	94225146	1	None	None
8	None	ENSG00000253358	ENST00000517920	antisense	KNOWN	None	None	None	None	92028816	92030883	1	None	None
11	None	ENSG00000271369	ENST00000605070	processed_pseudogene	KNOWN	None	None	None	None	34731147	34731708	1	None	None
12	RPS4XP15	ENSG00000240721	ENST00000489210	processed_pseudogene	KNOWN	None	36308	None	None	88338662	88344596	1	RPS4P15	None
8	None	ENSG00000254141	ENST00000519805	sense_intronic	KNOWN	None	None	None	None	106682219	106691259	1	None	None
8	None	ENSG00000215945	ENST00000401126	miRNA	NOVEL	None	None	None	None	21013642	21013744	1	None	None
14	IGHVII-49-1	ENSG00000253386	ENST00000521760	IG_V_pseudogene	KNOWN	None	5683	None	None	107020363	107020586	-1	None	IGHV(II)-49-1
3	CNN2P6	ENSG00000213854	ENST00000439038	processed_pseudogene	KNOWN	None	39531	None	None	31223243	31224142	-1	None	None
12	None	ENSG00000258303	ENST00000551257	processed_transcript	PUTATIVE	None	None	None	None	94229943	94231814	1	None	None
14	None	ENSG00000270062	ENST00000602615	sense_intronic	KNOWN	None	None	None	None	51190495	51190990	-1	None	None
20	None	ENSG00000235594	ENST00000458731	processed_pseudogene	KNOWN	None	None	None	None	54842928	54844287	1	None	None
1	None	ENSG00000231702	ENST00000423619	processed_pseudogene	KNOWN	None	None	None	None	943456	943609	-1	None	None
12	None	ENSG00000255920	ENST00000537370	antisense	KNOWN	None	None	None	None	4361901	4384231	-1	None	None
14	None	ENSG00000258646	ENST00000554430	antisense	KNOWN	None	None	None	None	75471422	75475184	-1	None	None
11	MOB2	ENSG00000182208	ENST00000531976	retained_intron	KNOWN	None	24904	None	None	1490687	1494666	-1	None	HCCA2
11	MOB2	ENSG00000182208	ENST00000329957	protein_coding	NOVEL	CCDS53591	24904	807	268	1491192	1507976	-1	None	HCCA2
11	MOB2	ENSG00000182208	ENST00000526462	processed_transcript	KNOWN	None	24904	None	None	1491475	1522477	-1	None	HCCA2
11	MOB2	ENSG00000182208	ENST00000526698	retained_intron	KNOWN	None	24904	None	None	1492535	1502115	-1	None	HCCA2
11	MOB2	ENSG00000182208	ENST00000529380	retained_intron	KNOWN	None	24904	None	None	1501809	1522477	-1	None	HCCA2
11	MOB2	ENSG00000182208	ENST00000529897	retained_intron	KNOWN	None	24904	None	None	1501895	1502815	-1	None	HCCA2
8	None	ENSG00000254219	ENST00000519498	antisense	KNOWN	None	None	None	None	92054918	92056990	-1	None	None
8	None	ENSG00000254219	ENST00000517410	retained_intron	KNOWN	None	None	None	None	92055696	92056961	-1	None	None
Y	TSPY2	ENSG00000168757	ENST00000320701	protein_coding	KNOWN	CCDS35465	23924	927	308	6114264	6117054	1	None	TSPYQ1
Y	TSPY2	ENSG00000168757	ENST00000383042	protein_coding	NOVEL	None	23924	885	294	6114310	6117053	1	None	TSPYQ1
Y	TSPY2	ENSG00000168757	ENST00000470569	retained_intron	KNOWN	None	23924	None	None	6114310	6117060	1	None	TSPYQ1
Y	TSPY2	ENSG00000168757	ENST00000464674	retained_intron	KNOWN	None	23924	None	None	6115664	6117045	1	None	TSPYQ1
3	None	ENSG00000199546	ENST00000362676	misc_RNA	NOVEL	None	None	None	None	49307565	49307672	1	None	None
15	RPL9P9	ENSG00000237550	ENST00000466501	processed_pseudogene	KNOWN	None	17251	None	None	82664514	82665092	-1	None	None
15	RPL9P9	ENSG00000237550	ENST00000393394	processed_pseudogene	KNOWN	None	17251	None	None	82664459	82748784	-1	None	None
11	TMEM126A	ENSG00000171202	ENST00000525353	nonsense_mediated_decay	KNOWN	None	25382	120	39	85359011	85367553	1	None	DKFZp586C1924, OPA7
11	TMEM126A	ENSG00000171202	ENST00000528105	protein_coding	PUTATIVE	CCDS58165	25382	378	125	85359021	85367586	1	None	DKFZp586C1924, OPA7
11	TMEM126A	ENSG00000171202	ENST00000531366	nonsense_mediated_decay	KNOWN	None	25382	288	95	85359031	85367591	1	None	DKFZp586C1924, OPA7
11	TMEM126A	ENSG00000171202	ENST00000304511	protein_coding	KNOWN	CCDS8268	25382	588	195	85359032	85367587	1	None	DKFZp586C1924, OPA7
11	TMEM126A	ENSG00000171202	ENST00000532180	protein_coding	PUTATIVE	CCDS58165	25382	378	125	85359065	85367587	1	None	DKFZp586C1924, OPA7
11	TMEM126A	ENSG00000171202	ENST00000528531	retained_intron	KNOWN	None	25382	None	None	85366453	85367510	1	None	DKFZp586C1924, OPA7
3	RNU6-739P	ENSG00000212340	ENST00000391038	snRNA	KNOWN	None	47702	None	None	64497431	64497533	1	None	None
11	None	ENSG00000270491	ENST00000604513	processed_pseudogene	KNOWN	None	None	None	None	34764453	34764746	1	None	None
8	None	ENSG00000254334	ENST00000522755	lincRNA	KNOWN	None	None	None	None	21155717	21165685	1	None	None
8	None	ENSG00000254334	ENST00000519996	lincRNA	KNOWN	None	None	None	None	21155750	21166960	1	None	None
12	R3HDM2	ENSG00000179912	ENST00000393811	protein_coding	KNOWN	None	29167	2112	703	57647547	57690816	-1	None	KIAA1002
12	R3HDM2	ENSG00000179912	ENST00000347140	protein_coding	KNOWN	CCDS8937	29167	2931	976	57647547	57824788	-1	None	KIAA1002
12	R3HDM2	ENSG00000179912	ENST00000402412	protein_coding	NOVEL	None	29167	2973	990	57647548	57824788	-1	None	KIAA1002
12	R3HDM2	ENSG00000179912	ENST00000429355	protein_coding	NOVEL	None	29167	2226	741	57648516	57689262	-1	None	KIAA1002
12	R3HDM2	ENSG00000179912	ENST00000403821	protein_coding	NOVEL	None	29167	3033	1010	57648539	57735265	-1	None	KIAA1002
12	R3HDM2	ENSG00000179912	ENST00000548161	protein_coding	NOVEL	None	29167	802	266	57649797	57662240	-1	None	KIAA1002
12	R3HDM2	ENSG00000179912	ENST00000546843	processed_transcript	KNOWN	None	29167	None	None	57651863	57662360	-1	None	KIAA1002
12	R3HDM2	ENSG00000179912	ENST00000466401	processed_transcript	KNOWN	None	29167	None	None	57661068	57674235	-1	None	KIAA1002
12	R3HDM2	ENSG00000179912	ENST00000547262	protein_coding	NOVEL	None	29167	840	279	57674213	57693219	-1	None	KIAA1002
12	R3HDM2	ENSG00000179912	ENST00000547019	retained_intron	KNOWN	None	29167	None	None	57674244	57689377	-1	None	KIAA1002
12	R3HDM2	ENSG00000179912	ENST00000552428	processed_transcript	KNOWN	None	29167	None	None	57691546	57693964	-1	None	KIAA1002
12	R3HDM2	ENSG00000179912	ENST00000551465	retained_intron	KNOWN	None	29167	None	None	57691787	57704234	-1	None	KIAA1002
12	R3HDM2	ENSG00000179912	ENST00000448732	protein_coding	KNOWN	None	29167	89	28	57704123	57824573	-1	None	KIAA1002
12	R3HDM2	ENSG00000179912	ENST00000413953	protein_coding	KNOWN	None	29167	1791	596	57643392	57690267	-1	None	KIAA1002
12	R3HDM2	ENSG00000179912	ENST00000358907	protein_coding	KNOWN	CCDS8937	29167	2931	976	57647548	57704246	-1	None	KIAA1002
12	R3HDM2	ENSG00000179912	ENST00000441731	protein_coding	KNOWN	None	29167	2016	671	57648508	57677777	-1	None	KIAA1002
3	RNU7-136P	ENSG00000238427	ENST00000458819	snRNA	KNOWN	None	45670	None	None	160190136	160190204	-1	None	None
18	None	ENSG00000267746	ENST00000587528	antisense	KNOWN	None	None	None	None	31802929	31804725	1	None	None
3	MIR4271	ENSG00000264633	ENST00000582451	miRNA	KNOWN	None	38332	None	None	49311553	49311619	1	None	hsa-mir-4271
14	MEG8	ENSG00000258399	ENST00000553584	lincRNA	KNOWN	None	14574	None	None	101361107	101373305	1	None	NCRNA00024, Irm, Rian, Bsr, LINC00024
14	MEG8	ENSG00000258399	ENST00000554852	lincRNA	KNOWN	None	14574	None	None	101361226	101373343	1	None	NCRNA00024, Irm, Rian, Bsr, LINC00024
14	MEG8	ENSG00000258399	ENST00000553465	lincRNA	KNOWN	None	14574	None	None	101364286	101394952	1	None	NCRNA00024, Irm, Rian, Bsr, LINC00024
14	MEG8	ENSG00000258399	ENST00000554323	lincRNA	KNOWN	None	14574	None	None	101372381	101373438	1	None	NCRNA00024, Irm, Rian, Bsr, LINC00024
14	MEG8	ENSG00000258399	ENST00000556475	lincRNA	KNOWN	None	14574	None	None	101373380	101402336	1	None	NCRNA00024, Irm, Rian, Bsr, LINC00024
14	MEG8	ENSG00000258399	ENST00000553421	lincRNA	KNOWN	None	14574	None	None	101379721	101381309	1	None	NCRNA00024, Irm, Rian, Bsr, LINC00024
14	MEG8	ENSG00000258399	ENST00000458974	snoRNA	KNOWN	None	14574	None	None	101364257	101364333	1	None	NCRNA00024, Irm, Rian, Bsr, LINC00024
3	CLRN1	ENSG00000163646	ENST00000295911	protein_coding	KNOWN	CCDS35492	12605	363	120	150643950	150662023	-1	USH3, USH3A	None
3	CLRN1	ENSG00000163646	ENST00000327047	protein_coding	KNOWN	CCDS3153	12605	699	232	150644354	150690786	-1	USH3, USH3A	None
3	CLRN1	ENSG00000163646	ENST00000468836	protein_coding	KNOWN	None	12605	346	114	150645848	150690471	-1	USH3, USH3A	None
3	CLRN1	ENSG00000163646	ENST00000485607	protein_coding	PUTATIVE	None	12605	118	38	150645968	150662023	-1	USH3, USH3A	None
3	CLRN1	ENSG00000163646	ENST00000472224	retained_intron	KNOWN	None	12605	None	None	150659202	150690501	-1	USH3, USH3A	None
3	CLRN1	ENSG00000163646	ENST00000328863	protein_coding	KNOWN	CCDS56285	12605	738	245	150645723	150690495	-1	USH3, USH3A	None
8	RN7SL149P	ENSG00000241834	ENST00000465197	misc_RNA	KNOWN	None	46165	None	None	41697580	41697857	-1	None	None
19	None	ENSG00000268731	ENST00000597319	processed_pseudogene	KNOWN	None	None	None	None	21564022	21564723	-1	None	None
19	None	ENSG00000267776	ENST00000591836	sense_intronic	KNOWN	None	None	None	None	56888073	56888653	-1	None	None
17	ABCC3	ENSG00000108846	ENST00000515707	protein_coding	PUTATIVE	None	54	231	76	48712138	48713276	1	None	MRP3, cMOAT2, EST90757, MLP2, MOAT-D
17	ABCC3	ENSG00000108846	ENST00000513511	nonsense_mediated_decay	KNOWN	None	54	132	43	48712175	48736729	1	None	MRP3, cMOAT2, EST90757, MLP2, MOAT-D
17	ABCC3	ENSG00000108846	ENST00000427699	protein_coding	KNOWN	CCDS45739	54	1719	572	48712218	48745284	1	None	MRP3, cMOAT2, EST90757, MLP2, MOAT-D
17	ABCC3	ENSG00000108846	ENST00000285238	protein_coding	KNOWN	CCDS32681	54	4584	1527	48712218	48769613	1	None	MRP3, cMOAT2, EST90757, MLP2, MOAT-D
17	ABCC3	ENSG00000108846	ENST00000502426	nonsense_mediated_decay	KNOWN	None	54	1533	510	48712262	48769063	1	None	MRP3, cMOAT2, EST90757, MLP2, MOAT-D
17	ABCC3	ENSG00000108846	ENST00000505699	nonsense_mediated_decay	KNOWN	None	54	3717	1238	48712262	48769063	1	None	MRP3, cMOAT2, EST90757, MLP2, MOAT-D
17	ABCC3	ENSG00000108846	ENST00000515585	nonsense_mediated_decay	KNOWN	None	54	131	42	48735504	48741216	1	None	MRP3, cMOAT2, EST90757, MLP2, MOAT-D
17	ABCC3	ENSG00000108846	ENST00000513589	processed_transcript	KNOWN	None	54	None	None	48739513	48744955	1	None	MRP3, cMOAT2, EST90757, MLP2, MOAT-D
17	ABCC3	ENSG00000108846	ENST00000571855	retained_intron	KNOWN	None	54	None	None	48740521	48742082	1	None	MRP3, cMOAT2, EST90757, MLP2, MOAT-D
17	ABCC3	ENSG00000108846	ENST00000515070	retained_intron	KNOWN	None	54	None	None	48741104	48741714	1	None	MRP3, cMOAT2, EST90757, MLP2, MOAT-D
17	ABCC3	ENSG00000108846	ENST00000503304	processed_transcript	KNOWN	None	54	None	None	48745791	48750481	1	None	MRP3, cMOAT2, EST90757, MLP2, MOAT-D
17	ABCC3	ENSG00000108846	ENST00000510633	nonsense_mediated_decay	KNOWN	None	54	171	56	48750333	48753451	1	None	MRP3, cMOAT2, EST90757, MLP2, MOAT-D
17	ABCC3	ENSG00000108846	ENST00000506464	processed_transcript	KNOWN	None	54	None	None	48750386	48753135	1	None	MRP3, cMOAT2, EST90757, MLP2, MOAT-D
17	ABCC3	ENSG00000108846	ENST00000513745	protein_coding	NOVEL	None	54	898	298	48750976	48755463	1	None	MRP3, cMOAT2, EST90757, MLP2, MOAT-D
17	ABCC3	ENSG00000108846	ENST00000510891	processed_transcript	KNOWN	None	54	None	None	48751577	48753650	1	None	MRP3, cMOAT2, EST90757, MLP2, MOAT-D
17	ABCC3	ENSG00000108846	ENST00000503337	retained_intron	KNOWN	None	54	None	None	48756260	48769060	1	None	MRP3, cMOAT2, EST90757, MLP2, MOAT-D
17	ABCC3	ENSG00000108846	ENST00000508929	retained_intron	KNOWN	None	54	None	None	48764670	48768605	1	None	MRP3, cMOAT2, EST90757, MLP2, MOAT-D
17	ABCC3	ENSG00000108846	ENST00000504586	retained_intron	KNOWN	None	54	None	None	48764774	48765836	1	None	MRP3, cMOAT2, EST90757, MLP2, MOAT-D
3	RNA5SP127	ENSG00000222983	ENST00000411051	rRNA	KNOWN	None	43027	None	None	31270207	31270339	1	RN5S127	None
3	SCARNA7	ENSG00000238741	ENST00000458797	snoRNA	KNOWN	None	32563	None	None	160232695	160233024	-1	None	U90
8	None	ENSG00000256905	ENST00000544355	pseudogene	NOVEL	None	None	None	None	41818758	41820184	-1	None	None
7	None	ENSG00000231980	ENST00000436489	antisense	KNOWN	None	None	None	None	157820065	157823820	1	None	None
19	None	ENSG00000267459	ENST00000590141	transcribed_processed_pseudogene	KNOWN	None	None	None	None	56888406	56889161	-1	None	None
12	None	ENSG00000257283	ENST00000550687	antisense	KNOWN	None	None	None	None	94288741	94337379	-1	None	None
18	None	ENSG00000267585	ENST00000586960	processed_pseudogene	KNOWN	None	None	None	None	32153951	32154487	-1	None	None
11	None	ENSG00000250041	ENST00000503469	lincRNA	KNOWN	None	None	None	None	10906432	10920869	-1	None	None
11	None	ENSG00000250041	ENST00000533941	lincRNA	KNOWN	None	None	None	None	10918050	10920719	-1	None	None
12	None	ENSG00000213970	ENST00000493323	processed_pseudogene	KNOWN	None	None	None	None	4433538	4433977	-1	None	None
19	None	ENSG00000267303	ENST00000586529	nonsense_mediated_decay	KNOWN	None	None	474	157	10426147	10431354	-1	None	None
19	SLC25A36P1	ENSG00000267781	ENST00000590111	processed_pseudogene	KNOWN	None	48935	None	None	56897595	56898059	1	None	None
14	RNU6-689P	ENSG00000206924	ENST00000384197	snRNA	KNOWN	None	47652	None	None	75487464	75487570	1	None	None
3	KRT8P12	ENSG00000229320	ENST00000468527	processed_transcript	PUTATIVE	None	28057	None	None	160283235	160285987	1	KRT8L2	None
3	KRT8P12	ENSG00000229320	ENST00000472924	transcribed_processed_pseudogene	KNOWN	None	28057	None	None	160285640	160287036	1	KRT8L2	None
18	None	ENSG00000268873	ENST00000596954	antisense	KNOWN	None	None	None	None	32317759	32347627	-1	None	None
HG186_PATCH	DOCK3	ENSG00000260587	ENST00000564093	protein_coding	KNOWN	None	2989	6093	2030	50712672	51421329	1	None	KIAA0299, MOCA, PBP
12	EIF2B1	ENSG00000111361	ENST00000424014	protein_coding	KNOWN	CCDS31924	3257	918	305	124104953	124118313	-1	EIF2B	EIF-2Balpha, EIF-2B, EIF2BA
12	EIF2B1	ENSG00000111361	ENST00000539951	protein_coding	PUTATIVE	None	3257	609	202	124106285	124116994	-1	EIF2B	EIF-2Balpha, EIF-2B, EIF2BA
12	EIF2B1	ENSG00000111361	ENST00000534960	protein_coding	PUTATIVE	None	3257	458	151	124107183	124118151	-1	EIF2B	EIF-2Balpha, EIF-2B, EIF2BA
12	EIF2B1	ENSG00000111361	ENST00000537073	protein_coding	PUTATIVE	None	3257	669	222	124110514	124118313	-1	EIF2B	EIF-2Balpha, EIF-2B, EIF2BA
12	EIF2B1	ENSG00000111361	ENST00000452159	retained_intron	KNOWN	None	3257	None	None	124114594	124118235	-1	EIF2B	EIF-2Balpha, EIF-2B, EIF2BA
12	EIF2B1	ENSG00000111361	ENST00000543940	processed_transcript	KNOWN	None	3257	None	None	124114781	124118204	-1	EIF2B	EIF-2Balpha, EIF-2B, EIF2BA
8	None	ENSG00000238966	ENST00000459551	snoRNA	NOVEL	None	None	None	None	41901022	41901093	-1	None	None
3	ADAMTS9-AS1	ENSG00000241158	ENST00000480831	antisense	KNOWN	None	40625	None	None	64547014	64549001	1	None	None
3	ADAMTS9-AS1	ENSG00000241158	ENST00000470447	antisense	KNOWN	None	40625	None	None	64547022	64569416	1	None	None
3	ADAMTS9-AS1	ENSG00000241158	ENST00000492209	antisense	KNOWN	None	40625	None	None	64547311	64554748	1	None	None
3	ADAMTS9-AS1	ENSG00000241158	ENST00000594810	antisense	KNOWN	None	40625	None	None	64547343	64573878	1	None	None
3	ADAMTS9-AS1	ENSG00000241158	ENST00000474313	antisense	KNOWN	None	40625	None	None	64547387	64572995	1	None	None
3	ADAMTS9-AS1	ENSG00000241158	ENST00000493124	antisense	KNOWN	None	40625	None	None	64547406	64569188	1	None	None
3	ADAMTS9-AS1	ENSG00000241158	ENST00000601022	antisense	KNOWN	None	40625	None	None	64547407	64551473	1	None	None
3	ADAMTS9-AS1	ENSG00000241158	ENST00000471990	antisense	KNOWN	None	40625	None	None	64568219	64572573	1	None	None
3	ADAMTS9-AS1	ENSG00000241158	ENST00000597543	antisense	KNOWN	None	40625	None	None	64568219	64572573	1	None	None
3	ADAMTS9-AS1	ENSG00000241158	ENST00000597944	antisense	KNOWN	None	40625	None	None	64568827	64569589	1	None	None
3	ADAMTS9-AS1	ENSG00000241158	ENST00000466225	antisense	KNOWN	None	40625	None	None	64568827	64572897	1	None	None
19	None	ENSG00000267192	ENST00000589671	antisense	KNOWN	None	None	None	None	56898781	56899793	1	None	None
3	RHOA-IT1	ENSG00000235908	ENST00000428083	sense_intronic	KNOWN	None	41308	None	None	49402578	49404439	-1	None	None
15	None	ENSG00000259377	ENST00000558994	sense_intronic	KNOWN	None	None	None	None	52044682	52048672	1	None	None
9	ZNF510	ENSG00000081386	ENST00000375231	protein_coding	KNOWN	CCDS35074	29161	2052	683	99518147	99540338	-1	None	KIAA0972
9	ZNF510	ENSG00000081386	ENST00000472201	processed_transcript	KNOWN	None	29161	None	None	99525229	99525975	-1	None	KIAA0972
9	ZNF510	ENSG00000081386	ENST00000374641	protein_coding	KNOWN	None	29161	403	133	99525349	99540411	-1	None	KIAA0972
9	ZNF510	ENSG00000081386	ENST00000223428	protein_coding	KNOWN	CCDS35074	29161	2052	683	99518147	99540328	-1	None	KIAA0972
7	None	ENSG00000206705	ENST00000383978	misc_RNA	NOVEL	None	None	None	None	135814728	135814829	-1	None	None
2	None	ENSG00000240253	ENST00000447059	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	131447706	131460001	1	None	None
2	None	ENSG00000240253	ENST00000434289	processed_transcript	KNOWN	None	None	None	None	131450855	131453961	1	None	None
2	None	ENSG00000240253	ENST00000425151	processed_transcript	KNOWN	None	None	None	None	131451308	131460046	1	None	None
2	None	ENSG00000240253	ENST00000430837	processed_transcript	KNOWN	None	None	None	None	131451332	131460174	1	None	None
2	None	ENSG00000240253	ENST00000434661	processed_transcript	KNOWN	None	None	None	None	131459890	131476404	1	None	None
14	HIF1AP1	ENSG00000258978	ENST00000553642	processed_pseudogene	KNOWN	None	43016	None	None	75583129	75583303	-1	None	None
5	CBX3P3	ENSG00000250045	ENST00000508108	processed_pseudogene	KNOWN	None	42875	None	None	112113327	112113858	-1	None	None
8	None	ENSG00000243601	ENST00000474907	processed_pseudogene	KNOWN	None	None	None	None	106749508	106749993	-1	None	None
3	NICN1-AS1	ENSG00000235261	ENST00000424915	antisense	KNOWN	None	40838	None	None	49460379	49461864	1	None	None
X	None	ENSG00000225393	ENST00000447347	antisense	KNOWN	None	None	None	None	154697947	154716707	1	None	None
3	None	ENSG00000230111	ENST00000427353	processed_pseudogene	KNOWN	None	None	None	None	31310499	31310898	1	None	None
7	None	ENSG00000220982	ENST00000408055	miRNA	NOVEL	None	None	None	None	135929194	135929282	-1	None	None
15	None	ENSG00000259993	ENST00000569415	processed_pseudogene	KNOWN	None	None	None	None	30515220	30517767	1	None	None
8	None	ENSG00000221589	ENST00000408662	miRNA	NOVEL	None	None	None	None	56589792	56589883	-1	None	None
18	None	ENSG00000221409	ENST00000408482	miRNA	NOVEL	None	None	None	None	32399910	32399995	-1	None	None
5	RNU6-482P	ENSG00000212370	ENST00000391068	snRNA	KNOWN	None	47445	None	None	112114060	112114166	1	None	None
11	MIR1343	ENSG00000251862	ENST00000516053	miRNA	KNOWN	None	41902	None	None	34963384	34963467	1	None	hsa-mir-1343
12	None	ENSG00000271382	ENST00000604017	lincRNA	KNOWN	None	None	None	None	94338817	94341589	1	None	None
7	None	ENSG00000236503	ENST00000426484	processed_pseudogene	KNOWN	None	None	None	None	135947306	135947765	-1	None	None
19	None	ENSG00000213976	ENST00000594254	unprocessed_pseudogene	KNOWN	None	None	None	None	21565667	21569979	1	None	None
19	None	ENSG00000213976	ENST00000433190	pseudogene	KNOWN	None	None	None	None	21566730	21566877	1	None	None
8	RNA5SP265	ENSG00000222955	ENST00000411023	rRNA	KNOWN	None	43165	None	None	56657791	56657901	1	RN5S265	None
8	None	ENSG00000244235	ENST00000490411	processed_pseudogene	KNOWN	None	None	None	None	41958836	41959354	1	None	None
2	None	ENSG00000229689	ENST00000442128	protein_coding	NOVEL	None	None	540	179	96194603	96198143	1	None	None
18	None	ENSG00000268573	ENST00000586922	lincRNA	KNOWN	None	None	None	None	32860831	32870165	-1	None	None
5	XBP1P1	ENSG00000249947	ENST00000436573	processed_pseudogene	KNOWN	None	12802	None	None	112220791	112221442	1	XBP1, XBPP1	None
3	None	ENSG00000238727	ENST00000459297	miRNA	NOVEL	None	None	None	None	31437429	31437523	1	None	None
14	None	ENSG00000258843	ENST00000555966	antisense	KNOWN	None	None	None	None	51288598	51290219	1	None	None
8	None	ENSG00000251003	ENST00000520433	antisense	KNOWN	None	None	None	None	106792474	107072752	-1	None	None
8	None	ENSG00000251003	ENST00000524045	antisense	KNOWN	None	None	None	None	106797033	107072705	-1	None	None
8	None	ENSG00000251003	ENST00000520594	antisense	KNOWN	None	None	None	None	106797232	107072695	-1	None	None
8	None	ENSG00000251003	ENST00000518932	antisense	KNOWN	None	None	None	None	106797283	106924097	-1	None	None
8	None	ENSG00000251003	ENST00000509144	antisense	KNOWN	None	None	None	None	106809168	107072671	-1	None	None
8	None	ENSG00000251003	ENST00000520078	retained_intron	KNOWN	None	None	None	None	106810319	107072689	-1	None	None
8	None	ENSG00000251003	ENST00000521622	antisense	KNOWN	None	None	None	None	106810555	107072719	-1	None	None
15	None	ENSG00000259632	ENST00000560291	processed_pseudogene	KNOWN	None	None	None	None	52151382	52153490	-1	None	None
11	None	ENSG00000254401	ENST00000525758	lincRNA	KNOWN	None	None	None	None	11139401	11205158	1	None	None
1	None	ENSG00000224969	ENST00000458555	antisense	KNOWN	None	None	None	None	947377	948573	-1	None	None
7	MIR595	ENSG00000207637	ENST00000384905	miRNA	KNOWN	None	32851	None	None	158325410	158325505	-1	MIRN595	hsa-mir-595
14	None	ENSG00000259138	ENST00000556236	antisense	KNOWN	None	None	None	None	75593856	75603633	1	None	None
3	PTPN23	ENSG00000076201	ENST00000602307	nonsense_mediated_decay	KNOWN	None	14406	195	64	47422501	47454925	1	None	DKFZP564F0923, KIAA1471, HD-PTP
3	PTPN23	ENSG00000076201	ENST00000456221	protein_coding	PUTATIVE	None	14406	509	168	47422504	47447882	1	None	DKFZP564F0923, KIAA1471, HD-PTP
3	PTPN23	ENSG00000076201	ENST00000265562	protein_coding	KNOWN	CCDS2754	14406	4911	1636	47422510	47454931	1	None	DKFZP564F0923, KIAA1471, HD-PTP
3	PTPN23	ENSG00000076201	ENST00000462998	retained_intron	KNOWN	None	14406	None	None	47422560	47437781	1	None	DKFZP564F0923, KIAA1471, HD-PTP
3	PTPN23	ENSG00000076201	ENST00000477276	retained_intron	KNOWN	None	14406	None	None	47446770	47448240	1	None	DKFZP564F0923, KIAA1471, HD-PTP
3	PTPN23	ENSG00000076201	ENST00000495653	retained_intron	KNOWN	None	14406	None	None	47450788	47451556	1	None	DKFZP564F0923, KIAA1471, HD-PTP
3	PTPN23	ENSG00000076201	ENST00000431726	protein_coding	KNOWN	None	14406	4533	1510	47422501	47454925	1	None	DKFZP564F0923, KIAA1471, HD-PTP
19	ZNF582-AS1	ENSG00000267454	ENST00000591172	processed_transcript	KNOWN	None	25213	None	None	56905025	56909521	1	None	None
19	ZNF582-AS1	ENSG00000267454	ENST00000589888	processed_transcript	KNOWN	None	25213	None	None	56905087	56910537	1	None	None
19	ZNF582-AS1	ENSG00000267454	ENST00000587979	processed_transcript	KNOWN	None	25213	None	None	56905102	56910537	1	None	None
19	ZNF582-AS1	ENSG00000267454	ENST00000585659	processed_transcript	KNOWN	None	25213	None	None	56905116	56910541	1	None	None
19	ZNF582-AS1	ENSG00000267454	ENST00000593109	processed_transcript	KNOWN	None	25213	None	None	56905180	56905802	1	None	None
17	SNORD1B	ENSG00000199961	ENST00000363091	snoRNA	KNOWN	None	32676	None	None	74557191	74557274	1	None	R38B, snR38B
11	None	ENSG00000255521	ENST00000528366	antisense	KNOWN	None	None	None	None	35154202	35159579	-1	None	None
11	None	ENSG00000255521	ENST00000530263	antisense	KNOWN	None	None	None	None	35157781	35159273	-1	None	None
5	None	ENSG00000270067	ENST00000602872	antisense	KNOWN	None	None	None	None	112229030	112229698	1	None	None
HSCHR12_1_CTG1	None	ENSG00000262435	ENST00000574122	unprocessed_pseudogene	KNOWN	None	None	None	None	64522	82015	-1	None	None
11	None	ENSG00000264637	ENST00000584740	miRNA	NOVEL	None	None	None	None	51264009	51264094	-1	None	None
12	RNA5SP364	ENSG00000252747	ENST00000516938	rRNA	KNOWN	None	43264	None	None	88445478	88445555	1	RN5S364	None
9	TMEM38B	ENSG00000095209	ENST00000434214	protein_coding	KNOWN	None	25535	107	34	108456825	108468034	1	C9orf87	FLJ10493, bA219P18.1, D4Ertd89e, TRIC-B
9	TMEM38B	ENSG00000095209	ENST00000374692	protein_coding	KNOWN	CCDS6768	25535	876	291	108456825	108538893	1	C9orf87	FLJ10493, bA219P18.1, D4Ertd89e, TRIC-B
9	TMEM38B	ENSG00000095209	ENST00000374688	protein_coding	KNOWN	None	25535	714	237	108463265	108538893	1	C9orf87	FLJ10493, bA219P18.1, D4Ertd89e, TRIC-B
9	TMEM38B	ENSG00000095209	ENST00000435034	protein_coding	KNOWN	None	25535	488	161	108467956	108536360	1	C9orf87	FLJ10493, bA219P18.1, D4Ertd89e, TRIC-B
9	TMEM38B	ENSG00000095209	ENST00000451560	protein_coding	KNOWN	None	25535	244	80	108483968	108511563	1	C9orf87	FLJ10493, bA219P18.1, D4Ertd89e, TRIC-B
15	RNU6-17P	ENSG00000206972	ENST00000384245	snRNA	KNOWN	None	34261	None	None	30546605	30546711	-1	RNU6-17	None
X	AMDP1	ENSG00000237801	ENST00000412936	processed_pseudogene	KNOWN	None	460	None	None	155058248	155059239	-1	AMD2, AMD	AMDPX, AMDPY
3	None	ENSG00000271483	ENST00000605225	processed_pseudogene	KNOWN	None	None	None	None	194192652	194192814	1	None	None
17	None	ENSG00000267078	ENST00000588104	antisense	KNOWN	None	None	None	None	74565874	74567322	1	None	None
3	RNA5SP130	ENSG00000201301	ENST00000364431	rRNA	KNOWN	None	43030	None	None	49504548	49504661	-1	RN5S130	None
18	ZNF271	ENSG00000257267	ENST00000399070	processed_transcript	KNOWN	None	13065	None	None	32870246	32890730	1	None	HZF7, ZNFEB
18	ZNF271	ENSG00000257267	ENST00000465539	unitary_pseudogene	KNOWN	None	13065	None	None	32871148	32887860	1	None	HZF7, ZNFEB
18	ZNF271	ENSG00000257267	ENST00000540308	unitary_pseudogene	KNOWN	None	13065	None	None	32870300	32888074	1	None	HZF7, ZNFEB
2	TRIM43	ENSG00000144015	ENST00000272395	protein_coding	KNOWN	CCDS2015	19015	1341	446	96257766	96265526	1	None	TRIM43A
14	None	ENSG00000252945	ENST00000517136	snoRNA	NOVEL	None	None	None	None	51311343	51311430	1	None	None
14	None	ENSG00000259634	ENST00000558190	sense_overlapping	KNOWN	None	None	None	None	92524896	92525877	-1	None	None
20	None	ENSG00000230843	ENST00000431983	lincRNA	KNOWN	None	None	None	None	54871023	54874216	-1	None	None
12	None	ENSG00000222647	ENST00000410715	miRNA	NOVEL	None	None	None	None	120018597	120018700	1	None	None
17	None	ENSG00000267084	ENST00000589690	processed_pseudogene	KNOWN	None	None	None	None	74591666	74591854	-1	None	None
7	None	ENSG00000226066	ENST00000438279	processed_pseudogene	KNOWN	None	None	None	None	136170404	136173065	1	None	None
11	OR4A6P	ENSG00000255078	ENST00000534364	unprocessed_pseudogene	KNOWN	None	15163	None	None	51393464	51394433	-1	None	None
5	None	ENSG00000272389	ENST00000607284	antisense	KNOWN	None	None	None	None	112233720	112234068	1	None	None
19	None	ENSG00000268119	ENST00000596705	lincRNA	KNOWN	None	None	None	None	21627043	21646710	-1	None	None
19	None	ENSG00000268119	ENST00000597444	lincRNA	KNOWN	None	None	None	None	21631931	21646682	-1	None	None
19	None	ENSG00000268119	ENST00000594557	retained_intron	KNOWN	None	None	None	None	21634842	21646686	-1	None	None
19	None	ENSG00000268119	ENST00000600469	lincRNA	KNOWN	None	None	None	None	21635828	21646675	-1	None	None
19	None	ENSG00000268119	ENST00000599993	lincRNA	KNOWN	None	None	None	None	21635998	21646674	-1	None	None
19	None	ENSG00000268119	ENST00000593653	lincRNA	KNOWN	None	None	None	None	21638133	21646699	-1	None	None
12	RN7SKP197	ENSG00000252886	ENST00000517077	misc_RNA	KNOWN	None	45921	None	None	120068895	120069191	-1	None	None
8	DEFB106B	ENSG00000187082	ENST00000335479	protein_coding	KNOWN	CCDS34813	28879	198	65	7340026	7343922	-1	None	None
12	RN7SKP263	ENSG00000223126	ENST00000411194	misc_RNA	KNOWN	None	45987	None	None	94402515	94402823	-1	None	None
9	None	ENSG00000235003	ENST00000427875	processed_pseudogene	KNOWN	None	None	None	None	66396886	66397113	1	None	None
17	RNU6-227P	ENSG00000199735	ENST00000362865	snRNA	KNOWN	None	47190	None	None	74652402	74652504	1	None	None
13	None	ENSG00000271216	ENST00000604485	lincRNA	KNOWN	None	None	None	None	43384502	43386698	-1	None	None
3	LINC00884	ENSG00000233058	ENST00000448892	antisense	KNOWN	None	48570	None	None	194208183	194239008	1	None	None
3	LINC00884	ENSG00000233058	ENST00000437597	antisense	KNOWN	None	48570	None	None	194218688	194231376	1	None	None
2	None	ENSG00000223349	ENST00000451977	processed_pseudogene	KNOWN	None	None	None	None	131449816	131451343	-1	None	None
17	None	ENSG00000261335	ENST00000565271	antisense	KNOWN	None	None	None	None	74668024	74669740	1	None	None
8	None	ENSG00000253658	ENST00000518540	lincRNA	KNOWN	None	None	None	None	69824038	70016425	-1	None	None
8	None	ENSG00000253658	ENST00000519062	lincRNA	KNOWN	None	None	None	None	69825198	69913722	-1	None	None
8	None	ENSG00000253658	ENST00000524286	lincRNA	KNOWN	None	None	None	None	69825398	69913747	-1	None	None
8	None	ENSG00000253658	ENST00000517925	lincRNA	KNOWN	None	None	None	None	69836638	69871884	-1	None	None
11	None	ENSG00000254957	ENST00000529697	processed_pseudogene	KNOWN	None	None	None	None	11157029	11159205	1	None	None
7	None	ENSG00000225365	ENST00000448698	antisense	KNOWN	None	None	None	None	158330187	158332571	1	None	None
17	HAP1	ENSG00000173805	ENST00000458656	protein_coding	PUTATIVE	None	4812	336	111	39873994	39881333	-1	HAP2	HLP, hHLP1, HIP5
17	HAP1	ENSG00000173805	ENST00000442364	protein_coding	PUTATIVE	None	4812	222	73	39873994	39881393	-1	HAP2	HLP, hHLP1, HIP5
17	HAP1	ENSG00000173805	ENST00000455021	protein_coding	PUTATIVE	None	4812	121	39	39873994	39882149	-1	HAP2	HLP, hHLP1, HIP5
17	HAP1	ENSG00000173805	ENST00000393939	protein_coding	KNOWN	CCDS42339	4812	1785	594	39877065	39890896	-1	HAP2	HLP, hHLP1, HIP5
17	HAP1	ENSG00000173805	ENST00000347901	protein_coding	KNOWN	CCDS11406	4812	1860	619	39878892	39890896	-1	HAP2	HLP, hHLP1, HIP5
17	HAP1	ENSG00000173805	ENST00000341193	protein_coding	KNOWN	CCDS42338	4812	1809	602	39878892	39890896	-1	HAP2	HLP, hHLP1, HIP5
17	HAP1	ENSG00000173805	ENST00000310778	protein_coding	KNOWN	None	4812	2016	671	39878892	39890896	-1	HAP2	HLP, hHLP1, HIP5
17	None	ENSG00000212418	ENST00000391116	misc_RNA	NOVEL	None	None	None	None	74699714	74699809	-1	None	None
12	None	ENSG00000257360	ENST00000548294	processed_pseudogene	KNOWN	None	None	None	None	94533853	94535113	1	None	None
13	None	ENSG00000229546	ENST00000415620	lincRNA	KNOWN	None	None	None	None	43416550	43417023	-1	None	None
1	None	ENSG00000242590	ENST00000418300	sense_intronic	KNOWN	None	None	None	None	990413	991496	1	None	None
20	RPL39P	ENSG00000228601	ENST00000450188	processed_pseudogene	KNOWN	None	16558	None	None	55034484	55034639	-1	None	dJ1167H4.5
15	None	ENSG00000259206	ENST00000548121	processed_transcript	KNOWN	None	None	None	None	82710856	82726435	1	None	None
17	MIR636	ENSG00000207556	ENST00000384825	miRNA	KNOWN	None	32892	None	None	74732532	74732630	-1	MIRN636	hsa-mir-636
2	None	ENSG00000229797	ENST00000448777	antisense	KNOWN	None	None	None	None	131501111	131513452	-1	None	None
2	None	ENSG00000229797	ENST00000436488	antisense	KNOWN	None	None	None	None	131507268	131513408	-1	None	None
17	CD300A	ENSG00000167851	ENST00000360141	protein_coding	KNOWN	CCDS32720	19319	900	299	72462555	72480933	1	None	Irp60, CMRF35H, CMRF-35-H9, IRC1, IRC2, IGSF12
17	CD300A	ENSG00000167851	ENST00000392625	protein_coding	KNOWN	None	19319	453	150	72462797	72480929	1	None	Irp60, CMRF35H, CMRF-35-H9, IRC1, IRC2, IGSF12
17	CD300A	ENSG00000167851	ENST00000361933	protein_coding	PUTATIVE	None	19319	312	103	72462814	72480306	1	None	Irp60, CMRF35H, CMRF-35-H9, IRC1, IRC2, IGSF12
17	CD300A	ENSG00000167851	ENST00000310828	protein_coding	KNOWN	CCDS58590	19319	561	186	72462814	72480306	1	None	Irp60, CMRF35H, CMRF-35-H9, IRC1, IRC2, IGSF12
17	CD300A	ENSG00000167851	ENST00000582319	retained_intron	KNOWN	None	19319	None	None	72462815	72480307	1	None	Irp60, CMRF35H, CMRF-35-H9, IRC1, IRC2, IGSF12
17	CD300A	ENSG00000167851	ENST00000577511	protein_coding	PUTATIVE	None	19319	510	169	72463001	72480435	1	None	Irp60, CMRF35H, CMRF-35-H9, IRC1, IRC2, IGSF12
12	MIR1178	ENSG00000221323	ENST00000408396	miRNA	KNOWN	None	35259	None	None	120151439	120151529	-1	MIRN1178	hsa-mir-1178
3	THRAP3P1	ENSG00000227339	ENST00000411753	processed_pseudogene	KNOWN	None	32386	None	None	31494324	31497386	1	THRAP3L	None
3	BSN-AS2	ENSG00000226913	ENST00000421598	lincRNA	KNOWN	None	42445	None	None	49586739	49591799	-1	None	None
3	BSN-AS2	ENSG00000226913	ENST00000433882	lincRNA	KNOWN	None	42445	None	None	49588728	49591773	-1	None	None
13	ZDHHC4P1	ENSG00000238025	ENST00000396712	processed_pseudogene	KNOWN	None	39443	None	None	43507994	43509028	1	None	None
17	RNU6-97P	ENSG00000200257	ENST00000363387	snRNA	KNOWN	None	47060	None	None	74748994	74749097	1	None	None
9	None	ENSG00000238792	ENST00000459573	snoRNA	NOVEL	None	None	None	None	96995760	96995863	1	None	None
17	None	ENSG00000267065	ENST00000585863	lincRNA	KNOWN	None	None	None	None	74795126	74802035	1	None	None
13	LINC00400	ENSG00000229928	ENST00000425609	lincRNA	KNOWN	None	42729	None	None	43732767	43733602	1	None	None
12	None	ENSG00000256748	ENST00000538921	processed_pseudogene	KNOWN	None	None	None	None	4711157	4712586	-1	None	None
12	None	ENSG00000256120	ENST00000540733	lincRNA	KNOWN	None	None	None	None	24376205	24380442	1	None	None
12	None	ENSG00000256120	ENST00000539583	lincRNA	KNOWN	None	None	None	None	24376221	24390899	1	None	None
9	RNU6-677P	ENSG00000252723	ENST00000516914	snRNA	KNOWN	None	47640	None	None	97007971	97008041	1	None	None
12	RPL35AP30	ENSG00000226729	ENST00000484185	processed_pseudogene	KNOWN	None	36751	None	None	120397228	120397558	1	None	None
4	CCDC109B	ENSG00000005059	ENST00000394650	protein_coding	KNOWN	CCDS3683	26076	1011	336	110481361	110609874	1	None	FLJ20647
4	CCDC109B	ENSG00000005059	ENST00000472310	retained_intron	KNOWN	None	26076	None	None	110481365	110604350	1	None	FLJ20647
4	CCDC109B	ENSG00000005059	ENST00000515114	processed_transcript	PUTATIVE	None	26076	None	None	110481368	110581502	1	None	FLJ20647
4	CCDC109B	ENSG00000005059	ENST00000452915	protein_coding	PUTATIVE	None	26076	423	140	110482146	110602625	1	None	FLJ20647
4	CCDC109B	ENSG00000005059	ENST00000494604	retained_intron	KNOWN	None	26076	None	None	110605596	110608872	1	None	FLJ20647
9	None	ENSG00000237679	ENST00000458323	processed_pseudogene	KNOWN	None	None	None	None	97049981	97050832	-1	None	None
18	None	ENSG00000239683	ENST00000474156	processed_pseudogene	KNOWN	None	None	None	None	32963318	32963989	-1	None	None
8	DEFB105B	ENSG00000186599	ENST00000335510	protein_coding	KNOWN	CCDS34814	29930	237	78	7345191	7347115	1	None	None
7	OR9A4	ENSG00000258083	ENST00000548136	protein_coding	KNOWN	CCDS43661	15095	945	314	141618617	141619709	1	None	None
17	LINC00868	ENSG00000267535	ENST00000592919	lincRNA	KNOWN	None	27562	None	None	74846258	74857912	1	C17orf52	None
17	LINC00868	ENSG00000267535	ENST00000589708	lincRNA	KNOWN	None	27562	None	None	74852248	74857916	1	C17orf52	None
17	LINC00868	ENSG00000267535	ENST00000589914	lincRNA	KNOWN	None	27562	None	None	74852251	74857918	1	C17orf52	None
7	None	ENSG00000234352	ENST00000586239	antisense	KNOWN	None	None	None	None	136370306	136849020	-1	None	None
7	None	ENSG00000234352	ENST00000597642	antisense	KNOWN	None	None	None	None	136428512	136849022	-1	None	None
7	None	ENSG00000234352	ENST00000593789	antisense	KNOWN	None	None	None	None	136428512	136849022	-1	None	None
7	None	ENSG00000234352	ENST00000598184	antisense	KNOWN	None	None	None	None	136437014	136849022	-1	None	None
7	None	ENSG00000234352	ENST00000439694	antisense	KNOWN	None	None	None	None	136468822	136866518	-1	None	None
7	None	ENSG00000234352	ENST00000592183	antisense	KNOWN	None	None	None	None	136470579	136866854	-1	None	None
7	None	ENSG00000234352	ENST00000425981	antisense	KNOWN	None	None	None	None	136583520	136849088	-1	None	None
7	None	ENSG00000234352	ENST00000599888	antisense	KNOWN	None	None	None	None	136804506	136849017	-1	None	None
11	OR4A7P	ENSG00000255349	ENST00000531463	unprocessed_pseudogene	KNOWN	None	15164	None	None	51425921	51426830	-1	None	None
HSCHR17_1_CTG4	None	ENSG00000262045	ENST00000571312	protein_coding	NOVEL	None	None	1311	436	39533917	39538652	-1	None	None
15	CSPG4P8	ENSG00000188384	ENST00000549901	transcribed_unprocessed_pseudogene	KNOWN	None	48359	None	None	82751614	82762144	1	None	None
15	CSPG4P8	ENSG00000188384	ENST00000342039	processed_transcript	KNOWN	None	48359	None	None	82756851	82769399	1	None	None
20	None	ENSG00000212084	ENST00000390795	miRNA	NOVEL	None	None	None	None	55035322	55035413	-1	None	None
3	None	ENSG00000244675	ENST00000455557	sense_overlapping	KNOWN	None	None	None	None	194217046	194222232	-1	None	None
13	RPL36P19	ENSG00000232540	ENST00000430744	processed_pseudogene	KNOWN	None	42648	None	None	43968661	43968961	1	None	None
12	ERC1	ENSG00000082805	ENST00000545318	protein_coding	KNOWN	None	17072	269	88	1099675	1137338	1	RAB6IP2	ELKS, KIAA1081, CAST2, MGC12974
12	ERC1	ENSG00000082805	ENST00000543086	protein_coding	KNOWN	CCDS53732	17072	3267	1088	1100374	1605099	1	RAB6IP2	ELKS, KIAA1081, CAST2, MGC12974
12	ERC1	ENSG00000082805	ENST00000546231	protein_coding	NOVEL	None	17072	3363	1120	1100399	1599895	1	RAB6IP2	ELKS, KIAA1081, CAST2, MGC12974
12	ERC1	ENSG00000082805	ENST00000542302	nonsense_mediated_decay	KNOWN	None	17072	2931	976	1100399	1599895	1	RAB6IP2	ELKS, KIAA1081, CAST2, MGC12974
12	ERC1	ENSG00000082805	ENST00000347735	nonsense_mediated_decay	KNOWN	None	17072	2847	948	1100404	1600733	1	RAB6IP2	ELKS, KIAA1081, CAST2, MGC12974
12	ERC1	ENSG00000082805	ENST00000592048	protein_coding	PUTATIVE	None	17072	1032	343	1100429	1225199	1	RAB6IP2	ELKS, KIAA1081, CAST2, MGC12974
12	ERC1	ENSG00000082805	ENST00000440394	nonsense_mediated_decay	KNOWN	None	17072	2979	992	1100433	1602715	1	RAB6IP2	ELKS, KIAA1081, CAST2, MGC12974
12	ERC1	ENSG00000082805	ENST00000545948	nonsense_mediated_decay	KNOWN	None	17072	2163	720	1100439	1599543	1	RAB6IP2	ELKS, KIAA1081, CAST2, MGC12974
12	ERC1	ENSG00000082805	ENST00000360905	protein_coding	KNOWN	CCDS8508	17072	3351	1116	1100464	1601653	1	RAB6IP2	ELKS, KIAA1081, CAST2, MGC12974
12	ERC1	ENSG00000082805	ENST00000589132	protein_coding	KNOWN	None	17072	436	144	1100788	1137505	1	RAB6IP2	ELKS, KIAA1081, CAST2, MGC12974
12	ERC1	ENSG00000082805	ENST00000587595	processed_transcript	KNOWN	None	17072	None	None	1107488	1137008	1	RAB6IP2	ELKS, KIAA1081, CAST2, MGC12974
12	ERC1	ENSG00000082805	ENST00000355446	protein_coding	PUTATIVE	None	17072	3261	1086	1136938	1601653	1	RAB6IP2	ELKS, KIAA1081, CAST2, MGC12974
12	ERC1	ENSG00000082805	ENST00000538971	retained_intron	KNOWN	None	17072	None	None	1192307	1553755	1	RAB6IP2	ELKS, KIAA1081, CAST2, MGC12974
12	ERC1	ENSG00000082805	ENST00000539007	retained_intron	KNOWN	None	17072	None	None	1192650	1225367	1	RAB6IP2	ELKS, KIAA1081, CAST2, MGC12974
12	ERC1	ENSG00000082805	ENST00000536573	processed_transcript	KNOWN	None	17072	None	None	1192739	1354122	1	RAB6IP2	ELKS, KIAA1081, CAST2, MGC12974
12	ERC1	ENSG00000082805	ENST00000541503	retained_intron	KNOWN	None	17072	None	None	1224790	1250906	1	RAB6IP2	ELKS, KIAA1081, CAST2, MGC12974
12	ERC1	ENSG00000082805	ENST00000588412	nonsense_mediated_decay	KNOWN	None	17072	857	284	1299062	1600245	1	RAB6IP2	ELKS, KIAA1081, CAST2, MGC12974
12	ERC1	ENSG00000082805	ENST00000544277	processed_transcript	KNOWN	None	17072	None	None	1313132	1372239	1	RAB6IP2	ELKS, KIAA1081, CAST2, MGC12974
12	ERC1	ENSG00000082805	ENST00000543263	processed_transcript	KNOWN	None	17072	None	None	1366304	1481118	1	RAB6IP2	ELKS, KIAA1081, CAST2, MGC12974
12	ERC1	ENSG00000082805	ENST00000539802	protein_coding	PUTATIVE	None	17072	269	88	1517358	1554221	1	RAB6IP2	ELKS, KIAA1081, CAST2, MGC12974
12	ERC1	ENSG00000082805	ENST00000515210	processed_transcript	PUTATIVE	None	17072	None	None	1539443	1553796	1	RAB6IP2	ELKS, KIAA1081, CAST2, MGC12974
12	ERC1	ENSG00000082805	ENST00000543151	retained_intron	KNOWN	None	17072	None	None	1552457	1600245	1	RAB6IP2	ELKS, KIAA1081, CAST2, MGC12974
12	ERC1	ENSG00000082805	ENST00000397203	protein_coding	KNOWN	CCDS8508	17072	3351	1116	1100404	1605090	1	RAB6IP2	ELKS, KIAA1081, CAST2, MGC12974
12	ERC1	ENSG00000082805	ENST00000589028	protein_coding	KNOWN	CCDS8508	17072	3351	1116	1136913	1605090	1	RAB6IP2	ELKS, KIAA1081, CAST2, MGC12974
14	SNW1	ENSG00000100603	ENST00000261531	protein_coding	KNOWN	CCDS9867	16696	1611	536	78183942	78227533	-1	SKIIP	NCoA-62, SKIP, Prp45, PRPF45, Bx42
14	SNW1	ENSG00000100603	ENST00000554775	protein_coding	PUTATIVE	None	16696	1125	374	78183971	78227498	-1	SKIIP	NCoA-62, SKIP, Prp45, PRPF45, Bx42
14	SNW1	ENSG00000100603	ENST00000556428	nonsense_mediated_decay	KNOWN	None	16696	144	47	78184134	78227550	-1	SKIIP	NCoA-62, SKIP, Prp45, PRPF45, Bx42
14	SNW1	ENSG00000100603	ENST00000555761	protein_coding	PUTATIVE	None	16696	1716	571	78184296	78227499	-1	SKIIP	NCoA-62, SKIP, Prp45, PRPF45, Bx42
14	SNW1	ENSG00000100603	ENST00000553565	retained_intron	KNOWN	None	16696	None	None	78197199	78203350	-1	SKIIP	NCoA-62, SKIP, Prp45, PRPF45, Bx42
14	SNW1	ENSG00000100603	ENST00000554324	protein_coding	KNOWN	None	16696	555	184	78198882	78227499	-1	SKIIP	NCoA-62, SKIP, Prp45, PRPF45, Bx42
14	SNW1	ENSG00000100603	ENST00000557663	retained_intron	KNOWN	None	16696	None	None	78205081	78227499	-1	SKIIP	NCoA-62, SKIP, Prp45, PRPF45, Bx42
15	None	ENSG00000259268	ENST00000560465	lincRNA	KNOWN	None	None	None	None	63748493	63761550	-1	None	None
18	None	ENSG00000267583	ENST00000593122	lincRNA	KNOWN	None	None	None	None	33023833	33046716	-1	None	None
18	None	ENSG00000267583	ENST00000591141	lincRNA	KNOWN	None	None	None	None	33025707	33047045	-1	None	None
18	None	ENSG00000267583	ENST00000586741	lincRNA	KNOWN	None	None	None	None	33026872	33047052	-1	None	None
7	None	ENSG00000232715	ENST00000415652	antisense	KNOWN	None	None	None	None	158383321	158383812	1	None	None
12	None	ENSG00000272464	ENST00000605937	snoRNA	NOVEL	None	None	None	None	120486234	120486332	1	None	None
13	ENOX1-AS2	ENSG00000238189	ENST00000434273	lincRNA	KNOWN	None	42397	None	None	44032601	44033259	1	None	None
20	None	ENSG00000238294	ENST00000459416	snoRNA	NOVEL	None	None	None	None	55050699	55050801	1	None	None
12	None	ENSG00000258035	ENST00000551029	antisense	KNOWN	None	None	None	None	94561782	94570180	-1	None	None
12	None	ENSG00000258035	ENST00000550759	antisense	KNOWN	None	None	None	None	94561785	94579820	-1	None	None
19	RPL36	ENSG00000130255	ENST00000579649	protein_coding	KNOWN	CCDS12147	13631	318	105	5674958	5691678	1	None	DKFZp566B023, L36
19	RPL36	ENSG00000130255	ENST00000582380	processed_transcript	KNOWN	None	13631	None	None	5681038	5690338	1	None	DKFZp566B023, L36
19	RPL36	ENSG00000130255	ENST00000577222	protein_coding	KNOWN	CCDS12147	13631	318	105	5681193	5691644	1	None	DKFZp566B023, L36
19	RPL36	ENSG00000130255	ENST00000347512	protein_coding	KNOWN	CCDS12147	13631	318	105	5690207	5691887	1	None	DKFZp566B023, L36
19	RPL36	ENSG00000130255	ENST00000582463	protein_coding	PUTATIVE	None	13631	204	67	5690306	5690942	1	None	DKFZp566B023, L36
19	RPL36	ENSG00000130255	ENST00000590786	retained_intron	KNOWN	None	13631	None	None	5690317	5691401	1	None	DKFZp566B023, L36
19	RPL36	ENSG00000130255	ENST00000579446	protein_coding	PUTATIVE	None	13631	285	94	5690317	5691664	1	None	DKFZp566B023, L36
19	RPL36	ENSG00000130255	ENST00000394580	protein_coding	KNOWN	CCDS12147	13631	318	105	5690327	5691678	1	None	DKFZp566B023, L36
17	LRRC37B	ENSG00000185158	ENST00000583342	protein_coding	PUTATIVE	None	29070	656	217	30334891	30348875	1	None	None
17	LRRC37B	ENSG00000185158	ENST00000579206	protein_coding	PUTATIVE	None	29070	467	154	30334993	30348878	1	None	None
17	LRRC37B	ENSG00000185158	ENST00000543378	protein_coding	PUTATIVE	None	29070	2598	865	30335007	30380505	1	None	None
17	LRRC37B	ENSG00000185158	ENST00000581370	processed_transcript	PUTATIVE	None	29070	None	None	30335055	30344239	1	None	None
17	LRRC37B	ENSG00000185158	ENST00000327564	protein_coding	PUTATIVE	None	29070	2925	974	30348024	30380523	1	None	None
17	LRRC37B	ENSG00000185158	ENST00000584368	protein_coding	PUTATIVE	None	29070	2727	908	30348116	30380379	1	None	None
17	LRRC37B	ENSG00000185158	ENST00000578674	nonsense_mediated_decay	KNOWN	None	29070	2163	720	30348116	30380379	1	None	None
17	LRRC37B	ENSG00000185158	ENST00000583204	retained_intron	KNOWN	None	29070	None	None	30348127	30362859	1	None	None
17	LRRC37B	ENSG00000185158	ENST00000341671	protein_coding	KNOWN	CCDS32609	29070	2844	947	30348161	30380523	1	None	None
17	LRRC37B	ENSG00000185158	ENST00000581786	processed_transcript	KNOWN	None	29070	None	None	30349309	30355964	1	None	None
17	LRRC37B	ENSG00000185158	ENST00000580871	processed_transcript	KNOWN	None	29070	None	None	30351754	30363295	1	None	None
17	LRRC37B	ENSG00000185158	ENST00000582815	retained_intron	KNOWN	None	29070	None	None	30351755	30375048	1	None	None
17	LRRC37B	ENSG00000185158	ENST00000583758	retained_intron	KNOWN	None	29070	None	None	30354809	30375040	1	None	None
17	LRRC37B	ENSG00000185158	ENST00000580303	retained_intron	KNOWN	None	29070	None	None	30358415	30363085	1	None	None
17	LRRC37B	ENSG00000185158	ENST00000578118	retained_intron	KNOWN	None	29070	None	None	30372506	30375026	1	None	None
17	LRRC37B	ENSG00000185158	ENST00000581086	retained_intron	KNOWN	None	29070	None	None	30372556	30377025	1	None	None
17	LRRC37B	ENSG00000185158	ENST00000579094	retained_intron	KNOWN	None	29070	None	None	30374186	30380432	1	None	None
17	LRRC37B	ENSG00000185158	ENST00000582117	protein_coding	PUTATIVE	None	29070	710	235	30374780	30377351	1	None	None
17	LRRC37B	ENSG00000185158	ENST00000579766	retained_intron	KNOWN	None	29070	None	None	30375997	30377601	1	None	None
17	LRRC37B	ENSG00000185158	ENST00000394713	protein_coding	KNOWN	None	29070	2691	896	30348116	30380370	1	None	None
12	LINC00477	ENSG00000197503	ENST00000483544	lincRNA	KNOWN	None	26557	None	None	24719898	24737102	-1	C12orf67	FLJ32894, FAM191B
3	OSBPL10-AS1	ENSG00000232490	ENST00000455961	antisense	KNOWN	None	40767	None	None	31745550	31748912	1	None	None
3	OSBPL10-AS1	ENSG00000232490	ENST00000458127	antisense	KNOWN	None	40767	None	None	31745598	31746462	1	None	None
3	OSBPL10-AS1	ENSG00000232490	ENST00000428872	antisense	KNOWN	None	40767	None	None	31745705	31763072	1	None	None
3	OSBPL10-AS1	ENSG00000232490	ENST00000418728	antisense	KNOWN	None	40767	None	None	31745709	31763068	1	None	None
3	OSBPL10-AS1	ENSG00000232490	ENST00000447181	antisense	KNOWN	None	40767	None	None	31750763	31756404	1	None	None
3	OSBPL10-AS1	ENSG00000232490	ENST00000436598	antisense	KNOWN	None	40767	None	None	31750814	31763144	1	None	None
3	OSBPL10-AS1	ENSG00000232490	ENST00000417313	antisense	KNOWN	None	40767	None	None	31752099	31763066	1	None	None
3	OSBPL10-AS1	ENSG00000232490	ENST00000444503	antisense	KNOWN	None	40767	None	None	31758483	31763069	1	None	None
12	None	ENSG00000255575	ENST00000540773	processed_pseudogene	KNOWN	None	None	None	None	120494839	120494984	1	None	None
HG536_PATCH	None	ENSG00000262538	ENST00000571280	snRNA	NOVEL	None	None	None	None	69890131	69890237	1	None	None
11	OR4A8P	ENSG00000225997	ENST00000418689	unprocessed_pseudogene	KNOWN	None	15165	None	None	51435459	51436403	-1	None	None
13	ENOX1-AS1	ENSG00000233821	ENST00000444442	lincRNA	KNOWN	None	42396	None	None	44118054	44122192	1	None	None
17	None	ENSG00000267568	ENST00000585902	lincRNA	KNOWN	None	None	None	None	74946399	74949792	-1	None	None
17	None	ENSG00000267568	ENST00000564292	antisense	KNOWN	None	None	None	None	74946556	74965238	-1	None	None
17	None	ENSG00000267568	ENST00000563583	antisense	KNOWN	None	None	None	None	74958974	74965179	-1	None	None
20	None	ENSG00000179467	ENST00000320170	pseudogene	NOVEL	None	None	None	None	55097413	55097855	1	None	None
6	POM121L6P	ENSG00000197848	ENST00000442958	processed_pseudogene	KNOWN	None	31343	None	None	26864126	26865739	1	None	bA239L20.2
19	SUGP2	ENSG00000064607	ENST00000593795	nonsense_mediated_decay	KNOWN	None	18641	161	52	19101697	19112483	-1	SFRS14	KIAA0365
19	SUGP2	ENSG00000064607	ENST00000594773	nonsense_mediated_decay	KNOWN	None	18641	3123	1040	19101699	19144625	-1	SFRS14	KIAA0365
19	SUGP2	ENSG00000064607	ENST00000597095	processed_transcript	KNOWN	None	18641	None	None	19101702	19102427	-1	SFRS14	KIAA0365
19	SUGP2	ENSG00000064607	ENST00000597163	processed_transcript	KNOWN	None	18641	None	None	19101702	19104251	-1	SFRS14	KIAA0365
19	SUGP2	ENSG00000064607	ENST00000330854	nonsense_mediated_decay	KNOWN	None	18641	3093	1030	19101702	19144299	-1	SFRS14	KIAA0365
19	SUGP2	ENSG00000064607	ENST00000337018	protein_coding	KNOWN	CCDS12392	18641	3249	1082	19101702	19144368	-1	SFRS14	KIAA0365
19	SUGP2	ENSG00000064607	ENST00000598863	processed_transcript	KNOWN	None	18641	None	None	19102077	19104522	-1	SFRS14	KIAA0365
19	SUGP2	ENSG00000064607	ENST00000452918	protein_coding	KNOWN	CCDS12392	18641	3249	1082	19103158	19144308	-1	SFRS14	KIAA0365
19	SUGP2	ENSG00000064607	ENST00000600239	nonsense_mediated_decay	KNOWN	None	18641	2526	841	19103176	19144305	-1	SFRS14	KIAA0365
19	SUGP2	ENSG00000064607	ENST00000601879	protein_coding	KNOWN	CCDS12392	18641	3249	1082	19103176	19144832	-1	SFRS14	KIAA0365
19	SUGP2	ENSG00000064607	ENST00000600377	protein_coding	PUTATIVE	None	18641	3291	1096	19103734	19144348	-1	SFRS14	KIAA0365
19	SUGP2	ENSG00000064607	ENST00000597280	nonsense_mediated_decay	KNOWN	None	18641	197	64	19104271	19115078	-1	SFRS14	KIAA0365
19	SUGP2	ENSG00000064607	ENST00000598240	nonsense_mediated_decay	KNOWN	None	18641	511	169	19105407	19141839	-1	SFRS14	KIAA0365
19	SUGP2	ENSG00000064607	ENST00000598202	processed_transcript	KNOWN	None	18641	None	None	19136366	19144339	-1	SFRS14	KIAA0365
19	SUGP2	ENSG00000064607	ENST00000594445	protein_coding	KNOWN	None	18641	334	110	19136823	19144243	-1	SFRS14	KIAA0365
19	SUGP2	ENSG00000064607	ENST00000456085	protein_coding	KNOWN	None	18641	2586	861	19105407	19141839	-1	SFRS14	KIAA0365
3	RNU6-1101P	ENSG00000252053	ENST00000516244	snRNA	KNOWN	None	48064	None	None	194254232	194254312	-1	None	None
13	None	ENSG00000270522	ENST00000604480	lincRNA	KNOWN	None	None	None	None	44361727	44361988	1	None	None
18	None	ENSG00000266965	ENST00000593078	sense_intronic	KNOWN	None	None	None	None	33175865	33177563	1	None	None
3	BSN-AS1	ENSG00000235120	ENST00000442384	antisense	KNOWN	None	40102	None	None	49677916	49679202	-1	None	None
3	None	ENSG00000232873	ENST00000440847	processed_pseudogene	KNOWN	None	None	None	None	194283707	194284730	-1	None	None
6	None	ENSG00000243307	ENST00000441186	processed_pseudogene	KNOWN	None	None	None	None	26865674	26866556	1	None	None
6	NPM1P10	ENSG00000214428	ENST00000398310	processed_pseudogene	KNOWN	None	7912	None	None	104473415	104474638	-1	None	None
18	None	ENSG00000267397	ENST00000590983	lincRNA	KNOWN	None	None	None	None	33296334	33297942	1	None	None
11	None	ENSG00000270897	ENST00000604663	processed_pseudogene	KNOWN	None	None	None	None	11203654	11203960	-1	None	None
5	ADAMTS12	ENSG00000151388	ENST00000504830	protein_coding	KNOWN	CCDS34140	14605	4785	1594	33523640	33892297	-1	None	None
5	ADAMTS12	ENSG00000151388	ENST00000352040	protein_coding	KNOWN	None	14605	4530	1509	33527286	33892046	-1	None	None
5	ADAMTS12	ENSG00000151388	ENST00000504582	processed_transcript	KNOWN	None	14605	None	None	33577068	33840417	-1	None	None
5	ADAMTS12	ENSG00000151388	ENST00000506952	processed_transcript	KNOWN	None	14605	None	None	33603547	33624456	-1	None	None
5	ADAMTS12	ENSG00000151388	ENST00000515401	protein_coding	KNOWN	None	14605	699	232	33751303	33892124	-1	None	None
5	ADAMTS12	ENSG00000151388	ENST00000509762	processed_transcript	KNOWN	None	14605	None	None	33880969	33891713	-1	None	None
7	MIR5707	ENSG00000265598	ENST00000582433	miRNA	KNOWN	None	43449	None	None	158384308	158384388	1	None	hsa-mir-5707
4	RPS23P4	ENSG00000240992	ENST00000487908	processed_pseudogene	KNOWN	None	36633	None	None	146190962	146191710	-1	None	None
15	USP3-AS1	ENSG00000259248	ENST00000560350	antisense	KNOWN	None	44140	None	None	63836446	63881253	-1	None	None
15	USP3-AS1	ENSG00000259248	ENST00000559357	antisense	KNOWN	None	44140	None	None	63836446	63881254	-1	None	None
15	USP3-AS1	ENSG00000259248	ENST00000560067	antisense	KNOWN	None	44140	None	None	63836488	63848669	-1	None	None
15	USP3-AS1	ENSG00000259248	ENST00000559861	antisense	KNOWN	None	44140	None	None	63848841	63886903	-1	None	None
15	USP3-AS1	ENSG00000259248	ENST00000558831	antisense	KNOWN	None	44140	None	None	63879909	63892959	-1	None	None
15	USP3-AS1	ENSG00000259248	ENST00000559737	antisense	KNOWN	None	44140	None	None	63880125	63892954	-1	None	None
15	USP3-AS1	ENSG00000259248	ENST00000560962	antisense	KNOWN	None	44140	None	None	63880133	63893008	-1	None	None
15	USP3-AS1	ENSG00000259248	ENST00000561256	antisense	KNOWN	None	44140	None	None	63881162	63893788	-1	None	None
15	USP3-AS1	ENSG00000259248	ENST00000560622	antisense	KNOWN	None	44140	None	None	63883313	63892938	-1	None	None
15	USP3-AS1	ENSG00000259248	ENST00000561191	antisense	KNOWN	None	44140	None	None	63883385	63892996	-1	None	None
3	ADAMTS9-AS2	ENSG00000241684	ENST00000460833	antisense	KNOWN	None	42435	None	None	64670585	64788401	1	None	None
3	ADAMTS9-AS2	ENSG00000241684	ENST00000485174	antisense	KNOWN	None	42435	None	None	64670780	64729114	1	None	None
3	ADAMTS9-AS2	ENSG00000241684	ENST00000474768	antisense	KNOWN	None	42435	None	None	64670780	64961211	1	None	None
3	ADAMTS9-AS2	ENSG00000241684	ENST00000481312	antisense	KNOWN	None	42435	None	None	64670804	64997143	1	None	None
18	NRBF2P1	ENSG00000267797	ENST00000587407	processed_pseudogene	KNOWN	None	44604	None	None	33421723	33422581	1	None	None
20	None	ENSG00000225657	ENST00000434176	lincRNA	KNOWN	None	None	None	None	55152619	55171182	1	None	None
20	None	ENSG00000225657	ENST00000437350	lincRNA	KNOWN	None	None	None	None	55171366	55173677	1	None	None
11	MTND5P21	ENSG00000255123	ENST00000531961	processed_pseudogene	KNOWN	None	42296	None	None	11261306	11261827	1	None	None
6	None	ENSG00000242026	ENST00000411551	processed_pseudogene	KNOWN	None	None	None	None	26866490	26867376	1	None	None
4	None	ENSG00000249764	ENST00000507207	processed_pseudogene	KNOWN	None	None	None	None	99634955	99635122	-1	None	None
22	None	ENSG00000226474	ENST00000440999	unprocessed_pseudogene	KNOWN	None	None	None	None	16362385	16362561	1	None	None
13	LINC00284	ENSG00000233725	ENST00000585327	lincRNA	KNOWN	None	26981	None	None	44482850	44600977	1	NCRNA00284	None
13	LINC00284	ENSG00000233725	ENST00000439707	lincRNA	KNOWN	None	26981	None	None	44482863	44604597	1	NCRNA00284	None
13	LINC00284	ENSG00000233725	ENST00000587571	lincRNA	KNOWN	None	26981	None	None	44596195	44602688	1	NCRNA00284	None
13	LINC00284	ENSG00000233725	ENST00000592085	lincRNA	KNOWN	None	26981	None	None	44596471	44602684	1	NCRNA00284	None
13	LINC00284	ENSG00000233725	ENST00000591799	lincRNA	KNOWN	None	26981	None	None	44596595	44601315	1	NCRNA00284	None
13	LINC00284	ENSG00000233725	ENST00000423211	lincRNA	KNOWN	None	26981	None	None	44599455	44604073	1	NCRNA00284	None
3	None	ENSG00000259970	ENST00000563780	retained_intron	KNOWN	None	None	None	None	49721913	49722416	-1	None	None
4	RTN3P1	ENSG00000251333	ENST00000536295	processed_pseudogene	KNOWN	None	19212	None	None	146296695	146297405	1	RTN3PS	None
18	MIR187	ENSG00000207797	ENST00000385062	miRNA	KNOWN	None	31558	None	None	33484781	33484889	-1	MIRN187	hsa-mir-187
5	GPX8	ENSG00000164294	ENST00000503787	protein_coding	KNOWN	CCDS34156	33100	630	209	54455946	54460752	1	None	UNQ847, EPLA847
5	GPX8	ENSG00000164294	ENST00000511617	processed_transcript	KNOWN	None	33100	None	None	54455995	54459959	1	None	UNQ847, EPLA847
5	GPX8	ENSG00000164294	ENST00000506123	processed_transcript	KNOWN	None	33100	None	None	54455996	54462899	1	None	UNQ847, EPLA847
5	GPX8	ENSG00000164294	ENST00000296734	protein_coding	PUTATIVE	None	33100	273	90	54455997	54462899	1	None	UNQ847, EPLA847
5	GPX8	ENSG00000164294	ENST00000515370	protein_coding	NOVEL	None	33100	477	158	54455998	54460582	1	None	UNQ847, EPLA847
5	GPX8	ENSG00000164294	ENST00000502733	processed_transcript	KNOWN	None	33100	None	None	54456002	54460514	1	None	UNQ847, EPLA847
5	GPX8	ENSG00000164294	ENST00000514317	processed_transcript	KNOWN	None	33100	None	None	54456010	54460261	1	None	UNQ847, EPLA847
5	GPX8	ENSG00000164294	ENST00000505096	retained_intron	KNOWN	None	33100	None	None	54456023	54456534	1	None	UNQ847, EPLA847
3	RNU6-670P	ENSG00000201182	ENST00000364312	snRNA	KNOWN	None	47633	None	None	10079236	10079339	1	None	None
7	THAP5P1	ENSG00000224324	ENST00000439089	processed_pseudogene	KNOWN	None	22340	None	None	158415880	158416141	-1	None	None
6	None	ENSG00000241381	ENST00000360992	processed_pseudogene	KNOWN	None	None	None	None	26867311	26867986	1	None	None
2	USP39	ENSG00000168883	ENST00000491659	processed_transcript	KNOWN	None	20071	None	None	85829979	85850905	1	None	SAD1, CGI-21, SNRNP65
2	USP39	ENSG00000168883	ENST00000459775	processed_transcript	KNOWN	None	20071	None	None	85829979	85876403	1	None	SAD1, CGI-21, SNRNP65
2	USP39	ENSG00000168883	ENST00000474572	processed_transcript	PUTATIVE	None	20071	None	None	85838501	85848627	1	None	SAD1, CGI-21, SNRNP65
2	USP39	ENSG00000168883	ENST00000448971	protein_coding	PUTATIVE	None	20071	387	128	85839226	85852712	1	None	SAD1, CGI-21, SNRNP65
2	USP39	ENSG00000168883	ENST00000442708	protein_coding	PUTATIVE	None	20071	340	112	85839228	85852740	1	None	SAD1, CGI-21, SNRNP65
2	USP39	ENSG00000168883	ENST00000465282	processed_transcript	KNOWN	None	20071	None	None	85839245	85850913	1	None	SAD1, CGI-21, SNRNP65
2	USP39	ENSG00000168883	ENST00000409025	protein_coding	NOVEL	None	20071	1611	536	85843266	85876376	1	None	SAD1, CGI-21, SNRNP65
2	USP39	ENSG00000168883	ENST00000455732	processed_transcript	KNOWN	None	20071	None	None	85843275	85850901	1	None	SAD1, CGI-21, SNRNP65
2	USP39	ENSG00000168883	ENST00000409470	protein_coding	KNOWN	CCDS33234	20071	1698	565	85843292	85876403	1	None	SAD1, CGI-21, SNRNP65
2	USP39	ENSG00000168883	ENST00000323701	protein_coding	NOVEL	CCDS33234	20071	1698	565	85843309	85876400	1	None	SAD1, CGI-21, SNRNP65
2	USP39	ENSG00000168883	ENST00000458268	nonsense_mediated_decay	KNOWN	None	20071	465	154	85843310	85852813	1	None	SAD1, CGI-21, SNRNP65
2	USP39	ENSG00000168883	ENST00000409766	protein_coding	NOVEL	CCDS58717	20071	1467	488	85843317	85876400	1	None	SAD1, CGI-21, SNRNP65
2	USP39	ENSG00000168883	ENST00000493829	retained_intron	KNOWN	None	20071	None	None	85843413	85872397	1	None	SAD1, CGI-21, SNRNP65
2	USP39	ENSG00000168883	ENST00000467885	processed_transcript	PUTATIVE	None	20071	None	None	85850904	85866364	1	None	SAD1, CGI-21, SNRNP65
2	USP39	ENSG00000168883	ENST00000490193	processed_transcript	KNOWN	None	20071	None	None	85863209	85876330	1	None	SAD1, CGI-21, SNRNP65
2	USP39	ENSG00000168883	ENST00000481409	processed_transcript	PUTATIVE	None	20071	None	None	85866416	85866945	1	None	SAD1, CGI-21, SNRNP65
2	USP39	ENSG00000168883	ENST00000496047	processed_transcript	KNOWN	None	20071	None	None	85868178	85873290	1	None	SAD1, CGI-21, SNRNP65
2	USP39	ENSG00000168883	ENST00000465514	processed_transcript	KNOWN	None	20071	None	None	85872071	85876234	1	None	SAD1, CGI-21, SNRNP65
2	USP39	ENSG00000168883	ENST00000450066	protein_coding	KNOWN	CCDS58716	20071	1389	462	85839228	85876347	1	None	SAD1, CGI-21, SNRNP65
18	MIR3929	ENSG00000265641	ENST00000584497	miRNA	KNOWN	None	38945	None	None	33514051	33514105	-1	None	hsa-mir-3929
4	BTF3P13	ENSG00000227118	ENST00000513224	processed_pseudogene	KNOWN	None	1128	None	None	99661893	99662382	1	BTF3L3	HUMBTFD
6	None	ENSG00000218173	ENST00000406305	processed_pseudogene	KNOWN	None	None	None	None	105135116	105135546	1	None	None
3	None	ENSG00000229217	ENST00000436426	processed_pseudogene	KNOWN	None	None	None	None	10099657	10099971	-1	None	None
6	RNU6-897P	ENSG00000252944	ENST00000517135	snRNA	KNOWN	None	47860	None	None	105214697	105214801	1	None	None
12	MIR4498	ENSG00000266704	ENST00000577599	miRNA	KNOWN	None	41838	None	None	120593238	120593303	-1	None	hsa-mir-4498
5	RNF145	ENSG00000145860	ENST00000274542	protein_coding	KNOWN	CCDS4344	20853	2076	691	158584417	158634834	-1	None	FLJ31951
5	RNF145	ENSG00000145860	ENST00000519865	protein_coding	KNOWN	CCDS56390	20853	1992	663	158584417	158635081	-1	None	FLJ31951
5	RNF145	ENSG00000145860	ENST00000424310	protein_coding	PUTATIVE	CCDS56390	20853	1992	663	158584417	158636559	-1	None	FLJ31951
5	RNF145	ENSG00000145860	ENST00000518284	processed_transcript	KNOWN	None	20853	None	None	158584419	158588588	-1	None	FLJ31951
5	RNF145	ENSG00000145860	ENST00000519985	processed_transcript	KNOWN	None	20853	None	None	158584832	158588368	-1	None	FLJ31951
5	RNF145	ENSG00000145860	ENST00000521606	protein_coding	KNOWN	CCDS56392	20853	2043	680	158585299	158635140	-1	None	FLJ31951
5	RNF145	ENSG00000145860	ENST00000518802	protein_coding	KNOWN	CCDS56393	20853	2082	693	158585307	158637061	-1	None	FLJ31951
5	RNF145	ENSG00000145860	ENST00000520638	protein_coding	KNOWN	CCDS56391	20853	2034	677	158585529	158634642	-1	None	FLJ31951
5	RNF145	ENSG00000145860	ENST00000518062	retained_intron	KNOWN	None	20853	None	None	158588149	158590036	-1	None	FLJ31951
5	RNF145	ENSG00000145860	ENST00000521266	processed_transcript	KNOWN	None	20853	None	None	158588492	158601049	-1	None	FLJ31951
5	RNF145	ENSG00000145860	ENST00000520548	processed_transcript	KNOWN	None	20853	None	None	158608968	158636799	-1	None	FLJ31951
11	OR4A2P	ENSG00000227547	ENST00000527276	unprocessed_pseudogene	KNOWN	None	15159	None	None	51451070	51451982	-1	None	None
18	None	ENSG00000267627	ENST00000586982	lincRNA	KNOWN	None	None	None	None	33531766	33545803	-1	None	None
18	None	ENSG00000267627	ENST00000589074	lincRNA	KNOWN	None	None	None	None	33531766	33546081	-1	None	None
19	ZFP28	ENSG00000196867	ENST00000301318	protein_coding	KNOWN	CCDS12946	17801	2607	868	57050317	57068169	1	None	KIAA1431, mkr5
19	ZFP28	ENSG00000196867	ENST00000591844	protein_coding	PUTATIVE	None	17801	1050	349	57050322	57064485	1	None	KIAA1431, mkr5
19	ZFP28	ENSG00000196867	ENST00000594386	processed_transcript	KNOWN	None	17801	None	None	57050438	57056106	1	None	KIAA1431, mkr5
19	ZFP28	ENSG00000196867	ENST00000589836	nonsense_mediated_decay	KNOWN	None	17801	441	146	57050499	57060346	1	None	KIAA1431, mkr5
19	ZFP28	ENSG00000196867	ENST00000588163	retained_intron	KNOWN	None	17801	None	None	57061815	57062398	1	None	KIAA1431, mkr5
8	DEFB107B	ENSG00000198129	ENST00000355602	protein_coding	KNOWN	CCDS43696	31918	213	70	7353368	7366833	1	None	HsT21816
11	None	ENSG00000255260	ENST00000524855	lincRNA	KNOWN	None	None	None	None	11264735	11265262	-1	None	None
6	None	ENSG00000227535	ENST00000422930	antisense	KNOWN	None	None	None	None	105278973	105293693	1	None	None
8	None	ENSG00000221320	ENST00000408393	miRNA	NOVEL	None	None	None	None	9945431	9945541	1	None	None
2	RGPD8	ENSG00000169629	ENST00000302558	protein_coding	KNOWN	CCDS46394	9849	5298	1765	113127669	113191222	-1	RANBP2L1	RanBP2alpha
2	RGPD8	ENSG00000169629	ENST00000409750	protein_coding	NOVEL	None	9849	4878	1625	113127669	113192065	-1	RANBP2L1	RanBP2alpha
2	RGPD8	ENSG00000169629	ENST00000522286	nonsense_mediated_decay	KNOWN	None	9849	297	98	113147727	113179596	-1	RANBP2L1	RanBP2alpha
2	RGPD8	ENSG00000169629	ENST00000330575	protein_coding	PUTATIVE	None	9849	2715	904	113150628	113191107	-1	RANBP2L1	RanBP2alpha
2	RGPD8	ENSG00000169629	ENST00000482903	retained_intron	KNOWN	None	9849	None	None	113157672	113159137	-1	RANBP2L1	RanBP2alpha
2	RGPD8	ENSG00000169629	ENST00000496537	protein_coding	PUTATIVE	None	9849	456	151	113175354	113191096	-1	RANBP2L1	RanBP2alpha
2	RGPD8	ENSG00000169629	ENST00000471422	retained_intron	KNOWN	None	9849	None	None	113179113	113180193	-1	RANBP2L1	RanBP2alpha
12	None	ENSG00000263913	ENST00000582675	miRNA	NOVEL	None	None	None	None	120609843	120609930	-1	None	None
1	CAPZB	ENSG00000077549	ENST00000264203	protein_coding	KNOWN	None	1491	783	260	19665270	19812007	-1	None	None
1	CAPZB	ENSG00000077549	ENST00000375144	protein_coding	KNOWN	None	1491	783	260	19665273	19746245	-1	None	None
1	CAPZB	ENSG00000077549	ENST00000375142	protein_coding	KNOWN	CCDS55579	1491	834	277	19665317	19811979	-1	None	None
1	CAPZB	ENSG00000077549	ENST00000433834	protein_coding	KNOWN	None	1491	906	301	19665853	19811158	-1	None	None
1	CAPZB	ENSG00000077549	ENST00000413711	protein_coding	KNOWN	None	1491	618	205	19671681	19810579	-1	None	None
1	CAPZB	ENSG00000077549	ENST00000459967	processed_transcript	KNOWN	None	1491	None	None	19683149	19812033	-1	None	None
1	CAPZB	ENSG00000077549	ENST00000457768	protein_coding	KNOWN	None	1491	364	120	19683939	19712291	-1	None	None
1	CAPZB	ENSG00000077549	ENST00000489607	processed_transcript	KNOWN	None	1491	None	None	19684016	19746638	-1	None	None
1	CAPZB	ENSG00000077549	ENST00000482808	processed_transcript	KNOWN	None	1491	None	None	19700669	19811982	-1	None	None
1	CAPZB	ENSG00000077549	ENST00000401084	protein_coding	KNOWN	CCDS41277	1491	819	272	19665267	19812066	-1	None	None
1	CAPZB	ENSG00000077549	ENST00000264202	protein_coding	KNOWN	CCDS55579	1491	834	277	19669256	19811981	-1	None	None
4	TBCAP3	ENSG00000249055	ENST00000512475	transcribed_processed_pseudogene	KNOWN	None	42632	None	None	99830688	99830999	-1	None	None
15	SNORD115-3	ENSG00000199970	ENST00000363100	snoRNA	KNOWN	None	33022	None	None	25420074	25420155	1	None	HBII-52-3
3	None	ENSG00000238642	ENST00000459242	snoRNA	NOVEL	None	None	None	None	10175069	10175172	1	None	None
18	None	ENSG00000260552	ENST00000568654	antisense	KNOWN	None	None	None	None	33759959	33767411	-1	None	None
4	ANTXR2	ENSG00000163297	ENST00000403729	protein_coding	KNOWN	CCDS47085	21732	1467	488	80822303	80994240	-1	None	CMG2, CMG-2, FLJ31074
4	ANTXR2	ENSG00000163297	ENST00000449651	nonsense_mediated_decay	KNOWN	None	21732	738	245	80826725	80992774	-1	None	CMG2, CMG-2, FLJ31074
4	ANTXR2	ENSG00000163297	ENST00000482406	processed_transcript	KNOWN	None	21732	None	None	80827916	80886044	-1	None	CMG2, CMG-2, FLJ31074
4	ANTXR2	ENSG00000163297	ENST00000491345	processed_transcript	KNOWN	None	21732	None	None	80828324	80886251	-1	None	CMG2, CMG-2, FLJ31074
4	ANTXR2	ENSG00000163297	ENST00000404191	protein_coding	NOVEL	None	21732	1236	411	80828507	80994626	-1	None	CMG2, CMG-2, FLJ31074
4	ANTXR2	ENSG00000163297	ENST00000346652	protein_coding	KNOWN	None	21732	1161	386	80898691	80993854	-1	None	CMG2, CMG-2, FLJ31074
4	ANTXR2	ENSG00000163297	ENST00000307333	protein_coding	KNOWN	CCDS47086	21732	1470	489	80898733	80993717	-1	None	CMG2, CMG-2, FLJ31074
4	ANTXR2	ENSG00000163297	ENST00000514959	processed_transcript	KNOWN	None	21732	None	None	80975435	81000754	-1	None	CMG2, CMG-2, FLJ31074
4	ANTXR2	ENSG00000163297	ENST00000506286	processed_transcript	KNOWN	None	21732	None	None	80990590	81046608	-1	None	CMG2, CMG-2, FLJ31074
4	ANTXR2	ENSG00000163297	ENST00000295465	protein_coding	KNOWN	None	21732	969	322	80945807	80994477	-1	None	CMG2, CMG-2, FLJ31074
6	None	ENSG00000271099	ENST00000604667	processed_pseudogene	KNOWN	None	None	None	None	105308324	105309998	1	None	None
3	None	ENSG00000238345	ENST00000458986	snoRNA	NOVEL	None	None	None	None	10182834	10182931	1	None	None
3	PRKCI	ENSG00000163558	ENST00000295797	protein_coding	KNOWN	CCDS3212	9404	1791	596	169940153	170023769	1	DXS1179E	PKCI
3	PRKCI	ENSG00000163558	ENST00000488541	retained_intron	KNOWN	None	9404	None	None	169997933	169999026	1	DXS1179E	PKCI
3	PRKCI	ENSG00000163558	ENST00000493761	retained_intron	KNOWN	None	9404	None	None	169998028	169999325	1	DXS1179E	PKCI
3	PRKCI	ENSG00000163558	ENST00000482353	retained_intron	KNOWN	None	9404	None	None	169999398	170002384	1	DXS1179E	PKCI
3	PRKCI	ENSG00000163558	ENST00000476635	retained_intron	KNOWN	None	9404	None	None	170009430	170023765	1	DXS1179E	PKCI
3	PRKCI	ENSG00000163558	ENST00000485837	retained_intron	KNOWN	None	9404	None	None	170011120	170020953	1	DXS1179E	PKCI
3	PRKCI	ENSG00000163558	ENST00000483697	retained_intron	KNOWN	None	9404	None	None	170011135	170015116	1	DXS1179E	PKCI
8	None	ENSG00000249848	ENST00000513168	processed_pseudogene	KNOWN	None	None	None	None	10194292	10195187	-1	None	None
18	None	ENSG00000267404	ENST00000589678	processed_pseudogene	KNOWN	None	None	None	None	33853537	33854562	1	None	None
3	SLC35G2	ENSG00000168917	ENST00000472200	processed_transcript	KNOWN	None	28480	None	None	136537489	136562164	1	TMEM22	MGC3295, DKFZp564K2464
3	SLC35G2	ENSG00000168917	ENST00000446465	protein_coding	KNOWN	CCDS3091	28480	1239	412	136537861	136574734	1	TMEM22	MGC3295, DKFZp564K2464
3	SLC35G2	ENSG00000168917	ENST00000393079	protein_coding	KNOWN	CCDS3091	28480	1239	412	136537926	136574730	1	TMEM22	MGC3295, DKFZp564K2464
11	None	ENSG00000255351	ENST00000526867	antisense	KNOWN	None	None	None	None	11373973	11374854	1	None	None
4	None	ENSG00000263923	ENST00000583654	antisense	KNOWN	None	None	None	None	99850048	99916145	1	None	None
5	SKP2	ENSG00000145604	ENST00000274254	protein_coding	KNOWN	CCDS3915	10901	1233	410	36152091	36184143	1	None	FBXL1, FBL1, p45
5	SKP2	ENSG00000145604	ENST00000274255	protein_coding	KNOWN	CCDS3916	10901	1275	424	36152169	36184421	1	None	FBXL1, FBL1, p45
5	SKP2	ENSG00000145604	ENST00000508514	protein_coding	PUTATIVE	None	10901	654	217	36152224	36182159	1	None	FBXL1, FBL1, p45
5	SKP2	ENSG00000145604	ENST00000513151	protein_coding	NOVEL	None	10901	766	254	36152230	36171835	1	None	FBXL1, FBL1, p45
5	SKP2	ENSG00000145604	ENST00000509692	nonsense_mediated_decay	KNOWN	None	10901	309	102	36152230	36182616	1	None	FBXL1, FBL1, p45
5	SKP2	ENSG00000145604	ENST00000513263	nonsense_mediated_decay	KNOWN	None	10901	309	102	36152271	36170486	1	None	FBXL1, FBL1, p45
5	SKP2	ENSG00000145604	ENST00000504386	nonsense_mediated_decay	KNOWN	None	10901	243	80	36153033	36184131	1	None	FBXL1, FBL1, p45
5	SKP2	ENSG00000145604	ENST00000546211	protein_coding	KNOWN	CCDS58944	10901	633	210	36152230	36182616	1	None	FBXL1, FBL1, p45
3	None	ENSG00000239576	ENST00000469580	processed_pseudogene	KNOWN	None	None	None	None	49795916	49796089	1	None	None
6	LINC00577	ENSG00000203809	ENST00000369123	lincRNA	KNOWN	None	21553	None	None	105384169	105388402	-1	C6orf220	dJ439I14.1
15	None	ENSG00000212279	ENST00000390977	snoRNA	NOVEL	None	None	None	None	74783300	74783369	-1	None	None
12	PXN-AS1	ENSG00000255857	ENST00000542265	antisense	KNOWN	None	44123	None	None	120639094	120650722	1	None	EyeLinc4
12	PXN-AS1	ENSG00000255857	ENST00000542314	antisense	KNOWN	None	44123	None	None	120639130	120648322	1	None	EyeLinc4
12	PXN-AS1	ENSG00000255857	ENST00000538804	antisense	KNOWN	None	44123	None	None	120639159	120647910	1	None	EyeLinc4
12	PXN-AS1	ENSG00000255857	ENST00000539446	antisense	KNOWN	None	44123	None	None	120639159	120649315	1	None	EyeLinc4
12	PXN-AS1	ENSG00000255857	ENST00000535200	antisense	KNOWN	None	44123	None	None	120639174	120650941	1	None	EyeLinc4
18	None	ENSG00000267456	ENST00000593113	processed_pseudogene	KNOWN	None	None	None	None	33858698	33859082	-1	None	None
9	FNBP1	ENSG00000187239	ENST00000446176	protein_coding	KNOWN	CCDS48040	17069	1854	617	132649466	132805441	-1	None	FBP17, KIAA0554
9	FNBP1	ENSG00000187239	ENST00000449089	protein_coding	PUTATIVE	None	17069	1706	567	132657547	132757146	-1	None	FBP17, KIAA0554
9	FNBP1	ENSG00000187239	ENST00000355681	protein_coding	PUTATIVE	None	17069	1779	592	132658091	132805446	-1	None	FBP17, KIAA0554
9	FNBP1	ENSG00000187239	ENST00000478129	processed_transcript	KNOWN	None	17069	None	None	132662247	132689506	-1	None	FBP17, KIAA0554
9	FNBP1	ENSG00000187239	ENST00000462766	processed_transcript	KNOWN	None	17069	None	None	132662272	132678522	-1	None	FBP17, KIAA0554
9	FNBP1	ENSG00000187239	ENST00000482107	processed_transcript	KNOWN	None	17069	None	None	132681298	132687348	-1	None	FBP17, KIAA0554
9	FNBP1	ENSG00000187239	ENST00000491905	processed_transcript	KNOWN	None	17069	None	None	132740626	132757214	-1	None	FBP17, KIAA0554
9	FNBP1	ENSG00000187239	ENST00000420781	protein_coding	KNOWN	None	17069	1827	608	132649466	132805473	-1	None	FBP17, KIAA0554
9	FNBP1	ENSG00000187239	ENST00000443566	protein_coding	KNOWN	None	17069	738	245	132652664	132681589	-1	None	FBP17, KIAA0554
5	None	ENSG00000250164	ENST00000509629	lincRNA	KNOWN	None	None	None	None	31747751	31748185	-1	None	None
7	None	ENSG00000228030	ENST00000457337	processed_pseudogene	KNOWN	None	None	None	None	158512421	158512852	1	None	None
14	IGHV3-50	ENSG00000253241	ENST00000522107	IG_V_pseudogene	KNOWN	None	5608	None	None	107022105	107022543	-1	None	None
2	AGAP1	ENSG00000157985	ENST00000409457	protein_coding	NOVEL	CCDS58756	16922	1218	405	236402733	236761846	1	CENTG2	KIAA1099, GGAP1
2	AGAP1	ENSG00000157985	ENST00000304032	protein_coding	KNOWN	CCDS33408	16922	2574	857	236402751	237035198	1	CENTG2	KIAA1099, GGAP1
2	AGAP1	ENSG00000157985	ENST00000336665	protein_coding	KNOWN	CCDS2514	16922	2415	804	236402751	237035198	1	CENTG2	KIAA1099, GGAP1
2	AGAP1	ENSG00000157985	ENST00000402604	protein_coding	PUTATIVE	None	16922	351	116	236432968	236653455	1	CENTG2	KIAA1099, GGAP1
2	AGAP1	ENSG00000157985	ENST00000409538	protein_coding	PUTATIVE	None	16922	3210	1069	236578248	237035198	1	CENTG2	KIAA1099, GGAP1
2	AGAP1	ENSG00000157985	ENST00000448025	protein_coding	NOVEL	None	16922	757	251	236792039	236945341	1	CENTG2	KIAA1099, GGAP1
2	AGAP1	ENSG00000157985	ENST00000418654	protein_coding	NOVEL	None	16922	826	274	236817486	237028890	1	CENTG2	KIAA1099, GGAP1
2	AGAP1	ENSG00000157985	ENST00000466575	retained_intron	KNOWN	None	16922	None	None	236949256	237028923	1	CENTG2	KIAA1099, GGAP1
2	AGAP1	ENSG00000157985	ENST00000482882	retained_intron	KNOWN	None	16922	None	None	236949395	236958475	1	CENTG2	KIAA1099, GGAP1
2	AGAP1	ENSG00000157985	ENST00000453371	protein_coding	NOVEL	None	16922	778	258	236954581	237034126	1	CENTG2	KIAA1099, GGAP1
2	AGAP1	ENSG00000157985	ENST00000428334	protein_coding	KNOWN	None	16922	2091	696	236653408	237033319	1	CENTG2	KIAA1099, GGAP1
HSCHR6_MHC_MCF	RING1	ENSG00000231115	ENST00000427374	protein_coding	KNOWN	None	10018	1221	406	33346636	33350863	1	None	RNF1
HSCHR6_MHC_MCF	RING1	ENSG00000231115	ENST00000472412	processed_transcript	PUTATIVE	None	10018	None	None	33347701	33350863	1	None	RNF1
HSCHR16_1_CTG3_1	CES1	ENSG00000262243	ENST00000561966	nonsense_mediated_decay	KNOWN	None	1863	135	44	55849157	55859285	-1	None	HMSE, CES2, HMSE1, SES1, CEH, CES1A1, CES1A2
HSCHR16_1_CTG3_1	CES1	ENSG00000262243	ENST00000571922	protein_coding	KNOWN	None	1863	1704	567	55849160	55879452	-1	None	HMSE, CES2, HMSE1, SES1, CEH, CES1A1, CES1A2
HSCHR16_1_CTG3_1	CES1	ENSG00000262243	ENST00000576783	protein_coding	KNOWN	None	1863	1701	566	55849160	55879488	-1	None	HMSE, CES2, HMSE1, SES1, CEH, CES1A1, CES1A2
HSCHR16_1_CTG3_1	CES1	ENSG00000262243	ENST00000574513	protein_coding	KNOWN	None	1863	1707	568	55849160	55879488	-1	None	HMSE, CES2, HMSE1, SES1, CEH, CES1A1, CES1A2
HSCHR16_1_CTG3_1	CES1	ENSG00000262243	ENST00000576185	protein_coding	NOVEL	None	1863	405	134	55849242	55856974	-1	None	HMSE, CES2, HMSE1, SES1, CEH, CES1A1, CES1A2
HSCHR16_1_CTG3_1	CES1	ENSG00000262243	ENST00000574235	nonsense_mediated_decay	KNOWN	None	1863	253	83	55856881	55865891	-1	None	HMSE, CES2, HMSE1, SES1, CEH, CES1A1, CES1A2
HSCHR16_1_CTG3_1	CES1	ENSG00000262243	ENST00000570390	retained_intron	KNOWN	None	1863	None	None	55866315	55879434	-1	None	HMSE, CES2, HMSE1, SES1, CEH, CES1A1, CES1A2
HSCHR16_1_CTG3_1	CES1	ENSG00000262243	ENST00000576766	retained_intron	KNOWN	None	1863	None	None	55866640	55879442	-1	None	HMSE, CES2, HMSE1, SES1, CEH, CES1A1, CES1A2
HSCHR16_1_CTG3_1	CES1	ENSG00000262243	ENST00000576192	processed_transcript	KNOWN	None	1863	None	None	55867740	55874489	-1	None	HMSE, CES2, HMSE1, SES1, CEH, CES1A1, CES1A2
22	NEK2P2	ENSG00000231565	ENST00000438441	processed_pseudogene	KNOWN	None	37816	None	None	16364867	16366204	1	None	None
1	None	ENSG00000217801	ENST00000427998	processed_transcript	KNOWN	None	None	None	None	995114	1001836	1	None	None
1	None	ENSG00000217801	ENST00000394517	processed_transcript	KNOWN	None	None	None	None	996400	1001385	1	None	None
1	None	ENSG00000217801	ENST00000442292	processed_transcript	PUTATIVE	None	None	None	None	997588	998668	1	None	None
1	None	ENSG00000217801	ENST00000412397	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	998456	1004735	1	None	None
1	None	ENSG00000217801	ENST00000456409	processed_transcript	KNOWN	None	None	None	None	998459	1001836	1	None	None
1	None	ENSG00000217801	ENST00000433695	processed_transcript	PUTATIVE	None	None	None	None	999875	1001654	1	None	None
1	None	ENSG00000217801	ENST00000451054	processed_transcript	PUTATIVE	None	None	None	None	999898	1001821	1	None	None
3	RNU6-814P	ENSG00000222348	ENST00000410416	snRNA	KNOWN	None	47777	None	None	10258896	10259003	1	None	None
11	SPTBN2	ENSG00000173898	ENST00000533211	protein_coding	KNOWN	CCDS8150	11276	7173	2390	66452719	66496430	-1	SCA5	None
11	SPTBN2	ENSG00000173898	ENST00000529997	protein_coding	KNOWN	None	11276	7098	2365	66452723	66488711	-1	SCA5	None
11	SPTBN2	ENSG00000173898	ENST00000528051	retained_intron	KNOWN	None	11276	None	None	66453123	66453988	-1	SCA5	None
11	SPTBN2	ENSG00000173898	ENST00000530775	retained_intron	KNOWN	None	11276	None	None	66454264	66454995	-1	SCA5	None
11	SPTBN2	ENSG00000173898	ENST00000532650	retained_intron	KNOWN	None	11276	None	None	66455083	66456388	-1	SCA5	None
11	SPTBN2	ENSG00000173898	ENST00000532902	retained_intron	KNOWN	None	11276	None	None	66456292	66457829	-1	SCA5	None
11	SPTBN2	ENSG00000173898	ENST00000530665	retained_intron	KNOWN	None	11276	None	None	66461806	66466278	-1	SCA5	None
11	SPTBN2	ENSG00000173898	ENST00000527010	protein_coding	KNOWN	None	11276	351	116	66482825	66496697	-1	SCA5	None
11	SPTBN2	ENSG00000173898	ENST00000309996	protein_coding	KNOWN	CCDS8150	11276	7173	2390	66452721	66488870	-1	SCA5	None
5	None	ENSG00000249688	ENST00000515522	sense_intronic	KNOWN	None	None	None	None	31754326	31754763	1	None	None
18	None	ENSG00000252078	ENST00000516269	snoRNA	NOVEL	None	None	None	None	34222576	34222647	-1	None	None
14	RNU1-28P	ENSG00000206588	ENST00000383861	snRNA	KNOWN	None	37498	None	None	35025432	35025595	-1	RNU1-8, RNU1-8P	None
12	None	ENSG00000256799	ENST00000537929	processed_pseudogene	KNOWN	None	None	None	None	4744515	4745306	-1	None	None
11	OR4A3P	ENSG00000254464	ENST00000532193	unprocessed_pseudogene	KNOWN	None	15160	None	None	51455830	51456700	-1	None	None
6	RNU6-1106P	ENSG00000212147	ENST00000390845	snRNA	KNOWN	None	48069	None	None	105493437	105493543	-1	None	None
18	None	ENSG00000267039	ENST00000586106	antisense	KNOWN	None	None	None	None	34481909	34503777	-1	None	None
5	RNU6-358P	ENSG00000252373	ENST00000516564	snRNA	KNOWN	None	47321	None	None	31820671	31820745	-1	None	None
15	None	ENSG00000260919	ENST00000565737	antisense	KNOWN	None	None	None	None	74905535	74907937	-1	None	None
X	TUBB4AP1	ENSG00000228466	ENST00000450755	processed_pseudogene	KNOWN	None	42340	None	None	122695493	122696817	1	None	None
5	None	ENSG00000224282	ENST00000463864	processed_pseudogene	KNOWN	None	None	None	None	31822668	31823243	-1	None	None
3	LINC00852	ENSG00000231177	ENST00000475197	antisense	KNOWN	None	29904	None	None	10326103	10327430	1	C3orf42, GHRLOS2	NAG73, GHRL-AS2
3	LINC00852	ENSG00000231177	ENST00000538717	antisense	KNOWN	None	29904	None	None	10326103	10327429	1	C3orf42, GHRLOS2	NAG73, GHRL-AS2
18	None	ENSG00000267651	ENST00000589715	lincRNA	KNOWN	None	None	None	None	34814082	34816205	-1	None	None
2	ZAP70	ENSG00000115085	ENST00000264972	protein_coding	KNOWN	CCDS33254	12858	1860	619	98330023	98356323	1	SRK	ZAP-70, STD
2	ZAP70	ENSG00000115085	ENST00000483781	retained_intron	KNOWN	None	12858	None	None	98330045	98350245	1	SRK	ZAP-70, STD
2	ZAP70	ENSG00000115085	ENST00000463643	processed_transcript	KNOWN	None	12858	None	None	98340924	98356325	1	SRK	ZAP-70, STD
2	ZAP70	ENSG00000115085	ENST00000498836	retained_intron	KNOWN	None	12858	None	None	98349165	98349887	1	SRK	ZAP-70, STD
2	ZAP70	ENSG00000115085	ENST00000487283	retained_intron	KNOWN	None	12858	None	None	98349392	98356322	1	SRK	ZAP-70, STD
2	ZAP70	ENSG00000115085	ENST00000451498	protein_coding	KNOWN	CCDS33255	12858	939	312	98350869	98355961	1	SRK	ZAP-70, STD
2	ZAP70	ENSG00000115085	ENST00000495754	retained_intron	KNOWN	None	12858	None	None	98351693	98354474	1	SRK	ZAP-70, STD
2	ZAP70	ENSG00000115085	ENST00000489250	retained_intron	KNOWN	None	12858	None	None	98354285	98355040	1	SRK	ZAP-70, STD
2	ZAP70	ENSG00000115085	ENST00000442208	protein_coding	KNOWN	None	12858	1482	493	98341333	98356323	1	SRK	ZAP-70, STD
4	LEF1	ENSG00000138795	ENST00000265165	protein_coding	KNOWN	CCDS3679	6551	1200	399	108968701	109089578	-1	None	TCF1ALPHA, TCF10, TCF7L3
4	LEF1	ENSG00000138795	ENST00000503879	processed_transcript	KNOWN	None	6551	None	None	108968729	108999508	-1	None	TCF1ALPHA, TCF10, TCF7L3
4	LEF1	ENSG00000138795	ENST00000504426	processed_transcript	KNOWN	None	6551	None	None	108968748	108992934	-1	None	TCF1ALPHA, TCF10, TCF7L3
4	LEF1	ENSG00000138795	ENST00000505379	processed_transcript	KNOWN	None	6551	None	None	108969325	109004569	-1	None	TCF1ALPHA, TCF10, TCF7L3
4	LEF1	ENSG00000138795	ENST00000514444	processed_transcript	KNOWN	None	6551	None	None	108969456	108999538	-1	None	TCF1ALPHA, TCF10, TCF7L3
4	LEF1	ENSG00000138795	ENST00000505297	processed_transcript	KNOWN	None	6551	None	None	108969510	108994052	-1	None	TCF1ALPHA, TCF10, TCF7L3
4	LEF1	ENSG00000138795	ENST00000510135	processed_transcript	KNOWN	None	6551	None	None	108969533	109086411	-1	None	TCF1ALPHA, TCF10, TCF7L3
4	LEF1	ENSG00000138795	ENST00000438313	protein_coding	KNOWN	CCDS47123	6551	1116	371	108969573	109088954	-1	None	TCF1ALPHA, TCF10, TCF7L3
4	LEF1	ENSG00000138795	ENST00000507470	retained_intron	KNOWN	None	6551	None	None	108969683	108992051	-1	None	TCF1ALPHA, TCF10, TCF7L3
4	LEF1	ENSG00000138795	ENST00000509428	processed_transcript	KNOWN	None	6551	None	None	108969753	109086351	-1	None	TCF1ALPHA, TCF10, TCF7L3
4	LEF1	ENSG00000138795	ENST00000512407	processed_transcript	KNOWN	None	6551	None	None	108969791	108993407	-1	None	TCF1ALPHA, TCF10, TCF7L3
4	LEF1	ENSG00000138795	ENST00000510624	protein_coding	PUTATIVE	CCDS54791	6551	912	303	108969795	109087877	-1	None	TCF1ALPHA, TCF10, TCF7L3
4	LEF1	ENSG00000138795	ENST00000506680	nonsense_mediated_decay	KNOWN	None	6551	990	329	108984785	109088923	-1	None	TCF1ALPHA, TCF10, TCF7L3
4	LEF1	ENSG00000138795	ENST00000505328	retained_intron	KNOWN	None	6551	None	None	108991586	108999561	-1	None	TCF1ALPHA, TCF10, TCF7L3
4	LEF1	ENSG00000138795	ENST00000504775	processed_transcript	KNOWN	None	6551	None	None	108991818	109088750	-1	None	TCF1ALPHA, TCF10, TCF7L3
4	LEF1	ENSG00000138795	ENST00000504950	nonsense_mediated_decay	KNOWN	None	6551	402	133	108999481	109087442	-1	None	TCF1ALPHA, TCF10, TCF7L3
4	LEF1	ENSG00000138795	ENST00000515500	protein_coding	PUTATIVE	None	6551	520	172	109002740	109087953	-1	None	TCF1ALPHA, TCF10, TCF7L3
4	LEF1	ENSG00000138795	ENST00000510717	processed_transcript	KNOWN	None	6551	None	None	109002777	109086413	-1	None	TCF1ALPHA, TCF10, TCF7L3
4	LEF1	ENSG00000138795	ENST00000512172	protein_coding	PUTATIVE	None	6551	438	145	109004369	109087457	-1	None	TCF1ALPHA, TCF10, TCF7L3
4	LEF1	ENSG00000138795	ENST00000505293	processed_transcript	KNOWN	None	6551	None	None	109004524	109087952	-1	None	TCF1ALPHA, TCF10, TCF7L3
4	LEF1	ENSG00000138795	ENST00000379951	protein_coding	KNOWN	CCDS47122	6551	1161	386	108968701	109090112	-1	None	TCF1ALPHA, TCF10, TCF7L3
6	BVES-AS1	ENSG00000203808	ENST00000580511	antisense	KNOWN	None	21223	None	None	105584183	105616776	1	C6orf112	bA99L11.2
6	BVES-AS1	ENSG00000203808	ENST00000580854	antisense	KNOWN	None	21223	None	None	105585166	105616858	1	C6orf112	bA99L11.2
6	BVES-AS1	ENSG00000203808	ENST00000369122	antisense	KNOWN	None	21223	None	None	105585562	105617820	1	C6orf112	bA99L11.2
6	BVES-AS1	ENSG00000203808	ENST00000369120	antisense	KNOWN	None	21223	None	None	105585698	105606912	1	C6orf112	bA99L11.2
15	MIR4513	ENSG00000264386	ENST00000581077	miRNA	KNOWN	None	41855	None	None	75081013	75081098	-1	None	hsa-mir-4513
18	None	ENSG00000267707	ENST00000589281	antisense	KNOWN	None	None	None	None	34823739	34827179	1	None	None
3	None	ENSG00000244730	ENST00000463176	processed_pseudogene	KNOWN	None	None	None	None	49812718	49813047	1	None	None
14	IGHVIII-51-1	ENSG00000254167	ENST00000519403	IG_V_pseudogene	KNOWN	None	5704	None	None	107039493	107039794	-1	None	IGHV(III)-51-1
17	None	ENSG00000266302	ENST00000448331	nonsense_mediated_decay	KNOWN	None	None	4278	1425	16593575	16707767	1	None	None
15	SNORD115-4	ENSG00000200680	ENST00000363810	snoRNA	KNOWN	None	33023	None	None	25421979	25422060	1	None	HBII-52-4
11	None	ENSG00000255443	ENST00000528869	antisense	KNOWN	None	None	None	None	35231890	35236532	-1	None	None
8	RNU7-102P	ENSG00000238808	ENST00000458948	snRNA	KNOWN	None	45636	None	None	70022748	70022809	-1	None	None
18	None	ENSG00000267202	ENST00000588766	antisense	KNOWN	None	None	None	None	34853669	34856535	1	None	None
18	None	ENSG00000267202	ENST00000586610	antisense	KNOWN	None	None	None	None	34854423	34856363	1	None	None
11	None	ENSG00000255462	ENST00000527726	antisense	KNOWN	None	None	None	None	11591631	11595329	1	None	None
15	SNORD115-5	ENSG00000200503	ENST00000363633	snoRNA	KNOWN	None	33024	None	None	25423885	25423966	1	None	HBII-52-5
3	OXSR1	ENSG00000172939	ENST00000492714	processed_transcript	KNOWN	None	8508	None	None	38206580	38224538	1	OSR1	KIAA1101
3	OXSR1	ENSG00000172939	ENST00000446845	protein_coding	NOVEL	None	8508	1407	468	38206996	38291670	1	OSR1	KIAA1101
3	OXSR1	ENSG00000172939	ENST00000311806	protein_coding	KNOWN	CCDS2675	8508	1584	527	38206996	38296979	1	OSR1	KIAA1101
3	OXSR1	ENSG00000172939	ENST00000426620	nonsense_mediated_decay	KNOWN	None	8508	342	113	38207138	38272184	1	OSR1	KIAA1101
3	OXSR1	ENSG00000172939	ENST00000483695	retained_intron	KNOWN	None	8508	None	None	38257585	38266560	1	OSR1	KIAA1101
3	OXSR1	ENSG00000172939	ENST00000467900	retained_intron	KNOWN	None	8508	None	None	38278152	38292903	1	OSR1	KIAA1101
6	SLC35B3	ENSG00000124786	ENST00000379660	protein_coding	KNOWN	CCDS4508	21601	1206	401	8413301	8435716	-1	C6orf196	CGI-19, dJ453H5.1, PAPST2
6	SLC35B3	ENSG00000124786	ENST00000339306	protein_coding	KNOWN	None	21601	852	283	8419047	8435794	-1	C6orf196	CGI-19, dJ453H5.1, PAPST2
6	SLC35B3	ENSG00000124786	ENST00000426876	protein_coding	KNOWN	None	21601	657	218	8427570	8435776	-1	C6orf196	CGI-19, dJ453H5.1, PAPST2
8	None	ENSG00000254332	ENST00000520239	processed_pseudogene	KNOWN	None	None	None	None	70041833	70042580	1	None	None
7	LINC00689	ENSG00000231419	ENST00000417032	lincRNA	KNOWN	None	27217	None	None	158799213	158801480	1	None	None
7	LINC00689	ENSG00000231419	ENST00000447563	lincRNA	KNOWN	None	27217	None	None	158801045	158815371	1	None	None
7	LINC00689	ENSG00000231419	ENST00000438049	antisense	KNOWN	None	27217	None	None	158801112	158818929	1	None	None
7	LINC00689	ENSG00000231419	ENST00000413238	lincRNA	KNOWN	None	27217	None	None	158810099	158822886	1	None	None
19	JAK3	ENSG00000105639	ENST00000527031	retained_intron	KNOWN	None	6193	None	None	17935589	17958800	-1	None	L-JAK, JAKL, LJAK, JAK3_HUMAN, JAK-3
19	JAK3	ENSG00000105639	ENST00000527670	protein_coding	KNOWN	CCDS12366	6193	3375	1124	17936961	17955256	-1	None	L-JAK, JAKL, LJAK, JAK3_HUMAN, JAK-3
19	JAK3	ENSG00000105639	ENST00000534444	protein_coding	KNOWN	None	6193	3285	1094	17940597	17958826	-1	None	L-JAK, JAKL, LJAK, JAK3_HUMAN, JAK-3
19	JAK3	ENSG00000105639	ENST00000526008	processed_transcript	KNOWN	None	6193	None	None	17949079	17958841	-1	None	L-JAK, JAKL, LJAK, JAK3_HUMAN, JAK-3
19	JAK3	ENSG00000105639	ENST00000528705	retained_intron	KNOWN	None	6193	None	None	17950233	17953334	-1	None	L-JAK, JAKL, LJAK, JAK3_HUMAN, JAK-3
19	JAK3	ENSG00000105639	ENST00000528293	retained_intron	KNOWN	None	6193	None	None	17953244	17958880	-1	None	L-JAK, JAKL, LJAK, JAK3_HUMAN, JAK-3
19	JAK3	ENSG00000105639	ENST00000458235	protein_coding	KNOWN	CCDS12366	6193	3375	1124	17935595	17958841	-1	None	L-JAK, JAKL, LJAK, JAK3_HUMAN, JAK-3
14	None	ENSG00000259135	ENST00000554608	antisense	KNOWN	None	None	None	None	35025980	35030466	1	None	None
14	None	ENSG00000259135	ENST00000555361	antisense	KNOWN	None	None	None	None	35029987	35030504	1	None	None
20	VSTM2L	ENSG00000132821	ENST00000373461	protein_coding	KNOWN	CCDS13299	16096	615	204	36531506	36573752	1	C20orf102	dJ1118M15.2
20	VSTM2L	ENSG00000132821	ENST00000373459	protein_coding	PUTATIVE	None	16096	399	132	36531513	36572852	1	C20orf102	dJ1118M15.2
20	VSTM2L	ENSG00000132821	ENST00000448944	protein_coding	KNOWN	None	16096	447	148	36531544	36572538	1	C20orf102	dJ1118M15.2
20	VSTM2L	ENSG00000132821	ENST00000373458	protein_coding	KNOWN	None	16096	564	187	36531499	36573745	1	C20orf102	dJ1118M15.2
8	None	ENSG00000253738	ENST00000522817	antisense	KNOWN	None	None	None	None	92072137	92082351	-1	None	None
8	None	ENSG00000253738	ENST00000524003	antisense	KNOWN	None	None	None	None	92080139	92082417	-1	None	None
7	PSMC1P3	ENSG00000231244	ENST00000453822	processed_pseudogene	KNOWN	None	39778	None	None	136398618	136399935	1	None	None
12	None	ENSG00000256381	ENST00000544380	lincRNA	KNOWN	None	None	None	None	4754662	4757193	1	None	None
11	MIR4299	ENSG00000266645	ENST00000577899	miRNA	KNOWN	None	38329	None	None	11678198	11678269	-1	None	hsa-mir-4299
17	GH2	ENSG00000136487	ENST00000449787	protein_coding	KNOWN	CCDS45758	4262	609	202	61957578	61959202	-1	None	GH-V, GHV, GHL, hGH-V
17	GH2	ENSG00000136487	ENST00000456543	protein_coding	KNOWN	CCDS45757	4262	738	245	61957578	61959202	-1	None	GH-V, GHV, GHL, hGH-V
17	GH2	ENSG00000136487	ENST00000423893	protein_coding	KNOWN	CCDS11647	4262	654	217	61957578	61959223	-1	None	GH-V, GHV, GHL, hGH-V
17	GH2	ENSG00000136487	ENST00000332800	protein_coding	KNOWN	CCDS11648	4262	771	256	61957584	61959295	-1	None	GH-V, GHV, GHL, hGH-V
18	MIR4318	ENSG00000266530	ENST00000580543	miRNA	KNOWN	None	38333	None	None	35237098	35237178	1	None	hsa-mir-4318
6	None	ENSG00000221544	ENST00000408617	miRNA	NOVEL	None	None	None	None	105629024	105629107	-1	None	None
X	None	ENSG00000234413	ENST00000454989	processed_pseudogene	KNOWN	None	None	None	None	53370192	53370711	1	None	None
1	ZNHIT6	ENSG00000117174	ENST00000370574	protein_coding	KNOWN	CCDS707	26089	1413	470	86118491	86174101	-1	C1orf181	FLJ20729, NY-BR-75, BCD1
1	ZNHIT6	ENSG00000117174	ENST00000431532	protein_coding	KNOWN	CCDS53338	26089	1296	431	86115106	86174116	-1	C1orf181	FLJ20729, NY-BR-75, BCD1
6	None	ENSG00000252918	ENST00000517109	miRNA	NOVEL	None	None	None	None	105644728	105644811	-1	None	None
6	LINC00240	ENSG00000224843	ENST00000607607	lincRNA	KNOWN	None	18772	None	None	26924771	26942146	1	C6orf41, NCRNA00240	bA373D17.1
6	LINC00240	ENSG00000224843	ENST00000606878	lincRNA	KNOWN	None	18772	None	None	26924772	26991703	1	C6orf41, NCRNA00240	bA373D17.1
6	LINC00240	ENSG00000224843	ENST00000424968	lincRNA	KNOWN	None	18772	None	None	26988232	26991703	1	C6orf41, NCRNA00240	bA373D17.1
6	LINC00240	ENSG00000224843	ENST00000420081	lincRNA	KNOWN	None	18772	None	None	26988415	26991703	1	C6orf41, NCRNA00240	bA373D17.1
12	None	ENSG00000255474	ENST00000527518	lincRNA	KNOWN	None	None	None	None	4809583	4829268	-1	None	None
18	None	ENSG00000243516	ENST00000467028	processed_pseudogene	KNOWN	None	None	None	None	35252652	35253139	1	None	None
HSCHR6_MHC_APD	PRRT1	ENSG00000238056	ENST00000488501	processed_transcript	KNOWN	None	13943	None	None	32127476	32128974	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_APD	PRRT1	ENSG00000238056	ENST00000460171	retained_intron	KNOWN	None	13943	None	None	32127476	32131040	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_APD	PRRT1	ENSG00000238056	ENST00000484522	processed_transcript	KNOWN	None	13943	None	None	32127476	32131054	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_APD	PRRT1	ENSG00000238056	ENST00000451329	protein_coding	KNOWN	None	13943	921	306	32127476	32131069	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_APD	PRRT1	ENSG00000238056	ENST00000445122	protein_coding	KNOWN	None	13943	678	225	32127476	32132201	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_APD	PRRT1	ENSG00000238056	ENST00000444218	protein_coding	KNOWN	None	13943	188	61	32129612	32133491	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_APD	PRRT1	ENSG00000238056	ENST00000487768	processed_transcript	KNOWN	None	13943	None	None	32131099	32133078	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_APD	PRRT1	ENSG00000238056	ENST00000492056	processed_transcript	KNOWN	None	13943	None	None	32131920	32133026	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_APD	PRRT1	ENSG00000238056	ENST00000476516	processed_transcript	KNOWN	None	13943	None	None	32131920	32133451	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_APD	PRRT1	ENSG00000238056	ENST00000477877	processed_transcript	KNOWN	None	13943	None	None	32131920	32133483	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_APD	PRRT1	ENSG00000238056	ENST00000494041	processed_transcript	KNOWN	None	13943	None	None	32132458	32133457	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_APD	PRRT1	ENSG00000238056	ENST00000463986	processed_transcript	PUTATIVE	None	13943	None	None	32132503	32133444	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_APD	PRRT1	ENSG00000238056	ENST00000552684	protein_coding	KNOWN	None	13943	678	225	32127481	32131220	-1	C6orf31	NG5, IFITMD7
8	None	ENSG00000261451	ENST00000562242	sense_overlapping	KNOWN	None	None	None	None	10291182	10295822	1	None	None
6	None	ENSG00000272102	ENST00000606817	lincRNA	KNOWN	None	None	None	None	105721095	105721635	-1	None	None
11	None	ENSG00000251194	ENST00000510619	sense_intronic	KNOWN	None	None	None	None	35234097	35235554	1	None	None
3	GHRLOS	ENSG00000240288	ENST00000605014	antisense	KNOWN	None	33885	None	None	10327438	10334601	1	None	NCRNA00068, GHRL-AS1
3	GHRLOS	ENSG00000240288	ENST00000605105	antisense	KNOWN	None	33885	None	None	10327438	10334601	1	None	NCRNA00068, GHRL-AS1
3	GHRLOS	ENSG00000240288	ENST00000439539	antisense	KNOWN	None	33885	None	None	10327438	10335133	1	None	NCRNA00068, GHRL-AS1
3	GHRLOS	ENSG00000240288	ENST00000603771	antisense	KNOWN	None	33885	None	None	10329662	10334264	1	None	NCRNA00068, GHRL-AS1
18	None	ENSG00000268566	ENST00000597142	lincRNA	KNOWN	None	None	None	None	36235173	36250958	-1	None	None
18	None	ENSG00000268566	ENST00000597906	lincRNA	KNOWN	None	None	None	None	36235183	36240739	-1	None	None
18	None	ENSG00000268566	ENST00000598549	lincRNA	KNOWN	None	None	None	None	36239213	36267962	-1	None	None
14	None	ENSG00000221077	ENST00000408150	miRNA	NOVEL	None	None	None	None	101369934	101370053	1	None	None
X	None	ENSG00000233250	ENST00000418049	antisense	KNOWN	None	None	None	None	53459670	53459979	-1	None	None
7	MTND2P4	ENSG00000230252	ENST00000445034	unprocessed_pseudogene	KNOWN	None	42105	None	None	63570925	63571928	-1	None	None
14	MIR370	ENSG00000199005	ENST00000362135	miRNA	KNOWN	None	31784	None	None	101377476	101377550	1	MIRN370	hsa-mir-370
X	PRPS2	ENSG00000101911	ENST00000380663	protein_coding	NOVEL	None	9465	441	146	12809474	12828238	1	None	None
X	PRPS2	ENSG00000101911	ENST00000380668	protein_coding	KNOWN	CCDS14150	9465	957	318	12809489	12842341	1	None	None
X	PRPS2	ENSG00000101911	ENST00000398491	protein_coding	KNOWN	CCDS43918	9465	966	321	12809525	12841205	1	None	None
X	PRPS2	ENSG00000101911	ENST00000489404	protein_coding	PUTATIVE	None	9465	603	200	12809607	12828488	1	None	None
X	PRPS2	ENSG00000101911	ENST00000461630	protein_coding	NOVEL	None	9465	522	173	12817474	12841284	1	None	None
19	TMEM86B	ENSG00000180089	ENST00000589190	retained_intron	KNOWN	None	28448	None	None	55738007	55740141	-1	None	MGC30208
19	TMEM86B	ENSG00000180089	ENST00000327042	protein_coding	KNOWN	CCDS12920	28448	681	226	55738116	55740632	-1	None	MGC30208
19	TMEM86B	ENSG00000180089	ENST00000585416	retained_intron	KNOWN	None	28448	None	None	55738119	55740152	-1	None	MGC30208
19	TMEM86B	ENSG00000180089	ENST00000586923	retained_intron	KNOWN	None	28448	None	None	55738587	55741647	-1	None	MGC30208
21	ADARB1	ENSG00000197381	ENST00000462214	processed_transcript	KNOWN	None	226	None	None	46493768	46557241	1	None	ADAR2, DRADA2, ADAR2g, DRABA2, RED1, hRED1, ADAR2a-L1, ADAR2a-L2, ADAR2a-L3, ADAR2a, ADAR2b, ADAR2c, ADAR2d
21	ADARB1	ENSG00000197381	ENST00000460734	processed_transcript	KNOWN	None	226	None	None	46494484	46566210	1	None	ADAR2, DRADA2, ADAR2g, DRABA2, RED1, hRED1, ADAR2a-L1, ADAR2a-L2, ADAR2a-L3, ADAR2a, ADAR2b, ADAR2c, ADAR2d
21	ADARB1	ENSG00000197381	ENST00000389861	nonsense_mediated_decay	KNOWN	None	226	2190	729	46494515	46646475	1	None	ADAR2, DRADA2, ADAR2g, DRABA2, RED1, hRED1, ADAR2a-L1, ADAR2a-L2, ADAR2a-L3, ADAR2a, ADAR2b, ADAR2c, ADAR2d
21	ADARB1	ENSG00000197381	ENST00000492414	nonsense_mediated_decay	KNOWN	CCDS33590	226	2106	701	46494515	46646475	1	None	ADAR2, DRADA2, ADAR2g, DRABA2, RED1, hRED1, ADAR2a-L1, ADAR2a-L2, ADAR2a-L3, ADAR2a, ADAR2b, ADAR2c, ADAR2d
21	ADARB1	ENSG00000197381	ENST00000496664	nonsense_mediated_decay	KNOWN	CCDS33589	226	2226	741	46494515	46646475	1	None	ADAR2, DRADA2, ADAR2g, DRABA2, RED1, hRED1, ADAR2a-L1, ADAR2a-L2, ADAR2a-L3, ADAR2a, ADAR2b, ADAR2c, ADAR2d
21	ADARB1	ENSG00000197381	ENST00000389863	protein_coding	KNOWN	CCDS42970	226	2145	714	46494515	46646475	1	None	ADAR2, DRADA2, ADAR2g, DRABA2, RED1, hRED1, ADAR2a-L1, ADAR2a-L2, ADAR2a-L3, ADAR2a, ADAR2b, ADAR2c, ADAR2d
21	ADARB1	ENSG00000197381	ENST00000348831	protein_coding	KNOWN	CCDS33590	226	2106	701	46494515	46646475	1	None	ADAR2, DRADA2, ADAR2g, DRABA2, RED1, hRED1, ADAR2a-L1, ADAR2a-L2, ADAR2a-L3, ADAR2a, ADAR2b, ADAR2c, ADAR2d
21	ADARB1	ENSG00000197381	ENST00000449478	protein_coding	KNOWN	None	226	425	140	46540815	46596041	1	None	ADAR2, DRADA2, ADAR2g, DRABA2, RED1, hRED1, ADAR2a-L1, ADAR2a-L2, ADAR2a-L3, ADAR2a, ADAR2b, ADAR2c, ADAR2d
21	ADARB1	ENSG00000197381	ENST00000464215	processed_transcript	PUTATIVE	None	226	None	None	46548368	46591674	1	None	ADAR2, DRADA2, ADAR2g, DRABA2, RED1, hRED1, ADAR2a-L1, ADAR2a-L2, ADAR2a-L3, ADAR2a, ADAR2b, ADAR2c, ADAR2d
21	ADARB1	ENSG00000197381	ENST00000360697	protein_coding	KNOWN	CCDS33589	226	2226	741	46591557	46646475	1	None	ADAR2, DRADA2, ADAR2g, DRABA2, RED1, hRED1, ADAR2a-L1, ADAR2a-L2, ADAR2a-L3, ADAR2a, ADAR2b, ADAR2c, ADAR2d
21	ADARB1	ENSG00000197381	ENST00000481022	processed_transcript	KNOWN	None	226	None	None	46596325	46597462	1	None	ADAR2, DRADA2, ADAR2g, DRABA2, RED1, hRED1, ADAR2a-L1, ADAR2a-L2, ADAR2a-L3, ADAR2a, ADAR2b, ADAR2c, ADAR2d
21	ADARB1	ENSG00000197381	ENST00000539173	protein_coding	KNOWN	CCDS33589	226	2226	741	46494493	46646478	1	None	ADAR2, DRADA2, ADAR2g, DRABA2, RED1, hRED1, ADAR2a-L1, ADAR2a-L2, ADAR2a-L3, ADAR2a, ADAR2b, ADAR2c, ADAR2d
21	ADARB1	ENSG00000197381	ENST00000437626	protein_coding	KNOWN	None	226	39	12	46494515	46646474	1	None	ADAR2, DRADA2, ADAR2g, DRABA2, RED1, hRED1, ADAR2a-L1, ADAR2a-L2, ADAR2a-L3, ADAR2a, ADAR2b, ADAR2c, ADAR2d
12	None	ENSG00000256988	ENST00000542988	lincRNA	KNOWN	None	None	None	None	4915708	4917807	-1	None	None
7	None	ENSG00000236294	ENST00000433518	protein_coding	KNOWN	None	None	330	109	113091127	113091457	1	None	None
X	None	ENSG00000235416	ENST00000425348	processed_pseudogene	KNOWN	None	None	None	None	53483220	53483976	-1	None	None
14	None	ENSG00000251769	ENST00000515960	snoRNA	KNOWN	None	None	None	None	101382173	101382230	1	None	None
7	MTND1P2	ENSG00000235646	ENST00000430604	unprocessed_pseudogene	KNOWN	None	42051	None	None	63572130	63572950	-1	None	None
8	None	ENSG00000253135	ENST00000520355	processed_pseudogene	KNOWN	None	None	None	None	41986292	41986767	-1	None	None
3	MIR5193	ENSG00000263506	ENST00000584510	miRNA	KNOWN	None	43534	None	None	49843570	49843678	-1	None	hsa-mir-5193
X	FERP1	ENSG00000232149	ENST00000436391	processed_pseudogene	KNOWN	None	26443	None	None	122736990	122737782	1	FERP	FERps
14	None	ENSG00000252873	ENST00000517064	snoRNA	NOVEL	None	None	None	None	101383915	101383982	1	None	None
19	SMIM7	ENSG00000214046	ENST00000599872	processed_transcript	PUTATIVE	None	28419	None	None	16741562	16742298	-1	C19orf42	MGC2747
19	SMIM7	ENSG00000214046	ENST00000465250	nonsense_mediated_decay	KNOWN	None	28419	150	49	16741562	16770941	-1	C19orf42	MGC2747
19	SMIM7	ENSG00000214046	ENST00000481671	nonsense_mediated_decay	KNOWN	CCDS12348	28419	228	75	16741808	16770941	-1	C19orf42	MGC2747
19	SMIM7	ENSG00000214046	ENST00000594662	nonsense_mediated_decay	KNOWN	None	28419	192	63	16741854	16770877	-1	C19orf42	MGC2747
19	SMIM7	ENSG00000214046	ENST00000597781	nonsense_mediated_decay	KNOWN	CCDS12348	28419	228	75	16741935	16770941	-1	C19orf42	MGC2747
19	SMIM7	ENSG00000214046	ENST00000598278	nonsense_mediated_decay	KNOWN	None	28419	150	49	16742188	16770949	-1	C19orf42	MGC2747
19	SMIM7	ENSG00000214046	ENST00000593409	nonsense_mediated_decay	KNOWN	CCDS12348	28419	228	75	16751726	16770925	-1	C19orf42	MGC2747
19	SMIM7	ENSG00000214046	ENST00000487416	protein_coding	KNOWN	CCDS12348	28419	228	75	16755556	16770968	-1	C19orf42	MGC2747
19	SMIM7	ENSG00000214046	ENST00000487803	nonsense_mediated_decay	KNOWN	None	28419	312	103	16756472	16770941	-1	C19orf42	MGC2747
19	SMIM7	ENSG00000214046	ENST00000593404	nonsense_mediated_decay	KNOWN	CCDS12348	28419	228	75	16756959	16770955	-1	C19orf42	MGC2747
19	SMIM7	ENSG00000214046	ENST00000597711	protein_coding	PUTATIVE	None	28419	150	49	16757153	16770955	-1	C19orf42	MGC2747
19	SMIM7	ENSG00000214046	ENST00000599310	nonsense_mediated_decay	KNOWN	CCDS12348	28419	228	75	16757175	16771253	-1	C19orf42	MGC2747
19	SMIM7	ENSG00000214046	ENST00000397349	processed_transcript	KNOWN	None	28419	None	None	16757264	16770625	-1	C19orf42	MGC2747
19	SMIM7	ENSG00000214046	ENST00000602194	nonsense_mediated_decay	KNOWN	None	28419	150	49	16757399	16770955	-1	C19orf42	MGC2747
19	SMIM7	ENSG00000214046	ENST00000600740	nonsense_mediated_decay	KNOWN	None	28419	192	63	16757470	16770897	-1	C19orf42	MGC2747
19	SMIM7	ENSG00000214046	ENST00000463051	nonsense_mediated_decay	KNOWN	None	28419	144	47	16757818	16770925	-1	C19orf42	MGC2747
19	SMIM7	ENSG00000214046	ENST00000461488	nonsense_mediated_decay	KNOWN	None	28419	171	56	16757818	16770925	-1	C19orf42	MGC2747
19	SMIM7	ENSG00000214046	ENST00000358726	protein_coding	PUTATIVE	None	28419	312	103	16763167	16770953	-1	C19orf42	MGC2747
19	SMIM7	ENSG00000214046	ENST00000594507	processed_transcript	KNOWN	None	28419	None	None	16763509	16770928	-1	C19orf42	MGC2747
19	SMIM7	ENSG00000214046	ENST00000461364	processed_transcript	KNOWN	None	28419	None	None	16764491	16770955	-1	C19orf42	MGC2747
11	None	ENSG00000255004	ENST00000532760	antisense	KNOWN	None	None	None	None	35303360	35307556	1	None	None
18	RN7SKP182	ENSG00000222704	ENST00000410772	misc_RNA	KNOWN	None	45906	None	None	36596011	36596308	-1	None	None
X	VTRNA3-1P	ENSG00000199422	ENST00000362552	misc_RNA	KNOWN	None	23027	None	None	53489150	53489251	1	VAULTRC4, VTRNA3P	vtRNA3P, hvg-4, HVG4
11	OR4A4P	ENSG00000254769	ENST00000532898	unprocessed_pseudogene	KNOWN	None	15161	None	None	51458685	51459614	-1	OR4A4	None
11	OR4A4P	ENSG00000254769	ENST00000599355	unprocessed_pseudogene	KNOWN	None	15161	None	None	51458714	51459613	-1	OR4A4	None
8	None	ENSG00000253373	ENST00000520780	lincRNA	KNOWN	None	None	None	None	70087814	70090424	-1	None	None
7	None	ENSG00000244008	ENST00000434932	processed_transcript	PUTATIVE	None	None	None	None	63580809	63611099	1	None	None
18	RNU6-706P	ENSG00000253038	ENST00000517229	snRNA	KNOWN	None	47669	None	None	36613971	36614074	1	None	None
1	SCNN1D	ENSG00000162572	ENST00000379116	protein_coding	KNOWN	CCDS44037	10601	2409	802	1215816	1227399	1	None	ENaCdelta, dNaCh
1	SCNN1D	ENSG00000162572	ENST00000379101	nonsense_mediated_decay	KNOWN	None	10601	987	328	1215852	1226753	1	None	ENaCdelta, dNaCh
1	SCNN1D	ENSG00000162572	ENST00000338555	protein_coding	KNOWN	None	10601	1917	638	1215968	1227404	1	None	ENaCdelta, dNaCh
1	SCNN1D	ENSG00000162572	ENST00000470022	protein_coding	NOVEL	None	10601	417	138	1217305	1221548	1	None	ENaCdelta, dNaCh
1	SCNN1D	ENSG00000162572	ENST00000325425	protein_coding	KNOWN	None	10601	2115	704	1217489	1227404	1	None	ENaCdelta, dNaCh
1	SCNN1D	ENSG00000162572	ENST00000467651	processed_transcript	KNOWN	None	10601	None	None	1217544	1220977	1	None	ENaCdelta, dNaCh
1	SCNN1D	ENSG00000162572	ENST00000379099	protein_coding	KNOWN	None	10601	923	306	1222489	1226323	1	None	ENaCdelta, dNaCh
1	SCNN1D	ENSG00000162572	ENST00000400928	protein_coding	KNOWN	None	10601	1917	638	1217576	1227409	1	None	ENaCdelta, dNaCh
X	None	ENSG00000263522	ENST00000578369	miRNA	NOVEL	None	None	None	None	53513659	53513758	-1	None	None
15	SNORD115-6	ENSG00000200812	ENST00000363942	snoRNA	KNOWN	None	33025	None	None	25425644	25425725	1	None	HBII-52-6
HSCHR6_MHC_QBL	LINC00243	ENSG00000215523	ENST00000400508	processed_transcript	KNOWN	None	30956	None	None	30770166	30787964	-1	C6orf214, NCRNA00243	bQB230F21.2, FLJ40693, bQB10J12.2
HSCHR6_MHC_QBL	LINC00243	ENSG00000215523	ENST00000438637	processed_transcript	KNOWN	None	30956	None	None	30755939	30787964	-1	C6orf214, NCRNA00243	bQB230F21.2, FLJ40693, bQB10J12.2
3	TMEM44-AS1	ENSG00000231770	ENST00000453671	antisense	KNOWN	None	44272	None	None	194304740	194310989	1	None	None
3	TMEM44-AS1	ENSG00000231770	ENST00000447982	antisense	KNOWN	None	44272	None	None	194304911	194310978	1	None	None
3	TMEM44-AS1	ENSG00000231770	ENST00000419571	antisense	KNOWN	None	44272	None	None	194305028	194310978	1	None	None
X	MIR98	ENSG00000271886	ENST00000606724	miRNA	KNOWN	None	31649	None	None	53583184	53583302	-1	MIRN98	hsa-mir-98
14	SNORD113-1	ENSG00000202191	ENST00000365321	snoRNA	KNOWN	None	32980	None	None	101391161	101391229	1	None	14q(I-1)
18	LINC00669	ENSG00000267374	ENST00000591629	lincRNA	KNOWN	None	44332	None	None	36786888	37380282	-1	None	None
18	LINC00669	ENSG00000267374	ENST00000591469	lincRNA	KNOWN	None	44332	None	None	36787591	36920602	-1	None	None
15	SNORD115-8	ENSG00000200726	ENST00000363856	snoRNA	KNOWN	None	33027	None	None	25429453	25429534	1	None	HBII-52-8
18	ZCCHC2	ENSG00000141664	ENST00000269499	protein_coding	KNOWN	CCDS45880	22916	3537	1178	60190240	60245816	1	C18orf49	FLJ20281, KIAA1744, FLJ20222
18	ZCCHC2	ENSG00000141664	ENST00000588676	protein_coding	PUTATIVE	None	22916	1135	377	60190852	60192728	1	C18orf49	FLJ20281, KIAA1744, FLJ20222
18	ZCCHC2	ENSG00000141664	ENST00000585873	nonsense_mediated_decay	KNOWN	None	22916	3295	1097	60190900	60253962	1	C18orf49	FLJ20281, KIAA1744, FLJ20222
18	ZCCHC2	ENSG00000141664	ENST00000591632	processed_transcript	KNOWN	None	22916	None	None	60191406	60230298	1	C18orf49	FLJ20281, KIAA1744, FLJ20222
18	ZCCHC2	ENSG00000141664	ENST00000586834	protein_coding	PUTATIVE	None	22916	2574	857	60206747	60245812	1	C18orf49	FLJ20281, KIAA1744, FLJ20222
18	ZCCHC2	ENSG00000141664	ENST00000591435	retained_intron	KNOWN	None	22916	None	None	60225775	60231835	1	C18orf49	FLJ20281, KIAA1744, FLJ20222
18	ZCCHC2	ENSG00000141664	ENST00000585949	retained_intron	KNOWN	None	22916	None	None	60227586	60243962	1	C18orf49	FLJ20281, KIAA1744, FLJ20222
18	ZCCHC2	ENSG00000141664	ENST00000587612	processed_transcript	KNOWN	None	22916	None	None	60241712	60242732	1	C18orf49	FLJ20281, KIAA1744, FLJ20222
18	ZCCHC2	ENSG00000141664	ENST00000591145	nonsense_mediated_decay	KNOWN	None	22916	321	106	60242531	60254942	1	C18orf49	FLJ20281, KIAA1744, FLJ20222
18	ZCCHC2	ENSG00000141664	ENST00000590840	processed_transcript	KNOWN	None	22916	None	None	60249038	60253962	1	C18orf49	FLJ20281, KIAA1744, FLJ20222
7	None	ENSG00000229881	ENST00000442436	sense_intronic	KNOWN	None	None	None	None	63600873	63610436	1	None	None
14	RNU4ATAC14P	ENSG00000252013	ENST00000516204	snRNA	KNOWN	None	46900	None	None	75668784	75668872	-1	None	None
12	None	ENSG00000255608	ENST00000512511	sense_intronic	KNOWN	None	None	None	None	4948121	4951841	1	None	None
3	None	ENSG00000263651	ENST00000579722	miRNA	NOVEL	None	None	None	None	49856387	49856486	-1	None	None
17	FAM20A	ENSG00000108950	ENST00000226094	processed_transcript	KNOWN	None	23015	None	None	66531254	66554531	-1	None	DKFZp434F2322
17	FAM20A	ENSG00000108950	ENST00000592554	protein_coding	KNOWN	CCDS11679	23015	1626	541	66533012	66597530	-1	None	DKFZp434F2322
17	FAM20A	ENSG00000108950	ENST00000590873	nonsense_mediated_decay	KNOWN	None	23015	66	21	66533262	66539810	-1	None	DKFZp434F2322
17	FAM20A	ENSG00000108950	ENST00000375556	retained_intron	KNOWN	None	23015	None	None	66533264	66538132	-1	None	DKFZp434F2322
17	FAM20A	ENSG00000108950	ENST00000590074	nonsense_mediated_decay	KNOWN	None	23015	383	126	66533758	66596737	-1	None	DKFZp434F2322
17	FAM20A	ENSG00000108950	ENST00000592847	processed_transcript	KNOWN	None	23015	None	None	66537052	66554516	-1	None	DKFZp434F2322
14	None	ENSG00000251949	ENST00000516140	snoRNA	NOVEL	None	None	None	None	101392317	101392388	1	None	None
X	RN7SL29P	ENSG00000264467	ENST00000584278	misc_RNA	KNOWN	None	46045	None	None	122844694	122844982	1	None	None
7	None	ENSG00000238488	ENST00000458779	snoRNA	NOVEL	None	None	None	None	136525840	136525943	-1	None	None
15	None	ENSG00000261606	ENST00000488000	retained_intron	KNOWN	None	None	None	None	75108564	75123574	1	None	None
15	None	ENSG00000261606	ENST00000564823	retained_intron	KNOWN	None	None	None	None	75113415	75124136	1	None	None
3	RN7SL217P	ENSG00000264706	ENST00000584520	misc_RNA	KNOWN	None	46233	None	None	49900819	49901093	-1	None	None
11	None	ENSG00000215380	ENST00000357130	processed_pseudogene	KNOWN	None	None	None	None	35395812	35396021	1	None	None
14	None	ENSG00000258820	ENST00000555909	antisense	KNOWN	None	None	None	None	75726114	75738564	1	None	None
14	None	ENSG00000258820	ENST00000555106	antisense	KNOWN	None	None	None	None	75734182	75738653	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000225888	ENST00000444875	processed_transcript	KNOWN	None	None	None	None	30796824	30805462	-1	None	None
14	RPS19P3	ENSG00000240463	ENST00000480487	processed_pseudogene	KNOWN	None	23560	None	None	35037895	35038335	-1	None	None
11	None	ENSG00000255309	ENST00000524621	processed_pseudogene	KNOWN	None	None	None	None	11780648	11780980	-1	None	None
3	ACTBP13	ENSG00000234667	ENST00000423971	unitary_pseudogene	KNOWN	None	44626	None	None	49910780	49915413	-1	None	None
8	None	ENSG00000253479	ENST00000517343	lincRNA	KNOWN	None	None	None	None	70337270	70360195	-1	None	None
8	None	ENSG00000253479	ENST00000519557	lincRNA	KNOWN	None	None	None	None	70337857	70360479	-1	None	None
10	PSD	ENSG00000059915	ENST00000020673	protein_coding	KNOWN	CCDS31272	9507	3075	1024	104162376	104178901	-1	None	KIAA2011, TYL, PSD1
10	PSD	ENSG00000059915	ENST00000479172	processed_transcript	KNOWN	None	9507	None	None	104164402	104165219	-1	None	KIAA2011, TYL, PSD1
10	PSD	ENSG00000059915	ENST00000473507	processed_transcript	KNOWN	None	9507	None	None	104164693	104165891	-1	None	KIAA2011, TYL, PSD1
10	PSD	ENSG00000059915	ENST00000461698	processed_transcript	KNOWN	None	9507	None	None	104165105	104169047	-1	None	KIAA2011, TYL, PSD1
10	PSD	ENSG00000059915	ENST00000488194	processed_transcript	KNOWN	None	9507	None	None	104165118	104171513	-1	None	KIAA2011, TYL, PSD1
10	PSD	ENSG00000059915	ENST00000472685	processed_transcript	KNOWN	None	9507	None	None	104176411	104179475	-1	None	KIAA2011, TYL, PSD1
10	PSD	ENSG00000059915	ENST00000492902	processed_transcript	KNOWN	None	9507	None	None	104176467	104181296	-1	None	KIAA2011, TYL, PSD1
10	PSD	ENSG00000059915	ENST00000406432	protein_coding	KNOWN	CCDS31272	9507	3075	1024	104162376	104179691	-1	None	KIAA2011, TYL, PSD1
18	RPL7AP66	ENSG00000175886	ENST00000588490	processed_pseudogene	KNOWN	None	35682	None	None	36914836	36915636	-1	None	None
18	RPL7AP66	ENSG00000175886	ENST00000321566	processed_pseudogene	KNOWN	None	35682	None	None	36914836	36915639	-1	None	None
7	PPP1R3A	ENSG00000154415	ENST00000284601	protein_coding	KNOWN	CCDS5759	9291	3369	1122	113516832	113559120	-1	PPP1R3	GM
7	PPP1R3A	ENSG00000154415	ENST00000449795	protein_coding	PUTATIVE	None	9291	573	190	113519611	113715975	-1	PPP1R3	GM
7	PPP1R3A	ENSG00000154415	ENST00000284602	nonsense_mediated_decay	KNOWN	None	9291	225	74	113519826	113559051	-1	PPP1R3	GM
1	DFFB	ENSG00000169598	ENST00000378209	protein_coding	KNOWN	CCDS52	2773	1017	338	3773845	3801993	1	None	CAD, CPAN, DFF-40, DFF40
1	DFFB	ENSG00000169598	ENST00000491998	nonsense_mediated_decay	KNOWN	None	2773	813	270	3773845	3801993	1	None	CAD, CPAN, DFF-40, DFF40
1	DFFB	ENSG00000169598	ENST00000468793	nonsense_mediated_decay	KNOWN	None	2773	348	115	3774024	3801993	1	None	CAD, CPAN, DFF-40, DFF40
1	DFFB	ENSG00000169598	ENST00000477548	nonsense_mediated_decay	KNOWN	None	2773	312	103	3774037	3801993	1	None	CAD, CPAN, DFF-40, DFF40
1	DFFB	ENSG00000169598	ENST00000339350	nonsense_mediated_decay	KNOWN	None	2773	351	116	3774037	3801993	1	None	CAD, CPAN, DFF-40, DFF40
1	DFFB	ENSG00000169598	ENST00000378206	nonsense_mediated_decay	KNOWN	None	2773	243	80	3774081	3801993	1	None	CAD, CPAN, DFF-40, DFF40
1	DFFB	ENSG00000169598	ENST00000475969	nonsense_mediated_decay	KNOWN	None	2773	348	115	3774164	3801993	1	None	CAD, CPAN, DFF-40, DFF40
1	DFFB	ENSG00000169598	ENST00000481945	retained_intron	KNOWN	None	2773	None	None	3784227	3789109	1	None	CAD, CPAN, DFF-40, DFF40
1	DFFB	ENSG00000169598	ENST00000461150	nonsense_mediated_decay	KNOWN	None	2773	235	77	3800071	3801993	1	None	CAD, CPAN, DFF-40, DFF40
1	DFFB	ENSG00000169598	ENST00000338895	protein_coding	KNOWN	None	2773	813	270	3773845	3789608	1	None	CAD, CPAN, DFF-40, DFF40
1	DFFB	ENSG00000169598	ENST00000378212	protein_coding	KNOWN	None	2773	351	116	3773845	3782316	1	None	CAD, CPAN, DFF-40, DFF40
1	DFFB	ENSG00000169598	ENST00000341385	protein_coding	KNOWN	None	2773	312	103	3773845	3777054	1	None	CAD, CPAN, DFF-40, DFF40
7	MIR490	ENSG00000207597	ENST00000384865	miRNA	KNOWN	None	32075	None	None	136587914	136588041	1	MIRN490	hsa-mir-490, miR-490
8	None	ENSG00000253641	ENST00000524047	lincRNA	KNOWN	None	None	None	None	10332075	10339484	1	None	None
8	None	ENSG00000253641	ENST00000517732	lincRNA	KNOWN	None	None	None	None	10334709	10338976	1	None	None
8	None	ENSG00000253641	ENST00000518098	lincRNA	KNOWN	None	None	None	None	10335380	10338496	1	None	None
12	None	ENSG00000256790	ENST00000540533	lincRNA	KNOWN	None	None	None	None	5127631	5130879	1	None	None
4	None	ENSG00000248713	ENST00000511828	protein_coding	PUTATIVE	None	None	5382	1793	100557686	100575805	-1	None	None
11	None	ENSG00000255492	ENST00000530297	processed_pseudogene	KNOWN	None	None	None	None	11878037	11878406	-1	None	None
12	ATP5B	ENSG00000110955	ENST00000262030	protein_coding	KNOWN	CCDS8924	830	1590	529	57031959	57039798	-1	ATPSB	None
12	ATP5B	ENSG00000110955	ENST00000548474	processed_transcript	PUTATIVE	None	830	None	None	57031965	57039063	-1	ATPSB	None
12	ATP5B	ENSG00000110955	ENST00000552919	protein_coding	PUTATIVE	None	830	1557	518	57031988	57039757	-1	ATPSB	None
12	ATP5B	ENSG00000110955	ENST00000551182	processed_transcript	KNOWN	None	830	None	None	57032064	57033202	-1	ATPSB	None
12	ATP5B	ENSG00000110955	ENST00000552104	protein_coding	PUTATIVE	None	830	654	217	57032152	57039768	-1	ATPSB	None
12	ATP5B	ENSG00000110955	ENST00000547808	processed_transcript	PUTATIVE	None	830	None	None	57032160	57039768	-1	ATPSB	None
12	ATP5B	ENSG00000110955	ENST00000547250	processed_transcript	KNOWN	None	830	None	None	57032890	57037717	-1	ATPSB	None
12	ATP5B	ENSG00000110955	ENST00000551020	protein_coding	PUTATIVE	None	830	852	283	57032972	57039751	-1	ATPSB	None
12	ATP5B	ENSG00000110955	ENST00000550162	processed_transcript	KNOWN	None	830	None	None	57033743	57036962	-1	ATPSB	None
12	ATP5B	ENSG00000110955	ENST00000552959	protein_coding	PUTATIVE	None	830	1085	360	57033775	57039739	-1	ATPSB	None
12	ATP5B	ENSG00000110955	ENST00000551570	protein_coding	PUTATIVE	None	830	399	132	57033884	57037357	-1	ATPSB	None
12	ATP5B	ENSG00000110955	ENST00000553007	protein_coding	PUTATIVE	None	830	810	269	57033944	57039751	-1	ATPSB	None
12	ATP5B	ENSG00000110955	ENST00000548647	processed_transcript	KNOWN	None	830	None	None	57037204	57039712	-1	ATPSB	None
11	OR4R2P	ENSG00000255560	ENST00000530815	unprocessed_pseudogene	KNOWN	None	15181	None	None	51461564	51462160	1	None	None
X	DPH3P2	ENSG00000237040	ENST00000422618	processed_pseudogene	KNOWN	None	38719	None	None	155105299	155105548	1	None	None
X	PPEF1-AS1	ENSG00000237221	ENST00000430641	antisense	KNOWN	None	40463	None	None	18706762	18709723	-1	None	None
12	None	ENSG00000256654	ENST00000538202	lincRNA	KNOWN	None	None	None	None	5132848	5134758	1	None	None
10	SLK	ENSG00000065613	ENST00000335753	protein_coding	KNOWN	None	11088	3615	1204	105726959	105788991	1	None	STK2, se20-9, KIAA0204
10	SLK	ENSG00000065613	ENST00000369755	protein_coding	KNOWN	CCDS7553	11088	3708	1235	105726959	105788991	1	None	STK2, se20-9, KIAA0204
10	SLK	ENSG00000065613	ENST00000474260	processed_transcript	KNOWN	None	11088	None	None	105767956	105778874	1	None	STK2, se20-9, KIAA0204
HSCHR6_MHC_QBL	None	ENSG00000264415	ENST00000581358	misc_RNA	NOVEL	None	None	None	None	30821625	30821927	1	None	None
3	None	ENSG00000230698	ENST00000435478	antisense	KNOWN	None	None	None	None	49936735	49941190	1	None	None
HSCHR6_MHC_QBL	DDR1-AS1	ENSG00000223405	ENST00000437716	processed_transcript	KNOWN	None	28694	None	None	30824355	30833288	-1	TIGD1L	bPG70P20.2, bCX111D4.7, bQB10J12.1
8	None	ENSG00000271938	ENST00000605981	lincRNA	KNOWN	None	None	None	None	41996979	41997270	-1	None	None
7	KRT8P51	ENSG00000223657	ENST00000438938	processed_pseudogene	KNOWN	None	48883	None	None	136623027	136623300	-1	None	None
17	TNFRSF13B	ENSG00000240505	ENST00000584950	nonsense_mediated_decay	KNOWN	None	18153	747	248	16833130	16875401	-1	None	TACI, CD267
17	TNFRSF13B	ENSG00000240505	ENST00000582931	retained_intron	KNOWN	None	18153	None	None	16836047	16875431	-1	None	TACI, CD267
17	TNFRSF13B	ENSG00000240505	ENST00000579315	protein_coding	PUTATIVE	None	18153	471	156	16836379	16875432	-1	None	TACI, CD267
17	TNFRSF13B	ENSG00000240505	ENST00000579009	retained_intron	KNOWN	None	18153	None	None	16842399	16844376	-1	None	TACI, CD267
17	TNFRSF13B	ENSG00000240505	ENST00000261652	protein_coding	KNOWN	CCDS11181	18153	882	293	16842399	16875402	-1	None	TACI, CD267
17	TNFRSF13B	ENSG00000240505	ENST00000583789	protein_coding	KNOWN	None	18153	744	247	16842758	16875401	-1	None	TACI, CD267
17	TNFRSF13B	ENSG00000240505	ENST00000581616	processed_transcript	KNOWN	None	18153	None	None	16843820	16875392	-1	None	TACI, CD267
17	TNFRSF13B	ENSG00000240505	ENST00000437538	protein_coding	KNOWN	None	18153	747	248	16832849	16875398	-1	None	TACI, CD267
X	None	ENSG00000196564	ENST00000358001	processed_pseudogene	KNOWN	None	None	None	None	18856827	18857570	-1	None	None
3	None	ENSG00000241526	ENST00000463581	processed_pseudogene	KNOWN	None	None	None	None	141443267	141443368	1	None	None
X	TCEB1P24	ENSG00000228410	ENST00000456370	processed_pseudogene	KNOWN	None	38160	None	None	155208657	155208990	-1	TCEB1P25	None
7	None	ENSG00000224469	ENST00000454750	processed_pseudogene	KNOWN	None	None	None	None	136848790	136849359	1	None	None
HSCHR6_MHC_QBL	MIR4640	ENSG00000265336	ENST00000579346	miRNA	KNOWN	None	41561	None	None	30848250	30848339	1	None	hsa-mir-4640
11	OR4C7P	ENSG00000255312	ENST00000533375	unprocessed_pseudogene	KNOWN	None	14768	None	None	51483325	51484243	1	None	None
15	SNORD115-9	ENSG00000199782	ENST00000362912	snoRNA	KNOWN	None	33028	None	None	25430778	25430859	1	None	HBII-52-9
X	MIRLET7F2	ENSG00000208012	ENST00000385277	miRNA	KNOWN	None	31484	None	None	53584153	53584235	-1	MIRNLET7F2	hsa-let-7f-2
6	None	ENSG00000231628	ENST00000452363	antisense	KNOWN	None	None	None	None	105726891	105729630	1	None	None
11	None	ENSG00000254486	ENST00000531559	lincRNA	KNOWN	None	None	None	None	12052422	12083332	1	None	None
11	RN7SKP53	ENSG00000223269	ENST00000411337	misc_RNA	KNOWN	None	45777	None	None	98990906	98991220	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000266819	ENST00000581105	misc_RNA	NOVEL	None	None	None	None	30864238	30864501	1	None	None
11	PGM2L1	ENSG00000165434	ENST00000298198	protein_coding	KNOWN	CCDS8231	20898	1869	622	74041363	74109518	-1	None	FLJ32029, BM32A
8	None	ENSG00000261449	ENST00000564481	antisense	KNOWN	None	None	None	None	42009290	42010281	-1	None	None
2	ANKRD36C	ENSG00000174501	ENST00000456556	protein_coding	KNOWN	None	32946	5337	1778	96516914	96657541	-1	None	DKFZp667P0924
2	ANKRD36C	ENSG00000174501	ENST00000488721	retained_intron	KNOWN	None	32946	None	None	96518038	96525677	-1	None	DKFZp667P0924
2	ANKRD36C	ENSG00000174501	ENST00000531153	retained_intron	KNOWN	None	32946	None	None	96521756	96573247	-1	None	DKFZp667P0924
2	ANKRD36C	ENSG00000174501	ENST00000534304	nonsense_mediated_decay	KNOWN	None	32946	184	60	96523206	96610869	-1	None	DKFZp667P0924
2	ANKRD36C	ENSG00000174501	ENST00000528268	nonsense_mediated_decay	KNOWN	None	32946	1599	532	96593006	96657541	-1	None	DKFZp667P0924
2	ANKRD36C	ENSG00000174501	ENST00000420871	protein_coding	KNOWN	None	32946	3087	1028	96514587	96592977	-1	None	DKFZp667P0924
2	ANKRD36C	ENSG00000174501	ENST00000419039	protein_coding	KNOWN	None	32946	2397	798	96517439	96592977	-1	None	DKFZp667P0924
2	ANKRD36C	ENSG00000174501	ENST00000295246	protein_coding	KNOWN	None	32946	1818	605	96541715	96592977	-1	None	DKFZp667P0924
11	None	ENSG00000255542	ENST00000534165	antisense	KNOWN	None	None	None	None	35440604	35442549	1	None	None
X	None	ENSG00000229033	ENST00000442332	processed_transcript	KNOWN	None	None	None	None	122867024	122868144	1	None	None
11	None	ENSG00000266616	ENST00000580165	miRNA	NOVEL	None	None	None	None	99295669	99295736	-1	None	None
HSCHR6_MHC_QBL	None	ENSG00000264602	ENST00000583459	misc_RNA	NOVEL	None	None	None	None	30889970	30890061	-1	None	None
7	None	ENSG00000202023	ENST00000365153	snoRNA	NOVEL	None	None	None	None	136972434	136972509	1	None	None
6	None	ENSG00000216639	ENST00000404904	processed_pseudogene	KNOWN	None	None	None	None	105746024	105746770	1	None	None
3	None	ENSG00000265391	ENST00000583008	miRNA	NOVEL	None	None	None	None	141506753	141506851	1	None	None
14	SNORD113-2	ENSG00000212384	ENST00000391082	snoRNA	KNOWN	None	32981	None	None	101393679	101393750	1	None	14q(I-2)
3	None	ENSG00000235016	ENST00000437204	antisense	KNOWN	None	None	None	None	50153455	50193518	-1	None	None
3	None	ENSG00000235016	ENST00000425674	antisense	KNOWN	None	None	None	None	50155598	50193453	-1	None	None
HSCHR6_MHC_QBL	HCG21	ENSG00000230541	ENST00000423013	processed_transcript	KNOWN	None	31335	None	None	30903331	30912213	-1	None	AB023048.2, NCRNA00150
15	RNU6-353P	ENSG00000201136	ENST00000364266	snRNA	KNOWN	None	47316	None	None	43994561	43994668	1	None	None
3	ZNF587P1	ENSG00000223965	ENST00000415378	processed_pseudogene	KNOWN	None	42438	None	None	31835962	31837667	1	None	None
11	None	ENSG00000254991	ENST00000476130	lincRNA	KNOWN	None	None	None	None	12088476	12094561	1	None	None
14	IGHVII-51-2	ENSG00000253941	ENST00000519778	IG_V_pseudogene	KNOWN	None	5684	None	None	107040702	107040960	-1	None	IGHV(II)-51-2
11	RPA2P3	ENSG00000255547	ENST00000533268	processed_pseudogene	KNOWN	None	45118	None	None	100207588	100208357	1	None	None
14	SNORD113-3	ENSG00000201700	ENST00000364830	snoRNA	KNOWN	None	32982	None	None	101396256	101396328	1	None	14q(I-3)
14	RNU6-1261P	ENSG00000253003	ENST00000517194	snRNA	KNOWN	None	48224	None	None	35145097	35145200	1	None	None
14	None	ENSG00000119660	ENST00000559021	processed_pseudogene	KNOWN	None	None	None	None	75758834	75759198	-1	None	None
14	None	ENSG00000119660	ENST00000238638	processed_pseudogene	KNOWN	None	None	None	None	75758809	75761016	-1	None	None
15	C15orf32	ENSG00000183643	ENST00000333334	protein_coding	KNOWN	CCDS10373	26549	537	178	93014884	93044347	1	None	FLJ32831
15	C15orf32	ENSG00000183643	ENST00000556865	protein_coding	PUTATIVE	None	26549	498	165	93015151	93044072	1	None	FLJ32831
15	SNORD115-10	ENSG00000201943	ENST00000365073	snoRNA	KNOWN	None	33029	None	None	25432683	25432763	1	None	HBII-52-10
3	None	ENSG00000229334	ENST00000447139	antisense	KNOWN	None	None	None	None	194353652	194366130	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000257236	ENST00000551019	pseudogene	NOVEL	None	None	None	None	30955254	30955549	-1	None	None
7	None	ENSG00000231114	ENST00000447529	lincRNA	KNOWN	None	None	None	None	137003339	137011700	1	None	None
7	None	ENSG00000231114	ENST00000448365	lincRNA	KNOWN	None	None	None	None	137009490	137010564	1	None	None
11	None	ENSG00000254669	ENST00000527684	lincRNA	KNOWN	None	None	None	None	35600978	35606858	-1	None	None
14	None	ENSG00000241582	ENST00000479812	processed_pseudogene	KNOWN	None	None	None	None	35163376	35163850	1	None	None
12	RAB11AP2	ENSG00000255976	ENST00000545905	processed_pseudogene	KNOWN	None	45189	None	None	67525347	67525985	-1	None	None
15	None	ENSG00000238494	ENST00000459182	snoRNA	NOVEL	None	None	None	None	44005342	44005445	1	None	None
14	IGHV3-52	ENSG00000253545	ENST00000519770	IG_V_pseudogene	KNOWN	None	5609	None	None	107042360	107042810	-1	None	None
17	VMP1	ENSG00000062716	ENST00000588915	processed_transcript	KNOWN	None	29559	None	None	57784553	57785037	1	TMEM49	EPG3, TANGO5
17	VMP1	ENSG00000062716	ENST00000262291	protein_coding	KNOWN	CCDS11619	29559	1221	406	57784826	57918453	1	TMEM49	EPG3, TANGO5
17	VMP1	ENSG00000062716	ENST00000593168	nonsense_mediated_decay	KNOWN	None	29559	225	74	57785009	57851165	1	TMEM49	EPG3, TANGO5
17	VMP1	ENSG00000062716	ENST00000586245	nonsense_mediated_decay	KNOWN	None	29559	135	44	57785011	57842472	1	TMEM49	EPG3, TANGO5
17	VMP1	ENSG00000062716	ENST00000585847	nonsense_mediated_decay	KNOWN	None	29559	228	75	57785012	57842429	1	TMEM49	EPG3, TANGO5
17	VMP1	ENSG00000062716	ENST00000587945	protein_coding	PUTATIVE	None	29559	134	43	57785025	57851242	1	TMEM49	EPG3, TANGO5
17	VMP1	ENSG00000062716	ENST00000588131	retained_intron	KNOWN	None	29559	None	None	57785032	57813105	1	TMEM49	EPG3, TANGO5
17	VMP1	ENSG00000062716	ENST00000589823	protein_coding	NOVEL	None	29559	501	166	57785057	57842499	1	TMEM49	EPG3, TANGO5
17	VMP1	ENSG00000062716	ENST00000592106	protein_coding	KNOWN	None	29559	234	77	57785067	57814835	1	TMEM49	EPG3, TANGO5
17	VMP1	ENSG00000062716	ENST00000591315	protein_coding	KNOWN	None	29559	414	137	57785079	57816308	1	TMEM49	EPG3, TANGO5
17	VMP1	ENSG00000062716	ENST00000587259	protein_coding	KNOWN	None	29559	277	91	57807076	57814878	1	TMEM49	EPG3, TANGO5
17	VMP1	ENSG00000062716	ENST00000592619	nonsense_mediated_decay	KNOWN	None	29559	176	57	57812699	57917467	1	TMEM49	EPG3, TANGO5
17	VMP1	ENSG00000062716	ENST00000591877	protein_coding	NOVEL	None	29559	678	225	57851115	57917385	1	TMEM49	EPG3, TANGO5
17	VMP1	ENSG00000062716	ENST00000591782	processed_transcript	KNOWN	None	29559	None	None	57914989	57917584	1	TMEM49	EPG3, TANGO5
17	VMP1	ENSG00000062716	ENST00000588617	processed_transcript	KNOWN	None	29559	None	None	57915216	57917568	1	TMEM49	EPG3, TANGO5
17	VMP1	ENSG00000062716	ENST00000592790	retained_intron	KNOWN	None	29559	None	None	57915292	57919616	1	TMEM49	EPG3, TANGO5
17	VMP1	ENSG00000062716	ENST00000587470	retained_intron	KNOWN	None	29559	None	None	57915312	57917676	1	TMEM49	EPG3, TANGO5
17	VMP1	ENSG00000062716	ENST00000545362	protein_coding	KNOWN	None	29559	1053	350	57785083	57917524	1	TMEM49	EPG3, TANGO5
17	VMP1	ENSG00000062716	ENST00000537567	protein_coding	KNOWN	None	29559	819	272	57785009	57917532	1	TMEM49	EPG3, TANGO5
17	VMP1	ENSG00000062716	ENST00000536180	protein_coding	KNOWN	None	29559	930	309	57785026	57917364	1	TMEM49	EPG3, TANGO5
17	VMP1	ENSG00000062716	ENST00000539763	protein_coding	KNOWN	None	29559	645	214	57785011	57917492	1	TMEM49	EPG3, TANGO5
3	None	ENSG00000266447	ENST00000582474	miRNA	NOVEL	None	None	None	None	194370319	194370419	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000229199	ENST00000429324	processed_transcript	PUTATIVE	None	None	None	None	30987747	30992544	1	None	None
X	MEMO1P4	ENSG00000230376	ENST00000453590	processed_pseudogene	KNOWN	None	38504	None	None	122899151	122899536	1	None	None
X	TRPC6P	ENSG00000223484	ENST00000421233	processed_pseudogene	KNOWN	None	23270	None	None	155215035	155215914	-1	None	TRPC6L
22	C22orf23	ENSG00000128346	ENST00000403305	protein_coding	KNOWN	CCDS13962	18589	654	217	38339528	38349654	-1	None	FLJ32787, EVG1, LOC84645
22	C22orf23	ENSG00000128346	ENST00000249079	protein_coding	KNOWN	CCDS13962	18589	654	217	38339533	38349603	-1	None	FLJ32787, EVG1, LOC84645
22	C22orf23	ENSG00000128346	ENST00000403026	protein_coding	KNOWN	CCDS13962	18589	654	217	38340132	38349676	-1	None	FLJ32787, EVG1, LOC84645
22	C22orf23	ENSG00000128346	ENST00000418863	protein_coding	KNOWN	None	18589	486	161	38340520	38349608	-1	None	FLJ32787, EVG1, LOC84645
22	C22orf23	ENSG00000128346	ENST00000422191	protein_coding	KNOWN	None	18589	362	119	38341168	38349552	-1	None	FLJ32787, EVG1, LOC84645
11	OR4C50P	ENSG00000237610	ENST00000330155	unprocessed_pseudogene	KNOWN	None	31274	None	None	51526871	51527800	-1	None	None
11	PDGFD	ENSG00000170962	ENST00000393158	protein_coding	KNOWN	CCDS41703	30620	1113	370	103777914	104034835	-1	None	SCDGF-B, MSTP036, IEGF
11	PDGFD	ENSG00000170962	ENST00000302251	protein_coding	KNOWN	CCDS8326	30620	1095	364	103777917	104035107	-1	None	SCDGF-B, MSTP036, IEGF
11	PDGFD	ENSG00000170962	ENST00000529268	protein_coding	NOVEL	None	30620	620	205	103818412	103907754	-1	None	SCDGF-B, MSTP036, IEGF
6	RPL35P3	ENSG00000219902	ENST00000403133	processed_pseudogene	KNOWN	None	35488	None	None	105750328	105750698	-1	None	None
3	None	ENSG00000221718	ENST00000408791	miRNA	NOVEL	None	None	None	None	194387894	194387945	-1	None	None
3	HMGN2P25	ENSG00000228398	ENST00000486956	processed_pseudogene	KNOWN	None	39392	None	None	141583854	141584121	-1	None	None
3	HMGN2P25	ENSG00000228398	ENST00000450495	processed_pseudogene	KNOWN	None	39392	None	None	141583849	141584121	-1	None	None
12	None	ENSG00000255996	ENST00000537214	processed_pseudogene	KNOWN	None	None	None	None	5141554	5142107	-1	None	None
3	MIR378B	ENSG00000264534	ENST00000578876	miRNA	KNOWN	None	38283	None	None	10371913	10371969	1	None	hsa-mir-378b
10	None	ENSG00000238577	ENST00000458910	snoRNA	NOVEL	None	None	None	None	116416269	116416353	1	None	None
3	None	ENSG00000233987	ENST00000439479	lincRNA	KNOWN	None	None	None	None	194426277	194427693	1	None	None
8	None	ENSG00000238714	ENST00000459183	snoRNA	NOVEL	None	None	None	None	42083151	42083252	-1	None	None
14	IGHVII-53-1	ENSG00000253714	ENST00000519538	IG_V_pseudogene	KNOWN	None	5685	None	None	107055682	107055936	-1	None	IGHV(II)-53-1
HSCHR6_MHC_QBL	HCG22	ENSG00000227974	ENST00000423997	unprocessed_pseudogene	KNOWN	None	27780	None	None	31014738	31020038	1	None	FLJ37114, PBMUCL2
7	PIP5K1P2	ENSG00000229435	ENST00000437005	unprocessed_pseudogene	KNOWN	None	38068	None	None	159024125	159026067	1	None	None
6	None	ENSG00000237567	ENST00000423489	lincRNA	KNOWN	None	None	None	None	106060542	106080071	-1	None	None
19	CIC	ENSG00000079432	ENST00000572681	protein_coding	NOVEL	None	14214	7545	2514	42772689	42799948	1	None	KIAA0306
19	CIC	ENSG00000079432	ENST00000571942	protein_coding	PUTATIVE	None	14214	433	143	42773376	42776368	1	None	KIAA0306
19	CIC	ENSG00000079432	ENST00000575839	processed_transcript	KNOWN	None	14214	None	None	42784144	42791045	1	None	KIAA0306
19	CIC	ENSG00000079432	ENST00000160740	protein_coding	NOVEL	None	14214	4821	1606	42788172	42799948	1	None	KIAA0306
19	CIC	ENSG00000079432	ENST00000575354	protein_coding	KNOWN	CCDS12601	14214	4827	1608	42788817	42799949	1	None	KIAA0306
19	CIC	ENSG00000079432	ENST00000573349	protein_coding	NOVEL	None	14214	927	308	42797759	42799262	1	None	KIAA0306
19	CIC	ENSG00000079432	ENST00000576505	protein_coding	NOVEL	None	14214	961	319	42797809	42799686	1	None	KIAA0306
19	CIC	ENSG00000079432	ENST00000575287	nonsense_mediated_decay	KNOWN	None	14214	435	144	42797903	42799287	1	None	KIAA0306
19	CIC	ENSG00000079432	ENST00000571033	retained_intron	KNOWN	None	14214	None	None	42798612	42799157	1	None	KIAA0306
10	PPIAP19	ENSG00000228169	ENST00000486414	processed_pseudogene	KNOWN	None	31663	None	None	116449902	116450393	-1	None	bA108K1.2
11	None	ENSG00000255400	ENST00000527997	lincRNA	KNOWN	None	None	None	None	12108438	12110988	1	None	None
4	CC2D2A	ENSG00000048342	ENST00000511544	protein_coding	KNOWN	CCDS47027	29253	369	122	15471515	15483941	1	None	KIAA1345, MKS6, JBTS9
4	CC2D2A	ENSG00000048342	ENST00000512702	protein_coding	KNOWN	None	29253	1764	587	15471515	15538699	1	None	KIAA1345, MKS6, JBTS9
4	CC2D2A	ENSG00000048342	ENST00000513811	processed_transcript	KNOWN	None	29253	None	None	15471520	15545584	1	None	KIAA1345, MKS6, JBTS9
4	CC2D2A	ENSG00000048342	ENST00000507954	protein_coding	PUTATIVE	CCDS54744	29253	336	111	15471527	15482914	1	None	KIAA1345, MKS6, JBTS9
4	CC2D2A	ENSG00000048342	ENST00000515124	protein_coding	PUTATIVE	CCDS54744	29253	336	111	15471536	15483883	1	None	KIAA1345, MKS6, JBTS9
4	CC2D2A	ENSG00000048342	ENST00000514450	retained_intron	KNOWN	None	29253	None	None	15471545	15513298	1	None	KIAA1345, MKS6, JBTS9
4	CC2D2A	ENSG00000048342	ENST00000503292	protein_coding	KNOWN	CCDS47026	29253	4863	1620	15471554	15603180	1	None	KIAA1345, MKS6, JBTS9
4	CC2D2A	ENSG00000048342	ENST00000503658	protein_coding	KNOWN	CCDS47027	29253	369	122	15471637	15483000	1	None	KIAA1345, MKS6, JBTS9
4	CC2D2A	ENSG00000048342	ENST00000389652	protein_coding	KNOWN	None	29253	4539	1512	15480847	15603169	1	None	KIAA1345, MKS6, JBTS9
4	CC2D2A	ENSG00000048342	ENST00000510220	retained_intron	KNOWN	None	29253	None	None	15529242	15535076	1	None	KIAA1345, MKS6, JBTS9
4	CC2D2A	ENSG00000048342	ENST00000506643	nonsense_mediated_decay	KNOWN	None	29253	2711	902	15538608	15603175	1	None	KIAA1345, MKS6, JBTS9
4	CC2D2A	ENSG00000048342	ENST00000512202	retained_intron	KNOWN	None	29253	None	None	15552361	15558996	1	None	KIAA1345, MKS6, JBTS9
4	CC2D2A	ENSG00000048342	ENST00000514039	processed_transcript	KNOWN	None	29253	None	None	15591250	15602994	1	None	KIAA1345, MKS6, JBTS9
4	CC2D2A	ENSG00000048342	ENST00000513035	retained_intron	KNOWN	None	29253	None	None	15597495	15599088	1	None	KIAA1345, MKS6, JBTS9
4	CC2D2A	ENSG00000048342	ENST00000424120	protein_coding	KNOWN	CCDS47026	29253	4863	1620	15471489	15603180	1	None	KIAA1345, MKS6, JBTS9
4	CC2D2A	ENSG00000048342	ENST00000413206	protein_coding	KNOWN	CCDS47026	29253	4863	1620	15471489	15603180	1	None	KIAA1345, MKS6, JBTS9
4	CC2D2A	ENSG00000048342	ENST00000438599	protein_coding	KNOWN	CCDS47027	29253	369	122	15471489	15483886	1	None	KIAA1345, MKS6, JBTS9
3	RPL21P40	ENSG00000235670	ENST00000428586	processed_pseudogene	KNOWN	None	36189	None	None	32071688	32072170	1	None	None
12	RPS20P31	ENSG00000240925	ENST00000479327	processed_pseudogene	KNOWN	None	35767	None	None	120685263	120685594	1	None	None
15	SNORD115-11	ENSG00000200486	ENST00000363616	snoRNA	KNOWN	None	33030	None	None	25434561	25434642	1	None	HBII-52-11
3	MIR885	ENSG00000216135	ENST00000401316	miRNA	KNOWN	None	33659	None	None	10436173	10436246	-1	MIRN885	hsa-mir-885
10	None	ENSG00000228484	ENST00000436932	lincRNA	KNOWN	None	None	None	None	116524547	116539662	1	None	None
3	None	ENSG00000201701	ENST00000364831	snoRNA	NOVEL	None	None	None	None	32079018	32079145	1	None	None
11	None	ENSG00000255543	ENST00000526762	processed_pseudogene	KNOWN	None	None	None	None	55034884	55035112	1	None	None
8	RN7SL777P	ENSG00000263888	ENST00000582630	misc_RNA	KNOWN	None	46793	None	None	92151489	92151751	1	None	None
15	CATSPER2P1	ENSG00000205771	ENST00000446479	processed_transcript	PUTATIVE	None	31054	None	None	44019116	44020987	-1	None	None
15	CATSPER2P1	ENSG00000205771	ENST00000439564	transcribed_unprocessed_pseudogene	KNOWN	None	31054	None	None	44019379	44037363	-1	None	None
15	CATSPER2P1	ENSG00000205771	ENST00000381680	processed_transcript	KNOWN	None	31054	None	None	44028132	44038500	-1	None	None
15	CATSPER2P1	ENSG00000205771	ENST00000416302	processed_transcript	KNOWN	None	31054	None	None	44028996	44038483	-1	None	None
15	CATSPER2P1	ENSG00000205771	ENST00000429276	processed_transcript	KNOWN	None	31054	None	None	44036011	44039292	-1	None	None
14	None	ENSG00000243824	ENST00000495231	processed_pseudogene	KNOWN	None	None	None	None	35209542	35210039	-1	None	None
HSCHR6_MHC_QBL	None	ENSG00000266375	ENST00000582932	snRNA	NOVEL	None	None	None	None	31043216	31043315	1	None	None
11	None	ENSG00000254680	ENST00000527288	antisense	KNOWN	None	None	None	None	12282973	12284720	-1	None	None
19	None	ENSG00000269808	ENST00000598855	protein_coding	KNOWN	None	None	816	271	55738587	55741647	1	None	None
11	RN7SL222P	ENSG00000242165	ENST00000476452	misc_RNA	KNOWN	None	46238	None	None	100512709	100513004	-1	None	None
14	IGHV3-54	ENSG00000253689	ENST00000521200	IG_V_pseudogene	KNOWN	None	5611	None	None	107057358	107057795	-1	None	None
14	None	ENSG00000263691	ENST00000581314	miRNA	NOVEL	None	None	None	None	35270737	35270791	-1	None	None
HSCHR6_MHC_QBL	None	ENSG00000257351	ENST00000550123	pseudogene	NOVEL	None	None	None	None	31082818	31082987	-1	None	None
10	TAF9BP2	ENSG00000215760	ENST00000400856	processed_pseudogene	KNOWN	None	38836	None	None	116569134	116570929	1	None	None
19	DDX39A	ENSG00000123136	ENST00000587730	retained_intron	KNOWN	None	17821	None	None	14519631	14521741	-1	DDX39	DDXL, BAT1L, URH49
19	DDX39A	ENSG00000123136	ENST00000324340	nonsense_mediated_decay	KNOWN	None	17821	969	322	14519631	14530141	-1	DDX39	DDXL, BAT1L, URH49
19	DDX39A	ENSG00000123136	ENST00000589318	retained_intron	KNOWN	None	17821	None	None	14519631	14530149	-1	DDX39	DDXL, BAT1L, URH49
19	DDX39A	ENSG00000123136	ENST00000588692	nonsense_mediated_decay	KNOWN	None	17821	804	267	14519662	14524032	-1	DDX39	DDXL, BAT1L, URH49
19	DDX39A	ENSG00000123136	ENST00000242776	protein_coding	KNOWN	CCDS12308	17821	1284	427	14519663	14530179	-1	DDX39	DDXL, BAT1L, URH49
19	DDX39A	ENSG00000123136	ENST00000592927	processed_transcript	KNOWN	None	17821	None	None	14520348	14522410	-1	DDX39	DDXL, BAT1L, URH49
19	DDX39A	ENSG00000123136	ENST00000592391	retained_intron	KNOWN	None	17821	None	None	14520351	14522328	-1	DDX39	DDXL, BAT1L, URH49
19	DDX39A	ENSG00000123136	ENST00000588542	retained_intron	KNOWN	None	17821	None	None	14520585	14530141	-1	DDX39	DDXL, BAT1L, URH49
19	DDX39A	ENSG00000123136	ENST00000589675	protein_coding	NOVEL	None	17821	765	254	14521028	14530141	-1	DDX39	DDXL, BAT1L, URH49
19	DDX39A	ENSG00000123136	ENST00000593026	retained_intron	KNOWN	None	17821	None	None	14521073	14522198	-1	DDX39	DDXL, BAT1L, URH49
19	DDX39A	ENSG00000123136	ENST00000590315	protein_coding	PUTATIVE	None	17821	566	187	14521120	14523994	-1	DDX39	DDXL, BAT1L, URH49
19	DDX39A	ENSG00000123136	ENST00000590556	retained_intron	KNOWN	None	17821	None	None	14521459	14522366	-1	DDX39	DDXL, BAT1L, URH49
19	DDX39A	ENSG00000123136	ENST00000590260	retained_intron	KNOWN	None	17821	None	None	14521874	14530192	-1	DDX39	DDXL, BAT1L, URH49
19	DDX39A	ENSG00000123136	ENST00000586558	retained_intron	KNOWN	None	17821	None	None	14522030	14530153	-1	DDX39	DDXL, BAT1L, URH49
19	DDX39A	ENSG00000123136	ENST00000590239	protein_coding	KNOWN	None	17821	392	129	14522355	14529874	-1	DDX39	DDXL, BAT1L, URH49
19	DDX39A	ENSG00000123136	ENST00000586993	protein_coding	KNOWN	None	17821	375	124	14522372	14529905	-1	DDX39	DDXL, BAT1L, URH49
19	DDX39A	ENSG00000123136	ENST00000592632	protein_coding	PUTATIVE	None	17821	528	175	14523171	14530135	-1	DDX39	DDXL, BAT1L, URH49
19	DDX39A	ENSG00000123136	ENST00000593008	processed_transcript	KNOWN	None	17821	None	None	14523373	14530153	-1	DDX39	DDXL, BAT1L, URH49
19	DDX39A	ENSG00000123136	ENST00000591275	protein_coding	KNOWN	None	17821	325	107	14523374	14529895	-1	DDX39	DDXL, BAT1L, URH49
19	DDX39A	ENSG00000123136	ENST00000590696	protein_coding	KNOWN	None	17821	277	91	14523422	14529885	-1	DDX39	DDXL, BAT1L, URH49
19	DDX39A	ENSG00000123136	ENST00000454233	protein_coding	KNOWN	None	17821	804	267	14520722	14524032	-1	DDX39	DDXL, BAT1L, URH49
3	None	ENSG00000239167	ENST00000459448	miRNA	NOVEL	None	None	None	None	10523647	10523709	1	None	None
12	None	ENSG00000256115	ENST00000544717	lincRNA	KNOWN	None	None	None	None	5343163	5349269	-1	None	None
12	None	ENSG00000256115	ENST00000540619	lincRNA	KNOWN	None	None	None	None	5343584	5349271	-1	None	None
12	None	ENSG00000256115	ENST00000540237	lincRNA	KNOWN	None	None	None	None	5343840	5347438	-1	None	None
12	None	ENSG00000256115	ENST00000536518	lincRNA	KNOWN	None	None	None	None	5347214	5352317	-1	None	None
X	None	ENSG00000223018	ENST00000411086	miRNA	NOVEL	None	None	None	None	18881682	18881826	-1	None	None
12	None	ENSG00000237766	ENST00000543442	processed_pseudogene	KNOWN	None	None	None	None	67659622	67660746	-1	None	None
15	SNORD115-12	ENSG00000199453	ENST00000362583	snoRNA	KNOWN	None	33031	None	None	25436563	25436644	1	None	HBII-52-12
3	MIR566	ENSG00000207922	ENST00000385187	miRNA	KNOWN	None	32822	None	None	50210759	50210852	1	MIRN566	hsa-mir-566
HSCHR6_MHC_QBL	None	ENSG00000257783	ENST00000551859	pseudogene	NOVEL	None	None	None	None	31094552	31094771	1	None	None
14	RNU7-41P	ENSG00000251726	ENST00000515917	snRNA	KNOWN	None	34137	None	None	35314506	35314566	-1	None	U7.41
17	KCNJ2	ENSG00000123700	ENST00000535240	protein_coding	KNOWN	CCDS11688	6263	1284	427	68164814	68172464	1	None	Kir2.1, IRK1, LQT7
17	KCNJ2	ENSG00000123700	ENST00000243457	protein_coding	KNOWN	CCDS11688	6263	1284	427	68165676	68176189	1	None	Kir2.1, IRK1, LQT7
11	None	ENSG00000255283	ENST00000532369	unprocessed_pseudogene	KNOWN	None	None	None	None	55046923	55052225	-1	None	None
11	None	ENSG00000255283	ENST00000598482	unprocessed_pseudogene	KNOWN	None	None	None	None	55052134	55052999	-1	None	None
8	RNU6-729P	ENSG00000207128	ENST00000384399	snRNA	KNOWN	None	47692	None	None	10333733	10333839	1	None	None
7	None	ENSG00000228031	ENST00000438969	lincRNA	KNOWN	None	None	None	None	137029676	137039229	-1	None	None
X	HAUS1P2	ENSG00000224224	ENST00000439908	processed_pseudogene	KNOWN	None	43761	None	None	18883889	18884672	1	None	None
HSCHR6_MHC_QBL	POLR2LP	ENSG00000237545	ENST00000448487	processed_pseudogene	KNOWN	None	31340	None	None	31100958	31101144	1	None	AB023060.6
X	RNU7-69P	ENSG00000252178	ENST00000516369	snRNA	KNOWN	None	34165	None	None	122905928	122905989	-1	None	U7.69
6	None	ENSG00000221175	ENST00000408248	miRNA	NOVEL	None	None	None	None	48817560	48817639	1	None	None
20	TTI1	ENSG00000101407	ENST00000373448	protein_coding	KNOWN	CCDS13300	29029	3270	1089	36611409	36661863	-1	KIAA0406	smg-10
20	TTI1	ENSG00000101407	ENST00000373447	protein_coding	KNOWN	CCDS13300	29029	3270	1089	36611409	36661870	-1	KIAA0406	smg-10
20	TTI1	ENSG00000101407	ENST00000473288	processed_transcript	KNOWN	None	29029	None	None	36624777	36628917	-1	KIAA0406	smg-10
20	TTI1	ENSG00000101407	ENST00000487362	processed_transcript	PUTATIVE	None	29029	None	None	36640210	36642259	-1	KIAA0406	smg-10
20	TTI1	ENSG00000101407	ENST00000449821	protein_coding	KNOWN	CCDS13300	29029	3270	1089	36611424	36642305	-1	KIAA0406	smg-10
10	None	ENSG00000226428	ENST00000414329	processed_pseudogene	KNOWN	None	None	None	None	116660481	116661125	1	None	None
17	MSI2	ENSG00000153944	ENST00000416426	protein_coding	PUTATIVE	None	18585	975	324	55333212	55757482	1	None	None
17	MSI2	ENSG00000153944	ENST00000284073	protein_coding	KNOWN	CCDS11596	18585	987	328	55333895	55762046	1	None	None
17	MSI2	ENSG00000153944	ENST00000581776	nonsense_mediated_decay	KNOWN	None	18585	300	99	55334101	55442374	1	None	None
17	MSI2	ENSG00000153944	ENST00000581523	processed_transcript	KNOWN	None	18585	None	None	55334104	55351850	1	None	None
17	MSI2	ENSG00000153944	ENST00000582453	processed_transcript	KNOWN	None	18585	None	None	55334135	55643356	1	None	None
17	MSI2	ENSG00000153944	ENST00000322684	protein_coding	KNOWN	CCDS11597	18585	756	251	55334374	55710261	1	None	None
17	MSI2	ENSG00000153944	ENST00000579590	protein_coding	NOVEL	None	18585	422	139	55334379	55509975	1	None	None
17	MSI2	ENSG00000153944	ENST00000579531	processed_transcript	KNOWN	None	18585	None	None	55334403	55351794	1	None	None
17	MSI2	ENSG00000153944	ENST00000584476	retained_intron	KNOWN	None	18585	None	None	55334485	55339794	1	None	None
17	MSI2	ENSG00000153944	ENST00000579483	retained_intron	KNOWN	None	18585	None	None	55339476	55345911	1	None	None
17	MSI2	ENSG00000153944	ENST00000442934	protein_coding	PUTATIVE	None	18585	804	267	55363205	55757658	1	None	None
17	MSI2	ENSG00000153944	ENST00000579180	protein_coding	KNOWN	None	18585	456	151	55372046	55710266	1	None	None
17	MSI2	ENSG00000153944	ENST00000579205	processed_transcript	KNOWN	None	18585	None	None	55484173	55704663	1	None	None
17	MSI2	ENSG00000153944	ENST00000579505	processed_transcript	KNOWN	None	18585	None	None	55518051	55752420	1	None	None
17	MSI2	ENSG00000153944	ENST00000582772	processed_transcript	KNOWN	None	18585	None	None	55521848	55674311	1	None	None
17	MSI2	ENSG00000153944	ENST00000577241	retained_intron	KNOWN	None	18585	None	None	55674264	55693992	1	None	None
17	MSI2	ENSG00000153944	ENST00000583705	retained_intron	KNOWN	None	18585	None	None	55702933	55710544	1	None	None
17	MSI2	ENSG00000153944	ENST00000583821	retained_intron	KNOWN	None	18585	None	None	55704276	55709310	1	None	None
17	MSI2	ENSG00000153944	ENST00000579466	processed_transcript	KNOWN	None	18585	None	None	55748835	55752417	1	None	None
14	None	ENSG00000258738	ENST00000557373	antisense	KNOWN	None	None	None	None	35343549	35345665	1	None	None
6	None	ENSG00000271162	ENST00000604551	processed_pseudogene	KNOWN	None	None	None	None	48919707	48920418	-1	None	None
11	None	ENSG00000255059	ENST00000527147	processed_pseudogene	KNOWN	None	None	None	None	100537190	100537693	1	None	None
11	SYVN1	ENSG00000162298	ENST00000530451	retained_intron	KNOWN	None	20738	None	None	64889252	64897458	-1	None	HRD1, DER3
11	SYVN1	ENSG00000162298	ENST00000294256	protein_coding	KNOWN	CCDS8097	20738	1851	616	64894751	64902003	-1	None	HRD1, DER3
11	SYVN1	ENSG00000162298	ENST00000377190	protein_coding	KNOWN	CCDS31605	20738	1854	617	64894751	64902004	-1	None	HRD1, DER3
11	SYVN1	ENSG00000162298	ENST00000307289	protein_coding	KNOWN	None	20738	1698	565	64894753	64901951	-1	None	HRD1, DER3
11	SYVN1	ENSG00000162298	ENST00000449943	retained_intron	KNOWN	None	20738	None	None	64894753	64901958	-1	None	HRD1, DER3
11	SYVN1	ENSG00000162298	ENST00000526060	protein_coding	KNOWN	CCDS8097	20738	1851	616	64894754	64901900	-1	None	HRD1, DER3
11	SYVN1	ENSG00000162298	ENST00000527765	processed_transcript	KNOWN	None	20738	None	None	64896144	64897761	-1	None	HRD1, DER3
11	SYVN1	ENSG00000162298	ENST00000526121	processed_transcript	KNOWN	None	20738	None	None	64898200	64899812	-1	None	HRD1, DER3
11	SYVN1	ENSG00000162298	ENST00000531018	protein_coding	PUTATIVE	None	20738	710	235	64898442	64900791	-1	None	HRD1, DER3
11	SYVN1	ENSG00000162298	ENST00000532771	nonsense_mediated_decay	KNOWN	None	20738	448	148	64898466	64901019	-1	None	HRD1, DER3
11	SYVN1	ENSG00000162298	ENST00000529207	retained_intron	KNOWN	None	20738	None	None	64898603	64900795	-1	None	HRD1, DER3
11	SYVN1	ENSG00000162298	ENST00000527142	nonsense_mediated_decay	KNOWN	None	20738	450	149	64898603	64901087	-1	None	HRD1, DER3
11	SYVN1	ENSG00000162298	ENST00000528487	protein_coding	NOVEL	None	20738	713	236	64898745	64901971	-1	None	HRD1, DER3
11	SYVN1	ENSG00000162298	ENST00000525874	retained_intron	KNOWN	None	20738	None	None	64900098	64900798	-1	None	HRD1, DER3
11	SYVN1	ENSG00000162298	ENST00000533685	retained_intron	KNOWN	None	20738	None	None	64900166	64900791	-1	None	HRD1, DER3
15	SNORD115-14	ENSG00000199960	ENST00000363090	snoRNA	KNOWN	None	33033	None	None	25440068	25440148	1	None	HBII-52-14
6	None	ENSG00000218337	ENST00000404962	processed_pseudogene	KNOWN	None	None	None	None	49045349	49045688	-1	None	None
HSCHR6_MHC_QBL	PSORS1C3	ENSG00000224744	ENST00000425066	processed_transcript	KNOWN	None	17203	None	None	31133984	31138149	-1	None	NCRNA00196
5	SERF1A	ENSG00000172058	ENST00000317633	protein_coding	KNOWN	CCDS47229	10755	189	62	70196492	70204202	1	SERF1	H4F5, 4F5, FAM2A, SMAM1
5	SERF1A	ENSG00000172058	ENST00000511162	protein_coding	KNOWN	None	10755	62	19	70196496	70197748	1	SERF1	H4F5, 4F5, FAM2A, SMAM1
5	SERF1A	ENSG00000172058	ENST00000354833	protein_coding	KNOWN	CCDS47228	10755	333	110	70196514	70214357	1	SERF1	H4F5, 4F5, FAM2A, SMAM1
5	SERF1A	ENSG00000172058	ENST00000513436	protein_coding	PUTATIVE	None	10755	246	81	70196591	70214347	1	SERF1	H4F5, 4F5, FAM2A, SMAM1
5	SERF1A	ENSG00000172058	ENST00000504458	protein_coding	PUTATIVE	None	10755	228	75	70196601	70201368	1	SERF1	H4F5, 4F5, FAM2A, SMAM1
5	SERF1A	ENSG00000172058	ENST00000507348	protein_coding	KNOWN	None	10755	147	48	70196805	70203942	1	SERF1	H4F5, 4F5, FAM2A, SMAM1
5	SERF1A	ENSG00000172058	ENST00000512868	protein_coding	KNOWN	None	10755	268	88	70196808	70212961	1	SERF1	H4F5, 4F5, FAM2A, SMAM1
5	SERF1A	ENSG00000172058	ENST00000512649	protein_coding	KNOWN	None	10755	291	96	70196821	70213348	1	SERF1	H4F5, 4F5, FAM2A, SMAM1
5	SERF1A	ENSG00000172058	ENST00000503509	retained_intron	KNOWN	None	10755	None	None	70197509	70203940	1	SERF1	H4F5, 4F5, FAM2A, SMAM1
10	RNU6-1121P	ENSG00000252611	ENST00000516802	snRNA	KNOWN	None	48084	None	None	116729219	116729327	-1	None	None
11	None	ENSG00000254983	ENST00000526616	sense_intronic	KNOWN	None	None	None	None	12325080	12329763	1	None	None
4	ARSJ	ENSG00000180801	ENST00000315366	protein_coding	KNOWN	CCDS43264	26286	1800	599	114821440	114900857	-1	None	FLJ23548
4	ARSJ	ENSG00000180801	ENST00000509829	nonsense_mediated_decay	KNOWN	None	26286	402	133	114823508	114900803	-1	None	FLJ23548
4	ARSJ	ENSG00000180801	ENST00000503013	processed_transcript	KNOWN	None	26286	None	None	114867348	114900883	-1	None	FLJ23548
4	ARSJ	ENSG00000180801	ENST00000541197	protein_coding	KNOWN	None	26286	1791	596	114823182	114900152	-1	None	FLJ23548
8	None	ENSG00000253678	ENST00000520494	lincRNA	KNOWN	None	None	None	None	10335001	10336885	-1	None	None
3	RNU6-509P	ENSG00000200389	ENST00000363519	snRNA	KNOWN	None	47472	None	None	141621766	141621872	-1	None	None
10	None	ENSG00000236799	ENST00000433085	lincRNA	KNOWN	None	None	None	None	116754416	116756352	1	None	None
6	None	ENSG00000217631	ENST00000402892	processed_pseudogene	KNOWN	None	None	None	None	49241241	49241435	1	None	None
3	ATP2B2-IT1	ENSG00000236999	ENST00000440152	sense_intronic	KNOWN	None	41309	None	None	10607939	10612059	-1	None	None
3	ATP1B3-AS1	ENSG00000244124	ENST00000492725	antisense	KNOWN	None	40088	None	None	141637094	141637863	-1	None	None
9	C9orf47	ENSG00000186354	ENST00000375851	protein_coding	KNOWN	CCDS47989	23669	552	183	91605778	91611055	1	C9orf108	FLJ37523, bA791O21.3
9	C9orf47	ENSG00000186354	ENST00000375850	protein_coding	PUTATIVE	None	23669	708	235	91605836	91606979	1	C9orf108	FLJ37523, bA791O21.3
9	C9orf47	ENSG00000186354	ENST00000334490	protein_coding	KNOWN	CCDS35062	23669	609	202	91605843	91611055	1	C9orf108	FLJ37523, bA791O21.3
3	None	ENSG00000237222	ENST00000423318	lincRNA	KNOWN	None	None	None	None	194429150	194502897	1	None	None
3	None	ENSG00000237222	ENST00000454508	lincRNA	KNOWN	None	None	None	None	194429769	194430918	1	None	None
3	None	ENSG00000237222	ENST00000455796	lincRNA	KNOWN	None	None	None	None	194489535	194500387	1	None	None
3	None	ENSG00000237222	ENST00000415410	lincRNA	KNOWN	None	None	None	None	194500958	194502106	1	None	None
11	None	ENSG00000264283	ENST00000581154	miRNA	NOVEL	None	None	None	None	12366314	12366408	1	None	None
6	None	ENSG00000272312	ENST00000606374	lincRNA	KNOWN	None	None	None	None	26968987	26969427	-1	None	None
X	CHCHD2P1	ENSG00000226902	ENST00000429986	processed_pseudogene	KNOWN	None	39585	None	None	122918859	122919301	1	None	None
11	None	ENSG00000254686	ENST00000525573	lincRNA	KNOWN	None	None	None	None	35678242	35682887	1	None	None
11	None	ENSG00000248027	ENST00000501397	antisense	KNOWN	None	None	None	None	100554893	100558686	-1	None	None
3	ATP2B2-IT2	ENSG00000224771	ENST00000419591	sense_intronic	KNOWN	None	41310	None	None	10667706	10668492	-1	None	None
6	TRNAI2	ENSG00000238621	ENST00000459170	miRNA	KNOWN	None	34587	None	None	26988114	26988226	1	None	None
2	None	ENSG00000270956	ENST00000604692	antisense	KNOWN	None	None	None	None	179405852	179406526	1	None	None
HSCHR6_MHC_QBL	HCG27	ENSG00000220890	ENST00000446297	processed_transcript	PUTATIVE	None	27366	None	None	31162246	31163228	1	None	bPG299F13.9, bCX101P6.9, bQB115I13.2, FLJ40123
HSCHR6_MHC_QBL	HCG27	ENSG00000220890	ENST00000420467	processed_transcript	PUTATIVE	None	27366	None	None	31158360	31163449	1	None	bPG299F13.9, bCX101P6.9, bQB115I13.2, FLJ40123
HSCHR6_MHC_QBL	HCG27	ENSG00000220890	ENST00000407772	processed_transcript	KNOWN	None	27366	None	None	31157983	31164195	1	None	bPG299F13.9, bCX101P6.9, bQB115I13.2, FLJ40123
3	None	ENSG00000252398	ENST00000516589	misc_RNA	NOVEL	None	None	None	None	32087365	32087471	1	None	None
HG271_PATCH	BAHCC1	ENSG00000266074	ENST00000584436	protein_coding	PUTATIVE	None	29279	7920	2639	79369275	79440126	1	None	KIAA1447, BAHD2
HG271_PATCH	BAHCC1	ENSG00000266074	ENST00000583828	processed_transcript	KNOWN	None	29279	None	None	79373574	79375658	1	None	KIAA1447, BAHD2
HG271_PATCH	BAHCC1	ENSG00000266074	ENST00000583633	TEC	KNOWN	None	29279	None	None	79374890	79376779	1	None	KIAA1447, BAHD2
HG271_PATCH	BAHCC1	ENSG00000266074	ENST00000585224	processed_transcript	KNOWN	None	29279	None	None	79417265	79418073	1	None	KIAA1447, BAHD2
HG271_PATCH	BAHCC1	ENSG00000266074	ENST00000584330	retained_intron	KNOWN	None	29279	None	None	79429958	79432161	1	None	KIAA1447, BAHD2
HG271_PATCH	BAHCC1	ENSG00000266074	ENST00000578541	retained_intron	KNOWN	None	29279	None	None	79433191	79434992	1	None	KIAA1447, BAHD2
HG271_PATCH	BAHCC1	ENSG00000266074	ENST00000582709	retained_intron	KNOWN	None	29279	None	None	79436359	79437555	1	None	KIAA1447, BAHD2
8	CPSF1	ENSG00000071894	ENST00000531480	retained_intron	KNOWN	None	2324	None	None	145618444	145619631	-1	None	None
8	CPSF1	ENSG00000071894	ENST00000531727	processed_transcript	KNOWN	None	2324	None	None	145618444	145619656	-1	None	None
8	CPSF1	ENSG00000071894	ENST00000349769	protein_coding	KNOWN	CCDS34966	2324	4332	1443	145618450	145634753	-1	None	None
8	CPSF1	ENSG00000071894	ENST00000532725	retained_intron	KNOWN	None	2324	None	None	145618780	145619452	-1	None	None
8	CPSF1	ENSG00000071894	ENST00000526271	retained_intron	KNOWN	None	2324	None	None	145618914	145619931	-1	None	None
8	CPSF1	ENSG00000071894	ENST00000532935	processed_transcript	KNOWN	None	2324	None	None	145619098	145619976	-1	None	None
8	CPSF1	ENSG00000071894	ENST00000529288	retained_intron	KNOWN	None	2324	None	None	145620528	145621194	-1	None	None
8	CPSF1	ENSG00000071894	ENST00000527827	retained_intron	KNOWN	None	2324	None	None	145621230	145621945	-1	None	None
8	CPSF1	ENSG00000071894	ENST00000527916	retained_intron	KNOWN	None	2324	None	None	145623913	145624736	-1	None	None
8	CPSF1	ENSG00000071894	ENST00000533492	retained_intron	KNOWN	None	2324	None	None	145624610	145625197	-1	None	None
8	CPSF1	ENSG00000071894	ENST00000532560	retained_intron	KNOWN	None	2324	None	None	145625190	145626380	-1	None	None
8	CPSF1	ENSG00000071894	ENST00000531683	retained_intron	KNOWN	None	2324	None	None	145625199	145627069	-1	None	None
8	CPSF1	ENSG00000071894	ENST00000531042	protein_coding	PUTATIVE	None	2324	524	173	145626333	145634672	-1	None	None
7	None	ENSG00000230383	ENST00000456481	processed_pseudogene	KNOWN	None	None	None	None	137406731	137407592	1	None	None
3	MKI67IPP7	ENSG00000251590	ENST00000503365	unprocessed_pseudogene	KNOWN	None	44955	None	None	32105466	32108103	-1	None	None
14	None	ENSG00000258704	ENST00000556355	antisense	KNOWN	None	None	None	None	35390064	35451658	-1	None	None
14	None	ENSG00000258704	ENST00000555015	antisense	KNOWN	None	None	None	None	35390816	35451721	-1	None	None
14	None	ENSG00000258704	ENST00000556705	retained_intron	KNOWN	None	None	None	None	35432914	35451738	-1	None	None
14	None	ENSG00000258704	ENST00000554945	antisense	KNOWN	None	None	None	None	35433120	35451698	-1	None	None
2	None	ENSG00000270277	ENST00000603415	antisense	KNOWN	None	None	None	None	179413611	179415408	1	None	None
12	MRPL40P1	ENSG00000256037	ENST00000542687	processed_pseudogene	KNOWN	None	44532	None	None	67745216	67745819	1	None	None
11	None	ENSG00000254847	ENST00000526112	lincRNA	KNOWN	None	None	None	None	12559630	12562514	-1	None	None
HSCHR6_MHC_MCF	VPS52	ENSG00000224455	ENST00000478392	nonsense_mediated_decay	KNOWN	None	10518	267	88	33388442	33410026	-1	SACM2L	ARE1
HSCHR6_MHC_MCF	VPS52	ENSG00000224455	ENST00000443860	protein_coding	KNOWN	None	10518	2172	723	33388442	33410044	-1	SACM2L	ARE1
HSCHR6_MHC_MCF	VPS52	ENSG00000224455	ENST00000483351	processed_transcript	KNOWN	None	10518	None	None	33388442	33410197	-1	SACM2L	ARE1
HSCHR6_MHC_MCF	VPS52	ENSG00000224455	ENST00000467000	processed_transcript	PUTATIVE	None	10518	None	None	33388776	33401768	-1	SACM2L	ARE1
HSCHR6_MHC_MCF	VPS52	ENSG00000224455	ENST00000494451	processed_transcript	PUTATIVE	None	10518	None	None	33388981	33402458	-1	SACM2L	ARE1
HSCHR6_MHC_MCF	VPS52	ENSG00000224455	ENST00000485137	processed_transcript	PUTATIVE	None	10518	None	None	33390087	33402719	-1	SACM2L	ARE1
HSCHR6_MHC_MCF	VPS52	ENSG00000224455	ENST00000488248	retained_intron	KNOWN	None	10518	None	None	33401703	33402377	-1	SACM2L	ARE1
HSCHR6_MHC_MCF	VPS52	ENSG00000224455	ENST00000463636	retained_intron	KNOWN	None	10518	None	None	33402234	33405418	-1	SACM2L	ARE1
HSCHR6_MHC_MCF	VPS52	ENSG00000224455	ENST00000484059	retained_intron	KNOWN	None	10518	None	None	33405619	33406306	-1	SACM2L	ARE1
HSCHR6_MHC_MCF	VPS52	ENSG00000224455	ENST00000462911	processed_transcript	KNOWN	None	10518	None	None	33406023	33409927	-1	SACM2L	ARE1
HSCHR6_MHC_MCF	VPS52	ENSG00000224455	ENST00000487611	processed_transcript	KNOWN	None	10518	None	None	33406024	33410034	-1	SACM2L	ARE1
11	None	ENSG00000261355	ENST00000570295	sense_overlapping	KNOWN	None	None	None	None	35835882	35839557	1	None	None
2	None	ENSG00000271011	ENST00000604215	antisense	KNOWN	None	None	None	None	179441830	179442349	1	None	None
10	None	ENSG00000271173	ENST00000603304	processed_pseudogene	KNOWN	None	None	None	None	44223665	44224176	1	None	None
7	None	ENSG00000237243	ENST00000418554	antisense	KNOWN	None	None	None	None	137638094	137642712	1	None	None
14	None	ENSG00000259687	ENST00000561000	lincRNA	KNOWN	None	None	None	None	75761107	75762843	1	None	None
14	None	ENSG00000259687	ENST00000558575	lincRNA	KNOWN	None	None	None	None	75761110	75763341	1	None	None
3	None	ENSG00000269905	ENST00000602556	lincRNA	KNOWN	None	None	None	None	141663270	141666233	-1	None	None
2	None	ENSG00000270574	ENST00000603521	antisense	KNOWN	None	None	None	None	179443517	179445633	1	None	None
12	NME2P1	ENSG00000123009	ENST00000426182	processed_pseudogene	KNOWN	None	31358	None	None	120720106	120720519	1	None	None
12	NME2P1	ENSG00000123009	ENST00000242630	processed_pseudogene	KNOWN	None	31358	None	None	120719940	120720632	1	None	None
3	SLC38A3	ENSG00000188338	ENST00000427428	processed_transcript	KNOWN	None	18044	None	None	50242679	50252189	1	None	G17, SN1
3	SLC38A3	ENSG00000188338	ENST00000420502	processed_transcript	KNOWN	None	18044	None	None	50242679	50258411	1	None	G17, SN1
3	SLC38A3	ENSG00000188338	ENST00000414604	processed_transcript	KNOWN	None	18044	None	None	50242701	50255427	1	None	G17, SN1
3	SLC38A3	ENSG00000188338	ENST00000456338	retained_intron	KNOWN	None	18044	None	None	50242712	50252346	1	None	G17, SN1
3	SLC38A3	ENSG00000188338	ENST00000445096	processed_transcript	KNOWN	None	18044	None	None	50242719	50256104	1	None	G17, SN1
3	SLC38A3	ENSG00000188338	ENST00000445325	processed_transcript	KNOWN	None	18044	None	None	50245116	50252201	1	None	G17, SN1
3	SLC38A3	ENSG00000188338	ENST00000439524	retained_intron	KNOWN	None	18044	None	None	50252699	50254725	1	None	G17, SN1
3	SLC38A3	ENSG00000188338	ENST00000417851	retained_intron	KNOWN	None	18044	None	None	50255168	50256100	1	None	G17, SN1
3	SLC38A3	ENSG00000188338	ENST00000417121	retained_intron	KNOWN	None	18044	None	None	50255346	50256112	1	None	G17, SN1
3	SLC38A3	ENSG00000188338	ENST00000541861	processed_transcript	KNOWN	None	18044	None	None	50242692	50258400	1	None	G17, SN1
11	None	ENSG00000265208	ENST00000577356	miRNA	NOVEL	None	None	None	None	100665172	100665266	1	None	None
11	None	ENSG00000254688	ENST00000526953	antisense	KNOWN	None	None	None	None	12843982	12845214	-1	None	None
3	None	ENSG00000233597	ENST00000498753	processed_pseudogene	KNOWN	None	None	None	None	141762465	141763040	-1	None	None
3	None	ENSG00000236732	ENST00000434678	unprocessed_pseudogene	KNOWN	None	None	None	None	32192575	32193387	-1	None	None
10	UQCRHP3	ENSG00000224162	ENST00000451503	processed_pseudogene	KNOWN	None	38046	None	None	44227782	44228032	1	None	None
2	None	ENSG00000271141	ENST00000605334	lincRNA	KNOWN	None	None	None	None	179481308	179481850	1	None	None
3	None	ENSG00000238646	ENST00000459453	snoRNA	NOVEL	None	None	None	None	32214148	32214252	1	None	None
12	NTAN1P3	ENSG00000256355	ENST00000535885	processed_pseudogene	KNOWN	None	45263	None	None	67818052	67818766	-1	None	None
11	PPP2R1B	ENSG00000137713	ENST00000311129	protein_coding	KNOWN	CCDS8348	9303	2004	667	111597632	111637106	-1	None	PR65B, PP2A-Abeta
11	PPP2R1B	ENSG00000137713	ENST00000426998	protein_coding	NOVEL	CCDS53706	9303	1812	603	111597638	111637110	-1	None	PR65B, PP2A-Abeta
11	PPP2R1B	ENSG00000137713	ENST00000530787	processed_transcript	PUTATIVE	None	9303	None	None	111597694	111606047	-1	None	PR65B, PP2A-Abeta
11	PPP2R1B	ENSG00000137713	ENST00000526287	processed_transcript	PUTATIVE	None	9303	None	None	111606005	111608227	-1	None	PR65B, PP2A-Abeta
11	PPP2R1B	ENSG00000137713	ENST00000527614	protein_coding	KNOWN	CCDS8349	9303	1806	601	111608605	111637151	-1	None	PR65B, PP2A-Abeta
11	PPP2R1B	ENSG00000137713	ENST00000534521	nonsense_mediated_decay	KNOWN	None	9303	408	135	111611779	111637092	-1	None	PR65B, PP2A-Abeta
11	PPP2R1B	ENSG00000137713	ENST00000341980	protein_coding	NOVEL	CCDS53708	9303	1671	556	111612045	111637092	-1	None	PR65B, PP2A-Abeta
11	PPP2R1B	ENSG00000137713	ENST00000393055	protein_coding	NOVEL	CCDS53707	9303	1425	474	111612241	111637106	-1	None	PR65B, PP2A-Abeta
11	PPP2R1B	ENSG00000137713	ENST00000529672	retained_intron	KNOWN	None	9303	None	None	111612272	111618718	-1	None	PR65B, PP2A-Abeta
11	PPP2R1B	ENSG00000137713	ENST00000531890	protein_coding	NOVEL	None	9303	670	222	111612781	111625762	-1	None	PR65B, PP2A-Abeta
11	PPP2R1B	ENSG00000137713	ENST00000534500	nonsense_mediated_decay	KNOWN	None	9303	252	83	111630538	111637091	-1	None	PR65B, PP2A-Abeta
11	PPP2R1B	ENSG00000137713	ENST00000531373	protein_coding	PUTATIVE	None	9303	357	118	111631680	111636786	-1	None	PR65B, PP2A-Abeta
11	PPP2R1B	ENSG00000137713	ENST00000427203	protein_coding	KNOWN	None	9303	1323	440	111611779	111637092	-1	None	PR65B, PP2A-Abeta
12	RNU4-2	ENSG00000202538	ENST00000365668	snRNA	KNOWN	None	10193	None	None	120729566	120729706	-1	RNU4C, RNU4-1B, RNU4B1	U4c, U4b, U4A
11	RN7SKP115	ENSG00000200047	ENST00000363177	misc_RNA	KNOWN	None	45839	None	None	100710361	100710677	1	None	None
11	KRT18P14	ENSG00000186082	ENST00000534205	processed_pseudogene	KNOWN	None	6433	None	None	35881799	35883048	-1	KRT18L4	None
19	PPP6R1	ENSG00000105063	ENST00000587457	retained_intron	KNOWN	None	29195	None	None	55741148	55744562	-1	KIAA1115, SAPS1	SAP190
19	PPP6R1	ENSG00000105063	ENST00000412770	protein_coding	KNOWN	CCDS46186	29195	2646	881	55741148	55770363	-1	KIAA1115, SAPS1	SAP190
19	PPP6R1	ENSG00000105063	ENST00000587283	protein_coding	KNOWN	CCDS46186	29195	2646	881	55741858	55758740	-1	KIAA1115, SAPS1	SAP190
19	PPP6R1	ENSG00000105063	ENST00000586690	retained_intron	KNOWN	None	29195	None	None	55747681	55750873	-1	KIAA1115, SAPS1	SAP190
19	PPP6R1	ENSG00000105063	ENST00000589343	retained_intron	KNOWN	None	29195	None	None	55750062	55751056	-1	KIAA1115, SAPS1	SAP190
19	PPP6R1	ENSG00000105063	ENST00000591323	retained_intron	KNOWN	None	29195	None	None	55751354	55753736	-1	KIAA1115, SAPS1	SAP190
19	PPP6R1	ENSG00000105063	ENST00000591602	retained_intron	KNOWN	None	29195	None	None	55752845	55753986	-1	KIAA1115, SAPS1	SAP190
19	PPP6R1	ENSG00000105063	ENST00000592242	protein_coding	KNOWN	None	29195	473	156	55756712	55767137	-1	KIAA1115, SAPS1	SAP190
11	None	ENSG00000238388	ENST00000459511	snoRNA	NOVEL	None	None	None	None	100805005	100805109	1	None	None
2	None	ENSG00000271401	ENST00000605021	lincRNA	KNOWN	None	None	None	None	179509444	179509906	1	None	None
3	None	ENSG00000237433	ENST00000443010	processed_pseudogene	KNOWN	None	None	None	None	32232239	32233119	1	None	None
3	LINC00606	ENSG00000226567	ENST00000412578	lincRNA	KNOWN	None	43931	None	None	10801169	10805877	-1	None	None
3	LINC00606	ENSG00000226567	ENST00000436060	lincRNA	KNOWN	None	43931	None	None	10803391	10805866	-1	None	None
8	None	ENSG00000253408	ENST00000523459	antisense	KNOWN	None	None	None	None	42091193	42128429	-1	None	None
8	None	ENSG00000253408	ENST00000521470	antisense	KNOWN	None	None	None	None	42106570	42120924	-1	None	None
8	None	ENSG00000253408	ENST00000521802	antisense	KNOWN	None	None	None	None	42112846	42123216	-1	None	None
8	None	ENSG00000253408	ENST00000520890	antisense	KNOWN	None	None	None	None	42112846	42127906	-1	None	None
8	None	ENSG00000253408	ENST00000518994	antisense	KNOWN	None	None	None	None	42112846	42128438	-1	None	None
8	None	ENSG00000253408	ENST00000518213	antisense	KNOWN	None	None	None	None	42123647	42128715	-1	None	None
17	None	ENSG00000267893	ENST00000602013	protein_coding	KNOWN	None	None	153	50	70036164	70036872	1	None	None
11	None	ENSG00000255504	ENST00000531772	processed_transcript	KNOWN	None	None	None	None	101018881	101080322	1	None	None
11	None	ENSG00000255504	ENST00000526107	transcribed_processed_pseudogene	KNOWN	None	None	None	None	101079636	101080181	1	None	None
15	SNORD115-15	ENSG00000201679	ENST00000364809	snoRNA	KNOWN	None	33034	None	None	25442723	25442803	1	None	HBII-52-15
13	SLC15A1	ENSG00000088386	ENST00000376503	protein_coding	KNOWN	CCDS9489	10920	2127	708	99336055	99404908	-1	None	PEPT1, HPECT1, HPEPT1
13	SLC15A1	ENSG00000088386	ENST00000376494	retained_intron	KNOWN	None	10920	None	None	99372781	99378821	-1	None	PEPT1, HPECT1, HPEPT1
2	None	ENSG00000267784	ENST00000590024	antisense	KNOWN	None	None	None	None	179588184	179591773	1	None	None
3	None	ENSG00000261572	ENST00000565519	sense_intronic	KNOWN	None	None	None	None	32278180	32280070	-1	None	None
12	RNU4-1	ENSG00000200795	ENST00000363925	snRNA	KNOWN	None	10192	None	None	120730900	120731040	-1	RNU4B2, RNU4A	U4BL, U4
8	None	ENSG00000253525	ENST00000467010	processed_pseudogene	KNOWN	None	None	None	None	92169513	92170976	1	None	None
12	None	ENSG00000256172	ENST00000543387	lincRNA	KNOWN	None	None	None	None	67834778	67836339	-1	None	None
11	CREBZF	ENSG00000137504	ENST00000490820	nonsense_mediated_decay	KNOWN	CCDS41697	24905	1065	354	85370752	85376146	-1	None	ZF
11	CREBZF	ENSG00000137504	ENST00000528561	retained_intron	KNOWN	None	24905	None	None	85371193	85375148	-1	None	ZF
11	CREBZF	ENSG00000137504	ENST00000260058	nonsense_mediated_decay	KNOWN	None	24905	855	284	85371197	85375697	-1	None	ZF
11	CREBZF	ENSG00000137504	ENST00000531515	processed_transcript	KNOWN	None	24905	None	None	85371212	85393906	-1	None	ZF
11	CREBZF	ENSG00000137504	ENST00000534224	protein_coding	PUTATIVE	None	24905	204	67	85371296	85393951	-1	None	ZF
11	CREBZF	ENSG00000137504	ENST00000527529	nonsense_mediated_decay	KNOWN	None	24905	391	129	85371379	85375233	-1	None	ZF
11	CREBZF	ENSG00000137504	ENST00000525639	nonsense_mediated_decay	KNOWN	None	24905	1077	358	85371379	85376146	-1	None	ZF
11	CREBZF	ENSG00000137504	ENST00000527447	protein_coding	KNOWN	CCDS41697	24905	1065	354	85372110	85376146	-1	None	ZF
11	CREBZF	ENSG00000137504	ENST00000528889	retained_intron	KNOWN	None	24905	None	None	85372997	85374903	-1	None	ZF
11	CREBZF	ENSG00000137504	ENST00000398294	protein_coding	KNOWN	None	24905	819	272	85370767	85375700	-1	None	ZF
11	None	ENSG00000266590	ENST00000580945	miRNA	NOVEL	None	None	None	None	35882204	35882294	-1	None	None
2	None	ENSG00000266413	ENST00000582038	antisense	KNOWN	None	None	None	None	179641653	179644690	1	None	None
8	PRSS51	ENSG00000253649	ENST00000523024	antisense	KNOWN	None	37321	None	None	10340388	10405095	-1	None	None
8	PRSS51	ENSG00000253649	ENST00000521149	antisense	KNOWN	None	37321	None	None	10340434	10375525	-1	None	None
X	PHKA2-AS1	ENSG00000237836	ENST00000452900	antisense	KNOWN	None	44110	None	None	18908414	18912453	1	None	None
X	PHKA2-AS1	ENSG00000237836	ENST00000439295	antisense	KNOWN	None	44110	None	None	18910862	18912615	1	None	None
5	HARS	ENSG00000170445	ENST00000504156	protein_coding	KNOWN	CCDS4237	4816	1530	509	140052758	140071609	-1	None	None
5	HARS	ENSG00000170445	ENST00000457527	protein_coding	NOVEL	CCDS58978	4816	1470	489	140053489	140070962	-1	None	None
5	HARS	ENSG00000170445	ENST00000431330	protein_coding	NOVEL	None	4816	1188	395	140053489	140071122	-1	None	None
5	HARS	ENSG00000170445	ENST00000504366	protein_coding	PUTATIVE	None	4816	1323	440	140053491	140064923	-1	None	None
5	HARS	ENSG00000170445	ENST00000307633	protein_coding	NOVEL	CCDS58977	4816	1350	449	140053491	140070968	-1	None	None
5	HARS	ENSG00000170445	ENST00000438307	protein_coding	NOVEL	CCDS58976	4816	1410	469	140053500	140070926	-1	None	None
5	HARS	ENSG00000170445	ENST00000509087	retained_intron	KNOWN	None	4816	None	None	140053759	140054918	-1	None	None
5	HARS	ENSG00000170445	ENST00000415192	protein_coding	NOVEL	None	4816	1308	435	140053786	140070926	-1	None	None
5	HARS	ENSG00000170445	ENST00000506579	retained_intron	KNOWN	None	4816	None	None	140055008	140070926	-1	None	None
5	HARS	ENSG00000170445	ENST00000507746	protein_coding	PUTATIVE	None	4816	865	287	140056238	140070974	-1	None	None
5	HARS	ENSG00000170445	ENST00000512396	nonsense_mediated_decay	KNOWN	None	4816	183	60	140058688	140070926	-1	None	None
5	HARS	ENSG00000170445	ENST00000518126	retained_intron	KNOWN	None	4816	None	None	140058974	140070924	-1	None	None
5	HARS	ENSG00000170445	ENST00000502888	retained_intron	KNOWN	None	4816	None	None	140062346	140070881	-1	None	None
5	HARS	ENSG00000170445	ENST00000448240	protein_coding	KNOWN	None	4816	945	314	140053491	140070917	-1	None	None
3	None	ENSG00000270377	ENST00000603159	processed_pseudogene	KNOWN	None	None	None	None	32285339	32285510	-1	None	None
11	None	ENSG00000254919	ENST00000531569	antisense	KNOWN	None	None	None	None	35936601	35940268	-1	None	None
11	None	ENSG00000254919	ENST00000525363	antisense	KNOWN	None	None	None	None	35939217	35940289	-1	None	None
5	NDST1	ENSG00000070614	ENST00000522491	protein_coding	KNOWN	None	7680	204	67	149865381	149901020	1	HSST	NST1
5	NDST1	ENSG00000070614	ENST00000519157	protein_coding	KNOWN	None	7680	477	158	149865857	149901293	1	HSST	NST1
5	NDST1	ENSG00000070614	ENST00000524161	processed_transcript	KNOWN	None	7680	None	None	149865894	149900789	1	HSST	NST1
5	NDST1	ENSG00000070614	ENST00000523767	protein_coding	NOVEL	None	7680	2478	825	149877340	149933276	1	HSST	NST1
5	NDST1	ENSG00000070614	ENST00000518299	protein_coding	KNOWN	None	7680	69	22	149877489	149900885	1	HSST	NST1
5	NDST1	ENSG00000070614	ENST00000518346	processed_transcript	KNOWN	None	7680	None	None	149887202	149900664	1	HSST	NST1
5	NDST1	ENSG00000070614	ENST00000261797	protein_coding	KNOWN	CCDS34277	7680	2649	882	149887674	149937773	1	HSST	NST1
5	NDST1	ENSG00000070614	ENST00000521752	processed_transcript	KNOWN	None	7680	None	None	149932123	149933273	1	HSST	NST1
19	None	ENSG00000268870	ENST00000595562	protein_coding	PUTATIVE	None	None	449	148	12502763	12551896	-1	None	None
17	SOX9	ENSG00000125398	ENST00000245479	protein_coding	KNOWN	CCDS11689	11204	1530	509	70117161	70122561	1	CMD1, CMPD1	SRA1
18	MIR5583-1	ENSG00000266148	ENST00000580941	miRNA	KNOWN	None	43491	None	None	37256685	37256743	1	None	hsa-mir-5583-1
9	PTCH1	ENSG00000185920	ENST00000331920	protein_coding	KNOWN	CCDS6714	9585	4344	1447	98205262	98270943	-1	NBCCS, PTCH	BCNS
9	PTCH1	ENSG00000185920	ENST00000546744	retained_intron	KNOWN	None	9585	None	None	98205694	98212218	-1	NBCCS, PTCH	BCNS
9	PTCH1	ENSG00000185920	ENST00000375290	nonsense_mediated_decay	KNOWN	None	9585	1461	486	98205694	98268881	-1	NBCCS, PTCH	BCNS
9	PTCH1	ENSG00000185920	ENST00000430669	protein_coding	KNOWN	CCDS47996	9585	4146	1381	98205694	98279339	-1	NBCCS, PTCH	BCNS
9	PTCH1	ENSG00000185920	ENST00000429896	protein_coding	KNOWN	CCDS43851	9585	3891	1296	98206444	98269699	-1	NBCCS, PTCH	BCNS
9	PTCH1	ENSG00000185920	ENST00000375274	protein_coding	KNOWN	CCDS47995	9585	4341	1446	98208441	98279247	-1	NBCCS, PTCH	BCNS
9	PTCH1	ENSG00000185920	ENST00000547615	processed_transcript	KNOWN	None	9585	None	None	98218689	98222237	-1	NBCCS, PTCH	BCNS
9	PTCH1	ENSG00000185920	ENST00000549678	retained_intron	KNOWN	None	9585	None	None	98229569	98231471	-1	NBCCS, PTCH	BCNS
9	PTCH1	ENSG00000185920	ENST00000375271	protein_coding	NOVEL	None	9585	1058	351	98231220	98242767	-1	NBCCS, PTCH	BCNS
9	PTCH1	ENSG00000185920	ENST00000488809	retained_intron	KNOWN	None	9585	None	None	98242138	98242737	-1	NBCCS, PTCH	BCNS
9	PTCH1	ENSG00000185920	ENST00000548420	protein_coding	PUTATIVE	None	9585	200	65	98242278	98268947	-1	NBCCS, PTCH	BCNS
9	PTCH1	ENSG00000185920	ENST00000553011	protein_coding	KNOWN	None	9585	522	173	98242343	98269481	-1	NBCCS, PTCH	BCNS
9	PTCH1	ENSG00000185920	ENST00000551845	protein_coding	KNOWN	None	9585	522	173	98242343	98269548	-1	NBCCS, PTCH	BCNS
9	PTCH1	ENSG00000185920	ENST00000547672	protein_coding	KNOWN	None	9585	522	173	98242343	98270322	-1	NBCCS, PTCH	BCNS
9	PTCH1	ENSG00000185920	ENST00000546820	protein_coding	KNOWN	None	9585	522	173	98242343	98270322	-1	NBCCS, PTCH	BCNS
9	PTCH1	ENSG00000185920	ENST00000548379	processed_transcript	KNOWN	None	9585	None	None	98242722	98265628	-1	NBCCS, PTCH	BCNS
9	PTCH1	ENSG00000185920	ENST00000548945	processed_transcript	KNOWN	None	9585	None	None	98242821	98268881	-1	NBCCS, PTCH	BCNS
9	PTCH1	ENSG00000185920	ENST00000550914	nonsense_mediated_decay	KNOWN	None	9585	240	79	98242821	98268881	-1	NBCCS, PTCH	BCNS
9	PTCH1	ENSG00000185920	ENST00000553256	processed_transcript	KNOWN	None	9585	None	None	98242826	98256683	-1	NBCCS, PTCH	BCNS
9	PTCH1	ENSG00000185920	ENST00000550136	retained_intron	KNOWN	None	9585	None	None	98244111	98246591	-1	NBCCS, PTCH	BCNS
9	PTCH1	ENSG00000185920	ENST00000468211	protein_coding	PUTATIVE	None	9585	552	183	98244111	98279339	-1	NBCCS, PTCH	BCNS
9	PTCH1	ENSG00000185920	ENST00000551630	protein_coding	KNOWN	None	9585	276	91	98244248	98268892	-1	NBCCS, PTCH	BCNS
9	PTCH1	ENSG00000185920	ENST00000551623	nonsense_mediated_decay	KNOWN	None	9585	51	16	98244253	98278940	-1	NBCCS, PTCH	BCNS
9	PTCH1	ENSG00000185920	ENST00000551425	processed_transcript	KNOWN	None	9585	None	None	98248106	98278940	-1	NBCCS, PTCH	BCNS
9	PTCH1	ENSG00000185920	ENST00000437951	protein_coding	KNOWN	CCDS47996	9585	4146	1381	98205266	98279247	-1	NBCCS, PTCH	BCNS
9	PTCH1	ENSG00000185920	ENST00000421141	protein_coding	KNOWN	CCDS43851	9585	3891	1296	98205266	98270322	-1	NBCCS, PTCH	BCNS
9	PTCH1	ENSG00000185920	ENST00000418258	protein_coding	KNOWN	CCDS43851	9585	3891	1296	98205266	98269481	-1	NBCCS, PTCH	BCNS
HSCHR6_MHC_SSTO	HLA-A	ENSG00000223980	ENST00000454091	protein_coding	KNOWN	None	4931	1098	365	29897513	29902154	1	None	None
HSCHR6_MHC_SSTO	HLA-A	ENSG00000223980	ENST00000488889	processed_transcript	KNOWN	None	4931	None	None	29898499	29902154	1	None	None
HSCHR6_MHC_SSTO	HLA-A	ENSG00000223980	ENST00000463148	retained_intron	KNOWN	None	4931	None	None	29898802	29902154	1	None	None
HSCHR6_MHC_SSTO	HLA-A	ENSG00000223980	ENST00000414592	protein_coding	KNOWN	None	4931	900	299	29898803	29902154	1	None	None
HSCHR6_MHC_SSTO	HLA-A	ENSG00000223980	ENST00000464713	retained_intron	KNOWN	None	4931	None	None	29898806	29902154	1	None	None
HSCHR6_MHC_SSTO	HLA-A	ENSG00000223980	ENST00000478258	retained_intron	KNOWN	None	4931	None	None	29898808	29901551	1	None	None
HSCHR6_MHC_SSTO	HLA-A	ENSG00000223980	ENST00000462986	retained_intron	KNOWN	None	4931	None	None	29898808	29901551	1	None	None
HSCHR6_MHC_SSTO	HLA-A	ENSG00000223980	ENST00000552493	protein_coding	KNOWN	None	4931	1098	365	29898803	29902038	1	None	None
17	None	ENSG00000267521	ENST00000591422	lincRNA	KNOWN	None	None	None	None	74953105	74954304	-1	None	None
X	RN7SL48P	ENSG00000266710	ENST00000579283	misc_RNA	KNOWN	None	46064	None	None	18933365	18933653	-1	None	None
18	RNU6-1242P	ENSG00000212354	ENST00000391052	snRNA	KNOWN	None	48205	None	None	37258484	37258586	-1	None	None
15	None	ENSG00000270955	ENST00000603029	processed_pseudogene	KNOWN	None	None	None	None	30574736	30580592	1	None	None
13	RFC3	ENSG00000133119	ENST00000380071	protein_coding	KNOWN	CCDS9352	9971	1071	356	34392186	34411633	1	None	RFC38, MGC5276
13	RFC3	ENSG00000133119	ENST00000434425	protein_coding	KNOWN	CCDS45025	9971	918	305	34392206	34540695	1	None	RFC38, MGC5276
11	None	ENSG00000255067	ENST00000528792	sense_intronic	KNOWN	None	None	None	None	12870342	12870980	1	None	None
2	RNU7-104P	ENSG00000238542	ENST00000459398	snRNA	KNOWN	None	45638	None	None	179696098	179696176	-1	None	None
X	None	ENSG00000202144	ENST00000365274	misc_RNA	NOVEL	None	None	None	None	19394892	19394993	1	None	None
18	None	ENSG00000267413	ENST00000585822	lincRNA	KNOWN	None	None	None	None	37421138	37504804	-1	None	None
17	None	ENSG00000203318	ENST00000366146	pseudogene	NOVEL	None	None	None	None	75076718	75076850	-1	None	None
15	RMDN3	ENSG00000137824	ENST00000260385	protein_coding	KNOWN	CCDS10063	25550	1413	470	41028082	41048049	-1	FAM82C, FAM82A2	FLJ10579, PTPIP51, RMD3
15	RMDN3	ENSG00000137824	ENST00000560588	retained_intron	KNOWN	None	25550	None	None	41028083	41031878	-1	FAM82C, FAM82A2	FLJ10579, PTPIP51, RMD3
15	RMDN3	ENSG00000137824	ENST00000558777	nonsense_mediated_decay	KNOWN	None	25550	351	116	41028086	41047444	-1	FAM82C, FAM82A2	FLJ10579, PTPIP51, RMD3
15	RMDN3	ENSG00000137824	ENST00000338376	protein_coding	KNOWN	CCDS10063	25550	1413	470	41028086	41047458	-1	FAM82C, FAM82A2	FLJ10579, PTPIP51, RMD3
15	RMDN3	ENSG00000137824	ENST00000557831	retained_intron	KNOWN	None	25550	None	None	41028536	41030018	-1	FAM82C, FAM82A2	FLJ10579, PTPIP51, RMD3
15	RMDN3	ENSG00000137824	ENST00000558232	protein_coding	NOVEL	None	25550	919	305	41028625	41037409	-1	FAM82C, FAM82A2	FLJ10579, PTPIP51, RMD3
15	RMDN3	ENSG00000137824	ENST00000560779	retained_intron	KNOWN	None	25550	None	None	41029827	41036503	-1	FAM82C, FAM82A2	FLJ10579, PTPIP51, RMD3
15	RMDN3	ENSG00000137824	ENST00000558560	processed_transcript	KNOWN	None	25550	None	None	41029876	41044376	-1	FAM82C, FAM82A2	FLJ10579, PTPIP51, RMD3
15	RMDN3	ENSG00000137824	ENST00000560460	protein_coding	NOVEL	None	25550	753	250	41030708	41047451	-1	FAM82C, FAM82A2	FLJ10579, PTPIP51, RMD3
15	RMDN3	ENSG00000137824	ENST00000558364	processed_transcript	KNOWN	None	25550	None	None	41032348	41039980	-1	FAM82C, FAM82A2	FLJ10579, PTPIP51, RMD3
15	RMDN3	ENSG00000137824	ENST00000560905	protein_coding	KNOWN	None	25550	863	286	41036292	41047534	-1	FAM82C, FAM82A2	FLJ10579, PTPIP51, RMD3
15	SNORD115-16	ENSG00000200757	ENST00000363887	snoRNA	KNOWN	None	33035	None	None	25444595	25444676	1	None	HBII-52-16
3	KRT18P15	ENSG00000234737	ENST00000458108	processed_pseudogene	KNOWN	None	32449	None	None	32300432	32301722	1	KRT18L5	None
17	None	ENSG00000203317	ENST00000366145	pseudogene	NOVEL	None	None	None	None	75077629	75077716	1	None	None
2	None	ENSG00000231541	ENST00000454208	processed_pseudogene	KNOWN	None	None	None	None	179866483	179867487	1	None	None
7	None	ENSG00000234639	ENST00000441193	processed_pseudogene	KNOWN	None	None	None	None	137707204	137709085	1	None	None
X	None	ENSG00000199705	ENST00000362835	misc_RNA	NOVEL	None	None	None	None	122990912	122991013	-1	None	None
X	None	ENSG00000198022	ENST00000420011	unprocessed_pseudogene	KNOWN	None	None	None	None	134807306	134819866	-1	None	None
12	None	ENSG00000256417	ENST00000537192	lincRNA	KNOWN	None	None	None	None	5399646	5487520	1	None	None
12	None	ENSG00000256417	ENST00000537714	lincRNA	KNOWN	None	None	None	None	5480729	5492819	1	None	None
X	XIAP-AS1	ENSG00000237331	ENST00000458331	antisense	KNOWN	None	40078	None	None	123006476	123007782	-1	None	None
2	None	ENSG00000252000	ENST00000516191	snoRNA	NOVEL	None	None	None	None	179887984	179888105	-1	None	None
12	KNOP1P1	ENSG00000256852	ENST00000542108	processed_pseudogene	KNOWN	None	48919	None	None	24736495	24737483	1	None	None
15	SNORD115-17	ENSG00000201482	ENST00000364612	snoRNA	KNOWN	None	33036	None	None	25446470	25446551	1	None	HBII-52-17
2	None	ENSG00000238339	ENST00000459087	snoRNA	NOVEL	None	None	None	None	179990263	179990364	-1	None	None
19	ZNF443	ENSG00000180855	ENST00000301547	protein_coding	KNOWN	CCDS32918	20878	2016	671	12540521	12551926	-1	None	ZK1
19	ZNF443	ENSG00000180855	ENST00000436821	nonsense_mediated_decay	KNOWN	None	20878	195	64	12542383	12551835	-1	None	ZK1
22	None	ENSG00000230471	ENST00000428118	lincRNA	KNOWN	None	None	None	None	16373081	16377055	1	None	None
17	LINC00338	ENSG00000234912	ENST00000568363	lincRNA	KNOWN	None	33099	None	None	75082798	75089844	1	C17orf86, NCRNA00338	PRO0872, FLJ25582, DKFZp686L05235
17	LINC00338	ENSG00000234912	ENST00000434411	sense_overlapping	KNOWN	None	33099	None	None	75084755	75091068	1	C17orf86, NCRNA00338	PRO0872, FLJ25582, DKFZp686L05235
17	LINC00338	ENSG00000234912	ENST00000566583	sense_overlapping	KNOWN	None	33099	None	None	75084831	75091065	1	C17orf86, NCRNA00338	PRO0872, FLJ25582, DKFZp686L05235
17	LINC00338	ENSG00000234912	ENST00000565256	lincRNA	KNOWN	None	33099	None	None	75084831	75091065	1	C17orf86, NCRNA00338	PRO0872, FLJ25582, DKFZp686L05235
17	LINC00338	ENSG00000234912	ENST00000366365	lincRNA	KNOWN	None	33099	None	None	75084950	75086180	1	C17orf86, NCRNA00338	PRO0872, FLJ25582, DKFZp686L05235
17	LINC00338	ENSG00000234912	ENST00000515981	snoRNA	KNOWN	None	33099	None	None	75085389	75085575	1	C17orf86, NCRNA00338	PRO0872, FLJ25582, DKFZp686L05235
11	None	ENSG00000252329	ENST00000516520	snoRNA	NOVEL	None	None	None	None	12926364	12926535	-1	None	None
X	RNU6-122P	ENSG00000252627	ENST00000516818	snRNA	KNOWN	None	47085	None	None	123008309	123008415	1	None	None
3	LRTM1	ENSG00000144771	ENST00000273286	protein_coding	KNOWN	CCDS2876	25023	1038	345	54952264	54962101	-1	None	HT017
3	LRTM1	ENSG00000144771	ENST00000493075	protein_coding	KNOWN	None	25023	810	269	54952360	55001115	-1	None	HT017
2	None	ENSG00000237477	ENST00000419129	lincRNA	KNOWN	None	None	None	None	180138558	180150434	1	None	None
14	None	ENSG00000258687	ENST00000557152	antisense	KNOWN	None	None	None	None	51314840	51332377	1	None	None
12	None	ENSG00000244662	ENST00000471411	processed_pseudogene	KNOWN	None	None	None	None	24795621	24796100	1	None	None
HSCHR6_MHC_COX	ATP6V1G2	ENSG00000227587	ENST00000441959	protein_coding	KNOWN	None	862	357	118	31499694	31501835	-1	ATP6G, ATP6G2	Vma10, NG38, Em:AC004181.3
HSCHR6_MHC_COX	ATP6V1G2	ENSG00000227587	ENST00000443657	protein_coding	KNOWN	None	862	237	78	31499694	31501865	-1	ATP6G, ATP6G2	Vma10, NG38, Em:AC004181.3
HSCHR6_MHC_COX	ATP6V1G2	ENSG00000227587	ENST00000460751	processed_transcript	KNOWN	None	862	None	None	31500516	31501983	-1	ATP6G, ATP6G2	Vma10, NG38, Em:AC004181.3
HSCHR6_MHC_COX	ATP6V1G2	ENSG00000227587	ENST00000469771	processed_transcript	KNOWN	None	862	None	None	31500649	31502076	-1	ATP6G, ATP6G2	Vma10, NG38, Em:AC004181.3
X	None	ENSG00000237025	ENST00000438019	processed_pseudogene	KNOWN	None	None	None	None	123012440	123013146	-1	None	None
3	None	ENSG00000230599	ENST00000440266	lincRNA	KNOWN	None	None	None	None	10809149	10813403	1	None	None
11	HYOU1	ENSG00000149428	ENST00000404233	protein_coding	KNOWN	CCDS8408	16931	3000	999	118914900	118927848	-1	None	ORP150, HSP12A, Grp170
11	HYOU1	ENSG00000149428	ENST00000529972	protein_coding	NOVEL	None	16931	2814	937	118914903	118927868	-1	None	ORP150, HSP12A, Grp170
11	HYOU1	ENSG00000149428	ENST00000525859	protein_coding	NOVEL	None	16931	2814	937	118916023	118927845	-1	None	ORP150, HSP12A, Grp170
11	HYOU1	ENSG00000149428	ENST00000527738	retained_intron	KNOWN	None	16931	None	None	118917882	118918818	-1	None	ORP150, HSP12A, Grp170
11	HYOU1	ENSG00000149428	ENST00000531682	retained_intron	KNOWN	None	16931	None	None	118919069	118919537	-1	None	ORP150, HSP12A, Grp170
11	HYOU1	ENSG00000149428	ENST00000532519	nonsense_mediated_decay	KNOWN	None	16931	117	38	118919072	118927850	-1	None	ORP150, HSP12A, Grp170
11	HYOU1	ENSG00000149428	ENST00000530473	protein_coding	KNOWN	None	16931	1970	655	118919752	118927561	-1	None	ORP150, HSP12A, Grp170
11	HYOU1	ENSG00000149428	ENST00000531694	retained_intron	KNOWN	None	16931	None	None	118923085	118926130	-1	None	ORP150, HSP12A, Grp170
11	HYOU1	ENSG00000149428	ENST00000534233	protein_coding	KNOWN	None	16931	673	223	118925211	118927816	-1	None	ORP150, HSP12A, Grp170
11	HYOU1	ENSG00000149428	ENST00000526656	protein_coding	KNOWN	None	16931	635	210	118925249	118927735	-1	None	ORP150, HSP12A, Grp170
11	HYOU1	ENSG00000149428	ENST00000531968	nonsense_mediated_decay	KNOWN	None	16931	117	38	118925297	118927913	-1	None	ORP150, HSP12A, Grp170
11	HYOU1	ENSG00000149428	ENST00000532421	protein_coding	KNOWN	None	16931	464	153	118925728	118927848	-1	None	ORP150, HSP12A, Grp170
11	HYOU1	ENSG00000149428	ENST00000533381	retained_intron	KNOWN	None	16931	None	None	118925735	118927621	-1	None	ORP150, HSP12A, Grp170
11	HYOU1	ENSG00000149428	ENST00000527038	protein_coding	KNOWN	None	16931	447	148	118925745	118927886	-1	None	ORP150, HSP12A, Grp170
11	HYOU1	ENSG00000149428	ENST00000530467	retained_intron	KNOWN	None	16931	None	None	118925867	118927823	-1	None	ORP150, HSP12A, Grp170
11	HYOU1	ENSG00000149428	ENST00000529174	retained_intron	KNOWN	None	16931	None	None	118925914	118927845	-1	None	ORP150, HSP12A, Grp170
11	HYOU1	ENSG00000149428	ENST00000532752	protein_coding	KNOWN	None	16931	308	101	118926008	118927840	-1	None	ORP150, HSP12A, Grp170
11	HYOU1	ENSG00000149428	ENST00000527310	protein_coding	KNOWN	None	16931	276	91	118926040	118927853	-1	None	ORP150, HSP12A, Grp170
11	HYOU1	ENSG00000149428	ENST00000526354	retained_intron	KNOWN	None	16931	None	None	118926201	118927845	-1	None	ORP150, HSP12A, Grp170
11	HYOU1	ENSG00000149428	ENST00000543287	protein_coding	KNOWN	None	16931	1680	559	118919072	118927850	-1	None	ORP150, HSP12A, Grp170
12	None	ENSG00000255745	ENST00000536131	lincRNA	KNOWN	None	None	None	None	24857499	24927147	1	None	None
8	None	ENSG00000266713	ENST00000401325	miRNA	NOVEL	None	None	None	None	21351539	21351627	1	None	None
2	None	ENSG00000237964	ENST00000482222	processed_pseudogene	KNOWN	None	None	None	None	180264455	180265602	-1	None	None
X	None	ENSG00000270726	ENST00000483543	retained_intron	KNOWN	None	None	None	None	155233883	155251901	1	None	None
X	None	ENSG00000270726	ENST00000285718	processed_transcript	KNOWN	None	None	None	None	155250706	155255299	1	None	None
15	SNORD115-18	ENSG00000200163	ENST00000363293	snoRNA	KNOWN	None	33037	None	None	25448374	25448455	1	None	HBII-52-18
11	None	ENSG00000203258	ENST00000454086	antisense	KNOWN	None	None	None	None	12942733	12944472	-1	None	None
8	None	ENSG00000266630	ENST00000578848	miRNA	KNOWN	None	None	None	None	21407509	21407595	1	None	None
3	None	ENSG00000234805	ENST00000430515	processed_pseudogene	KNOWN	None	None	None	None	194476318	194478151	1	None	None
18	CNDP1	ENSG00000150656	ENST00000358821	protein_coding	KNOWN	CCDS12007	20675	1524	507	72201675	72252261	1	None	MGC10825, CN1, CPGL2, HsT2308
18	CNDP1	ENSG00000150656	ENST00000585136	processed_transcript	KNOWN	None	20675	None	None	72201738	72234556	1	None	MGC10825, CN1, CPGL2, HsT2308
18	CNDP1	ENSG00000150656	ENST00000582365	protein_coding	NOVEL	None	20675	1395	464	72201837	72254448	1	None	MGC10825, CN1, CPGL2, HsT2308
18	CNDP1	ENSG00000150656	ENST00000584316	nonsense_mediated_decay	KNOWN	None	20675	115	37	72228198	72243970	1	None	MGC10825, CN1, CPGL2, HsT2308
18	CNDP1	ENSG00000150656	ENST00000584004	retained_intron	KNOWN	None	20675	None	None	72234389	72252261	1	None	MGC10825, CN1, CPGL2, HsT2308
18	CNDP1	ENSG00000150656	ENST00000578498	processed_transcript	PUTATIVE	None	20675	None	None	72241999	72243812	1	None	MGC10825, CN1, CPGL2, HsT2308
18	CNDP1	ENSG00000150656	ENST00000582461	retained_intron	KNOWN	None	20675	None	None	72243515	72252247	1	None	MGC10825, CN1, CPGL2, HsT2308
3	None	ENSG00000207857	ENST00000385122	miRNA	NOVEL	None	None	None	None	32301220	32301311	1	None	None
14	None	ENSG00000258745	ENST00000557343	antisense	KNOWN	None	None	None	None	51378944	51380076	1	None	None
8	None	ENSG00000272505	ENST00000606115	lincRNA	KNOWN	None	None	None	None	10344317	10347176	1	None	None
7	None	ENSG00000231923	ENST00000435250	processed_pseudogene	KNOWN	None	None	None	None	137731400	137732643	1	None	None
3	None	ENSG00000213849	ENST00000449702	processed_pseudogene	KNOWN	None	None	None	None	32549447	32549817	1	None	None
15	FAM174B	ENSG00000185442	ENST00000327355	protein_coding	KNOWN	CCDS45355	34339	480	159	93160673	93199188	-1	None	LOC400451, MGC102891
15	FAM174B	ENSG00000185442	ENST00000553393	protein_coding	PUTATIVE	None	34339	114	37	93160678	93188828	-1	None	LOC400451, MGC102891
15	FAM174B	ENSG00000185442	ENST00000555748	protein_coding	PUTATIVE	None	34339	342	113	93162230	93198634	-1	None	LOC400451, MGC102891
15	FAM174B	ENSG00000185442	ENST00000555064	protein_coding	PUTATIVE	None	34339	342	113	93162288	93182474	-1	None	LOC400451, MGC102891
15	FAM174B	ENSG00000185442	ENST00000555696	protein_coding	PUTATIVE	None	34339	342	113	93162349	93196440	-1	None	LOC400451, MGC102891
15	FAM174B	ENSG00000185442	ENST00000557480	protein_coding	PUTATIVE	None	34339	329	108	93162413	93211273	-1	None	LOC400451, MGC102891
15	FAM174B	ENSG00000185442	ENST00000556824	protein_coding	PUTATIVE	None	34339	274	90	93162468	93199861	-1	None	LOC400451, MGC102891
15	FAM174B	ENSG00000185442	ENST00000557398	protein_coding	PUTATIVE	None	34339	201	66	93162532	93353028	-1	None	LOC400451, MGC102891
15	FAM174B	ENSG00000185442	ENST00000555613	retained_intron	KNOWN	None	34339	None	None	93173391	93198581	-1	None	LOC400451, MGC102891
15	FAM174B	ENSG00000185442	ENST00000555971	processed_transcript	KNOWN	None	34339	None	None	93325285	93353091	-1	None	LOC400451, MGC102891
15	FAM174B	ENSG00000185442	ENST00000557545	processed_transcript	KNOWN	None	34339	None	None	93331144	93331702	-1	None	LOC400451, MGC102891
15	FAM174B	ENSG00000185442	ENST00000554082	processed_transcript	KNOWN	None	34339	None	None	93352074	93353114	-1	None	LOC400451, MGC102891
12	RNU6-1088P	ENSG00000252659	ENST00000516850	snRNA	KNOWN	None	48051	None	None	120751041	120751144	-1	None	None
2	None	ENSG00000213126	ENST00000392417	processed_pseudogene	KNOWN	None	None	None	None	180678978	180679402	1	None	None
3	None	ENSG00000243149	ENST00000481004	lincRNA	KNOWN	None	None	None	None	65160633	65179174	1	None	None
8	None	ENSG00000238466	ENST00000459495	snoRNA	NOVEL	None	None	None	None	21889861	21889963	1	None	None
11	None	ENSG00000254672	ENST00000529830	processed_pseudogene	KNOWN	None	None	None	None	35988560	35990226	-1	None	None
12	RPS27P25	ENSG00000239881	ENST00000477404	processed_transcript	KNOWN	None	36020	None	None	120807243	120809491	1	None	None
12	RPS27P25	ENSG00000239881	ENST00000469928	transcribed_processed_pseudogene	KNOWN	None	36020	None	None	120809191	120809438	1	None	None
2	MIR1258	ENSG00000221240	ENST00000408313	miRNA	KNOWN	None	35323	None	None	180725563	180725635	-1	MIRN1258	hsa-mir-1258
8	None	ENSG00000256586	ENST00000436711	pseudogene	NOVEL	None	None	None	None	21960468	21961890	1	None	None
3	SLC6A1-AS1	ENSG00000232287	ENST00000414969	antisense	KNOWN	None	40546	None	None	11047784	11060910	-1	None	None
2	None	ENSG00000202216	ENST00000365346	snoRNA	NOVEL	None	None	None	None	180799128	180799265	-1	None	None
3	None	ENSG00000264135	ENST00000581249	miRNA	NOVEL	None	None	None	None	32557218	32557312	1	None	None
14	None	ENSG00000258711	ENST00000553648	lincRNA	KNOWN	None	None	None	None	51422977	51428720	-1	None	None
8	None	ENSG00000255251	ENST00000533250	protein_coding	PUTATIVE	None	None	840	279	7397150	7399972	1	None	None
2	None	ENSG00000270289	ENST00000603209	processed_pseudogene	KNOWN	None	None	None	None	181337864	181338146	-1	None	None
3	None	ENSG00000226955	ENST00000451877	processed_pseudogene	KNOWN	None	None	None	None	32634464	32634804	-1	None	None
6	ECI2	ENSG00000198721	ENST00000380118	protein_coding	KNOWN	CCDS43420	14601	1185	394	4115923	4135831	-1	PECI	ACBD2, DRS1, HCA88
6	ECI2	ENSG00000198721	ENST00000380125	protein_coding	KNOWN	CCDS4490	14601	1095	364	4115927	4135702	-1	PECI	ACBD2, DRS1, HCA88
6	ECI2	ENSG00000198721	ENST00000496241	nonsense_mediated_decay	KNOWN	None	14601	423	140	4115934	4135825	-1	PECI	ACBD2, DRS1, HCA88
6	ECI2	ENSG00000198721	ENST00000380120	nonsense_mediated_decay	KNOWN	None	14601	459	152	4115936	4135824	-1	PECI	ACBD2, DRS1, HCA88
6	ECI2	ENSG00000198721	ENST00000478266	nonsense_mediated_decay	KNOWN	None	14601	594	197	4115940	4135798	-1	PECI	ACBD2, DRS1, HCA88
6	ECI2	ENSG00000198721	ENST00000464057	retained_intron	KNOWN	None	14601	None	None	4115940	4135809	-1	PECI	ACBD2, DRS1, HCA88
6	ECI2	ENSG00000198721	ENST00000361538	protein_coding	KNOWN	CCDS4490	14601	1095	364	4115940	4135831	-1	PECI	ACBD2, DRS1, HCA88
6	ECI2	ENSG00000198721	ENST00000465828	protein_coding	KNOWN	CCDS4490	14601	1095	364	4115941	4135791	-1	PECI	ACBD2, DRS1, HCA88
6	ECI2	ENSG00000198721	ENST00000464583	retained_intron	KNOWN	None	14601	None	None	4115942	4134016	-1	PECI	ACBD2, DRS1, HCA88
6	ECI2	ENSG00000198721	ENST00000495548	protein_coding	PUTATIVE	None	14601	660	219	4128048	4135693	-1	PECI	ACBD2, DRS1, HCA88
6	ECI2	ENSG00000198721	ENST00000489086	retained_intron	KNOWN	None	14601	None	None	4130552	4135807	-1	PECI	ACBD2, DRS1, HCA88
6	ECI2	ENSG00000198721	ENST00000413766	protein_coding	KNOWN	None	14601	684	227	4115928	4135831	-1	PECI	ACBD2, DRS1, HCA88
2	None	ENSG00000225258	ENST00000429816	lincRNA	KNOWN	None	None	None	None	181436439	181557181	-1	None	None
11	None	ENSG00000255256	ENST00000534594	sense_intronic	KNOWN	None	None	None	None	35993978	36010557	1	None	None
5	YIPF5	ENSG00000145817	ENST00000274496	protein_coding	KNOWN	CCDS4279	24877	774	257	143537723	143550223	-1	None	SMAP-5, FinGER5
5	YIPF5	ENSG00000145817	ENST00000448443	protein_coding	KNOWN	CCDS4279	24877	774	257	143538837	143550194	-1	None	SMAP-5, FinGER5
5	YIPF5	ENSG00000145817	ENST00000513112	protein_coding	KNOWN	None	24877	612	203	143538837	143550194	-1	None	SMAP-5, FinGER5
5	YIPF5	ENSG00000145817	ENST00000519064	protein_coding	KNOWN	None	24877	531	176	143540042	143550199	-1	None	SMAP-5, FinGER5
5	YIPF5	ENSG00000145817	ENST00000522203	protein_coding	KNOWN	None	24877	305	100	143541926	143550278	-1	None	SMAP-5, FinGER5
5	YIPF5	ENSG00000145817	ENST00000508754	retained_intron	KNOWN	None	24877	None	None	143543427	143550204	-1	None	SMAP-5, FinGER5
8	None	ENSG00000253526	ENST00000520870	lincRNA	KNOWN	None	None	None	None	106838798	106846266	1	None	None
15	None	ENSG00000238783	ENST00000459414	misc_RNA	NOVEL	None	None	None	None	30647639	30647743	1	None	None
11	LINC00958	ENSG00000251381	ENST00000527945	lincRNA	KNOWN	None	48671	None	None	12984057	13011094	-1	None	None
11	LINC00958	ENSG00000251381	ENST00000504230	lincRNA	KNOWN	None	48671	None	None	13001082	13011095	-1	None	None
11	LINC00958	ENSG00000251381	ENST00000532541	lincRNA	KNOWN	None	48671	None	None	13001585	13011084	-1	None	None
11	LINC00958	ENSG00000251381	ENST00000534477	lincRNA	KNOWN	None	48671	None	None	13001758	13011086	-1	None	None
11	LINC00958	ENSG00000251381	ENST00000529328	lincRNA	KNOWN	None	48671	None	None	13002034	13005839	-1	None	None
11	LINC00958	ENSG00000251381	ENST00000531402	lincRNA	KNOWN	None	48671	None	None	13002176	13011093	-1	None	None
11	LINC00958	ENSG00000251381	ENST00000526388	lincRNA	KNOWN	None	48671	None	None	13002216	13011085	-1	None	None
3	None	ENSG00000230401	ENST00000422271	lincRNA	KNOWN	None	None	None	None	194485967	194489441	-1	None	None
13	DGKZP1	ENSG00000179611	ENST00000378718	processed_pseudogene	KNOWN	None	39263	None	None	44542560	44545335	1	None	None
13	DGKZP1	ENSG00000179611	ENST00000325496	pseudogene	KNOWN	None	39263	None	None	44542560	44545335	1	None	None
2	None	ENSG00000264976	ENST00000579068	miRNA	NOVEL	None	None	None	None	181481845	181481933	-1	None	None
12	None	ENSG00000256146	ENST00000544842	lincRNA	KNOWN	None	None	None	None	5425127	5428513	1	None	None
8	None	ENSG00000177725	ENST00000314927	pseudogene	NOVEL	None	None	None	None	22026851	22029223	1	None	None
2	FTH1P20	ENSG00000226564	ENST00000434913	processed_pseudogene	KNOWN	None	37639	None	None	181737594	181738141	-1	FTHL20	None
3	ZBTB38	ENSG00000177311	ENST00000509842	protein_coding	KNOWN	None	26636	452	149	141043055	141161682	1	None	FLJ35036, CIBZ, ZNF921
3	ZBTB38	ENSG00000177311	ENST00000513619	processed_transcript	KNOWN	None	26636	None	None	141087146	141113299	1	None	FLJ35036, CIBZ, ZNF921
3	ZBTB38	ENSG00000177311	ENST00000512276	processed_transcript	KNOWN	None	26636	None	None	141087166	141124598	1	None	FLJ35036, CIBZ, ZNF921
3	ZBTB38	ENSG00000177311	ENST00000507657	retained_intron	KNOWN	None	26636	None	None	141087332	141108679	1	None	FLJ35036, CIBZ, ZNF921
3	ZBTB38	ENSG00000177311	ENST00000507722	protein_coding	KNOWN	None	26636	356	117	141103652	141161586	1	None	FLJ35036, CIBZ, ZNF921
3	ZBTB38	ENSG00000177311	ENST00000512327	processed_transcript	KNOWN	None	26636	None	None	141105284	141106420	1	None	FLJ35036, CIBZ, ZNF921
3	ZBTB38	ENSG00000177311	ENST00000513249	retained_intron	KNOWN	None	26636	None	None	141105288	141122848	1	None	FLJ35036, CIBZ, ZNF921
3	ZBTB38	ENSG00000177311	ENST00000503809	protein_coding	KNOWN	None	26636	103	33	141105294	141161333	1	None	FLJ35036, CIBZ, ZNF921
3	ZBTB38	ENSG00000177311	ENST00000513258	protein_coding	KNOWN	None	26636	325	107	141105717	141161555	1	None	FLJ35036, CIBZ, ZNF921
3	ZBTB38	ENSG00000177311	ENST00000506623	processed_transcript	PUTATIVE	None	26636	None	None	141105721	141122858	1	None	FLJ35036, CIBZ, ZNF921
3	ZBTB38	ENSG00000177311	ENST00000509883	protein_coding	KNOWN	None	26636	2313	770	141106489	141163543	1	None	FLJ35036, CIBZ, ZNF921
3	ZBTB38	ENSG00000177311	ENST00000514251	protein_coding	KNOWN	CCDS43157	26636	3588	1195	141106654	141168634	1	None	FLJ35036, CIBZ, ZNF921
3	ZBTB38	ENSG00000177311	ENST00000510338	protein_coding	KNOWN	None	26636	438	145	141121191	141161668	1	None	FLJ35036, CIBZ, ZNF921
3	ZBTB38	ENSG00000177311	ENST00000504673	protein_coding	KNOWN	None	26636	282	93	141121212	141161512	1	None	FLJ35036, CIBZ, ZNF921
3	ZBTB38	ENSG00000177311	ENST00000513570	protein_coding	KNOWN	None	26636	209	68	141121660	141161439	1	None	FLJ35036, CIBZ, ZNF921
3	ZBTB38	ENSG00000177311	ENST00000441582	protein_coding	KNOWN	CCDS43157	26636	3588	1195	141144958	141164842	1	None	FLJ35036, CIBZ, ZNF921
3	ZBTB38	ENSG00000177311	ENST00000510726	protein_coding	KNOWN	None	26636	632	209	141144969	141161862	1	None	FLJ35036, CIBZ, ZNF921
3	ZBTB38	ENSG00000177311	ENST00000509813	protein_coding	KNOWN	None	26636	334	110	141150565	141161564	1	None	FLJ35036, CIBZ, ZNF921
3	ZBTB38	ENSG00000177311	ENST00000512769	processed_transcript	PUTATIVE	None	26636	None	None	141165736	141166654	1	None	FLJ35036, CIBZ, ZNF921
3	ZBTB38	ENSG00000177311	ENST00000321464	protein_coding	KNOWN	None	26636	3591	1196	141144958	141164830	1	None	FLJ35036, CIBZ, ZNF921
3	IGBP1P3	ENSG00000231552	ENST00000447449	processed_pseudogene	KNOWN	None	43612	None	None	32662395	32663394	-1	None	None
8	None	ENSG00000201627	ENST00000364757	misc_RNA	NOVEL	None	None	None	None	106941354	106941466	-1	None	None
3	None	ENSG00000238031	ENST00000427064	lincRNA	KNOWN	None	None	None	None	194548619	194553321	1	None	None
13	None	ENSG00000226519	ENST00000432331	lincRNA	KNOWN	None	None	None	None	44680514	44711372	-1	None	None
2	None	ENSG00000236667	ENST00000448912	processed_pseudogene	KNOWN	None	None	None	None	181803557	181804025	-1	None	None
11	None	ENSG00000241228	ENST00000478433	processed_pseudogene	KNOWN	None	None	None	None	36018776	36019225	-1	None	None
2	None	ENSG00000233438	ENST00000447166	protein_coding	PUTATIVE	None	None	784	260	27760253	27790011	1	None	None
8	SLC16A14P1	ENSG00000213708	ENST00000506846	unprocessed_pseudogene	KNOWN	None	43809	None	None	107227991	107229446	1	None	None
2	None	ENSG00000236153	ENST00000428080	antisense	KNOWN	None	None	None	None	181844154	181844817	-1	None	None
12	None	ENSG00000256695	ENST00000536933	lincRNA	KNOWN	None	None	None	None	120827349	120833797	1	None	None
12	None	ENSG00000256218	ENST00000543308	lincRNA	KNOWN	None	None	None	None	5475214	5476940	-1	None	None
8	None	ENSG00000254021	ENST00000517318	lincRNA	KNOWN	None	None	None	None	107277663	107280969	-1	None	None
15	None	ENSG00000270173	ENST00000602453	lincRNA	KNOWN	None	None	None	None	30649969	30650976	-1	None	None
13	SMIM2-AS1	ENSG00000227258	ENST00000444663	antisense	KNOWN	None	42674	None	None	44716682	44722166	1	C13orf44-AS1	None
13	SMIM2-AS1	ENSG00000227258	ENST00000437867	antisense	KNOWN	None	42674	None	None	44717729	44813010	1	C13orf44-AS1	None
HG998_2_PATCH	None	ENSG00000262075	ENST00000573103	lincRNA	KNOWN	None	None	None	None	139230205	139235225	-1	None	None
19	None	ENSG00000268605	ENST00000596781	sense_intronic	KNOWN	None	None	None	None	42928536	42929223	-1	None	None
3	RPL30P4	ENSG00000237676	ENST00000429309	processed_pseudogene	KNOWN	None	35871	None	None	32676714	32677046	-1	None	None
2	None	ENSG00000238171	ENST00000456895	lincRNA	KNOWN	None	None	None	None	181940778	181970695	-1	None	None
8	None	ENSG00000255378	ENST00000528972	protein_coding	PUTATIVE	None	None	840	279	7636113	7638935	-1	None	None
11	MIR3973	ENSG00000263389	ENST00000579824	miRNA	KNOWN	None	41756	None	None	36031648	36031754	1	None	hsa-mir-3973
X	None	ENSG00000233861	ENST00000449718	processed_pseudogene	KNOWN	None	None	None	None	134899166	134900630	-1	None	None
6	FUNDC2P3	ENSG00000187103	ENST00000334716	processed_pseudogene	KNOWN	None	37970	None	None	146492451	146492983	1	None	None
9	FAM163B	ENSG00000196990	ENST00000496132	protein_coding	KNOWN	CCDS35171	33277	501	166	136444079	136451319	-1	C9orf166	None
9	FAM163B	ENSG00000196990	ENST00000356873	protein_coding	KNOWN	CCDS35171	33277	501	166	136444079	136445368	-1	C9orf166	None
12	RN7SL38P	ENSG00000240481	ENST00000485238	misc_RNA	KNOWN	None	46054	None	None	24859722	24860015	1	None	None
7	None	ENSG00000231931	ENST00000434771	processed_pseudogene	KNOWN	None	None	None	None	137744802	137745039	1	None	None
6	RNA5SP222	ENSG00000222971	ENST00000411039	rRNA	KNOWN	None	43122	None	None	146661556	146661660	1	RN5S222	None
12	None	ENSG00000255983	ENST00000538430	lincRNA	KNOWN	None	None	None	None	5497755	5515817	1	None	None
14	None	ENSG00000259055	ENST00000554475	antisense	KNOWN	None	None	None	None	51555675	51558006	1	None	None
12	None	ENSG00000256482	ENST00000545410	antisense	KNOWN	None	None	None	None	24983355	24989492	1	None	None
6	None	ENSG00000216811	ENST00000405812	processed_pseudogene	KNOWN	None	None	None	None	146686067	146686630	-1	None	None
17	None	ENSG00000203316	ENST00000366144	pseudogene	NOVEL	None	None	None	None	75083297	75083384	1	None	None
3	CHCHD4P4	ENSG00000213964	ENST00000437690	processed_pseudogene	KNOWN	None	44492	None	None	11275942	11276268	-1	None	None
5	MCIDAS	ENSG00000234602	ENST00000513468	nonsense_mediated_decay	KNOWN	None	40050	540	179	54515442	54523143	-1	MCIN	MCI, IDAS
5	MCIDAS	ENSG00000234602	ENST00000513312	protein_coding	NOVEL	CCDS54853	40050	1158	385	54515793	54523143	-1	MCIN	MCI, IDAS
5	MCIDAS	ENSG00000234602	ENST00000515336	processed_transcript	KNOWN	None	40050	None	None	54516935	54523090	-1	MCIN	MCI, IDAS
17	None	ENSG00000213135	ENST00000392478	pseudogene	NOVEL	None	None	None	None	75085986	75087063	-1	None	None
HSCHR17_1_CTG4	None	ENSG00000262748	ENST00000576522	protein_coding	NOVEL	None	None	1185	394	39541224	39545959	-1	None	None
6	None	ENSG00000237468	ENST00000419168	lincRNA	KNOWN	None	None	None	None	146915652	146920067	-1	None	None
15	None	ENSG00000255769	ENST00000558577	processed_transcript	KNOWN	None	None	None	None	82765134	82798350	-1	None	None
15	None	ENSG00000255769	ENST00000539808	processed_transcript	KNOWN	None	None	None	None	82765561	82798244	-1	None	None
15	None	ENSG00000255769	ENST00000547716	processed_transcript	KNOWN	None	None	None	None	82765926	82798350	-1	None	None
15	None	ENSG00000255769	ENST00000550961	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	82768639	82770067	-1	None	None
15	None	ENSG00000255769	ENST00000559807	processed_transcript	KNOWN	None	None	None	None	82769040	82798274	-1	None	None
15	None	ENSG00000255769	ENST00000558650	processed_transcript	KNOWN	None	None	None	None	82769234	82798304	-1	None	None
17	None	ENSG00000203315	ENST00000366143	pseudogene	NOVEL	None	None	None	None	75087901	75088024	1	None	None
16	None	ENSG00000262561	ENST00000574771	processed_pseudogene	KNOWN	None	None	None	None	33922937	33923144	1	None	None
3	CNOT10-AS1	ENSG00000251224	ENST00000475395	antisense	KNOWN	None	41031	None	None	32772127	32778946	-1	None	None
17	None	ENSG00000203314	ENST00000366142	pseudogene	NOVEL	None	None	None	None	75099519	75099654	1	None	None
17	None	ENSG00000225646	ENST00000438218	pseudogene	NOVEL	None	None	None	None	75104708	75104798	-1	None	None
15	None	ENSG00000263070	ENST00000571869	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	30672556	30679190	-1	None	None
16	None	ENSG00000261440	ENST00000566406	processed_pseudogene	KNOWN	None	None	None	None	33938203	33939259	-1	None	None
7	None	ENSG00000221558	ENST00000408631	miRNA	NOVEL	None	None	None	None	137753288	137753375	-1	None	None
6	RNU6-734P	ENSG00000207465	ENST00000384734	snRNA	KNOWN	None	47697	None	None	146960836	146960905	1	None	None
13	SMIM2-IT1	ENSG00000235285	ENST00000415082	sense_intronic	KNOWN	None	41492	None	None	44720606	44732358	-1	C13orf44-IT1	None
3	WNT5A	ENSG00000114251	ENST00000474267	protein_coding	KNOWN	CCDS46850	12784	1143	380	55499743	55523973	-1	None	hWNT5A
3	WNT5A	ENSG00000114251	ENST00000493406	processed_transcript	KNOWN	None	12784	None	None	55503416	55504169	-1	None	hWNT5A
3	WNT5A	ENSG00000114251	ENST00000497027	protein_coding	KNOWN	CCDS58835	12784	1098	365	55504021	55515421	-1	None	hWNT5A
3	WNT5A	ENSG00000114251	ENST00000482079	protein_coding	KNOWN	None	12784	642	213	55508362	55515224	-1	None	hWNT5A
3	WNT5A	ENSG00000114251	ENST00000497817	retained_intron	KNOWN	None	12784	None	None	55513068	55514948	-1	None	hWNT5A
3	WNT5A	ENSG00000114251	ENST00000264634	protein_coding	KNOWN	CCDS46850	12784	1143	380	55499744	55521331	-1	None	hWNT5A
11	LINC00610	ENSG00000196559	ENST00000355500	lincRNA	KNOWN	None	23262	None	None	36290834	36294909	-1	C11orf55	FLJ45212
18	None	ENSG00000261715	ENST00000566101	lincRNA	KNOWN	None	None	None	None	37646250	37679197	1	None	None
17	None	ENSG00000228733	ENST00000438922	pseudogene	NOVEL	None	None	None	None	75108843	75108930	-1	None	None
7	RN7SKP223	ENSG00000222514	ENST00000410582	misc_RNA	KNOWN	None	45947	None	None	137776000	137776061	1	None	None
1	PPOX	ENSG00000143224	ENST00000352210	protein_coding	KNOWN	CCDS1221	9280	1434	477	161136200	161141008	1	VP	PPO
1	PPOX	ENSG00000143224	ENST00000367999	protein_coding	KNOWN	CCDS1221	9280	1434	477	161136205	161141006	1	VP	PPO
1	PPOX	ENSG00000143224	ENST00000495567	processed_transcript	KNOWN	None	9280	None	None	161136216	161137818	1	VP	PPO
1	PPOX	ENSG00000143224	ENST00000497522	processed_transcript	KNOWN	None	9280	None	None	161136220	161146831	1	VP	PPO
1	PPOX	ENSG00000143224	ENST00000479246	retained_intron	KNOWN	None	9280	None	None	161136229	161138335	1	VP	PPO
1	PPOX	ENSG00000143224	ENST00000470607	processed_transcript	KNOWN	None	9280	None	None	161136229	161139510	1	VP	PPO
1	PPOX	ENSG00000143224	ENST00000539753	nonsense_mediated_decay	KNOWN	None	9280	342	113	161136242	161140739	1	VP	PPO
1	PPOX	ENSG00000143224	ENST00000544598	protein_coding	PUTATIVE	None	9280	558	185	161136260	161141010	1	VP	PPO
1	PPOX	ENSG00000143224	ENST00000495483	processed_transcript	KNOWN	None	9280	None	None	161136270	161147803	1	VP	PPO
1	PPOX	ENSG00000143224	ENST00000468968	processed_transcript	KNOWN	None	9280	None	None	161136272	161138354	1	VP	PPO
1	PPOX	ENSG00000143224	ENST00000535223	protein_coding	PUTATIVE	None	9280	471	156	161136288	161146882	1	VP	PPO
1	PPOX	ENSG00000143224	ENST00000490768	processed_transcript	KNOWN	None	9280	None	None	161136468	161138196	1	VP	PPO
1	PPOX	ENSG00000143224	ENST00000462866	processed_transcript	KNOWN	None	9280	None	None	161136630	161141008	1	VP	PPO
1	PPOX	ENSG00000143224	ENST00000494216	processed_transcript	KNOWN	None	9280	None	None	161137885	161139496	1	VP	PPO
1	PPOX	ENSG00000143224	ENST00000462977	processed_transcript	KNOWN	None	9280	None	None	161138050	161139630	1	VP	PPO
1	PPOX	ENSG00000143224	ENST00000460611	processed_transcript	KNOWN	None	9280	None	None	161138185	161139775	1	VP	PPO
1	PPOX	ENSG00000143224	ENST00000537523	protein_coding	NOVEL	None	9280	692	229	161138313	161141008	1	VP	PPO
1	PPOX	ENSG00000143224	ENST00000541818	retained_intron	KNOWN	None	9280	None	None	161139074	161140971	1	VP	PPO
1	PPOX	ENSG00000143224	ENST00000537829	protein_coding	PUTATIVE	None	9280	485	160	161139475	161141008	1	VP	PPO
1	PPOX	ENSG00000143224	ENST00000466452	processed_transcript	KNOWN	None	9280	None	None	161140051	161140971	1	VP	PPO
1	PPOX	ENSG00000143224	ENST00000432542	protein_coding	KNOWN	None	9280	717	238	161136301	161146907	1	VP	PPO
17	HNF1B	ENSG00000108753	ENST00000225893	protein_coding	KNOWN	CCDS11324	11630	1674	557	36046435	36105237	-1	TCF2	LFB3, VHNF1, HNF1beta, MODY5
17	HNF1B	ENSG00000108753	ENST00000561193	protein_coding	KNOWN	CCDS58538	11630	1596	531	36047175	36105050	-1	TCF2	LFB3, VHNF1, HNF1beta, MODY5
17	HNF1B	ENSG00000108753	ENST00000560016	protein_coding	NOVEL	None	11630	1647	548	36047245	36105009	-1	TCF2	LFB3, VHNF1, HNF1beta, MODY5
17	HNF1B	ENSG00000108753	ENST00000427275	protein_coding	NOVEL	None	11630	1374	457	36047245	36105009	-1	TCF2	LFB3, VHNF1, HNF1beta, MODY5
17	HNF1B	ENSG00000108753	ENST00000459669	retained_intron	KNOWN	None	11630	None	None	36088602	36093810	-1	TCF2	LFB3, VHNF1, HNF1beta, MODY5
6	None	ENSG00000228283	ENST00000562413	processed_transcript	KNOWN	None	None	None	None	147123495	147124960	-1	None	None
6	None	ENSG00000228283	ENST00000453433	transcribed_processed_pseudogene	KNOWN	None	None	None	None	147123931	147124845	-1	None	None
17	RNU4-47P	ENSG00000222808	ENST00000410876	snRNA	KNOWN	None	46983	None	None	75148643	75148756	-1	None	None
13	None	ENSG00000230731	ENST00000421190	lincRNA	KNOWN	None	None	None	None	44808254	44817328	-1	None	None
3	None	ENSG00000226621	ENST00000440041	processed_pseudogene	KNOWN	None	None	None	None	11332092	11332349	-1	None	None
1	None	ENSG00000223823	ENST00000416774	lincRNA	KNOWN	None	None	None	None	1072397	1079436	1	None	None
8	MIR320A	ENSG00000208037	ENST00000385302	miRNA	KNOWN	None	31632	None	None	22102475	22102556	-1	MIRN320, MIRN320A	hsa-mir-320
9	NR5A1	ENSG00000136931	ENST00000373588	protein_coding	KNOWN	CCDS6856	7983	1386	461	127243516	127269709	-1	FTZF1	FTZ1, SF-1, ELP, AD4BP
9	NR5A1	ENSG00000136931	ENST00000373587	protein_coding	KNOWN	None	7983	738	245	127245007	127263265	-1	FTZF1	FTZ1, SF-1, ELP, AD4BP
9	NR5A1	ENSG00000136931	ENST00000455734	protein_coding	KNOWN	None	7983	533	176	127262706	127269514	-1	FTZF1	FTZ1, SF-1, ELP, AD4BP
2	C2orf16	ENSG00000221843	ENST00000408964	protein_coding	KNOWN	CCDS42666	25275	5955	1984	27799389	27805588	1	None	DKFZp434G118
17	CYCSP40	ENSG00000262870	ENST00000575927	processed_pseudogene	KNOWN	None	24414	None	None	75195032	75195625	-1	None	HCP40, HC7
2	None	ENSG00000234663	ENST00000414750	lincRNA	KNOWN	None	None	None	None	181966659	182056780	1	None	None
2	None	ENSG00000234663	ENST00000424170	lincRNA	KNOWN	None	None	None	None	181988562	182204503	1	None	None
2	None	ENSG00000234663	ENST00000435411	lincRNA	KNOWN	None	None	None	None	181988564	182264286	1	None	None
2	None	ENSG00000234663	ENST00000428474	lincRNA	KNOWN	None	None	None	None	181988623	182227638	1	None	None
2	None	ENSG00000234663	ENST00000424655	lincRNA	KNOWN	None	None	None	None	181988669	182207038	1	None	None
3	SUGT1P2	ENSG00000213842	ENST00000379452	processed_pseudogene	KNOWN	None	31377	None	None	32794402	32795393	1	None	None
20	TUBB1	ENSG00000101162	ENST00000217133	protein_coding	KNOWN	CCDS13475	16257	1356	451	57594309	57601709	1	None	dJ543J19.4
14	None	ENSG00000201376	ENST00000364506	snoRNA	NOVEL	None	None	None	None	51710808	51710942	1	None	None
7	None	ENSG00000239145	ENST00000458991	snoRNA	NOVEL	None	None	None	None	137805834	137805937	1	None	None
17	None	ENSG00000263718	ENST00000582422	lincRNA	KNOWN	None	None	None	None	75253819	75254471	-1	None	None
17	None	ENSG00000263718	ENST00000581657	lincRNA	KNOWN	None	None	None	None	75253819	75270408	-1	None	None
17	None	ENSG00000263718	ENST00000581153	lincRNA	KNOWN	None	None	None	None	75269866	75277979	-1	None	None
18	None	ENSG00000267664	ENST00000586289	processed_pseudogene	KNOWN	None	None	None	None	37723890	37724468	-1	None	None
13	None	ENSG00000237361	ENST00000432701	lincRNA	KNOWN	None	None	None	None	44974386	44980021	-1	None	None
13	None	ENSG00000237361	ENST00000607312	lincRNA	KNOWN	None	None	None	None	44978491	44980120	-1	None	None
8	None	ENSG00000254064	ENST00000523556	antisense	KNOWN	None	None	None	None	22112089	22132675	-1	None	None
12	None	ENSG00000255973	ENST00000545761	processed_pseudogene	KNOWN	None	None	None	None	5692963	5693251	1	None	None
7	RCC2P3	ENSG00000233951	ENST00000418112	processed_pseudogene	KNOWN	None	42379	None	None	137806948	137809341	1	None	None
3	None	ENSG00000227337	ENST00000446445	processed_pseudogene	KNOWN	None	None	None	None	32827138	32827608	1	None	None
X	None	ENSG00000238200	ENST00000427194	processed_pseudogene	KNOWN	None	None	None	None	134919550	134921014	1	None	None
18	RNU7-145P	ENSG00000238333	ENST00000459079	snRNA	KNOWN	None	45679	None	None	38052785	38052846	1	None	None
3	None	ENSG00000264871	ENST00000580413	miRNA	NOVEL	None	None	None	None	65218575	65218658	-1	None	None
12	RN7SL69P	ENSG00000240533	ENST00000468423	misc_RNA	KNOWN	None	46085	None	None	6204867	6205136	-1	None	None
4	None	ENSG00000238449	ENST00000459306	miRNA	NOVEL	None	None	None	None	99851074	99851138	-1	None	None
3	None	ENSG00000235240	ENST00000445748	processed_pseudogene	KNOWN	None	None	None	None	11529774	11529947	-1	None	None
3	None	ENSG00000270059	ENST00000602316	sense_intronic	KNOWN	None	None	None	None	65344943	65345392	-1	None	None
11	None	ENSG00000254566	ENST00000529910	lincRNA	KNOWN	None	None	None	None	36342708	36344990	-1	None	None
4	FAM177A1P1	ENSG00000214886	ENST00000503598	processed_pseudogene	KNOWN	None	34441	None	None	99877133	99877918	1	FAM177A2	None
17	None	ENSG00000265121	ENST00000584075	lincRNA	KNOWN	None	None	None	None	75260262	75260858	-1	None	None
4	GSTCD	ENSG00000138780	ENST00000512828	protein_coding	KNOWN	None	25806	122	39	106629935	106638892	1	None	FLJ13273
4	GSTCD	ENSG00000138780	ENST00000515255	processed_transcript	KNOWN	None	25806	None	None	106629941	106766866	1	None	FLJ13273
4	GSTCD	ENSG00000138780	ENST00000394730	protein_coding	KNOWN	CCDS3672	25806	1641	546	106629941	106768882	1	None	FLJ13273
4	GSTCD	ENSG00000138780	ENST00000507281	protein_coding	PUTATIVE	None	25806	1023	340	106629944	106683042	1	None	FLJ13273
4	GSTCD	ENSG00000138780	ENST00000484843	retained_intron	KNOWN	None	25806	None	None	106629944	106744847	1	None	FLJ13273
4	GSTCD	ENSG00000138780	ENST00000515279	protein_coding	KNOWN	CCDS43257	25806	1902	633	106629975	106768885	1	None	FLJ13273
4	GSTCD	ENSG00000138780	ENST00000360505	protein_coding	KNOWN	CCDS43257	25806	1902	633	106631967	106766911	1	None	FLJ13273
4	GSTCD	ENSG00000138780	ENST00000510865	protein_coding	KNOWN	None	25806	500	165	106631970	106640290	1	None	FLJ13273
4	GSTCD	ENSG00000138780	ENST00000509336	protein_coding	KNOWN	None	25806	502	166	106632003	106640292	1	None	FLJ13273
4	GSTCD	ENSG00000138780	ENST00000503409	retained_intron	KNOWN	None	25806	None	None	106638783	106640716	1	None	FLJ13273
4	GSTCD	ENSG00000138780	ENST00000394728	protein_coding	KNOWN	CCDS43257	25806	1902	633	106638771	106768881	1	None	FLJ13273
17	None	ENSG00000266998	ENST00000588701	antisense	KNOWN	None	None	None	None	75369900	75373318	-1	None	None
7	MIR4468	ENSG00000266193	ENST00000578556	miRNA	KNOWN	None	41533	None	None	137808504	137808567	1	None	hsa-mir-4468
12	None	ENSG00000255775	ENST00000539206	lincRNA	KNOWN	None	None	None	None	6264201	6269885	-1	None	None
15	None	ENSG00000238519	ENST00000459285	snoRNA	NOVEL	None	None	None	None	30677162	30677294	-1	None	None
18	None	ENSG00000267313	ENST00000600644	lincRNA	KNOWN	None	None	None	None	39047395	39061032	-1	None	None
18	None	ENSG00000267313	ENST00000592302	lincRNA	KNOWN	None	None	None	None	39060238	39100561	-1	None	None
18	None	ENSG00000267313	ENST00000595135	lincRNA	KNOWN	None	None	None	None	39062440	39212149	-1	None	None
18	None	ENSG00000267313	ENST00000601445	lincRNA	KNOWN	None	None	None	None	39080968	39100558	-1	None	None
18	None	ENSG00000267313	ENST00000601523	lincRNA	KNOWN	None	None	None	None	39093652	39100641	-1	None	None
18	None	ENSG00000267313	ENST00000596923	lincRNA	KNOWN	None	None	None	None	39096106	39100560	-1	None	None
18	None	ENSG00000267313	ENST00000593577	lincRNA	KNOWN	None	None	None	None	39096384	39212092	-1	None	None
18	None	ENSG00000267313	ENST00000600183	lincRNA	KNOWN	None	None	None	None	39101162	39212039	-1	None	None
18	None	ENSG00000267313	ENST00000599934	lincRNA	KNOWN	None	None	None	None	39101302	39212088	-1	None	None
12	None	ENSG00000255921	ENST00000546353	antisense	KNOWN	None	None	None	None	25102097	25113092	1	None	None
13	None	ENSG00000225727	ENST00000426579	processed_transcript	KNOWN	None	None	None	None	45011343	45026963	1	None	None
13	None	ENSG00000225727	ENST00000422303	transcribed_processed_pseudogene	KNOWN	None	None	None	None	45026737	45026958	1	None	None
17	MIR4316	ENSG00000264060	ENST00000579394	miRNA	KNOWN	None	38306	None	None	75393066	75393136	-1	None	hsa-mir-4316
14	None	ENSG00000201820	ENST00000364950	misc_RNA	NOVEL	None	None	None	None	51720651	51720741	-1	None	None
3	None	ENSG00000270531	ENST00000605193	processed_pseudogene	KNOWN	None	None	None	None	11570962	11571229	-1	None	None
7	CLEC5A	ENSG00000258227	ENST00000546910	protein_coding	KNOWN	CCDS5870	2054	567	188	141627157	141646783	-1	CLECSF5	MDL-1
7	CLEC5A	ENSG00000258227	ENST00000418498	nonsense_mediated_decay	KNOWN	None	2054	162	53	141628931	141646807	-1	CLECSF5	MDL-1
7	CLEC5A	ENSG00000258227	ENST00000551012	protein_coding	NOVEL	None	2054	498	165	141629140	141646744	-1	CLECSF5	MDL-1
7	CLEC5A	ENSG00000258227	ENST00000439991	protein_coding	PUTATIVE	None	2054	255	84	141629815	141646736	-1	CLECSF5	MDL-1
7	CLEC5A	ENSG00000258227	ENST00000438351	protein_coding	NOVEL	None	2054	468	155	141631307	141646733	-1	CLECSF5	MDL-1
7	CLEC5A	ENSG00000258227	ENST00000470595	processed_transcript	PUTATIVE	None	2054	None	None	141631308	141646687	-1	CLECSF5	MDL-1
7	CLEC5A	ENSG00000258227	ENST00000481301	retained_intron	KNOWN	None	2054	None	None	141631567	141636131	-1	CLECSF5	MDL-1
3	None	ENSG00000271051	ENST00000605492	lincRNA	KNOWN	None	None	None	None	32938576	32939318	1	None	None
15	None	ENSG00000221723	ENST00000408796	miRNA	NOVEL	None	None	None	None	30696552	30696634	-1	None	None
17	None	ENSG00000200651	ENST00000363781	misc_RNA	NOVEL	None	None	None	None	75438191	75438295	1	None	None
7	None	ENSG00000225559	ENST00000413567	lincRNA	KNOWN	None	None	None	None	137848186	137849383	1	None	None
4	RNU7-149P	ENSG00000252548	ENST00000516739	snRNA	KNOWN	None	45683	None	None	99887966	99888024	-1	None	None
3	ZNF639	ENSG00000121864	ENST00000496856	protein_coding	KNOWN	CCDS3227	30950	1458	485	179040779	179052402	1	None	ANC-2H01, ZASC1
3	ZNF639	ENSG00000121864	ENST00000491818	protein_coding	KNOWN	None	30950	649	215	179040864	179051401	1	None	ANC-2H01, ZASC1
3	ZNF639	ENSG00000121864	ENST00000481587	protein_coding	KNOWN	None	30950	412	136	179041034	179051164	1	None	ANC-2H01, ZASC1
3	ZNF639	ENSG00000121864	ENST00000326361	protein_coding	KNOWN	CCDS3227	30950	1458	485	179041551	179053323	1	None	ANC-2H01, ZASC1
3	ZNF639	ENSG00000121864	ENST00000466264	protein_coding	KNOWN	None	30950	865	287	179042941	179051617	1	None	ANC-2H01, ZASC1
3	ZNF639	ENSG00000121864	ENST00000484866	protein_coding	KNOWN	CCDS3227	30950	1458	485	179045349	179052400	1	None	ANC-2H01, ZASC1
3	ZNF639	ENSG00000121864	ENST00000494234	protein_coding	KNOWN	None	30950	390	129	179045532	179051142	1	None	ANC-2H01, ZASC1
3	ZNF639	ENSG00000121864	ENST00000483460	retained_intron	KNOWN	None	30950	None	None	179045906	179050911	1	None	ANC-2H01, ZASC1
3	ZNF639	ENSG00000121864	ENST00000466663	processed_transcript	KNOWN	None	30950	None	None	179047422	179051518	1	None	ANC-2H01, ZASC1
1	C1orf174	ENSG00000198912	ENST00000486765	processed_transcript	KNOWN	None	27915	None	None	3805689	3816811	-1	None	RP13-531C17.2
1	C1orf174	ENSG00000198912	ENST00000361605	protein_coding	KNOWN	CCDS53	27915	732	243	3805689	3816849	-1	None	RP13-531C17.2
1	C1orf174	ENSG00000198912	ENST00000474140	retained_intron	KNOWN	None	27915	None	None	3805689	3816857	-1	None	RP13-531C17.2
2	MIR4437	ENSG00000266705	ENST00000581331	miRNA	KNOWN	None	41715	None	None	182170320	182170379	-1	None	hsa-mir-4437
17	None	ENSG00000267263	ENST00000585369	sense_intronic	KNOWN	None	None	None	None	75465150	75467127	1	None	None
14	LINC00519	ENSG00000258955	ENST00000557518	lincRNA	KNOWN	None	19838	None	None	51771134	51795104	-1	C14orf30	None
1	MIR200B	ENSG00000207730	ENST00000384997	miRNA	KNOWN	None	31579	None	None	1102484	1102578	1	MIRN200B	hsa-mir-200b
4	NDUFS5P4	ENSG00000251437	ENST00000412983	processed_pseudogene	KNOWN	None	44042	None	None	99897951	99898268	-1	None	None
3	None	ENSG00000271716	ENST00000607849	antisense	KNOWN	None	None	None	None	11648658	11652222	1	None	None
2	None	ENSG00000226681	ENST00000456446	lincRNA	KNOWN	None	None	None	None	182286881	182290476	-1	None	None
16	TBC1D10B	ENSG00000169221	ENST00000475650	retained_intron	KNOWN	None	24510	None	None	30368423	30370995	-1	None	DKFZP434P1750, Rab27A-GAPbeta, FLJ13130, EPI64B
16	TBC1D10B	ENSG00000169221	ENST00000409939	protein_coding	KNOWN	CCDS10676	24510	2427	808	30368423	30381585	-1	None	DKFZP434P1750, Rab27A-GAPbeta, FLJ13130, EPI64B
16	TBC1D10B	ENSG00000169221	ENST00000478158	retained_intron	KNOWN	None	24510	None	None	30368428	30379328	-1	None	DKFZP434P1750, Rab27A-GAPbeta, FLJ13130, EPI64B
16	TBC1D10B	ENSG00000169221	ENST00000490703	protein_coding	PUTATIVE	None	24510	555	184	30369415	30376533	-1	None	DKFZP434P1750, Rab27A-GAPbeta, FLJ13130, EPI64B
16	TBC1D10B	ENSG00000169221	ENST00000475872	retained_intron	KNOWN	None	24510	None	None	30370097	30371497	-1	None	DKFZP434P1750, Rab27A-GAPbeta, FLJ13130, EPI64B
16	TBC1D10B	ENSG00000169221	ENST00000566671	retained_intron	KNOWN	None	24510	None	None	30370505	30371364	-1	None	DKFZP434P1750, Rab27A-GAPbeta, FLJ13130, EPI64B
16	TBC1D10B	ENSG00000169221	ENST00000464644	retained_intron	KNOWN	None	24510	None	None	30371071	30377202	-1	None	DKFZP434P1750, Rab27A-GAPbeta, FLJ13130, EPI64B
8	None	ENSG00000241026	ENST00000482585	unprocessed_pseudogene	KNOWN	None	None	None	None	22247378	22248168	-1	None	None
8	None	ENSG00000254325	ENST00000518552	sense_intronic	KNOWN	None	None	None	None	56806154	56808298	1	None	None
17	None	ENSG00000267016	ENST00000591110	antisense	KNOWN	None	None	None	None	75465244	75468852	-1	None	None
11	None	ENSG00000255186	ENST00000533203	sense_intronic	KNOWN	None	None	None	None	36408071	36409800	1	None	None
X	None	ENSG00000242500	ENST00000451208	processed_transcript	KNOWN	None	None	None	None	19931267	19934282	-1	None	None
X	None	ENSG00000242500	ENST00000456553	processed_transcript	KNOWN	None	None	None	None	19932281	19933153	-1	None	None
4	MIR3684	ENSG00000265213	ENST00000579779	miRNA	KNOWN	None	38950	None	None	99918538	99918611	1	None	hsa-mir-3684
9	None	ENSG00000232063	ENST00000454869	lincRNA	KNOWN	None	None	None	None	97094758	97123230	1	None	None
19	SBNO2	ENSG00000064932	ENST00000361757	protein_coding	KNOWN	CCDS45894	29158	4101	1366	1107636	1174282	-1	KIAA0963	FLJ00173, Stno, Sno
19	SBNO2	ENSG00000064932	ENST00000587024	protein_coding	NOVEL	None	29158	4071	1356	1107640	1174255	-1	KIAA0963	FLJ00173, Stno, Sno
19	SBNO2	ENSG00000064932	ENST00000438103	protein_coding	KNOWN	CCDS45895	29158	3930	1309	1107641	1132220	-1	KIAA0963	FLJ00173, Stno, Sno
19	SBNO2	ENSG00000064932	ENST00000587673	retained_intron	KNOWN	None	29158	None	None	1108564	1111677	-1	KIAA0963	FLJ00173, Stno, Sno
19	SBNO2	ENSG00000064932	ENST00000586109	retained_intron	KNOWN	None	29158	None	None	1109500	1111061	-1	KIAA0963	FLJ00173, Stno, Sno
19	SBNO2	ENSG00000064932	ENST00000592222	retained_intron	KNOWN	None	29158	None	None	1115355	1132220	-1	KIAA0963	FLJ00173, Stno, Sno
19	SBNO2	ENSG00000064932	ENST00000590446	retained_intron	KNOWN	None	29158	None	None	1117395	1120117	-1	KIAA0963	FLJ00173, Stno, Sno
19	SBNO2	ENSG00000064932	ENST00000590998	protein_coding	KNOWN	None	29158	385	127	1127659	1155135	-1	KIAA0963	FLJ00173, Stno, Sno
19	SBNO2	ENSG00000064932	ENST00000590176	protein_coding	KNOWN	None	29158	384	127	1127660	1173773	-1	KIAA0963	FLJ00173, Stno, Sno
19	SBNO2	ENSG00000064932	ENST00000587655	protein_coding	KNOWN	None	29158	335	110	1127709	1168942	-1	KIAA0963	FLJ00173, Stno, Sno
15	RN7SL196P	ENSG00000240221	ENST00000478496	misc_RNA	KNOWN	None	46212	None	None	30697514	30697792	-1	None	None
22	ENTHD1	ENSG00000176177	ENST00000325157	protein_coding	KNOWN	CCDS13998	26352	1824	607	40139049	40289794	-1	None	FLJ25421
22	ENTHD1	ENSG00000176177	ENST00000490326	processed_transcript	KNOWN	None	26352	None	None	40289219	40289868	-1	None	FLJ25421
7	None	ENSG00000252820	ENST00000517011	misc_RNA	NOVEL	None	None	None	None	137859791	137859882	1	None	None
2	None	ENSG00000234595	ENST00000440371	antisense	KNOWN	None	None	None	None	182547840	182550434	1	None	None
4	ABT1P1	ENSG00000250496	ENST00000511060	processed_pseudogene	KNOWN	None	39557	None	None	99943462	99944282	-1	None	None
3	NCK1	ENSG00000158092	ENST00000288986	protein_coding	KNOWN	CCDS3092	7664	1134	377	136581050	136667968	1	NCK	NCKalpha
3	NCK1	ENSG00000158092	ENST00000481752	protein_coding	KNOWN	CCDS3092	7664	1134	377	136581050	136667968	1	NCK	NCKalpha
3	NCK1	ENSG00000158092	ENST00000491539	protein_coding	KNOWN	None	7664	387	128	136581075	136664585	1	NCK	NCKalpha
3	NCK1	ENSG00000158092	ENST00000485096	protein_coding	KNOWN	None	7664	346	114	136581084	136664544	1	NCK	NCKalpha
3	NCK1	ENSG00000158092	ENST00000476286	protein_coding	KNOWN	None	7664	226	74	136581106	136647069	1	NCK	NCKalpha
3	NCK1	ENSG00000158092	ENST00000460960	retained_intron	KNOWN	None	7664	None	None	136581109	136647315	1	NCK	NCKalpha
3	NCK1	ENSG00000158092	ENST00000478862	retained_intron	KNOWN	None	7664	None	None	136581109	136647566	1	NCK	NCKalpha
3	NCK1	ENSG00000158092	ENST00000488930	protein_coding	NOVEL	None	7664	486	161	136581140	136665060	1	NCK	NCKalpha
3	NCK1	ENSG00000158092	ENST00000496489	protein_coding	NOVEL	None	7664	422	139	136646881	136665056	1	NCK	NCKalpha
3	NCK1	ENSG00000158092	ENST00000469404	protein_coding	PUTATIVE	CCDS54644	7664	942	313	136649312	136668665	1	NCK	NCKalpha
3	NCK1	ENSG00000158092	ENST00000467911	protein_coding	PUTATIVE	None	7664	522	173	136649344	136667274	1	NCK	NCKalpha
3	NCK1	ENSG00000158092	ENST00000482071	retained_intron	KNOWN	None	7664	None	None	136664567	136665889	1	NCK	NCKalpha
12	None	ENSG00000202318	ENST00000365448	misc_RNA	NOVEL	None	None	None	None	6343511	6343621	-1	None	None
16	FLYWCH2	ENSG00000162076	ENST00000396958	protein_coding	KNOWN	CCDS10482	25178	423	140	2933187	2949383	1	None	None
16	FLYWCH2	ENSG00000162076	ENST00000293981	protein_coding	KNOWN	CCDS10482	25178	423	140	2933214	2949383	1	None	None
16	FLYWCH2	ENSG00000162076	ENST00000573965	protein_coding	KNOWN	None	25178	274	90	2933229	2946724	1	None	None
16	FLYWCH2	ENSG00000162076	ENST00000572006	protein_coding	PUTATIVE	None	25178	435	144	2933260	2946897	1	None	None
16	FLYWCH2	ENSG00000162076	ENST00000572786	processed_transcript	PUTATIVE	None	25178	None	None	2948756	2949366	1	None	None
11	None	ENSG00000266625	ENST00000582014	miRNA	NOVEL	None	None	None	None	12985187	12985238	1	None	None
9	None	ENSG00000224815	ENST00000419456	processed_pseudogene	KNOWN	None	None	None	None	97100629	97101015	-1	None	None
13	SMARCE1P5	ENSG00000230793	ENST00000412207	processed_pseudogene	KNOWN	None	39734	None	None	45168994	45170218	1	None	None
10	MIR4675	ENSG00000265372	ENST00000577898	miRNA	KNOWN	None	41619	None	None	20840899	20840975	1	None	hsa-mir-4675
2	None	ENSG00000225570	ENST00000449835	lincRNA	KNOWN	None	None	None	None	182555107	182558142	-1	None	None
3	None	ENSG00000272483	ENST00000606330	antisense	KNOWN	None	None	None	None	11653076	11653671	1	None	None
8	None	ENSG00000254615	ENST00000521369	lincRNA	KNOWN	None	None	None	None	107282372	107285127	1	None	None
8	None	ENSG00000254615	ENST00000577661	lincRNA	KNOWN	None	None	None	None	107282464	107284434	1	None	None
12	None	ENSG00000256103	ENST00000537967	processed_pseudogene	KNOWN	None	None	None	None	6379334	6379591	-1	None	None
12	None	ENSG00000256103	ENST00000539998	processed_pseudogene	KNOWN	None	None	None	None	6379325	6379591	-1	None	None
9	None	ENSG00000224245	ENST00000448030	unprocessed_pseudogene	KNOWN	None	None	None	None	97258557	97275161	1	None	None
13	None	ENSG00000238932	ENST00000459558	snoRNA	NOVEL	None	None	None	None	45202705	45202809	-1	None	None
17	SLC39A11	ENSG00000133195	ENST00000255559	protein_coding	KNOWN	CCDS11690	14463	1008	335	70642088	71088832	-1	C17orf26	None
17	SLC39A11	ENSG00000133195	ENST00000542342	protein_coding	KNOWN	CCDS54160	14463	1029	342	70642089	71088827	-1	C17orf26	None
17	SLC39A11	ENSG00000133195	ENST00000579988	processed_transcript	KNOWN	None	14463	None	None	70643248	70721753	-1	C17orf26	None
17	SLC39A11	ENSG00000133195	ENST00000582769	protein_coding	PUTATIVE	None	14463	557	184	70645062	70989072	-1	C17orf26	None
17	SLC39A11	ENSG00000133195	ENST00000581581	protein_coding	PUTATIVE	None	14463	189	62	70708878	70845845	-1	C17orf26	None
17	SLC39A11	ENSG00000133195	ENST00000579319	nonsense_mediated_decay	KNOWN	None	14463	205	67	70708961	70845915	-1	C17orf26	None
17	SLC39A11	ENSG00000133195	ENST00000583715	protein_coding	PUTATIVE	None	14463	374	123	70817744	70845943	-1	C17orf26	None
17	SLC39A11	ENSG00000133195	ENST00000579491	processed_transcript	KNOWN	None	14463	None	None	70819746	70989088	-1	C17orf26	None
17	SLC39A11	ENSG00000133195	ENST00000584129	nonsense_mediated_decay	KNOWN	None	14463	246	81	70819837	70989071	-1	C17orf26	None
17	SLC39A11	ENSG00000133195	ENST00000579732	protein_coding	PUTATIVE	None	14463	684	227	70833939	71088820	-1	C17orf26	None
17	SLC39A11	ENSG00000133195	ENST00000580557	protein_coding	KNOWN	None	14463	601	199	70845773	71088815	-1	C17orf26	None
17	SLC39A11	ENSG00000133195	ENST00000583146	protein_coding	KNOWN	None	14463	470	155	70845925	71085903	-1	C17orf26	None
17	SLC39A11	ENSG00000133195	ENST00000582179	retained_intron	KNOWN	None	14463	None	None	70943802	71088826	-1	C17orf26	None
17	SLC39A11	ENSG00000133195	ENST00000581005	processed_transcript	KNOWN	None	14463	None	None	71068408	71088817	-1	C17orf26	None
17	SLC39A11	ENSG00000133195	ENST00000579018	protein_coding	KNOWN	None	14463	120	39	71080974	71088851	-1	C17orf26	None
17	SLC39A11	ENSG00000133195	ENST00000578620	protein_coding	KNOWN	None	14463	77	24	71084827	71088826	-1	C17orf26	None
17	SLC39A11	ENSG00000133195	ENST00000583507	processed_transcript	PUTATIVE	None	14463	None	None	71087978	71088849	-1	C17orf26	None
3	USP4	ENSG00000114316	ENST00000351842	protein_coding	KNOWN	CCDS2794	12627	2751	916	49315264	49377466	-1	UNP	Unph
3	USP4	ENSG00000114316	ENST00000265560	protein_coding	KNOWN	CCDS2793	12627	2892	963	49315539	49377504	-1	UNP	Unph
3	USP4	ENSG00000114316	ENST00000483212	retained_intron	KNOWN	None	12627	None	None	49315576	49316664	-1	UNP	Unph
3	USP4	ENSG00000114316	ENST00000485450	retained_intron	KNOWN	None	12627	None	None	49315591	49350296	-1	UNP	Unph
3	USP4	ENSG00000114316	ENST00000431357	protein_coding	PUTATIVE	None	12627	1864	620	49315603	49349051	-1	UNP	Unph
3	USP4	ENSG00000114316	ENST00000475873	processed_transcript	KNOWN	None	12627	None	None	49321969	49331077	-1	UNP	Unph
3	USP4	ENSG00000114316	ENST00000486549	processed_transcript	KNOWN	None	12627	None	None	49335303	49377462	-1	UNP	Unph
3	USP4	ENSG00000114316	ENST00000488520	processed_transcript	KNOWN	None	12627	None	None	49338028	49356207	-1	UNP	Unph
3	USP4	ENSG00000114316	ENST00000461553	processed_transcript	KNOWN	None	12627	None	None	49343211	49351477	-1	UNP	Unph
3	USP4	ENSG00000114316	ENST00000416417	protein_coding	NOVEL	CCDS58832	12627	942	313	49349218	49377469	-1	UNP	Unph
3	USP4	ENSG00000114316	ENST00000415188	protein_coding	PUTATIVE	None	12627	1092	363	49354165	49377469	-1	UNP	Unph
3	USP4	ENSG00000114316	ENST00000462673	processed_transcript	KNOWN	None	12627	None	None	49354552	49356090	-1	UNP	Unph
3	USP4	ENSG00000114316	ENST00000464168	processed_transcript	KNOWN	None	12627	None	None	49362130	49377486	-1	UNP	Unph
3	USP4	ENSG00000114316	ENST00000491791	processed_transcript	KNOWN	None	12627	None	None	49362137	49378145	-1	UNP	Unph
2	None	ENSG00000223873	ENST00000434334	processed_pseudogene	KNOWN	None	None	None	None	182559169	182559627	1	None	None
16	NTN3	ENSG00000162068	ENST00000293973	protein_coding	KNOWN	CCDS10469	8030	1743	580	2521500	2524146	1	NTN2L	None
10	MTND1P21	ENSG00000235940	ENST00000412991	processed_pseudogene	KNOWN	None	42070	None	None	21093222	21093506	1	None	None
7	None	ENSG00000238984	ENST00000458968	snoRNA	NOVEL	None	None	None	None	137860931	137861028	1	None	None
13	None	ENSG00000237585	ENST00000426509	lincRNA	KNOWN	None	None	None	None	45225948	45275152	1	None	None
3	SEC13P1	ENSG00000223899	ENST00000429534	processed_pseudogene	KNOWN	None	44529	None	None	33075355	33076302	1	None	None
4	None	ENSG00000246090	ENST00000500358	antisense	KNOWN	None	None	None	None	100010008	100222513	1	None	None
4	None	ENSG00000246090	ENST00000499178	antisense	KNOWN	None	None	None	None	100010102	100023944	1	None	None
4	None	ENSG00000246090	ENST00000506160	antisense	KNOWN	None	None	None	None	100082941	100202398	1	None	None
4	None	ENSG00000246090	ENST00000506454	antisense	KNOWN	None	None	None	None	100082967	100184733	1	None	None
4	None	ENSG00000246090	ENST00000509295	antisense	KNOWN	None	None	None	None	100175086	100196208	1	None	None
4	None	ENSG00000246090	ENST00000510764	antisense	KNOWN	None	None	None	None	100188828	100196208	1	None	None
4	None	ENSG00000246090	ENST00000509939	antisense	KNOWN	None	None	None	None	100212093	100222455	1	None	None
2	RNU6ATAC19P	ENSG00000221023	ENST00000408096	snRNA	KNOWN	None	46918	None	None	182603333	182603442	1	None	None
11	None	ENSG00000254670	ENST00000533002	lincRNA	KNOWN	None	None	None	None	13022637	13030706	-1	None	None
11	None	ENSG00000255060	ENST00000531966	antisense	KNOWN	None	None	None	None	36446997	36447672	-1	None	None
2	None	ENSG00000260742	ENST00000567327	antisense	KNOWN	None	None	None	None	182752578	182756390	-1	None	None
13	LINC00330	ENSG00000235097	ENST00000414562	lincRNA	KNOWN	None	42047	None	None	45373639	45383766	-1	NCRNA00330	None
16	TNFRSF12A	ENSG00000006327	ENST00000573001	protein_coding	PUTATIVE	None	18152	243	80	3068446	3072087	1	None	FN14, TweakR, CD266
16	TNFRSF12A	ENSG00000006327	ENST00000326577	protein_coding	KNOWN	CCDS10489	18152	390	129	3070313	3072384	1	None	FN14, TweakR, CD266
16	TNFRSF12A	ENSG00000006327	ENST00000341627	protein_coding	KNOWN	None	18152	285	94	3070360	3072384	1	None	FN14, TweakR, CD266
16	TNFRSF12A	ENSG00000006327	ENST00000574699	nonsense_mediated_decay	KNOWN	None	18152	285	94	3070369	3071964	1	None	FN14, TweakR, CD266
16	TNFRSF12A	ENSG00000006327	ENST00000575124	protein_coding	PUTATIVE	None	18152	681	226	3070376	3072384	1	None	FN14, TweakR, CD266
16	TNFRSF12A	ENSG00000006327	ENST00000575836	protein_coding	NOVEL	None	18152	142	46	3070380	3071208	1	None	FN14, TweakR, CD266
16	TNFRSF12A	ENSG00000006327	ENST00000571351	retained_intron	KNOWN	None	18152	None	None	3070391	3072384	1	None	FN14, TweakR, CD266
1	MIR200A	ENSG00000207607	ENST00000384875	miRNA	KNOWN	None	31578	None	None	1103243	1103332	1	MIRN200A	hsa-mir-200a
22	None	ENSG00000230643	ENST00000447704	unprocessed_pseudogene	KNOWN	None	None	None	None	16389485	16389602	-1	None	None
3	None	ENSG00000235424	ENST00000452006	processed_pseudogene	KNOWN	None	None	None	None	33118696	33118983	1	None	None
HG745_PATCH	None	ENSG00000261674	ENST00000569126	nonsense_mediated_decay	KNOWN	None	None	502	166	36337717	36358166	-1	None	None
HG745_PATCH	None	ENSG00000261674	ENST00000562342	nonsense_mediated_decay	KNOWN	None	None	155	50	36344880	36375123	-1	None	None
HG745_PATCH	None	ENSG00000261674	ENST00000566358	nonsense_mediated_decay	KNOWN	None	None	492	163	36351796	36413178	-1	None	None
HG745_PATCH	None	ENSG00000261674	ENST00000565045	protein_coding	PUTATIVE	None	None	1433	476	36351796	36413269	-1	None	None
HG745_PATCH	None	ENSG00000261674	ENST00000563731	retained_intron	KNOWN	None	None	None	None	36351803	36421858	-1	None	None
HG745_PATCH	None	ENSG00000261674	ENST00000564952	protein_coding	PUTATIVE	None	None	1292	429	36351936	36413133	-1	None	None
HG745_PATCH	None	ENSG00000261674	ENST00000562825	protein_coding	PUTATIVE	None	None	1414	470	36351936	36421841	-1	None	None
2	KRT18P29	ENSG00000213958	ENST00000397031	processed_pseudogene	KNOWN	None	33398	None	None	182825939	182827205	-1	None	None
8	None	ENSG00000253582	ENST00000518591	antisense	KNOWN	None	None	None	None	107532702	107669776	-1	None	None
11	None	ENSG00000254498	ENST00000524806	processed_pseudogene	KNOWN	None	None	None	None	36717867	36719417	1	None	None
7	None	ENSG00000201465	ENST00000364595	snoRNA	NOVEL	None	None	None	None	137872744	137872875	-1	None	None
13	None	ENSG00000223732	ENST00000437748	lincRNA	KNOWN	None	None	None	None	45556212	45657260	-1	None	None
2	RNA5SP113	ENSG00000222418	ENST00000410486	rRNA	KNOWN	None	42911	None	None	182913549	182913632	1	RN5S113	None
22	None	ENSG00000237299	ENST00000412729	unprocessed_pseudogene	KNOWN	None	None	None	None	16399957	16436527	-1	None	None
5	IRX2	ENSG00000170561	ENST00000382611	protein_coding	KNOWN	CCDS3868	14359	1416	471	2745959	2751776	-1	None	None
5	IRX2	ENSG00000170561	ENST00000302057	protein_coding	KNOWN	CCDS3868	14359	1416	471	2746880	2751769	-1	None	None
5	IRX2	ENSG00000170561	ENST00000502957	processed_transcript	KNOWN	None	14359	None	None	2748925	2752969	-1	None	None
3	None	ENSG00000244030	ENST00000414047	processed_transcript	PUTATIVE	None	None	None	None	11761930	11766453	-1	None	None
12	RN7SL391P	ENSG00000265388	ENST00000582559	misc_RNA	KNOWN	None	46407	None	None	6453720	6453999	1	None	None
2	None	ENSG00000265129	ENST00000581830	miRNA	NOVEL	None	None	None	None	182953156	182953343	-1	None	None
3	RNF168	ENSG00000163961	ENST00000318037	protein_coding	KNOWN	CCDS3317	26661	1716	571	196195654	196230639	-1	None	FLJ35794
3	RNF168	ENSG00000163961	ENST00000437070	nonsense_mediated_decay	KNOWN	None	26661	351	116	196198631	196230548	-1	None	FLJ35794
13	RN7SL49P	ENSG00000265802	ENST00000581392	misc_RNA	KNOWN	None	46065	None	None	45576285	45576580	1	None	None
3	RN7SL296P	ENSG00000263587	ENST00000585237	misc_RNA	KNOWN	None	46312	None	None	33144500	33144796	1	None	None
2	RN7SL267P	ENSG00000242121	ENST00000485107	misc_RNA	KNOWN	None	46283	None	None	183179011	183179269	1	None	None
4	C4orf3	ENSG00000164096	ENST00000399075	protein_coding	KNOWN	CCDS54798	19225	600	199	120218207	120225600	-1	None	None
4	C4orf3	ENSG00000164096	ENST00000504110	protein_coding	KNOWN	CCDS43266	19225	201	66	120219854	120222076	-1	None	None
13	RN7SKP3	ENSG00000223341	ENST00000411409	misc_RNA	KNOWN	None	42621	None	None	45634864	45635221	1	None	None
7	None	ENSG00000213238	ENST00000464337	processed_pseudogene	KNOWN	None	None	None	None	137982833	137983229	-1	None	None
7	None	ENSG00000213238	ENST00000537086	processed_pseudogene	KNOWN	None	None	None	None	137982864	137983229	-1	None	None
12	None	ENSG00000256433	ENST00000541888	lincRNA	KNOWN	None	None	None	None	6503071	6504235	1	None	None
2	None	ENSG00000232430	ENST00000449770	processed_pseudogene	KNOWN	None	None	None	None	183652825	183653162	1	None	None
13	None	ENSG00000271818	ENST00000606815	misc_RNA	NOVEL	None	None	None	None	45697228	45697549	1	None	None
8	DEFB107A	ENSG00000186572	ENST00000335021	protein_coding	KNOWN	CCDS43699	18086	213	70	7669242	7673238	-1	DEFB107	DEFB-7
1	COL24A1	ENSG00000171502	ENST00000370571	protein_coding	KNOWN	CCDS41353	20821	5145	1714	86194916	86622446	-1	None	None
1	COL24A1	ENSG00000171502	ENST00000426639	nonsense_mediated_decay	KNOWN	None	20821	2673	890	86195765	86622446	-1	None	None
1	COL24A1	ENSG00000171502	ENST00000473734	nonsense_mediated_decay	KNOWN	None	20821	500	165	86200472	86210432	-1	None	None
1	COL24A1	ENSG00000171502	ENST00000496682	protein_coding	KNOWN	None	20821	244	80	86591775	86622626	-1	None	None
1	COL24A1	ENSG00000171502	ENST00000485434	processed_transcript	KNOWN	None	20821	None	None	86619756	86622455	-1	None	None
1	COL24A1	ENSG00000171502	ENST00000436319	protein_coding	KNOWN	None	20821	5082	1693	86194916	86622121	-1	None	None
2	None	ENSG00000222007	ENST00000409661	protein_coding	PUTATIVE	None	None	171	56	236682499	236684438	-1	None	None
2	None	ENSG00000222007	ENST00000440101	protein_coding	PUTATIVE	None	None	210	69	236682499	236692031	-1	None	None
13	RNU6-69P	ENSG00000252055	ENST00000516246	snRNA	KNOWN	None	42559	None	None	45711997	45712100	-1	RNU6-69	None
2	None	ENSG00000212404	ENST00000391102	misc_RNA	NOVEL	None	None	None	None	183692851	183692948	1	None	None
3	None	ENSG00000272149	ENST00000607832	antisense	KNOWN	None	None	None	None	33185596	33189213	-1	None	None
2	TTL	ENSG00000114999	ENST00000233336	protein_coding	KNOWN	CCDS2096	21586	1134	377	113239731	113290227	1	None	MGC46235
2	TTL	ENSG00000114999	ENST00000485537	processed_transcript	KNOWN	None	21586	None	None	113239776	113241507	1	None	MGC46235
2	TTL	ENSG00000114999	ENST00000476615	retained_intron	KNOWN	None	21586	None	None	113258863	113278257	1	None	MGC46235
2	TTL	ENSG00000114999	ENST00000460450	processed_transcript	KNOWN	None	21586	None	None	113279728	113289988	1	None	MGC46235
13	None	ENSG00000270381	ENST00000605137	processed_pseudogene	KNOWN	None	None	None	None	45837825	45838050	1	None	None
2	RNU6-1122P	ENSG00000207178	ENST00000384449	snRNA	KNOWN	None	48085	None	None	183738569	183738675	1	None	None
3	None	ENSG00000230119	ENST00000420390	processed_pseudogene	KNOWN	None	None	None	None	33231725	33231820	-1	None	None
10	MARCH5	ENSG00000198060	ENST00000358935	protein_coding	KNOWN	CCDS7420	26025	837	278	94050920	94113721	1	RNF153	FLJ20445, MARCH-V
10	MARCH5	ENSG00000198060	ENST00000467521	processed_transcript	KNOWN	None	26025	None	None	94068235	94109532	1	RNF153	FLJ20445, MARCH-V
10	MARCH5	ENSG00000198060	ENST00000462465	processed_transcript	KNOWN	None	26025	None	None	94093264	94109180	1	RNF153	FLJ20445, MARCH-V
10	MARCH5	ENSG00000198060	ENST00000492319	processed_transcript	KNOWN	None	26025	None	None	94109238	94110055	1	RNF153	FLJ20445, MARCH-V
HG256_PATCH	None	ENSG00000262307	ENST00000573170	rRNA	NOVEL	None	None	None	None	14156533	14156647	1	None	None
11	None	ENSG00000251838	ENST00000516029	snoRNA	NOVEL	None	None	None	None	37723675	37723770	-1	None	None
13	None	ENSG00000221163	ENST00000408236	miRNA	NOVEL	None	None	None	None	45874149	45874235	-1	None	None
2	None	ENSG00000202141	ENST00000365271	misc_RNA	NOVEL	None	None	None	None	183887587	183887699	-1	None	None
3	FANCD2P2	ENSG00000230342	ENST00000437591	unprocessed_pseudogene	KNOWN	None	44488	None	None	11901148	11932646	1	None	None
3	ZNF445	ENSG00000185219	ENST00000396077	protein_coding	KNOWN	CCDS2713	21018	3096	1031	44482406	44519162	-1	ZNF168	ZKSCAN15, ZSCAN47
3	ZNF445	ENSG00000185219	ENST00000460529	retained_intron	KNOWN	None	21018	None	None	44491615	44499756	-1	ZNF168	ZKSCAN15, ZSCAN47
3	ZNF445	ENSG00000185219	ENST00000474600	retained_intron	KNOWN	None	21018	None	None	44496371	44519141	-1	ZNF168	ZKSCAN15, ZSCAN47
3	ZNF445	ENSG00000185219	ENST00000425708	protein_coding	KNOWN	CCDS2713	21018	3096	1031	44481262	44519162	-1	ZNF168	ZKSCAN15, ZSCAN47
13	None	ENSG00000253051	ENST00000517242	snoRNA	KNOWN	None	None	None	None	45910449	45910582	-1	None	None
2	None	ENSG00000221498	ENST00000408571	snoRNA	NOVEL	None	None	None	None	183928963	183929074	-1	None	None
12	None	ENSG00000213942	ENST00000498412	processed_pseudogene	KNOWN	None	None	None	None	6518803	6519179	-1	None	None
1	MIR429	ENSG00000198976	ENST00000362106	miRNA	KNOWN	None	13784	None	None	1104385	1104467	1	MIRN429	hsa-mir-429
13	SNORA31	ENSG00000199477	ENST00000362607	snoRNA	KNOWN	None	32621	None	None	45911615	45911744	-1	None	ACA31
2	KRT8P10	ENSG00000231203	ENST00000450021	processed_pseudogene	KNOWN	None	33364	None	None	183935768	183937214	-1	None	None
17	CD300LB	ENSG00000178789	ENST00000392621	protein_coding	KNOWN	CCDS11700	30811	717	238	72517313	72527605	-1	None	TREM5, CLM7
17	CD300LB	ENSG00000178789	ENST00000314401	protein_coding	PUTATIVE	None	30811	558	185	72519292	72527613	-1	None	TREM5, CLM7
14	LINC00640	ENSG00000258479	ENST00000556479	lincRNA	KNOWN	None	44291	None	None	51800111	51832275	1	None	None
14	LINC00640	ENSG00000258479	ENST00000554409	lincRNA	KNOWN	None	44291	None	None	51800259	51832247	1	None	None
14	LINC00640	ENSG00000258479	ENST00000557295	lincRNA	KNOWN	None	44291	None	None	51800260	51809685	1	None	None
14	LINC00640	ENSG00000258479	ENST00000555801	lincRNA	KNOWN	None	44291	None	None	51827436	51832263	1	None	None
HG104_HG975_PATCH	PLEC	ENSG00000261109	ENST00000568193	protein_coding	KNOWN	None	9069	14055	4684	144997317	145033046	-1	EBS1, PLEC1	PCN, PLTN
HG104_HG975_PATCH	PLEC	ENSG00000261109	ENST00000564962	protein_coding	KNOWN	None	9069	13644	4547	144997323	145021760	-1	EBS1, PLEC1	PCN, PLTN
HG104_HG975_PATCH	PLEC	ENSG00000261109	ENST00000565557	protein_coding	KNOWN	None	9069	13656	4551	144997323	145024694	-1	EBS1, PLEC1	PCN, PLTN
HG104_HG975_PATCH	PLEC	ENSG00000261109	ENST00000565080	protein_coding	KNOWN	None	9069	13644	4547	144997323	145026128	-1	EBS1, PLEC1	PCN, PLTN
HG104_HG975_PATCH	PLEC	ENSG00000261109	ENST00000561589	protein_coding	KNOWN	None	9069	13548	4515	144997323	145026907	-1	EBS1, PLEC1	PCN, PLTN
HG104_HG975_PATCH	PLEC	ENSG00000261109	ENST00000561919	protein_coding	KNOWN	None	9069	13578	4525	144997323	145036090	-1	EBS1, PLEC1	PCN, PLTN
HG104_HG975_PATCH	PLEC	ENSG00000261109	ENST00000567302	protein_coding	KNOWN	None	9069	13602	4533	144997323	145055699	-1	EBS1, PLEC1	PCN, PLTN
HG104_HG975_PATCH	PLEC	ENSG00000261109	ENST00000565268	protein_coding	KNOWN	None	9069	13725	4574	144997323	145058904	-1	EBS1, PLEC1	PCN, PLTN
HG104_HG975_PATCH	PLEC	ENSG00000261109	ENST00000568204	protein_coding	PUTATIVE	None	9069	13713	4570	144998347	145057539	-1	EBS1, PLEC1	PCN, PLTN
HG104_HG975_PATCH	PLEC	ENSG00000261109	ENST00000563470	protein_coding	PUTATIVE	None	9069	598	198	145004102	145009181	-1	EBS1, PLEC1	PCN, PLTN
HG104_HG975_PATCH	PLEC	ENSG00000261109	ENST00000567558	protein_coding	NOVEL	None	9069	2109	702	145014570	145057545	-1	EBS1, PLEC1	PCN, PLTN
HG104_HG975_PATCH	PLEC	ENSG00000261109	ENST00000567856	protein_coding	PUTATIVE	None	9069	570	189	145017447	145028575	-1	EBS1, PLEC1	PCN, PLTN
HG104_HG975_PATCH	PLEC	ENSG00000261109	ENST00000565632	protein_coding	PUTATIVE	None	9069	250	82	145018088	145028717	-1	EBS1, PLEC1	PCN, PLTN
HG104_HG975_PATCH	PLEC	ENSG00000261109	ENST00000570154	protein_coding	PUTATIVE	None	9069	522	173	145018149	145040969	-1	EBS1, PLEC1	PCN, PLTN
HG104_HG975_PATCH	PLEC	ENSG00000261109	ENST00000568537	retained_intron	KNOWN	None	9069	None	None	145019834	145057389	-1	EBS1, PLEC1	PCN, PLTN
HG186_PATCH	MANF	ENSG00000259880	ENST00000566546	protein_coding	KNOWN	None	15461	549	182	51422478	51426828	1	ARMET	ARP
HG186_PATCH	MANF	ENSG00000259880	ENST00000563163	nonsense_mediated_decay	KNOWN	None	15461	214	70	51422788	51426693	1	ARMET	ARP
HG186_PATCH	MANF	ENSG00000259880	ENST00000562728	processed_transcript	KNOWN	None	15461	None	None	51422840	51426775	1	ARMET	ARP
HG186_PATCH	MANF	ENSG00000259880	ENST00000567364	retained_intron	KNOWN	None	15461	None	None	51425119	51426580	1	ARMET	ARP
2	None	ENSG00000224643	ENST00000444562	antisense	KNOWN	None	None	None	None	183948133	183973247	-1	None	None
2	None	ENSG00000224643	ENST00000413954	antisense	KNOWN	None	None	None	None	183960151	183972431	-1	None	None
3	RNU7-110P	ENSG00000252700	ENST00000516891	snRNA	KNOWN	None	45644	None	None	33455642	33455703	1	None	None
22	None	ENSG00000213727	ENST00000456143	processed_pseudogene	KNOWN	None	None	None	None	16404698	16405874	1	None	None
11	RASSF10	ENSG00000189431	ENST00000529419	processed_pseudogene	KNOWN	None	33984	None	None	13031124	13032624	1	None	None
11	RASSF10	ENSG00000189431	ENST00000340901	processed_pseudogene	KNOWN	None	33984	None	None	13030696	13032647	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000223868	ENST00000413624	processed_transcript	PUTATIVE	None	None	None	None	31160394	31162153	-1	None	None
2	GBX2	ENSG00000168505	ENST00000306318	protein_coding	KNOWN	CCDS2515	4186	1047	348	237073879	237077012	-1	None	None
2	GBX2	ENSG00000168505	ENST00000551105	protein_coding	NOVEL	None	4186	669	222	237074372	237076652	-1	None	None
2	GBX2	ENSG00000168505	ENST00000465889	processed_transcript	PUTATIVE	None	4186	None	None	237074377	237075972	-1	None	None
11	None	ENSG00000242834	ENST00000476420	processed_pseudogene	KNOWN	None	None	None	None	37747216	37748006	1	None	None
7	CEP41	ENSG00000106477	ENST00000223208	protein_coding	KNOWN	CCDS5821	12370	1122	373	130036375	130081078	-1	TSGA14	DKFZp762H1311, FLJ22445, JBTS15
7	CEP41	ENSG00000106477	ENST00000485736	retained_intron	KNOWN	None	12370	None	None	130037349	130040987	-1	TSGA14	DKFZp762H1311, FLJ22445, JBTS15
7	CEP41	ENSG00000106477	ENST00000484549	nonsense_mediated_decay	KNOWN	None	12370	378	125	130038570	130080868	-1	TSGA14	DKFZp762H1311, FLJ22445, JBTS15
7	CEP41	ENSG00000106477	ENST00000343969	protein_coding	KNOWN	CCDS59079	12370	906	301	130038580	130080836	-1	TSGA14	DKFZp762H1311, FLJ22445, JBTS15
7	CEP41	ENSG00000106477	ENST00000603513	retained_intron	KNOWN	None	12370	None	None	130038683	130041050	-1	TSGA14	DKFZp762H1311, FLJ22445, JBTS15
7	CEP41	ENSG00000106477	ENST00000480206	retained_intron	KNOWN	None	12370	None	None	130040109	130042527	-1	TSGA14	DKFZp762H1311, FLJ22445, JBTS15
7	CEP41	ENSG00000106477	ENST00000492389	protein_coding	PUTATIVE	None	12370	579	192	130040621	130066571	-1	TSGA14	DKFZp762H1311, FLJ22445, JBTS15
7	CEP41	ENSG00000106477	ENST00000472739	protein_coding	PUTATIVE	None	12370	485	160	130041774	130066820	-1	TSGA14	DKFZp762H1311, FLJ22445, JBTS15
7	CEP41	ENSG00000106477	ENST00000477003	protein_coding	PUTATIVE	None	12370	544	180	130042510	130082274	-1	TSGA14	DKFZp762H1311, FLJ22445, JBTS15
7	CEP41	ENSG00000106477	ENST00000475282	protein_coding	PUTATIVE	None	12370	422	139	130042536	130057173	-1	TSGA14	DKFZp762H1311, FLJ22445, JBTS15
7	CEP41	ENSG00000106477	ENST00000471201	nonsense_mediated_decay	KNOWN	None	12370	210	69	130044440	130080898	-1	TSGA14	DKFZp762H1311, FLJ22445, JBTS15
7	CEP41	ENSG00000106477	ENST00000498527	retained_intron	KNOWN	None	12370	None	None	130050717	130080867	-1	TSGA14	DKFZp762H1311, FLJ22445, JBTS15
7	CEP41	ENSG00000106477	ENST00000469826	protein_coding	PUTATIVE	None	12370	195	64	130051006	130080689	-1	TSGA14	DKFZp762H1311, FLJ22445, JBTS15
7	CEP41	ENSG00000106477	ENST00000482730	retained_intron	KNOWN	None	12370	None	None	130051860	130066554	-1	TSGA14	DKFZp762H1311, FLJ22445, JBTS15
7	CEP41	ENSG00000106477	ENST00000489512	protein_coding	KNOWN	CCDS59080	12370	165	54	130058875	130080897	-1	TSGA14	DKFZp762H1311, FLJ22445, JBTS15
7	CEP41	ENSG00000106477	ENST00000495702	processed_transcript	KNOWN	None	12370	None	None	130061276	130080870	-1	TSGA14	DKFZp762H1311, FLJ22445, JBTS15
7	CEP41	ENSG00000106477	ENST00000334451	processed_transcript	KNOWN	None	12370	None	None	130061694	130080865	-1	TSGA14	DKFZp762H1311, FLJ22445, JBTS15
7	CEP41	ENSG00000106477	ENST00000541543	protein_coding	KNOWN	CCDS59078	12370	858	285	130038372	130080867	-1	TSGA14	DKFZp762H1311, FLJ22445, JBTS15
16	TP53TG3	ENSG00000183632	ENST00000565622	nonsense_mediated_decay	KNOWN	None	30759	399	132	32684852	32687450	-1	None	P53TG3, TP53TG3A
16	TP53TG3	ENSG00000183632	ENST00000398682	protein_coding	KNOWN	CCDS45475	30759	375	124	32684852	32688053	-1	None	P53TG3, TP53TG3A
16	TP53TG3	ENSG00000183632	ENST00000563102	nonsense_mediated_decay	KNOWN	None	30759	429	142	32685409	32687343	-1	None	P53TG3, TP53TG3A
16	TP53TG3	ENSG00000183632	ENST00000569420	protein_coding	KNOWN	CCDS58457	30759	309	102	32685539	32687448	-1	None	P53TG3, TP53TG3A
16	TP53TG3	ENSG00000183632	ENST00000563658	processed_transcript	KNOWN	None	30759	None	None	32685562	32686720	-1	None	P53TG3, TP53TG3A
16	TP53TG3	ENSG00000183632	ENST00000568854	processed_transcript	KNOWN	None	30759	None	None	32685600	32687032	-1	None	P53TG3, TP53TG3A
16	TP53TG3	ENSG00000183632	ENST00000562021	retained_intron	KNOWN	None	30759	None	None	32685711	32686560	-1	None	P53TG3, TP53TG3A
16	TP53TG3	ENSG00000183632	ENST00000564154	retained_intron	KNOWN	None	30759	None	None	32685979	32686942	-1	None	P53TG3, TP53TG3A
16	TP53TG3	ENSG00000183632	ENST00000398680	protein_coding	KNOWN	None	30759	399	132	32686915	32687431	-1	None	P53TG3, TP53TG3A
HSCHR6_MHC_QBL	None	ENSG00000258221	ENST00000552357	pseudogene	NOVEL	None	None	None	None	31220948	31221315	-1	None	None
3	RNA5SP128	ENSG00000202175	ENST00000365305	rRNA	KNOWN	None	43028	None	None	33533475	33533590	-1	RN5S128	None
2	TMEM131	ENSG00000075568	ENST00000485245	retained_intron	KNOWN	None	30366	None	None	98372799	98381780	-1	None	CC28, YR-23, RW1, KIAA0257, PRO1048
2	TMEM131	ENSG00000075568	ENST00000186436	protein_coding	KNOWN	CCDS46368	30366	5652	1883	98372803	98612354	-1	None	CC28, YR-23, RW1, KIAA0257, PRO1048
2	TMEM131	ENSG00000075568	ENST00000469447	retained_intron	KNOWN	None	30366	None	None	98375359	98376558	-1	None	CC28, YR-23, RW1, KIAA0257, PRO1048
2	TMEM131	ENSG00000075568	ENST00000465767	retained_intron	KNOWN	None	30366	None	None	98376146	98377660	-1	None	CC28, YR-23, RW1, KIAA0257, PRO1048
2	TMEM131	ENSG00000075568	ENST00000409721	protein_coding	NOVEL	None	30366	426	141	98409318	98412817	-1	None	CC28, YR-23, RW1, KIAA0257, PRO1048
2	TMEM131	ENSG00000075568	ENST00000480724	retained_intron	KNOWN	None	30366	None	None	98409753	98412867	-1	None	CC28, YR-23, RW1, KIAA0257, PRO1048
2	TMEM131	ENSG00000075568	ENST00000418629	nonsense_mediated_decay	KNOWN	None	30366	998	331	98430812	98612007	-1	None	CC28, YR-23, RW1, KIAA0257, PRO1048
2	TMEM131	ENSG00000075568	ENST00000438715	protein_coding	PUTATIVE	None	30366	384	127	98458278	98523709	-1	None	CC28, YR-23, RW1, KIAA0257, PRO1048
2	TMEM131	ENSG00000075568	ENST00000489507	retained_intron	KNOWN	None	30366	None	None	98504195	98612014	-1	None	CC28, YR-23, RW1, KIAA0257, PRO1048
2	TMEM131	ENSG00000075568	ENST00000425805	protein_coding	KNOWN	None	30366	969	322	98430812	98612388	-1	None	CC28, YR-23, RW1, KIAA0257, PRO1048
2	LIN28AP1	ENSG00000213120	ENST00000429574	processed_pseudogene	KNOWN	None	38055	None	None	184125370	184125774	1	None	None
3	None	ENSG00000238008	ENST00000416832	processed_pseudogene	KNOWN	None	None	None	None	33596128	33596351	1	None	None
1	AJAP1	ENSG00000196581	ENST00000378190	protein_coding	KNOWN	CCDS54	30801	1236	411	4714792	4837854	1	None	SHREW1, SHREW-1, MOT8
1	AJAP1	ENSG00000196581	ENST00000378191	protein_coding	KNOWN	CCDS54	30801	1236	411	4715105	4852594	1	None	SHREW1, SHREW-1, MOT8
1	AJAP1	ENSG00000196581	ENST00000466761	processed_transcript	KNOWN	None	30801	None	None	4771215	4772225	1	None	SHREW1, SHREW-1, MOT8
2	CACYBPP2	ENSG00000177855	ENST00000453625	processed_pseudogene	KNOWN	None	45123	None	None	184472170	184472847	-1	None	None
8	DEFB105A	ENSG00000186562	ENST00000334773	protein_coding	KNOWN	CCDS34832	18087	237	78	7679488	7681411	-1	DEFB105	DEFB-5
8	RNU6-336P	ENSG00000201761	ENST00000364891	snRNA	KNOWN	None	47299	None	None	22291904	22292010	1	None	None
8	TAGLN2P1	ENSG00000253676	ENST00000524097	processed_pseudogene	KNOWN	None	21739	None	None	107709655	107710241	-1	None	None
HSCHR6_MHC_QBL	USP8P1	ENSG00000228904	ENST00000430926	processed_pseudogene	KNOWN	None	13987	None	None	31233164	31236336	1	USP8P	KIAA0055-hom, D84394.7
HSCHR6_MHC_QBL	USP8P1	ENSG00000228904	ENST00000551978	pseudogene	KNOWN	None	13987	None	None	31233174	31234449	1	USP8P	KIAA0055-hom, D84394.7
7	IGFBP3	ENSG00000146674	ENST00000381086	protein_coding	NOVEL	None	5472	585	194	45951949	45960871	-1	None	IBP3, BP-53
7	IGFBP3	ENSG00000146674	ENST00000275521	protein_coding	KNOWN	CCDS5505	5472	876	291	45952197	45960873	-1	None	IBP3, BP-53
7	IGFBP3	ENSG00000146674	ENST00000460209	retained_intron	KNOWN	None	5472	None	None	45953372	45954924	-1	None	IBP3, BP-53
7	IGFBP3	ENSG00000146674	ENST00000381083	protein_coding	KNOWN	CCDS34632	5472	894	297	45953404	45960850	-1	None	IBP3, BP-53
7	IGFBP3	ENSG00000146674	ENST00000428530	protein_coding	KNOWN	None	5472	431	142	45953700	45956996	-1	None	IBP3, BP-53
7	IGFBP3	ENSG00000146674	ENST00000417621	protein_coding	KNOWN	None	5472	460	152	45954069	45957025	-1	None	IBP3, BP-53
7	IGFBP3	ENSG00000146674	ENST00000448817	protein_coding	PUTATIVE	None	5472	396	131	45956171	45961473	-1	None	IBP3, BP-53
7	IGFBP3	ENSG00000146674	ENST00000465642	processed_transcript	KNOWN	None	5472	None	None	45956220	45960014	-1	None	IBP3, BP-53
7	IGFBP3	ENSG00000146674	ENST00000460477	retained_intron	KNOWN	None	5472	None	None	45956595	45960466	-1	None	IBP3, BP-53
12	None	ENSG00000224906	ENST00000447193	processed_pseudogene	KNOWN	None	None	None	None	6547664	6548018	1	None	None
12	None	ENSG00000224906	ENST00000425281	processed_pseudogene	KNOWN	None	None	None	None	6547665	6547994	1	None	None
15	None	ENSG00000271333	ENST00000605634	unprocessed_pseudogene	KNOWN	None	None	None	None	30712486	30712632	-1	None	None
22	POLR2F	ENSG00000100142	ENST00000484894	processed_transcript	KNOWN	None	9193	None	None	38348614	38368305	1	None	RPB6, HRBP14.4
22	POLR2F	ENSG00000100142	ENST00000442738	protein_coding	KNOWN	CCDS13963	9193	384	127	38349670	38365319	1	None	RPB6, HRBP14.4
22	POLR2F	ENSG00000100142	ENST00000460648	protein_coding	PUTATIVE	None	9193	225	74	38349704	38363383	1	None	RPB6, HRBP14.4
22	POLR2F	ENSG00000100142	ENST00000407936	protein_coding	PUTATIVE	None	9193	477	158	38349704	38437113	1	None	RPB6, HRBP14.4
22	POLR2F	ENSG00000100142	ENST00000488684	protein_coding	PUTATIVE	None	9193	231	76	38349706	38363300	1	None	RPB6, HRBP14.4
22	POLR2F	ENSG00000100142	ENST00000492213	protein_coding	PUTATIVE	None	9193	336	111	38349706	38363701	1	None	RPB6, HRBP14.4
22	POLR2F	ENSG00000100142	ENST00000483713	nonsense_mediated_decay	KNOWN	None	9193	231	76	38349706	38363805	1	None	RPB6, HRBP14.4
22	POLR2F	ENSG00000100142	ENST00000443002	nonsense_mediated_decay	KNOWN	None	9193	336	111	38349706	38384341	1	None	RPB6, HRBP14.4
22	POLR2F	ENSG00000100142	ENST00000606538	protein_coding	PUTATIVE	None	9193	297	98	38349718	38363567	1	None	RPB6, HRBP14.4
22	POLR2F	ENSG00000100142	ENST00000405557	protein_coding	PUTATIVE	None	9193	381	126	38349718	38421775	1	None	RPB6, HRBP14.4
22	POLR2F	ENSG00000100142	ENST00000470701	protein_coding	PUTATIVE	None	9193	369	122	38349734	38363808	1	None	RPB6, HRBP14.4
22	POLR2F	ENSG00000100142	ENST00000333418	protein_coding	PUTATIVE	None	9193	436	144	38382200	38422692	1	None	RPB6, HRBP14.4
22	POLR2F	ENSG00000100142	ENST00000427034	protein_coding	PUTATIVE	None	9193	281	92	38382206	38422644	1	None	RPB6, HRBP14.4
10	None	ENSG00000270965	ENST00000603150	processed_pseudogene	KNOWN	None	None	None	None	117579353	117579998	-1	None	None
X	None	ENSG00000230162	ENST00000448043	unprocessed_pseudogene	KNOWN	None	None	None	None	135024637	135029298	-1	None	None
2	None	ENSG00000234172	ENST00000441026	lincRNA	KNOWN	None	None	None	None	184769256	184813839	1	None	None
8	RNU7-84P	ENSG00000251892	ENST00000516083	snRNA	KNOWN	None	34180	None	None	107742023	107742084	-1	None	U7.84
11	None	ENSG00000254516	ENST00000532562	lincRNA	KNOWN	None	None	None	None	37960151	37976213	1	None	None
1	MINOS1	ENSG00000173436	ENST00000486890	processed_transcript	KNOWN	None	32068	None	None	19923477	19950284	1	C1orf151	RP5-1056L3.2, FLJ36999, MIO10
1	MINOS1	ENSG00000173436	ENST00000322753	protein_coding	KNOWN	CCDS30620	32068	237	78	19923484	19956314	1	C1orf151	RP5-1056L3.2, FLJ36999, MIO10
1	MINOS1	ENSG00000173436	ENST00000498067	processed_transcript	PUTATIVE	None	32068	None	None	19923485	19924689	1	C1orf151	RP5-1056L3.2, FLJ36999, MIO10
1	MINOS1	ENSG00000173436	ENST00000462646	processed_transcript	KNOWN	None	32068	None	None	19923489	19950045	1	C1orf151	RP5-1056L3.2, FLJ36999, MIO10
1	MINOS1	ENSG00000173436	ENST00000467029	processed_transcript	KNOWN	None	32068	None	None	19923495	19953117	1	C1orf151	RP5-1056L3.2, FLJ36999, MIO10
1	MINOS1	ENSG00000173436	ENST00000481464	processed_transcript	KNOWN	None	32068	None	None	19923533	19953123	1	C1orf151	RP5-1056L3.2, FLJ36999, MIO10
1	MINOS1	ENSG00000173436	ENST00000498642	processed_transcript	KNOWN	None	32068	None	None	19923535	19953081	1	C1orf151	RP5-1056L3.2, FLJ36999, MIO10
1	MINOS1	ENSG00000173436	ENST00000479642	processed_transcript	KNOWN	None	32068	None	None	19923546	19927798	1	C1orf151	RP5-1056L3.2, FLJ36999, MIO10
1	MINOS1	ENSG00000173436	ENST00000485362	processed_transcript	KNOWN	None	32068	None	None	19923564	19953100	1	C1orf151	RP5-1056L3.2, FLJ36999, MIO10
8	HMGB1P46	ENSG00000254146	ENST00000520062	processed_pseudogene	KNOWN	None	39279	None	None	108185428	108186037	-1	None	None
1	None	ENSG00000272141	ENST00000606993	lincRNA	KNOWN	None	None	None	None	1104737	1105723	1	None	None
8	FGFR1	ENSG00000077782	ENST00000397091	protein_coding	KNOWN	CCDS43732	3688	2463	820	38268656	38326159	-1	FLT2, KAL2	H2, H3, H4, H5, CEK, FLG, BFGFR, N-SAM, CD331
8	FGFR1	ENSG00000077782	ENST00000532791	protein_coding	PUTATIVE	CCDS55222	3688	2463	820	38268749	38326140	-1	FLT2, KAL2	H2, H3, H4, H5, CEK, FLG, BFGFR, N-SAM, CD331
8	FGFR1	ENSG00000077782	ENST00000526688	processed_transcript	PUTATIVE	None	3688	None	None	38269603	38271494	-1	FLT2, KAL2	H2, H3, H4, H5, CEK, FLG, BFGFR, N-SAM, CD331
8	FGFR1	ENSG00000077782	ENST00000397113	protein_coding	KNOWN	CCDS43732	3688	2463	820	38270246	38325418	-1	FLT2, KAL2	H2, H3, H4, H5, CEK, FLG, BFGFR, N-SAM, CD331
8	FGFR1	ENSG00000077782	ENST00000356207	protein_coding	KNOWN	CCDS43730	3688	2202	733	38270248	38326134	-1	FLT2, KAL2	H2, H3, H4, H5, CEK, FLG, BFGFR, N-SAM, CD331
8	FGFR1	ENSG00000077782	ENST00000335922	protein_coding	PUTATIVE	CCDS55221	3688	2439	812	38270249	38326139	-1	FLT2, KAL2	H2, H3, H4, H5, CEK, FLG, BFGFR, N-SAM, CD331
8	FGFR1	ENSG00000077782	ENST00000326324	protein_coding	KNOWN	CCDS43731	3688	2196	731	38270250	38326134	-1	FLT2, KAL2	H2, H3, H4, H5, CEK, FLG, BFGFR, N-SAM, CD331
8	FGFR1	ENSG00000077782	ENST00000526570	retained_intron	KNOWN	None	3688	None	None	38270366	38288338	-1	FLT2, KAL2	H2, H3, H4, H5, CEK, FLG, BFGFR, N-SAM, CD331
8	FGFR1	ENSG00000077782	ENST00000397103	protein_coding	NOVEL	None	3688	2202	733	38270452	38315021	-1	FLT2, KAL2	H2, H3, H4, H5, CEK, FLG, BFGFR, N-SAM, CD331
8	FGFR1	ENSG00000077782	ENST00000531196	nonsense_mediated_decay	KNOWN	None	3688	405	134	38270984	38273441	-1	FLT2, KAL2	H2, H3, H4, H5, CEK, FLG, BFGFR, N-SAM, CD331
8	FGFR1	ENSG00000077782	ENST00000397108	protein_coding	KNOWN	CCDS43732	3688	2463	820	38271040	38325242	-1	FLT2, KAL2	H2, H3, H4, H5, CEK, FLG, BFGFR, N-SAM, CD331
8	FGFR1	ENSG00000077782	ENST00000533619	retained_intron	KNOWN	None	3688	None	None	38272131	38275032	-1	FLT2, KAL2	H2, H3, H4, H5, CEK, FLG, BFGFR, N-SAM, CD331
8	FGFR1	ENSG00000077782	ENST00000527114	retained_intron	KNOWN	None	3688	None	None	38272297	38277862	-1	FLT2, KAL2	H2, H3, H4, H5, CEK, FLG, BFGFR, N-SAM, CD331
8	FGFR1	ENSG00000077782	ENST00000487647	nonsense_mediated_decay	KNOWN	None	3688	186	61	38273511	38314964	-1	FLT2, KAL2	H2, H3, H4, H5, CEK, FLG, BFGFR, N-SAM, CD331
8	FGFR1	ENSG00000077782	ENST00000466021	retained_intron	KNOWN	None	3688	None	None	38274831	38279562	-1	FLT2, KAL2	H2, H3, H4, H5, CEK, FLG, BFGFR, N-SAM, CD331
8	FGFR1	ENSG00000077782	ENST00000527745	retained_intron	KNOWN	None	3688	None	None	38274925	38277562	-1	FLT2, KAL2	H2, H3, H4, H5, CEK, FLG, BFGFR, N-SAM, CD331
8	FGFR1	ENSG00000077782	ENST00000524528	retained_intron	KNOWN	None	3688	None	None	38275471	38276192	-1	FLT2, KAL2	H2, H3, H4, H5, CEK, FLG, BFGFR, N-SAM, CD331
8	FGFR1	ENSG00000077782	ENST00000475621	retained_intron	KNOWN	None	3688	None	None	38279226	38283699	-1	FLT2, KAL2	H2, H3, H4, H5, CEK, FLG, BFGFR, N-SAM, CD331
8	FGFR1	ENSG00000077782	ENST00000530701	processed_transcript	KNOWN	None	3688	None	None	38279361	38315050	-1	FLT2, KAL2	H2, H3, H4, H5, CEK, FLG, BFGFR, N-SAM, CD331
8	FGFR1	ENSG00000077782	ENST00000464163	retained_intron	KNOWN	None	3688	None	None	38280262	38282139	-1	FLT2, KAL2	H2, H3, H4, H5, CEK, FLG, BFGFR, N-SAM, CD331
8	FGFR1	ENSG00000077782	ENST00000470826	retained_intron	KNOWN	None	3688	None	None	38280831	38325826	-1	FLT2, KAL2	H2, H3, H4, H5, CEK, FLG, BFGFR, N-SAM, CD331
8	FGFR1	ENSG00000077782	ENST00000496296	retained_intron	KNOWN	None	3688	None	None	38281535	38326153	-1	FLT2, KAL2	H2, H3, H4, H5, CEK, FLG, BFGFR, N-SAM, CD331
8	FGFR1	ENSG00000077782	ENST00000527203	processed_transcript	KNOWN	None	3688	None	None	38282046	38314994	-1	FLT2, KAL2	H2, H3, H4, H5, CEK, FLG, BFGFR, N-SAM, CD331
8	FGFR1	ENSG00000077782	ENST00000533668	protein_coding	NOVEL	None	3688	419	138	38282064	38325225	-1	FLT2, KAL2	H2, H3, H4, H5, CEK, FLG, BFGFR, N-SAM, CD331
8	FGFR1	ENSG00000077782	ENST00000525001	protein_coding	KNOWN	None	3688	896	297	38282067	38325360	-1	FLT2, KAL2	H2, H3, H4, H5, CEK, FLG, BFGFR, N-SAM, CD331
8	FGFR1	ENSG00000077782	ENST00000532386	retained_intron	KNOWN	None	3688	None	None	38282201	38287520	-1	FLT2, KAL2	H2, H3, H4, H5, CEK, FLG, BFGFR, N-SAM, CD331
8	FGFR1	ENSG00000077782	ENST00000474970	retained_intron	KNOWN	None	3688	None	None	38283645	38287329	-1	FLT2, KAL2	H2, H3, H4, H5, CEK, FLG, BFGFR, N-SAM, CD331
8	FGFR1	ENSG00000077782	ENST00000526742	protein_coding	KNOWN	None	3688	436	144	38283676	38325322	-1	FLT2, KAL2	H2, H3, H4, H5, CEK, FLG, BFGFR, N-SAM, CD331
8	FGFR1	ENSG00000077782	ENST00000529552	protein_coding	KNOWN	None	3688	426	141	38283692	38325363	-1	FLT2, KAL2	H2, H3, H4, H5, CEK, FLG, BFGFR, N-SAM, CD331
8	FGFR1	ENSG00000077782	ENST00000484370	nonsense_mediated_decay	KNOWN	None	3688	453	150	38283697	38314964	-1	FLT2, KAL2	H2, H3, H4, H5, CEK, FLG, BFGFR, N-SAM, CD331
8	FGFR1	ENSG00000077782	ENST00000530568	protein_coding	KNOWN	None	3688	257	84	38285530	38324181	-1	FLT2, KAL2	H2, H3, H4, H5, CEK, FLG, BFGFR, N-SAM, CD331
8	FGFR1	ENSG00000077782	ENST00000434187	protein_coding	KNOWN	None	3688	164	53	38285881	38324213	-1	FLT2, KAL2	H2, H3, H4, H5, CEK, FLG, BFGFR, N-SAM, CD331
8	FGFR1	ENSG00000077782	ENST00000397090	retained_intron	KNOWN	None	3688	None	None	38287039	38325668	-1	FLT2, KAL2	H2, H3, H4, H5, CEK, FLG, BFGFR, N-SAM, CD331
8	FGFR1	ENSG00000077782	ENST00000413133	protein_coding	KNOWN	None	3688	320	105	38287238	38325230	-1	FLT2, KAL2	H2, H3, H4, H5, CEK, FLG, BFGFR, N-SAM, CD331
8	FGFR1	ENSG00000077782	ENST00000440174	protein_coding	KNOWN	None	3688	5	0	38314960	38320918	-1	FLT2, KAL2	H2, H3, H4, H5, CEK, FLG, BFGFR, N-SAM, CD331
8	FGFR1	ENSG00000077782	ENST00000496629	processed_transcript	PUTATIVE	None	3688	None	None	38322931	38324181	-1	FLT2, KAL2	H2, H3, H4, H5, CEK, FLG, BFGFR, N-SAM, CD331
8	FGFR1	ENSG00000077782	ENST00000480571	processed_transcript	PUTATIVE	None	3688	None	None	38323032	38323714	-1	FLT2, KAL2	H2, H3, H4, H5, CEK, FLG, BFGFR, N-SAM, CD331
8	FGFR1	ENSG00000077782	ENST00000425967	protein_coding	KNOWN	CCDS55223	3688	2562	853	38268656	38325363	-1	FLT2, KAL2	H2, H3, H4, H5, CEK, FLG, BFGFR, N-SAM, CD331
8	FGFR1	ENSG00000077782	ENST00000447712	protein_coding	KNOWN	CCDS6107	3688	2469	822	38268657	38326352	-1	FLT2, KAL2	H2, H3, H4, H5, CEK, FLG, BFGFR, N-SAM, CD331
8	FGFR1	ENSG00000077782	ENST00000341462	protein_coding	KNOWN	None	3688	2469	822	38268657	38326352	-1	FLT2, KAL2	H2, H3, H4, H5, CEK, FLG, BFGFR, N-SAM, CD331
2	ZNF512	ENSG00000243943	ENST00000379717	protein_coding	NOVEL	None	29380	1701	566	27805897	27845961	1	None	KIAA1805
2	ZNF512	ENSG00000243943	ENST00000355467	protein_coding	KNOWN	CCDS1758	29380	1704	567	27805897	27846082	1	None	KIAA1805
2	ZNF512	ENSG00000243943	ENST00000494548	processed_transcript	KNOWN	None	29380	None	None	27805911	27823595	1	None	KIAA1805
2	ZNF512	ENSG00000243943	ENST00000461705	retained_intron	KNOWN	None	29380	None	None	27806151	27821054	1	None	KIAA1805
2	ZNF512	ENSG00000243943	ENST00000488055	retained_intron	KNOWN	None	29380	None	None	27839918	27845963	1	None	KIAA1805
2	ZNF512	ENSG00000243943	ENST00000416005	protein_coding	KNOWN	CCDS59428	29380	1617	538	27805946	27844855	1	None	KIAA1805
2	ZNF512	ENSG00000243943	ENST00000413371	protein_coding	KNOWN	CCDS59429	29380	1473	490	27805976	27844581	1	None	KIAA1805
2	ZNF512	ENSG00000243943	ENST00000556601	protein_coding	KNOWN	None	29380	1158	385	27805913	27858041	1	None	KIAA1805
11	DUSP8	ENSG00000184545	ENST00000397374	protein_coding	KNOWN	CCDS7724	3074	1878	625	1575274	1593150	-1	C11orf81	HVH-5, HB5, FLJ42958
11	DUSP8	ENSG00000184545	ENST00000528778	processed_transcript	KNOWN	None	3074	None	None	1578753	1580673	-1	C11orf81	HVH-5, HB5, FLJ42958
11	DUSP8	ENSG00000184545	ENST00000331588	protein_coding	KNOWN	CCDS7724	3074	1878	625	1575281	1587166	-1	C11orf81	HVH-5, HB5, FLJ42958
13	TPT1-AS1	ENSG00000170919	ENST00000517509	antisense	KNOWN	None	43686	None	None	45915480	45965618	1	None	None
13	TPT1-AS1	ENSG00000170919	ENST00000412946	antisense	KNOWN	None	43686	None	None	45915554	45944051	1	None	None
13	TPT1-AS1	ENSG00000170919	ENST00000520622	antisense	KNOWN	None	43686	None	None	45915555	45951262	1	None	None
13	TPT1-AS1	ENSG00000170919	ENST00000520590	antisense	KNOWN	None	43686	None	None	45915564	45952806	1	None	None
13	TPT1-AS1	ENSG00000170919	ENST00000523506	antisense	KNOWN	None	43686	None	None	45915626	45952798	1	None	None
13	TPT1-AS1	ENSG00000170919	ENST00000521336	antisense	KNOWN	None	43686	None	None	45915646	45952806	1	None	None
13	TPT1-AS1	ENSG00000170919	ENST00000522859	retained_intron	KNOWN	None	43686	None	None	45915648	45944642	1	None	None
13	TPT1-AS1	ENSG00000170919	ENST00000524062	retained_intron	KNOWN	None	43686	None	None	45915648	45965872	1	None	None
13	TPT1-AS1	ENSG00000170919	ENST00000520310	antisense	KNOWN	None	43686	None	None	45915673	45952755	1	None	None
13	TPT1-AS1	ENSG00000170919	ENST00000520924	retained_intron	KNOWN	None	43686	None	None	45915727	45944465	1	None	None
13	TPT1-AS1	ENSG00000170919	ENST00000521507	antisense	KNOWN	None	43686	None	None	45918439	45953409	1	None	None
13	TPT1-AS1	ENSG00000170919	ENST00000523445	antisense	KNOWN	None	43686	None	None	45918514	45955352	1	None	None
13	TPT1-AS1	ENSG00000170919	ENST00000522845	antisense	KNOWN	None	43686	None	None	45944094	45952767	1	None	None
13	TPT1-AS1	ENSG00000170919	ENST00000434849	retained_intron	KNOWN	None	43686	None	None	45949069	45952751	1	None	None
13	TPT1-AS1	ENSG00000170919	ENST00000520585	antisense	KNOWN	None	43686	None	None	45952665	45965014	1	None	None
13	TPT1-AS1	ENSG00000170919	ENST00000522673	antisense	KNOWN	None	43686	None	None	45952695	45965857	1	None	None
13	TPT1-AS1	ENSG00000170919	ENST00000519454	antisense	KNOWN	None	43686	None	None	45953419	45965292	1	None	None
13	TPT1-AS1	ENSG00000170919	ENST00000520432	retained_intron	KNOWN	None	43686	None	None	45956960	45965487	1	None	None
13	TPT1-AS1	ENSG00000170919	ENST00000330825	retained_intron	KNOWN	None	43686	None	None	45961720	45965610	1	None	None
13	TPT1-AS1	ENSG00000170919	ENST00000379050	retained_intron	KNOWN	None	43686	None	None	45964880	45965683	1	None	None
8	None	ENSG00000211995	ENST00000390706	miRNA	NOVEL	None	None	None	None	108266635	108266726	-1	None	None
2	None	ENSG00000238306	ENST00000458978	snoRNA	NOVEL	None	None	None	None	184814060	184814163	-1	None	None
8	None	ENSG00000254272	ENST00000519706	processed_pseudogene	KNOWN	None	None	None	None	22350144	22350557	1	None	None
HSCHR6_MHC_QBL	RPL3P2	ENSG00000223927	ENST00000445022	processed_pseudogene	KNOWN	None	17834	None	None	31237899	31239098	1	None	RPL3-Hom
8	PGAM1P13	ENSG00000248838	ENST00000507497	processed_pseudogene	KNOWN	None	42461	None	None	108659507	108660260	1	None	None
2	MIR548AE1	ENSG00000266808	ENST00000583292	miRNA	KNOWN	None	41742	None	None	185243702	185243771	1	None	hsa-mir-548ae-1
HG544_PATCH	PTPLA	ENSG00000261677	ENST00000564712	protein_coding	KNOWN	None	9639	867	288	17631958	17659376	-1	None	CAP
HG544_PATCH	PTPLA	ENSG00000261677	ENST00000570254	nonsense_mediated_decay	KNOWN	None	9639	114	37	17632274	17645743	-1	None	CAP
HG544_PATCH	PTPLA	ENSG00000261677	ENST00000565357	retained_intron	KNOWN	None	9639	None	None	17636208	17645827	-1	None	CAP
HG544_PATCH	PTPLA	ENSG00000261677	ENST00000564036	protein_coding	PUTATIVE	None	9639	523	173	17641073	17659234	-1	None	CAP
HG544_PATCH	PTPLA	ENSG00000261677	ENST00000568800	protein_coding	PUTATIVE	None	9639	477	158	17657476	17659366	-1	None	CAP
3	None	ENSG00000228112	ENST00000434628	processed_pseudogene	KNOWN	None	None	None	None	33768742	33769096	-1	None	None
14	None	ENSG00000259319	ENST00000560419	antisense	KNOWN	None	None	None	None	75890386	75894444	-1	None	None
14	None	ENSG00000259319	ENST00000558267	antisense	KNOWN	None	None	None	None	75893037	75894393	-1	None	None
HSCHR6_MHC_QBL	WASF5P	ENSG00000225954	ENST00000438744	processed_pseudogene	KNOWN	None	21665	None	None	31245375	31246826	-1	None	Em:D84394.5
2	None	ENSG00000237824	ENST00000442301	processed_pseudogene	KNOWN	None	None	None	None	185766838	185767289	-1	None	None
20	RPRD1B	ENSG00000101413	ENST00000373433	protein_coding	KNOWN	CCDS13301	16209	981	326	36661948	36720768	1	C20orf77	dJ1057B20.2, DKFZp434P0735, CREPT, FLJ44520, NET60
20	RPRD1B	ENSG00000101413	ENST00000462548	nonsense_mediated_decay	KNOWN	None	16209	183	60	36662127	36719639	1	C20orf77	dJ1057B20.2, DKFZp434P0735, CREPT, FLJ44520, NET60
20	RPRD1B	ENSG00000101413	ENST00000495457	nonsense_mediated_decay	KNOWN	None	16209	342	113	36662234	36687827	1	C20orf77	dJ1057B20.2, DKFZp434P0735, CREPT, FLJ44520, NET60
20	RPRD1B	ENSG00000101413	ENST00000449186	protein_coding	PUTATIVE	None	16209	591	196	36678155	36718241	1	C20orf77	dJ1057B20.2, DKFZp434P0735, CREPT, FLJ44520, NET60
20	RPRD1B	ENSG00000101413	ENST00000471511	processed_transcript	KNOWN	None	16209	None	None	36712298	36718661	1	C20orf77	dJ1057B20.2, DKFZp434P0735, CREPT, FLJ44520, NET60
20	RPRD1B	ENSG00000101413	ENST00000484683	processed_transcript	KNOWN	None	16209	None	None	36713778	36718410	1	C20orf77	dJ1057B20.2, DKFZp434P0735, CREPT, FLJ44520, NET60
15	None	ENSG00000215302	ENST00000399971	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	30762982	30776892	1	None	None
15	None	ENSG00000215302	ENST00000564702	retained_intron	KNOWN	None	None	None	None	30770024	30786210	1	None	None
15	None	ENSG00000215302	ENST00000568690	retained_intron	KNOWN	None	None	None	None	30771287	30773273	1	None	None
15	None	ENSG00000215302	ENST00000564861	processed_transcript	PUTATIVE	None	None	None	None	30776747	30799826	1	None	None
X	None	ENSG00000206663	ENST00000383936	misc_RNA	NOVEL	None	None	None	None	20003176	20003277	-1	None	None
11	EFCAB4A	ENSG00000177685	ENST00000528315	protein_coding	KNOWN	None	28703	104	33	826144	828711	1	None	MGC45840
11	EFCAB4A	ENSG00000177685	ENST00000533803	protein_coding	KNOWN	None	28703	243	80	826146	828929	1	None	MGC45840
11	EFCAB4A	ENSG00000177685	ENST00000534191	retained_intron	KNOWN	None	28703	None	None	826157	829352	1	None	MGC45840
11	EFCAB4A	ENSG00000177685	ENST00000527089	protein_coding	KNOWN	None	28703	264	87	827248	828950	1	None	MGC45840
11	EFCAB4A	ENSG00000177685	ENST00000534606	retained_intron	KNOWN	None	28703	None	None	827280	829070	1	None	MGC45840
11	EFCAB4A	ENSG00000177685	ENST00000530183	protein_coding	KNOWN	None	28703	159	52	827296	828766	1	None	MGC45840
11	EFCAB4A	ENSG00000177685	ENST00000528542	protein_coding	KNOWN	CCDS41588	28703	885	294	827578	831986	1	None	MGC45840
11	EFCAB4A	ENSG00000177685	ENST00000530737	retained_intron	KNOWN	None	28703	None	None	828467	829555	1	None	MGC45840
11	EFCAB4A	ENSG00000177685	ENST00000525077	protein_coding	NOVEL	None	28703	1200	399	828507	831986	1	None	MGC45840
11	EFCAB4A	ENSG00000177685	ENST00000530688	retained_intron	KNOWN	None	28703	None	None	829297	831985	1	None	MGC45840
11	EFCAB4A	ENSG00000177685	ENST00000527763	retained_intron	KNOWN	None	28703	None	None	829305	831985	1	None	MGC45840
11	EFCAB4A	ENSG00000177685	ENST00000528694	retained_intron	KNOWN	None	28703	None	None	829307	831985	1	None	MGC45840
11	EFCAB4A	ENSG00000177685	ENST00000526531	retained_intron	KNOWN	None	28703	None	None	830485	831780	1	None	MGC45840
11	EFCAB4A	ENSG00000177685	ENST00000450448	protein_coding	KNOWN	CCDS41588	28703	885	294	827585	831991	1	None	MGC45840
X	MIR23C	ENSG00000264566	ENST00000579846	miRNA	KNOWN	None	38913	None	None	20035206	20035305	-1	None	hsa-mir-23c
2	None	ENSG00000225406	ENST00000414888	processed_pseudogene	KNOWN	None	None	None	None	186411862	186412545	-1	None	None
HSCHR6_MHC_QBL	None	ENSG00000225571	ENST00000445527	unprocessed_pseudogene	KNOWN	None	None	None	None	31265712	31266446	-1	None	None
4	FABP2	ENSG00000145384	ENST00000274024	protein_coding	KNOWN	CCDS3712	3556	399	132	120238405	120243545	-1	None	I-FABP
2	None	ENSG00000212581	ENST00000391279	snoRNA	NOVEL	None	None	None	None	186526501	186526633	1	None	None
14	None	ENSG00000224721	ENST00000455232	antisense	KNOWN	None	None	None	None	76041231	76045931	-1	None	None
12	CMAS	ENSG00000111726	ENST00000229329	protein_coding	KNOWN	CCDS8696	18290	1305	434	22199108	22218597	1	None	None
12	CMAS	ENSG00000111726	ENST00000534981	nonsense_mediated_decay	KNOWN	None	18290	792	263	22199159	22218608	1	None	None
12	CMAS	ENSG00000111726	ENST00000535610	nonsense_mediated_decay	KNOWN	None	18290	267	88	22199221	22215368	1	None	None
12	CMAS	ENSG00000111726	ENST00000538498	protein_coding	PUTATIVE	None	18290	291	96	22208053	22213840	1	None	None
12	CMAS	ENSG00000111726	ENST00000537658	retained_intron	KNOWN	None	18290	None	None	22213576	22215347	1	None	None
HSCHR6_MHC_QBL	DHFRP2	ENSG00000236851	ENST00000422710	processed_pseudogene	KNOWN	None	2863	None	None	31324240	31324786	-1	None	None
16	ADAD2	ENSG00000140955	ENST00000268624	protein_coding	KNOWN	CCDS10944	30714	1998	665	84224744	84230772	1	None	TENRL, FLJ00337
16	ADAD2	ENSG00000140955	ENST00000315906	protein_coding	KNOWN	CCDS45536	30714	1752	583	84224785	84230771	1	None	TENRL, FLJ00337
16	ADAD2	ENSG00000140955	ENST00000567413	processed_transcript	KNOWN	None	30714	None	None	84224797	84225480	1	None	TENRL, FLJ00337
16	ADAD2	ENSG00000140955	ENST00000567685	protein_coding	NOVEL	None	30714	801	266	84225063	84229443	1	None	TENRL, FLJ00337
16	ADAD2	ENSG00000140955	ENST00000566526	retained_intron	KNOWN	None	30714	None	None	84226582	84230772	1	None	TENRL, FLJ00337
16	ADAD2	ENSG00000140955	ENST00000564430	retained_intron	KNOWN	None	30714	None	None	84227330	84230772	1	None	TENRL, FLJ00337
16	ADAD2	ENSG00000140955	ENST00000569221	retained_intron	KNOWN	None	30714	None	None	84227781	84228553	1	None	TENRL, FLJ00337
16	ADAD2	ENSG00000140955	ENST00000564169	retained_intron	KNOWN	None	30714	None	None	84227965	84229044	1	None	TENRL, FLJ00337
16	ADAD2	ENSG00000140955	ENST00000563849	retained_intron	KNOWN	None	30714	None	None	84230140	84230774	1	None	TENRL, FLJ00337
2	None	ENSG00000226747	ENST00000421998	antisense	KNOWN	None	None	None	None	186584601	186603448	-1	None	None
2	None	ENSG00000226747	ENST00000427269	antisense	KNOWN	None	None	None	None	186584939	186605206	-1	None	None
2	None	ENSG00000226747	ENST00000437717	antisense	KNOWN	None	None	None	None	186600789	186603752	-1	None	None
Y	AMELY	ENSG00000099721	ENST00000215479	protein_coding	KNOWN	CCDS14778	462	579	192	6733959	6742068	-1	AMGL	None
Y	AMELY	ENSG00000099721	ENST00000383036	protein_coding	KNOWN	None	462	621	206	6734114	6740649	-1	AMGL	None
Y	AMELY	ENSG00000099721	ENST00000383037	protein_coding	KNOWN	None	462	615	204	6736078	6740649	-1	AMGL	None
14	None	ENSG00000242951	ENST00000489251	processed_pseudogene	KNOWN	None	None	None	None	76062148	76062549	-1	None	None
2	None	ENSG00000232503	ENST00000455007	processed_pseudogene	KNOWN	None	None	None	None	131534219	131534530	1	None	None
9	S1PR3	ENSG00000213694	ENST00000358157	protein_coding	KNOWN	CCDS6680	3167	1137	378	91606362	91619925	1	EDG3	EDG-3
9	S1PR3	ENSG00000213694	ENST00000375846	protein_coding	KNOWN	CCDS6680	3167	1137	378	91611421	91619925	1	EDG3	EDG-3
HSCHR6_MHC_QBL	None	ENSG00000266886	ENST00000581846	snRNA	NOVEL	None	None	None	None	31328026	31328132	1	None	None
12	CD27-AS1	ENSG00000215039	ENST00000535639	retained_intron	KNOWN	None	43896	None	None	6548167	6560683	-1	None	None
12	CD27-AS1	ENSG00000215039	ENST00000417058	retained_intron	KNOWN	None	43896	None	None	6548324	6556939	-1	None	None
12	CD27-AS1	ENSG00000215039	ENST00000545339	antisense	KNOWN	None	43896	None	None	6548327	6560733	-1	None	None
12	CD27-AS1	ENSG00000215039	ENST00000399492	antisense	KNOWN	None	43896	None	None	6548405	6560668	-1	None	None
12	CD27-AS1	ENSG00000215039	ENST00000504270	retained_intron	KNOWN	None	43896	None	None	6556782	6560681	-1	None	None
12	CD27-AS1	ENSG00000215039	ENST00000536388	retained_intron	KNOWN	None	43896	None	None	6556939	6560700	-1	None	None
12	CD27-AS1	ENSG00000215039	ENST00000447687	retained_intron	KNOWN	None	43896	None	None	6556996	6557951	-1	None	None
12	CD27-AS1	ENSG00000215039	ENST00000537003	retained_intron	KNOWN	None	43896	None	None	6557156	6560678	-1	None	None
12	CD27-AS1	ENSG00000215039	ENST00000538616	retained_intron	KNOWN	None	43896	None	None	6559577	6560615	-1	None	None
8	RPL5P23	ENSG00000240395	ENST00000496040	processed_pseudogene	KNOWN	None	36553	None	None	42199285	42200152	-1	None	None
HSCHR6_MHC_QBL	None	ENSG00000232276	ENST00000454711	processed_pseudogene	NOVEL	None	None	None	None	31335308	31335905	1	None	None
14	RNA5SP387	ENSG00000201096	ENST00000364226	rRNA	KNOWN	None	43287	None	None	76070516	76070621	1	RN5S387	None
2	None	ENSG00000233221	ENST00000429282	antisense	KNOWN	None	None	None	None	131588551	131594567	-1	None	None
2	None	ENSG00000233221	ENST00000446213	antisense	KNOWN	None	None	None	None	131593011	131594567	-1	None	None
9	CCDC107	ENSG00000159884	ENST00000378407	protein_coding	KNOWN	CCDS56575	28465	420	139	35658301	35661183	1	None	MGC31967
9	CCDC107	ENSG00000159884	ENST00000378406	protein_coding	KNOWN	None	28465	414	137	35658311	35661184	1	None	MGC31967
9	CCDC107	ENSG00000159884	ENST00000426546	protein_coding	KNOWN	CCDS6583	28465	852	283	35658311	35661508	1	None	MGC31967
9	CCDC107	ENSG00000159884	ENST00000327351	protein_coding	KNOWN	CCDS56574	28465	468	155	35658314	35661174	1	None	MGC31967
9	CCDC107	ENSG00000159884	ENST00000421582	protein_coding	KNOWN	None	28465	360	119	35658314	35661400	1	None	MGC31967
9	CCDC107	ENSG00000159884	ENST00000378409	protein_coding	KNOWN	CCDS56573	28465	771	256	35658377	35661184	1	None	MGC31967
3	SMCO1	ENSG00000214097	ENST00000397537	protein_coding	KNOWN	CCDS43192	27407	645	214	196233748	196242237	-1	C3orf43	FLJ41923, DKFZp313B0440
3	SMCO1	ENSG00000214097	ENST00000452776	nonsense_mediated_decay	KNOWN	None	27407	111	36	196233750	196242217	-1	C3orf43	FLJ41923, DKFZp313B0440
1	TTLL10-AS1	ENSG00000205231	ENST00000379317	antisense	KNOWN	None	41159	None	None	1108436	1114935	-1	None	None
6	TAB2	ENSG00000055208	ENST00000606202	protein_coding	PUTATIVE	None	17075	392	129	149539777	149699665	1	MAP3K7IP2	KIAA0733
6	TAB2	ENSG00000055208	ENST00000461481	processed_transcript	KNOWN	None	17075	None	None	149639718	149668361	1	MAP3K7IP2	KIAA0733
6	TAB2	ENSG00000055208	ENST00000606797	protein_coding	PUTATIVE	None	17075	100	32	149642188	149693540	1	MAP3K7IP2	KIAA0733
6	TAB2	ENSG00000055208	ENST00000367456	protein_coding	KNOWN	CCDS5214	17075	2082	693	149642188	149732749	1	MAP3K7IP2	KIAA0733
6	TAB2	ENSG00000055208	ENST00000470466	nonsense_mediated_decay	KNOWN	None	17075	1611	536	149663949	149732652	1	MAP3K7IP2	KIAA0733
6	TAB2	ENSG00000055208	ENST00000484505	processed_transcript	KNOWN	None	17075	None	None	149718828	149730753	1	MAP3K7IP2	KIAA0733
6	TAB2	ENSG00000055208	ENST00000536230	protein_coding	KNOWN	None	17075	1986	661	149539777	149731075	1	MAP3K7IP2	KIAA0733
6	TAB2	ENSG00000055208	ENST00000538427	protein_coding	KNOWN	CCDS5214	17075	2082	693	149639436	149732747	1	MAP3K7IP2	KIAA0733
6	TAB2	ENSG00000055208	ENST00000286332	protein_coding	KNOWN	CCDS5214	17075	2082	693	149691044	149732741	1	MAP3K7IP2	KIAA0733
6	TAB2	ENSG00000055208	ENST00000392282	protein_coding	KNOWN	None	17075	1611	536	149639063	149701077	1	MAP3K7IP2	KIAA0733
14	None	ENSG00000259103	ENST00000556207	antisense	KNOWN	None	None	None	None	76280845	76303554	-1	None	None
14	None	ENSG00000259103	ENST00000557653	antisense	KNOWN	None	None	None	None	76301714	76314041	-1	None	None
20	ATP5E	ENSG00000124172	ENST00000243997	protein_coding	KNOWN	CCDS13476	838	156	51	57600522	57607437	-1	None	None
20	ATP5E	ENSG00000124172	ENST00000395663	protein_coding	KNOWN	CCDS13476	838	156	51	57601028	57607347	-1	None	None
20	ATP5E	ENSG00000124172	ENST00000395659	protein_coding	KNOWN	CCDS13476	838	156	51	57603733	57607400	-1	None	None
HSCHR6_MHC_QBL	ZDHHC20P2	ENSG00000231773	ENST00000423129	processed_pseudogene	KNOWN	None	33457	None	None	31338302	31338728	1	None	OTTHUMG00000133740
8	None	ENSG00000251034	ENST00000514980	antisense	KNOWN	None	None	None	None	22398358	22402918	-1	None	None
16	None	ENSG00000257691	ENST00000550213	processed_pseudogene	KNOWN	None	None	None	None	29486385	29486676	1	None	None
16	None	ENSG00000257506	ENST00000546408	unprocessed_pseudogene	KNOWN	None	None	None	None	29490200	29493912	1	None	None
14	None	ENSG00000258481	ENST00000553537	lincRNA	KNOWN	None	None	None	None	92719837	92730000	-1	None	None
8	None	ENSG00000254230	ENST00000517384	antisense	KNOWN	None	None	None	None	22423510	22424684	-1	None	None
8	None	ENSG00000254131	ENST00000517332	processed_pseudogene	KNOWN	None	None	None	None	42342118	42342537	1	None	None
18	C18orf42	ENSG00000231824	ENST00000580650	protein_coding	PUTATIVE	None	28285	231	76	5145284	5197502	-1	None	None
18	C18orf42	ENSG00000231824	ENST00000434239	protein_coding	KNOWN	CCDS54179	28285	210	69	5145368	5197224	-1	None	None
8	None	ENSG00000199405	ENST00000362535	snoRNA	NOVEL	None	None	None	None	56815282	56815414	-1	None	None
8	None	ENSG00000254165	ENST00000522190	antisense	KNOWN	None	None	None	None	42392672	42393447	-1	None	None
12	AGAP2	ENSG00000135439	ENST00000328568	protein_coding	NOVEL	None	16921	3109	1035	58118980	58131619	-1	CENTG1	None
12	AGAP2	ENSG00000135439	ENST00000257897	protein_coding	KNOWN	CCDS8951	16921	2511	836	58118994	58135940	-1	CENTG1	None
12	AGAP2	ENSG00000135439	ENST00000547588	protein_coding	KNOWN	CCDS44932	16921	3579	1192	58120335	58132029	-1	CENTG1	None
12	AGAP2	ENSG00000135439	ENST00000549129	protein_coding	PUTATIVE	None	16921	510	169	58124166	58125612	-1	CENTG1	None
16	None	ENSG00000205534	ENST00000566127	unprocessed_pseudogene	KNOWN	None	None	None	None	29538889	29606287	-1	None	None
16	None	ENSG00000205534	ENST00000447140	unprocessed_pseudogene	KNOWN	None	None	None	None	29564442	29606395	-1	None	None
X	GAPDHP67	ENSG00000219930	ENST00000422905	processed_pseudogene	KNOWN	None	4145	None	None	135160003	135160790	1	GAPDL12, GAPDHL12	None
2	ASB18	ENSG00000182177	ENST00000409749	protein_coding	KNOWN	CCDS46548	19770	1401	466	237103515	237172988	-1	None	None
2	ASB18	ENSG00000182177	ENST00000447030	protein_coding	PUTATIVE	None	19770	447	148	237104701	237123244	-1	None	None
2	ASB18	ENSG00000182177	ENST00000430053	protein_coding	NOVEL	None	19770	586	194	237123397	237173052	-1	None	None
2	ASB18	ENSG00000182177	ENST00000487961	retained_intron	KNOWN	None	19770	None	None	237155972	237173003	-1	None	None
2	ASB18	ENSG00000182177	ENST00000469508	processed_transcript	PUTATIVE	None	19770	None	None	237159184	237162814	-1	None	None
2	ASB18	ENSG00000182177	ENST00000330842	protein_coding	KNOWN	None	19770	1314	437	237102095	237150258	-1	None	None
15	None	ENSG00000207484	ENST00000384753	misc_RNA	KNOWN	None	None	None	None	52176753	52176850	1	None	None
2	None	ENSG00000252829	ENST00000517020	snoRNA	NOVEL	None	None	None	None	131687335	131687457	-1	None	None
8	None	ENSG00000216204	ENST00000401385	miRNA	NOVEL	None	None	None	None	56821520	56821611	1	None	None
8	None	ENSG00000253200	ENST00000521025	antisense	KNOWN	None	None	None	None	22471421	22474170	-1	None	None
14	None	ENSG00000242488	ENST00000498401	transcribed_processed_pseudogene	KNOWN	None	None	None	None	76304500	76305457	-1	None	None
2	NEK2P4	ENSG00000230450	ENST00000425793	processed_pseudogene	KNOWN	None	37818	None	None	131935191	131936519	-1	None	None
15	None	ENSG00000259201	ENST00000558142	antisense	KNOWN	None	None	None	None	52179757	52193320	-1	None	None
2	None	ENSG00000231646	ENST00000436557	antisense	KNOWN	None	None	None	None	186648418	186664877	-1	None	None
2	None	ENSG00000231646	ENST00000429929	antisense	KNOWN	None	None	None	None	186652747	186664878	-1	None	None
15	RNU6-354P	ENSG00000206589	ENST00000383862	snRNA	KNOWN	None	47317	None	None	44026377	44026483	-1	None	None
2	None	ENSG00000225448	ENST00000452936	processed_pseudogene	KNOWN	None	None	None	None	131938726	131938942	-1	None	None
22	IGLCOR22-2	ENSG00000271093	ENST00000605398	IG_C_pseudogene	KNOWN	None	15697	None	None	32752663	32752975	-1	None	IGLC/OR22-2
14	None	ENSG00000258942	ENST00000555649	lincRNA	KNOWN	None	None	None	None	51811632	51852321	-1	None	None
HSCHR6_MHC_QBL	HLA-S	ENSG00000237559	ENST00000419729	unprocessed_pseudogene	KNOWN	None	19395	None	None	31339952	31340166	-1	None	HLA-17
8	None	ENSG00000272233	ENST00000607533	lincRNA	KNOWN	None	None	None	None	42409933	42410336	1	None	None
HG256_PATCH	None	ENSG00000262344	ENST00000575897	antisense	KNOWN	None	None	None	None	14284393	14295238	-1	None	None
5	None	ENSG00000238864	ENST00000459057	snoRNA	NOVEL	None	None	None	None	31824686	31824789	1	None	None
3	CLDN16	ENSG00000113946	ENST00000468220	processed_transcript	KNOWN	None	2037	None	None	190040330	190122719	1	None	PCLN1, HOMG3
3	CLDN16	ENSG00000113946	ENST00000264734	protein_coding	KNOWN	CCDS3296	2037	918	305	190105661	190129932	1	None	PCLN1, HOMG3
3	CLDN16	ENSG00000113946	ENST00000456423	protein_coding	PUTATIVE	None	2037	360	119	190105909	190127797	1	None	PCLN1, HOMG3
14	None	ENSG00000247287	ENST00000554086	processed_transcript	KNOWN	None	None	None	None	61764882	61789512	-1	None	None
14	None	ENSG00000247287	ENST00000500036	antisense	KNOWN	None	None	None	None	61769739	61789536	-1	None	None
HSCHR6_MHC_QBL	None	ENSG00000265896	ENST00000581456	misc_RNA	NOVEL	None	None	None	None	31359978	31360076	-1	None	None
22	None	ENSG00000230736	ENST00000420171	processed_transcript	KNOWN	None	None	None	None	32772651	32780330	1	None	None
4	PCNAP1	ENSG00000249065	ENST00000595299	processed_transcript	KNOWN	None	8732	None	None	100081671	100082422	-1	None	p1PCNA
4	PCNAP1	ENSG00000249065	ENST00000505363	transcribed_processed_pseudogene	KNOWN	None	8732	None	None	100082094	100082802	-1	None	p1PCNA
HSCHR12_1_CTG1	None	ENSG00000262912	ENST00000575522	miRNA	NOVEL	None	None	None	None	82418	82555	1	None	None
5	RNU6-760P	ENSG00000251887	ENST00000516078	snRNA	KNOWN	None	47723	None	None	31832546	31832619	1	None	None
15	MIR1282	ENSG00000221792	ENST00000408865	miRNA	KNOWN	None	35360	None	None	44085857	44085957	-1	MIRN1282	hsa-mir-1282
14	RNU6-366P	ENSG00000201097	ENST00000364227	snRNA	KNOWN	None	47329	None	None	92732046	92732151	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000258370	ENST00000550565	pseudogene	NOVEL	None	None	None	None	31375872	31376202	1	None	None
2	NF1P8	ENSG00000236956	ENST00000415351	unprocessed_pseudogene	KNOWN	None	7767	None	None	131947407	131955066	-1	NF1L2	None
8	None	ENSG00000261026	ENST00000566457	sense_overlapping	KNOWN	None	None	None	None	22536526	22541522	-1	None	None
5	None	ENSG00000241739	ENST00000496412	processed_pseudogene	KNOWN	None	None	None	None	31840598	31841077	-1	None	None
10	None	ENSG00000230112	ENST00000452981	processed_pseudogene	KNOWN	None	None	None	None	21130304	21130489	1	None	None
8	RN7SL798P	ENSG00000240905	ENST00000468562	misc_RNA	KNOWN	None	46814	None	None	56892801	56893096	-1	None	None
20	MAPRE1	ENSG00000101367	ENST00000375571	protein_coding	KNOWN	CCDS13208	6890	807	268	31407699	31438211	1	None	EB1
19	LINC00664	ENSG00000268658	ENST00000596718	lincRNA	KNOWN	None	44319	None	None	21666176	21682100	1	None	None
19	LINC00664	ENSG00000268658	ENST00000599078	lincRNA	KNOWN	None	44319	None	None	21666517	21686040	1	None	None
19	LINC00664	ENSG00000268658	ENST00000596203	lincRNA	KNOWN	None	44319	None	None	21677087	21682695	1	None	None
22	IGLVIVOR22-2	ENSG00000243519	ENST00000430579	IG_V_pseudogene	KNOWN	None	15695	None	None	32772669	32773122	1	None	IGLV(IV)/OR22-2
6	SRSF3	ENSG00000112081	ENST00000373715	protein_coding	KNOWN	CCDS4823	10785	495	164	36562145	36573377	1	SFRS3	SRp20
6	SRSF3	ENSG00000112081	ENST00000477442	nonsense_mediated_decay	KNOWN	None	10785	375	124	36562168	36569817	1	SFRS3	SRp20
6	SRSF3	ENSG00000112081	ENST00000339436	protein_coding	KNOWN	None	10785	375	124	36562145	36568658	1	SFRS3	SRp20
15	MIR3942	ENSG00000265102	ENST00000585264	miRNA	KNOWN	None	38976	None	None	35664457	35664565	-1	None	hsa-mir-3942
2	None	ENSG00000224019	ENST00000419877	processed_pseudogene	KNOWN	None	None	None	None	186821314	186821790	-1	None	None
2	AGBL5	ENSG00000084693	ENST00000421915	protein_coding	KNOWN	None	26147	196	64	27265232	27276022	1	None	FLJ21839
2	AGBL5	ENSG00000084693	ENST00000453161	protein_coding	KNOWN	None	26147	472	156	27273876	27276848	1	None	FLJ21839
2	AGBL5	ENSG00000084693	ENST00000487078	nonsense_mediated_decay	KNOWN	None	26147	2451	816	27274514	27293490	1	None	FLJ21839
2	AGBL5	ENSG00000084693	ENST00000451003	protein_coding	PUTATIVE	None	26147	198	65	27274536	27276024	1	None	FLJ21839
2	AGBL5	ENSG00000084693	ENST00000477136	retained_intron	KNOWN	None	26147	None	None	27274536	27279864	1	None	FLJ21839
2	AGBL5	ENSG00000084693	ENST00000323064	protein_coding	KNOWN	CCDS42665	26147	2154	717	27274546	27282403	1	None	FLJ21839
2	AGBL5	ENSG00000084693	ENST00000489683	retained_intron	KNOWN	None	26147	None	None	27274549	27279332	1	None	FLJ21839
2	AGBL5	ENSG00000084693	ENST00000360131	protein_coding	KNOWN	CCDS1732	26147	2661	886	27274549	27293488	1	None	FLJ21839
2	AGBL5	ENSG00000084693	ENST00000437006	protein_coding	KNOWN	None	26147	76	24	27274773	27275902	1	None	FLJ21839
2	AGBL5	ENSG00000084693	ENST00000441931	protein_coding	PUTATIVE	None	26147	414	137	27282134	27290703	1	None	FLJ21839
5	RPL5P14	ENSG00000243914	ENST00000494197	processed_pseudogene	KNOWN	None	35924	None	None	31847377	31848254	1	None	None
14	None	ENSG00000258742	ENST00000554653	lincRNA	KNOWN	None	None	None	None	93352697	93359371	1	None	None
14	None	ENSG00000258742	ENST00000557689	lincRNA	KNOWN	None	None	None	None	93357769	93359851	1	None	None
14	None	ENSG00000258742	ENST00000556466	lincRNA	KNOWN	None	None	None	None	93357954	93359371	1	None	None
14	None	ENSG00000258742	ENST00000553485	lincRNA	KNOWN	None	None	None	None	93357962	93359371	1	None	None
X	MIR510	ENSG00000207641	ENST00000384909	miRNA	KNOWN	None	32147	None	None	146353853	146353926	-1	MIRN510	hsa-mir-510
5	None	ENSG00000265561	ENST00000579691	miRNA	NOVEL	None	None	None	None	31880141	31880190	-1	None	None
22	None	ENSG00000241954	ENST00000444848	antisense	KNOWN	None	None	None	None	32779773	32781618	1	None	None
X	None	ENSG00000201882	ENST00000365012	snoRNA	NOVEL	None	None	None	None	20154184	20154253	-1	None	None
15	None	ENSG00000259688	ENST00000557918	processed_pseudogene	KNOWN	None	None	None	None	35688422	35688645	1	None	None
4	None	ENSG00000248745	ENST00000505598	processed_pseudogene	KNOWN	None	None	None	None	146377157	146377996	1	None	None
8	RNA5SP275	ENSG00000200806	ENST00000363936	rRNA	KNOWN	None	43175	None	None	108896722	108896839	1	RN5S275	None
10	None	ENSG00000228748	ENST00000434097	antisense	KNOWN	None	None	None	None	79542624	79552934	1	None	None
10	None	ENSG00000228748	ENST00000600739	antisense	KNOWN	None	None	None	None	79542924	79543639	1	None	None
10	None	ENSG00000228748	ENST00000601701	antisense	KNOWN	None	None	None	None	79550419	79551405	1	None	None
11	KRTAP5-1	ENSG00000205869	ENST00000382171	protein_coding	KNOWN	CCDS31330	23596	837	278	1605572	1606513	-1	KRN1L	KRTAP5.1
5	None	ENSG00000214108	ENST00000511433	processed_pseudogene	KNOWN	None	None	None	None	31908467	31909292	1	None	None
1	None	ENSG00000260179	ENST00000565563	lincRNA	KNOWN	None	None	None	None	1185157	1186714	-1	None	None
X	None	ENSG00000201592	ENST00000364722	snoRNA	NOVEL	None	None	None	None	20154424	20154503	-1	None	None
HG748_PATCH	ENPP7	ENSG00000261981	ENST00000572279	protein_coding	KNOWN	None	23764	1377	458	77727001	77738304	1	None	alk-SMase
HG748_PATCH	ENPP7	ENSG00000261981	ENST00000575794	protein_coding	PUTATIVE	None	23764	480	159	77731623	77735650	1	None	alk-SMase
6	RNU7-65P	ENSG00000252457	ENST00000516648	snRNA	KNOWN	None	34161	None	None	49312460	49312521	-1	None	U7.65
2	None	ENSG00000237877	ENST00000456653	lincRNA	KNOWN	None	None	None	None	186897618	186947960	-1	None	None
2	None	ENSG00000237877	ENST00000427108	lincRNA	KNOWN	None	None	None	None	186898222	186946072	-1	None	None
2	None	ENSG00000237877	ENST00000419719	lincRNA	KNOWN	None	None	None	None	186898258	186947950	-1	None	None
14	None	ENSG00000258926	ENST00000556543	antisense	KNOWN	None	None	None	None	62004226	62012005	-1	None	None
4	None	ENSG00000250582	ENST00000508936	antisense	KNOWN	None	None	None	None	146418225	146424123	-1	None	None
8	NRBF2P4	ENSG00000253228	ENST00000520874	processed_pseudogene	KNOWN	None	44607	None	None	108995344	108996193	1	None	None
22	None	ENSG00000232218	ENST00000453679	unprocessed_pseudogene	KNOWN	None	None	None	None	32782655	32782855	1	None	None
9	None	ENSG00000238113	ENST00000427509	lincRNA	KNOWN	None	None	None	None	66457285	66466010	1	None	None
9	None	ENSG00000238113	ENST00000424345	lincRNA	KNOWN	None	None	None	None	66457289	66469310	1	None	None
9	None	ENSG00000238113	ENST00000452184	lincRNA	KNOWN	None	None	None	None	66457900	66462157	1	None	None
9	ALG2	ENSG00000119523	ENST00000238477	nonsense_mediated_decay	KNOWN	None	23159	417	138	101978708	101984224	-1	None	CDGIi, FLJ14511, hALPG2, NET38
9	ALG2	ENSG00000119523	ENST00000476832	protein_coding	KNOWN	CCDS6739	23159	1251	416	101979649	101984238	-1	None	CDGIi, FLJ14511, hALPG2, NET38
9	ALG2	ENSG00000119523	ENST00000319033	protein_coding	KNOWN	None	23159	972	323	101979652	101983329	-1	None	CDGIi, FLJ14511, hALPG2, NET38
17	CD300C	ENSG00000167850	ENST00000330793	protein_coding	KNOWN	CCDS11701	19320	675	224	72537247	72542282	-1	None	CMRF35, LIR, CMRF-35A, CMRF35A, IGSF16
5	None	ENSG00000249774	ENST00000506046	processed_pseudogene	KNOWN	None	None	None	None	31923473	31923638	1	None	None
19	RNU4-60P	ENSG00000253048	ENST00000517239	snRNA	KNOWN	None	46996	None	None	42977027	42977161	1	None	None
22	None	ENSG00000236054	ENST00000428201	antisense	KNOWN	None	None	None	None	32979286	32980190	1	None	None
6	EEF1A1P42	ENSG00000219374	ENST00000406701	processed_pseudogene	KNOWN	None	48927	None	None	49325859	49328093	-1	None	None
4	None	ENSG00000250300	ENST00000506494	unprocessed_pseudogene	KNOWN	None	None	None	None	100390755	100419855	-1	None	None
6	VN1R12P	ENSG00000220581	ENST00000403778	unitary_pseudogene	KNOWN	None	18722	None	None	27001214	27002089	-1	None	VNR6I3P, bA373D17.2, hs6V1-3p
10	EIF4BP2	ENSG00000228753	ENST00000416702	processed_pseudogene	KNOWN	None	37935	None	None	21317928	21319721	1	None	None
7	None	ENSG00000239133	ENST00000458831	snoRNA	NOVEL	None	None	None	None	99011601	99011701	-1	None	None
19	None	ENSG00000268705	ENST00000600827	processed_pseudogene	KNOWN	None	None	None	None	21704145	21704698	-1	None	None
19	None	ENSG00000269374	ENST00000600255	processed_pseudogene	KNOWN	None	None	None	None	42989228	42989866	-1	None	None
4	None	ENSG00000250902	ENST00000513542	antisense	KNOWN	None	None	None	None	146435767	146438270	-1	None	None
6	VN1R13P	ENSG00000216762	ENST00000406212	processed_pseudogene	KNOWN	None	18723	None	None	27028144	27029028	-1	None	bA373D17.3, hs6V1-4p, VNR6I4P
5	MIR4279	ENSG00000266243	ENST00000582091	miRNA	KNOWN	None	38195	None	None	31936208	31936265	-1	None	hsa-mir-4279
16	None	ENSG00000261732	ENST00000454337	nonsense_mediated_decay	KNOWN	None	None	367	121	1682260	1736716	1	None	None
10	RN7SL284P	ENSG00000243446	ENST00000498823	misc_RNA	KNOWN	None	46300	None	None	79672032	79672304	-1	None	None
16	RLTPR	ENSG00000159753	ENST00000334583	protein_coding	KNOWN	CCDS45513	27089	4308	1435	67678822	67691472	1	None	LRRC16C, CARMIL2
16	RLTPR	ENSG00000159753	ENST00000602563	nonsense_mediated_decay	KNOWN	None	27089	168	55	67678891	67681515	1	None	LRRC16C, CARMIL2
16	RLTPR	ENSG00000159753	ENST00000602467	retained_intron	KNOWN	None	27089	None	None	67679068	67680150	1	None	LRRC16C, CARMIL2
16	RLTPR	ENSG00000159753	ENST00000545661	protein_coding	NOVEL	None	27089	4119	1372	67679150	67691421	1	None	LRRC16C, CARMIL2
16	RLTPR	ENSG00000159753	ENST00000602742	retained_intron	KNOWN	None	27089	None	None	67681350	67682380	1	None	LRRC16C, CARMIL2
16	RLTPR	ENSG00000159753	ENST00000602321	retained_intron	KNOWN	None	27089	None	None	67681772	67687108	1	None	LRRC16C, CARMIL2
16	RLTPR	ENSG00000159753	ENST00000602562	retained_intron	KNOWN	None	27089	None	None	67682410	67684023	1	None	LRRC16C, CARMIL2
16	RLTPR	ENSG00000159753	ENST00000602633	retained_intron	KNOWN	None	27089	None	None	67683828	67685911	1	None	LRRC16C, CARMIL2
16	RLTPR	ENSG00000159753	ENST00000602931	retained_intron	KNOWN	None	27089	None	None	67685789	67687116	1	None	LRRC16C, CARMIL2
16	RLTPR	ENSG00000159753	ENST00000602924	retained_intron	KNOWN	None	27089	None	None	67686868	67688364	1	None	LRRC16C, CARMIL2
16	RLTPR	ENSG00000159753	ENST00000602368	nonsense_mediated_decay	KNOWN	None	27089	373	123	67688421	67691472	1	None	LRRC16C, CARMIL2
16	RLTPR	ENSG00000159753	ENST00000602705	retained_intron	KNOWN	None	27089	None	None	67690743	67691469	1	None	LRRC16C, CARMIL2
7	None	ENSG00000228335	ENST00000434352	processed_pseudogene	KNOWN	None	None	None	None	99040513	99041119	-1	None	None
X	MIR514A1	ENSG00000207868	ENST00000385133	miRNA	KNOWN	None	32148	None	None	146360765	146360862	-1	MIRN514-1, MIR514-1	hsa-mir-514-1
19	HIF3A	ENSG00000124440	ENST00000533789	nonsense_mediated_decay	KNOWN	None	15825	246	81	46800303	46812523	1	None	IPAS, MOP7, PASD7, bHLHe17
19	HIF3A	ENSG00000124440	ENST00000475432	retained_intron	KNOWN	None	15825	None	None	46800303	46816620	1	None	IPAS, MOP7, PASD7, bHLHe17
19	HIF3A	ENSG00000124440	ENST00000244302	retained_intron	KNOWN	None	15825	None	None	46800303	46834770	1	None	IPAS, MOP7, PASD7, bHLHe17
19	HIF3A	ENSG00000124440	ENST00000377670	protein_coding	KNOWN	CCDS12681	15825	2010	669	46800303	46846690	1	None	IPAS, MOP7, PASD7, bHLHe17
19	HIF3A	ENSG00000124440	ENST00000524533	retained_intron	KNOWN	None	15825	None	None	46801555	46807444	1	None	IPAS, MOP7, PASD7, bHLHe17
19	HIF3A	ENSG00000124440	ENST00000244303	protein_coding	KNOWN	CCDS42580	15825	1803	600	46801647	46843166	1	None	IPAS, MOP7, PASD7, bHLHe17
19	HIF3A	ENSG00000124440	ENST00000528563	nonsense_mediated_decay	KNOWN	None	15825	210	69	46801651	46828851	1	None	IPAS, MOP7, PASD7, bHLHe17
19	HIF3A	ENSG00000124440	ENST00000533145	protein_coding	NOVEL	None	15825	445	147	46801679	46811940	1	None	IPAS, MOP7, PASD7, bHLHe17
19	HIF3A	ENSG00000124440	ENST00000472815	protein_coding	PUTATIVE	None	15825	1353	450	46801683	46841795	1	None	IPAS, MOP7, PASD7, bHLHe17
19	HIF3A	ENSG00000124440	ENST00000526506	nonsense_mediated_decay	KNOWN	None	15825	210	69	46801690	46811843	1	None	IPAS, MOP7, PASD7, bHLHe17
19	HIF3A	ENSG00000124440	ENST00000291300	retained_intron	KNOWN	None	15825	None	None	46801715	46834770	1	None	IPAS, MOP7, PASD7, bHLHe17
19	HIF3A	ENSG00000124440	ENST00000300862	protein_coding	KNOWN	CCDS12682	15825	2004	667	46806856	46843357	1	None	IPAS, MOP7, PASD7, bHLHe17
19	HIF3A	ENSG00000124440	ENST00000600879	nonsense_mediated_decay	KNOWN	None	15825	210	69	46807106	46812024	1	None	IPAS, MOP7, PASD7, bHLHe17
19	HIF3A	ENSG00000124440	ENST00000600383	protein_coding	PUTATIVE	None	15825	1785	594	46807106	46841795	1	None	IPAS, MOP7, PASD7, bHLHe17
19	HIF3A	ENSG00000124440	ENST00000525854	processed_transcript	KNOWN	None	15825	None	None	46808299	46815775	1	None	IPAS, MOP7, PASD7, bHLHe17
19	HIF3A	ENSG00000124440	ENST00000529205	retained_intron	KNOWN	None	15825	None	None	46808343	46812453	1	None	IPAS, MOP7, PASD7, bHLHe17
19	HIF3A	ENSG00000124440	ENST00000531043	nonsense_mediated_decay	KNOWN	None	15825	281	92	46812478	46815910	1	None	IPAS, MOP7, PASD7, bHLHe17
19	HIF3A	ENSG00000124440	ENST00000600236	retained_intron	KNOWN	None	15825	None	None	46823649	46825175	1	None	IPAS, MOP7, PASD7, bHLHe17
19	HIF3A	ENSG00000124440	ENST00000529542	retained_intron	KNOWN	None	15825	None	None	46825037	46834753	1	None	IPAS, MOP7, PASD7, bHLHe17
19	HIF3A	ENSG00000124440	ENST00000420102	protein_coding	KNOWN	None	15825	1839	612	46807106	46841795	1	None	IPAS, MOP7, PASD7, bHLHe17
19	HIF3A	ENSG00000124440	ENST00000339613	protein_coding	KNOWN	None	15825	1842	613	46801659	46846690	1	None	IPAS, MOP7, PASD7, bHLHe17
5	None	ENSG00000250764	ENST00000503441	antisense	KNOWN	None	None	None	None	32103551	32122047	-1	None	None
10	DLG5-AS1	ENSG00000233871	ENST00000449852	antisense	KNOWN	None	45109	None	None	79687130	79689582	1	None	None
19	None	ENSG00000268081	ENST00000594564	antisense	KNOWN	None	None	None	None	21737442	21752039	-1	None	None
4	None	ENSG00000248686	ENST00000504710	lincRNA	KNOWN	None	None	None	None	146520261	146521704	1	None	None
HSCHR6_MHC_COX	HCG4P3	ENSG00000224006	ENST00000454587	unprocessed_pseudogene	KNOWN	None	22922	None	None	29963408	29964411	-1	None	HCGIV-03, HCGIV.2, HCGIV-3
17	PSMC5	ENSG00000087191	ENST00000579708	protein_coding	NOVEL	None	9552	430	142	61904512	61908277	1	None	SUG1, p45/SUG, TBP10, p45, S8, TRIP1, SUG-1
17	PSMC5	ENSG00000087191	ENST00000310144	protein_coding	KNOWN	CCDS11645	9552	1221	406	61904543	61909379	1	None	SUG1, p45/SUG, TBP10, p45, S8, TRIP1, SUG-1
17	PSMC5	ENSG00000087191	ENST00000582420	processed_transcript	KNOWN	None	9552	None	None	61904793	61905282	1	None	SUG1, p45/SUG, TBP10, p45, S8, TRIP1, SUG-1
17	PSMC5	ENSG00000087191	ENST00000581842	protein_coding	KNOWN	None	9552	645	214	61904806	61908285	1	None	SUG1, p45/SUG, TBP10, p45, S8, TRIP1, SUG-1
17	PSMC5	ENSG00000087191	ENST00000582130	protein_coding	NOVEL	None	9552	790	262	61904813	61908563	1	None	SUG1, p45/SUG, TBP10, p45, S8, TRIP1, SUG-1
17	PSMC5	ENSG00000087191	ENST00000584320	protein_coding	KNOWN	None	9552	725	240	61904815	61908465	1	None	SUG1, p45/SUG, TBP10, p45, S8, TRIP1, SUG-1
17	PSMC5	ENSG00000087191	ENST00000583283	retained_intron	KNOWN	None	9552	None	None	61904820	61906900	1	None	SUG1, p45/SUG, TBP10, p45, S8, TRIP1, SUG-1
17	PSMC5	ENSG00000087191	ENST00000581764	retained_intron	KNOWN	None	9552	None	None	61904820	61908478	1	None	SUG1, p45/SUG, TBP10, p45, S8, TRIP1, SUG-1
17	PSMC5	ENSG00000087191	ENST00000585123	protein_coding	KNOWN	None	9552	771	256	61904820	61908511	1	None	SUG1, p45/SUG, TBP10, p45, S8, TRIP1, SUG-1
17	PSMC5	ENSG00000087191	ENST00000579147	retained_intron	KNOWN	None	9552	None	None	61904820	61909379	1	None	SUG1, p45/SUG, TBP10, p45, S8, TRIP1, SUG-1
17	PSMC5	ENSG00000087191	ENST00000580864	protein_coding	KNOWN	CCDS56043	9552	1197	398	61904820	61909379	1	None	SUG1, p45/SUG, TBP10, p45, S8, TRIP1, SUG-1
17	PSMC5	ENSG00000087191	ENST00000584536	nonsense_mediated_decay	KNOWN	None	9552	510	169	61904832	61908785	1	None	SUG1, p45/SUG, TBP10, p45, S8, TRIP1, SUG-1
17	PSMC5	ENSG00000087191	ENST00000585242	nonsense_mediated_decay	KNOWN	None	9552	159	52	61904839	61909344	1	None	SUG1, p45/SUG, TBP10, p45, S8, TRIP1, SUG-1
17	PSMC5	ENSG00000087191	ENST00000578570	retained_intron	KNOWN	None	9552	None	None	61904850	61909378	1	None	SUG1, p45/SUG, TBP10, p45, S8, TRIP1, SUG-1
17	PSMC5	ENSG00000087191	ENST00000580265	retained_intron	KNOWN	None	9552	None	None	61905063	61905922	1	None	SUG1, p45/SUG, TBP10, p45, S8, TRIP1, SUG-1
17	PSMC5	ENSG00000087191	ENST00000581882	protein_coding	KNOWN	CCDS56043	9552	1197	398	61905238	61909346	1	None	SUG1, p45/SUG, TBP10, p45, S8, TRIP1, SUG-1
17	PSMC5	ENSG00000087191	ENST00000579031	retained_intron	KNOWN	None	9552	None	None	61907425	61908784	1	None	SUG1, p45/SUG, TBP10, p45, S8, TRIP1, SUG-1
17	PSMC5	ENSG00000087191	ENST00000584880	nonsense_mediated_decay	KNOWN	None	9552	383	126	61907746	61908913	1	None	SUG1, p45/SUG, TBP10, p45, S8, TRIP1, SUG-1
17	PSMC5	ENSG00000087191	ENST00000580063	retained_intron	KNOWN	None	9552	None	None	61908042	61908883	1	None	SUG1, p45/SUG, TBP10, p45, S8, TRIP1, SUG-1
17	PSMC5	ENSG00000087191	ENST00000584657	retained_intron	KNOWN	None	9552	None	None	61908699	61909379	1	None	SUG1, p45/SUG, TBP10, p45, S8, TRIP1, SUG-1
17	PSMC5	ENSG00000087191	ENST00000375812	protein_coding	KNOWN	CCDS56043	9552	1197	398	61905081	61909378	1	None	SUG1, p45/SUG, TBP10, p45, S8, TRIP1, SUG-1
15	HNRNPA1P45	ENSG00000259411	ENST00000560893	processed_pseudogene	KNOWN	None	48775	None	None	35692892	35693969	1	None	None
19	CEACAMP2	ENSG00000230558	ENST00000457904	unprocessed_pseudogene	KNOWN	None	1824	None	None	43064585	43065902	-1	CGM9	None
22	RNA5SP497	ENSG00000251890	ENST00000516081	rRNA	KNOWN	None	43397	None	None	33031088	33031184	-1	RN5S497	None
7	None	ENSG00000265324	ENST00000584735	miRNA	NOVEL	None	None	None	None	99184538	99184622	1	None	None
19	None	ENSG00000268555	ENST00000596996	lincRNA	KNOWN	None	None	None	None	21753624	21770124	-1	None	None
5	PTGER4	ENSG00000171522	ENST00000302472	protein_coding	KNOWN	CCDS3930	9596	1467	488	40679600	40693837	1	None	EP4
5	PTGER4	ENSG00000171522	ENST00000514343	processed_transcript	KNOWN	None	9596	None	None	40680032	40681782	1	None	EP4
5	PTGER4	ENSG00000171522	ENST00000512578	processed_transcript	PUTATIVE	None	9596	None	None	40681592	40692069	1	None	EP4
5	PTGER4	ENSG00000171522	ENST00000509543	processed_transcript	PUTATIVE	None	9596	None	None	40681789	40685553	1	None	EP4
5	PTGER4	ENSG00000171522	ENST00000513635	processed_transcript	KNOWN	None	9596	None	None	40681804	40692145	1	None	EP4
4	None	ENSG00000249245	ENST00000513203	processed_pseudogene	KNOWN	None	None	None	None	146545311	146547187	-1	None	None
10	NPM1P30	ENSG00000228219	ENST00000425092	processed_pseudogene	KNOWN	None	45209	None	None	21399611	21402317	1	None	None
8	None	ENSG00000271722	ENST00000607326	lincRNA	KNOWN	None	None	None	None	56926046	56926727	1	None	None
22	None	ENSG00000229673	ENST00000444982	antisense	KNOWN	None	None	None	None	33179163	33180968	1	None	None
12	None	ENSG00000258172	ENST00000550111	antisense	KNOWN	None	None	None	None	94665926	94670971	-1	None	None
15	None	ENSG00000272337	ENST00000606352	snRNA	NOVEL	None	None	None	None	52199397	52199502	1	None	None
4	None	ENSG00000248356	ENST00000504555	antisense	KNOWN	None	None	None	None	146563488	146571776	-1	None	None
18	ZBTB14	ENSG00000198081	ENST00000357006	protein_coding	KNOWN	CCDS11837	12860	1350	449	5289018	5296039	-1	ZFP161	ZNF478
18	ZBTB14	ENSG00000198081	ENST00000400143	protein_coding	KNOWN	CCDS11837	12860	1350	449	5290857	5296194	-1	ZFP161	ZNF478
18	ZBTB14	ENSG00000198081	ENST00000582388	protein_coding	KNOWN	None	12860	663	220	5291544	5295701	-1	ZFP161	ZNF478
18	ZBTB14	ENSG00000198081	ENST00000582135	protein_coding	KNOWN	None	12860	496	164	5291711	5297052	-1	ZFP161	ZNF478
18	ZBTB14	ENSG00000198081	ENST00000578327	protein_coding	KNOWN	None	12860	307	101	5291900	5294823	-1	ZFP161	ZNF478
18	ZBTB14	ENSG00000198081	ENST00000585253	retained_intron	KNOWN	None	12860	None	None	5292077	5293646	-1	ZFP161	ZNF478
8	RN7SL323P	ENSG00000241997	ENST00000494712	misc_RNA	KNOWN	None	46339	None	None	56934580	56934872	-1	None	None
22	None	ENSG00000197047	ENST00000356969	pseudogene	KNOWN	None	None	None	None	33210035	33210372	-1	None	None
7	None	ENSG00000244219	ENST00000431679	processed_transcript	KNOWN	None	None	None	None	99195689	99208436	1	None	None
7	None	ENSG00000244219	ENST00000453227	processed_transcript	KNOWN	None	None	None	None	99195902	99208385	1	None	None
7	None	ENSG00000244219	ENST00000429679	processed_transcript	KNOWN	None	None	None	None	99195908	99203182	1	None	None
4	None	ENSG00000251687	ENST00000514334	antisense	KNOWN	None	None	None	None	146754270	146760732	1	None	None
11	KRTAP5-2	ENSG00000205867	ENST00000412090	protein_coding	KNOWN	CCDS31331	23597	534	177	1618409	1619524	-1	None	KRTAP5.2, KRTAP5-8
15	None	ENSG00000259185	ENST00000559302	antisense	KNOWN	None	None	None	None	52201099	52201839	-1	None	None
22	None	ENSG00000183531	ENST00000327661	pseudogene	NOVEL	None	None	None	None	33256006	33256420	-1	None	None
3	SDAD1P3	ENSG00000227707	ENST00000427380	processed_pseudogene	KNOWN	None	39260	None	None	33813455	33813787	1	None	None
HSCHR12_1_CTG1	FAM138D	ENSG00000262927	ENST00000570604	lincRNA	KNOWN	None	33583	None	None	86667	88073	-1	None	F379
4	None	ENSG00000201314	ENST00000364444	misc_RNA	NOVEL	None	None	None	None	146879280	146879392	-1	None	None
14	None	ENSG00000250548	ENST00000553288	lincRNA	KNOWN	None	None	None	None	62023031	62036912	-1	None	None
14	None	ENSG00000250548	ENST00000508827	lincRNA	KNOWN	None	None	None	None	62023038	62037371	-1	None	None
16	TBC1D24	ENSG00000162065	ENST00000567020	protein_coding	KNOWN	CCDS42107	29203	1662	553	2525147	2555735	1	None	KIAA1171, TLDC6
16	TBC1D24	ENSG00000162065	ENST00000293970	protein_coding	KNOWN	CCDS55980	29203	1680	559	2525154	2553486	1	None	KIAA1171, TLDC6
16	TBC1D24	ENSG00000162065	ENST00000566853	retained_intron	KNOWN	None	29203	None	None	2533011	2535517	1	None	KIAA1171, TLDC6
16	TBC1D24	ENSG00000162065	ENST00000562105	protein_coding	KNOWN	None	29203	161	52	2533020	2546310	1	None	KIAA1171, TLDC6
16	TBC1D24	ENSG00000162065	ENST00000564879	protein_coding	NOVEL	None	29203	549	182	2548323	2555734	1	None	KIAA1171, TLDC6
16	TBC1D24	ENSG00000162065	ENST00000569874	nonsense_mediated_decay	KNOWN	None	29203	60	19	2550900	2552127	1	None	KIAA1171, TLDC6
16	TBC1D24	ENSG00000162065	ENST00000434757	protein_coding	KNOWN	CCDS55980	29203	1680	559	2546096	2551648	1	None	KIAA1171, TLDC6
5	EGR1	ENSG00000120738	ENST00000239938	protein_coding	KNOWN	CCDS4206	3238	1632	543	137801179	137805004	1	None	TIS8, G0S30, NGFI-A, KROX-24, ZIF-268, AT225, ZNF225
19	CEACAMP1	ENSG00000233681	ENST00000434624	unprocessed_pseudogene	KNOWN	None	1821	None	None	43124364	43137186	-1	CGM8	None
19	None	ENSG00000268240	ENST00000594927	lincRNA	KNOWN	None	None	None	None	21770234	21776808	-1	None	None
19	None	ENSG00000268240	ENST00000599524	lincRNA	KNOWN	None	None	None	None	21776487	21777430	-1	None	None
22	None	ENSG00000228194	ENST00000446798	processed_pseudogene	KNOWN	None	None	None	None	33410965	33411446	1	None	None
9	NR6A1	ENSG00000148200	ENST00000487099	protein_coding	KNOWN	CCDS35137	7985	1443	480	127279554	127533556	-1	GCNF	GCNF1, RTR
9	NR6A1	ENSG00000148200	ENST00000373584	protein_coding	NOVEL	None	7985	1431	476	127284703	127533576	-1	GCNF	GCNF1, RTR
9	NR6A1	ENSG00000148200	ENST00000416460	protein_coding	KNOWN	CCDS55340	7985	1428	475	127284705	127533589	-1	GCNF	GCNF1, RTR
9	NR6A1	ENSG00000148200	ENST00000344523	protein_coding	NOVEL	None	7985	1440	479	127284746	127533566	-1	GCNF	GCNF1, RTR
9	NR6A1	ENSG00000148200	ENST00000475178	protein_coding	PUTATIVE	None	7985	698	231	127300371	127358087	-1	GCNF	GCNF1, RTR
11	None	ENSG00000254784	ENST00000532188	processed_pseudogene	KNOWN	None	None	None	None	38232939	38234349	1	None	None
11	KRTAP5-3	ENSG00000196224	ENST00000399685	protein_coding	KNOWN	CCDS41591	23598	717	238	1628795	1629693	-1	None	KRTAP5.3, KRTAP5-9
4	None	ENSG00000260303	ENST00000570186	lincRNA	KNOWN	None	None	None	None	146973756	146977914	-1	None	None
8	None	ENSG00000236814	ENST00000435260	processed_pseudogene	KNOWN	None	None	None	None	56962597	56963766	-1	None	None
12	RN7SL330P	ENSG00000244391	ENST00000469709	misc_RNA	KNOWN	None	46346	None	None	94754996	94755300	1	None	None
2	None	ENSG00000226410	ENST00000448028	processed_pseudogene	KNOWN	None	None	None	None	187027676	187027972	-1	None	None
4	None	ENSG00000248676	ENST00000508578	antisense	KNOWN	None	None	None	None	100515956	100547070	-1	None	None
X	EIF1AX-AS1	ENSG00000225037	ENST00000424026	antisense	KNOWN	None	40208	None	None	20158086	20158562	1	None	None
22	None	ENSG00000228622	ENST00000447396	lincRNA	KNOWN	None	None	None	None	33501369	33502045	-1	None	None
2	MED15P8	ENSG00000248796	ENST00000411601	unprocessed_pseudogene	KNOWN	None	48657	None	None	131958715	131960514	-1	None	None
X	MIR514A2	ENSG00000207866	ENST00000385131	miRNA	KNOWN	None	32149	None	None	146363461	146363548	-1	MIRN514-2, MIR514-2	hsa-mir-514-2
2	None	ENSG00000232568	ENST00000451906	processed_pseudogene	KNOWN	None	None	None	None	187126146	187126646	-1	None	None
1	None	ENSG00000230415	ENST00000434139	lincRNA	KNOWN	None	None	None	None	1210603	1215800	1	None	None
1	None	ENSG00000230415	ENST00000453732	lincRNA	KNOWN	None	None	None	None	1210617	1214773	1	None	None
3	None	ENSG00000271324	ENST00000605502	lincRNA	KNOWN	None	None	None	None	33835136	33835637	-1	None	None
X	RN7SKP183	ENSG00000252978	ENST00000517169	misc_RNA	KNOWN	None	45907	None	None	20470226	20470549	1	None	None
1	MINOS1-NBL1	ENSG00000270136	ENST00000602662	protein_coding	KNOWN	CCDS196	48338	546	181	19923473	19984549	1	None	None
1	MINOS1-NBL1	ENSG00000270136	ENST00000602384	nonsense_mediated_decay	KNOWN	None	48338	216	71	19923561	19983407	1	None	None
1	MINOS1-NBL1	ENSG00000270136	ENST00000602293	protein_coding	KNOWN	None	48338	343	113	19923561	19983419	1	None	None
1	MINOS1-NBL1	ENSG00000270136	ENST00000602450	nonsense_mediated_decay	KNOWN	None	48338	140	45	19923562	19983420	1	None	None
2	None	ENSG00000259915	ENST00000564407	lincRNA	KNOWN	None	None	None	None	187219299	187221500	-1	None	None
X	RNU6-133P	ENSG00000206716	ENST00000383989	snRNA	KNOWN	None	47096	None	None	21232755	21232861	1	None	None
11	KRTAP5-4	ENSG00000241598	ENST00000399682	protein_coding	KNOWN	None	23599	687	228	1642188	1643368	-1	None	KRTAP5.4
12	RBMS2P1	ENSG00000213250	ENST00000525031	processed_pseudogene	KNOWN	None	30994	None	None	94817520	94818745	-1	RBMS2P	None
15	DPH6-AS1	ENSG00000248079	ENST00000501169	lincRNA	KNOWN	None	44147	None	None	35838396	36151202	1	ATPBD4-AS1	None
15	DPH6-AS1	ENSG00000248079	ENST00000559210	lincRNA	KNOWN	None	44147	None	None	35838584	36150504	1	ATPBD4-AS1	None
15	DPH6-AS1	ENSG00000248079	ENST00000560866	lincRNA	KNOWN	None	44147	None	None	36148678	36150503	1	ATPBD4-AS1	None
3	None	ENSG00000271643	ENST00000604982	lincRNA	KNOWN	None	None	None	None	33837180	33838442	-1	None	None
15	None	ENSG00000259556	ENST00000557871	unprocessed_pseudogene	KNOWN	None	None	None	None	52211270	52222824	-1	None	None
X	RARRES2P3	ENSG00000231913	ENST00000457739	processed_pseudogene	KNOWN	None	48702	None	None	21439940	21440412	-1	None	None
6	CYP2AC1P	ENSG00000216998	ENST00000407830	unitary_pseudogene	KNOWN	None	39976	None	None	49533637	49547879	-1	None	None
2	MED28P3	ENSG00000227692	ENST00000444288	processed_pseudogene	KNOWN	None	45080	None	None	187229325	187229855	1	None	None
HSCHR17_1_CTG4	KRT31	ENSG00000262993	ENST00000573281	protein_coding	KNOWN	None	6448	1251	416	39557276	39561144	-1	KRTHA1	Ha-1
11	None	ENSG00000255477	ENST00000526554	lincRNA	KNOWN	None	None	None	None	38520545	38521736	1	None	None
2	DPRXP1	ENSG00000224323	ENST00000426312	processed_pseudogene	KNOWN	None	32167	None	None	187353351	187353810	-1	None	None
4	None	ENSG00000245322	ENST00000514624	antisense	KNOWN	None	None	None	None	100871163	100887550	1	None	None
4	None	ENSG00000245322	ENST00000507494	antisense	KNOWN	None	None	None	None	100871647	100958799	1	None	None
4	None	ENSG00000245322	ENST00000501976	antisense	KNOWN	None	None	None	None	100871680	100958862	1	None	None
4	None	ENSG00000245322	ENST00000515026	antisense	KNOWN	None	None	None	None	100929228	101116256	1	None	None
X	None	ENSG00000266822	ENST00000579338	miRNA	NOVEL	None	None	None	None	21581190	21581281	1	None	None
12	DNAJC14	ENSG00000135392	ENST00000357606	protein_coding	KNOWN	CCDS8894	24581	2109	702	56214744	56224565	-1	None	DNAJ, DRIP78, HDJ3, LIP6, FLJ32792
12	DNAJC14	ENSG00000135392	ENST00000317287	protein_coding	KNOWN	CCDS8894	24581	2109	702	56215535	56224342	-1	None	DNAJ, DRIP78, HDJ3, LIP6, FLJ32792
12	DNAJC14	ENSG00000135392	ENST00000547445	protein_coding	KNOWN	None	24581	453	150	56221990	56224608	-1	None	DNAJ, DRIP78, HDJ3, LIP6, FLJ32792
12	DNAJC14	ENSG00000135392	ENST00000546957	protein_coding	KNOWN	None	24581	237	78	56222206	56223387	-1	None	DNAJ, DRIP78, HDJ3, LIP6, FLJ32792
12	DNAJC14	ENSG00000135392	ENST00000317269	protein_coding	KNOWN	CCDS8894	24581	2109	702	56214744	56223420	-1	None	DNAJ, DRIP78, HDJ3, LIP6, FLJ32792
11	OR10AB1P	ENSG00000176716	ENST00000317359	protein_coding	KNOWN	None	14804	1020	339	7749632	7750935	1	None	None
6	TBPL1	ENSG00000028839	ENST00000416965	protein_coding	KNOWN	None	11589	386	127	134273308	134305617	1	None	TLP, STUD, TRF2, TLF
6	TBPL1	ENSG00000028839	ENST00000457715	protein_coding	KNOWN	None	11589	135	44	134273424	134301398	1	None	TLP, STUD, TRF2, TLF
6	TBPL1	ENSG00000028839	ENST00000367871	protein_coding	KNOWN	None	11589	492	163	134274333	134305861	1	None	TLP, STUD, TRF2, TLF
6	TBPL1	ENSG00000028839	ENST00000237264	protein_coding	KNOWN	CCDS5168	11589	561	186	134274333	134311570	1	None	TLP, STUD, TRF2, TLF
6	TBPL1	ENSG00000028839	ENST00000367869	protein_coding	KNOWN	None	11589	274	90	134274362	134304010	1	None	TLP, STUD, TRF2, TLF
6	TBPL1	ENSG00000028839	ENST00000477527	processed_transcript	KNOWN	None	11589	None	None	134303955	134308637	1	None	TLP, STUD, TRF2, TLF
6	TBPL1	ENSG00000028839	ENST00000481694	processed_transcript	KNOWN	None	11589	None	None	134305514	134307106	1	None	TLP, STUD, TRF2, TLF
12	KIAA1467	ENSG00000084444	ENST00000197268	protein_coding	KNOWN	CCDS31750	29288	1869	622	13197218	13236383	1	None	None
12	KIAA1467	ENSG00000084444	ENST00000416494	nonsense_mediated_decay	KNOWN	CCDS31750	29288	1869	622	13197315	13236383	1	None	None
12	KIAA1467	ENSG00000084444	ENST00000537625	protein_coding	PUTATIVE	None	29288	975	324	13214649	13295455	1	None	None
12	KIAA1467	ENSG00000084444	ENST00000535974	processed_transcript	KNOWN	None	29288	None	None	13215114	13215813	1	None	None
12	KIAA1467	ENSG00000084444	ENST00000541950	retained_intron	KNOWN	None	29288	None	None	13215690	13234246	1	None	None
12	KIAA1467	ENSG00000084444	ENST00000540455	retained_intron	KNOWN	None	29288	None	None	13219763	13221308	1	None	None
X	MIR514A3	ENSG00000207867	ENST00000385132	miRNA	KNOWN	None	32150	None	None	146366159	146366246	-1	MIRN514-3, MIR514-3	hsa-mir-514-3
X	None	ENSG00000206639	ENST00000383912	misc_RNA	NOVEL	None	None	None	None	21890825	21890926	1	None	None
2	None	ENSG00000227227	ENST00000453665	antisense	KNOWN	None	None	None	None	187506066	187560014	-1	None	None
11	None	ENSG00000255175	ENST00000529017	lincRNA	KNOWN	None	None	None	None	38639814	38667898	-1	None	None
11	None	ENSG00000255175	ENST00000531882	lincRNA	KNOWN	None	None	None	None	38639879	38667906	-1	None	None
22	None	ENSG00000215268	ENST00000417863	processed_pseudogene	KNOWN	None	None	None	None	16413687	16415946	1	None	None
HSCHR6_MHC_COX	HLA-J	ENSG00000228220	ENST00000492006	processed_transcript	KNOWN	None	4967	None	None	29963870	29967243	1	HLA-CDA12, D6S203	CDA12, HLA-59
HSCHR6_MHC_COX	HLA-J	ENSG00000228220	ENST00000494784	processed_transcript	KNOWN	None	4967	None	None	29963874	29967243	1	HLA-CDA12, D6S203	CDA12, HLA-59
HSCHR6_MHC_COX	HLA-J	ENSG00000228220	ENST00000481481	processed_transcript	KNOWN	None	4967	None	None	29963883	29967243	1	HLA-CDA12, D6S203	CDA12, HLA-59
HSCHR6_MHC_COX	HLA-J	ENSG00000228220	ENST00000477650	transcribed_unprocessed_pseudogene	KNOWN	None	4967	None	None	29963893	29966826	1	HLA-CDA12, D6S203	CDA12, HLA-59
X	None	ENSG00000231771	ENST00000449605	lincRNA	KNOWN	None	None	None	None	21911718	21920026	1	None	None
5	None	ENSG00000266499	ENST00000579867	miRNA	NOVEL	None	None	None	None	112241335	112241434	-1	None	None
14	HIF1A-AS1	ENSG00000258777	ENST00000557544	lincRNA	KNOWN	None	43014	None	None	62147759	62162541	-1	None	5'aHIF-1A
17	CD300LD	ENSG00000204345	ENST00000375352	protein_coding	KNOWN	CCDS42379	16848	585	194	72575504	72588422	-1	None	CMRF35A4, CD300D
7	None	ENSG00000236976	ENST00000454924	processed_pseudogene	KNOWN	None	None	None	None	63601916	63602779	-1	None	None
11	OR5P2	ENSG00000183303	ENST00000329434	protein_coding	KNOWN	CCDS7782	14783	969	322	7817452	7818520	-1	None	JCG3
2	None	ENSG00000226553	ENST00000437208	processed_pseudogene	KNOWN	None	None	None	None	187866603	187868104	-1	None	None
16	HIRIP3	ENSG00000149929	ENST00000279392	protein_coding	KNOWN	CCDS10664	4917	1671	556	30003645	30007757	-1	None	None
16	HIRIP3	ENSG00000149929	ENST00000564026	protein_coding	KNOWN	CCDS58449	4917	528	175	30004311	30006964	-1	None	None
16	HIRIP3	ENSG00000149929	ENST00000563053	retained_intron	KNOWN	None	4917	None	None	30004317	30007395	-1	None	None
16	HIRIP3	ENSG00000149929	ENST00000563680	retained_intron	KNOWN	None	4917	None	None	30004788	30006913	-1	None	None
16	HIRIP3	ENSG00000149929	ENST00000566471	processed_transcript	KNOWN	None	4917	None	None	30006081	30007384	-1	None	None
16	HIRIP3	ENSG00000149929	ENST00000565996	retained_intron	KNOWN	None	4917	None	None	30006146	30006929	-1	None	None
16	HIRIP3	ENSG00000149929	ENST00000568880	retained_intron	KNOWN	None	4917	None	None	30006564	30007378	-1	None	None
14	HIF1A-AS2	ENSG00000258667	ENST00000554254	lincRNA	KNOWN	None	43015	None	None	62182276	62217815	-1	None	3'aHIF-1A, aHIF
19	CEACAMP5	ENSG00000231561	ENST00000448037	unprocessed_pseudogene	KNOWN	None	1827	None	None	43158352	43173228	1	CGM12	None
5	None	ENSG00000232633	ENST00000416046	antisense	KNOWN	None	None	None	None	112658725	112772038	1	None	None
5	None	ENSG00000232633	ENST00000510381	antisense	KNOWN	None	None	None	None	112770776	112772871	1	None	None
5	None	ENSG00000232633	ENST00000383058	antisense	KNOWN	None	None	None	None	112769275	112770626	1	None	None
6	None	ENSG00000219088	ENST00000404930	processed_pseudogene	KNOWN	None	None	None	None	106114201	106115873	1	None	None
12	None	ENSG00000257400	ENST00000549532	lincRNA	KNOWN	None	None	None	None	94885322	94890218	-1	None	None
22	None	ENSG00000233408	ENST00000444162	antisense	KNOWN	None	None	None	None	16417269	16420386	1	None	None
3	None	ENSG00000271020	ENST00000605513	lincRNA	KNOWN	None	None	None	None	33838641	33839173	-1	None	None
12	RPL31P52	ENSG00000219355	ENST00000407532	processed_pseudogene	KNOWN	None	36607	None	None	120888240	120888606	-1	None	None
X	None	ENSG00000228855	ENST00000450437	processed_pseudogene	KNOWN	None	None	None	None	146673130	146673427	-1	None	None
2	None	ENSG00000250852	ENST00000514256	unprocessed_pseudogene	KNOWN	None	None	None	None	131975976	132022250	1	None	None
17	WIPF2	ENSG00000171475	ENST00000583268	protein_coding	PUTATIVE	None	30923	189	62	38375556	38433384	1	None	WICH, WIRE
17	WIPF2	ENSG00000171475	ENST00000494757	processed_transcript	KNOWN	None	30923	None	None	38375574	38435159	1	None	WICH, WIRE
17	WIPF2	ENSG00000171475	ENST00000323571	protein_coding	KNOWN	CCDS11364	30923	1323	440	38375574	38440388	1	None	WICH, WIRE
17	WIPF2	ENSG00000171475	ENST00000582781	nonsense_mediated_decay	KNOWN	None	30923	240	79	38375578	38436121	1	None	WICH, WIRE
17	WIPF2	ENSG00000171475	ENST00000585043	protein_coding	KNOWN	CCDS11364	30923	1323	440	38375601	38435609	1	None	WICH, WIRE
17	WIPF2	ENSG00000171475	ENST00000394103	protein_coding	NOVEL	None	30923	549	182	38375609	38436101	1	None	WICH, WIRE
17	WIPF2	ENSG00000171475	ENST00000583130	protein_coding	KNOWN	CCDS11364	30923	1323	440	38376042	38434483	1	None	WICH, WIRE
17	WIPF2	ENSG00000171475	ENST00000584296	protein_coding	KNOWN	None	30923	310	102	38376104	38418890	1	None	WICH, WIRE
17	WIPF2	ENSG00000171475	ENST00000578304	retained_intron	KNOWN	None	30923	None	None	38412640	38417090	1	None	WICH, WIRE
17	WIPF2	ENSG00000171475	ENST00000578623	retained_intron	KNOWN	None	30923	None	None	38429865	38434501	1	None	WICH, WIRE
17	WIPF2	ENSG00000171475	ENST00000536600	protein_coding	KNOWN	None	30923	549	182	38375609	38436101	1	None	WICH, WIRE
15	None	ENSG00000221095	ENST00000408168	miRNA	NOVEL	None	None	None	None	82769264	82769347	-1	None	None
11	KCNE3	ENSG00000175538	ENST00000310128	protein_coding	KNOWN	CCDS8232	6243	312	103	74165886	74178673	-1	None	MiRP2, HOKPP
11	KCNE3	ENSG00000175538	ENST00000525550	protein_coding	KNOWN	CCDS8232	6243	312	103	74168127	74173412	-1	None	MiRP2, HOKPP
11	KCNE3	ENSG00000175538	ENST00000532569	protein_coding	KNOWN	None	6243	298	98	74168311	74178774	-1	None	MiRP2, HOKPP
11	KCNE3	ENSG00000175538	ENST00000531854	protein_coding	KNOWN	None	6243	158	51	74168451	74178594	-1	None	MiRP2, HOKPP
11	KCNE3	ENSG00000175538	ENST00000529425	protein_coding	KNOWN	None	6243	149	48	74168460	74178595	-1	None	MiRP2, HOKPP
11	KCNE3	ENSG00000175538	ENST00000526855	protein_coding	KNOWN	None	6243	37	11	74168572	74178594	-1	None	MiRP2, HOKPP
6	RN7SKP211	ENSG00000200198	ENST00000363328	misc_RNA	KNOWN	None	45935	None	None	106352248	106352562	1	None	None
3	XXYLT1-AS1	ENSG00000233303	ENST00000458531	antisense	KNOWN	None	41153	None	None	194815317	194816786	1	None	None
8	SNORD54	ENSG00000238650	ENST00000459159	snoRNA	KNOWN	None	10204	None	None	56986394	56986460	-1	RNU54	U54
2	None	ENSG00000224063	ENST00000453517	antisense	KNOWN	None	None	None	None	187867947	188392007	1	None	None
2	None	ENSG00000224063	ENST00000412276	antisense	KNOWN	None	None	None	None	187868001	188419120	1	None	None
2	None	ENSG00000224063	ENST00000428329	antisense	KNOWN	None	None	None	None	188418876	188419390	1	None	None
14	None	ENSG00000258964	ENST00000555937	processed_transcript	KNOWN	None	None	None	None	62200856	62242978	1	None	None
11	NCR3LG1	ENSG00000188211	ENST00000338965	protein_coding	NOVEL	CCDS55748	42400	1365	454	17373273	17398888	1	None	DKFZp686O24166, B7-H6
11	NCR3LG1	ENSG00000188211	ENST00000530403	nonsense_mediated_decay	KNOWN	CCDS55748	42400	1365	454	17373446	17395201	1	None	DKFZp686O24166, B7-H6
HSCHR12_1_CTG1	None	ENSG00000262226	ENST00000572731	antisense	KNOWN	None	None	None	None	160539	165865	-1	None	None
11	OR5P3	ENSG00000182334	ENST00000328375	protein_coding	KNOWN	CCDS7783	14784	936	311	7846584	7847519	-1	None	JCG1
8	None	ENSG00000230948	ENST00000413008	processed_pseudogene	KNOWN	None	None	None	None	109143328	109144342	-1	None	None
3	None	ENSG00000226320	ENST00000424786	lincRNA	KNOWN	None	None	None	None	34200826	34604369	1	None	None
3	None	ENSG00000226320	ENST00000415991	lincRNA	KNOWN	None	None	None	None	34200874	34402551	1	None	None
6	None	ENSG00000269919	ENST00000602426	sense_intronic	KNOWN	None	None	None	None	106548015	106548468	1	None	None
11	KRTAP5-5	ENSG00000185940	ENST00000399676	protein_coding	KNOWN	CCDS41592	23601	714	237	1651033	1652160	1	None	KRTAP5.5, KRTAP5-11
8	None	ENSG00000253603	ENST00000521403	antisense	KNOWN	None	None	None	None	56987151	56987833	1	None	None
8	None	ENSG00000255101	ENST00000527318	antisense	KNOWN	None	None	None	None	42560726	42577089	-1	None	None
HG1091_PATCH	None	ENSG00000261928	ENST00000575387	processed_pseudogene	KNOWN	None	None	None	None	60602555	60603812	1	None	None
7	VN1R37P	ENSG00000213643	ENST00000419096	processed_pseudogene	KNOWN	None	37357	None	None	63610063	63610810	-1	None	None
14	None	ENSG00000258499	ENST00000555299	lincRNA	KNOWN	None	None	None	None	93372042	93373827	-1	None	None
12	DYNLL1-AS1	ENSG00000248008	ENST00000500741	antisense	KNOWN	None	48588	None	None	120928131	120933743	-1	None	None
8	DEFB106A	ENSG00000186579	ENST00000335186	protein_coding	KNOWN	CCDS34833	18088	198	65	7682694	7686575	1	DEFB106	DEFB-6
12	RN7SL483P	ENSG00000244091	ENST00000478417	misc_RNA	KNOWN	None	46499	None	None	94909252	94909536	1	None	None
15	None	ENSG00000259217	ENST00000559855	processed_pseudogene	KNOWN	None	None	None	None	36067001	36067190	1	None	None
18	None	ENSG00000267652	ENST00000588959	processed_pseudogene	KNOWN	None	None	None	None	39369127	39369360	-1	None	None
16	None	ENSG00000261889	ENST00000570843	lincRNA	KNOWN	None	None	None	None	3206737	3207484	-1	None	None
HSCHR6_MHC_QBL	None	ENSG00000265852	ENST00000582440	misc_RNA	NOVEL	None	None	None	None	31454788	31454889	-1	None	None
3	WDR53	ENSG00000185798	ENST00000332629	protein_coding	KNOWN	CCDS3318	28786	1077	358	196281056	196295510	-1	None	MGC64882, MGC12928
3	WDR53	ENSG00000185798	ENST00000429115	protein_coding	PUTATIVE	None	28786	594	197	196281059	196295452	-1	None	MGC64882, MGC12928
3	WDR53	ENSG00000185798	ENST00000433160	protein_coding	PUTATIVE	None	28786	600	199	196281065	196295545	-1	None	MGC64882, MGC12928
3	WDR53	ENSG00000185798	ENST00000456677	protein_coding	KNOWN	None	28786	480	159	196287867	196294181	-1	None	MGC64882, MGC12928
3	WDR53	ENSG00000185798	ENST00000425888	protein_coding	KNOWN	None	28786	462	153	196287885	196295393	-1	None	MGC64882, MGC12928
14	ITPK1-AS1	ENSG00000258730	ENST00000553639	antisense	KNOWN	None	20132	None	None	93533797	93538497	1	C14orf85, NCRNA00203, ITPK1AS, ITPK1-AS	None
11	OR10A6	ENSG00000175393	ENST00000309838	protein_coding	KNOWN	CCDS31420	15132	945	314	7949180	7950209	-1	None	None
11	KRTAP5-6	ENSG00000205864	ENST00000382160	protein_coding	KNOWN	CCDS31332	23600	390	129	1718425	1718985	1	None	KRTAP5.6
18	None	ENSG00000225253	ENST00000457751	processed_pseudogene	KNOWN	None	None	None	None	39399018	39399386	1	None	None
17	RN7SL270P	ENSG00000263650	ENST00000579643	misc_RNA	KNOWN	None	46286	None	None	45119191	45119483	1	None	None
7	VN1R38P	ENSG00000235227	ENST00000450265	unitary_pseudogene	KNOWN	None	37358	None	None	63640384	63641270	-1	None	None
12	BRAP	ENSG00000089234	ENST00000419234	protein_coding	KNOWN	CCDS9154	1099	1779	592	112079950	112123790	-1	None	BRAP2, RNF52, IMP
12	BRAP	ENSG00000089234	ENST00000327551	protein_coding	PUTATIVE	None	1099	1689	562	112081886	112123524	-1	None	BRAP2, RNF52, IMP
12	BRAP	ENSG00000089234	ENST00000547043	retained_intron	KNOWN	None	1099	None	None	112082143	112111115	-1	None	BRAP2, RNF52, IMP
12	BRAP	ENSG00000089234	ENST00000539060	protein_coding	KNOWN	None	1099	1242	413	112081743	112119507	-1	None	BRAP2, RNF52, IMP
19	RPS10P28	ENSG00000243167	ENST00000480396	processed_pseudogene	KNOWN	None	35511	None	None	43174157	43174968	1	None	None
HSCHR6_MHC_QBL	PPIAP9	ENSG00000225317	ENST00000418291	processed_pseudogene	KNOWN	None	9272	None	None	31477555	31478366	-1	PPIP9	Em:AC006046.3
X	None	ENSG00000227505	ENST00000458303	processed_pseudogene	KNOWN	None	None	None	None	146882523	146882820	1	None	None
17	None	ENSG00000221016	ENST00000408089	miRNA	NOVEL	None	None	None	None	45195868	45195957	1	None	None
HSCHR12_1_CTG1	None	ENSG00000263137	ENST00000576880	antisense	KNOWN	None	None	None	None	191426	203184	-1	None	None
HSCHR12_1_CTG1	None	ENSG00000263137	ENST00000571148	antisense	KNOWN	None	None	None	None	193549	203130	-1	None	None
8	NPM1P21	ENSG00000248578	ENST00000513394	processed_pseudogene	KNOWN	None	13855	None	None	57013758	57014826	-1	None	None
16	None	ENSG00000262521	ENST00000576762	lincRNA	KNOWN	None	None	None	None	3231233	3234018	-1	None	None
1	None	ENSG00000240731	ENST00000444968	sense_intronic	KNOWN	None	None	None	None	1252961	1254069	-1	None	None
18	None	ENSG00000267088	ENST00000591187	processed_pseudogene	KNOWN	None	None	None	None	39669276	39669716	1	None	None
7	None	ENSG00000213644	ENST00000395413	processed_pseudogene	KNOWN	None	None	None	None	63642088	63643271	1	None	None
17	None	ENSG00000239291	ENST00000488906	processed_pseudogene	KNOWN	None	None	None	None	45236557	45237359	-1	None	None
9	SHC3	ENSG00000148082	ENST00000375835	protein_coding	KNOWN	CCDS6681	18181	1785	594	91628060	91793682	-1	None	N-Shc, NSHC, SHCC
9	SHC3	ENSG00000148082	ENST00000375831	protein_coding	KNOWN	None	18181	318	105	91652281	91657052	-1	None	N-Shc, NSHC, SHCC
9	SHC3	ENSG00000148082	ENST00000375830	protein_coding	KNOWN	None	18181	318	105	91652424	91793682	-1	None	N-Shc, NSHC, SHCC
12	None	ENSG00000258357	ENST00000551218	processed_pseudogene	KNOWN	None	None	None	None	94914866	94915645	-1	None	None
16	None	ENSG00000262668	ENST00000576468	antisense	KNOWN	None	None	None	None	3238212	3274779	1	None	None
14	None	ENSG00000258882	ENST00000554138	lincRNA	KNOWN	None	None	None	None	62278692	62437037	1	None	None
14	None	ENSG00000258882	ENST00000554436	lincRNA	KNOWN	None	None	None	None	62331598	62437031	1	None	None
2	RNU6-127P	ENSG00000212199	ENST00000390897	snRNA	KNOWN	None	47090	None	None	131987180	131987286	1	None	None
3	TMF1	ENSG00000144747	ENST00000398559	protein_coding	KNOWN	CCDS43105	11870	3282	1093	69068978	69101454	-1	None	ARA160, TMF
3	TMF1	ENSG00000144747	ENST00000488010	nonsense_mediated_decay	KNOWN	None	11870	2328	775	69072228	69101441	-1	None	ARA160, TMF
3	TMF1	ENSG00000144747	ENST00000489370	processed_transcript	KNOWN	None	11870	None	None	69073433	69075251	-1	None	ARA160, TMF
3	TMF1	ENSG00000144747	ENST00000477872	retained_intron	KNOWN	None	11870	None	None	69092943	69093779	-1	None	ARA160, TMF
3	TMF1	ENSG00000144747	ENST00000543976	protein_coding	KNOWN	None	11870	3291	1096	69068980	69101484	-1	None	ARA160, TMF
3	MIR3137	ENSG00000265333	ENST00000577367	miRNA	KNOWN	None	38263	None	None	194855235	194855309	-1	None	hsa-mir-3137
7	None	ENSG00000223614	ENST00000429565	unprocessed_pseudogene	KNOWN	None	None	None	None	63667581	63680031	1	None	None
19	FGF22	ENSG00000070388	ENST00000591390	retained_intron	KNOWN	None	3679	None	None	639879	641590	1	None	None
19	FGF22	ENSG00000070388	ENST00000586042	protein_coding	PUTATIVE	None	3679	498	165	639895	643703	1	None	None
19	FGF22	ENSG00000070388	ENST00000215530	protein_coding	KNOWN	CCDS12037	3679	513	170	639895	643703	1	None	None
19	FGF22	ENSG00000070388	ENST00000166133	protein_coding	KNOWN	None	3679	390	129	641178	643703	1	None	None
15	RN7SL61P	ENSG00000240994	ENST00000491131	misc_RNA	KNOWN	None	46077	None	None	82770180	82770459	-1	None	None
2	RN7SKP42	ENSG00000222845	ENST00000410913	misc_RNA	KNOWN	None	45766	None	None	187987289	187987588	-1	None	None
HSCHR6_MHC_QBL	RPL15P4	ENSG00000232572	ENST00000457032	processed_pseudogene	KNOWN	None	21663	None	None	31486175	31486754	1	None	Em:AC006046.2
14	None	ENSG00000258595	ENST00000553543	processed_pseudogene	KNOWN	None	None	None	None	93604411	93604810	1	None	None
3	RN7SL36P	ENSG00000244314	ENST00000469345	misc_RNA	KNOWN	None	46052	None	None	194867459	194867732	-1	None	None
2	RNU6-989P	ENSG00000199626	ENST00000362756	snRNA	KNOWN	None	47952	None	None	188135425	188135531	-1	None	None
18	PHLPP1	ENSG00000081913	ENST00000262719	protein_coding	KNOWN	CCDS45881	20610	5154	1717	60382683	60647666	1	PLEKHE1, PHLPP	KIAA0606, SCOP
18	PHLPP1	ENSG00000081913	ENST00000497351	processed_transcript	KNOWN	None	20610	None	None	60446632	60527746	1	PLEKHE1, PHLPP	KIAA0606, SCOP
18	PHLPP1	ENSG00000081913	ENST00000588452	processed_transcript	KNOWN	None	20610	None	None	60499393	60556898	1	PLEKHE1, PHLPP	KIAA0606, SCOP
18	PHLPP1	ENSG00000081913	ENST00000487409	processed_transcript	KNOWN	None	20610	None	None	60499407	60562321	1	PLEKHE1, PHLPP	KIAA0606, SCOP
18	PHLPP1	ENSG00000081913	ENST00000588953	processed_transcript	KNOWN	None	20610	None	None	60504911	60507108	1	PLEKHE1, PHLPP	KIAA0606, SCOP
18	PHLPP1	ENSG00000081913	ENST00000591386	protein_coding	NOVEL	None	20610	591	196	60570383	60625959	1	PLEKHE1, PHLPP	KIAA0606, SCOP
18	PHLPP1	ENSG00000081913	ENST00000591106	processed_transcript	KNOWN	None	20610	None	None	60573520	60609143	1	PLEKHE1, PHLPP	KIAA0606, SCOP
18	PHLPP1	ENSG00000081913	ENST00000400316	protein_coding	KNOWN	None	20610	3618	1205	60382672	60647666	1	PLEKHE1, PHLPP	KIAA0606, SCOP
12	None	ENSG00000222601	ENST00000410669	misc_RNA	NOVEL	None	None	None	None	120942374	120942462	-1	None	None
5	RNU4ATAC13P	ENSG00000251741	ENST00000515932	snRNA	KNOWN	None	46899	None	None	112829532	112829657	1	None	None
2	None	ENSG00000231431	ENST00000560285	processed_transcript	KNOWN	None	None	None	None	132046326	132057392	1	None	None
2	None	ENSG00000231431	ENST00000425399	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	132054416	132066641	1	None	None
2	GAPDHP59	ENSG00000231739	ENST00000435908	processed_pseudogene	KNOWN	None	4152	None	None	188280279	188280545	1	GAPDL3, GAPDHL3	None
15	MIR4510	ENSG00000265098	ENST00000578635	miRNA	KNOWN	None	41708	None	None	36219057	36219124	1	None	hsa-mir-4510
15	None	ENSG00000186322	ENST00000506975	processed_transcript	KNOWN	None	None	None	None	82804003	82808108	1	None	None
15	None	ENSG00000186322	ENST00000506719	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	82804067	82810874	1	None	None
3	XXYLT1-AS2	ENSG00000230266	ENST00000447975	antisense	KNOWN	None	41154	None	None	194868600	194873519	1	None	None
3	XXYLT1-AS2	ENSG00000230266	ENST00000426468	antisense	KNOWN	None	41154	None	None	194868620	194873192	1	None	None
5	None	ENSG00000251628	ENST00000512927	lincRNA	KNOWN	None	None	None	None	113391703	113392871	1	None	None
X	None	ENSG00000271175	ENST00000605108	processed_pseudogene	KNOWN	None	None	None	None	146894251	146894492	-1	None	None
9	RNA5SP283	ENSG00000202474	ENST00000365604	rRNA	KNOWN	None	43183	None	None	66458144	66458262	-1	RN5S283	None
22	ARHGAP42P3	ENSG00000235759	ENST00000443989	processed_pseudogene	KNOWN	None	19327	None	None	16424125	16427059	1	OPHN1P1	None
11	None	ENSG00000254562	ENST00000533575	lincRNA	KNOWN	None	None	None	None	38668026	38695791	1	None	None
11	None	ENSG00000254562	ENST00000530102	lincRNA	KNOWN	None	None	None	None	38670314	38688407	1	None	None
11	None	ENSG00000254562	ENST00000534756	lincRNA	KNOWN	None	None	None	None	38670408	38676802	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000266295	ENST00000584949	snoRNA	KNOWN	None	None	None	None	31494434	31494509	-1	None	None
15	None	ENSG00000259639	ENST00000560886	lincRNA	KNOWN	None	None	None	None	36231368	36266970	-1	None	None
15	None	ENSG00000259639	ENST00000561394	lincRNA	KNOWN	None	None	None	None	36262559	36544458	-1	None	None
9	None	ENSG00000203438	ENST00000366256	pseudogene	NOVEL	None	None	None	None	66473375	66473673	1	None	None
2	None	ENSG00000231689	ENST00000434418	lincRNA	KNOWN	None	None	None	None	188577543	189152418	-1	None	None
2	None	ENSG00000231689	ENST00000415357	lincRNA	KNOWN	None	None	None	None	189092547	189152361	-1	None	None
12	GLT8D2	ENSG00000120820	ENST00000360814	protein_coding	KNOWN	CCDS9096	24890	1050	349	104382762	104443915	-1	None	FLJ31494
12	GLT8D2	ENSG00000120820	ENST00000546436	protein_coding	KNOWN	CCDS9096	24890	1050	349	104382767	104423554	-1	None	FLJ31494
12	GLT8D2	ENSG00000120820	ENST00000548660	protein_coding	KNOWN	CCDS9096	24890	1050	349	104383058	104457961	-1	None	FLJ31494
12	GLT8D2	ENSG00000120820	ENST00000552572	retained_intron	KNOWN	None	24890	None	None	104387642	104390624	-1	None	FLJ31494
12	GLT8D2	ENSG00000120820	ENST00000550816	retained_intron	KNOWN	None	24890	None	None	104393137	104443799	-1	None	FLJ31494
12	GLT8D2	ENSG00000120820	ENST00000546851	protein_coding	PUTATIVE	None	24890	198	65	104393196	104443915	-1	None	FLJ31494
12	GLT8D2	ENSG00000120820	ENST00000547583	protein_coding	PUTATIVE	None	24890	252	83	104406377	104443914	-1	None	FLJ31494
3	TMEM207	ENSG00000198398	ENST00000354905	protein_coding	KNOWN	CCDS3297	33705	441	146	190146444	190167665	-1	None	None
17	None	ENSG00000262265	ENST00000574021	sense_intronic	KNOWN	None	None	None	None	45238441	45239430	-1	None	None
HG79_PATCH	LCN1P1	ENSG00000261585	ENST00000563212	unprocessed_pseudogene	KNOWN	None	23412	None	None	136100292	136103978	-1	LCN1L1	bA430N14.2
HSCHR6_MHC_QBL	None	ENSG00000266646	ENST00000583430	snoRNA	KNOWN	None	None	None	None	31499156	31499233	-1	None	None
16	OR1F2P	ENSG00000203581	ENST00000570470	unprocessed_pseudogene	KNOWN	None	8196	None	None	3265611	3266543	1	OR1F3P, OR1F2	OLFMF2
16	OR1F2P	ENSG00000203581	ENST00000366390	pseudogene	KNOWN	None	8196	None	None	3265562	3266546	1	OR1F3P, OR1F2	OLFMF2
12	SUCLG2P2	ENSG00000236349	ENST00000307241	processed_pseudogene	KNOWN	None	43997	None	None	94942017	94943312	1	None	None
10	None	ENSG00000223746	ENST00000447108	processed_pseudogene	KNOWN	None	None	None	None	44236885	44237798	-1	None	None
9	None	ENSG00000229422	ENST00000417533	processed_pseudogene	KNOWN	None	None	None	None	66493572	66494196	-1	None	None
17	None	ENSG00000261872	ENST00000572193	antisense	KNOWN	None	None	None	None	45247192	45248415	1	None	None
12	RPL29P24	ENSG00000241030	ENST00000465434	processed_pseudogene	KNOWN	None	35616	None	None	120960467	120961246	-1	None	None
2	None	ENSG00000252004	ENST00000516195	miRNA	NOVEL	None	None	None	None	188607314	188607401	-1	None	None
6	CDKN1A	ENSG00000124762	ENST00000459970	processed_transcript	KNOWN	None	1784	None	None	36644305	36652288	1	CDKN1	P21, CIP1, WAF1, SDI1, CAP20, p21CIP1, p21Cip1/Waf1
6	CDKN1A	ENSG00000124762	ENST00000244741	protein_coding	KNOWN	CCDS4824	1784	495	164	36646435	36655116	1	CDKN1	P21, CIP1, WAF1, SDI1, CAP20, p21CIP1, p21Cip1/Waf1
6	CDKN1A	ENSG00000124762	ENST00000373711	protein_coding	KNOWN	CCDS4824	1784	495	164	36646498	36653701	1	CDKN1	P21, CIP1, WAF1, SDI1, CAP20, p21CIP1, p21Cip1/Waf1
6	CDKN1A	ENSG00000124762	ENST00000478800	processed_transcript	KNOWN	None	1784	None	None	36646503	36652275	1	CDKN1	P21, CIP1, WAF1, SDI1, CAP20, p21CIP1, p21Cip1/Waf1
6	CDKN1A	ENSG00000124762	ENST00000462537	processed_transcript	KNOWN	None	1784	None	None	36646548	36648634	1	CDKN1	P21, CIP1, WAF1, SDI1, CAP20, p21CIP1, p21Cip1/Waf1
6	CDKN1A	ENSG00000124762	ENST00000448526	protein_coding	KNOWN	None	1784	597	198	36645588	36654111	1	CDKN1	P21, CIP1, WAF1, SDI1, CAP20, p21CIP1, p21Cip1/Waf1
6	CDKN1A	ENSG00000124762	ENST00000405375	protein_coding	KNOWN	CCDS4824	1784	495	164	36646487	36655108	1	CDKN1	P21, CIP1, WAF1, SDI1, CAP20, p21CIP1, p21Cip1/Waf1
2	IQCA1	ENSG00000132321	ENST00000254653	nonsense_mediated_decay	KNOWN	None	26195	2040	679	237232794	237416175	-1	IQCA	FLJ22527
2	IQCA1	ENSG00000132321	ENST00000409907	protein_coding	KNOWN	CCDS46549	26195	2469	822	237232794	237416185	-1	IQCA	FLJ22527
2	IQCA1	ENSG00000132321	ENST00000409100	processed_transcript	KNOWN	None	26195	None	None	237233296	237255394	-1	IQCA	FLJ22527
2	IQCA1	ENSG00000132321	ENST00000479783	retained_intron	KNOWN	None	26195	None	None	237233314	237242006	-1	IQCA	FLJ22527
2	IQCA1	ENSG00000132321	ENST00000479471	retained_intron	KNOWN	None	26195	None	None	237233334	237240699	-1	IQCA	FLJ22527
2	IQCA1	ENSG00000132321	ENST00000418802	protein_coding	PUTATIVE	None	26195	1606	534	237285759	237412339	-1	IQCA	FLJ22527
2	IQCA1	ENSG00000132321	ENST00000467572	processed_transcript	KNOWN	None	26195	None	None	237289256	237321534	-1	IQCA	FLJ22527
2	IQCA1	ENSG00000132321	ENST00000465621	processed_transcript	KNOWN	None	26195	None	None	237300972	237363754	-1	IQCA	FLJ22527
2	IQCA1	ENSG00000132321	ENST00000431676	protein_coding	KNOWN	CCDS59441	26195	2346	781	237233240	237416100	-1	IQCA	FLJ22527
2	IQCA1	ENSG00000132321	ENST00000309507	protein_coding	KNOWN	None	26195	2460	819	237232796	237416092	-1	IQCA	FLJ22527
18	LINC00907	ENSG00000267586	ENST00000601948	lincRNA	KNOWN	None	44327	None	None	39739247	39806069	1	None	None
18	LINC00907	ENSG00000267586	ENST00000593234	lincRNA	KNOWN	None	44327	None	None	39766633	40039640	1	None	None
18	LINC00907	ENSG00000267586	ENST00000585627	lincRNA	KNOWN	None	44327	None	None	39766633	40098918	1	None	None
18	LINC00907	ENSG00000267586	ENST00000591199	lincRNA	KNOWN	None	44327	None	None	39766635	39870104	1	None	None
18	LINC00907	ENSG00000267586	ENST00000586990	lincRNA	KNOWN	None	44327	None	None	39766635	39917261	1	None	None
18	LINC00907	ENSG00000267586	ENST00000593051	lincRNA	KNOWN	None	44327	None	None	39766635	40042148	1	None	None
18	LINC00907	ENSG00000267586	ENST00000593316	lincRNA	KNOWN	None	44327	None	None	39766641	40013340	1	None	None
18	LINC00907	ENSG00000267586	ENST00000591381	lincRNA	KNOWN	None	44327	None	None	39766650	40096902	1	None	None
18	LINC00907	ENSG00000267586	ENST00000585639	lincRNA	KNOWN	None	44327	None	None	39766654	40113316	1	None	None
18	LINC00907	ENSG00000267586	ENST00000589068	lincRNA	KNOWN	None	44327	None	None	39766668	40271387	1	None	None
18	LINC00907	ENSG00000267586	ENST00000586447	lincRNA	KNOWN	None	44327	None	None	39805929	39813292	1	None	None
17	None	ENSG00000252088	ENST00000516279	snoRNA	NOVEL	None	None	None	None	45298008	45298091	1	None	None
2	ST13P2	ENSG00000235616	ENST00000438916	processed_pseudogene	KNOWN	None	38716	None	None	188690068	188691176	1	None	None
17	RNU7-186P	ENSG00000238419	ENST00000458818	snRNA	KNOWN	None	45720	None	None	45336724	45336786	-1	None	None
X	RNU6-382P	ENSG00000202051	ENST00000365181	snRNA	KNOWN	None	47345	None	None	146908797	146908902	1	None	None
1	None	ENSG00000223663	ENST00000435351	processed_pseudogene	KNOWN	None	None	None	None	1314046	1314412	1	None	None
9	MSANTD3	ENSG00000066697	ENST00000395067	protein_coding	KNOWN	CCDS6749	23370	828	275	103189438	103213511	1	C9orf30	MGC17337
9	MSANTD3	ENSG00000066697	ENST00000398977	protein_coding	KNOWN	None	23370	403	133	103189489	103204623	1	C9orf30	MGC17337
9	MSANTD3	ENSG00000066697	ENST00000374885	protein_coding	PUTATIVE	CCDS56579	23370	480	159	103189559	103212987	1	C9orf30	MGC17337
9	MSANTD3	ENSG00000066697	ENST00000374886	protein_coding	KNOWN	None	23370	543	180	103189719	103212963	1	C9orf30	MGC17337
9	MSANTD3	ENSG00000066697	ENST00000489377	processed_transcript	KNOWN	None	23370	None	None	103204431	103213511	1	C9orf30	MGC17337
8	DEFB104A	ENSG00000176782	ENST00000314265	protein_coding	KNOWN	CCDS34834	18115	219	72	7693993	7698764	1	DEFB104	DEFB4, DEFB-4
20	EFCAB8	ENSG00000215529	ENST00000400522	protein_coding	PUTATIVE	None	34532	1187	394	31446729	31494679	1	None	None
20	EFCAB8	ENSG00000215529	ENST00000533479	processed_transcript	KNOWN	None	34532	None	None	31486191	31491476	1	None	None
20	EFCAB8	ENSG00000215529	ENST00000439060	protein_coding	PUTATIVE	None	34532	1062	353	31499459	31519144	1	None	None
20	EFCAB8	ENSG00000215529	ENST00000524882	processed_transcript	KNOWN	None	34532	None	None	31504866	31508025	1	None	None
20	EFCAB8	ENSG00000215529	ENST00000457731	protein_coding	PUTATIVE	None	34532	302	99	31547651	31549006	1	None	None
3	None	ENSG00000236452	ENST00000455974	lincRNA	KNOWN	None	None	None	None	34244736	34310303	1	None	None
14	COX4I1P1	ENSG00000258956	ENST00000554239	processed_pseudogene	KNOWN	None	2266	None	None	62298579	62299087	-1	COX4P1, COX4L1	None
17	None	ENSG00000263293	ENST00000576345	antisense	KNOWN	None	None	None	None	45380832	45383051	-1	None	None
17	None	ENSG00000263293	ENST00000575039	antisense	KNOWN	None	None	None	None	45380840	45400979	-1	None	None
12	RPL11P5	ENSG00000242137	ENST00000495697	processed_pseudogene	KNOWN	None	36849	None	None	121031818	121032351	-1	None	None
2	None	ENSG00000213115	ENST00000392363	processed_pseudogene	KNOWN	None	None	None	None	189091916	189093109	1	None	None
15	None	ENSG00000200391	ENST00000363521	misc_RNA	NOVEL	None	None	None	None	44156091	44156203	-1	None	None
22	GRAP2	ENSG00000100351	ENST00000344138	protein_coding	KNOWN	CCDS13999	4563	993	330	40297086	40369725	1	None	Grf40, GrbX, GRBLG, GADS, Mona
22	GRAP2	ENSG00000100351	ENST00000420971	protein_coding	KNOWN	None	4563	291	96	40322595	40356179	1	None	Grf40, GrbX, GRBLG, GADS, Mona
22	GRAP2	ENSG00000100351	ENST00000478445	processed_transcript	KNOWN	None	4563	None	None	40322607	40362113	1	None	Grf40, GrbX, GRBLG, GADS, Mona
22	GRAP2	ENSG00000100351	ENST00000461082	retained_intron	KNOWN	None	4563	None	None	40322653	40344485	1	None	Grf40, GrbX, GRBLG, GADS, Mona
22	GRAP2	ENSG00000100351	ENST00000407075	protein_coding	KNOWN	CCDS13999	4563	993	330	40342821	40367109	1	None	Grf40, GrbX, GRBLG, GADS, Mona
22	GRAP2	ENSG00000100351	ENST00000481263	retained_intron	KNOWN	None	4563	None	None	40362054	40364700	1	None	Grf40, GrbX, GRBLG, GADS, Mona
22	GRAP2	ENSG00000100351	ENST00000460449	retained_intron	KNOWN	None	4563	None	None	40365379	40367191	1	None	Grf40, GrbX, GRBLG, GADS, Mona
22	GRAP2	ENSG00000100351	ENST00000540310	protein_coding	KNOWN	None	4563	795	264	40297113	40367442	1	None	Grf40, GrbX, GRBLG, GADS, Mona
22	GRAP2	ENSG00000100351	ENST00000543252	protein_coding	KNOWN	None	4563	837	278	40297086	40367088	1	None	Grf40, GrbX, GRBLG, GADS, Mona
22	GRAP2	ENSG00000100351	ENST00000399090	protein_coding	KNOWN	None	4563	654	217	40322641	40367283	1	None	Grf40, GrbX, GRBLG, GADS, Mona
22	GRAP2	ENSG00000100351	ENST00000544756	protein_coding	KNOWN	None	4563	777	258	40322610	40367350	1	None	Grf40, GrbX, GRBLG, GADS, Mona
12	DTX1	ENSG00000135144	ENST00000548759	processed_transcript	PUTATIVE	None	3060	None	None	113494514	113495957	1	None	hDx-1
12	DTX1	ENSG00000135144	ENST00000257600	protein_coding	KNOWN	CCDS9164	3060	1863	620	113495495	113535833	1	None	hDx-1
12	DTX1	ENSG00000135144	ENST00000547974	processed_transcript	KNOWN	None	3060	None	None	113527671	113535802	1	None	hDx-1
12	DTX1	ENSG00000135144	ENST00000553140	processed_transcript	PUTATIVE	None	3060	None	None	113531295	113532752	1	None	hDx-1
12	DTX1	ENSG00000135144	ENST00000547730	processed_transcript	KNOWN	None	3060	None	None	113532845	113533428	1	None	hDx-1
11	None	ENSG00000240975	ENST00000486306	processed_pseudogene	KNOWN	None	None	None	None	39183003	39183517	1	None	None
17	C17orf97	ENSG00000187624	ENST00000360127	protein_coding	KNOWN	CCDS32519	33800	1272	423	260118	264457	1	None	LOC400566
17	C17orf97	ENSG00000187624	ENST00000571106	protein_coding	PUTATIVE	None	33800	462	153	260128	270888	1	None	LOC400566
17	C17orf97	ENSG00000187624	ENST00000491373	protein_coding	PUTATIVE	None	33800	630	209	260152	264096	1	None	LOC400566
17	C17orf97	ENSG00000187624	ENST00000575151	nonsense_mediated_decay	KNOWN	None	33800	21	6	263886	273510	1	None	LOC400566
5	RN7SKP89	ENSG00000222706	ENST00000410774	misc_RNA	KNOWN	None	45813	None	None	113589210	113589451	1	None	None
3	RNU6-25P	ENSG00000206600	ENST00000383873	snRNA	KNOWN	None	34251	None	None	194935516	194935622	1	RNU6-25	None
X	WASIR1	ENSG00000185203	ENST00000399966	antisense	KNOWN	None	38513	None	None	155244288	155246502	-1	NCRNA00286B	None
2	RNA5SP114	ENSG00000200650	ENST00000363780	rRNA	KNOWN	None	42912	None	None	189141459	189141571	-1	RN5S114	None
X	None	ENSG00000227083	ENST00000456072	antisense	KNOWN	None	None	None	None	146981696	146982977	-1	None	None
3	ACAP2-IT1	ENSG00000229325	ENST00000419899	sense_intronic	KNOWN	None	41426	None	None	195001452	195003470	-1	None	None
7	VPS37D	ENSG00000176428	ENST00000324941	protein_coding	KNOWN	CCDS43596	18287	756	251	73082155	73086440	1	WBSCR24	MGC35352
7	VPS37D	ENSG00000176428	ENST00000451519	protein_coding	NOVEL	None	18287	501	166	73082223	73086442	1	WBSCR24	MGC35352
2	MIR561	ENSG00000207951	ENST00000385216	miRNA	KNOWN	None	32817	None	None	189162219	189162315	1	MIRN561	hsa-mir-561
5	None	ENSG00000246316	ENST00000514115	antisense	KNOWN	None	None	None	None	113824694	114004107	-1	None	None
5	None	ENSG00000246316	ENST00000506265	antisense	KNOWN	None	None	None	None	113998658	114004103	-1	None	None
17	None	ENSG00000253347	ENST00000523101	antisense	KNOWN	None	None	None	None	45486688	45500892	-1	None	None
1	NPHP4	ENSG00000131697	ENST00000460696	retained_intron	KNOWN	None	19104	None	None	5922871	5927712	-1	None	SLSN4, KIAA0673, POC10
1	NPHP4	ENSG00000131697	ENST00000378161	retained_intron	KNOWN	None	19104	None	None	5922871	5928435	-1	None	SLSN4, KIAA0673, POC10
1	NPHP4	ENSG00000131697	ENST00000478423	processed_transcript	KNOWN	None	19104	None	None	5922871	6052484	-1	None	SLSN4, KIAA0673, POC10
1	NPHP4	ENSG00000131697	ENST00000489180	nonsense_mediated_decay	KNOWN	None	19104	2736	911	5922873	6052533	-1	None	SLSN4, KIAA0673, POC10
1	NPHP4	ENSG00000131697	ENST00000378156	protein_coding	KNOWN	CCDS44052	19104	4281	1426	5922878	6052531	-1	None	SLSN4, KIAA0673, POC10
1	NPHP4	ENSG00000131697	ENST00000378169	nonsense_mediated_decay	KNOWN	None	19104	789	262	5923325	6052507	-1	None	SLSN4, KIAA0673, POC10
1	NPHP4	ENSG00000131697	ENST00000468253	retained_intron	KNOWN	None	19104	None	None	5927142	5933901	-1	None	SLSN4, KIAA0673, POC10
1	NPHP4	ENSG00000131697	ENST00000506941	retained_intron	KNOWN	None	19104	None	None	5934965	5937526	-1	None	SLSN4, KIAA0673, POC10
1	NPHP4	ENSG00000131697	ENST00000470763	retained_intron	KNOWN	None	19104	None	None	5936939	5942909	-1	None	SLSN4, KIAA0673, POC10
1	NPHP4	ENSG00000131697	ENST00000466897	nonsense_mediated_decay	KNOWN	None	19104	415	137	5946555	5965384	-1	None	SLSN4, KIAA0673, POC10
14	None	ENSG00000258842	ENST00000553990	lincRNA	KNOWN	None	None	None	None	62536236	62547872	-1	None	None
17	ENO3	ENSG00000108515	ENST00000519266	protein_coding	KNOWN	None	3354	85	27	4851387	4855209	1	None	None
17	ENO3	ENSG00000108515	ENST00000520221	protein_coding	KNOWN	None	3354	590	195	4851547	4858515	1	None	None
17	ENO3	ENSG00000108515	ENST00000522798	protein_coding	KNOWN	None	3354	444	147	4852472	4857140	1	None	None
17	ENO3	ENSG00000108515	ENST00000522301	protein_coding	KNOWN	None	3354	638	211	4853485	4858563	1	None	None
17	ENO3	ENSG00000108515	ENST00000521811	protein_coding	KNOWN	None	3354	444	147	4854375	4857140	1	None	None
17	ENO3	ENSG00000108515	ENST00000519602	protein_coding	KNOWN	None	3354	849	282	4854384	4858883	1	None	None
17	ENO3	ENSG00000108515	ENST00000323997	protein_coding	KNOWN	CCDS11062	3354	1305	434	4854390	4860426	1	None	None
17	ENO3	ENSG00000108515	ENST00000518972	retained_intron	KNOWN	None	3354	None	None	4854414	4855642	1	None	None
17	ENO3	ENSG00000108515	ENST00000571235	retained_intron	KNOWN	None	3354	None	None	4854414	4856497	1	None	None
17	ENO3	ENSG00000108515	ENST00000519834	retained_intron	KNOWN	None	3354	None	None	4854414	4857520	1	None	None
17	ENO3	ENSG00000108515	ENST00000522249	protein_coding	KNOWN	None	3354	463	153	4854414	4858388	1	None	None
17	ENO3	ENSG00000108515	ENST00000521659	nonsense_mediated_decay	KNOWN	None	3354	177	58	4854414	4859157	1	None	None
17	ENO3	ENSG00000108515	ENST00000519584	protein_coding	KNOWN	CCDS54070	3354	1176	391	4854414	4860422	1	None	None
17	ENO3	ENSG00000108515	ENST00000519300	retained_intron	KNOWN	None	3354	None	None	4854436	4855561	1	None	None
17	ENO3	ENSG00000108515	ENST00000518175	protein_coding	KNOWN	CCDS11062	3354	1305	434	4855053	4860413	1	None	None
17	ENO3	ENSG00000108515	ENST00000522425	retained_intron	KNOWN	None	3354	None	None	4859095	4860422	1	None	None
17	ENO3	ENSG00000108515	ENST00000522954	retained_intron	KNOWN	None	3354	None	None	4859462	4860424	1	None	None
2	None	ENSG00000223523	ENST00000431708	sense_overlapping	KNOWN	None	None	None	None	189463518	189704171	-1	None	None
12	None	ENSG00000256008	ENST00000544339	antisense	KNOWN	None	None	None	None	121067908	121077956	-1	None	None
12	None	ENSG00000256008	ENST00000540369	antisense	KNOWN	None	None	None	None	121067967	121079394	-1	None	None
3	None	ENSG00000227498	ENST00000442567	lincRNA	KNOWN	None	None	None	None	34566310	34585372	-1	None	None
2	POLR1B	ENSG00000125630	ENST00000263331	protein_coding	KNOWN	CCDS2097	20454	3408	1135	113299492	113333876	1	None	Rpo1-2, FLJ21921, FLJ10816, RPA2
2	POLR1B	ENSG00000125630	ENST00000438748	protein_coding	KNOWN	None	20454	386	127	113299596	113305038	1	None	Rpo1-2, FLJ21921, FLJ10816, RPA2
2	POLR1B	ENSG00000125630	ENST00000430769	protein_coding	KNOWN	None	20454	342	113	113299613	113304753	1	None	Rpo1-2, FLJ21921, FLJ10816, RPA2
2	POLR1B	ENSG00000125630	ENST00000333990	nonsense_mediated_decay	KNOWN	None	20454	222	73	113299766	113333876	1	None	Rpo1-2, FLJ21921, FLJ10816, RPA2
2	POLR1B	ENSG00000125630	ENST00000409894	protein_coding	NOVEL	None	20454	2859	952	113299803	113334635	1	None	Rpo1-2, FLJ21921, FLJ10816, RPA2
2	POLR1B	ENSG00000125630	ENST00000448770	nonsense_mediated_decay	KNOWN	None	20454	318	105	113299851	113333606	1	None	Rpo1-2, FLJ21921, FLJ10816, RPA2
2	POLR1B	ENSG00000125630	ENST00000430293	nonsense_mediated_decay	KNOWN	None	20454	198	65	113299996	113309556	1	None	Rpo1-2, FLJ21921, FLJ10816, RPA2
2	POLR1B	ENSG00000125630	ENST00000424062	nonsense_mediated_decay	KNOWN	None	20454	279	92	113300027	113306935	1	None	Rpo1-2, FLJ21921, FLJ10816, RPA2
2	POLR1B	ENSG00000125630	ENST00000417433	protein_coding	NOVEL	CCDS46395	20454	3240	1079	113300042	113333872	1	None	Rpo1-2, FLJ21921, FLJ10816, RPA2
2	POLR1B	ENSG00000125630	ENST00000496238	processed_transcript	KNOWN	None	20454	None	None	113300252	113306937	1	None	Rpo1-2, FLJ21921, FLJ10816, RPA2
2	POLR1B	ENSG00000125630	ENST00000468475	retained_intron	KNOWN	None	20454	None	None	113304511	113308485	1	None	Rpo1-2, FLJ21921, FLJ10816, RPA2
2	POLR1B	ENSG00000125630	ENST00000475318	retained_intron	KNOWN	None	20454	None	None	113308284	113310381	1	None	Rpo1-2, FLJ21921, FLJ10816, RPA2
2	POLR1B	ENSG00000125630	ENST00000498054	processed_transcript	KNOWN	None	20454	None	None	113310962	113316972	1	None	Rpo1-2, FLJ21921, FLJ10816, RPA2
2	POLR1B	ENSG00000125630	ENST00000484574	retained_intron	KNOWN	None	20454	None	None	113321891	113330175	1	None	Rpo1-2, FLJ21921, FLJ10816, RPA2
2	POLR1B	ENSG00000125630	ENST00000458012	protein_coding	NOVEL	None	20454	923	306	113321939	113332666	1	None	Rpo1-2, FLJ21921, FLJ10816, RPA2
2	POLR1B	ENSG00000125630	ENST00000541869	protein_coding	KNOWN	None	20454	3522	1173	113299613	113333727	1	None	Rpo1-2, FLJ21921, FLJ10816, RPA2
2	POLR1B	ENSG00000125630	ENST00000537335	protein_coding	KNOWN	None	20454	2775	924	113300020	113333437	1	None	Rpo1-2, FLJ21921, FLJ10816, RPA2
15	SNORD115-19	ENSG00000199968	ENST00000363098	snoRNA	KNOWN	None	33038	None	None	25449504	25449585	1	None	HBII-52-19
8	None	ENSG00000255361	ENST00000530523	processed_pseudogene	KNOWN	None	None	None	None	42580690	42581371	-1	None	None
8	None	ENSG00000253754	ENST00000520037	antisense	KNOWN	None	None	None	None	109238429	109239773	1	None	None
X	HTATSF1	ENSG00000102241	ENST00000448450	protein_coding	KNOWN	None	5276	734	243	135579380	135585100	1	None	TAT-SF1
X	HTATSF1	ENSG00000102241	ENST00000425695	protein_coding	KNOWN	None	5276	670	222	135579393	135585036	1	None	TAT-SF1
X	HTATSF1	ENSG00000102241	ENST00000218364	protein_coding	KNOWN	CCDS14657	5276	2268	755	135579670	135594505	1	None	TAT-SF1
X	HTATSF1	ENSG00000102241	ENST00000535601	protein_coding	KNOWN	CCDS14657	5276	2268	755	135579238	135594501	1	None	TAT-SF1
17	C17orf77	ENSG00000182352	ENST00000524389	protein_coding	KNOWN	None	26480	115	37	72580818	72588300	1	None	FLJ31882
17	C17orf77	ENSG00000182352	ENST00000392620	protein_coding	KNOWN	CCDS32721	26480	732	243	72581057	72590348	1	None	FLJ31882
17	C17orf77	ENSG00000182352	ENST00000328023	protein_coding	KNOWN	CCDS32721	26480	732	243	72586641	72590348	1	None	FLJ31882
3	None	ENSG00000241882	ENST00000496247	lincRNA	KNOWN	None	None	None	None	168006341	168009016	1	None	None
8	RPS17P14	ENSG00000243287	ENST00000382740	processed_pseudogene	KNOWN	None	35534	None	None	109391060	109391774	-1	None	None
19	None	ENSG00000267880	ENST00000594218	protein_coding	NOVEL	None	None	60	19	51377552	51378040	-1	None	None
X	FMR1-AS1	ENSG00000268066	ENST00000594922	antisense	KNOWN	None	39081	None	None	146990949	146993335	-1	FMR1AS, FMR1-AS	ASFMR1, FMR4
X	FMR1-AS1	ENSG00000268066	ENST00000596112	antisense	KNOWN	None	39081	None	None	146990949	146993335	-1	FMR1AS, FMR1-AS	ASFMR1, FMR4
X	FMR1-AS1	ENSG00000268066	ENST00000601841	retained_intron	KNOWN	None	39081	None	None	146990949	146993335	-1	FMR1AS, FMR1-AS	ASFMR1, FMR4
X	FMR1-AS1	ENSG00000268066	ENST00000598667	antisense	KNOWN	None	39081	None	None	146990949	146993335	-1	FMR1AS, FMR1-AS	ASFMR1, FMR4
2	None	ENSG00000236516	ENST00000451959	processed_pseudogene	KNOWN	None	None	None	None	132056793	132058017	-1	None	None
12	PIANP	ENSG00000139200	ENST00000540656	protein_coding	KNOWN	CCDS44818	25338	849	282	6802958	6809596	-1	C12orf53	DKFZp547D2210, PANP
12	PIANP	ENSG00000139200	ENST00000320591	protein_coding	KNOWN	CCDS44818	25338	849	282	6802958	6809966	-1	C12orf53	DKFZp547D2210, PANP
12	PIANP	ENSG00000139200	ENST00000534837	protein_coding	KNOWN	CCDS58205	25338	831	276	6802958	6809966	-1	C12orf53	DKFZp547D2210, PANP
12	PIANP	ENSG00000139200	ENST00000545917	protein_coding	PUTATIVE	None	25338	515	170	6806461	6809155	-1	C12orf53	DKFZp547D2210, PANP
12	PIANP	ENSG00000139200	ENST00000542740	protein_coding	PUTATIVE	None	25338	332	109	6806644	6807472	-1	C12orf53	DKFZp547D2210, PANP
12	PIANP	ENSG00000139200	ENST00000536467	protein_coding	PUTATIVE	None	25338	230	75	6806746	6807639	-1	C12orf53	DKFZp547D2210, PANP
3	None	ENSG00000227433	ENST00000434369	processed_pseudogene	KNOWN	None	None	None	None	195070393	195070759	1	None	None
22	YME1L1P1	ENSG00000236831	ENST00000429435	unprocessed_pseudogene	KNOWN	None	12844	None	None	16485399	16487973	-1	YME1L2	None
17	MRPL45P2	ENSG00000228782	ENST00000425159	processed_transcript	KNOWN	None	29716	None	None	45527934	45569858	-1	None	None
17	MRPL45P2	ENSG00000228782	ENST00000575291	processed_transcript	KNOWN	None	29716	None	None	45532474	45569836	-1	None	None
17	MRPL45P2	ENSG00000228782	ENST00000572695	processed_transcript	KNOWN	None	29716	None	None	45532734	45567584	-1	None	None
17	MRPL45P2	ENSG00000228782	ENST00000573318	transcribed_unprocessed_pseudogene	KNOWN	None	29716	None	None	45560358	45569825	-1	None	None
2	MIR1245A	ENSG00000221502	ENST00000408575	miRNA	KNOWN	None	35311	None	None	189842818	189842887	1	MIRN1245, MIR1245	hsa-mir-1245
15	PIN4P1	ENSG00000227973	ENST00000451079	processed_pseudogene	KNOWN	None	44193	None	None	44168047	44168442	-1	None	None
HSCHR16_2_CTG3_1	None	ENSG00000262579	ENST00000572460	snRNA	NOVEL	None	None	None	None	69209565	69209671	-1	None	None
2	None	ENSG00000228073	ENST00000419029	antisense	KNOWN	None	None	None	None	189959789	189960884	1	None	None
16	None	ENSG00000262899	ENST00000574245	antisense	KNOWN	None	None	None	None	3357573	3358393	-1	None	None
2	None	ENSG00000231031	ENST00000492352	processed_transcript	KNOWN	None	None	None	None	15830906	15859085	1	None	None
2	None	ENSG00000231031	ENST00000436967	protein_coding	PUTATIVE	None	None	364	120	15840525	15884463	1	None	None
2	None	ENSG00000231031	ENST00000476839	processed_transcript	KNOWN	None	None	None	None	15840655	15855755	1	None	None
14	None	ENSG00000258876	ENST00000553732	lincRNA	KNOWN	None	None	None	None	76437267	76437930	1	None	None
2	ARHGAP42P1	ENSG00000227817	ENST00000507474	unprocessed_pseudogene	KNOWN	None	43940	None	None	132085749	132088430	-1	None	None
4	C4orf33	ENSG00000151470	ENST00000281146	protein_coding	KNOWN	CCDS3741	27025	600	199	130014472	130034487	1	None	FLJ33703
4	C4orf33	ENSG00000151470	ENST00000502887	protein_coding	NOVEL	None	27025	498	165	130014855	130031121	1	None	FLJ33703
4	C4orf33	ENSG00000151470	ENST00000502360	retained_intron	KNOWN	None	27025	None	None	130017282	130024192	1	None	FLJ33703
4	C4orf33	ENSG00000151470	ENST00000508673	protein_coding	NOVEL	None	27025	306	101	130017284	130030691	1	None	FLJ33703
4	C4orf33	ENSG00000151470	ENST00000508622	protein_coding	KNOWN	None	27025	194	63	130017325	130027754	1	None	FLJ33703
4	C4orf33	ENSG00000151470	ENST00000425929	protein_coding	KNOWN	CCDS3741	27025	600	199	130017282	130033842	1	None	FLJ33703
12	None	ENSG00000256364	ENST00000541383	antisense	KNOWN	None	None	None	None	121134927	121137304	-1	None	None
12	None	ENSG00000256364	ENST00000535720	antisense	KNOWN	None	None	None	None	121136067	121137344	-1	None	None
HSCHR6_MHC_APD	PPT2	ENSG00000236649	ENST00000416892	protein_coding	KNOWN	None	9326	541	179	32132559	32135096	1	None	None
HSCHR6_MHC_APD	PPT2	ENSG00000236649	ENST00000412651	protein_coding	KNOWN	None	9326	927	308	32132641	32142798	1	None	None
HSCHR6_MHC_APD	PPT2	ENSG00000236649	ENST00000494265	processed_transcript	KNOWN	None	9326	None	None	32132660	32136968	1	None	None
HSCHR6_MHC_APD	PPT2	ENSG00000236649	ENST00000457509	protein_coding	KNOWN	None	9326	909	302	32132695	32142798	1	None	None
HSCHR6_MHC_APD	PPT2	ENSG00000236649	ENST00000488579	nonsense_mediated_decay	KNOWN	None	9326	906	301	32132963	32147402	1	None	None
HSCHR6_MHC_APD	PPT2	ENSG00000236649	ENST00000440533	protein_coding	KNOWN	None	9326	909	302	32133213	32142798	1	None	None
HSCHR6_MHC_APD	PPT2	ENSG00000236649	ENST00000445462	protein_coding	KNOWN	None	9326	909	302	32133256	32142798	1	None	None
HSCHR6_MHC_APD	PPT2	ENSG00000236649	ENST00000418283	protein_coding	KNOWN	None	9326	476	157	32133285	32137043	1	None	None
HSCHR6_MHC_APD	PPT2	ENSG00000236649	ENST00000486923	processed_transcript	KNOWN	None	9326	None	None	32133315	32141716	1	None	None
HSCHR6_MHC_APD	PPT2	ENSG00000236649	ENST00000480383	nonsense_mediated_decay	KNOWN	None	9326	906	301	32133340	32151099	1	None	None
HSCHR6_MHC_APD	PPT2	ENSG00000236649	ENST00000451460	protein_coding	KNOWN	None	9326	601	199	32133584	32136815	1	None	None
HSCHR6_MHC_APD	PPT2	ENSG00000236649	ENST00000413836	protein_coding	KNOWN	None	9326	279	92	32133596	32134901	1	None	None
HSCHR6_MHC_APD	PPT2	ENSG00000236649	ENST00000460990	processed_transcript	PUTATIVE	None	9326	None	None	32134136	32134877	1	None	None
HSCHR6_MHC_APD	PPT2	ENSG00000236649	ENST00000489122	retained_intron	KNOWN	None	9326	None	None	32136229	32143775	1	None	None
HSCHR6_MHC_APD	PPT2	ENSG00000236649	ENST00000491244	retained_intron	KNOWN	None	9326	None	None	32136609	32137441	1	None	None
HSCHR6_MHC_APD	PPT2	ENSG00000236649	ENST00000483803	nonsense_mediated_decay	KNOWN	None	9326	383	126	32136762	32146126	1	None	None
HSCHR6_MHC_APD	PPT2	ENSG00000236649	ENST00000547565	protein_coding	KNOWN	None	9326	906	301	32132963	32145320	1	None	None
HSCHR6_MHC_APD	PPT2	ENSG00000236649	ENST00000550796	protein_coding	KNOWN	None	9326	909	302	32132963	32142795	1	None	None
HSCHR6_MHC_APD	PPT2	ENSG00000236649	ENST00000550232	protein_coding	KNOWN	None	9326	882	293	32143748	32147406	1	None	None
5	None	ENSG00000251542	ENST00000506392	lincRNA	KNOWN	None	None	None	None	113911738	113915667	1	None	None
2	MIR3129	ENSG00000264725	ENST00000581095	miRNA	KNOWN	None	38217	None	None	189997762	189997837	-1	None	hsa-mir-3129
GL000211.1	None	ENSG00000252596	ENST00000516787	snRNA	NOVEL	None	None	None	None	113982	114087	1	None	None
1	RN7SL657P	ENSG00000264293	ENST00000582431	misc_RNA	KNOWN	None	46673	None	None	1340841	1341132	-1	None	None
22	None	ENSG00000265406	ENST00000583607	miRNA	NOVEL	None	None	None	None	16569924	16570006	-1	None	None
5	None	ENSG00000269027	ENST00000594869	protein_coding	NOVEL	None	None	48	15	35051012	35051198	1	None	None
HSCHR16_2_CTG3_1	None	ENSG00000262354	ENST00000572722	misc_RNA	NOVEL	None	None	None	None	69225018	69225118	1	None	None
14	None	ENSG00000258903	ENST00000554252	lincRNA	KNOWN	None	None	None	None	62570096	62583893	-1	None	None
2	KRT18P19	ENSG00000213601	ENST00000395181	processed_pseudogene	KNOWN	None	33387	None	None	190175989	190176693	-1	None	None
7	None	ENSG00000224448	ENST00000455459	processed_pseudogene	KNOWN	None	None	None	None	99235865	99236390	-1	None	None
3	RNU2-20P	ENSG00000222357	ENST00000410425	snRNA	KNOWN	None	48513	None	None	168192986	168193176	1	None	None
16	None	ENSG00000262554	ENST00000571388	transcribed_processed_pseudogene	KNOWN	None	None	None	None	3358609	3358816	1	None	None
3	None	ENSG00000207368	ENST00000384638	misc_RNA	NOVEL	None	None	None	None	195140165	195140275	-1	None	None
14	None	ENSG00000258808	ENST00000556762	lincRNA	KNOWN	None	None	None	None	51858846	51863853	-1	None	None
1	NBL1	ENSG00000158747	ENST00000428975	protein_coding	KNOWN	None	7650	351	116	19967048	19983427	1	None	D1S1733E, NB, DAN, NO3, DAND1
1	NBL1	ENSG00000158747	ENST00000289749	protein_coding	KNOWN	CCDS41278	7650	651	216	19969726	19983622	1	None	D1S1733E, NB, DAN, NO3, DAND1
1	NBL1	ENSG00000158747	ENST00000451758	protein_coding	KNOWN	None	7650	386	127	19969903	19983462	1	None	D1S1733E, NB, DAN, NO3, DAND1
1	NBL1	ENSG00000158747	ENST00000439664	protein_coding	KNOWN	None	7650	328	108	19970208	19983404	1	None	D1S1733E, NB, DAN, NO3, DAND1
1	NBL1	ENSG00000158747	ENST00000375136	protein_coding	KNOWN	CCDS196	7650	546	181	19970657	19984945	1	None	D1S1733E, NB, DAN, NO3, DAND1
1	NBL1	ENSG00000158747	ENST00000425400	protein_coding	KNOWN	None	7650	350	115	19971866	19983426	1	None	D1S1733E, NB, DAN, NO3, DAND1
1	NBL1	ENSG00000158747	ENST00000439278	protein_coding	NOVEL	None	7650	385	127	19972260	19981929	1	None	D1S1733E, NB, DAN, NO3, DAND1
1	NBL1	ENSG00000158747	ENST00000427894	protein_coding	KNOWN	None	7650	490	162	19974104	19983569	1	None	D1S1733E, NB, DAN, NO3, DAND1
1	NBL1	ENSG00000158747	ENST00000548815	protein_coding	KNOWN	None	7650	543	180	19970808	19984945	1	None	D1S1733E, NB, DAN, NO3, DAND1
2	None	ENSG00000266817	ENST00000579501	miRNA	NOVEL	None	None	None	None	190176397	190176487	-1	None	None
3	RNU6ATAC24P	ENSG00000252620	ENST00000516811	snRNA	KNOWN	None	46923	None	None	195249885	195250019	-1	None	None
15	None	ENSG00000259245	ENST00000560056	lincRNA	KNOWN	None	None	None	None	36338283	36341730	1	None	None
2	None	ENSG00000233996	ENST00000449965	processed_pseudogene	KNOWN	None	None	None	None	190351206	190352718	-1	None	None
7	TRIM60P18	ENSG00000227986	ENST00000441518	unprocessed_pseudogene	KNOWN	None	38490	None	None	63815456	63816577	1	None	None
12	None	ENSG00000256569	ENST00000544939	antisense	KNOWN	None	None	None	None	121159310	121161442	-1	None	None
5	None	ENSG00000251132	ENST00000509718	lincRNA	KNOWN	None	None	None	None	114366970	114367591	-1	None	None
X	None	ENSG00000231513	ENST00000468625	processed_pseudogene	KNOWN	None	None	None	None	135179994	135180507	-1	None	None
6	SERPINB9	ENSG00000170542	ENST00000380698	protein_coding	KNOWN	CCDS4478	8955	1131	376	2887500	2903514	-1	PI9	CAP3
12	MIR5700	ENSG00000266099	ENST00000582250	miRNA	KNOWN	None	43521	None	None	94955565	94955635	1	None	hsa-mir-5700
5	None	ENSG00000250242	ENST00000515822	lincRNA	KNOWN	None	None	None	None	114423589	114424172	-1	None	None
7	None	ENSG00000232727	ENST00000453697	processed_pseudogene	KNOWN	None	None	None	None	63894208	63894970	1	None	None
HG186_PATCH	RBM15B	ENSG00000259956	ENST00000563281	protein_coding	NOVEL	None	24303	2673	890	51428699	51435339	1	None	HUMAGCGB, OTT3
14	None	ENSG00000259796	ENST00000568344	sense_overlapping	KNOWN	None	None	None	None	62577593	62579268	1	None	None
2	None	ENSG00000224425	ENST00000417338	processed_pseudogene	KNOWN	None	None	None	None	132109787	132110812	-1	None	None
9	PTGER4P2	ENSG00000184523	ENST00000328411	processed_pseudogene	KNOWN	None	9598	None	None	66499743	66499994	1	None	None
3	None	ENSG00000223711	ENST00000426109	antisense	KNOWN	None	None	None	None	195270871	195273479	1	None	None
3	None	ENSG00000223711	ENST00000417011	antisense	KNOWN	None	None	None	None	195273222	195277400	1	None	None
3	None	ENSG00000223711	ENST00000415451	antisense	KNOWN	None	None	None	None	195273419	195274285	1	None	None
3	JAGN1	ENSG00000171135	ENST00000307768	protein_coding	KNOWN	CCDS2588	26926	552	183	9932238	9936033	1	None	GL009, FLJ14602
3	JAGN1	ENSG00000171135	ENST00000489724	processed_transcript	KNOWN	None	26926	None	None	9932317	9934655	1	None	GL009, FLJ14602
1	None	ENSG00000272455	ENST00000607307	lincRNA	KNOWN	None	None	None	None	1344476	1345998	1	None	None
7	None	ENSG00000221487	ENST00000408560	miRNA	NOVEL	None	None	None	None	99310660	99310775	1	None	None
2	None	ENSG00000223249	ENST00000411317	misc_RNA	NOVEL	None	None	None	None	190618190	190618285	1	None	None
8	None	ENSG00000253125	ENST00000523627	antisense	KNOWN	None	None	None	None	22547663	22656129	1	None	None
8	None	ENSG00000253125	ENST00000519624	retained_intron	KNOWN	None	None	None	None	22602131	22603250	1	None	None
8	None	ENSG00000253125	ENST00000521141	antisense	KNOWN	None	None	None	None	22605016	22615705	1	None	None
5	None	ENSG00000200065	ENST00000363195	misc_RNA	NOVEL	None	None	None	None	32134844	32134940	1	None	None
17	LIMD2	ENSG00000136490	ENST00000259006	protein_coding	KNOWN	CCDS11641	28142	384	127	61773262	61777500	-1	None	MGC10986
17	LIMD2	ENSG00000136490	ENST00000578067	retained_intron	KNOWN	None	28142	None	None	61775176	61777468	-1	None	MGC10986
17	LIMD2	ENSG00000136490	ENST00000578402	protein_coding	KNOWN	CCDS11641	28142	384	127	61775176	61778045	-1	None	MGC10986
17	LIMD2	ENSG00000136490	ENST00000583211	protein_coding	PUTATIVE	None	28142	237	78	61775193	61777492	-1	None	MGC10986
17	LIMD2	ENSG00000136490	ENST00000580222	nonsense_mediated_decay	KNOWN	None	28142	237	78	61775549	61777473	-1	None	MGC10986
17	LIMD2	ENSG00000136490	ENST00000579329	retained_intron	KNOWN	None	28142	None	None	61775616	61776722	-1	None	MGC10986
17	LIMD2	ENSG00000136490	ENST00000578061	protein_coding	KNOWN	CCDS11641	28142	384	127	61775649	61777221	-1	None	MGC10986
17	LIMD2	ENSG00000136490	ENST00000578993	protein_coding	NOVEL	None	28142	264	87	61775695	61777462	-1	None	MGC10986
17	LIMD2	ENSG00000136490	ENST00000579814	retained_intron	KNOWN	None	28142	None	None	61775827	61777492	-1	None	MGC10986
17	LIMD2	ENSG00000136490	ENST00000582055	protein_coding	PUTATIVE	None	28142	237	78	61775838	61776522	-1	None	MGC10986
17	LIMD2	ENSG00000136490	ENST00000578297	retained_intron	KNOWN	None	28142	None	None	61775858	61776704	-1	None	MGC10986
17	LIMD2	ENSG00000136490	ENST00000584645	protein_coding	KNOWN	None	28142	327	108	61775969	61778532	-1	None	MGC10986
16	None	ENSG00000262316	ENST00000572039	processed_pseudogene	KNOWN	None	None	None	None	3373192	3373925	-1	None	None
9	ZNF782	ENSG00000196597	ENST00000481138	protein_coding	KNOWN	CCDS35075	33110	2100	699	99578754	99616770	-1	None	FLJ16636
9	ZNF782	ENSG00000196597	ENST00000289032	protein_coding	NOVEL	None	33110	2065	687	99579915	99637856	-1	None	FLJ16636
9	ZNF782	ENSG00000196597	ENST00000466833	processed_transcript	KNOWN	None	33110	None	None	99581690	99616465	-1	None	FLJ16636
9	ZNF782	ENSG00000196597	ENST00000478850	protein_coding	KNOWN	None	33110	615	204	99581690	99616642	-1	None	FLJ16636
9	ZNF782	ENSG00000196597	ENST00000430274	retained_intron	KNOWN	None	33110	None	None	99607203	99616559	-1	None	FLJ16636
9	ZNF782	ENSG00000196597	ENST00000498811	nonsense_mediated_decay	KNOWN	None	33110	135	44	99607228	99637905	-1	None	FLJ16636
9	ZNF782	ENSG00000196597	ENST00000485322	processed_transcript	KNOWN	None	33110	None	None	99615265	99616642	-1	None	FLJ16636
9	ZNF782	ENSG00000196597	ENST00000535338	protein_coding	KNOWN	None	33110	1704	567	99579915	99637856	-1	None	FLJ16636
7	None	ENSG00000261511	ENST00000562436	unprocessed_pseudogene	KNOWN	None	None	None	None	99417641	99417709	1	None	None
15	None	ENSG00000259395	ENST00000561236	lincRNA	KNOWN	None	None	None	None	36633940	36636367	1	None	None
2	OSGEPL1-AS1	ENSG00000253559	ENST00000520651	antisense	KNOWN	None	41009	None	None	190627430	190630282	1	None	None
2	OSGEPL1-AS1	ENSG00000253559	ENST00000521819	antisense	KNOWN	None	41009	None	None	190627547	190629952	1	None	None
2	OSGEPL1-AS1	ENSG00000253559	ENST00000523895	antisense	KNOWN	None	41009	None	None	190627565	190630053	1	None	None
HG1091_PATCH	None	ENSG00000262189	ENST00000573030	processed_pseudogene	KNOWN	None	None	None	None	60675958	60676452	-1	None	None
17	None	ENSG00000206734	ENST00000384007	misc_RNA	NOVEL	None	None	None	None	45634779	45634880	1	None	None
6	SLC22A3	ENSG00000146477	ENST00000275300	protein_coding	KNOWN	CCDS5277	10967	1671	556	160769300	160873613	1	None	OCT3, EMT
6	SLC22A3	ENSG00000146477	ENST00000392145	protein_coding	KNOWN	None	10967	1674	557	160769425	160876014	1	None	OCT3, EMT
18	RNA5SP454	ENSG00000253040	ENST00000517231	rRNA	KNOWN	None	43354	None	None	39850554	39850680	1	RN5S454	None
11	TEX40	ENSG00000219435	ENST00000539943	protein_coding	NOVEL	None	19231	477	158	64067918	64072242	1	C11orf20	DKFZP566E164
11	TEX40	ENSG00000219435	ENST00000535981	retained_intron	KNOWN	None	19231	None	None	64071127	64072221	1	C11orf20	DKFZP566E164
11	TEX40	ENSG00000219435	ENST00000328404	protein_coding	KNOWN	None	19231	603	200	64067863	64072238	1	C11orf20	DKFZP566E164
18	RNU6-443P	ENSG00000202250	ENST00000365380	snRNA	KNOWN	None	47406	None	None	41412124	41412230	-1	None	None
5	TRIM36-IT1	ENSG00000250472	ENST00000503723	sense_intronic	KNOWN	None	41422	None	None	114484461	114485341	-1	None	None
2	None	ENSG00000233087	ENST00000484914	processed_pseudogene	KNOWN	None	None	None	None	132120532	132121293	-1	None	None
2	None	ENSG00000233087	ENST00000535957	processed_pseudogene	KNOWN	None	None	None	None	132118066	132121731	-1	None	None
3	MIR551B	ENSG00000207717	ENST00000384984	miRNA	KNOWN	None	32807	None	None	168269642	168269737	1	MIRN551B	hsa-mir-551b
17	None	ENSG00000263766	ENST00000582389	antisense	KNOWN	None	None	None	None	45681226	45726768	-1	None	None
17	None	ENSG00000263766	ENST00000582066	antisense	KNOWN	None	None	None	None	45681230	45713916	-1	None	None
17	None	ENSG00000263766	ENST00000584391	antisense	KNOWN	None	None	None	None	45699208	45726786	-1	None	None
17	None	ENSG00000263766	ENST00000580045	antisense	KNOWN	None	None	None	None	45703372	45726782	-1	None	None
12	MIR4700	ENSG00000265455	ENST00000578311	miRNA	KNOWN	None	41806	None	None	121160996	121161069	1	None	hsa-mir-4700
18	None	ENSG00000267716	ENST00000589621	processed_pseudogene	KNOWN	None	None	None	None	41619436	41620105	1	None	None
12	None	ENSG00000255946	ENST00000542620	antisense	KNOWN	None	None	None	None	121178273	121199395	-1	None	None
3	FBXO45	ENSG00000174013	ENST00000440469	protein_coding	PUTATIVE	None	29148	324	107	196295482	196314158	1	None	Fbx45
3	FBXO45	ENSG00000174013	ENST00000311630	protein_coding	KNOWN	CCDS46985	29148	861	286	196295559	196315930	1	None	Fbx45
18	RNA5SP455	ENSG00000202060	ENST00000365190	rRNA	KNOWN	None	43355	None	None	41651548	41651666	1	RN5S455	None
20	COL20A1	ENSG00000101203	ENST00000358894	protein_coding	KNOWN	CCDS46628	14670	3855	1284	61924538	61962285	1	None	KIAA1510
20	COL20A1	ENSG00000101203	ENST00000479501	retained_intron	KNOWN	None	14670	None	None	61924576	61962285	1	None	KIAA1510
20	COL20A1	ENSG00000101203	ENST00000422202	protein_coding	KNOWN	None	14670	3894	1297	61926392	61966203	1	None	KIAA1510
20	COL20A1	ENSG00000101203	ENST00000415763	protein_coding	NOVEL	None	14670	1204	400	61950438	61959850	1	None	KIAA1510
20	COL20A1	ENSG00000101203	ENST00000455906	protein_coding	NOVEL	None	14670	750	249	61951451	61959831	1	None	KIAA1510
20	COL20A1	ENSG00000101203	ENST00000471582	retained_intron	KNOWN	None	14670	None	None	61955665	61962285	1	None	KIAA1510
20	COL20A1	ENSG00000101203	ENST00000494913	retained_intron	KNOWN	None	14670	None	None	61958554	61962285	1	None	KIAA1510
20	COL20A1	ENSG00000101203	ENST00000496810	processed_transcript	PUTATIVE	None	14670	None	None	61960505	61962285	1	None	KIAA1510
20	COL20A1	ENSG00000101203	ENST00000326996	protein_coding	KNOWN	None	14670	3951	1316	61924538	61962284	1	None	KIAA1510
20	COL20A1	ENSG00000101203	ENST00000435874	protein_coding	KNOWN	None	14670	3894	1297	61924538	61962284	1	None	KIAA1510
2	None	ENSG00000238641	ENST00000458791	miRNA	NOVEL	None	None	None	None	190749490	190749579	1	None	None
2	MYCN	ENSG00000134323	ENST00000281043	protein_coding	KNOWN	CCDS1687	7559	1395	464	16080686	16087129	1	NMYC	bHLHe37, N-myc, MYCNOT
18	KRT8P5	ENSG00000267573	ENST00000592443	processed_pseudogene	KNOWN	None	31094	None	None	41900765	41902222	-1	None	None
12	ARF1P2	ENSG00000213137	ENST00000392493	processed_pseudogene	KNOWN	None	39883	None	None	121282913	121283450	-1	None	None
2	None	ENSG00000223824	ENST00000423595	processed_pseudogene	KNOWN	None	None	None	None	190781980	190782484	-1	None	None
HG748_PATCH	CBX2	ENSG00000262762	ENST00000573833	protein_coding	KNOWN	None	1552	1599	532	77774214	77784065	1	CDCA6	MGC10561
HG748_PATCH	CBX2	ENSG00000262762	ENST00000574778	retained_intron	KNOWN	None	1552	None	None	77774245	77775821	1	CDCA6	MGC10561
HG748_PATCH	CBX2	ENSG00000262762	ENST00000576666	protein_coding	KNOWN	None	1552	636	211	77774276	77778614	1	CDCA6	MGC10561
10	ACBD5	ENSG00000107897	ENST00000396271	protein_coding	KNOWN	CCDS44368	23338	1578	525	27484146	27529744	-1	None	DKFZp434A2417, KIAA1996
10	ACBD5	ENSG00000107897	ENST00000375901	protein_coding	KNOWN	None	23338	1251	416	27484146	27531017	-1	None	DKFZp434A2417, KIAA1996
10	ACBD5	ENSG00000107897	ENST00000375905	protein_coding	KNOWN	CCDS7154	23338	1473	490	27484146	27531059	-1	None	DKFZp434A2417, KIAA1996
10	ACBD5	ENSG00000107897	ENST00000375888	protein_coding	KNOWN	None	23338	1605	534	27486282	27529487	-1	None	DKFZp434A2417, KIAA1996
10	ACBD5	ENSG00000107897	ENST00000476758	processed_transcript	KNOWN	None	23338	None	None	27493376	27529511	-1	None	DKFZp434A2417, KIAA1996
10	ACBD5	ENSG00000107897	ENST00000426079	protein_coding	KNOWN	None	23338	883	293	27506909	27529779	-1	None	DKFZp434A2417, KIAA1996
10	ACBD5	ENSG00000107897	ENST00000412279	protein_coding	KNOWN	None	23338	754	250	27506912	27531019	-1	None	DKFZp434A2417, KIAA1996
10	ACBD5	ENSG00000107897	ENST00000375897	protein_coding	KNOWN	None	23338	1047	348	27485965	27529725	-1	None	DKFZp434A2417, KIAA1996
8	None	ENSG00000221093	ENST00000408166	snoRNA	NOVEL	None	None	None	None	57033801	57033911	-1	None	None
11	DCDC1	ENSG00000170959	ENST00000444572	nonsense_mediated_decay	KNOWN	None	20625	2455	817	30851916	30946955	-1	None	None
11	DCDC1	ENSG00000170959	ENST00000303697	nonsense_mediated_decay	KNOWN	None	20625	1222	406	30885150	30928252	-1	None	None
11	DCDC1	ENSG00000170959	ENST00000483396	retained_intron	KNOWN	None	20625	None	None	30886489	31014231	-1	None	None
11	DCDC1	ENSG00000170959	ENST00000597505	protein_coding	PUTATIVE	None	20625	5352	1783	30900131	31349827	-1	None	None
11	DCDC1	ENSG00000170959	ENST00000429306	retained_intron	KNOWN	None	20625	None	None	30927862	30930651	-1	None	None
11	DCDC1	ENSG00000170959	ENST00000437348	processed_transcript	KNOWN	None	20625	None	None	30953318	31149212	-1	None	None
11	DCDC1	ENSG00000170959	ENST00000342355	nonsense_mediated_decay	KNOWN	None	20625	813	270	30964749	31391357	-1	None	None
11	DCDC1	ENSG00000170959	ENST00000534722	processed_transcript	KNOWN	None	20625	None	None	31128441	31263305	-1	None	None
11	DCDC1	ENSG00000170959	ENST00000534021	processed_transcript	PUTATIVE	None	20625	None	None	31177450	31263163	-1	None	None
11	DCDC1	ENSG00000170959	ENST00000452803	protein_coding	KNOWN	CCDS7872	20625	1065	354	31284171	31391321	-1	None	None
11	DCDC1	ENSG00000170959	ENST00000406071	protein_coding	KNOWN	None	20625	1365	454	30904988	31014233	-1	None	None
11	DCDC1	ENSG00000170959	ENST00000339794	protein_coding	KNOWN	None	20625	1947	648	30921126	31014233	-1	None	None
18	None	ENSG00000267337	ENST00000587877	lincRNA	KNOWN	None	None	None	None	41903401	42111662	-1	None	None
18	None	ENSG00000267337	ENST00000591487	lincRNA	KNOWN	None	None	None	None	41906411	42111620	-1	None	None
17	None	ENSG00000264558	ENST00000578482	antisense	KNOWN	None	None	None	None	45759783	45760049	-1	None	None
2	HNRNPCP2	ENSG00000204253	ENST00000399515	processed_pseudogene	KNOWN	None	48814	None	None	190788062	190788942	1	None	None
2	HNRNPCP2	ENSG00000204253	ENST00000342709	processed_pseudogene	KNOWN	None	48814	None	None	190788062	190788942	1	None	None
3	None	ENSG00000236844	ENST00000454858	processed_pseudogene	KNOWN	None	None	None	None	195281428	195281901	1	None	None
15	None	ENSG00000259438	ENST00000561318	lincRNA	KNOWN	None	None	None	None	52303196	52311292	-1	None	None
1	None	ENSG00000225905	ENST00000428932	antisense	KNOWN	None	None	None	None	1355625	1358071	1	None	None
12	LSM3P2	ENSG00000257847	ENST00000551246	processed_pseudogene	KNOWN	None	44347	None	None	94984597	94984869	1	None	None
2	None	ENSG00000233285	ENST00000424905	unprocessed_pseudogene	KNOWN	None	None	None	None	132126635	132127284	-1	None	None
17	None	ENSG00000264243	ENST00000581213	lincRNA	KNOWN	None	None	None	None	45940708	45942556	1	None	None
8	None	ENSG00000272343	ENST00000606048	lincRNA	KNOWN	None	None	None	None	57135247	57135732	1	None	None
11	MS4A5	ENSG00000166930	ENST00000300190	protein_coding	KNOWN	CCDS7987	13374	603	200	60197062	60215265	1	None	CD20L2
11	MS4A5	ENSG00000166930	ENST00000533885	nonsense_mediated_decay	KNOWN	None	13374	345	114	60197078	60222687	1	None	CD20L2
11	MS4A5	ENSG00000166930	ENST00000534071	processed_transcript	KNOWN	None	13374	None	None	60197094	60201360	1	None	CD20L2
11	MS4A5	ENSG00000166930	ENST00000531403	nonsense_mediated_decay	KNOWN	None	13374	204	67	60197116	60215265	1	None	CD20L2
11	MS4A5	ENSG00000166930	ENST00000528905	protein_coding	NOVEL	None	13374	370	122	60197228	60215265	1	None	CD20L2
11	MS4A5	ENSG00000166930	ENST00000528093	protein_coding	PUTATIVE	None	13374	103	33	60197249	60215265	1	None	CD20L2
HSCHR6_MHC_COX	BTNL2	ENSG00000224770	ENST00000418649	protein_coding	KNOWN	None	1142	636	211	32308863	32312297	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_COX	BTNL2	ENSG00000224770	ENST00000416597	protein_coding	KNOWN	None	1142	777	258	32317717	32323110	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_COX	BTNL2	ENSG00000224770	ENST00000433988	protein_coding	KNOWN	None	1142	326	107	32321016	32323110	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_COX	BTNL2	ENSG00000224770	ENST00000547901	protein_coding	KNOWN	None	1142	1167	388	32309963	32323103	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_COX	BTNL2	ENSG00000224770	ENST00000552479	protein_coding	KNOWN	None	1142	1368	455	32310730	32323103	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_COX	BTNL2	ENSG00000224770	ENST00000549943	protein_coding	KNOWN	None	1142	738	245	32310730	32323103	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_COX	BTNL2	ENSG00000224770	ENST00000548922	protein_coding	KNOWN	None	1142	816	271	32310730	32323103	-1	None	HSBLMHC1, BTL-II
17	None	ENSG00000266821	ENST00000580282	lincRNA	KNOWN	None	None	None	None	45956838	45959764	-1	None	None
6	RN7SL47P	ENSG00000244710	ENST00000488710	misc_RNA	KNOWN	None	46063	None	None	106731290	106731586	-1	None	None
14	None	ENSG00000240096	ENST00000469219	processed_pseudogene	KNOWN	None	None	None	None	93689944	93690485	-1	None	None
2	None	ENSG00000213110	ENST00000392337	processed_pseudogene	KNOWN	None	None	None	None	190795003	190795736	-1	None	None
8	SPAG11A	ENSG00000178287	ENST00000400125	protein_coding	NOVEL	None	33342	342	113	7705398	7707958	1	None	HE2, EDDM2A
8	SPAG11A	ENSG00000178287	ENST00000434307	protein_coding	KNOWN	None	33342	312	103	7705402	7718487	1	None	HE2, EDDM2A
8	SPAG11A	ENSG00000178287	ENST00000326558	protein_coding	KNOWN	CCDS43700	33342	327	108	7705546	7721319	1	None	HE2, EDDM2A
8	SPAG11A	ENSG00000178287	ENST00000351436	protein_coding	NOVEL	None	33342	249	82	7705546	7721319	1	None	HE2, EDDM2A
8	SPAG11A	ENSG00000178287	ENST00000528033	protein_coding	PUTATIVE	None	33342	320	105	7705621	7726389	1	None	HE2, EDDM2A
8	SPAG11A	ENSG00000178287	ENST00000525884	nonsense_mediated_decay	KNOWN	None	33342	162	53	7706215	7721319	1	None	HE2, EDDM2A
8	SPAG11A	ENSG00000178287	ENST00000454911	protein_coding	NOVEL	None	33342	153	50	7716700	7718504	1	None	HE2, EDDM2A
8	SPAG11A	ENSG00000178287	ENST00000326625	protein_coding	NOVEL	None	33342	243	80	7716700	7718504	1	None	HE2, EDDM2A
6	RNU6-344P	ENSG00000252444	ENST00000516635	snRNA	KNOWN	None	47307	None	None	106752051	106752161	1	None	None
15	None	ENSG00000259398	ENST00000561207	sense_intronic	KNOWN	None	None	None	None	52325904	52327822	1	None	None
18	None	ENSG00000267414	ENST00000592638	lincRNA	KNOWN	None	None	None	None	42256892	42259682	-1	None	None
12	CLIC1P1	ENSG00000231313	ENST00000431907	processed_pseudogene	KNOWN	None	32691	None	None	121352203	121352926	1	None	None
6	None	ENSG00000233941	ENST00000449180	antisense	KNOWN	None	None	None	None	106806441	106807592	-1	None	None
17	None	ENSG00000264920	ENST00000582787	lincRNA	KNOWN	None	None	None	None	45968621	45973178	-1	None	None
17	None	ENSG00000264920	ENST00000577279	lincRNA	KNOWN	None	None	None	None	45968641	45973135	-1	None	None
17	None	ENSG00000264920	ENST00000580459	retained_intron	KNOWN	None	None	None	None	45969220	45973158	-1	None	None
8	None	ENSG00000254216	ENST00000524200	processed_pseudogene	KNOWN	None	None	None	None	57165519	57165931	-1	None	None
9	TRIM14	ENSG00000106785	ENST00000375098	protein_coding	KNOWN	CCDS6734	16283	1329	442	100831557	100881492	-1	None	KIAA0129
9	TRIM14	ENSG00000106785	ENST00000478530	processed_transcript	KNOWN	None	16283	None	None	100843122	100850283	-1	None	KIAA0129
9	TRIM14	ENSG00000106785	ENST00000341469	protein_coding	KNOWN	CCDS6734	16283	1329	442	100846637	100881480	-1	None	KIAA0129
9	TRIM14	ENSG00000106785	ENST00000342043	protein_coding	KNOWN	CCDS6734	16283	1329	442	100846637	100881480	-1	None	KIAA0129
9	TRIM14	ENSG00000106785	ENST00000475147	nonsense_mediated_decay	KNOWN	None	16283	333	110	100850182	100881494	-1	None	KIAA0129
9	TRIM14	ENSG00000106785	ENST00000478401	processed_transcript	KNOWN	None	16283	None	None	100857149	100881418	-1	None	KIAA0129
9	TRIM14	ENSG00000106785	ENST00000538344	protein_coding	KNOWN	None	16283	672	223	100849109	100854843	-1	None	KIAA0129
6	None	ENSG00000207499	ENST00000384768	misc_RNA	NOVEL	None	None	None	None	106868581	106868682	1	None	None
12	RPL12P33	ENSG00000244585	ENST00000485633	processed_pseudogene	KNOWN	None	35696	None	None	121354548	121355039	1	None	None
6	RNA5SP211	ENSG00000202386	ENST00000365516	rRNA	KNOWN	None	43111	None	None	106897256	106897372	1	RN5S211	None
11	OR10A3	ENSG00000170683	ENST00000360759	protein_coding	KNOWN	CCDS31421	8162	945	314	7960081	7961141	-1	None	HTPCRX12, HSHTPCRX12
19	CEACAMP6	ENSG00000238092	ENST00000452007	unprocessed_pseudogene	KNOWN	None	1828	None	None	43285358	43290747	-1	CGM13	None
3	None	ENSG00000226765	ENST00000432315	processed_pseudogene	KNOWN	None	None	None	None	168384347	168385211	1	None	None
2	None	ENSG00000233654	ENST00000457407	antisense	KNOWN	None	None	None	None	191399581	191432828	1	None	None
6	None	ENSG00000200314	ENST00000363444	misc_RNA	NOVEL	None	None	None	None	106902703	106902804	1	None	None
14	None	ENSG00000241499	ENST00000492041	processed_pseudogene	KNOWN	None	None	None	None	93710356	93710669	1	None	None
5	ETF1	ENSG00000120705	ENST00000499810	protein_coding	PUTATIVE	None	3477	1215	404	137841784	137878918	-1	SUP45L1, ERF1, ERF	eRF1, TB3-1, RF1
5	ETF1	ENSG00000120705	ENST00000360541	protein_coding	KNOWN	CCDS4207	3477	1314	437	137841788	137878989	-1	SUP45L1, ERF1, ERF	eRF1, TB3-1, RF1
5	ETF1	ENSG00000120705	ENST00000503014	protein_coding	PUTATIVE	None	3477	1272	423	137843679	137877400	-1	SUP45L1, ERF1, ERF	eRF1, TB3-1, RF1
5	ETF1	ENSG00000120705	ENST00000506345	retained_intron	KNOWN	None	3477	None	None	137846793	137853351	-1	SUP45L1, ERF1, ERF	eRF1, TB3-1, RF1
5	ETF1	ENSG00000120705	ENST00000512198	nonsense_mediated_decay	KNOWN	None	3477	288	95	137847214	137878840	-1	SUP45L1, ERF1, ERF	eRF1, TB3-1, RF1
5	ETF1	ENSG00000120705	ENST00000503183	retained_intron	KNOWN	None	3477	None	None	137848388	137853330	-1	SUP45L1, ERF1, ERF	eRF1, TB3-1, RF1
5	ETF1	ENSG00000120705	ENST00000572514	protein_coding	PUTATIVE	None	3477	625	207	137848461	137878905	-1	SUP45L1, ERF1, ERF	eRF1, TB3-1, RF1
5	ETF1	ENSG00000120705	ENST00000507939	protein_coding	PUTATIVE	None	3477	359	118	137849340	137878898	-1	SUP45L1, ERF1, ERF	eRF1, TB3-1, RF1
5	ETF1	ENSG00000120705	ENST00000514005	processed_transcript	KNOWN	None	3477	None	None	137853250	137877375	-1	SUP45L1, ERF1, ERF	eRF1, TB3-1, RF1
2	MTND6P10	ENSG00000227275	ENST00000437240	unprocessed_pseudogene	KNOWN	None	39473	None	None	132127358	132127874	1	None	None
13	MIPEP	ENSG00000027001	ENST00000464194	processed_transcript	KNOWN	None	7104	None	None	24304328	24330969	-1	None	MIP
13	MIPEP	ENSG00000027001	ENST00000433710	protein_coding	PUTATIVE	None	7104	276	91	24304328	24334712	-1	None	MIP
13	MIPEP	ENSG00000027001	ENST00000382172	protein_coding	KNOWN	CCDS9303	7104	2142	713	24304328	24463558	-1	None	MIP
13	MIPEP	ENSG00000027001	ENST00000494139	processed_transcript	KNOWN	None	7104	None	None	24416409	24444334	-1	None	MIP
13	MIPEP	ENSG00000027001	ENST00000469167	processed_transcript	KNOWN	None	7104	None	None	24455838	24463537	-1	None	MIP
19	RAVER1	ENSG00000161847	ENST00000293677	protein_coding	KNOWN	CCDS45960	30296	2271	756	10426888	10444316	-1	None	KIAA1978
19	RAVER1	ENSG00000161847	ENST00000592208	retained_intron	KNOWN	None	30296	None	None	10426891	10444187	-1	None	KIAA1978
19	RAVER1	ENSG00000161847	ENST00000585935	protein_coding	NOVEL	None	30296	470	155	10428972	10431838	-1	None	KIAA1978
19	RAVER1	ENSG00000161847	ENST00000593136	nonsense_mediated_decay	KNOWN	None	30296	393	130	10429042	10433833	-1	None	KIAA1978
19	RAVER1	ENSG00000161847	ENST00000591969	nonsense_mediated_decay	KNOWN	None	30296	290	95	10434182	10444167	-1	None	KIAA1978
19	HSD17B14	ENSG00000087076	ENST00000263278	protein_coding	KNOWN	CCDS12736	23238	813	270	49316274	49339935	-1	DHRS10	retSDR3, SDR47C1
19	HSD17B14	ENSG00000087076	ENST00000596349	protein_coding	PUTATIVE	None	23238	321	106	49316275	49318329	-1	DHRS10	retSDR3, SDR47C1
19	HSD17B14	ENSG00000087076	ENST00000599157	protein_coding	NOVEL	None	23238	741	246	49316281	49339767	-1	DHRS10	retSDR3, SDR47C1
19	HSD17B14	ENSG00000087076	ENST00000595764	protein_coding	PUTATIVE	None	23238	531	176	49316366	49339080	-1	DHRS10	retSDR3, SDR47C1
6	RNU6-527P	ENSG00000200295	ENST00000363425	snRNA	KNOWN	None	47490	None	None	107055591	107055694	1	None	None
15	None	ENSG00000259712	ENST00000558607	antisense	KNOWN	None	None	None	None	52348872	52392720	-1	None	None
3	None	ENSG00000236425	ENST00000420238	processed_pseudogene	KNOWN	None	None	None	None	195288085	195288450	-1	None	None
6	RPL21P65	ENSG00000216977	ENST00000406094	processed_pseudogene	KNOWN	None	36017	None	None	107090338	107090803	1	None	None
14	None	ENSG00000202306	ENST00000365436	misc_RNA	NOVEL	None	None	None	None	93863485	93863580	-1	None	None
9	TMOD1	ENSG00000136842	ENST00000259365	protein_coding	KNOWN	CCDS6726	11871	1080	359	100263921	100363536	1	D9S57E, TMOD	ETMOD
9	TMOD1	ENSG00000136842	ENST00000375175	protein_coding	NOVEL	None	11871	699	232	100317717	100363536	1	D9S57E, TMOD	ETMOD
9	TMOD1	ENSG00000136842	ENST00000395211	protein_coding	KNOWN	CCDS6726	11871	1080	359	100263462	100364023	1	D9S57E, TMOD	ETMOD
20	RPS4XP3	ENSG00000214541	ENST00000398541	processed_pseudogene	KNOWN	None	16251	None	None	55176757	55177169	1	RPS4L, RPS4P3	dJ843L14.2
5	None	ENSG00000272086	ENST00000606994	lincRNA	KNOWN	None	None	None	None	32174577	32175378	1	None	None
14	RNU6-1258P	ENSG00000252720	ENST00000516911	snRNA	KNOWN	None	48221	None	None	93903746	93903856	-1	None	None
7	None	ENSG00000260445	ENST00000561495	unprocessed_pseudogene	KNOWN	None	None	None	None	99467464	99467517	1	None	None
6	None	ENSG00000229654	ENST00000424162	lincRNA	KNOWN	None	None	None	None	107143410	107147869	1	None	None
HSCHR17_4_CTG4	KRT12	ENSG00000263243	ENST00000572470	protein_coding	KNOWN	None	6414	1485	494	39017555	39023462	-1	None	K12
15	None	ENSG00000259178	ENST00000558343	lincRNA	KNOWN	None	None	None	None	52374499	52378771	1	None	None
2	RN7SKP179	ENSG00000251935	ENST00000516126	misc_RNA	KNOWN	None	45903	None	None	191417990	191418206	-1	None	None
7	None	ENSG00000260524	ENST00000563326	unprocessed_pseudogene	KNOWN	None	None	None	None	99469791	99469881	1	None	None
5	None	ENSG00000230829	ENST00000477507	processed_pseudogene	KNOWN	None	None	None	None	32222038	32222453	1	None	None
8	SDR16C6P	ENSG00000253542	ENST00000524136	unitary_pseudogene	KNOWN	None	35413	None	None	57285623	57307924	-1	SDR16C6	None
8	SDR16C6P	ENSG00000253542	ENST00000517787	processed_transcript	KNOWN	None	35413	None	None	57287325	57303370	-1	SDR16C6	None
17	None	ENSG00000234494	ENST00000585280	antisense	KNOWN	None	None	None	None	45974696	46018755	-1	None	None
17	None	ENSG00000234494	ENST00000451140	antisense	KNOWN	None	None	None	None	45975640	46018776	-1	None	None
17	None	ENSG00000234494	ENST00000411573	antisense	KNOWN	None	None	None	None	45976151	46018725	-1	None	None
17	None	ENSG00000234494	ENST00000433001	antisense	KNOWN	None	None	None	None	45976997	46018756	-1	None	None
12	HNF1A-AS1	ENSG00000241388	ENST00000537361	antisense	KNOWN	None	26785	None	None	121406416	121418709	-1	C12orf27, NCRNA00262	FLJ38690
12	HNF1A-AS1	ENSG00000241388	ENST00000433033	antisense	KNOWN	None	26785	None	None	121407933	121417550	-1	C12orf27, NCRNA00262	FLJ38690
12	HNF1A-AS1	ENSG00000241388	ENST00000535301	antisense	KNOWN	None	26785	None	None	121412188	121418768	-1	C12orf27, NCRNA00262	FLJ38690
1	B4GALT3	ENSG00000158850	ENST00000319769	protein_coding	KNOWN	CCDS1222	926	1182	393	161141100	161147275	-1	None	beta4Gal-T3
1	B4GALT3	ENSG00000158850	ENST00000470882	processed_transcript	KNOWN	None	926	None	None	161141101	161147210	-1	None	beta4Gal-T3
1	B4GALT3	ENSG00000158850	ENST00000367998	protein_coding	KNOWN	CCDS1222	926	1182	393	161141102	161147287	-1	None	beta4Gal-T3
1	B4GALT3	ENSG00000158850	ENST00000486938	processed_transcript	KNOWN	None	926	None	None	161141756	161142200	-1	None	beta4Gal-T3
1	B4GALT3	ENSG00000158850	ENST00000466504	processed_transcript	KNOWN	None	926	None	None	161143395	161147269	-1	None	beta4Gal-T3
1	B4GALT3	ENSG00000158850	ENST00000465740	processed_transcript	KNOWN	None	926	None	None	161143649	161145946	-1	None	beta4Gal-T3
1	B4GALT3	ENSG00000158850	ENST00000493164	processed_transcript	KNOWN	None	926	None	None	161144697	161147284	-1	None	beta4Gal-T3
1	B4GALT3	ENSG00000158850	ENST00000496313	processed_transcript	KNOWN	None	926	None	None	161144785	161147258	-1	None	beta4Gal-T3
1	B4GALT3	ENSG00000158850	ENST00000487004	processed_transcript	KNOWN	None	926	None	None	161144842	161146939	-1	None	beta4Gal-T3
1	B4GALT3	ENSG00000158850	ENST00000460415	processed_transcript	KNOWN	None	926	None	None	161145598	161147281	-1	None	beta4Gal-T3
1	B4GALT3	ENSG00000158850	ENST00000482288	processed_transcript	KNOWN	None	926	None	None	161145598	161147287	-1	None	beta4Gal-T3
1	B4GALT3	ENSG00000158850	ENST00000467863	processed_transcript	KNOWN	None	926	None	None	161145752	161147269	-1	None	beta4Gal-T3
2	None	ENSG00000228509	ENST00000421437	antisense	KNOWN	None	None	None	None	191541670	191555098	-1	None	None
2	None	ENSG00000228509	ENST00000411949	antisense	KNOWN	None	None	None	None	191541761	191573442	-1	None	None
2	None	ENSG00000228509	ENST00000428032	antisense	KNOWN	None	None	None	None	191542023	191566272	-1	None	None
7	CPED1	ENSG00000106034	ENST00000310396	protein_coding	KNOWN	CCDS34739	26159	3081	1026	120628731	120937498	1	C7orf58	FLJ21986
7	CPED1	ENSG00000106034	ENST00000428526	protein_coding	KNOWN	None	26159	1648	548	120629105	120773947	1	C7orf58	FLJ21986
7	CPED1	ENSG00000106034	ENST00000495036	processed_transcript	KNOWN	None	26159	None	None	120629229	120692067	1	C7orf58	FLJ21986
7	CPED1	ENSG00000106034	ENST00000450913	protein_coding	KNOWN	CCDS47690	26159	2352	783	120629653	120901853	1	C7orf58	FLJ21986
7	CPED1	ENSG00000106034	ENST00000520801	nonsense_mediated_decay	KNOWN	None	26159	183	60	120629853	120737869	1	C7orf58	FLJ21986
7	CPED1	ENSG00000106034	ENST00000521774	processed_transcript	PUTATIVE	None	26159	None	None	120655798	120690496	1	C7orf58	FLJ21986
7	CPED1	ENSG00000106034	ENST00000423795	protein_coding	PUTATIVE	None	26159	1692	563	120702819	120901972	1	C7orf58	FLJ21986
7	CPED1	ENSG00000106034	ENST00000443817	protein_coding	PUTATIVE	None	26159	1003	333	120716632	120776108	1	C7orf58	FLJ21986
7	CPED1	ENSG00000106034	ENST00000466055	processed_transcript	KNOWN	None	26159	None	None	120789610	120901885	1	C7orf58	FLJ21986
7	CPED1	ENSG00000106034	ENST00000340646	protein_coding	KNOWN	None	26159	609	202	120629676	120690922	1	C7orf58	FLJ21986
6	STXBP5-AS1	ENSG00000233452	ENST00000606831	antisense	KNOWN	None	44183	None	None	147163037	147237021	-1	None	None
6	STXBP5-AS1	ENSG00000233452	ENST00000427394	antisense	KNOWN	None	44183	None	None	147163702	147525676	-1	None	None
6	STXBP5-AS1	ENSG00000233452	ENST00000367477	antisense	KNOWN	None	44183	None	None	147164250	147525750	-1	None	None
6	STXBP5-AS1	ENSG00000233452	ENST00000433308	antisense	KNOWN	None	44183	None	None	147171295	147172141	-1	None	None
6	STXBP5-AS1	ENSG00000233452	ENST00000447072	antisense	KNOWN	None	44183	None	None	147181793	147453054	-1	None	None
6	STXBP5-AS1	ENSG00000233452	ENST00000458125	antisense	KNOWN	None	44183	None	None	147182942	147440599	-1	None	None
6	STXBP5-AS1	ENSG00000233452	ENST00000443712	antisense	KNOWN	None	44183	None	None	147185595	147232742	-1	None	None
6	STXBP5-AS1	ENSG00000233452	ENST00000431143	antisense	KNOWN	None	44183	None	None	147232962	147453122	-1	None	None
6	STXBP5-AS1	ENSG00000233452	ENST00000417502	antisense	KNOWN	None	44183	None	None	147440553	147523603	-1	None	None
22	SOX10	ENSG00000100146	ENST00000446929	protein_coding	PUTATIVE	None	11190	539	178	38366693	38379421	-1	None	DOM, WS4, WS2E
22	SOX10	ENSG00000100146	ENST00000396884	protein_coding	KNOWN	CCDS13964	11190	1401	466	38368307	38380544	-1	None	DOM, WS4, WS2E
22	SOX10	ENSG00000100146	ENST00000360880	protein_coding	KNOWN	CCDS13964	11190	1401	466	38368307	38383429	-1	None	DOM, WS4, WS2E
22	SOX10	ENSG00000100146	ENST00000427770	protein_coding	KNOWN	None	11190	641	212	38373930	38380353	-1	None	DOM, WS4, WS2E
22	SOX10	ENSG00000100146	ENST00000470555	processed_transcript	KNOWN	None	11190	None	None	38374089	38380415	-1	None	DOM, WS4, WS2E
X	None	ENSG00000224735	ENST00000432417	processed_pseudogene	KNOWN	None	None	None	None	53785524	53785702	1	None	None
7	None	ENSG00000237640	ENST00000456499	antisense	KNOWN	None	None	None	None	99527015	99546243	1	None	None
4	None	ENSG00000251024	ENST00000503593	lincRNA	KNOWN	None	None	None	None	146998998	147029309	-1	None	None
20	None	ENSG00000252536	ENST00000516727	snoRNA	NOVEL	None	None	None	None	55182733	55182849	1	None	None
7	None	ENSG00000199711	ENST00000362841	misc_RNA	NOVEL	None	None	None	None	99534233	99534334	1	None	None
5	RNU6-1079P	ENSG00000199731	ENST00000362861	snRNA	KNOWN	None	48042	None	None	32234872	32234981	-1	None	None
1	None	ENSG00000225285	ENST00000430109	lincRNA	KNOWN	None	None	None	None	1365919	1369953	-1	None	None
1	None	ENSG00000225285	ENST00000434150	lincRNA	KNOWN	None	None	None	None	1365930	1367223	-1	None	None
1	None	ENSG00000225285	ENST00000454562	lincRNA	KNOWN	None	None	None	None	1365930	1369868	-1	None	None
1	None	ENSG00000225285	ENST00000417917	lincRNA	KNOWN	None	None	None	None	1366044	1369900	-1	None	None
X	SEPT6	ENSG00000125354	ENST00000360156	protein_coding	KNOWN	CCDS14585	15848	1284	427	118749687	118827333	-1	None	KIAA0128, SEP2, SEPT2, MGC16619, MGC20339
X	SEPT6	ENSG00000125354	ENST00000354228	protein_coding	KNOWN	CCDS14583	15848	1290	429	118750675	118827333	-1	None	KIAA0128, SEP2, SEPT2, MGC16619, MGC20339
X	SEPT6	ENSG00000125354	ENST00000460411	nonsense_mediated_decay	KNOWN	None	15848	804	267	118750675	118827333	-1	None	KIAA0128, SEP2, SEPT2, MGC16619, MGC20339
X	SEPT6	ENSG00000125354	ENST00000489216	protein_coding	KNOWN	CCDS14585	15848	1284	427	118750679	118827333	-1	None	KIAA0128, SEP2, SEPT2, MGC16619, MGC20339
X	SEPT6	ENSG00000125354	ENST00000354416	protein_coding	KNOWN	None	15848	1296	431	118750908	118827333	-1	None	KIAA0128, SEP2, SEPT2, MGC16619, MGC20339
X	SEPT6	ENSG00000125354	ENST00000343984	protein_coding	KNOWN	CCDS14584	15848	1305	434	118751602	118827333	-1	None	KIAA0128, SEP2, SEPT2, MGC16619, MGC20339
X	SEPT6	ENSG00000125354	ENST00000467310	processed_transcript	KNOWN	None	15848	None	None	118753272	118767387	-1	None	KIAA0128, SEP2, SEPT2, MGC16619, MGC20339
X	SEPT6	ENSG00000125354	ENST00000481072	processed_transcript	KNOWN	None	15848	None	None	118762779	118767465	-1	None	KIAA0128, SEP2, SEPT2, MGC16619, MGC20339
X	SEPT6	ENSG00000125354	ENST00000394610	protein_coding	KNOWN	CCDS14585	15848	1284	427	118750911	118827333	-1	None	KIAA0128, SEP2, SEPT2, MGC16619, MGC20339
X	SEPT6	ENSG00000125354	ENST00000394617	protein_coding	KNOWN	None	15848	1374	457	118762983	118827120	-1	None	KIAA0128, SEP2, SEPT2, MGC16619, MGC20339
X	SEPT6	ENSG00000125354	ENST00000394616	protein_coding	KNOWN	None	15848	1110	369	118762890	118826792	-1	None	KIAA0128, SEP2, SEPT2, MGC16619, MGC20339
6	None	ENSG00000235142	ENST00000602621	lincRNA	KNOWN	None	None	None	None	107165327	107193879	-1	None	None
6	None	ENSG00000235142	ENST00000436659	lincRNA	KNOWN	None	None	None	None	107165327	107235300	-1	None	None
6	None	ENSG00000235142	ENST00000428750	lincRNA	KNOWN	None	None	None	None	107165867	107235306	-1	None	None
6	None	ENSG00000235142	ENST00000418134	retained_intron	KNOWN	None	None	None	None	107172490	107187962	-1	None	None
6	None	ENSG00000235142	ENST00000607758	retained_intron	KNOWN	None	None	None	None	107182920	107187650	-1	None	None
6	None	ENSG00000235142	ENST00000415714	lincRNA	KNOWN	None	None	None	None	107194960	107220168	-1	None	None
6	None	ENSG00000235142	ENST00000433965	lincRNA	KNOWN	None	None	None	None	107194965	107235349	-1	None	None
6	None	ENSG00000235142	ENST00000427903	lincRNA	KNOWN	None	None	None	None	107195125	107235310	-1	None	None
6	None	ENSG00000235142	ENST00000606430	lincRNA	KNOWN	None	None	None	None	107202275	107235416	-1	None	None
6	None	ENSG00000235142	ENST00000602934	lincRNA	KNOWN	None	None	None	None	107218001	107222879	-1	None	None
6	None	ENSG00000235142	ENST00000430094	lincRNA	KNOWN	None	None	None	None	107219993	107235354	-1	None	None
6	None	ENSG00000235142	ENST00000607090	lincRNA	KNOWN	None	None	None	None	107222336	107230342	-1	None	None
8	RN7SL806P	ENSG00000242719	ENST00000467399	misc_RNA	KNOWN	None	46822	None	None	42736379	42736675	1	None	None
3	None	ENSG00000224769	ENST00000457750	unprocessed_pseudogene	KNOWN	None	None	None	None	195341818	195347104	1	None	None
12	KRT19P2	ENSG00000216306	ENST00000557173	transcribed_processed_pseudogene	KNOWN	None	33423	None	None	95227923	95228934	1	KRT19P5	None
12	KRT19P2	ENSG00000216306	ENST00000405395	processed_transcript	PUTATIVE	None	33423	None	None	95228230	95228804	1	KRT19P5	None
7	None	ENSG00000222966	ENST00000411034	snoRNA	NOVEL	None	None	None	None	99549656	99549781	1	None	None
5	RNU6-378P	ENSG00000207052	ENST00000384324	snRNA	KNOWN	None	47341	None	None	32309768	32309874	1	None	None
17	None	ENSG00000267665	ENST00000586779	lincRNA	KNOWN	None	None	None	None	75523080	75530693	1	None	None
17	None	ENSG00000267665	ENST00000592572	lincRNA	KNOWN	None	None	None	None	75524207	75532674	1	None	None
17	None	ENSG00000267665	ENST00000591481	lincRNA	KNOWN	None	None	None	None	75524935	75530765	1	None	None
17	None	ENSG00000267665	ENST00000590438	lincRNA	KNOWN	None	None	None	None	75525131	75530794	1	None	None
17	CD300E	ENSG00000186407	ENST00000392619	protein_coding	KNOWN	None	28874	699	232	72606026	72619877	-1	CD300LE	IREM2, CLM2
17	CD300E	ENSG00000186407	ENST00000412268	protein_coding	PUTATIVE	None	28874	365	120	72613286	72615486	-1	CD300LE	IREM2, CLM2
17	CD300E	ENSG00000186407	ENST00000426295	protein_coding	KNOWN	None	28874	741	246	72608341	72619897	-1	CD300LE	IREM2, CLM2
17	CD300E	ENSG00000186407	ENST00000328630	protein_coding	KNOWN	CCDS11702	28874	618	205	72608712	72619801	-1	CD300LE	IREM2, CLM2
5	None	ENSG00000222961	ENST00000411029	miRNA	NOVEL	None	None	None	None	32379513	32379573	-1	None	None
14	None	ENSG00000258578	ENST00000555505	processed_pseudogene	KNOWN	None	None	None	None	76480022	76480486	1	None	None
14	FAM181A-AS1	ENSG00000258584	ENST00000554742	processed_transcript	KNOWN	None	20133	None	None	94371076	94392718	-1	C14orf86	None
14	FAM181A-AS1	ENSG00000258584	ENST00000556290	processed_transcript	PUTATIVE	None	20133	None	None	94389963	94392686	-1	C14orf86	None
14	FAM181A-AS1	ENSG00000258584	ENST00000554538	processed_transcript	PUTATIVE	None	20133	None	None	94390019	94393312	-1	C14orf86	None
14	FAM181A-AS1	ENSG00000258584	ENST00000555732	processed_transcript	PUTATIVE	None	20133	None	None	94391579	94393412	-1	C14orf86	None
HSCHR6_MHC_COX	HLA-C	ENSG00000233841	ENST00000486266	retained_intron	KNOWN	None	4933	None	None	31227577	31228494	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_COX	HLA-C	ENSG00000233841	ENST00000494158	retained_intron	KNOWN	None	4933	None	None	31227577	31229250	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_COX	HLA-C	ENSG00000233841	ENST00000496419	retained_intron	KNOWN	None	4933	None	None	31227577	31230878	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_COX	HLA-C	ENSG00000233841	ENST00000423509	protein_coding	KNOWN	None	4933	1119	372	31227577	31230914	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_COX	HLA-C	ENSG00000233841	ENST00000430940	protein_coding	KNOWN	None	4933	1194	397	31227577	31230914	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_COX	HLA-C	ENSG00000233841	ENST00000422726	protein_coding	KNOWN	None	4933	1107	368	31227577	31230921	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_COX	HLA-C	ENSG00000233841	ENST00000476248	nonsense_mediated_decay	KNOWN	None	4933	396	131	31227577	31230933	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_COX	HLA-C	ENSG00000233841	ENST00000424832	protein_coding	KNOWN	None	4933	1101	366	31227577	31230958	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_COX	HLA-C	ENSG00000233841	ENST00000464914	nonsense_mediated_decay	KNOWN	None	4933	675	224	31229038	31230901	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_COX	HLA-C	ENSG00000233841	ENST00000457806	protein_coding	KNOWN	None	4933	782	259	31229042	31230897	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_COX	HLA-C	ENSG00000233841	ENST00000462851	retained_intron	KNOWN	None	4933	None	None	31229049	31230958	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_COX	HLA-C	ENSG00000233841	ENST00000497204	retained_intron	KNOWN	None	4933	None	None	31229927	31230918	-1	HLA-JY3, D6S204	None
4	None	ENSG00000248809	ENST00000512063	lincRNA	KNOWN	None	None	None	None	147030607	147043058	-1	None	None
4	None	ENSG00000248809	ENST00000507726	lincRNA	KNOWN	None	None	None	None	147030609	147043065	-1	None	None
4	None	ENSG00000248809	ENST00000515703	lincRNA	KNOWN	None	None	None	None	147031975	147032869	-1	None	None
4	None	ENSG00000248809	ENST00000505848	lincRNA	KNOWN	None	None	None	None	147032311	147032857	-1	None	None
4	None	ENSG00000248809	ENST00000513023	lincRNA	KNOWN	None	None	None	None	147032582	147033362	-1	None	None
11	SCN4B	ENSG00000177098	ENST00000415030	retained_intron	KNOWN	None	10592	None	None	118004092	118016148	-1	None	LQT10
11	SCN4B	ENSG00000177098	ENST00000324727	protein_coding	KNOWN	CCDS8389	10592	687	228	118004092	118023535	-1	None	LQT10
11	SCN4B	ENSG00000177098	ENST00000423160	processed_transcript	KNOWN	None	10592	None	None	118004094	118013588	-1	None	LQT10
11	SCN4B	ENSG00000177098	ENST00000531550	retained_intron	KNOWN	None	10592	None	None	118007288	118012579	-1	None	LQT10
11	SCN4B	ENSG00000177098	ENST00000529878	protein_coding	KNOWN	CCDS44744	10592	285	94	118007676	118023603	-1	None	LQT10
11	SCN4B	ENSG00000177098	ENST00000532138	retained_intron	KNOWN	None	10592	None	None	118011921	118016415	-1	None	LQT10
5	MIR579	ENSG00000207956	ENST00000385221	miRNA	KNOWN	None	32835	None	None	32394484	32394581	-1	MIRN579	hsa-mir-579
20	RNU6-1146P	ENSG00000252091	ENST00000516282	snRNA	KNOWN	None	48109	None	None	55242486	55242587	1	None	None
3	None	ENSG00000271662	ENST00000603917	processed_pseudogene	KNOWN	None	None	None	None	195377017	195378343	-1	None	None
2	None	ENSG00000235852	ENST00000413911	antisense	KNOWN	None	None	None	None	191745523	191746785	-1	None	None
5	None	ENSG00000249142	ENST00000503901	processed_pseudogene	KNOWN	None	None	None	None	32522864	32523971	1	None	None
7	AZGP1P1	ENSG00000214313	ENST00000425474	processed_transcript	KNOWN	None	911	None	None	99578385	99581860	1	None	None
7	AZGP1P1	ENSG00000214313	ENST00000411909	transcribed_unprocessed_pseudogene	KNOWN	None	911	None	None	99578385	99585158	1	None	None
7	AZGP1P1	ENSG00000214313	ENST00000397935	unprocessed_pseudogene	KNOWN	None	911	None	None	99578389	99584279	1	None	None
17	None	ENSG00000266601	ENST00000584276	antisense	KNOWN	None	None	None	None	46007048	46010472	-1	None	None
18	ZNF407	ENSG00000215421	ENST00000582337	protein_coding	KNOWN	CCDS54191	19904	4983	1660	72265106	72516583	1	None	FLJ20307, FLJ13839, KIAA1703
18	ZNF407	ENSG00000215421	ENST00000577538	protein_coding	KNOWN	CCDS58634	19904	5448	1815	72342976	72633014	1	None	FLJ20307, FLJ13839, KIAA1703
18	ZNF407	ENSG00000215421	ENST00000299687	protein_coding	KNOWN	CCDS45885	19904	6747	2248	72342976	72777625	1	None	FLJ20307, FLJ13839, KIAA1703
18	ZNF407	ENSG00000215421	ENST00000584235	processed_transcript	KNOWN	None	19904	None	None	72589154	72617894	1	None	FLJ20307, FLJ13839, KIAA1703
18	ZNF407	ENSG00000215421	ENST00000581829	processed_transcript	KNOWN	None	19904	None	None	72589161	72610399	1	None	FLJ20307, FLJ13839, KIAA1703
18	ZNF407	ENSG00000215421	ENST00000582214	processed_transcript	PUTATIVE	None	19904	None	None	72772111	72775441	1	None	FLJ20307, FLJ13839, KIAA1703
18	ZNF407	ENSG00000215421	ENST00000579200	retained_intron	KNOWN	None	19904	None	None	72773238	72777627	1	None	FLJ20307, FLJ13839, KIAA1703
18	ZNF407	ENSG00000215421	ENST00000309902	protein_coding	KNOWN	CCDS54191	19904	4983	1660	72342919	72516580	1	None	FLJ20307, FLJ13839, KIAA1703
X	None	ENSG00000232412	ENST00000426367	lincRNA	KNOWN	None	None	None	None	123093083	123095191	-1	None	None
2	None	ENSG00000229023	ENST00000342609	processed_pseudogene	KNOWN	None	None	None	None	191857365	191858293	-1	None	None
12	None	ENSG00000271769	ENST00000606238	antisense	KNOWN	None	None	None	None	121438289	121439071	-1	None	None
12	AMN1	ENSG00000151743	ENST00000281471	protein_coding	KNOWN	CCDS44858	27281	777	258	31824071	31882108	-1	None	None
12	AMN1	ENSG00000151743	ENST00000537562	protein_coding	PUTATIVE	None	27281	723	240	31824879	31881944	-1	None	None
12	AMN1	ENSG00000151743	ENST00000541931	protein_coding	PUTATIVE	None	27281	177	58	31825104	31882044	-1	None	None
12	AMN1	ENSG00000151743	ENST00000536761	protein_coding	PUTATIVE	None	27281	723	240	31825212	31881955	-1	None	None
12	AMN1	ENSG00000151743	ENST00000542781	protein_coding	PUTATIVE	None	27281	108	35	31826486	31881955	-1	None	None
12	AMN1	ENSG00000151743	ENST00000535408	protein_coding	PUTATIVE	None	27281	649	215	31841941	31882055	-1	None	None
12	AMN1	ENSG00000151743	ENST00000537960	protein_coding	PUTATIVE	None	27281	262	86	31854797	31881953	-1	None	None
12	AMN1	ENSG00000151743	ENST00000506446	protein_coding	PUTATIVE	None	27281	317	104	31854802	31867885	-1	None	None
12	AMN1	ENSG00000151743	ENST00000457428	protein_coding	PUTATIVE	None	27281	295	97	31854933	31881955	-1	None	None
12	AMN1	ENSG00000151743	ENST00000541541	processed_transcript	KNOWN	None	27281	None	None	31861504	31881955	-1	None	None
12	AMN1	ENSG00000151743	ENST00000422146	processed_transcript	KNOWN	None	27281	None	None	31861892	31881991	-1	None	None
12	AMN1	ENSG00000151743	ENST00000509386	processed_transcript	KNOWN	None	27281	None	None	31862014	31882034	-1	None	None
20	RN7SL170P	ENSG00000241821	ENST00000487098	misc_RNA	KNOWN	None	46186	None	None	55263457	55263749	1	None	None
17	None	ENSG00000263798	ENST00000582262	processed_transcript	KNOWN	None	None	None	None	46022790	46051804	1	None	None
8	MIR4286	ENSG00000263762	ENST00000580651	miRNA	KNOWN	None	38186	None	None	10524488	10524580	1	None	hsa-mir-4286
6	HLA-E	ENSG00000204592	ENST00000376630	protein_coding	KNOWN	CCDS34379	4962	1077	358	30457244	30461982	1	None	None
6	HLA-E	ENSG00000204592	ENST00000484194	retained_intron	KNOWN	None	4962	None	None	30457287	30458142	1	None	None
6	HLA-E	ENSG00000204592	ENST00000493699	retained_intron	KNOWN	None	4962	None	None	30457289	30459060	1	None	None
4	DAPP1	ENSG00000070190	ENST00000296414	protein_coding	PUTATIVE	None	16500	792	263	100737990	100791311	1	None	BAM32
4	DAPP1	ENSG00000070190	ENST00000512369	protein_coding	KNOWN	CCDS47112	16500	843	280	100738003	100789871	1	None	BAM32
4	DAPP1	ENSG00000070190	ENST00000507994	retained_intron	KNOWN	None	16500	None	None	100738007	100785443	1	None	BAM32
4	DAPP1	ENSG00000070190	ENST00000514301	retained_intron	KNOWN	None	16500	None	None	100786029	100790771	1	None	BAM32
4	PDE5A	ENSG00000138735	ENST00000354960	protein_coding	KNOWN	CCDS3713	8784	2628	875	120415550	120550146	-1	None	None
4	PDE5A	ENSG00000138735	ENST00000264805	protein_coding	KNOWN	CCDS34055	8784	2502	833	120419696	120548788	-1	None	None
4	PDE5A	ENSG00000138735	ENST00000503412	protein_coding	PUTATIVE	None	8784	557	184	120421978	120440254	-1	None	None
4	PDE5A	ENSG00000138735	ENST00000512494	retained_intron	KNOWN	None	8784	None	None	120423545	120427090	-1	None	None
4	PDE5A	ENSG00000138735	ENST00000509612	retained_intron	KNOWN	None	8784	None	None	120428808	120440797	-1	None	None
4	PDE5A	ENSG00000138735	ENST00000513594	processed_transcript	KNOWN	None	8784	None	None	120438215	120460253	-1	None	None
4	PDE5A	ENSG00000138735	ENST00000512450	processed_transcript	KNOWN	None	8784	None	None	120440234	120448431	-1	None	None
4	PDE5A	ENSG00000138735	ENST00000512739	processed_transcript	KNOWN	None	8784	None	None	120442155	120464452	-1	None	None
4	PDE5A	ENSG00000138735	ENST00000502912	processed_transcript	KNOWN	None	8784	None	None	120459936	120463157	-1	None	None
4	PDE5A	ENSG00000138735	ENST00000508914	retained_intron	KNOWN	None	8784	None	None	120473596	120484127	-1	None	None
4	PDE5A	ENSG00000138735	ENST00000420633	protein_coding	PUTATIVE	None	8784	672	223	120517681	120549220	-1	None	None
4	PDE5A	ENSG00000138735	ENST00000394439	protein_coding	KNOWN	None	8784	2472	823	120415552	120549202	-1	None	None
15	SNORD115-20	ENSG00000201969	ENST00000365099	snoRNA	KNOWN	None	33039	None	None	25451409	25451490	1	None	HBII-52-20
3	None	ENSG00000229178	ENST00000423600	lincRNA	KNOWN	None	None	None	None	195382436	195384798	-1	None	None
14	None	ENSG00000258493	ENST00000553815	processed_pseudogene	KNOWN	None	None	None	None	35390071	35390212	1	None	None
2	None	ENSG00000230686	ENST00000431351	antisense	KNOWN	None	None	None	None	191882680	191883805	1	None	None
19	None	ENSG00000266631	ENST00000580957	miRNA	NOVEL	None	None	None	None	56907685	56907770	-1	None	None
17	None	ENSG00000264019	ENST00000580372	antisense	KNOWN	None	None	None	None	46024168	46025638	-1	None	None
17	None	ENSG00000264019	ENST00000582142	antisense	KNOWN	None	None	None	None	46024921	46025641	-1	None	None
12	None	ENSG00000256963	ENST00000538389	processed_pseudogene	KNOWN	None	None	None	None	121517645	121517927	1	None	None
15	None	ENSG00000242327	ENST00000486386	processed_pseudogene	KNOWN	None	None	None	None	52387492	52387944	1	None	None
2	None	ENSG00000231858	ENST00000456176	antisense	KNOWN	None	None	None	None	191886252	191897040	1	None	None
2	None	ENSG00000231858	ENST00000429796	retained_intron	KNOWN	None	None	None	None	191895477	191897040	1	None	None
20	PTMAP6	ENSG00000237000	ENST00000439110	processed_pseudogene	KNOWN	None	16573	None	None	55275893	55276570	-1	None	dJ539E24.2
17	None	ENSG00000267506	ENST00000592651	lincRNA	KNOWN	None	None	None	None	75543022	75544076	1	None	None
17	None	ENSG00000267506	ENST00000590398	lincRNA	KNOWN	None	None	None	None	75543023	75559325	1	None	None
17	None	ENSG00000267506	ENST00000591283	lincRNA	KNOWN	None	None	None	None	75554224	75559325	1	None	None
X	None	ENSG00000239058	ENST00000459499	snoRNA	NOVEL	None	None	None	None	123267134	123267227	1	None	None
12	MVK	ENSG00000110921	ENST00000539335	protein_coding	KNOWN	None	7530	512	169	110011060	110019340	1	None	LRBP, MK
12	MVK	ENSG00000110921	ENST00000546277	protein_coding	KNOWN	None	7530	602	199	110011107	110023901	1	None	LRBP, MK
12	MVK	ENSG00000110921	ENST00000535044	processed_transcript	KNOWN	None	7530	None	None	110011146	110023903	1	None	LRBP, MK
12	MVK	ENSG00000110921	ENST00000447878	nonsense_mediated_decay	KNOWN	None	7530	252	83	110011598	110035041	1	None	LRBP, MK
12	MVK	ENSG00000110921	ENST00000539696	protein_coding	PUTATIVE	None	7530	348	115	110011610	110034482	1	None	LRBP, MK
12	MVK	ENSG00000110921	ENST00000228510	protein_coding	KNOWN	CCDS9132	7530	1191	396	110011617	110035067	1	None	LRBP, MK
12	MVK	ENSG00000110921	ENST00000537237	nonsense_mediated_decay	KNOWN	None	7530	354	117	110011619	110034386	1	None	LRBP, MK
12	MVK	ENSG00000110921	ENST00000545774	nonsense_mediated_decay	KNOWN	None	7530	252	83	110011637	110024874	1	None	LRBP, MK
12	MVK	ENSG00000110921	ENST00000392727	protein_coding	NOVEL	None	7530	1035	344	110011642	110035066	1	None	LRBP, MK
12	MVK	ENSG00000110921	ENST00000545516	retained_intron	KNOWN	None	7530	None	None	110019284	110024904	1	None	LRBP, MK
12	MVK	ENSG00000110921	ENST00000540353	retained_intron	KNOWN	None	7530	None	None	110025666	110035067	1	None	LRBP, MK
12	MVK	ENSG00000110921	ENST00000539575	protein_coding	KNOWN	None	7530	1035	344	110012612	110034426	1	None	LRBP, MK
12	MVK	ENSG00000110921	ENST00000541384	protein_coding	KNOWN	None	7530	609	202	110012612	110034551	1	None	LRBP, MK
17	None	ENSG00000264701	ENST00000578239	antisense	KNOWN	None	None	None	None	46057764	46073562	-1	None	None
8	RNA5SP252	ENSG00000212433	ENST00000391131	rRNA	KNOWN	None	43152	None	None	10544079	10544197	1	RN5S252	None
9	RNU6-669P	ENSG00000202445	ENST00000365575	snRNA	KNOWN	None	47632	None	None	97270020	97270126	1	None	None
17	KYNUP3	ENSG00000263206	ENST00000574386	transcribed_unprocessed_pseudogene	KNOWN	None	39201	None	None	19111897	19114672	1	None	None
15	None	ENSG00000259327	ENST00000559825	lincRNA	KNOWN	None	None	None	None	52408771	52414328	1	None	None
17	MIR152	ENSG00000207947	ENST00000385212	miRNA	KNOWN	None	31538	None	None	46114527	46114613	-1	MIRN152	hsa-mir-152
19	ZNF667-AS1	ENSG00000166770	ENST00000588685	lincRNA	KNOWN	None	44321	None	None	56988619	56990056	1	None	None
19	ZNF667-AS1	ENSG00000166770	ENST00000586822	lincRNA	KNOWN	None	44321	None	None	56988972	57005676	1	None	None
19	ZNF667-AS1	ENSG00000166770	ENST00000585445	lincRNA	KNOWN	None	44321	None	None	56989500	57006801	1	None	None
19	ZNF667-AS1	ENSG00000166770	ENST00000586091	lincRNA	KNOWN	None	44321	None	None	56989524	57006687	1	None	None
19	ZNF667-AS1	ENSG00000166770	ENST00000594783	lincRNA	KNOWN	None	44321	None	None	56989526	57005696	1	None	None
19	ZNF667-AS1	ENSG00000166770	ENST00000592146	lincRNA	KNOWN	None	44321	None	None	56989552	57006804	1	None	None
19	ZNF667-AS1	ENSG00000166770	ENST00000588158	lincRNA	KNOWN	None	44321	None	None	56989552	57012035	1	None	None
19	ZNF667-AS1	ENSG00000166770	ENST00000591797	lincRNA	KNOWN	None	44321	None	None	56989559	57005688	1	None	None
19	ZNF667-AS1	ENSG00000166770	ENST00000601875	lincRNA	KNOWN	None	44321	None	None	56989609	57005972	1	None	None
19	ZNF667-AS1	ENSG00000166770	ENST00000299997	lincRNA	KNOWN	None	44321	None	None	56989552	57006801	1	None	None
19	None	ENSG00000269755	ENST00000598753	nonsense_mediated_decay	KNOWN	None	None	243	80	12543917	12595630	-1	None	None
9	PCAT7	ENSG00000231806	ENST00000452148	retained_intron	KNOWN	None	48824	None	None	97317351	97330409	1	None	PCAN-R2
3	FECHP1	ENSG00000235534	ENST00000431896	processed_pseudogene	KNOWN	None	3648	None	None	34914133	34915346	1	FECHP	None
2	RNU6-959P	ENSG00000207402	ENST00000384671	snRNA	KNOWN	None	47922	None	None	191986676	191986782	1	None	None
17	None	ENSG00000263412	ENST00000578660	retained_intron	KNOWN	None	None	None	None	46122503	46125412	-1	None	None
17	None	ENSG00000263412	ENST00000584428	antisense	KNOWN	None	None	None	None	46124243	46125435	-1	None	None
15	None	ENSG00000259709	ENST00000557898	antisense	KNOWN	None	None	None	None	52416758	52431232	1	None	None
15	None	ENSG00000259709	ENST00000560613	antisense	KNOWN	None	None	None	None	52430625	52432443	1	None	None
X	ZIK1P1	ENSG00000237426	ENST00000456074	processed_pseudogene	KNOWN	None	38031	None	None	123306851	123308309	-1	None	None
2	HMGB1P27	ENSG00000230611	ENST00000431429	processed_pseudogene	KNOWN	None	39118	None	None	192038959	192039561	1	None	None
9	MIR2278	ENSG00000252153	ENST00000516344	miRNA	KNOWN	None	37315	None	None	97572244	97572339	1	None	hsa-mir-2278
9	None	ENSG00000224549	ENST00000448570	lincRNA	KNOWN	None	None	None	None	22767174	22768315	1	None	None
17	None	ENSG00000267466	ENST00000585798	lincRNA	KNOWN	None	None	None	None	75559450	75564777	-1	None	None
9	None	ENSG00000230815	ENST00000437846	sense_intronic	KNOWN	None	None	None	None	97586554	97587055	1	None	None
1	HTR6	ENSG00000158748	ENST00000289753	protein_coding	KNOWN	CCDS197	5301	1323	440	19991780	20006055	1	None	5-HT6, 5-HT6R
3	RPL21P43	ENSG00000231688	ENST00000425440	processed_pseudogene	KNOWN	None	36008	None	None	168576447	168576918	-1	None	None
17	None	ENSG00000267790	ENST00000593118	lincRNA	KNOWN	None	None	None	None	75718954	75724641	-1	None	None
17	None	ENSG00000266341	ENST00000583349	antisense	KNOWN	None	None	None	None	46137745	46138031	-1	None	None
9	None	ENSG00000265572	ENST00000578068	miRNA	NOVEL	None	None	None	None	22953018	22953102	-1	None	None
2	None	ENSG00000227542	ENST00000419640	lincRNA	KNOWN	None	None	None	None	192093891	192110898	-1	None	None
22	RIMBP3	ENSG00000196622	ENST00000426804	protein_coding	KNOWN	CCDS46665	29344	4920	1639	20456003	20461786	-1	None	KIAA1666, RIMBP3.1, RIMBP3A
11	ESRRA	ENSG00000173153	ENST00000406310	protein_coding	KNOWN	None	3471	1269	422	64073044	64084210	1	ESRL1	ERR1, ERRalpha, NR3B1, ERRa
11	ESRRA	ENSG00000173153	ENST00000000442	protein_coding	KNOWN	CCDS41667	3471	1272	423	64073050	64084210	1	ESRL1	ERR1, ERRalpha, NR3B1, ERRa
11	ESRRA	ENSG00000173153	ENST00000539594	protein_coding	PUTATIVE	None	3471	486	161	64073052	64082645	1	ESRL1	ERR1, ERRalpha, NR3B1, ERRa
11	ESRRA	ENSG00000173153	ENST00000405666	protein_coding	KNOWN	CCDS41667	3471	1272	423	64073699	64084215	1	ESRL1	ERR1, ERRalpha, NR3B1, ERRa
11	ESRRA	ENSG00000173153	ENST00000468670	protein_coding	KNOWN	None	3471	329	108	64073918	64074980	1	ESRL1	ERR1, ERRalpha, NR3B1, ERRa
11	ESRRA	ENSG00000173153	ENST00000467987	retained_intron	KNOWN	None	3471	None	None	64081243	64083362	1	ESRL1	ERR1, ERRalpha, NR3B1, ERRa
11	ESRRA	ENSG00000173153	ENST00000545035	protein_coding	NOVEL	None	3471	593	196	64081756	64083501	1	ESRL1	ERR1, ERRalpha, NR3B1, ERRa
9	SUMO2P2	ENSG00000227607	ENST00000456482	processed_pseudogene	KNOWN	None	39012	None	None	23632104	23632358	1	None	None
17	RNU1-80P	ENSG00000238898	ENST00000459500	snRNA	KNOWN	None	48422	None	None	75916180	75916340	1	None	None
17	RNU6-1201P	ENSG00000206954	ENST00000384227	snRNA	KNOWN	None	48164	None	None	46166040	46166146	-1	None	None
6	VN1R11P	ENSG00000219770	ENST00000407795	unitary_pseudogene	KNOWN	None	13551	None	None	27051059	27051926	1	None	dJ86C11.7, hs6V1-2p, VNR6I2P
17	EPN2-AS1	ENSG00000235397	ENST00000451099	antisense	KNOWN	None	40849	None	None	19199909	19209574	-1	None	None
17	UBE2V2P2	ENSG00000267463	ENST00000587677	processed_pseudogene	KNOWN	None	44887	None	None	76062339	76062842	-1	None	None
17	MIR1203	ENSG00000221739	ENST00000408812	miRNA	KNOWN	None	35269	None	None	46233789	46233873	-1	MIRN1203	hsa-mir-1203
9	None	ENSG00000236095	ENST00000416455	sense_intronic	KNOWN	None	None	None	None	97662711	97667036	1	None	None
6	RNU2-62P	ENSG00000222800	ENST00000410868	snRNA	KNOWN	None	48555	None	None	27077569	27077759	-1	None	None
19	None	ENSG00000271182	ENST00000605470	processed_pseudogene	KNOWN	None	None	None	None	21817635	21817977	-1	None	None
9	None	ENSG00000233906	ENST00000440888	lincRNA	KNOWN	None	None	None	None	23671786	23672397	-1	None	None
HSCHR6_MHC_COX	None	ENSG00000269730	ENST00000595089	protein_coding	NOVEL	None	None	72	23	31471969	31472444	1	None	None
8	None	ENSG00000254254	ENST00000518662	antisense	KNOWN	None	None	None	None	57358366	57464626	1	None	None
8	None	ENSG00000254254	ENST00000522511	antisense	KNOWN	None	None	None	None	57401657	57439695	1	None	None
17	RNU6-625P	ENSG00000238658	ENST00000459412	snRNA	KNOWN	None	47588	None	None	76063028	76063134	1	None	None
20	None	ENSG00000221416	ENST00000408489	miRNA	NOVEL	None	None	None	None	55293942	55294025	1	None	None
6	None	ENSG00000272468	ENST00000607175	lincRNA	KNOWN	None	None	None	None	27090436	27091000	-1	None	None
17	None	ENSG00000263787	ENST00000582246	antisense	KNOWN	None	None	None	None	46263300	46281891	1	None	None
17	None	ENSG00000265263	ENST00000581122	antisense	KNOWN	None	None	None	None	19237621	19239440	-1	None	None
1	ACAP3	ENSG00000131584	ENST00000354700	protein_coding	NOVEL	CCDS19	16754	2505	834	1227756	1243398	-1	CENTB5	KIAA1716
1	ACAP3	ENSG00000131584	ENST00000492936	retained_intron	KNOWN	None	16754	None	None	1227770	1241309	-1	CENTB5	KIAA1716
1	ACAP3	ENSG00000131584	ENST00000467278	retained_intron	KNOWN	None	16754	None	None	1228250	1234335	-1	CENTB5	KIAA1716
1	ACAP3	ENSG00000131584	ENST00000470659	retained_intron	KNOWN	None	16754	None	None	1229879	1230388	-1	CENTB5	KIAA1716
1	ACAP3	ENSG00000131584	ENST00000379037	processed_transcript	KNOWN	None	16754	None	None	1231816	1233645	-1	CENTB5	KIAA1716
1	ACAP3	ENSG00000131584	ENST00000476572	retained_intron	KNOWN	None	16754	None	None	1231846	1234997	-1	CENTB5	KIAA1716
1	ACAP3	ENSG00000131584	ENST00000493992	retained_intron	KNOWN	None	16754	None	None	1233217	1233621	-1	CENTB5	KIAA1716
1	ACAP3	ENSG00000131584	ENST00000472541	retained_intron	KNOWN	None	16754	None	None	1234124	1244989	-1	CENTB5	KIAA1716
1	ACAP3	ENSG00000131584	ENST00000354980	nonsense_mediated_decay	KNOWN	None	16754	159	52	1235576	1243201	-1	CENTB5	KIAA1716
1	ACAP3	ENSG00000131584	ENST00000478065	retained_intron	KNOWN	None	16754	None	None	1236828	1240281	-1	CENTB5	KIAA1716
1	ACAP3	ENSG00000131584	ENST00000479108	retained_intron	KNOWN	None	16754	None	None	1237236	1243210	-1	CENTB5	KIAA1716
1	ACAP3	ENSG00000131584	ENST00000438966	processed_transcript	KNOWN	None	16754	None	None	1238590	1243198	-1	CENTB5	KIAA1716
1	ACAP3	ENSG00000131584	ENST00000353662	protein_coding	KNOWN	None	16754	2280	759	1227764	1243269	-1	CENTB5	KIAA1716
17	None	ENSG00000224512	ENST00000544529	pseudogene	KNOWN	None	None	None	None	76101532	76102949	1	None	None
9	None	ENSG00000224764	ENST00000439872	antisense	KNOWN	None	None	None	None	97690833	97697228	-1	None	None
13	None	ENSG00000228886	ENST00000420693	lincRNA	KNOWN	None	None	None	None	45924458	45925485	1	None	None
9	None	ENSG00000226626	ENST00000447491	processed_pseudogene	KNOWN	None	None	None	None	23681892	23682660	1	None	None
3	NRROS	ENSG00000174004	ENST00000328557	protein_coding	KNOWN	CCDS3319	24613	2079	692	196366557	196388875	1	LRRC33	UNQ3030, ELLP3030, MGC50789, GARPL1
3	NRROS	ENSG00000174004	ENST00000461791	retained_intron	KNOWN	None	24613	None	None	196366628	196381864	1	LRRC33	UNQ3030, ELLP3030, MGC50789, GARPL1
6	MIR3143	ENSG00000265565	ENST00000584253	miRNA	KNOWN	None	38284	None	None	27115405	27115467	1	None	hsa-mir-3143
9	DBH	ENSG00000123454	ENST00000393056	protein_coding	KNOWN	CCDS6977	2689	1854	617	136501482	136524466	1	None	DBM
9	DBH	ENSG00000123454	ENST00000263611	protein_coding	NOVEL	None	2689	733	243	136501500	136508712	1	None	DBM
3	None	ENSG00000242268	ENST00000484765	lincRNA	KNOWN	None	None	None	None	168621154	168639784	1	None	None
17	MIR1180	ENSG00000221540	ENST00000408613	miRNA	KNOWN	None	35261	None	None	19247819	19247887	-1	MIRN1180	hsa-mir-1180
13	RCN1P2	ENSG00000214455	ENST00000398357	processed_pseudogene	KNOWN	None	39204	None	None	45964488	45965402	-1	None	None
13	RCN1P2	ENSG00000214455	ENST00000545120	processed_pseudogene	KNOWN	None	39204	None	None	45964486	45964983	-1	None	None
19	None	ENSG00000268278	ENST00000600907	unprocessed_pseudogene	KNOWN	None	None	None	None	21820776	21839102	1	None	None
11	RNU6-99P	ENSG00000201591	ENST00000364721	snRNA	KNOWN	None	47062	None	None	39282657	39282763	1	None	None
19	None	ENSG00000267224	ENST00000592125	lincRNA	KNOWN	None	None	None	None	57046668	57047132	1	None	None
17	TNRC6C-AS1	ENSG00000204282	ENST00000592939	retained_intron	KNOWN	None	44360	None	None	76103479	76106416	-1	None	None
17	TNRC6C-AS1	ENSG00000204282	ENST00000589217	antisense	KNOWN	None	44360	None	None	76103479	76107880	-1	None	None
17	TNRC6C-AS1	ENSG00000204282	ENST00000374976	processed_transcript	KNOWN	None	44360	None	None	76103480	76106416	-1	None	None
20	None	ENSG00000231604	ENST00000458293	lincRNA	KNOWN	None	None	None	None	55305453	55306516	1	None	None
9	None	ENSG00000231460	ENST00000423440	lincRNA	KNOWN	None	None	None	None	23829668	23849912	1	None	None
9	MIR23B	ENSG00000207563	ENST00000384832	miRNA	KNOWN	None	31606	None	None	97847490	97847586	1	MIRN23B	hsa-mir-23b
11	None	ENSG00000264020	ENST00000408499	miRNA	NOVEL	None	None	None	None	39752359	39752453	1	None	None
17	None	ENSG00000265126	ENST00000579897	antisense	KNOWN	None	None	None	None	19315099	19316431	-1	None	None
3	DOCK3	ENSG00000088538	ENST00000266037	protein_coding	KNOWN	CCDS46835	2989	6093	2030	50712672	51421629	1	None	KIAA0299, MOCA, PBP
19	None	ENSG00000268433	ENST00000594186	processed_pseudogene	KNOWN	None	None	None	None	21860352	21861023	-1	None	None
12	None	ENSG00000245017	ENST00000501499	protein_coding	PUTATIVE	None	None	243	80	98879322	98897633	-1	None	None
12	None	ENSG00000245017	ENST00000549004	processed_transcript	KNOWN	None	None	None	None	98880751	98884864	-1	None	None
11	None	ENSG00000221804	ENST00000408877	miRNA	NOVEL	None	None	None	None	39883056	39883144	-1	None	None
9	MIR27B	ENSG00000207864	ENST00000385129	miRNA	KNOWN	None	31614	None	None	97847727	97847823	1	MIRN27B	hsa-mir-27b, MIR-27b
19	None	ENSG00000266008	ENST00000579236	miRNA	NOVEL	None	None	None	None	21880209	21880317	1	None	None
17	None	ENSG00000227078	ENST00000437646	lincRNA	KNOWN	None	None	None	None	19322348	19327670	1	None	None
18	MIR4319	ENSG00000265957	ENST00000577285	miRNA	KNOWN	None	38212	None	None	42550047	42550131	-1	None	hsa-mir-4319
22	FAM230A	ENSG00000188280	ENST00000434783	protein_coding	KNOWN	None	45045	2718	905	20692438	20716938	1	None	None
22	FAM230A	ENSG00000188280	ENST00000583722	protein_coding	PUTATIVE	None	45045	249	82	20703829	20706785	1	None	None
HG186_PATCH	VPRBP	ENSG00000260623	ENST00000566027	protein_coding	KNOWN	None	30911	4524	1507	51433298	51537416	-1	None	KIAA0800, MGC102804, DCAF1
HG186_PATCH	VPRBP	ENSG00000260623	ENST00000563997	protein_coding	KNOWN	None	30911	4524	1507	51433298	51537425	-1	None	KIAA0800, MGC102804, DCAF1
HG186_PATCH	VPRBP	ENSG00000260623	ENST00000568533	nonsense_mediated_decay	KNOWN	None	30911	3403	1133	51433299	51478407	-1	None	KIAA0800, MGC102804, DCAF1
HG186_PATCH	VPRBP	ENSG00000260623	ENST00000562688	protein_coding	KNOWN	None	30911	2505	834	51435275	51458381	-1	None	KIAA0800, MGC102804, DCAF1
HG186_PATCH	VPRBP	ENSG00000260623	ENST00000564971	nonsense_mediated_decay	KNOWN	None	30911	102	33	51440698	51454256	-1	None	KIAA0800, MGC102804, DCAF1
1	None	ENSG00000215791	ENST00000539195	pseudogene	KNOWN	None	None	None	None	1497726	1499904	-1	None	None
11	None	ENSG00000270588	ENST00000604322	processed_pseudogene	KNOWN	None	None	None	None	39895332	39895938	1	None	None
19	None	ENSG00000268535	ENST00000600287	processed_pseudogene	KNOWN	None	None	None	None	21892324	21892993	1	None	None
17	EIF5AP2	ENSG00000267679	ENST00000585668	processed_pseudogene	KNOWN	None	3303	None	None	76153484	76155216	1	None	None
9	None	ENSG00000237414	ENST00000446754	lincRNA	KNOWN	None	None	None	None	23894988	23898052	-1	None	None
13	SLC25A30-AS1	ENSG00000251015	ENST00000506633	lincRNA	KNOWN	None	42795	None	None	45992297	45994506	1	None	None
1	SLC35E2	ENSG00000215790	ENST00000355439	protein_coding	KNOWN	CCDS55560	20863	741	246	1656277	1677358	-1	None	KIAA0447
1	SLC35E2	ENSG00000215790	ENST00000246421	protein_coding	KNOWN	CCDS33	20863	801	266	1663681	1677431	-1	None	KIAA0447
1	SLC35E2	ENSG00000215790	ENST00000475229	processed_transcript	KNOWN	None	20863	None	None	1663697	1666713	-1	None	KIAA0447
1	SLC35E2	ENSG00000215790	ENST00000400924	protein_coding	KNOWN	CCDS55560	20863	741	246	1656853	1677431	-1	None	KIAA0447
19	VN1R84P	ENSG00000268117	ENST00000593697	unprocessed_pseudogene	KNOWN	None	37404	None	None	21902603	21902837	-1	None	None
17	RNU6-1152P	ENSG00000207306	ENST00000384576	snRNA	KNOWN	None	48115	None	None	46274042	46274148	-1	None	None
20	RNU6-929P	ENSG00000207158	ENST00000384429	snRNA	KNOWN	None	47892	None	None	55361037	55361143	-1	None	None
5	FNIP1	ENSG00000217128	ENST00000514667	protein_coding	PUTATIVE	None	29418	4956	1651	130761584	131132676	-1	None	KIAA1961
5	FNIP1	ENSG00000217128	ENST00000307968	protein_coding	KNOWN	CCDS34226	29418	3417	1138	130977407	131132614	-1	None	KIAA1961
5	FNIP1	ENSG00000217128	ENST00000307954	protein_coding	NOVEL	None	29418	3366	1121	130977407	131132643	-1	None	KIAA1961
5	FNIP1	ENSG00000217128	ENST00000510461	protein_coding	KNOWN	CCDS34227	29418	3501	1166	130980130	131132710	-1	None	KIAA1961
5	FNIP1	ENSG00000217128	ENST00000511848	protein_coding	KNOWN	None	29418	1527	508	131013290	131132709	-1	None	KIAA1961
18	None	ENSG00000267101	ENST00000589845	antisense	KNOWN	None	None	None	None	42710530	42761312	-1	None	None
18	None	ENSG00000267101	ENST00000587276	antisense	KNOWN	None	None	None	None	42748565	42761079	-1	None	None
19	None	ENSG00000267421	ENST00000590579	lincRNA	KNOWN	None	None	None	None	57047525	57049787	-1	None	None
19	None	ENSG00000267421	ENST00000601933	lincRNA	KNOWN	None	None	None	None	57047527	57049684	-1	None	None
19	None	ENSG00000267421	ENST00000587920	lincRNA	KNOWN	None	None	None	None	57047527	57049744	-1	None	None
19	None	ENSG00000267421	ENST00000590613	lincRNA	KNOWN	None	None	None	None	57047527	57049944	-1	None	None
19	None	ENSG00000267421	ENST00000593218	lincRNA	KNOWN	None	None	None	None	57049017	57049800	-1	None	None
9	MIR3074	ENSG00000207617	ENST00000384885	miRNA	KNOWN	None	38268	None	None	97848296	97848376	-1	None	hsa-mir-3074
11	None	ENSG00000255347	ENST00000525564	processed_pseudogene	KNOWN	None	None	None	None	40105260	40106067	-1	None	None
17	None	ENSG00000265335	ENST00000583500	snoRNA	NOVEL	None	None	None	None	19323592	19323655	1	None	None
19	None	ENSG00000269845	ENST00000596710	processed_transcript	KNOWN	None	None	None	None	21933549	21936240	1	None	None
19	None	ENSG00000269845	ENST00000597012	transcribed_processed_pseudogene	KNOWN	None	None	None	None	21933649	21934721	1	None	None
17	None	ENSG00000267624	ENST00000588528	processed_pseudogene	KNOWN	None	None	None	None	76207699	76207989	-1	None	None
11	None	ENSG00000255110	ENST00000526238	unprocessed_pseudogene	KNOWN	None	None	None	None	55047425	55047765	1	None	None
17	None	ENSG00000235300	ENST00000421610	antisense	KNOWN	None	None	None	None	46371709	46385191	1	None	None
17	None	ENSG00000235300	ENST00000604191	antisense	KNOWN	None	None	None	None	46371737	46385062	1	None	None
17	None	ENSG00000235300	ENST00000581362	antisense	KNOWN	None	None	None	None	46384690	46386124	1	None	None
9	None	ENSG00000269957	ENST00000602851	lincRNA	KNOWN	None	None	None	None	24545950	24591991	1	None	None
9	None	ENSG00000269957	ENST00000602614	lincRNA	KNOWN	None	None	None	None	24545996	24553237	1	None	None
13	PPIAP25	ENSG00000229303	ENST00000420177	processed_pseudogene	KNOWN	None	39270	None	None	46010256	46010795	1	None	None
9	None	ENSG00000229065	ENST00000423075	antisense	KNOWN	None	None	None	None	97875990	97876743	1	None	None
19	None	ENSG00000265084	ENST00000579465	miRNA	NOVEL	None	None	None	None	21935813	21935885	1	None	None
11	None	ENSG00000254696	ENST00000533055	unprocessed_pseudogene	KNOWN	None	None	None	None	55049978	55050453	1	None	None
6	ECT2L	ENSG00000203734	ENST00000423192	protein_coding	KNOWN	CCDS43508	21118	2715	904	139117063	139225207	1	C6orf91	ARHGEF32, FBXO49, LFDH
6	ECT2L	ENSG00000203734	ENST00000401414	protein_coding	KNOWN	None	21118	232	76	139117120	139159541	1	C6orf91	ARHGEF32, FBXO49, LFDH
6	ECT2L	ENSG00000203734	ENST00000495970	processed_transcript	KNOWN	None	21118	None	None	139170515	139191412	1	C6orf91	ARHGEF32, FBXO49, LFDH
6	ECT2L	ENSG00000203734	ENST00000367682	protein_coding	KNOWN	CCDS43508	21118	2715	904	139134309	139225207	1	C6orf91	ARHGEF32, FBXO49, LFDH
6	ECT2L	ENSG00000203734	ENST00000541398	protein_coding	KNOWN	None	21118	2277	758	139135679	139223905	1	C6orf91	ARHGEF32, FBXO49, LFDH
17	THA1P	ENSG00000267676	ENST00000590384	unitary_pseudogene	KNOWN	None	18004	None	None	76244574	76250497	-1	None	GLY1
17	None	ENSG00000235979	ENST00000456537	lincRNA	KNOWN	None	None	None	None	19342456	19364048	-1	None	None
17	None	ENSG00000235979	ENST00000585389	lincRNA	KNOWN	None	None	None	None	19351470	19364305	-1	None	None
17	None	ENSG00000235979	ENST00000601694	lincRNA	KNOWN	None	None	None	None	19351471	19353730	-1	None	None
17	None	ENSG00000235979	ENST00000421796	lincRNA	KNOWN	None	None	None	None	19351555	19364297	-1	None	None
20	None	ENSG00000251772	ENST00000515963	miRNA	NOVEL	None	None	None	None	55575143	55575213	1	None	None
3	KRT8P18	ENSG00000228767	ENST00000413425	processed_pseudogene	KNOWN	None	33370	None	None	35257197	35258641	-1	None	None
11	KCNQ1	ENSG00000053918	ENST00000496887	protein_coding	PUTATIVE	None	6294	580	192	2465914	2594136	1	LQT, KCNA9	Kv7.1, KCNA8, KVLQT1, JLNS1, LQT1
11	KCNQ1	ENSG00000053918	ENST00000155840	protein_coding	KNOWN	CCDS7736	6294	2031	676	2466221	2870339	1	LQT, KCNA9	Kv7.1, KCNA8, KVLQT1, JLNS1, LQT1
11	KCNQ1	ENSG00000053918	ENST00000345015	processed_transcript	KNOWN	None	6294	None	None	2466552	2549206	1	LQT, KCNA9	Kv7.1, KCNA8, KVLQT1, JLNS1, LQT1
11	KCNQ1	ENSG00000053918	ENST00000335475	protein_coding	KNOWN	None	6294	1650	549	2482666	2869468	1	LQT, KCNA9	Kv7.1, KCNA8, KVLQT1, JLNS1, LQT1
11	KCNQ1	ENSG00000053918	ENST00000380776	protein_coding	PUTATIVE	None	6294	222	73	2483117	2549203	1	LQT, KCNA9	Kv7.1, KCNA8, KVLQT1, JLNS1, LQT1
11	KCNQ1	ENSG00000053918	ENST00000526095	processed_transcript	PUTATIVE	None	6294	None	None	2798805	2869741	1	LQT, KCNA9	Kv7.1, KCNA8, KVLQT1, JLNS1, LQT1
3	TOMM70A	ENSG00000154174	ENST00000284320	protein_coding	KNOWN	CCDS33807	11985	1827	608	100082275	100120242	-1	None	KIAA0719
3	TOMM70A	ENSG00000154174	ENST00000483945	retained_intron	KNOWN	None	11985	None	None	100090850	100092569	-1	None	KIAA0719
3	TOMM70A	ENSG00000154174	ENST00000492171	retained_intron	KNOWN	None	11985	None	None	100096260	100100616	-1	None	KIAA0719
6	None	ENSG00000174572	ENST00000310599	processed_pseudogene	KNOWN	None	None	None	None	27179023	27179692	1	None	None
19	None	ENSG00000268184	ENST00000598561	lincRNA	KNOWN	None	None	None	None	21951574	21976433	-1	None	None
19	None	ENSG00000268184	ENST00000593824	lincRNA	KNOWN	None	None	None	None	21971682	21976662	-1	None	None
9	None	ENSG00000223849	ENST00000433735	processed_pseudogene	KNOWN	None	None	None	None	97885803	97886150	1	None	None
1	None	ENSG00000236684	ENST00000426195	pseudogene	NOVEL	None	None	None	None	1515136	1515379	1	None	None
11	TRIM51HP	ENSG00000166007	ENST00000530412	transcribed_unprocessed_pseudogene	KNOWN	None	43977	None	None	55059359	55065746	-1	None	None
11	TRIM51HP	ENSG00000166007	ENST00000526016	processed_transcript	PUTATIVE	None	43977	None	None	55062882	55065708	-1	None	None
20	None	ENSG00000238644	ENST00000459516	miRNA	NOVEL	None	None	None	None	55629846	55629897	1	None	None
7	TAS2R38	ENSG00000257138	ENST00000547270	protein_coding	KNOWN	CCDS34765	9584	1002	333	141672431	141673573	-1	PTC	T2R61
17	RPS2P46	ENSG00000189343	ENST00000458332	processed_pseudogene	KNOWN	None	35839	None	None	19349283	19350165	-1	None	None
17	RPS2P46	ENSG00000189343	ENST00000439860	pseudogene	KNOWN	None	35839	None	None	19349246	19350169	-1	None	None
18	None	ENSG00000267097	ENST00000586330	antisense	KNOWN	None	None	None	None	43003729	43015262	-1	None	None
18	None	ENSG00000267097	ENST00000585759	antisense	KNOWN	None	None	None	None	43004075	43063183	-1	None	None
18	None	ENSG00000267097	ENST00000592899	antisense	KNOWN	None	None	None	None	43018139	43027311	-1	None	None
18	None	ENSG00000267097	ENST00000592286	antisense	KNOWN	None	None	None	None	43018151	43027588	-1	None	None
17	None	ENSG00000204277	ENST00000374945	lincRNA	KNOWN	None	None	None	None	76257430	76274573	-1	None	None
3	None	ENSG00000224503	ENST00000451073	pseudogene	NOVEL	None	None	None	None	65573177	65573725	1	None	None
13	RNA5SP27	ENSG00000200709	ENST00000363839	rRNA	KNOWN	None	42603	None	None	46125620	46125738	-1	RN5S27	None
17	None	ENSG00000266222	ENST00000579033	sense_intronic	KNOWN	None	None	None	None	46454624	46457732	-1	None	None
6	None	ENSG00000270935	ENST00000604325	processed_pseudogene	KNOWN	None	None	None	None	27235892	27237008	1	None	None
13	TIMM9P3	ENSG00000232786	ENST00000428659	processed_pseudogene	KNOWN	None	39930	None	None	46126998	46127271	-1	None	None
7	None	ENSG00000213237	ENST00000421078	processed_pseudogene	KNOWN	None	None	None	None	138088940	138089268	-1	None	None
17	None	ENSG00000200538	ENST00000363668	snoRNA	NOVEL	None	None	None	None	46459734	46459948	-1	None	None
20	None	ENSG00000231078	ENST00000442780	lincRNA	KNOWN	None	None	None	None	55680797	55682184	1	None	None
12	None	ENSG00000213736	ENST00000396004	processed_pseudogene	KNOWN	None	None	None	None	25120061	25120438	-1	None	None
17	None	ENSG00000264451	ENST00000579972	lincRNA	KNOWN	None	None	None	None	46537732	46543402	1	None	None
14	None	ENSG00000258403	ENST00000553426	lincRNA	KNOWN	None	None	None	None	62581071	62584284	1	None	None
1	None	ENSG00000272106	ENST00000607222	antisense	KNOWN	None	None	None	None	1549138	1551175	-1	None	None
19	None	ENSG00000269136	ENST00000594224	processed_pseudogene	KNOWN	None	None	None	None	21983282	21984068	1	None	None
17	None	ENSG00000231477	ENST00000435953	lincRNA	KNOWN	None	None	None	None	19360393	19361712	1	None	None
5	GPR150	ENSG00000178015	ENST00000380007	protein_coding	KNOWN	CCDS4074	23628	1305	434	94955782	94957846	1	None	PGR11
13	COX4I1P2	ENSG00000228869	ENST00000447446	processed_pseudogene	KNOWN	None	38036	None	None	46245980	46246526	1	None	None
16	HCFC1R1	ENSG00000103145	ENST00000248089	protein_coding	KNOWN	CCDS10490	21198	417	138	3072621	3074247	-1	None	HPIP, FLJ20568
16	HCFC1R1	ENSG00000103145	ENST00000574151	protein_coding	KNOWN	CCDS32375	21198	360	119	3072626	3073962	-1	None	HPIP, FLJ20568
16	HCFC1R1	ENSG00000103145	ENST00000576921	retained_intron	KNOWN	None	21198	None	None	3072626	3074270	-1	None	HPIP, FLJ20568
16	HCFC1R1	ENSG00000103145	ENST00000573095	retained_intron	KNOWN	None	21198	None	None	3072627	3074216	-1	None	HPIP, FLJ20568
16	HCFC1R1	ENSG00000103145	ENST00000572355	protein_coding	PUTATIVE	None	21198	297	98	3072630	3074235	-1	None	HPIP, FLJ20568
16	HCFC1R1	ENSG00000103145	ENST00000575214	retained_intron	KNOWN	None	21198	None	None	3072664	3074262	-1	None	HPIP, FLJ20568
16	HCFC1R1	ENSG00000103145	ENST00000574980	protein_coding	KNOWN	CCDS10490	21198	417	138	3072677	3074262	-1	None	HPIP, FLJ20568
16	HCFC1R1	ENSG00000103145	ENST00000354679	protein_coding	NOVEL	None	21198	411	136	3072842	3074274	-1	None	HPIP, FLJ20568
16	HCFC1R1	ENSG00000103145	ENST00000573842	protein_coding	KNOWN	None	21198	362	119	3072919	3074287	-1	None	HPIP, FLJ20568
16	HCFC1R1	ENSG00000103145	ENST00000396916	protein_coding	KNOWN	CCDS10490	21198	417	138	3072626	3074287	-1	None	HPIP, FLJ20568
17	None	ENSG00000206805	ENST00000384078	misc_RNA	NOVEL	None	None	None	None	46556459	46556560	1	None	None
19	None	ENSG00000268438	ENST00000599991	processed_pseudogene	KNOWN	None	None	None	None	22009315	22010081	1	None	None
17	None	ENSG00000267737	ENST00000586321	lincRNA	KNOWN	None	None	None	None	76311810	76343879	1	None	None
17	None	ENSG00000267737	ENST00000586583	lincRNA	KNOWN	None	None	None	None	76338818	76340438	1	None	None
17	None	ENSG00000263726	ENST00000582654	lincRNA	KNOWN	None	None	None	None	19374432	19396273	-1	None	None
2	POMC	ENSG00000115138	ENST00000405623	protein_coding	KNOWN	CCDS1717	9201	804	267	25383784	25391772	-1	None	MSH, POC, CLIP, ACTH, NPP, LPH
2	POMC	ENSG00000115138	ENST00000264708	protein_coding	KNOWN	CCDS1717	9201	804	267	25383854	25391440	-1	None	MSH, POC, CLIP, ACTH, NPP, LPH
2	POMC	ENSG00000115138	ENST00000395826	protein_coding	KNOWN	CCDS1717	9201	804	267	25383922	25391473	-1	None	MSH, POC, CLIP, ACTH, NPP, LPH
2	POMC	ENSG00000115138	ENST00000449220	protein_coding	KNOWN	None	9201	739	245	25384015	25391440	-1	None	MSH, POC, CLIP, ACTH, NPP, LPH
2	POMC	ENSG00000115138	ENST00000380794	protein_coding	KNOWN	CCDS1717	9201	804	267	25383722	25391559	-1	None	MSH, POC, CLIP, ACTH, NPP, LPH
11	None	ENSG00000255558	ENST00000531136	lincRNA	KNOWN	None	None	None	None	13076162	13156386	-1	None	None
15	None	ENSG00000259737	ENST00000558963	lincRNA	KNOWN	None	None	None	None	36731173	36736713	-1	None	None
15	None	ENSG00000259737	ENST00000558262	lincRNA	KNOWN	None	None	None	None	36733819	36752650	-1	None	None
15	None	ENSG00000259737	ENST00000558875	lincRNA	KNOWN	None	None	None	None	36735738	36763217	-1	None	None
3	CYCSP12	ENSG00000224263	ENST00000437729	processed_pseudogene	KNOWN	None	24386	None	None	11920304	11920603	-1	CYCSP13	HCP12, HCP13
3	ILF2P1	ENSG00000244226	ENST00000486302	processed_pseudogene	KNOWN	None	44695	None	None	65672976	65674143	1	None	None
17	RPL17P43	ENSG00000228331	ENST00000422360	processed_pseudogene	KNOWN	None	35996	None	None	19400256	19400841	1	None	None
X	None	ENSG00000226110	ENST00000458382	processed_pseudogene	KNOWN	None	None	None	None	53795484	53795717	-1	None	None
7	None	ENSG00000202072	ENST00000365202	misc_RNA	NOVEL	None	None	None	None	138100225	138100319	1	None	None
12	MIR492	ENSG00000208038	ENST00000385303	miRNA	KNOWN	None	32081	None	None	95228174	95228289	1	MIRN492	hsa-mir-492
17	HOXB-AS1	ENSG00000230148	ENST00000504972	antisense	KNOWN	None	43744	None	None	46620913	46623449	1	None	None
17	HOXB-AS1	ENSG00000230148	ENST00000435312	antisense	KNOWN	None	43744	None	None	46621713	46628610	1	None	None
17	HOXB-AS1	ENSG00000230148	ENST00000508688	antisense	KNOWN	None	43744	None	None	46622871	46628438	1	None	None
17	HOXB-AS1	ENSG00000230148	ENST00000502764	antisense	KNOWN	None	43744	None	None	46624054	46628610	1	None	None
17	None	ENSG00000266970	ENST00000592569	lincRNA	KNOWN	None	None	None	None	76356534	76369992	1	None	None
17	None	ENSG00000266970	ENST00000587575	lincRNA	KNOWN	None	None	None	None	76358752	76360986	1	None	None
12	None	ENSG00000256913	ENST00000541242	processed_pseudogene	KNOWN	None	None	None	None	6586880	6589373	1	None	None
11	None	ENSG00000255018	ENST00000530684	processed_pseudogene	KNOWN	None	None	None	None	13173747	13173895	1	None	None
1	TMCO4	ENSG00000162542	ENST00000294543	protein_coding	KNOWN	CCDS198	27393	1905	634	20008706	20126410	-1	None	DKFZp686C23231
1	TMCO4	ENSG00000162542	ENST00000375127	protein_coding	KNOWN	None	27393	1743	580	20008733	20125837	-1	None	DKFZp686C23231
1	TMCO4	ENSG00000162542	ENST00000489814	processed_transcript	KNOWN	None	27393	None	None	20008735	20064912	-1	None	DKFZp686C23231
1	TMCO4	ENSG00000162542	ENST00000494342	processed_transcript	KNOWN	None	27393	None	None	20020985	20027703	-1	None	DKFZp686C23231
1	TMCO4	ENSG00000162542	ENST00000489135	processed_transcript	KNOWN	None	27393	None	None	20063865	20107257	-1	None	DKFZp686C23231
1	TMCO4	ENSG00000162542	ENST00000496528	processed_transcript	KNOWN	None	27393	None	None	20073656	20126438	-1	None	DKFZp686C23231
1	TMCO4	ENSG00000162542	ENST00000462171	processed_transcript	KNOWN	None	27393	None	None	20076574	20097920	-1	None	DKFZp686C23231
1	TMCO4	ENSG00000162542	ENST00000488449	processed_transcript	KNOWN	None	27393	None	None	20097839	20126433	-1	None	DKFZp686C23231
1	TMCO4	ENSG00000162542	ENST00000375122	protein_coding	KNOWN	None	27393	1785	594	20008754	20126410	-1	None	DKFZp686C23231
18	None	ENSG00000266988	ENST00000586386	sense_intronic	KNOWN	None	None	None	None	43063310	43108271	1	None	None
18	None	ENSG00000266988	ENST00000585897	sense_intronic	KNOWN	None	None	None	None	43063310	43109820	1	None	None
18	None	ENSG00000266988	ENST00000590257	sense_intronic	KNOWN	None	None	None	None	43063325	43073234	1	None	None
18	None	ENSG00000266988	ENST00000588517	sense_intronic	KNOWN	None	None	None	None	43063335	43065281	1	None	None
3	RPL17P17	ENSG00000223409	ENST00000419491	processed_pseudogene	KNOWN	None	35515	None	None	65829565	65830121	1	None	None
19	None	ENSG00000225877	ENST00000425668	lincRNA	KNOWN	None	None	None	None	43326015	43331030	1	None	None
11	None	ENSG00000206806	ENST00000384079	misc_RNA	NOVEL	None	None	None	None	40373114	40373222	1	None	None
3	NUP210P2	ENSG00000225275	ENST00000510577	unprocessed_pseudogene	KNOWN	None	42707	None	None	11941485	11942719	1	None	None
3	LINC00969	ENSG00000242086	ENST00000457233	lincRNA	KNOWN	None	48729	None	None	195384933	195393553	1	None	None
3	LINC00969	ENSG00000242086	ENST00000452844	lincRNA	KNOWN	None	48729	None	None	195384936	195390980	1	None	None
3	LINC00969	ENSG00000242086	ENST00000429897	lincRNA	KNOWN	None	48729	None	None	195384936	195415733	1	None	None
3	LINC00969	ENSG00000242086	ENST00000453324	lincRNA	KNOWN	None	48729	None	None	195384944	195398662	1	None	None
3	LINC00969	ENSG00000242086	ENST00000445430	lincRNA	KNOWN	None	48729	None	None	195384948	195413011	1	None	None
3	LINC00969	ENSG00000242086	ENST00000425425	lincRNA	KNOWN	None	48729	None	None	195384964	195391159	1	None	None
3	LINC00969	ENSG00000242086	ENST00000446521	lincRNA	KNOWN	None	48729	None	None	195399478	195404938	1	None	None
3	LINC00969	ENSG00000242086	ENST00000600527	lincRNA	KNOWN	None	48729	None	None	195404655	195423296	1	None	None
3	LINC00969	ENSG00000242086	ENST00000451982	lincRNA	KNOWN	None	48729	None	None	195408150	195428368	1	None	None
3	LINC00969	ENSG00000242086	ENST00000601648	lincRNA	KNOWN	None	48729	None	None	195408437	195413218	1	None	None
3	LINC00969	ENSG00000242086	ENST00000602127	lincRNA	KNOWN	None	48729	None	None	195408487	195435101	1	None	None
3	LINC00969	ENSG00000242086	ENST00000597034	lincRNA	KNOWN	None	48729	None	None	195410621	195435139	1	None	None
3	LINC00969	ENSG00000242086	ENST00000599448	lincRNA	KNOWN	None	48729	None	None	195413288	195428385	1	None	None
3	LINC00969	ENSG00000242086	ENST00000598992	lincRNA	KNOWN	None	48729	None	None	195414692	195426041	1	None	None
3	LINC00969	ENSG00000242086	ENST00000597482	lincRNA	KNOWN	None	48729	None	None	195414692	195428455	1	None	None
3	LINC00969	ENSG00000242086	ENST00000420851	lincRNA	KNOWN	None	48729	None	None	195415255	195438560	1	None	None
3	LINC00969	ENSG00000242086	ENST00000594715	lincRNA	KNOWN	None	48729	None	None	195415453	195435339	1	None	None
3	LINC00969	ENSG00000242086	ENST00000431767	lincRNA	KNOWN	None	48729	None	None	195415518	195438541	1	None	None
3	LINC00969	ENSG00000242086	ENST00000451228	lincRNA	KNOWN	None	48729	None	None	195416246	195438746	1	None	None
3	LINC00969	ENSG00000242086	ENST00000438608	lincRNA	KNOWN	None	48729	None	None	195426019	195438552	1	None	None
3	LINC00969	ENSG00000242086	ENST00000445707	lincRNA	KNOWN	None	48729	None	None	195427192	195438745	1	None	None
3	LINC00969	ENSG00000242086	ENST00000596584	lincRNA	KNOWN	None	48729	None	None	195428256	195435631	1	None	None
3	LINC00969	ENSG00000242086	ENST00000451216	lincRNA	KNOWN	None	48729	None	None	195428510	195435680	1	None	None
3	LINC00969	ENSG00000242086	ENST00000432194	lincRNA	KNOWN	None	48729	None	None	195428510	195449613	1	None	None
3	LINC00969	ENSG00000242086	ENST00000420459	lincRNA	KNOWN	None	48729	None	None	195435002	195438746	1	None	None
3	LINC00969	ENSG00000242086	ENST00000424730	lincRNA	KNOWN	None	48729	None	None	195435005	195438552	1	None	None
3	LINC00969	ENSG00000242086	ENST00000417704	lincRNA	KNOWN	None	48729	None	None	195435018	195438746	1	None	None
3	LINC00969	ENSG00000242086	ENST00000602175	lincRNA	KNOWN	None	48729	None	None	195435025	195436090	1	None	None
3	LINC00969	ENSG00000242086	ENST00000601955	lincRNA	KNOWN	None	48729	None	None	195435025	195436458	1	None	None
3	LINC00969	ENSG00000242086	ENST00000595382	lincRNA	KNOWN	None	48729	None	None	195435025	195438640	1	None	None
3	LINC00969	ENSG00000242086	ENST00000597982	lincRNA	KNOWN	None	48729	None	None	195435025	195443460	1	None	None
3	LINC00969	ENSG00000242086	ENST00000600382	lincRNA	KNOWN	None	48729	None	None	195435025	195444526	1	None	None
3	LINC00969	ENSG00000242086	ENST00000594976	lincRNA	KNOWN	None	48729	None	None	195435025	195449688	1	None	None
3	LINC00969	ENSG00000242086	ENST00000600288	lincRNA	KNOWN	None	48729	None	None	195435025	195451901	1	None	None
3	LINC00969	ENSG00000242086	ENST00000599566	lincRNA	KNOWN	None	48729	None	None	195435025	195452058	1	None	None
3	LINC00969	ENSG00000242086	ENST00000597662	lincRNA	KNOWN	None	48729	None	None	195435025	195456406	1	None	None
3	LINC00969	ENSG00000242086	ENST00000594446	lincRNA	KNOWN	None	48729	None	None	195435025	195460249	1	None	None
3	LINC00969	ENSG00000242086	ENST00000595086	lincRNA	KNOWN	None	48729	None	None	195435025	195460422	1	None	None
3	LINC00969	ENSG00000242086	ENST00000600197	lincRNA	KNOWN	None	48729	None	None	195435025	195460422	1	None	None
3	LINC00969	ENSG00000242086	ENST00000597871	lincRNA	KNOWN	None	48729	None	None	195435159	195443543	1	None	None
3	LINC00969	ENSG00000242086	ENST00000455807	lincRNA	KNOWN	None	48729	None	None	195435351	195451952	1	None	None
3	LINC00969	ENSG00000242086	ENST00000593988	lincRNA	KNOWN	None	48729	None	None	195435357	195445881	1	None	None
3	LINC00969	ENSG00000242086	ENST00000594101	lincRNA	KNOWN	None	48729	None	None	195435444	195444649	1	None	None
3	LINC00969	ENSG00000242086	ENST00000432601	lincRNA	KNOWN	None	48729	None	None	195435474	195438746	1	None	None
3	LINC00969	ENSG00000242086	ENST00000539252	lincRNA	KNOWN	None	48729	None	None	195384935	195399519	1	None	None
3	LINC00969	ENSG00000242086	ENST00000539717	lincRNA	KNOWN	None	48729	None	None	195384938	195400708	1	None	None
3	LINC00969	ENSG00000242086	ENST00000414625	lincRNA	KNOWN	None	48729	None	None	195384948	195413005	1	None	None
12	None	ENSG00000258879	ENST00000556060	lincRNA	KNOWN	None	None	None	None	25164349	25173827	1	None	None
HSCHR6_MHC_COX	MCCD1	ENSG00000226923	ENST00000421209	protein_coding	KNOWN	None	20668	360	119	31483952	31485467	1	None	None
22	USP41	ENSG00000161133	ENST00000486536	processed_transcript	KNOWN	None	20070	None	None	20704868	20726986	-1	None	None
22	USP41	ENSG00000161133	ENST00000292729	protein_coding	NOVEL	None	20070	920	305	20717911	20731541	-1	None	None
22	USP41	ENSG00000161133	ENST00000470202	processed_transcript	PUTATIVE	None	20070	None	None	20717915	20718607	-1	None	None
22	USP41	ENSG00000161133	ENST00000454608	protein_coding	KNOWN	None	20070	1071	356	20704868	20745048	-1	None	None
17	SNORA59B	ENSG00000266079	ENST00000578183	sense_intronic	KNOWN	None	32658	None	None	19460524	19461224	1	None	ACA59
17	SNORA59B	ENSG00000266079	ENST00000458926	snoRNA	KNOWN	None	32658	None	None	19460873	19461024	1	None	ACA59
8	None	ENSG00000268085	ENST00000595539	protein_coding	NOVEL	None	None	45	14	23412287	23420651	-1	None	None
17	RN7SL236P	ENSG00000243870	ENST00000484759	misc_RNA	KNOWN	None	46252	None	None	76366935	76367216	-1	None	None
19	DNM2	ENSG00000079805	ENST00000585892	protein_coding	NOVEL	CCDS59351	2974	2610	869	10828755	10941723	1	None	DYNII, DYN2, CMTDIB, CMTDI1, DI-CMTB
19	DNM2	ENSG00000079805	ENST00000359692	protein_coding	KNOWN	CCDS32907	2974	2601	866	10828769	10942560	1	None	DYNII, DYN2, CMTDIB, CMTDI1, DI-CMTB
19	DNM2	ENSG00000079805	ENST00000389253	protein_coding	KNOWN	CCDS45969	2974	2613	870	10828807	10942579	1	None	DYNII, DYN2, CMTDIB, CMTDI1, DI-CMTB
19	DNM2	ENSG00000079805	ENST00000355667	protein_coding	KNOWN	CCDS45968	2974	2613	870	10828839	10942571	1	None	DYNII, DYN2, CMTDIB, CMTDI1, DI-CMTB
19	DNM2	ENSG00000079805	ENST00000408974	protein_coding	KNOWN	CCDS32908	2974	2601	866	10828884	10942100	1	None	DYNII, DYN2, CMTDIB, CMTDI1, DI-CMTB
19	DNM2	ENSG00000079805	ENST00000586939	protein_coding	PUTATIVE	None	2974	152	49	10829237	10887830	1	None	DYNII, DYN2, CMTDIB, CMTDI1, DI-CMTB
19	DNM2	ENSG00000079805	ENST00000588976	processed_transcript	KNOWN	None	2974	None	None	10865797	10870477	1	None	DYNII, DYN2, CMTDIB, CMTDI1, DI-CMTB
19	DNM2	ENSG00000079805	ENST00000591266	processed_transcript	KNOWN	None	2974	None	None	10873775	10883183	1	None	DYNII, DYN2, CMTDIB, CMTDI1, DI-CMTB
19	DNM2	ENSG00000079805	ENST00000587991	processed_transcript	KNOWN	None	2974	None	None	10879229	10886491	1	None	DYNII, DYN2, CMTDIB, CMTDI1, DI-CMTB
19	DNM2	ENSG00000079805	ENST00000591819	processed_transcript	KNOWN	None	2974	None	None	10879965	10887878	1	None	DYNII, DYN2, CMTDIB, CMTDI1, DI-CMTB
19	DNM2	ENSG00000079805	ENST00000591701	retained_intron	KNOWN	None	2974	None	None	10887845	10906422	1	None	DYNII, DYN2, CMTDIB, CMTDI1, DI-CMTB
19	DNM2	ENSG00000079805	ENST00000591118	processed_transcript	KNOWN	None	2974	None	None	10892050	10893789	1	None	DYNII, DYN2, CMTDIB, CMTDI1, DI-CMTB
19	DNM2	ENSG00000079805	ENST00000587485	processed_transcript	KNOWN	None	2974	None	None	10892050	10904427	1	None	DYNII, DYN2, CMTDIB, CMTDI1, DI-CMTB
19	DNM2	ENSG00000079805	ENST00000587830	protein_coding	PUTATIVE	None	2974	868	288	10893692	10922976	1	None	DYNII, DYN2, CMTDIB, CMTDI1, DI-CMTB
19	DNM2	ENSG00000079805	ENST00000586130	retained_intron	KNOWN	None	2974	None	None	10897106	10897417	1	None	DYNII, DYN2, CMTDIB, CMTDI1, DI-CMTB
19	DNM2	ENSG00000079805	ENST00000593220	retained_intron	KNOWN	None	2974	None	None	10906392	10909238	1	None	DYNII, DYN2, CMTDIB, CMTDI1, DI-CMTB
19	DNM2	ENSG00000079805	ENST00000587329	retained_intron	KNOWN	None	2974	None	None	10909063	10913275	1	None	DYNII, DYN2, CMTDIB, CMTDI1, DI-CMTB
19	DNM2	ENSG00000079805	ENST00000590806	retained_intron	KNOWN	None	2974	None	None	10919195	10942573	1	None	DYNII, DYN2, CMTDIB, CMTDI1, DI-CMTB
19	DNM2	ENSG00000079805	ENST00000590787	retained_intron	KNOWN	None	2974	None	None	10919884	10935482	1	None	DYNII, DYN2, CMTDIB, CMTDI1, DI-CMTB
19	DNM2	ENSG00000079805	ENST00000593203	retained_intron	KNOWN	None	2974	None	None	10933900	10944160	1	None	DYNII, DYN2, CMTDIB, CMTDI1, DI-CMTB
19	DNM2	ENSG00000079805	ENST00000589106	protein_coding	PUTATIVE	None	2974	413	136	10939788	10941210	1	None	DYNII, DYN2, CMTDIB, CMTDI1, DI-CMTB
19	DNM2	ENSG00000079805	ENST00000591818	protein_coding	PUTATIVE	None	2974	510	169	10941014	10944164	1	None	DYNII, DYN2, CMTDIB, CMTDI1, DI-CMTB
19	DNM2	ENSG00000079805	ENST00000314646	protein_coding	KNOWN	None	2974	2613	870	10828755	10942579	1	None	DYNII, DYN2, CMTDIB, CMTDI1, DI-CMTB
17	None	ENSG00000200063	ENST00000363193	snoRNA	NOVEL	None	None	None	None	76396016	76396144	1	None	None
8	None	ENSG00000248896	ENST00000506149	antisense	KNOWN	None	None	None	None	10586824	10622233	1	None	None
8	None	ENSG00000248896	ENST00000519568	antisense	KNOWN	None	None	None	None	10587088	10628902	1	None	None
3	B3GNT5	ENSG00000176597	ENST00000326505	protein_coding	KNOWN	CCDS3244	15684	1137	378	182971032	182991179	1	None	B3GN-T5, beta3Gn-T5
3	B3GNT5	ENSG00000176597	ENST00000493370	processed_transcript	PUTATIVE	None	15684	None	None	182971071	182987566	1	None	B3GN-T5, beta3Gn-T5
3	B3GNT5	ENSG00000176597	ENST00000480551	processed_transcript	PUTATIVE	None	15684	None	None	182971141	183014099	1	None	B3GN-T5, beta3Gn-T5
3	B3GNT5	ENSG00000176597	ENST00000464191	protein_coding	KNOWN	None	15684	186	61	182971343	182987772	1	None	B3GN-T5, beta3Gn-T5
3	B3GNT5	ENSG00000176597	ENST00000460419	protein_coding	KNOWN	CCDS3244	15684	1137	378	182971583	182990214	1	None	B3GN-T5, beta3Gn-T5
3	B3GNT5	ENSG00000176597	ENST00000464923	protein_coding	KNOWN	None	15684	244	80	182972413	182987830	1	None	B3GN-T5, beta3Gn-T5
3	B3GNT5	ENSG00000176597	ENST00000496270	processed_transcript	PUTATIVE	None	15684	None	None	182983034	182987512	1	None	B3GN-T5, beta3Gn-T5
3	B3GNT5	ENSG00000176597	ENST00000465010	protein_coding	KNOWN	CCDS3244	15684	1137	378	182983090	182988829	1	None	B3GN-T5, beta3Gn-T5
3	B3GNT5	ENSG00000176597	ENST00000488301	processed_transcript	PUTATIVE	None	15684	None	None	182983099	182987576	1	None	B3GN-T5, beta3Gn-T5
3	B3GNT5	ENSG00000176597	ENST00000477699	processed_transcript	PUTATIVE	None	15684	None	None	182983109	182987468	1	None	B3GN-T5, beta3Gn-T5
3	B3GNT5	ENSG00000176597	ENST00000481531	protein_coding	KNOWN	None	15684	150	49	182983132	182987736	1	None	B3GN-T5, beta3Gn-T5
3	B3GNT5	ENSG00000176597	ENST00000462559	processed_transcript	PUTATIVE	None	15684	None	None	183005268	183016292	1	None	B3GN-T5, beta3Gn-T5
11	None	ENSG00000254828	ENST00000534192	unprocessed_pseudogene	KNOWN	None	None	None	None	55069766	55072536	-1	None	None
7	None	ENSG00000214815	ENST00000399037	processed_pseudogene	KNOWN	None	None	None	None	138125435	138126983	1	None	None
19	PSG10P	ENSG00000248257	ENST00000597171	processed_transcript	KNOWN	None	9515	None	None	43343520	43359870	-1	PSG12, PSG10	None
19	PSG10P	ENSG00000248257	ENST00000501199	transcribed_unprocessed_pseudogene	KNOWN	None	9515	None	None	43348509	43359771	-1	PSG12, PSG10	None
14	LINC00643	ENSG00000186369	ENST00000555518	lincRNA	KNOWN	None	44296	None	None	62584863	62594763	1	None	None
14	LINC00643	ENSG00000186369	ENST00000554895	lincRNA	KNOWN	None	44296	None	None	62585342	62595151	1	None	None
14	LINC00643	ENSG00000186369	ENST00000555934	lincRNA	KNOWN	None	44296	None	None	62593962	62595255	1	None	None
14	LINC00643	ENSG00000186369	ENST00000334389	lincRNA	KNOWN	None	44296	None	None	62584197	62596352	1	None	None
22	None	ENSG00000264612	ENST00000584802	miRNA	NOVEL	None	None	None	None	16575148	16575230	-1	None	None
X	None	ENSG00000229037	ENST00000428215	processed_pseudogene	KNOWN	None	None	None	None	53834274	53835121	1	None	None
12	None	ENSG00000257121	ENST00000553003	processed_pseudogene	KNOWN	None	None	None	None	95494307	95494821	1	None	None
22	None	ENSG00000265270	ENST00000581323	miRNA	NOVEL	None	None	None	None	16576109	16576191	-1	None	None
17	None	ENSG00000267432	ENST00000588565	processed_transcript	PUTATIVE	None	None	None	None	76480964	76486187	1	None	None
17	None	ENSG00000267432	ENST00000585969	antisense	KNOWN	None	None	None	None	76480992	76490279	1	None	None
17	None	ENSG00000267432	ENST00000591373	antisense	KNOWN	None	None	None	None	76489237	76495428	1	None	None
9	CDK2AP2P2	ENSG00000237451	ENST00000478512	processed_pseudogene	KNOWN	None	38493	None	None	66500642	66501008	1	None	None
18	None	ENSG00000267354	ENST00000587369	sense_intronic	KNOWN	None	None	None	None	43087167	43130148	1	None	None
17	None	ENSG00000262769	ENST00000574267	antisense	KNOWN	None	None	None	None	19463424	19501235	-1	None	None
2	RNU6-1045P	ENSG00000252130	ENST00000516321	snRNA	KNOWN	None	48008	None	None	192235664	192235770	1	None	None
22	BNIP3P2	ENSG00000236097	ENST00000441221	processed_pseudogene	KNOWN	None	39655	None	None	16627920	16628496	-1	None	None
15	SNORD115-21	ENSG00000199833	ENST00000362963	snoRNA	KNOWN	None	33040	None	None	25453230	25453310	1	None	HBII-52-21
3	MAGI1-AS1	ENSG00000240175	ENST00000472514	antisense	KNOWN	None	40091	None	None	65879491	65910972	1	None	None
3	MARK2P14	ENSG00000231897	ENST00000449657	unprocessed_pseudogene	KNOWN	None	44495	None	None	11948001	11953787	1	None	None
2	None	ENSG00000225884	ENST00000413304	antisense	KNOWN	None	None	None	None	192658151	192684976	1	None	None
20	None	ENSG00000203266	ENST00000366097	lincRNA	KNOWN	None	None	None	None	55689971	55697148	1	None	None
1	None	ENSG00000272004	ENST00000607013	antisense	KNOWN	None	None	None	None	1590786	1594063	1	None	None
X	None	ENSG00000235916	ENST00000455300	processed_pseudogene	KNOWN	None	None	None	None	53852385	53852807	1	None	None
16	HN1L	ENSG00000206053	ENST00000569256	processed_transcript	KNOWN	None	14137	None	None	1728257	1749429	1	C16orf34	FLJ13092, L11, KIAA1426
16	HN1L	ENSG00000206053	ENST00000248098	protein_coding	KNOWN	CCDS10441	14137	573	190	1728257	1752087	1	C16orf34	FLJ13092, L11, KIAA1426
16	HN1L	ENSG00000206053	ENST00000567717	retained_intron	KNOWN	None	14137	None	None	1728277	1742470	1	C16orf34	FLJ13092, L11, KIAA1426
16	HN1L	ENSG00000206053	ENST00000562684	protein_coding	NOVEL	None	14137	657	218	1728278	1751491	1	C16orf34	FLJ13092, L11, KIAA1426
16	HN1L	ENSG00000206053	ENST00000561516	protein_coding	PUTATIVE	None	14137	213	70	1728280	1749600	1	C16orf34	FLJ13092, L11, KIAA1426
16	HN1L	ENSG00000206053	ENST00000382711	protein_coding	KNOWN	None	14137	525	174	1728281	1749238	1	C16orf34	FLJ13092, L11, KIAA1426
16	HN1L	ENSG00000206053	ENST00000566742	protein_coding	PUTATIVE	None	14137	570	189	1728291	1750226	1	C16orf34	FLJ13092, L11, KIAA1426
16	HN1L	ENSG00000206053	ENST00000566925	nonsense_mediated_decay	KNOWN	None	14137	234	77	1728314	1748884	1	C16orf34	FLJ13092, L11, KIAA1426
16	HN1L	ENSG00000206053	ENST00000569765	protein_coding	PUTATIVE	None	14137	297	98	1728314	1749267	1	C16orf34	FLJ13092, L11, KIAA1426
16	HN1L	ENSG00000206053	ENST00000566691	protein_coding	KNOWN	None	14137	346	114	1730338	1748820	1	C16orf34	FLJ13092, L11, KIAA1426
16	HN1L	ENSG00000206053	ENST00000382710	protein_coding	PUTATIVE	None	14137	537	178	1730338	1749270	1	C16orf34	FLJ13092, L11, KIAA1426
16	HN1L	ENSG00000206053	ENST00000565851	protein_coding	KNOWN	None	14137	503	166	1735382	1748977	1	C16orf34	FLJ13092, L11, KIAA1426
16	HN1L	ENSG00000206053	ENST00000568376	processed_transcript	PUTATIVE	None	14137	None	None	1735480	1742443	1	C16orf34	FLJ13092, L11, KIAA1426
16	HN1L	ENSG00000206053	ENST00000562569	protein_coding	PUTATIVE	None	14137	351	116	1735501	1752281	1	C16orf34	FLJ13092, L11, KIAA1426
14	None	ENSG00000199980	ENST00000363110	misc_RNA	NOVEL	None	None	None	None	35402650	35402749	-1	None	None
11	RN7SKP151	ENSG00000222162	ENST00000410230	misc_RNA	KNOWN	None	45875	None	None	13374755	13375070	1	None	None
22	ZNF72P	ENSG00000184624	ENST00000425869	unprocessed_pseudogene	KNOWN	None	13142	None	None	16634898	16651926	1	ZNF72	Cos8
11	OR4A11P	ENSG00000254663	ENST00000529557	unprocessed_pseudogene	KNOWN	None	15148	None	None	55086036	55086941	1	None	None
3	None	ENSG00000264716	ENST00000584718	miRNA	NOVEL	None	None	None	None	65926922	65927022	1	None	None
15	SNORD115-22	ENSG00000201326	ENST00000364456	snoRNA	KNOWN	None	33041	None	None	25455065	25455146	1	None	HBII-52-22
7	None	ENSG00000239123	ENST00000458815	snoRNA	NOVEL	None	None	None	None	138167225	138167328	-1	None	None
X	RNA5SP505	ENSG00000201618	ENST00000364748	rRNA	KNOWN	None	43405	None	None	53935488	53935595	1	RN5S505	None
12	None	ENSG00000258546	ENST00000555897	processed_pseudogene	KNOWN	None	None	None	None	25245649	25246834	-1	None	None
3	None	ENSG00000251038	ENST00000511122	unprocessed_pseudogene	KNOWN	None	None	None	None	11951108	11952239	-1	None	None
17	None	ENSG00000228983	ENST00000420951	processed_transcript	KNOWN	None	None	None	None	19483256	19499371	1	None	None
17	None	ENSG00000228983	ENST00000454535	processed_transcript	KNOWN	None	None	None	None	19484740	19494003	1	None	None
17	None	ENSG00000228983	ENST00000449666	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	19489937	19499242	1	None	None
X	None	ENSG00000252175	ENST00000516366	snoRNA	NOVEL	None	None	None	None	54091278	54091399	-1	None	None
14	IGBP1P1	ENSG00000226677	ENST00000554337	processed_pseudogene	KNOWN	None	19709	None	None	35408530	35409538	1	C14orf19	None
14	IGBP1P1	ENSG00000226677	ENST00000427756	processed_pseudogene	KNOWN	None	19709	None	None	35409128	35409693	1	C14orf19	None
3	None	ENSG00000241383	ENST00000494900	lincRNA	KNOWN	None	None	None	None	168720862	168723254	1	None	None
11	OR4A12P	ENSG00000254723	ENST00000530847	unprocessed_pseudogene	KNOWN	None	15149	None	None	55093232	55094149	1	None	None
17	MPRIP	ENSG00000133030	ENST00000577514	protein_coding	PUTATIVE	None	30321	422	139	16945859	17034933	1	None	RHOIP3, M-RIP, p116Rip
17	MPRIP	ENSG00000133030	ENST00000395806	protein_coding	PUTATIVE	None	30321	192	63	16946074	16961264	1	None	RHOIP3, M-RIP, p116Rip
17	MPRIP	ENSG00000133030	ENST00000395807	processed_transcript	KNOWN	None	30321	None	None	16946074	17000651	1	None	RHOIP3, M-RIP, p116Rip
17	MPRIP	ENSG00000133030	ENST00000395811	protein_coding	KNOWN	CCDS42268	30321	3117	1038	16946074	17095962	1	None	RHOIP3, M-RIP, p116Rip
17	MPRIP	ENSG00000133030	ENST00000341712	protein_coding	KNOWN	CCDS32578	30321	3078	1025	16946163	17088874	1	None	RHOIP3, M-RIP, p116Rip
17	MPRIP	ENSG00000133030	ENST00000584936	processed_transcript	PUTATIVE	None	30321	None	None	17034931	17041733	1	None	RHOIP3, M-RIP, p116Rip
17	MPRIP	ENSG00000133030	ENST00000584067	protein_coding	NOVEL	None	30321	2535	844	17034980	17088868	1	None	RHOIP3, M-RIP, p116Rip
17	MPRIP	ENSG00000133030	ENST00000466186	retained_intron	KNOWN	None	30321	None	None	17039652	17041522	1	None	RHOIP3, M-RIP, p116Rip
17	MPRIP	ENSG00000133030	ENST00000578521	processed_transcript	PUTATIVE	None	30321	None	None	17044809	17045626	1	None	RHOIP3, M-RIP, p116Rip
17	MPRIP	ENSG00000133030	ENST00000581955	retained_intron	KNOWN	None	30321	None	None	17053074	17062029	1	None	RHOIP3, M-RIP, p116Rip
17	MPRIP	ENSG00000133030	ENST00000579832	protein_coding	PUTATIVE	None	30321	86	27	17057666	17088549	1	None	RHOIP3, M-RIP, p116Rip
17	MPRIP	ENSG00000133030	ENST00000313485	protein_coding	NOVEL	None	30321	5384	1793	17061811	17088874	1	None	RHOIP3, M-RIP, p116Rip
17	MPRIP	ENSG00000133030	ENST00000414263	protein_coding	NOVEL	None	30321	3275	1090	17068870	17088874	1	None	RHOIP3, M-RIP, p116Rip
17	MPRIP	ENSG00000133030	ENST00000578548	processed_transcript	PUTATIVE	None	30321	None	None	17074174	17075156	1	None	RHOIP3, M-RIP, p116Rip
17	MPRIP	ENSG00000133030	ENST00000429184	protein_coding	PUTATIVE	None	30321	832	276	17075034	17088290	1	None	RHOIP3, M-RIP, p116Rip
17	MPRIP	ENSG00000133030	ENST00000581855	processed_transcript	PUTATIVE	None	30321	None	None	17076035	17080710	1	None	RHOIP3, M-RIP, p116Rip
17	MPRIP	ENSG00000133030	ENST00000578209	protein_coding	PUTATIVE	None	30321	544	180	17078678	17120993	1	None	RHOIP3, M-RIP, p116Rip
17	MPRIP	ENSG00000133030	ENST00000462033	protein_coding	PUTATIVE	None	30321	286	94	17080566	17083464	1	None	RHOIP3, M-RIP, p116Rip
17	MPRIP	ENSG00000133030	ENST00000579361	protein_coding	PUTATIVE	None	30321	178	58	17082872	17088874	1	None	RHOIP3, M-RIP, p116Rip
17	MPRIP	ENSG00000133030	ENST00000581989	processed_transcript	KNOWN	None	30321	None	None	17089779	17092814	1	None	RHOIP3, M-RIP, p116Rip
17	MPRIP	ENSG00000133030	ENST00000444976	protein_coding	KNOWN	None	30321	3003	1000	16946083	17088369	1	None	RHOIP3, M-RIP, p116Rip
17	MPRIP	ENSG00000133030	ENST00000395804	protein_coding	KNOWN	CCDS32578	30321	3078	1025	16946107	17083953	1	None	RHOIP3, M-RIP, p116Rip
X	None	ENSG00000224949	ENST00000426602	processed_pseudogene	KNOWN	None	None	None	None	54173805	54174092	1	None	None
11	None	ENSG00000254583	ENST00000526860	processed_pseudogene	KNOWN	None	None	None	None	13499880	13500584	1	None	None
14	SETP2	ENSG00000258893	ENST00000553886	processed_pseudogene	KNOWN	None	20032	None	None	51902756	51903681	1	None	None
17	None	ENSG00000267770	ENST00000587621	processed_pseudogene	KNOWN	None	None	None	None	76518329	76518910	1	None	None
3	None	ENSG00000202071	ENST00000365201	misc_RNA	NOVEL	None	None	None	None	65989514	65989615	-1	None	None
3	IL1RAP	ENSG00000196083	ENST00000072516	protein_coding	KNOWN	CCDS3298	5995	1713	570	190231840	190369308	1	None	IL-1RAcP, IL1R3, C3orf13
3	IL1RAP	ENSG00000196083	ENST00000439062	protein_coding	KNOWN	CCDS3298	5995	1713	570	190231848	190366612	1	None	IL-1RAcP, IL1R3, C3orf13
3	IL1RAP	ENSG00000196083	ENST00000447382	protein_coding	KNOWN	CCDS3298	5995	1713	570	190231848	190369301	1	None	IL-1RAcP, IL1R3, C3orf13
3	IL1RAP	ENSG00000196083	ENST00000422625	protein_coding	KNOWN	None	5995	339	112	190231876	190322191	1	None	IL-1RAcP, IL1R3, C3orf13
3	IL1RAP	ENSG00000196083	ENST00000465496	processed_transcript	PUTATIVE	None	5995	None	None	190231885	190236819	1	None	IL-1RAcP, IL1R3, C3orf13
3	IL1RAP	ENSG00000196083	ENST00000422485	protein_coding	KNOWN	CCDS46982	5995	1071	356	190231887	190348074	1	None	IL-1RAcP, IL1R3, C3orf13
3	IL1RAP	ENSG00000196083	ENST00000434491	protein_coding	PUTATIVE	None	5995	648	215	190231891	190348033	1	None	IL-1RAcP, IL1R3, C3orf13
3	IL1RAP	ENSG00000196083	ENST00000422940	protein_coding	KNOWN	CCDS46982	5995	1071	356	190231891	190348074	1	None	IL-1RAcP, IL1R3, C3orf13
3	IL1RAP	ENSG00000196083	ENST00000413869	nonsense_mediated_decay	KNOWN	None	5995	1041	346	190231891	190369301	1	None	IL-1RAcP, IL1R3, C3orf13
3	IL1RAP	ENSG00000196083	ENST00000342550	nonsense_mediated_decay	KNOWN	None	5995	1041	346	190231891	190369301	1	None	IL-1RAcP, IL1R3, C3orf13
3	IL1RAP	ENSG00000196083	ENST00000317757	protein_coding	PUTATIVE	CCDS54696	5995	2064	687	190231891	190375843	1	None	IL-1RAcP, IL1R3, C3orf13
3	IL1RAP	ENSG00000196083	ENST00000461629	retained_intron	KNOWN	None	5995	None	None	190231897	190282306	1	None	IL-1RAcP, IL1R3, C3orf13
3	IL1RAP	ENSG00000196083	ENST00000473566	retained_intron	KNOWN	None	5995	None	None	190231908	190282457	1	None	IL-1RAcP, IL1R3, C3orf13
3	IL1RAP	ENSG00000196083	ENST00000476929	processed_transcript	PUTATIVE	None	5995	None	None	190234008	190238349	1	None	IL-1RAcP, IL1R3, C3orf13
3	IL1RAP	ENSG00000196083	ENST00000482913	retained_intron	KNOWN	None	5995	None	None	190273653	190282207	1	None	IL-1RAcP, IL1R3, C3orf13
3	IL1RAP	ENSG00000196083	ENST00000453359	protein_coding	KNOWN	None	5995	435	144	190281235	190326868	1	None	IL-1RAcP, IL1R3, C3orf13
3	IL1RAP	ENSG00000196083	ENST00000412080	protein_coding	NOVEL	None	5995	581	192	190333097	190347521	1	None	IL-1RAcP, IL1R3, C3orf13
3	IL1RAP	ENSG00000196083	ENST00000443369	protein_coding	KNOWN	CCDS54696	5995	2064	687	190231840	190374396	1	None	IL-1RAcP, IL1R3, C3orf13
3	IL1RAP	ENSG00000196083	ENST00000412504	protein_coding	KNOWN	CCDS3298	5995	1713	570	190231840	190369307	1	None	IL-1RAcP, IL1R3, C3orf13
13	None	ENSG00000235366	ENST00000435067	antisense	KNOWN	None	None	None	None	46255225	46256554	-1	None	None
11	TCIRG1	ENSG00000110719	ENST00000265686	protein_coding	KNOWN	CCDS8177	11647	2493	830	67806483	67818362	1	None	TIRC7, OC-116, OC116, ATP6N1C, Atp6i, a3, ATP6V0A3
11	TCIRG1	ENSG00000110719	ENST00000534673	nonsense_mediated_decay	KNOWN	None	11647	525	174	67806496	67811671	1	None	TIRC7, OC-116, OC116, ATP6N1C, Atp6i, a3, ATP6V0A3
11	TCIRG1	ENSG00000110719	ENST00000524598	protein_coding	NOVEL	None	11647	898	298	67806549	67811731	1	None	TIRC7, OC-116, OC116, ATP6N1C, Atp6i, a3, ATP6V0A3
11	TCIRG1	ENSG00000110719	ENST00000529657	protein_coding	KNOWN	None	11647	653	216	67806573	67811060	1	None	TIRC7, OC-116, OC116, ATP6N1C, Atp6i, a3, ATP6V0A3
11	TCIRG1	ENSG00000110719	ENST00000533947	retained_intron	KNOWN	None	11647	None	None	67806582	67811057	1	None	TIRC7, OC-116, OC116, ATP6N1C, Atp6i, a3, ATP6V0A3
11	TCIRG1	ENSG00000110719	ENST00000532635	protein_coding	KNOWN	CCDS53670	11647	1845	614	67810447	67818362	1	None	TIRC7, OC-116, OC116, ATP6N1C, Atp6i, a3, ATP6V0A3
11	TCIRG1	ENSG00000110719	ENST00000527530	retained_intron	KNOWN	None	11647	None	None	67810790	67811702	1	None	TIRC7, OC-116, OC116, ATP6N1C, Atp6i, a3, ATP6V0A3
11	TCIRG1	ENSG00000110719	ENST00000529364	protein_coding	NOVEL	None	11647	868	288	67810835	67815265	1	None	TIRC7, OC-116, OC116, ATP6N1C, Atp6i, a3, ATP6V0A3
11	TCIRG1	ENSG00000110719	ENST00000525724	retained_intron	KNOWN	None	11647	None	None	67811256	67818345	1	None	TIRC7, OC-116, OC116, ATP6N1C, Atp6i, a3, ATP6V0A3
11	TCIRG1	ENSG00000110719	ENST00000528981	nonsense_mediated_decay	KNOWN	None	11647	314	103	67811702	67816394	1	None	TIRC7, OC-116, OC116, ATP6N1C, Atp6i, a3, ATP6V0A3
11	TCIRG1	ENSG00000110719	ENST00000533005	retained_intron	KNOWN	None	11647	None	None	67811756	67818335	1	None	TIRC7, OC-116, OC116, ATP6N1C, Atp6i, a3, ATP6V0A3
11	TCIRG1	ENSG00000110719	ENST00000525516	retained_intron	KNOWN	None	11647	None	None	67814941	67815799	1	None	TIRC7, OC-116, OC116, ATP6N1C, Atp6i, a3, ATP6V0A3
11	TCIRG1	ENSG00000110719	ENST00000524870	retained_intron	KNOWN	None	11647	None	None	67816615	67817687	1	None	TIRC7, OC-116, OC116, ATP6N1C, Atp6i, a3, ATP6V0A3
11	TCIRG1	ENSG00000110719	ENST00000530063	protein_coding	PUTATIVE	None	11647	186	61	67817513	67818288	1	None	TIRC7, OC-116, OC116, ATP6N1C, Atp6i, a3, ATP6V0A3
11	TCIRG1	ENSG00000110719	ENST00000530449	retained_intron	KNOWN	None	11647	None	None	67817520	67818114	1	None	TIRC7, OC-116, OC116, ATP6N1C, Atp6i, a3, ATP6V0A3
11	TCIRG1	ENSG00000110719	ENST00000530802	processed_transcript	KNOWN	None	11647	None	None	67817750	67818288	1	None	TIRC7, OC-116, OC116, ATP6N1C, Atp6i, a3, ATP6V0A3
X	RPL7AP71	ENSG00000234566	ENST00000451120	processed_pseudogene	KNOWN	None	35754	None	None	54249757	54250495	1	None	None
17	RN7SL454P	ENSG00000243426	ENST00000492744	misc_RNA	KNOWN	None	46470	None	None	76528875	76529137	-1	None	None
11	OR4A9P	ENSG00000254891	ENST00000526326	unprocessed_pseudogene	KNOWN	None	15166	None	None	55156005	55156948	1	None	None
15	SNORD115-23	ENSG00000201331	ENST00000364461	snoRNA	KNOWN	None	33042	None	None	25456943	25457024	1	None	HBII-52-23
3	None	ENSG00000203647	ENST00000366454	pseudogene	NOVEL	None	None	None	None	65994445	65994875	-1	None	None
2	None	ENSG00000233766	ENST00000424116	antisense	KNOWN	None	None	None	None	192711265	192901485	1	None	None
2	None	ENSG00000233766	ENST00000428980	antisense	KNOWN	None	None	None	None	192787272	192901555	1	None	None
2	None	ENSG00000233766	ENST00000596486	antisense	KNOWN	None	None	None	None	192895331	192900106	1	None	None
2	None	ENSG00000233766	ENST00000594591	antisense	KNOWN	None	None	None	None	192895331	192900133	1	None	None
2	None	ENSG00000233766	ENST00000597204	antisense	KNOWN	None	None	None	None	192895331	192900981	1	None	None
2	None	ENSG00000233766	ENST00000599681	antisense	KNOWN	None	None	None	None	192895331	192901473	1	None	None
2	None	ENSG00000233766	ENST00000594023	antisense	KNOWN	None	None	None	None	192895331	192901811	1	None	None
2	None	ENSG00000233766	ENST00000595918	antisense	KNOWN	None	None	None	None	192895344	192896746	1	None	None
2	None	ENSG00000233766	ENST00000598327	antisense	KNOWN	None	None	None	None	192897094	192900106	1	None	None
2	None	ENSG00000233766	ENST00000594798	antisense	KNOWN	None	None	None	None	192899510	192908909	1	None	None
2	None	ENSG00000233766	ENST00000602099	antisense	KNOWN	None	None	None	None	192900910	192901847	1	None	None
15	None	ENSG00000270055	ENST00000602663	sense_intronic	KNOWN	None	None	None	None	30780166	30782516	1	None	None
7	None	ENSG00000234995	ENST00000418798	processed_pseudogene	KNOWN	None	None	None	None	138175326	138176106	-1	None	None
19	ZNF575	ENSG00000176472	ENST00000458714	protein_coding	PUTATIVE	None	27606	1035	344	44029649	44040282	1	None	FLJ32567
19	ZNF575	ENSG00000176472	ENST00000598080	protein_coding	KNOWN	None	27606	303	100	44037116	44039404	1	None	FLJ32567
19	ZNF575	ENSG00000176472	ENST00000314228	protein_coding	KNOWN	CCDS12623	27606	738	245	44037356	44039887	1	None	FLJ32567
19	ZNF575	ENSG00000176472	ENST00000601282	protein_coding	KNOWN	CCDS12623	27606	738	245	44037565	44039953	1	None	FLJ32567
19	ZNF575	ENSG00000176472	ENST00000600154	retained_intron	KNOWN	None	27606	None	None	44037588	44038418	1	None	FLJ32567
13	AKR1B1P4	ENSG00000237876	ENST00000426552	processed_pseudogene	KNOWN	None	423	None	None	46261683	46262604	-1	ALDRL4	None
8	None	ENSG00000252565	ENST00000516756	snoRNA	NOVEL	None	None	None	None	10641565	10641629	1	None	None
3	RNU6-787P	ENSG00000206759	ENST00000384032	snRNA	KNOWN	None	47750	None	None	66343538	66343644	-1	None	None
14	SNORD113-4	ENSG00000201672	ENST00000364802	snoRNA	KNOWN	None	32983	None	None	101402828	101402902	1	None	14q(I-4)
11	OR4X7P	ENSG00000255077	ENST00000526939	unprocessed_pseudogene	KNOWN	None	31277	None	None	55179002	55179193	1	None	None
X	None	ENSG00000239080	ENST00000458945	snoRNA	NOVEL	None	None	None	None	135216476	135216579	-1	None	None
17	None	ENSG00000267123	ENST00000590023	lincRNA	KNOWN	None	None	None	None	76613471	76626252	-1	None	None
17	None	ENSG00000267123	ENST00000591384	lincRNA	KNOWN	None	None	None	None	76613551	76628139	-1	None	None
17	None	ENSG00000267123	ENST00000586185	lincRNA	KNOWN	None	None	None	None	76614844	76628133	-1	None	None
8	None	ENSG00000215298	ENST00000399967	protein_coding	NOVEL	None	None	342	113	23430157	23432974	1	None	None
7	None	ENSG00000257743	ENST00000550469	protein_coding	NOVEL	None	None	1449	482	141811549	141843783	1	None	None
7	None	ENSG00000257743	ENST00000477922	protein_coding	PUTATIVE	None	None	7548	2515	141811554	141922124	1	None	None
7	None	ENSG00000257743	ENST00000496337	retained_intron	KNOWN	None	None	None	None	141870970	141921088	1	None	None
8	None	ENSG00000271081	ENST00000603871	processed_pseudogene	KNOWN	None	None	None	None	30611753	30612056	-1	None	None
X	RNU6-434P	ENSG00000207104	ENST00000384376	snRNA	KNOWN	None	47397	None	None	54369979	54370085	1	None	None
12	None	ENSG00000258449	ENST00000555862	antisense	KNOWN	None	None	None	None	25249802	25253914	-1	None	None
14	None	ENSG00000241052	ENST00000483361	processed_pseudogene	KNOWN	None	None	None	None	35613227	35613686	-1	None	None
3	RN7SL147P	ENSG00000263988	ENST00000487345	misc_RNA	KNOWN	None	46163	None	None	11994264	11994559	-1	None	None
X	FMR1-IT1	ENSG00000236337	ENST00000441414	sense_intronic	KNOWN	None	41333	None	None	147028461	147029103	1	None	None
14	FRMD6-AS2	ENSG00000258537	ENST00000556617	lincRNA	KNOWN	None	43637	None	None	51921230	52066670	-1	None	None
14	FRMD6-AS2	ENSG00000258537	ENST00000557625	lincRNA	KNOWN	None	43637	None	None	52013347	52066638	-1	None	None
X	PGAM4P1	ENSG00000215197	ENST00000426407	processed_pseudogene	KNOWN	None	42465	None	None	54698418	54699071	1	None	None
1	None	ENSG00000269737	ENST00000596308	antisense	KNOWN	None	None	None	None	1603429	1604850	1	None	None
5	SPEF2	ENSG00000152582	ENST00000282469	protein_coding	KNOWN	CCDS3910	26293	1545	514	35617946	35671677	1	None	KPL2, FLJ23577, CT122
5	SPEF2	ENSG00000152582	ENST00000509059	protein_coding	NOVEL	None	26293	2832	943	35617946	35710952	1	None	KPL2, FLJ23577, CT122
5	SPEF2	ENSG00000152582	ENST00000356031	protein_coding	KNOWN	CCDS43309	26293	5469	1822	35617946	35814713	1	None	KPL2, FLJ23577, CT122
5	SPEF2	ENSG00000152582	ENST00000505847	nonsense_mediated_decay	KNOWN	None	26293	438	145	35617991	35643754	1	None	KPL2, FLJ23577, CT122
5	SPEF2	ENSG00000152582	ENST00000505088	retained_intron	KNOWN	None	26293	None	None	35618003	35641857	1	None	KPL2, FLJ23577, CT122
5	SPEF2	ENSG00000152582	ENST00000510777	protein_coding	PUTATIVE	None	26293	722	239	35618022	35654743	1	None	KPL2, FLJ23577, CT122
5	SPEF2	ENSG00000152582	ENST00000440995	protein_coding	PUTATIVE	None	26293	5457	1818	35618100	35808340	1	None	KPL2, FLJ23577, CT122
5	SPEF2	ENSG00000152582	ENST00000502454	retained_intron	KNOWN	None	26293	None	None	35646633	35654761	1	None	KPL2, FLJ23577, CT122
5	SPEF2	ENSG00000152582	ENST00000503074	retained_intron	KNOWN	None	26293	None	None	35659152	35710952	1	None	KPL2, FLJ23577, CT122
5	SPEF2	ENSG00000152582	ENST00000504054	protein_coding	PUTATIVE	None	26293	1166	387	35675704	35705893	1	None	KPL2, FLJ23577, CT122
5	SPEF2	ENSG00000152582	ENST00000508817	nonsense_mediated_decay	KNOWN	None	26293	348	115	35700725	35705893	1	None	KPL2, FLJ23577, CT122
5	SPEF2	ENSG00000152582	ENST00000506759	nonsense_mediated_decay	KNOWN	None	26293	363	120	35763670	35764889	1	None	KPL2, FLJ23577, CT122
5	SPEF2	ENSG00000152582	ENST00000506526	nonsense_mediated_decay	KNOWN	None	26293	455	150	35774094	35814713	1	None	KPL2, FLJ23577, CT122
5	SPEF2	ENSG00000152582	ENST00000513078	nonsense_mediated_decay	KNOWN	None	26293	346	114	35779270	35814713	1	None	KPL2, FLJ23577, CT122
5	SPEF2	ENSG00000152582	ENST00000303129	protein_coding	KNOWN	None	26293	1860	619	35779270	35814712	1	None	KPL2, FLJ23577, CT122
11	None	ENSG00000255401	ENST00000532318	unprocessed_pseudogene	KNOWN	None	None	None	None	13510159	13510937	1	None	None
12	None	ENSG00000237774	ENST00000470084	processed_pseudogene	KNOWN	None	None	None	None	95519536	95520165	1	None	None
8	None	ENSG00000253695	ENST00000522026	antisense	KNOWN	None	None	None	None	10698086	10704011	1	None	None
11	None	ENSG00000255493	ENST00000527592	unprocessed_pseudogene	KNOWN	None	None	None	None	55197963	55198470	1	None	None
3	RN7SL482P	ENSG00000241587	ENST00000487928	misc_RNA	KNOWN	None	46498	None	None	66374279	66374574	1	None	None
8	None	ENSG00000253204	ENST00000523019	processed_pseudogene	KNOWN	None	None	None	None	30778576	30778851	1	None	None
10	NEBL-AS1	ENSG00000231920	ENST00000439097	antisense	KNOWN	None	44899	None	None	21462943	21463977	1	None	None
10	NEBL-AS1	ENSG00000231920	ENST00000417845	antisense	KNOWN	None	44899	None	None	21463283	21463852	1	None	None
3	None	ENSG00000271174	ENST00000605010	processed_pseudogene	KNOWN	None	None	None	None	66673184	66673526	-1	None	None
11	MTMR2	ENSG00000087053	ENST00000346299	protein_coding	KNOWN	CCDS8305	7450	1932	643	95566046	95657459	-1	CMT4B	KIAA1073
11	MTMR2	ENSG00000087053	ENST00000409459	protein_coding	NOVEL	CCDS8306	7450	1716	571	95567252	95657260	-1	CMT4B	KIAA1073
11	MTMR2	ENSG00000087053	ENST00000352297	protein_coding	NOVEL	CCDS8306	7450	1716	571	95567253	95657264	-1	CMT4B	KIAA1073
11	MTMR2	ENSG00000087053	ENST00000444541	protein_coding	PUTATIVE	None	7450	1670	555	95568500	95646241	-1	CMT4B	KIAA1073
11	MTMR2	ENSG00000087053	ENST00000484818	processed_transcript	KNOWN	None	7450	None	None	95583776	95656982	-1	CMT4B	KIAA1073
11	MTMR2	ENSG00000087053	ENST00000495134	processed_transcript	KNOWN	None	7450	None	None	95595156	95657032	-1	CMT4B	KIAA1073
11	MTMR2	ENSG00000087053	ENST00000485740	processed_transcript	KNOWN	None	7450	None	None	95595237	95657029	-1	CMT4B	KIAA1073
11	MTMR2	ENSG00000087053	ENST00000472423	processed_transcript	KNOWN	None	7450	None	None	95595252	95621425	-1	CMT4B	KIAA1073
11	MTMR2	ENSG00000087053	ENST00000497683	processed_transcript	KNOWN	None	7450	None	None	95595456	95656927	-1	CMT4B	KIAA1073
11	MTMR2	ENSG00000087053	ENST00000470293	processed_transcript	KNOWN	None	7450	None	None	95598790	95656960	-1	CMT4B	KIAA1073
11	MTMR2	ENSG00000087053	ENST00000481642	processed_transcript	KNOWN	None	7450	None	None	95599590	95657271	-1	CMT4B	KIAA1073
11	MTMR2	ENSG00000087053	ENST00000470011	processed_transcript	KNOWN	None	7450	None	None	95620774	95658434	-1	CMT4B	KIAA1073
11	MTMR2	ENSG00000087053	ENST00000469574	processed_transcript	KNOWN	None	7450	None	None	95620776	95657032	-1	CMT4B	KIAA1073
11	MTMR2	ENSG00000087053	ENST00000485988	processed_transcript	PUTATIVE	None	7450	None	None	95657643	95658479	-1	CMT4B	KIAA1073
11	MTMR2	ENSG00000087053	ENST00000393223	protein_coding	KNOWN	CCDS8306	7450	1716	571	95566046	95657371	-1	CMT4B	KIAA1073
11	OR4A10P	ENSG00000254886	ENST00000526498	unprocessed_pseudogene	KNOWN	None	15147	None	None	55199433	55199843	1	OR4A25P	None
X	None	ENSG00000201285	ENST00000364415	rRNA	NOVEL	None	None	None	None	147089620	147089735	-1	None	None
15	SNORD115-24	ENSG00000200398	ENST00000363528	snoRNA	KNOWN	None	33043	None	None	25458795	25458876	1	None	HBII-52-24
3	RPL21P41	ENSG00000214560	ENST00000459863	processed_pseudogene	KNOWN	None	36765	None	None	66687573	66687836	1	None	None
7	None	ENSG00000252188	ENST00000516379	snoRNA	NOVEL	None	None	None	None	138309805	138309924	-1	None	None
20	SLMO2	ENSG00000101166	ENST00000355937	protein_coding	KNOWN	CCDS42893	15892	585	194	57608200	57617964	-1	C20orf45	dJ543J19.5, PRELID3B
20	SLMO2	ENSG00000101166	ENST00000371033	protein_coding	PUTATIVE	CCDS58783	15892	495	164	57609689	57617860	-1	C20orf45	dJ543J19.5, PRELID3B
20	SLMO2	ENSG00000101166	ENST00000463057	nonsense_mediated_decay	KNOWN	None	15892	207	68	57609964	57617787	-1	C20orf45	dJ543J19.5, PRELID3B
20	SLMO2	ENSG00000101166	ENST00000466051	retained_intron	KNOWN	None	15892	None	None	57613189	57617864	-1	C20orf45	dJ543J19.5, PRELID3B
17	SLC35G6	ENSG00000259224	ENST00000412468	protein_coding	KNOWN	CCDS45603	31351	1017	338	7384721	7386383	1	TMEM21B, AMAC1L3	None
8	None	ENSG00000253793	ENST00000520373	processed_pseudogene	KNOWN	None	None	None	None	30840975	30841837	-1	None	None
20	SUN5	ENSG00000167098	ENST00000375523	protein_coding	KNOWN	None	16252	1065	354	31571579	31592213	-1	SPAG4L	dJ726C3.1, TSARG4
20	SUN5	ENSG00000167098	ENST00000356173	protein_coding	KNOWN	CCDS13209	16252	1140	379	31571579	31592239	-1	SPAG4L	dJ726C3.1, TSARG4
20	SUN5	ENSG00000167098	ENST00000420875	protein_coding	KNOWN	None	16252	459	152	31587659	31592113	-1	SPAG4L	dJ726C3.1, TSARG4
20	SUN5	ENSG00000167098	ENST00000375519	protein_coding	KNOWN	None	16252	369	122	31587659	31592165	-1	SPAG4L	dJ726C3.1, TSARG4
2	ACKR3	ENSG00000144476	ENST00000447924	protein_coding	KNOWN	None	23692	632	209	237476430	237489740	1	CMKOR1, CXCR7	RDC1, GPR159
2	ACKR3	ENSG00000144476	ENST00000272928	protein_coding	KNOWN	CCDS2516	23692	1089	362	237478284	237491001	1	CMKOR1, CXCR7	RDC1, GPR159
14	None	ENSG00000259090	ENST00000556211	processed_pseudogene	KNOWN	None	None	None	None	35627110	35628305	-1	None	None
12	RNU4-67P	ENSG00000201439	ENST00000364569	snRNA	KNOWN	None	47003	None	None	25557222	25557362	-1	None	None
X	SNORA11	ENSG00000221716	ENST00000408789	snoRNA	KNOWN	None	32599	None	None	54840803	54840930	1	None	U107, SNORA11A
X	None	ENSG00000230079	ENST00000455035	processed_pseudogene	KNOWN	None	None	None	None	135377849	135382457	-1	None	None
15	NEIL1	ENSG00000140398	ENST00000564500	protein_coding	KNOWN	None	18448	66	21	75639296	75641312	1	None	FLJ22402, hFPG1, NEI1, FPG1
15	NEIL1	ENSG00000140398	ENST00000355059	protein_coding	KNOWN	CCDS10278	18448	1173	390	75639331	75647592	1	None	FLJ22402, hFPG1, NEI1, FPG1
15	NEIL1	ENSG00000140398	ENST00000566752	protein_coding	KNOWN	None	18448	193	63	75639354	75641439	1	None	FLJ22402, hFPG1, NEI1, FPG1
15	NEIL1	ENSG00000140398	ENST00000566313	protein_coding	KNOWN	None	18448	152	49	75639379	75641398	1	None	FLJ22402, hFPG1, NEI1, FPG1
15	NEIL1	ENSG00000140398	ENST00000568059	protein_coding	KNOWN	None	18448	265	87	75639394	75641511	1	None	FLJ22402, hFPG1, NEI1, FPG1
15	NEIL1	ENSG00000140398	ENST00000568881	protein_coding	KNOWN	None	18448	119	38	75639410	75641365	1	None	FLJ22402, hFPG1, NEI1, FPG1
15	NEIL1	ENSG00000140398	ENST00000561643	retained_intron	KNOWN	None	18448	None	None	75639431	75647586	1	None	FLJ22402, hFPG1, NEI1, FPG1
15	NEIL1	ENSG00000140398	ENST00000567959	processed_transcript	KNOWN	None	18448	None	None	75639440	75645304	1	None	FLJ22402, hFPG1, NEI1, FPG1
15	NEIL1	ENSG00000140398	ENST00000564951	retained_intron	KNOWN	None	18448	None	None	75639683	75642031	1	None	FLJ22402, hFPG1, NEI1, FPG1
15	NEIL1	ENSG00000140398	ENST00000568519	nonsense_mediated_decay	KNOWN	None	18448	459	152	75639724	75644520	1	None	FLJ22402, hFPG1, NEI1, FPG1
15	NEIL1	ENSG00000140398	ENST00000569390	processed_transcript	KNOWN	None	18448	None	None	75639733	75640563	1	None	FLJ22402, hFPG1, NEI1, FPG1
15	NEIL1	ENSG00000140398	ENST00000567657	protein_coding	KNOWN	None	18448	554	183	75639776	75644571	1	None	FLJ22402, hFPG1, NEI1, FPG1
15	NEIL1	ENSG00000140398	ENST00000564784	protein_coding	KNOWN	CCDS10278	18448	1173	390	75639960	75647592	1	None	FLJ22402, hFPG1, NEI1, FPG1
15	NEIL1	ENSG00000140398	ENST00000569035	protein_coding	KNOWN	CCDS10278	18448	1173	390	75639979	75647588	1	None	FLJ22402, hFPG1, NEI1, FPG1
15	NEIL1	ENSG00000140398	ENST00000567681	processed_transcript	KNOWN	None	18448	None	None	75639994	75640992	1	None	FLJ22402, hFPG1, NEI1, FPG1
15	NEIL1	ENSG00000140398	ENST00000565051	protein_coding	KNOWN	None	18448	598	198	75640068	75645042	1	None	FLJ22402, hFPG1, NEI1, FPG1
15	NEIL1	ENSG00000140398	ENST00000564257	protein_coding	KNOWN	None	18448	396	131	75640201	75641642	1	None	FLJ22402, hFPG1, NEI1, FPG1
15	NEIL1	ENSG00000140398	ENST00000567005	protein_coding	NOVEL	None	18448	464	153	75640322	75644402	1	None	FLJ22402, hFPG1, NEI1, FPG1
15	NEIL1	ENSG00000140398	ENST00000569506	protein_coding	KNOWN	None	18448	246	81	75640740	75641492	1	None	FLJ22402, hFPG1, NEI1, FPG1
15	NEIL1	ENSG00000140398	ENST00000564738	retained_intron	KNOWN	None	18448	None	None	75641276	75646633	1	None	FLJ22402, hFPG1, NEI1, FPG1
15	NEIL1	ENSG00000140398	ENST00000567547	retained_intron	KNOWN	None	18448	None	None	75644287	75645318	1	None	FLJ22402, hFPG1, NEI1, FPG1
15	NEIL1	ENSG00000140398	ENST00000567393	retained_intron	KNOWN	None	18448	None	None	75645495	75647556	1	None	FLJ22402, hFPG1, NEI1, FPG1
15	NEIL1	ENSG00000140398	ENST00000565121	retained_intron	KNOWN	None	18448	None	None	75645732	75647588	1	None	FLJ22402, hFPG1, NEI1, FPG1
15	NEIL1	ENSG00000140398	ENST00000569758	retained_intron	KNOWN	None	18448	None	None	75646944	75647586	1	None	FLJ22402, hFPG1, NEI1, FPG1
11	OR4A17P	ENSG00000255196	ENST00000526032	unprocessed_pseudogene	KNOWN	None	15154	None	None	55211911	55212814	1	OR4A22P	None
13	CPB2-AS1	ENSG00000235903	ENST00000606351	antisense	KNOWN	None	39898	None	None	46626941	46670666	1	None	None
13	CPB2-AS1	ENSG00000235903	ENST00000606243	antisense	KNOWN	None	39898	None	None	46626983	46674159	1	None	None
13	CPB2-AS1	ENSG00000235903	ENST00000606991	antisense	KNOWN	None	39898	None	None	46626983	46675482	1	None	None
13	CPB2-AS1	ENSG00000235903	ENST00000415033	antisense	KNOWN	None	39898	None	None	46627037	46687467	1	None	None
HSCHR6_MHC_MCF	ZBTB12	ENSG00000234196	ENST00000432044	protein_coding	KNOWN	None	19066	1380	459	31943870	31946255	-1	C6orf46	G10, NG35, D6S59E
12	None	ENSG00000241846	ENST00000480211	processed_pseudogene	KNOWN	None	None	None	None	25562227	25562379	-1	None	None
X	None	ENSG00000221750	ENST00000408823	snoRNA	NOVEL	None	None	None	None	54953738	54953866	1	None	None
17	RNU6-638P	ENSG00000252391	ENST00000516582	snRNA	KNOWN	None	47601	None	None	76692776	76692879	-1	None	None
X	FTH1P8	ENSG00000219507	ENST00000498161	processed_pseudogene	KNOWN	None	3995	None	None	147133753	147134266	1	FTHL8	None
16	MMP2	ENSG00000087245	ENST00000570308	protein_coding	PUTATIVE	None	7166	1755	584	55423612	55540149	1	CLG4, CLG4A	TBE-1
16	MMP2	ENSG00000087245	ENST00000568715	protein_coding	PUTATIVE	None	7166	355	117	55512742	55519264	1	CLG4, CLG4A	TBE-1
16	MMP2	ENSG00000087245	ENST00000219070	protein_coding	KNOWN	CCDS10752	7166	1983	660	55512883	55540603	1	CLG4, CLG4A	TBE-1
16	MMP2	ENSG00000087245	ENST00000564864	protein_coding	PUTATIVE	None	7166	603	200	55513910	55519688	1	CLG4, CLG4A	TBE-1
16	MMP2	ENSG00000087245	ENST00000543485	protein_coding	PUTATIVE	None	7166	1755	584	55514445	55539437	1	CLG4, CLG4A	TBE-1
16	MMP2	ENSG00000087245	ENST00000437642	protein_coding	KNOWN	CCDS45487	7166	1833	610	55515469	55539671	1	CLG4, CLG4A	TBE-1
16	MMP2	ENSG00000087245	ENST00000570283	protein_coding	NOVEL	None	7166	755	250	55522574	55536801	1	CLG4, CLG4A	TBE-1
16	MMP2	ENSG00000087245	ENST00000566564	nonsense_mediated_decay	KNOWN	None	7166	68	21	55539287	55540151	1	CLG4, CLG4A	TBE-1
8	MIR598	ENSG00000207600	ENST00000384868	miRNA	KNOWN	None	32854	None	None	10892716	10892812	-1	MIRN598	hsa-mir-598
17	RPL9P29	ENSG00000267355	ENST00000591685	processed_pseudogene	KNOWN	None	35533	None	None	76842035	76842950	-1	None	None
11	OR4A13P	ENSG00000181950	ENST00000529316	unprocessed_pseudogene	KNOWN	None	15150	None	None	55234247	55235188	1	None	None
X	None	ENSG00000234466	ENST00000413370	processed_pseudogene	KNOWN	None	None	None	None	55081378	55082271	-1	None	None
3	None	ENSG00000241479	ENST00000480669	antisense	KNOWN	None	None	None	None	169165655	169194840	1	None	None
15	SNORD115-25	ENSG00000199489	ENST00000362619	snoRNA	KNOWN	None	33044	None	None	25460688	25460769	1	None	HBII-52-25
3	None	ENSG00000241884	ENST00000484222	lincRNA	KNOWN	None	None	None	None	67346724	67356783	1	None	None
3	None	ENSG00000241884	ENST00000498247	lincRNA	KNOWN	None	None	None	None	67353303	67355329	1	None	None
17	None	ENSG00000267601	ENST00000587434	antisense	KNOWN	None	None	None	None	76851560	76851926	1	None	None
15	None	ENSG00000260784	ENST00000564693	unprocessed_pseudogene	KNOWN	None	None	None	None	30808282	30810070	1	None	None
3	ZNF852	ENSG00000178917	ENST00000436261	protein_coding	KNOWN	None	27713	1632	543	44540462	44552128	-1	None	None
3	ZNF852	ENSG00000178917	ENST00000489411	processed_transcript	KNOWN	None	27713	None	None	44541015	44552128	-1	None	None
3	ZNF852	ENSG00000178917	ENST00000463067	retained_intron	KNOWN	None	27713	None	None	44541068	44544602	-1	None	None
8	None	ENSG00000254839	ENST00000532453	lincRNA	KNOWN	None	None	None	None	10920157	10924599	-1	None	None
3	MED12L	ENSG00000144893	ENST00000469768	processed_transcript	PUTATIVE	None	16050	None	None	150803484	150840718	1	None	KIAA1635, TNRC11L, TRALPUSH, TRALP
3	MED12L	ENSG00000144893	ENST00000422248	protein_coding	KNOWN	None	16050	2166	721	150804181	150911532	1	None	KIAA1635, TNRC11L, TRALPUSH, TRALP
3	MED12L	ENSG00000144893	ENST00000309237	protein_coding	KNOWN	None	16050	2271	756	150804181	150911532	1	None	KIAA1635, TNRC11L, TRALPUSH, TRALP
3	MED12L	ENSG00000144893	ENST00000474524	protein_coding	KNOWN	CCDS33876	16050	6438	2145	150804676	151154860	1	None	KIAA1635, TNRC11L, TRALPUSH, TRALP
3	MED12L	ENSG00000144893	ENST00000273432	protein_coding	NOVEL	None	16050	5430	1809	150804681	151151530	1	None	KIAA1635, TNRC11L, TRALPUSH, TRALP
3	MED12L	ENSG00000144893	ENST00000480026	protein_coding	PUTATIVE	None	16050	223	73	150908703	151054850	1	None	KIAA1635, TNRC11L, TRALPUSH, TRALP
3	MED12L	ENSG00000144893	ENST00000491549	processed_transcript	KNOWN	None	16050	None	None	150959584	151075091	1	None	KIAA1635, TNRC11L, TRALPUSH, TRALP
3	MED12L	ENSG00000144893	ENST00000468305	processed_transcript	PUTATIVE	None	16050	None	None	151034208	151073001	1	None	KIAA1635, TNRC11L, TRALPUSH, TRALP
3	MED12L	ENSG00000144893	ENST00000488092	processed_transcript	PUTATIVE	None	16050	None	None	151112455	151148092	1	None	KIAA1635, TNRC11L, TRALPUSH, TRALP
17	None	ENSG00000267491	ENST00000591108	antisense	KNOWN	None	None	None	None	76899345	76901106	1	None	None
17	None	ENSG00000263107	ENST00000576220	processed_pseudogene	KNOWN	None	None	None	None	19485429	19485588	-1	None	None
X	None	ENSG00000186678	ENST00000334118	unprocessed_pseudogene	KNOWN	None	None	None	None	55199150	55202459	1	None	None
5	None	ENSG00000250885	ENST00000514225	lincRNA	KNOWN	None	None	None	None	32646670	32652082	-1	None	None
14	IGHV4-55	ENSG00000254395	ENST00000520889	IG_V_pseudogene	KNOWN	None	5653	None	None	107062111	107062561	-1	None	None
1	None	ENSG00000269227	ENST00000597891	transcribed_processed_pseudogene	KNOWN	None	None	None	None	1604714	1605836	1	None	None
18	None	ENSG00000215431	ENST00000400312	protein_coding	NOVEL	None	None	81	26	60491423	60492724	1	None	None
15	None	ENSG00000270500	ENST00000605798	processed_pseudogene	KNOWN	None	None	None	None	36864186	36864413	1	None	None
17	None	ENSG00000266711	ENST00000583980	antisense	KNOWN	None	None	None	None	77128804	77132484	1	None	None
12	None	ENSG00000256079	ENST00000538746	processed_pseudogene	KNOWN	None	None	None	None	25588515	25589172	-1	None	None
14	RPL7AP3	ENSG00000256243	ENST00000541658	processed_pseudogene	KNOWN	None	23553	None	None	35704386	35704857	-1	None	None
17	None	ENSG00000266179	ENST00000582078	processed_pseudogene	KNOWN	None	None	None	None	19504173	19504658	1	None	None
5	None	ENSG00000272174	ENST00000607869	miRNA	NOVEL	None	None	None	None	32781644	32781745	1	None	None
8	None	ENSG00000253579	ENST00000519475	processed_pseudogene	KNOWN	None	None	None	None	30989055	30989318	-1	None	None
8	NKX3-1	ENSG00000167034	ENST00000380871	protein_coding	KNOWN	CCDS6042	7838	705	234	23536206	23540440	-1	NKX3A	NKX3.1, BAPX2
8	NKX3-1	ENSG00000167034	ENST00000523261	protein_coding	KNOWN	CCDS59095	7838	480	159	23538501	23540402	-1	NKX3A	NKX3.1, BAPX2
17	None	ENSG00000271900	ENST00000607661	processed_pseudogene	KNOWN	None	None	None	None	19505153	19505569	1	None	None
15	None	ENSG00000260824	ENST00000564692	antisense	KNOWN	None	None	None	None	75192333	75193030	1	None	None
18	None	ENSG00000269630	ENST00000593319	protein_coding	NOVEL	None	None	309	102	60505640	60505948	-1	None	None
15	SNORD115-27	ENSG00000201300	ENST00000364430	snoRNA	KNOWN	None	33046	None	None	25465644	25465725	1	None	HBII-52-27
HG1091_PATCH	None	ENSG00000262502	ENST00000577042	processed_pseudogene	KNOWN	None	None	None	None	60715788	60716377	-1	None	None
19	KLK4	ENSG00000167749	ENST00000324041	protein_coding	KNOWN	CCDS12809	6365	765	254	51409608	51413994	-1	PRSS17	EMSP, EMSP1, PSTS, KLK-L1
19	KLK4	ENSG00000167749	ENST00000597441	processed_transcript	KNOWN	None	6365	None	None	51409609	51410076	-1	PRSS17	EMSP, EMSP1, PSTS, KLK-L1
19	KLK4	ENSG00000167749	ENST00000598305	nonsense_mediated_decay	KNOWN	None	6365	216	71	51410131	51413994	-1	PRSS17	EMSP, EMSP1, PSTS, KLK-L1
19	KLK4	ENSG00000167749	ENST00000593885	nonsense_mediated_decay	KNOWN	None	6365	216	71	51410160	51412392	-1	PRSS17	EMSP, EMSP1, PSTS, KLK-L1
19	KLK4	ENSG00000167749	ENST00000599865	retained_intron	KNOWN	None	6365	None	None	51410190	51412584	-1	PRSS17	EMSP, EMSP1, PSTS, KLK-L1
19	KLK4	ENSG00000167749	ENST00000602148	nonsense_mediated_decay	KNOWN	None	6365	228	75	51410190	51413994	-1	PRSS17	EMSP, EMSP1, PSTS, KLK-L1
19	KLK4	ENSG00000167749	ENST00000596876	retained_intron	KNOWN	None	6365	None	None	51411246	51412638	-1	PRSS17	EMSP, EMSP1, PSTS, KLK-L1
19	KLK4	ENSG00000167749	ENST00000431178	protein_coding	KNOWN	None	6365	333	110	51410190	51412584	-1	PRSS17	EMSP, EMSP1, PSTS, KLK-L1
5	None	ENSG00000251062	ENST00000504072	processed_pseudogene	KNOWN	None	None	None	None	32888096	32888251	-1	None	None
17	MIR4739	ENSG00000266665	ENST00000577633	miRNA	KNOWN	None	41801	None	None	77680985	77681058	-1	None	hsa-mir-4739
8	None	ENSG00000248738	ENST00000520914	antisense	KNOWN	None	None	None	None	22735485	22741652	1	None	None
8	None	ENSG00000248738	ENST00000511897	antisense	KNOWN	None	None	None	None	22735497	22745535	1	None	None
8	None	ENSG00000248738	ENST00000522019	antisense	KNOWN	None	None	None	None	22735655	22741933	1	None	None
3	NDUFB4P1	ENSG00000242510	ENST00000462398	processed_pseudogene	KNOWN	None	45248	None	None	67564364	67564744	1	None	None
17	MTND1P14	ENSG00000227225	ENST00000427400	unprocessed_pseudogene	KNOWN	None	42063	None	None	19505572	19506521	1	None	None
5	HMGN1P12	ENSG00000247911	ENST00000499125	processed_pseudogene	KNOWN	None	39356	None	None	70833479	70833673	-1	None	None
11	LDHC	ENSG00000166796	ENST00000541669	protein_coding	KNOWN	CCDS7840	6544	999	332	18433854	18473605	1	None	CT32
11	LDHC	ENSG00000166796	ENST00000396215	nonsense_mediated_decay	KNOWN	None	6544	156	51	18433870	18472790	1	None	CT32
11	LDHC	ENSG00000166796	ENST00000280704	protein_coding	KNOWN	CCDS7840	6544	999	332	18433878	18472790	1	None	CT32
11	LDHC	ENSG00000166796	ENST00000545848	nonsense_mediated_decay	KNOWN	None	6544	156	51	18433907	18472790	1	None	CT32
11	LDHC	ENSG00000166796	ENST00000539369	nonsense_mediated_decay	KNOWN	None	6544	138	45	18433907	18472790	1	None	CT32
11	LDHC	ENSG00000166796	ENST00000546146	protein_coding	NOVEL	None	6544	552	183	18434265	18472674	1	None	CT32
11	LDHC	ENSG00000166796	ENST00000536880	protein_coding	NOVEL	None	6544	957	318	18434265	18472674	1	None	CT32
11	LDHC	ENSG00000166796	ENST00000537486	protein_coding	NOVEL	None	6544	504	167	18434265	18472674	1	None	CT32
11	LDHC	ENSG00000166796	ENST00000544105	protein_coding	PUTATIVE	None	6544	726	241	18434265	18472674	1	None	CT32
11	LDHC	ENSG00000166796	ENST00000535809	protein_coding	NOVEL	None	6544	678	225	18434265	18472674	1	None	CT32
14	RPL9P3	ENSG00000240392	ENST00000475906	processed_pseudogene	KNOWN	None	23555	None	None	35731668	35732242	1	None	None
8	MIR4661	ENSG00000266194	ENST00000582720	miRNA	KNOWN	None	41582	None	None	92217713	92217787	1	None	hsa-mir-4661
5	None	ENSG00000265613	ENST00000582542	miRNA	NOVEL	None	None	None	None	70910811	70910911	-1	None	None
12	None	ENSG00000202470	ENST00000365600	misc_RNA	NOVEL	None	None	None	None	95669546	95669648	1	None	None
5	None	ENSG00000250697	ENST00000512323	lincRNA	KNOWN	None	None	None	None	32925745	33023433	-1	None	None
5	None	ENSG00000250697	ENST00000510327	lincRNA	KNOWN	None	None	None	None	33023161	33298016	-1	None	None
5	None	ENSG00000250697	ENST00000505339	lincRNA	KNOWN	None	None	None	None	33023207	33049507	-1	None	None
15	SNORD115-28	ENSG00000200801	ENST00000363931	snoRNA	KNOWN	None	33047	None	None	25467495	25467575	1	None	HBII-52-28
14	IGHV7-56	ENSG00000253131	ENST00000518372	IG_V_pseudogene	KNOWN	None	5667	None	None	107065772	107066206	-1	None	None
12	TUBB4BP1	ENSG00000255988	ENST00000545422	processed_pseudogene	KNOWN	None	42180	None	None	25593809	25593986	-1	None	None
10	SNRPGP6	ENSG00000205433	ENST00000451124	processed_pseudogene	KNOWN	None	39325	None	None	118168768	118168987	1	None	None
17	TRNAQ41P	ENSG00000242752	ENST00000467595	processed_pseudogene	KNOWN	None	35051	None	None	19506587	19506658	-1	None	None
8	None	ENSG00000269918	ENST00000602575	sense_intronic	KNOWN	None	None	None	None	10962201	10964214	-1	None	None
HSCHR17_1_CTG4	KRT37	ENSG00000263022	ENST00000574588	protein_coding	KNOWN	None	6455	1350	449	39584330	39588100	-1	KRTHA7	None
12	CBX3P5	ENSG00000257666	ENST00000552017	processed_pseudogene	KNOWN	None	42877	None	None	95680094	95680614	-1	None	None
17	MTND2P12	ENSG00000228725	ENST00000417560	unprocessed_pseudogene	KNOWN	None	42113	None	None	19507110	19508361	1	None	None
10	HMGB3P8	ENSG00000227096	ENST00000449709	processed_pseudogene	KNOWN	None	39300	None	None	118198980	118199556	-1	None	None
5	None	ENSG00000248279	ENST00000505518	lincRNA	KNOWN	None	None	None	None	32947549	32962573	1	None	None
5	None	ENSG00000248279	ENST00000507693	lincRNA	KNOWN	None	None	None	None	32949099	32961535	1	None	None
18	BCL2	ENSG00000171791	ENST00000398117	protein_coding	KNOWN	CCDS11981	990	720	239	60790579	60987361	-1	None	Bcl-2, PPP1R50
18	BCL2	ENSG00000171791	ENST00000333681	protein_coding	KNOWN	CCDS11981	990	720	239	60794268	60987019	-1	None	Bcl-2, PPP1R50
18	BCL2	ENSG00000171791	ENST00000590515	processed_transcript	KNOWN	None	990	None	None	60795445	60829102	-1	None	Bcl-2, PPP1R50
18	BCL2	ENSG00000171791	ENST00000589955	protein_coding	KNOWN	CCDS45882	990	618	205	60985135	60986045	-1	None	Bcl-2, PPP1R50
18	BCL2	ENSG00000171791	ENST00000444484	protein_coding	KNOWN	CCDS45882	990	618	205	60985187	60986613	-1	None	Bcl-2, PPP1R50
15	None	ENSG00000261813	ENST00000567709	processed_pseudogene	KNOWN	None	None	None	None	75268581	75268914	-1	None	None
15	None	ENSG00000260693	ENST00000562992	lincRNA	KNOWN	None	None	None	None	30832296	30838172	1	None	None
10	None	ENSG00000228860	ENST00000457930	processed_pseudogene	KNOWN	None	None	None	None	21506820	21507208	1	None	None
3	None	ENSG00000241316	ENST00000464420	lincRNA	KNOWN	None	None	None	None	67705121	67797534	1	None	None
3	None	ENSG00000241316	ENST00000482677	lincRNA	KNOWN	None	None	None	None	67705182	67998137	1	None	None
3	None	ENSG00000241316	ENST00000496640	lincRNA	KNOWN	None	None	None	None	67718671	67801093	1	None	None
HSCHR12_1_CTG1	None	ENSG00000262016	ENST00000573709	antisense	KNOWN	None	None	None	None	218679	220336	-1	None	None
HSCHR6_MHC_COX	PPP1R18	ENSG00000231247	ENST00000470587	processed_transcript	KNOWN	None	29413	None	None	30634035	30644804	-1	KIAA1949	phostensin
HSCHR6_MHC_COX	PPP1R18	ENSG00000231247	ENST00000491628	processed_transcript	KNOWN	None	29413	None	None	30634035	30644839	-1	KIAA1949	phostensin
HSCHR6_MHC_COX	PPP1R18	ENSG00000231247	ENST00000435929	protein_coding	KNOWN	None	29413	1842	613	30634035	30644862	-1	KIAA1949	phostensin
HSCHR6_MHC_COX	PPP1R18	ENSG00000231247	ENST00000412189	protein_coding	KNOWN	None	29413	1842	613	30634035	30645541	-1	KIAA1949	phostensin
HSCHR6_MHC_COX	PPP1R18	ENSG00000231247	ENST00000548255	protein_coding	KNOWN	None	29413	1134	377	30634704	30643664	-1	KIAA1949	phostensin
4	LAMTOR3	ENSG00000109270	ENST00000499666	protein_coding	KNOWN	CCDS3652	15606	375	124	100799493	100815647	-1	MAP2K1IP1, MAPKSP1	MP1, MAPBP, Ragulator3
4	LAMTOR3	ENSG00000109270	ENST00000226522	protein_coding	NOVEL	CCDS58920	15606	354	117	100802364	100815533	-1	MAP2K1IP1, MAPKSP1	MP1, MAPBP, Ragulator3
4	LAMTOR3	ENSG00000109270	ENST00000515100	processed_transcript	KNOWN	None	15606	None	None	100802650	100815585	-1	MAP2K1IP1, MAPKSP1	MP1, MAPBP, Ragulator3
10	RNU6-1090P	ENSG00000200935	ENST00000364065	snRNA	KNOWN	None	48053	None	None	118297695	118297788	1	None	None
14	RNU6-1291P	ENSG00000252400	ENST00000516591	snRNA	KNOWN	None	48254	None	None	51989582	51989685	1	None	None
8	None	ENSG00000239134	ENST00000458820	snoRNA	NOVEL	None	None	None	None	92476263	92476367	-1	None	None
10	PNLIPP1	ENSG00000232091	ENST00000439233	unprocessed_pseudogene	KNOWN	None	45264	None	None	118336820	118342829	1	None	None
10	LUZP4P1	ENSG00000232853	ENST00000415420	processed_pseudogene	KNOWN	None	44904	None	None	21536681	21537024	1	None	None
HSCHR12_1_CTG1	None	ENSG00000262193	ENST00000571326	lincRNA	KNOWN	None	None	None	None	220871	236411	-1	None	None
HSCHR12_1_CTG1	None	ENSG00000262193	ENST00000570680	lincRNA	KNOWN	None	None	None	None	221017	236414	-1	None	None
X	None	ENSG00000266272	ENST00000580943	miRNA	NOVEL	None	None	None	None	135569451	135569551	1	None	None
19	None	ENSG00000269696	ENST00000596587	antisense	KNOWN	None	None	None	None	57056935	57078780	-1	None	None
14	RNU6-1033P	ENSG00000251771	ENST00000515962	snRNA	KNOWN	None	47996	None	None	52071557	52071618	-1	None	None
8	None	ENSG00000253901	ENST00000521199	lincRNA	KNOWN	None	None	None	None	92555152	92919847	-1	None	None
8	None	ENSG00000253901	ENST00000518416	lincRNA	KNOWN	None	None	None	None	92577208	92919681	-1	None	None
3	None	ENSG00000213178	ENST00000418623	processed_pseudogene	KNOWN	None	None	None	None	169201459	169201868	-1	None	None
10	RNU6-15P	ENSG00000207264	ENST00000384534	snRNA	KNOWN	None	34259	None	None	21610890	21610996	1	RNU6-15	None
14	None	ENSG00000265530	ENST00000578587	miRNA	NOVEL	None	None	None	None	35760692	35760782	1	None	None
17	POLR2A	ENSG00000181222	ENST00000322644	protein_coding	KNOWN	CCDS32548	9187	5913	1970	7387685	7417933	1	POLR2	POLRA, RPB1
17	POLR2A	ENSG00000181222	ENST00000572844	protein_coding	NOVEL	None	9187	1701	566	7387939	7403077	1	POLR2	POLRA, RPB1
17	POLR2A	ENSG00000181222	ENST00000576952	retained_intron	KNOWN	None	9187	None	None	7401100	7401838	1	POLR2	POLRA, RPB1
17	POLR2A	ENSG00000181222	ENST00000575547	retained_intron	KNOWN	None	9187	None	None	7402145	7404110	1	POLR2	POLRA, RPB1
17	POLR2A	ENSG00000181222	ENST00000576114	retained_intron	KNOWN	None	9187	None	None	7405404	7406043	1	POLR2	POLRA, RPB1
17	POLR2A	ENSG00000181222	ENST00000576718	retained_intron	KNOWN	None	9187	None	None	7406240	7406974	1	POLR2	POLRA, RPB1
17	POLR2A	ENSG00000181222	ENST00000574158	retained_intron	KNOWN	None	9187	None	None	7406720	7407275	1	POLR2	POLRA, RPB1
17	POLR2A	ENSG00000181222	ENST00000573603	retained_intron	KNOWN	None	9187	None	None	7411790	7413246	1	POLR2	POLRA, RPB1
17	POLR2A	ENSG00000181222	ENST00000576553	retained_intron	KNOWN	None	9187	None	None	7414834	7415800	1	POLR2	POLRA, RPB1
19	THEG	ENSG00000105549	ENST00000530711	protein_coding	NOVEL	None	13706	650	215	361750	374620	-1	None	CT56, THEG1
19	THEG	ENSG00000105549	ENST00000342640	protein_coding	KNOWN	CCDS12025	13706	1140	379	362057	376013	-1	None	CT56, THEG1
19	THEG	ENSG00000105549	ENST00000346878	protein_coding	KNOWN	CCDS12026	13706	1068	355	362200	375970	-1	None	CT56, THEG1
19	THEG	ENSG00000105549	ENST00000528213	retained_intron	KNOWN	None	13706	None	None	367202	374249	-1	None	CT56, THEG1
X	MIR934	ENSG00000216060	ENST00000401241	miRNA	KNOWN	None	33677	None	None	135633037	135633119	1	MIRN934	hsa-mir-934
22	PICK1	ENSG00000100151	ENST00000445628	protein_coding	KNOWN	None	9394	114	37	38452318	38455313	1	PRKCABP	dJ1039K5, MGC15204
22	PICK1	ENSG00000100151	ENST00000404072	protein_coding	KNOWN	CCDS13965	9394	1248	415	38453207	38471708	1	PRKCABP	dJ1039K5, MGC15204
22	PICK1	ENSG00000100151	ENST00000424694	protein_coding	KNOWN	None	9394	688	228	38453235	38468615	1	PRKCABP	dJ1039K5, MGC15204
22	PICK1	ENSG00000100151	ENST00000484021	retained_intron	KNOWN	None	9394	None	None	38453262	38471700	1	PRKCABP	dJ1039K5, MGC15204
22	PICK1	ENSG00000100151	ENST00000437453	protein_coding	PUTATIVE	None	9394	392	129	38453402	38464121	1	PRKCABP	dJ1039K5, MGC15204
22	PICK1	ENSG00000100151	ENST00000476157	retained_intron	KNOWN	None	9394	None	None	38453411	38454165	1	PRKCABP	dJ1039K5, MGC15204
22	PICK1	ENSG00000100151	ENST00000468288	processed_transcript	KNOWN	None	9394	None	None	38453411	38466898	1	PRKCABP	dJ1039K5, MGC15204
22	PICK1	ENSG00000100151	ENST00000426258	nonsense_mediated_decay	KNOWN	None	9394	156	51	38453411	38466898	1	PRKCABP	dJ1039K5, MGC15204
22	PICK1	ENSG00000100151	ENST00000469819	retained_intron	KNOWN	None	9394	None	None	38453414	38461233	1	PRKCABP	dJ1039K5, MGC15204
22	PICK1	ENSG00000100151	ENST00000356976	protein_coding	KNOWN	CCDS13965	9394	1248	415	38453414	38471708	1	PRKCABP	dJ1039K5, MGC15204
22	PICK1	ENSG00000100151	ENST00000466374	retained_intron	KNOWN	None	9394	None	None	38453490	38464092	1	PRKCABP	dJ1039K5, MGC15204
22	PICK1	ENSG00000100151	ENST00000435166	protein_coding	KNOWN	None	9394	402	133	38453660	38465092	1	PRKCABP	dJ1039K5, MGC15204
22	PICK1	ENSG00000100151	ENST00000432756	nonsense_mediated_decay	KNOWN	None	9394	156	51	38453663	38467735	1	PRKCABP	dJ1039K5, MGC15204
22	PICK1	ENSG00000100151	ENST00000472724	retained_intron	KNOWN	None	9394	None	None	38461120	38468014	1	PRKCABP	dJ1039K5, MGC15204
22	PICK1	ENSG00000100151	ENST00000494434	retained_intron	KNOWN	None	9394	None	None	38463484	38468541	1	PRKCABP	dJ1039K5, MGC15204
17	None	ENSG00000224254	ENST00000426148	unprocessed_pseudogene	KNOWN	None	None	None	None	19508767	19509246	1	None	None
10	None	ENSG00000230109	ENST00000433460	lincRNA	KNOWN	None	None	None	None	21629162	21661879	-1	None	None
15	SNORD115-29	ENSG00000199704	ENST00000362834	snoRNA	KNOWN	None	33048	None	None	25468393	25468474	1	None	HBII-52-29
5	None	ENSG00000249102	ENST00000511054	lincRNA	KNOWN	None	None	None	None	33009100	33025830	1	None	None
14	RNA5SP385	ENSG00000251756	ENST00000515947	rRNA	KNOWN	None	43285	None	None	52159470	52159579	1	RN5S385	None
HSCHR17_4_CTG4	KRT20	ENSG00000263057	ENST00000576098	protein_coding	KNOWN	None	20412	1275	424	39032193	39041479	-1	None	CK20, K20, MGC35423
HSCHR17_4_CTG4	KRT20	ENSG00000263057	ENST00000575828	retained_intron	KNOWN	None	20412	None	None	39038715	39041162	-1	None	CK20, K20, MGC35423
10	None	ENSG00000232767	ENST00000433600	antisense	KNOWN	None	None	None	None	118429614	118432250	1	None	None
19	SIGLEC31P	ENSG00000268847	ENST00000594237	unprocessed_pseudogene	KNOWN	None	16072	None	None	57100863	57101649	-1	SIGLECP15	None
14	None	ENSG00000258860	ENST00000555024	lincRNA	KNOWN	None	None	None	None	35831438	35832834	-1	None	None
15	RN7SL796P	ENSG00000239898	ENST00000485670	misc_RNA	KNOWN	None	46812	None	None	30852855	30853133	1	None	None
10	RPL5P27	ENSG00000228195	ENST00000437011	processed_pseudogene	KNOWN	None	36172	None	None	118509416	118510772	1	None	None
5	None	ENSG00000251281	ENST00000511840	lincRNA	KNOWN	None	None	None	None	33011428	33017713	-1	None	None
10	RNMTL1P1	ENSG00000231553	ENST00000454103	processed_pseudogene	KNOWN	None	44905	None	None	21682962	21683521	1	None	None
12	None	ENSG00000257009	ENST00000546101	sense_intronic	KNOWN	None	None	None	None	25738928	25745859	-1	None	None
12	None	ENSG00000257009	ENST00000535066	sense_intronic	KNOWN	None	None	None	None	25738944	25745862	-1	None	None
3	None	ENSG00000242795	ENST00000469794	sense_intronic	KNOWN	None	None	None	None	169331298	169341739	-1	None	None
14	RNU6-301P	ENSG00000207004	ENST00000384277	snRNA	KNOWN	None	47264	None	None	52190821	52190927	1	None	None
10	None	ENSG00000225302	ENST00000453491	antisense	KNOWN	None	None	None	None	118592512	118609212	-1	None	None
10	None	ENSG00000225302	ENST00000434227	antisense	KNOWN	None	None	None	None	118594489	118609716	-1	None	None
15	SNORD115-30	ENSG00000200987	ENST00000364117	snoRNA	KNOWN	None	33049	None	None	25470350	25470431	1	None	HBII-52-30
16	ZNF597	ENSG00000167981	ENST00000301744	protein_coding	KNOWN	CCDS10505	26573	1275	424	3486104	3493542	-1	None	FLJ33071
HG1091_PATCH	None	ENSG00000262281	ENST00000571214	processed_pseudogene	KNOWN	None	None	None	None	60717877	60718369	-1	None	None
17	None	ENSG00000231625	ENST00000574288	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	19519102	19536445	1	None	None
17	None	ENSG00000231625	ENST00000452153	processed_transcript	KNOWN	None	None	None	None	19532764	19537138	1	None	None
HSCHR6_MHC_COX	ETF1P1	ENSG00000232141	ENST00000423254	processed_pseudogene	KNOWN	None	3478	None	None	29989350	29990640	1	SUP45L2	HCGVII
12	RN7SKP262	ENSG00000222950	ENST00000411018	misc_RNA	KNOWN	None	45986	None	None	25932221	25932503	-1	None	None
14	None	ENSG00000240023	ENST00000459899	processed_pseudogene	KNOWN	None	None	None	None	35857327	35858275	-1	None	None
15	None	ENSG00000221593	ENST00000408666	miRNA	NOVEL	None	None	None	None	30854013	30854095	1	None	None
12	None	ENSG00000256686	ENST00000536949	lincRNA	KNOWN	None	None	None	None	25935640	25967105	-1	None	None
3	SYN2	ENSG00000157152	ENST00000426379	processed_transcript	KNOWN	None	11495	None	None	12045876	12232900	1	None	SYNII, SYNIIa, SYNIIb
3	SYN2	ENSG00000157152	ENST00000432424	processed_transcript	KNOWN	None	11495	None	None	12045880	12227228	1	None	SYNII, SYNIIa, SYNIIb
3	SYN2	ENSG00000157152	ENST00000424884	processed_transcript	KNOWN	None	11495	None	None	12113058	12192823	1	None	SYNII, SYNIIa, SYNIIb
3	SYN2	ENSG00000157152	ENST00000439861	retained_intron	KNOWN	None	11495	None	None	12190057	12232885	1	None	SYNII, SYNIIa, SYNIIb
3	SYN2	ENSG00000157152	ENST00000447752	processed_transcript	KNOWN	None	11495	None	None	12200149	12209921	1	None	SYNII, SYNIIa, SYNIIb
3	SYN2	ENSG00000157152	ENST00000425297	processed_transcript	KNOWN	None	11495	None	None	12203045	12226877	1	None	SYNII, SYNIIa, SYNIIb
8	None	ENSG00000255310	ENST00000530248	sense_intronic	KNOWN	None	None	None	None	10965298	10967236	-1	None	None
X	None	ENSG00000199424	ENST00000362554	misc_RNA	NOVEL	None	None	None	None	135653864	135653974	-1	None	None
20	AP5S1	ENSG00000125843	ENST00000379573	protein_coding	KNOWN	None	15875	180	59	3801178	3805949	1	C20orf29	FLJ11168
20	AP5S1	ENSG00000125843	ENST00000379567	protein_coding	KNOWN	CCDS13070	15875	603	200	3801183	3805949	1	C20orf29	FLJ11168
20	AP5S1	ENSG00000125843	ENST00000455742	protein_coding	KNOWN	None	15875	260	85	3801194	3804601	1	C20orf29	FLJ11168
20	AP5S1	ENSG00000125843	ENST00000246041	protein_coding	KNOWN	CCDS13070	15875	603	200	3801203	3805949	1	C20orf29	FLJ11168
X	CYLC1	ENSG00000183035	ENST00000329312	protein_coding	KNOWN	CCDS35341	2582	1956	651	83116154	83141705	1	None	None
14	None	ENSG00000259111	ENST00000557308	lincRNA	KNOWN	None	None	None	None	52217278	52229832	1	None	None
3	None	ENSG00000266400	ENST00000581789	miRNA	NOVEL	None	None	None	None	67878596	67878697	1	None	None
1	ADAMTS4	ENSG00000158859	ENST00000367996	protein_coding	KNOWN	CCDS1223	220	2514	837	161159538	161168846	-1	None	KIAA0688, ADAMTS-2, ADMP-1
1	ADAMTS4	ENSG00000158859	ENST00000478394	processed_transcript	KNOWN	None	220	None	None	161163952	161165541	-1	None	KIAA0688, ADAMTS-2, ADMP-1
1	ADAMTS4	ENSG00000158859	ENST00000367995	protein_coding	KNOWN	None	220	1020	339	161165769	161168843	-1	None	KIAA0688, ADAMTS-2, ADMP-1
12	RNU6-808P	ENSG00000212535	ENST00000391233	snRNA	KNOWN	None	47771	None	None	95684468	95684575	1	None	None
12	None	ENSG00000255725	ENST00000543961	processed_pseudogene	KNOWN	None	None	None	None	25956232	25957460	1	None	None
12	None	ENSG00000255725	ENST00000539003	processed_pseudogene	KNOWN	None	None	None	None	25956137	25956541	1	None	None
15	DNM1P50	ENSG00000259890	ENST00000565767	unprocessed_pseudogene	KNOWN	None	48499	None	None	30860025	30863292	-1	None	None
7	GTPBP10	ENSG00000105793	ENST00000469675	processed_transcript	KNOWN	None	25106	None	None	89964537	89973408	1	None	DKFZP686A10121, FLJ38242
7	GTPBP10	ENSG00000105793	ENST00000426366	protein_coding	PUTATIVE	None	25106	630	209	89969685	90006886	1	None	DKFZP686A10121, FLJ38242
7	GTPBP10	ENSG00000105793	ENST00000421719	nonsense_mediated_decay	KNOWN	None	25106	213	70	89969685	90006886	1	None	DKFZP686A10121, FLJ38242
7	GTPBP10	ENSG00000105793	ENST00000450619	protein_coding	PUTATIVE	None	25106	708	235	89969685	90006886	1	None	DKFZP686A10121, FLJ38242
7	GTPBP10	ENSG00000105793	ENST00000453512	nonsense_mediated_decay	KNOWN	None	25106	324	107	89969685	90006889	1	None	DKFZP686A10121, FLJ38242
7	GTPBP10	ENSG00000105793	ENST00000257659	protein_coding	KNOWN	CCDS43614	25106	927	308	89975979	90015204	1	None	DKFZP686A10121, FLJ38242
7	GTPBP10	ENSG00000105793	ENST00000222511	protein_coding	KNOWN	CCDS5617	25106	1164	387	89975990	90020769	1	None	DKFZP686A10121, FLJ38242
7	GTPBP10	ENSG00000105793	ENST00000417207	protein_coding	NOVEL	None	25106	728	241	89976009	90014251	1	None	DKFZP686A10121, FLJ38242
7	GTPBP10	ENSG00000105793	ENST00000477972	retained_intron	KNOWN	None	25106	None	None	89976016	89982546	1	None	DKFZP686A10121, FLJ38242
7	GTPBP10	ENSG00000105793	ENST00000380058	nonsense_mediated_decay	KNOWN	None	25106	351	116	89976021	90020327	1	None	DKFZP686A10121, FLJ38242
7	GTPBP10	ENSG00000105793	ENST00000439832	nonsense_mediated_decay	KNOWN	None	25106	240	79	89976044	90006928	1	None	DKFZP686A10121, FLJ38242
7	GTPBP10	ENSG00000105793	ENST00000474503	processed_transcript	KNOWN	None	25106	None	None	89983842	90014390	1	None	DKFZP686A10121, FLJ38242
15	SNORD115-31	ENSG00000202188	ENST00000365318	snoRNA	KNOWN	None	33050	None	None	25472256	25472337	1	None	HBII-52-31
X	RNU6-320P	ENSG00000252320	ENST00000516511	snRNA	KNOWN	None	47283	None	None	135665399	135665504	1	None	None
12	MIR331	ENSG00000199172	ENST00000362302	miRNA	KNOWN	None	31772	None	None	95702196	95702289	1	MIRN331	hsa-mir-331
14	None	ENSG00000259022	ENST00000554535	processed_pseudogene	KNOWN	None	None	None	None	35899466	35899837	1	None	None
3	COPS8P2	ENSG00000214552	ENST00000473228	processed_pseudogene	KNOWN	None	45270	None	None	68194154	68194780	1	None	None
3	PIGX	ENSG00000163964	ENST00000426755	protein_coding	PUTATIVE	None	26046	511	169	196366646	196457964	1	None	FLJ20522
3	PIGX	ENSG00000163964	ENST00000392391	protein_coding	KNOWN	CCDS3320	26046	777	258	196439229	196462878	1	None	FLJ20522
3	PIGX	ENSG00000163964	ENST00000296333	protein_coding	KNOWN	CCDS54701	26046	831	276	196439282	196460773	1	None	FLJ20522
3	PIGX	ENSG00000163964	ENST00000457284	nonsense_mediated_decay	KNOWN	None	26046	336	111	196439431	196454908	1	None	FLJ20522
3	PIGX	ENSG00000163964	ENST00000453218	nonsense_mediated_decay	KNOWN	None	26046	192	63	196439431	196460911	1	None	FLJ20522
3	PIGX	ENSG00000163964	ENST00000421265	protein_coding	PUTATIVE	None	26046	453	150	196439474	196455222	1	None	FLJ20522
3	PIGX	ENSG00000163964	ENST00000415832	nonsense_mediated_decay	KNOWN	None	26046	240	79	196439542	196461160	1	None	FLJ20522
3	PIGX	ENSG00000163964	ENST00000451319	protein_coding	PUTATIVE	None	26046	383	126	196439552	196454981	1	None	FLJ20522
3	PIGX	ENSG00000163964	ENST00000495440	processed_transcript	KNOWN	None	26046	None	None	196439593	196449427	1	None	FLJ20522
3	PIGX	ENSG00000163964	ENST00000314118	protein_coding	KNOWN	None	26046	654	217	196439245	196462855	1	None	FLJ20522
3	PIGX	ENSG00000163964	ENST00000541663	protein_coding	KNOWN	None	26046	507	168	196439542	196461160	1	None	FLJ20522
14	None	ENSG00000258423	ENST00000555893	unprocessed_pseudogene	KNOWN	None	None	None	None	52223714	52224706	1	None	None
13	RN7SL288P	ENSG00000240767	ENST00000490496	misc_RNA	KNOWN	None	46304	None	None	46743594	46743883	-1	None	None
8	None	ENSG00000253142	ENST00000522805	sense_intronic	KNOWN	None	None	None	None	22752947	22755326	-1	None	None
19	ZNF709	ENSG00000242852	ENST00000397732	protein_coding	KNOWN	CCDS42504	20629	1926	641	12571998	12595643	-1	None	FLJ38281
19	ZNF709	ENSG00000242852	ENST00000455490	protein_coding	PUTATIVE	None	20629	400	132	12576423	12624647	-1	None	FLJ38281
19	ZNF709	ENSG00000242852	ENST00000493776	processed_transcript	KNOWN	None	20629	None	None	12605632	12624668	-1	None	FLJ38281
8	None	ENSG00000254936	ENST00000526648	sense_intronic	KNOWN	None	None	None	None	10980891	10983574	-1	None	None
8	None	ENSG00000254936	ENST00000500944	sense_intronic	KNOWN	None	None	None	None	10980891	10983574	-1	None	None
3	None	ENSG00000240568	ENST00000471084	processed_pseudogene	KNOWN	None	None	None	None	68241548	68241730	1	None	None
16	None	ENSG00000266291	ENST00000584616	miRNA	KNOWN	None	None	None	None	18496035	18496128	-1	None	None
13	None	ENSG00000238483	ENST00000459016	snoRNA	NOVEL	None	None	None	None	46809805	46809908	-1	None	None
13	RN7SKP5	ENSG00000252854	ENST00000517045	misc_RNA	KNOWN	None	42623	None	None	46824077	46824348	1	None	None
5	RNU6-572P	ENSG00000252533	ENST00000516724	snRNA	KNOWN	None	47535	None	None	138557447	138557526	1	None	None
12	None	ENSG00000256440	ENST00000545704	lincRNA	KNOWN	None	None	None	None	25984350	25987116	-1	None	None
X	LINC00892	ENSG00000233093	ENST00000454385	antisense	KNOWN	None	48578	None	None	135721702	135724585	1	None	None
X	LINC00892	ENSG00000233093	ENST00000429841	antisense	KNOWN	None	48578	None	None	135721826	135724585	1	None	None
X	LINC00892	ENSG00000233093	ENST00000427517	retained_intron	KNOWN	None	48578	None	None	135721899	135724588	1	None	None
3	None	ENSG00000244381	ENST00000484597	processed_pseudogene	KNOWN	None	None	None	None	169427083	169427553	1	None	None
13	FAM206BP	ENSG00000251106	ENST00000510179	processed_pseudogene	KNOWN	None	39851	None	None	46844212	46844752	1	None	None
1	MMP23A	ENSG00000215914	ENST00000234610	unprocessed_pseudogene	KNOWN	None	7170	None	None	1631381	1633221	1	MMP21	MIFR
1	MMP23A	ENSG00000215914	ENST00000412810	unprocessed_pseudogene	KNOWN	None	7170	None	None	1631369	1633249	1	MMP21	MIFR
5	None	ENSG00000252213	ENST00000516404	snoRNA	KNOWN	None	None	None	None	138611869	138612009	1	None	None
3	None	ENSG00000244640	ENST00000461635	processed_pseudogene	KNOWN	None	None	None	None	68682857	68683507	-1	None	None
17	None	ENSG00000264932	ENST00000578640	antisense	KNOWN	None	None	None	None	19552686	19553248	-1	None	None
17	None	ENSG00000264932	ENST00000515977	misc_RNA	NOVEL	None	None	None	None	19552807	19552900	-1	None	None
15	SNORD115-32	ENSG00000200949	ENST00000364079	snoRNA	KNOWN	None	33051	None	None	25474114	25474195	1	None	HBII-52-32
13	LINC00563	ENSG00000261097	ENST00000566370	lincRNA	KNOWN	None	43707	None	None	46870580	46871979	-1	None	None
5	SNORA74A	ENSG00000200959	ENST00000364089	snoRNA	KNOWN	None	10119	None	None	138614470	138614667	1	RNU19	U19
8	None	ENSG00000204791	ENST00000561181	antisense	KNOWN	None	None	None	None	145104030	145105967	1	None	None
8	None	ENSG00000204791	ENST00000528912	antisense	KNOWN	None	None	None	None	145104458	145106423	1	None	None
12	None	ENSG00000256256	ENST00000544399	lincRNA	KNOWN	None	None	None	None	26035888	26038788	-1	None	None
2	GPAT2	ENSG00000186281	ENST00000486463	retained_intron	KNOWN	None	27168	None	None	96687694	96700663	-1	None	CT123
2	GPAT2	ENSG00000186281	ENST00000359548	protein_coding	KNOWN	CCDS42714	27168	2388	795	96687694	96700664	-1	None	CT123
2	GPAT2	ENSG00000186281	ENST00000434632	protein_coding	KNOWN	CCDS42714	27168	2388	795	96687694	96701722	-1	None	CT123
2	GPAT2	ENSG00000186281	ENST00000453542	protein_coding	NOVEL	None	27168	2175	724	96687695	96700673	-1	None	CT123
2	GPAT2	ENSG00000186281	ENST00000484440	retained_intron	KNOWN	None	27168	None	None	96687782	96700668	-1	None	CT123
2	GPAT2	ENSG00000186281	ENST00000471757	retained_intron	KNOWN	None	27168	None	None	96687783	96700675	-1	None	CT123
2	GPAT2	ENSG00000186281	ENST00000482704	retained_intron	KNOWN	None	27168	None	None	96687788	96696598	-1	None	CT123
2	GPAT2	ENSG00000186281	ENST00000439254	protein_coding	KNOWN	None	27168	480	159	96696159	96700666	-1	None	CT123
2	GPAT2	ENSG00000186281	ENST00000468438	processed_transcript	KNOWN	None	27168	None	None	96696536	96700668	-1	None	CT123
2	GPAT2	ENSG00000186281	ENST00000488515	processed_transcript	PUTATIVE	None	27168	None	None	96700713	96705199	-1	None	CT123
2	GPAT2	ENSG00000186281	ENST00000377137	protein_coding	KNOWN	None	27168	2016	671	96687695	96700664	-1	None	CT123
HG544_PATCH	STAM	ENSG00000260045	ENST00000565101	protein_coding	KNOWN	None	11357	1623	540	17686124	17757913	1	None	STAM1
HG544_PATCH	STAM	ENSG00000260045	ENST00000563847	nonsense_mediated_decay	KNOWN	None	11357	129	42	17686207	17735280	1	None	STAM1
HG544_PATCH	STAM	ENSG00000260045	ENST00000562126	protein_coding	PUTATIVE	None	11357	521	172	17686207	17742220	1	None	STAM1
HG544_PATCH	STAM	ENSG00000260045	ENST00000567106	processed_transcript	KNOWN	None	11357	None	None	17686712	17738834	1	None	STAM1
HG544_PATCH	STAM	ENSG00000260045	ENST00000569667	retained_intron	KNOWN	None	11357	None	None	17726784	17730156	1	None	STAM1
HG544_PATCH	STAM	ENSG00000260045	ENST00000566139	retained_intron	KNOWN	None	11357	None	None	17736925	17742240	1	None	STAM1
13	RNU2-6P	ENSG00000223336	ENST00000411404	snRNA	KNOWN	None	42506	None	None	46948536	46948725	-1	None	None
14	None	ENSG00000259017	ENST00000556448	lincRNA	KNOWN	None	None	None	None	35916209	35916831	-1	None	None
16	None	ENSG00000265776	ENST00000584855	miRNA	KNOWN	None	None	None	None	18499555	18499619	-1	None	None
3	MFN1	ENSG00000171109	ENST00000471841	protein_coding	KNOWN	CCDS3228	18262	2226	741	179065480	179112719	1	None	FLJ20693
3	MFN1	ENSG00000171109	ENST00000357390	nonsense_mediated_decay	KNOWN	None	18262	1113	370	179065523	179110813	1	None	FLJ20693
3	MFN1	ENSG00000171109	ENST00000467174	protein_coding	KNOWN	None	18262	464	153	179065838	179080198	1	None	FLJ20693
3	MFN1	ENSG00000171109	ENST00000263969	protein_coding	KNOWN	CCDS3228	18262	2226	741	179066549	179110284	1	None	FLJ20693
3	MFN1	ENSG00000171109	ENST00000489329	protein_coding	PUTATIVE	None	18262	372	123	179077508	179085286	1	None	FLJ20693
3	MFN1	ENSG00000171109	ENST00000474903	protein_coding	NOVEL	None	18262	1482	493	179080146	179110284	1	None	FLJ20693
3	MFN1	ENSG00000171109	ENST00000466287	retained_intron	KNOWN	None	18262	None	None	179094710	179095220	1	None	FLJ20693
3	MFN1	ENSG00000171109	ENST00000482661	retained_intron	KNOWN	None	18262	None	None	179094850	179096578	1	None	FLJ20693
3	MFN1	ENSG00000171109	ENST00000480636	retained_intron	KNOWN	None	18262	None	None	179094918	179104286	1	None	FLJ20693
3	MFN1	ENSG00000171109	ENST00000280653	protein_coding	KNOWN	None	18262	1893	630	179065480	179111006	1	None	FLJ20693
17	None	ENSG00000252349	ENST00000516540	snoRNA	NOVEL	None	None	None	None	19565313	19565403	1	None	None
3	None	ENSG00000212095	ENST00000390806	miRNA	NOVEL	None	None	None	None	68684067	68684160	1	None	None
20	None	ENSG00000235032	ENST00000445956	antisense	KNOWN	None	None	None	None	55789928	55790922	1	None	None
13	RNU6-68P	ENSG00000252385	ENST00000516576	snRNA	KNOWN	None	42558	None	None	46984589	46984692	1	RNU6-68	None
15	None	ENSG00000199580	ENST00000362710	misc_RNA	NOVEL	None	None	None	None	75275615	75275717	-1	None	None
16	CMTM2	ENSG00000140932	ENST00000379486	protein_coding	NOVEL	CCDS56001	19173	588	195	66613351	66622178	1	CKLFSF2	MGC39436, FLJ25732
16	CMTM2	ENSG00000140932	ENST00000268595	protein_coding	KNOWN	CCDS10814	19173	747	248	66613360	66622178	1	CKLFSF2	MGC39436, FLJ25732
16	CMTM2	ENSG00000140932	ENST00000569316	nonsense_mediated_decay	KNOWN	None	19173	156	51	66613363	66621888	1	CKLFSF2	MGC39436, FLJ25732
16	CMTM2	ENSG00000140932	ENST00000532362	retained_intron	KNOWN	None	19173	None	None	66620812	66622178	1	CKLFSF2	MGC39436, FLJ25732
17	None	ENSG00000262681	ENST00000577087	lincRNA	KNOWN	None	None	None	None	19622372	19625741	1	None	None
3	CD200	ENSG00000091972	ENST00000607597	protein_coding	PUTATIVE	None	7203	187	61	112051194	112063922	1	MOX1, MOX2	MRC, OX-2
3	CD200	ENSG00000091972	ENST00000606471	protein_coding	PUTATIVE	None	7203	607	201	112051347	112066677	1	MOX1, MOX2	MRC, OX-2
3	CD200	ENSG00000091972	ENST00000607516	processed_transcript	PUTATIVE	None	7203	None	None	112051688	112054843	1	MOX1, MOX2	MRC, OX-2
3	CD200	ENSG00000091972	ENST00000498096	nonsense_mediated_decay	KNOWN	None	7203	453	150	112051915	112068666	1	MOX1, MOX2	MRC, OX-2
3	CD200	ENSG00000091972	ENST00000473539	protein_coding	KNOWN	CCDS33818	7203	885	294	112052003	112080979	1	MOX1, MOX2	MRC, OX-2
3	CD200	ENSG00000091972	ENST00000315711	protein_coding	KNOWN	CCDS2965	7203	810	269	112052003	112081659	1	MOX1, MOX2	MRC, OX-2
3	CD200	ENSG00000091972	ENST00000383681	protein_coding	PUTATIVE	None	7203	588	195	112052025	112081631	1	MOX1, MOX2	MRC, OX-2
3	CD200	ENSG00000091972	ENST00000478595	nonsense_mediated_decay	KNOWN	None	7203	231	76	112052025	112081656	1	MOX1, MOX2	MRC, OX-2
X	None	ENSG00000252693	ENST00000516884	snoRNA	NOVEL	None	None	None	None	123331593	123331699	1	None	None
14	IGHV3-57	ENSG00000253759	ENST00000520143	IG_V_pseudogene	KNOWN	None	5612	None	None	107074907	107075186	-1	None	None
HSCHR6_MHC_DBB	PSMB8	ENSG00000230034	ENST00000446762	protein_coding	KNOWN	None	9545	831	276	32786475	32789805	-1	LMP7	RING10, D6S216E, PSMB5i, beta5i
HSCHR6_MHC_DBB	PSMB8	ENSG00000230034	ENST00000441960	protein_coding	KNOWN	None	9545	819	272	32786475	32790461	-1	LMP7	RING10, D6S216E, PSMB5i, beta5i
HSCHR6_MHC_DBB	PSMB8	ENSG00000230034	ENST00000449883	protein_coding	KNOWN	None	9545	759	252	32786475	32789778	-1	LMP7	RING10, D6S216E, PSMB5i, beta5i
HSCHR6_MHC_DBB	PSMB8	ENSG00000230034	ENST00000493375	retained_intron	KNOWN	None	9545	None	None	32786475	32787792	-1	LMP7	RING10, D6S216E, PSMB5i, beta5i
HSCHR6_MHC_DBB	PSMB8	ENSG00000230034	ENST00000471479	retained_intron	KNOWN	None	9545	None	None	32786779	32790409	-1	LMP7	RING10, D6S216E, PSMB5i, beta5i
HSCHR6_MHC_DBB	PSMB8	ENSG00000230034	ENST00000546794	protein_coding	KNOWN	None	9545	831	276	32786501	32789797	-1	LMP7	RING10, D6S216E, PSMB5i, beta5i
20	None	ENSG00000268302	ENST00000593352	protein_coding	NOVEL	None	None	249	82	25207122	25207370	-1	None	None
5	RNA5SP195	ENSG00000199545	ENST00000362675	rRNA	KNOWN	None	43095	None	None	138635541	138635657	1	RN5S195	None
15	SNORD115-33	ENSG00000200593	ENST00000363723	snoRNA	KNOWN	None	33052	None	None	25475985	25476066	1	None	HBII-52-33
10	H2AFZP5	ENSG00000234612	ENST00000446960	processed_pseudogene	KNOWN	None	38018	None	None	79713253	79713634	1	None	None
17	None	ENSG00000264785	ENST00000580884	antisense	KNOWN	None	None	None	None	19640995	19641855	1	None	None
12	MIR3685	ENSG00000265917	ENST00000579373	miRNA	KNOWN	None	38886	None	None	95703699	95703760	1	None	hsa-mir-3685
16	None	ENSG00000257527	ENST00000552753	lincRNA	KNOWN	None	None	None	None	18505166	18505708	-1	None	None
12	MMP19	ENSG00000123342	ENST00000548882	nonsense_mediated_decay	KNOWN	None	7165	246	81	56229217	56236733	-1	MMP18	RASI-1
12	MMP19	ENSG00000123342	ENST00000547685	retained_intron	KNOWN	None	7165	None	None	56230210	56233818	-1	MMP18	RASI-1
12	MMP19	ENSG00000123342	ENST00000322569	protein_coding	KNOWN	CCDS8895	7165	1527	508	56230210	56236706	-1	MMP18	RASI-1
12	MMP19	ENSG00000123342	ENST00000552872	nonsense_mediated_decay	KNOWN	None	7165	192	63	56230210	56236750	-1	MMP18	RASI-1
12	MMP19	ENSG00000123342	ENST00000548629	protein_coding	NOVEL	None	7165	1458	485	56230585	56236734	-1	MMP18	RASI-1
12	MMP19	ENSG00000123342	ENST00000409200	protein_coding	PUTATIVE	None	7165	918	305	56230754	56236720	-1	MMP18	RASI-1
12	MMP19	ENSG00000123342	ENST00000552763	nonsense_mediated_decay	KNOWN	None	7165	327	108	56232072	56236724	-1	MMP18	RASI-1
12	MMP19	ENSG00000123342	ENST00000547487	processed_transcript	PUTATIVE	None	7165	None	None	56234911	56236724	-1	MMP18	RASI-1
12	MMP19	ENSG00000123342	ENST00000547299	processed_transcript	PUTATIVE	None	7165	None	None	56234967	56236744	-1	MMP18	RASI-1
12	MMP19	ENSG00000123342	ENST00000394182	protein_coding	KNOWN	None	7165	669	222	56229244	56232320	-1	MMP18	RASI-1
14	RPS3AP4	ENSG00000259105	ENST00000555161	processed_pseudogene	KNOWN	None	23562	None	None	35937478	35938536	1	None	None
3	IL17RE	ENSG00000163701	ENST00000461534	retained_intron	KNOWN	None	18439	None	None	9944296	9945064	1	None	FLJ23658
3	IL17RE	ENSG00000163701	ENST00000421412	protein_coding	KNOWN	None	18439	2103	700	9944303	9957528	1	None	FLJ23658
3	IL17RE	ENSG00000163701	ENST00000383814	protein_coding	KNOWN	CCDS2589	18439	2004	667	9944512	9958086	1	None	FLJ23658
3	IL17RE	ENSG00000163701	ENST00000489181	retained_intron	KNOWN	None	18439	None	None	9944515	9952074	1	None	FLJ23658
3	IL17RE	ENSG00000163701	ENST00000444427	nonsense_mediated_decay	KNOWN	None	18439	573	190	9944532	9953222	1	None	FLJ23658
3	IL17RE	ENSG00000163701	ENST00000434065	nonsense_mediated_decay	KNOWN	None	18439	441	146	9944532	9958079	1	None	FLJ23658
3	IL17RE	ENSG00000163701	ENST00000454190	protein_coding	KNOWN	CCDS54552	18439	1602	533	9944532	9958086	1	None	FLJ23658
3	IL17RE	ENSG00000163701	ENST00000383815	nonsense_mediated_decay	KNOWN	None	18439	561	186	9944534	9958082	1	None	FLJ23658
3	IL17RE	ENSG00000163701	ENST00000454992	protein_coding	PUTATIVE	None	18439	520	172	9944566	9948758	1	None	FLJ23658
3	IL17RE	ENSG00000163701	ENST00000483258	retained_intron	KNOWN	None	18439	None	None	9952549	9953089	1	None	FLJ23658
3	IL17RE	ENSG00000163701	ENST00000480244	retained_intron	KNOWN	None	18439	None	None	9952941	9953498	1	None	FLJ23658
3	IL17RE	ENSG00000163701	ENST00000295980	protein_coding	KNOWN	CCDS2589	18439	2004	667	9944303	9958079	1	None	FLJ23658
15	ENO1P2	ENSG00000258739	ENST00000557166	transcribed_processed_pseudogene	KNOWN	None	37943	None	None	92964090	92965965	1	None	None
17	None	ENSG00000230607	ENST00000431878	processed_pseudogene	KNOWN	None	None	None	None	19658557	19659520	1	None	None
15	None	ENSG00000260483	ENST00000565251	processed_pseudogene	KNOWN	None	None	None	None	75315321	75315597	1	None	None
5	RN7SKP64	ENSG00000253015	ENST00000517206	misc_RNA	KNOWN	None	45788	None	None	138668727	138669054	-1	None	None
12	PLCZ1	ENSG00000139151	ENST00000536023	protein_coding	PUTATIVE	None	19218	304	100	18836103	18848012	-1	None	NYD-SP27, PLCzeta
12	PLCZ1	ENSG00000139151	ENST00000318197	nonsense_mediated_decay	KNOWN	None	19218	138	45	18836112	18890949	-1	None	NYD-SP27, PLCzeta
12	PLCZ1	ENSG00000139151	ENST00000534932	protein_coding	PUTATIVE	None	19218	270	89	18836116	18847971	-1	None	NYD-SP27, PLCzeta
12	PLCZ1	ENSG00000139151	ENST00000543219	nonsense_mediated_decay	KNOWN	None	19218	450	149	18836116	18847978	-1	None	NYD-SP27, PLCzeta
12	PLCZ1	ENSG00000139151	ENST00000538330	protein_coding	PUTATIVE	None	19218	1173	390	18836116	18867705	-1	None	NYD-SP27, PLCzeta
12	PLCZ1	ENSG00000139151	ENST00000540270	nonsense_mediated_decay	KNOWN	None	19218	1237	411	18836116	18872547	-1	None	NYD-SP27, PLCzeta
12	PLCZ1	ENSG00000139151	ENST00000266505	protein_coding	KNOWN	CCDS8680	19218	1827	608	18836116	18890991	-1	None	NYD-SP27, PLCzeta
12	PLCZ1	ENSG00000139151	ENST00000539875	protein_coding	KNOWN	None	19218	1248	415	18836121	18890403	-1	None	NYD-SP27, PLCzeta
12	PLCZ1	ENSG00000139151	ENST00000540421	protein_coding	PUTATIVE	None	19218	797	264	18841022	18865844	-1	None	NYD-SP27, PLCzeta
12	PLCZ1	ENSG00000139151	ENST00000542762	processed_transcript	KNOWN	None	19218	None	None	18849084	18867681	-1	None	NYD-SP27, PLCzeta
12	PLCZ1	ENSG00000139151	ENST00000540515	retained_intron	KNOWN	None	19218	None	None	18849125	18854524	-1	None	NYD-SP27, PLCzeta
12	PLCZ1	ENSG00000139151	ENST00000543242	protein_coding	PUTATIVE	None	19218	394	130	18852731	18890946	-1	None	NYD-SP27, PLCzeta
12	PLCZ1	ENSG00000139151	ENST00000539072	protein_coding	PUTATIVE	None	19218	498	165	18854435	18890946	-1	None	NYD-SP27, PLCzeta
12	PLCZ1	ENSG00000139151	ENST00000539207	nonsense_mediated_decay	KNOWN	None	19218	138	45	18865818	18890960	-1	None	NYD-SP27, PLCzeta
12	PLCZ1	ENSG00000139151	ENST00000545129	processed_transcript	KNOWN	None	19218	None	None	18865833	18890989	-1	None	NYD-SP27, PLCzeta
12	PLCZ1	ENSG00000139151	ENST00000535429	nonsense_mediated_decay	KNOWN	None	19218	162	53	18865848	18890946	-1	None	NYD-SP27, PLCzeta
12	PLCZ1	ENSG00000139151	ENST00000541966	protein_coding	PUTATIVE	None	19218	229	75	18872393	18890946	-1	None	NYD-SP27, PLCzeta
12	PLCZ1	ENSG00000139151	ENST00000541109	processed_transcript	KNOWN	None	19218	None	None	18876392	18890973	-1	None	NYD-SP27, PLCzeta
12	PLCZ1	ENSG00000139151	ENST00000544849	retained_intron	KNOWN	None	19218	None	None	18888698	18890946	-1	None	NYD-SP27, PLCzeta
12	PLCZ1	ENSG00000139151	ENST00000447925	protein_coding	KNOWN	None	19218	1821	606	18836116	18890991	-1	None	NYD-SP27, PLCzeta
12	PLCZ1	ENSG00000139151	ENST00000435379	protein_coding	KNOWN	None	19218	1242	413	18836116	18890991	-1	None	NYD-SP27, PLCzeta
12	PLCZ1	ENSG00000139151	ENST00000541695	protein_coding	KNOWN	None	19218	1212	403	18836116	18872547	-1	None	NYD-SP27, PLCzeta
20	TGM2	ENSG00000198959	ENST00000469269	retained_intron	KNOWN	None	11778	None	None	36756863	36762162	-1	None	TGC
20	TGM2	ENSG00000198959	ENST00000361475	protein_coding	KNOWN	CCDS13302	11778	2064	687	36756863	36793774	-1	None	TGC
20	TGM2	ENSG00000198959	ENST00000468262	retained_intron	KNOWN	None	11778	None	None	36766352	36793684	-1	None	TGC
20	TGM2	ENSG00000198959	ENST00000474777	retained_intron	KNOWN	None	11778	None	None	36773752	36793661	-1	None	TGC
20	TGM2	ENSG00000198959	ENST00000373403	protein_coding	KNOWN	None	11778	842	279	36775136	36794910	-1	None	TGC
20	TGM2	ENSG00000198959	ENST00000453095	protein_coding	KNOWN	None	11778	479	158	36779414	36794980	-1	None	TGC
20	TGM2	ENSG00000198959	ENST00000536701	protein_coding	KNOWN	None	11778	1821	606	36758357	36793672	-1	None	TGC
20	TGM2	ENSG00000198959	ENST00000536724	protein_coding	KNOWN	None	11778	1884	627	36758536	36793672	-1	None	TGC
5	RNU5B-4P	ENSG00000200378	ENST00000363508	snRNA	KNOWN	None	34184	None	None	138783596	138783706	1	None	None
2	COPS8	ENSG00000198612	ENST00000354371	protein_coding	KNOWN	CCDS2517	24335	630	209	237993955	238009109	1	None	COP9, CSN8, MGC1297, SGN8
2	COPS8	ENSG00000198612	ENST00000392008	protein_coding	KNOWN	CCDS42835	24335	483	160	237994525	238007261	1	None	COP9, CSN8, MGC1297, SGN8
2	COPS8	ENSG00000198612	ENST00000409334	protein_coding	NOVEL	None	24335	522	173	237994527	238006576	1	None	COP9, CSN8, MGC1297, SGN8
2	COPS8	ENSG00000198612	ENST00000470452	retained_intron	KNOWN	None	24335	None	None	237994529	238004524	1	None	COP9, CSN8, MGC1297, SGN8
2	COPS8	ENSG00000198612	ENST00000419015	nonsense_mediated_decay	KNOWN	None	24335	195	64	237994552	238002829	1	None	COP9, CSN8, MGC1297, SGN8
2	COPS8	ENSG00000198612	ENST00000409629	protein_coding	NOVEL	None	24335	621	206	237994586	238007318	1	None	COP9, CSN8, MGC1297, SGN8
2	COPS8	ENSG00000198612	ENST00000447464	nonsense_mediated_decay	KNOWN	None	24335	250	82	238002782	238007786	1	None	COP9, CSN8, MGC1297, SGN8
2	COPS8	ENSG00000198612	ENST00000465362	retained_intron	KNOWN	None	24335	None	None	238005321	238006803	1	None	COP9, CSN8, MGC1297, SGN8
10	GNAI2P2	ENSG00000231957	ENST00000417003	processed_pseudogene	KNOWN	None	45110	None	None	79828381	79829296	-1	None	None
17	None	ENSG00000231096	ENST00000418418	processed_pseudogene	KNOWN	None	None	None	None	19743439	19743828	1	None	None
16	MIR3179-3	ENSG00000266454	ENST00000579566	miRNA	KNOWN	None	38214	None	None	18505751	18505834	-1	None	hsa-mir-3179-3
X	HSPA8P20	ENSG00000234564	ENST00000448737	processed_pseudogene	KNOWN	None	44936	None	None	123338349	123339656	-1	None	None
3	RNU6-637P	ENSG00000206777	ENST00000384050	snRNA	KNOWN	None	47600	None	None	169437975	169438081	-1	None	None
3	NKTR	ENSG00000114857	ENST00000232978	protein_coding	KNOWN	CCDS2702	7833	4389	1462	42642106	42690227	1	None	p104
3	NKTR	ENSG00000114857	ENST00000468735	retained_intron	KNOWN	None	7833	None	None	42642147	42679718	1	None	p104
3	NKTR	ENSG00000114857	ENST00000460910	processed_transcript	KNOWN	None	7833	None	None	42642152	42652676	1	None	p104
3	NKTR	ENSG00000114857	ENST00000487466	retained_intron	KNOWN	None	7833	None	None	42642164	42668802	1	None	p104
3	NKTR	ENSG00000114857	ENST00000429888	nonsense_mediated_decay	KNOWN	None	7833	318	105	42642174	42690227	1	None	p104
3	NKTR	ENSG00000114857	ENST00000459950	retained_intron	KNOWN	None	7833	None	None	42642210	42644548	1	None	p104
3	NKTR	ENSG00000114857	ENST00000442970	protein_coding	NOVEL	None	7833	318	105	42642235	42661808	1	None	p104
3	NKTR	ENSG00000114857	ENST00000445842	protein_coding	KNOWN	None	7833	314	103	42642253	42661535	1	None	p104
3	NKTR	ENSG00000114857	ENST00000478488	retained_intron	KNOWN	None	7833	None	None	42642472	42668960	1	None	p104
3	NKTR	ENSG00000114857	ENST00000465584	retained_intron	KNOWN	None	7833	None	None	42661311	42679711	1	None	p104
3	NKTR	ENSG00000114857	ENST00000466553	retained_intron	KNOWN	None	7833	None	None	42662497	42672808	1	None	p104
3	NKTR	ENSG00000114857	ENST00000498730	retained_intron	KNOWN	None	7833	None	None	42668678	42678527	1	None	p104
3	NKTR	ENSG00000114857	ENST00000472127	retained_intron	KNOWN	None	7833	None	None	42672525	42674604	1	None	p104
3	NKTR	ENSG00000114857	ENST00000508351	retained_intron	KNOWN	None	7833	None	None	42674701	42676973	1	None	p104
3	NKTR	ENSG00000114857	ENST00000460807	retained_intron	KNOWN	None	7833	None	None	42674701	42678492	1	None	p104
3	NKTR	ENSG00000114857	ENST00000464315	retained_intron	KNOWN	None	7833	None	None	42675129	42676549	1	None	p104
3	NKTR	ENSG00000114857	ENST00000472258	retained_intron	KNOWN	None	7833	None	None	42676572	42678648	1	None	p104
3	NKTR	ENSG00000114857	ENST00000490189	retained_intron	KNOWN	None	7833	None	None	42685144	42687608	1	None	p104
20	None	ENSG00000226308	ENST00000412321	processed_transcript	KNOWN	None	None	None	None	55841853	55858054	1	None	None
20	None	ENSG00000226308	ENST00000426580	processed_transcript	KNOWN	None	None	None	None	55841858	55855541	1	None	None
5	None	ENSG00000249689	ENST00000515724	processed_pseudogene	KNOWN	None	None	None	None	138872123	138872690	1	None	None
15	ULK4P2	ENSG00000260128	ENST00000570221	processed_transcript	PUTATIVE	None	15776	None	None	30864941	30876769	1	FAM7A2	D-X
15	ULK4P2	ENSG00000260128	ENST00000561753	processed_transcript	PUTATIVE	None	15776	None	None	30864968	30892310	1	FAM7A2	D-X
15	ULK4P2	ENSG00000260128	ENST00000566793	processed_transcript	PUTATIVE	None	15776	None	None	30865088	30889187	1	FAM7A2	D-X
15	ULK4P2	ENSG00000260128	ENST00000569682	processed_transcript	PUTATIVE	None	15776	None	None	30865172	30892850	1	FAM7A2	D-X
15	ULK4P2	ENSG00000260128	ENST00000564187	transcribed_unprocessed_pseudogene	KNOWN	None	15776	None	None	30871488	30888941	1	FAM7A2	D-X
15	ULK4P2	ENSG00000260128	ENST00000399994	unprocessed_pseudogene	KNOWN	None	15776	None	None	30875128	30892918	1	FAM7A2	D-X
17	None	ENSG00000270091	ENST00000602353	lincRNA	KNOWN	None	None	None	None	19799903	19800583	-1	None	None
17	None	ENSG00000270091	ENST00000602532	lincRNA	KNOWN	None	None	None	None	19800037	19800600	-1	None	None
16	None	ENSG00000262974	ENST00000575091	processed_pseudogene	KNOWN	None	None	None	None	18544740	18545139	1	None	None
8	RN7SKP231	ENSG00000200151	ENST00000363281	misc_RNA	KNOWN	None	45955	None	None	92607193	92607469	1	None	None
14	MIR4506	ENSG00000265768	ENST00000584693	miRNA	KNOWN	None	41663	None	None	94414572	94414648	-1	None	hsa-mir-4506
17	None	ENSG00000266126	ENST00000583067	sense_intronic	KNOWN	None	None	None	None	19832685	19833050	-1	None	None
3	TERC	ENSG00000270141	ENST00000602385	lincRNA	KNOWN	None	11727	None	None	169482308	169482848	-1	None	TR, hTR, TRC3, SCARNA19
3	TERC	ENSG00000270141	ENST00000363312	misc_RNA	KNOWN	None	11727	None	None	169482398	169482835	-1	None	TR, hTR, TRC3, SCARNA19
14	IGHV3-60	ENSG00000253742	ENST00000521678	IG_V_pseudogene	KNOWN	None	5614	None	None	107087202	107087658	-1	None	None
1	NADK	ENSG00000008130	ENST00000341426	protein_coding	KNOWN	CCDS30565	29831	1341	446	1682671	1709909	-1	None	FLJ13052
1	NADK	ENSG00000008130	ENST00000341991	protein_coding	KNOWN	CCDS30565	29831	1341	446	1682671	1710229	-1	None	FLJ13052
1	NADK	ENSG00000008130	ENST00000378625	protein_coding	KNOWN	CCDS55562	29831	1776	591	1682671	1711508	-1	None	FLJ13052
1	NADK	ENSG00000008130	ENST00000498806	nonsense_mediated_decay	KNOWN	None	29831	117	38	1684414	1685822	-1	None	FLJ13052
1	NADK	ENSG00000008130	ENST00000469045	protein_coding	PUTATIVE	None	29831	133	43	1685500	1688707	-1	None	FLJ13052
1	NADK	ENSG00000008130	ENST00000480499	retained_intron	KNOWN	None	29831	None	None	1685602	1687766	-1	None	FLJ13052
1	NADK	ENSG00000008130	ENST00000497747	retained_intron	KNOWN	None	29831	None	None	1685604	1686305	-1	None	FLJ13052
1	NADK	ENSG00000008130	ENST00000477235	retained_intron	KNOWN	None	29831	None	None	1685610	1688463	-1	None	FLJ13052
1	NADK	ENSG00000008130	ENST00000489538	nonsense_mediated_decay	KNOWN	None	29831	225	74	1685620	1688047	-1	None	FLJ13052
1	NADK	ENSG00000008130	ENST00000497615	retained_intron	KNOWN	None	29831	None	None	1685642	1686335	-1	None	FLJ13052
1	NADK	ENSG00000008130	ENST00000497186	nonsense_mediated_decay	KNOWN	None	29831	93	30	1685782	1688667	-1	None	FLJ13052
1	NADK	ENSG00000008130	ENST00000400922	protein_coding	KNOWN	None	29831	619	205	1686111	1690014	-1	None	FLJ13052
1	NADK	ENSG00000008130	ENST00000492845	retained_intron	KNOWN	None	29831	None	None	1687443	1711401	-1	None	FLJ13052
1	NADK	ENSG00000008130	ENST00000492768	processed_transcript	KNOWN	None	29831	None	None	1688027	1709858	-1	None	FLJ13052
1	NADK	ENSG00000008130	ENST00000460602	retained_intron	KNOWN	None	29831	None	None	1688210	1709858	-1	None	FLJ13052
1	NADK	ENSG00000008130	ENST00000464373	retained_intron	KNOWN	None	29831	None	None	1693104	1709859	-1	None	FLJ13052
1	NADK	ENSG00000008130	ENST00000480542	processed_transcript	KNOWN	None	29831	None	None	1710596	1711896	-1	None	FLJ13052
1	NADK	ENSG00000008130	ENST00000344463	protein_coding	KNOWN	CCDS55562	29831	1776	591	1682678	1709909	-1	None	FLJ13052
1	NADK	ENSG00000008130	ENST00000342348	protein_coding	KNOWN	CCDS55561	29831	1245	414	1683910	1690081	-1	None	FLJ13052
10	LINC00856	ENSG00000230417	ENST00000434974	lincRNA	KNOWN	None	45111	None	None	80008505	80012402	1	None	None
10	LINC00856	ENSG00000230417	ENST00000423770	lincRNA	KNOWN	None	45111	None	None	80008565	80010208	1	None	None
10	LINC00856	ENSG00000230417	ENST00000432742	lincRNA	KNOWN	None	45111	None	None	80008565	80113093	1	None	None
10	LINC00856	ENSG00000230417	ENST00000510550	lincRNA	KNOWN	None	45111	None	None	80166301	80310614	1	None	None
10	LINC00856	ENSG00000230417	ENST00000421324	lincRNA	KNOWN	None	45111	None	None	80288508	80434724	1	None	None
5	None	ENSG00000249215	ENST00000513338	processed_pseudogene	KNOWN	None	None	None	None	138873841	138875701	1	None	None
8	SEPT10P1	ENSG00000253541	ENST00000517342	processed_pseudogene	KNOWN	None	40018	None	None	57389385	57390546	-1	None	None
22	None	ENSG00000236235	ENST00000448473	unprocessed_pseudogene	KNOWN	None	None	None	None	16680767	16687245	-1	None	None
X	RPS6KA6	ENSG00000072133	ENST00000262752	protein_coding	KNOWN	CCDS14451	10435	2238	745	83318984	83442915	-1	None	RSK4
X	RPS6KA6	ENSG00000072133	ENST00000495332	processed_transcript	KNOWN	None	10435	None	None	83351202	83361469	-1	None	RSK4
X	RPS6KA6	ENSG00000072133	ENST00000460730	processed_transcript	KNOWN	None	10435	None	None	83411083	83442906	-1	None	RSK4
X	RPS6KA6	ENSG00000072133	ENST00000543399	protein_coding	KNOWN	None	10435	2238	745	83319256	83442933	-1	None	RSK4
22	TMEM211	ENSG00000206069	ENST00000407886	protein_coding	KNOWN	CCDS33624	33725	390	129	25331077	25342662	-1	None	bA9F11.1
22	TMEM211	ENSG00000206069	ENST00000423535	protein_coding	KNOWN	None	33725	603	200	25331208	25335502	-1	None	bA9F11.1
22	TMEM211	ENSG00000206069	ENST00000382744	protein_coding	KNOWN	CCDS33624	33725	390	129	25331208	25335314	-1	None	bA9F11.1
17	None	ENSG00000261033	ENST00000564549	antisense	KNOWN	None	None	None	None	19911364	19912547	-1	None	None
3	ZKSCAN7	ENSG00000196345	ENST00000426540	protein_coding	KNOWN	CCDS2715	12955	2265	754	44596685	44612986	1	ZNF64, ZNF448, ZNF167	FLJ12738, ZSCAN39
3	ZKSCAN7	ENSG00000196345	ENST00000431636	protein_coding	KNOWN	CCDS2714	12955	831	276	44596685	44624937	1	ZNF64, ZNF448, ZNF167	FLJ12738, ZSCAN39
3	ZKSCAN7	ENSG00000196345	ENST00000341840	protein_coding	KNOWN	CCDS2714	12955	831	276	44596695	44624975	1	ZNF64, ZNF448, ZNF167	FLJ12738, ZSCAN39
3	ZKSCAN7	ENSG00000196345	ENST00000273320	protein_coding	KNOWN	CCDS2715	12955	2265	754	44596700	44613650	1	ZNF64, ZNF448, ZNF167	FLJ12738, ZSCAN39
3	ZKSCAN7	ENSG00000196345	ENST00000418719	nonsense_mediated_decay	KNOWN	None	12955	609	202	44596721	44611620	1	ZNF64, ZNF448, ZNF167	FLJ12738, ZSCAN39
3	ZKSCAN7	ENSG00000196345	ENST00000447279	protein_coding	NOVEL	None	12955	1122	373	44596936	44624798	1	ZNF64, ZNF448, ZNF167	FLJ12738, ZSCAN39
3	ZKSCAN7	ENSG00000196345	ENST00000496563	retained_intron	KNOWN	None	12955	None	None	44598849	44609969	1	ZNF64, ZNF448, ZNF167	FLJ12738, ZSCAN39
3	ZKSCAN7	ENSG00000196345	ENST00000419137	protein_coding	PUTATIVE	None	12955	366	121	44607051	44635665	1	ZNF64, ZNF448, ZNF167	FLJ12738, ZSCAN39
8	None	ENSG00000271202	ENST00000605538	processed_pseudogene	KNOWN	None	None	None	None	92921966	92922395	-1	None	None
16	None	ENSG00000260550	ENST00000602805	lincRNA	KNOWN	None	None	None	None	18581770	18582390	-1	None	None
16	None	ENSG00000260550	ENST00000561676	lincRNA	KNOWN	None	None	None	None	18581777	18583005	-1	None	None
17	None	ENSG00000225681	ENST00000434406	transcribed_processed_pseudogene	KNOWN	None	None	None	None	19959600	19959943	1	None	None
8	MRPS16P1	ENSG00000229182	ENST00000523462	processed_pseudogene	KNOWN	None	29732	None	None	92929735	92930146	1	None	None
19	None	ENSG00000196826	ENST00000428311	protein_coding	PUTATIVE	None	None	1926	641	12572373	12662288	-1	None	None
20	None	ENSG00000252064	ENST00000516255	misc_RNA	NOVEL	None	None	None	None	55886910	55887014	1	None	None
5	None	ENSG00000207020	ENST00000384293	misc_RNA	NOVEL	None	None	None	None	138934485	138934586	-1	None	None
20	PYGB	ENSG00000100994	ENST00000216962	protein_coding	KNOWN	CCDS13171	9723	2532	843	25228705	25278650	1	None	None
20	PYGB	ENSG00000100994	ENST00000428458	protein_coding	KNOWN	None	9723	734	243	25270484	25277104	1	None	None
20	PYGB	ENSG00000100994	ENST00000471359	processed_transcript	KNOWN	None	9723	None	None	25274537	25277272	1	None	None
17	KCTD9P1	ENSG00000225014	ENST00000430462	transcribed_processed_pseudogene	KNOWN	None	21428	None	None	20015137	20016303	1	None	HsT38306
15	None	ENSG00000260152	ENST00000565381	processed_pseudogene	KNOWN	None	None	None	None	75406602	75407209	1	None	None
1	RNF186	ENSG00000178828	ENST00000375121	protein_coding	KNOWN	CCDS199	25978	684	227	20140523	20141771	-1	None	FLJ20225
5	None	ENSG00000272255	ENST00000606683	lincRNA	KNOWN	None	None	None	None	139024045	139024587	-1	None	None
5	HMGCS1	ENSG00000112972	ENST00000325110	protein_coding	KNOWN	CCDS34154	5007	1563	520	43289497	43313595	-1	HMGCS	None
5	HMGCS1	ENSG00000112972	ENST00000433297	protein_coding	KNOWN	CCDS34154	5007	1563	520	43289497	43313614	-1	HMGCS	None
5	HMGCS1	ENSG00000112972	ENST00000508319	retained_intron	KNOWN	None	5007	None	None	43293836	43294954	-1	HMGCS	None
5	HMGCS1	ENSG00000112972	ENST00000514610	retained_intron	KNOWN	None	5007	None	None	43294515	43295959	-1	HMGCS	None
5	HMGCS1	ENSG00000112972	ENST00000507004	retained_intron	KNOWN	None	5007	None	None	43298246	43313575	-1	HMGCS	None
5	HMGCS1	ENSG00000112972	ENST00000507293	retained_intron	KNOWN	None	5007	None	None	43298548	43313576	-1	HMGCS	None
5	HMGCS1	ENSG00000112972	ENST00000511774	protein_coding	KNOWN	None	5007	287	94	43298781	43313326	-1	HMGCS	None
10	None	ENSG00000234973	ENST00000423349	lincRNA	KNOWN	None	None	None	None	44273010	44274074	-1	None	None
10	None	ENSG00000234973	ENST00000419406	lincRNA	KNOWN	None	None	None	None	44273010	44274273	-1	None	None
17	RNU6-258P	ENSG00000212186	ENST00000390884	snRNA	KNOWN	None	47221	None	None	20029701	20029801	-1	None	None
14	LINC00521	ENSG00000175699	ENST00000444118	processed_transcript	KNOWN	None	19860	None	None	94463616	94473898	1	C14orf48	None
14	LINC00521	ENSG00000175699	ENST00000455802	processed_transcript	KNOWN	None	19860	None	None	94463620	94467569	1	C14orf48	None
14	LINC00521	ENSG00000175699	ENST00000359253	processed_transcript	KNOWN	None	19860	None	None	94463642	94475209	1	C14orf48	None
14	LINC00521	ENSG00000175699	ENST00000449472	processed_transcript	KNOWN	None	19860	None	None	94463686	94465806	1	C14orf48	None
14	LINC00521	ENSG00000175699	ENST00000314629	processed_transcript	KNOWN	None	19860	None	None	94463642	94478040	1	C14orf48	None
14	LINC00521	ENSG00000175699	ENST00000422540	processed_transcript	KNOWN	None	19860	None	None	94463642	94478040	1	C14orf48	None
20	MIR4325	ENSG00000266666	ENST00000583049	miRNA	KNOWN	None	38304	None	None	55896558	55896647	-1	None	hsa-mir-4325
17	None	ENSG00000263494	ENST00000580225	lincRNA	KNOWN	None	None	None	None	20088395	20226286	1	None	None
Y	TBL1Y	ENSG00000092377	ENST00000383032	protein_coding	KNOWN	CCDS14779	18502	1569	522	6778727	6959724	1	None	TBL1
Y	TBL1Y	ENSG00000092377	ENST00000355162	protein_coding	KNOWN	CCDS14779	18502	1569	522	6778727	6959724	1	None	TBL1
Y	TBL1Y	ENSG00000092377	ENST00000346432	protein_coding	KNOWN	CCDS14779	18502	1569	522	6778727	6959724	1	None	TBL1
11	GYLTL1B	ENSG00000165905	ENST00000529052	protein_coding	NOVEL	None	16522	2073	690	45943172	45950647	1	None	PP5656, FLJ35207, LARGE2
11	GYLTL1B	ENSG00000165905	ENST00000531526	protein_coding	KNOWN	CCDS31473	16522	2166	721	45943196	45950647	1	None	PP5656, FLJ35207, LARGE2
11	GYLTL1B	ENSG00000165905	ENST00000401752	protein_coding	KNOWN	CCDS31473	16522	2166	721	45944243	45950647	1	None	PP5656, FLJ35207, LARGE2
11	GYLTL1B	ENSG00000165905	ENST00000528236	retained_intron	KNOWN	None	16522	None	None	45945701	45950647	1	None	PP5656, FLJ35207, LARGE2
11	GYLTL1B	ENSG00000165905	ENST00000525609	retained_intron	KNOWN	None	16522	None	None	45946005	45948103	1	None	PP5656, FLJ35207, LARGE2
11	GYLTL1B	ENSG00000165905	ENST00000414027	retained_intron	KNOWN	None	16522	None	None	45946168	45948381	1	None	PP5656, FLJ35207, LARGE2
11	GYLTL1B	ENSG00000165905	ENST00000530437	retained_intron	KNOWN	None	16522	None	None	45947914	45950633	1	None	PP5656, FLJ35207, LARGE2
11	GYLTL1B	ENSG00000165905	ENST00000534410	protein_coding	PUTATIVE	None	16522	476	157	45948002	45949489	1	None	PP5656, FLJ35207, LARGE2
11	GYLTL1B	ENSG00000165905	ENST00000531847	protein_coding	PUTATIVE	None	16522	329	108	45949587	45950647	1	None	PP5656, FLJ35207, LARGE2
11	GYLTL1B	ENSG00000165905	ENST00000325468	protein_coding	KNOWN	CCDS31473	16522	2166	721	45944329	45950647	1	None	PP5656, FLJ35207, LARGE2
11	GYLTL1B	ENSG00000165905	ENST00000536139	protein_coding	KNOWN	None	16522	2073	690	45944329	45950647	1	None	PP5656, FLJ35207, LARGE2
11	GYLTL1B	ENSG00000165905	ENST00000389968	protein_coding	KNOWN	None	16522	870	289	45944243	45949384	1	None	PP5656, FLJ35207, LARGE2
17	RNU6-1057P	ENSG00000252971	ENST00000517162	snRNA	KNOWN	None	48020	None	None	20193570	20193671	1	None	None
12	None	ENSG00000258313	ENST00000551656	lincRNA	KNOWN	None	None	None	None	95781666	95782334	-1	None	None
X	None	ENSG00000237300	ENST00000443487	processed_pseudogene	KNOWN	None	None	None	None	102051179	102052021	1	None	None
10	LINC00595	ENSG00000227136	ENST00000415959	lincRNA	KNOWN	None	31430	None	None	80027085	80037822	1	C10orf101	None
10	LINC00595	ENSG00000227136	ENST00000461034	lincRNA	KNOWN	None	31430	None	None	80027136	80061803	1	C10orf101	None
10	LINC00595	ENSG00000227136	ENST00000476909	lincRNA	KNOWN	None	31430	None	None	80027167	80039970	1	C10orf101	None
10	LINC00595	ENSG00000227136	ENST00000459633	lincRNA	KNOWN	None	31430	None	None	80027199	80090352	1	C10orf101	None
X	TLR7	ENSG00000196664	ENST00000380659	protein_coding	KNOWN	CCDS14151	15631	3150	1049	12885202	12908499	1	None	None
X	TLR7	ENSG00000196664	ENST00000484204	processed_transcript	KNOWN	None	15631	None	None	12885598	12895758	1	None	None
16	ABCC6P1	ENSG00000256340	ENST00000565118	processed_transcript	KNOWN	None	33352	None	None	18582484	18584844	1	None	None
16	ABCC6P1	ENSG00000256340	ENST00000546162	processed_transcript	KNOWN	None	33352	None	None	18582510	18609650	1	None	None
16	ABCC6P1	ENSG00000256340	ENST00000565647	processed_transcript	KNOWN	None	33352	None	None	18582538	18591574	1	None	None
16	ABCC6P1	ENSG00000256340	ENST00000565566	transcribed_unprocessed_pseudogene	KNOWN	None	33352	None	None	18582598	18604038	1	None	None
16	ABCC6P1	ENSG00000256340	ENST00000600761	unprocessed_pseudogene	KNOWN	None	33352	None	None	18582561	18584843	1	None	None
10	IDE	ENSG00000119912	ENST00000265986	protein_coding	KNOWN	CCDS7421	5381	3060	1019	94211441	94333833	-1	None	None
10	IDE	ENSG00000119912	ENST00000496903	processed_transcript	KNOWN	None	5381	None	None	94214026	94257490	-1	None	None
10	IDE	ENSG00000119912	ENST00000478361	nonsense_mediated_decay	KNOWN	None	5381	186	61	94234229	94333824	-1	None	None
10	IDE	ENSG00000119912	ENST00000463640	processed_transcript	KNOWN	None	5381	None	None	94235702	94239344	-1	None	None
10	IDE	ENSG00000119912	ENST00000462988	processed_transcript	KNOWN	None	5381	None	None	94235729	94239492	-1	None	None
10	IDE	ENSG00000119912	ENST00000492362	processed_transcript	KNOWN	None	5381	None	None	94240314	94257506	-1	None	None
10	IDE	ENSG00000119912	ENST00000436178	protein_coding	KNOWN	None	5381	772	256	94269890	94301110	-1	None	None
10	IDE	ENSG00000119912	ENST00000371581	protein_coding	KNOWN	CCDS53554	5381	1395	464	94211441	94257518	-1	None	None
7	ASIC3	ENSG00000213199	ENST00000357922	protein_coding	KNOWN	CCDS5914	101	1632	543	150745379	150749840	1	ACCN3	TNaC1, DRASIC
7	ASIC3	ENSG00000213199	ENST00000377904	nonsense_mediated_decay	KNOWN	None	101	1224	407	150745605	150749841	1	ACCN3	TNaC1, DRASIC
7	ASIC3	ENSG00000213199	ENST00000349064	protein_coding	KNOWN	CCDS5916	101	1596	531	150745775	150749840	1	ACCN3	TNaC1, DRASIC
7	ASIC3	ENSG00000213199	ENST00000468325	nonsense_mediated_decay	KNOWN	None	101	1224	407	150745854	150749840	1	ACCN3	TNaC1, DRASIC
7	ASIC3	ENSG00000213199	ENST00000297512	protein_coding	KNOWN	CCDS5915	101	1650	549	150745973	150749841	1	ACCN3	TNaC1, DRASIC
7	ASIC3	ENSG00000213199	ENST00000474135	retained_intron	KNOWN	None	101	None	None	150747165	150747951	1	ACCN3	TNaC1, DRASIC
7	ASIC3	ENSG00000213199	ENST00000485929	protein_coding	PUTATIVE	None	101	434	143	150748007	150749841	1	ACCN3	TNaC1, DRASIC
7	ASIC3	ENSG00000213199	ENST00000490540	protein_coding	PUTATIVE	None	101	450	149	150748300	150749843	1	ACCN3	TNaC1, DRASIC
7	ASIC3	ENSG00000213199	ENST00000498105	retained_intron	KNOWN	None	101	None	None	150748321	150749819	1	ACCN3	TNaC1, DRASIC
1	OTUD3	ENSG00000169914	ENST00000375120	protein_coding	KNOWN	CCDS41279	29038	1197	398	20209006	20239438	1	None	KIAA0459, DUBA4
1	OTUD3	ENSG00000169914	ENST00000466697	processed_transcript	KNOWN	None	29038	None	None	20216951	20224308	1	None	KIAA0459, DUBA4
1	OTUD3	ENSG00000169914	ENST00000481686	processed_transcript	KNOWN	None	29038	None	None	20233058	20233437	1	None	KIAA0459, DUBA4
19	ZNF564	ENSG00000249709	ENST00000339282	protein_coding	KNOWN	CCDS42505	31106	1662	553	12636184	12662343	-1	None	MGC26914
19	ZNF564	ENSG00000249709	ENST00000427105	nonsense_mediated_decay	KNOWN	None	31106	210	69	12638672	12662281	-1	None	MGC26914
19	ZNF564	ENSG00000249709	ENST00000596193	protein_coding	PUTATIVE	None	31106	105	34	12638721	12662356	-1	None	MGC26914
19	ZNF564	ENSG00000249709	ENST00000416136	protein_coding	PUTATIVE	None	31106	66	21	12659527	12662248	-1	None	MGC26914
19	ZNF564	ENSG00000249709	ENST00000465410	retained_intron	KNOWN	None	31106	None	None	12661056	12662246	-1	None	MGC26914
HSCHR6_MHC_MCF	None	ENSG00000257733	ENST00000551616	protein_coding	NOVEL	None	None	246	81	31955270	31955515	-1	None	None
11	CST6	ENSG00000175315	ENST00000312134	protein_coding	KNOWN	CCDS8126	2478	450	149	65779312	65780976	1	None	None
20	None	ENSG00000231005	ENST00000455840	processed_pseudogene	KNOWN	None	None	None	None	55903602	55903752	1	None	None
19	None	ENSG00000269615	ENST00000601468	processed_pseudogene	KNOWN	None	None	None	None	22123622	22124335	1	None	None
17	CCDC144CP	ENSG00000154898	ENST00000340196	processed_transcript	KNOWN	None	29073	None	None	20224477	20241399	1	CCDC144C	None
17	CCDC144CP	ENSG00000154898	ENST00000433419	transcribed_processed_pseudogene	KNOWN	None	29073	None	None	20224630	20306870	1	CCDC144C	None
17	CCDC144CP	ENSG00000154898	ENST00000580574	processed_transcript	KNOWN	None	29073	None	None	20243205	20246138	1	CCDC144C	None
17	CCDC144CP	ENSG00000154898	ENST00000425519	processed_pseudogene	KNOWN	None	29073	None	None	20224487	20305504	1	CCDC144C	None
14	None	ENSG00000257493	ENST00000548456	unprocessed_pseudogene	KNOWN	None	None	None	None	20132257	20151836	-1	None	None
19	None	ENSG00000271095	ENST00000603918	processed_pseudogene	KNOWN	None	None	None	None	22180450	22181642	1	None	None
15	None	ENSG00000261635	ENST00000561804	processed_pseudogene	KNOWN	None	None	None	None	36905675	36906399	1	None	None
6	None	ENSG00000235122	ENST00000437859	antisense	KNOWN	None	None	None	None	49785143	49788155	1	None	None
12	None	ENSG00000257583	ENST00000548194	lincRNA	KNOWN	None	None	None	None	95782375	95799280	-1	None	None
8	None	ENSG00000254556	ENST00000531549	sense_intronic	KNOWN	None	None	None	None	10994408	10996117	-1	None	None
10	None	ENSG00000229543	ENST00000434440	lincRNA	KNOWN	None	None	None	None	80053599	80060760	1	None	None
X	None	ENSG00000229760	ENST00000433928	processed_pseudogene	KNOWN	None	None	None	None	55204640	55205170	-1	None	None
6	None	ENSG00000226707	ENST00000430821	lincRNA	KNOWN	None	None	None	None	49791425	49792495	-1	None	None
15	SNORD115-34	ENSG00000199311	ENST00000362441	snoRNA	KNOWN	None	33053	None	None	25477534	25477615	1	None	HBII-52-34
10	None	ENSG00000230229	ENST00000416341	lincRNA	KNOWN	None	None	None	None	80112354	80115857	1	None	None
19	None	ENSG00000269504	ENST00000596778	lincRNA	KNOWN	None	None	None	None	22200761	22219117	-1	None	None
HG325_PATCH	HYAL3	ENSG00000261855	ENST00000572211	protein_coding	KNOWN	None	5322	1164	387	50330263	50336291	-1	None	LUCA-3, LUCA14, Minna14
HG325_PATCH	HYAL3	ENSG00000261855	ENST00000572961	protein_coding	KNOWN	None	5322	1254	417	50330263	50336900	-1	None	LUCA-3, LUCA14, Minna14
HG325_PATCH	HYAL3	ENSG00000261855	ENST00000571109	protein_coding	KNOWN	None	5322	507	168	50330413	50336833	-1	None	LUCA-3, LUCA14, Minna14
HG325_PATCH	HYAL3	ENSG00000261855	ENST00000576798	protein_coding	KNOWN	None	5322	417	138	50330477	50336664	-1	None	LUCA-3, LUCA14, Minna14
HG325_PATCH	HYAL3	ENSG00000261855	ENST00000575451	protein_coding	KNOWN	None	5322	479	158	50332556	50333205	-1	None	LUCA-3, LUCA14, Minna14
14	None	ENSG00000258550	ENST00000556941	unprocessed_pseudogene	KNOWN	None	None	None	None	52229774	52230794	-1	None	None
14	KRT18P6	ENSG00000258783	ENST00000555540	processed_pseudogene	KNOWN	None	20280	None	None	35981031	35982295	-1	None	None
14	LINC00644	ENSG00000259142	ENST00000555156	lincRNA	KNOWN	None	44297	None	None	62600867	62606691	-1	None	None
19	None	ENSG00000269199	ENST00000600071	lincRNA	KNOWN	None	None	None	None	22226302	22232807	-1	None	None
X	MTND2P24	ENSG00000231947	ENST00000453434	processed_pseudogene	KNOWN	None	42125	None	None	55205627	55206432	-1	None	None
6	None	ENSG00000226733	ENST00000415106	lincRNA	KNOWN	None	None	None	None	50061424	50066995	1	None	None
8	None	ENSG00000182366	ENST00000330148	lincRNA	KNOWN	None	None	None	None	325931	333174	-1	None	None
8	None	ENSG00000182366	ENST00000602608	lincRNA	KNOWN	None	None	None	None	326243	327759	-1	None	None
8	None	ENSG00000182366	ENST00000523195	lincRNA	KNOWN	None	None	None	None	329088	333174	-1	None	None
8	RN7SL303P	ENSG00000240116	ENST00000469773	misc_RNA	KNOWN	None	46319	None	None	22835390	22835638	1	None	None
3	None	ENSG00000269889	ENST00000602879	antisense	KNOWN	None	None	None	None	169487437	169489831	1	None	None
X	None	ENSG00000233467	ENST00000411473	processed_pseudogene	KNOWN	None	None	None	None	147279534	147280398	-1	None	None
19	None	ENSG00000269742	ENST00000598302	processed_pseudogene	KNOWN	None	None	None	None	22248630	22249200	-1	None	None
X	MTND1P30	ENSG00000238047	ENST00000441241	processed_pseudogene	KNOWN	None	42079	None	None	55206810	55207710	-1	None	None
15	SNORD115-35	ENSG00000201992	ENST00000365122	snoRNA	KNOWN	None	33054	None	None	25479394	25479475	1	None	HBII-52-35
8	None	ENSG00000245025	ENST00000523884	antisense	KNOWN	None	None	None	None	22842109	22865044	-1	None	None
8	None	ENSG00000245025	ENST00000502083	antisense	KNOWN	None	None	None	None	22863894	22876848	-1	None	None
18	PSTPIP2	ENSG00000152229	ENST00000589328	protein_coding	KNOWN	None	9581	939	312	43563502	43652223	-1	None	None
18	PSTPIP2	ENSG00000152229	ENST00000409746	protein_coding	KNOWN	CCDS32820	9581	1005	334	43563502	43652226	-1	None	None
18	PSTPIP2	ENSG00000152229	ENST00000588801	processed_transcript	KNOWN	None	9581	None	None	43564199	43620253	-1	None	None
18	PSTPIP2	ENSG00000152229	ENST00000593086	retained_intron	KNOWN	None	9581	None	None	43571902	43573940	-1	None	None
18	PSTPIP2	ENSG00000152229	ENST00000591729	retained_intron	KNOWN	None	9581	None	None	43579425	43596191	-1	None	None
18	PSTPIP2	ENSG00000152229	ENST00000587042	retained_intron	KNOWN	None	9581	None	None	43590726	43652238	-1	None	None
22	ABCD1P4	ENSG00000225293	ENST00000399687	unprocessed_pseudogene	KNOWN	None	65	None	None	16868420	16871613	1	None	None
8	None	ENSG00000231965	ENST00000488887	processed_pseudogene	KNOWN	None	None	None	None	11032560	11033079	1	None	None
X	None	ENSG00000251617	ENST00000514681	unprocessed_pseudogene	KNOWN	None	None	None	None	55306272	55315118	1	None	None
16	PCMTD1P2	ENSG00000260087	ENST00000565017	processed_pseudogene	KNOWN	None	38805	None	None	33941656	33942010	1	None	None
6	None	ENSG00000233470	ENST00000426547	lincRNA	KNOWN	None	None	None	None	50481748	50488817	1	None	None
15	SNORD115-36	ENSG00000202499	ENST00000365629	snoRNA	KNOWN	None	33055	None	None	25481232	25481313	1	None	HBII-52-36
HSCHR17_1_CTG4	TBC1D3P7	ENSG00000262591	ENST00000571236	unprocessed_pseudogene	KNOWN	None	43569	None	None	39479679	39485797	1	None	None
8	NKX2-6	ENSG00000180053	ENST00000325017	protein_coding	KNOWN	None	32940	906	301	23559964	23564111	-1	None	CSX2, NKX4-2
8	NKX2-6	ENSG00000180053	ENST00000418222	protein_coding	KNOWN	None	32940	660	219	23559964	23563922	-1	None	CSX2, NKX4-2
14	None	ENSG00000258535	ENST00000553312	sense_overlapping	KNOWN	None	None	None	None	52231994	52292140	1	None	None
10	HK1	ENSG00000156515	ENST00000450646	protein_coding	KNOWN	None	4922	419	138	71029740	71124570	1	None	None
10	HK1	ENSG00000156515	ENST00000464803	processed_transcript	KNOWN	None	4922	None	None	71029756	71103599	1	None	None
10	HK1	ENSG00000156515	ENST00000480047	processed_transcript	KNOWN	None	4922	None	None	71029756	71103599	1	None	None
10	HK1	ENSG00000156515	ENST00000479594	processed_transcript	KNOWN	None	4922	None	None	71029761	71060568	1	None	None
10	HK1	ENSG00000156515	ENST00000483077	processed_transcript	KNOWN	None	4922	None	None	71029761	71119772	1	None	None
10	HK1	ENSG00000156515	ENST00000476368	processed_transcript	KNOWN	None	4922	None	None	71029783	71103745	1	None	None
10	HK1	ENSG00000156515	ENST00000483054	processed_transcript	KNOWN	None	4922	None	None	71038284	71103646	1	None	None
10	HK1	ENSG00000156515	ENST00000488644	processed_transcript	KNOWN	None	4922	None	None	71038341	71056082	1	None	None
10	HK1	ENSG00000156515	ENST00000421088	protein_coding	KNOWN	None	4922	343	113	71042311	71124542	1	None	None
10	HK1	ENSG00000156515	ENST00000436817	protein_coding	KNOWN	None	4922	872	289	71075541	71129380	1	None	None
10	HK1	ENSG00000156515	ENST00000359426	protein_coding	KNOWN	CCDS7292	4922	2754	917	71078600	71161638	1	None	None
10	HK1	ENSG00000156515	ENST00000493591	processed_transcript	KNOWN	None	4922	None	None	71078867	71136726	1	None	None
10	HK1	ENSG00000156515	ENST00000494253	processed_transcript	KNOWN	None	4922	None	None	71097776	71146547	1	None	None
10	HK1	ENSG00000156515	ENST00000467704	processed_transcript	KNOWN	None	4922	None	None	71124582	71161638	1	None	None
10	HK1	ENSG00000156515	ENST00000470050	processed_transcript	KNOWN	None	4922	None	None	71152035	71160874	1	None	None
10	HK1	ENSG00000156515	ENST00000448642	protein_coding	KNOWN	None	4922	2859	952	71029761	71161635	1	None	None
10	HK1	ENSG00000156515	ENST00000404387	protein_coding	KNOWN	CCDS7289	4922	2766	921	71048500	71160891	1	None	None
10	HK1	ENSG00000156515	ENST00000360289	protein_coding	KNOWN	CCDS7290	4922	2718	905	71029756	71161635	1	None	None
10	HK1	ENSG00000156515	ENST00000298649	protein_coding	KNOWN	CCDS7291	4922	2751	916	71075610	71161635	1	None	None
8	None	ENSG00000253961	ENST00000521252	antisense	KNOWN	None	None	None	None	31024594	31034388	-1	None	None
8	None	ENSG00000253961	ENST00000523365	antisense	KNOWN	None	None	None	None	31028639	31034683	-1	None	None
14	None	ENSG00000253059	ENST00000517250	snoRNA	NOVEL	None	None	None	None	36225533	36225669	1	None	None
6	None	ENSG00000230472	ENST00000431394	lincRNA	KNOWN	None	None	None	None	50555320	50604578	-1	None	None
6	None	ENSG00000230472	ENST00000454135	lincRNA	KNOWN	None	None	None	None	50566304	50604918	-1	None	None
8	None	ENSG00000270076	ENST00000602443	lincRNA	KNOWN	None	None	None	None	11060474	11061180	1	None	None
16	None	ENSG00000259987	ENST00000566845	processed_pseudogene	KNOWN	None	None	None	None	33943723	33944473	-1	None	None
X	None	ENSG00000232765	ENST00000440645	processed_transcript	KNOWN	None	None	None	None	55306576	55315219	1	None	None
22	None	ENSG00000226160	ENST00000427602	processed_pseudogene	KNOWN	None	None	None	None	16886056	16886143	1	None	None
5	OSMR	ENSG00000145623	ENST00000502536	protein_coding	KNOWN	CCDS54847	8507	1029	342	38845960	38886759	1	None	OSMRB
5	OSMR	ENSG00000145623	ENST00000274276	protein_coding	KNOWN	CCDS3928	8507	2940	979	38846101	38935743	1	None	OSMRB
5	OSMR	ENSG00000145623	ENST00000513831	protein_coding	PUTATIVE	None	8507	567	188	38904500	38919668	1	None	OSMRB
5	OSMR	ENSG00000145623	ENST00000509237	nonsense_mediated_decay	KNOWN	None	8507	188	61	38931985	38945698	1	None	OSMRB
5	OSMR	ENSG00000145623	ENST00000508882	nonsense_mediated_decay	KNOWN	None	8507	107	34	38932564	38945215	1	None	OSMRB
8	None	ENSG00000246130	ENST00000501897	antisense	KNOWN	None	None	None	None	22925742	22941132	1	None	None
15	LARP4P	ENSG00000261315	ENST00000566382	transcribed_processed_pseudogene	KNOWN	None	21438	None	None	36909290	36911466	1	None	None
14	QRSL1P3	ENSG00000257957	ENST00000552666	processed_pseudogene	KNOWN	None	43669	None	None	36235001	36236316	1	None	None
16	MPG	ENSG00000103152	ENST00000436333	protein_coding	KNOWN	None	7211	753	250	127006	135683	1	None	MDG
16	MPG	ENSG00000103152	ENST00000356432	protein_coding	KNOWN	CCDS32345	7211	882	293	128062	135852	1	None	MDG
16	MPG	ENSG00000103152	ENST00000475280	processed_transcript	PUTATIVE	None	7211	None	None	128243	129843	1	None	MDG
16	MPG	ENSG00000103152	ENST00000219431	protein_coding	KNOWN	CCDS32346	7211	897	298	128256	135841	1	None	MDG
16	MPG	ENSG00000103152	ENST00000397817	protein_coding	KNOWN	CCDS42087	7211	846	281	127018	135839	1	None	MDG
6	NEU1	ENSG00000204386	ENST00000495807	retained_intron	KNOWN	None	7758	None	None	31825436	31830573	-1	NEU	None
6	NEU1	ENSG00000204386	ENST00000480384	retained_intron	KNOWN	None	7758	None	None	31826829	31830582	-1	NEU	None
6	NEU1	ENSG00000204386	ENST00000491768	nonsense_mediated_decay	KNOWN	None	7758	804	267	31826829	31830599	-1	NEU	None
6	NEU1	ENSG00000204386	ENST00000375631	protein_coding	KNOWN	CCDS4723	7758	1248	415	31826829	31830683	-1	NEU	None
12	None	ENSG00000257943	ENST00000550470	lincRNA	KNOWN	None	None	None	None	95801711	95830604	-1	None	None
12	None	ENSG00000257943	ENST00000551610	retained_intron	KNOWN	None	None	None	None	95809607	95830585	-1	None	None
14	OR7E159P	ENSG00000258849	ENST00000553761	unprocessed_pseudogene	KNOWN	None	31312	None	None	52238507	52238804	-1	None	None
11	LIPT2	ENSG00000175536	ENST00000527115	protein_coding	PUTATIVE	None	37216	236	77	74202757	74204360	-1	None	None
11	LIPT2	ENSG00000175536	ENST00000310109	protein_coding	KNOWN	CCDS44679	37216	696	231	74202888	74204778	-1	None	None
11	LIPT2	ENSG00000175536	ENST00000528085	protein_coding	NOVEL	None	37216	218	71	74203373	74204692	-1	None	None
HG745_PATCH	MRPL45	ENSG00000259980	ENST00000570192	protein_coding	KNOWN	None	16651	921	306	36452990	36479101	1	None	MGC11321
14	None	ENSG00000270852	ENST00000604527	unprocessed_pseudogene	KNOWN	None	None	None	None	62617374	62618976	-1	None	None
14	None	ENSG00000259157	ENST00000556114	unprocessed_pseudogene	KNOWN	None	None	None	None	52254179	52254461	1	None	None
5	C5orf38	ENSG00000186493	ENST00000457752	protein_coding	KNOWN	None	24226	213	70	2752245	2755195	1	None	CEI, IRX2NB
5	C5orf38	ENSG00000186493	ENST00000334000	protein_coding	KNOWN	CCDS34131	24226	417	138	2752262	2755508	1	None	CEI, IRX2NB
5	C5orf38	ENSG00000186493	ENST00000505106	nonsense_mediated_decay	KNOWN	None	24226	207	68	2752342	2755195	1	None	CEI, IRX2NB
5	C5orf38	ENSG00000186493	ENST00000503940	nonsense_mediated_decay	KNOWN	None	24226	207	68	2752342	2755195	1	None	CEI, IRX2NB
5	C5orf38	ENSG00000186493	ENST00000505778	protein_coding	PUTATIVE	None	24226	408	135	2752342	2755195	1	None	CEI, IRX2NB
5	C5orf38	ENSG00000186493	ENST00000515640	protein_coding	PUTATIVE	None	24226	408	135	2752360	2754487	1	None	CEI, IRX2NB
5	C5orf38	ENSG00000186493	ENST00000397835	protein_coding	PUTATIVE	None	24226	681	226	2752379	2755490	1	None	CEI, IRX2NB
14	None	ENSG00000258638	ENST00000554127	processed_pseudogene	KNOWN	None	None	None	None	62981590	62981841	-1	None	None
16	E2F4	ENSG00000205250	ENST00000379378	protein_coding	KNOWN	CCDS32464	3118	1242	413	67226072	67232821	1	None	E2F-4
16	E2F4	ENSG00000205250	ENST00000568485	retained_intron	KNOWN	None	3118	None	None	67226077	67227181	1	None	E2F-4
16	E2F4	ENSG00000205250	ENST00000567007	retained_intron	KNOWN	None	3118	None	None	67226088	67232820	1	None	E2F-4
16	E2F4	ENSG00000205250	ENST00000565849	nonsense_mediated_decay	KNOWN	None	3118	246	81	67226093	67228722	1	None	E2F-4
16	E2F4	ENSG00000205250	ENST00000568839	nonsense_mediated_decay	KNOWN	None	3118	438	145	67226110	67229911	1	None	E2F-4
16	E2F4	ENSG00000205250	ENST00000569573	nonsense_mediated_decay	KNOWN	None	3118	366	121	67226111	67229911	1	None	E2F-4
16	E2F4	ENSG00000205250	ENST00000563238	retained_intron	KNOWN	None	3118	None	None	67226116	67227387	1	None	E2F-4
16	E2F4	ENSG00000205250	ENST00000561904	retained_intron	KNOWN	None	3118	None	None	67226118	67228821	1	None	E2F-4
16	E2F4	ENSG00000205250	ENST00000564718	processed_transcript	KNOWN	None	3118	None	None	67226398	67228728	1	None	E2F-4
16	E2F4	ENSG00000205250	ENST00000566368	retained_intron	KNOWN	None	3118	None	None	67226430	67226963	1	None	E2F-4
16	E2F4	ENSG00000205250	ENST00000568693	retained_intron	KNOWN	None	3118	None	None	67227881	67228702	1	None	E2F-4
16	E2F4	ENSG00000205250	ENST00000565226	protein_coding	PUTATIVE	None	3118	433	143	67228855	67232132	1	None	E2F-4
16	E2F4	ENSG00000205250	ENST00000567228	retained_intron	KNOWN	None	3118	None	None	67229554	67232122	1	None	E2F-4
1	PLA2G2E	ENSG00000188784	ENST00000375116	protein_coding	KNOWN	CCDS200	13414	429	142	20246502	20250110	-1	None	None
8	None	ENSG00000253616	ENST00000520840	antisense	KNOWN	None	None	None	None	22928890	22932001	-1	None	None
8	None	ENSG00000253616	ENST00000523806	antisense	KNOWN	None	None	None	None	22929542	22932001	-1	None	None
15	SNORD115-37	ENSG00000200638	ENST00000363768	snoRNA	KNOWN	None	33056	None	None	25483133	25483214	1	None	HBII-52-37
1	NDUFS2	ENSG00000158864	ENST00000479948	processed_transcript	KNOWN	None	7708	None	None	161166894	161176383	1	None	CI-49
1	NDUFS2	ENSG00000158864	ENST00000496133	processed_transcript	KNOWN	None	7708	None	None	161167209	161179096	1	None	CI-49
1	NDUFS2	ENSG00000158864	ENST00000367993	protein_coding	KNOWN	CCDS1224	7708	1392	463	161169105	161184185	1	None	CI-49
1	NDUFS2	ENSG00000158864	ENST00000496553	processed_transcript	KNOWN	None	7708	None	None	161171836	161179306	1	None	CI-49
1	NDUFS2	ENSG00000158864	ENST00000467295	processed_transcript	KNOWN	None	7708	None	None	161172139	161180486	1	None	CI-49
1	NDUFS2	ENSG00000158864	ENST00000475570	processed_transcript	KNOWN	None	7708	None	None	161172162	161173623	1	None	CI-49
1	NDUFS2	ENSG00000158864	ENST00000478866	processed_transcript	KNOWN	None	7708	None	None	161172166	161180264	1	None	CI-49
1	NDUFS2	ENSG00000158864	ENST00000473321	processed_transcript	KNOWN	None	7708	None	None	161176199	161179517	1	None	CI-49
1	NDUFS2	ENSG00000158864	ENST00000483804	processed_transcript	KNOWN	None	7708	None	None	161179029	161184029	1	None	CI-49
1	NDUFS2	ENSG00000158864	ENST00000480762	processed_transcript	KNOWN	None	7708	None	None	161179273	161183202	1	None	CI-49
1	NDUFS2	ENSG00000158864	ENST00000465923	processed_transcript	KNOWN	None	7708	None	None	161179655	161184185	1	None	CI-49
1	NDUFS2	ENSG00000158864	ENST00000493849	processed_transcript	KNOWN	None	7708	None	None	161180465	161184086	1	None	CI-49
1	NDUFS2	ENSG00000158864	ENST00000468828	processed_transcript	KNOWN	None	7708	None	None	161182141	161184149	1	None	CI-49
1	NDUFS2	ENSG00000158864	ENST00000492153	processed_transcript	KNOWN	None	7708	None	None	161183040	161183769	1	None	CI-49
1	NDUFS2	ENSG00000158864	ENST00000392179	protein_coding	KNOWN	CCDS53404	7708	1374	457	161171937	161184182	1	None	CI-49
1	NDUFS2	ENSG00000158864	ENST00000476409	protein_coding	KNOWN	None	7708	696	231	161172162	161180839	1	None	CI-49
15	TPST2P1	ENSG00000260582	ENST00000564073	processed_pseudogene	KNOWN	None	44425	None	None	36918875	36919976	-1	None	None
5	None	ENSG00000250635	ENST00000514287	lincRNA	KNOWN	None	None	None	None	139028584	139029313	-1	None	None
11	CATSPER1	ENSG00000175294	ENST00000312106	protein_coding	KNOWN	CCDS8127	17116	2343	780	65784223	65793988	-1	None	CATSPER
11	CATSPER1	ENSG00000175294	ENST00000529244	retained_intron	KNOWN	None	17116	None	None	65784224	65788685	-1	None	CATSPER
14	None	ENSG00000259007	ENST00000553603	antisense	KNOWN	None	None	None	None	52433721	52436518	-1	None	None
X	TLR8	ENSG00000101916	ENST00000218032	protein_coding	KNOWN	CCDS14152	15632	3126	1041	12924739	12941288	1	None	CD288
X	TLR8	ENSG00000101916	ENST00000311912	protein_coding	PUTATIVE	None	15632	3180	1059	12924758	12940321	1	None	CD288
18	ZADH2	ENSG00000180011	ENST00000322342	protein_coding	KNOWN	CCDS12008	28697	1134	377	72907063	72921303	-1	None	MGC45594
18	ZADH2	ENSG00000180011	ENST00000537114	protein_coding	PUTATIVE	None	28697	765	254	72911412	72917468	-1	None	MGC45594
18	ZADH2	ENSG00000180011	ENST00000582437	protein_coding	PUTATIVE	None	28697	464	153	72913672	72920421	-1	None	MGC45594
18	ZADH2	ENSG00000180011	ENST00000581620	protein_coding	PUTATIVE	None	28697	303	100	72913833	72920372	-1	None	MGC45594
16	None	ENSG00000263320	ENST00000573861	antisense	KNOWN	None	None	None	None	71963914	71965102	1	None	None
10	PGBD3	ENSG00000243251	ENST00000374127	protein_coding	KNOWN	CCDS7230	19400	1782	593	50723151	50732273	-1	None	FLJ90201
10	PGBD3	ENSG00000243251	ENST00000603152	protein_coding	KNOWN	None	19400	3186	1061	50723247	50747086	-1	None	FLJ90201
10	PGBD3	ENSG00000243251	ENST00000508005	protein_coding	KNOWN	CCDS7230	19400	1782	593	50723379	50725160	-1	None	FLJ90201
5	None	ENSG00000249526	ENST00000515296	lincRNA	KNOWN	None	None	None	None	139064230	139124595	1	None	None
X	RPL7L1P11	ENSG00000176970	ENST00000446092	processed_pseudogene	KNOWN	None	39493	None	None	147546228	147546948	1	None	None
12	SLC5A8	ENSG00000256870	ENST00000536262	protein_coding	KNOWN	CCDS9080	19119	1833	610	101549271	101604185	-1	None	AIT
9	HIATL2	ENSG00000196312	ENST00000506067	processed_transcript	KNOWN	None	23672	None	None	99660348	99711867	-1	None	MGC12945
9	HIATL2	ENSG00000196312	ENST00000602917	protein_coding	PUTATIVE	None	23672	453	150	99708327	99775862	-1	None	MGC12945
9	HIATL2	ENSG00000196312	ENST00000375223	protein_coding	KNOWN	None	23672	405	134	99711193	99775862	-1	None	MGC12945
15	None	ENSG00000206995	ENST00000384268	misc_RNA	NOVEL	None	None	None	None	52454948	52455049	1	None	None
X	RNU6-972P	ENSG00000212510	ENST00000391208	snRNA	KNOWN	None	47935	None	None	135856158	135856264	1	None	None
X	None	ENSG00000271339	ENST00000605245	processed_pseudogene	KNOWN	None	None	None	None	135870445	135870946	1	None	None
8	None	ENSG00000229211	ENST00000522306	processed_pseudogene	KNOWN	None	None	None	None	31077410	31078500	-1	None	None
20	MTND1P9	ENSG00000228995	ENST00000453775	processed_pseudogene	KNOWN	None	42099	None	None	55932482	55933425	-1	None	None
16	RPL39P31	ENSG00000242176	ENST00000467090	processed_pseudogene	KNOWN	None	36488	None	None	72025050	72025204	-1	None	None
5	RNU6-236P	ENSG00000200756	ENST00000363886	snRNA	KNOWN	None	47199	None	None	139097570	139097675	-1	None	None
HSCHR6_MHC_MCF	CFB	ENSG00000243570	ENST00000424727	protein_coding	KNOWN	None	1037	2295	764	31989874	31996308	1	BFD, BF	H2-Bf
HSCHR6_MHC_MCF	CFB	ENSG00000243570	ENST00000436692	protein_coding	KNOWN	None	1037	2295	764	31990218	31996308	1	BFD, BF	H2-Bf
HSCHR6_MHC_MCF	CFB	ENSG00000243570	ENST00000489768	retained_intron	KNOWN	None	1037	None	None	31990321	31991092	1	BFD, BF	H2-Bf
HSCHR6_MHC_MCF	CFB	ENSG00000243570	ENST00000473139	processed_transcript	PUTATIVE	None	1037	None	None	31990350	31992067	1	BFD, BF	H2-Bf
HSCHR6_MHC_MCF	CFB	ENSG00000243570	ENST00000481722	retained_intron	KNOWN	None	1037	None	None	31990446	31994869	1	BFD, BF	H2-Bf
HSCHR6_MHC_MCF	CFB	ENSG00000243570	ENST00000472676	retained_intron	KNOWN	None	1037	None	None	31991505	31993775	1	BFD, BF	H2-Bf
HSCHR6_MHC_MCF	CFB	ENSG00000243570	ENST00000498577	processed_transcript	KNOWN	None	1037	None	None	31992021	31993822	1	BFD, BF	H2-Bf
HSCHR6_MHC_MCF	CFB	ENSG00000243570	ENST00000482919	processed_transcript	KNOWN	None	1037	None	None	31992582	31993822	1	BFD, BF	H2-Bf
HSCHR6_MHC_MCF	CFB	ENSG00000243570	ENST00000481293	retained_intron	KNOWN	None	1037	None	None	31993222	31993822	1	BFD, BF	H2-Bf
HSCHR6_MHC_MCF	CFB	ENSG00000243570	ENST00000484102	retained_intron	KNOWN	None	1037	None	None	31993955	31995468	1	BFD, BF	H2-Bf
HSCHR6_MHC_MCF	CFB	ENSG00000243570	ENST00000471848	retained_intron	KNOWN	None	1037	None	None	31995098	31996308	1	BFD, BF	H2-Bf
HSCHR6_MHC_MCF	CFB	ENSG00000243570	ENST00000468339	retained_intron	KNOWN	None	1037	None	None	31995639	31996308	1	BFD, BF	H2-Bf
14	None	ENSG00000258854	ENST00000555115	antisense	KNOWN	None	None	None	None	52449238	52453937	-1	None	None
9	RNA5SP288	ENSG00000251884	ENST00000516075	rRNA	KNOWN	None	43188	None	None	97904731	97904823	-1	RN5S288	None
5	None	ENSG00000249131	ENST00000515306	lincRNA	KNOWN	None	None	None	None	139120934	139125808	-1	None	None
3	SKIL	ENSG00000136603	ENST00000477216	processed_transcript	PUTATIVE	None	10897	None	None	170075466	170077861	1	None	SNO, SnoN, SnoA
3	SKIL	ENSG00000136603	ENST00000465590	processed_transcript	PUTATIVE	None	10897	None	None	170075473	170078001	1	None	SNO, SnoN, SnoA
3	SKIL	ENSG00000136603	ENST00000476188	protein_coding	KNOWN	None	10897	369	122	170075503	170078488	1	None	SNO, SnoN, SnoA
3	SKIL	ENSG00000136603	ENST00000259119	protein_coding	KNOWN	CCDS33890	10897	2055	684	170075514	170110536	1	None	SNO, SnoN, SnoA
3	SKIL	ENSG00000136603	ENST00000426052	protein_coding	PUTATIVE	CCDS46954	10897	1995	664	170075522	170110735	1	None	SNO, SnoN, SnoA
3	SKIL	ENSG00000136603	ENST00000490989	processed_transcript	PUTATIVE	None	10897	None	None	170076297	170077948	1	None	SNO, SnoN, SnoA
3	SKIL	ENSG00000136603	ENST00000413427	protein_coding	KNOWN	CCDS46953	10897	1917	638	170077411	170110281	1	None	SNO, SnoN, SnoA
3	SKIL	ENSG00000136603	ENST00000458537	protein_coding	KNOWN	CCDS33890	10897	2055	684	170077411	170114623	1	None	SNO, SnoN, SnoA
3	SKIL	ENSG00000136603	ENST00000470571	nonsense_mediated_decay	KNOWN	None	10897	335	110	170079000	170108975	1	None	SNO, SnoN, SnoA
3	SKIL	ENSG00000136603	ENST00000490894	retained_intron	KNOWN	None	10897	None	None	170099064	170102837	1	None	SNO, SnoN, SnoA
22	None	ENSG00000231253	ENST00000452505	lincRNA	KNOWN	None	None	None	None	33504515	33512280	1	None	None
3	LZTFL1	ENSG00000163818	ENST00000296135	protein_coding	KNOWN	CCDS2731	6741	900	299	45864808	45883658	-1	None	BBS17
3	LZTFL1	ENSG00000163818	ENST00000418700	nonsense_mediated_decay	KNOWN	None	6741	327	108	45867458	45957534	-1	None	BBS17
3	LZTFL1	ENSG00000163818	ENST00000448111	nonsense_mediated_decay	KNOWN	None	6741	327	108	45867549	45957216	-1	None	BBS17
3	LZTFL1	ENSG00000163818	ENST00000411866	nonsense_mediated_decay	KNOWN	None	6741	180	59	45867733	45883621	-1	None	BBS17
3	LZTFL1	ENSG00000163818	ENST00000469874	processed_transcript	KNOWN	None	6741	None	None	45867770	45883493	-1	None	BBS17
3	LZTFL1	ENSG00000163818	ENST00000440576	protein_coding	NOVEL	None	6741	706	234	45867794	45877276	-1	None	BBS17
3	LZTFL1	ENSG00000163818	ENST00000478551	retained_intron	KNOWN	None	6741	None	None	45868620	45870065	-1	None	BBS17
3	LZTFL1	ENSG00000163818	ENST00000490463	processed_transcript	KNOWN	None	6741	None	None	45872438	45883352	-1	None	BBS17
3	LZTFL1	ENSG00000163818	ENST00000495864	retained_intron	KNOWN	None	6741	None	None	45874072	45883637	-1	None	BBS17
3	LZTFL1	ENSG00000163818	ENST00000480156	retained_intron	KNOWN	None	6741	None	None	45874320	45883628	-1	None	BBS17
3	LZTFL1	ENSG00000163818	ENST00000445698	protein_coding	PUTATIVE	None	6741	272	89	45877082	45883608	-1	None	BBS17
3	LZTFL1	ENSG00000163818	ENST00000492333	processed_transcript	KNOWN	None	6741	None	None	45877162	45957151	-1	None	BBS17
3	LZTFL1	ENSG00000163818	ENST00000472635	processed_transcript	KNOWN	None	6741	None	None	45879433	45957135	-1	None	BBS17
3	LZTFL1	ENSG00000163818	ENST00000483279	processed_transcript	KNOWN	None	6741	None	None	45895903	45957204	-1	None	BBS17
3	LZTFL1	ENSG00000163818	ENST00000536047	protein_coding	KNOWN	None	6741	849	282	45867458	45957534	-1	None	BBS17
3	LZTFL1	ENSG00000163818	ENST00000539217	protein_coding	KNOWN	None	6741	771	256	45867549	45957112	-1	None	BBS17
8	None	ENSG00000253930	ENST00000518308	antisense	KNOWN	None	None	None	None	23046792	23048188	1	None	None
14	None	ENSG00000258877	ENST00000556888	processed_pseudogene	KNOWN	None	None	None	None	63070831	63072435	-1	None	None
7	PHTF2	ENSG00000006576	ENST00000422959	protein_coding	KNOWN	CCDS47621	13411	2256	751	77428122	77585262	1	None	DKFZp434D166
7	PHTF2	ENSG00000006576	ENST00000307305	protein_coding	KNOWN	CCDS47622	13411	2244	747	77428122	77586542	1	None	DKFZp434D166
7	PHTF2	ENSG00000006576	ENST00000424760	protein_coding	PUTATIVE	None	13411	1641	546	77428130	77569776	1	None	DKFZp434D166
7	PHTF2	ENSG00000006576	ENST00000415251	protein_coding	PUTATIVE	CCDS47624	13411	1059	352	77428205	77552709	1	None	DKFZp434D166
7	PHTF2	ENSG00000006576	ENST00000275575	protein_coding	KNOWN	None	13411	2088	695	77428218	77586542	1	None	DKFZp434D166
7	PHTF2	ENSG00000006576	ENST00000450574	protein_coding	PUTATIVE	CCDS47623	13411	1071	356	77469447	77553468	1	None	DKFZp434D166
7	PHTF2	ENSG00000006576	ENST00000248550	protein_coding	KNOWN	None	13411	2358	785	77469497	77586539	1	None	DKFZp434D166
7	PHTF2	ENSG00000006576	ENST00000454592	processed_transcript	KNOWN	None	13411	None	None	77535578	77567330	1	None	DKFZp434D166
7	PHTF2	ENSG00000006576	ENST00000479515	retained_intron	KNOWN	None	13411	None	None	77538252	77569776	1	None	DKFZp434D166
7	PHTF2	ENSG00000006576	ENST00000468351	retained_intron	KNOWN	None	13411	None	None	77549742	77552203	1	None	DKFZp434D166
7	PHTF2	ENSG00000006576	ENST00000470215	processed_transcript	KNOWN	None	13411	None	None	77569516	77584211	1	None	DKFZp434D166
7	PHTF2	ENSG00000006576	ENST00000416283	protein_coding	KNOWN	CCDS47621	13411	2256	751	77469447	77586818	1	None	DKFZp434D166
16	None	ENSG00000263311	ENST00000570531	unprocessed_pseudogene	KNOWN	None	None	None	None	72038138	72038702	-1	None	None
X	RPL7P56	ENSG00000231164	ENST00000429441	processed_pseudogene	KNOWN	None	35588	None	None	135873223	135873939	1	None	None
15	None	ENSG00000261191	ENST00000565366	antisense	KNOWN	None	None	None	None	36933387	36961298	-1	None	None
HG962_PATCH	FOXD4L3	ENSG00000266157	ENST00000577592	protein_coding	KNOWN	None	18523	1254	417	70917783	70920000	1	None	OTTHUMG00000019959, FOXD6
4	HTN3	ENSG00000205649	ENST00000526767	protein_coding	KNOWN	CCDS33999	5284	156	51	70894130	70902255	1	None	HIS2
4	HTN3	ENSG00000205649	ENST00000530128	protein_coding	KNOWN	CCDS33999	5284	156	51	70894172	70900129	1	None	HIS2
4	HTN3	ENSG00000205649	ENST00000528003	retained_intron	KNOWN	None	5284	None	None	70894176	70897125	1	None	HIS2
4	HTN3	ENSG00000205649	ENST00000529625	retained_intron	KNOWN	None	5284	None	None	70894176	70899263	1	None	HIS2
4	HTN3	ENSG00000205649	ENST00000533547	retained_intron	KNOWN	None	5284	None	None	70894176	70902244	1	None	HIS2
4	HTN3	ENSG00000205649	ENST00000381057	protein_coding	NOVEL	None	5284	126	41	70894176	70902246	1	None	HIS2
7	FOXP2	ENSG00000128573	ENST00000412402	nonsense_mediated_decay	KNOWN	None	13875	264	87	113726382	114330960	1	TNRC10, SPCH1	CAGH44
7	FOXP2	ENSG00000128573	ENST00000440349	nonsense_mediated_decay	KNOWN	None	13875	249	82	113726494	114271639	1	TNRC10, SPCH1	CAGH44
7	FOXP2	ENSG00000128573	ENST00000441290	nonsense_mediated_decay	KNOWN	None	13875	264	87	113726615	114310039	1	TNRC10, SPCH1	CAGH44
7	FOXP2	ENSG00000128573	ENST00000495516	processed_transcript	KNOWN	None	13875	None	None	113728221	114066565	1	TNRC10, SPCH1	CAGH44
7	FOXP2	ENSG00000128573	ENST00000393494	protein_coding	KNOWN	CCDS5760	13875	2148	715	114054329	114330218	1	TNRC10, SPCH1	CAGH44
7	FOXP2	ENSG00000128573	ENST00000462331	protein_coding	PUTATIVE	None	13875	204	67	114055052	114139783	1	TNRC10, SPCH1	CAGH44
7	FOXP2	ENSG00000128573	ENST00000408937	protein_coding	KNOWN	CCDS43635	13875	2223	740	114055052	114333827	1	TNRC10, SPCH1	CAGH44
7	FOXP2	ENSG00000128573	ENST00000350908	protein_coding	KNOWN	CCDS5760	13875	2148	715	114055110	114330155	1	TNRC10, SPCH1	CAGH44
7	FOXP2	ENSG00000128573	ENST00000393498	protein_coding	NOVEL	None	13875	2085	694	114055113	114330200	1	TNRC10, SPCH1	CAGH44
7	FOXP2	ENSG00000128573	ENST00000393495	protein_coding	NOVEL	None	13875	513	170	114055167	114282640	1	TNRC10, SPCH1	CAGH44
7	FOXP2	ENSG00000128573	ENST00000459666	processed_transcript	KNOWN	None	13875	None	None	114055275	114269037	1	TNRC10, SPCH1	CAGH44
7	FOXP2	ENSG00000128573	ENST00000378237	protein_coding	PUTATIVE	None	13875	1098	365	114055374	114285885	1	TNRC10, SPCH1	CAGH44
7	FOXP2	ENSG00000128573	ENST00000393489	protein_coding	KNOWN	None	13875	1872	623	114055378	114330012	1	TNRC10, SPCH1	CAGH44
7	FOXP2	ENSG00000128573	ENST00000360232	protein_coding	KNOWN	CCDS5761	13875	1299	432	114066555	114294198	1	TNRC10, SPCH1	CAGH44
7	FOXP2	ENSG00000128573	ENST00000452963	protein_coding	NOVEL	None	13875	615	204	114066557	114270060	1	TNRC10, SPCH1	CAGH44
7	FOXP2	ENSG00000128573	ENST00000390668	protein_coding	PUTATIVE	None	13875	1371	456	114066570	114294198	1	TNRC10, SPCH1	CAGH44
7	FOXP2	ENSG00000128573	ENST00000403559	protein_coding	KNOWN	CCDS55154	13875	2199	732	114055052	114333823	1	TNRC10, SPCH1	CAGH44
7	FOXP2	ENSG00000128573	ENST00000393491	protein_coding	KNOWN	None	13875	1593	530	114268613	114329981	1	TNRC10, SPCH1	CAGH44
7	FOXP2	ENSG00000128573	ENST00000393500	protein_coding	KNOWN	None	13875	1149	382	113726615	114310038	1	TNRC10, SPCH1	CAGH44
3	NUP210	ENSG00000132182	ENST00000254508	protein_coding	KNOWN	CCDS33704	30052	5664	1887	13357737	13461809	-1	None	GP210, POM210, FLJ22389, KIAA0906
3	NUP210	ENSG00000132182	ENST00000485755	processed_transcript	PUTATIVE	None	30052	None	None	13378309	13382641	-1	None	GP210, POM210, FLJ22389, KIAA0906
3	NUP210	ENSG00000132182	ENST00000479519	retained_intron	KNOWN	None	30052	None	None	13393161	13396194	-1	None	GP210, POM210, FLJ22389, KIAA0906
3	NUP210	ENSG00000132182	ENST00000420141	retained_intron	KNOWN	None	30052	None	None	13393163	13461809	-1	None	GP210, POM210, FLJ22389, KIAA0906
22	None	ENSG00000233632	ENST00000421145	processed_pseudogene	KNOWN	None	None	None	None	33533126	33533324	1	None	None
3	None	ENSG00000269984	ENST00000602342	antisense	KNOWN	None	None	None	None	169494980	169498122	-1	None	None
22	None	ENSG00000232073	ENST00000434741	antisense	KNOWN	None	None	None	None	33560049	33562425	1	None	None
X	None	ENSG00000237741	ENST00000456981	antisense	KNOWN	None	None	None	None	147579633	147582135	-1	None	None
8	None	ENSG00000243265	ENST00000498163	processed_pseudogene	KNOWN	None	None	None	None	23064431	23064882	1	None	None
3	GABRR3	ENSG00000183185	ENST00000472788	polymorphic_pseudogene	KNOWN	None	17969	1404	467	97705517	97753833	-1	None	None
3	GABRR3	ENSG00000183185	ENST00000470589	retained_intron	KNOWN	None	17969	None	None	97716287	97754148	-1	None	None
5	THOC3	ENSG00000051596	ENST00000432305	protein_coding	PUTATIVE	None	19072	227	74	175344876	175388327	-1	None	TEX1, MGC5469
5	THOC3	ENSG00000051596	ENST00000515016	protein_coding	PUTATIVE	None	19072	174	57	175353562	175388120	-1	None	TEX1, MGC5469
5	THOC3	ENSG00000051596	ENST00000265097	protein_coding	KNOWN	CCDS4397	19072	1056	351	175386530	175395302	-1	None	TEX1, MGC5469
5	THOC3	ENSG00000051596	ENST00000505969	protein_coding	PUTATIVE	None	19072	169	55	175386594	175388416	-1	None	TEX1, MGC5469
5	THOC3	ENSG00000051596	ENST00000514861	protein_coding	PUTATIVE	None	19072	501	166	175386886	175461683	-1	None	TEX1, MGC5469
5	THOC3	ENSG00000051596	ENST00000513482	protein_coding	PUTATIVE	None	19072	984	327	175387222	175395283	-1	None	TEX1, MGC5469
5	THOC3	ENSG00000051596	ENST00000510300	processed_transcript	KNOWN	None	19072	None	None	175388054	175394547	-1	None	TEX1, MGC5469
5	THOC3	ENSG00000051596	ENST00000511062	nonsense_mediated_decay	KNOWN	None	19072	168	55	175388084	175461615	-1	None	TEX1, MGC5469
5	THOC3	ENSG00000051596	ENST00000513118	retained_intron	KNOWN	None	19072	None	None	175388145	175392271	-1	None	TEX1, MGC5469
5	THOC3	ENSG00000051596	ENST00000513006	nonsense_mediated_decay	KNOWN	None	19072	318	105	175388368	175395271	-1	None	TEX1, MGC5469
5	THOC3	ENSG00000051596	ENST00000514250	nonsense_mediated_decay	KNOWN	None	19072	42	13	175388423	175461609	-1	None	TEX1, MGC5469
1	PLA2G2A	ENSG00000188257	ENST00000469162	processed_transcript	KNOWN	None	9031	None	None	20301928	20306100	-1	PLA2B, PLA2L	None
1	PLA2G2A	ENSG00000188257	ENST00000496748	processed_transcript	KNOWN	None	9031	None	None	20301931	20306107	-1	PLA2B, PLA2L	None
1	PLA2G2A	ENSG00000188257	ENST00000375111	protein_coding	KNOWN	CCDS201	9031	435	144	20301931	20306909	-1	PLA2B, PLA2L	None
1	PLA2G2A	ENSG00000188257	ENST00000491964	processed_transcript	KNOWN	None	9031	None	None	20301958	20306900	-1	PLA2B, PLA2L	None
1	PLA2G2A	ENSG00000188257	ENST00000482011	processed_transcript	KNOWN	None	9031	None	None	20302166	20306909	-1	PLA2B, PLA2L	None
1	PLA2G2A	ENSG00000188257	ENST00000461140	processed_transcript	KNOWN	None	9031	None	None	20304739	20305560	-1	PLA2B, PLA2L	None
1	PLA2G2A	ENSG00000188257	ENST00000400520	protein_coding	KNOWN	CCDS201	9031	435	144	20301925	20306932	-1	PLA2B, PLA2L	None
16	TRAF7	ENSG00000131653	ENST00000565383	retained_intron	KNOWN	None	20456	None	None	2205699	2218516	1	RFWD1	RNF119, DKFZp586I021, MGC7807
16	TRAF7	ENSG00000131653	ENST00000326181	protein_coding	KNOWN	CCDS10461	20456	2013	670	2205766	2228130	1	RFWD1	RNF119, DKFZp586I021, MGC7807
16	TRAF7	ENSG00000131653	ENST00000569686	retained_intron	KNOWN	None	20456	None	None	2205779	2221383	1	RFWD1	RNF119, DKFZp586I021, MGC7807
16	TRAF7	ENSG00000131653	ENST00000567653	retained_intron	KNOWN	None	20456	None	None	2205805	2218511	1	RFWD1	RNF119, DKFZp586I021, MGC7807
16	TRAF7	ENSG00000131653	ENST00000564067	nonsense_mediated_decay	KNOWN	None	20456	165	54	2205830	2222590	1	RFWD1	RNF119, DKFZp586I021, MGC7807
16	TRAF7	ENSG00000131653	ENST00000567645	protein_coding	KNOWN	None	20456	441	146	2213543	2221357	1	RFWD1	RNF119, DKFZp586I021, MGC7807
16	TRAF7	ENSG00000131653	ENST00000570169	retained_intron	KNOWN	None	20456	None	None	2223514	2225220	1	RFWD1	RNF119, DKFZp586I021, MGC7807
HG1091_PATCH	None	ENSG00000262620	ENST00000572178	snoRNA	NOVEL	None	None	None	None	60842123	60842338	-1	None	None
22	PABPC1P9	ENSG00000229658	ENST00000426076	unprocessed_pseudogene	KNOWN	None	37991	None	None	16904668	16906756	1	None	None
HG183_PATCH	CEP95	ENSG00000263046	ENST00000577141	protein_coding	KNOWN	None	25141	2466	821	62584096	62615306	1	CCDC45	DKFZp667E1824
HG183_PATCH	CEP95	ENSG00000263046	ENST00000582945	protein_coding	PUTATIVE	None	25141	471	156	62584371	62591872	1	CCDC45	DKFZp667E1824
HG183_PATCH	CEP95	ENSG00000263046	ENST00000574247	nonsense_mediated_decay	KNOWN	None	25141	474	157	62584395	62615302	1	CCDC45	DKFZp667E1824
HG183_PATCH	CEP95	ENSG00000263046	ENST00000581883	protein_coding	PUTATIVE	None	25141	214	70	62587603	62593443	1	CCDC45	DKFZp667E1824
HG183_PATCH	CEP95	ENSG00000263046	ENST00000582061	retained_intron	KNOWN	None	25141	None	None	62604400	62608461	1	CCDC45	DKFZp667E1824
HG183_PATCH	CEP95	ENSG00000263046	ENST00000583769	retained_intron	KNOWN	None	25141	None	None	62606709	62609571	1	CCDC45	DKFZp667E1824
HG183_PATCH	CEP95	ENSG00000263046	ENST00000583304	retained_intron	KNOWN	None	25141	None	None	62611376	62615308	1	CCDC45	DKFZp667E1824
HG183_PATCH	CEP95	ENSG00000263046	ENST00000572101	retained_intron	KNOWN	None	25141	None	None	62613492	62615309	1	CCDC45	DKFZp667E1824
22	None	ENSG00000244472	ENST00000421232	processed_transcript	KNOWN	None	None	None	None	33562373	33617737	-1	None	None
14	None	ENSG00000258995	ENST00000556806	processed_pseudogene	KNOWN	None	None	None	None	63589725	63589919	1	None	None
16	ATP5A1P3	ENSG00000263232	ENST00000573189	processed_pseudogene	KNOWN	None	829	None	None	72038936	72040442	-1	ATP5AP3	None
2	CHCHD5	ENSG00000125611	ENST00000489052	processed_transcript	KNOWN	None	17840	None	None	113341817	113343942	1	C2orf9	MGC11104, MIC14
2	CHCHD5	ENSG00000125611	ENST00000324913	protein_coding	KNOWN	CCDS2098	17840	333	110	113342018	113346617	1	C2orf9	MGC11104, MIC14
2	CHCHD5	ENSG00000125611	ENST00000454841	nonsense_mediated_decay	KNOWN	None	17840	147	48	113342046	113346617	1	C2orf9	MGC11104, MIC14
2	CHCHD5	ENSG00000125611	ENST00000409719	protein_coding	NOVEL	None	17840	477	158	113342172	113346852	1	C2orf9	MGC11104, MIC14
2	CHCHD5	ENSG00000125611	ENST00000469030	processed_transcript	KNOWN	None	17840	None	None	113342449	113346617	1	C2orf9	MGC11104, MIC14
HSCHR6_MHC_COX	HLA-DRA	ENSG00000227993	ENST00000383127	protein_coding	KNOWN	None	4947	765	254	32355870	32361037	1	HLA-DRA1	None
HSCHR6_MHC_COX	HLA-DRA	ENSG00000227993	ENST00000459705	processed_transcript	PUTATIVE	None	4947	None	None	32355900	32359222	1	HLA-DRA1	None
HSCHR6_MHC_COX	HLA-DRA	ENSG00000227993	ENST00000434866	protein_coding	KNOWN	None	4947	690	229	32355952	32361037	1	HLA-DRA1	None
HG79_PATCH	None	ENSG00000272453	ENST00000606147	3prime_overlapping_ncrna	KNOWN	None	None	None	None	136125799	136131098	-1	None	None
20	None	ENSG00000218018	ENST00000417346	antisense	KNOWN	None	None	None	None	55959216	55968118	-1	None	None
22	None	ENSG00000230741	ENST00000453924	antisense	KNOWN	None	None	None	None	33716851	33718799	1	None	None
8	None	ENSG00000253377	ENST00000524022	lincRNA	KNOWN	None	None	None	None	31133112	31241795	1	None	None
16	None	ENSG00000260252	ENST00000561827	antisense	KNOWN	None	None	None	None	72118756	72121342	1	None	None
2	VWA3B	ENSG00000168658	ENST00000432242	nonsense_mediated_decay	KNOWN	None	28385	306	101	98703579	98929762	1	None	DKFZp686F2227, MGC26733
2	VWA3B	ENSG00000168658	ENST00000433678	nonsense_mediated_decay	KNOWN	None	28385	1875	624	98703640	98845424	1	None	DKFZp686F2227, MGC26733
2	VWA3B	ENSG00000168658	ENST00000448079	processed_transcript	KNOWN	None	28385	None	None	98703648	98750360	1	None	DKFZp686F2227, MGC26733
2	VWA3B	ENSG00000168658	ENST00000448638	nonsense_mediated_decay	KNOWN	None	28385	912	303	98703653	98853271	1	None	DKFZp686F2227, MGC26733
2	VWA3B	ENSG00000168658	ENST00000409460	retained_intron	KNOWN	None	28385	None	None	98703653	98908566	1	None	DKFZp686F2227, MGC26733
2	VWA3B	ENSG00000168658	ENST00000477737	protein_coding	KNOWN	CCDS42718	28385	3885	1294	98703655	98929177	1	None	DKFZp686F2227, MGC26733
2	VWA3B	ENSG00000168658	ENST00000484571	processed_transcript	KNOWN	None	28385	None	None	98703699	98736124	1	None	DKFZp686F2227, MGC26733
2	VWA3B	ENSG00000168658	ENST00000483669	processed_transcript	KNOWN	None	28385	None	None	98703699	98737875	1	None	DKFZp686F2227, MGC26733
2	VWA3B	ENSG00000168658	ENST00000422503	nonsense_mediated_decay	KNOWN	None	28385	375	124	98703699	98833427	1	None	DKFZp686F2227, MGC26733
2	VWA3B	ENSG00000168658	ENST00000416277	nonsense_mediated_decay	KNOWN	None	28385	1272	423	98703699	98853268	1	None	DKFZp686F2227, MGC26733
2	VWA3B	ENSG00000168658	ENST00000463635	processed_transcript	KNOWN	None	28385	None	None	98736072	98738563	1	None	DKFZp686F2227, MGC26733
2	VWA3B	ENSG00000168658	ENST00000465930	retained_intron	KNOWN	None	28385	None	None	98744616	98750445	1	None	DKFZp686F2227, MGC26733
2	VWA3B	ENSG00000168658	ENST00000489968	processed_transcript	KNOWN	None	28385	None	None	98808733	98834423	1	None	DKFZp686F2227, MGC26733
2	VWA3B	ENSG00000168658	ENST00000466852	retained_intron	KNOWN	None	28385	None	None	98808749	98828634	1	None	DKFZp686F2227, MGC26733
2	VWA3B	ENSG00000168658	ENST00000495571	nonsense_mediated_decay	KNOWN	None	28385	316	104	98809454	98929410	1	None	DKFZp686F2227, MGC26733
2	VWA3B	ENSG00000168658	ENST00000489630	nonsense_mediated_decay	KNOWN	None	28385	313	103	98828425	98929402	1	None	DKFZp686F2227, MGC26733
2	VWA3B	ENSG00000168658	ENST00000473149	protein_coding	PUTATIVE	None	28385	2170	722	98828425	98929403	1	None	DKFZp686F2227, MGC26733
2	VWA3B	ENSG00000168658	ENST00000485216	processed_transcript	KNOWN	None	28385	None	None	98846599	98853267	1	None	DKFZp686F2227, MGC26733
2	VWA3B	ENSG00000168658	ENST00000465555	protein_coding	NOVEL	None	28385	246	81	98853096	98866886	1	None	DKFZp686F2227, MGC26733
2	VWA3B	ENSG00000168658	ENST00000490947	processed_transcript	KNOWN	None	28385	None	None	98861896	98929403	1	None	DKFZp686F2227, MGC26733
2	VWA3B	ENSG00000168658	ENST00000435344	protein_coding	KNOWN	None	28385	1875	624	98703595	98833256	1	None	DKFZp686F2227, MGC26733
2	VWA3B	ENSG00000168658	ENST00000451075	protein_coding	KNOWN	None	28385	1428	475	98703699	98833427	1	None	DKFZp686F2227, MGC26733
HSCHR17_1_CTG4	None	ENSG00000262282	ENST00000571112	unprocessed_pseudogene	KNOWN	None	None	None	None	39490884	39491985	1	None	None
X	None	ENSG00000266328	ENST00000583537	miRNA	KNOWN	None	None	None	None	55477928	55478015	1	None	None
22	MIR4764	ENSG00000266012	ENST00000580680	miRNA	KNOWN	None	41714	None	None	33832568	33832655	-1	None	hsa-mir-4764
19	None	ENSG00000129951	ENST00000359894	protein_coding	KNOWN	CCDS12043	None	2241	746	812518	821952	-1	None	None
19	None	ENSG00000129951	ENST00000520876	protein_coding	KNOWN	CCDS58636	None	2157	718	812518	821967	-1	None	None
19	None	ENSG00000129951	ENST00000517665	protein_coding	NOVEL	None	None	334	110	813758	814749	-1	None	None
19	None	ENSG00000129951	ENST00000519502	protein_coding	KNOWN	None	None	403	133	815186	821967	-1	None	None
16	None	ENSG00000261673	ENST00000563347	lincRNA	KNOWN	None	None	None	None	72258464	72259043	-1	None	None
11	NLRP10	ENSG00000182261	ENST00000328600	protein_coding	KNOWN	CCDS7784	21464	1968	655	7980971	7985204	-1	NALP10	NOD8, PAN5, Pynod, CLR11.1
11	NLRP10	ENSG00000182261	ENST00000526590	protein_coding	KNOWN	None	21464	197	64	7984846	7986973	-1	NALP10	NOD8, PAN5, Pynod, CLR11.1
X	None	ENSG00000200635	ENST00000363765	misc_RNA	NOVEL	None	None	None	None	55609166	55609267	1	None	None
15	CSNK1A1P1	ENSG00000223518	ENST00000430593	processed_transcript	KNOWN	None	30446	None	None	37090797	37110660	-1	CSNK1A1P	None
15	CSNK1A1P1	ENSG00000223518	ENST00000563423	transcribed_processed_pseudogene	KNOWN	None	30446	None	None	37109334	37110314	-1	CSNK1A1P	None
15	CSNK1A1P1	ENSG00000223518	ENST00000569828	processed_transcript	KNOWN	None	30446	None	None	37109377	37110314	-1	CSNK1A1P	None
22	None	ENSG00000253007	ENST00000517198	snoRNA	NOVEL	None	None	None	None	34100772	34100906	-1	None	None
18	SS18	ENSG00000141380	ENST00000415083	protein_coding	KNOWN	CCDS32807	11340	1257	418	23596578	23670589	-1	SSXT	SYT
18	SS18	ENSG00000141380	ENST00000542420	protein_coding	PUTATIVE	None	11340	1188	395	23597307	23671181	-1	SSXT	SYT
18	SS18	ENSG00000141380	ENST00000579640	nonsense_mediated_decay	KNOWN	None	11340	177	58	23597849	23670574	-1	SSXT	SYT
18	SS18	ENSG00000141380	ENST00000269138	nonsense_mediated_decay	KNOWN	None	11340	186	61	23597971	23670562	-1	SSXT	SYT
18	SS18	ENSG00000141380	ENST00000269137	protein_coding	KNOWN	CCDS54183	11340	1164	387	23597978	23670865	-1	SSXT	SYT
18	SS18	ENSG00000141380	ENST00000585121	nonsense_mediated_decay	KNOWN	None	11340	255	84	23598084	23670561	-1	SSXT	SYT
18	SS18	ENSG00000141380	ENST00000580958	retained_intron	KNOWN	None	11340	None	None	23598314	23615578	-1	SSXT	SYT
18	SS18	ENSG00000141380	ENST00000582092	processed_transcript	KNOWN	None	11340	None	None	23603577	23615029	-1	SSXT	SYT
18	SS18	ENSG00000141380	ENST00000539244	nonsense_mediated_decay	KNOWN	None	11340	126	41	23615055	23670577	-1	SSXT	SYT
18	SS18	ENSG00000141380	ENST00000585241	processed_transcript	KNOWN	None	11340	None	None	23619374	23670589	-1	SSXT	SYT
18	SS18	ENSG00000141380	ENST00000578954	nonsense_mediated_decay	KNOWN	None	11340	183	60	23632646	23670616	-1	SSXT	SYT
18	SS18	ENSG00000141380	ENST00000579061	protein_coding	PUTATIVE	None	11340	457	151	23632669	23671156	-1	SSXT	SYT
18	SS18	ENSG00000141380	ENST00000577636	nonsense_mediated_decay	KNOWN	None	11340	168	55	23632707	23671156	-1	SSXT	SYT
18	SS18	ENSG00000141380	ENST00000584083	protein_coding	PUTATIVE	None	11340	391	129	23632735	23670060	-1	SSXT	SYT
18	SS18	ENSG00000141380	ENST00000578700	nonsense_mediated_decay	KNOWN	None	11340	138	45	23632787	23671180	-1	SSXT	SYT
18	SS18	ENSG00000141380	ENST00000582792	nonsense_mediated_decay	KNOWN	None	11340	285	94	23637576	23670561	-1	SSXT	SYT
18	SS18	ENSG00000141380	ENST00000581021	protein_coding	PUTATIVE	None	11340	210	69	23637659	23670099	-1	SSXT	SYT
18	SS18	ENSG00000141380	ENST00000577572	nonsense_mediated_decay	KNOWN	None	11340	207	68	23637663	23670589	-1	SSXT	SYT
18	SS18	ENSG00000141380	ENST00000582448	nonsense_mediated_decay	KNOWN	None	11340	108	35	23637683	23671156	-1	SSXT	SYT
18	SS18	ENSG00000141380	ENST00000581570	nonsense_mediated_decay	KNOWN	None	11340	183	60	23637696	23670572	-1	SSXT	SYT
18	SS18	ENSG00000141380	ENST00000577751	processed_transcript	KNOWN	None	11340	None	None	23644796	23670099	-1	SSXT	SYT
18	SS18	ENSG00000141380	ENST00000580003	retained_intron	KNOWN	None	11340	None	None	23648224	23658350	-1	SSXT	SYT
18	SS18	ENSG00000141380	ENST00000580751	nonsense_mediated_decay	KNOWN	None	11340	183	60	23658040	23670589	-1	SSXT	SYT
18	SS18	ENSG00000141380	ENST00000580642	nonsense_mediated_decay	KNOWN	None	11340	177	58	23658067	23670589	-1	SSXT	SYT
18	SS18	ENSG00000141380	ENST00000578595	processed_transcript	KNOWN	None	11340	None	None	23660335	23670064	-1	SSXT	SYT
18	SS18	ENSG00000141380	ENST00000583595	processed_transcript	KNOWN	None	11340	None	None	23662347	23665991	-1	SSXT	SYT
18	SS18	ENSG00000141380	ENST00000542743	protein_coding	KNOWN	None	11340	1008	335	23597849	23670561	-1	SSXT	SYT
18	SS18	ENSG00000141380	ENST00000545952	protein_coding	KNOWN	None	11340	1008	335	23598084	23670561	-1	SSXT	SYT
18	SS18	ENSG00000141380	ENST00000539849	protein_coding	KNOWN	None	11340	1011	336	23597971	23670562	-1	SSXT	SYT
3	None	ENSG00000270135	ENST00000602913	antisense	KNOWN	None	None	None	None	169511283	169511754	1	None	None
X	None	ENSG00000235136	ENST00000448334	processed_pseudogene	KNOWN	None	None	None	None	55626096	55626539	-1	None	None
22	LARGE-IT1	ENSG00000232081	ENST00000445391	sense_intronic	KNOWN	None	41357	None	None	34119818	34120898	-1	None	None
5	None	ENSG00000250672	ENST00000510162	processed_pseudogene	KNOWN	None	None	None	None	33090232	33090455	-1	None	None
22	SLC9B1P4	ENSG00000227367	ENST00000421957	unprocessed_pseudogene	KNOWN	None	43583	None	None	16909690	16957613	-1	None	None
X	None	ENSG00000229594	ENST00000432754	unprocessed_pseudogene	KNOWN	None	None	None	None	55659464	55662089	-1	None	None
5	None	ENSG00000240376	ENST00000467270	processed_pseudogene	KNOWN	None	None	None	None	33162285	33162913	1	None	None
13	NBEA	ENSG00000172915	ENST00000379939	protein_coding	KNOWN	None	7648	8832	2943	35516797	36246873	1	None	KIAA1544, BCL8B, FLJ10197
13	NBEA	ENSG00000172915	ENST00000497540	processed_transcript	KNOWN	None	7648	None	None	35644089	35645102	1	None	KIAA1544, BCL8B, FLJ10197
13	NBEA	ENSG00000172915	ENST00000379922	protein_coding	KNOWN	None	7648	1575	524	36167143	36246872	1	None	KIAA1544, BCL8B, FLJ10197
13	NBEA	ENSG00000172915	ENST00000461581	processed_transcript	KNOWN	None	7648	None	None	36245187	36247159	1	None	KIAA1544, BCL8B, FLJ10197
13	NBEA	ENSG00000172915	ENST00000540320	protein_coding	KNOWN	None	7648	8841	2946	35516424	36246872	1	None	KIAA1544, BCL8B, FLJ10197
13	NBEA	ENSG00000172915	ENST00000400445	protein_coding	KNOWN	CCDS45026	7648	8841	2946	35516424	36246872	1	None	KIAA1544, BCL8B, FLJ10197
13	NBEA	ENSG00000172915	ENST00000310336	protein_coding	KNOWN	None	7648	8841	2946	35516456	36246872	1	None	KIAA1544, BCL8B, FLJ10197
13	NBEA	ENSG00000172915	ENST00000537702	protein_coding	KNOWN	CCDS55894	7648	2220	739	36050886	36245671	1	None	KIAA1544, BCL8B, FLJ10197
8	LINC00529	ENSG00000236827	ENST00000443854	lincRNA	KNOWN	None	15544	None	None	11105135	11125374	-1	C8orf8	None
5	None	ENSG00000251443	ENST00000503577	lincRNA	KNOWN	None	None	None	None	33229841	33255659	1	None	None
17	None	ENSG00000266839	ENST00000580993	sense_intronic	KNOWN	None	None	None	None	20226371	20226650	1	None	None
17	None	ENSG00000266839	ENST00000517027	snRNA	NOVEL	None	None	None	None	20226314	20226423	1	None	None
15	SNORD115-38	ENSG00000201907	ENST00000365037	snoRNA	KNOWN	None	33057	None	None	25484985	25485066	1	None	HBII-52-38
22	RASD2	ENSG00000100302	ENST00000216127	protein_coding	KNOWN	CCDS13916	18229	801	266	35936915	35950048	1	None	TEM2, Rhes, MGC:4834
12	None	ENSG00000201945	ENST00000365075	snoRNA	NOVEL	None	None	None	None	121544846	121544977	1	None	None
5	None	ENSG00000249572	ENST00000507251	antisense	KNOWN	None	None	None	None	33424131	33440725	-1	None	None
17	RN7SL17P	ENSG00000266339	ENST00000583626	misc_RNA	KNOWN	None	46033	None	None	20244056	20244356	1	None	None
12	None	ENSG00000223538	ENST00000412750	processed_pseudogene	KNOWN	None	None	None	None	121545023	121545293	1	None	None
3	RARRES1	ENSG00000118849	ENST00000237696	protein_coding	KNOWN	CCDS3184	9867	885	294	158414681	158450485	-1	None	TIG1, LXNL
3	RARRES1	ENSG00000118849	ENST00000462663	processed_transcript	PUTATIVE	None	9867	None	None	158415910	158428661	-1	None	TIG1, LXNL
3	RARRES1	ENSG00000118849	ENST00000479756	protein_coding	KNOWN	CCDS54665	9867	687	228	158422440	158450231	-1	None	TIG1, LXNL
3	RARRES1	ENSG00000118849	ENST00000471444	processed_transcript	PUTATIVE	None	9867	None	None	158422580	158423497	-1	None	TIG1, LXNL
3	RARRES1	ENSG00000118849	ENST00000498640	processed_transcript	KNOWN	None	9867	None	None	158422598	158450278	-1	None	TIG1, LXNL
14	None	ENSG00000238718	ENST00000458749	snoRNA	NOVEL	None	None	None	None	36256065	36256168	-1	None	None
17	UPF3AP2	ENSG00000214832	ENST00000578315	processed_transcript	KNOWN	None	30567	None	None	20278682	20279706	-1	None	None
17	UPF3AP2	ENSG00000214832	ENST00000457924	transcribed_processed_pseudogene	KNOWN	None	30567	None	None	20279022	20280153	-1	None	None
17	UPF3AP2	ENSG00000214832	ENST00000375294	pseudogene	KNOWN	None	30567	None	None	20279020	20279851	-1	None	None
15	SNORD115-39	ENSG00000200564	ENST00000363694	snoRNA	KNOWN	None	33058	None	None	25486893	25486974	1	None	HBII-52-39
5	None	ENSG00000249360	ENST00000506026	processed_pseudogene	KNOWN	None	None	None	None	33502177	33503240	1	None	None
X	None	ENSG00000169164	ENST00000347911	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	55681142	55683447	-1	None	None
X	None	ENSG00000169164	ENST00000513415	processed_transcript	KNOWN	None	None	None	None	55681154	55683398	-1	None	None
19	BLOC1S3	ENSG00000189114	ENST00000433642	protein_coding	KNOWN	CCDS12656	20914	609	202	45682003	45685059	1	None	BLOS3, HPS8
19	BLOC1S3	ENSG00000189114	ENST00000587722	protein_coding	KNOWN	CCDS12656	20914	609	202	45682481	45683212	1	None	BLOS3, HPS8
19	BLOC1S3	ENSG00000189114	ENST00000592910	protein_coding	KNOWN	None	20914	237	78	45682927	45684724	1	None	BLOS3, HPS8
19	BLOC1S3	ENSG00000189114	ENST00000588362	processed_transcript	PUTATIVE	None	20914	None	None	45683172	45684827	1	None	BLOS3, HPS8
12	None	ENSG00000257053	ENST00000407764	processed_pseudogene	KNOWN	None	None	None	None	121586813	121586912	1	None	None
X	None	ENSG00000271286	ENST00000603134	processed_pseudogene	KNOWN	None	None	None	None	21957579	21958278	1	None	None
17	None	ENSG00000269657	ENST00000600820	protein_coding	KNOWN	None	None	396	131	66539369	66542970	1	None	None
8	RPL19P13	ENSG00000239315	ENST00000483119	processed_pseudogene	KNOWN	None	36879	None	None	11113529	11114111	1	None	None
8	RPL19P13	ENSG00000239315	ENST00000455290	processed_pseudogene	KNOWN	None	36879	None	None	11113765	11114112	1	None	None
12	None	ENSG00000261827	ENST00000569999	sense_overlapping	KNOWN	None	None	None	None	121625359	121625835	1	None	None
11	VPS26B	ENSG00000151502	ENST00000281187	protein_coding	KNOWN	CCDS8495	28119	1011	336	134094539	134117686	1	None	MGC10485, Pep8b
11	VPS26B	ENSG00000151502	ENST00000525095	protein_coding	NOVEL	CCDS8495	28119	1011	336	134094571	134115623	1	None	MGC10485, Pep8b
11	VPS26B	ENSG00000151502	ENST00000527586	nonsense_mediated_decay	KNOWN	None	28119	217	71	134095088	134113627	1	None	MGC10485, Pep8b
11	VPS26B	ENSG00000151502	ENST00000532160	retained_intron	KNOWN	None	28119	None	None	134095193	134105601	1	None	MGC10485, Pep8b
11	VPS26B	ENSG00000151502	ENST00000530402	processed_transcript	KNOWN	None	28119	None	None	134104856	134113090	1	None	MGC10485, Pep8b
11	VPS26B	ENSG00000151502	ENST00000525918	retained_intron	KNOWN	None	28119	None	None	134109545	134113128	1	None	MGC10485, Pep8b
11	VPS26B	ENSG00000151502	ENST00000531741	retained_intron	KNOWN	None	28119	None	None	134113746	134116181	1	None	MGC10485, Pep8b
X	RN7SL436P	ENSG00000265868	ENST00000570812	misc_RNA	KNOWN	None	46452	None	None	22072271	22072551	-1	None	None
14	None	ENSG00000266264	ENST00000582013	miRNA	NOVEL	None	None	None	None	36278418	36278506	-1	None	None
X	PHEX-AS1	ENSG00000224204	ENST00000424650	antisense	KNOWN	None	40445	None	None	22180850	22191100	-1	None	None
16	IGHV2OR16-5	ENSG00000259303	ENST00000567458	IG_V_gene	KNOWN	None	5579	358	118	32859034	32859477	1	None	IGHV2/OR16-5
16	IGHV2OR16-5	ENSG00000259303	ENST00000560724	IG_V_gene	KNOWN	None	5579	291	96	32859177	32859467	1	None	IGHV2/OR16-5
HSCHR17_4_CTG4	KRT23	ENSG00000263309	ENST00000574480	protein_coding	KNOWN	None	6438	1269	422	39078948	39093672	-1	None	K23, DKFZP434G032, HAIK1, CK23, MGC26158
HSCHR17_4_CTG4	KRT23	ENSG00000263309	ENST00000571258	protein_coding	PUTATIVE	None	6438	858	285	39078952	39093702	-1	None	K23, DKFZP434G032, HAIK1, CK23, MGC26158
HSCHR17_4_CTG4	KRT23	ENSG00000263309	ENST00000571504	nonsense_mediated_decay	KNOWN	None	6438	114	37	39078952	39093836	-1	None	K23, DKFZP434G032, HAIK1, CK23, MGC26158
HSCHR17_4_CTG4	KRT23	ENSG00000263309	ENST00000579696	retained_intron	KNOWN	None	6438	None	None	39081413	39093087	-1	None	K23, DKFZP434G032, HAIK1, CK23, MGC26158
HSCHR17_4_CTG4	KRT23	ENSG00000263309	ENST00000574395	nonsense_mediated_decay	KNOWN	None	6438	114	37	39084490	39093797	-1	None	K23, DKFZP434G032, HAIK1, CK23, MGC26158
HSCHR17_4_CTG4	KRT23	ENSG00000263309	ENST00000581268	protein_coding	PUTATIVE	None	6438	450	149	39085928	39092642	-1	None	K23, DKFZP434G032, HAIK1, CK23, MGC26158
HSCHR17_4_CTG4	KRT23	ENSG00000263309	ENST00000572233	protein_coding	KNOWN	None	6438	156	51	39092700	39093738	-1	None	K23, DKFZP434G032, HAIK1, CK23, MGC26158
HSCHR17_4_CTG4	KRT23	ENSG00000263309	ENST00000577464	processed_transcript	KNOWN	None	6438	None	None	39092994	39093829	-1	None	K23, DKFZP434G032, HAIK1, CK23, MGC26158
HSCHR17_4_CTG4	KRT23	ENSG00000263309	ENST00000582651	processed_transcript	KNOWN	None	6438	None	None	39093084	39093886	-1	None	K23, DKFZP434G032, HAIK1, CK23, MGC26158
14	None	ENSG00000258938	ENST00000555918	antisense	KNOWN	None	None	None	None	36288430	36295971	-1	None	None
X	None	ENSG00000233067	ENST00000455399	processed_transcript	KNOWN	None	None	None	None	22407432	23082236	-1	None	None
17	USP32P3	ENSG00000189423	ENST00000583574	processed_transcript	KNOWN	None	43576	None	None	20318860	20327955	1	None	None
17	USP32P3	ENSG00000189423	ENST00000602334	processed_transcript	KNOWN	None	43576	None	None	20319966	20328017	1	None	None
17	USP32P3	ENSG00000189423	ENST00000413270	transcribed_unprocessed_pseudogene	KNOWN	None	43576	None	None	20327902	20334321	1	None	None
15	SNORD115-40	ENSG00000272460	ENST00000606510	snoRNA	KNOWN	None	33059	None	None	25488761	25488842	1	None	HBII-52-40
16	KCTD5	ENSG00000167977	ENST00000301738	protein_coding	KNOWN	CCDS10475	21423	705	234	2732476	2759031	1	None	FLJ20040
16	KCTD5	ENSG00000167977	ENST00000570005	processed_transcript	PUTATIVE	None	21423	None	None	2732529	2747280	1	None	FLJ20040
16	KCTD5	ENSG00000167977	ENST00000564246	processed_transcript	KNOWN	None	21423	None	None	2732534	2749303	1	None	FLJ20040
16	KCTD5	ENSG00000167977	ENST00000564195	protein_coding	PUTATIVE	None	21423	741	246	2732541	2757480	1	None	FLJ20040
16	KCTD5	ENSG00000167977	ENST00000569689	processed_transcript	PUTATIVE	None	21423	None	None	2735615	2746033	1	None	FLJ20040
12	None	ENSG00000258435	ENST00000557474	lincRNA	KNOWN	None	None	None	None	121829765	121837662	1	None	None
X	None	ENSG00000231846	ENST00000456621	processed_transcript	KNOWN	None	None	None	None	22446249	22512830	1	None	None
11	POLD3	ENSG00000077514	ENST00000528481	protein_coding	PUTATIVE	None	20932	333	110	74204896	74329639	1	None	P66, KIAA0039, P68
11	POLD3	ENSG00000077514	ENST00000263681	protein_coding	KNOWN	CCDS8233	20932	1401	466	74303575	74354102	1	None	P66, KIAA0039, P68
11	POLD3	ENSG00000077514	ENST00000532784	processed_transcript	PUTATIVE	None	20932	None	None	74303601	74306547	1	None	P66, KIAA0039, P68
11	POLD3	ENSG00000077514	ENST00000527458	protein_coding	PUTATIVE	None	20932	1284	427	74303650	74352159	1	None	P66, KIAA0039, P68
11	POLD3	ENSG00000077514	ENST00000532497	protein_coding	PUTATIVE	None	20932	1083	360	74303650	74352159	1	None	P66, KIAA0039, P68
11	POLD3	ENSG00000077514	ENST00000530511	protein_coding	PUTATIVE	None	20932	509	168	74303689	74329815	1	None	P66, KIAA0039, P68
11	POLD3	ENSG00000077514	ENST00000531615	protein_coding	PUTATIVE	None	20932	414	137	74315608	74329720	1	None	P66, KIAA0039, P68
11	POLD3	ENSG00000077514	ENST00000524752	protein_coding	PUTATIVE	None	20932	449	148	74336549	74380162	1	None	P66, KIAA0039, P68
11	POLD3	ENSG00000077514	ENST00000530163	retained_intron	KNOWN	None	20932	None	None	74339908	74352010	1	None	P66, KIAA0039, P68
11	POLD3	ENSG00000077514	ENST00000532954	protein_coding	NOVEL	None	20932	268	88	74349659	74352107	1	None	P66, KIAA0039, P68
14	None	ENSG00000258300	ENST00000551207	processed_pseudogene	KNOWN	None	None	None	None	36289043	36289426	1	None	None
6	SYNGAP1	ENSG00000197283	ENST00000479510	retained_intron	KNOWN	None	11497	None	None	33387847	33406886	1	None	SYNGAP, RASA5, KIAA1938
6	SYNGAP1	ENSG00000197283	ENST00000418600	protein_coding	KNOWN	CCDS34434	11497	4032	1343	33387941	33421466	1	None	SYNGAP, RASA5, KIAA1938
6	SYNGAP1	ENSG00000197283	ENST00000449372	protein_coding	NOVEL	None	11497	3837	1278	33388032	33415710	1	None	SYNGAP, RASA5, KIAA1938
6	SYNGAP1	ENSG00000197283	ENST00000496374	processed_transcript	KNOWN	None	11497	None	None	33388087	33420172	1	None	SYNGAP, RASA5, KIAA1938
6	SYNGAP1	ENSG00000197283	ENST00000428982	protein_coding	PUTATIVE	None	11497	3855	1284	33399508	33419987	1	None	SYNGAP, RASA5, KIAA1938
6	SYNGAP1	ENSG00000197283	ENST00000495633	processed_transcript	PUTATIVE	None	11497	None	None	33406249	33408352	1	None	SYNGAP, RASA5, KIAA1938
6	SYNGAP1	ENSG00000197283	ENST00000486399	processed_transcript	PUTATIVE	None	11497	None	None	33414441	33416830	1	None	SYNGAP, RASA5, KIAA1938
6	SYNGAP1	ENSG00000197283	ENST00000470232	retained_intron	KNOWN	None	11497	None	None	33414488	33415937	1	None	SYNGAP, RASA5, KIAA1938
6	SYNGAP1	ENSG00000197283	ENST00000293748	protein_coding	KNOWN	None	11497	3900	1299	33387847	33416580	1	None	SYNGAP, RASA5, KIAA1938
12	None	ENSG00000256742	ENST00000541574	lincRNA	KNOWN	None	None	None	None	122018697	122031409	1	None	None
7	DMTF1	ENSG00000135164	ENST00000331242	protein_coding	KNOWN	CCDS5601	14603	2283	760	86781677	86825648	1	None	DMP1, DMTF, hDMP1
7	DMTF1	ENSG00000135164	ENST00000413276	protein_coding	NOVEL	None	14603	2073	690	86781725	86825653	1	None	DMP1, DMTF, hDMP1
7	DMTF1	ENSG00000135164	ENST00000447863	nonsense_mediated_decay	KNOWN	None	14603	858	285	86781728	86825641	1	None	DMP1, DMTF, hDMP1
7	DMTF1	ENSG00000135164	ENST00000579677	nonsense_mediated_decay	KNOWN	None	14603	819	272	86781728	86825641	1	None	DMP1, DMTF, hDMP1
7	DMTF1	ENSG00000135164	ENST00000446796	protein_coding	KNOWN	None	14603	255	84	86781742	86800333	1	None	DMP1, DMTF, hDMP1
7	DMTF1	ENSG00000135164	ENST00000425406	nonsense_mediated_decay	KNOWN	None	14603	735	244	86781742	86825639	1	None	DMP1, DMTF, hDMP1
7	DMTF1	ENSG00000135164	ENST00000420131	protein_coding	KNOWN	None	14603	31	9	86781752	86800373	1	None	DMP1, DMTF, hDMP1
7	DMTF1	ENSG00000135164	ENST00000414630	protein_coding	KNOWN	None	14603	147	48	86781756	86795836	1	None	DMP1, DMTF, hDMP1
7	DMTF1	ENSG00000135164	ENST00000547146	nonsense_mediated_decay	KNOWN	None	14603	1137	378	86781764	86825641	1	None	DMP1, DMTF, hDMP1
7	DMTF1	ENSG00000135164	ENST00000579850	nonsense_mediated_decay	KNOWN	None	14603	1098	365	86781766	86825648	1	None	DMP1, DMTF, hDMP1
7	DMTF1	ENSG00000135164	ENST00000453049	protein_coding	KNOWN	None	14603	272	89	86781768	86800350	1	None	DMP1, DMTF, hDMP1
7	DMTF1	ENSG00000135164	ENST00000428819	protein_coding	KNOWN	None	14603	82	26	86781769	86794339	1	None	DMP1, DMTF, hDMP1
7	DMTF1	ENSG00000135164	ENST00000448598	protein_coding	KNOWN	None	14603	148	48	86781769	86795837	1	None	DMP1, DMTF, hDMP1
7	DMTF1	ENSG00000135164	ENST00000449088	protein_coding	KNOWN	None	14603	410	135	86781769	86802933	1	None	DMP1, DMTF, hDMP1
7	DMTF1	ENSG00000135164	ENST00000430405	protein_coding	KNOWN	None	14603	526	174	86781769	86808867	1	None	DMP1, DMTF, hDMP1
7	DMTF1	ENSG00000135164	ENST00000432937	protein_coding	KNOWN	CCDS47633	14603	2019	672	86781784	86824482	1	None	DMP1, DMTF, hDMP1
7	DMTF1	ENSG00000135164	ENST00000584619	nonsense_mediated_decay	KNOWN	None	14603	819	272	86781814	86820343	1	None	DMP1, DMTF, hDMP1
7	DMTF1	ENSG00000135164	ENST00000432366	protein_coding	KNOWN	None	14603	219	72	86781847	86795908	1	None	DMP1, DMTF, hDMP1
7	DMTF1	ENSG00000135164	ENST00000423590	protein_coding	KNOWN	None	14603	120	39	86781862	86795809	1	None	DMP1, DMTF, hDMP1
7	DMTF1	ENSG00000135164	ENST00000394703	protein_coding	KNOWN	CCDS5601	14603	2283	760	86781870	86825648	1	None	DMP1, DMTF, hDMP1
7	DMTF1	ENSG00000135164	ENST00000584457	processed_transcript	KNOWN	None	14603	None	None	86781872	86792855	1	None	DMP1, DMTF, hDMP1
7	DMTF1	ENSG00000135164	ENST00000580710	processed_transcript	KNOWN	None	14603	None	None	86781929	86792880	1	None	DMP1, DMTF, hDMP1
7	DMTF1	ENSG00000135164	ENST00000579592	protein_coding	KNOWN	None	14603	48	15	86781945	86794305	1	None	DMP1, DMTF, hDMP1
7	DMTF1	ENSG00000135164	ENST00000434534	protein_coding	KNOWN	None	14603	289	95	86781947	86800367	1	None	DMP1, DMTF, hDMP1
7	DMTF1	ENSG00000135164	ENST00000583751	processed_transcript	KNOWN	None	14603	None	None	86783773	86784875	1	None	DMP1, DMTF, hDMP1
7	DMTF1	ENSG00000135164	ENST00000582925	protein_coding	KNOWN	None	14603	104	33	86792114	86794361	1	None	DMP1, DMTF, hDMP1
7	DMTF1	ENSG00000135164	ENST00000412139	nonsense_mediated_decay	KNOWN	None	14603	819	272	86792198	86825639	1	None	DMP1, DMTF, hDMP1
7	DMTF1	ENSG00000135164	ENST00000425705	protein_coding	KNOWN	None	14603	574	190	86792536	86808915	1	None	DMP1, DMTF, hDMP1
7	DMTF1	ENSG00000135164	ENST00000583833	processed_transcript	KNOWN	None	14603	None	None	86792555	86792933	1	None	DMP1, DMTF, hDMP1
7	DMTF1	ENSG00000135164	ENST00000473521	retained_intron	KNOWN	None	14603	None	None	86810512	86815249	1	None	DMP1, DMTF, hDMP1
7	DMTF1	ENSG00000135164	ENST00000582887	retained_intron	KNOWN	None	14603	None	None	86811514	86815337	1	None	DMP1, DMTF, hDMP1
7	DMTF1	ENSG00000135164	ENST00000578926	retained_intron	KNOWN	None	14603	None	None	86811563	86815491	1	None	DMP1, DMTF, hDMP1
7	DMTF1	ENSG00000135164	ENST00000480982	retained_intron	KNOWN	None	14603	None	None	86815312	86822617	1	None	DMP1, DMTF, hDMP1
7	DMTF1	ENSG00000135164	ENST00000580803	retained_intron	KNOWN	None	14603	None	None	86817409	86822809	1	None	DMP1, DMTF, hDMP1
7	DMTF1	ENSG00000135164	ENST00000488352	retained_intron	KNOWN	None	14603	None	None	86821793	86825455	1	None	DMP1, DMTF, hDMP1
7	DMTF1	ENSG00000135164	ENST00000454008	protein_coding	PUTATIVE	None	14603	530	175	86822617	86825073	1	None	DMP1, DMTF, hDMP1
7	DMTF1	ENSG00000135164	ENST00000582204	protein_coding	PUTATIVE	None	14603	537	178	86823041	86824208	1	None	DMP1, DMTF, hDMP1
7	DMTF1	ENSG00000135164	ENST00000580010	retained_intron	KNOWN	None	14603	None	None	86823270	86825639	1	None	DMP1, DMTF, hDMP1
7	DMTF1	ENSG00000135164	ENST00000394702	protein_coding	KNOWN	None	14603	858	285	86781677	86811480	1	None	DMP1, DMTF, hDMP1
7	DMTF1	ENSG00000135164	ENST00000411766	protein_coding	KNOWN	None	14603	735	244	86781742	86813797	1	None	DMP1, DMTF, hDMP1
7	DMTF1	ENSG00000135164	ENST00000414194	protein_coding	KNOWN	None	14603	1485	494	86792198	86825639	1	None	DMP1, DMTF, hDMP1
12	RNU6-1004P	ENSG00000252393	ENST00000516584	snRNA	KNOWN	None	47967	None	None	122042807	122042917	1	None	None
8	None	ENSG00000249316	ENST00000512316	unprocessed_pseudogene	KNOWN	None	None	None	None	11138873	11140010	-1	None	None
15	SNORD115-41	ENSG00000200478	ENST00000363608	snoRNA	KNOWN	None	33060	None	None	25490625	25490706	1	None	HBII-52-41
6	RPS17P5	ENSG00000060303	ENST00000498293	processed_pseudogene	KNOWN	None	21352	None	None	50824968	50825375	-1	RPS17L4	dJ753D5.2
X	METTL15P3	ENSG00000224396	ENST00000415522	processed_pseudogene	KNOWN	None	39558	None	None	22453715	22454935	1	None	None
X	TMSB4X	ENSG00000205542	ENST00000451311	protein_coding	KNOWN	CCDS35202	11881	135	44	12993227	12995346	1	TMSB4	TB4X
X	TMSB4X	ENSG00000205542	ENST00000380636	protein_coding	KNOWN	CCDS35202	11881	135	44	12993229	12995345	1	TMSB4	TB4X
X	TMSB4X	ENSG00000205542	ENST00000380635	protein_coding	NOVEL	CCDS35202	11881	135	44	12993363	12995346	1	TMSB4	TB4X
X	TMSB4X	ENSG00000205542	ENST00000380633	protein_coding	KNOWN	CCDS35202	11881	135	44	12993777	12995200	1	TMSB4	TB4X
8	None	ENSG00000246477	ENST00000498997	antisense	KNOWN	None	None	None	None	11173374	11182938	-1	None	None
12	None	ENSG00000256392	ENST00000546227	retained_intron	KNOWN	None	None	None	None	122217514	122238583	-1	None	None
12	None	ENSG00000256392	ENST00000541657	retained_intron	KNOWN	None	None	None	None	122218858	122240834	-1	None	None
12	None	ENSG00000256392	ENST00000545544	processed_transcript	KNOWN	None	None	None	None	122231057	122241309	-1	None	None
17	CSH1	ENSG00000136488	ENST00000316193	protein_coding	KNOWN	CCDS11649	2440	654	217	61972278	61974013	-1	None	hCS-A, CSA, PL, CSMT, FLJ75407
17	CSH1	ENSG00000136488	ENST00000329882	protein_coding	PUTATIVE	None	2440	771	256	61972287	61973942	-1	None	hCS-A, CSA, PL, CSMT, FLJ75407
17	CSH1	ENSG00000136488	ENST00000558284	retained_intron	KNOWN	None	2440	None	None	61972291	61973969	-1	None	hCS-A, CSA, PL, CSMT, FLJ75407
17	CSH1	ENSG00000136488	ENST00000558661	retained_intron	KNOWN	None	2440	None	None	61973191	61974021	-1	None	hCS-A, CSA, PL, CSMT, FLJ75407
17	CSH1	ENSG00000136488	ENST00000453363	protein_coding	KNOWN	None	2440	369	122	61972275	61974013	-1	None	hCS-A, CSA, PL, CSMT, FLJ75407
X	RNU6-266P	ENSG00000201095	ENST00000364225	snRNA	KNOWN	None	47229	None	None	22545952	22546058	1	None	None
X	None	ENSG00000231011	ENST00000422934	processed_pseudogene	KNOWN	None	None	None	None	22634861	22635260	-1	None	None
HSCHR17_1	None	ENSG00000257339	ENST00000547603	protein_coding	KNOWN	None	None	3171	1056	43513192	43568077	-1	None	None
HSCHR17_1	None	ENSG00000257339	ENST00000548376	protein_coding	KNOWN	None	None	540	179	43514764	43568026	-1	None	None
HSCHR17_1	None	ENSG00000257339	ENST00000549277	protein_coding	KNOWN	None	None	855	284	43551031	43568077	-1	None	None
10	ERCC6-PGBD3	ENSG00000258838	ENST00000447839	protein_coding	NOVEL	None	48347	3186	1061	50723247	50747086	-1	None	None
10	ERCC6-PGBD3	ENSG00000258838	ENST00000515869	protein_coding	NOVEL	None	48347	3186	1061	50723247	50747584	-1	None	None
16	None	ENSG00000260914	ENST00000570054	protein_coding	PUTATIVE	None	None	865	287	69333585	69354614	1	None	None
2	MTND5P23	ENSG00000235080	ENST00000430812	unprocessed_pseudogene	KNOWN	None	42285	None	None	132127994	132129648	-1	None	None
16	None	ENSG00000260207	ENST00000566374	processed_pseudogene	KNOWN	None	None	None	None	33944923	33945316	1	None	None
8	STC1	ENSG00000159167	ENST00000290271	protein_coding	KNOWN	CCDS6043	11373	744	247	23699428	23712320	-1	STC	None
8	STC1	ENSG00000159167	ENST00000524323	protein_coding	PUTATIVE	None	11373	537	178	23701427	23711824	-1	STC	None
3	CD80	ENSG00000121594	ENST00000264246	protein_coding	KNOWN	CCDS2989	1700	867	288	119243140	119278449	-1	CD28LG, CD28LG1	B7.1, B7-1
3	CD80	ENSG00000121594	ENST00000478182	protein_coding	KNOWN	CCDS2989	1700	867	288	119246311	119278403	-1	CD28LG, CD28LG1	B7.1, B7-1
3	CD80	ENSG00000121594	ENST00000463729	retained_intron	KNOWN	None	1700	None	None	119263190	119276687	-1	CD28LG, CD28LG1	B7.1, B7-1
3	CD80	ENSG00000121594	ENST00000383669	protein_coding	KNOWN	None	1700	771	256	119246618	119276575	-1	CD28LG, CD28LG1	B7.1, B7-1
3	CD80	ENSG00000121594	ENST00000383668	protein_coding	KNOWN	None	1700	489	162	119246618	119276575	-1	CD28LG, CD28LG1	B7.1, B7-1
5	None	ENSG00000251387	ENST00000506892	lincRNA	KNOWN	None	None	None	None	139152113	139154991	-1	None	None
15	SNORD115-42	ENSG00000201143	ENST00000364273	snoRNA	KNOWN	None	33061	None	None	25492492	25492573	1	None	HBII-52-42
9	None	ENSG00000216088	ENST00000401269	miRNA	NOVEL	None	None	None	None	24872710	24872796	-1	None	None
5	None	ENSG00000271792	ENST00000607370	lincRNA	KNOWN	None	None	None	None	139154890	139155057	1	None	None
X	NPM1P34	ENSG00000232054	ENST00000428821	processed_pseudogene	KNOWN	None	45213	None	None	123414380	123415272	1	None	None
9	RMRPP5	ENSG00000223088	ENST00000411156	misc_RNA	KNOWN	None	47035	None	None	24905467	24905733	1	None	None
20	BPIFB2	ENSG00000078898	ENST00000170150	protein_coding	KNOWN	CCDS13210	16177	1377	458	31595406	31611515	1	C20orf184, BPIL1	dJ726C3.2, LPLUNC2
16	None	ENSG00000265616	ENST00000583871	miRNA	NOVEL	None	None	None	None	33945949	33946021	-1	None	None
5	None	ENSG00000250692	ENST00000504413	antisense	KNOWN	None	None	None	None	139227875	139235974	1	None	None
9	RN7SKP120	ENSG00000222693	ENST00000410761	misc_RNA	KNOWN	None	45844	None	None	25088809	25089149	-1	None	None
10	None	ENSG00000199222	ENST00000362352	misc_RNA	NOVEL	None	None	None	None	21770645	21770746	1	None	None
10	None	ENSG00000235742	ENST00000451232	processed_pseudogene	KNOWN	None	None	None	None	118783185	118783362	-1	None	None
9	None	ENSG00000236306	ENST00000423326	lincRNA	KNOWN	None	None	None	None	25780054	25784560	1	None	None
19	NAPA	ENSG00000105402	ENST00000263354	protein_coding	KNOWN	CCDS12702	7641	888	295	47990894	48018497	-1	None	None
19	NAPA	ENSG00000105402	ENST00000597778	retained_intron	KNOWN	None	7641	None	None	47990895	48000353	-1	None	None
19	NAPA	ENSG00000105402	ENST00000594217	nonsense_mediated_decay	KNOWN	None	7641	252	83	47990899	47995301	-1	None	None
19	NAPA	ENSG00000105402	ENST00000597271	retained_intron	KNOWN	None	7641	None	None	47990919	47994732	-1	None	None
19	NAPA	ENSG00000105402	ENST00000595227	protein_coding	NOVEL	None	7641	771	256	47990936	48018277	-1	None	None
19	NAPA	ENSG00000105402	ENST00000594001	nonsense_mediated_decay	KNOWN	None	7641	108	35	47990937	48018315	-1	None	None
19	NAPA	ENSG00000105402	ENST00000593761	protein_coding	NOVEL	None	7641	805	267	47992979	48018283	-1	None	None
19	NAPA	ENSG00000105402	ENST00000593905	retained_intron	KNOWN	None	7641	None	None	47993011	47996897	-1	None	None
19	NAPA	ENSG00000105402	ENST00000594155	protein_coding	NOVEL	None	7641	416	137	47994045	48004006	-1	None	None
19	NAPA	ENSG00000105402	ENST00000601208	nonsense_mediated_decay	KNOWN	None	7641	183	60	47994101	48018300	-1	None	None
19	NAPA	ENSG00000105402	ENST00000598615	protein_coding	PUTATIVE	None	7641	308	101	47995318	48016023	-1	None	None
19	NAPA	ENSG00000105402	ENST00000602082	retained_intron	KNOWN	None	7641	None	None	47995843	48018279	-1	None	None
19	NAPA	ENSG00000105402	ENST00000602174	retained_intron	KNOWN	None	7641	None	None	47996134	48018202	-1	None	None
19	NAPA	ENSG00000105402	ENST00000595826	processed_transcript	KNOWN	None	7641	None	None	47996207	48018262	-1	None	None
19	NAPA	ENSG00000105402	ENST00000597118	protein_coding	PUTATIVE	None	7641	411	136	47996218	48016059	-1	None	None
19	NAPA	ENSG00000105402	ENST00000596892	processed_transcript	KNOWN	None	7641	None	None	47996251	48000759	-1	None	None
19	NAPA	ENSG00000105402	ENST00000594288	retained_intron	KNOWN	None	7641	None	None	47996275	48016052	-1	None	None
19	NAPA	ENSG00000105402	ENST00000594740	retained_intron	KNOWN	None	7641	None	None	47996328	48018289	-1	None	None
19	NAPA	ENSG00000105402	ENST00000597274	nonsense_mediated_decay	KNOWN	None	7641	225	74	47996340	48018348	-1	None	None
19	NAPA	ENSG00000105402	ENST00000601927	retained_intron	KNOWN	None	7641	None	None	47996358	47999083	-1	None	None
19	NAPA	ENSG00000105402	ENST00000593785	processed_transcript	KNOWN	None	7641	None	None	47999030	48018296	-1	None	None
19	NAPA	ENSG00000105402	ENST00000597160	processed_transcript	KNOWN	None	7641	None	None	47999853	48018296	-1	None	None
5	None	ENSG00000207317	ENST00000384587	misc_RNA	NOVEL	None	None	None	None	139399077	139399177	1	None	None
10	None	ENSG00000234474	ENST00000419373	lincRNA	KNOWN	None	None	None	None	118918167	118928570	-1	None	None
8	VPS37A	ENSG00000155975	ENST00000324849	protein_coding	KNOWN	CCDS6001	24928	1194	397	17104080	17155533	1	PQBP2	FLJ32642, HCRP1, SPG53
8	VPS37A	ENSG00000155975	ENST00000519381	nonsense_mediated_decay	KNOWN	None	24928	162	53	17104440	17125782	1	PQBP2	FLJ32642, HCRP1, SPG53
8	VPS37A	ENSG00000155975	ENST00000520140	nonsense_mediated_decay	KNOWN	None	24928	954	317	17104443	17152786	1	PQBP2	FLJ32642, HCRP1, SPG53
8	VPS37A	ENSG00000155975	ENST00000518038	protein_coding	NOVEL	None	24928	348	115	17104447	17125881	1	PQBP2	FLJ32642, HCRP1, SPG53
8	VPS37A	ENSG00000155975	ENST00000425020	nonsense_mediated_decay	KNOWN	None	24928	558	185	17104603	17155096	1	PQBP2	FLJ32642, HCRP1, SPG53
8	VPS37A	ENSG00000155975	ENST00000521829	protein_coding	KNOWN	CCDS47811	24928	1119	372	17104632	17152561	1	PQBP2	FLJ32642, HCRP1, SPG53
8	VPS37A	ENSG00000155975	ENST00000521005	protein_coding	PUTATIVE	None	24928	231	76	17104753	17105516	1	PQBP2	FLJ32642, HCRP1, SPG53
8	VPS37A	ENSG00000155975	ENST00000521976	protein_coding	PUTATIVE	None	24928	513	170	17133945	17144120	1	PQBP2	FLJ32642, HCRP1, SPG53
8	VPS37A	ENSG00000155975	ENST00000521162	processed_transcript	KNOWN	None	24928	None	None	17153473	17157640	1	PQBP2	FLJ32642, HCRP1, SPG53
8	VPS37A	ENSG00000155975	ENST00000520997	processed_transcript	KNOWN	None	24928	None	None	17153970	17157791	1	PQBP2	FLJ32642, HCRP1, SPG53
8	VPS37A	ENSG00000155975	ENST00000519515	processed_transcript	KNOWN	None	24928	None	None	17155616	17159936	1	PQBP2	FLJ32642, HCRP1, SPG53
8	VPS37A	ENSG00000155975	ENST00000324815	protein_coding	KNOWN	None	24928	558	185	17104401	17132355	1	PQBP2	FLJ32642, HCRP1, SPG53
6	None	ENSG00000216913	ENST00000402760	processed_pseudogene	KNOWN	None	None	None	None	50865328	50865938	-1	None	None
1	None	ENSG00000268575	ENST00000598846	processed_transcript	KNOWN	None	None	None	None	1634175	1669127	-1	None	None
12	HCFC2	ENSG00000111727	ENST00000229330	protein_coding	KNOWN	CCDS9097	24972	2379	792	104458235	104498639	1	None	HCF-2
12	HCFC2	ENSG00000111727	ENST00000544223	nonsense_mediated_decay	KNOWN	None	24972	1239	412	104458320	104497244	1	None	HCF-2
12	HCFC2	ENSG00000111727	ENST00000550444	protein_coding	PUTATIVE	None	24972	235	77	104458592	104473251	1	None	HCF-2
12	HCFC2	ENSG00000111727	ENST00000547194	retained_intron	KNOWN	None	24972	None	None	104474211	104476534	1	None	HCF-2
12	HCFC2	ENSG00000111727	ENST00000550335	processed_transcript	KNOWN	None	24972	None	None	104484701	104497079	1	None	HCF-2
12	HCFC2	ENSG00000111727	ENST00000552343	retained_intron	KNOWN	None	24972	None	None	104491902	104497185	1	None	HCF-2
9	None	ENSG00000270683	ENST00000604431	processed_pseudogene	KNOWN	None	None	None	None	25937910	25938432	1	None	None
17	SRP68P3	ENSG00000237911	ENST00000416871	unprocessed_pseudogene	KNOWN	None	30428	None	None	20319105	20320010	-1	None	SRPSMCR
10	MIR3663	ENSG00000266782	ENST00000583207	miRNA	KNOWN	None	38958	None	None	118927189	118927285	-1	None	hsa-mir-3663
HSCHR6_MHC_SSTO	ZNRD1	ENSG00000233795	ENST00000481680	retained_intron	KNOWN	None	13182	None	None	30016261	30022268	1	None	hZR14, HTEX-6, tctex-6, RPA12
HSCHR6_MHC_SSTO	ZNRD1	ENSG00000233795	ENST00000417275	protein_coding	KNOWN	None	13182	381	126	30018616	30022268	1	None	hZR14, HTEX-6, tctex-6, RPA12
HSCHR6_MHC_SSTO	ZNRD1	ENSG00000233795	ENST00000444794	protein_coding	KNOWN	None	13182	381	126	30018619	30022268	1	None	hZR14, HTEX-6, tctex-6, RPA12
HSCHR6_MHC_SSTO	ZNRD1	ENSG00000233795	ENST00000442585	protein_coding	KNOWN	None	13182	381	126	30018621	30022268	1	None	hZR14, HTEX-6, tctex-6, RPA12
HSCHR6_MHC_SSTO	ZNRD1	ENSG00000233795	ENST00000412396	protein_coding	KNOWN	None	13182	381	126	30018625	30022268	1	None	hZR14, HTEX-6, tctex-6, RPA12
HSCHR6_MHC_SSTO	ZNRD1	ENSG00000233795	ENST00000484119	processed_transcript	KNOWN	None	13182	None	None	30018692	30022268	1	None	hZR14, HTEX-6, tctex-6, RPA12
10	FAM149B1	ENSG00000138286	ENST00000242505	protein_coding	KNOWN	CCDS44435	29162	1749	582	74927924	75004262	1	KIAA0974	None
10	FAM149B1	ENSG00000138286	ENST00000372955	protein_coding	KNOWN	None	29162	1409	468	74937630	74995210	1	KIAA0974	None
10	FAM149B1	ENSG00000138286	ENST00000445951	protein_coding	KNOWN	None	29162	1008	335	74968450	75001938	1	KIAA0974	None
10	FAM149B1	ENSG00000138286	ENST00000475829	processed_transcript	KNOWN	None	29162	None	None	74970025	74995210	1	KIAA0974	None
10	FAM149B1	ENSG00000138286	ENST00000470798	processed_transcript	KNOWN	None	29162	None	None	74987865	74995239	1	KIAA0974	None
10	FAM149B1	ENSG00000138286	ENST00000466261	processed_transcript	KNOWN	None	29162	None	None	74990054	74995067	1	KIAA0974	None
10	FAM149B1	ENSG00000138286	ENST00000468462	processed_transcript	KNOWN	None	29162	None	None	74993866	75001939	1	KIAA0974	None
14	None	ENSG00000257272	ENST00000553046	lincRNA	KNOWN	None	None	None	None	36343063	36344509	1	None	None
5	None	ENSG00000245146	ENST00000523452	antisense	KNOWN	None	None	None	None	139452442	139488215	-1	None	None
5	None	ENSG00000245146	ENST00000499203	antisense	KNOWN	None	None	None	None	139482507	139487228	-1	None	None
5	None	ENSG00000245146	ENST00000522747	antisense	KNOWN	None	None	None	None	139483418	139487051	-1	None	None
5	None	ENSG00000245146	ENST00000521563	antisense	KNOWN	None	None	None	None	139483425	139487234	-1	None	None
5	None	ENSG00000245146	ENST00000520928	antisense	KNOWN	None	None	None	None	139484887	139486067	-1	None	None
5	None	ENSG00000245146	ENST00000521133	antisense	KNOWN	None	None	None	None	139485010	139488173	-1	None	None
5	None	ENSG00000245146	ENST00000518790	antisense	KNOWN	None	None	None	None	139485185	139488150	-1	None	None
10	None	ENSG00000236171	ENST00000452430	processed_pseudogene	KNOWN	None	None	None	None	118955679	118956165	-1	None	None
9	None	ENSG00000266429	ENST00000582085	miRNA	NOVEL	None	None	None	None	26614038	26614123	-1	None	None
17	FAM106B	ENSG00000205217	ENST00000583615	processed_pseudogene	KNOWN	None	32450	None	None	20320763	20321272	1	None	None
17	FAM106B	ENSG00000205217	ENST00000379228	processed_pseudogene	KNOWN	None	32450	None	None	20320741	20322363	1	None	None
15	SNORD115-43	ENSG00000202373	ENST00000365503	snoRNA	KNOWN	None	33062	None	None	25494345	25494426	1	None	HBII-52-43
7	VN1R40P	ENSG00000223845	ENST00000455196	unitary_pseudogene	KNOWN	None	37360	None	None	63904180	63905120	-1	None	None
2	MTND4P21	ENSG00000231777	ENST00000453886	unprocessed_pseudogene	KNOWN	None	42208	None	None	132129867	132131223	-1	None	None
9	None	ENSG00000254261	ENST00000523363	lincRNA	KNOWN	None	None	None	None	26746951	26786872	1	None	None
10	None	ENSG00000225936	ENST00000425264	antisense	KNOWN	None	None	None	None	118999111	119001434	-1	None	None
9	None	ENSG00000252580	ENST00000516771	snoRNA	NOVEL	None	None	None	None	26796171	26796302	-1	None	None
10	GFRA1	ENSG00000151892	ENST00000369236	protein_coding	KNOWN	CCDS7593	4243	1383	460	117822953	118031794	-1	GDNFRA	RETL1, GDNFR, GFR-ALPHA-1, RET1L, TRNR1
10	GFRA1	ENSG00000151892	ENST00000355422	protein_coding	KNOWN	CCDS44481	4243	1398	465	117823275	118032979	-1	GDNFRA	RETL1, GDNFR, GFR-ALPHA-1, RET1L, TRNR1
10	GFRA1	ENSG00000151892	ENST00000369234	protein_coding	KNOWN	None	4243	1395	464	117823912	118032545	-1	GDNFRA	RETL1, GDNFR, GFR-ALPHA-1, RET1L, TRNR1
10	GFRA1	ENSG00000151892	ENST00000490345	processed_transcript	KNOWN	None	4243	None	None	118031516	118032155	-1	GDNFRA	RETL1, GDNFR, GFR-ALPHA-1, RET1L, TRNR1
10	GFRA1	ENSG00000151892	ENST00000439649	protein_coding	KNOWN	CCDS7593	4243	1383	460	117816444	118032796	-1	GDNFRA	RETL1, GDNFR, GFR-ALPHA-1, RET1L, TRNR1
10	GFRA1	ENSG00000151892	ENST00000544592	protein_coding	KNOWN	None	4243	1035	344	117823727	118015307	-1	GDNFRA	RETL1, GDNFR, GFR-ALPHA-1, RET1L, TRNR1
17	FBXW10	ENSG00000171931	ENST00000395665	protein_coding	KNOWN	CCDS11199	1211	3159	1052	18647337	18682662	1	C17orf1, C17orf1A	SM2SH2, HREP, Fbw10
17	FBXW10	ENSG00000171931	ENST00000308799	protein_coding	KNOWN	None	1211	3186	1061	18647339	18682662	1	C17orf1, C17orf1A	SM2SH2, HREP, Fbw10
17	FBXW10	ENSG00000171931	ENST00000574478	nonsense_mediated_decay	KNOWN	None	1211	591	196	18647385	18682655	1	C17orf1, C17orf1A	SM2SH2, HREP, Fbw10
17	FBXW10	ENSG00000171931	ENST00000301938	protein_coding	KNOWN	CCDS58524	1211	3000	999	18647388	18682662	1	C17orf1, C17orf1A	SM2SH2, HREP, Fbw10
17	FBXW10	ENSG00000171931	ENST00000573605	processed_transcript	KNOWN	None	1211	None	None	18672790	18675947	1	C17orf1, C17orf1A	SM2SH2, HREP, Fbw10
17	FBXW10	ENSG00000171931	ENST00000395667	protein_coding	KNOWN	None	1211	3156	1051	18647326	18682661	1	C17orf1, C17orf1A	SM2SH2, HREP, Fbw10
7	None	ENSG00000228014	ENST00000436625	processed_pseudogene	KNOWN	None	None	None	None	63929563	63931031	1	None	None
9	None	ENSG00000253400	ENST00000521572	lincRNA	KNOWN	None	None	None	None	26801731	26805860	1	None	None
10	None	ENSG00000222197	ENST00000410265	miRNA	NOVEL	None	None	None	None	119117867	119117967	1	None	None
15	CCNB2	ENSG00000157456	ENST00000288207	protein_coding	KNOWN	CCDS10170	1580	1197	398	59397277	59417244	1	None	HsT17299
15	CCNB2	ENSG00000157456	ENST00000561077	retained_intron	KNOWN	None	1580	None	None	59397325	59406813	1	None	HsT17299
15	CCNB2	ENSG00000157456	ENST00000559622	protein_coding	NOVEL	None	1580	813	270	59397356	59417215	1	None	HsT17299
15	CCNB2	ENSG00000157456	ENST00000559301	retained_intron	KNOWN	None	1580	None	None	59408966	59415989	1	None	HsT17299
17	None	ENSG00000265556	ENST00000583863	lincRNA	KNOWN	None	None	None	None	20336519	20337598	1	None	None
10	None	ENSG00000258114	ENST00000549104	lincRNA	KNOWN	None	None	None	None	119184705	119249930	1	None	None
16	COG8	ENSG00000213380	ENST00000564419	processed_transcript	PUTATIVE	None	18623	None	None	69354043	69362569	-1	None	FLJ22315, DOR1
16	COG8	ENSG00000213380	ENST00000562595	protein_coding	PUTATIVE	None	18623	670	222	69357429	69373396	-1	None	FLJ22315, DOR1
16	COG8	ENSG00000213380	ENST00000306875	protein_coding	KNOWN	CCDS10876	18623	1839	612	69360816	69373570	-1	None	FLJ22315, DOR1
16	COG8	ENSG00000213380	ENST00000562949	protein_coding	PUTATIVE	None	18623	495	164	69362547	69368774	-1	None	FLJ22315, DOR1
16	COG8	ENSG00000213380	ENST00000562081	protein_coding	NOVEL	None	18623	1605	534	69366535	69373486	-1	None	FLJ22315, DOR1
16	COG8	ENSG00000213380	ENST00000567493	protein_coding	PUTATIVE	None	18623	299	98	69369118	69372480	-1	None	FLJ22315, DOR1
9	None	ENSG00000232466	ENST00000444762	processed_pseudogene	KNOWN	None	None	None	None	26880176	26880547	-1	None	None
HG962_PATCH	PGM5	ENSG00000266607	ENST00000586459	processed_transcript	KNOWN	None	8908	None	None	70943224	71021271	1	None	PGMRP
HG962_PATCH	PGM5	ENSG00000266607	ENST00000579791	protein_coding	NOVEL	None	8908	1164	387	70971815	71081475	1	None	PGMRP
HG962_PATCH	PGM5	ENSG00000266607	ENST00000579948	protein_coding	KNOWN	None	8908	1206	401	70971815	71098964	1	None	PGMRP
HG962_PATCH	PGM5	ENSG00000266607	ENST00000582917	protein_coding	NOVEL	None	8908	616	204	70972146	71006617	1	None	PGMRP
HG962_PATCH	PGM5	ENSG00000266607	ENST00000579500	processed_transcript	KNOWN	None	8908	None	None	71007313	71044320	1	None	PGMRP
HG962_PATCH	PGM5	ENSG00000266607	ENST00000580217	processed_transcript	KNOWN	None	8908	None	None	71079437	71114201	1	None	PGMRP
8	None	ENSG00000253657	ENST00000520765	processed_pseudogene	KNOWN	None	None	None	None	109584872	109585403	1	None	None
14	SLC10A1	ENSG00000100652	ENST00000216540	protein_coding	KNOWN	CCDS9797	10905	1050	349	70242134	70264006	-1	None	NTCP
17	NOS2P3	ENSG00000230528	ENST00000458685	processed_transcript	KNOWN	None	35124	None	None	20339650	20350557	1	None	None
17	NOS2P3	ENSG00000230528	ENST00000411468	transcribed_unprocessed_pseudogene	KNOWN	None	35124	None	None	20344340	20350085	1	None	None
7	None	ENSG00000234658	ENST00000456604	processed_pseudogene	KNOWN	None	None	None	None	138330416	138331193	-1	None	None
1	PLA2G5	ENSG00000127472	ENST00000486277	processed_transcript	KNOWN	None	9038	None	None	20354672	20417683	1	None	None
1	PLA2G5	ENSG00000127472	ENST00000465698	processed_transcript	KNOWN	None	9038	None	None	20354923	20417651	1	None	None
1	PLA2G5	ENSG00000127472	ENST00000460175	processed_transcript	KNOWN	None	9038	None	None	20354927	20412720	1	None	None
1	PLA2G5	ENSG00000127472	ENST00000469069	processed_transcript	KNOWN	None	9038	None	None	20355019	20416388	1	None	None
1	PLA2G5	ENSG00000127472	ENST00000489871	processed_transcript	KNOWN	None	9038	None	None	20355019	20417273	1	None	None
1	PLA2G5	ENSG00000127472	ENST00000498348	processed_transcript	KNOWN	None	9038	None	None	20355064	20396907	1	None	None
1	PLA2G5	ENSG00000127472	ENST00000375108	protein_coding	KNOWN	CCDS202	9038	417	138	20396701	20417661	1	None	None
1	PLA2G5	ENSG00000127472	ENST00000478803	processed_transcript	KNOWN	None	9038	None	None	20396788	20417321	1	None	None
8	TDH	ENSG00000154316	ENST00000525246	processed_transcript	KNOWN	None	15547	None	None	11197146	11225961	1	None	FLJ25033, SDR14E1P
8	TDH	ENSG00000154316	ENST00000534302	processed_transcript	KNOWN	None	15547	None	None	11205154	11223597	1	None	FLJ25033, SDR14E1P
8	TDH	ENSG00000154316	ENST00000531764	unitary_pseudogene	KNOWN	None	15547	None	None	11213629	11222312	1	None	FLJ25033, SDR14E1P
8	TDH	ENSG00000154316	ENST00000525664	processed_transcript	KNOWN	None	15547	None	None	11213629	11223231	1	None	FLJ25033, SDR14E1P
8	TDH	ENSG00000154316	ENST00000326605	unitary_pseudogene	KNOWN	None	15547	None	None	11197187	11223597	1	None	FLJ25033, SDR14E1P
10	EMX2OS	ENSG00000229847	ENST00000412075	antisense	KNOWN	None	18511	None	None	119232726	119236135	-1	None	NCRNA00045, EMX2-AS1
10	EMX2OS	ENSG00000229847	ENST00000450314	antisense	KNOWN	None	18511	None	None	119232730	119301830	-1	None	NCRNA00045, EMX2-AS1
10	EMX2OS	ENSG00000229847	ENST00000424371	antisense	KNOWN	None	18511	None	None	119232748	119245739	-1	None	NCRNA00045, EMX2-AS1
10	EMX2OS	ENSG00000229847	ENST00000551288	antisense	KNOWN	None	18511	None	None	119249162	119304579	-1	None	NCRNA00045, EMX2-AS1
10	EMX2OS	ENSG00000229847	ENST00000440007	antisense	KNOWN	None	18511	None	None	119249996	119301845	-1	None	NCRNA00045, EMX2-AS1
10	EMX2OS	ENSG00000229847	ENST00000423419	antisense	KNOWN	None	18511	None	None	119250160	119254199	-1	None	NCRNA00045, EMX2-AS1
2	None	ENSG00000227661	ENST00000440206	unprocessed_pseudogene	KNOWN	None	None	None	None	132137726	132138486	-1	None	None
8	None	ENSG00000253949	ENST00000521504	lincRNA	KNOWN	None	None	None	None	109593291	109638996	1	None	None
17	NEK8	ENSG00000160602	ENST00000579671	protein_coding	PUTATIVE	None	13387	497	164	27052915	27062385	1	None	NPHP9
17	NEK8	ENSG00000160602	ENST00000584342	retained_intron	KNOWN	None	13387	None	None	27052938	27062327	1	None	NPHP9
17	NEK8	ENSG00000160602	ENST00000579060	protein_coding	PUTATIVE	None	13387	501	166	27052946	27062389	1	None	NPHP9
17	NEK8	ENSG00000160602	ENST00000268766	protein_coding	KNOWN	CCDS32597	13387	2079	692	27055798	27070473	1	None	NPHP9
17	NEK8	ENSG00000160602	ENST00000543014	nonsense_mediated_decay	KNOWN	None	13387	1383	460	27055822	27069447	1	None	NPHP9
17	NEK8	ENSG00000160602	ENST00000581000	retained_intron	KNOWN	None	13387	None	None	27055832	27061543	1	None	NPHP9
17	NEK8	ENSG00000160602	ENST00000593261	processed_transcript	KNOWN	None	13387	None	None	27055834	27062370	1	None	NPHP9
17	NEK8	ENSG00000160602	ENST00000592510	protein_coding	NOVEL	None	13387	782	259	27062296	27065263	1	None	NPHP9
12	None	ENSG00000212694	ENST00000542933	lincRNA	KNOWN	None	None	None	None	122233173	122240816	-1	None	None
12	None	ENSG00000212694	ENST00000429892	lincRNA	KNOWN	None	None	None	None	122233173	122241390	-1	None	None
12	None	ENSG00000212694	ENST00000537157	lincRNA	KNOWN	None	None	None	None	122233476	122238913	-1	None	None
12	None	ENSG00000212694	ENST00000428029	lincRNA	KNOWN	None	None	None	None	122233546	122240839	-1	None	None
12	None	ENSG00000212694	ENST00000541694	lincRNA	KNOWN	None	None	None	None	122233799	122240849	-1	None	None
12	None	ENSG00000212694	ENST00000543167	lincRNA	KNOWN	None	None	None	None	122233896	122240308	-1	None	None
12	None	ENSG00000212694	ENST00000535643	lincRNA	KNOWN	None	None	None	None	122237078	122240852	-1	None	None
12	None	ENSG00000212694	ENST00000543334	lincRNA	KNOWN	None	None	None	None	122237290	122240510	-1	None	None
12	None	ENSG00000212694	ENST00000535614	lincRNA	KNOWN	None	None	None	None	122237337	122239348	-1	None	None
12	None	ENSG00000212694	ENST00000536662	lincRNA	KNOWN	None	None	None	None	122237459	122240851	-1	None	None
12	None	ENSG00000212694	ENST00000545885	lincRNA	KNOWN	None	None	None	None	122237662	122240792	-1	None	None
12	None	ENSG00000212694	ENST00000538335	lincRNA	KNOWN	None	None	None	None	122237755	122241812	-1	None	None
12	None	ENSG00000212694	ENST00000539299	lincRNA	KNOWN	None	None	None	None	122233183	122234785	-1	None	None
18	None	ENSG00000266968	ENST00000590535	sense_intronic	KNOWN	None	None	None	None	43226118	43227895	1	None	None
2	SLC20A1	ENSG00000144136	ENST00000272542	protein_coding	KNOWN	CCDS2099	10946	2040	679	113403434	113421404	1	GLVR1	PiT-1, Glvr-1
2	SLC20A1	ENSG00000144136	ENST00000423633	protein_coding	PUTATIVE	None	10946	269	88	113405024	113410932	1	GLVR1	PiT-1, Glvr-1
2	SLC20A1	ENSG00000144136	ENST00000498224	retained_intron	KNOWN	None	10946	None	None	113405200	113416869	1	GLVR1	PiT-1, Glvr-1
2	SLC20A1	ENSG00000144136	ENST00000433924	protein_coding	NOVEL	None	10946	638	211	113405279	113417020	1	GLVR1	PiT-1, Glvr-1
2	SLC20A1	ENSG00000144136	ENST00000456264	nonsense_mediated_decay	KNOWN	None	10946	296	97	113405281	113416664	1	GLVR1	PiT-1, Glvr-1
2	SLC20A1	ENSG00000144136	ENST00000413135	nonsense_mediated_decay	KNOWN	None	10946	348	115	113405295	113417005	1	GLVR1	PiT-1, Glvr-1
2	SLC20A1	ENSG00000144136	ENST00000480984	processed_transcript	KNOWN	None	10946	None	None	113409523	113416904	1	GLVR1	PiT-1, Glvr-1
2	SLC20A1	ENSG00000144136	ENST00000492076	retained_intron	KNOWN	None	10946	None	None	113409847	113410549	1	GLVR1	PiT-1, Glvr-1
2	SLC20A1	ENSG00000144136	ENST00000490674	retained_intron	KNOWN	None	10946	None	None	113415940	113421402	1	GLVR1	PiT-1, Glvr-1
15	DNM1P38	ENSG00000259567	ENST00000448059	unprocessed_pseudogene	KNOWN	None	35188	None	None	82816060	82818549	-1	DNM1DN10@	DNM1DN10-2
11	HMGN2P36	ENSG00000228901	ENST00000529541	processed_pseudogene	KNOWN	None	39407	None	None	13631910	13632318	-1	None	None
3	OR5AC1	ENSG00000213439	ENST00000429239	polymorphic_pseudogene	KNOWN	None	15047	925	307	97783316	97784240	1	OR5AC1P	None
18	None	ENSG00000267193	ENST00000589510	antisense	KNOWN	None	None	None	None	43249332	43321092	-1	None	None
18	None	ENSG00000267193	ENST00000586213	antisense	KNOWN	None	None	None	None	43311293	43327180	-1	None	None
11	FAR1-IT1	ENSG00000254791	ENST00000525233	sense_intronic	KNOWN	None	41485	None	None	13690874	13691696	1	None	None
10	None	ENSG00000201393	ENST00000364523	snoRNA	NOVEL	None	None	None	None	80127264	80127380	1	None	None
8	None	ENSG00000253580	ENST00000519377	processed_pseudogene	KNOWN	None	None	None	None	109664602	109665544	1	None	None
3	OR5AC2	ENSG00000196578	ENST00000358642	protein_coding	KNOWN	CCDS33796	15431	930	309	97806017	97806946	1	None	HSA1
10	None	ENSG00000228683	ENST00000455498	lincRNA	KNOWN	None	None	None	None	80455819	80456779	-1	None	None
17	LEPREL4	ENSG00000141696	ENST00000355468	protein_coding	KNOWN	CCDS11408	16946	1314	437	39958199	39968855	-1	None	SC65, NO55
17	LEPREL4	ENSG00000141696	ENST00000484247	retained_intron	KNOWN	None	16946	None	None	39958206	39963742	-1	None	SC65, NO55
17	LEPREL4	ENSG00000141696	ENST00000465097	nonsense_mediated_decay	KNOWN	None	16946	221	72	39958572	39963100	-1	None	SC65, NO55
17	LEPREL4	ENSG00000141696	ENST00000592026	protein_coding	NOVEL	None	16946	662	219	39963048	39967812	-1	None	SC65, NO55
17	LEPREL4	ENSG00000141696	ENST00000587455	retained_intron	KNOWN	None	16946	None	None	39963077	39967412	-1	None	SC65, NO55
17	LEPREL4	ENSG00000141696	ENST00000467164	retained_intron	KNOWN	None	16946	None	None	39966933	39967921	-1	None	SC65, NO55
17	LEPREL4	ENSG00000141696	ENST00000590496	protein_coding	KNOWN	None	16946	255	84	39967913	39968856	-1	None	SC65, NO55
17	LEPREL4	ENSG00000141696	ENST00000393928	protein_coding	KNOWN	CCDS11408	16946	1314	437	39958206	39968451	-1	None	SC65, NO55
7	None	ENSG00000243099	ENST00000417063	processed_pseudogene	KNOWN	None	None	None	None	138373725	138374267	1	None	None
X	AFF2-IT1	ENSG00000223516	ENST00000435346	sense_intronic	KNOWN	None	41334	None	None	147628399	147628918	1	None	None
18	None	ENSG00000267558	ENST00000587507	processed_pseudogene	KNOWN	None	None	None	None	43368495	43368632	1	None	None
10	None	ENSG00000223243	ENST00000411311	miRNA	NOVEL	None	None	None	None	80510359	80510454	1	None	None
18	RN7SKP26	ENSG00000222179	ENST00000410247	misc_RNA	KNOWN	None	45750	None	None	43569619	43569911	-1	None	None
19	None	ENSG00000267545	ENST00000593083	nonsense_mediated_decay	KNOWN	None	None	84	27	45683080	45705702	1	None	None
12	None	ENSG00000197301	ENST00000439236	protein_coding	PUTATIVE	None	None	450	149	66245120	66275947	-1	None	None
12	None	ENSG00000197301	ENST00000356215	protein_coding	NOVEL	None	None	483	160	66249727	66275821	-1	None	None
12	None	ENSG00000197301	ENST00000536648	protein_coding	PUTATIVE	None	None	100	32	66260584	66275358	-1	None	None
12	None	ENSG00000197301	ENST00000504038	processed_transcript	KNOWN	None	None	None	None	66267592	66275358	-1	None	None
16	NPRL3	ENSG00000103148	ENST00000463178	retained_intron	KNOWN	None	14124	None	None	134273	141084	-1	C16orf35	CGTHBA, RMD11, NPR3, MARE, HS-40
16	NPRL3	ENSG00000103148	ENST00000445810	nonsense_mediated_decay	KNOWN	None	14124	234	77	135385	188348	-1	C16orf35	CGTHBA, RMD11, NPR3, MARE, HS-40
16	NPRL3	ENSG00000103148	ENST00000428323	processed_transcript	KNOWN	None	14124	None	None	135800	188511	-1	C16orf35	CGTHBA, RMD11, NPR3, MARE, HS-40
16	NPRL3	ENSG00000103148	ENST00000399957	nonsense_mediated_decay	KNOWN	None	14124	210	69	135800	188669	-1	C16orf35	CGTHBA, RMD11, NPR3, MARE, HS-40
16	NPRL3	ENSG00000103148	ENST00000405960	processed_transcript	KNOWN	None	14124	None	None	135819	188859	-1	C16orf35	CGTHBA, RMD11, NPR3, MARE, HS-40
16	NPRL3	ENSG00000103148	ENST00000464069	processed_transcript	KNOWN	None	14124	None	None	142789	148158	-1	C16orf35	CGTHBA, RMD11, NPR3, MARE, HS-40
16	NPRL3	ENSG00000103148	ENST00000473674	processed_transcript	KNOWN	None	14124	None	None	143257	169404	-1	C16orf35	CGTHBA, RMD11, NPR3, MARE, HS-40
16	NPRL3	ENSG00000103148	ENST00000483663	nonsense_mediated_decay	KNOWN	None	14124	189	62	148143	188344	-1	C16orf35	CGTHBA, RMD11, NPR3, MARE, HS-40
16	NPRL3	ENSG00000103148	ENST00000457916	nonsense_mediated_decay	KNOWN	None	14124	177	58	148143	188360	-1	C16orf35	CGTHBA, RMD11, NPR3, MARE, HS-40
16	NPRL3	ENSG00000103148	ENST00000422814	nonsense_mediated_decay	KNOWN	None	14124	210	69	148210	188360	-1	C16orf35	CGTHBA, RMD11, NPR3, MARE, HS-40
16	NPRL3	ENSG00000103148	ENST00000468260	processed_transcript	KNOWN	None	14124	None	None	148228	188665	-1	C16orf35	CGTHBA, RMD11, NPR3, MARE, HS-40
16	NPRL3	ENSG00000103148	ENST00000456528	nonsense_mediated_decay	KNOWN	None	14124	261	86	160523	188676	-1	C16orf35	CGTHBA, RMD11, NPR3, MARE, HS-40
16	NPRL3	ENSG00000103148	ENST00000419636	protein_coding	NOVEL	None	14124	548	181	162659	188334	-1	C16orf35	CGTHBA, RMD11, NPR3, MARE, HS-40
16	NPRL3	ENSG00000103148	ENST00000399953	protein_coding	KNOWN	None	14124	1707	568	135806	188669	-1	C16orf35	CGTHBA, RMD11, NPR3, MARE, HS-40
16	NPRL3	ENSG00000103148	ENST00000399951	protein_coding	KNOWN	None	14124	1170	389	135806	188610	-1	C16orf35	CGTHBA, RMD11, NPR3, MARE, HS-40
11	RPL39P26	ENSG00000240454	ENST00000481845	processed_pseudogene	KNOWN	None	35900	None	None	13707046	13707203	-1	None	None
15	None	ENSG00000259613	ENST00000560758	unprocessed_pseudogene	KNOWN	None	None	None	None	82829005	82829110	-1	None	None
8	None	ENSG00000254095	ENST00000524017	lincRNA	KNOWN	None	None	None	None	31196713	31201945	1	None	None
8	None	ENSG00000254095	ENST00000522611	retained_intron	KNOWN	None	None	None	None	31201188	31202149	1	None	None
8	None	ENSG00000254095	ENST00000505166	lincRNA	KNOWN	None	None	None	None	31201211	31203995	1	None	None
18	None	ENSG00000267293	ENST00000591191	processed_pseudogene	KNOWN	None	None	None	None	43608272	43609795	1	None	None
15	None	ENSG00000259577	ENST00000559779	lincRNA	KNOWN	None	None	None	None	52472290	52497531	1	None	None
15	None	ENSG00000259577	ENST00000560518	lincRNA	KNOWN	None	None	None	None	52472414	52498071	1	None	None
2	MTATP6P4	ENSG00000236590	ENST00000427725	unprocessed_pseudogene	KNOWN	None	44578	None	None	132138489	132139163	-1	None	None
10	ZMIZ1-AS1	ENSG00000224596	ENST00000428862	antisense	KNOWN	None	27433	None	None	80703085	80722151	-1	None	None
10	ZMIZ1-AS1	ENSG00000224596	ENST00000456353	antisense	KNOWN	None	27433	None	None	80703085	80827652	-1	None	None
10	ZMIZ1-AS1	ENSG00000224596	ENST00000440151	antisense	KNOWN	None	27433	None	None	80803905	80827225	-1	None	None
10	None	ENSG00000235198	ENST00000450247	lincRNA	KNOWN	None	None	None	None	119321595	119331968	-1	None	None
18	None	ENSG00000252034	ENST00000516225	misc_RNA	NOVEL	None	None	None	None	43656970	43657065	-1	None	None
7	UQCRFS1P2	ENSG00000223721	ENST00000426701	processed_pseudogene	KNOWN	None	39172	None	None	138386352	138387807	1	None	None
17	None	ENSG00000229586	ENST00000436471	processed_pseudogene	KNOWN	None	None	None	None	20384643	20387304	-1	None	None
2	None	ENSG00000234480	ENST00000457151	unprocessed_pseudogene	KNOWN	None	None	None	None	132139413	132140070	-1	None	None
19	ZNF92P2	ENSG00000269505	ENST00000600543	processed_pseudogene	KNOWN	None	39554	None	None	22311429	22314736	-1	None	None
18	RNU6-1278P	ENSG00000251939	ENST00000516130	snRNA	KNOWN	None	48241	None	None	43701581	43701687	-1	None	None
19	None	ENSG00000268116	ENST00000597113	processed_pseudogene	KNOWN	None	None	None	None	22313127	22313291	1	None	None
18	None	ENSG00000240983	ENST00000490739	processed_pseudogene	KNOWN	None	None	None	None	44302938	44303186	1	None	None
HSCHR6_MHC_COX	TNF	ENSG00000204490	ENST00000376122	protein_coding	KNOWN	None	11892	702	233	31530756	31533525	1	TNFA	TNFSF2, DIF, TNF-alpha
14	None	ENSG00000259093	ENST00000554921	lincRNA	KNOWN	None	None	None	None	63589751	63594932	-1	None	None
10	None	ENSG00000234952	ENST00000445647	lincRNA	KNOWN	None	None	None	None	119494824	119495918	1	None	None
19	PCGF7P	ENSG00000268140	ENST00000595406	processed_pseudogene	KNOWN	None	30341	None	None	22320733	22321783	1	RNF134P1	None
11	None	ENSG00000200685	ENST00000363815	misc_RNA	NOVEL	None	None	None	None	13708097	13708205	-1	None	None
18	None	ENSG00000270112	ENST00000602329	antisense	KNOWN	None	None	None	None	44336450	44337039	1	None	None
18	None	ENSG00000270112	ENST00000602333	antisense	KNOWN	None	None	None	None	44336896	44340307	1	None	None
19	None	ENSG00000269575	ENST00000598980	processed_pseudogene	KNOWN	None	None	None	None	22323334	22323919	1	None	None
19	VN1R85P	ENSG00000269345	ENST00000601587	unprocessed_pseudogene	KNOWN	None	37405	None	None	22357568	22357993	-1	None	None
5	TTC33	ENSG00000113638	ENST00000337702	protein_coding	KNOWN	CCDS3931	29959	789	262	40714577	40756077	-1	None	OSRF
5	TTC33	ENSG00000113638	ENST00000503936	processed_transcript	KNOWN	None	29959	None	None	40715238	40756047	-1	None	OSRF
5	TTC33	ENSG00000113638	ENST00000504251	processed_transcript	KNOWN	None	29959	None	None	40716046	40756062	-1	None	OSRF
5	TTC33	ENSG00000113638	ENST00000511730	processed_transcript	KNOWN	None	29959	None	None	40716247	40756051	-1	None	OSRF
2	None	ENSG00000237910	ENST00000455518	unprocessed_pseudogene	KNOWN	None	None	None	None	132140216	132141634	-1	None	None
X	RN7SKP267	ENSG00000222313	ENST00000410381	misc_RNA	KNOWN	None	45991	None	None	147903688	147903972	-1	None	None
19	None	ENSG00000268079	ENST00000601184	processed_pseudogene	KNOWN	None	None	None	None	22385930	22386805	1	None	None
14	None	ENSG00000265711	ENST00000578959	miRNA	NOVEL	None	None	None	None	63699433	63699530	-1	None	None
HG79_PATCH	None	ENSG00000262937	ENST00000570540	misc_RNA	NOVEL	None	None	None	None	136178005	136178098	1	None	None
19	None	ENSG00000267872	ENST00000599810	lincRNA	KNOWN	None	None	None	None	22426056	22428149	-1	None	None
8	LINC00968	ENSG00000246430	ENST00000519144	lincRNA	KNOWN	None	48727	None	None	57408805	57472145	-1	None	None
8	LINC00968	ENSG00000246430	ENST00000499425	lincRNA	KNOWN	None	48727	None	None	57430880	57472230	-1	None	None
8	LINC00968	ENSG00000246430	ENST00000523786	lincRNA	KNOWN	None	48727	None	None	57432678	57472056	-1	None	None
8	LINC00968	ENSG00000246430	ENST00000521483	lincRNA	KNOWN	None	48727	None	None	57432718	57472056	-1	None	None
8	LINC00968	ENSG00000246430	ENST00000523664	lincRNA	KNOWN	None	48727	None	None	57432874	57472243	-1	None	None
8	LINC00968	ENSG00000246430	ENST00000524338	lincRNA	KNOWN	None	48727	None	None	57432937	57472382	-1	None	None
8	LINC00968	ENSG00000246430	ENST00000518943	lincRNA	KNOWN	None	48727	None	None	57432946	57472352	-1	None	None
14	None	ENSG00000258943	ENST00000557475	lincRNA	KNOWN	None	None	None	None	63764844	63766265	-1	None	None
18	None	ENSG00000267167	ENST00000586478	lincRNA	KNOWN	None	None	None	None	44383187	44383857	-1	None	None
19	None	ENSG00000268597	ENST00000601905	lincRNA	KNOWN	None	None	None	None	22442495	22444137	1	None	None
6	KDM1B	ENSG00000165097	ENST00000546309	protein_coding	PUTATIVE	None	21577	342	113	18155560	18222274	1	C6orf193, AOF1	FLJ34109, FLJ33898, dJ298J15.2, bA204B7.3, FLJ43328, LSD2
6	KDM1B	ENSG00000165097	ENST00000297792	protein_coding	KNOWN	CCDS34343	21577	1773	590	18155683	18224084	1	C6orf193, AOF1	FLJ34109, FLJ33898, dJ298J15.2, bA204B7.3, FLJ43328, LSD2
6	KDM1B	ENSG00000165097	ENST00000449850	protein_coding	KNOWN	None	21577	1922	639	18186019	18222346	1	C6orf193, AOF1	FLJ34109, FLJ33898, dJ298J15.2, bA204B7.3, FLJ43328, LSD2
6	KDM1B	ENSG00000165097	ENST00000388870	protein_coding	KNOWN	None	21577	2472	823	18155619	18224084	1	C6orf193, AOF1	FLJ34109, FLJ33898, dJ298J15.2, bA204B7.3, FLJ43328, LSD2
6	KDM1B	ENSG00000165097	ENST00000397244	protein_coding	KNOWN	None	21577	1776	591	18155619	18224084	1	C6orf193, AOF1	FLJ34109, FLJ33898, dJ298J15.2, bA204B7.3, FLJ43328, LSD2
2	C2orf68	ENSG00000168887	ENST00000306336	protein_coding	KNOWN	CCDS42704	34353	501	166	85833777	85839152	-1	None	None
2	C2orf68	ENSG00000168887	ENST00000420686	nonsense_mediated_decay	KNOWN	None	34353	128	41	85835407	85839058	-1	None	None
2	C2orf68	ENSG00000168887	ENST00000423181	nonsense_mediated_decay	KNOWN	None	34353	177	58	85835690	85839189	-1	None	None
2	C2orf68	ENSG00000168887	ENST00000409734	protein_coding	KNOWN	None	34353	384	127	85837343	85839155	-1	None	None
2	C2orf68	ENSG00000168887	ENST00000478626	processed_transcript	PUTATIVE	None	34353	None	None	85838366	85838864	-1	None	None
18	None	ENSG00000267587	ENST00000587732	processed_pseudogene	KNOWN	None	None	None	None	44432595	44433845	-1	None	None
12	ERGIC2	ENSG00000087502	ENST00000360150	protein_coding	KNOWN	CCDS41765	30208	1134	377	29490285	29534086	-1	None	PTX1, Erv41
12	ERGIC2	ENSG00000087502	ENST00000549182	nonsense_mediated_decay	KNOWN	None	30208	150	49	29493790	29496215	-1	None	PTX1, Erv41
12	ERGIC2	ENSG00000087502	ENST00000548909	protein_coding	PUTATIVE	None	30208	490	162	29493951	29503001	-1	None	PTX1, Erv41
12	ERGIC2	ENSG00000087502	ENST00000551467	protein_coding	NOVEL	None	30208	629	208	29493953	29510601	-1	None	PTX1, Erv41
12	ERGIC2	ENSG00000087502	ENST00000548098	retained_intron	KNOWN	None	30208	None	None	29493966	29494798	-1	None	PTX1, Erv41
12	ERGIC2	ENSG00000087502	ENST00000546509	nonsense_mediated_decay	KNOWN	None	30208	172	56	29496178	29503001	-1	None	PTX1, Erv41
12	ERGIC2	ENSG00000087502	ENST00000552155	protein_coding	NOVEL	None	30208	609	202	29502034	29534094	-1	None	PTX1, Erv41
12	ERGIC2	ENSG00000087502	ENST00000546839	protein_coding	KNOWN	None	30208	661	219	29502078	29534083	-1	None	PTX1, Erv41
12	ERGIC2	ENSG00000087502	ENST00000550353	protein_coding	NOVEL	None	30208	518	171	29509315	29534108	-1	None	PTX1, Erv41
12	ERGIC2	ENSG00000087502	ENST00000552132	protein_coding	KNOWN	None	30208	526	174	29509361	29534122	-1	None	PTX1, Erv41
12	ERGIC2	ENSG00000087502	ENST00000548441	protein_coding	KNOWN	None	30208	215	70	29523047	29534114	-1	None	PTX1, Erv41
19	None	ENSG00000270191	ENST00000604515	processed_pseudogene	KNOWN	None	None	None	None	22481779	22482670	-1	None	None
HSCHR17_1_CTG4	None	ENSG00000262603	ENST00000576889	antisense	KNOWN	None	None	None	None	39565993	39576165	1	None	None
HSCHR17_1_CTG4	None	ENSG00000262603	ENST00000574488	antisense	KNOWN	None	None	None	None	39566000	39588626	1	None	None
X	None	ENSG00000242186	ENST00000498002	unprocessed_pseudogene	KNOWN	None	None	None	None	148138246	148138696	1	None	None
5	MIR585	ENSG00000207619	ENST00000384887	miRNA	KNOWN	None	32841	None	None	168690605	168690698	-1	MIRN585	hsa-mir-585
1	ODF2L	ENSG00000122417	ENST00000359242	protein_coding	KNOWN	CCDS41354	29225	1911	636	86814344	86861945	-1	None	KIAA1229
1	ODF2L	ENSG00000122417	ENST00000460698	protein_coding	NOVEL	None	29225	1563	520	86814420	86848879	-1	None	KIAA1229
1	ODF2L	ENSG00000122417	ENST00000370566	protein_coding	KNOWN	CCDS53339	29225	1776	591	86814421	86862023	-1	None	KIAA1229
1	ODF2L	ENSG00000122417	ENST00000462648	protein_coding	NOVEL	None	29225	461	152	86814515	86821066	-1	None	KIAA1229
1	ODF2L	ENSG00000122417	ENST00000294678	protein_coding	KNOWN	CCDS30763	29225	1863	620	86815777	86861963	-1	None	KIAA1229
1	ODF2L	ENSG00000122417	ENST00000531412	nonsense_mediated_decay	KNOWN	None	29225	164	53	86818542	86822227	-1	None	KIAA1229
1	ODF2L	ENSG00000122417	ENST00000476054	retained_intron	KNOWN	None	29225	None	None	86818585	86826495	-1	None	KIAA1229
1	ODF2L	ENSG00000122417	ENST00000473792	retained_intron	KNOWN	None	29225	None	None	86818603	86821000	-1	None	KIAA1229
1	ODF2L	ENSG00000122417	ENST00000524695	processed_transcript	KNOWN	None	29225	None	None	86822145	86840683	-1	None	KIAA1229
1	ODF2L	ENSG00000122417	ENST00000472144	retained_intron	KNOWN	None	29225	None	None	86822259	86826604	-1	None	KIAA1229
1	ODF2L	ENSG00000122417	ENST00000463933	processed_transcript	KNOWN	None	29225	None	None	86823623	86826219	-1	None	KIAA1229
1	ODF2L	ENSG00000122417	ENST00000534092	retained_intron	KNOWN	None	29225	None	None	86824027	86836739	-1	None	KIAA1229
1	ODF2L	ENSG00000122417	ENST00000496592	retained_intron	KNOWN	None	29225	None	None	86824470	86848762	-1	None	KIAA1229
1	ODF2L	ENSG00000122417	ENST00000488879	nonsense_mediated_decay	KNOWN	None	29225	132	43	86824500	86861969	-1	None	KIAA1229
1	ODF2L	ENSG00000122417	ENST00000479890	protein_coding	PUTATIVE	None	29225	730	242	86824502	86861966	-1	None	KIAA1229
1	ODF2L	ENSG00000122417	ENST00000486557	retained_intron	KNOWN	None	29225	None	None	86826115	86838264	-1	None	KIAA1229
1	ODF2L	ENSG00000122417	ENST00000472368	retained_intron	KNOWN	None	29225	None	None	86836739	86848787	-1	None	KIAA1229
1	ODF2L	ENSG00000122417	ENST00000480440	retained_intron	KNOWN	None	29225	None	None	86847625	86851227	-1	None	KIAA1229
1	ODF2L	ENSG00000122417	ENST00000394733	protein_coding	PUTATIVE	None	29225	147	48	86848009	86861936	-1	None	KIAA1229
1	ODF2L	ENSG00000122417	ENST00000478286	protein_coding	PUTATIVE	None	29225	183	60	86851411	86862006	-1	None	KIAA1229
1	ODF2L	ENSG00000122417	ENST00000486215	protein_coding	PUTATIVE	None	29225	183	60	86852492	86861660	-1	None	KIAA1229
1	ODF2L	ENSG00000122417	ENST00000317336	protein_coding	KNOWN	None	29225	2022	673	86814421	86862003	-1	None	KIAA1229
1	ODF2L	ENSG00000122417	ENST00000370567	protein_coding	KNOWN	None	29225	1935	644	86814421	86862003	-1	None	KIAA1229
1	ODF2L	ENSG00000122417	ENST00000394731	protein_coding	KNOWN	None	29225	1542	513	86814421	86862003	-1	None	KIAA1229
18	None	ENSG00000266957	ENST00000592747	antisense	KNOWN	None	None	None	None	44603732	44617651	-1	None	None
2	FAM49A	ENSG00000197872	ENST00000381323	protein_coding	KNOWN	CCDS1688	25373	972	323	16730727	16847102	-1	None	DKFZP566A1524, FLJ11080
2	FAM49A	ENSG00000197872	ENST00000406434	protein_coding	KNOWN	CCDS1688	25373	972	323	16734204	16847096	-1	None	DKFZP566A1524, FLJ11080
2	FAM49A	ENSG00000197872	ENST00000469507	retained_intron	KNOWN	None	25373	None	None	16741925	16742750	-1	None	DKFZP566A1524, FLJ11080
2	FAM49A	ENSG00000197872	ENST00000445605	protein_coding	KNOWN	None	25373	282	93	16745273	16847354	-1	None	DKFZP566A1524, FLJ11080
2	FAM49A	ENSG00000197872	ENST00000451689	protein_coding	KNOWN	None	25373	263	86	16745292	16847599	-1	None	DKFZP566A1524, FLJ11080
2	FAM49A	ENSG00000197872	ENST00000355549	protein_coding	KNOWN	CCDS1688	25373	972	323	16734204	16804344	-1	None	DKFZP566A1524, FLJ11080
14	GPHB5	ENSG00000179600	ENST00000539258	processed_transcript	KNOWN	None	18055	None	None	63779549	63785593	-1	None	ZLUT1, GPB5
14	GPHB5	ENSG00000179600	ENST00000314140	processed_transcript	KNOWN	None	18055	None	None	63779642	63784563	-1	None	ZLUT1, GPB5
18	None	ENSG00000267724	ENST00000591183	antisense	KNOWN	None	None	None	None	44632317	44634433	1	None	None
22	ACTR3BP6	ENSG00000226444	ENST00000422332	processed_pseudogene	KNOWN	None	38683	None	None	16967410	16968778	1	None	None
22	ACTR3BP6	ENSG00000226444	ENST00000421366	processed_pseudogene	KNOWN	None	38683	None	None	16967893	16969212	1	None	None
21	PAXBP1	ENSG00000159086	ENST00000331923	protein_coding	KNOWN	CCDS13619	13579	2754	917	34106210	34144169	-1	C21orf66, GCFC1	GCFC, fSAP105
21	PAXBP1	ENSG00000159086	ENST00000466846	retained_intron	KNOWN	None	13579	None	None	34106211	34129105	-1	C21orf66, GCFC1	GCFC, fSAP105
21	PAXBP1	ENSG00000159086	ENST00000443785	nonsense_mediated_decay	KNOWN	None	13579	1536	511	34107131	34143998	-1	C21orf66, GCFC1	GCFC, fSAP105
21	PAXBP1	ENSG00000159086	ENST00000497873	retained_intron	KNOWN	None	13579	None	None	34107137	34124435	-1	C21orf66, GCFC1	GCFC, fSAP105
21	PAXBP1	ENSG00000159086	ENST00000290178	protein_coding	PUTATIVE	CCDS33541	13579	2448	815	34113704	34143979	-1	C21orf66, GCFC1	GCFC, fSAP105
21	PAXBP1	ENSG00000159086	ENST00000445049	nonsense_mediated_decay	KNOWN	None	13579	78	25	34113730	34115579	-1	C21orf66, GCFC1	GCFC, fSAP105
21	PAXBP1	ENSG00000159086	ENST00000421049	nonsense_mediated_decay	KNOWN	None	13579	111	36	34120870	34127622	-1	C21orf66, GCFC1	GCFC, fSAP105
21	PAXBP1	ENSG00000159086	ENST00000472588	processed_transcript	KNOWN	None	13579	None	None	34128653	34143979	-1	C21orf66, GCFC1	GCFC, fSAP105
21	PAXBP1	ENSG00000159086	ENST00000464256	retained_intron	KNOWN	None	13579	None	None	34131713	34144103	-1	C21orf66, GCFC1	GCFC, fSAP105
7	SLC25A40	ENSG00000075303	ENST00000341119	protein_coding	KNOWN	CCDS5610	29680	1017	338	87462883	87505664	-1	None	MCFP
7	SLC25A40	ENSG00000075303	ENST00000446236	nonsense_mediated_decay	KNOWN	None	29680	114	37	87465425	87473179	-1	None	MCFP
7	SLC25A40	ENSG00000075303	ENST00000496348	retained_intron	KNOWN	None	29680	None	None	87465426	87471056	-1	None	MCFP
7	SLC25A40	ENSG00000075303	ENST00000429674	nonsense_mediated_decay	KNOWN	None	29680	111	36	87465483	87489913	-1	None	MCFP
7	SLC25A40	ENSG00000075303	ENST00000470328	retained_intron	KNOWN	None	29680	None	None	87465564	87471582	-1	None	MCFP
7	SLC25A40	ENSG00000075303	ENST00000483810	retained_intron	KNOWN	None	29680	None	None	87465612	87466462	-1	None	MCFP
7	SLC25A40	ENSG00000075303	ENST00000444363	nonsense_mediated_decay	KNOWN	None	29680	111	36	87483572	87505672	-1	None	MCFP
7	SLC25A40	ENSG00000075303	ENST00000491499	retained_intron	KNOWN	None	29680	None	None	87485606	87505620	-1	None	MCFP
18	None	ENSG00000267800	ENST00000588843	processed_pseudogene	KNOWN	None	None	None	None	44663389	44663661	1	None	None
2	MTND2P18	ENSG00000234939	ENST00000419962	unprocessed_pseudogene	KNOWN	None	42119	None	None	132142034	132143063	-1	None	None
18	RNU6-1131P	ENSG00000201825	ENST00000364955	snRNA	KNOWN	None	48094	None	None	44760813	44760919	-1	None	None
15	MIR1266	ENSG00000221052	ENST00000408125	miRNA	KNOWN	None	35334	None	None	52569314	52569397	-1	MIRN1266	hsa-mir-1266
20	HMGB1P1	ENSG00000124097	ENST00000522557	processed_pseudogene	KNOWN	None	4993	None	None	56063448	56064083	-1	HMG1L1, HMGB1L1	HMG1L7
11	B4GALNT4	ENSG00000182272	ENST00000530717	retained_intron	KNOWN	None	26315	None	None	369796	372807	1	None	FLJ25045, NGalNAc-T1
11	B4GALNT4	ENSG00000182272	ENST00000329962	protein_coding	KNOWN	CCDS7694	26315	3120	1039	369804	382116	1	None	FLJ25045, NGalNAc-T1
11	B4GALNT4	ENSG00000182272	ENST00000524443	retained_intron	KNOWN	None	26315	None	None	375461	376108	1	None	FLJ25045, NGalNAc-T1
11	B4GALNT4	ENSG00000182272	ENST00000526584	nonsense_mediated_decay	KNOWN	None	26315	81	26	379982	381671	1	None	FLJ25045, NGalNAc-T1
11	B4GALNT4	ENSG00000182272	ENST00000534778	nonsense_mediated_decay	KNOWN	None	26315	162	53	380292	382109	1	None	FLJ25045, NGalNAc-T1
18	None	ENSG00000267761	ENST00000598649	lincRNA	KNOWN	None	None	None	None	44812096	45101104	1	None	None
18	None	ENSG00000267761	ENST00000586905	lincRNA	KNOWN	None	None	None	None	44812096	45120914	1	None	None
18	None	ENSG00000267761	ENST00000600127	lincRNA	KNOWN	None	None	None	None	45100967	45113960	1	None	None
10	STK32C	ENSG00000165752	ENST00000462160	nonsense_mediated_decay	KNOWN	None	21332	1146	381	134020996	134062612	-1	None	PKE, MGC23665, YANK3
10	STK32C	ENSG00000165752	ENST00000368622	protein_coding	KNOWN	None	21332	1110	369	134020996	134120718	-1	None	PKE, MGC23665, YANK3
10	STK32C	ENSG00000165752	ENST00000298630	protein_coding	KNOWN	CCDS7666	21332	1461	486	134020996	134121444	-1	None	PKE, MGC23665, YANK3
10	STK32C	ENSG00000165752	ENST00000368620	protein_coding	KNOWN	None	21332	830	275	134040324	134145351	-1	None	PKE, MGC23665, YANK3
10	STK32C	ENSG00000165752	ENST00000368619	protein_coding	KNOWN	None	21332	536	177	134137541	134145335	-1	None	PKE, MGC23665, YANK3
10	STK32C	ENSG00000165752	ENST00000456004	protein_coding	KNOWN	None	21332	410	135	134143785	134145341	-1	None	PKE, MGC23665, YANK3
10	STK32C	ENSG00000165752	ENST00000368625	protein_coding	KNOWN	None	21332	1500	499	134021120	134145326	-1	None	PKE, MGC23665, YANK3
22	CHEK2P4	ENSG00000235969	ENST00000450340	unprocessed_pseudogene	KNOWN	None	43580	None	None	16984194	16990365	1	None	None
HG748_PATCH	CBX8	ENSG00000262572	ENST00000570393	protein_coding	KNOWN	None	15962	1170	389	77788214	77793198	-1	None	RC1, HPC3, PC3
HG748_PATCH	CBX8	ENSG00000262572	ENST00000575761	protein_coding	PUTATIVE	None	15962	726	241	77791131	77794413	-1	None	RC1, HPC3, PC3
HG748_PATCH	CBX8	ENSG00000262572	ENST00000570747	protein_coding	PUTATIVE	None	15962	526	174	77791286	77797615	-1	None	RC1, HPC3, PC3
HG748_PATCH	CBX8	ENSG00000262572	ENST00000575553	processed_transcript	KNOWN	None	15962	None	None	77791476	77797765	-1	None	RC1, HPC3, PC3
9	MSANTD3-TMEFF1	ENSG00000251349	ENST00000502978	protein_coding	NOVEL	None	38838	1033	343	103204553	103339918	1	C9orf30-TMEFF1	None
19	ZNF536	ENSG00000198597	ENST00000590564	processed_transcript	KNOWN	None	29025	None	None	30719197	30791576	1	None	KIAA0390
19	ZNF536	ENSG00000198597	ENST00000585628	protein_coding	KNOWN	None	29025	2849	948	30719421	31039375	1	None	KIAA0390
19	ZNF536	ENSG00000198597	ENST00000591488	protein_coding	KNOWN	None	29025	416	137	30719461	30934885	1	None	KIAA0390
19	ZNF536	ENSG00000198597	ENST00000355537	protein_coding	KNOWN	CCDS32984	29025	3903	1300	30863319	31048966	1	None	KIAA0390
19	ZNF536	ENSG00000198597	ENST00000592773	protein_coding	PUTATIVE	None	29025	283	93	31040253	31204445	1	None	KIAA0390
7	None	ENSG00000235713	ENST00000419978	unprocessed_pseudogene	KNOWN	None	None	None	None	99590020	99590673	1	None	None
1	None	ENSG00000227775	ENST00000577672	processed_transcript	PUTATIVE	None	None	None	None	1655951	1667412	1	None	None
1	None	ENSG00000227775	ENST00000417099	processed_transcript	KNOWN	None	None	None	None	1656054	1663343	1	None	None
1	None	ENSG00000227775	ENST00000424604	processed_transcript	KNOWN	None	None	None	None	1663993	1667414	1	None	None
1	None	ENSG00000227775	ENST00000418950	transcribed_processed_pseudogene	KNOWN	None	None	None	None	1667256	1668690	1	None	None
18	MIR4527	ENSG00000266582	ENST00000584505	miRNA	KNOWN	None	41633	None	None	44906867	44906936	1	None	hsa-mir-4527
2	MTND1P26	ENSG00000234576	ENST00000440488	unprocessed_pseudogene	KNOWN	None	42075	None	None	132143273	132143810	-1	None	None
1	PLA2G2D	ENSG00000117215	ENST00000375105	protein_coding	KNOWN	CCDS203	9033	438	145	20438432	20446050	-1	None	sPLA2S
HG79_PATCH	LCN1P2	ENSG00000261016	ENST00000562378	unprocessed_pseudogene	KNOWN	None	23680	None	None	136193329	136194004	1	LCN1L2	bA244N20.11
18	None	ENSG00000261307	ENST00000565127	lincRNA	KNOWN	None	None	None	None	45027543	45084754	1	None	None
12	TMEM194A	ENSG00000166881	ENST00000379391	protein_coding	KNOWN	CCDS31841	29001	1116	371	57449426	57472546	-1	TMEM194	KIAA0286
12	TMEM194A	ENSG00000166881	ENST00000300128	protein_coding	KNOWN	CCDS44927	29001	1335	444	57449431	57472552	-1	TMEM194	KIAA0286
12	TMEM194A	ENSG00000166881	ENST00000554340	nonsense_mediated_decay	KNOWN	None	29001	333	110	57453373	57472546	-1	TMEM194	KIAA0286
12	TMEM194A	ENSG00000166881	ENST00000553654	processed_transcript	PUTATIVE	None	29001	None	None	57464457	57481846	-1	TMEM194	KIAA0286
13	PPP1R2P4	ENSG00000241353	ENST00000424051	processed_pseudogene	KNOWN	None	16319	None	None	47011529	47012123	-1	None	None
13	PPP1R2P4	ENSG00000241353	ENST00000535073	processed_pseudogene	KNOWN	None	16319	None	None	46917102	47012325	-1	None	None
15	EEF1B2P1	ENSG00000231169	ENST00000567221	processed_pseudogene	KNOWN	None	3207	None	None	52797388	52798059	1	EEF1B1	None
15	EEF1B2P1	ENSG00000231169	ENST00000443885	processed_pseudogene	KNOWN	None	3207	None	None	52797386	52798060	1	EEF1B1	None
2	DNAJB1P1	ENSG00000213946	ENST00000429417	processed_pseudogene	KNOWN	None	24988	None	None	192745908	192746931	-1	DNAJB1P	psiHSP40
X	None	ENSG00000264702	ENST00000410358	miRNA	NOVEL	None	None	None	None	148393763	148393845	1	None	None
18	TPMTP1	ENSG00000267156	ENST00000592307	processed_pseudogene	KNOWN	None	17490	None	None	45156483	45157219	1	None	None
8	None	ENSG00000253275	ENST00000520391	lincRNA	KNOWN	None	None	None	None	31354939	31356128	1	None	None
18	None	ENSG00000267187	ENST00000586404	processed_pseudogene	KNOWN	None	None	None	None	45229546	45230116	1	None	None
14	None	ENSG00000257307	ENST00000550416	processed_pseudogene	KNOWN	None	None	None	None	36350207	36350915	1	None	None
15	None	ENSG00000212511	ENST00000391209	snoRNA	NOVEL	None	None	None	None	37144841	37145059	1	None	None
2	None	ENSG00000229395	ENST00000414394	lincRNA	KNOWN	None	None	None	None	193494645	193510432	1	None	None
11	MS4A1	ENSG00000156738	ENST00000524807	protein_coding	KNOWN	None	7315	22	6	60223225	60229869	1	CD20	B1, Bp35, MS4A2
11	MS4A1	ENSG00000156738	ENST00000532491	protein_coding	KNOWN	None	7315	19	5	60223319	60229866	1	CD20	B1, Bp35, MS4A2
11	MS4A1	ENSG00000156738	ENST00000527101	processed_transcript	KNOWN	None	7315	None	None	60223320	60231278	1	CD20	B1, Bp35, MS4A2
11	MS4A1	ENSG00000156738	ENST00000532073	protein_coding	KNOWN	None	7315	855	284	60223320	60237531	1	CD20	B1, Bp35, MS4A2
11	MS4A1	ENSG00000156738	ENST00000534668	protein_coding	KNOWN	CCDS31570	7315	894	297	60223320	60238233	1	CD20	B1, Bp35, MS4A2
11	MS4A1	ENSG00000156738	ENST00000528313	protein_coding	NOVEL	None	7315	393	130	60223324	60236365	1	CD20	B1, Bp35, MS4A2
11	MS4A1	ENSG00000156738	ENST00000534503	processed_transcript	KNOWN	None	7315	None	None	60223332	60231785	1	CD20	B1, Bp35, MS4A2
11	MS4A1	ENSG00000156738	ENST00000533306	protein_coding	PUTATIVE	None	7315	369	122	60223332	60233417	1	CD20	B1, Bp35, MS4A2
11	MS4A1	ENSG00000156738	ENST00000532418	retained_intron	KNOWN	None	7315	None	None	60233233	60235804	1	CD20	B1, Bp35, MS4A2
11	MS4A1	ENSG00000156738	ENST00000530482	retained_intron	KNOWN	None	7315	None	None	60234070	60235742	1	CD20	B1, Bp35, MS4A2
11	MS4A1	ENSG00000156738	ENST00000345732	protein_coding	KNOWN	CCDS31570	7315	894	297	60223282	60238225	1	CD20	B1, Bp35, MS4A2
11	MS4A1	ENSG00000156738	ENST00000389939	protein_coding	KNOWN	CCDS31570	7315	894	297	60229654	60238225	1	CD20	B1, Bp35, MS4A2
18	None	ENSG00000267541	ENST00000591258	processed_pseudogene	KNOWN	None	None	None	None	45379604	45379828	-1	None	None
X	RNU7-98P	ENSG00000251797	ENST00000515988	snRNA	KNOWN	None	45632	None	None	148412432	148412492	1	None	None
15	SNORD115-44	ENSG00000202261	ENST00000365391	snoRNA	KNOWN	None	33063	None	None	25496006	25496087	1	None	HBII-52-44
7	MIR25	ENSG00000207547	ENST00000384816	miRNA	KNOWN	None	31609	None	None	99691183	99691266	-1	MIRN25	hsa-mir-25
22	FAM83F	ENSG00000133477	ENST00000333407	protein_coding	KNOWN	CCDS14000	25148	1503	500	40390953	40426043	1	None	None
22	FAM83F	ENSG00000133477	ENST00000488874	processed_transcript	KNOWN	None	25148	None	None	40391366	40395129	1	None	None
22	FAM83F	ENSG00000133477	ENST00000473717	processed_transcript	KNOWN	None	25148	None	None	40405692	40426035	1	None	None
10	FRMD4A	ENSG00000151474	ENST00000357447	protein_coding	KNOWN	CCDS7101	25491	3120	1039	13685712	14372883	-1	FRMD4	FLJ10210, KIAA1294, bA295P9.4
10	FRMD4A	ENSG00000151474	ENST00000475325	processed_transcript	KNOWN	None	25491	None	None	13688272	13696526	-1	FRMD4	FLJ10210, KIAA1294, bA295P9.4
10	FRMD4A	ENSG00000151474	ENST00000495956	processed_transcript	KNOWN	None	25491	None	None	13688334	13699123	-1	FRMD4	FLJ10210, KIAA1294, bA295P9.4
10	FRMD4A	ENSG00000151474	ENST00000264546	protein_coding	KNOWN	None	25491	1575	524	13708224	14014369	-1	FRMD4	FLJ10210, KIAA1294, bA295P9.4
10	FRMD4A	ENSG00000151474	ENST00000492155	processed_transcript	KNOWN	None	25491	None	None	13734169	13749757	-1	FRMD4	FLJ10210, KIAA1294, bA295P9.4
10	FRMD4A	ENSG00000151474	ENST00000342409	protein_coding	KNOWN	None	25491	1353	450	13735703	14050532	-1	FRMD4	FLJ10210, KIAA1294, bA295P9.4
10	FRMD4A	ENSG00000151474	ENST00000477221	processed_transcript	KNOWN	None	25491	None	None	13735983	13749567	-1	FRMD4	FLJ10210, KIAA1294, bA295P9.4
10	FRMD4A	ENSG00000151474	ENST00000493380	protein_coding	PUTATIVE	None	25491	162	53	14124946	14504093	-1	FRMD4	FLJ10210, KIAA1294, bA295P9.4
10	FRMD4A	ENSG00000151474	ENST00000475141	protein_coding	PUTATIVE	None	25491	219	72	14368174	14504141	-1	FRMD4	FLJ10210, KIAA1294, bA295P9.4
10	FRMD4A	ENSG00000151474	ENST00000378503	protein_coding	KNOWN	CCDS7101	25491	3120	1039	13693905	14372101	-1	FRMD4	FLJ10210, KIAA1294, bA295P9.4
10	FRMD4A	ENSG00000151474	ENST00000358621	protein_coding	KNOWN	None	25491	3075	1024	13685706	13900912	-1	FRMD4	FLJ10210, KIAA1294, bA295P9.4
20	None	ENSG00000227297	ENST00000424850	lincRNA	KNOWN	None	None	None	None	56174751	56176256	-1	None	None
18	None	ENSG00000269365	ENST00000599498	sense_intronic	KNOWN	None	None	None	None	45404666	45408815	-1	None	None
20	ZNF831	ENSG00000124203	ENST00000371030	protein_coding	NOVEL	CCDS42894	16167	5034	1677	57766075	57834168	1	C20orf174	dJ492J12.1
7	MIR93	ENSG00000207757	ENST00000385024	miRNA	KNOWN	None	31645	None	None	99691391	99691470	-1	MIRN93	hsa-mir-93
14	None	ENSG00000258342	ENST00000550089	sense_overlapping	KNOWN	None	None	None	None	36367188	36532949	1	None	None
15	None	ENSG00000259280	ENST00000558089	lincRNA	KNOWN	None	None	None	None	37168580	37178734	-1	None	None
15	None	ENSG00000259280	ENST00000560602	lincRNA	KNOWN	None	None	None	None	37171963	37173868	-1	None	None
15	None	ENSG00000259280	ENST00000561259	retained_intron	KNOWN	None	None	None	None	37173219	37179236	-1	None	None
17	MARCH10	ENSG00000173838	ENST00000582358	processed_transcript	KNOWN	None	26655	None	None	60778675	60780793	-1	RNF190	FLJ35757, MARCH-X
17	MARCH10	ENSG00000173838	ENST00000579620	protein_coding	PUTATIVE	None	26655	195	64	60778675	60813878	-1	RNF190	FLJ35757, MARCH-X
17	MARCH10	ENSG00000173838	ENST00000580520	protein_coding	PUTATIVE	None	26655	2082	693	60778675	60821875	-1	RNF190	FLJ35757, MARCH-X
17	MARCH10	ENSG00000173838	ENST00000456609	protein_coding	KNOWN	CCDS11635	26655	2427	808	60778675	60884014	-1	RNF190	FLJ35757, MARCH-X
17	MARCH10	ENSG00000173838	ENST00000311269	protein_coding	KNOWN	CCDS11635	26655	2427	808	60778676	60885695	-1	RNF190	FLJ35757, MARCH-X
17	MARCH10	ENSG00000173838	ENST00000583600	protein_coding	NOVEL	None	26655	2541	846	60778676	60885705	-1	RNF190	FLJ35757, MARCH-X
17	MARCH10	ENSG00000173838	ENST00000544856	protein_coding	PUTATIVE	None	26655	2400	799	60782309	60885651	-1	RNF190	FLJ35757, MARCH-X
17	MARCH10	ENSG00000173838	ENST00000582568	protein_coding	PUTATIVE	None	26655	495	164	60827337	60837352	-1	RNF190	FLJ35757, MARCH-X
17	MARCH10	ENSG00000173838	ENST00000578346	processed_transcript	KNOWN	None	26655	None	None	60858301	60885686	-1	RNF190	FLJ35757, MARCH-X
17	MARCH10	ENSG00000173838	ENST00000583803	protein_coding	KNOWN	None	26655	183	60	60865868	60884001	-1	RNF190	FLJ35757, MARCH-X
7	MIR106B	ENSG00000208036	ENST00000385301	miRNA	KNOWN	None	31495	None	None	99691616	99691697	-1	MIRN106B	hsa-mir-106b
2	None	ENSG00000232227	ENST00000433550	lincRNA	KNOWN	None	None	None	None	193508828	193510109	-1	None	None
2	None	ENSG00000232227	ENST00000422017	lincRNA	KNOWN	None	None	None	None	193508828	193510113	-1	None	None
18	RNU6-708P	ENSG00000206944	ENST00000384217	snRNA	KNOWN	None	47671	None	None	45696155	45696261	-1	None	None
15	SNORD115-45	ENSG00000212380	ENST00000391078	snoRNA	KNOWN	None	33064	None	None	25509657	25509737	1	None	HBII-52-45, SNORD115-48
15	CHD2	ENSG00000173575	ENST00000557682	processed_transcript	KNOWN	None	1917	None	None	93425937	93441975	1	None	FLJ38614, DKFZp547I1315, DKFZp781D1727, DKFZp686E01200
15	CHD2	ENSG00000173575	ENST00000553829	retained_intron	KNOWN	None	1917	None	None	93425962	93427091	1	None	FLJ38614, DKFZp547I1315, DKFZp781D1727, DKFZp686E01200
15	CHD2	ENSG00000173575	ENST00000556895	retained_intron	KNOWN	None	1917	None	None	93426092	93441205	1	None	FLJ38614, DKFZp547I1315, DKFZp781D1727, DKFZp686E01200
15	CHD2	ENSG00000173575	ENST00000554669	processed_transcript	KNOWN	None	1917	None	None	93426104	93428815	1	None	FLJ38614, DKFZp547I1315, DKFZp781D1727, DKFZp686E01200
15	CHD2	ENSG00000173575	ENST00000554894	processed_transcript	KNOWN	None	1917	None	None	93426118	93435264	1	None	FLJ38614, DKFZp547I1315, DKFZp781D1727, DKFZp686E01200
15	CHD2	ENSG00000173575	ENST00000557147	processed_transcript	KNOWN	None	1917	None	None	93426245	93429452	1	None	FLJ38614, DKFZp547I1315, DKFZp781D1727, DKFZp686E01200
15	CHD2	ENSG00000173575	ENST00000556722	protein_coding	KNOWN	None	1917	551	182	93426526	93480855	1	None	FLJ38614, DKFZp547I1315, DKFZp781D1727, DKFZp686E01200
15	CHD2	ENSG00000173575	ENST00000554133	processed_transcript	KNOWN	None	1917	None	None	93427601	93441360	1	None	FLJ38614, DKFZp547I1315, DKFZp781D1727, DKFZp686E01200
15	CHD2	ENSG00000173575	ENST00000555227	retained_intron	KNOWN	None	1917	None	None	93428554	93430215	1	None	FLJ38614, DKFZp547I1315, DKFZp781D1727, DKFZp686E01200
15	CHD2	ENSG00000173575	ENST00000556930	retained_intron	KNOWN	None	1917	None	None	93429433	93492464	1	None	FLJ38614, DKFZp547I1315, DKFZp781D1727, DKFZp686E01200
15	CHD2	ENSG00000173575	ENST00000555520	processed_transcript	KNOWN	None	1917	None	None	93430986	93441302	1	None	FLJ38614, DKFZp547I1315, DKFZp781D1727, DKFZp686E01200
15	CHD2	ENSG00000173575	ENST00000394196	protein_coding	NOVEL	CCDS10374	1917	5487	1828	93443058	93571237	1	None	FLJ38614, DKFZp547I1315, DKFZp781D1727, DKFZp686E01200
15	CHD2	ENSG00000173575	ENST00000557381	protein_coding	PUTATIVE	None	1917	5220	1739	93443419	93565392	1	None	FLJ38614, DKFZp547I1315, DKFZp781D1727, DKFZp686E01200
15	CHD2	ENSG00000173575	ENST00000309818	retained_intron	KNOWN	None	1917	None	None	93443554	93489642	1	None	FLJ38614, DKFZp547I1315, DKFZp781D1727, DKFZp686E01200
15	CHD2	ENSG00000173575	ENST00000554771	retained_intron	KNOWN	None	1917	None	None	93443565	93444547	1	None	FLJ38614, DKFZp547I1315, DKFZp781D1727, DKFZp686E01200
15	CHD2	ENSG00000173575	ENST00000420239	protein_coding	KNOWN	CCDS45356	1917	1506	501	93443565	93492464	1	None	FLJ38614, DKFZp547I1315, DKFZp781D1727, DKFZp686E01200
15	CHD2	ENSG00000173575	ENST00000554122	processed_transcript	KNOWN	None	1917	None	None	93443592	93446018	1	None	FLJ38614, DKFZp547I1315, DKFZp781D1727, DKFZp686E01200
15	CHD2	ENSG00000173575	ENST00000536619	protein_coding	PUTATIVE	None	1917	1545	514	93447703	93492461	1	None	FLJ38614, DKFZp547I1315, DKFZp781D1727, DKFZp686E01200
15	CHD2	ENSG00000173575	ENST00000556270	retained_intron	KNOWN	None	1917	None	None	93467548	93486357	1	None	FLJ38614, DKFZp547I1315, DKFZp781D1727, DKFZp686E01200
15	CHD2	ENSG00000173575	ENST00000553323	retained_intron	KNOWN	None	1917	None	None	93482345	93487714	1	None	FLJ38614, DKFZp547I1315, DKFZp781D1727, DKFZp686E01200
15	CHD2	ENSG00000173575	ENST00000555753	processed_transcript	KNOWN	None	1917	None	None	93486170	93489398	1	None	FLJ38614, DKFZp547I1315, DKFZp781D1727, DKFZp686E01200
15	CHD2	ENSG00000173575	ENST00000555582	processed_transcript	KNOWN	None	1917	None	None	93493632	93510571	1	None	FLJ38614, DKFZp547I1315, DKFZp781D1727, DKFZp686E01200
15	CHD2	ENSG00000173575	ENST00000557116	protein_coding	NOVEL	None	1917	340	112	93515113	93522437	1	None	FLJ38614, DKFZp547I1315, DKFZp781D1727, DKFZp686E01200
15	CHD2	ENSG00000173575	ENST00000557340	processed_transcript	KNOWN	None	1917	None	None	93515113	93522443	1	None	FLJ38614, DKFZp547I1315, DKFZp781D1727, DKFZp686E01200
15	CHD2	ENSG00000173575	ENST00000553402	retained_intron	KNOWN	None	1917	None	None	93540184	93541074	1	None	FLJ38614, DKFZp547I1315, DKFZp781D1727, DKFZp686E01200
15	CHD2	ENSG00000173575	ENST00000554828	nonsense_mediated_decay	KNOWN	None	1917	232	76	93540302	93541836	1	None	FLJ38614, DKFZp547I1315, DKFZp781D1727, DKFZp686E01200
15	CHD2	ENSG00000173575	ENST00000582447	nonsense_mediated_decay	KNOWN	None	1917	108	35	93540532	93547876	1	None	FLJ38614, DKFZp547I1315, DKFZp781D1727, DKFZp686E01200
15	CHD2	ENSG00000173575	ENST00000557759	protein_coding	PUTATIVE	None	1917	543	180	93552096	93563303	1	None	FLJ38614, DKFZp547I1315, DKFZp781D1727, DKFZp686E01200
18	RNU7-191P	ENSG00000253033	ENST00000517224	snRNA	KNOWN	None	45725	None	None	45918962	45919021	1	None	None
X	None	ENSG00000226532	ENST00000412004	processed_pseudogene	KNOWN	None	None	None	None	123460025	123460108	-1	None	None
5	TRPC7	ENSG00000069018	ENST00000513104	protein_coding	KNOWN	CCDS47267	20754	2589	862	135549008	135701225	-1	None	None
5	TRPC7	ENSG00000069018	ENST00000509288	retained_intron	KNOWN	None	20754	None	None	135549037	135562125	-1	None	None
5	TRPC7	ENSG00000069018	ENST00000503275	nonsense_mediated_decay	KNOWN	None	20754	1141	379	135549123	135693073	-1	None	None
5	TRPC7	ENSG00000069018	ENST00000352189	protein_coding	NOVEL	None	20754	2239	745	135549123	135693073	-1	None	None
5	TRPC7	ENSG00000069018	ENST00000514963	nonsense_mediated_decay	KNOWN	None	20754	784	260	135549123	135693073	-1	None	None
5	TRPC7	ENSG00000069018	ENST00000378459	protein_coding	NOVEL	None	20754	2404	800	135549123	135693073	-1	None	None
5	TRPC7	ENSG00000069018	ENST00000502753	protein_coding	NOVEL	None	20754	2422	806	135549123	135693073	-1	None	None
5	TRPC7	ENSG00000069018	ENST00000514282	processed_transcript	KNOWN	None	20754	None	None	135712036	135732730	-1	None	None
5	TRPC7	ENSG00000069018	ENST00000355180	protein_coding	KNOWN	CCDS54906	20754	2406	801	135548999	135701164	-1	None	None
5	TRPC7	ENSG00000069018	ENST00000426057	protein_coding	KNOWN	CCDS54905	20754	2241	746	135548999	135701164	-1	None	None
18	RNA5SP456	ENSG00000200872	ENST00000364002	rRNA	KNOWN	None	43356	None	None	46001858	46001971	-1	RN5S456	None
2	MED15P3	ENSG00000226831	ENST00000413613	processed_pseudogene	KNOWN	None	48652	None	None	132152790	132153115	-1	None	None
9	MYO5BP2	ENSG00000238245	ENST00000449815	processed_pseudogene	KNOWN	None	38496	None	None	66513032	66514308	1	None	None
18	None	ENSG00000266984	ENST00000588366	processed_pseudogene	KNOWN	None	None	None	None	46004932	46005599	1	None	None
2	None	ENSG00000223631	ENST00000437751	lincRNA	KNOWN	None	None	None	None	132160474	132166622	1	None	None
18	MIR4743	ENSG00000266276	ENST00000584576	miRNA	KNOWN	None	41894	None	None	46196971	46197039	1	None	hsa-mir-4743
8	RNA5SP261	ENSG00000222468	ENST00000410536	rRNA	KNOWN	None	43161	None	None	31455615	31455720	-1	RN5S261	None
18	None	ENSG00000267762	ENST00000589818	antisense	KNOWN	None	None	None	None	46199946	46214790	-1	None	None
9	TMEFF1	ENSG00000241697	ENST00000374879	protein_coding	KNOWN	CCDS6750	11866	1143	380	103235395	103339918	1	C9orf2	H7365, CT120.1
9	TMEFF1	ENSG00000241697	ENST00000334943	protein_coding	KNOWN	None	11866	1026	341	103204560	103339914	1	C9orf2	H7365, CT120.1
2	PCGEM1	ENSG00000227418	ENST00000454040	lincRNA	KNOWN	None	30145	None	None	193614571	193641625	1	None	NCRNA00071, LINC00071, PCAT9
2	PCGEM1	ENSG00000227418	ENST00000606314	lincRNA	KNOWN	None	30145	None	None	193614693	193640794	1	None	NCRNA00071, LINC00071, PCAT9
19	PLEKHA4	ENSG00000105559	ENST00000355496	protein_coding	KNOWN	CCDS54291	14339	1752	583	49340354	49371711	-1	None	PEPP1
19	PLEKHA4	ENSG00000105559	ENST00000263265	protein_coding	KNOWN	CCDS12737	14339	2340	779	49340354	49371889	-1	None	PEPP1
19	PLEKHA4	ENSG00000105559	ENST00000597129	protein_coding	PUTATIVE	None	14339	358	118	49340367	49348808	-1	None	PEPP1
19	PLEKHA4	ENSG00000105559	ENST00000601146	retained_intron	KNOWN	None	14339	None	None	49340440	49341571	-1	None	PEPP1
19	PLEKHA4	ENSG00000105559	ENST00000593696	retained_intron	KNOWN	None	14339	None	None	49348398	49348853	-1	None	PEPP1
19	PLEKHA4	ENSG00000105559	ENST00000597406	retained_intron	KNOWN	None	14339	None	None	49348450	49355563	-1	None	PEPP1
19	PLEKHA4	ENSG00000105559	ENST00000595867	protein_coding	PUTATIVE	None	14339	177	58	49348808	49362639	-1	None	PEPP1
19	PLEKHA4	ENSG00000105559	ENST00000594195	protein_coding	PUTATIVE	None	14339	380	125	49355495	49362631	-1	None	PEPP1
19	PLEKHA4	ENSG00000105559	ENST00000596713	processed_transcript	KNOWN	None	14339	None	None	49362118	49363375	-1	None	PEPP1
19	PLEKHA4	ENSG00000105559	ENST00000596982	nonsense_mediated_decay	KNOWN	None	14339	79	25	49362354	49368814	-1	None	PEPP1
19	PLEKHA4	ENSG00000105559	ENST00000594100	protein_coding	NOVEL	None	14339	602	199	49362354	49370852	-1	None	PEPP1
10	CHAT	ENSG00000070748	ENST00000339797	protein_coding	KNOWN	CCDS7233	1912	1893	630	50817141	50873150	1	None	None
10	CHAT	ENSG00000070748	ENST00000460699	processed_transcript	KNOWN	None	1912	None	None	50821154	50833534	1	None	None
10	CHAT	ENSG00000070748	ENST00000481336	processed_transcript	KNOWN	None	1912	None	None	50821165	50827841	1	None	None
10	CHAT	ENSG00000070748	ENST00000337653	protein_coding	KNOWN	CCDS7232	1912	2247	748	50822083	50873150	1	None	None
10	CHAT	ENSG00000070748	ENST00000466590	nonsense_mediated_decay	KNOWN	None	1912	339	112	50822083	50873150	1	None	None
10	CHAT	ENSG00000070748	ENST00000490270	processed_transcript	KNOWN	None	1912	None	None	50823803	50827902	1	None	None
10	CHAT	ENSG00000070748	ENST00000395562	protein_coding	KNOWN	CCDS44389	1912	2001	666	50822083	50873150	1	None	None
10	CHAT	ENSG00000070748	ENST00000455728	protein_coding	KNOWN	None	1912	1638	545	50822480	50901925	1	None	None
10	CHAT	ENSG00000070748	ENST00000351556	protein_coding	KNOWN	CCDS7233	1912	1893	630	50821154	50873150	1	None	None
10	CHAT	ENSG00000070748	ENST00000395559	protein_coding	KNOWN	CCDS7233	1912	1893	630	50821154	50873150	1	None	None
18	None	ENSG00000267764	ENST00000590649	antisense	KNOWN	None	None	None	None	46352422	46361141	-1	None	None
X	None	ENSG00000241489	ENST00000441880	processed_transcript	KNOWN	None	None	None	None	148564621	148614529	-1	None	None
X	None	ENSG00000241489	ENST00000422081	processed_transcript	KNOWN	None	None	None	None	148564644	148614449	-1	None	None
X	None	ENSG00000241489	ENST00000523759	processed_transcript	KNOWN	None	None	None	None	148579718	148614672	-1	None	None
X	None	ENSG00000241489	ENST00000427113	processed_transcript	KNOWN	None	None	None	None	148583617	148614503	-1	None	None
X	None	ENSG00000241489	ENST00000412882	processed_transcript	KNOWN	None	None	None	None	148609130	148614476	-1	None	None
X	None	ENSG00000241489	ENST00000437981	processed_transcript	KNOWN	None	None	None	None	148609272	148614620	-1	None	None
X	None	ENSG00000241489	ENST00000431025	processed_transcript	KNOWN	None	None	None	None	148609611	148614621	-1	None	None
8	None	ENSG00000253796	ENST00000522244	antisense	KNOWN	None	None	None	None	109907258	110075646	-1	None	None
8	None	ENSG00000253796	ENST00000524134	antisense	KNOWN	None	None	None	None	109920446	109930842	-1	None	None
11	KCNJ11	ENSG00000187486	ENST00000339994	protein_coding	KNOWN	CCDS31436	6257	1173	390	17407406	17410206	-1	None	Kir6.2, BIR
11	KCNJ11	ENSG00000187486	ENST00000528731	protein_coding	PUTATIVE	CCDS53606	6257	912	303	17407406	17410878	-1	None	Kir6.2, BIR
11	KCNJ11	ENSG00000187486	ENST00000526747	processed_transcript	PUTATIVE	None	6257	None	None	17407610	17408297	-1	None	Kir6.2, BIR
11	KCNJ11	ENSG00000187486	ENST00000526912	protein_coding	PUTATIVE	None	6257	461	152	17408917	17410632	-1	None	Kir6.2, BIR
11	KCNJ11	ENSG00000187486	ENST00000528992	protein_coding	PUTATIVE	None	6257	466	154	17409190	17410419	-1	None	Kir6.2, BIR
2	GNAQP1	ENSG00000214077	ENST00000444815	processed_pseudogene	KNOWN	None	4391	None	None	132181374	132182440	-1	GNAQP	None
18	None	ENSG00000266905	ENST00000587659	lincRNA	KNOWN	None	None	None	None	46489321	46490311	-1	None	None
1	PLA2G2F	ENSG00000158786	ENST00000375102	protein_coding	KNOWN	CCDS204	30040	636	211	20465819	20476879	1	None	None
1	PLA2G2F	ENSG00000158786	ENST00000465062	retained_intron	KNOWN	None	30040	None	None	20465823	20470573	1	None	None
18	None	ENSG00000264269	ENST00000584252	antisense	KNOWN	None	None	None	None	46550073	46574844	1	None	None
15	ACTBP7	ENSG00000185607	ENST00000418351	processed_pseudogene	KNOWN	None	140	None	None	44281259	44282382	-1	None	None
2	None	ENSG00000217950	ENST00000407594	processed_pseudogene	KNOWN	None	None	None	None	132200217	132202160	-1	None	None
2	None	ENSG00000217950	ENST00000434348	processed_pseudogene	KNOWN	None	None	None	None	132200167	132202467	-1	None	None
17	None	ENSG00000263976	ENST00000582767	processed_pseudogene	KNOWN	None	None	None	None	20394636	20394756	-1	None	None
9	NUTM2G	ENSG00000188152	ENST00000354649	protein_coding	KNOWN	CCDS43854	23449	1479	492	99690592	99702535	1	FAM22G	None
9	NUTM2G	ENSG00000188152	ENST00000372322	protein_coding	KNOWN	CCDS55329	23449	2226	741	99691286	99701700	1	FAM22G	None
2	RPS17P8	ENSG00000226242	ENST00000434525	processed_pseudogene	KNOWN	None	36772	None	None	193638808	193639142	1	None	None
2	None	ENSG00000224132	ENST00000445534	protein_coding	PUTATIVE	None	None	183	60	238165734	238166319	1	None	None
11	TRAF6	ENSG00000175104	ENST00000526995	protein_coding	KNOWN	CCDS7901	12036	1569	522	36508577	36531822	-1	None	RNF85
11	TRAF6	ENSG00000175104	ENST00000348124	protein_coding	KNOWN	CCDS7901	12036	1569	522	36510723	36531806	-1	None	RNF85
11	TRAF6	ENSG00000175104	ENST00000529150	processed_transcript	KNOWN	None	12036	None	None	36511927	36518060	-1	None	RNF85
17	KRT16P5	ENSG00000230088	ENST00000455284	processed_pseudogene	KNOWN	None	37810	None	None	20396947	20397468	-1	None	None
18	MIR4744	ENSG00000263849	ENST00000581563	miRNA	KNOWN	None	41866	None	None	46576057	46576138	-1	None	hsa-mir-4744
18	TSHZ1	ENSG00000179981	ENST00000322038	protein_coding	KNOWN	CCDS12009	10669	3099	1032	72922710	73001905	1	SDCCAG33	NY-CO-33, TSH1
18	TSHZ1	ENSG00000179981	ENST00000580243	protein_coding	KNOWN	None	10669	3234	1077	72923484	73000596	1	SDCCAG33	NY-CO-33, TSH1
18	TSHZ1	ENSG00000179981	ENST00000560918	protein_coding	KNOWN	None	10669	830	275	72933013	72998327	1	SDCCAG33	NY-CO-33, TSH1
18	TSHZ1	ENSG00000179981	ENST00000560661	protein_coding	KNOWN	None	10669	236	77	72956531	72997733	1	SDCCAG33	NY-CO-33, TSH1
18	TSHZ1	ENSG00000179981	ENST00000584217	retained_intron	KNOWN	None	10669	None	None	72994819	73001898	1	SDCCAG33	NY-CO-33, TSH1
22	None	ENSG00000233995	ENST00000454360	unprocessed_pseudogene	KNOWN	None	None	None	None	17052917	17055527	1	None	None
18	None	ENSG00000265128	ENST00000585251	antisense	KNOWN	None	None	None	None	46642671	46652849	1	None	None
2	RHOQP2	ENSG00000232742	ENST00000449922	processed_pseudogene	KNOWN	None	37836	None	None	132218572	132219150	1	None	None
2	RHOQP2	ENSG00000232742	ENST00000415552	processed_pseudogene	KNOWN	None	37836	None	None	132218533	132219132	1	None	None
11	PTPMT1	ENSG00000110536	ENST00000426530	protein_coding	NOVEL	CCDS44593	26965	456	151	47586982	47593479	1	None	PLIP, DUSP23, MOSP
11	PTPMT1	ENSG00000110536	ENST00000534775	protein_coding	NOVEL	None	26965	507	168	47587010	47593912	1	None	PLIP, DUSP23, MOSP
11	PTPMT1	ENSG00000110536	ENST00000326656	protein_coding	NOVEL	None	26965	414	137	47587151	47593671	1	None	PLIP, DUSP23, MOSP
11	PTPMT1	ENSG00000110536	ENST00000326674	protein_coding	NOVEL	CCDS41643	26965	606	201	47587153	47593321	1	None	PLIP, DUSP23, MOSP
11	PTPMT1	ENSG00000110536	ENST00000527079	processed_transcript	KNOWN	None	26965	None	None	47587450	47595013	1	None	PLIP, DUSP23, MOSP
15	None	ENSG00000259387	ENST00000558909	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	82888224	82924290	1	None	None
15	None	ENSG00000259387	ENST00000561995	processed_transcript	KNOWN	None	None	None	None	82888331	82895479	1	None	None
15	None	ENSG00000259387	ENST00000567519	processed_transcript	KNOWN	None	None	None	None	82888524	82894526	1	None	None
2	None	ENSG00000232658	ENST00000411966	processed_pseudogene	KNOWN	None	None	None	None	194121208	194122482	1	None	None
7	DNAJC30	ENSG00000176410	ENST00000395176	protein_coding	KNOWN	CCDS5556	16410	681	226	73095299	73097783	-1	WBSCR18	None
16	IGHV3OR16-10	ENSG00000233732	ENST00000425181	IG_V_gene	KNOWN	None	5634	350	115	33006369	33006826	1	None	IGHV3/OR16-10
18	None	ENSG00000266696	ENST00000577641	antisense	KNOWN	None	None	None	None	46732282	46735151	1	None	None
12	ARID2	ENSG00000189079	ENST00000334344	protein_coding	KNOWN	CCDS31783	18037	5508	1835	46123448	46301823	1	None	KIAA1557, DKFZp686G052, FLJ30619, BAF200
12	ARID2	ENSG00000189079	ENST00000427628	processed_transcript	PUTATIVE	None	18037	None	None	46123656	46149788	1	None	KIAA1557, DKFZp686G052, FLJ30619, BAF200
12	ARID2	ENSG00000189079	ENST00000426776	processed_transcript	KNOWN	None	18037	None	None	46123669	46170112	1	None	KIAA1557, DKFZp686G052, FLJ30619, BAF200
12	ARID2	ENSG00000189079	ENST00000422737	protein_coding	NOVEL	None	18037	4920	1639	46123699	46287701	1	None	KIAA1557, DKFZp686G052, FLJ30619, BAF200
12	ARID2	ENSG00000189079	ENST00000479608	processed_transcript	KNOWN	None	18037	None	None	46230544	46301823	1	None	KIAA1557, DKFZp686G052, FLJ30619, BAF200
12	ARID2	ENSG00000189079	ENST00000480128	retained_intron	KNOWN	None	18037	None	None	46230728	46236017	1	None	KIAA1557, DKFZp686G052, FLJ30619, BAF200
12	ARID2	ENSG00000189079	ENST00000444670	protein_coding	NOVEL	None	18037	4338	1445	46231178	46301823	1	None	KIAA1557, DKFZp686G052, FLJ30619, BAF200
12	ARID2	ENSG00000189079	ENST00000457135	protein_coding	NOVEL	None	18037	1206	401	46246078	46301823	1	None	KIAA1557, DKFZp686G052, FLJ30619, BAF200
12	ARID2	ENSG00000189079	ENST00000477947	retained_intron	KNOWN	None	18037	None	None	46285826	46287671	1	None	KIAA1557, DKFZp686G052, FLJ30619, BAF200
2	MIR4784	ENSG00000265575	ENST00000579560	miRNA	KNOWN	None	41580	None	None	132248733	132248809	-1	None	hsa-mir-4784
HG305_PATCH	MMP12	ENSG00000262406	ENST00000571244	protein_coding	KNOWN	None	7158	1413	470	102733467	102745765	-1	None	HME
18	None	ENSG00000263895	ENST00000583579	sense_intronic	KNOWN	None	None	None	None	46958114	46973790	-1	None	None
18	None	ENSG00000264971	ENST00000577786	processed_pseudogene	KNOWN	None	None	None	None	46996173	46996593	1	None	None
22	KCNMB3P1	ENSG00000239435	ENST00000493696	transcribed_unprocessed_pseudogene	KNOWN	None	6288	None	None	17061816	17063607	-1	KCNMB2L, KCNMBLP, KCNMB3L	KCNMB3L1
22	KCNMB3P1	ENSG00000239435	ENST00000472972	processed_transcript	PUTATIVE	None	6288	None	None	17061967	17063492	-1	KCNMB2L, KCNMBLP, KCNMB3L	KCNMB3L1
19	None	ENSG00000268036	ENST00000600036	transcribed_processed_pseudogene	KNOWN	None	None	None	None	57125178	57125319	1	None	None
17	KRT16P3	ENSG00000214822	ENST00000584759	retained_intron	KNOWN	None	37808	None	None	20404826	20405600	-1	None	MGC102966
17	KRT16P3	ENSG00000214822	ENST00000580621	retained_intron	KNOWN	None	37808	None	None	20404826	20407794	-1	None	MGC102966
17	KRT16P3	ENSG00000214822	ENST00000439127	transcribed_unprocessed_pseudogene	KNOWN	None	37808	None	None	20404983	20407736	-1	None	MGC102966
17	KRT16P3	ENSG00000214822	ENST00000580113	processed_transcript	KNOWN	None	37808	None	None	20405852	20415670	-1	None	MGC102966
17	KRT16P3	ENSG00000214822	ENST00000536327	unprocessed_pseudogene	KNOWN	None	37808	None	None	20406397	20407811	-1	None	MGC102966
Y	TSPY4	ENSG00000233803	ENST00000426950	protein_coding	KNOWN	CCDS48202	37287	945	314	9175073	9177887	1	None	None
Y	TSPY4	ENSG00000233803	ENST00000383008	protein_coding	KNOWN	None	37287	903	300	9175119	9177886	1	None	None
Y	TSPY4	ENSG00000233803	ENST00000466036	processed_transcript	KNOWN	None	37287	None	None	9175119	9177893	1	None	None
Y	TSPY4	ENSG00000233803	ENST00000482082	processed_transcript	PUTATIVE	None	37287	None	None	9176497	9177878	1	None	None
18	None	ENSG00000263916	ENST00000580150	sense_intronic	KNOWN	None	None	None	None	47010906	47012519	-1	None	None
X	WASH6P	ENSG00000182484	ENST00000476066	processed_transcript	KNOWN	None	31685	None	None	155250491	155252080	1	FAM39A, CXYorf1	None
X	WASH6P	ENSG00000182484	ENST00000359512	transcribed_unprocessed_pseudogene	KNOWN	None	31685	None	None	155250626	155255039	1	FAM39A, CXYorf1	None
X	WASH6P	ENSG00000182484	ENST00000461007	processed_transcript	KNOWN	None	31685	None	None	155250993	155255328	1	FAM39A, CXYorf1	None
X	WASH6P	ENSG00000182484	ENST00000496011	processed_transcript	KNOWN	None	31685	None	None	155251110	155252872	1	FAM39A, CXYorf1	None
X	WASH6P	ENSG00000182484	ENST00000469624	processed_transcript	KNOWN	None	31685	None	None	155251242	155252782	1	FAM39A, CXYorf1	None
X	WASH6P	ENSG00000182484	ENST00000479401	processed_transcript	KNOWN	None	31685	None	None	155251342	155253000	1	FAM39A, CXYorf1	None
X	WASH6P	ENSG00000182484	ENST00000340131	processed_transcript	KNOWN	None	31685	None	None	155251353	155255331	1	FAM39A, CXYorf1	None
X	WASH6P	ENSG00000182484	ENST00000492963	processed_transcript	KNOWN	None	31685	None	None	155251353	155255331	1	FAM39A, CXYorf1	None
X	WASH6P	ENSG00000182484	ENST00000460206	processed_transcript	KNOWN	None	31685	None	None	155251353	155255375	1	FAM39A, CXYorf1	None
X	WASH6P	ENSG00000182484	ENST00000475594	processed_transcript	KNOWN	None	31685	None	None	155251664	155252757	1	FAM39A, CXYorf1	None
X	WASH6P	ENSG00000182484	ENST00000482170	processed_transcript	KNOWN	None	31685	None	None	155251664	155253054	1	FAM39A, CXYorf1	None
X	WASH6P	ENSG00000182484	ENST00000484415	processed_transcript	KNOWN	None	31685	None	None	155251664	155255328	1	FAM39A, CXYorf1	None
X	WASH6P	ENSG00000182484	ENST00000483079	processed_transcript	KNOWN	None	31685	None	None	155252451	155253196	1	FAM39A, CXYorf1	None
X	WASH6P	ENSG00000182484	ENST00000496301	processed_transcript	KNOWN	None	31685	None	None	155253032	155255331	1	FAM39A, CXYorf1	None
X	WASH6P	ENSG00000182484	ENST00000483286	processed_transcript	KNOWN	None	31685	None	None	155253489	155255219	1	FAM39A, CXYorf1	None
X	WASH6P	ENSG00000182484	ENST00000464205	processed_transcript	KNOWN	None	31685	None	None	155253736	155255219	1	FAM39A, CXYorf1	None
9	None	ENSG00000234665	ENST00000586625	lincRNA	KNOWN	None	None	None	None	66513488	66525124	-1	None	None
9	None	ENSG00000234665	ENST00000591993	lincRNA	KNOWN	None	None	None	None	66513657	66553531	-1	None	None
9	None	ENSG00000234665	ENST00000445604	lincRNA	KNOWN	None	None	None	None	66521421	66553911	-1	None	None
9	None	ENSG00000234665	ENST00000438699	lincRNA	KNOWN	None	None	None	None	66523532	66529391	-1	None	None
9	None	ENSG00000234665	ENST00000585533	lincRNA	KNOWN	None	None	None	None	66523963	66553601	-1	None	None
19	CEACAMP7	ENSG00000227349	ENST00000444105	unprocessed_pseudogene	KNOWN	None	1829	None	None	43453655	43454539	-1	CGM14	None
8	NRG1-IT1	ENSG00000253974	ENST00000521463	sense_intronic	KNOWN	None	43633	None	None	31883735	31957281	1	None	None
8	NRG1-IT1	ENSG00000253974	ENST00000520444	sense_intronic	KNOWN	None	43633	None	None	31883747	31920988	1	None	None
8	NRG1-IT1	ENSG00000253974	ENST00000523743	sense_intronic	KNOWN	None	43633	None	None	31883843	31996793	1	None	None
8	NRG1-IT1	ENSG00000253974	ENST00000523785	sense_intronic	KNOWN	None	43633	None	None	31994177	31996991	1	None	None
18	MIR1539	ENSG00000265496	ENST00000581232	antisense	KNOWN	None	35383	None	None	47013709	47018248	1	MIRN1539	hsa-mir-1539
18	MIR1539	ENSG00000265496	ENST00000410758	miRNA	KNOWN	None	35383	None	None	47013743	47013792	1	MIRN1539	hsa-mir-1539
19	None	ENSG00000268352	ENST00000599726	lincRNA	KNOWN	None	None	None	None	57183636	57196021	1	None	None
7	HILPDA	ENSG00000135245	ENST00000435296	protein_coding	KNOWN	CCDS5802	28859	192	63	128095903	128097978	1	C7orf68	FLJ21076, HIG-2, HIG2
7	HILPDA	ENSG00000135245	ENST00000257696	protein_coding	KNOWN	CCDS5802	28859	192	63	128095945	128098470	1	C7orf68	FLJ21076, HIG-2, HIG2
7	HILPDA	ENSG00000135245	ENST00000481454	processed_transcript	KNOWN	None	28859	None	None	128095957	128098472	1	C7orf68	FLJ21076, HIG-2, HIG2
7	HILPDA	ENSG00000135245	ENST00000466473	processed_transcript	KNOWN	None	28859	None	None	128096413	128098469	1	C7orf68	FLJ21076, HIG-2, HIG2
2	None	ENSG00000235218	ENST00000441105	processed_pseudogene	KNOWN	None	None	None	None	194141393	194142339	-1	None	None
11	SLC6A5	ENSG00000165970	ENST00000525748	protein_coding	KNOWN	CCDS7854	11051	2394	797	20620946	20680831	1	NET1	GLYT2
11	SLC6A5	ENSG00000165970	ENST00000298923	nonsense_mediated_decay	KNOWN	None	11051	564	187	20621140	20676436	1	NET1	GLYT2
11	SLC6A5	ENSG00000165970	ENST00000528440	processed_transcript	KNOWN	None	11051	None	None	20650730	20676610	1	NET1	GLYT2
19	None	ENSG00000268568	ENST00000602145	lincRNA	KNOWN	None	None	None	None	57183942	57185269	-1	None	None
19	CEACAMP8	ENSG00000236932	ENST00000413902	unprocessed_pseudogene	KNOWN	None	1830	None	None	43540021	43545400	-1	CGM15	None
3	MFSD1	ENSG00000118855	ENST00000486568	protein_coding	PUTATIVE	None	25874	350	115	158449987	158525210	1	None	FLJ14153, UG0581B09
3	MFSD1	ENSG00000118855	ENST00000491804	protein_coding	PUTATIVE	None	25874	255	84	158450146	158522160	1	None	FLJ14153, UG0581B09
3	MFSD1	ENSG00000118855	ENST00000465739	protein_coding	PUTATIVE	None	25874	110	35	158465366	158523263	1	None	FLJ14153, UG0581B09
3	MFSD1	ENSG00000118855	ENST00000415822	protein_coding	KNOWN	CCDS3185	25874	1545	514	158519654	158547508	1	None	FLJ14153, UG0581B09
3	MFSD1	ENSG00000118855	ENST00000484166	nonsense_mediated_decay	KNOWN	None	25874	237	78	158519840	158547505	1	None	FLJ14153, UG0581B09
3	MFSD1	ENSG00000118855	ENST00000480292	nonsense_mediated_decay	KNOWN	None	25874	237	78	158519846	158547505	1	None	FLJ14153, UG0581B09
3	MFSD1	ENSG00000118855	ENST00000264266	protein_coding	KNOWN	None	25874	1398	465	158519880	158546905	1	None	FLJ14153, UG0581B09
3	MFSD1	ENSG00000118855	ENST00000471266	nonsense_mediated_decay	KNOWN	None	25874	237	78	158519926	158527050	1	None	FLJ14153, UG0581B09
3	MFSD1	ENSG00000118855	ENST00000471500	nonsense_mediated_decay	KNOWN	None	25874	195	64	158519945	158547504	1	None	FLJ14153, UG0581B09
3	MFSD1	ENSG00000118855	ENST00000474670	protein_coding	PUTATIVE	None	25874	485	160	158520168	158531770	1	None	FLJ14153, UG0581B09
3	MFSD1	ENSG00000118855	ENST00000482835	protein_coding	PUTATIVE	None	25874	384	127	158520275	158525229	1	None	FLJ14153, UG0581B09
3	MFSD1	ENSG00000118855	ENST00000476860	retained_intron	KNOWN	None	25874	None	None	158522020	158527062	1	None	FLJ14153, UG0581B09
3	MFSD1	ENSG00000118855	ENST00000489639	retained_intron	KNOWN	None	25874	None	None	158526791	158537495	1	None	FLJ14153, UG0581B09
3	MFSD1	ENSG00000118855	ENST00000477743	protein_coding	NOVEL	None	25874	581	192	158527026	158541275	1	None	FLJ14153, UG0581B09
3	MFSD1	ENSG00000118855	ENST00000465624	retained_intron	KNOWN	None	25874	None	None	158537336	158546952	1	None	FLJ14153, UG0581B09
3	MFSD1	ENSG00000118855	ENST00000465235	retained_intron	KNOWN	None	25874	None	None	158540232	158547507	1	None	FLJ14153, UG0581B09
3	MFSD1	ENSG00000118855	ENST00000468409	retained_intron	KNOWN	None	25874	None	None	158540983	158542265	1	None	FLJ14153, UG0581B09
3	MFSD1	ENSG00000118855	ENST00000392813	protein_coding	KNOWN	CCDS54666	25874	1428	475	158519715	158547507	1	None	FLJ14153, UG0581B09
20	KIAA1755	ENSG00000149633	ENST00000279024	protein_coding	KNOWN	CCDS33467	29372	3603	1200	36838890	36889174	-1	None	RP5-1054A22.3
20	KIAA1755	ENSG00000149633	ENST00000460881	retained_intron	KNOWN	None	29372	None	None	36840874	36846585	-1	None	RP5-1054A22.3
20	KIAA1755	ENSG00000149633	ENST00000484362	retained_intron	KNOWN	None	29372	None	None	36840874	36851546	-1	None	RP5-1054A22.3
20	KIAA1755	ENSG00000149633	ENST00000487506	retained_intron	KNOWN	None	29372	None	None	36840878	36846507	-1	None	RP5-1054A22.3
20	KIAA1755	ENSG00000149633	ENST00000435901	protein_coding	PUTATIVE	None	29372	798	265	36845655	36855621	-1	None	RP5-1054A22.3
20	KIAA1755	ENSG00000149633	ENST00000496900	retained_intron	KNOWN	None	29372	None	None	36853951	36889174	-1	None	RP5-1054A22.3
1	PLA2G2C	ENSG00000187980	ENST00000429261	protein_coding	PUTATIVE	None	9032	450	149	20487746	20503917	-1	None	None
1	PLA2G2C	ENSG00000187980	ENST00000495760	processed_transcript	KNOWN	None	9032	None	None	20489585	20501662	-1	None	None
1	PLA2G2C	ENSG00000187980	ENST00000247992	protein_coding	KNOWN	None	9032	453	150	20490484	20501687	-1	None	None
18	SNORD58C	ENSG00000202093	ENST00000365223	snoRNA	KNOWN	None	33613	None	None	47015615	47015678	-1	None	None
17	TUBD1	ENSG00000108423	ENST00000346141	protein_coding	KNOWN	None	16811	600	199	57936851	57970076	-1	None	FLJ12709, TUBD
17	TUBD1	ENSG00000108423	ENST00000340993	protein_coding	KNOWN	CCDS54153	16811	1197	398	57937374	57970281	-1	None	FLJ12709, TUBD
17	TUBD1	ENSG00000108423	ENST00000394239	protein_coding	KNOWN	CCDS54154	16811	1191	396	57937395	57970219	-1	None	FLJ12709, TUBD
17	TUBD1	ENSG00000108423	ENST00000376094	protein_coding	KNOWN	CCDS54152	16811	1056	351	57937586	57968364	-1	None	FLJ12709, TUBD
17	TUBD1	ENSG00000108423	ENST00000592426	protein_coding	KNOWN	CCDS11620	16811	1362	453	57937586	57968364	-1	None	FLJ12709, TUBD
17	TUBD1	ENSG00000108423	ENST00000539018	protein_coding	KNOWN	CCDS54151	16811	714	237	57937678	57970254	-1	None	FLJ12709, TUBD
17	TUBD1	ENSG00000108423	ENST00000591548	nonsense_mediated_decay	KNOWN	None	16811	378	125	57937683	57970302	-1	None	FLJ12709, TUBD
17	TUBD1	ENSG00000108423	ENST00000588009	retained_intron	KNOWN	None	16811	None	None	57941025	57958509	-1	None	FLJ12709, TUBD
17	TUBD1	ENSG00000108423	ENST00000593110	nonsense_mediated_decay	KNOWN	None	16811	126	41	57941144	57970254	-1	None	FLJ12709, TUBD
17	TUBD1	ENSG00000108423	ENST00000587476	retained_intron	KNOWN	None	16811	None	None	57951900	57956123	-1	None	FLJ12709, TUBD
17	TUBD1	ENSG00000108423	ENST00000591611	processed_transcript	KNOWN	None	16811	None	None	57955662	57970260	-1	None	FLJ12709, TUBD
17	TUBD1	ENSG00000108423	ENST00000590498	protein_coding	PUTATIVE	None	16811	292	96	57958299	57970296	-1	None	FLJ12709, TUBD
17	TUBD1	ENSG00000108423	ENST00000588706	processed_transcript	KNOWN	None	16811	None	None	57963866	57970304	-1	None	FLJ12709, TUBD
17	TUBD1	ENSG00000108423	ENST00000592145	protein_coding	PUTATIVE	None	16811	161	52	57968245	57970296	-1	None	FLJ12709, TUBD
17	TUBD1	ENSG00000108423	ENST00000325752	protein_coding	KNOWN	CCDS11620	16811	1362	453	57936851	57970296	-1	None	FLJ12709, TUBD
2	None	ENSG00000152117	ENST00000415574	transcribed_processed_pseudogene	KNOWN	None	None	None	None	132250386	132277994	1	None	None
2	None	ENSG00000152117	ENST00000438378	processed_transcript	KNOWN	None	None	None	None	132250386	132279146	1	None	None
2	None	ENSG00000152117	ENST00000416745	processed_pseudogene	KNOWN	None	None	None	None	132250501	132273193	1	None	None
2	None	ENSG00000152117	ENST00000426369	processed_pseudogene	KNOWN	None	None	None	None	132250649	132273244	1	None	None
2	None	ENSG00000152117	ENST00000543513	processed_pseudogene	KNOWN	None	None	None	None	132250649	132273321	1	None	None
2	None	ENSG00000152117	ENST00000538598	processed_pseudogene	KNOWN	None	None	None	None	132250649	132273931	1	None	None
2	None	ENSG00000152117	ENST00000536977	processed_pseudogene	KNOWN	None	None	None	None	132276293	132279145	1	None	None
18	SNORD58A	ENSG00000206602	ENST00000383875	snoRNA	KNOWN	None	10208	None	None	47017653	47017717	-1	RNU58A	U58a
19	CEACAMP9	ENSG00000230529	ENST00000442990	unprocessed_pseudogene	KNOWN	None	1831	None	None	43600608	43601512	-1	CGM16	None
15	None	ENSG00000206676	ENST00000383949	misc_RNA	NOVEL	None	None	None	None	37343029	37343131	-1	None	None
18	SNORD58B	ENSG00000271982	ENST00000607313	snoRNA	KNOWN	None	10209	None	None	47018034	47018099	-1	RNU58B	U58b
HG271_PATCH	ACTG1	ENSG00000267807	ENST00000598366	protein_coding	KNOWN	None	144	1128	375	79483771	79486674	-1	ACTG, DFNA20, DFNA26	None
HG271_PATCH	ACTG1	ENSG00000267807	ENST00000601845	protein_coding	KNOWN	None	144	1128	375	79483788	79486580	-1	ACTG, DFNA20, DFNA26	None
HG271_PATCH	ACTG1	ENSG00000267807	ENST00000593601	protein_coding	KNOWN	None	144	1128	375	79483789	79486581	-1	ACTG, DFNA20, DFNA26	None
HG271_PATCH	ACTG1	ENSG00000267807	ENST00000595537	retained_intron	KNOWN	None	144	None	None	79483792	79486580	-1	ACTG, DFNA20, DFNA26	None
HG271_PATCH	ACTG1	ENSG00000267807	ENST00000594960	retained_intron	KNOWN	None	144	None	None	79483799	79485648	-1	ACTG, DFNA20, DFNA26	None
HG271_PATCH	ACTG1	ENSG00000267807	ENST00000599415	retained_intron	KNOWN	None	144	None	None	79483805	79485950	-1	ACTG, DFNA20, DFNA26	None
HG271_PATCH	ACTG1	ENSG00000267807	ENST00000601143	protein_coding	KNOWN	None	144	1128	375	79483808	79486590	-1	ACTG, DFNA20, DFNA26	None
HG271_PATCH	ACTG1	ENSG00000267807	ENST00000597869	nonsense_mediated_decay	KNOWN	None	144	1128	375	79483813	79486591	-1	ACTG, DFNA20, DFNA26	None
HG271_PATCH	ACTG1	ENSG00000267807	ENST00000597751	nonsense_mediated_decay	KNOWN	None	144	597	198	79484545	79486581	-1	ACTG, DFNA20, DFNA26	None
HG271_PATCH	ACTG1	ENSG00000267807	ENST00000598282	retained_intron	KNOWN	None	144	None	None	79484885	79486548	-1	ACTG, DFNA20, DFNA26	None
HG271_PATCH	ACTG1	ENSG00000267807	ENST00000598503	protein_coding	NOVEL	None	144	725	240	79485038	79486563	-1	ACTG, DFNA20, DFNA26	None
HG271_PATCH	ACTG1	ENSG00000267807	ENST00000601751	protein_coding	KNOWN	None	144	644	213	79485146	79497647	-1	ACTG, DFNA20, DFNA26	None
HG271_PATCH	ACTG1	ENSG00000267807	ENST00000598227	protein_coding	KNOWN	None	144	642	213	79485148	79488440	-1	ACTG, DFNA20, DFNA26	None
HG271_PATCH	ACTG1	ENSG00000267807	ENST00000599059	protein_coding	KNOWN	None	144	492	163	79485298	79486578	-1	ACTG, DFNA20, DFNA26	None
HG271_PATCH	ACTG1	ENSG00000267807	ENST00000593414	protein_coding	NOVEL	None	144	399	132	79485319	79486599	-1	ACTG, DFNA20, DFNA26	None
8	DEFB103A	ENSG00000176797	ENST00000314357	protein_coding	KNOWN	CCDS43701	15967	204	67	7738726	7740186	1	DEFB3, DEFB103	HBD-3, HBP-3, HBD3, HBP3, DEFB-3
16	None	ENSG00000261774	ENST00000568483	processed_pseudogene	KNOWN	None	None	None	None	72312167	72312467	1	None	None
14	RN7SL540P	ENSG00000264995	ENST00000578422	misc_RNA	KNOWN	None	46556	None	None	63929724	63930021	1	None	None
HSCHR1_3_CTG31	ATP6V1G3	ENSG00000263014	ENST00000573121	protein_coding	KNOWN	None	18265	357	118	198503840	198521352	-1	None	ATP6G3, Vma10
HSCHR1_3_CTG31	ATP6V1G3	ENSG00000263014	ENST00000571439	protein_coding	KNOWN	None	18265	180	59	198503840	198521562	-1	None	ATP6G3, Vma10
HSCHR1_3_CTG31	ATP6V1G3	ENSG00000263014	ENST00000575971	protein_coding	KNOWN	None	18265	375	124	198503959	198521291	-1	None	ATP6G3, Vma10
18	SRP72P1	ENSG00000265182	ENST00000580060	processed_pseudogene	KNOWN	None	31095	None	None	47021517	47023266	-1	None	None
15	None	ENSG00000259460	ENST00000559509	antisense	KNOWN	None	None	None	None	37391540	37392374	1	None	None
16	RNU6-385P	ENSG00000207514	ENST00000384783	snRNA	KNOWN	None	47348	None	None	72410603	72410659	1	None	None
19	None	ENSG00000227606	ENST00000419624	lincRNA	KNOWN	None	None	None	None	43657431	43665014	1	None	None
14	RNU6-852P	ENSG00000252463	ENST00000516654	snRNA	KNOWN	None	47815	None	None	63944492	63944557	1	None	None
5	None	ENSG00000250583	ENST00000511579	lincRNA	KNOWN	None	None	None	None	33519721	33522335	-1	None	None
19	None	ENSG00000269793	ENST00000597822	antisense	KNOWN	None	None	None	None	57202054	57272503	1	None	None
19	None	ENSG00000269793	ENST00000600093	antisense	KNOWN	None	None	None	None	57218193	57271915	1	None	None
19	None	ENSG00000269793	ENST00000594400	antisense	KNOWN	None	None	None	None	57218661	57302565	1	None	None
19	None	ENSG00000269793	ENST00000595954	antisense	KNOWN	None	None	None	None	57276712	57311014	1	None	None
19	None	ENSG00000269793	ENST00000597946	antisense	KNOWN	None	None	None	None	57276741	57309747	1	None	None
18	None	ENSG00000264464	ENST00000582983	lincRNA	KNOWN	None	None	None	None	47025760	47028230	1	None	None
14	None	ENSG00000252800	ENST00000516991	snoRNA	NOVEL	None	None	None	None	63945990	63946131	1	None	None
11	EIF3F	ENSG00000175390	ENST00000533626	protein_coding	KNOWN	CCDS7785	3275	1074	357	7991798	8023409	1	EIF3S5	eIF3-epsilon, eIF3-p47, eIF3f
11	EIF3F	ENSG00000175390	ENST00000531329	nonsense_mediated_decay	KNOWN	None	3275	375	124	8008884	8017622	1	EIF3S5	eIF3-epsilon, eIF3-p47, eIF3f
11	EIF3F	ENSG00000175390	ENST00000528653	retained_intron	KNOWN	None	3275	None	None	8008903	8014540	1	EIF3S5	eIF3-epsilon, eIF3-p47, eIF3f
11	EIF3F	ENSG00000175390	ENST00000532882	retained_intron	KNOWN	None	3275	None	None	8013369	8014545	1	EIF3S5	eIF3-epsilon, eIF3-p47, eIF3f
11	EIF3F	ENSG00000175390	ENST00000530219	retained_intron	KNOWN	None	3275	None	None	8013674	8017716	1	EIF3S5	eIF3-epsilon, eIF3-p47, eIF3f
11	EIF3F	ENSG00000175390	ENST00000528763	retained_intron	KNOWN	None	3275	None	None	8016245	8017565	1	EIF3S5	eIF3-epsilon, eIF3-p47, eIF3f
11	EIF3F	ENSG00000175390	ENST00000531572	protein_coding	PUTATIVE	None	3275	303	100	8016561	8017180	1	EIF3S5	eIF3-epsilon, eIF3-p47, eIF3f
11	EIF3F	ENSG00000175390	ENST00000537635	protein_coding	KNOWN	None	3275	1119	372	8008437	8017716	1	EIF3S5	eIF3-epsilon, eIF3-p47, eIF3f
11	EIF3F	ENSG00000175390	ENST00000309828	protein_coding	KNOWN	CCDS7785	3275	1074	357	8008867	8017716	1	EIF3S5	eIF3-epsilon, eIF3-p47, eIF3f
11	EIF3F	ENSG00000175390	ENST00000449102	protein_coding	KNOWN	None	3275	627	208	8008888	8017622	1	EIF3S5	eIF3-epsilon, eIF3-p47, eIF3f
8	NRG1-IT2	ENSG00000253222	ENST00000517967	sense_intronic	KNOWN	None	43634	None	None	32028898	32145082	1	None	None
8	NRG1-IT2	ENSG00000253222	ENST00000523320	sense_intronic	KNOWN	None	43634	None	None	32078444	32144963	1	None	None
2	None	ENSG00000224219	ENST00000448883	processed_pseudogene	KNOWN	None	None	None	None	194595279	194595413	-1	None	None
15	None	ENSG00000259170	ENST00000554440	lincRNA	KNOWN	None	None	None	None	93013463	93014776	-1	None	None
18	None	ENSG00000267444	ENST00000590640	processed_pseudogene	KNOWN	None	None	None	None	47176720	47177530	1	None	None
5	RNU6-923P	ENSG00000201623	ENST00000364753	snRNA	KNOWN	None	47886	None	None	33888161	33888267	-1	None	None
10	None	ENSG00000229569	ENST00000427035	lincRNA	KNOWN	None	None	None	None	80760241	80763560	-1	None	None
1	FCER1G	ENSG00000158869	ENST00000490414	processed_transcript	KNOWN	None	3611	None	None	161185024	161189038	1	None	None
1	FCER1G	ENSG00000158869	ENST00000367992	protein_coding	KNOWN	None	3611	339	112	161185069	161190489	1	None	None
1	FCER1G	ENSG00000158869	ENST00000289902	protein_coding	KNOWN	CCDS1225	3611	261	86	161185087	161189038	1	None	None
14	RNA5SP357	ENSG00000199480	ENST00000362610	rRNA	KNOWN	None	43257	None	None	107092677	107092791	1	RN5S357	None
14	RNA5SP389	ENSG00000199480	ENST00000362610	rRNA	KNOWN	None	43289	None	None	107092677	107092791	1	RN5S389	None
10	HNRNPA3P1	ENSG00000226790	ENST00000401429	processed_pseudogene	KNOWN	None	13729	None	None	44284697	44285835	-1	HNRPA3, HNRPA3P1	FBRNP, D10S102
10	HNRNPA3P1	ENSG00000226790	ENST00000423264	processed_pseudogene	KNOWN	None	13729	None	None	44282860	44285865	-1	HNRPA3, HNRPA3P1	FBRNP, D10S102
5	None	ENSG00000250914	ENST00000504847	processed_pseudogene	KNOWN	None	None	None	None	33970968	33972733	1	None	None
7	RPL21P75	ENSG00000213860	ENST00000396599	processed_pseudogene	KNOWN	None	36460	None	None	20042388	20042870	1	None	None
7	RPL21P75	ENSG00000213860	ENST00000398581	processed_pseudogene	KNOWN	None	36460	None	None	20042346	20042909	1	None	None
15	None	ENSG00000270304	ENST00000604029	processed_pseudogene	KNOWN	None	None	None	None	37546080	37547153	1	None	None
10	None	ENSG00000235426	ENST00000438554	antisense	KNOWN	None	None	None	None	81142084	81169030	1	None	None
17	RAB37	ENSG00000172794	ENST00000340415	protein_coding	PUTATIVE	None	30268	549	182	72666717	72743473	1	None	None
17	RAB37	ENSG00000172794	ENST00000402449	protein_coding	KNOWN	CCDS11703	30268	651	216	72667280	72742013	1	None	None
17	RAB37	ENSG00000172794	ENST00000392617	retained_intron	KNOWN	None	30268	None	None	72667319	72743474	1	None	None
17	RAB37	ENSG00000172794	ENST00000528438	protein_coding	PUTATIVE	None	30268	591	196	72732737	72742331	1	None	None
17	RAB37	ENSG00000172794	ENST00000392615	protein_coding	NOVEL	None	30268	576	191	72732959	72743439	1	None	None
17	RAB37	ENSG00000172794	ENST00000392614	protein_coding	KNOWN	CCDS54161	30268	687	228	72733056	72743474	1	None	None
17	RAB37	ENSG00000172794	ENST00000392613	protein_coding	KNOWN	CCDS32722	30268	672	223	72733356	72743439	1	None	None
17	RAB37	ENSG00000172794	ENST00000533530	retained_intron	KNOWN	None	30268	None	None	72733358	72740604	1	None	None
17	RAB37	ENSG00000172794	ENST00000527040	retained_intron	KNOWN	None	30268	None	None	72733360	72740698	1	None	None
17	RAB37	ENSG00000172794	ENST00000577548	retained_intron	KNOWN	None	30268	None	None	72733360	72741167	1	None	None
17	RAB37	ENSG00000172794	ENST00000392612	protein_coding	KNOWN	CCDS54162	30268	561	186	72733369	72743474	1	None	None
17	RAB37	ENSG00000172794	ENST00000392610	protein_coding	PUTATIVE	None	30268	570	189	72733371	72743474	1	None	None
17	RAB37	ENSG00000172794	ENST00000481224	nonsense_mediated_decay	KNOWN	CCDS32722	30268	672	223	72733410	72743474	1	None	None
17	RAB37	ENSG00000172794	ENST00000488977	retained_intron	KNOWN	None	30268	None	None	72740980	72743473	1	None	None
17	RAB37	ENSG00000172794	ENST00000531420	retained_intron	KNOWN	None	30268	None	None	72740997	72741933	1	None	None
8	None	ENSG00000253576	ENST00000522980	antisense	KNOWN	None	None	None	None	92988136	92989646	1	None	None
6	RNU6-117P	ENSG00000202285	ENST00000365415	snRNA	KNOWN	None	47080	None	None	107186823	107186929	-1	None	None
18	None	ENSG00000267674	ENST00000591105	lincRNA	KNOWN	None	None	None	None	47266193	47268433	-1	None	None
14	IGHVII-60-1	ENSG00000254329	ENST00000519079	IG_V_pseudogene	KNOWN	None	5686	None	None	107093723	107093978	-1	None	IGHV(II)-60-1
6	MIR587	ENSG00000207577	ENST00000384845	miRNA	KNOWN	None	32843	None	None	107232000	107232095	1	MIRN587	hsa-mir-587
10	TPRX1P1	ENSG00000259021	ENST00000557620	processed_pseudogene	KNOWN	None	32176	None	None	81259422	81259740	-1	None	None
1	UBXN10	ENSG00000162543	ENST00000375099	protein_coding	KNOWN	CCDS205	26354	843	280	20512578	20522541	1	UBXD3	FLJ25429
17	HOXB-AS3	ENSG00000233101	ENST00000465846	antisense	KNOWN	None	40283	None	None	46626992	46679694	1	None	None
17	HOXB-AS3	ENSG00000233101	ENST00000476204	antisense	KNOWN	None	40283	None	None	46667782	46679470	1	None	None
17	HOXB-AS3	ENSG00000233101	ENST00000474040	antisense	KNOWN	None	40283	None	None	46667804	46679283	1	None	None
17	HOXB-AS3	ENSG00000233101	ENST00000467155	antisense	KNOWN	None	40283	None	None	46667839	46683755	1	None	None
17	HOXB-AS3	ENSG00000233101	ENST00000480872	antisense	KNOWN	None	40283	None	None	46667843	46679699	1	None	None
17	HOXB-AS3	ENSG00000233101	ENST00000429755	antisense	KNOWN	None	40283	None	None	46669654	46679699	1	None	None
17	HOXB-AS3	ENSG00000233101	ENST00000492897	antisense	KNOWN	None	40283	None	None	46669675	46679697	1	None	None
17	HOXB-AS3	ENSG00000233101	ENST00000487849	antisense	KNOWN	None	40283	None	None	46669682	46683756	1	None	None
17	HOXB-AS3	ENSG00000233101	ENST00000481995	antisense	KNOWN	None	40283	None	None	46673320	46679694	1	None	None
17	HOXB-AS3	ENSG00000233101	ENST00000460041	antisense	KNOWN	None	40283	None	None	46673322	46679254	1	None	None
17	HOXB-AS3	ENSG00000233101	ENST00000474324	antisense	KNOWN	None	40283	None	None	46673322	46679693	1	None	None
17	HOXB-AS3	ENSG00000233101	ENST00000477144	antisense	KNOWN	None	40283	None	None	46673342	46679700	1	None	None
17	HOXB-AS3	ENSG00000233101	ENST00000466037	antisense	KNOWN	None	40283	None	None	46673801	46683756	1	None	None
17	HOXB-AS3	ENSG00000233101	ENST00000491264	antisense	KNOWN	None	40283	None	None	46679500	46683756	1	None	None
17	HOXB-AS3	ENSG00000233101	ENST00000494420	antisense	KNOWN	None	40283	None	None	46679853	46683776	1	None	None
18	None	ENSG00000267322	ENST00000589499	antisense	KNOWN	None	None	None	None	47340393	47377429	1	None	None
6	RNU6-1299P	ENSG00000252125	ENST00000516316	snRNA	KNOWN	None	48262	None	None	107454275	107454374	1	None	None
10	None	ENSG00000241317	ENST00000456546	lincRNA	KNOWN	None	None	None	None	81263829	81266037	-1	None	None
2	None	ENSG00000260142	ENST00000569293	lincRNA	KNOWN	None	None	None	None	194763091	194764118	1	None	None
10	LINC00619	ENSG00000204187	ENST00000374432	lincRNA	KNOWN	None	31657	None	None	44340754	44346070	1	C10orf136	bA168P8.1
7	YAE1D1	ENSG00000241127	ENST00000223273	protein_coding	KNOWN	CCDS5459	24857	681	226	39605975	39612480	1	C7orf36	GK003
7	YAE1D1	ENSG00000241127	ENST00000474392	retained_intron	KNOWN	None	24857	None	None	39605984	39610601	1	C7orf36	GK003
7	YAE1D1	ENSG00000241127	ENST00000448268	protein_coding	PUTATIVE	None	24857	264	87	39605993	39612101	1	C7orf36	GK003
7	YAE1D1	ENSG00000241127	ENST00000432096	protein_coding	KNOWN	None	24857	621	206	39606005	39649919	1	C7orf36	GK003
7	YAE1D1	ENSG00000241127	ENST00000469737	processed_transcript	PUTATIVE	None	24857	None	None	39606292	39610179	1	C7orf36	GK003
7	YAE1D1	ENSG00000241127	ENST00000485025	retained_intron	KNOWN	None	24857	None	None	39609853	39612171	1	C7orf36	GK003
19	ZNF470	ENSG00000197016	ENST00000330619	protein_coding	KNOWN	CCDS33122	22220	2154	717	57078880	57094262	1	None	CZF-1, FLJ26175
19	ZNF470	ENSG00000197016	ENST00000601902	protein_coding	PUTATIVE	None	22220	309	102	57078895	57100279	1	None	CZF-1, FLJ26175
19	ZNF470	ENSG00000197016	ENST00000601059	processed_transcript	KNOWN	None	22220	None	None	57079018	57099774	1	None	CZF-1, FLJ26175
19	ZNF470	ENSG00000197016	ENST00000594953	protein_coding	PUTATIVE	None	22220	140	45	57086016	57094263	1	None	CZF-1, FLJ26175
19	ZNF470	ENSG00000197016	ENST00000601579	processed_transcript	KNOWN	None	22220	None	None	57098003	57100276	1	None	CZF-1, FLJ26175
19	ZNF470	ENSG00000197016	ENST00000391709	protein_coding	KNOWN	CCDS33122	22220	2154	717	57078890	57094261	1	None	CZF-1, FLJ26175
6	None	ENSG00000214985	ENST00000399375	pseudogene	NOVEL	None	None	None	None	107547242	107547443	-1	None	None
10	None	ENSG00000272475	ENST00000607558	processed_pseudogene	KNOWN	None	None	None	None	81270301	81270439	-1	None	None
5	None	ENSG00000250767	ENST00000515618	processed_pseudogene	KNOWN	None	None	None	None	33997149	33997829	-1	None	None
2	None	ENSG00000224670	ENST00000446164	processed_pseudogene	KNOWN	None	None	None	None	194892643	194892888	1	None	None
2	NT5DC4	ENSG00000144130	ENST00000327581	protein_coding	NOVEL	None	27678	1287	428	113479063	113500456	1	None	None
2	NT5DC4	ENSG00000144130	ENST00000484666	retained_intron	KNOWN	None	27678	None	None	113479395	113479983	1	None	None
2	NT5DC4	ENSG00000144130	ENST00000470675	retained_intron	KNOWN	None	27678	None	None	113480541	113481893	1	None	None
2	NT5DC4	ENSG00000144130	ENST00000497526	processed_transcript	KNOWN	None	27678	None	None	113480541	113489250	1	None	None
2	NT5DC4	ENSG00000144130	ENST00000462854	retained_intron	KNOWN	None	27678	None	None	113483820	113484861	1	None	None
2	NT5DC4	ENSG00000144130	ENST00000491170	processed_transcript	KNOWN	None	27678	None	None	113487234	113496624	1	None	None
6	None	ENSG00000203384	ENST00000366207	pseudogene	NOVEL	None	None	None	None	107549615	107549859	-1	None	None
19	None	ENSG00000265070	ENST00000580221	miRNA	NOVEL	None	None	None	None	57230571	57230655	-1	None	None
19	DDA1	ENSG00000130311	ENST00000593466	nonsense_mediated_decay	KNOWN	CCDS12357	28360	309	102	17420327	17431301	1	C19orf58	PCIA1, MGC2594
19	DDA1	ENSG00000130311	ENST00000359866	protein_coding	KNOWN	CCDS12357	28360	309	102	17420340	17434110	1	C19orf58	PCIA1, MGC2594
19	DDA1	ENSG00000130311	ENST00000596582	nonsense_mediated_decay	KNOWN	CCDS12357	28360	309	102	17420378	17431176	1	C19orf58	PCIA1, MGC2594
19	DDA1	ENSG00000130311	ENST00000596925	retained_intron	KNOWN	None	28360	None	None	17420383	17425541	1	C19orf58	PCIA1, MGC2594
19	DDA1	ENSG00000130311	ENST00000594501	retained_intron	KNOWN	None	28360	None	None	17426581	17430528	1	C19orf58	PCIA1, MGC2594
17	CCDC42	ENSG00000161973	ENST00000293845	protein_coding	KNOWN	CCDS11145	26528	951	316	8633252	8648154	-1	None	FLJ32734, CCDC42A
17	CCDC42	ENSG00000161973	ENST00000539522	protein_coding	KNOWN	CCDS54088	26528	729	242	8633268	8648105	-1	None	FLJ32734, CCDC42A
17	CCDC42	ENSG00000161973	ENST00000581598	protein_coding	KNOWN	None	26528	36	11	8647892	8648537	-1	None	FLJ32734, CCDC42A
10	None	ENSG00000271985	ENST00000606318	processed_pseudogene	KNOWN	None	None	None	None	81286264	81286387	-1	None	None
6	None	ENSG00000203285	ENST00000366115	pseudogene	NOVEL	None	None	None	None	107550448	107550687	1	None	None
22	MB	ENSG00000198125	ENST00000401702	protein_coding	NOVEL	None	6915	300	99	36002811	36011760	-1	None	PVALB
22	MB	ENSG00000198125	ENST00000397326	protein_coding	KNOWN	CCDS13917	6915	465	154	36002811	36013503	-1	None	PVALB
22	MB	ENSG00000198125	ENST00000406324	protein_coding	KNOWN	CCDS13917	6915	465	154	36003319	36018608	-1	None	PVALB
22	MB	ENSG00000198125	ENST00000443033	protein_coding	KNOWN	None	6915	429	142	36003380	36019448	-1	None	PVALB
22	MB	ENSG00000198125	ENST00000442617	protein_coding	NOVEL	None	6915	222	73	36003422	36013376	-1	None	PVALB
22	MB	ENSG00000198125	ENST00000451685	protein_coding	KNOWN	None	6915	318	105	36006931	36013633	-1	None	PVALB
22	MB	ENSG00000198125	ENST00000447607	protein_coding	KNOWN	None	6915	318	105	36006931	36033998	-1	None	PVALB
22	MB	ENSG00000198125	ENST00000419229	protein_coding	KNOWN	None	6915	232	76	36007017	36018571	-1	None	PVALB
22	MB	ENSG00000198125	ENST00000472240	processed_transcript	KNOWN	None	6915	None	None	36023035	36031181	-1	None	PVALB
22	MB	ENSG00000198125	ENST00000359787	protein_coding	KNOWN	CCDS13917	6915	465	154	36002811	36019401	-1	None	PVALB
22	MB	ENSG00000198125	ENST00000397328	protein_coding	KNOWN	CCDS13917	6915	465	154	36002811	36013555	-1	None	PVALB
12	ACAD10	ENSG00000111271	ENST00000511915	retained_intron	KNOWN	None	21597	None	None	112123860	112130938	1	None	MGC5601
12	ACAD10	ENSG00000111271	ENST00000514615	protein_coding	KNOWN	None	21597	288	95	112123868	112140066	1	None	MGC5601
12	ACAD10	ENSG00000111271	ENST00000509936	retained_intron	KNOWN	None	21597	None	None	112123872	112147796	1	None	MGC5601
12	ACAD10	ENSG00000111271	ENST00000413681	processed_transcript	KNOWN	None	21597	None	None	112123872	112186936	1	None	MGC5601
12	ACAD10	ENSG00000111271	ENST00000549590	protein_coding	PUTATIVE	None	21597	2133	710	112123875	112183438	1	None	MGC5601
12	ACAD10	ENSG00000111271	ENST00000455480	protein_coding	KNOWN	CCDS44973	21597	3273	1090	112123880	112194898	1	None	MGC5601
12	ACAD10	ENSG00000111271	ENST00000552965	protein_coding	PUTATIVE	None	21597	40	12	112123881	112130553	1	None	MGC5601
12	ACAD10	ENSG00000111271	ENST00000507135	retained_intron	KNOWN	None	21597	None	None	112123885	112159794	1	None	MGC5601
12	ACAD10	ENSG00000111271	ENST00000515283	protein_coding	PUTATIVE	None	21597	438	145	112123886	112184091	1	None	MGC5601
12	ACAD10	ENSG00000111271	ENST00000313698	protein_coding	KNOWN	CCDS31903	21597	3180	1059	112123902	112194901	1	None	MGC5601
12	ACAD10	ENSG00000111271	ENST00000502746	processed_transcript	KNOWN	None	21597	None	None	112143680	112167745	1	None	MGC5601
12	ACAD10	ENSG00000111271	ENST00000552706	protein_coding	PUTATIVE	None	21597	678	225	112150302	112171851	1	None	MGC5601
12	ACAD10	ENSG00000111271	ENST00000514847	retained_intron	KNOWN	None	21597	None	None	112150328	112159793	1	None	MGC5601
12	ACAD10	ENSG00000111271	ENST00000507683	protein_coding	PUTATIVE	None	21597	833	276	112150328	112182752	1	None	MGC5601
12	ACAD10	ENSG00000111271	ENST00000503490	processed_transcript	KNOWN	None	21597	None	None	112153301	112165922	1	None	MGC5601
12	ACAD10	ENSG00000111271	ENST00000508303	processed_transcript	KNOWN	None	21597	None	None	112153310	112194903	1	None	MGC5601
12	ACAD10	ENSG00000111271	ENST00000552177	retained_intron	KNOWN	None	21597	None	None	112171594	112182853	1	None	MGC5601
12	ACAD10	ENSG00000111271	ENST00000504803	retained_intron	KNOWN	None	21597	None	None	112174662	112187573	1	None	MGC5601
12	ACAD10	ENSG00000111271	ENST00000546647	retained_intron	KNOWN	None	21597	None	None	112182375	112185012	1	None	MGC5601
12	ACAD10	ENSG00000111271	ENST00000505487	processed_transcript	KNOWN	None	21597	None	None	112184964	112187007	1	None	MGC5601
12	ACAD10	ENSG00000111271	ENST00000550198	processed_transcript	KNOWN	None	21597	None	None	112184964	112187007	1	None	MGC5601
12	ACAD10	ENSG00000111271	ENST00000507688	processed_transcript	KNOWN	None	21597	None	None	112185096	112187007	1	None	MGC5601
12	ACAD10	ENSG00000111271	ENST00000547491	retained_intron	KNOWN	None	21597	None	None	112186550	112194324	1	None	MGC5601
12	ACAD10	ENSG00000111271	ENST00000512792	retained_intron	KNOWN	None	21597	None	None	112190534	112194903	1	None	MGC5601
12	ACAD10	ENSG00000111271	ENST00000392636	protein_coding	KNOWN	None	21597	1479	492	112123857	112186843	1	None	MGC5601
19	OR5AH1P	ENSG00000268067	ENST00000595968	transcribed_processed_pseudogene	KNOWN	None	14714	None	None	57272301	57272583	1	None	None
5	None	ENSG00000271771	ENST00000607051	lincRNA	KNOWN	None	None	None	None	34158226	34158872	1	None	None
1	None	ENSG00000231050	ENST00000412228	antisense	KNOWN	None	None	None	None	1822910	1824097	1	None	None
7	None	ENSG00000267055	ENST00000590912	lincRNA	KNOWN	None	None	None	None	20135760	20170098	1	None	None
2	GLULP6	ENSG00000215043	ENST00000399502	processed_pseudogene	KNOWN	None	37990	None	None	194994078	194994990	-1	None	None
6	RPS24P12	ENSG00000220237	ENST00000402084	processed_pseudogene	KNOWN	None	35623	None	None	107550963	107551356	1	None	None
10	RPS12P18	ENSG00000232965	ENST00000442381	processed_pseudogene	KNOWN	None	36421	None	None	81303843	81304112	1	None	None
22	SLC16A8	ENSG00000100156	ENST00000320521	protein_coding	KNOWN	CCDS13966	16270	1515	504	38474141	38479149	-1	None	MCT3, REMP
22	SLC16A8	ENSG00000100156	ENST00000469516	processed_transcript	KNOWN	None	16270	None	None	38474141	38480100	-1	None	MCT3, REMP
22	SLC16A8	ENSG00000100156	ENST00000427592	protein_coding	KNOWN	None	16270	292	96	38477962	38480100	-1	None	MCT3, REMP
22	LARGE-AS1	ENSG00000224973	ENST00000453336	antisense	KNOWN	None	40336	None	None	34121000	34133761	1	None	None
22	LARGE-AS1	ENSG00000224973	ENST00000424291	antisense	KNOWN	None	40336	None	None	34121013	34146830	1	None	None
22	LARGE-AS1	ENSG00000224973	ENST00000438159	antisense	KNOWN	None	40336	None	None	34121026	34146729	1	None	None
22	LARGE-AS1	ENSG00000224973	ENST00000448275	antisense	KNOWN	None	40336	None	None	34121055	34128488	1	None	None
22	LARGE-AS1	ENSG00000224973	ENST00000450974	antisense	KNOWN	None	40336	None	None	34121058	34140179	1	None	None
22	LARGE-AS1	ENSG00000224973	ENST00000445892	retained_intron	KNOWN	None	40336	None	None	34139996	34146644	1	None	None
22	LARGE-AS1	ENSG00000224973	ENST00000416275	antisense	KNOWN	None	40336	None	None	34140116	34146670	1	None	None
6	IRF4	ENSG00000137265	ENST00000380956	protein_coding	KNOWN	CCDS4469	6119	1356	451	391739	411447	1	MUM1	LSIRF
6	IRF4	ENSG00000137265	ENST00000468485	processed_transcript	KNOWN	None	6119	None	None	391752	396074	1	MUM1	LSIRF
6	IRF4	ENSG00000137265	ENST00000495137	processed_transcript	KNOWN	None	6119	None	None	391768	397546	1	MUM1	LSIRF
6	IRF4	ENSG00000137265	ENST00000493114	nonsense_mediated_decay	KNOWN	None	6119	1233	410	391768	407618	1	MUM1	LSIRF
6	IRF4	ENSG00000137265	ENST00000469834	processed_transcript	KNOWN	None	6119	None	None	393279	395915	1	MUM1	LSIRF
17	ANKRD13B	ENSG00000198720	ENST00000583728	protein_coding	PUTATIVE	None	26363	206	67	27916787	27936140	1	None	FLJ25555
17	ANKRD13B	ENSG00000198720	ENST00000487527	retained_intron	KNOWN	None	26363	None	None	27916801	27941779	1	None	FLJ25555
17	ANKRD13B	ENSG00000198720	ENST00000394859	protein_coding	KNOWN	CCDS11251	26363	1881	626	27920486	27941779	1	None	FLJ25555
17	ANKRD13B	ENSG00000198720	ENST00000488766	nonsense_mediated_decay	KNOWN	CCDS11251	26363	1881	626	27920486	27941779	1	None	FLJ25555
17	ANKRD13B	ENSG00000198720	ENST00000493506	retained_intron	KNOWN	None	26363	None	None	27926401	27941778	1	None	FLJ25555
17	ANKRD13B	ENSG00000198720	ENST00000578811	retained_intron	KNOWN	None	26363	None	None	27926430	27935974	1	None	FLJ25555
17	ANKRD13B	ENSG00000198720	ENST00000578943	retained_intron	KNOWN	None	26363	None	None	27935670	27937766	1	None	FLJ25555
17	ANKRD13B	ENSG00000198720	ENST00000579719	protein_coding	PUTATIVE	None	26363	387	128	27939482	27940192	1	None	FLJ25555
10	PPA1	ENSG00000180817	ENST00000373232	protein_coding	KNOWN	CCDS7299	9226	870	289	71962587	71993183	-1	PP	SID6-8061, Ppase, IOPPP, PP1
10	PPA1	ENSG00000180817	ENST00000373230	protein_coding	KNOWN	None	9226	537	178	71969951	71993093	-1	PP	SID6-8061, Ppase, IOPPP, PP1
10	PPA1	ENSG00000180817	ENST00000460755	processed_transcript	KNOWN	None	9226	None	None	71978201	71990135	-1	PP	SID6-8061, Ppase, IOPPP, PP1
10	PPA1	ENSG00000180817	ENST00000495346	processed_transcript	KNOWN	None	9226	None	None	71978535	71993667	-1	PP	SID6-8061, Ppase, IOPPP, PP1
8	None	ENSG00000253139	ENST00000523724	lincRNA	KNOWN	None	None	None	None	57449317	57453056	-1	None	None
8	None	ENSG00000253139	ENST00000523166	lincRNA	KNOWN	None	None	None	None	57449616	57452993	-1	None	None
11	TRMT112	ENSG00000173113	ENST00000535750	protein_coding	PUTATIVE	None	26940	246	81	64083932	64084959	-1	None	HSPC152, HSPC170, TRM112, TRMT11-2
11	TRMT112	ENSG00000173113	ENST00000535126	protein_coding	PUTATIVE	None	26940	192	63	64084163	64084982	-1	None	HSPC152, HSPC170, TRM112, TRMT11-2
11	TRMT112	ENSG00000173113	ENST00000544844	protein_coding	KNOWN	CCDS8068	26940	378	125	64084163	64085556	-1	None	HSPC152, HSPC170, TRM112, TRMT11-2
11	TRMT112	ENSG00000173113	ENST00000537918	retained_intron	KNOWN	None	26940	None	None	64084166	64084813	-1	None	HSPC152, HSPC170, TRM112, TRMT11-2
11	TRMT112	ENSG00000173113	ENST00000308774	protein_coding	NOVEL	None	26940	363	120	64084167	64085030	-1	None	HSPC152, HSPC170, TRM112, TRMT11-2
11	TRMT112	ENSG00000173113	ENST00000539854	protein_coding	PUTATIVE	None	26940	321	106	64084168	64085025	-1	None	HSPC152, HSPC170, TRM112, TRMT11-2
7	MACC1-AS1	ENSG00000228598	ENST00000439285	antisense	KNOWN	None	41257	None	None	20181539	20193154	1	None	None
16	LINC00273	ENSG00000256642	ENST00000539813	lincRNA	KNOWN	None	38595	None	None	33961052	33962503	-1	NCRNA00273	TOP, NCRNA00273-1
14	DLGAP5	ENSG00000126787	ENST00000395425	protein_coding	NOVEL	CCDS53897	16864	2529	842	55614830	55658262	-1	DLG7	KIAA0008, DLG1, HURP
14	DLGAP5	ENSG00000126787	ENST00000247191	protein_coding	KNOWN	CCDS9723	16864	2541	846	55614854	55658396	-1	DLG7	KIAA0008, DLG1, HURP
14	DLGAP5	ENSG00000126787	ENST00000554007	retained_intron	KNOWN	None	16864	None	None	55617046	55619362	-1	DLG7	KIAA0008, DLG1, HURP
14	DLGAP5	ENSG00000126787	ENST00000557645	protein_coding	PUTATIVE	None	16864	703	233	55647374	55657890	-1	DLG7	KIAA0008, DLG1, HURP
14	DLGAP5	ENSG00000126787	ENST00000554067	protein_coding	PUTATIVE	None	16864	333	110	55650324	55658326	-1	DLG7	KIAA0008, DLG1, HURP
14	SALL2	ENSG00000165821	ENST00000327430	protein_coding	KNOWN	CCDS32045	10526	3024	1007	21989232	22005350	-1	None	KIAA0360, Hsal2, ZNF795
14	SALL2	ENSG00000165821	ENST00000317492	protein_coding	PUTATIVE	None	10526	603	200	21989234	22005068	-1	None	KIAA0360, Hsal2, ZNF795
14	SALL2	ENSG00000165821	ENST00000538754	protein_coding	PUTATIVE	None	10526	597	198	21989673	21994634	-1	None	KIAA0360, Hsal2, ZNF795
14	SALL2	ENSG00000165821	ENST00000546363	protein_coding	PUTATIVE	None	10526	2708	901	21989756	22005036	-1	None	KIAA0360, Hsal2, ZNF795
14	SALL2	ENSG00000165821	ENST00000450879	protein_coding	PUTATIVE	None	10526	2721	906	21989785	21994361	-1	None	KIAA0360, Hsal2, ZNF795
14	SALL2	ENSG00000165821	ENST00000537235	protein_coding	PUTATIVE	None	10526	573	190	21993283	21994347	-1	None	KIAA0360, Hsal2, ZNF795
14	SALL2	ENSG00000165821	ENST00000541965	protein_coding	PUTATIVE	None	10526	297	98	21993379	22005238	-1	None	KIAA0360, Hsal2, ZNF795
19	TSSK6	ENSG00000178093	ENST00000587522	nonsense_mediated_decay	KNOWN	CCDS12403	30410	822	273	19623222	19626357	-1	None	SSTK, FLJ24002, CT72
19	TSSK6	ENSG00000178093	ENST00000602623	nonsense_mediated_decay	KNOWN	None	30410	330	109	19623265	19625744	-1	None	SSTK, FLJ24002, CT72
19	TSSK6	ENSG00000178093	ENST00000585580	protein_coding	KNOWN	CCDS12403	30410	822	273	19625028	19626494	-1	None	SSTK, FLJ24002, CT72
19	TSSK6	ENSG00000178093	ENST00000360913	protein_coding	KNOWN	CCDS12403	30410	822	273	19623230	19626838	-1	None	SSTK, FLJ24002, CT72
1	None	ENSG00000233542	ENST00000443930	antisense	KNOWN	None	None	None	None	1944652	1946969	-1	None	None
2	HNRNPA1P47	ENSG00000236695	ENST00000453073	processed_pseudogene	KNOWN	None	48777	None	None	195052103	195053033	1	None	None
16	None	ENSG00000207986	ENST00000385251	miRNA	NOVEL	None	None	None	None	33961652	33961766	1	None	None
8	OPLAH	ENSG00000178814	ENST00000534424	processed_transcript	KNOWN	None	8149	None	None	145106167	145115606	-1	None	OPLA, 5-Opase
8	OPLAH	ENSG00000178814	ENST00000527993	retained_intron	KNOWN	None	8149	None	None	145107673	145109556	-1	None	OPLA, 5-Opase
8	OPLAH	ENSG00000178814	ENST00000531027	retained_intron	KNOWN	None	8149	None	None	145108116	145109782	-1	None	OPLA, 5-Opase
8	OPLAH	ENSG00000178814	ENST00000567871	processed_transcript	KNOWN	None	8149	None	None	145113790	145118735	-1	None	OPLA, 5-Opase
8	OPLAH	ENSG00000178814	ENST00000426825	protein_coding	KNOWN	None	8149	3867	1288	145106168	145115584	-1	None	OPLA, 5-Opase
16	RNA5-8SP2	ENSG00000200434	ENST00000363564	rRNA	KNOWN	None	41956	None	None	33965426	33965577	1	RN5-8S2	None
11	None	ENSG00000255075	ENST00000526649	processed_pseudogene	KNOWN	None	None	None	None	13777574	13779107	1	None	None
15	None	ENSG00000260618	ENST00000562062	antisense	KNOWN	None	None	None	None	52870039	52890906	1	None	None
15	None	ENSG00000260618	ENST00000566344	antisense	KNOWN	None	None	None	None	52877104	52879849	1	None	None
14	None	ENSG00000257614	ENST00000548199	lincRNA	KNOWN	None	None	None	None	36416762	36419250	-1	None	None
20	EDN3	ENSG00000124205	ENST00000337938	protein_coding	KNOWN	CCDS13477	3178	717	238	57875482	57901047	1	None	ET3
20	EDN3	ENSG00000124205	ENST00000311585	protein_coding	KNOWN	CCDS13479	3178	660	219	57875498	57901047	1	None	ET3
20	EDN3	ENSG00000124205	ENST00000371025	protein_coding	KNOWN	None	3178	579	192	57875673	57899801	1	None	ET3
20	EDN3	ENSG00000124205	ENST00000395654	protein_coding	KNOWN	CCDS13478	3178	675	224	57875758	57901047	1	None	ET3
20	EDN3	ENSG00000124205	ENST00000371028	protein_coding	KNOWN	CCDS13477	3178	717	238	57875499	57901046	1	None	ET3
16	None	ENSG00000260854	ENST00000568121	lincRNA	KNOWN	None	None	None	None	34213115	34214215	-1	None	None
15	SNORD115-47	ENSG00000212528	ENST00000391226	snoRNA	KNOWN	None	33065	None	None	25513613	25513698	1	None	HBII-52-47
5	AP3S1	ENSG00000177879	ENST00000316788	protein_coding	KNOWN	CCDS4123	2013	582	193	115177178	115249778	1	CLAPS3	None
5	AP3S1	ENSG00000177879	ENST00000514118	processed_transcript	KNOWN	None	2013	None	None	115177289	115205828	1	CLAPS3	None
5	AP3S1	ENSG00000177879	ENST00000515066	retained_intron	KNOWN	None	2013	None	None	115177643	115239785	1	CLAPS3	None
5	AP3S1	ENSG00000177879	ENST00000506430	nonsense_mediated_decay	KNOWN	None	2013	489	162	115177655	115249154	1	CLAPS3	None
5	AP3S1	ENSG00000177879	ENST00000395548	retained_intron	KNOWN	None	2013	None	None	115177694	115249708	1	CLAPS3	None
5	AP3S1	ENSG00000177879	ENST00000509055	retained_intron	KNOWN	None	2013	None	None	115178184	115205828	1	CLAPS3	None
5	AP3S1	ENSG00000177879	ENST00000507436	retained_intron	KNOWN	None	2013	None	None	115202358	115230859	1	CLAPS3	None
5	AP3S1	ENSG00000177879	ENST00000505423	processed_transcript	PUTATIVE	None	2013	None	None	115230784	115249597	1	CLAPS3	None
5	SQSTM1	ENSG00000161011	ENST00000506042	processed_transcript	PUTATIVE	None	11280	None	None	179233398	179240024	1	PDB3, OSIL	p62, p60, p62B, A170
5	SQSTM1	ENSG00000161011	ENST00000514093	protein_coding	KNOWN	None	11280	502	166	179233408	179252226	1	PDB3, OSIL	p62, p60, p62B, A170
5	SQSTM1	ENSG00000161011	ENST00000506690	processed_transcript	KNOWN	None	11280	None	None	179234324	179240598	1	PDB3, OSIL	p62, p60, p62B, A170
5	SQSTM1	ENSG00000161011	ENST00000512234	processed_transcript	KNOWN	None	11280	None	None	179238615	179240641	1	PDB3, OSIL	p62, p60, p62B, A170
5	SQSTM1	ENSG00000161011	ENST00000422245	protein_coding	KNOWN	None	11280	421	139	179245878	179251323	1	PDB3, OSIL	p62, p60, p62B, A170
5	SQSTM1	ENSG00000161011	ENST00000481335	processed_transcript	KNOWN	None	11280	None	None	179245967	179250968	1	PDB3, OSIL	p62, p60, p62B, A170
5	SQSTM1	ENSG00000161011	ENST00000464493	processed_transcript	KNOWN	None	11280	None	None	179247607	179251287	1	PDB3, OSIL	p62, p60, p62B, A170
5	SQSTM1	ENSG00000161011	ENST00000389805	protein_coding	KNOWN	CCDS34317	11280	1323	440	179247759	179265078	1	PDB3, OSIL	p62, p60, p62B, A170
5	SQSTM1	ENSG00000161011	ENST00000508284	nonsense_mediated_decay	KNOWN	None	11280	210	69	179247878	179251237	1	PDB3, OSIL	p62, p60, p62B, A170
5	SQSTM1	ENSG00000161011	ENST00000453046	nonsense_mediated_decay	KNOWN	None	11280	222	73	179247905	179250939	1	PDB3, OSIL	p62, p60, p62B, A170
5	SQSTM1	ENSG00000161011	ENST00000504627	protein_coding	PUTATIVE	None	11280	570	189	179247905	179251057	1	PDB3, OSIL	p62, p60, p62B, A170
5	SQSTM1	ENSG00000161011	ENST00000510187	protein_coding	PUTATIVE	None	11280	1137	378	179247921	179264218	1	PDB3, OSIL	p62, p60, p62B, A170
5	SQSTM1	ENSG00000161011	ENST00000360718	protein_coding	KNOWN	CCDS47355	11280	1071	356	179249485	179264255	1	PDB3, OSIL	p62, p60, p62B, A170
5	SQSTM1	ENSG00000161011	ENST00000485412	retained_intron	KNOWN	None	11280	None	None	179250565	179251314	1	PDB3, OSIL	p62, p60, p62B, A170
5	SQSTM1	ENSG00000161011	ENST00000466342	retained_intron	KNOWN	None	11280	None	None	179250858	179260386	1	PDB3, OSIL	p62, p60, p62B, A170
5	SQSTM1	ENSG00000161011	ENST00000376929	protein_coding	KNOWN	CCDS47355	11280	1071	356	179233388	179265075	1	PDB3, OSIL	p62, p60, p62B, A170
5	SQSTM1	ENSG00000161011	ENST00000402874	protein_coding	KNOWN	CCDS47355	11280	1071	356	179247919	179264252	1	PDB3, OSIL	p62, p60, p62B, A170
5	RNU6-477P	ENSG00000206614	ENST00000383887	snRNA	KNOWN	None	47440	None	None	168979453	168979559	1	None	None
3	PLSCR5	ENSG00000231213	ENST00000492200	protein_coding	KNOWN	CCDS46931	19952	816	271	146294342	146323026	-1	None	None
3	PLSCR5	ENSG00000231213	ENST00000482567	protein_coding	NOVEL	None	19952	780	259	146294346	146323026	-1	None	None
3	PLSCR5	ENSG00000231213	ENST00000443512	protein_coding	KNOWN	CCDS46931	19952	816	271	146303625	146324003	-1	None	None
7	RNU6-1272P	ENSG00000199646	ENST00000362776	snRNA	KNOWN	None	48235	None	None	138561105	138561211	-1	None	None
X	None	ENSG00000229825	ENST00000418891	processed_pseudogene	KNOWN	None	None	None	None	123466768	123467226	1	None	None
5	None	ENSG00000253269	ENST00000523398	antisense	KNOWN	None	None	None	None	169199970	169206369	-1	None	None
HG1308_PATCH	COPG2	ENSG00000266779	ENST00000582694	protein_coding	KNOWN	None	2237	2616	871	130146082	130332402	-1	None	2-COP
HG1308_PATCH	COPG2	ENSG00000266779	ENST00000583530	retained_intron	KNOWN	None	2237	None	None	130146365	130148067	-1	None	2-COP
HG1308_PATCH	COPG2	ENSG00000266779	ENST00000604612	nonsense_mediated_decay	KNOWN	None	2237	105	34	130148496	130218778	-1	None	2-COP
HG1308_PATCH	COPG2	ENSG00000266779	ENST00000584639	protein_coding	PUTATIVE	None	2237	2181	726	130210432	130332359	-1	None	2-COP
HG1308_PATCH	COPG2	ENSG00000266779	ENST00000583707	protein_coding	PUTATIVE	None	2237	301	99	130274725	130332014	-1	None	2-COP
15	SNORD115-48	ENSG00000201634	ENST00000364764	snoRNA	KNOWN	None	33343	None	None	25514930	25515005	1	None	HBII-52-48
7	None	ENSG00000229677	ENST00000429934	processed_pseudogene	KNOWN	None	None	None	None	138734202	138734752	-1	None	None
1	None	ENSG00000268387	ENST00000594609	protein_coding	KNOWN	None	None	231	76	161190160	161192296	1	None	None
2	None	ENSG00000225539	ENST00000438505	lincRNA	KNOWN	None	None	None	None	195208993	195251230	1	None	None
2	None	ENSG00000225539	ENST00000450848	lincRNA	KNOWN	None	None	None	None	195208993	195255651	1	None	None
2	None	ENSG00000225539	ENST00000419786	lincRNA	KNOWN	None	None	None	None	195209006	195284369	1	None	None
8	None	ENSG00000241431	ENST00000464216	processed_transcript	KNOWN	None	None	None	None	57500944	57501346	1	None	None
8	None	ENSG00000241431	ENST00000460682	transcribed_processed_pseudogene	KNOWN	None	None	None	None	57500966	57501259	1	None	None
5	MIR378E	ENSG00000263831	ENST00000581976	miRNA	KNOWN	None	41671	None	None	169455492	169455570	1	None	hsa-mir-378e
7	None	ENSG00000239254	ENST00000489759	processed_pseudogene	KNOWN	None	None	None	None	138857262	138859012	-1	None	None
14	ILF2P2	ENSG00000257720	ENST00000547482	processed_pseudogene	KNOWN	None	44696	None	None	36523403	36524519	-1	None	None
16	None	ENSG00000239193	ENST00000459406	snoRNA	NOVEL	None	None	None	None	29550583	29550686	-1	None	None
6	FTH1P5	ENSG00000230204	ENST00000425761	processed_pseudogene	KNOWN	None	3996	None	None	50880425	50880969	-1	FTHP1, FTHL5	None
15	None	ENSG00000259935	ENST00000566282	sense_intronic	KNOWN	None	None	None	None	52940831	52942063	-1	None	None
7	None	ENSG00000233834	ENST00000439058	lincRNA	KNOWN	None	None	None	None	20257200	20261304	1	None	None
7	None	ENSG00000233834	ENST00000430859	lincRNA	KNOWN	None	None	None	None	20257209	20261315	1	None	None
7	None	ENSG00000233834	ENST00000439446	retained_intron	KNOWN	None	None	None	None	20259062	20261323	1	None	None
7	HNRNPCP7	ENSG00000228653	ENST00000456056	processed_pseudogene	KNOWN	None	48818	None	None	63961203	63962107	1	None	None
5	KRT18P41	ENSG00000253219	ENST00000518924	processed_pseudogene	KNOWN	None	33411	None	None	169567668	169568944	-1	None	None
7	GATAD1	ENSG00000157259	ENST00000287957	protein_coding	KNOWN	CCDS5625	29941	810	269	92076767	92088150	1	None	ODAG, RG083M05.2, FLJ22489
7	GATAD1	ENSG00000157259	ENST00000493878	retained_intron	KNOWN	None	29941	None	None	92079032	92086475	1	None	ODAG, RG083M05.2, FLJ22489
7	GATAD1	ENSG00000157259	ENST00000465247	retained_intron	KNOWN	None	29941	None	None	92083369	92085851	1	None	ODAG, RG083M05.2, FLJ22489
2	HNRNPLL	ENSG00000143889	ENST00000449105	protein_coding	KNOWN	None	25127	1629	542	38789120	38830108	-1	HNRPLL	None
2	HNRNPLL	ENSG00000143889	ENST00000409636	protein_coding	KNOWN	CCDS46261	25127	1614	537	38789120	38830171	-1	HNRPLL	None
2	HNRNPLL	ENSG00000143889	ENST00000272249	nonsense_mediated_decay	KNOWN	None	25127	653	216	38790650	38818783	-1	HNRPLL	None
2	HNRNPLL	ENSG00000143889	ENST00000409328	protein_coding	NOVEL	None	25127	1527	508	38791174	38829999	-1	HNRPLL	None
2	HNRNPLL	ENSG00000143889	ENST00000417371	protein_coding	PUTATIVE	None	25127	327	108	38793128	38796346	-1	HNRPLL	None
2	HNRNPLL	ENSG00000143889	ENST00000441689	protein_coding	PUTATIVE	None	25127	400	132	38795221	38796978	-1	HNRPLL	None
2	HNRNPLL	ENSG00000143889	ENST00000410076	protein_coding	KNOWN	None	25127	828	275	38808217	38830071	-1	HNRPLL	None
2	HNRNPLL	ENSG00000143889	ENST00000488099	retained_intron	KNOWN	None	25127	None	None	38808957	38812889	-1	HNRPLL	None
2	HNRNPLL	ENSG00000143889	ENST00000425682	protein_coding	PUTATIVE	None	25127	447	148	38810985	38827168	-1	HNRPLL	None
2	HNRNPLL	ENSG00000143889	ENST00000498516	processed_transcript	PUTATIVE	None	25127	None	None	38818718	38830728	-1	HNRPLL	None
2	HNRNPLL	ENSG00000143889	ENST00000378915	protein_coding	KNOWN	None	25127	1527	508	38790328	38829768	-1	HNRPLL	None
2	HNRNPLL	ENSG00000143889	ENST00000358367	protein_coding	KNOWN	None	25127	849	282	38805098	38830178	-1	HNRPLL	None
1	None	ENSG00000226969	ENST00000445600	antisense	KNOWN	None	None	None	None	1980642	1981090	-1	None	None
1	None	ENSG00000226969	ENST00000449154	antisense	KNOWN	None	None	None	None	1980743	1981509	-1	None	None
18	SCARNA17	ENSG00000251992	ENST00000516183	snoRNA	KNOWN	None	32574	None	None	47340503	47340646	1	None	mgU12-22/U4-8, U91
8	None	ENSG00000254055	ENST00000521215	lincRNA	KNOWN	None	None	None	None	57552460	57569024	-1	None	None
18	None	ENSG00000252139	ENST00000516330	snoRNA	NOVEL	None	None	None	None	47340731	47340813	1	None	None
11	None	ENSG00000255088	ENST00000532487	processed_pseudogene	KNOWN	None	None	None	None	13779658	13779892	-1	None	None
X	None	ENSG00000236880	ENST00000415547	processed_pseudogene	KNOWN	None	None	None	None	123822354	123822688	-1	None	None
15	OR11J2P	ENSG00000258855	ENST00000555298	transcribed_unprocessed_pseudogene	KNOWN	None	15370	None	None	21166004	21166910	1	None	None
1	APOA2	ENSG00000158874	ENST00000481413	processed_transcript	KNOWN	None	601	None	None	161192082	161193403	-1	None	None
1	APOA2	ENSG00000158874	ENST00000367990	protein_coding	KNOWN	CCDS1226	601	303	100	161192082	161193418	-1	None	None
1	APOA2	ENSG00000158874	ENST00000468465	processed_transcript	KNOWN	None	601	None	None	161192082	161193421	-1	None	None
1	APOA2	ENSG00000158874	ENST00000463812	processed_transcript	KNOWN	None	601	None	None	161192082	161193421	-1	None	None
1	APOA2	ENSG00000158874	ENST00000481511	processed_transcript	KNOWN	None	601	None	None	161192083	161193215	-1	None	None
1	APOA2	ENSG00000158874	ENST00000470459	processed_transcript	KNOWN	None	601	None	None	161192086	161193418	-1	None	None
1	APOA2	ENSG00000158874	ENST00000464492	processed_transcript	KNOWN	None	601	None	None	161192106	161193405	-1	None	None
1	APOA2	ENSG00000158874	ENST00000491350	processed_transcript	KNOWN	None	601	None	None	161192109	161193198	-1	None	None
1	APOA2	ENSG00000158874	ENST00000469730	processed_transcript	KNOWN	None	601	None	None	161192136	161193349	-1	None	None
1	APOA2	ENSG00000158874	ENST00000463273	processed_transcript	KNOWN	None	601	None	None	161192213	161193375	-1	None	None
18	None	ENSG00000201668	ENST00000364798	misc_RNA	NOVEL	None	None	None	None	47397925	47398036	-1	None	None
15	None	ENSG00000259203	ENST00000560818	lincRNA	KNOWN	None	None	None	None	53093811	53097139	-1	None	None
15	SNORD109B	ENSG00000239169	ENST00000458961	snoRNA	KNOWN	None	32774	None	None	25523490	25523556	1	None	HBII-438b
18	RNA5SP457	ENSG00000200527	ENST00000363657	rRNA	KNOWN	None	43357	None	None	47472636	47472759	-1	RN5S457	None
5	None	ENSG00000248469	ENST00000512675	protein_coding	PUTATIVE	None	None	189	62	175476681	175489024	-1	None	None
11	None	ENSG00000255411	ENST00000531749	lincRNA	KNOWN	None	None	None	None	13806937	13869549	1	None	None
2	None	ENSG00000225394	ENST00000418805	processed_pseudogene	KNOWN	None	None	None	None	195319305	195319866	-1	None	None
Y	TSPY8	ENSG00000229549	ENST00000287721	protein_coding	KNOWN	CCDS59533	37471	927	308	9195406	9198202	1	None	None
Y	TSPY8	ENSG00000229549	ENST00000383000	protein_coding	KNOWN	None	37471	885	294	9195452	9198201	1	None	None
Y	TSPY8	ENSG00000229549	ENST00000477879	processed_transcript	KNOWN	None	37471	None	None	9195452	9198208	1	None	None
Y	TSPY8	ENSG00000229549	ENST00000436159	processed_transcript	PUTATIVE	None	37471	None	None	9196812	9198193	1	None	None
Y	TSPY8	ENSG00000229549	ENST00000383005	protein_coding	KNOWN	None	37471	927	308	9195406	9218479	1	None	None
Y	TSPY8	ENSG00000229549	ENST00000330628	protein_coding	KNOWN	None	37471	942	313	9195452	9218479	1	None	None
Y	TSPY8	ENSG00000229549	ENST00000537415	protein_coding	KNOWN	None	37471	618	205	9195501	9197317	1	None	None
18	None	ENSG00000267196	ENST00000591362	sense_intronic	KNOWN	None	None	None	None	47496091	47497327	-1	None	None
X	None	ENSG00000238626	ENST00000458905	snoRNA	NOVEL	None	None	None	None	124062368	124062466	1	None	None
8	None	ENSG00000270328	ENST00000604659	processed_pseudogene	KNOWN	None	None	None	None	57688842	57689433	1	None	None
16	MIR3680-1	ENSG00000266758	ENST00000578247	miRNA	KNOWN	None	38989	None	None	29610500	29610586	-1	MIR3680	hsa-mir-3680
16	MIR3680-2	ENSG00000266758	ENST00000578247	miRNA	KNOWN	None	43472	None	None	29610500	29610586	-1	None	hsa-mir-3680-2
X	None	ENSG00000232599	ENST00000422498	processed_pseudogene	KNOWN	None	None	None	None	124337654	124338187	-1	None	None
17	TBC1D3F	ENSG00000185128	ENST00000327454	protein_coding	KNOWN	CCDS45657	18257	1650	549	36283971	36294912	1	None	None
17	TBC1D3F	ENSG00000185128	ENST00000442786	nonsense_mediated_decay	KNOWN	None	18257	348	115	36284029	36294915	1	None	None
17	TBC1D3F	ENSG00000185128	ENST00000513862	retained_intron	KNOWN	None	18257	None	None	36284040	36294912	1	None	None
17	TBC1D3F	ENSG00000185128	ENST00000505415	protein_coding	NOVEL	None	18257	1584	527	36284791	36294912	1	None	None
17	TBC1D3F	ENSG00000185128	ENST00000378174	protein_coding	KNOWN	None	18257	876	291	36284016	36294914	1	None	None
17	TBC1D3F	ENSG00000185128	ENST00000539424	protein_coding	KNOWN	None	18257	1410	469	36286047	36294914	1	None	None
2	None	ENSG00000264560	ENST00000582194	miRNA	NOVEL	None	None	None	None	195422898	195422998	-1	None	None
7	None	ENSG00000271537	ENST00000604318	processed_pseudogene	KNOWN	None	None	None	None	138883303	138883888	-1	None	None
14	SERPINA2P	ENSG00000258597	ENST00000553483	unprocessed_pseudogene	KNOWN	None	8985	None	None	94830053	94833039	-1	PIL, SERPINA2	ATR, ARGS
18	ADAD1P2	ENSG00000267511	ENST00000588476	processed_pseudogene	KNOWN	None	44552	None	None	47590165	47590810	1	None	None
16	SLC7A5P1	ENSG00000260727	ENST00000568957	unprocessed_pseudogene	KNOWN	None	29458	None	None	29624425	29624961	-1	None	LAT1-3TM, MLAS
2	None	ENSG00000252517	ENST00000516708	snoRNA	NOVEL	None	None	None	None	195528831	195528898	-1	None	None
8	RNU6-13P	ENSG00000206975	ENST00000384248	snRNA	KNOWN	None	34257	None	None	57829643	57829749	1	RNU6-13	None
14	None	ENSG00000257751	ENST00000551999	processed_pseudogene	KNOWN	None	None	None	None	20136701	20137215	-1	None	None
8	MIR4469	ENSG00000266044	ENST00000583919	miRNA	KNOWN	None	41556	None	None	42751340	42751418	-1	None	hsa-mir-4469
18	None	ENSG00000267591	ENST00000587055	processed_pseudogene	KNOWN	None	None	None	None	47625112	47625532	1	None	None
12	WSB2	ENSG00000176871	ENST00000315436	protein_coding	KNOWN	CCDS9186	19222	1215	404	118470712	118498995	-1	None	SBA2, MGC10210
12	WSB2	ENSG00000176871	ENST00000441406	protein_coding	PUTATIVE	None	19222	1266	421	118471926	118499979	-1	None	SBA2, MGC10210
12	WSB2	ENSG00000176871	ENST00000543218	nonsense_mediated_decay	KNOWN	None	19222	186	61	118471970	118498919	-1	None	SBA2, MGC10210
12	WSB2	ENSG00000176871	ENST00000535496	protein_coding	NOVEL	None	19222	1221	406	118472001	118490409	-1	None	SBA2, MGC10210
12	WSB2	ENSG00000176871	ENST00000540129	retained_intron	KNOWN	None	19222	None	None	118472480	118498894	-1	None	SBA2, MGC10210
12	WSB2	ENSG00000176871	ENST00000543186	nonsense_mediated_decay	KNOWN	None	19222	171	56	118472882	118480683	-1	None	SBA2, MGC10210
12	WSB2	ENSG00000176871	ENST00000536738	processed_transcript	KNOWN	None	19222	None	None	118474143	118498945	-1	None	SBA2, MGC10210
12	WSB2	ENSG00000176871	ENST00000537945	protein_coding	NOVEL	None	19222	736	244	118474246	118500215	-1	None	SBA2, MGC10210
12	WSB2	ENSG00000176871	ENST00000536602	retained_intron	KNOWN	None	19222	None	None	118480466	118498917	-1	None	SBA2, MGC10210
12	WSB2	ENSG00000176871	ENST00000542726	processed_transcript	KNOWN	None	19222	None	None	118480683	118500235	-1	None	SBA2, MGC10210
12	WSB2	ENSG00000176871	ENST00000544233	protein_coding	KNOWN	None	19222	585	194	118471970	118498919	-1	None	SBA2, MGC10210
12	WSB2	ENSG00000176871	ENST00000542304	protein_coding	KNOWN	None	19222	540	179	118471617	118490217	-1	None	SBA2, MGC10210
5	None	ENSG00000249601	ENST00000506431	lincRNA	KNOWN	None	None	None	None	169618583	169626145	-1	None	None
5	None	ENSG00000249601	ENST00000520275	lincRNA	KNOWN	None	None	None	None	169623579	169626104	-1	None	None
2	None	ENSG00000230173	ENST00000447194	lincRNA	KNOWN	None	None	None	None	195595319	195626159	1	None	None
11	None	ENSG00000254927	ENST00000530492	lincRNA	KNOWN	None	None	None	None	13848390	13901046	-1	None	None
3	OR5H1	ENSG00000231192	ENST00000354565	protein_coding	KNOWN	CCDS33797	8346	942	313	97851542	97852483	1	None	HTPCRX14, HSHTPCRX14
15	RPSAP55	ENSG00000214896	ENST00000477347	processed_pseudogene	KNOWN	None	36921	None	None	53177792	53178667	1	None	None
14	None	ENSG00000257846	ENST00000550646	processed_pseudogene	KNOWN	None	None	None	None	20136988	20138162	1	None	None
9	None	ENSG00000238746	ENST00000459065	snoRNA	NOVEL	None	None	None	None	97934777	97934880	-1	None	None
6	None	ENSG00000270306	ENST00000605336	processed_pseudogene	KNOWN	None	None	None	None	51250080	51250647	-1	None	None
9	None	ENSG00000230221	ENST00000445995	processed_pseudogene	KNOWN	None	None	None	None	98054620	98057092	1	None	None
7	None	ENSG00000228360	ENST00000451614	processed_pseudogene	KNOWN	None	None	None	None	138912283	138912574	-1	None	None
8	None	ENSG00000197334	ENST00000359385	pseudogene	NOVEL	None	None	None	None	57868647	57868875	1	None	None
9	None	ENSG00000271384	ENST00000603533	lincRNA	KNOWN	None	None	None	None	98169272	98169944	-1	None	None
16	None	ENSG00000260017	ENST00000569096	antisense	KNOWN	None	None	None	None	18814405	18823503	1	None	None
11	None	ENSG00000254930	ENST00000525381	lincRNA	KNOWN	None	None	None	None	13866409	13892163	-1	None	None
6	None	ENSG00000232702	ENST00000416077	processed_pseudogene	KNOWN	None	None	None	None	51274879	51275335	-1	None	None
6	None	ENSG00000232702	ENST00000543596	processed_pseudogene	KNOWN	None	None	None	None	51274879	51275103	-1	None	None
14	None	ENSG00000256357	ENST00000536735	antisense	KNOWN	None	None	None	None	94896970	94931067	1	None	None
2	None	ENSG00000235056	ENST00000418387	lincRNA	KNOWN	None	None	None	None	195868435	195891094	-1	None	None
X	None	ENSG00000237628	ENST00000427513	processed_pseudogene	KNOWN	None	None	None	None	102052459	102053056	1	None	None
9	MT1P1	ENSG00000213761	ENST00000396160	processed_pseudogene	KNOWN	None	23681	None	None	98175549	98175731	-1	None	bA435O5.3
19	None	ENSG00000266958	ENST00000591569	protein_coding	PUTATIVE	None	None	285	94	45690646	45720191	1	None	None
8	RNA5SP266	ENSG00000222205	ENST00000410273	rRNA	KNOWN	None	43166	None	None	58039214	58039321	-1	RN5S266	None
7	None	ENSG00000271404	ENST00000604387	processed_pseudogene	KNOWN	None	None	None	None	138912967	138913351	1	None	None
9	DENND4C	ENSG00000137145	ENST00000434457	protein_coding	NOVEL	None	26079	5877	1958	19230433	19372596	1	C9orf55B, C9orf55	FLJ20686, bA513M16.3
9	DENND4C	ENSG00000137145	ENST00000602925	protein_coding	KNOWN	CCDS6491	26079	5730	1909	19230433	19372856	1	C9orf55B, C9orf55	FLJ20686, bA513M16.3
9	DENND4C	ENSG00000137145	ENST00000602708	retained_intron	KNOWN	None	26079	None	None	19230795	19276669	1	C9orf55B, C9orf55	FLJ20686, bA513M16.3
9	DENND4C	ENSG00000137145	ENST00000380437	retained_intron	KNOWN	None	26079	None	None	19290756	19372592	1	C9orf55B, C9orf55	FLJ20686, bA513M16.3
9	DENND4C	ENSG00000137145	ENST00000494124	nonsense_mediated_decay	KNOWN	None	26079	1136	377	19290756	19372592	1	C9orf55B, C9orf55	FLJ20686, bA513M16.3
9	DENND4C	ENSG00000137145	ENST00000602442	retained_intron	KNOWN	None	26079	None	None	19336402	19341042	1	C9orf55B, C9orf55	FLJ20686, bA513M16.3
9	DENND4C	ENSG00000137145	ENST00000380427	protein_coding	NOVEL	None	26079	2645	880	19342667	19372878	1	C9orf55B, C9orf55	FLJ20686, bA513M16.3
9	DENND4C	ENSG00000137145	ENST00000361024	protein_coding	NOVEL	None	26079	2091	696	19346554	19373543	1	C9orf55B, C9orf55	FLJ20686, bA513M16.3
9	DENND4C	ENSG00000137145	ENST00000380424	protein_coding	NOVEL	None	26079	1061	352	19346726	19357693	1	C9orf55B, C9orf55	FLJ20686, bA513M16.3
9	DENND4C	ENSG00000137145	ENST00000380432	protein_coding	KNOWN	None	26079	5022	1673	19290749	19374139	1	C9orf55B, C9orf55	FLJ20686, bA513M16.3
9	DENND4C	ENSG00000137145	ENST00000307015	protein_coding	KNOWN	None	26079	3441	1146	19290749	19374139	1	C9orf55B, C9orf55	FLJ20686, bA513M16.3
9	DENND4C	ENSG00000137145	ENST00000540671	protein_coding	KNOWN	None	26079	3012	1003	19326078	19372201	1	C9orf55B, C9orf55	FLJ20686, bA513M16.3
14	ADIPOR1P2	ENSG00000258805	ENST00000554199	processed_pseudogene	KNOWN	None	44911	None	None	95100042	95100861	1	None	None
2	None	ENSG00000224099	ENST00000413290	lincRNA	KNOWN	None	None	None	None	196313256	196343649	1	None	None
16	None	ENSG00000261331	ENST00000565967	processed_pseudogene	KNOWN	None	None	None	None	34213746	34213986	1	None	None
1	None	ENSG00000271806	ENST00000606533	antisense	KNOWN	None	None	None	None	2072523	2076718	-1	None	None
16	CA5AP1	ENSG00000260133	ENST00000568175	unprocessed_pseudogene	KNOWN	None	1379	None	None	29630106	29647649	-1	CA5P	None
11	RNA5SP331	ENSG00000201856	ENST00000364986	rRNA	KNOWN	None	43231	None	None	13929031	13929137	-1	RN5S331	None
9	None	ENSG00000237857	ENST00000433644	lincRNA	KNOWN	None	None	None	None	98177116	98189078	-1	None	None
11	KBTBD4	ENSG00000123444	ENST00000526005	protein_coding	NOVEL	CCDS7940	23761	1557	518	47593749	47600508	-1	BKLHD4	FLJ10450, HSPC252
11	KBTBD4	ENSG00000123444	ENST00000533290	protein_coding	NOVEL	None	23761	1632	543	47593750	47600341	-1	BKLHD4	FLJ10450, HSPC252
11	KBTBD4	ENSG00000123444	ENST00000430070	protein_coding	KNOWN	CCDS44594	23761	1605	534	47593779	47600567	-1	BKLHD4	FLJ10450, HSPC252
11	KBTBD4	ENSG00000123444	ENST00000525720	protein_coding	NOVEL	None	23761	861	286	47597118	47600320	-1	BKLHD4	FLJ10450, HSPC252
11	KBTBD4	ENSG00000123444	ENST00000530668	nonsense_mediated_decay	KNOWN	None	23761	96	31	47597184	47600525	-1	BKLHD4	FLJ10450, HSPC252
11	KBTBD4	ENSG00000123444	ENST00000529499	protein_coding	NOVEL	None	23761	596	197	47598956	47600491	-1	BKLHD4	FLJ10450, HSPC252
11	KBTBD4	ENSG00000123444	ENST00000531067	protein_coding	PUTATIVE	None	23761	483	160	47599069	47600320	-1	BKLHD4	FLJ10450, HSPC252
11	KBTBD4	ENSG00000123444	ENST00000529946	protein_coding	PUTATIVE	None	23761	477	158	47599075	47600499	-1	BKLHD4	FLJ10450, HSPC252
11	KBTBD4	ENSG00000123444	ENST00000534239	protein_coding	PUTATIVE	None	23761	521	172	47599106	47600528	-1	BKLHD4	FLJ10450, HSPC252
11	KBTBD4	ENSG00000123444	ENST00000395288	protein_coding	KNOWN	CCDS7940	23761	1557	518	47593750	47600521	-1	BKLHD4	FLJ10450, HSPC252
16	None	ENSG00000238329	ENST00000459248	snoRNA	NOVEL	None	None	None	None	18881488	18881591	-1	None	None
7	RNU6-206P	ENSG00000206843	ENST00000384116	snRNA	KNOWN	None	47169	None	None	139000037	139000140	-1	None	None
16	None	ENSG00000260352	ENST00000565782	antisense	KNOWN	None	None	None	None	18938185	18948365	1	None	None
10	None	ENSG00000251749	ENST00000515940	snoRNA	NOVEL	None	None	None	None	21774567	21774666	1	None	None
2	SFTPB	ENSG00000168878	ENST00000519937	protein_coding	KNOWN	None	10801	1146	381	85884437	85895326	-1	SFTP3	SP-B
2	SFTPB	ENSG00000168878	ENST00000428225	protein_coding	NOVEL	None	10801	1123	373	85885378	85895295	-1	SFTP3	SP-B
2	SFTPB	ENSG00000168878	ENST00000409383	protein_coding	KNOWN	CCDS1983	10801	1182	393	85885413	85895864	-1	SFTP3	SP-B
2	SFTPB	ENSG00000168878	ENST00000494165	protein_coding	KNOWN	None	10801	277	91	85888341	85890601	-1	SFTP3	SP-B
2	SFTPB	ENSG00000168878	ENST00000491167	retained_intron	KNOWN	None	10801	None	None	85889337	85890670	-1	SFTP3	SP-B
2	SFTPB	ENSG00000168878	ENST00000473692	retained_intron	KNOWN	None	10801	None	None	85893658	85895312	-1	SFTP3	SP-B
2	SFTPB	ENSG00000168878	ENST00000393822	protein_coding	KNOWN	CCDS1983	10801	1182	393	85884443	85895864	-1	SFTP3	SP-B
2	SFTPB	ENSG00000168878	ENST00000342375	protein_coding	KNOWN	None	10801	1146	381	85884443	85895864	-1	SFTP3	SP-B
16	None	ENSG00000256579	ENST00000541787	pseudogene	NOVEL	None	None	None	None	34232106	34232469	1	None	None
7	RNU6-911P	ENSG00000252332	ENST00000516523	snRNA	KNOWN	None	47874	None	None	139133486	139133589	1	None	None
10	MIR1915	ENSG00000222071	ENST00000410139	miRNA	KNOWN	None	35399	None	None	21785491	21785570	-1	MIRN1915	hsa-mir-1915
7	FOXK1	ENSG00000164916	ENST00000328914	protein_coding	KNOWN	CCDS34591	23480	2202	733	4721940	4811074	1	None	IMAGE:5164497
7	FOXK1	ENSG00000164916	ENST00000460979	protein_coding	PUTATIVE	None	23480	328	108	4780490	4794682	1	None	IMAGE:5164497
7	FOXK1	ENSG00000164916	ENST00000496023	retained_intron	KNOWN	None	23480	None	None	4797640	4799660	1	None	IMAGE:5164497
7	FOXK1	ENSG00000164916	ENST00000446823	protein_coding	KNOWN	None	23480	1713	570	4683388	4802171	1	None	IMAGE:5164497
16	None	ENSG00000260514	ENST00000567219	processed_pseudogene	KNOWN	None	None	None	None	29635838	29636146	1	None	None
2	None	ENSG00000271893	ENST00000606986	lincRNA	KNOWN	None	None	None	None	196316502	196380423	-1	None	None
18	KDSR	ENSG00000119537	ENST00000406396	protein_coding	KNOWN	CCDS11982	4021	999	332	60994959	61034743	-1	FVT1	DHSR, SDR35C1
18	KDSR	ENSG00000119537	ENST00000586791	retained_intron	KNOWN	None	4021	None	None	60998058	61013763	-1	FVT1	DHSR, SDR35C1
18	KDSR	ENSG00000119537	ENST00000591902	protein_coding	NOVEL	None	4021	612	203	60998616	61022766	-1	FVT1	DHSR, SDR35C1
18	KDSR	ENSG00000119537	ENST00000588089	retained_intron	KNOWN	None	4021	None	None	60998637	61003256	-1	FVT1	DHSR, SDR35C1
18	KDSR	ENSG00000119537	ENST00000589592	processed_transcript	KNOWN	None	4021	None	None	60998876	61013849	-1	FVT1	DHSR, SDR35C1
18	KDSR	ENSG00000119537	ENST00000326575	protein_coding	NOVEL	None	4021	807	268	60998884	61034437	-1	FVT1	DHSR, SDR35C1
18	KDSR	ENSG00000119537	ENST00000585750	retained_intron	KNOWN	None	4021	None	None	61011575	61022747	-1	FVT1	DHSR, SDR35C1
18	KDSR	ENSG00000119537	ENST00000592327	protein_coding	NOVEL	None	4021	467	154	61018248	61034437	-1	FVT1	DHSR, SDR35C1
18	KDSR	ENSG00000119537	ENST00000589530	retained_intron	KNOWN	None	4021	None	None	61022549	61034436	-1	FVT1	DHSR, SDR35C1
18	KDSR	ENSG00000119537	ENST00000585456	retained_intron	KNOWN	None	4021	None	None	61026758	61034361	-1	FVT1	DHSR, SDR35C1
18	KDSR	ENSG00000119537	ENST00000587292	processed_transcript	KNOWN	None	4021	None	None	61030076	61034439	-1	FVT1	DHSR, SDR35C1
18	KDSR	ENSG00000119537	ENST00000590056	processed_transcript	KNOWN	None	4021	None	None	61033664	61034461	-1	FVT1	DHSR, SDR35C1
5	None	ENSG00000215158	ENST00000514048	processed_transcript	KNOWN	None	None	None	None	34164803	34189619	-1	None	None
5	None	ENSG00000215158	ENST00000507274	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	34175927	34218448	-1	None	None
5	None	ENSG00000215158	ENST00000508395	processed_transcript	KNOWN	None	None	None	None	34182932	34244901	-1	None	None
5	None	ENSG00000215158	ENST00000512782	processed_transcript	KNOWN	None	None	None	None	34199902	34244803	-1	None	None
5	None	ENSG00000215158	ENST00000431939	unprocessed_pseudogene	KNOWN	None	None	None	None	34175928	34176065	-1	None	None
5	None	ENSG00000215158	ENST00000380721	unprocessed_pseudogene	KNOWN	None	None	None	None	34179074	34182970	-1	None	None
15	None	ENSG00000258494	ENST00000556889	processed_pseudogene	KNOWN	None	None	None	None	21174611	21175544	-1	None	None
11	None	ENSG00000254438	ENST00000532065	lincRNA	KNOWN	None	None	None	None	13942997	13946410	-1	None	None
15	EEF1A1P22	ENSG00000259612	ENST00000559385	processed_pseudogene	KNOWN	None	37895	None	None	53229336	53230715	-1	None	None
4	CASP6	ENSG00000138794	ENST00000352981	protein_coding	KNOWN	CCDS3685	1507	615	204	110609785	110624575	-1	None	MCH2
4	CASP6	ENSG00000138794	ENST00000265164	protein_coding	KNOWN	CCDS3684	1507	882	293	110609898	110624629	-1	None	MCH2
4	CASP6	ENSG00000138794	ENST00000507550	retained_intron	KNOWN	None	1507	None	None	110610058	110615745	-1	None	MCH2
4	CASP6	ENSG00000138794	ENST00000505117	retained_intron	KNOWN	None	1507	None	None	110610373	110617651	-1	None	MCH2
4	CASP6	ENSG00000138794	ENST00000510324	processed_transcript	PUTATIVE	None	1507	None	None	110610419	110615857	-1	None	MCH2
4	CASP6	ENSG00000138794	ENST00000508203	retained_intron	KNOWN	None	1507	None	None	110612034	110618935	-1	None	MCH2
4	CASP6	ENSG00000138794	ENST00000503684	protein_coding	PUTATIVE	None	1507	430	142	110615680	110624005	-1	None	MCH2
4	CASP6	ENSG00000138794	ENST00000505486	protein_coding	PUTATIVE	None	1507	243	80	110615737	110624739	-1	None	MCH2
22	BAIAP2L2	ENSG00000128298	ENST00000381669	protein_coding	KNOWN	CCDS43018	26203	1590	529	38480896	38506677	-1	None	FLJ22582
22	BAIAP2L2	ENSG00000128298	ENST00000428572	protein_coding	PUTATIVE	None	26203	591	196	38481172	38484945	-1	None	FLJ22582
22	BAIAP2L2	ENSG00000128298	ENST00000332536	protein_coding	KNOWN	None	26203	660	219	38489921	38506676	-1	None	FLJ22582
HSCHR6_MHC_COX	None	ENSG00000265762	ENST00000581778	miRNA	NOVEL	None	None	None	None	30046493	30046625	-1	None	None
3	OR5H14	ENSG00000236032	ENST00000437310	protein_coding	KNOWN	CCDS33798	31286	933	310	97868170	97869249	1	None	None
17	HOXB-AS2	ENSG00000239552	ENST00000464382	antisense	KNOWN	None	40284	None	None	46634624	46637695	1	None	None
9	None	ENSG00000271314	ENST00000605700	antisense	KNOWN	None	None	None	None	98257206	98257661	1	None	None
2	RNU6-169P	ENSG00000202206	ENST00000365336	snRNA	KNOWN	None	47132	None	None	196378760	196378866	1	None	None
5	None	ENSG00000250274	ENST00000511921	lincRNA	KNOWN	None	None	None	None	169735705	169739720	-1	None	None
14	None	ENSG00000259069	ENST00000555580	lincRNA	KNOWN	None	None	None	None	20145803	20147175	-1	None	None
11	DDI1	ENSG00000170967	ENST00000302259	protein_coding	KNOWN	CCDS31660	18961	1191	396	103907308	103909922	1	None	FLJ36017
7	None	ENSG00000253183	ENST00000520729	processed_pseudogene	KNOWN	None	None	None	None	139187199	139188558	1	None	None
7	None	ENSG00000226097	ENST00000446399	lincRNA	KNOWN	None	None	None	None	20336331	20351335	1	None	None
7	None	ENSG00000226097	ENST00000453564	lincRNA	KNOWN	None	None	None	None	20337917	20340248	1	None	None
7	None	ENSG00000226097	ENST00000455373	lincRNA	KNOWN	None	None	None	None	20345334	20351335	1	None	None
HSCHR6_MHC_COX	TRIM31-AS1	ENSG00000238027	ENST00000446245	processed_transcript	KNOWN	None	39761	None	None	30062935	30072425	1	None	None
2	None	ENSG00000223466	ENST00000452381	lincRNA	KNOWN	None	None	None	None	196397759	196403405	1	None	None
1	VWA5B1	ENSG00000158816	ENST00000485375	nonsense_mediated_decay	KNOWN	None	26538	555	184	20617412	20680744	1	None	FLJ32784
1	VWA5B1	ENSG00000158816	ENST00000375079	protein_coding	NOVEL	None	26538	3663	1220	20617412	20680756	1	None	FLJ32784
1	VWA5B1	ENSG00000158816	ENST00000473325	nonsense_mediated_decay	KNOWN	None	26538	897	298	20617430	20665715	1	None	FLJ32784
1	VWA5B1	ENSG00000158816	ENST00000530722	protein_coding	NOVEL	None	26538	246	81	20629574	20639435	1	None	FLJ32784
1	VWA5B1	ENSG00000158816	ENST00000534075	protein_coding	NOVEL	None	26538	383	126	20629574	20640905	1	None	FLJ32784
1	VWA5B1	ENSG00000158816	ENST00000467486	nonsense_mediated_decay	KNOWN	None	26538	1333	443	20659408	20680744	1	None	FLJ32784
1	VWA5B1	ENSG00000158816	ENST00000525343	processed_transcript	KNOWN	None	26538	None	None	20659411	20680715	1	None	FLJ32784
1	VWA5B1	ENSG00000158816	ENST00000289815	protein_coding	KNOWN	None	26538	3570	1189	20617412	20681387	1	None	FLJ32784
1	VWA5B1	ENSG00000158816	ENST00000375083	protein_coding	KNOWN	None	26538	3051	1016	20617412	20675766	1	None	FLJ32784
1	VWA5B1	ENSG00000158816	ENST00000289825	protein_coding	KNOWN	None	26538	1344	447	20617412	20664527	1	None	FLJ32784
12	RASAL1	ENSG00000111344	ENST00000546530	protein_coding	KNOWN	CCDS55889	9873	2421	806	113536624	113574029	-1	None	RASAL
12	RASAL1	ENSG00000111344	ENST00000261729	protein_coding	KNOWN	CCDS9165	9873	2415	804	113537083	113574044	-1	None	RASAL
12	RASAL1	ENSG00000111344	ENST00000446861	protein_coding	KNOWN	CCDS55888	9873	2331	776	113537313	113573555	-1	None	RASAL
12	RASAL1	ENSG00000111344	ENST00000549444	processed_transcript	PUTATIVE	None	9873	None	None	113537317	113540904	-1	None	RASAL
12	RASAL1	ENSG00000111344	ENST00000548055	protein_coding	NOVEL	None	9873	2418	805	113537692	113573309	-1	None	RASAL
12	RASAL1	ENSG00000111344	ENST00000551051	retained_intron	KNOWN	None	9873	None	None	113537693	113573543	-1	None	RASAL
12	RASAL1	ENSG00000111344	ENST00000546727	retained_intron	KNOWN	None	9873	None	None	113537697	113573309	-1	None	RASAL
12	RASAL1	ENSG00000111344	ENST00000418411	processed_transcript	KNOWN	None	9873	None	None	113540845	113574044	-1	None	RASAL
12	RASAL1	ENSG00000111344	ENST00000548972	processed_transcript	KNOWN	None	9873	None	None	113545021	113573555	-1	None	RASAL
12	RASAL1	ENSG00000111344	ENST00000547810	processed_transcript	PUTATIVE	None	9873	None	None	113553487	113573559	-1	None	RASAL
15	KIAA0125P2	ENSG00000259698	ENST00000561158	unprocessed_pseudogene	KNOWN	None	31024	None	None	21224717	21226180	1	FAM30C	HsT16041
9	None	ENSG00000271155	ENST00000604104	antisense	KNOWN	None	None	None	None	98268517	98269918	1	None	None
15	GOLGA8J	ENSG00000179938	ENST00000567927	protein_coding	NOVEL	None	38650	1899	632	30375256	30385702	1	None	None
15	GOLGA8J	ENSG00000179938	ENST00000568123	processed_transcript	PUTATIVE	None	38650	None	None	30375894	30380540	1	None	None
15	GOLGA8J	ENSG00000179938	ENST00000341650	protein_coding	KNOWN	None	38650	1338	445	30375158	30385702	1	None	None
17	MIR10A	ENSG00000257178	ENST00000548801	sense_intronic	KNOWN	None	31497	None	None	46656992	46659621	-1	MIRN10A	hsa-mir-10a
17	MIR10A	ENSG00000257178	ENST00000385043	miRNA	KNOWN	None	31497	None	None	46657200	46657309	-1	MIRN10A	hsa-mir-10a
16	None	ENSG00000260043	ENST00000561857	sense_intronic	KNOWN	None	None	None	None	29679763	29681839	1	None	None
2	None	ENSG00000234919	ENST00000432711	lincRNA	KNOWN	None	None	None	None	196434352	196437694	-1	None	None
10	RNU6-306P	ENSG00000207347	ENST00000384617	snRNA	KNOWN	None	47269	None	None	21853400	21853506	-1	None	None
2	CKAP2L	ENSG00000169607	ENST00000302450	protein_coding	KNOWN	CCDS2100	26877	2238	745	113494184	113522254	-1	None	FLJ40629
2	CKAP2L	ENSG00000169607	ENST00000435431	nonsense_mediated_decay	KNOWN	None	26877	567	188	113495444	113522194	-1	None	FLJ40629
2	CKAP2L	ENSG00000169607	ENST00000474331	retained_intron	KNOWN	None	26877	None	None	113500008	113513651	-1	None	FLJ40629
2	CKAP2L	ENSG00000169607	ENST00000481732	processed_transcript	KNOWN	None	26877	None	None	113514352	113522195	-1	None	FLJ40629
2	CKAP2L	ENSG00000169607	ENST00000461876	processed_transcript	KNOWN	None	26877	None	None	113514531	113522241	-1	None	FLJ40629
2	CKAP2L	ENSG00000169607	ENST00000497357	processed_transcript	KNOWN	None	26877	None	None	113514771	113521694	-1	None	FLJ40629
2	CKAP2L	ENSG00000169607	ENST00000541405	protein_coding	KNOWN	None	26877	1743	580	113493930	113522204	-1	None	FLJ40629
8	None	ENSG00000272293	ENST00000607549	antisense	KNOWN	None	None	None	None	400714	401343	-1	None	None
10	HNRNPRP1	ENSG00000223984	ENST00000453465	processed_pseudogene	KNOWN	None	44907	None	None	21913521	21915215	-1	None	None
5	None	ENSG00000235172	ENST00000521471	lincRNA	KNOWN	None	None	None	None	169758433	169760764	1	None	None
5	None	ENSG00000235172	ENST00000518357	lincRNA	KNOWN	None	None	None	None	169758434	169760714	1	None	None
5	None	ENSG00000235172	ENST00000436248	lincRNA	KNOWN	None	None	None	None	169758435	169760883	1	None	None
14	None	ENSG00000257884	ENST00000547785	transcribed_processed_pseudogene	KNOWN	None	None	None	None	20145996	20148263	1	None	None
7	ANKRD61	ENSG00000157999	ENST00000409061	protein_coding	NOVEL	None	22467	1257	418	6071007	6076017	1	None	None
17	HOXB-AS4	ENSG00000242207	ENST00000480386	antisense	KNOWN	None	40285	None	None	46706037	46712294	1	None	None
17	HOXB-AS4	ENSG00000242207	ENST00000462131	antisense	KNOWN	None	40285	None	None	46706911	46712023	1	None	None
16	None	ENSG00000261566	ENST00000567803	antisense	KNOWN	None	None	None	None	34257222	34258621	-1	None	None
2	AHCYP5	ENSG00000213107	ENST00000331585	processed_pseudogene	KNOWN	None	44997	None	None	196447518	196448755	-1	None	None
16	IGHV3OR16-8	ENSG00000271130	ENST00000565407	IG_V_gene	KNOWN	None	5643	349	115	33020496	33020941	1	None	IGHV3/OR16-8
8	None	ENSG00000253301	ENST00000519314	lincRNA	KNOWN	None	None	None	None	58055248	58113647	1	None	None
8	None	ENSG00000253301	ENST00000519241	lincRNA	KNOWN	None	None	None	None	58055262	58132001	1	None	None
8	None	ENSG00000253301	ENST00000521653	lincRNA	KNOWN	None	None	None	None	58106149	58121191	1	None	None
8	None	ENSG00000253301	ENST00000518556	lincRNA	KNOWN	None	None	None	None	58106153	58115727	1	None	None
8	None	ENSG00000253301	ENST00000523341	lincRNA	KNOWN	None	None	None	None	58106179	58152857	1	None	None
8	None	ENSG00000253301	ENST00000520929	lincRNA	KNOWN	None	None	None	None	58130835	58132126	1	None	None
8	None	ENSG00000253301	ENST00000521132	lincRNA	KNOWN	None	None	None	None	58131093	58132795	1	None	None
8	None	ENSG00000253301	ENST00000519160	lincRNA	KNOWN	None	None	None	None	58131648	58145195	1	None	None
8	None	ENSG00000253301	ENST00000517611	lincRNA	KNOWN	None	None	None	None	58131938	58133297	1	None	None
15	None	ENSG00000259025	ENST00000554586	processed_pseudogene	KNOWN	None	None	None	None	21258333	21260031	-1	None	None
16	None	ENSG00000262885	ENST00000570988	processed_pseudogene	KNOWN	None	None	None	None	34257710	34258136	1	None	None
17	MIR196A1	ENSG00000210741	ENST00000388006	miRNA	KNOWN	None	31567	None	None	46709852	46709921	-1	MIRN196-1, MIRN196A1	hsa-mir-196-1, hsa-mir-196a-1
1	None	ENSG00000182873	ENST00000333854	antisense	KNOWN	None	None	None	None	2113233	2115314	-1	None	None
1	None	ENSG00000182873	ENST00000444529	antisense	KNOWN	None	None	None	None	2114174	2115828	-1	None	None
1	None	ENSG00000182873	ENST00000536678	antisense	KNOWN	None	None	None	None	2113233	2115492	-1	None	None
2	MED15P4	ENSG00000224679	ENST00000417579	unprocessed_pseudogene	KNOWN	None	48653	None	None	132292760	132294561	-1	None	None
16	RN7SKP127	ENSG00000222375	ENST00000410443	misc_RNA	KNOWN	None	45851	None	None	29742372	29742725	-1	None	None
HSCHR6_MHC_COX	None	ENSG00000265495	ENST00000579231	snoRNA	NOVEL	None	None	None	None	30090513	30090672	-1	None	None
17	None	ENSG00000262745	ENST00000575202	processed_transcript	PUTATIVE	None	None	None	None	46760729	46781844	1	None	None
18	None	ENSG00000264116	ENST00000578340	protein_coding	PUTATIVE	None	None	237	78	73118967	73130969	1	None	None
18	None	ENSG00000264116	ENST00000579386	processed_transcript	KNOWN	None	None	None	None	73119993	73130995	1	None	None
11	SPON1	ENSG00000152268	ENST00000533633	processed_transcript	KNOWN	None	11252	None	None	13984184	14289430	1	None	KIAA0762, f-spondin
11	SPON1	ENSG00000152268	ENST00000526298	retained_intron	KNOWN	None	11252	None	None	14283993	14287545	1	None	KIAA0762, f-spondin
11	SPON1	ENSG00000152268	ENST00000310358	processed_transcript	KNOWN	None	11252	None	None	13983914	14289646	1	None	KIAA0762, f-spondin
2	RNU6-915P	ENSG00000201813	ENST00000364943	snRNA	KNOWN	None	47878	None	None	196535096	196535198	-1	None	None
9	CELP	ENSG00000170827	ENST00000421286	transcribed_unprocessed_pseudogene	KNOWN	None	1849	None	None	135957926	135962742	1	CELL	None
9	CELP	ENSG00000170827	ENST00000411440	processed_transcript	KNOWN	None	1849	None	None	135957926	135962742	1	CELL	None
8	None	ENSG00000272005	ENST00000607352	lincRNA	KNOWN	None	None	None	None	424455	427966	1	None	None
17	None	ENSG00000244559	ENST00000474761	processed_pseudogene	KNOWN	None	None	None	None	46767843	46767986	-1	None	None
19	EXOC3L2	ENSG00000130201	ENST00000252482	protein_coding	KNOWN	CCDS12657	30162	1230	409	45715879	45735138	-1	None	FLJ36147, XTP7
19	EXOC3L2	ENSG00000130201	ENST00000413988	protein_coding	KNOWN	CCDS12657	30162	1230	409	45715879	45737469	-1	None	FLJ36147, XTP7
5	SMN1	ENSG00000172062	ENST00000503079	protein_coding	KNOWN	CCDS34182	11117	789	262	70220857	70248174	1	SMA@, SMA	BCD541, SMNT, SMA1, SMA2, SMA3, GEMIN1, TDRD16A
5	SMN1	ENSG00000172062	ENST00000380707	protein_coding	KNOWN	CCDS34181	11117	885	294	70220857	70248839	1	SMA@, SMA	BCD541, SMNT, SMA1, SMA2, SMA3, GEMIN1, TDRD16A
5	SMN1	ENSG00000172062	ENST00000514951	protein_coding	NOVEL	None	11117	684	227	70220883	70248394	1	SMA@, SMA	BCD541, SMNT, SMA1, SMA2, SMA3, GEMIN1, TDRD16A
5	SMN1	ENSG00000172062	ENST00000506239	nonsense_mediated_decay	KNOWN	None	11117	885	294	70220902	70248843	1	SMA@, SMA	BCD541, SMNT, SMA1, SMA2, SMA3, GEMIN1, TDRD16A
5	SMN1	ENSG00000172062	ENST00000506163	protein_coding	KNOWN	None	11117	849	282	70220922	70248867	1	SMA@, SMA	BCD541, SMNT, SMA1, SMA2, SMA3, GEMIN1, TDRD16A
5	SMN1	ENSG00000172062	ENST00000518504	retained_intron	KNOWN	None	11117	None	None	70238299	70242105	1	SMA@, SMA	BCD541, SMNT, SMA1, SMA2, SMA3, GEMIN1, TDRD16A
5	SMN1	ENSG00000172062	ENST00000507905	nonsense_mediated_decay	KNOWN	None	11117	240	79	70238335	70241906	1	SMA@, SMA	BCD541, SMNT, SMA1, SMA2, SMA3, GEMIN1, TDRD16A
5	SMN1	ENSG00000172062	ENST00000513228	retained_intron	KNOWN	None	11117	None	None	70238345	70242101	1	SMA@, SMA	BCD541, SMNT, SMA1, SMA2, SMA3, GEMIN1, TDRD16A
5	SMN1	ENSG00000172062	ENST00000510679	processed_transcript	KNOWN	None	11117	None	None	70241916	70249769	1	SMA@, SMA	BCD541, SMNT, SMA1, SMA2, SMA3, GEMIN1, TDRD16A
5	SMN1	ENSG00000172062	ENST00000351205	protein_coding	KNOWN	CCDS34182	11117	789	262	70220768	70248841	1	SMA@, SMA	BCD541, SMNT, SMA1, SMA2, SMA3, GEMIN1, TDRD16A
HSCHR6_MHC_COX	None	ENSG00000258209	ENST00000550882	pseudogene	NOVEL	None	None	None	None	30138280	30138496	1	None	None
2	None	ENSG00000203435	ENST00000447755	processed_pseudogene	KNOWN	None	None	None	None	196858983	196860404	-1	None	None
HSCHR6_MHC_MANN	TNXB	ENSG00000236221	ENST00000451159	protein_coding	KNOWN	None	11976	6841	2279	32072022	32105429	-1	TNXB1, TNXB2	TNXBS, XBS, XB
HSCHR6_MHC_MANN	TNXB	ENSG00000236221	ENST00000473044	retained_intron	KNOWN	None	11976	None	None	32102802	32105429	-1	TNXB1, TNXB2	TNXBS, XBS, XB
HSCHR6_MHC_MANN	TNXB	ENSG00000236221	ENST00000417283	protein_coding	KNOWN	None	11976	23	6	32105399	32105429	-1	TNXB1, TNXB2	TNXBS, XBS, XB
HSCHR6_MHC_MANN	TNXB	ENSG00000236221	ENST00000465958	processed_transcript	KNOWN	None	11976	None	None	32105399	32105429	-1	TNXB1, TNXB2	TNXBS, XBS, XB
HSCHR6_MHC_MANN	TNXB	ENSG00000236221	ENST00000553092	protein_coding	KNOWN	None	11976	2595	864	32072282	32088653	-1	TNXB1, TNXB2	TNXBS, XBS, XB
HSCHR6_MHC_MANN	TNXB	ENSG00000236221	ENST00000552665	protein_coding	KNOWN	None	11976	1278	425	32089501	32102857	-1	TNXB1, TNXB2	TNXBS, XBS, XB
X	None	ENSG00000228316	ENST00000413797	processed_pseudogene	KNOWN	None	None	None	None	102053324	102054488	1	None	None
12	C3AR1	ENSG00000171860	ENST00000307637	protein_coding	KNOWN	CCDS8588	1319	1449	482	8210898	8219067	-1	None	C3AR, AZ3B
12	C3AR1	ENSG00000171860	ENST00000546241	protein_coding	KNOWN	None	1319	440	145	8212342	8218933	-1	None	C3AR, AZ3B
HSCHR6_MHC_COX	None	ENSG00000257216	ENST00000552858	pseudogene	NOVEL	None	None	None	None	30141447	30141664	-1	None	None
16	None	ENSG00000205018	ENST00000378347	protein_coding	PUTATIVE	None	None	1242	413	89006197	89017932	1	None	None
3	LNP1	ENSG00000206535	ENST00000383693	protein_coding	KNOWN	CCDS43120	28014	537	178	100120037	100175163	1	None	None
3	LNP1	ENSG00000206535	ENST00000466996	nonsense_mediated_decay	KNOWN	None	28014	171	56	100120376	100175032	1	None	None
3	LNP1	ENSG00000206535	ENST00000489752	protein_coding	NOVEL	None	28014	576	191	100120455	100175145	1	None	None
11	GAL3ST3	ENSG00000175229	ENST00000312006	protein_coding	KNOWN	CCDS8128	24144	1296	431	65809423	65816651	-1	None	GAL3ST2
11	GAL3ST3	ENSG00000175229	ENST00000527878	protein_coding	KNOWN	CCDS8128	24144	1296	431	65809835	65813046	-1	None	GAL3ST2
11	GAL3ST3	ENSG00000175229	ENST00000527048	retained_intron	KNOWN	None	24144	None	None	65812462	65816622	-1	None	GAL3ST2
HG79_PATCH	None	ENSG00000262546	ENST00000574930	misc_RNA	NOVEL	None	None	None	None	136213263	136213359	-1	None	None
HSCHR6_MHC_COX	PAIP1P1	ENSG00000228199	ENST00000446300	processed_pseudogene	KNOWN	None	18240	None	None	30144480	30146300	-1	None	bQB44E15.5, bPG254M11.3, bCX300M20.3
17	RPL9P28	ENSG00000242067	ENST00000461606	processed_pseudogene	KNOWN	None	36445	None	None	46768478	46769056	-1	None	None
7	None	ENSG00000271133	ENST00000605357	antisense	KNOWN	None	None	None	None	20367922	20371304	-1	None	None
7	None	ENSG00000271133	ENST00000603156	antisense	KNOWN	None	None	None	None	20368152	20371370	-1	None	None
12	CNTN1	ENSG00000018236	ENST00000547702	protein_coding	KNOWN	CCDS58225	2171	1884	627	41086244	41366237	1	None	F3, GP135
12	CNTN1	ENSG00000018236	ENST00000551424	protein_coding	KNOWN	None	2171	188	61	41086264	41312534	1	None	F3, GP135
12	CNTN1	ENSG00000018236	ENST00000551295	protein_coding	KNOWN	CCDS8737	2171	3057	1018	41086354	41466220	1	None	F3, GP135
12	CNTN1	ENSG00000018236	ENST00000548005	protein_coding	KNOWN	None	2171	255	84	41136153	41316085	1	None	F3, GP135
12	CNTN1	ENSG00000018236	ENST00000552248	protein_coding	KNOWN	None	2171	270	89	41136155	41316100	1	None	F3, GP135
12	CNTN1	ENSG00000018236	ENST00000547849	protein_coding	KNOWN	CCDS58225	2171	1884	627	41221861	41366237	1	None	F3, GP135
12	CNTN1	ENSG00000018236	ENST00000552913	protein_coding	KNOWN	None	2171	218	71	41221986	41312564	1	None	F3, GP135
12	CNTN1	ENSG00000018236	ENST00000348761	protein_coding	KNOWN	CCDS8738	2171	3024	1007	41302161	41464067	1	None	F3, GP135
12	CNTN1	ENSG00000018236	ENST00000550305	processed_transcript	KNOWN	None	2171	None	None	41398841	41421720	1	None	F3, GP135
12	CNTN1	ENSG00000018236	ENST00000548481	nonsense_mediated_decay	KNOWN	None	2171	174	57	41422916	41464043	1	None	F3, GP135
12	CNTN1	ENSG00000018236	ENST00000347616	protein_coding	KNOWN	CCDS8737	2171	3057	1018	41302156	41464094	1	None	F3, GP135
12	CNTN1	ENSG00000018236	ENST00000360099	protein_coding	KNOWN	CCDS58225	2171	1884	627	41302156	41365315	1	None	F3, GP135
10	RNU6-1141P	ENSG00000201390	ENST00000364520	snRNA	KNOWN	None	48104	None	None	21950564	21950670	-1	None	None
14	None	ENSG00000257395	ENST00000547175	lincRNA	KNOWN	None	None	None	None	20149579	20152898	1	None	None
10	RN7SKP219	ENSG00000252634	ENST00000516825	misc_RNA	KNOWN	None	45943	None	None	22074221	22074516	1	None	None
12	UTP20	ENSG00000120800	ENST00000261637	protein_coding	KNOWN	CCDS9081	17897	8358	2785	101673887	101780394	1	None	DRIM
12	UTP20	ENSG00000120800	ENST00000551825	retained_intron	KNOWN	None	17897	None	None	101673906	101685205	1	None	DRIM
12	UTP20	ENSG00000120800	ENST00000551998	retained_intron	KNOWN	None	17897	None	None	101683681	101684739	1	None	DRIM
12	UTP20	ENSG00000120800	ENST00000551345	retained_intron	KNOWN	None	17897	None	None	101720633	101723123	1	None	DRIM
HSCHR6_MHC_COX	None	ENSG00000257843	ENST00000550749	pseudogene	NOVEL	None	None	None	None	30145680	30145891	-1	None	None
8	None	ENSG00000254207	ENST00000520760	sense_intronic	KNOWN	None	None	None	None	675188	675877	-1	None	None
18	SMIM21	ENSG00000206026	ENST00000579022	protein_coding	KNOWN	CCDS32845	27598	306	101	73121431	73139658	-1	C18orf62	None
18	SMIM21	ENSG00000206026	ENST00000382638	protein_coding	PUTATIVE	None	27598	234	77	73121827	73139589	-1	C18orf62	None
18	SMIM21	ENSG00000206026	ENST00000584508	protein_coding	PUTATIVE	None	27598	264	87	73127973	73139637	-1	C18orf62	None
3	GRM7	ENSG00000196277	ENST00000443259	nonsense_mediated_decay	KNOWN	None	4599	207	68	6811688	7188343	1	None	GLUR7, GPRC1G, mGlu7, MGLUR7
3	GRM7	ENSG00000196277	ENST00000448328	protein_coding	PUTATIVE	None	4599	366	121	6811756	7348296	1	None	GLUR7, GPRC1G, mGlu7, MGLUR7
3	GRM7	ENSG00000196277	ENST00000467425	nonsense_mediated_decay	KNOWN	None	4599	2769	922	6902802	7735357	1	None	GLUR7, GPRC1G, mGlu7, MGLUR7
3	GRM7	ENSG00000196277	ENST00000357716	protein_coding	KNOWN	CCDS43042	4599	2748	915	6902802	7783198	1	None	GLUR7, GPRC1G, mGlu7, MGLUR7
3	GRM7	ENSG00000196277	ENST00000486284	protein_coding	PUTATIVE	None	4599	2769	922	6902802	7783215	1	None	GLUR7, GPRC1G, mGlu7, MGLUR7
3	GRM7	ENSG00000196277	ENST00000440923	nonsense_mediated_decay	KNOWN	None	4599	2742	913	6902927	7735373	1	None	GLUR7, GPRC1G, mGlu7, MGLUR7
3	GRM7	ENSG00000196277	ENST00000389336	protein_coding	KNOWN	None	4599	2721	906	6902927	7735373	1	None	GLUR7, GPRC1G, mGlu7, MGLUR7
3	GRM7	ENSG00000196277	ENST00000389335	nonsense_mediated_decay	KNOWN	None	4599	2736	911	6902927	7735373	1	None	GLUR7, GPRC1G, mGlu7, MGLUR7
3	GRM7	ENSG00000196277	ENST00000435689	nonsense_mediated_decay	KNOWN	None	4599	114	37	6904430	7348339	1	None	GLUR7, GPRC1G, mGlu7, MGLUR7
3	GRM7	ENSG00000196277	ENST00000461677	retained_intron	KNOWN	None	4599	None	None	7340264	7456851	1	None	GLUR7, GPRC1G, mGlu7, MGLUR7
3	GRM7	ENSG00000196277	ENST00000463676	retained_intron	KNOWN	None	4599	None	None	7340370	7724022	1	None	GLUR7, GPRC1G, mGlu7, MGLUR7
3	GRM7	ENSG00000196277	ENST00000445087	protein_coding	PUTATIVE	None	4599	555	184	7444737	7620177	1	None	GLUR7, GPRC1G, mGlu7, MGLUR7
3	GRM7	ENSG00000196277	ENST00000458641	processed_transcript	KNOWN	None	4599	None	None	7493468	7678128	1	None	GLUR7, GPRC1G, mGlu7, MGLUR7
3	GRM7	ENSG00000196277	ENST00000471242	processed_transcript	PUTATIVE	None	4599	None	None	7735320	7736150	1	None	GLUR7, GPRC1G, mGlu7, MGLUR7
3	GRM7	ENSG00000196277	ENST00000403881	protein_coding	KNOWN	None	4599	2736	911	6903076	7732934	1	None	GLUR7, GPRC1G, mGlu7, MGLUR7
3	GRM7	ENSG00000196277	ENST00000402647	protein_coding	KNOWN	None	4599	2769	922	6903076	7728114	1	None	GLUR7, GPRC1G, mGlu7, MGLUR7
10	None	ENSG00000203471	ENST00000366289	pseudogene	NOVEL	None	None	None	None	22183277	22183445	1	None	None
2	None	ENSG00000227878	ENST00000420310	processed_pseudogene	KNOWN	None	None	None	None	196928036	196928687	-1	None	None
9	RN7SL100P	ENSG00000240306	ENST00000460565	misc_RNA	KNOWN	None	46116	None	None	26895676	26895968	1	None	None
17	None	ENSG00000244649	ENST00000478824	lincRNA	KNOWN	None	None	None	None	46782565	46784708	1	None	None
17	None	ENSG00000244649	ENST00000492522	lincRNA	KNOWN	None	None	None	None	46782623	46783692	1	None	None
HSCHR6_MHC_COX	HCG17	ENSG00000241701	ENST00000424012	processed_transcript	PUTATIVE	None	31339	None	None	30191707	30192145	-1	None	NCRNA00046, LINC00046
HSCHR6_MHC_COX	HCG17	ENSG00000241701	ENST00000455160	processed_transcript	KNOWN	None	31339	None	None	30191707	30283713	-1	None	NCRNA00046, LINC00046
9	None	ENSG00000234676	ENST00000456198	antisense	KNOWN	None	None	None	None	26955778	26956293	-1	None	None
4	None	ENSG00000216055	ENST00000401236	miRNA	NOVEL	None	None	None	None	147043356	147043436	-1	None	None
7	METTL2B	ENSG00000165055	ENST00000462662	protein_coding	PUTATIVE	None	18272	707	234	128095894	128133913	1	METTL2	METL, FLJ11350
7	METTL2B	ENSG00000165055	ENST00000482555	retained_intron	KNOWN	None	18272	None	None	128116783	128142180	1	METTL2	METL, FLJ11350
7	METTL2B	ENSG00000165055	ENST00000262432	protein_coding	KNOWN	CCDS5803	18272	1137	378	128116783	128142978	1	METTL2	METL, FLJ11350
7	METTL2B	ENSG00000165055	ENST00000497665	nonsense_mediated_decay	KNOWN	None	18272	231	76	128116803	128138196	1	METTL2	METL, FLJ11350
7	METTL2B	ENSG00000165055	ENST00000480046	protein_coding	NOVEL	None	18272	942	313	128116808	128146656	1	METTL2	METL, FLJ11350
7	METTL2B	ENSG00000165055	ENST00000473488	processed_transcript	KNOWN	None	18272	None	None	128119517	128123444	1	METTL2	METL, FLJ11350
7	METTL2B	ENSG00000165055	ENST00000419443	protein_coding	PUTATIVE	None	18272	319	105	128119543	128128651	1	METTL2	METL, FLJ11350
7	METTL2B	ENSG00000165055	ENST00000481392	protein_coding	PUTATIVE	None	18272	453	150	128133897	128142886	1	METTL2	METL, FLJ11350
14	SERPINA13P	ENSG00000187483	ENST00000469935	processed_transcript	KNOWN	None	30909	None	None	95107062	95113331	1	SERPINA13	UNQ6121
14	SERPINA13P	ENSG00000187483	ENST00000478994	transcribed_unprocessed_pseudogene	KNOWN	None	30909	None	None	95107655	95111363	1	SERPINA13	UNQ6121
4	None	ENSG00000251010	ENST00000510996	antisense	KNOWN	None	None	None	None	147162958	147164821	1	None	None
5	C5orf17	ENSG00000248874	ENST00000512559	nonsense_mediated_decay	KNOWN	None	26630	486	161	23951457	24178372	1	None	FLJ34836
5	C5orf17	ENSG00000248874	ENST00000507936	protein_coding	KNOWN	None	26630	477	158	23951673	23980095	1	None	FLJ34836
9	None	ENSG00000254396	ENST00000522960	lincRNA	KNOWN	None	None	None	None	27102628	27104726	1	None	None
16	None	ENSG00000260719	ENST00000565600	antisense	KNOWN	None	None	None	None	29756568	29759620	1	None	None
HG745_PATCH	GPR179	ENSG00000260825	ENST00000569367	protein_coding	KNOWN	None	31371	7104	2367	36481493	36499693	-1	GPR158L1	None
HG745_PATCH	GPR179	ENSG00000260825	ENST00000561850	processed_transcript	KNOWN	None	31371	None	None	36495007	36499730	-1	GPR158L1	None
4	RNU1-44P	ENSG00000207182	ENST00000384453	snRNA	KNOWN	None	48386	None	None	147501200	147501362	1	None	None
2	None	ENSG00000272211	ENST00000606818	antisense	KNOWN	None	None	None	None	197015987	197019605	1	None	None
19	PAFAH1B3	ENSG00000079462	ENST00000262890	protein_coding	KNOWN	CCDS12602	8576	696	231	42801185	42806723	-1	None	None
19	PAFAH1B3	ENSG00000079462	ENST00000594989	protein_coding	NOVEL	None	8576	607	201	42801188	42806444	-1	None	None
19	PAFAH1B3	ENSG00000079462	ENST00000595530	protein_coding	KNOWN	None	8576	494	163	42801432	42806922	-1	None	None
19	PAFAH1B3	ENSG00000079462	ENST00000596265	protein_coding	NOVEL	None	8576	419	138	42801468	42806880	-1	None	None
19	PAFAH1B3	ENSG00000079462	ENST00000597333	retained_intron	KNOWN	None	8576	None	None	42804069	42806648	-1	None	None
19	PAFAH1B3	ENSG00000079462	ENST00000601865	protein_coding	KNOWN	None	8576	289	95	42804241	42806929	-1	None	None
19	PAFAH1B3	ENSG00000079462	ENST00000599778	protein_coding	KNOWN	None	8576	285	94	42804323	42807698	-1	None	None
19	PAFAH1B3	ENSG00000079462	ENST00000538771	protein_coding	KNOWN	CCDS12602	8576	696	231	42801185	42806929	-1	None	None
4	None	ENSG00000264323	ENST00000584185	miRNA	NOVEL	None	None	None	None	147560413	147560495	1	None	None
9	RNA5SP280	ENSG00000223162	ENST00000411230	rRNA	KNOWN	None	43180	None	None	27198285	27198399	1	RN5S280	None
16	CCNYL3	ENSG00000216671	ENST00000566504	unprocessed_pseudogene	KNOWN	None	33206	None	None	34265051	34292628	1	None	None
16	CCNYL3	ENSG00000216671	ENST00000407030	unprocessed_pseudogene	KNOWN	None	33206	None	None	34262756	34318684	1	None	None
11	CASP12	ENSG00000204403	ENST00000422698	protein_coding	KNOWN	CCDS55785	19004	1026	341	104756445	104769160	-1	CASP12P1	None
11	CASP12	ENSG00000204403	ENST00000458137	nonsense_mediated_decay	KNOWN	None	19004	507	168	104757417	104769397	-1	CASP12P1	None
11	CASP12	ENSG00000204403	ENST00000375726	protein_coding	KNOWN	CCDS55785	19004	1026	341	104757417	104769397	-1	CASP12P1	None
11	CASP12	ENSG00000204403	ENST00000447913	protein_coding	PUTATIVE	None	19004	423	140	104757417	104769397	-1	CASP12P1	None
11	CASP12	ENSG00000204403	ENST00000446862	protein_coding	PUTATIVE	None	19004	834	277	104757417	104769397	-1	CASP12P1	None
11	CASP12	ENSG00000204403	ENST00000441710	protein_coding	NOVEL	None	19004	888	295	104757417	104769397	-1	CASP12P1	None
11	CASP12	ENSG00000204403	ENST00000433738	protein_coding	PUTATIVE	None	19004	429	142	104757417	104769397	-1	CASP12P1	None
11	CASP12	ENSG00000204403	ENST00000448103	protein_coding	PUTATIVE	None	19004	675	224	104757417	104769397	-1	CASP12P1	None
11	CASP12	ENSG00000204403	ENST00000417998	nonsense_mediated_decay	KNOWN	None	19004	507	168	104757417	104769397	-1	CASP12P1	None
11	CASP12	ENSG00000204403	ENST00000494737	protein_coding	NOVEL	None	19004	681	226	104757417	104769397	-1	CASP12P1	None
11	CASP12	ENSG00000204403	ENST00000508062	protein_coding	PUTATIVE	None	19004	774	257	104757441	104769141	-1	CASP12P1	None
17	COX6B1P2	ENSG00000241788	ENST00000489624	processed_pseudogene	KNOWN	None	2282	None	None	46791092	46791321	1	COX6BP2	None
2	None	ENSG00000239161	ENST00000459047	snoRNA	NOVEL	None	None	None	None	197079943	197080046	-1	None	None
16	None	ENSG00000262756	ENST00000572964	lincRNA	KNOWN	None	None	None	None	29793246	29794294	1	None	None
4	None	ENSG00000248764	ENST00000515530	antisense	KNOWN	None	None	None	None	147855153	147866623	1	None	None
9	None	ENSG00000232867	ENST00000422804	processed_pseudogene	KNOWN	None	None	None	None	27210325	27210624	1	None	None
1	TOMM40L	ENSG00000158882	ENST00000367988	protein_coding	KNOWN	CCDS1227	25756	927	308	161195793	161200397	1	None	FLJ12770, TOMM40B
1	TOMM40L	ENSG00000158882	ENST00000474486	processed_transcript	KNOWN	None	25756	None	None	161195850	161200405	1	None	FLJ12770, TOMM40B
1	TOMM40L	ENSG00000158882	ENST00000470426	processed_transcript	KNOWN	None	25756	None	None	161195853	161198577	1	None	FLJ12770, TOMM40B
1	TOMM40L	ENSG00000158882	ENST00000465512	processed_transcript	KNOWN	None	25756	None	None	161195863	161198063	1	None	FLJ12770, TOMM40B
1	TOMM40L	ENSG00000158882	ENST00000492482	processed_transcript	KNOWN	None	25756	None	None	161195872	161199083	1	None	FLJ12770, TOMM40B
1	TOMM40L	ENSG00000158882	ENST00000367987	protein_coding	KNOWN	CCDS1227	25756	927	308	161196094	161200408	1	None	FLJ12770, TOMM40B
1	TOMM40L	ENSG00000158882	ENST00000468803	processed_transcript	KNOWN	None	25756	None	None	161197674	161198293	1	None	FLJ12770, TOMM40B
1	TOMM40L	ENSG00000158882	ENST00000475793	processed_transcript	KNOWN	None	25756	None	None	161198220	161198844	1	None	FLJ12770, TOMM40B
1	TOMM40L	ENSG00000158882	ENST00000545897	protein_coding	KNOWN	None	25756	825	274	161195850	161199049	1	None	FLJ12770, TOMM40B
2	None	ENSG00000229056	ENST00000430904	antisense	KNOWN	None	None	None	None	197124748	197128283	1	None	None
2	None	ENSG00000229056	ENST00000433933	antisense	KNOWN	None	None	None	None	197124838	197128928	1	None	None
2	None	ENSG00000229056	ENST00000605907	antisense	KNOWN	None	None	None	None	197125157	197128353	1	None	None
5	None	ENSG00000253647	ENST00000518387	antisense	KNOWN	None	None	None	None	169816497	169849848	1	None	None
7	None	ENSG00000200753	ENST00000363883	snoRNA	NOVEL	None	None	None	None	20416954	20417024	1	None	None
4	None	ENSG00000248346	ENST00000513711	lincRNA	KNOWN	None	None	None	None	147878590	147896466	1	None	None
4	None	ENSG00000248346	ENST00000512752	lincRNA	KNOWN	None	None	None	None	147895010	147896609	1	None	None
10	RN7SKP37	ENSG00000201364	ENST00000364494	misc_RNA	KNOWN	None	45761	None	None	22222072	22222367	1	None	None
1	PUSL1	ENSG00000169972	ENST00000379031	protein_coding	KNOWN	CCDS20	26914	912	303	1243947	1247057	1	None	FLJ90811
1	PUSL1	ENSG00000169972	ENST00000470520	processed_transcript	KNOWN	None	26914	None	None	1243991	1246408	1	None	FLJ90811
1	PUSL1	ENSG00000169972	ENST00000463758	retained_intron	KNOWN	None	26914	None	None	1244168	1245220	1	None	FLJ90811
1	PUSL1	ENSG00000169972	ENST00000467712	protein_coding	PUTATIVE	None	26914	377	124	1244201	1246449	1	None	FLJ90811
1	PUSL1	ENSG00000169972	ENST00000493657	retained_intron	KNOWN	None	26914	None	None	1244615	1247056	1	None	FLJ90811
9	LINC00032	ENSG00000231459	ENST00000425633	lincRNA	KNOWN	None	16506	None	None	27245682	27282791	-1	C9orf14, NCRNA00032	None
17	HOXB-AS5	ENSG00000229637	ENST00000422730	antisense	KNOWN	None	30143	None	None	46800530	46802819	1	C17orf93, NCRNA00253, HOXB13-AS1, HOXB-AS5	None
17	HOXB-AS5	ENSG00000229637	ENST00000432056	antisense	KNOWN	None	30143	None	None	46801054	46802113	1	C17orf93, NCRNA00253, HOXB13-AS1, HOXB-AS5	None
15	None	ENSG00000259237	ENST00000559915	lincRNA	KNOWN	None	None	None	None	53408562	53421895	1	None	None
16	None	ENSG00000259952	ENST00000566537	antisense	KNOWN	None	None	None	None	29817817	29819053	-1	None	None
10	ADIPOR1P1	ENSG00000232497	ENST00000435632	processed_pseudogene	KNOWN	None	44910	None	None	22451921	22454723	1	None	None
1	None	ENSG00000243558	ENST00000420964	retained_intron	KNOWN	None	None	None	None	2143610	2144013	-1	None	None
15	RNU2-53P	ENSG00000252066	ENST00000516257	snRNA	KNOWN	None	48546	None	None	53944174	53944320	1	None	None
HSCHR17_1_CTG4	None	ENSG00000262040	ENST00000572799	unprocessed_pseudogene	KNOWN	None	None	None	None	39570089	39575352	-1	None	None
5	RFESD	ENSG00000175449	ENST00000511684	protein_coding	KNOWN	None	29587	355	117	94982458	94991894	1	None	None
5	RFESD	ENSG00000175449	ENST00000380005	protein_coding	KNOWN	CCDS47248	29587	633	210	94982476	94993786	1	None	None
5	RFESD	ENSG00000175449	ENST00000506212	retained_intron	KNOWN	None	29587	None	None	94982481	94988519	1	None	None
5	RFESD	ENSG00000175449	ENST00000311364	protein_coding	KNOWN	CCDS4075	29587	474	157	94982558	94992844	1	None	None
5	RFESD	ENSG00000175449	ENST00000504893	retained_intron	KNOWN	None	29587	None	None	94983749	94988567	1	None	None
5	RFESD	ENSG00000175449	ENST00000513950	protein_coding	PUTATIVE	None	29587	183	60	94989765	94992037	1	None	None
5	RFESD	ENSG00000175449	ENST00000508206	processed_transcript	KNOWN	None	29587	None	None	94993766	95020477	1	None	None
5	RFESD	ENSG00000175449	ENST00000458310	protein_coding	KNOWN	CCDS47248	29587	633	210	94982583	94992837	1	None	None
5	None	ENSG00000253858	ENST00000524312	antisense	KNOWN	None	None	None	None	169910810	169913411	-1	None	None
4	None	ENSG00000260090	ENST00000565538	lincRNA	KNOWN	None	None	None	None	147926644	147930297	1	None	None
22	FABP5P11	ENSG00000240122	ENST00000430910	processed_pseudogene	KNOWN	None	19328	None	None	17075979	17076375	-1	FABP5P1, FABP5L11	None
15	RNU6-449P	ENSG00000206641	ENST00000383914	snRNA	KNOWN	None	47412	None	None	54056401	54056507	1	None	None
7	EEF1A1P27	ENSG00000179460	ENST00000429983	processed_pseudogene	KNOWN	None	37900	None	None	20621695	20622829	1	None	None
10	None	ENSG00000236777	ENST00000426134	processed_pseudogene	KNOWN	None	None	None	None	22452021	22453235	1	None	None
15	None	ENSG00000258771	ENST00000557707	processed_pseudogene	KNOWN	None	None	None	None	21286141	21286776	-1	None	None
16	TP53TG3C	ENSG00000205457	ENST00000561509	protein_coding	KNOWN	CCDS58458	42962	375	124	33204980	33208176	1	None	None
16	TP53TG3C	ENSG00000205457	ENST00000569719	nonsense_mediated_decay	KNOWN	None	42962	399	132	33205583	33208176	1	None	None
16	TP53TG3C	ENSG00000205457	ENST00000360260	protein_coding	KNOWN	CCDS55995	42962	309	102	33205585	33207494	1	None	None
16	TP53TG3C	ENSG00000205457	ENST00000567137	nonsense_mediated_decay	KNOWN	CCDS55995	42962	309	102	33205605	33207192	1	None	None
16	TP53TG3C	ENSG00000205457	ENST00000566959	retained_intron	KNOWN	None	42962	None	None	33206091	33207054	1	None	None
16	TP53TG3C	ENSG00000205457	ENST00000562714	processed_transcript	KNOWN	None	42962	None	None	33206313	33207471	1	None	None
16	TP53TG3C	ENSG00000205457	ENST00000564949	processed_transcript	KNOWN	None	42962	None	None	33206488	33207557	1	None	None
16	TP53TG3C	ENSG00000205457	ENST00000398667	protein_coding	KNOWN	None	42962	375	124	33204156	33264727	1	None	None
16	TP53TG3C	ENSG00000205457	ENST00000398666	protein_coding	KNOWN	None	42962	399	132	33205602	33206118	1	None	None
15	None	ENSG00000259301	ENST00000561168	processed_pseudogene	KNOWN	None	None	None	None	54129468	54129757	-1	None	None
1	KCNAB2	ENSG00000069424	ENST00000378111	protein_coding	PUTATIVE	None	6229	522	173	6051526	6160235	1	None	AKR6A5, KCNA2B, HKvbeta2.1, HKvbeta2.2
1	KCNAB2	ENSG00000069424	ENST00000378097	protein_coding	KNOWN	CCDS55	6229	1104	367	6052423	6161253	1	None	AKR6A5, KCNA2B, HKvbeta2.1, HKvbeta2.2
1	KCNAB2	ENSG00000069424	ENST00000493807	processed_transcript	KNOWN	None	6229	None	None	6052733	6067720	1	None	AKR6A5, KCNA2B, HKvbeta2.1, HKvbeta2.2
1	KCNAB2	ENSG00000069424	ENST00000378092	protein_coding	KNOWN	CCDS56	6229	1062	353	6052761	6158634	1	None	AKR6A5, KCNA2B, HKvbeta2.1, HKvbeta2.2
1	KCNAB2	ENSG00000069424	ENST00000478098	retained_intron	KNOWN	None	6229	None	None	6052766	6133907	1	None	AKR6A5, KCNA2B, HKvbeta2.1, HKvbeta2.2
1	KCNAB2	ENSG00000069424	ENST00000445501	protein_coding	KNOWN	None	6229	155	50	6052771	6132850	1	None	AKR6A5, KCNA2B, HKvbeta2.1, HKvbeta2.2
1	KCNAB2	ENSG00000069424	ENST00000389632	protein_coding	KNOWN	None	6229	761	252	6086360	6155641	1	None	AKR6A5, KCNA2B, HKvbeta2.1, HKvbeta2.2
1	KCNAB2	ENSG00000069424	ENST00000428161	protein_coding	KNOWN	None	6229	763	253	6086360	6155685	1	None	AKR6A5, KCNA2B, HKvbeta2.1, HKvbeta2.2
1	KCNAB2	ENSG00000069424	ENST00000602612	protein_coding	PUTATIVE	None	6229	1188	395	6086380	6158621	1	None	AKR6A5, KCNA2B, HKvbeta2.1, HKvbeta2.2
1	KCNAB2	ENSG00000069424	ENST00000435937	protein_coding	KNOWN	None	6229	285	94	6087357	6145309	1	None	AKR6A5, KCNA2B, HKvbeta2.1, HKvbeta2.2
1	KCNAB2	ENSG00000069424	ENST00000164247	protein_coding	KNOWN	CCDS55	6229	1104	367	6094343	6161239	1	None	AKR6A5, KCNA2B, HKvbeta2.1, HKvbeta2.2
1	KCNAB2	ENSG00000069424	ENST00000459822	processed_transcript	KNOWN	None	6229	None	None	6095977	6101822	1	None	AKR6A5, KCNA2B, HKvbeta2.1, HKvbeta2.2
1	KCNAB2	ENSG00000069424	ENST00000472700	protein_coding	PUTATIVE	None	6229	488	161	6100678	6146422	1	None	AKR6A5, KCNA2B, HKvbeta2.1, HKvbeta2.2
1	KCNAB2	ENSG00000069424	ENST00000378083	protein_coding	KNOWN	CCDS55570	6229	1248	415	6105981	6161239	1	None	AKR6A5, KCNA2B, HKvbeta2.1, HKvbeta2.2
1	KCNAB2	ENSG00000069424	ENST00000462676	protein_coding	PUTATIVE	None	6229	369	122	6142321	6146423	1	None	AKR6A5, KCNA2B, HKvbeta2.1, HKvbeta2.2
1	KCNAB2	ENSG00000069424	ENST00000481789	retained_intron	KNOWN	None	6229	None	None	6156316	6158870	1	None	AKR6A5, KCNA2B, HKvbeta2.1, HKvbeta2.2
1	KCNAB2	ENSG00000069424	ENST00000378087	protein_coding	KNOWN	None	6229	522	173	6086380	6160078	1	None	AKR6A5, KCNA2B, HKvbeta2.1, HKvbeta2.2
1	KCNAB2	ENSG00000069424	ENST00000341524	protein_coding	KNOWN	CCDS55	6229	1104	367	6086380	6160523	1	None	AKR6A5, KCNA2B, HKvbeta2.1, HKvbeta2.2
1	KCNAB2	ENSG00000069424	ENST00000352527	protein_coding	KNOWN	CCDS56	6229	1062	353	6086380	6160523	1	None	AKR6A5, KCNA2B, HKvbeta2.1, HKvbeta2.2
1	KCNAB2	ENSG00000069424	ENST00000458166	protein_coding	KNOWN	CCDS55571	6229	903	300	6106174	6158915	1	None	AKR6A5, KCNA2B, HKvbeta2.1, HKvbeta2.2
10	MMP21	ENSG00000154485	ENST00000368808	protein_coding	KNOWN	CCDS7647	14357	1710	569	127455022	127464390	-1	None	None
16	None	ENSG00000238045	ENST00000569981	antisense	KNOWN	None	None	None	None	29819966	29823306	-1	None	None
16	None	ENSG00000238045	ENST00000563806	antisense	KNOWN	None	None	None	None	29819970	29821028	-1	None	None
11	FBXO3	ENSG00000110429	ENST00000526785	protein_coding	PUTATIVE	None	13582	1077	358	33762485	33795893	-1	None	FBX3, FBA
11	FBXO3	ENSG00000110429	ENST00000265651	protein_coding	KNOWN	CCDS7887	13582	1416	471	33762492	33796062	-1	None	FBX3, FBA
11	FBXO3	ENSG00000110429	ENST00000530013	retained_intron	KNOWN	None	13582	None	None	33762502	33796071	-1	None	FBX3, FBA
11	FBXO3	ENSG00000110429	ENST00000530401	protein_coding	NOVEL	None	13582	1233	410	33762511	33796064	-1	None	FBX3, FBA
11	FBXO3	ENSG00000110429	ENST00000531080	protein_coding	PUTATIVE	None	13582	477	158	33762988	33774946	-1	None	FBX3, FBA
11	FBXO3	ENSG00000110429	ENST00000532057	protein_coding	PUTATIVE	None	13582	477	158	33763285	33774945	-1	None	FBX3, FBA
11	FBXO3	ENSG00000110429	ENST00000534136	protein_coding	PUTATIVE	None	13582	1293	430	33766231	33796050	-1	None	FBX3, FBA
11	FBXO3	ENSG00000110429	ENST00000527772	processed_transcript	PUTATIVE	None	13582	None	None	33767483	33770358	-1	None	FBX3, FBA
11	FBXO3	ENSG00000110429	ENST00000448981	protein_coding	KNOWN	CCDS44566	13582	1248	415	33768289	33796089	-1	None	FBX3, FBA
11	FBXO3	ENSG00000110429	ENST00000532927	nonsense_mediated_decay	KNOWN	None	13582	519	172	33768788	33796066	-1	None	FBX3, FBA
11	FBXO3	ENSG00000110429	ENST00000529137	nonsense_mediated_decay	KNOWN	None	13582	390	129	33777499	33796050	-1	None	FBX3, FBA
11	FBXO3	ENSG00000110429	ENST00000533103	processed_transcript	KNOWN	None	13582	None	None	33780049	33795860	-1	None	FBX3, FBA
11	FBXO3	ENSG00000110429	ENST00000526952	processed_transcript	PUTATIVE	None	13582	None	None	33784752	33793549	-1	None	FBX3, FBA
HG79_PATCH	None	ENSG00000259879	ENST00000567196	processed_pseudogene	KNOWN	None	None	None	None	136214525	136215000	1	None	None
14	ARHGAP42P4	ENSG00000258080	ENST00000549782	processed_pseudogene	KNOWN	None	43941	None	None	20156420	20159353	1	None	None
19	SWSAP1	ENSG00000173928	ENST00000312423	protein_coding	KNOWN	CCDS12259	26638	690	229	11485361	11487627	1	C19orf39	FLJ35119, ZSWIM7AP1, SWS1AP1
8	DEFB4A	ENSG00000171711	ENST00000302247	protein_coding	KNOWN	CCDS5971	2767	195	64	7752151	7754233	1	DEFB102, DEFB2, DEFB4	SAP1, HBD-2, DEFB-2
7	None	ENSG00000242798	ENST00000494221	processed_transcript	PUTATIVE	None	None	None	None	99712837	99724762	-1	None	None
HG79_PATCH	None	ENSG00000266834	ENST00000584927	snoRNA	KNOWN	None	None	None	None	136224931	136225005	1	None	None
HG75_PATCH	ZNHIT3	ENSG00000260952	ENST00000562164	protein_coding	KNOWN	None	12309	468	155	34814005	34823192	1	TRIP3	None
HG75_PATCH	ZNHIT3	ENSG00000260952	ENST00000569480	processed_transcript	KNOWN	None	12309	None	None	34814027	34823193	1	TRIP3	None
20	BPIFB6	ENSG00000167104	ENST00000542375	nonsense_mediated_decay	KNOWN	None	16504	267	88	31619454	31631847	1	BPIL3	LPLUNC6
20	BPIFB6	ENSG00000167104	ENST00000349552	protein_coding	KNOWN	CCDS13211	16504	1362	453	31619454	31631853	1	BPIL3	LPLUNC6
5	None	ENSG00000253591	ENST00000523591	antisense	KNOWN	None	None	None	None	170066162	170108441	-1	None	None
2	RN7SL820P	ENSG00000264627	ENST00000583941	misc_RNA	KNOWN	None	46836	None	None	197154133	197154429	1	None	None
9	None	ENSG00000237734	ENST00000448858	antisense	KNOWN	None	None	None	None	27391732	27397561	1	None	None
18	RN7SL310P	ENSG00000240663	ENST00000465317	misc_RNA	KNOWN	None	46326	None	None	47733370	47733648	-1	None	None
HG748_PATCH	None	ENSG00000263278	ENST00000571452	sense_intronic	KNOWN	None	None	None	None	77594114	77600003	-1	None	None
13	DOCK9	ENSG00000088387	ENST00000400228	protein_coding	KNOWN	None	14132	2008	668	99445741	99484047	-1	None	KIAA1058, ZIZ1
13	DOCK9	ENSG00000088387	ENST00000376460	protein_coding	KNOWN	CCDS45062	14132	6207	2068	99445741	99630244	-1	None	KIAA1058, ZIZ1
13	DOCK9	ENSG00000088387	ENST00000419908	protein_coding	KNOWN	None	14132	1169	388	99452542	99481709	-1	None	KIAA1058, ZIZ1
13	DOCK9	ENSG00000088387	ENST00000451563	protein_coding	KNOWN	None	14132	609	202	99459915	99481620	-1	None	KIAA1058, ZIZ1
13	DOCK9	ENSG00000088387	ENST00000340449	protein_coding	KNOWN	None	14132	1273	423	99461563	99499938	-1	None	KIAA1058, ZIZ1
13	DOCK9	ENSG00000088387	ENST00000481051	processed_transcript	KNOWN	None	14132	None	None	99462513	99481750	-1	None	KIAA1058, ZIZ1
13	DOCK9	ENSG00000088387	ENST00000449796	protein_coding	KNOWN	None	14132	750	249	99483650	99508238	-1	None	KIAA1058, ZIZ1
13	DOCK9	ENSG00000088387	ENST00000450257	protein_coding	KNOWN	None	14132	348	115	99484028	99502334	-1	None	KIAA1058, ZIZ1
13	DOCK9	ENSG00000088387	ENST00000472874	processed_transcript	KNOWN	None	14132	None	None	99498202	99512730	-1	None	KIAA1058, ZIZ1
13	DOCK9	ENSG00000088387	ENST00000461998	processed_transcript	KNOWN	None	14132	None	None	99512435	99515802	-1	None	KIAA1058, ZIZ1
13	DOCK9	ENSG00000088387	ENST00000473165	processed_transcript	KNOWN	None	14132	None	None	99540389	99540939	-1	None	KIAA1058, ZIZ1
13	DOCK9	ENSG00000088387	ENST00000427887	protein_coding	KNOWN	None	14132	585	194	99574305	99738879	-1	None	KIAA1058, ZIZ1
13	DOCK9	ENSG00000088387	ENST00000479769	processed_transcript	KNOWN	None	14132	None	None	99607689	99738647	-1	None	KIAA1058, ZIZ1
13	DOCK9	ENSG00000088387	ENST00000339416	protein_coding	KNOWN	None	14132	6282	2093	99446880	99738660	-1	None	KIAA1058, ZIZ1
13	DOCK9	ENSG00000088387	ENST00000448493	protein_coding	KNOWN	None	14132	4182	1393	99461565	99667973	-1	None	KIAA1058, ZIZ1
13	DOCK9	ENSG00000088387	ENST00000442173	protein_coding	KNOWN	CCDS45063	14132	3762	1253	99512437	99630338	-1	None	KIAA1058, ZIZ1
14	None	ENSG00000261242	ENST00000561909	antisense	KNOWN	None	None	None	None	64010287	64011382	1	None	None
HSCHR6_MHC_COX	TRIM26BP	ENSG00000223840	ENST00000451866	unprocessed_pseudogene	KNOWN	None	31338	None	None	30195956	30199945	1	TRIM26P	Em:AB023053.1, TRIM26P1
18	None	ENSG00000267695	ENST00000586227	lincRNA	KNOWN	None	None	None	None	47828560	47839965	1	None	None
7	ERVW-1	ENSG00000242950	ENST00000604270	processed_transcript	KNOWN	None	13525	None	None	92097694	92102503	-1	ERVWE1	HERV-W, HERV-W-ENV, HERVW, HERV-7q
7	ERVW-1	ENSG00000242950	ENST00000603053	protein_coding	KNOWN	CCDS5626	13525	1617	538	92097694	92107229	-1	ERVWE1	HERV-W, HERV-W-ENV, HERVW, HERV-7q
7	ERVW-1	ENSG00000242950	ENST00000603704	processed_transcript	KNOWN	None	13525	None	None	92097694	92107260	-1	ERVWE1	HERV-W, HERV-W-ENV, HERVW, HERV-7q
7	ERVW-1	ENSG00000242950	ENST00000493463	protein_coding	KNOWN	CCDS5626	13525	1617	538	92097695	92100619	-1	ERVWE1	HERV-W, HERV-W-ENV, HERVW, HERV-7q
7	ERVW-1	ENSG00000242950	ENST00000603252	processed_transcript	KNOWN	None	13525	None	None	92103906	92107300	-1	ERVWE1	HERV-W, HERV-W-ENV, HERVW, HERV-7q
17	MIR3185	ENSG00000263602	ENST00000583892	miRNA	KNOWN	None	38391	None	None	46801770	46801837	-1	None	hsa-mir-3185
15	None	ENSG00000259434	ENST00000561054	lincRNA	KNOWN	None	None	None	None	37657228	37783009	-1	None	None
22	TNRC6B	ENSG00000100354	ENST00000441751	protein_coding	KNOWN	None	29190	113	36	40440821	40552186	1	None	KIAA1093
22	TNRC6B	ENSG00000100354	ENST00000402203	protein_coding	KNOWN	CCDS46712	29190	3090	1029	40441478	40719364	1	None	KIAA1093
22	TNRC6B	ENSG00000100354	ENST00000489500	retained_intron	KNOWN	None	29190	None	None	40573929	40642366	1	None	KIAA1093
22	TNRC6B	ENSG00000100354	ENST00000335727	protein_coding	KNOWN	CCDS46713	29190	5172	1723	40573946	40731809	1	None	KIAA1093
22	TNRC6B	ENSG00000100354	ENST00000446273	protein_coding	PUTATIVE	None	29190	4175	1390	40661007	40717803	1	None	KIAA1093
22	TNRC6B	ENSG00000100354	ENST00000497559	processed_transcript	KNOWN	None	29190	None	None	40672844	40696502	1	None	KIAA1093
22	TNRC6B	ENSG00000100354	ENST00000467658	retained_intron	KNOWN	None	29190	None	None	40696860	40697499	1	None	KIAA1093
22	TNRC6B	ENSG00000100354	ENST00000301923	protein_coding	KNOWN	CCDS46712	29190	3090	1029	40440821	40731811	1	None	KIAA1093
22	TNRC6B	ENSG00000100354	ENST00000454349	protein_coding	KNOWN	CCDS54533	29190	5502	1833	40573929	40731811	1	None	KIAA1093
12	GTF2H3	ENSG00000111358	ENST00000542279	nonsense_mediated_decay	KNOWN	None	4657	204	67	124118375	124144131	1	None	BTF2, TFIIH, P34
12	GTF2H3	ENSG00000111358	ENST00000543005	retained_intron	KNOWN	None	4657	None	None	124118376	124132943	1	None	BTF2, TFIIH, P34
12	GTF2H3	ENSG00000111358	ENST00000537368	retained_intron	KNOWN	None	4657	None	None	124118376	124135703	1	None	BTF2, TFIIH, P34
12	GTF2H3	ENSG00000111358	ENST00000539994	protein_coding	NOVEL	None	4657	531	176	124118376	124139545	1	None	BTF2, TFIIH, P34
12	GTF2H3	ENSG00000111358	ENST00000538845	protein_coding	NOVEL	None	4657	632	209	124118376	124140343	1	None	BTF2, TFIIH, P34
12	GTF2H3	ENSG00000111358	ENST00000228955	protein_coding	PUTATIVE	None	4657	804	267	124118376	124145376	1	None	BTF2, TFIIH, P34
12	GTF2H3	ENSG00000111358	ENST00000543341	protein_coding	KNOWN	CCDS9252	4657	927	308	124118376	124147153	1	None	BTF2, TFIIH, P34
12	GTF2H3	ENSG00000111358	ENST00000537695	retained_intron	KNOWN	None	4657	None	None	124118380	124139517	1	None	BTF2, TFIIH, P34
12	GTF2H3	ENSG00000111358	ENST00000536375	protein_coding	PUTATIVE	None	4657	775	257	124118392	124144759	1	None	BTF2, TFIIH, P34
12	GTF2H3	ENSG00000111358	ENST00000543415	nonsense_mediated_decay	KNOWN	None	4657	603	200	124123810	124144797	1	None	BTF2, TFIIH, P34
12	GTF2H3	ENSG00000111358	ENST00000538533	protein_coding	PUTATIVE	None	4657	445	147	124123811	124144377	1	None	BTF2, TFIIH, P34
12	GTF2H3	ENSG00000111358	ENST00000543154	protein_coding	PUTATIVE	None	4657	582	193	124132598	124144779	1	None	BTF2, TFIIH, P34
12	GTF2H3	ENSG00000111358	ENST00000539429	retained_intron	KNOWN	None	4657	None	None	124143910	124145175	1	None	BTF2, TFIIH, P34
18	RNA5SP458	ENSG00000251997	ENST00000516188	rRNA	KNOWN	None	43358	None	None	47845372	47845490	1	RN5S458	None
HSCHR6_MHC_SSTO	PPP1R11	ENSG00000237829	ENST00000437171	protein_coding	KNOWN	None	9285	225	74	30024068	30027692	1	TCTE5	HCGV, Tctex5, HCG-V
HSCHR6_MHC_SSTO	PPP1R11	ENSG00000237829	ENST00000449087	protein_coding	KNOWN	None	9285	225	74	30024564	30027692	1	TCTE5	HCGV, Tctex5, HCG-V
HSCHR6_MHC_SSTO	PPP1R11	ENSG00000237829	ENST00000431977	protein_coding	KNOWN	None	9285	381	126	30024571	30027692	1	TCTE5	HCGV, Tctex5, HCG-V
HSCHR6_MHC_SSTO	PPP1R11	ENSG00000237829	ENST00000433662	protein_coding	KNOWN	None	9285	225	74	30024902	30027692	1	TCTE5	HCGV, Tctex5, HCG-V
HSCHR6_MHC_SSTO	PPP1R11	ENSG00000237829	ENST00000458506	protein_coding	KNOWN	None	9285	225	74	30024935	30027692	1	TCTE5	HCGV, Tctex5, HCG-V
HSCHR6_MHC_SSTO	PPP1R11	ENSG00000237829	ENST00000455887	protein_coding	KNOWN	None	9285	225	74	30025565	30027692	1	TCTE5	HCGV, Tctex5, HCG-V
HG79_PATCH	None	ENSG00000265941	ENST00000580478	snoRNA	NOVEL	None	None	None	None	136225630	136225703	1	None	None
HSCHR6_MHC_COX	VPS52	ENSG00000225590	ENST00000461476	nonsense_mediated_decay	KNOWN	None	10518	267	88	33139671	33161259	-1	SACM2L	ARE1
HSCHR6_MHC_COX	VPS52	ENSG00000225590	ENST00000448042	protein_coding	KNOWN	None	10518	2172	723	33139671	33161277	-1	SACM2L	ARE1
HSCHR6_MHC_COX	VPS52	ENSG00000225590	ENST00000488583	processed_transcript	KNOWN	None	10518	None	None	33139671	33161430	-1	SACM2L	ARE1
HSCHR6_MHC_COX	VPS52	ENSG00000225590	ENST00000465355	processed_transcript	PUTATIVE	None	10518	None	None	33140005	33152996	-1	SACM2L	ARE1
HSCHR6_MHC_COX	VPS52	ENSG00000225590	ENST00000475520	processed_transcript	PUTATIVE	None	10518	None	None	33140210	33153686	-1	SACM2L	ARE1
HSCHR6_MHC_COX	VPS52	ENSG00000225590	ENST00000494723	processed_transcript	PUTATIVE	None	10518	None	None	33141316	33153947	-1	SACM2L	ARE1
HSCHR6_MHC_COX	VPS52	ENSG00000225590	ENST00000497047	retained_intron	KNOWN	None	10518	None	None	33152931	33153605	-1	SACM2L	ARE1
HSCHR6_MHC_COX	VPS52	ENSG00000225590	ENST00000482849	processed_transcript	PUTATIVE	None	10518	None	None	33153462	33156648	-1	SACM2L	ARE1
HSCHR6_MHC_COX	VPS52	ENSG00000225590	ENST00000475885	retained_intron	KNOWN	None	10518	None	None	33156849	33157536	-1	SACM2L	ARE1
HSCHR6_MHC_COX	VPS52	ENSG00000225590	ENST00000467130	processed_transcript	KNOWN	None	10518	None	None	33157253	33161160	-1	SACM2L	ARE1
HSCHR6_MHC_COX	VPS52	ENSG00000225590	ENST00000492921	processed_transcript	KNOWN	None	10518	None	None	33157254	33161267	-1	SACM2L	ARE1
1	None	ENSG00000234396	ENST00000442483	lincRNA	KNOWN	None	None	None	None	2143962	2152177	1	None	None
18	None	ENSG00000221529	ENST00000408602	miRNA	NOVEL	None	None	None	None	47927311	47927418	-1	None	None
17	None	ENSG00000242407	ENST00000495536	lincRNA	KNOWN	None	None	None	None	46810453	46811250	1	None	None
HG79_PATCH	None	ENSG00000266284	ENST00000577778	snoRNA	KNOWN	None	None	None	None	136225991	136226063	1	None	None
5	FAM153B	ENSG00000182230	ENST00000510151	protein_coding	KNOWN	CCDS43401	27323	933	310	175487692	175542870	1	None	None
5	FAM153B	ENSG00000182230	ENST00000514721	processed_transcript	KNOWN	None	27323	None	None	175487726	175502222	1	None	None
5	FAM153B	ENSG00000182230	ENST00000511680	retained_intron	KNOWN	None	27323	None	None	175488125	175517442	1	None	None
5	FAM153B	ENSG00000182230	ENST00000512862	protein_coding	PUTATIVE	None	27323	435	144	175488258	175543018	1	None	None
5	FAM153B	ENSG00000182230	ENST00000513073	processed_transcript	KNOWN	None	27323	None	None	175489538	175491721	1	None	None
5	FAM153B	ENSG00000182230	ENST00000515817	protein_coding	KNOWN	CCDS43401	27323	933	310	175490540	175541801	1	None	None
5	FAM153B	ENSG00000182230	ENST00000507409	retained_intron	KNOWN	None	27323	None	None	175490712	175517799	1	None	None
5	FAM153B	ENSG00000182230	ENST00000508296	nonsense_mediated_decay	KNOWN	CCDS43401	27323	933	310	175490751	175553958	1	None	None
5	FAM153B	ENSG00000182230	ENST00000393522	processed_transcript	KNOWN	None	27323	None	None	175511849	175536592	1	None	None
5	FAM153B	ENSG00000182230	ENST00000503724	protein_coding	PUTATIVE	None	27323	400	132	175511859	175528584	1	None	None
5	FAM153B	ENSG00000182230	ENST00000513938	retained_intron	KNOWN	None	27323	None	None	175511909	175517613	1	None	None
5	FAM153B	ENSG00000182230	ENST00000514235	retained_intron	KNOWN	None	27323	None	None	175511909	175517712	1	None	None
5	FAM153B	ENSG00000182230	ENST00000503533	processed_transcript	KNOWN	None	27323	None	None	175511909	175524968	1	None	None
5	FAM153B	ENSG00000182230	ENST00000502475	retained_intron	KNOWN	None	27323	None	None	175540155	175542781	1	None	None
5	FAM153B	ENSG00000182230	ENST00000507672	processed_transcript	KNOWN	None	27323	None	None	175546548	175548151	1	None	None
5	FAM153B	ENSG00000182230	ENST00000513787	processed_transcript	KNOWN	None	27323	None	None	175546563	175552168	1	None	None
5	FAM153B	ENSG00000182230	ENST00000509747	processed_transcript	KNOWN	None	27323	None	None	175546649	175548817	1	None	None
5	FAM153B	ENSG00000182230	ENST00000508356	processed_transcript	KNOWN	None	27323	None	None	175547893	175559261	1	None	None
5	FAM153B	ENSG00000182230	ENST00000512543	retained_intron	KNOWN	None	27323	None	None	175550837	175552141	1	None	None
5	FAM153B	ENSG00000182230	ENST00000253490	protein_coding	KNOWN	None	27323	1164	387	175511909	175543458	1	None	None
X	None	ENSG00000224471	ENST00000415864	processed_pseudogene	KNOWN	None	None	None	None	102054491	102054811	1	None	None
4	MIR548G	ENSG00000221369	ENST00000408442	miRNA	KNOWN	None	35326	None	None	148265781	148265869	-1	MIRN548G	hsa-mir-548g
17	PITPNA	ENSG00000174238	ENST00000313486	protein_coding	KNOWN	CCDS45563	9001	813	270	1421012	1466110	-1	PITPN	VIB1A
17	PITPNA	ENSG00000174238	ENST00000575288	nonsense_mediated_decay	KNOWN	None	9001	297	98	1423507	1466040	-1	PITPN	VIB1A
17	PITPNA	ENSG00000174238	ENST00000574991	protein_coding	NOVEL	None	9001	627	208	1437463	1456366	-1	PITPN	VIB1A
17	PITPNA	ENSG00000174238	ENST00000576722	protein_coding	PUTATIVE	None	9001	426	141	1438476	1466033	-1	PITPN	VIB1A
17	PITPNA	ENSG00000174238	ENST00000575895	protein_coding	PUTATIVE	None	9001	346	114	1438556	1463095	-1	PITPN	VIB1A
17	PITPNA	ENSG00000174238	ENST00000576761	protein_coding	PUTATIVE	None	9001	198	65	1438765	1466062	-1	PITPN	VIB1A
17	PITPNA	ENSG00000174238	ENST00000576010	protein_coding	PUTATIVE	None	9001	249	82	1438801	1466074	-1	PITPN	VIB1A
17	PITPNA	ENSG00000174238	ENST00000572004	retained_intron	KNOWN	None	9001	None	None	1441733	1444893	-1	PITPN	VIB1A
17	PITPNA	ENSG00000174238	ENST00000573231	protein_coding	PUTATIVE	None	9001	132	43	1444881	1465924	-1	PITPN	VIB1A
17	PITPNA	ENSG00000174238	ENST00000573056	protein_coding	PUTATIVE	None	9001	363	120	1446314	1463095	-1	PITPN	VIB1A
17	PITPNA	ENSG00000174238	ENST00000539476	protein_coding	KNOWN	None	9001	813	270	1421287	1466110	-1	PITPN	VIB1A
18	RPLP0P11	ENSG00000239780	ENST00000498296	processed_pseudogene	KNOWN	None	36572	None	None	47984257	47985165	1	None	None
16	None	ENSG00000261962	ENST00000569039	antisense	KNOWN	None	None	None	None	29820250	29831687	-1	None	None
14	None	ENSG00000205767	ENST00000497246	processed_pseudogene	KNOWN	None	None	None	None	64034676	64035026	1	None	None
14	None	ENSG00000205767	ENST00000381654	processed_pseudogene	KNOWN	None	None	None	None	64034671	64035027	1	None	None
17	RN7SL125P	ENSG00000244514	ENST00000480790	misc_RNA	KNOWN	None	46141	None	None	46842918	46843209	-1	None	None
16	None	ENSG00000261053	ENST00000569273	processed_pseudogene	KNOWN	None	None	None	None	34320267	34320490	1	None	None
HG748_PATCH	MIR4739	ENSG00000265034	ENST00000577742	miRNA	KNOWN	None	41801	None	None	77703258	77703331	-1	None	hsa-mir-4739
8	None	ENSG00000202514	ENST00000365644	misc_RNA	NOVEL	None	None	None	None	42804531	42804638	-1	None	None
4	None	ENSG00000241281	ENST00000473673	processed_pseudogene	KNOWN	None	None	None	None	148347126	148347503	-1	None	None
6	PRPH2	ENSG00000112619	ENST00000230381	protein_coding	KNOWN	CCDS4871	9942	1041	346	42664340	42690312	-1	RP7, RDS	TSPAN22, rd2, CACD2
17	None	ENSG00000248278	ENST00000508743	processed_transcript	KNOWN	None	None	None	None	46952222	46986345	-1	None	None
17	None	ENSG00000248278	ENST00000504438	transcribed_processed_pseudogene	KNOWN	None	None	None	None	46952276	46952560	-1	None	None
10	None	ENSG00000260205	ENST00000564681	lincRNA	KNOWN	None	None	None	None	22507003	22510097	1	None	None
HG79_PATCH	None	ENSG00000265651	ENST00000578263	snoRNA	KNOWN	None	None	None	None	136226382	136226447	1	None	None
14	None	ENSG00000258454	ENST00000554225	sense_overlapping	KNOWN	None	None	None	None	76702160	76729817	1	None	None
4	None	ENSG00000249004	ENST00000514351	processed_pseudogene	KNOWN	None	None	None	None	148379876	148380473	-1	None	None
7	None	ENSG00000231525	ENST00000447806	processed_pseudogene	KNOWN	None	None	None	None	20628613	20629708	1	None	None
4	UGT8	ENSG00000174607	ENST00000310836	protein_coding	KNOWN	CCDS3705	12555	1626	541	115519611	115599380	1	CGT	None
4	UGT8	ENSG00000174607	ENST00000507710	protein_coding	KNOWN	None	12555	425	140	115519926	115544461	1	CGT	None
4	UGT8	ENSG00000174607	ENST00000394511	protein_coding	KNOWN	CCDS3705	12555	1626	541	115543523	115597752	1	CGT	None
15	GAPDHP55	ENSG00000224055	ENST00000423136	processed_pseudogene	KNOWN	None	38561	None	None	44355709	44356511	1	None	None
3	ADPRH	ENSG00000144843	ENST00000478399	protein_coding	KNOWN	CCDS2990	269	1074	357	119298115	119308792	1	None	ARH1
3	ADPRH	ENSG00000144843	ENST00000481816	protein_coding	KNOWN	None	269	377	124	119298280	119305210	1	None	ARH1
3	ADPRH	ENSG00000144843	ENST00000471850	processed_transcript	KNOWN	None	269	None	None	119298311	119307060	1	None	ARH1
3	ADPRH	ENSG00000144843	ENST00000485496	processed_transcript	KNOWN	None	269	None	None	119298375	119305386	1	None	ARH1
3	ADPRH	ENSG00000144843	ENST00000478927	protein_coding	KNOWN	CCDS2990	269	1074	357	119298437	119306854	1	None	ARH1
3	ADPRH	ENSG00000144843	ENST00000357003	protein_coding	KNOWN	CCDS2990	269	1074	357	119298523	119308792	1	None	ARH1
3	ADPRH	ENSG00000144843	ENST00000465513	protein_coding	KNOWN	CCDS2990	269	1074	357	119300912	119306911	1	None	ARH1
18	None	ENSG00000267713	ENST00000588916	transcribed_processed_pseudogene	KNOWN	None	None	None	None	48195880	48196585	1	None	None
5	MIR4454	ENSG00000253348	ENST00000521965	antisense	KNOWN	None	41553	None	None	170174051	170185183	-1	None	hsa-mir-4454
5	MIR4454	ENSG00000253348	ENST00000503797	antisense	KNOWN	None	41553	None	None	170184889	170194562	-1	None	hsa-mir-4454
5	MIR4454	ENSG00000253348	ENST00000518172	antisense	KNOWN	None	41553	None	None	170194208	170215654	-1	None	hsa-mir-4454
17	None	ENSG00000212565	ENST00000391263	snoRNA	NOVEL	None	None	None	None	46958202	46958329	1	None	None
8	ERICH1-AS1	ENSG00000237647	ENST00000522092	antisense	KNOWN	None	32290	None	None	687651	1087777	1	C8orf68	None
8	ERICH1-AS1	ENSG00000237647	ENST00000520816	antisense	KNOWN	None	32290	None	None	687664	704258	1	C8orf68	None
8	ERICH1-AS1	ENSG00000237647	ENST00000577187	antisense	KNOWN	None	32290	None	None	687742	860575	1	C8orf68	None
8	ERICH1-AS1	ENSG00000237647	ENST00000524139	antisense	KNOWN	None	32290	None	None	833198	982931	1	C8orf68	None
8	ERICH1-AS1	ENSG00000237647	ENST00000578889	antisense	KNOWN	None	32290	None	None	833328	1055066	1	C8orf68	None
8	RNA5SP262	ENSG00000252261	ENST00000516452	rRNA	KNOWN	None	43162	None	None	32049544	32049669	-1	RN5S262	None
17	None	ENSG00000248895	ENST00000502398	processed_pseudogene	KNOWN	None	None	None	None	46958484	46958678	1	None	None
15	None	ENSG00000243122	ENST00000476363	processed_pseudogene	KNOWN	None	None	None	None	37782892	37783304	1	None	None
16	TRAP1	ENSG00000126602	ENST00000575707	nonsense_mediated_decay	KNOWN	None	16264	179	58	3701640	3711991	-1	None	HSP75, HSP90L
16	TRAP1	ENSG00000126602	ENST00000246957	protein_coding	KNOWN	CCDS10508	16264	2115	704	3708038	3767598	-1	None	HSP75, HSP90L
16	TRAP1	ENSG00000126602	ENST00000574494	retained_intron	KNOWN	None	16264	None	None	3708039	3712268	-1	None	HSP75, HSP90L
16	TRAP1	ENSG00000126602	ENST00000575671	protein_coding	PUTATIVE	None	16264	1488	495	3708039	3728305	-1	None	HSP75, HSP90L
16	TRAP1	ENSG00000126602	ENST00000538171	protein_coding	NOVEL	None	16264	1956	651	3708039	3767514	-1	None	HSP75, HSP90L
16	TRAP1	ENSG00000126602	ENST00000573872	processed_transcript	KNOWN	None	16264	None	None	3716027	3727651	-1	None	HSP75, HSP90L
16	TRAP1	ENSG00000126602	ENST00000576335	protein_coding	NOVEL	None	16264	645	214	3716083	3739076	-1	None	HSP75, HSP90L
16	TRAP1	ENSG00000126602	ENST00000574175	nonsense_mediated_decay	KNOWN	None	16264	326	107	3722803	3727571	-1	None	HSP75, HSP90L
16	TRAP1	ENSG00000126602	ENST00000570514	retained_intron	KNOWN	None	16264	None	None	3724337	3726215	-1	None	HSP75, HSP90L
16	TRAP1	ENSG00000126602	ENST00000575854	processed_transcript	KNOWN	None	16264	None	None	3724657	3727659	-1	None	HSP75, HSP90L
16	TRAP1	ENSG00000126602	ENST00000576788	processed_transcript	PUTATIVE	None	16264	None	None	3726095	3726947	-1	None	HSP75, HSP90L
16	TRAP1	ENSG00000126602	ENST00000571804	nonsense_mediated_decay	KNOWN	None	16264	114	37	3727499	3767517	-1	None	HSP75, HSP90L
16	TRAP1	ENSG00000126602	ENST00000574941	processed_transcript	KNOWN	None	16264	None	None	3728286	3767527	-1	None	HSP75, HSP90L
16	TRAP1	ENSG00000126602	ENST00000576106	processed_transcript	KNOWN	None	16264	None	None	3728367	3767554	-1	None	HSP75, HSP90L
16	TRAP1	ENSG00000126602	ENST00000571538	protein_coding	PUTATIVE	None	16264	107	34	3729736	3741134	-1	None	HSP75, HSP90L
16	TRAP1	ENSG00000126602	ENST00000571011	nonsense_mediated_decay	KNOWN	None	16264	261	86	3736101	3767525	-1	None	HSP75, HSP90L
16	TRAP1	ENSG00000126602	ENST00000570403	nonsense_mediated_decay	KNOWN	None	16264	114	37	3739053	3767513	-1	None	HSP75, HSP90L
22	None	ENSG00000221084	ENST00000408157	miRNA	NOVEL	None	None	None	None	17079607	17079694	-1	None	None
HSCHR6_MHC_COX	HLA-L	ENSG00000243492	ENST00000482187	processed_transcript	KNOWN	None	4970	None	None	30217266	30224548	1	HLA92, HLAL	HLA-92
HSCHR6_MHC_COX	HLA-L	ENSG00000243492	ENST00000482589	transcribed_unprocessed_pseudogene	KNOWN	None	4970	None	None	30217284	30220004	1	HLA92, HLAL	HLA-92
HSCHR6_MHC_COX	HLA-L	ENSG00000243492	ENST00000551508	unprocessed_pseudogene	KNOWN	None	4970	None	None	30217253	30250602	1	HLA92, HLAL	HLA-92
HSCHR6_MHC_COX	HLA-L	ENSG00000243492	ENST00000552883	unprocessed_pseudogene	KNOWN	None	4970	None	None	30217675	30221557	1	HLA92, HLAL	HLA-92
17	None	ENSG00000270781	ENST00000603088	processed_pseudogene	KNOWN	None	None	None	None	46976493	46977110	1	None	None
8	RNU1-124P	ENSG00000200731	ENST00000363861	snRNA	KNOWN	None	48466	None	None	42928617	42928761	1	None	None
1	None	ENSG00000272161	ENST00000607720	sense_intronic	KNOWN	None	None	None	None	2257640	2258132	-1	None	None
20	MIR4532	ENSG00000263453	ENST00000582082	miRNA	KNOWN	None	41869	None	None	56470450	56470500	1	None	hsa-mir-4532
17	None	ENSG00000230532	ENST00000435491	antisense	KNOWN	None	None	None	None	47009153	47014462	1	None	None
8	RNA5SP263	ENSG00000200246	ENST00000363376	rRNA	KNOWN	None	43163	None	None	32114012	32114139	1	RN5S263	None
17	FAM101B	ENSG00000183688	ENST00000329099	protein_coding	KNOWN	None	28705	435	144	289769	295730	-1	None	MGC45871
16	None	ENSG00000265515	ENST00000580939	miRNA	NOVEL	None	None	None	None	18941518	18941604	-1	None	None
17	RNU1-42P	ENSG00000200903	ENST00000364033	snRNA	KNOWN	None	48384	None	None	47026723	47026882	-1	None	None
7	None	ENSG00000223866	ENST00000435098	processed_pseudogene	KNOWN	None	None	None	None	20681181	20681571	-1	None	None
16	RNU6-1340P	ENSG00000207167	ENST00000384438	snRNA	KNOWN	None	48303	None	None	19023479	19023585	1	None	None
17	None	ENSG00000238804	ENST00000459483	snoRNA	NOVEL	None	None	None	None	47034012	47034115	-1	None	None
12	RHEBL1	ENSG00000167550	ENST00000301068	protein_coding	KNOWN	CCDS8778	21166	552	183	49458468	49463808	-1	None	MGC34869, FLJ25797
12	RHEBL1	ENSG00000167550	ENST00000420065	nonsense_mediated_decay	KNOWN	None	21166	129	42	49458469	49463730	-1	None	MGC34869, FLJ25797
12	RHEBL1	ENSG00000167550	ENST00000550797	nonsense_mediated_decay	KNOWN	None	21166	207	68	49458485	49463808	-1	None	MGC34869, FLJ25797
12	RHEBL1	ENSG00000167550	ENST00000550675	protein_coding	NOVEL	None	21166	328	108	49460275	49463620	-1	None	MGC34869, FLJ25797
5	None	ENSG00000215156	ENST00000505001	processed_pseudogene	KNOWN	None	None	None	None	34190161	34193758	1	None	None
17	None	ENSG00000250838	ENST00000505903	antisense	KNOWN	None	None	None	None	47072628	47074854	-1	None	None
5	None	ENSG00000254363	ENST00000523154	lincRNA	KNOWN	None	None	None	None	139536904	139548370	1	None	None
5	None	ENSG00000254363	ENST00000607850	retained_intron	KNOWN	None	None	None	None	139541538	139552636	1	None	None
20	None	ENSG00000221007	ENST00000408080	miRNA	NOVEL	None	None	None	None	56493940	56494091	1	None	None
3	TMEM45A	ENSG00000181458	ENST00000323523	protein_coding	KNOWN	CCDS2937	25480	828	275	100211463	100296288	1	None	FLJ10134, DERP7
3	TMEM45A	ENSG00000181458	ENST00000403410	protein_coding	PUTATIVE	None	25480	876	291	100211495	100296276	1	None	FLJ10134, DERP7
3	TMEM45A	ENSG00000181458	ENST00000449609	protein_coding	PUTATIVE	None	25480	574	190	100211504	100277371	1	None	FLJ10134, DERP7
3	TMEM45A	ENSG00000181458	ENST00000462884	processed_transcript	KNOWN	None	25480	None	None	100238083	100275816	1	None	FLJ10134, DERP7
3	TMEM45A	ENSG00000181458	ENST00000485260	processed_transcript	KNOWN	None	25480	None	None	100287666	100289758	1	None	FLJ10134, DERP7
3	TMEM45A	ENSG00000181458	ENST00000489060	retained_intron	KNOWN	None	25480	None	None	100287768	100296288	1	None	FLJ10134, DERP7
3	TMEM45A	ENSG00000181458	ENST00000488904	processed_transcript	KNOWN	None	25480	None	None	100289874	100295909	1	None	FLJ10134, DERP7
HG745_PATCH	SOCS7	ENSG00000261413	ENST00000566881	protein_coding	KNOWN	None	29846	1746	581	36508128	36561847	1	None	NAP4, NCKAP4
HG745_PATCH	SOCS7	ENSG00000261413	ENST00000562647	nonsense_mediated_decay	KNOWN	None	29846	748	248	36508445	36555906	1	None	NAP4, NCKAP4
HG745_PATCH	SOCS7	ENSG00000261413	ENST00000564478	protein_coding	NOVEL	None	29846	1269	422	36508503	36555887	1	None	NAP4, NCKAP4
HG745_PATCH	SOCS7	ENSG00000261413	ENST00000567199	protein_coding	NOVEL	None	29846	466	154	36508840	36533565	1	None	NAP4, NCKAP4
18	HNRNPA3P16	ENSG00000267233	ENST00000591842	processed_pseudogene	KNOWN	None	48762	None	None	48340762	48342100	1	None	None
4	PITX2	ENSG00000164093	ENST00000306732	protein_coding	KNOWN	CCDS3694	9005	975	324	111538579	111544259	-1	IRID2, IHG2, RIEG, RIEG1, RGS	IGDS, RS, Brx1, Otlx2, ARP1
4	PITX2	ENSG00000164093	ENST00000394598	protein_coding	KNOWN	CCDS3692	9005	954	317	111538579	111558176	-1	IRID2, IHG2, RIEG, RIEG1, RGS	IGDS, RS, Brx1, Otlx2, ARP1
4	PITX2	ENSG00000164093	ENST00000355080	protein_coding	KNOWN	CCDS3693	9005	816	271	111538579	111558508	-1	IRID2, IHG2, RIEG, RIEG1, RGS	IGDS, RS, Brx1, Otlx2, ARP1
4	PITX2	ENSG00000164093	ENST00000354925	protein_coding	KNOWN	CCDS3692	9005	954	317	111538582	111563162	-1	IRID2, IHG2, RIEG, RIEG1, RGS	IGDS, RS, Brx1, Otlx2, ARP1
4	PITX2	ENSG00000164093	ENST00000607868	retained_intron	KNOWN	None	9005	None	None	111538585	111539982	-1	IRID2, IHG2, RIEG, RIEG1, RGS	IGDS, RS, Brx1, Otlx2, ARP1
4	PITX2	ENSG00000164093	ENST00000394595	protein_coding	NOVEL	None	9005	525	174	111538592	111558182	-1	IRID2, IHG2, RIEG, RIEG1, RGS	IGDS, RS, Brx1, Otlx2, ARP1
4	PITX2	ENSG00000164093	ENST00000511837	protein_coding	KNOWN	None	9005	870	289	111539365	111563279	-1	IRID2, IHG2, RIEG, RIEG1, RGS	IGDS, RS, Brx1, Otlx2, ARP1
4	PITX2	ENSG00000164093	ENST00000556049	processed_transcript	KNOWN	None	9005	None	None	111539621	111541872	-1	IRID2, IHG2, RIEG, RIEG1, RGS	IGDS, RS, Brx1, Otlx2, ARP1
4	PITX2	ENSG00000164093	ENST00000511990	protein_coding	KNOWN	None	9005	355	117	111539742	111563172	-1	IRID2, IHG2, RIEG, RIEG1, RGS	IGDS, RS, Brx1, Otlx2, ARP1
4	PITX2	ENSG00000164093	ENST00000557119	protein_coding	PUTATIVE	None	9005	795	264	111541433	111544207	-1	IRID2, IHG2, RIEG, RIEG1, RGS	IGDS, RS, Brx1, Otlx2, ARP1
17	None	ENSG00000270126	ENST00000602929	antisense	KNOWN	None	None	None	None	47082093	47089888	-1	None	None
18	RPL17P46	ENSG00000239689	ENST00000496512	processed_pseudogene	KNOWN	None	36202	None	None	48349947	48350490	1	None	None
22	TPTEP1	ENSG00000100181	ENST00000558085	lincRNA	KNOWN	None	43648	None	None	17082777	17179521	1	None	psiTPTE22
22	TPTEP1	ENSG00000100181	ENST00000592918	lincRNA	KNOWN	None	43648	None	None	17082801	17096001	1	None	psiTPTE22
22	TPTEP1	ENSG00000100181	ENST00000400593	lincRNA	KNOWN	None	43648	None	None	17082801	17129720	1	None	psiTPTE22
22	TPTEP1	ENSG00000100181	ENST00000592107	lincRNA	KNOWN	None	43648	None	None	17082838	17096001	1	None	psiTPTE22
22	TPTEP1	ENSG00000100181	ENST00000426585	lincRNA	KNOWN	None	43648	None	None	17082934	17134699	1	None	psiTPTE22
22	TPTEP1	ENSG00000100181	ENST00000591299	lincRNA	KNOWN	None	43648	None	None	17082940	17095223	1	None	psiTPTE22
22	TPTEP1	ENSG00000100181	ENST00000588548	lincRNA	KNOWN	None	43648	None	None	17093472	17095994	1	None	psiTPTE22
22	TPTEP1	ENSG00000100181	ENST00000383140	lincRNA	KNOWN	None	43648	None	None	17100505	17134582	1	None	psiTPTE22
22	TPTEP1	ENSG00000100181	ENST00000585784	lincRNA	KNOWN	None	43648	None	None	17117910	17119870	1	None	psiTPTE22
22	TPTEP1	ENSG00000100181	ENST00000588424	lincRNA	KNOWN	None	43648	None	None	17119469	17121627	1	None	psiTPTE22
22	TPTEP1	ENSG00000100181	ENST00000415121	lincRNA	KNOWN	None	43648	None	None	17130820	17134695	1	None	psiTPTE22
22	TPTEP1	ENSG00000100181	ENST00000545818	lincRNA	KNOWN	None	43648	None	None	17129698	17131830	1	None	psiTPTE22
1	GNB1	ENSG00000078369	ENST00000378609	protein_coding	KNOWN	CCDS34	4396	1023	340	1716729	1822495	-1	None	None
1	GNB1	ENSG00000078369	ENST00000461893	retained_intron	KNOWN	None	4396	None	None	1719426	1725636	-1	None	None
1	GNB1	ENSG00000078369	ENST00000471354	retained_intron	KNOWN	None	4396	None	None	1720500	1749825	-1	None	None
1	GNB1	ENSG00000078369	ENST00000439272	protein_coding	NOVEL	None	4396	490	162	1722004	1822275	-1	None	None
1	GNB1	ENSG00000078369	ENST00000434686	protein_coding	KNOWN	None	4396	497	164	1724684	1821840	-1	None	None
1	GNB1	ENSG00000078369	ENST00000437146	protein_coding	KNOWN	None	4396	323	106	1735965	1763724	-1	None	None
1	GNB1	ENSG00000078369	ENST00000607589	retained_intron	KNOWN	None	4396	None	None	1756427	1756993	-1	None	None
1	GNB1	ENSG00000078369	ENST00000472614	processed_transcript	KNOWN	None	4396	None	None	1756427	1822405	-1	None	None
17	None	ENSG00000251461	ENST00000504865	antisense	KNOWN	None	None	None	None	47090299	47091087	-1	None	None
15	RN7SL400P	ENSG00000243059	ENST00000473634	misc_RNA	KNOWN	None	46416	None	None	21308174	21308467	-1	None	None
6	RAB44	ENSG00000255587	ENST00000229824	protein_coding	KNOWN	None	21068	2238	745	36688140	36699870	1	RASD3, RASL13	dJ431A14.3
18	None	ENSG00000200752	ENST00000363882	misc_RNA	NOVEL	None	None	None	None	48485637	48485749	-1	None	None
1	CLCA2	ENSG00000137975	ENST00000370565	protein_coding	KNOWN	CCDS708	2016	2832	943	86889769	86922241	1	None	CLCRG2
1	CLCA2	ENSG00000137975	ENST00000490884	processed_transcript	KNOWN	None	2016	None	None	86905963	86911202	1	None	CLCRG2
1	CLCA2	ENSG00000137975	ENST00000498802	processed_transcript	KNOWN	None	2016	None	None	86913817	86919285	1	None	CLCRG2
5	MIR4803	ENSG00000264099	ENST00000583015	miRNA	KNOWN	None	41568	None	None	71465294	71465367	1	None	hsa-mir-4803
14	None	ENSG00000225746	ENST00000556720	lincRNA	KNOWN	None	None	None	None	101403738	101413413	1	None	None
14	None	ENSG00000225746	ENST00000555354	lincRNA	KNOWN	None	None	None	None	101405223	101413544	1	None	None
14	None	ENSG00000225746	ENST00000554485	lincRNA	KNOWN	None	None	None	None	101405265	101411497	1	None	None
14	None	ENSG00000225746	ENST00000427085	lincRNA	KNOWN	None	None	None	None	101413420	101419089	1	None	None
14	None	ENSG00000225746	ENST00000414488	lincRNA	KNOWN	None	None	None	None	101415315	101424887	1	None	None
14	None	ENSG00000225746	ENST00000434716	lincRNA	KNOWN	None	None	None	None	101415387	101422559	1	None	None
14	None	ENSG00000225746	ENST00000554369	lincRNA	KNOWN	None	None	None	None	101417781	101426516	1	None	None
14	None	ENSG00000225746	ENST00000556637	lincRNA	KNOWN	None	None	None	None	101420945	101426516	1	None	None
14	None	ENSG00000225746	ENST00000443252	lincRNA	KNOWN	None	None	None	None	101424599	101426536	1	None	None
22	None	ENSG00000236052	ENST00000412218	lincRNA	KNOWN	None	None	None	None	34413462	34584414	1	None	None
17	RNU6-826P	ENSG00000252636	ENST00000516827	snRNA	KNOWN	None	47789	None	None	47113714	47113817	1	None	None
16	None	ENSG00000261465	ENST00000571934	antisense	KNOWN	None	None	None	None	19073821	19078963	-1	None	None
16	None	ENSG00000261465	ENST00000576433	antisense	KNOWN	None	None	None	None	19074076	19078717	-1	None	None
16	None	ENSG00000261465	ENST00000568971	antisense	KNOWN	None	None	None	None	19074184	19078963	-1	None	None
16	None	ENSG00000261465	ENST00000567047	antisense	KNOWN	None	None	None	None	19074184	19079013	-1	None	None
15	None	ENSG00000260986	ENST00000568414	lincRNA	KNOWN	None	None	None	None	21333027	21335424	-1	None	None
9	CTAGE12P	ENSG00000215441	ENST00000400348	processed_pseudogene	KNOWN	None	37297	None	None	27608380	27610743	-1	None	None
1	None	ENSG00000269896	ENST00000602865	processed_transcript	KNOWN	None	None	None	None	2281853	2284259	-1	None	None
18	RN7SL695P	ENSG00000240820	ENST00000462220	misc_RNA	KNOWN	None	46711	None	None	48633124	48633416	-1	None	None
20	None	ENSG00000203971	ENST00000371169	lincRNA	KNOWN	None	None	None	None	56532182	56534716	-1	None	None
5	RN7SL153P	ENSG00000244748	ENST00000486501	misc_RNA	KNOWN	None	46169	None	None	71610226	71610515	-1	None	None
17	None	ENSG00000251550	ENST00000511142	processed_pseudogene	KNOWN	None	None	None	None	47114484	47114791	1	None	None
9	CORO2A	ENSG00000106789	ENST00000343933	protein_coding	KNOWN	CCDS6735	2255	1578	525	100883257	100935166	-1	None	IR10, WDR2
9	CORO2A	ENSG00000106789	ENST00000375077	protein_coding	KNOWN	CCDS6735	2255	1578	525	100883257	100954922	-1	None	IR10, WDR2
7	RPL23P8	ENSG00000219451	ENST00000405810	processed_pseudogene	KNOWN	None	36225	None	None	20866945	20867372	1	None	None
18	SRSF10P1	ENSG00000267717	ENST00000588646	processed_pseudogene	KNOWN	None	31002	None	None	48684652	48685753	-1	FUSIP1P, SFRS13AP1	HsT2687
X	MTND4P32	ENSG00000226056	ENST00000437189	processed_pseudogene	KNOWN	None	42219	None	None	102054870	102056327	1	None	None
10	None	ENSG00000227462	ENST00000426373	processed_pseudogene	KNOWN	None	None	None	None	22514627	22514953	1	None	None
18	None	ENSG00000266614	ENST00000577797	protein_coding	PUTATIVE	None	None	171	56	73971121	73972069	1	None	None
17	None	ENSG00000264552	ENST00000578722	miRNA	NOVEL	None	None	None	None	47126902	47126986	1	None	None
22	None	ENSG00000224404	ENST00000450365	lincRNA	KNOWN	None	None	None	None	34604130	34605251	-1	None	None
17	None	ENSG00000248883	ENST00000508857	unprocessed_pseudogene	KNOWN	None	None	None	None	47162873	47164064	1	None	None
9	None	ENSG00000260390	ENST00000562922	lincRNA	KNOWN	None	None	None	None	27829274	27844479	1	None	None
19	EPOR	ENSG00000187266	ENST00000222139	protein_coding	KNOWN	CCDS12260	3416	1527	508	11488236	11494988	-1	None	None
19	EPOR	ENSG00000187266	ENST00000592375	protein_coding	NOVEL	None	3416	987	328	11488301	11494988	-1	None	None
19	EPOR	ENSG00000187266	ENST00000588681	retained_intron	KNOWN	None	3416	None	None	11488439	11495018	-1	None	None
19	EPOR	ENSG00000187266	ENST00000588859	nonsense_mediated_decay	KNOWN	None	3416	360	119	11488542	11494960	-1	None	None
19	EPOR	ENSG00000187266	ENST00000591958	nonsense_mediated_decay	KNOWN	None	3416	831	276	11488542	11494960	-1	None	None
19	EPOR	ENSG00000187266	ENST00000586890	nonsense_mediated_decay	KNOWN	None	3416	393	130	11488550	11494960	-1	None	None
19	EPOR	ENSG00000187266	ENST00000590927	retained_intron	KNOWN	None	3416	None	None	11488932	11491914	-1	None	None
19	EPOR	ENSG00000187266	ENST00000589402	retained_intron	KNOWN	None	3416	None	None	11491560	11494130	-1	None	None
18	RNU1-46P	ENSG00000207154	ENST00000384425	snRNA	KNOWN	None	48388	None	None	48810103	48810266	-1	None	None
3	KLHL6	ENSG00000172578	ENST00000341319	protein_coding	KNOWN	CCDS3245	18653	1866	621	183205319	183273477	-1	None	FLJ00029
3	KLHL6	ENSG00000172578	ENST00000468734	nonsense_mediated_decay	KNOWN	None	18653	1833	610	183205339	183273408	-1	None	FLJ00029
3	KLHL6	ENSG00000172578	ENST00000489245	retained_intron	KNOWN	None	18653	None	None	183208798	183273453	-1	None	FLJ00029
3	KLHL6	ENSG00000172578	ENST00000487643	processed_transcript	KNOWN	None	18653	None	None	183238000	183262573	-1	None	FLJ00029
17	ABCA8	ENSG00000141338	ENST00000269080	protein_coding	KNOWN	CCDS11680	38	4746	1581	66863433	66951492	-1	None	KIAA0822
17	ABCA8	ENSG00000141338	ENST00000586539	protein_coding	NOVEL	None	38	4866	1621	66864193	66951382	-1	None	KIAA0822
17	ABCA8	ENSG00000141338	ENST00000588458	retained_intron	KNOWN	None	38	None	None	66872455	66873787	-1	None	KIAA0822
17	ABCA8	ENSG00000141338	ENST00000586292	retained_intron	KNOWN	None	38	None	None	66872821	66880738	-1	None	KIAA0822
17	ABCA8	ENSG00000141338	ENST00000591459	retained_intron	KNOWN	None	38	None	None	66873338	66876408	-1	None	KIAA0822
17	ABCA8	ENSG00000141338	ENST00000589980	retained_intron	KNOWN	None	38	None	None	66876920	66878746	-1	None	KIAA0822
17	ABCA8	ENSG00000141338	ENST00000541225	retained_intron	KNOWN	None	38	None	None	66882941	66951466	-1	None	KIAA0822
17	ABCA8	ENSG00000141338	ENST00000589533	non_stop_decay	KNOWN	None	38	2106	701	66890186	66925256	-1	None	KIAA0822
17	ABCA8	ENSG00000141338	ENST00000590359	retained_intron	KNOWN	None	38	None	None	66890925	66899568	-1	None	KIAA0822
17	ABCA8	ENSG00000141338	ENST00000587206	retained_intron	KNOWN	None	38	None	None	66914219	66916138	-1	None	KIAA0822
17	ABCA8	ENSG00000141338	ENST00000428549	retained_intron	KNOWN	None	38	None	None	66927903	66951492	-1	None	KIAA0822
17	ABCA8	ENSG00000141338	ENST00000585850	retained_intron	KNOWN	None	38	None	None	66927903	66951533	-1	None	KIAA0822
17	ABCA8	ENSG00000141338	ENST00000585531	protein_coding	KNOWN	None	38	346	114	66933212	66941015	-1	None	KIAA0822
17	ABCA8	ENSG00000141338	ENST00000430352	protein_coding	KNOWN	None	38	4866	1621	66864193	66938225	-1	None	KIAA0822
13	None	ENSG00000231817	ENST00000416521	lincRNA	KNOWN	None	None	None	None	47029472	47040918	-1	None	None
13	None	ENSG00000231817	ENST00000458282	lincRNA	KNOWN	None	None	None	None	47029488	47032373	-1	None	None
13	None	ENSG00000231817	ENST00000593640	lincRNA	KNOWN	None	None	None	None	47029504	47038954	-1	None	None
13	None	ENSG00000231817	ENST00000599175	lincRNA	KNOWN	None	None	None	None	47029504	47040821	-1	None	None
13	None	ENSG00000231817	ENST00000598084	lincRNA	KNOWN	None	None	None	None	47029504	47060641	-1	None	None
13	None	ENSG00000231817	ENST00000595532	lincRNA	KNOWN	None	None	None	None	47032196	47033320	-1	None	None
13	None	ENSG00000231817	ENST00000594428	lincRNA	KNOWN	None	None	None	None	47035080	47040141	-1	None	None
13	None	ENSG00000231817	ENST00000594153	lincRNA	KNOWN	None	None	None	None	47035080	47040911	-1	None	None
13	None	ENSG00000231817	ENST00000598822	lincRNA	KNOWN	None	None	None	None	47033177	47033323	-1	None	None
2	POTEKP	ENSG00000204434	ENST00000397487	unprocessed_pseudogene	KNOWN	None	30182	None	None	132349325	132384839	1	ACTBL3, POTEK	FKSG30, POTE2delta
2	POTEKP	ENSG00000204434	ENST00000420985	unprocessed_pseudogene	KNOWN	None	30182	None	None	132349325	132384839	1	ACTBL3, POTEK	FKSG30, POTE2delta
22	None	ENSG00000235485	ENST00000457251	processed_pseudogene	KNOWN	None	None	None	None	34985077	34987270	-1	None	None
10	None	ENSG00000261671	ENST00000566763	lincRNA	KNOWN	None	None	None	None	22546715	22547477	1	None	None
12	RPL41	ENSG00000229117	ENST00000546591	protein_coding	KNOWN	CCDS44919	10354	78	25	56510370	56511727	1	None	L41
12	RPL41	ENSG00000229117	ENST00000501597	protein_coding	KNOWN	CCDS44919	10354	78	25	56510374	56511616	1	None	L41
12	RPL41	ENSG00000229117	ENST00000546485	processed_transcript	KNOWN	None	10354	None	None	56510416	56511494	1	None	L41
12	RPL41	ENSG00000229117	ENST00000358888	processed_transcript	KNOWN	None	10354	None	None	56510417	56511610	1	None	L41
12	RPL41	ENSG00000229117	ENST00000546654	processed_transcript	KNOWN	None	10354	None	None	56510552	56511471	1	None	L41
12	RPL41	ENSG00000229117	ENST00000552314	processed_transcript	KNOWN	None	10354	None	None	56510565	56511429	1	None	L41
17	None	ENSG00000271770	ENST00000606353	misc_RNA	NOVEL	None	None	None	None	47187124	47187413	1	None	None
9	None	ENSG00000260412	ENST00000566293	sense_overlapping	KNOWN	None	None	None	None	27937615	27944495	-1	None	None
17	None	ENSG00000240995	ENST00000465845	processed_pseudogene	KNOWN	None	None	None	None	47225701	47226473	-1	None	None
HG305_PATCH	WTAPP1	ENSG00000262809	ENST00000575579	processed_transcript	PUTATIVE	None	44115	None	None	102617699	102702242	1	None	None
HG305_PATCH	WTAPP1	ENSG00000262809	ENST00000574479	processed_transcript	PUTATIVE	None	44115	None	None	102617741	102622522	1	None	None
HG305_PATCH	WTAPP1	ENSG00000262809	ENST00000572697	processed_transcript	PUTATIVE	None	44115	None	None	102654407	102707497	1	None	None
HG305_PATCH	WTAPP1	ENSG00000262809	ENST00000572001	processed_transcript	PUTATIVE	None	44115	None	None	102654452	102702264	1	None	None
HG305_PATCH	WTAPP1	ENSG00000262809	ENST00000571920	transcribed_processed_pseudogene	KNOWN	None	44115	None	None	102702434	102702833	1	None	None
4	None	ENSG00000203615	ENST00000366422	pseudogene	NOVEL	None	None	None	None	56277189	56277313	-1	None	None
HSCHR6_MHC_DBB	LY6G6F	ENSG00000243003	ENST00000455632	protein_coding	KNOWN	None	13933	894	297	31656837	31660547	1	LY6G6D, C6orf21	G6f, NG32
HSCHR6_MHC_DBB	LY6G6F	ENSG00000243003	ENST00000554860	protein_coding	KNOWN	None	13933	1149	382	31656815	31667754	1	LY6G6D, C6orf21	G6f, NG32
12	None	ENSG00000267942	ENST00000601398	protein_coding	NOVEL	None	None	204	67	66291518	66317967	-1	None	None
4	None	ENSG00000239040	ENST00000459077	misc_RNA	NOVEL	None	None	None	None	56278803	56278905	1	None	None
8	None	ENSG00000233778	ENST00000465478	processed_pseudogene	KNOWN	None	None	None	None	93156316	93156663	-1	None	None
8	None	ENSG00000233778	ENST00000430661	processed_pseudogene	KNOWN	None	None	None	None	93156484	93156552	-1	None	None
20	None	ENSG00000221451	ENST00000408524	miRNA	NOVEL	None	None	None	None	56551074	56551149	1	None	None
10	None	ENSG00000233318	ENST00000419532	processed_pseudogene	KNOWN	None	None	None	None	22555920	22556275	1	None	None
6	CPNE5	ENSG00000124772	ENST00000459703	processed_transcript	KNOWN	None	2318	None	None	36708552	36725158	-1	None	CPN5, COPN5, KIAA1599
6	CPNE5	ENSG00000124772	ENST00000244751	protein_coding	KNOWN	CCDS4825	2318	1782	593	36708555	36807778	-1	None	CPN5, COPN5, KIAA1599
6	CPNE5	ENSG00000124772	ENST00000493411	processed_transcript	KNOWN	None	2318	None	None	36713164	36725158	-1	None	CPN5, COPN5, KIAA1599
6	CPNE5	ENSG00000124772	ENST00000393189	protein_coding	KNOWN	None	2318	906	301	36708555	36725186	-1	None	CPN5, COPN5, KIAA1599
9	None	ENSG00000229060	ENST00000478520	processed_pseudogene	KNOWN	None	None	None	None	28148209	28149234	1	None	None
16	None	ENSG00000261008	ENST00000561611	lincRNA	KNOWN	None	None	None	None	72459384	72698903	-1	None	None
16	None	ENSG00000261008	ENST00000563770	lincRNA	KNOWN	None	None	None	None	72513650	72661585	-1	None	None
16	None	ENSG00000261008	ENST00000570035	lincRNA	KNOWN	None	None	None	None	72556037	72698908	-1	None	None
16	None	ENSG00000261008	ENST00000563823	lincRNA	KNOWN	None	None	None	None	72557231	72661585	-1	None	None
16	None	ENSG00000261008	ENST00000570152	lincRNA	KNOWN	None	None	None	None	72604380	72698848	-1	None	None
4	None	ENSG00000238585	ENST00000459424	misc_RNA	NOVEL	None	None	None	None	56367762	56367875	-1	None	None
13	OR7E101P	ENSG00000227019	ENST00000400428	processed_pseudogene	KNOWN	None	15342	None	None	47034744	47035256	1	None	None
4	RN7SKP30	ENSG00000223305	ENST00000411373	misc_RNA	KNOWN	None	45754	None	None	56406669	56407002	-1	None	None
1	None	ENSG00000238240	ENST00000417061	transcribed_processed_pseudogene	KNOWN	None	None	None	None	2283083	2283296	-1	None	None
18	ZNF516	ENSG00000101493	ENST00000524431	processed_transcript	KNOWN	None	28990	None	None	74070145	74207146	-1	None	HsT287, KIAA0222
18	ZNF516	ENSG00000101493	ENST00000543743	processed_transcript	PUTATIVE	None	28990	None	None	74070152	74071520	-1	None	HsT287, KIAA0222
18	ZNF516	ENSG00000101493	ENST00000529449	processed_transcript	KNOWN	None	28990	None	None	74073723	74092241	-1	None	HsT287, KIAA0222
18	ZNF516	ENSG00000101493	ENST00000542818	protein_coding	PUTATIVE	None	28990	76	24	74074226	74090868	-1	None	HsT287, KIAA0222
18	ZNF516	ENSG00000101493	ENST00000532857	protein_coding	KNOWN	None	28990	226	74	74154785	74202735	-1	None	HsT287, KIAA0222
18	ZNF516	ENSG00000101493	ENST00000443185	protein_coding	KNOWN	None	28990	3492	1163	74069644	74207146	-1	None	HsT287, KIAA0222
HG79_PATCH	None	ENSG00000260299	ENST00000562777	antisense	KNOWN	None	None	None	None	136344395	136346293	-1	None	None
4	RNU6-276P	ENSG00000251923	ENST00000516114	snRNA	KNOWN	None	47239	None	None	56664802	56664897	1	None	None
15	None	ENSG00000252722	ENST00000516913	snoRNA	NOVEL	None	None	None	None	75413877	75414007	-1	None	None
3	OR5H15	ENSG00000233412	ENST00000356526	protein_coding	KNOWN	CCDS33799	31287	942	313	97887544	97888485	1	None	None
20	None	ENSG00000221385	ENST00000408458	miRNA	NOVEL	None	None	None	None	56642512	56642663	1	None	None
4	None	ENSG00000250821	ENST00000504250	lincRNA	KNOWN	None	None	None	None	56686169	56703548	1	None	None
14	IGHV3-62	ENSG00000253132	ENST00000520057	IG_V_pseudogene	KNOWN	None	5615	None	None	107099145	107099588	-1	None	None
13	COX17P1	ENSG00000205105	ENST00000378775	processed_pseudogene	KNOWN	None	24341	None	None	47065065	47065256	1	COX17P	None
13	COX17P1	ENSG00000205105	ENST00000535895	processed_pseudogene	KNOWN	None	24341	None	None	47064997	47065397	1	COX17P	None
15	None	ENSG00000258684	ENST00000556075	unprocessed_pseudogene	KNOWN	None	None	None	None	21365634	21372686	1	None	None
12	LLPH	ENSG00000139233	ENST00000266604	protein_coding	KNOWN	CCDS8974	28229	390	129	66516842	66524548	-1	C12orf31	MGC14817, hLLP
12	LLPH	ENSG00000139233	ENST00000446587	protein_coding	KNOWN	CCDS8974	28229	390	129	66517087	66524482	-1	C12orf31	MGC14817, hLLP
2	IL1A	ENSG00000115008	ENST00000263339	protein_coding	KNOWN	CCDS2101	5991	816	271	113531492	113542167	-1	IL1	IL1F1, IL-1A, IL1-ALPHA
X	GAGE2E	ENSG00000205775	ENST00000402590	protein_coding	KNOWN	CCDS48111	31960	351	116	49197607	49204923	1	None	GAGE8
10	None	ENSG00000272516	ENST00000606988	lincRNA	KNOWN	None	None	None	None	22621333	22621916	1	None	None
HG748_PATCH	None	ENSG00000267719	ENST00000592718	lincRNA	KNOWN	None	None	None	None	77703348	77708399	1	None	None
10	None	ENSG00000271981	ENST00000607282	lincRNA	KNOWN	None	None	None	None	22621516	22621910	-1	None	None
4	RNU6-652P	ENSG00000202358	ENST00000365488	snRNA	KNOWN	None	47615	None	None	56751761	56751867	1	None	None
13	FKBP1AP3	ENSG00000230243	ENST00000423650	processed_pseudogene	KNOWN	None	3716	None	None	47079253	47079571	1	FKBP1P3	None
4	None	ENSG00000222954	ENST00000411022	miRNA	NOVEL	None	None	None	None	56796148	56796239	1	None	None
15	RPL36AP45	ENSG00000240366	ENST00000497944	processed_pseudogene	KNOWN	None	36032	None	None	75478992	75479309	-1	None	None
2	ADRA2B	ENSG00000222040	ENST00000409345	protein_coding	KNOWN	CCDS56129	282	1344	447	96778707	96781984	-1	ADRA2L1, ADRA2RL1	ADRARL1
4	RNA5SP161	ENSG00000200741	ENST00000363871	rRNA	KNOWN	None	43061	None	None	56963556	56963670	1	RN5S161	None
8	ASAP1	ENSG00000153317	ENST00000524124	protein_coding	NOVEL	None	2720	2851	949	131064353	131193108	-1	DDEF1	PAP, KIAA1249, ZG14P, CENTB4
8	ASAP1	ENSG00000153317	ENST00000521075	nonsense_mediated_decay	KNOWN	None	2720	120	39	131065088	131414214	-1	DDEF1	PAP, KIAA1249, ZG14P, CENTB4
8	ASAP1	ENSG00000153317	ENST00000518721	protein_coding	KNOWN	CCDS6362	2720	3390	1129	131065088	131455906	-1	DDEF1	PAP, KIAA1249, ZG14P, CENTB4
8	ASAP1	ENSG00000153317	ENST00000519483	protein_coding	NOVEL	None	2720	1449	482	131066987	131130768	-1	DDEF1	PAP, KIAA1249, ZG14P, CENTB4
8	ASAP1	ENSG00000153317	ENST00000520189	retained_intron	KNOWN	None	2720	None	None	131088643	131124660	-1	DDEF1	PAP, KIAA1249, ZG14P, CENTB4
8	ASAP1	ENSG00000153317	ENST00000521057	retained_intron	KNOWN	None	2720	None	None	131127823	131131025	-1	DDEF1	PAP, KIAA1249, ZG14P, CENTB4
8	ASAP1	ENSG00000153317	ENST00000524018	retained_intron	KNOWN	None	2720	None	None	131164851	131172309	-1	DDEF1	PAP, KIAA1249, ZG14P, CENTB4
8	ASAP1	ENSG00000153317	ENST00000524367	protein_coding	PUTATIVE	None	2720	962	319	131165010	131353183	-1	DDEF1	PAP, KIAA1249, ZG14P, CENTB4
8	ASAP1	ENSG00000153317	ENST00000519169	retained_intron	KNOWN	None	2720	None	None	131191364	131249242	-1	DDEF1	PAP, KIAA1249, ZG14P, CENTB4
8	ASAP1	ENSG00000153317	ENST00000520342	protein_coding	PUTATIVE	None	2720	99	32	131191581	131259288	-1	DDEF1	PAP, KIAA1249, ZG14P, CENTB4
8	ASAP1	ENSG00000153317	ENST00000520927	nonsense_mediated_decay	KNOWN	None	2720	120	39	131193113	131440048	-1	DDEF1	PAP, KIAA1249, ZG14P, CENTB4
8	ASAP1	ENSG00000153317	ENST00000518957	processed_transcript	KNOWN	None	2720	None	None	131207359	131226870	-1	DDEF1	PAP, KIAA1249, ZG14P, CENTB4
8	ASAP1	ENSG00000153317	ENST00000524299	nonsense_mediated_decay	KNOWN	None	2720	120	39	131226864	131455783	-1	DDEF1	PAP, KIAA1249, ZG14P, CENTB4
8	ASAP1	ENSG00000153317	ENST00000521426	protein_coding	PUTATIVE	None	2720	295	97	131226891	131399123	-1	DDEF1	PAP, KIAA1249, ZG14P, CENTB4
8	ASAP1	ENSG00000153317	ENST00000520625	processed_transcript	KNOWN	None	2720	None	None	131372935	131414161	-1	DDEF1	PAP, KIAA1249, ZG14P, CENTB4
8	ASAP1	ENSG00000153317	ENST00000357668	protein_coding	KNOWN	CCDS6362	2720	3390	1129	131064353	131414217	-1	DDEF1	PAP, KIAA1249, ZG14P, CENTB4
X	GAGE2D	ENSG00000240257	ENST00000404720	protein_coding	KNOWN	CCDS43941	31959	351	116	49207160	49214420	1	None	GAGE8
4	RNU6-197P	ENSG00000252489	ENST00000516680	snRNA	KNOWN	None	47160	None	None	57154651	57154750	-1	None	None
20	None	ENSG00000225708	ENST00000441277	lincRNA	KNOWN	None	None	None	None	56644110	56647116	-1	None	None
20	None	ENSG00000225708	ENST00000452842	lincRNA	KNOWN	None	None	None	None	56644110	56647126	-1	None	None
HG748_PATCH	None	ENSG00000262240	ENST00000574001	snoRNA	NOVEL	None	None	None	None	77709813	77709908	1	None	None
Y	TSPY3	ENSG00000228927	ENST00000457222	protein_coding	KNOWN	CCDS48204	33876	927	308	9236030	9238826	1	None	None
Y	TSPY3	ENSG00000228927	ENST00000424594	protein_coding	NOVEL	None	33876	885	294	9236076	9238825	1	None	None
Y	TSPY3	ENSG00000228927	ENST00000491844	processed_transcript	KNOWN	None	33876	None	None	9236076	9238832	1	None	None
Y	TSPY3	ENSG00000228927	ENST00000469322	processed_transcript	PUTATIVE	None	33876	None	None	9237436	9238817	1	None	None
Y	TSPY3	ENSG00000228927	ENST00000440483	protein_coding	KNOWN	None	33876	927	308	9236030	9307357	1	None	None
Y	TSPY3	ENSG00000228927	ENST00000427871	protein_coding	KNOWN	None	33876	516	171	9236076	9238832	1	None	None
13	HTR2A-AS1	ENSG00000224517	ENST00000455126	antisense	KNOWN	None	40289	None	None	47426278	47430434	1	None	None
13	HTR2A-AS1	ENSG00000224517	ENST00000452352	antisense	KNOWN	None	40289	None	None	47426287	47428382	1	None	None
13	HTR2A-AS1	ENSG00000224517	ENST00000430913	antisense	KNOWN	None	40289	None	None	47426287	47430434	1	None	None
22	None	ENSG00000234891	ENST00000423712	lincRNA	KNOWN	None	None	None	None	35099117	35100876	-1	None	None
9	ARHGEF39	ENSG00000137135	ENST00000490638	nonsense_mediated_decay	KNOWN	None	25909	900	299	35658872	35675863	-1	C9orf100	FLJ14642
9	ARHGEF39	ENSG00000137135	ENST00000475323	nonsense_mediated_decay	KNOWN	None	25909	561	186	35658874	35665189	-1	C9orf100	FLJ14642
9	ARHGEF39	ENSG00000137135	ENST00000378387	protein_coding	KNOWN	CCDS6584	25909	1008	335	35659341	35665284	-1	C9orf100	FLJ14642
9	ARHGEF39	ENSG00000137135	ENST00000490970	processed_transcript	KNOWN	None	25909	None	None	35661516	35665184	-1	C9orf100	FLJ14642
9	ARHGEF39	ENSG00000137135	ENST00000488918	processed_transcript	KNOWN	None	25909	None	None	35661835	35662641	-1	C9orf100	FLJ14642
9	ARHGEF39	ENSG00000137135	ENST00000468876	processed_transcript	KNOWN	None	25909	None	None	35662964	35664825	-1	C9orf100	FLJ14642
9	ARHGEF39	ENSG00000137135	ENST00000378395	protein_coding	KNOWN	None	25909	900	299	35659341	35669610	-1	C9orf100	FLJ14642
9	ARHGEF39	ENSG00000137135	ENST00000343259	protein_coding	KNOWN	None	25909	561	186	35659341	35665278	-1	C9orf100	FLJ14642
16	None	ENSG00000261690	ENST00000569809	antisense	KNOWN	None	None	None	None	29829301	29832541	-1	None	None
16	None	ENSG00000261690	ENST00000564980	antisense	KNOWN	None	None	None	None	29830738	29832573	-1	None	None
14	None	ENSG00000257142	ENST00000548639	unprocessed_pseudogene	KNOWN	None	None	None	None	20168638	20168809	-1	None	None
16	None	ENSG00000260664	ENST00000564508	lincRNA	KNOWN	None	None	None	None	72459847	72463072	1	None	None
17	None	ENSG00000262973	ENST00000575159	lincRNA	KNOWN	None	None	None	None	47249257	47250608	1	None	None
16	FLYWCH1	ENSG00000059122	ENST00000253928	protein_coding	KNOWN	None	25404	2151	716	2961938	3001209	1	None	DKFZp761A132
16	FLYWCH1	ENSG00000059122	ENST00000571140	processed_transcript	KNOWN	None	25404	None	None	2961982	2972360	1	None	DKFZp761A132
16	FLYWCH1	ENSG00000059122	ENST00000416288	protein_coding	KNOWN	CCDS45390	25404	2148	715	2962000	3001200	1	None	DKFZp761A132
16	FLYWCH1	ENSG00000059122	ENST00000570425	protein_coding	KNOWN	None	25404	141	46	2962008	2979827	1	None	DKFZp761A132
16	FLYWCH1	ENSG00000059122	ENST00000573525	protein_coding	KNOWN	None	25404	231	76	2962025	2979917	1	None	DKFZp761A132
16	FLYWCH1	ENSG00000059122	ENST00000570759	processed_transcript	PUTATIVE	None	25404	None	None	2964262	2972652	1	None	DKFZp761A132
16	FLYWCH1	ENSG00000059122	ENST00000573564	protein_coding	PUTATIVE	None	25404	1403	466	2980798	2990158	1	None	DKFZp761A132
16	FLYWCH1	ENSG00000059122	ENST00000344592	protein_coding	NOVEL	None	25404	1483	493	2983150	2999810	1	None	DKFZp761A132
16	FLYWCH1	ENSG00000059122	ENST00000571580	protein_coding	NOVEL	None	25404	594	197	2983798	2987271	1	None	DKFZp761A132
16	FLYWCH1	ENSG00000059122	ENST00000575604	processed_transcript	PUTATIVE	None	25404	None	None	2983803	2987272	1	None	DKFZp761A132
16	FLYWCH1	ENSG00000059122	ENST00000570752	processed_transcript	KNOWN	None	25404	None	None	2984882	2999814	1	None	DKFZp761A132
16	FLYWCH1	ENSG00000059122	ENST00000574985	retained_intron	KNOWN	None	25404	None	None	2986526	2999812	1	None	DKFZp761A132
16	FLYWCH1	ENSG00000059122	ENST00000571983	protein_coding	PUTATIVE	None	25404	235	77	2988306	2993590	1	None	DKFZp761A132
16	FLYWCH1	ENSG00000059122	ENST00000575679	protein_coding	PUTATIVE	None	25404	280	92	2988405	2999461	1	None	DKFZp761A132
16	FLYWCH1	ENSG00000059122	ENST00000399667	protein_coding	KNOWN	None	25404	2298	765	2961980	3001208	1	None	DKFZp761A132
14	OR11H2	ENSG00000258453	ENST00000556246	unprocessed_pseudogene	KNOWN	None	14716	None	None	20181104	20182079	-1	OR11H2P, OR11H8P, C14orf15	None
22	None	ENSG00000237316	ENST00000440858	lincRNA	KNOWN	None	None	None	None	35107899	35120910	-1	None	None
13	GNG5P5	ENSG00000234590	ENST00000420444	processed_pseudogene	KNOWN	None	33554	None	None	47881217	47881436	1	None	None
17	None	ENSG00000177369	ENST00000322227	lincRNA	KNOWN	None	None	None	None	47325601	47333811	1	None	None
17	None	ENSG00000177369	ENST00000511008	lincRNA	KNOWN	None	None	None	None	47325605	47336024	1	None	None
17	None	ENSG00000177369	ENST00000502951	retained_intron	KNOWN	None	None	None	None	47325618	47330056	1	None	None
X	None	ENSG00000252961	ENST00000517152	snoRNA	KNOWN	None	None	None	None	55930020	55930089	-1	None	None
HSCHR6_MHC_COX	HCG18	ENSG00000228894	ENST00000415873	processed_transcript	KNOWN	None	31337	None	None	30248390	30283966	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
HSCHR6_MHC_COX	HCG18	ENSG00000228894	ENST00000419487	processed_transcript	KNOWN	None	31337	None	None	30248602	30283913	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
HSCHR6_MHC_COX	HCG18	ENSG00000228894	ENST00000456773	processed_transcript	KNOWN	None	31337	None	None	30248602	30283926	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
HSCHR6_MHC_COX	HCG18	ENSG00000228894	ENST00000416033	processed_transcript	KNOWN	None	31337	None	None	30248602	30283955	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
HSCHR6_MHC_COX	HCG18	ENSG00000228894	ENST00000426140	processed_transcript	KNOWN	None	31337	None	None	30248602	30283965	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
HSCHR6_MHC_COX	HCG18	ENSG00000228894	ENST00000422389	processed_transcript	KNOWN	None	31337	None	None	30248602	30284430	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
HSCHR6_MHC_COX	HCG18	ENSG00000228894	ENST00000419994	processed_transcript	KNOWN	None	31337	None	None	30248602	30284476	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
HSCHR6_MHC_COX	HCG18	ENSG00000228894	ENST00000416289	processed_transcript	KNOWN	None	31337	None	None	30248602	30284729	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
1	None	ENSG00000272420	ENST00000607858	sense_intronic	KNOWN	None	None	None	None	2294500	2295067	-1	None	None
13	RN7SL700P	ENSG00000244521	ENST00000496982	misc_RNA	KNOWN	None	46716	None	None	48033078	48033369	-1	None	None
15	LINC00930	ENSG00000258647	ENST00000557075	lincRNA	KNOWN	None	48620	None	None	93111048	93115272	-1	None	None
15	LINC00930	ENSG00000258647	ENST00000554542	lincRNA	KNOWN	None	48620	None	None	93111420	93114042	-1	None	None
X	None	ENSG00000227486	ENST00000452532	processed_transcript	KNOWN	None	None	None	None	55934556	56041606	1	None	None
11	SF3B2	ENSG00000087365	ENST00000529577	processed_transcript	PUTATIVE	None	10769	None	None	65818200	65819790	1	None	SAP145, SF3b1, Cus1, SF3b145
11	SF3B2	ENSG00000087365	ENST00000534307	processed_transcript	PUTATIVE	None	10769	None	None	65818297	65819861	1	None	SAP145, SF3b1, Cus1, SF3b145
11	SF3B2	ENSG00000087365	ENST00000528302	protein_coding	NOVEL	None	10769	2637	878	65819802	65836779	1	None	SAP145, SF3b1, Cus1, SF3b145
11	SF3B2	ENSG00000087365	ENST00000322535	protein_coding	KNOWN	CCDS31612	10769	2688	895	65819807	65836382	1	None	SAP145, SF3b1, Cus1, SF3b145
11	SF3B2	ENSG00000087365	ENST00000524627	protein_coding	NOVEL	None	10769	821	272	65819836	65825571	1	None	SAP145, SF3b1, Cus1, SF3b145
11	SF3B2	ENSG00000087365	ENST00000533595	protein_coding	NOVEL	None	10769	1061	352	65819836	65826401	1	None	SAP145, SF3b1, Cus1, SF3b145
11	SF3B2	ENSG00000087365	ENST00000531041	retained_intron	KNOWN	None	10769	None	None	65819837	65821431	1	None	SAP145, SF3b1, Cus1, SF3b145
11	SF3B2	ENSG00000087365	ENST00000531589	retained_intron	KNOWN	None	10769	None	None	65819864	65822912	1	None	SAP145, SF3b1, Cus1, SF3b145
11	SF3B2	ENSG00000087365	ENST00000530322	protein_coding	NOVEL	None	10769	1163	386	65819871	65826515	1	None	SAP145, SF3b1, Cus1, SF3b145
11	SF3B2	ENSG00000087365	ENST00000524475	protein_coding	PUTATIVE	None	10769	242	79	65820067	65822776	1	None	SAP145, SF3b1, Cus1, SF3b145
11	SF3B2	ENSG00000087365	ENST00000533421	processed_transcript	KNOWN	None	10769	None	None	65820159	65823057	1	None	SAP145, SF3b1, Cus1, SF3b145
11	SF3B2	ENSG00000087365	ENST00000526653	retained_intron	KNOWN	None	10769	None	None	65822764	65823311	1	None	SAP145, SF3b1, Cus1, SF3b145
11	SF3B2	ENSG00000087365	ENST00000525207	retained_intron	KNOWN	None	10769	None	None	65824741	65826074	1	None	SAP145, SF3b1, Cus1, SF3b145
11	SF3B2	ENSG00000087365	ENST00000529994	retained_intron	KNOWN	None	10769	None	None	65826078	65828170	1	None	SAP145, SF3b1, Cus1, SF3b145
11	SF3B2	ENSG00000087365	ENST00000530981	protein_coding	NOVEL	None	10769	947	314	65828162	65836349	1	None	SAP145, SF3b1, Cus1, SF3b145
11	SF3B2	ENSG00000087365	ENST00000534765	retained_intron	KNOWN	None	10769	None	None	65832112	65836145	1	None	SAP145, SF3b1, Cus1, SF3b145
22	None	ENSG00000227895	ENST00000448318	antisense	KNOWN	None	None	None	None	35318599	35468259	-1	None	None
22	None	ENSG00000227895	ENST00000427881	antisense	KNOWN	None	None	None	None	35393708	35398852	-1	None	None
5	RN7SL623P	ENSG00000244501	ENST00000494330	misc_RNA	KNOWN	None	46639	None	None	170293839	170294146	1	None	None
13	NAP1L4P3	ENSG00000234145	ENST00000432820	processed_pseudogene	KNOWN	None	39738	None	None	48337595	48338741	1	None	None
17	SEBOX	ENSG00000109072	ENST00000555059	protein_coding	PUTATIVE	None	32942	447	148	26691310	26695033	-1	None	OG9, OG9X
17	SEBOX	ENSG00000109072	ENST00000536498	protein_coding	KNOWN	None	32942	648	215	26691290	26697373	-1	None	OG9, OG9X
17	SEBOX	ENSG00000109072	ENST00000438614	protein_coding	KNOWN	None	32942	648	215	26691290	26694987	-1	None	OG9, OG9X
17	SEBOX	ENSG00000109072	ENST00000431468	protein_coding	KNOWN	CCDS45634	32942	651	216	26691290	26692265	-1	None	OG9, OG9X
5	None	ENSG00000253966	ENST00000522096	processed_pseudogene	KNOWN	None	None	None	None	170323933	170331465	1	None	None
16	ACSF3	ENSG00000176715	ENST00000537895	protein_coding	PUTATIVE	None	27288	317	104	89154783	89180881	1	None	None
16	ACSF3	ENSG00000176715	ENST00000317447	protein_coding	KNOWN	CCDS10974	27288	1731	576	89160217	89222171	1	None	None
16	ACSF3	ENSG00000176715	ENST00000537290	protein_coding	KNOWN	None	27288	711	236	89160263	89169056	1	None	None
16	ACSF3	ENSG00000176715	ENST00000540697	protein_coding	PUTATIVE	None	27288	571	189	89160276	89199670	1	None	None
16	ACSF3	ENSG00000176715	ENST00000406948	protein_coding	KNOWN	CCDS10974	27288	1731	576	89160291	89220997	1	None	None
16	ACSF3	ENSG00000176715	ENST00000378345	protein_coding	PUTATIVE	None	27288	936	311	89160306	89220996	1	None	None
16	ACSF3	ENSG00000176715	ENST00000541755	protein_coding	KNOWN	None	27288	86	27	89160312	89167175	1	None	None
16	ACSF3	ENSG00000176715	ENST00000542688	nonsense_mediated_decay	KNOWN	None	27288	1107	368	89165119	89220948	1	None	None
16	ACSF3	ENSG00000176715	ENST00000544543	protein_coding	PUTATIVE	None	27288	705	234	89168760	89211808	1	None	None
16	ACSF3	ENSG00000176715	ENST00000538340	protein_coding	PUTATIVE	None	27288	434	143	89169021	89188800	1	None	None
16	ACSF3	ENSG00000176715	ENST00000543676	protein_coding	PUTATIVE	None	27288	550	182	89169104	89189240	1	None	None
16	ACSF3	ENSG00000176715	ENST00000562204	processed_transcript	KNOWN	None	27288	None	None	89178609	89212452	1	None	None
16	ACSF3	ENSG00000176715	ENST00000537116	processed_transcript	KNOWN	None	27288	None	None	89202956	89222254	1	None	None
16	ACSF3	ENSG00000176715	ENST00000537155	retained_intron	KNOWN	None	27288	None	None	89211569	89220992	1	None	None
16	ACSF3	ENSG00000176715	ENST00000535176	protein_coding	PUTATIVE	None	27288	320	105	89212358	89217756	1	None	None
16	ACSF3	ENSG00000176715	ENST00000393145	retained_intron	KNOWN	None	27288	None	None	89213975	89220994	1	None	None
16	ACSF3	ENSG00000176715	ENST00000562750	processed_transcript	KNOWN	None	27288	None	None	89217008	89217630	1	None	None
X	None	ENSG00000214745	ENST00000398901	processed_pseudogene	KNOWN	None	None	None	None	55987641	55988915	1	None	None
3	BTLA	ENSG00000186265	ENST00000334529	protein_coding	KNOWN	CCDS33819	21087	870	289	112182815	112218408	-1	None	BTLA1, CD272
3	BTLA	ENSG00000186265	ENST00000474965	processed_transcript	PUTATIVE	None	21087	None	None	112184773	112188869	-1	None	BTLA1, CD272
3	BTLA	ENSG00000186265	ENST00000383680	protein_coding	KNOWN	CCDS43130	21087	726	241	112184955	112218205	-1	None	BTLA1, CD272
3	BTLA	ENSG00000186265	ENST00000496584	retained_intron	KNOWN	None	21087	None	None	112188603	112189300	-1	None	BTLA1, CD272
6	None	ENSG00000227748	ENST00000436295	lincRNA	KNOWN	None	None	None	None	147180317	147184217	1	None	None
7	ERHP1	ENSG00000254270	ENST00000523006	processed_pseudogene	KNOWN	None	41916	None	None	139218986	139219295	1	None	None
14	MDP1	ENSG00000213920	ENST00000288087	protein_coding	KNOWN	CCDS9620	28781	531	176	24683143	24685273	-1	None	MGC5987, FN6Pase
14	MDP1	ENSG00000213920	ENST00000530222	retained_intron	KNOWN	None	28781	None	None	24683149	24685243	-1	None	MGC5987, FN6Pase
14	MDP1	ENSG00000213920	ENST00000396833	protein_coding	NOVEL	CCDS55908	28781	369	122	24683149	24685271	-1	None	MGC5987, FN6Pase
14	MDP1	ENSG00000213920	ENST00000532557	processed_transcript	KNOWN	None	28781	None	None	24683156	24685083	-1	None	MGC5987, FN6Pase
14	MDP1	ENSG00000213920	ENST00000531553	retained_intron	KNOWN	None	28781	None	None	24683158	24685004	-1	None	MGC5987, FN6Pase
14	MDP1	ENSG00000213920	ENST00000525696	processed_transcript	KNOWN	None	28781	None	None	24683160	24684844	-1	None	MGC5987, FN6Pase
14	MDP1	ENSG00000213920	ENST00000533536	retained_intron	KNOWN	None	28781	None	None	24683244	24685203	-1	None	MGC5987, FN6Pase
14	MDP1	ENSG00000213920	ENST00000532742	retained_intron	KNOWN	None	28781	None	None	24683530	24685276	-1	None	MGC5987, FN6Pase
14	MDP1	ENSG00000213920	ENST00000528849	retained_intron	KNOWN	None	28781	None	None	24683573	24685168	-1	None	MGC5987, FN6Pase
14	MDP1	ENSG00000213920	ENST00000466422	retained_intron	KNOWN	None	28781	None	None	24683596	24685265	-1	None	MGC5987, FN6Pase
6	None	ENSG00000272397	ENST00000606686	lincRNA	KNOWN	None	None	None	None	147269664	147272295	-1	None	None
17	None	ENSG00000266925	ENST00000587907	lincRNA	KNOWN	None	None	None	None	20410726	20412244	-1	None	None
6	EDN1	ENSG00000078401	ENST00000379375	protein_coding	KNOWN	CCDS4522	3176	639	212	12290596	12297427	1	None	ET1
7	None	ENSG00000251728	ENST00000515919	misc_RNA	NOVEL	None	None	None	None	139794497	139794592	-1	None	None
6	None	ENSG00000196634	ENST00000359838	lincRNA	KNOWN	None	None	None	None	147480061	147502128	1	None	None
13	RPL27AP8	ENSG00000229423	ENST00000424277	processed_pseudogene	KNOWN	None	36544	None	None	48340775	48341220	-1	None	None
7	None	ENSG00000260231	ENST00000566699	antisense	KNOWN	None	None	None	None	139877061	139879440	1	None	None
15	GOLGA8T	ENSG00000261247	ENST00000569052	protein_coding	NOVEL	None	44410	1896	631	30427352	30437770	1	None	None
15	GOLGA8T	ENSG00000261247	ENST00000565649	processed_transcript	PUTATIVE	None	44410	None	None	30427990	30431756	1	None	None
12	None	ENSG00000228144	ENST00000539652	nonsense_mediated_decay	KNOWN	None	None	507	168	66517697	66563765	-1	None	None
HSCHR6_MHC_DBB	None	ENSG00000259101	ENST00000428105	protein_coding	PUTATIVE	None	None	1149	382	31656856	31667868	1	None	None
5	CDH10	ENSG00000040731	ENST00000264463	protein_coding	KNOWN	CCDS3892	1749	2367	788	24487209	24645087	-1	None	None
5	CDH10	ENSG00000040731	ENST00000502921	processed_transcript	KNOWN	None	1749	None	None	24487255	24499630	-1	None	None
5	CDH10	ENSG00000040731	ENST00000510477	nonsense_mediated_decay	KNOWN	None	1749	1311	436	24487457	24644889	-1	None	None
5	CDH10	ENSG00000040731	ENST00000503958	retained_intron	KNOWN	None	1749	None	None	24487641	24493072	-1	None	None
6	None	ENSG00000225135	ENST00000443556	lincRNA	KNOWN	None	None	None	None	147708800	147711601	1	None	None
5	None	ENSG00000272093	ENST00000606310	lincRNA	KNOWN	None	None	None	None	71656517	71658805	1	None	None
17	None	ENSG00000231645	ENST00000453795	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	20415873	20420792	-1	None	None
17	None	ENSG00000231645	ENST00000581013	processed_transcript	KNOWN	None	None	None	None	20417947	20419550	-1	None	None
2	ASTL	ENSG00000188886	ENST00000342380	protein_coding	KNOWN	CCDS33249	31704	1296	431	96789589	96804175	-1	None	ovastacin
2	ASTL	ENSG00000188886	ENST00000470582	retained_intron	KNOWN	None	31704	None	None	96799423	96803516	-1	None	ovastacin
HG243_PATCH	SLC52A2	ENSG00000261042	ENST00000565673	protein_coding	NOVEL	None	30224	208	68	145409038	145414603	1	GPR172A	FLJ11856, PAR1, GPCR41, D15Ertd747e, RFVT2, hRFT3
HG243_PATCH	SLC52A2	ENSG00000261042	ENST00000565816	protein_coding	KNOWN	None	30224	4	0	145409547	145414200	1	GPR172A	FLJ11856, PAR1, GPCR41, D15Ertd747e, RFVT2, hRFT3
HG243_PATCH	SLC52A2	ENSG00000261042	ENST00000562273	protein_coding	KNOWN	None	30224	1338	445	145413460	145416173	1	GPR172A	FLJ11856, PAR1, GPCR41, D15Ertd747e, RFVT2, hRFT3
HG243_PATCH	SLC52A2	ENSG00000261042	ENST00000561937	protein_coding	KNOWN	None	30224	1338	445	145413468	145415924	1	GPR172A	FLJ11856, PAR1, GPCR41, D15Ertd747e, RFVT2, hRFT3
HG243_PATCH	SLC52A2	ENSG00000261042	ENST00000567208	protein_coding	NOVEL	None	30224	525	174	145413480	145415508	1	GPR172A	FLJ11856, PAR1, GPCR41, D15Ertd747e, RFVT2, hRFT3
HG243_PATCH	SLC52A2	ENSG00000261042	ENST00000563713	protein_coding	KNOWN	None	30224	1338	445	145413484	145416173	1	GPR172A	FLJ11856, PAR1, GPCR41, D15Ertd747e, RFVT2, hRFT3
HG243_PATCH	SLC52A2	ENSG00000261042	ENST00000566505	protein_coding	KNOWN	None	30224	1338	445	145413496	145416144	1	GPR172A	FLJ11856, PAR1, GPCR41, D15Ertd747e, RFVT2, hRFT3
HG243_PATCH	SLC52A2	ENSG00000261042	ENST00000567429	protein_coding	KNOWN	None	30224	1338	445	145413496	145416175	1	GPR172A	FLJ11856, PAR1, GPCR41, D15Ertd747e, RFVT2, hRFT3
HG243_PATCH	SLC52A2	ENSG00000261042	ENST00000565779	protein_coding	NOVEL	None	30224	336	111	145413497	145416174	1	GPR172A	FLJ11856, PAR1, GPCR41, D15Ertd747e, RFVT2, hRFT3
HG243_PATCH	SLC52A2	ENSG00000261042	ENST00000570171	protein_coding	KNOWN	None	30224	407	134	145413498	145414802	1	GPR172A	FLJ11856, PAR1, GPCR41, D15Ertd747e, RFVT2, hRFT3
HG243_PATCH	SLC52A2	ENSG00000261042	ENST00000565093	protein_coding	PUTATIVE	None	30224	245	80	145413893	145414904	1	GPR172A	FLJ11856, PAR1, GPCR41, D15Ertd747e, RFVT2, hRFT3
HG243_PATCH	SLC52A2	ENSG00000261042	ENST00000566207	nonsense_mediated_decay	KNOWN	None	30224	264	87	145413915	145415632	1	GPR172A	FLJ11856, PAR1, GPCR41, D15Ertd747e, RFVT2, hRFT3
16	CDIPT-AS1	ENSG00000214725	ENST00000565014	antisense	KNOWN	None	48609	None	None	29874914	29879371	1	None	None
16	CDIPT-AS1	ENSG00000214725	ENST00000398859	antisense	KNOWN	None	48609	None	None	29875155	29879368	1	None	None
19	None	ENSG00000268407	ENST00000596823	processed_pseudogene	KNOWN	None	None	None	None	57304416	57304617	-1	None	None
1	None	ENSG00000271921	ENST00000606642	sense_intronic	KNOWN	None	None	None	None	2306292	2306792	-1	None	None
7	RNU6-797P	ENSG00000199971	ENST00000363101	snRNA	KNOWN	None	47760	None	None	139909363	139909471	-1	None	None
8	None	ENSG00000253216	ENST00000522872	processed_pseudogene	KNOWN	None	None	None	None	70358292	70358495	1	None	None
7	RNU1-58P	ENSG00000199283	ENST00000362413	snRNA	KNOWN	None	48400	None	None	139941670	139941832	1	None	None
5	None	ENSG00000272365	ENST00000607825	lincRNA	KNOWN	None	None	None	None	71663446	71664222	1	None	None
7	None	ENSG00000270512	ENST00000605126	processed_pseudogene	KNOWN	None	None	None	None	139982265	139982720	1	None	None
19	MIMT1	ENSG00000268654	ENST00000599641	lincRNA	KNOWN	None	33464	None	None	57352270	57359924	1	None	MIM1, NCRNA00067, LINC00067
19	MIMT1	ENSG00000268654	ENST00000597105	lincRNA	KNOWN	None	33464	None	None	57352617	57353666	1	None	MIM1, NCRNA00067, LINC00067
6	None	ENSG00000203284	ENST00000366114	pseudogene	NOVEL	None	None	None	None	107555445	107555703	1	None	None
5	None	ENSG00000244061	ENST00000494700	processed_pseudogene	KNOWN	None	None	None	None	71677621	71678220	1	None	None
7	PPP1R2P6	ENSG00000241661	ENST00000478565	processed_pseudogene	KNOWN	None	16321	None	None	139992552	139993139	1	None	None
8	None	ENSG00000261658	ENST00000562490	sense_overlapping	KNOWN	None	None	None	None	70579284	70582549	-1	None	None
HSCHR6_MHC_DBB	LY6G6E	ENSG00000237482	ENST00000481162	processed_transcript	KNOWN	None	13934	None	None	31662286	31663762	-1	C6orf22	G6e
HSCHR6_MHC_DBB	LY6G6E	ENSG00000237482	ENST00000419000	protein_coding	KNOWN	None	13934	201	66	31662291	31663762	-1	C6orf22	G6e
HSCHR6_MHC_DBB	LY6G6E	ENSG00000237482	ENST00000453077	protein_coding	KNOWN	None	13934	303	100	31662291	31663762	-1	C6orf22	G6e
HSCHR6_MHC_DBB	LY6G6E	ENSG00000237482	ENST00000550508	protein_coding	KNOWN	None	13934	378	125	31662286	31663762	-1	C6orf22	G6e
6	None	ENSG00000213167	ENST00000392674	pseudogene	NOVEL	None	None	None	None	107558468	107558747	1	None	None
16	PDF	ENSG00000258429	ENST00000288022	protein_coding	KNOWN	CCDS10875	30012	732	243	69362524	69364498	-1	None	None
5	YBX1P5	ENSG00000251108	ENST00000509441	processed_pseudogene	KNOWN	None	42426	None	None	71713316	71714162	1	None	None
2	DNMT3A	ENSG00000119772	ENST00000380746	protein_coding	KNOWN	CCDS1718	2978	2172	723	25455845	25475180	-1	None	None
2	DNMT3A	ENSG00000119772	ENST00000321117	protein_coding	KNOWN	CCDS33157	2978	2739	912	25455845	25564754	-1	None	None
2	DNMT3A	ENSG00000119772	ENST00000264709	protein_coding	KNOWN	CCDS33157	2978	2739	912	25455845	25565459	-1	None	None
2	DNMT3A	ENSG00000119772	ENST00000380756	nonsense_mediated_decay	KNOWN	None	2978	2346	781	25455846	25565358	-1	None	None
2	DNMT3A	ENSG00000119772	ENST00000402667	protein_coding	KNOWN	None	2978	2070	689	25457066	25475180	-1	None	None
2	DNMT3A	ENSG00000119772	ENST00000474887	processed_transcript	KNOWN	None	2978	None	None	25458575	25467193	-1	None	None
2	DNMT3A	ENSG00000119772	ENST00000482935	processed_transcript	KNOWN	None	2978	None	None	25458654	25466848	-1	None	None
2	DNMT3A	ENSG00000119772	ENST00000491288	processed_transcript	KNOWN	None	2978	None	None	25459799	25466839	-1	None	None
2	DNMT3A	ENSG00000119772	ENST00000466601	retained_intron	KNOWN	None	2978	None	None	25459843	25464884	-1	None	None
2	DNMT3A	ENSG00000119772	ENST00000461228	processed_transcript	KNOWN	None	2978	None	None	25462045	25466851	-1	None	None
2	DNMT3A	ENSG00000119772	ENST00000474807	retained_intron	KNOWN	None	2978	None	None	25468131	25470768	-1	None	None
2	DNMT3A	ENSG00000119772	ENST00000484184	retained_intron	KNOWN	None	2978	None	None	25469543	25470435	-1	None	None
2	DNMT3A	ENSG00000119772	ENST00000470983	processed_transcript	KNOWN	None	2978	None	None	25469626	25472572	-1	None	None
2	DNMT3A	ENSG00000119772	ENST00000496570	processed_transcript	KNOWN	None	2978	None	None	25469919	25474952	-1	None	None
2	DNMT3A	ENSG00000119772	ENST00000406659	protein_coding	KNOWN	CCDS46232	2978	501	166	25504321	25565459	-1	None	None
6	None	ENSG00000203281	ENST00000366111	pseudogene	NOVEL	None	None	None	None	107584371	107584617	-1	None	None
X	FAM9C	ENSG00000187268	ENST00000380625	protein_coding	KNOWN	CCDS35203	18405	501	166	13053752	13062800	-1	None	TEX39C
X	FAM9C	ENSG00000187268	ENST00000468287	retained_intron	KNOWN	None	18405	None	None	13053752	13062800	-1	None	TEX39C
X	FAM9C	ENSG00000187268	ENST00000333995	protein_coding	KNOWN	CCDS35203	18405	501	166	13053831	13062721	-1	None	TEX39C
X	FAM9C	ENSG00000187268	ENST00000438997	protein_coding	KNOWN	None	18405	380	125	13056468	13061307	-1	None	TEX39C
X	FAM9C	ENSG00000187268	ENST00000542843	protein_coding	KNOWN	None	18405	387	128	13053737	13062801	-1	None	TEX39C
7	RNA5SP247	ENSG00000223113	ENST00000411181	rRNA	KNOWN	None	43147	None	None	140070241	140070345	1	RN5S247	None
5	None	ENSG00000261269	ENST00000564956	sense_overlapping	KNOWN	None	None	None	None	71735730	71738214	-1	None	None
19	ZNF71	ENSG00000197951	ENST00000599599	protein_coding	KNOWN	None	13141	386	127	57106632	57133041	1	None	Cos26, EZFIT
19	ZNF71	ENSG00000197951	ENST00000328070	protein_coding	KNOWN	CCDS12947	13141	1470	489	57106668	57137849	1	None	Cos26, EZFIT
19	ZNF71	ENSG00000197951	ENST00000594944	processed_transcript	KNOWN	None	13141	None	None	57106703	57121911	1	None	Cos26, EZFIT
19	None	ENSG00000269786	ENST00000593294	processed_pseudogene	KNOWN	None	None	None	None	57433386	57433581	1	None	None
7	None	ENSG00000238868	ENST00000459596	snoRNA	KNOWN	None	None	None	None	140075363	140075466	-1	None	None
1	None	ENSG00000271847	ENST00000606280	sense_intronic	KNOWN	None	None	None	None	2309056	2309799	-1	None	None
11	GNG3	ENSG00000162188	ENST00000294117	protein_coding	KNOWN	CCDS8032	4405	228	75	62475130	62476673	1	None	None
6	None	ENSG00000234206	ENST00000441532	antisense	KNOWN	None	None	None	None	107831007	107832640	-1	None	None
6	None	ENSG00000234206	ENST00000437040	antisense	KNOWN	None	None	None	None	107831007	107832925	-1	None	None
7	RNA5SP248	ENSG00000202472	ENST00000365602	rRNA	KNOWN	None	43148	None	None	140086581	140086707	-1	RN5S248	None
12	GSG1	ENSG00000111305	ENST00000337630	protein_coding	KNOWN	CCDS44835	19716	981	326	13236494	13248609	-1	None	MGC3146
12	GSG1	ENSG00000111305	ENST00000396302	protein_coding	KNOWN	CCDS8659	19716	858	285	13237511	13248740	-1	None	MGC3146
12	GSG1	ENSG00000111305	ENST00000457134	protein_coding	KNOWN	CCDS55806	19716	828	275	13237521	13248582	-1	None	MGC3146
12	GSG1	ENSG00000111305	ENST00000432710	protein_coding	KNOWN	CCDS55808	19716	1020	339	13237757	13256579	-1	None	MGC3146
12	GSG1	ENSG00000111305	ENST00000537302	protein_coding	KNOWN	CCDS55807	19716	897	298	13237759	13248596	-1	None	MGC3146
12	GSG1	ENSG00000111305	ENST00000351606	protein_coding	KNOWN	CCDS44836	19716	966	321	13237759	13256579	-1	None	MGC3146
12	GSG1	ENSG00000111305	ENST00000545401	protein_coding	NOVEL	None	19716	708	235	13240179	13256576	-1	None	MGC3146
12	GSG1	ENSG00000111305	ENST00000542415	protein_coding	NOVEL	None	19716	661	219	13240886	13256617	-1	None	MGC3146
12	GSG1	ENSG00000111305	ENST00000545699	protein_coding	NOVEL	None	19716	633	210	13241677	13248610	-1	None	MGC3146
12	GSG1	ENSG00000111305	ENST00000324458	protein_coding	KNOWN	None	19716	1089	362	13237042	13256619	-1	None	MGC3146
12	GSG1	ENSG00000111305	ENST00000396310	protein_coding	KNOWN	None	19716	888	295	13237042	13248709	-1	None	MGC3146
7	None	ENSG00000103200	ENST00000489972	processed_pseudogene	KNOWN	None	None	None	None	140135116	140135587	-1	None	None
22	None	ENSG00000268818	ENST00000594060	protein_coding	NOVEL	None	None	243	80	36023040	36031181	-1	None	None
6	RNU6-437P	ENSG00000238420	ENST00000459408	snRNA	KNOWN	None	47400	None	None	108251292	108251386	1	None	None
8	NRG1-IT3	ENSG00000254049	ENST00000519023	sense_intronic	KNOWN	None	43635	None	None	32298262	32300241	1	None	None
15	None	ENSG00000259589	ENST00000559303	antisense	KNOWN	None	None	None	None	63967345	64005957	1	None	None
6	RPL23AP50	ENSG00000232778	ENST00000434149	processed_pseudogene	KNOWN	None	35958	None	None	108253004	108253458	1	None	None
19	RPL7AP69	ENSG00000268483	ENST00000595306	processed_pseudogene	KNOWN	None	36697	None	None	57576702	57577507	1	None	None
6	None	ENSG00000272476	ENST00000606070	antisense	KNOWN	None	None	None	None	108278617	108281190	1	None	None
8	RN7SKP29	ENSG00000222889	ENST00000410957	misc_RNA	KNOWN	None	45753	None	None	70612459	70612730	1	None	None
22	APOL6	ENSG00000221963	ENST00000409652	protein_coding	KNOWN	CCDS13919	14870	1032	343	36044442	36057404	1	None	APOL-VI, APOLVI
14	None	ENSG00000270878	ENST00000603606	processed_pseudogene	KNOWN	None	None	None	None	64060749	64062009	-1	None	None
6	None	ENSG00000224987	ENST00000412741	processed_pseudogene	KNOWN	None	None	None	None	108306293	108306894	-1	None	None
15	MIR422A	ENSG00000199156	ENST00000362286	miRNA	KNOWN	None	31879	None	None	64163129	64163218	-1	MIRN422A	hsa-mir-422a
10	None	ENSG00000263041	ENST00000575236	lincRNA	KNOWN	None	None	None	None	119585414	119590029	-1	None	None
15	CERS3	ENSG00000154227	ENST00000284382	protein_coding	KNOWN	CCDS10384	23752	1152	383	100940600	101084925	-1	LASS3	MGC27091
15	CERS3	ENSG00000154227	ENST00000538112	protein_coding	KNOWN	CCDS10384	23752	1152	383	100942716	101084476	-1	LASS3	MGC27091
15	CERS3	ENSG00000154227	ENST00000394113	protein_coding	KNOWN	CCDS10384	23752	1152	383	100942716	101084618	-1	LASS3	MGC27091
15	CERS3	ENSG00000154227	ENST00000560944	processed_transcript	KNOWN	None	23752	None	None	100942716	101085200	-1	LASS3	MGC27091
15	CERS3	ENSG00000154227	ENST00000560348	retained_intron	KNOWN	None	23752	None	None	101016042	101019701	-1	LASS3	MGC27091
15	CERS3	ENSG00000154227	ENST00000558884	protein_coding	KNOWN	None	23752	488	161	101019661	101084498	-1	LASS3	MGC27091
15	CERS3	ENSG00000154227	ENST00000559023	retained_intron	KNOWN	None	23752	None	None	101040453	101069470	-1	LASS3	MGC27091
15	CERS3	ENSG00000154227	ENST00000559639	protein_coding	KNOWN	None	23752	46	14	101042009	101084484	-1	LASS3	MGC27091
15	None	ENSG00000259225	ENST00000558081	lincRNA	KNOWN	None	None	None	None	38276967	38333188	1	None	None
15	None	ENSG00000259225	ENST00000559992	lincRNA	KNOWN	None	None	None	None	38285610	38317219	1	None	None
15	None	ENSG00000259225	ENST00000557883	lincRNA	KNOWN	None	None	None	None	38296947	38317219	1	None	None
15	None	ENSG00000259225	ENST00000558897	lincRNA	KNOWN	None	None	None	None	38332594	38354541	1	None	None
8	None	ENSG00000254557	ENST00000533344	antisense	KNOWN	None	None	None	None	70625625	70631957	1	None	None
HSCHR6_MHC_DBB	LY6G6D	ENSG00000234443	ENST00000420378	protein_coding	KNOWN	None	13935	402	133	31665306	31667754	1	C6orf23	MEGT1, Ly6-D, G6D, LY6-D, NG25
HSCHR6_MHC_DBB	LY6G6D	ENSG00000234443	ENST00000421590	protein_coding	PUTATIVE	None	13935	523	173	31665306	31667754	1	C6orf23	MEGT1, Ly6-D, G6D, LY6-D, NG25
HSCHR6_MHC_DBB	LY6G6D	ENSG00000234443	ENST00000498546	retained_intron	KNOWN	None	13935	None	None	31665306	31667754	1	C6orf23	MEGT1, Ly6-D, G6D, LY6-D, NG25
8	None	ENSG00000271113	ENST00000603094	processed_pseudogene	KNOWN	None	None	None	None	70706297	70706969	1	None	None
16	SULT1A1	ENSG00000196502	ENST00000350842	protein_coding	KNOWN	CCDS10637	11453	654	217	28616903	28634907	-1	STP, STP1	P-PST
16	SULT1A1	ENSG00000196502	ENST00000564818	nonsense_mediated_decay	KNOWN	None	11453	171	56	28616908	28634573	-1	STP, STP1	P-PST
16	SULT1A1	ENSG00000196502	ENST00000567998	retained_intron	KNOWN	None	11453	None	None	28616912	28625600	-1	STP, STP1	P-PST
16	SULT1A1	ENSG00000196502	ENST00000562058	nonsense_mediated_decay	KNOWN	None	11453	171	56	28616913	28634874	-1	STP, STP1	P-PST
16	SULT1A1	ENSG00000196502	ENST00000569554	protein_coding	KNOWN	CCDS32420	11453	888	295	28616940	28620241	-1	STP, STP1	P-PST
16	SULT1A1	ENSG00000196502	ENST00000314752	protein_coding	KNOWN	CCDS32420	11453	888	295	28616949	28621328	-1	STP, STP1	P-PST
16	SULT1A1	ENSG00000196502	ENST00000563493	nonsense_mediated_decay	KNOWN	None	11453	258	85	28616949	28634946	-1	STP, STP1	P-PST
16	SULT1A1	ENSG00000196502	ENST00000566189	protein_coding	KNOWN	None	11453	844	280	28617186	28621311	-1	STP, STP1	P-PST
16	SULT1A1	ENSG00000196502	ENST00000567512	protein_coding	NOVEL	None	11453	509	168	28617517	28621353	-1	STP, STP1	P-PST
16	SULT1A1	ENSG00000196502	ENST00000395609	protein_coding	KNOWN	CCDS32420	11453	888	295	28616918	28634874	-1	STP, STP1	P-PST
16	SULT1A1	ENSG00000196502	ENST00000395607	protein_coding	KNOWN	CCDS32420	11453	888	295	28616918	28620649	-1	STP, STP1	P-PST
17	None	ENSG00000205215	ENST00000582261	processed_transcript	KNOWN	None	None	None	None	20422625	20432000	-1	None	None
17	None	ENSG00000205215	ENST00000451704	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	20422834	20427060	-1	None	None
17	None	ENSG00000205215	ENST00000583364	processed_transcript	KNOWN	None	None	None	None	20425405	20427762	-1	None	None
17	None	ENSG00000205215	ENST00000585017	processed_transcript	KNOWN	None	None	None	None	20426131	20427762	-1	None	None
1	None	ENSG00000178642	ENST00000317490	pseudogene	NOVEL	None	None	None	None	2316811	2319922	1	None	None
19	None	ENSG00000252683	ENST00000516874	snoRNA	NOVEL	None	None	None	None	57645418	57645635	-1	None	None
15	None	ENSG00000259351	ENST00000558050	antisense	KNOWN	None	None	None	None	64220473	64228152	1	None	None
12	ZNF605	ENSG00000196458	ENST00000360187	protein_coding	KNOWN	CCDS31938	28068	1926	641	133498019	133532892	-1	None	None
12	ZNF605	ENSG00000196458	ENST00000392321	protein_coding	NOVEL	CCDS53850	28068	2019	672	133498048	133532892	-1	None	None
12	ZNF605	ENSG00000196458	ENST00000331711	processed_transcript	KNOWN	None	28068	None	None	133503258	133532877	-1	None	None
12	ZNF605	ENSG00000196458	ENST00000412621	retained_intron	KNOWN	None	28068	None	None	133509398	133532848	-1	None	None
12	ZNF605	ENSG00000196458	ENST00000381215	retained_intron	KNOWN	None	28068	None	None	133521384	133532848	-1	None	None
12	ZNF605	ENSG00000196458	ENST00000539809	retained_intron	KNOWN	None	28068	None	None	133522302	133525201	-1	None	None
17	None	ENSG00000214105	ENST00000397549	lincRNA	KNOWN	None	None	None	None	77681075	77686081	1	None	None
19	KLK5	ENSG00000167754	ENST00000391809	protein_coding	KNOWN	CCDS12810	6366	882	293	51446559	51456321	-1	None	SCTE, KLK-L2
19	KLK5	ENSG00000167754	ENST00000336334	protein_coding	KNOWN	CCDS12810	6366	882	293	51446559	51456344	-1	None	SCTE, KLK-L2
19	KLK5	ENSG00000167754	ENST00000593428	protein_coding	KNOWN	CCDS12810	6366	882	293	51446559	51456349	-1	None	SCTE, KLK-L2
19	KLK5	ENSG00000167754	ENST00000595585	retained_intron	KNOWN	None	6366	None	None	51446564	51455924	-1	None	SCTE, KLK-L2
19	KLK5	ENSG00000167754	ENST00000594846	protein_coding	KNOWN	None	6366	616	204	51452006	51456198	-1	None	SCTE, KLK-L2
19	None	ENSG00000270293	ENST00000604851	processed_pseudogene	KNOWN	None	None	None	None	57661881	57662346	1	None	None
12	COPS7A	ENSG00000111652	ENST00000543155	protein_coding	KNOWN	CCDS8558	16758	828	275	6832907	6841022	1	None	CSN7A
12	COPS7A	ENSG00000111652	ENST00000455113	nonsense_mediated_decay	KNOWN	None	16758	189	62	6833205	6840987	1	None	CSN7A
12	COPS7A	ENSG00000111652	ENST00000542150	processed_transcript	KNOWN	None	16758	None	None	6833212	6839987	1	None	CSN7A
12	COPS7A	ENSG00000111652	ENST00000229251	protein_coding	KNOWN	CCDS8558	16758	828	275	6833237	6840973	1	None	CSN7A
12	COPS7A	ENSG00000111652	ENST00000539735	protein_coding	KNOWN	CCDS8558	16758	828	275	6833245	6840994	1	None	CSN7A
12	COPS7A	ENSG00000111652	ENST00000543170	nonsense_mediated_decay	KNOWN	None	16758	189	62	6833247	6838598	1	None	CSN7A
12	COPS7A	ENSG00000111652	ENST00000538410	protein_coding	NOVEL	None	16758	789	262	6833248	6840998	1	None	CSN7A
12	COPS7A	ENSG00000111652	ENST00000540408	nonsense_mediated_decay	KNOWN	None	16758	189	62	6833256	6838526	1	None	CSN7A
12	COPS7A	ENSG00000111652	ENST00000537022	nonsense_mediated_decay	KNOWN	None	16758	171	56	6833277	6837477	1	None	CSN7A
12	COPS7A	ENSG00000111652	ENST00000543939	nonsense_mediated_decay	KNOWN	None	16758	189	62	6833285	6840990	1	None	CSN7A
12	COPS7A	ENSG00000111652	ENST00000538375	nonsense_mediated_decay	KNOWN	None	16758	189	62	6833301	6840263	1	None	CSN7A
12	COPS7A	ENSG00000111652	ENST00000544725	protein_coding	PUTATIVE	None	16758	376	124	6833350	6838461	1	None	CSN7A
12	COPS7A	ENSG00000111652	ENST00000534947	protein_coding	KNOWN	CCDS8558	16758	828	275	6833453	6841041	1	None	CSN7A
12	COPS7A	ENSG00000111652	ENST00000536872	nonsense_mediated_decay	KNOWN	None	16758	189	62	6833457	6839618	1	None	CSN7A
12	COPS7A	ENSG00000111652	ENST00000546229	nonsense_mediated_decay	KNOWN	None	16758	216	71	6833459	6838618	1	None	CSN7A
12	COPS7A	ENSG00000111652	ENST00000541866	protein_coding	PUTATIVE	None	16758	577	191	6833460	6839614	1	None	CSN7A
12	COPS7A	ENSG00000111652	ENST00000534877	protein_coding	KNOWN	CCDS8558	16758	828	275	6833464	6841008	1	None	CSN7A
12	COPS7A	ENSG00000111652	ENST00000538753	protein_coding	PUTATIVE	None	16758	638	211	6833472	6839675	1	None	CSN7A
12	COPS7A	ENSG00000111652	ENST00000543537	nonsense_mediated_decay	KNOWN	None	16758	189	62	6833472	6839970	1	None	CSN7A
12	COPS7A	ENSG00000111652	ENST00000544316	nonsense_mediated_decay	KNOWN	None	16758	183	60	6833603	6835076	1	None	CSN7A
12	COPS7A	ENSG00000111652	ENST00000542630	retained_intron	KNOWN	None	16758	None	None	6838201	6839869	1	None	CSN7A
7	RALA	ENSG00000006451	ENST00000005257	protein_coding	KNOWN	CCDS5460	9839	621	206	39663082	39747723	1	RAL	None
7	RALA	ENSG00000006451	ENST00000468201	processed_transcript	PUTATIVE	None	9839	None	None	39663164	39745990	1	RAL	None
7	RALA	ENSG00000006451	ENST00000436179	protein_coding	KNOWN	None	9839	303	100	39663485	39730169	1	RAL	None
7	RALA	ENSG00000006451	ENST00000434466	nonsense_mediated_decay	KNOWN	None	9839	494	163	39726286	39745907	1	RAL	None
7	RALA	ENSG00000006451	ENST00000466491	processed_transcript	PUTATIVE	None	9839	None	None	39740479	39745901	1	RAL	None
18	VPS4B	ENSG00000119541	ENST00000238497	protein_coding	KNOWN	CCDS11983	10895	1335	444	61056423	61089696	-1	SKD1	VPS4-2, SKD1B
18	VPS4B	ENSG00000119541	ENST00000588323	processed_transcript	KNOWN	None	10895	None	None	61058096	61064357	-1	SKD1	VPS4-2, SKD1B
18	VPS4B	ENSG00000119541	ENST00000588059	nonsense_mediated_decay	KNOWN	None	10895	336	111	61060677	61089696	-1	SKD1	VPS4-2, SKD1B
18	VPS4B	ENSG00000119541	ENST00000591475	retained_intron	KNOWN	None	10895	None	None	61063575	61089716	-1	SKD1	VPS4-2, SKD1B
18	VPS4B	ENSG00000119541	ENST00000589604	retained_intron	KNOWN	None	10895	None	None	61063823	61089696	-1	SKD1	VPS4-2, SKD1B
18	VPS4B	ENSG00000119541	ENST00000591383	processed_transcript	KNOWN	None	10895	None	None	61066488	61071947	-1	SKD1	VPS4-2, SKD1B
18	VPS4B	ENSG00000119541	ENST00000591519	protein_coding	PUTATIVE	None	10895	387	128	61074609	61089623	-1	SKD1	VPS4-2, SKD1B
19	None	ENSG00000270790	ENST00000604182	processed_pseudogene	KNOWN	None	None	None	None	57662955	57663228	-1	None	None
X	HDX	ENSG00000165259	ENST00000297977	protein_coding	KNOWN	CCDS35342	26411	2073	690	83572882	83757461	-1	CXorf43	FLJ30678
X	HDX	ENSG00000165259	ENST00000506585	protein_coding	KNOWN	CCDS55456	26411	1899	632	83572886	83757461	-1	CXorf43	FLJ30678
X	HDX	ENSG00000165259	ENST00000373177	protein_coding	KNOWN	CCDS35342	26411	2073	690	83576205	83757399	-1	CXorf43	FLJ30678
X	HDX	ENSG00000165259	ENST00000472135	retained_intron	KNOWN	None	26411	None	None	83694981	83724584	-1	CXorf43	FLJ30678
X	HDX	ENSG00000165259	ENST00000449553	protein_coding	KNOWN	None	26411	621	206	83723936	83757487	-1	CXorf43	FLJ30678
9	ZNF462	ENSG00000148143	ENST00000277225	protein_coding	KNOWN	CCDS35096	21684	7521	2506	109625378	109775915	1	None	DKFZP762N2316, KIAA1803, Zfp462
9	ZNF462	ENSG00000148143	ENST00000472574	protein_coding	PUTATIVE	None	21684	331	109	109625447	109692856	1	None	DKFZP762N2316, KIAA1803, Zfp462
9	ZNF462	ENSG00000148143	ENST00000480607	processed_transcript	KNOWN	None	21684	None	None	109689206	109694743	1	None	DKFZP762N2316, KIAA1803, Zfp462
9	ZNF462	ENSG00000148143	ENST00000374686	protein_coding	NOVEL	None	21684	4350	1449	109689545	109773789	1	None	DKFZP762N2316, KIAA1803, Zfp462
9	ZNF462	ENSG00000148143	ENST00000441147	protein_coding	NOVEL	None	21684	4239	1412	109689659	109773763	1	None	DKFZP762N2316, KIAA1803, Zfp462
9	ZNF462	ENSG00000148143	ENST00000497489	processed_transcript	KNOWN	None	21684	None	None	109691961	109697902	1	None	DKFZP762N2316, KIAA1803, Zfp462
9	ZNF462	ENSG00000148143	ENST00000469433	processed_transcript	KNOWN	None	21684	None	None	109694889	109736501	1	None	DKFZP762N2316, KIAA1803, Zfp462
9	ZNF462	ENSG00000148143	ENST00000471032	processed_transcript	KNOWN	None	21684	None	None	109694902	109701375	1	None	DKFZP762N2316, KIAA1803, Zfp462
9	ZNF462	ENSG00000148143	ENST00000479166	processed_transcript	KNOWN	None	21684	None	None	109694918	109734506	1	None	DKFZP762N2316, KIAA1803, Zfp462
9	ZNF462	ENSG00000148143	ENST00000427098	protein_coding	PUTATIVE	None	21684	625	207	109701258	109737251	1	None	DKFZP762N2316, KIAA1803, Zfp462
9	ZNF462	ENSG00000148143	ENST00000482115	processed_transcript	KNOWN	None	21684	None	None	109734423	109757963	1	None	DKFZP762N2316, KIAA1803, Zfp462
9	ZNF462	ENSG00000148143	ENST00000483287	processed_transcript	KNOWN	None	21684	None	None	109771470	109773299	1	None	DKFZP762N2316, KIAA1803, Zfp462
9	ZNF462	ENSG00000148143	ENST00000457913	protein_coding	KNOWN	None	21684	7701	2566	109625378	109773763	1	None	DKFZP762N2316, KIAA1803, Zfp462
9	ZNF462	ENSG00000148143	ENST00000542028	protein_coding	KNOWN	None	21684	1392	463	109694914	109773504	1	None	DKFZP762N2316, KIAA1803, Zfp462
14	None	ENSG00000258800	ENST00000553983	lincRNA	KNOWN	None	None	None	None	64065592	64065966	1	None	None
17	NAGLU	ENSG00000108784	ENST00000225927	protein_coding	KNOWN	CCDS11427	7632	2232	743	40688190	40696467	1	None	NAG
17	NAGLU	ENSG00000108784	ENST00000586516	protein_coding	NOVEL	None	7632	510	169	40688541	40693111	1	None	NAG
17	NAGLU	ENSG00000108784	ENST00000591587	protein_coding	PUTATIVE	None	7632	369	122	40688548	40696179	1	None	NAG
17	NAGLU	ENSG00000108784	ENST00000590358	protein_coding	PUTATIVE	None	7632	245	80	40688956	40690382	1	None	NAG
17	NAGLU	ENSG00000108784	ENST00000592454	protein_coding	PUTATIVE	None	7632	196	64	40693109	40695567	1	None	NAG
19	None	ENSG00000268379	ENST00000594883	processed_pseudogene	KNOWN	None	None	None	None	57686601	57689289	1	None	None
11	ABCC8	ENSG00000006071	ENST00000526037	retained_intron	KNOWN	None	59	None	None	17414432	17417327	-1	SUR, HRINS	HI, PHHI, SUR1, MRP8, ABC36, HHF1, TNDM2
11	ABCC8	ENSG00000006071	ENST00000531642	nonsense_mediated_decay	KNOWN	None	59	187	61	17414432	17417432	-1	SUR, HRINS	HI, PHHI, SUR1, MRP8, ABC36, HHF1, TNDM2
11	ABCC8	ENSG00000006071	ENST00000389817	protein_coding	KNOWN	CCDS31437	59	4746	1581	17414432	17498392	-1	SUR, HRINS	HI, PHHI, SUR1, MRP8, ABC36, HHF1, TNDM2
11	ABCC8	ENSG00000006071	ENST00000526168	nonsense_mediated_decay	KNOWN	None	59	101	32	17414535	17417464	-1	SUR, HRINS	HI, PHHI, SUR1, MRP8, ABC36, HHF1, TNDM2
11	ABCC8	ENSG00000006071	ENST00000525022	retained_intron	KNOWN	None	59	None	None	17414588	17417462	-1	SUR, HRINS	HI, PHHI, SUR1, MRP8, ABC36, HHF1, TNDM2
11	ABCC8	ENSG00000006071	ENST00000532220	retained_intron	KNOWN	None	59	None	None	17417460	17419055	-1	SUR, HRINS	HI, PHHI, SUR1, MRP8, ABC36, HHF1, TNDM2
11	ABCC8	ENSG00000006071	ENST00000528374	protein_coding	NOVEL	None	59	611	202	17417468	17426085	-1	SUR, HRINS	HI, PHHI, SUR1, MRP8, ABC36, HHF1, TNDM2
11	ABCC8	ENSG00000006071	ENST00000527905	nonsense_mediated_decay	KNOWN	None	59	2994	997	17418358	17498366	-1	SUR, HRINS	HI, PHHI, SUR1, MRP8, ABC36, HHF1, TNDM2
11	ABCC8	ENSG00000006071	ENST00000531891	nonsense_mediated_decay	KNOWN	None	59	161	52	17418480	17424225	-1	SUR, HRINS	HI, PHHI, SUR1, MRP8, ABC36, HHF1, TNDM2
11	ABCC8	ENSG00000006071	ENST00000531137	retained_intron	KNOWN	None	59	None	None	17418482	17426108	-1	SUR, HRINS	HI, PHHI, SUR1, MRP8, ABC36, HHF1, TNDM2
11	ABCC8	ENSG00000006071	ENST00000524561	retained_intron	KNOWN	None	59	None	None	17424282	17428728	-1	SUR, HRINS	HI, PHHI, SUR1, MRP8, ABC36, HHF1, TNDM2
11	ABCC8	ENSG00000006071	ENST00000526921	retained_intron	KNOWN	None	59	None	None	17428224	17435099	-1	SUR, HRINS	HI, PHHI, SUR1, MRP8, ABC36, HHF1, TNDM2
11	ABCC8	ENSG00000006071	ENST00000529967	retained_intron	KNOWN	None	59	None	None	17428430	17436117	-1	SUR, HRINS	HI, PHHI, SUR1, MRP8, ABC36, HHF1, TNDM2
11	ABCC8	ENSG00000006071	ENST00000530147	retained_intron	KNOWN	None	59	None	None	17431793	17435083	-1	SUR, HRINS	HI, PHHI, SUR1, MRP8, ABC36, HHF1, TNDM2
11	ABCC8	ENSG00000006071	ENST00000531911	retained_intron	KNOWN	None	59	None	None	17432144	17449640	-1	SUR, HRINS	HI, PHHI, SUR1, MRP8, ABC36, HHF1, TNDM2
11	ABCC8	ENSG00000006071	ENST00000532728	retained_intron	KNOWN	None	59	None	None	17452111	17498354	-1	SUR, HRINS	HI, PHHI, SUR1, MRP8, ABC36, HHF1, TNDM2
11	ABCC8	ENSG00000006071	ENST00000528202	processed_transcript	PUTATIVE	None	59	None	None	17452144	17464338	-1	SUR, HRINS	HI, PHHI, SUR1, MRP8, ABC36, HHF1, TNDM2
11	ABCC8	ENSG00000006071	ENST00000526002	retained_intron	KNOWN	None	59	None	None	17452369	17464980	-1	SUR, HRINS	HI, PHHI, SUR1, MRP8, ABC36, HHF1, TNDM2
11	ABCC8	ENSG00000006071	ENST00000302539	protein_coding	KNOWN	None	59	4749	1582	17414432	17498449	-1	SUR, HRINS	HI, PHHI, SUR1, MRP8, ABC36, HHF1, TNDM2
22	ZNF74	ENSG00000185252	ENST00000400451	protein_coding	KNOWN	CCDS42982	13144	1935	644	20748405	20761968	1	None	Cos52, Zfp520, ZNF520
22	ZNF74	ENSG00000185252	ENST00000403682	protein_coding	NOVEL	CCDS58794	13144	537	178	20748418	20761697	1	None	Cos52, Zfp520, ZNF520
22	ZNF74	ENSG00000185252	ENST00000357502	protein_coding	PUTATIVE	None	13144	639	212	20748451	20761971	1	None	Cos52, Zfp520, ZNF520
22	ZNF74	ENSG00000185252	ENST00000493734	retained_intron	KNOWN	None	13144	None	None	20748478	20761970	1	None	Cos52, Zfp520, ZNF520
22	ZNF74	ENSG00000185252	ENST00000420626	protein_coding	NOVEL	None	13144	151	49	20748479	20759783	1	None	Cos52, Zfp520, ZNF520
22	ZNF74	ENSG00000185252	ENST00000437275	nonsense_mediated_decay	KNOWN	None	13144	210	69	20748693	20762745	1	None	Cos52, Zfp520, ZNF520
22	ZNF74	ENSG00000185252	ENST00000405993	protein_coding	KNOWN	None	13144	1839	612	20748919	20761258	1	None	Cos52, Zfp520, ZNF520
22	ZNF74	ENSG00000185252	ENST00000476678	retained_intron	KNOWN	None	13144	None	None	20753801	20761683	1	None	Cos52, Zfp520, ZNF520
22	ZNF74	ENSG00000185252	ENST00000356671	protein_coding	KNOWN	CCDS42982	13144	1935	644	20748479	20761614	1	None	Cos52, Zfp520, ZNF520
8	None	ENSG00000246528	ENST00000501104	antisense	KNOWN	None	None	None	None	70746346	70749605	1	None	None
8	None	ENSG00000246528	ENST00000528800	antisense	KNOWN	None	None	None	None	70746364	70750064	1	None	None
8	None	ENSG00000246528	ENST00000533300	antisense	KNOWN	None	None	None	None	70746388	70762652	1	None	None
8	None	ENSG00000246528	ENST00000530194	antisense	KNOWN	None	None	None	None	70755534	70767206	1	None	None
17	None	ENSG00000239173	ENST00000459036	snoRNA	NOVEL	None	None	None	None	77687493	77687588	1	None	None
6	YAP1P1	ENSG00000220494	ENST00000401504	processed_pseudogene	KNOWN	None	38016	None	None	147728025	147729417	1	None	None
1	CAMK2N1	ENSG00000162545	ENST00000375078	protein_coding	KNOWN	CCDS207	24190	237	78	20808884	20812713	-1	None	CaMKIINalpha
1	CAMK2N1	ENSG00000162545	ENST00000489020	processed_transcript	KNOWN	None	24190	None	None	20809680	20811138	-1	None	CaMKIINalpha
17	None	ENSG00000262768	ENST00000570512	antisense	KNOWN	None	None	None	None	77774397	77776326	1	None	None
1	None	ENSG00000224387	ENST00000424657	antisense	KNOWN	None	None	None	None	2423739	2424697	-1	None	None
6	RNF146	ENSG00000118518	ENST00000368314	protein_coding	KNOWN	CCDS56449	21336	1080	359	127587755	127609703	1	None	DKFZp434O1427, dactylidin, dJ351K20.1
6	RNF146	ENSG00000118518	ENST00000476956	processed_transcript	KNOWN	None	21336	None	None	127587871	127608036	1	None	DKFZp434O1427, dactylidin, dJ351K20.1
6	RNF146	ENSG00000118518	ENST00000356799	protein_coding	KNOWN	CCDS5136	21336	1077	358	127587994	127609712	1	None	DKFZp434O1427, dactylidin, dJ351K20.1
6	RNF146	ENSG00000118518	ENST00000495188	processed_transcript	KNOWN	None	21336	None	None	127587996	127601825	1	None	DKFZp434O1427, dactylidin, dJ351K20.1
6	RNF146	ENSG00000118518	ENST00000477776	processed_transcript	KNOWN	None	21336	None	None	127588009	127607994	1	None	DKFZp434O1427, dactylidin, dJ351K20.1
6	RNF146	ENSG00000118518	ENST00000489534	processed_transcript	KNOWN	None	21336	None	None	127588028	127608098	1	None	DKFZp434O1427, dactylidin, dJ351K20.1
6	RNF146	ENSG00000118518	ENST00000480444	processed_transcript	KNOWN	None	21336	None	None	127588033	127608048	1	None	DKFZp434O1427, dactylidin, dJ351K20.1
6	RNF146	ENSG00000118518	ENST00000309649	protein_coding	KNOWN	CCDS5136	21336	1077	358	127588020	127609502	1	None	DKFZp434O1427, dactylidin, dJ351K20.1
19	C2CD4C	ENSG00000183186	ENST00000332235	protein_coding	KNOWN	CCDS45890	29417	1266	421	405438	409139	-1	KIAA1957, FAM148C	NLF3
17	None	ENSG00000238331	ENST00000459144	miRNA	NOVEL	None	None	None	None	77784478	77784573	1	None	None
15	None	ENSG00000258676	ENST00000555864	lincRNA	KNOWN	None	None	None	None	93124059	93143775	1	None	None
17	None	ENSG00000262772	ENST00000576963	lincRNA	KNOWN	None	None	None	None	77797251	77801503	1	None	None
12	TMBIM4	ENSG00000155957	ENST00000358230	protein_coding	KNOWN	CCDS41805	24257	717	238	66529626	66563852	-1	None	CGI-119, S1R, ZPRO, LFG4, GAAP
12	TMBIM4	ENSG00000155957	ENST00000544599	protein_coding	PUTATIVE	None	24257	186	61	66530717	66563291	-1	None	CGI-119, S1R, ZPRO, LFG4, GAAP
12	TMBIM4	ENSG00000155957	ENST00000538217	retained_intron	KNOWN	None	24257	None	None	66531609	66532717	-1	None	CGI-119, S1R, ZPRO, LFG4, GAAP
12	TMBIM4	ENSG00000155957	ENST00000286424	protein_coding	NOVEL	None	24257	858	285	66531614	66563742	-1	None	CGI-119, S1R, ZPRO, LFG4, GAAP
12	TMBIM4	ENSG00000155957	ENST00000398033	protein_coding	PUTATIVE	None	24257	486	161	66531614	66563778	-1	None	CGI-119, S1R, ZPRO, LFG4, GAAP
12	TMBIM4	ENSG00000155957	ENST00000542724	protein_coding	PUTATIVE	None	24257	624	207	66531619	66563807	-1	None	CGI-119, S1R, ZPRO, LFG4, GAAP
12	TMBIM4	ENSG00000155957	ENST00000545407	nonsense_mediated_decay	KNOWN	None	24257	225	74	66531622	66563760	-1	None	CGI-119, S1R, ZPRO, LFG4, GAAP
12	TMBIM4	ENSG00000155957	ENST00000545504	nonsense_mediated_decay	KNOWN	None	24257	144	47	66531886	66563784	-1	None	CGI-119, S1R, ZPRO, LFG4, GAAP
12	TMBIM4	ENSG00000155957	ENST00000534930	nonsense_mediated_decay	KNOWN	None	24257	132	43	66532525	66563749	-1	None	CGI-119, S1R, ZPRO, LFG4, GAAP
12	TMBIM4	ENSG00000155957	ENST00000542072	processed_transcript	PUTATIVE	None	24257	None	None	66554868	66563769	-1	None	CGI-119, S1R, ZPRO, LFG4, GAAP
12	TMBIM4	ENSG00000155957	ENST00000535812	processed_transcript	PUTATIVE	None	24257	None	None	66562526	66563792	-1	None	CGI-119, S1R, ZPRO, LFG4, GAAP
12	TMBIM4	ENSG00000155957	ENST00000556010	protein_coding	KNOWN	None	24257	507	168	66517709	66563765	-1	None	CGI-119, S1R, ZPRO, LFG4, GAAP
6	None	ENSG00000227681	ENST00000427015	lincRNA	KNOWN	None	None	None	None	147981839	148275073	1	None	None
6	None	ENSG00000227681	ENST00000432506	lincRNA	KNOWN	None	None	None	None	147981873	148058692	1	None	None
6	None	ENSG00000227681	ENST00000442094	lincRNA	KNOWN	None	None	None	None	147997211	148058692	1	None	None
6	None	ENSG00000227681	ENST00000434985	lincRNA	KNOWN	None	None	None	None	148013534	148058692	1	None	None
1	CLCA1	ENSG00000016490	ENST00000234701	protein_coding	KNOWN	CCDS709	2015	2745	914	86934051	86965942	1	None	CaCC, CLCRG1
1	CLCA1	ENSG00000016490	ENST00000394711	protein_coding	KNOWN	CCDS709	2015	2745	914	86934526	86965972	1	None	CaCC, CLCRG1
5	None	ENSG00000253213	ENST00000523223	processed_pseudogene	KNOWN	None	None	None	None	170678870	170679986	1	None	None
17	None	ENSG00000262343	ENST00000570408	lincRNA	KNOWN	None	None	None	None	77821857	77823909	-1	None	None
20	BPIFB3	ENSG00000186190	ENST00000375494	protein_coding	KNOWN	CCDS13212	16178	1431	476	31643230	31661434	1	C20orf185	dJ726C3.4, LPLUNC3, RYA3
HSCHR16_1_CTG3_1	CES5A	ENSG00000261972	ENST00000570713	processed_transcript	KNOWN	None	26459	None	None	55892484	55971788	-1	CES7	FLJ31547, CES4C1, CES5, CAUXIN
HSCHR16_1_CTG3_1	CES5A	ENSG00000261972	ENST00000573178	protein_coding	KNOWN	None	26459	1815	604	55892484	56002378	-1	CES7	FLJ31547, CES4C1, CES5, CAUXIN
HSCHR16_1_CTG3_1	CES5A	ENSG00000261972	ENST00000576682	protein_coding	KNOWN	None	26459	1578	525	55892492	55921720	-1	CES7	FLJ31547, CES4C1, CES5, CAUXIN
HSCHR16_1_CTG3_1	CES5A	ENSG00000261972	ENST00000572754	protein_coding	KNOWN	None	26459	1410	469	55892492	55971822	-1	CES7	FLJ31547, CES4C1, CES5, CAUXIN
HSCHR16_1_CTG3_1	CES5A	ENSG00000261972	ENST00000576219	protein_coding	KNOWN	None	26459	1728	575	55892547	55921693	-1	CES7	FLJ31547, CES4C1, CES5, CAUXIN
HSCHR16_1_CTG3_1	CES5A	ENSG00000261972	ENST00000573522	protein_coding	NOVEL	None	26459	1638	545	55892549	55921649	-1	CES7	FLJ31547, CES4C1, CES5, CAUXIN
HSCHR16_1_CTG3_1	CES5A	ENSG00000261972	ENST00000576322	protein_coding	NOVEL	None	26459	1068	355	55892549	55990811	-1	CES7	FLJ31547, CES4C1, CES5, CAUXIN
HSCHR16_1_CTG3_1	CES5A	ENSG00000261972	ENST00000576831	processed_transcript	KNOWN	None	26459	None	None	55892724	55918191	-1	CES7	FLJ31547, CES4C1, CES5, CAUXIN
HSCHR16_1_CTG3_1	CES5A	ENSG00000261972	ENST00000574456	protein_coding	KNOWN	None	26459	225	74	55915969	55971788	-1	CES7	FLJ31547, CES4C1, CES5, CAUXIN
5	SYNPO	ENSG00000171992	ENST00000394243	protein_coding	KNOWN	CCDS54937	30672	2790	929	149980642	150033794	1	None	KIAA1029
5	SYNPO	ENSG00000171992	ENST00000522122	protein_coding	KNOWN	CCDS54937	30672	2790	929	149997206	150031896	1	None	KIAA1029
5	SYNPO	ENSG00000171992	ENST00000518872	processed_transcript	KNOWN	None	30672	None	None	150004277	150028476	1	None	KIAA1029
5	SYNPO	ENSG00000171992	ENST00000307662	protein_coding	KNOWN	CCDS4308	30672	2712	903	150020220	150038782	1	None	KIAA1029
5	SYNPO	ENSG00000171992	ENST00000519664	protein_coding	KNOWN	CCDS54938	30672	2058	685	150020240	150031899	1	None	KIAA1029
17	None	ENSG00000266042	ENST00000428754	processed_pseudogene	KNOWN	None	None	None	None	20429415	20429523	1	None	None
15	None	ENSG00000201071	ENST00000364201	misc_RNA	NOVEL	None	None	None	None	64403657	64403768	-1	None	None
10	None	ENSG00000272366	ENST00000607385	lincRNA	KNOWN	None	None	None	None	22629306	22629544	-1	None	None
2	IL1B	ENSG00000125538	ENST00000263341	protein_coding	KNOWN	CCDS2102	5992	810	269	113587328	113594480	-1	None	IL1F2, IL-1B, IL1-BETA
2	IL1B	ENSG00000125538	ENST00000491056	processed_transcript	KNOWN	None	5992	None	None	113587938	113594356	-1	None	IL1F2, IL-1B, IL1-BETA
2	IL1B	ENSG00000125538	ENST00000487639	retained_intron	KNOWN	None	5992	None	None	113588713	113591152	-1	None	IL1F2, IL-1B, IL1-BETA
2	IL1B	ENSG00000125538	ENST00000418817	protein_coding	KNOWN	None	5992	429	142	113590276	113594393	-1	None	IL1F2, IL-1B, IL1-BETA
2	IL1B	ENSG00000125538	ENST00000432018	protein_coding	KNOWN	None	5992	376	124	113590329	113594011	-1	None	IL1F2, IL-1B, IL1-BETA
2	IL1B	ENSG00000125538	ENST00000416750	protein_coding	KNOWN	None	5992	333	110	113590372	113594279	-1	None	IL1F2, IL-1B, IL1-BETA
2	IL1B	ENSG00000125538	ENST00000496280	retained_intron	KNOWN	None	5992	None	None	113590490	113594356	-1	None	IL1F2, IL-1B, IL1-BETA
2	IL1B	ENSG00000125538	ENST00000477398	retained_intron	KNOWN	None	5992	None	None	113592758	113594356	-1	None	IL1F2, IL-1B, IL1-BETA
8	None	ENSG00000272327	ENST00000607314	lincRNA	KNOWN	None	None	None	None	32623643	32625477	1	None	None
15	None	ENSG00000252774	ENST00000516965	snoRNA	NOVEL	None	None	None	None	64634738	64634897	1	None	None
17	None	ENSG00000262585	ENST00000576738	lincRNA	KNOWN	None	None	None	None	77889051	77900524	-1	None	None
14	None	ENSG00000259140	ENST00000556151	processed_pseudogene	KNOWN	None	None	None	None	95141214	95142166	-1	None	None
15	RN7SL595P	ENSG00000264600	ENST00000582065	misc_RNA	KNOWN	None	46611	None	None	64692409	64692671	-1	None	None
16	None	ENSG00000221286	ENST00000408359	miRNA	NOVEL	None	None	None	None	72613441	72613536	-1	None	None
1	None	ENSG00000229393	ENST00000442305	antisense	KNOWN	None	None	None	None	2424876	2425918	-1	None	None
10	None	ENSG00000233451	ENST00000422675	sense_overlapping	KNOWN	None	None	None	None	22650101	22701996	1	None	None
HSCHR6_MHC_SSTO	GPSM3	ENSG00000234508	ENST00000474364	protein_coding	NOVEL	None	13945	474	157	32165411	32167513	-1	C6orf9	NG1, G18, G18.1a, G18.1b, G18.2, AGS4
HSCHR6_MHC_SSTO	GPSM3	ENSG00000234508	ENST00000476582	nonsense_mediated_decay	KNOWN	None	13945	150	49	32165411	32167530	-1	C6orf9	NG1, G18, G18.1a, G18.1b, G18.2, AGS4
HSCHR6_MHC_SSTO	GPSM3	ENSG00000234508	ENST00000432871	protein_coding	KNOWN	None	13945	483	160	32165411	32167551	-1	C6orf9	NG1, G18, G18.1a, G18.1b, G18.2, AGS4
HSCHR6_MHC_SSTO	GPSM3	ENSG00000234508	ENST00000445326	protein_coding	KNOWN	None	13945	483	160	32165411	32170168	-1	C6orf9	NG1, G18, G18.1a, G18.1b, G18.2, AGS4
14	None	ENSG00000258645	ENST00000554777	processed_pseudogene	KNOWN	None	None	None	None	64068227	64068532	1	None	None
17	None	ENSG00000260907	ENST00000563569	lincRNA	KNOWN	None	None	None	None	20433355	20434194	-1	None	None
5	None	ENSG00000252387	ENST00000516578	snoRNA	NOVEL	None	None	None	None	170710663	170710717	1	None	None
17	RNU7-135P	ENSG00000251964	ENST00000516155	snRNA	KNOWN	None	45669	None	None	47403202	47403263	-1	None	None
15	RN7SL707P	ENSG00000265067	ENST00000582206	misc_RNA	KNOWN	None	46723	None	None	64713401	64713698	-1	None	None
16	None	ENSG00000259768	ENST00000563328	antisense	KNOWN	None	None	None	None	72699069	72821143	1	None	None
22	PLA2G6	ENSG00000184381	ENST00000332509	protein_coding	KNOWN	CCDS13967	9039	2421	806	38507502	38577809	-1	None	iPLA2, PNPLA9, PARK14, iPLA2beta, NBIA2
22	PLA2G6	ENSG00000184381	ENST00000402064	protein_coding	KNOWN	CCDS33645	9039	2259	752	38507507	38577836	-1	None	iPLA2, PNPLA9, PARK14, iPLA2beta, NBIA2
22	PLA2G6	ENSG00000184381	ENST00000463287	retained_intron	KNOWN	None	9039	None	None	38507879	38508862	-1	None	iPLA2, PNPLA9, PARK14, iPLA2beta, NBIA2
22	PLA2G6	ENSG00000184381	ENST00000496409	retained_intron	KNOWN	None	9039	None	None	38509545	38517047	-1	None	iPLA2, PNPLA9, PARK14, iPLA2beta, NBIA2
22	PLA2G6	ENSG00000184381	ENST00000454670	nonsense_mediated_decay	KNOWN	None	9039	505	167	38511563	38522449	-1	None	iPLA2, PNPLA9, PARK14, iPLA2beta, NBIA2
22	PLA2G6	ENSG00000184381	ENST00000448094	nonsense_mediated_decay	KNOWN	None	9039	681	226	38512101	38531070	-1	None	iPLA2, PNPLA9, PARK14, iPLA2beta, NBIA2
22	PLA2G6	ENSG00000184381	ENST00000491986	retained_intron	KNOWN	None	9039	None	None	38516766	38522762	-1	None	iPLA2, PNPLA9, PARK14, iPLA2beta, NBIA2
22	PLA2G6	ENSG00000184381	ENST00000490473	processed_transcript	KNOWN	None	9039	None	None	38519211	38523235	-1	None	iPLA2, PNPLA9, PARK14, iPLA2beta, NBIA2
22	PLA2G6	ENSG00000184381	ENST00000471636	retained_intron	KNOWN	None	9039	None	None	38522378	38577821	-1	None	iPLA2, PNPLA9, PARK14, iPLA2beta, NBIA2
22	PLA2G6	ENSG00000184381	ENST00000452794	protein_coding	PUTATIVE	None	9039	374	123	38523003	38528884	-1	None	iPLA2, PNPLA9, PARK14, iPLA2beta, NBIA2
22	PLA2G6	ENSG00000184381	ENST00000480154	retained_intron	KNOWN	None	9039	None	None	38524168	38525513	-1	None	iPLA2, PNPLA9, PARK14, iPLA2beta, NBIA2
22	PLA2G6	ENSG00000184381	ENST00000427114	protein_coding	PUTATIVE	None	9039	688	228	38524350	38541471	-1	None	iPLA2, PNPLA9, PARK14, iPLA2beta, NBIA2
22	PLA2G6	ENSG00000184381	ENST00000427453	protein_coding	PUTATIVE	None	9039	473	156	38525525	38536040	-1	None	iPLA2, PNPLA9, PARK14, iPLA2beta, NBIA2
22	PLA2G6	ENSG00000184381	ENST00000452542	protein_coding	PUTATIVE	None	9039	591	196	38525548	38539221	-1	None	iPLA2, PNPLA9, PARK14, iPLA2beta, NBIA2
22	PLA2G6	ENSG00000184381	ENST00000498338	protein_coding	PUTATIVE	None	9039	360	119	38530995	38539501	-1	None	iPLA2, PNPLA9, PARK14, iPLA2beta, NBIA2
22	PLA2G6	ENSG00000184381	ENST00000430886	protein_coding	KNOWN	None	9039	498	165	38536072	38577787	-1	None	iPLA2, PNPLA9, PARK14, iPLA2beta, NBIA2
22	PLA2G6	ENSG00000184381	ENST00000479641	processed_transcript	KNOWN	None	9039	None	None	38536141	38564084	-1	None	iPLA2, PNPLA9, PARK14, iPLA2beta, NBIA2
22	PLA2G6	ENSG00000184381	ENST00000436218	nonsense_mediated_decay	KNOWN	None	9039	456	151	38536142	38577837	-1	None	iPLA2, PNPLA9, PARK14, iPLA2beta, NBIA2
22	PLA2G6	ENSG00000184381	ENST00000445591	processed_transcript	KNOWN	None	9039	None	None	38539236	38559679	-1	None	iPLA2, PNPLA9, PARK14, iPLA2beta, NBIA2
22	PLA2G6	ENSG00000184381	ENST00000452972	processed_transcript	KNOWN	None	9039	None	None	38539244	38564097	-1	None	iPLA2, PNPLA9, PARK14, iPLA2beta, NBIA2
22	PLA2G6	ENSG00000184381	ENST00000447598	nonsense_mediated_decay	KNOWN	None	9039	300	99	38541500	38577815	-1	None	iPLA2, PNPLA9, PARK14, iPLA2beta, NBIA2
22	PLA2G6	ENSG00000184381	ENST00000435484	nonsense_mediated_decay	KNOWN	None	9039	300	99	38541599	38577835	-1	None	iPLA2, PNPLA9, PARK14, iPLA2beta, NBIA2
22	PLA2G6	ENSG00000184381	ENST00000417303	nonsense_mediated_decay	KNOWN	None	9039	300	99	38541613	38588107	-1	None	iPLA2, PNPLA9, PARK14, iPLA2beta, NBIA2
22	PLA2G6	ENSG00000184381	ENST00000455341	protein_coding	KNOWN	None	9039	239	78	38541631	38576411	-1	None	iPLA2, PNPLA9, PARK14, iPLA2beta, NBIA2
22	PLA2G6	ENSG00000184381	ENST00000420435	processed_transcript	KNOWN	None	9039	None	None	38543375	38577836	-1	None	iPLA2, PNPLA9, PARK14, iPLA2beta, NBIA2
22	PLA2G6	ENSG00000184381	ENST00000426674	processed_transcript	KNOWN	None	9039	None	None	38543386	38577790	-1	None	iPLA2, PNPLA9, PARK14, iPLA2beta, NBIA2
22	PLA2G6	ENSG00000184381	ENST00000594306	protein_coding	KNOWN	None	9039	152	49	38565282	38601697	-1	None	iPLA2, PNPLA9, PARK14, iPLA2beta, NBIA2
22	PLA2G6	ENSG00000184381	ENST00000335539	protein_coding	KNOWN	CCDS33645	9039	2259	752	38507503	38577761	-1	None	iPLA2, PNPLA9, PARK14, iPLA2beta, NBIA2
2	CPSF3	ENSG00000119203	ENST00000238112	protein_coding	KNOWN	CCDS1664	2326	2055	684	9563697	9613230	1	None	CPSF-73, CPSF73, YSH1
2	CPSF3	ENSG00000119203	ENST00000475482	protein_coding	NOVEL	None	2326	408	135	9563780	9572817	1	None	CPSF-73, CPSF73, YSH1
2	CPSF3	ENSG00000119203	ENST00000460593	protein_coding	NOVEL	None	2326	1944	647	9564013	9613221	1	None	CPSF-73, CPSF73, YSH1
2	CPSF3	ENSG00000119203	ENST00000489629	retained_intron	KNOWN	None	2326	None	None	9581859	9588479	1	None	CPSF-73, CPSF73, YSH1
2	CPSF3	ENSG00000119203	ENST00000489403	processed_transcript	KNOWN	None	2326	None	None	9597106	9613227	1	None	CPSF-73, CPSF73, YSH1
1	MUL1	ENSG00000090432	ENST00000264198	protein_coding	KNOWN	CCDS208	25762	1059	352	20825943	20834654	-1	C1orf166	FLJ12875, MULAN, RNF218, MAPL, GIDE
5	None	ENSG00000213393	ENST00000524262	processed_pseudogene	KNOWN	None	None	None	None	170772347	170772634	-1	None	None
15	None	ENSG00000206781	ENST00000384054	misc_RNA	NOVEL	None	None	None	None	64737329	64737442	-1	None	None
10	RNU6-413P	ENSG00000206842	ENST00000384115	snRNA	KNOWN	None	47376	None	None	23076322	23076428	1	None	None
17	None	ENSG00000248714	ENST00000502823	lincRNA	KNOWN	None	None	None	None	47438527	47443477	1	None	None
17	None	ENSG00000248714	ENST00000510360	lincRNA	KNOWN	None	None	None	None	47438551	47447360	1	None	None
17	None	ENSG00000248714	ENST00000507337	lincRNA	KNOWN	None	None	None	None	47439744	47443454	1	None	None
17	None	ENSG00000262188	ENST00000574526	lincRNA	KNOWN	None	None	None	None	77893156	77897809	1	None	None
17	None	ENSG00000262188	ENST00000572353	lincRNA	KNOWN	None	None	None	None	77893173	77899261	1	None	None
15	None	ENSG00000259682	ENST00000558443	sense_intronic	KNOWN	None	None	None	None	64762452	64763563	1	None	None
8	RNU6-663P	ENSG00000212407	ENST00000391105	snRNA	KNOWN	None	47626	None	None	32769011	32769116	-1	None	None
5	RN7SL339P	ENSG00000265740	ENST00000580597	misc_RNA	KNOWN	None	46355	None	None	170786121	170786414	1	None	None
10	RNA5SP304	ENSG00000223131	ENST00000411199	rRNA	KNOWN	None	43204	None	None	23286184	23286287	1	RN5S304	None
17	None	ENSG00000265916	ENST00000584274	processed_pseudogene	KNOWN	None	None	None	None	20435561	20436194	-1	None	None
16	RNU7-90P	ENSG00000238731	ENST00000459216	snRNA	KNOWN	None	45624	None	None	72707402	72707463	1	None	None
X	None	ENSG00000238039	ENST00000370438	processed_transcript	KNOWN	None	None	None	None	148593039	148607803	-1	None	None
9	None	ENSG00000271659	ENST00000604650	antisense	KNOWN	None	None	None	None	98276327	98276802	1	None	None
10	None	ENSG00000221221	ENST00000408294	miRNA	NOVEL	None	None	None	None	23363312	23363407	-1	None	None
8	None	ENSG00000255107	ENST00000531211	processed_pseudogene	KNOWN	None	None	None	None	70771499	70772775	-1	None	None
17	None	ENSG00000264981	ENST00000578659	unprocessed_pseudogene	KNOWN	None	None	None	None	20446287	20447436	-1	None	None
19	AZU1	ENSG00000172232	ENST00000592205	retained_intron	KNOWN	None	913	None	None	825097	832017	1	None	AZU, CAP37, AZAMP, HBP, NAZC, HUMAZUR
19	AZU1	ENSG00000172232	ENST00000233997	protein_coding	KNOWN	CCDS12044	913	756	251	827826	832017	1	None	AZU, CAP37, AZAMP, HBP, NAZC, HUMAZUR
16	KRT18P18	ENSG00000261764	ENST00000565278	transcribed_processed_pseudogene	KNOWN	None	33386	None	None	72762515	72763793	1	None	None
17	None	ENSG00000184247	ENST00000327910	pseudogene	NOVEL	None	None	None	None	77910551	77910992	-1	None	None
10	YWHAZP3	ENSG00000229932	ENST00000415292	processed_pseudogene	KNOWN	None	31101	None	None	23425853	23426590	1	None	None
10	YWHAZP3	ENSG00000229932	ENST00000430957	processed_pseudogene	KNOWN	None	31101	None	None	23425852	23426154	1	None	None
9	None	ENSG00000229345	ENST00000419620	lincRNA	KNOWN	None	None	None	None	98361827	98368568	-1	None	None
8	RN7SL675P	ENSG00000239580	ENST00000478498	misc_RNA	KNOWN	None	46691	None	None	70834989	70835281	-1	None	None
17	None	ENSG00000262172	ENST00000576632	sense_intronic	KNOWN	None	None	None	None	77965743	77966640	-1	None	None
17	None	ENSG00000250948	ENST00000511322	antisense	KNOWN	None	None	None	None	47452742	47457456	1	None	None
4	GTF2F2P1	ENSG00000251254	ENST00000511083	processed_pseudogene	KNOWN	None	4654	None	None	148427243	148427917	1	GTF2F2L	TFIIF
15	GAPDHP61	ENSG00000248415	ENST00000507324	processed_pseudogene	KNOWN	None	4155	None	None	64820866	64821870	-1	GAPDL6, GAPDHL6	None
19	SMIM17	ENSG00000268182	ENST00000598409	protein_coding	KNOWN	CCDS58683	27114	357	118	57154513	57167134	1	None	None
19	SMIM17	ENSG00000268182	ENST00000600547	protein_coding	NOVEL	None	27114	312	103	57154531	57166726	1	None	None
17	TBC1D3P3	ENSG00000235203	ENST00000342824	unprocessed_pseudogene	KNOWN	None	32408	None	None	20446794	20454276	-1	USP6P1	None
17	None	ENSG00000261978	ENST00000575404	antisense	KNOWN	None	None	None	None	77997693	77999906	1	None	None
17	None	ENSG00000261978	ENST00000570952	antisense	KNOWN	None	None	None	None	77997730	77999906	1	None	None
17	None	ENSG00000186244	ENST00000462104	processed_pseudogene	KNOWN	None	None	None	None	47477791	47478162	-1	None	None
17	None	ENSG00000186244	ENST00000334328	processed_pseudogene	KNOWN	None	None	None	None	47477791	47478126	-1	None	None
8	MTMR7	ENSG00000003987	ENST00000180173	protein_coding	KNOWN	CCDS34851	7454	1983	660	17155539	17270836	-1	None	None
8	MTMR7	ENSG00000003987	ENST00000521857	protein_coding	KNOWN	None	7454	1668	555	17159160	17270836	-1	None	None
8	MTMR7	ENSG00000003987	ENST00000519590	retained_intron	KNOWN	None	7454	None	None	17159711	17169182	-1	None	None
8	MTMR7	ENSG00000003987	ENST00000519763	processed_transcript	KNOWN	None	7454	None	None	17161948	17169372	-1	None	None
8	MTMR7	ENSG00000003987	ENST00000517317	nonsense_mediated_decay	KNOWN	None	7454	318	105	17170894	17270816	-1	None	None
8	MTMR7	ENSG00000003987	ENST00000519122	processed_transcript	KNOWN	None	7454	None	None	17183826	17206566	-1	None	None
8	MTMR7	ENSG00000003987	ENST00000518272	processed_transcript	KNOWN	None	7454	None	None	17188709	17206746	-1	None	None
8	MTMR7	ENSG00000003987	ENST00000523571	processed_transcript	KNOWN	None	7454	None	None	17196239	17206994	-1	None	None
8	MTMR7	ENSG00000003987	ENST00000521177	retained_intron	KNOWN	None	7454	None	None	17230504	17271037	-1	None	None
8	MTMR7	ENSG00000003987	ENST00000398099	protein_coding	KNOWN	None	7454	756	251	17156911	17169182	-1	None	None
4	None	ENSG00000251688	ENST00000509370	lincRNA	KNOWN	None	None	None	None	148488758	148515739	1	None	None
8	RNA5SP270	ENSG00000223293	ENST00000411361	rRNA	KNOWN	None	43170	None	None	70842140	70842257	1	RN5S270	None
1	None	ENSG00000272449	ENST00000606645	lincRNA	KNOWN	None	None	None	None	2477904	2478899	1	None	None
17	None	ENSG00000250186	ENST00000506504	antisense	KNOWN	None	None	None	None	47481443	47482559	1	None	None
17	TAX1BP3	ENSG00000213977	ENST00000225525	protein_coding	KNOWN	CCDS11032	30684	375	124	3566196	3571976	-1	None	TIP-1
8	SDCBPP2	ENSG00000247570	ENST00000424643	processed_pseudogene	KNOWN	None	44686	None	None	70855183	70856883	1	None	None
4	None	ENSG00000251298	ENST00000508072	antisense	KNOWN	None	None	None	None	148530703	148538396	-1	None	None
17	None	ENSG00000262580	ENST00000570309	processed_transcript	KNOWN	None	None	None	None	78174472	78178870	-1	None	None
17	None	ENSG00000262580	ENST00000573346	antisense	KNOWN	None	None	None	None	78175388	78179275	-1	None	None
17	None	ENSG00000262580	ENST00000576824	antisense	KNOWN	None	None	None	None	78175507	78179426	-1	None	None
17	None	ENSG00000262580	ENST00000573935	processed_transcript	KNOWN	None	None	None	None	78175545	78178134	-1	None	None
17	None	ENSG00000262580	ENST00000572730	processed_transcript	KNOWN	None	None	None	None	78177632	78179748	-1	None	None
17	None	ENSG00000207127	ENST00000384398	misc_RNA	NOVEL	None	None	None	None	47494106	47494212	-1	None	None
4	RNA5SP165	ENSG00000252951	ENST00000517142	rRNA	KNOWN	None	43065	None	None	148666454	148666568	-1	RN5S165	None
6	None	ENSG00000226249	ENST00000448909	lincRNA	KNOWN	None	None	None	None	148062570	148064460	-1	None	None
16	PRSS27	ENSG00000172382	ENST00000302641	protein_coding	KNOWN	CCDS10476	15475	873	290	2762419	2770216	-1	None	MPN, pancreasin, CAPH2, marapsin
16	PRSS27	ENSG00000172382	ENST00000543965	retained_intron	KNOWN	None	15475	None	None	2762420	2765566	-1	None	MPN, pancreasin, CAPH2, marapsin
16	PRSS27	ENSG00000172382	ENST00000565903	nonsense_mediated_decay	KNOWN	None	15475	123	40	2762425	2770552	-1	None	MPN, pancreasin, CAPH2, marapsin
16	PRSS27	ENSG00000172382	ENST00000562249	nonsense_mediated_decay	KNOWN	None	15475	123	40	2763073	2770552	-1	None	MPN, pancreasin, CAPH2, marapsin
16	PRSS27	ENSG00000172382	ENST00000566492	retained_intron	KNOWN	None	15475	None	None	2764947	2768525	-1	None	MPN, pancreasin, CAPH2, marapsin
12	NAB2	ENSG00000166886	ENST00000300131	protein_coding	KNOWN	CCDS8930	7627	1578	525	57482677	57489259	1	None	MADER
12	NAB2	ENSG00000166886	ENST00000555857	processed_transcript	PUTATIVE	None	7627	None	None	57482826	57485292	1	None	MADER
12	NAB2	ENSG00000166886	ENST00000342556	protein_coding	KNOWN	None	7627	1386	461	57482877	57489258	1	None	MADER
12	NAB2	ENSG00000166886	ENST00000554718	processed_transcript	KNOWN	None	7627	None	None	57482930	57485599	1	None	MADER
12	NAB2	ENSG00000166886	ENST00000554839	retained_intron	KNOWN	None	7627	None	None	57485932	57486929	1	None	MADER
12	NAB2	ENSG00000166886	ENST00000357680	protein_coding	KNOWN	None	7627	969	322	57482890	57489258	1	None	MADER
16	None	ENSG00000260371	ENST00000563634	protein_coding	PUTATIVE	None	None	468	155	69368994	69390209	-1	None	None
X	GAGE12I	ENSG00000241465	ENST00000415752	protein_coding	KNOWN	CCDS56601	4105	354	117	49216659	49223943	1	GAGE7B	OTTHUMG00000067390
6	None	ENSG00000253090	ENST00000517281	snoRNA	NOVEL	None	None	None	None	108306863	108306983	-1	None	None
HSCHR6_MHC_APD	EGFL8	ENSG00000240389	ENST00000414111	protein_coding	KNOWN	None	13944	882	293	32143703	32147402	1	C6orf8	NG3
HSCHR6_MHC_APD	EGFL8	ENSG00000240389	ENST00000433364	protein_coding	KNOWN	None	13944	882	293	32143725	32147402	1	C6orf8	NG3
HSCHR6_MHC_APD	EGFL8	ENSG00000240389	ENST00000418522	protein_coding	KNOWN	None	13944	775	257	32143780	32146777	1	C6orf8	NG3
HSCHR6_MHC_APD	EGFL8	ENSG00000240389	ENST00000482403	retained_intron	KNOWN	None	13944	None	None	32144356	32147402	1	C6orf8	NG3
HSCHR6_MHC_APD	EGFL8	ENSG00000240389	ENST00000492224	retained_intron	KNOWN	None	13944	None	None	32145314	32146290	1	C6orf8	NG3
HSCHR6_MHC_APD	EGFL8	ENSG00000240389	ENST00000489013	processed_transcript	KNOWN	None	13944	None	None	32146664	32147402	1	C6orf8	NG3
15	None	ENSG00000243403	ENST00000483963	processed_pseudogene	KNOWN	None	None	None	None	64885178	64885525	1	None	None
3	KLHL24	ENSG00000114796	ENST00000242810	protein_coding	KNOWN	CCDS3246	25947	1803	600	183353356	183397266	1	None	DRE1, FLJ20059
3	KLHL24	ENSG00000114796	ENST00000493074	protein_coding	KNOWN	None	25947	382	126	183353398	183368526	1	None	DRE1, FLJ20059
3	KLHL24	ENSG00000114796	ENST00000437402	protein_coding	KNOWN	None	25947	182	59	183353407	183368326	1	None	DRE1, FLJ20059
3	KLHL24	ENSG00000114796	ENST00000454495	protein_coding	KNOWN	None	25947	351	116	183353408	183368495	1	None	DRE1, FLJ20059
3	KLHL24	ENSG00000114796	ENST00000461813	processed_transcript	PUTATIVE	None	25947	None	None	183353411	183361019	1	None	DRE1, FLJ20059
3	KLHL24	ENSG00000114796	ENST00000473045	protein_coding	KNOWN	None	25947	219	72	183353411	183368363	1	None	DRE1, FLJ20059
3	KLHL24	ENSG00000114796	ENST00000468101	protein_coding	KNOWN	None	25947	234	77	183353411	183368378	1	None	DRE1, FLJ20059
3	KLHL24	ENSG00000114796	ENST00000427201	protein_coding	KNOWN	None	25947	341	112	183353411	183368485	1	None	DRE1, FLJ20059
3	KLHL24	ENSG00000114796	ENST00000482138	protein_coding	KNOWN	None	25947	402	133	183353411	183368546	1	None	DRE1, FLJ20059
3	KLHL24	ENSG00000114796	ENST00000454652	protein_coding	KNOWN	CCDS3246	25947	1803	600	183353411	183398733	1	None	DRE1, FLJ20059
3	KLHL24	ENSG00000114796	ENST00000481126	retained_intron	KNOWN	None	25947	None	None	183353423	183354238	1	None	DRE1, FLJ20059
3	KLHL24	ENSG00000114796	ENST00000475827	processed_transcript	KNOWN	None	25947	None	None	183353431	183388911	1	None	DRE1, FLJ20059
3	KLHL24	ENSG00000114796	ENST00000468001	protein_coding	KNOWN	None	25947	377	124	183354359	183368521	1	None	DRE1, FLJ20059
3	KLHL24	ENSG00000114796	ENST00000476808	protein_coding	KNOWN	None	25947	1614	537	183368145	183390796	1	None	DRE1, FLJ20059
3	KLHL24	ENSG00000114796	ENST00000492409	processed_transcript	KNOWN	None	25947	None	None	183381889	183390272	1	None	DRE1, FLJ20059
6	None	ENSG00000234675	ENST00000422023	lincRNA	KNOWN	None	None	None	None	148338558	148342110	-1	None	None
6	MTHFD2P3	ENSG00000231112	ENST00000423135	processed_pseudogene	KNOWN	None	48866	None	None	108307015	108307235	-1	None	None
7	None	ENSG00000221732	ENST00000408805	miRNA	NOVEL	None	None	None	None	140280087	140280149	1	None	None
2	DUSP2	ENSG00000158050	ENST00000288943	protein_coding	KNOWN	CCDS2016	3068	945	314	96808905	96811179	-1	None	PAC-1
2	DUSP2	ENSG00000158050	ENST00000488952	retained_intron	KNOWN	None	3068	None	None	96809468	96810356	-1	None	PAC-1
7	None	ENSG00000201354	ENST00000364484	misc_RNA	NOVEL	None	None	None	None	140309647	140309755	1	None	None
6	RPL3P7	ENSG00000225093	ENST00000417878	processed_pseudogene	KNOWN	None	36797	None	None	108325561	108326772	-1	None	None
8	None	ENSG00000253721	ENST00000520803	processed_pseudogene	KNOWN	None	None	None	None	70899650	70899932	-1	None	None
7	RN7SL771P	ENSG00000240173	ENST00000482328	misc_RNA	KNOWN	None	46787	None	None	140345644	140345924	1	None	None
12	NECAP1	ENSG00000089818	ENST00000339754	protein_coding	KNOWN	CCDS8589	24539	828	275	8234807	8250367	1	None	DKFZP566B183
12	NECAP1	ENSG00000089818	ENST00000546181	retained_intron	KNOWN	None	24539	None	None	8234824	8242996	1	None	DKFZP566B183
12	NECAP1	ENSG00000089818	ENST00000542095	retained_intron	KNOWN	None	24539	None	None	8234851	8244580	1	None	DKFZP566B183
12	NECAP1	ENSG00000089818	ENST00000545807	retained_intron	KNOWN	None	24539	None	None	8234864	8245367	1	None	DKFZP566B183
12	NECAP1	ENSG00000089818	ENST00000450991	nonsense_mediated_decay	KNOWN	None	24539	309	102	8234864	8250365	1	None	DKFZP566B183
12	NECAP1	ENSG00000089818	ENST00000544891	retained_intron	KNOWN	None	24539	None	None	8234866	8243202	1	None	DKFZP566B183
12	NECAP1	ENSG00000089818	ENST00000541948	nonsense_mediated_decay	KNOWN	None	24539	333	110	8234878	8248286	1	None	DKFZP566B183
12	NECAP1	ENSG00000089818	ENST00000540083	protein_coding	PUTATIVE	None	24539	350	115	8235383	8248296	1	None	DKFZP566B183
12	NECAP1	ENSG00000089818	ENST00000537796	retained_intron	KNOWN	None	24539	None	None	8244356	8250367	1	None	DKFZP566B183
6	None	ENSG00000271734	ENST00000607298	lincRNA	KNOWN	None	None	None	None	108351453	108351922	-1	None	None
7	NDUFB2-AS1	ENSG00000240889	ENST00000465466	antisense	KNOWN	None	40396	None	None	140395136	140396877	-1	None	None
1	FAM43B	ENSG00000183114	ENST00000332947	protein_coding	KNOWN	CCDS209	31791	990	329	20878932	20881512	1	None	FLJ44952
8	ZNF705B	ENSG00000215356	ENST00000400120	protein_coding	KNOWN	CCDS55194	32284	903	300	7783859	7809935	1	None	None
8	ZNF705B	ENSG00000215356	ENST00000443676	protein_coding	KNOWN	CCDS55194	32284	903	300	7801144	7812271	1	None	None
7	None	ENSG00000271932	ENST00000605989	snRNA	NOVEL	None	None	None	None	140583872	140583978	1	None	None
6	CDK19	ENSG00000155111	ENST00000368911	protein_coding	KNOWN	CCDS5085	19338	1509	502	110931181	111136519	-1	CDK11, CDC2L6	KIAA1028, bA346C16.3
6	CDK19	ENSG00000155111	ENST00000323817	protein_coding	KNOWN	None	19338	1329	442	110931181	111136840	-1	CDK11, CDC2L6	KIAA1028, bA346C16.3
6	CDK19	ENSG00000155111	ENST00000457688	protein_coding	KNOWN	None	19338	753	250	110944493	111136299	-1	CDK11, CDC2L6	KIAA1028, bA346C16.3
6	CDK19	ENSG00000155111	ENST00000463016	nonsense_mediated_decay	KNOWN	None	19338	367	121	110948205	111067404	-1	CDK11, CDC2L6	KIAA1028, bA346C16.3
6	CDK19	ENSG00000155111	ENST00000460913	processed_transcript	KNOWN	None	19338	None	None	110988637	111136407	-1	CDK11, CDC2L6	KIAA1028, bA346C16.3
6	CDK19	ENSG00000155111	ENST00000468997	processed_transcript	KNOWN	None	19338	None	None	111134362	111136328	-1	CDK11, CDC2L6	KIAA1028, bA346C16.3
6	CDK19	ENSG00000155111	ENST00000497709	processed_transcript	KNOWN	None	19338	None	None	111134362	111137161	-1	CDK11, CDC2L6	KIAA1028, bA346C16.3
6	CDK19	ENSG00000155111	ENST00000413605	protein_coding	KNOWN	None	19338	1137	378	110935471	110964521	-1	CDK11, CDC2L6	KIAA1028, bA346C16.3
7	None	ENSG00000271611	ENST00000603082	processed_pseudogene	KNOWN	None	None	None	None	140634667	140634810	1	None	None
15	None	ENSG00000239465	ENST00000492168	processed_pseudogene	KNOWN	None	None	None	None	64923308	64924113	-1	None	None
10	None	ENSG00000252049	ENST00000516240	snoRNA	NOVEL	None	None	None	None	23455914	23456030	1	None	None
17	None	ENSG00000262979	ENST00000576808	sense_intronic	KNOWN	None	None	None	None	78289451	78290433	1	None	None
19	ZNF835	ENSG00000127903	ENST00000537055	protein_coding	KNOWN	CCDS56105	34332	1614	537	57174020	57183128	-1	None	BC37295_3
19	ZNF835	ENSG00000127903	ENST00000601659	protein_coding	KNOWN	None	34332	277	91	57176290	57183151	-1	None	BC37295_3
7	CCT4P1	ENSG00000242703	ENST00000475327	processed_pseudogene	KNOWN	None	35151	None	None	140697752	140699600	-1	None	None
10	None	ENSG00000227537	ENST00000422120	processed_pseudogene	KNOWN	None	None	None	None	23547140	23547474	1	None	None
2	None	ENSG00000252923	ENST00000517114	snoRNA	NOVEL	None	None	None	None	197550872	197551054	-1	None	None
5	UBLCP1	ENSG00000164332	ENST00000296786	protein_coding	KNOWN	CCDS4345	28110	957	318	158690089	158713044	1	None	MGC10067, CPUB1
5	UBLCP1	ENSG00000164332	ENST00000521738	retained_intron	KNOWN	None	28110	None	None	158701396	158702341	1	None	MGC10067, CPUB1
5	UBLCP1	ENSG00000164332	ENST00000519276	retained_intron	KNOWN	None	28110	None	None	158701550	158713044	1	None	MGC10067, CPUB1
22	APOL5	ENSG00000128313	ENST00000249044	protein_coding	KNOWN	CCDS13920	14869	1302	433	36113919	36125530	1	None	APOLV
2	HNRNPA3P15	ENSG00000225636	ENST00000424470	processed_pseudogene	KNOWN	None	48761	None	None	197879714	197880739	1	None	None
14	SNORD113-5	ENSG00000272474	ENST00000607261	snoRNA	KNOWN	None	32984	None	None	101404524	101404601	1	None	14q(I-5)
17	None	ENSG00000263069	ENST00000575034	antisense	KNOWN	None	None	None	None	78325628	78388918	-1	None	None
17	None	ENSG00000263069	ENST00000572151	antisense	KNOWN	None	None	None	None	78328237	78388918	-1	None	None
17	None	ENSG00000263069	ENST00000573394	antisense	KNOWN	None	None	None	None	78354804	78388968	-1	None	None
1	CDA	ENSG00000158825	ENST00000375071	protein_coding	KNOWN	CCDS210	1712	441	146	20915441	20945401	1	None	CDD
1	CDA	ENSG00000158825	ENST00000461985	processed_transcript	KNOWN	None	1712	None	None	20915579	20945396	1	None	CDD
2	None	ENSG00000224442	ENST00000411999	processed_pseudogene	KNOWN	None	None	None	None	197893435	197894867	-1	None	None
19	None	ENSG00000269169	ENST00000594393	protein_coding	NOVEL	None	None	60	19	999601	999952	1	None	None
10	None	ENSG00000224215	ENST00000443224	antisense	KNOWN	None	None	None	None	23632886	23634110	1	None	None
8	RNU1-101P	ENSG00000212473	ENST00000391171	snRNA	KNOWN	None	48443	None	None	70990141	70990267	-1	None	None
10	None	ENSG00000231104	ENST00000451610	antisense	KNOWN	None	None	None	None	119776998	119805321	1	None	None
10	None	ENSG00000231104	ENST00000595446	antisense	KNOWN	None	None	None	None	119777030	119777810	1	None	None
10	None	ENSG00000231104	ENST00000417968	antisense	KNOWN	None	None	None	None	119799662	119804844	1	None	None
2	None	ENSG00000231621	ENST00000449346	antisense	KNOWN	None	None	None	None	198062715	198063997	1	None	None
14	None	ENSG00000252144	ENST00000516335	snoRNA	NOVEL	None	None	None	None	101405405	101405475	1	None	None
14	OR11K2P	ENSG00000258438	ENST00000553311	unprocessed_pseudogene	KNOWN	None	19635	None	None	20201514	20202461	-1	None	None
14	OR11K2P	ENSG00000258438	ENST00000593630	unprocessed_pseudogene	KNOWN	None	19635	None	None	20201535	20230044	-1	None	None
7	RNU4-74P	ENSG00000223212	ENST00000411280	snRNA	KNOWN	None	47010	None	None	140752049	140752209	1	None	None
19	None	ENSG00000268953	ENST00000598480	protein_coding	KNOWN	None	None	396	131	31640362	31640757	1	None	None
7	None	ENSG00000261778	ENST00000567392	processed_pseudogene	KNOWN	None	None	None	None	140872843	140873016	-1	None	None
10	MBL3P	ENSG00000219430	ENST00000402234	unprocessed_pseudogene	KNOWN	None	2221	None	None	81342054	81344633	-1	COLEC2	MBL
17	MIR4730	ENSG00000264961	ENST00000584535	miRNA	KNOWN	None	41880	None	None	78393218	78393293	1	None	hsa-mir-4730
2	ANKRD44-IT1	ENSG00000236977	ENST00000428191	sense_intronic	KNOWN	None	41477	None	None	198115582	198167243	-1	None	None
19	C19orf70	ENSG00000174917	ENST00000585605	processed_transcript	KNOWN	None	33702	None	None	5678432	5679774	-1	None	QIL1, P117
19	C19orf70	ENSG00000174917	ENST00000587950	protein_coding	PUTATIVE	None	33702	423	140	5678433	5680263	-1	None	QIL1, P117
19	C19orf70	ENSG00000174917	ENST00000309324	protein_coding	KNOWN	CCDS12143	33702	357	118	5678433	5680907	-1	None	QIL1, P117
19	C19orf70	ENSG00000174917	ENST00000590389	protein_coding	PUTATIVE	None	33702	333	110	5678843	5680205	-1	None	QIL1, P117
19	C19orf70	ENSG00000174917	ENST00000587589	protein_coding	PUTATIVE	None	33702	267	88	5678926	5680499	-1	None	QIL1, P117
19	C19orf70	ENSG00000174917	ENST00000590075	retained_intron	KNOWN	None	33702	None	None	5679055	5680521	-1	None	QIL1, P117
17	None	ENSG00000257950	ENST00000550383	nonsense_mediated_decay	KNOWN	None	None	1299	432	3566357	3599488	-1	None	None
17	None	ENSG00000260369	ENST00000562672	lincRNA	KNOWN	None	None	None	None	78427535	78428529	-1	None	None
15	None	ENSG00000259669	ENST00000558866	lincRNA	KNOWN	None	None	None	None	54239821	54267147	-1	None	None
15	None	ENSG00000259669	ENST00000557976	lincRNA	KNOWN	None	None	None	None	54240343	54269105	-1	None	None
15	None	ENSG00000259669	ENST00000558920	lincRNA	KNOWN	None	None	None	None	54240403	54267165	-1	None	None
6	None	ENSG00000230205	ENST00000417838	lincRNA	KNOWN	None	None	None	None	148454945	148458540	-1	None	None
17	None	ENSG00000262000	ENST00000576526	processed_pseudogene	KNOWN	None	None	None	None	78489015	78489189	1	None	None
7	None	ENSG00000261624	ENST00000568872	processed_pseudogene	KNOWN	None	None	None	None	141051777	141052568	1	None	None
15	None	ENSG00000258883	ENST00000555285	unprocessed_pseudogene	KNOWN	None	None	None	None	21893090	21903057	-1	None	None
17	SSTR2	ENSG00000180616	ENST00000579323	processed_transcript	PUTATIVE	None	11331	None	None	71161151	71165450	1	None	None
17	SSTR2	ENSG00000180616	ENST00000357585	protein_coding	KNOWN	CCDS11691	11331	1110	369	71161151	71167185	1	None	None
17	SSTR2	ENSG00000180616	ENST00000315332	protein_coding	KNOWN	None	11331	1071	356	71165459	71166870	1	None	None
19	GRIN3B	ENSG00000116032	ENST00000234389	protein_coding	KNOWN	CCDS32861	16768	3132	1043	1000418	1009731	1	None	GluN3B
19	GRIN3B	ENSG00000116032	ENST00000588335	processed_transcript	KNOWN	None	16768	None	None	1004534	1005278	1	None	GluN3B
17	None	ENSG00000271340	ENST00000603167	processed_pseudogene	KNOWN	None	None	None	None	78489457	78489612	1	None	None
6	None	ENSG00000224658	ENST00000423268	antisense	KNOWN	None	None	None	None	148558721	148604544	-1	None	None
19	MBD3L1	ENSG00000170948	ENST00000595891	protein_coding	KNOWN	CCDS12209	15774	585	194	8943074	8953995	1	MBD3L	None
19	MBD3L1	ENSG00000170948	ENST00000305625	protein_coding	KNOWN	CCDS12209	15774	585	194	8953269	8954016	1	MBD3L	None
17	RPL32P31	ENSG00000213128	ENST00000471666	processed_pseudogene	KNOWN	None	37035	None	None	78516003	78516405	1	None	None
6	RNU6-1222P	ENSG00000207345	ENST00000384615	snRNA	KNOWN	None	48185	None	None	148599808	148599914	1	None	None
14	OR4H12P	ENSG00000176312	ENST00000556269	unprocessed_pseudogene	KNOWN	None	19433	None	None	20228027	20228933	1	OR4H12	C14orf14
14	OR4H12P	ENSG00000176312	ENST00000316004	unprocessed_pseudogene	KNOWN	None	19433	None	None	20228069	20228947	1	OR4H12	C14orf14
1	None	ENSG00000238164	ENST00000449660	lincRNA	KNOWN	None	None	None	None	2481359	2483545	-1	None	None
1	None	ENSG00000238164	ENST00000443892	lincRNA	KNOWN	None	None	None	None	2481359	2485684	-1	None	None
1	None	ENSG00000238164	ENST00000416860	antisense	KNOWN	None	None	None	None	2481359	2488450	-1	None	None
1	None	ENSG00000238164	ENST00000448624	lincRNA	KNOWN	None	None	None	None	2481513	2483037	-1	None	None
1	None	ENSG00000238164	ENST00000432521	lincRNA	KNOWN	None	None	None	None	2481722	2485589	-1	None	None
1	None	ENSG00000238164	ENST00000452793	antisense	KNOWN	None	None	None	None	2485680	2488470	-1	None	None
8	None	ENSG00000268955	ENST00000594215	protein_coding	NOVEL	None	None	174	57	8046158	8046331	-1	None	None
2	ATP5G2P3	ENSG00000230482	ENST00000429083	processed_pseudogene	KNOWN	None	42187	None	None	198127835	198128259	1	None	None
17	ATXN7L3	ENSG00000087152	ENST00000591295	protein_coding	NOVEL	None	25416	559	185	42269173	42273421	-1	None	DKFZp761G2113
17	ATXN7L3	ENSG00000087152	ENST00000454077	protein_coding	KNOWN	CCDS45697	25416	1065	354	42269173	42275438	-1	None	DKFZp761G2113
17	ATXN7L3	ENSG00000087152	ENST00000389384	protein_coding	KNOWN	CCDS42345	25416	1044	347	42269173	42275747	-1	None	DKFZp761G2113
17	ATXN7L3	ENSG00000087152	ENST00000593073	processed_transcript	KNOWN	None	25416	None	None	42271608	42277481	-1	None	DKFZp761G2113
17	ATXN7L3	ENSG00000087152	ENST00000586688	retained_intron	KNOWN	None	25416	None	None	42271739	42272661	-1	None	DKFZp761G2113
17	ATXN7L3	ENSG00000087152	ENST00000587097	protein_coding	KNOWN	None	25416	924	307	42271751	42277220	-1	None	DKFZp761G2113
17	ATXN7L3	ENSG00000087152	ENST00000590537	protein_coding	PUTATIVE	None	25416	218	71	42271908	42273534	-1	None	DKFZp761G2113
17	ATXN7L3	ENSG00000087152	ENST00000589607	retained_intron	KNOWN	None	25416	None	None	42272019	42273531	-1	None	DKFZp761G2113
17	ATXN7L3	ENSG00000087152	ENST00000591807	retained_intron	KNOWN	None	25416	None	None	42272025	42272844	-1	None	DKFZp761G2113
17	ATXN7L3	ENSG00000087152	ENST00000587022	retained_intron	KNOWN	None	25416	None	None	42272489	42273581	-1	None	DKFZp761G2113
17	ATXN7L3	ENSG00000087152	ENST00000590169	protein_coding	KNOWN	None	25416	442	146	42274309	42275879	-1	None	DKFZp761G2113
17	ATXN7L3	ENSG00000087152	ENST00000589805	protein_coding	KNOWN	None	25416	419	138	42274332	42276574	-1	None	DKFZp761G2113
15	CKMT1A	ENSG00000223572	ENST00000434505	protein_coding	KNOWN	CCDS32217	31736	1254	417	43985084	43991420	1	CKMT1	None
15	CKMT1A	ENSG00000223572	ENST00000411750	protein_coding	KNOWN	None	31736	444	147	43985098	43987499	1	CKMT1	None
15	CKMT1A	ENSG00000223572	ENST00000457648	nonsense_mediated_decay	KNOWN	None	31736	210	69	43985238	43987478	1	CKMT1	None
15	CKMT1A	ENSG00000223572	ENST00000413453	protein_coding	KNOWN	CCDS32217	31736	1254	417	43985725	43991420	1	CKMT1	None
15	CKMT1A	ENSG00000223572	ENST00000415044	protein_coding	NOVEL	None	31736	665	220	43986069	43988013	1	CKMT1	None
15	CKMT1A	ENSG00000223572	ENST00000483604	processed_transcript	KNOWN	None	31736	None	None	43987330	43988047	1	CKMT1	None
15	CKMT1A	ENSG00000223572	ENST00000479938	retained_intron	KNOWN	None	31736	None	None	43987995	43989169	1	CKMT1	None
X	MTND5P26	ENSG00000234886	ENST00000426018	processed_pseudogene	KNOWN	None	42295	None	None	102057969	102061066	1	None	None
2	None	ENSG00000225979	ENST00000442984	antisense	KNOWN	None	None	None	None	198176117	198177464	1	None	None
HG905_PATCH	TUBB8	ENSG00000261456	ENST00000564130	protein_coding	PUTATIVE	None	20773	1233	410	96892	100113	-1	None	bA631M21.2
HG905_PATCH	TUBB8	ENSG00000261456	ENST00000568866	protein_coding	NOVEL	None	20773	1224	407	96953	99277	-1	None	bA631M21.2
HG905_PATCH	TUBB8	ENSG00000261456	ENST00000568584	protein_coding	KNOWN	None	20773	1335	444	96953	99589	-1	None	bA631M21.2
HG905_PATCH	TUBB8	ENSG00000261456	ENST00000561967	protein_coding	PUTATIVE	None	20773	360	119	97057	99293	-1	None	bA631M21.2
HG905_PATCH	TUBB8	ENSG00000261456	ENST00000562809	protein_coding	PUTATIVE	None	20773	228	75	97494	99269	-1	None	bA631M21.2
HG905_PATCH	TUBB8	ENSG00000261456	ENST00000567466	nonsense_mediated_decay	KNOWN	None	20773	270	89	97578	99521	-1	None	bA631M21.2
HG905_PATCH	TUBB8	ENSG00000261456	ENST00000563456	retained_intron	KNOWN	None	20773	None	None	97705	99269	-1	None	bA631M21.2
14	RPSAP4	ENSG00000239269	ENST00000488229	processed_pseudogene	KNOWN	None	20018	None	None	95192625	95193512	1	LAMR1P4	None
X	None	ENSG00000265819	ENST00000577374	miRNA	NOVEL	None	None	None	None	22655109	22655194	1	None	None
19	TSHZ3	ENSG00000121297	ENST00000240587	protein_coding	KNOWN	CCDS12421	30700	3246	1081	31765851	31840453	-1	ZNF537	KIAA1474, TSH3
19	TSHZ3	ENSG00000121297	ENST00000560707	nonsense_mediated_decay	KNOWN	None	30700	107	34	31770100	31796669	-1	ZNF537	KIAA1474, TSH3
19	TSHZ3	ENSG00000121297	ENST00000558569	protein_coding	PUTATIVE	None	30700	102	33	31799251	31840161	-1	ZNF537	KIAA1474, TSH3
13	None	ENSG00000268735	ENST00000601943	protein_coding	NOVEL	None	None	96	31	24322243	24323901	1	None	None
2	TMEM178A	ENSG00000152154	ENST00000437068	processed_transcript	KNOWN	None	28517	None	None	39892122	39934276	1	TMEM178	MGC33926
2	TMEM178A	ENSG00000152154	ENST00000482239	processed_transcript	KNOWN	None	28517	None	None	39892638	39944590	1	TMEM178	MGC33926
2	TMEM178A	ENSG00000152154	ENST00000281961	protein_coding	KNOWN	CCDS1804	28517	894	297	39893059	39945103	1	TMEM178	MGC33926
2	TMEM178A	ENSG00000152154	ENST00000413011	processed_transcript	KNOWN	None	28517	None	None	39914447	39944349	1	TMEM178	MGC33926
2	TMEM178A	ENSG00000152154	ENST00000495402	processed_transcript	KNOWN	None	28517	None	None	39924953	39944233	1	TMEM178	MGC33926
X	None	ENSG00000237019	ENST00000442155	lincRNA	KNOWN	None	None	None	None	22716574	22787083	1	None	None
6	None	ENSG00000212532	ENST00000391230	snoRNA	NOVEL	None	None	None	None	51329488	51329563	1	None	None
2	NPM1P46	ENSG00000213104	ENST00000399556	processed_pseudogene	KNOWN	None	45225	None	None	198244425	198245616	-1	None	None
17	None	ENSG00000229944	ENST00000422816	processed_pseudogene	KNOWN	None	None	None	None	47501631	47502284	-1	None	None
17	None	ENSG00000229944	ENST00000398202	processed_pseudogene	KNOWN	None	None	None	None	47500970	47502298	-1	None	None
3	ZNF660	ENSG00000144792	ENST00000416644	protein_coding	KNOWN	None	26720	118	38	44619715	44635803	1	None	FLJ36870
3	ZNF660	ENSG00000144792	ENST00000468987	retained_intron	KNOWN	None	26720	None	None	44626454	44628194	1	None	FLJ36870
3	ZNF660	ENSG00000144792	ENST00000441021	protein_coding	KNOWN	None	26720	102	33	44626456	44635787	1	None	FLJ36870
3	ZNF660	ENSG00000144792	ENST00000322734	protein_coding	KNOWN	CCDS2716	26720	996	331	44626456	44641186	1	None	FLJ36870
6	None	ENSG00000214641	ENST00000398713	processed_pseudogene	KNOWN	None	None	None	None	51401953	51402341	-1	None	None
10	CASC2	ENSG00000177640	ENST00000414722	antisense	KNOWN	None	22933	None	None	119805790	119966171	1	C10orf5	None
10	CASC2	ENSG00000177640	ENST00000435944	antisense	KNOWN	None	22933	None	None	119806335	119969663	1	C10orf5	None
10	CASC2	ENSG00000177640	ENST00000426021	antisense	KNOWN	None	22933	None	None	119806505	119815736	1	C10orf5	None
10	CASC2	ENSG00000177640	ENST00000454781	antisense	KNOWN	None	22933	None	None	119806515	119859650	1	C10orf5	None
10	CASC2	ENSG00000177640	ENST00000454857	antisense	KNOWN	None	22933	None	None	119806535	119966501	1	C10orf5	None
10	CASC2	ENSG00000177640	ENST00000439517	antisense	KNOWN	None	22933	None	None	119809125	119967332	1	C10orf5	None
2	None	ENSG00000202434	ENST00000365564	snoRNA	NOVEL	None	None	None	None	198269442	198269578	1	None	None
7	USP42	ENSG00000106346	ENST00000306177	protein_coding	KNOWN	CCDS47535	20068	3951	1316	6144515	6201195	1	None	FLJ12697
7	USP42	ENSG00000106346	ENST00000404008	nonsense_mediated_decay	KNOWN	None	20068	525	174	6144581	6185206	1	None	FLJ12697
7	USP42	ENSG00000106346	ENST00000479544	retained_intron	KNOWN	None	20068	None	None	6144606	6196962	1	None	FLJ12697
7	USP42	ENSG00000106346	ENST00000451154	nonsense_mediated_decay	KNOWN	None	20068	297	98	6144608	6155012	1	None	FLJ12697
7	USP42	ENSG00000106346	ENST00000465073	protein_coding	NOVEL	None	20068	1425	474	6144608	6189453	1	None	FLJ12697
7	USP42	ENSG00000106346	ENST00000521713	nonsense_mediated_decay	KNOWN	None	20068	660	219	6144653	6200262	1	None	FLJ12697
7	USP42	ENSG00000106346	ENST00000426246	protein_coding	PUTATIVE	None	20068	3131	1042	6156111	6194778	1	None	FLJ12697
17	RPL31P7	ENSG00000232083	ENST00000448339	processed_pseudogene	KNOWN	None	31325	None	None	78576349	78576726	-1	None	None
17	RPL31P7	ENSG00000232083	ENST00000545500	processed_pseudogene	KNOWN	None	31325	None	None	78576349	78576741	-1	None	None
20	BPI	ENSG00000101425	ENST00000418004	protein_coding	PUTATIVE	None	1095	370	122	36888551	36932734	1	None	BPIFD1
20	BPI	ENSG00000101425	ENST00000451435	protein_coding	PUTATIVE	None	1095	288	95	36888577	36922294	1	None	BPIFD1
20	BPI	ENSG00000101425	ENST00000479646	processed_transcript	KNOWN	None	1095	None	None	36888608	36917349	1	None	BPIFD1
20	BPI	ENSG00000101425	ENST00000262865	protein_coding	KNOWN	CCDS13303	1095	1464	487	36932525	36965907	1	None	BPIFD1
20	BPI	ENSG00000101425	ENST00000417318	protein_coding	NOVEL	None	1095	941	312	36946051	36965727	1	None	BPIFD1
20	BPI	ENSG00000101425	ENST00000489102	processed_transcript	KNOWN	None	1095	None	None	36946074	36964043	1	None	BPIFD1
20	BPI	ENSG00000101425	ENST00000489039	processed_transcript	KNOWN	None	1095	None	None	36948188	36950210	1	None	BPIFD1
20	BPI	ENSG00000101425	ENST00000490381	processed_transcript	KNOWN	None	1095	None	None	36963875	36965663	1	None	BPIFD1
2	GNLY	ENSG00000115523	ENST00000488945	retained_intron	KNOWN	None	4414	None	None	85912298	85923853	1	LAG2	NKG5, LAG-2, D2S69E, TLA519
2	GNLY	ENSG00000115523	ENST00000263863	protein_coding	KNOWN	CCDS1984	4414	438	145	85921414	85925977	1	LAG2	NKG5, LAG-2, D2S69E, TLA519
2	GNLY	ENSG00000115523	ENST00000489214	retained_intron	KNOWN	None	4414	None	None	85921416	85923514	1	LAG2	NKG5, LAG-2, D2S69E, TLA519
2	GNLY	ENSG00000115523	ENST00000482900	retained_intron	KNOWN	None	4414	None	None	85921425	85923558	1	LAG2	NKG5, LAG-2, D2S69E, TLA519
2	GNLY	ENSG00000115523	ENST00000464298	retained_intron	KNOWN	None	4414	None	None	85921451	85923617	1	LAG2	NKG5, LAG-2, D2S69E, TLA519
2	GNLY	ENSG00000115523	ENST00000470974	retained_intron	KNOWN	None	4414	None	None	85921455	85923229	1	LAG2	NKG5, LAG-2, D2S69E, TLA519
2	GNLY	ENSG00000115523	ENST00000489980	retained_intron	KNOWN	None	4414	None	None	85921465	85925870	1	LAG2	NKG5, LAG-2, D2S69E, TLA519
2	GNLY	ENSG00000115523	ENST00000524600	protein_coding	NOVEL	None	4414	519	172	85921481	85925867	1	LAG2	NKG5, LAG-2, D2S69E, TLA519
2	GNLY	ENSG00000115523	ENST00000533041	processed_transcript	KNOWN	None	4414	None	None	85921503	85923920	1	LAG2	NKG5, LAG-2, D2S69E, TLA519
2	GNLY	ENSG00000115523	ENST00000534351	processed_transcript	KNOWN	None	4414	None	None	85921549	85924224	1	LAG2	NKG5, LAG-2, D2S69E, TLA519
2	GNLY	ENSG00000115523	ENST00000409696	protein_coding	KNOWN	CCDS46354	4414	393	130	85921549	85925880	1	LAG2	NKG5, LAG-2, D2S69E, TLA519
2	GNLY	ENSG00000115523	ENST00000491234	retained_intron	KNOWN	None	4414	None	None	85922027	85923655	1	LAG2	NKG5, LAG-2, D2S69E, TLA519
2	GNLY	ENSG00000115523	ENST00000531685	retained_intron	KNOWN	None	4414	None	None	85922260	85923516	1	LAG2	NKG5, LAG-2, D2S69E, TLA519
2	GNLY	ENSG00000115523	ENST00000526018	protein_coding	PUTATIVE	None	4414	561	186	85922491	85925870	1	LAG2	NKG5, LAG-2, D2S69E, TLA519
2	RNU6-1029P	ENSG00000206836	ENST00000384109	snRNA	KNOWN	None	47992	None	None	198312469	198312575	1	None	None
1	PINK1	ENSG00000158828	ENST00000321556	protein_coding	KNOWN	CCDS211	14581	1746	581	20959948	20978004	1	PARK6	None
1	PINK1	ENSG00000158828	ENST00000492302	processed_transcript	KNOWN	None	14581	None	None	20964622	20977809	1	PARK6	None
1	PINK1	ENSG00000158828	ENST00000400490	processed_transcript	KNOWN	None	14581	None	None	20972001	20978003	1	PARK6	None
HSCHR6_MHC_MANN	PRRT1	ENSG00000229488	ENST00000476591	processed_transcript	KNOWN	None	13943	None	None	32155583	32157081	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_MANN	PRRT1	ENSG00000229488	ENST00000483016	retained_intron	KNOWN	None	13943	None	None	32155583	32159147	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_MANN	PRRT1	ENSG00000229488	ENST00000488112	processed_transcript	KNOWN	None	13943	None	None	32155583	32159161	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_MANN	PRRT1	ENSG00000229488	ENST00000456814	protein_coding	KNOWN	None	13943	921	306	32155583	32159176	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_MANN	PRRT1	ENSG00000229488	ENST00000425739	protein_coding	KNOWN	None	13943	678	225	32155583	32160307	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_MANN	PRRT1	ENSG00000229488	ENST00000419839	protein_coding	KNOWN	None	13943	188	61	32157719	32161597	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_MANN	PRRT1	ENSG00000229488	ENST00000469527	processed_transcript	KNOWN	None	13943	None	None	32159205	32161184	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_MANN	PRRT1	ENSG00000229488	ENST00000463187	processed_transcript	KNOWN	None	13943	None	None	32160026	32161132	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_MANN	PRRT1	ENSG00000229488	ENST00000497420	processed_transcript	KNOWN	None	13943	None	None	32160026	32161557	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_MANN	PRRT1	ENSG00000229488	ENST00000498291	processed_transcript	KNOWN	None	13943	None	None	32160026	32161589	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_MANN	PRRT1	ENSG00000229488	ENST00000474285	processed_transcript	KNOWN	None	13943	None	None	32160564	32161563	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_MANN	PRRT1	ENSG00000229488	ENST00000467682	processed_transcript	PUTATIVE	None	13943	None	None	32160609	32161550	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_MANN	PRRT1	ENSG00000229488	ENST00000551958	protein_coding	KNOWN	None	13943	678	225	32155588	32159326	-1	C6orf31	NG5, IFITMD7
17	None	ENSG00000249497	ENST00000509950	lincRNA	KNOWN	None	None	None	None	47535223	47539111	-1	None	None
8	None	ENSG00000182319	ENST00000520004	protein_coding	KNOWN	CCDS43706	None	4209	1402	8175259	8244008	-1	None	None
8	None	ENSG00000182319	ENST00000330777	protein_coding	KNOWN	CCDS43706	None	4209	1402	8175258	8239257	-1	None	None
2	None	ENSG00000231699	ENST00000447385	processed_pseudogene	KNOWN	None	None	None	None	198398527	198398689	1	None	None
15	None	ENSG00000237161	ENST00000556425	processed_pseudogene	KNOWN	None	None	None	None	21936563	21938111	-1	None	None
15	None	ENSG00000237161	ENST00000431494	processed_pseudogene	KNOWN	None	None	None	None	21936560	21937408	-1	None	None
2	None	ENSG00000237035	ENST00000448977	lincRNA	KNOWN	None	None	None	None	199052526	199056245	-1	None	None
2	None	ENSG00000237035	ENST00000422899	lincRNA	KNOWN	None	None	None	None	199055688	199056241	-1	None	None
13	C1QTNF9B	ENSG00000205863	ENST00000382145	protein_coding	PUTATIVE	None	34072	300	99	24465238	24471641	-1	None	CTRP9B
13	C1QTNF9B	ENSG00000205863	ENST00000556521	processed_transcript	KNOWN	None	34072	None	None	24465388	24471194	-1	None	CTRP9B
13	C1QTNF9B	ENSG00000205863	ENST00000382140	protein_coding	KNOWN	CCDS31947	34072	1002	333	24465428	24476794	-1	None	CTRP9B
13	C1QTNF9B	ENSG00000205863	ENST00000382137	protein_coding	KNOWN	CCDS31947	34072	1002	333	24465388	24471194	-1	None	CTRP9B
13	C1QTNF9B	ENSG00000205863	ENST00000382057	protein_coding	KNOWN	None	34072	300	99	24465616	24471194	-1	None	CTRP9B
17	None	ENSG00000249906	ENST00000514506	antisense	KNOWN	None	None	None	None	47583019	47651426	-1	None	None
6	None	ENSG00000228689	ENST00000589278	antisense	KNOWN	None	None	None	None	51464600	51487339	1	None	None
6	None	ENSG00000228689	ENST00000454361	antisense	KNOWN	None	None	None	None	51470063	51487682	1	None	None
6	None	ENSG00000228689	ENST00000587000	antisense	KNOWN	None	None	None	None	51486633	51487339	1	None	None
19	HSPBP1	ENSG00000133265	ENST00000255631	protein_coding	KNOWN	CCDS33111	24989	1080	359	55773599	55791728	-1	None	HspBP1, FES1
19	HSPBP1	ENSG00000133265	ENST00000433386	protein_coding	KNOWN	CCDS33111	24989	1080	359	55773721	55791545	-1	None	HspBP1, FES1
19	HSPBP1	ENSG00000133265	ENST00000587922	protein_coding	KNOWN	CCDS33111	24989	1080	359	55773855	55791224	-1	None	HspBP1, FES1
19	HSPBP1	ENSG00000133265	ENST00000585927	protein_coding	NOVEL	None	24989	570	189	55774008	55791072	-1	None	HspBP1, FES1
19	HSPBP1	ENSG00000133265	ENST00000587959	protein_coding	NOVEL	None	24989	292	96	55777604	55791058	-1	None	HspBP1, FES1
19	HSPBP1	ENSG00000133265	ENST00000593263	protein_coding	KNOWN	None	24989	642	213	55785764	55791445	-1	None	HspBP1, FES1
19	HSPBP1	ENSG00000133265	ENST00000585698	protein_coding	KNOWN	None	24989	413	136	55789012	55791224	-1	None	HspBP1, FES1
19	HSPBP1	ENSG00000133265	ENST00000588971	protein_coding	KNOWN	None	24989	410	135	55789015	55791700	-1	None	HspBP1, FES1
19	HSPBP1	ENSG00000133265	ENST00000587551	protein_coding	KNOWN	None	24989	95	30	55790882	55791749	-1	None	HspBP1, FES1
19	HSPBP1	ENSG00000133265	ENST00000376343	protein_coding	KNOWN	None	24989	774	257	55773724	55791479	-1	None	HspBP1, FES1
17	None	ENSG00000262833	ENST00000570335	antisense	KNOWN	None	None	None	None	78775440	78779432	-1	None	None
19	TCF3	ENSG00000071564	ENST00000592395	nonsense_mediated_decay	KNOWN	None	11633	156	51	1609291	1615797	-1	None	E2A, ITF1, MGC129647, MGC129648, bHLHb21, VDIR, E47
19	TCF3	ENSG00000071564	ENST00000262965	protein_coding	KNOWN	CCDS12074	11633	1965	654	1609293	1652604	-1	None	E2A, ITF1, MGC129647, MGC129648, bHLHb21, VDIR, E47
19	TCF3	ENSG00000071564	ENST00000587425	protein_coding	KNOWN	None	11633	492	163	1609471	1615797	-1	None	E2A, ITF1, MGC129647, MGC129648, bHLHb21, VDIR, E47
19	TCF3	ENSG00000071564	ENST00000453954	protein_coding	PUTATIVE	None	11633	1701	566	1609549	1632040	-1	None	E2A, ITF1, MGC129647, MGC129648, bHLHb21, VDIR, E47
19	TCF3	ENSG00000071564	ENST00000592628	protein_coding	KNOWN	None	11633	540	179	1610190	1619134	-1	None	E2A, ITF1, MGC129647, MGC129648, bHLHb21, VDIR, E47
19	TCF3	ENSG00000071564	ENST00000593064	protein_coding	KNOWN	None	11633	614	203	1610966	1619208	-1	None	E2A, ITF1, MGC129647, MGC129648, bHLHb21, VDIR, E47
19	TCF3	ENSG00000071564	ENST00000585731	protein_coding	KNOWN	None	11633	426	141	1611056	1615740	-1	None	E2A, ITF1, MGC129647, MGC129648, bHLHb21, VDIR, E47
19	TCF3	ENSG00000071564	ENST00000395423	protein_coding	NOVEL	None	11633	1977	658	1611248	1650275	-1	None	E2A, ITF1, MGC129647, MGC129648, bHLHb21, VDIR, E47
19	TCF3	ENSG00000071564	ENST00000588136	protein_coding	KNOWN	CCDS45899	11633	1956	651	1611248	1650744	-1	None	E2A, ITF1, MGC129647, MGC129648, bHLHb21, VDIR, E47
19	TCF3	ENSG00000071564	ENST00000590684	protein_coding	PUTATIVE	None	11633	480	159	1611509	1615797	-1	None	E2A, ITF1, MGC129647, MGC129648, bHLHb21, VDIR, E47
19	TCF3	ENSG00000071564	ENST00000586164	nonsense_mediated_decay	KNOWN	None	11633	156	51	1611754	1615797	-1	None	E2A, ITF1, MGC129647, MGC129648, bHLHb21, VDIR, E47
19	TCF3	ENSG00000071564	ENST00000585855	nonsense_mediated_decay	KNOWN	None	11633	249	82	1611805	1619149	-1	None	E2A, ITF1, MGC129647, MGC129648, bHLHb21, VDIR, E47
19	TCF3	ENSG00000071564	ENST00000590605	retained_intron	KNOWN	None	11633	None	None	1615790	1619854	-1	None	E2A, ITF1, MGC129647, MGC129648, bHLHb21, VDIR, E47
19	TCF3	ENSG00000071564	ENST00000590436	protein_coding	NOVEL	None	11633	338	111	1615791	1620994	-1	None	E2A, ITF1, MGC129647, MGC129648, bHLHb21, VDIR, E47
19	TCF3	ENSG00000071564	ENST00000586410	protein_coding	NOVEL	None	11633	279	92	1619109	1621046	-1	None	E2A, ITF1, MGC129647, MGC129648, bHLHb21, VDIR, E47
19	TCF3	ENSG00000071564	ENST00000587235	protein_coding	NOVEL	None	11633	639	212	1623947	1652590	-1	None	E2A, ITF1, MGC129647, MGC129648, bHLHb21, VDIR, E47
19	TCF3	ENSG00000071564	ENST00000586318	protein_coding	KNOWN	None	11633	285	94	1632050	1651355	-1	None	E2A, ITF1, MGC129647, MGC129648, bHLHb21, VDIR, E47
19	TCF3	ENSG00000071564	ENST00000344749	protein_coding	KNOWN	CCDS45899	11633	1956	651	1609293	1652326	-1	None	E2A, ITF1, MGC129647, MGC129648, bHLHb21, VDIR, E47
7	None	ENSG00000223974	ENST00000454982	processed_pseudogene	KNOWN	None	None	None	None	64011876	64012444	1	None	None
2	None	ENSG00000236653	ENST00000456248	lincRNA	KNOWN	None	None	None	None	199164087	199239273	-1	None	None
2	None	ENSG00000236653	ENST00000451266	lincRNA	KNOWN	None	None	None	None	199166132	199179438	-1	None	None
2	None	ENSG00000236653	ENST00000443261	lincRNA	KNOWN	None	None	None	None	199239200	199239821	-1	None	None
14	None	ENSG00000238492	ENST00000459438	snoRNA	NOVEL	None	None	None	None	20232066	20232166	-1	None	None
17	None	ENSG00000262313	ENST00000576032	antisense	KNOWN	None	None	None	None	78914218	78915833	-1	None	None
8	GRINA	ENSG00000178719	ENST00000529301	protein_coding	KNOWN	None	4589	822	273	145064251	145066541	1	NMDARA1	HNRGW, TMBIM3, LFG1
8	GRINA	ENSG00000178719	ENST00000395068	protein_coding	KNOWN	CCDS34961	4589	1116	371	145064268	145067583	1	NMDARA1	HNRGW, TMBIM3, LFG1
8	GRINA	ENSG00000178719	ENST00000530898	protein_coding	KNOWN	None	4589	303	100	145064845	145065694	1	NMDARA1	HNRGW, TMBIM3, LFG1
8	GRINA	ENSG00000178719	ENST00000531992	retained_intron	KNOWN	None	4589	None	None	145065462	145066131	1	NMDARA1	HNRGW, TMBIM3, LFG1
8	GRINA	ENSG00000178719	ENST00000534791	protein_coding	PUTATIVE	None	4589	1050	349	145065622	145067007	1	NMDARA1	HNRGW, TMBIM3, LFG1
8	GRINA	ENSG00000178719	ENST00000525513	retained_intron	KNOWN	None	4589	None	None	145065701	145066676	1	NMDARA1	HNRGW, TMBIM3, LFG1
8	GRINA	ENSG00000178719	ENST00000533044	protein_coding	PUTATIVE	None	4589	564	187	145065724	145066990	1	NMDARA1	HNRGW, TMBIM3, LFG1
8	GRINA	ENSG00000178719	ENST00000527194	protein_coding	PUTATIVE	None	4589	553	183	145065915	145067262	1	NMDARA1	HNRGW, TMBIM3, LFG1
8	GRINA	ENSG00000178719	ENST00000533377	retained_intron	KNOWN	None	4589	None	None	145066342	145067142	1	NMDARA1	HNRGW, TMBIM3, LFG1
8	GRINA	ENSG00000178719	ENST00000313269	protein_coding	KNOWN	CCDS34961	4589	1116	371	145064226	145067583	1	NMDARA1	HNRGW, TMBIM3, LFG1
12	TMPO	ENSG00000120802	ENST00000556029	protein_coding	KNOWN	CCDS31879	11875	1365	454	98909290	98944157	1	None	TP, LAP2, LEMD4
12	TMPO	ENSG00000120802	ENST00000548911	processed_transcript	PUTATIVE	None	11875	None	None	98909357	98921791	1	None	TP, LAP2, LEMD4
12	TMPO	ENSG00000120802	ENST00000343315	protein_coding	NOVEL	None	11875	1245	414	98909396	98942606	1	None	TP, LAP2, LEMD4
12	TMPO	ENSG00000120802	ENST00000266732	protein_coding	KNOWN	CCDS9064	11875	2085	694	98909408	98929412	1	None	TP, LAP2, LEMD4
12	TMPO	ENSG00000120802	ENST00000393053	protein_coding	KNOWN	CCDS31880	11875	1038	345	98909409	98942735	1	None	TP, LAP2, LEMD4
12	TMPO	ENSG00000120802	ENST00000546828	processed_transcript	KNOWN	None	11875	None	None	98909410	98925557	1	None	TP, LAP2, LEMD4
12	TMPO	ENSG00000120802	ENST00000261210	protein_coding	NOVEL	None	11875	747	248	98909630	98931491	1	None	TP, LAP2, LEMD4
12	TMPO	ENSG00000120802	ENST00000549938	processed_transcript	KNOWN	None	11875	None	None	98910030	98926744	1	None	TP, LAP2, LEMD4
12	TMPO	ENSG00000120802	ENST00000552831	retained_intron	KNOWN	None	11875	None	None	98921307	98931352	1	None	TP, LAP2, LEMD4
12	TMPO	ENSG00000120802	ENST00000547214	processed_transcript	PUTATIVE	None	11875	None	None	98921663	98926050	1	None	TP, LAP2, LEMD4
12	TMPO	ENSG00000120802	ENST00000556678	protein_coding	NOVEL	None	11875	713	236	98921664	98941479	1	None	TP, LAP2, LEMD4
12	TMPO	ENSG00000120802	ENST00000548223	processed_transcript	KNOWN	None	11875	None	None	98937980	98941642	1	None	TP, LAP2, LEMD4
12	TMPO	ENSG00000120802	ENST00000551987	retained_intron	KNOWN	None	11875	None	None	98938417	98941565	1	None	TP, LAP2, LEMD4
10	MIR1254-2	ENSG00000264574	ENST00000579553	miRNA	KNOWN	None	41770	None	None	23682334	23682396	1	None	hsa-mir-1254-2
17	None	ENSG00000250310	ENST00000503624	antisense	KNOWN	None	None	None	None	47622209	47655324	-1	None	None
X	RPL23AP83	ENSG00000234135	ENST00000434984	processed_pseudogene	KNOWN	None	35846	None	None	56269370	56269842	-1	None	None
1	CLCA4	ENSG00000016602	ENST00000370563	protein_coding	KNOWN	CCDS41355	2018	2760	919	87012761	87046437	1	None	CaCC2
1	CLCA4	ENSG00000016602	ENST00000496322	processed_transcript	KNOWN	None	2018	None	None	87036799	87038639	1	None	CaCC2
1	CLCA4	ENSG00000016602	ENST00000263723	protein_coding	KNOWN	None	2018	714	237	87012926	87038841	1	None	CaCC2
8	None	ENSG00000254269	ENST00000520524	lincRNA	KNOWN	None	None	None	None	1054882	1212580	1	None	None
8	None	ENSG00000254269	ENST00000522989	lincRNA	KNOWN	None	None	None	None	1200373	1212580	1	None	None
8	None	ENSG00000254269	ENST00000522626	retained_intron	KNOWN	None	None	None	None	1209579	1212580	1	None	None
10	None	ENSG00000238515	ENST00000459569	snoRNA	NOVEL	None	None	None	None	23688460	23688528	-1	None	None
7	None	ENSG00000235349	ENST00000396562	processed_pseudogene	KNOWN	None	None	None	None	64027192	64027821	-1	None	None
17	None	ENSG00000252789	ENST00000516980	miRNA	NOVEL	None	None	None	None	47638364	47638447	-1	None	None
17	None	ENSG00000262662	ENST00000571591	antisense	KNOWN	None	None	None	None	78934566	78935513	-1	None	None
10	None	ENSG00000223928	ENST00000422734	processed_pseudogene	KNOWN	None	None	None	None	24446764	24447710	1	None	None
17	None	ENSG00000250751	ENST00000512720	antisense	KNOWN	None	None	None	None	47785696	47797422	1	None	None
7	None	ENSG00000213642	ENST00000409132	processed_pseudogene	KNOWN	None	None	None	None	64029806	64030815	-1	None	None
2	None	ENSG00000225421	ENST00000440609	lincRNA	KNOWN	None	None	None	None	199417919	199637080	-1	None	None
HG987_PATCH	KCNJ18	ENSG00000260458	ENST00000563509	protein_coding	NOVEL	None	39080	1302	433	21595835	21607924	1	None	KIR2.6, TTPP2
5	XRCC4	ENSG00000152422	ENST00000338635	protein_coding	KNOWN	CCDS4059	12831	1011	336	82373346	82649530	1	None	None
5	XRCC4	ENSG00000152422	ENST00000542685	processed_transcript	KNOWN	None	12831	None	None	82373376	82606888	1	None	None
5	XRCC4	ENSG00000152422	ENST00000396027	protein_coding	KNOWN	CCDS4058	12831	1005	334	82373389	82649530	1	None	None
5	XRCC4	ENSG00000152422	ENST00000511817	protein_coding	NOVEL	CCDS4059	12831	1011	336	82373412	82649606	1	None	None
5	XRCC4	ENSG00000152422	ENST00000509268	processed_transcript	KNOWN	None	12831	None	None	82400727	82555158	1	None	None
5	XRCC4	ENSG00000152422	ENST00000282268	protein_coding	KNOWN	CCDS4058	12831	1005	334	82373317	82649577	1	None	None
17	None	ENSG00000261924	ENST00000576234	antisense	KNOWN	None	None	None	None	78940039	78945013	-1	None	None
17	None	ENSG00000261924	ENST00000573602	antisense	KNOWN	None	None	None	None	78942020	78944878	-1	None	None
5	None	ENSG00000249380	ENST00000503549	processed_pseudogene	KNOWN	None	None	None	None	34373133	34373955	1	None	None
11	RAG1	ENSG00000166349	ENST00000529126	processed_transcript	KNOWN	None	9831	None	None	36532259	36557562	1	None	RNF74, MGC43321
11	RAG1	ENSG00000166349	ENST00000534663	nonsense_mediated_decay	KNOWN	None	9831	2796	931	36537014	36614706	1	None	RNF74, MGC43321
11	RAG1	ENSG00000166349	ENST00000299440	protein_coding	KNOWN	CCDS7902	9831	3132	1043	36589575	36601306	1	None	RNF74, MGC43321
2	None	ENSG00000252511	ENST00000516702	miRNA	NOVEL	None	None	None	None	199431369	199431453	-1	None	None
7	None	ENSG00000224669	ENST00000414815	processed_pseudogene	KNOWN	None	None	None	None	64043111	64043585	1	None	None
8	None	ENSG00000247134	ENST00000520819	lincRNA	KNOWN	None	None	None	None	32853696	32902320	1	None	None
8	None	ENSG00000247134	ENST00000500843	lincRNA	KNOWN	None	None	None	None	32853696	32902373	1	None	None
17	COG1	ENSG00000166685	ENST00000299886	protein_coding	KNOWN	CCDS11692	6545	2943	980	71189129	71204646	1	LDLB	KIAA1381
17	COG1	ENSG00000166685	ENST00000438720	protein_coding	PUTATIVE	None	6545	2887	961	71189211	71204643	1	LDLB	KIAA1381
17	COG1	ENSG00000166685	ENST00000582587	nonsense_mediated_decay	KNOWN	None	6545	373	123	71189232	71193220	1	LDLB	KIAA1381
17	COG1	ENSG00000166685	ENST00000577844	retained_intron	KNOWN	None	6545	None	None	71201275	71202327	1	LDLB	KIAA1381
17	COG1	ENSG00000166685	ENST00000580271	retained_intron	KNOWN	None	6545	None	None	71201710	71203228	1	LDLB	KIAA1381
17	COG1	ENSG00000166685	ENST00000582512	protein_coding	PUTATIVE	None	6545	379	125	71201754	71204559	1	LDLB	KIAA1381
17	COG1	ENSG00000166685	ENST00000577238	retained_intron	KNOWN	None	6545	None	None	71202077	71203228	1	LDLB	KIAA1381
17	COG1	ENSG00000166685	ENST00000582672	protein_coding	PUTATIVE	None	6545	308	101	71202298	71204070	1	LDLB	KIAA1381
17	COG1	ENSG00000166685	ENST00000582973	nonsense_mediated_decay	KNOWN	None	6545	81	26	71202880	71204646	1	LDLB	KIAA1381
5	None	ENSG00000271874	ENST00000606491	lincRNA	KNOWN	None	None	None	None	34651562	34651993	-1	None	None
14	None	ENSG00000258564	ENST00000554847	unprocessed_pseudogene	KNOWN	None	None	None	None	20264504	20265419	1	None	None
2	None	ENSG00000231557	ENST00000456031	lincRNA	KNOWN	None	None	None	None	199747297	199936514	-1	None	None
13	THSD1	ENSG00000136114	ENST00000349258	protein_coding	KNOWN	CCDS9433	17754	2400	799	52951305	52980629	-1	None	TMTSP
13	THSD1	ENSG00000136114	ENST00000258613	protein_coding	KNOWN	CCDS9432	17754	2559	852	52951322	52980263	-1	None	TMTSP
13	THSD1	ENSG00000136114	ENST00000544466	protein_coding	KNOWN	None	17754	1422	473	52951305	52980278	-1	None	TMTSP
HG1133_PATCH	TAS2R7	ENSG00000271863	ENST00000571546	protein_coding	KNOWN	None	14913	957	318	10954131	10955226	-1	None	T2R7, TRB4
5	None	ENSG00000250234	ENST00000507566	antisense	KNOWN	None	None	None	None	34656517	34657355	-1	None	None
17	RPL12P37	ENSG00000240270	ENST00000486874	processed_pseudogene	KNOWN	None	35565	None	None	78950254	78950748	1	None	None
14	OR4K6P	ENSG00000228304	ENST00000416478	unprocessed_pseudogene	KNOWN	None	14748	None	None	20315526	20316422	1	None	None
2	None	ENSG00000230407	ENST00000457712	processed_pseudogene	KNOWN	None	None	None	None	199973307	199974811	1	None	None
2	RNU7-147P	ENSG00000238698	ENST00000459118	snRNA	KNOWN	None	45681	None	None	200055782	200055843	1	None	None
X	None	ENSG00000227649	ENST00000457611	processed_pseudogene	KNOWN	None	None	None	None	102061092	102061574	-1	None	None
8	CLDN23	ENSG00000253958	ENST00000519106	protein_coding	KNOWN	CCDS55195	17591	879	292	8559448	8561616	1	None	CLDNL
2	None	ENSG00000257045	ENST00000489557	antisense	KNOWN	None	None	None	None	200190033	200194085	1	None	None
15	None	ENSG00000247765	ENST00000500487	lincRNA	KNOWN	None	None	None	None	21941147	21968151	-1	None	None
9	POMT1	ENSG00000130714	ENST00000441334	protein_coding	KNOWN	None	9202	890	295	134378305	134388718	1	None	LGMD2K
9	POMT1	ENSG00000130714	ENST00000341012	protein_coding	KNOWN	CCDS43895	9202	2016	671	134378305	134399193	1	None	LGMD2K
9	POMT1	ENSG00000130714	ENST00000372228	protein_coding	KNOWN	CCDS6943	9202	2244	747	134378312	134399193	1	None	LGMD2K
9	POMT1	ENSG00000130714	ENST00000402686	protein_coding	KNOWN	CCDS43894	9202	2178	725	134378331	134399193	1	None	LGMD2K
9	POMT1	ENSG00000130714	ENST00000418774	protein_coding	KNOWN	None	9202	427	141	134378346	134382901	1	None	LGMD2K
9	POMT1	ENSG00000130714	ENST00000415075	protein_coding	KNOWN	None	9202	470	155	134378358	134387514	1	None	LGMD2K
9	POMT1	ENSG00000130714	ENST00000448212	protein_coding	KNOWN	None	9202	655	217	134378365	134385698	1	None	LGMD2K
9	POMT1	ENSG00000130714	ENST00000483472	processed_transcript	KNOWN	None	9202	None	None	134378371	134382160	1	None	LGMD2K
9	POMT1	ENSG00000130714	ENST00000430619	protein_coding	KNOWN	None	9202	504	167	134378396	134385802	1	None	LGMD2K
9	POMT1	ENSG00000130714	ENST00000462375	processed_transcript	KNOWN	None	9202	None	None	134384313	134388718	1	None	LGMD2K
9	POMT1	ENSG00000130714	ENST00000485278	processed_transcript	KNOWN	None	9202	None	None	134385887	134399185	1	None	LGMD2K
9	POMT1	ENSG00000130714	ENST00000372220	protein_coding	KNOWN	None	9202	1041	346	134393606	134399193	1	None	LGMD2K
9	POMT1	ENSG00000130714	ENST00000467848	processed_transcript	KNOWN	None	9202	None	None	134394155	134396791	1	None	LGMD2K
9	POMT1	ENSG00000130714	ENST00000494883	processed_transcript	KNOWN	None	9202	None	None	134396492	134397920	1	None	LGMD2K
9	POMT1	ENSG00000130714	ENST00000423007	protein_coding	KNOWN	CCDS43894	9202	2178	725	134378289	134399193	1	None	LGMD2K
9	POMT1	ENSG00000130714	ENST00000354713	protein_coding	KNOWN	None	9202	2088	695	134378335	134398822	1	None	LGMD2K
9	POMT1	ENSG00000130714	ENST00000541219	protein_coding	KNOWN	None	9202	1398	465	134378332	134398535	1	None	LGMD2K
9	POMT1	ENSG00000130714	ENST00000404875	protein_coding	KNOWN	CCDS48045	9202	1827	608	134378289	134399193	1	None	LGMD2K
9	POMT1	ENSG00000130714	ENST00000419118	protein_coding	KNOWN	None	9202	1722	573	134378331	134398750	1	None	LGMD2K
7	None	ENSG00000271550	ENST00000603878	processed_pseudogene	KNOWN	None	None	None	None	64139332	64147771	-1	None	None
8	None	ENSG00000253173	ENST00000521867	processed_pseudogene	KNOWN	None	None	None	None	71016033	71016414	-1	None	None
8	None	ENSG00000253173	ENST00000406023	processed_pseudogene	KNOWN	None	None	None	None	71016028	71016414	-1	None	None
8	None	ENSG00000254198	ENST00000517759	processed_pseudogene	KNOWN	None	None	None	None	42981138	42981540	-1	None	None
14	OR4K3	ENSG00000176290	ENST00000425829	unprocessed_pseudogene	KNOWN	None	14731	None	None	20336401	20337302	-1	OR4K3P	None
14	OR4K3	ENSG00000176290	ENST00000315936	pseudogene	KNOWN	None	14731	None	None	20336401	20337302	-1	OR4K3P	None
22	None	ENSG00000267338	ENST00000438850	lincRNA	KNOWN	None	None	None	None	17097060	17098004	1	None	None
7	None	ENSG00000224172	ENST00000422823	processed_pseudogene	KNOWN	None	None	None	None	64196311	64197121	-1	None	None
17	TANC2	ENSG00000170921	ENST00000424789	protein_coding	KNOWN	CCDS45754	30212	5973	1990	61086917	61505060	1	None	DKFZP564D166, FLJ10215, FLJ11824, KIAA1148, KIAA1636, rols, ROLSA
17	TANC2	ENSG00000170921	ENST00000389520	protein_coding	NOVEL	None	30212	6003	2000	61086921	61499717	1	None	DKFZP564D166, FLJ10215, FLJ11824, KIAA1148, KIAA1636, rols, ROLSA
17	TANC2	ENSG00000170921	ENST00000580068	protein_coding	NOVEL	None	30212	456	151	61151306	61271443	1	None	DKFZP564D166, FLJ10215, FLJ11824, KIAA1148, KIAA1636, rols, ROLSA
17	TANC2	ENSG00000170921	ENST00000580466	protein_coding	NOVEL	None	30212	331	109	61151320	61271443	1	None	DKFZP564D166, FLJ10215, FLJ11824, KIAA1148, KIAA1636, rols, ROLSA
17	TANC2	ENSG00000170921	ENST00000581424	retained_intron	KNOWN	None	30212	None	None	61225589	61232587	1	None	DKFZP564D166, FLJ10215, FLJ11824, KIAA1148, KIAA1636, rols, ROLSA
17	TANC2	ENSG00000170921	ENST00000583356	protein_coding	PUTATIVE	None	30212	3764	1253	61271355	61501499	1	None	DKFZP564D166, FLJ10215, FLJ11824, KIAA1148, KIAA1636, rols, ROLSA
17	TANC2	ENSG00000170921	ENST00000583545	retained_intron	KNOWN	None	30212	None	None	61432416	61469118	1	None	DKFZP564D166, FLJ10215, FLJ11824, KIAA1148, KIAA1636, rols, ROLSA
17	TANC2	ENSG00000170921	ENST00000581143	retained_intron	KNOWN	None	30212	None	None	61466053	61474337	1	None	DKFZP564D166, FLJ10215, FLJ11824, KIAA1148, KIAA1636, rols, ROLSA
17	TANC2	ENSG00000170921	ENST00000583016	protein_coding	PUTATIVE	None	30212	408	135	61473104	61476647	1	None	DKFZP564D166, FLJ10215, FLJ11824, KIAA1148, KIAA1636, rols, ROLSA
17	TANC2	ENSG00000170921	ENST00000579541	retained_intron	KNOWN	None	30212	None	None	61490532	61492946	1	None	DKFZP564D166, FLJ10215, FLJ11824, KIAA1148, KIAA1636, rols, ROLSA
11	DNAJC24	ENSG00000170946	ENST00000527601	processed_transcript	PUTATIVE	None	26979	None	None	31391387	31406647	1	ZCSL3, DPH4	JJJ3
11	DNAJC24	ENSG00000170946	ENST00000529086	retained_intron	KNOWN	None	26979	None	None	31391387	31438885	1	ZCSL3, DPH4	JJJ3
11	DNAJC24	ENSG00000170946	ENST00000465995	protein_coding	KNOWN	CCDS7873	26979	450	149	31391387	31453396	1	ZCSL3, DPH4	JJJ3
11	DNAJC24	ENSG00000170946	ENST00000532385	processed_transcript	KNOWN	None	26979	None	None	31391389	31429722	1	ZCSL3, DPH4	JJJ3
11	DNAJC24	ENSG00000170946	ENST00000525511	nonsense_mediated_decay	KNOWN	None	26979	135	44	31391395	31436453	1	ZCSL3, DPH4	JJJ3
11	DNAJC24	ENSG00000170946	ENST00000526042	nonsense_mediated_decay	KNOWN	None	26979	258	85	31391404	31449525	1	ZCSL3, DPH4	JJJ3
11	DNAJC24	ENSG00000170946	ENST00000526529	nonsense_mediated_decay	KNOWN	None	26979	132	43	31391411	31429866	1	ZCSL3, DPH4	JJJ3
11	DNAJC24	ENSG00000170946	ENST00000527731	nonsense_mediated_decay	KNOWN	None	26979	128	41	31392354	31447932	1	ZCSL3, DPH4	JJJ3
11	DNAJC24	ENSG00000170946	ENST00000530125	processed_transcript	PUTATIVE	None	26979	None	None	31438559	31451950	1	ZCSL3, DPH4	JJJ3
11	DNAJC24	ENSG00000170946	ENST00000524747	processed_transcript	KNOWN	None	26979	None	None	31443612	31451413	1	ZCSL3, DPH4	JJJ3
11	DNAJC24	ENSG00000170946	ENST00000395949	nonsense_mediated_decay	KNOWN	None	26979	89	28	31447834	31452250	1	ZCSL3, DPH4	JJJ3
11	DNAJC24	ENSG00000170946	ENST00000536040	protein_coding	KNOWN	None	26979	255	84	31391404	31449511	1	ZCSL3, DPH4	JJJ3
5	None	ENSG00000254256	ENST00000522496	processed_pseudogene	KNOWN	None	None	None	None	170792599	170794697	1	None	None
2	STARD7	ENSG00000084090	ENST00000337288	protein_coding	KNOWN	CCDS2017	18063	1113	370	96850597	96874556	-1	None	GTT1
2	STARD7	ENSG00000084090	ENST00000479456	retained_intron	KNOWN	None	18063	None	None	96850605	96853855	-1	None	GTT1
2	STARD7	ENSG00000084090	ENST00000462501	processed_transcript	KNOWN	None	18063	None	None	96852488	96861252	-1	None	GTT1
2	STARD7	ENSG00000084090	ENST00000443962	protein_coding	PUTATIVE	None	18063	442	146	96858814	96874563	-1	None	GTT1
2	STARD7	ENSG00000084090	ENST00000495687	retained_intron	KNOWN	None	18063	None	None	96858869	96860747	-1	None	GTT1
2	STARD7	ENSG00000084090	ENST00000488084	retained_intron	KNOWN	None	18063	None	None	96860941	96873919	-1	None	GTT1
19	ZIM2	ENSG00000269699	ENST00000593711	protein_coding	KNOWN	CCDS33123	12875	1584	527	57285920	57352075	-1	None	ZNF656
19	ZIM2	ENSG00000269699	ENST00000595671	nonsense_mediated_decay	KNOWN	None	12875	582	193	57285962	57347446	-1	None	ZNF656
19	ZIM2	ENSG00000269699	ENST00000597281	nonsense_mediated_decay	KNOWN	None	12875	489	162	57285962	57347446	-1	None	ZNF656
19	ZIM2	ENSG00000269699	ENST00000601070	protein_coding	KNOWN	CCDS33123	12875	1584	527	57285962	57347446	-1	None	ZNF656
19	ZIM2	ENSG00000269699	ENST00000599935	protein_coding	KNOWN	CCDS33123	12875	1584	527	57285962	57352097	-1	None	ZNF656
19	ZIM2	ENSG00000269699	ENST00000596270	retained_intron	KNOWN	None	12875	None	None	57286747	57293634	-1	None	ZNF656
19	ZIM2	ENSG00000269699	ENST00000593931	protein_coding	PUTATIVE	None	12875	201	66	57333865	57335682	-1	None	ZNF656
19	ZIM2	ENSG00000269699	ENST00000391708	protein_coding	KNOWN	CCDS33123	12875	1584	527	57285930	57352097	-1	None	ZNF656
19	ZIM2	ENSG00000269699	ENST00000221722	protein_coding	KNOWN	CCDS33123	12875	1584	527	57285930	57352097	-1	None	ZNF656
14	None	ENSG00000258402	ENST00000555465	lincRNA	KNOWN	None	None	None	None	76747286	76776409	-1	None	None
2	SATB2-AS1	ENSG00000225953	ENST00000442967	antisense	KNOWN	None	26490	None	None	200322423	200324615	1	None	None
2	SATB2-AS1	ENSG00000225953	ENST00000441234	antisense	KNOWN	None	26490	None	None	200322560	200341227	1	None	None
2	SATB2-AS1	ENSG00000225953	ENST00000450728	antisense	KNOWN	None	26490	None	None	200332821	200337479	1	None	None
2	SATB2-AS1	ENSG00000225953	ENST00000446911	antisense	KNOWN	None	26490	None	None	200333609	200334876	1	None	None
2	SATB2-AS1	ENSG00000225953	ENST00000416200	antisense	KNOWN	None	26490	None	None	200334619	200341658	1	None	None
10	SFTPA3P	ENSG00000225827	ENST00000446429	processed_pseudogene	KNOWN	None	10800	None	None	81355050	81355416	-1	SFTPP1, SFTPAP1	COLEC6
7	None	ENSG00000234338	ENST00000427545	processed_pseudogene	KNOWN	None	None	None	None	64295658	64297260	-1	None	None
11	PRDX5	ENSG00000126432	ENST00000265462	protein_coding	KNOWN	CCDS8069	9355	645	214	64085560	64089283	1	None	ACR1, AOEB166, MGC142285, PRXV, PMP20, B166, PRDX6, PLP, SBBI10, MGC117264, MGC142283
11	PRDX5	ENSG00000126432	ENST00000352435	protein_coding	KNOWN	CCDS8070	9355	513	170	64085654	64089212	1	None	ACR1, AOEB166, MGC142285, PRXV, PMP20, B166, PRDX6, PLP, SBBI10, MGC117264, MGC142283
11	PRDX5	ENSG00000126432	ENST00000347941	protein_coding	KNOWN	CCDS8071	9355	378	125	64085654	64089214	1	None	ACR1, AOEB166, MGC142285, PRXV, PMP20, B166, PRDX6, PLP, SBBI10, MGC117264, MGC142283
15	None	ENSG00000203578	ENST00000366388	pseudogene	NOVEL	None	None	None	None	44564040	44564218	-1	None	None
5	NADK2	ENSG00000152620	ENST00000397338	protein_coding	KNOWN	CCDS3917	26404	840	279	36192694	36241493	-1	C5orf33, NADKD1	FLJ30596, MNADK
5	NADK2	ENSG00000152620	ENST00000404560	retained_intron	KNOWN	None	26404	None	None	36192987	36218359	-1	C5orf33, NADKD1	FLJ30596, MNADK
5	NADK2	ENSG00000152620	ENST00000282512	protein_coding	NOVEL	CCDS3917	26404	840	279	36193815	36242244	-1	C5orf33, NADKD1	FLJ30596, MNADK
5	NADK2	ENSG00000152620	ENST00000381937	protein_coding	PUTATIVE	CCDS47197	26404	1329	442	36194332	36241900	-1	C5orf33, NADKD1	FLJ30596, MNADK
5	NADK2	ENSG00000152620	ENST00000511613	processed_transcript	KNOWN	None	26404	None	None	36194924	36213279	-1	C5orf33, NADKD1	FLJ30596, MNADK
5	NADK2	ENSG00000152620	ENST00000506945	protein_coding	NOVEL	None	26404	906	301	36195088	36242381	-1	C5orf33, NADKD1	FLJ30596, MNADK
5	NADK2	ENSG00000152620	ENST00000502355	protein_coding	PUTATIVE	None	26404	413	136	36195090	36207365	-1	C5orf33, NADKD1	FLJ30596, MNADK
5	NADK2	ENSG00000152620	ENST00000509225	processed_transcript	KNOWN	None	26404	None	None	36195164	36213215	-1	C5orf33, NADKD1	FLJ30596, MNADK
5	NADK2	ENSG00000152620	ENST00000514504	protein_coding	PUTATIVE	None	26404	1233	410	36195246	36241900	-1	C5orf33, NADKD1	FLJ30596, MNADK
5	NADK2	ENSG00000152620	ENST00000511088	protein_coding	NOVEL	None	26404	246	81	36217896	36242208	-1	C5orf33, NADKD1	FLJ30596, MNADK
HSCHR6_MHC_SSTO	RNF39	ENSG00000230467	ENST00000457092	protein_coding	KNOWN	None	18064	1065	354	30027625	30033208	-1	None	HZFw1, LIRF
HSCHR6_MHC_SSTO	RNF39	ENSG00000230467	ENST00000420562	protein_coding	KNOWN	None	18064	1263	420	30027625	30033246	-1	None	HZFw1, LIRF
HSCHR6_MHC_SSTO	RNF39	ENSG00000230467	ENST00000547071	protein_coding	KNOWN	None	18064	756	251	30028143	30033148	-1	None	HZFw1, LIRF
8	VN1R46P	ENSG00000253611	ENST00000519939	processed_pseudogene	KNOWN	None	37366	None	None	43075103	43075952	-1	None	None
7	SEPHS1P1	ENSG00000182722	ENST00000426891	processed_pseudogene	KNOWN	None	42161	None	None	64312775	64313732	-1	None	None
8	None	ENSG00000254160	ENST00000517950	lincRNA	KNOWN	None	None	None	None	1196789	1198760	-1	None	None
2	IL37	ENSG00000125571	ENST00000263326	protein_coding	KNOWN	CCDS2103	15563	657	218	113670548	113676459	1	IL1F7	FIL1, FIL1Z, FIL1(ZETA), IL-1H4, IL-1RP1, IL-1F7
2	IL37	ENSG00000125571	ENST00000352179	protein_coding	KNOWN	CCDS2104	15563	594	197	113670548	113676459	1	IL1F7	FIL1, FIL1Z, FIL1(ZETA), IL-1H4, IL-1RP1, IL-1F7
2	IL37	ENSG00000125571	ENST00000349806	protein_coding	KNOWN	CCDS2105	15563	474	157	113670548	113676459	1	IL1F7	FIL1, FIL1Z, FIL1(ZETA), IL-1H4, IL-1RP1, IL-1F7
2	IL37	ENSG00000125571	ENST00000353225	protein_coding	KNOWN	CCDS2106	15563	537	178	113670548	113676459	1	IL1F7	FIL1, FIL1Z, FIL1(ZETA), IL-1H4, IL-1RP1, IL-1F7
2	IL37	ENSG00000125571	ENST00000311328	protein_coding	KNOWN	CCDS2107	15563	579	192	113672770	113676459	1	IL1F7	FIL1, FIL1Z, FIL1(ZETA), IL-1H4, IL-1RP1, IL-1F7
17	None	ENSG00000263218	ENST00000576215	antisense	KNOWN	None	None	None	None	78973309	78973930	-1	None	None
17	None	ENSG00000263218	ENST00000577061	antisense	KNOWN	None	None	None	None	78973318	78973927	-1	None	None
16	None	ENSG00000259900	ENST00000570293	nonsense_mediated_decay	KNOWN	None	None	327	108	69369179	69385632	-1	None	None
16	None	ENSG00000259900	ENST00000564737	nonsense_mediated_decay	KNOWN	None	None	517	171	69369204	69385633	-1	None	None
14	SNORD113-6	ENSG00000200215	ENST00000363345	snoRNA	KNOWN	None	32985	None	None	101405893	101405968	1	None	14q(I-6)
4	DNAJB14	ENSG00000164031	ENST00000442697	protein_coding	KNOWN	CCDS34035	25881	1140	379	100817405	100867883	-1	None	FLJ14281
4	DNAJB14	ENSG00000164031	ENST00000420137	nonsense_mediated_decay	KNOWN	None	25881	146	47	100819917	100851691	-1	None	FLJ14281
4	DNAJB14	ENSG00000164031	ENST00000471101	retained_intron	KNOWN	None	25881	None	None	100820553	100848248	-1	None	FLJ14281
4	DNAJB14	ENSG00000164031	ENST00000334223	nonsense_mediated_decay	KNOWN	None	25881	138	45	100820553	100867745	-1	None	FLJ14281
4	DNAJB14	ENSG00000164031	ENST00000455208	nonsense_mediated_decay	KNOWN	None	25881	126	41	100821792	100827754	-1	None	FLJ14281
4	DNAJB14	ENSG00000164031	ENST00000398991	nonsense_mediated_decay	KNOWN	None	25881	138	45	100824935	100867752	-1	None	FLJ14281
4	DNAJB14	ENSG00000164031	ENST00000426476	nonsense_mediated_decay	KNOWN	None	25881	317	104	100829886	100867715	-1	None	FLJ14281
4	DNAJB14	ENSG00000164031	ENST00000474664	retained_intron	KNOWN	None	25881	None	None	100843677	100867717	-1	None	FLJ14281
4	DNAJB14	ENSG00000164031	ENST00000493110	processed_transcript	PUTATIVE	None	25881	None	None	100844197	100851746	-1	None	FLJ14281
4	DNAJB14	ENSG00000164031	ENST00000471738	processed_transcript	KNOWN	None	25881	None	None	100844838	100867731	-1	None	FLJ14281
4	DNAJB14	ENSG00000164031	ENST00000469942	retained_intron	KNOWN	None	25881	None	None	100845464	100867743	-1	None	FLJ14281
19	XRCC1	ENSG00000073050	ENST00000262887	protein_coding	KNOWN	CCDS12624	12828	1902	633	44047192	44080158	-1	RCC	None
19	XRCC1	ENSG00000073050	ENST00000543982	protein_coding	NOVEL	None	12828	1809	602	44047464	44079715	-1	RCC	None
19	XRCC1	ENSG00000073050	ENST00000597811	nonsense_mediated_decay	KNOWN	None	12828	496	164	44055723	44065101	-1	RCC	None
19	XRCC1	ENSG00000073050	ENST00000595789	retained_intron	KNOWN	None	12828	None	None	44056225	44079658	-1	RCC	None
19	XRCC1	ENSG00000073050	ENST00000598422	retained_intron	KNOWN	None	12828	None	None	44056230	44057929	-1	RCC	None
19	XRCC1	ENSG00000073050	ENST00000598165	protein_coding	PUTATIVE	None	12828	876	291	44056396	44084625	-1	RCC	None
19	XRCC1	ENSG00000073050	ENST00000599693	protein_coding	PUTATIVE	None	12828	628	208	44057143	44084586	-1	RCC	None
19	XRCC1	ENSG00000073050	ENST00000594107	protein_coding	NOVEL	None	12828	517	171	44057217	44079679	-1	RCC	None
19	XRCC1	ENSG00000073050	ENST00000594511	retained_intron	KNOWN	None	12828	None	None	44078681	44079656	-1	RCC	None
10	MTRNR2L5	ENSG00000249860	ENST00000512524	protein_coding	KNOWN	CCDS53537	37162	75	24	57358750	57360488	1	None	None
15	None	ENSG00000207223	ENST00000384494	misc_RNA	NOVEL	None	None	None	None	64945087	64945188	1	None	None
15	RNU6-1235P	ENSG00000207289	ENST00000384559	snRNA	KNOWN	None	48198	None	None	21950659	21950765	1	None	None
19	SHC2	ENSG00000129946	ENST00000587423	retained_intron	KNOWN	None	29869	None	None	416583	419879	-1	None	SLI, SCK, SHCB
19	SHC2	ENSG00000129946	ENST00000588376	retained_intron	KNOWN	None	29869	None	None	416583	422828	-1	None	SLI, SCK, SHCB
19	SHC2	ENSG00000129946	ENST00000264554	protein_coding	KNOWN	CCDS45891	29869	1749	582	416583	460996	-1	None	SLI, SCK, SHCB
19	SHC2	ENSG00000129946	ENST00000589922	retained_intron	KNOWN	None	29869	None	None	416609	441384	-1	None	SLI, SCK, SHCB
19	SHC2	ENSG00000129946	ENST00000590170	nonsense_mediated_decay	KNOWN	None	29869	198	65	417200	436258	-1	None	SLI, SCK, SHCB
19	SHC2	ENSG00000129946	ENST00000590222	nonsense_mediated_decay	KNOWN	None	29869	208	68	434702	460571	-1	None	SLI, SCK, SHCB
19	SHC2	ENSG00000129946	ENST00000591388	protein_coding	PUTATIVE	None	29869	298	98	435771	436534	-1	None	SLI, SCK, SHCB
19	SHC2	ENSG00000129946	ENST00000590113	protein_coding	PUTATIVE	None	29869	430	142	435771	439030	-1	None	SLI, SCK, SHCB
15	RNU6-549P	ENSG00000207162	ENST00000384433	snRNA	KNOWN	None	47512	None	None	64963462	64963568	1	None	None
14	None	ENSG00000212061	ENST00000390772	miRNA	NOVEL	None	None	None	None	76814398	76814481	-1	None	None
17	None	ENSG00000262873	ENST00000575647	lincRNA	KNOWN	None	None	None	None	78991769	78992292	-1	None	None
17	None	ENSG00000262873	ENST00000572036	lincRNA	KNOWN	None	None	None	None	78991769	78993811	-1	None	None
X	FAM3C2	ENSG00000174028	ENST00000312214	processed_pseudogene	KNOWN	None	34501	None	None	23093875	23094884	1	None	None
8	MFHAS1	ENSG00000147324	ENST00000276282	protein_coding	KNOWN	CCDS34844	16982	3159	1052	8640864	8751155	-1	None	MASL1, LRRC65
8	MFHAS1	ENSG00000147324	ENST00000521881	processed_transcript	KNOWN	None	16982	None	None	8643269	8717541	-1	None	MASL1, LRRC65
8	MFHAS1	ENSG00000147324	ENST00000520715	processed_transcript	PUTATIVE	None	16982	None	None	8643294	8679374	-1	None	MASL1, LRRC65
8	MFHAS1	ENSG00000147324	ENST00000520091	processed_transcript	KNOWN	None	16982	None	None	8643535	8679645	-1	None	MASL1, LRRC65
7	None	ENSG00000213640	ENST00000446006	processed_pseudogene	KNOWN	None	None	None	None	64323377	64324748	1	None	None
X	None	ENSG00000229794	ENST00000427945	processed_pseudogene	KNOWN	None	None	None	None	102061669	102062752	1	None	None
5	None	ENSG00000206909	ENST00000384182	snoRNA	NOVEL	None	None	None	None	170793122	170793256	1	None	None
14	None	ENSG00000251918	ENST00000516109	snoRNA	NOVEL	None	None	None	None	101406904	101406974	1	None	None
15	None	ENSG00000203411	ENST00000366232	pseudogene	NOVEL	None	None	None	None	44571085	44571275	1	None	None
15	None	ENSG00000265967	ENST00000583044	antisense	KNOWN	None	None	None	None	64987240	64987793	1	None	None
7	C7orf33	ENSG00000170279	ENST00000307003	protein_coding	KNOWN	CCDS5890	21724	534	177	148287657	148312952	1	None	None
15	MYO1E	ENSG00000157483	ENST00000288235	protein_coding	KNOWN	CCDS32254	7599	3327	1108	59427113	59665099	-1	None	MYO1C, HuncM-IC, MGC104638
15	MYO1E	ENSG00000157483	ENST00000559412	protein_coding	PUTATIVE	None	7599	222	73	59428565	59445841	-1	None	MYO1C, HuncM-IC, MGC104638
15	MYO1E	ENSG00000157483	ENST00000559269	protein_coding	NOVEL	None	7599	828	275	59455418	59519789	-1	None	MYO1C, HuncM-IC, MGC104638
15	MYO1E	ENSG00000157483	ENST00000560749	protein_coding	NOVEL	None	7599	952	316	59464096	59500980	-1	None	MYO1C, HuncM-IC, MGC104638
15	MYO1E	ENSG00000157483	ENST00000558182	processed_transcript	KNOWN	None	7599	None	None	59470623	59498960	-1	None	MYO1C, HuncM-IC, MGC104638
15	MYO1E	ENSG00000157483	ENST00000560642	retained_intron	KNOWN	None	7599	None	None	59487696	59501199	-1	None	MYO1C, HuncM-IC, MGC104638
15	MYO1E	ENSG00000157483	ENST00000559489	protein_coding	NOVEL	None	7599	562	186	59501008	59510495	-1	None	MYO1C, HuncM-IC, MGC104638
15	MYO1E	ENSG00000157483	ENST00000558814	processed_transcript	KNOWN	None	7599	None	None	59515258	59557196	-1	None	MYO1C, HuncM-IC, MGC104638
15	MYO1E	ENSG00000157483	ENST00000558571	nonsense_mediated_decay	KNOWN	None	7599	339	112	59519682	59664726	-1	None	MYO1C, HuncM-IC, MGC104638
15	MYO1E	ENSG00000157483	ENST00000558646	retained_intron	KNOWN	None	7599	None	None	59564445	59665070	-1	None	MYO1C, HuncM-IC, MGC104638
9	None	ENSG00000224955	ENST00000434203	processed_pseudogene	KNOWN	None	None	None	None	28598666	28599290	-1	None	None
17	None	ENSG00000262098	ENST00000576859	processed_transcript	PUTATIVE	None	None	None	None	78997345	78999303	-1	None	None
7	DNAJC2	ENSG00000105821	ENST00000249270	protein_coding	KNOWN	CCDS47679	13192	1707	568	102952921	102985113	-1	ZRF1	MPP11, MPHOSPH11, ZUO1, zuotin
7	DNAJC2	ENSG00000105821	ENST00000475065	retained_intron	KNOWN	None	13192	None	None	102952966	102982384	-1	ZRF1	MPP11, MPHOSPH11, ZUO1, zuotin
7	DNAJC2	ENSG00000105821	ENST00000379263	protein_coding	KNOWN	CCDS43628	13192	1866	621	102952966	102985320	-1	ZRF1	MPP11, MPHOSPH11, ZUO1, zuotin
7	DNAJC2	ENSG00000105821	ENST00000492497	retained_intron	KNOWN	None	13192	None	None	102952969	102957797	-1	ZRF1	MPP11, MPHOSPH11, ZUO1, zuotin
7	DNAJC2	ENSG00000105821	ENST00000464253	retained_intron	KNOWN	None	13192	None	None	102953016	102985069	-1	ZRF1	MPP11, MPHOSPH11, ZUO1, zuotin
7	DNAJC2	ENSG00000105821	ENST00000475090	retained_intron	KNOWN	None	13192	None	None	102957150	102960223	-1	ZRF1	MPP11, MPHOSPH11, ZUO1, zuotin
7	DNAJC2	ENSG00000105821	ENST00000426036	protein_coding	NOVEL	None	13192	729	242	102963047	102985035	-1	ZRF1	MPP11, MPHOSPH11, ZUO1, zuotin
7	DNAJC2	ENSG00000105821	ENST00000454277	protein_coding	PUTATIVE	None	13192	565	187	102963174	102985225	-1	ZRF1	MPP11, MPHOSPH11, ZUO1, zuotin
7	DNAJC2	ENSG00000105821	ENST00000483637	retained_intron	KNOWN	None	13192	None	None	102963184	102965177	-1	ZRF1	MPP11, MPHOSPH11, ZUO1, zuotin
7	DNAJC2	ENSG00000105821	ENST00000379257	nonsense_mediated_decay	KNOWN	None	13192	504	167	102964045	102985245	-1	ZRF1	MPP11, MPHOSPH11, ZUO1, zuotin
7	DNAJC2	ENSG00000105821	ENST00000412522	protein_coding	PUTATIVE	None	13192	357	118	102975689	102985277	-1	ZRF1	MPP11, MPHOSPH11, ZUO1, zuotin
7	None	ENSG00000189316	ENST00000340779	antisense	KNOWN	None	None	None	None	64348905	64350478	-1	None	None
12	SMAGP	ENSG00000170545	ENST00000603798	protein_coding	KNOWN	CCDS44889	26918	294	97	51638342	51664674	-1	None	MGC149453, MGC149454, hSMAGP
12	SMAGP	ENSG00000170545	ENST00000380103	nonsense_mediated_decay	KNOWN	None	26918	114	37	51639135	51663104	-1	None	MGC149453, MGC149454, hSMAGP
12	SMAGP	ENSG00000170545	ENST00000398453	protein_coding	KNOWN	CCDS44889	26918	294	97	51639135	51663982	-1	None	MGC149453, MGC149454, hSMAGP
12	SMAGP	ENSG00000170545	ENST00000603864	protein_coding	KNOWN	CCDS44889	26918	294	97	51639172	51663733	-1	None	MGC149453, MGC149454, hSMAGP
12	SMAGP	ENSG00000170545	ENST00000605627	protein_coding	PUTATIVE	None	26918	252	83	51639529	51664068	-1	None	MGC149453, MGC149454, hSMAGP
12	SMAGP	ENSG00000170545	ENST00000605426	protein_coding	KNOWN	None	26918	150	49	51639869	51663742	-1	None	MGC149453, MGC149454, hSMAGP
12	SMAGP	ENSG00000170545	ENST00000603838	protein_coding	PUTATIVE	None	26918	129	42	51640248	51663696	-1	None	MGC149453, MGC149454, hSMAGP
12	SMAGP	ENSG00000170545	ENST00000604188	protein_coding	PUTATIVE	None	26918	129	42	51640381	51663968	-1	None	MGC149453, MGC149454, hSMAGP
14	SNORD113-7	ENSG00000200632	ENST00000363762	snoRNA	KNOWN	None	32986	None	None	101407463	101407539	1	None	14q(I-7)
HSCHR6_MHC_DBB	PSMB9	ENSG00000240118	ENST00000399371	protein_coding	KNOWN	None	9546	591	196	32789894	32805343	1	LMP2	RING12, beta1i, PSMB6i
HSCHR6_MHC_DBB	PSMB9	ENSG00000240118	ENST00000415658	protein_coding	KNOWN	None	9546	395	130	32790594	32804195	1	LMP2	RING12, beta1i, PSMB6i
HSCHR6_MHC_DBB	PSMB9	ENSG00000240118	ENST00000484631	retained_intron	KNOWN	None	9546	None	None	32799906	32804658	1	LMP2	RING12, beta1i, PSMB6i
HSCHR6_MHC_DBB	PSMB9	ENSG00000240118	ENST00000383114	protein_coding	KNOWN	None	9546	660	219	32799919	32805343	1	LMP2	RING12, beta1i, PSMB6i
HSCHR6_MHC_DBB	PSMB9	ENSG00000240118	ENST00000399381	protein_coding	KNOWN	None	9546	537	178	32799986	32825298	1	LMP2	RING12, beta1i, PSMB6i
HSCHR6_MHC_DBB	PSMB9	ENSG00000240118	ENST00000496665	retained_intron	KNOWN	None	9546	None	None	32801856	32804480	1	LMP2	RING12, beta1i, PSMB6i
HSCHR6_MHC_DBB	PSMB9	ENSG00000240118	ENST00000548018	protein_coding	KNOWN	None	9546	465	154	32799919	32804328	1	LMP2	RING12, beta1i, PSMB6i
2	COL6A3	ENSG00000163359	ENST00000473258	processed_transcript	KNOWN	None	2213	None	None	238232646	238238823	-1	None	None
2	COL6A3	ENSG00000163359	ENST00000295550	protein_coding	KNOWN	CCDS33412	2213	9534	3177	238232655	238323018	-1	None	None
2	COL6A3	ENSG00000163359	ENST00000491769	retained_intron	KNOWN	None	2213	None	None	238232662	238264422	-1	None	None
2	COL6A3	ENSG00000163359	ENST00000472056	protein_coding	NOVEL	CCDS33410	2213	7713	2570	238232728	238322791	-1	None	None
2	COL6A3	ENSG00000163359	ENST00000409809	protein_coding	KNOWN	CCDS33409	2213	8916	2971	238233417	238305460	-1	None	None
2	COL6A3	ENSG00000163359	ENST00000493608	processed_transcript	PUTATIVE	None	2213	None	None	238241611	238243429	-1	None	None
2	COL6A3	ENSG00000163359	ENST00000468792	retained_intron	KNOWN	None	2213	None	None	238247583	238249245	-1	None	None
2	COL6A3	ENSG00000163359	ENST00000493475	retained_intron	KNOWN	None	2213	None	None	238265433	238266526	-1	None	None
2	COL6A3	ENSG00000163359	ENST00000392004	protein_coding	PUTATIVE	CCDS33411	2213	3714	1237	238280260	238322820	-1	None	None
2	COL6A3	ENSG00000163359	ENST00000392003	protein_coding	PUTATIVE	CCDS54439	2213	3111	1036	238280260	238322850	-1	None	None
2	COL6A3	ENSG00000163359	ENST00000433762	protein_coding	NOVEL	None	2213	2124	707	238285761	238322820	-1	None	None
2	COL6A3	ENSG00000163359	ENST00000491233	protein_coding	PUTATIVE	None	2213	522	173	238295097	238296720	-1	None	None
2	COL6A3	ENSG00000163359	ENST00000347401	protein_coding	KNOWN	None	2213	8931	2976	238232655	238322850	-1	None	None
2	COL6A3	ENSG00000163359	ENST00000353578	protein_coding	KNOWN	CCDS33409	2213	8916	2971	238232655	238322850	-1	None	None
2	COL6A3	ENSG00000163359	ENST00000346358	protein_coding	KNOWN	None	2213	8934	2977	238233417	238322850	-1	None	None
10	LINC00840	ENSG00000226808	ENST00000431737	lincRNA	KNOWN	None	44987	None	None	44354859	44390881	1	None	None
14	SNORD113-8	ENSG00000200367	ENST00000363497	snoRNA	KNOWN	None	32987	None	None	101409788	101409861	1	None	14q(I-8)
X	None	ENSG00000221786	ENST00000408859	miRNA	NOVEL	None	None	None	None	23138949	23139022	-1	None	None
17	BAIAP2-AS1	ENSG00000226137	ENST00000577066	lincRNA	KNOWN	None	44342	None	None	79002933	79008373	-1	None	None
17	BAIAP2-AS1	ENSG00000226137	ENST00000573167	lincRNA	KNOWN	None	44342	None	None	79003502	79008501	-1	None	None
17	BAIAP2-AS1	ENSG00000226137	ENST00000542745	lincRNA	KNOWN	None	44342	None	None	79003502	79005315	-1	None	None
2	None	ENSG00000238217	ENST00000427045	lincRNA	KNOWN	None	None	None	None	200472791	200495210	1	None	None
2	None	ENSG00000238217	ENST00000419243	lincRNA	KNOWN	None	None	None	None	200472791	200495438	1	None	None
2	None	ENSG00000238217	ENST00000439734	lincRNA	KNOWN	None	None	None	None	200489254	200523855	1	None	None
2	None	ENSG00000238217	ENST00000453035	lincRNA	KNOWN	None	None	None	None	200496454	200523784	1	None	None
5	None	ENSG00000249791	ENST00000514544	antisense	KNOWN	None	None	None	None	114524260	114524629	1	None	None
HSCHR1_3_CTG31	PTPRC	ENSG00000262418	ENST00000573298	protein_coding	KNOWN	None	9666	440	145	198619288	198688773	1	CD45	LCA, T200, GP180
HSCHR1_3_CTG31	PTPRC	ENSG00000262418	ENST00000575923	protein_coding	NOVEL	None	9666	1794	597	198619636	198713172	1	CD45	LCA, T200, GP180
HSCHR1_3_CTG31	PTPRC	ENSG00000262418	ENST00000573679	protein_coding	KNOWN	None	9666	3915	1304	198619657	198737899	1	CD45	LCA, T200, GP180
HSCHR1_3_CTG31	PTPRC	ENSG00000262418	ENST00000574399	retained_intron	KNOWN	None	9666	None	None	198619690	198684490	1	CD45	LCA, T200, GP180
HSCHR1_3_CTG31	PTPRC	ENSG00000262418	ENST00000576833	protein_coding	NOVEL	None	9666	2199	732	198619712	198715868	1	CD45	LCA, T200, GP180
HSCHR1_3_CTG31	PTPRC	ENSG00000262418	ENST00000573477	protein_coding	KNOWN	None	9666	3432	1143	198619712	198737899	1	CD45	LCA, T200, GP180
HSCHR1_3_CTG31	PTPRC	ENSG00000262418	ENST00000570609	protein_coding	PUTATIVE	None	9666	105	34	198619714	198673822	1	CD45	LCA, T200, GP180
HSCHR1_3_CTG31	PTPRC	ENSG00000262418	ENST00000571847	protein_coding	PUTATIVE	None	9666	258	85	198619714	198675787	1	CD45	LCA, T200, GP180
HSCHR1_3_CTG31	PTPRC	ENSG00000262418	ENST00000574441	processed_transcript	KNOWN	None	9666	None	None	198619721	198715868	1	CD45	LCA, T200, GP180
HSCHR1_3_CTG31	PTPRC	ENSG00000262418	ENST00000573971	protein_coding	KNOWN	None	9666	349	115	198619779	198680236	1	CD45	LCA, T200, GP180
HSCHR1_3_CTG31	PTPRC	ENSG00000262418	ENST00000572593	processed_transcript	KNOWN	None	9666	None	None	198619905	198683962	1	CD45	LCA, T200, GP180
HSCHR1_3_CTG31	PTPRC	ENSG00000262418	ENST00000574718	processed_transcript	KNOWN	None	9666	None	None	198619905	198683962	1	CD45	LCA, T200, GP180
HSCHR1_3_CTG31	PTPRC	ENSG00000262418	ENST00000570905	retained_intron	KNOWN	None	9666	None	None	198677497	198680762	1	CD45	LCA, T200, GP180
HSCHR1_3_CTG31	PTPRC	ENSG00000262418	ENST00000575803	retained_intron	KNOWN	None	9666	None	None	198693406	198698915	1	CD45	LCA, T200, GP180
8	None	ENSG00000253640	ENST00000521186	lincRNA	KNOWN	None	None	None	None	1244292	1250829	-1	None	None
X	None	ENSG00000228610	ENST00000419302	processed_pseudogene	KNOWN	None	None	None	None	23216456	23216807	1	None	None
8	BTF3P12	ENSG00000213003	ENST00000519620	processed_pseudogene	KNOWN	None	1127	None	None	71185604	71186072	1	BTF3L2	HUMBTFC
8	BTF3P12	ENSG00000213003	ENST00000391685	processed_pseudogene	KNOWN	None	1127	None	None	71185609	71185809	1	BTF3L2	HUMBTFC
19	None	ENSG00000268685	ENST00000596454	processed_pseudogene	KNOWN	None	None	None	None	22545391	22545627	1	None	None
3	CCDC51	ENSG00000164051	ENST00000447018	protein_coding	KNOWN	CCDS58830	25714	909	302	48473574	48481491	-1	None	FLJ12436
3	CCDC51	ENSG00000164051	ENST00000395694	protein_coding	KNOWN	CCDS2766	25714	1236	411	48473580	48481475	-1	None	FLJ12436
3	CCDC51	ENSG00000164051	ENST00000412398	protein_coding	KNOWN	CCDS58830	25714	909	302	48473580	48481529	-1	None	FLJ12436
3	CCDC51	ENSG00000164051	ENST00000442740	protein_coding	KNOWN	CCDS58830	25714	909	302	48473605	48481510	-1	None	FLJ12436
3	CCDC51	ENSG00000164051	ENST00000446140	protein_coding	KNOWN	None	25714	477	158	48475117	48479628	-1	None	FLJ12436
3	CCDC51	ENSG00000164051	ENST00000438370	protein_coding	KNOWN	None	25714	187	61	48476352	48481866	-1	None	FLJ12436
3	CCDC51	ENSG00000164051	ENST00000395696	protein_coding	KNOWN	CCDS2766	25714	1236	411	48473580	48481529	-1	None	FLJ12436
10	None	ENSG00000236769	ENST00000438454	lincRNA	KNOWN	None	None	None	None	44396813	44407774	-1	None	None
16	None	ENSG00000262621	ENST00000576906	processed_transcript	KNOWN	None	None	None	None	3415099	3434706	1	None	None
16	None	ENSG00000262621	ENST00000575785	processed_transcript	KNOWN	None	None	None	None	3415112	3536953	1	None	None
3	OR5H6	ENSG00000230301	ENST00000383696	protein_coding	KNOWN	CCDS33800	14767	978	325	97983088	97984200	1	None	None
22	RBFOX2	ENSG00000100320	ENST00000405409	protein_coding	KNOWN	CCDS13921	9906	1104	367	36134783	36236634	-1	RBM9	HNRBP2, FOX-2, HRNBP2
22	RBFOX2	ENSG00000100320	ENST00000414461	protein_coding	KNOWN	CCDS46699	9906	1113	370	36139649	36236265	-1	RBM9	HNRBP2, FOX-2, HRNBP2
22	RBFOX2	ENSG00000100320	ENST00000449924	protein_coding	KNOWN	CCDS46700	9906	1143	380	36139649	36236454	-1	RBM9	HNRBP2, FOX-2, HRNBP2
22	RBFOX2	ENSG00000100320	ENST00000262829	protein_coding	KNOWN	None	9906	1077	358	36139980	36236454	-1	RBM9	HNRBP2, FOX-2, HRNBP2
22	RBFOX2	ENSG00000100320	ENST00000397303	protein_coding	PUTATIVE	None	9906	1074	357	36140005	36206051	-1	RBM9	HNRBP2, FOX-2, HRNBP2
22	RBFOX2	ENSG00000100320	ENST00000359369	protein_coding	PUTATIVE	None	9906	1113	370	36140030	36334945	-1	RBM9	HNRBP2, FOX-2, HRNBP2
22	RBFOX2	ENSG00000100320	ENST00000463509	retained_intron	KNOWN	None	9906	None	None	36140134	36144679	-1	RBM9	HNRBP2, FOX-2, HRNBP2
22	RBFOX2	ENSG00000100320	ENST00000416721	protein_coding	KNOWN	CCDS46701	9906	1131	376	36140195	36236331	-1	RBM9	HNRBP2, FOX-2, HRNBP2
22	RBFOX2	ENSG00000100320	ENST00000495377	protein_coding	PUTATIVE	None	9906	692	229	36140211	36174079	-1	RBM9	HNRBP2, FOX-2, HRNBP2
22	RBFOX2	ENSG00000100320	ENST00000438146	protein_coding	KNOWN	CCDS43013	9906	1356	451	36140252	36424473	-1	RBM9	HNRBP2, FOX-2, HRNBP2
22	RBFOX2	ENSG00000100320	ENST00000473487	protein_coding	PUTATIVE	None	9906	702	233	36156057	36220420	-1	RBM9	HNRBP2, FOX-2, HRNBP2
22	RBFOX2	ENSG00000100320	ENST00000408983	protein_coding	PUTATIVE	None	9906	601	199	36164315	36357714	-1	RBM9	HNRBP2, FOX-2, HRNBP2
22	RBFOX2	ENSG00000100320	ENST00000491982	retained_intron	KNOWN	None	9906	None	None	36173703	36236450	-1	RBM9	HNRBP2, FOX-2, HRNBP2
22	RBFOX2	ENSG00000100320	ENST00000397305	protein_coding	PUTATIVE	None	9906	384	127	36174075	36236460	-1	RBM9	HNRBP2, FOX-2, HRNBP2
17	MIR657	ENSG00000207736	ENST00000385003	miRNA	KNOWN	None	32913	None	None	79099076	79099173	-1	MIRN657	hsa-mir-657
19	RPL34P34	ENSG00000236312	ENST00000465389	processed_pseudogene	KNOWN	None	35848	None	None	22551401	22551754	-1	None	None
1	None	ENSG00000225931	ENST00000456687	antisense	KNOWN	None	None	None	None	2497849	2508811	1	None	None
7	VN1R42P	ENSG00000223476	ENST00000424651	processed_pseudogene	KNOWN	None	37362	None	None	64393651	64393994	1	None	None
17	MIR338	ENSG00000211563	ENST00000390137	miRNA	KNOWN	None	31775	None	None	79099677	79099755	1	MIRN338	hsa-mir-338
17	MIR3065	ENSG00000211563	ENST00000390137	miRNA	KNOWN	None	38234	None	None	79099677	79099755	1	None	hsa-mir-3065
X	None	ENSG00000226774	ENST00000445047	processed_pseudogene	KNOWN	None	None	None	None	23369130	23369567	1	None	None
3	RASA2	ENSG00000155903	ENST00000515549	nonsense_mediated_decay	KNOWN	None	9872	144	47	141205889	141259415	1	None	GAP1M
3	RASA2	ENSG00000155903	ENST00000286364	protein_coding	KNOWN	CCDS3117	9872	2550	849	141205891	141334184	1	None	GAP1M
3	RASA2	ENSG00000155903	ENST00000505833	processed_transcript	PUTATIVE	None	9872	None	None	141297366	141299287	1	None	GAP1M
3	RASA2	ENSG00000155903	ENST00000509118	processed_transcript	KNOWN	None	9872	None	None	141297555	141328816	1	None	GAP1M
3	RASA2	ENSG00000155903	ENST00000509032	processed_transcript	KNOWN	None	9872	None	None	141297579	141327383	1	None	GAP1M
3	RASA2	ENSG00000155903	ENST00000506365	processed_transcript	KNOWN	None	9872	None	None	141305541	141328365	1	None	GAP1M
3	RASA2	ENSG00000155903	ENST00000452898	protein_coding	KNOWN	None	9872	2553	850	141205891	141331621	1	None	GAP1M
6	TBCC	ENSG00000124659	ENST00000372876	protein_coding	KNOWN	CCDS4872	11580	1041	346	42712219	42713834	-1	None	CFC
6	TBCC	ENSG00000124659	ENST00000244625	protein_coding	KNOWN	CCDS4872	11580	1041	346	42712239	42714558	-1	None	CFC
14	SNORD113-9	ENSG00000201950	ENST00000365080	snoRNA	KNOWN	None	32988	None	None	101411986	101412057	1	None	14q(I-9)
19	CEACAMP10	ENSG00000241104	ENST00000489959	processed_transcript	KNOWN	None	1822	None	None	43715943	43752798	-1	CGM17	None
19	CEACAMP10	ENSG00000241104	ENST00000495431	transcribed_processed_pseudogene	KNOWN	None	1822	None	None	43724140	43725023	-1	CGM17	None
17	MIR1250	ENSG00000221025	ENST00000408098	miRNA	KNOWN	None	35316	None	None	79106996	79107108	-1	MIRN1250	hsa-mir-1250
15	None	ENSG00000264937	ENST00000581636	antisense	KNOWN	None	None	None	None	64988821	64989060	1	None	None
3	GPR128	ENSG00000144820	ENST00000273352	protein_coding	KNOWN	CCDS2938	19241	2394	797	100328433	100414323	1	None	FLJ14454
3	GPR128	ENSG00000144820	ENST00000481361	processed_transcript	KNOWN	None	19241	None	None	100354382	100362452	1	None	FLJ14454
3	GPR128	ENSG00000144820	ENST00000493081	processed_transcript	KNOWN	None	19241	None	None	100354384	100356419	1	None	FLJ14454
3	GPR128	ENSG00000144820	ENST00000475887	protein_coding	PUTATIVE	None	19241	1509	502	100354442	100414102	1	None	FLJ14454
3	GPR128	ENSG00000144820	ENST00000481506	processed_transcript	KNOWN	None	19241	None	None	100373040	100414182	1	None	FLJ14454
7	None	ENSG00000270948	ENST00000605323	processed_pseudogene	KNOWN	None	None	None	None	64402521	64403304	-1	None	None
16	NIP7	ENSG00000132603	ENST00000254940	protein_coding	KNOWN	CCDS10877	24328	543	180	69373333	69377014	1	None	CGI-37, FLJ10296, HSPC031, KD93
16	NIP7	ENSG00000132603	ENST00000569637	protein_coding	PUTATIVE	None	24328	333	110	69373471	69374790	1	None	CGI-37, FLJ10296, HSPC031, KD93
16	NIP7	ENSG00000132603	ENST00000254941	protein_coding	KNOWN	CCDS56003	24328	402	133	69373700	69377007	1	None	CGI-37, FLJ10296, HSPC031, KD93
16	NIP7	ENSG00000132603	ENST00000565034	retained_intron	KNOWN	None	24328	None	None	69373733	69375338	1	None	CGI-37, FLJ10296, HSPC031, KD93
16	NIP7	ENSG00000132603	ENST00000563364	retained_intron	KNOWN	None	24328	None	None	69373830	69375213	1	None	CGI-37, FLJ10296, HSPC031, KD93
16	NIP7	ENSG00000132603	ENST00000562131	retained_intron	KNOWN	None	24328	None	None	69373896	69374568	1	None	CGI-37, FLJ10296, HSPC031, KD93
16	NIP7	ENSG00000132603	ENST00000567202	protein_coding	PUTATIVE	None	24328	239	78	69374174	69375957	1	None	CGI-37, FLJ10296, HSPC031, KD93
16	NIP7	ENSG00000132603	ENST00000562523	protein_coding	PUTATIVE	None	24328	213	70	69374179	69375975	1	None	CGI-37, FLJ10296, HSPC031, KD93
X	None	ENSG00000238327	ENST00000458766	snoRNA	NOVEL	None	None	None	None	23525328	23525430	-1	None	None
17	None	ENSG00000263167	ENST00000570413	antisense	KNOWN	None	None	None	None	79109571	79110056	1	None	None
7	RNU6-1229P	ENSG00000201165	ENST00000364295	snRNA	KNOWN	None	48192	None	None	64483582	64483688	-1	None	None
14	SNORD114-1	ENSG00000199575	ENST00000362705	snoRNA	KNOWN	None	32989	None	None	101416170	101416241	1	None	14q(II-1)
9	MIR876	ENSG00000215966	ENST00000401147	miRNA	KNOWN	None	33653	None	None	28863624	28863704	-1	MIRN876	hsa-mir-876
15	None	ENSG00000259635	ENST00000560387	antisense	KNOWN	None	None	None	None	64993447	65011801	1	None	None
17	AATK-AS1	ENSG00000225180	ENST00000414089	antisense	KNOWN	None	40053	None	None	79139307	79156964	1	None	None
17	AATK-AS1	ENSG00000225180	ENST00000571031	antisense	KNOWN	None	40053	None	None	79139316	79155778	1	None	None
9	MIR873	ENSG00000215939	ENST00000401120	miRNA	KNOWN	None	33663	None	None	28888877	28888953	-1	MIRN873	hsa-mir-873
5	IRX1	ENSG00000170549	ENST00000302006	protein_coding	KNOWN	CCDS34132	14358	1443	480	3596168	3601517	1	None	IRX-5
14	SNORD114-2	ENSG00000200823	ENST00000363953	snoRNA	KNOWN	None	32990	None	None	101418193	101418270	1	None	14q(II-2)
5	None	ENSG00000248175	ENST00000507241	lincRNA	KNOWN	None	None	None	None	114539713	114541943	-1	None	None
8	None	ENSG00000207036	ENST00000384309	misc_RNA	NOVEL	None	None	None	None	71269582	71269683	1	None	None
22	SLC25A15P5	ENSG00000249288	ENST00000508033	unprocessed_pseudogene	KNOWN	None	39846	None	None	17126585	17127471	-1	None	None
22	None	ENSG00000233080	ENST00000423311	processed_transcript	KNOWN	None	None	None	None	35515817	35627049	-1	None	None
2	THUMPD2	ENSG00000138050	ENST00000460072	retained_intron	KNOWN	None	14890	None	None	39963200	39997153	-1	C2orf8	MGC2454
2	THUMPD2	ENSG00000138050	ENST00000505747	protein_coding	KNOWN	CCDS1805	14890	1512	503	39963445	40006407	-1	C2orf8	MGC2454
2	THUMPD2	ENSG00000138050	ENST00000378727	nonsense_mediated_decay	KNOWN	None	14890	912	303	39963447	40006407	-1	C2orf8	MGC2454
2	THUMPD2	ENSG00000138050	ENST00000530522	nonsense_mediated_decay	KNOWN	None	14890	267	88	39963750	40006361	-1	C2orf8	MGC2454
2	THUMPD2	ENSG00000138050	ENST00000530095	retained_intron	KNOWN	None	14890	None	None	39963823	39971794	-1	C2orf8	MGC2454
2	THUMPD2	ENSG00000138050	ENST00000510781	nonsense_mediated_decay	KNOWN	None	14890	876	291	39988472	40006292	-1	C2orf8	MGC2454
2	THUMPD2	ENSG00000138050	ENST00000527689	retained_intron	KNOWN	None	14890	None	None	39988505	39993352	-1	C2orf8	MGC2454
2	THUMPD2	ENSG00000138050	ENST00000403537	processed_transcript	KNOWN	None	14890	None	None	39996043	40006379	-1	C2orf8	MGC2454
2	THUMPD2	ENSG00000138050	ENST00000531687	processed_transcript	PUTATIVE	None	14890	None	None	39997157	40006380	-1	C2orf8	MGC2454
2	THUMPD2	ENSG00000138050	ENST00000260619	protein_coding	KNOWN	None	14890	1422	473	39963875	40006289	-1	C2orf8	MGC2454
2	THUMPD2	ENSG00000138050	ENST00000454352	protein_coding	KNOWN	None	14890	873	290	39988472	40006292	-1	C2orf8	MGC2454
7	CCT6P3	ENSG00000234585	ENST00000419314	retained_intron	KNOWN	None	35137	None	None	64498732	64535091	1	None	None
7	CCT6P3	ENSG00000234585	ENST00000426828	processed_transcript	KNOWN	None	35137	None	None	64498738	64535091	1	None	None
7	CCT6P3	ENSG00000234585	ENST00000452026	transcribed_unprocessed_pseudogene	KNOWN	None	35137	None	None	64525377	64534226	1	None	None
11	APOA5	ENSG00000110243	ENST00000227665	protein_coding	KNOWN	CCDS8376	17288	1101	366	116660083	116662611	-1	None	RAP3, APOA-V
11	APOA5	ENSG00000110243	ENST00000433069	protein_coding	KNOWN	None	17288	486	161	116661459	116663127	-1	None	RAP3, APOA-V
11	APOA5	ENSG00000110243	ENST00000542499	protein_coding	KNOWN	CCDS8376	17288	1101	366	116660089	116663136	-1	None	RAP3, APOA-V
19	None	ENSG00000268713	ENST00000600047	lincRNA	KNOWN	None	None	None	None	57772722	57774106	1	None	None
5	None	ENSG00000271797	ENST00000606615	antisense	KNOWN	None	None	None	None	114598202	114599145	1	None	None
22	None	ENSG00000238153	ENST00000414048	processed_pseudogene	KNOWN	None	None	None	None	35560297	35561340	1	None	None
1	DDOST	ENSG00000244038	ENST00000602624	protein_coding	NOVEL	None	2728	1320	439	20978270	20987884	-1	None	OST, KIAA0115, OST48, WBP1
1	DDOST	ENSG00000244038	ENST00000375048	protein_coding	KNOWN	CCDS212	2728	1371	456	20978270	20988000	-1	None	OST, KIAA0115, OST48, WBP1
1	DDOST	ENSG00000244038	ENST00000475210	processed_transcript	KNOWN	None	2728	None	None	20979127	20979577	-1	None	OST, KIAA0115, OST48, WBP1
1	DDOST	ENSG00000244038	ENST00000464364	protein_coding	NOVEL	None	2728	464	153	20981933	20987881	-1	None	OST, KIAA0115, OST48, WBP1
1	DDOST	ENSG00000244038	ENST00000477229	processed_transcript	KNOWN	None	2728	None	None	20986892	20987862	-1	None	OST, KIAA0115, OST48, WBP1
1	DDOST	ENSG00000244038	ENST00000415136	protein_coding	KNOWN	None	2728	1260	419	20978547	20987898	-1	None	OST, KIAA0115, OST48, WBP1
4	MRPL22P1	ENSG00000250324	ENST00000505398	processed_pseudogene	KNOWN	None	29700	None	None	57186885	57187500	-1	None	None
1	None	ENSG00000228037	ENST00000424215	antisense	KNOWN	None	None	None	None	2512999	2515972	1	None	None
X	ATXN3L	ENSG00000123594	ENST00000380622	protein_coding	KNOWN	CCDS48080	24173	1068	355	13336770	13338518	-1	None	MJDL
1	CALML6	ENSG00000169885	ENST00000307786	protein_coding	KNOWN	CCDS30566	24193	546	181	1846266	1848733	1	None	CAGLP
1	CALML6	ENSG00000169885	ENST00000378604	protein_coding	NOVEL	None	24193	495	164	1846547	1848733	1	None	CAGLP
1	CALML6	ENSG00000169885	ENST00000482402	retained_intron	KNOWN	None	24193	None	None	1846705	1848735	1	None	CAGLP
1	CALML6	ENSG00000169885	ENST00000462293	processed_transcript	KNOWN	None	24193	None	None	1846848	1848510	1	None	CAGLP
17	None	ENSG00000262115	ENST00000571085	antisense	KNOWN	None	None	None	None	79171193	79174088	1	None	None
19	None	ENSG00000267871	ENST00000601567	antisense	KNOWN	None	None	None	None	57778588	57791676	-1	None	None
19	None	ENSG00000267871	ENST00000597601	antisense	KNOWN	None	None	None	None	57778744	57791702	-1	None	None
5	None	ENSG00000243304	ENST00000497612	processed_pseudogene	KNOWN	None	None	None	None	114600366	114601161	-1	None	None
4	RNA5SP162	ENSG00000251823	ENST00000516014	rRNA	KNOWN	None	43062	None	None	57197343	57197383	-1	RN5S162	None
HG1133_PATCH	TAS2R8	ENSG00000272001	ENST00000573426	protein_coding	KNOWN	None	14915	930	309	10958650	10959892	-1	None	T2R8, TRB5
4	RPL7AP31	ENSG00000242083	ENST00000470544	processed_pseudogene	KNOWN	None	36857	None	None	57222301	57223098	1	None	None
19	None	ENSG00000268205	ENST00000593427	lincRNA	KNOWN	None	None	None	None	57815673	57819930	1	None	None
16	None	ENSG00000262118	ENST00000574177	processed_pseudogene	KNOWN	None	None	None	None	3417719	3419246	-1	None	None
10	MIR603	ENSG00000207930	ENST00000385195	miRNA	KNOWN	None	32859	None	None	24564614	24564710	1	MIRN603	hsa-mir-603
13	VPS36	ENSG00000136100	ENST00000378060	protein_coding	KNOWN	CCDS9434	20312	1161	386	52986737	53024757	-1	C13orf9	CGI-145, Eap45
13	VPS36	ENSG00000136100	ENST00000497149	processed_transcript	KNOWN	None	20312	None	None	52987289	52990442	-1	C13orf9	CGI-145, Eap45
13	VPS36	ENSG00000136100	ENST00000462289	processed_transcript	KNOWN	None	20312	None	None	52989660	52990296	-1	C13orf9	CGI-145, Eap45
13	VPS36	ENSG00000136100	ENST00000492650	processed_transcript	KNOWN	None	20312	None	None	52999905	53003502	-1	C13orf9	CGI-145, Eap45
13	VPS36	ENSG00000136100	ENST00000480923	processed_transcript	KNOWN	None	20312	None	None	53008973	53024379	-1	C13orf9	CGI-145, Eap45
13	VPS36	ENSG00000136100	ENST00000475375	retained_intron	KNOWN	None	20312	None	None	53010056	53024763	-1	C13orf9	CGI-145, Eap45
17	None	ENSG00000260005	ENST00000575922	antisense	KNOWN	None	None	None	None	79202507	79207783	1	None	None
17	None	ENSG00000260005	ENST00000569559	antisense	KNOWN	None	None	None	None	79203141	79206006	1	None	None
4	None	ENSG00000269921	ENST00000602927	lincRNA	KNOWN	None	None	None	None	57253791	57254319	1	None	None
22	COX7BP1	ENSG00000243453	ENST00000458450	processed_pseudogene	KNOWN	None	16529	None	None	35590692	35590935	-1	None	bK714B7.1
HG987_PATCH	None	ENSG00000261142	ENST00000568122	processed_pseudogene	KNOWN	None	None	None	None	21407870	21408371	1	None	None
5	HMGN1P15	ENSG00000250197	ENST00000513870	processed_pseudogene	KNOWN	None	39359	None	None	114624733	114625027	-1	None	None
6	GLTSCR1L	ENSG00000112624	ENST00000314073	protein_coding	KNOWN	CCDS34451	21111	3240	1079	42749765	42836298	1	KIAA0240	None
6	GLTSCR1L	ENSG00000112624	ENST00000394168	protein_coding	KNOWN	CCDS34451	21111	3240	1079	42788794	42836296	1	KIAA0240	None
22	RNU7-167P	ENSG00000238584	ENST00000459160	snRNA	KNOWN	None	45701	None	None	35645765	35645826	1	None	None
19	None	ENSG00000268723	ENST00000596280	processed_pseudogene	KNOWN	None	None	None	None	57828576	57828930	-1	None	None
10	ZWINT	ENSG00000122952	ENST00000373944	protein_coding	KNOWN	CCDS7249	13195	834	277	58116989	58121036	-1	None	KNTC2AP
10	ZWINT	ENSG00000122952	ENST00000494312	retained_intron	KNOWN	None	13195	None	None	58117199	58121020	-1	None	KNTC2AP
10	ZWINT	ENSG00000122952	ENST00000318387	protein_coding	KNOWN	None	13195	474	157	58117206	58119519	-1	None	KNTC2AP
10	ZWINT	ENSG00000122952	ENST00000489649	nonsense_mediated_decay	KNOWN	None	13195	147	48	58117240	58121026	-1	None	KNTC2AP
10	ZWINT	ENSG00000122952	ENST00000460654	processed_transcript	KNOWN	None	13195	None	None	58117577	58119492	-1	None	KNTC2AP
10	ZWINT	ENSG00000122952	ENST00000361148	protein_coding	KNOWN	CCDS31205	13195	693	230	58117904	58121027	-1	None	KNTC2AP
10	ZWINT	ENSG00000122952	ENST00000478181	processed_transcript	KNOWN	None	13195	None	None	58117948	58119903	-1	None	KNTC2AP
10	ZWINT	ENSG00000122952	ENST00000467523	processed_transcript	KNOWN	None	13195	None	None	58118392	58120142	-1	None	KNTC2AP
10	ZWINT	ENSG00000122952	ENST00000395405	protein_coding	KNOWN	CCDS7249	13195	834	277	58117199	58121034	-1	None	KNTC2AP
22	MIR3909	ENSG00000266320	ENST00000579518	miRNA	KNOWN	None	38987	None	None	35731633	35731751	1	None	hsa-mir-3909
X	PDZD4	ENSG00000067840	ENST00000164640	protein_coding	KNOWN	CCDS14732	21167	2310	769	153067621	153095945	-1	PDZK4	KIAA1444, LU1, FLJ34125, PDZRN4L
X	PDZD4	ENSG00000067840	ENST00000484792	processed_transcript	KNOWN	None	21167	None	None	153070334	153073594	-1	PDZK4	KIAA1444, LU1, FLJ34125, PDZRN4L
X	PDZD4	ENSG00000067840	ENST00000475140	processed_transcript	KNOWN	None	21167	None	None	153070548	153095311	-1	PDZK4	KIAA1444, LU1, FLJ34125, PDZRN4L
X	PDZD4	ENSG00000067840	ENST00000483693	processed_transcript	KNOWN	None	21167	None	None	153071000	153095598	-1	PDZK4	KIAA1444, LU1, FLJ34125, PDZRN4L
X	PDZD4	ENSG00000067840	ENST00000480418	processed_transcript	KNOWN	None	21167	None	None	153071037	153096020	-1	PDZK4	KIAA1444, LU1, FLJ34125, PDZRN4L
X	PDZD4	ENSG00000067840	ENST00000468491	processed_transcript	KNOWN	None	21167	None	None	153072782	153095125	-1	PDZK4	KIAA1444, LU1, FLJ34125, PDZRN4L
X	PDZD4	ENSG00000067840	ENST00000480650	processed_transcript	KNOWN	None	21167	None	None	153073438	153095792	-1	PDZK4	KIAA1444, LU1, FLJ34125, PDZRN4L
X	PDZD4	ENSG00000067840	ENST00000544474	protein_coding	KNOWN	None	21167	1983	660	153068742	153095813	-1	PDZK4	KIAA1444, LU1, FLJ34125, PDZRN4L
X	PDZD4	ENSG00000067840	ENST00000393758	protein_coding	KNOWN	None	21167	2085	694	153067623	153095351	-1	PDZK4	KIAA1444, LU1, FLJ34125, PDZRN4L
16	None	ENSG00000263177	ENST00000571424	processed_pseudogene	KNOWN	None	None	None	None	3419957	3420906	-1	None	None
4	None	ENSG00000270147	ENST00000602749	lincRNA	KNOWN	None	None	None	None	57262478	57263037	1	None	None
HSCHR6_MHC_DBB	C6orf25	ENSG00000224393	ENST00000473930	retained_intron	KNOWN	None	13937	None	None	31668544	31676660	1	None	G6b, NG31
HSCHR6_MHC_DBB	C6orf25	ENSG00000224393	ENST00000451549	protein_coding	KNOWN	None	13937	714	237	31673323	31676660	1	None	G6b, NG31
HSCHR6_MHC_DBB	C6orf25	ENSG00000224393	ENST00000445381	protein_coding	KNOWN	None	13937	654	217	31673334	31676660	1	None	G6b, NG31
HSCHR6_MHC_DBB	C6orf25	ENSG00000224393	ENST00000425998	protein_coding	KNOWN	None	13937	582	193	31673334	31676660	1	None	G6b, NG31
HSCHR6_MHC_DBB	C6orf25	ENSG00000224393	ENST00000455185	protein_coding	KNOWN	None	13937	594	197	31673334	31676660	1	None	G6b, NG31
HSCHR6_MHC_DBB	C6orf25	ENSG00000224393	ENST00000474164	retained_intron	KNOWN	None	13937	None	None	31673334	31676660	1	None	G6b, NG31
HSCHR6_MHC_DBB	C6orf25	ENSG00000224393	ENST00000483796	retained_intron	KNOWN	None	13937	None	None	31673334	31676660	1	None	G6b, NG31
HSCHR6_MHC_DBB	C6orf25	ENSG00000224393	ENST00000415728	protein_coding	KNOWN	None	13937	726	241	31673334	31676660	1	None	G6b, NG31
22	PISD	ENSG00000241878	ENST00000382151	protein_coding	KNOWN	CCDS13899	8999	1128	375	32014477	32024207	-1	None	dJ858B16.2, PSDC
22	PISD	ENSG00000241878	ENST00000460723	retained_intron	KNOWN	None	8999	None	None	32014477	32058201	-1	None	dJ858B16.2, PSDC
22	PISD	ENSG00000241878	ENST00000437808	nonsense_mediated_decay	KNOWN	None	8999	171	56	32014497	32058207	-1	None	dJ858B16.2, PSDC
22	PISD	ENSG00000241878	ENST00000473770	retained_intron	KNOWN	None	8999	None	None	32014545	32026848	-1	None	dJ858B16.2, PSDC
22	PISD	ENSG00000241878	ENST00000397500	protein_coding	NOVEL	None	8999	789	262	32014600	32026817	-1	None	dJ858B16.2, PSDC
22	PISD	ENSG00000241878	ENST00000435900	protein_coding	NOVEL	None	8999	1088	361	32014963	32058166	-1	None	dJ858B16.2, PSDC
22	PISD	ENSG00000241878	ENST00000439502	protein_coding	KNOWN	None	8999	1230	409	32015089	32058418	-1	None	dJ858B16.2, PSDC
22	PISD	ENSG00000241878	ENST00000474017	retained_intron	KNOWN	None	8999	None	None	32015430	32058189	-1	None	dJ858B16.2, PSDC
22	PISD	ENSG00000241878	ENST00000478893	processed_transcript	KNOWN	None	8999	None	None	32016539	32021772	-1	None	dJ858B16.2, PSDC
22	PISD	ENSG00000241878	ENST00000491342	processed_transcript	KNOWN	None	8999	None	None	32016564	32034384	-1	None	dJ858B16.2, PSDC
22	PISD	ENSG00000241878	ENST00000422020	protein_coding	KNOWN	None	8999	684	227	32017040	32024968	-1	None	dJ858B16.2, PSDC
22	PISD	ENSG00000241878	ENST00000442379	protein_coding	KNOWN	None	8999	243	80	32017848	32022280	-1	None	dJ858B16.2, PSDC
22	PISD	ENSG00000241878	ENST00000431201	protein_coding	KNOWN	None	8999	219	72	32019670	32034391	-1	None	dJ858B16.2, PSDC
22	PISD	ENSG00000241878	ENST00000429683	protein_coding	KNOWN	None	8999	219	72	32019670	32034431	-1	None	dJ858B16.2, PSDC
22	PISD	ENSG00000241878	ENST00000486675	processed_transcript	KNOWN	None	8999	None	None	32021808	32025992	-1	None	dJ858B16.2, PSDC
22	PISD	ENSG00000241878	ENST00000479851	processed_transcript	KNOWN	None	8999	None	None	32021864	32026785	-1	None	dJ858B16.2, PSDC
22	PISD	ENSG00000241878	ENST00000336566	protein_coding	KNOWN	None	8999	1227	408	32015089	32058194	-1	None	dJ858B16.2, PSDC
22	PISD	ENSG00000241878	ENST00000266095	protein_coding	KNOWN	CCDS13899	8999	1128	375	32014501	32026810	-1	None	dJ858B16.2, PSDC
19	None	ENSG00000268678	ENST00000597973	antisense	KNOWN	None	None	None	None	57862216	57863380	-1	None	None
22	None	ENSG00000240293	ENST00000417343	processed_transcript	KNOWN	None	None	None	None	35796135	35806001	1	None	None
4	None	ENSG00000270109	ENST00000602434	lincRNA	KNOWN	None	None	None	None	57330324	57330745	1	None	None
5	None	ENSG00000249026	ENST00000515849	processed_pseudogene	KNOWN	None	None	None	None	114725340	114728067	-1	None	None
3	PLA1A	ENSG00000144837	ENST00000273371	protein_coding	KNOWN	CCDS2991	17661	1371	456	119316689	119348658	1	None	ps-PLA1
3	PLA1A	ENSG00000144837	ENST00000488919	protein_coding	PUTATIVE	CCDS56269	17661	852	283	119316722	119348563	1	None	ps-PLA1
3	PLA1A	ENSG00000144837	ENST00000495992	protein_coding	KNOWN	CCDS56268	17661	1323	440	119316732	119348658	1	None	ps-PLA1
3	PLA1A	ENSG00000144837	ENST00000472126	retained_intron	KNOWN	None	17661	None	None	119317432	119325944	1	None	ps-PLA1
3	PLA1A	ENSG00000144837	ENST00000494440	protein_coding	PUTATIVE	None	17661	1323	440	119319118	119348658	1	None	ps-PLA1
3	PLA1A	ENSG00000144837	ENST00000475963	protein_coding	PUTATIVE	None	17661	675	224	119327744	119339040	1	None	ps-PLA1
17	LINC00482	ENSG00000185168	ENST00000332012	lincRNA	KNOWN	None	26816	None	None	79277571	79283048	-1	C17orf55	FLJ39421
17	LINC00482	ENSG00000185168	ENST00000577000	lincRNA	KNOWN	None	26816	None	None	79279126	79281527	-1	C17orf55	FLJ39421
HG183_PATCH	None	ENSG00000261138	ENST00000566886	processed_pseudogene	KNOWN	None	None	None	None	62385676	62386050	-1	None	None
22	None	ENSG00000233388	ENST00000417397	processed_pseudogene	KNOWN	None	None	None	None	35897908	35899633	-1	None	None
19	VN1R107P	ENSG00000268545	ENST00000601784	unprocessed_pseudogene	KNOWN	None	37431	None	None	57971280	57971488	1	None	None
HSCHR17_4_CTG4	KRT39	ENSG00000262164	ENST00000575391	protein_coding	KNOWN	None	32971	1476	491	39114796	39123271	-1	None	KA35
HSCHR17_4_CTG4	KRT39	ENSG00000262164	ENST00000580328	nonsense_mediated_decay	KNOWN	None	32971	555	184	39114841	39123265	-1	None	KA35
HSCHR17_4_CTG4	KRT39	ENSG00000262164	ENST00000577373	retained_intron	KNOWN	None	32971	None	None	39114879	39117076	-1	None	KA35
4	GLDCP1	ENSG00000248590	ENST00000510885	transcribed_processed_pseudogene	KNOWN	None	4314	None	None	57459170	57461847	1	GLDCP	None
X	None	ENSG00000263425	ENST00000581149	miRNA	NOVEL	None	None	None	None	23774289	23774398	1	None	None
16	None	ENSG00000263212	ENST00000574423	processed_transcript	KNOWN	None	None	None	None	3508071	3565564	1	None	None
19	None	ENSG00000268266	ENST00000595422	lincRNA	KNOWN	None	None	None	None	57989017	57994364	1	None	None
19	None	ENSG00000268266	ENST00000594562	lincRNA	KNOWN	None	None	None	None	57989067	57993373	1	None	None
1	None	ENSG00000237058	ENST00000427302	antisense	KNOWN	None	None	None	None	2564007	2568059	1	None	None
X	None	ENSG00000233785	ENST00000366134	antisense	KNOWN	None	None	None	None	23791109	23801073	-1	None	None
5	AK3P4	ENSG00000248722	ENST00000504283	processed_pseudogene	KNOWN	None	39063	None	None	114738077	114738659	1	None	None
17	None	ENSG00000267075	ENST00000591705	lincRNA	KNOWN	None	None	None	None	20448684	20453265	1	None	None
19	None	ENSG00000268392	ENST00000599190	lincRNA	KNOWN	None	None	None	None	58136400	58138318	1	None	None
X	None	ENSG00000202272	ENST00000365402	misc_RNA	NOVEL	None	None	None	None	23800327	23800427	1	None	None
17	None	ENSG00000230339	ENST00000451011	processed_pseudogene	KNOWN	None	None	None	None	20457450	20457693	1	None	None
19	None	ENSG00000269796	ENST00000599129	lincRNA	KNOWN	None	None	None	None	22605315	22608847	1	None	None
10	DNA2	ENSG00000138346	ENST00000551118	protein_coding	PUTATIVE	None	2939	2403	800	70173821	70231643	-1	DNA2L	KIAA0083
10	DNA2	ENSG00000138346	ENST00000358410	protein_coding	KNOWN	None	2939	3183	1060	70173822	70231672	-1	DNA2L	KIAA0083
10	DNA2	ENSG00000138346	ENST00000440722	protein_coding	PUTATIVE	None	2939	1126	374	70176372	70190364	-1	DNA2L	KIAA0083
10	DNA2	ENSG00000138346	ENST00000550545	retained_intron	KNOWN	None	2939	None	None	70176443	70179180	-1	DNA2L	KIAA0083
10	DNA2	ENSG00000138346	ENST00000478029	retained_intron	KNOWN	None	2939	None	None	70196611	70202763	-1	DNA2L	KIAA0083
10	DNA2	ENSG00000138346	ENST00000550357	nonsense_mediated_decay	KNOWN	None	2939	120	39	70227924	70231643	-1	DNA2L	KIAA0083
10	DNA2	ENSG00000138346	ENST00000399180	protein_coding	KNOWN	None	2939	3441	1146	70173821	70231879	-1	DNA2L	KIAA0083
10	DNA2	ENSG00000138346	ENST00000399179	protein_coding	KNOWN	None	2939	2469	822	70173821	70231879	-1	DNA2L	KIAA0083
X	RPL9P7	ENSG00000238103	ENST00000330965	processed_pseudogene	KNOWN	None	30335	None	None	23854859	23855438	-1	RPL9P1, RPL9L1	None
X	RPL9P7	ENSG00000238103	ENST00000418824	pseudogene	KNOWN	None	30335	None	None	23854761	23855459	-1	RPL9P1, RPL9L1	None
17	None	ENSG00000263946	ENST00000583797	transcribed_processed_pseudogene	KNOWN	None	None	None	None	20458284	20458872	-1	None	None
17	None	ENSG00000263946	ENST00000579603	processed_transcript	KNOWN	None	None	None	None	20458740	20462723	-1	None	None
19	None	ENSG00000269097	ENST00000598702	processed_pseudogene	KNOWN	None	None	None	None	58175648	58176407	1	None	None
19	None	ENSG00000268830	ENST00000600015	processed_pseudogene	KNOWN	None	None	None	None	22630736	22631579	-1	None	None
17	None	ENSG00000263154	ENST00000574472	processed_transcript	PUTATIVE	None	None	None	None	79336072	79348014	1	None	None
19	None	ENSG00000264453	ENST00000582304	miRNA	NOVEL	None	None	None	None	58249833	58249918	1	None	None
12	ASUN	ENSG00000064102	ENST00000538155	protein_coding	NOVEL	None	20174	1062	353	27058114	27070667	-1	C12orf11	FLJ10637, NET48, Mat89Bb, SPATA30
12	ASUN	ENSG00000064102	ENST00000261191	protein_coding	KNOWN	CCDS8708	20174	2121	706	27058114	27091254	-1	C12orf11	FLJ10637, NET48, Mat89Bb, SPATA30
12	ASUN	ENSG00000064102	ENST00000538016	retained_intron	KNOWN	None	20174	None	None	27058118	27059417	-1	C12orf11	FLJ10637, NET48, Mat89Bb, SPATA30
12	ASUN	ENSG00000064102	ENST00000542392	protein_coding	NOVEL	None	20174	668	221	27066953	27072002	-1	C12orf11	FLJ10637, NET48, Mat89Bb, SPATA30
12	ASUN	ENSG00000064102	ENST00000536232	protein_coding	NOVEL	None	20174	460	152	27066979	27077364	-1	C12orf11	FLJ10637, NET48, Mat89Bb, SPATA30
12	ASUN	ENSG00000064102	ENST00000538727	protein_coding	KNOWN	None	20174	372	123	27078694	27090905	-1	C12orf11	FLJ10637, NET48, Mat89Bb, SPATA30
12	ASUN	ENSG00000064102	ENST00000544548	protein_coding	KNOWN	None	20174	675	224	27078694	27091237	-1	C12orf11	FLJ10637, NET48, Mat89Bb, SPATA30
12	ASUN	ENSG00000064102	ENST00000538748	retained_intron	KNOWN	None	20174	None	None	27081187	27081989	-1	C12orf11	FLJ10637, NET48, Mat89Bb, SPATA30
12	ASUN	ENSG00000064102	ENST00000537336	protein_coding	KNOWN	None	20174	490	162	27081649	27091259	-1	C12orf11	FLJ10637, NET48, Mat89Bb, SPATA30
12	ASUN	ENSG00000064102	ENST00000539625	protein_coding	KNOWN	None	20174	1818	605	27058118	27090905	-1	C12orf11	FLJ10637, NET48, Mat89Bb, SPATA30
1	SH3GLB1	ENSG00000097033	ENST00000370558	protein_coding	KNOWN	CCDS710	10833	1098	365	87170259	87213867	1	None	CGI-61, KIAA0491, Bif-1, PPP1R70
1	SH3GLB1	ENSG00000097033	ENST00000482504	protein_coding	KNOWN	CCDS55612	10833	1161	386	87170578	87208951	1	None	CGI-61, KIAA0491, Bif-1, PPP1R70
1	SH3GLB1	ENSG00000097033	ENST00000602603	retained_intron	KNOWN	None	10833	None	None	87199927	87204378	1	None	CGI-61, KIAA0491, Bif-1, PPP1R70
1	SH3GLB1	ENSG00000097033	ENST00000535010	protein_coding	KNOWN	CCDS55613	10833	798	265	87170300	87209071	1	None	CGI-61, KIAA0491, Bif-1, PPP1R70
HG325_PATCH	NAT6	ENSG00000261871	ENST00000571097	protein_coding	KNOWN	None	30252	927	308	50333834	50336848	-1	None	FUS2
HG325_PATCH	NAT6	ENSG00000261871	ENST00000570345	protein_coding	KNOWN	None	30252	861	286	50333836	50336291	-1	None	FUS2
HG325_PATCH	NAT6	ENSG00000261871	ENST00000575928	protein_coding	KNOWN	None	30252	861	286	50333850	50336853	-1	None	FUS2
HG325_PATCH	NAT6	ENSG00000261871	ENST00000573208	protein_coding	KNOWN	None	30252	861	286	50333884	50336832	-1	None	FUS2
HG325_PATCH	NAT6	ENSG00000261871	ENST00000577007	protein_coding	KNOWN	None	30252	259	85	50334637	50336549	-1	None	FUS2
HG325_PATCH	NAT6	ENSG00000261871	ENST00000571600	protein_coding	KNOWN	None	30252	171	56	50334725	50336321	-1	None	FUS2
HG325_PATCH	NAT6	ENSG00000261871	ENST00000572854	protein_coding	KNOWN	None	30252	28	8	50334868	50336321	-1	None	FUS2
19	None	ENSG00000269304	ENST00000594588	processed_pseudogene	KNOWN	None	None	None	None	58337829	58338146	-1	None	None
17	COTL1P2	ENSG00000235323	ENST00000455360	processed_pseudogene	KNOWN	None	24322	None	None	20467851	20468202	1	CLPSMCR	None
7	CUL1	ENSG00000055130	ENST00000409469	protein_coding	KNOWN	CCDS34772	2551	2331	776	148395006	148497674	1	None	None
7	CUL1	ENSG00000055130	ENST00000602748	protein_coding	KNOWN	CCDS34772	2551	2331	776	148395737	148498117	1	None	None
7	CUL1	ENSG00000055130	ENST00000325222	protein_coding	KNOWN	CCDS34772	2551	2331	776	148396004	148498128	1	None	None
12	None	ENSG00000256811	ENST00000543848	antisense	KNOWN	None	None	None	None	122294165	122294965	1	None	None
1	None	ENSG00000233234	ENST00000457440	lincRNA	KNOWN	None	None	None	None	2728415	2729257	-1	None	None
8	ADAM28	ENSG00000042980	ENST00000265769	protein_coding	KNOWN	CCDS34865	206	2328	775	24151553	24216531	1	None	eMDCII, MDC-Lm, MDC-Ls, ADAM23
8	ADAM28	ENSG00000042980	ENST00000523379	nonsense_mediated_decay	KNOWN	None	206	177	58	24151582	24168940	1	None	eMDCII, MDC-Lm, MDC-Ls, ADAM23
8	ADAM28	ENSG00000042980	ENST00000520448	nonsense_mediated_decay	KNOWN	None	206	654	217	24151582	24211985	1	None	eMDCII, MDC-Lm, MDC-Ls, ADAM23
8	ADAM28	ENSG00000042980	ENST00000437154	protein_coding	KNOWN	CCDS47830	206	1623	540	24151624	24193633	1	None	eMDCII, MDC-Lm, MDC-Ls, ADAM23
8	ADAM28	ENSG00000042980	ENST00000523440	retained_intron	KNOWN	None	206	None	None	24157356	24167885	1	None	eMDCII, MDC-Lm, MDC-Ls, ADAM23
8	ADAM28	ENSG00000042980	ENST00000518516	processed_transcript	KNOWN	None	206	None	None	24180121	24190193	1	None	eMDCII, MDC-Lm, MDC-Ls, ADAM23
8	ADAM28	ENSG00000042980	ENST00000521110	processed_transcript	KNOWN	None	206	None	None	24182550	24190238	1	None	eMDCII, MDC-Lm, MDC-Ls, ADAM23
8	ADAM28	ENSG00000042980	ENST00000521629	protein_coding	NOVEL	None	206	1162	386	24188663	24212583	1	None	eMDCII, MDC-Lm, MDC-Ls, ADAM23
8	ADAM28	ENSG00000042980	ENST00000523236	retained_intron	KNOWN	None	206	None	None	24198382	24207398	1	None	eMDCII, MDC-Lm, MDC-Ls, ADAM23
8	ADAM28	ENSG00000042980	ENST00000518326	protein_coding	PUTATIVE	None	206	523	173	24199165	24209053	1	None	eMDCII, MDC-Lm, MDC-Ls, ADAM23
8	ADAM28	ENSG00000042980	ENST00000520665	retained_intron	KNOWN	None	206	None	None	24200473	24208996	1	None	eMDCII, MDC-Lm, MDC-Ls, ADAM23
8	ADAM28	ENSG00000042980	ENST00000518737	processed_transcript	PUTATIVE	None	206	None	None	24204461	24209021	1	None	eMDCII, MDC-Lm, MDC-Ls, ADAM23
8	ADAM28	ENSG00000042980	ENST00000540823	protein_coding	KNOWN	None	206	924	307	24151582	24193572	1	None	eMDCII, MDC-Lm, MDC-Ls, ADAM23
8	ADAM28	ENSG00000042980	ENST00000397649	protein_coding	KNOWN	None	206	1452	483	24151582	24211985	1	None	eMDCII, MDC-Lm, MDC-Ls, ADAM23
17	None	ENSG00000262223	ENST00000572077	lincRNA	KNOWN	None	None	None	None	79349801	79359160	-1	None	None
17	None	ENSG00000262223	ENST00000570929	lincRNA	KNOWN	None	None	None	None	79349819	79353723	-1	None	None
17	None	ENSG00000262223	ENST00000570301	lincRNA	KNOWN	None	None	None	None	79349822	79358929	-1	None	None
17	None	ENSG00000262223	ENST00000574041	lincRNA	KNOWN	None	None	None	None	79353398	79359046	-1	None	None
17	None	ENSG00000262223	ENST00000572301	lincRNA	KNOWN	None	None	None	None	79353467	79359021	-1	None	None
17	None	ENSG00000262223	ENST00000596728	lincRNA	KNOWN	None	None	None	None	79352934	79353635	-1	None	None
19	None	ENSG00000269867	ENST00000597780	sense_intronic	KNOWN	None	None	None	None	58378406	58379540	-1	None	None
17	None	ENSG00000264422	ENST00000580931	lincRNA	KNOWN	None	None	None	None	20479980	20482061	-1	None	None
12	RNU7-170P	ENSG00000239082	ENST00000459303	snRNA	KNOWN	None	45704	None	None	122346009	122346069	1	None	None
X	None	ENSG00000240556	ENST00000457332	processed_transcript	PUTATIVE	None	None	None	None	24091379	24095525	1	None	None
2	SEPHS1P6	ENSG00000213938	ENST00000443084	processed_pseudogene	KNOWN	None	42168	None	None	200524274	200525452	1	None	None
12	None	ENSG00000255856	ENST00000538710	lincRNA	KNOWN	None	None	None	None	122445340	122457920	-1	None	None
X	None	ENSG00000201407	ENST00000364537	snoRNA	NOVEL	None	None	None	None	24151303	24151434	1	None	None
17	ZSWIM5P2	ENSG00000231258	ENST00000420212	unprocessed_pseudogene	KNOWN	None	43769	None	None	20487071	20494493	-1	None	None
7	None	ENSG00000233539	ENST00000487094	processed_transcript	KNOWN	None	None	None	None	46713383	46799449	-1	None	None
7	None	ENSG00000233539	ENST00000451905	protein_coding	PUTATIVE	None	None	318	105	46727477	46736720	-1	None	None
7	None	ENSG00000233539	ENST00000469937	processed_transcript	KNOWN	None	None	None	None	46728538	46799442	-1	None	None
HG962_PATCH	None	ENSG00000266622	ENST00000582801	antisense	KNOWN	None	None	None	None	70843567	70844228	1	None	None
HSCHR6_MHC_SSTO	TRIM31	ENSG00000224168	ENST00000445679	protein_coding	KNOWN	None	16289	1278	425	30060269	30070469	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_SSTO	TRIM31	ENSG00000224168	ENST00000477579	processed_transcript	KNOWN	None	16289	None	None	30060269	30070251	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_SSTO	TRIM31	ENSG00000224168	ENST00000482981	retained_intron	KNOWN	None	16289	None	None	30060269	30063026	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_SSTO	TRIM31	ENSG00000224168	ENST00000475301	processed_transcript	KNOWN	None	16289	None	None	30060734	30067885	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_SSTO	TRIM31	ENSG00000224168	ENST00000462463	retained_intron	KNOWN	None	16289	None	None	30061245	30065568	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_SSTO	TRIM31	ENSG00000224168	ENST00000482298	retained_intron	KNOWN	None	16289	None	None	30061303	30062809	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_SSTO	TRIM31	ENSG00000224168	ENST00000462071	processed_transcript	KNOWN	None	16289	None	None	30062565	30069549	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_SSTO	TRIM31	ENSG00000224168	ENST00000474867	retained_intron	KNOWN	None	16289	None	None	30066108	30069069	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_SSTO	TRIM31	ENSG00000224168	ENST00000477855	retained_intron	KNOWN	None	16289	None	None	30068581	30069838	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_SSTO	TRIM31	ENSG00000224168	ENST00000550679	protein_coding	KNOWN	None	16289	1278	425	30060271	30070453	-1	None	RNF, HCGI, C6orf13, HCG1
12	None	ENSG00000256546	ENST00000538790	lincRNA	KNOWN	None	None	None	None	122501212	122506522	1	None	None
12	None	ENSG00000256546	ENST00000540968	lincRNA	KNOWN	None	None	None	None	122501255	122502564	1	None	None
12	None	ENSG00000256546	ENST00000423999	lincRNA	KNOWN	None	None	None	None	122502263	122503728	1	None	None
12	None	ENSG00000256546	ENST00000535337	retained_intron	KNOWN	None	None	None	None	122505932	122506464	1	None	None
5	None	ENSG00000272323	ENST00000606401	antisense	KNOWN	None	None	None	None	34837654	34839383	-1	None	None
17	SPATA32	ENSG00000184361	ENST00000588866	nonsense_mediated_decay	KNOWN	None	26349	114	37	43331760	43339457	-1	C17orf46, TEX34	FLJ25414, AEP2, VAD1.2
17	SPATA32	ENSG00000184361	ENST00000586359	nonsense_mediated_decay	KNOWN	None	26349	123	40	43331760	43339461	-1	C17orf46, TEX34	FLJ25414, AEP2, VAD1.2
17	SPATA32	ENSG00000184361	ENST00000331780	protein_coding	KNOWN	CCDS32669	26349	1155	384	43331760	43339479	-1	C17orf46, TEX34	FLJ25414, AEP2, VAD1.2
17	SPATA32	ENSG00000184361	ENST00000543122	protein_coding	KNOWN	None	26349	1092	363	43331760	43339461	-1	C17orf46, TEX34	FLJ25414, AEP2, VAD1.2
HG962_PATCH	None	ENSG00000265586	ENST00000603200	lincRNA	KNOWN	None	None	None	None	70921453	70945352	1	None	None
HG962_PATCH	None	ENSG00000265586	ENST00000580244	lincRNA	KNOWN	None	None	None	None	70937327	70945369	1	None	None
HG962_PATCH	None	ENSG00000265586	ENST00000603494	retained_intron	KNOWN	None	None	None	None	70937407	70945369	1	None	None
HG962_PATCH	None	ENSG00000265586	ENST00000583890	retained_intron	KNOWN	None	None	None	None	70938523	70945369	1	None	None
17	MEIS3P2	ENSG00000188013	ENST00000418141	processed_pseudogene	KNOWN	None	17638	None	None	20492606	20493680	1	None	None
17	MEIS3P2	ENSG00000188013	ENST00000340731	processed_pseudogene	KNOWN	None	17638	None	None	20492371	20494013	1	None	None
3	CADM2	ENSG00000175161	ENST00000383699	protein_coding	KNOWN	CCDS54613	29849	1215	404	85008132	86123579	1	IGSF4D	NECL3, Necl-3, SynCAM2
3	CADM2	ENSG00000175161	ENST00000473523	processed_transcript	KNOWN	None	29849	None	None	85008140	85008787	1	IGSF4D	NECL3, Necl-3, SynCAM2
3	CADM2	ENSG00000175161	ENST00000485126	processed_transcript	KNOWN	None	29849	None	None	85008156	85009589	1	IGSF4D	NECL3, Necl-3, SynCAM2
3	CADM2	ENSG00000175161	ENST00000407528	protein_coding	KNOWN	CCDS54614	29849	1308	435	85008697	86115985	1	IGSF4D	NECL3, Necl-3, SynCAM2
3	CADM2	ENSG00000175161	ENST00000405615	protein_coding	KNOWN	CCDS33792	29849	1314	437	85775632	86115933	1	IGSF4D	NECL3, Necl-3, SynCAM2
2	RAD51AP2	ENSG00000214842	ENST00000399080	protein_coding	KNOWN	CCDS42656	34417	3480	1159	17691851	17699706	-1	None	FLJ17540
15	CHRFAM7A	ENSG00000166664	ENST00000299847	protein_coding	KNOWN	CCDS32184	15781	1239	412	30653796	30685752	-1	None	D-10, CHRNA7-DR1
15	CHRFAM7A	ENSG00000166664	ENST00000401522	protein_coding	KNOWN	CCDS42008	15781	966	321	30654261	30685563	-1	None	D-10, CHRNA7-DR1
15	CHRFAM7A	ENSG00000166664	ENST00000562729	protein_coding	KNOWN	None	15781	313	103	30665196	30686052	-1	None	D-10, CHRNA7-DR1
15	CHRFAM7A	ENSG00000166664	ENST00000567722	processed_transcript	PUTATIVE	None	15781	None	None	30665322	30685864	-1	None	D-10, CHRNA7-DR1
15	CHRFAM7A	ENSG00000166664	ENST00000569278	retained_intron	KNOWN	None	15781	None	None	30675247	30679190	-1	None	D-10, CHRNA7-DR1
15	CHRFAM7A	ENSG00000166664	ENST00000570098	processed_transcript	PUTATIVE	None	15781	None	None	30679147	30686023	-1	None	D-10, CHRNA7-DR1
15	CHRFAM7A	ENSG00000166664	ENST00000397827	protein_coding	KNOWN	CCDS42008	15781	966	321	30653443	30685864	-1	None	D-10, CHRNA7-DR1
17	None	ENSG00000262877	ENST00000571724	processed_transcript	PUTATIVE	None	None	None	None	79361930	79364056	-1	None	None
17	None	ENSG00000232889	ENST00000448505	processed_pseudogene	KNOWN	None	None	None	None	20498844	20499021	1	None	None
1	None	ENSG00000231630	ENST00000429389	lincRNA	KNOWN	None	None	None	None	2730997	2731563	-1	None	None
2	IL36G	ENSG00000136688	ENST00000447128	protein_coding	KNOWN	None	15741	115	37	113730780	113736857	1	IL1F9	IL-1H1, IL-1RP2, IL-1F9, IL1H1, IL1E
2	IL36G	ENSG00000136688	ENST00000376489	protein_coding	NOVEL	None	15741	405	134	113735596	113743131	1	IL1F9	IL-1H1, IL-1RP2, IL-1F9, IL1H1, IL1E
2	IL36G	ENSG00000136688	ENST00000259205	protein_coding	KNOWN	CCDS2108	15741	510	169	113735606	113743242	1	IL1F9	IL-1H1, IL-1RP2, IL-1F9, IL1H1, IL1E
5	MYOZ3	ENSG00000164591	ENST00000517768	protein_coding	KNOWN	CCDS4309	18565	756	251	150040436	150056577	1	None	CS-3, CS3, FRP3
5	MYOZ3	ENSG00000164591	ENST00000297130	protein_coding	KNOWN	CCDS4309	18565	756	251	150040444	150058927	1	None	CS-3, CS3, FRP3
5	MYOZ3	ENSG00000164591	ENST00000517861	retained_intron	KNOWN	None	18565	None	None	150042503	150050470	1	None	CS-3, CS3, FRP3
5	MYOZ3	ENSG00000164591	ENST00000524256	retained_intron	KNOWN	None	18565	None	None	150050983	150052010	1	None	CS-3, CS3, FRP3
5	MYOZ3	ENSG00000164591	ENST00000521300	retained_intron	KNOWN	None	18565	None	None	150051220	150056519	1	None	CS-3, CS3, FRP3
5	MYOZ3	ENSG00000164591	ENST00000523553	protein_coding	PUTATIVE	None	18565	315	104	150051323	150052329	1	None	CS-3, CS3, FRP3
5	MYOZ3	ENSG00000164591	ENST00000520112	protein_coding	PUTATIVE	None	18565	480	159	150051619	150056427	1	None	CS-3, CS3, FRP3
5	MYOZ3	ENSG00000164591	ENST00000456566	processed_transcript	KNOWN	None	18565	None	None	150052214	150058925	1	None	CS-3, CS3, FRP3
5	None	ENSG00000250140	ENST00000515352	processed_pseudogene	KNOWN	None	None	None	None	34860888	34861611	-1	None	None
17	None	ENSG00000226096	ENST00000432861	processed_pseudogene	KNOWN	None	None	None	None	20512775	20512923	-1	None	None
16	TP53TG3B	ENSG00000261509	ENST00000341305	protein_coding	KNOWN	CCDS45477	37202	375	124	33261515	33264716	1	None	None
16	TP53TG3B	ENSG00000261509	ENST00000567724	nonsense_mediated_decay	KNOWN	None	37202	399	132	33262118	33264716	1	None	None
16	TP53TG3B	ENSG00000261509	ENST00000569741	protein_coding	KNOWN	CCDS58459	37202	309	102	33262120	33264029	1	None	None
16	TP53TG3B	ENSG00000261509	ENST00000563564	nonsense_mediated_decay	KNOWN	None	37202	22	6	33262632	33264431	1	None	None
16	TP53TG3B	ENSG00000261509	ENST00000563809	processed_transcript	KNOWN	None	37202	None	None	33262848	33264006	1	None	None
16	TP53TG3B	ENSG00000261509	ENST00000380147	protein_coding	KNOWN	None	37202	399	132	33262137	33262653	1	None	None
2	None	ENSG00000232732	ENST00000601136	lincRNA	KNOWN	None	None	None	None	200732119	200773881	-1	None	None
2	None	ENSG00000232732	ENST00000457577	lincRNA	KNOWN	None	None	None	None	200732303	200775805	-1	None	None
2	None	ENSG00000232732	ENST00000599089	lincRNA	KNOWN	None	None	None	None	200743218	200773881	-1	None	None
2	None	ENSG00000232732	ENST00000593735	lincRNA	KNOWN	None	None	None	None	200743222	200773881	-1	None	None
2	None	ENSG00000232732	ENST00000600604	lincRNA	KNOWN	None	None	None	None	200743223	200773881	-1	None	None
2	None	ENSG00000232732	ENST00000593806	lincRNA	KNOWN	None	None	None	None	200743265	200773881	-1	None	None
2	None	ENSG00000232732	ENST00000600956	lincRNA	KNOWN	None	None	None	None	200743804	200773881	-1	None	None
2	None	ENSG00000232732	ENST00000597899	lincRNA	KNOWN	None	None	None	None	200743839	200773881	-1	None	None
2	None	ENSG00000232732	ENST00000596255	lincRNA	KNOWN	None	None	None	None	200743849	200773881	-1	None	None
2	None	ENSG00000232732	ENST00000594091	lincRNA	KNOWN	None	None	None	None	200743960	200773881	-1	None	None
2	None	ENSG00000232732	ENST00000600829	lincRNA	KNOWN	None	None	None	None	200746667	200773881	-1	None	None
2	None	ENSG00000232732	ENST00000417006	lincRNA	KNOWN	None	None	None	None	200747182	200775678	-1	None	None
2	None	ENSG00000232732	ENST00000597051	lincRNA	KNOWN	None	None	None	None	200758806	200773881	-1	None	None
2	None	ENSG00000232732	ENST00000454153	lincRNA	KNOWN	None	None	None	None	200758886	200773881	-1	None	None
2	None	ENSG00000232732	ENST00000413557	lincRNA	KNOWN	None	None	None	None	200758983	200773881	-1	None	None
2	None	ENSG00000232732	ENST00000598349	lincRNA	KNOWN	None	None	None	None	200759286	200775778	-1	None	None
2	None	ENSG00000232732	ENST00000599977	lincRNA	KNOWN	None	None	None	None	200759286	200775861	-1	None	None
2	None	ENSG00000232732	ENST00000596619	lincRNA	KNOWN	None	None	None	None	200759286	200775882	-1	None	None
2	None	ENSG00000232732	ENST00000600062	retained_intron	KNOWN	None	None	None	None	200759288	200761969	-1	None	None
2	None	ENSG00000232732	ENST00000594069	lincRNA	KNOWN	None	None	None	None	200759292	200774611	-1	None	None
2	None	ENSG00000232732	ENST00000593967	lincRNA	KNOWN	None	None	None	None	200773056	200773881	-1	None	None
19	ICAM3	ENSG00000076662	ENST00000589900	retained_intron	KNOWN	None	5346	None	None	10444452	10450305	-1	None	CDW50, ICAM-R, CD50
19	ICAM3	ENSG00000076662	ENST00000587992	retained_intron	KNOWN	None	5346	None	None	10444452	10450337	-1	None	CDW50, ICAM-R, CD50
19	ICAM3	ENSG00000076662	ENST00000160262	protein_coding	KNOWN	CCDS12235	5346	1644	547	10444452	10450499	-1	None	CDW50, ICAM-R, CD50
19	ICAM3	ENSG00000076662	ENST00000592945	protein_coding	NOVEL	None	5346	579	192	10444454	10445399	-1	None	CDW50, ICAM-R, CD50
19	ICAM3	ENSG00000076662	ENST00000589261	protein_coding	PUTATIVE	None	5346	1413	470	10444455	10450295	-1	None	CDW50, ICAM-R, CD50
19	ICAM3	ENSG00000076662	ENST00000592439	protein_coding	NOVEL	None	5346	905	300	10444651	10446449	-1	None	CDW50, ICAM-R, CD50
19	ICAM3	ENSG00000076662	ENST00000585439	nonsense_mediated_decay	KNOWN	None	5346	180	59	10445822	10450300	-1	None	CDW50, ICAM-R, CD50
19	ICAM3	ENSG00000076662	ENST00000590569	protein_coding	PUTATIVE	None	5346	398	131	10446565	10450300	-1	None	CDW50, ICAM-R, CD50
19	ICAM3	ENSG00000076662	ENST00000589249	protein_coding	PUTATIVE	None	5346	122	39	10446643	10450317	-1	None	CDW50, ICAM-R, CD50
19	ICAM3	ENSG00000076662	ENST00000589580	protein_coding	PUTATIVE	None	5346	70	22	10449400	10450311	-1	None	CDW50, ICAM-R, CD50
17	MIR4740	ENSG00000266392	ENST00000584184	miRNA	KNOWN	None	41711	None	None	79374516	79374578	-1	None	hsa-mir-4740
17	None	ENSG00000235546	ENST00000452760	processed_pseudogene	KNOWN	None	None	None	None	20515980	20517321	1	None	None
17	MIR3186	ENSG00000266189	ENST00000577404	miRNA	KNOWN	None	38311	None	None	79418130	79418214	-1	None	hsa-mir-3186
16	CMTM3	ENSG00000140931	ENST00000563672	protein_coding	KNOWN	None	19174	349	115	66637777	66643383	1	CKLFSF3	FLJ31762, BNAS2
16	CMTM3	ENSG00000140931	ENST00000424011	protein_coding	KNOWN	CCDS10815	19174	549	182	66637935	66647795	1	CKLFSF3	FLJ31762, BNAS2
16	CMTM3	ENSG00000140931	ENST00000562357	protein_coding	KNOWN	None	19174	367	121	66638003	66643401	1	CKLFSF3	FLJ31762, BNAS2
16	CMTM3	ENSG00000140931	ENST00000562707	protein_coding	KNOWN	CCDS10815	19174	549	182	66638060	66646604	1	CKLFSF3	FLJ31762, BNAS2
16	CMTM3	ENSG00000140931	ENST00000361909	protein_coding	KNOWN	CCDS10815	19174	549	182	66638179	66647795	1	CKLFSF3	FLJ31762, BNAS2
16	CMTM3	ENSG00000140931	ENST00000460097	protein_coding	PUTATIVE	None	19174	291	96	66638213	66647795	1	CKLFSF3	FLJ31762, BNAS2
16	CMTM3	ENSG00000140931	ENST00000565666	protein_coding	PUTATIVE	None	19174	240	79	66638244	66643963	1	CKLFSF3	FLJ31762, BNAS2
16	CMTM3	ENSG00000140931	ENST00000567572	protein_coding	KNOWN	CCDS10815	19174	549	182	66638567	66647783	1	CKLFSF3	FLJ31762, BNAS2
16	CMTM3	ENSG00000140931	ENST00000564060	protein_coding	PUTATIVE	None	19174	453	150	66638635	66646837	1	CKLFSF3	FLJ31762, BNAS2
16	CMTM3	ENSG00000140931	ENST00000565922	protein_coding	NOVEL	None	19174	180	59	66638635	66647381	1	CKLFSF3	FLJ31762, BNAS2
16	CMTM3	ENSG00000140931	ENST00000566756	nonsense_mediated_decay	KNOWN	None	19174	498	165	66638644	66647752	1	CKLFSF3	FLJ31762, BNAS2
16	CMTM3	ENSG00000140931	ENST00000565003	protein_coding	PUTATIVE	None	19174	291	96	66638798	66644964	1	CKLFSF3	FLJ31762, BNAS2
16	CMTM3	ENSG00000140931	ENST00000568477	protein_coding	NOVEL	None	19174	291	96	66639176	66646671	1	CKLFSF3	FLJ31762, BNAS2
16	CMTM3	ENSG00000140931	ENST00000566121	protein_coding	PUTATIVE	None	19174	291	96	66639424	66646663	1	CKLFSF3	FLJ31762, BNAS2
16	CMTM3	ENSG00000140931	ENST00000564247	retained_intron	KNOWN	None	19174	None	None	66643275	66647358	1	CKLFSF3	FLJ31762, BNAS2
16	CMTM3	ENSG00000140931	ENST00000360086	protein_coding	KNOWN	None	19174	180	59	66638003	66647020	1	CKLFSF3	FLJ31762, BNAS2
5	ABLIM3	ENSG00000173210	ENST00000326685	protein_coding	KNOWN	None	29132	1767	588	148521046	148640105	1	None	KIAA0843
5	ABLIM3	ENSG00000173210	ENST00000309868	protein_coding	KNOWN	CCDS4294	29132	2052	683	148521066	148640002	1	None	KIAA0843
5	ABLIM3	ENSG00000173210	ENST00000506113	protein_coding	KNOWN	CCDS4294	29132	2052	683	148521177	148640002	1	None	KIAA0843
5	ABLIM3	ENSG00000173210	ENST00000515171	nonsense_mediated_decay	KNOWN	None	29132	456	151	148521314	148640002	1	None	KIAA0843
5	ABLIM3	ENSG00000173210	ENST00000504238	protein_coding	KNOWN	None	29132	1635	544	148521384	148640002	1	None	KIAA0843
5	ABLIM3	ENSG00000173210	ENST00000508983	protein_coding	NOVEL	None	29132	1953	650	148521610	148637976	1	None	KIAA0843
5	ABLIM3	ENSG00000173210	ENST00000515796	retained_intron	KNOWN	None	29132	None	None	148563112	148580183	1	None	KIAA0843
5	ABLIM3	ENSG00000173210	ENST00000514212	retained_intron	KNOWN	None	29132	None	None	148612816	148622147	1	None	KIAA0843
5	ABLIM3	ENSG00000173210	ENST00000519549	processed_transcript	KNOWN	None	29132	None	None	148617011	148620180	1	None	KIAA0843
5	ABLIM3	ENSG00000173210	ENST00000517451	protein_coding	KNOWN	None	29132	510	169	148622911	148638020	1	None	KIAA0843
5	ABLIM3	ENSG00000173210	ENST00000502855	retained_intron	KNOWN	None	29132	None	None	148631907	148638137	1	None	KIAA0843
5	ABLIM3	ENSG00000173210	ENST00000356541	protein_coding	KNOWN	None	29132	1635	544	148521054	148639138	1	None	KIAA0843
17	None	ENSG00000263271	ENST00000572590	antisense	KNOWN	None	None	None	None	79428039	79428963	-1	None	None
5	RPL21P54	ENSG00000241829	ENST00000497178	processed_pseudogene	KNOWN	None	35552	None	None	34883162	34883625	1	None	None
17	None	ENSG00000266077	ENST00000584254	miRNA	NOVEL	None	None	None	None	79478052	79478135	-1	None	None
17	None	ENSG00000227685	ENST00000428134	lincRNA	KNOWN	None	None	None	None	20516225	20536547	-1	None	None
17	None	ENSG00000229947	ENST00000448147	unitary_pseudogene	KNOWN	None	None	None	None	79480089	79480210	1	None	None
1	CPSF3L	ENSG00000127054	ENST00000470030	retained_intron	KNOWN	None	26052	None	None	1246965	1250813	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000435064	protein_coding	KNOWN	CCDS21	26052	1803	600	1246977	1260071	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000497304	retained_intron	KNOWN	None	26052	None	None	1246978	1248080	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000323275	retained_intron	KNOWN	None	26052	None	None	1246980	1260001	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000411962	protein_coding	NOVEL	None	26052	1509	502	1246981	1260053	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000462432	processed_transcript	KNOWN	None	26052	None	None	1246982	1252830	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000478641	retained_intron	KNOWN	None	26052	None	None	1246986	1250550	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000421495	protein_coding	PUTATIVE	None	26052	1029	342	1246986	1260017	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000458452	nonsense_mediated_decay	KNOWN	None	26052	189	62	1246986	1260030	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000419704	protein_coding	KNOWN	CCDS57961	26052	1500	499	1246986	1260033	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000532772	nonsense_mediated_decay	KNOWN	None	26052	141	46	1247007	1260008	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000450926	protein_coding	KNOWN	None	26052	1737	578	1247199	1260050	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000527098	nonsense_mediated_decay	KNOWN	None	26052	279	92	1247203	1260046	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000485710	retained_intron	KNOWN	None	26052	None	None	1247460	1249205	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000461514	retained_intron	KNOWN	None	26052	None	None	1247640	1249160	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000525164	retained_intron	KNOWN	None	26052	None	None	1247645	1249145	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000528879	nonsense_mediated_decay	KNOWN	None	26052	837	278	1247664	1260028	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000525769	retained_intron	KNOWN	None	26052	None	None	1247666	1249130	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000531377	nonsense_mediated_decay	KNOWN	None	26052	165	54	1248167	1254726	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000527383	nonsense_mediated_decay	KNOWN	None	26052	104	33	1248319	1250988	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000531292	retained_intron	KNOWN	None	26052	None	None	1248439	1250044	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000467408	retained_intron	KNOWN	None	26052	None	None	1248926	1250981	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000434694	protein_coding	NOVEL	None	26052	1034	343	1249125	1260010	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000531020	retained_intron	KNOWN	None	26052	None	None	1249516	1250521	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000533916	retained_intron	KNOWN	None	26052	None	None	1249693	1251077	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000488042	retained_intron	KNOWN	None	26052	None	None	1249793	1260009	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000526797	nonsense_mediated_decay	KNOWN	None	26052	246	81	1250206	1260038	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000526332	protein_coding	PUTATIVE	None	26052	327	108	1250207	1260040	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000430786	nonsense_mediated_decay	KNOWN	None	26052	306	101	1250258	1260005	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000527719	protein_coding	PUTATIVE	None	26052	628	208	1250296	1260051	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000530031	protein_coding	NOVEL	None	26052	749	248	1250298	1260039	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000526113	retained_intron	KNOWN	None	26052	None	None	1250384	1260017	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000526904	retained_intron	KNOWN	None	26052	None	None	1250526	1260038	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000525603	retained_intron	KNOWN	None	26052	None	None	1250940	1256285	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000429572	retained_intron	KNOWN	None	26052	None	None	1254059	1260046	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000498173	retained_intron	KNOWN	None	26052	None	None	1254061	1260067	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000496353	retained_intron	KNOWN	None	26052	None	None	1254077	1259991	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000493534	processed_transcript	KNOWN	None	26052	None	None	1254440	1260038	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000534345	protein_coding	NOVEL	None	26052	422	139	1254686	1260051	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000532952	processed_transcript	KNOWN	None	26052	None	None	1254727	1260022	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000490853	processed_transcript	KNOWN	None	26052	None	None	1254761	1260029	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000531019	nonsense_mediated_decay	KNOWN	None	26052	171	56	1254761	1260040	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000498476	protein_coding	NOVEL	None	26052	502	166	1254783	1260040	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000470679	nonsense_mediated_decay	KNOWN	None	26052	166	54	1254850	1259983	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000525285	nonsense_mediated_decay	KNOWN	None	26052	194	63	1255858	1259993	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000530233	retained_intron	KNOWN	None	26052	None	None	1258151	1260038	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000540437	protein_coding	KNOWN	CCDS57960	26052	1821	606	1246986	1259989	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
1	CPSF3L	ENSG00000127054	ENST00000545578	protein_coding	KNOWN	CCDS57959	26052	1716	571	1247203	1260017	-1	None	FLJ20542, RC-68, CPSF73L, INT11, INTS11
HG305_PATCH	None	ENSG00000262540	ENST00000576701	processed_pseudogene	KNOWN	None	None	None	None	102751225	102751577	1	None	None
5	None	ENSG00000212082	ENST00000390793	miRNA	NOVEL	None	None	None	None	35034257	35034347	-1	None	None
7	CREB3L2	ENSG00000182158	ENST00000330387	protein_coding	KNOWN	CCDS34760	23720	1563	520	137559725	137686803	-1	None	BBF2H7, TCAG_1951439
7	CREB3L2	ENSG00000182158	ENST00000456390	protein_coding	KNOWN	None	23720	1383	460	137569013	137686813	-1	None	BBF2H7, TCAG_1951439
7	CREB3L2	ENSG00000182158	ENST00000452463	protein_coding	KNOWN	CCDS59083	23720	747	248	137597557	137686793	-1	None	BBF2H7, TCAG_1951439
7	CREB3L2	ENSG00000182158	ENST00000458726	protein_coding	PUTATIVE	None	23720	558	185	137597570	137618636	-1	None	BBF2H7, TCAG_1951439
7	CREB3L2	ENSG00000182158	ENST00000420629	protein_coding	PUTATIVE	None	23720	719	238	137597580	137613015	-1	None	BBF2H7, TCAG_1951439
7	CREB3L2	ENSG00000182158	ENST00000468127	processed_transcript	KNOWN	None	23720	None	None	137684405	137686793	-1	None	BBF2H7, TCAG_1951439
17	None	ENSG00000229848	ENST00000430912	antisense	KNOWN	None	None	None	None	79481073	79494269	1	None	None
17	None	ENSG00000229848	ENST00000442532	antisense	KNOWN	None	None	None	None	79486066	79494802	1	None	None
X	GAGE2C	ENSG00000236249	ENST00000381708	protein_coding	KNOWN	CCDS35260	31958	351	116	49226182	49233481	1	None	None
12	None	ENSG00000256304	ENST00000537123	processed_pseudogene	KNOWN	None	None	None	None	122806669	122808883	-1	None	None
5	ADAMTS16	ENSG00000145536	ENST00000511368	protein_coding	PUTATIVE	None	17108	1713	570	5140443	5223840	1	None	ADAMTS16s
5	ADAMTS16	ENSG00000145536	ENST00000274181	protein_coding	KNOWN	CCDS43299	17108	3675	1224	5140443	5320417	1	None	ADAMTS16s
5	ADAMTS16	ENSG00000145536	ENST00000433402	retained_intron	KNOWN	None	17108	None	None	5140581	5303920	1	None	ADAMTS16s
5	ADAMTS16	ENSG00000145536	ENST00000513709	processed_transcript	KNOWN	None	17108	None	None	5235150	5239300	1	None	ADAMTS16s
8	BMP1	ENSG00000168487	ENST00000306385	protein_coding	KNOWN	CCDS6026	1067	2961	986	22022249	22069839	1	PCOLC	None
8	BMP1	ENSG00000168487	ENST00000520970	nonsense_mediated_decay	KNOWN	CCDS34856	1067	2193	730	22022700	22069837	1	PCOLC	None
8	BMP1	ENSG00000168487	ENST00000518913	nonsense_mediated_decay	KNOWN	None	1067	570	189	22022765	22058995	1	PCOLC	None
8	BMP1	ENSG00000168487	ENST00000306349	protein_coding	KNOWN	CCDS34856	1067	2193	730	22022765	22058995	1	PCOLC	None
8	BMP1	ENSG00000168487	ENST00000520982	nonsense_mediated_decay	KNOWN	None	1067	570	189	22022837	22069405	1	PCOLC	None
8	BMP1	ENSG00000168487	ENST00000520626	nonsense_mediated_decay	KNOWN	None	1067	186	61	22022837	22069405	1	PCOLC	None
8	BMP1	ENSG00000168487	ENST00000518656	nonsense_mediated_decay	KNOWN	None	1067	570	189	22022848	22035419	1	PCOLC	None
8	BMP1	ENSG00000168487	ENST00000483364	nonsense_mediated_decay	KNOWN	None	1067	909	302	22022913	22058713	1	PCOLC	None
8	BMP1	ENSG00000168487	ENST00000471755	nonsense_mediated_decay	KNOWN	None	1067	1869	622	22022913	22058713	1	PCOLC	None
8	BMP1	ENSG00000168487	ENST00000521385	nonsense_mediated_decay	KNOWN	None	1067	2154	717	22022913	22058713	1	PCOLC	None
8	BMP1	ENSG00000168487	ENST00000521521	processed_transcript	KNOWN	None	1067	None	None	22027672	22034109	1	PCOLC	None
8	BMP1	ENSG00000168487	ENST00000523849	processed_transcript	KNOWN	None	1067	None	None	22028210	22034511	1	PCOLC	None
8	BMP1	ENSG00000168487	ENST00000523457	retained_intron	KNOWN	None	1067	None	None	22037210	22049847	1	PCOLC	None
8	BMP1	ENSG00000168487	ENST00000523749	processed_transcript	KNOWN	None	1067	None	None	22049603	22052019	1	PCOLC	None
8	BMP1	ENSG00000168487	ENST00000517324	retained_intron	KNOWN	None	1067	None	None	22051728	22053100	1	PCOLC	None
8	BMP1	ENSG00000168487	ENST00000522332	retained_intron	KNOWN	None	1067	None	None	22055929	22058995	1	PCOLC	None
8	BMP1	ENSG00000168487	ENST00000397816	protein_coding	KNOWN	None	1067	2472	823	22022700	22056899	1	PCOLC	None
8	BMP1	ENSG00000168487	ENST00000397814	protein_coding	KNOWN	None	1067	1869	622	22022800	22054014	1	PCOLC	None
8	BMP1	ENSG00000168487	ENST00000354870	protein_coding	KNOWN	None	1067	909	302	22022653	22069837	1	PCOLC	None
17	None	ENSG00000266364	ENST00000578406	transcribed_processed_pseudogene	KNOWN	None	None	None	None	20536347	20536572	-1	None	None
17	ATP5G1	ENSG00000159199	ENST00000355938	protein_coding	KNOWN	CCDS11539	841	411	136	46970127	46973233	1	ATP5G	None
17	ATP5G1	ENSG00000159199	ENST00000513347	retained_intron	KNOWN	None	841	None	None	46970129	46973230	1	ATP5G	None
17	ATP5G1	ENSG00000159199	ENST00000503641	protein_coding	NOVEL	None	841	384	127	46970159	46973233	1	ATP5G	None
17	ATP5G1	ENSG00000159199	ENST00000514808	protein_coding	PUTATIVE	None	841	300	99	46970164	46972711	1	ATP5G	None
17	ATP5G1	ENSG00000159199	ENST00000393366	protein_coding	KNOWN	CCDS11539	841	411	136	46970179	46973231	1	ATP5G	None
17	ATP5G1	ENSG00000159199	ENST00000506855	protein_coding	NOVEL	None	841	333	110	46970179	46973233	1	ATP5G	None
17	ATP5G1	ENSG00000159199	ENST00000513781	processed_transcript	KNOWN	None	841	None	None	46970216	46973223	1	ATP5G	None
17	ATP5G1	ENSG00000159199	ENST00000504591	protein_coding	PUTATIVE	None	841	296	97	46970675	46972696	1	ATP5G	None
17	ATP5G1	ENSG00000159199	ENST00000502964	retained_intron	KNOWN	None	841	None	None	46971529	46973233	1	ATP5G	None
17	ATP5G1	ENSG00000159199	ENST00000515060	processed_transcript	KNOWN	None	841	None	None	46972223	46973233	1	ATP5G	None
9	None	ENSG00000230276	ENST00000450912	processed_pseudogene	KNOWN	None	None	None	None	29254073	29254424	-1	None	None
16	None	ENSG00000260809	ENST00000563400	unprocessed_pseudogene	KNOWN	None	None	None	None	34324872	34339205	1	None	None
12	RPL21P1	ENSG00000214760	ENST00000399532	processed_pseudogene	KNOWN	None	10314	None	None	122849327	122850176	1	RPL21P	None
17	None	ENSG00000207021	ENST00000384294	misc_RNA	KNOWN	None	None	None	None	79540516	79540628	1	None	None
17	None	ENSG00000236504	ENST00000411576	unprocessed_pseudogene	KNOWN	None	None	None	None	20550600	20585112	1	None	None
10	COX15	ENSG00000014919	ENST00000370483	protein_coding	KNOWN	CCDS7481	2263	1167	388	101471601	101491857	-1	None	None
10	COX15	ENSG00000014919	ENST00000016171	protein_coding	KNOWN	CCDS7482	2263	1233	410	101473272	101491857	-1	None	None
10	COX15	ENSG00000014919	ENST00000497381	processed_transcript	KNOWN	None	2263	None	None	101474409	101476403	-1	None	None
17	None	ENSG00000263853	ENST00000584812	miRNA	NOVEL	None	None	None	None	79643031	79643116	1	None	None
14	RNU6-597P	ENSG00000202490	ENST00000365620	snRNA	KNOWN	None	47560	None	None	64084761	64084862	1	None	None
1	NR1I3	ENSG00000143257	ENST00000512372	protein_coding	KNOWN	CCDS53406	7969	804	267	161199456	161207891	-1	None	MB67, CAR1, CAR
1	NR1I3	ENSG00000143257	ENST00000367983	protein_coding	KNOWN	CCDS1228	7969	1047	348	161199456	161208092	-1	None	MB67, CAR1, CAR
1	NR1I3	ENSG00000143257	ENST00000488651	processed_transcript	KNOWN	None	7969	None	None	161199460	161202652	-1	None	MB67, CAR1, CAR
1	NR1I3	ENSG00000143257	ENST00000464422	processed_transcript	KNOWN	None	7969	None	None	161199461	161201009	-1	None	MB67, CAR1, CAR
1	NR1I3	ENSG00000143257	ENST00000437437	protein_coding	KNOWN	CCDS53408	7969	921	306	161199461	161207891	-1	None	MB67, CAR1, CAR
1	NR1I3	ENSG00000143257	ENST00000479324	processed_transcript	KNOWN	None	7969	None	None	161199470	161201119	-1	None	MB67, CAR1, CAR
1	NR1I3	ENSG00000143257	ENST00000442691	protein_coding	KNOWN	CCDS44260	7969	1020	339	161199472	161207891	-1	None	MB67, CAR1, CAR
1	NR1I3	ENSG00000143257	ENST00000412844	protein_coding	KNOWN	CCDS53411	7969	948	315	161199472	161207891	-1	None	MB67, CAR1, CAR
1	NR1I3	ENSG00000143257	ENST00000428574	protein_coding	KNOWN	CCDS44261	7969	1023	340	161199472	161207891	-1	None	MB67, CAR1, CAR
1	NR1I3	ENSG00000143257	ENST00000505005	protein_coding	KNOWN	CCDS53405	7969	891	296	161199472	161207891	-1	None	MB67, CAR1, CAR
1	NR1I3	ENSG00000143257	ENST00000508740	protein_coding	KNOWN	CCDS53410	7969	936	311	161199472	161207891	-1	None	MB67, CAR1, CAR
1	NR1I3	ENSG00000143257	ENST00000367982	protein_coding	KNOWN	CCDS41430	7969	1059	352	161199480	161207953	-1	None	MB67, CAR1, CAR
1	NR1I3	ENSG00000143257	ENST00000506018	nonsense_mediated_decay	KNOWN	None	7969	825	274	161199480	161207953	-1	None	MB67, CAR1, CAR
1	NR1I3	ENSG00000143257	ENST00000508387	protein_coding	PUTATIVE	None	7969	357	118	161199527	161207891	-1	None	MB67, CAR1, CAR
1	NR1I3	ENSG00000143257	ENST00000504010	protein_coding	NOVEL	CCDS53407	7969	843	280	161199527	161207891	-1	None	MB67, CAR1, CAR
1	NR1I3	ENSG00000143257	ENST00000511676	protein_coding	KNOWN	CCDS53409	7969	960	319	161199527	161207891	-1	None	MB67, CAR1, CAR
1	NR1I3	ENSG00000143257	ENST00000502985	protein_coding	PUTATIVE	None	7969	444	147	161199527	161207891	-1	None	MB67, CAR1, CAR
1	NR1I3	ENSG00000143257	ENST00000512340	nonsense_mediated_decay	KNOWN	None	7969	273	90	161199527	161207891	-1	None	MB67, CAR1, CAR
1	NR1I3	ENSG00000143257	ENST00000510951	nonsense_mediated_decay	KNOWN	None	7969	273	90	161199527	161207891	-1	None	MB67, CAR1, CAR
1	NR1I3	ENSG00000143257	ENST00000367981	protein_coding	KNOWN	CCDS41427	7969	975	324	161199527	161207891	-1	None	MB67, CAR1, CAR
1	NR1I3	ENSG00000143257	ENST00000502848	nonsense_mediated_decay	KNOWN	None	7969	360	119	161199527	161207891	-1	None	MB67, CAR1, CAR
1	NR1I3	ENSG00000143257	ENST00000515621	protein_coding	PUTATIVE	None	7969	822	273	161199527	161207891	-1	None	MB67, CAR1, CAR
1	NR1I3	ENSG00000143257	ENST00000507215	nonsense_mediated_decay	KNOWN	None	7969	273	90	161199527	161207891	-1	None	MB67, CAR1, CAR
1	NR1I3	ENSG00000143257	ENST00000511944	protein_coding	PUTATIVE	None	7969	444	147	161199527	161207891	-1	None	MB67, CAR1, CAR
1	NR1I3	ENSG00000143257	ENST00000511748	protein_coding	PUTATIVE	None	7969	357	118	161199527	161207891	-1	None	MB67, CAR1, CAR
1	NR1I3	ENSG00000143257	ENST00000367984	protein_coding	KNOWN	CCDS44262	7969	930	309	161199562	161207901	-1	None	MB67, CAR1, CAR
1	NR1I3	ENSG00000143257	ENST00000367985	protein_coding	KNOWN	CCDS41428	7969	945	314	161199562	161207901	-1	None	MB67, CAR1, CAR
1	NR1I3	ENSG00000143257	ENST00000367979	protein_coding	KNOWN	CCDS41429	7969	1074	357	161199587	161206355	-1	None	MB67, CAR1, CAR
1	NR1I3	ENSG00000143257	ENST00000506209	protein_coding	PUTATIVE	None	7969	894	297	161200135	161207993	-1	None	MB67, CAR1, CAR
1	NR1I3	ENSG00000143257	ENST00000505944	retained_intron	KNOWN	None	7969	None	None	161200721	161207880	-1	None	MB67, CAR1, CAR
1	NR1I3	ENSG00000143257	ENST00000515452	protein_coding	PUTATIVE	None	7969	717	238	161200957	161208034	-1	None	MB67, CAR1, CAR
1	NR1I3	ENSG00000143257	ENST00000503547	processed_transcript	KNOWN	None	7969	None	None	161201051	161207880	-1	None	MB67, CAR1, CAR
1	NR1I3	ENSG00000143257	ENST00000491193	retained_intron	KNOWN	None	7969	None	None	161205047	161207923	-1	None	MB67, CAR1, CAR
1	NR1I3	ENSG00000143257	ENST00000367980	protein_coding	KNOWN	CCDS41429	7969	1074	357	161199456	161208000	-1	None	MB67, CAR1, CAR
HG1133_PATCH	TAS2R9	ENSG00000272306	ENST00000576440	protein_coding	KNOWN	None	14917	939	312	10961736	10962767	-1	None	T2R9, TRB6
17	None	ENSG00000262049	ENST00000575312	antisense	KNOWN	None	None	None	None	79668354	79670330	-1	None	None
14	None	ENSG00000206822	ENST00000384095	misc_RNA	NOVEL	None	None	None	None	64088478	64088589	1	None	None
16	DHODH	ENSG00000102967	ENST00000572887	protein_coding	KNOWN	None	2867	1182	393	72042487	72058948	1	None	None
16	DHODH	ENSG00000102967	ENST00000574309	protein_coding	NOVEL	None	2867	581	192	72042668	72058137	1	None	None
16	DHODH	ENSG00000102967	ENST00000571288	nonsense_mediated_decay	KNOWN	None	2867	230	75	72042677	72050978	1	None	None
16	DHODH	ENSG00000102967	ENST00000576145	protein_coding	PUTATIVE	None	2867	433	143	72042700	72051005	1	None	None
16	DHODH	ENSG00000102967	ENST00000573922	processed_transcript	KNOWN	None	2867	None	None	72046132	72057177	1	None	None
16	DHODH	ENSG00000102967	ENST00000572003	retained_intron	KNOWN	None	2867	None	None	72048318	72055130	1	None	None
16	DHODH	ENSG00000102967	ENST00000573843	retained_intron	KNOWN	None	2867	None	None	72048350	72055091	1	None	None
16	DHODH	ENSG00000102967	ENST00000571392	retained_intron	KNOWN	None	2867	None	None	72049522	72058411	1	None	None
16	DHODH	ENSG00000102967	ENST00000219240	protein_coding	KNOWN	CCDS42192	2867	1188	395	72042643	72058954	1	None	None
17	None	ENSG00000262831	ENST00000576784	antisense	KNOWN	None	None	None	None	79801041	79801834	1	None	None
X	IDSP1	ENSG00000176289	ENST00000324799	unprocessed_pseudogene	KNOWN	None	5390	None	None	148606540	148607582	1	None	IDS2
HG183_PATCH	None	ENSG00000239823	ENST00000497848	misc_RNA	NOVEL	None	None	None	None	62467518	62467623	-1	None	None
12	None	ENSG00000257097	ENST00000539034	lincRNA	KNOWN	None	None	None	None	122880089	122884165	1	None	None
12	None	ENSG00000257097	ENST00000535976	lincRNA	KNOWN	None	None	None	None	122880153	122885404	1	None	None
X	GAGE2B	ENSG00000231850	ENST00000381725	protein_coding	KNOWN	CCDS48112	31957	351	116	49235708	49242997	1	None	None
9	None	ENSG00000229834	ENST00000458047	processed_pseudogene	KNOWN	None	None	None	None	29636484	29636851	1	None	None
HG183_PATCH	None	ENSG00000265031	ENST00000581165	miRNA	KNOWN	None	None	None	None	62502429	62502530	-1	None	None
17	None	ENSG00000262413	ENST00000576021	antisense	KNOWN	None	None	None	None	79825597	79826149	1	None	None
17	None	ENSG00000262413	ENST00000576554	antisense	KNOWN	None	None	None	None	79825598	79826428	1	None	None
8	UBR5	ENSG00000104517	ENST00000520539	protein_coding	KNOWN	CCDS34933	16806	8400	2799	103265240	103425069	-1	EDD1	DD5, HYD, EDD, KIAA0896
8	UBR5	ENSG00000104517	ENST00000220959	protein_coding	NOVEL	None	16806	8397	2798	103265964	103424917	-1	EDD1	DD5, HYD, EDD, KIAA0896
8	UBR5	ENSG00000104517	ENST00000517465	retained_intron	KNOWN	None	16806	None	None	103266174	103274214	-1	EDD1	DD5, HYD, EDD, KIAA0896
8	UBR5	ENSG00000104517	ENST00000518205	protein_coding	PUTATIVE	None	16806	1584	527	103266426	103285159	-1	EDD1	DD5, HYD, EDD, KIAA0896
8	UBR5	ENSG00000104517	ENST00000521922	protein_coding	NOVEL	None	16806	8379	2792	103266426	103424987	-1	EDD1	DD5, HYD, EDD, KIAA0896
8	UBR5	ENSG00000104517	ENST00000521767	retained_intron	KNOWN	None	16806	None	None	103277431	103280946	-1	EDD1	DD5, HYD, EDD, KIAA0896
8	UBR5	ENSG00000104517	ENST00000521312	retained_intron	KNOWN	None	16806	None	None	103277436	103279663	-1	EDD1	DD5, HYD, EDD, KIAA0896
8	UBR5	ENSG00000104517	ENST00000521566	protein_coding	PUTATIVE	None	16806	500	165	103283422	103289048	-1	EDD1	DD5, HYD, EDD, KIAA0896
8	UBR5	ENSG00000104517	ENST00000519528	processed_transcript	KNOWN	None	16806	None	None	103299733	103305937	-1	EDD1	DD5, HYD, EDD, KIAA0896
8	UBR5	ENSG00000104517	ENST00000520898	protein_coding	PUTATIVE	None	16806	582	193	103311088	103317410	-1	EDD1	DD5, HYD, EDD, KIAA0896
8	UBR5	ENSG00000104517	ENST00000519365	protein_coding	PUTATIVE	None	16806	602	199	103311095	103317485	-1	EDD1	DD5, HYD, EDD, KIAA0896
8	UBR5	ENSG00000104517	ENST00000518145	retained_intron	KNOWN	None	16806	None	None	103358124	103359228	-1	EDD1	DD5, HYD, EDD, KIAA0896
8	UBR5	ENSG00000104517	ENST00000522327	retained_intron	KNOWN	None	16806	None	None	103371880	103373437	-1	EDD1	DD5, HYD, EDD, KIAA0896
HG305_PATCH	None	ENSG00000262276	ENST00000576945	snRNA	NOVEL	None	None	None	None	102774623	102774684	-1	None	None
HG183_PATCH	None	ENSG00000266804	ENST00000583033	miRNA	NOVEL	None	None	None	None	62539910	62540007	-1	None	None
14	RNU6-1162P	ENSG00000207172	ENST00000384443	snRNA	KNOWN	None	48125	None	None	64097396	64097499	1	None	None
HG987_PATCH	None	ENSG00000264516	ENST00000583489	miRNA	NOVEL	None	None	None	None	21481130	21481217	1	None	None
17	None	ENSG00000263731	ENST00000582866	lincRNA	KNOWN	None	None	None	None	79836301	79838982	-1	None	None
14	None	ENSG00000200693	ENST00000363823	snoRNA	NOVEL	None	None	None	None	64118015	64118217	-1	None	None
19	HSD11B1L	ENSG00000167733	ENST00000577257	protein_coding	KNOWN	None	30419	431	142	5680615	5687315	1	None	SCDR10, SDR26C2
19	HSD11B1L	ENSG00000167733	ENST00000577917	protein_coding	KNOWN	CCDS58641	30419	705	234	5680776	5688533	1	None	SCDR10, SDR26C2
19	HSD11B1L	ENSG00000167733	ENST00000581893	protein_coding	KNOWN	CCDS58642	30419	459	152	5681020	5688533	1	None	SCDR10, SDR26C2
19	HSD11B1L	ENSG00000167733	ENST00000582346	nonsense_mediated_decay	KNOWN	None	30419	144	47	5681028	5687608	1	None	SCDR10, SDR26C2
19	HSD11B1L	ENSG00000167733	ENST00000411793	protein_coding	KNOWN	CCDS45932	30419	546	181	5681035	5688533	1	None	SCDR10, SDR26C2
19	HSD11B1L	ENSG00000167733	ENST00000301382	protein_coding	KNOWN	CCDS12144	30419	618	205	5681035	5688533	1	None	SCDR10, SDR26C2
19	HSD11B1L	ENSG00000167733	ENST00000581773	protein_coding	KNOWN	CCDS12145	30419	861	286	5681036	5688383	1	None	SCDR10, SDR26C2
19	HSD11B1L	ENSG00000167733	ENST00000423665	protein_coding	KNOWN	CCDS45931	30419	948	315	5681047	5688533	1	None	SCDR10, SDR26C2
19	HSD11B1L	ENSG00000167733	ENST00000584904	nonsense_mediated_decay	KNOWN	None	30419	99	32	5681048	5687587	1	None	SCDR10, SDR26C2
19	HSD11B1L	ENSG00000167733	ENST00000583928	protein_coding	KNOWN	CCDS58642	30419	459	152	5681048	5688495	1	None	SCDR10, SDR26C2
19	HSD11B1L	ENSG00000167733	ENST00000579562	nonsense_mediated_decay	KNOWN	None	30419	228	75	5681048	5688533	1	None	SCDR10, SDR26C2
19	HSD11B1L	ENSG00000167733	ENST00000342970	protein_coding	KNOWN	CCDS12146	30419	600	199	5681052	5688533	1	None	SCDR10, SDR26C2
19	HSD11B1L	ENSG00000167733	ENST00000422535	protein_coding	KNOWN	None	30419	264	87	5681059	5685600	1	None	SCDR10, SDR26C2
19	HSD11B1L	ENSG00000167733	ENST00000578167	retained_intron	KNOWN	None	30419	None	None	5681065	5688533	1	None	SCDR10, SDR26C2
19	HSD11B1L	ENSG00000167733	ENST00000577701	processed_transcript	KNOWN	None	30419	None	None	5681066	5685339	1	None	SCDR10, SDR26C2
19	HSD11B1L	ENSG00000167733	ENST00000581521	protein_coding	KNOWN	CCDS12145	30419	861	286	5681072	5688504	1	None	SCDR10, SDR26C2
19	HSD11B1L	ENSG00000167733	ENST00000339423	protein_coding	KNOWN	CCDS12145	30419	861	286	5681075	5688533	1	None	SCDR10, SDR26C2
19	HSD11B1L	ENSG00000167733	ENST00000578832	nonsense_mediated_decay	KNOWN	None	30419	228	75	5681156	5687319	1	None	SCDR10, SDR26C2
19	HSD11B1L	ENSG00000167733	ENST00000579559	protein_coding	PUTATIVE	None	30419	568	188	5681170	5687998	1	None	SCDR10, SDR26C2
19	HSD11B1L	ENSG00000167733	ENST00000577920	retained_intron	KNOWN	None	30419	None	None	5681180	5687956	1	None	SCDR10, SDR26C2
19	HSD11B1L	ENSG00000167733	ENST00000578046	protein_coding	PUTATIVE	None	30419	407	134	5684866	5688137	1	None	SCDR10, SDR26C2
19	HSD11B1L	ENSG00000167733	ENST00000581423	retained_intron	KNOWN	None	30419	None	None	5687376	5688148	1	None	SCDR10, SDR26C2
HG183_PATCH	None	ENSG00000261387	ENST00000566865	processed_pseudogene	KNOWN	None	None	None	None	62568883	62569149	1	None	None
8	MTND1P6	ENSG00000254346	ENST00000523621	processed_pseudogene	KNOWN	None	42103	None	None	32871599	32872544	1	None	None
2	IL36A	ENSG00000136694	ENST00000259211	protein_coding	KNOWN	CCDS42734	15562	477	158	113763038	113765621	1	IL1F6	FIL1, FIL1E, IL-1F6, IL1(EPSILON), MGC129553, MGC129552
HSCHR21_4_CTG1_1	IFNGR2	ENSG00000262795	ENST00000572399	processed_transcript	KNOWN	None	5440	None	None	34757299	34787251	1	IFNGT1	AF-1
HSCHR21_4_CTG1_1	IFNGR2	ENSG00000262795	ENST00000576463	protein_coding	KNOWN	None	5440	1014	337	34775202	34809828	1	IFNGT1	AF-1
HSCHR21_4_CTG1_1	IFNGR2	ENSG00000262795	ENST00000572016	nonsense_mediated_decay	KNOWN	None	5440	213	70	34775733	34804523	1	IFNGT1	AF-1
HSCHR21_4_CTG1_1	IFNGR2	ENSG00000262795	ENST00000573079	protein_coding	NOVEL	None	5440	1071	356	34775738	34809828	1	IFNGT1	AF-1
HSCHR21_4_CTG1_1	IFNGR2	ENSG00000262795	ENST00000573887	nonsense_mediated_decay	KNOWN	None	5440	114	37	34775747	34809251	1	IFNGT1	AF-1
HSCHR21_4_CTG1_1	IFNGR2	ENSG00000262795	ENST00000571550	protein_coding	PUTATIVE	None	5440	777	258	34775772	34809809	1	IFNGT1	AF-1
HSCHR21_4_CTG1_1	IFNGR2	ENSG00000262795	ENST00000575304	protein_coding	PUTATIVE	None	5440	182	59	34804626	34861212	1	IFNGT1	AF-1
17	None	ENSG00000263859	ENST00000579981	lincRNA	KNOWN	None	None	None	None	79836543	79837433	1	None	None
12	GAPDH	ENSG00000111640	ENST00000229239	protein_coding	KNOWN	CCDS8549	4141	1008	335	6643093	6647537	1	GAPD	None
12	GAPDH	ENSG00000111640	ENST00000496049	retained_intron	KNOWN	None	4141	None	None	6643678	6644307	1	GAPD	None
12	GAPDH	ENSG00000111640	ENST00000396856	protein_coding	PUTATIVE	None	4141	783	260	6643698	6647506	1	GAPD	None
12	GAPDH	ENSG00000111640	ENST00000492719	retained_intron	KNOWN	None	4141	None	None	6643699	6646964	1	GAPD	None
12	GAPDH	ENSG00000111640	ENST00000396861	protein_coding	KNOWN	CCDS8549	4141	1008	335	6643700	6647525	1	GAPD	None
12	GAPDH	ENSG00000111640	ENST00000474249	retained_intron	KNOWN	None	4141	None	None	6643707	6647480	1	GAPD	None
12	GAPDH	ENSG00000111640	ENST00000466588	retained_intron	KNOWN	None	4141	None	None	6643920	6647483	1	GAPD	None
12	GAPDH	ENSG00000111640	ENST00000396859	protein_coding	KNOWN	CCDS8549	4141	1008	335	6643920	6647505	1	GAPD	None
12	GAPDH	ENSG00000111640	ENST00000466525	retained_intron	KNOWN	None	4141	None	None	6643958	6647503	1	GAPD	None
12	GAPDH	ENSG00000111640	ENST00000396858	protein_coding	PUTATIVE	CCDS58201	4141	882	293	6644468	6647481	1	GAPD	None
12	None	ENSG00000252192	ENST00000516383	snoRNA	NOVEL	None	None	None	None	122976660	122976788	-1	None	None
17	None	ENSG00000264874	ENST00000441958	processed_pseudogene	KNOWN	None	None	None	None	20613738	20613846	-1	None	None
19	None	ENSG00000270947	ENST00000604312	lincRNA	KNOWN	None	None	None	None	22638790	22639261	1	None	None
12	None	ENSG00000255972	ENST00000543745	processed_pseudogene	KNOWN	None	None	None	None	123048282	123048309	-1	None	None
6	MAN1A1	ENSG00000111885	ENST00000368468	protein_coding	KNOWN	CCDS5122	6821	1962	653	119498374	119670926	-1	None	None
6	MAN1A1	ENSG00000111885	ENST00000368466	protein_coding	KNOWN	None	6821	1104	367	119527723	119670901	-1	None	None
HG987_PATCH	None	ENSG00000260157	ENST00000568614	processed_transcript	KNOWN	None	None	None	None	21517799	21544848	1	None	None
HG987_PATCH	None	ENSG00000260157	ENST00000562547	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	21536033	21544668	1	None	None
14	None	ENSG00000258778	ENST00000557650	processed_pseudogene	KNOWN	None	None	None	None	64201415	64202641	1	None	None
17	None	ENSG00000264769	ENST00000580897	antisense	KNOWN	None	None	None	None	79880775	79882387	1	None	None
6	REPS1	ENSG00000135597	ENST00000450536	protein_coding	KNOWN	None	15578	2391	796	139224630	139309394	-1	None	None
6	REPS1	ENSG00000135597	ENST00000367663	protein_coding	KNOWN	CCDS47488	15578	2310	769	139225997	139308912	-1	None	None
6	REPS1	ENSG00000135597	ENST00000529597	protein_coding	NOVEL	None	15578	2265	754	139225998	139308777	-1	None	None
6	REPS1	ENSG00000135597	ENST00000445570	nonsense_mediated_decay	KNOWN	None	15578	663	220	139225998	139309348	-1	None	None
6	REPS1	ENSG00000135597	ENST00000478483	protein_coding	PUTATIVE	None	15578	458	151	139226003	139234008	-1	None	None
6	REPS1	ENSG00000135597	ENST00000483468	nonsense_mediated_decay	KNOWN	None	15578	663	220	139226004	139309138	-1	None	None
6	REPS1	ENSG00000135597	ENST00000484164	retained_intron	KNOWN	None	15578	None	None	139226007	139237351	-1	None	None
6	REPS1	ENSG00000135597	ENST00000409812	protein_coding	KNOWN	None	15578	2118	705	139226007	139309018	-1	None	None
6	REPS1	ENSG00000135597	ENST00000258062	protein_coding	KNOWN	CCDS5193	15578	2388	795	139226007	139309398	-1	None	None
6	REPS1	ENSG00000135597	ENST00000415951	protein_coding	NOVEL	None	15578	2214	737	139226029	139308857	-1	None	None
6	REPS1	ENSG00000135597	ENST00000526022	protein_coding	PUTATIVE	None	15578	185	60	139228509	139229874	-1	None	None
6	REPS1	ENSG00000135597	ENST00000526244	retained_intron	KNOWN	None	15578	None	None	139228672	139230049	-1	None	None
6	REPS1	ENSG00000135597	ENST00000492787	retained_intron	KNOWN	None	15578	None	None	139229932	139236324	-1	None	None
6	REPS1	ENSG00000135597	ENST00000530370	retained_intron	KNOWN	None	15578	None	None	139232060	139233974	-1	None	None
6	REPS1	ENSG00000135597	ENST00000529423	retained_intron	KNOWN	None	15578	None	None	139232383	139236021	-1	None	None
6	REPS1	ENSG00000135597	ENST00000530255	protein_coding	KNOWN	None	15578	439	145	139234003	139251134	-1	None	None
6	REPS1	ENSG00000135597	ENST00000431346	nonsense_mediated_decay	KNOWN	None	15578	444	147	139241439	139265682	-1	None	None
6	REPS1	ENSG00000135597	ENST00000414243	nonsense_mediated_decay	KNOWN	None	15578	307	101	139242201	139265063	-1	None	None
6	REPS1	ENSG00000135597	ENST00000530575	nonsense_mediated_decay	KNOWN	None	15578	365	120	139255426	139266397	-1	None	None
6	REPS1	ENSG00000135597	ENST00000531675	processed_transcript	KNOWN	None	15578	None	None	139269019	139308868	-1	None	None
19	ARMC6	ENSG00000105676	ENST00000392335	protein_coding	KNOWN	CCDS32965	25049	1431	476	19144384	19168987	1	None	MGC19595
19	ARMC6	ENSG00000105676	ENST00000535612	protein_coding	KNOWN	CCDS56089	25049	1506	501	19144387	19168987	1	None	MGC19595
19	ARMC6	ENSG00000105676	ENST00000537263	protein_coding	KNOWN	None	25049	770	255	19144394	19162996	1	None	MGC19595
19	ARMC6	ENSG00000105676	ENST00000540707	protein_coding	KNOWN	None	25049	90	29	19144412	19153655	1	None	MGC19595
19	ARMC6	ENSG00000105676	ENST00000541725	protein_coding	KNOWN	None	25049	490	162	19144419	19162641	1	None	MGC19595
19	ARMC6	ENSG00000105676	ENST00000269932	protein_coding	KNOWN	CCDS32965	25049	1431	476	19144419	19168968	1	None	MGC19595
19	ARMC6	ENSG00000105676	ENST00000546344	protein_coding	PUTATIVE	None	25049	1227	408	19144422	19170310	1	None	MGC19595
19	ARMC6	ENSG00000105676	ENST00000540792	protein_coding	KNOWN	None	25049	485	160	19144423	19162711	1	None	MGC19595
19	ARMC6	ENSG00000105676	ENST00000536098	protein_coding	KNOWN	None	25049	212	69	19144430	19162438	1	None	MGC19595
19	ARMC6	ENSG00000105676	ENST00000541898	protein_coding	KNOWN	None	25049	778	258	19144444	19163004	1	None	MGC19595
19	ARMC6	ENSG00000105676	ENST00000539985	nonsense_mediated_decay	KNOWN	None	25049	144	47	19144449	19162877	1	None	MGC19595
19	ARMC6	ENSG00000105676	ENST00000543877	protein_coding	NOVEL	None	25049	191	62	19144473	19153588	1	None	MGC19595
19	ARMC6	ENSG00000105676	ENST00000545091	nonsense_mediated_decay	KNOWN	None	25049	132	43	19144632	19166133	1	None	MGC19595
19	ARMC6	ENSG00000105676	ENST00000535288	protein_coding	PUTATIVE	None	25049	469	155	19144670	19162899	1	None	MGC19595
19	ARMC6	ENSG00000105676	ENST00000538663	protein_coding	KNOWN	None	25049	311	102	19144721	19162537	1	None	MGC19595
19	ARMC6	ENSG00000105676	ENST00000392336	protein_coding	KNOWN	CCDS56089	25049	1506	501	19144912	19168690	1	None	MGC19595
19	ARMC6	ENSG00000105676	ENST00000535758	nonsense_mediated_decay	KNOWN	None	25049	213	70	19145010	19162544	1	None	MGC19595
19	ARMC6	ENSG00000105676	ENST00000535478	protein_coding	NOVEL	None	25049	436	144	19165040	19168763	1	None	MGC19595
19	ARMC6	ENSG00000105676	ENST00000535795	protein_coding	PUTATIVE	None	25049	412	136	19165118	19168944	1	None	MGC19595
19	ARMC6	ENSG00000105676	ENST00000540634	protein_coding	KNOWN	None	25049	244	80	19166707	19170563	1	None	MGC19595
16	NAA60	ENSG00000122390	ENST00000407558	protein_coding	KNOWN	CCDS45396	25875	729	242	3493611	3536963	1	NAT15	FLJ14154
16	NAA60	ENSG00000122390	ENST00000572169	protein_coding	KNOWN	None	25875	327	108	3493649	3532588	1	NAT15	FLJ14154
16	NAA60	ENSG00000122390	ENST00000572757	protein_coding	KNOWN	None	25875	424	140	3493649	3533449	1	NAT15	FLJ14154
16	NAA60	ENSG00000122390	ENST00000573593	protein_coding	KNOWN	None	25875	389	128	3493668	3533414	1	NAT15	FLJ14154
16	NAA60	ENSG00000122390	ENST00000573617	retained_intron	KNOWN	None	25875	None	None	3493674	3498595	1	NAT15	FLJ14154
16	NAA60	ENSG00000122390	ENST00000570372	protein_coding	KNOWN	None	25875	241	79	3493677	3529601	1	NAT15	FLJ14154
16	NAA60	ENSG00000122390	ENST00000575936	processed_transcript	KNOWN	None	25875	None	None	3493678	3533443	1	NAT15	FLJ14154
16	NAA60	ENSG00000122390	ENST00000424546	protein_coding	PUTATIVE	None	25875	750	249	3493682	3535574	1	NAT15	FLJ14154
16	NAA60	ENSG00000122390	ENST00000575733	protein_coding	KNOWN	None	25875	279	92	3493688	3532540	1	NAT15	FLJ14154
16	NAA60	ENSG00000122390	ENST00000573201	protein_coding	KNOWN	None	25875	298	98	3493694	3532559	1	NAT15	FLJ14154
16	NAA60	ENSG00000122390	ENST00000574950	protein_coding	KNOWN	None	25875	320	105	3493706	3532581	1	NAT15	FLJ14154
16	NAA60	ENSG00000122390	ENST00000573580	protein_coding	PUTATIVE	None	25875	534	177	3493706	3534872	1	NAT15	FLJ14154
16	NAA60	ENSG00000122390	ENST00000575042	processed_transcript	PUTATIVE	None	25875	None	None	3493746	3500145	1	NAT15	FLJ14154
16	NAA60	ENSG00000122390	ENST00000574256	retained_intron	KNOWN	None	25875	None	None	3493754	3498596	1	NAT15	FLJ14154
16	NAA60	ENSG00000122390	ENST00000574762	retained_intron	KNOWN	None	25875	None	None	3493788	3498967	1	NAT15	FLJ14154
16	NAA60	ENSG00000122390	ENST00000574328	protein_coding	KNOWN	None	25875	360	119	3506731	3533385	1	NAT15	FLJ14154
16	NAA60	ENSG00000122390	ENST00000421765	protein_coding	PUTATIVE	None	25875	573	190	3507985	3535578	1	NAT15	FLJ14154
16	NAA60	ENSG00000122390	ENST00000360862	protein_coding	PUTATIVE	None	25875	534	177	3507993	3536952	1	NAT15	FLJ14154
16	NAA60	ENSG00000122390	ENST00000414063	protein_coding	KNOWN	CCDS45396	25875	729	242	3508012	3536952	1	NAT15	FLJ14154
16	NAA60	ENSG00000122390	ENST00000571107	processed_transcript	KNOWN	None	25875	None	None	3508051	3532911	1	NAT15	FLJ14154
16	NAA60	ENSG00000122390	ENST00000572739	nonsense_mediated_decay	KNOWN	None	25875	264	87	3508071	3534909	1	NAT15	FLJ14154
16	NAA60	ENSG00000122390	ENST00000571696	processed_transcript	PUTATIVE	None	25875	None	None	3508076	3518196	1	NAT15	FLJ14154
16	NAA60	ENSG00000122390	ENST00000576787	protein_coding	KNOWN	None	25875	231	76	3508076	3529591	1	NAT15	FLJ14154
16	NAA60	ENSG00000122390	ENST00000573345	nonsense_mediated_decay	KNOWN	None	25875	126	41	3508077	3534753	1	NAT15	FLJ14154
16	NAA60	ENSG00000122390	ENST00000574380	retained_intron	KNOWN	None	25875	None	None	3508078	3533739	1	NAT15	FLJ14154
16	NAA60	ENSG00000122390	ENST00000570551	processed_transcript	KNOWN	None	25875	None	None	3508078	3534935	1	NAT15	FLJ14154
16	NAA60	ENSG00000122390	ENST00000572942	protein_coding	PUTATIVE	None	25875	540	179	3508078	3535786	1	NAT15	FLJ14154
16	NAA60	ENSG00000122390	ENST00000576916	protein_coding	NOVEL	None	25875	405	134	3508078	3535907	1	NAT15	FLJ14154
16	NAA60	ENSG00000122390	ENST00000575076	protein_coding	KNOWN	CCDS45396	25875	729	242	3508078	3536952	1	NAT15	FLJ14154
16	NAA60	ENSG00000122390	ENST00000572131	protein_coding	KNOWN	None	25875	363	120	3508079	3533388	1	NAT15	FLJ14154
16	NAA60	ENSG00000122390	ENST00000577013	protein_coding	NOVEL	None	25875	405	134	3508130	3534967	1	NAT15	FLJ14154
16	NAA60	ENSG00000122390	ENST00000570819	protein_coding	PUTATIVE	None	25875	540	179	3508130	3535604	1	NAT15	FLJ14154
16	NAA60	ENSG00000122390	ENST00000572584	protein_coding	KNOWN	CCDS45396	25875	729	242	3526176	3536929	1	NAT15	FLJ14154
16	NAA60	ENSG00000122390	ENST00000571798	retained_intron	KNOWN	None	25875	None	None	3529580	3533799	1	NAT15	FLJ14154
16	NAA60	ENSG00000122390	ENST00000575754	retained_intron	KNOWN	None	25875	None	None	3533346	3535207	1	NAT15	FLJ14154
16	NAA60	ENSG00000122390	ENST00000576819	retained_intron	KNOWN	None	25875	None	None	3534577	3535559	1	NAT15	FLJ14154
X	GAGE12B	ENSG00000236737	ENST00000361446	protein_coding	KNOWN	None	26779	23	6	49294472	49294588	1	None	OTTHUMG00000024142
12	None	ENSG00000256249	ENST00000543611	lincRNA	KNOWN	None	None	None	None	123171672	123200526	1	None	None
12	None	ENSG00000256249	ENST00000545293	lincRNA	KNOWN	None	None	None	None	123198838	123200255	1	None	None
19	None	ENSG00000268717	ENST00000598912	processed_pseudogene	KNOWN	None	None	None	None	22640131	22641014	-1	None	None
5	None	ENSG00000254012	ENST00000522888	processed_pseudogene	KNOWN	None	None	None	None	170793303	170793615	1	None	None
1	TMEM52	ENSG00000178821	ENST00000378602	protein_coding	KNOWN	None	27916	585	194	1849029	1850236	-1	None	None
1	TMEM52	ENSG00000178821	ENST00000310991	protein_coding	KNOWN	CCDS35	27916	630	209	1849030	1850712	-1	None	None
1	TMEM52	ENSG00000178821	ENST00000378598	protein_coding	PUTATIVE	None	27916	375	124	1849284	1850697	-1	None	None
1	TMEM52	ENSG00000178821	ENST00000470931	nonsense_mediated_decay	KNOWN	None	27916	132	43	1849376	1850709	-1	None	None
1	TMEM52	ENSG00000178821	ENST00000602604	retained_intron	KNOWN	None	27916	None	None	1849538	1850708	-1	None	None
1	TMEM52	ENSG00000178821	ENST00000416272	protein_coding	PUTATIVE	None	27916	309	102	1849825	1850708	-1	None	None
17	MAFG-AS1	ENSG00000265688	ENST00000582106	antisense	KNOWN	None	43649	None	None	79885705	79888629	1	None	None
17	MAFG-AS1	ENSG00000265688	ENST00000583492	antisense	KNOWN	None	43649	None	None	79886277	79888393	1	None	None
17	None	ENSG00000226521	ENST00000578210	processed_transcript	KNOWN	None	None	None	None	20619794	20628957	1	None	None
17	None	ENSG00000226521	ENST00000441215	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	20619796	20640440	1	None	None
X	GAGE12C	ENSG00000237671	ENST00000420398	protein_coding	KNOWN	CCDS43943	28402	354	117	49296814	49304141	1	None	OTTHUMG00000024144
16	None	ENSG00000260114	ENST00000567795	sense_intronic	KNOWN	None	None	None	None	29930957	29933226	-1	None	None
5	MIR3912	ENSG00000264249	ENST00000577566	miRNA	KNOWN	None	38923	None	None	170813660	170813764	-1	None	hsa-mir-3912
16	None	ENSG00000247735	ENST00000450909	antisense	KNOWN	None	None	None	None	29938157	29940254	1	None	None
HSCHR6_MHC_QBL	DDX39B-AS1	ENSG00000238071	ENST00000413390	processed_transcript	PUTATIVE	None	39771	None	None	31500359	31501182	1	None	None
HSCHR6_MHC_QBL	DDX39B-AS1	ENSG00000238071	ENST00000414715	processed_transcript	PUTATIVE	None	39771	None	None	31500428	31501193	1	None	None
11	KIRREL3	ENSG00000149571	ENST00000525144	protein_coding	KNOWN	CCDS53723	23204	2337	778	126293254	126870655	-1	None	NEPH2, KIAA1867, KIRRE
11	KIRREL3	ENSG00000149571	ENST00000529097	protein_coding	NOVEL	None	23204	2301	766	126293390	126870416	-1	None	NEPH2, KIAA1867, KIRRE
11	KIRREL3	ENSG00000149571	ENST00000526519	processed_transcript	KNOWN	None	23204	None	None	126299074	126310764	-1	None	NEPH2, KIAA1867, KIRRE
11	KIRREL3	ENSG00000149571	ENST00000532647	processed_transcript	KNOWN	None	23204	None	None	126299074	126310777	-1	None	NEPH2, KIAA1867, KIRRE
11	KIRREL3	ENSG00000149571	ENST00000525704	protein_coding	KNOWN	CCDS55796	23204	1803	600	126300837	126870706	-1	None	NEPH2, KIAA1867, KIRRE
11	KIRREL3	ENSG00000149571	ENST00000526764	retained_intron	KNOWN	None	23204	None	None	126306759	126310713	-1	None	NEPH2, KIAA1867, KIRRE
11	KIRREL3	ENSG00000149571	ENST00000533026	processed_transcript	KNOWN	None	23204	None	None	126419179	126873355	-1	None	NEPH2, KIAA1867, KIRRE
11	KIRREL3	ENSG00000149571	ENST00000547738	processed_transcript	KNOWN	None	23204	None	None	126419313	126871061	-1	None	NEPH2, KIAA1867, KIRRE
11	KIRREL3	ENSG00000149571	ENST00000549874	processed_transcript	KNOWN	None	23204	None	None	126419434	126870666	-1	None	NEPH2, KIAA1867, KIRRE
11	KIRREL3	ENSG00000149571	ENST00000416561	protein_coding	KNOWN	None	23204	738	245	126294200	126310453	-1	None	NEPH2, KIAA1867, KIRRE
11	APOA4	ENSG00000110244	ENST00000357780	protein_coding	KNOWN	CCDS31681	602	1191	396	116691419	116694022	-1	None	None
5	None	ENSG00000264303	ENST00000583730	miRNA	NOVEL	None	None	None	None	171197534	171197724	1	None	None
14	SMOC1	ENSG00000198732	ENST00000555917	processed_transcript	KNOWN	None	20318	None	None	70320848	70419020	1	None	None
14	SMOC1	ENSG00000198732	ENST00000361956	protein_coding	KNOWN	CCDS32110	20318	1308	435	70346133	70497444	1	None	None
14	SMOC1	ENSG00000198732	ENST00000381280	protein_coding	KNOWN	CCDS9798	20318	1305	434	70346143	70499083	1	None	None
14	SMOC1	ENSG00000198732	ENST00000553839	retained_intron	KNOWN	None	20318	None	None	70418854	70444805	1	None	None
14	SMOC1	ENSG00000198732	ENST00000557483	retained_intron	KNOWN	None	20318	None	None	70460956	70478285	1	None	None
X	GAGE12D	ENSG00000227488	ENST00000405679	protein_coding	KNOWN	CCDS48113	31904	354	117	49306370	49313697	1	None	OTTHUMG00000024145
5	None	ENSG00000266671	ENST00000579783	miRNA	NOVEL	None	None	None	None	171507909	171507980	-1	None	None
7	CDK13	ENSG00000065883	ENST00000181839	protein_coding	KNOWN	CCDS5461	1733	4539	1512	39989636	40136733	1	CDC2L5	CHED, CDC2L, KIAA1791
7	CDK13	ENSG00000065883	ENST00000340829	protein_coding	KNOWN	CCDS5462	1733	4359	1452	39990109	40135154	1	CDC2L5	CHED, CDC2L, KIAA1791
7	CDK13	ENSG00000065883	ENST00000484589	processed_transcript	KNOWN	None	1733	None	None	40027435	40109687	1	CDC2L5	CHED, CDC2L, KIAA1791
7	CDK13	ENSG00000065883	ENST00000478563	retained_intron	KNOWN	None	1733	None	None	40118013	40132619	1	CDC2L5	CHED, CDC2L, KIAA1791
7	CDK13	ENSG00000065883	ENST00000465643	retained_intron	KNOWN	None	1733	None	None	40131846	40135131	1	CDC2L5	CHED, CDC2L, KIAA1791
15	None	ENSG00000236914	ENST00000559232	lincRNA	KNOWN	None	None	None	None	38361682	38364103	-1	None	None
15	None	ENSG00000236914	ENST00000560819	lincRNA	KNOWN	None	None	None	None	38363828	38364291	-1	None	None
15	None	ENSG00000236914	ENST00000434223	lincRNA	KNOWN	None	None	None	None	38363828	38364884	-1	None	None
15	None	ENSG00000236914	ENST00000560198	lincRNA	KNOWN	None	None	None	None	38364219	38365160	-1	None	None
HSCHR6_MHC_QBL	UQCRHP1	ENSG00000229189	ENST00000428844	processed_pseudogene	KNOWN	None	31341	None	None	31569105	31569378	-1	UQCRHP5	Em:AF129756.18
HSCHR6_MHC_QBL	None	ENSG00000264153	ENST00000581839	snoRNA	KNOWN	None	None	None	None	31581097	31581228	1	None	None
HG1133_PATCH	PRR4	ENSG00000263040	ENST00000574476	processed_transcript	KNOWN	None	18020	None	None	10977559	11035256	-1	PROL4	LPRP
HG1133_PATCH	PRR4	ENSG00000263040	ENST00000576227	processed_transcript	KNOWN	None	18020	None	None	10998448	11001533	-1	PROL4	LPRP
HG1133_PATCH	PRR4	ENSG00000263040	ENST00000573190	protein_coding	PUTATIVE	None	18020	198	65	10998448	11002069	-1	PROL4	LPRP
HG1133_PATCH	PRR4	ENSG00000263040	ENST00000570336	protein_coding	KNOWN	None	18020	405	134	10998448	11002074	-1	PROL4	LPRP
HG1133_PATCH	PRR4	ENSG00000263040	ENST00000571165	processed_transcript	KNOWN	None	18020	None	None	10998448	11320483	-1	PROL4	LPRP
HG1133_PATCH	PRR4	ENSG00000263040	ENST00000572566	processed_transcript	KNOWN	None	18020	None	None	10998448	11320498	-1	PROL4	LPRP
HG1133_PATCH	PRR4	ENSG00000263040	ENST00000576804	protein_coding	NOVEL	None	18020	237	78	10998450	11002074	-1	PROL4	LPRP
HG1133_PATCH	PRR4	ENSG00000263040	ENST00000570329	processed_transcript	KNOWN	None	18020	None	None	10998483	11001574	-1	PROL4	LPRP
HG1133_PATCH	PRR4	ENSG00000263040	ENST00000574629	retained_intron	KNOWN	None	18020	None	None	10999591	11002060	-1	PROL4	LPRP
HG1133_PATCH	PRR4	ENSG00000263040	ENST00000571262	processed_transcript	KNOWN	None	18020	None	None	10999805	11001158	-1	PROL4	LPRP
HG1133_PATCH	PRR4	ENSG00000263040	ENST00000570392	processed_transcript	KNOWN	None	18020	None	None	11000964	11002074	-1	PROL4	LPRP
HG1133_PATCH	PRR4	ENSG00000263040	ENST00000577147	processed_transcript	KNOWN	None	18020	None	None	11033567	11035697	-1	PROL4	LPRP
HG1133_PATCH	PRR4	ENSG00000263040	ENST00000572690	processed_transcript	KNOWN	None	18020	None	None	11034821	11200091	-1	PROL4	LPRP
HG1133_PATCH	PRR4	ENSG00000263040	ENST00000575485	processed_transcript	KNOWN	None	18020	None	None	11034835	11036816	-1	PROL4	LPRP
HG1133_PATCH	PRR4	ENSG00000263040	ENST00000572751	processed_transcript	KNOWN	None	18020	None	None	11035186	11320429	-1	PROL4	LPRP
HG1133_PATCH	PRR4	ENSG00000263040	ENST00000571532	processed_transcript	KNOWN	None	18020	None	None	11044060	11199942	-1	PROL4	LPRP
HG1133_PATCH	PRR4	ENSG00000263040	ENST00000572410	processed_transcript	KNOWN	None	18020	None	None	11047700	11126305	-1	PROL4	LPRP
HG1133_PATCH	PRR4	ENSG00000263040	ENST00000574240	processed_transcript	KNOWN	None	18020	None	None	11125883	11200015	-1	PROL4	LPRP
HG1133_PATCH	PRR4	ENSG00000263040	ENST00000571999	processed_transcript	KNOWN	None	18020	None	None	11158533	11200038	-1	PROL4	LPRP
HG1133_PATCH	PRR4	ENSG00000263040	ENST00000574374	processed_transcript	KNOWN	None	18020	None	None	11199914	11320493	-1	PROL4	LPRP
HG1133_PATCH	PRR4	ENSG00000263040	ENST00000577062	processed_transcript	KNOWN	None	18020	None	None	11269765	11320345	-1	PROL4	LPRP
HSCHR6_MHC_QBL	C6orf47-AS1	ENSG00000224835	ENST00000419186	processed_transcript	PUTATIVE	None	39767	None	None	31616346	31618738	1	None	None
X	None	ENSG00000230105	ENST00000446028	lincRNA	KNOWN	None	None	None	None	56644824	56650891	1	None	None
6	SLC2A12	ENSG00000146411	ENST00000275230	protein_coding	KNOWN	CCDS5169	18067	1854	617	134309835	134373774	-1	None	GLUT12, GLUT8
X	GAGE12E	ENSG00000216649	ENST00000381698	protein_coding	KNOWN	CCDS43945	31905	354	117	49315936	49323252	1	None	OTTHUMG00000024146
8	MTND2P32	ENSG00000254090	ENST00000521584	processed_pseudogene	KNOWN	None	42139	None	None	32872779	32874561	1	None	None
17	FAM104A	ENSG00000133193	ENST00000403627	protein_coding	KNOWN	CCDS11693	25918	561	186	71203492	71228506	-1	None	FLJ14775
17	FAM104A	ENSG00000133193	ENST00000405159	protein_coding	KNOWN	CCDS45766	25918	624	207	71203492	71228510	-1	None	FLJ14775
17	FAM104A	ENSG00000133193	ENST00000583178	processed_transcript	KNOWN	None	25918	None	None	71205627	71232892	-1	None	FLJ14775
17	FAM104A	ENSG00000133193	ENST00000580032	protein_coding	PUTATIVE	None	25918	291	96	71205647	71223887	-1	None	FLJ14775
17	FAM104A	ENSG00000133193	ENST00000581110	protein_coding	PUTATIVE	None	25918	312	103	71205705	71228533	-1	None	FLJ14775
17	FAM104A	ENSG00000133193	ENST00000579872	protein_coding	PUTATIVE	None	25918	377	124	71205714	71223839	-1	None	FLJ14775
17	FAM104A	ENSG00000133193	ENST00000583024	protein_coding	PUTATIVE	None	25918	330	109	71205744	71228459	-1	None	FLJ14775
17	None	ENSG00000263585	ENST00000583521	antisense	KNOWN	None	None	None	None	79890274	79890934	1	None	None
22	ADSL	ENSG00000239900	ENST00000216194	protein_coding	KNOWN	CCDS14001	291	1455	484	40742507	40763008	1	None	None
22	ADSL	ENSG00000239900	ENST00000466863	retained_intron	KNOWN	None	291	None	None	40742522	40746327	1	None	None
22	ADSL	ENSG00000239900	ENST00000342312	protein_coding	KNOWN	CCDS46714	291	1278	425	40742536	40763000	1	None	None
22	ADSL	ENSG00000239900	ENST00000477111	retained_intron	KNOWN	None	291	None	None	40745887	40755306	1	None	None
22	ADSL	ENSG00000239900	ENST00000480775	processed_transcript	KNOWN	None	291	None	None	40754972	40757594	1	None	None
22	ADSL	ENSG00000239900	ENST00000423176	retained_intron	KNOWN	None	291	None	None	40761329	40764823	1	None	None
22	ADSL	ENSG00000239900	ENST00000454266	protein_coding	KNOWN	None	291	1497	498	40742532	40762618	1	None	None
X	None	ENSG00000243604	ENST00000430173	processed_transcript	KNOWN	None	None	None	None	148614547	148615418	-1	None	None
HSCHR6_MHC_QBL	None	ENSG00000258226	ENST00000547212	pseudogene	NOVEL	None	None	None	None	31617025	31617964	-1	None	None
2	IL36B	ENSG00000136696	ENST00000259213	protein_coding	KNOWN	CCDS2109	15564	495	164	113779668	113810444	-1	IL1F8	FIL1, IL-1H2, IL-1F8, FILI-(ETA), IL1-ETA, IL1H2, MGC126880, MGC126882
2	IL36B	ENSG00000136696	ENST00000327407	protein_coding	KNOWN	CCDS2110	15564	474	157	113785010	113810444	-1	IL1F8	FIL1, IL-1H2, IL-1F8, FILI-(ETA), IL1-ETA, IL1H2, MGC126880, MGC126882
17	None	ENSG00000235296	ENST00000415556	antisense	KNOWN	None	None	None	None	79899745	79905477	1	None	None
1	None	ENSG00000268332	ENST00000594544	protein_coding	NOVEL	None	None	81	26	6100630	6101399	-1	None	None
20	PHACTR3	ENSG00000087495	ENST00000359926	protein_coding	PUTATIVE	CCDS56202	15833	1671	556	58152564	58422766	1	C20orf101	None
20	PHACTR3	ENSG00000087495	ENST00000434923	protein_coding	KNOWN	None	15833	125	40	58178560	58318168	1	C20orf101	None
20	PHACTR3	ENSG00000087495	ENST00000371015	protein_coding	KNOWN	CCDS13480	15833	1680	559	58179603	58422766	1	C20orf101	None
20	PHACTR3	ENSG00000087495	ENST00000355648	protein_coding	KNOWN	CCDS42895	15833	1557	518	58251716	58422766	1	C20orf101	None
20	PHACTR3	ENSG00000087495	ENST00000395636	protein_coding	KNOWN	CCDS42895	15833	1557	518	58296265	58422766	1	C20orf101	None
20	PHACTR3	ENSG00000087495	ENST00000361300	protein_coding	KNOWN	CCDS13481	15833	1347	448	58296265	58422766	1	C20orf101	None
20	PHACTR3	ENSG00000087495	ENST00000492611	retained_intron	KNOWN	None	15833	None	None	58410908	58422766	1	C20orf101	None
20	PHACTR3	ENSG00000087495	ENST00000473657	retained_intron	KNOWN	None	15833	None	None	58418510	58422766	1	C20orf101	None
20	PHACTR3	ENSG00000087495	ENST00000395639	protein_coding	KNOWN	CCDS13481	15833	1347	448	58179603	58422766	1	C20orf101	None
20	PHACTR3	ENSG00000087495	ENST00000541461	protein_coding	KNOWN	CCDS42895	15833	1557	518	58203664	58422201	1	C20orf101	None
16	UBN1	ENSG00000118900	ENST00000592120	protein_coding	PUTATIVE	None	12506	537	178	4896666	4909130	1	None	None
16	UBN1	ENSG00000118900	ENST00000262376	protein_coding	KNOWN	CCDS10525	12506	3405	1134	4897632	4932361	1	None	None
16	UBN1	ENSG00000118900	ENST00000590769	protein_coding	NOVEL	None	12506	3315	1104	4898381	4930295	1	None	None
16	UBN1	ENSG00000118900	ENST00000396658	protein_coding	KNOWN	CCDS10525	12506	3405	1134	4902216	4932361	1	None	None
16	UBN1	ENSG00000118900	ENST00000587027	nonsense_mediated_decay	KNOWN	None	12506	216	71	4908575	4918904	1	None	None
16	UBN1	ENSG00000118900	ENST00000585857	processed_transcript	KNOWN	None	12506	None	None	4910746	4920573	1	None	None
16	UBN1	ENSG00000118900	ENST00000586716	protein_coding	NOVEL	None	12506	937	311	4920889	4924969	1	None	None
16	UBN1	ENSG00000118900	ENST00000589191	nonsense_mediated_decay	KNOWN	None	12506	169	55	4925273	4930446	1	None	None
16	UBN1	ENSG00000118900	ENST00000586152	retained_intron	KNOWN	None	12506	None	None	4926949	4927814	1	None	None
16	UBN1	ENSG00000118900	ENST00000545171	protein_coding	KNOWN	None	12506	3315	1104	4897912	4932357	1	None	None
6	VN1R10P	ENSG00000220758	ENST00000447106	unprocessed_pseudogene	KNOWN	None	13550	None	None	27292673	27293547	1	VNR6I1P	hs6V1-1p, b24o18.2
6	VN1R10P	ENSG00000220758	ENST00000401407	pseudogene	KNOWN	None	13550	None	None	27292578	27293742	1	VNR6I1P	hs6V1-1p, b24o18.2
17	None	ENSG00000235183	ENST00000513669	processed_pseudogene	KNOWN	None	None	None	None	47872705	47873031	1	None	None
17	None	ENSG00000264735	ENST00000580125	lincRNA	KNOWN	None	None	None	None	79923508	79924465	-1	None	None
X	GAGE12F	ENSG00000236362	ENST00000440137	protein_coding	KNOWN	CCDS43946	31906	354	117	49325479	49332808	1	None	OTTHUMG00000024147
17	None	ENSG00000262837	ENST00000574365	processed_transcript	PUTATIVE	None	None	None	None	47911601	47913816	1	None	None
6	CYP51P3	ENSG00000215223	ENST00000400072	processed_pseudogene	KNOWN	None	41991	None	None	148799829	148801899	1	None	None
5	ROPN1L	ENSG00000145491	ENST00000503804	protein_coding	KNOWN	CCDS3879	24060	693	230	10441636	10465136	1	None	ASP, FLJ25776, RSPH11
5	ROPN1L	ENSG00000145491	ENST00000274134	protein_coding	KNOWN	CCDS3879	24060	693	230	10441988	10465140	1	None	ASP, FLJ25776, RSPH11
5	ROPN1L	ENSG00000145491	ENST00000510520	processed_transcript	KNOWN	None	24060	None	None	10441988	10472141	1	None	ASP, FLJ25776, RSPH11
5	ROPN1L	ENSG00000145491	ENST00000515762	retained_intron	KNOWN	None	24060	None	None	10442066	10461581	1	None	ASP, FLJ25776, RSPH11
5	ROPN1L	ENSG00000145491	ENST00000512022	retained_intron	KNOWN	None	24060	None	None	10442193	10461650	1	None	ASP, FLJ25776, RSPH11
2	ATOH8	ENSG00000168874	ENST00000469442	processed_transcript	KNOWN	None	24126	None	None	85978467	86015189	1	None	HATH6, FLJ14708, bHLHa21
2	ATOH8	ENSG00000168874	ENST00000306279	protein_coding	KNOWN	CCDS1985	24126	966	321	85981017	86015189	1	None	HATH6, FLJ14708, bHLHa21
2	ATOH8	ENSG00000168874	ENST00000463422	processed_transcript	PUTATIVE	None	24126	None	None	85981770	86002336	1	None	HATH6, FLJ14708, bHLHa21
2	ATOH8	ENSG00000168874	ENST00000473116	processed_transcript	KNOWN	None	24126	None	None	85987872	86008290	1	None	HATH6, FLJ14708, bHLHa21
2	ATOH8	ENSG00000168874	ENST00000489682	processed_transcript	PUTATIVE	None	24126	None	None	86008157	86015162	1	None	HATH6, FLJ14708, bHLHa21
7	None	ENSG00000204990	ENST00000461145	lincRNA	KNOWN	None	None	None	None	141114183	141116190	-1	None	None
17	None	ENSG00000204584	ENST00000376609	antisense	KNOWN	None	None	None	None	47923272	47926199	1	None	None
17	None	ENSG00000264569	ENST00000584705	antisense	KNOWN	None	None	None	None	79995781	79997256	1	None	None
17	None	ENSG00000264569	ENST00000582558	antisense	KNOWN	None	None	None	None	79995907	79997122	1	None	None
7	None	ENSG00000261629	ENST00000566521	antisense	KNOWN	None	None	None	None	141129511	141131068	-1	None	None
6	ZNF204P	ENSG00000204789	ENST00000416749	processed_pseudogene	KNOWN	None	12995	None	None	27325604	27328000	-1	ZNF204, ZNF315P	b24o18.1, ZNF184-Lp
6	ZNF204P	ENSG00000204789	ENST00000377448	processed_pseudogene	KNOWN	None	12995	None	None	27325605	27339304	-1	ZNF204, ZNF315P	b24o18.1, ZNF184-Lp
6	None	ENSG00000238490	ENST00000364811	misc_RNA	NOVEL	None	None	None	None	108382022	108382134	1	None	None
17	None	ENSG00000248954	ENST00000515692	processed_transcript	KNOWN	None	None	None	None	47964961	47978257	1	None	None
7	None	ENSG00000261797	ENST00000565449	lincRNA	KNOWN	None	None	None	None	141212498	141212983	-1	None	None
1	LINC00982	ENSG00000177133	ENST00000606861	antisense	KNOWN	None	48664	None	None	2976179	2979095	-1	None	FLJ42875
1	LINC00982	ENSG00000177133	ENST00000321399	antisense	KNOWN	None	48664	None	None	2976179	2980350	-1	None	FLJ42875
1	LINC00982	ENSG00000177133	ENST00000413472	antisense	KNOWN	None	48664	None	None	2976181	2978315	-1	None	FLJ42875
1	LINC00982	ENSG00000177133	ENST00000453118	antisense	KNOWN	None	48664	None	None	2976181	2978596	-1	None	FLJ42875
1	LINC00982	ENSG00000177133	ENST00000445317	antisense	KNOWN	None	48664	None	None	2976181	2985001	-1	None	FLJ42875
1	LINC00982	ENSG00000177133	ENST00000415573	antisense	KNOWN	None	48664	None	None	2977853	2980246	-1	None	FLJ42875
1	LINC00982	ENSG00000177133	ENST00000321336	antisense	KNOWN	None	48664	None	None	2980636	2984333	-1	None	FLJ42875
6	OSTM1-AS1	ENSG00000225174	ENST00000426008	lincRNA	KNOWN	None	43666	None	None	108444719	108477902	1	None	None
6	OSTM1-AS1	ENSG00000225174	ENST00000441184	lincRNA	KNOWN	None	43666	None	None	108444837	108480596	1	None	None
2	None	ENSG00000222000	ENST00000409490	protein_coding	NOVEL	None	None	231	76	98947852	98950434	-1	None	None
2	None	ENSG00000222000	ENST00000467398	processed_transcript	KNOWN	None	None	None	None	98948171	98950843	-1	None	None
2	None	ENSG00000222000	ENST00000454230	protein_coding	NOVEL	None	None	183	60	98949677	98972468	-1	None	None
5	TTC23L	ENSG00000205838	ENST00000502782	processed_transcript	KNOWN	None	26355	None	None	34838938	34863115	1	None	FLJ25439
5	TTC23L	ENSG00000205838	ENST00000506758	processed_transcript	KNOWN	None	26355	None	None	34839269	34863128	1	None	FLJ25439
5	TTC23L	ENSG00000205838	ENST00000505624	protein_coding	KNOWN	CCDS54840	26355	1086	361	34839269	34899561	1	None	FLJ25439
5	TTC23L	ENSG00000205838	ENST00000508722	nonsense_mediated_decay	KNOWN	None	26355	150	49	34839271	34869954	1	None	FLJ25439
5	TTC23L	ENSG00000205838	ENST00000508377	retained_intron	KNOWN	None	26355	None	None	34839319	34845818	1	None	FLJ25439
5	TTC23L	ENSG00000205838	ENST00000514080	processed_transcript	KNOWN	None	26355	None	None	34839328	34880413	1	None	FLJ25439
5	TTC23L	ENSG00000205838	ENST00000502674	nonsense_mediated_decay	KNOWN	None	26355	864	287	34840777	34896883	1	None	FLJ25439
14	NEDD8-MDP1	ENSG00000255526	ENST00000605847	nonsense_mediated_decay	KNOWN	None	39551	255	84	24683161	24701542	-1	None	None
14	NEDD8-MDP1	ENSG00000255526	ENST00000534348	protein_coding	KNOWN	None	39551	510	169	24683302	24701558	-1	None	None
14	NEDD8-MDP1	ENSG00000255526	ENST00000530579	nonsense_mediated_decay	KNOWN	None	39551	204	67	24683578	24701491	-1	None	None
14	NEDD8-MDP1	ENSG00000255526	ENST00000604306	processed_transcript	KNOWN	None	39551	None	None	24683584	24701491	-1	None	None
17	None	ENSG00000254039	ENST00000518420	lincRNA	KNOWN	None	None	None	None	47991767	48010282	1	None	None
19	ZNF209P	ENSG00000269138	ENST00000593450	unprocessed_pseudogene	KNOWN	None	13000	None	None	22646724	22655838	1	ZNF209	None
15	None	ENSG00000166503	ENST00000568294	protein_coding	PUTATIVE	None	None	426	141	83784320	83826741	-1	None	None
15	None	ENSG00000166503	ENST00000299633	protein_coding	KNOWN	CCDS32314	None	612	203	83806816	83876770	-1	None	None
15	None	ENSG00000166503	ENST00000563790	nonsense_mediated_decay	KNOWN	None	None	135	44	83807884	83876293	-1	None	None
15	None	ENSG00000166503	ENST00000562702	protein_coding	PUTATIVE	None	None	445	147	83826103	83837983	-1	None	None
15	None	ENSG00000166503	ENST00000568129	retained_intron	KNOWN	None	None	None	None	83832522	83876202	-1	None	None
15	None	ENSG00000166503	ENST00000563404	nonsense_mediated_decay	KNOWN	None	None	135	44	83832791	83876280	-1	None	None
17	None	ENSG00000249176	ENST00000515049	processed_pseudogene	KNOWN	None	None	None	None	48016486	48017183	1	None	None
13	SPATA13	ENSG00000182957	ENST00000382141	nonsense_mediated_decay	KNOWN	None	23222	3318	1105	24553839	24895169	1	None	FLJ31208, ARHGEF29
13	SPATA13	ENSG00000182957	ENST00000424834	protein_coding	PUTATIVE	CCDS53857	23222	3834	1277	24553944	24881207	1	None	FLJ31208, ARHGEF29
13	SPATA13	ENSG00000182957	ENST00000466831	retained_intron	KNOWN	None	23222	None	None	24734861	24798936	1	None	FLJ31208, ARHGEF29
13	SPATA13	ENSG00000182957	ENST00000382095	protein_coding	KNOWN	CCDS9305	23222	1959	652	24734887	24881210	1	None	FLJ31208, ARHGEF29
13	SPATA13	ENSG00000182957	ENST00000474317	processed_transcript	KNOWN	None	23222	None	None	24798379	24823801	1	None	FLJ31208, ARHGEF29
13	SPATA13	ENSG00000182957	ENST00000434675	protein_coding	PUTATIVE	None	23222	1653	550	24825832	24877259	1	None	FLJ31208, ARHGEF29
13	SPATA13	ENSG00000182957	ENST00000494772	processed_transcript	KNOWN	None	23222	None	None	24825856	24852907	1	None	FLJ31208, ARHGEF29
13	SPATA13	ENSG00000182957	ENST00000399949	protein_coding	PUTATIVE	None	23222	1725	574	24844826	24878042	1	None	FLJ31208, ARHGEF29
13	SPATA13	ENSG00000182957	ENST00000409126	protein_coding	PUTATIVE	None	23222	1539	512	24844857	24877344	1	None	FLJ31208, ARHGEF29
13	SPATA13	ENSG00000182957	ENST00000454083	protein_coding	PUTATIVE	None	23222	438	145	24844979	24860531	1	None	FLJ31208, ARHGEF29
13	SPATA13	ENSG00000182957	ENST00000488060	processed_transcript	KNOWN	None	23222	None	None	24846827	24852907	1	None	FLJ31208, ARHGEF29
13	SPATA13	ENSG00000182957	ENST00000382108	protein_coding	KNOWN	CCDS53857	23222	3834	1277	24734861	24881212	1	None	FLJ31208, ARHGEF29
13	SPATA13	ENSG00000182957	ENST00000343003	protein_coding	KNOWN	None	23222	1791	596	24844923	24876985	1	None	FLJ31208, ARHGEF29
19	PKN1	ENSG00000123143	ENST00000585619	protein_coding	PUTATIVE	None	9405	44	13	14543865	14557248	1	PRKCL1	DBK, PRK1, PKN, MGC46204, PAK1
19	PKN1	ENSG00000123143	ENST00000585839	retained_intron	KNOWN	None	9405	None	None	14544135	14582679	1	PRKCL1	DBK, PRK1, PKN, MGC46204, PAK1
19	PKN1	ENSG00000123143	ENST00000242783	protein_coding	KNOWN	CCDS42513	9405	2829	942	14544169	14582671	1	PRKCL1	DBK, PRK1, PKN, MGC46204, PAK1
19	PKN1	ENSG00000123143	ENST00000586557	protein_coding	PUTATIVE	None	9405	767	254	14544231	14569054	1	PRKCL1	DBK, PRK1, PKN, MGC46204, PAK1
19	PKN1	ENSG00000123143	ENST00000587429	processed_transcript	KNOWN	None	9405	None	None	14544296	14557270	1	PRKCL1	DBK, PRK1, PKN, MGC46204, PAK1
19	PKN1	ENSG00000123143	ENST00000590097	protein_coding	PUTATIVE	None	9405	790	262	14544305	14561273	1	PRKCL1	DBK, PRK1, PKN, MGC46204, PAK1
19	PKN1	ENSG00000123143	ENST00000342216	protein_coding	KNOWN	CCDS42514	9405	2847	948	14551072	14582678	1	PRKCL1	DBK, PRK1, PKN, MGC46204, PAK1
19	PKN1	ENSG00000123143	ENST00000592794	processed_transcript	KNOWN	None	9405	None	None	14551185	14552246	1	PRKCL1	DBK, PRK1, PKN, MGC46204, PAK1
19	PKN1	ENSG00000123143	ENST00000588200	retained_intron	KNOWN	None	9405	None	None	14561618	14568891	1	PRKCL1	DBK, PRK1, PKN, MGC46204, PAK1
19	PKN1	ENSG00000123143	ENST00000586900	retained_intron	KNOWN	None	9405	None	None	14574355	14578490	1	PRKCL1	DBK, PRK1, PKN, MGC46204, PAK1
19	PKN1	ENSG00000123143	ENST00000586237	protein_coding	PUTATIVE	None	9405	454	150	14574687	14582671	1	PRKCL1	DBK, PRK1, PKN, MGC46204, PAK1
19	PKN1	ENSG00000123143	ENST00000587215	retained_intron	KNOWN	None	9405	None	None	14578298	14578736	1	PRKCL1	DBK, PRK1, PKN, MGC46204, PAK1
19	PKN1	ENSG00000123143	ENST00000591461	nonsense_mediated_decay	KNOWN	None	9405	597	198	14578434	14582576	1	PRKCL1	DBK, PRK1, PKN, MGC46204, PAK1
19	PKN1	ENSG00000123143	ENST00000586039	retained_intron	KNOWN	None	9405	None	None	14580987	14582670	1	PRKCL1	DBK, PRK1, PKN, MGC46204, PAK1
19	PKN1	ENSG00000123143	ENST00000592960	protein_coding	PUTATIVE	None	9405	677	224	14581594	14582674	1	PRKCL1	DBK, PRK1, PKN, MGC46204, PAK1
15	None	ENSG00000258415	ENST00000554326	processed_pseudogene	KNOWN	None	None	None	None	21987458	21987995	-1	None	None
17	RNU6-1313P	ENSG00000199492	ENST00000362622	snRNA	KNOWN	None	48276	None	None	48043439	48043540	-1	None	None
17	None	ENSG00000248172	ENST00000511867	lincRNA	KNOWN	None	None	None	None	48074253	48094208	1	None	None
15	CXADRP2	ENSG00000258712	ENST00000556905	processed_pseudogene	KNOWN	None	33973	None	None	22015703	22016791	-1	None	None
17	None	ENSG00000238947	ENST00000458925	snoRNA	NOVEL	None	None	None	None	80099539	80099649	1	None	None
17	None	ENSG00000265678	ENST00000579979	antisense	KNOWN	None	None	None	None	80111306	80112691	1	None	None
12	ZNF26	ENSG00000198393	ENST00000537956	processed_transcript	KNOWN	None	13053	None	None	133562951	133582762	1	None	KOX20, FLJ20755
12	ZNF26	ENSG00000198393	ENST00000545101	processed_transcript	KNOWN	None	13053	None	None	133563004	133582776	1	None	KOX20, FLJ20755
12	ZNF26	ENSG00000198393	ENST00000540238	protein_coding	NOVEL	None	13053	241	79	133563029	133586802	1	None	KOX20, FLJ20755
12	ZNF26	ENSG00000198393	ENST00000328654	protein_coding	KNOWN	CCDS31939	13053	1602	533	133563050	133589154	1	None	KOX20, FLJ20755
12	ZNF26	ENSG00000198393	ENST00000544181	protein_coding	NOVEL	None	13053	461	152	133563054	133586827	1	None	KOX20, FLJ20755
12	ZNF26	ENSG00000198393	ENST00000534834	protein_coding	PUTATIVE	None	13053	1542	513	133580990	133588713	1	None	KOX20, FLJ20755
11	CASP4	ENSG00000196954	ENST00000525116	retained_intron	KNOWN	None	1505	None	None	104813593	104819621	-1	None	ICE(rel)II, ICH-2, TX
11	CASP4	ENSG00000196954	ENST00000444739	protein_coding	KNOWN	CCDS8327	1505	1134	377	104813593	104840163	-1	None	ICE(rel)II, ICH-2, TX
11	CASP4	ENSG00000196954	ENST00000393150	protein_coding	PUTATIVE	CCDS41704	1505	966	321	104813595	104827425	-1	None	ICE(rel)II, ICH-2, TX
11	CASP4	ENSG00000196954	ENST00000533252	protein_coding	NOVEL	None	1505	215	70	104813596	104817919	-1	None	ICE(rel)II, ICH-2, TX
11	CASP4	ENSG00000196954	ENST00000529565	retained_intron	KNOWN	None	1505	None	None	104813597	104821719	-1	None	ICE(rel)II, ICH-2, TX
11	CASP4	ENSG00000196954	ENST00000530309	retained_intron	KNOWN	None	1505	None	None	104813600	104818085	-1	None	ICE(rel)II, ICH-2, TX
11	CASP4	ENSG00000196954	ENST00000533730	retained_intron	KNOWN	None	1505	None	None	104815480	104839274	-1	None	ICE(rel)II, ICH-2, TX
11	CASP4	ENSG00000196954	ENST00000534356	retained_intron	KNOWN	None	1505	None	None	104817351	104819461	-1	None	ICE(rel)II, ICH-2, TX
11	CASP4	ENSG00000196954	ENST00000529183	processed_transcript	PUTATIVE	None	1505	None	None	104819329	104839292	-1	None	ICE(rel)II, ICH-2, TX
11	CASP4	ENSG00000196954	ENST00000524843	retained_intron	KNOWN	None	1505	None	None	104820129	104839308	-1	None	ICE(rel)II, ICH-2, TX
11	CASP4	ENSG00000196954	ENST00000531333	processed_transcript	PUTATIVE	None	1505	None	None	104820388	104839366	-1	None	ICE(rel)II, ICH-2, TX
11	CASP4	ENSG00000196954	ENST00000417440	protein_coding	KNOWN	None	1505	443	146	104821755	104840093	-1	None	ICE(rel)II, ICH-2, TX
11	CASP4	ENSG00000196954	ENST00000531546	retained_intron	KNOWN	None	1505	None	None	104822124	104839302	-1	None	ICE(rel)II, ICH-2, TX
HSCHR6_MHC_SSTO	NOTCH4	ENSG00000234876	ENST00000457094	protein_coding	KNOWN	None	7884	6012	2003	32169488	32198715	-1	INT3	None
HSCHR6_MHC_SSTO	NOTCH4	ENSG00000234876	ENST00000495284	retained_intron	KNOWN	None	7884	None	None	32169488	32178826	-1	INT3	None
HSCHR6_MHC_SSTO	NOTCH4	ENSG00000234876	ENST00000497260	retained_intron	KNOWN	None	7884	None	None	32169488	32171622	-1	INT3	None
HSCHR6_MHC_SSTO	NOTCH4	ENSG00000234876	ENST00000493728	processed_transcript	KNOWN	None	7884	None	None	32185576	32188883	-1	INT3	None
HSCHR6_MHC_SSTO	NOTCH4	ENSG00000234876	ENST00000467950	retained_intron	KNOWN	None	7884	None	None	32190508	32198705	-1	INT3	None
17	None	ENSG00000246640	ENST00000499842	processed_transcript	KNOWN	None	None	None	None	48127713	48133103	-1	None	None
14	None	ENSG00000258541	ENST00000556991	unprocessed_pseudogene	KNOWN	None	None	None	None	20374076	20374759	1	None	None
17	None	ENSG00000266654	ENST00000582774	antisense	KNOWN	None	None	None	None	80117932	80118328	1	None	None
HG186_PATCH	RAD54L2	ENSG00000261443	ENST00000562723	retained_intron	KNOWN	None	29123	None	None	51579011	51701025	1	None	KIAA0809, SRISNF2L
HG186_PATCH	RAD54L2	ENSG00000261443	ENST00000565618	protein_coding	KNOWN	None	29123	4404	1467	51579011	51701025	1	None	KIAA0809, SRISNF2L
HG186_PATCH	RAD54L2	ENSG00000261443	ENST00000570228	protein_coding	NOVEL	None	29123	3889	1295	51666822	51700888	1	None	KIAA0809, SRISNF2L
HG186_PATCH	RAD54L2	ENSG00000261443	ENST00000567318	retained_intron	KNOWN	None	29123	None	None	51666824	51668362	1	None	KIAA0809, SRISNF2L
HG186_PATCH	RAD54L2	ENSG00000261443	ENST00000565529	retained_intron	KNOWN	None	29123	None	None	51667753	51701025	1	None	KIAA0809, SRISNF2L
8	None	ENSG00000260721	ENST00000567210	lincRNA	KNOWN	None	None	None	None	1316808	1317999	-1	None	None
17	None	ENSG00000264548	ENST00000581303	antisense	KNOWN	None	None	None	None	80172103	80175228	1	None	None
9	None	ENSG00000228142	ENST00000422343	lincRNA	KNOWN	None	None	None	None	98412436	98478000	1	None	None
9	None	ENSG00000228142	ENST00000580326	lincRNA	KNOWN	None	None	None	None	98412444	98477979	1	None	None
7	PRSS58	ENSG00000258223	ENST00000547058	protein_coding	KNOWN	CCDS5871	39125	726	241	141951963	141957878	-1	None	TRYX3
7	PRSS58	ENSG00000258223	ENST00000552471	protein_coding	KNOWN	CCDS5871	39125	726	241	141951964	141957847	-1	None	TRYX3
14	None	ENSG00000259016	ENST00000554965	processed_pseudogene	KNOWN	None	None	None	None	20376255	20376808	-1	None	None
19	None	ENSG00000269693	ENST00000593682	nonsense_mediated_decay	KNOWN	None	None	491	162	12636534	12691789	-1	None	None
17	None	ENSG00000250282	ENST00000511361	antisense	KNOWN	None	None	None	None	48178068	48179284	-1	None	None
17	None	ENSG00000184551	ENST00000330292	pseudogene	NOVEL	None	None	None	None	80206943	80209703	1	None	None
9	None	ENSG00000227358	ENST00000445213	processed_pseudogene	KNOWN	None	None	None	None	98415194	98415548	1	None	None
5	None	ENSG00000248371	ENST00000506293	lincRNA	KNOWN	None	None	None	None	71869947	71870655	-1	None	None
5	None	ENSG00000248371	ENST00000512573	lincRNA	KNOWN	None	None	None	None	71869947	71956496	-1	None	None
5	None	ENSG00000248371	ENST00000506250	lincRNA	KNOWN	None	None	None	None	71870013	71876804	-1	None	None
8	None	ENSG00000253267	ENST00000518063	antisense	KNOWN	None	None	None	None	1513675	1568701	-1	None	None
8	None	ENSG00000253267	ENST00000518009	antisense	KNOWN	None	None	None	None	1552718	1570583	-1	None	None
1	KIF17	ENSG00000117245	ENST00000493818	processed_transcript	KNOWN	None	19167	None	None	20990507	20991083	-1	None	KIAA1405, KIF3X, KIF17B, OSM-3, KLP-2
1	KIF17	ENSG00000117245	ENST00000477167	processed_transcript	KNOWN	None	19167	None	None	20990507	21011680	-1	None	KIAA1405, KIF3X, KIF17B, OSM-3, KLP-2
1	KIF17	ENSG00000117245	ENST00000490034	processed_transcript	KNOWN	None	19167	None	None	20990507	21024932	-1	None	KIAA1405, KIF3X, KIF17B, OSM-3, KLP-2
1	KIF17	ENSG00000117245	ENST00000375044	protein_coding	KNOWN	None	19167	2790	929	20990507	21043984	-1	None	KIAA1405, KIF3X, KIF17B, OSM-3, KLP-2
1	KIF17	ENSG00000117245	ENST00000400463	protein_coding	KNOWN	CCDS44079	19167	3087	1028	20990507	21044273	-1	None	KIAA1405, KIF3X, KIF17B, OSM-3, KLP-2
1	KIF17	ENSG00000117245	ENST00000247986	protein_coding	KNOWN	CCDS213	19167	3090	1029	20990509	21044510	-1	None	KIAA1405, KIF3X, KIF17B, OSM-3, KLP-2
1	KIF17	ENSG00000117245	ENST00000462858	processed_transcript	KNOWN	None	19167	None	None	20992707	21011776	-1	None	KIAA1405, KIF3X, KIF17B, OSM-3, KLP-2
1	KIF17	ENSG00000117245	ENST00000498225	processed_transcript	KNOWN	None	19167	None	None	20996922	21012868	-1	None	KIAA1405, KIF3X, KIF17B, OSM-3, KLP-2
1	KIF17	ENSG00000117245	ENST00000463389	processed_transcript	KNOWN	None	19167	None	None	20998509	20999513	-1	None	KIAA1405, KIF3X, KIF17B, OSM-3, KLP-2
9	LINC00476	ENSG00000175611	ENST00000433656	processed_transcript	KNOWN	None	27858	None	None	98521513	98637762	-1	C9orf130	None
9	LINC00476	ENSG00000175611	ENST00000412446	processed_transcript	KNOWN	None	27858	None	None	98575575	98638259	-1	C9orf130	None
9	LINC00476	ENSG00000175611	ENST00000429781	processed_transcript	KNOWN	None	27858	None	None	98602882	98637869	-1	C9orf130	None
9	LINC00476	ENSG00000175611	ENST00000427259	processed_transcript	KNOWN	None	27858	None	None	98632122	98637552	-1	C9orf130	None
9	LINC00476	ENSG00000175611	ENST00000448465	processed_transcript	KNOWN	None	27858	None	None	98632565	98637352	-1	C9orf130	None
9	LINC00476	ENSG00000175611	ENST00000321517	processed_transcript	KNOWN	None	27858	None	None	98632566	98638258	-1	C9orf130	None
5	None	ENSG00000212529	ENST00000391227	snoRNA	NOVEL	None	None	None	None	171679338	171679482	-1	None	None
HSCHR4_1	None	ENSG00000257413	ENST00000552105	protein_coding	KNOWN	None	None	2184	727	69176103	69215822	-1	None	None
HSCHR4_1	None	ENSG00000257413	ENST00000550485	protein_coding	KNOWN	None	None	2130	709	69176103	69215822	-1	None	None
17	PPP1R9B	ENSG00000108819	ENST00000501501	processed_transcript	KNOWN	None	9298	None	None	48211105	48227991	-1	PPP1R6, PPP1R9	Spn, SPINO
17	PPP1R9B	ENSG00000108819	ENST00000513579	processed_transcript	KNOWN	None	9298	None	None	48216825	48222517	-1	PPP1R6, PPP1R9	Spn, SPINO
17	PPP1R9B	ENSG00000108819	ENST00000316878	protein_coding	KNOWN	None	9298	2448	815	48211104	48227877	-1	PPP1R6, PPP1R9	Spn, SPINO
19	None	ENSG00000270804	ENST00000604665	processed_transcript	KNOWN	None	None	None	None	58379253	58380143	1	None	None
19	None	ENSG00000270804	ENST00000603829	transcribed_processed_pseudogene	KNOWN	None	None	None	None	58379338	58380202	1	None	None
HG544_PATCH	TMEM236	ENSG00000260324	ENST00000569785	protein_coding	KNOWN	None	23473	1056	351	17794251	17842867	1	FAM23B, FAM23A	bA16O1.2, bA162I21.2
15	None	ENSG00000258767	ENST00000557717	processed_pseudogene	KNOWN	None	None	None	None	22025293	22025752	1	None	None
16	None	ENSG00000250616	ENST00000515455	antisense	KNOWN	None	None	None	None	30107751	30115437	1	None	None
7	WBSCR22	ENSG00000071462	ENST00000464615	processed_transcript	PUTATIVE	None	16405	None	None	73097355	73101064	1	None	MGC19709, MGC2022, MGC5140, PP3381, WBMT, MERM1
7	WBSCR22	ENSG00000071462	ENST00000265758	protein_coding	KNOWN	CCDS5557	16405	846	281	73097898	73112542	1	None	MGC19709, MGC2022, MGC5140, PP3381, WBMT, MERM1
7	WBSCR22	ENSG00000071462	ENST00000421304	nonsense_mediated_decay	KNOWN	None	16405	90	29	73097899	73101425	1	None	MGC19709, MGC2022, MGC5140, PP3381, WBMT, MERM1
7	WBSCR22	ENSG00000071462	ENST00000432522	nonsense_mediated_decay	KNOWN	None	16405	423	140	73097901	73108795	1	None	MGC19709, MGC2022, MGC5140, PP3381, WBMT, MERM1
7	WBSCR22	ENSG00000071462	ENST00000421744	nonsense_mediated_decay	KNOWN	None	16405	303	100	73097903	73111070	1	None	MGC19709, MGC2022, MGC5140, PP3381, WBMT, MERM1
7	WBSCR22	ENSG00000071462	ENST00000478670	retained_intron	KNOWN	None	16405	None	None	73097927	73107203	1	None	MGC19709, MGC2022, MGC5140, PP3381, WBMT, MERM1
7	WBSCR22	ENSG00000071462	ENST00000496153	retained_intron	KNOWN	None	16405	None	None	73097927	73108431	1	None	MGC19709, MGC2022, MGC5140, PP3381, WBMT, MERM1
7	WBSCR22	ENSG00000071462	ENST00000441822	nonsense_mediated_decay	KNOWN	None	16405	90	29	73097931	73106976	1	None	MGC19709, MGC2022, MGC5140, PP3381, WBMT, MERM1
7	WBSCR22	ENSG00000071462	ENST00000428163	nonsense_mediated_decay	KNOWN	None	16405	423	140	73097937	73108334	1	None	MGC19709, MGC2022, MGC5140, PP3381, WBMT, MERM1
7	WBSCR22	ENSG00000071462	ENST00000436944	nonsense_mediated_decay	KNOWN	None	16405	90	29	73097937	73119491	1	None	MGC19709, MGC2022, MGC5140, PP3381, WBMT, MERM1
7	WBSCR22	ENSG00000071462	ENST00000463307	retained_intron	KNOWN	None	16405	None	None	73097939	73112486	1	None	MGC19709, MGC2022, MGC5140, PP3381, WBMT, MERM1
7	WBSCR22	ENSG00000071462	ENST00000430270	nonsense_mediated_decay	KNOWN	None	16405	90	29	73097956	73112434	1	None	MGC19709, MGC2022, MGC5140, PP3381, WBMT, MERM1
7	WBSCR22	ENSG00000071462	ENST00000423497	protein_coding	NOVEL	CCDS56490	16405	897	298	73097956	73112538	1	None	MGC19709, MGC2022, MGC5140, PP3381, WBMT, MERM1
7	WBSCR22	ENSG00000071462	ENST00000487006	retained_intron	KNOWN	None	16405	None	None	73097961	73107881	1	None	MGC19709, MGC2022, MGC5140, PP3381, WBMT, MERM1
7	WBSCR22	ENSG00000071462	ENST00000430446	nonsense_mediated_decay	KNOWN	None	16405	119	38	73101150	73112486	1	None	MGC19709, MGC2022, MGC5140, PP3381, WBMT, MERM1
7	WBSCR22	ENSG00000071462	ENST00000442099	protein_coding	PUTATIVE	None	16405	385	127	73105246	73112482	1	None	MGC19709, MGC2022, MGC5140, PP3381, WBMT, MERM1
7	WBSCR22	ENSG00000071462	ENST00000453316	protein_coding	PUTATIVE	None	16405	196	64	73106926	73112472	1	None	MGC19709, MGC2022, MGC5140, PP3381, WBMT, MERM1
7	WBSCR22	ENSG00000071462	ENST00000471215	retained_intron	KNOWN	None	16405	None	None	73108444	73112466	1	None	MGC19709, MGC2022, MGC5140, PP3381, WBMT, MERM1
7	WBSCR22	ENSG00000071462	ENST00000423166	protein_coding	KNOWN	None	16405	372	123	73097937	73119491	1	None	MGC19709, MGC2022, MGC5140, PP3381, WBMT, MERM1
6	SUMO4	ENSG00000177688	ENST00000326669	protein_coding	KNOWN	CCDS34549	21181	288	95	149721495	149722177	1	SMT3H4	dJ281H8.4
14	OR4K16P	ENSG00000258822	ENST00000554603	unprocessed_pseudogene	KNOWN	None	15354	None	None	20424759	20425727	1	None	None
1	C1orf222	ENSG00000142609	ENST00000464311	retained_intron	KNOWN	None	27917	None	None	1853396	1859368	-1	None	None
1	C1orf222	ENSG00000142609	ENST00000412120	retained_intron	KNOWN	None	27917	None	None	1853522	1858842	-1	None	None
1	C1orf222	ENSG00000142609	ENST00000493964	protein_coding	PUTATIVE	None	27917	2604	867	1853726	1887154	-1	None	None
1	C1orf222	ENSG00000142609	ENST00000493316	protein_coding	PUTATIVE	None	27917	550	182	1877787	1891545	-1	None	None
1	C1orf222	ENSG00000142609	ENST00000270720	retained_intron	KNOWN	None	27917	None	None	1884752	1935276	-1	None	None
1	C1orf222	ENSG00000142609	ENST00000468610	retained_intron	KNOWN	None	27917	None	None	1886587	1935153	-1	None	None
1	C1orf222	ENSG00000142609	ENST00000461752	protein_coding	PUTATIVE	None	27917	540	179	1887150	1891547	-1	None	None
1	C1orf222	ENSG00000142609	ENST00000604159	protein_coding	PUTATIVE	None	27917	516	171	1891403	1897965	-1	None	None
1	C1orf222	ENSG00000142609	ENST00000378592	retained_intron	KNOWN	None	27917	None	None	1915110	1935276	-1	None	None
1	C1orf222	ENSG00000142609	ENST00000378590	protein_coding	PUTATIVE	None	27917	279	92	1919401	1922368	-1	None	None
1	C1orf222	ENSG00000142609	ENST00000434971	protein_coding	KNOWN	None	27917	306	101	1919563	1935153	-1	None	None
5	None	ENSG00000251613	ENST00000513767	lincRNA	KNOWN	None	None	None	None	71982939	72057492	-1	None	None
5	None	ENSG00000251613	ENST00000508217	lincRNA	KNOWN	None	None	None	None	71986376	72058554	-1	None	None
17	RNFT1P3	ENSG00000187870	ENST00000340898	unprocessed_pseudogene	KNOWN	None	44389	None	None	20646646	20657814	-1	None	None
2	IL36RN	ENSG00000136695	ENST00000346807	protein_coding	KNOWN	CCDS2111	15561	468	155	113816215	113822325	1	IL1F5	FIL1, FIL1(DELTA), FIL1D, IL1HY1, IL1RP3, IL1L1, IL-1F5, IL36RA, MGC29840
2	IL36RN	ENSG00000136695	ENST00000393200	protein_coding	KNOWN	CCDS2111	15561	468	155	113816685	113822325	1	IL1F5	FIL1, FIL1(DELTA), FIL1D, IL1HY1, IL1RP3, IL1L1, IL-1F5, IL36RA, MGC29840
2	IL36RN	ENSG00000136695	ENST00000437409	protein_coding	KNOWN	None	15561	351	116	113816964	113820137	1	IL1F5	FIL1, FIL1(DELTA), FIL1D, IL1HY1, IL1RP3, IL1L1, IL-1F5, IL36RA, MGC29840
2	IL36RN	ENSG00000136695	ENST00000514072	protein_coding	KNOWN	None	15561	158	51	113820097	113822959	1	IL1F5	FIL1, FIL1(DELTA), FIL1D, IL1HY1, IL1RP3, IL1L1, IL-1F5, IL36RA, MGC29840
6	RN7SL580P	ENSG00000240641	ENST00000492489	misc_RNA	KNOWN	None	46596	None	None	51840458	51840755	1	None	None
15	None	ENSG00000258848	ENST00000556999	processed_pseudogene	KNOWN	None	None	None	None	22026731	22026974	1	None	None
6	None	ENSG00000264206	ENST00000408630	miRNA	NOVEL	None	None	None	None	51926413	51926504	-1	None	None
19	None	ENSG00000243234	ENST00000462726	processed_pseudogene	KNOWN	None	None	None	None	58464526	58465127	-1	None	None
X	GAGE12G	ENSG00000215269	ENST00000445148	protein_coding	KNOWN	CCDS43947	31907	354	117	49335037	49342357	1	None	OTTHUMG00000024148
1	None	ENSG00000183291	ENST00000331835	protein_coding	KNOWN	None	None	489	162	87328132	87380048	-1	None	None
1	None	ENSG00000183291	ENST00000370554	protein_coding	KNOWN	None	None	366	121	87328408	87379817	-1	None	None
1	None	ENSG00000183291	ENST00000469566	processed_transcript	KNOWN	None	None	None	None	87328850	87380107	-1	None	None
1	None	ENSG00000183291	ENST00000401030	protein_coding	KNOWN	None	None	426	141	87328984	87379809	-1	None	None
1	None	ENSG00000183291	ENST00000497861	processed_transcript	KNOWN	None	None	None	None	87329200	87369035	-1	None	None
1	None	ENSG00000183291	ENST00000467557	processed_transcript	KNOWN	None	None	None	None	87333779	87379748	-1	None	None
12	None	ENSG00000270134	ENST00000602891	lincRNA	KNOWN	None	None	None	None	123210623	123211051	-1	None	None
9	None	ENSG00000238657	ENST00000459497	snoRNA	NOVEL	None	None	None	None	135968439	135968538	1	None	None
18	None	ENSG00000227115	ENST00000582689	lincRNA	KNOWN	None	None	None	None	48872619	49058541	1	None	None
18	None	ENSG00000227115	ENST00000583982	lincRNA	KNOWN	None	None	None	None	48918368	49087071	1	None	None
18	None	ENSG00000227115	ENST00000578152	lincRNA	KNOWN	None	None	None	None	48918412	48994748	1	None	None
18	None	ENSG00000227115	ENST00000583609	lincRNA	KNOWN	None	None	None	None	48918412	49086999	1	None	None
18	None	ENSG00000227115	ENST00000435144	lincRNA	KNOWN	None	None	None	None	48918412	49088839	1	None	None
18	None	ENSG00000227115	ENST00000580841	lincRNA	KNOWN	None	None	None	None	48918412	49088939	1	None	None
6	MIR206	ENSG00000207604	ENST00000384872	miRNA	KNOWN	None	31584	None	None	52009147	52009232	1	MIRN206	hsa-mir-206
9	MURC	ENSG00000170681	ENST00000307584	protein_coding	KNOWN	CCDS35083	33742	1095	364	103340361	103350188	1	None	cavin-4, CAVIN4
12	None	ENSG00000256044	ENST00000542164	processed_pseudogene	KNOWN	None	None	None	None	123234028	123234133	-1	None	None
X	None	ENSG00000239407	ENST00000426528	processed_transcript	KNOWN	None	None	None	None	102139342	102161086	1	None	None
X	None	ENSG00000239407	ENST00000429932	processed_transcript	KNOWN	None	None	None	None	102152509	102160619	1	None	None
5	RPL7P22	ENSG00000226544	ENST00000466005	processed_pseudogene	KNOWN	None	35802	None	None	72021246	72021978	1	None	None
X	APOOL	ENSG00000155008	ENST00000373173	protein_coding	KNOWN	CCDS48138	24009	807	268	84258832	84343069	1	CXorf33, FAM121A	UNQ8193, AAIR8193
4	RPL17P20	ENSG00000241250	ENST00000461464	processed_pseudogene	KNOWN	None	36015	None	None	57576226	57576780	1	None	None
6	None	ENSG00000225613	ENST00000418518	lincRNA	KNOWN	None	None	None	None	52011612	52015917	-1	None	None
12	None	ENSG00000206914	ENST00000384187	misc_RNA	NOVEL	None	None	None	None	123252646	123252747	1	None	None
9	LCN1P1	ENSG00000119440	ENST00000372031	unprocessed_pseudogene	KNOWN	None	23412	None	None	136100292	136103978	-1	LCN1L1	bA430N14.2
9	LCN1P1	ENSG00000119440	ENST00000540384	unprocessed_pseudogene	KNOWN	None	23412	None	None	136100314	136103993	-1	LCN1L1	bA430N14.2
2	CNGA3	ENSG00000144191	ENST00000436404	protein_coding	KNOWN	CCDS42719	2150	2031	676	98962651	99013807	1	CNCG3, ACHM2	CCNC1, CCNCa, CNG3
2	CNGA3	ENSG00000144191	ENST00000272602	protein_coding	KNOWN	CCDS2034	2150	2085	694	98986400	99015064	1	CNCG3, ACHM2	CCNC1, CCNCa, CNG3
2	CNGA3	ENSG00000144191	ENST00000409937	protein_coding	NOVEL	None	2150	2097	698	98993751	99014095	1	CNCG3, ACHM2	CCNC1, CCNCa, CNG3
2	CNGA3	ENSG00000144191	ENST00000393503	retained_intron	KNOWN	None	2150	None	None	98996364	99006235	1	CNCG3, ACHM2	CCNC1, CCNCa, CNG3
2	CNGA3	ENSG00000144191	ENST00000393504	protein_coding	KNOWN	CCDS2034	2150	2085	694	98962618	99015057	1	CNCG3, ACHM2	CCNC1, CCNCa, CNG3
5	None	ENSG00000223497	ENST00000415539	unitary_pseudogene	KNOWN	None	None	None	None	72029660	72030036	1	None	None
11	LTBP3	ENSG00000168056	ENST00000322147	protein_coding	KNOWN	CCDS8103	6716	3771	1256	65306276	65325430	-1	LTBP2	None
11	LTBP3	ENSG00000168056	ENST00000529582	retained_intron	KNOWN	None	6716	None	None	65306288	65309509	-1	LTBP2	None
11	LTBP3	ENSG00000168056	ENST00000301873	protein_coding	KNOWN	CCDS44647	6716	3912	1303	65306289	65325699	-1	LTBP2	None
11	LTBP3	ENSG00000168056	ENST00000530785	protein_coding	PUTATIVE	None	6716	921	306	65306290	65312175	-1	LTBP2	None
11	LTBP3	ENSG00000168056	ENST00000529189	protein_coding	PUTATIVE	None	6716	780	259	65306290	65314230	-1	LTBP2	None
11	LTBP3	ENSG00000168056	ENST00000532932	protein_coding	PUTATIVE	None	6716	2202	733	65306290	65316390	-1	LTBP2	None
11	LTBP3	ENSG00000168056	ENST00000528516	nonsense_mediated_decay	KNOWN	None	6716	351	116	65306462	65325509	-1	LTBP2	None
11	LTBP3	ENSG00000168056	ENST00000526927	protein_coding	NOVEL	None	6716	2722	906	65306523	65325236	-1	LTBP2	None
11	LTBP3	ENSG00000168056	ENST00000532661	protein_coding	PUTATIVE	None	6716	665	220	65306666	65308154	-1	LTBP2	None
11	LTBP3	ENSG00000168056	ENST00000529371	protein_coding	PUTATIVE	None	6716	371	122	65306807	65307923	-1	LTBP2	None
11	LTBP3	ENSG00000168056	ENST00000530866	protein_coding	PUTATIVE	None	6716	3410	1135	65306882	65326401	-1	LTBP2	None
11	LTBP3	ENSG00000168056	ENST00000526124	retained_intron	KNOWN	None	6716	None	None	65308268	65309091	-1	LTBP2	None
11	LTBP3	ENSG00000168056	ENST00000530990	retained_intron	KNOWN	None	6716	None	None	65308466	65309302	-1	LTBP2	None
11	LTBP3	ENSG00000168056	ENST00000525443	retained_intron	KNOWN	None	6716	None	None	65309878	65313241	-1	LTBP2	None
11	LTBP3	ENSG00000168056	ENST00000527339	protein_coding	PUTATIVE	None	6716	423	140	65313667	65315036	-1	LTBP2	None
11	LTBP3	ENSG00000168056	ENST00000528966	retained_intron	KNOWN	None	6716	None	None	65315441	65319250	-1	LTBP2	None
11	LTBP3	ENSG00000168056	ENST00000529764	retained_intron	KNOWN	None	6716	None	None	65315490	65319347	-1	LTBP2	None
11	LTBP3	ENSG00000168056	ENST00000527792	retained_intron	KNOWN	None	6716	None	None	65318983	65320448	-1	LTBP2	None
11	LTBP3	ENSG00000168056	ENST00000526825	nonsense_mediated_decay	KNOWN	None	6716	208	68	65319443	65325236	-1	LTBP2	None
11	LTBP3	ENSG00000168056	ENST00000530426	protein_coding	PUTATIVE	None	6716	431	142	65319583	65321198	-1	LTBP2	None
11	LTBP3	ENSG00000168056	ENST00000524798	retained_intron	KNOWN	None	6716	None	None	65319595	65321611	-1	LTBP2	None
11	LTBP3	ENSG00000168056	ENST00000536982	protein_coding	KNOWN	None	6716	2649	882	65306523	65325236	-1	LTBP2	None
12	None	ENSG00000256152	ENST00000537827	lincRNA	KNOWN	None	None	None	None	123349882	123351568	1	None	None
6	MIR133B	ENSG00000199080	ENST00000362210	miRNA	KNOWN	None	31759	None	None	52013721	52013839	1	MIRN133B	hsa-mir-133b
3	ZIC4	ENSG00000174963	ENST00000383075	protein_coding	KNOWN	CCDS43160	20393	1005	334	147103833	147124647	-1	None	None
3	ZIC4	ENSG00000174963	ENST00000472749	processed_transcript	KNOWN	None	20393	None	None	147103835	147110178	-1	None	None
3	ZIC4	ENSG00000174963	ENST00000494569	retained_intron	KNOWN	None	20393	None	None	147105333	147110720	-1	None	None
3	ZIC4	ENSG00000174963	ENST00000493664	retained_intron	KNOWN	None	20393	None	None	147105333	147114973	-1	None	None
3	ZIC4	ENSG00000174963	ENST00000484399	protein_coding	KNOWN	CCDS43160	20393	1005	334	147106213	147122071	-1	None	None
3	ZIC4	ENSG00000174963	ENST00000473123	protein_coding	KNOWN	CCDS43160	20393	1005	334	147106333	147123307	-1	None	None
3	ZIC4	ENSG00000174963	ENST00000463850	processed_transcript	PUTATIVE	None	20393	None	None	147106437	147110217	-1	None	None
3	ZIC4	ENSG00000174963	ENST00000480015	processed_transcript	PUTATIVE	None	20393	None	None	147106494	147107159	-1	None	None
3	ZIC4	ENSG00000174963	ENST00000464502	processed_transcript	PUTATIVE	None	20393	None	None	147106529	147111674	-1	None	None
3	ZIC4	ENSG00000174963	ENST00000491672	protein_coding	NOVEL	CCDS58857	20393	387	128	147106551	147124577	-1	None	None
3	ZIC4	ENSG00000174963	ENST00000475502	processed_transcript	PUTATIVE	None	20393	None	None	147106629	147110184	-1	None	None
3	ZIC4	ENSG00000174963	ENST00000462748	protein_coding	KNOWN	None	20393	688	228	147113639	147123920	-1	None	None
3	ZIC4	ENSG00000174963	ENST00000484586	protein_coding	KNOWN	None	20393	233	76	147114094	147121585	-1	None	None
3	ZIC4	ENSG00000174963	ENST00000463250	protein_coding	KNOWN	None	20393	205	67	147114122	147124319	-1	None	None
3	ZIC4	ENSG00000174963	ENST00000464144	processed_transcript	PUTATIVE	None	20393	None	None	147123239	147124596	-1	None	None
3	ZIC4	ENSG00000174963	ENST00000425731	protein_coding	KNOWN	CCDS54653	20393	1119	372	147103835	147123307	-1	None	None
3	ZIC4	ENSG00000174963	ENST00000525172	protein_coding	KNOWN	CCDS54652	20393	1155	384	147103835	147122071	-1	None	None
X	GAGE12H	ENSG00000224902	ENST00000381722	protein_coding	KNOWN	CCDS43948	31908	354	117	49344586	49351904	1	None	OTTHUMG00000024149
19	TSEN34	ENSG00000170892	ENST00000455798	protein_coding	KNOWN	None	15506	727	241	54693789	54696206	1	LENG5	SEN34, SEN34L
19	TSEN34	ENSG00000170892	ENST00000456872	protein_coding	PUTATIVE	None	15506	754	250	54694119	54696224	1	LENG5	SEN34, SEN34L
19	TSEN34	ENSG00000170892	ENST00000302937	protein_coding	KNOWN	CCDS42609	15506	933	310	54694119	54697521	1	LENG5	SEN34, SEN34L
19	TSEN34	ENSG00000170892	ENST00000496583	retained_intron	KNOWN	None	15506	None	None	54694194	54697521	1	LENG5	SEN34, SEN34L
19	TSEN34	ENSG00000170892	ENST00000396383	protein_coding	KNOWN	CCDS42609	15506	933	310	54694582	54697521	1	LENG5	SEN34, SEN34L
19	TSEN34	ENSG00000170892	ENST00000396388	protein_coding	KNOWN	CCDS42609	15506	933	310	54695104	54697521	1	LENG5	SEN34, SEN34L
19	TSEN34	ENSG00000170892	ENST00000429671	protein_coding	KNOWN	None	15506	939	312	54694138	54697585	1	LENG5	SEN34, SEN34L
19	VN2R19P	ENSG00000235974	ENST00000442399	unitary_pseudogene	KNOWN	None	33225	None	None	58523957	58537294	-1	None	None
6	SLC25A20P1	ENSG00000218363	ENST00000408043	processed_pseudogene	KNOWN	None	1422	None	None	52111258	52112160	1	CACTP, SLC25A20P	None
12	None	ENSG00000256028	ENST00000540866	retained_intron	KNOWN	None	None	None	None	123459867	123467454	1	None	None
14	RPL15P2	ENSG00000240914	ENST00000490252	processed_pseudogene	KNOWN	None	19803	None	None	95267186	95267800	-1	None	None
19	ZNF490	ENSG00000188033	ENST00000311437	protein_coding	KNOWN	CCDS12272	23705	1590	529	12688775	12721617	-1	None	KIAA1198
19	ZNF490	ENSG00000188033	ENST00000414906	nonsense_mediated_decay	KNOWN	None	23705	183	60	12692121	12721617	-1	None	KIAA1198
19	ZNF490	ENSG00000188033	ENST00000440366	protein_coding	PUTATIVE	None	23705	393	130	12692337	12708125	-1	None	KIAA1198
19	ZNF490	ENSG00000188033	ENST00000465656	processed_transcript	KNOWN	None	23705	None	None	12694299	12750912	-1	None	KIAA1198
19	LETM1P2	ENSG00000268660	ENST00000597330	processed_pseudogene	KNOWN	None	33985	None	None	58555960	58558137	1	None	None
22	SCARF2	ENSG00000244486	ENST00000405555	protein_coding	KNOWN	CCDS46666	19869	2598	865	20778874	20792112	-1	None	SREC-II, SREC2, HUMZD58C02
22	SCARF2	ENSG00000244486	ENST00000266214	protein_coding	NOVEL	CCDS13779	19869	2613	870	20779105	20792146	-1	None	SREC-II, SREC2, HUMZD58C02
22	SCARF2	ENSG00000244486	ENST00000494535	retained_intron	KNOWN	None	19869	None	None	20780374	20784213	-1	None	SREC-II, SREC2, HUMZD58C02
15	MIR3118-6	ENSG00000265793	ENST00000582779	miRNA	KNOWN	None	38210	None	None	22049274	22049348	1	None	hsa-mir-3118-6
15	MIR3118-4	ENSG00000265793	ENST00000582779	miRNA	KNOWN	None	38287	None	None	22049274	22049348	1	None	hsa-mir-3118-4
Y	TSPY1	ENSG00000258992	ENST00000451548	protein_coding	KNOWN	CCDS48205	12381	927	308	9304564	9307357	1	TSPY	CT78
Y	TSPY1	ENSG00000258992	ENST00000423647	protein_coding	KNOWN	None	12381	945	314	9236076	9307357	1	TSPY	CT78
19	PVRL2	ENSG00000130202	ENST00000252485	protein_coding	KNOWN	CCDS12645	9707	1440	479	45349432	45382198	1	HVEB	PVRR2, PRR2, CD112
19	PVRL2	ENSG00000130202	ENST00000252483	protein_coding	KNOWN	CCDS42576	9707	1617	538	45349783	45392485	1	HVEB	PVRR2, PRR2, CD112
19	PVRL2	ENSG00000130202	ENST00000591581	protein_coding	NOVEL	None	9707	632	209	45375110	45382195	1	HVEB	PVRR2, PRR2, CD112
19	PVRL2	ENSG00000130202	ENST00000587386	retained_intron	KNOWN	None	9707	None	None	45377199	45377946	1	HVEB	PVRR2, PRR2, CD112
19	PVRL2	ENSG00000130202	ENST00000585601	protein_coding	PUTATIVE	None	9707	171	56	45377636	45382195	1	HVEB	PVRR2, PRR2, CD112
19	PVRL2	ENSG00000130202	ENST00000592018	protein_coding	PUTATIVE	None	9707	163	53	45385595	45392151	1	HVEB	PVRR2, PRR2, CD112
20	CHRNA4	ENSG00000101204	ENST00000370263	protein_coding	KNOWN	CCDS13517	1958	1884	627	61975420	61992739	-1	EBN, EBN1	BFNC
20	CHRNA4	ENSG00000101204	ENST00000463705	processed_transcript	KNOWN	None	1958	None	None	61975421	62009345	-1	EBN, EBN1	BFNC
20	CHRNA4	ENSG00000101204	ENST00000498043	nonsense_mediated_decay	KNOWN	None	1958	413	136	61977946	61991051	-1	EBN, EBN1	BFNC
20	CHRNA4	ENSG00000101204	ENST00000467563	processed_transcript	KNOWN	None	1958	None	None	61977946	61992656	-1	EBN, EBN1	BFNC
20	CHRNA4	ENSG00000101204	ENST00000475033	processed_transcript	KNOWN	None	1958	None	None	62002105	62009489	-1	EBN, EBN1	BFNC
20	CHRNA4	ENSG00000101204	ENST00000480012	processed_transcript	KNOWN	None	1958	None	None	62005773	62009753	-1	EBN, EBN1	BFNC
X	None	ENSG00000204272	ENST00000374922	antisense	KNOWN	None	None	None	None	56755692	56844813	1	None	None
X	None	ENSG00000204272	ENST00000423617	lincRNA	KNOWN	None	None	None	None	56755789	56844059	1	None	None
X	None	ENSG00000204272	ENST00000451583	lincRNA	KNOWN	None	None	None	None	56755806	56843809	1	None	None
X	GAGE2A	ENSG00000189064	ENST00000362097	protein_coding	KNOWN	CCDS48114	4099	351	116	49354132	49361430	1	GAGE2	CT4.2
12	MIR4304	ENSG00000265526	ENST00000580964	miRNA	KNOWN	None	38276	None	None	123495214	123495275	-1	None	hsa-mir-4304
14	None	ENSG00000265199	ENST00000580563	miRNA	NOVEL	None	None	None	None	20501820	20501923	1	None	None
6	TRAM2-AS1	ENSG00000225791	ENST00000606714	lincRNA	KNOWN	None	48663	None	None	52442105	52448783	1	None	None
6	TRAM2-AS1	ENSG00000225791	ENST00000453216	lincRNA	KNOWN	None	48663	None	None	52442283	52444325	1	None	None
6	TRAM2-AS1	ENSG00000225791	ENST00000606558	lincRNA	KNOWN	None	48663	None	None	52442944	52447730	1	None	None
6	TRAM2-AS1	ENSG00000225791	ENST00000605910	lincRNA	KNOWN	None	48663	None	None	52443164	52448357	1	None	None
12	ZC3H10	ENSG00000135482	ENST00000257940	protein_coding	KNOWN	CCDS8903	25893	1305	434	56511943	56516278	1	ZC3HDC10	FLJ14451
12	ZC3H10	ENSG00000135482	ENST00000552345	protein_coding	KNOWN	None	25893	237	78	56512044	56514583	1	ZC3HDC10	FLJ14451
12	ZC3H10	ENSG00000135482	ENST00000549973	processed_transcript	KNOWN	None	25893	None	None	56512046	56513404	1	ZC3HDC10	FLJ14451
12	ZC3H10	ENSG00000135482	ENST00000551880	protein_coding	KNOWN	None	25893	136	44	56512105	56514482	1	ZC3HDC10	FLJ14451
12	ZC3H10	ENSG00000135482	ENST00000546903	protein_coding	KNOWN	None	25893	266	87	56512191	56514612	1	ZC3HDC10	FLJ14451
18	SS18L2P2	ENSG00000266201	ENST00000583960	processed_pseudogene	KNOWN	None	44966	None	None	48947433	48948044	-1	None	None
12	RN7SL133P	ENSG00000265603	ENST00000585256	misc_RNA	KNOWN	None	46149	None	None	123500727	123500976	1	None	None
17	HNRNPA1P19	ENSG00000218454	ENST00000405292	processed_pseudogene	KNOWN	None	39537	None	None	20674371	20674740	-1	None	None
14	OR4U1P	ENSG00000258899	ENST00000554958	unprocessed_pseudogene	KNOWN	None	15361	None	None	20512075	20512986	1	None	None
14	None	ENSG00000258933	ENST00000553435	lincRNA	KNOWN	None	None	None	None	95426614	95429313	-1	None	None
12	None	ENSG00000251497	ENST00000506255	lincRNA	KNOWN	None	None	None	None	123565931	123569291	1	None	None
12	None	ENSG00000251497	ENST00000537292	lincRNA	KNOWN	None	None	None	None	123567337	123568676	1	None	None
18	None	ENSG00000266003	ENST00000584143	processed_pseudogene	KNOWN	None	None	None	None	48959807	48961153	1	None	None
7	None	ENSG00000261570	ENST00000567503	antisense	KNOWN	None	None	None	None	141229003	141251104	-1	None	None
7	None	ENSG00000261570	ENST00000566357	antisense	KNOWN	None	None	None	None	141230716	141250993	-1	None	None
8	None	ENSG00000254265	ENST00000517626	processed_pseudogene	KNOWN	None	None	None	None	1678372	1679618	1	None	None
15	None	ENSG00000260337	ENST00000568297	lincRNA	KNOWN	None	None	None	None	93138790	93139692	-1	None	None
5	SPATA9	ENSG00000145757	ENST00000477715	nonsense_mediated_decay	KNOWN	None	22988	537	178	94987885	95018714	-1	None	NYD-SP16, FLJ35906
5	SPATA9	ENSG00000145757	ENST00000477047	processed_transcript	KNOWN	None	22988	None	None	94988344	95018695	-1	None	NYD-SP16, FLJ35906
5	SPATA9	ENSG00000145757	ENST00000316087	nonsense_mediated_decay	KNOWN	CCDS4076	22988	765	254	94988685	95018700	-1	None	NYD-SP16, FLJ35906
5	SPATA9	ENSG00000145757	ENST00000274432	protein_coding	KNOWN	CCDS4076	22988	765	254	94994134	95018700	-1	None	NYD-SP16, FLJ35906
5	SPATA9	ENSG00000145757	ENST00000379990	processed_transcript	KNOWN	None	22988	None	None	94994136	95034415	-1	None	NYD-SP16, FLJ35906
5	SPATA9	ENSG00000145757	ENST00000489917	nonsense_mediated_decay	KNOWN	None	22988	408	135	94994305	95018714	-1	None	NYD-SP16, FLJ35906
5	SPATA9	ENSG00000145757	ENST00000395899	protein_coding	KNOWN	None	22988	408	135	95010463	95018660	-1	None	NYD-SP16, FLJ35906
17	SPAG5	ENSG00000076382	ENST00000321765	protein_coding	KNOWN	CCDS32594	13452	3582	1193	26904592	26926297	-1	None	DEEPEST, MAP126, hMAP126
17	SPAG5	ENSG00000076382	ENST00000378976	nonsense_mediated_decay	KNOWN	None	13452	559	185	26906772	26911680	-1	None	DEEPEST, MAP126, hMAP126
17	SPAG5	ENSG00000076382	ENST00000580567	nonsense_mediated_decay	KNOWN	None	13452	222	73	26918716	26926015	-1	None	DEEPEST, MAP126, hMAP126
17	SPAG5	ENSG00000076382	ENST00000578479	nonsense_mediated_decay	KNOWN	None	13452	219	72	26918716	26926023	-1	None	DEEPEST, MAP126, hMAP126
17	SPAG5	ENSG00000076382	ENST00000536674	protein_coding	NOVEL	None	13452	817	271	26919490	26926017	-1	None	DEEPEST, MAP126, hMAP126
18	None	ENSG00000238885	ENST00000458996	snoRNA	NOVEL	None	None	None	None	49072717	49072818	1	None	None
15	RNU6-631P	ENSG00000200790	ENST00000363920	snRNA	KNOWN	None	47594	None	None	22071734	22071840	-1	None	None
19	None	ENSG00000270317	ENST00000603784	processed_pseudogene	KNOWN	None	None	None	None	22684501	22684750	-1	None	None
3	ACTG1P12	ENSG00000226642	ENST00000423183	processed_pseudogene	KNOWN	None	44496	None	None	12111695	12112860	1	None	None
18	RSL24D1P9	ENSG00000265402	ENST00000578420	processed_pseudogene	KNOWN	None	37880	None	None	49139009	49139480	-1	None	None
15	None	ENSG00000271763	ENST00000607766	antisense	KNOWN	None	None	None	None	93146140	93163245	1	None	None
15	None	ENSG00000258585	ENST00000557158	processed_pseudogene	KNOWN	None	None	None	None	22117083	22118114	-1	None	None
12	VSIG10	ENSG00000176834	ENST00000359236	protein_coding	KNOWN	CCDS44992	26078	1623	540	118501398	118541753	-1	None	None
12	VSIG10	ENSG00000176834	ENST00000545259	retained_intron	KNOWN	None	26078	None	None	118508758	118511546	-1	None	None
12	VSIG10	ENSG00000176834	ENST00000538357	protein_coding	NOVEL	None	26078	569	188	118517204	118541709	-1	None	None
12	VSIG10	ENSG00000176834	ENST00000545722	processed_transcript	PUTATIVE	None	26078	None	None	118517259	118520083	-1	None	None
12	VSIG10	ENSG00000176834	ENST00000536905	processed_transcript	KNOWN	None	26078	None	None	118520083	118541805	-1	None	None
12	VSIG10	ENSG00000176834	ENST00000541855	processed_transcript	PUTATIVE	None	26078	None	None	118533351	118541667	-1	None	None
12	VSIG10	ENSG00000176834	ENST00000542011	processed_transcript	KNOWN	None	26078	None	None	118533427	118573753	-1	None	None
12	VSIG10	ENSG00000176834	ENST00000540117	retained_intron	KNOWN	None	26078	None	None	118539705	118540861	-1	None	None
12	VSIG10	ENSG00000176834	ENST00000542195	retained_intron	KNOWN	None	26078	None	None	118540644	118541795	-1	None	None
12	VSIG10	ENSG00000176834	ENST00000321694	processed_transcript	KNOWN	None	26078	None	None	118552155	118558922	-1	None	None
12	VSIG10	ENSG00000176834	ENST00000539956	processed_transcript	KNOWN	None	26078	None	None	118555472	118573831	-1	None	None
12	None	ENSG00000235423	ENST00000543217	3prime_overlapping_ncrna	KNOWN	None	None	None	None	123736577	123744994	-1	None	None
12	None	ENSG00000235423	ENST00000541002	3prime_overlapping_ncrna	KNOWN	None	None	None	None	123736789	123746030	-1	None	None
12	None	ENSG00000235423	ENST00000542427	3prime_overlapping_ncrna	KNOWN	None	None	None	None	123743295	123745050	-1	None	None
12	None	ENSG00000235423	ENST00000544890	3prime_overlapping_ncrna	KNOWN	None	None	None	None	123743524	123745766	-1	None	None
19	None	ENSG00000260599	ENST00000562262	sense_intronic	KNOWN	None	None	None	None	22703797	22710751	-1	None	None
17	CD300LF	ENSG00000186074	ENST00000326165	protein_coding	KNOWN	CCDS11704	29883	873	290	72690456	72709117	-1	None	IREM1, NKIR, IGSF13, CD300f, CLM1
17	CD300LF	ENSG00000186074	ENST00000469092	protein_coding	PUTATIVE	None	29883	585	194	72690456	72709117	-1	None	IREM1, NKIR, IGSF13, CD300f, CLM1
17	CD300LF	ENSG00000186074	ENST00000301573	protein_coding	PUTATIVE	None	29883	735	244	72690457	72709093	-1	None	IREM1, NKIR, IGSF13, CD300f, CLM1
17	CD300LF	ENSG00000186074	ENST00000583937	protein_coding	NOVEL	None	29883	918	305	72690953	72709080	-1	None	IREM1, NKIR, IGSF13, CD300f, CLM1
17	CD300LF	ENSG00000186074	ENST00000464910	protein_coding	PUTATIVE	None	29883	882	293	72691176	72701449	-1	None	IREM1, NKIR, IGSF13, CD300f, CLM1
17	CD300LF	ENSG00000186074	ENST00000462044	nonsense_mediated_decay	KNOWN	None	29883	498	165	72691176	72701449	-1	None	IREM1, NKIR, IGSF13, CD300f, CLM1
17	CD300LF	ENSG00000186074	ENST00000581500	protein_coding	PUTATIVE	None	29883	720	239	72691892	72701394	-1	None	IREM1, NKIR, IGSF13, CD300f, CLM1
17	CD300LF	ENSG00000186074	ENST00000583544	retained_intron	KNOWN	None	29883	None	None	72700491	72709064	-1	None	IREM1, NKIR, IGSF13, CD300f, CLM1
17	CD300LF	ENSG00000186074	ENST00000361254	protein_coding	KNOWN	None	29883	720	239	72690452	72701394	-1	None	IREM1, NKIR, IGSF13, CD300f, CLM1
17	CD300LF	ENSG00000186074	ENST00000343125	protein_coding	KNOWN	None	29883	585	194	72690452	72701394	-1	None	IREM1, NKIR, IGSF13, CD300f, CLM1
18	None	ENSG00000265712	ENST00000577726	processed_pseudogene	KNOWN	None	None	None	None	49213895	49214579	-1	None	None
15	None	ENSG00000259064	ENST00000555268	processed_pseudogene	KNOWN	None	None	None	None	93170303	93170644	1	None	None
19	CHMP2A	ENSG00000130724	ENST00000600006	protein_coding	PUTATIVE	None	30216	683	226	59062933	59065464	-1	None	BC-2, CHMP2, VPS2, VPS2A
19	CHMP2A	ENSG00000130724	ENST00000600118	protein_coding	KNOWN	CCDS12986	30216	669	222	59062933	59066005	-1	None	BC-2, CHMP2, VPS2, VPS2A
19	CHMP2A	ENSG00000130724	ENST00000601220	protein_coding	KNOWN	CCDS12986	30216	669	222	59062933	59066340	-1	None	BC-2, CHMP2, VPS2, VPS2A
19	CHMP2A	ENSG00000130724	ENST00000312547	protein_coding	KNOWN	CCDS12986	30216	669	222	59062933	59066491	-1	None	BC-2, CHMP2, VPS2, VPS2A
19	CHMP2A	ENSG00000130724	ENST00000596708	protein_coding	KNOWN	None	30216	479	158	59063422	59066327	-1	None	BC-2, CHMP2, VPS2, VPS2A
19	CHMP2A	ENSG00000130724	ENST00000597209	retained_intron	KNOWN	None	30216	None	None	59063465	59066360	-1	None	BC-2, CHMP2, VPS2, VPS2A
19	CHMP2A	ENSG00000130724	ENST00000600804	retained_intron	KNOWN	None	30216	None	None	59065115	59066457	-1	None	BC-2, CHMP2, VPS2, VPS2A
19	CHMP2A	ENSG00000130724	ENST00000597848	protein_coding	KNOWN	None	30216	167	54	59065413	59066357	-1	None	BC-2, CHMP2, VPS2, VPS2A
18	RPS8P3	ENSG00000215457	ENST00000462935	processed_pseudogene	KNOWN	None	31000	None	None	49371377	49371998	-1	None	HsT2707
X	UQCRBP1	ENSG00000237748	ENST00000421129	processed_pseudogene	KNOWN	None	12583	None	None	56763675	56764010	-1	None	None
14	RNA5SP380	ENSG00000252999	ENST00000517190	rRNA	KNOWN	None	43280	None	None	20558289	20558386	1	RN5S380	None
13	None	ENSG00000228573	ENST00000417987	lincRNA	KNOWN	None	None	None	None	48399465	48410091	-1	None	None
11	PHF21A	ENSG00000135365	ENST00000527401	retained_intron	KNOWN	None	24156	None	None	45950874	45992920	-1	None	BHC80, KIAA1696, BM-006
11	PHF21A	ENSG00000135365	ENST00000323180	protein_coding	KNOWN	CCDS31474	24156	1905	634	45954117	46142729	-1	None	BHC80, KIAA1696, BM-006
11	PHF21A	ENSG00000135365	ENST00000530587	nonsense_mediated_decay	KNOWN	None	24156	351	116	45954898	45959815	-1	None	BHC80, KIAA1696, BM-006
11	PHF21A	ENSG00000135365	ENST00000418153	protein_coding	KNOWN	CCDS44578	24156	2043	680	45955032	46142561	-1	None	BHC80, KIAA1696, BM-006
11	PHF21A	ENSG00000135365	ENST00000525676	protein_coding	PUTATIVE	None	24156	280	92	45955382	45958058	-1	None	BHC80, KIAA1696, BM-006
11	PHF21A	ENSG00000135365	ENST00000532028	protein_coding	NOVEL	None	24156	451	149	45955536	45967420	-1	None	BHC80, KIAA1696, BM-006
11	PHF21A	ENSG00000135365	ENST00000534724	retained_intron	KNOWN	None	24156	None	None	45957245	45958388	-1	None	BHC80, KIAA1696, BM-006
11	PHF21A	ENSG00000135365	ENST00000527753	processed_transcript	KNOWN	None	24156	None	None	45959708	45987009	-1	None	BHC80, KIAA1696, BM-006
11	PHF21A	ENSG00000135365	ENST00000534766	retained_intron	KNOWN	None	24156	None	None	45959770	45975166	-1	None	BHC80, KIAA1696, BM-006
11	PHF21A	ENSG00000135365	ENST00000532883	nonsense_mediated_decay	KNOWN	None	24156	249	82	45992690	46142598	-1	None	BHC80, KIAA1696, BM-006
11	PHF21A	ENSG00000135365	ENST00000525679	processed_transcript	KNOWN	None	24156	None	None	45992829	46048629	-1	None	BHC80, KIAA1696, BM-006
11	PHF21A	ENSG00000135365	ENST00000524497	protein_coding	NOVEL	None	24156	402	133	45992898	46142514	-1	None	BHC80, KIAA1696, BM-006
11	PHF21A	ENSG00000135365	ENST00000531959	protein_coding	NOVEL	None	24156	401	132	45992899	46113756	-1	None	BHC80, KIAA1696, BM-006
11	PHF21A	ENSG00000135365	ENST00000529734	protein_coding	KNOWN	None	24156	304	100	46001367	46142655	-1	None	BHC80, KIAA1696, BM-006
11	PHF21A	ENSG00000135365	ENST00000529782	protein_coding	PUTATIVE	None	24156	188	61	46001414	46141338	-1	None	BHC80, KIAA1696, BM-006
11	PHF21A	ENSG00000135365	ENST00000533757	protein_coding	KNOWN	None	24156	153	50	46098305	46141404	-1	None	BHC80, KIAA1696, BM-006
11	PHF21A	ENSG00000135365	ENST00000525438	protein_coding	KNOWN	None	24156	80	25	46100692	46141395	-1	None	BHC80, KIAA1696, BM-006
11	PHF21A	ENSG00000135365	ENST00000527782	protein_coding	KNOWN	None	24156	34	10	46105737	46141413	-1	None	BHC80, KIAA1696, BM-006
11	PHF21A	ENSG00000135365	ENST00000532010	protein_coding	KNOWN	None	24156	27	8	46105744	46141386	-1	None	BHC80, KIAA1696, BM-006
11	PHF21A	ENSG00000135365	ENST00000528893	processed_transcript	KNOWN	None	24156	None	None	46112058	46141378	-1	None	BHC80, KIAA1696, BM-006
11	PHF21A	ENSG00000135365	ENST00000530312	processed_transcript	PUTATIVE	None	24156	None	None	46141940	46142609	-1	None	BHC80, KIAA1696, BM-006
11	PHF21A	ENSG00000135365	ENST00000257821	protein_coding	KNOWN	None	24156	2046	681	45950871	46142985	-1	None	BHC80, KIAA1696, BM-006
19	None	ENSG00000269364	ENST00000598832	lincRNA	KNOWN	None	None	None	None	22715428	22716296	1	None	None
19	None	ENSG00000269364	ENST00000601708	lincRNA	KNOWN	None	None	None	None	22715473	22716214	1	None	None
19	None	ENSG00000269364	ENST00000594200	processed_transcript	PUTATIVE	None	None	None	None	22715579	22716293	1	None	None
15	None	ENSG00000272298	ENST00000554000	processed_transcript	KNOWN	None	None	None	None	93242270	93267507	-1	None	None
14	NEDD8	ENSG00000129559	ENST00000250495	protein_coding	KNOWN	CCDS9621	7732	246	81	24686058	24701660	-1	None	Nedd-8
14	NEDD8	ENSG00000129559	ENST00000396828	nonsense_mediated_decay	KNOWN	None	7732	153	50	24686063	24701509	-1	None	Nedd-8
14	NEDD8	ENSG00000129559	ENST00000527046	processed_transcript	KNOWN	None	7732	None	None	24686065	24701208	-1	None	Nedd-8
14	NEDD8	ENSG00000129559	ENST00000531430	processed_transcript	KNOWN	None	7732	None	None	24686072	24701531	-1	None	Nedd-8
14	NEDD8	ENSG00000129559	ENST00000560427	retained_intron	KNOWN	None	7732	None	None	24686202	24687932	-1	None	Nedd-8
14	NEDD8	ENSG00000129559	ENST00000526430	processed_transcript	KNOWN	None	7732	None	None	24686226	24701537	-1	None	Nedd-8
14	NEDD8	ENSG00000129559	ENST00000524927	protein_coding	PUTATIVE	None	7732	153	50	24686922	24701560	-1	None	Nedd-8
14	NEDD8	ENSG00000129559	ENST00000533242	processed_transcript	KNOWN	None	7732	None	None	24695811	24701561	-1	None	Nedd-8
18	None	ENSG00000266335	ENST00000582700	lincRNA	KNOWN	None	None	None	None	49862731	49865395	-1	None	None
X	None	ENSG00000224799	ENST00000430456	antisense	KNOWN	None	None	None	None	56999943	57001229	1	None	None
8	None	ENSG00000253982	ENST00000518822	antisense	KNOWN	None	None	None	None	1710156	1712505	-1	None	None
8	None	ENSG00000253982	ENST00000517959	antisense	KNOWN	None	None	None	None	1710247	1712668	-1	None	None
8	None	ENSG00000253982	ENST00000518481	antisense	KNOWN	None	None	None	None	1710791	1711463	-1	None	None
13	LINC00444	ENSG00000234689	ENST00000435617	lincRNA	KNOWN	None	42781	None	None	48479464	48481492	-1	None	None
15	HMGN1P38	ENSG00000253954	ENST00000431116	processed_pseudogene	KNOWN	None	39422	None	None	93255038	93255340	1	None	None
15	HMGN1P38	ENSG00000253954	ENST00000522935	processed_pseudogene	KNOWN	None	39422	None	None	93254977	93256105	1	None	None
12	ST8SIA1	ENSG00000111728	ENST00000536535	processed_transcript	KNOWN	None	10869	None	None	22216707	22223547	-1	SIAT8, SIAT8A	None
12	ST8SIA1	ENSG00000111728	ENST00000544732	processed_transcript	KNOWN	None	10869	None	None	22219353	22403721	-1	SIAT8, SIAT8A	None
12	ST8SIA1	ENSG00000111728	ENST00000537795	processed_transcript	KNOWN	None	10869	None	None	22260093	22271423	-1	SIAT8, SIAT8A	None
12	ST8SIA1	ENSG00000111728	ENST00000545524	processed_transcript	KNOWN	None	10869	None	None	22260209	22440128	-1	SIAT8, SIAT8A	None
12	ST8SIA1	ENSG00000111728	ENST00000396037	protein_coding	KNOWN	CCDS8697	10869	1071	356	22346325	22487648	-1	SIAT8, SIAT8A	None
12	ST8SIA1	ENSG00000111728	ENST00000261197	nonsense_mediated_decay	KNOWN	None	10869	408	135	22353933	22487648	-1	SIAT8, SIAT8A	None
12	ST8SIA1	ENSG00000111728	ENST00000545494	processed_transcript	KNOWN	None	10869	None	None	22354402	22421547	-1	SIAT8, SIAT8A	None
12	ST8SIA1	ENSG00000111728	ENST00000508924	processed_transcript	KNOWN	None	10869	None	None	22354595	22421539	-1	SIAT8, SIAT8A	None
12	ST8SIA1	ENSG00000111728	ENST00000540824	protein_coding	PUTATIVE	None	10869	572	189	22354838	22489134	-1	SIAT8, SIAT8A	None
12	ST8SIA1	ENSG00000111728	ENST00000538256	protein_coding	PUTATIVE	None	10869	75	24	22376206	22401980	-1	SIAT8, SIAT8A	None
12	ST8SIA1	ENSG00000111728	ENST00000541868	protein_coding	PUTATIVE	None	10869	519	172	22401760	22487097	-1	SIAT8, SIAT8A	None
12	ST8SIA1	ENSG00000111728	ENST00000404299	protein_coding	PUTATIVE	None	10869	363	120	22477313	22487634	-1	SIAT8, SIAT8A	None
12	ST8SIA1	ENSG00000111728	ENST00000536558	processed_transcript	KNOWN	None	10869	None	None	22477346	22589975	-1	SIAT8, SIAT8A	None
12	ST8SIA1	ENSG00000111728	ENST00000381424	protein_coding	PUTATIVE	None	10869	252	83	22478033	22487605	-1	SIAT8, SIAT8A	None
12	ST8SIA1	ENSG00000111728	ENST00000545185	processed_transcript	KNOWN	None	10869	None	None	22507137	22529877	-1	SIAT8, SIAT8A	None
12	ST8SIA1	ENSG00000111728	ENST00000539510	protein_coding	KNOWN	None	10869	642	213	22354076	22487131	-1	SIAT8, SIAT8A	None
18	None	ENSG00000221291	ENST00000408364	miRNA	NOVEL	None	None	None	None	50463664	50463773	1	None	None
6	ZC3H12D	ENSG00000178199	ENST00000498662	processed_transcript	KNOWN	None	21175	None	None	149768794	149770516	-1	C6orf95	dJ281H8.1, MCPIP4
6	ZC3H12D	ENSG00000178199	ENST00000409806	protein_coding	KNOWN	None	21175	1584	527	149771792	149806197	-1	C6orf95	dJ281H8.1, MCPIP4
6	ZC3H12D	ENSG00000178199	ENST00000458251	protein_coding	PUTATIVE	None	21175	319	105	149773253	149778005	-1	C6orf95	dJ281H8.1, MCPIP4
6	ZC3H12D	ENSG00000178199	ENST00000409948	protein_coding	PUTATIVE	None	21175	504	167	149780660	149804269	-1	C6orf95	dJ281H8.1, MCPIP4
6	ZC3H12D	ENSG00000178199	ENST00000462655	processed_transcript	KNOWN	None	21175	None	None	149782804	149804311	-1	C6orf95	dJ281H8.1, MCPIP4
6	ZC3H12D	ENSG00000178199	ENST00000389942	protein_coding	KNOWN	None	21175	1584	527	149768951	149806126	-1	C6orf95	dJ281H8.1, MCPIP4
6	ZC3H12D	ENSG00000178199	ENST00000416573	protein_coding	KNOWN	None	21175	966	321	149768951	149806126	-1	C6orf95	dJ281H8.1, MCPIP4
6	ZC3H12D	ENSG00000178199	ENST00000542614	protein_coding	KNOWN	None	21175	966	321	149772144	149806148	-1	C6orf95	dJ281H8.1, MCPIP4
19	KIR3DL3	ENSG00000242019	ENST00000291860	protein_coding	KNOWN	CCDS12903	16312	1233	410	55235984	55248003	1	None	KIRC1, KIR3DL7, KIR44, CD158z
19	CEACAMP11	ENSG00000236123	ENST00000455211	unprocessed_pseudogene	KNOWN	None	1823	None	None	43783085	43788470	-1	CGM18	None
14	RN7SL747P	ENSG00000263880	ENST00000580764	misc_RNA	KNOWN	None	46763	None	None	76821072	76821352	-1	None	None
9	None	ENSG00000148123	ENST00000374874	protein_coding	KNOWN	CCDS6751	None	978	325	103790991	104087417	1	None	None
9	None	ENSG00000148123	ENST00000456287	protein_coding	KNOWN	None	None	309	102	103893804	104048442	1	None	None
9	None	ENSG00000148123	ENST00000494890	processed_transcript	KNOWN	None	None	None	None	103947317	103950308	1	None	None
9	None	ENSG00000148123	ENST00000395056	protein_coding	KNOWN	CCDS6751	None	978	325	103947317	104087413	1	None	None
9	None	ENSG00000148123	ENST00000463206	processed_transcript	KNOWN	None	None	None	None	104032084	104075176	1	None	None
18	None	ENSG00000263872	ENST00000577763	miRNA	KNOWN	None	None	None	None	50763471	50763560	1	None	None
X	None	ENSG00000237708	ENST00000404529	processed_pseudogene	KNOWN	None	None	None	None	57095347	57096118	-1	None	None
16	MMP15	ENSG00000102996	ENST00000219271	protein_coding	KNOWN	CCDS10792	7161	2010	669	58059470	58080805	1	None	MT2-MMP, MTMMP2, SMCP-2
16	MMP15	ENSG00000102996	ENST00000570065	protein_coding	PUTATIVE	None	7161	293	96	58074069	58074771	1	None	MT2-MMP, MTMMP2, SMCP-2
18	None	ENSG00000264263	ENST00000582064	antisense	KNOWN	None	None	None	None	51007205	51094653	-1	None	None
7	None	ENSG00000244701	ENST00000467537	processed_transcript	PUTATIVE	None	None	None	None	141352181	141356610	-1	None	None
15	BNC1	ENSG00000169594	ENST00000345382	protein_coding	KNOWN	CCDS10324	1081	2985	994	83924655	83953466	-1	BNC	HsT19447
15	BNC1	ENSG00000169594	ENST00000569704	protein_coding	PUTATIVE	None	1081	2964	987	83926096	83952071	-1	BNC	HsT19447
13	LINC00562	ENSG00000260388	ENST00000566385	lincRNA	KNOWN	None	43706	None	None	48504290	48506757	-1	None	None
14	OR4T1P	ENSG00000258641	ENST00000554933	unprocessed_pseudogene	KNOWN	None	15360	None	None	20561512	20562422	1	None	None
X	None	ENSG00000226310	ENST00000439622	antisense	KNOWN	None	None	None	None	57148095	57153676	1	None	None
15	None	ENSG00000258741	ENST00000556424	processed_transcript	KNOWN	None	None	None	None	93258989	93277328	-1	None	None
15	None	ENSG00000258741	ENST00000554246	transcribed_processed_pseudogene	KNOWN	None	None	None	None	93277053	93277425	-1	None	None
2	IL1F10	ENSG00000136697	ENST00000341010	protein_coding	KNOWN	CCDS2112	15552	459	152	113825547	113833420	1	None	FKSG75, IL-1HY2, IL-1F10, IL1-theta, MGC11983, MGC119832, MGC119833
2	IL1F10	ENSG00000136697	ENST00000393197	protein_coding	KNOWN	CCDS2112	15552	459	152	113829895	113833427	1	None	FKSG75, IL-1HY2, IL-1F10, IL1-theta, MGC11983, MGC119832, MGC119833
2	IL1F10	ENSG00000136697	ENST00000496265	retained_intron	KNOWN	None	15552	None	None	113832116	113833316	1	None	FKSG75, IL-1HY2, IL-1F10, IL1-theta, MGC11983, MGC119832, MGC119833
2	IL1F10	ENSG00000136697	ENST00000337569	protein_coding	KNOWN	None	15552	459	152	113825547	113833425	1	None	FKSG75, IL-1HY2, IL-1F10, IL1-theta, MGC11983, MGC119832, MGC119833
X	PPP1R11P2	ENSG00000231765	ENST00000423543	processed_pseudogene	KNOWN	None	16327	None	None	57255467	57255848	1	None	None
7	None	ENSG00000270157	ENST00000602609	sense_intronic	KNOWN	None	None	None	None	141362722	141363646	-1	None	None
11	SCN2B	ENSG00000149575	ENST00000278947	protein_coding	KNOWN	CCDS8390	10589	648	215	118032666	118047388	-1	None	None
5	None	ENSG00000206770	ENST00000384043	misc_RNA	NOVEL	None	None	None	None	72064529	72064638	1	None	None
HG1293_PATCH	IKBKE	ENSG00000263528	ENST00000605818	retained_intron	KNOWN	None	14552	None	None	206534037	206541858	1	None	IKKE, IKK-i, KIAA0151
HG1293_PATCH	IKBKE	ENSG00000263528	ENST00000578328	protein_coding	PUTATIVE	None	14552	1974	657	206534056	206559835	1	None	IKKE, IKK-i, KIAA0151
HG1293_PATCH	IKBKE	ENSG00000263528	ENST00000584998	protein_coding	KNOWN	None	14552	1896	631	206534056	206559835	1	None	IKKE, IKK-i, KIAA0151
HG1293_PATCH	IKBKE	ENSG00000263528	ENST00000581977	protein_coding	KNOWN	None	14552	2151	716	206534056	206560450	1	None	IKKE, IKK-i, KIAA0151
HG1293_PATCH	IKBKE	ENSG00000263528	ENST00000579827	protein_coding	PUTATIVE	None	14552	462	153	206534203	206538696	1	None	IKKE, IKK-i, KIAA0151
HG1293_PATCH	IKBKE	ENSG00000263528	ENST00000605726	protein_coding	KNOWN	None	14552	438	145	206536415	206539821	1	None	IKKE, IKK-i, KIAA0151
15	NF1P2	ENSG00000258997	ENST00000556855	unprocessed_pseudogene	KNOWN	None	38664	None	None	22133181	22152165	-1	None	None
5	None	ENSG00000249085	ENST00000507957	antisense	KNOWN	None	None	None	None	72090232	72112392	-1	None	None
5	MIR4804	ENSG00000263593	ENST00000581683	miRNA	KNOWN	None	41720	None	None	72174418	72174490	1	None	hsa-mir-4804
X	MTHFD1P1	ENSG00000231831	ENST00000413059	processed_pseudogene	KNOWN	None	7433	None	None	57419079	57421842	-1	MTHFDL1, MTHFDP1	None
7	None	ENSG00000235077	ENST00000376482	antisense	KNOWN	None	None	None	None	99728587	99738062	1	None	None
7	PEX1	ENSG00000127980	ENST00000438045	protein_coding	NOVEL	None	8850	2886	961	92116334	92157755	-1	ZWS1, ZWS	None
7	PEX1	ENSG00000127980	ENST00000248633	protein_coding	KNOWN	CCDS5627	8850	3852	1283	92116334	92157845	-1	ZWS1, ZWS	None
7	PEX1	ENSG00000127980	ENST00000496420	retained_intron	KNOWN	None	8850	None	None	92116340	92137137	-1	ZWS1, ZWS	None
7	PEX1	ENSG00000127980	ENST00000477342	retained_intron	KNOWN	None	8850	None	None	92116604	92119108	-1	ZWS1, ZWS	None
7	PEX1	ENSG00000127980	ENST00000484913	retained_intron	KNOWN	None	8850	None	None	92116611	92157753	-1	ZWS1, ZWS	None
7	PEX1	ENSG00000127980	ENST00000428214	protein_coding	NOVEL	None	8850	3681	1226	92116771	92157749	-1	ZWS1, ZWS	None
7	PEX1	ENSG00000127980	ENST00000469417	retained_intron	KNOWN	None	8850	None	None	92118686	92119560	-1	ZWS1, ZWS	None
7	PEX1	ENSG00000127980	ENST00000496092	retained_intron	KNOWN	None	8850	None	None	92131082	92132378	-1	ZWS1, ZWS	None
7	PEX1	ENSG00000127980	ENST00000422866	nonsense_mediated_decay	KNOWN	None	8850	590	195	92134201	92146729	-1	ZWS1, ZWS	None
7	PEX1	ENSG00000127980	ENST00000476923	retained_intron	KNOWN	None	8850	None	None	92140179	92143281	-1	ZWS1, ZWS	None
7	PEX1	ENSG00000127980	ENST00000541751	protein_coding	KNOWN	None	8850	483	160	92126027	92146729	-1	ZWS1, ZWS	None
17	None	ENSG00000236472	ENST00000451776	antisense	KNOWN	None	None	None	None	48212951	48223541	1	None	None
11	RNA5SP332	ENSG00000212365	ENST00000391063	rRNA	KNOWN	None	43232	None	None	14156532	14156646	1	RN5S332	None
5	None	ENSG00000242602	ENST00000497334	processed_pseudogene	KNOWN	None	None	None	None	72174695	72175012	-1	None	None
11	APOC3	ENSG00000110245	ENST00000433777	protein_coding	KNOWN	None	610	165	54	116700422	116701598	1	None	None
11	APOC3	ENSG00000110245	ENST00000227667	protein_coding	KNOWN	CCDS8377	610	300	99	116700608	116703788	1	None	None
11	APOC3	ENSG00000110245	ENST00000375345	protein_coding	PUTATIVE	None	610	354	117	116700631	116703788	1	None	None
11	APOC3	ENSG00000110245	ENST00000470144	processed_transcript	KNOWN	None	610	None	None	116700638	116701816	1	None	None
7	None	ENSG00000214142	ENST00000397636	processed_pseudogene	KNOWN	None	None	None	None	99737252	99738305	-1	None	None
11	None	ENSG00000254418	ENST00000534587	antisense	KNOWN	None	None	None	None	14284392	14295237	-1	None	None
5	None	ENSG00000271926	ENST00000607027	lincRNA	KNOWN	None	None	None	None	72249462	72250101	-1	None	None
X	ZFX-AS1	ENSG00000234230	ENST00000427551	antisense	KNOWN	None	40617	None	None	24164342	24167771	-1	None	None
1	CHD5	ENSG00000116254	ENST00000262450	protein_coding	KNOWN	CCDS57	16816	5865	1954	6161853	6240183	-1	None	None
1	CHD5	ENSG00000116254	ENST00000475121	protein_coding	PUTATIVE	None	16816	271	89	6165141	6166832	-1	None	None
1	CHD5	ENSG00000116254	ENST00000462991	nonsense_mediated_decay	KNOWN	None	16816	3181	1059	6165141	6204164	-1	None	None
1	CHD5	ENSG00000116254	ENST00000377999	nonsense_mediated_decay	KNOWN	None	16816	333	110	6165143	6191799	-1	None	None
1	CHD5	ENSG00000116254	ENST00000496404	nonsense_mediated_decay	KNOWN	None	16816	3678	1225	6165151	6240083	-1	None	None
1	CHD5	ENSG00000116254	ENST00000491020	nonsense_mediated_decay	KNOWN	None	16816	382	126	6185594	6188602	-1	None	None
1	CHD5	ENSG00000116254	ENST00000378021	protein_coding	KNOWN	None	16816	2427	808	6161853	6240183	-1	None	None
17	None	ENSG00000253730	ENST00000523083	antisense	KNOWN	None	None	None	None	48235694	48238637	-1	None	None
17	None	ENSG00000261959	ENST00000572855	antisense	KNOWN	None	None	None	None	48240884	48242677	-1	None	None
5	None	ENSG00000272081	ENST00000606587	lincRNA	KNOWN	None	None	None	None	72251033	72251526	-1	None	None
X	None	ENSG00000264184	ENST00000577723	miRNA	NOVEL	None	None	None	None	24304662	24304794	1	None	None
6	LPA	ENSG00000198670	ENST00000316300	protein_coding	KNOWN	CCDS43523	6667	6123	2040	160952515	161085291	-1	LP	None
6	LPA	ENSG00000198670	ENST00000484276	processed_transcript	KNOWN	None	6667	None	None	160952521	160966510	-1	LP	None
6	LPA	ENSG00000198670	ENST00000447678	protein_coding	KNOWN	CCDS43523	6667	6123	2040	160952515	161087407	-1	LP	None
17	None	ENSG00000265692	ENST00000581489	lincRNA	KNOWN	None	None	None	None	80247922	80250690	-1	None	None
X	SUPT20HL2	ENSG00000223611	ENST00000486479	processed_pseudogene	KNOWN	None	31797	None	None	24329024	24331432	-1	FAM48B2	None
X	SUPT20HL2	ENSG00000223611	ENST00000536351	processed_pseudogene	KNOWN	None	31797	None	None	24328979	24331432	-1	FAM48B2	None
7	MIR4658	ENSG00000266154	ENST00000584344	miRNA	KNOWN	None	41673	None	None	99754228	99754292	-1	None	hsa-mir-4658
17	HILS1	ENSG00000188662	ENST00000504307	processed_transcript	KNOWN	None	30616	None	None	48248789	48258539	-1	None	None
17	HILS1	ENSG00000188662	ENST00000545329	unitary_pseudogene	KNOWN	None	30616	None	None	48248875	48249297	-1	None	None
17	HILS1	ENSG00000188662	ENST00000340499	unitary_pseudogene	KNOWN	None	30616	None	None	48248874	48249837	-1	None	None
5	None	ENSG00000251467	ENST00000506083	processed_pseudogene	KNOWN	None	None	None	None	72292747	72293469	1	None	None
2	ST3GAL5	ENSG00000115525	ENST00000393808	protein_coding	KNOWN	CCDS42705	10872	1188	395	86066267	86094777	-1	SIAT9	ST3GalV, SIATGM3S
2	ST3GAL5	ENSG00000115525	ENST00000393805	protein_coding	KNOWN	None	10872	1173	390	86066267	86114672	-1	SIAT9	ST3GalV, SIATGM3S
2	ST3GAL5	ENSG00000115525	ENST00000377332	protein_coding	KNOWN	CCDS1986	10872	1257	418	86066267	86116137	-1	SIAT9	ST3GalV, SIATGM3S
2	ST3GAL5	ENSG00000115525	ENST00000461206	retained_intron	KNOWN	None	10872	None	None	86066272	86076699	-1	SIAT9	ST3GalV, SIATGM3S
2	ST3GAL5	ENSG00000115525	ENST00000306262	nonsense_mediated_decay	KNOWN	None	10872	339	112	86073617	86116034	-1	SIAT9	ST3GalV, SIATGM3S
2	ST3GAL5	ENSG00000115525	ENST00000455892	protein_coding	KNOWN	None	10872	418	138	86075144	86115509	-1	SIAT9	ST3GalV, SIATGM3S
2	ST3GAL5	ENSG00000115525	ENST00000433665	nonsense_mediated_decay	KNOWN	None	10872	144	47	86075274	86116109	-1	SIAT9	ST3GalV, SIATGM3S
2	ST3GAL5	ENSG00000115525	ENST00000487896	processed_transcript	PUTATIVE	None	10872	None	None	86078543	86080236	-1	SIAT9	ST3GalV, SIATGM3S
2	ST3GAL5	ENSG00000115525	ENST00000473122	processed_transcript	KNOWN	None	10872	None	None	86078631	86116000	-1	SIAT9	ST3GalV, SIATGM3S
2	ST3GAL5	ENSG00000115525	ENST00000461892	processed_transcript	KNOWN	None	10872	None	None	86079983	86116031	-1	SIAT9	ST3GalV, SIATGM3S
2	ST3GAL5	ENSG00000115525	ENST00000461199	processed_transcript	KNOWN	None	10872	None	None	86080031	86116033	-1	SIAT9	ST3GalV, SIATGM3S
2	ST3GAL5	ENSG00000115525	ENST00000484728	processed_transcript	PUTATIVE	None	10872	None	None	86088045	86116034	-1	SIAT9	ST3GalV, SIATGM3S
2	ST3GAL5	ENSG00000115525	ENST00000490946	processed_transcript	PUTATIVE	None	10872	None	None	86090485	86093323	-1	SIAT9	ST3GalV, SIATGM3S
2	ST3GAL5	ENSG00000115525	ENST00000525834	protein_coding	KNOWN	None	10872	663	220	86078391	86116031	-1	SIAT9	ST3GalV, SIATGM3S
5	None	ENSG00000250886	ENST00000510160	processed_pseudogene	KNOWN	None	None	None	None	35081325	35082094	1	None	None
5	None	ENSG00000248930	ENST00000502452	processed_pseudogene	KNOWN	None	None	None	None	72316527	72317106	-1	None	None
2	OST4	ENSG00000228474	ENST00000447619	protein_coding	KNOWN	CCDS58703	32483	114	37	27293340	27294517	-1	None	None
2	OST4	ENSG00000228474	ENST00000456793	protein_coding	KNOWN	CCDS58703	32483	114	37	27293340	27294641	-1	None	None
2	OST4	ENSG00000228474	ENST00000429985	protein_coding	KNOWN	CCDS58703	32483	114	37	27293355	27294517	-1	None	None
17	None	ENSG00000260563	ENST00000566986	lincRNA	KNOWN	None	None	None	None	80251592	80252786	1	None	None
17	None	ENSG00000260563	ENST00000593936	lincRNA	KNOWN	None	None	None	None	80251592	80252784	1	None	None
5	None	ENSG00000249160	ENST00000506021	protein_coding	PUTATIVE	None	None	282	93	10505108	10509306	-1	None	None
5	None	ENSG00000249160	ENST00000504650	processed_transcript	PUTATIVE	None	None	None	None	10505555	10522196	-1	None	None
19	RNF126	ENSG00000070423	ENST00000292363	protein_coding	KNOWN	CCDS12039	21151	936	311	647526	663277	-1	None	FLJ20552
19	RNF126	ENSG00000070423	ENST00000586749	retained_intron	KNOWN	None	21151	None	None	647530	650594	-1	None	FLJ20552
19	RNF126	ENSG00000070423	ENST00000590885	retained_intron	KNOWN	None	21151	None	None	647810	651917	-1	None	FLJ20552
19	RNF126	ENSG00000070423	ENST00000591452	retained_intron	KNOWN	None	21151	None	None	648099	649119	-1	None	FLJ20552
19	RNF126	ENSG00000070423	ENST00000605891	nonsense_mediated_decay	KNOWN	None	21151	225	74	648934	663194	-1	None	FLJ20552
19	RNF126	ENSG00000070423	ENST00000592418	protein_coding	NOVEL	None	21151	477	158	649679	661402	-1	None	FLJ20552
19	RNF126	ENSG00000070423	ENST00000589762	protein_coding	NOVEL	None	21151	495	164	649679	663233	-1	None	FLJ20552
19	RNF126	ENSG00000070423	ENST00000591394	retained_intron	KNOWN	None	21151	None	None	651385	663184	-1	None	FLJ20552
19	RNF126	ENSG00000070423	ENST00000591356	retained_intron	KNOWN	None	21151	None	None	651610	662890	-1	None	FLJ20552
19	RNF126	ENSG00000070423	ENST00000606702	protein_coding	NOVEL	None	21151	411	136	651610	663161	-1	None	FLJ20552
19	RNF126	ENSG00000070423	ENST00000606896	protein_coding	NOVEL	None	21151	399	132	651610	663198	-1	None	FLJ20552
19	RNF126	ENSG00000070423	ENST00000592626	retained_intron	KNOWN	None	21151	None	None	652358	663163	-1	None	FLJ20552
X	SATL1	ENSG00000184788	ENST00000509231	protein_coding	KNOWN	CCDS35343	27992	1899	632	84347300	84364054	-1	None	None
X	SATL1	ENSG00000184788	ENST00000395409	protein_coding	KNOWN	None	27992	1527	508	84347293	84363974	-1	None	None
X	SATL1	ENSG00000184788	ENST00000332921	protein_coding	KNOWN	None	27992	1338	445	84347293	84363974	-1	None	None
5	None	ENSG00000200833	ENST00000363963	misc_RNA	KNOWN	None	None	None	None	72395900	72396009	1	None	None
6	None	ENSG00000223322	ENST00000411390	miRNA	NOVEL	None	None	None	None	148845289	148845376	-1	None	None
5	None	ENSG00000251599	ENST00000508255	antisense	KNOWN	None	None	None	None	72427835	72446419	-1	None	None
10	PTCHD3	ENSG00000182077	ENST00000438700	protein_coding	KNOWN	CCDS31173	24776	2304	767	27687116	27703297	-1	None	FLJ44037, PTR
8	RANP9	ENSG00000253393	ENST00000519957	processed_pseudogene	KNOWN	None	39864	None	None	32897041	32897311	1	None	None
X	None	ENSG00000215174	ENST00000434992	processed_pseudogene	KNOWN	None	None	None	None	57703500	57706693	-1	None	None
5	None	ENSG00000250747	ENST00000512837	processed_pseudogene	KNOWN	None	None	None	None	72448243	72448765	-1	None	None
10	DMBT1	ENSG00000187908	ENST00000338354	protein_coding	KNOWN	None	2926	7242	2413	124320181	124403252	1	None	GP340, muclin
10	DMBT1	ENSG00000187908	ENST00000344338	protein_coding	NOVEL	None	2926	7212	2403	124320181	124403252	1	None	GP340, muclin
10	DMBT1	ENSG00000187908	ENST00000330163	protein_coding	NOVEL	None	2926	5358	1785	124320181	124403252	1	None	GP340, muclin
10	DMBT1	ENSG00000187908	ENST00000368909	protein_coding	KNOWN	CCDS44490	2926	7242	2413	124320181	124403252	1	None	GP340, muclin
10	DMBT1	ENSG00000187908	ENST00000368955	protein_coding	KNOWN	CCDS44492	2926	7212	2403	124320181	124403252	1	None	GP340, muclin
10	DMBT1	ENSG00000187908	ENST00000368956	protein_coding	KNOWN	CCDS44491	2926	5358	1785	124320181	124403252	1	None	GP340, muclin
10	DMBT1	ENSG00000187908	ENST00000359586	protein_coding	KNOWN	None	2926	3402	1133	124320201	124403252	1	None	GP340, muclin
17	None	ENSG00000260011	ENST00000566971	lincRNA	KNOWN	None	None	None	None	80338986	80340566	-1	None	None
X	None	ENSG00000234050	ENST00000413528	antisense	PUTATIVE	None	None	None	None	102192698	102195489	-1	None	None
17	C17orf80	ENSG00000141219	ENST00000255557	protein_coding	NOVEL	None	29601	1644	547	71228372	71241478	1	None	HLC-8, MIG3, FLJ20721, SPEP1
17	C17orf80	ENSG00000141219	ENST00000577615	protein_coding	KNOWN	CCDS42377	29601	1722	573	71228604	71243669	1	None	HLC-8, MIG3, FLJ20721, SPEP1
17	C17orf80	ENSG00000141219	ENST00000585109	protein_coding	KNOWN	None	29601	328	108	71228668	71231949	1	None	HLC-8, MIG3, FLJ20721, SPEP1
17	C17orf80	ENSG00000141219	ENST00000268942	protein_coding	KNOWN	CCDS42377	29601	1722	573	71228776	71245013	1	None	HLC-8, MIG3, FLJ20721, SPEP1
17	C17orf80	ENSG00000141219	ENST00000426147	protein_coding	KNOWN	CCDS45767	29601	1752	583	71228801	71241483	1	None	HLC-8, MIG3, FLJ20721, SPEP1
17	C17orf80	ENSG00000141219	ENST00000582391	protein_coding	KNOWN	None	29601	540	179	71228868	71232161	1	None	HLC-8, MIG3, FLJ20721, SPEP1
17	C17orf80	ENSG00000141219	ENST00000535032	protein_coding	KNOWN	CCDS11694	29601	1830	609	71229359	71243666	1	None	HLC-8, MIG3, FLJ20721, SPEP1
17	C17orf80	ENSG00000141219	ENST00000582793	protein_coding	PUTATIVE	None	29601	237	78	71229365	71243594	1	None	HLC-8, MIG3, FLJ20721, SPEP1
17	C17orf80	ENSG00000141219	ENST00000359042	protein_coding	KNOWN	CCDS11694	29601	1830	609	71228776	71245091	1	None	HLC-8, MIG3, FLJ20721, SPEP1
2	TMEM127	ENSG00000135956	ENST00000258439	protein_coding	KNOWN	CCDS2018	26038	717	238	96916312	96931732	-1	None	FLJ20507, FLJ22257
2	TMEM127	ENSG00000135956	ENST00000432959	protein_coding	KNOWN	CCDS2018	26038	717	238	96917398	96931732	-1	None	FLJ20507, FLJ22257
2	TMEM127	ENSG00000135956	ENST00000435268	protein_coding	PUTATIVE	None	26038	465	154	96919538	96926333	-1	None	FLJ20507, FLJ22257
12	WIBG	ENSG00000170473	ENST00000408946	protein_coding	KNOWN	CCDS41795	30258	615	204	56295197	56321697	-1	None	PYM
12	WIBG	ENSG00000170473	ENST00000398213	protein_coding	KNOWN	CCDS44916	30258	612	203	56295198	56320896	-1	None	PYM
12	WIBG	ENSG00000170473	ENST00000302533	processed_transcript	KNOWN	None	30258	None	None	56295471	56320895	-1	None	PYM
12	WIBG	ENSG00000170473	ENST00000557259	protein_coding	PUTATIVE	None	30258	135	44	56295755	56321397	-1	None	PYM
12	WIBG	ENSG00000170473	ENST00000547925	protein_coding	PUTATIVE	None	30258	138	45	56295825	56326402	-1	None	PYM
12	WIBG	ENSG00000170473	ENST00000549939	protein_coding	PUTATIVE	None	30258	113	36	56307530	56321540	-1	None	PYM
12	WIBG	ENSG00000170473	ENST00000454792	protein_coding	PUTATIVE	None	30258	234	77	56307610	56321659	-1	None	PYM
14	RNA5SP381	ENSG00000251885	ENST00000516076	rRNA	KNOWN	None	43281	None	None	20614276	20614314	-1	RN5S381	None
X	LINC00893	ENSG00000241769	ENST00000451969	processed_transcript	KNOWN	None	44265	None	None	148614831	148615879	-1	None	None
X	LINC00893	ENSG00000241769	ENST00000447209	processed_transcript	KNOWN	None	44265	None	None	148615274	148622338	-1	None	None
X	LINC00893	ENSG00000241769	ENST00000431214	processed_transcript	KNOWN	None	44265	None	None	148615632	148620837	-1	None	None
X	LINC00893	ENSG00000241769	ENST00000436708	processed_transcript	KNOWN	None	44265	None	None	148615765	148622358	-1	None	None
X	LINC00893	ENSG00000241769	ENST00000541582	processed_transcript	KNOWN	None	44265	None	None	148614964	148622358	-1	None	None
X	None	ENSG00000227427	ENST00000416450	processed_pseudogene	KNOWN	None	None	None	None	57792753	57793725	1	None	None
7	None	ENSG00000239521	ENST00000543273	processed_transcript	KNOWN	None	None	None	None	99798276	99869606	-1	None	None
7	None	ENSG00000239521	ENST00000292369	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	99798281	99869830	-1	None	None
7	None	ENSG00000239521	ENST00000414997	processed_transcript	KNOWN	None	None	None	None	99799836	99809174	-1	None	None
7	None	ENSG00000239521	ENST00000440058	processed_transcript	KNOWN	None	None	None	None	99799864	99821566	-1	None	None
7	None	ENSG00000239521	ENST00000437485	processed_transcript	KNOWN	None	None	None	None	99799913	99821321	-1	None	None
7	None	ENSG00000239521	ENST00000454084	processed_transcript	KNOWN	None	None	None	None	99799936	99869810	-1	None	None
7	None	ENSG00000239521	ENST00000435519	processed_transcript	KNOWN	None	None	None	None	99809207	99869611	-1	None	None
7	None	ENSG00000239521	ENST00000328453	processed_transcript	KNOWN	None	None	None	None	99809322	99869611	-1	None	None
7	None	ENSG00000239521	ENST00000445230	processed_transcript	KNOWN	None	None	None	None	99809558	99812802	-1	None	None
7	None	ENSG00000239521	ENST00000414739	processed_transcript	KNOWN	None	None	None	None	99809645	99869837	-1	None	None
7	None	ENSG00000239521	ENST00000538588	processed_transcript	KNOWN	None	None	None	None	99820268	99844171	-1	None	None
7	None	ENSG00000232790	ENST00000447262	processed_transcript	KNOWN	None	None	None	None	20875050	21062767	1	None	None
14	C14orf2	ENSG00000156411	ENST00000286953	protein_coding	KNOWN	CCDS9986	1188	177	58	104378625	104387894	-1	None	MP68
14	C14orf2	ENSG00000156411	ENST00000554880	protein_coding	KNOWN	CCDS9986	1188	177	58	104378627	104394606	-1	None	MP68
14	C14orf2	ENSG00000156411	ENST00000555030	protein_coding	PUTATIVE	None	1188	300	99	104378637	104387857	-1	None	MP68
14	C14orf2	ENSG00000156411	ENST00000414262	protein_coding	KNOWN	CCDS45169	1188	228	75	104378639	104387838	-1	None	MP68
14	C14orf2	ENSG00000156411	ENST00000553430	protein_coding	PUTATIVE	None	1188	234	77	104378847	104387866	-1	None	MP68
14	C14orf2	ENSG00000156411	ENST00000554287	retained_intron	KNOWN	None	1188	None	None	104378853	104380479	-1	None	MP68
14	C14orf2	ENSG00000156411	ENST00000557040	protein_coding	KNOWN	CCDS9986	1188	177	58	104378853	104387831	-1	None	MP68
14	C14orf2	ENSG00000156411	ENST00000553449	processed_transcript	PUTATIVE	None	1188	None	None	104378854	104387875	-1	None	MP68
14	C14orf2	ENSG00000156411	ENST00000554089	retained_intron	KNOWN	None	1188	None	None	104379556	104387848	-1	None	MP68
14	C14orf2	ENSG00000156411	ENST00000554713	protein_coding	PUTATIVE	None	1188	300	99	104379594	104387857	-1	None	MP68
14	C14orf2	ENSG00000156411	ENST00000557260	retained_intron	KNOWN	None	1188	None	None	104380295	104387862	-1	None	MP68
14	C14orf2	ENSG00000156411	ENST00000554528	retained_intron	KNOWN	None	1188	None	None	104381098	104387903	-1	None	MP68
19	HNRNPDLP4	ENSG00000270837	ENST00000605144	processed_pseudogene	KNOWN	None	48808	None	None	58560414	58560714	-1	None	None
14	None	ENSG00000259074	ENST00000556349	unitary_pseudogene	KNOWN	None	None	None	None	20617391	20617904	1	None	None
17	None	ENSG00000264812	ENST00000579188	sense_intronic	KNOWN	None	None	None	None	80358579	80359258	-1	None	None
19	RN7SL526P	ENSG00000243642	ENST00000469492	misc_RNA	KNOWN	None	46542	None	None	58581338	58581607	1	None	None
14	None	ENSG00000259095	ENST00000554443	processed_pseudogene	KNOWN	None	None	None	None	20641791	20641972	-1	None	None
HG183_PATCH	MIR3064	ENSG00000265387	ENST00000584521	miRNA	KNOWN	None	41652	None	None	62578133	62578199	-1	None	hsa-mir-3064
X	GAGE1	ENSG00000205777	ENST00000381709	protein_coding	KNOWN	None	4098	420	139	49363628	49373139	1	None	CT4.1
X	GAGE1	ENSG00000205777	ENST00000381700	protein_coding	KNOWN	CCDS43950	4098	354	117	49363665	49370958	1	None	CT4.1
19	None	ENSG00000268293	ENST00000600438	processed_pseudogene	KNOWN	None	None	None	None	58648080	58648421	1	None	None
X	None	ENSG00000224632	ENST00000423690	processed_pseudogene	KNOWN	None	None	None	None	102262389	102263000	1	None	None
17	None	ENSG00000201239	ENST00000364369	misc_RNA	NOVEL	None	None	None	None	80375102	80375197	1	None	None
1	HS2ST1	ENSG00000153936	ENST00000370551	protein_coding	KNOWN	CCDS44171	5193	690	229	87380331	87564128	1	None	KIAA0448
1	HS2ST1	ENSG00000153936	ENST00000370550	protein_coding	KNOWN	CCDS711	5193	1071	356	87380357	87575681	1	None	KIAA0448
1	HS2ST1	ENSG00000153936	ENST00000591456	protein_coding	PUTATIVE	None	5193	333	110	87422167	87558271	1	None	KIAA0448
1	HS2ST1	ENSG00000153936	ENST00000356813	protein_coding	KNOWN	None	5193	969	322	87458765	87602334	1	None	KIAA0448
HG183_PATCH	MIR5047	ENSG00000265492	ENST00000581629	miRNA	KNOWN	None	41834	None	None	62578574	62578673	-1	None	hsa-mir-5047
22	None	ENSG00000228587	ENST00000417782	lincRNA	KNOWN	None	None	None	None	36081987	36085420	1	None	None
20	ABHD12	ENSG00000100997	ENST00000465694	nonsense_mediated_decay	KNOWN	None	15868	40	12	25275379	25281520	-1	C20orf22	DKFZP434P106, dJ965G21.2, BEM46L2, ABHD12A
20	ABHD12	ENSG00000100997	ENST00000376542	protein_coding	KNOWN	CCDS13172	15868	1215	404	25275379	25371619	-1	C20orf22	DKFZP434P106, dJ965G21.2, BEM46L2, ABHD12A
20	ABHD12	ENSG00000100997	ENST00000339157	protein_coding	KNOWN	CCDS42857	15868	1197	398	25280834	25371612	-1	C20orf22	DKFZP434P106, dJ965G21.2, BEM46L2, ABHD12A
20	ABHD12	ENSG00000100997	ENST00000576316	protein_coding	PUTATIVE	None	15868	585	194	25283899	25290134	-1	C20orf22	DKFZP434P106, dJ965G21.2, BEM46L2, ABHD12A
20	ABHD12	ENSG00000100997	ENST00000481556	processed_transcript	KNOWN	None	15868	None	None	25287469	25291108	-1	C20orf22	DKFZP434P106, dJ965G21.2, BEM46L2, ABHD12A
20	ABHD12	ENSG00000100997	ENST00000491682	protein_coding	PUTATIVE	None	15868	479	158	25287469	25320385	-1	C20orf22	DKFZP434P106, dJ965G21.2, BEM46L2, ABHD12A
20	ABHD12	ENSG00000100997	ENST00000471287	protein_coding	PUTATIVE	None	15868	316	104	25289093	25370770	-1	C20orf22	DKFZP434P106, dJ965G21.2, BEM46L2, ABHD12A
20	ABHD12	ENSG00000100997	ENST00000450393	protein_coding	KNOWN	None	15868	561	186	25290135	25320367	-1	C20orf22	DKFZP434P106, dJ965G21.2, BEM46L2, ABHD12A
20	ABHD12	ENSG00000100997	ENST00000461204	nonsense_mediated_decay	KNOWN	None	15868	357	118	25300835	25371389	-1	C20orf22	DKFZP434P106, dJ965G21.2, BEM46L2, ABHD12A
8	MIR596	ENSG00000207826	ENST00000385091	miRNA	KNOWN	None	32852	None	None	1765397	1765473	1	MIRN596	hsa-mir-596
10	None	ENSG00000227029	ENST00000446107	lincRNA	KNOWN	None	None	None	None	44407892	44409684	1	None	None
17	None	ENSG00000265458	ENST00000579095	antisense	KNOWN	None	None	None	None	80412149	80416397	-1	None	None
17	None	ENSG00000265458	ENST00000578344	antisense	KNOWN	None	None	None	None	80415242	80415575	-1	None	None
4	GRXCR1	ENSG00000215203	ENST00000399770	protein_coding	KNOWN	CCDS43225	31673	873	290	42895284	43032675	1	DFNB25	None
20	LBP	ENSG00000129988	ENST00000217407	protein_coding	KNOWN	CCDS13304	6517	1446	481	36974759	37005665	1	None	BPIFD2
22	MRPS16P3	ENSG00000226336	ENST00000415961	processed_pseudogene	KNOWN	None	29733	None	None	36099850	36100223	1	None	None
14	OR11G1P	ENSG00000258468	ENST00000557042	unprocessed_pseudogene	KNOWN	None	15345	None	None	20647348	20648315	1	None	None
10	LINC00841	ENSG00000233395	ENST00000451929	lincRNA	KNOWN	None	27430	None	None	44434451	44439914	1	None	None
17	None	ENSG00000266445	ENST00000582249	antisense	KNOWN	None	None	None	None	80434473	80435800	-1	None	None
22	NDUFA9P1	ENSG00000237406	ENST00000436210	processed_pseudogene	KNOWN	None	19252	None	None	36293318	36294452	-1	None	dJ106I20.2
18	None	ENSG00000220032	ENST00000532511	protein_coding	PUTATIVE	None	None	354	117	74207477	74210045	1	None	None
11	CCDC89	ENSG00000179071	ENST00000316398	protein_coding	KNOWN	CCDS8270	26762	1125	374	85394893	85397320	-1	None	FLJ38159
12	DHH	ENSG00000139549	ENST00000266991	protein_coding	KNOWN	CCDS8779	2865	1191	396	49483204	49488602	-1	None	HHG-3, MGC35145
HSCHR6_MHC_APD	AGPAT1	ENSG00000236873	ENST00000433896	protein_coding	KNOWN	None	324	852	283	32147333	32152236	-1	None	LPAAT-alpha
HSCHR6_MHC_APD	AGPAT1	ENSG00000236873	ENST00000416363	protein_coding	KNOWN	None	324	852	283	32147333	32155243	-1	None	LPAAT-alpha
HSCHR6_MHC_APD	AGPAT1	ENSG00000236873	ENST00000424030	protein_coding	KNOWN	None	324	852	283	32147333	32156201	-1	None	LPAAT-alpha
HSCHR6_MHC_APD	AGPAT1	ENSG00000236873	ENST00000439774	protein_coding	KNOWN	None	324	852	283	32147333	32156446	-1	None	LPAAT-alpha
HSCHR6_MHC_APD	AGPAT1	ENSG00000236873	ENST00000496883	processed_transcript	KNOWN	None	324	None	None	32147333	32156463	-1	None	LPAAT-alpha
HSCHR6_MHC_APD	AGPAT1	ENSG00000236873	ENST00000440840	protein_coding	KNOWN	None	324	852	283	32147333	32156907	-1	None	LPAAT-alpha
HSCHR6_MHC_APD	AGPAT1	ENSG00000236873	ENST00000430777	protein_coding	KNOWN	None	324	852	283	32147333	32157217	-1	None	LPAAT-alpha
HSCHR6_MHC_APD	AGPAT1	ENSG00000236873	ENST00000475878	processed_transcript	KNOWN	None	324	None	None	32149286	32155018	-1	None	LPAAT-alpha
4	None	ENSG00000227040	ENST00000514020	processed_pseudogene	KNOWN	None	None	None	None	57627085	57627651	-1	None	None
14	RNU7-116P	ENSG00000252749	ENST00000516940	snRNA	KNOWN	None	45650	None	None	64203162	64203223	1	None	None
19	CEACAMP4	ENSG00000230681	ENST00000457676	unprocessed_pseudogene	KNOWN	None	1826	None	None	43807323	43808675	-1	CGM11	None
7	None	ENSG00000234839	ENST00000443431	processed_pseudogene	KNOWN	None	None	None	None	20883246	20883580	1	None	None
6	OFCC1	ENSG00000181355	ENST00000469421	processed_transcript	KNOWN	None	21017	None	None	9596343	9600026	-1	None	MRDS1
6	OFCC1	ENSG00000181355	ENST00000492094	nonsense_mediated_decay	KNOWN	None	21017	934	310	9596523	9939561	-1	None	MRDS1
6	OFCC1	ENSG00000181355	ENST00000487015	nonsense_mediated_decay	KNOWN	None	21017	369	122	9705658	9933514	-1	None	MRDS1
6	OFCC1	ENSG00000181355	ENST00000460363	protein_coding	PUTATIVE	None	21017	900	299	9707995	9939552	-1	None	MRDS1
6	OFCC1	ENSG00000181355	ENST00000492169	protein_coding	PUTATIVE	None	21017	559	185	9708166	9933500	-1	None	MRDS1
6	OFCC1	ENSG00000181355	ENST00000460066	processed_transcript	KNOWN	None	21017	None	None	9750484	9939582	-1	None	MRDS1
6	OFCC1	ENSG00000181355	ENST00000469426	nonsense_mediated_decay	KNOWN	None	21017	657	218	9809978	9933514	-1	None	MRDS1
6	OFCC1	ENSG00000181355	ENST00000469656	nonsense_mediated_decay	KNOWN	None	21017	356	117	9819395	9908753	-1	None	MRDS1
6	OFCC1	ENSG00000181355	ENST00000486246	nonsense_mediated_decay	KNOWN	None	21017	320	105	9840555	9933522	-1	None	MRDS1
6	OFCC1	ENSG00000181355	ENST00000489590	processed_transcript	PUTATIVE	None	21017	None	None	9842749	9933179	-1	None	MRDS1
6	OFCC1	ENSG00000181355	ENST00000472329	processed_transcript	KNOWN	None	21017	None	None	9896944	10060998	-1	None	MRDS1
6	OFCC1	ENSG00000181355	ENST00000466385	processed_transcript	KNOWN	None	21017	None	None	9897099	9939561	-1	None	MRDS1
6	OFCC1	ENSG00000181355	ENST00000491508	protein_coding	PUTATIVE	None	21017	624	207	9900646	9977832	-1	None	MRDS1
6	OFCC1	ENSG00000181355	ENST00000485268	protein_coding	PUTATIVE	None	21017	12	3	9939522	10115007	-1	None	MRDS1
6	OFCC1	ENSG00000181355	ENST00000481704	protein_coding	PUTATIVE	None	21017	66	21	9939522	10211841	-1	None	MRDS1
6	OFCC1	ENSG00000181355	ENST00000462111	processed_transcript	PUTATIVE	None	21017	None	None	10060935	10211773	-1	None	MRDS1
6	OFCC1	ENSG00000181355	ENST00000316020	protein_coding	KNOWN	None	21017	831	276	9896944	9977801	-1	None	MRDS1
19	None	ENSG00000269236	ENST00000597885	processed_pseudogene	KNOWN	None	None	None	None	58677533	58678512	1	None	None
17	NARF-IT1	ENSG00000266236	ENST00000584012	sense_intronic	KNOWN	None	43651	None	None	80439974	80441264	1	NARF-OT1	None
3	None	ENSG00000265870	ENST00000583987	miRNA	NOVEL	None	None	None	None	12112538	12112621	1	None	None
X	None	ENSG00000221010	ENST00000408083	miRNA	NOVEL	None	None	None	None	102323793	102323914	-1	None	None
4	RN7SL492P	ENSG00000240545	ENST00000460700	misc_RNA	KNOWN	None	46508	None	None	57660516	57660808	-1	None	None
14	None	ENSG00000258411	ENST00000554348	processed_pseudogene	KNOWN	None	None	None	None	64228731	64228867	1	None	None
19	None	ENSG00000231412	ENST00000595748	lincRNA	KNOWN	None	None	None	None	43833447	43835582	-1	None	None
4	RN7SL357P	ENSG00000265894	ENST00000581065	misc_RNA	KNOWN	None	46373	None	None	57672000	57672295	1	None	None
8	None	ENSG00000253696	ENST00000518539	lincRNA	KNOWN	None	None	None	None	1919563	1924644	1	None	None
8	None	ENSG00000265562	ENST00000583783	miRNA	NOVEL	None	None	None	None	33053355	33053455	1	None	None
22	None	ENSG00000233764	ENST00000425366	processed_pseudogene	KNOWN	None	None	None	None	36568470	36568827	1	None	None
4	None	ENSG00000251799	ENST00000515990	misc_RNA	NOVEL	None	None	None	None	57684384	57684480	-1	None	None
2	VSNL1	ENSG00000163032	ENST00000404666	protein_coding	KNOWN	CCDS1689	12722	576	191	17720393	17837345	1	None	VILIP, HPCAL3, HUVISL1, HLP3, VILIP-1
2	VSNL1	ENSG00000163032	ENST00000457525	protein_coding	KNOWN	None	12722	355	117	17721234	17830869	1	None	VILIP, HPCAL3, HUVISL1, HLP3, VILIP-1
2	VSNL1	ENSG00000163032	ENST00000295156	protein_coding	KNOWN	CCDS1689	12722	576	191	17721920	17837706	1	None	VILIP, HPCAL3, HUVISL1, HLP3, VILIP-1
2	VSNL1	ENSG00000163032	ENST00000451533	protein_coding	KNOWN	None	12722	313	103	17721963	17830827	1	None	VILIP, HPCAL3, HUVISL1, HLP3, VILIP-1
2	VSNL1	ENSG00000163032	ENST00000483921	processed_transcript	KNOWN	None	12722	None	None	17721974	17748974	1	None	VILIP, HPCAL3, HUVISL1, HLP3, VILIP-1
2	VSNL1	ENSG00000163032	ENST00000406397	protein_coding	KNOWN	CCDS1689	12722	576	191	17722427	17838285	1	None	VILIP, HPCAL3, HUVISL1, HLP3, VILIP-1
19	None	ENSG00000272396	ENST00000607109	antisense	KNOWN	None	None	None	None	43864837	43873122	-1	None	None
17	None	ENSG00000265136	ENST00000581815	processed_pseudogene	KNOWN	None	None	None	None	80534492	80535267	-1	None	None
4	None	ENSG00000269949	ENST00000602820	lincRNA	KNOWN	None	None	None	None	57827093	57827539	-1	None	None
15	None	ENSG00000259380	ENST00000561320	lincRNA	KNOWN	None	None	None	None	38431796	38519066	-1	None	None
15	None	ENSG00000259380	ENST00000561161	lincRNA	KNOWN	None	None	None	None	38434461	38519088	-1	None	None
4	None	ENSG00000238579	ENST00000459266	snoRNA	NOVEL	None	None	None	None	57860241	57860336	1	None	None
X	None	ENSG00000226241	ENST00000440243	processed_pseudogene	KNOWN	None	None	None	None	102342126	102344205	1	None	None
12	PWP1	ENSG00000136045	ENST00000412830	protein_coding	KNOWN	CCDS9114	17015	1506	501	108079509	108106944	1	None	IEF-SSP-9502
12	PWP1	ENSG00000136045	ENST00000552760	nonsense_mediated_decay	KNOWN	None	17015	444	147	108079579	108091355	1	None	IEF-SSP-9502
12	PWP1	ENSG00000136045	ENST00000547995	protein_coding	KNOWN	None	17015	295	97	108079585	108086852	1	None	IEF-SSP-9502
12	PWP1	ENSG00000136045	ENST00000541166	protein_coding	PUTATIVE	None	17015	1320	439	108079819	108106189	1	None	IEF-SSP-9502
12	PWP1	ENSG00000136045	ENST00000547120	retained_intron	KNOWN	None	17015	None	None	108086460	108091361	1	None	IEF-SSP-9502
HSCHR6_MHC_QBL	TRIM31	ENSG00000137397	ENST00000474960	retained_intron	KNOWN	None	16289	None	None	30060243	30063003	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_QBL	TRIM31	ENSG00000137397	ENST00000488184	processed_transcript	KNOWN	None	16289	None	None	30060243	30070230	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_QBL	TRIM31	ENSG00000137397	ENST00000357569	protein_coding	KNOWN	None	16289	1278	425	30060243	30070446	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_QBL	TRIM31	ENSG00000137397	ENST00000474549	processed_transcript	KNOWN	None	16289	None	None	30060708	30067863	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_QBL	TRIM31	ENSG00000137397	ENST00000474794	retained_intron	KNOWN	None	16289	None	None	30061219	30065545	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_QBL	TRIM31	ENSG00000137397	ENST00000476390	retained_intron	KNOWN	None	16289	None	None	30061277	30062786	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_QBL	TRIM31	ENSG00000137397	ENST00000493942	processed_transcript	KNOWN	None	16289	None	None	30062542	30069526	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_QBL	TRIM31	ENSG00000137397	ENST00000461197	retained_intron	KNOWN	None	16289	None	None	30066086	30069046	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_QBL	TRIM31	ENSG00000137397	ENST00000489466	retained_intron	KNOWN	None	16289	None	None	30068558	30069815	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_QBL	TRIM31	ENSG00000137397	ENST00000550348	protein_coding	KNOWN	None	16289	1278	425	30060245	30070430	-1	None	RNF, HCGI, C6orf13, HCG1
4	RNU6-998P	ENSG00000251703	ENST00000515894	snRNA	KNOWN	None	47961	None	None	57868858	57868958	1	None	None
19	CD177P1	ENSG00000204933	ENST00000606252	unprocessed_pseudogene	KNOWN	None	34508	None	None	43876894	43883275	-1	CD177P	None
19	CD177P1	ENSG00000204933	ENST00000378007	unprocessed_pseudogene	KNOWN	None	34508	None	None	43879660	43883276	-1	CD177P	None
HSCHR6_MHC_COX	HLA-DRB3	ENSG00000231679	ENST00000383126	protein_coding	KNOWN	None	4951	801	266	32411911	32425028	-1	HLA-DR3B	None
22	None	ENSG00000231576	ENST00000437339	processed_pseudogene	KNOWN	None	None	None	None	36568982	36569996	1	None	None
8	None	ENSG00000253993	ENST00000521887	processed_pseudogene	KNOWN	None	None	None	None	33084366	33084665	-1	None	None
4	UBE2CP3	ENSG00000250384	ENST00000502715	processed_pseudogene	KNOWN	None	43552	None	None	57938849	57939298	1	None	None
7	WEE2-AS1	ENSG00000228775	ENST00000488785	antisense	KNOWN	None	48669	None	None	141404138	141438030	-1	None	None
7	WEE2-AS1	ENSG00000228775	ENST00000495800	processed_transcript	KNOWN	None	48669	None	None	141404432	141438020	-1	None	None
7	WEE2-AS1	ENSG00000228775	ENST00000465110	processed_transcript	KNOWN	None	48669	None	None	141404432	141438020	-1	None	None
7	WEE2-AS1	ENSG00000228775	ENST00000478332	retained_intron	KNOWN	None	48669	None	None	141404432	141438057	-1	None	None
7	WEE2-AS1	ENSG00000228775	ENST00000462383	processed_transcript	KNOWN	None	48669	None	None	141404432	141438146	-1	None	None
7	WEE2-AS1	ENSG00000228775	ENST00000459753	processed_transcript	KNOWN	None	48669	None	None	141405496	141438052	-1	None	None
7	WEE2-AS1	ENSG00000228775	ENST00000471512	processed_transcript	KNOWN	None	48669	None	None	141405503	141438030	-1	None	None
7	WEE2-AS1	ENSG00000228775	ENST00000484172	processed_transcript	KNOWN	None	48669	None	None	141420595	141437341	-1	None	None
7	WEE2-AS1	ENSG00000228775	ENST00000486906	processed_transcript	KNOWN	None	48669	None	None	141423702	141437575	-1	None	None
7	WEE2-AS1	ENSG00000228775	ENST00000473776	processed_transcript	KNOWN	None	48669	None	None	141427449	141438031	-1	None	None
17	None	ENSG00000262652	ENST00000570869	sense_intronic	KNOWN	None	None	None	None	80535899	80536492	1	None	None
3	CLDN11	ENSG00000013297	ENST00000064724	protein_coding	KNOWN	CCDS3213	8514	624	207	170136653	170151887	1	OTM	OSP
3	CLDN11	ENSG00000013297	ENST00000486975	protein_coding	PUTATIVE	None	8514	498	165	170136656	170578169	1	OTM	OSP
3	CLDN11	ENSG00000013297	ENST00000486429	retained_intron	KNOWN	None	8514	None	None	170136663	170141530	1	OTM	OSP
3	CLDN11	ENSG00000013297	ENST00000489485	processed_transcript	KNOWN	None	8514	None	None	170139006	170151880	1	OTM	OSP
3	CLDN11	ENSG00000013297	ENST00000468358	processed_transcript	KNOWN	None	8514	None	None	170139028	170151214	1	OTM	OSP
3	CLDN11	ENSG00000013297	ENST00000471373	processed_transcript	KNOWN	None	8514	None	None	170139033	170220798	1	OTM	OSP
3	CLDN11	ENSG00000013297	ENST00000477531	processed_transcript	KNOWN	None	8514	None	None	170139068	170155503	1	OTM	OSP
3	CLDN11	ENSG00000013297	ENST00000488989	processed_transcript	PUTATIVE	None	8514	None	None	170155253	170172521	1	OTM	OSP
3	CLDN11	ENSG00000013297	ENST00000480067	processed_transcript	KNOWN	None	8514	None	None	170185070	170472997	1	OTM	OSP
3	CLDN11	ENSG00000013297	ENST00000451576	protein_coding	KNOWN	None	8514	498	165	170136855	170425939	1	OTM	OSP
4	None	ENSG00000238541	ENST00000459071	snoRNA	NOVEL	None	None	None	None	57972409	57972511	-1	None	None
14	None	ENSG00000270912	ENST00000604589	processed_pseudogene	KNOWN	None	None	None	None	64275264	64275450	1	None	None
11	None	ENSG00000254943	ENST00000524433	protein_coding	PUTATIVE	None	None	123	40	124761200	124762022	1	None	None
4	KCTD8	ENSG00000183783	ENST00000360029	protein_coding	KNOWN	CCDS3467	22394	1422	473	44175926	44450824	-1	None	None
4	KCTD8	ENSG00000183783	ENST00000515268	protein_coding	NOVEL	None	22394	464	153	44176972	44449630	-1	None	None
4	None	ENSG00000245067	ENST00000499667	antisense	KNOWN	None	None	None	None	57975928	58071465	1	None	None
4	None	ENSG00000245067	ENST00000508328	antisense	KNOWN	None	None	None	None	57976019	58071676	1	None	None
4	None	ENSG00000245067	ENST00000515865	antisense	KNOWN	None	None	None	None	58045311	58071676	1	None	None
20	BPIFB4	ENSG00000186191	ENST00000445356	nonsense_mediated_decay	KNOWN	None	16179	135	44	31667450	31680311	1	C20orf186	dJ726C3.5, LPLUNC4
20	BPIFB4	ENSG00000186191	ENST00000375483	protein_coding	KNOWN	CCDS13213	16179	1845	614	31669333	31699557	1	C20orf186	dJ726C3.5, LPLUNC4
20	BPIFB4	ENSG00000186191	ENST00000494121	processed_transcript	KNOWN	None	16179	None	None	31692510	31699557	1	C20orf186	dJ726C3.5, LPLUNC4
19	None	ENSG00000269177	ENST00000597119	antisense	KNOWN	None	None	None	None	44057597	44059646	1	None	None
14	OR11H5P	ENSG00000258625	ENST00000554039	unprocessed_pseudogene	KNOWN	None	15348	None	None	20677399	20678369	1	None	None
8	RNU6-528P	ENSG00000252735	ENST00000516926	snRNA	KNOWN	None	47491	None	None	33196385	33196484	1	None	None
19	None	ENSG00000269583	ENST00000600242	antisense	KNOWN	None	None	None	None	44078790	44079770	1	None	None
14	FBXO34	ENSG00000178974	ENST00000313833	protein_coding	KNOWN	CCDS32086	20201	2136	711	55738021	55820327	1	None	FLJ20725, Fbx34
14	FBXO34	ENSG00000178974	ENST00000554940	processed_transcript	PUTATIVE	None	20201	None	None	55738141	55817582	1	None	FLJ20725, Fbx34
14	FBXO34	ENSG00000178974	ENST00000555087	processed_transcript	PUTATIVE	None	20201	None	None	55738872	55817558	1	None	FLJ20725, Fbx34
14	FBXO34	ENSG00000178974	ENST00000557647	processed_transcript	KNOWN	None	20201	None	None	55738929	55821802	1	None	FLJ20725, Fbx34
14	FBXO34	ENSG00000178974	ENST00000555280	nonsense_mediated_decay	KNOWN	None	20201	1734	577	55817507	55828636	1	None	FLJ20725, Fbx34
14	FBXO34	ENSG00000178974	ENST00000440021	protein_coding	KNOWN	CCDS32086	20201	2136	711	55738872	55819801	1	None	FLJ20725, Fbx34
7	CYP3A7	ENSG00000160870	ENST00000477357	retained_intron	KNOWN	None	2640	None	None	99302660	99318592	-1	None	CP37, P450-HFLA
7	CYP3A7	ENSG00000160870	ENST00000336374	protein_coding	KNOWN	CCDS5673	2640	1512	503	99302667	99332719	-1	None	CP37, P450-HFLA
7	CYP3A7	ENSG00000160870	ENST00000498080	retained_intron	KNOWN	None	2640	None	None	99312971	99314888	-1	None	CP37, P450-HFLA
7	CYP3A7	ENSG00000160870	ENST00000467776	retained_intron	KNOWN	None	2640	None	None	99328196	99332819	-1	None	CP37, P450-HFLA
8	None	ENSG00000272338	ENST00000606064	lincRNA	KNOWN	None	None	None	None	33218361	33218933	-1	None	None
5	None	ENSG00000201368	ENST00000364498	snoRNA	NOVEL	None	None	None	None	35429166	35429378	1	None	None
5	None	ENSG00000249944	ENST00000502605	processed_pseudogene	KNOWN	None	None	None	None	114825331	114825628	1	None	None
19	NDUFA13	ENSG00000186010	ENST00000502506	nonsense_mediated_decay	KNOWN	None	17194	324	107	19626545	19639006	1	None	CGI-39, CDA016, GRIM-19, GRIM19, B16.6
19	NDUFA13	ENSG00000186010	ENST00000507754	protein_coding	KNOWN	CCDS12404	17194	435	144	19626547	19639006	1	None	CGI-39, CDA016, GRIM-19, GRIM19, B16.6
19	NDUFA13	ENSG00000186010	ENST00000503283	protein_coding	PUTATIVE	None	17194	363	120	19627037	19639863	1	None	CGI-39, CDA016, GRIM-19, GRIM19, B16.6
19	NDUFA13	ENSG00000186010	ENST00000511584	retained_intron	KNOWN	None	17194	None	None	19627039	19637527	1	None	CGI-39, CDA016, GRIM-19, GRIM19, B16.6
19	NDUFA13	ENSG00000186010	ENST00000428459	protein_coding	PUTATIVE	None	17194	453	150	19627039	19638831	1	None	CGI-39, CDA016, GRIM-19, GRIM19, B16.6
19	NDUFA13	ENSG00000186010	ENST00000511180	protein_coding	PUTATIVE	None	17194	235	77	19627062	19638579	1	None	CGI-39, CDA016, GRIM-19, GRIM19, B16.6
19	NDUFA13	ENSG00000186010	ENST00000252576	protein_coding	KNOWN	None	17194	684	227	19626799	19639013	1	None	CGI-39, CDA016, GRIM-19, GRIM19, B16.6
5	RNU7-130P	ENSG00000238441	ENST00000459491	snRNA	KNOWN	None	45664	None	None	35633065	35633126	-1	None	None
7	RN7SL542P	ENSG00000243633	ENST00000467147	misc_RNA	KNOWN	None	46558	None	None	21255159	21255449	-1	None	None
8	None	ENSG00000253764	ENST00000517676	lincRNA	KNOWN	None	None	None	None	1920736	1921776	-1	None	None
8	None	ENSG00000253764	ENST00000521498	lincRNA	KNOWN	None	None	None	None	1920987	1922803	-1	None	None
14	None	ENSG00000202182	ENST00000365312	misc_RNA	NOVEL	None	None	None	None	64314979	64315080	-1	None	None
16	None	ENSG00000240311	ENST00000459875	processed_pseudogene	KNOWN	None	None	None	None	3546201	3546768	1	None	None
5	None	ENSG00000248969	ENST00000510433	antisense	KNOWN	None	None	None	None	35678586	35827120	-1	None	None
HG75_PATCH	MYO19	ENSG00000260164	ENST00000564244	nonsense_mediated_decay	KNOWN	None	26234	1911	636	34823008	34869611	-1	MYOHD1	FLJ22865
HG75_PATCH	MYO19	ENSG00000260164	ENST00000561703	protein_coding	KNOWN	None	26234	2913	970	34823232	34862176	-1	MYOHD1	FLJ22865
HG75_PATCH	MYO19	ENSG00000260164	ENST00000566688	protein_coding	KNOWN	None	26234	954	317	34840456	34862236	-1	MYOHD1	FLJ22865
HG75_PATCH	MYO19	ENSG00000260164	ENST00000565614	protein_coding	KNOWN	None	26234	279	92	34854940	34862178	-1	MYOHD1	FLJ22865
HG75_PATCH	MYO19	ENSG00000260164	ENST00000563959	protein_coding	KNOWN	None	26234	197	64	34855022	34862158	-1	MYOHD1	FLJ22865
HG75_PATCH	MYO19	ENSG00000260164	ENST00000565206	protein_coding	KNOWN	None	26234	148	48	34855435	34861587	-1	MYOHD1	FLJ22865
HG75_PATCH	MYO19	ENSG00000260164	ENST00000565536	protein_coding	KNOWN	None	26234	134	43	34855449	34862178	-1	MYOHD1	FLJ22865
HG75_PATCH	MYO19	ENSG00000260164	ENST00000561943	processed_transcript	KNOWN	None	26234	None	None	34860016	34861587	-1	MYOHD1	FLJ22865
HG75_PATCH	MYO19	ENSG00000260164	ENST00000562494	processed_transcript	KNOWN	None	26234	None	None	34860660	34862233	-1	MYOHD1	FLJ22865
14	MIR548H1	ENSG00000221537	ENST00000408610	miRNA	KNOWN	None	35342	None	None	64561742	64561843	-1	MIRN548H1	hsa-mir-548h-1
7	CDK5	ENSG00000164885	ENST00000485972	protein_coding	KNOWN	CCDS47748	1774	879	292	150750899	150755617	-1	None	PSSALRE
7	CDK5	ENSG00000164885	ENST00000297518	protein_coding	NOVEL	CCDS55184	1774	783	260	150751096	150754935	-1	None	PSSALRE
7	CDK5	ENSG00000164885	ENST00000487703	retained_intron	KNOWN	None	1774	None	None	150752386	150754831	-1	None	PSSALRE
7	CDK5	ENSG00000164885	ENST00000476691	retained_intron	KNOWN	None	1774	None	None	150752576	150753447	-1	None	PSSALRE
7	CDK5	ENSG00000164885	ENST00000469108	retained_intron	KNOWN	None	1774	None	None	150753653	150754981	-1	None	PSSALRE
15	None	ENSG00000259192	ENST00000559695	processed_pseudogene	KNOWN	None	None	None	None	38750961	38751741	-1	None	None
5	None	ENSG00000249433	ENST00000508663	processed_pseudogene	KNOWN	None	None	None	None	114829254	114829518	1	None	None
5	None	ENSG00000248349	ENST00000502591	processed_pseudogene	KNOWN	None	None	None	None	35896290	35896392	-1	None	None
8	None	ENSG00000220984	ENST00000408057	miRNA	NOVEL	None	None	None	None	58096193	58096279	1	None	None
16	NOXO1	ENSG00000196408	ENST00000569739	retained_intron	KNOWN	None	19404	None	None	2028918	2029645	-1	None	P41NOXA, P41NOXB, P41NOXC, SH3PXD5, SNX28
16	NOXO1	ENSG00000196408	ENST00000356120	protein_coding	KNOWN	CCDS10455	19404	1116	371	2028918	2031468	-1	None	P41NOXA, P41NOXB, P41NOXC, SH3PXD5, SNX28
16	NOXO1	ENSG00000196408	ENST00000354249	protein_coding	KNOWN	CCDS10454	19404	1113	370	2028918	2031550	-1	None	P41NOXA, P41NOXB, P41NOXC, SH3PXD5, SNX28
16	NOXO1	ENSG00000196408	ENST00000397280	protein_coding	KNOWN	CCDS42101	19404	1131	376	2029041	2031184	-1	None	P41NOXA, P41NOXB, P41NOXC, SH3PXD5, SNX28
16	NOXO1	ENSG00000196408	ENST00000566005	protein_coding	KNOWN	CCDS58406	19404	1128	375	2029041	2031184	-1	None	P41NOXA, P41NOXB, P41NOXC, SH3PXD5, SNX28
16	NOXO1	ENSG00000196408	ENST00000563181	retained_intron	KNOWN	None	19404	None	None	2030061	2031445	-1	None	P41NOXA, P41NOXB, P41NOXC, SH3PXD5, SNX28
16	NOXO1	ENSG00000196408	ENST00000567471	protein_coding	KNOWN	None	19404	228	75	2030541	2034193	-1	None	P41NOXA, P41NOXB, P41NOXC, SH3PXD5, SNX28
5	CCT5P1	ENSG00000250444	ENST00000502314	processed_pseudogene	KNOWN	None	35135	None	None	114847774	114849391	1	None	None
22	None	ENSG00000237948	ENST00000414147	processed_pseudogene	KNOWN	None	None	None	None	36570309	36570870	1	None	None
14	None	ENSG00000266336	ENST00000579172	miRNA	NOVEL	None	None	None	None	20685313	20685398	-1	None	None
14	None	ENSG00000258866	ENST00000554033	lincRNA	KNOWN	None	None	None	None	95514557	95517290	1	None	None
14	None	ENSG00000258768	ENST00000556738	lincRNA	KNOWN	None	None	None	None	20728639	20732467	-1	None	None
4	None	ENSG00000250192	ENST00000511330	lincRNA	KNOWN	None	None	None	None	58020743	58022618	1	None	None
3	None	ENSG00000233026	ENST00000433573	processed_pseudogene	KNOWN	None	None	None	None	12206799	12207142	-1	None	None
16	None	ENSG00000262312	ENST00000573820	sense_overlapping	KNOWN	None	None	None	None	3594431	3595785	1	None	None
8	None	ENSG00000254061	ENST00000521717	processed_pseudogene	KNOWN	None	None	None	None	33293786	33294218	-1	None	None
8	None	ENSG00000251142	ENST00000507074	processed_pseudogene	KNOWN	None	None	None	None	58152616	58153100	1	None	None
11	ALG9	ENSG00000086848	ENST00000532425	protein_coding	PUTATIVE	None	15672	623	206	111652919	111709028	-1	DIBD1	None
11	ALG9	ENSG00000086848	ENST00000527212	processed_transcript	KNOWN	None	15672	None	None	111656876	111685445	-1	DIBD1	None
11	ALG9	ENSG00000086848	ENST00000524457	processed_transcript	KNOWN	None	15672	None	None	111656980	111742257	-1	DIBD1	None
11	ALG9	ENSG00000086848	ENST00000526272	processed_transcript	KNOWN	None	15672	None	None	111657000	111707438	-1	DIBD1	None
11	ALG9	ENSG00000086848	ENST00000532374	processed_transcript	KNOWN	None	15672	None	None	111657005	111742284	-1	DIBD1	None
11	ALG9	ENSG00000086848	ENST00000524671	nonsense_mediated_decay	KNOWN	None	15672	107	34	111657008	111680433	-1	DIBD1	None
11	ALG9	ENSG00000086848	ENST00000531154	protein_coding	KNOWN	CCDS41714	15672	1344	447	111657008	111741588	-1	DIBD1	None
11	ALG9	ENSG00000086848	ENST00000398006	protein_coding	KNOWN	CCDS53709	15672	1323	440	111657008	111742024	-1	DIBD1	None
11	ALG9	ENSG00000086848	ENST00000527228	processed_transcript	KNOWN	None	15672	None	None	111657008	111742305	-1	DIBD1	None
11	ALG9	ENSG00000086848	ENST00000525910	nonsense_mediated_decay	KNOWN	None	15672	73	23	111657010	111680414	-1	DIBD1	None
11	ALG9	ENSG00000086848	ENST00000530851	processed_transcript	KNOWN	None	15672	None	None	111680343	111739459	-1	DIBD1	None
11	ALG9	ENSG00000086848	ENST00000527883	processed_transcript	KNOWN	None	15672	None	None	111708262	111742270	-1	DIBD1	None
11	ALG9	ENSG00000086848	ENST00000527294	processed_transcript	KNOWN	None	15672	None	None	111708266	111716114	-1	DIBD1	None
11	ALG9	ENSG00000086848	ENST00000527714	retained_intron	KNOWN	None	15672	None	None	111711489	111728667	-1	DIBD1	None
11	ALG9	ENSG00000086848	ENST00000524386	processed_transcript	KNOWN	None	15672	None	None	111720187	111742267	-1	DIBD1	None
11	ALG9	ENSG00000086848	ENST00000529754	processed_transcript	KNOWN	None	15672	None	None	111728325	111742305	-1	DIBD1	None
11	ALG9	ENSG00000086848	ENST00000530723	processed_transcript	KNOWN	None	15672	None	None	111739357	111742006	-1	DIBD1	None
1	None	ENSG00000256761	ENST00000420957	pseudogene	NOVEL	None	None	None	None	2978523	2978959	-1	None	None
4	YIPF7	ENSG00000177752	ENST00000415895	protein_coding	KNOWN	None	26825	772	256	44624086	44652118	-1	None	FLJ39576, FinGER9
4	YIPF7	ENSG00000177752	ENST00000510035	retained_intron	KNOWN	None	26825	None	None	44631188	44653658	-1	None	FLJ39576, FinGER9
4	YIPF7	ENSG00000177752	ENST00000502794	retained_intron	KNOWN	None	26825	None	None	44631188	44653658	-1	None	FLJ39576, FinGER9
4	YIPF7	ENSG00000177752	ENST00000508947	processed_transcript	KNOWN	None	26825	None	None	44652001	44680573	-1	None	FLJ39576, FinGER9
4	YIPF7	ENSG00000177752	ENST00000332990	protein_coding	KNOWN	CCDS54766	26825	843	280	44624354	44653658	-1	None	FLJ39576, FinGER9
22	None	ENSG00000225557	ENST00000454926	processed_pseudogene	KNOWN	None	None	None	None	36571215	36571902	1	None	None
17	None	ENSG00000249406	ENST00000509943	lincRNA	KNOWN	None	None	None	None	48286333	48291820	1	None	None
4	None	ENSG00000243920	ENST00000497656	processed_pseudogene	KNOWN	None	None	None	None	58219165	58219495	-1	None	None
19	MUC16	ENSG00000181143	ENST00000397910	protein_coding	KNOWN	CCDS54212	15582	43524	14507	8959520	9092018	-1	None	CA125, FLJ14303
19	MUC16	ENSG00000181143	ENST00000596768	nonsense_mediated_decay	KNOWN	None	15582	2011	669	8959521	9002673	-1	None	CA125, FLJ14303
19	MUC16	ENSG00000181143	ENST00000601404	nonsense_mediated_decay	KNOWN	None	15582	3674	1223	8959521	9006766	-1	None	CA125, FLJ14303
19	MUC16	ENSG00000181143	ENST00000599436	protein_coding	NOVEL	None	15582	3992	1329	8959521	9006766	-1	None	CA125, FLJ14303
19	MUC16	ENSG00000181143	ENST00000596956	processed_transcript	KNOWN	None	15582	None	None	8973992	8977690	-1	None	CA125, FLJ14303
19	MUC16	ENSG00000181143	ENST00000380951	protein_coding	KNOWN	None	15582	3447	1148	8959522	9003586	-1	None	CA125, FLJ14303
2	IL1RN	ENSG00000136689	ENST00000465812	processed_transcript	KNOWN	None	6000	None	None	113864791	113875242	1	None	IL1RA, ICIL-1RA, IL1F3, IRAP, IL-1RN, MGC10430
2	IL1RN	ENSG00000136689	ENST00000463073	processed_transcript	KNOWN	None	6000	None	None	113868693	113873267	1	None	IL1RA, ICIL-1RA, IL1F3, IRAP, IL-1RN, MGC10430
2	IL1RN	ENSG00000136689	ENST00000409052	protein_coding	NOVEL	CCDS2115	6000	432	143	113868693	113891590	1	None	IL1RA, ICIL-1RA, IL1F3, IRAP, IL-1RN, MGC10430
2	IL1RN	ENSG00000136689	ENST00000361779	protein_coding	NOVEL	CCDS2115	6000	432	143	113875470	113891593	1	None	IL1RA, ICIL-1RA, IL1F3, IRAP, IL-1RN, MGC10430
2	IL1RN	ENSG00000136689	ENST00000259206	protein_coding	KNOWN	CCDS2114	6000	543	180	113875474	113891593	1	None	IL1RA, ICIL-1RA, IL1F3, IRAP, IL-1RN, MGC10430
2	IL1RN	ENSG00000136689	ENST00000354115	protein_coding	KNOWN	CCDS2113	6000	480	159	113875474	113891593	1	None	IL1RA, ICIL-1RA, IL1F3, IRAP, IL-1RN, MGC10430
2	IL1RN	ENSG00000136689	ENST00000486167	retained_intron	KNOWN	None	6000	None	None	113875558	113887698	1	None	IL1RA, ICIL-1RA, IL1F3, IRAP, IL-1RN, MGC10430
2	IL1RN	ENSG00000136689	ENST00000409930	protein_coding	KNOWN	CCDS46396	6000	534	177	113885138	113890698	1	None	IL1RA, ICIL-1RA, IL1F3, IRAP, IL-1RN, MGC10430
2	IL1RN	ENSG00000136689	ENST00000472292	retained_intron	KNOWN	None	6000	None	None	113885153	113887559	1	None	IL1RA, ICIL-1RA, IL1F3, IRAP, IL-1RN, MGC10430
X	None	ENSG00000200662	ENST00000363792	misc_RNA	NOVEL	None	None	None	None	102411048	102411139	-1	None	None
10	RAB18	ENSG00000099246	ENST00000356940	protein_coding	KNOWN	CCDS7155	14244	621	206	27793197	27831143	1	None	None
10	RAB18	ENSG00000099246	ENST00000490236	retained_intron	KNOWN	None	14244	None	None	27793228	27799419	1	None	None
10	RAB18	ENSG00000099246	ENST00000375802	protein_coding	KNOWN	None	14244	486	161	27793257	27827069	1	None	None
10	RAB18	ENSG00000099246	ENST00000465772	processed_transcript	KNOWN	None	14244	None	None	27793306	27827418	1	None	None
10	RAB18	ENSG00000099246	ENST00000484281	processed_transcript	KNOWN	None	14244	None	None	27793323	27803146	1	None	None
10	RAB18	ENSG00000099246	ENST00000423465	protein_coding	KNOWN	None	14244	873	290	27793548	27826895	1	None	None
10	RAB18	ENSG00000099246	ENST00000535776	protein_coding	KNOWN	CCDS58073	14244	429	142	27793233	27828203	1	None	None
5	None	ENSG00000249249	ENST00000506485	antisense	KNOWN	None	None	None	None	114937754	114938902	1	None	None
5	None	ENSG00000249249	ENST00000508517	antisense	KNOWN	None	None	None	None	114937941	114955975	1	None	None
5	None	ENSG00000249249	ENST00000515570	antisense	KNOWN	None	None	None	None	114938742	114956356	1	None	None
15	MIR5701-2	ENSG00000264902	ENST00000578890	miRNA	KNOWN	None	43510	None	None	22156766	22156847	1	None	hsa-mir-5701-2
15	MIR5701-1	ENSG00000264902	ENST00000578890	miRNA	KNOWN	None	43522	None	None	22156766	22156847	1	None	hsa-mir-5701-1
19	PRR19	ENSG00000188368	ENST00000598490	protein_coding	KNOWN	None	33728	708	235	42806250	42814965	1	None	MGC70924
19	PRR19	ENSG00000188368	ENST00000595750	protein_coding	KNOWN	None	33728	619	205	42811105	42814440	1	None	MGC70924
19	PRR19	ENSG00000188368	ENST00000499536	protein_coding	KNOWN	CCDS33036	33728	1071	356	42812926	42814966	1	None	MGC70924
19	PRR19	ENSG00000188368	ENST00000341747	protein_coding	KNOWN	CCDS33036	33728	1071	356	42806284	42814973	1	None	MGC70924
20	NFS1	ENSG00000244005	ENST00000441563	nonsense_mediated_decay	KNOWN	None	15910	175	57	34220262	34262322	-1	None	NifS, IscS
20	NFS1	ENSG00000244005	ENST00000454607	nonsense_mediated_decay	KNOWN	None	15910	421	139	34220262	34262322	-1	None	NifS, IscS
20	NFS1	ENSG00000244005	ENST00000541176	nonsense_mediated_decay	KNOWN	None	15910	485	160	34220262	34262466	-1	None	NifS, IscS
20	NFS1	ENSG00000244005	ENST00000374092	protein_coding	KNOWN	CCDS13262	15910	1374	457	34255977	34287281	-1	None	NifS, IscS
20	NFS1	ENSG00000244005	ENST00000374085	protein_coding	PUTATIVE	None	15910	1194	397	34256621	34287111	-1	None	NifS, IscS
20	NFS1	ENSG00000244005	ENST00000498084	processed_transcript	KNOWN	None	15910	None	None	34256886	34261988	-1	None	NifS, IscS
20	NFS1	ENSG00000244005	ENST00000480655	retained_intron	KNOWN	None	15910	None	None	34256886	34264108	-1	None	NifS, IscS
20	NFS1	ENSG00000244005	ENST00000397425	protein_coding	PUTATIVE	None	15910	1194	397	34256905	34287271	-1	None	NifS, IscS
20	NFS1	ENSG00000244005	ENST00000440385	nonsense_mediated_decay	KNOWN	None	15910	615	204	34256915	34287277	-1	None	NifS, IscS
20	NFS1	ENSG00000244005	ENST00000541387	protein_coding	KNOWN	CCDS56185	15910	1221	406	34257393	34287274	-1	None	NifS, IscS
20	NFS1	ENSG00000244005	ENST00000471137	retained_intron	KNOWN	None	15910	None	None	34261680	34262720	-1	None	NifS, IscS
20	NFS1	ENSG00000244005	ENST00000489163	processed_transcript	KNOWN	None	15910	None	None	34262453	34270713	-1	None	NifS, IscS
20	NFS1	ENSG00000244005	ENST00000413203	nonsense_mediated_decay	KNOWN	None	15910	264	87	34269887	34287274	-1	None	NifS, IscS
20	NFS1	ENSG00000244005	ENST00000456462	nonsense_mediated_decay	KNOWN	None	15910	444	147	34278335	34287274	-1	None	NifS, IscS
20	NFS1	ENSG00000244005	ENST00000419569	protein_coding	PUTATIVE	None	15910	323	106	34278393	34287111	-1	None	NifS, IscS
20	NFS1	ENSG00000244005	ENST00000421540	processed_transcript	KNOWN	None	15910	None	None	34278448	34287277	-1	None	NifS, IscS
20	NFS1	ENSG00000244005	ENST00000306750	protein_coding	PUTATIVE	None	15910	570	189	34282494	34287226	-1	None	NifS, IscS
20	NFS1	ENSG00000244005	ENST00000540053	protein_coding	KNOWN	None	15910	768	255	34257093	34287274	-1	None	NifS, IscS
15	None	ENSG00000259619	ENST00000558038	processed_pseudogene	KNOWN	None	None	None	None	54340785	54343073	-1	None	None
14	None	ENSG00000214770	ENST00000555861	antisense	KNOWN	None	None	None	None	64796149	64803287	-1	None	None
14	None	ENSG00000214770	ENST00000359491	antisense	KNOWN	None	None	None	None	64802553	64805317	-1	None	None
X	None	ENSG00000233071	ENST00000421048	processed_pseudogene	KNOWN	None	None	None	None	102460938	102461827	-1	None	None
22	None	ENSG00000237129	ENST00000439552	processed_pseudogene	KNOWN	None	None	None	None	36571905	36572574	1	None	None
17	None	ENSG00000263176	ENST00000577175	processed_transcript	KNOWN	None	None	None	None	48290294	48292718	-1	None	None
22	KLHL22	ENSG00000099910	ENST00000429594	nonsense_mediated_decay	KNOWN	None	25888	196	64	20783528	20800907	-1	None	FLJ14360, KELCHL
22	KLHL22	ENSG00000099910	ENST00000328879	protein_coding	KNOWN	CCDS13780	25888	1905	634	20795806	20850170	-1	None	FLJ14360, KELCHL
22	KLHL22	ENSG00000099910	ENST00000487090	processed_transcript	PUTATIVE	None	25888	None	None	20810505	20819773	-1	None	FLJ14360, KELCHL
22	KLHL22	ENSG00000099910	ENST00000479601	retained_intron	KNOWN	None	25888	None	None	20812077	20850079	-1	None	FLJ14360, KELCHL
22	KLHL22	ENSG00000099910	ENST00000451553	protein_coding	PUTATIVE	None	25888	677	224	20819349	20850089	-1	None	FLJ14360, KELCHL
22	KLHL22	ENSG00000099910	ENST00000444967	protein_coding	PUTATIVE	None	25888	886	294	20819467	20850085	-1	None	FLJ14360, KELCHL
22	KLHL22	ENSG00000099910	ENST00000458248	protein_coding	KNOWN	None	25888	705	234	20819552	20850082	-1	None	FLJ14360, KELCHL
22	KLHL22	ENSG00000099910	ENST00000443285	protein_coding	PUTATIVE	None	25888	755	250	20819604	20850082	-1	None	FLJ14360, KELCHL
22	KLHL22	ENSG00000099910	ENST00000494929	processed_transcript	PUTATIVE	None	25888	None	None	20819679	20850104	-1	None	FLJ14360, KELCHL
22	KLHL22	ENSG00000099910	ENST00000431430	protein_coding	NOVEL	None	25888	475	157	20819829	20850110	-1	None	FLJ14360, KELCHL
22	KLHL22	ENSG00000099910	ENST00000470335	processed_transcript	PUTATIVE	None	25888	None	None	20837915	20850131	-1	None	FLJ14360, KELCHL
22	KLHL22	ENSG00000099910	ENST00000490556	processed_transcript	PUTATIVE	None	25888	None	None	20842818	20846340	-1	None	FLJ14360, KELCHL
22	KLHL22	ENSG00000099910	ENST00000423364	protein_coding	PUTATIVE	None	25888	323	106	20843272	20845844	-1	None	FLJ14360, KELCHL
22	KLHL22	ENSG00000099910	ENST00000440659	protein_coding	KNOWN	None	25888	1476	491	20795948	20850082	-1	None	FLJ14360, KELCHL
6	None	ENSG00000238974	ENST00000459078	snoRNA	NOVEL	None	None	None	None	108564659	108564762	1	None	None
17	None	ENSG00000251085	ENST00000514468	lincRNA	KNOWN	None	None	None	None	48292055	48292781	1	None	None
11	None	ENSG00000255074	ENST00000534211	processed_pseudogene	KNOWN	None	None	None	None	14462333	14463223	1	None	None
11	HEPACAM	ENSG00000165478	ENST00000298251	protein_coding	KNOWN	CCDS8456	26361	1251	416	124789089	124806308	-1	None	FLJ25530, hepaCAM, GLIALCAM
11	HEPACAM	ENSG00000165478	ENST00000526273	retained_intron	KNOWN	None	26361	None	None	124793511	124794822	-1	None	FLJ25530, hepaCAM, GLIALCAM
11	HEPACAM	ENSG00000165478	ENST00000528971	retained_intron	KNOWN	None	26361	None	None	124794511	124806308	-1	None	FLJ25530, hepaCAM, GLIALCAM
6	None	ENSG00000233511	ENST00000431564	processed_pseudogene	KNOWN	None	None	None	None	108573418	108573604	1	None	None
8	None	ENSG00000270988	ENST00000605539	lincRNA	KNOWN	None	None	None	None	1922984	1923480	1	None	None
6	PHACTR1	ENSG00000112137	ENST00000379350	protein_coding	KNOWN	None	20990	1455	484	12717893	13276355	1	RPEL1	KIAA1733, dJ257A7.2
6	PHACTR1	ENSG00000112137	ENST00000379348	protein_coding	KNOWN	None	20990	510	169	12718542	12934232	1	RPEL1	KIAA1733, dJ257A7.2
6	PHACTR1	ENSG00000112137	ENST00000406205	protein_coding	KNOWN	None	20990	792	263	12749667	13185052	1	RPEL1	KIAA1733, dJ257A7.2
6	PHACTR1	ENSG00000112137	ENST00000482982	processed_transcript	KNOWN	None	20990	None	None	12957591	13182810	1	RPEL1	KIAA1733, dJ257A7.2
6	PHACTR1	ENSG00000112137	ENST00000434977	protein_coding	KNOWN	None	20990	693	230	13053689	13230636	1	RPEL1	KIAA1733, dJ257A7.2
6	PHACTR1	ENSG00000112137	ENST00000415087	protein_coding	KNOWN	None	20990	1247	414	13182751	13288075	1	RPEL1	KIAA1733, dJ257A7.2
6	PHACTR1	ENSG00000112137	ENST00000489548	processed_transcript	KNOWN	None	20990	None	None	13272444	13286429	1	RPEL1	KIAA1733, dJ257A7.2
6	PHACTR1	ENSG00000112137	ENST00000379335	protein_coding	KNOWN	None	20990	435	144	13272904	13287713	1	RPEL1	KIAA1733, dJ257A7.2
6	PHACTR1	ENSG00000112137	ENST00000379329	protein_coding	KNOWN	None	20990	423	140	13272989	13284139	1	RPEL1	KIAA1733, dJ257A7.2
6	PHACTR1	ENSG00000112137	ENST00000481706	processed_transcript	KNOWN	None	20990	None	None	13278234	13283778	1	RPEL1	KIAA1733, dJ257A7.2
6	PHACTR1	ENSG00000112137	ENST00000332995	protein_coding	KNOWN	None	20990	1740	579	12718977	13288645	1	RPEL1	KIAA1733, dJ257A7.2
6	PHACTR1	ENSG00000112137	ENST00000457702	protein_coding	KNOWN	None	20990	1305	434	12958214	13288645	1	RPEL1	KIAA1733, dJ257A7.2
6	PHACTR1	ENSG00000112137	ENST00000379345	protein_coding	KNOWN	None	20990	600	199	12958214	13230569	1	RPEL1	KIAA1733, dJ257A7.2
1	None	ENSG00000226286	ENST00000440516	antisense	KNOWN	None	None	None	None	3049491	3050273	-1	None	None
17	SUMO2P7	ENSG00000249838	ENST00000511179	processed_pseudogene	KNOWN	None	39017	None	None	48313206	48313490	1	None	None
6	RNA5SP212	ENSG00000212525	ENST00000391223	rRNA	KNOWN	None	43112	None	None	108573605	108573711	1	RN5S212	None
14	None	ENSG00000258459	ENST00000553419	antisense	KNOWN	None	None	None	None	20773889	20774970	1	None	None
15	None	ENSG00000259326	ENST00000560231	antisense	KNOWN	None	None	None	None	38795054	38797182	1	None	None
16	None	ENSG00000261938	ENST00000573982	lincRNA	KNOWN	None	None	None	None	3631182	3633267	1	None	None
17	EMC6	ENSG00000127774	ENST00000248378	protein_coding	KNOWN	CCDS11033	28430	333	110	3572109	3572959	1	TMEM93	MGC2963
17	EMC6	ENSG00000127774	ENST00000397133	protein_coding	KNOWN	CCDS11033	28430	333	110	3572116	3572962	1	TMEM93	MGC2963
1	SH2D5	ENSG00000189410	ENST00000375031	protein_coding	KNOWN	CCDS41280	28819	1020	339	21046225	21059133	-1	None	None
1	SH2D5	ENSG00000189410	ENST00000460804	processed_transcript	KNOWN	None	28819	None	None	21046225	21059330	-1	None	None
1	SH2D5	ENSG00000189410	ENST00000444387	protein_coding	KNOWN	CCDS44080	28819	1272	423	21048021	21059029	-1	None	None
1	SH2D5	ENSG00000189410	ENST00000447746	protein_coding	NOVEL	None	28819	404	133	21051094	21058771	-1	None	None
1	SH2D5	ENSG00000189410	ENST00000518294	protein_coding	KNOWN	None	28819	395	130	21051124	21059330	-1	None	None
1	SH2D5	ENSG00000189410	ENST00000517430	protein_coding	KNOWN	None	28819	378	125	21052425	21058084	-1	None	None
1	SH2D5	ENSG00000189410	ENST00000519434	protein_coding	KNOWN	None	28819	212	69	21053525	21057668	-1	None	None
6	None	ENSG00000230248	ENST00000419801	lincRNA	KNOWN	None	None	None	None	108596846	108597750	1	None	None
15	PDIA3	ENSG00000167004	ENST00000300289	protein_coding	KNOWN	CCDS10101	4606	1518	505	44038590	44065477	1	GRP58	P58, ERp61, ERp57, ERp60, GRP57, PI-PLC, HsT17083
15	PDIA3	ENSG00000167004	ENST00000469684	processed_transcript	PUTATIVE	None	4606	None	None	44038608	44048923	1	GRP58	P58, ERp61, ERp57, ERp60, GRP57, PI-PLC, HsT17083
15	PDIA3	ENSG00000167004	ENST00000446523	nonsense_mediated_decay	KNOWN	None	4606	228	75	44038651	44048964	1	GRP58	P58, ERp61, ERp57, ERp60, GRP57, PI-PLC, HsT17083
15	PDIA3	ENSG00000167004	ENST00000434494	nonsense_mediated_decay	KNOWN	None	4606	216	71	44038651	44063743	1	GRP58	P58, ERp61, ERp57, ERp60, GRP57, PI-PLC, HsT17083
15	PDIA3	ENSG00000167004	ENST00000455250	nonsense_mediated_decay	KNOWN	None	4606	372	123	44038810	44060693	1	GRP58	P58, ERp61, ERp57, ERp60, GRP57, PI-PLC, HsT17083
15	PDIA3	ENSG00000167004	ENST00000497349	retained_intron	KNOWN	None	4606	None	None	44062481	44063743	1	GRP58	P58, ERp61, ERp57, ERp60, GRP57, PI-PLC, HsT17083
15	PDIA3	ENSG00000167004	ENST00000538521	protein_coding	KNOWN	None	4606	1458	485	44038651	44063735	1	GRP58	P58, ERp61, ERp57, ERp60, GRP57, PI-PLC, HsT17083
8	SNORD13	ENSG00000239039	ENST00000459299	snoRNA	KNOWN	None	32711	None	None	33370993	33371096	1	None	U13, RNU13
17	None	ENSG00000239135	ENST00000459233	snoRNA	NOVEL	None	None	None	None	48322257	48322365	-1	None	None
18	EPB41L3	ENSG00000082397	ENST00000341928	protein_coding	KNOWN	CCDS11838	3380	3264	1087	5392383	5544241	-1	None	DAL1, KIAA0987, 4.1B
18	EPB41L3	ENSG00000082397	ENST00000578618	retained_intron	KNOWN	None	3380	None	None	5392385	5399565	-1	None	DAL1, KIAA0987, 4.1B
18	EPB41L3	ENSG00000082397	ENST00000542652	processed_transcript	KNOWN	None	3380	None	None	5392385	5466362	-1	None	DAL1, KIAA0987, 4.1B
18	EPB41L3	ENSG00000082397	ENST00000540638	protein_coding	KNOWN	None	3380	2598	865	5393092	5544280	-1	None	DAL1, KIAA0987, 4.1B
18	EPB41L3	ENSG00000082397	ENST00000545076	processed_transcript	KNOWN	None	3380	None	None	5393102	5628990	-1	None	DAL1, KIAA0987, 4.1B
18	EPB41L3	ENSG00000082397	ENST00000579951	protein_coding	PUTATIVE	None	3380	335	110	5394782	5396333	-1	None	DAL1, KIAA0987, 4.1B
18	EPB41L3	ENSG00000082397	ENST00000578524	processed_transcript	KNOWN	None	3380	None	None	5396198	5419812	-1	None	DAL1, KIAA0987, 4.1B
18	EPB41L3	ENSG00000082397	ENST00000581292	processed_transcript	KNOWN	None	3380	None	None	5397157	5419799	-1	None	DAL1, KIAA0987, 4.1B
18	EPB41L3	ENSG00000082397	ENST00000584055	retained_intron	KNOWN	None	3380	None	None	5397247	5407327	-1	None	DAL1, KIAA0987, 4.1B
18	EPB41L3	ENSG00000082397	ENST00000581387	processed_transcript	KNOWN	None	3380	None	None	5397392	5419814	-1	None	DAL1, KIAA0987, 4.1B
18	EPB41L3	ENSG00000082397	ENST00000579271	processed_transcript	KNOWN	None	3380	None	None	5397394	5419800	-1	None	DAL1, KIAA0987, 4.1B
18	EPB41L3	ENSG00000082397	ENST00000580647	processed_transcript	KNOWN	None	3380	None	None	5397397	5419793	-1	None	DAL1, KIAA0987, 4.1B
18	EPB41L3	ENSG00000082397	ENST00000580316	processed_transcript	KNOWN	None	3380	None	None	5398112	5423406	-1	None	DAL1, KIAA0987, 4.1B
18	EPB41L3	ENSG00000082397	ENST00000578196	processed_transcript	KNOWN	None	3380	None	None	5400868	5419837	-1	None	DAL1, KIAA0987, 4.1B
18	EPB41L3	ENSG00000082397	ENST00000582729	processed_transcript	KNOWN	None	3380	None	None	5400996	5416150	-1	None	DAL1, KIAA0987, 4.1B
18	EPB41L3	ENSG00000082397	ENST00000578395	processed_transcript	KNOWN	None	3380	None	None	5406847	5420205	-1	None	DAL1, KIAA0987, 4.1B
18	EPB41L3	ENSG00000082397	ENST00000581661	processed_transcript	KNOWN	None	3380	None	None	5416275	5428349	-1	None	DAL1, KIAA0987, 4.1B
18	EPB41L3	ENSG00000082397	ENST00000584670	protein_coding	PUTATIVE	None	3380	443	146	5419798	5540395	-1	None	DAL1, KIAA0987, 4.1B
18	EPB41L3	ENSG00000082397	ENST00000578432	processed_transcript	KNOWN	None	3380	None	None	5429247	5433558	-1	None	DAL1, KIAA0987, 4.1B
18	EPB41L3	ENSG00000082397	ENST00000581757	processed_transcript	KNOWN	None	3380	None	None	5431211	5434120	-1	None	DAL1, KIAA0987, 4.1B
18	EPB41L3	ENSG00000082397	ENST00000581454	processed_transcript	KNOWN	None	3380	None	None	5445139	5488938	-1	None	DAL1, KIAA0987, 4.1B
18	EPB41L3	ENSG00000082397	ENST00000580866	retained_intron	KNOWN	None	3380	None	None	5445139	5489046	-1	None	DAL1, KIAA0987, 4.1B
18	EPB41L3	ENSG00000082397	ENST00000578503	protein_coding	KNOWN	None	3380	486	161	5445139	5489249	-1	None	DAL1, KIAA0987, 4.1B
18	EPB41L3	ENSG00000082397	ENST00000584651	protein_coding	KNOWN	None	3380	486	161	5445139	5528998	-1	None	DAL1, KIAA0987, 4.1B
18	EPB41L3	ENSG00000082397	ENST00000580308	protein_coding	KNOWN	None	3380	381	126	5478240	5489369	-1	None	DAL1, KIAA0987, 4.1B
18	EPB41L3	ENSG00000082397	ENST00000584015	protein_coding	KNOWN	None	3380	381	126	5478240	5543419	-1	None	DAL1, KIAA0987, 4.1B
18	EPB41L3	ENSG00000082397	ENST00000580989	protein_coding	KNOWN	None	3380	375	124	5478246	5521422	-1	None	DAL1, KIAA0987, 4.1B
18	EPB41L3	ENSG00000082397	ENST00000581833	protein_coding	KNOWN	None	3380	350	115	5478271	5540471	-1	None	DAL1, KIAA0987, 4.1B
18	EPB41L3	ENSG00000082397	ENST00000585142	protein_coding	KNOWN	None	3380	339	112	5478282	5540555	-1	None	DAL1, KIAA0987, 4.1B
18	EPB41L3	ENSG00000082397	ENST00000582703	protein_coding	KNOWN	None	3380	272	89	5478349	5540414	-1	None	DAL1, KIAA0987, 4.1B
18	EPB41L3	ENSG00000082397	ENST00000578431	processed_transcript	KNOWN	None	3380	None	None	5478353	5630699	-1	None	DAL1, KIAA0987, 4.1B
18	EPB41L3	ENSG00000082397	ENST00000580179	protein_coding	KNOWN	None	3380	239	78	5478382	5540423	-1	None	DAL1, KIAA0987, 4.1B
18	EPB41L3	ENSG00000082397	ENST00000582592	protein_coding	PUTATIVE	None	3380	289	95	5478398	5577647	-1	None	DAL1, KIAA0987, 4.1B
18	EPB41L3	ENSG00000082397	ENST00000544123	protein_coding	KNOWN	None	3380	2652	883	5393068	5540555	-1	None	DAL1, KIAA0987, 4.1B
18	EPB41L3	ENSG00000082397	ENST00000342933	protein_coding	KNOWN	CCDS11838	3380	3264	1087	5394682	5540555	-1	None	DAL1, KIAA0987, 4.1B
18	EPB41L3	ENSG00000082397	ENST00000400111	protein_coding	KNOWN	None	3380	2598	865	5394682	5540555	-1	None	DAL1, KIAA0987, 4.1B
18	EPB41L3	ENSG00000082397	ENST00000427684	protein_coding	KNOWN	None	3380	1155	384	5393166	5419802	-1	None	DAL1, KIAA0987, 4.1B
18	EPB41L3	ENSG00000082397	ENST00000542146	protein_coding	KNOWN	None	3380	1179	392	5393179	5419800	-1	None	DAL1, KIAA0987, 4.1B
16	None	ENSG00000263235	ENST00000570409	sense_overlapping	KNOWN	None	None	None	None	3700637	3701704	-1	None	None
14	MIR3173	ENSG00000264607	ENST00000580810	miRNA	KNOWN	None	38174	None	None	95604256	95604323	-1	None	hsa-mir-3173
6	RNU6-1144P	ENSG00000206974	ENST00000384247	snRNA	KNOWN	None	48107	None	None	108613970	108614073	1	None	None
X	None	ENSG00000225261	ENST00000431993	antisense	KNOWN	None	None	None	None	148629755	148631380	-1	None	None
17	None	ENSG00000251179	ENST00000508851	antisense	KNOWN	None	None	None	None	48358938	48365216	-1	None	None
16	None	ENSG00000178430	ENST00000323601	pseudogene	NOVEL	None	None	None	None	3725411	3727060	1	None	None
6	None	ENSG00000238055	ENST00000418637	processed_pseudogene	KNOWN	None	None	None	None	108639283	108639608	1	None	None
8	None	ENSG00000253614	ENST00000522622	lincRNA	KNOWN	None	None	None	None	58173785	58179172	1	None	None
11	RNU7-49P	ENSG00000251991	ENST00000516182	snRNA	KNOWN	None	34145	None	None	14500438	14500499	1	None	U7.49
15	None	ENSG00000258786	ENST00000557651	processed_pseudogene	KNOWN	None	None	None	None	22185845	22186733	-1	None	None
7	None	ENSG00000239985	ENST00000430369	unprocessed_pseudogene	KNOWN	None	None	None	None	64498750	64498943	1	None	None
17	None	ENSG00000206824	ENST00000384097	misc_RNA	NOVEL	None	None	None	None	48463506	48463607	-1	None	None
11	None	ENSG00000255040	ENST00000525966	processed_pseudogene	KNOWN	None	None	None	None	14695152	14696101	-1	None	None
6	None	ENSG00000270382	ENST00000605188	processed_pseudogene	KNOWN	None	None	None	None	52522171	52522449	1	None	None
5	None	ENSG00000249748	ENST00000503269	antisense	KNOWN	None	None	None	None	35938924	35940095	1	None	None
17	None	ENSG00000253102	ENST00000511627	antisense	KNOWN	None	None	None	None	48473799	48475249	1	None	None
16	None	ENSG00000262516	ENST00000572774	processed_pseudogene	KNOWN	None	None	None	None	3890529	3891011	1	None	None
15	None	ENSG00000259598	ENST00000559544	antisense	KNOWN	None	None	None	None	38816271	38826856	1	None	None
17	None	ENSG00000166329	ENST00000299415	protein_coding	PUTATIVE	None	None	462	153	55821842	55822673	-1	None	None
14	DICER1-AS1	ENSG00000235706	ENST00000554631	antisense	KNOWN	None	43017	None	None	95623982	95646263	1	None	FLJ45244, DICER1-AS
14	DICER1-AS1	ENSG00000235706	ENST00000439819	antisense	KNOWN	None	43017	None	None	95624015	95646262	1	None	FLJ45244, DICER1-AS
14	DICER1-AS1	ENSG00000235706	ENST00000435343	antisense	KNOWN	None	43017	None	None	95624097	95646262	1	None	FLJ45244, DICER1-AS
14	DICER1-AS1	ENSG00000235706	ENST00000439999	antisense	KNOWN	None	43017	None	None	95643820	95646262	1	None	FLJ45244, DICER1-AS
3	GSTM5P1	ENSG00000236062	ENST00000434751	processed_pseudogene	KNOWN	None	4633	None	None	12299300	12299959	-1	GST1L, GSTM1L	None
8	None	ENSG00000253805	ENST00000517731	lincRNA	KNOWN	None	None	None	None	1981650	1983729	1	None	None
17	MRPS21P9	ENSG00000262759	ENST00000571150	processed_pseudogene	KNOWN	None	29756	None	None	48527540	48528086	-1	None	None
8	None	ENSG00000253232	ENST00000519573	processed_pseudogene	KNOWN	None	None	None	None	33380672	33380809	1	None	None
5	None	ENSG00000249021	ENST00000333482	lincRNA	KNOWN	None	None	None	None	115027159	115027864	-1	None	None
6	None	ENSG00000216775	ENST00000602367	retained_intron	KNOWN	None	None	None	None	52529946	52533953	1	None	None
6	None	ENSG00000216775	ENST00000406724	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	52530072	52531676	1	None	None
10	RNA5SP305	ENSG00000199535	ENST00000362665	rRNA	KNOWN	None	43205	None	None	24929095	24929213	1	RN5S305	None
9	RNU2-46P	ENSG00000252847	ENST00000517038	snRNA	KNOWN	None	48539	None	None	98622186	98622298	1	None	None
9	RNA5SP289	ENSG00000199202	ENST00000362332	rRNA	KNOWN	None	43189	None	None	98667287	98667423	1	RN5S289	None
1	None	ENSG00000272235	ENST00000607061	lincRNA	KNOWN	None	None	None	None	3223200	3226660	-1	None	None
7	TNS3	ENSG00000136205	ENST00000428457	protein_coding	PUTATIVE	None	21616	64	20	47314752	47319916	-1	TENS1	TEM6, H_NH0549I23.2, FLJ13732
7	TNS3	ENSG00000136205	ENST00000311160	protein_coding	KNOWN	CCDS5506	21616	4338	1445	47314752	47621742	-1	TENS1	TEM6, H_NH0549I23.2, FLJ13732
7	TNS3	ENSG00000136205	ENST00000457718	protein_coding	PUTATIVE	None	21616	3749	1248	47342565	47622156	-1	TENS1	TEM6, H_NH0549I23.2, FLJ13732
7	TNS3	ENSG00000136205	ENST00000450444	protein_coding	PUTATIVE	None	21616	1632	543	47408878	47578875	-1	TENS1	TEM6, H_NH0549I23.2, FLJ13732
7	TNS3	ENSG00000136205	ENST00000469470	processed_transcript	KNOWN	None	21616	None	None	47409094	47443022	-1	TENS1	TEM6, H_NH0549I23.2, FLJ13732
7	TNS3	ENSG00000136205	ENST00000485555	retained_intron	KNOWN	None	21616	None	None	47436191	47440035	-1	TENS1	TEM6, H_NH0549I23.2, FLJ13732
7	TNS3	ENSG00000136205	ENST00000442536	protein_coding	KNOWN	None	21616	753	250	47440498	47579199	-1	TENS1	TEM6, H_NH0549I23.2, FLJ13732
7	TNS3	ENSG00000136205	ENST00000415929	protein_coding	KNOWN	None	21616	415	137	47463757	47520883	-1	TENS1	TEM6, H_NH0549I23.2, FLJ13732
7	TNS3	ENSG00000136205	ENST00000413551	protein_coding	KNOWN	None	21616	324	107	47474880	47492829	-1	TENS1	TEM6, H_NH0549I23.2, FLJ13732
7	TNS3	ENSG00000136205	ENST00000434451	protein_coding	PUTATIVE	None	21616	342	113	47479241	47621229	-1	TENS1	TEM6, H_NH0549I23.2, FLJ13732
7	TNS3	ENSG00000136205	ENST00000474346	processed_transcript	PUTATIVE	None	21616	None	None	47618768	47621697	-1	TENS1	TEM6, H_NH0549I23.2, FLJ13732
7	TNS3	ENSG00000136205	ENST00000398879	protein_coding	KNOWN	CCDS5506	21616	4338	1445	47314754	47579199	-1	TENS1	TEM6, H_NH0549I23.2, FLJ13732
7	TNS3	ENSG00000136205	ENST00000355730	protein_coding	KNOWN	None	21616	3618	1205	47314754	47579199	-1	TENS1	TEM6, H_NH0549I23.2, FLJ13732
7	TNS3	ENSG00000136205	ENST00000458317	protein_coding	KNOWN	None	21616	753	250	47445091	47579199	-1	TENS1	TEM6, H_NH0549I23.2, FLJ13732
5	None	ENSG00000251591	ENST00000505367	processed_pseudogene	KNOWN	None	None	None	None	36071893	36072181	-1	None	None
10	None	ENSG00000228667	ENST00000446973	processed_pseudogene	KNOWN	None	None	None	None	25156574	25157119	1	None	None
7	None	ENSG00000207344	ENST00000384614	snoRNA	NOVEL	None	None	None	None	64526377	64526510	1	None	None
16	None	ENSG00000262888	ENST00000571302	sense_overlapping	KNOWN	None	None	None	None	3981218	3996306	-1	None	None
1	None	ENSG00000267561	ENST00000370548	protein_coding	PUTATIVE	None	None	912	303	87458692	87634884	1	None	None
9	None	ENSG00000237631	ENST00000446226	processed_pseudogene	KNOWN	None	None	None	None	98680418	98680986	1	None	None
14	TEX21P	ENSG00000234911	ENST00000447107	unitary_pseudogene	KNOWN	None	35455	None	None	64812889	64841384	-1	None	None
7	None	ENSG00000207062	ENST00000384334	snoRNA	NOVEL	None	None	None	None	64530916	64531050	1	None	None
19	UBA52	ENSG00000221983	ENST00000596304	protein_coding	KNOWN	CCDS12382	12458	387	128	18682540	18686012	1	None	RPL40, CEP52, HUBCEP52, MGC57125, MGC126879, MGC126881, L40
19	UBA52	ENSG00000221983	ENST00000430157	protein_coding	KNOWN	CCDS12382	12458	387	128	18682612	18686051	1	None	RPL40, CEP52, HUBCEP52, MGC57125, MGC126879, MGC126881, L40
19	UBA52	ENSG00000221983	ENST00000596273	protein_coding	KNOWN	CCDS12382	12458	387	128	18682665	18686039	1	None	RPL40, CEP52, HUBCEP52, MGC57125, MGC126879, MGC126881, L40
19	UBA52	ENSG00000221983	ENST00000598814	retained_intron	KNOWN	None	12458	None	None	18682668	18684600	1	None	RPL40, CEP52, HUBCEP52, MGC57125, MGC126879, MGC126881, L40
19	UBA52	ENSG00000221983	ENST00000442744	protein_coding	KNOWN	CCDS12382	12458	387	128	18682670	18688360	1	None	RPL40, CEP52, HUBCEP52, MGC57125, MGC126879, MGC126881, L40
19	UBA52	ENSG00000221983	ENST00000595683	protein_coding	KNOWN	CCDS12382	12458	387	128	18682685	18686052	1	None	RPL40, CEP52, HUBCEP52, MGC57125, MGC126879, MGC126881, L40
19	UBA52	ENSG00000221983	ENST00000599256	protein_coding	KNOWN	None	12458	190	62	18682689	18684558	1	None	RPL40, CEP52, HUBCEP52, MGC57125, MGC126879, MGC126881, L40
19	UBA52	ENSG00000221983	ENST00000595158	protein_coding	KNOWN	CCDS12382	12458	387	128	18682692	18686044	1	None	RPL40, CEP52, HUBCEP52, MGC57125, MGC126879, MGC126881, L40
19	UBA52	ENSG00000221983	ENST00000598780	protein_coding	KNOWN	CCDS12382	12458	387	128	18682737	18685980	1	None	RPL40, CEP52, HUBCEP52, MGC57125, MGC126879, MGC126881, L40
19	UBA52	ENSG00000221983	ENST00000599551	protein_coding	KNOWN	CCDS12382	12458	387	128	18683550	18686051	1	None	RPL40, CEP52, HUBCEP52, MGC57125, MGC126879, MGC126881, L40
19	UBA52	ENSG00000221983	ENST00000597451	protein_coding	KNOWN	CCDS12382	12458	387	128	18684075	18686051	1	None	RPL40, CEP52, HUBCEP52, MGC57125, MGC126879, MGC126881, L40
19	UBA52	ENSG00000221983	ENST00000599595	protein_coding	KNOWN	CCDS12382	12458	387	128	18684095	18688100	1	None	RPL40, CEP52, HUBCEP52, MGC57125, MGC126879, MGC126881, L40
19	UBA52	ENSG00000221983	ENST00000596272	protein_coding	PUTATIVE	None	12458	417	138	18684165	18686051	1	None	RPL40, CEP52, HUBCEP52, MGC57125, MGC126879, MGC126881, L40
19	UBA52	ENSG00000221983	ENST00000594527	protein_coding	PUTATIVE	None	12458	345	114	18684186	18686051	1	None	RPL40, CEP52, HUBCEP52, MGC57125, MGC126879, MGC126881, L40
5	MIR580	ENSG00000207756	ENST00000385023	miRNA	KNOWN	None	32836	None	None	36147994	36148090	-1	MIRN580	hsa-mir-580
7	None	ENSG00000227113	ENST00000414799	unprocessed_pseudogene	KNOWN	None	None	None	None	64535401	64539158	1	None	None
5	RNU6-1305P	ENSG00000201223	ENST00000364353	snRNA	KNOWN	None	48268	None	None	36155221	36155324	1	None	None
5	None	ENSG00000248709	ENST00000512900	lincRNA	KNOWN	None	None	None	None	115091341	115091983	1	None	None
12	None	ENSG00000269980	ENST00000602352	antisense	KNOWN	None	None	None	None	123746607	123746949	1	None	None
8	None	ENSG00000253118	ENST00000522089	processed_pseudogene	KNOWN	None	None	None	None	93364140	93364376	-1	None	None
5	NADK2-AS1	ENSG00000245711	ENST00000501794	antisense	KNOWN	None	41143	None	None	36221157	36222004	1	NADKD1-AS1	None
11	CALCP	ENSG00000253179	ENST00000522108	unprocessed_pseudogene	KNOWN	None	1439	None	None	14929064	14929532	1	None	CALC3
8	LINC00588	ENSG00000215117	ENST00000521663	lincRNA	KNOWN	None	24494	None	None	58192102	58197290	1	C8orf71	DKFZP434F122
8	SPATC1	ENSG00000186583	ENST00000377470	protein_coding	KNOWN	CCDS6413	30510	1776	591	145086582	145101933	1	None	MGC61633, SPATA15, SPERIOLIN
8	SPATC1	ENSG00000186583	ENST00000447830	protein_coding	KNOWN	CCDS47937	30510	1326	441	145086594	145101926	1	None	MGC61633, SPATA15, SPERIOLIN
12	NFYB	ENSG00000120837	ENST00000240055	protein_coding	KNOWN	CCDS9098	7805	624	207	104510855	104532067	-1	None	CBF-A, HAP3, NF-YB
12	NFYB	ENSG00000120837	ENST00000551727	protein_coding	KNOWN	CCDS9098	7805	624	207	104513133	104531795	-1	None	CBF-A, HAP3, NF-YB
12	NFYB	ENSG00000120837	ENST00000550189	retained_intron	KNOWN	None	7805	None	None	104515032	104522390	-1	None	CBF-A, HAP3, NF-YB
12	NFYB	ENSG00000120837	ENST00000551446	protein_coding	PUTATIVE	None	7805	394	130	104517042	104531981	-1	None	CBF-A, HAP3, NF-YB
12	NFYB	ENSG00000120837	ENST00000550881	retained_intron	KNOWN	None	7805	None	None	104524910	104532019	-1	None	CBF-A, HAP3, NF-YB
3	SDHAP2	ENSG00000215837	ENST00000455183	transcribed_unprocessed_pseudogene	KNOWN	None	27408	None	None	195384967	195412775	1	SDHAL2, SDHALP2	None
11	None	ENSG00000250640	ENST00000515189	processed_pseudogene	KNOWN	None	None	None	None	15009217	15010240	-1	None	None
1	None	ENSG00000272088	ENST00000606489	lincRNA	KNOWN	None	None	None	None	3403810	3404191	1	None	None
2	None	ENSG00000227004	ENST00000416706	processed_pseudogene	KNOWN	None	None	None	None	200736895	200737101	1	None	None
2	CIAO1	ENSG00000144021	ENST00000488633	protein_coding	KNOWN	CCDS2019	14280	1020	339	96931870	96937383	1	WDR39	CIA1
2	CIAO1	ENSG00000144021	ENST00000469320	processed_transcript	KNOWN	None	14280	None	None	96931897	96933416	1	WDR39	CIA1
2	CIAO1	ENSG00000144021	ENST00000272402	retained_intron	KNOWN	None	14280	None	None	96931979	96939087	1	WDR39	CIA1
2	CIAO1	ENSG00000144021	ENST00000491394	retained_intron	KNOWN	None	14280	None	None	96931984	96933717	1	WDR39	CIA1
16	CCDC102A	ENSG00000135736	ENST00000258214	protein_coding	KNOWN	CCDS10784	28097	1653	550	57546090	57570511	-1	None	MGC10992
16	CCDC102A	ENSG00000135736	ENST00000569068	retained_intron	KNOWN	None	28097	None	None	57546299	57550494	-1	None	MGC10992
14	IGHVII-62-1	ENSG00000253747	ENST00000519283	IG_V_pseudogene	KNOWN	None	5687	None	None	107106555	107106789	-1	None	IGHV(II)-62-1
15	HNRNPA1P74	ENSG00000259550	ENST00000560782	processed_pseudogene	KNOWN	None	48804	None	None	54612929	54613763	-1	None	None
11	AMICA1	ENSG00000160593	ENST00000356289	protein_coding	KNOWN	CCDS41723	19084	1185	394	118064455	118095809	-1	None	Gm638, AMICA
11	AMICA1	ENSG00000160593	ENST00000292067	protein_coding	KNOWN	CCDS8391	19084	1155	384	118064678	118084074	-1	None	Gm638, AMICA
11	AMICA1	ENSG00000160593	ENST00000534294	retained_intron	KNOWN	None	19084	None	None	118064680	118095709	-1	None	Gm638, AMICA
11	AMICA1	ENSG00000160593	ENST00000533261	protein_coding	NOVEL	None	19084	1152	383	118064709	118085606	-1	None	Gm638, AMICA
11	AMICA1	ENSG00000160593	ENST00000526595	nonsense_mediated_decay	KNOWN	None	19084	918	305	118064719	118084071	-1	None	Gm638, AMICA
11	AMICA1	ENSG00000160593	ENST00000531530	retained_intron	KNOWN	None	19084	None	None	118064792	118076105	-1	None	Gm638, AMICA
11	AMICA1	ENSG00000160593	ENST00000526620	protein_coding	PUTATIVE	None	19084	1068	355	118064880	118095736	-1	None	Gm638, AMICA
11	AMICA1	ENSG00000160593	ENST00000529164	retained_intron	KNOWN	None	19084	None	None	118068324	118095726	-1	None	Gm638, AMICA
11	AMICA1	ENSG00000160593	ENST00000531536	retained_intron	KNOWN	None	19084	None	None	118076374	118083185	-1	None	Gm638, AMICA
11	AMICA1	ENSG00000160593	ENST00000524477	protein_coding	PUTATIVE	None	19084	362	119	118076652	118083600	-1	None	Gm638, AMICA
11	AMICA1	ENSG00000160593	ENST00000527877	nonsense_mediated_decay	KNOWN	None	19084	201	66	118076664	118095807	-1	None	Gm638, AMICA
11	AMICA1	ENSG00000160593	ENST00000525565	protein_coding	KNOWN	None	19084	465	154	118076666	118094802	-1	None	Gm638, AMICA
5	None	ENSG00000251118	ENST00000505098	processed_pseudogene	KNOWN	None	None	None	None	115106283	115106686	1	None	None
1	LMO4	ENSG00000143013	ENST00000370544	protein_coding	KNOWN	CCDS713	6644	498	165	87794151	87814606	1	None	None
1	LMO4	ENSG00000143013	ENST00000495705	processed_transcript	KNOWN	None	6644	None	None	87794782	87805315	1	None	None
1	LMO4	ENSG00000143013	ENST00000370542	protein_coding	KNOWN	CCDS713	6644	498	165	87797351	87811091	1	None	None
1	LMO4	ENSG00000143013	ENST00000489303	processed_transcript	KNOWN	None	6644	None	None	87797464	87810698	1	None	None
15	None	ENSG00000201509	ENST00000364639	misc_RNA	NOVEL	None	None	None	None	38834444	38834544	1	None	None
5	CDH9	ENSG00000113100	ENST00000231021	protein_coding	KNOWN	CCDS3893	1768	2370	789	26880709	27038693	-1	None	None
5	CDH9	ENSG00000113100	ENST00000505020	retained_intron	KNOWN	None	1768	None	None	26880795	26890942	-1	None	None
5	CDH9	ENSG00000113100	ENST00000505045	retained_intron	KNOWN	None	1768	None	None	26903117	27038693	-1	None	None
5	CDH9	ENSG00000113100	ENST00000513289	protein_coding	KNOWN	None	1768	398	131	26915863	27121257	-1	None	None
5	CDH9	ENSG00000113100	ENST00000511822	protein_coding	KNOWN	None	1768	245	80	26916016	27038690	-1	None	None
17	MRPS23	ENSG00000181610	ENST00000313608	protein_coding	KNOWN	CCDS11598	14509	573	190	55916842	55927417	-1	None	MRP-S23, CGI-138, HSPC329
17	MRPS23	ENSG00000181610	ENST00000578444	protein_coding	PUTATIVE	None	14509	459	152	55918161	55927405	-1	None	MRP-S23, CGI-138, HSPC329
17	MRPS23	ENSG00000181610	ENST00000579380	protein_coding	PUTATIVE	None	14509	185	60	55918365	55927417	-1	None	MRP-S23, CGI-138, HSPC329
17	MRPS23	ENSG00000181610	ENST00000579768	retained_intron	KNOWN	None	14509	None	None	55926097	55927358	-1	None	MRP-S23, CGI-138, HSPC329
15	None	ENSG00000261779	ENST00000563568	antisense	KNOWN	None	None	None	None	75503642	75504508	-1	None	None
X	ZNF711	ENSG00000147180	ENST00000373165	protein_coding	KNOWN	CCDS35344	13128	2286	761	84499038	84528366	1	ZNF6	CMPX1, ZNF4, ZNF5, dJ75N13.1, Zfp711
X	ZNF711	ENSG00000147180	ENST00000276123	protein_coding	KNOWN	CCDS35344	13128	2286	761	84499090	84526927	1	ZNF6	CMPX1, ZNF4, ZNF5, dJ75N13.1, Zfp711
X	ZNF711	ENSG00000147180	ENST00000360700	protein_coding	NOVEL	None	13128	2424	807	84499771	84528368	1	ZNF6	CMPX1, ZNF4, ZNF5, dJ75N13.1, Zfp711
X	ZNF711	ENSG00000147180	ENST00000395402	protein_coding	KNOWN	None	13128	2310	769	84498997	84528366	1	ZNF6	CMPX1, ZNF4, ZNF5, dJ75N13.1, Zfp711
X	ZNF711	ENSG00000147180	ENST00000542798	protein_coding	KNOWN	None	13128	1812	603	84510737	84527239	1	ZNF6	CMPX1, ZNF4, ZNF5, dJ75N13.1, Zfp711
19	KLK6	ENSG00000167755	ENST00000376851	protein_coding	KNOWN	CCDS12811	6367	735	244	51461887	51472228	-1	PRSS9, PRSS18	Bssp, Klk7, neurosin
19	KLK6	ENSG00000167755	ENST00000310157	protein_coding	KNOWN	CCDS12811	6367	735	244	51461887	51472929	-1	PRSS9, PRSS18	Bssp, Klk7, neurosin
19	KLK6	ENSG00000167755	ENST00000597379	nonsense_mediated_decay	KNOWN	None	6367	123	40	51461888	51472929	-1	PRSS9, PRSS18	Bssp, Klk7, neurosin
19	KLK6	ENSG00000167755	ENST00000594641	protein_coding	KNOWN	CCDS12811	6367	735	244	51462405	51471452	-1	PRSS9, PRSS18	Bssp, Klk7, neurosin
19	KLK6	ENSG00000167755	ENST00000599881	nonsense_mediated_decay	KNOWN	None	6367	123	40	51462414	51472023	-1	PRSS9, PRSS18	Bssp, Klk7, neurosin
19	KLK6	ENSG00000167755	ENST00000599690	nonsense_mediated_decay	KNOWN	None	6367	210	69	51462414	51472023	-1	PRSS9, PRSS18	Bssp, Klk7, neurosin
19	KLK6	ENSG00000167755	ENST00000376853	protein_coding	KNOWN	None	6367	363	120	51462405	51471371	-1	PRSS9, PRSS18	Bssp, Klk7, neurosin
19	KLK6	ENSG00000167755	ENST00000391808	protein_coding	KNOWN	CCDS42599	6367	414	137	51461888	51472047	-1	PRSS9, PRSS18	Bssp, Klk7, neurosin
19	KLK6	ENSG00000167755	ENST00000456750	protein_coding	KNOWN	CCDS42599	6367	414	137	51462405	51466681	-1	PRSS9, PRSS18	Bssp, Klk7, neurosin
19	KLK6	ENSG00000167755	ENST00000424910	protein_coding	KNOWN	None	6367	123	40	51466723	51471371	-1	PRSS9, PRSS18	Bssp, Klk7, neurosin
X	None	ENSG00000229322	ENST00000456494	processed_pseudogene	KNOWN	None	None	None	None	148730843	148731793	-1	None	None
2	RN7SL717P	ENSG00000240302	ENST00000478343	misc_RNA	KNOWN	None	46733	None	None	200765806	200766100	-1	None	None
3	None	ENSG00000225026	ENST00000419844	processed_pseudogene	KNOWN	None	None	None	None	12369502	12369773	1	None	None
16	None	ENSG00000262185	ENST00000576810	sense_overlapping	KNOWN	None	None	None	None	3997610	4000445	-1	None	None
11	THYN1	ENSG00000151500	ENST00000392595	protein_coding	KNOWN	CCDS8496	29560	678	225	134118173	134123142	-1	None	THY28
11	THYN1	ENSG00000151500	ENST00000341541	protein_coding	KNOWN	CCDS8496	29560	678	225	134118173	134123238	-1	None	THY28
11	THYN1	ENSG00000151500	ENST00000392594	protein_coding	KNOWN	CCDS8496	29560	678	225	134118173	134123264	-1	None	THY28
11	THYN1	ENSG00000151500	ENST00000352327	protein_coding	KNOWN	CCDS8497	29560	501	166	134118182	134123244	-1	None	THY28
11	THYN1	ENSG00000151500	ENST00000531135	retained_intron	KNOWN	None	29560	None	None	134118776	134123247	-1	None	THY28
11	THYN1	ENSG00000151500	ENST00000533975	retained_intron	KNOWN	None	29560	None	None	134118933	134123242	-1	None	THY28
11	THYN1	ENSG00000151500	ENST00000533781	retained_intron	KNOWN	None	29560	None	None	134119783	134121672	-1	None	THY28
11	THYN1	ENSG00000151500	ENST00000525677	processed_transcript	KNOWN	None	29560	None	None	134121125	134123195	-1	None	THY28
2	None	ENSG00000201649	ENST00000364779	misc_RNA	NOVEL	None	None	None	None	201237898	201237992	1	None	None
14	IGHV3-63	ENSG00000253936	ENST00000518422	IG_V_pseudogene	KNOWN	None	5616	None	None	107108252	107108696	-1	None	None
12	RNA5SP375	ENSG00000199845	ENST00000362975	rRNA	KNOWN	None	43275	None	None	123767463	123767581	-1	RN5S375	None
2	None	ENSG00000264798	ENST00000581684	miRNA	NOVEL	None	None	None	None	201251898	201251987	1	None	None
12	None	ENSG00000270113	ENST00000602688	lincRNA	KNOWN	None	None	None	None	123773656	123774230	-1	None	None
5	RNU2-49P	ENSG00000222598	ENST00000410666	snRNA	KNOWN	None	48542	None	None	115110016	115110199	-1	None	None
8	None	ENSG00000252505	ENST00000516696	snoRNA	NOVEL	None	None	None	None	33397558	33397655	1	None	None
8	CA13	ENSG00000185015	ENST00000517831	processed_transcript	KNOWN	None	14914	None	None	86132816	86163026	1	None	CAXIII, FLJ37995, MGC59868
8	CA13	ENSG00000185015	ENST00000517298	processed_transcript	KNOWN	None	14914	None	None	86132845	86180856	1	None	CAXIII, FLJ37995, MGC59868
8	CA13	ENSG00000185015	ENST00000522631	processed_transcript	KNOWN	None	14914	None	None	86133156	86142565	1	None	CAXIII, FLJ37995, MGC59868
8	CA13	ENSG00000185015	ENST00000518392	retained_intron	KNOWN	None	14914	None	None	86142392	86142944	1	None	CAXIII, FLJ37995, MGC59868
8	CA13	ENSG00000185015	ENST00000321764	protein_coding	KNOWN	CCDS6236	14914	789	262	86157756	86196302	1	None	CAXIII, FLJ37995, MGC59868
11	None	ENSG00000253072	ENST00000517263	snoRNA	NOVEL	None	None	None	None	15503354	15503439	-1	None	None
5	None	ENSG00000248295	ENST00000510713	processed_pseudogene	KNOWN	None	None	None	None	115310210	115311972	-1	None	None
19	TMEM145	ENSG00000167619	ENST00000595775	retained_intron	KNOWN	None	26912	None	None	42817477	42819089	1	None	FLJ90805
19	TMEM145	ENSG00000167619	ENST00000301204	protein_coding	KNOWN	CCDS12603	26912	1482	493	42817488	42829214	1	None	FLJ90805
19	TMEM145	ENSG00000167619	ENST00000598766	protein_coding	PUTATIVE	None	26912	1467	488	42817529	42825941	1	None	FLJ90805
19	TMEM145	ENSG00000167619	ENST00000601020	processed_transcript	KNOWN	None	26912	None	None	42818424	42819154	1	None	FLJ90805
19	TMEM145	ENSG00000167619	ENST00000601644	protein_coding	PUTATIVE	None	26912	237	78	42824511	42825927	1	None	FLJ90805
1	MIR551A	ENSG00000207776	ENST00000385042	miRNA	KNOWN	None	32806	None	None	3477259	3477354	-1	MIRN551A	hsa-mir-551a
15	None	ENSG00000259747	ENST00000560203	lincRNA	KNOWN	None	None	None	None	38964048	38981392	1	None	None
15	None	ENSG00000259747	ENST00000557946	lincRNA	KNOWN	None	None	None	None	38964056	38970209	1	None	None
8	None	ENSG00000253682	ENST00000518042	lincRNA	KNOWN	None	None	None	None	93415773	93425873	-1	None	None
19	PRTN3	ENSG00000196415	ENST00000234347	protein_coding	KNOWN	CCDS32860	9495	771	256	840963	848175	1	None	PR-3, ACPA, C-ANCA, AGP7, MBT, P29
19	PRTN3	ENSG00000196415	ENST00000544537	protein_coding	PUTATIVE	None	9495	648	215	843341	848175	1	None	PR-3, ACPA, C-ANCA, AGP7, MBT, P29
12	None	ENSG00000207189	ENST00000384460	misc_RNA	NOVEL	None	None	None	None	123833546	123833647	-1	None	None
11	None	ENSG00000254946	ENST00000527770	lincRNA	KNOWN	None	None	None	None	15574401	15612644	1	None	None
HG745_PATCH	ARHGAP23	ENSG00000260374	ENST00000562697	protein_coding	KNOWN	None	29293	3435	1144	36584721	36668629	1	None	KIAA1501
HG745_PATCH	ARHGAP23	ENSG00000260374	ENST00000565569	protein_coding	PUTATIVE	None	29293	307	101	36613645	36622514	1	None	KIAA1501
HG745_PATCH	ARHGAP23	ENSG00000260374	ENST00000564689	nonsense_mediated_decay	KNOWN	None	29293	390	129	36625822	36638385	1	None	KIAA1501
HG745_PATCH	ARHGAP23	ENSG00000260374	ENST00000562972	protein_coding	NOVEL	None	29293	408	135	36646703	36666297	1	None	KIAA1501
HG745_PATCH	ARHGAP23	ENSG00000260374	ENST00000568601	retained_intron	KNOWN	None	29293	None	None	36654036	36657367	1	None	KIAA1501
16	None	ENSG00000263159	ENST00000571169	antisense	KNOWN	None	None	None	None	4082013	4082937	1	None	None
12	None	ENSG00000256092	ENST00000602918	lincRNA	KNOWN	None	None	None	None	123848415	123850334	1	None	None
12	None	ENSG00000256092	ENST00000543072	lincRNA	KNOWN	None	None	None	None	123849500	123850660	1	None	None
3	RNU6-404P	ENSG00000251777	ENST00000515968	snRNA	KNOWN	None	47367	None	None	12543122	12543203	-1	None	None
5	KLF3P1	ENSG00000253218	ENST00000521506	processed_pseudogene	KNOWN	None	41518	None	None	171681422	171682443	-1	None	None
8	None	ENSG00000253995	ENST00000519384	processed_pseudogene	KNOWN	None	None	None	None	33397703	33398011	1	None	None
9	SARDH	ENSG00000123453	ENST00000371872	protein_coding	KNOWN	CCDS6978	10536	2757	918	136528682	136605042	-1	DMGDHL1	SDH
9	SARDH	ENSG00000123453	ENST00000371868	protein_coding	KNOWN	None	10536	1107	368	136528686	136568823	-1	DMGDHL1	SDH
9	SARDH	ENSG00000123453	ENST00000469828	processed_transcript	KNOWN	None	10536	None	None	136529094	136532245	-1	DMGDHL1	SDH
9	SARDH	ENSG00000123453	ENST00000427237	protein_coding	KNOWN	None	10536	1825	607	136559476	136603477	-1	DMGDHL1	SDH
9	SARDH	ENSG00000123453	ENST00000371867	protein_coding	KNOWN	None	10536	852	283	136583444	136599165	-1	DMGDHL1	SDH
9	SARDH	ENSG00000123453	ENST00000439388	protein_coding	KNOWN	CCDS6978	10536	2757	918	136528686	136603479	-1	DMGDHL1	SDH
9	SARDH	ENSG00000123453	ENST00000422262	protein_coding	KNOWN	None	10536	2253	750	136529004	136605077	-1	DMGDHL1	SDH
9	SARDH	ENSG00000123453	ENST00000298628	protein_coding	KNOWN	None	10536	1191	396	136590244	136605046	-1	DMGDHL1	SDH
10	None	ENSG00000238957	ENST00000459472	miRNA	NOVEL	None	None	None	None	44529988	44530059	1	None	None
15	None	ENSG00000264950	ENST00000579710	miRNA	NOVEL	None	None	None	None	75518212	75518312	1	None	None
X	None	ENSG00000264746	ENST00000584512	miRNA	NOVEL	None	None	None	None	24366926	24367023	1	None	None
5	None	ENSG00000221778	ENST00000408851	miRNA	NOVEL	None	None	None	None	115365715	115365808	1	None	None
10	None	ENSG00000237590	ENST00000437014	lincRNA	KNOWN	None	None	None	None	44755050	44757261	-1	None	None
2	None	ENSG00000244301	ENST00000491025	unitary_pseudogene	KNOWN	None	None	None	None	201542956	201597262	1	None	None
2	None	ENSG00000244301	ENST00000479041	processed_transcript	KNOWN	None	None	None	None	201560446	201603504	1	None	None
2	None	ENSG00000244301	ENST00000467633	processed_transcript	KNOWN	None	None	None	None	201560457	201565095	1	None	None
2	None	ENSG00000244301	ENST00000484406	processed_transcript	KNOWN	None	None	None	None	201560562	201596038	1	None	None
2	None	ENSG00000244301	ENST00000469595	processed_transcript	KNOWN	None	None	None	None	201593649	201598832	1	None	None
3	MIR570	ENSG00000207650	ENST00000384917	miRNA	KNOWN	None	32826	None	None	195426272	195426368	1	MIRN570	hsa-mir-570
5	None	ENSG00000220996	ENST00000408069	miRNA	NOVEL	None	None	None	None	115378868	115378958	-1	None	None
16	None	ENSG00000261367	ENST00000566190	antisense	KNOWN	None	None	None	None	30118996	30121862	1	None	None
15	None	ENSG00000260660	ENST00000563803	antisense	KNOWN	None	None	None	None	75519094	75522031	-1	None	None
15	None	ENSG00000260660	ENST00000567079	antisense	KNOWN	None	None	None	None	75521659	75526292	-1	None	None
X	None	ENSG00000228833	ENST00000422068	unprocessed_pseudogene	KNOWN	None	None	None	None	148839458	148839556	1	None	None
X	SUPT20HL1	ENSG00000223731	ENST00000436466	processed_pseudogene	KNOWN	None	30773	None	None	24380878	24383495	1	FAM48B1	None
X	SUPT20HL1	ENSG00000223731	ENST00000413856	processed_pseudogene	KNOWN	None	30773	None	None	24380878	24383541	1	FAM48B1	None
HSCHR6_MHC_QBL	PBX2	ENSG00000206315	ENST00000383270	protein_coding	KNOWN	None	8633	1293	430	32110133	32115584	-1	None	G17, HOX12, PBX2MHC
HSCHR6_MHC_QBL	PBX2	ENSG00000206315	ENST00000487027	retained_intron	KNOWN	None	8633	None	None	32111653	32112912	-1	None	G17, HOX12, PBX2MHC
HSCHR6_MHC_QBL	PBX2	ENSG00000206315	ENST00000489815	retained_intron	KNOWN	None	8633	None	None	32112370	32115340	-1	None	G17, HOX12, PBX2MHC
HSCHR6_MHC_QBL	PBX2	ENSG00000206315	ENST00000462393	retained_intron	KNOWN	None	8633	None	None	32112630	32114214	-1	None	G17, HOX12, PBX2MHC
HSCHR6_MHC_QBL	PBX2	ENSG00000206315	ENST00000466603	retained_intron	KNOWN	None	8633	None	None	32113677	32114475	-1	None	G17, HOX12, PBX2MHC
HSCHR6_MHC_QBL	PBX2	ENSG00000206315	ENST00000551651	protein_coding	KNOWN	None	8633	1332	443	32111099	32115354	-1	None	G17, HOX12, PBX2MHC
HSCHR6_MHC_QBL	PBX2	ENSG00000206315	ENST00000550532	protein_coding	KNOWN	None	8633	1317	438	32111099	32115574	-1	None	G17, HOX12, PBX2MHC
HSCHR6_MHC_QBL	PBX2	ENSG00000206315	ENST00000546984	protein_coding	KNOWN	None	8633	1392	463	32111099	32115574	-1	None	G17, HOX12, PBX2MHC
16	None	ENSG00000262471	ENST00000572673	processed_pseudogene	KNOWN	None	None	None	None	4180556	4180821	1	None	None
22	PARP4P3	ENSG00000249263	ENST00000510265	transcribed_unprocessed_pseudogene	KNOWN	None	274	None	None	17134782	17140518	-1	ADPRTL4	None
5	None	ENSG00000222732	ENST00000410800	miRNA	NOVEL	None	None	None	None	171706206	171706319	1	None	None
10	None	ENSG00000229116	ENST00000452578	antisense	KNOWN	None	None	None	None	44787706	44789157	-1	None	None
3	ZNF197	ENSG00000186448	ENST00000412641	protein_coding	KNOWN	None	12988	236	77	44626380	44670882	1	ZNF166	P18, D3S1363E, ZKSCAN9, ZSCAN41
3	ZNF197	ENSG00000186448	ENST00000383744	protein_coding	NOVEL	CCDS33743	12988	804	267	44666511	44688996	1	ZNF166	P18, D3S1363E, ZKSCAN9, ZSCAN41
3	ZNF197	ENSG00000186448	ENST00000344387	protein_coding	KNOWN	CCDS2717	12988	3090	1029	44666532	44685712	1	ZNF166	P18, D3S1363E, ZKSCAN9, ZSCAN41
3	ZNF197	ENSG00000186448	ENST00000383745	protein_coding	NOVEL	CCDS33743	12988	804	267	44666541	44689963	1	ZNF166	P18, D3S1363E, ZKSCAN9, ZSCAN41
3	ZNF197	ENSG00000186448	ENST00000334075	nonsense_mediated_decay	KNOWN	None	12988	522	173	44666587	44689270	1	ZNF166	P18, D3S1363E, ZKSCAN9, ZSCAN41
3	ZNF197	ENSG00000186448	ENST00000396058	protein_coding	KNOWN	CCDS2717	12988	3090	1029	44670480	44686754	1	ZNF166	P18, D3S1363E, ZKSCAN9, ZSCAN41
3	None	ENSG00000223783	ENST00000444346	lincRNA	KNOWN	None	None	None	None	195563064	195581099	-1	None	None
3	None	ENSG00000223783	ENST00000413586	lincRNA	KNOWN	None	None	None	None	195563205	195563916	-1	None	None
3	None	ENSG00000223783	ENST00000429834	lincRNA	KNOWN	None	None	None	None	195563211	195587275	-1	None	None
1	None	ENSG00000238260	ENST00000435049	antisense	KNOWN	None	None	None	None	3539754	3541307	-1	None	None
5	None	ENSG00000185641	ENST00000469891	processed_pseudogene	KNOWN	None	None	None	None	115387614	115387986	-1	None	None
5	None	ENSG00000185641	ENST00000327878	processed_pseudogene	KNOWN	None	None	None	None	115387607	115387981	-1	None	None
16	None	ENSG00000261416	ENST00000568506	antisense	KNOWN	None	None	None	None	30194826	30195844	-1	None	None
16	None	ENSG00000261416	ENST00000566144	antisense	KNOWN	None	None	None	None	30194857	30195884	-1	None	None
16	None	ENSG00000261416	ENST00000567153	antisense	KNOWN	None	None	None	None	30195383	30196278	-1	None	None
18	LINC00908	ENSG00000263812	ENST00000578092	protein_coding	PUTATIVE	None	27599	102	33	74240612	74270177	1	None	None
18	LINC00908	ENSG00000263812	ENST00000578613	protein_coding	PUTATIVE	None	27599	183	60	74240612	74271783	1	None	None
18	LINC00908	ENSG00000263812	ENST00000583578	protein_coding	PUTATIVE	None	27599	153	50	74240677	74322925	1	None	None
18	LINC00908	ENSG00000263812	ENST00000584910	protein_coding	PUTATIVE	None	27599	144	47	74240781	74314842	1	None	None
18	LINC00908	ENSG00000263812	ENST00000582452	protein_coding	PUTATIVE	None	27599	108	35	74240874	74274170	1	None	None
18	LINC00908	ENSG00000263812	ENST00000584120	processed_transcript	PUTATIVE	None	27599	None	None	74255544	74270549	1	None	None
7	None	ENSG00000226002	ENST00000441415	unprocessed_pseudogene	KNOWN	None	None	None	None	64544481	64560610	1	None	None
14	IGHV3-65	ENSG00000253209	ENST00000523210	IG_V_pseudogene	KNOWN	None	5618	None	None	107122108	107122548	-1	None	None
10	None	ENSG00000226676	ENST00000429070	lincRNA	KNOWN	None	None	None	None	81388513	81391944	-1	None	None
10	None	ENSG00000226676	ENST00000421256	lincRNA	KNOWN	None	None	None	None	81390511	81391942	-1	None	None
9	CKS2	ENSG00000123975	ENST00000314355	protein_coding	KNOWN	CCDS6682	2000	240	79	91926113	91931618	1	None	None
12	None	ENSG00000270445	ENST00000605712	processed_pseudogene	KNOWN	None	None	None	None	123926064	123926399	-1	None	None
22	ANKRD62P1-PARP4P3	ENSG00000189295	ENST00000456726	lincRNA	KNOWN	None	42393	None	None	17134956	17156430	-1	None	VWFP1-ANKRD62P1-PARP4P3
22	ANKRD62P1-PARP4P3	ENSG00000189295	ENST00000457060	lincRNA	KNOWN	None	42393	None	None	17150354	17156342	-1	None	VWFP1-ANKRD62P1-PARP4P3
22	ANKRD62P1-PARP4P3	ENSG00000189295	ENST00000423580	lincRNA	KNOWN	None	42393	None	None	17156906	17175538	-1	None	VWFP1-ANKRD62P1-PARP4P3
22	ANKRD62P1-PARP4P3	ENSG00000189295	ENST00000338526	lincRNA	KNOWN	None	42393	None	None	17154451	17160374	-1	None	VWFP1-ANKRD62P1-PARP4P3
8	None	ENSG00000253749	ENST00000523385	lincRNA	KNOWN	None	None	None	None	93433078	93434026	-1	None	None
12	MIR3908	ENSG00000266655	ENST00000579798	miRNA	KNOWN	None	38991	None	None	124020956	124021081	1	None	hsa-mir-3908
16	None	ENSG00000263105	ENST00000573220	lincRNA	KNOWN	None	None	None	None	4230118	4233516	-1	None	None
2	INPP4A	ENSG00000040933	ENST00000409016	protein_coding	KNOWN	CCDS46370	6074	2817	938	99061317	99207263	1	INPP4	None
2	INPP4A	ENSG00000040933	ENST00000409851	protein_coding	KNOWN	CCDS46371	6074	2919	972	99061321	99204124	1	INPP4	None
2	INPP4A	ENSG00000040933	ENST00000409463	protein_coding	PUTATIVE	None	6074	921	306	99061321	99204322	1	INPP4	None
2	INPP4A	ENSG00000040933	ENST00000409540	protein_coding	KNOWN	CCDS46372	6074	2865	954	99061413	99198284	1	INPP4	None
2	INPP4A	ENSG00000040933	ENST00000463367	retained_intron	KNOWN	None	6074	None	None	99135610	99138229	1	INPP4	None
2	INPP4A	ENSG00000040933	ENST00000523221	protein_coding	KNOWN	CCDS46369	6074	2934	977	99136512	99204071	1	INPP4	None
2	INPP4A	ENSG00000040933	ENST00000468638	retained_intron	KNOWN	None	6074	None	None	99170888	99172585	1	INPP4	None
2	INPP4A	ENSG00000040933	ENST00000467042	processed_transcript	KNOWN	None	6074	None	None	99182491	99186293	1	INPP4	None
2	INPP4A	ENSG00000040933	ENST00000498026	processed_transcript	KNOWN	None	6074	None	None	99188360	99204036	1	INPP4	None
2	INPP4A	ENSG00000040933	ENST00000074304	protein_coding	KNOWN	CCDS46369	6074	2934	977	99061321	99207496	1	INPP4	None
2	INPP4A	ENSG00000040933	ENST00000545415	protein_coding	KNOWN	None	6074	2817	938	99061321	99207496	1	INPP4	None
3	None	ENSG00000235836	ENST00000454055	processed_pseudogene	KNOWN	None	None	None	None	195570857	195571467	1	None	None
14	IGHVII-65-1	ENSG00000253169	ENST00000519992	IG_V_pseudogene	KNOWN	None	5688	None	None	107127813	107128060	-1	None	IGHV(II)-65-1
10	None	ENSG00000244733	ENST00000479920	lincRNA	KNOWN	None	None	None	None	81420645	81430911	1	None	None
10	None	ENSG00000244733	ENST00000482985	lincRNA	KNOWN	None	None	None	None	81420647	81437248	1	None	None
HG987_PATCH	None	ENSG00000260839	ENST00000564425	unprocessed_pseudogene	KNOWN	None	None	None	None	21560488	21560940	-1	None	None
16	None	ENSG00000262468	ENST00000573042	lincRNA	KNOWN	None	None	None	None	4295826	4303790	-1	None	None
16	None	ENSG00000262468	ENST00000571970	lincRNA	KNOWN	None	None	None	None	4296375	4301499	-1	None	None
16	None	ENSG00000262468	ENST00000573268	lincRNA	KNOWN	None	None	None	None	4296567	4303780	-1	None	None
8	None	ENSG00000253371	ENST00000521955	lincRNA	KNOWN	None	None	None	None	93512811	93522044	-1	None	None
15	None	ENSG00000203576	ENST00000366387	pseudogene	NOVEL	None	None	None	None	44575957	44576117	1	None	None
12	None	ENSG00000247373	ENST00000498967	lincRNA	KNOWN	None	None	None	None	124066767	124069662	-1	None	None
5	None	ENSG00000216127	ENST00000401308	miRNA	NOVEL	None	None	None	None	171866667	171866758	-1	None	None
HG183_PATCH	None	ENSG00000263516	ENST00000579747	miRNA	NOVEL	None	None	None	None	62608135	62608217	-1	None	None
11	CD151	ENSG00000177697	ENST00000397420	protein_coding	KNOWN	CCDS7719	1630	762	253	832843	838829	1	None	SFA-1, PETA-3, TSPAN24, RAPH
11	CD151	ENSG00000177697	ENST00000525718	protein_coding	KNOWN	None	1630	276	91	832887	836442	1	None	SFA-1, PETA-3, TSPAN24, RAPH
11	CD151	ENSG00000177697	ENST00000530155	retained_intron	KNOWN	None	1630	None	None	832952	836480	1	None	SFA-1, PETA-3, TSPAN24, RAPH
11	CD151	ENSG00000177697	ENST00000529810	protein_coding	NOVEL	None	1630	535	177	832961	837613	1	None	SFA-1, PETA-3, TSPAN24, RAPH
11	CD151	ENSG00000177697	ENST00000526693	protein_coding	KNOWN	None	1630	528	175	832969	837531	1	None	SFA-1, PETA-3, TSPAN24, RAPH
11	CD151	ENSG00000177697	ENST00000525333	protein_coding	KNOWN	None	1630	239	78	832986	836405	1	None	SFA-1, PETA-3, TSPAN24, RAPH
11	CD151	ENSG00000177697	ENST00000525868	retained_intron	KNOWN	None	1630	None	None	832986	836525	1	None	SFA-1, PETA-3, TSPAN24, RAPH
11	CD151	ENSG00000177697	ENST00000531999	retained_intron	KNOWN	None	1630	None	None	832986	836539	1	None	SFA-1, PETA-3, TSPAN24, RAPH
11	CD151	ENSG00000177697	ENST00000524748	protein_coding	KNOWN	None	1630	541	179	832994	837544	1	None	SFA-1, PETA-3, TSPAN24, RAPH
11	CD151	ENSG00000177697	ENST00000527341	protein_coding	KNOWN	None	1630	541	179	832994	837544	1	None	SFA-1, PETA-3, TSPAN24, RAPH
11	CD151	ENSG00000177697	ENST00000526661	retained_intron	KNOWN	None	1630	None	None	832997	837023	1	None	SFA-1, PETA-3, TSPAN24, RAPH
11	CD151	ENSG00000177697	ENST00000530726	nonsense_mediated_decay	KNOWN	CCDS7719	1630	762	253	833009	838831	1	None	SFA-1, PETA-3, TSPAN24, RAPH
11	CD151	ENSG00000177697	ENST00000532045	retained_intron	KNOWN	None	1630	None	None	834527	838835	1	None	SFA-1, PETA-3, TSPAN24, RAPH
11	CD151	ENSG00000177697	ENST00000528867	protein_coding	KNOWN	None	1630	270	89	834872	836436	1	None	SFA-1, PETA-3, TSPAN24, RAPH
11	CD151	ENSG00000177697	ENST00000530320	protein_coding	KNOWN	None	1630	510	169	835194	837513	1	None	SFA-1, PETA-3, TSPAN24, RAPH
11	CD151	ENSG00000177697	ENST00000526439	protein_coding	KNOWN	None	1630	194	63	835551	836360	1	None	SFA-1, PETA-3, TSPAN24, RAPH
11	CD151	ENSG00000177697	ENST00000528011	protein_coding	NOVEL	None	1630	756	251	836063	838798	1	None	SFA-1, PETA-3, TSPAN24, RAPH
11	CD151	ENSG00000177697	ENST00000532075	retained_intron	KNOWN	None	1630	None	None	836803	838016	1	None	SFA-1, PETA-3, TSPAN24, RAPH
11	CD151	ENSG00000177697	ENST00000525181	processed_transcript	PUTATIVE	None	1630	None	None	838180	839831	1	None	SFA-1, PETA-3, TSPAN24, RAPH
11	CD151	ENSG00000177697	ENST00000322008	protein_coding	KNOWN	CCDS7719	1630	762	253	832952	838834	1	None	SFA-1, PETA-3, TSPAN24, RAPH
11	CD151	ENSG00000177697	ENST00000397421	protein_coding	KNOWN	CCDS7719	1630	762	253	832952	838834	1	None	SFA-1, PETA-3, TSPAN24, RAPH
5	None	ENSG00000254299	ENST00000517916	lincRNA	KNOWN	None	None	None	None	171984395	171986017	-1	None	None
14	None	ENSG00000259124	ENST00000554926	lincRNA	KNOWN	None	None	None	None	76961706	77193055	-1	None	None
1	None	ENSG00000227589	ENST00000443034	antisense	KNOWN	None	None	None	None	3575502	3585336	-1	None	None
6	PPIL4	ENSG00000131013	ENST00000253329	protein_coding	KNOWN	CCDS34550	15702	1479	492	149825869	149867174	-1	None	None
6	PPIL4	ENSG00000131013	ENST00000340881	protein_coding	KNOWN	None	15702	384	127	149826411	149839000	-1	None	None
HG987_PATCH	None	ENSG00000260225	ENST00000564042	unprocessed_pseudogene	KNOWN	None	None	None	None	21581398	21581730	1	None	None
14	IGHV1-67	ENSG00000253274	ENST00000519713	IG_V_pseudogene	KNOWN	None	5556	None	None	107136620	107137059	-1	None	None
8	None	ENSG00000253884	ENST00000518796	processed_pseudogene	KNOWN	None	None	None	None	43101898	43102078	-1	None	None
5	None	ENSG00000253683	ENST00000520566	processed_pseudogene	KNOWN	None	None	None	None	172083525	172083716	-1	None	None
18	None	ENSG00000264278	ENST00000585258	protein_coding	PUTATIVE	None	None	177	58	74506688	74534251	-1	None	None
3	None	ENSG00000224614	ENST00000458180	antisense	KNOWN	None	None	None	None	195634947	195638128	1	None	None
15	None	ENSG00000203575	ENST00000366386	pseudogene	NOVEL	None	None	None	None	44589782	44590272	1	None	None
5	MIR5003	ENSG00000265160	ENST00000581891	miRNA	KNOWN	None	43512	None	None	172089168	172089266	1	None	hsa-mir-5003
12	None	ENSG00000206897	ENST00000384170	snoRNA	NOVEL	None	None	None	None	124101255	124101387	1	None	None
7	INTS4L1	ENSG00000164669	ENST00000587624	processed_transcript	KNOWN	None	21925	None	None	64601603	64694594	1	None	FLJ25037
7	INTS4L1	ENSG00000164669	ENST00000438455	transcribed_unprocessed_pseudogene	KNOWN	None	21925	None	None	64601619	64661022	1	None	FLJ25037
7	INTS4L1	ENSG00000164669	ENST00000297235	unprocessed_pseudogene	KNOWN	None	21925	None	None	64601603	64694600	1	None	FLJ25037
8	None	ENSG00000255166	ENST00000525383	processed_pseudogene	KNOWN	None	None	None	None	43102334	43102553	1	None	None
5	None	ENSG00000272265	ENST00000605999	lincRNA	KNOWN	None	None	None	None	115413807	115414267	-1	None	None
5	None	ENSG00000253445	ENST00000519976	antisense	KNOWN	None	None	None	None	172117457	172124723	-1	None	None
3	None	ENSG00000226155	ENST00000448113	antisense	KNOWN	None	None	None	None	195638920	195640857	1	None	None
3	None	ENSG00000226155	ENST00000424819	antisense	KNOWN	None	None	None	None	195638965	195640135	1	None	None
8	None	ENSG00000258256	ENST00000546501	protein_coding	PUTATIVE	None	None	267	88	86134675	86141245	-1	None	None
8	None	ENSG00000258256	ENST00000549291	processed_transcript	KNOWN	None	None	None	None	86134960	86157946	-1	None	None
5	None	ENSG00000271918	ENST00000606662	antisense	KNOWN	None	None	None	None	115419504	115421113	-1	None	None
17	OLA1P2	ENSG00000213671	ENST00000395519	processed_pseudogene	KNOWN	None	45277	None	None	20678955	20680218	1	None	None
17	HSD17B1	ENSG00000108786	ENST00000585807	protein_coding	KNOWN	CCDS11428	5210	987	328	40701232	40707231	1	EDHB17, EDH17B2	HSD17, MGC138140, SDR28C1
17	HSD17B1	ENSG00000108786	ENST00000593215	retained_intron	KNOWN	None	5210	None	None	40704940	40706256	1	EDHB17, EDH17B2	HSD17, MGC138140, SDR28C1
17	HSD17B1	ENSG00000108786	ENST00000587280	retained_intron	KNOWN	None	5210	None	None	40704941	40706069	1	EDHB17, EDH17B2	HSD17, MGC138140, SDR28C1
17	HSD17B1	ENSG00000108786	ENST00000590299	nonsense_mediated_decay	KNOWN	None	5210	450	149	40704941	40707111	1	EDHB17, EDH17B2	HSD17, MGC138140, SDR28C1
17	HSD17B1	ENSG00000108786	ENST00000225929	protein_coding	NOVEL	None	5210	990	329	40704952	40707231	1	EDHB17, EDH17B2	HSD17, MGC138140, SDR28C1
12	ZNF84	ENSG00000198040	ENST00000543758	protein_coding	KNOWN	None	13159	2214	737	133613887	133636192	1	None	HPF2
12	ZNF84	ENSG00000198040	ENST00000539354	protein_coding	KNOWN	CCDS31940	13159	2217	738	133613976	133636192	1	None	HPF2
12	ZNF84	ENSG00000198040	ENST00000542874	protein_coding	KNOWN	None	13159	202	66	133613978	133625398	1	None	HPF2
12	ZNF84	ENSG00000198040	ENST00000438628	protein_coding	KNOWN	None	13159	208	68	133613980	133625404	1	None	HPF2
12	ZNF84	ENSG00000198040	ENST00000540031	protein_coding	KNOWN	None	13159	710	235	133614065	133634011	1	None	HPF2
12	ZNF84	ENSG00000198040	ENST00000539098	retained_intron	KNOWN	None	13159	None	None	133614089	133624890	1	None	HPF2
12	ZNF84	ENSG00000198040	ENST00000539686	retained_intron	KNOWN	None	13159	None	None	133614111	133624942	1	None	HPF2
12	ZNF84	ENSG00000198040	ENST00000536123	protein_coding	KNOWN	None	13159	165	54	133614116	133625361	1	None	HPF2
12	ZNF84	ENSG00000198040	ENST00000327668	protein_coding	KNOWN	CCDS31940	13159	2217	738	133614166	133639883	1	None	HPF2
12	ZNF84	ENSG00000198040	ENST00000543310	protein_coding	KNOWN	None	13159	234	77	133615461	133625430	1	None	HPF2
12	ZNF84	ENSG00000198040	ENST00000545299	protein_coding	KNOWN	None	13159	18	5	133615474	133618071	1	None	HPF2
12	ZNF84	ENSG00000198040	ENST00000542358	retained_intron	KNOWN	None	13159	None	None	133617020	133624942	1	None	HPF2
12	ZNF84	ENSG00000198040	ENST00000441040	retained_intron	KNOWN	None	13159	None	None	133617864	133625417	1	None	HPF2
12	ZNF84	ENSG00000198040	ENST00000538726	processed_transcript	KNOWN	None	13159	None	None	133617864	133633588	1	None	HPF2
12	ZNF84	ENSG00000198040	ENST00000535439	protein_coding	PUTATIVE	None	13159	438	145	133617871	133639885	1	None	HPF2
12	ZNF84	ENSG00000198040	ENST00000543124	retained_intron	KNOWN	None	13159	None	None	133624207	133633918	1	None	HPF2
12	ZNF84	ENSG00000198040	ENST00000455093	retained_intron	KNOWN	None	13159	None	None	133624535	133633670	1	None	HPF2
12	ZNF84	ENSG00000198040	ENST00000392319	protein_coding	KNOWN	CCDS31940	13159	2217	738	133613878	133639884	1	None	HPF2
15	None	ENSG00000260937	ENST00000569661	lincRNA	KNOWN	None	None	None	None	55348945	55384371	1	None	None
15	None	ENSG00000260937	ENST00000570158	lincRNA	KNOWN	None	None	None	None	55380197	55384371	1	None	None
15	None	ENSG00000196274	ENST00000360440	pseudogene	NOVEL	None	None	None	None	44595115	44595293	-1	None	None
12	None	ENSG00000255839	ENST00000538837	lincRNA	KNOWN	None	None	None	None	124192149	124192933	-1	None	None
HSCHR17_4_CTG4	KRT40	ENSG00000262845	ENST00000576064	nonsense_mediated_decay	KNOWN	None	26707	711	236	39134095	39143380	-1	None	FLJ36600, KA36
HSCHR17_4_CTG4	KRT40	ENSG00000262845	ENST00000576967	protein_coding	KNOWN	None	26707	1296	431	39134261	39143514	-1	None	FLJ36600, KA36
5	RNU6-644P	ENSG00000212457	ENST00000391155	snRNA	KNOWN	None	47607	None	None	115524152	115524249	-1	None	None
7	ASS1P11	ENSG00000225308	ENST00000441309	processed_pseudogene	KNOWN	None	761	None	None	21259832	21261047	-1	ASSP11	TCAG_1641141
12	ESYT1	ENSG00000139641	ENST00000551790	protein_coding	PUTATIVE	None	29534	264	87	56512034	56524883	1	FAM62A	MBC2, KIAA0747
12	ESYT1	ENSG00000139641	ENST00000394048	protein_coding	KNOWN	CCDS8904	29534	3315	1104	56521840	56538455	1	FAM62A	MBC2, KIAA0747
12	ESYT1	ENSG00000139641	ENST00000267113	protein_coding	KNOWN	CCDS53801	29534	3345	1114	56522051	56537825	1	FAM62A	MBC2, KIAA0747
12	ESYT1	ENSG00000139641	ENST00000550986	processed_transcript	KNOWN	None	29534	None	None	56524117	56525070	1	FAM62A	MBC2, KIAA0747
12	ESYT1	ENSG00000139641	ENST00000550179	retained_intron	KNOWN	None	29534	None	None	56524639	56526074	1	FAM62A	MBC2, KIAA0747
12	ESYT1	ENSG00000139641	ENST00000547667	retained_intron	KNOWN	None	29534	None	None	56531126	56532219	1	FAM62A	MBC2, KIAA0747
12	ESYT1	ENSG00000139641	ENST00000550878	processed_transcript	KNOWN	None	29534	None	None	56531810	56536715	1	FAM62A	MBC2, KIAA0747
12	ESYT1	ENSG00000139641	ENST00000551112	retained_intron	KNOWN	None	29534	None	None	56532300	56536205	1	FAM62A	MBC2, KIAA0747
12	ESYT1	ENSG00000139641	ENST00000548142	retained_intron	KNOWN	None	29534	None	None	56532714	56536801	1	FAM62A	MBC2, KIAA0747
12	ESYT1	ENSG00000139641	ENST00000550515	retained_intron	KNOWN	None	29534	None	None	56537267	56538175	1	FAM62A	MBC2, KIAA0747
12	ESYT1	ENSG00000139641	ENST00000541590	protein_coding	KNOWN	CCDS53801	29534	3345	1114	56522051	56538452	1	FAM62A	MBC2, KIAA0747
19	RPL18A	ENSG00000105640	ENST00000222247	protein_coding	KNOWN	CCDS12367	10311	531	176	17970685	17974125	1	None	L18A
19	RPL18A	ENSG00000105640	ENST00000600147	protein_coding	NOVEL	None	10311	465	154	17970730	17974962	1	None	L18A
19	RPL18A	ENSG00000105640	ENST00000599898	protein_coding	NOVEL	None	10311	414	137	17970741	17974124	1	None	L18A
19	RPL18A	ENSG00000105640	ENST00000602216	retained_intron	KNOWN	None	10311	None	None	17970762	17972986	1	None	L18A
19	RPL18A	ENSG00000105640	ENST00000597648	protein_coding	PUTATIVE	None	10311	424	140	17970934	17974052	1	None	L18A
19	RPL18A	ENSG00000105640	ENST00000599870	protein_coding	PUTATIVE	None	10311	444	147	17971572	17974113	1	None	L18A
19	RPL18A	ENSG00000105640	ENST00000600238	retained_intron	KNOWN	None	10311	None	None	17972142	17973716	1	None	L18A
14	None	ENSG00000271423	ENST00000604815	processed_pseudogene	KNOWN	None	None	None	None	77100057	77100371	1	None	None
5	HMGN2P27	ENSG00000232916	ENST00000427352	processed_pseudogene	KNOWN	None	39394	None	None	115553723	115553992	-1	None	None
1	None	ENSG00000235131	ENST00000416554	antisense	KNOWN	None	None	None	None	3628764	3630862	-1	None	None
X	None	ENSG00000225071	ENST00000419089	processed_pseudogene	KNOWN	None	None	None	None	24447690	24448037	-1	None	None
12	RPL27P12	ENSG00000239215	ENST00000472241	processed_pseudogene	KNOWN	None	36736	None	None	124205793	124206186	-1	None	None
5	None	ENSG00000250015	ENST00000507813	lincRNA	KNOWN	None	None	None	None	115638051	115639831	-1	None	None
16	SLX1A-SULT1A3	ENSG00000213599	ENST00000568997	retained_intron	KNOWN	None	44437	None	None	30205213	30215631	1	None	None
16	SLX1A-SULT1A3	ENSG00000213599	ENST00000565342	processed_transcript	KNOWN	None	44437	None	None	30205754	30215627	1	None	None
16	SLX1A-SULT1A3	ENSG00000213599	ENST00000561824	retained_intron	KNOWN	None	44437	None	None	30205766	30215627	1	None	None
16	SLX1A-SULT1A3	ENSG00000213599	ENST00000569959	retained_intron	KNOWN	None	44437	None	None	30205768	30215439	1	None	None
16	SLX1A-SULT1A3	ENSG00000213599	ENST00000567520	retained_intron	KNOWN	None	44437	None	None	30205820	30215631	1	None	None
16	SLX1A-SULT1A3	ENSG00000213599	ENST00000566712	retained_intron	KNOWN	None	44437	None	None	30207111	30215329	1	None	None
8	RNU6-596P	ENSG00000202265	ENST00000365395	snRNA	KNOWN	None	47559	None	None	58202111	58202208	1	None	None
5	RNA5SP181	ENSG00000222178	ENST00000410246	rRNA	KNOWN	None	43081	None	None	36485445	36485542	1	RN5S181	None
15	None	ENSG00000203574	ENST00000366385	pseudogene	NOVEL	None	None	None	None	44603029	44603177	-1	None	None
12	LMBR1L	ENSG00000139636	ENST00000417750	nonsense_mediated_decay	KNOWN	None	18268	225	74	49490919	49504464	-1	None	FLJ10494, KIAA1174
12	LMBR1L	ENSG00000139636	ENST00000267102	protein_coding	KNOWN	CCDS8780	18268	1470	489	49490919	49504681	-1	None	FLJ10494, KIAA1174
12	LMBR1L	ENSG00000139636	ENST00000552577	retained_intron	KNOWN	None	18268	None	None	49490920	49498162	-1	None	FLJ10494, KIAA1174
12	LMBR1L	ENSG00000139636	ENST00000547382	protein_coding	KNOWN	None	18268	1410	469	49490925	49504633	-1	None	FLJ10494, KIAA1174
12	LMBR1L	ENSG00000139636	ENST00000547698	protein_coding	NOVEL	None	18268	378	125	49490928	49495332	-1	None	FLJ10494, KIAA1174
12	LMBR1L	ENSG00000139636	ENST00000553040	nonsense_mediated_decay	KNOWN	None	18268	557	184	49490940	49495979	-1	None	FLJ10494, KIAA1174
12	LMBR1L	ENSG00000139636	ENST00000550867	retained_intron	KNOWN	None	18268	None	None	49490941	49504450	-1	None	FLJ10494, KIAA1174
12	LMBR1L	ENSG00000139636	ENST00000547813	retained_intron	KNOWN	None	18268	None	None	49491110	49495441	-1	None	FLJ10494, KIAA1174
12	LMBR1L	ENSG00000139636	ENST00000551272	retained_intron	KNOWN	None	18268	None	None	49491457	49494515	-1	None	FLJ10494, KIAA1174
12	LMBR1L	ENSG00000139636	ENST00000547670	nonsense_mediated_decay	KNOWN	None	18268	180	59	49491483	49504660	-1	None	FLJ10494, KIAA1174
12	LMBR1L	ENSG00000139636	ENST00000551143	retained_intron	KNOWN	None	18268	None	None	49491785	49496126	-1	None	FLJ10494, KIAA1174
12	LMBR1L	ENSG00000139636	ENST00000552449	protein_coding	NOVEL	None	18268	277	91	49494383	49495959	-1	None	FLJ10494, KIAA1174
12	LMBR1L	ENSG00000139636	ENST00000549429	processed_transcript	PUTATIVE	None	18268	None	None	49494542	49495284	-1	None	FLJ10494, KIAA1174
12	LMBR1L	ENSG00000139636	ENST00000552879	retained_intron	KNOWN	None	18268	None	None	49494886	49496903	-1	None	FLJ10494, KIAA1174
12	LMBR1L	ENSG00000139636	ENST00000552141	retained_intron	KNOWN	None	18268	None	None	49495703	49497561	-1	None	FLJ10494, KIAA1174
12	LMBR1L	ENSG00000139636	ENST00000457164	nonsense_mediated_decay	KNOWN	None	18268	462	153	49496136	49504633	-1	None	FLJ10494, KIAA1174
12	LMBR1L	ENSG00000139636	ENST00000547675	protein_coding	NOVEL	None	18268	461	152	49496259	49504458	-1	None	FLJ10494, KIAA1174
12	LMBR1L	ENSG00000139636	ENST00000551169	nonsense_mediated_decay	KNOWN	None	18268	119	38	49496864	49500794	-1	None	FLJ10494, KIAA1174
12	LMBR1L	ENSG00000139636	ENST00000549730	retained_intron	KNOWN	None	18268	None	None	49496886	49499863	-1	None	FLJ10494, KIAA1174
12	LMBR1L	ENSG00000139636	ENST00000552153	processed_transcript	KNOWN	None	18268	None	None	49497470	49504654	-1	None	FLJ10494, KIAA1174
12	LMBR1L	ENSG00000139636	ENST00000553204	processed_transcript	KNOWN	None	18268	None	None	49497484	49504476	-1	None	FLJ10494, KIAA1174
12	LMBR1L	ENSG00000139636	ENST00000550137	protein_coding	NOVEL	None	18268	239	78	49498253	49504628	-1	None	FLJ10494, KIAA1174
12	LMBR1L	ENSG00000139636	ENST00000551854	protein_coding	PUTATIVE	None	18268	424	140	49498257	49503988	-1	None	FLJ10494, KIAA1174
12	LMBR1L	ENSG00000139636	ENST00000549587	retained_intron	KNOWN	None	18268	None	None	49498277	49499015	-1	None	FLJ10494, KIAA1174
12	LMBR1L	ENSG00000139636	ENST00000549296	nonsense_mediated_decay	KNOWN	None	18268	150	49	49498282	49504633	-1	None	FLJ10494, KIAA1174
12	LMBR1L	ENSG00000139636	ENST00000551782	protein_coding	KNOWN	None	18268	380	125	49498286	49504669	-1	None	FLJ10494, KIAA1174
12	LMBR1L	ENSG00000139636	ENST00000550815	nonsense_mediated_decay	KNOWN	None	18268	225	74	49498534	49504460	-1	None	FLJ10494, KIAA1174
12	LMBR1L	ENSG00000139636	ENST00000551115	retained_intron	KNOWN	None	18268	None	None	49500206	49504667	-1	None	FLJ10494, KIAA1174
12	LMBR1L	ENSG00000139636	ENST00000551535	retained_intron	KNOWN	None	18268	None	None	49500372	49504683	-1	None	FLJ10494, KIAA1174
12	LMBR1L	ENSG00000139636	ENST00000548983	processed_transcript	KNOWN	None	18268	None	None	49500474	49504630	-1	None	FLJ10494, KIAA1174
12	LMBR1L	ENSG00000139636	ENST00000395141	protein_coding	KNOWN	None	18268	1455	484	49490954	49500469	-1	None	FLJ10494, KIAA1174
17	VPS53	ENSG00000141252	ENST00000437048	protein_coding	KNOWN	CCDS45558	25608	2499	832	411908	618096	-1	None	FLJ10979, HCCS1
17	VPS53	ENSG00000141252	ENST00000574029	protein_coding	PUTATIVE	None	25608	438	145	420622	618070	-1	None	FLJ10979, HCCS1
17	VPS53	ENSG00000141252	ENST00000576149	processed_transcript	KNOWN	None	25608	None	None	422193	579647	-1	None	FLJ10979, HCCS1
17	VPS53	ENSG00000141252	ENST00000541903	processed_transcript	KNOWN	None	25608	None	None	422359	426235	-1	None	FLJ10979, HCCS1
17	VPS53	ENSG00000141252	ENST00000570771	retained_intron	KNOWN	None	25608	None	None	423095	436233	-1	None	FLJ10979, HCCS1
17	VPS53	ENSG00000141252	ENST00000573028	nonsense_mediated_decay	KNOWN	None	25608	651	216	435208	618096	-1	None	FLJ10979, HCCS1
17	VPS53	ENSG00000141252	ENST00000291074	protein_coding	KNOWN	CCDS10995	25608	2013	670	435558	618083	-1	None	FLJ10979, HCCS1
17	VPS53	ENSG00000141252	ENST00000571805	protein_coding	KNOWN	None	25608	2100	699	435948	618086	-1	None	FLJ10979, HCCS1
17	VPS53	ENSG00000141252	ENST00000401468	protein_coding	PUTATIVE	None	25608	1269	422	436067	617949	-1	None	FLJ10979, HCCS1
17	VPS53	ENSG00000141252	ENST00000389040	nonsense_mediated_decay	KNOWN	None	25608	1644	547	436067	617949	-1	None	FLJ10979, HCCS1
17	VPS53	ENSG00000141252	ENST00000570359	retained_intron	KNOWN	None	25608	None	None	439664	442444	-1	None	FLJ10979, HCCS1
17	VPS53	ENSG00000141252	ENST00000572607	retained_intron	KNOWN	None	25608	None	None	454874	465926	-1	None	FLJ10979, HCCS1
17	VPS53	ENSG00000141252	ENST00000570650	protein_coding	PUTATIVE	None	25608	714	237	504120	531471	-1	None	FLJ10979, HCCS1
17	VPS53	ENSG00000141252	ENST00000572334	processed_transcript	KNOWN	None	25608	None	None	534790	588435	-1	None	FLJ10979, HCCS1
17	VPS53	ENSG00000141252	ENST00000576019	protein_coding	PUTATIVE	None	25608	204	67	556566	624957	-1	None	FLJ10979, HCCS1
17	VPS53	ENSG00000141252	ENST00000575207	processed_transcript	KNOWN	None	25608	None	None	560669	618031	-1	None	FLJ10979, HCCS1
17	VPS53	ENSG00000141252	ENST00000575100	retained_intron	KNOWN	None	25608	None	None	576936	578907	-1	None	FLJ10979, HCCS1
17	VPS53	ENSG00000141252	ENST00000572259	retained_intron	KNOWN	None	25608	None	None	577607	579585	-1	None	FLJ10979, HCCS1
17	VPS53	ENSG00000141252	ENST00000570510	processed_transcript	KNOWN	None	25608	None	None	600658	617753	-1	None	FLJ10979, HCCS1
17	VPS53	ENSG00000141252	ENST00000571456	processed_transcript	KNOWN	None	25608	None	None	608865	618054	-1	None	FLJ10979, HCCS1
17	VPS53	ENSG00000141252	ENST00000446250	protein_coding	KNOWN	None	25608	1506	501	435208	618096	-1	None	FLJ10979, HCCS1
3	RN7SL773P	ENSG00000266730	ENST00000584533	misc_RNA	KNOWN	None	46789	None	None	195647715	195648000	-1	None	None
16	None	ENSG00000262686	ENST00000576080	lincRNA	KNOWN	None	None	None	None	4374668	4378341	-1	None	None
3	None	ENSG00000270096	ENST00000602835	antisense	KNOWN	None	None	None	None	169512750	169514001	1	None	None
14	None	ENSG00000242952	ENST00000464073	transcribed_processed_pseudogene	KNOWN	None	None	None	None	77101118	77102004	-1	None	None
9	TBC1D2	ENSG00000095383	ENST00000375063	protein_coding	KNOWN	CCDS59137	18026	1407	468	100961311	100975832	-1	None	PARIS1, TBC1D2A, Armus
9	TBC1D2	ENSG00000095383	ENST00000375064	protein_coding	KNOWN	None	18026	2583	860	100961311	101017862	-1	None	PARIS1, TBC1D2A, Armus
9	TBC1D2	ENSG00000095383	ENST00000342112	protein_coding	KNOWN	None	18026	2133	710	100961311	101017872	-1	None	PARIS1, TBC1D2A, Armus
9	TBC1D2	ENSG00000095383	ENST00000375066	protein_coding	KNOWN	CCDS35080	18026	2754	917	100961311	101017915	-1	None	PARIS1, TBC1D2A, Armus
9	TBC1D2	ENSG00000095383	ENST00000493589	processed_transcript	KNOWN	None	18026	None	None	100970957	100991365	-1	None	PARIS1, TBC1D2A, Armus
9	TBC1D2	ENSG00000095383	ENST00000465784	processed_transcript	KNOWN	None	18026	None	None	100972944	101017908	-1	None	PARIS1, TBC1D2A, Armus
8	None	ENSG00000253871	ENST00000519714	lincRNA	KNOWN	None	None	None	None	58256346	58277416	1	None	None
8	None	ENSG00000253871	ENST00000521446	lincRNA	KNOWN	None	None	None	None	58256366	58259402	1	None	None
3	RNU2-11P	ENSG00000239122	ENST00000459191	snRNA	KNOWN	None	48504	None	None	195655460	195655646	-1	None	None
8	None	ENSG00000253312	ENST00000523940	processed_pseudogene	KNOWN	None	None	None	None	43106854	43107001	1	None	None
10	None	ENSG00000215020	ENST00000374258	protein_coding	NOVEL	None	None	486	161	48255279	48279199	1	None	None
5	None	ENSG00000256121	ENST00000542571	pseudogene	NOVEL	None	None	None	None	115780104	115780830	-1	None	None
12	None	ENSG00000270028	ENST00000602952	antisense	KNOWN	None	None	None	None	124410008	124410630	-1	None	None
17	SCDP1	ENSG00000226549	ENST00000455244	processed_pseudogene	KNOWN	None	10572	None	None	20687958	20689038	1	SCDP	None
HG905_PATCH	ZMYND11	ENSG00000260150	ENST00000568174	protein_coding	NOVEL	None	16966	421	139	184465	287651	1	None	BS69
HG905_PATCH	ZMYND11	ENSG00000260150	ENST00000563851	protein_coding	KNOWN	None	16966	1704	567	184703	299261	1	None	BS69
HG905_PATCH	ZMYND11	ENSG00000260150	ENST00000565311	protein_coding	KNOWN	None	16966	1809	602	185069	304637	1	None	BS69
HG905_PATCH	ZMYND11	ENSG00000260150	ENST00000562898	protein_coding	NOVEL	None	16966	1569	522	185484	302470	1	None	BS69
HG905_PATCH	ZMYND11	ENSG00000260150	ENST00000562457	protein_coding	NOVEL	None	16966	1716	571	185509	304634	1	None	BS69
HG905_PATCH	ZMYND11	ENSG00000260150	ENST00000564303	protein_coding	PUTATIVE	None	16966	640	212	229994	287663	1	None	BS69
HG905_PATCH	ZMYND11	ENSG00000260150	ENST00000568927	protein_coding	NOVEL	None	16966	1758	585	229994	303256	1	None	BS69
HG905_PATCH	ZMYND11	ENSG00000260150	ENST00000569902	retained_intron	KNOWN	None	16966	None	None	289962	296999	1	None	BS69
HG905_PATCH	ZMYND11	ENSG00000260150	ENST00000562528	processed_transcript	KNOWN	None	16966	None	None	294471	298531	1	None	BS69
12	RNU6-735P	ENSG00000222544	ENST00000410612	snRNA	KNOWN	None	47698	None	None	95832513	95832619	-1	None	None
3	None	ENSG00000231443	ENST00000429866	processed_pseudogene	KNOWN	None	None	None	None	195664114	195665610	1	None	None
15	None	ENSG00000203573	ENST00000366384	pseudogene	NOVEL	None	None	None	None	44603873	44604051	1	None	None
16	None	ENSG00000262712	ENST00000574705	sense_intronic	KNOWN	None	None	None	None	4385871	4387819	-1	None	None
19	ZNF507	ENSG00000168813	ENST00000311921	protein_coding	KNOWN	CCDS32985	23783	2862	953	32836500	32878571	1	None	KIAA1084
19	ZNF507	ENSG00000168813	ENST00000587084	processed_transcript	KNOWN	None	23783	None	None	32836531	32850699	1	None	KIAA1084
19	ZNF507	ENSG00000168813	ENST00000544431	protein_coding	NOVEL	None	23783	2874	957	32836578	32876671	1	None	KIAA1084
19	ZNF507	ENSG00000168813	ENST00000355898	protein_coding	KNOWN	CCDS32985	23783	2862	953	32836625	32874160	1	None	KIAA1084
19	ZNF507	ENSG00000168813	ENST00000586664	retained_intron	KNOWN	None	23783	None	None	32872938	32874154	1	None	KIAA1084
14	None	ENSG00000222489	ENST00000410557	snoRNA	KNOWN	None	None	None	None	20791338	20791485	-1	None	None
12	None	ENSG00000270005	ENST00000602292	antisense	KNOWN	None	None	None	None	124420169	124420753	-1	None	None
X	SNRPEP9	ENSG00000214124	ENST00000436794	processed_pseudogene	KNOWN	None	43574	None	None	24531567	24531804	1	None	None
19	None	ENSG00000213013	ENST00000492022	processed_pseudogene	KNOWN	None	None	None	None	58727546	58727927	1	None	None
17	None	ENSG00000264215	ENST00000578585	lincRNA	KNOWN	None	None	None	None	20691384	20692897	1	None	None
11	PKP3	ENSG00000184363	ENST00000534401	protein_coding	PUTATIVE	None	9025	229	75	392614	397198	1	None	None
11	PKP3	ENSG00000184363	ENST00000533249	protein_coding	PUTATIVE	None	9025	593	196	393449	397655	1	None	None
11	PKP3	ENSG00000184363	ENST00000527442	protein_coding	PUTATIVE	None	9025	360	119	393463	397329	1	None	None
11	PKP3	ENSG00000184363	ENST00000528036	protein_coding	PUTATIVE	None	9025	469	155	394145	397438	1	None	None
11	PKP3	ENSG00000184363	ENST00000331563	protein_coding	KNOWN	CCDS7695	9025	2394	797	394217	404908	1	None	None
11	PKP3	ENSG00000184363	ENST00000533069	retained_intron	KNOWN	None	9025	None	None	394243	396915	1	None	None
11	PKP3	ENSG00000184363	ENST00000531857	protein_coding	NOVEL	None	9025	637	211	394243	397312	1	None	None
11	PKP3	ENSG00000184363	ENST00000530695	processed_transcript	KNOWN	None	9025	None	None	396151	396985	1	None	None
11	PKP3	ENSG00000184363	ENST00000524646	retained_intron	KNOWN	None	9025	None	None	397372	397776	1	None	None
11	PKP3	ENSG00000184363	ENST00000526971	retained_intron	KNOWN	None	9025	None	None	397630	400260	1	None	None
11	PKP3	ENSG00000184363	ENST00000525642	protein_coding	PUTATIVE	None	9025	347	114	404087	404681	1	None	None
4	GUF1	ENSG00000151806	ENST00000506793	processed_transcript	KNOWN	None	25799	None	None	44680444	44702776	1	None	FLJ13220
4	GUF1	ENSG00000151806	ENST00000281543	protein_coding	KNOWN	CCDS3468	25799	2010	669	44680446	44702943	1	None	FLJ13220
4	GUF1	ENSG00000151806	ENST00000513775	nonsense_mediated_decay	KNOWN	None	25799	297	98	44680511	44691426	1	None	FLJ13220
4	GUF1	ENSG00000151806	ENST00000511493	processed_transcript	KNOWN	None	25799	None	None	44696426	44702696	1	None	FLJ13220
3	None	ENSG00000260261	ENST00000570130	lincRNA	KNOWN	None	None	None	None	195676059	195679566	-1	None	None
X	None	ENSG00000224692	ENST00000413929	processed_pseudogene	KNOWN	None	None	None	None	102513500	102514509	-1	None	None
3	KRT18P43	ENSG00000240128	ENST00000469825	processed_pseudogene	KNOWN	None	33413	None	None	169620768	169622048	-1	None	None
5	None	ENSG00000248445	ENST00000512128	antisense	KNOWN	None	None	None	None	115783243	115785557	1	None	None
5	None	ENSG00000248445	ENST00000508424	antisense	KNOWN	None	None	None	None	115783299	115807369	1	None	None
5	None	ENSG00000248445	ENST00000510682	antisense	KNOWN	None	None	None	None	115785320	115843972	1	None	None
5	None	ENSG00000248445	ENST00000508640	antisense	KNOWN	None	None	None	None	115785324	115831817	1	None	None
5	None	ENSG00000248445	ENST00000514214	antisense	KNOWN	None	None	None	None	115785426	115834850	1	None	None
5	None	ENSG00000248445	ENST00000507558	antisense	KNOWN	None	None	None	None	115806886	115808334	1	None	None
17	None	ENSG00000264662	ENST00000580630	processed_pseudogene	KNOWN	None	None	None	None	20692530	20692908	-1	None	None
12	None	ENSG00000270130	ENST00000602347	sense_intronic	KNOWN	None	None	None	None	124445264	124445791	-1	None	None
2	AOX2P	ENSG00000243478	ENST00000502600	processed_transcript	KNOWN	None	18450	None	None	201560640	201612763	1	AOX2	AOH2
2	AOX2P	ENSG00000243478	ENST00000487742	unitary_pseudogene	KNOWN	None	18450	None	None	201603331	201656353	1	AOX2	AOH2
2	AOX2P	ENSG00000243478	ENST00000472376	processed_transcript	KNOWN	None	18450	None	None	201605544	201619790	1	AOX2	AOH2
2	AOX2P	ENSG00000243478	ENST00000470911	processed_transcript	KNOWN	None	18450	None	None	201616248	201626938	1	AOX2	AOH2
2	AOX2P	ENSG00000243478	ENST00000467645	processed_transcript	KNOWN	None	18450	None	None	201627031	201658962	1	AOX2	AOH2
9	SEC61B	ENSG00000106803	ENST00000498603	protein_coding	PUTATIVE	None	16993	129	42	101984346	101992897	1	None	None
9	SEC61B	ENSG00000106803	ENST00000223641	protein_coding	KNOWN	CCDS6741	16993	291	96	101984583	101992897	1	None	None
9	SEC61B	ENSG00000106803	ENST00000481573	processed_transcript	KNOWN	None	16993	None	None	101984597	101985462	1	None	None
7	RNU1-15P	ENSG00000195024	ENST00000353977	snRNA	KNOWN	None	10140	None	None	21420981	21421124	1	RNU1P8	U1P11
17	ABHD17AP6	ENSG00000226981	ENST00000458502	unprocessed_pseudogene	KNOWN	None	34044	None	None	20717933	20747570	1	FAM108A7P	None
19	None	ENSG00000268866	ENST00000596836	processed_pseudogene	KNOWN	None	None	None	None	58735872	58736835	1	None	None
7	None	ENSG00000229949	ENST00000440420	processed_pseudogene	KNOWN	None	None	None	None	21440538	21441231	-1	None	None
2	SLC8A1	ENSG00000183023	ENST00000406785	protein_coding	KNOWN	CCDS46264	11068	2814	937	40339286	40679209	-1	NCX1	None
2	SLC8A1	ENSG00000183023	ENST00000407929	nonsense_mediated_decay	KNOWN	None	11068	1995	664	40341871	40657411	-1	NCX1	None
2	SLC8A1	ENSG00000183023	ENST00000403092	protein_coding	KNOWN	CCDS1806	11068	2922	973	40342171	40739501	-1	NCX1	None
2	SLC8A1	ENSG00000183023	ENST00000405901	protein_coding	NOVEL	CCDS46265	11068	2907	968	40342185	40657444	-1	NCX1	None
2	SLC8A1	ENSG00000183023	ENST00000402441	protein_coding	KNOWN	CCDS46264	11068	2814	937	40342253	40739575	-1	NCX1	None
2	SLC8A1	ENSG00000183023	ENST00000405269	protein_coding	KNOWN	CCDS46264	11068	2814	937	40342390	40838193	-1	NCX1	None
2	SLC8A1	ENSG00000183023	ENST00000455476	protein_coding	KNOWN	None	11068	261	86	40657160	40680578	-1	NCX1	None
2	SLC8A1	ENSG00000183023	ENST00000448531	protein_coding	KNOWN	None	11068	261	86	40657160	40739575	-1	NCX1	None
2	SLC8A1	ENSG00000183023	ENST00000417271	protein_coding	KNOWN	None	11068	220	72	40657201	40679148	-1	NCX1	None
2	SLC8A1	ENSG00000183023	ENST00000542756	protein_coding	KNOWN	None	11068	2907	968	40339286	40657444	-1	NCX1	None
2	SLC8A1	ENSG00000183023	ENST00000332839	protein_coding	KNOWN	CCDS1806	11068	2922	973	40342393	40657420	-1	NCX1	None
2	SLC8A1	ENSG00000183023	ENST00000408028	protein_coding	KNOWN	CCDS59430	11068	2898	965	40342393	40657420	-1	NCX1	None
2	SLC8A1	ENSG00000183023	ENST00000406391	protein_coding	KNOWN	CCDS46264	11068	2814	937	40342393	40657420	-1	NCX1	None
2	SLC8A1	ENSG00000183023	ENST00000542024	protein_coding	KNOWN	None	11068	2814	937	40342393	40657420	-1	NCX1	None
17	FKBP10	ENSG00000141756	ENST00000585664	protein_coding	PUTATIVE	None	18169	516	171	39968932	39974748	1	None	hFKBP65, FLJ22041, FKBP6, FLJ20683, FLJ23833
17	FKBP10	ENSG00000141756	ENST00000585922	protein_coding	KNOWN	None	18169	513	170	39968947	39974462	1	None	hFKBP65, FLJ22041, FKBP6, FLJ20683, FLJ23833
17	FKBP10	ENSG00000141756	ENST00000429461	protein_coding	PUTATIVE	None	18169	243	80	39969042	39974372	1	None	hFKBP65, FLJ22041, FKBP6, FLJ20683, FLJ23833
17	FKBP10	ENSG00000141756	ENST00000321562	protein_coding	KNOWN	CCDS11409	18169	1749	582	39969183	39979465	1	None	hFKBP65, FLJ22041, FKBP6, FLJ20683, FLJ23833
17	FKBP10	ENSG00000141756	ENST00000489591	nonsense_mediated_decay	KNOWN	None	18169	444	147	39969241	39979463	1	None	hFKBP65, FLJ22041, FKBP6, FLJ20683, FLJ23833
17	FKBP10	ENSG00000141756	ENST00000487489	retained_intron	KNOWN	None	18169	None	None	39975122	39975829	1	None	hFKBP65, FLJ22041, FKBP6, FLJ20683, FLJ23833
17	FKBP10	ENSG00000141756	ENST00000455106	protein_coding	NOVEL	None	18169	1160	385	39975507	39979465	1	None	hFKBP65, FLJ22041, FKBP6, FLJ20683, FLJ23833
17	FKBP10	ENSG00000141756	ENST00000490938	retained_intron	KNOWN	None	18169	None	None	39976255	39978545	1	None	hFKBP65, FLJ22041, FKBP6, FLJ20683, FLJ23833
17	FKBP10	ENSG00000141756	ENST00000464180	retained_intron	KNOWN	None	18169	None	None	39976695	39978792	1	None	hFKBP65, FLJ22041, FKBP6, FLJ20683, FLJ23833
17	FKBP10	ENSG00000141756	ENST00000544340	protein_coding	KNOWN	None	18169	1068	355	39975544	39979463	1	None	hFKBP65, FLJ22041, FKBP6, FLJ20683, FLJ23833
15	None	ENSG00000261841	ENST00000564932	lincRNA	KNOWN	None	None	None	None	22195622	22199970	1	None	None
17	TVP23B	ENSG00000171928	ENST00000307767	protein_coding	KNOWN	CCDS42274	20399	618	205	18684308	18710027	1	FAM18B, FAM18B1	CGI-148, YDR084C
17	TVP23B	ENSG00000171928	ENST00000574294	nonsense_mediated_decay	KNOWN	None	20399	162	53	18684424	18709208	1	FAM18B, FAM18B1	CGI-148, YDR084C
17	TVP23B	ENSG00000171928	ENST00000571018	nonsense_mediated_decay	KNOWN	None	20399	114	37	18684456	18708974	1	FAM18B, FAM18B1	CGI-148, YDR084C
17	TVP23B	ENSG00000171928	ENST00000574226	protein_coding	PUTATIVE	None	20399	612	203	18684468	18707929	1	FAM18B, FAM18B1	CGI-148, YDR084C
17	TVP23B	ENSG00000171928	ENST00000575261	protein_coding	PUTATIVE	None	20399	396	131	18684493	18707576	1	FAM18B, FAM18B1	CGI-148, YDR084C
17	TVP23B	ENSG00000171928	ENST00000582288	retained_intron	KNOWN	None	20399	None	None	18684600	18692982	1	FAM18B, FAM18B1	CGI-148, YDR084C
17	TVP23B	ENSG00000171928	ENST00000476139	protein_coding	PUTATIVE	None	20399	426	141	18684627	18710027	1	FAM18B, FAM18B1	CGI-148, YDR084C
17	TVP23B	ENSG00000171928	ENST00000581733	protein_coding	PUTATIVE	None	20399	426	141	18692348	18709515	1	FAM18B, FAM18B1	CGI-148, YDR084C
17	TVP23B	ENSG00000171928	ENST00000572845	retained_intron	KNOWN	None	20399	None	None	18692676	18702444	1	FAM18B, FAM18B1	CGI-148, YDR084C
17	TVP23B	ENSG00000171928	ENST00000482741	retained_intron	KNOWN	None	20399	None	None	18699119	18710027	1	FAM18B, FAM18B1	CGI-148, YDR084C
17	None	ENSG00000266369	ENST00000578888	antisense	KNOWN	None	None	None	None	20759259	20760630	1	None	None
8	None	ENSG00000250267	ENST00000504175	antisense	KNOWN	None	None	None	None	110310827	110328742	1	None	None
12	RASSF8-AS1	ENSG00000246695	ENST00000545729	antisense	KNOWN	None	48637	None	None	26092262	26112375	-1	None	None
12	RASSF8-AS1	ENSG00000246695	ENST00000500276	antisense	KNOWN	None	48637	None	None	26097790	26111511	-1	None	None
12	RASSF8-AS1	ENSG00000246695	ENST00000502069	antisense	KNOWN	None	48637	None	None	26105796	26112314	-1	None	None
12	RASSF8-AS1	ENSG00000246695	ENST00000545226	antisense	KNOWN	None	48637	None	None	26105941	26111975	-1	None	None
12	RASSF8-AS1	ENSG00000246695	ENST00000546134	antisense	KNOWN	None	48637	None	None	26107588	26110979	-1	None	None
12	RASSF8-AS1	ENSG00000246695	ENST00000542086	antisense	KNOWN	None	48637	None	None	26107738	26111998	-1	None	None
12	RASSF8-AS1	ENSG00000246695	ENST00000535436	antisense	KNOWN	None	48637	None	None	26107741	26112698	-1	None	None
12	RASSF8-AS1	ENSG00000246695	ENST00000500102	antisense	KNOWN	None	48637	None	None	26107854	26110518	-1	None	None
12	RASSF8-AS1	ENSG00000246695	ENST00000537801	antisense	KNOWN	None	48637	None	None	26107968	26111998	-1	None	None
17	None	ENSG00000249451	ENST00000502300	lincRNA	KNOWN	None	None	None	None	48580773	48585689	-1	None	None
14	SNORD126	ENSG00000238344	ENST00000459475	snoRNA	KNOWN	None	33565	None	None	20794609	20794685	-1	MIR1201, MIRN1201	hsa-mir-1201
8	None	ENSG00000254185	ENST00000518703	processed_pseudogene	KNOWN	None	None	None	None	110482360	110483346	1	None	None
8	None	ENSG00000253444	ENST00000522799	lincRNA	KNOWN	None	None	None	None	2350992	2369693	-1	None	None
10	ZNF488	ENSG00000165388	ENST00000395702	protein_coding	KNOWN	CCDS7217	23535	1023	340	48355024	48373866	1	None	FLJ32104
10	ZNF488	ENSG00000165388	ENST00000442001	protein_coding	KNOWN	None	23535	206	67	48355073	48370738	1	None	FLJ32104
10	ZNF488	ENSG00000165388	ENST00000433077	protein_coding	KNOWN	None	23535	314	103	48355073	48370846	1	None	FLJ32104
10	ZNF488	ENSG00000165388	ENST00000436850	protein_coding	KNOWN	None	23535	258	85	48355075	48370790	1	None	FLJ32104
10	ZNF488	ENSG00000165388	ENST00000494156	protein_coding	PUTATIVE	None	23535	219	72	48355101	48373866	1	None	FLJ32104
10	ZNF488	ENSG00000165388	ENST00000412534	protein_coding	KNOWN	None	23535	219	72	48359351	48370751	1	None	FLJ32104
10	ZNF488	ENSG00000165388	ENST00000444585	protein_coding	KNOWN	None	23535	389	128	48359365	48370921	1	None	FLJ32104
10	ZNF488	ENSG00000165388	ENST00000425196	protein_coding	KNOWN	None	23535	358	118	48364386	48370890	1	None	FLJ32104
10	ZNF488	ENSG00000165388	ENST00000586537	protein_coding	KNOWN	None	23535	702	233	48355101	48373860	1	None	FLJ32104
HG962_PATCH	None	ENSG00000265923	ENST00000582603	processed_transcript	PUTATIVE	None	None	None	None	70970105	70972736	-1	None	None
HG962_PATCH	None	ENSG00000265923	ENST00000584210	processed_transcript	PUTATIVE	None	None	None	None	70970105	70972768	-1	None	None
10	None	ENSG00000238276	ENST00000413810	retained_intron	KNOWN	None	None	None	None	120001076	120001586	1	None	None
10	None	ENSG00000238276	ENST00000431695	lincRNA	KNOWN	None	None	None	None	120001155	120007385	1	None	None
10	None	ENSG00000238276	ENST00000436975	lincRNA	KNOWN	None	None	None	None	120001157	120007385	1	None	None
10	None	ENSG00000238276	ENST00000436430	lincRNA	KNOWN	None	None	None	None	120001164	120027222	1	None	None
HSCHR6_MHC_COX	HLA-N	ENSG00000227334	ENST00000420984	unprocessed_pseudogene	KNOWN	None	19406	None	None	30308999	30309133	1	None	HLA-30
8	None	ENSG00000252559	ENST00000516750	snoRNA	NOVEL	None	None	None	None	110608472	110608543	-1	None	None
12	None	ENSG00000241556	ENST00000478358	processed_pseudogene	KNOWN	None	None	None	None	95861173	95861637	-1	None	None
16	None	ENSG00000261789	ENST00000563704	antisense	KNOWN	None	None	None	None	4610002	4611663	-1	None	None
15	None	ENSG00000261406	ENST00000568737	unprocessed_pseudogene	KNOWN	None	None	None	None	22268269	22269196	-1	None	None
8	None	ENSG00000255099	ENST00000530760	processed_pseudogene	KNOWN	None	None	None	None	110790141	110794517	1	None	None
17	ARHGAP27	ENSG00000159314	ENST00000532038	protein_coding	PUTATIVE	None	31813	2004	667	43471275	43487790	-1	SH3D20	CAMGAP1, FLJ43547, SH3P20
17	ARHGAP27	ENSG00000159314	ENST00000376922	protein_coding	KNOWN	CCDS11498	31813	1647	548	43471275	43502997	-1	SH3D20	CAMGAP1, FLJ43547, SH3P20
17	ARHGAP27	ENSG00000159314	ENST00000531735	retained_intron	KNOWN	None	31813	None	None	43471275	43509715	-1	SH3D20	CAMGAP1, FLJ43547, SH3P20
17	ARHGAP27	ENSG00000159314	ENST00000528384	protein_coding	NOVEL	None	31813	1566	521	43472309	43483300	-1	SH3D20	CAMGAP1, FLJ43547, SH3P20
17	ARHGAP27	ENSG00000159314	ENST00000590026	retained_intron	KNOWN	None	31813	None	None	43472793	43473274	-1	SH3D20	CAMGAP1, FLJ43547, SH3P20
17	ARHGAP27	ENSG00000159314	ENST00000581991	retained_intron	KNOWN	None	31813	None	None	43472821	43473529	-1	SH3D20	CAMGAP1, FLJ43547, SH3P20
17	ARHGAP27	ENSG00000159314	ENST00000532891	protein_coding	NOVEL	None	31813	2604	867	43472822	43507645	-1	SH3D20	CAMGAP1, FLJ43547, SH3P20
17	ARHGAP27	ENSG00000159314	ENST00000581638	retained_intron	KNOWN	None	31813	None	None	43473429	43474136	-1	SH3D20	CAMGAP1, FLJ43547, SH3P20
17	ARHGAP27	ENSG00000159314	ENST00000582826	processed_transcript	KNOWN	None	31813	None	None	43474571	43481034	-1	SH3D20	CAMGAP1, FLJ43547, SH3P20
17	ARHGAP27	ENSG00000159314	ENST00000529357	retained_intron	KNOWN	None	31813	None	None	43474880	43487752	-1	SH3D20	CAMGAP1, FLJ43547, SH3P20
17	ARHGAP27	ENSG00000159314	ENST00000526484	retained_intron	KNOWN	None	31813	None	None	43475331	43481552	-1	SH3D20	CAMGAP1, FLJ43547, SH3P20
17	ARHGAP27	ENSG00000159314	ENST00000524404	nonsense_mediated_decay	KNOWN	None	31813	234	77	43480080	43502982	-1	SH3D20	CAMGAP1, FLJ43547, SH3P20
17	ARHGAP27	ENSG00000159314	ENST00000532667	retained_intron	KNOWN	None	31813	None	None	43480140	43482068	-1	SH3D20	CAMGAP1, FLJ43547, SH3P20
17	ARHGAP27	ENSG00000159314	ENST00000528677	protein_coding	PUTATIVE	None	31813	642	213	43481811	43487792	-1	SH3D20	CAMGAP1, FLJ43547, SH3P20
17	ARHGAP27	ENSG00000159314	ENST00000527678	retained_intron	KNOWN	None	31813	None	None	43481841	43510219	-1	SH3D20	CAMGAP1, FLJ43547, SH3P20
17	ARHGAP27	ENSG00000159314	ENST00000579357	retained_intron	KNOWN	None	31813	None	None	43484899	43487751	-1	SH3D20	CAMGAP1, FLJ43547, SH3P20
17	ARHGAP27	ENSG00000159314	ENST00000528273	protein_coding	KNOWN	CCDS32670	31813	792	263	43506718	43511787	-1	SH3D20	CAMGAP1, FLJ43547, SH3P20
17	ARHGAP27	ENSG00000159314	ENST00000428638	protein_coding	KNOWN	None	31813	2670	889	43472822	43507645	-1	SH3D20	CAMGAP1, FLJ43547, SH3P20
17	ARHGAP27	ENSG00000159314	ENST00000442348	protein_coding	KNOWN	None	31813	2589	862	43472822	43507645	-1	SH3D20	CAMGAP1, FLJ43547, SH3P20
17	ARHGAP27	ENSG00000159314	ENST00000455881	protein_coding	KNOWN	CCDS11498	31813	1647	548	43472822	43487752	-1	SH3D20	CAMGAP1, FLJ43547, SH3P20
17	ARHGAP27	ENSG00000159314	ENST00000290470	protein_coding	KNOWN	CCDS32670	31813	792	263	43506719	43510282	-1	SH3D20	CAMGAP1, FLJ43547, SH3P20
16	SUB1P3	ENSG00000261612	ENST00000564581	processed_pseudogene	KNOWN	None	43993	None	None	4612815	4613129	-1	None	None
9	OLFML2A	ENSG00000185585	ENST00000331715	protein_coding	KNOWN	None	27270	954	317	127539437	127566515	1	None	FLJ00237
9	OLFML2A	ENSG00000185585	ENST00000373580	protein_coding	KNOWN	CCDS6857	27270	1959	652	127539550	127577157	1	None	FLJ00237
9	OLFML2A	ENSG00000185585	ENST00000288815	protein_coding	KNOWN	None	27270	1317	438	127563153	127577164	1	None	FLJ00237
14	RPPH1	ENSG00000259001	ENST00000554988	antisense	KNOWN	None	19273	None	None	20811207	20811844	-1	None	H1RNA, RPPH1-1
14	RPPH1	ENSG00000259001	ENST00000516869	misc_RNA	KNOWN	None	19273	None	None	20811234	20811566	-1	None	H1RNA, RPPH1-1
14	ATG14	ENSG00000126775	ENST00000558189	retained_intron	KNOWN	None	19962	None	None	55833110	55858020	-1	KIAA0831	ATG14L
14	ATG14	ENSG00000126775	ENST00000247178	protein_coding	KNOWN	CCDS32087	19962	1479	492	55833110	55878576	-1	KIAA0831	ATG14L
X	EGFL6	ENSG00000198759	ENST00000361306	protein_coding	KNOWN	CCDS14155	3235	1662	553	13587724	13651693	1	MAEG	None
X	EGFL6	ENSG00000198759	ENST00000380602	protein_coding	KNOWN	CCDS55370	3235	1665	554	13587741	13651694	1	MAEG	None
X	EGFL6	ENSG00000198759	ENST00000473826	processed_transcript	KNOWN	None	3235	None	None	13641938	13645183	1	MAEG	None
2	PSD4	ENSG00000125637	ENST00000465917	processed_transcript	KNOWN	None	19096	None	None	113914902	113940621	1	None	TIC, EFA6B
2	PSD4	ENSG00000125637	ENST00000245796	protein_coding	KNOWN	CCDS33276	19096	3171	1056	113931548	113960814	1	None	TIC, EFA6B
2	PSD4	ENSG00000125637	ENST00000485525	processed_transcript	KNOWN	None	19096	None	None	113931549	113943327	1	None	TIC, EFA6B
2	PSD4	ENSG00000125637	ENST00000418251	retained_intron	KNOWN	None	19096	None	None	113931557	113960802	1	None	TIC, EFA6B
2	PSD4	ENSG00000125637	ENST00000441564	protein_coding	NOVEL	None	19096	3084	1027	113931574	113960494	1	None	TIC, EFA6B
2	PSD4	ENSG00000125637	ENST00000409656	nonsense_mediated_decay	KNOWN	None	19096	126	41	113942621	113959143	1	None	TIC, EFA6B
2	PSD4	ENSG00000125637	ENST00000493329	retained_intron	KNOWN	None	19096	None	None	113951425	113954184	1	None	TIC, EFA6B
2	PSD4	ENSG00000125637	ENST00000487574	retained_intron	KNOWN	None	19096	None	None	113953726	113955766	1	None	TIC, EFA6B
2	PSD4	ENSG00000125637	ENST00000409378	protein_coding	PUTATIVE	None	19096	537	178	113953857	113958907	1	None	TIC, EFA6B
2	PSD4	ENSG00000125637	ENST00000460725	retained_intron	KNOWN	None	19096	None	None	113954772	113960489	1	None	TIC, EFA6B
2	PSD4	ENSG00000125637	ENST00000465592	retained_intron	KNOWN	None	19096	None	None	113954919	113956407	1	None	TIC, EFA6B
2	PSD4	ENSG00000125637	ENST00000464559	retained_intron	KNOWN	None	19096	None	None	113956135	113960489	1	None	TIC, EFA6B
8	RNU2-67P	ENSG00000222729	ENST00000410797	snRNA	KNOWN	None	48560	None	None	110886142	110886247	-1	None	None
7	None	ENSG00000266862	ENST00000578020	miRNA	NOVEL	None	None	None	None	21461887	21461986	-1	None	None
8	None	ENSG00000241385	ENST00000468501	processed_pseudogene	KNOWN	None	None	None	None	110911475	110911991	-1	None	None
7	MIR1183	ENSG00000221783	ENST00000408856	miRNA	KNOWN	None	35264	None	None	21510676	21510764	1	MIRN1183	hsa-mir-1183
12	None	ENSG00000212448	ENST00000391146	misc_RNA	NOVEL	None	None	None	None	96011465	96011562	1	None	None
3	SDHAP1	ENSG00000185485	ENST00000427149	processed_transcript	KNOWN	None	32455	None	None	195686619	195694391	-1	SDHAL1, SDHALP1	None
3	SDHAP1	ENSG00000185485	ENST00000427841	processed_transcript	KNOWN	None	32455	None	None	195686792	195717150	-1	SDHAL1, SDHALP1	None
3	SDHAP1	ENSG00000185485	ENST00000354559	processed_transcript	KNOWN	None	32455	None	None	195689975	195694766	-1	SDHAL1, SDHALP1	None
3	SDHAP1	ENSG00000185485	ENST00000440850	transcribed_unprocessed_pseudogene	KNOWN	None	32455	None	None	195690206	195717129	-1	SDHAL1, SDHALP1	None
3	SDHAP1	ENSG00000185485	ENST00000457601	retained_intron	KNOWN	None	32455	None	None	195698124	195702773	-1	SDHAL1, SDHALP1	None
3	SDHAP1	ENSG00000185485	ENST00000413474	processed_transcript	KNOWN	None	32455	None	None	195706616	195717146	-1	SDHAL1, SDHALP1	None
3	SDHAP1	ENSG00000185485	ENST00000435731	processed_transcript	KNOWN	None	32455	None	None	195709164	195717176	-1	SDHAL1, SDHALP1	None
3	SDHAP1	ENSG00000185485	ENST00000427415	retained_intron	KNOWN	None	32455	None	None	195712317	195717189	-1	SDHAL1, SDHALP1	None
3	SDHAP1	ENSG00000185485	ENST00000354937	unprocessed_pseudogene	KNOWN	None	32455	None	None	195686658	195717187	-1	SDHAL1, SDHALP1	None
3	SDHAP1	ENSG00000185485	ENST00000545003	unprocessed_pseudogene	KNOWN	None	32455	None	None	195701418	195717159	-1	SDHAL1, SDHALP1	None
3	SDHAP1	ENSG00000185485	ENST00000538515	unprocessed_pseudogene	KNOWN	None	32455	None	None	195702607	195717162	-1	SDHAL1, SDHALP1	None
8	None	ENSG00000255402	ENST00000530667	antisense	KNOWN	None	None	None	None	110986172	110987010	1	None	None
7	RNA5SP227	ENSG00000251993	ENST00000516184	rRNA	KNOWN	None	43127	None	None	22338213	22338325	1	RN5S227	None
11	TUB	ENSG00000166402	ENST00000534099	protein_coding	PUTATIVE	None	12406	1539	512	8040791	8123327	1	None	rd5
11	TUB	ENSG00000166402	ENST00000305253	protein_coding	KNOWN	CCDS7786	12406	1686	561	8060180	8127659	1	None	rd5
11	TUB	ENSG00000166402	ENST00000299506	protein_coding	PUTATIVE	CCDS7787	12406	1521	506	8102909	8123515	1	None	rd5
HG325_PATCH	HYAL1	ENSG00000262208	ENST00000570958	protein_coding	KNOWN	None	5320	1308	435	50337321	50341052	-1	None	LUCA1, HYAL-1, FUS2, NAT6
HG325_PATCH	HYAL1	ENSG00000262208	ENST00000575445	protein_coding	KNOWN	None	5320	1308	435	50337322	50341004	-1	None	LUCA1, HYAL-1, FUS2, NAT6
HG325_PATCH	HYAL1	ENSG00000262208	ENST00000572970	protein_coding	KNOWN	None	5320	1308	435	50337326	50349813	-1	None	LUCA1, HYAL-1, FUS2, NAT6
HG325_PATCH	HYAL1	ENSG00000262208	ENST00000576782	protein_coding	KNOWN	None	5320	1218	405	50337743	50341005	-1	None	LUCA1, HYAL-1, FUS2, NAT6
HG325_PATCH	HYAL1	ENSG00000262208	ENST00000570967	protein_coding	KNOWN	None	5320	762	253	50337914	50341005	-1	None	LUCA1, HYAL-1, FUS2, NAT6
HG325_PATCH	HYAL1	ENSG00000262208	ENST00000571551	protein_coding	KNOWN	None	5320	531	176	50337914	50341005	-1	None	LUCA1, HYAL-1, FUS2, NAT6
HG325_PATCH	HYAL1	ENSG00000262208	ENST00000576699	protein_coding	KNOWN	None	5320	310	102	50340079	50341006	-1	None	LUCA1, HYAL-1, FUS2, NAT6
HG325_PATCH	HYAL1	ENSG00000262208	ENST00000572336	protein_coding	KNOWN	None	5320	208	68	50340181	50341548	-1	None	LUCA1, HYAL-1, FUS2, NAT6
8	None	ENSG00000253855	ENST00000520162	lincRNA	KNOWN	None	None	None	None	2376124	2379308	1	None	None
8	None	ENSG00000240590	ENST00000466509	processed_pseudogene	KNOWN	None	None	None	None	111117305	111118193	-1	None	None
20	RALGAPB	ENSG00000170471	ENST00000262879	protein_coding	KNOWN	CCDS13305	29221	4485	1494	37101459	37207502	1	KIAA1219	DKFZp781M2411, RalGAPbeta
20	RALGAPB	ENSG00000170471	ENST00000397042	protein_coding	KNOWN	None	29221	4476	1491	37101459	37207502	1	KIAA1219	DKFZp781M2411, RalGAPbeta
20	RALGAPB	ENSG00000170471	ENST00000397040	protein_coding	KNOWN	CCDS13305	29221	4485	1494	37101543	37207502	1	KIAA1219	DKFZp781M2411, RalGAPbeta
20	RALGAPB	ENSG00000170471	ENST00000495949	processed_transcript	KNOWN	None	29221	None	None	37126081	37128646	1	KIAA1219	DKFZp781M2411, RalGAPbeta
20	RALGAPB	ENSG00000170471	ENST00000438490	protein_coding	NOVEL	None	29221	3972	1323	37126123	37203713	1	KIAA1219	DKFZp781M2411, RalGAPbeta
20	RALGAPB	ENSG00000170471	ENST00000461423	retained_intron	KNOWN	None	29221	None	None	37137728	37176749	1	KIAA1219	DKFZp781M2411, RalGAPbeta
20	RALGAPB	ENSG00000170471	ENST00000461147	retained_intron	KNOWN	None	29221	None	None	37197110	37206708	1	KIAA1219	DKFZp781M2411, RalGAPbeta
20	RALGAPB	ENSG00000170471	ENST00000490114	processed_transcript	KNOWN	None	29221	None	None	37202302	37204636	1	KIAA1219	DKFZp781M2411, RalGAPbeta
20	RALGAPB	ENSG00000170471	ENST00000537204	protein_coding	KNOWN	None	29221	1434	477	37101493	37153480	1	KIAA1219	DKFZp781M2411, RalGAPbeta
20	RALGAPB	ENSG00000170471	ENST00000397038	protein_coding	KNOWN	None	29221	3822	1273	37101486	37207504	1	KIAA1219	DKFZp781M2411, RalGAPbeta
6	None	ENSG00000238079	ENST00000442911	processed_pseudogene	KNOWN	None	None	None	None	108693976	108694131	-1	None	None
17	None	ENSG00000233098	ENST00000577537	antisense	KNOWN	None	None	None	None	20771746	20808543	1	None	None
17	None	ENSG00000233098	ENST00000439794	antisense	KNOWN	None	None	None	None	20771810	20897455	1	None	None
17	None	ENSG00000233098	ENST00000417232	antisense	KNOWN	None	None	None	None	20771818	20827738	1	None	None
17	None	ENSG00000233098	ENST00000582324	antisense	KNOWN	None	None	None	None	20771856	20802444	1	None	None
17	None	ENSG00000233098	ENST00000577860	antisense	KNOWN	None	None	None	None	20771860	20836131	1	None	None
17	None	ENSG00000233098	ENST00000583962	antisense	KNOWN	None	None	None	None	20771863	20808543	1	None	None
17	None	ENSG00000233098	ENST00000443508	antisense	KNOWN	None	None	None	None	20824358	20833359	1	None	None
17	None	ENSG00000233098	ENST00000577841	antisense	KNOWN	None	None	None	None	20824465	20833359	1	None	None
17	None	ENSG00000233098	ENST00000580278	antisense	KNOWN	None	None	None	None	20833068	20842832	1	None	None
17	None	ENSG00000233098	ENST00000577968	antisense	KNOWN	None	None	None	None	20833069	20841835	1	None	None
17	None	ENSG00000233098	ENST00000580056	antisense	KNOWN	None	None	None	None	20841833	20897605	1	None	None
17	None	ENSG00000233098	ENST00000437829	antisense	KNOWN	None	None	None	None	20841851	20861660	1	None	None
17	None	ENSG00000233098	ENST00000583481	antisense	KNOWN	None	None	None	None	20841864	20905320	1	None	None
17	None	ENSG00000233098	ENST00000433763	antisense	KNOWN	None	None	None	None	20841879	20861702	1	None	None
17	None	ENSG00000233098	ENST00000423473	antisense	KNOWN	None	None	None	None	20841891	20901341	1	None	None
17	None	ENSG00000233098	ENST00000581958	antisense	KNOWN	None	None	None	None	20854744	20905589	1	None	None
17	None	ENSG00000233098	ENST00000579168	antisense	KNOWN	None	None	None	None	20859130	20861639	1	None	None
17	None	ENSG00000233098	ENST00000584433	antisense	KNOWN	None	None	None	None	20859607	20862034	1	None	None
7	None	ENSG00000263927	ENST00000578695	miRNA	NOVEL	None	None	None	None	22419623	22419720	1	None	None
8	None	ENSG00000253956	ENST00000522896	lincRNA	KNOWN	None	None	None	None	111346972	111361836	-1	None	None
6	None	ENSG00000227072	ENST00000436728	processed_pseudogene	KNOWN	None	None	None	None	108708716	108709284	1	None	None
HSCHR6_MHC_MANN	PPT2	ENSG00000168452	ENST00000431414	protein_coding	KNOWN	None	9326	541	179	32160665	32163184	1	None	None
HSCHR6_MHC_MANN	PPT2	ENSG00000168452	ENST00000414356	protein_coding	KNOWN	None	9326	927	308	32160747	32170885	1	None	None
HSCHR6_MHC_MANN	PPT2	ENSG00000168452	ENST00000475159	processed_transcript	KNOWN	None	9326	None	None	32160766	32165055	1	None	None
HSCHR6_MHC_MANN	PPT2	ENSG00000168452	ENST00000452562	protein_coding	KNOWN	None	9326	909	302	32160801	32170885	1	None	None
HSCHR6_MHC_MANN	PPT2	ENSG00000168452	ENST00000490624	nonsense_mediated_decay	KNOWN	None	9326	906	301	32161069	32175485	1	None	None
HSCHR6_MHC_MANN	PPT2	ENSG00000168452	ENST00000420778	protein_coding	KNOWN	None	9326	909	302	32161319	32170885	1	None	None
HSCHR6_MHC_MANN	PPT2	ENSG00000168452	ENST00000427556	protein_coding	KNOWN	None	9326	909	302	32161362	32170885	1	None	None
HSCHR6_MHC_MANN	PPT2	ENSG00000168452	ENST00000437214	protein_coding	KNOWN	None	9326	476	157	32161391	32165130	1	None	None
HSCHR6_MHC_MANN	PPT2	ENSG00000168452	ENST00000483049	processed_transcript	KNOWN	None	9326	None	None	32161421	32169803	1	None	None
HSCHR6_MHC_MANN	PPT2	ENSG00000168452	ENST00000476214	nonsense_mediated_decay	KNOWN	None	9326	906	301	32161446	32179182	1	None	None
HSCHR6_MHC_MANN	PPT2	ENSG00000168452	ENST00000443321	protein_coding	KNOWN	None	9326	601	199	32161690	32164902	1	None	None
HSCHR6_MHC_MANN	PPT2	ENSG00000168452	ENST00000424311	protein_coding	KNOWN	None	9326	279	92	32161702	32162989	1	None	None
HSCHR6_MHC_MANN	PPT2	ENSG00000168452	ENST00000477785	processed_transcript	PUTATIVE	None	9326	None	None	32162242	32162965	1	None	None
HSCHR6_MHC_MANN	PPT2	ENSG00000168452	ENST00000478187	retained_intron	KNOWN	None	9326	None	None	32164317	32171862	1	None	None
HSCHR6_MHC_MANN	PPT2	ENSG00000168452	ENST00000470778	retained_intron	KNOWN	None	9326	None	None	32164696	32165528	1	None	None
HSCHR6_MHC_MANN	PPT2	ENSG00000168452	ENST00000492976	nonsense_mediated_decay	KNOWN	None	9326	383	126	32164849	32174212	1	None	None
HSCHR6_MHC_MANN	PPT2	ENSG00000168452	ENST00000549544	protein_coding	KNOWN	None	9326	906	301	32161069	32173406	1	None	None
HSCHR6_MHC_MANN	PPT2	ENSG00000168452	ENST00000552922	protein_coding	KNOWN	None	9326	909	302	32161069	32170882	1	None	None
HSCHR6_MHC_MANN	PPT2	ENSG00000168452	ENST00000547891	protein_coding	KNOWN	None	9326	882	293	32171820	32175485	1	None	None
3	None	ENSG00000244039	ENST00000493762	processed_pseudogene	KNOWN	None	None	None	None	169649786	169651017	1	None	None
5	None	ENSG00000253295	ENST00000518941	antisense	KNOWN	None	None	None	None	172185229	172189559	1	None	None
6	RNU6-770P	ENSG00000200799	ENST00000363929	snRNA	KNOWN	None	47733	None	None	108713277	108713381	1	None	None
1	TP73-AS1	ENSG00000227372	ENST00000418088	antisense	KNOWN	None	29052	None	None	3652548	3663340	-1	KIAA0495	PDAM
1	TP73-AS1	ENSG00000227372	ENST00000452079	antisense	KNOWN	None	29052	None	None	3652548	3663886	-1	KIAA0495	PDAM
1	TP73-AS1	ENSG00000227372	ENST00000419973	antisense	KNOWN	None	29052	None	None	3652739	3654439	-1	KIAA0495	PDAM
1	TP73-AS1	ENSG00000227372	ENST00000423764	antisense	KNOWN	None	29052	None	None	3653713	3663900	-1	KIAA0495	PDAM
1	TP73-AS1	ENSG00000227372	ENST00000587071	antisense	KNOWN	None	29052	None	None	3654639	3659422	-1	KIAA0495	PDAM
1	TP73-AS1	ENSG00000227372	ENST00000544565	antisense	KNOWN	None	29052	None	None	3659683	3662802	-1	KIAA0495	PDAM
3	TMA7	ENSG00000232112	ENST00000479126	retained_intron	KNOWN	None	26932	None	None	48481667	48482444	1	CCDC72	HSPC016
3	TMA7	ENSG00000232112	ENST00000438607	protein_coding	KNOWN	CCDS46823	26932	195	64	48481667	48485616	1	CCDC72	HSPC016
3	TMA7	ENSG00000232112	ENST00000477624	retained_intron	KNOWN	None	26932	None	None	48481694	48485611	1	CCDC72	HSPC016
6	None	ENSG00000271608	ENST00000603860	processed_pseudogene	KNOWN	None	None	None	None	108872221	108872410	-1	None	None
18	ZNF236	ENSG00000130856	ENST00000320610	protein_coding	PUTATIVE	None	13028	5544	1847	74534563	74681874	1	None	None
18	ZNF236	ENSG00000130856	ENST00000543926	nonsense_mediated_decay	KNOWN	None	13028	4677	1558	74536116	74682683	1	None	None
18	ZNF236	ENSG00000130856	ENST00000253159	protein_coding	KNOWN	CCDS42447	13028	5538	1845	74536116	74682683	1	None	None
18	ZNF236	ENSG00000130856	ENST00000579322	protein_coding	PUTATIVE	None	13028	1381	459	74561155	74593438	1	None	None
18	ZNF236	ENSG00000130856	ENST00000583095	processed_transcript	KNOWN	None	13028	None	None	74563729	74587472	1	None	None
18	ZNF236	ENSG00000130856	ENST00000583488	retained_intron	KNOWN	None	13028	None	None	74592238	74607333	1	None	None
18	ZNF236	ENSG00000130856	ENST00000584565	processed_transcript	PUTATIVE	None	13028	None	None	74610048	74611079	1	None	None
18	ZNF236	ENSG00000130856	ENST00000581450	retained_intron	KNOWN	None	13028	None	None	74624194	74631816	1	None	None
1	HP1BP3	ENSG00000127483	ENST00000312239	protein_coding	KNOWN	CCDS30621	24973	1662	553	21069154	21113181	-1	None	HP1-BP74
1	HP1BP3	ENSG00000127483	ENST00000375003	protein_coding	KNOWN	None	24973	1206	401	21069175	21101498	-1	None	HP1-BP74
1	HP1BP3	ENSG00000127483	ENST00000488722	processed_transcript	KNOWN	None	24973	None	None	21069628	21076240	-1	None	HP1-BP74
1	HP1BP3	ENSG00000127483	ENST00000491748	processed_transcript	KNOWN	None	24973	None	None	21072085	21076744	-1	None	HP1-BP74
1	HP1BP3	ENSG00000127483	ENST00000419948	protein_coding	KNOWN	None	24973	759	252	21074108	21103097	-1	None	HP1-BP74
1	HP1BP3	ENSG00000127483	ENST00000438032	protein_coding	KNOWN	None	24973	981	326	21083659	21113765	-1	None	HP1-BP74
1	HP1BP3	ENSG00000127483	ENST00000424732	protein_coding	KNOWN	None	24973	834	277	21083692	21113805	-1	None	HP1-BP74
1	HP1BP3	ENSG00000127483	ENST00000417710	protein_coding	KNOWN	None	24973	374	123	21100080	21112776	-1	None	HP1-BP74
1	HP1BP3	ENSG00000127483	ENST00000487117	processed_transcript	KNOWN	None	24973	None	None	21101943	21107034	-1	None	HP1-BP74
1	HP1BP3	ENSG00000127483	ENST00000375000	protein_coding	KNOWN	None	24973	402	133	21102148	21113133	-1	None	HP1-BP74
1	HP1BP3	ENSG00000127483	ENST00000437575	protein_coding	KNOWN	None	24973	135	44	21103191	21113816	-1	None	HP1-BP74
1	HP1BP3	ENSG00000127483	ENST00000419490	protein_coding	KNOWN	None	24973	120	39	21103206	21113145	-1	None	HP1-BP74
1	HP1BP3	ENSG00000127483	ENST00000414993	protein_coding	KNOWN	None	24973	227	74	21103213	21113145	-1	None	HP1-BP74
1	HP1BP3	ENSG00000127483	ENST00000443615	protein_coding	KNOWN	None	24973	58	18	21106329	21113159	-1	None	HP1-BP74
8	None	ENSG00000253107	ENST00000523800	processed_pseudogene	KNOWN	None	None	None	None	111567637	111568747	1	None	None
5	None	ENSG00000213386	ENST00000521069	processed_pseudogene	KNOWN	None	None	None	None	172189524	172190261	-1	None	None
6	SUMO2P8	ENSG00000228976	ENST00000434672	processed_pseudogene	KNOWN	None	39018	None	None	108939203	108939488	-1	None	None
7	EEF1A1P6	ENSG00000233476	ENST00000434005	processed_pseudogene	KNOWN	None	3201	None	None	22550235	22551618	-1	EEF1AL4	None
7	EEF1A1P6	ENSG00000233476	ENST00000318052	pseudogene	KNOWN	None	3201	None	None	22550231	22551618	-1	EEF1AL4	None
9	ABO	ENSG00000175164	ENST00000453660	processed_transcript	KNOWN	None	79	None	None	136125788	136150617	-1	None	A3GALNT, A3GALT1
9	ABO	ENSG00000175164	ENST00000538324	processed_transcript	KNOWN	None	79	None	None	136131053	136150605	-1	None	A3GALNT, A3GALT1
14	None	ENSG00000258566	ENST00000557720	processed_pseudogene	KNOWN	None	None	None	None	77156482	77157085	-1	None	None
4	ANK2	ENSG00000145362	ENST00000503271	protein_coding	NOVEL	None	493	3342	1113	113739265	114257027	1	LQT4	None
4	ANK2	ENSG00000145362	ENST00000503423	protein_coding	NOVEL	None	493	4834	1610	113739265	114274869	1	LQT4	None
4	ANK2	ENSG00000145362	ENST00000506722	protein_coding	KNOWN	CCDS54796	493	5592	1863	113739265	114304891	1	LQT4	None
4	ANK2	ENSG00000145362	ENST00000504454	protein_coding	NOVEL	None	493	5191	1729	113970806	114274920	1	LQT4	None
4	ANK2	ENSG00000145362	ENST00000514246	processed_transcript	PUTATIVE	None	493	None	None	113970812	113991306	1	LQT4	None
4	ANK2	ENSG00000145362	ENST00000394537	protein_coding	KNOWN	CCDS43261	493	5619	1872	113970832	114303268	1	LQT4	None
4	ANK2	ENSG00000145362	ENST00000357077	protein_coding	KNOWN	CCDS3702	493	11874	3957	113970832	114304896	1	LQT4	None
4	ANK2	ENSG00000145362	ENST00000264366	protein_coding	KNOWN	None	493	11775	3924	113970885	114302627	1	LQT4	None
4	ANK2	ENSG00000145362	ENST00000508613	protein_coding	NOVEL	None	493	532	176	114038149	114158146	1	LQT4	None
4	ANK2	ENSG00000145362	ENST00000512999	processed_transcript	PUTATIVE	None	493	None	None	114062405	114072364	1	LQT4	None
4	ANK2	ENSG00000145362	ENST00000511380	protein_coding	PUTATIVE	None	493	336	111	114066788	114117622	1	LQT4	None
4	ANK2	ENSG00000145362	ENST00000515034	protein_coding	PUTATIVE	None	493	197	64	114095174	114158261	1	LQT4	None
4	ANK2	ENSG00000145362	ENST00000509550	protein_coding	PUTATIVE	None	493	3147	1048	114214138	114302803	1	LQT4	None
4	ANK2	ENSG00000145362	ENST00000502701	retained_intron	KNOWN	None	493	None	None	114214516	114239762	1	LQT4	None
4	ANK2	ENSG00000145362	ENST00000515644	retained_intron	KNOWN	None	493	None	None	114238608	114251519	1	LQT4	None
4	ANK2	ENSG00000145362	ENST00000514960	protein_coding	NOVEL	None	493	2899	965	114239741	114304888	1	LQT4	None
4	ANK2	ENSG00000145362	ENST00000514160	retained_intron	KNOWN	None	493	None	None	114254138	114257749	1	LQT4	None
4	ANK2	ENSG00000145362	ENST00000504887	processed_transcript	KNOWN	None	493	None	None	114257500	114262974	1	LQT4	None
4	ANK2	ENSG00000145362	ENST00000504415	protein_coding	NOVEL	None	493	561	186	114262868	114284596	1	LQT4	None
4	ANK2	ENSG00000145362	ENST00000510275	protein_coding	NOVEL	None	493	1668	555	114262989	114302723	1	LQT4	None
4	ANK2	ENSG00000145362	ENST00000508007	retained_intron	KNOWN	None	493	None	None	114268952	114286292	1	LQT4	None
4	ANK2	ENSG00000145362	ENST00000512298	retained_intron	KNOWN	None	493	None	None	114269414	114271967	1	LQT4	None
4	ANK2	ENSG00000145362	ENST00000505342	protein_coding	NOVEL	None	493	3087	1028	114278745	114304896	1	LQT4	None
4	ANK2	ENSG00000145362	ENST00000506344	protein_coding	PUTATIVE	None	493	592	196	114294473	114303099	1	LQT4	None
4	ANK2	ENSG00000145362	ENST00000514167	protein_coding	PUTATIVE	None	493	243	80	114294515	114302672	1	LQT4	None
3	PSMC1P1	ENSG00000241506	ENST00000478110	processed_pseudogene	KNOWN	None	30147	None	None	68684856	68686175	1	PSMC1P	bcm3415
6	CAGE1	ENSG00000164304	ENST00000458291	nonsense_mediated_decay	KNOWN	None	21622	2103	700	7326889	7389623	-1	CTAG3	bA69L16.7, CT95
6	CAGE1	ENSG00000164304	ENST00000379918	protein_coding	NOVEL	None	21622	2454	817	7326892	7389635	-1	CTAG3	bA69L16.7, CT95
6	CAGE1	ENSG00000164304	ENST00000502583	protein_coding	NOVEL	CCDS54965	21622	2520	839	7326892	7389976	-1	CTAG3	bA69L16.7, CT95
6	CAGE1	ENSG00000164304	ENST00000296742	protein_coding	KNOWN	CCDS47367	21622	1926	641	7326917	7389942	-1	CTAG3	bA69L16.7, CT95
6	CAGE1	ENSG00000164304	ENST00000442019	nonsense_mediated_decay	KNOWN	None	21622	729	242	7326975	7389633	-1	CTAG3	bA69L16.7, CT95
6	CAGE1	ENSG00000164304	ENST00000512086	protein_coding	PUTATIVE	None	21622	2334	777	7327091	7389635	-1	CTAG3	bA69L16.7, CT95
6	CAGE1	ENSG00000164304	ENST00000338150	protein_coding	KNOWN	CCDS54964	21622	2475	824	7329330	7389639	-1	CTAG3	bA69L16.7, CT95
6	CAGE1	ENSG00000164304	ENST00000512691	protein_coding	NOVEL	None	21622	1674	557	7373414	7389635	-1	CTAG3	bA69L16.7, CT95
6	CAGE1	ENSG00000164304	ENST00000509324	processed_transcript	KNOWN	None	21622	None	None	7374186	7389635	-1	CTAG3	bA69L16.7, CT95
5	None	ENSG00000253736	ENST00000523005	antisense	KNOWN	None	None	None	None	172189983	172204777	1	None	None
15	None	ENSG00000203572	ENST00000366383	pseudogene	NOVEL	None	None	None	None	44614380	44614557	-1	None	None
3	RNA5SP135	ENSG00000252828	ENST00000517019	rRNA	KNOWN	None	43035	None	None	68932118	68932242	1	RN5S135	None
13	SUCLA2-AS1	ENSG00000227848	ENST00000423869	antisense	KNOWN	None	39965	None	None	48575525	48576688	1	None	None
15	None	ENSG00000259176	ENST00000560134	sense_overlapping	KNOWN	None	None	None	None	22278010	22332692	1	None	None
15	None	ENSG00000259176	ENST00000558584	sense_overlapping	KNOWN	None	None	None	None	22278031	22290485	1	None	None
15	None	ENSG00000259176	ENST00000560625	sense_overlapping	KNOWN	None	None	None	None	22278031	22318937	1	None	None
15	None	ENSG00000259176	ENST00000560193	sense_overlapping	KNOWN	None	None	None	None	22278031	22347772	1	None	None
15	None	ENSG00000259176	ENST00000561052	sense_overlapping	KNOWN	None	None	None	None	22278049	22282397	1	None	None
15	None	ENSG00000259176	ENST00000557855	sense_overlapping	KNOWN	None	None	None	None	22289616	22347852	1	None	None
15	None	ENSG00000259176	ENST00000558511	sense_overlapping	KNOWN	None	None	None	None	22289623	22292225	1	None	None
15	None	ENSG00000259176	ENST00000559392	sense_overlapping	KNOWN	None	None	None	None	22303183	22413497	1	None	None
15	None	ENSG00000259176	ENST00000558896	sense_overlapping	KNOWN	None	None	None	None	22303184	22383808	1	None	None
15	None	ENSG00000259176	ENST00000557817	sense_overlapping	KNOWN	None	None	None	None	22303212	22347782	1	None	None
15	None	ENSG00000259176	ENST00000558312	sense_overlapping	KNOWN	None	None	None	None	22303212	22383561	1	None	None
15	None	ENSG00000259176	ENST00000558798	sense_overlapping	KNOWN	None	None	None	None	22303212	22408398	1	None	None
15	None	ENSG00000259176	ENST00000560969	sense_overlapping	KNOWN	None	None	None	None	22347595	22371151	1	None	None
15	None	ENSG00000259176	ENST00000560544	sense_overlapping	KNOWN	None	None	None	None	22358192	22371172	1	None	None
6	LINC00222	ENSG00000203801	ENST00000416104	lincRNA	KNOWN	None	21560	None	None	109072857	109089659	1	C6orf181, NCRNA00222	dJ354J5.2
6	LINC00222	ENSG00000203801	ENST00000444910	lincRNA	KNOWN	None	21560	None	None	109072857	109090321	1	C6orf181, NCRNA00222	dJ354J5.2
6	LINC00222	ENSG00000203801	ENST00000448744	lincRNA	KNOWN	None	21560	None	None	109072859	109091145	1	C6orf181, NCRNA00222	dJ354J5.2
6	LINC00222	ENSG00000203801	ENST00000416890	lincRNA	KNOWN	None	21560	None	None	109073021	109089659	1	C6orf181, NCRNA00222	dJ354J5.2
6	LINC00222	ENSG00000203801	ENST00000417773	lincRNA	KNOWN	None	21560	None	None	109080364	109090321	1	C6orf181, NCRNA00222	dJ354J5.2
6	LINC00222	ENSG00000203801	ENST00000368974	lincRNA	KNOWN	None	21560	None	None	109080368	109090321	1	C6orf181, NCRNA00222	dJ354J5.2
6	LINC00222	ENSG00000203801	ENST00000430898	lincRNA	KNOWN	None	21560	None	None	109080664	109090208	1	C6orf181, NCRNA00222	dJ354J5.2
HG544_PATCH	MRC1	ENSG00000260314	ENST00000569591	protein_coding	KNOWN	None	7228	4371	1456	17851343	17953161	1	MRC1L1	CLEC13D, CD206, bA541I19.1, CLEC13DL
8	None	ENSG00000253186	ENST00000523185	unprocessed_pseudogene	KNOWN	None	None	None	None	43108875	43109232	1	None	None
6	MLIP	ENSG00000146147	ENST00000505762	protein_coding	PUTATIVE	None	21355	332	109	53794780	53989452	1	C6orf142	MGC18257
6	MLIP	ENSG00000146147	ENST00000514921	protein_coding	PUTATIVE	None	21355	2748	915	53883714	54082882	1	C6orf142	MGC18257
6	MLIP	ENSG00000146147	ENST00000274897	protein_coding	KNOWN	CCDS4954	21355	1377	458	53883714	54131078	1	C6orf142	MGC18257
6	MLIP	ENSG00000146147	ENST00000370877	protein_coding	NOVEL	None	21355	807	268	53883725	54131078	1	C6orf142	MGC18257
6	MLIP	ENSG00000146147	ENST00000509997	protein_coding	NOVEL	None	21355	681	226	53883798	54131075	1	C6orf142	MGC18257
6	MLIP	ENSG00000146147	ENST00000460844	protein_coding	PUTATIVE	None	21355	10	2	53948223	53989415	1	C6orf142	MGC18257
6	MLIP	ENSG00000146147	ENST00000370876	protein_coding	KNOWN	None	21355	705	234	53948336	54131078	1	C6orf142	MGC18257
6	MLIP	ENSG00000146147	ENST00000447836	protein_coding	PUTATIVE	None	21355	588	195	53964344	54067004	1	C6orf142	MGC18257
6	MLIP	ENSG00000146147	ENST00000511678	protein_coding	PUTATIVE	None	21355	369	122	53964363	54001623	1	C6orf142	MGC18257
6	MLIP	ENSG00000146147	ENST00000503951	protein_coding	PUTATIVE	None	21355	1684	560	53976216	54002707	1	C6orf142	MGC18257
6	MLIP	ENSG00000146147	ENST00000511744	processed_transcript	KNOWN	None	21355	None	None	53976245	54068618	1	C6orf142	MGC18257
6	MLIP	ENSG00000146147	ENST00000502396	protein_coding	PUTATIVE	None	21355	2982	993	53976246	54130841	1	C6orf142	MGC18257
6	MLIP	ENSG00000146147	ENST00000514433	protein_coding	PUTATIVE	None	21355	989	328	53976308	54095600	1	C6orf142	MGC18257
6	MLIP	ENSG00000146147	ENST00000358276	protein_coding	KNOWN	None	21355	873	290	53976246	54130841	1	C6orf142	MGC18257
15	None	ENSG00000259328	ENST00000559567	processed_transcript	KNOWN	None	None	None	None	82944773	82974290	1	None	None
15	None	ENSG00000259328	ENST00000559375	processed_transcript	KNOWN	None	None	None	None	82944795	82971096	1	None	None
15	None	ENSG00000259328	ENST00000557956	processed_transcript	KNOWN	None	None	None	None	82944807	82970481	1	None	None
15	None	ENSG00000259328	ENST00000558075	processed_transcript	KNOWN	None	None	None	None	82944810	82974312	1	None	None
15	None	ENSG00000259328	ENST00000559552	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	82969811	82971216	1	None	None
13	MED4-AS1	ENSG00000229111	ENST00000422483	antisense	KNOWN	None	39213	None	None	48651273	48654127	1	MED4-AS	None
14	None	ENSG00000258569	ENST00000556271	lincRNA	KNOWN	None	None	None	None	77177001	77227731	-1	None	None
12	PGAM1P5	ENSG00000257150	ENST00000552554	processed_transcript	KNOWN	None	42452	None	None	96043031	96067775	1	None	None
12	PGAM1P5	ENSG00000257150	ENST00000548011	transcribed_processed_pseudogene	KNOWN	None	42452	None	None	96066081	96066844	1	None	None
15	None	ENSG00000240484	ENST00000484702	processed_pseudogene	KNOWN	None	None	None	None	93262623	93262970	1	None	None
3	None	ENSG00000244513	ENST00000482368	antisense	KNOWN	None	None	None	None	69063092	69098039	1	None	None
3	None	ENSG00000244513	ENST00000597950	antisense	KNOWN	None	None	None	None	69063135	69097715	1	None	None
3	None	ENSG00000244513	ENST00000598783	antisense	KNOWN	None	None	None	None	69063135	69097715	1	None	None
3	None	ENSG00000244513	ENST00000596523	antisense	KNOWN	None	None	None	None	69063141	69097715	1	None	None
3	None	ENSG00000244513	ENST00000596732	antisense	KNOWN	None	None	None	None	69063152	69097715	1	None	None
3	None	ENSG00000244513	ENST00000596659	antisense	KNOWN	None	None	None	None	69063315	69066658	1	None	None
3	None	ENSG00000244513	ENST00000597366	antisense	KNOWN	None	None	None	None	69063315	69079830	1	None	None
3	None	ENSG00000244513	ENST00000601511	antisense	KNOWN	None	None	None	None	69063315	69084303	1	None	None
3	None	ENSG00000244513	ENST00000599467	antisense	KNOWN	None	None	None	None	69063315	69084610	1	None	None
3	None	ENSG00000244513	ENST00000595925	antisense	KNOWN	None	None	None	None	69063315	69105773	1	None	None
3	None	ENSG00000244513	ENST00000601735	antisense	KNOWN	None	None	None	None	69063316	69097592	1	None	None
3	None	ENSG00000244513	ENST00000596274	antisense	KNOWN	None	None	None	None	69084247	69097715	1	None	None
13	POLR2KP2	ENSG00000224510	ENST00000438155	processed_pseudogene	KNOWN	None	42652	None	None	48708494	48708670	-1	None	None
16	THOC6	ENSG00000131652	ENST00000576143	retained_intron	KNOWN	None	28369	None	None	3074028	3076782	1	WDR58	MGC2655, fSAP35
16	THOC6	ENSG00000131652	ENST00000574957	retained_intron	KNOWN	None	28369	None	None	3074032	3076516	1	WDR58	MGC2655, fSAP35
16	THOC6	ENSG00000131652	ENST00000326266	protein_coding	KNOWN	CCDS10491	28369	1026	341	3074032	3077755	1	WDR58	MGC2655, fSAP35
16	THOC6	ENSG00000131652	ENST00000574549	protein_coding	KNOWN	None	28369	954	317	3074042	3077756	1	WDR58	MGC2655, fSAP35
16	THOC6	ENSG00000131652	ENST00000571057	retained_intron	KNOWN	None	28369	None	None	3074044	3076551	1	WDR58	MGC2655, fSAP35
16	THOC6	ENSG00000131652	ENST00000575576	protein_coding	KNOWN	None	28369	954	317	3074055	3077723	1	WDR58	MGC2655, fSAP35
16	THOC6	ENSG00000131652	ENST00000574498	retained_intron	KNOWN	None	28369	None	None	3074061	3076542	1	WDR58	MGC2655, fSAP35
16	THOC6	ENSG00000131652	ENST00000573704	retained_intron	KNOWN	None	28369	None	None	3074062	3076763	1	WDR58	MGC2655, fSAP35
16	THOC6	ENSG00000131652	ENST00000253952	protein_coding	KNOWN	CCDS45392	28369	891	296	3074065	3077750	1	WDR58	MGC2655, fSAP35
16	THOC6	ENSG00000131652	ENST00000571046	retained_intron	KNOWN	None	28369	None	None	3074139	3076352	1	WDR58	MGC2655, fSAP35
19	None	ENSG00000266953	ENST00000592740	protein_coding	PUTATIVE	None	None	625	207	34887220	34900269	1	None	None
19	None	ENSG00000266953	ENST00000606020	protein_coding	PUTATIVE	None	None	397	131	34891252	34900141	1	None	None
15	None	ENSG00000250130	ENST00000508195	processed_pseudogene	KNOWN	None	None	None	None	44646889	44647890	1	None	None
13	LINC00441	ENSG00000231473	ENST00000433480	lincRNA	KNOWN	None	42778	None	None	48870649	48877797	-1	None	None
13	LINC00441	ENSG00000231473	ENST00000436963	lincRNA	KNOWN	None	42778	None	None	48876583	48877795	-1	None	None
15	None	ENSG00000258562	ENST00000554322	processed_pseudogene	KNOWN	None	None	None	None	93305987	93306980	1	None	None
6	PLG	ENSG00000122194	ENST00000366924	protein_coding	PUTATIVE	CCDS55074	9071	411	136	161123270	161132915	1	None	None
6	PLG	ENSG00000122194	ENST00000308192	protein_coding	KNOWN	CCDS5279	9071	2433	810	161123274	161174338	1	None	None
6	PLG	ENSG00000122194	ENST00000418964	protein_coding	PUTATIVE	None	9071	499	165	161123278	161134058	1	None	None
6	PLG	ENSG00000122194	ENST00000297289	processed_transcript	KNOWN	None	9071	None	None	161123292	161152263	1	None	None
6	PLG	ENSG00000122194	ENST00000462918	processed_transcript	KNOWN	None	9071	None	None	161123300	161134408	1	None	None
6	PLG	ENSG00000122194	ENST00000483038	processed_transcript	KNOWN	None	9071	None	None	161123324	161129641	1	None	None
6	PLG	ENSG00000122194	ENST00000484367	retained_intron	KNOWN	None	9071	None	None	161126420	161133311	1	None	None
6	PLG	ENSG00000122194	ENST00000494325	processed_transcript	KNOWN	None	9071	None	None	161127142	161132604	1	None	None
6	PLG	ENSG00000122194	ENST00000471691	retained_intron	KNOWN	None	9071	None	None	161127407	161129349	1	None	None
6	PLG	ENSG00000122194	ENST00000493435	retained_intron	KNOWN	None	9071	None	None	161151772	161152865	1	None	None
6	PLG	ENSG00000122194	ENST00000467466	retained_intron	KNOWN	None	9071	None	None	161159467	161173285	1	None	None
6	PLG	ENSG00000122194	ENST00000461414	processed_transcript	KNOWN	None	9071	None	None	161162340	161174300	1	None	None
8	AFG3L2P1	ENSG00000253606	ENST00000521792	processed_pseudogene	KNOWN	None	24169	None	None	43125341	43127105	-1	AFG3L2P	None
8	EXOSC4	ENSG00000178896	ENST00000316052	protein_coding	KNOWN	CCDS6414	18189	738	245	145133529	145135550	1	None	hRrp41p, FLJ20591, Rrp41p, RRP41, RRP41A, Ski6p, SKI6, p12A
8	EXOSC4	ENSG00000178896	ENST00000525936	protein_coding	PUTATIVE	None	18189	471	156	145133551	145135419	1	None	hRrp41p, FLJ20591, Rrp41p, RRP41, RRP41A, Ski6p, SKI6, p12A
8	EXOSC4	ENSG00000178896	ENST00000527954	protein_coding	PUTATIVE	None	18189	785	260	145134326	145135482	1	None	hRrp41p, FLJ20591, Rrp41p, RRP41, RRP41A, Ski6p, SKI6, p12A
15	None	ENSG00000260361	ENST00000562894	sense_intronic	KNOWN	None	None	None	None	93322987	93324722	-1	None	None
13	CKAP2	ENSG00000136108	ENST00000468284	protein_coding	PUTATIVE	None	1990	281	92	53029564	53035488	1	None	LB1, FLJ10749, se20-10, TMAP
13	CKAP2	ENSG00000136108	ENST00000378034	protein_coding	KNOWN	None	1990	1485	494	53029574	53039978	1	None	LB1, FLJ10749, se20-10, TMAP
13	CKAP2	ENSG00000136108	ENST00000258607	protein_coding	KNOWN	CCDS9435	1990	2049	682	53029574	53050484	1	None	LB1, FLJ10749, se20-10, TMAP
13	CKAP2	ENSG00000136108	ENST00000378037	protein_coding	KNOWN	CCDS41893	1990	2052	683	53029602	53050763	1	None	LB1, FLJ10749, se20-10, TMAP
13	CKAP2	ENSG00000136108	ENST00000490903	protein_coding	NOVEL	None	1990	1905	634	53030107	53050484	1	None	LB1, FLJ10749, se20-10, TMAP
13	CKAP2	ENSG00000136108	ENST00000480747	protein_coding	PUTATIVE	None	1990	291	96	53030143	53035393	1	None	LB1, FLJ10749, se20-10, TMAP
13	CKAP2	ENSG00000136108	ENST00000459902	retained_intron	KNOWN	None	1990	None	None	53047670	53049277	1	None	LB1, FLJ10749, se20-10, TMAP
9	LINC00092	ENSG00000225194	ENST00000412122	lincRNA	KNOWN	None	31408	None	None	98782014	98784042	-1	NCRNA00092	bA346B7.1
9	LINC00092	ENSG00000225194	ENST00000583864	lincRNA	KNOWN	None	31408	None	None	98783296	98790242	-1	NCRNA00092	bA346B7.1
9	LINC00092	ENSG00000225194	ENST00000580908	lincRNA	KNOWN	None	31408	None	None	98787998	98790247	-1	NCRNA00092	bA346B7.1
11	None	ENSG00000257002	ENST00000543624	antisense	KNOWN	None	None	None	None	62677018	62685833	1	None	None
14	None	ENSG00000259081	ENST00000556368	antisense	KNOWN	None	None	None	None	77240627	77247861	-1	None	None
14	None	ENSG00000259081	ENST00000553507	antisense	KNOWN	None	None	None	None	77247051	77247799	-1	None	None
1	PKN2	ENSG00000065243	ENST00000316005	protein_coding	NOVEL	None	9406	1815	604	89149905	89271951	1	PRKCL2	PRK2, Pak-2
1	PKN2	ENSG00000065243	ENST00000370521	protein_coding	KNOWN	CCDS714	9406	2955	984	89149905	89301938	1	PRKCL2	PRK2, Pak-2
1	PKN2	ENSG00000065243	ENST00000436111	protein_coding	PUTATIVE	None	9406	632	209	89237138	89270577	1	PRKCL2	PRK2, Pak-2
1	PKN2	ENSG00000065243	ENST00000449189	protein_coding	PUTATIVE	None	9406	196	64	89290029	89294850	1	PRKCL2	PRK2, Pak-2
1	PKN2	ENSG00000065243	ENST00000495119	processed_transcript	KNOWN	None	9406	None	None	89298612	89299114	1	PRKCL2	PRK2, Pak-2
1	PKN2	ENSG00000065243	ENST00000370513	protein_coding	KNOWN	None	9406	2811	936	89150256	89299202	1	PRKCL2	PRK2, Pak-2
1	PKN2	ENSG00000065243	ENST00000370505	protein_coding	KNOWN	None	9406	2484	827	89149993	89299353	1	PRKCL2	PRK2, Pak-2
1	PKN2	ENSG00000065243	ENST00000544045	protein_coding	KNOWN	None	9406	1977	658	89246728	89299423	1	PRKCL2	PRK2, Pak-2
13	PPP1R26P1	ENSG00000238086	ENST00000474415	processed_pseudogene	KNOWN	None	42015	None	None	48890999	48894611	-1	KIAA0649P1	None
13	PPP1R26P1	ENSG00000238086	ENST00000599544	processed_pseudogene	KNOWN	None	42015	None	None	48894299	48894610	-1	KIAA0649P1	None
6	SNRPEP6	ENSG00000217824	ENST00000407465	processed_pseudogene	KNOWN	None	43571	None	None	148888514	148888790	-1	None	None
2	None	ENSG00000237166	ENST00000452787	lincRNA	KNOWN	None	None	None	None	201577028	201599900	-1	None	None
10	LINC00867	ENSG00000232139	ENST00000445161	lincRNA	KNOWN	None	45265	None	None	120116620	120118715	1	None	None
10	LINC00867	ENSG00000232139	ENST00000411666	lincRNA	KNOWN	None	45265	None	None	120117057	120118715	1	None	None
10	LINC00867	ENSG00000232139	ENST00000415417	lincRNA	KNOWN	None	45265	None	None	120117071	120124615	1	None	None
10	LINC00867	ENSG00000232139	ENST00000453236	lincRNA	KNOWN	None	45265	None	None	120117267	120124615	1	None	None
11	RN7SL259P	ENSG00000241082	ENST00000478499	misc_RNA	KNOWN	None	46275	None	None	62703456	62703706	-1	None	None
13	PCNPP5	ENSG00000177197	ENST00000452246	processed_pseudogene	KNOWN	None	41977	None	None	48902220	48902700	-1	None	None
15	ASB9P1	ENSG00000258527	ENST00000557146	processed_pseudogene	KNOWN	None	20972	None	None	93338877	93339669	1	None	None
11	None	ENSG00000256041	ENST00000536213	processed_pseudogene	KNOWN	None	None	None	None	62799975	62800575	-1	None	None
13	None	ENSG00000233456	ENST00000452288	lincRNA	KNOWN	None	None	None	None	49144775	49147453	-1	None	None
15	None	ENSG00000258922	ENST00000555325	sense_intronic	KNOWN	None	None	None	None	93349000	93351797	-1	None	None
15	None	ENSG00000268327	ENST00000599727	protein_coding	KNOWN	None	None	156	51	59439899	59440054	1	None	None
11	None	ENSG00000253547	ENST00000472881	processed_pseudogene	KNOWN	None	None	None	None	62814257	62815598	1	None	None
Y	None	ENSG00000225516	ENST00000450145	protein_coding	KNOWN	None	None	780	259	9293012	9323893	-1	None	None
Y	None	ENSG00000225516	ENST00000423213	protein_coding	KNOWN	None	None	765	254	9301461	9323893	-1	None	None
Y	None	ENSG00000225516	ENST00000430032	protein_coding	KNOWN	None	None	294	97	9323618	9344176	-1	None	None
17	CUEDC1	ENSG00000180891	ENST00000577830	protein_coding	KNOWN	CCDS11599	31350	1161	386	55938604	56032684	-1	None	None
17	CUEDC1	ENSG00000180891	ENST00000584746	retained_intron	KNOWN	None	31350	None	None	55938965	55948726	-1	None	None
17	CUEDC1	ENSG00000180891	ENST00000407144	protein_coding	KNOWN	CCDS11599	31350	1161	386	55940057	55970049	-1	None	None
17	CUEDC1	ENSG00000180891	ENST00000577422	processed_transcript	KNOWN	None	31350	None	None	55940236	55944666	-1	None	None
17	CUEDC1	ENSG00000180891	ENST00000582951	retained_intron	KNOWN	None	31350	None	None	55940236	55944991	-1	None	None
17	CUEDC1	ENSG00000180891	ENST00000581391	retained_intron	KNOWN	None	31350	None	None	55940236	55945826	-1	None	None
17	CUEDC1	ENSG00000180891	ENST00000577497	retained_intron	KNOWN	None	31350	None	None	55940324	55944218	-1	None	None
17	CUEDC1	ENSG00000180891	ENST00000578357	processed_transcript	KNOWN	None	31350	None	None	55940324	55947299	-1	None	None
17	CUEDC1	ENSG00000180891	ENST00000581898	protein_coding	NOVEL	None	31350	160	52	55940324	55950031	-1	None	None
17	CUEDC1	ENSG00000180891	ENST00000585294	protein_coding	KNOWN	None	31350	127	41	55940337	55944776	-1	None	None
17	CUEDC1	ENSG00000180891	ENST00000360238	protein_coding	KNOWN	CCDS11599	31350	1161	386	55940337	55980750	-1	None	None
17	CUEDC1	ENSG00000180891	ENST00000577840	protein_coding	PUTATIVE	None	31350	750	249	55940633	56032618	-1	None	None
17	CUEDC1	ENSG00000180891	ENST00000577589	protein_coding	PUTATIVE	None	31350	486	161	55950172	55963198	-1	None	None
8	None	ENSG00000253122	ENST00000523264	lincRNA	KNOWN	None	None	None	None	111621470	111644623	1	None	None
13	LINC00462	ENSG00000233610	ENST00000425350	lincRNA	KNOWN	None	42811	None	None	49151110	49152224	-1	None	None
15	RN7SL599P	ENSG00000264123	ENST00000580349	misc_RNA	KNOWN	None	46615	None	None	93399733	93400024	1	None	None
8	None	ENSG00000253717	ENST00000520749	lincRNA	KNOWN	None	None	None	None	111779092	111784988	1	None	None
2	RNU1-133P	ENSG00000201737	ENST00000364867	snRNA	KNOWN	None	48475	None	None	201640307	201640473	1	None	None
15	MIR3175	ENSG00000264173	ENST00000577670	miRNA	KNOWN	None	38299	None	None	93447629	93447705	1	None	hsa-mir-3175
20	KCNQ2	ENSG00000075043	ENST00000357249	protein_coding	KNOWN	CCDS13519	6296	2565	854	62037542	62103991	-1	EBN, EBN1	Kv7.2, ENB1, BFNC, KCNA11, HNSPC
20	KCNQ2	ENSG00000075043	ENST00000359125	protein_coding	KNOWN	CCDS13520	6296	2619	872	62037542	62103991	-1	EBN, EBN1	Kv7.2, ENB1, BFNC, KCNA11, HNSPC
20	KCNQ2	ENSG00000075043	ENST00000370226	protein_coding	NOVEL	None	6296	2529	842	62037542	62103991	-1	EBN, EBN1	Kv7.2, ENB1, BFNC, KCNA11, HNSPC
20	KCNQ2	ENSG00000075043	ENST00000360480	protein_coding	KNOWN	CCDS13518	6296	2535	844	62037799	62103991	-1	EBN, EBN1	Kv7.2, ENB1, BFNC, KCNA11, HNSPC
20	KCNQ2	ENSG00000075043	ENST00000344462	protein_coding	NOVEL	None	6296	2607	868	62037800	62103991	-1	EBN, EBN1	Kv7.2, ENB1, BFNC, KCNA11, HNSPC
20	KCNQ2	ENSG00000075043	ENST00000370224	protein_coding	NOVEL	None	6296	2643	880	62037800	62103991	-1	EBN, EBN1	Kv7.2, ENB1, BFNC, KCNA11, HNSPC
20	KCNQ2	ENSG00000075043	ENST00000370222	protein_coding	NOVEL	None	6296	1848	615	62044332	62103991	-1	EBN, EBN1	Kv7.2, ENB1, BFNC, KCNA11, HNSPC
20	KCNQ2	ENSG00000075043	ENST00000370221	protein_coding	NOVEL	None	6296	1311	436	62055377	62103991	-1	EBN, EBN1	Kv7.2, ENB1, BFNC, KCNA11, HNSPC
20	KCNQ2	ENSG00000075043	ENST00000482957	processed_transcript	KNOWN	None	6296	None	None	62065031	62066083	-1	EBN, EBN1	Kv7.2, ENB1, BFNC, KCNA11, HNSPC
20	KCNQ2	ENSG00000075043	ENST00000344425	protein_coding	KNOWN	CCDS13521	6296	1182	393	62065032	62103991	-1	EBN, EBN1	Kv7.2, ENB1, BFNC, KCNA11, HNSPC
20	KCNQ2	ENSG00000075043	ENST00000354587	protein_coding	KNOWN	None	6296	2643	880	62037542	62103993	-1	EBN, EBN1	Kv7.2, ENB1, BFNC, KCNA11, HNSPC
20	KCNQ2	ENSG00000075043	ENST00000359689	protein_coding	KNOWN	None	6296	2619	872	62037542	62103993	-1	EBN, EBN1	Kv7.2, ENB1, BFNC, KCNA11, HNSPC
20	KCNQ2	ENSG00000075043	ENST00000430658	protein_coding	KNOWN	CCDS46629	6296	2526	841	62037542	62103993	-1	EBN, EBN1	Kv7.2, ENB1, BFNC, KCNA11, HNSPC
2	None	ENSG00000230408	ENST00000447972	antisense	KNOWN	None	None	None	None	201645218	201676893	-1	None	None
12	None	ENSG00000256894	ENST00000535914	antisense	KNOWN	None	None	None	None	26278088	26279017	-1	None	None
12	None	ENSG00000256894	ENST00000545819	antisense	KNOWN	None	None	None	None	26278246	26279550	-1	None	None
13	None	ENSG00000222391	ENST00000410459	miRNA	NOVEL	None	None	None	None	49326225	49326292	-1	None	None
HSCHR6_MHC_COX	HLA-DRB1	ENSG00000206240	ENST00000399450	protein_coding	KNOWN	None	4948	801	266	32475947	32489361	-1	HLA-DR1B	None
HSCHR6_MHC_COX	HLA-DRB1	ENSG00000206240	ENST00000428566	protein_coding	KNOWN	None	4948	753	250	32478380	32506554	-1	HLA-DR1B	None
12	FAM222A	ENSG00000139438	ENST00000538780	protein_coding	KNOWN	CCDS9133	25915	1359	452	110152033	110208312	1	C12orf34	FLJ14721
12	FAM222A	ENSG00000139438	ENST00000543653	processed_transcript	PUTATIVE	None	25915	None	None	110152540	110160630	1	C12orf34	FLJ14721
12	FAM222A	ENSG00000139438	ENST00000358906	protein_coding	KNOWN	CCDS9133	25915	1359	452	110172572	110208299	1	C12orf34	FLJ14721
19	TOMM40	ENSG00000130204	ENST00000589253	protein_coding	KNOWN	None	18001	110	35	45393826	45394782	1	None	PEREC1, D19S1177E, C19orf1, TOM40, PER-EC1
19	TOMM40	ENSG00000130204	ENST00000252487	protein_coding	KNOWN	CCDS12646	18001	1086	361	45394477	45406946	1	None	PEREC1, D19S1177E, C19orf1, TOM40, PER-EC1
19	TOMM40	ENSG00000130204	ENST00000592434	protein_coding	KNOWN	None	18001	990	329	45394488	45406943	1	None	PEREC1, D19S1177E, C19orf1, TOM40, PER-EC1
19	TOMM40	ENSG00000130204	ENST00000426677	protein_coding	KNOWN	CCDS12646	18001	1086	361	45394493	45406885	1	None	PEREC1, D19S1177E, C19orf1, TOM40, PER-EC1
19	TOMM40	ENSG00000130204	ENST00000589649	protein_coding	KNOWN	None	18001	644	213	45394494	45397324	1	None	PEREC1, D19S1177E, C19orf1, TOM40, PER-EC1
19	TOMM40	ENSG00000130204	ENST00000592041	nonsense_mediated_decay	KNOWN	None	18001	506	167	45397086	45406389	1	None	PEREC1, D19S1177E, C19orf1, TOM40, PER-EC1
19	TOMM40	ENSG00000130204	ENST00000405636	protein_coding	KNOWN	CCDS12646	18001	1086	361	45394477	45406935	1	None	PEREC1, D19S1177E, C19orf1, TOM40, PER-EC1
13	PSME2P2	ENSG00000225131	ENST00000453033	processed_pseudogene	KNOWN	None	30160	None	None	49345264	49345963	1	None	None
13	PSME2P2	ENSG00000225131	ENST00000419812	processed_pseudogene	KNOWN	None	30160	None	None	49345759	49345965	1	None	None
15	LDHAL6B	ENSG00000171989	ENST00000307144	protein_coding	KNOWN	CCDS10171	21481	1146	381	59499042	59500705	1	LDHAL6	LDHL, LDH6B
X	None	ENSG00000265506	ENST00000580722	miRNA	NOVEL	None	None	None	None	24535357	24535457	-1	None	None
3	MIR3136	ENSG00000265355	ENST00000583498	miRNA	KNOWN	None	38340	None	None	69098109	69098186	-1	None	hsa-mir-3136
17	RNU6-1178P	ENSG00000252483	ENST00000516674	snRNA	KNOWN	None	48141	None	None	20797845	20797951	-1	None	None
X	None	ENSG00000260822	ENST00000568479	sense_overlapping	KNOWN	None	None	None	None	24563633	24568583	1	None	None
2	None	ENSG00000260006	ENST00000568571	lincRNA	KNOWN	None	None	None	None	201689396	201692061	1	None	None
17	RNASEH1P1	ENSG00000265790	ENST00000578666	processed_pseudogene	KNOWN	None	10049	None	None	20805252	20805993	-1	RNASEH1	RNH1
11	RPL29P22	ENSG00000239924	ENST00000498718	processed_pseudogene	KNOWN	None	35675	None	None	62883352	62883810	-1	None	None
13	None	ENSG00000265585	ENST00000580512	miRNA	NOVEL	None	None	None	None	49504256	49504348	-1	None	None
5	ANKRD33B	ENSG00000164236	ENST00000504806	nonsense_mediated_decay	KNOWN	None	35240	597	198	10564442	10649736	1	None	None
5	ANKRD33B	ENSG00000164236	ENST00000296657	protein_coding	NOVEL	CCDS47191	35240	1485	494	10564580	10650308	1	None	None
3	RNA5SP123	ENSG00000200114	ENST00000363244	rRNA	KNOWN	None	43023	None	None	12552594	12552712	-1	RN5S123	None
3	None	ENSG00000239219	ENST00000487580	antisense	KNOWN	None	None	None	None	169657141	169684028	-1	None	None
3	None	ENSG00000239219	ENST00000483289	antisense	KNOWN	None	None	None	None	169661044	169684014	-1	None	None
3	None	ENSG00000239219	ENST00000600502	antisense	KNOWN	None	None	None	None	169666827	169683902	-1	None	None
3	None	ENSG00000239219	ENST00000469301	antisense	KNOWN	None	None	None	None	169672015	169684522	-1	None	None
13	RNU6-60P	ENSG00000201662	ENST00000364792	snRNA	KNOWN	None	42550	None	None	49562051	49562153	1	RNU6-60	None
5	CCL28	ENSG00000151882	ENST00000489442	nonsense_mediated_decay	KNOWN	CCDS3944	17700	384	127	43376747	43412477	-1	None	SCYA28, MEC, CCK1
5	CCL28	ENSG00000151882	ENST00000361115	protein_coding	KNOWN	CCDS3944	17700	384	127	43379295	43412493	-1	None	SCYA28, MEC, CCK1
5	CCL28	ENSG00000151882	ENST00000513525	protein_coding	PUTATIVE	None	17700	243	80	43380994	43397366	-1	None	SCYA28, MEC, CCK1
5	CCL28	ENSG00000151882	ENST00000514421	retained_intron	KNOWN	None	17700	None	None	43388124	43412476	-1	None	SCYA28, MEC, CCK1
5	CCL28	ENSG00000151882	ENST00000537013	protein_coding	KNOWN	None	17700	354	117	43382090	43412418	-1	None	SCYA28, MEC, CCK1
17	None	ENSG00000265099	ENST00000584708	processed_pseudogene	KNOWN	None	None	None	None	20841336	20841657	-1	None	None
17	PTGES3L	ENSG00000267060	ENST00000424284	protein_coding	PUTATIVE	None	43943	386	127	41120105	41131681	-1	None	None
17	PTGES3L	ENSG00000267060	ENST00000409446	protein_coding	KNOWN	CCDS45692	43943	486	161	41120121	41132450	-1	None	None
17	PTGES3L	ENSG00000267060	ENST00000462157	retained_intron	KNOWN	None	43943	None	None	41120743	41132366	-1	None	None
17	PTGES3L	ENSG00000267060	ENST00000591916	protein_coding	PUTATIVE	None	43943	494	163	41120804	41132093	-1	None	None
17	PTGES3L	ENSG00000267060	ENST00000451885	protein_coding	PUTATIVE	None	43943	399	132	41121007	41132097	-1	None	None
17	PTGES3L	ENSG00000267060	ENST00000464183	retained_intron	KNOWN	None	43943	None	None	41121058	41124171	-1	None	None
17	PTGES3L	ENSG00000267060	ENST00000453594	protein_coding	KNOWN	CCDS45693	43943	501	166	41120107	41132545	-1	None	None
3	RBM43P1	ENSG00000239263	ENST00000476891	processed_pseudogene	KNOWN	None	46024	None	None	69520603	69521683	-1	None	None
13	RAD17P2	ENSG00000223724	ENST00000451754	processed_pseudogene	KNOWN	None	9809	None	None	49618215	49620930	-1	None	HRAD17P2
3	C3orf70	ENSG00000187068	ENST00000335012	protein_coding	KNOWN	CCDS33900	33731	753	250	184795838	184870802	-1	None	None
17	None	ENSG00000264660	ENST00000582583	antisense	KNOWN	None	None	None	None	20841851	20885670	1	None	None
17	None	ENSG00000264660	ENST00000581673	antisense	KNOWN	None	None	None	None	20867035	20883551	1	None	None
HG962_PATCH	None	ENSG00000265220	ENST00000588503	lincRNA	KNOWN	None	None	None	None	71010609	71014187	-1	None	None
HG962_PATCH	None	ENSG00000265220	ENST00000578228	lincRNA	KNOWN	None	None	None	None	71012849	71021370	-1	None	None
HG962_PATCH	None	ENSG00000265220	ENST00000585984	lincRNA	KNOWN	None	None	None	None	71013008	71021416	-1	None	None
10	FRG2B	ENSG00000225899	ENST00000443774	protein_coding	NOVEL	None	33518	840	279	135437399	135440296	-1	None	None
10	FRG2B	ENSG00000225899	ENST00000425520	protein_coding	KNOWN	CCDS44502	33518	837	278	135438603	135440299	-1	None	None
9	None	ENSG00000237212	ENST00000432783	lincRNA	KNOWN	None	None	None	None	98857493	98864194	1	None	None
11	None	ENSG00000256863	ENST00000538233	unprocessed_pseudogene	KNOWN	None	None	None	None	63005429	63006586	-1	None	None
11	RAG2	ENSG00000175097	ENST00000524423	processed_transcript	KNOWN	None	9832	None	None	36597124	36619782	-1	None	None
11	RAG2	ENSG00000175097	ENST00000311485	protein_coding	KNOWN	CCDS7903	9832	1584	527	36613493	36619786	-1	None	None
11	RAG2	ENSG00000175097	ENST00000529083	protein_coding	KNOWN	None	9832	452	149	36615267	36616305	-1	None	None
11	RAG2	ENSG00000175097	ENST00000527033	protein_coding	KNOWN	None	9832	212	69	36615507	36619786	-1	None	None
11	RAG2	ENSG00000175097	ENST00000532616	protein_coding	KNOWN	None	9832	3	0	36615716	36619786	-1	None	None
11	RAG2	ENSG00000175097	ENST00000534379	processed_transcript	KNOWN	None	9832	None	None	36616145	36619783	-1	None	None
11	RAG2	ENSG00000175097	ENST00000528428	processed_transcript	KNOWN	None	9832	None	None	36616291	36619829	-1	None	None
11	RAG2	ENSG00000175097	ENST00000530276	processed_transcript	KNOWN	None	9832	None	None	36616413	36619783	-1	None	None
13	RNY3P2	ENSG00000199788	ENST00000362918	misc_RNA	KNOWN	None	42486	None	None	49669527	49669628	1	None	None
7	FAM71F2	ENSG00000205085	ENST00000460349	processed_transcript	KNOWN	None	27998	None	None	128312342	128318166	1	FAM137B	None
7	FAM71F2	ENSG00000205085	ENST00000474069	nonsense_mediated_decay	KNOWN	CCDS47702	27998	903	300	128312346	128324300	1	FAM137B	None
7	FAM71F2	ENSG00000205085	ENST00000480462	protein_coding	KNOWN	CCDS47701	27998	930	309	128312346	128324324	1	FAM137B	None
7	FAM71F2	ENSG00000205085	ENST00000434001	nonsense_mediated_decay	KNOWN	CCDS47702	27998	903	300	128312347	128324300	1	FAM137B	None
7	FAM71F2	ENSG00000205085	ENST00000477515	protein_coding	NOVEL	None	27998	510	169	128312353	128323188	1	FAM137B	None
7	FAM71F2	ENSG00000205085	ENST00000461131	processed_transcript	KNOWN	None	27998	None	None	128323095	128326929	1	FAM137B	None
7	FAM71F2	ENSG00000205085	ENST00000378704	protein_coding	KNOWN	CCDS47702	27998	903	300	128312346	128323309	1	FAM137B	None
13	COX7CP1	ENSG00000235957	ENST00000446556	processed_pseudogene	KNOWN	None	2293	None	None	49761615	49761806	-1	None	None
9	None	ENSG00000201938	ENST00000365068	misc_RNA	NOVEL	None	None	None	None	98865361	98865456	-1	None	None
1	GABRD	ENSG00000187730	ENST00000378585	protein_coding	KNOWN	CCDS36	4084	1359	452	1950780	1962192	1	None	None
12	None	ENSG00000256234	ENST00000540392	antisense	KNOWN	None	None	None	None	26364097	26488789	-1	None	None
9	EIF4BP3	ENSG00000224546	ENST00000432132	processed_pseudogene	KNOWN	None	37936	None	None	98908289	98910138	1	None	None
13	OGFOD1P1	ENSG00000231665	ENST00000447552	processed_pseudogene	KNOWN	None	39202	None	None	49784558	49786430	-1	None	None
13	SNRPGP14	ENSG00000236577	ENST00000435400	processed_pseudogene	KNOWN	None	42039	None	None	50063106	50063500	1	None	None
3	None	ENSG00000240265	ENST00000498809	processed_pseudogene	KNOWN	None	None	None	None	69584815	69585844	-1	None	None
2	EMILIN1	ENSG00000138080	ENST00000380320	protein_coding	KNOWN	CCDS1733	19880	3051	1016	27301435	27309271	1	None	DKFZp586M121, gp115
2	EMILIN1	ENSG00000138080	ENST00000433140	protein_coding	PUTATIVE	None	19880	1043	346	27306463	27309271	1	None	DKFZp586M121, gp115
5	None	ENSG00000242292	ENST00000474150	processed_pseudogene	KNOWN	None	None	None	None	36588608	36588763	1	None	None
9	None	ENSG00000265367	ENST00000577254	miRNA	NOVEL	None	None	None	None	98998105	98998204	-1	None	None
4	F11	ENSG00000088926	ENST00000403665	protein_coding	KNOWN	CCDS3847	3529	1878	625	187187099	187209934	1	None	FXI
4	F11	ENSG00000088926	ENST00000492972	protein_coding	PUTATIVE	None	3529	489	162	187187354	187196051	1	None	FXI
4	F11	ENSG00000088926	ENST00000514715	retained_intron	KNOWN	None	3529	None	None	187194135	187195763	1	None	FXI
4	F11	ENSG00000088926	ENST00000452239	protein_coding	PUTATIVE	None	3529	632	209	187197009	187203223	1	None	FXI
4	F11	ENSG00000088926	ENST00000264691	protein_coding	PUTATIVE	None	3529	478	158	187206792	187209960	1	None	FXI
4	F11	ENSG00000088926	ENST00000503841	retained_intron	KNOWN	None	3529	None	None	187208743	187209934	1	None	FXI
4	F11	ENSG00000088926	ENST00000264692	protein_coding	KNOWN	None	3529	1722	573	187187118	187210835	1	None	FXI
13	None	ENSG00000176882	ENST00000451812	processed_pseudogene	KNOWN	None	None	None	None	50194450	50194782	1	None	None
13	None	ENSG00000176882	ENST00000316159	pseudogene	KNOWN	None	None	None	None	50194450	50194784	1	None	None
5	PRKAA1	ENSG00000132356	ENST00000397128	protein_coding	KNOWN	CCDS3932	9376	1680	559	40759481	40798300	-1	None	AMPKa1
5	PRKAA1	ENSG00000132356	ENST00000354209	protein_coding	KNOWN	CCDS3933	9376	1725	574	40762872	40798476	-1	None	AMPKa1
5	PRKAA1	ENSG00000132356	ENST00000513152	retained_intron	KNOWN	None	9376	None	None	40764344	40764890	-1	None	AMPKa1
5	PRKAA1	ENSG00000132356	ENST00000505783	retained_intron	KNOWN	None	9376	None	None	40764872	40771957	-1	None	AMPKa1
5	PRKAA1	ENSG00000132356	ENST00000506652	retained_intron	KNOWN	None	9376	None	None	40765039	40798250	-1	None	AMPKa1
5	PRKAA1	ENSG00000132356	ENST00000509874	retained_intron	KNOWN	None	9376	None	None	40767609	40798291	-1	None	AMPKa1
5	PRKAA1	ENSG00000132356	ENST00000296800	protein_coding	PUTATIVE	None	9376	624	207	40768487	40798276	-1	None	AMPKa1
5	PRKAA1	ENSG00000132356	ENST00000511248	retained_intron	KNOWN	None	9376	None	None	40777118	40798261	-1	None	AMPKa1
5	PRKAA1	ENSG00000132356	ENST00000397006	retained_intron	KNOWN	None	9376	None	None	40777262	40798272	-1	None	AMPKa1
11	None	ENSG00000256847	ENST00000539268	processed_pseudogene	KNOWN	None	None	None	None	63010557	63011476	1	None	None
12	None	ENSG00000268091	ENST00000601092	protein_coding	NOVEL	None	None	507	168	131514221	131514769	-1	None	None
8	None	ENSG00000249694	ENST00000515276	lincRNA	KNOWN	None	None	None	None	2447076	2480453	-1	None	None
8	None	ENSG00000249694	ENST00000523394	lincRNA	KNOWN	None	None	None	None	2447076	2480453	-1	None	None
5	None	ENSG00000250155	ENST00000510740	antisense	KNOWN	None	None	None	None	36666316	36725275	-1	None	None
5	None	ENSG00000250155	ENST00000512329	antisense	KNOWN	None	None	None	None	36702580	36725278	-1	None	None
5	None	ENSG00000250155	ENST00000508745	antisense	KNOWN	None	None	None	None	36702732	36725297	-1	None	None
Y	TSPY6P	ENSG00000238074	ENST00000440215	protein_coding	KNOWN	None	34039	945	314	9324922	9327689	1	TSPYP6	None
Y	TSPY6P	ENSG00000238074	ENST00000446779	protein_coding	KNOWN	None	34039	414	137	9324922	9327689	1	TSPYP6	None
13	None	ENSG00000203547	ENST00000366359	pseudogene	NOVEL	None	None	None	None	50243040	50243254	1	None	None
HSCHR6_MHC_COX	None	ENSG00000257473	ENST00000548145	protein_coding	KNOWN	None	None	759	252	32533367	32539159	1	None	None
HSCHR6_MHC_COX	None	ENSG00000257473	ENST00000552745	protein_coding	KNOWN	None	None	765	254	32533367	32539589	1	None	None
13	RNY4P30	ENSG00000222148	ENST00000410216	misc_RNA	KNOWN	None	42498	None	None	50463770	50463864	-1	None	None
13	CTAGE10P	ENSG00000181358	ENST00000318353	processed_pseudogene	KNOWN	None	37288	None	None	50464727	50467134	1	None	None
3	CEP19	ENSG00000174007	ENST00000409690	protein_coding	KNOWN	CCDS43193	28209	504	167	196433148	196439164	-1	C3orf34	MGC14126
3	CEP19	ENSG00000174007	ENST00000399942	protein_coding	NOVEL	None	28209	387	128	196433932	196439119	-1	C3orf34	MGC14126
HSCHR2_1_CTG12	NOSTRIN	ENSG00000262773	ENST00000576504	protein_coding	NOVEL	None	20203	1692	563	169643049	169721567	1	None	MGC20702
HSCHR2_1_CTG12	NOSTRIN	ENSG00000262773	ENST00000571377	protein_coding	KNOWN	None	20203	1521	506	169658928	169722026	1	None	MGC20702
HSCHR2_1_CTG12	NOSTRIN	ENSG00000262773	ENST00000571481	nonsense_mediated_decay	KNOWN	None	20203	294	97	169659102	169688043	1	None	MGC20702
HSCHR2_1_CTG12	NOSTRIN	ENSG00000262773	ENST00000576231	protein_coding	NOVEL	None	20203	1287	428	169659107	169721566	1	None	MGC20702
HSCHR2_1_CTG12	NOSTRIN	ENSG00000262773	ENST00000574986	protein_coding	KNOWN	None	20203	1287	428	169659146	169721482	1	None	MGC20702
HSCHR2_1_CTG12	NOSTRIN	ENSG00000262773	ENST00000573340	retained_intron	KNOWN	None	20203	None	None	169659149	169668594	1	None	MGC20702
HSCHR2_1_CTG12	NOSTRIN	ENSG00000262773	ENST00000574102	protein_coding	NOVEL	None	20203	1437	478	169659157	169721482	1	None	MGC20702
HSCHR2_1_CTG12	NOSTRIN	ENSG00000262773	ENST00000574750	protein_coding	NOVEL	None	20203	1437	478	169659157	169721482	1	None	MGC20702
HSCHR2_1_CTG12	NOSTRIN	ENSG00000262773	ENST00000572402	protein_coding	PUTATIVE	None	20203	495	164	169667844	169707692	1	None	MGC20702
HSCHR2_1_CTG12	NOSTRIN	ENSG00000262773	ENST00000574057	retained_intron	KNOWN	None	20203	None	None	169699562	169712166	1	None	MGC20702
HSCHR2_1_CTG12	NOSTRIN	ENSG00000262773	ENST00000575703	nonsense_mediated_decay	KNOWN	None	20203	62	19	169711932	169716046	1	None	MGC20702
HSCHR2_1_CTG12	NOSTRIN	ENSG00000262773	ENST00000570435	retained_intron	KNOWN	None	20203	None	None	169712198	169721566	1	None	MGC20702
HSCHR2_1_CTG12	NOSTRIN	ENSG00000262773	ENST00000576882	retained_intron	KNOWN	None	20203	None	None	169715622	169717352	1	None	MGC20702
15	FAM81A	ENSG00000157470	ENST00000558348	protein_coding	KNOWN	None	28379	326	107	59664892	59784501	1	None	MGC26690
15	FAM81A	ENSG00000157470	ENST00000560394	protein_coding	KNOWN	None	28379	399	132	59665194	59784574	1	None	MGC26690
15	FAM81A	ENSG00000157470	ENST00000288228	protein_coding	KNOWN	CCDS45269	28379	1107	368	59730372	59815748	1	None	MGC26690
15	FAM81A	ENSG00000157470	ENST00000559628	protein_coding	KNOWN	None	28379	203	66	59730400	59752314	1	None	MGC26690
15	FAM81A	ENSG00000157470	ENST00000558513	retained_intron	KNOWN	None	28379	None	None	59730400	59752839	1	None	MGC26690
15	FAM81A	ENSG00000157470	ENST00000557914	protein_coding	KNOWN	None	28379	204	67	59730404	59752315	1	None	MGC26690
15	FAM81A	ENSG00000157470	ENST00000560474	protein_coding	PUTATIVE	None	28379	440	145	59730430	59784588	1	None	MGC26690
15	FAM81A	ENSG00000157470	ENST00000557895	processed_transcript	KNOWN	None	28379	None	None	59730444	59738880	1	None	MGC26690
15	FAM81A	ENSG00000157470	ENST00000560022	processed_transcript	KNOWN	None	28379	None	None	59730460	59738664	1	None	MGC26690
15	FAM81A	ENSG00000157470	ENST00000560087	protein_coding	PUTATIVE	None	28379	379	125	59730663	59784527	1	None	MGC26690
15	FAM81A	ENSG00000157470	ENST00000560074	protein_coding	KNOWN	None	28379	345	114	59730695	59784520	1	None	MGC26690
15	FAM81A	ENSG00000157470	ENST00000560118	processed_transcript	KNOWN	None	28379	None	None	59732153	59738823	1	None	MGC26690
15	FAM81A	ENSG00000157470	ENST00000558900	retained_intron	KNOWN	None	28379	None	None	59732233	59737767	1	None	MGC26690
15	FAM81A	ENSG00000157470	ENST00000560123	protein_coding	KNOWN	None	28379	175	57	59736189	59752286	1	None	MGC26690
15	FAM81A	ENSG00000157470	ENST00000561361	protein_coding	KNOWN	None	28379	347	114	59737305	59784522	1	None	MGC26690
X	MYCLP2	ENSG00000228004	ENST00000449268	processed_pseudogene	KNOWN	None	48924	None	None	57960271	57961237	-1	None	None
14	None	ENSG00000254846	ENST00000528210	antisense	KNOWN	None	None	None	None	20812392	20815047	-1	None	None
13	RNY4P9	ENSG00000200064	ENST00000363194	misc_RNA	KNOWN	None	34058	None	None	50482770	50482866	-1	None	None
17	WSCD1	ENSG00000179314	ENST00000563763	processed_transcript	KNOWN	None	29060	None	None	5675554	5834016	1	None	KIAA0523
17	WSCD1	ENSG00000179314	ENST00000573619	protein_coding	KNOWN	None	29060	134	43	5676246	5984112	1	None	KIAA0523
17	WSCD1	ENSG00000179314	ENST00000572764	processed_transcript	PUTATIVE	None	29060	None	None	5961127	5983969	1	None	KIAA0523
17	WSCD1	ENSG00000179314	ENST00000574946	protein_coding	KNOWN	CCDS32538	29060	1728	575	5972426	6027747	1	None	KIAA0523
17	WSCD1	ENSG00000179314	ENST00000573634	protein_coding	PUTATIVE	None	29060	1380	459	5972437	6024058	1	None	KIAA0523
17	WSCD1	ENSG00000179314	ENST00000576083	protein_coding	KNOWN	None	29060	542	179	5973744	5991424	1	None	KIAA0523
17	WSCD1	ENSG00000179314	ENST00000574232	protein_coding	KNOWN	CCDS32538	29060	1728	575	5974428	6024030	1	None	KIAA0523
17	WSCD1	ENSG00000179314	ENST00000571973	protein_coding	KNOWN	None	29060	262	86	5981270	5984240	1	None	KIAA0523
17	WSCD1	ENSG00000179314	ENST00000576233	protein_coding	KNOWN	None	29060	136	44	5983467	5984114	1	None	KIAA0523
17	WSCD1	ENSG00000179314	ENST00000571494	nonsense_mediated_decay	KNOWN	None	29060	410	135	5984064	6024621	1	None	KIAA0523
17	WSCD1	ENSG00000179314	ENST00000576947	protein_coding	PUTATIVE	None	29060	79	25	5985202	5993681	1	None	KIAA0523
17	WSCD1	ENSG00000179314	ENST00000317744	protein_coding	KNOWN	CCDS32538	29060	1728	575	5973934	6027745	1	None	KIAA0523
17	WSCD1	ENSG00000179314	ENST00000539421	protein_coding	KNOWN	CCDS32538	29060	1728	575	5974428	6024620	1	None	KIAA0523
13	None	ENSG00000264526	ENST00000579259	miRNA	NOVEL	None	None	None	None	50526670	50526750	-1	None	None
X	KRT8P17	ENSG00000235124	ENST00000453110	processed_pseudogene	KNOWN	None	33369	None	None	58011120	58012567	1	None	None
12	None	ENSG00000255750	ENST00000540625	antisense	KNOWN	None	None	None	None	26383752	26472653	-1	None	None
12	None	ENSG00000255750	ENST00000537525	antisense	KNOWN	None	None	None	None	26383782	26424755	-1	None	None
12	None	ENSG00000255750	ENST00000541940	antisense	KNOWN	None	None	None	None	26384327	26424853	-1	None	None
X	None	ENSG00000238049	ENST00000456203	processed_pseudogene	KNOWN	None	None	None	None	102602390	102602657	-1	None	None
13	MIR3613	ENSG00000264864	ENST00000579844	miRNA	KNOWN	None	38964	None	None	50570551	50570637	-1	None	hsa-mir-3613
6	SERPINB6	ENSG00000124570	ENST00000380520	protein_coding	KNOWN	CCDS4479	8950	1131	376	2948393	2961561	-1	PI6, DFNB91	PTI, CAP
6	SERPINB6	ENSG00000124570	ENST00000380524	protein_coding	KNOWN	CCDS4479	8950	1131	376	2948393	2962342	-1	PI6, DFNB91	PTI, CAP
6	SERPINB6	ENSG00000124570	ENST00000380529	protein_coding	KNOWN	CCDS4479	8950	1131	376	2948393	2971440	-1	PI6, DFNB91	PTI, CAP
6	SERPINB6	ENSG00000124570	ENST00000380539	protein_coding	KNOWN	CCDS4479	8950	1131	376	2948393	2971539	-1	PI6, DFNB91	PTI, CAP
6	SERPINB6	ENSG00000124570	ENST00000380546	protein_coding	KNOWN	CCDS4479	8950	1131	376	2948393	2971819	-1	PI6, DFNB91	PTI, CAP
6	SERPINB6	ENSG00000124570	ENST00000335686	protein_coding	KNOWN	CCDS4479	8950	1131	376	2948393	2972090	-1	PI6, DFNB91	PTI, CAP
X	PAGE1	ENSG00000068985	ENST00000376150	protein_coding	KNOWN	CCDS14327	4107	441	146	49452053	49460596	-1	GAGEB1	PAGE-1, GAGE-9, CT16.3
14	RNA5SP382	ENSG00000200225	ENST00000363355	rRNA	KNOWN	None	43282	None	None	20883146	20883257	1	RN5S382	None
HSCHR21_4_CTG1_1	TMEM50B	ENSG00000263160	ENST00000573757	processed_transcript	KNOWN	None	1280	None	None	34804792	34821271	-1	C21orf4	None
HSCHR21_4_CTG1_1	TMEM50B	ENSG00000263160	ENST00000571778	nonsense_mediated_decay	KNOWN	None	1280	477	158	34804792	34861807	-1	C21orf4	None
HSCHR21_4_CTG1_1	TMEM50B	ENSG00000263160	ENST00000570948	processed_transcript	KNOWN	None	1280	None	None	34805105	34821717	-1	C21orf4	None
HSCHR21_4_CTG1_1	TMEM50B	ENSG00000263160	ENST00000573907	processed_transcript	KNOWN	None	1280	None	None	34809191	34821496	-1	C21orf4	None
HSCHR21_4_CTG1_1	TMEM50B	ENSG00000263160	ENST00000573374	protein_coding	KNOWN	None	1280	477	158	34821442	34861875	-1	C21orf4	None
HSCHR21_4_CTG1_1	TMEM50B	ENSG00000263160	ENST00000572455	nonsense_mediated_decay	KNOWN	None	1280	135	44	34822828	34841242	-1	C21orf4	None
HSCHR21_4_CTG1_1	TMEM50B	ENSG00000263160	ENST00000573687	nonsense_mediated_decay	KNOWN	None	1280	456	151	34822854	34861800	-1	C21orf4	None
HSCHR21_4_CTG1_1	TMEM50B	ENSG00000263160	ENST00000573342	retained_intron	KNOWN	None	1280	None	None	34837326	34839443	-1	C21orf4	None
HSCHR21_4_CTG1_1	TMEM50B	ENSG00000263160	ENST00000574612	protein_coding	KNOWN	None	1280	244	80	34837686	34861153	-1	C21orf4	None
HSCHR21_4_CTG1_1	TMEM50B	ENSG00000263160	ENST00000575383	protein_coding	KNOWN	None	1280	187	61	34839343	34863056	-1	C21orf4	None
HSCHR21_4_CTG1_1	TMEM50B	ENSG00000263160	ENST00000571497	retained_intron	KNOWN	None	1280	None	None	34840736	34861812	-1	C21orf4	None
6	GNL1	ENSG00000204590	ENST00000376621	protein_coding	KNOWN	CCDS4680	4413	1824	607	30509154	30524951	-1	None	HSR1
6	GNL1	ENSG00000204590	ENST00000462708	retained_intron	KNOWN	None	4413	None	None	30514262	30520323	-1	None	HSR1
6	GNL1	ENSG00000204590	ENST00000464231	retained_intron	KNOWN	None	4413	None	None	30514973	30515594	-1	None	HSR1
6	GNL1	ENSG00000204590	ENST00000487166	retained_intron	KNOWN	None	4413	None	None	30519954	30520897	-1	None	HSR1
6	GNL1	ENSG00000204590	ENST00000433809	protein_coding	KNOWN	None	4413	792	263	30521137	30523865	-1	None	HSR1
6	BAG2	ENSG00000112208	ENST00000370693	protein_coding	KNOWN	CCDS4961	938	636	211	57037124	57054631	1	None	None
6	BAG2	ENSG00000112208	ENST00000545080	protein_coding	KNOWN	None	938	537	178	57038234	57049498	1	None	None
X	None	ENSG00000234405	ENST00000445990	antisense	KNOWN	None	None	None	None	102752451	102755245	1	None	None
11	RNU6-262P	ENSG00000222249	ENST00000410317	snRNA	KNOWN	None	47225	None	None	119160272	119160387	-1	None	None
3	EHHADH	ENSG00000113790	ENST00000231887	protein_coding	KNOWN	CCDS33901	3247	2172	723	184908412	184971886	-1	ECHD	None
3	EHHADH	ENSG00000113790	ENST00000456310	protein_coding	PUTATIVE	CCDS54694	3247	1884	627	184909758	184971836	-1	ECHD	None
3	EHHADH	ENSG00000113790	ENST00000483104	processed_transcript	PUTATIVE	None	3247	None	None	184922444	184953250	-1	ECHD	None
3	EHHADH	ENSG00000113790	ENST00000475987	processed_transcript	KNOWN	None	3247	None	None	184935982	184971837	-1	ECHD	None
3	EHHADH	ENSG00000113790	ENST00000440662	protein_coding	PUTATIVE	None	3247	231	76	184965733	184971819	-1	ECHD	None
3	EHHADH	ENSG00000113790	ENST00000465178	processed_transcript	PUTATIVE	None	3247	None	None	184966221	184999778	-1	ECHD	None
15	None	ENSG00000258611	ENST00000557561	transcribed_processed_pseudogene	KNOWN	None	None	None	None	93608815	93609835	-1	None	None
X	None	ENSG00000236852	ENST00000455793	processed_pseudogene	KNOWN	None	None	None	None	61998720	61999796	1	None	None
8	None	ENSG00000254319	ENST00000523971	lincRNA	KNOWN	None	None	None	None	2523591	2585991	-1	None	None
8	None	ENSG00000254319	ENST00000519393	lincRNA	KNOWN	None	None	None	None	2523614	2585929	-1	None	None
8	None	ENSG00000254319	ENST00000517357	lincRNA	KNOWN	None	None	None	None	2527314	2585959	-1	None	None
8	None	ENSG00000254319	ENST00000517984	lincRNA	KNOWN	None	None	None	None	2527341	2585959	-1	None	None
8	None	ENSG00000254319	ENST00000520842	lincRNA	KNOWN	None	None	None	None	2554056	2585957	-1	None	None
8	None	ENSG00000254319	ENST00000520570	lincRNA	KNOWN	None	None	None	None	2558974	2585957	-1	None	None
11	IFITM10	ENSG00000244242	ENST00000382123	nonsense_mediated_decay	KNOWN	None	40022	387	128	1753640	1771810	-1	None	None
11	IFITM10	ENSG00000244242	ENST00000340134	protein_coding	KNOWN	CCDS53593	40022	687	228	1753640	1771821	-1	None	None
11	IFITM10	ENSG00000244242	ENST00000482459	processed_transcript	KNOWN	None	40022	None	None	1756443	1770332	-1	None	None
11	IFITM10	ENSG00000244242	ENST00000486852	retained_intron	KNOWN	None	40022	None	None	1769160	1770427	-1	None	None
15	None	ENSG00000258888	ENST00000555297	lincRNA	KNOWN	None	None	None	None	93800427	93803704	1	None	None
3	None	ENSG00000240842	ENST00000465347	lincRNA	KNOWN	None	None	None	None	69613257	69620273	-1	None	None
19	RN7SL368P	ENSG00000239948	ENST00000473384	misc_RNA	KNOWN	None	46384	None	None	44164652	44164928	-1	None	None
12	RNU6-247P	ENSG00000199506	ENST00000362636	snRNA	KNOWN	None	47210	None	None	96186307	96186413	-1	None	None
16	C16orf80	ENSG00000070761	ENST00000262498	protein_coding	KNOWN	CCDS10793	29523	582	193	58147496	58163354	-1	None	GTL3, fSAP23
16	C16orf80	ENSG00000070761	ENST00000562622	retained_intron	KNOWN	None	29523	None	None	58147510	58163275	-1	None	GTL3, fSAP23
16	C16orf80	ENSG00000070761	ENST00000564150	retained_intron	KNOWN	None	29523	None	None	58147864	58149471	-1	None	GTL3, fSAP23
16	C16orf80	ENSG00000070761	ENST00000562443	processed_transcript	PUTATIVE	None	29523	None	None	58148866	58149354	-1	None	GTL3, fSAP23
16	C16orf80	ENSG00000070761	ENST00000565880	protein_coding	NOVEL	None	29523	326	107	58149305	58163265	-1	None	GTL3, fSAP23
16	C16orf80	ENSG00000070761	ENST00000567092	retained_intron	KNOWN	None	29523	None	None	58149696	58163204	-1	None	GTL3, fSAP23
16	C16orf80	ENSG00000070761	ENST00000567660	retained_intron	KNOWN	None	29523	None	None	58150462	58163272	-1	None	GTL3, fSAP23
15	None	ENSG00000212063	ENST00000390774	miRNA	NOVEL	None	None	None	None	93829464	93829552	-1	None	None
13	DLEU2	ENSG00000231607	ENST00000425586	processed_transcript	KNOWN	None	13748	None	None	50601269	50699856	-1	DLB2, BCMSUN, RFP2OS	LEU2, TRIM13OS, NCRNA00022, LINC00022, MIR15AHG
13	DLEU2	ENSG00000231607	ENST00000458725	processed_transcript	KNOWN	None	13748	None	None	50618051	50656114	-1	DLB2, BCMSUN, RFP2OS	LEU2, TRIM13OS, NCRNA00022, LINC00022, MIR15AHG
13	DLEU2	ENSG00000231607	ENST00000433070	processed_transcript	KNOWN	None	13748	None	None	50618523	50656128	-1	DLB2, BCMSUN, RFP2OS	LEU2, TRIM13OS, NCRNA00022, LINC00022, MIR15AHG
13	DLEU2	ENSG00000231607	ENST00000443587	processed_transcript	KNOWN	None	13748	None	None	50618651	50656108	-1	DLB2, BCMSUN, RFP2OS	LEU2, TRIM13OS, NCRNA00022, LINC00022, MIR15AHG
13	DLEU2	ENSG00000231607	ENST00000421758	processed_transcript	KNOWN	None	13748	None	None	50623325	50656109	-1	DLB2, BCMSUN, RFP2OS	LEU2, TRIM13OS, NCRNA00022, LINC00022, MIR15AHG
13	DLEU2	ENSG00000231607	ENST00000449579	processed_transcript	KNOWN	None	13748	None	None	50623326	50656114	-1	DLB2, BCMSUN, RFP2OS	LEU2, TRIM13OS, NCRNA00022, LINC00022, MIR15AHG
13	DLEU2	ENSG00000231607	ENST00000607334	miRNA	KNOWN	None	13748	None	None	50623255	50623337	-1	DLB2, BCMSUN, RFP2OS	LEU2, TRIM13OS, NCRNA00022, LINC00022, MIR15AHG
13	DLEU2	ENSG00000231607	ENST00000235290	processed_transcript	KNOWN	None	13748	None	None	50618050	50656127	-1	DLB2, BCMSUN, RFP2OS	LEU2, TRIM13OS, NCRNA00022, LINC00022, MIR15AHG
9	None	ENSG00000232283	ENST00000448857	antisense	KNOWN	None	None	None	None	99008744	99012675	1	None	None
19	None	ENSG00000264133	ENST00000580312	miRNA	NOVEL	None	None	None	None	44167328	44167426	-1	None	None
3	None	ENSG00000241667	ENST00000460597	lincRNA	KNOWN	None	None	None	None	69640492	69642272	1	None	None
19	None	ENSG00000268601	ENST00000595680	lincRNA	KNOWN	None	None	None	None	44298461	44299810	-1	None	None
15	None	ENSG00000258971	ENST00000556538	processed_pseudogene	KNOWN	None	None	None	None	93844645	93844876	-1	None	None
11	None	ENSG00000256181	ENST00000538772	unprocessed_pseudogene	KNOWN	None	None	None	None	63033308	63033728	-1	None	None
16	IGHV3OR16-12	ENSG00000270467	ENST00000570121	IG_V_gene	KNOWN	None	5636	353	116	33605231	33605684	1	None	IGHV3/OR16-12
19	None	ENSG00000267058	ENST00000587128	lincRNA	KNOWN	None	None	None	None	44395956	44405957	-1	None	None
19	None	ENSG00000267058	ENST00000591815	lincRNA	KNOWN	None	None	None	None	44405070	44405663	-1	None	None
11	None	ENSG00000252119	ENST00000516310	snoRNA	NOVEL	None	None	None	None	119194003	119194119	-1	None	None
16	None	ENSG00000265573	ENST00000584072	miRNA	NOVEL	None	None	None	None	72821592	72821672	-1	None	None
3	RN7SL418P	ENSG00000241665	ENST00000473031	misc_RNA	KNOWN	None	46434	None	None	69818640	69818928	-1	None	None
16	None	ENSG00000259901	ENST00000569195	antisense	KNOWN	None	None	None	None	72823142	72825522	1	None	None
3	None	ENSG00000265722	ENST00000583591	miRNA	NOVEL	None	None	None	None	69969276	69969361	1	None	None
15	None	ENSG00000257060	ENST00000554466	lincRNA	KNOWN	None	None	None	None	93855786	94073491	1	None	None
15	None	ENSG00000257060	ENST00000543286	lincRNA	KNOWN	None	None	None	None	93855786	94098099	1	None	None
15	None	ENSG00000257060	ENST00000554105	lincRNA	KNOWN	None	None	None	None	93856331	94073643	1	None	None
15	None	ENSG00000257060	ENST00000556519	lincRNA	KNOWN	None	None	None	None	93856415	94041876	1	None	None
15	None	ENSG00000257060	ENST00000553478	lincRNA	KNOWN	None	None	None	None	93856435	94112712	1	None	None
11	None	ENSG00000203520	ENST00000542805	antisense	KNOWN	None	None	None	None	63383780	63389143	1	None	None
5	DAP	ENSG00000112977	ENST00000230895	protein_coding	KNOWN	CCDS3880	2672	309	102	10679342	10761384	-1	None	None
5	DAP	ENSG00000112977	ENST00000432074	protein_coding	PUTATIVE	None	2672	615	204	10680546	10761340	-1	None	None
5	DAP	ENSG00000112977	ENST00000514882	retained_intron	KNOWN	None	2672	None	None	10681203	10761248	-1	None	None
5	DAP	ENSG00000112977	ENST00000508253	retained_intron	KNOWN	None	2672	None	None	10683208	10761337	-1	None	None
5	DAP	ENSG00000112977	ENST00000510546	processed_transcript	PUTATIVE	None	2672	None	None	10733884	10761311	-1	None	None
5	DAP	ENSG00000112977	ENST00000508646	retained_intron	KNOWN	None	2672	None	None	10748195	10761213	-1	None	None
16	None	ENSG00000259209	ENST00000558618	antisense	KNOWN	None	None	None	None	72840887	72843538	1	None	None
17	SLC9A3R1	ENSG00000109062	ENST00000583369	protein_coding	PUTATIVE	None	11075	646	214	72744791	72764721	1	None	NHERF, EBP50
17	SLC9A3R1	ENSG00000109062	ENST00000262613	protein_coding	KNOWN	CCDS11705	11075	1077	358	72744791	72765492	1	None	NHERF, EBP50
17	SLC9A3R1	ENSG00000109062	ENST00000413388	protein_coding	PUTATIVE	None	11075	609	202	72758142	72765435	1	None	NHERF, EBP50
17	SLC9A3R1	ENSG00000109062	ENST00000578958	retained_intron	KNOWN	None	11075	None	None	72759169	72764698	1	None	NHERF, EBP50
17	SLC9A3R1	ENSG00000109062	ENST00000581356	nonsense_mediated_decay	KNOWN	None	11075	107	34	72759567	72764942	1	None	NHERF, EBP50
19	None	ENSG00000267191	ENST00000586247	antisense	KNOWN	None	None	None	None	44406153	44430697	1	None	None
16	RNU7-71P	ENSG00000251868	ENST00000516059	snRNA	KNOWN	None	34167	None	None	72855832	72855891	-1	None	U7.71
3	None	ENSG00000240405	ENST00000488861	lincRNA	KNOWN	None	None	None	None	70048728	70063018	1	None	None
3	None	ENSG00000240405	ENST00000483525	lincRNA	KNOWN	None	None	None	None	70048895	70064469	1	None	None
14	None	ENSG00000259162	ENST00000553568	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	20906141	20909427	1	None	None
14	None	ENSG00000259162	ENST00000555016	processed_transcript	KNOWN	None	None	None	None	20906828	20908933	1	None	None
12	None	ENSG00000267819	ENST00000598023	protein_coding	KNOWN	None	None	645	214	131780067	131782763	1	None	None
16	None	ENSG00000221799	ENST00000408872	miRNA	NOVEL	None	None	None	None	73018756	73018853	1	None	None
22	KIAA1671	ENSG00000197077	ENST00000406486	protein_coding	KNOWN	CCDS46676	29345	5421	1806	25348697	25590424	1	None	None
22	KIAA1671	ENSG00000197077	ENST00000494730	retained_intron	KNOWN	None	29345	None	None	25436548	25582418	1	None	None
22	KIAA1671	ENSG00000197077	ENST00000461374	retained_intron	KNOWN	None	29345	None	None	25437280	25445656	1	None	None
22	KIAA1671	ENSG00000197077	ENST00000401395	protein_coding	KNOWN	None	29345	942	313	25465936	25593415	1	None	None
22	KIAA1671	ENSG00000197077	ENST00000358431	protein_coding	KNOWN	CCDS46676	29345	5421	1806	25423941	25593411	1	None	None
2	None	ENSG00000268688	ENST00000593798	protein_coding	NOVEL	None	None	204	67	37068327	37068530	-1	None	None
3	CSRNP1	ENSG00000144655	ENST00000273153	protein_coding	KNOWN	CCDS2682	14300	1770	589	39183346	39195066	-1	AXUD1	URAX1, DKFZp566F164, FAM130B, TAIP-3
3	CSRNP1	ENSG00000144655	ENST00000514182	protein_coding	KNOWN	CCDS2682	14300	1770	589	39183829	39196053	-1	AXUD1	URAX1, DKFZp566F164, FAM130B, TAIP-3
16	None	ENSG00000272330	ENST00000606707	sense_intronic	KNOWN	None	None	None	None	73048218	73048375	-1	None	None
10	CCDC172	ENSG00000182645	ENST00000333254	protein_coding	KNOWN	CCDS31291	30524	777	258	118083940	118139541	1	C10orf96	MGC35062
10	CCDC172	ENSG00000182645	ENST00000497093	processed_transcript	KNOWN	None	30524	None	None	118084520	118101791	1	C10orf96	MGC35062
10	CCDC172	ENSG00000182645	ENST00000463594	processed_transcript	KNOWN	None	30524	None	None	118100248	118101745	1	C10orf96	MGC35062
19	None	ENSG00000266921	ENST00000586860	antisense	KNOWN	None	None	None	None	44501048	44506988	-1	None	None
19	None	ENSG00000266921	ENST00000589021	antisense	KNOWN	None	None	None	None	44501051	44506985	-1	None	None
8	None	ENSG00000257962	ENST00000551479	protein_coding	PUTATIVE	None	None	255	84	86158524	86162077	-1	None	None
17	P2RX5	ENSG00000083454	ENST00000552276	protein_coding	PUTATIVE	None	8536	1296	431	3575493	3599390	-1	None	P2X5
17	P2RX5	ENSG00000083454	ENST00000551178	protein_coding	KNOWN	CCDS11035	8536	1194	397	3576521	3599327	-1	None	P2X5
17	P2RX5	ENSG00000083454	ENST00000547178	protein_coding	KNOWN	CCDS56015	8536	1266	421	3576521	3599390	-1	None	P2X5
17	P2RX5	ENSG00000083454	ENST00000225328	protein_coding	KNOWN	CCDS11034	8536	1269	422	3576521	3599698	-1	None	P2X5
17	P2RX5	ENSG00000083454	ENST00000549063	retained_intron	KNOWN	None	8536	None	None	3576524	3586165	-1	None	P2X5
17	P2RX5	ENSG00000083454	ENST00000345901	protein_coding	NOVEL	CCDS56014	8536	1197	398	3576539	3599510	-1	None	P2X5
17	P2RX5	ENSG00000083454	ENST00000552456	nonsense_mediated_decay	KNOWN	None	8536	89	28	3576545	3591334	-1	None	P2X5
17	P2RX5	ENSG00000083454	ENST00000552050	protein_coding	PUTATIVE	None	8536	1089	362	3576894	3595296	-1	None	P2X5
17	P2RX5	ENSG00000083454	ENST00000552723	protein_coding	NOVEL	None	8536	858	285	3582905	3595067	-1	None	P2X5
17	P2RX5	ENSG00000083454	ENST00000550772	processed_transcript	KNOWN	None	8536	None	None	3588814	3593943	-1	None	P2X5
17	P2RX5	ENSG00000083454	ENST00000547933	retained_intron	KNOWN	None	8536	None	None	3593378	3599534	-1	None	P2X5
17	P2RX5	ENSG00000083454	ENST00000435558	protein_coding	KNOWN	None	8536	1299	432	3575748	3599508	-1	None	P2X5
1	RN7SL574P	ENSG00000266075	ENST00000581512	misc_RNA	KNOWN	None	46590	None	None	3699379	3699673	1	None	None
2	RNU6-31P	ENSG00000207116	ENST00000384388	snRNA	KNOWN	None	34250	None	None	201694732	201694839	1	RNU6-31	None
16	None	ENSG00000272250	ENST00000606272	lincRNA	KNOWN	None	None	None	None	73094144	73094658	1	None	None
Y	TSPY10	ENSG00000236424	ENST00000428845	protein_coding	KNOWN	None	37473	927	308	9365489	9368285	1	None	None
Y	TSPY10	ENSG00000236424	ENST00000444056	protein_coding	KNOWN	None	37473	885	294	9365535	9368284	1	None	None
Y	TSPY10	ENSG00000236424	ENST00000489397	processed_transcript	KNOWN	None	37473	None	None	9365535	9368291	1	None	None
Y	TSPY10	ENSG00000236424	ENST00000495839	processed_transcript	PUTATIVE	None	37473	None	None	9366895	9368276	1	None	None
Y	TSPY10	ENSG00000236424	ENST00000429039	protein_coding	KNOWN	None	37473	438	145	9365535	9368284	1	None	None
2	None	ENSG00000221530	ENST00000408603	miRNA	NOVEL	None	None	None	None	201707909	201708022	-1	None	None
12	None	ENSG00000255858	ENST00000539552	lincRNA	KNOWN	None	None	None	None	26468648	26470746	1	None	None
19	None	ENSG00000267144	ENST00000592583	lincRNA	KNOWN	None	None	None	None	44527756	44529414	-1	None	None
2	None	ENSG00000224346	ENST00000457832	processed_pseudogene	KNOWN	None	None	None	None	201708963	201710184	1	None	None
16	None	ENSG00000271009	ENST00000604855	lincRNA	KNOWN	None	None	None	None	73094369	73096215	1	None	None
11	None	ENSG00000270269	ENST00000605170	processed_pseudogene	KNOWN	None	None	None	None	63399705	63400192	1	None	None
2	RNA5SP115	ENSG00000223092	ENST00000411160	rRNA	KNOWN	None	42913	None	None	201713761	201713867	-1	RN5S115	None
19	RNU6-902P	ENSG00000253021	ENST00000517212	snRNA	KNOWN	None	47865	None	None	44589366	44589456	-1	None	None
12	None	ENSG00000258343	ENST00000553194	processed_transcript	KNOWN	None	None	None	None	96189123	96252617	-1	None	None
12	None	ENSG00000258343	ENST00000553163	retained_intron	KNOWN	None	None	None	None	96252015	96252471	-1	None	None
12	None	ENSG00000258343	ENST00000551893	processed_transcript	PUTATIVE	None	None	None	None	96252015	96252576	-1	None	None
12	None	ENSG00000255968	ENST00000535324	antisense	KNOWN	None	None	None	None	26471886	26574395	1	None	None
2	None	ENSG00000252759	ENST00000516950	misc_RNA	NOVEL	None	None	None	None	201727875	201727970	-1	None	None
9	SECISBP2	ENSG00000187742	ENST00000375807	protein_coding	KNOWN	CCDS6683	30972	2565	854	91933421	91974557	1	None	None
9	SECISBP2	ENSG00000187742	ENST00000339901	protein_coding	KNOWN	None	30972	2346	781	91933434	91974557	1	None	None
9	SECISBP2	ENSG00000187742	ENST00000470305	processed_transcript	KNOWN	None	30972	None	None	91937115	91945360	1	None	None
9	SECISBP2	ENSG00000187742	ENST00000425851	protein_coding	KNOWN	None	30972	826	274	91940875	91956394	1	None	None
9	SECISBP2	ENSG00000187742	ENST00000440898	protein_coding	KNOWN	None	30972	181	59	91947503	91953425	1	None	None
9	SECISBP2	ENSG00000187742	ENST00000477484	processed_transcript	KNOWN	None	30972	None	None	91947832	91954862	1	None	None
9	SECISBP2	ENSG00000187742	ENST00000498819	processed_transcript	KNOWN	None	30972	None	None	91963063	91973044	1	None	None
9	SECISBP2	ENSG00000187742	ENST00000496597	processed_transcript	KNOWN	None	30972	None	None	91971441	91973068	1	None	None
9	SECISBP2	ENSG00000187742	ENST00000534113	protein_coding	KNOWN	None	30972	2361	786	91933766	91974078	1	None	None
19	RN7SL53P	ENSG00000265842	ENST00000578291	misc_RNA	KNOWN	None	46069	None	None	44596257	44596551	1	None	None
16	HCCAT5	ENSG00000260880	ENST00000569990	lincRNA	KNOWN	None	48612	None	None	73126248	73127673	1	None	HTA, FJ222407
X	None	ENSG00000228885	ENST00000412375	antisense	KNOWN	None	None	None	None	102753723	102754210	1	None	None
2	RNU6-312P	ENSG00000201499	ENST00000364629	snRNA	KNOWN	None	47275	None	None	201746438	201746544	-1	None	None
19	None	ENSG00000267163	ENST00000591772	antisense	KNOWN	None	None	None	None	44598503	44603864	-1	None	None
10	None	ENSG00000226381	ENST00000596088	antisense	KNOWN	None	None	None	None	81422844	81526080	-1	None	None
10	None	ENSG00000226381	ENST00000600376	antisense	KNOWN	None	None	None	None	81427753	81526080	-1	None	None
10	None	ENSG00000226381	ENST00000601369	antisense	KNOWN	None	None	None	None	81451256	81526085	-1	None	None
2	RNU6-762P	ENSG00000252916	ENST00000517107	snRNA	KNOWN	None	47725	None	None	201763743	201763844	1	None	None
X	None	ENSG00000266568	ENST00000578838	miRNA	NOVEL	None	None	None	None	102873433	102873502	-1	None	None
11	None	ENSG00000256789	ENST00000540307	antisense	KNOWN	None	None	None	None	63405149	63426434	1	None	None
1	None	ENSG00000272153	ENST00000607459	antisense	KNOWN	None	None	None	None	3701572	3702102	1	None	None
2	POLR1A	ENSG00000068654	ENST00000263857	protein_coding	KNOWN	CCDS42706	17264	5163	1720	86247339	86333278	-1	None	DKFZP586M0122, FLJ21915, RPO1-4, RPA1
2	POLR1A	ENSG00000068654	ENST00000409681	protein_coding	KNOWN	None	17264	4980	1659	86253451	86333278	-1	None	DKFZP586M0122, FLJ21915, RPO1-4, RPA1
2	POLR1A	ENSG00000068654	ENST00000471427	processed_transcript	PUTATIVE	None	17264	None	None	86255089	86255922	-1	None	DKFZP586M0122, FLJ21915, RPO1-4, RPA1
2	POLR1A	ENSG00000068654	ENST00000496892	processed_transcript	KNOWN	None	17264	None	None	86258544	86264193	-1	None	DKFZP586M0122, FLJ21915, RPO1-4, RPA1
2	POLR1A	ENSG00000068654	ENST00000492034	processed_transcript	PUTATIVE	None	17264	None	None	86258627	86266040	-1	None	DKFZP586M0122, FLJ21915, RPO1-4, RPA1
2	POLR1A	ENSG00000068654	ENST00000462078	processed_transcript	PUTATIVE	None	17264	None	None	86266448	86267642	-1	None	DKFZP586M0122, FLJ21915, RPO1-4, RPA1
2	POLR1A	ENSG00000068654	ENST00000483538	processed_transcript	PUTATIVE	None	17264	None	None	86281261	86292837	-1	None	DKFZP586M0122, FLJ21915, RPO1-4, RPA1
2	POLR1A	ENSG00000068654	ENST00000486964	retained_intron	KNOWN	None	17264	None	None	86305164	86332996	-1	None	DKFZP586M0122, FLJ21915, RPO1-4, RPA1
2	POLR1A	ENSG00000068654	ENST00000424089	nonsense_mediated_decay	KNOWN	None	17264	129	42	86308740	86333009	-1	None	DKFZP586M0122, FLJ21915, RPO1-4, RPA1
2	POLR1A	ENSG00000068654	ENST00000409024	nonsense_mediated_decay	KNOWN	None	17264	129	42	86310205	86332997	-1	None	DKFZP586M0122, FLJ21915, RPO1-4, RPA1
2	RN7SL694P	ENSG00000263947	ENST00000584245	misc_RNA	KNOWN	None	46710	None	None	201792267	201792534	1	None	None
19	None	ENSG00000186019	ENST00000592946	antisense	KNOWN	None	None	None	None	44609616	44617298	-1	None	None
19	None	ENSG00000186019	ENST00000590369	antisense	KNOWN	None	None	None	None	44616104	44617109	-1	None	None
3	ERC2	ENSG00000187672	ENST00000288221	protein_coding	KNOWN	CCDS46851	31922	2874	957	55542336	56502391	-1	None	CAST, CAST1, KIAA0378, SPBC110, Spc110, ELKSL
3	ERC2	ENSG00000187672	ENST00000486496	processed_transcript	KNOWN	None	31922	None	None	55542339	55644938	-1	None	CAST, CAST1, KIAA0378, SPBC110, Spc110, ELKSL
3	ERC2	ENSG00000187672	ENST00000484530	processed_transcript	KNOWN	None	31922	None	None	55543262	55644938	-1	None	CAST, CAST1, KIAA0378, SPBC110, Spc110, ELKSL
3	ERC2	ENSG00000187672	ENST00000473469	processed_transcript	KNOWN	None	31922	None	None	55544591	55641938	-1	None	CAST, CAST1, KIAA0378, SPBC110, Spc110, ELKSL
3	ERC2	ENSG00000187672	ENST00000469720	processed_transcript	KNOWN	None	31922	None	None	55544591	55681254	-1	None	CAST, CAST1, KIAA0378, SPBC110, Spc110, ELKSL
3	ERC2	ENSG00000187672	ENST00000460849	nonsense_mediated_decay	KNOWN	CCDS46851	31922	2874	957	55544804	56502365	-1	None	CAST, CAST1, KIAA0378, SPBC110, Spc110, ELKSL
3	ERC2	ENSG00000187672	ENST00000468118	processed_transcript	KNOWN	None	31922	None	None	55544932	55733546	-1	None	CAST, CAST1, KIAA0378, SPBC110, Spc110, ELKSL
3	ERC2	ENSG00000187672	ENST00000487287	processed_transcript	KNOWN	None	31922	None	None	55545168	55800827	-1	None	CAST, CAST1, KIAA0378, SPBC110, Spc110, ELKSL
3	ERC2	ENSG00000187672	ENST00000466358	processed_transcript	KNOWN	None	31922	None	None	55640624	55644921	-1	None	CAST, CAST1, KIAA0378, SPBC110, Spc110, ELKSL
3	ERC2	ENSG00000187672	ENST00000492584	protein_coding	KNOWN	None	31922	1585	527	55768866	56207538	-1	None	CAST, CAST1, KIAA0378, SPBC110, Spc110, ELKSL
3	ERC2	ENSG00000187672	ENST00000484857	retained_intron	KNOWN	None	31922	None	None	56183016	56207927	-1	None	CAST, CAST1, KIAA0378, SPBC110, Spc110, ELKSL
3	ERC2	ENSG00000187672	ENST00000477381	processed_transcript	KNOWN	None	31922	None	None	56467817	56468775	-1	None	CAST, CAST1, KIAA0378, SPBC110, Spc110, ELKSL
3	ERC2	ENSG00000187672	ENST00000472917	processed_transcript	KNOWN	None	31922	None	None	56468610	56501162	-1	None	CAST, CAST1, KIAA0378, SPBC110, Spc110, ELKSL
12	None	ENSG00000270048	ENST00000602474	sense_intronic	KNOWN	None	None	None	None	124447102	124447364	-1	None	None
X	TCEAL3-AS1	ENSG00000224031	ENST00000424887	antisense	KNOWN	None	41191	None	None	102881004	102881420	-1	None	None
10	DNAJC9	ENSG00000213551	ENST00000469143	processed_transcript	KNOWN	None	19123	None	None	74943120	75005739	-1	None	JDD1, SB73
10	DNAJC9	ENSG00000213551	ENST00000453189	processed_transcript	KNOWN	None	19123	None	None	74998528	75003156	-1	None	JDD1, SB73
10	DNAJC9	ENSG00000213551	ENST00000372950	protein_coding	KNOWN	CCDS7322	19123	783	260	75002582	75008620	-1	None	JDD1, SB73
10	DNAJC9	ENSG00000213551	ENST00000512551	processed_transcript	KNOWN	None	19123	None	None	75007100	75008026	-1	None	JDD1, SB73
2	None	ENSG00000183308	ENST00000413848	antisense	KNOWN	None	None	None	None	201827986	201873825	1	None	None
2	None	ENSG00000183308	ENST00000332935	antisense	KNOWN	None	None	None	None	201828022	201843705	1	None	None
12	None	ENSG00000269997	ENST00000602988	sense_intronic	KNOWN	None	None	None	None	124450624	124451176	-1	None	None
3	None	ENSG00000271034	ENST00000605810	processed_pseudogene	KNOWN	None	None	None	None	70174221	70175760	-1	None	None
14	None	ENSG00000258515	ENST00000555435	antisense	KNOWN	None	None	None	None	20919464	20920077	1	None	None
HSCHR6_MHC_MCF	RPS18	ENSG00000226225	ENST00000434122	protein_coding	KNOWN	None	10401	459	152	33410160	33414664	1	D6S218E	KE3, KE-3, HKE3, S18
HSCHR6_MHC_MCF	RPS18	ENSG00000226225	ENST00000459882	processed_transcript	KNOWN	None	10401	None	None	33410225	33414664	1	D6S218E	KE3, KE-3, HKE3, S18
HSCHR6_MHC_MCF	RPS18	ENSG00000226225	ENST00000477273	retained_intron	KNOWN	None	10401	None	None	33410238	33414659	1	D6S218E	KE3, KE-3, HKE3, S18
HSCHR6_MHC_MCF	RPS18	ENSG00000226225	ENST00000470276	processed_transcript	KNOWN	None	10401	None	None	33410246	33414664	1	D6S218E	KE3, KE-3, HKE3, S18
HSCHR6_MHC_MCF	RPS18	ENSG00000226225	ENST00000477787	retained_intron	KNOWN	None	10401	None	None	33410249	33414659	1	D6S218E	KE3, KE-3, HKE3, S18
HSCHR6_MHC_MCF	RPS18	ENSG00000226225	ENST00000461584	retained_intron	KNOWN	None	10401	None	None	33410282	33414664	1	D6S218E	KE3, KE-3, HKE3, S18
HSCHR6_MHC_MCF	RPS18	ENSG00000226225	ENST00000482698	retained_intron	KNOWN	None	10401	None	None	33413475	33414664	1	D6S218E	KE3, KE-3, HKE3, S18
HSCHR6_MHC_MCF	RPS18	ENSG00000226225	ENST00000463901	retained_intron	KNOWN	None	10401	None	None	33414020	33414664	1	D6S218E	KE3, KE-3, HKE3, S18
10	None	ENSG00000272489	ENST00000606384	sense_intronic	KNOWN	None	None	None	None	81422948	81424542	1	None	None
12	None	ENSG00000269938	ENST00000602601	sense_intronic	KNOWN	None	None	None	None	124452570	124453126	-1	None	None
12	None	ENSG00000256185	ENST00000537724	lincRNA	KNOWN	None	None	None	None	26488797	26489883	-1	None	None
19	None	ENSG00000270679	ENST00000605717	processed_pseudogene	KNOWN	None	None	None	None	44794234	44795064	1	None	None
8	RN7SL621P	ENSG00000240189	ENST00000472565	misc_RNA	KNOWN	None	46637	None	None	33437730	33438026	-1	None	None
X	None	ENSG00000180284	ENST00000423374	processed_pseudogene	KNOWN	None	None	None	None	102906663	102907034	-1	None	None
2	HNRNPA1P35	ENSG00000225695	ENST00000429216	processed_pseudogene	KNOWN	None	48764	None	None	201927812	201928774	1	None	None
4	None	ENSG00000248505	ENST00000510956	lincRNA	KNOWN	None	None	None	None	58292038	58332152	1	None	None
19	NDUFA3P1	ENSG00000267590	ENST00000588007	processed_pseudogene	KNOWN	None	45043	None	None	44801257	44801508	1	None	None
11	None	ENSG00000271100	ENST00000604083	processed_pseudogene	KNOWN	None	None	None	None	63466068	63466236	-1	None	None
6	None	ENSG00000231368	ENST00000442343	processed_pseudogene	KNOWN	None	None	None	None	148968843	148969733	-1	None	None
2	None	ENSG00000226658	ENST00000432419	processed_pseudogene	KNOWN	None	None	None	None	201931414	201931914	1	None	None
10	BEND3P3	ENSG00000224886	ENST00000452173	transcribed_processed_pseudogene	KNOWN	None	45016	None	None	81444250	81444739	-1	None	None
3	UQCRHP4	ENSG00000242728	ENST00000471686	processed_pseudogene	KNOWN	None	38047	None	None	70189368	70189639	1	None	None
12	None	ENSG00000270061	ENST00000602741	sense_intronic	KNOWN	None	None	None	None	124454537	124454891	-1	None	None
8	None	ENSG00000253642	ENST00000523063	lincRNA	KNOWN	None	None	None	None	33462374	33896003	1	None	None
8	None	ENSG00000253642	ENST00000517292	lincRNA	KNOWN	None	None	None	None	33613295	33653954	1	None	None
8	None	ENSG00000253642	ENST00000521541	lincRNA	KNOWN	None	None	None	None	33865374	33896441	1	None	None
8	None	ENSG00000253642	ENST00000523336	lincRNA	KNOWN	None	None	None	None	33865375	33896526	1	None	None
19	None	ENSG00000267188	ENST00000588655	processed_transcript	KNOWN	None	None	None	None	44896603	44952640	-1	None	None
11	CCDC88B	ENSG00000168071	ENST00000463837	processed_transcript	KNOWN	None	26757	None	None	64107695	64124996	1	CCDC88	FLJ37970, BRLZ, HkRP3, FLJ00354, GIPIE
11	CCDC88B	ENSG00000168071	ENST00000356786	protein_coding	KNOWN	CCDS8072	26757	4431	1476	64107695	64125006	1	CCDC88	FLJ37970, BRLZ, HkRP3, FLJ00354, GIPIE
11	CCDC88B	ENSG00000168071	ENST00000494080	processed_transcript	KNOWN	None	26757	None	None	64109078	64124996	1	CCDC88	FLJ37970, BRLZ, HkRP3, FLJ00354, GIPIE
11	CCDC88B	ENSG00000168071	ENST00000494566	processed_transcript	KNOWN	None	26757	None	None	64110203	64118167	1	CCDC88	FLJ37970, BRLZ, HkRP3, FLJ00354, GIPIE
11	CCDC88B	ENSG00000168071	ENST00000492980	processed_transcript	KNOWN	None	26757	None	None	64111011	64117859	1	CCDC88	FLJ37970, BRLZ, HkRP3, FLJ00354, GIPIE
11	CCDC88B	ENSG00000168071	ENST00000359902	protein_coding	KNOWN	None	26757	2139	712	64116303	64124997	1	CCDC88	FLJ37970, BRLZ, HkRP3, FLJ00354, GIPIE
11	CCDC88B	ENSG00000168071	ENST00000479965	processed_transcript	KNOWN	None	26757	None	None	64120358	64125000	1	CCDC88	FLJ37970, BRLZ, HkRP3, FLJ00354, GIPIE
11	CCDC88B	ENSG00000168071	ENST00000473405	processed_transcript	KNOWN	None	26757	None	None	64120893	64124842	1	CCDC88	FLJ37970, BRLZ, HkRP3, FLJ00354, GIPIE
11	CCDC88B	ENSG00000168071	ENST00000472524	processed_transcript	PUTATIVE	None	26757	None	None	64122815	64125003	1	CCDC88	FLJ37970, BRLZ, HkRP3, FLJ00354, GIPIE
11	CCDC88B	ENSG00000168071	ENST00000301897	protein_coding	KNOWN	None	26757	420	139	64111646	64124958	1	CCDC88	FLJ37970, BRLZ, HkRP3, FLJ00354, GIPIE
14	None	ENSG00000258908	ENST00000554678	lincRNA	KNOWN	None	None	None	None	20942948	20945248	-1	None	None
7	ASB4	ENSG00000005981	ENST00000257621	processed_transcript	KNOWN	None	16009	None	None	95107756	95125494	1	None	ASB-4
7	ASB4	ENSG00000005981	ENST00000428113	protein_coding	KNOWN	CCDS5642	16009	1050	349	95115213	95158113	1	None	ASB-4
7	ASB4	ENSG00000005981	ENST00000325885	protein_coding	KNOWN	CCDS5641	16009	1281	426	95115213	95169544	1	None	ASB-4
2	RNU6-1206P	ENSG00000252148	ENST00000516339	snRNA	KNOWN	None	48169	None	None	201944565	201944667	1	None	None
4	None	ENSG00000250403	ENST00000511857	processed_pseudogene	KNOWN	None	None	None	None	100911894	100912634	-1	None	None
8	None	ENSG00000253853	ENST00000520024	lincRNA	KNOWN	None	None	None	None	2584858	2680004	1	None	None
12	RNA5SP354	ENSG00000212549	ENST00000391247	rRNA	KNOWN	None	43254	None	None	26526531	26526666	-1	RN5S354	None
4	None	ENSG00000248820	ENST00000503440	processed_pseudogene	KNOWN	None	None	None	None	100962998	100963261	-1	None	None
3	RNU6-377P	ENSG00000251774	ENST00000515965	snRNA	KNOWN	None	47340	None	None	12556205	12556306	1	None	None
19	ZNF285B	ENSG00000176761	ENST00000561698	unprocessed_pseudogene	KNOWN	None	33262	None	None	44971858	44977444	1	None	None
19	ZNF285B	ENSG00000176761	ENST00000318605	pseudogene	KNOWN	None	33262	None	None	44976363	44977388	1	None	None
4	None	ENSG00000251459	ENST00000511962	lincRNA	KNOWN	None	None	None	None	58357556	58361399	1	None	None
11	C11orf95	ENSG00000188070	ENST00000338498	lincRNA	KNOWN	None	28449	None	None	63531312	63533434	-1	None	MGC3032
11	C11orf95	ENSG00000188070	ENST00000458348	lincRNA	KNOWN	None	28449	None	None	63531312	63533434	-1	None	MGC3032
11	C11orf95	ENSG00000188070	ENST00000445014	lincRNA	KNOWN	None	28449	None	None	63531616	63533734	-1	None	MGC3032
11	C11orf95	ENSG00000188070	ENST00000433688	lincRNA	KNOWN	None	28449	None	None	63527364	63536113	-1	None	MGC3032
11	None	ENSG00000254789	ENST00000533082	lincRNA	KNOWN	None	None	None	None	15593569	15643937	-1	None	None
1	None	ENSG00000264428	ENST00000579705	miRNA	NOVEL	None	None	None	None	3800628	3800697	1	None	None
6	None	ENSG00000227660	ENST00000413845	antisense	KNOWN	None	None	None	None	149276764	149285820	-1	None	None
HSCHR17_4_CTG4	KRTAP3-3	ENSG00000263101	ENST00000572132	protein_coding	KNOWN	None	18890	297	98	39149809	39150512	-1	None	KAP3.3
4	None	ENSG00000222196	ENST00000410264	miRNA	NOVEL	None	None	None	None	101051102	101051192	-1	None	None
11	None	ENSG00000245385	ENST00000501918	antisense	KNOWN	None	None	None	None	119206959	119208019	-1	None	None
3	None	ENSG00000239140	ENST00000458821	snoRNA	NOVEL	None	None	None	None	12674233	12674333	1	None	None
15	None	ENSG00000259731	ENST00000560675	lincRNA	KNOWN	None	None	None	None	39048755	39051614	-1	None	None
16	None	ENSG00000271178	ENST00000562905	IG_V_gene	KNOWN	None	None	353	116	33629681	33630128	1	None	None
4	None	ENSG00000238925	ENST00000459458	snoRNA	NOVEL	None	None	None	None	58358435	58358539	-1	None	None
4	None	ENSG00000249710	ENST00000515782	antisense	KNOWN	None	None	None	None	101111190	101136662	1	None	None
6	None	ENSG00000236591	ENST00000433442	antisense	KNOWN	None	None	None	None	149348836	149353709	-1	None	None
3	CRIP1P1	ENSG00000233252	ENST00000427567	processed_pseudogene	KNOWN	None	44516	None	None	12715198	12715382	1	None	None
4	None	ENSG00000251049	ENST00000509641	lincRNA	KNOWN	None	None	None	None	58462106	58472038	-1	None	None
X	MTND1P31	ENSG00000235170	ENST00000449206	processed_pseudogene	KNOWN	None	42080	None	None	62062012	62062972	1	None	None
4	HTN1	ENSG00000126550	ENST00000246896	protein_coding	KNOWN	CCDS3534	5283	174	57	70916119	70924562	1	None	HIS1
4	HTN1	ENSG00000126550	ENST00000503645	retained_intron	KNOWN	None	5283	None	None	70916155	70921561	1	None	HIS1
4	HTN1	ENSG00000126550	ENST00000511674	protein_coding	KNOWN	CCDS3534	5283	174	57	70916155	70921664	1	None	HIS1
4	HTN1	ENSG00000126550	ENST00000506754	retained_intron	KNOWN	None	5283	None	None	70918599	70924562	1	None	HIS1
11	HMBS	ENSG00000256269	ENST00000536185	processed_transcript	KNOWN	None	4982	None	None	118955576	118960449	1	PBGD, UPS, PORC	None
11	HMBS	ENSG00000256269	ENST00000545901	retained_intron	KNOWN	None	4982	None	None	118955591	118959685	1	PBGD, UPS, PORC	None
11	HMBS	ENSG00000256269	ENST00000545621	nonsense_mediated_decay	KNOWN	None	4982	246	81	118955591	118963210	1	PBGD, UPS, PORC	None
11	HMBS	ENSG00000256269	ENST00000278715	protein_coding	KNOWN	CCDS8409	4982	1086	361	118955593	118964257	1	PBGD, UPS, PORC	None
11	HMBS	ENSG00000256269	ENST00000536813	protein_coding	NOVEL	None	4982	358	118	118955595	118960731	1	PBGD, UPS, PORC	None
11	HMBS	ENSG00000256269	ENST00000537841	protein_coding	KNOWN	CCDS41726	4982	1035	344	118955595	118964226	1	PBGD, UPS, PORC	None
11	HMBS	ENSG00000256269	ENST00000542729	protein_coding	NOVEL	CCDS58187	4982	915	304	118955595	118964256	1	PBGD, UPS, PORC	None
11	HMBS	ENSG00000256269	ENST00000543821	retained_intron	KNOWN	None	4982	None	None	118955598	118960756	1	PBGD, UPS, PORC	None
11	HMBS	ENSG00000256269	ENST00000546302	protein_coding	NOVEL	None	4982	574	190	118955610	118962874	1	PBGD, UPS, PORC	None
11	HMBS	ENSG00000256269	ENST00000442944	protein_coding	KNOWN	CCDS41726	4982	1035	344	118955615	118964243	1	PBGD, UPS, PORC	None
11	HMBS	ENSG00000256269	ENST00000542822	nonsense_mediated_decay	KNOWN	None	4982	246	81	118955617	118962251	1	PBGD, UPS, PORC	None
11	HMBS	ENSG00000256269	ENST00000542044	retained_intron	KNOWN	None	4982	None	None	118955619	118964006	1	PBGD, UPS, PORC	None
11	HMBS	ENSG00000256269	ENST00000544387	protein_coding	NOVEL	CCDS58186	4982	966	321	118955624	118964258	1	PBGD, UPS, PORC	None
11	HMBS	ENSG00000256269	ENST00000535793	nonsense_mediated_decay	KNOWN	None	4982	192	63	118955625	118962250	1	PBGD, UPS, PORC	None
11	HMBS	ENSG00000256269	ENST00000543090	protein_coding	NOVEL	None	4982	993	330	118955640	118964243	1	PBGD, UPS, PORC	None
11	HMBS	ENSG00000256269	ENST00000539986	protein_coding	KNOWN	None	4982	561	186	118958213	118962236	1	PBGD, UPS, PORC	None
11	HMBS	ENSG00000256269	ENST00000535253	protein_coding	KNOWN	None	4982	561	186	118958693	118962236	1	PBGD, UPS, PORC	None
11	HMBS	ENSG00000256269	ENST00000542345	retained_intron	KNOWN	None	4982	None	None	118958694	118962966	1	PBGD, UPS, PORC	None
11	HMBS	ENSG00000256269	ENST00000543543	retained_intron	KNOWN	None	4982	None	None	118958697	118964228	1	PBGD, UPS, PORC	None
11	HMBS	ENSG00000256269	ENST00000546226	retained_intron	KNOWN	None	4982	None	None	118958697	118964257	1	PBGD, UPS, PORC	None
11	HMBS	ENSG00000256269	ENST00000544360	retained_intron	KNOWN	None	4982	None	None	118958964	118962351	1	PBGD, UPS, PORC	None
11	HMBS	ENSG00000256269	ENST00000534956	processed_transcript	KNOWN	None	4982	None	None	118959342	118962703	1	PBGD, UPS, PORC	None
11	HMBS	ENSG00000256269	ENST00000544182	retained_intron	KNOWN	None	4982	None	None	118962248	118964000	1	PBGD, UPS, PORC	None
11	HMBS	ENSG00000256269	ENST00000539045	retained_intron	KNOWN	None	4982	None	None	118963321	118964253	1	PBGD, UPS, PORC	None
11	HMBS	ENSG00000256269	ENST00000392841	protein_coding	KNOWN	CCDS41726	4982	1035	344	118958697	118964259	1	PBGD, UPS, PORC	None
6	None	ENSG00000219487	ENST00000407763	processed_pseudogene	KNOWN	None	None	None	None	149433145	149433808	-1	None	None
14	TBPL2	ENSG00000182521	ENST00000247219	protein_coding	KNOWN	CCDS9724	19841	1128	375	55880259	55907334	-1	None	TRF3, TBP2
14	TBPL2	ENSG00000182521	ENST00000556755	protein_coding	PUTATIVE	None	19841	67	21	55903616	55923444	-1	None	TRF3, TBP2
4	EMCN-IT3	ENSG00000250223	ENST00000515728	sense_intronic	KNOWN	None	41418	None	None	101581436	101596270	-1	None	None
X	None	ENSG00000223377	ENST00000436499	unprocessed_pseudogene	KNOWN	None	None	None	None	148839682	148839956	-1	None	None
19	None	ENSG00000267242	ENST00000591684	lincRNA	KNOWN	None	None	None	None	44978645	44979403	-1	None	None
14	None	ENSG00000258809	ENST00000556556	lincRNA	KNOWN	None	None	None	None	64825486	64846036	-1	None	None
2	GALM	ENSG00000143891	ENST00000272252	protein_coding	KNOWN	CCDS1797	24063	1029	342	38893052	38961910	1	None	None
2	GALM	ENSG00000143891	ENST00000427858	nonsense_mediated_decay	KNOWN	None	24063	435	144	38893223	38908490	1	None	None
2	GALM	ENSG00000143891	ENST00000410063	protein_coding	PUTATIVE	None	24063	585	194	38893259	38961100	1	None	None
2	GALM	ENSG00000143891	ENST00000444351	nonsense_mediated_decay	KNOWN	None	24063	585	194	38893385	38958944	1	None	None
2	GALM	ENSG00000143891	ENST00000434934	protein_coding	PUTATIVE	None	24063	657	218	38908437	38968379	1	None	None
16	None	ENSG00000259680	ENST00000569103	protein_coding	PUTATIVE	None	None	349	115	33647251	33647696	-1	None	None
16	None	ENSG00000259680	ENST00000558425	protein_coding	KNOWN	None	None	381	126	33647044	33647696	-1	None	None
6	SGK1	ENSG00000118515	ENST00000367858	protein_coding	KNOWN	CCDS47476	10810	1581	526	134490384	134639196	-1	SGK	None
6	SGK1	ENSG00000118515	ENST00000474427	retained_intron	KNOWN	None	10810	None	None	134490386	134496004	-1	SGK	None
6	SGK1	ENSG00000118515	ENST00000413996	protein_coding	KNOWN	CCDS47478	10810	1338	445	134490388	134497129	-1	SGK	None
6	SGK1	ENSG00000118515	ENST00000477460	retained_intron	KNOWN	None	10810	None	None	134490390	134494045	-1	SGK	None
6	SGK1	ENSG00000118515	ENST00000237305	protein_coding	KNOWN	CCDS5170	10810	1296	431	134490390	134496034	-1	SGK	None
6	SGK1	ENSG00000118515	ENST00000367855	retained_intron	KNOWN	None	10810	None	None	134490422	134495980	-1	SGK	None
6	SGK1	ENSG00000118515	ENST00000367857	protein_coding	KNOWN	None	10810	1266	421	134490491	134496003	-1	SGK	None
6	SGK1	ENSG00000118515	ENST00000528577	protein_coding	KNOWN	CCDS47477	10810	1380	459	134491019	134499043	-1	SGK	None
6	SGK1	ENSG00000118515	ENST00000475719	protein_coding	NOVEL	None	10810	1164	387	134491244	134496002	-1	SGK	None
6	SGK1	ENSG00000118515	ENST00000531782	retained_intron	KNOWN	None	10810	None	None	134491938	134493435	-1	SGK	None
6	SGK1	ENSG00000118515	ENST00000473704	retained_intron	KNOWN	None	10810	None	None	134492243	134493272	-1	SGK	None
6	SGK1	ENSG00000118515	ENST00000525877	retained_intron	KNOWN	None	10810	None	None	134492503	134493877	-1	SGK	None
6	SGK1	ENSG00000118515	ENST00000489458	processed_transcript	KNOWN	None	10810	None	None	134492789	134495517	-1	SGK	None
6	SGK1	ENSG00000118515	ENST00000524764	retained_intron	KNOWN	None	10810	None	None	134493738	134494483	-1	SGK	None
6	SGK1	ENSG00000118515	ENST00000475882	retained_intron	KNOWN	None	10810	None	None	134493862	134495385	-1	SGK	None
6	SGK1	ENSG00000118515	ENST00000534658	retained_intron	KNOWN	None	10810	None	None	134493864	134496006	-1	SGK	None
6	SGK1	ENSG00000118515	ENST00000490149	retained_intron	KNOWN	None	10810	None	None	134493915	134495329	-1	SGK	None
6	SGK1	ENSG00000118515	ENST00000524387	processed_transcript	KNOWN	None	10810	None	None	134494202	134551605	-1	SGK	None
6	SGK1	ENSG00000118515	ENST00000531575	processed_transcript	KNOWN	None	10810	None	None	134494219	134570678	-1	SGK	None
6	SGK1	ENSG00000118515	ENST00000532021	retained_intron	KNOWN	None	10810	None	None	134494255	134498998	-1	SGK	None
6	SGK1	ENSG00000118515	ENST00000532856	retained_intron	KNOWN	None	10810	None	None	134494310	134495999	-1	SGK	None
6	SGK1	ENSG00000118515	ENST00000461976	protein_coding	KNOWN	None	10810	432	143	134494693	134639049	-1	SGK	None
6	SGK1	ENSG00000118515	ENST00000530421	retained_intron	KNOWN	None	10810	None	None	134494838	134496004	-1	SGK	None
6	SGK1	ENSG00000118515	ENST00000525700	retained_intron	KNOWN	None	10810	None	None	134494939	134498985	-1	SGK	None
6	SGK1	ENSG00000118515	ENST00000472859	retained_intron	KNOWN	None	10810	None	None	134495047	134495999	-1	SGK	None
6	SGK1	ENSG00000118515	ENST00000484353	processed_transcript	KNOWN	None	10810	None	None	134501393	134583155	-1	SGK	None
6	SGK1	ENSG00000118515	ENST00000485771	processed_transcript	KNOWN	None	10810	None	None	134536083	134551619	-1	SGK	None
6	SGK1	ENSG00000118515	ENST00000460769	protein_coding	PUTATIVE	None	10810	166	54	134536092	134583197	-1	SGK	None
6	SGK1	ENSG00000118515	ENST00000524929	protein_coding	PUTATIVE	None	10810	462	153	134580931	134638767	-1	SGK	None
6	SGK1	ENSG00000118515	ENST00000533224	protein_coding	KNOWN	None	10810	180	59	134583176	134639250	-1	SGK	None
X	MTND2P25	ENSG00000228182	ENST00000449028	processed_pseudogene	KNOWN	None	42126	None	None	62063167	62063776	1	None	None
X	None	ENSG00000231694	ENST00000424803	unprocessed_pseudogene	KNOWN	None	None	None	None	148842440	148842535	1	None	None
7	RNU1-82P	ENSG00000212153	ENST00000390851	snRNA	KNOWN	None	48424	None	None	141427784	141427948	1	None	None
6	None	ENSG00000263481	ENST00000584589	miRNA	NOVEL	None	None	None	None	149497843	149497930	-1	None	None
5	CCNO	ENSG00000152669	ENST00000501463	nonsense_mediated_decay	KNOWN	None	18576	396	131	54526980	54529425	-1	CCNU	UDG2, FLJ22422, UNG2
5	CCNO	ENSG00000152669	ENST00000282572	protein_coding	KNOWN	CCDS34157	18576	1053	350	54526980	54529508	-1	CCNU	UDG2, FLJ22422, UNG2
11	None	ENSG00000254695	ENST00000532242	lincRNA	KNOWN	None	None	None	None	15665431	15726914	1	None	None
14	None	ENSG00000271511	ENST00000604597	processed_pseudogene	KNOWN	None	None	None	None	64828110	64828355	1	None	None
4	EMCN-IT2	ENSG00000251219	ENST00000514427	sense_intronic	KNOWN	None	41419	None	None	101699739	101712392	-1	None	None
17	None	ENSG00000238403	ENST00000459591	snoRNA	NOVEL	None	None	None	None	80540381	80540476	1	None	None
12	SFSWAP	ENSG00000061936	ENST00000540469	retained_intron	KNOWN	None	10790	None	None	132195626	132210154	1	SFRS8	SWAP
12	SFSWAP	ENSG00000061936	ENST00000261674	protein_coding	KNOWN	CCDS9273	10790	2856	951	132195634	132284282	1	SFRS8	SWAP
12	SFSWAP	ENSG00000061936	ENST00000538548	nonsense_mediated_decay	KNOWN	None	10790	366	121	132195635	132271142	1	SFRS8	SWAP
12	SFSWAP	ENSG00000061936	ENST00000535399	retained_intron	KNOWN	None	10790	None	None	132195640	132199040	1	SFRS8	SWAP
12	SFSWAP	ENSG00000061936	ENST00000535236	protein_coding	PUTATIVE	None	10790	1638	545	132195645	132262726	1	SFRS8	SWAP
12	SFSWAP	ENSG00000061936	ENST00000541286	protein_coding	NOVEL	CCDS58290	10790	3012	1003	132195682	132284147	1	SFRS8	SWAP
12	SFSWAP	ENSG00000061936	ENST00000542813	processed_transcript	KNOWN	None	10790	None	None	132207803	132211579	1	SFRS8	SWAP
12	SFSWAP	ENSG00000061936	ENST00000535202	retained_intron	KNOWN	None	10790	None	None	132211534	132238034	1	SFRS8	SWAP
12	SFSWAP	ENSG00000061936	ENST00000537164	protein_coding	PUTATIVE	None	10790	961	319	132237668	132262740	1	SFRS8	SWAP
12	SFSWAP	ENSG00000061936	ENST00000539506	processed_transcript	KNOWN	None	10790	None	None	132268013	132284282	1	SFRS8	SWAP
12	SFSWAP	ENSG00000061936	ENST00000537582	retained_intron	KNOWN	None	10790	None	None	132280663	132284227	1	SFRS8	SWAP
6	None	ENSG00000228408	ENST00000451095	lincRNA	KNOWN	None	None	None	None	149539062	149542423	1	None	None
6	None	ENSG00000228408	ENST00000443992	lincRNA	KNOWN	None	None	None	None	149539137	149551295	1	None	None
6	None	ENSG00000228408	ENST00000445901	lincRNA	KNOWN	None	None	None	None	149539834	149565208	1	None	None
7	TAS2R6	ENSG00000270923	ENST00000605022	processed_pseudogene	KNOWN	None	20616	None	None	141487615	141488440	1	None	T2R06, T2R6
17	None	ENSG00000262147	ENST00000575085	antisense	KNOWN	None	None	None	None	80545189	80546287	-1	None	None
12	None	ENSG00000234428	ENST00000414098	antisense	KNOWN	None	None	None	None	26776302	26802412	1	None	None
1	None	ENSG00000236423	ENST00000413332	lincRNA	KNOWN	None	None	None	None	3816936	3822096	1	None	None
1	None	ENSG00000236423	ENST00000442673	lincRNA	KNOWN	None	None	None	None	3816968	3833789	1	None	None
1	None	ENSG00000236423	ENST00000439488	lincRNA	KNOWN	None	None	None	None	3816980	3832011	1	None	None
7	None	ENSG00000241926	ENST00000489829	processed_pseudogene	KNOWN	None	None	None	None	141501115	141501859	-1	None	None
17	None	ENSG00000261845	ENST00000576912	antisense	KNOWN	None	None	None	None	80560865	80562054	-1	None	None
3	None	ENSG00000242120	ENST00000567252	antisense	KNOWN	None	None	None	None	70246045	70361877	-1	None	None
3	None	ENSG00000242120	ENST00000497551	antisense	KNOWN	None	None	None	None	70246077	70255942	-1	None	None
16	None	ENSG00000179755	ENST00000319817	protein_coding	KNOWN	None	None	522	173	34256507	34257278	1	None	None
15	None	ENSG00000259345	ENST00000560197	antisense	KNOWN	None	None	None	None	39157523	39410914	-1	None	None
15	None	ENSG00000259345	ENST00000561058	antisense	KNOWN	None	None	None	None	39177671	39566084	-1	None	None
15	None	ENSG00000259345	ENST00000560484	antisense	KNOWN	None	None	None	None	39178835	39713176	-1	None	None
15	None	ENSG00000259345	ENST00000558209	antisense	KNOWN	None	None	None	None	39363772	39719396	-1	None	None
15	None	ENSG00000259345	ENST00000559318	antisense	KNOWN	None	None	None	None	39591540	39713152	-1	None	None
15	None	ENSG00000259345	ENST00000558277	antisense	KNOWN	None	None	None	None	39711231	39712910	-1	None	None
17	MIR4525	ENSG00000266107	ENST00000580000	miRNA	KNOWN	None	41903	None	None	80626109	80626183	-1	None	hsa-mir-4525
11	None	ENSG00000254645	ENST00000524613	lincRNA	KNOWN	None	None	None	None	15723509	15780444	-1	None	None
15	SH3GL3	ENSG00000140600	ENST00000492099	retained_intron	KNOWN	None	10832	None	None	84115980	84234635	1	None	SH3D2C, SH3P13, CNSA3, EEN-B2, HsT19371
15	SH3GL3	ENSG00000140600	ENST00000427482	protein_coding	KNOWN	CCDS10325	10832	1044	347	84115980	84287495	1	None	SH3D2C, SH3P13, CNSA3, EEN-B2, HsT19371
15	SH3GL3	ENSG00000140600	ENST00000563901	nonsense_mediated_decay	KNOWN	None	10832	198	65	84116128	84287491	1	None	SH3D2C, SH3P13, CNSA3, EEN-B2, HsT19371
15	SH3GL3	ENSG00000140600	ENST00000324537	protein_coding	KNOWN	None	10832	1068	355	84116283	84287491	1	None	SH3D2C, SH3P13, CNSA3, EEN-B2, HsT19371
15	SH3GL3	ENSG00000140600	ENST00000564054	processed_transcript	KNOWN	None	10832	None	None	84278022	84287394	1	None	SH3D2C, SH3P13, CNSA3, EEN-B2, HsT19371
15	SH3GL3	ENSG00000140600	ENST00000467735	processed_transcript	KNOWN	None	10832	None	None	84278155	84287057	1	None	SH3D2C, SH3P13, CNSA3, EEN-B2, HsT19371
15	SH3GL3	ENSG00000140600	ENST00000535412	protein_coding	KNOWN	None	10832	867	288	84116139	84287403	1	None	SH3D2C, SH3P13, CNSA3, EEN-B2, HsT19371
15	SH3GL3	ENSG00000140600	ENST00000434347	protein_coding	KNOWN	None	10832	1068	355	84159586	84287491	1	None	SH3D2C, SH3P13, CNSA3, EEN-B2, HsT19371
HG1304_PATCH	WISP3	ENSG00000266134	ENST00000581324	protein_coding	KNOWN	None	12771	1119	372	112375275	112392172	1	None	CCN6
HG1304_PATCH	WISP3	ENSG00000266134	ENST00000579013	nonsense_mediated_decay	KNOWN	None	12771	660	219	112375278	112390889	1	None	CCN6
HG1304_PATCH	WISP3	ENSG00000266134	ENST00000582958	protein_coding	KNOWN	None	12771	1065	354	112375278	112390889	1	None	CCN6
HG1304_PATCH	WISP3	ENSG00000266134	ENST00000581188	processed_transcript	KNOWN	None	12771	None	None	112375387	112376093	1	None	CCN6
HG1304_PATCH	WISP3	ENSG00000266134	ENST00000581128	nonsense_mediated_decay	KNOWN	None	12771	714	237	112375423	112390861	1	None	CCN6
HG1304_PATCH	WISP3	ENSG00000266134	ENST00000580286	protein_coding	PUTATIVE	None	12771	996	331	112381216	112390889	1	None	CCN6
HG1304_PATCH	WISP3	ENSG00000266134	ENST00000541400	processed_transcript	KNOWN	None	12771	None	None	112382482	112390861	1	None	CCN6
17	None	ENSG00000263063	ENST00000574471	lincRNA	KNOWN	None	None	None	None	80671784	80674131	-1	None	None
11	CHKA	ENSG00000110721	ENST00000265689	protein_coding	KNOWN	CCDS8178	1937	1374	457	67820326	67888671	-1	CHK	CKI
11	CHKA	ENSG00000110721	ENST00000533728	processed_transcript	PUTATIVE	None	1937	None	None	67820979	67829192	-1	CHK	CKI
11	CHKA	ENSG00000110721	ENST00000525155	nonsense_mediated_decay	KNOWN	None	1937	495	164	67820982	67833927	-1	CHK	CKI
11	CHKA	ENSG00000110721	ENST00000356135	protein_coding	KNOWN	CCDS8179	1937	1320	439	67821287	67888911	-1	CHK	CKI
11	CHKA	ENSG00000110721	ENST00000533910	retained_intron	KNOWN	None	1937	None	None	67833939	67849277	-1	CHK	CKI
11	CHKA	ENSG00000110721	ENST00000528235	processed_transcript	KNOWN	None	1937	None	None	67833970	67857347	-1	CHK	CKI
11	CHKA	ENSG00000110721	ENST00000531341	protein_coding	PUTATIVE	None	1937	469	155	67837690	67888295	-1	CHK	CKI
11	CHKA	ENSG00000110721	ENST00000530730	processed_transcript	KNOWN	None	1937	None	None	67838283	67849565	-1	CHK	CKI
6	None	ENSG00000220377	ENST00000404253	unprocessed_pseudogene	KNOWN	None	None	None	None	52552728	52568623	-1	None	None
12	None	ENSG00000256640	ENST00000541141	processed_pseudogene	KNOWN	None	None	None	None	26953776	26954235	1	None	None
18	SERPINB5	ENSG00000206075	ENST00000382771	protein_coding	KNOWN	CCDS32839	8949	1128	375	61143994	61172318	1	PI5	maspin
18	SERPINB5	ENSG00000206075	ENST00000489441	protein_coding	KNOWN	None	8949	696	231	61144191	61160934	1	PI5	maspin
18	SERPINB5	ENSG00000206075	ENST00000424602	protein_coding	KNOWN	None	8949	387	128	61144360	61156660	1	PI5	maspin
18	SERPINB5	ENSG00000206075	ENST00000588986	retained_intron	KNOWN	None	8949	None	None	61153910	61156696	1	PI5	maspin
18	SERPINB5	ENSG00000206075	ENST00000465652	processed_transcript	KNOWN	None	8949	None	None	61157851	61170608	1	PI5	maspin
18	SERPINB5	ENSG00000206075	ENST00000464346	processed_transcript	KNOWN	None	8949	None	None	61157860	61170630	1	PI5	maspin
19	PDCD2L	ENSG00000126249	ENST00000246535	protein_coding	KNOWN	CCDS12438	28194	1077	358	34895289	34917072	1	None	MGC13096
19	PDCD2L	ENSG00000126249	ENST00000587385	retained_intron	KNOWN	None	28194	None	None	34895330	34917055	1	None	MGC13096
19	PDCD2L	ENSG00000126249	ENST00000587065	protein_coding	PUTATIVE	None	28194	171	56	34895732	34917073	1	None	MGC13096
19	PDCD2L	ENSG00000126249	ENST00000585821	retained_intron	KNOWN	None	28194	None	None	34900005	34912495	1	None	MGC13096
19	PDCD2L	ENSG00000126249	ENST00000589589	retained_intron	KNOWN	None	28194	None	None	34912340	34917072	1	None	MGC13096
HSCHR1_3_CTG31	None	ENSG00000262375	ENST00000575311	lincRNA	KNOWN	None	None	None	None	198578341	198579485	-1	None	None
16	GPR114	ENSG00000159618	ENST00000349457	protein_coding	KNOWN	CCDS10785	19010	1587	528	57576333	57611101	1	None	PGR27
16	GPR114	ENSG00000159618	ENST00000564983	retained_intron	KNOWN	None	19010	None	None	57576566	57596513	1	None	PGR27
16	GPR114	ENSG00000159618	ENST00000394361	processed_transcript	KNOWN	None	19010	None	None	57576566	57609551	1	None	PGR27
16	GPR114	ENSG00000159618	ENST00000564607	retained_intron	KNOWN	None	19010	None	None	57576567	57611098	1	None	PGR27
16	GPR114	ENSG00000159618	ENST00000340339	protein_coding	KNOWN	CCDS10785	19010	1587	528	57576601	57611107	1	None	PGR27
16	GPR114	ENSG00000159618	ENST00000569839	processed_transcript	KNOWN	None	19010	None	None	57608728	57625593	1	None	PGR27
18	None	ENSG00000263438	ENST00000578610	lincRNA	KNOWN	None	None	None	None	51094817	51124221	1	None	None
18	None	ENSG00000263438	ENST00000579506	lincRNA	KNOWN	None	None	None	None	51094841	51104092	1	None	None
18	None	ENSG00000263438	ENST00000581198	lincRNA	KNOWN	None	None	None	None	51094853	51115121	1	None	None
HSCHR1_3_CTG31	None	ENSG00000262237	ENST00000571571	antisense	KNOWN	None	None	None	None	198638169	198647677	-1	None	None
6	PPIL1	ENSG00000137168	ENST00000483552	processed_transcript	KNOWN	None	9260	None	None	36822603	36826411	-1	None	CYPL1
6	PPIL1	ENSG00000137168	ENST00000373699	protein_coding	KNOWN	CCDS4826	9260	501	166	36822603	36842800	-1	None	CYPL1
17	None	ENSG00000263321	ENST00000570919	lincRNA	KNOWN	None	None	None	None	80687040	80692019	-1	None	None
3	None	ENSG00000222615	ENST00000410683	miRNA	NOVEL	None	None	None	None	70300794	70300896	-1	None	None
19	CEACAM20	ENSG00000176395	ENST00000454753	processed_transcript	KNOWN	None	24879	None	None	45005729	45033811	-1	None	UNQ9366
19	CEACAM20	ENSG00000176395	ENST00000421432	processed_transcript	KNOWN	None	24879	None	None	45010211	45033548	-1	None	UNQ9366
19	CEACAM20	ENSG00000176395	ENST00000448350	processed_transcript	KNOWN	None	24879	None	None	45010211	45033548	-1	None	UNQ9366
19	CEACAM20	ENSG00000176395	ENST00000431738	processed_transcript	KNOWN	None	24879	None	None	45010211	45033548	-1	None	UNQ9366
19	CEACAM20	ENSG00000176395	ENST00000414638	processed_transcript	KNOWN	None	24879	None	None	45010211	45033548	-1	None	UNQ9366
19	CEACAM20	ENSG00000176395	ENST00000445209	processed_transcript	KNOWN	None	24879	None	None	45010211	45033548	-1	None	UNQ9366
19	CEACAM20	ENSG00000176395	ENST00000412211	processed_transcript	KNOWN	None	24879	None	None	45010211	45033548	-1	None	UNQ9366
19	CEACAM20	ENSG00000176395	ENST00000424903	processed_transcript	KNOWN	None	24879	None	None	45010211	45033548	-1	None	UNQ9366
19	CEACAM20	ENSG00000176395	ENST00000316962	processed_transcript	KNOWN	None	24879	None	None	45015068	45033811	-1	None	UNQ9366
3	KRT18P17	ENSG00000213943	ENST00000396959	processed_pseudogene	KNOWN	None	33385	None	None	12828892	12830170	-1	None	None
17	None	ENSG00000262410	ENST00000572594	sense_intronic	KNOWN	None	None	None	None	80702944	80703585	1	None	None
12	None	ENSG00000247903	ENST00000500632	antisense	KNOWN	None	None	None	None	27124519	27132515	1	None	None
HSCHR1_3_CTG31	PEBP1P3	ENSG00000262210	ENST00000575117	processed_pseudogene	KNOWN	None	44345	None	None	198659750	198660649	-1	None	None
17	None	ENSG00000264383	ENST00000585219	miRNA	NOVEL	None	None	None	None	80735830	80735915	-1	None	None
5	RHOBTB3	ENSG00000164292	ENST00000515852	processed_transcript	KNOWN	None	18757	None	None	95049226	95067716	1	None	KIAA0878
5	RHOBTB3	ENSG00000164292	ENST00000510226	processed_transcript	KNOWN	None	18757	None	None	95049226	95072626	1	None	KIAA0878
5	RHOBTB3	ENSG00000164292	ENST00000504949	retained_intron	KNOWN	None	18757	None	None	95053337	95091797	1	None	KIAA0878
5	RHOBTB3	ENSG00000164292	ENST00000506959	protein_coding	PUTATIVE	None	18757	542	179	95066576	95084145	1	None	KIAA0878
5	RHOBTB3	ENSG00000164292	ENST00000506817	protein_coding	PUTATIVE	None	18757	315	104	95066850	95068455	1	None	KIAA0878
5	RHOBTB3	ENSG00000164292	ENST00000379982	protein_coding	KNOWN	CCDS4077	18757	1836	611	95066879	95132071	1	None	KIAA0878
5	RHOBTB3	ENSG00000164292	ENST00000512878	retained_intron	KNOWN	None	18757	None	None	95067429	95072715	1	None	KIAA0878
5	RHOBTB3	ENSG00000164292	ENST00000510623	nonsense_mediated_decay	KNOWN	None	18757	219	72	95067660	95087991	1	None	KIAA0878
5	RHOBTB3	ENSG00000164292	ENST00000502541	nonsense_mediated_decay	KNOWN	None	18757	310	102	95072643	95099246	1	None	KIAA0878
5	RHOBTB3	ENSG00000164292	ENST00000504179	protein_coding	PUTATIVE	None	18757	729	242	95103459	95128950	1	None	KIAA0878
5	RHOBTB3	ENSG00000164292	ENST00000510313	protein_coding	PUTATIVE	None	18757	518	171	95103844	95125087	1	None	KIAA0878
5	RHOBTB3	ENSG00000164292	ENST00000507186	retained_intron	KNOWN	None	18757	None	None	95115711	95119573	1	None	KIAA0878
5	RHOBTB3	ENSG00000164292	ENST00000511558	retained_intron	KNOWN	None	18757	None	None	95119286	95124557	1	None	KIAA0878
5	RHOBTB3	ENSG00000164292	ENST00000503737	protein_coding	KNOWN	None	18757	352	116	95119538	95130036	1	None	KIAA0878
5	RHOBTB3	ENSG00000164292	ENST00000513091	protein_coding	PUTATIVE	None	18757	229	75	95124519	95160087	1	None	KIAA0878
5	RHOBTB3	ENSG00000164292	ENST00000514198	protein_coding	PUTATIVE	None	18757	112	36	95124525	95129200	1	None	KIAA0878
17	None	ENSG00000265461	ENST00000578755	miRNA	NOVEL	None	None	None	None	80736353	80736450	-1	None	None
17	MNT	ENSG00000070444	ENST00000174618	protein_coding	KNOWN	CCDS11018	7188	1749	582	2287354	2304412	-1	None	ROX, MXD6, MAD6, bHLHd3
17	MNT	ENSG00000070444	ENST00000575374	processed_transcript	PUTATIVE	None	7188	None	None	2290614	2295109	-1	None	ROX, MXD6, MAD6, bHLHd3
17	MNT	ENSG00000070444	ENST00000572892	processed_transcript	PUTATIVE	None	7188	None	None	2290638	2296054	-1	None	ROX, MXD6, MAD6, bHLHd3
17	MNT	ENSG00000070444	ENST00000571232	processed_transcript	KNOWN	None	7188	None	None	2290792	2297124	-1	None	ROX, MXD6, MAD6, bHLHd3
17	MNT	ENSG00000070444	ENST00000573384	retained_intron	KNOWN	None	7188	None	None	2290858	2291592	-1	None	ROX, MXD6, MAD6, bHLHd3
17	MNT	ENSG00000070444	ENST00000575394	processed_transcript	KNOWN	None	7188	None	None	2291203	2304398	-1	None	ROX, MXD6, MAD6, bHLHd3
17	MNT	ENSG00000070444	ENST00000574559	protein_coding	PUTATIVE	None	7188	337	111	2298308	2303740	-1	None	ROX, MXD6, MAD6, bHLHd3
17	MNT	ENSG00000070444	ENST00000571836	protein_coding	PUTATIVE	None	7188	21	6	2298624	2300147	-1	None	ROX, MXD6, MAD6, bHLHd3
3	COX6CP6	ENSG00000240156	ENST00000490840	processed_pseudogene	KNOWN	None	47037	None	None	70800274	70800501	1	None	None
17	None	ENSG00000263098	ENST00000576836	antisense	KNOWN	None	None	None	None	80753362	80753971	-1	None	None
X	TMEM185AP1	ENSG00000235254	ENST00000524311	unprocessed_pseudogene	KNOWN	None	31717	None	None	148850558	148853029	1	TMEM185AL	None
17	None	ENSG00000262663	ENST00000571113	lincRNA	KNOWN	None	None	None	None	80876158	80876661	1	None	None
16	ELMO3	ENSG00000102890	ENST00000360833	protein_coding	NOVEL	None	17289	2271	756	67233014	67237932	1	None	FLJ13824, CED12, ELMO-3, CED-12
16	ELMO3	ENSG00000102890	ENST00000393997	protein_coding	KNOWN	CCDS10833	17289	2322	773	67233014	67237932	1	None	FLJ13824, CED12, ELMO-3, CED-12
16	ELMO3	ENSG00000102890	ENST00000571587	nonsense_mediated_decay	KNOWN	None	17289	288	95	67233069	67235451	1	None	FLJ13824, CED12, ELMO-3, CED-12
16	ELMO3	ENSG00000102890	ENST00000477898	protein_coding	KNOWN	None	17289	1824	607	67233412	67237932	1	None	FLJ13824, CED12, ELMO-3, CED-12
16	ELMO3	ENSG00000102890	ENST00000571638	processed_transcript	KNOWN	None	17289	None	None	67233854	67235502	1	None	FLJ13824, CED12, ELMO-3, CED-12
20	MAVS	ENSG00000088888	ENST00000428216	protein_coding	KNOWN	CCDS33437	29233	1623	540	3827490	3849280	1	None	VISA, KIAA1271, IPS-1, Cardif
20	MAVS	ENSG00000088888	ENST00000358134	protein_coding	KNOWN	None	29233	375	124	3835272	3846794	1	None	VISA, KIAA1271, IPS-1, Cardif
20	MAVS	ENSG00000088888	ENST00000416600	protein_coding	KNOWN	CCDS56176	29233	1200	399	3827487	3846922	1	None	VISA, KIAA1271, IPS-1, Cardif
12	None	ENSG00000265012	ENST00000580797	miRNA	NOVEL	None	None	None	None	27138867	27138918	-1	None	None
20	None	ENSG00000270411	ENST00000604803	processed_pseudogene	KNOWN	None	None	None	None	56672323	56672647	1	None	None
7	MTND2P5	ENSG00000224354	ENST00000432656	processed_pseudogene	KNOWN	None	42106	None	None	141502282	141503287	-1	None	None
11	HEPN1	ENSG00000221932	ENST00000408930	protein_coding	KNOWN	CCDS41729	34400	267	88	124789146	124790573	1	None	None
8	ERI1	ENSG00000104626	ENST00000523898	protein_coding	KNOWN	CCDS5972	23994	1050	349	8859657	8890848	1	THEX1	3'HEXO
8	ERI1	ENSG00000104626	ENST00000519292	protein_coding	KNOWN	CCDS5972	23994	1050	349	8860354	8890848	1	THEX1	3'HEXO
8	ERI1	ENSG00000104626	ENST00000521844	nonsense_mediated_decay	KNOWN	None	23994	135	44	8860401	8865532	1	THEX1	3'HEXO
8	ERI1	ENSG00000104626	ENST00000520684	nonsense_mediated_decay	KNOWN	None	23994	300	99	8860439	8875810	1	THEX1	3'HEXO
8	ERI1	ENSG00000104626	ENST00000520332	processed_transcript	KNOWN	None	23994	None	None	8869173	8957609	1	THEX1	3'HEXO
8	ERI1	ENSG00000104626	ENST00000518663	processed_transcript	KNOWN	None	23994	None	None	8873842	8974256	1	THEX1	3'HEXO
8	ERI1	ENSG00000104626	ENST00000522612	processed_transcript	KNOWN	None	23994	None	None	8877923	8957609	1	THEX1	3'HEXO
8	ERI1	ENSG00000104626	ENST00000522258	processed_transcript	KNOWN	None	23994	None	None	8907328	8957611	1	THEX1	3'HEXO
8	ERI1	ENSG00000104626	ENST00000250263	protein_coding	KNOWN	CCDS5972	23994	1050	349	8860314	8890849	1	THEX1	3'HEXO
18	None	ENSG00000260433	ENST00000565170	lincRNA	KNOWN	None	None	None	None	51105993	51107429	-1	None	None
5	C5orf28	ENSG00000151881	ENST00000500337	protein_coding	KNOWN	CCDS3945	26139	648	215	43444354	43483938	-1	None	FLJ21657
5	C5orf28	ENSG00000151881	ENST00000397080	protein_coding	KNOWN	CCDS3945	26139	648	215	43444772	43483987	-1	None	FLJ21657
5	C5orf28	ENSG00000151881	ENST00000512085	protein_coding	KNOWN	CCDS3945	26139	648	215	43445340	43483993	-1	None	FLJ21657
5	C5orf28	ENSG00000151881	ENST00000511525	processed_transcript	KNOWN	None	26139	None	None	43445995	43483995	-1	None	FLJ21657
5	C5orf28	ENSG00000151881	ENST00000510130	protein_coding	PUTATIVE	None	26139	342	113	43446081	43483967	-1	None	FLJ21657
5	C5orf28	ENSG00000151881	ENST00000506860	protein_coding	KNOWN	None	26139	528	175	43446444	43483959	-1	None	FLJ21657
5	C5orf28	ENSG00000151881	ENST00000537319	protein_coding	KNOWN	None	26139	255	84	43444763	43476603	-1	None	FLJ21657
3	HMGB1P36	ENSG00000243873	ENST00000487709	processed_pseudogene	KNOWN	None	39176	None	None	70803005	70803724	1	None	None
17	None	ENSG00000262339	ENST00000577023	antisense	KNOWN	None	None	None	None	80936401	80939384	1	None	None
17	None	ENSG00000262339	ENST00000573207	antisense	KNOWN	None	None	None	None	80936597	80939610	1	None	None
17	None	ENSG00000262339	ENST00000574647	antisense	KNOWN	None	None	None	None	80937232	80939614	1	None	None
17	None	ENSG00000262339	ENST00000576197	antisense	KNOWN	None	None	None	None	80938958	80939614	1	None	None
HG905_PATCH	None	ENSG00000260370	ENST00000562162	lincRNA	KNOWN	None	None	None	None	64061	64604	-1	None	None
HG905_PATCH	None	ENSG00000260370	ENST00000566940	lincRNA	KNOWN	None	None	None	None	64138	66544	-1	None	None
10	None	ENSG00000214089	ENST00000392269	processed_pseudogene	KNOWN	None	None	None	None	44910097	44910601	-1	None	None
7	MTND1P3	ENSG00000239648	ENST00000484956	processed_pseudogene	KNOWN	None	42052	None	None	141503501	141504452	-1	None	None
18	RPL29P32	ENSG00000242945	ENST00000491585	processed_pseudogene	KNOWN	None	35834	None	None	51131624	51132095	-1	None	None
10	None	ENSG00000270767	ENST00000605122	processed_pseudogene	KNOWN	None	None	None	None	44983783	44983893	-1	None	None
11	None	ENSG00000254661	ENST00000530418	lincRNA	KNOWN	None	None	None	None	15932503	15948989	1	None	None
HG905_PATCH	None	ENSG00000261753	ENST00000561628	unprocessed_pseudogene	KNOWN	None	None	None	None	94712	96884	1	None	None
10	None	ENSG00000234580	ENST00000456722	lincRNA	KNOWN	None	None	None	None	45086656	45097552	-1	None	None
17	None	ENSG00000261888	ENST00000573312	lincRNA	KNOWN	None	None	None	None	81061205	81063860	1	None	None
18	None	ENSG00000221058	ENST00000408131	miRNA	NOVEL	None	None	None	None	51612956	51613026	-1	None	None
15	LINS	ENSG00000140471	ENST00000560783	nonsense_mediated_decay	KNOWN	None	30922	208	68	101099574	101114046	-1	LINS1	WINS1
15	LINS	ENSG00000140471	ENST00000314742	protein_coding	KNOWN	CCDS10385	30922	2274	757	101107119	101142445	-1	LINS1	WINS1
15	LINS	ENSG00000140471	ENST00000559169	retained_intron	KNOWN	None	30922	None	None	101109440	101113767	-1	LINS1	WINS1
15	LINS	ENSG00000140471	ENST00000561233	processed_transcript	PUTATIVE	None	30922	None	None	101110103	101110836	-1	LINS1	WINS1
15	LINS	ENSG00000140471	ENST00000559149	processed_transcript	KNOWN	None	30922	None	None	101112408	101142379	-1	LINS1	WINS1
15	LINS	ENSG00000140471	ENST00000561308	protein_coding	KNOWN	None	30922	1311	436	101113620	101142376	-1	LINS1	WINS1
15	LINS	ENSG00000140471	ENST00000560133	protein_coding	NOVEL	None	30922	954	317	101113682	101142379	-1	LINS1	WINS1
15	LINS	ENSG00000140471	ENST00000560941	protein_coding	PUTATIVE	None	30922	397	131	101114438	101142379	-1	LINS1	WINS1
15	LINS	ENSG00000140471	ENST00000559736	protein_coding	KNOWN	None	30922	596	197	101115227	101142389	-1	LINS1	WINS1
15	LINS	ENSG00000140471	ENST00000559577	protein_coding	KNOWN	None	30922	574	190	101115249	101142362	-1	LINS1	WINS1
15	LINS	ENSG00000140471	ENST00000561073	processed_transcript	KNOWN	None	30922	None	None	101116780	101142355	-1	LINS1	WINS1
15	LINS	ENSG00000140471	ENST00000560934	protein_coding	KNOWN	None	30922	432	143	101120525	101137141	-1	LINS1	WINS1
15	LINS	ENSG00000140471	ENST00000560272	protein_coding	KNOWN	None	30922	387	128	101120661	101142389	-1	LINS1	WINS1
15	LINS	ENSG00000140471	ENST00000559827	processed_transcript	KNOWN	None	30922	None	None	101121104	101143435	-1	LINS1	WINS1
14	None	ENSG00000258824	ENST00000556640	antisense	KNOWN	None	None	None	None	64889653	64915275	-1	None	None
3	None	ENSG00000272263	ENST00000606447	antisense	KNOWN	None	None	None	None	12873718	12874227	-1	None	None
18	None	ENSG00000264296	ENST00000578241	processed_pseudogene	KNOWN	None	None	None	None	51668503	51668947	1	None	None
3	ATG3	ENSG00000144848	ENST00000283290	protein_coding	KNOWN	CCDS2966	20962	945	314	112251356	112280810	-1	APG3L	PC3-96, FLJ22125, MGC15201, DKFZp564M1178
3	ATG3	ENSG00000144848	ENST00000402314	protein_coding	PUTATIVE	None	20962	936	311	112251357	112280763	-1	APG3L	PC3-96, FLJ22125, MGC15201, DKFZp564M1178
3	ATG3	ENSG00000144848	ENST00000494571	retained_intron	KNOWN	None	20962	None	None	112251369	112255614	-1	APG3L	PC3-96, FLJ22125, MGC15201, DKFZp564M1178
3	ATG3	ENSG00000144848	ENST00000495756	processed_transcript	KNOWN	None	20962	None	None	112255057	112280771	-1	APG3L	PC3-96, FLJ22125, MGC15201, DKFZp564M1178
3	ATG3	ENSG00000144848	ENST00000467275	retained_intron	KNOWN	None	20962	None	None	112256378	112257191	-1	APG3L	PC3-96, FLJ22125, MGC15201, DKFZp564M1178
3	ATG3	ENSG00000144848	ENST00000496423	nonsense_mediated_decay	KNOWN	None	20962	225	74	112256582	112280499	-1	APG3L	PC3-96, FLJ22125, MGC15201, DKFZp564M1178
3	ATG3	ENSG00000144848	ENST00000492886	protein_coding	PUTATIVE	None	20962	249	82	112256993	112280893	-1	APG3L	PC3-96, FLJ22125, MGC15201, DKFZp564M1178
3	ATG3	ENSG00000144848	ENST00000465980	retained_intron	KNOWN	None	20962	None	None	112262842	112280480	-1	APG3L	PC3-96, FLJ22125, MGC15201, DKFZp564M1178
3	ATG3	ENSG00000144848	ENST00000488910	retained_intron	KNOWN	None	20962	None	None	112276985	112280704	-1	APG3L	PC3-96, FLJ22125, MGC15201, DKFZp564M1178
7	MYL6P4	ENSG00000240677	ENST00000477911	processed_pseudogene	KNOWN	None	37813	None	None	141511605	141512057	1	None	None
10	EIF2AP4	ENSG00000227395	ENST00000424793	processed_pseudogene	KNOWN	None	39498	None	None	45301891	45303671	1	None	None
21	None	ENSG00000268805	ENST00000600921	protein_coding	NOVEL	None	None	345	114	46511596	46515493	-1	None	None
14	None	ENSG00000259116	ENST00000554918	antisense	KNOWN	None	None	None	None	64980872	65007086	-1	None	None
17	None	ENSG00000262898	ENST00000572343	lincRNA	KNOWN	None	None	None	None	81091900	81125376	1	None	None
2	PAX8	ENSG00000125618	ENST00000263335	protein_coding	KNOWN	CCDS42736	8622	966	321	113973574	114036488	-1	None	None
2	PAX8	ENSG00000125618	ENST00000397647	protein_coding	KNOWN	CCDS42735	8622	864	287	113973574	114036488	-1	None	None
2	PAX8	ENSG00000125618	ENST00000348715	protein_coding	KNOWN	CCDS46399	8622	1197	398	113973574	114036488	-1	None	None
2	PAX8	ENSG00000125618	ENST00000429538	protein_coding	KNOWN	CCDS46398	8622	1353	450	113973574	114036527	-1	None	None
2	PAX8	ENSG00000125618	ENST00000465084	protein_coding	NOVEL	None	8622	295	97	113975826	113993020	-1	None	None
2	PAX8	ENSG00000125618	ENST00000480684	retained_intron	KNOWN	None	8622	None	None	113976046	113978054	-1	None	None
2	PAX8	ENSG00000125618	ENST00000497038	nonsense_mediated_decay	KNOWN	None	8622	7	1	113976099	113999356	-1	None	None
2	PAX8	ENSG00000125618	ENST00000468980	protein_coding	NOVEL	None	8622	520	172	113976105	113999260	-1	None	None
2	PAX8	ENSG00000125618	ENST00000485840	retained_intron	KNOWN	None	8622	None	None	113983174	113995085	-1	None	None
2	PAX8	ENSG00000125618	ENST00000554352	retained_intron	KNOWN	None	8622	None	None	113992922	113994506	-1	None	None
2	PAX8	ENSG00000125618	ENST00000467778	retained_intron	KNOWN	None	8622	None	None	113998655	114036496	-1	None	None
2	PAX8	ENSG00000125618	ENST00000554830	nonsense_mediated_decay	KNOWN	None	8622	96	31	113999128	114036475	-1	None	None
2	PAX8	ENSG00000125618	ENST00000263334	protein_coding	KNOWN	CCDS46399	8622	1197	398	113977669	114035971	-1	None	None
3	SNORA7A	ENSG00000207496	ENST00000384765	snoRNA	KNOWN	None	32592	None	None	12881811	12881949	-1	None	ACA7
18	SNORA37	ENSG00000207233	ENST00000384504	snoRNA	KNOWN	None	32630	None	None	51748654	51748782	-1	None	ACA37
10	TMEM72-AS1	ENSG00000224812	ENST00000450287	antisense	KNOWN	None	27349	None	None	45306472	45455137	-1	None	None
HG1133_PATCH	TAS2R10	ENSG00000272500	ENST00000571357	protein_coding	KNOWN	None	14918	924	307	10977916	10978957	-1	None	T2R10, TRB2
12	None	ENSG00000271418	ENST00000603769	processed_pseudogene	KNOWN	None	None	None	None	27246856	27247156	-1	None	None
21	None	ENSG00000267857	ENST00000596207	protein_coding	KNOWN	None	None	735	244	46520728	46534873	-1	None	None
9	None	ENSG00000230097	ENST00000426028	processed_pseudogene	KNOWN	None	None	None	None	29824740	29826709	-1	None	None
17	None	ENSG00000262952	ENST00000572850	lincRNA	KNOWN	None	None	None	None	81159765	81168698	1	None	None
17	None	ENSG00000262952	ENST00000574856	lincRNA	KNOWN	None	None	None	None	81168195	81168959	1	None	None
11	None	ENSG00000254878	ENST00000531763	antisense	KNOWN	None	None	None	None	16044736	16053061	1	None	None
18	SNRPGP2	ENSG00000264350	ENST00000580909	processed_pseudogene	KNOWN	None	30999	None	None	51933259	51933484	-1	None	HsT2742
8	CA1	ENSG00000133742	ENST00000523953	protein_coding	KNOWN	CCDS6237	1368	786	261	86239837	86291243	-1	None	Car1
8	CA1	ENSG00000133742	ENST00000523022	protein_coding	KNOWN	CCDS6237	1368	786	261	86240459	86290342	-1	None	Car1
8	CA1	ENSG00000133742	ENST00000522389	protein_coding	PUTATIVE	None	1368	384	127	86240668	86253888	-1	None	Car1
8	CA1	ENSG00000133742	ENST00000521679	protein_coding	NOVEL	None	1368	535	177	86240718	86250524	-1	None	Car1
8	CA1	ENSG00000133742	ENST00000524324	protein_coding	NOVEL	None	1368	583	193	86240794	86290342	-1	None	Car1
8	CA1	ENSG00000133742	ENST00000517618	protein_coding	KNOWN	None	1368	753	250	86240822	86253943	-1	None	Car1
8	CA1	ENSG00000133742	ENST00000519991	protein_coding	PUTATIVE	None	1368	413	136	86240823	86290342	-1	None	Car1
8	CA1	ENSG00000133742	ENST00000523712	retained_intron	KNOWN	None	1368	None	None	86241927	86249441	-1	None	Car1
8	CA1	ENSG00000133742	ENST00000520663	protein_coding	PUTATIVE	None	1368	263	86	86241985	86290342	-1	None	Car1
8	CA1	ENSG00000133742	ENST00000517590	protein_coding	KNOWN	None	1368	527	174	86242060	86290342	-1	None	Car1
8	CA1	ENSG00000133742	ENST00000518233	retained_intron	KNOWN	None	1368	None	None	86244600	86255054	-1	None	Car1
8	CA1	ENSG00000133742	ENST00000517429	nonsense_mediated_decay	KNOWN	None	1368	246	81	86244723	86290342	-1	None	Car1
8	CA1	ENSG00000133742	ENST00000521846	protein_coding	KNOWN	None	1368	448	148	86245756	86290337	-1	None	Car1
8	CA1	ENSG00000133742	ENST00000522579	protein_coding	KNOWN	None	1368	447	148	86245757	86290342	-1	None	Car1
8	CA1	ENSG00000133742	ENST00000518341	processed_transcript	KNOWN	None	1368	None	None	86245757	86290342	-1	None	Car1
8	CA1	ENSG00000133742	ENST00000522814	protein_coding	KNOWN	None	1368	445	147	86245759	86290342	-1	None	Car1
8	CA1	ENSG00000133742	ENST00000522662	protein_coding	KNOWN	None	1368	354	117	86249174	86290342	-1	None	Car1
8	CA1	ENSG00000133742	ENST00000523858	protein_coding	KNOWN	None	1368	297	98	86249231	86290342	-1	None	Car1
8	CA1	ENSG00000133742	ENST00000520093	retained_intron	KNOWN	None	1368	None	None	86250214	86290342	-1	None	Car1
8	CA1	ENSG00000133742	ENST00000520990	retained_intron	KNOWN	None	1368	None	None	86250248	86290342	-1	None	Car1
8	CA1	ENSG00000133742	ENST00000519129	protein_coding	KNOWN	None	1368	67	21	86250649	86290342	-1	None	Car1
8	CA1	ENSG00000133742	ENST00000520692	retained_intron	KNOWN	None	1368	None	None	86253644	86255029	-1	None	Car1
8	CA1	ENSG00000133742	ENST00000256119	protein_coding	KNOWN	CCDS6237	1368	786	261	86240458	86264013	-1	None	Car1
8	CA1	ENSG00000133742	ENST00000431316	protein_coding	KNOWN	CCDS6237	1368	786	261	86240458	86262130	-1	None	Car1
8	CA1	ENSG00000133742	ENST00000542576	protein_coding	KNOWN	CCDS6237	1368	786	261	86240458	86255072	-1	None	Car1
8	CA1	ENSG00000133742	ENST00000432364	protein_coding	KNOWN	CCDS6237	1368	786	261	86240458	86253943	-1	None	Car1
7	None	ENSG00000265523	ENST00000582264	miRNA	NOVEL	None	None	None	None	141559618	141559669	-1	None	None
HSCHR6_MHC_SSTO	TRIM40	ENSG00000233931	ENST00000430485	protein_coding	KNOWN	None	18736	777	258	30093487	30106107	1	None	RNF35
HSCHR6_MHC_SSTO	TRIM40	ENSG00000233931	ENST00000486552	processed_transcript	KNOWN	None	18736	None	None	30093503	30094577	1	None	RNF35
HSCHR6_MHC_SSTO	TRIM40	ENSG00000233931	ENST00000456884	protein_coding	KNOWN	None	18736	690	229	30094389	30106107	1	None	RNF35
HG905_PATCH	IL9RP2	ENSG00000259973	ENST00000568168	unprocessed_pseudogene	KNOWN	None	6032	None	None	130394	136265	-1	None	None
8	None	ENSG00000253684	ENST00000521828	processed_pseudogene	KNOWN	None	None	None	None	33499099	33499457	-1	None	None
18	None	ENSG00000264564	ENST00000581715	processed_pseudogene	KNOWN	None	None	None	None	52051804	52051933	1	None	None
8	None	ENSG00000253994	ENST00000521269	processed_pseudogene	KNOWN	None	None	None	None	111821623	111822123	-1	None	None
X	POF1B	ENSG00000124429	ENST00000490301	nonsense_mediated_decay	KNOWN	None	13711	900	299	84532402	84634697	-1	None	POF, FLJ22792
X	POF1B	ENSG00000124429	ENST00000262753	protein_coding	KNOWN	CCDS14452	13711	1770	589	84532402	84634748	-1	None	POF, FLJ22792
X	POF1B	ENSG00000124429	ENST00000373145	protein_coding	KNOWN	None	13711	1788	595	84537121	84634722	-1	None	POF, FLJ22792
10	None	ENSG00000234504	ENST00000436877	antisense	KNOWN	None	None	None	None	45395062	45415668	-1	None	None
3	None	ENSG00000250939	ENST00000502828	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	12892158	12892359	1	None	None
17	None	ENSG00000256692	ENST00000537005	pseudogene	NOVEL	None	None	None	None	81165854	81165944	-1	None	None
18	None	ENSG00000267428	ENST00000585943	processed_pseudogene	KNOWN	None	None	None	None	52234228	52234534	1	None	None
2	CCDC121	ENSG00000176714	ENST00000324364	protein_coding	KNOWN	CCDS1759	25833	837	278	27848506	27851879	-1	None	FLJ43364, FLJ13646
2	CCDC121	ENSG00000176714	ENST00000394775	protein_coding	KNOWN	CCDS46247	25833	1323	440	27849796	27851745	-1	None	FLJ43364, FLJ13646
2	CCDC121	ENSG00000176714	ENST00000522876	protein_coding	NOVEL	None	25833	432	143	27850727	27851758	-1	None	FLJ43364, FLJ13646
HSCHR17_4_CTG4	KRTAP3-2	ENSG00000263296	ENST00000575409	protein_coding	KNOWN	None	16779	297	98	39155572	39156273	-1	None	KAP3.2
1	None	ENSG00000233304	ENST00000456897	lincRNA	KNOWN	None	None	None	None	4000673	4009411	1	None	None
1	None	ENSG00000233304	ENST00000412674	lincRNA	KNOWN	None	None	None	None	4000677	4015322	1	None	None
X	VGLL1	ENSG00000102243	ENST00000370634	protein_coding	KNOWN	CCDS14658	20985	777	258	135614311	135638966	1	None	TONDU, TDU
X	VGLL1	ENSG00000102243	ENST00000440515	protein_coding	KNOWN	None	20985	486	161	135618287	135638655	1	None	TONDU, TDU
X	VGLL1	ENSG00000102243	ENST00000456412	protein_coding	KNOWN	None	20985	183	60	135618354	135638966	1	None	TONDU, TDU
X	VGLL1	ENSG00000102243	ENST00000470358	processed_transcript	KNOWN	None	20985	None	None	135632601	135638966	1	None	TONDU, TDU
18	RPSAP57	ENSG00000267524	ENST00000590033	processed_pseudogene	KNOWN	None	35889	None	None	52411981	52412812	1	None	None
17	None	ENSG00000262094	ENST00000573737	lincRNA	KNOWN	None	None	None	None	81168296	81174272	-1	None	None
17	None	ENSG00000262094	ENST00000574098	lincRNA	KNOWN	None	None	None	None	81168317	81170725	-1	None	None
17	None	ENSG00000262094	ENST00000570366	lincRNA	KNOWN	None	None	None	None	81168644	81175490	-1	None	None
17	None	ENSG00000262094	ENST00000575205	lincRNA	KNOWN	None	None	None	None	81168838	81175474	-1	None	None
1	PCP4L1	ENSG00000248485	ENST00000504449	protein_coding	KNOWN	CCDS53412	20448	207	68	161228517	161255240	1	None	IQM1
HG745_PATCH	None	ENSG00000262537	ENST00000575065	misc_RNA	NOVEL	None	None	None	None	36387075	36387176	-1	None	None
HG745_PATCH	None	ENSG00000265004	ENST00000581623	misc_RNA	NOVEL	None	None	None	None	36566043	36566303	1	None	None
16	SHCBP1	ENSG00000171241	ENST00000303383	protein_coding	KNOWN	CCDS10720	29547	2019	672	46614466	46655538	-1	None	FLJ22009
16	SHCBP1	ENSG00000171241	ENST00000567698	retained_intron	KNOWN	None	29547	None	None	46615825	46618165	-1	None	FLJ22009
16	SHCBP1	ENSG00000171241	ENST00000563219	retained_intron	KNOWN	None	29547	None	None	46629536	46637756	-1	None	FLJ22009
16	SHCBP1	ENSG00000171241	ENST00000569702	protein_coding	NOVEL	None	29547	465	154	46633841	46649905	-1	None	FLJ22009
16	SHCBP1	ENSG00000171241	ENST00000566016	retained_intron	KNOWN	None	29547	None	None	46637506	46655280	-1	None	FLJ22009
16	SHCBP1	ENSG00000171241	ENST00000565887	retained_intron	KNOWN	None	29547	None	None	46637902	46649895	-1	None	FLJ22009
16	SHCBP1	ENSG00000171241	ENST00000564272	processed_transcript	PUTATIVE	None	29547	None	None	46654378	46655263	-1	None	FLJ22009
5	KCTD16	ENSG00000183775	ENST00000512467	protein_coding	KNOWN	CCDS34260	29244	1287	428	143550396	143854033	1	None	KIAA1317
5	KCTD16	ENSG00000183775	ENST00000507359	protein_coding	KNOWN	CCDS34260	29244	1287	428	143584840	143856945	1	None	KIAA1317
17	None	ENSG00000232938	ENST00000425566	processed_transcript	KNOWN	None	None	None	None	81174666	81188573	1	None	None
17	None	ENSG00000232938	ENST00000573039	transcribed_processed_pseudogene	KNOWN	None	None	None	None	81187695	81188160	1	None	None
18	None	ENSG00000267311	ENST00000590604	lincRNA	KNOWN	None	None	None	None	52546688	52548040	1	None	None
19	C19orf24	ENSG00000228300	ENST00000409293	protein_coding	KNOWN	CCDS12060	26073	399	132	1275026	1279227	1	None	FLJ20640
19	C19orf24	ENSG00000228300	ENST00000469144	protein_coding	PUTATIVE	None	26073	399	132	1275945	1279227	1	None	FLJ20640
19	C19orf24	ENSG00000228300	ENST00000590269	processed_transcript	KNOWN	None	26073	None	None	1276092	1278835	1	None	FLJ20640
19	C19orf24	ENSG00000228300	ENST00000485191	retained_intron	KNOWN	None	26073	None	None	1276092	1279221	1	None	FLJ20640
19	C19orf24	ENSG00000228300	ENST00000585716	processed_transcript	KNOWN	None	26073	None	None	1277870	1279248	1	None	FLJ20640
15	None	ENSG00000225973	ENST00000436697	antisense	KNOWN	None	None	None	None	55609382	55611243	-1	None	None
15	None	ENSG00000225973	ENST00000567948	antisense	KNOWN	None	None	None	None	55609520	55611359	-1	None	None
15	None	ENSG00000225973	ENST00000565225	antisense	KNOWN	None	None	None	None	55609902	55611305	-1	None	None
HSCHR17_4_CTG4	KRTAP3-1	ENSG00000262068	ENST00000571440	protein_coding	KNOWN	None	16778	297	98	39164900	39165493	-1	None	KAP3.1
HSCHR17_4_CTG4	KRTAP3-1	ENSG00000262068	ENST00000580358	processed_transcript	KNOWN	None	16778	None	None	39164900	39175703	-1	None	KAP3.1
11	CHRDL2	ENSG00000054938	ENST00000529912	protein_coding	NOVEL	None	24168	275	90	74407474	74408739	-1	None	BNF1
11	CHRDL2	ENSG00000054938	ENST00000525413	protein_coding	PUTATIVE	None	24168	533	176	74407474	74415680	-1	None	BNF1
11	CHRDL2	ENSG00000054938	ENST00000376324	nonsense_mediated_decay	KNOWN	None	24168	429	142	74407474	74430348	-1	None	BNF1
11	CHRDL2	ENSG00000054938	ENST00000263671	protein_coding	KNOWN	CCDS8234	24168	1356	451	74407474	74442220	-1	None	BNF1
11	CHRDL2	ENSG00000054938	ENST00000376332	protein_coding	KNOWN	None	24168	1290	429	74407474	74442430	-1	None	BNF1
11	CHRDL2	ENSG00000054938	ENST00000534159	processed_transcript	KNOWN	None	24168	None	None	74411967	74442198	-1	None	BNF1
11	CHRDL2	ENSG00000054938	ENST00000534276	nonsense_mediated_decay	KNOWN	None	24168	429	142	74413839	74430348	-1	None	BNF1
11	CHRDL2	ENSG00000054938	ENST00000528471	nonsense_mediated_decay	KNOWN	None	24168	282	93	74413839	74430348	-1	None	BNF1
11	CHRDL2	ENSG00000054938	ENST00000528789	protein_coding	NOVEL	None	24168	925	307	74413839	74442227	-1	None	BNF1
15	None	ENSG00000258909	ENST00000556708	lincRNA	KNOWN	None	None	None	None	93960079	93965805	-1	None	None
HG1133_PATCH	TAS2R13	ENSG00000271813	ENST00000575183	protein_coding	KNOWN	None	14919	912	303	11060525	11062161	-1	None	T2R13, TRB3
18	None	ENSG00000267112	ENST00000588466	antisense	KNOWN	None	None	None	None	52553097	52565314	-1	None	None
10	None	ENSG00000237297	ENST00000416477	unprocessed_pseudogene	KNOWN	None	None	None	None	90652	92824	1	None	None
15	None	ENSG00000260104	ENST00000565567	unprocessed_pseudogene	KNOWN	None	None	None	None	75541573	75541748	-1	None	None
7	OR9A3P	ENSG00000240031	ENST00000485185	transcribed_unprocessed_pseudogene	KNOWN	None	15094	None	None	141562660	141563537	1	OR9A6P	None
7	OR9A3P	ENSG00000240031	ENST00000482472	processed_transcript	KNOWN	None	15094	None	None	141562904	141563362	1	OR9A6P	None
12	TRPV4	ENSG00000111199	ENST00000418703	protein_coding	KNOWN	CCDS9134	18083	2616	871	110220890	110252696	-1	None	OTRPC4, TRP12, VROAC, VRL-2, VR-OAC, CMT2C
12	TRPV4	ENSG00000111199	ENST00000261740	protein_coding	KNOWN	CCDS9134	18083	2616	871	110220892	110271206	-1	None	OTRPC4, TRP12, VROAC, VRL-2, VR-OAC, CMT2C
12	TRPV4	ENSG00000111199	ENST00000538125	nonsense_mediated_decay	KNOWN	None	18083	1659	552	110221363	110271206	-1	None	OTRPC4, TRP12, VROAC, VRL-2, VR-OAC, CMT2C
12	TRPV4	ENSG00000111199	ENST00000544971	protein_coding	KNOWN	CCDS53827	18083	2295	764	110221426	110252601	-1	None	OTRPC4, TRP12, VROAC, VRL-2, VR-OAC, CMT2C
12	TRPV4	ENSG00000111199	ENST00000537083	protein_coding	KNOWN	CCDS9135	18083	2436	811	110221426	110252601	-1	None	OTRPC4, TRP12, VROAC, VRL-2, VR-OAC, CMT2C
12	TRPV4	ENSG00000111199	ENST00000541794	protein_coding	KNOWN	CCDS53828	18083	2475	824	110221426	110252601	-1	None	OTRPC4, TRP12, VROAC, VRL-2, VR-OAC, CMT2C
12	TRPV4	ENSG00000111199	ENST00000536838	protein_coding	KNOWN	CCDS53829	18083	2514	837	110221426	110252601	-1	None	OTRPC4, TRP12, VROAC, VRL-2, VR-OAC, CMT2C
12	TRPV4	ENSG00000111199	ENST00000536570	processed_transcript	KNOWN	None	18083	None	None	110252506	110270540	-1	None	OTRPC4, TRP12, VROAC, VRL-2, VR-OAC, CMT2C
12	TRPV4	ENSG00000111199	ENST00000392719	protein_coding	KNOWN	CCDS53828	18083	2475	824	110220893	110271212	-1	None	OTRPC4, TRP12, VROAC, VRL-2, VR-OAC, CMT2C
12	TRPV4	ENSG00000111199	ENST00000346520	protein_coding	KNOWN	CCDS9135	18083	2436	811	110220893	110271212	-1	None	OTRPC4, TRP12, VROAC, VRL-2, VR-OAC, CMT2C
19	RNU6-1179P	ENSG00000207397	ENST00000384667	snRNA	KNOWN	None	48142	None	None	22738063	22738169	1	None	None
18	MAP1LC3P	ENSG00000267647	ENST00000588023	processed_pseudogene	KNOWN	None	31004	None	None	52621634	52621963	1	None	HsT312
14	SLC20A1P1	ENSG00000223506	ENST00000413906	processed_pseudogene	KNOWN	None	20051	None	None	107139412	107140367	-1	None	None
19	None	ENSG00000271149	ENST00000603174	unprocessed_pseudogene	KNOWN	None	None	None	None	22778281	22778965	-1	None	None
4	CENPE	ENSG00000138778	ENST00000380026	protein_coding	KNOWN	None	1856	7743	2580	104026970	104119565	-1	None	KIF10, PPP1R61
4	CENPE	ENSG00000138778	ENST00000509823	retained_intron	KNOWN	None	1856	None	None	104037521	104041493	-1	None	KIF10, PPP1R61
4	CENPE	ENSG00000138778	ENST00000515478	retained_intron	KNOWN	None	1856	None	None	104066460	104066938	-1	None	KIF10, PPP1R61
4	CENPE	ENSG00000138778	ENST00000503705	protein_coding	NOVEL	None	1856	3379	1125	104072393	104119565	-1	None	KIF10, PPP1R61
4	CENPE	ENSG00000138778	ENST00000509120	processed_transcript	KNOWN	None	1856	None	None	104101462	104103120	-1	None	KIF10, PPP1R61
4	CENPE	ENSG00000138778	ENST00000514974	protein_coding	NOVEL	None	1856	551	182	104115408	104119506	-1	None	KIF10, PPP1R61
4	CENPE	ENSG00000138778	ENST00000265148	protein_coding	KNOWN	CCDS34042	1856	8106	2701	104026963	104119566	-1	None	KIF10, PPP1R61
15	None	ENSG00000258787	ENST00000557145	processed_pseudogene	KNOWN	None	None	None	None	93973888	93974446	-1	None	None
HG745_PATCH	None	ENSG00000260960	ENST00000567965	antisense	KNOWN	None	None	None	None	36606676	36608644	-1	None	None
15	None	ENSG00000259499	ENST00000559034	lincRNA	KNOWN	None	None	None	None	44679518	44682649	-1	None	None
18	None	ENSG00000264804	ENST00000579333	miRNA	NOVEL	None	None	None	None	52668527	52668629	-1	None	None
11	None	ENSG00000221556	ENST00000408629	miRNA	NOVEL	None	None	None	None	16145862	16145942	1	None	None
9	None	ENSG00000271875	ENST00000606717	3prime_overlapping_ncrna	KNOWN	None	None	None	None	136125788	136130950	-1	None	None
20	APCDD1L-AS1	ENSG00000231290	ENST00000427140	processed_transcript	KNOWN	None	27152	None	None	57090435	57194944	1	None	None
20	APCDD1L-AS1	ENSG00000231290	ENST00000445984	processed_transcript	KNOWN	None	27152	None	None	57090555	57098858	1	None	None
20	APCDD1L-AS1	ENSG00000231290	ENST00000448374	processed_transcript	KNOWN	None	27152	None	None	57090555	57099784	1	None	None
20	APCDD1L-AS1	ENSG00000231290	ENST00000420279	processed_transcript	KNOWN	None	27152	None	None	57090555	57122878	1	None	None
20	APCDD1L-AS1	ENSG00000231290	ENST00000447767	retained_intron	KNOWN	None	27152	None	None	57090599	57101088	1	None	None
20	APCDD1L-AS1	ENSG00000231290	ENST00000427794	processed_transcript	KNOWN	None	27152	None	None	57090624	57097548	1	None	None
20	APCDD1L-AS1	ENSG00000231290	ENST00000439558	processed_transcript	KNOWN	None	27152	None	None	57090783	57149026	1	None	None
20	APCDD1L-AS1	ENSG00000231290	ENST00000424205	processed_transcript	KNOWN	None	27152	None	None	57098216	57148880	1	None	None
12	None	ENSG00000270095	ENST00000602558	sense_intronic	KNOWN	None	None	None	None	124456004	124456261	-1	None	None
11	None	ENSG00000213785	ENST00000525311	processed_pseudogene	KNOWN	None	None	None	None	16505631	16506218	-1	None	None
5	None	ENSG00000264890	ENST00000583981	miRNA	NOVEL	None	None	None	None	139575287	139575376	-1	None	None
8	None	ENSG00000253486	ENST00000517564	processed_pseudogene	KNOWN	None	None	None	None	43129925	43130434	-1	None	None
12	None	ENSG00000256226	ENST00000538920	lincRNA	KNOWN	None	None	None	None	27258084	27314326	-1	None	None
12	None	ENSG00000256226	ENST00000540595	lincRNA	KNOWN	None	None	None	None	27301216	27314199	-1	None	None
18	None	ENSG00000267013	ENST00000589125	lincRNA	KNOWN	None	None	None	None	52773135	52791537	-1	None	None
18	None	ENSG00000267013	ENST00000592405	lincRNA	KNOWN	None	None	None	None	52775542	52786829	-1	None	None
14	None	ENSG00000259143	ENST00000556796	sense_overlapping	KNOWN	None	None	None	None	95651454	95652191	-1	None	None
5	None	ENSG00000250069	ENST00000508713	sense_intronic	KNOWN	None	None	None	None	139579748	139582772	1	None	None
19	None	ENSG00000269332	ENST00000600260	processed_transcript	KNOWN	None	None	None	None	22779059	22786352	1	None	None
19	None	ENSG00000269332	ENST00000597408	processed_transcript	KNOWN	None	None	None	None	22779078	22784253	1	None	None
19	None	ENSG00000269332	ENST00000596977	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	22779139	22786232	1	None	None
15	None	ENSG00000258631	ENST00000554318	lincRNA	KNOWN	None	None	None	None	94133096	94304028	1	None	None
9	None	ENSG00000201843	ENST00000364973	misc_RNA	NOVEL	None	None	None	None	136177953	136178046	1	None	None
8	None	ENSG00000234713	ENST00000518688	processed_pseudogene	KNOWN	None	None	None	None	43131413	43131966	-1	None	None
11	RN7SL188P	ENSG00000241943	ENST00000469842	misc_RNA	KNOWN	None	46204	None	None	16598398	16598682	1	None	None
12	None	ENSG00000255906	ENST00000540762	processed_transcript	KNOWN	None	None	None	None	124457788	124796476	1	None	None
12	None	ENSG00000255906	ENST00000545615	processed_transcript	KNOWN	None	None	None	None	124457792	124720148	1	None	None
10	None	ENSG00000223462	ENST00000425541	lincRNA	KNOWN	None	None	None	None	45432956	45451173	1	None	None
14	None	ENSG00000258615	ENST00000555482	unprocessed_pseudogene	KNOWN	None	None	None	None	95665376	95665682	1	None	None
11	None	ENSG00000255651	ENST00000546282	lincRNA	KNOWN	None	None	None	None	63534816	63536113	-1	None	None
14	None	ENSG00000258610	ENST00000553758	lincRNA	KNOWN	None	None	None	None	77245295	77248592	1	None	None
7	OR9A1P	ENSG00000237621	ENST00000484361	transcribed_unprocessed_pseudogene	KNOWN	None	8486	None	None	141586948	141587892	1	OR9A1	HTPCRX06, HSHTPCRX06
7	OR9A1P	ENSG00000237621	ENST00000482201	processed_transcript	KNOWN	None	8486	None	None	141587322	141587664	1	OR9A1	HTPCRX06, HSHTPCRX06
3	OR5H2	ENSG00000197938	ENST00000355273	protein_coding	KNOWN	CCDS33801	14752	945	314	98001732	98002676	1	None	None
18	RNA5SP459	ENSG00000252437	ENST00000516628	rRNA	KNOWN	None	43359	None	None	52813777	52813876	-1	RN5S459	None
8	None	ENSG00000253634	ENST00000523284	lincRNA	KNOWN	None	None	None	None	93577671	93667722	-1	None	None
18	None	ENSG00000267028	ENST00000587660	antisense	KNOWN	None	None	None	None	53119764	53150171	1	None	None
6	SLC44A4	ENSG00000204385	ENST00000229729	protein_coding	KNOWN	CCDS4724	13941	2133	710	31830969	31846778	-1	C6orf29	NG22, CTL4, FLJ14491
6	SLC44A4	ENSG00000204385	ENST00000487680	processed_transcript	PUTATIVE	None	13941	None	None	31831354	31832457	-1	C6orf29	NG22, CTL4, FLJ14491
6	SLC44A4	ENSG00000204385	ENST00000414427	protein_coding	NOVEL	None	13941	1233	410	31833467	31846744	-1	C6orf29	NG22, CTL4, FLJ14491
6	SLC44A4	ENSG00000204385	ENST00000479777	retained_intron	KNOWN	None	13941	None	None	31833836	31838979	-1	C6orf29	NG22, CTL4, FLJ14491
6	SLC44A4	ENSG00000204385	ENST00000475563	retained_intron	KNOWN	None	13941	None	None	31837373	31839021	-1	C6orf29	NG22, CTL4, FLJ14491
6	SLC44A4	ENSG00000204385	ENST00000465707	processed_transcript	KNOWN	None	13941	None	None	31842302	31846774	-1	C6orf29	NG22, CTL4, FLJ14491
6	SLC44A4	ENSG00000204385	ENST00000462671	processed_transcript	KNOWN	None	13941	None	None	31842599	31846774	-1	C6orf29	NG22, CTL4, FLJ14491
6	SLC44A4	ENSG00000204385	ENST00000375562	protein_coding	KNOWN	CCDS54990	13941	2007	668	31830972	31846823	-1	C6orf29	NG22, CTL4, FLJ14491
6	SLC44A4	ENSG00000204385	ENST00000544672	protein_coding	KNOWN	CCDS54989	13941	1905	634	31830972	31845448	-1	C6orf29	NG22, CTL4, FLJ14491
HG1308_PATCH	TSGA13	ENSG00000266159	ENST00000585083	protein_coding	KNOWN	None	12369	828	275	130332302	130351086	-1	None	None
HG1308_PATCH	TSGA13	ENSG00000266159	ENST00000582211	protein_coding	KNOWN	None	12369	828	275	130332581	130350222	-1	None	None
HG1308_PATCH	TSGA13	ENSG00000266159	ENST00000581026	protein_coding	KNOWN	None	12369	229	75	130342967	130350219	-1	None	None
HG1308_PATCH	TSGA13	ENSG00000266159	ENST00000579250	protein_coding	KNOWN	None	12369	174	57	130344600	130350228	-1	None	None
11	RN7SL596P	ENSG00000264519	ENST00000582123	misc_RNA	KNOWN	None	46612	None	None	63565260	63565543	-1	None	None
HSCHR6_MHC_DBB	TAP1	ENSG00000224212	ENST00000439781	protein_coding	KNOWN	None	43	2427	808	32790967	32799736	-1	ABCB2	PSF1, RING4, D6S114E
HSCHR6_MHC_DBB	TAP1	ENSG00000224212	ENST00000470845	retained_intron	KNOWN	None	43	None	None	32790967	32795898	-1	ABCB2	PSF1, RING4, D6S114E
HSCHR6_MHC_DBB	TAP1	ENSG00000224212	ENST00000469192	retained_intron	KNOWN	None	43	None	None	32791433	32793988	-1	ABCB2	PSF1, RING4, D6S114E
15	None	ENSG00000259595	ENST00000558047	antisense	KNOWN	None	None	None	None	44694883	44719342	-1	None	None
2	COA5	ENSG00000183513	ENST00000328709	protein_coding	KNOWN	CCDS33257	33848	225	74	99215773	99224955	-1	C2orf64	MGC52110, FLJ27524, Pet191
2	COA5	ENSG00000183513	ENST00000483527	processed_transcript	KNOWN	None	33848	None	None	99216816	99224970	-1	C2orf64	MGC52110, FLJ27524, Pet191
2	COA5	ENSG00000183513	ENST00000466848	processed_transcript	KNOWN	None	33848	None	None	99216936	99222300	-1	C2orf64	MGC52110, FLJ27524, Pet191
2	COA5	ENSG00000183513	ENST00000480666	retained_intron	KNOWN	None	33848	None	None	99216982	99221253	-1	C2orf64	MGC52110, FLJ27524, Pet191
2	COA5	ENSG00000183513	ENST00000409997	protein_coding	NOVEL	None	33848	222	73	99218845	99224978	-1	C2orf64	MGC52110, FLJ27524, Pet191
11	None	ENSG00000256280	ENST00000538089	processed_pseudogene	KNOWN	None	None	None	None	63602139	63602415	-1	None	None
5	None	ENSG00000253965	ENST00000520443	antisense	KNOWN	None	None	None	None	139728069	139737379	-1	None	None
12	None	ENSG00000256827	ENST00000536166	processed_pseudogene	KNOWN	None	None	None	None	124490418	124490772	-1	None	None
2	STRN	ENSG00000115808	ENST00000263918	protein_coding	KNOWN	CCDS1784	11424	2343	780	37070783	37193615	-1	None	SG2NA
2	STRN	ENSG00000115808	ENST00000495595	retained_intron	KNOWN	None	11424	None	None	37096846	37130071	-1	None	SG2NA
2	STRN	ENSG00000115808	ENST00000379213	protein_coding	KNOWN	None	11424	2196	731	37075472	37193606	-1	None	SG2NA
HG544_PATCH	SLC39A12	ENSG00000259777	ENST00000567893	protein_coding	KNOWN	None	20860	1965	654	17993891	18085286	1	None	FLJ30499
HG544_PATCH	SLC39A12	ENSG00000259777	ENST00000568429	protein_coding	KNOWN	None	20860	2073	690	17993913	18085286	1	None	FLJ30499
11	RN7SKP90	ENSG00000199883	ENST00000363013	misc_RNA	KNOWN	None	45814	None	None	16863800	16864134	1	None	None
18	MIR4529	ENSG00000264571	ENST00000578110	miRNA	KNOWN	None	41703	None	None	53146452	53146529	1	None	hsa-mir-4529
20	BPIFA2	ENSG00000131050	ENST00000253362	protein_coding	KNOWN	CCDS13214	16203	750	249	31749574	31769218	1	C20orf70	bA49G10.1, SPLUNC2, PSP
20	BPIFA2	ENSG00000131050	ENST00000354932	protein_coding	KNOWN	CCDS13214	16203	750	249	31755960	31769218	1	C20orf70	bA49G10.1, SPLUNC2, PSP
16	VN1R68P	ENSG00000259979	ENST00000565828	processed_pseudogene	KNOWN	None	37389	None	None	34352609	34353327	-1	None	None
11	RNU6-585P	ENSG00000251928	ENST00000516119	snRNA	KNOWN	None	47548	None	None	16995968	16996035	-1	None	None
10	CEP164P1	ENSG00000226937	ENST00000456938	processed_transcript	KNOWN	None	44988	None	None	45497670	45567036	-1	None	None
10	CEP164P1	ENSG00000226937	ENST00000598522	processed_transcript	KNOWN	None	44988	None	None	45511528	45566819	-1	None	None
10	CEP164P1	ENSG00000226937	ENST00000602156	lincRNA	KNOWN	None	44988	None	None	45511528	45631088	-1	None	None
10	CEP164P1	ENSG00000226937	ENST00000599308	lincRNA	KNOWN	None	44988	None	None	45511549	45642669	-1	None	None
10	CEP164P1	ENSG00000226937	ENST00000599282	processed_transcript	KNOWN	None	44988	None	None	45556875	45567068	-1	None	None
10	CEP164P1	ENSG00000226937	ENST00000594514	processed_transcript	KNOWN	None	44988	None	None	45561018	45567014	-1	None	None
10	CEP164P1	ENSG00000226937	ENST00000598559	processed_transcript	KNOWN	None	44988	None	None	45561620	45567068	-1	None	None
10	CEP164P1	ENSG00000226937	ENST00000455142	transcribed_processed_pseudogene	KNOWN	None	44988	None	None	45566240	45566657	-1	None	None
15	None	ENSG00000258754	ENST00000557481	lincRNA	KNOWN	None	None	None	None	94261771	94443828	-1	None	None
15	None	ENSG00000258754	ENST00000553818	lincRNA	KNOWN	None	None	None	None	94304284	94372403	-1	None	None
15	None	ENSG00000258754	ENST00000557777	lincRNA	KNOWN	None	None	None	None	94417539	94443366	-1	None	None
15	None	ENSG00000258754	ENST00000556928	lincRNA	KNOWN	None	None	None	None	94433692	94581641	-1	None	None
15	None	ENSG00000258754	ENST00000555023	lincRNA	KNOWN	None	None	None	None	94439288	94440680	-1	None	None
15	None	ENSG00000258754	ENST00000557715	lincRNA	KNOWN	None	None	None	None	94439493	94443366	-1	None	None
15	None	ENSG00000258754	ENST00000554261	lincRNA	KNOWN	None	None	None	None	94442492	94443566	-1	None	None
15	None	ENSG00000258754	ENST00000556447	lincRNA	KNOWN	None	None	None	None	94571694	94614049	-1	None	None
15	None	ENSG00000258754	ENST00000555772	lincRNA	KNOWN	None	None	None	None	94607598	94614049	-1	None	None
18	None	ENSG00000267402	ENST00000586467	antisense	KNOWN	None	None	None	None	53159406	53163623	1	None	None
7	WNT16	ENSG00000002745	ENST00000361301	protein_coding	KNOWN	CCDS5780	16267	1068	355	120965421	120979512	1	None	None
7	WNT16	ENSG00000002745	ENST00000222462	protein_coding	KNOWN	CCDS5781	16267	1098	365	120969057	120981158	1	None	None
12	None	ENSG00000256625	ENST00000545069	unprocessed_pseudogene	KNOWN	None	None	None	None	27274843	27300597	1	None	None
19	C19orf35	ENSG00000188305	ENST00000342063	protein_coding	KNOWN	CCDS12087	24793	1422	473	2274631	2282175	-1	None	FLJ45778
19	C19orf35	ENSG00000188305	ENST00000590316	nonsense_mediated_decay	KNOWN	None	24793	219	72	2274648	2282181	-1	None	FLJ45778
3	None	ENSG00000232746	ENST00000448129	lincRNA	KNOWN	None	None	None	None	12919021	12926710	-1	None	None
3	OR5H8P	ENSG00000232535	ENST00000394191	polymorphic_pseudogene	KNOWN	None	14773	931	309	98030757	98031687	1	None	None
15	MKI67IPP4	ENSG00000261205	ENST00000567275	processed_pseudogene	KNOWN	None	44952	None	None	75544084	75545275	-1	None	None
12	None	ENSG00000269923	ENST00000602635	lincRNA	KNOWN	None	None	None	None	124570308	124573142	1	None	None
1	None	ENSG00000226374	ENST00000425194	lincRNA	KNOWN	None	None	None	None	4007209	4009040	-1	None	None
8	None	ENSG00000253707	ENST00000522985	processed_pseudogene	KNOWN	None	None	None	None	43139769	43139949	-1	None	None
18	RPL21P126	ENSG00000242320	ENST00000470049	processed_pseudogene	KNOWN	None	35959	None	None	53303064	53303541	1	None	None
1	MPZ	ENSG00000158887	ENST00000463290	nonsense_mediated_decay	KNOWN	CCDS1229	7225	747	248	161274525	161279744	-1	CMT1, CMT1B	HMSNIB
1	MPZ	ENSG00000158887	ENST00000533357	protein_coding	KNOWN	CCDS1229	7225	747	248	161274525	161279762	-1	CMT1, CMT1B	HMSNIB
1	MPZ	ENSG00000158887	ENST00000491222	protein_coding	PUTATIVE	None	7225	159	52	161274569	161277261	-1	CMT1, CMT1B	HMSNIB
1	MPZ	ENSG00000158887	ENST00000526189	processed_transcript	KNOWN	None	7225	None	None	161275119	161276689	-1	CMT1, CMT1B	HMSNIB
1	MPZ	ENSG00000158887	ENST00000476410	retained_intron	KNOWN	None	7225	None	None	161275125	161276162	-1	CMT1, CMT1B	HMSNIB
1	MPZ	ENSG00000158887	ENST00000488271	retained_intron	KNOWN	None	7225	None	None	161275485	161275980	-1	CMT1, CMT1B	HMSNIB
1	MPZ	ENSG00000158887	ENST00000336559	protein_coding	KNOWN	None	7225	753	250	161275659	161279762	-1	CMT1, CMT1B	HMSNIB
1	MPZ	ENSG00000158887	ENST00000360451	protein_coding	KNOWN	None	7225	777	258	161274529	161279762	-1	CMT1, CMT1B	HMSNIB
16	VN1R69P	ENSG00000260724	ENST00000569003	processed_pseudogene	KNOWN	None	37390	None	None	34368885	34369446	1	None	None
5	None	ENSG00000249637	ENST00000507521	antisense	KNOWN	None	None	None	None	139750476	139780952	-1	None	None
11	None	ENSG00000244398	ENST00000459748	processed_pseudogene	KNOWN	None	None	None	None	16996240	16996560	-1	None	None
1	PRKCZ	ENSG00000067606	ENST00000378567	protein_coding	KNOWN	CCDS37	9412	1779	592	1981909	2116834	1	None	PKC2
1	PRKCZ	ENSG00000067606	ENST00000468310	protein_coding	NOVEL	None	9412	544	180	1981924	2077547	1	None	PKC2
1	PRKCZ	ENSG00000067606	ENST00000484419	retained_intron	KNOWN	None	9412	None	None	1981942	1987199	1	None	PKC2
1	PRKCZ	ENSG00000067606	ENST00000503297	protein_coding	PUTATIVE	None	9412	196	64	1982247	1991030	1	None	PKC2
1	PRKCZ	ENSG00000067606	ENST00000479566	processed_transcript	KNOWN	None	9412	None	None	1986880	2002975	1	None	PKC2
1	PRKCZ	ENSG00000067606	ENST00000466651	processed_transcript	KNOWN	None	9412	None	None	1987118	2066786	1	None	PKC2
1	PRKCZ	ENSG00000067606	ENST00000400921	protein_coding	KNOWN	CCDS41229	9412	1230	409	2004901	2116829	1	None	PKC2
1	PRKCZ	ENSG00000067606	ENST00000495347	protein_coding	KNOWN	None	9412	63	20	2005158	2077525	1	None	PKC2
1	PRKCZ	ENSG00000067606	ENST00000461106	protein_coding	PUTATIVE	CCDS55563	9412	1467	488	2005425	2116629	1	None	PKC2
1	PRKCZ	ENSG00000067606	ENST00000461465	protein_coding	KNOWN	None	9412	185	60	2006127	2082275	1	None	PKC2
1	PRKCZ	ENSG00000067606	ENST00000470596	protein_coding	KNOWN	None	9412	294	97	2006294	2082384	1	None	PKC2
1	PRKCZ	ENSG00000067606	ENST00000496325	protein_coding	KNOWN	None	9412	212	69	2006683	2082302	1	None	PKC2
1	PRKCZ	ENSG00000067606	ENST00000481140	nonsense_mediated_decay	KNOWN	None	9412	222	73	2013687	2082375	1	None	PKC2
1	PRKCZ	ENSG00000067606	ENST00000482686	protein_coding	KNOWN	None	9412	219	72	2036155	2082309	1	None	PKC2
1	PRKCZ	ENSG00000067606	ENST00000486681	protein_coding	PUTATIVE	None	9412	408	135	2036178	2087526	1	None	PKC2
1	PRKCZ	ENSG00000067606	ENST00000470986	protein_coding	KNOWN	None	9412	327	108	2043093	2082417	1	None	PKC2
1	PRKCZ	ENSG00000067606	ENST00000470511	protein_coding	KNOWN	None	9412	246	81	2047644	2082336	1	None	PKC2
1	PRKCZ	ENSG00000067606	ENST00000471018	protein_coding	KNOWN	None	9412	138	45	2065077	2080363	1	None	PKC2
1	PRKCZ	ENSG00000067606	ENST00000466352	protein_coding	KNOWN	None	9412	75	24	2066252	2077537	1	None	PKC2
1	PRKCZ	ENSG00000067606	ENST00000497183	protein_coding	PUTATIVE	None	9412	316	104	2066429	2082418	1	None	PKC2
1	PRKCZ	ENSG00000067606	ENST00000419838	processed_transcript	KNOWN	None	9412	None	None	2066701	2082304	1	None	PKC2
1	PRKCZ	ENSG00000067606	ENST00000479263	processed_transcript	KNOWN	None	9412	None	None	2075890	2116834	1	None	PKC2
1	PRKCZ	ENSG00000067606	ENST00000503672	retained_intron	KNOWN	None	9412	None	None	2076796	2088167	1	None	PKC2
1	PRKCZ	ENSG00000067606	ENST00000478770	nonsense_mediated_decay	KNOWN	None	9412	1044	347	2076826	2116555	1	None	PKC2
1	PRKCZ	ENSG00000067606	ENST00000505322	retained_intron	KNOWN	None	9412	None	None	2100287	2116832	1	None	PKC2
1	PRKCZ	ENSG00000067606	ENST00000472017	processed_transcript	KNOWN	None	9412	None	None	2100414	2105390	1	None	PKC2
1	PRKCZ	ENSG00000067606	ENST00000400920	protein_coding	KNOWN	CCDS41229	9412	1230	409	2036155	2116832	1	None	PKC2
HSCHR6_MHC_SSTO	TRIM10	ENSG00000229346	ENST00000428611	protein_coding	KNOWN	None	10072	1188	395	30109310	30118301	-1	RNF9	RFB30, HERF1
HSCHR6_MHC_SSTO	TRIM10	ENSG00000229346	ENST00000448645	protein_coding	KNOWN	None	10072	1446	481	30109310	30118301	-1	RNF9	RFB30, HERF1
HSCHR6_MHC_SSTO	TRIM10	ENSG00000229346	ENST00000553004	protein_coding	KNOWN	None	10072	1446	481	30111337	30118301	-1	RNF9	RFB30, HERF1
21	POFUT2	ENSG00000186866	ENST00000471540	processed_transcript	KNOWN	None	14683	None	None	46683843	46703409	-1	C21orf80	KIAA0958, FUT13
21	POFUT2	ENSG00000186866	ENST00000331343	protein_coding	KNOWN	CCDS13721	14683	1275	424	46683843	46707813	-1	C21orf80	KIAA0958, FUT13
21	POFUT2	ENSG00000186866	ENST00000334538	nonsense_mediated_decay	KNOWN	None	14683	1143	380	46683843	46707813	-1	C21orf80	KIAA0958, FUT13
21	POFUT2	ENSG00000186866	ENST00000349485	protein_coding	KNOWN	CCDS13719	14683	1290	429	46683843	46707813	-1	C21orf80	KIAA0958, FUT13
21	POFUT2	ENSG00000186866	ENST00000485190	processed_transcript	PUTATIVE	None	14683	None	None	46685289	46686290	-1	C21orf80	KIAA0958, FUT13
21	POFUT2	ENSG00000186866	ENST00000460932	processed_transcript	PUTATIVE	None	14683	None	None	46685315	46690009	-1	C21orf80	KIAA0958, FUT13
21	POFUT2	ENSG00000186866	ENST00000463917	processed_transcript	PUTATIVE	None	14683	None	None	46687441	46690006	-1	C21orf80	KIAA0958, FUT13
21	POFUT2	ENSG00000186866	ENST00000451615	protein_coding	NOVEL	None	14683	795	264	46687613	46705606	-1	C21orf80	KIAA0958, FUT13
21	POFUT2	ENSG00000186866	ENST00000493524	processed_transcript	KNOWN	None	14683	None	None	46689756	46707811	-1	C21orf80	KIAA0958, FUT13
21	POFUT2	ENSG00000186866	ENST00000468360	processed_transcript	KNOWN	None	14683	None	None	46689766	46707799	-1	C21orf80	KIAA0958, FUT13
21	POFUT2	ENSG00000186866	ENST00000493811	processed_transcript	KNOWN	None	14683	None	None	46702284	46707806	-1	C21orf80	KIAA0958, FUT13
21	POFUT2	ENSG00000186866	ENST00000476653	processed_transcript	PUTATIVE	None	14683	None	None	46705398	46707807	-1	C21orf80	KIAA0958, FUT13
14	None	ENSG00000258301	ENST00000556072	lincRNA	KNOWN	None	None	None	None	77248083	77253067	-1	None	None
14	None	ENSG00000258301	ENST00000554058	lincRNA	KNOWN	None	None	None	None	77248478	77252497	-1	None	None
HSCHR17_4_CTG4	KRTAP1-5	ENSG00000261862	ENST00000572212	protein_coding	KNOWN	None	16777	525	174	39182405	39183581	-1	None	KAP1.5
16	None	ENSG00000260449	ENST00000562960	processed_pseudogene	KNOWN	None	None	None	None	34375269	34375779	-1	None	None
18	None	ENSG00000267284	ENST00000592936	lincRNA	KNOWN	None	None	None	None	53388294	53426353	1	None	None
18	None	ENSG00000267284	ENST00000589662	lincRNA	KNOWN	None	None	None	None	53388549	53455992	1	None	None
18	None	ENSG00000267284	ENST00000587346	lincRNA	KNOWN	None	None	None	None	53388627	53452175	1	None	None
17	CPSF4L	ENSG00000187959	ENST00000344935	protein_coding	KNOWN	CCDS45768	33632	540	179	71244588	71258019	-1	None	None
17	CPSF4L	ENSG00000187959	ENST00000397671	protein_coding	KNOWN	None	33632	459	152	71245932	71258491	-1	None	None
14	IGHVII-67-1	ENSG00000253820	ENST00000522410	IG_V_pseudogene	KNOWN	None	5689	None	None	107142534	107142579	-1	None	IGHV(II)-67-1
7	None	ENSG00000244292	ENST00000491296	processed_transcript	KNOWN	None	None	None	None	141611017	141611349	1	None	None
7	None	ENSG00000244292	ENST00000494289	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	141611263	141611743	1	None	None
3	OR5K4	ENSG00000196098	ENST00000354924	protein_coding	KNOWN	CCDS33802	31291	966	321	98072698	98073663	1	None	None
HG271_PATCH	None	ENSG00000266064	ENST00000578077	processed_transcript	PUTATIVE	None	None	None	None	79336072	79348014	1	None	None
3	RNU6-281P	ENSG00000206939	ENST00000384212	snRNA	KNOWN	None	47244	None	None	70857501	70857603	1	None	None
16	None	ENSG00000261800	ENST00000565523	lincRNA	KNOWN	None	None	None	None	34378093	34379252	1	None	None
8	None	ENSG00000221172	ENST00000408245	miRNA	NOVEL	None	None	None	None	93647563	93647693	1	None	None
HSCHR6_MHC_DBB	LY6G6C	ENSG00000228859	ENST00000467714	protein_coding	PUTATIVE	None	13936	210	69	31668598	31671629	-1	C6orf24	G6c, NG24
HSCHR6_MHC_DBB	LY6G6C	ENSG00000228859	ENST00000428498	protein_coding	KNOWN	None	13936	378	125	31668598	31671795	-1	C6orf24	G6c, NG24
11	RNU6-1306P	ENSG00000202089	ENST00000365219	snRNA	KNOWN	None	48269	None	None	63650059	63650157	-1	None	None
8	None	ENSG00000253177	ENST00000522531	lincRNA	KNOWN	None	None	None	None	93681064	93689911	1	None	None
8	None	ENSG00000253177	ENST00000521307	lincRNA	KNOWN	None	None	None	None	93681116	93691822	1	None	None
16	LAT	ENSG00000213658	ENST00000395461	protein_coding	KNOWN	CCDS53999	18874	810	269	28996147	29002104	1	None	LAT1
16	LAT	ENSG00000213658	ENST00000566270	retained_intron	KNOWN	None	18874	None	None	28996370	28997623	1	None	LAT1
16	LAT	ENSG00000213658	ENST00000564277	protein_coding	KNOWN	CCDS45455	18874	699	232	28996375	29001340	1	None	LAT1
16	LAT	ENSG00000213658	ENST00000562472	retained_intron	KNOWN	None	18874	None	None	28996385	28997553	1	None	LAT1
16	LAT	ENSG00000213658	ENST00000563964	processed_transcript	KNOWN	None	18874	None	None	28996387	28998164	1	None	LAT1
16	LAT	ENSG00000213658	ENST00000395456	protein_coding	KNOWN	CCDS32425	18874	702	233	28996417	29002094	1	None	LAT1
16	LAT	ENSG00000213658	ENST00000454369	protein_coding	KNOWN	CCDS45455	18874	699	232	28996444	29001770	1	None	LAT1
16	LAT	ENSG00000213658	ENST00000360872	protein_coding	KNOWN	CCDS10647	18874	789	262	28996661	29002094	1	None	LAT1
16	LAT	ENSG00000213658	ENST00000566177	protein_coding	NOVEL	None	18874	786	261	28996739	29001333	1	None	LAT1
16	LAT	ENSG00000213658	ENST00000562701	nonsense_mediated_decay	KNOWN	None	18874	258	85	28996739	29001333	1	None	LAT1
16	LAT	ENSG00000213658	ENST00000568440	retained_intron	KNOWN	None	18874	None	None	28997420	28998018	1	None	LAT1
16	LAT	ENSG00000213658	ENST00000570232	protein_coding	PUTATIVE	None	18874	501	166	28997533	29001834	1	None	LAT1
16	LAT	ENSG00000213658	ENST00000354453	protein_coding	KNOWN	None	18874	759	252	28996739	29001333	1	None	LAT1
5	RNU4-14P	ENSG00000222790	ENST00000410858	snRNA	KNOWN	None	46950	None	None	139776908	139777029	-1	None	None
11	HNRNPUL2	ENSG00000214753	ENST00000301785	protein_coding	KNOWN	CCDS41659	25451	2244	747	62480102	62494821	-1	HNRPUL2	DKFZp762N1910
11	HNRNPUL2	ENSG00000214753	ENST00000540127	retained_intron	KNOWN	None	25451	None	None	62490336	62491457	-1	HNRPUL2	DKFZp762N1910
3	None	ENSG00000221382	ENST00000408455	miRNA	NOVEL	None	None	None	None	70927811	70927943	-1	None	None
HG271_PATCH	None	ENSG00000264504	ENST00000578691	lincRNA	KNOWN	None	None	None	None	79349801	79359160	-1	None	None
HG271_PATCH	None	ENSG00000264504	ENST00000579782	lincRNA	KNOWN	None	None	None	None	79349819	79353723	-1	None	None
HG271_PATCH	None	ENSG00000264504	ENST00000584847	lincRNA	KNOWN	None	None	None	None	79349822	79358929	-1	None	None
HG271_PATCH	None	ENSG00000264504	ENST00000581501	lincRNA	KNOWN	None	None	None	None	79353398	79359046	-1	None	None
HG271_PATCH	None	ENSG00000264504	ENST00000578385	lincRNA	KNOWN	None	None	None	None	79353467	79359021	-1	None	None
3	None	ENSG00000231362	ENST00000445577	processed_pseudogene	KNOWN	None	None	None	None	13094467	13094622	-1	None	None
16	None	ENSG00000261357	ENST00000565802	lincRNA	KNOWN	None	None	None	None	19077313	19078016	1	None	None
18	None	ENSG00000267325	ENST00000587320	lincRNA	KNOWN	None	None	None	None	53443958	53448952	-1	None	None
18	None	ENSG00000267325	ENST00000588134	lincRNA	KNOWN	None	None	None	None	53446342	53447981	-1	None	None
7	TRBV2	ENSG00000226660	ENST00000455382	TR_V_gene	KNOWN	None	12195	248	81	142000747	142001255	1	None	TCRBV22S1A2N1T, TCRBV2S1
HSCHR6_MHC_SSTO	ATP6V1G2	ENSG00000234920	ENST00000444088	protein_coding	KNOWN	None	862	357	118	31502186	31504331	-1	ATP6G, ATP6G2	Vma10, NG38, Em:AC004181.3
HSCHR6_MHC_SSTO	ATP6V1G2	ENSG00000234920	ENST00000448779	protein_coding	KNOWN	None	862	237	78	31502186	31504361	-1	ATP6G, ATP6G2	Vma10, NG38, Em:AC004181.3
HSCHR6_MHC_SSTO	ATP6V1G2	ENSG00000234920	ENST00000479342	processed_transcript	KNOWN	None	862	None	None	31503008	31504479	-1	ATP6G, ATP6G2	Vma10, NG38, Em:AC004181.3
HSCHR6_MHC_SSTO	ATP6V1G2	ENSG00000234920	ENST00000467981	processed_transcript	KNOWN	None	862	None	None	31503141	31504572	-1	ATP6G, ATP6G2	Vma10, NG38, Em:AC004181.3
11	RNU6-45P	ENSG00000207200	ENST00000384471	snRNA	KNOWN	None	34289	None	None	63737942	63738048	1	RNU6-45	None
11	None	ENSG00000266493	ENST00000580555	miRNA	NOVEL	None	None	None	None	17029425	17029515	-1	None	None
12	ZCCHC8	ENSG00000033030	ENST00000536306	protein_coding	KNOWN	None	25265	1410	469	122957417	122983872	-1	None	DKFZp434E2220
12	ZCCHC8	ENSG00000033030	ENST00000543897	protein_coding	KNOWN	None	25265	1410	469	122957417	122985142	-1	None	DKFZp434E2220
12	ZCCHC8	ENSG00000033030	ENST00000538116	protein_coding	PUTATIVE	None	25265	957	318	122957440	122963080	-1	None	DKFZp434E2220
12	ZCCHC8	ENSG00000033030	ENST00000542892	protein_coding	PUTATIVE	None	25265	514	170	122958487	122965969	-1	None	DKFZp434E2220
12	ZCCHC8	ENSG00000033030	ENST00000544054	protein_coding	PUTATIVE	None	25265	634	210	122962385	122968709	-1	None	DKFZp434E2220
12	ZCCHC8	ENSG00000033030	ENST00000536663	protein_coding	PUTATIVE	None	25265	555	184	122962464	122984795	-1	None	DKFZp434E2220
12	ZCCHC8	ENSG00000033030	ENST00000546149	retained_intron	KNOWN	None	25265	None	None	122966069	122967005	-1	None	DKFZp434E2220
12	ZCCHC8	ENSG00000033030	ENST00000540586	protein_coding	KNOWN	None	25265	115	37	122966538	122985067	-1	None	DKFZp434E2220
12	ZCCHC8	ENSG00000033030	ENST00000538493	retained_intron	KNOWN	None	25265	None	None	122966549	122968237	-1	None	DKFZp434E2220
12	ZCCHC8	ENSG00000033030	ENST00000336229	protein_coding	KNOWN	None	25265	2124	707	122957437	122985518	-1	None	DKFZp434E2220
5	None	ENSG00000200051	ENST00000363181	snoRNA	NOVEL	None	None	None	None	139906937	139907013	-1	None	None
16	None	ENSG00000261836	ENST00000569533	processed_pseudogene	KNOWN	None	None	None	None	34378356	34378845	-1	None	None
15	RN7SL489P	ENSG00000242542	ENST00000486185	misc_RNA	KNOWN	None	46505	None	None	75560749	75561024	1	None	None
3	FOXP1-AS1	ENSG00000244203	ENST00000465742	antisense	KNOWN	None	41942	None	None	71338920	71355004	1	None	None
11	MS4A12	ENSG00000071203	ENST00000525951	processed_transcript	KNOWN	None	13370	None	None	60260251	60265535	1	None	Ms4a10, FLJ20217
11	MS4A12	ENSG00000071203	ENST00000526784	protein_coding	NOVEL	None	13370	521	172	60260251	60274271	1	None	Ms4a10, FLJ20217
11	MS4A12	ENSG00000071203	ENST00000016913	protein_coding	KNOWN	CCDS7988	13370	804	267	60260251	60274903	1	None	Ms4a10, FLJ20217
11	MS4A12	ENSG00000071203	ENST00000530007	protein_coding	KNOWN	None	13370	343	113	60260273	60268584	1	None	Ms4a10, FLJ20217
11	MS4A12	ENSG00000071203	ENST00000537076	protein_coding	KNOWN	CCDS53638	13370	666	221	60260251	60274893	1	None	Ms4a10, FLJ20217
5	None	ENSG00000200235	ENST00000363365	snoRNA	NOVEL	None	None	None	None	139959252	139959377	1	None	None
3	None	ENSG00000238138	ENST00000428249	processed_pseudogene	KNOWN	None	None	None	None	13501794	13501898	-1	None	None
8	POTEA	ENSG00000188877	ENST00000522175	processed_transcript	KNOWN	None	33893	None	None	43147626	43218328	1	A26A1	POTE8, POTE-8, CT104.3
8	POTEA	ENSG00000188877	ENST00000519951	transcribed_unprocessed_pseudogene	KNOWN	None	33893	None	None	43147626	43218661	1	A26A1	POTE8, POTE-8, CT104.3
14	IGHVIII-67-2	ENSG00000254036	ENST00000519849	IG_V_pseudogene	KNOWN	None	5705	None	None	107143130	107143217	-1	None	IGHV(III)-67-2
17	NAT9	ENSG00000109065	ENST00000357814	protein_coding	KNOWN	CCDS11706	23133	624	207	72766686	72772470	-1	None	DKFZP564C103
17	NAT9	ENSG00000109065	ENST00000580301	protein_coding	KNOWN	None	23133	621	206	72766706	72772478	-1	None	DKFZP564C103
17	NAT9	ENSG00000109065	ENST00000583834	retained_intron	KNOWN	None	23133	None	None	72766720	72772462	-1	None	DKFZP564C103
17	NAT9	ENSG00000109065	ENST00000581136	protein_coding	NOVEL	None	23133	609	202	72767528	72772463	-1	None	DKFZP564C103
17	NAT9	ENSG00000109065	ENST00000580632	protein_coding	NOVEL	None	23133	624	207	72767697	72771846	-1	None	DKFZP564C103
17	NAT9	ENSG00000109065	ENST00000581762	retained_intron	KNOWN	None	23133	None	None	72767764	72768608	-1	None	DKFZP564C103
17	NAT9	ENSG00000109065	ENST00000582870	protein_coding	PUTATIVE	None	23133	636	211	72767799	72772462	-1	None	DKFZP564C103
17	NAT9	ENSG00000109065	ENST00000584022	nonsense_mediated_decay	KNOWN	None	23133	471	156	72767830	72772470	-1	None	DKFZP564C103
17	NAT9	ENSG00000109065	ENST00000578822	protein_coding	PUTATIVE	None	23133	639	212	72767834	72772437	-1	None	DKFZP564C103
17	NAT9	ENSG00000109065	ENST00000583757	protein_coding	PUTATIVE	None	23133	420	139	72767867	72772481	-1	None	DKFZP564C103
17	NAT9	ENSG00000109065	ENST00000582524	protein_coding	PUTATIVE	None	23133	423	140	72767903	72772504	-1	None	DKFZP564C103
17	NAT9	ENSG00000109065	ENST00000583476	protein_coding	PUTATIVE	None	23133	408	135	72767907	72772476	-1	None	DKFZP564C103
17	NAT9	ENSG00000109065	ENST00000579218	protein_coding	KNOWN	None	23133	551	182	72767933	72772470	-1	None	DKFZP564C103
17	NAT9	ENSG00000109065	ENST00000578798	retained_intron	KNOWN	None	23133	None	None	72768170	72772490	-1	None	DKFZP564C103
17	NAT9	ENSG00000109065	ENST00000578862	retained_intron	KNOWN	None	23133	None	None	72768314	72772476	-1	None	DKFZP564C103
17	NAT9	ENSG00000109065	ENST00000580216	processed_transcript	KNOWN	None	23133	None	None	72768377	72772443	-1	None	DKFZP564C103
17	NAT9	ENSG00000109065	ENST00000583989	processed_transcript	KNOWN	None	23133	None	None	72768405	72772484	-1	None	DKFZP564C103
17	NAT9	ENSG00000109065	ENST00000581466	protein_coding	PUTATIVE	None	23133	247	81	72768411	72770238	-1	None	DKFZP564C103
17	NAT9	ENSG00000109065	ENST00000577428	processed_transcript	KNOWN	None	23133	None	None	72768414	72772500	-1	None	DKFZP564C103
17	NAT9	ENSG00000109065	ENST00000584409	processed_transcript	KNOWN	None	23133	None	None	72768434	72772506	-1	None	DKFZP564C103
17	NAT9	ENSG00000109065	ENST00000585240	processed_transcript	KNOWN	None	23133	None	None	72768581	72772484	-1	None	DKFZP564C103
17	NAT9	ENSG00000109065	ENST00000582359	retained_intron	KNOWN	None	23133	None	None	72768812	72772462	-1	None	DKFZP564C103
17	NAT9	ENSG00000109065	ENST00000583689	retained_intron	KNOWN	None	23133	None	None	72768916	72772506	-1	None	DKFZP564C103
17	NAT9	ENSG00000109065	ENST00000578947	protein_coding	KNOWN	None	23133	327	108	72769042	72772232	-1	None	DKFZP564C103
17	NAT9	ENSG00000109065	ENST00000582168	retained_intron	KNOWN	None	23133	None	None	72769133	72772490	-1	None	DKFZP564C103
17	NAT9	ENSG00000109065	ENST00000582993	retained_intron	KNOWN	None	23133	None	None	72769450	72772506	-1	None	DKFZP564C103
17	NAT9	ENSG00000109065	ENST00000582118	retained_intron	KNOWN	None	23133	None	None	72769493	72772484	-1	None	DKFZP564C103
17	NAT9	ENSG00000109065	ENST00000581451	protein_coding	PUTATIVE	None	23133	169	55	72769748	72772267	-1	None	DKFZP564C103
17	NAT9	ENSG00000109065	ENST00000579837	retained_intron	KNOWN	None	23133	None	None	72771499	72772475	-1	None	DKFZP564C103
18	None	ENSG00000267172	ENST00000585985	lincRNA	KNOWN	None	None	None	None	53484398	53486990	1	None	None
7	TRBV3-1	ENSG00000237702	ENST00000390387	TR_V_gene	KNOWN	None	12212	344	113	142008365	142008871	1	None	TRBV31, TCRBV3S1, TCRBV9S1A1T
16	None	ENSG00000261510	ENST00000563142	processed_pseudogene	KNOWN	None	None	None	None	34383828	34384161	-1	None	None
HSCHR17_4_CTG4	KRTAP1-4	ENSG00000263242	ENST00000576814	protein_coding	KNOWN	None	18904	366	121	39186076	39186483	-1	None	KAP1.4
3	OR5K3	ENSG00000206536	ENST00000383695	protein_coding	KNOWN	CCDS33803	31290	966	321	98109510	98110475	1	None	None
11	None	ENSG00000256824	ENST00000537170	antisense	KNOWN	None	None	None	None	63803442	63871125	1	None	None
11	None	ENSG00000256824	ENST00000538550	antisense	KNOWN	None	None	None	None	63827896	63870985	1	None	None
18	None	ENSG00000260930	ENST00000563553	lincRNA	KNOWN	None	None	None	None	53548919	53587430	-1	None	None
15	RN7SL327P	ENSG00000244438	ENST00000488659	misc_RNA	KNOWN	None	46343	None	None	75585025	75585300	1	None	None
1	None	ENSG00000229280	ENST00000449232	processed_pseudogene	KNOWN	None	None	None	None	4235588	4235959	-1	None	None
16	UBE2MP1	ENSG00000261461	ENST00000568522	processed_pseudogene	KNOWN	None	32195	None	None	34404063	34404612	-1	None	None
14	IGHVIII-67-3	ENSG00000253635	ENST00000517650	IG_V_pseudogene	KNOWN	None	5706	None	None	107148674	107148905	-1	None	IGHV(III)-67-3
11	OR7E14P	ENSG00000184669	ENST00000530490	processed_transcript	KNOWN	None	8385	None	None	17035545	17074205	1	OR7E151P	OR11-5
11	OR7E14P	ENSG00000184669	ENST00000526721	transcribed_unprocessed_pseudogene	KNOWN	None	8385	None	None	17073572	17074583	1	OR7E151P	OR11-5
11	OR7E14P	ENSG00000184669	ENST00000333752	pseudogene	KNOWN	None	8385	None	None	17073578	17073845	1	OR7E151P	OR11-5
12	None	ENSG00000256596	ENST00000539391	lincRNA	KNOWN	None	None	None	None	124690774	124693564	1	None	None
3	MIR1284	ENSG00000221264	ENST00000408337	miRNA	KNOWN	None	35362	None	None	71591121	71591240	-1	MIRN1284	hsa-mir-1284
16	None	ENSG00000260430	ENST00000568032	lincRNA	KNOWN	None	None	None	None	19098178	19109432	1	None	None
17	None	ENSG00000214708	ENST00000398832	protein_coding	NOVEL	None	None	429	142	30468245	30470154	-1	None	None
7	TRBV4-1	ENSG00000211710	ENST00000390357	TR_V_gene	KNOWN	None	12215	344	113	142013007	142013489	1	None	TRBV41, TCRBV4S1, TCRBV7S1A1N2T, BV07S1J2.7
18	None	ENSG00000267327	ENST00000589440	lincRNA	KNOWN	None	None	None	None	53560269	53690693	1	None	None
18	None	ENSG00000267327	ENST00000588803	lincRNA	KNOWN	None	None	None	None	53665570	53690753	1	None	None
5	HAUS1P1	ENSG00000251453	ENST00000505275	processed_pseudogene	KNOWN	None	43760	None	None	139961089	139961920	1	None	None
12	None	ENSG00000245311	ENST00000500498	antisense	KNOWN	None	None	None	None	27542722	27599558	-1	None	None
15	DNM1P34	ENSG00000260357	ENST00000567292	processed_transcript	KNOWN	None	35181	None	None	75592294	75595306	-1	DNM1DN8@	DNM1DN8-1, DNM1DN8-5
15	DNM1P34	ENSG00000260357	ENST00000567850	transcribed_unprocessed_pseudogene	KNOWN	None	35181	None	None	75593983	75595005	-1	DNM1DN8@	DNM1DN8-1, DNM1DN8-5
HG544_PATCH	PRPF38AP2	ENSG00000261021	ENST00000564886	processed_pseudogene	KNOWN	None	44693	None	None	17619361	17620211	1	None	None
16	RN7SL850P	ENSG00000263955	ENST00000579959	misc_RNA	KNOWN	None	46866	None	None	4683596	4683882	-1	None	None
16	None	ENSG00000261759	ENST00000567236	antisense	KNOWN	None	None	None	None	19131298	19132951	-1	None	None
22	ANKRD62P1	ENSG00000259271	ENST00000434304	transcribed_unprocessed_pseudogene	KNOWN	None	42363	None	None	17151980	17160383	-1	None	None
16	SLC25A1P4	ENSG00000261608	ENST00000567977	processed_pseudogene	KNOWN	None	43848	None	None	34407687	34408464	1	None	None
12	None	ENSG00000255965	ENST00000545095	processed_pseudogene	KNOWN	None	None	None	None	124867927	124868056	1	None	None
16	None	ENSG00000261442	ENST00000569678	antisense	KNOWN	None	None	None	None	4684330	4690624	-1	None	None
18	None	ENSG00000206129	ENST00000382897	lincRNA	KNOWN	None	None	None	None	53670844	53858493	-1	None	None
18	None	ENSG00000206129	ENST00000589754	lincRNA	KNOWN	None	None	None	None	53707563	53735601	-1	None	None
8	None	ENSG00000255224	ENST00000524499	antisense	KNOWN	None	None	None	None	145132905	145134168	-1	None	None
12	None	ENSG00000214650	ENST00000543970	lincRNA	KNOWN	None	None	None	None	124997768	124999359	1	None	None
10	DDX21	ENSG00000165732	ENST00000354185	protein_coding	KNOWN	CCDS31211	2744	2352	783	70715884	70744829	1	None	RH-II/GU, GURDB
HSCHR17_4_CTG4	KRTAP1-3	ENSG00000262347	ENST00000575715	protein_coding	KNOWN	None	16771	504	167	39190263	39191234	-1	None	KAP1.3
16	None	ENSG00000266994	ENST00000588099	processed_transcript	KNOWN	None	None	None	None	4780116	4802566	-1	None	None
16	None	ENSG00000260073	ENST00000562945	lincRNA	KNOWN	None	None	None	None	34427061	34430032	-1	None	None
5	None	ENSG00000240518	ENST00000489727	processed_pseudogene	KNOWN	None	None	None	None	139988670	139988985	1	None	None
12	RNU6-927P	ENSG00000252008	ENST00000516199	snRNA	KNOWN	None	47890	None	None	125386058	125386157	1	None	None
7	MEST	ENSG00000106484	ENST00000341441	protein_coding	KNOWN	CCDS5823	7028	981	326	130126046	130146133	1	None	PEG1
7	MEST	ENSG00000106484	ENST00000427521	protein_coding	NOVEL	None	7028	697	231	130126177	130142561	1	None	PEG1
7	MEST	ENSG00000106484	ENST00000416162	protein_coding	NOVEL	CCDS59081	7028	879	292	130126195	130146133	1	None	PEG1
7	MEST	ENSG00000106484	ENST00000378576	protein_coding	NOVEL	CCDS59081	7028	879	292	130126195	130146133	1	None	PEG1
7	MEST	ENSG00000106484	ENST00000399874	protein_coding	KNOWN	None	7028	353	116	130126812	130138020	1	None	PEG1
7	MEST	ENSG00000106484	ENST00000433159	protein_coding	KNOWN	None	7028	482	159	130126967	130138292	1	None	PEG1
7	MEST	ENSG00000106484	ENST00000421001	protein_coding	KNOWN	None	7028	621	206	130131174	130140374	1	None	PEG1
7	MEST	ENSG00000106484	ENST00000223215	protein_coding	KNOWN	CCDS5822	7028	1008	335	130131934	130146133	1	None	PEG1
7	MEST	ENSG00000106484	ENST00000437945	protein_coding	NOVEL	None	7028	891	296	130131941	130145194	1	None	PEG1
7	MEST	ENSG00000106484	ENST00000460590	processed_transcript	PUTATIVE	None	7028	None	None	130132236	130135388	1	None	PEG1
7	MEST	ENSG00000106484	ENST00000437637	protein_coding	KNOWN	None	7028	380	125	130132313	130138047	1	None	PEG1
7	MEST	ENSG00000106484	ENST00000458161	protein_coding	KNOWN	None	7028	508	168	130134371	130138318	1	None	PEG1
7	MEST	ENSG00000106484	ENST00000462132	processed_transcript	KNOWN	None	7028	None	None	130137007	130142577	1	None	PEG1
7	MEST	ENSG00000106484	ENST00000475188	retained_intron	KNOWN	None	7028	None	None	130137518	130138642	1	None	PEG1
7	MEST	ENSG00000106484	ENST00000494868	retained_intron	KNOWN	None	7028	None	None	130138066	130139883	1	None	PEG1
7	MEST	ENSG00000106484	ENST00000463263	protein_coding	NOVEL	None	7028	522	173	130138067	130145139	1	None	PEG1
7	MEST	ENSG00000106484	ENST00000488093	retained_intron	KNOWN	None	7028	None	None	130138221	130140910	1	None	PEG1
7	MEST	ENSG00000106484	ENST00000393187	protein_coding	KNOWN	CCDS5823	7028	981	326	130131173	130146127	1	None	PEG1
4	None	ENSG00000250333	ENST00000507808	lincRNA	KNOWN	None	None	None	None	58471860	58524966	-1	None	None
11	None	ENSG00000256481	ENST00000544948	antisense	KNOWN	None	None	None	None	63849162	63854647	1	None	None
7	MOXD2P	ENSG00000240268	ENST00000460233	transcribed_unprocessed_pseudogene	KNOWN	None	33605	None	None	141940559	141946886	-1	MOXD2	None
7	MOXD2P	ENSG00000240268	ENST00000477615	processed_transcript	KNOWN	None	33605	None	None	141940593	141943603	-1	MOXD2	None
5	PRELID2	ENSG00000186314	ENST00000510259	processed_transcript	KNOWN	None	28306	None	None	144851362	145144563	-1	None	MGC21644, FLJ38376
5	PRELID2	ENSG00000186314	ENST00000510594	processed_transcript	KNOWN	None	28306	None	None	145083467	145176094	-1	None	MGC21644, FLJ38376
5	PRELID2	ENSG00000186314	ENST00000515161	processed_transcript	PUTATIVE	None	28306	None	None	145083655	145133942	-1	None	MGC21644, FLJ38376
5	PRELID2	ENSG00000186314	ENST00000334744	protein_coding	KNOWN	CCDS34262	28306	570	189	145138582	145214867	-1	None	MGC21644, FLJ38376
5	PRELID2	ENSG00000186314	ENST00000394450	protein_coding	PUTATIVE	CCDS43377	28306	447	148	145139819	145214899	-1	None	MGC21644, FLJ38376
5	PRELID2	ENSG00000186314	ENST00000505416	protein_coding	NOVEL	CCDS34261	28306	534	177	145139880	145214848	-1	None	MGC21644, FLJ38376
5	PRELID2	ENSG00000186314	ENST00000511435	protein_coding	PUTATIVE	None	28306	495	164	145174638	145214867	-1	None	MGC21644, FLJ38376
5	PRELID2	ENSG00000186314	ENST00000515475	retained_intron	KNOWN	None	28306	None	None	145199251	145214932	-1	None	MGC21644, FLJ38376
5	PRELID2	ENSG00000186314	ENST00000505097	retained_intron	KNOWN	None	28306	None	None	145214215	145214796	-1	None	MGC21644, FLJ38376
5	PRELID2	ENSG00000186314	ENST00000358004	protein_coding	KNOWN	CCDS34261	28306	534	177	145138582	145214867	-1	None	MGC21644, FLJ38376
2	UNC50	ENSG00000115446	ENST00000357765	protein_coding	KNOWN	CCDS2035	16046	780	259	99225042	99234978	1	None	URP, UNCL, GMH1
2	UNC50	ENSG00000115446	ENST00000409975	protein_coding	KNOWN	None	16046	831	276	99225042	99234978	1	None	URP, UNCL, GMH1
2	UNC50	ENSG00000115446	ENST00000409347	protein_coding	KNOWN	None	16046	831	276	99225307	99234978	1	None	URP, UNCL, GMH1
2	UNC50	ENSG00000115446	ENST00000393493	protein_coding	NOVEL	None	16046	386	127	99232669	99234978	1	None	URP, UNCL, GMH1
2	UNC50	ENSG00000115446	ENST00000423713	protein_coding	NOVEL	None	16046	278	91	99232669	99234978	1	None	URP, UNCL, GMH1
2	UNC50	ENSG00000115446	ENST00000466492	retained_intron	KNOWN	None	16046	None	None	99232860	99234975	1	None	URP, UNCL, GMH1
16	VASN	ENSG00000168140	ENST00000304735	protein_coding	KNOWN	CCDS10514	18517	2022	673	4421849	4433529	1	SLITL2	None
16	None	ENSG00000260590	ENST00000566185	processed_pseudogene	KNOWN	None	None	None	None	34427706	34428105	1	None	None
12	MIR5188	ENSG00000265345	ENST00000583467	miRNA	KNOWN	None	43502	None	None	125400093	125400205	1	None	hsa-mir-5188
HG544_PATCH	None	ENSG00000262685	ENST00000576144	lincRNA	KNOWN	None	None	None	None	17683283	17685877	-1	None	None
3	ATRIP	ENSG00000164053	ENST00000421175	protein_coding	KNOWN	None	33499	589	195	48488114	48500796	1	None	FLJ12343, MGC20625, MGC21482, MGC26740
3	ATRIP	ENSG00000164053	ENST00000454733	nonsense_mediated_decay	KNOWN	None	33499	396	131	48488114	48501561	1	None	FLJ12343, MGC20625, MGC21482, MGC26740
3	ATRIP	ENSG00000164053	ENST00000320211	protein_coding	KNOWN	CCDS2768	33499	2376	791	48488137	48507054	1	None	FLJ12343, MGC20625, MGC21482, MGC26740
3	ATRIP	ENSG00000164053	ENST00000346691	protein_coding	KNOWN	CCDS2767	33499	2295	764	48488137	48507054	1	None	FLJ12343, MGC20625, MGC21482, MGC26740
3	ATRIP	ENSG00000164053	ENST00000424906	nonsense_mediated_decay	KNOWN	None	33499	141	46	48488141	48507054	1	None	FLJ12343, MGC20625, MGC21482, MGC26740
3	ATRIP	ENSG00000164053	ENST00000412052	protein_coding	KNOWN	CCDS59449	33499	2097	698	48488497	48507115	1	None	FLJ12343, MGC20625, MGC21482, MGC26740
3	ATRIP	ENSG00000164053	ENST00000491468	retained_intron	KNOWN	None	33499	None	None	48495758	48501083	1	None	FLJ12343, MGC20625, MGC21482, MGC26740
3	ATRIP	ENSG00000164053	ENST00000357105	protein_coding	KNOWN	CCDS59450	33499	1995	664	48488141	48507054	1	None	FLJ12343, MGC20625, MGC21482, MGC26740
10	C10orf105	ENSG00000214688	ENST00000398786	protein_coding	KNOWN	CCDS44430	20304	402	133	73471467	73497581	-1	None	FLJ00245
10	C10orf105	ENSG00000214688	ENST00000441508	protein_coding	KNOWN	CCDS44430	20304	402	133	73471458	73479578	-1	None	FLJ00245
5	None	ENSG00000239528	ENST00000478778	processed_pseudogene	KNOWN	None	None	None	None	115898258	115898626	1	None	None
4	None	ENSG00000249831	ENST00000508135	lincRNA	KNOWN	None	None	None	None	58586201	58590821	1	None	None
15	IGHV1OR15-9	ENSG00000188403	ENST00000338912	IG_V_gene	KNOWN	None	5569	353	116	20169919	20170354	-1	VSIG7	IGHV1/OR15-9, IGHV1OR159
3	OR5K1	ENSG00000232382	ENST00000332650	protein_coding	KNOWN	CCDS43115	8349	927	308	98188324	98189420	1	None	HTPCRX10, HSHTPCRX10
HG544_PATCH	None	ENSG00000262522	ENST00000576279	snoRNA	NOVEL	None	None	None	None	17721187	17721296	1	None	None
4	SRIP1	ENSG00000248660	ENST00000489235	processed_pseudogene	KNOWN	None	11293	None	None	58969313	58969600	1	SRIL	None
19	PPP1R15A	ENSG00000087074	ENST00000200453	protein_coding	KNOWN	CCDS12738	14375	2025	674	49375649	49379314	1	None	GADD34
19	PPP1R15A	ENSG00000087074	ENST00000600406	protein_coding	PUTATIVE	None	14375	776	257	49377575	49379299	1	None	GADD34
12	IL23A	ENSG00000110944	ENST00000228534	protein_coding	KNOWN	CCDS8916	15488	570	189	56732663	56734193	1	None	SGRF, IL23P19, IL-23, IL-23A, P19
11	NELL1	ENSG00000165973	ENST00000298925	protein_coding	NOVEL	None	7750	2517	838	20691117	21597227	1	None	IDH3GL, FLJ45906
11	NELL1	ENSG00000165973	ENST00000357134	protein_coding	KNOWN	CCDS7855	7750	2433	810	20691118	21597005	1	None	IDH3GL, FLJ45906
11	NELL1	ENSG00000165973	ENST00000532434	protein_coding	KNOWN	CCDS44555	7750	2292	763	20691207	21596613	1	None	IDH3GL, FLJ45906
11	NELL1	ENSG00000165973	ENST00000528046	processed_transcript	PUTATIVE	None	7750	None	None	20790771	20869192	1	None	IDH3GL, FLJ45906
11	NELL1	ENSG00000165973	ENST00000527873	processed_transcript	KNOWN	None	7750	None	None	20792366	20940848	1	None	IDH3GL, FLJ45906
11	NELL1	ENSG00000165973	ENST00000529595	processed_transcript	KNOWN	None	7750	None	None	20792375	20939792	1	None	IDH3GL, FLJ45906
11	NELL1	ENSG00000165973	ENST00000524738	processed_transcript	PUTATIVE	None	7750	None	None	20805215	20907083	1	None	IDH3GL, FLJ45906
11	NELL1	ENSG00000165973	ENST00000528495	retained_intron	KNOWN	None	7750	None	None	20948571	20949990	1	None	IDH3GL, FLJ45906
11	NELL1	ENSG00000165973	ENST00000530672	processed_transcript	KNOWN	None	7750	None	None	20957242	21250934	1	None	IDH3GL, FLJ45906
11	NELL1	ENSG00000165973	ENST00000529218	processed_transcript	KNOWN	None	7750	None	None	21305207	21596882	1	None	IDH3GL, FLJ45906
11	NELL1	ENSG00000165973	ENST00000534263	processed_transcript	KNOWN	None	7750	None	None	21305283	21525745	1	None	IDH3GL, FLJ45906
11	NELL1	ENSG00000165973	ENST00000325319	protein_coding	KNOWN	None	7750	2262	753	20691129	21596877	1	None	IDH3GL, FLJ45906
1	None	ENSG00000235054	ENST00000423197	lincRNA	KNOWN	None	None	None	None	4472111	4484747	1	None	None
16	None	ENSG00000261398	ENST00000564059	lincRNA	KNOWN	None	None	None	None	34430150	34431915	1	None	None
HG544_PATCH	None	ENSG00000261500	ENST00000569688	antisense	KNOWN	None	None	None	None	17737708	17742231	-1	None	None
4	None	ENSG00000249105	ENST00000514266	processed_pseudogene	KNOWN	None	None	None	None	58983924	58984236	-1	None	None
16	SRRM2	ENSG00000167978	ENST00000301740	protein_coding	KNOWN	CCDS32373	16639	8259	2752	2802330	2821413	1	None	SRm300, SRL300, KIAA0324, Cwc21
16	SRRM2	ENSG00000167978	ENST00000576924	protein_coding	KNOWN	None	16639	3054	1017	2802627	2813583	1	None	SRm300, SRL300, KIAA0324, Cwc21
16	SRRM2	ENSG00000167978	ENST00000575009	protein_coding	PUTATIVE	None	16639	891	296	2802639	2811708	1	None	SRm300, SRL300, KIAA0324, Cwc21
16	SRRM2	ENSG00000167978	ENST00000575701	retained_intron	KNOWN	None	16639	None	None	2802663	2807874	1	None	SRm300, SRL300, KIAA0324, Cwc21
16	SRRM2	ENSG00000167978	ENST00000576894	retained_intron	KNOWN	None	16639	None	None	2802663	2810622	1	None	SRm300, SRL300, KIAA0324, Cwc21
16	SRRM2	ENSG00000167978	ENST00000576415	protein_coding	PUTATIVE	None	16639	282	93	2802715	2808525	1	None	SRm300, SRL300, KIAA0324, Cwc21
16	SRRM2	ENSG00000167978	ENST00000571378	protein_coding	PUTATIVE	None	16639	2685	894	2802717	2813502	1	None	SRm300, SRL300, KIAA0324, Cwc21
16	SRRM2	ENSG00000167978	ENST00000574340	protein_coding	KNOWN	None	16639	345	114	2803444	2807575	1	None	SRm300, SRL300, KIAA0324, Cwc21
16	SRRM2	ENSG00000167978	ENST00000570971	retained_intron	KNOWN	None	16639	None	None	2807477	2810846	1	None	SRm300, SRL300, KIAA0324, Cwc21
16	SRRM2	ENSG00000167978	ENST00000575870	processed_transcript	KNOWN	None	16639	None	None	2807833	2810011	1	None	SRm300, SRL300, KIAA0324, Cwc21
16	SRRM2	ENSG00000167978	ENST00000573451	retained_intron	KNOWN	None	16639	None	None	2808855	2809732	1	None	SRm300, SRL300, KIAA0324, Cwc21
16	SRRM2	ENSG00000167978	ENST00000571372	retained_intron	KNOWN	None	16639	None	None	2808909	2809549	1	None	SRm300, SRL300, KIAA0324, Cwc21
16	SRRM2	ENSG00000167978	ENST00000570655	retained_intron	KNOWN	None	16639	None	None	2808925	2809844	1	None	SRm300, SRL300, KIAA0324, Cwc21
16	SRRM2	ENSG00000167978	ENST00000573498	retained_intron	KNOWN	None	16639	None	None	2808949	2811808	1	None	SRm300, SRL300, KIAA0324, Cwc21
16	SRRM2	ENSG00000167978	ENST00000572278	processed_transcript	PUTATIVE	None	16639	None	None	2809748	2811811	1	None	SRm300, SRL300, KIAA0324, Cwc21
16	SRRM2	ENSG00000167978	ENST00000576076	retained_intron	KNOWN	None	16639	None	None	2809934	2810847	1	None	SRm300, SRL300, KIAA0324, Cwc21
16	SRRM2	ENSG00000167978	ENST00000572952	retained_intron	KNOWN	None	16639	None	None	2810034	2812212	1	None	SRm300, SRL300, KIAA0324, Cwc21
16	SRRM2	ENSG00000167978	ENST00000576674	processed_transcript	PUTATIVE	None	16639	None	None	2813868	2815369	1	None	SRm300, SRL300, KIAA0324, Cwc21
16	SRRM2	ENSG00000167978	ENST00000574593	processed_transcript	PUTATIVE	None	16639	None	None	2817508	2820259	1	None	SRm300, SRL300, KIAA0324, Cwc21
16	SRRM2	ENSG00000167978	ENST00000572883	nonsense_mediated_decay	KNOWN	None	16639	553	183	2817723	2819249	1	None	SRm300, SRL300, KIAA0324, Cwc21
16	SRRM2	ENSG00000167978	ENST00000572721	processed_transcript	PUTATIVE	None	16639	None	None	2817857	2818940	1	None	SRm300, SRL300, KIAA0324, Cwc21
16	SRRM2	ENSG00000167978	ENST00000573311	retained_intron	KNOWN	None	16639	None	None	2818082	2819548	1	None	SRm300, SRL300, KIAA0324, Cwc21
16	SRRM2	ENSG00000167978	ENST00000571041	retained_intron	KNOWN	None	16639	None	None	2818529	2819423	1	None	SRm300, SRL300, KIAA0324, Cwc21
16	SRRM2	ENSG00000167978	ENST00000570705	retained_intron	KNOWN	None	16639	None	None	2818552	2819455	1	None	SRm300, SRL300, KIAA0324, Cwc21
16	SRRM2	ENSG00000167978	ENST00000576878	retained_intron	KNOWN	None	16639	None	None	2818747	2820230	1	None	SRm300, SRL300, KIAA0324, Cwc21
16	SRRM2	ENSG00000167978	ENST00000574331	retained_intron	KNOWN	None	16639	None	None	2819375	2821411	1	None	SRm300, SRL300, KIAA0324, Cwc21
16	SRRM2	ENSG00000167978	ENST00000574866	processed_transcript	KNOWN	None	16639	None	None	2819896	2820935	1	None	SRm300, SRL300, KIAA0324, Cwc21
16	SRRM2	ENSG00000167978	ENST00000573692	nonsense_mediated_decay	KNOWN	None	16639	235	77	2820356	2821411	1	None	SRm300, SRL300, KIAA0324, Cwc21
16	SRRM2	ENSG00000167978	ENST00000570539	protein_coding	PUTATIVE	None	16639	126	41	2820912	2821413	1	None	SRm300, SRL300, KIAA0324, Cwc21
16	SRRM2	ENSG00000167978	ENST00000573583	processed_transcript	PUTATIVE	None	16639	None	None	2821279	2822539	1	None	SRm300, SRL300, KIAA0324, Cwc21
HG1133_PATCH	PRH2	ENSG00000271999	ENST00000573223	protein_coding	KNOWN	None	9367	501	166	11081835	11083763	1	None	Pr
HG1133_PATCH	PRH2	ENSG00000271999	ENST00000572835	protein_coding	KNOWN	None	9367	501	166	11081835	11084940	1	None	Pr
16	None	ENSG00000261274	ENST00000567602	processed_pseudogene	KNOWN	None	None	None	None	34442274	34442607	-1	None	None
8	None	ENSG00000254241	ENST00000523889	processed_pseudogene	KNOWN	None	None	None	None	111945492	111946762	-1	None	None
HSCHR17_4_CTG4	KRTAP1-1	ENSG00000262808	ENST00000573871	protein_coding	KNOWN	None	16772	534	177	39196936	39197838	-1	None	KAP1.1B, HB2A, KAP1.1, KAP1.1A
2	None	ENSG00000222022	ENST00000409162	protein_coding	PUTATIVE	None	None	321	106	238330063	238333919	-1	None	None
22	VWFP1	ENSG00000241717	ENST00000457911	transcribed_unprocessed_pseudogene	KNOWN	None	12727	None	None	17170993	17185367	-1	F8VWFP, F8VWFL, VWFP	None
4	NDST4	ENSG00000138653	ENST00000264363	protein_coding	KNOWN	CCDS3706	20779	2619	872	115748919	116035032	-1	None	None
4	NDST4	ENSG00000138653	ENST00000504854	nonsense_mediated_decay	KNOWN	None	20779	1110	369	115748942	116034933	-1	None	None
4	NDST4	ENSG00000138653	ENST00000514570	retained_intron	KNOWN	None	20779	None	None	115856204	116035005	-1	None	None
2	RNU6-617P	ENSG00000251956	ENST00000516147	snRNA	KNOWN	None	47580	None	None	132360363	132360469	1	None	None
18	None	ENSG00000267057	ENST00000585684	lincRNA	KNOWN	None	None	None	None	53709366	53763545	1	None	None
18	None	ENSG00000267057	ENST00000592045	lincRNA	KNOWN	None	None	None	None	53709484	53763545	1	None	None
18	None	ENSG00000267057	ENST00000589450	lincRNA	KNOWN	None	None	None	None	53717360	53763545	1	None	None
18	None	ENSG00000267057	ENST00000588139	lincRNA	KNOWN	None	None	None	None	53746812	53763550	1	None	None
18	None	ENSG00000267057	ENST00000593180	lincRNA	KNOWN	None	None	None	None	53755641	53763545	1	None	None
18	None	ENSG00000267057	ENST00000589983	lincRNA	KNOWN	None	None	None	None	53763183	53763537	1	None	None
14	GMPR2	ENSG00000100938	ENST00000355299	protein_coding	KNOWN	CCDS41935	4377	1047	348	24701628	24708448	1	None	None
14	GMPR2	ENSG00000100938	ENST00000559836	protein_coding	KNOWN	CCDS41935	4377	1047	348	24701648	24708448	1	None	None
14	GMPR2	ENSG00000100938	ENST00000561038	nonsense_mediated_decay	KNOWN	None	4377	213	70	24701696	24708445	1	None	None
14	GMPR2	ENSG00000100938	ENST00000559287	nonsense_mediated_decay	KNOWN	None	4377	228	75	24701841	24708413	1	None	None
14	GMPR2	ENSG00000100938	ENST00000560139	protein_coding	NOVEL	None	4377	395	130	24701842	24706305	1	None	None
14	GMPR2	ENSG00000100938	ENST00000559910	protein_coding	NOVEL	None	4377	948	315	24701842	24708410	1	None	None
14	GMPR2	ENSG00000100938	ENST00000559801	retained_intron	KNOWN	None	4377	None	None	24701848	24702881	1	None	None
14	GMPR2	ENSG00000100938	ENST00000561035	protein_coding	NOVEL	None	4377	719	238	24701872	24706493	1	None	None
14	GMPR2	ENSG00000100938	ENST00000559409	protein_coding	NOVEL	None	4377	453	150	24701882	24705346	1	None	None
14	GMPR2	ENSG00000100938	ENST00000558865	protein_coding	PUTATIVE	None	4377	377	124	24701892	24707593	1	None	None
14	GMPR2	ENSG00000100938	ENST00000558279	protein_coding	PUTATIVE	None	4377	173	56	24701956	24705216	1	None	None
14	GMPR2	ENSG00000100938	ENST00000399440	protein_coding	KNOWN	CCDS41935	4377	1047	348	24702078	24708448	1	None	None
14	GMPR2	ENSG00000100938	ENST00000558701	processed_transcript	KNOWN	None	4377	None	None	24702099	24705022	1	None	None
14	GMPR2	ENSG00000100938	ENST00000561130	nonsense_mediated_decay	KNOWN	None	4377	213	70	24702104	24706495	1	None	None
14	GMPR2	ENSG00000100938	ENST00000420554	protein_coding	KNOWN	CCDS45087	4377	1101	366	24702107	24708448	1	None	None
14	GMPR2	ENSG00000100938	ENST00000558760	nonsense_mediated_decay	KNOWN	None	4377	267	88	24702108	24705211	1	None	None
14	GMPR2	ENSG00000100938	ENST00000559102	nonsense_mediated_decay	KNOWN	None	4377	282	93	24702124	24705271	1	None	None
14	GMPR2	ENSG00000100938	ENST00000557854	protein_coding	PUTATIVE	None	4377	1284	427	24702129	24708448	1	None	None
14	GMPR2	ENSG00000100938	ENST00000559104	protein_coding	NOVEL	None	4377	1002	333	24702153	24708448	1	None	None
14	GMPR2	ENSG00000100938	ENST00000456667	protein_coding	NOVEL	None	4377	963	320	24702154	24708440	1	None	None
14	GMPR2	ENSG00000100938	ENST00000559606	retained_intron	KNOWN	None	4377	None	None	24704580	24706358	1	None	None
14	GMPR2	ENSG00000100938	ENST00000558483	protein_coding	PUTATIVE	None	4377	510	169	24705302	24708252	1	None	None
14	GMPR2	ENSG00000100938	ENST00000560517	processed_transcript	KNOWN	None	4377	None	None	24706181	24707159	1	None	None
14	GMPR2	ENSG00000100938	ENST00000559943	protein_coding	PUTATIVE	None	4377	193	63	24706479	24708032	1	None	None
14	GMPR2	ENSG00000100938	ENST00000558007	retained_intron	KNOWN	None	4377	None	None	24707394	24708045	1	None	None
14	GMPR2	ENSG00000100938	ENST00000558748	protein_coding	PUTATIVE	None	4377	419	138	24707452	24708448	1	None	None
14	GMPR2	ENSG00000100938	ENST00000559479	protein_coding	PUTATIVE	None	4377	265	87	24707537	24708446	1	None	None
14	GMPR2	ENSG00000100938	ENST00000558932	protein_coding	PUTATIVE	None	4377	209	68	24707585	24708006	1	None	None
14	GMPR2	ENSG00000100938	ENST00000558788	protein_coding	PUTATIVE	None	4377	280	92	24707795	24708447	1	None	None
14	GMPR2	ENSG00000100938	ENST00000348719	protein_coding	KNOWN	None	4377	1230	409	24702129	24708445	1	None	None
2	None	ENSG00000224559	ENST00000431979	lincRNA	KNOWN	None	None	None	None	132394598	132407188	1	None	None
HSCHR17_1	None	ENSG00000257436	ENST00000546494	protein_coding	NOVEL	None	None	336	111	43578255	43578590	1	None	None
4	None	ENSG00000250340	ENST00000509824	lincRNA	KNOWN	None	None	None	None	59390680	59402493	-1	None	None
4	C4orf40	ENSG00000187533	ENST00000502441	processed_transcript	KNOWN	None	33193	None	None	70999333	71024494	1	None	None
4	C4orf40	ENSG00000187533	ENST00000502294	protein_coding	KNOWN	CCDS3535	33193	660	219	71017793	71030652	1	None	None
4	C4orf40	ENSG00000187533	ENST00000344526	protein_coding	KNOWN	CCDS3535	33193	660	219	71019904	71030656	1	None	None
4	C4orf40	ENSG00000187533	ENST00000509633	nonsense_mediated_decay	KNOWN	None	33193	81	26	71019960	71032323	1	None	None
4	C4orf40	ENSG00000187533	ENST00000512173	nonsense_mediated_decay	KNOWN	None	33193	185	60	71024445	71042516	1	None	None
6	CTGF	ENSG00000118523	ENST00000367976	protein_coding	KNOWN	CCDS5151	2500	1050	349	132269316	132272513	-1	None	IGFBP8, CCN2
17	CDC42EP4	ENSG00000179604	ENST00000335793	protein_coding	KNOWN	CCDS11695	17147	1071	356	71279763	71308314	-1	None	CEP4, KAIA1777, BORG4, MGC3740, MGC17125
17	CDC42EP4	ENSG00000179604	ENST00000439510	protein_coding	NOVEL	None	17147	861	286	71279764	71308132	-1	None	CEP4, KAIA1777, BORG4, MGC3740, MGC17125
17	CDC42EP4	ENSG00000179604	ENST00000581014	protein_coding	PUTATIVE	None	17147	240	79	71281317	71308136	-1	None	CEP4, KAIA1777, BORG4, MGC3740, MGC17125
17	CDC42EP4	ENSG00000179604	ENST00000580315	protein_coding	KNOWN	None	17147	382	126	71282258	71307547	-1	None	CEP4, KAIA1777, BORG4, MGC3740, MGC17125
17	CDC42EP4	ENSG00000179604	ENST00000579611	protein_coding	KNOWN	None	17147	219	72	71282421	71308140	-1	None	CEP4, KAIA1777, BORG4, MGC3740, MGC17125
17	CDC42EP4	ENSG00000179604	ENST00000581045	processed_transcript	PUTATIVE	None	17147	None	None	71282657	71306337	-1	None	CEP4, KAIA1777, BORG4, MGC3740, MGC17125
17	CDC42EP4	ENSG00000179604	ENST00000582303	processed_transcript	PUTATIVE	None	17147	None	None	71302837	71306034	-1	None	CEP4, KAIA1777, BORG4, MGC3740, MGC17125
17	CDC42EP4	ENSG00000179604	ENST00000578516	processed_transcript	PUTATIVE	None	17147	None	None	71307193	71308144	-1	None	CEP4, KAIA1777, BORG4, MGC3740, MGC17125
HG271_PATCH	None	ENSG00000265512	ENST00000583586	lincRNA	KNOWN	None	None	None	None	79361930	79364056	-1	None	None
4	MIR4799	ENSG00000264274	ENST00000578951	miRNA	KNOWN	None	41584	None	None	148703746	148703819	1	None	hsa-mir-4799
4	None	ENSG00000250078	ENST00000508292	lincRNA	KNOWN	None	None	None	None	59428330	59431287	-1	None	None
8	TSSK5P1	ENSG00000227473	ENST00000423978	unitary_pseudogene	KNOWN	None	31931	None	None	145196117	145198567	-1	None	TSSKps1
8	None	ENSG00000253877	ENST00000524283	lincRNA	KNOWN	None	None	None	None	111949919	112039662	-1	None	None
8	None	ENSG00000253877	ENST00000523557	lincRNA	KNOWN	None	None	None	None	111995179	112039621	-1	None	None
HSCHR17_1	None	ENSG00000257814	ENST00000547659	protein_coding	KNOWN	None	None	333	110	43580585	43609441	1	None	None
2	None	ENSG00000270930	ENST00000605465	processed_pseudogene	KNOWN	None	None	None	None	132404277	132405945	-1	None	None
11	APOA1	ENSG00000118137	ENST00000375320	protein_coding	KNOWN	CCDS8378	600	804	267	116706467	116708302	-1	None	None
11	APOA1	ENSG00000118137	ENST00000359492	protein_coding	KNOWN	CCDS8378	600	804	267	116706467	116708325	-1	None	None
11	APOA1	ENSG00000118137	ENST00000375329	protein_coding	PUTATIVE	None	600	738	245	116706467	116708326	-1	None	None
11	APOA1	ENSG00000118137	ENST00000375323	protein_coding	KNOWN	CCDS8378	600	804	267	116706467	116708330	-1	None	None
11	APOA1	ENSG00000118137	ENST00000236850	protein_coding	KNOWN	CCDS8378	600	804	267	116706467	116708666	-1	None	None
4	RN7SL254P	ENSG00000240014	ENST00000460609	misc_RNA	KNOWN	None	46270	None	None	148730077	148730358	1	None	None
HG544_PATCH	None	ENSG00000262338	ENST00000572023	miRNA	KNOWN	None	None	None	None	17887106	17887192	1	None	None
4	None	ENSG00000251339	ENST00000513551	lincRNA	KNOWN	None	None	None	None	59646791	59849859	-1	None	None
4	None	ENSG00000251339	ENST00000510941	lincRNA	KNOWN	None	None	None	None	59713333	59849820	-1	None	None
4	None	ENSG00000251339	ENST00000510371	lincRNA	KNOWN	None	None	None	None	59717135	59849870	-1	None	None
4	None	ENSG00000251339	ENST00000503232	lincRNA	KNOWN	None	None	None	None	59726676	59842815	-1	None	None
2	None	ENSG00000213222	ENST00000448659	processed_pseudogene	KNOWN	None	None	None	None	132480826	132481852	-1	None	None
HG544_PATCH	None	ENSG00000260985	ENST00000567580	antisense	KNOWN	None	None	None	None	17904886	17907470	-1	None	None
17	SPDYE4	ENSG00000183318	ENST00000328794	protein_coding	KNOWN	CCDS45609	35463	714	237	8656424	8661877	-1	None	None
17	SPDYE4	ENSG00000183318	ENST00000582989	nonsense_mediated_decay	KNOWN	None	35463	126	41	8656424	8661877	-1	None	None
17	SPDYE4	ENSG00000183318	ENST00000580999	protein_coding	PUTATIVE	None	35463	275	90	8658703	8660705	-1	None	None
HSCHR6_MHC_COX	TNXB	ENSG00000233323	ENST00000404514	retained_intron	KNOWN	None	11976	None	None	31957379	31962352	-1	TNXB1, TNXB2	TNXBS, XBS, XB
HSCHR6_MHC_COX	TNXB	ENSG00000233323	ENST00000489006	processed_transcript	KNOWN	None	11976	None	None	31957379	31962831	-1	TNXB1, TNXB2	TNXBS, XBS, XB
HSCHR6_MHC_COX	TNXB	ENSG00000233323	ENST00000383159	protein_coding	KNOWN	None	11976	12669	4222	31957379	32025609	-1	TNXB1, TNXB2	TNXBS, XBS, XB
HSCHR6_MHC_COX	TNXB	ENSG00000233323	ENST00000488475	retained_intron	KNOWN	None	11976	None	None	31958490	31959676	-1	TNXB1, TNXB2	TNXBS, XBS, XB
HSCHR6_MHC_COX	TNXB	ENSG00000233323	ENST00000495543	retained_intron	KNOWN	None	11976	None	None	32011814	32025456	-1	TNXB1, TNXB2	TNXBS, XBS, XB
HSCHR6_MHC_COX	TNXB	ENSG00000233323	ENST00000448391	protein_coding	KNOWN	None	11976	23	6	32014411	32031569	-1	TNXB1, TNXB2	TNXBS, XBS, XB
HSCHR6_MHC_COX	TNXB	ENSG00000233323	ENST00000424226	protein_coding	KNOWN	None	11976	23	6	32014411	32033845	-1	TNXB1, TNXB2	TNXBS, XBS, XB
HSCHR6_MHC_COX	TNXB	ENSG00000233323	ENST00000549232	protein_coding	KNOWN	None	11976	12729	4242	31957379	32025609	-1	TNXB1, TNXB2	TNXBS, XBS, XB
HG1133_PATCH	TAS2R14	ENSG00000262103	ENST00000574901	protein_coding	KNOWN	None	14920	954	317	11090005	11091862	-1	None	T2R14, TRB1
HG1133_PATCH	TAS2R14	ENSG00000262103	ENST00000572833	processed_transcript	KNOWN	None	14920	None	None	11090007	11320458	-1	None	T2R14, TRB1
8	None	ENSG00000264721	ENST00000578410	miRNA	NOVEL	None	None	None	None	145210801	145210892	-1	None	None
3	VGLL3	ENSG00000206538	ENST00000398399	protein_coding	KNOWN	CCDS43110	24327	981	326	86987119	87040257	-1	None	VGL-3
3	VGLL3	ENSG00000206538	ENST00000383698	protein_coding	KNOWN	None	24327	963	320	87011056	87040269	-1	None	VGL-3
3	VGLL3	ENSG00000206538	ENST00000494229	protein_coding	NOVEL	None	24327	624	207	87017853	87039852	-1	None	VGL-3
2	None	ENSG00000223588	ENST00000434508	processed_pseudogene	KNOWN	None	None	None	None	132534140	132534601	1	None	None
22	CRYBB3	ENSG00000100053	ENST00000215855	protein_coding	KNOWN	CCDS13830	2400	636	211	25595817	25603330	1	CRYB3	None
22	CRYBB3	ENSG00000100053	ENST00000404334	protein_coding	PUTATIVE	None	2400	342	113	25595840	25603234	1	CRYB3	None
8	None	ENSG00000264987	ENST00000579382	miRNA	NOVEL	None	None	None	None	145456008	145456099	-1	None	None
HSCHR17_4_CTG4	KRTAP2-1	ENSG00000261852	ENST00000571136	protein_coding	KNOWN	None	16775	387	128	39202918	39203693	-1	None	KAP2.1A
18	None	ENSG00000267399	ENST00000589617	lincRNA	KNOWN	None	None	None	None	53728340	53730309	-1	None	None
2	None	ENSG00000229203	ENST00000437330	lincRNA	KNOWN	None	None	None	None	132587374	132589604	-1	None	None
18	None	ENSG00000201816	ENST00000364946	snoRNA	NOVEL	None	None	None	None	53746625	53746825	-1	None	None
15	IGHV3OR15-7	ENSG00000259490	ENST00000558565	IG_V_gene	KNOWN	None	5633	359	118	20192909	20193370	-1	None	IGHV3/OR15-7
3	None	ENSG00000223398	ENST00000440852	processed_pseudogene	KNOWN	None	None	None	None	13501924	13502389	-1	None	None
HG271_PATCH	None	ENSG00000265729	ENST00000579976	antisense	KNOWN	None	None	None	None	79434813	79435737	-1	None	None
Y	None	ENSG00000252586	ENST00000516777	miRNA	NOVEL	None	None	None	None	14482123	14482230	1	None	None
11	TTC9C	ENSG00000162222	ENST00000530625	protein_coding	KNOWN	None	28432	421	139	62495541	62503036	1	None	MGC29649
11	TTC9C	ENSG00000162222	ENST00000294161	nonsense_mediated_decay	KNOWN	None	28432	249	82	62495584	62503715	1	None	MGC29649
11	TTC9C	ENSG00000162222	ENST00000316461	protein_coding	KNOWN	CCDS8033	28432	516	171	62496011	62506108	1	None	MGC29649
11	TTC9C	ENSG00000162222	ENST00000532583	protein_coding	KNOWN	CCDS8033	28432	516	171	62496114	62506075	1	None	MGC29649
11	TTC9C	ENSG00000162222	ENST00000532276	nonsense_mediated_decay	KNOWN	None	28432	210	69	62502922	62507756	1	None	MGC29649
11	TTC9C	ENSG00000162222	ENST00000601045	retained_intron	KNOWN	None	28432	None	None	62507420	62507765	1	None	MGC29649
11	TTC9C	ENSG00000162222	ENST00000513247	protein_coding	KNOWN	None	28432	648	215	62495584	62503691	1	None	MGC29649
2	None	ENSG00000232760	ENST00000432853	unprocessed_pseudogene	KNOWN	None	None	None	None	132591356	132594105	-1	None	None
1	RPL22	ENSG00000116251	ENST00000484532	protein_coding	PUTATIVE	None	10315	162	53	6241329	6257817	-1	None	EAP, L22
1	RPL22	ENSG00000116251	ENST00000234875	protein_coding	KNOWN	CCDS58	10315	387	128	6245080	6259672	-1	None	EAP, L22
1	RPL22	ENSG00000116251	ENST00000480661	retained_intron	KNOWN	None	10315	None	None	6246635	6259623	-1	None	EAP, L22
1	RPL22	ENSG00000116251	ENST00000497965	protein_coding	PUTATIVE	None	10315	288	95	6246675	6260902	-1	None	EAP, L22
1	RPL22	ENSG00000116251	ENST00000471204	protein_coding	PUTATIVE	None	10315	268	88	6246752	6269304	-1	None	EAP, L22
1	RPL22	ENSG00000116251	ENST00000465387	protein_coding	PUTATIVE	None	10315	237	78	6246783	6259613	-1	None	EAP, L22
1	RPL22	ENSG00000116251	ENST00000462296	protein_coding	PUTATIVE	None	10315	146	47	6252987	6263554	-1	None	EAP, L22
1	RPL22	ENSG00000116251	ENST00000465335	protein_coding	PUTATIVE	None	10315	143	46	6252990	6269449	-1	None	EAP, L22
Y	XGPY	ENSG00000227447	ENST00000381172	unprocessed_pseudogene	KNOWN	None	12807	None	None	14551845	14619171	-1	None	XGPY1
HG271_PATCH	None	ENSG00000263865	ENST00000583132	unitary_pseudogene	KNOWN	None	None	None	None	79486863	79486984	1	None	None
10	C10orf54	ENSG00000107738	ENST00000394957	protein_coding	KNOWN	CCDS31218	30085	936	311	73507316	73533255	-1	None	SISP1, GI24, B7-H5, B7H5
10	C10orf54	ENSG00000107738	ENST00000470317	protein_coding	PUTATIVE	None	30085	421	139	73510673	73517387	-1	None	SISP1, GI24, B7-H5, B7H5
10	C10orf54	ENSG00000107738	ENST00000481568	processed_transcript	KNOWN	None	30085	None	None	73520288	73521701	-1	None	SISP1, GI24, B7-H5, B7H5
8	None	ENSG00000204771	ENST00000528668	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	145462709	145485883	1	None	None
8	None	ENSG00000204771	ENST00000315783	unprocessed_pseudogene	KNOWN	None	None	None	None	145472833	145485765	1	None	None
8	None	ENSG00000204771	ENST00000536221	unprocessed_pseudogene	KNOWN	None	None	None	None	145474243	145485885	1	None	None
18	None	ENSG00000267712	ENST00000591974	lincRNA	KNOWN	None	None	None	None	53750587	53804767	-1	None	None
18	None	ENSG00000267712	ENST00000587904	lincRNA	KNOWN	None	None	None	None	53750593	53804748	-1	None	None
18	None	ENSG00000267712	ENST00000593282	lincRNA	KNOWN	None	None	None	None	53754468	53777055	-1	None	None
18	None	ENSG00000267712	ENST00000589293	lincRNA	KNOWN	None	None	None	None	53763152	53804714	-1	None	None
18	None	ENSG00000267712	ENST00000590484	lincRNA	KNOWN	None	None	None	None	53763221	53804580	-1	None	None
18	None	ENSG00000267712	ENST00000589447	lincRNA	KNOWN	None	None	None	None	53772337	53777055	-1	None	None
HG271_PATCH	None	ENSG00000264223	ENST00000579488	antisense	KNOWN	None	None	None	None	79487847	79501043	1	None	None
HG271_PATCH	None	ENSG00000264223	ENST00000583720	antisense	KNOWN	None	None	None	None	79492840	79501576	1	None	None
1	GTF2B	ENSG00000137947	ENST00000370500	protein_coding	KNOWN	CCDS715	4648	951	316	89318615	89357301	-1	None	TFIIB
1	GTF2B	ENSG00000137947	ENST00000448623	protein_coding	NOVEL	None	4648	675	224	89318907	89357179	-1	None	TFIIB
1	GTF2B	ENSG00000137947	ENST00000494819	processed_transcript	KNOWN	None	4648	None	None	89322948	89357210	-1	None	TFIIB
1	GTF2B	ENSG00000137947	ENST00000418217	protein_coding	NOVEL	None	4648	693	230	89322998	89357272	-1	None	TFIIB
1	GTF2B	ENSG00000137947	ENST00000486078	processed_transcript	KNOWN	None	4648	None	None	89325739	89357328	-1	None	TFIIB
1	GTF2B	ENSG00000137947	ENST00000471296	processed_transcript	KNOWN	None	4648	None	None	89329669	89353731	-1	None	TFIIB
1	GTF2B	ENSG00000137947	ENST00000471471	processed_transcript	KNOWN	None	4648	None	None	89329727	89357627	-1	None	TFIIB
HSCHR6_MHC_DBB	DDAH2	ENSG00000227317	ENST00000450563	protein_coding	KNOWN	None	2716	565	187	31676987	31678826	-1	None	None
HSCHR6_MHC_DBB	DDAH2	ENSG00000227317	ENST00000471096	retained_intron	KNOWN	None	2716	None	None	31676987	31679456	-1	None	None
HSCHR6_MHC_DBB	DDAH2	ENSG00000227317	ENST00000451411	protein_coding	KNOWN	None	2716	858	285	31676987	31679741	-1	None	None
HSCHR6_MHC_DBB	DDAH2	ENSG00000227317	ENST00000488668	processed_transcript	KNOWN	None	2716	None	None	31676987	31680176	-1	None	None
HSCHR6_MHC_DBB	DDAH2	ENSG00000227317	ENST00000496782	processed_transcript	KNOWN	None	2716	None	None	31676987	31680211	-1	None	None
HSCHR6_MHC_DBB	DDAH2	ENSG00000227317	ENST00000430482	protein_coding	KNOWN	None	2716	858	285	31676987	31680212	-1	None	None
HSCHR6_MHC_DBB	DDAH2	ENSG00000227317	ENST00000437889	protein_coding	KNOWN	None	2716	858	285	31676987	31680566	-1	None	None
HSCHR6_MHC_DBB	DDAH2	ENSG00000227317	ENST00000417916	protein_coding	KNOWN	None	2716	709	235	31677524	31679745	-1	None	None
HSCHR6_MHC_DBB	DDAH2	ENSG00000227317	ENST00000437358	protein_coding	KNOWN	None	2716	678	225	31677555	31679450	-1	None	None
HSCHR6_MHC_DBB	DDAH2	ENSG00000227317	ENST00000472819	retained_intron	KNOWN	None	2716	None	None	31678130	31680194	-1	None	None
15	IGHD5OR15-5A	ENSG00000270961	ENST00000604642	IG_D_gene	KNOWN	None	5512	23	6	20209093	20209115	-1	None	IGHD5/OR15-5A, IGHD5OR155A
Y	SHROOM2P1	ENSG00000226863	ENST00000434773	unprocessed_pseudogene	KNOWN	None	631	None	None	14649708	14656818	1	APXLP	None
20	BPIFA3	ENSG00000131059	ENST00000490499	processed_transcript	KNOWN	None	16204	None	None	31805116	31815564	1	C20orf71	bA49G10.4, SPLUNC3
20	BPIFA3	ENSG00000131059	ENST00000471233	processed_transcript	KNOWN	None	16204	None	None	31805133	31815564	1	C20orf71	bA49G10.4, SPLUNC3
20	BPIFA3	ENSG00000131059	ENST00000375454	protein_coding	KNOWN	CCDS13216	16204	765	254	31805133	31815564	1	C20orf71	bA49G10.4, SPLUNC3
20	BPIFA3	ENSG00000131059	ENST00000375452	protein_coding	KNOWN	CCDS42865	16204	657	218	31805158	31815564	1	C20orf71	bA49G10.4, SPLUNC3
22	None	ENSG00000235343	ENST00000422917	lincRNA	KNOWN	None	None	None	None	17227759	17229535	-1	None	None
1	None	ENSG00000227169	ENST00000438791	lincRNA	KNOWN	None	None	None	None	4611795	4612205	-1	None	None
HSCHR17_4_CTG4	None	ENSG00000262731	ENST00000573155	protein_coding	NOVEL	None	None	387	128	39210879	39211741	-1	None	None
2	RN7SL701P	ENSG00000264973	ENST00000583351	misc_RNA	KNOWN	None	46717	None	None	132632204	132632480	1	None	None
2	None	ENSG00000244337	ENST00000421696	lincRNA	KNOWN	None	None	None	None	132715850	132723108	1	None	None
15	IGHD4OR15-4A	ENSG00000271317	ENST00000603326	IG_D_gene	KNOWN	None	5506	19	5	20210050	20210068	-1	None	IGHD4/OR15-4A, IGHD4OR154A
2	SMC6	ENSG00000163029	ENST00000448223	protein_coding	KNOWN	CCDS1690	20466	3276	1091	17845079	17935070	-1	SMC6L1	FLJ22116
2	SMC6	ENSG00000163029	ENST00000351948	protein_coding	KNOWN	CCDS1690	20466	3276	1091	17845079	17935097	-1	SMC6L1	FLJ22116
2	SMC6	ENSG00000163029	ENST00000481708	retained_intron	KNOWN	None	20466	None	None	17846393	17863283	-1	SMC6L1	FLJ22116
2	SMC6	ENSG00000163029	ENST00000402989	protein_coding	KNOWN	CCDS1690	20466	3276	1091	17846714	17981462	-1	SMC6L1	FLJ22116
2	SMC6	ENSG00000163029	ENST00000446852	protein_coding	NOVEL	None	20466	2220	739	17884424	17935040	-1	SMC6L1	FLJ22116
2	SMC6	ENSG00000163029	ENST00000430591	nonsense_mediated_decay	KNOWN	None	20466	69	22	17888495	17896144	-1	SMC6L1	FLJ22116
2	SMC6	ENSG00000163029	ENST00000428868	protein_coding	KNOWN	None	20466	171	56	17922946	17981509	-1	SMC6L1	FLJ22116
2	SMC6	ENSG00000163029	ENST00000489535	processed_transcript	KNOWN	None	20466	None	None	17978832	17981425	-1	SMC6L1	FLJ22116
2	SMC6	ENSG00000163029	ENST00000381272	protein_coding	KNOWN	None	20466	3354	1117	17846666	17935070	-1	SMC6L1	FLJ22116
Y	MED14P1	ENSG00000233774	ENST00000430517	unprocessed_pseudogene	KNOWN	None	2371	None	None	14730915	14746333	-1	CXorf4P, CRSP2P, MED14P	None
12	TXNRD1	ENSG00000198431	ENST00000525566	protein_coding	KNOWN	CCDS53820	12437	1950	649	104609557	104744061	1	None	TXNR, GRIM-12, Trxr1
12	TXNRD1	ENSG00000198431	ENST00000534282	retained_intron	KNOWN	None	12437	None	None	104618594	104652046	1	None	TXNR, GRIM-12, Trxr1
12	TXNRD1	ENSG00000198431	ENST00000526006	processed_transcript	KNOWN	None	12437	None	None	104645324	104678184	1	None	TXNR, GRIM-12, Trxr1
12	TXNRD1	ENSG00000198431	ENST00000526266	protein_coding	KNOWN	None	12437	210	69	104679780	104709604	1	None	TXNR, GRIM-12, Trxr1
12	TXNRD1	ENSG00000198431	ENST00000503506	protein_coding	KNOWN	CCDS53823	12437	1500	499	104680460	104744055	1	None	TXNR, GRIM-12, Trxr1
12	TXNRD1	ENSG00000198431	ENST00000526691	protein_coding	KNOWN	CCDS53821	12437	1656	551	104680659	104744061	1	None	TXNR, GRIM-12, Trxr1
12	TXNRD1	ENSG00000198431	ENST00000531691	protein_coding	KNOWN	None	12437	417	138	104680703	104709679	1	None	TXNR, GRIM-12, Trxr1
12	TXNRD1	ENSG00000198431	ENST00000526390	protein_coding	KNOWN	None	12437	1632	543	104680768	104744052	1	None	TXNR, GRIM-12, Trxr1
12	TXNRD1	ENSG00000198431	ENST00000531689	protein_coding	KNOWN	None	12437	216	71	104680773	104709610	1	None	TXNR, GRIM-12, Trxr1
12	TXNRD1	ENSG00000198431	ENST00000529546	protein_coding	PUTATIVE	CCDS58274	12437	1386	461	104680800	104742606	1	None	TXNR, GRIM-12, Trxr1
12	TXNRD1	ENSG00000198431	ENST00000529751	protein_coding	PUTATIVE	None	12437	134	43	104680802	104721352	1	None	TXNR, GRIM-12, Trxr1
12	TXNRD1	ENSG00000198431	ENST00000526207	retained_intron	KNOWN	None	12437	None	None	104680810	104683181	1	None	TXNR, GRIM-12, Trxr1
12	TXNRD1	ENSG00000198431	ENST00000528079	protein_coding	PUTATIVE	None	12437	288	95	104680827	104705184	1	None	TXNR, GRIM-12, Trxr1
12	TXNRD1	ENSG00000198431	ENST00000526580	protein_coding	KNOWN	None	12437	311	102	104680835	104712721	1	None	TXNR, GRIM-12, Trxr1
12	TXNRD1	ENSG00000198431	ENST00000529784	protein_coding	KNOWN	None	12437	159	52	104681100	104707094	1	None	TXNR, GRIM-12, Trxr1
12	TXNRD1	ENSG00000198431	ENST00000524698	protein_coding	KNOWN	CCDS53823	12437	1500	499	104681146	104742422	1	None	TXNR, GRIM-12, Trxr1
12	TXNRD1	ENSG00000198431	ENST00000527688	nonsense_mediated_decay	KNOWN	None	12437	1449	482	104682496	104744061	1	None	TXNR, GRIM-12, Trxr1
12	TXNRD1	ENSG00000198431	ENST00000527335	protein_coding	KNOWN	None	12437	527	174	104682673	104713351	1	None	TXNR, GRIM-12, Trxr1
12	TXNRD1	ENSG00000198431	ENST00000526950	protein_coding	PUTATIVE	None	12437	1707	568	104703629	104742261	1	None	TXNR, GRIM-12, Trxr1
12	TXNRD1	ENSG00000198431	ENST00000525265	retained_intron	KNOWN	None	12437	None	None	104727905	104742361	1	None	TXNR, GRIM-12, Trxr1
12	TXNRD1	ENSG00000198431	ENST00000429002	protein_coding	KNOWN	None	12437	1944	647	104609559	104744055	1	None	TXNR, GRIM-12, Trxr1
12	TXNRD1	ENSG00000198431	ENST00000388854	protein_coding	KNOWN	None	12437	1650	549	104680727	104744055	1	None	TXNR, GRIM-12, Trxr1
12	TXNRD1	ENSG00000198431	ENST00000542918	protein_coding	KNOWN	None	12437	1644	547	104681146	104742422	1	None	TXNR, GRIM-12, Trxr1
12	TXNRD1	ENSG00000198431	ENST00000378070	protein_coding	KNOWN	None	12437	1746	581	104682496	104744061	1	None	TXNR, GRIM-12, Trxr1
12	TXNRD1	ENSG00000198431	ENST00000397736	protein_coding	KNOWN	None	12437	1626	541	104684787	104744055	1	None	TXNR, GRIM-12, Trxr1
12	TXNRD1	ENSG00000198431	ENST00000427956	protein_coding	KNOWN	None	12437	1839	612	104703569	104744055	1	None	TXNR, GRIM-12, Trxr1
12	TXNRD1	ENSG00000198431	ENST00000354940	protein_coding	KNOWN	None	12437	1494	497	104680727	104744055	1	None	TXNR, GRIM-12, Trxr1
12	TXNRD1	ENSG00000198431	ENST00000540716	protein_coding	KNOWN	None	12437	1380	459	104680810	104742646	1	None	TXNR, GRIM-12, Trxr1
17	TRAF4	ENSG00000076604	ENST00000262395	protein_coding	KNOWN	CCDS11243	12034	1413	470	27071002	27077974	1	None	CART1, MLN62, RNF83
17	TRAF4	ENSG00000076604	ENST00000478021	nonsense_mediated_decay	KNOWN	None	12034	150	49	27071036	27072536	1	None	CART1, MLN62, RNF83
17	TRAF4	ENSG00000076604	ENST00000461195	retained_intron	KNOWN	None	12034	None	None	27071037	27075441	1	None	CART1, MLN62, RNF83
17	TRAF4	ENSG00000076604	ENST00000498540	retained_intron	KNOWN	None	12034	None	None	27071041	27074750	1	None	CART1, MLN62, RNF83
17	TRAF4	ENSG00000076604	ENST00000422344	protein_coding	NOVEL	None	12034	548	181	27071048	27075344	1	None	CART1, MLN62, RNF83
17	TRAF4	ENSG00000076604	ENST00000586813	nonsense_mediated_decay	KNOWN	None	12034	162	53	27071054	27075621	1	None	CART1, MLN62, RNF83
17	TRAF4	ENSG00000076604	ENST00000444415	protein_coding	NOVEL	None	12034	1314	437	27071058	27077055	1	None	CART1, MLN62, RNF83
17	TRAF4	ENSG00000076604	ENST00000394925	retained_intron	KNOWN	None	12034	None	None	27071073	27074731	1	None	CART1, MLN62, RNF83
17	TRAF4	ENSG00000076604	ENST00000262396	protein_coding	NOVEL	None	12034	588	195	27071103	27076662	1	None	CART1, MLN62, RNF83
17	TRAF4	ENSG00000076604	ENST00000475329	nonsense_mediated_decay	KNOWN	None	12034	277	91	27071241	27075344	1	None	CART1, MLN62, RNF83
17	TRAF4	ENSG00000076604	ENST00000584944	protein_coding	PUTATIVE	None	12034	144	47	27073761	27075315	1	None	CART1, MLN62, RNF83
17	TRAF4	ENSG00000076604	ENST00000473421	protein_coding	PUTATIVE	None	12034	270	89	27074034	27075441	1	None	CART1, MLN62, RNF83
17	TRAF4	ENSG00000076604	ENST00000454852	nonsense_mediated_decay	KNOWN	None	12034	339	112	27074232	27076041	1	None	CART1, MLN62, RNF83
17	TRAF4	ENSG00000076604	ENST00000578917	retained_intron	KNOWN	None	12034	None	None	27074600	27075171	1	None	CART1, MLN62, RNF83
17	TRAF4	ENSG00000076604	ENST00000469529	retained_intron	KNOWN	None	12034	None	None	27074748	27076052	1	None	CART1, MLN62, RNF83
17	TRAF4	ENSG00000076604	ENST00000580073	retained_intron	KNOWN	None	12034	None	None	27075142	27075760	1	None	CART1, MLN62, RNF83
2	None	ENSG00000235615	ENST00000419362	lincRNA	KNOWN	None	None	None	None	132722304	132737446	-1	None	None
22	HSFY1P1	ENSG00000229027	ENST00000425038	processed_transcript	KNOWN	None	1846	None	None	17308364	17310225	1	CECR8	HSFYP1, HSFYL1
22	HSFY1P1	ENSG00000229027	ENST00000423928	transcribed_unprocessed_pseudogene	KNOWN	None	1846	None	None	17308441	17310099	1	CECR8	HSFYP1, HSFYL1
2	None	ENSG00000236485	ENST00000419784	lincRNA	KNOWN	None	None	None	None	132741510	132751734	-1	None	None
Y	TTTY15	ENSG00000233864	ENST00000457658	lincRNA	KNOWN	None	18567	None	None	14774265	14802370	1	None	DKFZP434I143, NCRNA00138
Y	TTTY15	ENSG00000233864	ENST00000440408	lincRNA	KNOWN	None	18567	None	None	14774265	14804162	1	None	DKFZP434I143, NCRNA00138
Y	TTTY15	ENSG00000233864	ENST00000417071	lincRNA	KNOWN	None	18567	None	None	14774468	14800184	1	None	DKFZP434I143, NCRNA00138
Y	TTTY15	ENSG00000233864	ENST00000543097	lincRNA	KNOWN	None	18567	None	None	14774284	14776614	1	None	DKFZP434I143, NCRNA00138
14	OR10G3	ENSG00000169208	ENST00000303532	protein_coding	KNOWN	CCDS32046	8171	942	313	22037934	22038875	-1	None	None
3	MANF	ENSG00000145050	ENST00000528157	protein_coding	KNOWN	CCDS46836	15461	549	182	51422478	51426828	1	ARMET	ARP
3	MANF	ENSG00000145050	ENST00000446668	nonsense_mediated_decay	KNOWN	None	15461	214	70	51422788	51426693	1	ARMET	ARP
3	MANF	ENSG00000145050	ENST00000470900	processed_transcript	KNOWN	None	15461	None	None	51422840	51426775	1	ARMET	ARP
3	MANF	ENSG00000145050	ENST00000482262	retained_intron	KNOWN	None	15461	None	None	51425119	51426580	1	ARMET	ARP
15	RN7SL347P	ENSG00000265191	ENST00000581820	misc_RNA	KNOWN	None	46363	None	None	44726452	44726705	1	None	None
12	RPL22P19	ENSG00000241129	ENST00000480427	processed_transcript	KNOWN	None	36567	None	None	125420001	125420441	-1	None	None
12	RPL22P19	ENSG00000241129	ENST00000392735	transcribed_processed_pseudogene	KNOWN	None	36567	None	None	125420034	125420406	-1	None	None
12	RPL22P19	ENSG00000241129	ENST00000462500	processed_pseudogene	KNOWN	None	36567	None	None	125420026	125420412	-1	None	None
22	SGSM3	ENSG00000100359	ENST00000457767	protein_coding	PUTATIVE	None	25228	759	252	40766595	40802227	1	RUTBC3	DJ1042K10.2, RUSC3, RabGAP-5, RABGAP5
22	SGSM3	ENSG00000100359	ENST00000248929	protein_coding	KNOWN	CCDS14002	25228	2250	749	40766615	40806293	1	RUTBC3	DJ1042K10.2, RUSC3, RabGAP-5, RABGAP5
22	SGSM3	ENSG00000100359	ENST00000485962	retained_intron	KNOWN	None	25228	None	None	40766643	40806112	1	RUTBC3	DJ1042K10.2, RUSC3, RabGAP-5, RABGAP5
22	SGSM3	ENSG00000100359	ENST00000478085	retained_intron	KNOWN	None	25228	None	None	40800117	40806107	1	RUTBC3	DJ1042K10.2, RUSC3, RabGAP-5, RABGAP5
22	SGSM3	ENSG00000100359	ENST00000480830	retained_intron	KNOWN	None	25228	None	None	40802117	40804413	1	RUTBC3	DJ1042K10.2, RUSC3, RabGAP-5, RABGAP5
22	SGSM3	ENSG00000100359	ENST00000481408	retained_intron	KNOWN	None	25228	None	None	40802442	40804433	1	RUTBC3	DJ1042K10.2, RUSC3, RabGAP-5, RABGAP5
22	SGSM3	ENSG00000100359	ENST00000481028	retained_intron	KNOWN	None	25228	None	None	40803255	40803705	1	RUTBC3	DJ1042K10.2, RUSC3, RabGAP-5, RABGAP5
22	SGSM3	ENSG00000100359	ENST00000470518	retained_intron	KNOWN	None	25228	None	None	40803281	40805120	1	RUTBC3	DJ1042K10.2, RUSC3, RabGAP-5, RABGAP5
22	SGSM3	ENSG00000100359	ENST00000467915	retained_intron	KNOWN	None	25228	None	None	40803343	40804691	1	RUTBC3	DJ1042K10.2, RUSC3, RabGAP-5, RABGAP5
22	SGSM3	ENSG00000100359	ENST00000427834	protein_coding	PUTATIVE	None	25228	639	212	40804317	40805815	1	RUTBC3	DJ1042K10.2, RUSC3, RabGAP-5, RABGAP5
22	SGSM3	ENSG00000100359	ENST00000469719	retained_intron	KNOWN	None	25228	None	None	40804392	40806051	1	RUTBC3	DJ1042K10.2, RUSC3, RabGAP-5, RABGAP5
22	SGSM3	ENSG00000100359	ENST00000462457	retained_intron	KNOWN	None	25228	None	None	40804631	40805789	1	RUTBC3	DJ1042K10.2, RUSC3, RabGAP-5, RABGAP5
22	SGSM3	ENSG00000100359	ENST00000417424	protein_coding	PUTATIVE	None	25228	307	101	40804798	40806122	1	RUTBC3	DJ1042K10.2, RUSC3, RabGAP-5, RABGAP5
22	SGSM3	ENSG00000100359	ENST00000454798	protein_coding	KNOWN	None	25228	1791	596	40766635	40805307	1	RUTBC3	DJ1042K10.2, RUSC3, RabGAP-5, RABGAP5
14	None	ENSG00000241081	ENST00000469811	processed_pseudogene	KNOWN	None	None	None	None	77352720	77353093	-1	None	None
2	None	ENSG00000226886	ENST00000450396	processed_pseudogene	KNOWN	None	None	None	None	132795360	132795566	-1	None	None
22	CRYBB2	ENSG00000244752	ENST00000398215	protein_coding	KNOWN	CCDS13831	2398	618	205	25615489	25627836	1	CCA2, CRYB2A, CRYB2	None
15	IGHD3OR15-3A	ENSG00000270783	ENST00000604950	IG_D_gene	KNOWN	None	5500	31	9	20211158	20211188	-1	None	IGHD3/OR15-3A, IGHD3OR153A
4	LRAT	ENSG00000121207	ENST00000500890	processed_transcript	KNOWN	None	6685	None	None	155548097	155621052	1	None	None
4	LRAT	ENSG00000121207	ENST00000502525	protein_coding	KNOWN	None	6685	207	68	155548113	155665685	1	None	None
4	LRAT	ENSG00000121207	ENST00000499392	processed_transcript	KNOWN	None	6685	None	None	155548224	155669472	1	None	None
4	LRAT	ENSG00000121207	ENST00000507827	protein_coding	KNOWN	CCDS3789	6685	693	230	155661990	155672187	1	None	None
4	LRAT	ENSG00000121207	ENST00000336356	protein_coding	KNOWN	CCDS3789	6685	693	230	155665123	155674270	1	None	None
4	LRAT	ENSG00000121207	ENST00000510733	retained_intron	KNOWN	None	6685	None	None	155665152	155674270	1	None	None
4	LRAT	ENSG00000121207	ENST00000502474	processed_transcript	KNOWN	None	6685	None	None	155666526	155670572	1	None	None
4	LRAT	ENSG00000121207	ENST00000510919	processed_transcript	KNOWN	None	6685	None	None	155666599	155670332	1	None	None
15	HNRNPMP1	ENSG00000259335	ENST00000560685	processed_pseudogene	KNOWN	None	48745	None	None	44739775	44741542	-1	None	None
2	None	ENSG00000271179	ENST00000603823	processed_pseudogene	KNOWN	None	None	None	None	132837863	132838328	-1	None	None
18	None	ENSG00000267732	ENST00000590589	lincRNA	KNOWN	None	None	None	None	53805843	53810452	1	None	None
15	IGHD2OR15-2A	ENSG00000271197	ENST00000603077	IG_D_gene	KNOWN	None	5493	31	9	20213655	20213685	-1	None	IGHD2/OR15-2A, IGHD2OR152A
2	None	ENSG00000225594	ENST00000433943	unprocessed_pseudogene	KNOWN	None	None	None	None	132844862	132860137	1	None	None
2	GPN1	ENSG00000198522	ENST00000481754	processed_transcript	KNOWN	None	17030	None	None	27851114	27852794	1	XAB1	NTPBP, MBDIN, ATPBD1A, RPAP4
2	GPN1	ENSG00000198522	ENST00000515877	protein_coding	PUTATIVE	CCDS46250	17030	888	295	27851114	27873230	1	XAB1	NTPBP, MBDIN, ATPBD1A, RPAP4
2	GPN1	ENSG00000198522	ENST00000503738	protein_coding	PUTATIVE	CCDS46249	17030	840	279	27851515	27873076	1	XAB1	NTPBP, MBDIN, ATPBD1A, RPAP4
2	GPN1	ENSG00000198522	ENST00000407583	protein_coding	PUTATIVE	CCDS46248	17030	1089	362	27851525	27873323	1	XAB1	NTPBP, MBDIN, ATPBD1A, RPAP4
2	GPN1	ENSG00000198522	ENST00000264718	protein_coding	KNOWN	CCDS1760	17030	1167	388	27851863	27874375	1	XAB1	NTPBP, MBDIN, ATPBD1A, RPAP4
2	GPN1	ENSG00000198522	ENST00000436280	nonsense_mediated_decay	KNOWN	None	17030	222	73	27851891	27861830	1	XAB1	NTPBP, MBDIN, ATPBD1A, RPAP4
2	GPN1	ENSG00000198522	ENST00000478484	retained_intron	KNOWN	None	17030	None	None	27851919	27854507	1	XAB1	NTPBP, MBDIN, ATPBD1A, RPAP4
2	GPN1	ENSG00000198522	ENST00000461249	processed_transcript	KNOWN	None	17030	None	None	27852113	27870761	1	XAB1	NTPBP, MBDIN, ATPBD1A, RPAP4
2	GPN1	ENSG00000198522	ENST00000458167	protein_coding	KNOWN	CCDS46249	17030	840	279	27851515	27873711	1	XAB1	NTPBP, MBDIN, ATPBD1A, RPAP4
2	GPN1	ENSG00000198522	ENST00000424214	protein_coding	KNOWN	CCDS46250	17030	888	295	27851515	27873711	1	XAB1	NTPBP, MBDIN, ATPBD1A, RPAP4
18	None	ENSG00000206865	ENST00000384138	misc_RNA	NOVEL	None	None	None	None	54420457	54420557	-1	None	None
22	GPM6BP3	ENSG00000234121	ENST00000442797	processed_pseudogene	KNOWN	None	38783	None	None	17318412	17318556	1	None	None
1	None	ENSG00000232596	ENST00000420522	lincRNA	KNOWN	None	None	None	None	4631608	4643481	1	None	None
18	None	ENSG00000267146	ENST00000586391	antisense	KNOWN	None	None	None	None	54539899	54541201	-1	None	None
12	None	ENSG00000256093	ENST00000541494	processed_pseudogene	KNOWN	None	None	None	None	125540905	125541127	-1	None	None
2	None	ENSG00000227745	ENST00000452011	unprocessed_pseudogene	KNOWN	None	None	None	None	132890429	132897002	-1	None	None
14	RN7SKP17	ENSG00000223174	ENST00000411242	misc_RNA	KNOWN	None	45741	None	None	77356606	77356956	1	None	None
15	IGHD1OR15-1A	ENSG00000271336	ENST00000605284	IG_D_gene	KNOWN	None	5487	17	4	20216406	20216422	-1	None	IGHD1/OR15-1A, IGHD1OR151A
14	None	ENSG00000259058	ENST00000553991	lincRNA	KNOWN	None	None	None	None	77388183	77390992	-1	None	None
12	None	ENSG00000256814	ENST00000543922	lincRNA	KNOWN	None	None	None	None	125634604	125635940	1	None	None
22	None	ENSG00000237835	ENST00000422608	processed_pseudogene	KNOWN	None	None	None	None	17336694	17337052	1	None	None
5	None	ENSG00000249167	ENST00000508766	lincRNA	KNOWN	None	None	None	None	115910178	115927094	1	None	None
12	None	ENSG00000271184	ENST00000604518	processed_pseudogene	KNOWN	None	None	None	None	126384967	126386029	-1	None	None
16	KCNG4	ENSG00000168418	ENST00000308251	protein_coding	KNOWN	CCDS10945	19697	1560	519	84255823	84273304	-1	None	Kv6.4
16	KCNG4	ENSG00000168418	ENST00000568181	protein_coding	KNOWN	None	19697	771	256	84269014	84273356	-1	None	Kv6.4
18	None	ENSG00000212539	ENST00000391237	snoRNA	NOVEL	None	None	None	None	54624501	54624699	1	None	None
HSCHR17_1	None	ENSG00000257374	ENST00000552264	protein_coding	KNOWN	None	None	2262	753	43582566	43647125	-1	None	None
HSCHR17_1	None	ENSG00000257374	ENST00000547001	protein_coding	KNOWN	None	None	5103	1700	43582566	43625532	-1	None	None
HSCHR17_1	None	ENSG00000257374	ENST00000547334	protein_coding	KNOWN	None	None	4908	1635	43582566	43625532	-1	None	None
18	WDR7-UA1	ENSG00000267225	ENST00000592032	3prime_overlapping_ncrna	KNOWN	None	45131	None	None	54695063	54706076	1	WDR7-UA1	None
15	None	ENSG00000259563	ENST00000561324	antisense	KNOWN	None	None	None	None	44808848	44809681	-1	None	None
16	None	ENSG00000267077	ENST00000592465	antisense	KNOWN	None	None	None	None	4845266	4846533	-1	None	None
14	TRAV1-1	ENSG00000255569	ENST00000542354	TR_V_gene	KNOWN	None	12101	326	107	22089991	22090720	1	None	TRAV11, TCRAV1S1, TCRAV7S1
2	RNU6-1132P	ENSG00000239108	ENST00000459214	snRNA	KNOWN	None	48095	None	None	132909816	132909922	-1	None	None
12	LINC00939	ENSG00000249267	ENST00000545784	lincRNA	KNOWN	None	48631	None	None	126443234	126467920	-1	None	None
12	LINC00939	ENSG00000249267	ENST00000507313	lincRNA	KNOWN	None	48631	None	None	126443236	126467919	-1	None	None
12	LINC00939	ENSG00000249267	ENST00000502479	lincRNA	KNOWN	None	48631	None	None	126443248	126464994	-1	None	None
HSCHR6_MHC_QBL	None	ENSG00000265278	ENST00000583872	misc_RNA	NOVEL	None	None	None	None	31621311	31621424	1	None	None
2	RNA5-8SP5	ENSG00000202174	ENST00000365304	rRNA	KNOWN	None	41959	None	None	133010727	133010878	-1	RN5-8S5	None
14	None	ENSG00000258602	ENST00000553613	lincRNA	KNOWN	None	None	None	None	77425981	77432145	1	None	None
18	LINC-ROR	ENSG00000258609	ENST00000553704	lincRNA	KNOWN	None	43773	None	None	54721813	54739350	-1	None	lincRNA-RoR, lincRNA-ST8SIA3
2	MIR663B	ENSG00000221288	ENST00000408361	miRNA	KNOWN	None	35270	None	None	133014539	133014653	-1	MIRN663B	hsa-mir-663b
HG1304_PATCH	TUBE1	ENSG00000264528	ENST00000368658	protein_coding	KNOWN	None	20775	1428	475	112391980	112408716	-1	None	dJ142L7.2, FLJ22589, TUBE
HG1304_PATCH	TUBE1	ENSG00000264528	ENST00000603650	processed_transcript	KNOWN	None	20775	None	None	112392468	112406897	-1	None	dJ142L7.2, FLJ22589, TUBE
HG1304_PATCH	TUBE1	ENSG00000264528	ENST00000605690	nonsense_mediated_decay	KNOWN	None	20775	663	220	112392532	112408712	-1	None	dJ142L7.2, FLJ22589, TUBE
HG1304_PATCH	TUBE1	ENSG00000264528	ENST00000603995	retained_intron	KNOWN	None	20775	None	None	112393985	112396354	-1	None	dJ142L7.2, FLJ22589, TUBE
HG1304_PATCH	TUBE1	ENSG00000264528	ENST00000604688	nonsense_mediated_decay	KNOWN	None	20775	162	53	112395913	112408701	-1	None	dJ142L7.2, FLJ22589, TUBE
HG1304_PATCH	TUBE1	ENSG00000264528	ENST00000604844	retained_intron	KNOWN	None	20775	None	None	112396288	112399897	-1	None	dJ142L7.2, FLJ22589, TUBE
HG1304_PATCH	TUBE1	ENSG00000264528	ENST00000584399	processed_transcript	KNOWN	None	20775	None	None	112397202	112406904	-1	None	dJ142L7.2, FLJ22589, TUBE
HG1304_PATCH	TUBE1	ENSG00000264528	ENST00000604406	nonsense_mediated_decay	KNOWN	None	20775	165	54	112397638	112408669	-1	None	dJ142L7.2, FLJ22589, TUBE
HG1304_PATCH	TUBE1	ENSG00000264528	ENST00000581167	retained_intron	KNOWN	None	20775	None	None	112400603	112408682	-1	None	dJ142L7.2, FLJ22589, TUBE
HG1304_PATCH	TUBE1	ENSG00000264528	ENST00000603550	retained_intron	KNOWN	None	20775	None	None	112405119	112408701	-1	None	dJ142L7.2, FLJ22589, TUBE
HG1304_PATCH	TUBE1	ENSG00000264528	ENST00000605545	retained_intron	KNOWN	None	20775	None	None	112408017	112408732	-1	None	dJ142L7.2, FLJ22589, TUBE
HSCHR6_MHC_QBL	None	ENSG00000257575	ENST00000550310	pseudogene	NOVEL	None	None	None	None	31630519	31630764	1	None	None
15	GOLGA6L6	ENSG00000215405	ENST00000427390	protein_coding	KNOWN	CCDS45184	37225	2253	750	20737094	20747114	-1	None	FLJ36131
2	CDC27P1	ENSG00000233786	ENST00000445384	processed_pseudogene	KNOWN	None	38091	None	None	133019901	133020615	1	None	None
19	KIR2DL4	ENSG00000189013	ENST00000359085	protein_coding	PUTATIVE	CCDS42620	6332	822	273	55315066	55325972	1	None	103AS, 15.212, CD158D
19	KIR2DL4	ENSG00000189013	ENST00000486965	processed_transcript	KNOWN	None	6332	None	None	55315095	55325972	1	None	103AS, 15.212, CD158D
19	KIR2DL4	ENSG00000189013	ENST00000345540	protein_coding	KNOWN	CCDS42619	6332	1029	342	55315095	55325972	1	None	103AS, 15.212, CD158D
19	KIR2DL4	ENSG00000189013	ENST00000357494	protein_coding	KNOWN	None	6332	978	325	55315095	55325972	1	None	103AS, 15.212, CD158D
19	KIR2DL4	ENSG00000189013	ENST00000463062	processed_transcript	KNOWN	None	6332	None	None	55315095	55325972	1	None	103AS, 15.212, CD158D
19	KIR2DL4	ENSG00000189013	ENST00000396293	protein_coding	KNOWN	None	6332	693	230	55315096	55325577	1	None	103AS, 15.212, CD158D
19	KIR2DL4	ENSG00000189013	ENST00000346587	protein_coding	NOVEL	None	6332	744	247	55315107	55325848	1	None	103AS, 15.212, CD158D
19	KIR2DL4	ENSG00000189013	ENST00000396289	protein_coding	NOVEL	None	6332	1194	397	55315113	55325972	1	None	103AS, 15.212, CD158D
19	KIR2DL4	ENSG00000189013	ENST00000396284	protein_coding	KNOWN	None	6332	1194	397	55236002	55325968	1	None	103AS, 15.212, CD158D
HSCHR6_MHC_QBL	MIR4646	ENSG00000266271	ENST00000580368	miRNA	KNOWN	None	41543	None	None	31659062	31659124	-1	None	hsa-mir-4646
17	None	ENSG00000266728	ENST00000584605	nonsense_mediated_decay	KNOWN	None	None	282	93	25950390	25967803	1	None	None
17	None	ENSG00000266728	ENST00000579290	nonsense_mediated_decay	KNOWN	None	None	200	65	25950472	25967687	1	None	None
8	SLC39A4	ENSG00000147804	ENST00000527148	processed_transcript	KNOWN	None	17129	None	None	145635126	145638955	-1	AEZ	ZIP4, AWMS2
8	SLC39A4	ENSG00000147804	ENST00000529462	retained_intron	KNOWN	None	17129	None	None	145635779	145638969	-1	AEZ	ZIP4, AWMS2
8	SLC39A4	ENSG00000147804	ENST00000530807	processed_transcript	PUTATIVE	None	17129	None	None	145637798	145638953	-1	AEZ	ZIP4, AWMS2
8	SLC39A4	ENSG00000147804	ENST00000532718	processed_transcript	KNOWN	None	17129	None	None	145637798	145638970	-1	AEZ	ZIP4, AWMS2
8	SLC39A4	ENSG00000147804	ENST00000276833	protein_coding	KNOWN	CCDS43782	17129	1869	622	145637798	145641896	-1	AEZ	ZIP4, AWMS2
8	SLC39A4	ENSG00000147804	ENST00000301305	protein_coding	KNOWN	CCDS6424	17129	1944	647	145637798	145642279	-1	AEZ	ZIP4, AWMS2
8	SLC39A4	ENSG00000147804	ENST00000531013	processed_transcript	PUTATIVE	None	17129	None	None	145637799	145638975	-1	AEZ	ZIP4, AWMS2
8	SLC39A4	ENSG00000147804	ENST00000531789	processed_transcript	KNOWN	None	17129	None	None	145638724	145639465	-1	AEZ	ZIP4, AWMS2
8	SLC39A4	ENSG00000147804	ENST00000526658	protein_coding	PUTATIVE	None	17129	553	183	145640250	145642203	-1	AEZ	ZIP4, AWMS2
HSCHR6_MHC_SSTO	NFKBIL1	ENSG00000236346	ENST00000428467	protein_coding	KNOWN	None	7800	1077	358	31504594	31516550	1	NFKBIL	IKBL
HSCHR6_MHC_SSTO	NFKBIL1	ENSG00000236346	ENST00000424652	protein_coding	KNOWN	None	7800	1146	381	31505304	31516550	1	NFKBIL	IKBL
HSCHR6_MHC_SSTO	NFKBIL1	ENSG00000236346	ENST00000419623	protein_coding	KNOWN	None	7800	1101	366	31505336	31516550	1	NFKBIL	IKBL
HSCHR6_MHC_SSTO	NFKBIL1	ENSG00000236346	ENST00000460131	nonsense_mediated_decay	KNOWN	None	7800	378	125	31505363	31515426	1	NFKBIL	IKBL
HSCHR6_MHC_SSTO	NFKBIL1	ENSG00000236346	ENST00000481660	retained_intron	KNOWN	None	7800	None	None	31505384	31515680	1	NFKBIL	IKBL
2	KHK	ENSG00000138030	ENST00000260599	protein_coding	KNOWN	CCDS1734	6315	897	298	27309615	27323619	1	None	None
2	KHK	ENSG00000138030	ENST00000260598	protein_coding	KNOWN	CCDS1735	6315	897	298	27309650	27323640	1	None	None
2	KHK	ENSG00000138030	ENST00000490823	processed_transcript	KNOWN	None	6315	None	None	27309652	27322769	1	None	None
2	KHK	ENSG00000138030	ENST00000429697	protein_coding	PUTATIVE	None	6315	837	278	27309662	27322336	1	None	None
2	KHK	ENSG00000138030	ENST00000469936	retained_intron	KNOWN	None	6315	None	None	27317066	27320436	1	None	None
2	KHK	ENSG00000138030	ENST00000464371	retained_intron	KNOWN	None	6315	None	None	27317533	27322837	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000264556	ENST00000583133	snRNA	NOVEL	None	None	None	None	31714972	31715074	-1	None	None
2	None	ENSG00000230803	ENST00000440802	lincRNA	KNOWN	None	None	None	None	133043368	133051950	-1	None	None
HSCHR6_MHC_QBL	None	ENSG00000265732	ENST00000583032	snoRNA	KNOWN	None	None	None	None	31793302	31793364	1	None	None
9	GPR107	ENSG00000148358	ENST00000372406	protein_coding	NOVEL	CCDS48041	17830	1803	600	132815705	132902443	1	None	KIAA1624, RP11-88G17, FLJ20998, LUSTR1
9	GPR107	ENSG00000148358	ENST00000347136	protein_coding	KNOWN	CCDS35162	17830	1659	552	132815705	132902443	1	None	KIAA1624, RP11-88G17, FLJ20998, LUSTR1
9	GPR107	ENSG00000148358	ENST00000493417	nonsense_mediated_decay	KNOWN	None	17830	387	128	132816200	132892303	1	None	KIAA1624, RP11-88G17, FLJ20998, LUSTR1
9	GPR107	ENSG00000148358	ENST00000462907	processed_transcript	KNOWN	None	17830	None	None	132845581	132853185	1	None	KIAA1624, RP11-88G17, FLJ20998, LUSTR1
9	GPR107	ENSG00000148358	ENST00000483935	processed_transcript	KNOWN	None	17830	None	None	132869798	132889810	1	None	KIAA1624, RP11-88G17, FLJ20998, LUSTR1
9	GPR107	ENSG00000148358	ENST00000415344	processed_transcript	KNOWN	None	17830	None	None	132891870	132895515	1	None	KIAA1624, RP11-88G17, FLJ20998, LUSTR1
9	GPR107	ENSG00000148358	ENST00000372410	protein_coding	KNOWN	CCDS48042	17830	1716	571	132815985	132902448	1	None	KIAA1624, RP11-88G17, FLJ20998, LUSTR1
11	SYTL2	ENSG00000137501	ENST00000532995	nonsense_mediated_decay	KNOWN	None	15585	303	100	85405318	85430118	-1	None	FLJ20163, FLJ21219, KIAA1597, exophilin-4, CHR11SYT, SLP2, SGA72M, MGC102768
11	SYTL2	ENSG00000137501	ENST00000354566	protein_coding	KNOWN	CCDS31651	15585	3819	1272	85405318	85437511	-1	None	FLJ20163, FLJ21219, KIAA1597, exophilin-4, CHR11SYT, SLP2, SGA72M, MGC102768
11	SYTL2	ENSG00000137501	ENST00000316356	protein_coding	KNOWN	CCDS53689	15585	2808	935	85405318	85522172	-1	None	FLJ20163, FLJ21219, KIAA1597, exophilin-4, CHR11SYT, SLP2, SGA72M, MGC102768
11	SYTL2	ENSG00000137501	ENST00000525702	protein_coding	KNOWN	CCDS31652	15585	1131	376	85405331	85426180	-1	None	FLJ20163, FLJ21219, KIAA1597, exophilin-4, CHR11SYT, SLP2, SGA72M, MGC102768
11	SYTL2	ENSG00000137501	ENST00000525423	protein_coding	KNOWN	CCDS31650	15585	3771	1256	85405331	85439071	-1	None	FLJ20163, FLJ21219, KIAA1597, exophilin-4, CHR11SYT, SLP2, SGA72M, MGC102768
11	SYTL2	ENSG00000137501	ENST00000389959	nonsense_mediated_decay	KNOWN	None	15585	2589	862	85405334	85437511	-1	None	FLJ20163, FLJ21219, KIAA1597, exophilin-4, CHR11SYT, SLP2, SGA72M, MGC102768
11	SYTL2	ENSG00000137501	ENST00000529581	protein_coding	KNOWN	CCDS31652	15585	1131	376	85405769	85430181	-1	None	FLJ20163, FLJ21219, KIAA1597, exophilin-4, CHR11SYT, SLP2, SGA72M, MGC102768
11	SYTL2	ENSG00000137501	ENST00000389958	protein_coding	KNOWN	CCDS41698	15585	1098	365	85405769	85430211	-1	None	FLJ20163, FLJ21219, KIAA1597, exophilin-4, CHR11SYT, SLP2, SGA72M, MGC102768
11	SYTL2	ENSG00000137501	ENST00000530351	protein_coding	NOVEL	None	15585	1956	651	85405769	85435756	-1	None	FLJ20163, FLJ21219, KIAA1597, exophilin-4, CHR11SYT, SLP2, SGA72M, MGC102768
11	SYTL2	ENSG00000137501	ENST00000528231	protein_coding	KNOWN	CCDS53688	15585	2805	934	85405785	85469046	-1	None	FLJ20163, FLJ21219, KIAA1597, exophilin-4, CHR11SYT, SLP2, SGA72M, MGC102768
11	SYTL2	ENSG00000137501	ENST00000531496	retained_intron	KNOWN	None	15585	None	None	85405857	85411666	-1	None	FLJ20163, FLJ21219, KIAA1597, exophilin-4, CHR11SYT, SLP2, SGA72M, MGC102768
11	SYTL2	ENSG00000137501	ENST00000525692	retained_intron	KNOWN	None	15585	None	None	85406039	85407537	-1	None	FLJ20163, FLJ21219, KIAA1597, exophilin-4, CHR11SYT, SLP2, SGA72M, MGC102768
11	SYTL2	ENSG00000137501	ENST00000533892	protein_coding	KNOWN	CCDS53687	15585	1011	336	85406078	85430141	-1	None	FLJ20163, FLJ21219, KIAA1597, exophilin-4, CHR11SYT, SLP2, SGA72M, MGC102768
11	SYTL2	ENSG00000137501	ENST00000527523	protein_coding	KNOWN	None	15585	2709	902	85406129	85522184	-1	None	FLJ20163, FLJ21219, KIAA1597, exophilin-4, CHR11SYT, SLP2, SGA72M, MGC102768
11	SYTL2	ENSG00000137501	ENST00000524452	protein_coding	NOVEL	CCDS31649	15585	2733	910	85406238	85468768	-1	None	FLJ20163, FLJ21219, KIAA1597, exophilin-4, CHR11SYT, SLP2, SGA72M, MGC102768
11	SYTL2	ENSG00000137501	ENST00000529662	retained_intron	KNOWN	None	15585	None	None	85407226	85416298	-1	None	FLJ20163, FLJ21219, KIAA1597, exophilin-4, CHR11SYT, SLP2, SGA72M, MGC102768
11	SYTL2	ENSG00000137501	ENST00000533057	protein_coding	PUTATIVE	None	15585	373	123	85415900	85430125	-1	None	FLJ20163, FLJ21219, KIAA1597, exophilin-4, CHR11SYT, SLP2, SGA72M, MGC102768
11	SYTL2	ENSG00000137501	ENST00000527794	protein_coding	KNOWN	None	15585	480	159	85415901	85430271	-1	None	FLJ20163, FLJ21219, KIAA1597, exophilin-4, CHR11SYT, SLP2, SGA72M, MGC102768
11	SYTL2	ENSG00000137501	ENST00000529534	protein_coding	KNOWN	None	15585	466	154	85416035	85429463	-1	None	FLJ20163, FLJ21219, KIAA1597, exophilin-4, CHR11SYT, SLP2, SGA72M, MGC102768
11	SYTL2	ENSG00000137501	ENST00000530894	processed_transcript	PUTATIVE	None	15585	None	None	85420367	85430099	-1	None	FLJ20163, FLJ21219, KIAA1597, exophilin-4, CHR11SYT, SLP2, SGA72M, MGC102768
11	SYTL2	ENSG00000137501	ENST00000526999	protein_coding	KNOWN	None	15585	310	102	85420390	85430420	-1	None	FLJ20163, FLJ21219, KIAA1597, exophilin-4, CHR11SYT, SLP2, SGA72M, MGC102768
11	SYTL2	ENSG00000137501	ENST00000532221	protein_coding	KNOWN	None	15585	209	68	85420491	85427704	-1	None	FLJ20163, FLJ21219, KIAA1597, exophilin-4, CHR11SYT, SLP2, SGA72M, MGC102768
11	SYTL2	ENSG00000137501	ENST00000524911	protein_coding	KNOWN	None	15585	190	62	85420510	85429531	-1	None	FLJ20163, FLJ21219, KIAA1597, exophilin-4, CHR11SYT, SLP2, SGA72M, MGC102768
11	SYTL2	ENSG00000137501	ENST00000533577	protein_coding	PUTATIVE	None	15585	21	6	85425471	85430193	-1	None	FLJ20163, FLJ21219, KIAA1597, exophilin-4, CHR11SYT, SLP2, SGA72M, MGC102768
11	SYTL2	ENSG00000137501	ENST00000534554	processed_transcript	KNOWN	None	15585	None	None	85425479	85430223	-1	None	FLJ20163, FLJ21219, KIAA1597, exophilin-4, CHR11SYT, SLP2, SGA72M, MGC102768
11	SYTL2	ENSG00000137501	ENST00000528566	processed_transcript	KNOWN	None	15585	None	None	85425522	85430211	-1	None	FLJ20163, FLJ21219, KIAA1597, exophilin-4, CHR11SYT, SLP2, SGA72M, MGC102768
11	SYTL2	ENSG00000137501	ENST00000438197	retained_intron	KNOWN	None	15585	None	None	85444638	85468788	-1	None	FLJ20163, FLJ21219, KIAA1597, exophilin-4, CHR11SYT, SLP2, SGA72M, MGC102768
11	SYTL2	ENSG00000137501	ENST00000524830	processed_transcript	PUTATIVE	None	15585	None	None	85468803	85522183	-1	None	FLJ20163, FLJ21219, KIAA1597, exophilin-4, CHR11SYT, SLP2, SGA72M, MGC102768
11	SYTL2	ENSG00000137501	ENST00000389960	protein_coding	KNOWN	CCDS31649	15585	2733	910	85405267	85522178	-1	None	FLJ20163, FLJ21219, KIAA1597, exophilin-4, CHR11SYT, SLP2, SGA72M, MGC102768
11	SYTL2	ENSG00000137501	ENST00000359152	protein_coding	KNOWN	None	15585	5343	1780	85405267	85439071	-1	None	FLJ20163, FLJ21219, KIAA1597, exophilin-4, CHR11SYT, SLP2, SGA72M, MGC102768
HSCHR6_MHC_QBL	None	ENSG00000265156	ENST00000579069	snoRNA	KNOWN	None	None	None	None	31795112	31795178	1	None	None
5	MIR3655	ENSG00000264052	ENST00000581765	miRNA	KNOWN	None	38960	None	None	140027429	140027511	1	None	hsa-mir-3655
HSCHR6_MHC_QBL	None	ENSG00000231869	ENST00000454059	processed_transcript	PUTATIVE	None	None	None	None	31841932	31842225	1	None	None
1	None	ENSG00000231510	ENST00000443270	lincRNA	PUTATIVE	None	None	None	None	5146519	5150959	-1	None	None
16	None	ENSG00000188477	ENST00000468219	sense_intronic	KNOWN	None	None	None	None	19316203	19322269	1	None	None
10	PNLIPRP3	ENSG00000203837	ENST00000369230	protein_coding	KNOWN	CCDS31292	23492	1404	467	118187379	118237469	1	None	None
2	ZNF806	ENSG00000018607	ENST00000438300	unprocessed_pseudogene	KNOWN	None	33228	None	None	133066882	133076309	1	None	None
2	ZNF806	ENSG00000018607	ENST00000424130	unprocessed_pseudogene	KNOWN	None	33228	None	None	133066882	133076309	1	None	None
1	SDHC	ENSG00000143252	ENST00000367975	protein_coding	KNOWN	CCDS1230	10682	510	169	161284047	161332984	1	PGL3	None
1	SDHC	ENSG00000143252	ENST00000515731	processed_transcript	KNOWN	None	10682	None	None	161284171	161298285	1	PGL3	None
1	SDHC	ENSG00000143252	ENST00000342751	protein_coding	KNOWN	CCDS41431	10682	453	150	161284171	161332979	1	PGL3	None
1	SDHC	ENSG00000143252	ENST00000432287	protein_coding	KNOWN	CCDS44263	10682	408	135	161284172	161332251	1	PGL3	None
1	SDHC	ENSG00000143252	ENST00000392169	protein_coding	KNOWN	CCDS41432	10682	351	116	161284178	161332223	1	PGL3	None
1	SDHC	ENSG00000143252	ENST00000513009	protein_coding	NOVEL	None	10682	351	116	161284178	161332330	1	PGL3	None
1	SDHC	ENSG00000143252	ENST00000504963	nonsense_mediated_decay	KNOWN	None	10682	204	67	161284181	161332242	1	PGL3	None
1	SDHC	ENSG00000143252	ENST00000470743	processed_transcript	KNOWN	None	10682	None	None	161293404	161332447	1	PGL3	None
1	SDHC	ENSG00000143252	ENST00000513700	processed_transcript	KNOWN	None	10682	None	None	161298192	161332977	1	PGL3	None
HSCHR6_MHC_QBL	C4B-AS1	ENSG00000235250	ENST00000428890	processed_transcript	PUTATIVE	None	39752	None	None	31892622	31899887	-1	None	None
14	C14orf178	ENSG00000197734	ENST00000355883	protein_coding	KNOWN	CCDS9868	26385	369	122	78227177	78236085	1	None	FLJ25976
14	C14orf178	ENSG00000197734	ENST00000557011	protein_coding	PUTATIVE	None	26385	75	24	78227317	78236071	1	None	FLJ25976
14	C14orf178	ENSG00000197734	ENST00000556047	protein_coding	KNOWN	None	26385	114	37	78227317	78236071	1	None	FLJ25976
14	C14orf178	ENSG00000197734	ENST00000439131	protein_coding	KNOWN	CCDS53906	26385	279	92	78227173	78236085	1	None	FLJ25976
19	None	ENSG00000258674	ENST00000555938	protein_coding	PUTATIVE	None	None	822	273	19627036	19646885	1	None	None
19	None	ENSG00000258674	ENST00000586674	processed_transcript	KNOWN	None	None	None	None	19627038	19644285	1	None	None
19	None	ENSG00000258674	ENST00000512771	nonsense_mediated_decay	KNOWN	None	None	162	53	19627053	19643453	1	None	None
19	None	ENSG00000258674	ENST00000606722	nonsense_mediated_decay	KNOWN	None	None	93	30	19627070	19639004	1	None	None
22	MAFF	ENSG00000185022	ENST00000338483	protein_coding	KNOWN	CCDS13968	6780	495	164	38597889	38612518	1	None	hMafF
22	MAFF	ENSG00000185022	ENST00000441709	protein_coding	PUTATIVE	None	6780	280	92	38598003	38610757	1	None	hMafF
22	MAFF	ENSG00000185022	ENST00000417948	protein_coding	KNOWN	None	6780	377	124	38598803	38610767	1	None	hMafF
22	MAFF	ENSG00000185022	ENST00000407965	protein_coding	KNOWN	CCDS13968	6780	495	164	38609542	38612512	1	None	hMafF
22	MAFF	ENSG00000185022	ENST00000538320	protein_coding	KNOWN	CCDS13968	6780	495	164	38597939	38612510	1	None	hMafF
22	MAFF	ENSG00000185022	ENST00000426621	protein_coding	KNOWN	CCDS13968	6780	495	164	38599027	38612510	1	None	hMafF
22	MAFF	ENSG00000185022	ENST00000538999	protein_coding	KNOWN	CCDS54528	6780	408	135	38597939	38612510	1	None	hMafF
5	VTRNA1-1	ENSG00000199990	ENST00000363120	misc_RNA	KNOWN	None	12654	None	None	140090860	140090958	1	VAULTRC1	vtRNA1-1, hvg-1, HVG1, vRNA, VR1
17	MFSD6L	ENSG00000185156	ENST00000329805	protein_coding	KNOWN	CCDS11146	26656	1761	586	8700436	8702667	-1	None	FLJ35773
14	OR10G2	ENSG00000255582	ENST00000542433	protein_coding	KNOWN	CCDS32047	8170	933	310	22101992	22103096	-1	None	None
9	NR4A3	ENSG00000119508	ENST00000338488	protein_coding	KNOWN	CCDS6744	7982	1332	443	102584137	102596341	1	None	CSMF, CHN, NOR1, MINOR
9	NR4A3	ENSG00000119508	ENST00000395097	protein_coding	KNOWN	CCDS6743	7982	1881	626	102584137	102627333	1	None	CSMF, CHN, NOR1, MINOR
9	NR4A3	ENSG00000119508	ENST00000330847	protein_coding	KNOWN	CCDS6742	7982	1914	637	102589009	102629173	1	None	CSMF, CHN, NOR1, MINOR
16	WFDC1	ENSG00000103175	ENST00000219454	protein_coding	KNOWN	CCDS10946	15466	663	220	84328252	84363450	1	None	PS20
16	WFDC1	ENSG00000103175	ENST00000568638	protein_coding	KNOWN	CCDS10946	15466	663	220	84328452	84363446	1	None	PS20
16	WFDC1	ENSG00000103175	ENST00000567056	retained_intron	KNOWN	None	15466	None	None	84349663	84363448	1	None	PS20
HSCHR6_MHC_QBL	None	ENSG00000264258	ENST00000581145	miRNA	KNOWN	None	None	None	None	31915008	31915109	-1	None	None
11	LDHAL6A	ENSG00000166800	ENST00000396213	protein_coding	KNOWN	CCDS7841	28335	999	332	18477371	18500870	1	None	MGC23940, LDH6A
11	LDHAL6A	ENSG00000166800	ENST00000280706	protein_coding	KNOWN	CCDS7841	28335	999	332	18477431	18501147	1	None	MGC23940, LDH6A
Y	FAM197Y1	ENSG00000224336	ENST00000421178	protein_coding	KNOWN	None	37464	777	258	9374241	9384693	-1	None	None
HSCHR6_MHC_QBL	C4A-AS1	ENSG00000230075	ENST00000418856	processed_transcript	PUTATIVE	None	39753	None	None	31958163	31961692	-1	None	None
3	OR5K2	ENSG00000231861	ENST00000427338	protein_coding	KNOWN	CCDS33804	14774	951	316	98216448	98217496	1	None	None
22	ZNF402P	ENSG00000220248	ENST00000404435	processed_pseudogene	KNOWN	None	19292	None	None	17338509	17341608	-1	None	None
2	FAM201B	ENSG00000230992	ENST00000458407	processed_pseudogene	KNOWN	None	27933	None	None	133110295	133110891	1	None	None
2	FAM201B	ENSG00000230992	ENST00000545408	processed_pseudogene	KNOWN	None	27933	None	None	133110240	133112412	1	None	None
22	None	ENSG00000237689	ENST00000442403	lincRNA	KNOWN	None	None	None	None	17350368	17352016	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000266035	ENST00000579922	rRNA	NOVEL	None	None	None	None	32003912	32004032	-1	None	None
8	None	ENSG00000248858	ENST00000521230	antisense	KNOWN	None	None	None	None	93711970	93770770	-1	None	None
8	None	ENSG00000248858	ENST00000521148	antisense	KNOWN	None	None	None	None	93711978	93777806	-1	None	None
8	None	ENSG00000248858	ENST00000504861	antisense	KNOWN	None	None	None	None	93725190	93889865	-1	None	None
5	VTRNA1-2	ENSG00000202111	ENST00000365241	misc_RNA	KNOWN	None	12655	None	None	140098510	140098598	1	VAULTRC2	vtRNA1-2, hvg-2, HVG2, VR2
HSCHR6_MHC_QBL	None	ENSG00000257661	ENST00000552549	pseudogene	NOVEL	None	None	None	None	32171956	32172096	-1	None	None
5	RPS17P2	ENSG00000197575	ENST00000461663	processed_pseudogene	KNOWN	None	10398	None	None	116051939	116052346	1	RPS17L1, RPS17A	None
5	RPS17P2	ENSG00000197575	ENST00000359659	processed_pseudogene	KNOWN	None	10398	None	None	116051929	116052387	1	RPS17L1, RPS17A	None
22	MTND1P17	ENSG00000228122	ENST00000448961	processed_pseudogene	KNOWN	None	42095	None	None	17357108	17357311	-1	None	None
2	RNU6-175P	ENSG00000252705	ENST00000516896	snRNA	KNOWN	None	47138	None	None	133164325	133164431	-1	None	None
16	None	ENSG00000259871	ENST00000565085	sense_intronic	KNOWN	None	None	None	None	19326486	19327848	1	None	None
2	YBX1P7	ENSG00000232349	ENST00000436766	processed_pseudogene	KNOWN	None	42428	None	None	133246127	133246661	-1	None	None
HSCHR6_MHC_QBL	None	ENSG00000257536	ENST00000550193	pseudogene	NOVEL	None	None	None	None	32191853	32192020	1	None	None
2	RN7SKP103	ENSG00000200718	ENST00000363848	misc_RNA	KNOWN	None	45827	None	None	133281190	133281509	1	None	None
15	None	ENSG00000268343	ENST00000595502	protein_coding	NOVEL	None	None	681	226	21004687	21005367	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000258008	ENST00000546366	pseudogene	NOVEL	None	None	None	None	32240867	32241016	1	None	None
2	None	ENSG00000221142	ENST00000408215	miRNA	NOVEL	None	None	None	None	133281558	133281665	1	None	None
20	None	ENSG00000254620	ENST00000525424	lincRNA	KNOWN	None	None	None	None	57169473	57179029	1	None	None
2	None	ENSG00000230065	ENST00000450509	antisense	KNOWN	None	None	None	None	133418099	133424563	1	None	None
1	None	ENSG00000260972	ENST00000564261	lincRNA	KNOWN	None	None	None	None	5553038	5554734	1	None	None
14	IGHVIII-67-4	ENSG00000254052	ENST00000524281	IG_V_pseudogene	KNOWN	None	5707	None	None	107151119	107151414	-1	None	IGHV(III)-67-4
HSCHR6_MHC_QBL	HNRNPA1P2	ENSG00000235171	ENST00000436809	processed_pseudogene	KNOWN	None	13958	None	None	32250800	32251759	1	HNRPA1P2	dJ372B18.1
3	CAPN7	ENSG00000131375	ENST00000418994	nonsense_mediated_decay	KNOWN	None	1484	111	36	15247659	15259036	1	None	PalBH
3	CAPN7	ENSG00000131375	ENST00000457023	nonsense_mediated_decay	KNOWN	None	1484	129	42	15247728	15262538	1	None	PalBH
3	CAPN7	ENSG00000131375	ENST00000253693	protein_coding	KNOWN	CCDS2624	1484	2442	813	15247750	15294425	1	None	PalBH
3	CAPN7	ENSG00000131375	ENST00000415565	protein_coding	PUTATIVE	None	1484	742	246	15269457	15282102	1	None	PalBH
3	CAPN7	ENSG00000131375	ENST00000443567	nonsense_mediated_decay	KNOWN	None	1484	339	112	15282016	15292753	1	None	PalBH
3	CAPN7	ENSG00000131375	ENST00000463417	retained_intron	KNOWN	None	1484	None	None	15287394	15293809	1	None	PalBH
3	CAPN7	ENSG00000131375	ENST00000472400	retained_intron	KNOWN	None	1484	None	None	15288744	15292809	1	None	PalBH
Y	SLC9B1P1	ENSG00000183704	ENST00000331172	protein_coding	KNOWN	None	37492	894	297	13496241	13524717	-1	NHEDC1P1	None
7	None	ENSG00000222482	ENST00000410550	miRNA	NOVEL	None	None	None	None	99817650	99817743	-1	None	None
2	None	ENSG00000228721	ENST00000415916	processed_pseudogene	KNOWN	None	None	None	None	133668669	133668834	-1	None	None
8	PPP1R3B	ENSG00000173281	ENST00000310455	protein_coding	KNOWN	CCDS5973	14942	858	285	8993765	9008206	-1	None	GL, FLJ14005, PPP1R4
8	PPP1R3B	ENSG00000173281	ENST00000519699	protein_coding	KNOWN	CCDS5973	14942	858	285	8997073	9009084	-1	None	GL, FLJ14005, PPP1R4
14	IGHV1-68	ENSG00000253703	ENST00000519437	IG_V_pseudogene	KNOWN	None	5557	None	None	107159869	107160163	-1	None	None
4	RBM46	ENSG00000151962	ENST00000514866	protein_coding	PUTATIVE	None	28401	1458	485	155702365	155748537	1	None	MGC27016, CT68
4	RBM46	ENSG00000151962	ENST00000281722	protein_coding	KNOWN	CCDS3790	28401	1602	533	155702365	155749965	1	None	MGC27016, CT68
4	RBM46	ENSG00000151962	ENST00000510397	protein_coding	PUTATIVE	None	28401	1413	470	155702657	155749964	1	None	MGC27016, CT68
4	RBM46	ENSG00000151962	ENST00000512640	protein_coding	PUTATIVE	None	28401	399	132	155702969	155719210	1	None	MGC27016, CT68
2	MGAT4A	ENSG00000071073	ENST00000264968	protein_coding	KNOWN	CCDS2036	7047	1608	535	99240818	99343159	-1	None	GnT-Iva, GnT-4a
2	MGAT4A	ENSG00000071073	ENST00000409391	protein_coding	KNOWN	CCDS2036	7047	1608	535	99241968	99343295	-1	None	GnT-Iva, GnT-4a
2	MGAT4A	ENSG00000071073	ENST00000492163	processed_transcript	KNOWN	None	7047	None	None	99261919	99279936	-1	None	GnT-Iva, GnT-4a
2	MGAT4A	ENSG00000071073	ENST00000461884	processed_transcript	KNOWN	None	7047	None	None	99272325	99279936	-1	None	GnT-Iva, GnT-4a
2	MGAT4A	ENSG00000071073	ENST00000484936	processed_transcript	KNOWN	None	7047	None	None	99279541	99343344	-1	None	GnT-Iva, GnT-4a
2	MGAT4A	ENSG00000071073	ENST00000460768	processed_transcript	KNOWN	None	7047	None	None	99294884	99347556	-1	None	GnT-Iva, GnT-4a
2	MGAT4A	ENSG00000071073	ENST00000495056	protein_coding	PUTATIVE	None	7047	135	44	99342402	99346711	-1	None	GnT-Iva, GnT-4a
2	MGAT4A	ENSG00000071073	ENST00000414521	protein_coding	KNOWN	CCDS54380	7047	1272	423	99235571	99279936	-1	None	GnT-Iva, GnT-4a
2	MGAT4A	ENSG00000071073	ENST00000393487	protein_coding	KNOWN	CCDS2036	7047	1608	535	99235569	99347589	-1	None	GnT-Iva, GnT-4a
7	EZH2	ENSG00000106462	ENST00000492143	nonsense_mediated_decay	KNOWN	None	3527	1005	334	148504475	148581375	-1	None	EZH1, ENX-1, KMT6, KMT6A
7	EZH2	ENSG00000106462	ENST00000478654	protein_coding	NOVEL	CCDS56517	3527	2088	695	148504476	148581251	-1	None	EZH1, ENX-1, KMT6, KMT6A
7	EZH2	ENSG00000106462	ENST00000460911	protein_coding	KNOWN	CCDS56516	3527	2241	746	148504477	148581337	-1	None	EZH1, ENX-1, KMT6, KMT6A
7	EZH2	ENSG00000106462	ENST00000350995	protein_coding	KNOWN	CCDS5892	3527	2124	707	148504477	148581340	-1	None	EZH1, ENX-1, KMT6, KMT6A
7	EZH2	ENSG00000106462	ENST00000320356	protein_coding	KNOWN	CCDS5891	3527	2256	751	148504477	148581370	-1	None	EZH1, ENX-1, KMT6, KMT6A
7	EZH2	ENSG00000106462	ENST00000476773	protein_coding	NOVEL	CCDS56517	3527	2088	695	148504574	148580601	-1	None	EZH1, ENX-1, KMT6, KMT6A
7	EZH2	ENSG00000106462	ENST00000483967	protein_coding	NOVEL	CCDS56518	3527	2214	737	148504617	148581379	-1	None	EZH1, ENX-1, KMT6, KMT6A
7	EZH2	ENSG00000106462	ENST00000469631	retained_intron	KNOWN	None	3527	None	None	148507292	148508915	-1	None	EZH1, ENX-1, KMT6, KMT6A
7	EZH2	ENSG00000106462	ENST00000498186	retained_intron	KNOWN	None	3527	None	None	148514449	148581379	-1	None	EZH1, ENX-1, KMT6, KMT6A
7	EZH2	ENSG00000106462	ENST00000483012	nonsense_mediated_decay	KNOWN	None	3527	435	144	148515129	148581413	-1	None	EZH1, ENX-1, KMT6, KMT6A
7	EZH2	ENSG00000106462	ENST00000541220	protein_coding	KNOWN	CCDS56517	3527	2088	695	148504477	148581370	-1	None	EZH1, ENX-1, KMT6, KMT6A
7	EZH2	ENSG00000106462	ENST00000536783	protein_coding	KNOWN	None	3527	678	225	148515129	148581413	-1	None	EZH1, ENX-1, KMT6, KMT6A
HSCHR6_MHC_QBL	None	ENSG00000265920	ENST00000582197	snRNA	NOVEL	None	None	None	None	32278119	32278225	1	None	None
15	ANP32BP1	ENSG00000259790	ENST00000564205	processed_transcript	KNOWN	None	24267	None	None	75613738	75615034	-1	None	None
15	ANP32BP1	ENSG00000259790	ENST00000568553	transcribed_processed_pseudogene	KNOWN	None	24267	None	None	75614114	75614850	-1	None	None
2	None	ENSG00000233729	ENST00000424510	antisense	KNOWN	None	None	None	None	133673130	133689067	1	None	None
HSCHR6_MHC_QBL	HCG23	ENSG00000228738	ENST00000444345	processed_transcript	KNOWN	None	19713	None	None	32315749	32318924	1	None	dJ1077I5.3
19	RN7SL860P	ENSG00000240713	ENST00000473738	misc_RNA	KNOWN	None	46876	None	None	22784247	22784539	1	None	None
20	None	ENSG00000269117	ENST00000601172	protein_coding	NOVEL	None	None	297	98	31823091	31823387	1	None	None
14	IGHV3-71	ENSG00000254056	ENST00000523324	IG_V_pseudogene	KNOWN	None	5621	None	None	107183396	107183857	-1	IGHV3-G	IGHV3-g
1	MIR4417	ENSG00000264341	ENST00000579887	miRNA	KNOWN	None	41535	None	None	5624131	5624203	1	None	hsa-mir-4417
7	TRBV5-1	ENSG00000211734	ENST00000390381	TR_V_gene	KNOWN	None	12218	343	113	142020496	142021363	1	None	TRBV51, TCRBV5S1, TCRBV5S1A1T
3	PAK2	ENSG00000180370	ENST00000327134	protein_coding	KNOWN	CCDS3321	8591	1575	524	196466728	196559518	1	None	PAK65, PAKgamma
3	PAK2	ENSG00000180370	ENST00000481344	retained_intron	KNOWN	None	8591	None	None	196533450	196534915	1	None	PAK65, PAKgamma
3	PAK2	ENSG00000180370	ENST00000426668	protein_coding	NOVEL	None	8591	665	220	196539089	196555300	1	None	PAK65, PAKgamma
9	CA9	ENSG00000107159	ENST00000378357	protein_coding	KNOWN	CCDS6585	1383	1380	459	35673853	35681156	1	None	MN, CAIX
9	CA9	ENSG00000107159	ENST00000493245	processed_transcript	KNOWN	None	1383	None	None	35676160	35681135	1	None	MN, CAIX
9	CA9	ENSG00000107159	ENST00000485665	processed_transcript	KNOWN	None	1383	None	None	35680698	35681156	1	None	MN, CAIX
HSCHR6_MHC_QBL	HLA-DRB9	ENSG00000226035	ENST00000426986	unprocessed_pseudogene	KNOWN	None	4957	None	None	32385108	32398790	-1	HLA-DRB1L, HLA-DR1BL	D6S206, D6S206E
5	DHX29	ENSG00000067248	ENST00000251636	protein_coding	KNOWN	CCDS34158	15815	4110	1369	54552073	54603550	-1	DDX29	None
5	DHX29	ENSG00000067248	ENST00000504778	retained_intron	KNOWN	None	15815	None	None	54552077	54603522	-1	DDX29	None
5	DHX29	ENSG00000067248	ENST00000513447	retained_intron	KNOWN	None	15815	None	None	54566272	54572188	-1	DDX29	None
5	DHX29	ENSG00000067248	ENST00000508346	protein_coding	NOVEL	None	15815	479	158	54591272	54603368	-1	DDX29	None
10	MRPS16	ENSG00000182180	ENST00000479005	processed_transcript	KNOWN	None	14048	None	None	75008601	75012383	-1	None	CGI-132
10	MRPS16	ENSG00000182180	ENST00000372945	protein_coding	KNOWN	CCDS7323	14048	414	137	75008601	75012451	-1	None	CGI-132
10	MRPS16	ENSG00000182180	ENST00000372940	protein_coding	KNOWN	None	14048	300	99	75008696	75012451	-1	None	CGI-132
10	MRPS16	ENSG00000182180	ENST00000471251	processed_transcript	KNOWN	None	14048	None	None	75010499	75012162	-1	None	CGI-132
10	MRPS16	ENSG00000182180	ENST00000473427	processed_transcript	KNOWN	None	14048	None	None	75010502	75012392	-1	None	CGI-132
10	MRPS16	ENSG00000182180	ENST00000416782	protein_coding	KNOWN	None	14048	372	123	75006510	75012390	-1	None	CGI-132
HSCHR6_MHC_QBL	None	ENSG00000266884	ENST00000580213	snRNA	NOVEL	None	None	None	None	32414984	32415132	-1	None	None
8	None	ENSG00000254020	ENST00000518861	lincRNA	KNOWN	None	None	None	None	93735252	93737339	-1	None	None
2	None	ENSG00000226953	ENST00000454699	antisense	KNOWN	None	None	None	None	134022540	134026582	1	None	None
2	None	ENSG00000226953	ENST00000432414	antisense	KNOWN	None	None	None	None	134023767	134042334	1	None	None
2	None	ENSG00000226953	ENST00000606428	antisense	KNOWN	None	None	None	None	134023814	134026613	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000264389	ENST00000582426	snRNA	NOVEL	None	None	None	None	32452834	32452980	-1	None	None
14	IGHVII-74-1	ENSG00000254134	ENST00000517572	IG_V_pseudogene	KNOWN	None	5690	None	None	107229405	107229645	-1	None	IGHV(II)-74-1
19	None	ENSG00000221790	ENST00000408863	miRNA	NOVEL	None	None	None	None	22785508	22785590	1	None	None
8	None	ENSG00000253103	ENST00000519506	lincRNA	KNOWN	None	None	None	None	112111190	112248400	-1	None	None
8	None	ENSG00000253103	ENST00000522778	lincRNA	KNOWN	None	None	None	None	112195521	112248432	-1	None	None
22	MTND1P10	ENSG00000229088	ENST00000426108	processed_pseudogene	KNOWN	None	42097	None	None	36574602	36575433	1	None	None
15	MIR631	ENSG00000207636	ENST00000384904	miRNA	KNOWN	None	32887	None	None	75645952	75646026	-1	MIRN631	hsa-mir-631
HSCHR6_MHC_QBL	HLA-DRB2	ENSG00000227442	ENST00000419200	unprocessed_pseudogene	KNOWN	None	4950	None	None	32456257	32470744	-1	HLA-DR2B	None
18	None	ENSG00000267789	ENST00000590942	lincRNA	KNOWN	None	None	None	None	54803553	54814229	-1	None	None
19	None	ENSG00000268823	ENST00000599738	lincRNA	KNOWN	None	None	None	None	22786071	22791303	1	None	None
19	None	ENSG00000268823	ENST00000598658	lincRNA	KNOWN	None	None	None	None	22789977	22790804	1	None	None
8	None	ENSG00000253577	ENST00000521317	lincRNA	KNOWN	None	None	None	None	93777930	93788679	1	None	None
18	None	ENSG00000267726	ENST00000592678	lincRNA	KNOWN	None	None	None	None	54836846	54838425	-1	None	None
X	GPR34	ENSG00000171659	ENST00000378142	protein_coding	KNOWN	CCDS14258	4490	1146	381	41548226	41556526	1	None	None
X	GPR34	ENSG00000171659	ENST00000378138	protein_coding	KNOWN	CCDS14258	4490	1146	381	41548259	41556526	1	None	None
1	None	ENSG00000236948	ENST00000413887	lincRNA	KNOWN	None	None	None	None	5647428	5728355	-1	None	None
18	RNU6-737P	ENSG00000202240	ENST00000365370	snRNA	KNOWN	None	47700	None	None	54951833	54951939	-1	None	None
22	None	ENSG00000237358	ENST00000412238	processed_pseudogene	KNOWN	None	None	None	None	17357442	17357792	-1	None	None
18	None	ENSG00000266636	ENST00000581316	miRNA	NOVEL	None	None	None	None	55103053	55103112	1	None	None
14	IGHV3-75	ENSG00000254176	ENST00000523951	IG_V_pseudogene	KNOWN	None	5625	None	None	107231917	107232377	-1	None	None
15	RN7SL256P	ENSG00000241500	ENST00000461297	misc_RNA	KNOWN	None	46272	None	None	82969419	82969698	1	None	None
7	TRBV6-1	ENSG00000211706	ENST00000390353	TR_V_gene	KNOWN	None	12226	344	113	142028121	142028610	1	None	TRBV61, TCRBV13S3, TCRBV6S1
15	None	ENSG00000221177	ENST00000408250	miRNA	NOVEL	None	None	None	None	82970531	82970614	1	None	None
18	None	ENSG00000267040	ENST00000591854	antisense	KNOWN	None	None	None	None	55297534	55334868	1	None	None
18	None	ENSG00000267040	ENST00000592201	antisense	KNOWN	None	None	None	None	55297582	55336528	1	None	None
18	None	ENSG00000267040	ENST00000599199	antisense	KNOWN	None	None	None	None	55306687	55405276	1	None	None
8	None	ENSG00000253489	ENST00000522330	lincRNA	KNOWN	None	None	None	None	112191422	112192101	-1	None	None
2	SRSF7	ENSG00000115875	ENST00000313117	protein_coding	KNOWN	CCDS33183	10789	717	238	38970741	38978636	-1	SFRS7	9G8, ZCRB2, HSSG1, AAG3, RBM37, ZCCHC20
2	SRSF7	ENSG00000115875	ENST00000425778	nonsense_mediated_decay	KNOWN	None	10789	414	137	38970743	38978557	-1	SFRS7	9G8, ZCRB2, HSSG1, AAG3, RBM37, ZCCHC20
2	SRSF7	ENSG00000115875	ENST00000425941	nonsense_mediated_decay	KNOWN	None	10789	414	137	38971595	38978505	-1	SFRS7	9G8, ZCRB2, HSSG1, AAG3, RBM37, ZCCHC20
2	SRSF7	ENSG00000115875	ENST00000452806	protein_coding	NOVEL	None	10789	331	109	38971859	38976706	-1	SFRS7	9G8, ZCRB2, HSSG1, AAG3, RBM37, ZCCHC20
2	SRSF7	ENSG00000115875	ENST00000432873	nonsense_mediated_decay	KNOWN	None	10789	213	70	38972035	38975758	-1	SFRS7	9G8, ZCRB2, HSSG1, AAG3, RBM37, ZCCHC20
2	SRSF7	ENSG00000115875	ENST00000409276	protein_coding	NOVEL	None	10789	708	235	38972035	38978500	-1	SFRS7	9G8, ZCRB2, HSSG1, AAG3, RBM37, ZCCHC20
2	SRSF7	ENSG00000115875	ENST00000477635	retained_intron	KNOWN	None	10789	None	None	38972037	38974186	-1	SFRS7	9G8, ZCRB2, HSSG1, AAG3, RBM37, ZCCHC20
2	SRSF7	ENSG00000115875	ENST00000431066	nonsense_mediated_decay	KNOWN	None	10789	399	132	38972037	38978424	-1	SFRS7	9G8, ZCRB2, HSSG1, AAG3, RBM37, ZCCHC20
2	SRSF7	ENSG00000115875	ENST00000443213	nonsense_mediated_decay	KNOWN	None	10789	399	132	38972060	38978494	-1	SFRS7	9G8, ZCRB2, HSSG1, AAG3, RBM37, ZCCHC20
2	SRSF7	ENSG00000115875	ENST00000487773	retained_intron	KNOWN	None	10789	None	None	38972195	38976054	-1	SFRS7	9G8, ZCRB2, HSSG1, AAG3, RBM37, ZCCHC20
2	SRSF7	ENSG00000115875	ENST00000415527	nonsense_mediated_decay	KNOWN	None	10789	156	51	38975189	38978280	-1	SFRS7	9G8, ZCRB2, HSSG1, AAG3, RBM37, ZCCHC20
2	SRSF7	ENSG00000115875	ENST00000446327	protein_coding	KNOWN	CCDS56115	10789	681	226	38971892	38978503	-1	SFRS7	9G8, ZCRB2, HSSG1, AAG3, RBM37, ZCCHC20
19	None	ENSG00000269025	ENST00000594891	transcribed_processed_pseudogene	KNOWN	None	None	None	None	22788541	22791013	1	None	None
2	RNU6-579P	ENSG00000252688	ENST00000516879	snRNA	KNOWN	None	47542	None	None	134091401	134091502	1	None	None
15	None	ENSG00000260591	ENST00000563660	lincRNA	KNOWN	None	None	None	None	75647551	75648087	-1	None	None
HSCHR6_MHC_QBL	None	ENSG00000266689	ENST00000581688	snRNA	NOVEL	None	None	None	None	32478740	32478886	-1	None	None
2	RN7SKP154	ENSG00000222068	ENST00000410136	misc_RNA	KNOWN	None	45878	None	None	134148681	134148970	-1	None	None
15	None	ENSG00000259323	ENST00000558275	unprocessed_pseudogene	KNOWN	None	None	None	None	82975314	82975537	-1	None	None
HSCHR6_MHC_QBL	HLA-DQB1-AS1	ENSG00000233744	ENST00000424935	processed_transcript	PUTATIVE	None	39762	None	None	32555985	32556833	1	None	None
9	RALGDS	ENSG00000160271	ENST00000482648	processed_transcript	KNOWN	None	9842	None	None	135973107	135984179	-1	None	RGF, RalGEF, RGDS
9	RALGDS	ENSG00000160271	ENST00000469972	processed_transcript	KNOWN	None	9842	None	None	135973107	135984225	-1	None	RGF, RalGEF, RGDS
9	RALGDS	ENSG00000160271	ENST00000493438	processed_transcript	KNOWN	None	9842	None	None	135973107	135996543	-1	None	RGF, RalGEF, RGDS
9	RALGDS	ENSG00000160271	ENST00000372050	protein_coding	KNOWN	CCDS6959	9842	2745	914	135973107	135996563	-1	None	RGF, RalGEF, RGDS
9	RALGDS	ENSG00000160271	ENST00000372047	protein_coding	KNOWN	None	9842	2709	902	135973107	135996563	-1	None	RGF, RalGEF, RGDS
9	RALGDS	ENSG00000160271	ENST00000393160	protein_coding	KNOWN	CCDS43897	9842	2580	859	135973107	136024721	-1	None	RGF, RalGEF, RGDS
9	RALGDS	ENSG00000160271	ENST00000498797	processed_transcript	KNOWN	None	9842	None	None	135973608	135977301	-1	None	RGF, RalGEF, RGDS
9	RALGDS	ENSG00000160271	ENST00000495621	processed_transcript	KNOWN	None	9842	None	None	135974025	135975932	-1	None	RGF, RalGEF, RGDS
9	RALGDS	ENSG00000160271	ENST00000477660	processed_transcript	KNOWN	None	9842	None	None	135975358	135976969	-1	None	RGF, RalGEF, RGDS
9	RALGDS	ENSG00000160271	ENST00000424572	protein_coding	KNOWN	None	9842	926	307	135977115	135983467	-1	None	RGF, RalGEF, RGDS
9	RALGDS	ENSG00000160271	ENST00000471109	processed_transcript	KNOWN	None	9842	None	None	135977905	135979989	-1	None	RGF, RalGEF, RGDS
9	RALGDS	ENSG00000160271	ENST00000493067	processed_transcript	KNOWN	None	9842	None	None	135979073	135979718	-1	None	RGF, RalGEF, RGDS
9	RALGDS	ENSG00000160271	ENST00000460587	processed_transcript	KNOWN	None	9842	None	None	135979156	135983405	-1	None	RGF, RalGEF, RGDS
9	RALGDS	ENSG00000160271	ENST00000542690	protein_coding	KNOWN	None	9842	2958	985	135973508	136039301	-1	None	RGF, RalGEF, RGDS
9	RALGDS	ENSG00000160271	ENST00000372062	protein_coding	KNOWN	None	9842	2658	885	135973747	136006504	-1	None	RGF, RalGEF, RGDS
9	RALGDS	ENSG00000160271	ENST00000393157	protein_coding	KNOWN	None	9842	2742	913	135973108	136004788	-1	None	RGF, RalGEF, RGDS
2	NCKAP5-IT1	ENSG00000232474	ENST00000416437	sense_intronic	KNOWN	None	41497	None	None	134189237	134191468	-1	None	None
8	None	ENSG00000253197	ENST00000523197	antisense	KNOWN	None	None	None	None	93895212	93977873	1	None	None
8	None	ENSG00000253197	ENST00000521203	antisense	KNOWN	None	None	None	None	93895213	93953520	1	None	None
7	TRBV7-1	ENSG00000211707	ENST00000547918	TR_V_gene	KNOWN	None	12235	347	114	142032006	142032527	1	None	TRBV71, TCRBV6S7P, TCRBV7S1
20	BPIFA1	ENSG00000198183	ENST00000375413	protein_coding	KNOWN	CCDS13217	15749	771	256	31823801	31831115	1	PLUNC	LUNX, bA49G10.5, SPLUNC1
20	BPIFA1	ENSG00000198183	ENST00000354297	protein_coding	KNOWN	CCDS13217	15749	771	256	31823801	31831115	1	PLUNC	LUNX, bA49G10.5, SPLUNC1
20	BPIFA1	ENSG00000198183	ENST00000375422	protein_coding	KNOWN	CCDS13217	15749	771	256	31823801	31831115	1	PLUNC	LUNX, bA49G10.5, SPLUNC1
17	PIK3R5	ENSG00000141506	ENST00000269300	nonsense_mediated_decay	KNOWN	None	30035	636	211	8782233	8869020	-1	None	P101-PI3K, p101
17	PIK3R5	ENSG00000141506	ENST00000581552	protein_coding	KNOWN	CCDS11147	30035	2643	880	8783413	8815834	-1	None	P101-PI3K, p101
17	PIK3R5	ENSG00000141506	ENST00000585260	protein_coding	PUTATIVE	None	30035	282	93	8783781	8785186	-1	None	P101-PI3K, p101
17	PIK3R5	ENSG00000141506	ENST00000583810	retained_intron	KNOWN	None	30035	None	None	8783895	8785825	-1	None	P101-PI3K, p101
17	PIK3R5	ENSG00000141506	ENST00000584803	protein_coding	NOVEL	None	30035	2640	879	8783956	8814824	-1	None	P101-PI3K, p101
17	PIK3R5	ENSG00000141506	ENST00000578515	retained_intron	KNOWN	None	30035	None	None	8783956	8869024	-1	None	P101-PI3K, p101
17	PIK3R5	ENSG00000141506	ENST00000578743	processed_transcript	KNOWN	None	30035	None	None	8783958	8788403	-1	None	P101-PI3K, p101
17	PIK3R5	ENSG00000141506	ENST00000577214	retained_intron	KNOWN	None	30035	None	None	8783968	8790587	-1	None	P101-PI3K, p101
17	PIK3R5	ENSG00000141506	ENST00000583039	retained_intron	KNOWN	None	30035	None	None	8790744	8791830	-1	None	P101-PI3K, p101
17	PIK3R5	ENSG00000141506	ENST00000584456	processed_transcript	KNOWN	None	30035	None	None	8791955	8797225	-1	None	P101-PI3K, p101
17	PIK3R5	ENSG00000141506	ENST00000578457	processed_transcript	KNOWN	None	30035	None	None	8792058	8814829	-1	None	P101-PI3K, p101
17	PIK3R5	ENSG00000141506	ENST00000580959	processed_transcript	KNOWN	None	30035	None	None	8792058	8868932	-1	None	P101-PI3K, p101
17	PIK3R5	ENSG00000141506	ENST00000583812	processed_transcript	KNOWN	None	30035	None	None	8792140	8796967	-1	None	P101-PI3K, p101
17	PIK3R5	ENSG00000141506	ENST00000577981	processed_transcript	KNOWN	None	30035	None	None	8794136	8869029	-1	None	P101-PI3K, p101
17	PIK3R5	ENSG00000141506	ENST00000581895	protein_coding	KNOWN	None	30035	134	43	8812461	8815305	-1	None	P101-PI3K, p101
17	PIK3R5	ENSG00000141506	ENST00000583222	processed_transcript	KNOWN	None	30035	None	None	8819017	8869024	-1	None	P101-PI3K, p101
17	PIK3R5	ENSG00000141506	ENST00000447110	protein_coding	KNOWN	CCDS11147	30035	2643	880	8782236	8869024	-1	None	P101-PI3K, p101
HSCHR6_MHC_COX	DDX39B	ENSG00000225073	ENST00000472840	retained_intron	KNOWN	None	13917	None	None	31485454	31486979	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_COX	DDX39B	ENSG00000225073	ENST00000464411	nonsense_mediated_decay	KNOWN	None	13917	424	140	31485454	31490710	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_COX	DDX39B	ENSG00000225073	ENST00000438578	protein_coding	KNOWN	None	13917	1278	425	31485454	31495769	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_COX	DDX39B	ENSG00000225073	ENST00000485571	retained_intron	KNOWN	None	13917	None	None	31485454	31497249	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_COX	DDX39B	ENSG00000225073	ENST00000456476	protein_coding	KNOWN	None	13917	1287	428	31485454	31497680	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_COX	DDX39B	ENSG00000225073	ENST00000415689	protein_coding	KNOWN	None	13917	1287	428	31485454	31497680	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_COX	DDX39B	ENSG00000225073	ENST00000412106	protein_coding	KNOWN	None	13917	1287	428	31485454	31501810	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_COX	DDX39B	ENSG00000225073	ENST00000422243	protein_coding	KNOWN	None	13917	561	186	31486014	31489746	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_COX	DDX39B	ENSG00000225073	ENST00000494127	retained_intron	KNOWN	None	13917	None	None	31486351	31486906	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_COX	DDX39B	ENSG00000225073	ENST00000467694	protein_coding	NOVEL	None	13917	743	246	31486531	31497633	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_COX	DDX39B	ENSG00000225073	ENST00000427425	protein_coding	KNOWN	None	13917	737	244	31486537	31497213	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_COX	DDX39B	ENSG00000225073	ENST00000482077	retained_intron	KNOWN	None	13917	None	None	31487648	31497235	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_COX	DDX39B	ENSG00000225073	ENST00000438449	protein_coding	KNOWN	None	13917	867	288	31488015	31496763	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_COX	DDX39B	ENSG00000225073	ENST00000455645	protein_coding	KNOWN	None	13917	714	237	31490623	31497250	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_COX	DDX39B	ENSG00000225073	ENST00000420958	protein_coding	KNOWN	None	13917	707	234	31490630	31496716	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_COX	DDX39B	ENSG00000225073	ENST00000451051	protein_coding	KNOWN	None	13917	695	230	31490642	31497169	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_COX	DDX39B	ENSG00000225073	ENST00000442717	protein_coding	KNOWN	None	13917	591	196	31491844	31497221	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_COX	DDX39B	ENSG00000225073	ENST00000439691	protein_coding	KNOWN	None	13917	562	186	31491858	31496961	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_COX	DDX39B	ENSG00000225073	ENST00000426189	protein_coding	KNOWN	None	13917	376	124	31494054	31497218	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_COX	DDX39B	ENSG00000225073	ENST00000429022	protein_coding	KNOWN	None	13917	409	135	31494066	31497223	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_COX	DDX39B	ENSG00000225073	ENST00000415036	protein_coding	KNOWN	None	13917	397	131	31494117	31497235	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_COX	DDX39B	ENSG00000225073	ENST00000414451	protein_coding	KNOWN	None	13917	287	94	31494434	31497105	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_COX	DDX39B	ENSG00000225073	ENST00000547039	protein_coding	KNOWN	None	13917	1332	443	31485457	31497206	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_COX	DDX39B	ENSG00000225073	ENST00000550435	protein_coding	KNOWN	None	13917	972	323	31486328	31497206	-1	BAT1	D6S81E, UAP56
1	None	ENSG00000216045	ENST00000401226	miRNA	NOVEL	None	None	None	None	5875931	5876019	-1	None	None
16	None	ENSG00000261227	ENST00000577171	lincRNA	KNOWN	None	None	None	None	73265954	73267007	1	None	None
16	None	ENSG00000261227	ENST00000561802	lincRNA	KNOWN	None	None	None	None	73266661	73267869	1	None	None
19	None	ENSG00000269316	ENST00000597392	processed_pseudogene	KNOWN	None	None	None	None	22792408	22793403	1	None	None
8	EEF1A1P37	ENSG00000254124	ENST00000522748	processed_pseudogene	KNOWN	None	37915	None	None	112237814	112239278	1	None	None
18	None	ENSG00000267787	ENST00000588925	antisense	KNOWN	None	None	None	None	55306687	55405276	1	None	None
18	None	ENSG00000267787	ENST00000586729	antisense	KNOWN	None	None	None	None	55402632	55405276	1	None	None
2	None	ENSG00000223430	ENST00000420184	lincRNA	KNOWN	None	None	None	None	134311886	134315798	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000240110	ENST00000444899	processed_transcript	PUTATIVE	None	None	None	None	32555990	32558585	-1	None	None
15	POTEB2	ENSG00000230031	ENST00000438063	nonsense_mediated_decay	KNOWN	None	48327	906	301	21040701	21071643	-1	None	None
15	POTEB2	ENSG00000230031	ENST00000454856	protein_coding	KNOWN	CCDS59248	48327	1635	544	21040701	21071643	-1	None	None
19	None	ENSG00000268038	ENST00000598042	lincRNA	KNOWN	None	None	None	None	22798359	22806773	-1	None	None
18	ATP5A1	ENSG00000152234	ENST00000586523	retained_intron	KNOWN	None	823	None	None	43664116	43668662	-1	ATP5AL2, ATPM	ATP5A, hATP1, OMR, ORM
18	ATP5A1	ENSG00000152234	ENST00000590156	nonsense_mediated_decay	KNOWN	None	823	177	58	43664116	43678261	-1	ATP5AL2, ATPM	ATP5A, hATP1, OMR, ORM
18	ATP5A1	ENSG00000152234	ENST00000590665	protein_coding	PUTATIVE	CCDS59315	823	1596	531	43664116	43678262	-1	ATP5AL2, ATPM	ATP5A, hATP1, OMR, ORM
18	ATP5A1	ENSG00000152234	ENST00000586592	nonsense_mediated_decay	KNOWN	None	823	273	90	43664116	43678281	-1	ATP5AL2, ATPM	ATP5A, hATP1, OMR, ORM
18	ATP5A1	ENSG00000152234	ENST00000398752	protein_coding	KNOWN	CCDS11927	823	1662	553	43664116	43678319	-1	ATP5AL2, ATPM	ATP5A, hATP1, OMR, ORM
18	ATP5A1	ENSG00000152234	ENST00000587902	retained_intron	KNOWN	None	823	None	None	43664393	43666550	-1	ATP5AL2, ATPM	ATP5A, hATP1, OMR, ORM
18	ATP5A1	ENSG00000152234	ENST00000592364	nonsense_mediated_decay	KNOWN	None	823	234	77	43666093	43678251	-1	ATP5AL2, ATPM	ATP5A, hATP1, OMR, ORM
18	ATP5A1	ENSG00000152234	ENST00000589252	protein_coding	PUTATIVE	None	823	598	198	43667393	43678261	-1	ATP5AL2, ATPM	ATP5A, hATP1, OMR, ORM
18	ATP5A1	ENSG00000152234	ENST00000589869	protein_coding	PUTATIVE	None	823	622	206	43668102	43684300	-1	ATP5AL2, ATPM	ATP5A, hATP1, OMR, ORM
18	ATP5A1	ENSG00000152234	ENST00000589611	retained_intron	KNOWN	None	823	None	None	43669395	43672164	-1	ATP5AL2, ATPM	ATP5A, hATP1, OMR, ORM
18	ATP5A1	ENSG00000152234	ENST00000590406	protein_coding	PUTATIVE	None	823	617	204	43669565	43684193	-1	ATP5AL2, ATPM	ATP5A, hATP1, OMR, ORM
18	ATP5A1	ENSG00000152234	ENST00000590324	protein_coding	PUTATIVE	None	823	434	143	43669598	43684199	-1	ATP5AL2, ATPM	ATP5A, hATP1, OMR, ORM
18	ATP5A1	ENSG00000152234	ENST00000590448	retained_intron	KNOWN	None	823	None	None	43669725	43684219	-1	ATP5AL2, ATPM	ATP5A, hATP1, OMR, ORM
18	ATP5A1	ENSG00000152234	ENST00000591981	nonsense_mediated_decay	KNOWN	None	823	135	44	43669788	43678262	-1	ATP5AL2, ATPM	ATP5A, hATP1, OMR, ORM
18	ATP5A1	ENSG00000152234	ENST00000592989	protein_coding	PUTATIVE	None	823	334	110	43669788	43684239	-1	ATP5AL2, ATPM	ATP5A, hATP1, OMR, ORM
18	ATP5A1	ENSG00000152234	ENST00000585650	nonsense_mediated_decay	KNOWN	None	823	237	78	43669925	43679318	-1	ATP5AL2, ATPM	ATP5A, hATP1, OMR, ORM
18	ATP5A1	ENSG00000152234	ENST00000591267	processed_transcript	KNOWN	None	823	None	None	43673146	43678262	-1	ATP5AL2, ATPM	ATP5A, hATP1, OMR, ORM
18	ATP5A1	ENSG00000152234	ENST00000588390	retained_intron	KNOWN	None	823	None	None	43674666	43678261	-1	ATP5AL2, ATPM	ATP5A, hATP1, OMR, ORM
18	ATP5A1	ENSG00000152234	ENST00000282050	protein_coding	KNOWN	CCDS11927	823	1662	553	43664110	43684199	-1	ATP5AL2, ATPM	ATP5A, hATP1, OMR, ORM
18	ATP5A1	ENSG00000152234	ENST00000593152	protein_coding	KNOWN	CCDS58620	823	1512	503	43664116	43678251	-1	ATP5AL2, ATPM	ATP5A, hATP1, OMR, ORM
14	IGHV3-76	ENSG00000253247	ENST00000522465	IG_V_pseudogene	KNOWN	None	5626	None	None	107236097	107236391	-1	None	None
HSCHR6_MHC_QBL	MTCO3P1	ENSG00000229710	ENST00000424637	unprocessed_pseudogene	KNOWN	None	31342	None	None	32602598	32603429	-1	None	U92032.1
Y	USP9Y	ENSG00000114374	ENST00000338981	protein_coding	KNOWN	CCDS14781	12633	7668	2555	14813160	14972764	1	None	DFFRY
Y	USP9Y	ENSG00000114374	ENST00000493168	processed_transcript	KNOWN	None	12633	None	None	14813969	14833136	1	None	DFFRY
Y	USP9Y	ENSG00000114374	ENST00000426564	processed_transcript	KNOWN	None	12633	None	None	14821369	14972764	1	None	DFFRY
Y	USP9Y	ENSG00000114374	ENST00000453031	protein_coding	KNOWN	None	12633	713	236	14958970	14971537	1	None	DFFRY
Y	USP9Y	ENSG00000114374	ENST00000471409	processed_transcript	KNOWN	None	12633	None	None	14968738	14972764	1	None	DFFRY
2	RN7SKP93	ENSG00000200708	ENST00000363838	misc_RNA	KNOWN	None	45817	None	None	134353662	134353970	1	None	None
2	MLPH	ENSG00000115648	ENST00000422695	protein_coding	KNOWN	None	29643	394	130	238394071	238419693	1	None	l1Rk3, l(1)-3Rk, Slac-2a, ln, exophilin-3
2	MLPH	ENSG00000115648	ENST00000429898	protein_coding	KNOWN	None	29643	211	69	238395052	238419317	1	None	l1Rk3, l(1)-3Rk, Slac-2a, ln, exophilin-3
2	MLPH	ENSG00000115648	ENST00000410032	protein_coding	NOVEL	None	29643	1374	457	238395053	238462639	1	None	l1Rk3, l(1)-3Rk, Slac-2a, ln, exophilin-3
2	MLPH	ENSG00000115648	ENST00000264605	protein_coding	KNOWN	CCDS2518	29643	1803	600	238395811	238463961	1	None	l1Rk3, l(1)-3Rk, Slac-2a, ln, exophilin-3
2	MLPH	ENSG00000115648	ENST00000477222	processed_transcript	KNOWN	None	29643	None	None	238395894	238419354	1	None	l1Rk3, l(1)-3Rk, Slac-2a, ln, exophilin-3
2	MLPH	ENSG00000115648	ENST00000468178	processed_transcript	KNOWN	None	29643	None	None	238395894	238454412	1	None	l1Rk3, l(1)-3Rk, Slac-2a, ln, exophilin-3
2	MLPH	ENSG00000115648	ENST00000338530	protein_coding	KNOWN	CCDS42836	29643	1719	572	238395894	238462637	1	None	l1Rk3, l(1)-3Rk, Slac-2a, ln, exophilin-3
2	MLPH	ENSG00000115648	ENST00000469619	retained_intron	KNOWN	None	29643	None	None	238395918	238420265	1	None	l1Rk3, l(1)-3Rk, Slac-2a, ln, exophilin-3
2	MLPH	ENSG00000115648	ENST00000409373	protein_coding	NOVEL	None	29643	1443	480	238395919	238462637	1	None	l1Rk3, l(1)-3Rk, Slac-2a, ln, exophilin-3
2	MLPH	ENSG00000115648	ENST00000477501	processed_transcript	KNOWN	None	29643	None	None	238418713	238427215	1	None	l1Rk3, l(1)-3Rk, Slac-2a, ln, exophilin-3
2	MLPH	ENSG00000115648	ENST00000495439	retained_intron	KNOWN	None	29643	None	None	238418730	238462636	1	None	l1Rk3, l(1)-3Rk, Slac-2a, ln, exophilin-3
2	MLPH	ENSG00000115648	ENST00000464123	retained_intron	KNOWN	None	29643	None	None	238426672	238462634	1	None	l1Rk3, l(1)-3Rk, Slac-2a, ln, exophilin-3
2	MLPH	ENSG00000115648	ENST00000478712	retained_intron	KNOWN	None	29643	None	None	238426938	238461080	1	None	l1Rk3, l(1)-3Rk, Slac-2a, ln, exophilin-3
2	MLPH	ENSG00000115648	ENST00000494110	retained_intron	KNOWN	None	29643	None	None	238427057	238449089	1	None	l1Rk3, l(1)-3Rk, Slac-2a, ln, exophilin-3
2	MLPH	ENSG00000115648	ENST00000437893	protein_coding	NOVEL	None	29643	1083	360	238428578	238462599	1	None	l1Rk3, l(1)-3Rk, Slac-2a, ln, exophilin-3
2	MLPH	ENSG00000115648	ENST00000485956	processed_transcript	KNOWN	None	29643	None	None	238428622	238446368	1	None	l1Rk3, l(1)-3Rk, Slac-2a, ln, exophilin-3
2	MLPH	ENSG00000115648	ENST00000482528	retained_intron	KNOWN	None	29643	None	None	238434317	238436326	1	None	l1Rk3, l(1)-3Rk, Slac-2a, ln, exophilin-3
2	MLPH	ENSG00000115648	ENST00000436965	protein_coding	NOVEL	None	29643	610	202	238434371	238449602	1	None	l1Rk3, l(1)-3Rk, Slac-2a, ln, exophilin-3
2	MLPH	ENSG00000115648	ENST00000415753	protein_coding	NOVEL	None	29643	709	235	238436078	238462367	1	None	l1Rk3, l(1)-3Rk, Slac-2a, ln, exophilin-3
2	MLPH	ENSG00000115648	ENST00000432475	nonsense_mediated_decay	KNOWN	None	29643	598	198	238449092	238462365	1	None	l1Rk3, l(1)-3Rk, Slac-2a, ln, exophilin-3
2	MLPH	ENSG00000115648	ENST00000434770	protein_coding	PUTATIVE	None	29643	438	145	238449508	238462634	1	None	l1Rk3, l(1)-3Rk, Slac-2a, ln, exophilin-3
2	MLPH	ENSG00000115648	ENST00000477457	retained_intron	KNOWN	None	29643	None	None	238455048	238462486	1	None	l1Rk3, l(1)-3Rk, Slac-2a, ln, exophilin-3
2	MLPH	ENSG00000115648	ENST00000489967	retained_intron	KNOWN	None	29643	None	None	238460670	238462454	1	None	l1Rk3, l(1)-3Rk, Slac-2a, ln, exophilin-3
2	MLPH	ENSG00000115648	ENST00000445024	protein_coding	KNOWN	None	29643	1656	551	238395893	238462305	1	None	l1Rk3, l(1)-3Rk, Slac-2a, ln, exophilin-3
9	RNU6-1160P	ENSG00000207276	ENST00000384546	snRNA	KNOWN	None	48123	None	None	99018498	99018601	-1	None	None
16	None	ENSG00000258779	ENST00000555721	lincRNA	KNOWN	None	None	None	None	73420704	73455292	1	None	None
16	None	ENSG00000258779	ENST00000554640	lincRNA	KNOWN	None	None	None	None	73420952	73436379	1	None	None
16	None	ENSG00000258779	ENST00000562661	lincRNA	KNOWN	None	None	None	None	73420952	73455109	1	None	None
16	None	ENSG00000258779	ENST00000561875	lincRNA	KNOWN	None	None	None	None	73420962	73423140	1	None	None
2	MIR3679	ENSG00000263813	ENST00000581102	miRNA	KNOWN	None	38979	None	None	134884696	134884763	1	None	hsa-mir-3679
15	None	ENSG00000260274	ENST00000563278	lincRNA	KNOWN	None	None	None	None	75660496	75661925	1	None	None
9	None	ENSG00000238251	ENST00000457472	processed_pseudogene	KNOWN	None	None	None	None	99169566	99170079	1	None	None
7	TRBV4-2	ENSG00000211745	ENST00000390392	TR_V_gene	KNOWN	None	12216	344	113	142045252	142045816	1	None	TRBV42, TCRBV4S2, TCRBV7S3A2T
1	MIR4689	ENSG00000264101	ENST00000582517	miRNA	KNOWN	None	41895	None	None	5922732	5922801	-1	None	hsa-mir-4689
15	EIF3J-AS1	ENSG00000179523	ENST00000560750	lincRNA	KNOWN	None	48616	None	None	44819455	44828838	-1	None	None
15	EIF3J-AS1	ENSG00000179523	ENST00000313807	lincRNA	KNOWN	None	48616	None	None	44825691	44829121	-1	None	None
15	EIF3J-AS1	ENSG00000179523	ENST00000559356	lincRNA	KNOWN	None	48616	None	None	44827267	44829092	-1	None	None
15	EIF3J-AS1	ENSG00000179523	ENST00000558323	lincRNA	KNOWN	None	48616	None	None	44827287	44828141	-1	None	None
15	EIF3J-AS1	ENSG00000179523	ENST00000560049	lincRNA	KNOWN	None	48616	None	None	44827450	44829098	-1	None	None
2	RNA5SP104	ENSG00000222921	ENST00000410989	rRNA	KNOWN	None	42902	None	None	134988766	134988883	1	RN5S104	None
HSCHR6_MHC_QBL	None	ENSG00000230150	ENST00000412214	processed_transcript	KNOWN	None	None	None	None	32614456	32615278	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000230150	ENST00000428143	processed_transcript	PUTATIVE	None	None	None	None	32614481	32615283	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000230150	ENST00000418915	processed_transcript	PUTATIVE	None	None	None	None	32614836	32615286	1	None	None
10	None	ENSG00000225484	ENST00000430963	lincRNA	KNOWN	None	None	None	None	81563813	81565878	-1	None	None
10	None	ENSG00000225484	ENST00000419697	lincRNA	KNOWN	None	None	None	None	81563813	81574410	-1	None	None
10	None	ENSG00000225484	ENST00000484794	lincRNA	KNOWN	None	None	None	None	81564241	81574400	-1	None	None
10	None	ENSG00000225484	ENST00000477192	lincRNA	KNOWN	None	None	None	None	81564241	81585538	-1	None	None
10	None	ENSG00000225484	ENST00000496359	lincRNA	KNOWN	None	None	None	None	81564241	81586109	-1	None	None
10	None	ENSG00000225484	ENST00000488805	lincRNA	KNOWN	None	None	None	None	81564241	81586160	-1	None	None
10	None	ENSG00000225484	ENST00000483080	lincRNA	KNOWN	None	None	None	None	81564241	81586240	-1	None	None
10	None	ENSG00000225484	ENST00000470445	lincRNA	KNOWN	None	None	None	None	81564241	81586272	-1	None	None
10	None	ENSG00000225484	ENST00000495430	lincRNA	KNOWN	None	None	None	None	81564241	81586350	-1	None	None
14	IGHVIII-76-1	ENSG00000253310	ENST00000523776	IG_V_pseudogene	KNOWN	None	5708	None	None	107239994	107240279	-1	None	IGHV(III)-76-1
9	None	ENSG00000224848	ENST00000423924	lincRNA	KNOWN	None	None	None	None	99449338	99483403	1	None	None
2	None	ENSG00000234060	ENST00000415977	processed_pseudogene	KNOWN	None	None	None	None	135077225	135077649	-1	None	None
17	TNFSF12	ENSG00000239697	ENST00000293825	protein_coding	KNOWN	CCDS11109	11927	750	249	7452208	7461207	1	None	TWEAK, DR3LG, APO3L
17	TNFSF12	ENSG00000239697	ENST00000322272	nonsense_mediated_decay	KNOWN	None	11927	405	134	7452375	7461207	1	None	TWEAK, DR3LG, APO3L
17	TNFSF12	ENSG00000239697	ENST00000462619	processed_transcript	KNOWN	None	11927	None	None	7452742	7460549	1	None	TWEAK, DR3LG, APO3L
17	TNFSF12	ENSG00000239697	ENST00000462811	processed_transcript	KNOWN	None	11927	None	None	7453095	7460891	1	None	TWEAK, DR3LG, APO3L
17	TNFSF12	ENSG00000239697	ENST00000557233	protein_coding	KNOWN	CCDS11108	11927	993	330	7452471	7464925	1	None	TWEAK, DR3LG, APO3L
19	None	ENSG00000268589	ENST00000598425	unprocessed_pseudogene	KNOWN	None	None	None	None	22803285	22803526	1	None	None
6	C6orf89	ENSG00000198663	ENST00000359359	protein_coding	KNOWN	None	21114	726	241	36839646	36892331	1	None	FLJ25357, BRAP
6	C6orf89	ENSG00000198663	ENST00000480824	protein_coding	KNOWN	None	21114	1044	347	36853630	36896740	1	None	FLJ25357, BRAP
6	C6orf89	ENSG00000198663	ENST00000355190	protein_coding	KNOWN	CCDS4827	21114	1065	354	36853640	36891298	1	None	FLJ25357, BRAP
6	C6orf89	ENSG00000198663	ENST00000373685	protein_coding	KNOWN	None	21114	1044	347	36853640	36891298	1	None	FLJ25357, BRAP
6	C6orf89	ENSG00000198663	ENST00000510325	protein_coding	KNOWN	None	21114	726	241	36839646	36891301	1	None	FLJ25357, BRAP
10	DUXAP4	ENSG00000270258	ENST00000603046	processed_pseudogene	KNOWN	None	32183	None	None	45551104	45551716	1	None	None
15	RPL13P4	ENSG00000241890	ENST00000484355	processed_pseudogene	KNOWN	None	31027	None	None	75680608	75681169	1	None	HsT16723
15	CSPG4P9	ENSG00000205275	ENST00000558229	unprocessed_pseudogene	KNOWN	None	48360	None	None	82977731	82988374	-1	None	None
15	CSPG4P9	ENSG00000205275	ENST00000338938	unprocessed_pseudogene	KNOWN	None	48360	None	None	82970479	82983024	-1	None	None
2	None	ENSG00000255674	ENST00000538722	pseudogene	NOVEL	None	None	None	None	135213767	135214178	-1	None	None
12	MAP3K12	ENSG00000139625	ENST00000547020	retained_intron	KNOWN	None	6851	None	None	53874274	53880512	-1	ZPK	MUK, DLK, ZPKP1, MEKK12
12	MAP3K12	ENSG00000139625	ENST00000267079	protein_coding	KNOWN	CCDS8860	6851	2580	859	53874280	53893399	-1	ZPK	MUK, DLK, ZPKP1, MEKK12
12	MAP3K12	ENSG00000139625	ENST00000547488	protein_coding	NOVEL	CCDS55831	6851	2679	892	53874905	53893240	-1	ZPK	MUK, DLK, ZPKP1, MEKK12
12	MAP3K12	ENSG00000139625	ENST00000551511	retained_intron	KNOWN	None	6851	None	None	53874906	53876371	-1	ZPK	MUK, DLK, ZPKP1, MEKK12
12	MAP3K12	ENSG00000139625	ENST00000547035	protein_coding	NOVEL	CCDS55831	6851	2679	892	53874906	53887650	-1	ZPK	MUK, DLK, ZPKP1, MEKK12
12	MAP3K12	ENSG00000139625	ENST00000552365	nonsense_mediated_decay	KNOWN	None	6851	1182	393	53874966	53881693	-1	ZPK	MUK, DLK, ZPKP1, MEKK12
12	MAP3K12	ENSG00000139625	ENST00000548690	retained_intron	KNOWN	None	6851	None	None	53878820	53879491	-1	ZPK	MUK, DLK, ZPKP1, MEKK12
12	MAP3K12	ENSG00000139625	ENST00000547151	processed_transcript	KNOWN	None	6851	None	None	53880227	53893241	-1	ZPK	MUK, DLK, ZPKP1, MEKK12
12	MAP3K12	ENSG00000139625	ENST00000551895	retained_intron	KNOWN	None	6851	None	None	53880631	53893242	-1	ZPK	MUK, DLK, ZPKP1, MEKK12
12	MAP3K12	ENSG00000139625	ENST00000547803	retained_intron	KNOWN	None	6851	None	None	53880769	53886854	-1	ZPK	MUK, DLK, ZPKP1, MEKK12
12	MAP3K12	ENSG00000139625	ENST00000548565	protein_coding	KNOWN	None	6851	77	24	53881099	53893847	-1	ZPK	MUK, DLK, ZPKP1, MEKK12
9	None	ENSG00000233820	ENST00000445872	transcribed_processed_pseudogene	KNOWN	None	None	None	None	99488172	99489525	1	None	None
9	None	ENSG00000233820	ENST00000602289	processed_transcript	KNOWN	None	None	None	None	99489012	99489751	1	None	None
X	None	ENSG00000226222	ENST00000458741	processed_pseudogene	KNOWN	None	None	None	None	24650374	24650718	1	None	None
10	None	ENSG00000228462	ENST00000455650	processed_pseudogene	KNOWN	None	None	None	None	45568594	45568989	-1	None	None
19	None	ENSG00000268981	ENST00000601860	antisense	KNOWN	None	None	None	None	22848354	22899793	-1	None	None
19	None	ENSG00000268981	ENST00000597533	antisense	KNOWN	None	None	None	None	22880922	22899620	-1	None	None
8	IRF5P1	ENSG00000251347	ENST00000504852	processed_pseudogene	KNOWN	None	41981	None	None	93984803	93986966	1	None	None
12	STAT2	ENSG00000170581	ENST00000556539	processed_transcript	KNOWN	None	11363	None	None	56735381	56743559	-1	None	STAT113
12	STAT2	ENSG00000170581	ENST00000314128	protein_coding	KNOWN	CCDS8917	11363	2556	851	56736494	56753858	-1	None	STAT113
12	STAT2	ENSG00000170581	ENST00000557235	protein_coding	NOVEL	CCDS55836	11363	2544	847	56736720	56753910	-1	None	STAT113
12	STAT2	ENSG00000170581	ENST00000555488	retained_intron	KNOWN	None	11363	None	None	56737869	56740652	-1	None	STAT113
12	STAT2	ENSG00000170581	ENST00000557199	retained_intron	KNOWN	None	11363	None	None	56740462	56742696	-1	None	STAT113
12	STAT2	ENSG00000170581	ENST00000418572	protein_coding	PUTATIVE	None	11363	1383	460	56742782	56753910	-1	None	STAT113
12	STAT2	ENSG00000170581	ENST00000555519	retained_intron	KNOWN	None	11363	None	None	56743285	56748291	-1	None	STAT113
12	STAT2	ENSG00000170581	ENST00000557252	processed_transcript	KNOWN	None	11363	None	None	56743644	56744965	-1	None	STAT113
12	STAT2	ENSG00000170581	ENST00000556140	retained_intron	KNOWN	None	11363	None	None	56744961	56753921	-1	None	STAT113
12	STAT2	ENSG00000170581	ENST00000557156	processed_transcript	PUTATIVE	None	11363	None	None	56744987	56748656	-1	None	STAT113
12	STAT2	ENSG00000170581	ENST00000557417	retained_intron	KNOWN	None	11363	None	None	56748339	56753939	-1	None	STAT113
12	STAT2	ENSG00000170581	ENST00000555646	nonsense_mediated_decay	KNOWN	None	11363	198	65	56749057	56753891	-1	None	STAT113
2	None	ENSG00000224043	ENST00000392929	antisense	KNOWN	None	None	None	None	135493034	135676240	-1	None	None
2	None	ENSG00000224043	ENST00000413962	antisense	KNOWN	None	None	None	None	135624888	135676248	-1	None	None
2	None	ENSG00000224043	ENST00000428857	antisense	KNOWN	None	None	None	None	135625003	135676280	-1	None	None
2	None	ENSG00000224043	ENST00000537615	antisense	KNOWN	None	None	None	None	135624632	135676176	-1	None	None
9	WDR38	ENSG00000136918	ENST00000373574	protein_coding	KNOWN	CCDS43876	23745	945	314	127615755	127620160	1	None	None
X	PCYT1B-AS1	ENSG00000236836	ENST00000432626	antisense	KNOWN	None	40431	None	None	24668190	24676354	1	None	None
2	IGKV1OR2-108	ENSG00000231292	ENST00000453673	IG_V_gene	KNOWN	None	5767	353	116	114163973	114164449	1	None	IGKV1/OR2-108, IGKV1OR2108, IGO1
2	IGKV1OR2-108	ENSG00000231292	ENST00000542081	IG_V_gene	KNOWN	None	5767	324	107	114164163	114164486	1	None	IGKV1/OR2-108, IGKV1OR2108, IGO1
Y	CDY4P	ENSG00000228411	ENST00000418290	processed_pseudogene	KNOWN	None	23872	None	None	14913906	14915763	-1	None	None
12	AGAP2-AS1	ENSG00000255737	ENST00000542466	protein_coding	PUTATIVE	None	48633	807	268	58120054	58122139	1	None	None
HSCHR6_MHC_QBL	HLA-DQB3	ENSG00000224197	ENST00000453986	unprocessed_pseudogene	KNOWN	None	4946	None	None	32627212	32628148	-1	HLA-DVB	D6S205, D6S205E, DVB, DQB3
1	None	ENSG00000266687	ENST00000585151	miRNA	NOVEL	None	None	None	None	5953899	5953984	-1	None	None
14	None	ENSG00000265929	ENST00000583555	miRNA	KNOWN	None	None	None	None	107259100	107259214	-1	None	None
10	RSU1P2	ENSG00000232554	ENST00000423875	processed_transcript	KNOWN	None	44391	None	None	45595614	45603436	-1	None	None
10	RSU1P2	ENSG00000232554	ENST00000448600	processed_transcript	KNOWN	None	44391	None	None	45595703	45602526	-1	None	None
10	RSU1P2	ENSG00000232554	ENST00000437884	transcribed_unprocessed_pseudogene	KNOWN	None	44391	None	None	45602058	45611549	-1	None	None
7	TRBV7-8	ENSG00000229200	ENST00000390359	TR_V_gene	KNOWN	None	12242	347	114	142099455	142099977	-1	None	TRBV78, TCRBV6S2A1N1T, TCRBV7S8
16	None	ENSG00000260958	ENST00000562572	lincRNA	KNOWN	None	None	None	None	34442308	34518517	1	None	None
16	None	ENSG00000260958	ENST00000569557	lincRNA	KNOWN	None	None	None	None	34442330	34488020	1	None	None
14	SLC8A3	ENSG00000100678	ENST00000356921	protein_coding	KNOWN	CCDS9800	11070	2766	921	70510934	70655787	-1	None	NCX3
14	SLC8A3	ENSG00000100678	ENST00000494208	nonsense_mediated_decay	KNOWN	None	11070	1863	620	70510934	70655787	-1	None	NCX3
14	SLC8A3	ENSG00000100678	ENST00000381269	protein_coding	KNOWN	CCDS35498	11070	2784	927	70510934	70655787	-1	None	NCX3
14	SLC8A3	ENSG00000100678	ENST00000216568	protein_coding	NOVEL	CCDS45131	11070	897	298	70510972	70546923	-1	None	NCX3
14	SLC8A3	ENSG00000100678	ENST00000394330	protein_coding	NOVEL	CCDS41967	11070	855	284	70511136	70546897	-1	None	NCX3
14	SLC8A3	ENSG00000100678	ENST00000534137	protein_coding	NOVEL	CCDS53904	11070	2775	924	70512664	70635201	-1	None	NCX3
14	SLC8A3	ENSG00000100678	ENST00000528359	protein_coding	NOVEL	CCDS9799	11070	2778	925	70512664	70635201	-1	None	NCX3
14	SLC8A3	ENSG00000100678	ENST00000533541	protein_coding	PUTATIVE	None	11070	633	210	70512792	70546897	-1	None	NCX3
14	SLC8A3	ENSG00000100678	ENST00000533899	processed_transcript	PUTATIVE	None	11070	None	None	70525823	70527656	-1	None	NCX3
14	SLC8A3	ENSG00000100678	ENST00000357887	protein_coding	KNOWN	CCDS9799	11070	2778	925	70510934	70655787	-1	None	NCX3
14	IGHV5-78	ENSG00000211978	ENST00000450948	IG_V_pseudogene	KNOWN	None	5660	None	None	107259338	107259632	-1	None	None
1	CCBL2	ENSG00000137944	ENST00000446900	processed_transcript	KNOWN	None	33238	None	None	89401456	89454038	-1	None	RBM1, RP11-82K18.3, KAT3
1	CCBL2	ENSG00000137944	ENST00000370491	protein_coding	KNOWN	CCDS30767	33238	1263	420	89401456	89458459	-1	None	RBM1, RP11-82K18.3, KAT3
1	CCBL2	ENSG00000137944	ENST00000260508	protein_coding	KNOWN	CCDS30766	33238	1365	454	89401499	89458604	-1	None	RBM1, RP11-82K18.3, KAT3
1	CCBL2	ENSG00000137944	ENST00000370486	protein_coding	PUTATIVE	None	33238	787	261	89426850	89458636	-1	None	RBM1, RP11-82K18.3, KAT3
1	CCBL2	ENSG00000137944	ENST00000370485	protein_coding	KNOWN	None	33238	504	167	89401542	89458287	-1	None	RBM1, RP11-82K18.3, KAT3
15	None	ENSG00000261714	ENST00000569073	processed_pseudogene	KNOWN	None	None	None	None	75707590	75708361	1	None	None
Y	CASKP1	ENSG00000234059	ENST00000412870	unprocessed_pseudogene	KNOWN	None	1498	None	None	15042075	15060090	-1	CASKP	None
HSCHR6_MHC_QBL	None	ENSG00000265377	ENST00000582908	miRNA	NOVEL	None	None	None	None	32646402	32646469	-1	None	None
2	None	ENSG00000234682	ENST00000452925	processed_pseudogene	KNOWN	None	None	None	None	135554739	135555449	1	None	None
HSCHR4_1	None	ENSG00000257652	ENST00000552733	protein_coding	NOVEL	None	None	1272	423	69313165	69363317	1	None	None
8	SLC7A2	ENSG00000003989	ENST00000494857	protein_coding	KNOWN	CCDS34852	11060	1977	658	17354597	17428082	1	ATRC2	CAT-2, HCAT2
8	SLC7A2	ENSG00000003989	ENST00000522656	protein_coding	KNOWN	CCDS34852	11060	1977	658	17354600	17422783	1	ATRC2	CAT-2, HCAT2
8	SLC7A2	ENSG00000003989	ENST00000470360	protein_coding	KNOWN	CCDS6002	11060	2094	697	17354724	17428082	1	ATRC2	CAT-2, HCAT2
8	SLC7A2	ENSG00000003989	ENST00000004531	protein_coding	KNOWN	CCDS55203	11060	2097	698	17396286	17428070	1	ATRC2	CAT-2, HCAT2
8	SLC7A2	ENSG00000003989	ENST00000398090	protein_coding	KNOWN	CCDS6002	11060	2094	697	17396286	17428070	1	ATRC2	CAT-2, HCAT2
1	RNF207	ENSG00000158286	ENST00000466994	retained_intron	KNOWN	None	32947	None	None	6265535	6268367	1	C1orf188	FLJ46380, FLJ32096
1	RNF207	ENSG00000158286	ENST00000484435	retained_intron	KNOWN	None	32947	None	None	6266189	6267624	1	C1orf188	FLJ46380, FLJ32096
1	RNF207	ENSG00000158286	ENST00000377939	protein_coding	NOVEL	CCDS59	32947	1905	634	6266236	6281359	1	C1orf188	FLJ46380, FLJ32096
1	RNF207	ENSG00000158286	ENST00000485539	retained_intron	KNOWN	None	32947	None	None	6268678	6270960	1	C1orf188	FLJ46380, FLJ32096
1	RNF207	ENSG00000158286	ENST00000496676	retained_intron	KNOWN	None	32947	None	None	6268920	6280865	1	C1orf188	FLJ46380, FLJ32096
1	RNF207	ENSG00000158286	ENST00000463453	processed_transcript	KNOWN	None	32947	None	None	6270962	6272113	1	C1orf188	FLJ46380, FLJ32096
1	RNF207	ENSG00000158286	ENST00000496329	retained_intron	KNOWN	None	32947	None	None	6270998	6271976	1	C1orf188	FLJ46380, FLJ32096
1	RNF207	ENSG00000158286	ENST00000492476	retained_intron	KNOWN	None	32947	None	None	6271095	6272896	1	C1orf188	FLJ46380, FLJ32096
1	RNF207	ENSG00000158286	ENST00000483336	processed_transcript	KNOWN	None	32947	None	None	6272798	6279403	1	C1orf188	FLJ46380, FLJ32096
1	RNF207	ENSG00000158286	ENST00000377948	protein_coding	KNOWN	None	32947	435	144	6266189	6281351	1	C1orf188	FLJ46380, FLJ32096
11	CCDC15	ENSG00000149548	ENST00000529051	protein_coding	NOVEL	None	25798	2889	962	124824017	124911383	1	None	FLJ13215
11	CCDC15	ENSG00000149548	ENST00000344762	protein_coding	KNOWN	CCDS44756	25798	2856	951	124824017	124911385	1	None	FLJ13215
11	CCDC15	ENSG00000149548	ENST00000530061	processed_transcript	KNOWN	None	25798	None	None	124907352	124910859	1	None	FLJ13215
11	CCDC15	ENSG00000149548	ENST00000524471	retained_intron	KNOWN	None	25798	None	None	124907969	124909445	1	None	FLJ13215
1	None	ENSG00000226944	ENST00000455744	antisense	KNOWN	None	None	None	None	6264900	6265840	-1	None	None
20	RBM12	ENSG00000244462	ENST00000374114	protein_coding	KNOWN	CCDS13261	9898	2799	932	34236847	34252838	-1	None	HRIHFB2091, KIAA0765, SWAN
20	RBM12	ENSG00000244462	ENST00000359646	protein_coding	KNOWN	CCDS13261	9898	2799	932	34238064	34252810	-1	None	HRIHFB2091, KIAA0765, SWAN
20	RBM12	ENSG00000244462	ENST00000374104	protein_coding	KNOWN	CCDS13261	9898	2799	932	34238248	34252822	-1	None	HRIHFB2091, KIAA0765, SWAN
20	RBM12	ENSG00000244462	ENST00000424458	protein_coding	KNOWN	None	9898	873	290	34242372	34252811	-1	None	HRIHFB2091, KIAA0765, SWAN
20	RBM12	ENSG00000244462	ENST00000431148	protein_coding	KNOWN	None	9898	430	142	34242815	34252878	-1	None	HRIHFB2091, KIAA0765, SWAN
20	RBM12	ENSG00000244462	ENST00000435161	protein_coding	KNOWN	None	9898	402	133	34242843	34252856	-1	None	HRIHFB2091, KIAA0765, SWAN
14	RN7SL356P	ENSG00000266553	ENST00000582228	misc_RNA	KNOWN	None	46372	None	None	77433863	77434108	-1	None	None
HSCHR6_MHC_QBL	None	ENSG00000206296	ENST00000447649	processed_transcript	KNOWN	None	None	None	None	32740573	32742982	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000206296	ENST00000433373	processed_transcript	KNOWN	None	None	None	None	32740595	32742306	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000206296	ENST00000444824	processed_transcript	KNOWN	None	None	None	None	32740620	32742473	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000206296	ENST00000457136	processed_transcript	KNOWN	None	None	None	None	32740620	32742697	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000206296	ENST00000433872	processed_transcript	KNOWN	None	None	None	None	32740621	32742182	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000206296	ENST00000418520	processed_transcript	KNOWN	None	None	None	None	32740625	32742565	1	None	None
3	SLC7A14	ENSG00000013293	ENST00000231706	protein_coding	KNOWN	CCDS33892	29326	2316	771	170182353	170303863	-1	None	KIAA1613
3	SLC7A14	ENSG00000013293	ENST00000466168	processed_transcript	PUTATIVE	None	29326	None	None	170287879	170303816	-1	None	KIAA1613
14	None	ENSG00000243225	ENST00000488511	processed_pseudogene	KNOWN	None	None	None	None	77435026	77435488	1	None	None
7	PMS2P1	ENSG00000078319	ENST00000431037	unprocessed_pseudogene	KNOWN	None	9123	None	None	99918615	99939531	-1	PMS2L6, PMS2L8, PMS2L7, PMS2L1	PMS3, PMS8, PMS2L13, PMSR2, PMSR1
7	PMS2P1	ENSG00000078319	ENST00000447708	unprocessed_pseudogene	KNOWN	None	9123	None	None	99928051	99930239	-1	PMS2L6, PMS2L8, PMS2L7, PMS2L1	PMS3, PMS8, PMS2L13, PMSR2, PMSR1
8	None	ENSG00000253434	ENST00000521904	lincRNA	KNOWN	None	None	None	None	112388868	112482846	1	None	None
8	None	ENSG00000253434	ENST00000521753	lincRNA	KNOWN	None	None	None	None	112388892	112527565	1	None	None
8	None	ENSG00000253434	ENST00000524236	lincRNA	KNOWN	None	None	None	None	112428744	112555202	1	None	None
8	LINC00535	ENSG00000246662	ENST00000520513	antisense	KNOWN	None	43644	None	None	94225531	94304914	-1	None	None
8	LINC00535	ENSG00000246662	ENST00000520096	antisense	KNOWN	None	43644	None	None	94225539	94433108	-1	None	None
8	LINC00535	ENSG00000246662	ENST00000517785	antisense	KNOWN	None	43644	None	None	94225556	94262951	-1	None	None
8	LINC00535	ENSG00000246662	ENST00000501400	antisense	KNOWN	None	43644	None	None	94358695	94712661	-1	None	None
12	H3F3C	ENSG00000188375	ENST00000340398	protein_coding	KNOWN	CCDS31769	33164	408	135	31944123	31945175	-1	None	H3.5
8	None	ENSG00000255033	ENST00000529287	processed_pseudogene	KNOWN	None	None	None	None	112392832	112393097	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000257301	ENST00000549331	protein_coding	NOVEL	None	None	279	92	30461233	30465132	1	None	None
14	None	ENSG00000246548	ENST00000500215	lincRNA	KNOWN	None	None	None	None	77507407	77535846	1	None	None
2	None	ENSG00000228098	ENST00000416042	processed_pseudogene	KNOWN	None	None	None	None	135573932	135574159	1	None	None
Y	SFPQP1	ENSG00000224035	ENST00000446621	processed_pseudogene	KNOWN	None	10775	None	None	15195704	15207719	1	SFPQP	None
2	None	ENSG00000268898	ENST00000593663	protein_coding	NOVEL	None	None	51	16	40488147	40490117	1	None	None
HSCHR6_MHC_MCF	B3GALT4	ENSG00000236802	ENST00000430971	protein_coding	KNOWN	None	919	1137	378	33415294	33416979	1	None	beta3Gal-T4, GalT4
14	None	ENSG00000258473	ENST00000554043	lincRNA	KNOWN	None	None	None	None	77514515	77552789	-1	None	None
2	MIR5590	ENSG00000263783	ENST00000577826	miRNA	KNOWN	None	43541	None	None	135615390	135615443	1	None	hsa-mir-5590
12	TSPAN31	ENSG00000135452	ENST00000553221	processed_transcript	KNOWN	None	10539	None	None	58131796	58140845	1	SAS	None
12	TSPAN31	ENSG00000135452	ENST00000547311	processed_transcript	KNOWN	None	10539	None	None	58133519	58139993	1	SAS	None
12	TSPAN31	ENSG00000135452	ENST00000550528	processed_transcript	KNOWN	None	10539	None	None	58133649	58140219	1	SAS	None
12	TSPAN31	ENSG00000135452	ENST00000257910	protein_coding	KNOWN	CCDS8952	10539	633	210	58138664	58142015	1	SAS	None
12	TSPAN31	ENSG00000135452	ENST00000547992	protein_coding	NOVEL	None	10539	381	126	58138806	58143994	1	SAS	None
12	TSPAN31	ENSG00000135452	ENST00000552816	protein_coding	PUTATIVE	None	10539	218	71	58138822	58140808	1	SAS	None
12	TSPAN31	ENSG00000135452	ENST00000553089	nonsense_mediated_decay	KNOWN	None	10539	387	128	58138822	58140961	1	SAS	None
12	TSPAN31	ENSG00000135452	ENST00000549052	nonsense_mediated_decay	KNOWN	None	10539	342	113	58138833	58141439	1	SAS	None
12	TSPAN31	ENSG00000135452	ENST00000546993	retained_intron	KNOWN	None	10539	None	None	58138841	58141988	1	SAS	None
12	TSPAN31	ENSG00000135452	ENST00000547472	protein_coding	NOVEL	None	10539	384	127	58138849	58141075	1	SAS	None
12	TSPAN31	ENSG00000135452	ENST00000548093	processed_transcript	KNOWN	None	10539	None	None	58138852	58140177	1	SAS	None
12	TSPAN31	ENSG00000135452	ENST00000548167	protein_coding	PUTATIVE	None	10539	259	85	58139165	58140849	1	SAS	None
12	TSPAN31	ENSG00000135452	ENST00000550791	retained_intron	KNOWN	None	10539	None	None	58139240	58142001	1	SAS	None
12	TSPAN31	ENSG00000135452	ENST00000546922	retained_intron	KNOWN	None	10539	None	None	58140450	58141638	1	SAS	None
14	IGHVII-78-1	ENSG00000253674	ENST00000521105	IG_V_pseudogene	KNOWN	None	5691	None	None	107273842	107274110	-1	None	IGHV(II)-78-1
2	C2orf91	ENSG00000205086	ENST00000378711	protein_coding	NOVEL	CCDS56116	42966	396	131	42162508	42180943	-1	None	None
2	C2orf91	ENSG00000205086	ENST00000403980	processed_transcript	PUTATIVE	None	42966	None	None	42180070	42181406	-1	None	None
2	None	ENSG00000238337	ENST00000458895	snoRNA	NOVEL	None	None	None	None	135823202	135823304	-1	None	None
HG883_PATCH	TMEM97	ENSG00000262046	ENST00000576254	protein_coding	KNOWN	None	28106	531	176	26646121	26655707	1	None	MAC30
HG883_PATCH	TMEM97	ENSG00000262046	ENST00000578814	protein_coding	PUTATIVE	None	28106	210	69	26646228	26653901	1	None	MAC30
HG883_PATCH	TMEM97	ENSG00000262046	ENST00000583867	protein_coding	PUTATIVE	None	28106	279	92	26646232	26652861	1	None	MAC30
HG883_PATCH	TMEM97	ENSG00000262046	ENST00000577925	protein_coding	NOVEL	None	28106	357	118	26646295	26654537	1	None	MAC30
HG883_PATCH	TMEM97	ENSG00000262046	ENST00000572678	protein_coding	PUTATIVE	None	28106	210	69	26646481	26655251	1	None	MAC30
2	None	ENSG00000208308	ENST00000385573	snoRNA	NOVEL	None	None	None	None	135894198	135894325	1	None	None
14	None	ENSG00000258819	ENST00000557526	lincRNA	KNOWN	None	None	None	None	77535523	77542534	-1	None	None
14	None	ENSG00000258819	ENST00000555512	lincRNA	KNOWN	None	None	None	None	77537006	77542687	-1	None	None
14	None	ENSG00000258819	ENST00000556781	lincRNA	KNOWN	None	None	None	None	77540885	77542485	-1	None	None
14	IGHV3-79	ENSG00000254284	ENST00000517737	IG_V_pseudogene	KNOWN	None	5627	None	None	107275873	107276304	-1	None	None
6	RAB23	ENSG00000112210	ENST00000468148	protein_coding	KNOWN	CCDS4962	14263	714	237	57054597	57086205	-1	None	None
6	RAB23	ENSG00000112210	ENST00000317483	protein_coding	KNOWN	CCDS4962	14263	714	237	57053607	57087078	-1	None	None
2	None	ENSG00000235651	ENST00000413279	processed_pseudogene	KNOWN	None	None	None	None	136268116	136269513	-1	None	None
1	LINC00337	ENSG00000225077	ENST00000441724	antisense	KNOWN	None	28620	None	None	6296300	6299000	1	C1orf211, NCRNA00337	MGC40168
1	LINC00337	ENSG00000225077	ENST00000429480	antisense	KNOWN	None	28620	None	None	6297831	6299504	1	C1orf211, NCRNA00337	MGC40168
15	None	ENSG00000260165	ENST00000569468	unprocessed_pseudogene	KNOWN	None	None	None	None	75773002	75773177	1	None	None
9	RPL35	ENSG00000136942	ENST00000373570	protein_coding	PUTATIVE	None	10344	291	96	127620159	127624194	-1	None	L35
9	RPL35	ENSG00000136942	ENST00000493018	nonsense_mediated_decay	KNOWN	None	10344	291	96	127620162	127624214	-1	None	L35
9	RPL35	ENSG00000136942	ENST00000487431	retained_intron	KNOWN	None	10344	None	None	127620162	127624215	-1	None	L35
9	RPL35	ENSG00000136942	ENST00000348462	protein_coding	KNOWN	CCDS6858	10344	372	123	127620163	127624240	-1	None	L35
9	RPL35	ENSG00000136942	ENST00000495728	retained_intron	KNOWN	None	10344	None	None	127623258	127624260	-1	None	L35
X	DDX11L16	ENSG00000227159	ENST00000507418	unprocessed_pseudogene	KNOWN	None	37115	None	None	155255329	155257542	-1	None	None
X	DDX11L16	ENSG00000227159	ENST00000445777	unprocessed_pseudogene	KNOWN	None	37115	None	None	155255323	155257848	-1	None	None
2	RNU6-512P	ENSG00000201308	ENST00000364438	snRNA	KNOWN	None	47475	None	None	136414047	136414149	-1	None	None
2	MIR128-1	ENSG00000207654	ENST00000384921	miRNA	KNOWN	None	31510	None	None	136422967	136423048	1	MIRN128A, MIRN128-1	hsa-mir-128a, hsa-mir-128-1
22	None	ENSG00000225480	ENST00000427470	processed_pseudogene	KNOWN	None	None	None	None	17378335	17378436	1	None	None
8	GPAA1	ENSG00000197858	ENST00000529503	nonsense_mediated_decay	KNOWN	None	4446	477	158	145137493	145139233	1	None	GAA1, hGAA1
8	GPAA1	ENSG00000197858	ENST00000526341	processed_transcript	KNOWN	None	4446	None	None	145137495	145138652	1	None	GAA1, hGAA1
8	GPAA1	ENSG00000197858	ENST00000355091	protein_coding	KNOWN	CCDS43776	4446	1866	621	145137513	145141119	1	None	GAA1, hGAA1
8	GPAA1	ENSG00000197858	ENST00000525087	protein_coding	PUTATIVE	None	4446	795	264	145137517	145139513	1	None	GAA1, hGAA1
8	GPAA1	ENSG00000197858	ENST00000532758	retained_intron	KNOWN	None	4446	None	None	145137525	145139177	1	None	GAA1, hGAA1
8	GPAA1	ENSG00000197858	ENST00000530633	nonsense_mediated_decay	KNOWN	None	4446	297	98	145137529	145139488	1	None	GAA1, hGAA1
8	GPAA1	ENSG00000197858	ENST00000361036	protein_coding	KNOWN	None	4446	1686	561	145137571	145141119	1	None	GAA1, hGAA1
8	GPAA1	ENSG00000197858	ENST00000524418	protein_coding	PUTATIVE	None	4446	780	259	145137589	145139242	1	None	GAA1, hGAA1
8	GPAA1	ENSG00000197858	ENST00000528073	nonsense_mediated_decay	KNOWN	None	4446	705	234	145137591	145139422	1	None	GAA1, hGAA1
8	GPAA1	ENSG00000197858	ENST00000530258	protein_coding	PUTATIVE	None	4446	243	80	145137808	145138640	1	None	GAA1, hGAA1
8	GPAA1	ENSG00000197858	ENST00000527144	processed_transcript	KNOWN	None	4446	None	None	145138118	145139698	1	None	GAA1, hGAA1
8	GPAA1	ENSG00000197858	ENST00000525308	retained_intron	KNOWN	None	4446	None	None	145138156	145139228	1	None	GAA1, hGAA1
8	GPAA1	ENSG00000197858	ENST00000526233	processed_transcript	KNOWN	None	4446	None	None	145138892	145139752	1	None	GAA1, hGAA1
8	GPAA1	ENSG00000197858	ENST00000527653	retained_intron	KNOWN	None	4446	None	None	145139031	145139998	1	None	GAA1, hGAA1
8	GPAA1	ENSG00000197858	ENST00000529638	retained_intron	KNOWN	None	4446	None	None	145139094	145141088	1	None	GAA1, hGAA1
8	GPAA1	ENSG00000197858	ENST00000531593	retained_intron	KNOWN	None	4446	None	None	145139640	145140349	1	None	GAA1, hGAA1
8	GPAA1	ENSG00000197858	ENST00000530796	retained_intron	KNOWN	None	4446	None	None	145139696	145141086	1	None	GAA1, hGAA1
8	GPAA1	ENSG00000197858	ENST00000534072	retained_intron	KNOWN	None	4446	None	None	145139755	145141087	1	None	GAA1, hGAA1
10	NPFFR1	ENSG00000148734	ENST00000449957	protein_coding	KNOWN	None	17425	1287	428	72014713	72026148	-1	GPR147	OT7T022, NPFF1R1
10	NPFFR1	ENSG00000148734	ENST00000277942	protein_coding	KNOWN	CCDS53539	17425	1293	430	72014713	72043440	-1	GPR147	OT7T022, NPFF1R1
2	None	ENSG00000200664	ENST00000363794	misc_RNA	NOVEL	None	None	None	None	136567739	136567849	-1	None	None
HSCHR6_MHC_QBL	PPP1R2P1	ENSG00000226914	ENST00000443048	processed_transcript	KNOWN	None	9289	None	None	32775657	32776334	-1	PPP1R2P	IPP-2P
HSCHR6_MHC_QBL	PPP1R2P1	ENSG00000226914	ENST00000446971	transcribed_processed_pseudogene	KNOWN	None	9289	None	None	32775702	32776319	-1	PPP1R2P	IPP-2P
22	IGKV1OR22-5	ENSG00000230481	ENST00000458718	IG_V_pseudogene	KNOWN	None	5773	None	None	17385109	17385586	-1	IGKVP7, IGKV1OR22-5A	IGKV1/OR22-5, IGKV1/OR22-5A
2	None	ENSG00000226806	ENST00000437007	antisense	KNOWN	None	None	None	None	136577761	136580657	1	None	None
22	IGKV2OR22-4	ENSG00000253691	ENST00000523309	IG_V_pseudogene	KNOWN	None	5813	None	None	17395125	17395871	-1	IGKVP6	IGKV2/OR22-4
12	KIAA1551	ENSG00000174718	ENST00000541981	processed_transcript	KNOWN	None	25559	None	None	32112304	32145768	1	C12orf35	FLJ20696, FLJ10652
12	KIAA1551	ENSG00000174718	ENST00000540924	protein_coding	KNOWN	None	25559	105	34	32112342	32133994	1	C12orf35	FLJ20696, FLJ10652
12	KIAA1551	ENSG00000174718	ENST00000312561	protein_coding	KNOWN	CCDS8725	25559	5244	1747	32112353	32146039	1	C12orf35	FLJ20696, FLJ10652
12	KIAA1551	ENSG00000174718	ENST00000535596	processed_transcript	KNOWN	None	25559	None	None	32112372	32145875	1	C12orf35	FLJ20696, FLJ10652
12	KIAA1551	ENSG00000174718	ENST00000397578	processed_transcript	KNOWN	None	25559	None	None	32112383	32145903	1	C12orf35	FLJ20696, FLJ10652
12	KIAA1551	ENSG00000174718	ENST00000535606	processed_transcript	KNOWN	None	25559	None	None	32112597	32123180	1	C12orf35	FLJ20696, FLJ10652
12	KIAA1551	ENSG00000174718	ENST00000381054	protein_coding	KNOWN	None	25559	2024	673	32115423	32135913	1	C12orf35	FLJ20696, FLJ10652
12	KIAA1551	ENSG00000174718	ENST00000543763	retained_intron	KNOWN	None	25559	None	None	32140100	32146037	1	C12orf35	FLJ20696, FLJ10652
HSCHR6_MHC_QBL	HLA-Z	ENSG00000233053	ENST00000445188	unprocessed_pseudogene	KNOWN	None	19394	None	None	32792898	32792972	1	None	HLA-Z1
7	None	ENSG00000201913	ENST00000365043	misc_RNA	NOVEL	None	None	None	None	99928400	99928500	-1	None	None
HSCHR17_4_CTG4	KRTAP2-3	ENSG00000262862	ENST00000570303	protein_coding	KNOWN	None	18906	387	128	39215722	39216596	-1	None	KAP2.3
HSCHR6_MHC_QBL	None	ENSG00000264401	ENST00000582387	miRNA	NOVEL	None	None	None	None	32833423	32833517	-1	None	None
2	None	ENSG00000214070	ENST00000424794	processed_pseudogene	KNOWN	None	None	None	None	136655525	136656548	-1	None	None
HSCHR6_MHC_QBL	BRD2-IT1	ENSG00000228104	ENST00000440045	processed_transcript	PUTATIVE	None	41311	None	None	32866827	32867341	1	None	None
4	PLA2G12A	ENSG00000123739	ENST00000243501	protein_coding	KNOWN	CCDS3686	18554	570	189	110631145	110651233	-1	PLA2G12	None
4	PLA2G12A	ENSG00000123739	ENST00000502283	protein_coding	NOVEL	None	18554	564	187	110635073	110651130	-1	PLA2G12	None
4	PLA2G12A	ENSG00000123739	ENST00000507961	nonsense_mediated_decay	KNOWN	None	18554	213	70	110635418	110651112	-1	PLA2G12	None
4	PLA2G12A	ENSG00000123739	ENST00000502772	processed_transcript	KNOWN	None	18554	None	None	110638704	110639917	-1	PLA2G12	None
7	STAG3L5P	ENSG00000242294	ENST00000414292	processed_transcript	KNOWN	None	48896	None	None	99933748	99936613	1	None	None
7	STAG3L5P	ENSG00000242294	ENST00000422479	processed_transcript	KNOWN	None	48896	None	None	99933748	99938951	1	None	None
7	STAG3L5P	ENSG00000242294	ENST00000434211	processed_transcript	KNOWN	None	48896	None	None	99935200	99936428	1	None	None
7	STAG3L5P	ENSG00000242294	ENST00000443759	transcribed_unprocessed_pseudogene	KNOWN	None	48896	None	None	99935820	99936509	1	None	None
HG905_PATCH	None	ENSG00000262639	ENST00000572570	rRNA	NOVEL	None	None	None	None	204831	204943	-1	None	None
HSCHR6_MHC_MCF	NELFE	ENSG00000229363	ENST00000448628	protein_coding	KNOWN	None	13974	1143	380	31996311	32003316	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_MCF	NELFE	ENSG00000229363	ENST00000494485	retained_intron	KNOWN	None	13974	None	None	31996452	32003143	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_MCF	NELFE	ENSG00000229363	ENST00000463500	retained_intron	KNOWN	None	13974	None	None	31996452	32003168	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_MCF	NELFE	ENSG00000229363	ENST00000424762	protein_coding	KNOWN	None	13974	1001	332	31997982	32003181	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_MCF	NELFE	ENSG00000229363	ENST00000453084	protein_coding	KNOWN	None	13974	881	292	31998528	32002703	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_MCF	NELFE	ENSG00000229363	ENST00000418423	protein_coding	KNOWN	None	13974	722	239	31998784	32002795	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_MCF	NELFE	ENSG00000229363	ENST00000471130	retained_intron	KNOWN	None	13974	None	None	31998974	32003262	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_MCF	NELFE	ENSG00000229363	ENST00000497132	processed_transcript	KNOWN	None	13974	None	None	31998997	32003192	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_MCF	NELFE	ENSG00000229363	ENST00000418059	protein_coding	KNOWN	None	13974	477	158	31999044	32003083	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_MCF	NELFE	ENSG00000229363	ENST00000465693	retained_intron	KNOWN	None	13974	None	None	31999289	32003189	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_MCF	NELFE	ENSG00000229363	ENST00000464892	processed_transcript	KNOWN	None	13974	None	None	31999443	32003178	-1	RDBP	RD, D6S45, NELF-E, RDP
10	LRRC27	ENSG00000148814	ENST00000344079	protein_coding	PUTATIVE	CCDS44496	29346	1152	383	134145658	134166899	1	None	KIAA1674
10	LRRC27	ENSG00000148814	ENST00000368614	protein_coding	KNOWN	CCDS31316	29346	1593	530	134145704	134193422	1	None	KIAA1674
10	LRRC27	ENSG00000148814	ENST00000462656	processed_transcript	KNOWN	None	29346	None	None	134145730	134188961	1	None	KIAA1674
10	LRRC27	ENSG00000148814	ENST00000368613	protein_coding	KNOWN	CCDS31316	29346	1593	530	134145783	134188960	1	None	KIAA1674
10	LRRC27	ENSG00000148814	ENST00000368612	protein_coding	KNOWN	None	29346	1407	468	134148612	134188959	1	None	KIAA1674
10	LRRC27	ENSG00000148814	ENST00000450442	protein_coding	KNOWN	None	29346	774	257	134150268	134161853	1	None	KIAA1674
10	LRRC27	ENSG00000148814	ENST00000490055	processed_transcript	KNOWN	None	29346	None	None	134150642	134161596	1	None	KIAA1674
10	LRRC27	ENSG00000148814	ENST00000489204	processed_transcript	KNOWN	None	29346	None	None	134151170	134158371	1	None	KIAA1674
10	LRRC27	ENSG00000148814	ENST00000472387	processed_transcript	KNOWN	None	29346	None	None	134161696	134175093	1	None	KIAA1674
10	LRRC27	ENSG00000148814	ENST00000475747	processed_transcript	KNOWN	None	29346	None	None	134163904	134189532	1	None	KIAA1674
10	LRRC27	ENSG00000148814	ENST00000472556	processed_transcript	KNOWN	None	29346	None	None	134165111	134180505	1	None	KIAA1674
10	LRRC27	ENSG00000148814	ENST00000476889	processed_transcript	KNOWN	None	29346	None	None	134178975	134180505	1	None	KIAA1674
10	LRRC27	ENSG00000148814	ENST00000487000	processed_transcript	KNOWN	None	29346	None	None	134178985	134180347	1	None	KIAA1674
10	LRRC27	ENSG00000148814	ENST00000368615	protein_coding	KNOWN	CCDS44495	29346	1152	383	134145614	134166899	1	None	KIAA1674
10	LRRC27	ENSG00000148814	ENST00000392638	protein_coding	KNOWN	CCDS44496	29346	1152	383	134145614	134195010	1	None	KIAA1674
10	LRRC27	ENSG00000148814	ENST00000356571	protein_coding	KNOWN	None	29346	510	169	134145697	134161790	1	None	KIAA1674
10	LRRC27	ENSG00000148814	ENST00000368610	protein_coding	KNOWN	None	29346	1407	468	134150309	134195010	1	None	KIAA1674
10	LRRC27	ENSG00000148814	ENST00000432555	protein_coding	KNOWN	None	29346	1107	368	134150844	134180462	1	None	KIAA1674
HSCHR17_4_CTG4	KRTAP2-4	ENSG00000263091	ENST00000572903	protein_coding	KNOWN	None	18891	387	128	39221598	39222361	-1	None	KAP2.4
5	None	ENSG00000238738	ENST00000459031	miRNA	NOVEL	None	None	None	None	72449938	72450011	-1	None	None
HSCHR6_MHC_QBL	RPL32P1	ENSG00000233194	ENST00000414966	processed_pseudogene	KNOWN	None	10339	None	None	32976288	32976697	1	RPL32P	RPL32-L
8	None	ENSG00000253426	ENST00000518496	protein_coding	PUTATIVE	None	None	303	100	9009252	9013873	1	None	None
8	None	ENSG00000253426	ENST00000517816	nonsense_mediated_decay	KNOWN	None	None	165	54	9009302	9025646	1	None	None
8	None	ENSG00000253426	ENST00000521718	protein_coding	PUTATIVE	None	None	165	54	9009313	9013864	1	None	None
2	PKDCC	ENSG00000162878	ENST00000294964	protein_coding	KNOWN	CCDS33186	25123	1482	493	42275160	42285668	1	None	SgK493, Vlk
2	PKDCC	ENSG00000162878	ENST00000401498	nonsense_mediated_decay	KNOWN	None	25123	546	181	42275184	42284882	1	None	SgK493, Vlk
2	PKDCC	ENSG00000162878	ENST00000485578	retained_intron	KNOWN	None	25123	None	None	42275719	42280681	1	None	SgK493, Vlk
2	PKDCC	ENSG00000162878	ENST00000492861	retained_intron	KNOWN	None	25123	None	None	42275914	42281680	1	None	SgK493, Vlk
2	PKDCC	ENSG00000162878	ENST00000475868	retained_intron	KNOWN	None	25123	None	None	42281782	42282771	1	None	SgK493, Vlk
2	PKDCC	ENSG00000162878	ENST00000475241	retained_intron	KNOWN	None	25123	None	None	42281947	42284546	1	None	SgK493, Vlk
2	PKDCC	ENSG00000162878	ENST00000490302	retained_intron	KNOWN	None	25123	None	None	42282071	42285609	1	None	SgK493, Vlk
2	PKDCC	ENSG00000162878	ENST00000470578	retained_intron	KNOWN	None	25123	None	None	42282082	42285053	1	None	SgK493, Vlk
2	PKDCC	ENSG00000162878	ENST00000480099	processed_transcript	KNOWN	None	25123	None	None	42282097	42285326	1	None	SgK493, Vlk
5	None	ENSG00000249743	ENST00000515556	lincRNA	KNOWN	None	None	None	None	72509774	72584666	1	None	None
5	None	ENSG00000249743	ENST00000513379	lincRNA	KNOWN	None	None	None	None	72509781	72590757	1	None	None
5	None	ENSG00000249743	ENST00000427584	lincRNA	KNOWN	None	None	None	None	72509809	72540647	1	None	None
5	None	ENSG00000249743	ENST00000503403	lincRNA	KNOWN	None	None	None	None	72587417	72590761	1	None	None
5	None	ENSG00000249743	ENST00000513280	lincRNA	KNOWN	None	None	None	None	72587763	72590749	1	None	None
X	ZFRP1	ENSG00000234570	ENST00000457579	processed_pseudogene	KNOWN	None	38030	None	None	62098281	62104312	-1	None	None
17	TBC1D3	ENSG00000197681	ENST00000518551	protein_coding	PUTATIVE	None	19031	1782	593	36337711	36347030	-1	None	TBC1D3A, DKFZp434P2235, PRC17
17	TBC1D3	ENSG00000197681	ENST00000520599	retained_intron	KNOWN	None	19031	None	None	36337711	36348586	-1	None	TBC1D3A, DKFZp434P2235, PRC17
17	TBC1D3	ENSG00000197681	ENST00000517507	nonsense_mediated_decay	KNOWN	None	19031	348	115	36337711	36348597	-1	None	TBC1D3A, DKFZp434P2235, PRC17
17	TBC1D3	ENSG00000197681	ENST00000524102	nonsense_mediated_decay	KNOWN	None	19031	348	115	36337711	36348623	-1	None	TBC1D3A, DKFZp434P2235, PRC17
17	TBC1D3	ENSG00000197681	ENST00000354664	protein_coding	KNOWN	CCDS45658	19031	1650	549	36337711	36348666	-1	None	TBC1D3A, DKFZp434P2235, PRC17
17	TBC1D3	ENSG00000197681	ENST00000519496	retained_intron	KNOWN	None	19031	None	None	36337712	36346579	-1	None	TBC1D3A, DKFZp434P2235, PRC17
17	TBC1D3	ENSG00000197681	ENST00000519532	protein_coding	KNOWN	None	19031	1584	527	36337717	36347835	-1	None	TBC1D3A, DKFZp434P2235, PRC17
17	TBC1D3	ENSG00000197681	ENST00000537432	protein_coding	KNOWN	CCDS45658	19031	1650	549	36337717	36358166	-1	None	TBC1D3A, DKFZp434P2235, PRC17
17	TBC1D3	ENSG00000197681	ENST00000339023	protein_coding	KNOWN	None	19031	876	291	36337712	36348610	-1	None	TBC1D3A, DKFZp434P2235, PRC17
HSCHR6_MHC_QBL	HLA-DPA2	ENSG00000227286	ENST00000438900	unprocessed_pseudogene	KNOWN	None	4939	None	None	32988586	32994128	-1	HLA-DP2A	None
HSCHR17_4_CTG4	None	ENSG00000266286	ENST00000571574	protein_coding	NOVEL	None	None	633	210	39240638	39241794	1	None	None
16	DNAJA3	ENSG00000103423	ENST00000262375	protein_coding	KNOWN	CCDS10515	11808	1443	480	4475806	4506776	1	TID1	hTid-1
16	DNAJA3	ENSG00000103423	ENST00000355296	protein_coding	KNOWN	CCDS45400	11808	1362	453	4475861	4506776	1	TID1	hTid-1
16	DNAJA3	ENSG00000103423	ENST00000570857	nonsense_mediated_decay	KNOWN	None	11808	234	77	4475866	4492309	1	TID1	hTid-1
16	DNAJA3	ENSG00000103423	ENST00000575106	nonsense_mediated_decay	KNOWN	None	11808	369	122	4475866	4492384	1	TID1	hTid-1
16	DNAJA3	ENSG00000103423	ENST00000576911	nonsense_mediated_decay	KNOWN	None	11808	297	98	4475866	4505952	1	TID1	hTid-1
16	DNAJA3	ENSG00000103423	ENST00000572974	processed_transcript	PUTATIVE	None	11808	None	None	4475869	4481869	1	TID1	hTid-1
16	DNAJA3	ENSG00000103423	ENST00000574895	protein_coding	NOVEL	None	11808	555	184	4475880	4492394	1	TID1	hTid-1
16	DNAJA3	ENSG00000103423	ENST00000573120	retained_intron	KNOWN	None	11808	None	None	4476049	4487626	1	TID1	hTid-1
16	DNAJA3	ENSG00000103423	ENST00000572139	processed_transcript	KNOWN	None	11808	None	None	4483847	4491478	1	TID1	hTid-1
16	DNAJA3	ENSG00000103423	ENST00000572009	retained_intron	KNOWN	None	11808	None	None	4484299	4491402	1	TID1	hTid-1
16	DNAJA3	ENSG00000103423	ENST00000577083	retained_intron	KNOWN	None	11808	None	None	4490258	4497956	1	TID1	hTid-1
16	DNAJA3	ENSG00000103423	ENST00000576180	retained_intron	KNOWN	None	11808	None	None	4499555	4506773	1	TID1	hTid-1
16	DNAJA3	ENSG00000103423	ENST00000574393	processed_transcript	PUTATIVE	None	11808	None	None	4505493	4506776	1	TID1	hTid-1
16	DNAJA3	ENSG00000103423	ENST00000431375	protein_coding	KNOWN	None	11808	903	300	4475866	4505952	1	TID1	hTid-1
7	TRBV6-9	ENSG00000211732	ENST00000390379	TR_V_gene	KNOWN	None	12234	344	113	142104121	142104553	-1	None	TRBV69, TCRBV13S4, TCRBV6S9
10	RN7SKP241	ENSG00000240294	ENST00000464584	misc_RNA	KNOWN	None	45965	None	None	25197451	25197741	-1	None	None
19	ZNF849P	ENSG00000198153	ENST00000594711	unprocessed_pseudogene	KNOWN	None	34389	None	None	22867969	22869534	1	None	None
19	ZNF849P	ENSG00000198153	ENST00000340708	unprocessed_pseudogene	KNOWN	None	34389	None	None	22867969	22869468	1	None	None
HSCHR6_MHC_COX	None	ENSG00000257363	ENST00000552436	pseudogene	NOVEL	None	None	None	None	30313816	30313903	-1	None	None
HSCHR6_MHC_QBL	COL11A2P1	ENSG00000228164	ENST00000427206	unprocessed_pseudogene	KNOWN	None	13947	None	None	33000629	33004165	-1	COL11A2P	cD0826Q1.1
HSCHR17_4_CTG4	None	ENSG00000261968	ENST00000574631	protein_coding	NOVEL	None	None	588	195	39254169	39254756	-1	None	None
X	CBX1P1	ENSG00000230823	ENST00000440184	processed_pseudogene	KNOWN	None	38655	None	None	62519126	62519552	-1	None	None
X	CBX1P1	ENSG00000230823	ENST00000450308	processed_pseudogene	KNOWN	None	38655	None	None	62519126	62519551	-1	None	None
10	None	ENSG00000266069	ENST00000578627	miRNA	NOVEL	None	None	None	None	25380385	25380483	-1	None	None
9	LCN1P2	ENSG00000204031	ENST00000372030	unprocessed_pseudogene	KNOWN	None	23680	None	None	136184629	136185304	1	LCN1L2	bA244N20.11
22	IGKV2OR22-3	ENSG00000253460	ENST00000521969	IG_V_pseudogene	KNOWN	None	5812	None	None	17402333	17403063	-1	IGKVP4	IGKV2/OR22-3
HSCHR6_MHC_MCF	WDR46	ENSG00000236222	ENST00000477482	processed_transcript	PUTATIVE	None	13923	None	None	33417262	33418651	-1	C6orf11	BING4, UTP7
HSCHR6_MHC_MCF	WDR46	ENSG00000236222	ENST00000477631	retained_intron	KNOWN	None	13923	None	None	33417262	33418980	-1	C6orf11	BING4, UTP7
HSCHR6_MHC_MCF	WDR46	ENSG00000236222	ENST00000481795	processed_transcript	KNOWN	None	13923	None	None	33417262	33419040	-1	C6orf11	BING4, UTP7
HSCHR6_MHC_MCF	WDR46	ENSG00000236222	ENST00000432609	protein_coding	KNOWN	None	13923	1833	610	33417262	33427651	-1	C6orf11	BING4, UTP7
HSCHR6_MHC_MCF	WDR46	ENSG00000236222	ENST00000484940	retained_intron	KNOWN	None	13923	None	None	33417725	33425553	-1	C6orf11	BING4, UTP7
HSCHR6_MHC_MCF	WDR46	ENSG00000236222	ENST00000443102	protein_coding	KNOWN	None	13923	968	321	33419045	33427011	-1	C6orf11	BING4, UTP7
HSCHR6_MHC_MCF	WDR46	ENSG00000236222	ENST00000478053	retained_intron	KNOWN	None	13923	None	None	33425367	33426150	-1	C6orf11	BING4, UTP7
HSCHR6_MHC_MCF	WDR46	ENSG00000236222	ENST00000492912	processed_transcript	KNOWN	None	13923	None	None	33425616	33427371	-1	C6orf11	BING4, UTP7
HSCHR6_MHC_MCF	WDR46	ENSG00000236222	ENST00000474921	processed_transcript	KNOWN	None	13923	None	None	33425788	33427326	-1	C6orf11	BING4, UTP7
HSCHR6_MHC_MCF	WDR46	ENSG00000236222	ENST00000470218	retained_intron	KNOWN	None	13923	None	None	33426180	33427136	-1	C6orf11	BING4, UTP7
2	None	ENSG00000231890	ENST00000419808	antisense	KNOWN	None	None	None	None	136742746	136774099	1	None	None
2	None	ENSG00000231890	ENST00000438432	antisense	KNOWN	None	None	None	None	136742789	136765042	1	None	None
2	None	ENSG00000231890	ENST00000444406	antisense	KNOWN	None	None	None	None	136742904	136743706	1	None	None
2	None	ENSG00000231890	ENST00000446492	antisense	KNOWN	None	None	None	None	136743044	136756701	1	None	None
2	None	ENSG00000231890	ENST00000599018	antisense	KNOWN	None	None	None	None	136751418	136764889	1	None	None
2	None	ENSG00000231890	ENST00000595061	antisense	KNOWN	None	None	None	None	136751423	136756843	1	None	None
2	None	ENSG00000231890	ENST00000597450	antisense	KNOWN	None	None	None	None	136757218	136765327	1	None	None
2	None	ENSG00000231890	ENST00000598565	antisense	KNOWN	None	None	None	None	136757983	136765282	1	None	None
2	None	ENSG00000231890	ENST00000594219	antisense	KNOWN	None	None	None	None	136757983	136765327	1	None	None
2	None	ENSG00000231890	ENST00000399447	antisense	KNOWN	None	None	None	None	136757983	136766640	1	None	None
2	None	ENSG00000231890	ENST00000593462	antisense	KNOWN	None	None	None	None	136757983	136774195	1	None	None
2	None	ENSG00000231890	ENST00000594735	antisense	KNOWN	None	None	None	None	136757983	136774233	1	None	None
2	None	ENSG00000231890	ENST00000593405	antisense	KNOWN	None	None	None	None	136757983	136774268	1	None	None
2	None	ENSG00000231890	ENST00000601196	antisense	KNOWN	None	None	None	None	136757983	136774526	1	None	None
2	None	ENSG00000231890	ENST00000595624	antisense	KNOWN	None	None	None	None	136757983	136774882	1	None	None
2	None	ENSG00000231890	ENST00000601586	antisense	KNOWN	None	None	None	None	136757983	136779888	1	None	None
2	None	ENSG00000231890	ENST00000596410	antisense	KNOWN	None	None	None	None	136766473	136774378	1	None	None
2	None	ENSG00000231890	ENST00000599279	antisense	KNOWN	None	None	None	None	136766613	136774407	1	None	None
2	None	ENSG00000231890	ENST00000444649	antisense	KNOWN	None	None	None	None	136770035	136774067	1	None	None
HSCHR6_MHC_COX	HCG19P	ENSG00000234417	ENST00000456521	processed_pseudogene	KNOWN	None	31336	None	None	30316860	30317493	-1	None	AB014085.4
7	TRBV5-7	ENSG00000211731	ENST00000390378	TR_V_gene	KNOWN	None	12224	343	113	142111393	142111859	-1	None	TRBV57, TCRBV5S7, TCRBV5S7P
14	IGHV4-80	ENSG00000253128	ENST00000522457	IG_V_pseudogene	KNOWN	None	5656	None	None	107281000	107281252	-1	None	None
22	IGKV3OR22-2	ENSG00000254264	ENST00000517943	IG_V_pseudogene	KNOWN	None	5833	None	None	17406842	17407334	-1	IGKVP3	IGKV3/OR22-2
10	IL9RP2	ENSG00000232420	ENST00000423948	unprocessed_pseudogene	KNOWN	None	6032	None	None	126334	132205	-1	None	None
19	RPL34P33	ENSG00000241282	ENST00000486062	processed_pseudogene	KNOWN	None	36666	None	None	22882154	22882487	1	None	None
17	None	ENSG00000244456	ENST00000435925	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	20859995	20861717	1	None	None
10	None	ENSG00000231422	ENST00000436140	lincRNA	KNOWN	None	None	None	None	25401987	25450165	1	None	None
15	None	ENSG00000259931	ENST00000566222	processed_pseudogene	KNOWN	None	None	None	None	75805111	75805381	-1	None	None
HSCHR6_MHC_DBB	GNL1	ENSG00000229470	ENST00000428189	protein_coding	KNOWN	None	4413	1824	607	30499388	30515186	-1	None	HSR1
HSCHR6_MHC_DBB	GNL1	ENSG00000229470	ENST00000478986	retained_intron	KNOWN	None	4413	None	None	30504496	30510558	-1	None	HSR1
HSCHR6_MHC_DBB	GNL1	ENSG00000229470	ENST00000479883	retained_intron	KNOWN	None	4413	None	None	30505207	30505828	-1	None	HSR1
HSCHR6_MHC_DBB	GNL1	ENSG00000229470	ENST00000487687	retained_intron	KNOWN	None	4413	None	None	30510189	30511132	-1	None	HSR1
HSCHR6_MHC_DBB	GNL1	ENSG00000229470	ENST00000435788	protein_coding	KNOWN	None	4413	792	263	30511372	30514100	-1	None	HSR1
HSCHR6_MHC_DBB	GNL1	ENSG00000229470	ENST00000551708	protein_coding	KNOWN	None	4413	1290	429	30499396	30512656	-1	None	HSR1
HG243_PATCH	FBXL6	ENSG00000261539	ENST00000567326	retained_intron	KNOWN	None	13603	None	None	145410334	145412876	-1	None	FBL6
HG243_PATCH	FBXL6	ENSG00000261539	ENST00000564614	protein_coding	KNOWN	None	13603	1602	533	145410334	145413375	-1	None	FBL6
HG243_PATCH	FBXL6	ENSG00000261539	ENST00000565084	protein_coding	KNOWN	None	13603	1620	539	145410334	145413415	-1	None	FBL6
HG243_PATCH	FBXL6	ENSG00000261539	ENST00000562666	retained_intron	KNOWN	None	13603	None	None	145410334	145414279	-1	None	FBL6
HG243_PATCH	FBXL6	ENSG00000261539	ENST00000569138	protein_coding	PUTATIVE	None	13603	541	179	145410418	145411971	-1	None	FBL6
HG243_PATCH	FBXL6	ENSG00000261539	ENST00000566666	retained_intron	KNOWN	None	13603	None	None	145410991	145411773	-1	None	FBL6
HG243_PATCH	FBXL6	ENSG00000261539	ENST00000567450	protein_coding	NOVEL	None	13603	490	162	145411039	145411757	-1	None	FBL6
HG243_PATCH	FBXL6	ENSG00000261539	ENST00000569331	retained_intron	KNOWN	None	13603	None	None	145411853	145412829	-1	None	FBL6
HG243_PATCH	FBXL6	ENSG00000261539	ENST00000566832	retained_intron	KNOWN	None	13603	None	None	145412333	145413083	-1	None	FBL6
14	TRAV1-2	ENSG00000256553	ENST00000390423	TR_V_gene	KNOWN	None	12102	318	105	22111109	22111798	1	None	None
4	NPY2R	ENSG00000185149	ENST00000329476	protein_coding	KNOWN	CCDS3791	7957	1146	381	156129781	156138228	1	None	None
4	NPY2R	ENSG00000185149	ENST00000506608	protein_coding	KNOWN	CCDS3791	7957	1146	381	156129887	156138230	1	None	None
1	C1orf192	ENSG00000188931	ENST00000367974	protein_coding	KNOWN	CCDS30921	32325	534	177	161334521	161337664	-1	None	None
X	SPIN4-AS1	ENSG00000233661	ENST00000451979	antisense	KNOWN	None	41177	None	None	62569525	62572057	1	None	None
1	EIF4G3	ENSG00000075151	ENST00000264211	protein_coding	KNOWN	CCDS214	3298	4758	1585	21132963	21377487	-1	None	eIF4GII
1	EIF4G3	ENSG00000075151	ENST00000602326	protein_coding	KNOWN	CCDS55580	3298	4776	1591	21132976	21503343	-1	None	eIF4GII
1	EIF4G3	ENSG00000075151	ENST00000435383	processed_transcript	KNOWN	None	3298	None	None	21151597	21174438	-1	None	eIF4GII
1	EIF4G3	ENSG00000075151	ENST00000496705	processed_transcript	KNOWN	None	3298	None	None	21219152	21231430	-1	None	eIF4GII
1	EIF4G3	ENSG00000075151	ENST00000374933	processed_transcript	KNOWN	None	3298	None	None	21219604	21267891	-1	None	eIF4GII
1	EIF4G3	ENSG00000075151	ENST00000485722	processed_transcript	KNOWN	None	3298	None	None	21255863	21267977	-1	None	eIF4GII
1	EIF4G3	ENSG00000075151	ENST00000356916	protein_coding	KNOWN	CCDS59192	3298	1548	515	21267735	21501230	-1	None	eIF4GII
1	EIF4G3	ENSG00000075151	ENST00000438975	protein_coding	KNOWN	None	3298	652	216	21276499	21503377	-1	None	eIF4GII
1	EIF4G3	ENSG00000075151	ENST00000411888	protein_coding	NOVEL	None	3298	660	219	21295967	21503350	-1	None	eIF4GII
1	EIF4G3	ENSG00000075151	ENST00000476088	processed_transcript	KNOWN	None	3298	None	None	21299540	21308938	-1	None	eIF4GII
1	EIF4G3	ENSG00000075151	ENST00000463775	processed_transcript	KNOWN	None	3298	None	None	21391024	21438103	-1	None	eIF4GII
1	EIF4G3	ENSG00000075151	ENST00000400422	protein_coding	KNOWN	CCDS214	3298	4758	1585	21132976	21503340	-1	None	eIF4GII
1	EIF4G3	ENSG00000075151	ENST00000374935	protein_coding	KNOWN	None	3298	3918	1305	21133158	21377395	-1	None	eIF4GII
1	EIF4G3	ENSG00000075151	ENST00000374937	protein_coding	KNOWN	CCDS55580	3298	4776	1591	21133703	21377453	-1	None	eIF4GII
1	EIF4G3	ENSG00000075151	ENST00000536266	protein_coding	KNOWN	None	3298	3570	1189	21133741	21299529	-1	None	eIF4GII
1	EIF4G3	ENSG00000075151	ENST00000537738	protein_coding	KNOWN	None	3298	3228	1075	21133197	21226406	-1	None	eIF4GII
1	EIF4G3	ENSG00000075151	ENST00000544689	protein_coding	KNOWN	None	3298	744	247	21219980	21268111	-1	None	eIF4GII
1	EIF4G3	ENSG00000075151	ENST00000374927	protein_coding	KNOWN	None	3298	1515	504	21267740	21415701	-1	None	eIF4GII
7	None	ENSG00000232759	ENST00000435127	processed_transcript	KNOWN	None	None	None	None	22602956	22613615	1	None	None
19	MUM1	ENSG00000160953	ENST00000592374	protein_coding	KNOWN	None	29641	142	46	1354710	1357089	1	None	MUM-1
19	MUM1	ENSG00000160953	ENST00000588351	retained_intron	KNOWN	None	29641	None	None	1354921	1357498	1	None	MUM-1
19	MUM1	ENSG00000160953	ENST00000591337	protein_coding	KNOWN	None	29641	755	250	1354976	1360672	1	None	MUM-1
19	MUM1	ENSG00000160953	ENST00000590866	retained_intron	KNOWN	None	29641	None	None	1354978	1359893	1	None	MUM-1
19	MUM1	ENSG00000160953	ENST00000588810	nonsense_mediated_decay	KNOWN	None	29641	240	79	1356322	1360597	1	None	MUM-1
19	MUM1	ENSG00000160953	ENST00000591433	nonsense_mediated_decay	KNOWN	None	29641	240	79	1356322	1371478	1	None	MUM-1
19	MUM1	ENSG00000160953	ENST00000591806	protein_coding	KNOWN	CCDS12062	29641	2136	711	1356322	1378429	1	None	MUM-1
19	MUM1	ENSG00000160953	ENST00000587460	nonsense_mediated_decay	KNOWN	None	29641	240	79	1356363	1376916	1	None	MUM-1
19	MUM1	ENSG00000160953	ENST00000415183	protein_coding	NOVEL	None	29641	2199	732	1356363	1376916	1	None	MUM-1
19	MUM1	ENSG00000160953	ENST00000590695	retained_intron	KNOWN	None	29641	None	None	1356977	1360630	1	None	MUM-1
19	MUM1	ENSG00000160953	ENST00000586996	retained_intron	KNOWN	None	29641	None	None	1361900	1366350	1	None	MUM-1
19	MUM1	ENSG00000160953	ENST00000585399	retained_intron	KNOWN	None	29641	None	None	1369103	1370777	1	None	MUM-1
19	MUM1	ENSG00000160953	ENST00000586067	processed_transcript	KNOWN	None	29641	None	None	1371322	1376864	1	None	MUM-1
19	MUM1	ENSG00000160953	ENST00000591627	retained_intron	KNOWN	None	29641	None	None	1372098	1376916	1	None	MUM-1
19	MUM1	ENSG00000160953	ENST00000591453	processed_transcript	KNOWN	None	29641	None	None	1372237	1376916	1	None	MUM-1
19	MUM1	ENSG00000160953	ENST00000588888	processed_transcript	KNOWN	None	29641	None	None	1373506	1376916	1	None	MUM-1
19	MUM1	ENSG00000160953	ENST00000344663	protein_coding	KNOWN	CCDS12062	29641	2136	711	1285890	1378430	1	None	MUM-1
19	MUM1	ENSG00000160953	ENST00000311401	protein_coding	KNOWN	None	29641	1929	642	1356323	1378430	1	None	MUM-1
HSCHR6_MHC_QBL	HLA-DPB2	ENSG00000234834	ENST00000438214	processed_transcript	KNOWN	None	4941	None	None	33009286	33016022	1	HLA-DP2B	DP2B, DPB2
HSCHR6_MHC_QBL	HLA-DPB2	ENSG00000234834	ENST00000485953	transcribed_unprocessed_pseudogene	KNOWN	None	4941	None	None	33009351	33025634	1	HLA-DP2B	DP2B, DPB2
17	None	ENSG00000266009	ENST00000584971	transcribed_processed_pseudogene	KNOWN	None	None	None	None	20884802	20884967	1	None	None
14	IGHVIII-82	ENSG00000253303	ENST00000522058	IG_V_pseudogene	KNOWN	None	5709	None	None	107287770	107288019	-1	None	IGHV(III)-82
18	RNU6-742P	ENSG00000202159	ENST00000365289	snRNA	KNOWN	None	47705	None	None	55422626	55422732	1	None	None
11	None	ENSG00000254740	ENST00000530918	antisense	KNOWN	None	None	None	None	119243416	119252323	1	None	None
11	None	ENSG00000254740	ENST00000528510	antisense	KNOWN	None	None	None	None	119251452	119252291	1	None	None
1	None	ENSG00000271746	ENST00000607670	antisense	KNOWN	None	None	None	None	6453615	6454451	1	None	None
17	None	ENSG00000263729	ENST00000582896	processed_pseudogene	KNOWN	None	None	None	None	20887215	20887359	1	None	None
16	ARHGAP17	ENSG00000140750	ENST00000289968	protein_coding	KNOWN	CCDS32409	18239	2646	881	24930706	25026652	-1	None	RICH1, FLJ10308, NADRIN, FLJ13219, WBP15
16	ARHGAP17	ENSG00000140750	ENST00000573703	retained_intron	KNOWN	None	18239	None	None	24930710	24932325	-1	None	RICH1, FLJ10308, NADRIN, FLJ13219, WBP15
16	ARHGAP17	ENSG00000140750	ENST00000570320	retained_intron	KNOWN	None	18239	None	None	24930714	24948148	-1	None	RICH1, FLJ10308, NADRIN, FLJ13219, WBP15
16	ARHGAP17	ENSG00000140750	ENST00000303665	protein_coding	KNOWN	CCDS32408	18239	2412	803	24930714	25026652	-1	None	RICH1, FLJ10308, NADRIN, FLJ13219, WBP15
16	ARHGAP17	ENSG00000140750	ENST00000571843	protein_coding	PUTATIVE	None	18239	385	127	24930716	24942481	-1	None	RICH1, FLJ10308, NADRIN, FLJ13219, WBP15
16	ARHGAP17	ENSG00000140750	ENST00000575283	retained_intron	KNOWN	None	18239	None	None	24930718	24951242	-1	None	RICH1, FLJ10308, NADRIN, FLJ13219, WBP15
16	ARHGAP17	ENSG00000140750	ENST00000573765	protein_coding	PUTATIVE	None	18239	706	234	24930719	24942721	-1	None	RICH1, FLJ10308, NADRIN, FLJ13219, WBP15
16	ARHGAP17	ENSG00000140750	ENST00000571406	protein_coding	PUTATIVE	None	18239	287	94	24930735	24942344	-1	None	RICH1, FLJ10308, NADRIN, FLJ13219, WBP15
16	ARHGAP17	ENSG00000140750	ENST00000572314	retained_intron	KNOWN	None	18239	None	None	24931213	24968857	-1	None	RICH1, FLJ10308, NADRIN, FLJ13219, WBP15
16	ARHGAP17	ENSG00000140750	ENST00000575412	retained_intron	KNOWN	None	18239	None	None	24953017	24955163	-1	None	RICH1, FLJ10308, NADRIN, FLJ13219, WBP15
16	ARHGAP17	ENSG00000140750	ENST00000570841	retained_intron	KNOWN	None	18239	None	None	24955156	24966077	-1	None	RICH1, FLJ10308, NADRIN, FLJ13219, WBP15
16	ARHGAP17	ENSG00000140750	ENST00000575656	retained_intron	KNOWN	None	18239	None	None	24960303	24971302	-1	None	RICH1, FLJ10308, NADRIN, FLJ13219, WBP15
16	ARHGAP17	ENSG00000140750	ENST00000576387	processed_transcript	KNOWN	None	18239	None	None	24960449	24966008	-1	None	RICH1, FLJ10308, NADRIN, FLJ13219, WBP15
16	ARHGAP17	ENSG00000140750	ENST00000575975	processed_transcript	KNOWN	None	18239	None	None	24966013	25026582	-1	None	RICH1, FLJ10308, NADRIN, FLJ13219, WBP15
16	ARHGAP17	ENSG00000140750	ENST00000455311	protein_coding	PUTATIVE	None	18239	633	210	24971238	25026662	-1	None	RICH1, FLJ10308, NADRIN, FLJ13219, WBP15
16	ARHGAP17	ENSG00000140750	ENST00000571480	nonsense_mediated_decay	KNOWN	None	18239	375	124	24975518	25026658	-1	None	RICH1, FLJ10308, NADRIN, FLJ13219, WBP15
16	ARHGAP17	ENSG00000140750	ENST00000573625	nonsense_mediated_decay	KNOWN	None	18239	216	71	24975566	25026621	-1	None	RICH1, FLJ10308, NADRIN, FLJ13219, WBP15
16	ARHGAP17	ENSG00000140750	ENST00000571575	retained_intron	KNOWN	None	18239	None	None	24975605	24988777	-1	None	RICH1, FLJ10308, NADRIN, FLJ13219, WBP15
16	ARHGAP17	ENSG00000140750	ENST00000573449	protein_coding	PUTATIVE	None	18239	230	75	24979672	25026987	-1	None	RICH1, FLJ10308, NADRIN, FLJ13219, WBP15
16	ARHGAP17	ENSG00000140750	ENST00000575447	retained_intron	KNOWN	None	18239	None	None	24979883	25026658	-1	None	RICH1, FLJ10308, NADRIN, FLJ13219, WBP15
16	ARHGAP17	ENSG00000140750	ENST00000441763	protein_coding	KNOWN	None	18239	681	226	24930710	25026675	-1	None	RICH1, FLJ10308, NADRIN, FLJ13219, WBP15
9	None	ENSG00000201451	ENST00000364581	misc_RNA	NOVEL	None	None	None	None	136204565	136204661	-1	None	None
3	FOXP1-IT1	ENSG00000242094	ENST00000498714	sense_intronic	KNOWN	None	41335	None	None	71619406	71623608	-1	None	None
8	None	ENSG00000253960	ENST00000517796	lincRNA	KNOWN	None	None	None	None	94228154	94247107	-1	None	None
18	RSL24D1P11	ENSG00000231544	ENST00000591045	processed_pseudogene	KNOWN	None	37881	None	None	55505708	55506198	1	None	None
18	RSL24D1P11	ENSG00000231544	ENST00000440667	processed_pseudogene	KNOWN	None	37881	None	None	55505708	55506196	1	None	None
3	CBLB	ENSG00000114423	ENST00000394030	protein_coding	PUTATIVE	None	1542	966	321	105374305	105421045	-1	None	RNF56, Cbl-b
3	CBLB	ENSG00000114423	ENST00000264122	protein_coding	KNOWN	CCDS2948	1542	2949	982	105374305	105587887	-1	None	RNF56, Cbl-b
3	CBLB	ENSG00000114423	ENST00000476370	retained_intron	KNOWN	None	1542	None	None	105377113	105392837	-1	None	RNF56, Cbl-b
3	CBLB	ENSG00000114423	ENST00000407712	protein_coding	PUTATIVE	None	1542	594	197	105377249	105400974	-1	None	RNF56, Cbl-b
3	CBLB	ENSG00000114423	ENST00000403724	protein_coding	KNOWN	None	1542	2313	770	105399836	105587887	-1	None	RNF56, Cbl-b
3	CBLB	ENSG00000114423	ENST00000405772	protein_coding	KNOWN	None	1542	2433	810	105399836	105587887	-1	None	RNF56, Cbl-b
3	CBLB	ENSG00000114423	ENST00000438603	protein_coding	PUTATIVE	None	1542	485	160	105572258	105588266	-1	None	RNF56, Cbl-b
3	CBLB	ENSG00000114423	ENST00000447441	protein_coding	PUTATIVE	None	1542	419	138	105572258	105588266	-1	None	RNF56, Cbl-b
3	CBLB	ENSG00000114423	ENST00000443752	protein_coding	KNOWN	None	1542	419	138	105572258	105588396	-1	None	RNF56, Cbl-b
3	CBLB	ENSG00000114423	ENST00000394027	protein_coding	KNOWN	None	1542	2883	960	105377281	105588246	-1	None	RNF56, Cbl-b
3	CBLB	ENSG00000114423	ENST00000545639	protein_coding	KNOWN	None	1542	684	227	105438904	105588243	-1	None	RNF56, Cbl-b
HSCHR21_4_CTG1_1	DNAJC28	ENSG00000262911	ENST00000572540	protein_coding	KNOWN	None	1297	1167	388	34870054	34873585	-1	C21orf55	C21orf78
HSCHR21_4_CTG1_1	DNAJC28	ENSG00000262911	ENST00000571432	protein_coding	KNOWN	None	1297	1167	388	34870072	34873338	-1	C21orf55	C21orf78
HSCHR21_4_CTG1_1	DNAJC28	ENSG00000262911	ENST00000573306	protein_coding	KNOWN	None	1297	1167	388	34870083	34873556	-1	C21orf55	C21orf78
17	None	ENSG00000263986	ENST00000580962	antisense	KNOWN	None	None	None	None	20903060	20903636	1	None	None
9	None	ENSG00000230064	ENST00000439130	processed_pseudogene	KNOWN	None	None	None	None	136205827	136206302	1	None	None
11	None	ENSG00000256341	ENST00000543817	antisense	KNOWN	None	None	None	None	63885744	63886682	-1	None	None
9	SNORD24	ENSG00000206611	ENST00000383884	snoRNA	KNOWN	None	10146	None	None	136216251	136216325	1	RNU24	U24
7	TRBV7-7	ENSG00000253291	ENST00000390377	TR_V_gene	KNOWN	None	12241	347	114	142119820	142120321	-1	None	TRBV77, TCRBV6S6A2T, TCRBV7S7
7	None	ENSG00000225541	ENST00000442252	processed_transcript	KNOWN	None	None	None	None	22611226	22701411	-1	None	None
3	CLDND1	ENSG00000080822	ENST00000502288	protein_coding	PUTATIVE	None	1322	264	87	98216756	98241731	-1	C3orf4	None
3	CLDND1	ENSG00000080822	ENST00000507874	protein_coding	PUTATIVE	None	1322	633	210	98219684	98241766	-1	C3orf4	None
3	CLDND1	ENSG00000080822	ENST00000341181	protein_coding	KNOWN	CCDS2930	1322	762	253	98234317	98241887	-1	C3orf4	None
3	CLDND1	ENSG00000080822	ENST00000394180	protein_coding	KNOWN	CCDS2930	1322	762	253	98234324	98241910	-1	C3orf4	None
3	CLDND1	ENSG00000080822	ENST00000506885	protein_coding	PUTATIVE	None	1322	468	155	98234327	98240127	-1	C3orf4	None
3	CLDND1	ENSG00000080822	ENST00000503004	protein_coding	KNOWN	CCDS2930	1322	762	253	98234327	98241358	-1	C3orf4	None
3	CLDND1	ENSG00000080822	ENST00000394185	protein_coding	KNOWN	CCDS2930	1322	762	253	98234327	98241829	-1	C3orf4	None
3	CLDND1	ENSG00000080822	ENST00000394181	protein_coding	KNOWN	CCDS2930	1322	762	253	98234327	98241862	-1	C3orf4	None
3	CLDND1	ENSG00000080822	ENST00000513873	protein_coding	PUTATIVE	None	1322	219	72	98234328	98236004	-1	C3orf4	None
3	CLDND1	ENSG00000080822	ENST00000510545	protein_coding	KNOWN	CCDS2930	1322	762	253	98234331	98241803	-1	C3orf4	None
3	CLDND1	ENSG00000080822	ENST00000511081	protein_coding	KNOWN	CCDS43116	1322	477	158	98235388	98241749	-1	C3orf4	None
3	CLDND1	ENSG00000080822	ENST00000513287	protein_coding	KNOWN	CCDS2930	1322	762	253	98235497	98241598	-1	C3orf4	None
3	CLDND1	ENSG00000080822	ENST00000506927	retained_intron	KNOWN	None	1322	None	None	98235498	98236189	-1	C3orf4	None
3	CLDND1	ENSG00000080822	ENST00000511667	protein_coding	NOVEL	None	1322	670	222	98235529	98241808	-1	C3orf4	None
3	CLDND1	ENSG00000080822	ENST00000513452	protein_coding	KNOWN	None	1322	734	243	98235531	98241449	-1	C3orf4	None
3	CLDND1	ENSG00000080822	ENST00000502299	protein_coding	KNOWN	None	1322	718	238	98235547	98241775	-1	C3orf4	None
3	CLDND1	ENSG00000080822	ENST00000512147	protein_coding	PUTATIVE	None	1322	365	120	98235555	98241743	-1	C3orf4	None
3	CLDND1	ENSG00000080822	ENST00000508902	protein_coding	KNOWN	None	1322	710	235	98235555	98241885	-1	C3orf4	None
3	CLDND1	ENSG00000080822	ENST00000510541	protein_coding	PUTATIVE	None	1322	302	99	98235618	98241746	-1	C3orf4	None
3	CLDND1	ENSG00000080822	ENST00000508503	processed_transcript	KNOWN	None	1322	None	None	98235621	98241799	-1	C3orf4	None
3	CLDND1	ENSG00000080822	ENST00000514537	protein_coding	KNOWN	None	1322	639	212	98235626	98241690	-1	C3orf4	None
3	CLDND1	ENSG00000080822	ENST00000507411	retained_intron	KNOWN	None	1322	None	None	98235667	98241719	-1	C3orf4	None
3	CLDND1	ENSG00000080822	ENST00000515620	protein_coding	KNOWN	None	1322	541	179	98235896	98241450	-1	C3orf4	None
3	CLDND1	ENSG00000080822	ENST00000507944	protein_coding	KNOWN	None	1322	531	176	98235906	98241695	-1	C3orf4	None
3	CLDND1	ENSG00000080822	ENST00000508659	protein_coding	KNOWN	None	1322	517	171	98235920	98241799	-1	C3orf4	None
3	CLDND1	ENSG00000080822	ENST00000503621	protein_coding	NOVEL	None	1322	415	137	98235956	98241746	-1	C3orf4	None
3	CLDND1	ENSG00000080822	ENST00000503799	nonsense_mediated_decay	KNOWN	None	1322	321	106	98235983	98241719	-1	C3orf4	None
3	CLDND1	ENSG00000080822	ENST00000508071	protein_coding	KNOWN	None	1322	435	144	98236002	98241690	-1	C3orf4	None
3	CLDND1	ENSG00000080822	ENST00000513988	retained_intron	KNOWN	None	1322	None	None	98237579	98241719	-1	C3orf4	None
3	CLDND1	ENSG00000080822	ENST00000502980	retained_intron	KNOWN	None	1322	None	None	98239563	98241746	-1	C3orf4	None
3	CLDND1	ENSG00000080822	ENST00000506575	protein_coding	KNOWN	None	1322	269	88	98240000	98241446	-1	C3orf4	None
3	CLDND1	ENSG00000080822	ENST00000437922	protein_coding	KNOWN	CCDS46877	1322	831	276	98234318	98241910	-1	C3orf4	None
17	None	ENSG00000236819	ENST00000456235	lincRNA	KNOWN	None	None	None	None	20978869	20993928	1	None	None
10	RNA5SP297	ENSG00000212331	ENST00000391029	rRNA	KNOWN	None	43197	None	None	200771	200883	-1	RN5S297	None
3	None	ENSG00000270562	ENST00000604491	lincRNA	KNOWN	None	None	None	None	71634094	71636560	1	None	None
19	None	ENSG00000270475	ENST00000603282	processed_pseudogene	KNOWN	None	None	None	None	22891636	22892116	-1	None	None
9	SNORD36B	ENSG00000200831	ENST00000363961	snoRNA	KNOWN	None	10164	None	None	136216950	136217023	1	RNU36B	U36b
11	C11orf74	ENSG00000166352	ENST00000334307	protein_coding	KNOWN	CCDS7904	25142	666	221	36616051	36680818	1	None	FLJ38678, HEPIS
11	C11orf74	ENSG00000166352	ENST00000531554	protein_coding	KNOWN	None	25142	542	179	36616063	36680612	1	None	FLJ38678, HEPIS
11	C11orf74	ENSG00000166352	ENST00000347206	protein_coding	KNOWN	None	25142	444	147	36616063	36680822	1	None	FLJ38678, HEPIS
11	C11orf74	ENSG00000166352	ENST00000534635	protein_coding	KNOWN	None	25142	444	147	36616066	36680824	1	None	FLJ38678, HEPIS
11	C11orf74	ENSG00000166352	ENST00000524539	retained_intron	KNOWN	None	25142	None	None	36616081	36669876	1	None	FLJ38678, HEPIS
11	C11orf74	ENSG00000166352	ENST00000530697	protein_coding	KNOWN	None	25142	249	82	36616107	36654946	1	None	FLJ38678, HEPIS
11	C11orf74	ENSG00000166352	ENST00000527108	protein_coding	KNOWN	None	25142	272	89	36616121	36669701	1	None	FLJ38678, HEPIS
11	C11orf74	ENSG00000166352	ENST00000528092	nonsense_mediated_decay	KNOWN	None	25142	330	109	36616171	36680834	1	None	FLJ38678, HEPIS
11	C11orf74	ENSG00000166352	ENST00000532470	protein_coding	KNOWN	CCDS7904	25142	666	221	36616400	36680824	1	None	FLJ38678, HEPIS
11	C11orf74	ENSG00000166352	ENST00000446510	protein_coding	KNOWN	None	25142	504	167	36616067	36694823	1	None	FLJ38678, HEPIS
15	None	ENSG00000260269	ENST00000566032	processed_transcript	KNOWN	None	None	None	None	75819491	75893546	-1	None	None
15	None	ENSG00000260269	ENST00000565138	processed_transcript	KNOWN	None	None	None	None	75819520	75893525	-1	None	None
15	None	ENSG00000260269	ENST00000567875	processed_transcript	KNOWN	None	None	None	None	75819520	75893527	-1	None	None
15	None	ENSG00000260269	ENST00000568707	processed_transcript	KNOWN	None	None	None	None	75819520	75893527	-1	None	None
14	PTCD2P1	ENSG00000258456	ENST00000554393	processed_pseudogene	KNOWN	None	31718	None	None	20992446	20993581	-1	None	None
12	None	ENSG00000257037	ENST00000542842	processed_pseudogene	KNOWN	None	None	None	None	27649870	27651522	1	None	None
9	CENPP	ENSG00000188312	ENST00000375587	protein_coding	KNOWN	CCDS35063	32933	867	288	95087766	95382815	1	None	RP11-19J3.3, CENP-P
9	CENPP	ENSG00000188312	ENST00000375579	protein_coding	KNOWN	None	32933	348	115	95362539	95377446	1	None	RP11-19J3.3, CENP-P
9	CENPP	ENSG00000188312	ENST00000375576	protein_coding	KNOWN	None	32933	309	102	95372826	95377446	1	None	RP11-19J3.3, CENP-P
10	None	ENSG00000264248	ENST00000579524	miRNA	NOVEL	None	None	None	None	323124	323248	1	None	None
17	None	ENSG00000235530	ENST00000580291	antisense	KNOWN	None	None	None	None	21117644	21122433	1	None	None
17	None	ENSG00000235530	ENST00000439136	antisense	KNOWN	None	None	None	None	21117644	21133348	1	None	None
12	OVCH1-AS1	ENSG00000257599	ENST00000551108	protein_coding	PUTATIVE	None	44484	429	142	29542227	29640221	1	None	None
12	OVCH1-AS1	ENSG00000257599	ENST00000550906	protein_coding	PUTATIVE	None	44484	380	125	29542671	29617674	1	None	None
12	OVCH1-AS1	ENSG00000257599	ENST00000549411	processed_transcript	PUTATIVE	None	44484	None	None	29578858	29640421	1	None	None
4	EMCN-IT1	ENSG00000251636	ENST00000515150	sense_intronic	KNOWN	None	41420	None	None	101733412	101735437	-1	None	None
20	None	ENSG00000221174	ENST00000408247	miRNA	NOVEL	None	None	None	None	57180140	57180283	1	None	None
7	TRBV6-8	ENSG00000253534	ENST00000390376	TR_V_gene	KNOWN	None	12233	341	112	142124137	142124565	-1	None	TRBV68, TCRBV13S7P, TCRBV6S8
9	SNORD36A	ENSG00000199744	ENST00000362874	snoRNA	KNOWN	None	10163	None	None	136217311	136217383	1	RNU36A	U36a
X	TCEANC	ENSG00000176896	ENST00000490617	processed_transcript	KNOWN	None	28277	None	None	13671308	13682947	1	None	MGC17403
X	TCEANC	ENSG00000176896	ENST00000380600	protein_coding	KNOWN	None	28277	1056	351	13673414	13683528	1	None	MGC17403
X	TCEANC	ENSG00000176896	ENST00000467590	nonsense_mediated_decay	KNOWN	None	28277	818	271	13680863	13700083	1	None	MGC17403
X	TCEANC	ENSG00000176896	ENST00000463321	processed_transcript	KNOWN	None	28277	None	None	13684195	13686288	1	None	MGC17403
X	TCEANC	ENSG00000176896	ENST00000314720	protein_coding	KNOWN	CCDS48081	28277	1146	381	13671307	13682247	1	None	MGC17403
X	TCEANC	ENSG00000176896	ENST00000545566	protein_coding	KNOWN	None	28277	1056	351	13671225	13681780	1	None	MGC17403
X	TCEANC	ENSG00000176896	ENST00000544987	protein_coding	KNOWN	None	28277	1056	351	13671252	13681683	1	None	MGC17403
9	None	ENSG00000227582	ENST00000435875	transcribed_processed_pseudogene	KNOWN	None	None	None	None	66516697	66517831	-1	None	None
9	None	ENSG00000227582	ENST00000590130	processed_transcript	KNOWN	None	None	None	None	66517206	66520781	-1	None	None
X	MORF4L2-AS1	ENSG00000231154	ENST00000435306	processed_transcript	KNOWN	None	27991	None	None	102942212	102946700	1	None	None
3	RN7SL271P	ENSG00000239250	ENST00000487601	misc_RNA	KNOWN	None	46287	None	None	71876328	71876614	1	None	None
10	RNA5SP298	ENSG00000201861	ENST00000364991	rRNA	KNOWN	None	43198	None	None	327955	328065	-1	RN5S298	None
HSCHR6_MHC_QBL	HLA-DPA3	ENSG00000224929	ENST00000445801	unprocessed_pseudogene	KNOWN	None	19393	None	None	33027765	33039900	-1	None	None
7	None	ENSG00000232949	ENST00000439823	lincRNA	KNOWN	None	None	None	None	22629324	22631241	1	None	None
3	SENP5	ENSG00000119231	ENST00000445299	protein_coding	NOVEL	None	28407	2130	709	196594727	196657906	1	None	MGC27076
3	SENP5	ENSG00000119231	ENST00000323460	protein_coding	KNOWN	CCDS3322	28407	2268	755	196594727	196661585	1	None	MGC27076
3	SENP5	ENSG00000119231	ENST00000419026	protein_coding	PUTATIVE	None	28407	738	245	196594816	196657883	1	None	MGC27076
3	SENP5	ENSG00000119231	ENST00000489744	processed_transcript	KNOWN	None	28407	None	None	196626910	196632095	1	None	MGC27076
3	SENP5	ENSG00000119231	ENST00000448068	protein_coding	NOVEL	None	28407	296	97	196650289	196657982	1	None	MGC27076
3	SENP5	ENSG00000119231	ENST00000434433	protein_coding	PUTATIVE	None	28407	233	76	196654683	196659199	1	None	MGC27076
3	SENP5	ENSG00000119231	ENST00000463245	retained_intron	KNOWN	None	28407	None	None	196656057	196657950	1	None	MGC27076
3	HDAC11-AS1	ENSG00000244502	ENST00000424112	antisense	KNOWN	None	40868	None	None	13518482	13521553	-1	None	None
9	SNORD36C	ENSG00000252542	ENST00000516733	snoRNA	KNOWN	None	10165	None	None	136217702	136217767	1	RNU36C	U36c
11	None	ENSG00000256116	ENST00000534988	antisense	KNOWN	None	None	None	None	63996686	64001764	-1	None	None
11	None	ENSG00000256116	ENST00000539963	antisense	KNOWN	None	None	None	None	63998695	64001824	-1	None	None
17	RN7SL426P	ENSG00000263815	ENST00000579106	misc_RNA	KNOWN	None	46442	None	None	21132649	21132941	-1	None	None
19	VN1R87P	ENSG00000268789	ENST00000596706	unprocessed_pseudogene	KNOWN	None	37407	None	None	22925726	22926212	-1	None	None
HSCHR6_MHC_QBL	HCG24	ENSG00000238100	ENST00000457603	processed_transcript	PUTATIVE	None	23500	None	None	33041365	33044349	1	None	dJ1033B10.15
8	None	ENSG00000253162	ENST00000520815	sense_intronic	KNOWN	None	None	None	None	3230875	3232748	-1	None	None
10	RN7SL754P	ENSG00000239822	ENST00000470784	misc_RNA	KNOWN	None	46770	None	None	476181	476444	-1	None	None
17	None	ENSG00000266563	ENST00000585002	unprocessed_pseudogene	KNOWN	None	None	None	None	21163280	21163813	-1	None	None
7	None	ENSG00000238033	ENST00000414116	lincRNA	KNOWN	None	None	None	None	22689579	22705152	-1	None	None
HSCHR6_MHC_QBL	None	ENSG00000265071	ENST00000481041	misc_RNA	NOVEL	None	None	None	None	33096204	33096298	1	None	None
7	TRBV5-6	ENSG00000211728	ENST00000390375	TR_V_gene	KNOWN	None	12223	343	113	142131412	142131918	-1	None	TRBV56, TCRBV5S2, TCRBV5S6
10	None	ENSG00000233021	ENST00000425723	antisense	KNOWN	None	None	None	None	483501	487110	1	None	None
14	SETP1	ENSG00000258863	ENST00000556014	processed_pseudogene	KNOWN	None	19279	None	None	20996274	20997118	-1	SETP19	SETP
HSCHR6_MHC_QBL	None	ENSG00000263552	ENST00000580386	miRNA	KNOWN	None	None	None	None	33104442	33104551	1	None	None
2	None	ENSG00000237262	ENST00000448672	lincRNA	KNOWN	None	None	None	None	136835462	136836083	1	None	None
12	None	ENSG00000257878	ENST00000551849	antisense	KNOWN	None	None	None	None	96390299	96405267	1	None	None
11	None	ENSG00000264378	ENST00000583154	miRNA	NOVEL	None	None	None	None	17076459	17076554	1	None	None
16	None	ENSG00000258582	ENST00000557393	lincRNA	KNOWN	None	None	None	None	73517216	73521643	1	None	None
1	MIR4252	ENSG00000265392	ENST00000585139	miRNA	KNOWN	None	38384	None	None	6489894	6489956	-1	None	hsa-mir-4252
3	None	ENSG00000244130	ENST00000490086	processed_pseudogene	KNOWN	None	None	None	None	72055925	72056126	1	None	None
HSCHR6_MHC_QBL	ZNF70P1	ENSG00000231030	ENST00000420486	processed_pseudogene	KNOWN	None	13846	None	None	33112312	33112935	1	ZNF314P	dJ1033B10.7, bCX269C15.3
8	RNA5SP251	ENSG00000222546	ENST00000410614	rRNA	KNOWN	None	43151	None	None	3558014	3558150	1	RN5S251	None
2	CBWD2	ENSG00000136682	ENST00000259199	protein_coding	KNOWN	CCDS2116	17907	1188	395	114195268	114253766	1	None	None
2	CBWD2	ENSG00000136682	ENST00000358604	nonsense_mediated_decay	KNOWN	None	17907	177	58	114195368	114253696	1	None	None
2	CBWD2	ENSG00000136682	ENST00000463627	retained_intron	KNOWN	None	17907	None	None	114195394	114199306	1	None	None
2	CBWD2	ENSG00000136682	ENST00000456188	nonsense_mediated_decay	KNOWN	None	17907	549	182	114195399	114253376	1	None	None
2	CBWD2	ENSG00000136682	ENST00000490323	retained_intron	KNOWN	None	17907	None	None	114195416	114201952	1	None	None
2	CBWD2	ENSG00000136682	ENST00000492566	retained_intron	KNOWN	None	17907	None	None	114195456	114220411	1	None	None
2	CBWD2	ENSG00000136682	ENST00000490446	retained_intron	KNOWN	None	17907	None	None	114201339	114203117	1	None	None
2	CBWD2	ENSG00000136682	ENST00000479583	retained_intron	KNOWN	None	17907	None	None	114226162	114253696	1	None	None
2	CBWD2	ENSG00000136682	ENST00000468417	retained_intron	KNOWN	None	17907	None	None	114239095	114253698	1	None	None
2	CBWD2	ENSG00000136682	ENST00000416503	protein_coding	KNOWN	None	17907	1131	376	114195340	114253748	1	None	None
2	CBWD2	ENSG00000136682	ENST00000433343	protein_coding	KNOWN	None	17907	1080	359	114195340	114253748	1	None	None
19	None	ENSG00000180081	ENST00000442497	lincRNA	KNOWN	None	None	None	None	22934985	22937677	-1	None	None
2	HNRNPKP2	ENSG00000227347	ENST00000447355	processed_pseudogene	KNOWN	None	42375	None	None	136956684	136958073	-1	None	None
3	LINC00620	ENSG00000224514	ENST00000438915	antisense	KNOWN	None	44223	None	None	13692196	13788126	1	None	None
3	LINC00620	ENSG00000224514	ENST00000419618	antisense	KNOWN	None	44223	None	None	13692221	13788132	1	None	None
HG1293_PATCH	C1orf147	ENSG00000265476	ENST00000580607	protein_coding	KNOWN	None	32061	813	270	206554677	206561289	-1	None	FLJ32597
8	RN7SL872P	ENSG00000264588	ENST00000581372	misc_RNA	KNOWN	None	46888	None	None	4250344	4250612	1	None	None
11	ZBTB3	ENSG00000185670	ENST00000530112	nonsense_mediated_decay	KNOWN	None	22918	10	2	62515791	62519571	-1	None	FLJ23392
11	ZBTB3	ENSG00000185670	ENST00000394807	protein_coding	KNOWN	CCDS8034	22918	1725	574	62518435	62521660	-1	None	FLJ23392
11	ZBTB3	ENSG00000185670	ENST00000527994	protein_coding	PUTATIVE	None	22918	347	114	62520790	62521631	-1	None	FLJ23392
9	None	ENSG00000261018	ENST00000564021	antisense	KNOWN	None	None	None	None	136476920	136498221	-1	None	None
HSCHR6_MHC_QBL	None	ENSG00000235684	ENST00000455641	processed_pseudogene	NOVEL	None	None	None	None	33134418	33136320	1	None	None
7	None	ENSG00000179428	ENST00000325042	antisense	KNOWN	None	None	None	None	22765014	22767239	-1	None	None
7	None	ENSG00000269449	ENST00000601424	protein_coding	KNOWN	None	None	423	140	95171457	95173854	1	None	None
HSCHR6_MHC_COX	UBQLN1P1	ENSG00000232095	ENST00000421654	processed_pseudogene	KNOWN	None	21633	None	None	30320704	30321872	-1	UBQLN1P	None
8	None	ENSG00000254089	ENST00000522598	lincRNA	KNOWN	None	None	None	None	94271895	94310204	1	None	None
X	None	ENSG00000221392	ENST00000408465	miRNA	NOVEL	None	None	None	None	103065314	103065438	1	None	None
19	None	ENSG00000269509	ENST00000600724	processed_pseudogene	KNOWN	None	None	None	None	22956655	22957226	1	None	None
16	None	ENSG00000260687	ENST00000562748	lincRNA	KNOWN	None	None	None	None	73533208	73533662	1	None	None
17	None	ENSG00000265881	ENST00000582923	processed_pseudogene	KNOWN	None	None	None	None	21348145	21348751	-1	None	None
2	UBBP1	ENSG00000230037	ENST00000392399	processed_pseudogene	KNOWN	None	12464	None	None	137087011	137087483	-1	None	None
12	None	ENSG00000248100	ENST00000506925	lincRNA	KNOWN	None	None	None	None	27699983	27705706	-1	None	None
14	None	ENSG00000259060	ENST00000555283	processed_transcript	KNOWN	None	None	None	None	21052499	21077954	-1	None	None
8	RNA5SP274	ENSG00000222416	ENST00000410484	rRNA	KNOWN	None	43174	None	None	94453505	94453612	1	RN5S274	None
HSCHR6_MHC_COX	None	ENSG00000258326	ENST00000547585	pseudogene	NOVEL	None	None	None	None	30322073	30322196	1	None	None
9	DBH-AS1	ENSG00000225756	ENST00000425189	antisense	KNOWN	None	24155	None	None	136519708	136522435	-1	NCRNA00118	BPR
8	ZNF317P1	ENSG00000253781	ENST00000521453	processed_pseudogene	KNOWN	None	31062	None	None	94658294	94659320	1	None	None
7	None	ENSG00000228803	ENST00000444653	processed_pseudogene	KNOWN	None	None	None	None	22787294	22788423	-1	None	None
17	None	ENSG00000265043	ENST00000577309	lincRNA	KNOWN	None	None	None	None	21359825	21363527	-1	None	None
HSCHR17_4_CTG4	KRTAP4-16P	ENSG00000262520	ENST00000576939	protein_coding	PUTATIVE	None	18921	708	235	39258173	39258880	-1	KRTAP4P1	KAP4A
10	FBXL15	ENSG00000107872	ENST00000432590	protein_coding	KNOWN	None	28155	570	189	104178946	104181906	1	FBXO37	MGC11279, Fbl15
10	FBXL15	ENSG00000107872	ENST00000481808	processed_transcript	KNOWN	None	28155	None	None	104178990	104180297	1	FBXO37	MGC11279, Fbl15
10	FBXL15	ENSG00000107872	ENST00000457067	protein_coding	KNOWN	None	28155	473	156	104179571	104181269	1	FBXO37	MGC11279, Fbl15
10	FBXL15	ENSG00000107872	ENST00000369956	protein_coding	KNOWN	None	28155	891	296	104179589	104182893	1	FBXO37	MGC11279, Fbl15
10	FBXL15	ENSG00000107872	ENST00000440407	protein_coding	KNOWN	None	28155	624	207	104180286	104181960	1	FBXO37	MGC11279, Fbl15
10	FBXL15	ENSG00000107872	ENST00000425536	protein_coding	KNOWN	None	28155	609	202	104180598	104181945	1	FBXO37	MGC11279, Fbl15
10	FBXL15	ENSG00000107872	ENST00000224862	protein_coding	KNOWN	CCDS31273	28155	903	300	104179571	104182893	1	FBXO37	MGC11279, Fbl15
1	None	ENSG00000231868	ENST00000419034	antisense	KNOWN	None	None	None	None	6503094	6507066	-1	None	None
10	GPR158-AS1	ENSG00000233642	ENST00000449643	antisense	KNOWN	None	44163	None	None	25447001	25465205	-1	None	None
8	PAICSP4	ENSG00000254244	ENST00000517543	processed_pseudogene	KNOWN	None	38097	None	None	4644854	4646106	1	None	None
14	None	ENSG00000258552	ENST00000554513	processed_pseudogene	KNOWN	None	None	None	None	77639418	77639995	-1	None	None
2	RN7SKP141	ENSG00000251976	ENST00000516167	misc_RNA	KNOWN	None	45865	None	None	137147902	137148239	1	None	None
11	None	ENSG00000221322	ENST00000408395	miRNA	NOVEL	None	None	None	None	17095499	17095582	1	None	None
17	None	ENSG00000264023	ENST00000582990	lincRNA	KNOWN	None	None	None	None	21360746	21362301	1	None	None
7	TRBV7-6	ENSG00000211727	ENST00000390374	TR_V_gene	KNOWN	None	12240	347	114	142139278	142139815	-1	None	TRBV76, TCRBV6S3A1N1T, TCRBV7S6
11	SNORD14A	ENSG00000272034	ENST00000606526	snoRNA	KNOWN	None	10113	None	None	17096201	17096291	-1	RNU14	U14, RNU14A
5	None	ENSG00000272103	ENST00000605892	lincRNA	KNOWN	None	None	None	None	36861838	36862319	-1	None	None
2	None	ENSG00000216081	ENST00000401262	miRNA	NOVEL	None	None	None	None	137301941	137302050	1	None	None
14	None	ENSG00000201384	ENST00000364514	snoRNA	NOVEL	None	None	None	None	77667369	77667483	-1	None	None
10	None	ENSG00000225140	ENST00000451601	antisense	KNOWN	None	None	None	None	674578	677195	1	None	None
3	None	ENSG00000244193	ENST00000494834	transcribed_processed_pseudogene	KNOWN	None	None	None	None	169663775	169664542	-1	None	None
17	RPL21P120	ENSG00000244582	ENST00000482905	processed_pseudogene	KNOWN	None	35743	None	None	21407884	21408385	1	None	None
7	None	ENSG00000234513	ENST00000447425	processed_pseudogene	KNOWN	None	None	None	None	22813265	22813612	-1	None	None
14	MIR1260A	ENSG00000221754	ENST00000408827	miRNA	KNOWN	None	35325	None	None	77732561	77732633	1	MIRN1260, MIR1260	hsa-mir-1260
11	SNORD14B	ENSG00000201403	ENST00000364533	snoRNA	KNOWN	None	31803	None	None	17097326	17097415	-1	RNU14B	U14B, U14
2	None	ENSG00000229568	ENST00000414479	unprocessed_pseudogene	KNOWN	None	None	None	None	137302282	137303112	1	None	None
5	KRT18P31	ENSG00000249850	ENST00000506277	processed_pseudogene	KNOWN	None	33400	None	None	36885308	36886599	1	None	None
22	TMEM184B	ENSG00000198792	ENST00000361906	protein_coding	KNOWN	CCDS13969	1310	1224	407	38615298	38669040	-1	C22orf5	HS5O6A, DKFZP586A1024, FM08
22	TMEM184B	ENSG00000198792	ENST00000436674	nonsense_mediated_decay	KNOWN	None	1310	219	72	38615319	38669016	-1	C22orf5	HS5O6A, DKFZP586A1024, FM08
22	TMEM184B	ENSG00000198792	ENST00000361684	protein_coding	KNOWN	CCDS13969	1310	1224	407	38615331	38668670	-1	C22orf5	HS5O6A, DKFZP586A1024, FM08
22	TMEM184B	ENSG00000198792	ENST00000464059	processed_transcript	KNOWN	None	1310	None	None	38621527	38635508	-1	C22orf5	HS5O6A, DKFZP586A1024, FM08
22	TMEM184B	ENSG00000198792	ENST00000488844	retained_intron	KNOWN	None	1310	None	None	38622387	38627324	-1	C22orf5	HS5O6A, DKFZP586A1024, FM08
22	TMEM184B	ENSG00000198792	ENST00000474416	retained_intron	KNOWN	None	1310	None	None	38622606	38627462	-1	C22orf5	HS5O6A, DKFZP586A1024, FM08
22	TMEM184B	ENSG00000198792	ENST00000403210	protein_coding	PUTATIVE	None	1310	419	138	38622786	38642744	-1	C22orf5	HS5O6A, DKFZP586A1024, FM08
22	TMEM184B	ENSG00000198792	ENST00000457534	nonsense_mediated_decay	KNOWN	None	1310	228	75	38626724	38669011	-1	C22orf5	HS5O6A, DKFZP586A1024, FM08
22	TMEM184B	ENSG00000198792	ENST00000411679	nonsense_mediated_decay	KNOWN	None	1310	219	72	38641941	38668944	-1	C22orf5	HS5O6A, DKFZP586A1024, FM08
22	TMEM184B	ENSG00000198792	ENST00000466117	retained_intron	KNOWN	None	1310	None	None	38642722	38669011	-1	C22orf5	HS5O6A, DKFZP586A1024, FM08
HSCHR6_MHC_COX	None	ENSG00000258348	ENST00000552894	pseudogene	NOVEL	None	None	None	None	30325775	30325883	-1	None	None
HSCHR6_MHC_QBL	HCG25	ENSG00000231343	ENST00000450532	processed_transcript	KNOWN	None	20196	None	None	33146133	33151540	1	None	dJ1033B10.16
HSCHR6_MHC_QBL	HCG25	ENSG00000231343	ENST00000438683	processed_transcript	KNOWN	None	20196	None	None	33146183	33148538	1	None	dJ1033B10.16
HSCHR6_MHC_QBL	HCG25	ENSG00000231343	ENST00000448338	processed_transcript	KNOWN	None	20196	None	None	33146195	33151585	1	None	dJ1033B10.16
HSCHR6_MHC_QBL	HCG25	ENSG00000231343	ENST00000443052	processed_transcript	KNOWN	None	20196	None	None	33146878	33148234	1	None	dJ1033B10.16
11	RNU6-593P	ENSG00000201586	ENST00000364716	snRNA	KNOWN	None	47556	None	None	17137199	17137310	-1	None	None
7	PDK4	ENSG00000004799	ENST00000005178	protein_coding	KNOWN	CCDS5643	8812	1236	411	95212811	95225803	-1	None	None
7	PDK4	ENSG00000004799	ENST00000473796	retained_intron	KNOWN	None	8812	None	None	95213687	95222072	-1	None	None
7	PDK4	ENSG00000004799	ENST00000468445	retained_intron	KNOWN	None	8812	None	None	95215992	95216857	-1	None	None
7	PDK4	ENSG00000004799	ENST00000498190	retained_intron	KNOWN	None	8812	None	None	95216796	95219029	-1	None	None
7	PDK4	ENSG00000004799	ENST00000473301	retained_intron	KNOWN	None	8812	None	None	95224083	95225772	-1	None	None
15	None	ENSG00000259659	ENST00000558006	sense_intronic	KNOWN	None	None	None	None	44850027	44851386	1	None	None
11	None	ENSG00000240808	ENST00000477436	processed_pseudogene	KNOWN	None	None	None	None	17159523	17159812	-1	None	None
10	RN7SKP220	ENSG00000222543	ENST00000410611	misc_RNA	KNOWN	None	45944	None	None	25682486	25682773	-1	None	None
10	MIR5699	ENSG00000263511	ENST00000578903	miRNA	KNOWN	None	43456	None	None	687629	687718	-1	None	hsa-mir-5699
7	PRR15	ENSG00000176532	ENST00000319694	protein_coding	KNOWN	CCDS5421	22310	390	129	29603427	29606911	1	None	None
7	PRR15	ENSG00000176532	ENST00000450427	protein_coding	KNOWN	None	22310	54	17	29605066	29605999	1	None	None
10	CUBNP3	ENSG00000235690	ENST00000457461	unprocessed_pseudogene	KNOWN	None	44985	None	None	45622766	45644362	1	None	None
14	RN7SL137P	ENSG00000266628	ENST00000584622	misc_RNA	KNOWN	None	46153	None	None	77817615	77817902	-1	None	None
HSCHR6_MHC_COX	None	ENSG00000258207	ENST00000547674	pseudogene	NOVEL	None	None	None	None	30340102	30340186	-1	None	None
9	None	ENSG00000256225	ENST00000343203	pseudogene	NOVEL	None	None	None	None	136627017	136628425	-1	None	None
3	None	ENSG00000265457	ENST00000584493	miRNA	NOVEL	None	None	None	None	13759417	13759507	-1	None	None
8	RNU6-104P	ENSG00000238509	ENST00000459597	snRNA	KNOWN	None	47067	None	None	43158519	43158625	1	None	None
17	None	ENSG00000265265	ENST00000584594	lincRNA	KNOWN	None	None	None	None	21422775	21424530	1	None	None
3	None	ENSG00000238827	ENST00000408341	miRNA	NOVEL	None	None	None	None	13779558	13779629	-1	None	None
2	None	ENSG00000221762	ENST00000408835	miRNA	NOVEL	None	None	None	None	137402678	137402762	-1	None	None
22	IGKV1OR22-1	ENSG00000253481	ENST00000521497	IG_V_pseudogene	KNOWN	None	5772	None	None	17414411	17414893	-1	IGKVP5	IGKV1/OR22-1
14	None	ENSG00000258510	ENST00000554198	processed_pseudogene	KNOWN	None	None	None	None	77825766	77826259	1	None	None
7	None	ENSG00000228649	ENST00000415611	lincRNA	KNOWN	None	None	None	None	22893875	22899106	1	None	None
7	None	ENSG00000228649	ENST00000432668	retained_intron	KNOWN	None	None	None	None	22895705	22896694	1	None	None
7	None	ENSG00000228649	ENST00000422542	lincRNA	KNOWN	None	None	None	None	22896147	22901021	1	None	None
17	None	ENSG00000266466	ENST00000579239	antisense	KNOWN	None	None	None	None	21436235	21446049	1	None	None
2	RNA5SP105	ENSG00000212425	ENST00000391123	rRNA	KNOWN	None	42903	None	None	138269668	138269780	-1	RN5S105	None
3	VN1R20P	ENSG00000233121	ENST00000425215	unitary_pseudogene	KNOWN	None	37335	None	None	13968310	13969275	1	None	None
6	None	ENSG00000225924	ENST00000424421	antisense	KNOWN	None	None	None	None	149564435	149565137	-1	None	None
4	MAP9	ENSG00000164114	ENST00000311277	protein_coding	KNOWN	CCDS35493	26118	1944	647	156263810	156298122	-1	None	ASAP, FLJ21159
4	MAP9	ENSG00000164114	ENST00000515654	protein_coding	KNOWN	None	26118	1872	623	156268893	156297988	-1	None	ASAP, FLJ21159
4	MAP9	ENSG00000164114	ENST00000503466	protein_coding	PUTATIVE	None	26118	100	32	156270823	156273838	-1	None	ASAP, FLJ21159
4	MAP9	ENSG00000164114	ENST00000424373	nonsense_mediated_decay	KNOWN	None	26118	1131	376	156273836	156298122	-1	None	ASAP, FLJ21159
4	MAP9	ENSG00000164114	ENST00000433024	protein_coding	KNOWN	None	26118	1465	487	156274405	156298037	-1	None	ASAP, FLJ21159
4	MAP9	ENSG00000164114	ENST00000379248	protein_coding	PUTATIVE	None	26118	573	190	156289318	156298037	-1	None	ASAP, FLJ21159
4	MAP9	ENSG00000164114	ENST00000481250	retained_intron	KNOWN	None	26118	None	None	156294148	156297965	-1	None	ASAP, FLJ21159
4	MAP9	ENSG00000164114	ENST00000450097	protein_coding	KNOWN	None	26118	93	30	156296156	156297930	-1	None	ASAP, FLJ21159
2	None	ENSG00000222394	ENST00000410462	misc_RNA	NOVEL	None	None	None	None	138472902	138473011	1	None	None
17	None	ENSG00000266673	ENST00000581528	processed_pseudogene	KNOWN	None	None	None	None	21455772	21455974	1	None	None
X	RNA5SP511	ENSG00000222419	ENST00000410487	rRNA	KNOWN	None	43411	None	None	103105726	103105840	-1	RN5S511	None
6	RN7SL234P	ENSG00000241391	ENST00000485574	misc_RNA	KNOWN	None	46250	None	None	149612488	149612780	1	None	None
1	RNU6-731P	ENSG00000253022	ENST00000517213	snRNA	KNOWN	None	47694	None	None	6600914	6601024	1	None	None
9	LINC00094	ENSG00000235106	ENST00000430633	antisense	KNOWN	None	24742	None	None	136890561	136893224	1	NCRNA00094	FLJ35348, bA374P20.3
9	LINC00094	ENSG00000235106	ENST00000550853	antisense	KNOWN	None	24742	None	None	136890608	136894376	1	NCRNA00094	FLJ35348, bA374P20.3
9	LINC00094	ENSG00000235106	ENST00000432807	antisense	KNOWN	None	24742	None	None	136890617	136893224	1	NCRNA00094	FLJ35348, bA374P20.3
9	LINC00094	ENSG00000235106	ENST00000603928	antisense	KNOWN	None	24742	None	None	136891529	136896707	1	NCRNA00094	FLJ35348, bA374P20.3
9	LINC00094	ENSG00000235106	ENST00000552018	antisense	KNOWN	None	24742	None	None	136892273	136894637	1	NCRNA00094	FLJ35348, bA374P20.3
9	LINC00094	ENSG00000235106	ENST00000605164	antisense	KNOWN	None	24742	None	None	136894161	136899788	1	NCRNA00094	FLJ35348, bA374P20.3
9	LINC00094	ENSG00000235106	ENST00000599836	antisense	KNOWN	None	24742	None	None	136893893	136895581	1	NCRNA00094	FLJ35348, bA374P20.3
2	None	ENSG00000234007	ENST00000458351	lincRNA	KNOWN	None	None	None	None	138636324	138683977	-1	None	None
X	L1CAM	ENSG00000198910	ENST00000370060	protein_coding	KNOWN	CCDS14733	6470	3774	1257	153126969	153151600	-1	HSAS1, SPG1, HSAS, MASA, MIC5, S10	CD171
X	L1CAM	ENSG00000198910	ENST00000370055	protein_coding	NOVEL	CCDS48192	6470	3747	1248	153127408	153151608	-1	HSAS1, SPG1, HSAS, MASA, MIC5, S10	CD171
X	L1CAM	ENSG00000198910	ENST00000370058	protein_coding	NOVEL	None	6470	462	153	153127888	153129933	-1	HSAS1, SPG1, HSAS, MASA, MIC5, S10	CD171
X	L1CAM	ENSG00000198910	ENST00000361699	protein_coding	KNOWN	CCDS14734	6470	3762	1253	153128003	153141302	-1	HSAS1, SPG1, HSAS, MASA, MIC5, S10	CD171
X	L1CAM	ENSG00000198910	ENST00000491983	retained_intron	KNOWN	None	6470	None	None	153128247	153129424	-1	HSAS1, SPG1, HSAS, MASA, MIC5, S10	CD171
X	L1CAM	ENSG00000198910	ENST00000474853	retained_intron	KNOWN	None	6470	None	None	153130419	153131370	-1	HSAS1, SPG1, HSAS, MASA, MIC5, S10	CD171
X	L1CAM	ENSG00000198910	ENST00000455590	protein_coding	NOVEL	None	6470	570	189	153132227	153133832	-1	HSAS1, SPG1, HSAS, MASA, MIC5, S10	CD171
X	L1CAM	ENSG00000198910	ENST00000496122	retained_intron	KNOWN	None	6470	None	None	153133006	153134078	-1	HSAS1, SPG1, HSAS, MASA, MIC5, S10	CD171
X	L1CAM	ENSG00000198910	ENST00000484652	retained_intron	KNOWN	None	6470	None	None	153133862	153134627	-1	HSAS1, SPG1, HSAS, MASA, MIC5, S10	CD171
X	L1CAM	ENSG00000198910	ENST00000439496	protein_coding	KNOWN	None	6470	452	149	153136583	153141494	-1	HSAS1, SPG1, HSAS, MASA, MIC5, S10	CD171
X	L1CAM	ENSG00000198910	ENST00000407935	protein_coding	NOVEL	None	6470	385	127	153137607	153141482	-1	HSAS1, SPG1, HSAS, MASA, MIC5, S10	CD171
X	L1CAM	ENSG00000198910	ENST00000464967	retained_intron	KNOWN	None	6470	None	None	153137676	153174677	-1	HSAS1, SPG1, HSAS, MASA, MIC5, S10	CD171
X	L1CAM	ENSG00000198910	ENST00000420165	protein_coding	NOVEL	None	6470	270	89	153137722	153151627	-1	HSAS1, SPG1, HSAS, MASA, MIC5, S10	CD171
X	L1CAM	ENSG00000198910	ENST00000458029	protein_coding	KNOWN	None	6470	251	82	153137756	153141846	-1	HSAS1, SPG1, HSAS, MASA, MIC5, S10	CD171
X	L1CAM	ENSG00000198910	ENST00000460553	retained_intron	KNOWN	None	6470	None	None	153138404	153151596	-1	HSAS1, SPG1, HSAS, MASA, MIC5, S10	CD171
X	L1CAM	ENSG00000198910	ENST00000484587	processed_transcript	KNOWN	None	6470	None	None	153149319	153151615	-1	HSAS1, SPG1, HSAS, MASA, MIC5, S10	CD171
X	L1CAM	ENSG00000198910	ENST00000543994	protein_coding	KNOWN	None	6470	3780	1259	153126973	153141399	-1	HSAS1, SPG1, HSAS, MASA, MIC5, S10	CD171
X	L1CAM	ENSG00000198910	ENST00000370057	protein_coding	KNOWN	CCDS14733	6470	3774	1257	153126973	153141399	-1	HSAS1, SPG1, HSAS, MASA, MIC5, S10	CD171
X	L1CAM	ENSG00000198910	ENST00000538883	protein_coding	KNOWN	None	6470	3768	1255	153126973	153141399	-1	HSAS1, SPG1, HSAS, MASA, MIC5, S10	CD171
X	L1CAM	ENSG00000198910	ENST00000361981	protein_coding	KNOWN	CCDS48192	6470	3747	1248	153126973	153141399	-1	HSAS1, SPG1, HSAS, MASA, MIC5, S10	CD171
8	None	ENSG00000255497	ENST00000533569	processed_pseudogene	KNOWN	None	None	None	None	43169091	43169343	1	None	None
11	None	ENSG00000213779	ENST00000496042	processed_pseudogene	KNOWN	None	None	None	None	17215036	17215855	1	None	None
6	FABP12P1	ENSG00000216265	ENST00000401911	processed_pseudogene	KNOWN	None	45176	None	None	149625243	149625564	-1	None	None
3	RPL22L1	ENSG00000163584	ENST00000295830	protein_coding	KNOWN	CCDS46955	27610	369	122	170582664	170588272	-1	None	None
3	RPL22L1	ENSG00000163584	ENST00000478578	retained_intron	KNOWN	None	27610	None	None	170583583	170585970	-1	None	None
3	RPL22L1	ENSG00000163584	ENST00000475836	nonsense_mediated_decay	KNOWN	None	27610	195	64	170584052	170587984	-1	None	None
3	RPL22L1	ENSG00000163584	ENST00000466674	protein_coding	NOVEL	None	27610	429	142	170584053	170587822	-1	None	None
3	RPL22L1	ENSG00000163584	ENST00000494771	nonsense_mediated_decay	KNOWN	None	27610	192	63	170584056	170587997	-1	None	None
3	RPL22L1	ENSG00000163584	ENST00000463836	protein_coding	NOVEL	None	27610	366	121	170584057	170587984	-1	None	None
2	None	ENSG00000232719	ENST00000448256	lincRNA	KNOWN	None	None	None	None	201966105	201967859	1	None	None
12	None	ENSG00000257715	ENST00000547346	processed_transcript	PUTATIVE	None	None	None	None	96419101	96421749	1	None	None
17	None	ENSG00000266050	ENST00000536958	processed_transcript	KNOWN	None	None	None	None	21469833	21477781	-1	None	None
6	None	ENSG00000219553	ENST00000406807	processed_pseudogene	KNOWN	None	None	None	None	149812703	149813425	-1	None	None
2	None	ENSG00000224231	ENST00000446520	lincRNA	KNOWN	None	None	None	None	138859454	138863475	1	None	None
15	GCHFR	ENSG00000137880	ENST00000260447	protein_coding	KNOWN	CCDS10064	4194	255	84	41056218	41059906	1	None	GFRP, HsT16933
15	GCHFR	ENSG00000137880	ENST00000561160	protein_coding	PUTATIVE	None	4194	135	44	41056302	41058483	1	None	GFRP, HsT16933
15	GCHFR	ENSG00000137880	ENST00000558670	processed_transcript	KNOWN	None	4194	None	None	41056321	41059741	1	None	GFRP, HsT16933
15	GCHFR	ENSG00000137880	ENST00000559445	protein_coding	NOVEL	None	4194	222	73	41056325	41059897	1	None	GFRP, HsT16933
15	GCHFR	ENSG00000137880	ENST00000559932	protein_coding	PUTATIVE	None	4194	204	67	41056624	41059840	1	None	GFRP, HsT16933
15	GCHFR	ENSG00000137880	ENST00000558467	protein_coding	PUTATIVE	None	4194	204	67	41057818	41059906	1	None	GFRP, HsT16933
14	None	ENSG00000258573	ENST00000554006	antisense	KNOWN	None	None	None	None	21055803	21058417	1	None	None
14	None	ENSG00000258573	ENST00000554529	antisense	KNOWN	None	None	None	None	21055818	21070913	1	None	None
14	None	ENSG00000258573	ENST00000553604	antisense	KNOWN	None	None	None	None	21055844	21064950	1	None	None
14	None	ENSG00000258573	ENST00000556487	antisense	KNOWN	None	None	None	None	21055851	21074046	1	None	None
14	None	ENSG00000258573	ENST00000554993	antisense	KNOWN	None	None	None	None	21058561	21075296	1	None	None
10	LRRC20	ENSG00000172731	ENST00000355790	protein_coding	KNOWN	CCDS7302	23421	555	184	72058729	72141670	-1	None	FLJ10751, FLJ10844
10	LRRC20	ENSG00000172731	ENST00000373224	protein_coding	KNOWN	CCDS7302	23421	555	184	72058729	72142345	-1	None	FLJ10751, FLJ10844
10	LRRC20	ENSG00000172731	ENST00000358141	protein_coding	KNOWN	CCDS7301	23421	405	134	72058732	72142382	-1	None	FLJ10751, FLJ10844
10	LRRC20	ENSG00000172731	ENST00000357631	protein_coding	KNOWN	CCDS7300	23421	387	128	72058732	72142382	-1	None	FLJ10751, FLJ10844
10	LRRC20	ENSG00000172731	ENST00000446961	protein_coding	KNOWN	None	23421	524	173	72061141	72142380	-1	None	FLJ10751, FLJ10844
10	LRRC20	ENSG00000172731	ENST00000395011	protein_coding	KNOWN	CCDS7301	23421	405	134	72058729	72141414	-1	None	FLJ10751, FLJ10844
10	LRRC20	ENSG00000172731	ENST00000395010	protein_coding	KNOWN	CCDS7300	23421	387	128	72058729	72141414	-1	None	FLJ10751, FLJ10844
2	None	ENSG00000224672	ENST00000416091	processed_pseudogene	KNOWN	None	None	None	None	201966812	201967680	-1	None	None
HSCHR6_MHC_QBL	MYL8P	ENSG00000230193	ENST00000453205	processed_pseudogene	KNOWN	None	7589	None	None	33235605	33236122	1	None	BING3
HSCHR6_MHC_QBL	MYL8P	ENSG00000230193	ENST00000551149	pseudogene	KNOWN	None	7589	None	None	33235607	33236122	1	None	BING3
6	RNU7-3P	ENSG00000252244	ENST00000516435	snRNA	KNOWN	None	34099	None	None	149838092	149838153	1	None	U7.3
17	None	ENSG00000265363	ENST00000582941	transcribed_processed_pseudogene	KNOWN	None	None	None	None	21476800	21477010	-1	None	None
11	POLR2G	ENSG00000168002	ENST00000301788	protein_coding	KNOWN	CCDS31585	9194	519	172	62529016	62534182	1	None	hRPB19, hsRPB7, RPB7
11	POLR2G	ENSG00000168002	ENST00000533442	protein_coding	PUTATIVE	None	9194	41	12	62529037	62532828	1	None	hRPB19, hsRPB7, RPB7
11	POLR2G	ENSG00000168002	ENST00000525455	nonsense_mediated_decay	KNOWN	None	9194	195	64	62529052	62534145	1	None	hRPB19, hsRPB7, RPB7
11	POLR2G	ENSG00000168002	ENST00000524819	nonsense_mediated_decay	KNOWN	None	9194	126	41	62529055	62534167	1	None	hRPB19, hsRPB7, RPB7
11	POLR2G	ENSG00000168002	ENST00000531944	nonsense_mediated_decay	KNOWN	None	9194	126	41	62529089	62534182	1	None	hRPB19, hsRPB7, RPB7
11	POLR2G	ENSG00000168002	ENST00000527435	retained_intron	KNOWN	None	9194	None	None	62529109	62534182	1	None	hRPB19, hsRPB7, RPB7
11	POLR2G	ENSG00000168002	ENST00000531996	nonsense_mediated_decay	KNOWN	None	9194	183	60	62529267	62533196	1	None	hRPB19, hsRPB7, RPB7
11	POLR2G	ENSG00000168002	ENST00000526368	retained_intron	KNOWN	None	9194	None	None	62530226	62534179	1	None	hRPB19, hsRPB7, RPB7
2	None	ENSG00000233045	ENST00000429515	processed_pseudogene	KNOWN	None	None	None	None	139036144	139036780	1	None	None
2	None	ENSG00000237078	ENST00000439261	pseudogene	NOVEL	None	None	None	None	201973424	201973553	1	None	None
6	None	ENSG00000235168	ENST00000446392	lincRNA	KNOWN	None	None	None	None	149882288	149885085	1	None	None
10	None	ENSG00000243349	ENST00000427229	processed_transcript	KNOWN	None	None	None	None	45642842	45666837	1	None	None
17	None	ENSG00000264245	ENST00000581610	processed_pseudogene	KNOWN	None	None	None	None	21477034	21477337	1	None	None
1	FCGR2A	ENSG00000143226	ENST00000367972	protein_coding	KNOWN	CCDS30922	3616	951	316	161475220	161488348	1	FCG2, FCGR2A1, FCGR2	CD32, CD32A, IGFR2, CDw32
1	FCGR2A	ENSG00000143226	ENST00000271450	protein_coding	KNOWN	CCDS44264	3616	954	317	161475220	161489358	1	FCG2, FCGR2A1, FCGR2	CD32, CD32A, IGFR2, CDw32
1	FCGR2A	ENSG00000143226	ENST00000467654	retained_intron	KNOWN	None	3616	None	None	161475236	161480140	1	FCG2, FCGR2A1, FCGR2	CD32, CD32A, IGFR2, CDw32
1	FCGR2A	ENSG00000143226	ENST00000473080	retained_intron	KNOWN	None	3616	None	None	161475243	161476158	1	FCG2, FCGR2A1, FCGR2	CD32, CD32A, IGFR2, CDw32
1	FCGR2A	ENSG00000143226	ENST00000536731	nonsense_mediated_decay	KNOWN	None	3616	414	137	161475247	161479689	1	FCG2, FCGR2A1, FCGR2	CD32, CD32A, IGFR2, CDw32
1	FCGR2A	ENSG00000143226	ENST00000483665	nonsense_mediated_decay	KNOWN	None	3616	411	136	161475247	161488355	1	FCG2, FCGR2A1, FCGR2	CD32, CD32A, IGFR2, CDw32
1	FCGR2A	ENSG00000143226	ENST00000497474	retained_intron	KNOWN	None	3616	None	None	161475249	161476239	1	FCG2, FCGR2A1, FCGR2	CD32, CD32A, IGFR2, CDw32
1	FCGR2A	ENSG00000143226	ENST00000482233	retained_intron	KNOWN	None	3616	None	None	161475658	161476430	1	FCG2, FCGR2A1, FCGR2	CD32, CD32A, IGFR2, CDw32
1	FCGR2A	ENSG00000143226	ENST00000467525	processed_transcript	KNOWN	None	3616	None	None	161476123	161493803	1	FCG2, FCGR2A1, FCGR2	CD32, CD32A, IGFR2, CDw32
1	FCGR2A	ENSG00000143226	ENST00000471026	processed_transcript	KNOWN	None	3616	None	None	161476441	161488145	1	FCG2, FCGR2A1, FCGR2	CD32, CD32A, IGFR2, CDw32
1	FCGR2A	ENSG00000143226	ENST00000537821	protein_coding	PUTATIVE	None	3616	148	48	161482966	161487927	1	FCG2, FCGR2A1, FCGR2	CD32, CD32A, IGFR2, CDw32
1	FCGR2A	ENSG00000143226	ENST00000461298	protein_coding	PUTATIVE	None	3616	159	52	161483167	161488380	1	FCG2, FCGR2A1, FCGR2	CD32, CD32A, IGFR2, CDw32
1	FCGR2A	ENSG00000143226	ENST00000459885	processed_transcript	KNOWN	None	3616	None	None	161483688	161489757	1	FCG2, FCGR2A1, FCGR2	CD32, CD32A, IGFR2, CDw32
1	FCGR2A	ENSG00000143226	ENST00000486608	processed_transcript	KNOWN	None	3616	None	None	161484410	161488393	1	FCG2, FCGR2A1, FCGR2	CD32, CD32A, IGFR2, CDw32
1	FCGR2A	ENSG00000143226	ENST00000491841	processed_transcript	KNOWN	None	3616	None	None	161487765	161492889	1	FCG2, FCGR2A1, FCGR2	CD32, CD32A, IGFR2, CDw32
HG1293_PATCH	RASSF5	ENSG00000266094	ENST00000579436	protein_coding	KNOWN	None	17609	1257	418	206571091	206651273	1	None	Maxp1, NORE1, RAPL
HG1293_PATCH	RASSF5	ENSG00000266094	ENST00000580449	protein_coding	KNOWN	None	17609	1011	336	206571107	206651273	1	None	Maxp1, NORE1, RAPL
HG1293_PATCH	RASSF5	ENSG00000266094	ENST00000581503	protein_coding	PUTATIVE	None	17609	1053	350	206571156	206652835	1	None	Maxp1, NORE1, RAPL
HG1293_PATCH	RASSF5	ENSG00000266094	ENST00000577571	protein_coding	KNOWN	None	17609	798	265	206620726	206652828	1	None	Maxp1, NORE1, RAPL
HG1293_PATCH	RASSF5	ENSG00000266094	ENST00000605120	retained_intron	KNOWN	None	17609	None	None	206621122	206647256	1	None	Maxp1, NORE1, RAPL
HG1293_PATCH	RASSF5	ENSG00000266094	ENST00000605653	retained_intron	KNOWN	None	17609	None	None	206646681	206650403	1	None	Maxp1, NORE1, RAPL
HG1293_PATCH	RASSF5	ENSG00000266094	ENST00000581888	protein_coding	PUTATIVE	None	17609	558	185	206646833	206652833	1	None	Maxp1, NORE1, RAPL
HG1293_PATCH	RASSF5	ENSG00000266094	ENST00000579942	retained_intron	KNOWN	None	17609	None	None	206648036	206652844	1	None	Maxp1, NORE1, RAPL
2	IMPDH1P10	ENSG00000232133	ENST00000440965	processed_pseudogene	KNOWN	None	33965	None	None	202002239	202004750	-1	None	None
6	None	ENSG00000237502	ENST00000435273	antisense	KNOWN	None	None	None	None	149896601	149897260	-1	None	None
10	PNLIP	ENSG00000175535	ENST00000369221	protein_coding	KNOWN	CCDS7594	9155	1398	465	118305443	118327367	1	None	PL
10	PNLIP	ENSG00000175535	ENST00000470562	processed_transcript	KNOWN	None	9155	None	None	118305605	118310800	1	None	PL
7	None	ENSG00000186163	ENST00000448860	unitary_pseudogene	KNOWN	None	None	None	None	141965650	141971157	-1	None	None
7	None	ENSG00000186163	ENST00000334288	processed_transcript	KNOWN	None	None	None	None	141968101	141972054	-1	None	None
10	None	ENSG00000266281	ENST00000583064	miRNA	NOVEL	None	None	None	None	120305606	120305676	1	None	None
17	None	ENSG00000216100	ENST00000401281	miRNA	NOVEL	None	None	None	None	21481084	21481171	1	None	None
17	None	ENSG00000263375	ENST00000578656	processed_pseudogene	KNOWN	None	None	None	None	21496060	21497446	1	None	None
10	SLC25A18P1	ENSG00000234309	ENST00000449385	processed_pseudogene	KNOWN	None	43857	None	None	120332383	120333132	1	None	None
3	SEC62-AS1	ENSG00000240373	ENST00000479626	antisense	KNOWN	None	40586	None	None	169696324	169703503	-1	None	None
6	None	ENSG00000233330	ENST00000419134	antisense	KNOWN	None	None	None	None	149912891	149913799	-1	None	None
1	None	ENSG00000229519	ENST00000456162	processed_pseudogene	KNOWN	None	None	None	None	6607965	6608679	1	None	None
2	None	ENSG00000234645	ENST00000431545	processed_pseudogene	KNOWN	None	None	None	None	139045599	139046363	-1	None	None
2	None	ENSG00000234645	ENST00000429889	processed_pseudogene	KNOWN	None	None	None	None	139045599	139046297	-1	None	None
17	NCOR1P2	ENSG00000265019	ENST00000584728	unprocessed_pseudogene	KNOWN	None	42997	None	None	21536014	21544603	1	None	None
6	RPS18P9	ENSG00000220848	ENST00000482817	processed_pseudogene	KNOWN	None	36483	None	None	149915220	149915679	1	None	None
X	None	ENSG00000231787	ENST00000461229	processed_pseudogene	KNOWN	None	None	None	None	103159243	103159675	-1	None	None
2	CFLAR-AS1	ENSG00000226312	ENST00000474886	antisense	KNOWN	None	14437	None	None	202005007	202008919	-1	ALS2CR10	None
2	CFLAR-AS1	ENSG00000226312	ENST00000415011	antisense	KNOWN	None	14437	None	None	202005012	202022546	-1	ALS2CR10	None
2	CFLAR-AS1	ENSG00000226312	ENST00000598453	antisense	KNOWN	None	14437	None	None	202008859	202015880	-1	ALS2CR10	None
2	CFLAR-AS1	ENSG00000226312	ENST00000594911	antisense	KNOWN	None	14437	None	None	202008863	202015883	-1	ALS2CR10	None
2	CFLAR-AS1	ENSG00000226312	ENST00000595372	antisense	KNOWN	None	14437	None	None	202013597	202015883	-1	ALS2CR10	None
2	CFLAR-AS1	ENSG00000226312	ENST00000598509	antisense	KNOWN	None	14437	None	None	202014189	202015883	-1	ALS2CR10	None
2	CFLAR-AS1	ENSG00000226312	ENST00000593896	antisense	KNOWN	None	14437	None	None	202014579	202015883	-1	ALS2CR10	None
2	CFLAR-AS1	ENSG00000226312	ENST00000601974	antisense	KNOWN	None	14437	None	None	202015884	202018341	-1	ALS2CR10	None
X	None	ENSG00000235437	ENST00000433061	processed_transcript	KNOWN	None	None	None	None	62729822	62780929	-1	None	None
2	None	ENSG00000237939	ENST00000435551	processed_pseudogene	KNOWN	None	None	None	None	139064889	139065540	1	None	None
10	UROS	ENSG00000188690	ENST00000470483	processed_transcript	KNOWN	None	12592	None	None	127477146	127483796	-1	None	None
10	UROS	ENSG00000188690	ENST00000368797	protein_coding	KNOWN	CCDS7648	12592	798	265	127477147	127511796	-1	None	None
10	UROS	ENSG00000188690	ENST00000484541	processed_transcript	KNOWN	None	12592	None	None	127477151	127484759	-1	None	None
10	UROS	ENSG00000188690	ENST00000368786	protein_coding	KNOWN	CCDS7648	12592	798	265	127477152	127505201	-1	None	None
10	UROS	ENSG00000188690	ENST00000465577	processed_transcript	KNOWN	None	12592	None	None	127477156	127486669	-1	None	None
10	UROS	ENSG00000188690	ENST00000464267	processed_transcript	KNOWN	None	12592	None	None	127477294	127486672	-1	None	None
10	UROS	ENSG00000188690	ENST00000462490	processed_transcript	KNOWN	None	12592	None	None	127482224	127496034	-1	None	None
10	UROS	ENSG00000188690	ENST00000420761	protein_coding	KNOWN	None	12592	556	184	127483469	127511817	-1	None	None
10	UROS	ENSG00000188690	ENST00000368778	protein_coding	KNOWN	None	12592	420	139	127490626	127511765	-1	None	None
10	UROS	ENSG00000188690	ENST00000368774	protein_coding	KNOWN	None	12592	402	133	127495719	127511658	-1	None	None
5	IL12B	ENSG00000113302	ENST00000231228	protein_coding	KNOWN	CCDS4346	5970	987	328	158741791	158757895	-1	NKSF2	CLMF, IL-12B, NKSF, CLMF2
11	MS4A13	ENSG00000204979	ENST00000378186	protein_coding	KNOWN	CCDS31571	16674	459	152	60282886	60310194	1	None	None
11	MS4A13	ENSG00000204979	ENST00000378185	protein_coding	KNOWN	CCDS41653	16674	339	112	60282886	60310194	1	None	None
11	MS4A13	ENSG00000204979	ENST00000437058	protein_coding	KNOWN	None	16674	282	93	60282886	60310194	1	None	None
11	MS4A13	ENSG00000204979	ENST00000527948	protein_coding	NOVEL	None	16674	186	61	60283012	60310094	1	None	None
17	None	ENSG00000265233	ENST00000580930	processed_pseudogene	KNOWN	None	None	None	None	21549811	21549979	1	None	None
2	None	ENSG00000232915	ENST00000427150	processed_pseudogene	KNOWN	None	None	None	None	139169636	139170888	-1	None	None
17	None	ENSG00000264617	ENST00000584107	unprocessed_pseudogene	KNOWN	None	None	None	None	21560548	21562330	-1	None	None
3	YEATS2	ENSG00000163872	ENST00000305135	protein_coding	KNOWN	CCDS43175	25489	4269	1422	183415606	183530413	1	None	FLJ10201, FLJ12841, FLJ13308, KIAA1197
3	YEATS2	ENSG00000163872	ENST00000432781	protein_coding	PUTATIVE	None	25489	658	218	183493779	183511274	1	None	FLJ10201, FLJ12841, FLJ13308, KIAA1197
3	YEATS2	ENSG00000163872	ENST00000497765	retained_intron	KNOWN	None	25489	None	None	183515784	183519480	1	None	FLJ10201, FLJ12841, FLJ13308, KIAA1197
3	YEATS2	ENSG00000163872	ENST00000472593	retained_intron	KNOWN	None	25489	None	None	183518765	183530411	1	None	FLJ10201, FLJ12841, FLJ13308, KIAA1197
3	YEATS2	ENSG00000163872	ENST00000481343	retained_intron	KNOWN	None	25489	None	None	183525812	183527267	1	None	FLJ10201, FLJ12841, FLJ13308, KIAA1197
3	YEATS2	ENSG00000163872	ENST00000468850	retained_intron	KNOWN	None	25489	None	None	183526721	183528596	1	None	FLJ10201, FLJ12841, FLJ13308, KIAA1197
2	KIAA1211L	ENSG00000196872	ENST00000397899	protein_coding	KNOWN	CCDS42720	33454	2889	962	99410309	99552722	-1	C2orf55	MGC42367
2	KIAA1211L	ENSG00000196872	ENST00000464413	processed_transcript	KNOWN	None	33454	None	None	99426202	99438767	-1	C2orf55	MGC42367
2	KIAA1211L	ENSG00000196872	ENST00000462314	processed_transcript	KNOWN	None	33454	None	None	99443438	99552637	-1	C2orf55	MGC42367
2	KIAA1211L	ENSG00000196872	ENST00000423771	protein_coding	NOVEL	None	33454	806	267	99443451	99485825	-1	C2orf55	MGC42367
2	KIAA1211L	ENSG00000196872	ENST00000428096	protein_coding	NOVEL	None	33454	582	193	99448811	99552666	-1	C2orf55	MGC42367
2	KIAA1211L	ENSG00000196872	ENST00000415261	protein_coding	NOVEL	None	33454	536	177	99448857	99524984	-1	C2orf55	MGC42367
2	KIAA1211L	ENSG00000196872	ENST00000420294	protein_coding	NOVEL	None	33454	112	36	99463194	99552722	-1	C2orf55	MGC42367
6	MTRNR2L9	ENSG00000255633	ENST00000544932	protein_coding	KNOWN	None	37166	75	24	62284008	62284534	1	None	None
HSCHR6_MHC_QBL	LYPLA2P1	ENSG00000232376	ENST00000442624	processed_pseudogene	KNOWN	None	21069	None	None	33262169	33262864	-1	LYPLA2L	dJ570F3.6, APT
HSCHR6_MHC_QBL	LYPLA2P1	ENSG00000232376	ENST00000548442	processed_pseudogene	KNOWN	None	21069	None	None	33262070	33262864	-1	LYPLA2L	dJ570F3.6, APT
17	RUNDC1	ENSG00000198863	ENST00000590836	retained_intron	KNOWN	None	25418	None	None	41132582	41134020	1	None	DKFZp761H0421
17	RUNDC1	ENSG00000198863	ENST00000361677	protein_coding	KNOWN	CCDS11448	25418	1842	613	41132582	41145707	1	None	DKFZp761H0421
17	RUNDC1	ENSG00000198863	ENST00000589705	protein_coding	PUTATIVE	None	25418	791	262	41132598	41143053	1	None	DKFZp761H0421
17	FTLP13	ENSG00000263725	ENST00000584393	processed_pseudogene	KNOWN	None	37963	None	None	21747827	21748211	1	None	None
10	IPMK	ENSG00000151151	ENST00000373935	protein_coding	KNOWN	CCDS7250	20739	1251	416	59951278	60027694	-1	None	None
4	MIR1255A	ENSG00000221265	ENST00000408338	miRNA	KNOWN	None	35320	None	None	102251459	102251571	-1	MIRN1255A	hsa-mir-1255a
10	None	ENSG00000242357	ENST00000443662	sense_overlapping	KNOWN	None	None	None	None	709498	712562	1	None	None
3	FGD5P1	ENSG00000250439	ENST00000502451	processed_transcript	KNOWN	None	44498	None	None	13974553	13978444	1	None	None
3	FGD5P1	ENSG00000250439	ENST00000507265	transcribed_unprocessed_pseudogene	KNOWN	None	44498	None	None	13975752	13978977	1	None	None
2	None	ENSG00000228043	ENST00000431985	lincRNA	KNOWN	None	None	None	None	139175854	139259268	-1	None	None
2	None	ENSG00000228043	ENST00000414911	lincRNA	KNOWN	None	None	None	None	139191945	139259244	-1	None	None
10	None	ENSG00000231601	ENST00000412695	lincRNA	KNOWN	None	None	None	None	789932	790898	1	None	None
2	RNU7-45P	ENSG00000238829	ENST00000459460	snRNA	KNOWN	None	34141	None	None	202006627	202006689	1	None	U7.45
10	None	ENSG00000229869	ENST00000435531	antisense	KNOWN	None	None	None	None	978966	988683	1	None	None
11	None	ENSG00000250644	ENST00000427721	protein_coding	PUTATIVE	None	None	1136	377	1768897	1780281	-1	None	None
HSCHR6_MHC_QBL	RPL35AP4	ENSG00000227168	ENST00000433823	processed_pseudogene	KNOWN	None	33460	None	None	33285981	33286082	-1	None	BPG294E21.7, OTTHUMG00000140156
17	None	ENSG00000263609	ENST00000580507	lincRNA	KNOWN	None	None	None	None	21760934	21792935	-1	None	None
17	None	ENSG00000263609	ENST00000578977	lincRNA	KNOWN	None	None	None	None	21760936	21792968	-1	None	None
17	None	ENSG00000263609	ENST00000579836	lincRNA	KNOWN	None	None	None	None	21771663	21792963	-1	None	None
19	YJEFN3	ENSG00000250067	ENST00000458210	nonsense_mediated_decay	KNOWN	None	24785	297	98	19639691	19648387	1	None	hYjeF_N3-19p13.11, FLJ44968
19	YJEFN3	ENSG00000250067	ENST00000514277	protein_coding	KNOWN	CCDS42530	24785	900	299	19639707	19648390	1	None	hYjeF_N3-19p13.11, FLJ44968
19	YJEFN3	ENSG00000250067	ENST00000436027	protein_coding	KNOWN	CCDS54236	24785	750	249	19639742	19648390	1	None	hYjeF_N3-19p13.11, FLJ44968
2	None	ENSG00000235579	ENST00000424739	processed_pseudogene	KNOWN	None	None	None	None	202027207	202027403	-1	None	None
22	RN7SL349P	ENSG00000266345	ENST00000582364	misc_RNA	KNOWN	None	46365	None	None	36711989	36712246	-1	None	None
6	KHDRBS2	ENSG00000112232	ENST00000281156	protein_coding	KNOWN	CCDS4963	18114	1050	349	62389865	62996132	-1	None	SLM1, SLM-1, MGC26664
11	USP2-AS1	ENSG00000245248	ENST00000577297	antisense	KNOWN	None	48673	None	None	119252488	119280472	1	None	THY1-AS1
11	USP2-AS1	ENSG00000245248	ENST00000498979	antisense	KNOWN	None	48673	None	None	119252520	119371306	1	None	THY1-AS1
11	USP2-AS1	ENSG00000245248	ENST00000500970	antisense	KNOWN	None	48673	None	None	119252520	119397374	1	None	THY1-AS1
11	USP2-AS1	ENSG00000245248	ENST00000578923	antisense	KNOWN	None	48673	None	None	119252531	119369944	1	None	THY1-AS1
11	USP2-AS1	ENSG00000245248	ENST00000530002	antisense	KNOWN	None	48673	None	None	119252545	119346419	1	None	THY1-AS1
22	None	ENSG00000223695	ENST00000424761	lincRNA	KNOWN	None	None	None	None	36784671	36792562	1	None	None
14	BTBD6	ENSG00000184887	ENST00000537513	protein_coding	KNOWN	None	19897	1223	406	105714875	105716774	1	None	BDPL
14	BTBD6	ENSG00000184887	ENST00000392554	protein_coding	KNOWN	CCDS10002	19897	1458	485	105714911	105717430	1	None	BDPL
14	BTBD6	ENSG00000184887	ENST00000463376	protein_coding	PUTATIVE	None	19897	1233	410	105714963	105717430	1	None	BDPL
14	BTBD6	ENSG00000184887	ENST00000392553	retained_intron	KNOWN	None	19897	None	None	105715525	105716633	1	None	BDPL
14	BTBD6	ENSG00000184887	ENST00000536364	protein_coding	KNOWN	CCDS10002	19897	1458	485	105714827	105717421	1	None	BDPL
14	BTBD6	ENSG00000184887	ENST00000327471	protein_coding	KNOWN	None	19897	1233	410	105715115	105717421	1	None	BDPL
2	None	ENSG00000234431	ENST00000434645	lincRNA	KNOWN	None	None	None	None	202031688	202032269	1	None	None
11	None	ENSG00000197149	ENST00000494359	processed_pseudogene	KNOWN	None	None	None	None	17249826	17250698	1	None	None
11	None	ENSG00000197149	ENST00000443932	processed_pseudogene	KNOWN	None	None	None	None	17249817	17250698	1	None	None
HSCHR6_MHC_QBL	RPL12P1	ENSG00000228099	ENST00000439896	processed_pseudogene	KNOWN	None	13976	None	None	33296657	33297154	-1	None	RPL12-L, dJ570F3.5, CICK0721Q.1
HSCHR6_MHC_QBL	RPL12P1	ENSG00000228099	ENST00000552737	pseudogene	KNOWN	None	13976	None	None	33296657	33297154	-1	None	RPL12-L, dJ570F3.5, CICK0721Q.1
2	None	ENSG00000230569	ENST00000412593	lincRNA	KNOWN	None	None	None	None	139228226	139231502	1	None	None
22	None	ENSG00000237668	ENST00000413110	processed_pseudogene	KNOWN	None	None	None	None	36817318	36817689	-1	None	None
2	MTND5P25	ENSG00000227348	ENST00000430499	unprocessed_pseudogene	KNOWN	None	42287	None	None	202077006	202077804	-1	None	None
17	None	ENSG00000264956	ENST00000578881	lincRNA	KNOWN	None	None	None	None	21793031	21814029	1	None	None
17	None	ENSG00000264956	ENST00000577956	lincRNA	KNOWN	None	None	None	None	21812188	21814739	1	None	None
8	RN7SL457P	ENSG00000263794	ENST00000578760	misc_RNA	KNOWN	None	46473	None	None	33573302	33573586	1	None	None
4	RNU6-462P	ENSG00000199529	ENST00000362659	snRNA	KNOWN	None	47425	None	None	102645033	102645137	1	None	None
14	None	ENSG00000259160	ENST00000555669	processed_pseudogene	KNOWN	None	None	None	None	65002420	65002597	-1	None	None
2	MTND4P23	ENSG00000225796	ENST00000447723	unprocessed_pseudogene	KNOWN	None	42210	None	None	202078021	202079383	-1	None	None
4	MTND5P5	ENSG00000251149	ENST00000503764	processed_pseudogene	KNOWN	None	42307	None	None	102893580	102893955	1	None	None
17	None	ENSG00000266691	ENST00000583997	processed_pseudogene	KNOWN	None	None	None	None	21804473	21805895	-1	None	None
3	VN1R21P	ENSG00000224752	ENST00000426703	unitary_pseudogene	KNOWN	None	37336	None	None	14130607	14131371	-1	None	None
2	None	ENSG00000235318	ENST00000425022	unprocessed_pseudogene	KNOWN	None	None	None	None	202079376	202079673	-1	None	None
HG325_PATCH	HYAL2	ENSG00000261921	ENST00000575564	protein_coding	KNOWN	None	5321	1422	473	50355222	50360214	-1	None	LuCa-2, LUCA2
HG325_PATCH	HYAL2	ENSG00000261921	ENST00000571614	protein_coding	KNOWN	None	5321	1422	473	50355228	50360338	-1	None	LuCa-2, LUCA2
HG325_PATCH	HYAL2	ENSG00000261921	ENST00000576042	protein_coding	KNOWN	None	5321	1422	473	50355241	50359145	-1	None	LuCa-2, LUCA2
HG325_PATCH	HYAL2	ENSG00000261921	ENST00000572136	protein_coding	KNOWN	None	5321	1422	473	50355244	50360209	-1	None	LuCa-2, LUCA2
HG325_PATCH	HYAL2	ENSG00000261921	ENST00000572556	retained_intron	KNOWN	None	5321	None	None	50356021	50360173	-1	None	LuCa-2, LUCA2
HG325_PATCH	HYAL2	ENSG00000261921	ENST00000576757	protein_coding	KNOWN	None	5321	363	120	50357559	50358649	-1	None	LuCa-2, LUCA2
HG325_PATCH	HYAL2	ENSG00000261921	ENST00000573471	protein_coding	KNOWN	None	5321	353	116	50357569	50358419	-1	None	LuCa-2, LUCA2
HG325_PATCH	HYAL2	ENSG00000261921	ENST00000576466	protein_coding	KNOWN	None	5321	244	80	50357678	50358380	-1	None	LuCa-2, LUCA2
HG325_PATCH	HYAL2	ENSG00000261921	ENST00000574608	protein_coding	KNOWN	None	5321	230	75	50357692	50360173	-1	None	LuCa-2, LUCA2
HG325_PATCH	HYAL2	ENSG00000261921	ENST00000577110	protein_coding	KNOWN	None	5321	143	46	50357779	50358581	-1	None	LuCa-2, LUCA2
2	None	ENSG00000241772	ENST00000458007	3prime_overlapping_ncrna	KNOWN	None	None	None	None	139326660	139332028	1	None	None
2	None	ENSG00000241772	ENST00000449869	3prime_overlapping_ncrna	KNOWN	None	None	None	None	139326662	139328644	1	None	None
HSCHR6_MHC_QBL	PHF1	ENSG00000239756	ENST00000414166	processed_transcript	KNOWN	None	8919	None	None	33306984	33307829	1	None	MTF2L2, TDRD19C
HSCHR6_MHC_QBL	PHF1	ENSG00000239756	ENST00000442136	processed_transcript	KNOWN	None	8919	None	None	33307304	33307829	1	None	MTF2L2, TDRD19C
HSCHR6_MHC_QBL	PHF1	ENSG00000239756	ENST00000418028	processed_transcript	KNOWN	None	8919	None	None	33307365	33307501	1	None	MTF2L2, TDRD19C
HSCHR6_MHC_QBL	PHF1	ENSG00000239756	ENST00000441437	processed_transcript	KNOWN	None	8919	None	None	33307372	33307501	1	None	MTF2L2, TDRD19C
HSCHR6_MHC_QBL	PHF1	ENSG00000239756	ENST00000453736	processed_transcript	KNOWN	None	8919	None	None	33307575	33307829	1	None	MTF2L2, TDRD19C
HSCHR6_MHC_QBL	PHF1	ENSG00000239756	ENST00000414695	processed_transcript	KNOWN	None	8919	None	None	33307575	33307829	1	None	MTF2L2, TDRD19C
HSCHR6_MHC_QBL	PHF1	ENSG00000239756	ENST00000422985	processed_transcript	PUTATIVE	None	8919	None	None	33307642	33307829	1	None	MTF2L2, TDRD19C
8	VENTXP5	ENSG00000253569	ENST00000523979	processed_pseudogene	KNOWN	None	32214	None	None	33579823	33580597	-1	None	None
2	None	ENSG00000213090	ENST00000392253	processed_pseudogene	KNOWN	None	None	None	None	202275267	202278031	-1	None	None
17	None	ENSG00000222770	ENST00000410838	miRNA	NOVEL	None	None	None	None	21821899	21821986	-1	None	None
8	None	ENSG00000271971	ENST00000607706	antisense	KNOWN	None	None	None	None	94727606	94728341	-1	None	None
8	None	ENSG00000240738	ENST00000468681	processed_pseudogene	KNOWN	None	None	None	None	33716998	33717741	-1	None	None
17	FAM27L	ENSG00000178130	ENST00000426869	lincRNA	KNOWN	None	32410	None	None	21825297	21826499	1	None	MGC35151
6	None	ENSG00000202343	ENST00000365473	snoRNA	NOVEL	None	None	None	None	149915761	149915895	1	None	None
2	None	ENSG00000260059	ENST00000562796	lincRNA	KNOWN	None	None	None	None	139357233	139359996	-1	None	None
8	None	ENSG00000253854	ENST00000520562	antisense	KNOWN	None	None	None	None	94731802	94733395	1	None	None
6	None	ENSG00000207292	ENST00000384562	misc_RNA	NOVEL	None	None	None	None	149952573	149952685	1	None	None
2	None	ENSG00000202008	ENST00000365138	misc_RNA	NOVEL	None	None	None	None	202288236	202288327	1	None	None
2	None	ENSG00000237772	ENST00000453636	lincRNA	KNOWN	None	None	None	None	139362080	139370737	1	None	None
15	GOLGA8R	ENSG00000186399	ENST00000327271	protein_coding	NOVEL	None	44407	1896	631	30695943	30706365	-1	None	None
15	GOLGA8R	ENSG00000186399	ENST00000544495	protein_coding	KNOWN	None	44407	885	294	30698989	30706463	-1	None	None
2	None	ENSG00000234842	ENST00000436962	unprocessed_pseudogene	KNOWN	None	None	None	None	202414354	202415030	1	None	None
1	None	ENSG00000228750	ENST00000432429	lincRNA	KNOWN	None	None	None	None	6784697	6787468	1	None	None
1	None	ENSG00000228750	ENST00000414210	lincRNA	KNOWN	None	None	None	None	6784697	6790072	1	None	None
1	None	ENSG00000228750	ENST00000421469	lincRNA	KNOWN	None	None	None	None	6787587	6790072	1	None	None
8	None	ENSG00000253722	ENST00000517998	antisense	KNOWN	None	None	None	None	94745444	94746250	1	None	None
6	None	ENSG00000219433	ENST00000404779	processed_pseudogene	KNOWN	None	None	None	None	150115899	150116882	1	None	None
17	None	ENSG00000264811	ENST00000579993	processed_pseudogene	KNOWN	None	None	None	None	21825740	21826073	-1	None	None
14	None	ENSG00000259076	ENST00000556634	antisense	KNOWN	None	None	None	None	65019412	65063231	-1	None	None
14	None	ENSG00000259076	ENST00000554454	antisense	KNOWN	None	None	None	None	65019414	65063254	-1	None	None
2	RN7SKP286	ENSG00000222826	ENST00000410894	misc_RNA	KNOWN	None	46010	None	None	139621167	139621465	-1	None	None
2	None	ENSG00000224299	ENST00000434543	unprocessed_pseudogene	KNOWN	None	None	None	None	202415247	202415772	1	None	None
17	None	ENSG00000265567	ENST00000433967	processed_pseudogene	KNOWN	None	None	None	None	21827939	21828263	-1	None	None
HSCHR17_4_CTG4	KRTAP4-9	ENSG00000262121	ENST00000574465	protein_coding	KNOWN	None	18910	633	210	39262003	39263159	1	None	KAP4.9
16	ACD	ENSG00000102977	ENST00000219251	protein_coding	KNOWN	CCDS10842	25070	1626	541	67691415	67694713	-1	None	Ptop, Pip1, Tpp1, Tint1
16	ACD	ENSG00000102977	ENST00000602382	protein_coding	NOVEL	None	25070	547	181	67691432	67693166	-1	None	Ptop, Pip1, Tpp1, Tint1
16	ACD	ENSG00000102977	ENST00000393919	protein_coding	KNOWN	CCDS42181	25070	1635	544	67691435	67694646	-1	None	Ptop, Pip1, Tpp1, Tint1
16	ACD	ENSG00000102977	ENST00000602656	retained_intron	KNOWN	None	25070	None	None	67691436	67692226	-1	None	Ptop, Pip1, Tpp1, Tint1
16	ACD	ENSG00000102977	ENST00000602622	retained_intron	KNOWN	None	25070	None	None	67691436	67694174	-1	None	Ptop, Pip1, Tpp1, Tint1
16	ACD	ENSG00000102977	ENST00000602320	protein_coding	NOVEL	None	25070	1348	448	67691449	67694142	-1	None	Ptop, Pip1, Tpp1, Tint1
16	ACD	ENSG00000102977	ENST00000602860	retained_intron	KNOWN	None	25070	None	None	67691466	67694184	-1	None	Ptop, Pip1, Tpp1, Tint1
16	ACD	ENSG00000102977	ENST00000602850	protein_coding	NOVEL	None	25070	883	293	67692043	67693852	-1	None	Ptop, Pip1, Tpp1, Tint1
16	ACD	ENSG00000102977	ENST00000602945	retained_intron	KNOWN	None	25070	None	None	67692646	67694117	-1	None	Ptop, Pip1, Tpp1, Tint1
16	ACD	ENSG00000102977	ENST00000602519	retained_intron	KNOWN	None	25070	None	None	67692956	67694135	-1	None	Ptop, Pip1, Tpp1, Tint1
16	ACD	ENSG00000102977	ENST00000602423	retained_intron	KNOWN	None	25070	None	None	67693368	67694167	-1	None	Ptop, Pip1, Tpp1, Tint1
16	ACD	ENSG00000102977	ENST00000602780	retained_intron	KNOWN	None	25070	None	None	67693521	67694206	-1	None	Ptop, Pip1, Tpp1, Tint1
16	ACD	ENSG00000102977	ENST00000602821	retained_intron	KNOWN	None	25070	None	None	67693550	67694174	-1	None	Ptop, Pip1, Tpp1, Tint1
2	YY1P2	ENSG00000229104	ENST00000438766	processed_pseudogene	KNOWN	None	45095	None	None	139654721	139655668	1	None	None
2	None	ENSG00000227736	ENST00000454456	unprocessed_pseudogene	KNOWN	None	None	None	None	202417582	202418335	1	None	None
6	None	ENSG00000231760	ENST00000455607	antisense	KNOWN	None	None	None	None	150117711	150119308	-1	None	None
15	None	ENSG00000203473	ENST00000366291	pseudogene	NOVEL	None	None	None	None	75830020	75830438	-1	None	None
17	None	ENSG00000264562	ENST00000583878	processed_pseudogene	KNOWN	None	None	None	None	21832277	21832619	-1	None	None
2	None	ENSG00000224590	ENST00000452205	unprocessed_pseudogene	KNOWN	None	None	None	None	202418411	202418754	1	None	None
6	ECHDC1	ENSG00000093144	ENST00000454859	protein_coding	KNOWN	CCDS43504	21489	906	301	127609855	127664754	-1	None	dJ351K20.2
6	ECHDC1	ENSG00000093144	ENST00000531967	protein_coding	KNOWN	CCDS47471	21489	924	307	127609857	127664020	-1	None	dJ351K20.2
6	ECHDC1	ENSG00000093144	ENST00000474289	protein_coding	KNOWN	CCDS43504	21489	906	301	127609865	127664491	-1	None	dJ351K20.2
6	ECHDC1	ENSG00000093144	ENST00000368295	nonsense_mediated_decay	KNOWN	None	21489	378	125	127609907	127652175	-1	None	dJ351K20.2
6	ECHDC1	ENSG00000093144	ENST00000528402	protein_coding	NOVEL	CCDS55054	21489	213	70	127610412	127664694	-1	None	dJ351K20.2
6	ECHDC1	ENSG00000093144	ENST00000454591	protein_coding	KNOWN	CCDS47472	21489	681	226	127610412	127664707	-1	None	dJ351K20.2
6	ECHDC1	ENSG00000093144	ENST00000479525	nonsense_mediated_decay	KNOWN	None	21489	378	125	127610777	127664752	-1	None	dJ351K20.2
6	ECHDC1	ENSG00000093144	ENST00000368291	protein_coding	KNOWN	CCDS34530	21489	438	145	127610779	127664744	-1	None	dJ351K20.2
6	ECHDC1	ENSG00000093144	ENST00000475319	retained_intron	KNOWN	None	21489	None	None	127610925	127637005	-1	None	dJ351K20.2
6	ECHDC1	ENSG00000093144	ENST00000430841	protein_coding	KNOWN	CCDS43504	21489	906	301	127611014	127664543	-1	None	dJ351K20.2
6	ECHDC1	ENSG00000093144	ENST00000368289	protein_coding	KNOWN	CCDS34530	21489	438	145	127611022	127664504	-1	None	dJ351K20.2
6	ECHDC1	ENSG00000093144	ENST00000417628	nonsense_mediated_decay	KNOWN	None	21489	229	75	127611074	127648282	-1	None	dJ351K20.2
6	ECHDC1	ENSG00000093144	ENST00000368292	nonsense_mediated_decay	KNOWN	None	21489	420	139	127611133	127664504	-1	None	dJ351K20.2
6	ECHDC1	ENSG00000093144	ENST00000488087	processed_transcript	KNOWN	None	21489	None	None	127611191	127615889	-1	None	dJ351K20.2
6	ECHDC1	ENSG00000093144	ENST00000436638	protein_coding	NOVEL	None	21489	766	254	127611195	127652094	-1	None	dJ351K20.2
6	ECHDC1	ENSG00000093144	ENST00000460558	protein_coding	NOVEL	None	21489	301	99	127611255	127648157	-1	None	dJ351K20.2
6	ECHDC1	ENSG00000093144	ENST00000461239	protein_coding	PUTATIVE	None	21489	104	33	127634211	127637604	-1	None	dJ351K20.2
6	ECHDC1	ENSG00000093144	ENST00000525745	protein_coding	NOVEL	None	21489	537	178	127636000	127664504	-1	None	dJ351K20.2
6	ECHDC1	ENSG00000093144	ENST00000534442	protein_coding	KNOWN	None	21489	454	150	127636004	127664493	-1	None	dJ351K20.2
6	ECHDC1	ENSG00000093144	ENST00000526299	nonsense_mediated_decay	KNOWN	None	21489	252	83	127636011	127664504	-1	None	dJ351K20.2
6	ECHDC1	ENSG00000093144	ENST00000474240	retained_intron	KNOWN	None	21489	None	None	127637401	127652045	-1	None	dJ351K20.2
6	ECHDC1	ENSG00000093144	ENST00000531582	protein_coding	KNOWN	None	21489	407	134	127637604	127663552	-1	None	dJ351K20.2
6	ECHDC1	ENSG00000093144	ENST00000368287	retained_intron	KNOWN	None	21489	None	None	127648026	127664503	-1	None	dJ351K20.2
6	ECHDC1	ENSG00000093144	ENST00000309620	protein_coding	KNOWN	None	21489	855	284	127610782	127664752	-1	None	dJ351K20.2
19	ZNF723	ENSG00000268696	ENST00000600766	unprocessed_pseudogene	KNOWN	None	32286	None	None	23015003	23042224	1	None	None
15	None	ENSG00000260235	ENST00000566036	antisense	KNOWN	None	None	None	None	75917134	75918031	1	None	None
2	None	ENSG00000234731	ENST00000440828	unprocessed_pseudogene	KNOWN	None	None	None	None	202418819	202419113	1	None	None
5	HDAC3	ENSG00000171720	ENST00000469550	retained_intron	KNOWN	None	4854	None	None	141000443	141014731	-1	None	RPD3, HD3, RPD3-2
5	HDAC3	ENSG00000171720	ENST00000305264	protein_coding	KNOWN	CCDS4264	4854	1287	428	141000443	141016437	-1	None	RPD3, HD3, RPD3-2
5	HDAC3	ENSG00000171720	ENST00000469207	processed_transcript	KNOWN	None	4854	None	None	141000492	141005637	-1	None	RPD3, HD3, RPD3-2
5	HDAC3	ENSG00000171720	ENST00000459727	processed_transcript	KNOWN	None	4854	None	None	141001052	141008129	-1	None	RPD3, HD3, RPD3-2
5	HDAC3	ENSG00000171720	ENST00000491581	retained_intron	KNOWN	None	4854	None	None	141004429	141007503	-1	None	RPD3, HD3, RPD3-2
5	HDAC3	ENSG00000171720	ENST00000486618	retained_intron	KNOWN	None	4854	None	None	141004775	141006052	-1	None	RPD3, HD3, RPD3-2
5	HDAC3	ENSG00000171720	ENST00000467533	retained_intron	KNOWN	None	4854	None	None	141005268	141009539	-1	None	RPD3, HD3, RPD3-2
5	HDAC3	ENSG00000171720	ENST00000492407	retained_intron	KNOWN	None	4854	None	None	141005317	141008825	-1	None	RPD3, HD3, RPD3-2
5	HDAC3	ENSG00000171720	ENST00000523353	protein_coding	NOVEL	None	4854	385	127	141005592	141016409	-1	None	RPD3, HD3, RPD3-2
5	HDAC3	ENSG00000171720	ENST00000475549	retained_intron	KNOWN	None	4854	None	None	141005593	141006011	-1	None	RPD3, HD3, RPD3-2
5	HDAC3	ENSG00000171720	ENST00000523088	protein_coding	NOVEL	None	4854	656	217	141005800	141016400	-1	None	RPD3, HD3, RPD3-2
5	HDAC3	ENSG00000171720	ENST00000519474	nonsense_mediated_decay	KNOWN	None	4854	162	53	141007459	141016405	-1	None	RPD3, HD3, RPD3-2
5	HDAC3	ENSG00000171720	ENST00000476739	retained_intron	KNOWN	None	4854	None	None	141007466	141008791	-1	None	RPD3, HD3, RPD3-2
5	HDAC3	ENSG00000171720	ENST00000495485	retained_intron	KNOWN	None	4854	None	None	141008126	141016392	-1	None	RPD3, HD3, RPD3-2
5	HDAC3	ENSG00000171720	ENST00000490808	retained_intron	KNOWN	None	4854	None	None	141008172	141009309	-1	None	RPD3, HD3, RPD3-2
5	HDAC3	ENSG00000171720	ENST00000471968	retained_intron	KNOWN	None	4854	None	None	141008833	141014423	-1	None	RPD3, HD3, RPD3-2
5	HDAC3	ENSG00000171720	ENST00000492506	retained_intron	KNOWN	None	4854	None	None	141015476	141016410	-1	None	RPD3, HD3, RPD3-2
1	ICMT	ENSG00000116237	ENST00000343813	protein_coding	KNOWN	CCDS61	5350	855	284	6281253	6296000	-1	None	PCCMT, HSTE14, PPMT
1	ICMT	ENSG00000116237	ENST00000495791	processed_transcript	KNOWN	None	5350	None	None	6281958	6283562	-1	None	PCCMT, HSTE14, PPMT
1	ICMT	ENSG00000116237	ENST00000489498	nonsense_mediated_decay	KNOWN	None	5350	351	116	6283551	6296032	-1	None	PCCMT, HSTE14, PPMT
1	ICMT	ENSG00000116237	ENST00000474756	nonsense_mediated_decay	KNOWN	None	5350	285	94	6284659	6296032	-1	None	PCCMT, HSTE14, PPMT
1	ICMT	ENSG00000116237	ENST00000362035	protein_coding	KNOWN	None	5350	351	116	6294505	6296000	-1	None	PCCMT, HSTE14, PPMT
17	None	ENSG00000266806	ENST00000585087	unprocessed_pseudogene	KNOWN	None	None	None	None	21858203	21859016	1	None	None
17	METTL16	ENSG00000127804	ENST00000574623	processed_transcript	PUTATIVE	None	28484	None	None	2319343	2323063	-1	METT10D	MGC3329
17	METTL16	ENSG00000127804	ENST00000576155	nonsense_mediated_decay	KNOWN	CCDS42232	28484	1689	562	2319352	2415158	-1	METT10D	MGC3329
17	METTL16	ENSG00000127804	ENST00000571669	processed_transcript	KNOWN	None	28484	None	None	2319352	2415185	-1	METT10D	MGC3329
17	METTL16	ENSG00000127804	ENST00000263092	protein_coding	KNOWN	CCDS42232	28484	1689	562	2321789	2415180	-1	METT10D	MGC3329
17	METTL16	ENSG00000127804	ENST00000576556	nonsense_mediated_decay	KNOWN	None	28484	366	121	2322882	2415182	-1	METT10D	MGC3329
17	METTL16	ENSG00000127804	ENST00000574752	nonsense_mediated_decay	KNOWN	None	28484	507	168	2323479	2415129	-1	METT10D	MGC3329
17	METTL16	ENSG00000127804	ENST00000571298	nonsense_mediated_decay	KNOWN	None	28484	304	100	2363187	2381179	-1	METT10D	MGC3329
17	METTL16	ENSG00000127804	ENST00000576976	protein_coding	PUTATIVE	None	28484	447	148	2367642	2415183	-1	METT10D	MGC3329
17	METTL16	ENSG00000127804	ENST00000577148	retained_intron	KNOWN	None	28484	None	None	2380703	2405574	-1	METT10D	MGC3329
17	METTL16	ENSG00000127804	ENST00000538844	protein_coding	KNOWN	None	28484	1035	344	2322882	2415182	-1	METT10D	MGC3329
4	MTRNR2L13	ENSG00000270394	ENST00000604093	protein_coding	KNOWN	None	37170	75	24	117220016	117221520	1	None	None
2	MTND4P29	ENSG00000249177	ENST00000503122	unprocessed_pseudogene	KNOWN	None	42216	None	None	202419107	202420774	1	None	None
7	TRBV6-7	ENSG00000253188	ENST00000390373	TR_V_gene	KNOWN	None	12232	344	113	142143652	142144084	-1	None	TRBV67, TCRBV13S8P, TCRBV6S7
8	None	ENSG00000253848	ENST00000523945	antisense	KNOWN	None	None	None	None	94753421	94756762	1	None	None
11	None	ENSG00000231880	ENST00000450908	protein_coding	KNOWN	None	None	84	27	47599277	47599823	1	None	None
2	MTND5P31	ENSG00000227841	ENST00000419366	unprocessed_pseudogene	KNOWN	None	42293	None	None	202421615	202422988	1	None	None
17	None	ENSG00000266172	ENST00000583831	processed_pseudogene	KNOWN	None	None	None	None	21904124	21904694	-1	None	None
2	AHCYP4	ENSG00000232992	ENST00000419201	processed_pseudogene	KNOWN	None	44996	None	None	139659003	139660317	-1	None	None
2	EML4	ENSG00000143924	ENST00000318522	protein_coding	KNOWN	CCDS1807	1316	2946	981	42396490	42559688	1	C2orf2	ROPP120, ELP120
2	EML4	ENSG00000143924	ENST00000402711	protein_coding	NOVEL	CCDS46266	1316	2772	923	42396493	42557884	1	C2orf2	ROPP120, ELP120
2	EML4	ENSG00000143924	ENST00000409040	retained_intron	KNOWN	None	1316	None	None	42396521	42488653	1	C2orf2	ROPP120, ELP120
2	EML4	ENSG00000143924	ENST00000482660	processed_transcript	KNOWN	None	1316	None	None	42396531	42472828	1	C2orf2	ROPP120, ELP120
2	EML4	ENSG00000143924	ENST00000401738	protein_coding	NOVEL	None	1316	2979	992	42396601	42558014	1	C2orf2	ROPP120, ELP120
2	EML4	ENSG00000143924	ENST00000480320	retained_intron	KNOWN	None	1316	None	None	42510049	42517053	1	C2orf2	ROPP120, ELP120
2	EML4	ENSG00000143924	ENST00000406175	retained_intron	KNOWN	None	1316	None	None	42513063	42559688	1	C2orf2	ROPP120, ELP120
2	EML4	ENSG00000143924	ENST00000472632	processed_transcript	KNOWN	None	1316	None	None	42544614	42547138	1	C2orf2	ROPP120, ELP120
2	EML4	ENSG00000143924	ENST00000453191	protein_coding	KNOWN	None	1316	738	245	42528393	42557544	1	C2orf2	ROPP120, ELP120
15	None	ENSG00000260206	ENST00000564683	antisense	KNOWN	None	None	None	None	75928480	75931580	1	None	None
8	None	ENSG00000254057	ENST00000520962	lincRNA	KNOWN	None	None	None	None	94846682	94858971	-1	None	None
2	ENO1P4	ENSG00000241790	ENST00000416471	processed_pseudogene	KNOWN	None	37945	None	None	202486369	202488153	-1	None	None
17	None	ENSG00000266795	ENST00000581223	lincRNA	KNOWN	None	None	None	None	21906417	21913070	1	None	None
4	TRAM1L1	ENSG00000174599	ENST00000310754	protein_coding	KNOWN	CCDS3707	28371	1110	369	118004718	118006736	-1	None	MGC26568
15	MAN2C1	ENSG00000140400	ENST00000562067	retained_intron	KNOWN	None	6827	None	None	75648133	75649226	-1	MANA1, MANA	None
15	MAN2C1	ENSG00000140400	ENST00000564929	retained_intron	KNOWN	None	6827	None	None	75648133	75649298	-1	MANA1, MANA	None
15	MAN2C1	ENSG00000140400	ENST00000569482	protein_coding	NOVEL	CCDS58390	6827	3054	1017	75648133	75660933	-1	MANA1, MANA	None
15	MAN2C1	ENSG00000140400	ENST00000565683	protein_coding	NOVEL	CCDS58391	6827	3174	1057	75648133	75660936	-1	MANA1, MANA	None
15	MAN2C1	ENSG00000140400	ENST00000563622	protein_coding	NOVEL	CCDS58389	6827	2826	941	75648133	75660945	-1	MANA1, MANA	None
15	MAN2C1	ENSG00000140400	ENST00000267978	protein_coding	KNOWN	CCDS32298	6827	3123	1040	75648133	75660971	-1	MANA1, MANA	None
15	MAN2C1	ENSG00000140400	ENST00000561693	retained_intron	KNOWN	None	6827	None	None	75648135	75649708	-1	MANA1, MANA	None
15	MAN2C1	ENSG00000140400	ENST00000566099	retained_intron	KNOWN	None	6827	None	None	75648146	75651441	-1	MANA1, MANA	None
15	MAN2C1	ENSG00000140400	ENST00000566569	retained_intron	KNOWN	None	6827	None	None	75648461	75649389	-1	MANA1, MANA	None
15	MAN2C1	ENSG00000140400	ENST00000563528	retained_intron	KNOWN	None	6827	None	None	75648531	75649160	-1	MANA1, MANA	None
15	MAN2C1	ENSG00000140400	ENST00000567163	retained_intron	KNOWN	None	6827	None	None	75648640	75652329	-1	MANA1, MANA	None
15	MAN2C1	ENSG00000140400	ENST00000564570	retained_intron	KNOWN	None	6827	None	None	75648947	75651521	-1	MANA1, MANA	None
15	MAN2C1	ENSG00000140400	ENST00000564785	retained_intron	KNOWN	None	6827	None	None	75650076	75655518	-1	MANA1, MANA	None
15	MAN2C1	ENSG00000140400	ENST00000567360	retained_intron	KNOWN	None	6827	None	None	75650387	75650960	-1	MANA1, MANA	None
15	MAN2C1	ENSG00000140400	ENST00000563441	retained_intron	KNOWN	None	6827	None	None	75650656	75660946	-1	MANA1, MANA	None
15	MAN2C1	ENSG00000140400	ENST00000563368	retained_intron	KNOWN	None	6827	None	None	75650801	75652300	-1	MANA1, MANA	None
15	MAN2C1	ENSG00000140400	ENST00000569176	retained_intron	KNOWN	None	6827	None	None	75650803	75652103	-1	MANA1, MANA	None
15	MAN2C1	ENSG00000140400	ENST00000566013	retained_intron	KNOWN	None	6827	None	None	75650984	75652329	-1	MANA1, MANA	None
15	MAN2C1	ENSG00000140400	ENST00000563794	retained_intron	KNOWN	None	6827	None	None	75651458	75652402	-1	MANA1, MANA	None
15	MAN2C1	ENSG00000140400	ENST00000565953	retained_intron	KNOWN	None	6827	None	None	75651683	75652467	-1	MANA1, MANA	None
15	MAN2C1	ENSG00000140400	ENST00000563596	retained_intron	KNOWN	None	6827	None	None	75651962	75652864	-1	MANA1, MANA	None
15	MAN2C1	ENSG00000140400	ENST00000566634	nonsense_mediated_decay	KNOWN	None	6827	234	77	75651964	75660946	-1	MANA1, MANA	None
15	MAN2C1	ENSG00000140400	ENST00000562461	retained_intron	KNOWN	None	6827	None	None	75652460	75653403	-1	MANA1, MANA	None
15	MAN2C1	ENSG00000140400	ENST00000562228	retained_intron	KNOWN	None	6827	None	None	75652973	75654513	-1	MANA1, MANA	None
15	MAN2C1	ENSG00000140400	ENST00000563058	retained_intron	KNOWN	None	6827	None	None	75653296	75654732	-1	MANA1, MANA	None
15	MAN2C1	ENSG00000140400	ENST00000566253	processed_transcript	KNOWN	None	6827	None	None	75653438	75654553	-1	MANA1, MANA	None
15	MAN2C1	ENSG00000140400	ENST00000563013	retained_intron	KNOWN	None	6827	None	None	75653439	75654515	-1	MANA1, MANA	None
15	MAN2C1	ENSG00000140400	ENST00000568944	retained_intron	KNOWN	None	6827	None	None	75653637	75654978	-1	MANA1, MANA	None
15	MAN2C1	ENSG00000140400	ENST00000421803	nonsense_mediated_decay	KNOWN	None	6827	630	209	75653662	75660946	-1	MANA1, MANA	None
15	MAN2C1	ENSG00000140400	ENST00000570257	nonsense_mediated_decay	KNOWN	None	6827	519	172	75653979	75658933	-1	MANA1, MANA	None
15	MAN2C1	ENSG00000140400	ENST00000565801	retained_intron	KNOWN	None	6827	None	None	75654226	75655520	-1	MANA1, MANA	None
15	MAN2C1	ENSG00000140400	ENST00000565784	nonsense_mediated_decay	KNOWN	None	6827	234	77	75654716	75660946	-1	MANA1, MANA	None
15	MAN2C1	ENSG00000140400	ENST00000563539	processed_transcript	KNOWN	None	6827	None	None	75655053	75660946	-1	MANA1, MANA	None
15	MAN2C1	ENSG00000140400	ENST00000565699	retained_intron	KNOWN	None	6827	None	None	75656095	75656949	-1	MANA1, MANA	None
15	MAN2C1	ENSG00000140400	ENST00000569355	nonsense_mediated_decay	KNOWN	None	6827	543	180	75656387	75660950	-1	MANA1, MANA	None
15	MAN2C1	ENSG00000140400	ENST00000568374	protein_coding	NOVEL	None	6827	547	181	75656457	75660946	-1	MANA1, MANA	None
15	MAN2C1	ENSG00000140400	ENST00000565534	retained_intron	KNOWN	None	6827	None	None	75656481	75660934	-1	MANA1, MANA	None
15	MAN2C1	ENSG00000140400	ENST00000566256	protein_coding	NOVEL	None	6827	551	182	75656839	75660953	-1	MANA1, MANA	None
15	MAN2C1	ENSG00000140400	ENST00000562071	nonsense_mediated_decay	KNOWN	None	6827	270	89	75656867	75660953	-1	MANA1, MANA	None
15	MAN2C1	ENSG00000140400	ENST00000561615	protein_coding	NOVEL	None	6827	548	181	75656929	75660944	-1	MANA1, MANA	None
15	MAN2C1	ENSG00000140400	ENST00000569069	retained_intron	KNOWN	None	6827	None	None	75658857	75660347	-1	MANA1, MANA	None
15	MAN2C1	ENSG00000140400	ENST00000565652	retained_intron	KNOWN	None	6827	None	None	75658883	75660929	-1	MANA1, MANA	None
8	TNKS	ENSG00000173273	ENST00000520408	protein_coding	PUTATIVE	None	11941	1854	617	9413424	9567919	1	None	TIN1, TINF1, TNKS1, PARP-5a, PARP5A, pART5
8	TNKS	ENSG00000173273	ENST00000310430	protein_coding	KNOWN	CCDS5974	11941	3984	1327	9413424	9639856	1	None	TIN1, TINF1, TNKS1, PARP-5a, PARP5A, pART5
8	TNKS	ENSG00000173273	ENST00000522110	protein_coding	PUTATIVE	None	11941	732	243	9413442	9416341	1	None	TIN1, TINF1, TNKS1, PARP-5a, PARP5A, pART5
8	TNKS	ENSG00000173273	ENST00000517652	processed_transcript	KNOWN	None	11941	None	None	9423770	9424036	1	None	TIN1, TINF1, TNKS1, PARP-5a, PARP5A, pART5
8	TNKS	ENSG00000173273	ENST00000518281	protein_coding	PUTATIVE	None	11941	3273	1090	9432517	9634439	1	None	TIN1, TINF1, TNKS1, PARP-5a, PARP5A, pART5
8	TNKS	ENSG00000173273	ENST00000518027	processed_transcript	KNOWN	None	11941	None	None	9472800	9564518	1	None	TIN1, TINF1, TNKS1, PARP-5a, PARP5A, pART5
8	TNKS	ENSG00000173273	ENST00000521039	retained_intron	KNOWN	None	11941	None	None	9527629	9538666	1	None	TIN1, TINF1, TNKS1, PARP-5a, PARP5A, pART5
8	TNKS	ENSG00000173273	ENST00000519392	processed_transcript	KNOWN	None	11941	None	None	9537264	9564518	1	None	TIN1, TINF1, TNKS1, PARP-5a, PARP5A, pART5
8	TNKS	ENSG00000173273	ENST00000517989	retained_intron	KNOWN	None	11941	None	None	9537356	9565916	1	None	TIN1, TINF1, TNKS1, PARP-5a, PARP5A, pART5
8	TNKS	ENSG00000173273	ENST00000519930	processed_transcript	KNOWN	None	11941	None	None	9577966	9588483	1	None	TIN1, TINF1, TNKS1, PARP-5a, PARP5A, pART5
8	TNKS	ENSG00000173273	ENST00000518635	nonsense_mediated_decay	KNOWN	None	11941	207	68	9592501	9605723	1	None	TIN1, TINF1, TNKS1, PARP-5a, PARP5A, pART5
8	TNKS	ENSG00000173273	ENST00000519191	processed_transcript	KNOWN	None	11941	None	None	9598424	9609223	1	None	TIN1, TINF1, TNKS1, PARP-5a, PARP5A, pART5
8	TNKS	ENSG00000173273	ENST00000517770	protein_coding	PUTATIVE	None	11941	186	61	9627641	9634546	1	None	TIN1, TINF1, TNKS1, PARP-5a, PARP5A, pART5
6	PSMG4	ENSG00000180822	ENST00000509933	nonsense_mediated_decay	KNOWN	None	21108	108	35	3231637	3271069	1	C6orf86	PAC4
6	PSMG4	ENSG00000180822	ENST00000380306	protein_coding	PUTATIVE	None	21108	375	124	3232041	3268015	1	C6orf86	PAC4
6	PSMG4	ENSG00000180822	ENST00000416079	processed_transcript	KNOWN	None	21108	None	None	3232063	3238099	1	C6orf86	PAC4
6	PSMG4	ENSG00000180822	ENST00000438998	protein_coding	KNOWN	CCDS47361	21108	372	123	3259128	3268283	1	C6orf86	PAC4
6	PSMG4	ENSG00000180822	ENST00000380305	protein_coding	PUTATIVE	None	21108	249	82	3259131	3268013	1	C6orf86	PAC4
6	PSMG4	ENSG00000180822	ENST00000419065	protein_coding	KNOWN	CCDS47360	21108	489	162	3259186	3268015	1	C6orf86	PAC4
6	PSMG4	ENSG00000180822	ENST00000473000	protein_coding	KNOWN	CCDS47362	21108	315	104	3259195	3268284	1	C6orf86	PAC4
6	PSMG4	ENSG00000180822	ENST00000324987	nonsense_mediated_decay	KNOWN	None	21108	327	108	3259211	3268154	1	C6orf86	PAC4
6	PSMG4	ENSG00000180822	ENST00000451246	protein_coding	PUTATIVE	None	21108	231	76	3259218	3303607	1	C6orf86	PAC4
6	PSMG4	ENSG00000180822	ENST00000454610	protein_coding	PUTATIVE	None	21108	353	116	3259294	3292218	1	C6orf86	PAC4
17	None	ENSG00000264939	ENST00000582046	processed_pseudogene	KNOWN	None	None	None	None	21906476	21907067	-1	None	None
9	None	ENSG00000239155	ENST00000458746	snoRNA	NOVEL	None	None	None	None	30178473	30178575	-1	None	None
X	None	ENSG00000234345	ENST00000417646	processed_pseudogene	KNOWN	None	None	None	None	103165225	103166272	-1	None	None
1	None	ENSG00000239166	ENST00000459253	snoRNA	NOVEL	None	None	None	None	6812779	6812881	1	None	None
9	None	ENSG00000232060	ENST00000419995	processed_pseudogene	KNOWN	None	None	None	None	30558878	30559479	-1	None	None
7	FAM3C	ENSG00000196937	ENST00000359943	protein_coding	KNOWN	CCDS5782	18664	684	227	120988905	121036388	-1	None	GS3876, ILEI
7	FAM3C	ENSG00000196937	ENST00000474082	retained_intron	KNOWN	None	18664	None	None	120990437	120991595	-1	None	GS3876, ILEI
7	FAM3C	ENSG00000196937	ENST00000412653	protein_coding	KNOWN	None	18664	454	150	121000110	121036418	-1	None	GS3876, ILEI
7	FAM3C	ENSG00000196937	ENST00000426156	protein_coding	PUTATIVE	None	18664	328	108	121000146	121036362	-1	None	GS3876, ILEI
7	FAM3C	ENSG00000196937	ENST00000497622	retained_intron	KNOWN	None	18664	None	None	121002759	121004606	-1	None	GS3876, ILEI
HG1133_PATCH	TAS2R50	ENSG00000271808	ENST00000570541	protein_coding	KNOWN	None	18882	900	299	11138512	11139511	-1	None	T2R51
20	None	ENSG00000254419	ENST00000530479	sense_intronic	KNOWN	None	None	None	None	57285851	57286689	1	None	None
2	None	ENSG00000226939	ENST00000429008	lincRNA	KNOWN	None	None	None	None	140123735	140136717	1	None	None
8	None	ENSG00000253262	ENST00000518519	processed_pseudogene	KNOWN	None	None	None	None	4930167	4930391	-1	None	None
9	None	ENSG00000239792	ENST00000438438	unprocessed_pseudogene	KNOWN	None	None	None	None	30670962	30671964	-1	None	None
17	None	ENSG00000266836	ENST00000578438	processed_pseudogene	KNOWN	None	None	None	None	21908843	21909413	-1	None	None
15	None	ENSG00000260892	ENST00000569467	antisense	KNOWN	None	None	None	None	75968568	75969503	1	None	None
19	PRODH2	ENSG00000250799	ENST00000587808	retained_intron	KNOWN	None	17325	None	None	36290890	36293372	-1	None	HSPOX1
19	PRODH2	ENSG00000250799	ENST00000588266	protein_coding	PUTATIVE	None	17325	359	118	36290892	36297632	-1	None	HSPOX1
19	PRODH2	ENSG00000250799	ENST00000587695	retained_intron	KNOWN	None	17325	None	None	36290892	36303772	-1	None	HSPOX1
19	PRODH2	ENSG00000250799	ENST00000301175	protein_coding	KNOWN	CCDS12478	17325	1611	536	36290892	36304201	-1	None	HSPOX1
19	PRODH2	ENSG00000250799	ENST00000589835	protein_coding	PUTATIVE	None	17325	222	73	36292695	36297348	-1	None	HSPOX1
19	PRODH2	ENSG00000250799	ENST00000591694	retained_intron	KNOWN	None	17325	None	None	36302897	36303784	-1	None	HSPOX1
11	CTSD	ENSG00000117984	ENST00000236671	protein_coding	KNOWN	CCDS7725	2529	1239	412	1773982	1785222	-1	CPSD	CLN10
11	CTSD	ENSG00000117984	ENST00000433655	nonsense_mediated_decay	KNOWN	None	2529	831	276	1774005	1785131	-1	CPSD	CLN10
11	CTSD	ENSG00000117984	ENST00000429746	protein_coding	PUTATIVE	None	2529	570	189	1774613	1776176	-1	CPSD	CLN10
11	CTSD	ENSG00000117984	ENST00000497544	retained_intron	KNOWN	None	2529	None	None	1775035	1776578	-1	CPSD	CLN10
11	CTSD	ENSG00000117984	ENST00000438213	protein_coding	PUTATIVE	None	2529	897	298	1775254	1782770	-1	CPSD	CLN10
11	CTSD	ENSG00000117984	ENST00000367196	protein_coding	PUTATIVE	None	2529	599	198	1778554	1783633	-1	CPSD	CLN10
X	ARHGEF9-IT1	ENSG00000231729	ENST00000420917	sense_intronic	KNOWN	None	41401	None	None	62890076	62891382	-1	None	None
7	PVRIG2P	ENSG00000235333	ENST00000435460	transcribed_unprocessed_pseudogene	KNOWN	None	48897	None	None	99949983	99951315	1	None	None
HG1133_PATCH	TAS2R20	ENSG00000271807	ENST00000572663	protein_coding	KNOWN	None	19109	930	309	11149094	11150474	-1	TAS2R49	T2R20, T2R56
8	None	ENSG00000254387	ENST00000518490	processed_pseudogene	KNOWN	None	None	None	None	94861789	94862303	1	None	None
17	None	ENSG00000266746	ENST00000582156	processed_pseudogene	KNOWN	None	None	None	None	21911222	21911558	-1	None	None
2	None	ENSG00000229131	ENST00000421326	lincRNA	KNOWN	None	None	None	None	140227345	140235317	1	None	None
9	RBMXP2	ENSG00000215210	ENST00000434705	processed_pseudogene	KNOWN	None	23284	None	None	30689103	30690270	1	None	None
X	BTF3P8	ENSG00000236813	ENST00000414577	processed_pseudogene	KNOWN	None	38572	None	None	62986755	62987280	1	None	None
17	None	ENSG00000261020	ENST00000562182	lincRNA	KNOWN	None	None	None	None	21919351	21924060	1	None	None
HG883_PATCH	IFT20	ENSG00000262866	ENST00000579943	retained_intron	KNOWN	None	30989	None	None	26655352	26656836	-1	None	None
HG883_PATCH	IFT20	ENSG00000262866	ENST00000580505	protein_coding	PUTATIVE	None	30989	345	114	26655352	26662465	-1	None	None
HG883_PATCH	IFT20	ENSG00000262866	ENST00000581681	protein_coding	NOVEL	None	30989	216	71	26655353	26659002	-1	None	None
HG883_PATCH	IFT20	ENSG00000262866	ENST00000573233	protein_coding	KNOWN	None	30989	447	148	26655353	26662495	-1	None	None
HG883_PATCH	IFT20	ENSG00000262866	ENST00000575742	protein_coding	NOVEL	None	30989	399	132	26655355	26662466	-1	None	None
HG883_PATCH	IFT20	ENSG00000262866	ENST00000577872	protein_coding	KNOWN	None	30989	477	158	26655355	26662475	-1	None	None
HG883_PATCH	IFT20	ENSG00000262866	ENST00000580696	protein_coding	NOVEL	None	30989	399	132	26655363	26662465	-1	None	None
HG883_PATCH	IFT20	ENSG00000262866	ENST00000581127	protein_coding	PUTATIVE	None	30989	426	141	26655913	26662461	-1	None	None
HG883_PATCH	IFT20	ENSG00000262866	ENST00000583880	protein_coding	PUTATIVE	None	30989	399	132	26656025	26662466	-1	None	None
HG883_PATCH	IFT20	ENSG00000262866	ENST00000577369	retained_intron	KNOWN	None	30989	None	None	26656711	26662496	-1	None	None
HG883_PATCH	IFT20	ENSG00000262866	ENST00000574791	retained_intron	KNOWN	None	30989	None	None	26657217	26662481	-1	None	None
HG883_PATCH	IFT20	ENSG00000262866	ENST00000583970	protein_coding	KNOWN	None	30989	257	84	26657503	26662470	-1	None	None
HG883_PATCH	IFT20	ENSG00000262866	ENST00000584615	retained_intron	KNOWN	None	30989	None	None	26658412	26662515	-1	None	None
HG883_PATCH	IFT20	ENSG00000262866	ENST00000581266	retained_intron	KNOWN	None	30989	None	None	26658428	26662504	-1	None	None
HG883_PATCH	IFT20	ENSG00000262866	ENST00000584256	retained_intron	KNOWN	None	30989	None	None	26658629	26662498	-1	None	None
HG1133_PATCH	TAS2R19	ENSG00000262393	ENST00000574336	protein_coding	KNOWN	None	19108	900	299	11174217	11175218	-1	TAS2R48, TAS2R23	T2R19, T2R23
1	None	ENSG00000237436	ENST00000442889	antisense	KNOWN	None	None	None	None	6843952	6844903	-1	None	None
2	None	ENSG00000206901	ENST00000384174	snoRNA	NOVEL	None	None	None	None	140268994	140269125	1	None	None
20	PANK2	ENSG00000125779	ENST00000497424	protein_coding	KNOWN	CCDS13072	15894	840	279	3869486	3907605	1	C20orf48, NBIA1	HSS, FLJ11729, PKAN, HARP
20	PANK2	ENSG00000125779	ENST00000495692	processed_transcript	KNOWN	None	15894	None	None	3869581	3899436	1	C20orf48, NBIA1	HSS, FLJ11729, PKAN, HARP
20	PANK2	ENSG00000125779	ENST00000316562	protein_coding	KNOWN	CCDS13071	15894	1713	570	3869742	3904502	1	C20orf48, NBIA1	HSS, FLJ11729, PKAN, HARP
20	PANK2	ENSG00000125779	ENST00000336066	processed_transcript	KNOWN	None	15894	None	None	3870036	3904502	1	C20orf48, NBIA1	HSS, FLJ11729, PKAN, HARP
20	PANK2	ENSG00000125779	ENST00000471830	processed_transcript	KNOWN	None	15894	None	None	3871887	3891463	1	C20orf48, NBIA1	HSS, FLJ11729, PKAN, HARP
20	PANK2	ENSG00000125779	ENST00000464452	processed_transcript	KNOWN	None	15894	None	None	3889337	3897697	1	C20orf48, NBIA1	HSS, FLJ11729, PKAN, HARP
17	None	ENSG00000264543	ENST00000577391	processed_pseudogene	KNOWN	None	None	None	None	21934505	21934721	-1	None	None
X	None	ENSG00000236487	ENST00000453977	processed_pseudogene	KNOWN	None	None	None	None	24700026	24700751	1	None	None
12	None	ENSG00000256276	ENST00000534849	lincRNA	KNOWN	None	None	None	None	126468248	126470780	1	None	None
7	None	ENSG00000241357	ENST00000492523	antisense	KNOWN	None	None	None	None	100032880	100034133	1	None	None
2	MRPS18BP2	ENSG00000235232	ENST00000434310	processed_pseudogene	KNOWN	None	29742	None	None	140426116	140426874	1	None	None
17	None	ENSG00000266885	ENST00000582527	lincRNA	KNOWN	None	None	None	None	21934719	21938362	1	None	None
HSCHR6_MHC_APD	RNF5	ENSG00000223767	ENST00000449794	protein_coding	KNOWN	None	10068	543	180	32157475	32159914	1	None	NG2, G16, RING5, RMA1
HSCHR6_MHC_APD	RNF5	ENSG00000223767	ENST00000464945	processed_transcript	KNOWN	None	10068	None	None	32157558	32158894	1	None	NG2, G16, RING5, RMA1
7	None	ENSG00000240211	ENST00000475250	antisense	KNOWN	None	None	None	None	100033827	100036127	1	None	None
HG1133_PATCH	TAS2R31	ENSG00000262379	ENST00000575161	protein_coding	KNOWN	None	19113	930	309	11183296	11184316	-1	TAS2R44	T2R31, T2R53
17	None	ENSG00000265705	ENST00000578792	transcribed_processed_pseudogene	KNOWN	None	None	None	None	21934958	21935393	1	None	None
12	None	ENSG00000258251	ENST00000547227	processed_pseudogene	KNOWN	None	None	None	None	96453802	96454153	-1	None	None
12	None	ENSG00000256342	ENST00000545642	lincRNA	KNOWN	None	None	None	None	126580538	126588481	1	None	None
22	MED15	ENSG00000099917	ENST00000445987	protein_coding	PUTATIVE	None	14248	360	119	20850200	20909422	1	TNRC7, PCQAP	TIG-1, CAG7A, Arc105
22	MED15	ENSG00000099917	ENST00000444094	nonsense_mediated_decay	KNOWN	None	14248	165	54	20861828	20918780	1	TNRC7, PCQAP	TIG-1, CAG7A, Arc105
22	MED15	ENSG00000099917	ENST00000486656	retained_intron	KNOWN	None	14248	None	None	20861869	20906035	1	TNRC7, PCQAP	TIG-1, CAG7A, Arc105
22	MED15	ENSG00000099917	ENST00000414658	protein_coding	PUTATIVE	None	14248	424	140	20861869	20918787	1	TNRC7, PCQAP	TIG-1, CAG7A, Arc105
22	MED15	ENSG00000099917	ENST00000433831	nonsense_mediated_decay	KNOWN	None	14248	168	55	20861872	20941906	1	TNRC7, PCQAP	TIG-1, CAG7A, Arc105
22	MED15	ENSG00000099917	ENST00000432052	protein_coding	PUTATIVE	None	14248	317	104	20861881	20918893	1	TNRC7, PCQAP	TIG-1, CAG7A, Arc105
22	MED15	ENSG00000099917	ENST00000292733	protein_coding	KNOWN	CCDS13781	14248	2247	748	20861889	20941919	1	TNRC7, PCQAP	TIG-1, CAG7A, Arc105
22	MED15	ENSG00000099917	ENST00000263205	protein_coding	KNOWN	CCDS33602	14248	2367	788	20861897	20941906	1	TNRC7, PCQAP	TIG-1, CAG7A, Arc105
22	MED15	ENSG00000099917	ENST00000477824	processed_transcript	KNOWN	None	14248	None	None	20861899	20918753	1	TNRC7, PCQAP	TIG-1, CAG7A, Arc105
22	MED15	ENSG00000099917	ENST00000406969	protein_coding	PUTATIVE	None	14248	2169	722	20861905	20941904	1	TNRC7, PCQAP	TIG-1, CAG7A, Arc105
22	MED15	ENSG00000099917	ENST00000382974	protein_coding	KNOWN	None	14248	2034	677	20861928	20941154	1	TNRC7, PCQAP	TIG-1, CAG7A, Arc105
22	MED15	ENSG00000099917	ENST00000441501	nonsense_mediated_decay	KNOWN	None	14248	186	61	20862335	20918796	1	TNRC7, PCQAP	TIG-1, CAG7A, Arc105
22	MED15	ENSG00000099917	ENST00000438962	protein_coding	PUTATIVE	None	14248	357	118	20862344	20891470	1	TNRC7, PCQAP	TIG-1, CAG7A, Arc105
22	MED15	ENSG00000099917	ENST00000445189	protein_coding	PUTATIVE	None	14248	373	123	20877930	20909435	1	TNRC7, PCQAP	TIG-1, CAG7A, Arc105
22	MED15	ENSG00000099917	ENST00000451058	protein_coding	PUTATIVE	None	14248	316	104	20878562	20909378	1	TNRC7, PCQAP	TIG-1, CAG7A, Arc105
22	MED15	ENSG00000099917	ENST00000473028	processed_transcript	KNOWN	None	14248	None	None	20878574	20918911	1	TNRC7, PCQAP	TIG-1, CAG7A, Arc105
22	MED15	ENSG00000099917	ENST00000457322	protein_coding	PUTATIVE	None	14248	482	159	20905274	20918884	1	TNRC7, PCQAP	TIG-1, CAG7A, Arc105
22	MED15	ENSG00000099917	ENST00000428629	protein_coding	PUTATIVE	None	14248	246	81	20905294	20918885	1	TNRC7, PCQAP	TIG-1, CAG7A, Arc105
22	MED15	ENSG00000099917	ENST00000424287	protein_coding	PUTATIVE	None	14248	497	164	20905528	20918923	1	TNRC7, PCQAP	TIG-1, CAG7A, Arc105
22	MED15	ENSG00000099917	ENST00000423862	protein_coding	NOVEL	None	14248	581	192	20905577	20920823	1	TNRC7, PCQAP	TIG-1, CAG7A, Arc105
22	MED15	ENSG00000099917	ENST00000420849	nonsense_mediated_decay	KNOWN	None	14248	111	36	20905600	20909364	1	TNRC7, PCQAP	TIG-1, CAG7A, Arc105
22	MED15	ENSG00000099917	ENST00000487550	processed_transcript	KNOWN	None	14248	None	None	20905694	20920777	1	TNRC7, PCQAP	TIG-1, CAG7A, Arc105
22	MED15	ENSG00000099917	ENST00000476767	retained_intron	KNOWN	None	14248	None	None	20907384	20920813	1	TNRC7, PCQAP	TIG-1, CAG7A, Arc105
22	MED15	ENSG00000099917	ENST00000492381	retained_intron	KNOWN	None	14248	None	None	20908526	20941904	1	TNRC7, PCQAP	TIG-1, CAG7A, Arc105
22	MED15	ENSG00000099917	ENST00000478831	processed_transcript	KNOWN	None	14248	None	None	20920752	20937514	1	TNRC7, PCQAP	TIG-1, CAG7A, Arc105
22	MED15	ENSG00000099917	ENST00000489651	retained_intron	KNOWN	None	14248	None	None	20927965	20941904	1	TNRC7, PCQAP	TIG-1, CAG7A, Arc105
22	MED15	ENSG00000099917	ENST00000473244	retained_intron	KNOWN	None	14248	None	None	20936188	20941919	1	TNRC7, PCQAP	TIG-1, CAG7A, Arc105
22	MED15	ENSG00000099917	ENST00000493216	retained_intron	KNOWN	None	14248	None	None	20936381	20941904	1	TNRC7, PCQAP	TIG-1, CAG7A, Arc105
22	MED15	ENSG00000099917	ENST00000476187	retained_intron	KNOWN	None	14248	None	None	20937217	20938036	1	TNRC7, PCQAP	TIG-1, CAG7A, Arc105
22	MED15	ENSG00000099917	ENST00000461076	retained_intron	KNOWN	None	14248	None	None	20937625	20940090	1	TNRC7, PCQAP	TIG-1, CAG7A, Arc105
22	MED15	ENSG00000099917	ENST00000436496	retained_intron	KNOWN	None	14248	None	None	20939233	20939710	1	TNRC7, PCQAP	TIG-1, CAG7A, Arc105
22	MED15	ENSG00000099917	ENST00000541476	protein_coding	KNOWN	None	14248	2169	722	20862339	20941122	1	TNRC7, PCQAP	TIG-1, CAG7A, Arc105
22	MED15	ENSG00000099917	ENST00000425759	protein_coding	KNOWN	None	14248	1914	637	20861886	20941918	1	TNRC7, PCQAP	TIG-1, CAG7A, Arc105
22	MED15	ENSG00000099917	ENST00000542773	protein_coding	KNOWN	None	14248	570	189	20861891	20941293	1	TNRC7, PCQAP	TIG-1, CAG7A, Arc105
14	OR4E2	ENSG00000221977	ENST00000408935	protein_coding	KNOWN	CCDS41916	8297	942	313	22133297	22134238	1	None	None
7	RN7SL161P	ENSG00000264758	ENST00000582642	misc_RNA	KNOWN	None	46177	None	None	100060452	100060725	1	None	None
2	None	ENSG00000228374	ENST00000429392	processed_pseudogene	KNOWN	None	None	None	None	140490277	140490851	-1	None	None
17	None	ENSG00000266529	ENST00000578634	processed_pseudogene	KNOWN	None	None	None	None	22018943	22020035	1	None	None
7	None	ENSG00000266372	ENST00000583832	miRNA	NOVEL	None	None	None	None	100081381	100081466	-1	None	None
HG1133_PATCH	TAS2R46	ENSG00000262889	ENST00000573885	protein_coding	KNOWN	None	18877	750	249	11216134	11217063	-1	None	T2R54
X	None	ENSG00000264224	ENST00000577230	miRNA	NOVEL	None	None	None	None	24716239	24716308	1	None	None
7	None	ENSG00000225807	ENST00000392471	lincRNA	KNOWN	None	None	None	None	100107340	100117549	1	None	None
X	SCARNA23	ENSG00000251869	ENST00000516060	snoRNA	KNOWN	None	32581	None	None	24762558	24762687	1	None	ACA12
12	None	ENSG00000256763	ENST00000542804	lincRNA	KNOWN	None	None	None	None	126652781	126656212	1	None	None
X	EEF1B2P3	ENSG00000232472	ENST00000447718	processed_pseudogene	KNOWN	None	3210	None	None	24806509	24807186	-1	EEF1B4	None
7	RN7SL416P	ENSG00000242101	ENST00000494042	misc_RNA	KNOWN	None	46432	None	None	100127987	100128282	-1	None	None
7	None	ENSG00000184414	ENST00000223076	processed_pseudogene	KNOWN	None	None	None	None	100167754	100168759	1	None	None
5	CDH6	ENSG00000113361	ENST00000514738	protein_coding	PUTATIVE	None	1765	1827	608	31193857	31318453	1	None	None
5	CDH6	ENSG00000113361	ENST00000265071	protein_coding	KNOWN	CCDS3894	1765	2373	790	31193857	31329253	1	None	None
5	CDH6	ENSG00000113361	ENST00000506396	retained_intron	KNOWN	None	1765	None	None	31193876	31251961	1	None	None
5	CDH6	ENSG00000113361	ENST00000508132	retained_intron	KNOWN	None	1765	None	None	31294306	31302549	1	None	None
5	CDH6	ENSG00000113361	ENST00000504835	retained_intron	KNOWN	None	1765	None	None	31316357	31319149	1	None	None
17	None	ENSG00000243655	ENST00000483901	antisense	KNOWN	None	None	None	None	22023889	22024656	-1	None	None
17	RHOT1	ENSG00000126858	ENST00000333942	protein_coding	KNOWN	CCDS32612	21168	1857	618	30469473	30552789	1	ARHT1	MIRO-1, FLJ11040
17	RHOT1	ENSG00000126858	ENST00000358365	protein_coding	KNOWN	CCDS32610	21168	2076	691	30469485	30552746	1	ARHT1	MIRO-1, FLJ11040
17	RHOT1	ENSG00000126858	ENST00000583994	protein_coding	PUTATIVE	None	21168	1572	523	30469494	30552746	1	ARHT1	MIRO-1, FLJ11040
17	RHOT1	ENSG00000126858	ENST00000545287	protein_coding	KNOWN	CCDS32611	21168	1980	659	30469556	30552132	1	ARHT1	MIRO-1, FLJ11040
17	RHOT1	ENSG00000126858	ENST00000354266	protein_coding	PUTATIVE	None	21168	1794	597	30469579	30552685	1	ARHT1	MIRO-1, FLJ11040
17	RHOT1	ENSG00000126858	ENST00000581031	nonsense_mediated_decay	KNOWN	None	21168	1878	625	30469587	30552522	1	ARHT1	MIRO-1, FLJ11040
17	RHOT1	ENSG00000126858	ENST00000581094	protein_coding	KNOWN	None	21168	1743	580	30469649	30536757	1	ARHT1	MIRO-1, FLJ11040
17	RHOT1	ENSG00000126858	ENST00000578205	nonsense_mediated_decay	KNOWN	None	21168	156	51	30469692	30552522	1	ARHT1	MIRO-1, FLJ11040
17	RHOT1	ENSG00000126858	ENST00000580976	processed_transcript	KNOWN	None	21168	None	None	30469696	30526523	1	ARHT1	MIRO-1, FLJ11040
17	RHOT1	ENSG00000126858	ENST00000394692	protein_coding	KNOWN	None	21168	1953	650	30469699	30552746	1	ARHT1	MIRO-1, FLJ11040
17	RHOT1	ENSG00000126858	ENST00000582602	protein_coding	PUTATIVE	None	21168	570	189	30529843	30538214	1	ARHT1	MIRO-1, FLJ11040
17	RHOT1	ENSG00000126858	ENST00000581567	retained_intron	KNOWN	None	21168	None	None	30530879	30534560	1	ARHT1	MIRO-1, FLJ11040
17	RHOT1	ENSG00000126858	ENST00000580392	protein_coding	PUTATIVE	None	21168	403	133	30530956	30580393	1	ARHT1	MIRO-1, FLJ11040
17	RHOT1	ENSG00000126858	ENST00000581148	protein_coding	PUTATIVE	None	21168	471	156	30533944	30538454	1	ARHT1	MIRO-1, FLJ11040
17	RHOT1	ENSG00000126858	ENST00000584692	nonsense_mediated_decay	KNOWN	None	21168	123	40	30533969	30551979	1	ARHT1	MIRO-1, FLJ11040
17	RHOT1	ENSG00000126858	ENST00000584852	protein_coding	PUTATIVE	None	21168	174	57	30535321	30580393	1	ARHT1	MIRO-1, FLJ11040
17	RHOT1	ENSG00000126858	ENST00000582586	processed_transcript	PUTATIVE	None	21168	None	None	30536407	30569181	1	ARHT1	MIRO-1, FLJ11040
2	None	ENSG00000223554	ENST00000415918	lincRNA	KNOWN	None	None	None	None	140582465	140583446	-1	None	None
HG75_PATCH	PIGW	ENSG00000261300	ENST00000566262	protein_coding	KNOWN	None	23213	316	104	34862388	34864785	1	None	Gwt1, FLJ37433
HG75_PATCH	PIGW	ENSG00000261300	ENST00000568629	protein_coding	KNOWN	None	23213	158	51	34862410	34864627	1	None	Gwt1, FLJ37433
HG75_PATCH	PIGW	ENSG00000261300	ENST00000561548	protein_coding	KNOWN	None	23213	1515	504	34862923	34866669	1	None	Gwt1, FLJ37433
HSCHR6_MHC_COX	None	ENSG00000257427	ENST00000550817	protein_coding	NOVEL	None	None	51	16	32542405	32557089	1	None	None
4	NDST3	ENSG00000164100	ENST00000394488	retained_intron	KNOWN	None	7682	None	None	118954773	118976800	1	None	HSST3
4	NDST3	ENSG00000164100	ENST00000296499	protein_coding	KNOWN	CCDS3708	7682	2622	873	118955500	119179803	1	None	HSST3
4	NDST3	ENSG00000164100	ENST00000433996	protein_coding	KNOWN	None	7682	1686	561	118955649	119158291	1	None	HSST3
1	None	ENSG00000227950	ENST00000433407	processed_pseudogene	KNOWN	None	None	None	None	6894393	6894678	-1	None	None
X	None	ENSG00000214111	ENST00000438281	processed_pseudogene	KNOWN	None	None	None	None	25047662	25048352	1	None	None
2	None	ENSG00000221074	ENST00000408147	miRNA	NOVEL	None	None	None	None	140584261	140584350	1	None	None
3	None	ENSG00000231464	ENST00000411669	processed_pseudogene	KNOWN	None	None	None	None	195723609	195725104	1	None	None
17	CYB561	ENSG00000008283	ENST00000392975	protein_coding	KNOWN	CCDS11636	2571	756	251	61509665	61518227	-1	None	FRRS2, CYB561A1
17	CYB561	ENSG00000008283	ENST00000360793	protein_coding	KNOWN	CCDS11636	2571	756	251	61509665	61523739	-1	None	FRRS2, CYB561A1
17	CYB561	ENSG00000008283	ENST00000584031	protein_coding	PUTATIVE	None	2571	585	194	61509666	61523545	-1	None	FRRS2, CYB561A1
17	CYB561	ENSG00000008283	ENST00000582297	protein_coding	PUTATIVE	None	2571	633	210	61510506	61523655	-1	None	FRRS2, CYB561A1
17	CYB561	ENSG00000008283	ENST00000581573	protein_coding	KNOWN	CCDS11636	2571	756	251	61510577	61515310	-1	None	FRRS2, CYB561A1
17	CYB561	ENSG00000008283	ENST00000448884	protein_coding	PUTATIVE	None	2571	417	138	61510925	61523652	-1	None	FRRS2, CYB561A1
17	CYB561	ENSG00000008283	ENST00000585153	protein_coding	PUTATIVE	None	2571	220	72	61511270	61512545	-1	None	FRRS2, CYB561A1
17	CYB561	ENSG00000008283	ENST00000582034	protein_coding	PUTATIVE	None	2571	669	222	61511325	61523667	-1	None	FRRS2, CYB561A1
17	CYB561	ENSG00000008283	ENST00000542042	protein_coding	PUTATIVE	None	2571	957	318	61511501	61515672	-1	None	FRRS2, CYB561A1
17	CYB561	ENSG00000008283	ENST00000580691	protein_coding	PUTATIVE	None	2571	917	304	61511553	61515531	-1	None	FRRS2, CYB561A1
17	CYB561	ENSG00000008283	ENST00000581163	processed_transcript	KNOWN	None	2571	None	None	61511622	61514067	-1	None	FRRS2, CYB561A1
17	CYB561	ENSG00000008283	ENST00000582997	protein_coding	PUTATIVE	None	2571	777	258	61511675	61517572	-1	None	FRRS2, CYB561A1
17	CYB561	ENSG00000008283	ENST00000582143	retained_intron	KNOWN	None	2571	None	None	61511692	61512760	-1	None	FRRS2, CYB561A1
17	CYB561	ENSG00000008283	ENST00000584291	protein_coding	KNOWN	None	2571	755	250	61511764	61520213	-1	None	FRRS2, CYB561A1
17	CYB561	ENSG00000008283	ENST00000577989	processed_transcript	KNOWN	None	2571	None	None	61511839	61523669	-1	None	FRRS2, CYB561A1
17	CYB561	ENSG00000008283	ENST00000577368	retained_intron	KNOWN	None	2571	None	None	61512776	61523667	-1	None	FRRS2, CYB561A1
17	CYB561	ENSG00000008283	ENST00000578016	processed_transcript	KNOWN	None	2571	None	None	61512919	61523701	-1	None	FRRS2, CYB561A1
17	CYB561	ENSG00000008283	ENST00000578072	protein_coding	PUTATIVE	None	2571	428	141	61513073	61523715	-1	None	FRRS2, CYB561A1
17	CYB561	ENSG00000008283	ENST00000583478	retained_intron	KNOWN	None	2571	None	None	61514448	61523692	-1	None	FRRS2, CYB561A1
17	CYB561	ENSG00000008283	ENST00000580592	protein_coding	PUTATIVE	None	2571	284	93	61514733	61518200	-1	None	FRRS2, CYB561A1
17	CYB561	ENSG00000008283	ENST00000392976	protein_coding	KNOWN	CCDS11636	2571	756	251	61509668	61523545	-1	None	FRRS2, CYB561A1
17	MTND1P15	ENSG00000264168	ENST00000579262	transcribed_processed_pseudogene	KNOWN	None	42064	None	None	22024064	22025012	1	None	None
17	MTND1P15	ENSG00000264168	ENST00000579693	processed_transcript	KNOWN	None	42064	None	None	22024075	22025022	1	None	None
21	DSCR3	ENSG00000157538	ENST00000497493	retained_intron	KNOWN	None	3044	None	None	38595721	38601784	-1	None	DCRA
21	DSCR3	ENSG00000157538	ENST00000309117	protein_coding	KNOWN	CCDS33553	3044	894	297	38595721	38639833	-1	None	DCRA
21	DSCR3	ENSG00000157538	ENST00000399000	processed_transcript	KNOWN	None	3044	None	None	38595721	38640220	-1	None	DCRA
21	DSCR3	ENSG00000157538	ENST00000399001	protein_coding	PUTATIVE	None	3044	519	172	38597600	38639652	-1	None	DCRA
21	DSCR3	ENSG00000157538	ENST00000476950	protein_coding	NOVEL	None	3044	813	270	38597773	38639647	-1	None	DCRA
21	DSCR3	ENSG00000157538	ENST00000488368	processed_transcript	KNOWN	None	3044	None	None	38597817	38639630	-1	None	DCRA
21	DSCR3	ENSG00000157538	ENST00000398998	protein_coding	NOVEL	None	3044	750	249	38597845	38639833	-1	None	DCRA
21	DSCR3	ENSG00000157538	ENST00000495858	processed_transcript	KNOWN	None	3044	None	None	38602819	38605743	-1	None	DCRA
21	DSCR3	ENSG00000157538	ENST00000480452	processed_transcript	PUTATIVE	None	3044	None	None	38605593	38639619	-1	None	DCRA
21	DSCR3	ENSG00000157538	ENST00000475009	retained_intron	KNOWN	None	3044	None	None	38610506	38639704	-1	None	DCRA
21	DSCR3	ENSG00000157538	ENST00000492514	processed_transcript	PUTATIVE	None	3044	None	None	38610657	38639602	-1	None	DCRA
21	DSCR3	ENSG00000157538	ENST00000462467	processed_transcript	KNOWN	None	3044	None	None	38633383	38639454	-1	None	DCRA
21	DSCR3	ENSG00000157538	ENST00000498789	processed_transcript	KNOWN	None	3044	None	None	38633383	38639641	-1	None	DCRA
21	DSCR3	ENSG00000157538	ENST00000539844	protein_coding	KNOWN	None	3044	663	220	38597556	38639623	-1	None	DCRA
21	DSCR3	ENSG00000157538	ENST00000288304	protein_coding	KNOWN	None	3044	762	253	38595728	38640262	-1	None	DCRA
2	RN7SL283P	ENSG00000240977	ENST00000489055	misc_RNA	KNOWN	None	46299	None	None	140740253	140740553	1	None	None
7	PCOLCE-AS1	ENSG00000224729	ENST00000442166	antisense	KNOWN	None	40430	None	None	100187025	100201661	-1	None	None
7	PCOLCE-AS1	ENSG00000224729	ENST00000446022	antisense	KNOWN	None	40430	None	None	100200537	100201829	-1	None	None
7	PCOLCE-AS1	ENSG00000224729	ENST00000544873	antisense	KNOWN	None	40430	None	None	100190490	100200658	-1	None	None
2	RNU6-651P	ENSG00000222972	ENST00000411040	snRNA	KNOWN	None	47614	None	None	202511439	202511543	1	None	None
2	None	ENSG00000224028	ENST00000417715	lincRNA	KNOWN	None	None	None	None	140861152	140889349	-1	None	None
X	RN7SL91P	ENSG00000240439	ENST00000469313	misc_RNA	KNOWN	None	46107	None	None	25078768	25079056	-1	None	None
20	PIEZO1P2	ENSG00000237121	ENST00000416241	unprocessed_pseudogene	KNOWN	None	42861	None	None	57315588	57358877	-1	None	None
12	BIN2	ENSG00000110934	ENST00000604560	protein_coding	NOVEL	None	1053	1596	531	51674822	51717899	-1	None	BRAP-1
12	BIN2	ENSG00000110934	ENST00000605039	retained_intron	KNOWN	None	1053	None	None	51674822	51717938	-1	None	BRAP-1
12	BIN2	ENSG00000110934	ENST00000452142	protein_coding	KNOWN	None	1053	1602	533	51674822	51717938	-1	None	BRAP-1
12	BIN2	ENSG00000110934	ENST00000267012	protein_coding	KNOWN	CCDS8811	1053	1698	565	51674822	51717948	-1	None	BRAP-1
12	BIN2	ENSG00000110934	ENST00000544402	protein_coding	PUTATIVE	None	1053	1620	539	51675066	51718452	-1	None	BRAP-1
12	BIN2	ENSG00000110934	ENST00000603177	retained_intron	KNOWN	None	1053	None	None	51685946	51691152	-1	None	BRAP-1
12	BIN2	ENSG00000110934	ENST00000605819	retained_intron	KNOWN	None	1053	None	None	51685986	51691157	-1	None	BRAP-1
12	BIN2	ENSG00000110934	ENST00000605423	nonsense_mediated_decay	KNOWN	None	1053	180	59	51696501	51717926	-1	None	BRAP-1
12	BIN2	ENSG00000110934	ENST00000603260	processed_transcript	KNOWN	None	1053	None	None	51716369	51717869	-1	None	BRAP-1
12	BIN2	ENSG00000110934	ENST00000604702	processed_transcript	KNOWN	None	1053	None	None	51716532	51717877	-1	None	BRAP-1
2	None	ENSG00000230799	ENST00000448547	processed_pseudogene	KNOWN	None	None	None	None	202627460	202628296	1	None	None
18	None	ENSG00000267209	ENST00000588449	lincRNA	KNOWN	None	None	None	None	55628463	55630751	-1	None	None
18	None	ENSG00000267209	ENST00000591503	lincRNA	KNOWN	None	None	None	None	55628463	55630751	-1	None	None
18	None	ENSG00000267209	ENST00000585702	lincRNA	KNOWN	None	None	None	None	55628463	55631666	-1	None	None
X	None	ENSG00000176812	ENST00000433306	processed_pseudogene	KNOWN	None	None	None	None	25212498	25213324	-1	None	None
19	TYK2	ENSG00000105397	ENST00000525976	protein_coding	NOVEL	None	12440	194	63	10461209	10463168	-1	None	JTK1
19	TYK2	ENSG00000105397	ENST00000530220	retained_intron	KNOWN	None	12440	None	None	10461209	10463932	-1	None	JTK1
19	TYK2	ENSG00000105397	ENST00000524462	protein_coding	PUTATIVE	None	12440	3009	1002	10461209	10491241	-1	None	JTK1
19	TYK2	ENSG00000105397	ENST00000525621	protein_coding	KNOWN	CCDS12236	12440	3564	1187	10461209	10491352	-1	None	JTK1
19	TYK2	ENSG00000105397	ENST00000530560	protein_coding	PUTATIVE	None	12440	429	142	10461424	10467289	-1	None	JTK1
19	TYK2	ENSG00000105397	ENST00000529422	processed_transcript	KNOWN	None	12440	None	None	10461464	10463813	-1	None	JTK1
19	TYK2	ENSG00000105397	ENST00000524470	retained_intron	KNOWN	None	12440	None	None	10461529	10461961	-1	None	JTK1
19	TYK2	ENSG00000105397	ENST00000527481	nonsense_mediated_decay	KNOWN	None	12440	407	134	10461623	10465198	-1	None	JTK1
19	TYK2	ENSG00000105397	ENST00000592137	processed_transcript	KNOWN	None	12440	None	None	10462097	10464779	-1	None	JTK1
19	TYK2	ENSG00000105397	ENST00000529739	protein_coding	PUTATIVE	None	12440	387	128	10463110	10464754	-1	None	JTK1
19	TYK2	ENSG00000105397	ENST00000529412	retained_intron	KNOWN	None	12440	None	None	10464587	10468577	-1	None	JTK1
19	TYK2	ENSG00000105397	ENST00000534228	retained_intron	KNOWN	None	12440	None	None	10465214	10467760	-1	None	JTK1
19	TYK2	ENSG00000105397	ENST00000529370	protein_coding	PUTATIVE	None	12440	2766	921	10468061	10491201	-1	None	JTK1
19	TYK2	ENSG00000105397	ENST00000533334	nonsense_mediated_decay	KNOWN	None	12440	247	81	10468470	10472581	-1	None	JTK1
19	TYK2	ENSG00000105397	ENST00000531620	retained_intron	KNOWN	None	12440	None	None	10471981	10472859	-1	None	JTK1
19	TYK2	ENSG00000105397	ENST00000525220	protein_coding	NOVEL	None	12440	583	193	10473256	10476539	-1	None	JTK1
19	TYK2	ENSG00000105397	ENST00000529317	retained_intron	KNOWN	None	12440	None	None	10478739	10479215	-1	None	JTK1
19	TYK2	ENSG00000105397	ENST00000525824	protein_coding	PUTATIVE	None	12440	311	102	10478798	10479417	-1	None	JTK1
19	TYK2	ENSG00000105397	ENST00000531836	protein_coding	KNOWN	None	12440	356	117	10478840	10491248	-1	None	JTK1
19	TYK2	ENSG00000105397	ENST00000530829	protein_coding	NOVEL	None	12440	404	133	10479005	10491186	-1	None	JTK1
19	TYK2	ENSG00000105397	ENST00000264818	protein_coding	KNOWN	CCDS12236	12440	3564	1187	10461209	10489082	-1	None	JTK1
3	RNU4-38P	ENSG00000201342	ENST00000364472	snRNA	KNOWN	None	46974	None	None	169775089	169775217	1	None	None
2	None	ENSG00000227149	ENST00000441935	processed_pseudogene	KNOWN	None	None	None	None	140974566	140974808	-1	None	None
22	None	ENSG00000252575	ENST00000516766	miRNA	NOVEL	None	None	None	None	36834869	36834971	-1	None	None
X	None	ENSG00000212075	ENST00000390786	miRNA	NOVEL	None	None	None	None	25224487	25224577	-1	None	None
3	MAP3K13	ENSG00000073803	ENST00000448876	protein_coding	PUTATIVE	None	6852	123	40	185000729	185010867	1	None	LZK, MEKK13
3	MAP3K13	ENSG00000073803	ENST00000446828	protein_coding	PUTATIVE	CCDS56298	6852	2280	759	185000741	185200537	1	None	LZK, MEKK13
3	MAP3K13	ENSG00000073803	ENST00000455188	nonsense_mediated_decay	KNOWN	None	6852	123	40	185000749	185047051	1	None	LZK, MEKK13
3	MAP3K13	ENSG00000073803	ENST00000447637	protein_coding	KNOWN	None	6852	339	112	185000749	185146708	1	None	LZK, MEKK13
3	MAP3K13	ENSG00000073803	ENST00000424227	protein_coding	KNOWN	CCDS3270	6852	2901	966	185000765	185200244	1	None	LZK, MEKK13
3	MAP3K13	ENSG00000073803	ENST00000454237	protein_coding	PUTATIVE	None	6852	123	40	185000814	185009705	1	None	LZK, MEKK13
3	MAP3K13	ENSG00000073803	ENST00000438798	protein_coding	PUTATIVE	None	6852	123	40	185003181	185009537	1	None	LZK, MEKK13
3	MAP3K13	ENSG00000073803	ENST00000428617	protein_coding	KNOWN	None	6852	413	136	185046676	185146782	1	None	LZK, MEKK13
3	MAP3K13	ENSG00000073803	ENST00000433092	nonsense_mediated_decay	KNOWN	None	6852	387	128	185046683	185169322	1	None	LZK, MEKK13
3	MAP3K13	ENSG00000073803	ENST00000443863	protein_coding	PUTATIVE	None	6852	2469	822	185046683	185200599	1	None	LZK, MEKK13
3	MAP3K13	ENSG00000073803	ENST00000265026	protein_coding	KNOWN	CCDS3270	6852	2901	966	185080908	185206885	1	None	LZK, MEKK13
3	MAP3K13	ENSG00000073803	ENST00000438053	nonsense_mediated_decay	KNOWN	None	6852	483	160	185081030	185200389	1	None	LZK, MEKK13
3	MAP3K13	ENSG00000073803	ENST00000439882	nonsense_mediated_decay	KNOWN	None	6852	585	194	185146285	185165735	1	None	LZK, MEKK13
3	MAP3K13	ENSG00000073803	ENST00000477582	retained_intron	KNOWN	None	6852	None	None	185155235	185161495	1	None	LZK, MEKK13
3	MAP3K13	ENSG00000073803	ENST00000420577	protein_coding	NOVEL	None	6852	740	245	185155333	185183651	1	None	LZK, MEKK13
3	MAP3K13	ENSG00000073803	ENST00000535426	protein_coding	KNOWN	None	6852	2469	822	185046995	185200599	1	None	LZK, MEKK13
HG1133_PATCH	TAS2R30	ENSG00000262908	ENST00000571012	protein_coding	KNOWN	None	19112	960	319	11281895	11283582	-1	TAS2R47	T2R30
17	None	ENSG00000263914	ENST00000577438	processed_pseudogene	KNOWN	None	None	None	None	22025225	22026263	1	None	None
2	MTND2P19	ENSG00000231567	ENST00000449129	unprocessed_pseudogene	KNOWN	None	42120	None	None	140975220	140977937	-1	None	None
22	None	ENSG00000252225	ENST00000516416	misc_RNA	NOVEL	None	None	None	None	36836925	36837015	-1	None	None
X	RPP40P1	ENSG00000229310	ENST00000426762	processed_pseudogene	KNOWN	None	39769	None	None	25609470	25609925	-1	None	None
19	LINGO3	ENSG00000220008	ENST00000585527	protein_coding	KNOWN	CCDS45905	21206	1779	592	2289783	2292023	-1	LRRN6B	LERN2
19	LINGO3	ENSG00000220008	ENST00000404279	protein_coding	KNOWN	CCDS45905	21206	1779	592	2289774	2308156	-1	LRRN6B	LERN2
3	None	ENSG00000242583	ENST00000461049	processed_pseudogene	KNOWN	None	None	None	None	169780032	169780739	1	None	None
10	None	ENSG00000272447	ENST00000605920	lincRNA	KNOWN	None	None	None	None	81585658	81587358	1	None	None
2	None	ENSG00000202137	ENST00000365267	misc_RNA	NOVEL	None	None	None	None	202673404	202673505	1	None	None
11	CASP5	ENSG00000137757	ENST00000438448	nonsense_mediated_decay	KNOWN	None	1506	353	116	104864962	104869755	-1	None	ICE(rel)III
11	CASP5	ENSG00000137757	ENST00000260315	protein_coding	KNOWN	CCDS8328	1506	1305	434	104864970	104893863	-1	None	ICE(rel)III
11	CASP5	ENSG00000137757	ENST00000444749	protein_coding	KNOWN	CCDS44719	1506	1131	376	104865004	104893894	-1	None	ICE(rel)III
11	CASP5	ENSG00000137757	ENST00000526056	protein_coding	KNOWN	CCDS44720	1506	1344	447	104866471	104893863	-1	None	ICE(rel)III
11	CASP5	ENSG00000137757	ENST00000531367	protein_coding	KNOWN	CCDS44718	1506	879	292	104866471	104893863	-1	None	ICE(rel)III
11	CASP5	ENSG00000137757	ENST00000456200	nonsense_mediated_decay	KNOWN	None	1506	327	108	104866513	104893863	-1	None	ICE(rel)III
11	CASP5	ENSG00000137757	ENST00000456094	protein_coding	PUTATIVE	None	1506	495	164	104874001	104893870	-1	None	ICE(rel)III
11	CASP5	ENSG00000137757	ENST00000393141	protein_coding	KNOWN	CCDS44720	1506	1344	447	104864967	104893895	-1	None	ICE(rel)III
11	CASP5	ENSG00000137757	ENST00000418434	protein_coding	KNOWN	CCDS44718	1506	879	292	104864967	104893895	-1	None	ICE(rel)III
11	CASP5	ENSG00000137757	ENST00000393139	protein_coding	KNOWN	None	1506	402	133	104864967	104893895	-1	None	ICE(rel)III
18	None	ENSG00000265200	ENST00000577323	miRNA	NOVEL	None	None	None	None	55684016	55684116	-1	None	None
22	None	ENSG00000228719	ENST00000442579	lincRNA	KNOWN	None	None	None	None	36841445	36850991	-1	None	None
HSCHR6_MHC_COX	HLA-DQB1	ENSG00000206237	ENST00000383121	protein_coding	KNOWN	None	4944	786	261	32550273	32557884	-1	HLA-DQB	IDDM1, CELIAC1
HSCHR6_MHC_COX	HLA-DQB1	ENSG00000206237	ENST00000548953	protein_coding	KNOWN	None	4944	717	238	32550443	32557860	-1	HLA-DQB	IDDM1, CELIAC1
1	None	ENSG00000237365	ENST00000456701	antisense	KNOWN	None	None	None	None	7068436	7074339	-1	None	None
HG1133_PATCH	None	ENSG00000271929	ENST00000576062	processed_pseudogene	KNOWN	None	None	None	None	10983673	10984615	-1	None	None
HSCHR6_MHC_COX	APOM	ENSG00000224290	ENST00000452949	protein_coding	KNOWN	None	13916	390	129	31607608	31613273	1	None	ApoM, G3a, NG20
HSCHR6_MHC_COX	APOM	ENSG00000224290	ENST00000416324	protein_coding	KNOWN	None	13916	351	116	31607609	31613401	1	None	ApoM, G3a, NG20
HSCHR6_MHC_COX	APOM	ENSG00000224290	ENST00000430282	protein_coding	KNOWN	None	13916	567	188	31611085	31613401	1	None	ApoM, G3a, NG20
2	UBE2V1P11	ENSG00000231124	ENST00000411559	processed_pseudogene	KNOWN	None	44896	None	None	202689271	202689555	1	None	None
18	HMGN1P30	ENSG00000235028	ENST00000589286	processed_pseudogene	KNOWN	None	39374	None	None	55686026	55686293	-1	None	None
18	HMGN1P30	ENSG00000235028	ENST00000446244	processed_pseudogene	KNOWN	None	39374	None	None	55686021	55686293	-1	None	None
10	NPAP1P2	ENSG00000214695	ENST00000456716	processed_pseudogene	KNOWN	None	45019	None	None	81620329	81621562	1	None	None
22	None	ENSG00000188078	ENST00000339367	unprocessed_pseudogene	KNOWN	None	None	None	None	36932703	36933651	-1	None	None
17	None	ENSG00000240103	ENST00000463573	processed_pseudogene	KNOWN	None	None	None	None	22026650	22028896	1	None	None
4	GNPDA2	ENSG00000163281	ENST00000507917	protein_coding	NOVEL	CCDS59473	21526	729	242	44703885	44728587	-1	None	SB52
4	GNPDA2	ENSG00000163281	ENST00000295448	protein_coding	KNOWN	CCDS3469	21526	831	276	44704156	44728612	-1	None	SB52
4	GNPDA2	ENSG00000163281	ENST00000507534	protein_coding	PUTATIVE	CCDS59472	21526	621	206	44704805	44728540	-1	None	SB52
4	GNPDA2	ENSG00000163281	ENST00000509756	protein_coding	KNOWN	None	21526	780	259	44705263	44728562	-1	None	SB52
4	GNPDA2	ENSG00000163281	ENST00000511187	processed_transcript	PUTATIVE	None	21526	None	None	44708429	44728605	-1	None	SB52
2	MTND1P27	ENSG00000223921	ENST00000451117	processed_pseudogene	KNOWN	None	42076	None	None	140978153	140979054	-1	None	None
10	ANKRD54P1	ENSG00000236442	ENST00000433115	processed_pseudogene	KNOWN	None	39214	None	None	45646893	45647363	-1	None	None
2	None	ENSG00000236440	ENST00000427448	processed_pseudogene	KNOWN	None	None	None	None	141440929	141441457	-1	None	None
7	None	ENSG00000237026	ENST00000453737	processed_pseudogene	KNOWN	None	None	None	None	64696164	64697097	-1	None	None
8	None	ENSG00000241204	ENST00000465359	processed_pseudogene	KNOWN	None	None	None	None	71336360	71336811	-1	None	None
HSCHR17_4_CTG4	KRTAP4-11	ENSG00000263229	ENST00000573418	protein_coding	KNOWN	None	18911	588	195	39273915	39275094	-1	KRTAP4-14	KAP4.11, KAP4.14
10	CTSLP6	ENSG00000204437	ENST00000458273	unprocessed_pseudogene	KNOWN	None	23611	None	None	81630131	81633659	-1	CTSLL6, CTSL1P6	bA479O17.1
22	None	ENSG00000229971	ENST00000433970	antisense	KNOWN	None	None	None	None	36948212	36948747	1	None	None
2	None	ENSG00000221374	ENST00000408447	miRNA	NOVEL	None	None	None	None	202705852	202705953	1	None	None
3	None	ENSG00000270567	ENST00000604057	sense_intronic	KNOWN	None	None	None	None	169805372	169806638	-1	None	None
5	GRXCR2	ENSG00000204928	ENST00000377976	protein_coding	KNOWN	CCDS34263	33862	747	248	145239296	145252531	-1	None	None
14	TRAV2	ENSG00000211776	ENST00000390424	TR_V_gene	KNOWN	None	12116	338	111	22180544	22181066	1	None	None
17	TRNAS30P	ENSG00000241225	ENST00000481618	unprocessed_pseudogene	KNOWN	None	35087	None	None	22028179	22028247	-1	None	None
2	RNU6-440P	ENSG00000212184	ENST00000390882	snRNA	KNOWN	None	47403	None	None	202792162	202792266	1	None	None
17	MTATP6P3	ENSG00000263483	ENST00000581686	processed_pseudogene	KNOWN	None	44577	None	None	22029260	22029935	1	None	None
7	None	ENSG00000229064	ENST00000451988	processed_pseudogene	KNOWN	None	None	None	None	64707972	64708122	-1	None	None
2	None	ENSG00000238065	ENST00000417035	processed_pseudogene	KNOWN	None	None	None	None	141655992	141656675	1	None	None
2	None	ENSG00000221489	ENST00000408562	miRNA	NOVEL	None	None	None	None	202817980	202818059	-1	None	None
5	None	ENSG00000206741	ENST00000384014	misc_RNA	NOVEL	None	None	None	None	172206985	172207097	-1	None	None
1	RNU1-8P	ENSG00000207056	ENST00000384328	snRNA	KNOWN	None	48307	None	None	7279420	7279584	1	RNU1-8	None
22	None	ENSG00000261675	ENST00000562756	sense_overlapping	KNOWN	None	None	None	None	36956917	36958962	-1	None	None
HSCHR17_4_CTG4	KRTAP4-12	ENSG00000263236	ENST00000571271	protein_coding	KNOWN	None	16776	606	201	39279811	39280887	-1	None	KAP4.12
5	None	ENSG00000270243	ENST00000604389	processed_pseudogene	KNOWN	None	None	None	None	172212265	172212427	-1	None	None
2	None	ENSG00000238770	ENST00000458924	snoRNA	NOVEL	None	None	None	None	202946598	202946701	1	None	None
15	MIR1272	ENSG00000221033	ENST00000408106	miRNA	KNOWN	None	35339	None	None	65054586	65054714	-1	MIRN1272	hsa-mir-1272
22	None	ENSG00000234688	ENST00000430281	antisense	KNOWN	None	None	None	None	37099963	37117517	1	None	None
5	None	ENSG00000253628	ENST00000518260	lincRNA	KNOWN	None	None	None	None	172243624	172246961	1	None	None
2	None	ENSG00000201892	ENST00000365022	misc_RNA	NOVEL	None	None	None	None	141750112	141750228	1	None	None
14	SNORD114-3	ENSG00000201839	ENST00000364969	snoRNA	KNOWN	None	32991	None	None	101419686	101419760	1	None	14q(II-3)
2	None	ENSG00000222035	ENST00000409819	antisense	KNOWN	None	None	None	None	202978349	202981781	-1	None	None
2	None	ENSG00000222035	ENST00000584624	miRNA	KNOWN	None	None	None	None	202979894	202979977	-1	None	None
12	RN7SL88P	ENSG00000266889	ENST00000480166	misc_RNA	KNOWN	None	46104	None	None	96495731	96496027	-1	None	None
16	ATP2C2	ENSG00000064270	ENST00000262429	protein_coding	KNOWN	CCDS42207	29103	2841	946	84402133	84497784	1	None	KIAA0703, SPCA2
16	ATP2C2	ENSG00000064270	ENST00000416219	protein_coding	NOVEL	None	29103	2928	975	84402133	84497793	1	None	KIAA0703, SPCA2
16	ATP2C2	ENSG00000064270	ENST00000565631	retained_intron	KNOWN	None	29103	None	None	84438033	84497606	1	None	KIAA0703, SPCA2
16	ATP2C2	ENSG00000064270	ENST00000569207	nonsense_mediated_decay	KNOWN	None	29103	160	52	84438826	84456004	1	None	KIAA0703, SPCA2
16	ATP2C2	ENSG00000064270	ENST00000565546	processed_transcript	KNOWN	None	29103	None	None	84440194	84456140	1	None	KIAA0703, SPCA2
16	ATP2C2	ENSG00000064270	ENST00000420010	processed_transcript	KNOWN	None	29103	None	None	84440194	84497606	1	None	KIAA0703, SPCA2
16	ATP2C2	ENSG00000064270	ENST00000565927	processed_transcript	KNOWN	None	29103	None	None	84440218	84449132	1	None	KIAA0703, SPCA2
16	ATP2C2	ENSG00000064270	ENST00000568160	retained_intron	KNOWN	None	29103	None	None	84442044	84444513	1	None	KIAA0703, SPCA2
16	ATP2C2	ENSG00000064270	ENST00000563340	retained_intron	KNOWN	None	29103	None	None	84456033	84459657	1	None	KIAA0703, SPCA2
16	ATP2C2	ENSG00000064270	ENST00000564099	retained_intron	KNOWN	None	29103	None	None	84472645	84474498	1	None	KIAA0703, SPCA2
16	ATP2C2	ENSG00000064270	ENST00000567892	retained_intron	KNOWN	None	29103	None	None	84486842	84497336	1	None	KIAA0703, SPCA2
16	ATP2C2	ENSG00000064270	ENST00000567222	retained_intron	KNOWN	None	29103	None	None	84493212	84497785	1	None	KIAA0703, SPCA2
16	ATP2C2	ENSG00000064270	ENST00000567629	retained_intron	KNOWN	None	29103	None	None	84494300	84495692	1	None	KIAA0703, SPCA2
16	ATP2C2	ENSG00000064270	ENST00000566874	retained_intron	KNOWN	None	29103	None	None	84494369	84495208	1	None	KIAA0703, SPCA2
17	None	ENSG00000264316	ENST00000577757	processed_pseudogene	KNOWN	None	None	None	None	22029938	22030718	1	None	None
2	RNU6-904P	ENSG00000252015	ENST00000516206	snRNA	KNOWN	None	47867	None	None	141924826	141924926	-1	None	None
15	RN7SL348P	ENSG00000264929	ENST00000578164	misc_RNA	KNOWN	None	46364	None	None	65192180	65192438	-1	None	None
1	CAMTA1-IT1	ENSG00000237402	ENST00000427317	sense_intronic	KNOWN	None	41446	None	None	7429003	7430331	1	None	None
22	None	ENSG00000234979	ENST00000417792	antisense	KNOWN	None	None	None	None	37212370	37215780	1	None	None
14	SNORD114-4	ENSG00000200832	ENST00000363962	snoRNA	KNOWN	None	32992	None	None	101420711	101420785	1	None	14q(II-4)
2	None	ENSG00000233329	ENST00000430283	processed_pseudogene	KNOWN	None	None	None	None	141965651	141965945	-1	None	None
2	None	ENSG00000231903	ENST00000447111	antisense	KNOWN	None	None	None	None	203043383	203044114	-1	None	None
11	TRIM77	ENSG00000214414	ENST00000534392	protein_coding	NOVEL	None	34228	705	234	89443818	89450974	1	TRIM77P	None
11	TRIM77	ENSG00000214414	ENST00000603145	protein_coding	NOVEL	None	34228	437	144	89444620	89450577	1	TRIM77P	None
11	TRIM77	ENSG00000214414	ENST00000398290	protein_coding	KNOWN	None	34228	1353	450	89443467	89451040	1	TRIM77P	None
8	None	ENSG00000253143	ENST00000521051	lincRNA	KNOWN	None	None	None	None	71383347	71392858	-1	None	None
8	None	ENSG00000253143	ENST00000579600	misc_RNA	NOVEL	None	None	None	None	71392429	71392722	-1	None	None
17	None	ENSG00000264930	ENST00000584626	processed_pseudogene	KNOWN	None	None	None	None	22105715	22106030	1	None	None
10	ANKRD30BP3	ENSG00000230501	ENST00000444850	unprocessed_pseudogene	KNOWN	None	27873	None	None	45652223	45672373	1	None	None
22	None	ENSG00000183822	ENST00000330602	antisense	KNOWN	None	None	None	None	37243415	37266483	-1	None	None
22	None	ENSG00000183822	ENST00000431290	antisense	KNOWN	None	None	None	None	37254063	37266422	-1	None	None
17	None	ENSG00000264262	ENST00000582507	lincRNA	KNOWN	None	None	None	None	22176022	22191945	-1	None	None
15	None	ENSG00000270218	ENST00000604244	processed_pseudogene	KNOWN	None	None	None	None	65318426	65319014	1	None	None
2	None	ENSG00000265224	ENST00000582639	miRNA	NOVEL	None	None	None	None	142396413	142396532	1	None	None
5	None	ENSG00000204758	ENST00000520067	antisense	KNOWN	None	None	None	None	172381789	172385781	-1	None	None
5	None	ENSG00000204758	ENST00000518818	antisense	KNOWN	None	None	None	None	172382157	172386380	-1	None	None
5	None	ENSG00000204758	ENST00000518894	antisense	KNOWN	None	None	None	None	172382768	172386395	-1	None	None
3	None	ENSG00000268220	ENST00000599781	antisense	KNOWN	None	None	None	None	169805598	169807378	1	None	None
2	PSMA2P3	ENSG00000227890	ENST00000429685	processed_pseudogene	KNOWN	None	43834	None	None	203044020	203044694	1	None	PSMA2L
17	None	ENSG00000265114	ENST00000577879	lincRNA	KNOWN	None	None	None	None	22192161	22192940	1	None	None
8	None	ENSG00000253156	ENST00000521058	processed_pseudogene	KNOWN	None	None	None	None	112633687	112634026	-1	None	None
14	TRAV3	ENSG00000211777	ENST00000390425	TR_V_gene	KNOWN	None	12128	343	113	22191960	22192568	1	None	None
2	None	ENSG00000266259	ENST00000578083	miRNA	NOVEL	None	None	None	None	142754946	142755056	1	None	None
14	SNORD114-5	ENSG00000199798	ENST00000362928	snoRNA	KNOWN	None	32993	None	None	101421707	101421776	1	None	14q(II-5)
11	C11orf80	ENSG00000173715	ENST00000534325	protein_coding	PUTATIVE	None	26197	46	14	66511922	66526555	1	None	FLJ22531
11	C11orf80	ENSG00000173715	ENST00000524551	protein_coding	PUTATIVE	None	26197	388	128	66512089	66571665	1	None	FLJ22531
11	C11orf80	ENSG00000173715	ENST00000525908	protein_coding	PUTATIVE	None	26197	895	297	66512207	66571665	1	None	FLJ22531
11	C11orf80	ENSG00000173715	ENST00000527634	protein_coding	PUTATIVE	None	26197	1383	460	66512242	66610761	1	None	FLJ22531
11	C11orf80	ENSG00000173715	ENST00000527368	processed_transcript	KNOWN	None	26197	None	None	66512245	66568157	1	None	FLJ22531
11	C11orf80	ENSG00000173715	ENST00000540737	protein_coding	NOVEL	None	26197	1536	511	66512258	66610793	1	None	FLJ22531
11	C11orf80	ENSG00000173715	ENST00000531400	nonsense_mediated_decay	KNOWN	None	26197	203	66	66512291	66568548	1	None	FLJ22531
11	C11orf80	ENSG00000173715	ENST00000532565	protein_coding	NOVEL	None	26197	1380	459	66512363	66610761	1	None	FLJ22531
11	C11orf80	ENSG00000173715	ENST00000525449	protein_coding	NOVEL	None	26197	1458	485	66515865	66610795	1	None	FLJ22531
11	C11orf80	ENSG00000173715	ENST00000532727	nonsense_mediated_decay	KNOWN	None	26197	144	47	66526531	66610763	1	None	FLJ22531
11	C11orf80	ENSG00000173715	ENST00000532089	protein_coding	PUTATIVE	None	26197	450	149	66555631	66571665	1	None	FLJ22531
11	C11orf80	ENSG00000173715	ENST00000526260	nonsense_mediated_decay	KNOWN	None	26197	326	107	66555631	66571665	1	None	FLJ22531
11	C11orf80	ENSG00000173715	ENST00000527352	retained_intron	KNOWN	None	26197	None	None	66563368	66571639	1	None	FLJ22531
11	C11orf80	ENSG00000173715	ENST00000533143	retained_intron	KNOWN	None	26197	None	None	66583179	66595878	1	None	FLJ22531
11	C11orf80	ENSG00000173715	ENST00000526718	retained_intron	KNOWN	None	26197	None	None	66583305	66590131	1	None	FLJ22531
11	C11orf80	ENSG00000173715	ENST00000531415	protein_coding	PUTATIVE	None	26197	632	209	66589114	66610744	1	None	FLJ22531
11	C11orf80	ENSG00000173715	ENST00000526270	processed_transcript	KNOWN	None	26197	None	None	66589185	66596268	1	None	FLJ22531
11	C11orf80	ENSG00000173715	ENST00000360962	protein_coding	KNOWN	CCDS53664	26197	2034	677	66512207	66610987	1	None	FLJ22531
11	C11orf80	ENSG00000173715	ENST00000346672	protein_coding	KNOWN	None	26197	1461	486	66512207	66610799	1	None	FLJ22531
HSCHR6_MHC_COX	NFKBIL1	ENSG00000234530	ENST00000434332	protein_coding	KNOWN	None	7800	1077	358	31502098	31514044	1	NFKBIL	IKBL
HSCHR6_MHC_COX	NFKBIL1	ENSG00000234530	ENST00000419122	protein_coding	KNOWN	None	7800	1146	381	31502808	31514044	1	NFKBIL	IKBL
HSCHR6_MHC_COX	NFKBIL1	ENSG00000234530	ENST00000414391	protein_coding	KNOWN	None	7800	1101	366	31502840	31514044	1	NFKBIL	IKBL
HSCHR6_MHC_COX	NFKBIL1	ENSG00000234530	ENST00000496344	processed_transcript	KNOWN	None	7800	None	None	31502867	31512920	1	NFKBIL	IKBL
HSCHR6_MHC_COX	NFKBIL1	ENSG00000234530	ENST00000468464	protein_coding	PUTATIVE	None	7800	666	221	31502888	31513174	1	NFKBIL	IKBL
17	None	ENSG00000264431	ENST00000580697	processed_pseudogene	KNOWN	None	None	None	None	22192652	22194158	-1	None	None
2	None	ENSG00000244125	ENST00000436132	sense_overlapping	KNOWN	None	None	None	None	142888747	142895399	-1	None	None
15	None	ENSG00000259258	ENST00000560906	processed_pseudogene	KNOWN	None	None	None	None	65397872	65398138	1	None	None
11	FAM180B	ENSG00000196666	ENST00000538490	protein_coding	KNOWN	None	34451	606	201	47608245	47610746	1	None	LOC399888
11	FAM180B	ENSG00000196666	ENST00000356737	protein_coding	KNOWN	None	34451	675	224	47608198	47610746	1	None	LOC399888
22	None	ENSG00000239056	ENST00000459547	snoRNA	NOVEL	None	None	None	None	37344522	37344599	1	None	None
8	None	ENSG00000254262	ENST00000522390	lincRNA	KNOWN	None	None	None	None	112754241	112768861	1	None	None
8	None	ENSG00000254262	ENST00000517308	lincRNA	KNOWN	None	None	None	None	112757747	112769055	1	None	None
1	None	ENSG00000237728	ENST00000457311	antisense	KNOWN	None	None	None	None	7442548	7449814	-1	None	None
1	None	ENSG00000237728	ENST00000411708	antisense	KNOWN	None	None	None	None	7448243	7449479	-1	None	None
22	CSF2RBP1	ENSG00000232254	ENST00000447905	unprocessed_pseudogene	KNOWN	None	2437	None	None	37346571	37349764	-1	CSF2RB2	None
17	None	ENSG00000264970	ENST00000578745	processed_pseudogene	KNOWN	None	None	None	None	22203742	22205012	1	None	None
10	MXI1	ENSG00000119950	ENST00000332674	protein_coding	KNOWN	CCDS7563	7534	888	295	111967363	112047123	1	None	MXD2, MAD2, MXI, bHLHc11
10	MXI1	ENSG00000119950	ENST00000453116	protein_coding	KNOWN	None	7534	678	225	111967442	112039827	1	None	MXD2, MAD2, MXI, bHLHc11
10	MXI1	ENSG00000119950	ENST00000361248	protein_coding	KNOWN	CCDS31284	7534	549	182	111969989	112046264	1	None	MXD2, MAD2, MXI, bHLHc11
10	MXI1	ENSG00000119950	ENST00000239007	protein_coding	KNOWN	CCDS7564	7534	687	228	111985751	112046264	1	None	MXD2, MAD2, MXI, bHLHc11
10	MXI1	ENSG00000119950	ENST00000460667	processed_transcript	KNOWN	None	7534	None	None	111985793	112044648	1	None	MXD2, MAD2, MXI, bHLHc11
10	MXI1	ENSG00000119950	ENST00000393134	protein_coding	KNOWN	None	7534	657	218	111985842	112044850	1	None	MXD2, MAD2, MXI, bHLHc11
10	MXI1	ENSG00000119950	ENST00000484030	processed_transcript	KNOWN	None	7534	None	None	111987124	112044872	1	None	MXD2, MAD2, MXI, bHLHc11
10	MXI1	ENSG00000119950	ENST00000442296	protein_coding	KNOWN	None	7534	354	117	111987299	112039782	1	None	MXD2, MAD2, MXI, bHLHc11
10	MXI1	ENSG00000119950	ENST00000485566	processed_transcript	KNOWN	None	7534	None	None	111987401	112046264	1	None	MXD2, MAD2, MXI, bHLHc11
10	MXI1	ENSG00000119950	ENST00000369612	protein_coding	KNOWN	None	7534	579	192	111987437	112044806	1	None	MXD2, MAD2, MXI, bHLHc11
16	None	ENSG00000256599	ENST00000541129	pseudogene	NOVEL	None	None	None	None	4853207	4854787	-1	None	None
1	HSPA6	ENSG00000173110	ENST00000309758	protein_coding	KNOWN	CCDS1231	5239	1932	643	161494036	161496681	1	None	None
2	None	ENSG00000239131	ENST00000458963	miRNA	NOVEL	None	None	None	None	143070509	143070577	-1	None	None
2	TSGA10	ENSG00000135951	ENST00000393483	protein_coding	KNOWN	CCDS2037	14927	2097	698	99613724	99771380	-1	None	CEP4L, CT79
2	TSGA10	ENSG00000135951	ENST00000410001	protein_coding	KNOWN	CCDS2037	14927	2097	698	99614349	99735242	-1	None	CEP4L, CT79
2	TSGA10	ENSG00000135951	ENST00000355053	protein_coding	KNOWN	CCDS2037	14927	2097	698	99614349	99758035	-1	None	CEP4L, CT79
2	TSGA10	ENSG00000135951	ENST00000489546	processed_transcript	KNOWN	None	14927	None	None	99634663	99695391	-1	None	CEP4L, CT79
2	TSGA10	ENSG00000135951	ENST00000409564	protein_coding	NOVEL	None	14927	1862	619	99634663	99743639	-1	None	CEP4L, CT79
2	TSGA10	ENSG00000135951	ENST00000393482	protein_coding	KNOWN	None	14927	2072	689	99634663	99757882	-1	None	CEP4L, CT79
2	TSGA10	ENSG00000135951	ENST00000478090	processed_transcript	KNOWN	None	14927	None	None	99681393	99743609	-1	None	CEP4L, CT79
2	TSGA10	ENSG00000135951	ENST00000488960	processed_transcript	KNOWN	None	14927	None	None	99685389	99743631	-1	None	CEP4L, CT79
2	TSGA10	ENSG00000135951	ENST00000489926	processed_transcript	KNOWN	None	14927	None	None	99725866	99757612	-1	None	CEP4L, CT79
2	TSGA10	ENSG00000135951	ENST00000497915	processed_transcript	KNOWN	None	14927	None	None	99725964	99757643	-1	None	CEP4L, CT79
2	TSGA10	ENSG00000135951	ENST00000471174	processed_transcript	KNOWN	None	14927	None	None	99725977	99771425	-1	None	CEP4L, CT79
2	TSGA10	ENSG00000135951	ENST00000476849	processed_transcript	KNOWN	None	14927	None	None	99733591	99771427	-1	None	CEP4L, CT79
2	TSGA10	ENSG00000135951	ENST00000494483	processed_transcript	KNOWN	None	14927	None	None	99734007	99757884	-1	None	CEP4L, CT79
2	TSGA10	ENSG00000135951	ENST00000462782	retained_intron	KNOWN	None	14927	None	None	99734030	99757884	-1	None	CEP4L, CT79
2	TSGA10	ENSG00000135951	ENST00000464459	retained_intron	KNOWN	None	14927	None	None	99741230	99757612	-1	None	CEP4L, CT79
2	TSGA10	ENSG00000135951	ENST00000498097	processed_transcript	KNOWN	None	14927	None	None	99764727	99771099	-1	None	CEP4L, CT79
2	TSGA10	ENSG00000135951	ENST00000483914	processed_transcript	KNOWN	None	14927	None	None	99764727	99771332	-1	None	CEP4L, CT79
2	TSGA10	ENSG00000135951	ENST00000465216	processed_transcript	KNOWN	None	14927	None	None	99764727	99771353	-1	None	CEP4L, CT79
2	TSGA10	ENSG00000135951	ENST00000489348	processed_transcript	KNOWN	None	14927	None	None	99764728	99771324	-1	None	CEP4L, CT79
2	TSGA10	ENSG00000135951	ENST00000539964	protein_coding	KNOWN	CCDS2037	14927	2097	698	99614660	99757882	-1	None	CEP4L, CT79
2	TSGA10	ENSG00000135951	ENST00000542655	protein_coding	KNOWN	None	14927	894	297	99688269	99757612	-1	None	CEP4L, CT79
8	None	ENSG00000253967	ENST00000520259	lincRNA	KNOWN	None	None	None	None	71383369	71397922	1	None	None
2	None	ENSG00000228134	ENST00000415815	processed_pseudogene	KNOWN	None	None	None	None	143300987	143301544	1	None	None
16	None	ENSG00000200980	ENST00000364110	misc_RNA	NOVEL	None	None	None	None	5001774	5001892	-1	None	None
18	MBP	ENSG00000197971	ENST00000382582	protein_coding	KNOWN	CCDS32847	6925	594	197	74690783	74729051	-1	None	None
18	MBP	ENSG00000197971	ENST00000490319	retained_intron	KNOWN	None	6925	None	None	74690790	74699912	-1	None	None
18	MBP	ENSG00000197971	ENST00000585201	protein_coding	PUTATIVE	None	6925	542	179	74690791	74701979	-1	None	None
18	MBP	ENSG00000197971	ENST00000397875	protein_coding	NOVEL	None	6925	546	181	74690808	74729011	-1	None	None
18	MBP	ENSG00000197971	ENST00000397866	protein_coding	KNOWN	CCDS42449	6925	516	171	74690808	74729018	-1	None	None
18	MBP	ENSG00000197971	ENST00000397865	protein_coding	KNOWN	CCDS42448	6925	483	160	74690817	74729042	-1	None	None
18	MBP	ENSG00000197971	ENST00000527041	protein_coding	PUTATIVE	None	6925	327	108	74691697	74729021	-1	None	None
18	MBP	ENSG00000197971	ENST00000359645	protein_coding	KNOWN	CCDS12011	6925	561	186	74691723	74728998	-1	None	None
18	MBP	ENSG00000197971	ENST00000528160	protein_coding	NOVEL	None	6925	207	68	74692020	74729018	-1	None	None
18	MBP	ENSG00000197971	ENST00000577755	nonsense_mediated_decay	KNOWN	None	6925	181	59	74692191	74728956	-1	None	None
18	MBP	ENSG00000197971	ENST00000527975	nonsense_mediated_decay	KNOWN	None	6925	99	32	74692231	74729014	-1	None	None
18	MBP	ENSG00000197971	ENST00000578715	processed_transcript	PUTATIVE	None	6925	None	None	74692248	74697443	-1	None	None
18	MBP	ENSG00000197971	ENST00000397869	protein_coding	NOVEL	None	6925	711	236	74692257	74729011	-1	None	None
18	MBP	ENSG00000197971	ENST00000354542	protein_coding	NOVEL	None	6925	222	73	74692283	74729217	-1	None	None
18	MBP	ENSG00000197971	ENST00000531144	nonsense_mediated_decay	KNOWN	None	6925	180	59	74692293	74729021	-1	None	None
18	MBP	ENSG00000197971	ENST00000583474	nonsense_mediated_decay	KNOWN	None	6925	180	59	74692301	74729011	-1	None	None
18	MBP	ENSG00000197971	ENST00000533278	nonsense_mediated_decay	KNOWN	None	6925	195	64	74692307	74729021	-1	None	None
18	MBP	ENSG00000197971	ENST00000526111	protein_coding	NOVEL	None	6925	450	149	74692309	74729021	-1	None	None
18	MBP	ENSG00000197971	ENST00000580402	protein_coding	NOVEL	None	6925	915	304	74692383	74817217	-1	None	None
18	MBP	ENSG00000197971	ENST00000579129	protein_coding	NOVEL	None	6925	762	253	74692383	74844800	-1	None	None
18	MBP	ENSG00000197971	ENST00000578193	protein_coding	PUTATIVE	None	6925	474	157	74692411	74729011	-1	None	None
18	MBP	ENSG00000197971	ENST00000397868	retained_intron	KNOWN	None	6925	None	None	74696684	74729011	-1	None	None
18	MBP	ENSG00000197971	ENST00000447114	protein_coding	PUTATIVE	None	6925	304	100	74696730	74722078	-1	None	None
18	MBP	ENSG00000197971	ENST00000581179	processed_transcript	KNOWN	None	6925	None	None	74696751	74729011	-1	None	None
18	MBP	ENSG00000197971	ENST00000580473	processed_transcript	KNOWN	None	6925	None	None	74696751	74799538	-1	None	None
18	MBP	ENSG00000197971	ENST00000582282	processed_transcript	KNOWN	None	6925	None	None	74696760	74729007	-1	None	None
18	MBP	ENSG00000197971	ENST00000473302	nonsense_mediated_decay	KNOWN	None	6925	297	98	74696764	74729011	-1	None	None
18	MBP	ENSG00000197971	ENST00000483025	nonsense_mediated_decay	KNOWN	None	6925	201	66	74696769	74729011	-1	None	None
18	MBP	ENSG00000197971	ENST00000493623	nonsense_mediated_decay	KNOWN	None	6925	327	108	74696810	74729011	-1	None	None
18	MBP	ENSG00000197971	ENST00000585216	processed_transcript	KNOWN	None	6925	None	None	74697206	74729011	-1	None	None
18	MBP	ENSG00000197971	ENST00000484548	retained_intron	KNOWN	None	6925	None	None	74699546	74728998	-1	None	None
18	MBP	ENSG00000197971	ENST00000583118	retained_intron	KNOWN	None	6925	None	None	74700277	74721856	-1	None	None
18	MBP	ENSG00000197971	ENST00000578873	protein_coding	NOVEL	None	6925	514	170	74700366	74729011	-1	None	None
18	MBP	ENSG00000197971	ENST00000467108	retained_intron	KNOWN	None	6925	None	None	74700432	74729014	-1	None	None
18	MBP	ENSG00000197971	ENST00000459948	nonsense_mediated_decay	KNOWN	None	6925	360	119	74700450	74729017	-1	None	None
18	MBP	ENSG00000197971	ENST00000482445	retained_intron	KNOWN	None	6925	None	None	74701682	74729011	-1	None	None
18	MBP	ENSG00000197971	ENST00000498683	protein_coding	KNOWN	None	6925	259	85	74701935	74729734	-1	None	None
18	MBP	ENSG00000197971	ENST00000583266	processed_transcript	PUTATIVE	None	6925	None	None	74717840	74729011	-1	None	None
18	MBP	ENSG00000197971	ENST00000397863	protein_coding	KNOWN	CCDS42450	6925	594	197	74724735	74843640	-1	None	None
18	MBP	ENSG00000197971	ENST00000397860	protein_coding	KNOWN	CCDS42450	6925	594	197	74724735	74844725	-1	None	None
18	MBP	ENSG00000197971	ENST00000581878	protein_coding	KNOWN	None	6925	478	158	74728886	74839901	-1	None	None
18	MBP	ENSG00000197971	ENST00000487778	processed_transcript	KNOWN	None	6925	None	None	74728935	74844770	-1	None	None
18	MBP	ENSG00000197971	ENST00000490754	processed_transcript	KNOWN	None	6925	None	None	74729026	74845639	-1	None	None
18	MBP	ENSG00000197971	ENST00000495162	processed_transcript	KNOWN	None	6925	None	None	74729041	74799607	-1	None	None
18	MBP	ENSG00000197971	ENST00000497479	processed_transcript	KNOWN	None	6925	None	None	74729075	74845639	-1	None	None
18	MBP	ENSG00000197971	ENST00000493247	retained_intron	KNOWN	None	6925	None	None	74777730	74799565	-1	None	None
18	MBP	ENSG00000197971	ENST00000583798	protein_coding	KNOWN	None	6925	125	40	74778268	74839668	-1	None	None
18	MBP	ENSG00000197971	ENST00000355994	protein_coding	KNOWN	None	6925	915	304	74690790	74844774	-1	None	None
16	None	ENSG00000267072	ENST00000588778	retained_intron	KNOWN	None	None	None	None	5060910	5092251	1	None	None
2	None	ENSG00000229781	ENST00000428909	processed_pseudogene	KNOWN	None	None	None	None	143611664	143613567	1	None	None
12	None	ENSG00000258177	ENST00000551844	antisense	KNOWN	None	None	None	None	96616575	96617751	-1	None	None
6	None	ENSG00000271227	ENST00000603072	processed_pseudogene	KNOWN	None	None	None	None	52553459	52553796	1	None	None
2	DAZAP2P1	ENSG00000223825	ENST00000475212	processed_pseudogene	KNOWN	None	43869	None	None	203066107	203066609	-1	None	None
2	DAZAP2P1	ENSG00000223825	ENST00000332845	processed_pseudogene	KNOWN	None	43869	None	None	203066103	203066423	-1	None	None
14	None	ENSG00000200150	ENST00000363280	snoRNA	NOVEL	None	None	None	None	101422577	101422649	1	None	None
2	None	ENSG00000270390	ENST00000603317	processed_pseudogene	KNOWN	None	None	None	None	143704869	143705655	-1	None	None
14	SNORD114-6	ENSG00000201263	ENST00000364393	snoRNA	KNOWN	None	32994	None	None	101423503	101423574	1	None	14q(II-6)
5	None	ENSG00000251311	ENST00000504419	lincRNA	KNOWN	None	None	None	None	116078687	116097905	-1	None	None
22	None	ENSG00000215403	ENST00000400221	antisense	KNOWN	None	None	None	None	37361289	37364213	1	None	None
14	None	ENSG00000258630	ENST00000554522	lincRNA	KNOWN	None	None	None	None	95795921	95801841	1	None	None
6	GSTA7P	ENSG00000237674	ENST00000438425	unprocessed_pseudogene	KNOWN	None	4631	None	None	52604388	52609454	-1	GSTAP2	None
17	UBTF	ENSG00000108312	ENST00000343638	protein_coding	KNOWN	CCDS42346	12511	2184	727	42282401	42298331	-1	None	UBF, NOR-90
17	UBTF	ENSG00000108312	ENST00000302904	protein_coding	KNOWN	CCDS11480	12511	2295	764	42282401	42298994	-1	None	UBF, NOR-90
17	UBTF	ENSG00000108312	ENST00000527034	protein_coding	NOVEL	None	12511	2238	745	42283962	42298222	-1	None	UBF, NOR-90
17	UBTF	ENSG00000108312	ENST00000533177	protein_coding	KNOWN	CCDS42346	12511	2184	727	42283963	42296489	-1	None	UBF, NOR-90
17	UBTF	ENSG00000108312	ENST00000436088	protein_coding	KNOWN	CCDS11480	12511	2295	764	42284288	42296866	-1	None	UBF, NOR-90
17	UBTF	ENSG00000108312	ENST00000393606	protein_coding	KNOWN	CCDS42346	12511	2184	727	42284484	42297118	-1	None	UBF, NOR-90
17	UBTF	ENSG00000108312	ENST00000526094	protein_coding	KNOWN	CCDS42346	12511	2184	727	42284608	42295870	-1	None	UBF, NOR-90
17	UBTF	ENSG00000108312	ENST00000529383	protein_coding	KNOWN	CCDS11480	12511	2295	764	42284608	42295870	-1	None	UBF, NOR-90
17	UBTF	ENSG00000108312	ENST00000529947	nonsense_mediated_decay	KNOWN	None	12511	110	35	42284855	42286790	-1	None	UBF, NOR-90
17	UBTF	ENSG00000108312	ENST00000531368	retained_intron	KNOWN	None	12511	None	None	42286587	42287510	-1	None	UBF, NOR-90
17	UBTF	ENSG00000108312	ENST00000529373	protein_coding	PUTATIVE	None	12511	583	193	42286803	42288370	-1	None	UBF, NOR-90
17	UBTF	ENSG00000108312	ENST00000529042	retained_intron	KNOWN	None	12511	None	None	42289548	42290724	-1	None	UBF, NOR-90
17	UBTF	ENSG00000108312	ENST00000530828	protein_coding	NOVEL	None	12511	448	148	42290593	42295870	-1	None	UBF, NOR-90
17	UBTF	ENSG00000108312	ENST00000537550	processed_transcript	KNOWN	None	12511	None	None	42292722	42295908	-1	None	UBF, NOR-90
20	None	ENSG00000270279	ENST00000603095	lincRNA	KNOWN	None	None	None	None	57329407	57331894	1	None	None
2	None	ENSG00000221169	ENST00000408242	miRNA	NOVEL	None	None	None	None	143763269	143763360	-1	None	None
15	UBE2Q2P3	ENSG00000259429	ENST00000558477	processed_transcript	KNOWN	None	37669	None	None	83023847	83083468	1	None	None
15	UBE2Q2P3	ENSG00000259429	ENST00000559039	transcribed_unprocessed_pseudogene	KNOWN	None	37669	None	None	83060589	83088805	1	None	None
15	UBE2Q2P3	ENSG00000259429	ENST00000561287	processed_transcript	KNOWN	None	37669	None	None	83083411	83084733	1	None	None
15	UBE2Q2P3	ENSG00000259429	ENST00000558542	processed_transcript	KNOWN	None	37669	None	None	83084257	83088121	1	None	None
17	None	ENSG00000263433	ENST00000580677	processed_pseudogene	KNOWN	None	None	None	None	25308720	25309116	1	None	None
2	None	ENSG00000224288	ENST00000447254	processed_pseudogene	KNOWN	None	None	None	None	143850625	143851733	-1	None	None
8	RPL30P10	ENSG00000243050	ENST00000488148	processed_pseudogene	KNOWN	None	36822	None	None	58305105	58305441	1	None	None
11	C1QTNF4	ENSG00000172247	ENST00000302514	protein_coding	KNOWN	CCDS7942	14346	990	329	47611216	47616211	-1	None	CTRP4, ZACRP4
11	C1QTNF4	ENSG00000172247	ENST00000530097	protein_coding	PUTATIVE	None	14346	301	99	47611374	47612362	-1	None	CTRP4, ZACRP4
HG7_PATCH	MGAM	ENSG00000259858	ENST00000564264	protein_coding	KNOWN	None	7043	555	184	141607613	141720880	1	None	MGA
HG7_PATCH	MGAM	ENSG00000259858	ENST00000569507	processed_transcript	KNOWN	None	7043	None	None	141607633	141631649	1	None	MGA
HG7_PATCH	MGAM	ENSG00000259858	ENST00000563244	protein_coding	KNOWN	None	7043	5574	1857	141695638	141806547	1	None	MGA
HG7_PATCH	MGAM	ENSG00000259858	ENST00000562270	protein_coding	PUTATIVE	None	7043	429	142	141695679	141719100	1	None	MGA
HG7_PATCH	MGAM	ENSG00000259858	ENST00000569657	protein_coding	PUTATIVE	None	7043	8265	2754	141695679	141806547	1	None	MGA
HG7_PATCH	MGAM	ENSG00000259858	ENST00000563001	retained_intron	KNOWN	None	7043	None	None	141730027	141731594	1	None	MGA
HG7_PATCH	MGAM	ENSG00000259858	ENST00000569405	retained_intron	KNOWN	None	7043	None	None	141738346	141740241	1	None	MGA
HG7_PATCH	MGAM	ENSG00000259858	ENST00000565795	processed_transcript	KNOWN	None	7043	None	None	141788232	141806546	1	None	MGA
HG7_PATCH	MGAM	ENSG00000259858	ENST00000570277	retained_intron	KNOWN	None	7043	None	None	141794574	141795810	1	None	MGA
9	OR13F1	ENSG00000186881	ENST00000334726	protein_coding	KNOWN	CCDS35087	14723	960	319	107266455	107267547	1	None	None
7	INTS1	ENSG00000164880	ENST00000404767	protein_coding	KNOWN	CCDS47526	24555	6573	2190	1509913	1544003	-1	None	DKFZp586J0619, KIAA1440, INT1, NET28
7	INTS1	ENSG00000164880	ENST00000493446	processed_transcript	KNOWN	None	24555	None	None	1510114	1512761	-1	None	DKFZp586J0619, KIAA1440, INT1, NET28
7	INTS1	ENSG00000164880	ENST00000483196	protein_coding	NOVEL	None	24555	386	127	1510769	1512786	-1	None	DKFZp586J0619, KIAA1440, INT1, NET28
7	INTS1	ENSG00000164880	ENST00000479671	retained_intron	KNOWN	None	24555	None	None	1510807	1511397	-1	None	DKFZp586J0619, KIAA1440, INT1, NET28
7	INTS1	ENSG00000164880	ENST00000482994	retained_intron	KNOWN	None	24555	None	None	1513836	1515786	-1	None	DKFZp586J0619, KIAA1440, INT1, NET28
7	INTS1	ENSG00000164880	ENST00000468115	retained_intron	KNOWN	None	24555	None	None	1521914	1533503	-1	None	DKFZp586J0619, KIAA1440, INT1, NET28
7	INTS1	ENSG00000164880	ENST00000496988	processed_transcript	KNOWN	None	24555	None	None	1534092	1535848	-1	None	DKFZp586J0619, KIAA1440, INT1, NET28
7	INTS1	ENSG00000164880	ENST00000493531	processed_transcript	KNOWN	None	24555	None	None	1539164	1540915	-1	None	DKFZp586J0619, KIAA1440, INT1, NET28
7	INTS1	ENSG00000164880	ENST00000389470	protein_coding	KNOWN	None	24555	7185	2394	1509913	1545489	-1	None	DKFZp586J0619, KIAA1440, INT1, NET28
17	UBE2G1	ENSG00000132388	ENST00000396981	protein_coding	KNOWN	CCDS32532	12482	513	170	4172554	4269777	-1	UBE2G	UBC7
17	UBE2G1	ENSG00000132388	ENST00000572484	protein_coding	PUTATIVE	None	12482	300	99	4175275	4269923	-1	UBE2G	UBC7
17	UBE2G1	ENSG00000132388	ENST00000574633	nonsense_mediated_decay	KNOWN	None	12482	150	49	4175531	4269920	-1	UBE2G	UBC7
17	UBE2G1	ENSG00000132388	ENST00000571980	nonsense_mediated_decay	KNOWN	None	12482	153	50	4175592	4269923	-1	UBE2G	UBC7
17	UBE2G1	ENSG00000132388	ENST00000571953	protein_coding	PUTATIVE	None	12482	236	77	4186194	4235218	-1	UBE2G	UBC7
17	UBE2G1	ENSG00000132388	ENST00000574059	protein_coding	PUTATIVE	None	12482	18	5	4200028	4249075	-1	UBE2G	UBC7
17	COASY	ENSG00000068120	ENST00000588757	processed_transcript	KNOWN	None	29932	None	None	40713485	40714287	1	None	DPCK, NBP, CoASY, PPAT
17	COASY	ENSG00000068120	ENST00000585811	protein_coding	KNOWN	None	29932	272	89	40714152	40714912	1	None	DPCK, NBP, CoASY, PPAT
17	COASY	ENSG00000068120	ENST00000585909	protein_coding	KNOWN	None	29932	295	97	40714155	40714848	1	None	DPCK, NBP, CoASY, PPAT
17	COASY	ENSG00000068120	ENST00000586771	protein_coding	KNOWN	None	29932	659	218	40714160	40715299	1	None	DPCK, NBP, CoASY, PPAT
17	COASY	ENSG00000068120	ENST00000421097	protein_coding	KNOWN	CCDS11429	29932	1695	564	40714165	40718278	1	None	DPCK, NBP, CoASY, PPAT
17	COASY	ENSG00000068120	ENST00000591779	protein_coding	PUTATIVE	None	29932	347	114	40714166	40716911	1	None	DPCK, NBP, CoASY, PPAT
17	COASY	ENSG00000068120	ENST00000587858	protein_coding	KNOWN	None	29932	384	127	40714169	40714937	1	None	DPCK, NBP, CoASY, PPAT
17	COASY	ENSG00000068120	ENST00000587214	protein_coding	KNOWN	None	29932	442	146	40714169	40715082	1	None	DPCK, NBP, CoASY, PPAT
17	COASY	ENSG00000068120	ENST00000587157	protein_coding	NOVEL	None	29932	290	95	40714169	40715164	1	None	DPCK, NBP, CoASY, PPAT
17	COASY	ENSG00000068120	ENST00000590958	protein_coding	KNOWN	CCDS45685	29932	1782	593	40714169	40718055	1	None	DPCK, NBP, CoASY, PPAT
17	COASY	ENSG00000068120	ENST00000393818	protein_coding	KNOWN	CCDS11429	29932	1695	564	40714185	40718293	1	None	DPCK, NBP, CoASY, PPAT
17	COASY	ENSG00000068120	ENST00000591753	retained_intron	KNOWN	None	29932	None	None	40715325	40718292	1	None	DPCK, NBP, CoASY, PPAT
17	COASY	ENSG00000068120	ENST00000588353	retained_intron	KNOWN	None	29932	None	None	40716033	40716689	1	None	DPCK, NBP, CoASY, PPAT
17	COASY	ENSG00000068120	ENST00000591583	retained_intron	KNOWN	None	29932	None	None	40717480	40718295	1	None	DPCK, NBP, CoASY, PPAT
17	COASY	ENSG00000068120	ENST00000420359	protein_coding	KNOWN	CCDS11429	29932	1695	564	40714092	40718295	1	None	DPCK, NBP, CoASY, PPAT
17	COASY	ENSG00000068120	ENST00000449624	protein_coding	KNOWN	None	29932	810	269	40714092	40718295	1	None	DPCK, NBP, CoASY, PPAT
16	None	ENSG00000260882	ENST00000564330	processed_pseudogene	KNOWN	None	None	None	None	5128169	5128606	-1	None	None
19	None	ENSG00000269093	ENST00000594570	protein_coding	NOVEL	None	None	69	22	32895915	32896466	1	None	None
3	RNU6-315P	ENSG00000199536	ENST00000362666	snRNA	KNOWN	None	47278	None	None	169867633	169867739	1	None	None
2	MTND6P11	ENSG00000226839	ENST00000431890	processed_pseudogene	KNOWN	None	39474	None	None	143851802	143852284	1	None	None
2	None	ENSG00000224463	ENST00000453523	processed_pseudogene	KNOWN	None	None	None	None	203096419	203096572	1	None	None
15	RNU6-686P	ENSG00000201709	ENST00000364839	snRNA	KNOWN	None	47649	None	None	65522199	65522305	1	None	None
13	C1QTNF9	ENSG00000240654	ENST00000382071	protein_coding	KNOWN	CCDS9306	28732	1002	333	24881304	24896673	1	None	MGC48915, CTRP9, C1QTNF9A, AQL1
13	C1QTNF9	ENSG00000240654	ENST00000332018	protein_coding	KNOWN	CCDS9306	28732	1002	333	24883716	24896673	1	None	MGC48915, CTRP9, C1QTNF9A, AQL1
17	None	ENSG00000264734	ENST00000580686	lincRNA	KNOWN	None	None	None	None	25316215	25326951	-1	None	None
17	None	ENSG00000264734	ENST00000580280	lincRNA	KNOWN	None	None	None	None	25325106	25326967	-1	None	None
15	DYX1C1-CCPG1	ENSG00000261771	ENST00000565113	processed_transcript	KNOWN	None	43019	None	None	55647446	55790558	-1	None	None
15	DYX1C1-CCPG1	ENSG00000261771	ENST00000568310	processed_transcript	KNOWN	None	43019	None	None	55669222	55790539	-1	None	None
2	MTND5P24	ENSG00000224852	ENST00000438892	processed_pseudogene	KNOWN	None	42286	None	None	143852358	143854124	-1	None	None
HSCHR6_MHC_SSTO	TRIM15	ENSG00000224145	ENST00000430090	protein_coding	KNOWN	None	16284	1398	465	30120587	30130067	1	ZNF178	ZNFB7, RNF93
HSCHR6_MHC_SSTO	TRIM15	ENSG00000224145	ENST00000440260	protein_coding	KNOWN	None	16284	491	162	30125684	30129326	1	ZNF178	ZNFB7, RNF93
HSCHR6_MHC_SSTO	TRIM15	ENSG00000224145	ENST00000469125	processed_transcript	KNOWN	None	16284	None	None	30125728	30130067	1	ZNF178	ZNFB7, RNF93
HSCHR6_MHC_SSTO	TRIM15	ENSG00000224145	ENST00000473556	retained_intron	KNOWN	None	16284	None	None	30127684	30128468	1	ZNF178	ZNFB7, RNF93
HSCHR6_MHC_SSTO	TRIM15	ENSG00000224145	ENST00000552836	protein_coding	KNOWN	None	16284	348	115	30121056	30129978	1	ZNF178	ZNFB7, RNF93
HSCHR6_MHC_SSTO	TRIM15	ENSG00000224145	ENST00000546888	protein_coding	KNOWN	None	16284	1191	396	30120577	30130060	1	ZNF178	ZNFB7, RNF93
8	None	ENSG00000241105	ENST00000473114	processed_pseudogene	KNOWN	None	None	None	None	71418486	71419053	-1	None	None
12	RNU4-24P	ENSG00000201435	ENST00000364565	snRNA	KNOWN	None	46960	None	None	96697153	96697291	-1	None	None
12	DGKA	ENSG00000065357	ENST00000546878	protein_coding	KNOWN	None	2849	174	57	56321103	56331227	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000546995	retained_intron	KNOWN	None	2849	None	None	56322039	56332376	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000547015	protein_coding	KNOWN	None	2849	64	20	56324212	56330351	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000331886	protein_coding	KNOWN	CCDS8896	2849	2208	735	56324756	56347799	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000555090	protein_coding	KNOWN	None	2849	132	43	56324873	56330868	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000549629	protein_coding	PUTATIVE	None	2849	284	93	56324946	56330816	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000555218	protein_coding	NOVEL	None	2849	1636	544	56324946	56346653	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000548479	retained_intron	KNOWN	None	2849	None	None	56324956	56330646	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000547324	retained_intron	KNOWN	None	2849	None	None	56324976	56331852	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000553084	nonsense_mediated_decay	KNOWN	None	2849	357	118	56324999	56345492	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000547358	retained_intron	KNOWN	None	2849	None	None	56325083	56334682	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000548549	nonsense_mediated_decay	KNOWN	None	2849	357	118	56325237	56332726	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000549368	protein_coding	KNOWN	None	2849	442	146	56325237	56332741	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000548407	retained_intron	KNOWN	None	2849	None	None	56325256	56332664	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000555025	protein_coding	KNOWN	None	2849	132	43	56325573	56330868	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000551615	retained_intron	KNOWN	None	2849	None	None	56325835	56331874	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000547535	retained_intron	KNOWN	None	2849	None	None	56325835	56332342	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000549323	processed_transcript	KNOWN	None	2849	None	None	56325835	56332512	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000549097	retained_intron	KNOWN	None	2849	None	None	56325836	56333895	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000551156	protein_coding	KNOWN	CCDS8896	2849	2208	735	56325842	56347811	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000402956	nonsense_mediated_decay	KNOWN	None	2849	744	247	56325842	56347811	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000553783	protein_coding	KNOWN	None	2849	322	106	56325847	56331809	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000557080	protein_coding	KNOWN	None	2849	132	43	56325848	56330868	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000432422	protein_coding	KNOWN	None	2849	349	115	56325879	56331836	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000556001	protein_coding	KNOWN	None	2849	400	132	56325892	56332345	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000550115	processed_transcript	KNOWN	None	2849	None	None	56325919	56327392	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000548378	processed_transcript	KNOWN	None	2849	None	None	56325947	56329186	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000551296	retained_intron	KNOWN	None	2849	None	None	56329120	56347805	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000551707	protein_coding	KNOWN	None	2849	399	132	56329618	56332344	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000552478	retained_intron	KNOWN	None	2849	None	None	56329931	56347805	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000550888	nonsense_mediated_decay	KNOWN	None	2849	351	116	56330232	56333074	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000556344	retained_intron	KNOWN	None	2849	None	None	56331309	56333399	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000549079	processed_transcript	KNOWN	None	2849	None	None	56331762	56347579	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000551739	retained_intron	KNOWN	None	2849	None	None	56332043	56347798	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000549085	retained_intron	KNOWN	None	2849	None	None	56332337	56333326	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000552687	retained_intron	KNOWN	None	2849	None	None	56332436	56333679	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000546895	retained_intron	KNOWN	None	2849	None	None	56332474	56333399	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000549986	retained_intron	KNOWN	None	2849	None	None	56332532	56333954	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000552335	retained_intron	KNOWN	None	2849	None	None	56332587	56334366	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000548047	retained_intron	KNOWN	None	2849	None	None	56332722	56336432	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000554434	retained_intron	KNOWN	None	2849	None	None	56333065	56335110	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000557180	nonsense_mediated_decay	KNOWN	None	2849	294	97	56333259	56335821	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000552652	retained_intron	KNOWN	None	2849	None	None	56333271	56334778	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000550484	retained_intron	KNOWN	None	2849	None	None	56333699	56334294	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000552903	protein_coding	NOVEL	None	2849	607	201	56334759	56346551	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000551585	retained_intron	KNOWN	None	2849	None	None	56335069	56346194	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000550957	retained_intron	KNOWN	None	2849	None	None	56346712	56347231	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000548491	retained_intron	KNOWN	None	2849	None	None	56346988	56347794	1	DAGK, DAGK1	DGK-alpha
12	DGKA	ENSG00000065357	ENST00000394147	protein_coding	KNOWN	CCDS8896	2849	2208	735	56325812	56347805	1	DAGK, DAGK1	DGK-alpha
12	TCTN2	ENSG00000168778	ENST00000541523	nonsense_mediated_decay	KNOWN	None	25774	183	60	124155660	124158296	1	C12orf38	FLJ12975, TECT2, MKS8
12	TCTN2	ENSG00000168778	ENST00000426174	protein_coding	KNOWN	CCDS45007	25774	2091	696	124155660	124192554	1	C12orf38	FLJ12975, TECT2, MKS8
12	TCTN2	ENSG00000168778	ENST00000303372	protein_coding	KNOWN	CCDS9253	25774	2094	697	124155660	124192948	1	C12orf38	FLJ12975, TECT2, MKS8
12	TCTN2	ENSG00000168778	ENST00000543998	retained_intron	KNOWN	None	25774	None	None	124179587	124191782	1	C12orf38	FLJ12975, TECT2, MKS8
17	None	ENSG00000264172	ENST00000582370	processed_pseudogene	KNOWN	None	None	None	None	25329687	25330285	-1	None	None
2	SNORD70	ENSG00000212534	ENST00000391232	snoRNA	KNOWN	None	32731	None	None	203141154	203141241	1	None	HBII-234
2	MTND4P22	ENSG00000232772	ENST00000413116	processed_pseudogene	KNOWN	None	42209	None	None	143854408	143855576	-1	None	None
1	RBMXL1	ENSG00000213516	ENST00000321792	protein_coding	KNOWN	CCDS716	25073	1173	390	89445139	89458455	-1	None	KAT3
1	RBMXL1	ENSG00000213516	ENST00000413769	processed_transcript	KNOWN	None	25073	None	None	89449034	89458442	-1	None	KAT3
1	RBMXL1	ENSG00000213516	ENST00000399794	protein_coding	KNOWN	CCDS716	25073	1173	390	89445142	89458643	-1	None	KAT3
15	GOLGA8Q	ENSG00000178115	ENST00000562783	protein_coding	KNOWN	None	44408	1899	632	30844281	30854704	1	None	None
15	GOLGA8Q	ENSG00000178115	ENST00000565941	processed_transcript	PUTATIVE	None	44408	None	None	30850450	30851732	1	None	None
15	GOLGA8Q	ENSG00000178115	ENST00000333156	protein_coding	KNOWN	None	44408	888	295	30844183	30851659	1	None	None
2	None	ENSG00000212309	ENST00000391007	snoRNA	NOVEL	None	None	None	None	203142831	203142915	1	None	None
20	MIR296	ENSG00000268649	ENST00000596276	lincRNA	KNOWN	None	31617	None	None	57392187	57392780	-1	MIRN296	hsa-mir-296
20	MIR296	ENSG00000268649	ENST00000385215	miRNA	KNOWN	None	31617	None	None	57392670	57392749	-1	MIRN296	hsa-mir-296
1	HES3	ENSG00000173673	ENST00000377898	protein_coding	KNOWN	CCDS41238	26226	561	186	6304252	6305638	1	None	bHLHb43
17	RPS6KB1	ENSG00000108443	ENST00000472940	nonsense_mediated_decay	KNOWN	None	10436	423	140	57970447	58024822	1	STK14A	S6K1, p70(S6K)-alpha, PS6K
17	RPS6KB1	ENSG00000108443	ENST00000477179	processed_transcript	KNOWN	None	10436	None	None	57970487	57991166	1	STK14A	S6K1, p70(S6K)-alpha, PS6K
17	RPS6KB1	ENSG00000108443	ENST00000443572	protein_coding	NOVEL	None	10436	1509	502	57970491	58024498	1	STK14A	S6K1, p70(S6K)-alpha, PS6K
17	RPS6KB1	ENSG00000108443	ENST00000489824	nonsense_mediated_decay	KNOWN	None	10436	159	52	57970499	58009053	1	STK14A	S6K1, p70(S6K)-alpha, PS6K
17	RPS6KB1	ENSG00000108443	ENST00000406116	protein_coding	NOVEL	None	10436	1356	451	57970506	58025549	1	STK14A	S6K1, p70(S6K)-alpha, PS6K
17	RPS6KB1	ENSG00000108443	ENST00000225577	protein_coding	KNOWN	CCDS11621	10436	1578	525	57970525	58027925	1	STK14A	S6K1, p70(S6K)-alpha, PS6K
17	RPS6KB1	ENSG00000108443	ENST00000592726	protein_coding	PUTATIVE	None	10436	187	61	57984349	57992029	1	STK14A	S6K1, p70(S6K)-alpha, PS6K
17	RPS6KB1	ENSG00000108443	ENST00000587622	retained_intron	KNOWN	None	10436	None	None	58008681	58011883	1	STK14A	S6K1, p70(S6K)-alpha, PS6K
17	RPS6KB1	ENSG00000108443	ENST00000590928	retained_intron	KNOWN	None	10436	None	None	58011506	58012398	1	STK14A	S6K1, p70(S6K)-alpha, PS6K
17	RPS6KB1	ENSG00000108443	ENST00000475155	retained_intron	KNOWN	None	10436	None	None	58022552	58024302	1	STK14A	S6K1, p70(S6K)-alpha, PS6K
17	RPS6KB1	ENSG00000108443	ENST00000587061	processed_transcript	KNOWN	None	10436	None	None	58024939	58027781	1	STK14A	S6K1, p70(S6K)-alpha, PS6K
17	RPS6KB1	ENSG00000108443	ENST00000393021	protein_coding	KNOWN	None	10436	1419	472	57970600	58024542	1	STK14A	S6K1, p70(S6K)-alpha, PS6K
9	None	ENSG00000269907	ENST00000602494	processed_pseudogene	KNOWN	None	None	None	None	99672358	99672687	1	None	None
16	None	ENSG00000267070	ENST00000589323	lincRNA	KNOWN	None	None	None	None	5148740	5192596	1	None	None
17	None	ENSG00000266736	ENST00000583143	unprocessed_pseudogene	KNOWN	None	None	None	None	25346553	25374960	-1	None	None
3	None	ENSG00000200118	ENST00000363248	misc_RNA	NOVEL	None	None	None	None	169962570	169962669	1	None	None
2	SNORD11B	ENSG00000271852	ENST00000607707	snoRNA	KNOWN	None	33571	None	None	203156055	203156144	1	None	None
3	GNB4	ENSG00000114450	ENST00000232564	protein_coding	KNOWN	CCDS3230	20731	1023	340	179116990	179169378	-1	None	None
3	GNB4	ENSG00000114450	ENST00000466899	protein_coding	PUTATIVE	None	20731	496	164	179118637	179134314	-1	None	None
3	GNB4	ENSG00000114450	ENST00000468623	protein_coding	KNOWN	CCDS3230	20731	1023	340	179118875	179168933	-1	None	None
3	GNB4	ENSG00000114450	ENST00000465153	processed_transcript	PUTATIVE	None	20731	None	None	179128113	179131518	-1	None	None
3	GNB4	ENSG00000114450	ENST00000497513	protein_coding	KNOWN	None	20731	239	78	179134309	179169264	-1	None	None
2	SNORD11	ENSG00000238317	ENST00000459124	snoRNA	KNOWN	None	32707	None	None	203157772	203157859	1	None	HBII-95
1	None	ENSG00000225126	ENST00000440032	antisense	KNOWN	None	None	None	None	7501156	7501614	-1	None	None
X	PAGE4	ENSG00000101951	ENST00000376141	protein_coding	KNOWN	CCDS35274	4108	309	102	49593863	49598576	1	GAGEC1	PAGE-4, CT16.7
X	PAGE4	ENSG00000101951	ENST00000218068	protein_coding	KNOWN	CCDS35274	4108	309	102	49593906	49598576	1	GAGEC1	PAGE-4, CT16.7
X	PAGE4	ENSG00000101951	ENST00000478785	processed_transcript	KNOWN	None	4108	None	None	49593951	49595934	1	GAGEC1	PAGE-4, CT16.7
X	PAGE4	ENSG00000101951	ENST00000474146	processed_transcript	KNOWN	None	4108	None	None	49595287	49598570	1	GAGEC1	PAGE-4, CT16.7
14	None	ENSG00000232018	ENST00000423708	lincRNA	KNOWN	None	None	None	None	101426846	101432103	1	None	None
14	None	ENSG00000232018	ENST00000442197	lincRNA	KNOWN	None	None	None	None	101427364	101433377	1	None	None
2	None	ENSG00000236300	ENST00000448237	processed_pseudogene	KNOWN	None	None	None	None	143855692	143855986	-1	None	None
2	RN7SL753P	ENSG00000264275	ENST00000581238	misc_RNA	KNOWN	None	46769	None	None	203198162	203198451	1	None	None
11	TRIM49	ENSG00000168930	ENST00000329758	protein_coding	KNOWN	CCDS8287	13431	1359	452	89530823	89541743	-1	RNF18	TRIM49A
11	TRIM49	ENSG00000168930	ENST00000532501	protein_coding	NOVEL	None	13431	1128	375	89531115	89540388	-1	RNF18	TRIM49A
12	None	ENSG00000257169	ENST00000547580	processed_pseudogene	KNOWN	None	None	None	None	96780596	96780972	-1	None	None
8	RNU4-37P	ENSG00000222146	ENST00000410214	snRNA	KNOWN	None	46973	None	None	113160971	113161054	-1	None	None
19	KLK7	ENSG00000169035	ENST00000304045	nonsense_mediated_decay	KNOWN	None	6368	201	66	51479738	51487355	-1	PRSS6	SCCE
19	KLK7	ENSG00000169035	ENST00000595820	protein_coding	KNOWN	CCDS12812	6368	762	253	51480044	51487294	-1	PRSS6	SCCE
19	KLK7	ENSG00000169035	ENST00000597707	protein_coding	KNOWN	CCDS59414	6368	546	181	51480615	51487294	-1	PRSS6	SCCE
19	KLK7	ENSG00000169035	ENST00000593904	protein_coding	KNOWN	None	6368	207	68	51483542	51487170	-1	PRSS6	SCCE
19	KLK7	ENSG00000169035	ENST00000595638	processed_transcript	KNOWN	None	6368	None	None	51485351	51487320	-1	PRSS6	SCCE
19	KLK7	ENSG00000169035	ENST00000391807	protein_coding	KNOWN	CCDS12812	6368	762	253	51479729	51487071	-1	PRSS6	SCCE
19	KLK7	ENSG00000169035	ENST00000336317	protein_coding	KNOWN	None	6368	423	140	51480339	51487320	-1	PRSS6	SCCE
17	VN1R71P	ENSG00000264837	ENST00000582254	processed_pseudogene	KNOWN	None	37392	None	None	25384425	25385247	1	None	None
2	None	ENSG00000226261	ENST00000405197	processed_pseudogene	KNOWN	None	None	None	None	203200747	203201450	-1	None	None
X	SOWAHD	ENSG00000187808	ENST00000343905	protein_coding	KNOWN	CCDS43984	32960	948	315	118892576	118894164	1	ANKRD58	None
8	None	ENSG00000264794	ENST00000582664	miRNA	NOVEL	None	None	None	None	113487830	113487915	1	None	None
14	LINC00341	ENSG00000229645	ENST00000464767	lincRNA	KNOWN	None	20353	None	None	95873606	95876427	-1	C14orf139, NCRNA00341	None
14	LINC00341	ENSG00000229645	ENST00000541579	lincRNA	KNOWN	None	20353	None	None	95875407	95875976	-1	C14orf139, NCRNA00341	None
17	SDK2	ENSG00000069188	ENST00000392650	protein_coding	KNOWN	CCDS45769	19308	6519	2172	71330523	71640228	-1	None	FLJ10832, KIAA1514
17	SDK2	ENSG00000069188	ENST00000424778	protein_coding	NOVEL	None	19308	3990	1329	71334078	71410794	-1	None	FLJ10832, KIAA1514
17	SDK2	ENSG00000069188	ENST00000410094	processed_transcript	KNOWN	None	19308	None	None	71334582	71365352	-1	None	FLJ10832, KIAA1514
17	SDK2	ENSG00000069188	ENST00000479356	retained_intron	KNOWN	None	19308	None	None	71353509	71433908	-1	None	FLJ10832, KIAA1514
17	SDK2	ENSG00000069188	ENST00000585283	processed_transcript	PUTATIVE	None	19308	None	None	71500479	71503733	-1	None	FLJ10832, KIAA1514
17	SDK2	ENSG00000069188	ENST00000388726	protein_coding	KNOWN	None	19308	6462	2153	71330524	71640227	-1	None	FLJ10832, KIAA1514
13	None	ENSG00000205850	ENST00000422229	protein_coding	KNOWN	None	None	303	100	24895264	24895566	-1	None	None
8	RPL30P16	ENSG00000230169	ENST00000419341	processed_pseudogene	KNOWN	None	48340	None	None	113551118	113551546	1	None	None
5	PURA	ENSG00000185129	ENST00000505703	processed_transcript	PUTATIVE	None	9701	None	None	139487362	139493898	1	None	PURALPHA, PUR1, PUR-ALPHA
5	PURA	ENSG00000185129	ENST00000502351	processed_transcript	PUTATIVE	None	9701	None	None	139492513	139493845	1	None	PURALPHA, PUR1, PUR-ALPHA
5	PURA	ENSG00000185129	ENST00000331327	protein_coding	KNOWN	CCDS4220	9701	969	322	139493708	139496321	1	None	PURALPHA, PUR1, PUR-ALPHA
5	None	ENSG00000249150	ENST00000508636	lincRNA	KNOWN	None	None	None	None	116156689	116165883	-1	None	None
HSCHR6_MHC_SSTO	C6orf10	ENSG00000232106	ENST00000451857	protein_coding	KNOWN	None	13922	1689	562	32267412	32346296	-1	None	TSBP
HSCHR6_MHC_SSTO	C6orf10	ENSG00000232106	ENST00000457429	protein_coding	KNOWN	None	13922	1692	563	32267412	32346268	-1	None	TSBP
16	MAPK8IP3	ENSG00000138834	ENST00000250894	protein_coding	KNOWN	CCDS10442	6884	4011	1336	1756184	1820318	1	None	KIAA1066, JSAP1, JIP3, syd
16	MAPK8IP3	ENSG00000138834	ENST00000356010	protein_coding	KNOWN	CCDS45379	6884	3993	1330	1756194	1819141	1	None	KIAA1066, JSAP1, JIP3, syd
16	MAPK8IP3	ENSG00000138834	ENST00000564098	retained_intron	KNOWN	None	6884	None	None	1756242	1797070	1	None	KIAA1066, JSAP1, JIP3, syd
16	MAPK8IP3	ENSG00000138834	ENST00000561765	retained_intron	KNOWN	None	6884	None	None	1756380	1797068	1	None	KIAA1066, JSAP1, JIP3, syd
16	MAPK8IP3	ENSG00000138834	ENST00000568271	processed_transcript	KNOWN	None	6884	None	None	1794040	1798727	1	None	KIAA1066, JSAP1, JIP3, syd
16	MAPK8IP3	ENSG00000138834	ENST00000568774	retained_intron	KNOWN	None	6884	None	None	1797069	1798801	1	None	KIAA1066, JSAP1, JIP3, syd
16	MAPK8IP3	ENSG00000138834	ENST00000567849	nonsense_mediated_decay	KNOWN	None	6884	208	68	1797069	1810344	1	None	KIAA1066, JSAP1, JIP3, syd
16	MAPK8IP3	ENSG00000138834	ENST00000566589	retained_intron	KNOWN	None	6884	None	None	1809952	1814319	1	None	KIAA1066, JSAP1, JIP3, syd
16	MAPK8IP3	ENSG00000138834	ENST00000570131	retained_intron	KNOWN	None	6884	None	None	1812894	1813897	1	None	KIAA1066, JSAP1, JIP3, syd
16	MAPK8IP3	ENSG00000138834	ENST00000561949	retained_intron	KNOWN	None	6884	None	None	1813923	1815054	1	None	KIAA1066, JSAP1, JIP3, syd
16	MAPK8IP3	ENSG00000138834	ENST00000567352	retained_intron	KNOWN	None	6884	None	None	1816173	1816972	1	None	KIAA1066, JSAP1, JIP3, syd
16	MAPK8IP3	ENSG00000138834	ENST00000562042	retained_intron	KNOWN	None	6884	None	None	1816835	1817341	1	None	KIAA1066, JSAP1, JIP3, syd
16	MAPK8IP3	ENSG00000138834	ENST00000564868	retained_intron	KNOWN	None	6884	None	None	1817159	1818552	1	None	KIAA1066, JSAP1, JIP3, syd
16	MAPK8IP3	ENSG00000138834	ENST00000566064	retained_intron	KNOWN	None	6884	None	None	1817268	1817847	1	None	KIAA1066, JSAP1, JIP3, syd
16	MAPK8IP3	ENSG00000138834	ENST00000563868	retained_intron	KNOWN	None	6884	None	None	1817958	1819021	1	None	KIAA1066, JSAP1, JIP3, syd
15	None	ENSG00000206903	ENST00000384176	snoRNA	NOVEL	None	None	None	None	65577799	65577929	-1	None	None
1	GLTPD1	ENSG00000224051	ENST00000464957	processed_transcript	KNOWN	None	28116	None	None	1260136	1263374	1	None	MGC10334
1	GLTPD1	ENSG00000224051	ENST00000343938	protein_coding	KNOWN	CCDS30555	28116	645	214	1260147	1264277	1	None	MGC10334
1	GLTPD1	ENSG00000224051	ENST00000488011	protein_coding	KNOWN	None	28116	353	116	1260621	1262851	1	None	MGC10334
1	FCGR3A	ENSG00000203747	ENST00000367969	protein_coding	KNOWN	CCDS1232	3619	873	290	161511549	161519818	-1	FCGR3, FCG3	CD16, CD16a
1	FCGR3A	ENSG00000203747	ENST00000367967	protein_coding	KNOWN	CCDS44266	3619	765	254	161511586	161520381	-1	FCGR3, FCG3	CD16, CD16a
1	FCGR3A	ENSG00000203747	ENST00000426740	protein_coding	KNOWN	None	3619	815	270	161511645	161519579	-1	FCGR3, FCG3	CD16, CD16a
1	FCGR3A	ENSG00000203747	ENST00000476031	processed_transcript	KNOWN	None	3619	None	None	161515189	161519520	-1	FCGR3, FCG3	CD16, CD16a
1	FCGR3A	ENSG00000203747	ENST00000442336	protein_coding	KNOWN	None	3619	316	104	161518211	161520527	-1	FCGR3, FCG3	CD16, CD16a
1	FCGR3A	ENSG00000203747	ENST00000540048	protein_coding	KNOWN	None	3619	765	254	161512713	161600917	-1	FCGR3, FCG3	CD16, CD16a
1	FCGR3A	ENSG00000203747	ENST00000443193	protein_coding	KNOWN	CCDS44265	3619	870	289	161511555	161519818	-1	FCGR3, FCG3	CD16, CD16a
1	FCGR3A	ENSG00000203747	ENST00000436743	protein_coding	KNOWN	CCDS44266	3619	765	254	161511555	161520413	-1	FCGR3, FCG3	CD16, CD16a
8	None	ENSG00000253821	ENST00000520370	lincRNA	KNOWN	None	None	None	None	58405443	58458502	1	None	None
8	None	ENSG00000253821	ENST00000520881	lincRNA	KNOWN	None	None	None	None	58405458	58504118	1	None	None
19	None	ENSG00000268516	ENST00000597230	antisense	KNOWN	None	None	None	None	58768639	58790174	-1	None	None
X	RPL39	ENSG00000198918	ENST00000477403	processed_transcript	KNOWN	None	10350	None	None	118920467	118921419	-1	RPL39P42	L39
X	RPL39	ENSG00000198918	ENST00000468844	processed_transcript	KNOWN	None	10350	None	None	118920469	118925558	-1	RPL39P42	L39
X	RPL39	ENSG00000198918	ENST00000361575	protein_coding	KNOWN	CCDS14586	10350	156	51	118920469	118925606	-1	RPL39P42	L39
9	OR13C4	ENSG00000148136	ENST00000277216	protein_coding	KNOWN	CCDS35088	14722	957	318	107288534	107289490	-1	None	None
2	RN7SL40P	ENSG00000242696	ENST00000474689	misc_RNA	KNOWN	None	46056	None	None	203221844	203222140	-1	None	None
19	None	ENSG00000268201	ENST00000595301	sense_intronic	KNOWN	None	None	None	None	58778001	58779051	1	None	None
HG1133_PATCH	None	ENSG00000272289	ENST00000570955	processed_pseudogene	NOVEL	None	None	None	None	11047542	11048481	-1	None	None
15	RNU5A-1	ENSG00000199568	ENST00000362698	snRNA	KNOWN	None	10211	None	None	65588389	65588504	1	RNU5C, RNU5A	U5A, U5B1
2	None	ENSG00000270915	ENST00000603240	processed_pseudogene	KNOWN	None	None	None	None	203369735	203370066	-1	None	None
14	SNHG10	ENSG00000247092	ENST00000500370	antisense	KNOWN	None	27510	None	None	95998634	96001137	-1	C14orf62	FLJ40557, NCRNA00063, LINC00063
14	SNHG10	ENSG00000247092	ENST00000554169	antisense	KNOWN	None	27510	None	None	95998971	96000582	-1	C14orf62	FLJ40557, NCRNA00063, LINC00063
14	SNHG10	ENSG00000247092	ENST00000555866	antisense	KNOWN	None	27510	None	None	95999251	96000923	-1	C14orf62	FLJ40557, NCRNA00063, LINC00063
14	SNHG10	ENSG00000247092	ENST00000553559	antisense	KNOWN	None	27510	None	None	95999251	96001209	-1	C14orf62	FLJ40557, NCRNA00063, LINC00063
15	None	ENSG00000259346	ENST00000559536	processed_pseudogene	KNOWN	None	None	None	None	65594260	65594649	1	None	None
1	None	ENSG00000270171	ENST00000602640	lincRNA	KNOWN	None	None	None	None	7753184	7754904	-1	None	None
16	None	ENSG00000264479	ENST00000583256	miRNA	NOVEL	None	None	None	None	34442877	34442942	1	None	None
14	TRAV4	ENSG00000211778	ENST00000390426	TR_V_gene	KNOWN	None	12140	328	108	22204434	22205264	1	None	TCRAV20S1, TCRAV4S1
2	None	ENSG00000236047	ENST00000435125	processed_pseudogene	KNOWN	None	None	None	None	203385124	203385712	1	None	None
19	ERVK3-1	ENSG00000142396	ENST00000413518	lincRNA	KNOWN	None	30466	None	None	58816715	58827023	1	None	HERV-K(HML6-1)
19	ERVK3-1	ENSG00000142396	ENST00000427361	lincRNA	KNOWN	None	30466	None	None	58816740	58826568	1	None	HERV-K(HML6-1)
19	ERVK3-1	ENSG00000142396	ENST00000434052	retained_intron	KNOWN	None	30466	None	None	58816743	58818000	1	None	HERV-K(HML6-1)
19	ERVK3-1	ENSG00000142396	ENST00000590505	retained_intron	KNOWN	None	30466	None	None	58820396	58826569	1	None	HERV-K(HML6-1)
16	RARRES2P5	ENSG00000260967	ENST00000564013	processed_pseudogene	KNOWN	None	48704	None	None	34455954	34456419	-1	None	None
10	MIR3156-1	ENSG00000263476	ENST00000579389	miRNA	KNOWN	None	38241	None	None	45659462	45659536	1	None	hsa-mir-3156-1
Y	TAB3P1	ENSG00000235462	ENST00000452645	transcribed_unprocessed_pseudogene	KNOWN	None	37723	None	None	15265842	15274125	-1	None	None
Y	TAB3P1	ENSG00000235462	ENST00000439217	processed_transcript	KNOWN	None	37723	None	None	15271184	15273460	-1	None	None
9	OR13C3	ENSG00000204246	ENST00000374781	protein_coding	KNOWN	CCDS35089	14704	1044	347	107298030	107299137	-1	None	None
6	GPR110	ENSG00000153292	ENST00000371253	protein_coding	KNOWN	CCDS34471	18990	2733	910	46965440	47010099	-1	None	hGPCR36, PGR19
6	GPR110	ENSG00000153292	ENST00000477858	retained_intron	KNOWN	None	18990	None	None	46967770	46969709	-1	None	hGPCR36, PGR19
6	GPR110	ENSG00000153292	ENST00000419892	retained_intron	KNOWN	None	18990	None	None	46967828	47009993	-1	None	hGPCR36, PGR19
6	GPR110	ENSG00000153292	ENST00000449332	processed_transcript	KNOWN	None	18990	None	None	46967848	46996826	-1	None	hGPCR36, PGR19
6	GPR110	ENSG00000153292	ENST00000475745	nonsense_mediated_decay	KNOWN	None	18990	483	160	46979847	46993728	-1	None	hGPCR36, PGR19
6	GPR110	ENSG00000153292	ENST00000471487	retained_intron	KNOWN	None	18990	None	None	46980523	47010086	-1	None	hGPCR36, PGR19
6	GPR110	ENSG00000153292	ENST00000493249	retained_intron	KNOWN	None	18990	None	None	46984353	46992034	-1	None	hGPCR36, PGR19
6	GPR110	ENSG00000153292	ENST00000487323	nonsense_mediated_decay	KNOWN	None	18990	412	136	46984428	46993636	-1	None	hGPCR36, PGR19
6	GPR110	ENSG00000153292	ENST00000371243	protein_coding	KNOWN	CCDS4920	18990	657	218	46987622	47010030	-1	None	hGPCR36, PGR19
6	GPR110	ENSG00000153292	ENST00000491283	retained_intron	KNOWN	None	18990	None	None	46987789	47010006	-1	None	hGPCR36, PGR19
6	GPR110	ENSG00000153292	ENST00000477771	processed_transcript	KNOWN	None	18990	None	None	46987790	47010006	-1	None	hGPCR36, PGR19
6	GPR110	ENSG00000153292	ENST00000474800	processed_transcript	KNOWN	None	18990	None	None	46988516	47010020	-1	None	hGPCR36, PGR19
6	GPR110	ENSG00000153292	ENST00000283297	protein_coding	KNOWN	None	18990	2142	713	46967959	46986235	-1	None	hGPCR36, PGR19
5	None	ENSG00000250650	ENST00000504977	processed_pseudogene	KNOWN	None	None	None	None	116355244	116355375	-1	None	None
3	None	ENSG00000239628	ENST00000466291	lincRNA	KNOWN	None	None	None	None	170063466	170071749	1	None	None
HSCHR4_1	None	ENSG00000258085	ENST00000551239	protein_coding	KNOWN	None	None	1593	530	69394991	69419037	-1	None	None
HSCHR21_4_CTG1_1	GART	ENSG00000262473	ENST00000574289	protein_coding	PUTATIVE	None	4163	672	223	34880498	34893222	-1	PRGS, PGFT	None
HSCHR21_4_CTG1_1	GART	ENSG00000262473	ENST00000575239	protein_coding	PUTATIVE	None	4163	67	21	34880498	34916541	-1	PRGS, PGFT	None
HSCHR21_4_CTG1_1	GART	ENSG00000262473	ENST00000573055	protein_coding	KNOWN	None	4163	3033	1010	34885796	34924002	-1	PRGS, PGFT	None
HSCHR21_4_CTG1_1	GART	ENSG00000262473	ENST00000571089	protein_coding	KNOWN	None	4163	3033	1010	34885796	34924706	-1	PRGS, PGFT	None
HSCHR21_4_CTG1_1	GART	ENSG00000262473	ENST00000575273	protein_coding	KNOWN	None	4163	3033	1010	34885796	34924725	-1	PRGS, PGFT	None
HSCHR21_4_CTG1_1	GART	ENSG00000262473	ENST00000574017	nonsense_mediated_decay	KNOWN	None	4163	921	306	34885798	34924756	-1	PRGS, PGFT	None
HSCHR21_4_CTG1_1	GART	ENSG00000262473	ENST00000574160	retained_intron	KNOWN	None	4163	None	None	34887905	34892198	-1	PRGS, PGFT	None
HSCHR21_4_CTG1_1	GART	ENSG00000262473	ENST00000570410	retained_intron	KNOWN	None	4163	None	None	34891053	34893169	-1	PRGS, PGFT	None
HSCHR21_4_CTG1_1	GART	ENSG00000262473	ENST00000574071	processed_transcript	KNOWN	None	4163	None	None	34902387	34906693	-1	PRGS, PGFT	None
HSCHR21_4_CTG1_1	GART	ENSG00000262473	ENST00000575462	retained_intron	KNOWN	None	4163	None	None	34904056	34910628	-1	PRGS, PGFT	None
HSCHR21_4_CTG1_1	GART	ENSG00000262473	ENST00000574893	protein_coding	KNOWN	None	4163	1302	433	34905874	34923978	-1	PRGS, PGFT	None
HSCHR21_4_CTG1_1	GART	ENSG00000262473	ENST00000574613	nonsense_mediated_decay	KNOWN	None	4163	437	144	34910130	34916494	-1	PRGS, PGFT	None
HSCHR21_4_CTG1_1	GART	ENSG00000262473	ENST00000571247	retained_intron	KNOWN	None	4163	None	None	34910427	34913146	-1	PRGS, PGFT	None
HSCHR21_4_CTG1_1	GART	ENSG00000262473	ENST00000576278	processed_transcript	PUTATIVE	None	4163	None	None	34912574	34916543	-1	PRGS, PGFT	None
HSCHR21_4_CTG1_1	GART	ENSG00000262473	ENST00000573335	protein_coding	KNOWN	None	4163	723	240	34912623	34925355	-1	PRGS, PGFT	None
HSCHR21_4_CTG1_1	GART	ENSG00000262473	ENST00000574667	protein_coding	KNOWN	None	4163	695	230	34912651	34924657	-1	PRGS, PGFT	None
HSCHR21_4_CTG1_1	GART	ENSG00000262473	ENST00000573880	retained_intron	KNOWN	None	4163	None	None	34913200	34923943	-1	PRGS, PGFT	None
HSCHR21_4_CTG1_1	GART	ENSG00000262473	ENST00000572773	retained_intron	KNOWN	None	4163	None	None	34913637	34916536	-1	PRGS, PGFT	None
HSCHR21_4_CTG1_1	GART	ENSG00000262473	ENST00000575886	protein_coding	KNOWN	None	4163	416	137	34916443	34924684	-1	PRGS, PGFT	None
HSCHR21_4_CTG1_1	GART	ENSG00000262473	ENST00000576564	protein_coding	KNOWN	None	4163	408	135	34916451	34924227	-1	PRGS, PGFT	None
6	HMGN3	ENSG00000118418	ENST00000344726	protein_coding	KNOWN	CCDS4988	12312	300	99	79910962	79944406	-1	TRIP7	None
6	HMGN3	ENSG00000118418	ENST00000275036	protein_coding	KNOWN	CCDS4989	12312	234	77	79910962	79944406	-1	TRIP7	None
15	DNM1P35	ENSG00000246877	ENST00000501931	antisense	KNOWN	None	35182	None	None	76020011	76030964	-1	DNM1DN8@	DNM1DN8-2
20	ADIG	ENSG00000182035	ENST00000470147	nonsense_mediated_decay	KNOWN	CCDS54461	28606	243	80	37209838	37217106	1	None	MGC39724, SMAF1, RP5-1100H13.2
20	ADIG	ENSG00000182035	ENST00000373348	protein_coding	PUTATIVE	None	28606	180	59	37209849	37214338	1	None	MGC39724, SMAF1, RP5-1100H13.2
20	ADIG	ENSG00000182035	ENST00000416116	protein_coding	PUTATIVE	None	28606	539	178	37209949	37217106	1	None	MGC39724, SMAF1, RP5-1100H13.2
20	ADIG	ENSG00000182035	ENST00000537425	protein_coding	KNOWN	None	28606	579	192	37209838	37217104	1	None	MGC39724, SMAF1, RP5-1100H13.2
9	None	ENSG00000227257	ENST00000416300	processed_pseudogene	KNOWN	None	None	None	None	99681210	99681600	1	None	None
1	GPR153	ENSG00000158292	ENST00000377893	protein_coding	KNOWN	CCDS64	23618	1830	609	6307406	6321035	-1	None	PGR1
16	FGFR3P5	ENSG00000260984	ENST00000564496	unprocessed_pseudogene	KNOWN	None	37950	None	None	34466783	34470355	-1	None	None
15	RNU5B-1	ENSG00000200156	ENST00000363286	snRNA	KNOWN	None	10212	None	None	65597015	65597130	1	RNU5B	U5B1
8	MIR378D2	ENSG00000264448	ENST00000607097	lincRNA	KNOWN	None	41797	None	None	94927962	94928910	-1	None	hsa-mir-378d-2
8	MIR378D2	ENSG00000264448	ENST00000580636	miRNA	KNOWN	None	41797	None	None	94928250	94928347	-1	None	hsa-mir-378d-2
9	YRDCP2	ENSG00000236745	ENST00000424606	processed_pseudogene	KNOWN	None	39920	None	None	99717102	99717743	1	None	None
14	SNORD114-7	ENSG00000199390	ENST00000362520	snoRNA	KNOWN	None	32995	None	None	101429391	101429467	1	None	14q(II-7)
Y	DPPA2P1	ENSG00000223915	ENST00000428060	processed_pseudogene	KNOWN	None	38448	None	None	15342765	15343320	1	None	None
X	USP27X	ENSG00000242013	ENST00000508866	protein_coding	KNOWN	None	13486	1317	438	49644470	49647166	1	None	USP27
8	RNU7-174P	ENSG00000252057	ENST00000516248	snRNA	KNOWN	None	45708	None	None	58469144	58469195	1	None	None
14	KTN1	ENSG00000126777	ENST00000557267	protein_coding	KNOWN	None	6467	182	59	56025790	56078948	1	None	KIAA0004, CG1
14	KTN1	ENSG00000126777	ENST00000554567	protein_coding	PUTATIVE	None	6467	43	13	56046928	56104059	1	None	KIAA0004, CG1
14	KTN1	ENSG00000126777	ENST00000555498	protein_coding	KNOWN	None	6467	225	74	56046972	56078991	1	None	KIAA0004, CG1
14	KTN1	ENSG00000126777	ENST00000438792	protein_coding	KNOWN	CCDS41958	6467	3903	1300	56047033	56151297	1	None	KIAA0004, CG1
14	KTN1	ENSG00000126777	ENST00000395314	protein_coding	KNOWN	CCDS41957	6467	4074	1357	56047035	56151297	1	None	KIAA0004, CG1
14	KTN1	ENSG00000126777	ENST00000459737	nonsense_mediated_decay	KNOWN	None	6467	4074	1357	56047040	56151297	1	None	KIAA0004, CG1
14	KTN1	ENSG00000126777	ENST00000395308	protein_coding	PUTATIVE	None	6467	3921	1306	56047042	56147436	1	None	KIAA0004, CG1
14	KTN1	ENSG00000126777	ENST00000395311	protein_coding	KNOWN	CCDS41959	6467	3921	1306	56068510	56151297	1	None	KIAA0004, CG1
14	KTN1	ENSG00000126777	ENST00000553360	nonsense_mediated_decay	KNOWN	None	6467	462	153	56108467	56128304	1	None	KIAA0004, CG1
14	KTN1	ENSG00000126777	ENST00000554507	protein_coding	PUTATIVE	None	6467	1788	595	56110993	56150978	1	None	KIAA0004, CG1
14	KTN1	ENSG00000126777	ENST00000554890	protein_coding	PUTATIVE	None	6467	487	161	56111004	56119593	1	None	KIAA0004, CG1
14	KTN1	ENSG00000126777	ENST00000555164	retained_intron	KNOWN	None	6467	None	None	56117353	56123065	1	None	KIAA0004, CG1
14	KTN1	ENSG00000126777	ENST00000554306	retained_intron	KNOWN	None	6467	None	None	56122818	56128575	1	None	KIAA0004, CG1
14	KTN1	ENSG00000126777	ENST00000554570	protein_coding	PUTATIVE	None	6467	274	90	56122820	56129914	1	None	KIAA0004, CG1
14	KTN1	ENSG00000126777	ENST00000553624	protein_coding	PUTATIVE	None	6467	482	159	56127967	56139415	1	None	KIAA0004, CG1
14	KTN1	ENSG00000126777	ENST00000555573	protein_coding	PUTATIVE	None	6467	1005	334	56127992	56151294	1	None	KIAA0004, CG1
14	KTN1	ENSG00000126777	ENST00000555172	retained_intron	KNOWN	None	6467	None	None	56130061	56151294	1	None	KIAA0004, CG1
14	KTN1	ENSG00000126777	ENST00000334975	retained_intron	KNOWN	None	6467	None	None	56134369	56151301	1	None	KIAA0004, CG1
14	KTN1	ENSG00000126777	ENST00000556631	retained_intron	KNOWN	None	6467	None	None	56138033	56151297	1	None	KIAA0004, CG1
14	KTN1	ENSG00000126777	ENST00000555506	retained_intron	KNOWN	None	6467	None	None	56138580	56141022	1	None	KIAA0004, CG1
14	KTN1	ENSG00000126777	ENST00000554294	protein_coding	PUTATIVE	None	6467	416	137	56139648	56168244	1	None	KIAA0004, CG1
14	KTN1	ENSG00000126777	ENST00000554831	retained_intron	KNOWN	None	6467	None	None	56141768	56150441	1	None	KIAA0004, CG1
14	KTN1	ENSG00000126777	ENST00000553710	nonsense_mediated_decay	KNOWN	None	6467	49	15	56146381	56150971	1	None	KIAA0004, CG1
14	KTN1	ENSG00000126777	ENST00000413890	protein_coding	KNOWN	CCDS41959	6467	3921	1306	56046925	56151301	1	None	KIAA0004, CG1
14	KTN1	ENSG00000126777	ENST00000395309	protein_coding	KNOWN	None	6467	4074	1357	56046925	56147408	1	None	KIAA0004, CG1
14	KTN1	ENSG00000126777	ENST00000416613	protein_coding	KNOWN	None	6467	4074	1357	56078695	56151301	1	None	KIAA0004, CG1
16	None	ENSG00000260431	ENST00000565115	processed_pseudogene	KNOWN	None	None	None	None	5257089	5257440	1	None	None
8	None	ENSG00000253322	ENST00000520426	lincRNA	KNOWN	None	None	None	None	58506725	58717588	-1	None	None
Y	PSMA6P1	ENSG00000215414	ENST00000400275	processed_pseudogene	KNOWN	None	17460	None	None	15398518	15399258	1	PSMA6P	PSMA6-LIKE, PSMA6Y
Y	PSMA6P1	ENSG00000215414	ENST00000536206	processed_pseudogene	KNOWN	None	17460	None	None	15398518	15399258	1	PSMA6P	PSMA6-LIKE, PSMA6Y
15	None	ENSG00000260288	ENST00000565686	lincRNA	KNOWN	None	None	None	None	76030161	76051073	1	None	None
15	None	ENSG00000260288	ENST00000569596	lincRNA	KNOWN	None	None	None	None	76050907	76055662	1	None	None
19	DPY19L3	ENSG00000178904	ENST00000592503	processed_transcript	KNOWN	None	27120	None	None	32896655	32918967	1	None	None
19	DPY19L3	ENSG00000178904	ENST00000587077	protein_coding	NOVEL	None	27120	309	102	32896696	32904090	1	None	None
19	DPY19L3	ENSG00000178904	ENST00000586987	protein_coding	NOVEL	None	27120	2067	688	32896786	32976801	1	None	None
19	DPY19L3	ENSG00000178904	ENST00000342179	protein_coding	KNOWN	CCDS12422	27120	2151	716	32897031	32976795	1	None	None
19	DPY19L3	ENSG00000178904	ENST00000586427	protein_coding	NOVEL	None	27120	378	125	32897095	32927401	1	None	None
19	DPY19L3	ENSG00000178904	ENST00000585597	retained_intron	KNOWN	None	27120	None	None	32929885	32954294	1	None	None
19	DPY19L3	ENSG00000178904	ENST00000588648	nonsense_mediated_decay	KNOWN	None	27120	928	308	32930123	32974232	1	None	None
19	DPY19L3	ENSG00000178904	ENST00000592142	retained_intron	KNOWN	None	27120	None	None	32949004	32976793	1	None	None
19	DPY19L3	ENSG00000178904	ENST00000592832	protein_coding	PUTATIVE	None	27120	404	133	32949310	32968562	1	None	None
19	DPY19L3	ENSG00000178904	ENST00000590651	processed_transcript	KNOWN	None	27120	None	None	32949375	32960025	1	None	None
19	DPY19L3	ENSG00000178904	ENST00000392250	protein_coding	KNOWN	CCDS12422	27120	2151	716	32896655	32976795	1	None	None
12	PEBP1	ENSG00000089220	ENST00000261313	protein_coding	KNOWN	CCDS9187	8630	564	187	118573663	118583389	1	PBP	RKIP, HCNP, PEBP
12	PEBP1	ENSG00000089220	ENST00000542939	processed_transcript	KNOWN	None	8630	None	None	118576822	118582914	1	PBP	RKIP, HCNP, PEBP
16	None	ENSG00000259897	ENST00000568299	unprocessed_pseudogene	KNOWN	None	None	None	None	34480287	34481905	-1	None	None
3	None	ENSG00000242578	ENST00000468232	lincRNA	KNOWN	None	None	None	None	170128300	170136403	1	None	None
1	None	ENSG00000270035	ENST00000602973	lincRNA	KNOWN	None	None	None	None	7758363	7758932	-1	None	None
14	TRAV5	ENSG00000211779	ENST00000390427	TR_V_gene	KNOWN	None	12143	340	112	22217462	22217989	1	None	None
2	None	ENSG00000223619	ENST00000411522	unprocessed_pseudogene	KNOWN	None	None	None	None	203478937	203479427	1	None	None
5	None	ENSG00000250949	ENST00000511418	lincRNA	KNOWN	None	None	None	None	116366896	116374265	1	None	None
Y	None	ENSG00000252694	ENST00000516885	miRNA	NOVEL	None	None	None	None	15779840	15779936	-1	None	None
16	CASKIN1	ENSG00000167971	ENST00000343516	protein_coding	KNOWN	CCDS42103	20879	4296	1431	2227184	2246526	-1	None	KIAA1306, ANKS5A
16	CASKIN1	ENSG00000167971	ENST00000564289	processed_transcript	PUTATIVE	None	20879	None	None	2231900	2235021	-1	None	KIAA1306, ANKS5A
16	CASKIN1	ENSG00000167971	ENST00000562055	retained_intron	KNOWN	None	20879	None	None	2238898	2239497	-1	None	KIAA1306, ANKS5A
22	None	ENSG00000252412	ENST00000516603	misc_RNA	NOVEL	None	None	None	None	37409266	37409360	1	None	None
5	C5orf34	ENSG00000172244	ENST00000306862	protein_coding	KNOWN	CCDS3946	24738	1917	638	43486803	43515247	-1	None	FLJ32363
5	C5orf34	ENSG00000172244	ENST00000506213	retained_intron	KNOWN	None	24738	None	None	43490431	43494707	-1	None	FLJ32363
5	C5orf34	ENSG00000172244	ENST00000503655	nonsense_mediated_decay	KNOWN	None	24738	380	125	43493651	43506108	-1	None	FLJ32363
5	C5orf34	ENSG00000172244	ENST00000509489	protein_coding	PUTATIVE	None	24738	686	227	43503767	43515126	-1	None	FLJ32363
5	C5orf34	ENSG00000172244	ENST00000514462	retained_intron	KNOWN	None	24738	None	None	43505652	43515180	-1	None	FLJ32363
8	PSMA2P2	ENSG00000251234	ENST00000504319	processed_pseudogene	KNOWN	None	43833	None	None	94951592	94955105	-1	None	None
22	RN7SKP214	ENSG00000201078	ENST00000364208	misc_RNA	KNOWN	None	45938	None	None	37451073	37451387	-1	None	None
3	CCR9	ENSG00000173585	ENST00000357632	protein_coding	KNOWN	CCDS2732	1610	1110	369	45927996	45944667	1	GPR28	GPR-9-6, CDw199
3	CCR9	ENSG00000173585	ENST00000395963	protein_coding	KNOWN	CCDS2733	1610	1074	357	45928001	45944666	1	GPR28	GPR-9-6, CDw199
3	CCR9	ENSG00000173585	ENST00000463197	retained_intron	KNOWN	None	1610	None	None	45928002	45936600	1	GPR28	GPR-9-6, CDw199
3	CCR9	ENSG00000173585	ENST00000422395	protein_coding	NOVEL	None	1610	324	107	45928041	45943390	1	GPR28	GPR-9-6, CDw199
3	CCR9	ENSG00000173585	ENST00000355983	protein_coding	KNOWN	CCDS2733	1610	1074	357	45928041	45943390	1	GPR28	GPR-9-6, CDw199
22	None	ENSG00000231467	ENST00000414203	antisense	KNOWN	None	None	None	None	37476108	37478887	1	None	None
Y	KALP	ENSG00000241859	ENST00000472227	transcribed_unprocessed_pseudogene	KNOWN	None	6214	None	None	15863536	16027704	1	ADMLY	KAL-Y
Y	KALP	ENSG00000241859	ENST00000460561	processed_transcript	KNOWN	None	6214	None	None	15864978	15983586	1	ADMLY	KAL-Y
19	ELANE	ENSG00000197561	ENST00000590230	protein_coding	KNOWN	CCDS12045	3309	804	267	851014	856242	1	ELA2	NE, HNE, HLE
19	ELANE	ENSG00000197561	ENST00000263621	protein_coding	KNOWN	CCDS12045	3309	804	267	852291	856242	1	ELA2	NE, HNE, HLE
13	PARP4	ENSG00000102699	ENST00000381989	protein_coding	KNOWN	CCDS9307	271	5175	1724	24995064	25086948	-1	ADPRTL1	VAULT3, p193, VPARP, VWA5C
13	PARP4	ENSG00000102699	ENST00000484989	retained_intron	KNOWN	None	271	None	None	25026110	25029272	-1	ADPRTL1	VAULT3, p193, VPARP, VWA5C
13	PARP4	ENSG00000102699	ENST00000480576	processed_transcript	PUTATIVE	None	271	None	None	25030535	25033620	-1	ADPRTL1	VAULT3, p193, VPARP, VWA5C
16	RARRES2P6	ENSG00000261010	ENST00000567333	processed_pseudogene	KNOWN	None	48705	None	None	34489563	34490004	-1	None	None
2	None	ENSG00000233888	ENST00000424336	unprocessed_pseudogene	KNOWN	None	None	None	None	203479576	203480252	1	None	None
22	None	ENSG00000252142	ENST00000516333	miRNA	NOVEL	None	None	None	None	37534064	37534123	1	None	None
22	None	ENSG00000235237	ENST00000419128	antisense	KNOWN	None	None	None	None	37562797	37578890	1	None	None
15	None	ENSG00000260815	ENST00000567565	processed_pseudogene	KNOWN	None	None	None	None	76039110	76039604	1	None	None
16	None	ENSG00000261752	ENST00000562979	processed_pseudogene	KNOWN	None	None	None	None	34493001	34494000	1	None	None
2	None	ENSG00000235433	ENST00000431030	unprocessed_pseudogene	KNOWN	None	None	None	None	203480492	203481163	1	None	None
4	None	ENSG00000270387	ENST00000604653	processed_pseudogene	KNOWN	None	None	None	None	148837680	148838537	-1	None	None
12	None	ENSG00000258272	ENST00000548740	lincRNA	KNOWN	None	None	None	None	96816104	96879220	-1	None	None
2	MTND3P9	ENSG00000227557	ENST00000429526	processed_pseudogene	KNOWN	None	42149	None	None	143856053	143856398	-1	None	None
22	None	ENSG00000226233	ENST00000436709	processed_pseudogene	KNOWN	None	None	None	None	37611778	37611931	-1	None	None
20	MIR298	ENSG00000216031	ENST00000401212	miRNA	KNOWN	None	33634	None	None	57393281	57393368	-1	MIRN298	hsa-mir-298
4	None	ENSG00000250354	ENST00000514843	antisense	KNOWN	None	None	None	None	149067622	149130031	1	None	None
16	None	ENSG00000221532	ENST00000408605	miRNA	NOVEL	None	None	None	None	34510863	34510964	1	None	None
2	None	ENSG00000225476	ENST00000433620	processed_pseudogene	KNOWN	None	None	None	None	143856467	143857502	-1	None	None
18	None	ENSG00000267743	ENST00000593212	antisense	KNOWN	None	None	None	None	55857066	55862908	-1	None	None
18	None	ENSG00000267743	ENST00000586824	antisense	KNOWN	None	None	None	None	55857129	55862928	-1	None	None
16	None	ENSG00000260846	ENST00000568807	unprocessed_pseudogene	KNOWN	None	None	None	None	34569648	34571260	-1	None	None
1	None	ENSG00000269978	ENST00000602916	lincRNA	KNOWN	None	None	None	None	7760764	7761030	-1	None	None
4	None	ENSG00000251418	ENST00000504437	processed_pseudogene	KNOWN	None	None	None	None	149447645	149448291	-1	None	None
HG1308_PATCH	KLF14	ENSG00000266265	ENST00000583337	protein_coding	KNOWN	None	23025	972	323	130394889	130397715	-1	None	BTEB5
22	None	ENSG00000255594	ENST00000417990	pseudogene	KNOWN	None	None	None	None	37621304	37622035	-1	None	None
8	None	ENSG00000240509	ENST00000466433	processed_pseudogene	KNOWN	None	None	None	None	94969566	94969919	-1	None	None
18	None	ENSG00000267504	ENST00000587933	sense_intronic	KNOWN	None	None	None	None	56038798	56039898	1	None	None
2	None	ENSG00000231766	ENST00000422621	processed_pseudogene	KNOWN	None	None	None	None	143858499	143858924	-1	None	None
2	None	ENSG00000237542	ENST00000443775	unprocessed_pseudogene	KNOWN	None	None	None	None	203481423	203481935	1	None	None
HG1133_PATCH	None	ENSG00000272266	ENST00000576418	processed_transcript	KNOWN	None	None	None	None	11047767	11049551	-1	None	None
1	GBP3	ENSG00000117226	ENST00000370481	protein_coding	KNOWN	CCDS717	4184	1788	595	89472349	89488565	-1	None	FLJ10961
1	GBP3	ENSG00000117226	ENST00000370482	retained_intron	KNOWN	None	4184	None	None	89472362	89488534	-1	None	FLJ10961
1	GBP3	ENSG00000117226	ENST00000489444	nonsense_mediated_decay	KNOWN	None	4184	873	290	89472363	89488461	-1	None	FLJ10961
1	GBP3	ENSG00000117226	ENST00000493594	nonsense_mediated_decay	KNOWN	None	4184	276	91	89472953	89488577	-1	None	FLJ10961
1	GBP3	ENSG00000117226	ENST00000235878	nonsense_mediated_decay	KNOWN	None	4184	429	142	89473452	89488521	-1	None	FLJ10961
1	GBP3	ENSG00000117226	ENST00000461384	protein_coding	PUTATIVE	None	4184	656	217	89474527	89477518	-1	None	FLJ10961
1	GBP3	ENSG00000117226	ENST00000445969	protein_coding	PUTATIVE	None	4184	411	136	89474618	89478982	-1	None	FLJ10961
1	GBP3	ENSG00000117226	ENST00000564665	protein_coding	PUTATIVE	None	4184	369	122	89479785	89488549	-1	None	FLJ10961
1	GBP3	ENSG00000117226	ENST00000475853	processed_transcript	KNOWN	None	4184	None	None	89481003	89488543	-1	None	FLJ10961
1	GBP3	ENSG00000117226	ENST00000568006	nonsense_mediated_decay	KNOWN	None	4184	291	96	89481026	89488486	-1	None	FLJ10961
1	GBP3	ENSG00000117226	ENST00000564037	retained_intron	KNOWN	None	4184	None	None	89485983	89488434	-1	None	FLJ10961
8	None	ENSG00000263855	ENST00000577739	miRNA	NOVEL	None	None	None	None	94986082	94986151	1	None	None
18	None	ENSG00000267396	ENST00000590318	antisense	KNOWN	None	None	None	None	56065895	56067314	-1	None	None
HG1133_PATCH	TAS2R15	ENSG00000272069	ENST00000571565	processed_pseudogene	KNOWN	None	19106	None	None	11117024	11117951	-1	None	T2R15, PS8
22	LRP5L	ENSG00000100068	ENST00000467672	retained_intron	KNOWN	None	25323	None	None	25747385	25758524	-1	None	DKFZp434O0213
22	LRP5L	ENSG00000100068	ENST00000444995	protein_coding	KNOWN	None	25323	675	224	25747424	25801344	-1	None	DKFZp434O0213
22	LRP5L	ENSG00000100068	ENST00000402785	protein_coding	KNOWN	CCDS33626	25323	759	252	25747429	25756156	-1	None	DKFZp434O0213
22	LRP5L	ENSG00000100068	ENST00000474163	nonsense_mediated_decay	KNOWN	None	25323	213	70	25747755	25756192	-1	None	DKFZp434O0213
22	LRP5L	ENSG00000100068	ENST00000484509	retained_intron	KNOWN	None	25323	None	None	25750724	25753773	-1	None	DKFZp434O0213
22	LRP5L	ENSG00000100068	ENST00000468442	protein_coding	KNOWN	None	25323	11	2	25756049	25777498	-1	None	DKFZp434O0213
22	LRP5L	ENSG00000100068	ENST00000402859	protein_coding	KNOWN	CCDS33626	25323	759	252	25747388	25777544	-1	None	DKFZp434O0213
11	None	ENSG00000254590	ENST00000533726	processed_pseudogene	KNOWN	None	None	None	None	119273502	119274798	1	None	None
12	None	ENSG00000268367	ENST00000598001	protein_coding	NOVEL	None	None	339	112	57810198	57810536	1	None	None
15	MIR4313	ENSG00000261043	ENST00000561777	lincRNA	KNOWN	None	38310	None	None	76051842	76054746	-1	None	hsa-mir-4313
15	MIR4313	ENSG00000261043	ENST00000580760	miRNA	KNOWN	None	38310	None	None	76054556	76054656	-1	None	hsa-mir-4313
HG1308_PATCH	None	ENSG00000266212	ENST00000578330	lincRNA	KNOWN	None	None	None	None	130121332	130124233	-1	None	None
4	None	ENSG00000251309	ENST00000505091	antisense	KNOWN	None	None	None	None	102898051	102958060	-1	None	None
22	None	ENSG00000243902	ENST00000430883	sense_overlapping	KNOWN	None	None	None	None	37735624	37781323	-1	None	None
22	None	ENSG00000243902	ENST00000452946	processed_transcript	KNOWN	None	None	None	None	37736685	37823480	-1	None	None
22	None	ENSG00000243902	ENST00000414347	processed_transcript	KNOWN	None	None	None	None	37771745	37814992	-1	None	None
22	None	ENSG00000243902	ENST00000424973	processed_transcript	KNOWN	None	None	None	None	37771745	37816530	-1	None	None
22	None	ENSG00000243902	ENST00000435824	processed_transcript	KNOWN	None	None	None	None	37771771	37816484	-1	None	None
22	None	ENSG00000243902	ENST00000451509	processed_transcript	KNOWN	None	None	None	None	37771803	37823042	-1	None	None
22	None	ENSG00000243902	ENST00000415408	processed_transcript	KNOWN	None	None	None	None	37771803	37823505	-1	None	None
14	TRAV6	ENSG00000211780	ENST00000390428	TR_V_gene	KNOWN	None	12144	397	131	22236729	22237320	1	TCRAV5S1	None
5	NAIP	ENSG00000249437	ENST00000315147	retained_intron	KNOWN	None	7634	None	None	70264310	70282977	-1	BIRC1	NLRB1
5	NAIP	ENSG00000249437	ENST00000517649	protein_coding	KNOWN	CCDS4009	7634	4212	1403	70264310	70320514	-1	BIRC1	NLRB1
5	NAIP	ENSG00000249437	ENST00000523981	protein_coding	KNOWN	CCDS43327	7634	3726	1241	70265647	70320941	-1	BIRC1	NLRB1
5	NAIP	ENSG00000249437	ENST00000508426	protein_coding	NOVEL	None	7634	4044	1347	70265877	70316537	-1	BIRC1	NLRB1
5	NAIP	ENSG00000249437	ENST00000514857	protein_coding	PUTATIVE	None	7634	579	192	70266074	70272055	-1	BIRC1	NLRB1
5	NAIP	ENSG00000249437	ENST00000508794	retained_intron	KNOWN	None	7634	None	None	70293948	70316601	-1	BIRC1	NLRB1
5	NAIP	ENSG00000249437	ENST00000447012	nonsense_mediated_decay	KNOWN	None	7634	15	4	70298757	70307599	-1	BIRC1	NLRB1
5	NAIP	ENSG00000249437	ENST00000519014	nonsense_mediated_decay	KNOWN	None	7634	597	198	70299425	70316557	-1	BIRC1	NLRB1
5	NAIP	ENSG00000249437	ENST00000503719	protein_coding	KNOWN	CCDS43327	7634	3726	1241	70265880	70320200	-1	BIRC1	NLRB1
5	NAIP	ENSG00000249437	ENST00000194097	protein_coding	KNOWN	CCDS4009	7634	4212	1403	70264310	70316737	-1	BIRC1	NLRB1
16	RARRES2P9	ENSG00000261486	ENST00000565168	processed_pseudogene	KNOWN	None	48708	None	None	34578462	34578930	-1	None	None
11	None	ENSG00000260196	ENST00000568280	antisense	KNOWN	None	None	None	None	17402196	17405078	1	None	None
2	None	ENSG00000257284	ENST00000549878	antisense	KNOWN	None	None	None	None	143919647	143929741	-1	None	None
19	LSM7	ENSG00000130332	ENST00000591515	retained_intron	KNOWN	None	20470	None	None	2321520	2324531	-1	None	YNL147W
19	LSM7	ENSG00000130332	ENST00000589532	processed_transcript	KNOWN	None	20470	None	None	2321520	2324905	-1	None	YNL147W
19	LSM7	ENSG00000130332	ENST00000585395	nonsense_mediated_decay	KNOWN	None	20470	184	60	2321520	2328477	-1	None	YNL147W
19	LSM7	ENSG00000130332	ENST00000587502	retained_intron	KNOWN	None	20470	None	None	2321520	2328585	-1	None	YNL147W
19	LSM7	ENSG00000130332	ENST00000585409	nonsense_mediated_decay	KNOWN	None	20470	108	35	2321520	2328608	-1	None	YNL147W
19	LSM7	ENSG00000130332	ENST00000252622	protein_coding	KNOWN	CCDS45907	20470	312	103	2321520	2328615	-1	None	YNL147W
19	LSM7	ENSG00000130332	ENST00000591745	retained_intron	KNOWN	None	20470	None	None	2327961	2328586	-1	None	YNL147W
4	RN7SL728P	ENSG00000241144	ENST00000464718	misc_RNA	KNOWN	None	46744	None	None	103269551	103269848	-1	None	None
X	UPF3B	ENSG00000125351	ENST00000276201	protein_coding	KNOWN	CCDS14588	20439	1452	483	118967985	118986961	-1	None	RENT3B, UPF3X, HUPF3B
X	UPF3B	ENSG00000125351	ENST00000345865	protein_coding	KNOWN	CCDS14587	20439	1413	470	118967989	118986961	-1	None	RENT3B, UPF3X, HUPF3B
X	UPF3B	ENSG00000125351	ENST00000478840	processed_transcript	KNOWN	None	20439	None	None	118972229	118979217	-1	None	RENT3B, UPF3X, HUPF3B
X	CLCN5	ENSG00000171365	ENST00000376088	protein_coding	KNOWN	CCDS48115	2023	2451	816	49687225	49863892	1	NPHL2, NPHL1	DENTS, XLRH, hClC-K2, hCIC-K2, CLC5, XRN, ClC-5
X	CLCN5	ENSG00000171365	ENST00000376091	protein_coding	KNOWN	CCDS48115	2023	2451	816	49687275	49857139	1	NPHL2, NPHL1	DENTS, XLRH, hClC-K2, hCIC-K2, CLC5, XRN, ClC-5
X	CLCN5	ENSG00000171365	ENST00000482218	processed_transcript	KNOWN	None	2023	None	None	49687398	49807150	1	NPHL2, NPHL1	DENTS, XLRH, hClC-K2, hCIC-K2, CLC5, XRN, ClC-5
X	CLCN5	ENSG00000171365	ENST00000376108	protein_coding	KNOWN	CCDS14328	2023	2241	746	49832231	49857063	1	NPHL2, NPHL1	DENTS, XLRH, hClC-K2, hCIC-K2, CLC5, XRN, ClC-5
X	CLCN5	ENSG00000171365	ENST00000307367	protein_coding	KNOWN	CCDS14328	2023	2241	746	49834156	49857521	1	NPHL2, NPHL1	DENTS, XLRH, hClC-K2, hCIC-K2, CLC5, XRN, ClC-5
1	None	ENSG00000269925	ENST00000602406	sense_intronic	KNOWN	None	None	None	None	7836443	7836835	1	None	None
20	ARHGAP40	ENSG00000124143	ENST00000243967	protein_coding	NOVEL	None	16226	1777	591	37255639	37279151	1	C20orf95	dJ1100H13.4
20	ARHGAP40	ENSG00000124143	ENST00000373346	protein_coding	PUTATIVE	None	16226	463	153	37272550	37279022	1	C20orf95	dJ1100H13.4
20	ARHGAP40	ENSG00000124143	ENST00000414158	protein_coding	PUTATIVE	None	16226	218	71	37275706	37279678	1	C20orf95	dJ1100H13.4
20	ARHGAP40	ENSG00000124143	ENST00000373345	protein_coding	KNOWN	None	16226	1869	622	37230577	37279295	1	C20orf95	dJ1100H13.4
8	None	ENSG00000253585	ENST00000522743	lincRNA	KNOWN	None	None	None	None	95109992	95116550	-1	None	None
2	None	ENSG00000233134	ENST00000416968	unprocessed_pseudogene	KNOWN	None	None	None	None	203482007	203482350	1	None	None
2	None	ENSG00000228655	ENST00000549032	antisense	KNOWN	None	None	None	None	144052990	144238358	-1	None	None
2	None	ENSG00000228655	ENST00000442794	antisense	KNOWN	None	None	None	None	144072003	144238350	-1	None	None
2	None	ENSG00000228655	ENST00000550516	antisense	KNOWN	None	None	None	None	144108500	144238358	-1	None	None
8	None	ENSG00000249510	ENST00000504616	processed_pseudogene	KNOWN	None	None	None	None	95214141	95215280	-1	None	None
4	None	ENSG00000248161	ENST00000502883	lincRNA	KNOWN	None	None	None	None	103339759	103352406	-1	None	None
4	None	ENSG00000248161	ENST00000505709	lincRNA	KNOWN	None	None	None	None	103339759	103352439	-1	None	None
4	None	ENSG00000248161	ENST00000512915	lincRNA	KNOWN	None	None	None	None	103339874	103371167	-1	None	None
4	None	ENSG00000248161	ENST00000506972	lincRNA	KNOWN	None	None	None	None	103339965	103352447	-1	None	None
12	INHBC	ENSG00000175189	ENST00000550133	protein_coding	PUTATIVE	None	6068	627	208	57828527	57845842	1	None	None
12	INHBC	ENSG00000175189	ENST00000309668	protein_coding	KNOWN	CCDS8938	6068	1059	352	57828543	57844611	1	None	None
19	TMEM259	ENSG00000182087	ENST00000356663	protein_coding	KNOWN	CCDS32862	17039	1863	620	1009647	1021117	-1	C19orf6	MGC4022, ASBABP1, MBRL
19	TMEM259	ENSG00000182087	ENST00000593068	protein_coding	NOVEL	None	17039	1074	357	1009650	1012116	-1	C19orf6	MGC4022, ASBABP1, MBRL
19	TMEM259	ENSG00000182087	ENST00000333175	protein_coding	KNOWN	CCDS12052	17039	1227	408	1009650	1021114	-1	C19orf6	MGC4022, ASBABP1, MBRL
19	TMEM259	ENSG00000182087	ENST00000592618	retained_intron	KNOWN	None	17039	None	None	1009651	1011640	-1	C19orf6	MGC4022, ASBABP1, MBRL
19	TMEM259	ENSG00000182087	ENST00000592052	retained_intron	KNOWN	None	17039	None	None	1009719	1011355	-1	C19orf6	MGC4022, ASBABP1, MBRL
19	TMEM259	ENSG00000182087	ENST00000587266	retained_intron	KNOWN	None	17039	None	None	1010457	1011974	-1	C19orf6	MGC4022, ASBABP1, MBRL
19	TMEM259	ENSG00000182087	ENST00000586285	protein_coding	NOVEL	None	17039	626	207	1010694	1011991	-1	C19orf6	MGC4022, ASBABP1, MBRL
19	TMEM259	ENSG00000182087	ENST00000586704	retained_intron	KNOWN	None	17039	None	None	1010694	1014295	-1	C19orf6	MGC4022, ASBABP1, MBRL
19	TMEM259	ENSG00000182087	ENST00000591128	retained_intron	KNOWN	None	17039	None	None	1010729	1012316	-1	C19orf6	MGC4022, ASBABP1, MBRL
19	TMEM259	ENSG00000182087	ENST00000587644	retained_intron	KNOWN	None	17039	None	None	1011256	1012288	-1	C19orf6	MGC4022, ASBABP1, MBRL
19	TMEM259	ENSG00000182087	ENST00000607316	protein_coding	NOVEL	None	17039	475	157	1011851	1013339	-1	C19orf6	MGC4022, ASBABP1, MBRL
19	TMEM259	ENSG00000182087	ENST00000592590	protein_coding	NOVEL	None	17039	762	253	1012064	1017422	-1	C19orf6	MGC4022, ASBABP1, MBRL
19	TMEM259	ENSG00000182087	ENST00000586250	protein_coding	NOVEL	None	17039	418	138	1012112	1014303	-1	C19orf6	MGC4022, ASBABP1, MBRL
19	TMEM259	ENSG00000182087	ENST00000589055	protein_coding	NOVEL	None	17039	641	212	1012233	1020845	-1	C19orf6	MGC4022, ASBABP1, MBRL
19	TMEM259	ENSG00000182087	ENST00000589831	retained_intron	KNOWN	None	17039	None	None	1012540	1013638	-1	C19orf6	MGC4022, ASBABP1, MBRL
HSCHR17_4_CTG4	None	ENSG00000264450	ENST00000585210	antisense	KNOWN	None	None	None	None	39007052	39019534	1	None	None
20	GNAS-AS1	ENSG00000235590	ENST00000424094	antisense	KNOWN	None	24872	None	None	57393974	57425958	-1	GNASAS, GNAS-AS	SANG, NESP-AS, NESPAS, GNAS1AS, NCRNA00075
20	GNAS-AS1	ENSG00000235590	ENST00000598163	antisense	KNOWN	None	24872	None	None	57399082	57425933	-1	GNASAS, GNAS-AS	SANG, NESP-AS, NESPAS, GNAS1AS, NCRNA00075
20	GNAS-AS1	ENSG00000235590	ENST00000443966	antisense	KNOWN	None	24872	None	None	57414837	57415899	-1	GNASAS, GNAS-AS	SANG, NESP-AS, NESPAS, GNAS1AS, NCRNA00075
HSCHR17_4_CTG4	None	ENSG00000262487	ENST00000576929	antisense	KNOWN	None	None	None	None	39077682	39132305	1	None	None
3	None	ENSG00000268279	ENST00000601399	antisense	KNOWN	None	None	None	None	14178644	14189548	1	None	None
20	ROMO1	ENSG00000125995	ENST00000374078	protein_coding	KNOWN	CCDS13264	16185	240	79	34287194	34288906	1	C20orf52	bA353C18.2, MTGMP
20	ROMO1	ENSG00000125995	ENST00000374077	protein_coding	KNOWN	CCDS13264	16185	240	79	34287275	34288906	1	C20orf52	bA353C18.2, MTGMP
20	ROMO1	ENSG00000125995	ENST00000374072	protein_coding	PUTATIVE	None	16185	180	59	34287364	34288900	1	C20orf52	bA353C18.2, MTGMP
20	ROMO1	ENSG00000125995	ENST00000397416	protein_coding	KNOWN	CCDS13264	16185	240	79	34287373	34288832	1	C20orf52	bA353C18.2, MTGMP
20	ROMO1	ENSG00000125995	ENST00000336695	protein_coding	KNOWN	CCDS13264	16185	240	79	34287373	34288902	1	C20orf52	bA353C18.2, MTGMP
5	CTNND2	ENSG00000169862	ENST00000304623	protein_coding	KNOWN	CCDS3881	2516	3678	1225	10971952	11904155	-1	None	NPRAP, GT24
5	CTNND2	ENSG00000169862	ENST00000495388	processed_transcript	KNOWN	None	2516	None	None	10972644	11384883	-1	None	NPRAP, GT24
5	CTNND2	ENSG00000169862	ENST00000513588	nonsense_mediated_decay	KNOWN	None	2516	2739	912	10972993	11904092	-1	None	NPRAP, GT24
5	CTNND2	ENSG00000169862	ENST00000511377	protein_coding	PUTATIVE	None	2516	3405	1134	10973007	11589131	-1	None	NPRAP, GT24
5	CTNND2	ENSG00000169862	ENST00000504499	nonsense_mediated_decay	KNOWN	None	2516	696	231	10973301	11904155	-1	None	NPRAP, GT24
5	CTNND2	ENSG00000169862	ENST00000503622	protein_coding	PUTATIVE	None	2516	2667	888	10973452	11588960	-1	None	NPRAP, GT24
5	CTNND2	ENSG00000169862	ENST00000506324	processed_transcript	KNOWN	None	2516	None	None	10973699	11018172	-1	None	NPRAP, GT24
5	CTNND2	ENSG00000169862	ENST00000504354	processed_transcript	KNOWN	None	2516	None	None	11346540	11588960	-1	None	NPRAP, GT24
5	CTNND2	ENSG00000169862	ENST00000502551	protein_coding	PUTATIVE	None	2516	628	208	11346704	11903354	-1	None	NPRAP, GT24
5	CTNND2	ENSG00000169862	ENST00000506735	processed_transcript	KNOWN	None	2516	None	None	11346707	11385024	-1	None	NPRAP, GT24
5	CTNND2	ENSG00000169862	ENST00000507430	retained_intron	KNOWN	None	2516	None	None	11364710	11385049	-1	None	NPRAP, GT24
5	CTNND2	ENSG00000169862	ENST00000511278	processed_transcript	KNOWN	None	2516	None	None	11364969	11903304	-1	None	NPRAP, GT24
5	CTNND2	ENSG00000169862	ENST00000514132	processed_transcript	KNOWN	None	2516	None	None	11385094	11386123	-1	None	NPRAP, GT24
5	CTNND2	ENSG00000169862	ENST00000513598	protein_coding	KNOWN	None	2516	544	180	11385137	11588923	-1	None	NPRAP, GT24
5	CTNND2	ENSG00000169862	ENST00000508761	protein_coding	PUTATIVE	None	2516	508	168	11397205	11903497	-1	None	NPRAP, GT24
5	CTNND2	ENSG00000169862	ENST00000509868	processed_transcript	KNOWN	None	2516	None	None	11508483	11904091	-1	None	NPRAP, GT24
5	CTNND2	ENSG00000169862	ENST00000359640	protein_coding	KNOWN	None	2516	3504	1167	10971978	11904110	-1	None	NPRAP, GT24
5	CTNND2	ENSG00000169862	ENST00000458100	protein_coding	KNOWN	None	2516	2379	792	10973301	11904155	-1	None	NPRAP, GT24
HG75_PATCH	GGNBP2	ENSG00000260508	ENST00000562247	retained_intron	KNOWN	None	19357	None	None	34872292	34874563	1	ZNF403	ZFP403, LZK1, FLJ22561, FLJ21230, DIF-3, DIF3
HG75_PATCH	GGNBP2	ENSG00000260508	ENST00000565191	retained_intron	KNOWN	None	19357	None	None	34872300	34914117	1	ZNF403	ZFP403, LZK1, FLJ22561, FLJ21230, DIF-3, DIF3
HG75_PATCH	GGNBP2	ENSG00000260508	ENST00000567775	protein_coding	KNOWN	None	19357	2094	697	34872300	34917807	1	ZNF403	ZFP403, LZK1, FLJ22561, FLJ21230, DIF-3, DIF3
HG75_PATCH	GGNBP2	ENSG00000260508	ENST00000569724	retained_intron	KNOWN	None	19357	None	None	34872335	34910436	1	ZNF403	ZFP403, LZK1, FLJ22561, FLJ21230, DIF-3, DIF3
HG75_PATCH	GGNBP2	ENSG00000260508	ENST00000564270	retained_intron	KNOWN	None	19357	None	None	34904616	34914112	1	ZNF403	ZFP403, LZK1, FLJ22561, FLJ21230, DIF-3, DIF3
3	None	ENSG00000228242	ENST00000428681	antisense	KNOWN	None	None	None	None	14186223	14187021	1	None	None
3	None	ENSG00000228242	ENST00000420253	antisense	KNOWN	None	None	None	None	14186490	14189784	1	None	None
HSCHR17_4_CTG4	KRTAP3-4P	ENSG00000262616	ENST00000574614	unprocessed_pseudogene	KNOWN	None	18919	None	None	39160860	39161139	-1	KRTAP3P1	KAP3A
10	PSAP	ENSG00000197746	ENST00000394936	protein_coding	KNOWN	CCDS7311	9498	1575	524	73576055	73611126	-1	SAP1, GLBA	None
10	PSAP	ENSG00000197746	ENST00000495196	retained_intron	KNOWN	None	9498	None	None	73578379	73579028	-1	SAP1, GLBA	None
10	PSAP	ENSG00000197746	ENST00000493143	retained_intron	KNOWN	None	9498	None	None	73579508	73581962	-1	SAP1, GLBA	None
10	PSAP	ENSG00000197746	ENST00000394934	protein_coding	KNOWN	None	9498	1581	526	73576058	73611082	-1	SAP1, GLBA	None
3	KRT8P13	ENSG00000241416	ENST00000463294	processed_pseudogene	KNOWN	None	33365	None	None	170213416	170214425	1	None	None
2	PTCD3	ENSG00000132300	ENST00000254630	protein_coding	KNOWN	CCDS33235	24717	2070	689	86333305	86369280	1	None	FLJ20758, DKFZp666K071
2	PTCD3	ENSG00000132300	ENST00000409326	nonsense_mediated_decay	KNOWN	None	24717	237	78	86333346	86344282	1	None	FLJ20758, DKFZp666K071
2	PTCD3	ENSG00000132300	ENST00000465560	processed_transcript	KNOWN	None	24717	None	None	86333346	86348714	1	None	FLJ20758, DKFZp666K071
2	PTCD3	ENSG00000132300	ENST00000409783	protein_coding	PUTATIVE	None	24717	531	176	86333347	86348718	1	None	FLJ20758, DKFZp666K071
2	PTCD3	ENSG00000132300	ENST00000488801	processed_transcript	KNOWN	None	24717	None	None	86333349	86339218	1	None	FLJ20758, DKFZp666K071
2	PTCD3	ENSG00000132300	ENST00000418628	nonsense_mediated_decay	KNOWN	None	24717	210	69	86333349	86344243	1	None	FLJ20758, DKFZp666K071
2	PTCD3	ENSG00000132300	ENST00000473829	retained_intron	KNOWN	None	24717	None	None	86333367	86336048	1	None	FLJ20758, DKFZp666K071
2	PTCD3	ENSG00000132300	ENST00000483925	retained_intron	KNOWN	None	24717	None	None	86335468	86346304	1	None	FLJ20758, DKFZp666K071
2	PTCD3	ENSG00000132300	ENST00000484203	retained_intron	KNOWN	None	24717	None	None	86348588	86354784	1	None	FLJ20758, DKFZp666K071
2	PTCD3	ENSG00000132300	ENST00000480102	retained_intron	KNOWN	None	24717	None	None	86348617	86354560	1	None	FLJ20758, DKFZp666K071
2	PTCD3	ENSG00000132300	ENST00000464541	retained_intron	KNOWN	None	24717	None	None	86354842	86360351	1	None	FLJ20758, DKFZp666K071
2	PTCD3	ENSG00000132300	ENST00000476215	retained_intron	KNOWN	None	24717	None	None	86354995	86359955	1	None	FLJ20758, DKFZp666K071
2	PTCD3	ENSG00000132300	ENST00000487043	retained_intron	KNOWN	None	24717	None	None	86355053	86364004	1	None	FLJ20758, DKFZp666K071
2	PTCD3	ENSG00000132300	ENST00000469585	retained_intron	KNOWN	None	24717	None	None	86355072	86362321	1	None	FLJ20758, DKFZp666K071
2	PTCD3	ENSG00000132300	ENST00000493430	retained_intron	KNOWN	None	24717	None	None	86358013	86362078	1	None	FLJ20758, DKFZp666K071
2	PTCD3	ENSG00000132300	ENST00000467273	retained_intron	KNOWN	None	24717	None	None	86359947	86362108	1	None	FLJ20758, DKFZp666K071
2	PTCD3	ENSG00000132300	ENST00000494323	processed_transcript	KNOWN	None	24717	None	None	86360001	86362059	1	None	FLJ20758, DKFZp666K071
2	PTCD3	ENSG00000132300	ENST00000472044	retained_intron	KNOWN	None	24717	None	None	86360392	86362000	1	None	FLJ20758, DKFZp666K071
2	PTCD3	ENSG00000132300	ENST00000477520	processed_transcript	PUTATIVE	None	24717	None	None	86360446	86362321	1	None	FLJ20758, DKFZp666K071
2	PTCD3	ENSG00000132300	ENST00000409277	protein_coding	KNOWN	None	24717	627	208	86333362	86354313	1	None	FLJ20758, DKFZp666K071
5	VTRNA1-3	ENSG00000202515	ENST00000365645	misc_RNA	KNOWN	None	12656	None	None	140105743	140105831	1	VAULTRC3	vtRNA1-3, hvg-3, HVG3, VR3
8	None	ENSG00000254139	ENST00000518934	lincRNA	KNOWN	None	None	None	None	58658708	58662758	1	None	None
2	None	ENSG00000241221	ENST00000414607	unprocessed_pseudogene	KNOWN	None	None	None	None	203482418	203482710	1	None	None
HSCHR17_4_CTG4	KRTAP2-5P	ENSG00000262376	ENST00000575879	unprocessed_pseudogene	KNOWN	None	18920	None	None	39228430	39228825	1	KRTAP2P1	KAP2A
11	SIK3	ENSG00000160584	ENST00000488337	processed_transcript	KNOWN	None	29165	None	None	116714118	116740967	-1	None	FLJ12240, L19, KIAA0999, QSK
11	SIK3	ENSG00000160584	ENST00000445177	protein_coding	NOVEL	None	29165	4090	1362	116714118	116969111	-1	None	FLJ12240, L19, KIAA0999, QSK
11	SIK3	ENSG00000160584	ENST00000375300	protein_coding	KNOWN	None	29165	3966	1321	116714118	116969137	-1	None	FLJ12240, L19, KIAA0999, QSK
11	SIK3	ENSG00000160584	ENST00000454905	protein_coding	NOVEL	None	29165	214	70	116715900	116719854	-1	None	FLJ12240, L19, KIAA0999, QSK
11	SIK3	ENSG00000160584	ENST00000465421	retained_intron	KNOWN	None	29165	None	None	116716128	116735784	-1	None	FLJ12240, L19, KIAA0999, QSK
11	SIK3	ENSG00000160584	ENST00000415541	nonsense_mediated_decay	KNOWN	None	29165	456	151	116716309	116968987	-1	None	FLJ12240, L19, KIAA0999, QSK
11	SIK3	ENSG00000160584	ENST00000446921	protein_coding	KNOWN	None	29165	3786	1261	116716309	116969153	-1	None	FLJ12240, L19, KIAA0999, QSK
11	SIK3	ENSG00000160584	ENST00000480468	retained_intron	KNOWN	None	29165	None	None	116727630	116732100	-1	None	FLJ12240, L19, KIAA0999, QSK
11	SIK3	ENSG00000160584	ENST00000480222	retained_intron	KNOWN	None	29165	None	None	116738404	116744388	-1	None	FLJ12240, L19, KIAA0999, QSK
11	SIK3	ENSG00000160584	ENST00000413553	protein_coding	NOVEL	None	29165	1519	505	116739508	116827760	-1	None	FLJ12240, L19, KIAA0999, QSK
11	SIK3	ENSG00000160584	ENST00000472648	retained_intron	KNOWN	None	29165	None	None	116744756	116746229	-1	None	FLJ12240, L19, KIAA0999, QSK
11	SIK3	ENSG00000160584	ENST00000497049	processed_transcript	KNOWN	None	29165	None	None	116764561	116827780	-1	None	FLJ12240, L19, KIAA0999, QSK
11	SIK3	ENSG00000160584	ENST00000485363	processed_transcript	KNOWN	None	29165	None	None	116775462	116969021	-1	None	FLJ12240, L19, KIAA0999, QSK
11	SIK3	ENSG00000160584	ENST00000292055	protein_coding	KNOWN	CCDS8379	29165	3792	1263	116714120	116968993	-1	None	FLJ12240, L19, KIAA0999, QSK
11	SIK3	ENSG00000160584	ENST00000542607	protein_coding	KNOWN	None	29165	3612	1203	116716307	116968993	-1	None	FLJ12240, L19, KIAA0999, QSK
11	SIK3	ENSG00000160584	ENST00000434315	protein_coding	KNOWN	None	29165	3309	1102	116716307	116968987	-1	None	FLJ12240, L19, KIAA0999, QSK
11	SIK3	ENSG00000160584	ENST00000375288	protein_coding	KNOWN	None	29165	1797	598	116714120	116968993	-1	None	FLJ12240, L19, KIAA0999, QSK
1	None	ENSG00000236266	ENST00000451646	antisense	KNOWN	None	None	None	None	7870302	7887402	-1	None	None
16	None	ENSG00000259925	ENST00000563613	lincRNA	KNOWN	None	None	None	None	19354969	19413015	-1	None	None
16	None	ENSG00000259925	ENST00000567369	lincRNA	KNOWN	None	None	None	None	19365784	19379200	-1	None	None
HSCHR6_MHC_MCF	UBD	ENSG00000206468	ENST00000383547	protein_coding	KNOWN	None	18795	498	165	29523204	29527517	-1	None	FAT10
7	None	ENSG00000241881	ENST00000486508	lincRNA	KNOWN	None	None	None	None	141985579	141988698	1	None	None
5	RBM22	ENSG00000086589	ENST00000520132	retained_intron	KNOWN	None	25503	None	None	150070356	150074395	-1	None	FLJ10290, ZC3H16, fSAP47, Cwc2
5	RBM22	ENSG00000086589	ENST00000199814	protein_coding	KNOWN	CCDS34278	25503	1263	420	150070356	150080669	-1	None	FLJ10290, ZC3H16, fSAP47, Cwc2
5	RBM22	ENSG00000086589	ENST00000447771	protein_coding	KNOWN	None	25503	1116	371	150071081	150080585	-1	None	FLJ10290, ZC3H16, fSAP47, Cwc2
5	RBM22	ENSG00000086589	ENST00000522469	retained_intron	KNOWN	None	25503	None	None	150074886	150080608	-1	None	FLJ10290, ZC3H16, fSAP47, Cwc2
5	RBM22	ENSG00000086589	ENST00000518917	protein_coding	NOVEL	None	25503	537	178	150075256	150080576	-1	None	FLJ10290, ZC3H16, fSAP47, Cwc2
5	RBM22	ENSG00000086589	ENST00000521248	retained_intron	KNOWN	None	25503	None	None	150076157	150080639	-1	None	FLJ10290, ZC3H16, fSAP47, Cwc2
5	RBM22	ENSG00000086589	ENST00000521594	retained_intron	KNOWN	None	25503	None	None	150076229	150080183	-1	None	FLJ10290, ZC3H16, fSAP47, Cwc2
5	RBM22	ENSG00000086589	ENST00000521464	protein_coding	PUTATIVE	None	25503	729	242	150076353	150080472	-1	None	FLJ10290, ZC3H16, fSAP47, Cwc2
5	RBM22	ENSG00000086589	ENST00000540000	protein_coding	KNOWN	None	25503	1116	371	150070356	150080602	-1	None	FLJ10290, ZC3H16, fSAP47, Cwc2
1	TAS1R3	ENSG00000169962	ENST00000339381	protein_coding	KNOWN	CCDS30556	15661	2559	852	1266694	1270686	1	None	T1R3
16	None	ENSG00000260427	ENST00000561884	processed_pseudogene	KNOWN	None	None	None	None	34581756	34582668	1	None	None
8	None	ENSG00000253376	ENST00000522281	lincRNA	KNOWN	None	None	None	None	58802135	58803368	-1	None	None
15	GOLGA8H	ENSG00000261794	ENST00000566740	protein_coding	NOVEL	None	37443	1899	632	30896329	30906764	1	None	GOLGA6L11
2	MTND4P30	ENSG00000227454	ENST00000450281	unprocessed_pseudogene	KNOWN	None	42217	None	None	203482706	203483604	1	None	None
11	SDHCP4	ENSG00000255035	ENST00000532834	processed_pseudogene	KNOWN	None	45179	None	None	17457219	17457728	-1	None	None
17	UBE2Z	ENSG00000159202	ENST00000360943	protein_coding	KNOWN	CCDS11540	25847	1065	354	46985731	47006418	1	None	FLJ13855, USE1
17	UBE2Z	ENSG00000159202	ENST00000508468	protein_coding	NOVEL	None	25847	542	179	46985835	46998634	1	None	FLJ13855, USE1
17	UBE2Z	ENSG00000159202	ENST00000506498	nonsense_mediated_decay	KNOWN	None	25847	388	128	46986078	47004465	1	None	FLJ13855, USE1
17	UBE2Z	ENSG00000159202	ENST00000511373	protein_coding	PUTATIVE	None	25847	302	99	46987710	46993485	1	None	FLJ13855, USE1
17	UBE2Z	ENSG00000159202	ENST00000504684	nonsense_mediated_decay	KNOWN	None	25847	144	47	46988052	47004416	1	None	FLJ13855, USE1
17	UBE2Z	ENSG00000159202	ENST00000513342	retained_intron	KNOWN	None	25847	None	None	46988541	47006416	1	None	FLJ13855, USE1
17	UBE2Z	ENSG00000159202	ENST00000506271	retained_intron	KNOWN	None	25847	None	None	46993082	47004517	1	None	FLJ13855, USE1
17	UBE2Z	ENSG00000159202	ENST00000514948	protein_coding	PUTATIVE	None	25847	213	70	46998564	47000459	1	None	FLJ13855, USE1
16	None	ENSG00000260480	ENST00000565394	processed_pseudogene	KNOWN	None	None	None	None	34586853	34587393	1	None	None
5	None	ENSG00000250515	ENST00000511215	processed_pseudogene	KNOWN	None	None	None	None	140111875	140112448	-1	None	None
15	MIR628	ENSG00000207964	ENST00000385229	miRNA	KNOWN	None	32884	None	None	55665138	55665232	-1	MIRN628	hsa-mir-628
6	None	ENSG00000217228	ENST00000402398	unprocessed_pseudogene	KNOWN	None	None	None	None	52630078	52643145	-1	None	None
5	CAMK4	ENSG00000152495	ENST00000508074	protein_coding	KNOWN	None	1464	426	141	110559351	110730447	1	None	CaMK-GR
5	CAMK4	ENSG00000152495	ENST00000512453	protein_coding	KNOWN	CCDS4103	1464	1422	473	110559648	110820283	1	None	CaMK-GR
5	CAMK4	ENSG00000152495	ENST00000282356	protein_coding	KNOWN	CCDS4103	1464	1422	473	110559784	110830584	1	None	CaMK-GR
5	CAMK4	ENSG00000152495	ENST00000504544	nonsense_mediated_decay	KNOWN	None	1464	267	88	110560080	110784891	1	None	CaMK-GR
5	CAMK4	ENSG00000152495	ENST00000515231	nonsense_mediated_decay	KNOWN	None	1464	267	88	110560080	110820464	1	None	CaMK-GR
5	CAMK4	ENSG00000152495	ENST00000509408	processed_transcript	KNOWN	None	1464	None	None	110560084	110752245	1	None	CaMK-GR
5	CAMK4	ENSG00000152495	ENST00000514007	nonsense_mediated_decay	KNOWN	None	1464	330	109	110560107	110818514	1	None	CaMK-GR
5	CAMK4	ENSG00000152495	ENST00000504090	processed_transcript	KNOWN	None	1464	None	None	110560162	110700928	1	None	CaMK-GR
5	CAMK4	ENSG00000152495	ENST00000502916	processed_transcript	KNOWN	None	1464	None	None	110693659	110809022	1	None	CaMK-GR
5	CAMK4	ENSG00000152495	ENST00000505763	processed_transcript	KNOWN	None	1464	None	None	110693683	110785582	1	None	CaMK-GR
5	CAMK4	ENSG00000152495	ENST00000509645	retained_intron	KNOWN	None	1464	None	None	110817646	110821293	1	None	CaMK-GR
5	CAMK4	ENSG00000152495	ENST00000510858	processed_transcript	KNOWN	None	1464	None	None	110818150	110820296	1	None	CaMK-GR
5	CAMK4	ENSG00000152495	ENST00000512890	processed_transcript	KNOWN	None	1464	None	None	110818186	110825410	1	None	CaMK-GR
HSCHR6_MHC_SSTO	LTA	ENSG00000230279	ENST00000426845	protein_coding	KNOWN	None	6709	618	205	31529774	31532044	1	TNFB	TNFSF1, LT
HSCHR6_MHC_SSTO	LTA	ENSG00000230279	ENST00000464086	retained_intron	KNOWN	None	6709	None	None	31529990	31532044	1	TNFB	TNFSF1, LT
HSCHR6_MHC_SSTO	LTA	ENSG00000230279	ENST00000412851	protein_coding	KNOWN	None	6709	618	205	31530003	31532044	1	TNFB	TNFSF1, LT
HSCHR6_MHC_SSTO	LTA	ENSG00000230279	ENST00000473355	retained_intron	KNOWN	None	6709	None	None	31530014	31532044	1	TNFB	TNFSF1, LT
HSCHR6_MHC_SSTO	LTA	ENSG00000230279	ENST00000550792	protein_coding	KNOWN	None	6709	414	137	31530036	31531570	1	TNFB	TNFSF1, LT
5	None	ENSG00000248106	ENST00000505332	processed_pseudogene	KNOWN	None	None	None	None	140143695	140144406	1	None	None
14	SCARNA13	ENSG00000252481	ENST00000516672	snoRNA	KNOWN	None	32570	None	None	95999692	95999966	-1	None	U93
7	PRSS3P3	ENSG00000242115	ENST00000491852	transcribed_unprocessed_pseudogene	KNOWN	None	43790	None	None	141987080	141989609	-1	None	TRY3
7	PRSS3P3	ENSG00000242115	ENST00000463748	processed_transcript	KNOWN	None	43790	None	None	141987201	141991423	-1	None	TRY3
16	None	ENSG00000259841	ENST00000561756	lincRNA	KNOWN	None	None	None	None	34597783	34616837	1	None	None
16	None	ENSG00000259841	ENST00000569242	lincRNA	KNOWN	None	None	None	None	34597902	34624955	1	None	None
12	RN7SKP11	ENSG00000252827	ENST00000517018	misc_RNA	KNOWN	None	45735	None	None	96820978	96821264	-1	None	None
8	None	ENSG00000205293	ENST00000522992	lincRNA	KNOWN	None	None	None	None	58890917	58896685	1	None	None
9	None	ENSG00000219693	ENST00000402994	unprocessed_pseudogene	KNOWN	None	None	None	None	66544359	66545745	1	None	None
19	CKM	ENSG00000104879	ENST00000221476	protein_coding	KNOWN	CCDS12659	1994	1146	381	45809672	45826235	-1	CKMM	None
14	None	ENSG00000258390	ENST00000556346	lincRNA	KNOWN	None	None	None	None	96039899	96048293	1	None	None
14	None	ENSG00000258390	ENST00000553785	lincRNA	KNOWN	None	None	None	None	96039942	96045021	1	None	None
2	None	ENSG00000233311	ENST00000430139	processed_pseudogene	KNOWN	None	None	None	None	203483908	203484619	-1	None	None
11	None	ENSG00000254586	ENST00000524885	lincRNA	KNOWN	None	None	None	None	17716569	17719018	1	None	None
11	None	ENSG00000254586	ENST00000524479	lincRNA	KNOWN	None	None	None	None	17716600	17718844	1	None	None
2	PRLH	ENSG00000071677	ENST00000165524	protein_coding	KNOWN	CCDS2519	17945	264	87	238475217	238475818	1	None	PRH
12	None	ENSG00000263364	ENST00000584227	miRNA	NOVEL	None	None	None	None	96837258	96837327	1	None	None
15	None	ENSG00000260036	ENST00000562625	processed_pseudogene	KNOWN	None	None	None	None	55734833	55735555	-1	None	None
2	None	ENSG00000257640	ENST00000546678	antisense	KNOWN	None	None	None	None	144053155	144329674	-1	None	None
3	None	ENSG00000255021	ENST00000525575	lincRNA	KNOWN	None	None	None	None	14313873	14345345	-1	None	None
15	None	ENSG00000259180	ENST00000561155	antisense	KNOWN	None	None	None	None	55972583	55973661	1	None	None
12	INHBE	ENSG00000139269	ENST00000551553	processed_transcript	KNOWN	None	24029	None	None	57846106	57853063	1	None	activin, MGC4638
12	INHBE	ENSG00000139269	ENST00000547970	protein_coding	PUTATIVE	None	24029	822	273	57848486	57850565	1	None	activin, MGC4638
12	INHBE	ENSG00000139269	ENST00000266646	protein_coding	KNOWN	CCDS8939	24029	1053	350	57849104	57851791	1	None	activin, MGC4638
12	INHBE	ENSG00000139269	ENST00000553033	processed_transcript	KNOWN	None	24029	None	None	57849755	57850421	1	None	activin, MGC4638
HSCHR6_MHC_DBB	CLIC1	ENSG00000226248	ENST00000422167	protein_coding	KNOWN	None	2062	726	241	31680530	31686518	-1	None	NCC27, p64CLCP
HSCHR6_MHC_DBB	CLIC1	ENSG00000226248	ENST00000438708	protein_coding	KNOWN	None	2062	726	241	31680530	31686523	-1	None	NCC27, p64CLCP
HSCHR6_MHC_DBB	CLIC1	ENSG00000226248	ENST00000431921	protein_coding	KNOWN	None	2062	726	241	31680530	31687269	-1	None	NCC27, p64CLCP
HSCHR6_MHC_DBB	CLIC1	ENSG00000226248	ENST00000415179	protein_coding	KNOWN	None	2062	726	241	31680530	31689717	-1	None	NCC27, p64CLCP
9	None	ENSG00000170161	ENST00000305709	lincRNA	KNOWN	None	None	None	None	66553273	66555928	1	None	None
9	None	ENSG00000170161	ENST00000476224	lincRNA	KNOWN	None	None	None	None	66553276	66555594	1	None	None
9	None	ENSG00000170161	ENST00000467494	lincRNA	KNOWN	None	None	None	None	66553930	66554728	1	None	None
3	None	ENSG00000251576	ENST00000502417	lincRNA	KNOWN	None	None	None	None	14389951	14394068	-1	None	None
2	None	ENSG00000258268	ENST00000553076	antisense	KNOWN	None	None	None	None	144276436	144355571	-1	None	None
8	None	ENSG00000253523	ENST00000518750	lincRNA	KNOWN	None	None	None	None	58943893	58945241	-1	None	None
1	None	ENSG00000270330	ENST00000603760	processed_pseudogene	KNOWN	None	None	None	None	8002432	8002786	1	None	None
3	None	ENSG00000213174	ENST00000398900	processed_pseudogene	KNOWN	None	None	None	None	170371635	170372048	-1	None	None
3	RNA5SP124	ENSG00000199609	ENST00000362739	rRNA	KNOWN	None	43024	None	None	14436148	14436257	1	RN5S124	None
2	None	ENSG00000231758	ENST00000548051	antisense	KNOWN	None	None	None	None	144398325	144406454	-1	None	None
2	None	ENSG00000231758	ENST00000413315	antisense	KNOWN	None	None	None	None	144398337	144413748	-1	None	None
11	None	ENSG00000255335	ENST00000529781	antisense	KNOWN	None	None	None	None	17716814	17718487	-1	None	None
14	None	ENSG00000258927	ENST00000555032	lincRNA	KNOWN	None	None	None	None	96087251	96109622	1	None	None
13	MIR16-1	ENSG00000208006	ENST00000385271	miRNA	KNOWN	None	31545	None	None	50623109	50623197	-1	MIRN16-1	hsa-mir-16-1
2	None	ENSG00000240761	ENST00000440661	processed_pseudogene	KNOWN	None	None	None	None	203638443	203638658	-1	None	None
2	None	ENSG00000240761	ENST00000438821	processed_pseudogene	KNOWN	None	None	None	None	203638748	203639083	-1	None	None
13	RPL18P10	ENSG00000214359	ENST00000425606	processed_pseudogene	KNOWN	None	35957	None	None	50673467	50674004	1	None	None
7	SNORD93	ENSG00000221740	ENST00000408813	snoRNA	KNOWN	None	32755	None	None	22896232	22896305	1	None	HBII-336
HG1293_PATCH	EIF2D	ENSG00000265823	ENST00000582493	nonsense_mediated_decay	KNOWN	None	6583	189	62	206634853	206660677	-1	None	LGTN
HG1293_PATCH	EIF2D	ENSG00000265823	ENST00000585127	protein_coding	KNOWN	None	6583	1755	584	206655203	206676020	-1	None	LGTN
HG1293_PATCH	EIF2D	ENSG00000265823	ENST00000580424	protein_coding	KNOWN	None	6583	1383	460	206655203	206676020	-1	None	LGTN
HG1293_PATCH	EIF2D	ENSG00000265823	ENST00000604180	retained_intron	KNOWN	None	6583	None	None	206657601	206667062	-1	None	LGTN
HG1293_PATCH	EIF2D	ENSG00000265823	ENST00000605483	nonsense_mediated_decay	KNOWN	None	6583	220	72	206659271	206672965	-1	None	LGTN
HG1293_PATCH	EIF2D	ENSG00000265823	ENST00000584736	nonsense_mediated_decay	KNOWN	None	6583	199	65	206659279	206666519	-1	None	LGTN
HG1293_PATCH	EIF2D	ENSG00000265823	ENST00000582496	retained_intron	KNOWN	None	6583	None	None	206659392	206663371	-1	None	LGTN
HG1293_PATCH	EIF2D	ENSG00000265823	ENST00000577212	protein_coding	NOVEL	None	6583	812	269	206665903	206676011	-1	None	LGTN
HG1293_PATCH	EIF2D	ENSG00000265823	ENST00000585200	processed_transcript	KNOWN	None	6583	None	None	206666644	206671856	-1	None	LGTN
HG1293_PATCH	EIF2D	ENSG00000265823	ENST00000603851	retained_intron	KNOWN	None	6583	None	None	206668294	206676024	-1	None	LGTN
HG1293_PATCH	EIF2D	ENSG00000265823	ENST00000582219	processed_transcript	KNOWN	None	6583	None	None	206672937	206676020	-1	None	LGTN
3	RBM15B	ENSG00000179837	ENST00000323686	protein_coding	KNOWN	CCDS33764	24303	2673	890	51428731	51435330	1	None	HUMAGCGB, OTT3
14	TRAV7	ENSG00000211781	ENST00000390429	TR_V_gene	KNOWN	None	12145	337	111	22251210	22251720	1	None	None
5	SH3RF2	ENSG00000156463	ENST00000359120	protein_coding	KNOWN	CCDS4280	26299	2190	729	145316142	145442879	1	PPP1R39	FLJ23654, RNF158, Hepp1, POSHER
5	SH3RF2	ENSG00000156463	ENST00000506591	processed_transcript	KNOWN	None	26299	None	None	145316268	145317494	1	PPP1R39	FLJ23654, RNF158, Hepp1, POSHER
5	SH3RF2	ENSG00000156463	ENST00000511217	protein_coding	KNOWN	CCDS4280	26299	2190	729	145317440	145461354	1	PPP1R39	FLJ23654, RNF158, Hepp1, POSHER
5	SH3RF2	ENSG00000156463	ENST00000509286	processed_transcript	KNOWN	None	26299	None	None	145422593	145428796	1	PPP1R39	FLJ23654, RNF158, Hepp1, POSHER
5	SH3RF2	ENSG00000156463	ENST00000503848	processed_transcript	KNOWN	None	26299	None	None	145429627	145442344	1	PPP1R39	FLJ23654, RNF158, Hepp1, POSHER
5	SH3RF2	ENSG00000156463	ENST00000511705	processed_transcript	KNOWN	None	26299	None	None	145429649	145442344	1	PPP1R39	FLJ23654, RNF158, Hepp1, POSHER
5	SH3RF2	ENSG00000156463	ENST00000504522	retained_intron	KNOWN	None	26299	None	None	145435385	145439714	1	PPP1R39	FLJ23654, RNF158, Hepp1, POSHER
2	KRT8P15	ENSG00000233579	ENST00000425226	processed_pseudogene	KNOWN	None	33367	None	None	203705054	203706504	-1	None	None
18	TMEM200C	ENSG00000206432	ENST00000581347	protein_coding	KNOWN	CCDS45825	37208	1866	621	5889419	5895954	-1	None	TTMA
18	TMEM200C	ENSG00000206432	ENST00000383490	protein_coding	KNOWN	CCDS45825	37208	1866	621	5890184	5892103	-1	None	TTMA
16	None	ENSG00000260291	ENST00000567870	unprocessed_pseudogene	KNOWN	None	None	None	None	34618515	34619457	-1	None	None
20	SLC32A1	ENSG00000101438	ENST00000217420	protein_coding	KNOWN	CCDS13307	11018	1578	525	37353105	37358015	1	VIAAT	VGAT, bA122O1.1
2	None	ENSG00000232479	ENST00000449849	processed_pseudogene	KNOWN	None	None	None	None	203789332	203790627	1	None	None
11	None	ENSG00000254892	ENST00000527574	processed_pseudogene	KNOWN	None	None	None	None	119274673	119274937	-1	None	None
16	AGGF1P4	ENSG00000261689	ENST00000568249	processed_pseudogene	KNOWN	None	38054	None	None	34623574	34624374	-1	None	None
15	None	ENSG00000258627	ENST00000555468	transcribed_processed_pseudogene	KNOWN	None	None	None	None	94368287	94368388	-1	None	None
9	BAAT	ENSG00000136881	ENST00000395051	protein_coding	KNOWN	CCDS6752	932	1257	418	104123786	104133757	-1	None	BAT
9	BAAT	ENSG00000136881	ENST00000259407	protein_coding	KNOWN	CCDS6752	932	1257	418	104122699	104145801	-1	None	BAT
2	None	ENSG00000270664	ENST00000604508	processed_pseudogene	KNOWN	None	None	None	None	203859917	203860126	1	None	None
16	None	ENSG00000260598	ENST00000563581	unprocessed_pseudogene	KNOWN	None	None	None	None	34640118	34641720	-1	None	None
2	RPL7P14	ENSG00000232994	ENST00000449851	processed_pseudogene	KNOWN	None	35984	None	None	203904831	203905622	1	None	None
1	None	ENSG00000200344	ENST00000363474	misc_RNA	NOVEL	None	None	None	None	8042941	8043043	-1	None	None
15	None	ENSG00000259123	ENST00000553477	lincRNA	KNOWN	None	None	None	None	94380840	94396210	-1	None	None
2	None	ENSG00000202059	ENST00000365189	snoRNA	NOVEL	None	None	None	None	203917008	203917141	-1	None	None
18	None	ENSG00000267675	ENST00000585470	lincRNA	KNOWN	None	None	None	None	56083997	56084860	1	None	None
15	None	ENSG00000258476	ENST00000554530	lincRNA	KNOWN	None	None	None	None	94406338	94421585	1	None	None
15	None	ENSG00000258476	ENST00000556030	lincRNA	KNOWN	None	None	None	None	94408736	94410944	1	None	None
15	None	ENSG00000258476	ENST00000555281	lincRNA	KNOWN	None	None	None	None	94408805	94421585	1	None	None
2	None	ENSG00000228513	ENST00000445936	processed_pseudogene	KNOWN	None	None	None	None	203926037	203927126	-1	None	None
18	None	ENSG00000267391	ENST00000590797	lincRNA	KNOWN	None	None	None	None	56113507	56116856	1	None	None
18	SERPINB12	ENSG00000166634	ENST00000269491	protein_coding	KNOWN	CCDS11984	14220	1218	405	61223393	61234244	1	None	YUKOPIN
18	SERPINB12	ENSG00000166634	ENST00000382768	protein_coding	NOVEL	None	14220	1278	425	61223393	61234244	1	None	YUKOPIN
3	GRIP2	ENSG00000144596	ENST00000273083	processed_transcript	KNOWN	None	23841	None	None	14530619	14581881	-1	None	KIAA1719
3	GRIP2	ENSG00000144596	ENST00000430219	processed_transcript	KNOWN	None	23841	None	None	14532678	14554366	-1	None	KIAA1719
3	GRIP2	ENSG00000144596	ENST00000422481	retained_intron	KNOWN	None	23841	None	None	14562199	14567490	-1	None	KIAA1719
3	GRIP2	ENSG00000144596	ENST00000413414	retained_intron	KNOWN	None	23841	None	None	14562199	14581850	-1	None	KIAA1719
3	GRIP2	ENSG00000144596	ENST00000507975	processed_transcript	KNOWN	None	23841	None	None	14535173	14583588	-1	None	KIAA1719
3	GRIP2	ENSG00000144596	ENST00000443613	processed_transcript	KNOWN	None	23841	None	None	14530619	14581836	-1	None	KIAA1719
3	GRIP2	ENSG00000144596	ENST00000383795	processed_transcript	KNOWN	None	23841	None	None	14545413	14581836	-1	None	KIAA1719
22	ADRBK2	ENSG00000100077	ENST00000324198	protein_coding	KNOWN	CCDS13832	290	2067	688	25960816	26125259	1	None	GRK3, BARK2
22	ADRBK2	ENSG00000100077	ENST00000455558	nonsense_mediated_decay	KNOWN	None	290	138	45	25961074	26080535	1	None	GRK3, BARK2
18	MIR122	ENSG00000207778	ENST00000385044	miRNA	KNOWN	None	31501	None	None	56118306	56118390	1	MIRN122A, MIRN122	hsa-mir-122a, hsa-mir-122
12	EEF1A1P33	ENSG00000258846	ENST00000554413	processed_pseudogene	KNOWN	None	37911	None	None	97294475	97296476	-1	None	None
2	RAB17	ENSG00000124839	ENST00000392001	nonsense_mediated_decay	KNOWN	None	16523	159	52	238482965	238499714	-1	None	None
2	RAB17	ENSG00000124839	ENST00000264601	protein_coding	KNOWN	CCDS2520	16523	639	212	238482965	238499736	-1	None	None
2	RAB17	ENSG00000124839	ENST00000477149	retained_intron	KNOWN	None	16523	None	None	238482969	238488213	-1	None	None
2	RAB17	ENSG00000124839	ENST00000409576	protein_coding	PUTATIVE	None	16523	162	53	238482970	238499303	-1	None	None
2	RAB17	ENSG00000124839	ENST00000414278	nonsense_mediated_decay	KNOWN	None	16523	165	54	238482998	238499358	-1	None	None
2	RAB17	ENSG00000124839	ENST00000466244	retained_intron	KNOWN	None	16523	None	None	238483333	238484527	-1	None	None
2	RAB17	ENSG00000124839	ENST00000409822	protein_coding	PUTATIVE	None	16523	258	85	238483381	238499423	-1	None	None
2	RAB17	ENSG00000124839	ENST00000411462	protein_coding	NOVEL	None	16523	392	129	238484101	238499377	-1	None	None
2	RAB17	ENSG00000124839	ENST00000430445	protein_coding	NOVEL	None	16523	421	139	238485227	238494742	-1	None	None
2	RAB17	ENSG00000124839	ENST00000416106	processed_transcript	PUTATIVE	None	16523	None	None	238494046	238499374	-1	None	None
2	RAB17	ENSG00000124839	ENST00000487008	processed_transcript	PUTATIVE	None	16523	None	None	238499168	238510257	-1	None	None
2	RAB17	ENSG00000124839	ENST00000538644	protein_coding	KNOWN	None	16523	258	85	238482965	238499131	-1	None	None
8	PDGFRL	ENSG00000104213	ENST00000251630	protein_coding	KNOWN	CCDS6003	8805	1128	375	17433942	17500642	1	None	PRLTS
8	PDGFRL	ENSG00000104213	ENST00000523248	processed_transcript	PUTATIVE	None	8805	None	None	17491580	17501580	1	None	PRLTS
8	PDGFRL	ENSG00000104213	ENST00000541323	protein_coding	KNOWN	CCDS6003	8805	1128	375	17433942	17500642	1	None	PRLTS
8	PDGFRL	ENSG00000104213	ENST00000398074	protein_coding	KNOWN	CCDS6003	8805	1128	375	17434701	17500616	1	None	PRLTS
2	None	ENSG00000225124	ENST00000413895	processed_pseudogene	KNOWN	None	None	None	None	203939408	203939865	-1	None	None
8	None	ENSG00000206661	ENST00000383934	snoRNA	NOVEL	None	None	None	None	4985801	4985934	-1	None	None
1	None	ENSG00000238290	ENST00000445300	lincRNA	KNOWN	None	None	None	None	8086798	8182762	1	None	None
18	None	ENSG00000252330	ENST00000516521	miRNA	NOVEL	None	None	None	None	56133495	56133559	-1	None	None
3	VPRBP	ENSG00000145041	ENST00000423656	protein_coding	KNOWN	None	30911	3237	1078	51433298	51467664	-1	None	KIAA0800, MGC102804, DCAF1
3	VPRBP	ENSG00000145041	ENST00000504652	protein_coding	KNOWN	None	30911	1128	375	51474986	51534010	-1	None	KIAA0800, MGC102804, DCAF1
3	VPRBP	ENSG00000145041	ENST00000335891	protein_coding	KNOWN	None	30911	3177	1058	51435273	51517854	-1	None	KIAA0800, MGC102804, DCAF1
15	None	ENSG00000258831	ENST00000556763	lincRNA	KNOWN	None	None	None	None	94425311	94429972	1	None	None
8	RN7SL318P	ENSG00000242079	ENST00000471955	misc_RNA	KNOWN	None	46334	None	None	4999933	5000229	-1	None	None
18	None	ENSG00000267257	ENST00000591360	antisense	KNOWN	None	None	None	None	56202647	56205784	1	None	None
2	None	ENSG00000204196	ENST00000431098	processed_pseudogene	KNOWN	None	None	None	None	204055503	204056000	1	None	None
2	None	ENSG00000204196	ENST00000314394	pseudogene	KNOWN	None	None	None	None	204055503	204056000	1	None	None
X	None	ENSG00000231728	ENST00000447281	processed_transcript	KNOWN	None	None	None	None	103172005	103174131	-1	None	None
3	RNF7	ENSG00000114125	ENST00000273480	protein_coding	KNOWN	CCDS3118	10070	342	113	141457046	141466402	1	None	SAG, ROC2, CKBBP1
3	RNF7	ENSG00000114125	ENST00000498828	retained_intron	KNOWN	None	10070	None	None	141457091	141461869	1	None	SAG, ROC2, CKBBP1
3	RNF7	ENSG00000114125	ENST00000480908	protein_coding	NOVEL	CCDS56283	10070	294	97	141457119	141464542	1	None	SAG, ROC2, CKBBP1
3	RNF7	ENSG00000114125	ENST00000393000	protein_coding	KNOWN	CCDS43158	10070	273	90	141457139	141464544	1	None	SAG, ROC2, CKBBP1
3	RNF7	ENSG00000114125	ENST00000477012	nonsense_mediated_decay	KNOWN	None	10070	327	108	141457146	141464511	1	None	SAG, ROC2, CKBBP1
3	RNF7	ENSG00000114125	ENST00000477393	nonsense_mediated_decay	KNOWN	None	10070	207	68	141457161	141464359	1	None	SAG, ROC2, CKBBP1
3	RNF7	ENSG00000114125	ENST00000486377	processed_transcript	PUTATIVE	None	10070	None	None	141464684	141465236	1	None	SAG, ROC2, CKBBP1
15	None	ENSG00000222409	ENST00000410477	miRNA	NOVEL	None	None	None	None	94440141	94440256	-1	None	None
20	ACTR5	ENSG00000101442	ENST00000243903	protein_coding	KNOWN	CCDS13308	14671	1824	607	37377085	37400834	1	None	FLJ12785, Arp5, INO80M
11	MPZL3	ENSG00000160588	ENST00000278949	protein_coding	KNOWN	CCDS8392	27279	708	235	118097409	118123065	-1	None	None
11	MPZL3	ENSG00000160588	ENST00000525386	protein_coding	NOVEL	None	27279	198	65	118099853	118123062	-1	None	None
11	MPZL3	ENSG00000160588	ENST00000527472	protein_coding	NOVEL	None	27279	672	223	118099953	118123062	-1	None	None
11	MPZL3	ENSG00000160588	ENST00000446386	nonsense_mediated_decay	KNOWN	None	27279	327	108	118100169	118123035	-1	None	None
18	None	ENSG00000267579	ENST00000589794	antisense	KNOWN	None	None	None	None	56224302	56233909	1	None	None
15	None	ENSG00000258785	ENST00000555364	lincRNA	KNOWN	None	None	None	None	94443930	94517051	1	None	None
15	None	ENSG00000258785	ENST00000555255	lincRNA	KNOWN	None	None	None	None	94443930	94527379	1	None	None
19	ANO8	ENSG00000074855	ENST00000597643	nonsense_mediated_decay	KNOWN	None	29329	1746	581	17434032	17445546	-1	KIAA1623, TMEM16H	None
19	ANO8	ENSG00000074855	ENST00000159087	protein_coding	KNOWN	CCDS32949	29329	3699	1232	17434032	17445638	-1	KIAA1623, TMEM16H	None
19	ANO8	ENSG00000074855	ENST00000600711	retained_intron	KNOWN	None	29329	None	None	17444097	17445538	-1	KIAA1623, TMEM16H	None
5	RICTOR	ENSG00000164327	ENST00000357387	protein_coding	KNOWN	CCDS34148	28611	5127	1708	38938021	39074510	-1	None	MGC39830, AVO3, PIA, KIAA1999
5	RICTOR	ENSG00000164327	ENST00000511516	nonsense_mediated_decay	KNOWN	None	28611	774	257	38940117	39074491	-1	None	MGC39830, AVO3, PIA, KIAA1999
5	RICTOR	ENSG00000164327	ENST00000296782	protein_coding	KNOWN	None	28611	5199	1732	38940122	39074501	-1	None	MGC39830, AVO3, PIA, KIAA1999
5	RICTOR	ENSG00000164327	ENST00000505927	retained_intron	KNOWN	None	28611	None	None	38942326	38943349	-1	None	MGC39830, AVO3, PIA, KIAA1999
5	RICTOR	ENSG00000164327	ENST00000503698	processed_transcript	KNOWN	None	28611	None	None	38954801	38959434	-1	None	MGC39830, AVO3, PIA, KIAA1999
5	RICTOR	ENSG00000164327	ENST00000509567	processed_transcript	KNOWN	None	28611	None	None	38963053	38970722	-1	None	MGC39830, AVO3, PIA, KIAA1999
5	RICTOR	ENSG00000164327	ENST00000515846	retained_intron	KNOWN	None	28611	None	None	38966917	38972063	-1	None	MGC39830, AVO3, PIA, KIAA1999
5	RICTOR	ENSG00000164327	ENST00000510711	retained_intron	KNOWN	None	28611	None	None	38969789	39074491	-1	None	MGC39830, AVO3, PIA, KIAA1999
5	RICTOR	ENSG00000164327	ENST00000513566	retained_intron	KNOWN	None	28611	None	None	38980982	39074501	-1	None	MGC39830, AVO3, PIA, KIAA1999
5	RICTOR	ENSG00000164327	ENST00000514735	protein_coding	PUTATIVE	None	28611	674	223	38982000	39074491	-1	None	MGC39830, AVO3, PIA, KIAA1999
8	None	ENSG00000271248	ENST00000604640	processed_pseudogene	KNOWN	None	None	None	None	5312740	5313187	-1	None	None
2	RN7SL670P	ENSG00000264041	ENST00000577235	misc_RNA	KNOWN	None	46686	None	None	204124327	204124618	1	None	None
8	None	ENSG00000240486	ENST00000495129	processed_pseudogene	KNOWN	None	None	None	None	5334070	5334488	1	None	None
2	MRPL50P2	ENSG00000238285	ENST00000416821	processed_pseudogene	KNOWN	None	29720	None	None	204180113	204180594	-1	None	None
7	PSMC2	ENSG00000161057	ENST00000457587	protein_coding	KNOWN	None	9548	391	129	102984701	103002504	1	None	MSS1, S7, Nbla10058
7	PSMC2	ENSG00000161057	ENST00000425206	protein_coding	KNOWN	None	9548	391	129	102984713	103002504	1	None	MSS1, S7, Nbla10058
7	PSMC2	ENSG00000161057	ENST00000435765	protein_coding	KNOWN	CCDS5731	9548	1302	433	102985361	103009842	1	None	MSS1, S7, Nbla10058
7	PSMC2	ENSG00000161057	ENST00000460021	retained_intron	KNOWN	None	9548	None	None	102994366	103002914	1	None	MSS1, S7, Nbla10058
7	PSMC2	ENSG00000161057	ENST00000292644	protein_coding	KNOWN	CCDS5731	9548	1302	433	102988089	103008655	1	None	MSS1, S7, Nbla10058
7	PSMC2	ENSG00000161057	ENST00000544811	protein_coding	KNOWN	None	9548	891	296	102988110	103008665	1	None	MSS1, S7, Nbla10058
14	None	ENSG00000239327	ENST00000496941	processed_pseudogene	KNOWN	None	None	None	None	21084803	21085150	-1	None	None
18	None	ENSG00000252284	ENST00000516475	snoRNA	NOVEL	None	None	None	None	56267863	56267930	1	None	None
6	None	ENSG00000268592	ENST00000606915	antisense	KNOWN	None	None	None	None	150184630	150240643	1	None	None
6	None	ENSG00000268592	ENST00000596229	antisense	KNOWN	None	None	None	None	150183733	150185472	1	None	None
2	None	ENSG00000256458	ENST00000469747	antisense	KNOWN	None	None	None	None	204193182	204193949	-1	None	None
HG1133_PATCH	TAS2R63P	ENSG00000262431	ENST00000571742	processed_pseudogene	KNOWN	None	20641	None	None	11201237	11202161	-1	None	None
X	None	ENSG00000230312	ENST00000451950	processed_pseudogene	KNOWN	None	None	None	None	103182679	103183597	1	None	None
8	None	ENSG00000253116	ENST00000518536	lincRNA	KNOWN	None	None	None	None	59004001	59018853	-1	None	None
18	RPL9P31	ENSG00000239659	ENST00000495117	processed_pseudogene	KNOWN	None	36617	None	None	56298491	56299352	1	None	None
16	None	ENSG00000260681	ENST00000568635	antisense	KNOWN	None	None	None	None	19422051	19422984	-1	None	None
1	DVL1	ENSG00000107404	ENST00000378891	protein_coding	KNOWN	CCDS22	3084	2013	670	1270656	1284492	-1	None	None
1	DVL1	ENSG00000107404	ENST00000378888	protein_coding	KNOWN	None	3084	2088	695	1270656	1284730	-1	None	None
1	DVL1	ENSG00000107404	ENST00000472445	retained_intron	KNOWN	None	3084	None	None	1277150	1284335	-1	None	None
8	None	ENSG00000253510	ENST00000517807	lincRNA	KNOWN	None	None	None	None	5363590	5366648	-1	None	None
HG1308_PATCH	None	ENSG00000271706	ENST00000604503	antisense	KNOWN	None	None	None	None	130135635	130138268	-1	None	None
4	None	ENSG00000251266	ENST00000513836	lincRNA	KNOWN	None	None	None	None	59850000	59912675	1	None	None
4	None	ENSG00000251266	ENST00000509782	lincRNA	KNOWN	None	None	None	None	59879291	59912677	1	None	None
16	None	ENSG00000259971	ENST00000564291	lincRNA	KNOWN	None	None	None	None	73545075	73545553	1	None	None
15	None	ENSG00000259369	ENST00000557862	processed_pseudogene	KNOWN	None	None	None	None	56038837	56038965	1	None	None
HG1133_PATCH	None	ENSG00000262324	ENST00000576142	unprocessed_pseudogene	KNOWN	None	None	None	None	11232340	11233269	-1	None	None
14	None	ENSG00000199461	ENST00000362591	misc_RNA	NOVEL	None	None	None	None	21147570	21147671	1	None	None
2	None	ENSG00000233459	ENST00000430003	processed_pseudogene	KNOWN	None	None	None	None	204499300	204500739	-1	None	None
6	CCT7P1	ENSG00000217733	ENST00000406551	processed_pseudogene	KNOWN	None	35149	None	None	150201098	150202708	1	None	None
16	None	ENSG00000260848	ENST00000567227	lincRNA	KNOWN	None	None	None	None	73577840	73592421	1	None	None
HG1308_PATCH	None	ENSG00000270869	ENST00000605074	antisense	KNOWN	None	None	None	None	130147501	130148123	1	None	None
15	None	ENSG00000258721	ENST00000554547	processed_pseudogene	KNOWN	None	None	None	None	22297499	22298480	-1	None	None
5	PCDHA14	ENSG00000249504	ENST00000506751	transcribed_processed_pseudogene	KNOWN	None	2163	None	None	140240860	140243104	1	CNRS3	CNR3, CRNR3, PCDH-PSI4
5	PCDHA14	ENSG00000249504	ENST00000562220	processed_transcript	PUTATIVE	None	2163	None	None	140242619	140243102	1	CNRS3	CNR3, CRNR3, PCDH-PSI4
2	None	ENSG00000233031	ENST00000448842	processed_pseudogene	KNOWN	None	None	None	None	204536898	204537146	-1	None	None
HG1133_PATCH	None	ENSG00000262233	ENST00000576806	unprocessed_pseudogene	KNOWN	None	None	None	None	11245762	11246691	-1	None	None
18	None	ENSG00000267226	ENST00000588144	antisense	KNOWN	None	None	None	None	56337712	56339109	-1	None	None
4	None	ENSG00000249382	ENST00000512911	lincRNA	KNOWN	None	None	None	None	59852905	59853836	-1	None	None
4	None	ENSG00000249382	ENST00000514707	lincRNA	KNOWN	None	None	None	None	59853221	59853878	-1	None	None
4	None	ENSG00000249382	ENST00000507912	retained_intron	KNOWN	None	None	None	None	59853249	59853870	-1	None	None
16	None	ENSG00000259817	ENST00000565061	lincRNA	KNOWN	None	None	None	None	73846520	73849953	1	None	None
2	KRT18P39	ENSG00000224791	ENST00000415349	processed_pseudogene	KNOWN	None	33408	None	None	204629018	204630316	-1	None	None
HG1308_PATCH	None	ENSG00000270515	ENST00000605205	antisense	KNOWN	None	None	None	None	130149781	130151893	1	None	None
14	None	ENSG00000270038	ENST00000602953	lincRNA	KNOWN	None	None	None	None	96110845	96111569	1	None	None
18	None	ENSG00000267476	ENST00000588835	antisense	KNOWN	None	None	None	None	56339845	56419962	-1	None	None
18	None	ENSG00000267476	ENST00000587080	antisense	KNOWN	None	None	None	None	56339970	56344846	-1	None	None
16	None	ENSG00000260592	ENST00000561762	antisense	KNOWN	None	None	None	None	19488238	19499221	-1	None	None
6	None	ENSG00000223701	ENST00000605899	antisense	KNOWN	None	None	None	None	150205567	150240642	1	None	None
6	None	ENSG00000223701	ENST00000446954	antisense	KNOWN	None	None	None	None	150211239	150240644	1	None	None
HG1308_PATCH	COPG2IT1	ENSG00000270561	ENST00000579965	antisense	KNOWN	None	2238	None	None	130207103	130210545	1	None	CIT1, NCRNA00170, COPG2AS
16	RPSAP56	ENSG00000225178	ENST00000484897	processed_pseudogene	KNOWN	None	36018	None	None	73974538	73975423	-1	None	None
1	None	ENSG00000232848	ENST00000399343	processed_pseudogene	KNOWN	None	None	None	None	8117305	8118523	-1	None	None
5	None	ENSG00000272154	ENST00000607216	antisense	KNOWN	None	None	None	None	140479829	140481794	-1	None	None
HG1133_PATCH	TAS2R18	ENSG00000261885	ENST00000572038	processed_pseudogene	KNOWN	None	19107	None	None	11307670	11308579	-1	TAS2R65P	T2R18, TAS2R65
8	None	ENSG00000242595	ENST00000480251	processed_pseudogene	KNOWN	None	None	None	None	59025748	59026181	-1	None	None
6	C6orf10	ENSG00000204296	ENST00000442822	protein_coding	PUTATIVE	None	13922	1407	468	32256303	32339676	-1	None	TSBP
6	C6orf10	ENSG00000204296	ENST00000447241	protein_coding	KNOWN	CCDS34422	13922	1692	563	32260475	32339656	-1	None	TSBP
6	C6orf10	ENSG00000204296	ENST00000375015	protein_coding	NOVEL	None	13922	1689	562	32260475	32339684	-1	None	TSBP
6	C6orf10	ENSG00000204296	ENST00000533191	protein_coding	NOVEL	None	13922	1686	561	32260475	32339684	-1	None	TSBP
6	C6orf10	ENSG00000204296	ENST00000527965	protein_coding	NOVEL	None	13922	1644	547	32260492	32339649	-1	None	TSBP
6	C6orf10	ENSG00000204296	ENST00000532023	protein_coding	NOVEL	None	13922	397	131	32303707	32339649	-1	None	TSBP
6	C6orf10	ENSG00000204296	ENST00000534588	protein_coding	NOVEL	None	13922	376	124	32304407	32339656	-1	None	TSBP
6	C6orf10	ENSG00000204296	ENST00000375007	protein_coding	KNOWN	None	13922	1686	561	32260492	32339656	-1	None	TSBP
8	None	ENSG00000254007	ENST00000518926	lincRNA	KNOWN	None	None	None	None	5517201	5527599	-1	None	None
4	None	ENSG00000250375	ENST00000502668	lincRNA	KNOWN	None	None	None	None	59912738	59940974	-1	None	None
18	MRPL37P1	ENSG00000266946	ENST00000592451	processed_pseudogene	KNOWN	None	31003	None	None	56357588	56359385	1	None	HsT4307
5	None	ENSG00000272108	ENST00000606030	lincRNA	KNOWN	None	None	None	None	140498262	140500347	1	None	None
13	ST13P4	ENSG00000232150	ENST00000495613	processed_pseudogene	KNOWN	None	18487	None	None	50746225	50747317	1	FAM10A4	FAM10A4P
4	None	ENSG00000249111	ENST00000512546	lincRNA	KNOWN	None	None	None	None	60018552	60041864	1	None	None
14	None	ENSG00000259171	ENST00000553909	processed_transcript	KNOWN	None	None	None	None	21152746	21168735	1	None	None
15	None	ENSG00000221218	ENST00000408291	miRNA	NOVEL	None	None	None	None	56053215	56053300	-1	None	None
16	None	ENSG00000261404	ENST00000569389	lincRNA	KNOWN	None	None	None	None	74088050	74330649	-1	None	None
16	None	ENSG00000261404	ENST00000568137	lincRNA	KNOWN	None	None	None	None	74226291	74249420	-1	None	None
16	None	ENSG00000261404	ENST00000562888	lincRNA	KNOWN	None	None	None	None	74239994	74330660	-1	None	None
4	None	ENSG00000199780	ENST00000362910	misc_RNA	NOVEL	None	None	None	None	60399504	60399616	1	None	None
16	RNU4-46P	ENSG00000222750	ENST00000410818	snRNA	KNOWN	None	46982	None	None	19509932	19510069	1	None	None
4	None	ENSG00000249392	ENST00000504537	lincRNA	KNOWN	None	None	None	None	60416860	60496042	-1	None	None
16	None	ENSG00000260934	ENST00000569345	antisense	KNOWN	None	None	None	None	19513011	19513608	1	None	None
HSCHR6_MHC_QBL	TRIM40	ENSG00000172524	ENST00000383610	protein_coding	KNOWN	None	18736	777	258	30093435	30106063	1	None	RNF35
HSCHR6_MHC_QBL	TRIM40	ENSG00000172524	ENST00000476094	processed_transcript	KNOWN	None	18736	None	None	30093451	30094525	1	None	RNF35
HSCHR6_MHC_QBL	TRIM40	ENSG00000172524	ENST00000400651	protein_coding	KNOWN	None	18736	690	229	30094337	30106063	1	None	RNF35
HSCHR6_MHC_QBL	TRIM40	ENSG00000172524	ENST00000547289	protein_coding	KNOWN	None	18736	777	258	30094060	30106063	1	None	RNF35
12	GLI1	ENSG00000111087	ENST00000532291	protein_coding	KNOWN	None	4317	526	174	57853918	57860170	1	GLI	None
12	GLI1	ENSG00000111087	ENST00000228682	protein_coding	KNOWN	CCDS8940	4317	3321	1106	57853921	57866045	1	GLI	None
12	GLI1	ENSG00000111087	ENST00000528432	protein_coding	KNOWN	None	4317	388	128	57854274	57858650	1	GLI	None
12	GLI1	ENSG00000111087	ENST00000530789	retained_intron	KNOWN	None	4317	None	None	57854296	57858726	1	GLI	None
12	GLI1	ENSG00000111087	ENST00000528467	protein_coding	KNOWN	None	4317	3196	1064	57857475	57865842	1	GLI	None
12	GLI1	ENSG00000111087	ENST00000527742	retained_intron	KNOWN	None	4317	None	None	57859158	57859924	1	GLI	None
12	GLI1	ENSG00000111087	ENST00000546141	protein_coding	KNOWN	CCDS53806	4317	3198	1065	57853934	57866043	1	GLI	None
12	GLI1	ENSG00000111087	ENST00000543426	protein_coding	KNOWN	CCDS53807	4317	2937	978	57853918	57866043	1	GLI	None
1	FCGR2B	ENSG00000072694	ENST00000236937	protein_coding	KNOWN	CCDS30925	3618	876	291	161632937	161647812	1	FCG2, FCGR2	CD32, CD32B
1	FCGR2B	ENSG00000072694	ENST00000367961	protein_coding	KNOWN	CCDS53414	3618	912	303	161632951	161647822	1	FCG2, FCGR2	CD32, CD32B
1	FCGR2B	ENSG00000072694	ENST00000358671	protein_coding	KNOWN	CCDS30924	3618	933	310	161632951	161648444	1	FCG2, FCGR2	CD32, CD32B
1	FCGR2B	ENSG00000072694	ENST00000480308	retained_intron	KNOWN	None	3618	None	None	161632982	161647843	1	FCG2, FCGR2	CD32, CD32B
1	FCGR2B	ENSG00000072694	ENST00000485778	retained_intron	KNOWN	None	3618	None	None	161632989	161643906	1	FCG2, FCGR2	CD32, CD32B
1	FCGR2B	ENSG00000072694	ENST00000367962	protein_coding	KNOWN	None	3618	933	310	161551101	161648440	1	FCG2, FCGR2	CD32, CD32B
1	FCGR2B	ENSG00000072694	ENST00000367960	protein_coding	KNOWN	None	3618	912	303	161551101	161648440	1	FCG2, FCGR2	CD32, CD32B
1	FCGR2B	ENSG00000072694	ENST00000403078	protein_coding	KNOWN	None	3618	876	291	161551101	161648440	1	FCG2, FCGR2	CD32, CD32B
1	FCGR2B	ENSG00000072694	ENST00000428605	protein_coding	KNOWN	None	3618	705	234	161551226	161643863	1	FCG2, FCGR2	CD32, CD32B
2	C2orf15	ENSG00000241962	ENST00000302513	protein_coding	KNOWN	CCDS2038	28436	378	125	99757948	99767950	1	None	MGC29762
2	C2orf15	ENSG00000241962	ENST00000424491	nonsense_mediated_decay	KNOWN	None	28436	576	191	99757948	99939196	1	None	MGC29762
2	C2orf15	ENSG00000241962	ENST00000409684	protein_coding	KNOWN	CCDS2038	28436	378	125	99758213	99767510	1	None	MGC29762
2	C2orf15	ENSG00000241962	ENST00000496794	retained_intron	KNOWN	None	28436	None	None	99758413	99763953	1	None	MGC29762
2	C2orf15	ENSG00000241962	ENST00000465095	processed_transcript	KNOWN	None	28436	None	None	99923905	99939204	1	None	MGC29762
2	C2orf15	ENSG00000241962	ENST00000512183	protein_coding	KNOWN	CCDS2041	28436	486	161	99797578	99814089	1	None	MGC29762
11	None	ENSG00000263873	ENST00000578216	sense_intronic	KNOWN	None	None	None	None	119288661	119289824	1	None	None
X	None	ENSG00000260831	ENST00000563938	sense_intronic	KNOWN	None	None	None	None	103197629	103202112	1	None	None
5	PCDHB9	ENSG00000177839	ENST00000316105	pseudogene	KNOWN	None	8694	None	None	140566893	140571111	1	None	PCDH-BETA9, PCDH3H
16	None	ENSG00000260471	ENST00000563335	processed_pseudogene	KNOWN	None	None	None	None	74254828	74255326	1	None	None
8	None	ENSG00000253571	ENST00000520775	processed_pseudogene	KNOWN	None	None	None	None	5706219	5707214	1	None	None
HSCHR4_1	None	ENSG00000257745	ENST00000549514	protein_coding	KNOWN	None	None	1587	528	69564040	69580068	1	None	None
19	ZNF791	ENSG00000173875	ENST00000446165	protein_coding	PUTATIVE	None	26895	210	69	12721732	12740461	1	None	FLJ90396
19	ZNF791	ENSG00000173875	ENST00000343325	protein_coding	KNOWN	CCDS12273	26895	1731	576	12721732	12742735	1	None	FLJ90396
19	ZNF791	ENSG00000173875	ENST00000597691	nonsense_mediated_decay	KNOWN	None	26895	135	44	12721734	12738619	1	None	FLJ90396
19	ZNF791	ENSG00000173875	ENST00000598225	nonsense_mediated_decay	KNOWN	None	26895	108	35	12721734	12738796	1	None	FLJ90396
19	ZNF791	ENSG00000173875	ENST00000600752	protein_coding	PUTATIVE	None	26895	250	82	12721768	12738920	1	None	FLJ90396
19	ZNF791	ENSG00000173875	ENST00000498389	processed_transcript	KNOWN	None	26895	None	None	12721772	12723208	1	None	FLJ90396
19	ZNF791	ENSG00000173875	ENST00000458122	protein_coding	KNOWN	None	26895	1635	544	12721734	12740329	1	None	FLJ90396
19	ZNF791	ENSG00000173875	ENST00000540038	protein_coding	KNOWN	None	26895	1404	467	12721768	12740259	1	None	FLJ90396
16	NPIPB8	ENSG00000255524	ENST00000529716	protein_coding	NOVEL	None	37490	1299	432	28648975	28670003	1	None	None
16	NPIPB8	ENSG00000255524	ENST00000526428	protein_coding	PUTATIVE	None	37490	435	144	28663555	28668269	1	None	None
17	RPL27	ENSG00000131469	ENST00000589037	protein_coding	KNOWN	CCDS11449	10328	411	136	41150290	41154966	1	None	L27
17	RPL27	ENSG00000131469	ENST00000587478	retained_intron	KNOWN	None	10328	None	None	41150436	41151296	1	None	L27
17	RPL27	ENSG00000131469	ENST00000593262	retained_intron	KNOWN	None	10328	None	None	41150436	41154965	1	None	L27
17	RPL27	ENSG00000131469	ENST00000253788	protein_coding	KNOWN	CCDS11449	10328	411	136	41150451	41154976	1	None	L27
17	RPL27	ENSG00000131469	ENST00000588830	nonsense_mediated_decay	KNOWN	None	10328	123	40	41150453	41154976	1	None	L27
17	RPL27	ENSG00000131469	ENST00000589913	protein_coding	KNOWN	CCDS11449	10328	411	136	41150494	41154949	1	None	L27
17	RPL27	ENSG00000131469	ENST00000586277	protein_coding	NOVEL	None	10328	434	143	41150826	41154963	1	None	L27
17	RPL27	ENSG00000131469	ENST00000590864	protein_coding	PUTATIVE	None	10328	243	80	41151739	41154965	1	None	L27
20	GINS1	ENSG00000101003	ENST00000262460	protein_coding	KNOWN	CCDS33451	28980	591	196	25388363	25429191	1	None	KIAA0186, PSF1
20	GINS1	ENSG00000101003	ENST00000484893	processed_transcript	KNOWN	None	28980	None	None	25388367	25398831	1	None	KIAA0186, PSF1
20	GINS1	ENSG00000101003	ENST00000473460	processed_transcript	KNOWN	None	28980	None	None	25394093	25397882	1	None	KIAA0186, PSF1
20	GINS1	ENSG00000101003	ENST00000481735	processed_transcript	KNOWN	None	28980	None	None	25423660	25433264	1	None	KIAA0186, PSF1
20	GINS1	ENSG00000101003	ENST00000429262	protein_coding	KNOWN	None	28980	498	165	25388365	25426978	1	None	KIAA0186, PSF1
7	None	ENSG00000225414	ENST00000452114	processed_pseudogene	KNOWN	None	None	None	None	64721415	64721774	1	None	None
X	DPPA3P1	ENSG00000227067	ENST00000448050	processed_pseudogene	KNOWN	None	32345	None	None	103216384	103216852	-1	None	None
X	DPPA3P1	ENSG00000227067	ENST00000451146	processed_pseudogene	KNOWN	None	32345	None	None	103216382	103216864	-1	None	None
17	TMEM104	ENSG00000109066	ENST00000417024	protein_coding	PUTATIVE	None	25984	984	327	72772638	72835891	1	None	FLJ20255, FLJ00021
17	TMEM104	ENSG00000109066	ENST00000578764	protein_coding	NOVEL	None	25984	389	128	72772639	72791728	1	None	FLJ20255, FLJ00021
17	TMEM104	ENSG00000109066	ENST00000582773	protein_coding	PUTATIVE	None	25984	945	314	72772639	72835890	1	None	FLJ20255, FLJ00021
17	TMEM104	ENSG00000109066	ENST00000584246	retained_intron	KNOWN	None	25984	None	None	72772648	72781819	1	None	FLJ20255, FLJ00021
17	TMEM104	ENSG00000109066	ENST00000582330	protein_coding	KNOWN	CCDS32723	25984	1491	496	72772659	72835892	1	None	FLJ20255, FLJ00021
17	TMEM104	ENSG00000109066	ENST00000584171	processed_transcript	KNOWN	None	25984	None	None	72833238	72834047	1	None	FLJ20255, FLJ00021
17	TMEM104	ENSG00000109066	ENST00000335464	protein_coding	KNOWN	CCDS32723	25984	1491	496	72772622	72835918	1	None	FLJ20255, FLJ00021
14	TCL6	ENSG00000187621	ENST00000357168	retained_intron	KNOWN	None	13463	None	None	96116835	96137897	1	None	TCL6e1, TNG2, TNG1
14	TCL6	ENSG00000187621	ENST00000460130	lincRNA	KNOWN	None	13463	None	None	96116838	96120984	1	None	TCL6e1, TNG2, TNG1
14	TCL6	ENSG00000187621	ENST00000483087	lincRNA	KNOWN	None	13463	None	None	96117515	96138187	1	None	TCL6e1, TNG2, TNG1
14	TCL6	ENSG00000187621	ENST00000459662	lincRNA	KNOWN	None	13463	None	None	96117515	96139789	1	None	TCL6e1, TNG2, TNG1
14	TCL6	ENSG00000187621	ENST00000484207	retained_intron	KNOWN	None	13463	None	None	96129593	96138187	1	None	TCL6e1, TNG2, TNG1
14	TCL6	ENSG00000187621	ENST00000467865	lincRNA	KNOWN	None	13463	None	None	96129593	96139789	1	None	TCL6e1, TNG2, TNG1
14	TCL6	ENSG00000187621	ENST00000352367	lincRNA	KNOWN	None	13463	None	None	96129593	96146170	1	None	TCL6e1, TNG2, TNG1
14	TCL6	ENSG00000187621	ENST00000497248	retained_intron	KNOWN	None	13463	None	None	96129593	96146170	1	None	TCL6e1, TNG2, TNG1
14	TCL6	ENSG00000187621	ENST00000486671	retained_intron	KNOWN	None	13463	None	None	96131199	96136751	1	None	TCL6e1, TNG2, TNG1
14	TCL6	ENSG00000187621	ENST00000465501	retained_intron	KNOWN	None	13463	None	None	96135821	96144437	1	None	TCL6e1, TNG2, TNG1
14	TCL6	ENSG00000187621	ENST00000495696	lincRNA	KNOWN	None	13463	None	None	96136779	96143473	1	None	TCL6e1, TNG2, TNG1
15	None	ENSG00000259324	ENST00000558299	processed_pseudogene	KNOWN	None	None	None	None	22318882	22319785	-1	None	None
16	None	ENSG00000261312	ENST00000565916	antisense	KNOWN	None	None	None	None	19717673	19726705	1	None	None
4	None	ENSG00000249892	ENST00000511603	lincRNA	KNOWN	None	None	None	None	60633534	60657832	-1	None	None
3	None	ENSG00000244738	ENST00000497988	sense_intronic	KNOWN	None	None	None	None	170374351	170379912	1	None	None
10	None	ENSG00000263658	ENST00000581650	miRNA	NOVEL	None	None	None	None	120390435	120390554	-1	None	None
14	None	ENSG00000258451	ENST00000554286	lincRNA	KNOWN	None	None	None	None	21161639	21175279	-1	None	None
12	STAT6	ENSG00000166888	ENST00000300134	protein_coding	KNOWN	CCDS8931	11368	2544	847	57489191	57505216	-1	None	D12S1644, IL-4-STAT
12	STAT6	ENSG00000166888	ENST00000555222	retained_intron	KNOWN	None	11368	None	None	57489687	57496230	-1	None	D12S1644, IL-4-STAT
12	STAT6	ENSG00000166888	ENST00000538913	protein_coding	NOVEL	CCDS53804	11368	2214	737	57489983	57505129	-1	None	D12S1644, IL-4-STAT
12	STAT6	ENSG00000166888	ENST00000557563	retained_intron	KNOWN	None	11368	None	None	57490026	57491073	-1	None	D12S1644, IL-4-STAT
12	STAT6	ENSG00000166888	ENST00000543873	protein_coding	KNOWN	CCDS8931	11368	2544	847	57490031	57504089	-1	None	D12S1644, IL-4-STAT
12	STAT6	ENSG00000166888	ENST00000556155	protein_coding	KNOWN	CCDS8931	11368	2544	847	57490124	57522883	-1	None	D12S1644, IL-4-STAT
12	STAT6	ENSG00000166888	ENST00000537215	protein_coding	NOVEL	CCDS53804	11368	2214	737	57490128	57505142	-1	None	D12S1644, IL-4-STAT
12	STAT6	ENSG00000166888	ENST00000454075	protein_coding	KNOWN	CCDS8931	11368	2544	847	57490148	57505157	-1	None	D12S1644, IL-4-STAT
12	STAT6	ENSG00000166888	ENST00000554764	nonsense_mediated_decay	KNOWN	None	11368	117	38	57490229	57505136	-1	None	D12S1644, IL-4-STAT
12	STAT6	ENSG00000166888	ENST00000555318	protein_coding	PUTATIVE	None	11368	465	154	57490888	57493577	-1	None	D12S1644, IL-4-STAT
12	STAT6	ENSG00000166888	ENST00000554202	retained_intron	KNOWN	None	11368	None	None	57492528	57492887	-1	None	D12S1644, IL-4-STAT
12	STAT6	ENSG00000166888	ENST00000555375	protein_coding	PUTATIVE	None	11368	464	153	57493202	57496773	-1	None	D12S1644, IL-4-STAT
12	STAT6	ENSG00000166888	ENST00000553533	protein_coding	PUTATIVE	None	11368	868	288	57493581	57499035	-1	None	D12S1644, IL-4-STAT
12	STAT6	ENSG00000166888	ENST00000557781	retained_intron	KNOWN	None	11368	None	None	57497056	57499100	-1	None	D12S1644, IL-4-STAT
12	STAT6	ENSG00000166888	ENST00000555641	retained_intron	KNOWN	None	11368	None	None	57498251	57502066	-1	None	D12S1644, IL-4-STAT
12	STAT6	ENSG00000166888	ENST00000555849	protein_coding	KNOWN	None	11368	478	158	57500476	57504326	-1	None	D12S1644, IL-4-STAT
12	STAT6	ENSG00000166888	ENST00000556259	protein_coding	NOVEL	None	11368	424	140	57500476	57505014	-1	None	D12S1644, IL-4-STAT
12	STAT6	ENSG00000166888	ENST00000553499	protein_coding	KNOWN	None	11368	463	153	57500491	57525922	-1	None	D12S1644, IL-4-STAT
12	STAT6	ENSG00000166888	ENST00000553397	protein_coding	KNOWN	None	11368	434	143	57500520	57504975	-1	None	D12S1644, IL-4-STAT
12	STAT6	ENSG00000166888	ENST00000555104	nonsense_mediated_decay	KNOWN	None	11368	117	38	57500533	57504072	-1	None	D12S1644, IL-4-STAT
12	STAT6	ENSG00000166888	ENST00000554663	protein_coding	KNOWN	None	11368	314	103	57501039	57504089	-1	None	D12S1644, IL-4-STAT
12	STAT6	ENSG00000166888	ENST00000554825	protein_coding	KNOWN	None	11368	309	102	57501044	57505157	-1	None	D12S1644, IL-4-STAT
12	STAT6	ENSG00000166888	ENST00000557635	protein_coding	KNOWN	None	11368	223	73	57501420	57504123	-1	None	D12S1644, IL-4-STAT
12	STAT6	ENSG00000166888	ENST00000553275	protein_coding	KNOWN	None	11368	194	63	57501449	57505196	-1	None	D12S1644, IL-4-STAT
22	None	ENSG00000237862	ENST00000445088	lincRNA	KNOWN	None	None	None	None	37748230	37750879	-1	None	None
3	GMNC	ENSG00000205835	ENST00000495042	retained_intron	KNOWN	None	40049	None	None	190570666	190575849	-1	None	GEMC1
3	GMNC	ENSG00000205835	ENST00000442080	protein_coding	KNOWN	CCDS54697	40049	1005	334	190570667	190580404	-1	None	GEMC1
3	GMNC	ENSG00000205835	ENST00000479491	processed_transcript	KNOWN	None	40049	None	None	190573433	190610218	-1	None	GEMC1
3	GMNC	ENSG00000205835	ENST00000456552	nonsense_mediated_decay	KNOWN	None	40049	192	63	190575579	190580465	-1	None	GEMC1
16	None	ENSG00000261195	ENST00000564490	antisense	KNOWN	None	None	None	None	19772494	19777421	-1	None	None
16	None	ENSG00000261195	ENST00000568843	antisense	KNOWN	None	None	None	None	19772672	19777366	-1	None	None
16	None	ENSG00000261195	ENST00000565817	antisense	KNOWN	None	None	None	None	19772882	19777392	-1	None	None
10	TOMM22P5	ENSG00000225155	ENST00000416399	processed_pseudogene	KNOWN	None	38741	None	None	120403272	120403710	1	None	None
10	TOMM22P5	ENSG00000225155	ENST00000450572	processed_pseudogene	KNOWN	None	38741	None	None	120403279	120403710	1	None	None
4	None	ENSG00000201676	ENST00000364806	misc_RNA	NOVEL	None	None	None	None	60698893	60698994	1	None	None
16	TXNL4B	ENSG00000140830	ENST00000562153	protein_coding	PUTATIVE	None	26041	353	116	72078188	72127456	-1	None	FLJ20511, DLP, Dim2
16	TXNL4B	ENSG00000140830	ENST00000268483	protein_coding	KNOWN	CCDS10906	26041	450	149	72118752	72127550	-1	None	FLJ20511, DLP, Dim2
16	TXNL4B	ENSG00000140830	ENST00000426362	protein_coding	KNOWN	CCDS10906	26041	450	149	72120296	72128330	-1	None	FLJ20511, DLP, Dim2
16	TXNL4B	ENSG00000140830	ENST00000565171	nonsense_mediated_decay	KNOWN	None	26041	174	57	72120614	72127451	-1	None	FLJ20511, DLP, Dim2
16	TXNL4B	ENSG00000140830	ENST00000569767	protein_coding	KNOWN	None	26041	284	93	72122886	72127768	-1	None	FLJ20511, DLP, Dim2
16	TXNL4B	ENSG00000140830	ENST00000423037	protein_coding	KNOWN	CCDS10906	26041	450	149	72118758	72127768	-1	None	FLJ20511, DLP, Dim2
17	LGALS9	ENSG00000168961	ENST00000395473	protein_coding	KNOWN	CCDS11222	6570	1068	355	25956824	25976586	1	None	LGALS9A
17	LGALS9	ENSG00000168961	ENST00000302228	protein_coding	KNOWN	CCDS32592	6570	972	323	25956824	25976586	1	None	LGALS9A
17	LGALS9	ENSG00000168961	ENST00000313648	protein_coding	NOVEL	None	6570	741	246	25958174	25976459	1	None	LGALS9A
17	LGALS9	ENSG00000168961	ENST00000580779	nonsense_mediated_decay	KNOWN	None	6570	228	75	25958193	25974360	1	None	LGALS9A
17	LGALS9	ENSG00000168961	ENST00000579930	retained_intron	KNOWN	None	6570	None	None	25958214	25969449	1	None	LGALS9A
17	LGALS9	ENSG00000168961	ENST00000577392	protein_coding	NOVEL	None	6570	525	174	25958219	25974136	1	None	LGALS9A
17	LGALS9	ENSG00000168961	ENST00000584661	protein_coding	PUTATIVE	None	6570	345	114	25958221	25972925	1	None	LGALS9A
17	LGALS9	ENSG00000168961	ENST00000448970	processed_transcript	KNOWN	None	6570	None	None	25958235	25968049	1	None	LGALS9A
17	LGALS9	ENSG00000168961	ENST00000579402	retained_intron	KNOWN	None	6570	None	None	25958237	25965750	1	None	LGALS9A
17	LGALS9	ENSG00000168961	ENST00000467111	nonsense_mediated_decay	KNOWN	None	6570	228	75	25958240	25976567	1	None	LGALS9A
17	LGALS9	ENSG00000168961	ENST00000584386	retained_intron	KNOWN	None	6570	None	None	25958252	25974190	1	None	LGALS9A
17	LGALS9	ENSG00000168961	ENST00000583671	retained_intron	KNOWN	None	6570	None	None	25967413	25970607	1	None	LGALS9A
17	LGALS9	ENSG00000168961	ENST00000581710	protein_coding	NOVEL	None	6570	412	136	25967760	25976282	1	None	LGALS9A
17	LGALS9	ENSG00000168961	ENST00000578944	protein_coding	NOVEL	None	6570	377	124	25970566	25974409	1	None	LGALS9A
17	LGALS9	ENSG00000168961	ENST00000481514	retained_intron	KNOWN	None	6570	None	None	25971091	25976580	1	None	LGALS9A
17	LGALS9	ENSG00000168961	ENST00000486774	retained_intron	KNOWN	None	6570	None	None	25971152	25976581	1	None	LGALS9A
17	LGALS9	ENSG00000168961	ENST00000310394	protein_coding	KNOWN	None	6570	936	311	25956824	25976579	1	None	LGALS9A
17	LGALS9	ENSG00000168961	ENST00000413914	protein_coding	KNOWN	None	6570	666	221	25958233	25976581	1	None	LGALS9A
4	RNU6-1325P	ENSG00000201775	ENST00000364905	snRNA	KNOWN	None	48288	None	None	60699781	60699885	1	None	None
8	RN7SKP159	ENSG00000222589	ENST00000410657	misc_RNA	KNOWN	None	45883	None	None	5768467	5768758	-1	None	None
1	ACOT7	ENSG00000097021	ENST00000377842	protein_coding	KNOWN	CCDS67	24157	990	329	6324333	6419404	-1	None	BACH, ACH1, ACT, CTE-II, LACH1, MGC1126, hBACH
1	ACOT7	ENSG00000097021	ENST00000377845	protein_coding	KNOWN	CCDS66	24157	1053	350	6324333	6420767	-1	None	BACH, ACH1, ACT, CTE-II, LACH1, MGC1126, hBACH
1	ACOT7	ENSG00000097021	ENST00000377855	protein_coding	KNOWN	CCDS65	24157	1143	380	6324333	6445873	-1	None	BACH, ACH1, ACT, CTE-II, LACH1, MGC1126, hBACH
1	ACOT7	ENSG00000097021	ENST00000377860	nonsense_mediated_decay	KNOWN	None	24157	852	283	6324333	6453421	-1	None	BACH, ACH1, ACT, CTE-II, LACH1, MGC1126, hBACH
1	ACOT7	ENSG00000097021	ENST00000418124	nonsense_mediated_decay	KNOWN	None	24157	741	246	6324333	6453421	-1	None	BACH, ACH1, ACT, CTE-II, LACH1, MGC1126, hBACH
1	ACOT7	ENSG00000097021	ENST00000361521	protein_coding	KNOWN	CCDS30573	24157	1113	370	6324333	6454451	-1	None	BACH, ACH1, ACT, CTE-II, LACH1, MGC1126, hBACH
1	ACOT7	ENSG00000097021	ENST00000473466	protein_coding	PUTATIVE	None	24157	839	278	6341190	6412309	-1	None	BACH, ACH1, ACT, CTE-II, LACH1, MGC1126, hBACH
1	ACOT7	ENSG00000097021	ENST00000481175	retained_intron	KNOWN	None	24157	None	None	6341313	6355564	-1	None	BACH, ACH1, ACT, CTE-II, LACH1, MGC1126, hBACH
1	ACOT7	ENSG00000097021	ENST00000545482	protein_coding	KNOWN	None	24157	798	265	6324333	6453438	-1	None	BACH, ACH1, ACT, CTE-II, LACH1, MGC1126, hBACH
1	ACOT7	ENSG00000097021	ENST00000541130	protein_coding	KNOWN	None	24157	672	223	6366175	6420766	-1	None	BACH, ACH1, ACT, CTE-II, LACH1, MGC1126, hBACH
22	None	ENSG00000225867	ENST00000428838	antisense	KNOWN	None	None	None	None	37946033	37947742	1	None	None
X	H2BFXP	ENSG00000233320	ENST00000422550	processed_pseudogene	KNOWN	None	25757	None	None	103230535	103230898	1	None	None
22	None	ENSG00000233360	ENST00000456099	antisense	KNOWN	None	None	None	None	38037839	38054384	-1	None	None
15	None	ENSG00000258652	ENST00000557009	processed_pseudogene	KNOWN	None	None	None	None	22332815	22333350	1	None	None
10	None	ENSG00000227683	ENST00000422807	lincRNA	KNOWN	None	None	None	None	45659676	45676875	-1	None	None
Y	None	ENSG00000227822	ENST00000430079	processed_transcript	KNOWN	None	None	None	None	15863673	15970474	1	None	None
5	PCDHB18	ENSG00000146001	ENST00000526308	processed_transcript	KNOWN	None	14548	None	None	140613938	140617101	1	None	PCDH-psi2
5	PCDHB18	ENSG00000146001	ENST00000524813	transcribed_unprocessed_pseudogene	KNOWN	None	14548	None	None	140614284	140616483	1	None	PCDH-psi2
10	GPN3P1	ENSG00000227465	ENST00000423883	processed_pseudogene	KNOWN	None	44914	None	None	25936499	25937033	-1	None	None
3	None	ENSG00000239739	ENST00000473110	lincRNA	KNOWN	None	None	None	None	170458140	170459154	-1	None	None
10	RNU6-1207P	ENSG00000207071	ENST00000384343	snRNA	KNOWN	None	48170	None	None	45684238	45684344	-1	None	None
14	None	ENSG00000259144	ENST00000557256	processed_pseudogene	KNOWN	None	None	None	None	21188901	21191286	-1	None	None
22	RN7SL385P	ENSG00000241333	ENST00000468873	misc_RNA	KNOWN	None	46401	None	None	38065473	38065746	-1	None	None
HSCHR6_MHC_COX	None	ENSG00000258158	ENST00000549483	pseudogene	NOVEL	None	None	None	None	30350072	30350159	1	None	None
Y	PNPLA4P1	ENSG00000235451	ENST00000458328	unprocessed_pseudogene	KNOWN	None	38085	None	None	16192955	16198480	1	None	None
14	COX16	ENSG00000133983	ENST00000389912	protein_coding	KNOWN	CCDS9802	20213	321	106	70791798	70826448	-1	C14orf112	HSPC203
14	COX16	ENSG00000133983	ENST00000554366	processed_transcript	PUTATIVE	None	20213	None	None	70792785	70794947	-1	C14orf112	HSPC203
14	COX16	ENSG00000133983	ENST00000557612	processed_transcript	KNOWN	None	20213	None	None	70792785	70826417	-1	C14orf112	HSPC203
14	COX16	ENSG00000133983	ENST00000555601	nonsense_mediated_decay	KNOWN	None	20213	78	25	70792999	70826307	-1	C14orf112	HSPC203
10	CUBNP2	ENSG00000234993	ENST00000443534	unprocessed_pseudogene	KNOWN	None	44984	None	None	45727474	45742809	-1	None	None
1	None	ENSG00000229305	ENST00000453364	processed_pseudogene	KNOWN	None	None	None	None	8249884	8252830	1	None	None
19	None	ENSG00000267614	ENST00000588710	lincRNA	KNOWN	None	None	None	None	45040251	45040599	-1	None	None
18	L3MBTL4	ENSG00000154655	ENST00000400105	protein_coding	KNOWN	CCDS11839	26677	1872	623	5954705	6367682	-1	None	FLJ35936, HsT1031
18	L3MBTL4	ENSG00000154655	ENST00000317931	protein_coding	NOVEL	None	26677	1845	614	5954705	6414910	-1	None	FLJ35936, HsT1031
18	L3MBTL4	ENSG00000154655	ENST00000400104	protein_coding	KNOWN	None	26677	1605	534	6029386	6414910	-1	None	FLJ35936, HsT1031
18	L3MBTL4	ENSG00000154655	ENST00000583054	protein_coding	KNOWN	None	26677	626	207	6239798	6326720	-1	None	FLJ35936, HsT1031
18	L3MBTL4	ENSG00000154655	ENST00000583809	protein_coding	PUTATIVE	None	26677	368	121	6243385	6414797	-1	None	FLJ35936, HsT1031
18	L3MBTL4	ENSG00000154655	ENST00000581231	protein_coding	PUTATIVE	None	26677	241	79	6244566	6415236	-1	None	FLJ35936, HsT1031
18	L3MBTL4	ENSG00000154655	ENST00000580162	processed_transcript	KNOWN	None	26677	None	None	6311599	6414183	-1	None	FLJ35936, HsT1031
18	L3MBTL4	ENSG00000154655	ENST00000578677	processed_transcript	KNOWN	None	26677	None	None	6356708	6367675	-1	None	FLJ35936, HsT1031
18	L3MBTL4	ENSG00000154655	ENST00000284898	protein_coding	KNOWN	CCDS11839	26677	1872	623	5954706	6414910	-1	None	FLJ35936, HsT1031
18	L3MBTL4	ENSG00000154655	ENST00000535782	protein_coding	KNOWN	None	26677	1284	427	5954713	6241398	-1	None	FLJ35936, HsT1031
22	None	ENSG00000100101	ENST00000455236	processed_transcript	KNOWN	None	None	None	None	38082421	38170137	1	None	None
Y	None	ENSG00000266220	ENST00000578366	miRNA	NOVEL	None	None	None	None	16364065	16364171	-1	None	None
1	C1orf86	ENSG00000162585	ENST00000469733	processed_transcript	KNOWN	None	26428	None	None	2115903	2139172	-1	None	FLJ31031, FAAP20
1	C1orf86	ENSG00000162585	ENST00000428120	nonsense_mediated_decay	KNOWN	None	26428	580	192	2115917	2126180	-1	None	FLJ31031, FAAP20
1	C1orf86	ENSG00000162585	ENST00000414253	nonsense_mediated_decay	KNOWN	None	26428	588	195	2115917	2126214	-1	None	FLJ31031, FAAP20
1	C1orf86	ENSG00000162585	ENST00000400918	protein_coding	PUTATIVE	None	26428	513	170	2116614	2126190	-1	None	FLJ31031, FAAP20
1	C1orf86	ENSG00000162585	ENST00000497675	retained_intron	KNOWN	None	26428	None	None	2120983	2125547	-1	None	FLJ31031, FAAP20
1	C1orf86	ENSG00000162585	ENST00000378543	protein_coding	PUTATIVE	CCDS57965	26428	339	112	2120987	2126189	-1	None	FLJ31031, FAAP20
1	C1orf86	ENSG00000162585	ENST00000378546	protein_coding	KNOWN	CCDS38	26428	543	180	2120987	2126213	-1	None	FLJ31031, FAAP20
1	C1orf86	ENSG00000162585	ENST00000401813	processed_transcript	KNOWN	None	26428	None	None	2120987	2131346	-1	None	FLJ31031, FAAP20
1	C1orf86	ENSG00000162585	ENST00000487186	processed_transcript	KNOWN	None	26428	None	None	2120987	2144159	-1	None	FLJ31031, FAAP20
1	C1orf86	ENSG00000162585	ENST00000476803	processed_transcript	PUTATIVE	None	26428	None	None	2121008	2125652	-1	None	FLJ31031, FAAP20
1	C1orf86	ENSG00000162585	ENST00000440825	nonsense_mediated_decay	KNOWN	None	26428	442	146	2121019	2126178	-1	None	FLJ31031, FAAP20
1	C1orf86	ENSG00000162585	ENST00000420515	protein_coding	PUTATIVE	None	26428	587	194	2123340	2126187	-1	None	FLJ31031, FAAP20
1	C1orf86	ENSG00000162585	ENST00000514625	retained_intron	KNOWN	None	26428	None	None	2129502	2135321	-1	None	FLJ31031, FAAP20
1	C1orf86	ENSG00000162585	ENST00000400919	protein_coding	KNOWN	None	26428	444	147	2115917	2126180	-1	None	FLJ31031, FAAP20
1	C1orf86	ENSG00000162585	ENST00000378545	protein_coding	KNOWN	None	26428	852	283	2120990	2130427	-1	None	FLJ31031, FAAP20
10	OR6D1P	ENSG00000224402	ENST00000436165	unitary_pseudogene	KNOWN	None	14849	None	None	45753633	45754571	1	None	None
Y	None	ENSG00000223517	ENST00000435111	lincRNA	KNOWN	None	None	None	None	16388092	16389369	-1	None	None
HSCHR6_MHC_APD	AGER	ENSG00000231268	ENST00000469296	retained_intron	KNOWN	None	320	None	None	32160089	32160756	-1	None	RAGE
HSCHR6_MHC_APD	AGER	ENSG00000231268	ENST00000474570	retained_intron	KNOWN	None	320	None	None	32160089	32162052	-1	None	RAGE
HSCHR6_MHC_APD	AGER	ENSG00000231268	ENST00000479640	retained_intron	KNOWN	None	320	None	None	32160089	32162052	-1	None	RAGE
HSCHR6_MHC_APD	AGER	ENSG00000231268	ENST00000424145	protein_coding	KNOWN	None	320	1029	342	32160089	32163358	-1	None	RAGE
HSCHR6_MHC_APD	AGER	ENSG00000231268	ENST00000426320	protein_coding	KNOWN	None	320	1044	347	32160089	32163367	-1	None	RAGE
HSCHR6_MHC_APD	AGER	ENSG00000231268	ENST00000472209	retained_intron	KNOWN	None	320	None	None	32160089	32163367	-1	None	RAGE
HSCHR6_MHC_APD	AGER	ENSG00000231268	ENST00000427822	protein_coding	KNOWN	None	320	1215	404	32160089	32163445	-1	None	RAGE
HSCHR6_MHC_APD	AGER	ENSG00000231268	ENST00000454284	protein_coding	KNOWN	None	320	703	233	32161989	32163356	-1	None	RAGE
HSCHR6_MHC_APD	AGER	ENSG00000231268	ENST00000418313	protein_coding	KNOWN	None	320	700	232	32162001	32163358	-1	None	RAGE
HSCHR6_MHC_APD	AGER	ENSG00000231268	ENST00000549839	protein_coding	KNOWN	None	320	462	153	32160243	32163353	-1	None	RAGE
HSCHR6_MHC_APD	AGER	ENSG00000231268	ENST00000550885	protein_coding	KNOWN	None	320	885	294	32160264	32163343	-1	None	RAGE
HSCHR6_MHC_APD	AGER	ENSG00000231268	ENST00000547213	protein_coding	KNOWN	None	320	402	133	32160264	32163343	-1	None	RAGE
HSCHR6_MHC_APD	AGER	ENSG00000231268	ENST00000551378	protein_coding	KNOWN	None	320	1092	363	32160243	32163353	-1	None	RAGE
HSCHR6_MHC_APD	AGER	ENSG00000231268	ENST00000551244	protein_coding	KNOWN	None	320	366	121	32160243	32163353	-1	None	RAGE
HSCHR6_MHC_APD	AGER	ENSG00000231268	ENST00000548935	protein_coding	KNOWN	None	320	387	128	32162530	32163343	-1	None	RAGE
20	PPP1R16B	ENSG00000101445	ENST00000299824	protein_coding	KNOWN	CCDS13309	15850	1704	567	37434348	37551667	1	None	KIAA0823, TIMAP, ANKRD4
20	PPP1R16B	ENSG00000101445	ENST00000373331	protein_coding	KNOWN	CCDS54462	15850	1578	525	37434367	37551667	1	None	KIAA0823, TIMAP, ANKRD4
20	PPP1R16B	ENSG00000101445	ENST00000468265	processed_transcript	KNOWN	None	15850	None	None	37464759	37524289	1	None	KIAA0823, TIMAP, ANKRD4
20	PPP1R16B	ENSG00000101445	ENST00000463749	processed_transcript	KNOWN	None	15850	None	None	37467091	37524341	1	None	KIAA0823, TIMAP, ANKRD4
19	CEACAM22P	ENSG00000230666	ENST00000446628	processed_transcript	KNOWN	None	38029	None	None	45041045	45060150	-1	None	None
19	CEACAM22P	ENSG00000230666	ENST00000455058	transcribed_unprocessed_pseudogene	KNOWN	None	38029	None	None	45046785	45052485	-1	None	None
19	CEACAM22P	ENSG00000230666	ENST00000455455	processed_transcript	KNOWN	None	38029	None	None	45050647	45124119	-1	None	None
15	ELL3	ENSG00000128886	ENST00000319359	protein_coding	KNOWN	CCDS10102	23113	1194	397	44064798	44069741	-1	None	FLJ22637
15	ELL3	ENSG00000128886	ENST00000467869	retained_intron	KNOWN	None	23113	None	None	44064803	44068581	-1	None	FLJ22637
15	ELL3	ENSG00000128886	ENST00000497465	processed_transcript	KNOWN	None	23113	None	None	44065099	44067703	-1	None	FLJ22637
15	ELL3	ENSG00000128886	ENST00000497530	processed_transcript	KNOWN	None	23113	None	None	44066910	44068638	-1	None	FLJ22637
15	ELL3	ENSG00000128886	ENST00000486851	retained_intron	KNOWN	None	23113	None	None	44067690	44069164	-1	None	FLJ22637
15	ELL3	ENSG00000128886	ENST00000476335	processed_transcript	KNOWN	None	23113	None	None	44067736	44068770	-1	None	FLJ22637
15	ELL3	ENSG00000128886	ENST00000433927	protein_coding	PUTATIVE	None	23113	619	205	44067763	44069513	-1	None	FLJ22637
15	ELL3	ENSG00000128886	ENST00000497700	retained_intron	KNOWN	None	23113	None	None	44068368	44069166	-1	None	FLJ22637
Y	AGKP1	ENSG00000226555	ENST00000455254	processed_pseudogene	KNOWN	None	37661	None	None	16750976	16752238	1	None	AGKY1
8	None	ENSG00000253189	ENST00000523090	lincRNA	KNOWN	None	None	None	None	5893955	5894496	-1	None	None
HG883_PATCH	TNFAIP1	ENSG00000262447	ENST00000571017	protein_coding	PUTATIVE	None	11894	639	212	26662628	26672281	1	EDP1	B61, B12, MGC2317, BTBD34
HG883_PATCH	TNFAIP1	ENSG00000262447	ENST00000579545	protein_coding	KNOWN	None	11894	322	106	26662679	26667451	1	EDP1	B61, B12, MGC2317, BTBD34
HG883_PATCH	TNFAIP1	ENSG00000262447	ENST00000576850	protein_coding	KNOWN	None	11894	951	316	26662730	26674035	1	EDP1	B61, B12, MGC2317, BTBD34
HG883_PATCH	TNFAIP1	ENSG00000262447	ENST00000581034	processed_transcript	KNOWN	None	11894	None	None	26662787	26671536	1	EDP1	B61, B12, MGC2317, BTBD34
HG883_PATCH	TNFAIP1	ENSG00000262447	ENST00000577316	protein_coding	KNOWN	None	11894	375	124	26663493	26667504	1	EDP1	B61, B12, MGC2317, BTBD34
HG883_PATCH	TNFAIP1	ENSG00000262447	ENST00000583397	protein_coding	PUTATIVE	None	11894	472	156	26667432	26669538	1	EDP1	B61, B12, MGC2317, BTBD34
10	TTC18	ENSG00000156042	ENST00000462684	processed_transcript	KNOWN	None	30726	None	None	75013520	75051493	-1	None	FLJ25765
10	TTC18	ENSG00000156042	ENST00000495161	processed_transcript	KNOWN	None	30726	None	None	75013520	75051493	-1	None	FLJ25765
10	TTC18	ENSG00000156042	ENST00000433268	protein_coding	KNOWN	None	30726	1497	498	75013520	75056874	-1	None	FLJ25765
10	TTC18	ENSG00000156042	ENST00000493787	processed_transcript	KNOWN	None	30726	None	None	75013520	75118512	-1	None	FLJ25765
10	TTC18	ENSG00000156042	ENST00000340329	protein_coding	KNOWN	None	30726	1086	361	75013520	75118536	-1	None	FLJ25765
10	TTC18	ENSG00000156042	ENST00000355577	protein_coding	KNOWN	None	30726	1773	590	75013520	75118612	-1	None	FLJ25765
10	TTC18	ENSG00000156042	ENST00000310715	protein_coding	KNOWN	CCDS7324	30726	3366	1121	75013517	75118617	-1	None	FLJ25765
10	TTC18	ENSG00000156042	ENST00000401621	protein_coding	KNOWN	None	30726	3366	1121	75013517	75118617	-1	None	FLJ25765
10	TTC18	ENSG00000156042	ENST00000394865	protein_coding	KNOWN	None	30726	3276	1091	75013524	75118612	-1	None	FLJ25765
7	WIPF3	ENSG00000122574	ENST00000409123	protein_coding	KNOWN	None	22004	1452	483	29846102	29945791	1	None	CR16, FLJ36931
7	WIPF3	ENSG00000122574	ENST00000409290	protein_coding	NOVEL	CCDS56472	22004	1452	483	29874341	29956682	1	None	CR16, FLJ36931
7	WIPF3	ENSG00000122574	ENST00000242140	protein_coding	KNOWN	None	22004	1452	483	29874341	29945791	1	None	CR16, FLJ36931
10	None	ENSG00000231964	ENST00000435635	antisense	KNOWN	None	None	None	None	45940018	45948569	-1	None	None
Y	NLGN4Y-AS1	ENSG00000228787	ENST00000434164	antisense	KNOWN	None	38793	None	None	16905522	16915913	-1	NLGN4YAS, NLGN4Y-AS	None
11	DUXAP5	ENSG00000255377	ENST00000529668	processed_pseudogene	KNOWN	None	32184	None	None	119315701	119316229	-1	None	None
7	RN7SL750P	ENSG00000263672	ENST00000582814	misc_RNA	KNOWN	None	46766	None	None	100418651	100418886	-1	None	None
Y	MED13P1	ENSG00000236131	ENST00000428342	processed_pseudogene	KNOWN	None	38733	None	None	17019778	17019948	1	None	None
7	None	ENSG00000236305	ENST00000412754	antisense	KNOWN	None	None	None	None	100434936	100450238	-1	None	None
5	ACSL6	ENSG00000164398	ENST00000413683	nonsense_mediated_decay	KNOWN	None	16496	2004	667	131142683	131329971	-1	FACL6	KIAA0837, ACS2, LACS5, LACS2
5	ACSL6	ENSG00000164398	ENST00000379264	protein_coding	KNOWN	CCDS34229	16496	2169	722	131285666	131347355	-1	FACL6	KIAA0837, ACS2, LACS5, LACS2
5	ACSL6	ENSG00000164398	ENST00000379255	protein_coding	NOVEL	CCDS56382	16496	1869	622	131289591	131347583	-1	FACL6	KIAA0837, ACS2, LACS5, LACS2
5	ACSL6	ENSG00000164398	ENST00000296869	protein_coding	KNOWN	CCDS34228	16496	2169	722	131289595	131347306	-1	FACL6	KIAA0837, ACS2, LACS5, LACS2
5	ACSL6	ENSG00000164398	ENST00000493861	retained_intron	KNOWN	None	16496	None	None	131289597	131309728	-1	FACL6	KIAA0837, ACS2, LACS5, LACS2
5	ACSL6	ENSG00000164398	ENST00000379246	protein_coding	PUTATIVE	CCDS56383	16496	2127	708	131289598	131347779	-1	FACL6	KIAA0837, ACS2, LACS5, LACS2
5	ACSL6	ENSG00000164398	ENST00000379244	protein_coding	NOVEL	CCDS56381	16496	2094	697	131289600	131335317	-1	FACL6	KIAA0837, ACS2, LACS5, LACS2
5	ACSL6	ENSG00000164398	ENST00000379240	protein_coding	NOVEL	None	16496	2094	697	131289627	131330272	-1	FACL6	KIAA0837, ACS2, LACS5, LACS2
5	ACSL6	ENSG00000164398	ENST00000431707	protein_coding	NOVEL	None	16496	2034	677	131289927	131329944	-1	FACL6	KIAA0837, ACS2, LACS5, LACS2
5	ACSL6	ENSG00000164398	ENST00000492156	retained_intron	KNOWN	None	16496	None	None	131295266	131296638	-1	FACL6	KIAA0837, ACS2, LACS5, LACS2
5	ACSL6	ENSG00000164398	ENST00000484870	retained_intron	KNOWN	None	16496	None	None	131307265	131310823	-1	FACL6	KIAA0837, ACS2, LACS5, LACS2
5	ACSL6	ENSG00000164398	ENST00000434099	protein_coding	NOVEL	None	16496	1095	364	131308480	131329946	-1	FACL6	KIAA0837, ACS2, LACS5, LACS2
5	ACSL6	ENSG00000164398	ENST00000489047	retained_intron	KNOWN	None	16496	None	None	131317552	131323783	-1	FACL6	KIAA0837, ACS2, LACS5, LACS2
5	ACSL6	ENSG00000164398	ENST00000430403	protein_coding	NOVEL	None	16496	639	212	131323858	131347596	-1	FACL6	KIAA0837, ACS2, LACS5, LACS2
5	ACSL6	ENSG00000164398	ENST00000419502	protein_coding	NOVEL	None	16496	458	151	131325119	131330394	-1	FACL6	KIAA0837, ACS2, LACS5, LACS2
5	ACSL6	ENSG00000164398	ENST00000416557	protein_coding	NOVEL	None	16496	434	143	131325143	131337574	-1	FACL6	KIAA0837, ACS2, LACS5, LACS2
5	ACSL6	ENSG00000164398	ENST00000414078	protein_coding	NOVEL	None	16496	404	133	131325173	131347870	-1	FACL6	KIAA0837, ACS2, LACS5, LACS2
5	ACSL6	ENSG00000164398	ENST00000441995	protein_coding	NOVEL	None	16496	299	98	131325173	131347870	-1	FACL6	KIAA0837, ACS2, LACS5, LACS2
5	ACSL6	ENSG00000164398	ENST00000477640	processed_transcript	PUTATIVE	None	16496	None	None	131328859	131347936	-1	FACL6	KIAA0837, ACS2, LACS5, LACS2
5	ACSL6	ENSG00000164398	ENST00000469164	retained_intron	KNOWN	None	16496	None	None	131329448	131347510	-1	FACL6	KIAA0837, ACS2, LACS5, LACS2
5	ACSL6	ENSG00000164398	ENST00000379249	protein_coding	KNOWN	None	16496	2004	667	131283308	131347315	-1	FACL6	KIAA0837, ACS2, LACS5, LACS2
5	ACSL6	ENSG00000164398	ENST00000379272	protein_coding	KNOWN	None	16496	2139	712	131287297	131347315	-1	FACL6	KIAA0837, ACS2, LACS5, LACS2
5	ACSL6	ENSG00000164398	ENST00000357096	protein_coding	KNOWN	CCDS56382	16496	1869	622	131287297	131329918	-1	FACL6	KIAA0837, ACS2, LACS5, LACS2
5	ACSL6	ENSG00000164398	ENST00000543479	protein_coding	KNOWN	CCDS56381	16496	2094	697	131289927	131347522	-1	FACL6	KIAA0837, ACS2, LACS5, LACS2
5	ACSL6	ENSG00000164398	ENST00000544770	protein_coding	KNOWN	None	16496	1821	606	131289605	131347654	-1	FACL6	KIAA0837, ACS2, LACS5, LACS2
7	None	ENSG00000265175	ENST00000580332	miRNA	NOVEL	None	None	None	None	64728309	64728404	1	None	None
6	ZNF259P1	ENSG00000219565	ENST00000572422	processed_transcript	KNOWN	None	13052	None	None	109103329	109108240	-1	ZNF259P	354J5
6	ZNF259P1	ENSG00000219565	ENST00000407656	transcribed_processed_pseudogene	KNOWN	None	13052	None	None	109106892	109108256	-1	ZNF259P	354J5
7	None	ENSG00000252102	ENST00000516293	snoRNA	NOVEL	None	None	None	None	64791632	64791729	1	None	None
19	None	ENSG00000264333	ENST00000577668	miRNA	NOVEL	None	None	None	None	58822283	58822368	-1	None	None
7	RN7SL549P	ENSG00000239825	ENST00000478997	misc_RNA	KNOWN	None	46565	None	None	100503919	100504197	-1	None	None
5	None	ENSG00000251543	ENST00000511174	lincRNA	KNOWN	None	None	None	None	72633733	72634360	1	None	None
10	CISD1	ENSG00000122873	ENST00000333926	protein_coding	KNOWN	CCDS7251	30880	327	108	60028818	60049346	1	C10orf70, ZCD1	MDS029, mitoNEET
10	CISD1	ENSG00000122873	ENST00000464703	processed_transcript	KNOWN	None	30880	None	None	60028938	60048108	1	C10orf70, ZCD1	MDS029, mitoNEET
10	CISD1	ENSG00000122873	ENST00000489785	processed_transcript	KNOWN	None	30880	None	None	60033146	60047592	1	C10orf70, ZCD1	MDS029, mitoNEET
10	CISD1	ENSG00000122873	ENST00000488388	processed_transcript	KNOWN	None	30880	None	None	60033193	60047759	1	C10orf70, ZCD1	MDS029, mitoNEET
7	None	ENSG00000200130	ENST00000363260	snoRNA	NOVEL	None	None	None	None	64792309	64792386	1	None	None
19	None	ENSG00000269794	ENST00000594522	processed_pseudogene	KNOWN	None	None	None	None	58830643	58831855	1	None	None
6	MOXD1	ENSG00000079931	ENST00000367963	protein_coding	KNOWN	CCDS5152	21063	1842	613	132617194	132722684	-1	None	DKFZP564G202, MOX, dJ248E1.1
6	MOXD1	ENSG00000079931	ENST00000336749	protein_coding	PUTATIVE	None	21063	1638	545	132617208	132696204	-1	None	DKFZP564G202, MOX, dJ248E1.1
6	MOXD1	ENSG00000079931	ENST00000489128	processed_transcript	KNOWN	None	21063	None	None	132636836	132646286	-1	None	DKFZP564G202, MOX, dJ248E1.1
6	MOXD1	ENSG00000079931	ENST00000392401	protein_coding	PUTATIVE	None	21063	348	115	132711561	132722614	-1	None	DKFZP564G202, MOX, dJ248E1.1
7	None	ENSG00000235926	ENST00000458329	processed_pseudogene	KNOWN	None	None	None	None	100525990	100526160	1	None	None
3	RNY5P3	ENSG00000222411	ENST00000410479	misc_RNA	KNOWN	None	34084	None	None	170559884	170559961	-1	None	None
11	SLC37A2	ENSG00000134955	ENST00000403796	protein_coding	KNOWN	CCDS44757	20644	1506	501	124932963	124959131	1	None	FLJ00171
11	SLC37A2	ENSG00000134955	ENST00000532000	protein_coding	PUTATIVE	None	20644	450	149	124933198	124950543	1	None	FLJ00171
11	SLC37A2	ENSG00000134955	ENST00000526405	retained_intron	KNOWN	None	20644	None	None	124933231	124959131	1	None	FLJ00171
11	SLC37A2	ENSG00000134955	ENST00000308074	protein_coding	KNOWN	CCDS31714	20644	1518	505	124933232	124959131	1	None	FLJ00171
11	SLC37A2	ENSG00000134955	ENST00000525837	processed_transcript	KNOWN	None	20644	None	None	124953035	124956293	1	None	FLJ00171
11	SLC37A2	ENSG00000134955	ENST00000407458	protein_coding	KNOWN	CCDS31714	20644	1518	505	124933013	124956127	1	None	FLJ00171
11	SLC37A2	ENSG00000134955	ENST00000298280	protein_coding	KNOWN	None	20644	1158	385	124933013	124959131	1	None	FLJ00171
7	RSL24D1P3	ENSG00000231556	ENST00000449255	processed_pseudogene	KNOWN	None	37883	None	None	64800087	64800581	-1	None	None
6	None	ENSG00000231559	ENST00000421372	processed_pseudogene	KNOWN	None	None	None	None	109138883	109139129	1	None	None
12	OVCH1	ENSG00000187950	ENST00000539117	nonsense_mediated_decay	KNOWN	None	23080	365	120	29565407	29597201	-1	None	OVCH
12	OVCH1	ENSG00000187950	ENST00000318184	protein_coding	KNOWN	None	23080	3405	1134	29580504	29650619	-1	None	OVCH
12	OVCH1	ENSG00000187950	ENST00000537054	protein_coding	PUTATIVE	None	23080	243	80	29593464	29597169	-1	None	OVCH
5	ADRA1B	ENSG00000170214	ENST00000306675	protein_coding	KNOWN	CCDS4347	278	1563	520	159343790	159399551	1	None	None
5	None	ENSG00000249149	ENST00000505955	processed_transcript	KNOWN	None	None	None	None	72678211	72706336	1	None	None
5	None	ENSG00000249149	ENST00000514718	transcribed_processed_pseudogene	KNOWN	None	None	None	None	72705891	72706257	1	None	None
2	None	ENSG00000238091	ENST00000440617	protein_coding	KNOWN	None	None	438	145	114204992	114205429	-1	None	None
22	None	ENSG00000270226	ENST00000605217	processed_pseudogene	KNOWN	None	None	None	None	17493294	17493822	1	None	None
19	None	ENSG00000268230	ENST00000600123	processed_transcript	KNOWN	None	None	None	None	58858220	58867591	-1	None	None
19	None	ENSG00000268230	ENST00000599109	processed_transcript	KNOWN	None	None	None	None	58859832	58874117	-1	None	None
19	None	ENSG00000268230	ENST00000596636	processed_transcript	KNOWN	None	None	None	None	58864387	58867449	-1	None	None
7	None	ENSG00000232906	ENST00000447960	processed_pseudogene	KNOWN	None	None	None	None	64820847	64822089	1	None	None
7	None	ENSG00000225946	ENST00000438198	retained_intron	KNOWN	None	None	None	None	100606878	100609286	-1	None	None
7	None	ENSG00000225946	ENST00000420080	antisense	KNOWN	None	None	None	None	100606878	100611410	-1	None	None
7	None	ENSG00000225946	ENST00000434775	antisense	KNOWN	None	None	None	None	100606879	100607847	-1	None	None
6	None	ENSG00000216906	ENST00000407115	processed_pseudogene	KNOWN	None	None	None	None	150225379	150227554	1	None	None
5	None	ENSG00000183900	ENST00000328926	pseudogene	NOVEL	None	None	None	None	72742083	72744352	-1	None	None
HG1308_PATCH	None	ENSG00000266516	ENST00000581933	processed_pseudogene	KNOWN	None	None	None	None	130308876	130309276	-1	None	None
2	FOXD4L1	ENSG00000184492	ENST00000306507	protein_coding	KNOWN	CCDS2117	18521	1227	408	114256661	114258728	1	None	FOXD5
7	None	ENSG00000238124	ENST00000453648	lincRNA	KNOWN	None	None	None	None	64927984	64928351	1	None	None
11	KRT8P7	ENSG00000230716	ENST00000533003	processed_pseudogene	KNOWN	None	33361	None	None	119473587	119475018	-1	None	None
22	CECR7	ENSG00000237438	ENST00000441006	lincRNA	KNOWN	None	1845	None	None	17517460	17539682	1	None	SAHL1
22	CECR7	ENSG00000237438	ENST00000414401	lincRNA	KNOWN	None	1845	None	None	17518102	17537448	1	None	SAHL1
15	None	ENSG00000270690	ENST00000605455	processed_pseudogene	KNOWN	None	None	None	None	65750912	65751872	1	None	None
11	MAML2	ENSG00000184384	ENST00000524717	protein_coding	KNOWN	CCDS44714	16259	3471	1156	95709762	96076344	-1	None	KIAA1819, MAM3
HSCHR6_MHC_MANN	PPP1R18	ENSG00000229998	ENST00000488116	processed_transcript	KNOWN	None	29413	None	None	30688865	30699634	-1	KIAA1949	phostensin
HSCHR6_MHC_MANN	PPP1R18	ENSG00000229998	ENST00000492746	processed_transcript	KNOWN	None	29413	None	None	30688865	30699669	-1	KIAA1949	phostensin
HSCHR6_MHC_MANN	PPP1R18	ENSG00000229998	ENST00000449705	protein_coding	KNOWN	None	29413	1842	613	30688865	30699692	-1	KIAA1949	phostensin
HSCHR6_MHC_MANN	PPP1R18	ENSG00000229998	ENST00000443517	protein_coding	KNOWN	None	29413	1842	613	30688865	30700371	-1	KIAA1949	phostensin
HSCHR6_MHC_MANN	PPP1R18	ENSG00000229998	ENST00000551784	protein_coding	KNOWN	None	29413	1134	377	30689534	30698494	-1	KIAA1949	phostensin
6	None	ENSG00000216621	ENST00000435483	processed_transcript	KNOWN	None	None	None	None	150255663	150256756	1	None	None
6	None	ENSG00000216621	ENST00000421363	processed_transcript	KNOWN	None	None	None	None	150255663	150257454	1	None	None
6	None	ENSG00000216621	ENST00000407271	transcribed_processed_pseudogene	KNOWN	None	None	None	None	150257101	150257918	1	None	None
7	None	ENSG00000226767	ENST00000445949	processed_pseudogene	KNOWN	None	None	None	None	64973686	64973857	-1	None	None
5	None	ENSG00000247993	ENST00000514661	lincRNA	KNOWN	None	None	None	None	72742184	72742811	1	None	None
19	None	ENSG00000224366	ENST00000441814	unprocessed_pseudogene	KNOWN	None	None	None	None	45073550	45073810	-1	None	None
8	None	ENSG00000238450	ENST00000459347	snoRNA	NOVEL	None	None	None	None	71516767	71516872	1	None	None
7	None	ENSG00000235421	ENST00000439631	unprocessed_pseudogene	KNOWN	None	None	None	None	64990542	65019657	-1	None	None
14	SNORD114-9	ENSG00000201240	ENST00000364370	snoRNA	KNOWN	None	32997	None	None	101432366	101432437	1	None	14q(II-9)
10	KIF11	ENSG00000138160	ENST00000260731	protein_coding	KNOWN	CCDS7422	6388	3171	1056	94353043	94415150	1	KNSL1	Eg5, HKSP, TRIP5
19	None	ENSG00000266903	ENST00000590796	antisense	KNOWN	None	None	None	None	45135500	45221903	-1	None	None
19	None	ENSG00000266903	ENST00000591312	antisense	KNOWN	None	None	None	None	45218833	45221957	-1	None	None
19	None	ENSG00000266903	ENST00000586169	antisense	KNOWN	None	None	None	None	45219377	45222031	-1	None	None
16	CMTM4	ENSG00000183723	ENST00000581487	retained_intron	KNOWN	None	19175	None	None	66648653	66655678	-1	CKLFSF4	None
16	CMTM4	ENSG00000183723	ENST00000330687	protein_coding	KNOWN	CCDS10817	19175	705	234	66648653	66730610	-1	CKLFSF4	None
16	CMTM4	ENSG00000183723	ENST00000561680	protein_coding	KNOWN	None	19175	423	140	66650470	66670388	-1	CKLFSF4	None
16	CMTM4	ENSG00000183723	ENST00000394106	protein_coding	KNOWN	CCDS42170	19175	627	208	66655583	66730610	-1	CKLFSF4	None
16	CMTM4	ENSG00000183723	ENST00000563952	protein_coding	KNOWN	None	19175	540	179	66655660	66730610	-1	CKLFSF4	None
HG325_PATCH	TUSC2	ENSG00000262485	ENST00000572802	processed_transcript	PUTATIVE	None	17034	None	None	50357459	50365589	-1	PDAP2	FUS1, PAP, C3orf11
HG325_PATCH	TUSC2	ENSG00000262485	ENST00000575920	protein_coding	KNOWN	None	17034	333	110	50362339	50365675	-1	PDAP2	FUS1, PAP, C3orf11
HG325_PATCH	TUSC2	ENSG00000262485	ENST00000570506	nonsense_mediated_decay	KNOWN	None	17034	198	65	50363440	50365638	-1	PDAP2	FUS1, PAP, C3orf11
HG325_PATCH	TUSC2	ENSG00000262485	ENST00000576205	nonsense_mediated_decay	KNOWN	None	17034	198	65	50363440	50365683	-1	PDAP2	FUS1, PAP, C3orf11
HG325_PATCH	TUSC2	ENSG00000262485	ENST00000575905	processed_transcript	PUTATIVE	None	17034	None	None	50363522	50365670	-1	PDAP2	FUS1, PAP, C3orf11
HG325_PATCH	TUSC2	ENSG00000262485	ENST00000573472	nonsense_mediated_decay	KNOWN	None	17034	174	57	50363788	50365627	-1	PDAP2	FUS1, PAP, C3orf11
5	None	ENSG00000251604	ENST00000512310	lincRNA	KNOWN	None	None	None	None	72747323	72749220	1	None	None
15	ARHGAP11B	ENSG00000187951	ENST00000567449	processed_transcript	PUTATIVE	None	15782	None	None	30916697	30918469	1	FAM7B1	B'-T
15	ARHGAP11B	ENSG00000187951	ENST00000564902	processed_transcript	PUTATIVE	None	15782	None	None	30916751	30938405	1	FAM7B1	B'-T
15	ARHGAP11B	ENSG00000187951	ENST00000563110	nonsense_mediated_decay	KNOWN	CCDS32185	15782	804	267	30918403	30977810	1	FAM7B1	B'-T
15	ARHGAP11B	ENSG00000187951	ENST00000428041	protein_coding	KNOWN	CCDS32185	15782	804	267	30918879	30931013	1	FAM7B1	B'-T
15	ARHGAP11B	ENSG00000187951	ENST00000566362	processed_transcript	KNOWN	None	15782	None	None	30922927	30927590	1	FAM7B1	B'-T
15	ARHGAP11B	ENSG00000187951	ENST00000568574	retained_intron	KNOWN	None	15782	None	None	30926528	30927588	1	FAM7B1	B'-T
15	ARHGAP11B	ENSG00000187951	ENST00000566548	processed_transcript	KNOWN	None	15782	None	None	30938335	31015698	1	FAM7B1	B'-T
15	ARHGAP11B	ENSG00000187951	ENST00000602616	processed_transcript	KNOWN	None	15782	None	None	30950920	31065196	1	FAM7B1	B'-T
15	ARHGAP11B	ENSG00000187951	ENST00000562954	processed_transcript	KNOWN	None	15782	None	None	30950943	31060329	1	FAM7B1	B'-T
9	OR13C8	ENSG00000186943	ENST00000335040	protein_coding	KNOWN	CCDS35090	15103	963	320	107331449	107332411	1	None	None
3	GPR171	ENSG00000174946	ENST00000309180	protein_coding	KNOWN	CCDS3155	30057	960	319	150915619	150920979	-1	None	H963
3	GPR171	ENSG00000174946	ENST00000480322	protein_coding	KNOWN	None	30057	54	17	150917120	150920988	-1	None	H963
5	None	ENSG00000251324	ENST00000506196	antisense	KNOWN	None	None	None	None	72750012	72768721	-1	None	None
3	OSTN	ENSG00000188729	ENST00000445281	protein_coding	PUTATIVE	None	29961	336	111	190917030	190983404	1	None	None
3	OSTN	ENSG00000188729	ENST00000339051	protein_coding	KNOWN	CCDS3299	29961	402	133	190930322	190967910	1	None	None
10	IDI2-AS1	ENSG00000232656	ENST00000437374	antisense	KNOWN	None	30885	None	None	1068606	1090138	1	C10orf110, IDI2-AS	HT009, Em:AC022536.4
10	IDI2-AS1	ENSG00000232656	ENST00000420381	antisense	KNOWN	None	30885	None	None	1068608	1089623	1	C10orf110, IDI2-AS	HT009, Em:AC022536.4
10	IDI2-AS1	ENSG00000232656	ENST00000428780	antisense	KNOWN	None	30885	None	None	1068608	1090138	1	C10orf110, IDI2-AS	HT009, Em:AC022536.4
10	IDI2-AS1	ENSG00000232656	ENST00000434470	antisense	KNOWN	None	30885	None	None	1068614	1081861	1	C10orf110, IDI2-AS	HT009, Em:AC022536.4
10	IDI2-AS1	ENSG00000232656	ENST00000536039	antisense	KNOWN	None	30885	None	None	1068606	1090129	1	C10orf110, IDI2-AS	HT009, Em:AC022536.4
8	RN7SL19P	ENSG00000243532	ENST00000462522	misc_RNA	KNOWN	None	46035	None	None	71566815	71567118	-1	None	None
6	CYP21A2	ENSG00000231852	ENST00000418967	protein_coding	KNOWN	CCDS4735	2600	1488	495	32006042	32009447	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
6	CYP21A2	ENSG00000231852	ENST00000466779	nonsense_mediated_decay	KNOWN	None	2600	327	108	32006104	32007601	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
6	CYP21A2	ENSG00000231852	ENST00000486063	retained_intron	KNOWN	None	2600	None	None	32006117	32009419	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
6	CYP21A2	ENSG00000231852	ENST00000479074	retained_intron	KNOWN	None	2600	None	None	32006142	32009419	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
6	CYP21A2	ENSG00000231852	ENST00000479730	retained_intron	KNOWN	None	2600	None	None	32006142	32009419	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
6	CYP21A2	ENSG00000231852	ENST00000480027	retained_intron	KNOWN	None	2600	None	None	32006147	32006892	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
6	CYP21A2	ENSG00000231852	ENST00000483041	retained_intron	KNOWN	None	2600	None	None	32006147	32008963	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
6	CYP21A2	ENSG00000231852	ENST00000478281	protein_coding	NOVEL	None	2600	558	185	32006159	32007210	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
6	CYP21A2	ENSG00000231852	ENST00000488465	retained_intron	KNOWN	None	2600	None	None	32006192	32007261	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
6	CYP21A2	ENSG00000231852	ENST00000471671	protein_coding	NOVEL	None	2600	571	189	32006192	32007383	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
6	CYP21A2	ENSG00000231852	ENST00000435122	protein_coding	KNOWN	CCDS47406	2600	1398	465	32006192	32009419	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
6	CYP21A2	ENSG00000231852	ENST00000469053	nonsense_mediated_decay	KNOWN	None	2600	237	78	32006193	32007417	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
6	CYP21A2	ENSG00000231852	ENST00000464325	retained_intron	KNOWN	None	2600	None	None	32006360	32007533	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
6	CYP21A2	ENSG00000231852	ENST00000466879	retained_intron	KNOWN	None	2600	None	None	32006528	32007600	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
6	CYP21A2	ENSG00000231852	ENST00000462278	retained_intron	KNOWN	None	2600	None	None	32006991	32007749	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
17	CORO6	ENSG00000167549	ENST00000469090	retained_intron	KNOWN	None	21356	None	None	27941774	27945135	-1	None	FLJ14871
17	CORO6	ENSG00000167549	ENST00000345068	protein_coding	KNOWN	CCDS11252	21356	1419	472	27941780	27949917	-1	None	FLJ14871
17	CORO6	ENSG00000167549	ENST00000459686	retained_intron	KNOWN	None	21356	None	None	27941781	27949917	-1	None	FLJ14871
17	CORO6	ENSG00000167549	ENST00000580212	protein_coding	NOVEL	None	21356	1299	432	27941783	27948518	-1	None	FLJ14871
17	CORO6	ENSG00000167549	ENST00000579388	retained_intron	KNOWN	None	21356	None	None	27941996	27944487	-1	None	FLJ14871
17	CORO6	ENSG00000167549	ENST00000467534	retained_intron	KNOWN	None	21356	None	None	27941996	27949860	-1	None	FLJ14871
17	CORO6	ENSG00000167549	ENST00000480954	nonsense_mediated_decay	KNOWN	None	21356	88	28	27942001	27945135	-1	None	FLJ14871
17	CORO6	ENSG00000167549	ENST00000584969	protein_coding	NOVEL	None	21356	1416	471	27942750	27948439	-1	None	FLJ14871
17	CORO6	ENSG00000167549	ENST00000577909	processed_transcript	KNOWN	None	21356	None	None	27943126	27949925	-1	None	FLJ14871
17	CORO6	ENSG00000167549	ENST00000492276	protein_coding	KNOWN	None	21356	596	197	27945845	27949914	-1	None	FLJ14871
17	CORO6	ENSG00000167549	ENST00000584602	protein_coding	PUTATIVE	None	21356	222	73	27945901	27949922	-1	None	FLJ14871
17	CORO6	ENSG00000167549	ENST00000388767	protein_coding	KNOWN	CCDS11252	21356	1419	472	27941774	27948441	-1	None	FLJ14871
17	CORO6	ENSG00000167549	ENST00000445145	protein_coding	KNOWN	None	21356	1419	472	27941774	27948441	-1	None	FLJ14871
17	CORO6	ENSG00000167549	ENST00000456796	protein_coding	KNOWN	None	21356	714	237	27942004	27945135	-1	None	FLJ14871
14	SNORD114-10	ENSG00000200279	ENST00000363409	snoRNA	KNOWN	None	32998	None	None	101433389	101433460	1	None	14q(II-10)
7	AP5Z1	ENSG00000242802	ENST00000348624	protein_coding	KNOWN	CCDS47528	22197	2424	807	4815253	4831399	1	KIAA0415	SPG48, zeta
7	AP5Z1	ENSG00000242802	ENST00000477680	retained_intron	KNOWN	None	22197	None	None	4815264	4831386	1	KIAA0415	SPG48, zeta
7	AP5Z1	ENSG00000242802	ENST00000496303	retained_intron	KNOWN	None	22197	None	None	4815283	4833943	1	KIAA0415	SPG48, zeta
7	AP5Z1	ENSG00000242802	ENST00000491375	retained_intron	KNOWN	None	22197	None	None	4822954	4824679	1	KIAA0415	SPG48, zeta
7	AP5Z1	ENSG00000242802	ENST00000477454	retained_intron	KNOWN	None	22197	None	None	4826006	4828670	1	KIAA0415	SPG48, zeta
7	AP5Z1	ENSG00000242802	ENST00000469614	retained_intron	KNOWN	None	22197	None	None	4827857	4831381	1	KIAA0415	SPG48, zeta
7	AP5Z1	ENSG00000242802	ENST00000490487	processed_transcript	KNOWN	None	22197	None	None	4829468	4831358	1	KIAA0415	SPG48, zeta
7	AP5Z1	ENSG00000242802	ENST00000401897	protein_coding	KNOWN	None	22197	1842	613	4815264	4829881	1	KIAA0415	SPG48, zeta
13	RPL34P26	ENSG00000223676	ENST00000445636	processed_pseudogene	KNOWN	None	36100	None	None	50935546	50935899	-1	None	None
5	None	ENSG00000272525	ENST00000607001	lincRNA	KNOWN	None	None	None	None	72793375	72794118	-1	None	None
16	MYLPF	ENSG00000180209	ENST00000563718	protein_coding	KNOWN	None	29824	356	117	30382255	30388019	1	None	MRLC2, HUMMLC2B, MYL11
16	MYLPF	ENSG00000180209	ENST00000568749	protein_coding	KNOWN	None	29824	405	134	30383639	30389023	1	None	MRLC2, HUMMLC2B, MYL11
16	MYLPF	ENSG00000180209	ENST00000322861	protein_coding	KNOWN	CCDS10677	29824	510	169	30386098	30389312	1	None	MRLC2, HUMMLC2B, MYL11
16	MYLPF	ENSG00000180209	ENST00000566955	protein_coding	NOVEL	None	29824	600	199	30387141	30389225	1	None	MRLC2, HUMMLC2B, MYL11
16	MYLPF	ENSG00000180209	ENST00000563728	retained_intron	KNOWN	None	29824	None	None	30388884	30389312	1	None	MRLC2, HUMMLC2B, MYL11
3	KLF7P1	ENSG00000240704	ENST00000490941	processed_pseudogene	KNOWN	None	17207	None	None	170670639	170671686	-1	KLF7P	None
HG1304_PATCH	FAM229B	ENSG00000264440	ENST00000581018	protein_coding	KNOWN	None	33858	243	80	112408802	112423993	1	C6orf225	DKFZp586F0922, LOC619208
HG1304_PATCH	FAM229B	ENSG00000264440	ENST00000603066	protein_coding	KNOWN	None	33858	243	80	112408841	112422098	1	C6orf225	DKFZp586F0922, LOC619208
13	None	ENSG00000221198	ENST00000408271	miRNA	NOVEL	None	None	None	None	50937284	50937373	-1	None	None
15	None	ENSG00000259232	ENST00000560250	processed_pseudogene	KNOWN	None	None	None	None	65767656	65767952	-1	None	None
HSCHR6_MHC_COX	None	ENSG00000257834	ENST00000549854	pseudogene	NOVEL	None	None	None	None	30350590	30350674	-1	None	None
1	RNU1-7P	ENSG00000200975	ENST00000364105	snRNA	KNOWN	None	48306	None	None	8266494	8266657	-1	RNU1-7	None
HG1308_PATCH	None	ENSG00000270461	ENST00000605530	lincRNA	KNOWN	None	None	None	None	130453862	130455378	1	None	None
6	None	ENSG00000218872	ENST00000405722	processed_pseudogene	KNOWN	None	None	None	None	109177603	109177940	-1	None	None
15	None	ENSG00000238513	ENST00000459436	snoRNA	NOVEL	None	None	None	None	56247899	56248002	-1	None	None
10	HIRAP1	ENSG00000271563	ENST00000605318	processed_pseudogene	KNOWN	None	44916	None	None	25980466	25981252	1	None	None
HG1133_PATCH	None	ENSG00000262042	ENST00000575440	snRNA	NOVEL	None	None	None	None	11311985	11312049	1	None	None
8	None	ENSG00000223220	ENST00000411288	misc_RNA	NOVEL	None	None	None	None	71693149	71693243	-1	None	None
10	RNA5SP306	ENSG00000223019	ENST00000411087	rRNA	KNOWN	None	43206	None	None	26102740	26102846	-1	RN5S306	None
15	IGHD5OR15-5B	ENSG00000270824	ENST00000604446	IG_D_gene	KNOWN	None	5513	23	6	21215823	21215845	-1	None	IGHD5/OR15-5B, IGHD5OR155B
7	PTPRZ1	ENSG00000106278	ENST00000393386	protein_coding	KNOWN	CCDS34740	9685	6948	2315	121513143	121702090	1	PTPZ, PTPRZ	PTP18, RPTPB, phosphacan
7	PTPRZ1	ENSG00000106278	ENST00000471837	processed_transcript	KNOWN	None	9685	None	None	121513215	121607077	1	PTPZ, PTPRZ	PTP18, RPTPB, phosphacan
7	PTPRZ1	ENSG00000106278	ENST00000449182	protein_coding	NOVEL	CCDS56505	9685	4347	1448	121513415	121701415	1	PTPZ, PTPRZ	PTP18, RPTPB, phosphacan
7	PTPRZ1	ENSG00000106278	ENST00000483028	processed_transcript	KNOWN	None	9685	None	None	121651262	121653366	1	PTPZ, PTPRZ	PTP18, RPTPB, phosphacan
7	PTPRZ1	ENSG00000106278	ENST00000489114	retained_intron	KNOWN	None	9685	None	None	121668272	121674394	1	PTPZ, PTPRZ	PTP18, RPTPB, phosphacan
7	PTPRZ1	ENSG00000106278	ENST00000483995	retained_intron	KNOWN	None	9685	None	None	121668488	121672134	1	PTPZ, PTPRZ	PTP18, RPTPB, phosphacan
7	PTPRZ1	ENSG00000106278	ENST00000468641	retained_intron	KNOWN	None	9685	None	None	121673912	121676686	1	PTPZ, PTPRZ	PTP18, RPTPB, phosphacan
7	PTPRZ1	ENSG00000106278	ENST00000470504	retained_intron	KNOWN	None	9685	None	None	121674067	121679638	1	PTPZ, PTPRZ	PTP18, RPTPB, phosphacan
7	PTPRZ1	ENSG00000106278	ENST00000474500	retained_intron	KNOWN	None	9685	None	None	121699428	121701746	1	PTPZ, PTPRZ	PTP18, RPTPB, phosphacan
3	SCAP	ENSG00000114650	ENST00000320017	nonsense_mediated_decay	KNOWN	None	30634	498	165	47455203	47517427	-1	None	KIAA0199
3	SCAP	ENSG00000114650	ENST00000265565	protein_coding	KNOWN	CCDS2755	30634	3840	1279	47455203	47517603	-1	None	KIAA0199
3	SCAP	ENSG00000114650	ENST00000416208	nonsense_mediated_decay	KNOWN	None	30634	258	85	47460875	47517427	-1	None	KIAA0199
3	SCAP	ENSG00000114650	ENST00000465628	processed_transcript	KNOWN	None	30634	None	None	47462109	47462855	-1	None	KIAA0199
3	SCAP	ENSG00000114650	ENST00000468965	processed_transcript	KNOWN	None	30634	None	None	47462144	47464283	-1	None	KIAA0199
3	SCAP	ENSG00000114650	ENST00000494938	retained_intron	KNOWN	None	30634	None	None	47466765	47468715	-1	None	KIAA0199
3	SCAP	ENSG00000114650	ENST00000428413	nonsense_mediated_decay	KNOWN	None	30634	366	121	47466975	47517445	-1	None	KIAA0199
3	SCAP	ENSG00000114650	ENST00000487942	retained_intron	KNOWN	None	30634	None	None	47469129	47470516	-1	None	KIAA0199
3	SCAP	ENSG00000114650	ENST00000416847	protein_coding	KNOWN	None	30634	410	135	47470003	47517087	-1	None	KIAA0199
3	SCAP	ENSG00000114650	ENST00000495603	protein_coding	KNOWN	None	30634	397	131	47470016	47484792	-1	None	KIAA0199
3	SCAP	ENSG00000114650	ENST00000420588	processed_transcript	KNOWN	None	30634	None	None	47470051	47484584	-1	None	KIAA0199
3	SCAP	ENSG00000114650	ENST00000485967	retained_intron	KNOWN	None	30634	None	None	47476343	47484584	-1	None	KIAA0199
3	SCAP	ENSG00000114650	ENST00000448217	protein_coding	KNOWN	None	30634	264	87	47476486	47518616	-1	None	KIAA0199
3	SCAP	ENSG00000114650	ENST00000441517	protein_coding	KNOWN	None	30634	3072	1023	47455211	47517339	-1	None	KIAA0199
3	SCAP	ENSG00000114650	ENST00000545718	protein_coding	KNOWN	None	30634	2661	886	47455211	47517427	-1	None	KIAA0199
HG1308_PATCH	None	ENSG00000266572	ENST00000584681	processed_pseudogene	KNOWN	None	None	None	None	130486522	130486873	-1	None	None
8	CA3	ENSG00000164879	ENST00000520921	protein_coding	PUTATIVE	None	1374	59	18	86285665	86354359	1	None	Car3, CAIII
8	CA3	ENSG00000164879	ENST00000285381	protein_coding	KNOWN	CCDS6238	1374	783	260	86351056	86361269	1	None	Car3, CAIII
8	CA3	ENSG00000164879	ENST00000522207	retained_intron	KNOWN	None	1374	None	None	86351087	86354662	1	None	Car3, CAIII
15	DNAJC17	ENSG00000104129	ENST00000220496	protein_coding	KNOWN	CCDS10065	25556	915	304	41060067	41099675	-1	None	FLJ10634
15	DNAJC17	ENSG00000104129	ENST00000561110	retained_intron	KNOWN	None	25556	None	None	41060071	41067819	-1	None	FLJ10634
15	DNAJC17	ENSG00000104129	ENST00000559238	nonsense_mediated_decay	KNOWN	None	25556	309	102	41060076	41099671	-1	None	FLJ10634
15	DNAJC17	ENSG00000104129	ENST00000558727	processed_transcript	KNOWN	None	25556	None	None	41060111	41062487	-1	None	FLJ10634
15	DNAJC17	ENSG00000104129	ENST00000560645	nonsense_mediated_decay	KNOWN	None	25556	432	143	41065980	41099671	-1	None	FLJ10634
15	DNAJC17	ENSG00000104129	ENST00000560065	nonsense_mediated_decay	KNOWN	None	25556	378	125	41066451	41099650	-1	None	FLJ10634
15	DNAJC17	ENSG00000104129	ENST00000561018	nonsense_mediated_decay	KNOWN	None	25556	396	131	41066554	41099671	-1	None	FLJ10634
15	DNAJC17	ENSG00000104129	ENST00000559310	nonsense_mediated_decay	KNOWN	None	25556	396	131	41066563	41099655	-1	None	FLJ10634
15	DNAJC17	ENSG00000104129	ENST00000560301	retained_intron	KNOWN	None	25556	None	None	41067456	41099675	-1	None	FLJ10634
15	DNAJC17	ENSG00000104129	ENST00000558769	retained_intron	KNOWN	None	25556	None	None	41067775	41069084	-1	None	FLJ10634
15	DNAJC17	ENSG00000104129	ENST00000561044	processed_transcript	KNOWN	None	25556	None	None	41071752	41072765	-1	None	FLJ10634
14	None	ENSG00000271417	ENST00000554693	lincRNA	KNOWN	None	None	None	None	101433989	101452987	1	None	None
11	MPZL2	ENSG00000149573	ENST00000278937	protein_coding	PUTATIVE	CCDS8393	3496	648	215	118124118	118134997	-1	EVA1	EVA
11	MPZL2	ENSG00000149573	ENST00000534175	retained_intron	KNOWN	None	3496	None	None	118125340	118133918	-1	EVA1	EVA
11	MPZL2	ENSG00000149573	ENST00000528554	retained_intron	KNOWN	None	3496	None	None	118125790	118128375	-1	EVA1	EVA
11	MPZL2	ENSG00000149573	ENST00000438295	protein_coding	KNOWN	CCDS8393	3496	648	215	118127626	118135251	-1	EVA1	EVA
11	MPZL2	ENSG00000149573	ENST00000529376	retained_intron	KNOWN	None	3496	None	None	118129952	118134998	-1	EVA1	EVA
11	MPZL2	ENSG00000149573	ENST00000527282	retained_intron	KNOWN	None	3496	None	None	118133196	118135101	-1	EVA1	EVA
11	MPZL2	ENSG00000149573	ENST00000525647	processed_transcript	KNOWN	None	3496	None	None	118133435	118134988	-1	EVA1	EVA
16	RARRES2P7	ENSG00000260812	ENST00000567349	processed_pseudogene	KNOWN	None	48709	None	None	34648650	34649118	-1	None	None
15	IGHD4OR15-4B	ENSG00000270451	ENST00000603693	IG_D_gene	KNOWN	None	5507	19	5	21216780	21216798	-1	None	IGHD4/OR15-4B, IGHD4OR154B
6	None	ENSG00000228834	ENST00000447543	processed_pseudogene	KNOWN	None	None	None	None	109228818	109229076	-1	None	None
10	None	ENSG00000251836	ENST00000516027	snoRNA	NOVEL	None	None	None	None	120545264	120545475	-1	None	None
HSCHR21_4_CTG1_1	None	ENSG00000266367	ENST00000585000	miRNA	NOVEL	None	None	None	None	34836774	34836866	1	None	None
2	LIPT1	ENSG00000144182	ENST00000393473	protein_coding	KNOWN	CCDS2039	29569	1122	373	99771418	99779620	1	None	MGC12290, MGC13378
2	LIPT1	ENSG00000144182	ENST00000449211	protein_coding	KNOWN	None	29569	406	134	99771440	99778826	1	None	MGC12290, MGC13378
2	LIPT1	ENSG00000144182	ENST00000434566	protein_coding	KNOWN	None	29569	754	250	99771448	99779174	1	None	MGC12290, MGC13378
2	LIPT1	ENSG00000144182	ENST00000480170	retained_intron	KNOWN	None	29569	None	None	99771456	99773273	1	None	MGC12290, MGC13378
2	LIPT1	ENSG00000144182	ENST00000415142	protein_coding	KNOWN	None	29569	318	105	99771537	99778738	1	None	MGC12290, MGC13378
2	LIPT1	ENSG00000144182	ENST00000436234	protein_coding	KNOWN	None	29569	118	38	99771544	99778538	1	None	MGC12290, MGC13378
2	LIPT1	ENSG00000144182	ENST00000393477	protein_coding	KNOWN	CCDS2039	29569	1122	373	99771418	99779611	1	None	MGC12290, MGC13378
2	LIPT1	ENSG00000144182	ENST00000393474	protein_coding	KNOWN	CCDS2039	29569	1122	373	99771418	99779611	1	None	MGC12290, MGC13378
2	LIPT1	ENSG00000144182	ENST00000340066	protein_coding	KNOWN	CCDS2039	29569	1122	373	99771418	99779611	1	None	MGC12290, MGC13378
2	LIPT1	ENSG00000144182	ENST00000393471	protein_coding	KNOWN	CCDS2039	29569	1122	373	99771418	99779611	1	None	MGC12290, MGC13378
11	None	ENSG00000255448	ENST00000525523	processed_transcript	KNOWN	None	None	None	None	18022089	18044478	-1	None	None
HSCHR6_MHC_COX	MICC	ENSG00000233466	ENST00000413401	unprocessed_pseudogene	KNOWN	None	7092	None	None	30372300	30376905	1	None	PERB11.3
15	IGHD3OR15-3B	ENSG00000271255	ENST00000603935	IG_D_gene	KNOWN	None	5501	31	9	21217888	21217918	-1	None	IGHD3/OR15-3B, IGHD3OR153B
12	None	ENSG00000202368	ENST00000365498	misc_RNA	NOVEL	None	None	None	None	97373306	97373407	-1	None	None
16	None	ENSG00000260680	ENST00000567900	processed_pseudogene	KNOWN	None	None	None	None	34654662	34655580	1	None	None
10	None	ENSG00000236058	ENST00000420302	processed_pseudogene	KNOWN	None	None	None	None	120631566	120632114	-1	None	None
10	None	ENSG00000236058	ENST00000392739	processed_pseudogene	KNOWN	None	None	None	None	120631561	120631989	-1	None	None
HSCHR21_4_CTG1_1	RPS5P3	ENSG00000262148	ENST00000570744	processed_pseudogene	KNOWN	None	10427	None	None	34863444	34864059	-1	RPS5L	None
16	INO80E	ENSG00000169592	ENST00000563197	protein_coding	KNOWN	CCDS10665	26905	735	244	30006615	30017114	1	CCDC95	FLJ90652
16	INO80E	ENSG00000169592	ENST00000304516	protein_coding	NOVEL	None	26905	618	205	30007036	30017038	1	CCDC95	FLJ90652
16	INO80E	ENSG00000169592	ENST00000380503	retained_intron	KNOWN	None	26905	None	None	30007539	30008128	1	CCDC95	FLJ90652
16	INO80E	ENSG00000169592	ENST00000569957	retained_intron	KNOWN	None	26905	None	None	30007559	30017095	1	CCDC95	FLJ90652
16	INO80E	ENSG00000169592	ENST00000568043	retained_intron	KNOWN	None	26905	None	None	30007565	30012133	1	CCDC95	FLJ90652
16	INO80E	ENSG00000169592	ENST00000567254	protein_coding	PUTATIVE	None	26905	522	173	30007565	30012896	1	CCDC95	FLJ90652
16	INO80E	ENSG00000169592	ENST00000567065	nonsense_mediated_decay	KNOWN	None	26905	414	137	30007567	30016644	1	CCDC95	FLJ90652
16	INO80E	ENSG00000169592	ENST00000562441	nonsense_mediated_decay	KNOWN	None	26905	414	137	30007567	30017083	1	CCDC95	FLJ90652
16	INO80E	ENSG00000169592	ENST00000567705	protein_coding	NOVEL	None	26905	684	227	30007571	30016898	1	CCDC95	FLJ90652
16	INO80E	ENSG00000169592	ENST00000567987	nonsense_mediated_decay	KNOWN	None	26905	567	188	30007572	30017114	1	CCDC95	FLJ90652
16	INO80E	ENSG00000169592	ENST00000563040	processed_transcript	KNOWN	None	26905	None	None	30007573	30010889	1	CCDC95	FLJ90652
16	INO80E	ENSG00000169592	ENST00000540562	retained_intron	KNOWN	None	26905	None	None	30007595	30017111	1	CCDC95	FLJ90652
16	INO80E	ENSG00000169592	ENST00000562291	protein_coding	PUTATIVE	None	26905	255	84	30012292	30016756	1	CCDC95	FLJ90652
19	CFD	ENSG00000197766	ENST00000327726	protein_coding	KNOWN	CCDS12046	2771	762	253	859453	863453	1	DF, PFD	ADN
19	CFD	ENSG00000197766	ENST00000592860	protein_coding	PUTATIVE	None	2771	783	260	859690	863238	1	DF, PFD	ADN
6	ARMC2-AS1	ENSG00000230290	ENST00000426737	antisense	KNOWN	None	41008	None	None	109244179	109245306	-1	None	None
1	None	ENSG00000227634	ENST00000452982	lincRNA	KNOWN	None	None	None	None	8268732	8275270	1	None	None
16	None	ENSG00000261299	ENST00000565542	processed_pseudogene	KNOWN	None	None	None	None	34659735	34660854	1	None	None
22	None	ENSG00000235328	ENST00000429106	processed_pseudogene	KNOWN	None	None	None	None	17574502	17574829	-1	None	None
6	None	ENSG00000271730	ENST00000605885	antisense	KNOWN	None	None	None	None	109319685	109320328	1	None	None
11	MS4A8	ENSG00000166959	ENST00000300226	protein_coding	KNOWN	CCDS7990	13380	753	250	60467047	60483284	1	MS4A8B	MS4A4, CD20L5
11	MS4A8	ENSG00000166959	ENST00000533691	retained_intron	KNOWN	None	13380	None	None	60467058	60476679	1	MS4A8B	MS4A4, CD20L5
11	MS4A8	ENSG00000166959	ENST00000532953	retained_intron	KNOWN	None	13380	None	None	60467059	60476692	1	MS4A8B	MS4A4, CD20L5
11	MS4A8	ENSG00000166959	ENST00000533354	retained_intron	KNOWN	None	13380	None	None	60467130	60476538	1	MS4A8B	MS4A4, CD20L5
11	MS4A8	ENSG00000166959	ENST00000450141	retained_intron	KNOWN	None	13380	None	None	60467167	60476336	1	MS4A8B	MS4A4, CD20L5
11	MS4A8	ENSG00000166959	ENST00000529752	protein_coding	NOVEL	None	13380	672	223	60467176	60482859	1	MS4A8B	MS4A4, CD20L5
11	MS4A8	ENSG00000166959	ENST00000532816	nonsense_mediated_decay	KNOWN	None	13380	267	88	60467220	60470959	1	MS4A8B	MS4A4, CD20L5
11	MS4A8	ENSG00000166959	ENST00000534316	retained_intron	KNOWN	None	13380	None	None	60467228	60469000	1	MS4A8B	MS4A4, CD20L5
11	MS4A8	ENSG00000166959	ENST00000525458	protein_coding	PUTATIVE	None	13380	491	162	60468389	60479500	1	MS4A8B	MS4A4, CD20L5
7	None	ENSG00000230386	ENST00000515547	unprocessed_pseudogene	KNOWN	None	None	None	None	65081990	65084127	1	None	None
10	LDHAP5	ENSG00000213574	ENST00000394996	processed_pseudogene	KNOWN	None	6540	None	None	120692186	120692807	-1	LDHAL5	None
8	None	ENSG00000254031	ENST00000521685	antisense	KNOWN	None	None	None	None	72067692	72116458	1	None	None
8	None	ENSG00000254031	ENST00000521084	antisense	KNOWN	None	None	None	None	72067757	72074807	1	None	None
15	IGHD2OR15-2B	ENSG00000271305	ENST00000604102	IG_D_gene	KNOWN	None	5494	31	9	21220377	21220407	-1	None	IGHD2/OR15-2B, IGHD2OR152B
2	None	ENSG00000234949	ENST00000470375	processed_transcript	PUTATIVE	None	None	None	None	238499663	238500649	1	None	None
2	None	ENSG00000234949	ENST00000452801	protein_coding	PUTATIVE	None	None	265	87	238499812	238504624	1	None	None
16	None	ENSG00000214581	ENST00000562068	transcribed_processed_pseudogene	KNOWN	None	None	None	None	34681269	34682778	-1	None	None
16	None	ENSG00000214581	ENST00000568619	processed_transcript	KNOWN	None	None	None	None	34681269	34683395	-1	None	None
20	RNF24	ENSG00000101236	ENST00000336095	protein_coding	KNOWN	CCDS13074	13779	447	148	3912068	3996036	-1	None	G1L
20	RNF24	ENSG00000101236	ENST00000358395	protein_coding	KNOWN	CCDS13074	13779	447	148	3912068	3996229	-1	None	G1L
20	RNF24	ENSG00000101236	ENST00000545616	protein_coding	KNOWN	CCDS46577	13779	510	169	3912071	3996216	-1	None	G1L
20	RNF24	ENSG00000101236	ENST00000432261	protein_coding	KNOWN	CCDS46577	13779	510	169	3912071	3955034	-1	None	G1L
HSCHR2_1_CTG12	SPC25	ENSG00000262452	ENST00000572874	processed_transcript	KNOWN	None	24031	None	None	169690642	169762792	-1	SPBC25	MGC22228, AD024
HSCHR2_1_CTG12	SPC25	ENSG00000262452	ENST00000573221	protein_coding	KNOWN	None	24031	675	224	169744933	169763018	-1	SPBC25	MGC22228, AD024
HSCHR2_1_CTG12	SPC25	ENSG00000262452	ENST00000576123	protein_coding	KNOWN	None	24031	346	114	169750737	169786776	-1	SPBC25	MGC22228, AD024
HSCHR2_1_CTG12	SPC25	ENSG00000262452	ENST00000572735	processed_transcript	KNOWN	None	24031	None	None	169750737	169786870	-1	SPBC25	MGC22228, AD024
22	CECR5-AS1	ENSG00000185837	ENST00000329743	antisense	KNOWN	None	1842	None	None	17640274	17646329	1	CECR4	NCRNA00017
22	CECR5-AS1	ENSG00000185837	ENST00000431923	antisense	KNOWN	None	1842	None	None	17640289	17646335	1	CECR4	NCRNA00017
11	None	ENSG00000254561	ENST00000532153	antisense	KNOWN	None	None	None	None	119479135	119529994	1	None	None
11	None	ENSG00000254561	ENST00000601999	antisense	KNOWN	None	None	None	None	119502088	119510327	1	None	None
11	MTCH2	ENSG00000109919	ENST00000539759	processed_transcript	KNOWN	None	17587	None	None	47638867	47664004	-1	None	SLC25A50
11	MTCH2	ENSG00000109919	ENST00000302503	protein_coding	KNOWN	CCDS7943	17587	912	303	47638868	47664175	-1	None	SLC25A50
11	MTCH2	ENSG00000109919	ENST00000534074	processed_transcript	KNOWN	None	17587	None	None	47640256	47650907	-1	None	SLC25A50
11	MTCH2	ENSG00000109919	ENST00000525649	processed_transcript	KNOWN	None	17587	None	None	47640391	47660343	-1	None	SLC25A50
11	MTCH2	ENSG00000109919	ENST00000530428	protein_coding	PUTATIVE	None	17587	788	261	47644263	47664159	-1	None	SLC25A50
11	MTCH2	ENSG00000109919	ENST00000533571	processed_transcript	KNOWN	None	17587	None	None	47653206	47664147	-1	None	SLC25A50
11	MTCH2	ENSG00000109919	ENST00000542981	protein_coding	KNOWN	None	17587	468	155	47639865	47664086	-1	None	SLC25A50
HG883_PATCH	TMEM199	ENSG00000267721	ENST00000592692	protein_coding	KNOWN	None	18085	627	208	26684604	26690705	1	C17orf32	MGC45714
HG883_PATCH	TMEM199	ENSG00000267721	ENST00000590345	nonsense_mediated_decay	KNOWN	None	18085	378	125	26684665	26688199	1	C17orf32	MGC45714
HG883_PATCH	TMEM199	ENSG00000267721	ENST00000573582	nonsense_mediated_decay	KNOWN	None	18085	270	89	26684670	26688251	1	C17orf32	MGC45714
HG883_PATCH	TMEM199	ENSG00000267721	ENST00000592878	processed_transcript	KNOWN	None	18085	None	None	26684680	26686634	1	C17orf32	MGC45714
HG883_PATCH	TMEM199	ENSG00000267721	ENST00000592109	retained_intron	KNOWN	None	18085	None	None	26684731	26688256	1	C17orf32	MGC45714
HG883_PATCH	TMEM199	ENSG00000267721	ENST00000586156	protein_coding	PUTATIVE	None	18085	105	34	26685066	26688477	1	C17orf32	MGC45714
HG883_PATCH	TMEM199	ENSG00000267721	ENST00000586931	retained_intron	KNOWN	None	18085	None	None	26686210	26688130	1	C17orf32	MGC45714
HG883_PATCH	TMEM199	ENSG00000267721	ENST00000588477	retained_intron	KNOWN	None	18085	None	None	26687261	26688317	1	C17orf32	MGC45714
9	OR13C5	ENSG00000255800	ENST00000374779	protein_coding	KNOWN	CCDS35091	15100	957	318	107360650	107361788	-1	None	None
16	None	ENSG00000261711	ENST00000569028	processed_transcript	KNOWN	None	None	None	None	34711785	34714829	-1	None	None
16	None	ENSG00000261711	ENST00000564452	processed_transcript	KNOWN	None	None	None	None	34712350	34714852	-1	None	None
16	None	ENSG00000261711	ENST00000566967	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	34712988	34713810	-1	None	None
10	RNU6-632P	ENSG00000251711	ENST00000515902	snRNA	KNOWN	None	47595	None	None	26108292	26108355	-1	None	None
9	None	ENSG00000221111	ENST00000408184	miRNA	NOVEL	None	None	None	None	30771095	30771197	-1	None	None
15	IGHD1OR15-1B	ENSG00000270185	ENST00000604838	IG_D_gene	KNOWN	None	5488	17	4	21223129	21223145	-1	None	IGHD1/OR15-1B, IGHD1OR151B
10	None	ENSG00000226304	ENST00000452911	antisense	KNOWN	None	None	None	None	26213377	26222639	-1	None	None
1	GBP1	ENSG00000117228	ENST00000370473	protein_coding	KNOWN	CCDS718	4182	1779	592	89518002	89531043	-1	None	None
1	GBP1	ENSG00000117228	ENST00000484970	processed_transcript	KNOWN	None	4182	None	None	89518983	89521024	-1	None	None
1	GBP1	ENSG00000117228	ENST00000479889	processed_transcript	KNOWN	None	4182	None	None	89519045	89521060	-1	None	None
1	GBP1	ENSG00000117228	ENST00000468959	processed_transcript	KNOWN	None	4182	None	None	89519120	89521742	-1	None	None
1	GBP1	ENSG00000117228	ENST00000495131	processed_transcript	KNOWN	None	4182	None	None	89521252	89522624	-1	None	None
1	GBP1	ENSG00000117228	ENST00000459831	processed_transcript	KNOWN	None	4182	None	None	89524024	89525038	-1	None	None
1	GBP1	ENSG00000117228	ENST00000493139	processed_transcript	KNOWN	None	4182	None	None	89524673	89525960	-1	None	None
1	GBP1	ENSG00000117228	ENST00000469194	processed_transcript	KNOWN	None	4182	None	None	89528390	89530913	-1	None	None
1	None	ENSG00000233645	ENST00000424689	lincRNA	KNOWN	None	None	None	None	8278250	8280589	-1	None	None
9	KRT18P66	ENSG00000235626	ENST00000452970	processed_pseudogene	KNOWN	None	48893	None	None	30773462	30774730	1	None	None
15	None	ENSG00000252217	ENST00000516408	misc_RNA	NOVEL	None	None	None	None	65795079	65795174	1	None	None
3	None	ENSG00000228413	ENST00000429793	processed_pseudogene	KNOWN	None	None	None	None	195771566	195772125	1	None	None
15	RNU6-19P	ENSG00000207449	ENST00000384718	snRNA	KNOWN	None	34263	None	None	65845419	65845525	-1	RNU6-19	None
8	None	ENSG00000253880	ENST00000519555	lincRNA	KNOWN	None	None	None	None	5901875	6115058	-1	None	None
15	None	ENSG00000268531	ENST00000594169	protein_coding	KNOWN	None	None	681	226	22011370	22012050	1	None	None
9	None	ENSG00000211510	ENST00000390176	miRNA	NOVEL	None	None	None	None	30774226	30774317	1	None	None
X	None	ENSG00000235946	ENST00000441761	processed_pseudogene	KNOWN	None	None	None	None	103317106	103317601	-1	None	None
11	None	ENSG00000254607	ENST00000550747	processed_transcript	KNOWN	None	None	None	None	126522747	126551998	1	None	None
11	None	ENSG00000254607	ENST00000534620	protein_coding	PUTATIVE	None	None	225	74	126525981	126551999	1	None	None
9	OR13C2	ENSG00000257019	ENST00000542196	protein_coding	KNOWN	CCDS35092	14701	957	318	107366924	107367951	-1	None	None
9	KRT18P36	ENSG00000226246	ENST00000411618	processed_pseudogene	KNOWN	None	33405	None	None	30799469	30800744	-1	None	None
16	CSNK2A2	ENSG00000070770	ENST00000566813	processed_transcript	KNOWN	None	2459	None	None	58191811	58226790	-1	None	CSNK2A1
16	CSNK2A2	ENSG00000070770	ENST00000262506	protein_coding	KNOWN	CCDS10794	2459	1053	350	58191811	58231824	-1	None	CSNK2A1
16	CSNK2A2	ENSG00000070770	ENST00000567730	protein_coding	NOVEL	None	2459	693	230	58192021	58220760	-1	None	CSNK2A1
16	CSNK2A2	ENSG00000070770	ENST00000563307	protein_coding	KNOWN	None	2459	458	151	58193455	58201617	-1	None	CSNK2A1
16	CSNK2A2	ENSG00000070770	ENST00000562367	retained_intron	KNOWN	None	2459	None	None	58207922	58230677	-1	None	CSNK2A1
16	CSNK2A2	ENSG00000070770	ENST00000565188	protein_coding	NOVEL	None	2459	405	134	58208379	58231782	-1	None	CSNK2A1
11	CCDC82	ENSG00000149231	ENST00000278520	protein_coding	KNOWN	CCDS8307	26282	1635	544	96085933	96121068	-1	None	FLJ23518
11	CCDC82	ENSG00000149231	ENST00000545264	retained_intron	KNOWN	None	26282	None	None	96086612	96092446	-1	None	FLJ23518
11	CCDC82	ENSG00000149231	ENST00000423339	protein_coding	KNOWN	CCDS8307	26282	1635	544	96086810	96118154	-1	None	FLJ23518
11	CCDC82	ENSG00000149231	ENST00000530106	retained_intron	KNOWN	None	26282	None	None	96113701	96117933	-1	None	FLJ23518
11	CCDC82	ENSG00000149231	ENST00000538597	protein_coding	KNOWN	None	26282	787	261	96117125	96122576	-1	None	FLJ23518
11	CCDC82	ENSG00000149231	ENST00000530203	protein_coding	KNOWN	None	26282	90	29	96117822	96119465	-1	None	FLJ23518
11	CCDC82	ENSG00000149231	ENST00000524836	processed_transcript	KNOWN	None	26282	None	None	96119130	96123087	-1	None	FLJ23518
11	CCDC82	ENSG00000149231	ENST00000525786	processed_transcript	KNOWN	None	26282	None	None	96120304	96123083	-1	None	FLJ23518
11	CCDC82	ENSG00000149231	ENST00000542662	protein_coding	KNOWN	CCDS8307	26282	1635	544	96085939	96123076	-1	None	FLJ23518
X	RAB9A	ENSG00000123595	ENST00000464506	protein_coding	KNOWN	CCDS14156	9792	606	201	13707244	13728625	1	RAB9	None
X	RAB9A	ENSG00000123595	ENST00000243325	processed_transcript	KNOWN	None	9792	None	None	13707305	13727473	1	RAB9	None
15	None	ENSG00000261277	ENST00000563771	transcribed_processed_pseudogene	KNOWN	None	None	None	None	22344660	22345580	1	None	None
15	None	ENSG00000261277	ENST00000603819	processed_transcript	KNOWN	None	None	None	None	22345561	22345900	1	None	None
12	None	ENSG00000255778	ENST00000536505	lincRNA	KNOWN	None	None	None	None	126675924	126709860	1	None	None
15	None	ENSG00000238715	ENST00000459019	snoRNA	NOVEL	None	None	None	None	65863311	65863411	-1	None	None
15	None	ENSG00000238311	ENST00000459325	snoRNA	NOVEL	None	None	None	None	65989171	65989274	-1	None	None
16	None	ENSG00000260153	ENST00000564312	processed_pseudogene	KNOWN	None	None	None	None	34720137	34720596	-1	None	None
10	CTGLF10P	ENSG00000230869	ENST00000454844	unprocessed_pseudogene	KNOWN	None	23659	None	None	46174140	46195980	1	None	bA358L16.1
12	None	ENSG00000257061	ENST00000539588	lincRNA	KNOWN	None	None	None	None	126842580	126843442	1	None	None
14	SNORD114-11	ENSG00000200608	ENST00000363738	snoRNA	KNOWN	None	32999	None	None	101434448	101434522	1	None	14q(II-11)
7	INTS4L2	ENSG00000232270	ENST00000430126	processed_transcript	KNOWN	None	22351	None	None	65112777	65180636	1	None	MGC133166
7	INTS4L2	ENSG00000232270	ENST00000433217	transcribed_unprocessed_pseudogene	KNOWN	None	22351	None	None	65112794	65171347	1	None	MGC133166
17	GRIN2C	ENSG00000161509	ENST00000293190	protein_coding	KNOWN	CCDS32724	4587	3702	1233	72838162	72855998	-1	NMDAR2C	GluN2C
17	GRIN2C	ENSG00000161509	ENST00000584176	retained_intron	KNOWN	None	4587	None	None	72839503	72855995	-1	NMDAR2C	GluN2C
17	GRIN2C	ENSG00000161509	ENST00000347612	protein_coding	PUTATIVE	None	4587	2622	873	72840171	72856658	-1	NMDAR2C	GluN2C
17	GRIN2C	ENSG00000161509	ENST00000578159	processed_transcript	KNOWN	None	4587	None	None	72848213	72857627	-1	NMDAR2C	GluN2C
17	GRIN2C	ENSG00000161509	ENST00000584496	retained_intron	KNOWN	None	4587	None	None	72849656	72856964	-1	NMDAR2C	GluN2C
Y	CYCSP46	ENSG00000227949	ENST00000423569	processed_pseudogene	KNOWN	None	23941	None	None	17053427	17053630	-1	None	HCP46, HCP47
2	RABL2A	ENSG00000144134	ENST00000393167	protein_coding	KNOWN	CCDS2118	9799	687	228	114384806	114400973	1	None	None
2	RABL2A	ENSG00000144134	ENST00000409842	protein_coding	NOVEL	None	9799	498	165	114384817	114400969	1	None	None
2	RABL2A	ENSG00000144134	ENST00000413545	protein_coding	KNOWN	None	9799	342	113	114384821	114398515	1	None	None
2	RABL2A	ENSG00000144134	ENST00000393165	protein_coding	NOVEL	None	9799	690	229	114384821	114400968	1	None	None
2	RABL2A	ENSG00000144134	ENST00000450954	nonsense_mediated_decay	KNOWN	None	9799	306	101	114384841	114400945	1	None	None
2	RABL2A	ENSG00000144134	ENST00000467600	retained_intron	KNOWN	None	9799	None	None	114384853	114393090	1	None	None
2	RABL2A	ENSG00000144134	ENST00000452831	nonsense_mediated_decay	KNOWN	None	9799	165	54	114384860	114400905	1	None	None
2	RABL2A	ENSG00000144134	ENST00000465711	processed_transcript	KNOWN	None	9799	None	None	114384864	114395324	1	None	None
2	RABL2A	ENSG00000144134	ENST00000393166	protein_coding	KNOWN	CCDS2118	9799	687	228	114384884	114400968	1	None	None
2	RABL2A	ENSG00000144134	ENST00000409875	protein_coding	NOVEL	None	9799	717	238	114384888	114400969	1	None	None
2	RABL2A	ENSG00000144134	ENST00000409121	retained_intron	KNOWN	None	9799	None	None	114385905	114400969	1	None	None
2	RABL2A	ENSG00000144134	ENST00000493876	retained_intron	KNOWN	None	9799	None	None	114386147	114392197	1	None	None
2	RABL2A	ENSG00000144134	ENST00000476236	retained_intron	KNOWN	None	9799	None	None	114386163	114391472	1	None	None
2	RABL2A	ENSG00000144134	ENST00000477218	processed_transcript	KNOWN	None	9799	None	None	114392628	114398965	1	None	None
2	RABL2A	ENSG00000144134	ENST00000478880	processed_transcript	KNOWN	None	9799	None	None	114394944	114400969	1	None	None
2	RABL2A	ENSG00000144134	ENST00000494909	retained_intron	KNOWN	None	9799	None	None	114397597	114400966	1	None	None
2	RABL2A	ENSG00000144134	ENST00000486403	retained_intron	KNOWN	None	9799	None	None	114397985	114400966	1	None	None
2	RABL2A	ENSG00000144134	ENST00000376439	protein_coding	KNOWN	None	9799	498	165	114384964	114400808	1	None	None
14	None	ENSG00000258963	ENST00000554692	unprocessed_pseudogene	KNOWN	None	None	None	None	21202737	21203170	1	None	None
8	TRAPPC2P2	ENSG00000253124	ENST00000517589	processed_pseudogene	KNOWN	None	10711	None	None	72361046	72361454	-1	SEDLP2	None
12	ZNF140	ENSG00000196387	ENST00000355557	protein_coding	KNOWN	CCDS9282	12925	1374	457	133656424	133684130	1	None	pHZ-39
12	ZNF140	ENSG00000196387	ENST00000356456	protein_coding	KNOWN	None	12925	349	115	133657060	133682212	1	None	pHZ-39
12	ZNF140	ENSG00000196387	ENST00000412146	protein_coding	PUTATIVE	None	12925	262	86	133657461	133682227	1	None	pHZ-39
12	ZNF140	ENSG00000196387	ENST00000544426	protein_coding	PUTATIVE	None	12925	1065	354	133657468	133684112	1	None	pHZ-39
12	ZNF140	ENSG00000196387	ENST00000440984	protein_coding	PUTATIVE	None	12925	324	107	133657502	133660792	1	None	pHZ-39
12	ZNF140	ENSG00000196387	ENST00000319849	protein_coding	PUTATIVE	None	12925	345	114	133657518	133682176	1	None	pHZ-39
12	ZNF140	ENSG00000196387	ENST00000440550	protein_coding	PUTATIVE	None	12925	306	101	133657518	133683452	1	None	pHZ-39
12	ZNF140	ENSG00000196387	ENST00000392041	nonsense_mediated_decay	KNOWN	None	12925	234	77	133657551	133682154	1	None	pHZ-39
12	ZNF140	ENSG00000196387	ENST00000536790	nonsense_mediated_decay	KNOWN	None	12925	240	79	133657597	133684014	1	None	pHZ-39
12	ZNF140	ENSG00000196387	ENST00000429434	protein_coding	PUTATIVE	None	12925	484	160	133658171	133682299	1	None	pHZ-39
3	RNU7-18P	ENSG00000252174	ENST00000516365	snRNA	KNOWN	None	34114	None	None	195799690	195799751	1	RNU7-142P	U7.18
1	RN7SL729P	ENSG00000265414	ENST00000585092	misc_RNA	KNOWN	None	46745	None	None	8335184	8335438	-1	None	None
4	GABRG1	ENSG00000163285	ENST00000295452	protein_coding	KNOWN	CCDS3470	4086	1398	465	46037786	46126098	-1	None	None
15	MIR4511	ENSG00000264737	ENST00000582784	miRNA	KNOWN	None	41589	None	None	66011584	66011670	-1	None	hsa-mir-4511
3	LINC00885	ENSG00000224652	ENST00000457079	lincRNA	KNOWN	None	48571	None	None	195869507	195887761	1	None	None
8	None	ENSG00000246089	ENST00000500118	antisense	KNOWN	None	None	None	None	6261072	6264069	-1	None	None
8	None	ENSG00000246089	ENST00000606853	antisense	KNOWN	None	None	None	None	6262927	6264063	-1	None	None
8	None	ENSG00000246089	ENST00000523225	antisense	KNOWN	None	None	None	None	6263118	6264663	-1	None	None
12	None	ENSG00000258131	ENST00000552238	processed_transcript	PUTATIVE	None	None	None	None	97379434	97579387	1	None	None
22	PRR14L	ENSG00000183530	ENST00000330495	protein_coding	NOVEL	None	28738	1357	451	32072242	32108731	-1	C22orf30	MGC50372
22	PRR14L	ENSG00000183530	ENST00000327423	protein_coding	NOVEL	CCDS13900	28738	6456	2151	32077333	32146117	-1	C22orf30	MGC50372
22	PRR14L	ENSG00000183530	ENST00000432485	nonsense_mediated_decay	KNOWN	None	28738	625	207	32077336	32099704	-1	C22orf30	MGC50372
22	PRR14L	ENSG00000183530	ENST00000431684	nonsense_mediated_decay	KNOWN	None	28738	2028	675	32081028	32109831	-1	C22orf30	MGC50372
22	PRR14L	ENSG00000183530	ENST00000492705	processed_transcript	PUTATIVE	None	28738	None	None	32100430	32108333	-1	C22orf30	MGC50372
22	PRR14L	ENSG00000183530	ENST00000461722	processed_transcript	KNOWN	None	28738	None	None	32112713	32146058	-1	C22orf30	MGC50372
22	PRR14L	ENSG00000183530	ENST00000412743	protein_coding	NOVEL	None	28738	541	179	32121530	32146126	-1	C22orf30	MGC50372
22	PRR14L	ENSG00000183530	ENST00000397493	protein_coding	KNOWN	None	28738	6450	2149	32072734	32146120	-1	C22orf30	MGC50372
22	PRR14L	ENSG00000183530	ENST00000434485	protein_coding	KNOWN	None	28738	6021	2006	32077336	32146120	-1	C22orf30	MGC50372
22	None	ENSG00000236325	ENST00000428401	processed_pseudogene	KNOWN	None	None	None	None	17673826	17674198	1	None	None
HSCHR6_MHC_SSTO	BTNL2	ENSG00000224242	ENST00000427760	protein_coding	KNOWN	None	1142	636	211	32367231	32370665	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_SSTO	BTNL2	ENSG00000224242	ENST00000433826	protein_coding	KNOWN	None	1142	777	258	32376104	32381497	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_SSTO	BTNL2	ENSG00000224242	ENST00000458467	protein_coding	KNOWN	None	1142	326	107	32379403	32381497	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_SSTO	BTNL2	ENSG00000224242	ENST00000553068	protein_coding	KNOWN	None	1142	1167	388	32368331	32381490	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_SSTO	BTNL2	ENSG00000224242	ENST00000548835	protein_coding	KNOWN	None	1142	1368	455	32369098	32381490	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_SSTO	BTNL2	ENSG00000224242	ENST00000548253	protein_coding	KNOWN	None	1142	738	245	32369098	32381490	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_SSTO	BTNL2	ENSG00000224242	ENST00000547429	protein_coding	KNOWN	None	1142	738	245	32369098	32381490	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_SSTO	BTNL2	ENSG00000224242	ENST00000551669	protein_coding	KNOWN	None	1142	537	178	32369098	32381490	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_SSTO	BTNL2	ENSG00000224242	ENST00000551561	protein_coding	KNOWN	None	1142	816	271	32369098	32381490	-1	None	HSBLMHC1, BTL-II
9	OR13C9	ENSG00000136839	ENST00000259362	protein_coding	KNOWN	CCDS35093	15104	957	318	107379529	107380485	-1	None	None
HSCHR6_MHC_COX	LTB	ENSG00000204487	ENST00000376117	protein_coding	KNOWN	None	6711	735	244	31535744	31537614	-1	TNFC	p33, TNFSF3
HSCHR6_MHC_COX	LTB	ENSG00000204487	ENST00000493025	processed_transcript	KNOWN	None	6711	None	None	31535744	31537616	-1	TNFC	p33, TNFSF3
HSCHR6_MHC_COX	LTB	ENSG00000204487	ENST00000477257	processed_transcript	KNOWN	None	6711	None	None	31535744	31537711	-1	TNFC	p33, TNFSF3
1	RNU6-991P	ENSG00000251977	ENST00000516168	snRNA	KNOWN	None	47954	None	None	8352217	8352323	-1	None	None
19	NUMBL	ENSG00000105245	ENST00000252891	protein_coding	KNOWN	CCDS12561	8061	1830	609	41172596	41196556	-1	None	NUMB-R, CTG3a, CAG3A, TNRC23, NUMBR, NUMBLIKE
19	NUMBL	ENSG00000105245	ENST00000598779	protein_coding	PUTATIVE	None	8061	1707	568	41172939	41196458	-1	None	NUMB-R, CTG3a, CAG3A, TNRC23, NUMBR, NUMBLIKE
19	NUMBL	ENSG00000105245	ENST00000540131	protein_coding	NOVEL	None	8061	1707	568	41173246	41196027	-1	None	NUMB-R, CTG3a, CAG3A, TNRC23, NUMBR, NUMBLIKE
19	NUMBL	ENSG00000105245	ENST00000600967	protein_coding	NOVEL	None	8061	640	212	41179349	41188829	-1	None	NUMB-R, CTG3a, CAG3A, TNRC23, NUMBR, NUMBLIKE
19	NUMBL	ENSG00000105245	ENST00000593367	retained_intron	KNOWN	None	8061	None	None	41179427	41188760	-1	None	NUMB-R, CTG3a, CAG3A, TNRC23, NUMBR, NUMBLIKE
19	NUMBL	ENSG00000105245	ENST00000598773	protein_coding	NOVEL	None	8061	705	234	41179457	41195497	-1	None	NUMB-R, CTG3a, CAG3A, TNRC23, NUMBR, NUMBLIKE
19	NUMBL	ENSG00000105245	ENST00000595741	protein_coding	NOVEL	None	8061	347	114	41186892	41196877	-1	None	NUMB-R, CTG3a, CAG3A, TNRC23, NUMBR, NUMBLIKE
19	NUMBL	ENSG00000105245	ENST00000599786	retained_intron	KNOWN	None	8061	None	None	41186903	41190860	-1	None	NUMB-R, CTG3a, CAG3A, TNRC23, NUMBR, NUMBLIKE
19	NUMBL	ENSG00000105245	ENST00000600636	protein_coding	NOVEL	None	8061	331	109	41186908	41196069	-1	None	NUMB-R, CTG3a, CAG3A, TNRC23, NUMBR, NUMBLIKE
19	NUMBL	ENSG00000105245	ENST00000599594	processed_transcript	KNOWN	None	8061	None	None	41188929	41196513	-1	None	NUMB-R, CTG3a, CAG3A, TNRC23, NUMBR, NUMBLIKE
19	NUMBL	ENSG00000105245	ENST00000598759	retained_intron	KNOWN	None	8061	None	None	41189993	41192054	-1	None	NUMB-R, CTG3a, CAG3A, TNRC23, NUMBR, NUMBLIKE
12	None	ENSG00000255595	ENST00000536639	lincRNA	KNOWN	None	None	None	None	126843848	126845611	1	None	None
11	ACAD8	ENSG00000151498	ENST00000281182	protein_coding	KNOWN	CCDS8498	87	1248	415	134123389	134135749	1	None	None
11	ACAD8	ENSG00000151498	ENST00000526026	nonsense_mediated_decay	KNOWN	None	87	210	69	134123442	134132852	1	None	None
11	ACAD8	ENSG00000151498	ENST00000524426	nonsense_mediated_decay	KNOWN	None	87	231	76	134123452	134132506	1	None	None
11	ACAD8	ENSG00000151498	ENST00000534433	retained_intron	KNOWN	None	87	None	None	134123453	134130034	1	None	None
11	ACAD8	ENSG00000151498	ENST00000374752	protein_coding	NOVEL	None	87	867	288	134123455	134135744	1	None	None
11	ACAD8	ENSG00000151498	ENST00000525961	retained_intron	KNOWN	None	87	None	None	134123458	134126804	1	None	None
11	ACAD8	ENSG00000151498	ENST00000530533	retained_intron	KNOWN	None	87	None	None	134123462	134130508	1	None	None
11	ACAD8	ENSG00000151498	ENST00000534240	retained_intron	KNOWN	None	87	None	None	134123463	134129739	1	None	None
11	ACAD8	ENSG00000151498	ENST00000533387	retained_intron	KNOWN	None	87	None	None	134123463	134135744	1	None	None
11	ACAD8	ENSG00000151498	ENST00000527082	retained_intron	KNOWN	None	87	None	None	134123471	134129819	1	None	None
11	ACAD8	ENSG00000151498	ENST00000524547	processed_transcript	KNOWN	None	87	None	None	134123511	134132421	1	None	None
11	ACAD8	ENSG00000151498	ENST00000531338	retained_intron	KNOWN	None	87	None	None	134126477	134135744	1	None	None
11	ACAD8	ENSG00000151498	ENST00000528325	retained_intron	KNOWN	None	87	None	None	134126504	134130176	1	None	None
11	ACAD8	ENSG00000151498	ENST00000527665	retained_intron	KNOWN	None	87	None	None	134127641	134131779	1	None	None
11	ACAD8	ENSG00000151498	ENST00000527713	retained_intron	KNOWN	None	87	None	None	134128786	134131073	1	None	None
11	ACAD8	ENSG00000151498	ENST00000524739	retained_intron	KNOWN	None	87	None	None	134129132	134130446	1	None	None
11	ACAD8	ENSG00000151498	ENST00000524502	protein_coding	PUTATIVE	None	87	305	100	134132079	134133955	1	None	None
11	ACAD8	ENSG00000151498	ENST00000543332	protein_coding	KNOWN	None	87	681	226	134123452	134132506	1	None	None
11	ACAD8	ENSG00000151498	ENST00000537423	protein_coding	KNOWN	None	87	1074	357	134123442	134132852	1	None	None
8	None	ENSG00000253281	ENST00000519981	lincRNA	KNOWN	None	None	None	None	59168330	59184660	-1	None	None
8	None	ENSG00000253281	ENST00000523886	retained_intron	KNOWN	None	None	None	None	59172290	59173312	-1	None	None
8	None	ENSG00000253281	ENST00000518779	lincRNA	KNOWN	None	None	None	None	59172297	59184601	-1	None	None
8	None	ENSG00000253281	ENST00000522744	lincRNA	KNOWN	None	None	None	None	59173232	59184678	-1	None	None
3	RNU1-70P	ENSG00000199488	ENST00000362618	snRNA	KNOWN	None	48412	None	None	170712659	170712822	-1	None	None
14	SNORD114-12	ENSG00000202270	ENST00000365400	snoRNA	KNOWN	None	33000	None	None	101435285	101435359	1	None	14q(II-12)
12	None	ENSG00000256494	ENST00000536422	lincRNA	KNOWN	None	None	None	None	126885338	126890074	-1	None	None
3	UBA3	ENSG00000144744	ENST00000415609	protein_coding	NOVEL	None	12470	1269	422	69103881	69129532	-1	UBE1C	hUba3, NAE2
3	UBA3	ENSG00000144744	ENST00000361055	protein_coding	KNOWN	CCDS2909	12470	1392	463	69103881	69129559	-1	UBE1C	hUba3, NAE2
3	UBA3	ENSG00000144744	ENST00000349511	protein_coding	KNOWN	CCDS2910	12470	1350	449	69103881	69129559	-1	UBE1C	hUba3, NAE2
3	UBA3	ENSG00000144744	ENST00000461934	nonsense_mediated_decay	KNOWN	None	12470	195	64	69104449	69129528	-1	UBE1C	hUba3, NAE2
3	UBA3	ENSG00000144744	ENST00000465627	nonsense_mediated_decay	KNOWN	None	12470	390	129	69104449	69129528	-1	UBE1C	hUba3, NAE2
3	UBA3	ENSG00000144744	ENST00000461522	retained_intron	KNOWN	None	12470	None	None	69110734	69113242	-1	UBE1C	hUba3, NAE2
3	UBA3	ENSG00000144744	ENST00000465108	retained_intron	KNOWN	None	12470	None	None	69120244	69129519	-1	UBE1C	hUba3, NAE2
3	UBA3	ENSG00000144744	ENST00000493957	retained_intron	KNOWN	None	12470	None	None	69124234	69129516	-1	UBE1C	hUba3, NAE2
3	UBA3	ENSG00000144744	ENST00000466763	retained_intron	KNOWN	None	12470	None	None	69124235	69129516	-1	UBE1C	hUba3, NAE2
3	UBA3	ENSG00000144744	ENST00000485424	retained_intron	KNOWN	None	12470	None	None	69126490	69129514	-1	UBE1C	hUba3, NAE2
3	UBA3	ENSG00000144744	ENST00000464605	retained_intron	KNOWN	None	12470	None	None	69128895	69129505	-1	UBE1C	hUba3, NAE2
3	UBA3	ENSG00000144744	ENST00000540295	protein_coding	KNOWN	None	12470	861	286	69104455	69129528	-1	UBE1C	hUba3, NAE2
14	None	ENSG00000258810	ENST00000556624	antisense	KNOWN	None	None	None	None	21252047	21252452	1	None	None
1	None	ENSG00000252254	ENST00000516445	misc_RNA	NOVEL	None	None	None	None	8388127	8388239	1	None	None
12	TAOK3	ENSG00000135090	ENST00000419821	protein_coding	KNOWN	CCDS9188	18133	2697	898	118587606	118797525	-1	None	JIK, DPK, MAP3K18
12	TAOK3	ENSG00000135090	ENST00000392533	protein_coding	KNOWN	CCDS9188	18133	2697	898	118587606	118810750	-1	None	JIK, DPK, MAP3K18
12	TAOK3	ENSG00000135090	ENST00000543709	processed_transcript	KNOWN	None	18133	None	None	118587747	118598163	-1	None	JIK, DPK, MAP3K18
12	TAOK3	ENSG00000135090	ENST00000537305	retained_intron	KNOWN	None	18133	None	None	118588248	118681295	-1	None	JIK, DPK, MAP3K18
12	TAOK3	ENSG00000135090	ENST00000536979	protein_coding	PUTATIVE	None	18133	282	93	118588714	118590558	-1	None	JIK, DPK, MAP3K18
12	TAOK3	ENSG00000135090	ENST00000537952	protein_coding	PUTATIVE	None	18133	1317	438	118588762	118628350	-1	None	JIK, DPK, MAP3K18
12	TAOK3	ENSG00000135090	ENST00000537569	retained_intron	KNOWN	None	18133	None	None	118597581	118599684	-1	None	JIK, DPK, MAP3K18
12	TAOK3	ENSG00000135090	ENST00000540561	protein_coding	PUTATIVE	None	18133	115	37	118619247	118628327	-1	None	JIK, DPK, MAP3K18
12	TAOK3	ENSG00000135090	ENST00000537822	protein_coding	PUTATIVE	None	18133	42	13	118619320	118628356	-1	None	JIK, DPK, MAP3K18
12	TAOK3	ENSG00000135090	ENST00000536584	retained_intron	KNOWN	None	18133	None	None	118636195	118651976	-1	None	JIK, DPK, MAP3K18
12	TAOK3	ENSG00000135090	ENST00000538601	protein_coding	NOVEL	None	18133	555	184	118639227	118681253	-1	None	JIK, DPK, MAP3K18
12	TAOK3	ENSG00000135090	ENST00000535570	protein_coding	KNOWN	None	18133	408	135	118675907	118693864	-1	None	JIK, DPK, MAP3K18
12	TAOK3	ENSG00000135090	ENST00000541186	protein_coding	KNOWN	None	18133	279	92	118681235	118796910	-1	None	JIK, DPK, MAP3K18
12	TAOK3	ENSG00000135090	ENST00000541878	protein_coding	KNOWN	None	18133	185	60	118682706	118797525	-1	None	JIK, DPK, MAP3K18
12	TAOK3	ENSG00000135090	ENST00000542902	protein_coding	KNOWN	None	18133	172	56	118682719	118796971	-1	None	JIK, DPK, MAP3K18
12	TAOK3	ENSG00000135090	ENST00000542532	protein_coding	KNOWN	None	18133	108	35	118693265	118810694	-1	None	JIK, DPK, MAP3K18
12	TAOK3	ENSG00000135090	ENST00000541786	protein_coding	KNOWN	None	18133	64	20	118693309	118797481	-1	None	JIK, DPK, MAP3K18
12	TAOK3	ENSG00000135090	ENST00000539872	protein_coding	KNOWN	None	18133	56	17	118693317	118796926	-1	None	JIK, DPK, MAP3K18
12	TAOK3	ENSG00000135090	ENST00000542692	processed_transcript	KNOWN	None	18133	None	None	118693401	118810698	-1	None	JIK, DPK, MAP3K18
15	None	ENSG00000261544	ENST00000567396	sense_intronic	KNOWN	None	None	None	None	66058798	66059736	-1	None	None
2	MRPL30	ENSG00000185414	ENST00000410042	protein_coding	PUTATIVE	None	14036	396	131	99771461	99811761	1	None	MRP-L28, RPML28
2	MRPL30	ENSG00000185414	ENST00000338148	protein_coding	KNOWN	CCDS2041	14036	486	161	99797542	99814089	1	None	MRP-L28, RPML28
2	MRPL30	ENSG00000185414	ENST00000473743	processed_transcript	KNOWN	None	14036	None	None	99797615	99811641	1	None	MRP-L28, RPML28
2	MRPL30	ENSG00000185414	ENST00000409145	protein_coding	PUTATIVE	None	14036	306	101	99797649	99811552	1	None	MRP-L28, RPML28
2	MRPL30	ENSG00000185414	ENST00000465432	processed_transcript	KNOWN	None	14036	None	None	99797674	99813862	1	None	MRP-L28, RPML28
2	MRPL30	ENSG00000185414	ENST00000409841	nonsense_mediated_decay	KNOWN	CCDS2041	14036	486	161	99802639	99813886	1	None	MRP-L28, RPML28
2	MRPL30	ENSG00000185414	ENST00000476721	retained_intron	KNOWN	None	14036	None	None	99802646	99811761	1	None	MRP-L28, RPML28
6	RPL7L1	ENSG00000146223	ENST00000483998	processed_transcript	KNOWN	None	21370	None	None	42847356	42855039	1	None	dJ475N16.4
6	RPL7L1	ENSG00000146223	ENST00000493763	protein_coding	KNOWN	CCDS4873	21370	741	246	42847373	42857634	1	None	dJ475N16.4
6	RPL7L1	ENSG00000146223	ENST00000397415	processed_transcript	KNOWN	None	21370	None	None	42847377	42854748	1	None	dJ475N16.4
6	RPL7L1	ENSG00000146223	ENST00000304734	protein_coding	KNOWN	CCDS4873	21370	741	246	42847420	42857663	1	None	dJ475N16.4
6	RPL7L1	ENSG00000146223	ENST00000487619	processed_transcript	PUTATIVE	None	21370	None	None	42847658	42851514	1	None	dJ475N16.4
6	RPL7L1	ENSG00000146223	ENST00000492836	processed_transcript	PUTATIVE	None	21370	None	None	42847662	42848749	1	None	dJ475N16.4
6	RPL7L1	ENSG00000146223	ENST00000497417	retained_intron	KNOWN	None	21370	None	None	42847667	42850746	1	None	dJ475N16.4
6	RPL7L1	ENSG00000146223	ENST00000602561	protein_coding	PUTATIVE	None	21370	591	196	42847671	42853987	1	None	dJ475N16.4
6	RPL7L1	ENSG00000146223	ENST00000462348	processed_transcript	KNOWN	None	21370	None	None	42848599	42854092	1	None	dJ475N16.4
6	RPL7L1	ENSG00000146223	ENST00000459829	retained_intron	KNOWN	None	21370	None	None	42853315	42854976	1	None	dJ475N16.4
6	RPL7L1	ENSG00000146223	ENST00000424341	protein_coding	KNOWN	None	21370	462	153	42847655	42854844	1	None	dJ475N16.4
X	PHBP10	ENSG00000232665	ENST00000416467	processed_pseudogene	KNOWN	None	39289	None	None	103891897	103892680	-1	None	None
3	None	ENSG00000222335	ENST00000410403	misc_RNA	NOVEL	None	None	None	None	195929220	195929324	1	None	None
8	None	ENSG00000221446	ENST00000408519	miRNA	NOVEL	None	None	None	None	72361930	72362043	1	None	None
3	MIR569	ENSG00000207963	ENST00000385228	miRNA	KNOWN	None	32825	None	None	170824453	170824548	-1	MIRN569	hsa-mir-569
3	None	ENSG00000228028	ENST00000425275	antisense	KNOWN	None	None	None	None	195977420	195978525	1	None	None
14	SNORD114-13	ENSG00000201247	ENST00000364377	snoRNA	KNOWN	None	33001	None	None	101436216	101436289	1	None	14q(II-13)
HG1133_PATCH	None	ENSG00000263019	ENST00000575755	sense_intronic	KNOWN	None	None	None	None	11314975	11320238	-1	None	None
14	None	ENSG00000259130	ENST00000556197	lincRNA	KNOWN	None	None	None	None	21338437	21341529	-1	None	None
14	None	ENSG00000259130	ENST00000554983	lincRNA	KNOWN	None	None	None	None	21338438	21341751	-1	None	None
8	None	ENSG00000254277	ENST00000519840	lincRNA	KNOWN	None	None	None	None	72587535	72615021	1	None	None
8	None	ENSG00000254277	ENST00000521131	lincRNA	KNOWN	None	None	None	None	72587612	72614670	1	None	None
HG1133_PATCH	None	ENSG00000262396	ENST00000574127	processed_pseudogene	KNOWN	None	None	None	None	11320249	11320450	1	None	None
12	None	ENSG00000256927	ENST00000544419	lincRNA	KNOWN	None	None	None	None	126910536	126918554	1	None	None
14	COX8C	ENSG00000187581	ENST00000342144	protein_coding	KNOWN	CCDS9910	24382	219	72	93813537	93814702	1	None	COX8-3
5	PCDHB19P	ENSG00000262096	ENST00000570871	unprocessed_pseudogene	KNOWN	None	14549	None	None	140619518	140621864	1	None	PCDH-PSI5
14	SNORD114-14	ENSG00000199593	ENST00000362723	snoRNA	KNOWN	None	33002	None	None	101438440	101438514	1	None	14q(II-14)
HSCHR6_MHC_QBL	TRIM10	ENSG00000137394	ENST00000354038	protein_coding	KNOWN	None	10072	1446	481	30109273	30118261	-1	RNF9	RFB30, HERF1
HSCHR6_MHC_QBL	TRIM10	ENSG00000137394	ENST00000259941	protein_coding	KNOWN	None	10072	1188	395	30109273	30118261	-1	RNF9	RFB30, HERF1
HSCHR6_MHC_QBL	TRIM10	ENSG00000137394	ENST00000548533	protein_coding	KNOWN	None	10072	1446	481	30111297	30118261	-1	RNF9	RFB30, HERF1
16	None	ENSG00000261939	ENST00000575306	processed_pseudogene	KNOWN	None	None	None	None	19830826	19830950	-1	None	None
HG1308_PATCH	None	ENSG00000265571	ENST00000585021	processed_pseudogene	KNOWN	None	None	None	None	130486859	130487165	-1	None	None
3	None	ENSG00000237418	ENST00000441819	processed_pseudogene	KNOWN	None	None	None	None	196024932	196025086	-1	None	None
15	POTEB	ENSG00000233917	ENST00000435397	nonsense_mediated_decay	KNOWN	None	33734	906	301	22051853	22082803	-1	A26B1	POTE15, POTE-15, CT104.5
15	POTEB	ENSG00000233917	ENST00000439682	protein_coding	KNOWN	CCDS59250	33734	1635	544	22051853	22082822	-1	A26B1	POTE15, POTE-15, CT104.5
15	POTEB	ENSG00000233917	ENST00000553662	processed_transcript	KNOWN	None	33734	None	None	22067874	22082713	-1	A26B1	POTE15, POTE-15, CT104.5
15	POTEB	ENSG00000233917	ENST00000570157	processed_transcript	KNOWN	None	33734	None	None	22077593	22083227	-1	A26B1	POTE15, POTE-15, CT104.5
15	None	ENSG00000238960	ENST00000459608	snoRNA	NOVEL	None	None	None	None	22348678	22348778	-1	None	None
16	None	ENSG00000265524	ENST00000584607	miRNA	NOVEL	None	None	None	None	19901823	19901919	1	None	None
9	OR13D1	ENSG00000179055	ENST00000318763	protein_coding	KNOWN	CCDS35094	14695	1041	346	107456660	107457766	1	None	None
15	OR4N3P	ENSG00000259435	ENST00000559395	processed_pseudogene	KNOWN	None	15374	None	None	22413569	22414386	1	None	None
5	None	ENSG00000255729	ENST00000535969	pseudogene	NOVEL	None	None	None	None	140699661	140700339	-1	None	None
3	UTS2B	ENSG00000188958	ENST00000340524	protein_coding	KNOWN	CCDS3300	30894	360	119	190984957	191048325	-1	UTS2D	URP, U2B
3	UTS2B	ENSG00000188958	ENST00000440476	nonsense_mediated_decay	KNOWN	None	30894	246	81	190985830	191000120	-1	UTS2D	URP, U2B
3	UTS2B	ENSG00000188958	ENST00000446788	nonsense_mediated_decay	KNOWN	None	30894	399	132	190985980	191000050	-1	UTS2D	URP, U2B
3	UTS2B	ENSG00000188958	ENST00000427544	protein_coding	KNOWN	CCDS3300	30894	360	119	190986103	191000192	-1	UTS2D	URP, U2B
3	UTS2B	ENSG00000188958	ENST00000425357	nonsense_mediated_decay	KNOWN	None	30894	246	81	190986126	191000099	-1	UTS2D	URP, U2B
3	UTS2B	ENSG00000188958	ENST00000463450	processed_transcript	KNOWN	None	30894	None	None	190995380	191034007	-1	UTS2D	URP, U2B
3	UTS2B	ENSG00000188958	ENST00000432514	protein_coding	KNOWN	None	30894	114	37	190995949	191048262	-1	UTS2D	URP, U2B
3	UTS2B	ENSG00000188958	ENST00000490825	processed_transcript	KNOWN	None	30894	None	None	191046020	191047405	-1	UTS2D	URP, U2B
3	UTS2B	ENSG00000188958	ENST00000464814	retained_intron	KNOWN	None	30894	None	None	191046447	191047101	-1	UTS2D	URP, U2B
12	None	ENSG00000257470	ENST00000549896	lincRNA	KNOWN	None	None	None	None	97417799	97444907	1	None	None
X	RPL18AP14	ENSG00000223733	ENST00000417685	processed_pseudogene	KNOWN	None	36624	None	None	104048595	104049120	1	None	None
15	None	ENSG00000259924	ENST00000567680	processed_pseudogene	KNOWN	None	None	None	None	66063514	66064477	-1	None	None
15	CNOT6LP1	ENSG00000230183	ENST00000559681	processed_pseudogene	KNOWN	None	32355	None	None	56297913	56299374	-1	None	None
15	CNOT6LP1	ENSG00000230183	ENST00000393358	processed_pseudogene	KNOWN	None	32355	None	None	56297911	56299359	-1	None	None
1	None	ENSG00000232912	ENST00000449895	antisense	KNOWN	None	None	None	None	8484705	8494898	1	None	None
1	None	ENSG00000232912	ENST00000444276	antisense	KNOWN	None	None	None	None	8485698	8490101	1	None	None
16	None	ENSG00000263253	ENST00000570859	lincRNA	KNOWN	None	None	None	None	20220247	20220847	1	None	None
19	KLK8	ENSG00000129455	ENST00000391806	protein_coding	KNOWN	CCDS42600	6369	918	305	51499263	51504860	-1	PRSS19	HNP, TADG14, neuropsin, ovasin
19	KLK8	ENSG00000129455	ENST00000600767	protein_coding	KNOWN	CCDS12813	6369	783	260	51499264	51505967	-1	PRSS19	HNP, TADG14, neuropsin, ovasin
19	KLK8	ENSG00000129455	ENST00000594914	retained_intron	KNOWN	None	6369	None	None	51499265	51501223	-1	PRSS19	HNP, TADG14, neuropsin, ovasin
19	KLK8	ENSG00000129455	ENST00000347619	protein_coding	KNOWN	CCDS12814	6369	360	119	51499265	51504924	-1	PRSS19	HNP, TADG14, neuropsin, ovasin
19	KLK8	ENSG00000129455	ENST00000593490	protein_coding	NOVEL	CCDS12815	6369	99	32	51499274	51504423	-1	PRSS19	HNP, TADG14, neuropsin, ovasin
19	KLK8	ENSG00000129455	ENST00000598195	processed_transcript	KNOWN	None	6369	None	None	51499340	51502491	-1	PRSS19	HNP, TADG14, neuropsin, ovasin
19	KLK8	ENSG00000129455	ENST00000594669	nonsense_mediated_decay	KNOWN	None	6369	163	53	51499416	51504382	-1	PRSS19	HNP, TADG14, neuropsin, ovasin
19	KLK8	ENSG00000129455	ENST00000595238	protein_coding	KNOWN	None	6369	291	96	51503454	51505934	-1	PRSS19	HNP, TADG14, neuropsin, ovasin
19	KLK8	ENSG00000129455	ENST00000599710	retained_intron	KNOWN	None	6369	None	None	51503641	51504859	-1	PRSS19	HNP, TADG14, neuropsin, ovasin
19	KLK8	ENSG00000129455	ENST00000291726	protein_coding	KNOWN	CCDS12813	6369	783	260	51499264	51504958	-1	PRSS19	HNP, TADG14, neuropsin, ovasin
19	KLK8	ENSG00000129455	ENST00000320838	protein_coding	KNOWN	CCDS12815	6369	99	32	51499264	51504958	-1	PRSS19	HNP, TADG14, neuropsin, ovasin
15	None	ENSG00000260739	ENST00000565129	lincRNA	KNOWN	None	None	None	None	22433890	22436177	-1	None	None
14	SNORD114-15	ENSG00000201557	ENST00000364687	snoRNA	KNOWN	None	33003	None	None	101439007	101439078	1	None	14q(II-15)
7	TSPAN13	ENSG00000106537	ENST00000262067	protein_coding	KNOWN	CCDS5363	21643	615	204	16793160	16824161	1	TM4SF13	NET-6
7	TSPAN13	ENSG00000106537	ENST00000466195	processed_transcript	KNOWN	None	21643	None	None	16815379	16818701	1	TM4SF13	NET-6
8	None	ENSG00000253287	ENST00000517848	lincRNA	KNOWN	None	None	None	None	72691840	72705110	-1	None	None
HSCHR17_1	None	ENSG00000257561	ENST00000546522	protein_coding	NOVEL	None	None	309	102	43735638	43740507	-1	None	None
14	None	ENSG00000258642	ENST00000555481	antisense	KNOWN	None	None	None	None	21342464	21343927	-1	None	None
12	C2CD5	ENSG00000111731	ENST00000333957	protein_coding	KNOWN	CCDS31758	29062	3003	1000	22601517	22697480	-1	KIAA0528	CDP138
12	C2CD5	ENSG00000111731	ENST00000446597	protein_coding	NOVEL	None	29062	3156	1051	22602479	22697343	-1	KIAA0528	CDP138
12	C2CD5	ENSG00000111731	ENST00000536386	protein_coding	NOVEL	None	29062	3162	1053	22602479	22697343	-1	KIAA0528	CDP138
12	C2CD5	ENSG00000111731	ENST00000396028	protein_coding	NOVEL	None	29062	3129	1042	22602479	22697343	-1	KIAA0528	CDP138
12	C2CD5	ENSG00000111731	ENST00000542676	protein_coding	NOVEL	None	29062	3156	1051	22602515	22697187	-1	KIAA0528	CDP138
12	C2CD5	ENSG00000111731	ENST00000545552	protein_coding	NOVEL	None	29062	3165	1054	22602590	22697426	-1	KIAA0528	CDP138
12	C2CD5	ENSG00000111731	ENST00000539615	protein_coding	NOVEL	None	29062	850	282	22602749	22625239	-1	KIAA0528	CDP138
12	C2CD5	ENSG00000111731	ENST00000543888	retained_intron	KNOWN	None	29062	None	None	22609905	22611798	-1	KIAA0528	CDP138
12	C2CD5	ENSG00000111731	ENST00000540245	retained_intron	KNOWN	None	29062	None	None	22623770	22625379	-1	KIAA0528	CDP138
12	C2CD5	ENSG00000111731	ENST00000537643	processed_transcript	KNOWN	None	29062	None	None	22623831	22630272	-1	KIAA0528	CDP138
12	C2CD5	ENSG00000111731	ENST00000541310	retained_intron	KNOWN	None	29062	None	None	22630962	22697480	-1	KIAA0528	CDP138
12	C2CD5	ENSG00000111731	ENST00000543797	retained_intron	KNOWN	None	29062	None	None	22635496	22659901	-1	KIAA0528	CDP138
12	C2CD5	ENSG00000111731	ENST00000542768	retained_intron	KNOWN	None	29062	None	None	22637272	22643116	-1	KIAA0528	CDP138
12	C2CD5	ENSG00000111731	ENST00000543855	processed_transcript	KNOWN	None	29062	None	None	22637677	22659753	-1	KIAA0528	CDP138
12	C2CD5	ENSG00000111731	ENST00000542683	nonsense_mediated_decay	KNOWN	None	29062	497	164	22637689	22677414	-1	KIAA0528	CDP138
12	C2CD5	ENSG00000111731	ENST00000535555	protein_coding	NOVEL	None	29062	544	180	22637729	22666258	-1	KIAA0528	CDP138
12	C2CD5	ENSG00000111731	ENST00000544281	protein_coding	NOVEL	None	29062	385	127	22659663	22676556	-1	KIAA0528	CDP138
12	C2CD5	ENSG00000111731	ENST00000540703	processed_transcript	KNOWN	None	29062	None	None	22671030	22678631	-1	KIAA0528	CDP138
12	C2CD5	ENSG00000111731	ENST00000535304	retained_intron	KNOWN	None	29062	None	None	22687641	22697123	-1	KIAA0528	CDP138
12	C2CD5	ENSG00000111731	ENST00000544930	protein_coding	KNOWN	None	29062	2571	856	22602590	22697426	-1	KIAA0528	CDP138
4	C4orf32	ENSG00000174749	ENST00000309733	protein_coding	KNOWN	CCDS3695	26813	399	132	113066553	113110237	1	None	FLJ39370
12	None	ENSG00000214043	ENST00000544759	lincRNA	KNOWN	None	None	None	None	126927027	126942847	1	None	None
12	None	ENSG00000214043	ENST00000397346	lincRNA	KNOWN	None	None	None	None	126927027	126957336	1	None	None
12	None	ENSG00000214043	ENST00000539969	lincRNA	KNOWN	None	None	None	None	126927072	126954352	1	None	None
12	None	ENSG00000214043	ENST00000545767	lincRNA	KNOWN	None	None	None	None	126927072	126954352	1	None	None
12	None	ENSG00000214043	ENST00000540774	lincRNA	KNOWN	None	None	None	None	126927512	126954352	1	None	None
HSCHR6_MHC_QBL	GPSM3	ENSG00000206314	ENST00000494847	protein_coding	NOVEL	None	13945	474	157	32116164	32118266	-1	C6orf9	NG1, G18, G18.1a, G18.1b, G18.2, AGS4
HSCHR6_MHC_QBL	GPSM3	ENSG00000206314	ENST00000481251	nonsense_mediated_decay	KNOWN	None	13945	150	49	32116164	32118283	-1	C6orf9	NG1, G18, G18.1a, G18.1b, G18.2, AGS4
HSCHR6_MHC_QBL	GPSM3	ENSG00000206314	ENST00000383265	protein_coding	KNOWN	None	13945	483	160	32116164	32118304	-1	C6orf9	NG1, G18, G18.1a, G18.1b, G18.2, AGS4
HSCHR6_MHC_QBL	GPSM3	ENSG00000206314	ENST00000383269	protein_coding	KNOWN	None	13945	483	160	32116164	32120921	-1	C6orf9	NG1, G18, G18.1a, G18.1b, G18.2, AGS4
3	None	ENSG00000222506	ENST00000410574	misc_RNA	NOVEL	None	None	None	None	171157315	171157416	1	None	None
19	None	ENSG00000252200	ENST00000516391	snoRNA	NOVEL	None	None	None	None	45229248	45229322	-1	None	None
8	None	ENSG00000253550	ENST00000514530	processed_pseudogene	KNOWN	None	None	None	None	6331366	6331809	-1	None	None
19	None	ENSG00000253027	ENST00000517218	snoRNA	NOVEL	None	None	None	None	45268207	45268357	1	None	None
9	ARPC5L	ENSG00000136950	ENST00000353214	protein_coding	KNOWN	CCDS6859	23366	462	153	127624409	127640003	1	None	MGC3038, ARC16-2
9	ARPC5L	ENSG00000136950	ENST00000259477	protein_coding	KNOWN	CCDS6859	23366	462	153	127631484	127639996	1	None	MGC3038, ARC16-2
9	ARPC5L	ENSG00000136950	ENST00000465124	processed_transcript	KNOWN	None	23366	None	None	127634868	127639680	1	None	MGC3038, ARC16-2
19	None	ENSG00000236807	ENST00000425131	processed_pseudogene	KNOWN	None	None	None	None	45268405	45268721	1	None	None
15	None	ENSG00000223877	ENST00000460876	processed_pseudogene	KNOWN	None	None	None	None	22440227	22440848	-1	None	None
15	None	ENSG00000223877	ENST00000415697	processed_pseudogene	KNOWN	None	None	None	None	22440672	22440767	-1	None	None
19	PEG3	ENSG00000198300	ENST00000326441	protein_coding	KNOWN	CCDS12948	8826	4767	1588	57321451	57352064	-1	None	ZKSCAN22, KIAA0287, ZNF904, ZSCAN24
19	PEG3	ENSG00000198300	ENST00000599565	processed_transcript	KNOWN	None	8826	None	None	57321459	57322651	-1	None	ZKSCAN22, KIAA0287, ZNF904, ZSCAN24
19	PEG3	ENSG00000198300	ENST00000598410	protein_coding	NOVEL	CCDS58684	8826	4395	1464	57324516	57352094	-1	None	ZKSCAN22, KIAA0287, ZNF904, ZSCAN24
19	PEG3	ENSG00000198300	ENST00000593695	protein_coding	KNOWN	CCDS58685	8826	4389	1462	57325043	57352064	-1	None	ZKSCAN22, KIAA0287, ZNF904, ZSCAN24
19	PEG3	ENSG00000198300	ENST00000599534	protein_coding	KNOWN	None	8826	4764	1587	57325046	57336374	-1	None	ZKSCAN22, KIAA0287, ZNF904, ZSCAN24
19	PEG3	ENSG00000198300	ENST00000599577	protein_coding	KNOWN	None	8826	4764	1587	57325046	57352064	-1	None	ZKSCAN22, KIAA0287, ZNF904, ZSCAN24
19	PEG3	ENSG00000198300	ENST00000600833	protein_coding	NOVEL	None	8826	1187	394	57328158	57336016	-1	None	ZKSCAN22, KIAA0287, ZNF904, ZSCAN24
19	PEG3	ENSG00000198300	ENST00000596261	processed_transcript	KNOWN	None	8826	None	None	57335646	57352030	-1	None	ZKSCAN22, KIAA0287, ZNF904, ZSCAN24
19	PEG3	ENSG00000198300	ENST00000594706	processed_transcript	KNOWN	None	8826	None	None	57335654	57352096	-1	None	ZKSCAN22, KIAA0287, ZNF904, ZSCAN24
19	PEG3	ENSG00000198300	ENST00000594389	protein_coding	KNOWN	None	8826	110	35	57335914	57352077	-1	None	ZKSCAN22, KIAA0287, ZNF904, ZSCAN24
19	PEG3	ENSG00000198300	ENST00000423103	protein_coding	KNOWN	CCDS12948	8826	4767	1588	57321445	57352094	-1	None	ZKSCAN22, KIAA0287, ZNF904, ZSCAN24
14	PRIMA1	ENSG00000175785	ENST00000393140	protein_coding	KNOWN	CCDS9912	18319	462	153	94184644	94254827	-1	None	PRIMA
14	PRIMA1	ENSG00000175785	ENST00000477603	nonsense_mediated_decay	KNOWN	None	18319	375	124	94187384	94254766	-1	None	PRIMA
14	PRIMA1	ENSG00000175785	ENST00000393143	protein_coding	KNOWN	CCDS9912	18319	462	153	94184644	94254105	-1	None	PRIMA
14	PRIMA1	ENSG00000175785	ENST00000316227	protein_coding	KNOWN	None	18319	375	124	94187384	94254105	-1	None	PRIMA
12	BICD1	ENSG00000151746	ENST00000551848	protein_coding	PUTATIVE	None	1049	282	93	32259769	32261730	1	None	None
12	BICD1	ENSG00000151746	ENST00000550207	protein_coding	PUTATIVE	None	1049	240	79	32259819	32261263	1	None	None
12	BICD1	ENSG00000151746	ENST00000548411	protein_coding	KNOWN	CCDS44859	1049	2508	835	32260085	32536567	1	None	None
12	BICD1	ENSG00000151746	ENST00000281474	protein_coding	KNOWN	CCDS8726	1049	2928	975	32260163	32530811	1	None	None
12	BICD1	ENSG00000151746	ENST00000395758	nonsense_mediated_decay	KNOWN	None	1049	2484	827	32260186	32530857	1	None	None
12	BICD1	ENSG00000151746	ENST00000551086	protein_coding	PUTATIVE	None	1049	282	93	32260230	32261740	1	None	None
12	BICD1	ENSG00000151746	ENST00000547680	protein_coding	PUTATIVE	None	1049	208	68	32481336	32485999	1	None	None
12	BICD1	ENSG00000151746	ENST00000552160	retained_intron	KNOWN	None	1049	None	None	32487451	32491094	1	None	None
12	BICD1	ENSG00000151746	ENST00000552226	retained_intron	KNOWN	None	1049	None	None	32490433	32492054	1	None	None
19	UBA2	ENSG00000126261	ENST00000607361	nonsense_mediated_decay	KNOWN	None	30661	165	54	34919257	34929669	1	SAE2	FLJ13058, HRIHFB2115, ARX
19	UBA2	ENSG00000126261	ENST00000586313	nonsense_mediated_decay	KNOWN	None	30661	225	74	34919264	34955036	1	SAE2	FLJ13058, HRIHFB2115, ARX
19	UBA2	ENSG00000126261	ENST00000246548	protein_coding	KNOWN	CCDS12439	30661	1923	640	34919268	34960853	1	SAE2	FLJ13058, HRIHFB2115, ARX
19	UBA2	ENSG00000126261	ENST00000590048	protein_coding	NOVEL	None	30661	787	261	34919278	34941269	1	SAE2	FLJ13058, HRIHFB2115, ARX
19	UBA2	ENSG00000126261	ENST00000592841	retained_intron	KNOWN	None	30661	None	None	34919389	34922938	1	SAE2	FLJ13058, HRIHFB2115, ARX
19	UBA2	ENSG00000126261	ENST00000439527	protein_coding	PUTATIVE	None	30661	1635	544	34919781	34960795	1	SAE2	FLJ13058, HRIHFB2115, ARX
19	UBA2	ENSG00000126261	ENST00000592672	retained_intron	KNOWN	None	30661	None	None	34924165	34929648	1	SAE2	FLJ13058, HRIHFB2115, ARX
19	UBA2	ENSG00000126261	ENST00000591016	protein_coding	NOVEL	None	30661	646	214	34941189	34955024	1	SAE2	FLJ13058, HRIHFB2115, ARX
19	UBA2	ENSG00000126261	ENST00000592791	protein_coding	PUTATIVE	None	30661	501	166	34949619	34960303	1	SAE2	FLJ13058, HRIHFB2115, ARX
19	UBA2	ENSG00000126261	ENST00000588585	processed_transcript	KNOWN	None	30661	None	None	34957930	34960021	1	SAE2	FLJ13058, HRIHFB2115, ARX
9	NIPSNAP3A	ENSG00000136783	ENST00000374767	protein_coding	KNOWN	CCDS6760	23619	744	247	107509969	107522403	1	None	DKFZp564D177, FLJ13953, HSPC299, MGC14553
9	NIPSNAP3A	ENSG00000136783	ENST00000471001	processed_transcript	KNOWN	None	23619	None	None	107515880	107521411	1	None	DKFZp564D177, FLJ13953, HSPC299, MGC14553
8	None	ENSG00000271743	ENST00000607368	lincRNA	KNOWN	None	None	None	None	6473125	6474719	-1	None	None
19	None	ENSG00000267282	ENST00000585408	antisense	KNOWN	None	None	None	None	45385284	45394133	-1	None	None
2	LRRFIP1	ENSG00000124831	ENST00000308482	protein_coding	PUTATIVE	CCDS46551	6702	1923	640	238536219	238688958	1	None	FLAP-1, FLIIAP1, TRIP, GCF-2, HUFI-1
2	LRRFIP1	ENSG00000124831	ENST00000465870	retained_intron	KNOWN	None	6702	None	None	238536250	238630774	1	None	FLAP-1, FLIIAP1, TRIP, GCF-2, HUFI-1
2	LRRFIP1	ENSG00000124831	ENST00000489295	processed_transcript	KNOWN	None	6702	None	None	238592047	238593116	1	None	FLAP-1, FLIIAP1, TRIP, GCF-2, HUFI-1
2	LRRFIP1	ENSG00000124831	ENST00000498053	processed_transcript	KNOWN	None	6702	None	None	238592047	238664818	1	None	FLAP-1, FLIIAP1, TRIP, GCF-2, HUFI-1
2	LRRFIP1	ENSG00000124831	ENST00000289175	protein_coding	KNOWN	CCDS46553	6702	2259	752	238600788	238673922	1	None	FLAP-1, FLIIAP1, TRIP, GCF-2, HUFI-1
2	LRRFIP1	ENSG00000124831	ENST00000244815	protein_coding	KNOWN	CCDS2521	6702	2355	784	238600859	238674558	1	None	FLAP-1, FLIIAP1, TRIP, GCF-2, HUFI-1
2	LRRFIP1	ENSG00000124831	ENST00000420665	protein_coding	PUTATIVE	None	6702	447	148	238600976	238657943	1	None	FLAP-1, FLIIAP1, TRIP, GCF-2, HUFI-1
2	LRRFIP1	ENSG00000124831	ENST00000392000	protein_coding	KNOWN	CCDS46552	6702	2427	808	238600982	238673604	1	None	FLAP-1, FLIIAP1, TRIP, GCF-2, HUFI-1
2	LRRFIP1	ENSG00000124831	ENST00000473815	processed_transcript	KNOWN	None	6702	None	None	238601137	238644319	1	None	FLAP-1, FLIIAP1, TRIP, GCF-2, HUFI-1
2	LRRFIP1	ENSG00000124831	ENST00000483443	retained_intron	KNOWN	None	6702	None	None	238664738	238679419	1	None	FLAP-1, FLIIAP1, TRIP, GCF-2, HUFI-1
2	LRRFIP1	ENSG00000124831	ENST00000478958	retained_intron	KNOWN	None	6702	None	None	238676840	238688958	1	None	FLAP-1, FLIIAP1, TRIP, GCF-2, HUFI-1
2	LRRFIP1	ENSG00000124831	ENST00000468950	processed_transcript	KNOWN	None	6702	None	None	238678269	238682870	1	None	FLAP-1, FLIIAP1, TRIP, GCF-2, HUFI-1
2	LRRFIP1	ENSG00000124831	ENST00000489603	processed_transcript	KNOWN	None	6702	None	None	238678375	238722325	1	None	FLAP-1, FLIIAP1, TRIP, GCF-2, HUFI-1
2	LRRFIP1	ENSG00000124831	ENST00000464608	retained_intron	KNOWN	None	6702	None	None	238680587	238688204	1	None	FLAP-1, FLIIAP1, TRIP, GCF-2, HUFI-1
2	LRRFIP1	ENSG00000124831	ENST00000474195	retained_intron	KNOWN	None	6702	None	None	238680625	238688952	1	None	FLAP-1, FLIIAP1, TRIP, GCF-2, HUFI-1
15	RN7SL568P	ENSG00000239703	ENST00000493069	misc_RNA	KNOWN	None	46584	None	None	56321886	56322179	-1	None	None
X	KCTD9P2	ENSG00000181819	ENST00000512203	processed_pseudogene	KNOWN	None	29274	None	None	104650318	104651710	1	KCTD9L	None
5	VCAN	ENSG00000038427	ENST00000265077	protein_coding	KNOWN	CCDS4060	2464	10191	3396	82767284	82878122	1	CSPG2	PG-M
5	VCAN	ENSG00000038427	ENST00000503923	retained_intron	KNOWN	None	2464	None	None	82767437	82779423	1	CSPG2	PG-M
5	VCAN	ENSG00000038427	ENST00000512590	protein_coding	KNOWN	None	2464	4785	1594	82767583	82876981	1	CSPG2	PG-M
5	VCAN	ENSG00000038427	ENST00000513960	protein_coding	PUTATIVE	None	2464	3720	1239	82767596	82835503	1	CSPG2	PG-M
5	VCAN	ENSG00000038427	ENST00000513984	protein_coding	PUTATIVE	None	2464	1065	354	82767610	82808759	1	CSPG2	PG-M
5	VCAN	ENSG00000038427	ENST00000502527	protein_coding	NOVEL	CCDS47242	2464	1968	655	82767744	82876267	1	CSPG2	PG-M
5	VCAN	ENSG00000038427	ENST00000515397	retained_intron	KNOWN	None	2464	None	None	82807921	82833066	1	CSPG2	PG-M
5	VCAN	ENSG00000038427	ENST00000513016	processed_transcript	KNOWN	None	2464	None	None	82831433	82877155	1	CSPG2	PG-M
5	VCAN	ENSG00000038427	ENST00000507162	processed_transcript	KNOWN	None	2464	None	None	82837767	82849293	1	CSPG2	PG-M
5	VCAN	ENSG00000038427	ENST00000505615	retained_intron	KNOWN	None	2464	None	None	82849181	82876219	1	CSPG2	PG-M
5	VCAN	ENSG00000038427	ENST00000343200	protein_coding	KNOWN	CCDS54876	2464	7230	2409	82767493	82878122	1	CSPG2	PG-M
5	VCAN	ENSG00000038427	ENST00000342785	protein_coding	KNOWN	CCDS54875	2464	4929	1642	82767493	82878122	1	CSPG2	PG-M
12	None	ENSG00000257920	ENST00000547515	lincRNA	KNOWN	None	None	None	None	97666470	97669987	-1	None	None
6	None	ENSG00000271755	ENST00000607727	lincRNA	KNOWN	None	None	None	None	27371789	27374743	-1	None	None
19	PPP5C	ENSG00000011485	ENST00000012443	protein_coding	KNOWN	CCDS12684	9322	1500	499	46850251	46894109	1	PPP5	PP5
19	PPP5C	ENSG00000011485	ENST00000478046	nonsense_mediated_decay	KNOWN	None	9322	1457	484	46850358	46896238	1	PPP5	PP5
19	PPP5C	ENSG00000011485	ENST00000391919	protein_coding	PUTATIVE	None	9322	1116	371	46850365	46894109	1	PPP5	PP5
19	PPP5C	ENSG00000011485	ENST00000467902	retained_intron	KNOWN	None	9322	None	None	46878861	46879960	1	PPP5	PP5
19	PPP5C	ENSG00000011485	ENST00000527193	retained_intron	KNOWN	None	9322	None	None	46878884	46886968	1	PPP5	PP5
19	PPP5C	ENSG00000011485	ENST00000487483	retained_intron	KNOWN	None	9322	None	None	46884768	46894103	1	PPP5	PP5
19	PPP5C	ENSG00000011485	ENST00000532058	retained_intron	KNOWN	None	9322	None	None	46884983	46887255	1	PPP5	PP5
19	PPP5C	ENSG00000011485	ENST00000486994	retained_intron	KNOWN	None	9322	None	None	46886029	46894003	1	PPP5	PP5
19	PPP5C	ENSG00000011485	ENST00000467502	retained_intron	KNOWN	None	9322	None	None	46886413	46891192	1	PPP5	PP5
19	PPP5C	ENSG00000011485	ENST00000493347	retained_intron	KNOWN	None	9322	None	None	46886580	46890421	1	PPP5	PP5
19	PPP5C	ENSG00000011485	ENST00000595055	retained_intron	KNOWN	None	9322	None	None	46886720	46888200	1	PPP5	PP5
19	PPP5C	ENSG00000011485	ENST00000491003	retained_intron	KNOWN	None	9322	None	None	46887051	46893543	1	PPP5	PP5
19	PPP5C	ENSG00000011485	ENST00000492109	retained_intron	KNOWN	None	9322	None	None	46887634	46891852	1	PPP5	PP5
19	PPP5C	ENSG00000011485	ENST00000525507	retained_intron	KNOWN	None	9322	None	None	46889975	46893932	1	PPP5	PP5
19	PPP5C	ENSG00000011485	ENST00000527623	retained_intron	KNOWN	None	9322	None	None	46891183	46893867	1	PPP5	PP5
14	None	ENSG00000258918	ENST00000553534	lincRNA	KNOWN	None	None	None	None	21366144	21404414	-1	None	None
9	MRPL50	ENSG00000136897	ENST00000374865	protein_coding	KNOWN	CCDS6753	16654	477	158	104149915	104160896	-1	None	FLJ20493, MRP-L50
9	MRPL50	ENSG00000136897	ENST00000539624	protein_coding	KNOWN	None	16654	408	135	104151122	104160886	-1	None	FLJ20493, MRP-L50
12	NDUFA9	ENSG00000139180	ENST00000536588	nonsense_mediated_decay	KNOWN	None	7693	155	50	4714110	4771809	1	NDUFS2L	SDR22E1, CI-39k
12	NDUFA9	ENSG00000139180	ENST00000539573	retained_intron	KNOWN	None	7693	None	None	4758261	4777704	1	NDUFS2L	SDR22E1, CI-39k
12	NDUFA9	ENSG00000139180	ENST00000266544	protein_coding	KNOWN	CCDS8532	7693	1134	377	4758273	4798454	1	NDUFS2L	SDR22E1, CI-39k
12	NDUFA9	ENSG00000139180	ENST00000542369	processed_transcript	KNOWN	None	7693	None	None	4758281	4765116	1	NDUFS2L	SDR22E1, CI-39k
12	NDUFA9	ENSG00000139180	ENST00000396655	retained_intron	KNOWN	None	7693	None	None	4758283	4777876	1	NDUFS2L	SDR22E1, CI-39k
12	NDUFA9	ENSG00000139180	ENST00000544679	retained_intron	KNOWN	None	7693	None	None	4758285	4764544	1	NDUFS2L	SDR22E1, CI-39k
12	NDUFA9	ENSG00000139180	ENST00000535050	protein_coding	PUTATIVE	None	7693	449	148	4762667	4766978	1	NDUFS2L	SDR22E1, CI-39k
12	NDUFA9	ENSG00000139180	ENST00000535726	retained_intron	KNOWN	None	7693	None	None	4766340	4777641	1	NDUFS2L	SDR22E1, CI-39k
12	NDUFA9	ENSG00000139180	ENST00000544675	retained_intron	KNOWN	None	7693	None	None	4766539	4791473	1	NDUFS2L	SDR22E1, CI-39k
12	NDUFA9	ENSG00000139180	ENST00000540688	protein_coding	PUTATIVE	None	7693	411	136	4794146	4796399	1	NDUFS2L	SDR22E1, CI-39k
20	None	ENSG00000205300	ENST00000379526	protein_coding	KNOWN	None	None	342	113	4050799	4055812	-1	None	None
6	MCFD2P1	ENSG00000237154	ENST00000417812	processed_pseudogene	KNOWN	None	21582	None	None	27375476	27375775	1	C6orf44, MCFD2L	dJ153G14.2, NUCB2-L
6	MCFD2P1	ENSG00000237154	ENST00000453668	processed_pseudogene	KNOWN	None	21582	None	None	27375503	27375775	1	C6orf44, MCFD2L	dJ153G14.2, NUCB2-L
12	CCDC42B	ENSG00000186710	ENST00000335621	protein_coding	KNOWN	CCDS44983	37100	927	308	113587663	113597081	1	None	None
12	CCDC42B	ENSG00000186710	ENST00000551256	retained_intron	KNOWN	None	37100	None	None	113590801	113596909	1	None	None
12	CCDC42B	ENSG00000186710	ENST00000550918	protein_coding	PUTATIVE	None	37100	372	123	113591035	113595440	1	None	None
2	None	ENSG00000211573	ENST00000390147	miRNA	NOVEL	None	None	None	None	204629430	204629521	-1	None	None
6	None	ENSG00000270666	ENST00000603933	processed_pseudogene	KNOWN	None	None	None	None	27482818	27483053	-1	None	None
8	None	ENSG00000249898	ENST00000515608	antisense	KNOWN	None	None	None	None	6475996	6506328	-1	None	None
8	None	ENSG00000249898	ENST00000522897	antisense	KNOWN	None	None	None	None	6477656	6565721	-1	None	None
8	None	ENSG00000249898	ENST00000525186	antisense	KNOWN	None	None	None	None	6492363	6565700	-1	None	None
8	None	ENSG00000249898	ENST00000527490	antisense	KNOWN	None	None	None	None	6492467	6565730	-1	None	None
2	NPM1P33	ENSG00000213925	ENST00000438918	processed_pseudogene	KNOWN	None	45212	None	None	204637354	204638225	-1	None	None
6	HNRNPA1P1	ENSG00000218347	ENST00000401954	processed_pseudogene	KNOWN	None	13957	None	None	27490855	27492118	1	HNRPA1P1	hnRNPA1-Lp, b34I8.2
6	RNU6-653P	ENSG00000199944	ENST00000363074	snRNA	KNOWN	None	47616	None	None	109380712	109380817	-1	None	None
9	None	ENSG00000227318	ENST00000439715	unprocessed_pseudogene	KNOWN	None	None	None	None	66664325	66665950	1	None	None
8	CA2	ENSG00000104267	ENST00000285379	protein_coding	KNOWN	CCDS6239	1373	783	260	86376081	86393722	1	None	Car2, CA-II, CAII
8	CA2	ENSG00000104267	ENST00000520127	nonsense_mediated_decay	KNOWN	None	1373	294	97	86376197	86393115	1	None	Car2, CA-II, CAII
8	CA2	ENSG00000104267	ENST00000520996	retained_intron	KNOWN	None	1373	None	None	86376232	86386806	1	None	Car2, CA-II, CAII
8	CA2	ENSG00000104267	ENST00000518231	retained_intron	KNOWN	None	1373	None	None	86376240	86386205	1	None	Car2, CA-II, CAII
8	CA2	ENSG00000104267	ENST00000522742	nonsense_mediated_decay	KNOWN	None	1373	306	101	86376243	86389384	1	None	Car2, CA-II, CAII
6	None	ENSG00000219738	ENST00000405625	processed_pseudogene	KNOWN	None	None	None	None	27528601	27529523	-1	None	None
6	None	ENSG00000233908	ENST00000441999	processed_pseudogene	KNOWN	None	None	None	None	109609643	109609765	1	None	None
3	None	ENSG00000240497	ENST00000467896	lincRNA	KNOWN	None	None	None	None	171185873	171187422	1	None	None
X	None	ENSG00000228519	ENST00000496795	processed_pseudogene	KNOWN	None	None	None	None	25663839	25664444	-1	None	None
9	None	ENSG00000228991	ENST00000414366	unprocessed_pseudogene	KNOWN	None	None	None	None	66693277	66721073	-1	None	None
10	RNA5SP307	ENSG00000199733	ENST00000362863	rRNA	KNOWN	None	43207	None	None	26798518	26798633	1	RN5S307	None
19	UBE2M	ENSG00000130725	ENST00000253023	protein_coding	KNOWN	CCDS12987	12491	552	183	59067079	59070327	-1	None	hUbc12, UBC12
19	UBE2M	ENSG00000130725	ENST00000595957	protein_coding	PUTATIVE	None	12491	209	68	59067508	59070321	-1	None	hUbc12, UBC12
19	UBE2M	ENSG00000130725	ENST00000596985	protein_coding	PUTATIVE	None	12491	345	114	59067568	59068456	-1	None	hUbc12, UBC12
19	UBE2M	ENSG00000130725	ENST00000599829	retained_intron	KNOWN	None	12491	None	None	59067949	59068496	-1	None	hUbc12, UBC12
19	UBE2M	ENSG00000130725	ENST00000593801	retained_intron	KNOWN	None	12491	None	None	59067961	59068516	-1	None	hUbc12, UBC12
10	None	ENSG00000236894	ENST00000455612	lincRNA	KNOWN	None	None	None	None	26866605	26868024	-1	None	None
5	None	ENSG00000172901	ENST00000504467	nonsense_mediated_decay	KNOWN	None	None	2106	701	115298151	115362113	1	None	None
5	None	ENSG00000172901	ENST00000357872	protein_coding	KNOWN	CCDS4124	None	2973	990	115298191	115363299	1	None	None
5	None	ENSG00000172901	ENST00000514509	nonsense_mediated_decay	KNOWN	None	None	681	226	115331074	115362117	1	None	None
5	None	ENSG00000172901	ENST00000503329	nonsense_mediated_decay	KNOWN	None	None	597	198	115331074	115363316	1	None	None
5	None	ENSG00000172901	ENST00000512314	nonsense_mediated_decay	KNOWN	None	None	597	198	115331094	115362107	1	None	None
5	None	ENSG00000172901	ENST00000503203	processed_transcript	KNOWN	None	None	None	None	115350115	115355812	1	None	None
5	None	ENSG00000172901	ENST00000515454	processed_transcript	KNOWN	None	None	None	None	115350117	115359346	1	None	None
5	None	ENSG00000172901	ENST00000512413	retained_intron	KNOWN	None	None	None	None	115356724	115363300	1	None	None
5	None	ENSG00000172901	ENST00000506279	retained_intron	KNOWN	None	None	None	None	115357878	115361927	1	None	None
5	None	ENSG00000172901	ENST00000395528	protein_coding	KNOWN	None	None	681	226	115298151	115346248	1	None	None
3	RAD54L2	ENSG00000164080	ENST00000602430	retained_intron	KNOWN	None	29123	None	None	51575160	51575886	1	None	KIAA0809, SRISNF2L
3	RAD54L2	ENSG00000164080	ENST00000487093	retained_intron	KNOWN	None	29123	None	None	51575596	51697610	1	None	KIAA0809, SRISNF2L
3	RAD54L2	ENSG00000164080	ENST00000409535	protein_coding	KNOWN	CCDS33765	29123	4404	1467	51575596	51697610	1	None	KIAA0809, SRISNF2L
3	RAD54L2	ENSG00000164080	ENST00000432863	protein_coding	NOVEL	None	29123	3889	1295	51663407	51697473	1	None	KIAA0809, SRISNF2L
3	RAD54L2	ENSG00000164080	ENST00000462377	retained_intron	KNOWN	None	29123	None	None	51663409	51664947	1	None	KIAA0809, SRISNF2L
3	RAD54L2	ENSG00000164080	ENST00000461680	retained_intron	KNOWN	None	29123	None	None	51664338	51697610	1	None	KIAA0809, SRISNF2L
3	RAD54L2	ENSG00000164080	ENST00000296477	protein_coding	KNOWN	None	29123	3486	1161	51663407	51697473	1	None	KIAA0809, SRISNF2L
4	ODAM	ENSG00000109205	ENST00000396094	protein_coding	KNOWN	CCDS3536	26043	840	279	71062213	71070293	1	None	APin, FLJ20513
4	ODAM	ENSG00000109205	ENST00000510709	protein_coding	NOVEL	None	26043	761	252	71062242	71068627	1	None	APin, FLJ20513
4	ODAM	ENSG00000109205	ENST00000506248	retained_intron	KNOWN	None	26043	None	None	71063446	71066290	1	None	APin, FLJ20513
4	ODAM	ENSG00000109205	ENST00000514097	protein_coding	PUTATIVE	None	26043	651	216	71063641	71068931	1	None	APin, FLJ20513
4	ODAM	ENSG00000109205	ENST00000510847	nonsense_mediated_decay	KNOWN	None	26043	93	30	71063839	71069918	1	None	APin, FLJ20513
15	CD24P2	ENSG00000261333	ENST00000565486	processed_pseudogene	KNOWN	None	1647	None	None	56363619	56363837	1	CD24L2	None
1	None	ENSG00000221083	ENST00000408156	snoRNA	KNOWN	None	None	None	None	8571854	8571978	-1	None	None
HSCHR6_MHC_MANN	EGFL8	ENSG00000243897	ENST00000436155	protein_coding	KNOWN	None	13944	882	293	32171812	32175485	1	C6orf8	NG3
HSCHR6_MHC_MANN	EGFL8	ENSG00000243897	ENST00000450526	protein_coding	KNOWN	None	13944	882	293	32171820	32175485	1	C6orf8	NG3
HSCHR6_MHC_MANN	EGFL8	ENSG00000243897	ENST00000454755	protein_coding	KNOWN	None	13944	775	257	32171867	32174863	1	C6orf8	NG3
HSCHR6_MHC_MANN	EGFL8	ENSG00000243897	ENST00000498349	retained_intron	KNOWN	None	13944	None	None	32172443	32175485	1	C6orf8	NG3
HSCHR6_MHC_MANN	EGFL8	ENSG00000243897	ENST00000470020	retained_intron	KNOWN	None	13944	None	None	32173400	32174376	1	C6orf8	NG3
HSCHR6_MHC_MANN	EGFL8	ENSG00000243897	ENST00000473418	processed_transcript	KNOWN	None	13944	None	None	32174750	32175485	1	C6orf8	NG3
HSCHR6_MHC_COX	None	ENSG00000258146	ENST00000552807	pseudogene	NOVEL	None	None	None	None	30414652	30414775	1	None	None
15	None	ENSG00000261072	ENST00000565846	processed_pseudogene	KNOWN	None	None	None	None	56484551	56485460	-1	None	None
19	KLC3	ENSG00000104892	ENST00000589373	protein_coding	KNOWN	None	20717	1190	395	45836692	45853645	1	None	KLC2L, KNS2B, KLCt
19	KLC3	ENSG00000104892	ENST00000494686	retained_intron	KNOWN	None	20717	None	None	45843998	45850622	1	None	KLC2L, KNS2B, KLCt
19	KLC3	ENSG00000104892	ENST00000391946	protein_coding	KNOWN	CCDS12660	20717	1515	504	45844011	45854778	1	None	KLC2L, KNS2B, KLCt
19	KLC3	ENSG00000104892	ENST00000585434	protein_coding	KNOWN	None	20717	1512	503	45844019	45854773	1	None	KLC2L, KNS2B, KLCt
19	KLC3	ENSG00000104892	ENST00000589837	protein_coding	NOVEL	None	20717	892	296	45844032	45852150	1	None	KLC2L, KNS2B, KLCt
19	KLC3	ENSG00000104892	ENST00000590063	protein_coding	KNOWN	None	20717	472	156	45848127	45850015	1	None	KLC2L, KNS2B, KLCt
19	KLC3	ENSG00000104892	ENST00000470402	protein_coding	KNOWN	None	20717	1557	518	45848658	45854778	1	None	KLC2L, KNS2B, KLCt
15	IGHV1OR15-3	ENSG00000271288	ENST00000564926	IG_V_pseudogene	KNOWN	None	5565	None	None	22466058	22466493	-1	None	IGHV1/OR15-3
10	RBP3	ENSG00000107618	ENST00000224600	protein_coding	KNOWN	CCDS7218	9921	3744	1247	48381487	48390991	-1	None	D10S64, D10S65, D10S66
HSCHR6_MHC_COX	TMPOP1	ENSG00000223933	ENST00000454448	processed_pseudogene	KNOWN	None	21364	None	None	30424154	30425681	1	TMPOL1	Em:AB014080.3
11	RNU6-1123P	ENSG00000199217	ENST00000362347	snRNA	KNOWN	None	48086	None	None	119527021	119527126	1	None	None
6	DNPH1	ENSG00000112667	ENST00000230431	protein_coding	KNOWN	CCDS4891	21218	525	174	43193367	43197222	-1	C6orf108	rcl, dJ330M21.3
6	DNPH1	ENSG00000112667	ENST00000509253	protein_coding	NOVEL	None	21218	732	243	43193369	43197191	-1	C6orf108	rcl, dJ330M21.3
6	DNPH1	ENSG00000112667	ENST00000393987	protein_coding	KNOWN	CCDS43465	21218	447	148	43193373	43197216	-1	C6orf108	rcl, dJ330M21.3
6	DNPH1	ENSG00000112667	ENST00000505042	retained_intron	KNOWN	None	21218	None	None	43193787	43194365	-1	C6orf108	rcl, dJ330M21.3
14	None	ENSG00000258772	ENST00000555642	lincRNA	KNOWN	None	None	None	None	21384925	21396739	-1	None	None
12	FGFR1OP2	ENSG00000111790	ENST00000229395	protein_coding	KNOWN	CCDS8709	23098	762	253	27091316	27119486	1	None	DKFZp564O1863
12	FGFR1OP2	ENSG00000111790	ENST00000544111	protein_coding	KNOWN	None	23098	180	59	27091414	27109520	1	None	DKFZp564O1863
12	FGFR1OP2	ENSG00000111790	ENST00000395941	retained_intron	KNOWN	None	23098	None	None	27091417	27110904	1	None	DKFZp564O1863
12	FGFR1OP2	ENSG00000111790	ENST00000546072	protein_coding	PUTATIVE	CCDS53766	23098	519	172	27091430	27113779	1	None	DKFZp564O1863
12	FGFR1OP2	ENSG00000111790	ENST00000327214	protein_coding	NOVEL	CCDS53767	23098	648	215	27091433	27119583	1	None	DKFZp564O1863
12	FGFR1OP2	ENSG00000111790	ENST00000538172	retained_intron	KNOWN	None	23098	None	None	27113929	27118013	1	None	DKFZp564O1863
1	FCGR2C	ENSG00000244682	ENST00000502411	processed_transcript	KNOWN	None	15626	None	None	161551129	161559487	1	None	hFcRII-C, CD32C
1	FCGR2C	ENSG00000244682	ENST00000496692	retained_intron	KNOWN	None	15626	None	None	161551129	161559676	1	None	hFcRII-C, CD32C
1	FCGR2C	ENSG00000244682	ENST00000466542	polymorphic_pseudogene	KNOWN	None	15626	972	323	161551130	161569593	1	None	hFcRII-C, CD32C
1	FCGR2C	ENSG00000244682	ENST00000465075	processed_transcript	KNOWN	None	15626	None	None	161551136	161561081	1	None	hFcRII-C, CD32C
1	FCGR2C	ENSG00000244682	ENST00000473530	processed_transcript	KNOWN	None	15626	None	None	161551151	161566033	1	None	hFcRII-C, CD32C
1	FCGR2C	ENSG00000244682	ENST00000473712	processed_transcript	KNOWN	None	15626	None	None	161553002	161561087	1	None	hFcRII-C, CD32C
1	FCGR2C	ENSG00000244682	ENST00000482226	processed_transcript	KNOWN	None	15626	None	None	161553511	161561090	1	None	hFcRII-C, CD32C
1	FCGR2C	ENSG00000244682	ENST00000467903	processed_transcript	KNOWN	None	15626	None	None	161561940	161575452	1	None	hFcRII-C, CD32C
1	FCGR2C	ENSG00000244682	ENST00000507374	processed_transcript	KNOWN	None	15626	None	None	161564625	161574889	1	None	hFcRII-C, CD32C
1	FCGR2C	ENSG00000244682	ENST00000508651	processed_transcript	KNOWN	None	15626	None	None	161569361	161574927	1	None	hFcRII-C, CD32C
1	FCGR2C	ENSG00000244682	ENST00000543859	protein_coding	KNOWN	None	15626	177	58	161565343	161570003	1	None	hFcRII-C, CD32C
3	IL20RB	ENSG00000174564	ENST00000484501	processed_transcript	KNOWN	None	6004	None	None	136665072	136708336	1	FNDC6	DIRS1, IL-20R2, MGC34923
3	IL20RB	ENSG00000174564	ENST00000329582	protein_coding	KNOWN	CCDS3093	6004	936	311	136676707	136729927	1	FNDC6	DIRS1, IL-20R2, MGC34923
3	IL20RB	ENSG00000174564	ENST00000469964	nonsense_mediated_decay	KNOWN	None	6004	150	49	136676851	136729927	1	FNDC6	DIRS1, IL-20R2, MGC34923
3	IL20RB	ENSG00000174564	ENST00000491483	nonsense_mediated_decay	KNOWN	None	6004	168	55	136688087	136714348	1	FNDC6	DIRS1, IL-20R2, MGC34923
3	IL20RB	ENSG00000174564	ENST00000475972	nonsense_mediated_decay	KNOWN	None	6004	363	120	136699316	136729921	1	FNDC6	DIRS1, IL-20R2, MGC34923
3	IL20RB	ENSG00000174564	ENST00000309741	protein_coding	KNOWN	None	6004	444	147	136676851	136729924	1	FNDC6	DIRS1, IL-20R2, MGC34923
1	None	ENSG00000270282	ENST00000605785	processed_pseudogene	KNOWN	None	None	None	None	8572712	8573080	1	None	None
10	LINC00264	ENSG00000233261	ENST00000412114	lincRNA	KNOWN	None	17776	None	None	26878794	26883253	1	C10orf50, NCRNA00264	bA128B16.2
X	RNU6-207P	ENSG00000206864	ENST00000384137	snRNA	KNOWN	None	47170	None	None	104920064	104920170	-1	None	None
13	MAB21L1	ENSG00000180660	ENST00000379919	protein_coding	KNOWN	CCDS9353	6757	1080	359	36047926	36050832	-1	None	CAGR1
13	None	ENSG00000229323	ENST00000428276	lincRNA	KNOWN	None	None	None	None	51095069	51101585	-1	None	None
3	RNU6-348P	ENSG00000207114	ENST00000384386	snRNA	KNOWN	None	47311	None	None	171222034	171222140	-1	None	None
14	None	ENSG00000136315	ENST00000555624	lincRNA	KNOWN	None	None	None	None	21387520	21388458	1	None	None
14	None	ENSG00000136315	ENST00000258817	lincRNA	KNOWN	None	None	None	None	21387500	21388335	1	None	None
22	None	ENSG00000269774	ENST00000600045	pseudogene	NOVEL	None	None	None	None	17690773	17691374	1	None	None
6	GSTA6P	ENSG00000223622	ENST00000424144	unprocessed_pseudogene	KNOWN	None	4630	None	None	52670411	52678258	-1	GSTAP1	None
2	COX7A2L	ENSG00000115944	ENST00000468711	protein_coding	PUTATIVE	None	2289	288	95	42560686	42588289	-1	None	EB1, COX7RP, COX7AR, SIG81
2	COX7A2L	ENSG00000115944	ENST00000378669	protein_coding	KNOWN	CCDS1808	2289	345	114	42576478	42596150	-1	None	EB1, COX7RP, COX7AR, SIG81
2	COX7A2L	ENSG00000115944	ENST00000482463	processed_transcript	KNOWN	None	2289	None	None	42577647	42587178	-1	None	EB1, COX7RP, COX7AR, SIG81
2	COX7A2L	ENSG00000115944	ENST00000464443	nonsense_mediated_decay	KNOWN	None	2289	120	39	42577992	42588332	-1	None	EB1, COX7RP, COX7AR, SIG81
2	COX7A2L	ENSG00000115944	ENST00000607768	processed_transcript	KNOWN	None	2289	None	None	42578081	42615647	-1	None	EB1, COX7RP, COX7AR, SIG81
2	COX7A2L	ENSG00000115944	ENST00000463055	protein_coding	PUTATIVE	None	2289	240	79	42580027	42588312	-1	None	EB1, COX7RP, COX7AR, SIG81
2	COX7A2L	ENSG00000115944	ENST00000423797	processed_transcript	KNOWN	None	2289	None	None	42592810	42652228	-1	None	EB1, COX7RP, COX7AR, SIG81
2	COX7A2L	ENSG00000115944	ENST00000234301	protein_coding	KNOWN	CCDS1808	2289	345	114	42577647	42588356	-1	None	EB1, COX7RP, COX7AR, SIG81
13	DLEU7-AS1	ENSG00000237152	ENST00000413510	antisense	KNOWN	None	39966	None	None	51381992	51423190	1	None	None
7	FAM71F1	ENSG00000135248	ENST00000485070	protein_coding	PUTATIVE	None	30704	732	243	128349115	128371665	1	FAM137A	NYD-SP18
7	FAM71F1	ENSG00000135248	ENST00000484425	nonsense_mediated_decay	KNOWN	None	30704	432	143	128349129	128371677	1	FAM137A	NYD-SP18
7	FAM71F1	ENSG00000135248	ENST00000493738	retained_intron	KNOWN	None	30704	None	None	128349144	128363480	1	FAM137A	NYD-SP18
7	FAM71F1	ENSG00000135248	ENST00000469348	processed_transcript	KNOWN	None	30704	None	None	128349144	128365021	1	FAM137A	NYD-SP18
7	FAM71F1	ENSG00000135248	ENST00000471558	nonsense_mediated_decay	KNOWN	None	30704	861	286	128355443	128366922	1	FAM137A	NYD-SP18
7	FAM71F1	ENSG00000135248	ENST00000315184	protein_coding	KNOWN	CCDS5804	30704	1035	344	128355443	128371797	1	FAM137A	NYD-SP18
7	FAM71F1	ENSG00000135248	ENST00000483459	nonsense_mediated_decay	KNOWN	None	30704	438	145	128355459	128359136	1	FAM137A	NYD-SP18
7	FAM71F1	ENSG00000135248	ENST00000466842	protein_coding	PUTATIVE	None	30704	404	133	128358883	128366908	1	FAM137A	NYD-SP18
3	TM4SF19-AS1	ENSG00000235897	ENST00000420226	antisense	KNOWN	None	41085	None	None	196045201	196050544	1	None	None
3	TM4SF19-AS1	ENSG00000235897	ENST00000452051	antisense	KNOWN	None	41085	None	None	196045221	196052441	1	None	None
3	TM4SF19-AS1	ENSG00000235897	ENST00000444939	antisense	KNOWN	None	41085	None	None	196045277	196051059	1	None	None
22	FAM32B	ENSG00000203416	ENST00000344033	processed_pseudogene	KNOWN	None	30945	None	None	17694618	17695045	1	None	None
X	None	ENSG00000222161	ENST00000410229	miRNA	NOVEL	None	None	None	None	105104682	105104755	1	None	None
2	MITD1	ENSG00000158411	ENST00000487588	processed_transcript	KNOWN	None	25207	None	None	99777890	99787868	-1	None	LOC129531
2	MITD1	ENSG00000158411	ENST00000422537	protein_coding	KNOWN	None	25207	696	231	99778410	99797390	-1	None	LOC129531
2	MITD1	ENSG00000158411	ENST00000464685	retained_intron	KNOWN	None	25207	None	None	99785726	99797425	-1	None	LOC129531
2	MITD1	ENSG00000158411	ENST00000289359	protein_coding	KNOWN	CCDS2040	25207	750	249	99785726	99797521	-1	None	LOC129531
2	MITD1	ENSG00000158411	ENST00000483721	retained_intron	KNOWN	None	25207	None	None	99785729	99787368	-1	None	LOC129531
2	MITD1	ENSG00000158411	ENST00000409107	protein_coding	NOVEL	None	25207	593	196	99785908	99797513	-1	None	LOC129531
2	MITD1	ENSG00000158411	ENST00000466880	processed_transcript	KNOWN	None	25207	None	None	99786998	99794798	-1	None	LOC129531
2	MITD1	ENSG00000158411	ENST00000438121	nonsense_mediated_decay	KNOWN	None	25207	162	53	99789810	99797498	-1	None	LOC129531
2	MITD1	ENSG00000158411	ENST00000413710	nonsense_mediated_decay	KNOWN	None	25207	318	105	99789864	99797490	-1	None	LOC129531
13	RNA5SP28	ENSG00000200711	ENST00000363841	rRNA	KNOWN	None	42604	None	None	51387124	51387242	-1	RN5S28	None
HSCHR6_MHC_COX	SUCLA2P1	ENSG00000223412	ENST00000453635	processed_pseudogene	KNOWN	None	21632	None	None	30426522	30427891	1	SUCLA2P	Em:AB014080.4
HSCHR6_MHC_COX	SUCLA2P1	ENSG00000223412	ENST00000552625	pseudogene	KNOWN	None	21632	None	None	30427263	30427891	1	SUCLA2P	Em:AB014080.4
15	IGHV1OR15-4	ENSG00000270356	ENST00000560037	IG_V_pseudogene	KNOWN	None	5566	None	None	22482836	22483268	-1	None	IGHV1/OR15-4
22	CECR3	ENSG00000241832	ENST00000428828	processed_transcript	KNOWN	None	1841	None	None	17737749	17747623	-1	None	None
9	RPS26P2	ENSG00000233278	ENST00000440331	processed_pseudogene	KNOWN	None	23662	None	None	30831876	30832223	-1	None	bA98O11.1
19	APOC1P1	ENSG00000214855	ENST00000575148	processed_transcript	KNOWN	None	608	None	None	45430061	45434450	1	None	None
19	APOC1P1	ENSG00000214855	ENST00000507983	processed_transcript	KNOWN	None	608	None	None	45430061	45434643	1	None	None
19	APOC1P1	ENSG00000214855	ENST00000589081	processed_transcript	KNOWN	None	608	None	None	45430077	45434447	1	None	None
19	APOC1P1	ENSG00000214855	ENST00000574565	processed_transcript	KNOWN	None	608	None	None	45430210	45434585	1	None	None
19	APOC1P1	ENSG00000214855	ENST00000571466	transcribed_unprocessed_pseudogene	KNOWN	None	608	None	None	45430233	45434315	1	None	None
9	GOLGA1	ENSG00000136935	ENST00000373555	protein_coding	KNOWN	CCDS6860	4424	2304	767	127640646	127703378	-1	None	golgin-97, MGC33154
9	GOLGA1	ENSG00000136935	ENST00000475407	nonsense_mediated_decay	KNOWN	None	4424	505	167	127640657	127691547	-1	None	golgin-97, MGC33154
9	GOLGA1	ENSG00000136935	ENST00000485337	nonsense_mediated_decay	KNOWN	None	4424	456	151	127651458	127684060	-1	None	golgin-97, MGC33154
9	GOLGA1	ENSG00000136935	ENST00000373551	retained_intron	KNOWN	None	4424	None	None	127662420	127674198	-1	None	golgin-97, MGC33154
9	GOLGA1	ENSG00000136935	ENST00000421514	protein_coding	KNOWN	None	4424	338	111	127690528	127710292	-1	None	golgin-97, MGC33154
9	GOLGA1	ENSG00000136935	ENST00000605438	retained_intron	KNOWN	None	4424	None	None	127709886	127710771	-1	None	golgin-97, MGC33154
10	None	ENSG00000234296	ENST00000454991	lincRNA	KNOWN	None	None	None	None	26932157	26933945	1	None	None
4	AP1AR	ENSG00000138660	ENST00000274000	protein_coding	KNOWN	CCDS3696	28808	909	302	113152893	113191203	1	C4orf16	PRO0971, 2C18, gamma-BAR
4	AP1AR	ENSG00000138660	ENST00000510527	retained_intron	KNOWN	None	28808	None	None	113152896	113186475	1	C4orf16	PRO0971, 2C18, gamma-BAR
4	AP1AR	ENSG00000138660	ENST00000502954	retained_intron	KNOWN	None	28808	None	None	113152981	113176050	1	C4orf16	PRO0971, 2C18, gamma-BAR
4	AP1AR	ENSG00000138660	ENST00000309703	protein_coding	KNOWN	CCDS47125	28808	810	269	113152989	113190833	1	C4orf16	PRO0971, 2C18, gamma-BAR
4	AP1AR	ENSG00000138660	ENST00000506522	retained_intron	KNOWN	None	28808	None	None	113153045	113174467	1	C4orf16	PRO0971, 2C18, gamma-BAR
4	AP1AR	ENSG00000138660	ENST00000512741	protein_coding	PUTATIVE	None	28808	230	75	113186208	113187986	1	C4orf16	PRO0971, 2C18, gamma-BAR
X	None	ENSG00000230788	ENST00000434586	processed_pseudogene	KNOWN	None	None	None	None	105314472	105317193	1	None	None
13	RNASEH2B-AS1	ENSG00000233672	ENST00000596992	antisense	KNOWN	None	39967	None	None	51450822	51484730	-1	None	None
13	RNASEH2B-AS1	ENSG00000233672	ENST00000454605	antisense	KNOWN	None	39967	None	None	51456514	51484848	-1	None	None
13	RNASEH2B-AS1	ENSG00000233672	ENST00000593750	antisense	KNOWN	None	39967	None	None	51456534	51484730	-1	None	None
13	RNASEH2B-AS1	ENSG00000233672	ENST00000593369	antisense	KNOWN	None	39967	None	None	51456600	51465778	-1	None	None
13	RNASEH2B-AS1	ENSG00000233672	ENST00000601286	antisense	KNOWN	None	39967	None	None	51456688	51479292	-1	None	None
13	RNASEH2B-AS1	ENSG00000233672	ENST00000594244	antisense	KNOWN	None	39967	None	None	51456745	51484730	-1	None	None
3	RNU6-910P	ENSG00000212146	ENST00000390844	snRNA	KNOWN	None	47873	None	None	196068480	196068586	-1	None	None
3	RNU6-1279P	ENSG00000206644	ENST00000383917	snRNA	KNOWN	None	48242	None	None	196120581	196120683	-1	None	None
14	SNORD114-16	ENSG00000199914	ENST00000363044	snoRNA	KNOWN	None	33004	None	None	101439932	101440001	1	None	14q(II-16)
3	RN7SL434P	ENSG00000241868	ENST00000495872	misc_RNA	KNOWN	None	46450	None	None	196124382	196124649	-1	None	None
9	FTLP4	ENSG00000214020	ENST00000430740	processed_pseudogene	KNOWN	None	37952	None	None	30935483	30935975	1	None	None
1	ECE1	ENSG00000117298	ENST00000415912	protein_coding	KNOWN	CCDS44081	3146	2265	754	21543740	21671997	-1	ECE	None
1	ECE1	ENSG00000117298	ENST00000357071	protein_coding	KNOWN	CCDS44083	3146	2277	758	21545077	21606042	-1	ECE	None
1	ECE1	ENSG00000117298	ENST00000531334	retained_intron	KNOWN	None	3146	None	None	21546307	21548574	-1	ECE	None
1	ECE1	ENSG00000117298	ENST00000374893	protein_coding	KNOWN	CCDS215	3146	2313	770	21546352	21616982	-1	ECE	None
1	ECE1	ENSG00000117298	ENST00000436918	protein_coding	NOVEL	None	3146	2217	738	21546387	21616957	-1	ECE	None
1	ECE1	ENSG00000117298	ENST00000264205	protein_coding	KNOWN	CCDS44082	3146	2304	767	21546430	21616750	-1	ECE	None
1	ECE1	ENSG00000117298	ENST00000526194	retained_intron	KNOWN	None	3146	None	None	21559598	21616956	-1	ECE	None
1	ECE1	ENSG00000117298	ENST00000470394	retained_intron	KNOWN	None	3146	None	None	21560063	21564843	-1	ECE	None
1	ECE1	ENSG00000117298	ENST00000528294	processed_transcript	KNOWN	None	3146	None	None	21564642	21583210	-1	ECE	None
1	ECE1	ENSG00000117298	ENST00000473505	protein_coding	PUTATIVE	None	3146	231	76	21586806	21606562	-1	ECE	None
1	ECE1	ENSG00000117298	ENST00000481130	protein_coding	PUTATIVE	None	3146	404	133	21599239	21625492	-1	ECE	None
1	ECE1	ENSG00000117298	ENST00000527991	protein_coding	PUTATIVE	None	3146	309	102	21599325	21620917	-1	ECE	None
1	ECE1	ENSG00000117298	ENST00000463334	processed_transcript	KNOWN	None	3146	None	None	21599328	21671630	-1	ECE	None
14	SNORD114-17	ENSG00000201569	ENST00000364699	snoRNA	KNOWN	None	33005	None	None	101441143	101441217	1	None	14q(II-17)
3	RN7SL738P	ENSG00000243339	ENST00000470264	misc_RNA	KNOWN	None	46754	None	None	196126782	196127077	1	None	None
3	None	ENSG00000226345	ENST00000438001	processed_pseudogene	KNOWN	None	None	None	None	196150193	196150393	1	None	None
1	GBP2	ENSG00000162645	ENST00000464839	nonsense_mediated_decay	KNOWN	CCDS719	4183	1776	591	89571815	89616139	-1	None	None
1	GBP2	ENSG00000162645	ENST00000370466	protein_coding	KNOWN	CCDS719	4183	1776	591	89573683	89591797	-1	None	None
1	GBP2	ENSG00000162645	ENST00000493802	processed_transcript	KNOWN	None	4183	None	None	89573800	89578733	-1	None	None
1	GBP2	ENSG00000162645	ENST00000463660	processed_transcript	KNOWN	None	4183	None	None	89575870	89585903	-1	None	None
15	HNRNPA1P44	ENSG00000249271	ENST00000503999	processed_pseudogene	KNOWN	None	48774	None	None	66108640	66109819	-1	None	None
3	UBXN7-AS1	ENSG00000225822	ENST00000442941	antisense	KNOWN	None	41227	None	None	196158256	196159401	1	None	None
3	UBXN7-AS1	ENSG00000225822	ENST00000598881	antisense	KNOWN	None	41227	None	None	196158235	196160242	1	None	None
14	RN7SL189P	ENSG00000243817	ENST00000468631	misc_RNA	KNOWN	None	46205	None	None	21431738	21432024	1	None	None
7	TRBV1	ENSG00000242736	ENST00000476502	TR_V_pseudogene	KNOWN	None	12176	None	None	141999017	141999300	1	None	TCRBV27S1P, TCRBV1S1P
14	None	ENSG00000258599	ENST00000556341	processed_pseudogene	KNOWN	None	None	None	None	21451314	21453225	-1	None	None
21	C21orf49	ENSG00000205930	ENST00000382375	protein_coding	KNOWN	None	1290	240	79	34144411	34171279	1	None	None
21	C21orf49	ENSG00000205930	ENST00000382377	processed_transcript	KNOWN	None	1290	None	None	34144436	34170017	1	None	None
21	C21orf49	ENSG00000205930	ENST00000454365	nonsense_mediated_decay	KNOWN	None	1290	96	31	34144461	34266043	1	None	None
21	C21orf49	ENSG00000205930	ENST00000453404	protein_coding	PUTATIVE	None	1290	75	24	34144472	34224779	1	None	None
21	C21orf49	ENSG00000205930	ENST00000382378	protein_coding	KNOWN	None	1290	240	79	34144473	34169478	1	None	None
21	C21orf49	ENSG00000205930	ENST00000491756	processed_transcript	KNOWN	None	1290	None	None	34144485	34169756	1	None	None
21	C21orf49	ENSG00000205930	ENST00000477513	protein_coding	NOVEL	None	1290	150	49	34144499	34169404	1	None	None
9	HSPA8P17	ENSG00000228557	ENST00000427029	processed_pseudogene	KNOWN	None	44932	None	None	30988083	30990570	1	None	None
22	MKL1	ENSG00000196588	ENST00000355630	protein_coding	KNOWN	CCDS14003	14334	2796	931	40806285	41032689	-1	None	KIAA1438, MAL, MRTF-A, BSAC
22	MKL1	ENSG00000196588	ENST00000402042	protein_coding	NOVEL	None	14334	2646	881	40806294	41032695	-1	None	KIAA1438, MAL, MRTF-A, BSAC
22	MKL1	ENSG00000196588	ENST00000407029	protein_coding	KNOWN	CCDS14003	14334	2796	931	40806306	40859438	-1	None	KIAA1438, MAL, MRTF-A, BSAC
22	MKL1	ENSG00000196588	ENST00000477468	retained_intron	KNOWN	None	14334	None	None	40807843	40813738	-1	None	KIAA1438, MAL, MRTF-A, BSAC
22	MKL1	ENSG00000196588	ENST00000402630	protein_coding	PUTATIVE	None	14334	486	161	40825355	40859422	-1	None	KIAA1438, MAL, MRTF-A, BSAC
22	MKL1	ENSG00000196588	ENST00000422851	protein_coding	PUTATIVE	None	14334	220	72	40827409	40929815	-1	None	KIAA1438, MAL, MRTF-A, BSAC
22	MKL1	ENSG00000196588	ENST00000463769	processed_transcript	KNOWN	None	14334	None	None	40859232	41032691	-1	None	KIAA1438, MAL, MRTF-A, BSAC
22	MKL1	ENSG00000196588	ENST00000466278	processed_transcript	KNOWN	None	14334	None	None	40915589	41032706	-1	None	KIAA1438, MAL, MRTF-A, BSAC
22	MKL1	ENSG00000196588	ENST00000396617	protein_coding	KNOWN	None	14334	2397	798	40806286	41032689	-1	None	KIAA1438, MAL, MRTF-A, BSAC
7	TRBV7-5	ENSG00000227550	ENST00000390382	TR_V_pseudogene	KNOWN	None	12239	None	None	142157378	142157849	-1	None	TRBV75, TCRBV6S9P, TCRBV7S5
20	RNU6-278P	ENSG00000212247	ENST00000390945	snRNA	KNOWN	None	47241	None	None	13953962	13954070	-1	None	None
3	None	ENSG00000225240	ENST00000430043	unprocessed_pseudogene	KNOWN	None	None	None	None	196179867	196179926	-1	None	None
4	PRDM8	ENSG00000152784	ENST00000508965	processed_transcript	KNOWN	None	13993	None	None	81105033	81117752	1	None	None
4	PRDM8	ENSG00000152784	ENST00000509375	processed_transcript	KNOWN	None	13993	None	None	81105035	81118275	1	None	None
4	PRDM8	ENSG00000152784	ENST00000506547	processed_transcript	KNOWN	None	13993	None	None	81105418	81117573	1	None	None
4	PRDM8	ENSG00000152784	ENST00000511825	processed_transcript	KNOWN	None	13993	None	None	81105439	81118349	1	None	None
4	PRDM8	ENSG00000152784	ENST00000504452	protein_coding	KNOWN	CCDS43243	13993	2070	689	81105439	81125483	1	None	None
4	PRDM8	ENSG00000152784	ENST00000508061	processed_transcript	KNOWN	None	13993	None	None	81105456	81117755	1	None	None
4	PRDM8	ENSG00000152784	ENST00000515013	protein_coding	KNOWN	None	13993	1283	426	81106424	81123899	1	None	None
4	PRDM8	ENSG00000152784	ENST00000507025	processed_transcript	KNOWN	None	13993	None	None	81106522	81117651	1	None	None
4	PRDM8	ENSG00000152784	ENST00000415738	protein_coding	KNOWN	CCDS43243	13993	2070	689	81118658	81125478	1	None	None
4	PRDM8	ENSG00000152784	ENST00000339711	protein_coding	KNOWN	CCDS43243	13993	2070	689	81106424	81125480	1	None	None
11	HIGD1AP5	ENSG00000255254	ENST00000529959	processed_pseudogene	KNOWN	None	42999	None	None	18128130	18128388	1	None	None
3	None	ENSG00000213358	ENST00000393644	unprocessed_pseudogene	KNOWN	None	None	None	None	196254210	196255662	-1	None	None
X	None	ENSG00000233403	ENST00000423914	lincRNA	KNOWN	None	None	None	None	25896456	25911661	1	None	None
1	None	ENSG00000234619	ENST00000437586	processed_pseudogene	KNOWN	None	None	None	None	8810489	8811146	1	None	None
8	None	ENSG00000200191	ENST00000363321	snoRNA	NOVEL	None	None	None	None	72727729	72727860	-1	None	None
15	None	ENSG00000271507	ENST00000605422	unprocessed_pseudogene	KNOWN	None	None	None	None	22490343	22490685	-1	None	None
3	None	ENSG00000225770	ENST00000439929	processed_pseudogene	KNOWN	None	None	None	None	196263403	196263573	1	None	None
8	None	ENSG00000271927	ENST00000607697	lincRNA	KNOWN	None	None	None	None	6503576	6506025	1	None	None
8	None	ENSG00000264576	ENST00000390739	miRNA	NOVEL	None	None	None	None	72744839	72744923	-1	None	None
X	None	ENSG00000232446	ENST00000436203	unprocessed_pseudogene	KNOWN	None	None	None	None	26165891	26166398	1	None	None
14	SNORD114-18	ENSG00000202142	ENST00000365272	snoRNA	KNOWN	None	33006	None	None	101442162	101442233	1	None	14q(II-18)
15	MIR1268A	ENSG00000221641	ENST00000408714	miRNA	KNOWN	None	35336	None	None	22513229	22513280	-1	MIRN1268, MIR1268	hsa-mir-1268
7	TRBV12-2	ENSG00000211739	ENST00000489763	TR_V_pseudogene	KNOWN	None	12184	None	None	142190638	142191080	-1	None	TRBV122, TCRBV12S2, TCRBV8S5P
8	RPS20P20	ENSG00000241942	ENST00000460498	processed_pseudogene	KNOWN	None	36674	None	None	72808226	72808565	1	None	None
8	MIR4659B	ENSG00000266038	ENST00000580269	miRNA	KNOWN	None	41530	None	None	6602685	6602765	1	None	hsa-mir-4659b
8	MIR4659A	ENSG00000266038	ENST00000580269	miRNA	KNOWN	None	41857	None	None	6602685	6602765	1	None	hsa-mir-4659a
3	None	ENSG00000232065	ENST00000441644	antisense	KNOWN	None	None	None	None	196358369	196359458	-1	None	None
11	SAA3P	ENSG00000166787	ENST00000534768	processed_transcript	KNOWN	None	10515	None	None	18134019	18137679	-1	SAA3	None
11	SAA3P	ENSG00000166787	ENST00000533267	transcribed_unprocessed_pseudogene	KNOWN	None	10515	None	None	18134173	18137625	-1	SAA3	None
14	None	ENSG00000258471	ENST00000557335	antisense	KNOWN	None	None	None	None	21463996	21467322	-1	None	None
3	RNU6-646P	ENSG00000201441	ENST00000364571	snRNA	KNOWN	None	47609	None	None	196435730	196435835	-1	None	None
12	RMST	ENSG00000255794	ENST00000538559	lincRNA	KNOWN	None	29893	None	None	97825431	97958793	1	None	NCRMS, NCRNA00054, LINC00054
12	RMST	ENSG00000255794	ENST00000541282	lincRNA	KNOWN	None	29893	None	None	97858799	97927544	1	None	NCRMS, NCRNA00054, LINC00054
12	RMST	ENSG00000255794	ENST00000548886	lincRNA	KNOWN	None	29893	None	None	97886239	97954476	1	None	NCRMS, NCRNA00054, LINC00054
12	RMST	ENSG00000255794	ENST00000547996	retained_intron	KNOWN	None	29893	None	None	97886415	97887758	1	None	NCRMS, NCRNA00054, LINC00054
12	RMST	ENSG00000255794	ENST00000552411	retained_intron	KNOWN	None	29893	None	None	97924142	97954474	1	None	NCRMS, NCRNA00054, LINC00054
12	RMST	ENSG00000255794	ENST00000547946	retained_intron	KNOWN	None	29893	None	None	97958127	97958813	1	None	NCRMS, NCRNA00054, LINC00054
14	SNORD114-19	ENSG00000199942	ENST00000363072	snoRNA	KNOWN	None	33007	None	None	101442814	101442888	1	None	14q(II-19)
12	None	ENSG00000256125	ENST00000536421	processed_pseudogene	KNOWN	None	None	None	None	126943008	126943338	-1	None	None
11	IMMP1L	ENSG00000148950	ENST00000531331	nonsense_mediated_decay	KNOWN	None	26317	91	29	31453948	31477885	-1	None	FLJ25059
11	IMMP1L	ENSG00000148950	ENST00000532287	protein_coding	KNOWN	CCDS7874	26317	501	166	31453948	31531121	-1	None	FLJ25059
11	IMMP1L	ENSG00000148950	ENST00000526776	protein_coding	NOVEL	None	26317	285	94	31453948	31531121	-1	None	FLJ25059
11	IMMP1L	ENSG00000148950	ENST00000534812	protein_coding	PUTATIVE	None	26317	174	57	31453948	31531139	-1	None	FLJ25059
11	IMMP1L	ENSG00000148950	ENST00000533512	retained_intron	KNOWN	None	26317	None	None	31453949	31455302	-1	None	FLJ25059
11	IMMP1L	ENSG00000148950	ENST00000278200	protein_coding	KNOWN	CCDS7874	26317	501	166	31453949	31531169	-1	None	FLJ25059
11	IMMP1L	ENSG00000148950	ENST00000533642	protein_coding	PUTATIVE	None	26317	174	57	31454040	31531192	-1	None	FLJ25059
11	IMMP1L	ENSG00000148950	ENST00000527184	processed_transcript	KNOWN	None	26317	None	None	31470577	31531139	-1	None	FLJ25059
11	IMMP1L	ENSG00000148950	ENST00000528161	processed_transcript	KNOWN	None	26317	None	None	31473745	31531110	-1	None	FLJ25059
11	IMMP1L	ENSG00000148950	ENST00000532624	processed_transcript	KNOWN	None	26317	None	None	31474092	31531152	-1	None	FLJ25059
11	IMMP1L	ENSG00000148950	ENST00000529749	protein_coding	KNOWN	None	26317	321	106	31477807	31531150	-1	None	FLJ25059
11	IMMP1L	ENSG00000148950	ENST00000530023	protein_coding	KNOWN	None	26317	288	95	31477840	31531179	-1	None	FLJ25059
11	IMMP1L	ENSG00000148950	ENST00000531693	processed_transcript	KNOWN	None	26317	None	None	31477860	31531125	-1	None	FLJ25059
11	IMMP1L	ENSG00000148950	ENST00000532668	retained_intron	KNOWN	None	26317	None	None	31498662	31531155	-1	None	FLJ25059
11	IMMP1L	ENSG00000148950	ENST00000533921	processed_transcript	PUTATIVE	None	26317	None	None	31509744	31531142	-1	None	FLJ25059
20	RPS3P1	ENSG00000230935	ENST00000456781	processed_pseudogene	KNOWN	None	16579	None	None	13984154	13984345	1	None	dJ631M13.3
14	None	ENSG00000201500	ENST00000364630	snoRNA	NOVEL	None	None	None	None	101443726	101443803	1	None	None
X	None	ENSG00000256709	ENST00000538229	processed_pseudogene	NOVEL	None	None	None	None	105570887	105571051	1	None	None
9	RNU6-156P	ENSG00000206946	ENST00000384219	snRNA	KNOWN	None	47119	None	None	66712628	66712734	-1	None	None
3	None	ENSG00000272359	ENST00000607443	snRNA	NOVEL	None	None	None	None	196474063	196474195	-1	None	None
15	None	ENSG00000259098	ENST00000553429	processed_pseudogene	KNOWN	None	None	None	None	22546089	22546799	1	None	None
14	None	ENSG00000201036	ENST00000364166	snoRNA	NOVEL	None	None	None	None	101445339	101445427	1	None	None
5	RPS4XP6	ENSG00000244073	ENST00000477670	processed_pseudogene	KNOWN	None	36057	None	None	37085158	37085954	1	RPS4P6	None
3	RNU6-42P	ENSG00000206892	ENST00000384165	snRNA	KNOWN	None	34286	None	None	196511851	196511957	-1	RNU6-42	None
9	None	ENSG00000230857	ENST00000446288	lincRNA	KNOWN	None	None	None	None	66720898	66759372	1	None	None
9	None	ENSG00000230857	ENST00000439342	lincRNA	KNOWN	None	None	None	None	66742304	66759357	1	None	None
8	None	ENSG00000253317	ENST00000523602	lincRNA	KNOWN	None	None	None	None	73108569	73114504	1	None	None
22	APOL3	ENSG00000128284	ENST00000349314	protein_coding	KNOWN	CCDS13922	14868	1209	402	36536378	36556977	-1	None	CG12-1, APOLIII
22	APOL3	ENSG00000128284	ENST00000432700	nonsense_mediated_decay	KNOWN	None	14868	249	82	36536378	36556977	-1	None	CG12-1, APOLIII
22	APOL3	ENSG00000128284	ENST00000422426	nonsense_mediated_decay	KNOWN	None	14868	249	82	36536378	36556977	-1	None	CG12-1, APOLIII
22	APOL3	ENSG00000128284	ENST00000397289	nonsense_mediated_decay	KNOWN	None	14868	294	97	36536378	36556977	-1	None	CG12-1, APOLIII
22	APOL3	ENSG00000128284	ENST00000361710	protein_coding	KNOWN	CCDS13924	14868	609	202	36536378	36562225	-1	None	CG12-1, APOLIII
22	APOL3	ENSG00000128284	ENST00000397287	protein_coding	KNOWN	CCDS13924	14868	609	202	36536378	36562225	-1	None	CG12-1, APOLIII
22	APOL3	ENSG00000128284	ENST00000487355	nonsense_mediated_decay	KNOWN	None	14868	101	32	36537576	36556803	-1	None	CG12-1, APOLIII
22	APOL3	ENSG00000128284	ENST00000487423	processed_transcript	KNOWN	None	14868	None	None	36537751	36552984	-1	None	CG12-1, APOLIII
22	APOL3	ENSG00000128284	ENST00000426939	nonsense_mediated_decay	KNOWN	None	14868	157	51	36537764	36556802	-1	None	CG12-1, APOLIII
22	APOL3	ENSG00000128284	ENST00000534251	processed_transcript	KNOWN	None	14868	None	None	36537911	36552997	-1	None	CG12-1, APOLIII
22	APOL3	ENSG00000128284	ENST00000531195	nonsense_mediated_decay	KNOWN	None	14868	157	51	36541531	36556802	-1	None	CG12-1, APOLIII
22	APOL3	ENSG00000128284	ENST00000487783	nonsense_mediated_decay	KNOWN	None	14868	119	38	36541537	36556803	-1	None	CG12-1, APOLIII
22	APOL3	ENSG00000128284	ENST00000525184	processed_transcript	KNOWN	None	14868	None	None	36541555	36552933	-1	None	CG12-1, APOLIII
22	APOL3	ENSG00000128284	ENST00000485453	processed_transcript	KNOWN	None	14868	None	None	36541592	36552986	-1	None	CG12-1, APOLIII
22	APOL3	ENSG00000128284	ENST00000530895	nonsense_mediated_decay	KNOWN	None	14868	113	36	36542307	36556803	-1	None	CG12-1, APOLIII
22	APOL3	ENSG00000128284	ENST00000472303	nonsense_mediated_decay	KNOWN	None	14868	260	85	36545123	36556803	-1	None	CG12-1, APOLIII
22	APOL3	ENSG00000128284	ENST00000531095	protein_coding	PUTATIVE	None	14868	123	40	36550497	36556831	-1	None	CG12-1, APOLIII
22	APOL3	ENSG00000128284	ENST00000528740	processed_transcript	KNOWN	None	14868	None	None	36551768	36552934	-1	None	CG12-1, APOLIII
22	APOL3	ENSG00000128284	ENST00000533061	processed_transcript	KNOWN	None	14868	None	None	36555278	36556803	-1	None	CG12-1, APOLIII
22	APOL3	ENSG00000128284	ENST00000397293	protein_coding	KNOWN	None	14868	996	331	36536372	36556977	-1	None	CG12-1, APOLIII
22	APOL3	ENSG00000128284	ENST00000424878	protein_coding	KNOWN	CCDS13924	14868	609	202	36536372	36562225	-1	None	CG12-1, APOLIII
5	None	ENSG00000271378	ENST00000603441	processed_pseudogene	KNOWN	None	None	None	None	37130532	37130802	1	None	None
12	None	ENSG00000255853	ENST00000422539	processed_pseudogene	KNOWN	None	None	None	None	126995456	126996257	-1	None	None
X	None	ENSG00000202407	ENST00000365537	misc_RNA	NOVEL	None	None	None	None	105669798	105669899	1	None	None
14	None	ENSG00000201710	ENST00000364840	snoRNA	NOVEL	None	None	None	None	101446329	101446403	1	None	None
5	OFD1P17	ENSG00000228212	ENST00000437639	processed_pseudogene	KNOWN	None	1332	None	None	37209466	37212483	1	C5orf1, OFD1P1	71-7A3, 71-7A5
3	None	ENSG00000230732	ENST00000432047	sense_intronic	KNOWN	None	None	None	None	196639972	196641450	1	None	None
15	RNU6-265P	ENSG00000252715	ENST00000516906	snRNA	KNOWN	None	47228	None	None	66135822	66135896	1	None	None
12	ARL1	ENSG00000120805	ENST00000261636	protein_coding	KNOWN	CCDS44958	692	546	181	101786898	101801598	-1	None	ARFL1
12	ARL1	ENSG00000120805	ENST00000539055	protein_coding	NOVEL	None	692	408	135	101788696	101801524	-1	None	ARFL1
12	ARL1	ENSG00000120805	ENST00000536227	protein_coding	PUTATIVE	None	692	495	164	101788722	101801239	-1	None	ARFL1
12	ARL1	ENSG00000120805	ENST00000551688	protein_coding	PUTATIVE	None	692	159	52	101789266	101801527	-1	None	ARFL1
12	ARL1	ENSG00000120805	ENST00000550597	retained_intron	KNOWN	None	692	None	None	101789285	101795264	-1	None	ARFL1
12	ARL1	ENSG00000120805	ENST00000551828	protein_coding	PUTATIVE	None	692	495	164	101789370	101801241	-1	None	ARFL1
12	ARL1	ENSG00000120805	ENST00000551671	protein_coding	PUTATIVE	None	692	585	194	101789921	101801531	-1	None	ARFL1
12	ARL1	ENSG00000120805	ENST00000551092	nonsense_mediated_decay	KNOWN	None	692	195	64	101790192	101801540	-1	None	ARFL1
12	ARL1	ENSG00000120805	ENST00000549283	processed_transcript	KNOWN	None	692	None	None	101790318	101801524	-1	None	ARFL1
12	ARL1	ENSG00000120805	ENST00000549302	processed_transcript	PUTATIVE	None	692	None	None	101797194	101801534	-1	None	ARFL1
12	ARL1	ENSG00000120805	ENST00000548070	protein_coding	PUTATIVE	None	692	51	16	101799662	101801280	-1	None	ARFL1
12	NDUFA5P6	ENSG00000256310	ENST00000542110	processed_pseudogene	KNOWN	None	48848	None	None	127008794	127009172	1	None	None
14	SNORD114-20	ENSG00000202048	ENST00000365178	snoRNA	KNOWN	None	33008	None	None	101447341	101447412	1	None	14q(II-20)
Y	None	ENSG00000224518	ENST00000427212	processed_pseudogene	KNOWN	None	None	None	None	17053626	17054595	1	None	None
X	TRAPPC2	ENSG00000196459	ENST00000380579	protein_coding	KNOWN	CCDS48082	23068	423	140	13730366	13752675	-1	SEDL	TRS20, SEDT, MIP-2A, ZNF547L, hYP38334
X	TRAPPC2	ENSG00000196459	ENST00000458511	protein_coding	PUTATIVE	CCDS48083	23068	525	174	13732477	13752694	-1	SEDL	TRS20, SEDT, MIP-2A, ZNF547L, hYP38334
X	TRAPPC2	ENSG00000196459	ENST00000380578	retained_intron	KNOWN	None	23068	None	None	13733616	13740359	-1	SEDL	TRS20, SEDT, MIP-2A, ZNF547L, hYP38334
X	TRAPPC2	ENSG00000196459	ENST00000519382	retained_intron	KNOWN	None	23068	None	None	13733656	13752664	-1	SEDL	TRS20, SEDT, MIP-2A, ZNF547L, hYP38334
X	TRAPPC2	ENSG00000196459	ENST00000517553	retained_intron	KNOWN	None	23068	None	None	13733919	13734837	-1	SEDL	TRS20, SEDT, MIP-2A, ZNF547L, hYP38334
X	TRAPPC2	ENSG00000196459	ENST00000519885	protein_coding	PUTATIVE	None	23068	342	113	13733956	13752694	-1	SEDL	TRS20, SEDT, MIP-2A, ZNF547L, hYP38334
X	TRAPPC2	ENSG00000196459	ENST00000518847	protein_coding	KNOWN	None	23068	222	73	13734669	13752752	-1	SEDL	TRS20, SEDT, MIP-2A, ZNF547L, hYP38334
X	TRAPPC2	ENSG00000196459	ENST00000453655	protein_coding	KNOWN	None	23068	444	147	13730363	13752754	-1	SEDL	TRS20, SEDT, MIP-2A, ZNF547L, hYP38334
X	TRAPPC2	ENSG00000196459	ENST00000359680	protein_coding	KNOWN	CCDS48082	23068	423	140	13730363	13752754	-1	SEDL	TRS20, SEDT, MIP-2A, ZNF547L, hYP38334
X	TRAPPC2	ENSG00000196459	ENST00000358231	protein_coding	KNOWN	CCDS48082	23068	423	140	13730366	13752717	-1	SEDL	TRS20, SEDT, MIP-2A, ZNF547L, hYP38334
18	SERPINB13	ENSG00000197641	ENST00000431153	protein_coding	PUTATIVE	None	8944	475	157	61254223	61260118	1	PI13	HUR7, hurpin, headpin
18	SERPINB13	ENSG00000197641	ENST00000344731	protein_coding	KNOWN	CCDS11985	8944	1176	391	61254600	61266433	1	PI13	HUR7, hurpin, headpin
18	SERPINB13	ENSG00000197641	ENST00000479842	retained_intron	KNOWN	None	8944	None	None	61254630	61257252	1	PI13	HUR7, hurpin, headpin
18	SERPINB13	ENSG00000197641	ENST00000438844	nonsense_mediated_decay	KNOWN	None	8944	498	165	61254663	61265977	1	PI13	HUR7, hurpin, headpin
18	SERPINB13	ENSG00000197641	ENST00000415733	protein_coding	PUTATIVE	None	8944	375	124	61255965	61271873	1	PI13	HUR7, hurpin, headpin
18	SERPINB13	ENSG00000197641	ENST00000269489	protein_coding	KNOWN	None	8944	1020	339	61254534	61266430	1	PI13	HUR7, hurpin, headpin
15	MIR4311	ENSG00000263512	ENST00000580794	miRNA	KNOWN	None	38207	None	None	66332571	66332670	1	None	hsa-mir-4311
3	NCBP2-AS1	ENSG00000225578	ENST00000447775	antisense	KNOWN	None	40392	None	None	196666748	196669405	1	None	None
Y	HDHD1P1	ENSG00000234620	ENST00000421058	unprocessed_pseudogene	KNOWN	None	20200	None	None	17460542	17567954	-1	FAM16AY, HDHD1BP	None
5	SPOCK1	ENSG00000152377	ENST00000394945	protein_coding	KNOWN	CCDS4191	11251	1320	439	136310987	136835037	-1	TIC1, SPOCK	testican-1
5	SPOCK1	ENSG00000152377	ENST00000515091	retained_intron	KNOWN	None	11251	None	None	136314143	136315189	-1	TIC1, SPOCK	testican-1
5	SPOCK1	ENSG00000152377	ENST00000509978	processed_transcript	KNOWN	None	11251	None	None	136314481	136324526	-1	TIC1, SPOCK	testican-1
5	SPOCK1	ENSG00000152377	ENST00000508642	processed_transcript	KNOWN	None	11251	None	None	136324242	136328849	-1	TIC1, SPOCK	testican-1
5	SPOCK1	ENSG00000152377	ENST00000510689	protein_coding	PUTATIVE	None	11251	201	66	136328243	136834988	-1	TIC1, SPOCK	testican-1
5	SPOCK1	ENSG00000152377	ENST00000510405	protein_coding	PUTATIVE	None	11251	39	12	136448124	136649227	-1	TIC1, SPOCK	testican-1
5	SPOCK1	ENSG00000152377	ENST00000505690	protein_coding	KNOWN	None	11251	417	138	136448181	136834283	-1	TIC1, SPOCK	testican-1
5	SPOCK1	ENSG00000152377	ENST00000503916	processed_transcript	KNOWN	None	11251	None	None	136448183	136934068	-1	TIC1, SPOCK	testican-1
5	SPOCK1	ENSG00000152377	ENST00000509293	processed_transcript	KNOWN	None	11251	None	None	136602704	136701150	-1	TIC1, SPOCK	testican-1
5	SPOCK1	ENSG00000152377	ENST00000282223	protein_coding	KNOWN	CCDS4191	11251	1320	439	136314302	136834247	-1	TIC1, SPOCK	testican-1
20	AIMP1P1	ENSG00000234187	ENST00000418670	processed_pseudogene	KNOWN	None	16543	None	None	14108046	14108982	1	SCYE1P	bA400P21.1
1	None	ENSG00000224315	ENST00000428803	processed_pseudogene	KNOWN	None	None	None	None	8846270	8846972	-1	None	None
10	UBE2D1	ENSG00000072401	ENST00000373910	protein_coding	KNOWN	CCDS7252	12474	444	147	60094735	60130513	1	SFT	UbcH5A, UBCH5, UBC4/5, E2(17)KB1
10	UBE2D1	ENSG00000072401	ENST00000473824	retained_intron	KNOWN	None	12474	None	None	60124216	60128803	1	SFT	UbcH5A, UBCH5, UBC4/5, E2(17)KB1
10	UBE2D1	ENSG00000072401	ENST00000606483	retained_intron	KNOWN	None	12474	None	None	60127968	60129355	1	SFT	UbcH5A, UBCH5, UBC4/5, E2(17)KB1
3	NCBP2-AS2	ENSG00000270170	ENST00000602845	lincRNA	KNOWN	None	25121	None	None	196669494	196670411	1	None	None
8	MTUS1	ENSG00000129422	ENST00000517413	retained_intron	KNOWN	None	29789	None	None	17501308	17533923	-1	None	MTSG1, KIAA1288, DKFZp586D1519, FLJ14295, ATIP1, MP44, ATBP, ICIS
8	MTUS1	ENSG00000129422	ENST00000297488	protein_coding	KNOWN	CCDS43719	29789	1311	436	17501308	17555179	-1	None	MTSG1, KIAA1288, DKFZp586D1519, FLJ14295, ATIP1, MP44, ATBP, ICIS
8	MTUS1	ENSG00000129422	ENST00000520196	nonsense_mediated_decay	KNOWN	None	29789	1517	504	17501308	17612520	-1	None	MTSG1, KIAA1288, DKFZp586D1519, FLJ14295, ATIP1, MP44, ATBP, ICIS
8	MTUS1	ENSG00000129422	ENST00000381861	protein_coding	KNOWN	CCDS43718	29789	1554	517	17501313	17579730	-1	None	MTSG1, KIAA1288, DKFZp586D1519, FLJ14295, ATIP1, MP44, ATBP, ICIS
8	MTUS1	ENSG00000129422	ENST00000262102	protein_coding	KNOWN	CCDS43717	29789	3813	1270	17501313	17658177	-1	None	MTSG1, KIAA1288, DKFZp586D1519, FLJ14295, ATIP1, MP44, ATBP, ICIS
8	MTUS1	ENSG00000129422	ENST00000519263	protein_coding	KNOWN	CCDS43716	29789	3651	1216	17503171	17613490	-1	None	MTSG1, KIAA1288, DKFZp586D1519, FLJ14295, ATIP1, MP44, ATBP, ICIS
8	MTUS1	ENSG00000129422	ENST00000518889	processed_transcript	PUTATIVE	None	29789	None	None	17503378	17504787	-1	None	MTSG1, KIAA1288, DKFZp586D1519, FLJ14295, ATIP1, MP44, ATBP, ICIS
8	MTUS1	ENSG00000129422	ENST00000518792	processed_transcript	KNOWN	None	29789	None	None	17503485	17509273	-1	None	MTSG1, KIAA1288, DKFZp586D1519, FLJ14295, ATIP1, MP44, ATBP, ICIS
8	MTUS1	ENSG00000129422	ENST00000523471	retained_intron	KNOWN	None	29789	None	None	17504513	17512534	-1	None	MTSG1, KIAA1288, DKFZp586D1519, FLJ14295, ATIP1, MP44, ATBP, ICIS
8	MTUS1	ENSG00000129422	ENST00000518713	processed_transcript	KNOWN	None	29789	None	None	17507389	17549735	-1	None	MTSG1, KIAA1288, DKFZp586D1519, FLJ14295, ATIP1, MP44, ATBP, ICIS
8	MTUS1	ENSG00000129422	ENST00000522757	processed_transcript	KNOWN	None	29789	None	None	17512070	17532773	-1	None	MTSG1, KIAA1288, DKFZp586D1519, FLJ14295, ATIP1, MP44, ATBP, ICIS
8	MTUS1	ENSG00000129422	ENST00000521772	processed_transcript	KNOWN	None	29789	None	None	17512073	17533719	-1	None	MTSG1, KIAA1288, DKFZp586D1519, FLJ14295, ATIP1, MP44, ATBP, ICIS
8	MTUS1	ENSG00000129422	ENST00000524371	processed_transcript	KNOWN	None	29789	None	None	17513380	17550847	-1	None	MTSG1, KIAA1288, DKFZp586D1519, FLJ14295, ATIP1, MP44, ATBP, ICIS
8	MTUS1	ENSG00000129422	ENST00000517818	processed_transcript	KNOWN	None	29789	None	None	17513528	17549726	-1	None	MTSG1, KIAA1288, DKFZp586D1519, FLJ14295, ATIP1, MP44, ATBP, ICIS
8	MTUS1	ENSG00000129422	ENST00000524044	processed_transcript	KNOWN	None	29789	None	None	17513535	17580148	-1	None	MTSG1, KIAA1288, DKFZp586D1519, FLJ14295, ATIP1, MP44, ATBP, ICIS
8	MTUS1	ENSG00000129422	ENST00000523183	processed_transcript	PUTATIVE	None	29789	None	None	17532177	17533651	-1	None	MTSG1, KIAA1288, DKFZp586D1519, FLJ14295, ATIP1, MP44, ATBP, ICIS
8	MTUS1	ENSG00000129422	ENST00000519066	processed_transcript	PUTATIVE	None	29789	None	None	17532244	17534003	-1	None	MTSG1, KIAA1288, DKFZp586D1519, FLJ14295, ATIP1, MP44, ATBP, ICIS
8	MTUS1	ENSG00000129422	ENST00000521635	processed_transcript	KNOWN	None	29789	None	None	17532346	17549735	-1	None	MTSG1, KIAA1288, DKFZp586D1519, FLJ14295, ATIP1, MP44, ATBP, ICIS
8	MTUS1	ENSG00000129422	ENST00000522149	processed_transcript	KNOWN	None	29789	None	None	17532726	17574099	-1	None	MTSG1, KIAA1288, DKFZp586D1519, FLJ14295, ATIP1, MP44, ATBP, ICIS
8	MTUS1	ENSG00000129422	ENST00000521882	processed_transcript	KNOWN	None	29789	None	None	17541844	17580084	-1	None	MTSG1, KIAA1288, DKFZp586D1519, FLJ14295, ATIP1, MP44, ATBP, ICIS
8	MTUS1	ENSG00000129422	ENST00000518138	processed_transcript	KNOWN	None	29789	None	None	17541863	17591756	-1	None	MTSG1, KIAA1288, DKFZp586D1519, FLJ14295, ATIP1, MP44, ATBP, ICIS
8	MTUS1	ENSG00000129422	ENST00000517721	retained_intron	KNOWN	None	29789	None	None	17541984	17581519	-1	None	MTSG1, KIAA1288, DKFZp586D1519, FLJ14295, ATIP1, MP44, ATBP, ICIS
8	MTUS1	ENSG00000129422	ENST00000518975	processed_transcript	KNOWN	None	29789	None	None	17566276	17579498	-1	None	MTSG1, KIAA1288, DKFZp586D1519, FLJ14295, ATIP1, MP44, ATBP, ICIS
8	MTUS1	ENSG00000129422	ENST00000523718	retained_intron	KNOWN	None	29789	None	None	17580750	17658426	-1	None	MTSG1, KIAA1288, DKFZp586D1519, FLJ14295, ATIP1, MP44, ATBP, ICIS
8	MTUS1	ENSG00000129422	ENST00000518755	processed_transcript	PUTATIVE	None	29789	None	None	17612947	17638471	-1	None	MTSG1, KIAA1288, DKFZp586D1519, FLJ14295, ATIP1, MP44, ATBP, ICIS
8	MTUS1	ENSG00000129422	ENST00000518891	processed_transcript	PUTATIVE	None	29789	None	None	17613130	17628090	-1	None	MTSG1, KIAA1288, DKFZp586D1519, FLJ14295, ATIP1, MP44, ATBP, ICIS
8	MTUS1	ENSG00000129422	ENST00000381869	protein_coding	KNOWN	CCDS43716	29789	3651	1216	17501304	17658426	-1	None	MTSG1, KIAA1288, DKFZp586D1519, FLJ14295, ATIP1, MP44, ATBP, ICIS
8	MTUS1	ENSG00000129422	ENST00000544260	protein_coding	KNOWN	CCDS55204	29789	1248	415	17501304	17580084	-1	None	MTSG1, KIAA1288, DKFZp586D1519, FLJ14295, ATIP1, MP44, ATBP, ICIS
8	MTUS1	ENSG00000129422	ENST00000400046	protein_coding	KNOWN	None	29789	1029	342	17501304	17533838	-1	None	MTSG1, KIAA1288, DKFZp586D1519, FLJ14295, ATIP1, MP44, ATBP, ICIS
8	MTUS1	ENSG00000129422	ENST00000381862	protein_coding	KNOWN	None	29789	2313	770	17581646	17658426	-1	None	MTSG1, KIAA1288, DKFZp586D1519, FLJ14295, ATIP1, MP44, ATBP, ICIS
8	None	ENSG00000250979	ENST00000503430	unprocessed_pseudogene	KNOWN	None	None	None	None	73114986	73163800	-1	None	None
Y	STSP1	ENSG00000227166	ENST00000412493	unprocessed_pseudogene	KNOWN	None	11426	None	None	17659096	17705211	1	STSP	STS-Y
12	None	ENSG00000256732	ENST00000545853	lincRNA	KNOWN	None	None	None	None	127094580	127174806	-1	None	None
12	None	ENSG00000256732	ENST00000540814	lincRNA	KNOWN	None	None	None	None	127137496	127174852	-1	None	None
12	None	ENSG00000256732	ENST00000541065	lincRNA	KNOWN	None	None	None	None	127137512	127174864	-1	None	None
12	None	ENSG00000256732	ENST00000537478	lincRNA	KNOWN	None	None	None	None	127148225	127174814	-1	None	None
X	AKAP4	ENSG00000147081	ENST00000358526	protein_coding	KNOWN	CCDS14329	374	2565	854	49955411	49965664	-1	None	p82, hAKAP82, AKAP82, Fsc1, HI, CT99
X	AKAP4	ENSG00000147081	ENST00000376064	protein_coding	KNOWN	CCDS14330	374	2538	845	49955420	49965023	-1	None	p82, hAKAP82, AKAP82, Fsc1, HI, CT99
X	AKAP4	ENSG00000147081	ENST00000481402	processed_transcript	KNOWN	None	374	None	None	49955420	49965023	-1	None	p82, hAKAP82, AKAP82, Fsc1, HI, CT99
X	AKAP4	ENSG00000147081	ENST00000448865	protein_coding	KNOWN	None	374	640	212	49957575	49965023	-1	None	p82, hAKAP82, AKAP82, Fsc1, HI, CT99
X	AKAP4	ENSG00000147081	ENST00000437370	protein_coding	KNOWN	None	374	763	253	49958574	49965009	-1	None	p82, hAKAP82, AKAP82, Fsc1, HI, CT99
X	AKAP4	ENSG00000147081	ENST00000480926	processed_transcript	KNOWN	None	374	None	None	49958741	49965023	-1	None	p82, hAKAP82, AKAP82, Fsc1, HI, CT99
X	AKAP4	ENSG00000147081	ENST00000376056	protein_coding	KNOWN	CCDS14330	374	2538	845	49955406	49965664	-1	None	p82, hAKAP82, AKAP82, Fsc1, HI, CT99
X	AKAP4	ENSG00000147081	ENST00000376058	protein_coding	KNOWN	None	374	1416	471	49955406	49965664	-1	None	p82, hAKAP82, AKAP82, Fsc1, HI, CT99
20	RBM39	ENSG00000131051	ENST00000463004	retained_intron	KNOWN	None	15923	None	None	34291531	34330158	-1	RNPC2	CC1.3, HCC1, CAPER, fSAP59
20	RBM39	ENSG00000131051	ENST00000461283	retained_intron	KNOWN	None	15923	None	None	34291532	34326959	-1	RNPC2	CC1.3, HCC1, CAPER, fSAP59
20	RBM39	ENSG00000131051	ENST00000253363	protein_coding	KNOWN	CCDS13266	15923	1593	530	34291532	34329873	-1	RNPC2	CC1.3, HCC1, CAPER, fSAP59
20	RBM39	ENSG00000131051	ENST00000361162	protein_coding	KNOWN	CCDS13265	15923	1575	524	34291532	34330234	-1	RNPC2	CC1.3, HCC1, CAPER, fSAP59
20	RBM39	ENSG00000131051	ENST00000338163	nonsense_mediated_decay	KNOWN	None	15923	1272	423	34291533	34330143	-1	RNPC2	CC1.3, HCC1, CAPER, fSAP59
20	RBM39	ENSG00000131051	ENST00000403542	nonsense_mediated_decay	KNOWN	None	15923	123	40	34291533	34330196	-1	RNPC2	CC1.3, HCC1, CAPER, fSAP59
20	RBM39	ENSG00000131051	ENST00000528062	protein_coding	KNOWN	CCDS56186	15923	1527	508	34291820	34330160	-1	RNPC2	CC1.3, HCC1, CAPER, fSAP59
20	RBM39	ENSG00000131051	ENST00000495293	processed_transcript	PUTATIVE	None	15923	None	None	34292248	34301125	-1	RNPC2	CC1.3, HCC1, CAPER, fSAP59
20	RBM39	ENSG00000131051	ENST00000476806	processed_transcript	KNOWN	None	15923	None	None	34292248	34302173	-1	RNPC2	CC1.3, HCC1, CAPER, fSAP59
20	RBM39	ENSG00000131051	ENST00000444878	nonsense_mediated_decay	KNOWN	None	15923	123	40	34292248	34330170	-1	RNPC2	CC1.3, HCC1, CAPER, fSAP59
20	RBM39	ENSG00000131051	ENST00000429968	nonsense_mediated_decay	KNOWN	None	15923	144	47	34292248	34330178	-1	RNPC2	CC1.3, HCC1, CAPER, fSAP59
20	RBM39	ENSG00000131051	ENST00000492779	retained_intron	KNOWN	None	15923	None	None	34292250	34320728	-1	RNPC2	CC1.3, HCC1, CAPER, fSAP59
20	RBM39	ENSG00000131051	ENST00000496183	processed_transcript	PUTATIVE	None	15923	None	None	34292299	34295283	-1	RNPC2	CC1.3, HCC1, CAPER, fSAP59
20	RBM39	ENSG00000131051	ENST00000482563	retained_intron	KNOWN	None	15923	None	None	34292299	34295910	-1	RNPC2	CC1.3, HCC1, CAPER, fSAP59
20	RBM39	ENSG00000131051	ENST00000490354	processed_transcript	PUTATIVE	None	15923	None	None	34292322	34293321	-1	RNPC2	CC1.3, HCC1, CAPER, fSAP59
20	RBM39	ENSG00000131051	ENST00000465158	retained_intron	KNOWN	None	15923	None	None	34292327	34301288	-1	RNPC2	CC1.3, HCC1, CAPER, fSAP59
20	RBM39	ENSG00000131051	ENST00000448303	protein_coding	NOVEL	None	15923	1008	335	34292625	34317266	-1	RNPC2	CC1.3, HCC1, CAPER, fSAP59
20	RBM39	ENSG00000131051	ENST00000470563	processed_transcript	KNOWN	None	15923	None	None	34293184	34301337	-1	RNPC2	CC1.3, HCC1, CAPER, fSAP59
20	RBM39	ENSG00000131051	ENST00000471635	retained_intron	KNOWN	None	15923	None	None	34296726	34301018	-1	RNPC2	CC1.3, HCC1, CAPER, fSAP59
20	RBM39	ENSG00000131051	ENST00000468086	retained_intron	KNOWN	None	15923	None	None	34296914	34298488	-1	RNPC2	CC1.3, HCC1, CAPER, fSAP59
20	RBM39	ENSG00000131051	ENST00000475651	processed_transcript	PUTATIVE	None	15923	None	None	34296955	34304709	-1	RNPC2	CC1.3, HCC1, CAPER, fSAP59
20	RBM39	ENSG00000131051	ENST00000494274	processed_transcript	KNOWN	None	15923	None	None	34301240	34312985	-1	RNPC2	CC1.3, HCC1, CAPER, fSAP59
20	RBM39	ENSG00000131051	ENST00000490484	retained_intron	KNOWN	None	15923	None	None	34301730	34313034	-1	RNPC2	CC1.3, HCC1, CAPER, fSAP59
20	RBM39	ENSG00000131051	ENST00000374038	protein_coding	NOVEL	None	15923	695	230	34309789	34330180	-1	RNPC2	CC1.3, HCC1, CAPER, fSAP59
20	RBM39	ENSG00000131051	ENST00000412738	nonsense_mediated_decay	KNOWN	None	15923	123	40	34312492	34330035	-1	RNPC2	CC1.3, HCC1, CAPER, fSAP59
20	RBM39	ENSG00000131051	ENST00000434927	protein_coding	KNOWN	None	15923	581	192	34312598	34329531	-1	RNPC2	CC1.3, HCC1, CAPER, fSAP59
20	RBM39	ENSG00000131051	ENST00000425184	nonsense_mediated_decay	KNOWN	None	15923	72	23	34312987	34328519	-1	RNPC2	CC1.3, HCC1, CAPER, fSAP59
20	RBM39	ENSG00000131051	ENST00000481037	retained_intron	KNOWN	None	15923	None	None	34313046	34327205	-1	RNPC2	CC1.3, HCC1, CAPER, fSAP59
20	RBM39	ENSG00000131051	ENST00000455343	nonsense_mediated_decay	KNOWN	None	15923	123	40	34317244	34329880	-1	RNPC2	CC1.3, HCC1, CAPER, fSAP59
20	RBM39	ENSG00000131051	ENST00000416108	nonsense_mediated_decay	KNOWN	None	15923	123	40	34317394	34329548	-1	RNPC2	CC1.3, HCC1, CAPER, fSAP59
20	RBM39	ENSG00000131051	ENST00000477334	retained_intron	KNOWN	None	15923	None	None	34319282	34327062	-1	RNPC2	CC1.3, HCC1, CAPER, fSAP59
20	RBM39	ENSG00000131051	ENST00000426951	protein_coding	NOVEL	None	15923	260	85	34319282	34328759	-1	RNPC2	CC1.3, HCC1, CAPER, fSAP59
20	RBM39	ENSG00000131051	ENST00000442447	processed_transcript	KNOWN	None	15923	None	None	34319838	34330100	-1	RNPC2	CC1.3, HCC1, CAPER, fSAP59
20	RBM39	ENSG00000131051	ENST00000449489	nonsense_mediated_decay	KNOWN	None	15923	123	40	34319868	34328809	-1	RNPC2	CC1.3, HCC1, CAPER, fSAP59
20	RBM39	ENSG00000131051	ENST00000433027	nonsense_mediated_decay	KNOWN	None	15923	120	39	34319967	34330141	-1	RNPC2	CC1.3, HCC1, CAPER, fSAP59
20	RBM39	ENSG00000131051	ENST00000487604	processed_transcript	PUTATIVE	None	15923	None	None	34319982	34327111	-1	RNPC2	CC1.3, HCC1, CAPER, fSAP59
20	RBM39	ENSG00000131051	ENST00000453310	nonsense_mediated_decay	KNOWN	None	15923	123	40	34322441	34330180	-1	RNPC2	CC1.3, HCC1, CAPER, fSAP59
20	RBM39	ENSG00000131051	ENST00000498280	processed_transcript	PUTATIVE	None	15923	None	None	34322689	34324563	-1	RNPC2	CC1.3, HCC1, CAPER, fSAP59
20	RBM39	ENSG00000131051	ENST00000416529	nonsense_mediated_decay	KNOWN	None	15923	189	62	34322718	34329901	-1	RNPC2	CC1.3, HCC1, CAPER, fSAP59
20	RBM39	ENSG00000131051	ENST00000397370	protein_coding	PUTATIVE	None	15923	288	95	34322798	34330154	-1	RNPC2	CC1.3, HCC1, CAPER, fSAP59
20	RBM39	ENSG00000131051	ENST00000463098	processed_transcript	KNOWN	None	15923	None	None	34327025	34330149	-1	RNPC2	CC1.3, HCC1, CAPER, fSAP59
20	RBM39	ENSG00000131051	ENST00000461849	retained_intron	KNOWN	None	15923	None	None	34328021	34330160	-1	RNPC2	CC1.3, HCC1, CAPER, fSAP59
20	RBM39	ENSG00000131051	ENST00000493853	retained_intron	KNOWN	None	15923	None	None	34328380	34329520	-1	RNPC2	CC1.3, HCC1, CAPER, fSAP59
20	RBM39	ENSG00000131051	ENST00000407261	protein_coding	KNOWN	None	15923	1122	373	34292250	34330178	-1	RNPC2	CC1.3, HCC1, CAPER, fSAP59
11	ETS1	ENSG00000134954	ENST00000392668	protein_coding	KNOWN	CCDS44767	3488	1458	485	128328660	128457437	-1	EWSR2	FLJ10768, ETS-1
11	ETS1	ENSG00000134954	ENST00000531611	protein_coding	NOVEL	None	3488	819	272	128331389	128392159	-1	EWSR2	FLJ10768, ETS-1
11	ETS1	ENSG00000134954	ENST00000319397	protein_coding	KNOWN	CCDS8475	3488	1326	441	128331745	128392199	-1	EWSR2	FLJ10768, ETS-1
11	ETS1	ENSG00000134954	ENST00000526145	protein_coding	KNOWN	None	3488	1065	354	128332034	128392096	-1	EWSR2	FLJ10768, ETS-1
11	ETS1	ENSG00000134954	ENST00000530924	retained_intron	KNOWN	None	3488	None	None	128332206	128333524	-1	EWSR2	FLJ10768, ETS-1
11	ETS1	ENSG00000134954	ENST00000525404	processed_transcript	KNOWN	None	3488	None	None	128406307	128457437	-1	EWSR2	FLJ10768, ETS-1
11	ETS1	ENSG00000134954	ENST00000527676	processed_transcript	KNOWN	None	3488	None	None	128441957	128457418	-1	EWSR2	FLJ10768, ETS-1
11	ETS1	ENSG00000134954	ENST00000345075	protein_coding	KNOWN	None	3488	1065	354	128328656	128392205	-1	EWSR2	FLJ10768, ETS-1
11	ETS1	ENSG00000134954	ENST00000535549	protein_coding	KNOWN	CCDS53724	3488	678	225	128328656	128392205	-1	EWSR2	FLJ10768, ETS-1
10	FAM21FP	ENSG00000237840	ENST00000426241	unprocessed_pseudogene	KNOWN	None	45011	None	None	46201879	46217887	-1	None	None
HSCHR6_MHC_SSTO	TNF	ENSG00000230108	ENST00000443707	protein_coding	KNOWN	None	11892	702	233	31533287	31536056	1	TNFA	TNFSF2, DIF, TNF-alpha
1	FCGR3B	ENSG00000162747	ENST00000367964	protein_coding	KNOWN	CCDS41433	3620	702	233	161592986	161601753	-1	FCGR3, FCG3	CD16, CD16b
1	FCGR3B	ENSG00000162747	ENST00000531221	protein_coding	PUTATIVE	CCDS58040	3620	810	269	161593780	161600996	-1	FCGR3, FCG3	CD16, CD16b
1	FCGR3B	ENSG00000162747	ENST00000421702	protein_coding	PUTATIVE	None	3620	763	253	161594013	161600948	-1	FCGR3, FCG3	CD16, CD16b
1	FCGR3B	ENSG00000162747	ENST00000533780	retained_intron	KNOWN	None	3620	None	None	161596097	161600040	-1	FCGR3, FCG3	CD16, CD16b
1	FCGR3B	ENSG00000162747	ENST00000534776	protein_coding	PUTATIVE	None	3620	314	103	161596147	161600822	-1	FCGR3, FCG3	CD16, CD16b
1	FCGR3B	ENSG00000162747	ENST00000534489	retained_intron	KNOWN	None	3620	None	None	161599680	161600916	-1	FCGR3, FCG3	CD16, CD16b
1	FCGR3B	ENSG00000162747	ENST00000294800	protein_coding	KNOWN	CCDS41433	3620	702	233	161592992	161601158	-1	FCGR3, FCG3	CD16, CD16b
3	None	ENSG00000233487	ENST00000445739	processed_transcript	PUTATIVE	None	None	None	None	196710761	196713813	-1	None	None
3	None	ENSG00000233487	ENST00000456555	transcribed_processed_pseudogene	KNOWN	None	None	None	None	196713547	196714429	-1	None	None
20	RN7SL864P	ENSG00000239923	ENST00000493457	misc_RNA	KNOWN	None	46880	None	None	14203687	14203976	1	None	None
14	SYNJ2BP	ENSG00000213463	ENST00000256366	protein_coding	KNOWN	CCDS9803	18955	438	145	70838148	70883762	-1	None	Arip2
14	SYNJ2BP	ENSG00000213463	ENST00000554216	processed_transcript	PUTATIVE	None	18955	None	None	70839205	70883778	-1	None	Arip2
13	DCLK1	ENSG00000133083	ENST00000379893	protein_coding	KNOWN	CCDS55895	2700	1302	433	36345478	36429779	-1	DCAMKL1	KIAA0369, DCLK, DCDC3A
13	DCLK1	ENSG00000133083	ENST00000255448	protein_coding	KNOWN	CCDS9354	2700	2190	729	36345478	36705443	-1	DCAMKL1	KIAA0369, DCLK, DCDC3A
13	DCLK1	ENSG00000133083	ENST00000360631	protein_coding	KNOWN	None	2700	2223	740	36345478	36705443	-1	DCAMKL1	KIAA0369, DCLK, DCDC3A
13	DCLK1	ENSG00000133083	ENST00000477664	processed_transcript	KNOWN	None	2700	None	None	36361995	36367616	-1	DCAMKL1	KIAA0369, DCLK, DCDC3A
13	DCLK1	ENSG00000133083	ENST00000486239	processed_transcript	KNOWN	None	2700	None	None	36379453	36382474	-1	DCAMKL1	KIAA0369, DCLK, DCDC3A
13	DCLK1	ENSG00000133083	ENST00000460982	processed_transcript	KNOWN	None	2700	None	None	36420037	36429921	-1	DCAMKL1	KIAA0369, DCLK, DCDC3A
13	DCLK1	ENSG00000133083	ENST00000379892	protein_coding	KNOWN	None	2700	1092	363	36424060	36705443	-1	DCAMKL1	KIAA0369, DCLK, DCDC3A
14	SNORD114-21	ENSG00000272344	ENST00000606412	snoRNA	KNOWN	None	33009	None	None	101448312	101448383	1	None	14q(II-21)
4	RNA5SP166	ENSG00000201846	ENST00000364976	rRNA	KNOWN	None	43066	None	None	149479099	149479200	1	RN5S166	None
3	MFI2-AS1	ENSG00000228109	ENST00000424769	antisense	KNOWN	None	40373	None	None	196726331	196731607	1	None	None
3	MFI2-AS1	ENSG00000228109	ENST00000415244	antisense	KNOWN	None	40373	None	None	196729777	196731615	1	None	None
3	MFI2-AS1	ENSG00000228109	ENST00000446695	antisense	KNOWN	None	40373	None	None	196730003	196730601	1	None	None
3	MFI2-AS1	ENSG00000228109	ENST00000437064	antisense	KNOWN	None	40373	None	None	196730508	196731609	1	None	None
3	MFI2-AS1	ENSG00000228109	ENST00000414354	antisense	KNOWN	None	40373	None	None	196730621	196731611	1	None	None
1	None	ENSG00000222511	ENST00000410579	misc_RNA	NOVEL	None	None	None	None	8856633	8856731	-1	None	None
15	None	ENSG00000261318	ENST00000564269	antisense	KNOWN	None	None	None	None	66570836	66585695	-1	None	None
4	None	ENSG00000250357	ENST00000504874	lincRNA	KNOWN	None	None	None	None	149614184	149615475	1	None	None
17	TUFMP1	ENSG00000265646	ENST00000581294	processed_pseudogene	KNOWN	None	12421	None	None	25409716	25411062	-1	TUFML	None
7	THSD7A	ENSG00000005108	ENST00000408005	retained_intron	KNOWN	None	22207	None	None	11414247	11419382	-1	None	KIAA0960
7	THSD7A	ENSG00000005108	ENST00000423059	protein_coding	KNOWN	CCDS47543	22207	4974	1657	11414262	11871824	-1	None	KIAA0960
7	THSD7A	ENSG00000005108	ENST00000497575	processed_transcript	KNOWN	None	22207	None	None	11485929	11582686	-1	None	KIAA0960
7	THSD7A	ENSG00000005108	ENST00000480061	processed_transcript	PUTATIVE	None	22207	None	None	11676239	11790979	-1	None	KIAA0960
20	RNU6-228P	ENSG00000199570	ENST00000362700	snRNA	KNOWN	None	47191	None	None	14332966	14333071	1	None	None
6	RNU6-471P	ENSG00000206671	ENST00000383944	snRNA	KNOWN	None	47434	None	None	27564191	27564296	1	None	None
14	SNORD114-22	ENSG00000202293	ENST00000365423	snoRNA	KNOWN	None	33010	None	None	101449263	101449334	1	None	14q(II-22)
13	HNRNPA1L2	ENSG00000139675	ENST00000357495	protein_coding	KNOWN	CCDS31980	27067	963	320	53216568	53217915	1	None	LOC144983
13	HNRNPA1L2	ENSG00000139675	ENST00000342657	protein_coding	KNOWN	CCDS31980	27067	963	320	53191605	53217919	1	None	LOC144983
13	HNRNPA1L2	ENSG00000139675	ENST00000398039	protein_coding	KNOWN	CCDS31980	27067	963	320	53191605	53217919	1	None	LOC144983
17	None	ENSG00000265246	ENST00000581944	lincRNA	KNOWN	None	None	None	None	25564885	25568687	-1	None	None
11	RNF169	ENSG00000166439	ENST00000299563	protein_coding	KNOWN	CCDS41691	26961	2127	708	74459913	74553458	1	None	KIAA1991
11	RNF169	ENSG00000166439	ENST00000527301	protein_coding	KNOWN	None	26961	239	78	74547537	74553259	1	None	KIAA1991
4	ATP5LP4	ENSG00000225176	ENST00000434169	processed_pseudogene	KNOWN	None	38165	None	None	149624678	149624984	-1	None	None
6	TRNAI6	ENSG00000238648	ENST00000458896	miRNA	KNOWN	None	34693	None	None	27599188	27599311	1	None	None
8	None	ENSG00000238656	ENST00000459102	snoRNA	NOVEL	None	None	None	None	113576104	113576205	-1	None	None
14	SNORD114-23	ENSG00000200406	ENST00000363536	snoRNA	KNOWN	None	33011	None	None	101450213	101450284	1	None	14q(II-23)
8	MIR2053	ENSG00000238399	ENST00000459295	miRNA	KNOWN	None	37069	None	None	113655722	113655812	1	None	hsa-mir-2053
7	AKR1D1	ENSG00000122787	ENST00000468877	processed_transcript	KNOWN	None	388	None	None	137687070	137801612	1	SRD5B1	None
7	AKR1D1	ENSG00000122787	ENST00000432161	protein_coding	NOVEL	CCDS55169	388	873	290	137761178	137801659	1	SRD5B1	None
7	AKR1D1	ENSG00000122787	ENST00000411726	protein_coding	NOVEL	CCDS55170	388	858	285	137761213	137802732	1	SRD5B1	None
7	AKR1D1	ENSG00000122787	ENST00000242375	protein_coding	KNOWN	CCDS5846	388	981	326	137761223	137802732	1	SRD5B1	None
7	AKR1D1	ENSG00000122787	ENST00000438242	protein_coding	PUTATIVE	None	388	289	95	137761264	137782690	1	SRD5B1	None
7	AKR1D1	ENSG00000122787	ENST00000470851	retained_intron	KNOWN	None	388	None	None	137776589	137783056	1	SRD5B1	None
6	None	ENSG00000216676	ENST00000404273	processed_pseudogene	KNOWN	None	None	None	None	27620381	27620604	-1	None	None
15	None	ENSG00000260773	ENST00000565993	antisense	KNOWN	None	None	None	None	66607252	66624041	-1	None	None
4	None	ENSG00000249317	ENST00000504394	lincRNA	KNOWN	None	None	None	None	149862093	149863530	-1	None	None
4	None	ENSG00000249317	ENST00000512989	retained_intron	KNOWN	None	None	None	None	149862101	149862929	-1	None	None
8	None	ENSG00000227514	ENST00000422478	processed_pseudogene	KNOWN	None	None	None	None	114388898	114389456	1	None	None
14	SNORD114-24	ENSG00000201899	ENST00000365029	snoRNA	KNOWN	None	33012	None	None	101451114	101451185	1	None	14q(II-24)
6	PTCHD3P3	ENSG00000219700	ENST00000403073	processed_pseudogene	KNOWN	None	44947	None	None	109609774	109611706	-1	None	None
22	MYO18B	ENSG00000133454	ENST00000536101	protein_coding	KNOWN	CCDS54507	18150	7704	2567	26138111	26423732	1	None	BK125H2.1
22	MYO18B	ENSG00000133454	ENST00000335473	protein_coding	KNOWN	CCDS54507	18150	7704	2567	26138120	26427007	1	None	BK125H2.1
22	MYO18B	ENSG00000133454	ENST00000407587	protein_coding	NOVEL	None	18150	7707	2568	26138201	26426610	1	None	BK125H2.1
22	MYO18B	ENSG00000133454	ENST00000539302	nonsense_mediated_decay	KNOWN	None	18150	2397	798	26157001	26426552	1	None	BK125H2.1
22	MYO18B	ENSG00000133454	ENST00000418374	retained_intron	KNOWN	None	18150	None	None	26165994	26423732	1	None	BK125H2.1
22	MYO18B	ENSG00000133454	ENST00000534908	processed_transcript	KNOWN	None	18150	None	None	26297145	26299731	1	None	BK125H2.1
22	MYO18B	ENSG00000133454	ENST00000536204	processed_transcript	KNOWN	None	18150	None	None	26297145	26299764	1	None	BK125H2.1
22	MYO18B	ENSG00000133454	ENST00000539544	processed_transcript	KNOWN	None	18150	None	None	26349501	26361037	1	None	BK125H2.1
22	MYO18B	ENSG00000133454	ENST00000543971	protein_coding	NOVEL	None	18150	1553	516	26351281	26426611	1	None	BK125H2.1
22	MYO18B	ENSG00000133454	ENST00000540454	nonsense_mediated_decay	KNOWN	None	18150	630	209	26423015	26426610	1	None	BK125H2.1
6	None	ENSG00000216915	ENST00000407924	processed_pseudogene	KNOWN	None	None	None	None	27704779	27706273	-1	None	None
17	RPL34P31	ENSG00000239223	ENST00000475295	processed_pseudogene	KNOWN	None	36899	None	None	25601133	25601503	1	None	None
17	RPL34P31	ENSG00000239223	ENST00000419419	processed_pseudogene	KNOWN	None	36899	None	None	25601144	25601503	1	None	None
HSCHR6_MHC_SSTO	HLA-DRA	ENSG00000234794	ENST00000411524	protein_coding	KNOWN	None	4947	765	254	32413425	32418635	1	HLA-DRA1	None
HSCHR6_MHC_SSTO	HLA-DRA	ENSG00000234794	ENST00000498597	processed_transcript	PUTATIVE	None	4947	None	None	32413455	32416778	1	HLA-DRA1	None
HSCHR6_MHC_SSTO	HLA-DRA	ENSG00000234794	ENST00000427753	protein_coding	KNOWN	None	4947	690	229	32413507	32418635	1	HLA-DRA1	None
HSCHR6_MHC_SSTO	HLA-DRA	ENSG00000234794	ENST00000553193	protein_coding	KNOWN	None	4947	714	237	32413453	32418633	1	HLA-DRA1	None
8	None	ENSG00000221610	ENST00000408683	miRNA	NOVEL	None	None	None	None	114419756	114419823	-1	None	None
15	SCARNA14	ENSG00000252712	ENST00000516903	snoRNA	KNOWN	None	32571	None	None	66639545	66639680	-1	None	U100
20	None	ENSG00000227563	ENST00000427702	processed_pseudogene	KNOWN	None	None	None	None	14527830	14528269	-1	None	None
12	None	ENSG00000255900	ENST00000536978	processed_pseudogene	KNOWN	None	None	None	None	127100890	127101100	-1	None	None
8	None	ENSG00000206719	ENST00000383992	misc_RNA	NOVEL	None	None	None	None	114963115	114963227	1	None	None
19	None	ENSG00000271655	ENST00000604530	processed_pseudogene	KNOWN	None	None	None	None	23023234	23023723	-1	None	None
14	SNORD114-25	ENSG00000200612	ENST00000363742	snoRNA	KNOWN	None	33013	None	None	101452394	101452465	1	None	14q(II-25)
HSCHR6_MHC_DBB	HLA-DMB	ENSG00000226264	ENST00000477825	retained_intron	KNOWN	None	4935	None	None	32880346	32882603	-1	None	D6S221E, RING7
HSCHR6_MHC_DBB	HLA-DMB	ENSG00000226264	ENST00000494382	retained_intron	KNOWN	None	4935	None	None	32880346	32882618	-1	None	D6S221E, RING7
HSCHR6_MHC_DBB	HLA-DMB	ENSG00000226264	ENST00000437583	protein_coding	KNOWN	None	4935	321	106	32880346	32883156	-1	None	D6S221E, RING7
HSCHR6_MHC_DBB	HLA-DMB	ENSG00000226264	ENST00000448798	protein_coding	KNOWN	None	4935	424	140	32880346	32884405	-1	None	D6S221E, RING7
HSCHR6_MHC_DBB	HLA-DMB	ENSG00000226264	ENST00000461570	retained_intron	KNOWN	None	4935	None	None	32880346	32886701	-1	None	D6S221E, RING7
HSCHR6_MHC_DBB	HLA-DMB	ENSG00000226264	ENST00000447454	protein_coding	KNOWN	None	4935	774	257	32880346	32886738	-1	None	D6S221E, RING7
HSCHR6_MHC_DBB	HLA-DMB	ENSG00000226264	ENST00000440078	protein_coding	KNOWN	None	4935	792	263	32880346	32886787	-1	None	D6S221E, RING7
HSCHR6_MHC_DBB	HLA-DMB	ENSG00000226264	ENST00000449679	protein_coding	KNOWN	None	4935	526	174	32883081	32898843	-1	None	D6S221E, RING7
HSCHR6_MHC_DBB	HLA-DMB	ENSG00000226264	ENST00000548290	protein_coding	KNOWN	None	4935	288	95	32880355	32886757	-1	None	D6S221E, RING7
HSCHR6_MHC_DBB	HLA-DMB	ENSG00000226264	ENST00000547478	protein_coding	KNOWN	None	4935	207	68	32880355	32886757	-1	None	D6S221E, RING7
HSCHR6_MHC_DBB	HLA-DMB	ENSG00000226264	ENST00000551481	protein_coding	KNOWN	None	4935	171	56	32880688	32886524	-1	None	D6S221E, RING7
14	TDRD9	ENSG00000156414	ENST00000409874	protein_coding	KNOWN	CCDS9987	20122	4149	1382	104394799	104519004	1	C14orf75	DKFZp434N0820, FLJ36164, NET54
14	TDRD9	ENSG00000156414	ENST00000496087	processed_transcript	KNOWN	None	20122	None	None	104395154	104431818	1	C14orf75	DKFZp434N0820, FLJ36164, NET54
14	TDRD9	ENSG00000156414	ENST00000554571	processed_transcript	KNOWN	None	20122	None	None	104406137	104433165	1	C14orf75	DKFZp434N0820, FLJ36164, NET54
14	TDRD9	ENSG00000156414	ENST00000557332	protein_coding	KNOWN	None	20122	2755	917	104436934	104519002	1	C14orf75	DKFZp434N0820, FLJ36164, NET54
14	TDRD9	ENSG00000156414	ENST00000466378	retained_intron	KNOWN	None	20122	None	None	104471493	104473517	1	C14orf75	DKFZp434N0820, FLJ36164, NET54
14	TDRD9	ENSG00000156414	ENST00000462273	retained_intron	KNOWN	None	20122	None	None	104515755	104519002	1	C14orf75	DKFZp434N0820, FLJ36164, NET54
14	TDRD9	ENSG00000156414	ENST00000481318	retained_intron	KNOWN	None	20122	None	None	104515762	104518618	1	C14orf75	DKFZp434N0820, FLJ36164, NET54
14	TDRD9	ENSG00000156414	ENST00000339063	protein_coding	KNOWN	None	20122	3576	1191	104394817	104519002	1	C14orf75	DKFZp434N0820, FLJ36164, NET54
12	None	ENSG00000255944	ENST00000541769	lincRNA	KNOWN	None	None	None	None	127112718	127174868	-1	None	None
6	RSL24D1P1	ENSG00000218069	ENST00000404972	processed_pseudogene	KNOWN	None	13979	None	None	27748398	27748890	-1	RPL30BP, RSL24D1P	RPL24p, dJ97D16.2
1	None	ENSG00000226545	ENST00000445254	unprocessed_pseudogene	KNOWN	None	None	None	None	8858534	8859565	1	None	None
5	HSPA9	ENSG00000113013	ENST00000297185	protein_coding	KNOWN	CCDS4208	5244	2040	679	137890571	137911133	-1	HSPA9B	GRP75, PBP74, mot-2, mthsp75
5	HSPA9	ENSG00000113013	ENST00000501917	processed_transcript	KNOWN	None	5244	None	None	137891049	137902407	-1	HSPA9B	GRP75, PBP74, mot-2, mthsp75
5	HSPA9	ENSG00000113013	ENST00000524109	retained_intron	KNOWN	None	5244	None	None	137891516	137893580	-1	HSPA9B	GRP75, PBP74, mot-2, mthsp75
5	HSPA9	ENSG00000113013	ENST00000512328	nonsense_mediated_decay	KNOWN	None	5244	307	101	137891736	137894320	-1	HSPA9B	GRP75, PBP74, mot-2, mthsp75
5	HSPA9	ENSG00000113013	ENST00000507097	retained_intron	KNOWN	None	5244	None	None	137893031	137911090	-1	HSPA9B	GRP75, PBP74, mot-2, mthsp75
5	HSPA9	ENSG00000113013	ENST00000523929	nonsense_mediated_decay	KNOWN	None	5244	491	162	137894242	137902400	-1	HSPA9B	GRP75, PBP74, mot-2, mthsp75
5	HSPA9	ENSG00000113013	ENST00000508003	retained_intron	KNOWN	None	5244	None	None	137895409	137897478	-1	HSPA9B	GRP75, PBP74, mot-2, mthsp75
5	HSPA9	ENSG00000113013	ENST00000504902	nonsense_mediated_decay	KNOWN	None	5244	301	99	137902690	137911029	-1	HSPA9B	GRP75, PBP74, mot-2, mthsp75
5	HSPA9	ENSG00000113013	ENST00000507115	nonsense_mediated_decay	KNOWN	None	5244	129	42	137904614	137911092	-1	HSPA9B	GRP75, PBP74, mot-2, mthsp75
5	HSPA9	ENSG00000113013	ENST00000505110	nonsense_mediated_decay	KNOWN	None	5244	117	38	137904655	137911090	-1	HSPA9B	GRP75, PBP74, mot-2, mthsp75
5	HSPA9	ENSG00000113013	ENST00000504810	protein_coding	PUTATIVE	None	5244	285	94	137904657	137910855	-1	HSPA9B	GRP75, PBP74, mot-2, mthsp75
5	HSPA9	ENSG00000113013	ENST00000506477	retained_intron	KNOWN	None	5244	None	None	137906488	137911100	-1	HSPA9B	GRP75, PBP74, mot-2, mthsp75
5	HSPA9	ENSG00000113013	ENST00000507886	protein_coding	PUTATIVE	None	5244	186	61	137906666	137910698	-1	HSPA9B	GRP75, PBP74, mot-2, mthsp75
15	RPL9P8	ENSG00000230903	ENST00000467036	processed_pseudogene	KNOWN	None	30334	None	None	83041055	83041633	-1	None	None
15	RPL9P8	ENSG00000230903	ENST00000602071	processed_pseudogene	KNOWN	None	30334	None	None	83041000	83125316	-1	None	None
15	None	ENSG00000223271	ENST00000411339	misc_RNA	NOVEL	None	None	None	None	66640614	66640713	1	None	None
7	TRBV5-5	ENSG00000211725	ENST00000390372	TR_V_gene	KNOWN	None	12222	343	113	142148928	142149399	-1	None	TRBV55, TCRBV5S3A2T, TCRBV5S5
4	RNU7-197P	ENSG00000239168	ENST00000458836	snRNA	KNOWN	None	45731	None	None	149912724	149912785	-1	None	None
17	RPS16P8	ENSG00000213664	ENST00000479473	processed_pseudogene	KNOWN	None	35608	None	None	25607508	25607938	1	None	None
14	SNORD114-26	ENSG00000200413	ENST00000363543	snoRNA	KNOWN	None	33014	None	None	101453383	101453454	1	None	14q(II-26)
4	None	ENSG00000249752	ENST00000507849	lincRNA	KNOWN	None	None	None	None	149948597	149983674	-1	None	None
6	HIST1H4PS1	ENSG00000217862	ENST00000406085	processed_pseudogene	KNOWN	None	4786	None	None	27774853	27775117	1	H4FFP	pH4/f, dJ97D16.3
12	None	ENSG00000255998	ENST00000544711	lincRNA	KNOWN	None	None	None	None	127175025	127176464	1	None	None
12	None	ENSG00000255998	ENST00000545535	lincRNA	KNOWN	None	None	None	None	127175027	127180378	1	None	None
19	VN1R88P	ENSG00000268541	ENST00000596787	unprocessed_pseudogene	KNOWN	None	37408	None	None	23044105	23044396	1	None	None
15	RPL9P25	ENSG00000240821	ENST00000489563	processed_pseudogene	KNOWN	None	36112	None	None	66671675	66672253	-1	None	None
6	None	ENSG00000215094	ENST00000399570	processed_pseudogene	KNOWN	None	None	None	None	150272969	150273375	1	None	None
4	None	ENSG00000250252	ENST00000504755	lincRNA	KNOWN	None	None	None	None	150068954	150070932	-1	None	None
19	None	ENSG00000268296	ENST00000600673	lincRNA	KNOWN	None	None	None	None	23089888	23097091	-1	None	None
9	None	ENSG00000223421	ENST00000455940	processed_pseudogene	KNOWN	None	None	None	None	31165616	31166978	-1	None	None
6	None	ENSG00000219298	ENST00000406262	processed_pseudogene	KNOWN	None	None	None	None	150298607	150300241	1	None	None
14	SNORD114-27	ENSG00000200636	ENST00000363766	snoRNA	KNOWN	None	33015	None	None	101454498	101454567	1	None	14q(II-27)
17	None	ENSG00000265453	ENST00000584490	processed_pseudogene	KNOWN	None	None	None	None	25608120	25608441	1	None	None
9	SLC25A6P2	ENSG00000232203	ENST00000497974	processed_pseudogene	KNOWN	None	43850	None	None	31253899	31254775	1	None	None
X	MIR1468	ENSG00000222532	ENST00000410600	miRNA	KNOWN	None	35250	None	None	63005882	63005967	-1	MIRN1468	hsa-mir-1468
10	PLAU	ENSG00000122861	ENST00000481390	protein_coding	KNOWN	None	9052	319	105	75668935	75672807	1	None	URK, UPA
10	PLAU	ENSG00000122861	ENST00000496926	processed_transcript	KNOWN	None	9052	None	None	75670363	75671297	1	None	URK, UPA
10	PLAU	ENSG00000122861	ENST00000494287	processed_transcript	KNOWN	None	9052	None	None	75670905	75673511	1	None	URK, UPA
10	PLAU	ENSG00000122861	ENST00000372764	protein_coding	KNOWN	CCDS7339	9052	1296	431	75670915	75677255	1	None	URK, UPA
10	PLAU	ENSG00000122861	ENST00000372762	protein_coding	KNOWN	None	9052	1188	395	75670916	75677254	1	None	URK, UPA
10	PLAU	ENSG00000122861	ENST00000446342	protein_coding	KNOWN	CCDS44442	9052	1245	414	75670862	75677254	1	None	URK, UPA
6	CCDC162P	ENSG00000203799	ENST00000514758	processed_transcript	KNOWN	None	21565	None	None	109612231	109619832	1	C6orf184, C6orf185, CCDC162	bA425D10.7, bA425D10.3
6	CCDC162P	ENSG00000203799	ENST00000422819	processed_transcript	KNOWN	None	21565	None	None	109615506	109629423	1	C6orf184, C6orf185, CCDC162	bA425D10.7, bA425D10.3
6	CCDC162P	ENSG00000203799	ENST00000429614	processed_transcript	KNOWN	None	21565	None	None	109615506	109629423	1	C6orf184, C6orf185, CCDC162	bA425D10.7, bA425D10.3
6	CCDC162P	ENSG00000203799	ENST00000368966	unitary_pseudogene	KNOWN	None	21565	None	None	109615512	109676266	1	C6orf184, C6orf185, CCDC162	bA425D10.7, bA425D10.3
6	CCDC162P	ENSG00000203799	ENST00000508210	processed_transcript	KNOWN	None	21565	None	None	109630473	109635398	1	C6orf184, C6orf185, CCDC162	bA425D10.7, bA425D10.3
6	CCDC162P	ENSG00000203799	ENST00000506861	processed_transcript	KNOWN	None	21565	None	None	109630510	109657620	1	C6orf184, C6orf185, CCDC162	bA425D10.7, bA425D10.3
6	CCDC162P	ENSG00000203799	ENST00000473454	processed_transcript	KNOWN	None	21565	None	None	109665190	109676266	1	C6orf184, C6orf185, CCDC162	bA425D10.7, bA425D10.3
6	CCDC162P	ENSG00000203799	ENST00000440451	processed_transcript	KNOWN	None	21565	None	None	109665203	109676244	1	C6orf184, C6orf185, CCDC162	bA425D10.7, bA425D10.3
6	CCDC162P	ENSG00000203799	ENST00000368965	unitary_pseudogene	KNOWN	None	21565	None	None	109659678	109676176	1	C6orf184, C6orf185, CCDC162	bA425D10.7, bA425D10.3
3	MIR4797	ENSG00000265850	ENST00000577559	miRNA	KNOWN	None	41758	None	None	197020749	197020819	-1	None	hsa-mir-4797
Y	None	ENSG00000252664	ENST00000516855	miRNA	NOVEL	None	None	None	None	18174646	18174709	1	None	None
2	LYG2	ENSG00000185674	ENST00000409238	protein_coding	KNOWN	CCDS2042	29615	639	212	99858709	99870744	-1	None	LYGH
2	LYG2	ENSG00000185674	ENST00000423800	nonsense_mediated_decay	KNOWN	None	29615	537	178	99858782	99870744	-1	None	LYGH
2	LYG2	ENSG00000185674	ENST00000409679	protein_coding	PUTATIVE	None	29615	549	182	99860249	99871602	-1	None	LYGH
2	LYG2	ENSG00000185674	ENST00000423306	protein_coding	KNOWN	None	29615	509	168	99860473	99871745	-1	None	LYGH
2	LYG2	ENSG00000185674	ENST00000333017	protein_coding	KNOWN	CCDS2042	29615	639	212	99858717	99871570	-1	None	LYGH
4	None	ENSG00000248210	ENST00000503100	lincRNA	KNOWN	None	None	None	None	150075447	150199275	1	None	None
9	None	ENSG00000260720	ENST00000562065	lincRNA	KNOWN	None	None	None	None	31371609	31381488	-1	None	None
7	TRBV6-6	ENSG00000211724	ENST00000390371	TR_V_gene	KNOWN	None	12231	344	113	142161931	142162407	-1	None	TRBV66, TCRBV13S6A2T, TCRBV6S6
17	MIR4522	ENSG00000263583	ENST00000584932	lincRNA	KNOWN	None	41668	None	None	25620936	25621022	-1	None	hsa-mir-4522
Y	None	ENSG00000252689	ENST00000516880	snoRNA	NOVEL	None	None	None	None	18250128	18250259	-1	None	None
X	HNRNPDP1	ENSG00000232794	ENST00000439535	processed_pseudogene	KNOWN	None	5038	None	None	63264185	63264938	1	HNRPDP, HNRNPDP	AUF1B, AUF1P
Y	RNU6-109P	ENSG00000252173	ENST00000516364	snRNA	KNOWN	None	47072	None	None	18360815	18360921	1	None	None
17	None	ENSG00000264469	ENST00000578929	lincRNA	KNOWN	None	None	None	None	25641669	25642952	1	None	None
Y	None	ENSG00000265197	ENST00000584045	miRNA	NOVEL	None	None	None	None	18398127	18398238	-1	None	None
1	GBP7	ENSG00000213512	ENST00000294671	protein_coding	KNOWN	CCDS720	29606	1917	638	89597434	89641723	-1	None	FLJ38822, GBP4L
19	None	ENSG00000269458	ENST00000598203	unprocessed_pseudogene	KNOWN	None	None	None	None	23108179	23108349	1	None	None
6	TBC1D7	ENSG00000145979	ENST00000606214	protein_coding	NOVEL	CCDS4523	21066	882	293	13266774	13327144	-1	None	dJ257A7.3, FLJ32666
6	TBC1D7	ENSG00000145979	ENST00000421203	nonsense_mediated_decay	KNOWN	None	21066	540	179	13275081	13328776	-1	None	dJ257A7.3, FLJ32666
6	TBC1D7	ENSG00000145979	ENST00000356436	protein_coding	KNOWN	CCDS4523	21066	882	293	13305183	13328763	-1	None	dJ257A7.3, FLJ32666
6	TBC1D7	ENSG00000145979	ENST00000379300	protein_coding	KNOWN	CCDS4523	21066	882	293	13305183	13328763	-1	None	dJ257A7.3, FLJ32666
6	TBC1D7	ENSG00000145979	ENST00000607658	protein_coding	NOVEL	None	21066	600	199	13305850	13328690	-1	None	dJ257A7.3, FLJ32666
6	TBC1D7	ENSG00000145979	ENST00000452989	protein_coding	KNOWN	None	21066	714	237	13306630	13328763	-1	None	dJ257A7.3, FLJ32666
6	TBC1D7	ENSG00000145979	ENST00000450347	protein_coding	KNOWN	None	21066	714	237	13306630	13328763	-1	None	dJ257A7.3, FLJ32666
6	TBC1D7	ENSG00000145979	ENST00000422136	protein_coding	KNOWN	None	21066	748	248	13306677	13328763	-1	None	dJ257A7.3, FLJ32666
6	TBC1D7	ENSG00000145979	ENST00000446018	protein_coding	KNOWN	None	21066	621	206	13306723	13328763	-1	None	dJ257A7.3, FLJ32666
6	TBC1D7	ENSG00000145979	ENST00000607532	processed_transcript	KNOWN	None	21066	None	None	13306877	13328776	-1	None	dJ257A7.3, FLJ32666
6	TBC1D7	ENSG00000145979	ENST00000420456	protein_coding	KNOWN	None	21066	584	193	13307832	13328050	-1	None	dJ257A7.3, FLJ32666
6	TBC1D7	ENSG00000145979	ENST00000607208	processed_transcript	KNOWN	None	21066	None	None	13307946	13321213	-1	None	dJ257A7.3, FLJ32666
6	TBC1D7	ENSG00000145979	ENST00000428109	protein_coding	KNOWN	None	21066	469	155	13316853	13328362	-1	None	dJ257A7.3, FLJ32666
6	TBC1D7	ENSG00000145979	ENST00000416436	protein_coding	KNOWN	None	21066	408	135	13316914	13328362	-1	None	dJ257A7.3, FLJ32666
6	TBC1D7	ENSG00000145979	ENST00000379291	protein_coding	KNOWN	None	21066	392	129	13316930	13328763	-1	None	dJ257A7.3, FLJ32666
6	TBC1D7	ENSG00000145979	ENST00000606370	protein_coding	NOVEL	None	21066	495	164	13318950	13328787	-1	None	dJ257A7.3, FLJ32666
6	TBC1D7	ENSG00000145979	ENST00000606541	protein_coding	NOVEL	None	21066	457	151	13321064	13327144	-1	None	dJ257A7.3, FLJ32666
6	TBC1D7	ENSG00000145979	ENST00000607230	protein_coding	KNOWN	None	21066	261	86	13323943	13328815	-1	None	dJ257A7.3, FLJ32666
6	TBC1D7	ENSG00000145979	ENST00000606530	protein_coding	NOVEL	None	21066	61	19	13327070	13328564	-1	None	dJ257A7.3, FLJ32666
6	TBC1D7	ENSG00000145979	ENST00000379307	protein_coding	KNOWN	CCDS47376	21066	801	266	13305186	13328776	-1	None	dJ257A7.3, FLJ32666
6	TBC1D7	ENSG00000145979	ENST00000343141	protein_coding	KNOWN	CCDS58995	21066	744	247	13305309	13328737	-1	None	dJ257A7.3, FLJ32666
Y	RNU6-184P	ENSG00000252323	ENST00000516514	snRNA	KNOWN	None	47147	None	None	18448163	18448269	-1	None	None
HG1304_PATCH	LAMA4	ENSG00000263699	ENST00000579568	protein_coding	KNOWN	None	6484	5451	1816	112430063	112575913	-1	None	LAMA3
HG1304_PATCH	LAMA4	ENSG00000263699	ENST00000578058	protein_coding	KNOWN	None	6484	5451	1816	112430332	112575802	-1	None	LAMA3
HG1304_PATCH	LAMA4	ENSG00000263699	ENST00000584825	protein_coding	KNOWN	None	6484	5472	1823	112430335	112575769	-1	None	LAMA3
HG1304_PATCH	LAMA4	ENSG00000263699	ENST00000578144	protein_coding	KNOWN	None	6484	5451	1816	112430496	112575740	-1	None	LAMA3
HG1304_PATCH	LAMA4	ENSG00000263699	ENST00000604026	retained_intron	KNOWN	None	6484	None	None	112442978	112451190	-1	None	LAMA3
HG1304_PATCH	LAMA4	ENSG00000263699	ENST00000579252	retained_intron	KNOWN	None	6484	None	None	112443264	112451361	-1	None	LAMA3
HG1304_PATCH	LAMA4	ENSG00000263699	ENST00000584093	retained_intron	KNOWN	None	6484	None	None	112457027	112460478	-1	None	LAMA3
HG1304_PATCH	LAMA4	ENSG00000263699	ENST00000577340	nonsense_mediated_decay	KNOWN	None	6484	561	186	112463346	112480082	-1	None	LAMA3
HG1304_PATCH	LAMA4	ENSG00000263699	ENST00000582424	retained_intron	KNOWN	None	6484	None	None	112492832	112500704	-1	None	LAMA3
HG1304_PATCH	LAMA4	ENSG00000263699	ENST00000577236	protein_coding	PUTATIVE	None	6484	562	186	112500937	112513013	-1	None	LAMA3
HG1304_PATCH	LAMA4	ENSG00000263699	ENST00000580656	protein_coding	PUTATIVE	None	6484	536	177	112500968	112512966	-1	None	LAMA3
HG1304_PATCH	LAMA4	ENSG00000263699	ENST00000579010	protein_coding	KNOWN	None	6484	995	330	112506521	112575687	-1	None	LAMA3
HG1304_PATCH	LAMA4	ENSG00000263699	ENST00000582273	retained_intron	KNOWN	None	6484	None	None	112510094	112513003	-1	None	LAMA3
HG1304_PATCH	LAMA4	ENSG00000263699	ENST00000584257	processed_transcript	KNOWN	None	6484	None	None	112512921	112537956	-1	None	LAMA3
HG1304_PATCH	LAMA4	ENSG00000263699	ENST00000584152	processed_transcript	KNOWN	None	6484	None	None	112521335	112537651	-1	None	LAMA3
HG1304_PATCH	LAMA4	ENSG00000263699	ENST00000582024	protein_coding	KNOWN	None	6484	320	105	112528325	112575924	-1	None	LAMA3
HG1304_PATCH	LAMA4	ENSG00000263699	ENST00000580457	protein_coding	PUTATIVE	None	6484	390	129	112534745	112575913	-1	None	LAMA3
HG1304_PATCH	LAMA4	ENSG00000263699	ENST00000583235	protein_coding	KNOWN	None	6484	263	86	112537604	112575740	-1	None	LAMA3
HG1304_PATCH	LAMA4	ENSG00000263699	ENST00000579840	protein_coding	KNOWN	None	6484	244	80	112537623	112576141	-1	None	LAMA3
HG1304_PATCH	LAMA4	ENSG00000263699	ENST00000584945	protein_coding	KNOWN	None	6484	363	120	112574986	112575780	-1	None	LAMA3
HG1304_PATCH	LAMA4	ENSG00000263699	ENST00000584877	protein_coding	KNOWN	None	6484	363	120	112574987	112575731	-1	None	LAMA3
HG1304_PATCH	LAMA4	ENSG00000263699	ENST00000578470	protein_coding	KNOWN	None	6484	361	119	112574992	112575849	-1	None	LAMA3
12	LINC00943	ENSG00000189238	ENST00000537374	lincRNA	KNOWN	None	48639	None	None	127210816	127229872	1	None	None
12	LINC00943	ENSG00000189238	ENST00000541359	lincRNA	KNOWN	None	48639	None	None	127211108	127227590	1	None	None
12	LINC00943	ENSG00000189238	ENST00000539315	lincRNA	KNOWN	None	48639	None	None	127211146	127230074	1	None	None
12	LINC00943	ENSG00000189238	ENST00000535118	lincRNA	KNOWN	None	48639	None	None	127221553	127227563	1	None	None
12	LINC00943	ENSG00000189238	ENST00000535544	lincRNA	KNOWN	None	48639	None	None	127226211	127230798	1	None	None
12	LINC00943	ENSG00000189238	ENST00000345111	lincRNA	KNOWN	None	48639	None	None	127227282	127230782	1	None	None
12	LINC00943	ENSG00000189238	ENST00000540250	lincRNA	KNOWN	None	48639	None	None	127227283	127229878	1	None	None
9	NIPSNAP3B	ENSG00000165028	ENST00000460936	nonsense_mediated_decay	KNOWN	None	23641	594	197	107526438	107539738	1	None	FLJ11275
9	NIPSNAP3B	ENSG00000165028	ENST00000374762	protein_coding	KNOWN	CCDS6761	23641	744	247	107526451	107536291	1	None	FLJ11275
9	NIPSNAP3B	ENSG00000165028	ENST00000461177	processed_transcript	KNOWN	None	23641	None	None	107526476	107535427	1	None	FLJ11275
19	None	ENSG00000271661	ENST00000603076	processed_pseudogene	KNOWN	None	None	None	None	23177770	23178649	1	None	None
3	P2RY14	ENSG00000174944	ENST00000309170	protein_coding	KNOWN	CCDS3156	16442	1017	338	150929905	150996255	-1	GPR105	KIAA0001
3	P2RY14	ENSG00000174944	ENST00000424796	protein_coding	KNOWN	CCDS3156	16442	1017	338	150930707	150966902	-1	GPR105	KIAA0001
3	P2RY14	ENSG00000174944	ENST00000494668	protein_coding	KNOWN	None	16442	287	94	150931818	150996157	-1	GPR105	KIAA0001
Y	SURF6P1	ENSG00000228518	ENST00000451854	processed_pseudogene	KNOWN	None	37722	None	None	19304706	19305532	1	None	None
7	TMEM120A	ENSG00000189077	ENST00000338761	processed_transcript	KNOWN	None	21697	None	None	75616155	75623977	-1	None	TMPIT, NET29
7	TMEM120A	ENSG00000189077	ENST00000417509	processed_transcript	KNOWN	None	21697	None	None	75616301	75623934	-1	None	TMPIT, NET29
7	TMEM120A	ENSG00000189077	ENST00000484946	retained_intron	KNOWN	None	21697	None	None	75616303	75616986	-1	None	TMPIT, NET29
7	TMEM120A	ENSG00000189077	ENST00000490656	processed_transcript	KNOWN	None	21697	None	None	75616303	75617638	-1	None	TMPIT, NET29
7	TMEM120A	ENSG00000189077	ENST00000439537	processed_transcript	KNOWN	None	21697	None	None	75616303	75623892	-1	None	TMPIT, NET29
7	TMEM120A	ENSG00000189077	ENST00000493251	processed_transcript	KNOWN	None	21697	None	None	75616307	75617529	-1	None	TMPIT, NET29
7	TMEM120A	ENSG00000189077	ENST00000460127	retained_intron	KNOWN	None	21697	None	None	75616310	75616853	-1	None	TMPIT, NET29
7	TMEM120A	ENSG00000189077	ENST00000440632	processed_transcript	KNOWN	None	21697	None	None	75616359	75623974	-1	None	TMPIT, NET29
7	TMEM120A	ENSG00000189077	ENST00000480899	retained_intron	KNOWN	None	21697	None	None	75616468	75617834	-1	None	TMPIT, NET29
7	TMEM120A	ENSG00000189077	ENST00000493111	polymorphic_pseudogene	KNOWN	None	21697	1032	343	75616490	75623888	-1	None	TMPIT, NET29
7	TMEM120A	ENSG00000189077	ENST00000465989	retained_intron	KNOWN	None	21697	None	None	75616760	75617296	-1	None	TMPIT, NET29
7	TMEM120A	ENSG00000189077	ENST00000431867	processed_transcript	KNOWN	None	21697	None	None	75616860	75623874	-1	None	TMPIT, NET29
7	TMEM120A	ENSG00000189077	ENST00000465494	retained_intron	KNOWN	None	21697	None	None	75617245	75621600	-1	None	TMPIT, NET29
7	TMEM120A	ENSG00000189077	ENST00000480538	retained_intron	KNOWN	None	21697	None	None	75617354	75621845	-1	None	TMPIT, NET29
7	TMEM120A	ENSG00000189077	ENST00000485200	processed_transcript	KNOWN	None	21697	None	None	75617448	75623956	-1	None	TMPIT, NET29
7	TMEM120A	ENSG00000189077	ENST00000486865	retained_intron	KNOWN	None	21697	None	None	75617521	75617905	-1	None	TMPIT, NET29
7	TMEM120A	ENSG00000189077	ENST00000485581	processed_transcript	KNOWN	None	21697	None	None	75618476	75623970	-1	None	TMPIT, NET29
17	SPNS3	ENSG00000182557	ENST00000355530	protein_coding	KNOWN	CCDS11045	28433	1539	512	4336983	4391503	1	None	MGC29671
17	SPNS3	ENSG00000182557	ENST00000576069	processed_transcript	KNOWN	None	28433	None	None	4337252	4356500	1	None	MGC29671
17	SPNS3	ENSG00000182557	ENST00000575194	nonsense_mediated_decay	KNOWN	None	28433	609	202	4337258	4391503	1	None	MGC29671
17	SPNS3	ENSG00000182557	ENST00000572078	retained_intron	KNOWN	None	28433	None	None	4348271	4351500	1	None	MGC29671
17	SPNS3	ENSG00000182557	ENST00000575185	retained_intron	KNOWN	None	28433	None	None	4349899	4351586	1	None	MGC29671
17	SPNS3	ENSG00000182557	ENST00000575796	processed_transcript	KNOWN	None	28433	None	None	4388312	4391157	1	None	MGC29671
17	SPNS3	ENSG00000182557	ENST00000333476	protein_coding	KNOWN	None	28433	1158	385	4337219	4391498	1	None	MGC29671
17	None	ENSG00000266313	ENST00000581118	lincRNA	KNOWN	None	None	None	None	25660282	25675517	1	None	None
7	TRBV5-4	ENSG00000230099	ENST00000454561	TR_V_gene	KNOWN	None	12221	343	113	142168380	142169045	-1	None	TRBV54, TCRBV5S4, TCRBV5S6A3N2T
Y	None	ENSG00000271595	ENST00000604289	processed_pseudogene	KNOWN	None	None	None	None	19576759	19577094	-1	None	None
8	None	ENSG00000250031	ENST00000510501	processed_pseudogene	KNOWN	None	None	None	None	59337147	59339244	-1	None	None
20	MACROD2-IT1	ENSG00000227927	ENST00000448536	sense_intronic	KNOWN	None	16201	None	None	14535030	14609554	1	C20orf68, NCRNA00227	bA467D7.4
20	MACROD2-IT1	ENSG00000227927	ENST00000605675	sense_intronic	KNOWN	None	16201	None	None	14607559	14617170	1	C20orf68, NCRNA00227	bA467D7.4
17	None	ENSG00000265683	ENST00000582878	processed_pseudogene	KNOWN	None	None	None	None	25678884	25679610	-1	None	None
Y	FAM41AY1	ENSG00000224989	ENST00000421205	lincRNA	KNOWN	None	23955	None	None	19612838	19626898	1	FAM41AY	None
4	None	ENSG00000234828	ENST00000506683	lincRNA	KNOWN	None	None	None	None	150273169	150474333	-1	None	None
4	None	ENSG00000234828	ENST00000511993	lincRNA	KNOWN	None	None	None	None	150351084	150736980	-1	None	None
4	None	ENSG00000234828	ENST00000508106	lincRNA	KNOWN	None	None	None	None	150509142	150817385	-1	None	None
4	None	ENSG00000234828	ENST00000502345	lincRNA	KNOWN	None	None	None	None	150654493	150736966	-1	None	None
4	None	ENSG00000234828	ENST00000510975	lincRNA	KNOWN	None	None	None	None	150658766	150736966	-1	None	None
4	H2AFZ	ENSG00000164032	ENST00000511348	retained_intron	KNOWN	None	4741	None	None	100869243	100871512	-1	H2AZ	H2A.Z
4	H2AFZ	ENSG00000164032	ENST00000511203	retained_intron	KNOWN	None	4741	None	None	100869245	100871456	-1	H2AZ	H2A.Z
4	H2AFZ	ENSG00000164032	ENST00000296417	protein_coding	KNOWN	CCDS3654	4741	387	128	100869245	100871545	-1	H2AZ	H2A.Z
4	H2AFZ	ENSG00000164032	ENST00000511319	retained_intron	KNOWN	None	4741	None	None	100869277	100871425	-1	H2AZ	H2A.Z
4	H2AFZ	ENSG00000164032	ENST00000529158	processed_transcript	KNOWN	None	4741	None	None	100869329	100871456	-1	H2AZ	H2A.Z
4	H2AFZ	ENSG00000164032	ENST00000527366	retained_intron	KNOWN	None	4741	None	None	100869935	100871411	-1	H2AZ	H2A.Z
20	FAM83D	ENSG00000101447	ENST00000217429	protein_coding	KNOWN	CCDS42872	16122	1848	615	37554955	37581703	1	C20orf129	dJ616B8.3
3	ACTL6A	ENSG00000136518	ENST00000429709	protein_coding	KNOWN	CCDS3231	24124	1290	429	179280668	179306196	1	None	Actl6, BAF53A, Arp4, Baf53a, INO80K
3	ACTL6A	ENSG00000136518	ENST00000450518	protein_coding	KNOWN	CCDS43174	24124	1164	387	179280674	179306195	1	None	Actl6, BAF53A, Arp4, Baf53a, INO80K
3	ACTL6A	ENSG00000136518	ENST00000491202	retained_intron	KNOWN	None	24124	None	None	179280711	179288179	1	None	Actl6, BAF53A, Arp4, Baf53a, INO80K
3	ACTL6A	ENSG00000136518	ENST00000468767	processed_transcript	KNOWN	None	24124	None	None	179280711	179293276	1	None	Actl6, BAF53A, Arp4, Baf53a, INO80K
3	ACTL6A	ENSG00000136518	ENST00000494843	retained_intron	KNOWN	None	24124	None	None	179280718	179292351	1	None	Actl6, BAF53A, Arp4, Baf53a, INO80K
3	ACTL6A	ENSG00000136518	ENST00000490364	protein_coding	KNOWN	None	24124	151	49	179280747	179288029	1	None	Actl6, BAF53A, Arp4, Baf53a, INO80K
3	ACTL6A	ENSG00000136518	ENST00000487978	nonsense_mediated_decay	KNOWN	None	24124	485	160	179287603	179298489	1	None	Actl6, BAF53A, Arp4, Baf53a, INO80K
3	ACTL6A	ENSG00000136518	ENST00000486471	retained_intron	KNOWN	None	24124	None	None	179291022	179292998	1	None	Actl6, BAF53A, Arp4, Baf53a, INO80K
3	ACTL6A	ENSG00000136518	ENST00000467383	retained_intron	KNOWN	None	24124	None	None	179292141	179294063	1	None	Actl6, BAF53A, Arp4, Baf53a, INO80K
3	ACTL6A	ENSG00000136518	ENST00000467615	processed_transcript	KNOWN	None	24124	None	None	179292798	179298796	1	None	Actl6, BAF53A, Arp4, Baf53a, INO80K
3	ACTL6A	ENSG00000136518	ENST00000479056	retained_intron	KNOWN	None	24124	None	None	179294164	179298743	1	None	Actl6, BAF53A, Arp4, Baf53a, INO80K
3	ACTL6A	ENSG00000136518	ENST00000484312	retained_intron	KNOWN	None	24124	None	None	179298952	179304496	1	None	Actl6, BAF53A, Arp4, Baf53a, INO80K
3	ACTL6A	ENSG00000136518	ENST00000461125	retained_intron	KNOWN	None	24124	None	None	179304276	179306029	1	None	Actl6, BAF53A, Arp4, Baf53a, INO80K
3	ACTL6A	ENSG00000136518	ENST00000392662	protein_coding	KNOWN	CCDS43174	24124	1164	387	179280708	179306186	1	None	Actl6, BAF53A, Arp4, Baf53a, INO80K
7	TRBV7-4	ENSG00000253409	ENST00000390369	TR_V_gene	KNOWN	None	12238	347	114	142176329	142176790	-1	None	TRBV74, TCRBV6S8A2T, TCRBV7S4
6	IL17A	ENSG00000112115	ENST00000340057	protein_coding	KNOWN	CCDS4937	5981	468	155	52051185	52055436	1	CTLA8, IL17	IL-17A, IL-17
17	None	ENSG00000266356	ENST00000577519	unprocessed_pseudogene	KNOWN	None	None	None	None	25738464	25739832	-1	None	None
15	RNU6-1287P	ENSG00000199784	ENST00000362914	snRNA	KNOWN	None	48250	None	None	56566728	56566834	-1	None	None
19	None	ENSG00000261558	ENST00000565584	lincRNA	KNOWN	None	None	None	None	23197877	23206499	-1	None	None
15	None	ENSG00000261174	ENST00000563485	processed_pseudogene	KNOWN	None	None	None	None	56615391	56615917	1	None	None
19	None	ENSG00000261615	ENST00000593985	lincRNA	KNOWN	None	None	None	None	23229760	23244554	-1	None	None
19	None	ENSG00000261615	ENST00000564534	lincRNA	KNOWN	None	None	None	None	23237625	23244067	-1	None	None
X	CD40LG	ENSG00000102245	ENST00000370629	protein_coding	KNOWN	CCDS14659	11935	786	261	135730352	135742549	1	HIGM1, IMD3, TNFSF5	CD40L, TRAP, gp39, hCD40L, CD154
X	CD40LG	ENSG00000102245	ENST00000370628	protein_coding	KNOWN	None	11935	723	240	135730386	135742549	1	HIGM1, IMD3, TNFSF5	CD40L, TRAP, gp39, hCD40L, CD154
8	None	ENSG00000254103	ENST00000520812	processed_pseudogene	KNOWN	None	None	None	None	59416147	59416627	1	None	None
15	None	ENSG00000187812	ENST00000395215	processed_transcript	KNOWN	None	None	None	None	76067894	76075544	1	None	None
15	None	ENSG00000187812	ENST00000566174	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	76067935	76079239	1	None	None
16	LPCAT2	ENSG00000087253	ENST00000262134	protein_coding	KNOWN	CCDS10753	26032	1635	544	55542910	55620582	1	AYTL1	FLJ20481
16	LPCAT2	ENSG00000087253	ENST00000566911	retained_intron	KNOWN	None	26032	None	None	55542984	55559970	1	AYTL1	FLJ20481
16	LPCAT2	ENSG00000087253	ENST00000564084	protein_coding	PUTATIVE	None	26032	566	187	55562405	55575940	1	AYTL1	FLJ20481
16	LPCAT2	ENSG00000087253	ENST00000566915	retained_intron	KNOWN	None	26032	None	None	55565951	55620578	1	AYTL1	FLJ20481
16	LPCAT2	ENSG00000087253	ENST00000563095	retained_intron	KNOWN	None	26032	None	None	55579397	55608641	1	AYTL1	FLJ20481
16	LPCAT2	ENSG00000087253	ENST00000566375	retained_intron	KNOWN	None	26032	None	None	55583218	55585245	1	AYTL1	FLJ20481
16	LPCAT2	ENSG00000087253	ENST00000565056	processed_transcript	KNOWN	None	26032	None	None	55590835	55616924	1	AYTL1	FLJ20481
16	LPCAT2	ENSG00000087253	ENST00000562299	retained_intron	KNOWN	None	26032	None	None	55612930	55617149	1	AYTL1	FLJ20481
8	None	ENSG00000242970	ENST00000482895	processed_pseudogene	KNOWN	None	None	None	None	59500979	59501323	-1	None	None
14	FAM181A	ENSG00000140067	ENST00000557719	protein_coding	KNOWN	CCDS55939	20491	879	292	94385240	94395515	1	C14orf152	None
14	FAM181A	ENSG00000140067	ENST00000267594	protein_coding	KNOWN	CCDS9914	20491	1065	354	94385258	94395954	1	C14orf152	None
14	FAM181A	ENSG00000140067	ENST00000556222	protein_coding	KNOWN	CCDS55939	20491	879	292	94393605	94395510	1	C14orf152	None
14	FAM181A	ENSG00000140067	ENST00000554404	protein_coding	KNOWN	None	20491	697	231	94393688	94395328	1	C14orf152	None
14	FAM181A	ENSG00000140067	ENST00000557000	protein_coding	KNOWN	CCDS55939	20491	879	292	94393731	94395954	1	C14orf152	None
7	TRBV6-5	ENSG00000211721	ENST00000390368	TR_V_gene	KNOWN	None	12230	344	113	142180515	142181016	-1	None	TRBV65, TCRBV13S1, TCRBV6S5
7	None	ENSG00000226329	ENST00000452069	unprocessed_pseudogene	KNOWN	None	None	None	None	22903493	22920969	-1	None	None
17	TBC1D3P5	ENSG00000266433	ENST00000581469	processed_transcript	KNOWN	None	43567	None	None	25744716	25757216	1	None	None
17	TBC1D3P5	ENSG00000266433	ENST00000586223	processed_transcript	KNOWN	None	43567	None	None	25745031	25758649	1	None	None
17	TBC1D3P5	ENSG00000266433	ENST00000579401	transcribed_unprocessed_pseudogene	KNOWN	None	43567	None	None	25746564	25758327	1	None	None
9	TMEM245	ENSG00000106771	ENST00000374586	protein_coding	KNOWN	CCDS43858	1363	2640	879	111777432	111882225	-1	C9orf5	CG-2
9	TMEM245	ENSG00000106771	ENST00000472207	retained_intron	KNOWN	None	1363	None	None	111781206	111801607	-1	C9orf5	CG-2
9	TMEM245	ENSG00000106771	ENST00000413712	protein_coding	NOVEL	None	1363	1417	471	111782184	111849573	-1	C9orf5	CG-2
9	TMEM245	ENSG00000106771	ENST00000491854	nonsense_mediated_decay	KNOWN	None	1363	762	253	111782368	111870768	-1	C9orf5	CG-2
9	TMEM245	ENSG00000106771	ENST00000482868	retained_intron	KNOWN	None	1363	None	None	111798300	111800490	-1	C9orf5	CG-2
18	PSMA8	ENSG00000154611	ENST00000415576	protein_coding	KNOWN	CCDS45842	22985	753	250	23713816	23772788	1	None	MGC26605, PSMA7L
18	PSMA8	ENSG00000154611	ENST00000538664	nonsense_mediated_decay	KNOWN	None	22985	192	63	23713816	23773319	1	None	MGC26605, PSMA7L
18	PSMA8	ENSG00000154611	ENST00000343848	protein_coding	KNOWN	CCDS45843	22985	639	212	23713838	23773319	1	None	MGC26605, PSMA7L
18	PSMA8	ENSG00000154611	ENST00000308268	protein_coding	KNOWN	CCDS32808	22985	771	256	23713841	23773319	1	None	MGC26605, PSMA7L
19	None	ENSG00000269543	ENST00000600896	lincRNA	KNOWN	None	None	None	None	23251275	23254244	-1	None	None
19	None	ENSG00000269543	ENST00000599269	lincRNA	KNOWN	None	None	None	None	23252051	23254278	-1	None	None
4	None	ENSG00000216027	ENST00000401208	miRNA	NOVEL	None	None	None	None	61529667	61529756	-1	None	None
4	None	ENSG00000249066	ENST00000509559	lincRNA	KNOWN	None	None	None	None	61616304	61655717	1	None	None
7	TRBV10-2	ENSG00000229769	ENST00000426318	TR_V_gene	KNOWN	None	12178	344	113	142206511	142207011	-1	None	TRBV102, TCRBV10S2, TCRBV12S3
8	XKR5	ENSG00000186530	ENST00000405979	processed_transcript	KNOWN	None	20782	None	None	6666038	6693020	-1	None	None
8	XKR5	ENSG00000186530	ENST00000518724	processed_transcript	KNOWN	None	20782	None	None	6666038	6693166	-1	None	None
8	XKR5	ENSG00000186530	ENST00000409172	processed_transcript	KNOWN	None	20782	None	None	6666043	6693166	-1	None	None
16	SNRPEP3	ENSG00000227624	ENST00000338402	processed_pseudogene	KNOWN	None	43445	None	None	20250294	20250569	-1	None	None
1	None	ENSG00000228423	ENST00000433876	lincRNA	KNOWN	None	None	None	None	8865919	8867110	1	None	None
HSCHR6_MHC_SSTO	LTB	ENSG00000238114	ENST00000486265	processed_transcript	KNOWN	None	6711	None	None	31538275	31540147	-1	TNFC	p33, TNFSF3
HSCHR6_MHC_SSTO	LTB	ENSG00000238114	ENST00000421268	protein_coding	KNOWN	None	6711	735	244	31538275	31540145	-1	TNFC	p33, TNFSF3
HSCHR6_MHC_SSTO	LTB	ENSG00000238114	ENST00000478102	processed_transcript	KNOWN	None	6711	None	None	31538275	31540242	-1	TNFC	p33, TNFSF3
11	None	ENSG00000255247	ENST00000529229	lincRNA	KNOWN	None	None	None	None	119580630	119584635	1	None	None
5	None	ENSG00000272070	ENST00000606901	lincRNA	KNOWN	None	None	None	None	140705777	140708924	1	None	None
5	None	ENSG00000272070	ENST00000606674	lincRNA	KNOWN	None	None	None	None	140705807	140707482	1	None	None
3	CCDC66	ENSG00000180376	ENST00000422222	protein_coding	NOVEL	None	27709	1901	632	56591189	56651329	1	None	DKFZp686C0433
3	CCDC66	ENSG00000180376	ENST00000439445	nonsense_mediated_decay	KNOWN	None	27709	183	60	56591191	56598167	1	None	DKFZp686C0433
3	CCDC66	ENSG00000180376	ENST00000460838	processed_transcript	KNOWN	None	27709	None	None	56591191	56600767	1	None	DKFZp686C0433
3	CCDC66	ENSG00000180376	ENST00000394672	protein_coding	KNOWN	CCDS46852	27709	2847	948	56591201	56655825	1	None	DKFZp686C0433
3	CCDC66	ENSG00000180376	ENST00000326595	protein_coding	KNOWN	CCDS33770	27709	2745	914	56591216	56655790	1	None	DKFZp686C0433
3	CCDC66	ENSG00000180376	ENST00000459746	processed_transcript	KNOWN	None	27709	None	None	56591219	56598153	1	None	DKFZp686C0433
3	CCDC66	ENSG00000180376	ENST00000472582	processed_transcript	KNOWN	None	27709	None	None	56591231	56600734	1	None	DKFZp686C0433
3	CCDC66	ENSG00000180376	ENST00000434467	nonsense_mediated_decay	KNOWN	None	27709	183	60	56591238	56604774	1	None	DKFZp686C0433
3	CCDC66	ENSG00000180376	ENST00000471681	nonsense_mediated_decay	KNOWN	None	27709	864	287	56591239	56655836	1	None	DKFZp686C0433
3	CCDC66	ENSG00000180376	ENST00000422788	nonsense_mediated_decay	KNOWN	None	27709	117	38	56591247	56599233	1	None	DKFZp686C0433
3	CCDC66	ENSG00000180376	ENST00000341455	nonsense_mediated_decay	KNOWN	None	27709	693	230	56591247	56655836	1	None	DKFZp686C0433
3	CCDC66	ENSG00000180376	ENST00000442522	processed_transcript	KNOWN	None	27709	None	None	56591256	56604699	1	None	DKFZp686C0433
3	CCDC66	ENSG00000180376	ENST00000469966	processed_transcript	KNOWN	None	27709	None	None	56591735	56598184	1	None	DKFZp686C0433
3	CCDC66	ENSG00000180376	ENST00000484623	processed_transcript	KNOWN	None	27709	None	None	56592873	56649181	1	None	DKFZp686C0433
3	CCDC66	ENSG00000180376	ENST00000487739	retained_intron	KNOWN	None	27709	None	None	56592883	56595250	1	None	DKFZp686C0433
3	CCDC66	ENSG00000180376	ENST00000473322	retained_intron	KNOWN	None	27709	None	None	56597544	56599205	1	None	DKFZp686C0433
3	CCDC66	ENSG00000180376	ENST00000482673	retained_intron	KNOWN	None	27709	None	None	56600689	56606938	1	None	DKFZp686C0433
3	CCDC66	ENSG00000180376	ENST00000494672	retained_intron	KNOWN	None	27709	None	None	56600811	56627089	1	None	DKFZp686C0433
3	CCDC66	ENSG00000180376	ENST00000484441	retained_intron	KNOWN	None	27709	None	None	56600979	56605407	1	None	DKFZp686C0433
3	CCDC66	ENSG00000180376	ENST00000468108	retained_intron	KNOWN	None	27709	None	None	56627740	56649445	1	None	DKFZp686C0433
3	CCDC66	ENSG00000180376	ENST00000480884	retained_intron	KNOWN	None	27709	None	None	56649897	56655846	1	None	DKFZp686C0433
3	CCDC66	ENSG00000180376	ENST00000476142	retained_intron	KNOWN	None	27709	None	None	56651129	56655790	1	None	DKFZp686C0433
3	CCDC66	ENSG00000180376	ENST00000436465	protein_coding	KNOWN	None	27709	2847	948	56592780	56655846	1	None	DKFZp686C0433
3	CCDC66	ENSG00000180376	ENST00000538560	protein_coding	KNOWN	None	27709	864	287	56592780	56604774	1	None	DKFZp686C0433
9	ZNF189	ENSG00000136870	ENST00000374861	protein_coding	KNOWN	None	12980	1839	612	104161155	104172942	1	None	None
9	ZNF189	ENSG00000136870	ENST00000339664	protein_coding	KNOWN	CCDS6754	12980	1881	626	104161310	104172942	1	None	None
9	ZNF189	ENSG00000136870	ENST00000259395	protein_coding	KNOWN	CCDS6755	12980	1755	584	104161310	104172942	1	None	None
6	BTF3P10	ENSG00000231120	ENST00000433415	processed_pseudogene	KNOWN	None	38570	None	None	150299058	150299552	1	RAET1J	None
6	BTF3P10	ENSG00000231120	ENST00000412607	processed_pseudogene	KNOWN	None	38570	None	None	150299052	150299549	1	RAET1J	None
7	TRBV11-1	ENSG00000211720	ENST00000390367	TR_V_gene	KNOWN	None	12180	347	114	142223820	142224284	-1	None	TRBV111, TCRBV11S1, TCRBV21S1
19	ZNF541	ENSG00000118156	ENST00000391901	protein_coding	KNOWN	None	25294	4041	1346	48023942	48059113	-1	None	DKFZp434I1930
19	ZNF541	ENSG00000118156	ENST00000263351	protein_coding	NOVEL	None	25294	2039	678	48023947	48048557	-1	None	DKFZp434I1930
19	ZNF541	ENSG00000118156	ENST00000595558	protein_coding	NOVEL	None	25294	2600	865	48024481	48048518	-1	None	DKFZp434I1930
19	ZNF541	ENSG00000118156	ENST00000487275	processed_transcript	KNOWN	None	25294	None	None	48035424	48044226	-1	None	DKFZp434I1930
19	ZNF541	ENSG00000118156	ENST00000314121	protein_coding	KNOWN	CCDS46133	25294	4098	1365	48023947	48059113	-1	None	DKFZp434I1930
19	ZNF541	ENSG00000118156	ENST00000448976	protein_coding	KNOWN	None	25294	3267	1088	48023948	48059113	-1	None	DKFZp434I1930
3	DLG1-AS1	ENSG00000227375	ENST00000414529	antisense	KNOWN	None	44154	None	None	197025123	197029652	1	None	None
3	DLG1-AS1	ENSG00000227375	ENST00000430666	antisense	KNOWN	None	44154	None	None	197025123	197030618	1	None	None
19	RPS9	ENSG00000170889	ENST00000302907	protein_coding	KNOWN	CCDS12884	10442	585	194	54704610	54711515	1	None	S9
19	RPS9	ENSG00000170889	ENST00000484121	retained_intron	KNOWN	None	10442	None	None	54704677	54710715	1	None	S9
19	RPS9	ENSG00000170889	ENST00000448962	nonsense_mediated_decay	KNOWN	None	10442	234	77	54704726	54752862	1	None	S9
19	RPS9	ENSG00000170889	ENST00000436445	nonsense_mediated_decay	KNOWN	None	10442	420	139	54704739	54711390	1	None	S9
19	RPS9	ENSG00000170889	ENST00000391752	protein_coding	KNOWN	CCDS12884	10442	585	194	54704740	54711515	1	None	S9
19	RPS9	ENSG00000170889	ENST00000402367	protein_coding	NOVEL	None	10442	420	139	54704740	54711515	1	None	S9
19	RPS9	ENSG00000170889	ENST00000445961	nonsense_mediated_decay	KNOWN	None	10442	420	139	54704740	54711515	1	None	S9
19	RPS9	ENSG00000170889	ENST00000391751	protein_coding	PUTATIVE	None	10442	240	79	54704742	54711515	1	None	S9
19	RPS9	ENSG00000170889	ENST00000495002	retained_intron	KNOWN	None	10442	None	None	54704747	54711512	1	None	S9
19	RPS9	ENSG00000170889	ENST00000391753	protein_coding	KNOWN	CCDS12884	10442	585	194	54705001	54711515	1	None	S9
19	RPS9	ENSG00000170889	ENST00000460761	retained_intron	KNOWN	None	10442	None	None	54705028	54705876	1	None	S9
19	RPS9	ENSG00000170889	ENST00000441429	protein_coding	PUTATIVE	None	10442	471	156	54705028	54711498	1	None	S9
HSCHR6_MHC_COX	RANP1	ENSG00000227703	ENST00000420270	processed_pseudogene	KNOWN	None	21631	None	None	30443578	30444228	1	None	Em:AB014080.2
HSCHR6_MHC_COX	RANP1	ENSG00000227703	ENST00000548528	processed_pseudogene	KNOWN	None	21631	None	None	30443578	30443907	1	None	Em:AB014080.2
19	None	ENSG00000267886	ENST00000594318	lincRNA	KNOWN	None	None	None	None	23258003	23278418	1	None	None
19	None	ENSG00000267886	ENST00000600223	lincRNA	KNOWN	None	None	None	None	23258013	23283163	1	None	None
17	SPAG7	ENSG00000091640	ENST00000575142	protein_coding	PUTATIVE	None	11216	585	194	4862521	4871085	-1	None	FSA-1, ACRP, MGC20134
17	SPAG7	ENSG00000091640	ENST00000206020	protein_coding	KNOWN	CCDS42240	11216	684	227	4862523	4871167	-1	None	FSA-1, ACRP, MGC20134
17	SPAG7	ENSG00000091640	ENST00000573366	protein_coding	PUTATIVE	None	11216	531	176	4862551	4870486	-1	None	FSA-1, ACRP, MGC20134
17	SPAG7	ENSG00000091640	ENST00000575784	nonsense_mediated_decay	KNOWN	None	11216	264	87	4862798	4871084	-1	None	FSA-1, ACRP, MGC20134
17	SPAG7	ENSG00000091640	ENST00000572148	retained_intron	KNOWN	None	11216	None	None	4863279	4863916	-1	None	FSA-1, ACRP, MGC20134
17	SPAG7	ENSG00000091640	ENST00000573805	retained_intron	KNOWN	None	11216	None	None	4863482	4871080	-1	None	FSA-1, ACRP, MGC20134
17	SPAG7	ENSG00000091640	ENST00000571023	processed_transcript	KNOWN	None	11216	None	None	4869125	4871103	-1	None	FSA-1, ACRP, MGC20134
17	SPAG7	ENSG00000091640	ENST00000570341	processed_transcript	KNOWN	None	11216	None	None	4869533	4870044	-1	None	FSA-1, ACRP, MGC20134
1	GBP4	ENSG00000162654	ENST00000355754	protein_coding	KNOWN	CCDS721	20480	1923	640	89646831	89664615	-1	None	Mpa2
1	GBP4	ENSG00000162654	ENST00000471938	processed_transcript	KNOWN	None	20480	None	None	89647456	89651081	-1	None	Mpa2
1	GBP4	ENSG00000162654	ENST00000481397	processed_transcript	KNOWN	None	20480	None	None	89648181	89652209	-1	None	Mpa2
6	None	ENSG00000230375	ENST00000452866	unprocessed_pseudogene	KNOWN	None	None	None	None	52712708	52735127	-1	None	None
16	None	ENSG00000263237	ENST00000577173	antisense	KNOWN	None	None	None	None	20397279	20402486	1	None	None
6	RAET1K	ENSG00000218358	ENST00000533735	processed_transcript	KNOWN	None	16797	None	None	150319155	150326280	-1	None	None
6	RAET1K	ENSG00000218358	ENST00000403651	transcribed_unprocessed_pseudogene	KNOWN	None	16797	None	None	150321226	150326293	-1	None	None
16	None	ENSG00000262995	ENST00000574654	antisense	KNOWN	None	None	None	None	20451588	20452840	-1	None	None
16	None	ENSG00000262995	ENST00000575772	antisense	KNOWN	None	None	None	None	20452572	20458322	-1	None	None
3	POPDC2	ENSG00000121577	ENST00000495362	nonsense_mediated_decay	KNOWN	None	17648	77	24	119355304	119361399	-1	None	POP2
3	POPDC2	ENSG00000121577	ENST00000341124	nonsense_mediated_decay	KNOWN	None	17648	1107	368	119360905	119379491	-1	None	POP2
3	POPDC2	ENSG00000121577	ENST00000264231	protein_coding	KNOWN	CCDS2992	17648	1095	364	119360906	119379437	-1	None	POP2
3	POPDC2	ENSG00000121577	ENST00000474523	processed_transcript	KNOWN	None	17648	None	None	119360906	119384171	-1	None	POP2
3	POPDC2	ENSG00000121577	ENST00000493094	protein_coding	PUTATIVE	None	17648	1107	368	119361182	119379730	-1	None	POP2
3	POPDC2	ENSG00000121577	ENST00000468801	protein_coding	KNOWN	None	17648	1083	360	119361323	119379437	-1	None	POP2
3	POPDC2	ENSG00000121577	ENST00000468916	processed_transcript	KNOWN	None	17648	None	None	119367225	119379434	-1	None	POP2
3	POPDC2	ENSG00000121577	ENST00000476092	retained_intron	KNOWN	None	17648	None	None	119367247	119373574	-1	None	POP2
3	POPDC2	ENSG00000121577	ENST00000463323	processed_transcript	KNOWN	None	17648	None	None	119367288	119379432	-1	None	POP2
3	POPDC2	ENSG00000121577	ENST00000538678	protein_coding	KNOWN	None	17648	1083	360	119362223	119379437	-1	None	POP2
7	TRBV10-1	ENSG00000211717	ENST00000390364	TR_V_gene	KNOWN	None	12177	344	113	142231573	142232090	-1	None	TRBV101, TCRBV10S1, TCRBV12S2A1T, TCRBV12S2
3	None	ENSG00000238491	ENST00000458965	snoRNA	NOVEL	None	None	None	None	197066328	197066422	-1	None	None
14	TRAV8-1	ENSG00000211782	ENST00000390430	TR_V_gene	KNOWN	None	12146	341	112	22265459	22266058	1	None	None
15	ATP5J2P6	ENSG00000261102	ENST00000565203	processed_pseudogene	KNOWN	None	33612	None	None	66707271	66707536	-1	None	None
3	None	ENSG00000235126	ENST00000438408	lincRNA	KNOWN	None	None	None	None	197171932	197185194	-1	None	None
2	SLC35F5	ENSG00000115084	ENST00000469702	retained_intron	KNOWN	None	23617	None	None	114462588	114480771	-1	None	FLJ22004
2	SLC35F5	ENSG00000115084	ENST00000245680	protein_coding	KNOWN	CCDS2119	23617	1572	523	114470369	114514400	-1	None	FLJ22004
2	SLC35F5	ENSG00000115084	ENST00000409106	nonsense_mediated_decay	KNOWN	None	23617	1554	517	114471930	114514270	-1	None	FLJ22004
2	SLC35F5	ENSG00000115084	ENST00000420066	nonsense_mediated_decay	KNOWN	None	23617	116	37	114472224	114476821	-1	None	FLJ22004
2	SLC35F5	ENSG00000115084	ENST00000459683	retained_intron	KNOWN	None	23617	None	None	114475030	114483054	-1	None	FLJ22004
2	SLC35F5	ENSG00000115084	ENST00000470204	processed_transcript	KNOWN	None	23617	None	None	114475330	114487024	-1	None	FLJ22004
2	SLC35F5	ENSG00000115084	ENST00000469314	retained_intron	KNOWN	None	23617	None	None	114475358	114477288	-1	None	FLJ22004
2	SLC35F5	ENSG00000115084	ENST00000447673	protein_coding	NOVEL	None	23617	725	240	114476789	114493433	-1	None	FLJ22004
2	SLC35F5	ENSG00000115084	ENST00000485214	retained_intron	KNOWN	None	23617	None	None	114480680	114483439	-1	None	FLJ22004
2	SLC35F5	ENSG00000115084	ENST00000409342	protein_coding	PUTATIVE	None	23617	747	248	114499461	114514197	-1	None	FLJ22004
2	SLC35F5	ENSG00000115084	ENST00000498768	retained_intron	KNOWN	None	23617	None	None	114499486	114514164	-1	None	FLJ22004
2	SLC35F5	ENSG00000115084	ENST00000460863	retained_intron	KNOWN	None	23617	None	None	114500177	114501475	-1	None	FLJ22004
19	None	ENSG00000270479	ENST00000604107	processed_pseudogene	KNOWN	None	None	None	None	23305990	23306890	-1	None	None
10	LINC00202-2	ENSG00000231976	ENST00000423917	lincRNA	KNOWN	None	44917	None	None	26936915	26942375	1	None	None
10	LINC00202-2	ENSG00000231976	ENST00000434458	lincRNA	KNOWN	None	44917	None	None	26937029	26942383	1	None	None
10	LINC00202-2	ENSG00000231976	ENST00000413288	lincRNA	KNOWN	None	44917	None	None	26938261	26942040	1	None	None
10	LINC00202-2	ENSG00000231976	ENST00000544033	lincRNA	KNOWN	None	44917	None	None	26932098	26942377	1	None	None
14	SNORD114-28	ENSG00000200480	ENST00000363610	snoRNA	KNOWN	None	33016	None	None	101455467	101455538	1	None	14q(II-28)
22	CECR9	ENSG00000231004	ENST00000453421	processed_transcript	PUTATIVE	None	1847	None	None	17809924	17810122	1	None	None
3	None	ENSG00000234594	ENST00000420943	processed_pseudogene	KNOWN	None	None	None	None	171252212	171252404	1	None	None
3	None	ENSG00000229912	ENST00000445908	lincRNA	KNOWN	None	None	None	None	197177198	197183525	-1	None	None
5	PCDHGB8P	ENSG00000248449	ENST00000502926	processed_transcript	KNOWN	None	8715	None	None	140805853	140807825	1	None	PCDH-PSI3
5	PCDHGB8P	ENSG00000248449	ENST00000507007	unitary_pseudogene	KNOWN	None	8715	None	None	140805853	140808219	1	None	PCDH-PSI3
14	SNORD114-29	ENSG00000201689	ENST00000364819	snoRNA	KNOWN	None	33017	None	None	101456428	101456497	1	None	14q(II-29)
4	GABRA2	ENSG00000151834	ENST00000510861	protein_coding	KNOWN	CCDS3471	4076	1356	451	46250444	46477247	-1	None	None
4	GABRA2	ENSG00000151834	ENST00000514090	protein_coding	KNOWN	CCDS3471	4076	1356	451	46250461	46391398	-1	None	None
4	GABRA2	ENSG00000151834	ENST00000381620	protein_coding	KNOWN	CCDS3471	4076	1356	451	46251360	46391945	-1	None	None
4	GABRA2	ENSG00000151834	ENST00000356504	protein_coding	KNOWN	CCDS3471	4076	1356	451	46251584	46391396	-1	None	None
4	GABRA2	ENSG00000151834	ENST00000510233	nonsense_mediated_decay	KNOWN	None	4076	480	159	46252306	46390730	-1	None	None
4	GABRA2	ENSG00000151834	ENST00000507069	protein_coding	NOVEL	None	4076	1536	511	46252306	46390730	-1	None	None
4	GABRA2	ENSG00000151834	ENST00000513005	nonsense_mediated_decay	KNOWN	None	4076	201	66	46252306	46390730	-1	None	None
4	GABRA2	ENSG00000151834	ENST00000515082	protein_coding	NOVEL	None	4076	1104	367	46262789	46392421	-1	None	None
4	GABRA2	ENSG00000151834	ENST00000514236	nonsense_mediated_decay	KNOWN	None	4076	171	56	46304524	46307594	-1	None	None
4	GABRA2	ENSG00000151834	ENST00000514193	nonsense_mediated_decay	KNOWN	None	4076	201	66	46307710	46391805	-1	None	None
4	GABRA2	ENSG00000151834	ENST00000503806	protein_coding	KNOWN	None	4076	455	150	46314534	46391380	-1	None	None
4	GABRA2	ENSG00000151834	ENST00000506961	protein_coding	KNOWN	None	4076	412	136	46314577	46391399	-1	None	None
4	GABRA2	ENSG00000151834	ENST00000507460	protein_coding	PUTATIVE	None	4076	222	73	46365732	46391567	-1	None	None
4	GABRA2	ENSG00000151834	ENST00000509716	processed_transcript	KNOWN	None	4076	None	None	46388091	46390730	-1	None	None
4	GABRA2	ENSG00000151834	ENST00000540012	protein_coding	KNOWN	None	4076	1371	456	46251584	46391805	-1	None	None
22	RN7SL843P	ENSG00000239547	ENST00000485262	misc_RNA	KNOWN	None	46859	None	None	17833773	17834067	-1	None	None
17	None	ENSG00000265801	ENST00000583643	sense_intronic	KNOWN	None	None	None	None	25792138	25792567	1	None	None
15	RPL35AP32	ENSG00000243404	ENST00000469688	processed_pseudogene	KNOWN	None	36269	None	None	66738793	66739115	-1	None	None
2	LYG1	ENSG00000144214	ENST00000308528	protein_coding	KNOWN	CCDS2043	27014	585	194	99900701	99917639	-1	None	SALW1939
2	LYG1	ENSG00000144214	ENST00000409448	protein_coding	KNOWN	CCDS2043	27014	585	194	99900720	99921205	-1	None	SALW1939
3	None	ENSG00000237167	ENST00000420213	lincRNA	KNOWN	None	None	None	None	197185276	197193976	1	None	None
22	None	ENSG00000229492	ENST00000455617	processed_pseudogene	KNOWN	None	None	None	None	17897744	17898875	1	None	None
11	CDKN1C	ENSG00000129757	ENST00000380725	protein_coding	PUTATIVE	None	1786	396	131	2904443	2906979	-1	BWCR, BWS	P57, KIP2
11	CDKN1C	ENSG00000129757	ENST00000414822	protein_coding	KNOWN	CCDS7738	1786	951	316	2904443	2907111	-1	BWCR, BWS	P57, KIP2
11	CDKN1C	ENSG00000129757	ENST00000440480	protein_coding	KNOWN	CCDS44519	1786	918	305	2904448	2907043	-1	BWCR, BWS	P57, KIP2
11	CDKN1C	ENSG00000129757	ENST00000430149	protein_coding	NOVEL	CCDS7738	1786	951	316	2904809	2907001	-1	BWCR, BWS	P57, KIP2
11	CDKN1C	ENSG00000129757	ENST00000471157	retained_intron	KNOWN	None	1786	None	None	2904905	2905931	-1	BWCR, BWS	P57, KIP2
11	CDKN1C	ENSG00000129757	ENST00000313407	protein_coding	KNOWN	CCDS44519	1786	918	305	2904461	2906995	-1	BWCR, BWS	P57, KIP2
14	RNASE12	ENSG00000258436	ENST00000556526	protein_coding	KNOWN	CCDS32037	24211	444	147	21058352	21058982	-1	None	None
1	None	ENSG00000229716	ENST00000436229	processed_pseudogene	KNOWN	None	None	None	None	8891066	8891434	1	None	None
17	None	ENSG00000263368	ENST00000583159	processed_pseudogene	KNOWN	None	None	None	None	25853412	25854249	-1	None	None
6	RAET1M	ENSG00000216444	ENST00000405282	processed_pseudogene	KNOWN	None	16799	None	None	150353905	150354702	1	None	None
5	RN7SL68P	ENSG00000242020	ENST00000488078	misc_RNA	KNOWN	None	46084	None	None	140858883	140859190	1	None	None
3	None	ENSG00000250443	ENST00000395025	pseudogene	KNOWN	None	None	None	None	197232135	197233857	-1	None	None
14	SNORD114-30	ENSG00000201318	ENST00000364448	snoRNA	KNOWN	None	33018	None	None	101458256	101458327	1	None	14q(II-30)
17	ITM2BP1	ENSG00000266853	ENST00000580276	processed_pseudogene	KNOWN	None	20919	None	None	25939614	25940277	-1	ITM2BP	HsT33912
8	RPS4XP10	ENSG00000244217	ENST00000465034	processed_pseudogene	KNOWN	None	35741	None	None	95365151	95365881	1	RPS4P10	None
7	None	ENSG00000226279	ENST00000413498	processed_pseudogene	KNOWN	None	None	None	None	22921512	22922009	1	None	None
8	RNA5SP271	ENSG00000252509	ENST00000516700	rRNA	KNOWN	None	43171	None	None	73269963	73270050	1	RN5S271	None
14	SNORD114-31	ENSG00000200089	ENST00000363219	snoRNA	KNOWN	None	33019	None	None	101459573	101459647	1	None	14q(II-31)
20	None	ENSG00000268333	ENST00000601795	processed_transcript	PUTATIVE	None	None	None	None	57408864	57411584	-1	None	None
8	None	ENSG00000212989	ENST00000530034	processed_pseudogene	KNOWN	None	None	None	None	73341855	73342347	1	None	None
8	None	ENSG00000212989	ENST00000391672	processed_pseudogene	KNOWN	None	None	None	None	73341856	73342152	1	None	None
1	HES2	ENSG00000069812	ENST00000377837	protein_coding	KNOWN	None	16005	231	76	6472478	6484730	-1	None	bHLHb40
1	HES2	ENSG00000069812	ENST00000377836	protein_coding	KNOWN	None	16005	231	76	6473060	6479963	-1	None	bHLHb40
1	HES2	ENSG00000069812	ENST00000471190	processed_transcript	KNOWN	None	16005	None	None	6473110	6476691	-1	None	bHLHb40
1	HES2	ENSG00000069812	ENST00000377834	protein_coding	KNOWN	CCDS30574	16005	522	173	6475292	6479979	-1	None	bHLHb40
1	HES2	ENSG00000069812	ENST00000487437	protein_coding	PUTATIVE	None	16005	234	77	6478474	6479967	-1	None	bHLHb40
1	HES2	ENSG00000069812	ENST00000489730	protein_coding	PUTATIVE	None	16005	249	82	6478909	6479977	-1	None	bHLHb40
3	EIF5A2	ENSG00000163577	ENST00000295822	protein_coding	KNOWN	CCDS3214	3301	462	153	170606204	170626482	-1	None	None
3	EIF5A2	ENSG00000163577	ENST00000460117	processed_transcript	PUTATIVE	None	3301	None	None	170610925	170626433	-1	None	None
3	EIF5A2	ENSG00000163577	ENST00000487522	protein_coding	NOVEL	None	3301	330	109	170611005	170626387	-1	None	None
3	EIF5A2	ENSG00000163577	ENST00000474096	protein_coding	PUTATIVE	None	3301	318	105	170611138	170626433	-1	None	None
3	EIF5A2	ENSG00000163577	ENST00000474417	protein_coding	PUTATIVE	None	3301	345	114	170612081	170626393	-1	None	None
10	EIF4EBP2	ENSG00000148730	ENST00000373218	protein_coding	KNOWN	CCDS7303	3289	363	120	72164135	72188374	1	None	None
11	TRIM64B	ENSG00000189253	ENST00000329862	protein_coding	KNOWN	CCDS53693	37147	1350	449	89602450	89609185	-1	None	None
5	TTC1	ENSG00000113312	ENST00000522793	protein_coding	KNOWN	CCDS4348	12391	879	292	159436120	159492518	1	None	TPR1
5	TTC1	ENSG00000113312	ENST00000231238	protein_coding	KNOWN	CCDS4348	12391	879	292	159436120	159492550	1	None	TPR1
5	TTC1	ENSG00000113312	ENST00000522073	retained_intron	KNOWN	None	12391	None	None	159463513	159492518	1	None	TPR1
5	TTC1	ENSG00000113312	ENST00000520274	processed_transcript	KNOWN	None	12391	None	None	159465922	159492137	1	None	TPR1
5	TTC1	ENSG00000113312	ENST00000518560	protein_coding	PUTATIVE	None	12391	492	163	159470140	159492494	1	None	TPR1
11	None	ENSG00000254854	ENST00000533253	antisense	KNOWN	None	None	None	None	119600293	119610333	1	None	None
15	None	ENSG00000269999	ENST00000602360	antisense	KNOWN	None	None	None	None	66780996	66781427	-1	None	None
17	None	ENSG00000266872	ENST00000577746	antisense	KNOWN	None	None	None	None	25952510	25953464	-1	None	None
14	None	ENSG00000222095	ENST00000410163	snoRNA	NOVEL	None	None	None	None	101460594	101460667	1	None	None
15	None	ENSG00000259941	ENST00000564401	lincRNA	KNOWN	None	None	None	None	56686519	56688983	-1	None	None
15	None	ENSG00000261351	ENST00000565387	antisense	KNOWN	None	None	None	None	66782086	66784447	-1	None	None
8	None	ENSG00000238433	ENST00000459488	snoRNA	NOVEL	None	None	None	None	59574800	59574903	-1	None	None
6	PRR3	ENSG00000204576	ENST00000376560	protein_coding	KNOWN	CCDS43440	21149	567	188	30524663	30531500	1	None	CAT56, Em:AB014077.1, Em:AB023052.2
6	PRR3	ENSG00000204576	ENST00000376557	protein_coding	KNOWN	CCDS43441	21149	504	167	30525057	30531500	1	None	CAT56, Em:AB014077.1, Em:AB023052.2
6	PRR3	ENSG00000204576	ENST00000481741	processed_transcript	KNOWN	None	21149	None	None	30525091	30531500	1	None	CAT56, Em:AB014077.1, Em:AB023052.2
6	PRR3	ENSG00000204576	ENST00000498336	processed_transcript	KNOWN	None	21149	None	None	30525093	30531500	1	None	CAT56, Em:AB014077.1, Em:AB023052.2
6	PRR3	ENSG00000204576	ENST00000491173	retained_intron	KNOWN	None	21149	None	None	30525124	30526213	1	None	CAT56, Em:AB014077.1, Em:AB023052.2
6	PRR3	ENSG00000204576	ENST00000470703	retained_intron	KNOWN	None	21149	None	None	30527808	30531500	1	None	CAT56, Em:AB014077.1, Em:AB023052.2
8	RNU4-50P	ENSG00000201231	ENST00000364361	snRNA	KNOWN	None	46986	None	None	59726971	59727111	-1	None	None
3	None	ENSG00000214135	ENST00000453454	processed_transcript	KNOWN	None	None	None	None	197305084	197342531	-1	None	None
3	None	ENSG00000214135	ENST00000414207	processed_transcript	KNOWN	None	None	None	None	197338443	197354713	-1	None	None
3	None	ENSG00000214135	ENST00000418868	processed_transcript	KNOWN	None	None	None	None	197340898	197354777	-1	None	None
3	None	ENSG00000214135	ENST00000440535	processed_transcript	KNOWN	None	None	None	None	197341157	197354776	-1	None	None
3	None	ENSG00000214135	ENST00000449003	retained_intron	KNOWN	None	None	None	None	197341853	197354742	-1	None	None
3	None	ENSG00000214135	ENST00000437008	processed_transcript	KNOWN	None	None	None	None	197346611	197354717	-1	None	None
3	None	ENSG00000214135	ENST00000454517	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	197346611	197354719	-1	None	None
X	None	ENSG00000226010	ENST00000454081	processed_pseudogene	KNOWN	None	None	None	None	63364752	63366932	-1	None	None
13	GUCY1B2	ENSG00000123201	ENST00000493639	processed_transcript	KNOWN	None	4686	None	None	51568647	51640142	-1	None	GC-SB2
13	GUCY1B2	ENSG00000123201	ENST00000533288	processed_transcript	KNOWN	None	4686	None	None	51568829	51654967	-1	None	GC-SB2
13	GUCY1B2	ENSG00000123201	ENST00000485590	processed_transcript	KNOWN	None	4686	None	None	51578389	51581996	-1	None	GC-SB2
13	GUCY1B2	ENSG00000123201	ENST00000531898	unitary_pseudogene	KNOWN	None	4686	None	None	51581127	51637030	-1	None	GC-SB2
13	GUCY1B2	ENSG00000123201	ENST00000389600	processed_transcript	KNOWN	None	4686	None	None	51589552	51640343	-1	None	GC-SB2
13	GUCY1B2	ENSG00000123201	ENST00000532104	processed_transcript	KNOWN	None	4686	None	None	51590244	51654998	-1	None	GC-SB2
13	GUCY1B2	ENSG00000123201	ENST00000537462	unitary_pseudogene	KNOWN	None	4686	None	None	51568651	51640293	-1	None	GC-SB2
15	None	ENSG00000261823	ENST00000561934	lincRNA	KNOWN	None	None	None	None	56700681	56702384	-1	None	None
5	None	ENSG00000255883	ENST00000327891	processed_pseudogene	NOVEL	None	None	None	None	72804510	72805079	1	None	None
14	None	ENSG00000252009	ENST00000516200	snoRNA	NOVEL	None	None	None	None	101463990	101464061	1	None	None
17	NOS2P1	ENSG00000264216	ENST00000580780	transcribed_unprocessed_pseudogene	KNOWN	None	7875	None	None	25978360	25992738	-1	NOS2C	None
8	None	ENSG00000254048	ENST00000518011	sense_intronic	KNOWN	None	None	None	None	59904279	59905497	-1	None	None
8	None	ENSG00000254347	ENST00000521224	lincRNA	KNOWN	None	None	None	None	73374546	73383207	1	None	None
5	None	ENSG00000249293	ENST00000506717	antisense	KNOWN	None	None	None	None	73073864	73082316	-1	None	None
14	None	ENSG00000268208	ENST00000596936	protein_coding	NOVEL	None	None	33	10	78227711	78228033	-1	None	None
X	NAP1L4P2	ENSG00000224816	ENST00000425958	processed_pseudogene	KNOWN	None	39739	None	None	105709772	105710670	-1	None	None
12	PRDM4	ENSG00000110851	ENST00000228437	protein_coding	KNOWN	CCDS9115	9348	2406	801	108126643	108154937	-1	None	PFM1
12	PRDM4	ENSG00000110851	ENST00000550376	nonsense_mediated_decay	KNOWN	None	9348	951	316	108127968	108155049	-1	None	PFM1
12	PRDM4	ENSG00000110851	ENST00000549416	retained_intron	KNOWN	None	9348	None	None	108134843	108136370	-1	None	PFM1
12	PRDM4	ENSG00000110851	ENST00000550659	protein_coding	NOVEL	None	9348	837	278	108136026	108145552	-1	None	PFM1
12	PRDM4	ENSG00000110851	ENST00000547268	processed_transcript	KNOWN	None	9348	None	None	108147803	108154801	-1	None	PFM1
12	PRDM4	ENSG00000110851	ENST00000547188	protein_coding	KNOWN	None	9348	227	74	108147805	108154705	-1	None	PFM1
X	CCNB3	ENSG00000147082	ENST00000493507	processed_transcript	KNOWN	None	18709	None	None	49967364	50028245	1	None	None
X	CCNB3	ENSG00000147082	ENST00000491907	processed_transcript	KNOWN	None	18709	None	None	49969146	50028245	1	None	None
X	CCNB3	ENSG00000147082	ENST00000376042	protein_coding	KNOWN	CCDS14331	18709	4188	1395	49969416	50094909	1	None	None
X	CCNB3	ENSG00000147082	ENST00000376038	protein_coding	KNOWN	CCDS14332	18709	876	291	49969596	50094909	1	None	None
X	CCNB3	ENSG00000147082	ENST00000476167	nonsense_mediated_decay	KNOWN	None	18709	336	111	49969596	50094909	1	None	None
X	CCNB3	ENSG00000147082	ENST00000487204	retained_intron	KNOWN	None	18709	None	None	50084706	50094715	1	None	None
X	CCNB3	ENSG00000147082	ENST00000348603	protein_coding	KNOWN	CCDS14332	18709	876	291	50027536	50094909	1	None	None
X	CCNB3	ENSG00000147082	ENST00000276014	protein_coding	KNOWN	CCDS14331	18709	4188	1395	50027540	50094909	1	None	None
7	None	ENSG00000235664	ENST00000421730	lincRNA	KNOWN	None	None	None	None	22928990	22980809	-1	None	None
14	None	ENSG00000222185	ENST00000410253	snoRNA	NOVEL	None	None	None	None	101464804	101464878	1	None	None
14	TRAV9-1	ENSG00000211783	ENST00000390431	TR_V_gene	KNOWN	None	12153	338	111	22279674	22280149	1	None	None
5	None	ENSG00000184084	ENST00000508746	processed_pseudogene	KNOWN	None	None	None	None	73099121	73099424	-1	None	None
20	RPS10P2	ENSG00000213950	ENST00000430953	processed_pseudogene	KNOWN	None	16594	None	None	14738209	14738702	1	None	dJ858M22.1
14	MIR379	ENSG00000199088	ENST00000362218	miRNA	KNOWN	None	31872	None	None	101488366	101488491	1	MIRN379	hsa-mir-379
3	ZNF35	ENSG00000169981	ENST00000396056	protein_coding	KNOWN	CCDS2718	13099	1584	527	44690219	44702281	1	None	HF.10, HF10, Zfp105
3	ZNF35	ENSG00000169981	ENST00000432115	protein_coding	KNOWN	None	13099	337	111	44690233	44694193	1	None	HF.10, HF10, Zfp105
3	ZNF35	ENSG00000169981	ENST00000415571	protein_coding	KNOWN	None	13099	402	133	44690233	44700257	1	None	HF.10, HF10, Zfp105
3	ZNF35	ENSG00000169981	ENST00000399560	protein_coding	PUTATIVE	None	13099	312	103	44690234	44700370	1	None	HF.10, HF10, Zfp105
3	ZNF35	ENSG00000169981	ENST00000296092	protein_coding	PUTATIVE	None	13099	312	103	44690234	44702283	1	None	HF.10, HF10, Zfp105
3	ZNF35	ENSG00000169981	ENST00000453164	protein_coding	PUTATIVE	None	13099	312	103	44690237	44700387	1	None	HF.10, HF10, Zfp105
3	ZNF35	ENSG00000169981	ENST00000542250	protein_coding	KNOWN	None	13099	1104	367	44690234	44701570	1	None	HF.10, HF10, Zfp105
15	MIR4512	ENSG00000266589	ENST00000583257	miRNA	KNOWN	None	41701	None	None	66789296	66789372	-1	None	hsa-mir-4512
3	None	ENSG00000238359	ENST00000458788	snoRNA	NOVEL	None	None	None	None	171411001	171411104	1	None	None
14	None	ENSG00000258604	ENST00000533984	lincRNA	KNOWN	None	None	None	None	21492331	21497404	1	None	None
14	None	ENSG00000258604	ENST00000532213	lincRNA	KNOWN	None	None	None	None	21492455	21497430	1	None	None
8	None	ENSG00000254315	ENST00000521010	antisense	KNOWN	None	None	None	None	95545856	95546619	1	None	None
8	HAUS1P3	ENSG00000253226	ENST00000523909	processed_pseudogene	KNOWN	None	43762	None	None	73530957	73531618	-1	None	None
10	None	ENSG00000229272	ENST00000437838	antisense	KNOWN	None	None	None	None	120763048	120763396	-1	None	None
9	None	ENSG00000242631	ENST00000451160	protein_coding	KNOWN	None	None	262	86	109685630	109686455	1	None	None
1	FCRLA	ENSG00000132185	ENST00000236938	protein_coding	KNOWN	CCDS30926	18504	1131	376	161676762	161684138	1	FCRLM1	MGC4595, FCRLc2, FCRLb, FCRLc1, FCRLd, FCRLe, FCRL, FCRLa, FREB, FCRLX
1	FCRLA	ENSG00000132185	ENST00000367957	protein_coding	KNOWN	CCDS53419	18504	711	236	161676999	161684138	1	FCRLM1	MGC4595, FCRLc2, FCRLb, FCRLc1, FCRLd, FCRLe, FCRL, FCRLa, FREB, FCRLX
1	FCRLA	ENSG00000132185	ENST00000465403	processed_transcript	KNOWN	None	18504	None	None	161677029	161681262	1	FCRLM1	MGC4595, FCRLc2, FCRLb, FCRLc1, FCRLd, FCRLe, FCRL, FCRLa, FREB, FCRLX
1	FCRLA	ENSG00000132185	ENST00000349527	protein_coding	KNOWN	None	18504	795	264	161677034	161683242	1	FCRLM1	MGC4595, FCRLc2, FCRLb, FCRLc1, FCRLd, FCRLe, FCRL, FCRLa, FREB, FCRLX
1	FCRLA	ENSG00000132185	ENST00000309691	protein_coding	KNOWN	None	18504	813	270	161677055	161683258	1	FCRLM1	MGC4595, FCRLc2, FCRLb, FCRLc1, FCRLd, FCRLe, FCRL, FCRLa, FREB, FCRLX
1	FCRLA	ENSG00000132185	ENST00000294796	protein_coding	KNOWN	None	18504	678	225	161677055	161683258	1	FCRLM1	MGC4595, FCRLc2, FCRLb, FCRLc1, FCRLd, FCRLe, FCRL, FCRLa, FREB, FCRLX
1	FCRLA	ENSG00000132185	ENST00000367953	protein_coding	KNOWN	None	18504	1098	365	161677055	161684138	1	FCRLM1	MGC4595, FCRLc2, FCRLb, FCRLc1, FCRLd, FCRLe, FCRL, FCRLa, FREB, FCRLX
1	FCRLA	ENSG00000132185	ENST00000367950	protein_coding	KNOWN	None	18504	459	152	161677085	161683495	1	FCRLM1	MGC4595, FCRLc2, FCRLb, FCRLc1, FCRLd, FCRLe, FCRL, FCRLa, FREB, FCRLX
1	FCRLA	ENSG00000132185	ENST00000470841	processed_transcript	KNOWN	None	18504	None	None	161680079	161684142	1	FCRLM1	MGC4595, FCRLc2, FCRLb, FCRLc1, FCRLd, FCRLe, FCRL, FCRLa, FREB, FCRLX
1	FCRLA	ENSG00000132185	ENST00000367959	protein_coding	KNOWN	CCDS53415	18504	1149	382	161676762	161684141	1	FCRLM1	MGC4595, FCRLc2, FCRLb, FCRLc1, FCRLd, FCRLe, FCRL, FCRLa, FREB, FCRLX
1	FCRLA	ENSG00000132185	ENST00000546024	protein_coding	KNOWN	CCDS53417	18504	864	287	161676762	161684141	1	FCRLM1	MGC4595, FCRLc2, FCRLb, FCRLc1, FCRLd, FCRLe, FCRL, FCRLa, FREB, FCRLX
1	FCRLA	ENSG00000132185	ENST00000540521	protein_coding	KNOWN	CCDS53416	18504	729	242	161676762	161684141	1	FCRLM1	MGC4595, FCRLc2, FCRLb, FCRLc1, FCRLd, FCRLe, FCRL, FCRLa, FREB, FCRLX
1	FCRLA	ENSG00000132185	ENST00000367949	protein_coding	KNOWN	CCDS53418	18504	579	192	161676762	161684141	1	FCRLM1	MGC4595, FCRLc2, FCRLb, FCRLc1, FCRLd, FCRLe, FCRL, FCRLa, FREB, FCRLX
1	FCRLA	ENSG00000132185	ENST00000350710	protein_coding	KNOWN	CCDS53420	18504	426	141	161676762	161684141	1	FCRLM1	MGC4595, FCRLc2, FCRLb, FCRLc1, FCRLd, FCRLe, FCRL, FCRLa, FREB, FCRLX
1	FCRLA	ENSG00000132185	ENST00000540926	protein_coding	KNOWN	None	18504	1098	365	161676762	161684141	1	FCRLM1	MGC4595, FCRLc2, FCRLb, FCRLc1, FCRLd, FCRLe, FCRL, FCRLa, FREB, FCRLX
1	ENO1-IT1	ENSG00000236269	ENST00000414948	sense_intronic	KNOWN	None	41331	None	None	8935847	8938066	-1	None	None
11	TRIM49D1	ENSG00000223417	ENST00000530311	protein_coding	KNOWN	None	43973	1359	452	89644279	89654935	-1	TRIM49DP, TRIM49D1P	TRIM49D
11	TRIM49D1	ENSG00000223417	ENST00000420869	protein_coding	KNOWN	None	43973	1359	452	89644590	89653576	-1	TRIM49DP, TRIM49D1P	TRIM49D
14	MIR411	ENSG00000199109	ENST00000362239	miRNA	KNOWN	None	32792	None	None	101489662	101489757	1	MIRN411	hsa-mir-411
10	None	ENSG00000215925	ENST00000401106	miRNA	NOVEL	None	None	None	None	120765302	120765411	1	None	None
15	None	ENSG00000258732	ENST00000556034	unprocessed_pseudogene	KNOWN	None	None	None	None	22566922	22570823	1	None	None
7	DBF4	ENSG00000006634	ENST00000413643	nonsense_mediated_decay	KNOWN	None	17364	705	234	87505531	87537691	1	None	ASK, DBF4A, chif, ZDBF1
7	DBF4	ENSG00000006634	ENST00000265728	protein_coding	KNOWN	CCDS5611	17364	2025	674	87505544	87538856	1	None	ASK, DBF4A, chif, ZDBF1
7	DBF4	ENSG00000006634	ENST00000495067	retained_intron	KNOWN	None	17364	None	None	87505802	87507872	1	None	ASK, DBF4A, chif, ZDBF1
7	DBF4	ENSG00000006634	ENST00000431138	nonsense_mediated_decay	KNOWN	None	17364	135	44	87505849	87537688	1	None	ASK, DBF4A, chif, ZDBF1
7	DBF4	ENSG00000006634	ENST00000486925	retained_intron	KNOWN	None	17364	None	None	87505898	87514498	1	None	ASK, DBF4A, chif, ZDBF1
7	DBF4	ENSG00000006634	ENST00000430279	nonsense_mediated_decay	KNOWN	None	17364	654	217	87505915	87536701	1	None	ASK, DBF4A, chif, ZDBF1
7	DBF4	ENSG00000006634	ENST00000498144	retained_intron	KNOWN	None	17364	None	None	87517283	87536534	1	None	ASK, DBF4A, chif, ZDBF1
7	DBF4	ENSG00000006634	ENST00000498726	retained_intron	KNOWN	None	17364	None	None	87525498	87530130	1	None	ASK, DBF4A, chif, ZDBF1
10	SNORA19	ENSG00000207468	ENST00000384737	snoRNA	KNOWN	None	32609	None	None	120819523	120819650	-1	None	ACA19
3	TMEM212-AS1	ENSG00000234717	ENST00000449106	lincRNA	KNOWN	None	41939	None	None	171594142	171618530	-1	None	None
8	None	ENSG00000253704	ENST00000523011	lincRNA	KNOWN	None	None	None	None	95565950	95581973	1	None	None
15	SNORD18C	ENSG00000199574	ENST00000362704	snoRNA	KNOWN	None	32716	None	None	66793588	66793656	-1	None	U18C
15	None	ENSG00000259501	ENST00000557861	unprocessed_pseudogene	KNOWN	None	None	None	None	22646603	22647417	1	None	None
10	None	ENSG00000222588	ENST00000410656	snoRNA	NOVEL	None	None	None	None	120820495	120820623	-1	None	None
8	None	ENSG00000253726	ENST00000519427	sense_intronic	KNOWN	None	None	None	None	73644280	73664078	1	None	None
10	None	ENSG00000271343	ENST00000604169	processed_pseudogene	KNOWN	None	None	None	None	120852652	120852853	1	None	None
HSCHR6_MHC_MCF	SKIV2L	ENSG00000232616	ENST00000412823	protein_coding	KNOWN	None	10898	3741	1246	32003304	32013975	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_MCF	SKIV2L	ENSG00000232616	ENST00000492133	processed_transcript	KNOWN	None	10898	None	None	32003341	32005610	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_MCF	SKIV2L	ENSG00000232616	ENST00000487690	processed_transcript	KNOWN	None	10898	None	None	32003363	32006807	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_MCF	SKIV2L	ENSG00000232616	ENST00000496229	retained_intron	KNOWN	None	10898	None	None	32003372	32013975	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_MCF	SKIV2L	ENSG00000232616	ENST00000476793	retained_intron	KNOWN	None	10898	None	None	32003415	32004182	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_MCF	SKIV2L	ENSG00000232616	ENST00000491970	processed_transcript	KNOWN	None	10898	None	None	32005721	32007234	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_MCF	SKIV2L	ENSG00000232616	ENST00000486945	processed_transcript	PUTATIVE	None	10898	None	None	32011052	32012668	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_MCF	SKIV2L	ENSG00000232616	ENST00000480573	retained_intron	KNOWN	None	10898	None	None	32011245	32012672	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_MCF	SKIV2L	ENSG00000232616	ENST00000484510	retained_intron	KNOWN	None	10898	None	None	32011327	32013210	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_MCF	SKIV2L	ENSG00000232616	ENST00000464568	processed_transcript	PUTATIVE	None	10898	None	None	32012547	32013975	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_MCF	SKIV2L	ENSG00000232616	ENST00000472288	retained_intron	KNOWN	None	10898	None	None	32012678	32013632	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_MCF	SKIV2L	ENSG00000232616	ENST00000466283	retained_intron	KNOWN	None	10898	None	None	32012699	32013975	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_MCF	SKIV2L	ENSG00000232616	ENST00000480914	processed_transcript	KNOWN	None	10898	None	None	32012704	32013975	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_MCF	SKIV2L	ENSG00000232616	ENST00000473594	processed_transcript	KNOWN	None	10898	None	None	32012910	32013975	1	SKIV2	HLP, DDX13, SKI2W, 170A
4	None	ENSG00000250905	ENST00000505781	lincRNA	KNOWN	None	None	None	None	150587209	150632301	1	None	None
14	MIR299	ENSG00000207749	ENST00000385016	miRNA	KNOWN	None	31618	None	None	101490114	101490215	1	MIRN299	hsa-mir-299
14	None	ENSG00000258714	ENST00000554733	lincRNA	KNOWN	None	None	None	None	21558546	21560491	1	None	None
16	None	ENSG00000259836	ENST00000569213	processed_pseudogene	KNOWN	None	None	None	None	34723608	34724583	1	None	None
10	None	ENSG00000228485	ENST00000421206	sense_intronic	KNOWN	None	None	None	None	120968043	120971272	1	None	None
19	A1BG-AS1	ENSG00000268895	ENST00000594950	antisense	KNOWN	None	37133	None	None	58859117	58866549	1	NCRNA00181, A1BGAS, A1BG-AS	FLJ23569
19	A1BG-AS1	ENSG00000268895	ENST00000593374	antisense	KNOWN	None	37133	None	None	58859118	58865791	1	NCRNA00181, A1BGAS, A1BG-AS	FLJ23569
19	A1BG-AS1	ENSG00000268895	ENST00000599728	antisense	KNOWN	None	37133	None	None	58859119	58865405	1	NCRNA00181, A1BGAS, A1BG-AS	FLJ23569
19	A1BG-AS1	ENSG00000268895	ENST00000593960	antisense	KNOWN	None	37133	None	None	58859119	58865868	1	NCRNA00181, A1BGAS, A1BG-AS	FLJ23569
19	A1BG-AS1	ENSG00000268895	ENST00000600379	antisense	KNOWN	None	37133	None	None	58859153	58866090	1	NCRNA00181, A1BGAS, A1BG-AS	FLJ23569
19	A1BG-AS1	ENSG00000268895	ENST00000600686	antisense	KNOWN	None	37133	None	None	58859155	58866079	1	NCRNA00181, A1BGAS, A1BG-AS	FLJ23569
19	A1BG-AS1	ENSG00000268895	ENST00000595302	antisense	KNOWN	None	37133	None	None	58863336	58866549	1	NCRNA00181, A1BGAS, A1BG-AS	FLJ23569
3	ZIC1	ENSG00000152977	ENST00000472523	processed_transcript	PUTATIVE	None	12872	None	None	147111209	147225773	1	None	ZIC, ZNF201
3	ZIC1	ENSG00000152977	ENST00000488404	protein_coding	PUTATIVE	None	12872	410	135	147111682	147131467	1	None	ZIC, ZNF201
3	ZIC1	ENSG00000152977	ENST00000282928	protein_coding	KNOWN	CCDS3136	12872	1344	447	147127171	147134506	1	None	ZIC, ZNF201
3	ZIC1	ENSG00000152977	ENST00000474034	processed_transcript	PUTATIVE	None	12872	None	None	147139114	147228080	1	None	ZIC, ZNF201
3	ZIC1	ENSG00000152977	ENST00000481840	processed_transcript	PUTATIVE	None	12872	None	None	147225728	147227692	1	None	ZIC, ZNF201
15	SNORD18B	ENSG00000202529	ENST00000365659	snoRNA	KNOWN	None	32715	None	None	66794358	66794429	-1	None	U18B
8	None	ENSG00000253784	ENST00000523881	lincRNA	KNOWN	None	None	None	None	73787094	73793975	-1	None	None
11	None	ENSG00000254406	ENST00000527539	processed_pseudogene	KNOWN	None	None	None	None	119692013	119692838	-1	None	None
20	None	ENSG00000225806	ENST00000441270	antisense	KNOWN	None	None	None	None	57438583	57463847	-1	None	None
20	None	ENSG00000225806	ENST00000424434	antisense	KNOWN	None	None	None	None	57456805	57463864	-1	None	None
20	None	ENSG00000225806	ENST00000605534	processed_transcript	KNOWN	None	None	None	None	57459460	57460036	-1	None	None
15	ADAMTSL3	ENSG00000156218	ENST00000286744	protein_coding	KNOWN	CCDS10326	14633	5076	1691	84322838	84708594	1	None	KIAA1233, punctin-2
15	ADAMTSL3	ENSG00000156218	ENST00000567476	protein_coding	KNOWN	None	14633	5049	1682	84322840	84708179	1	None	KIAA1233, punctin-2
15	ADAMTSL3	ENSG00000156218	ENST00000569510	retained_intron	KNOWN	None	14633	None	None	84322847	84531687	1	None	KIAA1233, punctin-2
15	ADAMTSL3	ENSG00000156218	ENST00000561483	retained_intron	KNOWN	None	14633	None	None	84322847	84694303	1	None	KIAA1233, punctin-2
15	ADAMTSL3	ENSG00000156218	ENST00000565653	processed_transcript	KNOWN	None	14633	None	None	84363046	84488731	1	None	KIAA1233, punctin-2
15	ADAMTSL3	ENSG00000156218	ENST00000567663	processed_transcript	KNOWN	None	14633	None	None	84539664	84559817	1	None	KIAA1233, punctin-2
15	ADAMTSL3	ENSG00000156218	ENST00000562296	processed_transcript	KNOWN	None	14633	None	None	84614487	84651241	1	None	KIAA1233, punctin-2
15	ADAMTSL3	ENSG00000156218	ENST00000567716	processed_transcript	KNOWN	None	14633	None	None	84614508	84651057	1	None	KIAA1233, punctin-2
14	MIR380	ENSG00000198982	ENST00000362112	miRNA	KNOWN	None	31873	None	None	101491331	101491441	-1	MIRN380	hsa-mir-380
19	MZF1	ENSG00000099326	ENST00000600004	retained_intron	KNOWN	None	13108	None	None	59073298	59075980	-1	ZNF42	ZSCAN6, MZF1B, MZF-1, Zfp98
19	MZF1	ENSG00000099326	ENST00000594234	protein_coding	PUTATIVE	CCDS59427	13108	873	290	59073299	59084665	-1	ZNF42	ZSCAN6, MZF1B, MZF-1, Zfp98
19	MZF1	ENSG00000099326	ENST00000215057	protein_coding	KNOWN	CCDS12988	13108	2205	734	59073300	59084942	-1	ZNF42	ZSCAN6, MZF1B, MZF-1, Zfp98
19	MZF1	ENSG00000099326	ENST00000599369	protein_coding	KNOWN	CCDS12988	13108	2205	734	59073300	59084942	-1	ZNF42	ZSCAN6, MZF1B, MZF-1, Zfp98
19	MZF1	ENSG00000099326	ENST00000595245	retained_intron	KNOWN	None	13108	None	None	59079534	59082912	-1	ZNF42	ZSCAN6, MZF1B, MZF-1, Zfp98
19	MZF1	ENSG00000099326	ENST00000594108	protein_coding	PUTATIVE	None	13108	780	259	59080572	59084142	-1	ZNF42	ZSCAN6, MZF1B, MZF-1, Zfp98
19	MZF1	ENSG00000099326	ENST00000600048	retained_intron	KNOWN	None	13108	None	None	59080701	59084104	-1	ZNF42	ZSCAN6, MZF1B, MZF-1, Zfp98
19	MZF1	ENSG00000099326	ENST00000596039	protein_coding	KNOWN	None	13108	190	62	59082567	59084678	-1	ZNF42	ZSCAN6, MZF1B, MZF-1, Zfp98
1	ENO1-AS1	ENSG00000230679	ENST00000442636	antisense	KNOWN	None	40214	None	None	8938894	8939953	1	None	None
2	TXNDC9	ENSG00000115514	ENST00000264255	protein_coding	KNOWN	CCDS2044	24110	681	226	99935445	99952925	-1	None	APACD
2	TXNDC9	ENSG00000115514	ENST00000422767	nonsense_mediated_decay	KNOWN	None	24110	195	64	99935971	99949705	-1	None	APACD
2	TXNDC9	ENSG00000115514	ENST00000409434	protein_coding	PUTATIVE	None	24110	567	188	99937997	99952796	-1	None	APACD
2	TXNDC9	ENSG00000115514	ENST00000463385	retained_intron	KNOWN	None	24110	None	None	99938024	99952773	-1	None	APACD
2	TXNDC9	ENSG00000115514	ENST00000438680	nonsense_mediated_decay	KNOWN	None	24110	225	74	99938407	99952796	-1	None	APACD
2	TXNDC9	ENSG00000115514	ENST00000434323	nonsense_mediated_decay	KNOWN	None	24110	369	122	99938526	99952848	-1	None	APACD
2	TXNDC9	ENSG00000115514	ENST00000409705	protein_coding	KNOWN	None	24110	407	134	99938574	99957165	-1	None	APACD
2	TXNDC9	ENSG00000115514	ENST00000465183	retained_intron	KNOWN	None	24110	None	None	99949225	99952819	-1	None	APACD
2	TXNDC9	ENSG00000115514	ENST00000477337	processed_transcript	KNOWN	None	24110	None	None	99952800	99957159	-1	None	APACD
7	None	ENSG00000227053	ENST00000441882	antisense	KNOWN	None	None	None	None	100657601	100660889	-1	None	None
7	None	ENSG00000227053	ENST00000448513	antisense	KNOWN	None	None	None	None	100657606	100660882	-1	None	None
10	PGGT1BP2	ENSG00000214584	ENST00000398621	processed_pseudogene	KNOWN	None	45112	None	None	81651904	81652931	-1	None	None
14	OR6S1	ENSG00000181803	ENST00000320704	protein_coding	KNOWN	CCDS32038	15363	996	331	21108855	21109850	-1	None	OR6S1Q
4	None	ENSG00000251572	ENST00000510417	processed_pseudogene	KNOWN	None	None	None	None	103382407	103383309	1	None	None
7	CYP3A4	ENSG00000160868	ENST00000336411	protein_coding	KNOWN	CCDS5674	2637	1512	503	99355299	99381888	-1	CYP3A3	None
7	CYP3A4	ENSG00000160868	ENST00000480043	retained_intron	KNOWN	None	2637	None	None	99367158	99377676	-1	CYP3A3	None
7	CYP3A4	ENSG00000160868	ENST00000415003	protein_coding	NOVEL	None	2637	461	152	99367755	99381807	-1	CYP3A3	None
7	CYP3A4	ENSG00000160868	ENST00000354593	protein_coding	KNOWN	None	2637	1062	353	99354604	99381808	-1	CYP3A3	None
17	None	ENSG00000265788	ENST00000583179	lincRNA	KNOWN	None	None	None	None	25988575	25990684	-1	None	None
20	DHX35	ENSG00000101452	ENST00000373325	protein_coding	NOVEL	None	15861	2040	679	37590942	37668364	1	C20orf15, DDX35	FLJ22759, KAIA0875
20	DHX35	ENSG00000101452	ENST00000252011	protein_coding	KNOWN	CCDS13310	15861	2112	703	37590978	37668366	1	C20orf15, DDX35	FLJ22759, KAIA0875
20	DHX35	ENSG00000101452	ENST00000373323	protein_coding	KNOWN	CCDS54463	15861	2019	672	37590987	37667490	1	C20orf15, DDX35	FLJ22759, KAIA0875
20	DHX35	ENSG00000101452	ENST00000484417	nonsense_mediated_decay	KNOWN	None	15861	381	126	37591003	37668364	1	C20orf15, DDX35	FLJ22759, KAIA0875
20	DHX35	ENSG00000101452	ENST00000449559	protein_coding	NOVEL	None	15861	504	167	37650516	37667289	1	C20orf15, DDX35	FLJ22759, KAIA0875
20	DHX35	ENSG00000101452	ENST00000493450	retained_intron	KNOWN	None	15861	None	None	37657821	37668366	1	C20orf15, DDX35	FLJ22759, KAIA0875
20	DHX35	ENSG00000101452	ENST00000482619	retained_intron	KNOWN	None	15861	None	None	37659003	37667279	1	C20orf15, DDX35	FLJ22759, KAIA0875
17	FDXR	ENSG00000161513	ENST00000583881	nonsense_mediated_decay	KNOWN	None	3642	231	76	72858619	72869138	-1	ADXR	None
17	FDXR	ENSG00000161513	ENST00000293195	protein_coding	KNOWN	CCDS58593	3642	1476	491	72858619	72869148	-1	ADXR	None
17	FDXR	ENSG00000161513	ENST00000544854	protein_coding	PUTATIVE	CCDS58591	3642	1320	439	72858620	72864876	-1	ADXR	None
17	FDXR	ENSG00000161513	ENST00000420580	protein_coding	NOVEL	CCDS58594	3642	1356	451	72858620	72869099	-1	ADXR	None
17	FDXR	ENSG00000161513	ENST00000578473	retained_intron	KNOWN	None	3642	None	None	72858621	72869131	-1	ADXR	None
17	FDXR	ENSG00000161513	ENST00000581530	protein_coding	KNOWN	CCDS11707	3642	1494	497	72858623	72869086	-1	ADXR	None
17	FDXR	ENSG00000161513	ENST00000579482	nonsense_mediated_decay	KNOWN	None	3642	141	46	72858623	72869101	-1	ADXR	None
17	FDXR	ENSG00000161513	ENST00000577509	nonsense_mediated_decay	KNOWN	None	3642	141	46	72858627	72869093	-1	ADXR	None
17	FDXR	ENSG00000161513	ENST00000583917	protein_coding	NOVEL	None	3642	1392	463	72858640	72869140	-1	ADXR	None
17	FDXR	ENSG00000161513	ENST00000442102	protein_coding	NOVEL	CCDS58595	3642	1605	534	72858664	72869156	-1	ADXR	None
17	FDXR	ENSG00000161513	ENST00000582944	protein_coding	NOVEL	CCDS58592	3642	1452	483	72858666	72869110	-1	ADXR	None
17	FDXR	ENSG00000161513	ENST00000413947	protein_coding	NOVEL	CCDS58596	3642	1569	522	72858731	72869101	-1	ADXR	None
17	FDXR	ENSG00000161513	ENST00000582710	nonsense_mediated_decay	KNOWN	None	3642	139	45	72860398	72869067	-1	ADXR	None
17	FDXR	ENSG00000161513	ENST00000579893	protein_coding	PUTATIVE	None	3642	492	163	72861018	72864754	-1	ADXR	None
17	FDXR	ENSG00000161513	ENST00000580492	nonsense_mediated_decay	KNOWN	None	3642	276	91	72862253	72869093	-1	ADXR	None
17	FDXR	ENSG00000161513	ENST00000581969	processed_transcript	KNOWN	None	3642	None	None	72862259	72864596	-1	ADXR	None
17	FDXR	ENSG00000161513	ENST00000579543	nonsense_mediated_decay	KNOWN	None	3642	141	46	72862303	72869099	-1	ADXR	None
17	FDXR	ENSG00000161513	ENST00000581219	protein_coding	NOVEL	None	3642	534	177	72862331	72869102	-1	ADXR	None
17	FDXR	ENSG00000161513	ENST00000577932	retained_intron	KNOWN	None	3642	None	None	72862634	72869099	-1	ADXR	None
17	FDXR	ENSG00000161513	ENST00000455107	protein_coding	KNOWN	None	3642	1146	381	72858623	72869101	-1	ADXR	None
14	ADCK1	ENSG00000063761	ENST00000238561	protein_coding	KNOWN	CCDS9869	19038	1572	523	78266426	78400297	1	None	FLJ39600
14	ADCK1	ENSG00000063761	ENST00000556048	nonsense_mediated_decay	KNOWN	None	19038	369	122	78266460	78353592	1	None	FLJ39600
14	ADCK1	ENSG00000063761	ENST00000393639	nonsense_mediated_decay	KNOWN	None	19038	657	218	78266463	78392304	1	None	FLJ39600
14	ADCK1	ENSG00000063761	ENST00000557501	protein_coding	NOVEL	None	19038	797	264	78266478	78390855	1	None	FLJ39600
14	ADCK1	ENSG00000063761	ENST00000341211	protein_coding	KNOWN	CCDS45144	19038	1368	455	78266482	78400295	1	None	FLJ39600
14	ADCK1	ENSG00000063761	ENST00000555333	processed_transcript	PUTATIVE	None	19038	None	None	78368728	78390918	1	None	FLJ39600
14	ADCK1	ENSG00000063761	ENST00000556560	processed_transcript	KNOWN	None	19038	None	None	78374520	78399864	1	None	FLJ39600
14	ADCK1	ENSG00000063761	ENST00000555217	retained_intron	KNOWN	None	19038	None	None	78389575	78401355	1	None	FLJ39600
3	TMEM212-IT1	ENSG00000235943	ENST00000456146	sense_intronic	KNOWN	None	41505	None	None	171612226	171613030	1	None	None
HSCHR6_MHC_MANN	NRM	ENSG00000228867	ENST00000493410	processed_transcript	KNOWN	None	8003	None	None	30700523	30702829	-1	None	NRM29
HSCHR6_MHC_MANN	NRM	ENSG00000228867	ENST00000434776	protein_coding	KNOWN	None	8003	787	261	30700523	30703199	-1	None	NRM29
HSCHR6_MHC_MANN	NRM	ENSG00000228867	ENST00000485030	processed_transcript	KNOWN	None	8003	None	None	30700523	30703443	-1	None	NRM29
HSCHR6_MHC_MANN	NRM	ENSG00000228867	ENST00000467043	processed_transcript	KNOWN	None	8003	None	None	30700523	30703450	-1	None	NRM29
HSCHR6_MHC_MANN	NRM	ENSG00000228867	ENST00000449041	protein_coding	KNOWN	None	8003	612	203	30700523	30703452	-1	None	NRM29
HSCHR6_MHC_MANN	NRM	ENSG00000228867	ENST00000468014	processed_transcript	KNOWN	None	8003	None	None	30700523	30703462	-1	None	NRM29
HSCHR6_MHC_MANN	NRM	ENSG00000228867	ENST00000462270	processed_transcript	KNOWN	None	8003	None	None	30700523	30703478	-1	None	NRM29
HSCHR6_MHC_MANN	NRM	ENSG00000228867	ENST00000431322	protein_coding	KNOWN	None	8003	789	262	30700523	30703896	-1	None	NRM29
10	MBL1P	ENSG00000242600	ENST00000453174	processed_transcript	KNOWN	None	6921	None	None	81664654	81691557	1	MBL1P1	COLEC3P
10	MBL1P	ENSG00000242600	ENST00000480805	processed_transcript	KNOWN	None	6921	None	None	81679934	81682875	1	MBL1P1	COLEC3P
10	MBL1P	ENSG00000242600	ENST00000497731	unitary_pseudogene	KNOWN	None	6921	None	None	81680083	81682788	1	MBL1P1	COLEC3P
10	MBL1P	ENSG00000242600	ENST00000421889	processed_transcript	KNOWN	None	6921	None	None	81691467	81710092	1	MBL1P1	COLEC3P
6	None	ENSG00000230845	ENST00000412182	unprocessed_pseudogene	KNOWN	None	None	None	None	52737812	52744738	-1	None	None
4	None	ENSG00000260651	ENST00000563833	antisense	KNOWN	None	None	None	None	103421998	103422476	-1	None	None
17	None	ENSG00000265041	ENST00000579001	unprocessed_pseudogene	KNOWN	None	None	None	None	25993775	25999829	-1	None	None
7	TRBV9	ENSG00000211716	ENST00000390363	TR_V_gene	KNOWN	None	12246	343	113	142239537	142240058	-1	None	TCRBV1S1A1N1, TCRBV9S1
7	RN7SKP54	ENSG00000222636	ENST00000410704	misc_RNA	KNOWN	None	45778	None	None	100701580	100701848	1	None	None
4	None	ENSG00000238553	ENST00000458904	miRNA	NOVEL	None	None	None	None	103487032	103487124	-1	None	None
7	CCT6P1	ENSG00000228409	ENST00000434500	transcribed_unprocessed_pseudogene	KNOWN	None	33094	None	None	65216129	65228323	1	CCT6AP1	None
7	CCT6P1	ENSG00000228409	ENST00000443108	processed_transcript	KNOWN	None	33094	None	None	65216130	65228341	1	CCT6AP1	None
7	CCT6P1	ENSG00000228409	ENST00000442266	processed_transcript	KNOWN	None	33094	None	None	65216131	65228341	1	CCT6AP1	None
9	RAD23B	ENSG00000119318	ENST00000419616	protein_coding	KNOWN	None	9813	440	145	110045418	110068871	1	None	HHR23B, P58, HR23B
9	RAD23B	ENSG00000119318	ENST00000358015	protein_coding	KNOWN	CCDS6769	9813	1230	409	110045560	110094475	1	None	HHR23B, P58, HR23B
9	RAD23B	ENSG00000119318	ENST00000442587	protein_coding	KNOWN	None	9813	240	79	110046976	110068734	1	None	HHR23B, P58, HR23B
9	RAD23B	ENSG00000119318	ENST00000457811	protein_coding	KNOWN	None	9813	344	113	110068823	110094470	1	None	HHR23B, P58, HR23B
9	RAD23B	ENSG00000119318	ENST00000416373	protein_coding	KNOWN	CCDS59138	9813	1014	337	110046334	110092165	1	None	HHR23B, P58, HR23B
4	None	ENSG00000241981	ENST00000488102	processed_pseudogene	KNOWN	None	None	None	None	103583768	103584230	1	None	None
1	RNU6-304P	ENSG00000201725	ENST00000364855	snRNA	KNOWN	None	47267	None	None	8943486	8943592	-1	None	None
19	None	ENSG00000268105	ENST00000600819	processed_pseudogene	KNOWN	None	None	None	None	23308467	23311345	1	None	None
6	MAP3K4	ENSG00000085511	ENST00000366919	protein_coding	KNOWN	CCDS34566	6856	4677	1558	161412759	161538417	1	MEKK4	MTK1, MAPKKK4, KIAA0213
6	MAP3K4	ENSG00000085511	ENST00000542952	nonsense_mediated_decay	KNOWN	None	6856	258	85	161412801	161494568	1	MEKK4	MTK1, MAPKKK4, KIAA0213
6	MAP3K4	ENSG00000085511	ENST00000392142	protein_coding	KNOWN	CCDS34565	6856	4827	1608	161412816	161538417	1	MEKK4	MTK1, MAPKKK4, KIAA0213
6	MAP3K4	ENSG00000085511	ENST00000366920	protein_coding	NOVEL	None	6856	4815	1604	161412846	161538414	1	MEKK4	MTK1, MAPKKK4, KIAA0213
6	MAP3K4	ENSG00000085511	ENST00000348824	protein_coding	NOVEL	None	6856	4665	1554	161412846	161538414	1	MEKK4	MTK1, MAPKKK4, KIAA0213
6	MAP3K4	ENSG00000085511	ENST00000544041	nonsense_mediated_decay	KNOWN	None	6856	4329	1442	161412876	161538340	1	MEKK4	MTK1, MAPKKK4, KIAA0213
6	MAP3K4	ENSG00000085511	ENST00000490904	nonsense_mediated_decay	KNOWN	None	6856	1911	636	161412876	161538340	1	MEKK4	MTK1, MAPKKK4, KIAA0213
6	MAP3K4	ENSG00000085511	ENST00000448119	protein_coding	PUTATIVE	None	6856	70	22	161443226	161455481	1	MEKK4	MTK1, MAPKKK4, KIAA0213
6	MAP3K4	ENSG00000085511	ENST00000446500	processed_transcript	KNOWN	None	6856	None	None	161455390	161469835	1	MEKK4	MTK1, MAPKKK4, KIAA0213
6	MAP3K4	ENSG00000085511	ENST00000542851	retained_intron	KNOWN	None	6856	None	None	161494361	161507476	1	MEKK4	MTK1, MAPKKK4, KIAA0213
6	MAP3K4	ENSG00000085511	ENST00000540205	retained_intron	KNOWN	None	6856	None	None	161501715	161507631	1	MEKK4	MTK1, MAPKKK4, KIAA0213
6	MAP3K4	ENSG00000085511	ENST00000543421	retained_intron	KNOWN	None	6856	None	None	161517729	161523024	1	MEKK4	MTK1, MAPKKK4, KIAA0213
6	MAP3K4	ENSG00000085511	ENST00000541901	retained_intron	KNOWN	None	6856	None	None	161518198	161529965	1	MEKK4	MTK1, MAPKKK4, KIAA0213
6	MAP3K4	ENSG00000085511	ENST00000544733	retained_intron	KNOWN	None	6856	None	None	161519272	161529786	1	MEKK4	MTK1, MAPKKK4, KIAA0213
6	MAP3K4	ENSG00000085511	ENST00000536852	retained_intron	KNOWN	None	6856	None	None	161522065	161538416	1	MEKK4	MTK1, MAPKKK4, KIAA0213
6	MAP3K4	ENSG00000085511	ENST00000539610	retained_intron	KNOWN	None	6856	None	None	161529911	161530918	1	MEKK4	MTK1, MAPKKK4, KIAA0213
1	GBP5	ENSG00000154451	ENST00000481145	processed_transcript	KNOWN	None	19895	None	None	89724633	89732262	-1	None	None
1	GBP5	ENSG00000154451	ENST00000471171	processed_transcript	KNOWN	None	19895	None	None	89726265	89727957	-1	None	None
1	GBP5	ENSG00000154451	ENST00000370459	protein_coding	KNOWN	CCDS722	19895	1761	586	89726265	89736546	-1	None	None
1	GBP5	ENSG00000154451	ENST00000490568	processed_transcript	KNOWN	None	19895	None	None	89726269	89734539	-1	None	None
1	GBP5	ENSG00000154451	ENST00000443807	protein_coding	KNOWN	None	19895	1450	482	89728381	89738487	-1	None	None
1	GBP5	ENSG00000154451	ENST00000343435	protein_coding	KNOWN	CCDS722	19895	1761	586	89724638	89738544	-1	None	None
12	LINC00944	ENSG00000256128	ENST00000540684	lincRNA	KNOWN	None	48640	None	None	127214333	127256957	-1	None	None
12	LINC00944	ENSG00000256128	ENST00000544499	lincRNA	KNOWN	None	48640	None	None	127216842	127219944	-1	None	None
12	LINC00944	ENSG00000256128	ENST00000546117	lincRNA	KNOWN	None	48640	None	None	127216889	127221377	-1	None	None
12	LINC00944	ENSG00000256128	ENST00000542248	lincRNA	KNOWN	None	48640	None	None	127232602	127256902	-1	None	None
12	LINC00944	ENSG00000256128	ENST00000545508	lincRNA	KNOWN	None	48640	None	None	127236710	127245591	-1	None	None
12	LINC00944	ENSG00000256128	ENST00000536517	lincRNA	KNOWN	None	48640	None	None	127236887	127256808	-1	None	None
16	ZSCAN10	ENSG00000130182	ENST00000252463	protein_coding	KNOWN	CCDS10493	12997	2178	725	3138891	3142861	-1	ZNF206	None
16	ZSCAN10	ENSG00000130182	ENST00000575108	protein_coding	PUTATIVE	None	12997	1161	386	3138895	3149293	-1	ZNF206	None
16	ZSCAN10	ENSG00000130182	ENST00000538082	protein_coding	PUTATIVE	None	12997	1932	643	3138990	3149296	-1	ZNF206	None
16	ZSCAN10	ENSG00000130182	ENST00000571903	retained_intron	KNOWN	None	12997	None	None	3140233	3143237	-1	ZNF206	None
16	ZSCAN10	ENSG00000130182	ENST00000576985	protein_coding	KNOWN	None	12997	1037	344	3140233	3149318	-1	ZNF206	None
16	ZSCAN10	ENSG00000130182	ENST00000572431	protein_coding	PUTATIVE	None	12997	18	5	3140235	3149229	-1	ZNF206	None
16	ZSCAN10	ENSG00000130182	ENST00000572548	protein_coding	PUTATIVE	None	12997	171	56	3140553	3149262	-1	ZNF206	None
16	ZSCAN10	ENSG00000130182	ENST00000576483	protein_coding	KNOWN	None	12997	319	105	3142230	3149295	-1	ZNF206	None
16	ZSCAN10	ENSG00000130182	ENST00000577059	retained_intron	KNOWN	None	12997	None	None	3142452	3149271	-1	ZNF206	None
16	ZSCAN10	ENSG00000130182	ENST00000573931	processed_transcript	PUTATIVE	None	12997	None	None	3146451	3149293	-1	ZNF206	None
10	ABCC2	ENSG00000023839	ENST00000370449	protein_coding	KNOWN	CCDS7484	53	4638	1545	101542489	101611949	1	CMOAT	DJS, MRP2, cMRP
10	ABCC2	ENSG00000023839	ENST00000370434	protein_coding	KNOWN	None	53	882	293	101542520	101557853	1	CMOAT	DJS, MRP2, cMRP
10	ABCC2	ENSG00000023839	ENST00000496621	processed_transcript	KNOWN	None	53	None	None	101552046	101554380	1	CMOAT	DJS, MRP2, cMRP
19	CRLF1	ENSG00000006016	ENST00000594325	processed_transcript	KNOWN	None	2364	None	None	18683030	18705245	-1	None	CLF-1, CLF, CISS, CISS1
19	CRLF1	ENSG00000006016	ENST00000596360	retained_intron	KNOWN	None	2364	None	None	18704047	18704944	-1	None	CLF-1, CLF, CISS, CISS1
19	CRLF1	ENSG00000006016	ENST00000392386	protein_coding	KNOWN	CCDS32962	2364	1269	422	18704047	18717660	-1	None	CLF-1, CLF, CISS, CISS1
19	CRLF1	ENSG00000006016	ENST00000597131	protein_coding	PUTATIVE	None	2364	520	172	18705172	18709403	-1	None	CLF-1, CLF, CISS, CISS1
19	CRLF1	ENSG00000006016	ENST00000593286	processed_transcript	KNOWN	None	2364	None	None	18710510	18718551	-1	None	CLF-1, CLF, CISS, CISS1
9	None	ENSG00000226998	ENST00000443540	unprocessed_pseudogene	KNOWN	None	None	None	None	31505278	31505941	1	None	None
11	None	ENSG00000254863	ENST00000534055	lincRNA	KNOWN	None	None	None	None	119858663	119859543	-1	None	None
11	None	ENSG00000254863	ENST00000526934	lincRNA	KNOWN	None	None	None	None	119859374	119865418	-1	None	None
11	None	ENSG00000254863	ENST00000524708	lincRNA	KNOWN	None	None	None	None	119859473	119865746	-1	None	None
9	None	ENSG00000229080	ENST00000426425	unprocessed_pseudogene	KNOWN	None	None	None	None	31505944	31506613	1	None	None
1	ESPN	ENSG00000187017	ENST00000377828	protein_coding	KNOWN	CCDS70	13281	2565	854	6484848	6521004	1	DFNB36	None
1	ESPN	ENSG00000187017	ENST00000418286	protein_coding	KNOWN	None	13281	641	212	6500438	6505817	1	DFNB36	None
1	ESPN	ENSG00000187017	ENST00000461727	protein_coding	PUTATIVE	None	13281	867	288	6508103	6520989	1	DFNB36	None
1	ESPN	ENSG00000187017	ENST00000475228	processed_transcript	KNOWN	None	13281	None	None	6508527	6520112	1	DFNB36	None
1	ESPN	ENSG00000187017	ENST00000478323	protein_coding	PUTATIVE	None	13281	84	27	6508580	6509018	1	DFNB36	None
1	ESPN	ENSG00000187017	ENST00000475479	processed_transcript	KNOWN	None	13281	None	None	6510434	6512009	1	DFNB36	None
1	ESPN	ENSG00000187017	ENST00000434576	protein_coding	KNOWN	None	13281	565	187	6511718	6521430	1	DFNB36	None
1	ESPN	ENSG00000187017	ENST00000477679	retained_intron	KNOWN	None	13281	None	None	6511777	6520471	1	DFNB36	None
1	ESPN	ENSG00000187017	ENST00000468561	processed_transcript	KNOWN	None	13281	None	None	6520568	6521430	1	DFNB36	None
1	ESPN	ENSG00000187017	ENST00000416731	protein_coding	KNOWN	None	13281	867	288	6508845	6521004	1	DFNB36	None
14	TRAV10	ENSG00000211784	ENST00000390432	TR_V_gene	KNOWN	None	12103	343	113	22293636	22294239	1	None	TCRAV10S1, TCRAV24S1
20	BPIFB1	ENSG00000125999	ENST00000423645	protein_coding	KNOWN	None	16108	442	146	31861286	31878839	1	C20orf114	dJ1187J4.1, MGC14597, bA49G10.6, LPLUNC1, VEMSGP
20	BPIFB1	ENSG00000125999	ENST00000253354	protein_coding	KNOWN	CCDS13218	16108	1455	484	31870941	31897684	1	C20orf114	dJ1187J4.1, MGC14597, bA49G10.6, LPLUNC1, VEMSGP
20	BPIFB1	ENSG00000125999	ENST00000464032	processed_transcript	KNOWN	None	16108	None	None	31886519	31895772	1	C20orf114	dJ1187J4.1, MGC14597, bA49G10.6, LPLUNC1, VEMSGP
1	HMGN2P17	ENSG00000238249	ENST00000425872	processed_pseudogene	KNOWN	None	39381	None	None	8953468	8954210	1	None	None
1	HMGN2P17	ENSG00000238249	ENST00000437767	processed_pseudogene	KNOWN	None	39381	None	None	8953568	8953840	1	None	None
7	TRBV5-3	ENSG00000211715	ENST00000390362	TR_V_gene	KNOWN	None	12220	343	113	142242281	142242747	-1	None	TRBV53, TCRBV5S3, TCRBV5S5P
17	FAM222B	ENSG00000173065	ENST00000581407	protein_coding	KNOWN	CCDS45637	25563	1689	562	27082998	27169841	-1	C17orf63	FLJ10700
17	FAM222B	ENSG00000173065	ENST00000582266	protein_coding	PUTATIVE	None	25563	87	28	27084395	27169802	-1	C17orf63	FLJ10700
17	FAM222B	ENSG00000173065	ENST00000452648	protein_coding	KNOWN	CCDS45637	25563	1689	562	27084408	27139453	-1	C17orf63	FLJ10700
17	FAM222B	ENSG00000173065	ENST00000583307	protein_coding	NOVEL	None	25563	718	238	27086259	27169745	-1	C17orf63	FLJ10700
17	FAM222B	ENSG00000173065	ENST00000582059	protein_coding	PUTATIVE	None	25563	87	28	27086411	27139242	-1	C17orf63	FLJ10700
17	FAM222B	ENSG00000173065	ENST00000583953	protein_coding	PUTATIVE	None	25563	87	28	27086416	27182008	-1	C17orf63	FLJ10700
17	FAM222B	ENSG00000173065	ENST00000577376	protein_coding	KNOWN	None	25563	537	178	27086440	27169808	-1	C17orf63	FLJ10700
17	FAM222B	ENSG00000173065	ENST00000577682	protein_coding	PUTATIVE	None	25563	87	28	27086499	27169808	-1	C17orf63	FLJ10700
17	FAM222B	ENSG00000173065	ENST00000581229	protein_coding	KNOWN	None	25563	408	135	27086569	27169801	-1	C17orf63	FLJ10700
17	FAM222B	ENSG00000173065	ENST00000577513	protein_coding	KNOWN	None	25563	408	135	27086569	27182250	-1	C17orf63	FLJ10700
17	FAM222B	ENSG00000173065	ENST00000583522	protein_coding	PUTATIVE	None	25563	87	28	27086589	27169857	-1	C17orf63	FLJ10700
17	FAM222B	ENSG00000173065	ENST00000581381	protein_coding	PUTATIVE	None	25563	87	28	27086610	27169810	-1	C17orf63	FLJ10700
17	FAM222B	ENSG00000173065	ENST00000584059	protein_coding	PUTATIVE	None	25563	131	42	27086846	27094122	-1	C17orf63	FLJ10700
17	FAM222B	ENSG00000173065	ENST00000579381	nonsense_mediated_decay	KNOWN	None	25563	165	54	27086868	27169841	-1	C17orf63	FLJ10700
17	FAM222B	ENSG00000173065	ENST00000341217	protein_coding	KNOWN	CCDS45637	25563	1689	562	27082996	27169841	-1	C17orf63	FLJ10700
10	CUEDC2	ENSG00000107874	ENST00000465409	processed_transcript	KNOWN	None	28352	None	None	104183002	104184061	-1	C10orf66	MGC2491
10	CUEDC2	ENSG00000107874	ENST00000369937	protein_coding	KNOWN	CCDS41566	28352	864	287	104183002	104192418	-1	C10orf66	MGC2491
10	CUEDC2	ENSG00000107874	ENST00000486762	processed_transcript	KNOWN	None	28352	None	None	104183766	104192325	-1	C10orf66	MGC2491
10	CUEDC2	ENSG00000107874	ENST00000477994	processed_transcript	KNOWN	None	28352	None	None	104183788	104192341	-1	C10orf66	MGC2491
17	None	ENSG00000266771	ENST00000577737	processed_pseudogene	KNOWN	None	None	None	None	26002920	26003023	-1	None	None
19	TMEM38A	ENSG00000072954	ENST00000187762	protein_coding	KNOWN	CCDS12349	28462	900	299	16771938	16800840	1	None	MGC3169, TRIC-A
19	TMEM38A	ENSG00000072954	ENST00000595452	retained_intron	KNOWN	None	28462	None	None	16772053	16791748	1	None	MGC3169, TRIC-A
19	TMEM38A	ENSG00000072954	ENST00000599479	protein_coding	PUTATIVE	None	28462	347	114	16772072	16799817	1	None	MGC3169, TRIC-A
7	TRBV7-3	ENSG00000211714	ENST00000390361	TR_V_gene	KNOWN	None	12237	347	114	142247109	142247615	-1	None	TRBV73, TCRBV6S1A1N1, TCRBV7S3
20	MACROD2-AS1	ENSG00000235914	ENST00000455291	antisense	KNOWN	None	37193	None	None	14864899	14910132	-1	NCRNA00186	None
20	MACROD2-AS1	ENSG00000235914	ENST00000439451	antisense	KNOWN	None	37193	None	None	14885587	14910161	-1	NCRNA00186	None
17	SLC47A2	ENSG00000180638	ENST00000325411	protein_coding	KNOWN	CCDS11211	26439	1809	602	19581601	19619919	-1	None	FLJ31196, MATE2, MATE2-K
17	SLC47A2	ENSG00000180638	ENST00000467609	retained_intron	KNOWN	None	26439	None	None	19581628	19619879	-1	None	FLJ31196, MATE2, MATE2-K
17	SLC47A2	ENSG00000180638	ENST00000463318	processed_transcript	KNOWN	None	26439	None	None	19581628	19622292	-1	None	FLJ31196, MATE2, MATE2-K
17	SLC47A2	ENSG00000180638	ENST00000350657	protein_coding	KNOWN	CCDS58530	26439	1743	580	19581632	19620043	-1	None	FLJ31196, MATE2, MATE2-K
17	SLC47A2	ENSG00000180638	ENST00000574239	nonsense_mediated_decay	KNOWN	None	26439	660	219	19581834	19619886	-1	None	FLJ31196, MATE2, MATE2-K
17	SLC47A2	ENSG00000180638	ENST00000433844	protein_coding	NOVEL	None	26439	1089	362	19606410	19620043	-1	None	FLJ31196, MATE2, MATE2-K
17	SLC47A2	ENSG00000180638	ENST00000574220	retained_intron	KNOWN	None	26439	None	None	19606423	19618191	-1	None	FLJ31196, MATE2, MATE2-K
17	SLC47A2	ENSG00000180638	ENST00000467379	retained_intron	KNOWN	None	26439	None	None	19608324	19620756	-1	None	FLJ31196, MATE2, MATE2-K
17	SLC47A2	ENSG00000180638	ENST00000483510	retained_intron	KNOWN	None	26439	None	None	19617760	19619965	-1	None	FLJ31196, MATE2, MATE2-K
17	SLC47A2	ENSG00000180638	ENST00000456947	retained_intron	KNOWN	None	26439	None	None	19619037	19622150	-1	None	FLJ31196, MATE2, MATE2-K
17	None	ENSG00000264240	ENST00000579660	processed_pseudogene	KNOWN	None	None	None	None	26004831	26005113	-1	None	None
12	None	ENSG00000255923	ENST00000539832	processed_pseudogene	KNOWN	None	None	None	None	127349011	127349968	1	None	None
16	EIF3C	ENSG00000184110	ENST00000566501	protein_coding	KNOWN	CCDS10638	3279	2742	913	28699879	28746919	1	EIF3S8	eIF3-p110, eIF3c
16	EIF3C	ENSG00000184110	ENST00000331666	protein_coding	KNOWN	CCDS10638	3279	2742	913	28722684	28747051	1	EIF3S8	eIF3-p110, eIF3c
16	EIF3C	ENSG00000184110	ENST00000569690	protein_coding	KNOWN	None	3279	446	147	28722784	28725730	1	EIF3S8	eIF3-p110, eIF3c
16	EIF3C	ENSG00000184110	ENST00000564243	protein_coding	NOVEL	None	3279	2712	903	28722795	28746917	1	EIF3S8	eIF3-p110, eIF3c
16	EIF3C	ENSG00000184110	ENST00000566866	protein_coding	KNOWN	CCDS10638	3279	2742	913	28722848	28746918	1	EIF3S8	eIF3-p110, eIF3c
16	EIF3C	ENSG00000184110	ENST00000563139	protein_coding	PUTATIVE	None	3279	239	78	28723358	28725733	1	EIF3S8	eIF3-p110, eIF3c
16	EIF3C	ENSG00000184110	ENST00000568426	protein_coding	PUTATIVE	None	3279	398	131	28724580	28726209	1	EIF3S8	eIF3-p110, eIF3c
16	EIF3C	ENSG00000184110	ENST00000565099	processed_transcript	KNOWN	None	3279	None	None	28731820	28734538	1	EIF3S8	eIF3-p110, eIF3c
16	EIF3C	ENSG00000184110	ENST00000565932	retained_intron	KNOWN	None	3279	None	None	28732576	28746916	1	EIF3S8	eIF3-p110, eIF3c
16	EIF3C	ENSG00000184110	ENST00000564839	retained_intron	KNOWN	None	3279	None	None	28737583	28738393	1	EIF3S8	eIF3-p110, eIF3c
16	EIF3C	ENSG00000184110	ENST00000566519	retained_intron	KNOWN	None	3279	None	None	28738020	28738864	1	EIF3S8	eIF3-p110, eIF3c
16	EIF3C	ENSG00000184110	ENST00000569005	retained_intron	KNOWN	None	3279	None	None	28743494	28746766	1	EIF3S8	eIF3-p110, eIF3c
16	EIF3C	ENSG00000184110	ENST00000566086	retained_intron	KNOWN	None	3279	None	None	28746240	28746911	1	EIF3S8	eIF3-p110, eIF3c
16	EIF3C	ENSG00000184110	ENST00000395587	protein_coding	KNOWN	CCDS10638	3279	2742	913	28722782	28747048	1	EIF3S8	eIF3-p110, eIF3c
HSCHR6_MHC_QBL	NOTCH4	ENSG00000206312	ENST00000383264	protein_coding	KNOWN	None	7884	6012	2003	32120241	32149468	-1	INT3	None
HSCHR6_MHC_QBL	NOTCH4	ENSG00000206312	ENST00000476219	retained_intron	KNOWN	None	7884	None	None	32120241	32129577	-1	INT3	None
HSCHR6_MHC_QBL	NOTCH4	ENSG00000206312	ENST00000468933	retained_intron	KNOWN	None	7884	None	None	32120241	32122374	-1	INT3	None
HSCHR6_MHC_QBL	NOTCH4	ENSG00000206312	ENST00000461090	processed_transcript	KNOWN	None	7884	None	None	32136331	32139638	-1	INT3	None
HSCHR6_MHC_QBL	NOTCH4	ENSG00000206312	ENST00000464153	retained_intron	KNOWN	None	7884	None	None	32141261	32149458	-1	INT3	None
7	SCRN1	ENSG00000136193	ENST00000242059	protein_coding	KNOWN	CCDS5422	22192	1245	414	29959719	30029414	-1	None	KIAA0193
7	SCRN1	ENSG00000136193	ENST00000425819	protein_coding	KNOWN	CCDS47568	22192	1041	346	29963178	30029328	-1	None	KIAA0193
7	SCRN1	ENSG00000136193	ENST00000409497	protein_coding	KNOWN	CCDS5422	22192	1245	414	29963290	30008887	-1	None	KIAA0193
7	SCRN1	ENSG00000136193	ENST00000434476	protein_coding	KNOWN	CCDS47567	22192	1305	434	29963528	30029905	-1	None	KIAA0193
7	SCRN1	ENSG00000136193	ENST00000421434	protein_coding	KNOWN	None	22192	737	244	29980300	30029821	-1	None	KIAA0193
7	SCRN1	ENSG00000136193	ENST00000494620	processed_transcript	KNOWN	None	22192	None	None	29983660	30029688	-1	None	KIAA0193
7	SCRN1	ENSG00000136193	ENST00000438497	protein_coding	KNOWN	None	22192	424	140	29983713	30009554	-1	None	KIAA0193
7	SCRN1	ENSG00000136193	ENST00000409570	protein_coding	PUTATIVE	None	22192	423	140	29986815	30029346	-1	None	KIAA0193
7	SCRN1	ENSG00000136193	ENST00000426154	protein_coding	KNOWN	CCDS5422	22192	1245	414	29959720	30029734	-1	None	KIAA0193
7	SCRN1	ENSG00000136193	ENST00000416113	protein_coding	KNOWN	None	22192	723	240	29963405	29994858	-1	None	KIAA0193
16	TMED6	ENSG00000157315	ENST00000288025	protein_coding	KNOWN	CCDS10878	28331	723	240	69377151	69385712	-1	None	MGC23911
16	TMED6	ENSG00000157315	ENST00000568748	retained_intron	KNOWN	None	28331	None	None	69377392	69382312	-1	None	MGC23911
17	None	ENSG00000264689	ENST00000584523	processed_pseudogene	KNOWN	None	None	None	None	26009502	26009763	1	None	None
6	TINAG	ENSG00000137251	ENST00000486436	processed_transcript	KNOWN	None	14599	None	None	54172657	54191638	1	None	None
6	TINAG	ENSG00000137251	ENST00000370869	protein_coding	KNOWN	None	14599	618	205	54172764	54192008	1	None	None
6	TINAG	ENSG00000137251	ENST00000259782	protein_coding	KNOWN	CCDS4955	14599	1431	476	54173253	54254950	1	None	None
6	TINAG	ENSG00000137251	ENST00000370864	protein_coding	KNOWN	None	14599	612	203	54173371	54191804	1	None	None
19	SNX6P1	ENSG00000267920	ENST00000601728	processed_pseudogene	KNOWN	None	41511	None	None	23309371	23310594	-1	None	None
3	GRK7	ENSG00000114124	ENST00000264952	protein_coding	KNOWN	CCDS3120	17031	1662	553	141496990	141537332	1	GPRK7	None
12	None	ENSG00000249873	ENST00000507482	lincRNA	KNOWN	None	None	None	None	127354036	127359236	-1	None	None
12	None	ENSG00000249873	ENST00000541348	lincRNA	KNOWN	None	None	None	None	127354647	127359196	-1	None	None
12	None	ENSG00000249873	ENST00000544727	lincRNA	KNOWN	None	None	None	None	127355012	127359211	-1	None	None
17	None	ENSG00000263604	ENST00000584894	processed_pseudogene	KNOWN	None	None	None	None	26010972	26011170	-1	None	None
10	HHEX	ENSG00000152804	ENST00000282728	protein_coding	KNOWN	CCDS7423	4901	813	270	94447945	94455403	1	PRHX	HEX, HOX11L-PEN
10	HHEX	ENSG00000152804	ENST00000551454	retained_intron	KNOWN	None	4901	None	None	94449712	94452240	1	PRHX	HEX, HOX11L-PEN
10	HHEX	ENSG00000152804	ENST00000472590	protein_coding	PUTATIVE	None	4901	297	98	94450843	94454845	1	PRHX	HEX, HOX11L-PEN
10	HHEX	ENSG00000152804	ENST00000492654	protein_coding	PUTATIVE	None	4901	297	98	94451612	94454545	1	PRHX	HEX, HOX11L-PEN
13	SUGT1	ENSG00000165416	ENST00000483074	processed_transcript	KNOWN	None	16987	None	None	53226844	53239784	1	None	SGT1
13	SUGT1	ENSG00000165416	ENST00000343788	protein_coding	KNOWN	CCDS45050	16987	1098	365	53226974	53262007	1	None	SGT1
13	SUGT1	ENSG00000165416	ENST00000310528	protein_coding	KNOWN	CCDS9436	16987	1002	333	53227001	53262433	1	None	SGT1
13	SUGT1	ENSG00000165416	ENST00000535397	protein_coding	KNOWN	None	16987	834	277	53226979	53262426	1	None	SGT1
19	None	ENSG00000221478	ENST00000408551	miRNA	NOVEL	None	None	None	None	23369034	23369139	1	None	None
17	RN7SL576P	ENSG00000263472	ENST00000584956	misc_RNA	KNOWN	None	46592	None	None	26029938	26030241	1	None	None
17	None	ENSG00000265833	ENST00000577321	processed_pseudogene	KNOWN	None	None	None	None	26034204	26034276	1	None	None
7	TRBV6-4	ENSG00000211713	ENST00000390360	TR_V_gene	KNOWN	None	12229	344	113	142250703	142251158	-1	None	TRBV64, TCRBV13S5, TCRBV6S4
8	None	ENSG00000254339	ENST00000521523	lincRNA	KNOWN	None	None	None	None	115294296	115308036	1	None	None
8	None	ENSG00000254339	ENST00000523682	lincRNA	KNOWN	None	None	None	None	115294298	115308042	1	None	None
8	None	ENSG00000254339	ENST00000507929	lincRNA	KNOWN	None	None	None	None	115294301	115307853	1	None	None
8	None	ENSG00000254339	ENST00000520543	lincRNA	KNOWN	None	None	None	None	115294302	115308068	1	None	None
8	None	ENSG00000254339	ENST00000519248	lincRNA	KNOWN	None	None	None	None	115294365	115300225	1	None	None
11	LRRC4C	ENSG00000148948	ENST00000278198	protein_coding	NOVEL	CCDS31464	29317	1923	640	40135753	40315664	-1	None	KIAA1580, NGL-1
11	LRRC4C	ENSG00000148948	ENST00000527150	protein_coding	KNOWN	CCDS31464	29317	1923	640	40135791	40314680	-1	None	KIAA1580, NGL-1
11	LRRC4C	ENSG00000148948	ENST00000528697	protein_coding	KNOWN	CCDS31464	29317	1923	640	40135843	41481135	-1	None	KIAA1580, NGL-1
11	LRRC4C	ENSG00000148948	ENST00000530763	protein_coding	KNOWN	CCDS31464	29317	1923	640	40135843	41481323	-1	None	KIAA1580, NGL-1
11	LRRC4C	ENSG00000148948	ENST00000533474	protein_coding	KNOWN	None	29317	123	40	40137720	40263433	-1	None	KIAA1580, NGL-1
11	LRRC4C	ENSG00000148948	ENST00000534577	processed_transcript	KNOWN	None	29317	None	None	40669774	41481186	-1	None	KIAA1580, NGL-1
HSCHR6_MHC_COX	None	ENSG00000257549	ENST00000549071	pseudogene	NOVEL	None	None	None	None	30445941	30446025	1	None	None
3	NCBP2	ENSG00000114503	ENST00000467803	processed_transcript	PUTATIVE	None	7659	None	None	196662273	196664561	-1	None	NIP1, CBP20, Cbc2
3	NCBP2	ENSG00000114503	ENST00000447325	protein_coding	PUTATIVE	None	7659	261	86	196662277	196669248	-1	None	NIP1, CBP20, Cbc2
3	NCBP2	ENSG00000114503	ENST00000463783	retained_intron	KNOWN	None	7659	None	None	196662278	196669431	-1	None	NIP1, CBP20, Cbc2
3	NCBP2	ENSG00000114503	ENST00000321256	protein_coding	KNOWN	CCDS3323	7659	471	156	196662278	196669468	-1	None	NIP1, CBP20, Cbc2
3	NCBP2	ENSG00000114503	ENST00000428425	nonsense_mediated_decay	KNOWN	None	7659	165	54	196662280	196669465	-1	None	NIP1, CBP20, Cbc2
3	NCBP2	ENSG00000114503	ENST00000427641	protein_coding	NOVEL	CCDS46986	7659	312	103	196662305	196669431	-1	None	NIP1, CBP20, Cbc2
3	NCBP2	ENSG00000114503	ENST00000452404	protein_coding	PUTATIVE	None	7659	417	138	196663648	196669311	-1	None	NIP1, CBP20, Cbc2
3	NCBP2	ENSG00000114503	ENST00000468923	retained_intron	KNOWN	None	7659	None	None	196663704	196669394	-1	None	NIP1, CBP20, Cbc2
3	NCBP2	ENSG00000114503	ENST00000422610	protein_coding	PUTATIVE	None	7659	261	86	196663797	196668777	-1	None	NIP1, CBP20, Cbc2
3	NCBP2	ENSG00000114503	ENST00000411704	protein_coding	NOVEL	None	7659	249	82	196663894	196669307	-1	None	NIP1, CBP20, Cbc2
3	NCBP2	ENSG00000114503	ENST00000479647	retained_intron	KNOWN	None	7659	None	None	196664211	196668640	-1	None	NIP1, CBP20, Cbc2
3	NCBP2	ENSG00000114503	ENST00000482976	retained_intron	KNOWN	None	7659	None	None	196665774	196669379	-1	None	NIP1, CBP20, Cbc2
3	NCBP2	ENSG00000114503	ENST00000455953	protein_coding	PUTATIVE	None	7659	46	14	196666126	196668727	-1	None	NIP1, CBP20, Cbc2
19	None	ENSG00000269471	ENST00000598402	processed_pseudogene	KNOWN	None	None	None	None	23386812	23387358	1	None	None
HSCHR6_MHC_COX	None	ENSG00000257154	ENST00000546958	pseudogene	NOVEL	None	None	None	None	30446362	30446488	-1	None	None
19	None	ENSG00000268469	ENST00000601117	processed_pseudogene	KNOWN	None	None	None	None	23419110	23419653	1	None	None
HSCHR6_MHC_COX	None	ENSG00000257321	ENST00000551502	pseudogene	NOVEL	None	None	None	None	30449477	30449561	1	None	None
3	None	ENSG00000237483	ENST00000452665	processed_pseudogene	KNOWN	None	None	None	None	171943218	171943662	-1	None	None
17	None	ENSG00000266416	ENST00000579054	processed_pseudogene	KNOWN	None	None	None	None	26035137	26035164	1	None	None
7	TRBV19	ENSG00000211746	ENST00000390393	TR_V_gene	KNOWN	None	12194	344	113	142326363	142327046	1	None	TCRBV17S1A1T, TCRBV19S1
7	None	ENSG00000267906	ENST00000597084	protein_coding	NOVEL	None	None	381	126	16828866	16829246	1	None	None
15	None	ENSG00000259310	ENST00000560145	processed_transcript	KNOWN	None	None	None	None	83087381	83102960	1	None	None
19	RGL3	ENSG00000205517	ENST00000562663	nonsense_mediated_decay	KNOWN	None	30282	751	249	11495017	11529949	-1	None	FLJ32585
19	RGL3	ENSG00000205517	ENST00000563726	nonsense_mediated_decay	KNOWN	None	30282	546	181	11495188	11529986	-1	None	FLJ32585
19	RGL3	ENSG00000205517	ENST00000566153	retained_intron	KNOWN	None	30282	None	None	11504732	11521946	-1	None	FLJ32585
19	RGL3	ENSG00000205517	ENST00000380456	protein_coding	KNOWN	CCDS32910	30282	2133	710	11504733	11530018	-1	None	FLJ32585
19	RGL3	ENSG00000205517	ENST00000568628	processed_transcript	KNOWN	None	30282	None	None	11504740	11508222	-1	None	FLJ32585
19	RGL3	ENSG00000205517	ENST00000393423	protein_coding	KNOWN	CCDS54221	30282	2151	716	11505001	11530004	-1	None	FLJ32585
19	RGL3	ENSG00000205517	ENST00000566919	retained_intron	KNOWN	None	30282	None	None	11507920	11508445	-1	None	FLJ32585
19	RGL3	ENSG00000205517	ENST00000589032	nonsense_mediated_decay	KNOWN	None	30282	232	76	11512754	11517278	-1	None	FLJ32585
19	RGL3	ENSG00000205517	ENST00000453604	retained_intron	KNOWN	None	30282	None	None	11512904	11529990	-1	None	FLJ32585
19	RGL3	ENSG00000205517	ENST00000565895	retained_intron	KNOWN	None	30282	None	None	11515888	11517619	-1	None	FLJ32585
19	RGL3	ENSG00000205517	ENST00000569439	retained_intron	KNOWN	None	30282	None	None	11517412	11529993	-1	None	FLJ32585
19	RGL3	ENSG00000205517	ENST00000561687	retained_intron	KNOWN	None	30282	None	None	11517500	11526910	-1	None	FLJ32585
19	RGL3	ENSG00000205517	ENST00000567431	protein_coding	PUTATIVE	None	30282	530	175	11526612	11529249	-1	None	FLJ32585
19	RGL3	ENSG00000205517	ENST00000563436	processed_transcript	KNOWN	None	30282	None	None	11526683	11527504	-1	None	FLJ32585
19	RGL3	ENSG00000205517	ENST00000567080	protein_coding	PUTATIVE	None	30282	501	166	11526715	11529990	-1	None	FLJ32585
19	RGL3	ENSG00000205517	ENST00000568420	retained_intron	KNOWN	None	30282	None	None	11527137	11529981	-1	None	FLJ32585
19	RGL3	ENSG00000205517	ENST00000561570	processed_transcript	KNOWN	None	30282	None	None	11527524	11529993	-1	None	FLJ32585
2	RBM44	ENSG00000177483	ENST00000480583	retained_intron	KNOWN	None	24756	None	None	238707032	238751451	1	None	FLJ40411
2	RBM44	ENSG00000177483	ENST00000444524	processed_transcript	PUTATIVE	None	24756	None	None	238707395	238728979	1	None	FLJ40411
2	RBM44	ENSG00000177483	ENST00000409864	protein_coding	KNOWN	CCDS46554	24756	3159	1052	238707821	238743080	1	None	FLJ40411
2	RBM44	ENSG00000177483	ENST00000491996	retained_intron	KNOWN	None	24756	None	None	238742636	238743514	1	None	FLJ40411
2	RBM44	ENSG00000177483	ENST00000316997	protein_coding	KNOWN	CCDS46554	24756	3159	1052	238707388	238751450	1	None	FLJ40411
X	GPR82	ENSG00000171657	ENST00000302548	protein_coding	KNOWN	CCDS14259	4533	1011	336	41583408	41589388	1	None	None
X	GPR82	ENSG00000171657	ENST00000497180	processed_transcript	KNOWN	None	4533	None	None	41587386	41588024	1	None	None
17	None	ENSG00000266786	ENST00000580112	unprocessed_pseudogene	KNOWN	None	None	None	None	26073158	26081980	1	None	None
2	GEMIN6	ENSG00000152147	ENST00000409011	protein_coding	PUTATIVE	None	20044	210	69	38978676	39009107	1	None	FLJ23459
2	GEMIN6	ENSG00000152147	ENST00000281950	protein_coding	KNOWN	CCDS1799	20044	504	167	39005327	39009598	1	None	FLJ23459
2	GEMIN6	ENSG00000152147	ENST00000409566	protein_coding	PUTATIVE	None	20044	336	111	39005352	39009089	1	None	FLJ23459
17	IFI35	ENSG00000068079	ENST00000415816	protein_coding	KNOWN	None	5399	861	286	41158742	41166473	1	None	IFP35
17	IFI35	ENSG00000068079	ENST00000438323	protein_coding	KNOWN	CCDS11450	5399	867	288	41158757	41166473	1	None	IFP35
17	IFI35	ENSG00000068079	ENST00000246911	retained_intron	KNOWN	None	5399	None	None	41158802	41165599	1	None	IFP35
17	IFI35	ENSG00000068079	ENST00000536969	processed_transcript	KNOWN	None	5399	None	None	41158805	41165061	1	None	IFP35
17	IFI35	ENSG00000068079	ENST00000396722	retained_intron	KNOWN	None	5399	None	None	41158825	41164629	1	None	IFP35
17	IFI35	ENSG00000068079	ENST00000538473	retained_intron	KNOWN	None	5399	None	None	41164078	41165381	1	None	IFP35
17	IFI35	ENSG00000068079	ENST00000546325	retained_intron	KNOWN	None	5399	None	None	41164967	41165665	1	None	IFP35
17	IFI35	ENSG00000068079	ENST00000534876	retained_intron	KNOWN	None	5399	None	None	41165195	41165676	1	None	IFP35
1	None	ENSG00000232208	ENST00000424862	processed_pseudogene	KNOWN	None	None	None	None	8967452	8967803	-1	None	None
19	None	ENSG00000269837	ENST00000593576	processed_transcript	KNOWN	None	None	None	None	23437855	23440741	-1	None	None
19	None	ENSG00000269837	ENST00000600039	transcribed_processed_pseudogene	KNOWN	None	None	None	None	23437950	23438236	-1	None	None
6	HIST1H2BPS2	ENSG00000217646	ENST00000402707	processed_pseudogene	KNOWN	None	4754	None	None	27831840	27832179	-1	H2BFIP	pH2B/i
16	None	ENSG00000261811	ENST00000566684	lincRNA	KNOWN	None	None	None	None	5265395	5270595	-1	None	None
15	CSPG4P10	ENSG00000205271	ENST00000560984	unprocessed_pseudogene	KNOWN	None	48361	None	None	83128128	83138742	1	None	None
15	CSPG4P10	ENSG00000205271	ENST00000379430	unprocessed_pseudogene	KNOWN	None	48361	None	None	83133437	83145983	1	None	None
7	TRBV20-1	ENSG00000211747	ENST00000390394	TR_V_gene	KNOWN	None	12196	335	110	142334163	142334913	1	None	TRBV201, TCRBV20S1, TCRBV2S1
6	RNU7-26P	ENSG00000238610	ENST00000458980	snRNA	KNOWN	None	34122	None	None	27865282	27865344	-1	None	U7.26
17	None	ENSG00000266527	ENST00000581901	antisense	KNOWN	None	None	None	None	26201671	26208263	1	None	None
5	None	ENSG00000243758	ENST00000468042	processed_pseudogene	KNOWN	None	None	None	None	116636800	116637138	-1	None	None
6	OR2W6P	ENSG00000168126	ENST00000439689	unprocessed_pseudogene	KNOWN	None	15072	None	None	27905243	27906181	1	OR2W7P	None
15	None	ENSG00000262560	ENST00000417761	nonsense_mediated_decay	KNOWN	None	None	329	108	44064815	44091331	-1	None	None
19	None	ENSG00000269107	ENST00000594653	lincRNA	KNOWN	None	None	None	None	23440057	23457034	-1	None	None
3	RN7SL141P	ENSG00000243398	ENST00000484215	misc_RNA	KNOWN	None	46157	None	None	171955116	171955384	1	None	None
5	None	ENSG00000248663	ENST00000514186	lincRNA	KNOWN	None	None	None	None	116751205	116881993	1	None	None
5	None	ENSG00000248663	ENST00000504107	lincRNA	KNOWN	None	None	None	None	116790959	116815063	1	None	None
17	None	ENSG00000260019	ENST00000567574	lincRNA	KNOWN	None	None	None	None	26256574	26301249	-1	None	None
7	TRBV23-1	ENSG00000211749	ENST00000390396	TR_V_gene	KNOWN	None	12201	347	114	142353468	142353964	1	None	TRBV231, TCRBV19S1P, TCRBV23S1
17	VEZF1	ENSG00000136451	ENST00000258963	protein_coding	NOVEL	None	12949	1022	339	56048910	56060225	-1	ZNF161	DB1
17	VEZF1	ENSG00000136451	ENST00000584396	protein_coding	PUTATIVE	None	12949	1539	512	56051120	56062709	-1	ZNF161	DB1
17	VEZF1	ENSG00000136451	ENST00000581208	protein_coding	KNOWN	CCDS32687	12949	1566	521	56051120	56065513	-1	ZNF161	DB1
17	VEZF1	ENSG00000136451	ENST00000583932	protein_coding	PUTATIVE	None	12949	49	15	56060271	56065620	-1	ZNF161	DB1
9	None	ENSG00000235138	ENST00000412181	antisense	KNOWN	None	None	None	None	136919412	136923927	1	None	None
3	BZW1P1	ENSG00000236686	ENST00000454901	processed_pseudogene	KNOWN	None	31378	None	None	172143640	172144879	-1	None	None
17	None	ENSG00000251818	ENST00000516009	snoRNA	NOVEL	None	None	None	None	26345796	26345933	1	None	None
15	GCNT3	ENSG00000140297	ENST00000558721	processed_transcript	KNOWN	None	4205	None	None	59887074	59910421	1	None	C2GnT-M, C2/4GnT, C2GnT2
15	GCNT3	ENSG00000140297	ENST00000560874	processed_transcript	KNOWN	None	4205	None	None	59887928	59908938	1	None	C2GnT-M, C2/4GnT, C2GnT2
15	GCNT3	ENSG00000140297	ENST00000560580	processed_transcript	KNOWN	None	4205	None	None	59891842	59909008	1	None	C2GnT-M, C2/4GnT, C2GnT2
15	GCNT3	ENSG00000140297	ENST00000560111	processed_transcript	KNOWN	None	4205	None	None	59891852	59903875	1	None	C2GnT-M, C2/4GnT, C2GnT2
15	GCNT3	ENSG00000140297	ENST00000559189	protein_coding	KNOWN	None	4205	262	86	59891876	59910699	1	None	C2GnT-M, C2/4GnT, C2GnT2
15	GCNT3	ENSG00000140297	ENST00000560585	protein_coding	KNOWN	CCDS10172	4205	1317	438	59903983	59912207	1	None	C2GnT-M, C2/4GnT, C2GnT2
15	GCNT3	ENSG00000140297	ENST00000396065	protein_coding	KNOWN	CCDS10172	4205	1317	438	59903983	59913023	1	None	C2GnT-M, C2/4GnT, C2GnT2
15	GCNT3	ENSG00000140297	ENST00000559626	protein_coding	KNOWN	None	4205	160	52	59908633	59910597	1	None	C2GnT-M, C2/4GnT, C2GnT2
15	GCNT3	ENSG00000140297	ENST00000560210	processed_transcript	PUTATIVE	None	4205	None	None	59908730	59932438	1	None	C2GnT-M, C2/4GnT, C2GnT2
15	GCNT3	ENSG00000140297	ENST00000559200	protein_coding	KNOWN	None	4205	459	152	59910138	59910896	1	None	C2GnT-M, C2/4GnT, C2GnT2
6	FKBP1C	ENSG00000198225	ENST00000370659	protein_coding	KNOWN	None	21376	327	108	63921351	63922929	1	None	bA184C23.2
6	FKBP1C	ENSG00000198225	ENST00000356170	protein_coding	KNOWN	None	21376	279	92	63921462	63921788	1	None	bA184C23.2
17	None	ENSG00000266190	ENST00000578374	unprocessed_pseudogene	KNOWN	None	None	None	None	26348694	26349291	-1	None	None
8	None	ENSG00000253499	ENST00000518851	processed_pseudogene	KNOWN	None	None	None	None	115330629	115331140	-1	None	None
9	None	ENSG00000271525	ENST00000605447	processed_pseudogene	KNOWN	None	None	None	None	136944026	136944566	1	None	None
9	HMGB3P23	ENSG00000235148	ENST00000414981	processed_pseudogene	KNOWN	None	39315	None	None	31644574	31645158	-1	None	None
16	None	ENSG00000261248	ENST00000561669	lincRNA	KNOWN	None	None	None	None	74316313	74321417	1	None	None
1	None	ENSG00000232663	ENST00000431968	processed_pseudogene	KNOWN	None	None	None	None	8969801	8969963	1	None	None
19	BRSK1	ENSG00000160469	ENST00000590333	protein_coding	KNOWN	None	18994	2385	794	55793440	55823901	1	None	KIAA1811
19	BRSK1	ENSG00000160469	ENST00000592539	nonsense_mediated_decay	KNOWN	None	18994	190	62	55793572	55805616	1	None	KIAA1811
19	BRSK1	ENSG00000160469	ENST00000309383	protein_coding	KNOWN	CCDS12921	18994	2337	778	55795534	55823901	1	None	KIAA1811
19	BRSK1	ENSG00000160469	ENST00000585418	protein_coding	KNOWN	None	18994	1032	343	55795789	55814289	1	None	KIAA1811
19	BRSK1	ENSG00000160469	ENST00000591774	protein_coding	NOVEL	None	18994	395	130	55813434	55815441	1	None	KIAA1811
19	BRSK1	ENSG00000160469	ENST00000326848	protein_coding	NOVEL	None	18994	1422	473	55813602	55823901	1	None	KIAA1811
19	BRSK1	ENSG00000160469	ENST00000586626	retained_intron	KNOWN	None	18994	None	None	55814514	55816035	1	None	KIAA1811
19	BRSK1	ENSG00000160469	ENST00000588584	processed_transcript	KNOWN	None	18994	None	None	55815416	55816895	1	None	KIAA1811
16	None	ENSG00000260411	ENST00000569895	processed_transcript	KNOWN	None	None	None	None	5289803	6826015	1	None	None
16	None	ENSG00000260411	ENST00000585867	retained_intron	KNOWN	None	None	None	None	5289816	5650152	1	None	None
8	None	ENSG00000253756	ENST00000520688	processed_pseudogene	KNOWN	None	None	None	None	115803882	115804158	-1	None	None
2	EIF5B	ENSG00000158417	ENST00000289371	protein_coding	KNOWN	CCDS42721	30793	3663	1220	99953816	100016728	1	None	IF2, KIAA0741, DKFZp434I036, FLJ10524
2	EIF5B	ENSG00000158417	ENST00000470868	retained_intron	KNOWN	None	30793	None	None	100006070	100007153	1	None	IF2, KIAA0741, DKFZp434I036, FLJ10524
2	EIF5B	ENSG00000158417	ENST00000494190	retained_intron	KNOWN	None	30793	None	None	100011272	100015660	1	None	IF2, KIAA0741, DKFZp434I036, FLJ10524
2	EIF5B	ENSG00000158417	ENST00000470023	retained_intron	KNOWN	None	30793	None	None	100013510	100016237	1	None	IF2, KIAA0741, DKFZp434I036, FLJ10524
16	None	ENSG00000259972	ENST00000566411	antisense	KNOWN	None	None	None	None	74339100	74344205	-1	None	None
16	None	ENSG00000259972	ENST00000565313	antisense	KNOWN	None	None	None	None	74339154	74366511	-1	None	None
16	None	ENSG00000259972	ENST00000561921	antisense	KNOWN	None	None	None	None	74343998	74369244	-1	None	None
9	RNU6ATAC	ENSG00000221676	ENST00000408749	snRNA	KNOWN	None	34017	None	None	137029561	137029686	-1	None	RNU6ATAC1
19	None	ENSG00000213971	ENST00000594766	lincRNA	KNOWN	None	None	None	None	23442708	23457053	-1	None	None
19	None	ENSG00000213971	ENST00000397094	lincRNA	KNOWN	None	None	None	None	23442763	23445436	-1	None	None
19	None	ENSG00000213971	ENST00000598053	lincRNA	KNOWN	None	None	None	None	23442803	23457046	-1	None	None
19	None	ENSG00000213971	ENST00000598599	lincRNA	KNOWN	None	None	None	None	23442824	23457030	-1	None	None
19	None	ENSG00000213971	ENST00000596561	lincRNA	KNOWN	None	None	None	None	23443461	23457050	-1	None	None
19	None	ENSG00000213971	ENST00000598323	lincRNA	KNOWN	None	None	None	None	23443533	23457034	-1	None	None
19	None	ENSG00000213971	ENST00000601239	retained_intron	KNOWN	None	None	None	None	23444026	23446676	-1	None	None
19	None	ENSG00000213971	ENST00000598386	lincRNA	KNOWN	None	None	None	None	23444157	23457049	-1	None	None
19	None	ENSG00000213971	ENST00000593324	lincRNA	KNOWN	None	None	None	None	23451965	23456998	-1	None	None
19	None	ENSG00000213971	ENST00000596483	lincRNA	KNOWN	None	None	None	None	23452565	23456998	-1	None	None
19	None	ENSG00000213971	ENST00000599922	lincRNA	KNOWN	None	None	None	None	23452688	23457049	-1	None	None
15	SNORD16	ENSG00000199673	ENST00000362803	snoRNA	KNOWN	None	32712	None	None	66795150	66795248	-1	None	U16
9	None	ENSG00000223729	ENST00000417135	lincRNA	KNOWN	None	None	None	None	137185777	137187243	-1	None	None
9	RPS6	ENSG00000137154	ENST00000380394	protein_coding	KNOWN	CCDS6492	10429	750	249	19375713	19380252	-1	None	S6
9	RPS6	ENSG00000137154	ENST00000498815	processed_transcript	KNOWN	None	10429	None	None	19376253	19376837	-1	None	S6
9	RPS6	ENSG00000137154	ENST00000380384	protein_coding	KNOWN	None	10429	657	218	19376268	19380204	-1	None	S6
9	RPS6	ENSG00000137154	ENST00000315377	protein_coding	KNOWN	None	10429	657	218	19376283	19380196	-1	None	S6
9	RPS6	ENSG00000137154	ENST00000380381	protein_coding	KNOWN	None	10429	276	91	19378772	19380234	-1	None	S6
8	None	ENSG00000227170	ENST00000415088	antisense	KNOWN	None	None	None	None	116521829	116523552	1	None	None
11	None	ENSG00000255216	ENST00000534423	lincRNA	KNOWN	None	None	None	None	119879313	119882867	-1	None	None
14	MIR1197	ENSG00000221745	ENST00000408818	miRNA	KNOWN	None	35376	None	None	101491901	101491988	1	MIRN1197	hsa-mir-1197
7	AGR2	ENSG00000106541	ENST00000419304	protein_coding	KNOWN	CCDS5364	328	528	175	16831435	16844704	-1	None	XAG-2, HAG-2, AG2, PDIA17
7	AGR2	ENSG00000106541	ENST00000450569	protein_coding	PUTATIVE	None	328	360	119	16832264	16840820	-1	None	XAG-2, HAG-2, AG2, PDIA17
7	AGR2	ENSG00000106541	ENST00000401412	protein_coding	PUTATIVE	None	328	567	188	16834298	16844611	-1	None	XAG-2, HAG-2, AG2, PDIA17
7	AGR2	ENSG00000106541	ENST00000412973	protein_coding	KNOWN	None	328	394	130	16837255	16873057	-1	None	XAG-2, HAG-2, AG2, PDIA17
7	AGR2	ENSG00000106541	ENST00000489523	retained_intron	KNOWN	None	328	None	None	16839198	16844623	-1	None	XAG-2, HAG-2, AG2, PDIA17
7	AGR2	ENSG00000106541	ENST00000468419	retained_intron	KNOWN	None	328	None	None	16840908	16844623	-1	None	XAG-2, HAG-2, AG2, PDIA17
7	AGR2	ENSG00000106541	ENST00000486219	processed_transcript	KNOWN	None	328	None	None	16842769	16844619	-1	None	XAG-2, HAG-2, AG2, PDIA17
7	AGR2	ENSG00000106541	ENST00000419572	protein_coding	KNOWN	None	328	588	195	16832266	16872932	-1	None	XAG-2, HAG-2, AG2, PDIA17
9	RNA5SP281	ENSG00000252313	ENST00000516504	rRNA	KNOWN	None	43181	None	None	32293556	32293690	1	RN5S281	None
10	RNU7-163P	ENSG00000238924	ENST00000459467	snRNA	KNOWN	None	45697	None	None	1088233	1088295	-1	None	None
16	None	ENSG00000239763	ENST00000493458	processed_pseudogene	KNOWN	None	None	None	None	74346507	74347288	-1	None	None
17	None	ENSG00000202389	ENST00000365519	snoRNA	NOVEL	None	None	None	None	26349356	26349490	-1	None	None
9	MIR4669	ENSG00000263897	ENST00000585099	miRNA	KNOWN	None	41558	None	None	137271257	137271318	1	None	hsa-mir-4669
8	None	ENSG00000260838	ENST00000564832	lincRNA	KNOWN	None	None	None	None	73859385	73862680	1	None	None
8	None	ENSG00000260838	ENST00000596434	lincRNA	KNOWN	None	None	None	None	73860421	73862678	1	None	None
9	SLC25A5P8	ENSG00000225347	ENST00000422717	processed_pseudogene	KNOWN	None	35469	None	None	32333455	32334352	-1	None	None
17	None	ENSG00000252283	ENST00000516474	misc_RNA	NOVEL	None	None	None	None	26388993	26389094	1	None	None
12	None	ENSG00000256286	ENST00000543451	lincRNA	KNOWN	None	None	None	None	127359367	127360778	1	None	None
6	LGSN	ENSG00000146166	ENST00000485906	protein_coding	PUTATIVE	None	21016	574	190	63989288	64029882	-1	GLULD1	LGS
6	LGSN	ENSG00000146166	ENST00000370657	protein_coding	KNOWN	CCDS4964	21016	1530	509	63989541	64029882	-1	GLULD1	LGS
6	LGSN	ENSG00000146166	ENST00000370658	protein_coding	KNOWN	CCDS55027	21016	627	208	63985856	64029882	-1	GLULD1	LGS
17	RPS29P22	ENSG00000240873	ENST00000472363	processed_pseudogene	KNOWN	None	35799	None	None	26443265	26443432	-1	None	None
10	LINC00200	ENSG00000229205	ENST00000425630	lincRNA	KNOWN	None	30974	None	None	1205708	1210612	1	C10orf139, NCRNA00200	FLJ40354
10	LINC00200	ENSG00000229205	ENST00000583117	lincRNA	KNOWN	None	30974	None	None	1205744	1206937	1	C10orf139, NCRNA00200	FLJ40354
16	None	ENSG00000260884	ENST00000564455	lincRNA	KNOWN	None	None	None	None	74347235	74349532	1	None	None
19	MED16	ENSG00000175221	ENST00000395808	protein_coding	KNOWN	None	17556	2526	841	867962	893218	-1	THRAP5	DRIP92, TRAP95
19	MED16	ENSG00000175221	ENST00000607471	protein_coding	NOVEL	None	17556	1517	504	867963	885909	-1	THRAP5	DRIP92, TRAP95
19	MED16	ENSG00000175221	ENST00000589119	protein_coding	KNOWN	CCDS12047	17556	2634	877	867963	891131	-1	THRAP5	DRIP92, TRAP95
19	MED16	ENSG00000175221	ENST00000606248	nonsense_mediated_decay	KNOWN	None	17556	1992	663	867963	893216	-1	THRAP5	DRIP92, TRAP95
19	MED16	ENSG00000175221	ENST00000312090	protein_coding	KNOWN	None	17556	2583	860	867963	893218	-1	THRAP5	DRIP92, TRAP95
19	MED16	ENSG00000175221	ENST00000606828	processed_transcript	KNOWN	None	17556	None	None	873536	891148	-1	THRAP5	DRIP92, TRAP95
19	MED16	ENSG00000175221	ENST00000592943	protein_coding	NOVEL	None	17556	1611	536	873536	891148	-1	THRAP5	DRIP92, TRAP95
19	MED16	ENSG00000175221	ENST00000586017	protein_coding	NOVEL	None	17556	1386	461	873536	891148	-1	THRAP5	DRIP92, TRAP95
19	MED16	ENSG00000175221	ENST00000592373	nonsense_mediated_decay	KNOWN	None	17556	225	74	885822	893158	-1	THRAP5	DRIP92, TRAP95
19	MED16	ENSG00000175221	ENST00000586342	protein_coding	KNOWN	None	17556	148	48	890984	892815	-1	THRAP5	DRIP92, TRAP95
19	MED16	ENSG00000175221	ENST00000325464	protein_coding	KNOWN	CCDS12047	17556	2634	877	867964	893218	-1	THRAP5	DRIP92, TRAP95
19	MED16	ENSG00000175221	ENST00000269814	protein_coding	KNOWN	None	17556	2256	751	867964	893200	-1	THRAP5	DRIP92, TRAP95
17	CDC6	ENSG00000094804	ENST00000209728	protein_coding	KNOWN	CCDS11365	1744	1683	560	38443885	38459171	1	CDC18L	None
17	CDC6	ENSG00000094804	ENST00000580824	protein_coding	KNOWN	None	1744	547	181	38444154	38447807	1	CDC18L	None
17	CDC6	ENSG00000094804	ENST00000577249	protein_coding	KNOWN	None	1744	302	99	38444159	38447433	1	CDC18L	None
17	CDC6	ENSG00000094804	ENST00000473555	protein_coding	KNOWN	None	1744	355	117	38445444	38447486	1	CDC18L	None
17	CDC6	ENSG00000094804	ENST00000582402	retained_intron	KNOWN	None	1744	None	None	38447719	38451758	1	CDC18L	None
3	None	ENSG00000213519	ENST00000394682	processed_pseudogene	KNOWN	None	None	None	None	197307215	197307500	-1	None	None
20	SYCP2	ENSG00000196074	ENST00000357552	protein_coding	KNOWN	CCDS13482	11490	4593	1530	58438618	58508710	-1	None	SCP2
20	SYCP2	ENSG00000196074	ENST00000412613	protein_coding	PUTATIVE	None	11490	625	207	58439392	58443935	-1	None	SCP2
20	SYCP2	ENSG00000196074	ENST00000446834	protein_coding	KNOWN	None	11490	3071	1022	58452519	58508416	-1	None	SCP2
20	SYCP2	ENSG00000196074	ENST00000474749	processed_transcript	KNOWN	None	11490	None	None	58455374	58461866	-1	None	SCP2
20	SYCP2	ENSG00000196074	ENST00000461538	retained_intron	KNOWN	None	11490	None	None	58475832	58487281	-1	None	SCP2
20	SYCP2	ENSG00000196074	ENST00000471331	processed_transcript	PUTATIVE	None	11490	None	None	58486824	58490744	-1	None	SCP2
20	SYCP2	ENSG00000196074	ENST00000476314	processed_transcript	PUTATIVE	None	11490	None	None	58494372	58496538	-1	None	SCP2
20	SYCP2	ENSG00000196074	ENST00000425931	protein_coding	PUTATIVE	None	11490	355	117	58494592	58508710	-1	None	SCP2
20	SYCP2	ENSG00000196074	ENST00000371001	protein_coding	KNOWN	CCDS13482	11490	4593	1530	58438621	58507209	-1	None	SCP2
12	None	ENSG00000257021	ENST00000538133	processed_pseudogene	KNOWN	None	None	None	None	127396580	127396868	1	None	None
16	None	ENSG00000261350	ENST00000566562	lincRNA	KNOWN	None	None	None	None	34725545	34726766	-1	None	None
17	None	ENSG00000203484	ENST00000366300	pseudogene	NOVEL	None	None	None	None	26496027	26496180	-1	None	None
9	None	ENSG00000203543	ENST00000359975	pseudogene	NOVEL	None	None	None	None	32547881	32548148	1	None	None
15	None	ENSG00000259472	ENST00000559952	processed_transcript	KNOWN	None	None	None	None	83141718	83182928	-1	None	None
15	None	ENSG00000259472	ENST00000558178	processed_transcript	KNOWN	None	None	None	None	83142145	83182822	-1	None	None
15	None	ENSG00000259472	ENST00000560698	processed_transcript	KNOWN	None	None	None	None	83142510	83182928	-1	None	None
15	None	ENSG00000259472	ENST00000560548	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	83145207	83146651	-1	None	None
15	None	ENSG00000259472	ENST00000559121	processed_transcript	KNOWN	None	None	None	None	83145624	83182852	-1	None	None
15	None	ENSG00000259472	ENST00000561184	processed_transcript	KNOWN	None	None	None	None	83145818	83182882	-1	None	None
16	None	ENSG00000260341	ENST00000562032	processed_pseudogene	KNOWN	None	None	None	None	34726695	34727817	1	None	None
3	CHMP2B	ENSG00000083937	ENST00000471660	protein_coding	NOVEL	CCDS58840	24537	519	172	87276421	87303064	1	None	DKFZP564O123, CHMP2.5, VPS2B
3	CHMP2B	ENSG00000083937	ENST00000263780	protein_coding	KNOWN	CCDS2918	24537	642	213	87276435	87304698	1	None	DKFZP564O123, CHMP2.5, VPS2B
3	CHMP2B	ENSG00000083937	ENST00000494980	protein_coding	NOVEL	None	24537	552	183	87276452	87303076	1	None	DKFZP564O123, CHMP2.5, VPS2B
3	CHMP2B	ENSG00000083937	ENST00000472024	processed_transcript	KNOWN	None	24537	None	None	87276459	87302620	1	None	DKFZP564O123, CHMP2.5, VPS2B
3	CHMP2B	ENSG00000083937	ENST00000466696	retained_intron	KNOWN	None	24537	None	None	87302199	87303063	1	None	DKFZP564O123, CHMP2.5, VPS2B
11	RIC3	ENSG00000166405	ENST00000335425	protein_coding	KNOWN	CCDS44533	30338	564	187	8127640	8190590	-1	None	FLJ11608, PRO1385, AYST720
11	RIC3	ENSG00000166405	ENST00000343202	protein_coding	KNOWN	CCDS7788	30338	1107	368	8130489	8190602	-1	None	FLJ11608, PRO1385, AYST720
11	RIC3	ENSG00000166405	ENST00000309737	protein_coding	KNOWN	CCDS55742	30338	1110	369	8130496	8190536	-1	None	FLJ11608, PRO1385, AYST720
11	RIC3	ENSG00000166405	ENST00000526962	nonsense_mediated_decay	KNOWN	None	30338	138	45	8130983	8190587	-1	None	FLJ11608, PRO1385, AYST720
11	RIC3	ENSG00000166405	ENST00000524799	processed_transcript	KNOWN	None	30338	None	None	8131791	8160106	-1	None	FLJ11608, PRO1385, AYST720
11	RIC3	ENSG00000166405	ENST00000530060	processed_transcript	KNOWN	None	30338	None	None	8132017	8160325	-1	None	FLJ11608, PRO1385, AYST720
11	RIC3	ENSG00000166405	ENST00000528463	nonsense_mediated_decay	KNOWN	None	30338	132	43	8132212	8190555	-1	None	FLJ11608, PRO1385, AYST720
11	RIC3	ENSG00000166405	ENST00000425599	protein_coding	NOVEL	CCDS55741	30338	867	288	8132245	8190536	-1	None	FLJ11608, PRO1385, AYST720
11	RIC3	ENSG00000166405	ENST00000531450	protein_coding	NOVEL	None	30338	985	327	8132454	8190568	-1	None	FLJ11608, PRO1385, AYST720
11	RIC3	ENSG00000166405	ENST00000529271	processed_transcript	PUTATIVE	None	30338	None	None	8157129	8159972	-1	None	FLJ11608, PRO1385, AYST720
11	RIC3	ENSG00000166405	ENST00000529035	processed_transcript	KNOWN	None	30338	None	None	8157334	8161733	-1	None	FLJ11608, PRO1385, AYST720
11	RIC3	ENSG00000166405	ENST00000419822	protein_coding	KNOWN	None	30338	387	128	8160601	8190572	-1	None	FLJ11608, PRO1385, AYST720
11	RIC3	ENSG00000166405	ENST00000539720	protein_coding	KNOWN	None	30338	963	320	8132212	8190555	-1	None	FLJ11608, PRO1385, AYST720
11	RIC3	ENSG00000166405	ENST00000396677	protein_coding	KNOWN	None	30338	624	207	8127597	8149803	-1	None	FLJ11608, PRO1385, AYST720
3	None	ENSG00000249626	ENST00000507981	processed_pseudogene	KNOWN	None	None	None	None	197361186	197362682	1	None	None
17	None	ENSG00000203483	ENST00000357014	pseudogene	NOVEL	None	None	None	None	26506506	26506662	1	None	None
9	None	ENSG00000203542	ENST00000366355	pseudogene	NOVEL	None	None	None	None	32548215	32548487	-1	None	None
3	None	ENSG00000224611	ENST00000429380	processed_pseudogene	KNOWN	None	None	None	None	172240018	172240234	1	None	None
15	SNORD18A	ENSG00000200623	ENST00000363753	snoRNA	KNOWN	None	32714	None	None	66795581	66795652	-1	None	U18A
16	None	ENSG00000261445	ENST00000567902	lincRNA	KNOWN	None	None	None	None	34728125	34730828	-1	None	None
9	None	ENSG00000223795	ENST00000444936	lincRNA	KNOWN	None	None	None	None	137397318	137413288	1	None	None
17	None	ENSG00000255851	ENST00000537819	pseudogene	NOVEL	None	None	None	None	26525465	26525619	-1	None	None
14	MIR323A	ENSG00000199069	ENST00000362199	miRNA	KNOWN	None	31766	None	None	101492069	101492154	1	MIRN323, MIR323	hsa-mir-323
1	RN7SL451P	ENSG00000265141	ENST00000583026	misc_RNA	KNOWN	None	46467	None	None	9039637	9039933	-1	None	None
16	None	ENSG00000214331	ENST00000566802	retained_intron	KNOWN	None	None	None	None	74366300	74402059	-1	None	None
16	None	ENSG00000214331	ENST00000563377	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	74366465	74394757	-1	None	None
16	None	ENSG00000214331	ENST00000565724	retained_intron	KNOWN	None	None	None	None	74368790	74378716	-1	None	None
16	None	ENSG00000214331	ENST00000429810	retained_intron	KNOWN	None	None	None	None	74371842	74402138	-1	None	None
16	None	ENSG00000214331	ENST00000568371	retained_intron	KNOWN	None	None	None	None	74400933	74402046	-1	None	None
12	None	ENSG00000249345	ENST00000512624	lincRNA	KNOWN	None	None	None	None	127399766	127544942	-1	None	None
12	None	ENSG00000249345	ENST00000540244	lincRNA	KNOWN	None	None	None	None	127460384	127544946	-1	None	None
12	None	ENSG00000249345	ENST00000546062	lincRNA	KNOWN	None	None	None	None	127515073	127544894	-1	None	None
17	None	ENSG00000197825	ENST00000355177	pseudogene	NOVEL	None	None	None	None	26529824	26530831	-1	None	None
16	None	ENSG00000260857	ENST00000562591	lincRNA	KNOWN	None	None	None	None	34739464	34740833	-1	None	None
15	None	ENSG00000270490	ENST00000604293	processed_pseudogene	KNOWN	None	None	None	None	67100742	67102898	1	None	None
9	TOPORS-AS1	ENSG00000235453	ENST00000453396	antisense	KNOWN	None	31420	None	None	32551142	32553002	1	C9orf133	None
9	TOPORS-AS1	ENSG00000235453	ENST00000450093	antisense	KNOWN	None	31420	None	None	32551771	32552996	1	C9orf133	None
9	TOPORS-AS1	ENSG00000235453	ENST00000458036	antisense	KNOWN	None	31420	None	None	32552327	32567003	1	C9orf133	None
9	TOPORS-AS1	ENSG00000235453	ENST00000425533	antisense	KNOWN	None	31420	None	None	32552346	32566927	1	C9orf133	None
9	TOPORS-AS1	ENSG00000235453	ENST00000540066	antisense	KNOWN	None	31420	None	None	32552344	32553005	1	C9orf133	None
19	NPHS1	ENSG00000161270	ENST00000378910	protein_coding	KNOWN	CCDS32996	7908	3726	1241	36316866	36342739	-1	None	CNF, NPHN
19	NPHS1	ENSG00000161270	ENST00000353632	protein_coding	NOVEL	None	7908	3606	1201	36317282	36342740	-1	None	CNF, NPHN
19	NPHS1	ENSG00000161270	ENST00000585400	retained_intron	KNOWN	None	7908	None	None	36334400	36336412	-1	None	CNF, NPHN
19	NPHS1	ENSG00000161270	ENST00000592132	retained_intron	KNOWN	None	7908	None	None	36338829	36339896	-1	None	CNF, NPHN
19	NPHS1	ENSG00000161270	ENST00000591817	processed_transcript	KNOWN	None	7908	None	None	36342553	36360189	-1	None	CNF, NPHN
16	HP	ENSG00000257017	ENST00000570083	protein_coding	KNOWN	None	5141	1044	347	72088491	72094954	1	None	None
16	HP	ENSG00000257017	ENST00000355906	protein_coding	KNOWN	CCDS45524	5141	1221	406	72088494	72094953	1	None	None
16	HP	ENSG00000257017	ENST00000565807	retained_intron	KNOWN	None	5141	None	None	72088522	72091245	1	None	None
16	HP	ENSG00000257017	ENST00000562488	retained_intron	KNOWN	None	5141	None	None	72088522	72092408	1	None	None
16	HP	ENSG00000257017	ENST00000569639	protein_coding	PUTATIVE	None	5141	276	91	72088522	72093360	1	None	None
16	HP	ENSG00000257017	ENST00000564499	protein_coding	PUTATIVE	None	5141	668	221	72088525	72094533	1	None	None
16	HP	ENSG00000257017	ENST00000357763	protein_coding	NOVEL	None	5141	596	197	72088525	72094915	1	None	None
16	HP	ENSG00000257017	ENST00000566821	retained_intron	KNOWN	None	5141	None	None	72088525	72094953	1	None	None
16	HP	ENSG00000257017	ENST00000562526	protein_coding	PUTATIVE	None	5141	279	92	72088525	72094954	1	None	None
16	HP	ENSG00000257017	ENST00000565574	protein_coding	NOVEL	None	5141	1044	347	72088528	72094908	1	None	None
16	HP	ENSG00000257017	ENST00000568417	protein_coding	NOVEL	None	5141	265	87	72088537	72093087	1	None	None
16	HP	ENSG00000257017	ENST00000561927	retained_intron	KNOWN	None	5141	None	None	72090060	72091927	1	None	None
16	HP	ENSG00000257017	ENST00000576168	protein_coding	PUTATIVE	None	5141	448	148	72090060	72093717	1	None	None
16	HP	ENSG00000257017	ENST00000567185	protein_coding	NOVEL	None	5141	1213	403	72090060	72094827	1	None	None
16	HP	ENSG00000257017	ENST00000567612	protein_coding	NOVEL	None	5141	1096	364	72090060	72094925	1	None	None
16	HP	ENSG00000257017	ENST00000398131	protein_coding	KNOWN	CCDS45525	5141	1044	347	72088508	72094953	1	None	None
17	None	ENSG00000267644	ENST00000587058	lincRNA	KNOWN	None	None	None	None	26546311	26547031	1	None	None
14	MIR758	ENSG00000211582	ENST00000390227	miRNA	KNOWN	None	33133	None	None	101492357	101492444	1	MIRN758	hsa-mir-758
3	IQCJ-SCHIP1	ENSG00000250588	ENST00000467442	processed_transcript	KNOWN	None	38842	None	None	158680024	159482388	1	None	None
3	IQCJ-SCHIP1	ENSG00000250588	ENST00000471575	protein_coding	PUTATIVE	None	38842	303	100	158787041	159482251	1	None	None
3	IQCJ-SCHIP1	ENSG00000250588	ENST00000476809	protein_coding	KNOWN	CCDS56291	38842	1611	536	158787053	159614563	1	None	None
3	IQCJ-SCHIP1	ENSG00000250588	ENST00000485419	protein_coding	KNOWN	CCDS56289	38842	1692	563	158787053	159615147	1	None	None
3	IQCJ-SCHIP1	ENSG00000250588	ENST00000483486	protein_coding	PUTATIVE	None	38842	461	152	158787463	159482401	1	None	None
3	IQCJ-SCHIP1	ENSG00000250588	ENST00000481715	protein_coding	PUTATIVE	None	38842	474	157	158787485	159482495	1	None	None
3	IQCJ-SCHIP1	ENSG00000250588	ENST00000488898	protein_coding	PUTATIVE	None	38842	273	90	158787644	159482300	1	None	None
3	IQCJ-SCHIP1	ENSG00000250588	ENST00000337808	protein_coding	KNOWN	CCDS3186	38842	1464	487	158991033	159615155	1	None	None
3	IQCJ-SCHIP1	ENSG00000250588	ENST00000412423	protein_coding	KNOWN	CCDS56292	38842	1425	474	158991544	159615139	1	None	None
3	IQCJ-SCHIP1	ENSG00000250588	ENST00000527095	protein_coding	KNOWN	CCDS56293	38842	768	255	158991544	159615139	1	None	None
3	IQCJ-SCHIP1	ENSG00000250588	ENST00000467377	protein_coding	PUTATIVE	None	38842	503	166	159481502	159482752	1	None	None
3	IQCJ-SCHIP1	ENSG00000250588	ENST00000460298	protein_coding	PUTATIVE	None	38842	1356	451	159481791	159610330	1	None	None
3	IQCJ-SCHIP1	ENSG00000250588	ENST00000472451	protein_coding	PUTATIVE	None	38842	430	142	159482005	159482679	1	None	None
3	IQCJ-SCHIP1	ENSG00000250588	ENST00000473061	protein_coding	NOVEL	None	38842	301	99	159482892	159614862	1	None	None
17	None	ENSG00000266086	ENST00000578794	protein_coding	PUTATIVE	None	None	189	62	56066399	56082614	-1	None	None
9	None	ENSG00000228877	ENST00000435284	lincRNA	KNOWN	None	None	None	None	137419028	137437090	1	None	None
14	TRAV12-1	ENSG00000211785	ENST00000390433	TR_V_gene	KNOWN	None	12105	337	111	22309422	22309956	1	None	None
11	None	ENSG00000255038	ENST00000529036	protein_coding	PUTATIVE	None	None	240	79	65834748	65837090	-1	None	None
14	PACS2	ENSG00000179364	ENST00000430725	protein_coding	PUTATIVE	CCDS58339	23794	2445	814	105766900	105861009	1	PACS1L	KIAA0602
14	PACS2	ENSG00000179364	ENST00000325438	protein_coding	KNOWN	CCDS32168	23794	2670	889	105780752	105861543	1	PACS1L	KIAA0602
14	PACS2	ENSG00000179364	ENST00000458164	protein_coding	KNOWN	CCDS45178	23794	2715	904	105781081	105861592	1	PACS1L	KIAA0602
14	PACS2	ENSG00000179364	ENST00000547217	protein_coding	NOVEL	None	23794	2580	859	105781224	105861206	1	PACS1L	KIAA0602
14	PACS2	ENSG00000179364	ENST00000548265	retained_intron	KNOWN	None	23794	None	None	105781227	105815083	1	PACS1L	KIAA0602
14	PACS2	ENSG00000179364	ENST00000546915	protein_coding	PUTATIVE	None	23794	260	85	105802762	105833587	1	PACS1L	KIAA0602
14	PACS2	ENSG00000179364	ENST00000552138	retained_intron	KNOWN	None	23794	None	None	105821386	105836495	1	PACS1L	KIAA0602
14	PACS2	ENSG00000179364	ENST00000551692	retained_intron	KNOWN	None	23794	None	None	105834422	105861550	1	PACS1L	KIAA0602
14	PACS2	ENSG00000179364	ENST00000547903	retained_intron	KNOWN	None	23794	None	None	105848261	105857935	1	PACS1L	KIAA0602
14	PACS2	ENSG00000179364	ENST00000551743	protein_coding	PUTATIVE	None	23794	1212	403	105849456	105861588	1	PACS1L	KIAA0602
14	PACS2	ENSG00000179364	ENST00000549030	retained_intron	KNOWN	None	23794	None	None	105854959	105858086	1	PACS1L	KIAA0602
14	PACS2	ENSG00000179364	ENST00000548796	retained_intron	KNOWN	None	23794	None	None	105856574	105859672	1	PACS1L	KIAA0602
14	PACS2	ENSG00000179364	ENST00000551801	protein_coding	PUTATIVE	None	23794	273	90	105857796	105861080	1	PACS1L	KIAA0602
14	PACS2	ENSG00000179364	ENST00000550790	retained_intron	KNOWN	None	23794	None	None	105858342	105859880	1	PACS1L	KIAA0602
14	PACS2	ENSG00000179364	ENST00000447393	protein_coding	KNOWN	None	23794	2682	893	105781081	105864484	1	PACS1L	KIAA0602
17	None	ENSG00000203482	ENST00000366299	pseudogene	NOVEL	None	None	None	None	26547062	26547215	1	None	None
8	None	ENSG00000254690	ENST00000525023	antisense	KNOWN	None	None	None	None	145538253	145538801	-1	None	None
7	TRBV24-1	ENSG00000211750	ENST00000390397	TR_V_gene	KNOWN	None	12203	345	114	142364198	142364710	1	None	TRBV241, TCRBV15S1, TCRBV24S1
10	None	ENSG00000233052	ENST00000432987	sense_intronic	KNOWN	None	None	None	None	1403196	1403832	-1	None	None
17	PYY2	ENSG00000237575	ENST00000441253	processed_transcript	KNOWN	None	9749	None	None	26553589	26555091	1	None	None
17	PYY2	ENSG00000237575	ENST00000315776	transcribed_unprocessed_pseudogene	KNOWN	None	9749	None	None	26554332	26554727	1	None	None
1	None	ENSG00000252404	ENST00000516595	snoRNA	NOVEL	None	None	None	None	9142755	9142938	1	None	None
9	None	ENSG00000227150	ENST00000446184	lincRNA	KNOWN	None	None	None	None	137444584	137445743	1	None	None
16	None	ENSG00000269622	ENST00000563487	transcribed_processed_pseudogene	KNOWN	None	None	None	None	34740963	34741308	-1	None	None
16	None	ENSG00000269622	ENST00000569755	processed_transcript	KNOWN	None	None	None	None	34740963	34741541	-1	None	None
5	RN7SL37P	ENSG00000242493	ENST00000490461	misc_RNA	KNOWN	None	46053	None	None	37246277	37246581	-1	None	None
16	ZNF48	ENSG00000180035	ENST00000495929	protein_coding	PUTATIVE	None	13114	331	109	30389427	30406776	1	ZNF553	DKFZp762K013, FLJ31751, MGC43952
16	ZNF48	ENSG00000180035	ENST00000528032	protein_coding	KNOWN	None	13114	441	146	30389633	30409012	1	ZNF553	DKFZp762K013, FLJ31751, MGC43952
16	ZNF48	ENSG00000180035	ENST00000524644	protein_coding	KNOWN	None	13114	430	142	30406433	30409001	1	ZNF553	DKFZp762K013, FLJ31751, MGC43952
16	ZNF48	ENSG00000180035	ENST00000320159	protein_coding	KNOWN	CCDS10679	13114	1857	618	30406740	30411429	1	ZNF553	DKFZp762K013, FLJ31751, MGC43952
3	None	ENSG00000236833	ENST00000424493	lincRNA	KNOWN	None	None	None	None	197387436	197392628	-1	None	None
1	FCRLB	ENSG00000162746	ENST00000367948	protein_coding	KNOWN	CCDS30927	26431	1281	426	161691353	161697933	1	FCRLM2	FLJ31052, FCRL2, FREB-2, FCRLY
1	FCRLB	ENSG00000162746	ENST00000367946	protein_coding	KNOWN	None	26431	957	318	161692449	161697454	1	FCRLM2	FLJ31052, FCRL2, FREB-2, FCRLY
1	FCRLB	ENSG00000162746	ENST00000367945	protein_coding	KNOWN	None	26431	936	311	161692449	161697454	1	FCRLM2	FLJ31052, FCRL2, FREB-2, FCRLY
1	FCRLB	ENSG00000162746	ENST00000336830	protein_coding	KNOWN	None	26431	828	275	161692449	161697454	1	FCRLM2	FLJ31052, FCRL2, FREB-2, FCRLY
1	FCRLB	ENSG00000162746	ENST00000367944	protein_coding	KNOWN	None	26431	807	268	161692449	161697454	1	FCRLM2	FLJ31052, FCRL2, FREB-2, FCRLY
1	FCRLB	ENSG00000162746	ENST00000495397	processed_transcript	KNOWN	None	26431	None	None	161695691	161697932	1	FCRLM2	FLJ31052, FCRL2, FREB-2, FCRLY
1	FCRLB	ENSG00000162746	ENST00000392158	protein_coding	KNOWN	CCDS30927	26431	1281	426	161692457	161697932	1	FCRLM2	FLJ31052, FCRL2, FREB-2, FCRLY
15	None	ENSG00000259724	ENST00000558874	lincRNA	KNOWN	None	None	None	None	94448634	94651167	-1	None	None
15	None	ENSG00000259724	ENST00000556357	lincRNA	KNOWN	None	None	None	None	94626125	94642579	-1	None	None
5	None	ENSG00000270558	ENST00000603896	processed_pseudogene	KNOWN	None	None	None	None	37286551	37287079	-1	None	None
10	ADARB2-AS1	ENSG00000205696	ENST00000421697	antisense	KNOWN	None	23299	None	None	1568832	1599179	1	C10orf109, NCRNA00168	bA466B20.1
10	ADARB2-AS1	ENSG00000205696	ENST00000381301	antisense	KNOWN	None	23299	None	None	1568958	1577868	1	C10orf109, NCRNA00168	bA466B20.1
5	RNU7-75P	ENSG00000251880	ENST00000516071	snRNA	KNOWN	None	34171	None	None	37327237	37327298	1	None	U7.75
14	RNASE4	ENSG00000258818	ENST00000555835	protein_coding	KNOWN	CCDS9555	10047	444	147	21152259	21168761	1	None	None
14	RNASE4	ENSG00000258818	ENST00000397995	protein_coding	KNOWN	CCDS9555	10047	444	147	21152742	21168252	1	None	None
14	RNASE4	ENSG00000258818	ENST00000555597	protein_coding	KNOWN	CCDS9555	10047	444	147	21156941	21168761	1	None	None
14	RNASE4	ENSG00000258818	ENST00000304704	protein_coding	KNOWN	CCDS9555	10047	444	147	21152818	21168710	1	None	None
3	MIR922	ENSG00000216042	ENST00000401223	miRNA	KNOWN	None	33672	None	None	197401367	197401447	-1	MIRN922	hsa-mir-922
5	None	ENSG00000250455	ENST00000514638	unprocessed_pseudogene	KNOWN	None	None	None	None	37377151	37378073	1	None	None
15	SERF2	ENSG00000140264	ENST00000474290	processed_transcript	PUTATIVE	None	10757	None	None	44069285	44070314	1	None	H4F5rel, 4F5REL, FAM2C, HsT17089
15	SERF2	ENSG00000140264	ENST00000381359	protein_coding	KNOWN	CCDS32218	10757	180	59	44069298	44086793	1	None	H4F5rel, 4F5REL, FAM2C, HsT17089
15	SERF2	ENSG00000140264	ENST00000249786	protein_coding	KNOWN	CCDS32218	10757	180	59	44084040	44086793	1	None	H4F5rel, 4F5REL, FAM2C, HsT17089
15	SERF2	ENSG00000140264	ENST00000486144	retained_intron	KNOWN	None	10757	None	None	44084528	44086148	1	None	H4F5rel, 4F5REL, FAM2C, HsT17089
15	SERF2	ENSG00000140264	ENST00000409960	protein_coding	PUTATIVE	CCDS55963	10757	513	170	44084528	44086642	1	None	H4F5rel, 4F5REL, FAM2C, HsT17089
15	SERF2	ENSG00000140264	ENST00000409646	protein_coding	PUTATIVE	None	10757	252	83	44084528	44092048	1	None	H4F5rel, 4F5REL, FAM2C, HsT17089
15	SERF2	ENSG00000140264	ENST00000445816	nonsense_mediated_decay	KNOWN	CCDS32218	10757	180	59	44084535	44088287	1	None	H4F5rel, 4F5REL, FAM2C, HsT17089
15	SERF2	ENSG00000140264	ENST00000339624	protein_coding	PUTATIVE	CCDS55964	10757	402	133	44084545	44086244	1	None	H4F5rel, 4F5REL, FAM2C, HsT17089
15	SERF2	ENSG00000140264	ENST00000409291	protein_coding	PUTATIVE	None	10757	129	42	44084545	44092477	1	None	H4F5rel, 4F5REL, FAM2C, HsT17089
15	SERF2	ENSG00000140264	ENST00000409617	nonsense_mediated_decay	KNOWN	None	10757	123	40	44084552	44094071	1	None	H4F5rel, 4F5REL, FAM2C, HsT17089
15	SERF2	ENSG00000140264	ENST00000448830	nonsense_mediated_decay	KNOWN	None	10757	327	108	44084552	44094787	1	None	H4F5rel, 4F5REL, FAM2C, HsT17089
15	SERF2	ENSG00000140264	ENST00000475927	retained_intron	KNOWN	None	10757	None	None	44084566	44085620	1	None	H4F5rel, 4F5REL, FAM2C, HsT17089
15	SERF2	ENSG00000140264	ENST00000402131	protein_coding	PUTATIVE	CCDS55965	10757	138	45	44084566	44086173	1	None	H4F5rel, 4F5REL, FAM2C, HsT17089
15	SERF2	ENSG00000140264	ENST00000403425	protein_coding	PUTATIVE	CCDS55965	10757	138	45	44084566	44086244	1	None	H4F5rel, 4F5REL, FAM2C, HsT17089
15	SERF2	ENSG00000140264	ENST00000430901	protein_coding	PUTATIVE	None	10757	213	70	44084575	44091205	1	None	H4F5rel, 4F5REL, FAM2C, HsT17089
15	SERF2	ENSG00000140264	ENST00000409614	protein_coding	PUTATIVE	CCDS55965	10757	138	45	44085037	44086244	1	None	H4F5rel, 4F5REL, FAM2C, HsT17089
15	SERF2	ENSG00000140264	ENST00000594896	protein_coding	KNOWN	None	10757	528	175	44084542	44094004	1	None	H4F5rel, 4F5REL, FAM2C, HsT17089
15	SERF2	ENSG00000140264	ENST00000600633	protein_coding	KNOWN	CCDS10104	10757	390	129	44092621	44094767	1	None	H4F5rel, 4F5REL, FAM2C, HsT17089
3	None	ENSG00000234136	ENST00000454526	antisense	KNOWN	None	None	None	None	197557556	197558167	-1	None	None
5	None	ENSG00000248216	ENST00000504141	processed_pseudogene	KNOWN	None	None	None	None	37505790	37506959	-1	None	None
17	NT5C3B	ENSG00000141698	ENST00000517701	retained_intron	KNOWN	None	28300	None	None	39981433	39988740	-1	NT5C3L	MGC20781
17	NT5C3B	ENSG00000141698	ENST00000469698	retained_intron	KNOWN	None	28300	None	None	39981433	39992454	-1	NT5C3L	MGC20781
17	NT5C3B	ENSG00000141698	ENST00000523903	retained_intron	KNOWN	None	28300	None	None	39981433	39992510	-1	NT5C3L	MGC20781
17	NT5C3B	ENSG00000141698	ENST00000521789	protein_coding	NOVEL	None	28300	603	200	39981452	39992512	-1	NT5C3L	MGC20781
17	NT5C3B	ENSG00000141698	ENST00000470690	retained_intron	KNOWN	None	28300	None	None	39981479	39992480	-1	NT5C3L	MGC20781
17	NT5C3B	ENSG00000141698	ENST00000393910	retained_intron	KNOWN	None	28300	None	None	39981490	39992449	-1	NT5C3L	MGC20781
17	NT5C3B	ENSG00000141698	ENST00000435506	protein_coding	NOVEL	CCDS11410	28300	903	300	39981773	39992515	-1	NT5C3L	MGC20781
17	NT5C3B	ENSG00000141698	ENST00000415460	protein_coding	NOVEL	None	28300	682	226	39981906	39992493	-1	NT5C3L	MGC20781
17	NT5C3B	ENSG00000141698	ENST00000476921	retained_intron	KNOWN	None	28300	None	None	39983678	39992479	-1	NT5C3L	MGC20781
17	NT5C3B	ENSG00000141698	ENST00000445655	nonsense_mediated_decay	KNOWN	None	28300	225	74	39983678	39992496	-1	NT5C3L	MGC20781
17	NT5C3B	ENSG00000141698	ENST00000486304	protein_coding	PUTATIVE	None	28300	318	105	39984574	39987132	-1	NT5C3L	MGC20781
17	NT5C3B	ENSG00000141698	ENST00000460893	retained_intron	KNOWN	None	28300	None	None	39985042	39992475	-1	NT5C3L	MGC20781
17	NT5C3B	ENSG00000141698	ENST00000481693	retained_intron	KNOWN	None	28300	None	None	39985057	39988918	-1	NT5C3L	MGC20781
17	NT5C3B	ENSG00000141698	ENST00000475053	nonsense_mediated_decay	KNOWN	None	28300	174	57	39985082	39992498	-1	NT5C3L	MGC20781
17	NT5C3B	ENSG00000141698	ENST00000495317	retained_intron	KNOWN	None	28300	None	None	39985157	39992455	-1	NT5C3L	MGC20781
17	NT5C3B	ENSG00000141698	ENST00000520442	retained_intron	KNOWN	None	28300	None	None	39991334	39991750	-1	NT5C3L	MGC20781
17	NT5C3B	ENSG00000141698	ENST00000269534	protein_coding	KNOWN	None	28300	879	292	39981335	39992523	-1	NT5C3L	MGC20781
1	MIR34A	ENSG00000207865	ENST00000385130	miRNA	KNOWN	None	31635	None	None	9211727	9211836	-1	MIRN34A	hsa-mir-34a
5	RNU6-1190P	ENSG00000222743	ENST00000410811	snRNA	KNOWN	None	48153	None	None	37620087	37620190	-1	None	None
Y	TUBB1P2	ENSG00000228578	ENST00000422712	unprocessed_pseudogene	KNOWN	None	23981	None	None	19628716	19630918	-1	None	None
5	RNU6-484P	ENSG00000206743	ENST00000384016	snRNA	KNOWN	None	47447	None	None	37700433	37700539	-1	None	None
8	MIR939	ENSG00000216133	ENST00000401314	miRNA	KNOWN	None	33682	None	None	145619364	145619445	-1	MIRN939	hsa-mir-939
11	None	ENSG00000259541	ENST00000558822	antisense	KNOWN	None	None	None	None	120120468	120136641	-1	None	None
11	None	ENSG00000259541	ENST00000560146	antisense	KNOWN	None	None	None	None	120127185	120136641	-1	None	None
11	None	ENSG00000259541	ENST00000560930	antisense	KNOWN	None	None	None	None	120129628	120136641	-1	None	None
10	ZNRF2P3	ENSG00000235924	ENST00000424200	processed_pseudogene	KNOWN	None	45113	None	None	81741595	81741968	1	None	None
8	MIR1234	ENSG00000221802	ENST00000408875	miRNA	KNOWN	None	33926	None	None	145625476	145625559	-1	MIRN1234	hsa-mir-1234
14	TRAV8-2	ENSG00000211786	ENST00000390434	TR_V_gene	KNOWN	None	12147	341	112	22314719	22315403	1	None	None
10	None	ENSG00000225100	ENST00000456300	processed_pseudogene	KNOWN	None	None	None	None	81742666	81742996	-1	None	None
8	None	ENSG00000272115	ENST00000607491	antisense	KNOWN	None	None	None	None	145634876	145635360	1	None	None
9	COL5A1-AS1	ENSG00000204011	ENST00000371813	antisense	KNOWN	None	31368	None	None	137541231	137544689	-1	C9orf104	bA54A22.4
17	SRSF1	ENSG00000136450	ENST00000582730	protein_coding	KNOWN	CCDS58580	10780	606	201	56080721	56084622	-1	SFRS1	ASF, SF2, SRp30a, SF2p33, MGC5228
17	SRSF1	ENSG00000136450	ENST00000581497	processed_transcript	KNOWN	None	10780	None	None	56080854	56082495	-1	SFRS1	ASF, SF2, SRp30a, SF2p33, MGC5228
17	SRSF1	ENSG00000136450	ENST00000584668	nonsense_mediated_decay	KNOWN	None	10780	431	142	56081163	56083766	-1	SFRS1	ASF, SF2, SRp30a, SF2p33, MGC5228
17	SRSF1	ENSG00000136450	ENST00000581979	nonsense_mediated_decay	KNOWN	CCDS58580	10780	606	201	56081168	56084593	-1	SFRS1	ASF, SF2, SRp30a, SF2p33, MGC5228
17	SRSF1	ENSG00000136450	ENST00000584773	protein_coding	PUTATIVE	None	10780	762	253	56081949	56084622	-1	SFRS1	ASF, SF2, SRp30a, SF2p33, MGC5228
17	SRSF1	ENSG00000136450	ENST00000585096	protein_coding	PUTATIVE	None	10780	222	73	56082183	56084634	-1	SFRS1	ASF, SF2, SRp30a, SF2p33, MGC5228
17	SRSF1	ENSG00000136450	ENST00000583741	nonsense_mediated_decay	KNOWN	None	10780	198	65	56082210	56084622	-1	SFRS1	ASF, SF2, SRp30a, SF2p33, MGC5228
17	SRSF1	ENSG00000136450	ENST00000258962	protein_coding	KNOWN	CCDS11600	10780	747	248	56082210	56084707	-1	SFRS1	ASF, SF2, SRp30a, SF2p33, MGC5228
17	SRSF1	ENSG00000136450	ENST00000578430	retained_intron	KNOWN	None	10780	None	None	56083603	56084707	-1	SFRS1	ASF, SF2, SRp30a, SF2p33, MGC5228
17	None	ENSG00000267259	ENST00000592016	lincRNA	KNOWN	None	None	None	None	26559616	26562307	-1	None	None
10	None	ENSG00000229616	ENST00000417217	processed_pseudogene	KNOWN	None	None	None	None	81777469	81777667	-1	None	None
17	None	ENSG00000203480	ENST00000366297	pseudogene	NOVEL	None	None	None	None	26568405	26568558	1	None	None
15	None	ENSG00000258895	ENST00000555663	processed_pseudogene	KNOWN	None	None	None	None	94576887	94577406	1	None	None
X	MAGEB6P1	ENSG00000232030	ENST00000416929	unprocessed_pseudogene	KNOWN	None	28824	None	None	26178718	26180013	1	MAGEB6B	None
4	LRRC37A15P	ENSG00000230069	ENST00000514785	processed_pseudogene	KNOWN	None	43819	None	None	103648431	103651878	-1	None	None
17	None	ENSG00000266830	ENST00000579045	lincRNA	KNOWN	None	None	None	None	26573480	26575032	-1	None	None
1	GBP6	ENSG00000183347	ENST00000370456	protein_coding	KNOWN	CCDS723	25395	1902	633	89829617	89852020	1	None	DKFZp686G0786
1	GBP6	ENSG00000183347	ENST00000535065	protein_coding	KNOWN	None	25395	1512	503	89829619	89851446	1	None	DKFZp686G0786
10	C1DP3	ENSG00000224760	ENST00000455013	processed_pseudogene	KNOWN	None	31661	None	None	81784493	81784915	-1	None	bA369J21.2
10	C1DP3	ENSG00000224760	ENST00000412019	processed_pseudogene	KNOWN	None	31661	None	None	81784493	81784918	-1	None	bA369J21.2
X	None	ENSG00000227511	ENST00000444765	unprocessed_pseudogene	KNOWN	None	None	None	None	26188169	26189030	1	None	None
7	SLC4A2	ENSG00000164889	ENST00000483786	protein_coding	KNOWN	None	11028	436	144	150754297	150761831	1	EPB3L1, AE2	HKB3, BND3L, NBND3
7	SLC4A2	ENSG00000164889	ENST00000466368	processed_transcript	PUTATIVE	None	11028	None	None	150755287	150759047	1	EPB3L1, AE2	HKB3, BND3L, NBND3
7	SLC4A2	ENSG00000164889	ENST00000485713	protein_coding	KNOWN	CCDS5917	11028	3726	1241	150755299	150773613	1	EPB3L1, AE2	HKB3, BND3L, NBND3
7	SLC4A2	ENSG00000164889	ENST00000413384	protein_coding	KNOWN	CCDS5917	11028	3726	1241	150756657	150773614	1	EPB3L1, AE2	HKB3, BND3L, NBND3
7	SLC4A2	ENSG00000164889	ENST00000494125	retained_intron	KNOWN	None	11028	None	None	150756678	150761784	1	EPB3L1, AE2	HKB3, BND3L, NBND3
7	SLC4A2	ENSG00000164889	ENST00000490898	protein_coding	KNOWN	None	11028	507	168	150757157	150761982	1	EPB3L1, AE2	HKB3, BND3L, NBND3
7	SLC4A2	ENSG00000164889	ENST00000482950	protein_coding	KNOWN	None	11028	383	126	150758304	150761778	1	EPB3L1, AE2	HKB3, BND3L, NBND3
7	SLC4A2	ENSG00000164889	ENST00000463414	protein_coding	KNOWN	None	11028	452	149	150758331	150761847	1	EPB3L1, AE2	HKB3, BND3L, NBND3
7	SLC4A2	ENSG00000164889	ENST00000488420	protein_coding	KNOWN	None	11028	211	69	150758676	150761448	1	EPB3L1, AE2	HKB3, BND3L, NBND3
7	SLC4A2	ENSG00000164889	ENST00000392826	protein_coding	NOVEL	CCDS56520	11028	3699	1232	150759634	150773609	1	EPB3L1, AE2	HKB3, BND3L, NBND3
7	SLC4A2	ENSG00000164889	ENST00000461735	protein_coding	NOVEL	CCDS56521	11028	3684	1227	150759721	150773610	1	EPB3L1, AE2	HKB3, BND3L, NBND3
7	SLC4A2	ENSG00000164889	ENST00000469355	retained_intron	KNOWN	None	11028	None	None	150767441	150768219	1	EPB3L1, AE2	HKB3, BND3L, NBND3
7	SLC4A2	ENSG00000164889	ENST00000494298	retained_intron	KNOWN	None	11028	None	None	150767604	150768254	1	EPB3L1, AE2	HKB3, BND3L, NBND3
7	SLC4A2	ENSG00000164889	ENST00000480107	retained_intron	KNOWN	None	11028	None	None	150767804	150768688	1	EPB3L1, AE2	HKB3, BND3L, NBND3
7	SLC4A2	ENSG00000164889	ENST00000493040	retained_intron	KNOWN	None	11028	None	None	150768564	150769223	1	EPB3L1, AE2	HKB3, BND3L, NBND3
7	SLC4A2	ENSG00000164889	ENST00000460010	retained_intron	KNOWN	None	11028	None	None	150768752	150771204	1	EPB3L1, AE2	HKB3, BND3L, NBND3
7	SLC4A2	ENSG00000164889	ENST00000482697	processed_transcript	PUTATIVE	None	11028	None	None	150768816	150771172	1	EPB3L1, AE2	HKB3, BND3L, NBND3
7	SLC4A2	ENSG00000164889	ENST00000472204	retained_intron	KNOWN	None	11028	None	None	150769091	150772399	1	EPB3L1, AE2	HKB3, BND3L, NBND3
7	SLC4A2	ENSG00000164889	ENST00000469467	retained_intron	KNOWN	None	11028	None	None	150773070	150773611	1	EPB3L1, AE2	HKB3, BND3L, NBND3
7	SLC4A2	ENSG00000164889	ENST00000310317	protein_coding	KNOWN	None	11028	3480	1159	150758338	150773609	1	EPB3L1, AE2	HKB3, BND3L, NBND3
3	SLC2A2	ENSG00000163581	ENST00000314251	protein_coding	KNOWN	CCDS3215	11006	1575	524	170714137	170744539	-1	GLUT2	None
3	SLC2A2	ENSG00000163581	ENST00000497642	nonsense_mediated_decay	KNOWN	None	11006	408	135	170714609	170744509	-1	GLUT2	None
3	SLC2A2	ENSG00000163581	ENST00000469787	nonsense_mediated_decay	KNOWN	None	11006	270	89	170715544	170744532	-1	GLUT2	None
3	SLC2A2	ENSG00000163581	ENST00000471379	retained_intron	KNOWN	None	11006	None	None	170723205	170725259	-1	GLUT2	None
3	SLC2A2	ENSG00000163581	ENST00000461867	protein_coding	PUTATIVE	None	11006	309	102	170723209	170736412	-1	GLUT2	None
3	SLC2A2	ENSG00000163581	ENST00000382808	protein_coding	KNOWN	None	11006	1218	405	170715544	170744532	-1	GLUT2	None
10	RN7SL749P	ENSG00000242853	ENST00000460421	misc_RNA	KNOWN	None	46765	None	None	120972369	120972656	1	None	None
10	EXOC6	ENSG00000138190	ENST00000371543	protein_coding	KNOWN	None	23196	462	153	94608242	94661608	1	SEC15L1	SEC15L, FLJ1125, DKFZp761I2124, MGC33397, Sec15p, EXOC6A
10	EXOC6	ENSG00000138190	ENST00000260762	protein_coding	KNOWN	CCDS7424	23196	2415	804	94608277	94819247	1	SEC15L1	SEC15L, FLJ1125, DKFZp761I2124, MGC33397, Sec15p, EXOC6A
10	EXOC6	ENSG00000138190	ENST00000497262	processed_transcript	KNOWN	None	23196	None	None	94669241	94675787	1	SEC15L1	SEC15L, FLJ1125, DKFZp761I2124, MGC33397, Sec15p, EXOC6A
10	EXOC6	ENSG00000138190	ENST00000495132	nonsense_mediated_decay	KNOWN	None	23196	1215	404	94688131	94818281	1	SEC15L1	SEC15L, FLJ1125, DKFZp761I2124, MGC33397, Sec15p, EXOC6A
10	EXOC6	ENSG00000138190	ENST00000458552	protein_coding	KNOWN	None	23196	216	71	94757231	94774024	1	SEC15L1	SEC15L, FLJ1125, DKFZp761I2124, MGC33397, Sec15p, EXOC6A
10	EXOC6	ENSG00000138190	ENST00000371547	protein_coding	KNOWN	None	23196	2463	820	94590935	94818347	1	SEC15L1	SEC15L, FLJ1125, DKFZp761I2124, MGC33397, Sec15p, EXOC6A
10	EXOC6	ENSG00000138190	ENST00000371552	protein_coding	KNOWN	CCDS31247	23196	2400	799	94594467	94819250	1	SEC15L1	SEC15L, FLJ1125, DKFZp761I2124, MGC33397, Sec15p, EXOC6A
10	EXOC6	ENSG00000138190	ENST00000443748	protein_coding	KNOWN	None	23196	2106	701	94608272	94819250	1	SEC15L1	SEC15L, FLJ1125, DKFZp761I2124, MGC33397, Sec15p, EXOC6A
8	None	ENSG00000253175	ENST00000518463	processed_pseudogene	KNOWN	None	None	None	None	95577264	95577943	1	None	None
8	None	ENSG00000232600	ENST00000442850	antisense	KNOWN	None	None	None	None	145663058	145665354	1	None	None
8	None	ENSG00000232600	ENST00000544423	antisense	KNOWN	None	None	None	None	145660602	145663650	1	None	None
1	None	ENSG00000228526	ENST00000437157	antisense	KNOWN	None	None	None	None	9228327	9262678	-1	None	None
10	None	ENSG00000236426	ENST00000457948	antisense	KNOWN	None	None	None	None	121094006	121095639	-1	None	None
12	IRAK3	ENSG00000090376	ENST00000261233	protein_coding	KNOWN	CCDS8975	17020	1791	596	66582659	66648402	1	None	IRAK-M
12	IRAK3	ENSG00000090376	ENST00000545837	protein_coding	PUTATIVE	None	17020	282	93	66582975	66592000	1	None	IRAK-M
12	IRAK3	ENSG00000090376	ENST00000457197	protein_coding	KNOWN	CCDS44937	17020	1608	535	66583037	66642153	1	None	IRAK-M
20	None	ENSG00000270951	ENST00000605044	antisense	KNOWN	None	None	None	None	57451647	57452036	-1	None	None
X	None	ENSG00000232644	ENST00000450430	unprocessed_pseudogene	KNOWN	None	None	None	None	26218159	26218764	1	None	None
10	MIR4681	ENSG00000265719	ENST00000580598	miRNA	KNOWN	None	41753	None	None	121137484	121137555	1	None	hsa-mir-4681
4	KRT8P46	ENSG00000248971	ENST00000512037	processed_pseudogene	KNOWN	None	39880	None	None	103649903	103651328	-1	None	None
HSCHR6_MHC_MCF	OR2H2	ENSG00000206467	ENST00000383546	protein_coding	KNOWN	None	8253	939	312	29555489	29556551	1	None	hs6M1-12
10	None	ENSG00000271353	ENST00000604888	processed_pseudogene	KNOWN	None	None	None	None	121321613	121322042	-1	None	None
3	ZBTB47	ENSG00000114853	ENST00000232974	protein_coding	KNOWN	CCDS46805	26955	2244	747	42695176	42707346	1	ZNF651	KIAA1190, DKFZp434N0615
3	ZBTB47	ENSG00000114853	ENST00000505904	protein_coding	PUTATIVE	None	26955	882	293	42700306	42707346	1	ZNF651	KIAA1190, DKFZp434N0615
3	ZBTB47	ENSG00000114853	ENST00000457842	protein_coding	KNOWN	None	26955	1116	371	42695176	42709072	1	ZNF651	KIAA1190, DKFZp434N0615
15	None	ENSG00000212022	ENST00000390733	miRNA	NOVEL	None	None	None	None	94624327	94624420	-1	None	None
10	None	ENSG00000234569	ENST00000231383	processed_pseudogene	KNOWN	None	None	None	None	121380580	121381392	1	None	None
5	RPL37	ENSG00000145592	ENST00000274242	protein_coding	KNOWN	CCDS3934	10347	294	97	40825364	40835437	-1	None	L37
5	RPL37	ENSG00000145592	ENST00000511787	processed_transcript	PUTATIVE	None	10347	None	None	40827805	40832657	-1	None	L37
5	RPL37	ENSG00000145592	ENST00000509877	protein_coding	NOVEL	None	10347	225	74	40832205	40835314	-1	None	L37
5	RPL37	ENSG00000145592	ENST00000507642	processed_transcript	KNOWN	None	10347	None	None	40832550	40834709	-1	None	L37
5	RPL37	ENSG00000145592	ENST00000504562	processed_transcript	KNOWN	None	10347	None	None	40832560	40835288	-1	None	L37
5	RPL37	ENSG00000145592	ENST00000508493	protein_coding	PUTATIVE	None	10347	249	82	40833981	40835314	-1	None	L37
20	NINL	ENSG00000101004	ENST00000278886	protein_coding	KNOWN	CCDS33452	29163	4149	1382	25433341	25566153	-1	None	KIAA0980, NLP
20	NINL	ENSG00000101004	ENST00000464285	processed_transcript	KNOWN	None	29163	None	None	25433473	25439612	-1	None	KIAA0980, NLP
20	NINL	ENSG00000101004	ENST00000496509	processed_transcript	KNOWN	None	29163	None	None	25436309	25443378	-1	None	KIAA0980, NLP
20	NINL	ENSG00000101004	ENST00000336104	protein_coding	KNOWN	None	29163	439	145	25443019	25459663	-1	None	KIAA0980, NLP
20	NINL	ENSG00000101004	ENST00000489780	processed_transcript	KNOWN	None	29163	None	None	25462474	25472161	-1	None	KIAA0980, NLP
20	NINL	ENSG00000101004	ENST00000461642	processed_transcript	KNOWN	None	29163	None	None	25469619	25477439	-1	None	KIAA0980, NLP
20	NINL	ENSG00000101004	ENST00000422516	protein_coding	KNOWN	None	29163	3102	1033	25433341	25566153	-1	None	KIAA0980, NLP
15	None	ENSG00000258570	ENST00000557753	processed_pseudogene	KNOWN	None	None	None	None	94711578	94711980	1	None	None
10	None	ENSG00000227437	ENST00000454541	processed_pseudogene	KNOWN	None	None	None	None	121397968	121398594	1	None	None
19	None	ENSG00000269242	ENST00000597692	nonsense_mediated_decay	KNOWN	None	None	595	197	12754645	12759211	-1	None	None
10	NODAL	ENSG00000156574	ENST00000287139	protein_coding	KNOWN	CCDS7304	7865	1044	347	72192071	72201423	-1	None	None
10	NODAL	ENSG00000156574	ENST00000414871	protein_coding	KNOWN	None	7865	879	292	72192505	72207707	-1	None	None
21	DYRK1A	ENSG00000157540	ENST00000462274	processed_transcript	KNOWN	None	3091	None	None	38739236	38858783	1	DYRK1, DYRK, MNBH	None
21	DYRK1A	ENSG00000157540	ENST00000338785	protein_coding	KNOWN	CCDS42926	3091	1755	584	38739879	38887680	1	DYRK1, DYRK, MNBH	None
21	DYRK1A	ENSG00000157540	ENST00000455097	protein_coding	KNOWN	None	3091	138	45	38739883	38845113	1	DYRK1, DYRK, MNBH	None
21	DYRK1A	ENSG00000157540	ENST00000426672	protein_coding	KNOWN	None	3091	395	130	38739883	38853007	1	DYRK1, DYRK, MNBH	None
21	DYRK1A	ENSG00000157540	ENST00000339659	protein_coding	KNOWN	CCDS13653	3091	2265	754	38791207	38887483	1	DYRK1, DYRK, MNBH	None
21	DYRK1A	ENSG00000157540	ENST00000398960	protein_coding	KNOWN	CCDS42925	3091	2292	763	38792602	38884889	1	DYRK1, DYRK, MNBH	None
21	DYRK1A	ENSG00000157540	ENST00000498351	processed_transcript	KNOWN	None	3091	None	None	38792627	38845017	1	DYRK1, DYRK, MNBH	None
21	DYRK1A	ENSG00000157540	ENST00000398956	protein_coding	KNOWN	CCDS13654	3091	1590	529	38792677	38884257	1	DYRK1, DYRK, MNBH	None
21	DYRK1A	ENSG00000157540	ENST00000321219	protein_coding	KNOWN	None	3091	1626	541	38791207	38878651	1	DYRK1, DYRK, MNBH	None
21	DYRK1A	ENSG00000157540	ENST00000451934	protein_coding	KNOWN	CCDS42926	3091	1755	584	38791207	38878610	1	DYRK1, DYRK, MNBH	None
21	DYRK1A	ENSG00000157540	ENST00000455387	protein_coding	KNOWN	None	3091	1608	535	38861087	38884862	1	DYRK1, DYRK, MNBH	None
X	None	ENSG00000237171	ENST00000446214	unprocessed_pseudogene	KNOWN	None	None	None	None	26242020	26242775	1	None	None
8	None	ENSG00000254578	ENST00000525461	antisense	KNOWN	None	None	None	None	145689200	145690484	1	None	None
5	FAM174A	ENSG00000174132	ENST00000312637	protein_coding	KNOWN	CCDS4090	24943	573	190	99871009	99922445	1	TMEM157	UNQ1912
5	FAM174A	ENSG00000174132	ENST00000509040	processed_transcript	PUTATIVE	None	24943	None	None	99871086	99921932	1	TMEM157	UNQ1912
5	FAM174A	ENSG00000174132	ENST00000505792	processed_transcript	PUTATIVE	None	24943	None	None	99897756	99922433	1	TMEM157	UNQ1912
6	PTP4A1	ENSG00000112245	ENST00000470661	processed_transcript	KNOWN	None	9634	None	None	64231666	64286487	1	None	PTPCAAX1, PRL-1
6	PTP4A1	ENSG00000112245	ENST00000370651	protein_coding	KNOWN	CCDS4965	9634	522	173	64281917	64293492	1	None	PTPCAAX1, PRL-1
6	PTP4A1	ENSG00000112245	ENST00000578299	protein_coding	PUTATIVE	None	9634	135	44	64282586	64286436	1	None	PTPCAAX1, PRL-1
6	PTP4A1	ENSG00000112245	ENST00000473334	processed_transcript	KNOWN	None	9634	None	None	64283143	64286602	1	None	PTPCAAX1, PRL-1
6	PTP4A1	ENSG00000112245	ENST00000370650	protein_coding	KNOWN	None	9634	447	148	64282475	64292331	1	None	PTPCAAX1, PRL-1
5	None	ENSG00000251477	ENST00000506771	processed_pseudogene	KNOWN	None	None	None	None	117054935	117057792	-1	None	None
Y	FAM224B	ENSG00000230663	ENST00000458667	lincRNA	KNOWN	None	37737	None	None	19664680	19691634	-1	NCRNA00230B, LINC00230B	None
7	None	ENSG00000260336	ENST00000564977	sense_overlapping	KNOWN	None	None	None	None	100737328	100741248	1	None	None
15	None	ENSG00000258632	ENST00000556983	processed_pseudogene	KNOWN	None	None	None	None	94816725	94817234	1	None	None
3	None	ENSG00000223387	ENST00000441185	lincRNA	KNOWN	None	None	None	None	172278678	172313217	-1	None	None
3	None	ENSG00000223387	ENST00000424941	lincRNA	KNOWN	None	None	None	None	172278691	172313397	-1	None	None
3	None	ENSG00000223387	ENST00000418839	lincRNA	KNOWN	None	None	None	None	172308503	172312460	-1	None	None
14	TRAV8-3	ENSG00000211787	ENST00000390435	TR_V_gene	KNOWN	None	12148	341	112	22320735	22321183	1	None	None
10	None	ENSG00000232823	ENST00000441872	processed_pseudogene	KNOWN	None	None	None	None	121442639	121443335	-1	None	None
Y	RNA5SP520	ENSG00000252315	ENST00000516506	rRNA	KNOWN	None	43420	None	None	19669744	19669856	1	RN5S520	None
16	None	ENSG00000260201	ENST00000562852	lincRNA	KNOWN	None	None	None	None	20592210	20598006	1	None	None
16	None	ENSG00000260201	ENST00000565300	lincRNA	KNOWN	None	None	None	None	20593096	20597962	1	None	None
1	NBPF3	ENSG00000142794	ENST00000475869	processed_transcript	KNOWN	None	25076	None	None	21766624	21768851	1	None	AE2
1	NBPF3	ENSG00000142794	ENST00000318220	protein_coding	KNOWN	None	25076	1734	577	21766630	21811498	1	None	AE2
1	NBPF3	ENSG00000142794	ENST00000478653	processed_transcript	KNOWN	None	25076	None	None	21766631	21780799	1	None	AE2
1	NBPF3	ENSG00000142794	ENST00000485941	processed_transcript	KNOWN	None	25076	None	None	21766639	21772975	1	None	AE2
1	NBPF3	ENSG00000142794	ENST00000342104	protein_coding	KNOWN	CCDS57976	25076	1866	621	21766657	21811393	1	None	AE2
1	NBPF3	ENSG00000142794	ENST00000486229	processed_transcript	KNOWN	None	25076	None	None	21766731	21795387	1	None	AE2
1	NBPF3	ENSG00000142794	ENST00000434838	protein_coding	KNOWN	None	25076	1666	554	21771437	21809811	1	None	AE2
1	NBPF3	ENSG00000142794	ENST00000467103	processed_transcript	KNOWN	None	25076	None	None	21771485	21778351	1	None	AE2
1	NBPF3	ENSG00000142794	ENST00000469876	processed_transcript	KNOWN	None	25076	None	None	21799870	21809800	1	None	AE2
1	NBPF3	ENSG00000142794	ENST00000477050	processed_transcript	KNOWN	None	25076	None	None	21799888	21806714	1	None	AE2
1	NBPF3	ENSG00000142794	ENST00000454000	protein_coding	KNOWN	CCDS57977	25076	1692	563	21766621	21809960	1	None	AE2
1	NBPF3	ENSG00000142794	ENST00000318249	protein_coding	KNOWN	CCDS216	25076	1902	633	21766631	21811392	1	None	AE2
10	GDF2	ENSG00000128802	ENST00000249598	protein_coding	KNOWN	CCDS7219	4217	1290	429	48413092	48416853	-1	None	BMP-9, BMP9
Y	RNA5SP521	ENSG00000252012	ENST00000516203	rRNA	KNOWN	None	43421	None	None	19671654	19671769	1	RN5S521	None
10	RN7SL846P	ENSG00000242818	ENST00000467429	misc_RNA	KNOWN	None	46862	None	None	121527759	121528052	1	None	None
6	RPLP2P1	ENSG00000214374	ENST00000398220	processed_pseudogene	KNOWN	None	18724	None	None	27932953	27933292	1	None	dJ408B20.3
1	None	ENSG00000234546	ENST00000412639	lincRNA	KNOWN	None	None	None	None	9242263	9252148	1	None	None
16	None	ENSG00000260817	ENST00000570238	processed_pseudogene	KNOWN	None	None	None	None	5310687	5311044	-1	None	None
10	None	ENSG00000270300	ENST00000605639	processed_pseudogene	KNOWN	None	None	None	None	121574741	121576154	-1	None	None
7	MIR4653	ENSG00000264425	ENST00000585107	miRNA	KNOWN	None	41562	None	None	100802754	100802836	1	None	hsa-mir-4653
Y	CLUHP1	ENSG00000238191	ENST00000435012	unprocessed_pseudogene	KNOWN	None	38416	None	None	19733139	19737712	-1	KIAA0664P1	KIAA0664L1
8	None	ENSG00000254190	ENST00000521633	processed_pseudogene	KNOWN	None	None	None	None	95602343	95602487	1	None	None
5	None	ENSG00000246422	ENST00000502205	antisense	KNOWN	None	None	None	None	140937878	140944830	1	None	None
2	IAH1	ENSG00000134330	ENST00000496603	protein_coding	PUTATIVE	None	27696	223	73	9613787	9624677	1	None	None
2	IAH1	ENSG00000134330	ENST00000482918	protein_coding	KNOWN	None	27696	408	135	9613947	9628573	1	None	None
2	IAH1	ENSG00000134330	ENST00000497473	protein_coding	KNOWN	CCDS42651	27696	747	248	9614659	9628940	1	None	None
2	IAH1	ENSG00000134330	ENST00000470914	protein_coding	PUTATIVE	None	27696	408	135	9614666	9629871	1	None	None
2	IAH1	ENSG00000134330	ENST00000492223	nonsense_mediated_decay	KNOWN	None	27696	123	40	9614668	9628586	1	None	None
2	IAH1	ENSG00000134330	ENST00000495050	retained_intron	KNOWN	None	27696	None	None	9614693	9626958	1	None	None
2	IAH1	ENSG00000134330	ENST00000481367	protein_coding	PUTATIVE	None	27696	686	227	9614704	9636672	1	None	None
2	IAH1	ENSG00000134330	ENST00000351760	nonsense_mediated_decay	KNOWN	None	27696	226	74	9614707	9628591	1	None	None
2	IAH1	ENSG00000134330	ENST00000481688	protein_coding	PUTATIVE	None	27696	480	159	9614987	9628443	1	None	None
2	IAH1	ENSG00000134330	ENST00000489468	processed_transcript	KNOWN	None	27696	None	None	9615151	9628366	1	None	None
2	IAH1	ENSG00000134330	ENST00000495797	protein_coding	PUTATIVE	None	27696	142	46	9615184	9624596	1	None	None
2	IAH1	ENSG00000134330	ENST00000495494	processed_transcript	KNOWN	None	27696	None	None	9615803	9624641	1	None	None
2	IAH1	ENSG00000134330	ENST00000487850	processed_transcript	KNOWN	None	27696	None	None	9621000	9628624	1	None	None
2	IAH1	ENSG00000134330	ENST00000484826	retained_intron	KNOWN	None	27696	None	None	9621413	9628751	1	None	None
2	IAH1	ENSG00000134330	ENST00000490621	processed_transcript	KNOWN	None	27696	None	None	9628274	9629158	1	None	None
2	IAH1	ENSG00000134330	ENST00000545602	protein_coding	KNOWN	None	27696	408	135	9614704	9636672	1	None	None
8	None	ENSG00000254283	ENST00000517783	processed_pseudogene	KNOWN	None	None	None	None	95606639	95606829	1	None	None
8	None	ENSG00000255182	ENST00000528207	retained_intron	KNOWN	None	None	None	None	145721001	145724363	-1	None	None
8	None	ENSG00000255182	ENST00000532766	antisense	KNOWN	None	None	None	None	145722745	145724688	-1	None	None
8	None	ENSG00000255182	ENST00000527086	antisense	KNOWN	None	None	None	None	145724296	145730827	-1	None	None
8	None	ENSG00000255182	ENST00000528690	retained_intron	KNOWN	None	None	None	None	145724717	145730481	-1	None	None
6	OR2W4P	ENSG00000216629	ENST00000406496	unprocessed_pseudogene	KNOWN	None	15071	None	None	27944928	27945853	1	None	None
5	None	ENSG00000240974	ENST00000496103	processed_pseudogene	KNOWN	None	None	None	None	140968502	140968709	1	None	None
X	None	ENSG00000228464	ENST00000438690	processed_pseudogene	KNOWN	None	None	None	None	26363353	26364359	1	None	None
7	DGAT2L7P	ENSG00000205267	ENST00000602462	unprocessed_pseudogene	KNOWN	None	44367	None	None	100845090	100846807	-1	None	None
7	DGAT2L7P	ENSG00000205267	ENST00000379421	unprocessed_pseudogene	KNOWN	None	44367	None	None	100845043	100846556	-1	None	None
8	None	ENSG00000261437	ENST00000562760	antisense	KNOWN	None	None	None	None	95649513	95651695	-1	None	None
2	RAMP1	ENSG00000132329	ENST00000404910	protein_coding	PUTATIVE	None	9843	381	126	238767536	238820652	1	None	None
2	RAMP1	ENSG00000132329	ENST00000254661	protein_coding	KNOWN	CCDS2522	9843	447	148	238768187	238820756	1	None	None
2	RAMP1	ENSG00000132329	ENST00000409726	protein_coding	PUTATIVE	None	9843	381	126	238768266	238820598	1	None	None
2	RAMP1	ENSG00000132329	ENST00000403885	protein_coding	PUTATIVE	None	9843	381	126	238768619	238820652	1	None	None
11	PACS1	ENSG00000175115	ENST00000527224	retained_intron	KNOWN	None	30032	None	None	65837834	65986168	1	None	FLJ10209, KIAA1175
11	PACS1	ENSG00000175115	ENST00000320580	protein_coding	KNOWN	CCDS8129	30032	2892	963	65837925	66012218	1	None	FLJ10209, KIAA1175
11	PACS1	ENSG00000175115	ENST00000533756	protein_coding	PUTATIVE	None	30032	320	105	65851444	65978699	1	None	FLJ10209, KIAA1175
11	PACS1	ENSG00000175115	ENST00000527380	protein_coding	PUTATIVE	None	30032	498	165	65868234	65983721	1	None	FLJ10209, KIAA1175
11	PACS1	ENSG00000175115	ENST00000531298	nonsense_mediated_decay	KNOWN	None	30032	356	117	65983669	65988148	1	None	FLJ10209, KIAA1175
11	PACS1	ENSG00000175115	ENST00000524784	nonsense_mediated_decay	KNOWN	None	30032	270	89	65984014	65988681	1	None	FLJ10209, KIAA1175
11	PACS1	ENSG00000175115	ENST00000533811	retained_intron	KNOWN	None	30032	None	None	65987759	65988661	1	None	FLJ10209, KIAA1175
11	PACS1	ENSG00000175115	ENST00000534273	retained_intron	KNOWN	None	30032	None	None	65988141	65989114	1	None	FLJ10209, KIAA1175
11	PACS1	ENSG00000175115	ENST00000529757	protein_coding	PUTATIVE	None	30032	1500	499	65997851	66010753	1	None	FLJ10209, KIAA1175
11	PACS1	ENSG00000175115	ENST00000528935	protein_coding	PUTATIVE	None	30032	237	78	65999265	66001703	1	None	FLJ10209, KIAA1175
11	PACS1	ENSG00000175115	ENST00000529795	retained_intron	KNOWN	None	30032	None	None	66001291	66002988	1	None	FLJ10209, KIAA1175
11	PACS1	ENSG00000175115	ENST00000525798	retained_intron	KNOWN	None	30032	None	None	66005987	66009019	1	None	FLJ10209, KIAA1175
11	PACS1	ENSG00000175115	ENST00000524815	protein_coding	PUTATIVE	None	30032	276	91	66008419	66010789	1	None	FLJ10209, KIAA1175
11	PACS1	ENSG00000175115	ENST00000531597	protein_coding	PUTATIVE	None	30032	230	75	66008698	66010705	1	None	FLJ10209, KIAA1175
11	PACS1	ENSG00000175115	ENST00000529677	protein_coding	PUTATIVE	None	30032	322	106	66008919	66011108	1	None	FLJ10209, KIAA1175
5	RPL7L1P4	ENSG00000249582	ENST00000513004	processed_pseudogene	KNOWN	None	39486	None	None	117114521	117115227	-1	None	None
14	ADAM21	ENSG00000139985	ENST00000603540	protein_coding	KNOWN	CCDS9804	200	2169	722	70918874	70926616	1	None	ADAM31
14	ADAM21	ENSG00000139985	ENST00000267499	protein_coding	KNOWN	CCDS9804	200	2169	722	70924217	70926622	1	None	ADAM31
16	None	ENSG00000260762	ENST00000566754	unprocessed_pseudogene	KNOWN	None	None	None	None	20597872	20618429	-1	None	None
8	None	ENSG00000241003	ENST00000484521	processed_pseudogene	KNOWN	None	None	None	None	95700456	95700838	1	None	None
2	ACTR3	ENSG00000115091	ENST00000263238	protein_coding	KNOWN	CCDS33277	170	1257	418	114647537	114720173	1	None	ARP3
2	ACTR3	ENSG00000115091	ENST00000443297	nonsense_mediated_decay	KNOWN	None	170	57	18	114647640	114688946	1	None	ARP3
2	ACTR3	ENSG00000115091	ENST00000415792	nonsense_mediated_decay	KNOWN	None	170	105	34	114647670	114697720	1	None	ARP3
2	ACTR3	ENSG00000115091	ENST00000446821	nonsense_mediated_decay	KNOWN	None	170	126	41	114647675	114699839	1	None	ARP3
2	ACTR3	ENSG00000115091	ENST00000535589	protein_coding	PUTATIVE	None	170	1104	367	114648175	114715168	1	None	ARP3
2	ACTR3	ENSG00000115091	ENST00000489779	retained_intron	KNOWN	None	170	None	None	114684946	114692217	1	None	ARP3
2	ACTR3	ENSG00000115091	ENST00000484165	retained_intron	KNOWN	None	170	None	None	114691433	114697680	1	None	ARP3
2	ACTR3	ENSG00000115091	ENST00000478928	retained_intron	KNOWN	None	170	None	None	114708401	114716166	1	None	ARP3
2	ACTR3	ENSG00000115091	ENST00000536059	protein_coding	KNOWN	None	170	1071	356	114647687	114715147	1	None	ARP3
20	MRPS16P2	ENSG00000232925	ENST00000445106	processed_pseudogene	KNOWN	None	16541	None	None	57688279	57688686	1	MRPS16P	bA379F14.1
X	None	ENSG00000231388	ENST00000439323	processed_pseudogene	KNOWN	None	None	None	None	26515053	26523720	1	None	None
16	None	ENSG00000221809	ENST00000408882	miRNA	NOVEL	None	None	None	None	5313224	5313372	-1	None	None
10	None	ENSG00000197604	ENST00000420338	protein_coding	NOVEL	None	None	474	157	72194585	72196314	1	None	None
5	None	ENSG00000249797	ENST00000509669	lincRNA	KNOWN	None	None	None	None	117260703	117542666	1	None	None
5	None	ENSG00000249797	ENST00000509367	lincRNA	KNOWN	None	None	None	None	117523162	117601730	1	None	None
7	None	ENSG00000213394	ENST00000428316	processed_pseudogene	KNOWN	None	None	None	None	100846895	100847776	-1	None	None
3	TFG	ENSG00000114354	ENST00000418917	protein_coding	NOVEL	CCDS56266	11758	1191	396	100428205	100467786	1	None	TF6, FLJ36137, SPG57
3	TFG	ENSG00000114354	ENST00000490574	protein_coding	KNOWN	CCDS2939	11758	1203	400	100428222	100467771	1	None	TF6, FLJ36137, SPG57
3	TFG	ENSG00000114354	ENST00000240851	protein_coding	KNOWN	CCDS2939	11758	1203	400	100428269	100467810	1	None	TF6, FLJ36137, SPG57
3	TFG	ENSG00000114354	ENST00000479672	protein_coding	KNOWN	None	11758	385	127	100428316	100447672	1	None	TF6, FLJ36137, SPG57
3	TFG	ENSG00000114354	ENST00000476228	protein_coding	NOVEL	CCDS56266	11758	1191	396	100428450	100467808	1	None	TF6, FLJ36137, SPG57
3	TFG	ENSG00000114354	ENST00000463568	protein_coding	KNOWN	None	11758	471	156	100428457	100451407	1	None	TF6, FLJ36137, SPG57
3	TFG	ENSG00000114354	ENST00000487505	protein_coding	KNOWN	None	11758	544	180	100428814	100451480	1	None	TF6, FLJ36137, SPG57
3	TFG	ENSG00000114354	ENST00000481203	processed_transcript	KNOWN	None	11758	None	None	100461320	100467807	1	None	TF6, FLJ36137, SPG57
4	None	ENSG00000224207	ENST00000510791	processed_pseudogene	KNOWN	None	None	None	None	103655515	103655769	1	None	None
4	None	ENSG00000224207	ENST00000417049	processed_pseudogene	KNOWN	None	None	None	None	103655515	103655772	1	None	None
9	None	ENSG00000264877	ENST00000581079	miRNA	NOVEL	None	None	None	None	137740819	137740966	-1	None	None
2	DHX57	ENSG00000163214	ENST00000295373	protein_coding	KNOWN	CCDS1800	20086	4161	1386	39024871	39103049	-1	None	DDX57
2	DHX57	ENSG00000163214	ENST00000452978	protein_coding	NOVEL	None	20086	1996	664	39024878	39075544	-1	None	DDX57
2	DHX57	ENSG00000163214	ENST00000460193	retained_intron	KNOWN	None	20086	None	None	39025110	39103066	-1	None	DDX57
2	DHX57	ENSG00000163214	ENST00000457308	nonsense_mediated_decay	KNOWN	None	20086	1419	472	39025422	39094380	-1	None	DDX57
2	DHX57	ENSG00000163214	ENST00000477981	retained_intron	KNOWN	None	20086	None	None	39025494	39030165	-1	None	DDX57
2	DHX57	ENSG00000163214	ENST00000497514	retained_intron	KNOWN	None	20086	None	None	39033546	39046102	-1	None	DDX57
2	DHX57	ENSG00000163214	ENST00000442331	protein_coding	PUTATIVE	None	20086	156	51	39043017	39046250	-1	None	DDX57
2	DHX57	ENSG00000163214	ENST00000474104	retained_intron	KNOWN	None	20086	None	None	39080187	39103021	-1	None	DDX57
2	DHX57	ENSG00000163214	ENST00000492042	processed_transcript	PUTATIVE	None	20086	None	None	39083505	39084260	-1	None	DDX57
2	DHX57	ENSG00000163214	ENST00000479345	processed_transcript	KNOWN	None	20086	None	None	39083937	39094372	-1	None	DDX57
2	DHX57	ENSG00000163214	ENST00000417233	protein_coding	PUTATIVE	None	20086	318	105	39088928	39103075	-1	None	DDX57
10	GDF10	ENSG00000107623	ENST00000224605	protein_coding	KNOWN	CCDS7220	4215	1437	478	48425815	48438976	-1	None	BMP-3b
16	None	ENSG00000242278	ENST00000470389	processed_pseudogene	KNOWN	None	None	None	None	5320175	5320955	1	None	None
9	None	ENSG00000265286	ENST00000582742	miRNA	NOVEL	None	None	None	None	137741021	137741098	-1	None	None
6	IQCB2P	ENSG00000217539	ENST00000401788	processed_pseudogene	KNOWN	None	17727	None	None	27978501	27980133	1	IQCB1P1	dJ313I6.1
9	ABCA1	ENSG00000165029	ENST00000374736	protein_coding	KNOWN	CCDS6762	29	6786	2261	107543283	107690518	-1	ABC1, HDLDT1	TGD
9	ABCA1	ENSG00000165029	ENST00000494467	processed_transcript	KNOWN	None	29	None	None	107587872	107593270	-1	ABC1, HDLDT1	TGD
9	ABCA1	ENSG00000165029	ENST00000423487	protein_coding	KNOWN	None	29	1092	363	107617847	107690420	-1	ABC1, HDLDT1	TGD
9	ABCA1	ENSG00000165029	ENST00000374733	protein_coding	KNOWN	None	29	372	123	107623719	107690420	-1	ABC1, HDLDT1	TGD
19	MEGF8	ENSG00000105429	ENST00000334370	protein_coding	KNOWN	CCDS12604	3233	8337	2778	42829761	42882921	1	EGFL4, C19orf49	SBP1, FLJ22365
19	MEGF8	ENSG00000105429	ENST00000251268	protein_coding	KNOWN	None	3233	8538	2845	42830396	42881938	1	EGFL4, C19orf49	SBP1, FLJ22365
19	MEGF8	ENSG00000105429	ENST00000593840	retained_intron	KNOWN	None	3233	None	None	42856948	42857820	1	EGFL4, C19orf49	SBP1, FLJ22365
19	MEGF8	ENSG00000105429	ENST00000598762	protein_coding	PUTATIVE	None	3233	212	69	42865122	42882915	1	EGFL4, C19orf49	SBP1, FLJ22365
19	MEGF8	ENSG00000105429	ENST00000593647	protein_coding	PUTATIVE	None	3233	537	178	42873783	42881954	1	EGFL4, C19orf49	SBP1, FLJ22365
19	MEGF8	ENSG00000105429	ENST00000599787	retained_intron	KNOWN	None	3233	None	None	42874780	42880114	1	EGFL4, C19orf49	SBP1, FLJ22365
19	MEGF8	ENSG00000105429	ENST00000378073	protein_coding	KNOWN	None	3233	1320	439	42873783	42881938	1	EGFL4, C19orf49	SBP1, FLJ22365
1	None	ENSG00000252841	ENST00000517032	miRNA	NOVEL	None	None	None	None	9338450	9338592	1	None	None
10	LINC00700	ENSG00000234962	ENST00000413603	lincRNA	KNOWN	None	27422	None	None	2047667	2056542	-1	None	None
10	LINC00700	ENSG00000234962	ENST00000438372	lincRNA	KNOWN	None	27422	None	None	2054459	2056542	-1	None	None
10	LINC00700	ENSG00000234962	ENST00000454424	lincRNA	KNOWN	None	27422	None	None	2054847	2055605	-1	None	None
14	ADAM20	ENSG00000134007	ENST00000256389	protein_coding	KNOWN	CCDS32111	199	2331	776	70989075	71001732	-1	None	None
20	None	ENSG00000263903	ENST00000580214	miRNA	NOVEL	None	None	None	None	57921434	57921535	-1	None	None
16	None	ENSG00000267182	ENST00000588011	processed_pseudogene	KNOWN	None	None	None	None	5339201	5339410	-1	None	None
12	MIR1251	ENSG00000221479	ENST00000408552	miRNA	KNOWN	None	35317	None	None	97885678	97885761	1	MIRN1251	hsa-mir-1251
10	PALD1	ENSG00000107719	ENST00000263563	protein_coding	KNOWN	CCDS31215	23530	2571	856	72238577	72328205	1	PALD, KIAA1274	None
5	None	ENSG00000250427	ENST00000503877	lincRNA	KNOWN	None	None	None	None	117618270	117620477	1	None	None
4	None	ENSG00000251288	ENST00000513388	processed_pseudogene	KNOWN	None	None	None	None	103672558	103673798	1	None	None
5	None	ENSG00000228737	ENST00000422040	antisense	KNOWN	None	None	None	None	140997981	141006048	1	None	None
22	None	ENSG00000238569	ENST00000459462	snoRNA	NOVEL	None	None	None	None	38181533	38181614	1	None	None
3	SOX14	ENSG00000168875	ENST00000306087	protein_coding	KNOWN	CCDS3094	11193	723	240	137483579	137484396	1	None	SOX28
22	MIR658	ENSG00000207945	ENST00000385210	miRNA	KNOWN	None	32914	None	None	38240279	38240378	-1	MIRN658	hsa-mir-658
16	None	ENSG00000261007	ENST00000564888	processed_pseudogene	KNOWN	None	None	None	None	5415798	5416689	1	None	None
5	None	ENSG00000226040	ENST00000515639	processed_pseudogene	KNOWN	None	None	None	None	141275733	141276254	-1	None	None
5	None	ENSG00000226040	ENST00000421425	processed_pseudogene	KNOWN	None	None	None	None	141275733	141276242	-1	None	None
9	MIR3689C	ENSG00000264744	ENST00000581239	miRNA	KNOWN	None	41816	None	None	137741144	137741215	-1	None	hsa-mir-3689c
22	MIR659	ENSG00000207696	ENST00000384963	miRNA	KNOWN	None	32915	None	None	38243685	38243781	-1	MIRN659	hsa-mir-659
HSCHR6_MHC_QBL	TRIM15	ENSG00000137384	ENST00000259930	protein_coding	KNOWN	None	16284	1398	465	30120543	30130023	1	ZNF178	ZNFB7, RNF93
HSCHR6_MHC_QBL	TRIM15	ENSG00000137384	ENST00000427952	protein_coding	KNOWN	None	16284	491	162	30125640	30129282	1	ZNF178	ZNFB7, RNF93
HSCHR6_MHC_QBL	TRIM15	ENSG00000137384	ENST00000492678	processed_transcript	KNOWN	None	16284	None	None	30125684	30130023	1	ZNF178	ZNFB7, RNF93
HSCHR6_MHC_QBL	TRIM15	ENSG00000137384	ENST00000479020	processed_transcript	KNOWN	None	16284	None	None	30127640	30128424	1	ZNF178	ZNFB7, RNF93
HSCHR6_MHC_QBL	TRIM15	ENSG00000137384	ENST00000549109	protein_coding	KNOWN	None	16284	348	115	30121012	30129934	1	ZNF178	ZNFB7, RNF93
HSCHR6_MHC_QBL	TRIM15	ENSG00000137384	ENST00000550969	protein_coding	KNOWN	None	16284	1191	396	30120533	30130016	1	ZNF178	ZNFB7, RNF93
1	RNA5SP40	ENSG00000252956	ENST00000517147	rRNA	KNOWN	None	42816	None	None	9497728	9497837	-1	RN5S40	None
7	SNORA22	ENSG00000206634	ENST00000383907	snoRNA	KNOWN	None	32612	None	None	65220513	65220646	1	None	ACA22
9	MIR3689A	ENSG00000265872	ENST00000578854	miRNA	KNOWN	None	38904	None	None	137741333	137741410	-1	None	hsa-mir-3689a
22	RNU6-900P	ENSG00000207227	ENST00000384498	snRNA	KNOWN	None	47863	None	None	38287354	38287455	1	None	None
4	None	ENSG00000246560	ENST00000501133	antisense	KNOWN	None	None	None	None	103749212	103765232	1	None	None
9	MIR3689D1	ENSG00000265848	ENST00000579706	miRNA	KNOWN	None	41621	None	None	137741455	137741528	-1	None	hsa-mir-3689d-1
22	MIR4534	ENSG00000264505	ENST00000578108	miRNA	KNOWN	None	41692	None	None	38384801	38384860	1	None	hsa-mir-4534
3	FYCO1	ENSG00000163820	ENST00000433878	protein_coding	KNOWN	None	14673	803	266	45959396	46000064	-1	None	FLJ13335, ZFYVE7
3	FYCO1	ENSG00000163820	ENST00000296137	protein_coding	KNOWN	CCDS2734	14673	4437	1478	45959396	46037307	-1	None	FLJ13335, ZFYVE7
3	FYCO1	ENSG00000163820	ENST00000438446	protein_coding	PUTATIVE	None	14673	450	149	45963077	46000153	-1	None	FLJ13335, ZFYVE7
3	FYCO1	ENSG00000163820	ENST00000471739	retained_intron	KNOWN	None	14673	None	None	46026073	46037316	-1	None	FLJ13335, ZFYVE7
3	FYCO1	ENSG00000163820	ENST00000535325	protein_coding	KNOWN	None	14673	4497	1498	45963204	46026487	-1	None	FLJ13335, ZFYVE7
7	None	ENSG00000206785	ENST00000384058	snoRNA	NOVEL	None	None	None	None	65225039	65225173	1	None	None
22	None	ENSG00000222044	ENST00000410099	antisense	KNOWN	None	None	None	None	38428172	38430235	-1	None	None
5	None	ENSG00000250891	ENST00000506769	lincRNA	KNOWN	None	None	None	None	117803851	117897812	-1	None	None
5	None	ENSG00000250891	ENST00000515704	lincRNA	KNOWN	None	None	None	None	117881553	117897751	-1	None	None
6	None	ENSG00000199851	ENST00000362981	snoRNA	NOVEL	None	None	None	None	27983346	27983553	1	None	None
5	None	ENSG00000271871	ENST00000607378	antisense	KNOWN	None	None	None	None	141331984	141332940	1	None	None
9	None	ENSG00000270092	ENST00000602407	processed_pseudogene	KNOWN	None	None	None	None	66836662	66836791	1	None	None
7	None	ENSG00000224316	ENST00000414608	unprocessed_pseudogene	KNOWN	None	None	None	None	65238607	65267054	1	None	None
22	None	ENSG00000233739	ENST00000445483	antisense	KNOWN	None	None	None	None	38453187	38469947	-1	None	None
6	OR2W2P	ENSG00000217315	ENST00000406313	unprocessed_pseudogene	KNOWN	None	13970	None	None	28001725	28002633	1	None	hs6M1-30P
8	LINC00536	ENSG00000249917	ENST00000505156	lincRNA	KNOWN	None	43645	None	None	116962736	117337297	-1	None	None
5	None	ENSG00000254099	ENST00000520882	antisense	KNOWN	None	None	None	None	141350202	141362252	-1	None	None
9	None	ENSG00000238638	ENST00000459322	miRNA	NOVEL	None	None	None	None	66858537	66858612	-1	None	None
1	None	ENSG00000235263	ENST00000441033	lincRNA	KNOWN	None	None	None	None	9561151	9563530	-1	None	None
9	None	ENSG00000264898	ENST00000578257	miRNA	NOVEL	None	None	None	None	66861461	66861543	-1	None	None
22	None	ENSG00000256873	ENST00000541788	pseudogene	NOVEL	None	None	None	None	38616385	38617120	-1	None	None
3	GPR87	ENSG00000138271	ENST00000260843	protein_coding	KNOWN	CCDS3157	4538	1077	358	151011891	151034740	-1	GPR95	None
16	None	ENSG00000260510	ENST00000565498	antisense	KNOWN	None	None	None	None	20754985	20777942	-1	None	None
9	None	ENSG00000244081	ENST00000450223	unprocessed_pseudogene	KNOWN	None	None	None	None	66930569	66930965	1	None	None
1	DUSP12	ENSG00000081721	ENST00000484291	processed_transcript	KNOWN	None	3067	None	None	161719548	161727028	1	None	YVH1, DUSP1
1	DUSP12	ENSG00000081721	ENST00000367943	protein_coding	KNOWN	CCDS1234	3067	1023	340	161719560	161726952	1	None	YVH1, DUSP1
1	DUSP12	ENSG00000081721	ENST00000464004	processed_transcript	KNOWN	None	3067	None	None	161719570	161723051	1	None	YVH1, DUSP1
1	DUSP12	ENSG00000081721	ENST00000490591	processed_transcript	KNOWN	None	3067	None	None	161719595	161721571	1	None	YVH1, DUSP1
1	DUSP12	ENSG00000081721	ENST00000463365	processed_transcript	KNOWN	None	3067	None	None	161722189	161723196	1	None	YVH1, DUSP1
HSCHR6_MHC_COX	None	ENSG00000257916	ENST00000549907	pseudogene	NOVEL	None	None	None	None	30456003	30456593	1	None	None
16	None	ENSG00000260338	ENST00000566218	antisense	KNOWN	None	None	None	None	5651170	5666197	-1	None	None
16	None	ENSG00000260338	ENST00000561572	antisense	KNOWN	None	None	None	None	5660301	5661294	-1	None	None
9	None	ENSG00000235355	ENST00000425501	processed_pseudogene	KNOWN	None	None	None	None	66951142	66951845	-1	None	None
5	None	ENSG00000250347	ENST00000511085	processed_pseudogene	KNOWN	None	None	None	None	141416272	141416690	-1	None	None
9	None	ENSG00000234320	ENST00000445641	processed_pseudogene	KNOWN	None	None	None	None	66954107	66954749	1	None	None
8	RNA5SP276	ENSG00000199450	ENST00000362580	rRNA	KNOWN	None	43176	None	None	117034911	117035004	-1	RN5S276	None
22	None	ENSG00000251267	ENST00000504337	processed_transcript	PUTATIVE	None	None	None	None	38616982	38618939	-1	None	None
8	None	ENSG00000221793	ENST00000408866	miRNA	NOVEL	None	None	None	None	117148998	117149139	1	None	None
5	KIAA0947	ENSG00000164151	ENST00000512608	processed_transcript	KNOWN	None	29154	None	None	5420777	5454728	1	None	None
5	KIAA0947	ENSG00000164151	ENST00000296564	protein_coding	KNOWN	CCDS47187	29154	6801	2266	5422807	5490347	1	None	None
5	KIAA0947	ENSG00000164151	ENST00000505464	retained_intron	KNOWN	None	29154	None	None	5422855	5437949	1	None	None
19	C19orf60	ENSG00000006015	ENST00000598375	retained_intron	KNOWN	None	26098	None	None	18699495	18703144	1	None	FLJ20850, FLJ30108, FLJ34606, FLJ37391
19	C19orf60	ENSG00000006015	ENST00000358607	protein_coding	KNOWN	CCDS42524	26098	606	201	18699535	18703146	1	None	FLJ20850, FLJ30108, FLJ34606, FLJ37391
19	C19orf60	ENSG00000006015	ENST00000450195	protein_coding	KNOWN	CCDS46019	26098	540	179	18699606	18703146	1	None	FLJ20850, FLJ30108, FLJ34606, FLJ37391
19	C19orf60	ENSG00000006015	ENST00000600997	retained_intron	KNOWN	None	26098	None	None	18699608	18703146	1	None	FLJ20850, FLJ30108, FLJ34606, FLJ37391
19	C19orf60	ENSG00000006015	ENST00000601736	nonsense_mediated_decay	KNOWN	None	26098	201	66	18699612	18703146	1	None	FLJ20850, FLJ30108, FLJ34606, FLJ37391
19	C19orf60	ENSG00000006015	ENST00000597371	retained_intron	KNOWN	None	26098	None	None	18699619	18703137	1	None	FLJ20850, FLJ30108, FLJ34606, FLJ37391
19	C19orf60	ENSG00000006015	ENST00000595490	protein_coding	PUTATIVE	None	26098	181	59	18700412	18703146	1	None	FLJ20850, FLJ30108, FLJ34606, FLJ37391
19	C19orf60	ENSG00000006015	ENST00000595077	retained_intron	KNOWN	None	26098	None	None	18700682	18703146	1	None	FLJ20850, FLJ30108, FLJ34606, FLJ37391
8	None	ENSG00000264815	ENST00000579132	miRNA	NOVEL	None	None	None	None	117299588	117299698	1	None	None
6	IL17F	ENSG00000112116	ENST00000478427	retained_intron	KNOWN	None	16404	None	None	52101479	52103965	-1	None	IL-17F, ML-1, ML1
6	IL17F	ENSG00000112116	ENST00000336123	protein_coding	KNOWN	CCDS4938	16404	492	163	52101479	52109335	-1	None	IL-17F, ML-1, ML1
9	None	ENSG00000198312	ENST00000457640	unprocessed_pseudogene	KNOWN	None	None	None	None	66960613	66964189	1	None	None
17	AIPL1	ENSG00000129221	ENST00000570584	protein_coding	PUTATIVE	None	359	409	135	6297013	6338399	-1	LCA4	None
17	AIPL1	ENSG00000129221	ENST00000381128	nonsense_mediated_decay	KNOWN	None	359	186	61	6327057	6338452	-1	LCA4	None
17	AIPL1	ENSG00000129221	ENST00000381129	protein_coding	KNOWN	CCDS11075	359	1155	384	6327057	6338505	-1	LCA4	None
17	AIPL1	ENSG00000129221	ENST00000250087	protein_coding	KNOWN	CCDS32540	359	966	321	6327058	6338519	-1	LCA4	None
17	AIPL1	ENSG00000129221	ENST00000574506	protein_coding	NOVEL	None	359	1119	372	6327854	6338453	-1	LCA4	None
17	AIPL1	ENSG00000129221	ENST00000575265	protein_coding	PUTATIVE	None	359	813	270	6328625	6338441	-1	LCA4	None
17	AIPL1	ENSG00000129221	ENST00000570466	protein_coding	NOVEL	None	359	1089	362	6328721	6338472	-1	LCA4	None
17	AIPL1	ENSG00000129221	ENST00000576776	protein_coding	NOVEL	None	359	1083	360	6328721	6338472	-1	LCA4	None
17	AIPL1	ENSG00000129221	ENST00000576307	protein_coding	KNOWN	CCDS32539	359	975	324	6328726	6338472	-1	LCA4	None
17	AIPL1	ENSG00000129221	ENST00000571740	protein_coding	PUTATIVE	None	359	789	262	6329509	6338440	-1	LCA4	None
17	AIPL1	ENSG00000129221	ENST00000574913	protein_coding	NOVEL	None	359	650	215	6330205	6338427	-1	LCA4	None
16	RNU6-944P	ENSG00000200893	ENST00000364023	snRNA	KNOWN	None	47907	None	None	20795831	20795937	1	None	None
8	None	ENSG00000253672	ENST00000523110	lincRNA	KNOWN	None	None	None	None	117414781	117415995	-1	None	None
22	None	ENSG00000235246	ENST00000420172	processed_transcript	PUTATIVE	None	None	None	None	38627326	38628254	1	None	None
16	None	ENSG00000263331	ENST00000575612	antisense	KNOWN	None	None	None	None	21132079	21141429	1	None	None
9	TCEA1P1	ENSG00000197214	ENST00000449716	processed_pseudogene	KNOWN	None	11613	None	None	99830031	99830910	1	GTF2SP, TCEA1P	None
8	RAD21-AS1	ENSG00000253327	ENST00000521487	antisense	KNOWN	None	32158	None	None	117886663	117889107	1	C8orf81, NCRNA00255	None
4	FBXL5	ENSG00000118564	ENST00000341285	protein_coding	KNOWN	CCDS3415	13602	2076	691	15606162	15657035	-1	None	FBL4, FBL5, FLR1
4	FBXL5	ENSG00000118564	ENST00000513163	protein_coding	NOVEL	None	13602	1837	611	15606629	15646272	-1	None	FBL4, FBL5, FLR1
4	FBXL5	ENSG00000118564	ENST00000511441	nonsense_mediated_decay	KNOWN	None	13602	333	110	15606629	15656964	-1	None	FBL4, FBL5, FLR1
4	FBXL5	ENSG00000118564	ENST00000412094	protein_coding	KNOWN	CCDS54745	13602	2025	674	15606629	15657005	-1	None	FBL4, FBL5, FLR1
4	FBXL5	ENSG00000118564	ENST00000507700	retained_intron	KNOWN	None	13602	None	None	15613636	15656964	-1	None	FBL4, FBL5, FLR1
4	FBXL5	ENSG00000118564	ENST00000504837	retained_intron	KNOWN	None	13602	None	None	15637996	15656918	-1	None	FBL4, FBL5, FLR1
4	FBXL5	ENSG00000118564	ENST00000512066	protein_coding	PUTATIVE	None	13602	550	182	15638213	15646301	-1	None	FBL4, FBL5, FLR1
4	FBXL5	ENSG00000118564	ENST00000503196	protein_coding	PUTATIVE	None	13602	387	128	15640162	15661490	-1	None	FBL4, FBL5, FLR1
4	FBXL5	ENSG00000118564	ENST00000509314	protein_coding	PUTATIVE	None	13602	377	124	15640172	15661487	-1	None	FBL4, FBL5, FLR1
4	FBXL5	ENSG00000118564	ENST00000510802	protein_coding	PUTATIVE	None	13602	236	77	15640313	15683190	-1	None	FBL4, FBL5, FLR1
4	FBXL5	ENSG00000118564	ENST00000507899	protein_coding	PUTATIVE	None	13602	286	94	15642464	15683177	-1	None	FBL4, FBL5, FLR1
4	FBXL5	ENSG00000118564	ENST00000515679	protein_coding	PUTATIVE	None	13602	170	55	15642472	15683242	-1	None	FBL4, FBL5, FLR1
4	FBXL5	ENSG00000118564	ENST00000514541	processed_transcript	KNOWN	None	13602	None	None	15661354	15683302	-1	None	FBL4, FBL5, FLR1
4	FBXL5	ENSG00000118564	ENST00000382358	protein_coding	KNOWN	None	13602	1698	565	15606631	15656964	-1	None	FBL4, FBL5, FLR1
3	CLDN18	ENSG00000066405	ENST00000343735	protein_coding	KNOWN	CCDS33862	2039	786	261	137717577	137752494	1	SFTPJ	None
3	CLDN18	ENSG00000066405	ENST00000183605	protein_coding	KNOWN	CCDS3095	2039	786	261	137728842	137752491	1	SFTPJ	None
3	CLDN18	ENSG00000066405	ENST00000479660	nonsense_mediated_decay	KNOWN	None	2039	441	146	137729058	137751344	1	SFTPJ	None
1	None	ENSG00000231181	ENST00000435277	processed_pseudogene	KNOWN	None	None	None	None	9636485	9637043	1	None	None
19	MAN2B1	ENSG00000104774	ENST00000469423	retained_intron	KNOWN	None	6826	None	None	12757325	12758398	-1	MANB	LAMAN
19	MAN2B1	ENSG00000104774	ENST00000480851	processed_transcript	KNOWN	None	6826	None	None	12757327	12757960	-1	MANB	LAMAN
19	MAN2B1	ENSG00000104774	ENST00000493218	retained_intron	KNOWN	None	6826	None	None	12757327	12758487	-1	MANB	LAMAN
19	MAN2B1	ENSG00000104774	ENST00000456935	protein_coding	KNOWN	CCDS32919	6826	3036	1011	12757327	12777556	-1	MANB	LAMAN
19	MAN2B1	ENSG00000104774	ENST00000221363	protein_coding	NOVEL	CCDS54224	6826	3033	1010	12757330	12777548	-1	MANB	LAMAN
19	MAN2B1	ENSG00000104774	ENST00000466794	retained_intron	KNOWN	None	6826	None	None	12757375	12777497	-1	MANB	LAMAN
19	MAN2B1	ENSG00000104774	ENST00000596591	nonsense_mediated_decay	KNOWN	None	6826	203	66	12763006	12767392	-1	MANB	LAMAN
19	MAN2B1	ENSG00000104774	ENST00000595880	processed_transcript	KNOWN	None	6826	None	None	12763013	12768193	-1	MANB	LAMAN
19	MAN2B1	ENSG00000104774	ENST00000433513	processed_transcript	KNOWN	None	6826	None	None	12763059	12768049	-1	MANB	LAMAN
19	MAN2B1	ENSG00000104774	ENST00000593686	nonsense_mediated_decay	KNOWN	None	6826	422	139	12763069	12768288	-1	MANB	LAMAN
19	MAN2B1	ENSG00000104774	ENST00000495617	processed_transcript	KNOWN	None	6826	None	None	12767473	12769824	-1	MANB	LAMAN
19	MAN2B1	ENSG00000104774	ENST00000465830	retained_intron	KNOWN	None	6826	None	None	12768269	12769431	-1	MANB	LAMAN
19	MAN2B1	ENSG00000104774	ENST00000462144	retained_intron	KNOWN	None	6826	None	None	12771711	12774232	-1	MANB	LAMAN
19	MAN2B1	ENSG00000104774	ENST00000486847	protein_coding	NOVEL	None	6826	494	163	12774249	12777556	-1	MANB	LAMAN
19	MAN2B1	ENSG00000104774	ENST00000596512	processed_transcript	KNOWN	None	6826	None	None	12775618	12777556	-1	MANB	LAMAN
19	MAN2B1	ENSG00000104774	ENST00000598876	protein_coding	NOVEL	None	6826	516	171	12775747	12777550	-1	MANB	LAMAN
19	MAN2B1	ENSG00000104774	ENST00000600281	retained_intron	KNOWN	None	6826	None	None	12776060	12777556	-1	MANB	LAMAN
14	MED6	ENSG00000133997	ENST00000554963	protein_coding	NOVEL	None	19970	750	249	71047974	71067360	-1	None	NY-REN-28
14	MED6	ENSG00000133997	ENST00000256379	protein_coding	KNOWN	CCDS9805	19970	741	246	71050306	71067384	-1	None	NY-REN-28
14	MED6	ENSG00000133997	ENST00000430055	protein_coding	NOVEL	None	19970	762	253	71050803	71067372	-1	None	NY-REN-28
14	MED6	ENSG00000133997	ENST00000440435	protein_coding	NOVEL	None	19970	546	181	71051242	71067372	-1	None	NY-REN-28
14	MED6	ENSG00000133997	ENST00000555296	retained_intron	KNOWN	None	19970	None	None	71051382	71058531	-1	None	NY-REN-28
14	MED6	ENSG00000133997	ENST00000553611	retained_intron	KNOWN	None	19970	None	None	71057983	71067383	-1	None	NY-REN-28
14	MED6	ENSG00000133997	ENST00000556044	processed_transcript	KNOWN	None	19970	None	None	71058005	71067370	-1	None	NY-REN-28
14	MED6	ENSG00000133997	ENST00000556495	retained_intron	KNOWN	None	19970	None	None	71059228	71067381	-1	None	NY-REN-28
14	MED6	ENSG00000133997	ENST00000554870	retained_intron	KNOWN	None	19970	None	None	71059295	71067372	-1	None	NY-REN-28
14	MED6	ENSG00000133997	ENST00000553523	retained_intron	KNOWN	None	19970	None	None	71062929	71064547	-1	None	NY-REN-28
14	MED6	ENSG00000133997	ENST00000556423	retained_intron	KNOWN	None	19970	None	None	71062929	71067370	-1	None	NY-REN-28
HSCHR6_MHC_MCF	MOG	ENSG00000232641	ENST00000452744	protein_coding	KNOWN	None	7197	744	247	29624568	29639934	1	None	None
HSCHR6_MHC_MCF	MOG	ENSG00000232641	ENST00000425569	processed_transcript	KNOWN	None	7197	None	None	29624617	29633826	1	None	None
HSCHR6_MHC_MCF	MOG	ENSG00000232641	ENST00000429153	protein_coding	KNOWN	None	7197	888	295	29624661	29639934	1	None	None
HSCHR6_MHC_MCF	MOG	ENSG00000232641	ENST00000495080	processed_transcript	KNOWN	None	7197	None	None	29624699	29627492	1	None	None
HSCHR6_MHC_MCF	MOG	ENSG00000232641	ENST00000411455	protein_coding	KNOWN	None	7197	396	131	29624779	29639934	1	None	None
HSCHR6_MHC_MCF	MOG	ENSG00000232641	ENST00000450634	protein_coding	KNOWN	None	7197	759	252	29624779	29639934	1	None	None
HSCHR6_MHC_MCF	MOG	ENSG00000232641	ENST00000453271	protein_coding	KNOWN	None	7197	642	213	29624779	29639934	1	None	None
HSCHR6_MHC_MCF	MOG	ENSG00000232641	ENST00000459677	protein_coding	KNOWN	None	7197	690	229	29624779	29639934	1	None	None
HSCHR6_MHC_MCF	MOG	ENSG00000232641	ENST00000400668	protein_coding	KNOWN	None	7197	675	224	29624779	29639934	1	None	None
HSCHR6_MHC_MCF	MOG	ENSG00000232641	ENST00000434870	protein_coding	KNOWN	None	7197	615	204	29624785	29639934	1	None	None
HSCHR6_MHC_MCF	MOG	ENSG00000232641	ENST00000431084	protein_coding	KNOWN	None	7197	539	178	29626887	29639934	1	None	None
HSCHR6_MHC_MCF	MOG	ENSG00000232641	ENST00000495495	processed_transcript	KNOWN	None	7197	None	None	29626887	29639934	1	None	None
HSCHR6_MHC_MCF	MOG	ENSG00000232641	ENST00000497130	processed_transcript	KNOWN	None	7197	None	None	29626887	29639934	1	None	None
HSCHR6_MHC_MCF	MOG	ENSG00000232641	ENST00000550041	protein_coding	KNOWN	None	7197	621	206	29624631	29639016	1	None	None
HSCHR6_MHC_MCF	MOG	ENSG00000232641	ENST00000546555	protein_coding	KNOWN	None	7197	174	57	29624631	29632301	1	None	None
HSCHR6_MHC_MCF	MOG	ENSG00000232641	ENST00000550605	protein_coding	KNOWN	None	7197	516	171	29624631	29632275	1	None	None
20	None	ENSG00000237832	ENST00000441428	antisense	KNOWN	None	None	None	None	14914489	14916009	-1	None	None
8	MIR3610	ENSG00000264875	ENST00000582903	miRNA	KNOWN	None	38942	None	None	117886967	117887039	-1	None	hsa-mir-3610
6	AMD1	ENSG00000123505	ENST00000368885	protein_coding	KNOWN	CCDS5086	457	1005	334	111195973	111216916	1	None	SAMDC
6	AMD1	ENSG00000123505	ENST00000368882	protein_coding	KNOWN	CCDS34512	457	561	186	111195973	111216916	1	None	SAMDC
6	AMD1	ENSG00000123505	ENST00000368876	protein_coding	KNOWN	None	457	798	265	111196778	111216916	1	None	SAMDC
6	AMD1	ENSG00000123505	ENST00000465404	nonsense_mediated_decay	KNOWN	None	457	18	5	111214028	111215264	1	None	SAMDC
6	AMD1	ENSG00000123505	ENST00000451850	protein_coding	KNOWN	None	457	645	214	111195987	111215033	1	None	SAMDC
6	AMD1	ENSG00000123505	ENST00000368877	protein_coding	KNOWN	None	457	918	305	111195988	111215185	1	None	SAMDC
5	None	ENSG00000231185	ENST00000510311	antisense	KNOWN	None	None	None	None	141704858	141843619	1	None	None
5	None	ENSG00000231185	ENST00000515288	antisense	KNOWN	None	None	None	None	141704863	141733186	1	None	None
5	None	ENSG00000231185	ENST00000514303	antisense	KNOWN	None	None	None	None	141733108	141755219	1	None	None
5	None	ENSG00000231185	ENST00000443800	antisense	KNOWN	None	None	None	None	141783766	142051566	1	None	None
5	None	ENSG00000231185	ENST00000425963	antisense	KNOWN	None	None	None	None	141783783	141909695	1	None	None
5	None	ENSG00000231185	ENST00000414314	antisense	KNOWN	None	None	None	None	141961413	142006755	1	None	None
8	RN7SL228P	ENSG00000244033	ENST00000470060	misc_RNA	KNOWN	None	46244	None	None	118030185	118030485	1	None	None
4	None	ENSG00000248369	ENST00000504357	protein_coding	PUTATIVE	None	None	353	116	133356957	133368390	-1	None	None
8	None	ENSG00000253271	ENST00000522976	processed_pseudogene	KNOWN	None	None	None	None	118068057	118068384	1	None	None
12	MMP17	ENSG00000198598	ENST00000360564	protein_coding	KNOWN	CCDS31927	7163	1812	603	132312938	132336316	1	None	MT4-MMP
12	MMP17	ENSG00000198598	ENST00000545671	protein_coding	PUTATIVE	None	7163	507	168	132312951	132326281	1	None	MT4-MMP
12	MMP17	ENSG00000198598	ENST00000545790	protein_coding	KNOWN	None	7163	345	114	132313085	132325292	1	None	MT4-MMP
12	MMP17	ENSG00000198598	ENST00000535291	protein_coding	KNOWN	None	7163	1560	519	132322601	132336328	1	None	MT4-MMP
12	MMP17	ENSG00000198598	ENST00000534865	protein_coding	PUTATIVE	None	7163	907	301	132324570	132334526	1	None	MT4-MMP
12	MMP17	ENSG00000198598	ENST00000535182	processed_transcript	KNOWN	None	7163	None	None	132325281	132329936	1	None	MT4-MMP
12	MMP17	ENSG00000198598	ENST00000542142	retained_intron	KNOWN	None	7163	None	None	132326313	132329266	1	None	MT4-MMP
12	MMP17	ENSG00000198598	ENST00000537848	nonsense_mediated_decay	KNOWN	None	7163	120	39	132329415	132335575	1	None	MT4-MMP
12	MMP17	ENSG00000198598	ENST00000542648	protein_coding	PUTATIVE	None	7163	355	117	132329506	132334607	1	None	MT4-MMP
12	MMP17	ENSG00000198598	ENST00000535004	protein_coding	PUTATIVE	None	7163	432	143	132329840	132335912	1	None	MT4-MMP
12	MMP17	ENSG00000198598	ENST00000535271	retained_intron	KNOWN	None	7163	None	None	132334380	132335877	1	None	MT4-MMP
10	C1DP2	ENSG00000236217	ENST00000418167	processed_pseudogene	KNOWN	None	31660	None	None	81791724	81792149	-1	None	bA369J21.3
10	C1DP2	ENSG00000236217	ENST00000534840	processed_pseudogene	KNOWN	None	31660	None	None	81791600	81792149	-1	None	bA369J21.3
20	RNU6-1159P	ENSG00000199803	ENST00000362933	snRNA	KNOWN	None	48122	None	None	15002199	15002305	-1	None	None
5	PAIP1	ENSG00000172239	ENST00000306846	protein_coding	KNOWN	CCDS3947	16945	1440	479	43526369	43557181	-1	None	None
5	PAIP1	ENSG00000172239	ENST00000436644	protein_coding	KNOWN	CCDS47204	16945	1203	400	43527194	43557195	-1	None	None
5	PAIP1	ENSG00000172239	ENST00000514816	protein_coding	PUTATIVE	None	16945	150	49	43527195	43533894	-1	None	None
5	PAIP1	ENSG00000172239	ENST00000338972	protein_coding	KNOWN	CCDS3948	16945	1104	367	43527195	43557797	-1	None	None
5	PAIP1	ENSG00000172239	ENST00000514514	protein_coding	KNOWN	None	16945	1056	351	43527215	43557179	-1	None	None
5	PAIP1	ENSG00000172239	ENST00000504639	nonsense_mediated_decay	KNOWN	None	16945	801	266	43527247	43557155	-1	None	None
5	PAIP1	ENSG00000172239	ENST00000511321	protein_coding	KNOWN	None	16945	601	199	43536956	43557836	-1	None	None
5	PAIP1	ENSG00000172239	ENST00000508537	protein_coding	KNOWN	None	16945	505	167	43539031	43556480	-1	None	None
5	PAIP1	ENSG00000172239	ENST00000504075	protein_coding	PUTATIVE	None	16945	29	8	43543163	43557179	-1	None	None
5	PAIP1	ENSG00000172239	ENST00000515338	protein_coding	KNOWN	None	16945	285	94	43547830	43557860	-1	None	None
11	MRPL49	ENSG00000149792	ENST00000524482	processed_transcript	KNOWN	None	1176	None	None	64889655	64894828	1	C11orf4	NOF, NOF1, L49mt
11	MRPL49	ENSG00000149792	ENST00000528529	processed_transcript	KNOWN	None	1176	None	None	64889763	64893774	1	C11orf4	NOF, NOF1, L49mt
11	MRPL49	ENSG00000149792	ENST00000534078	protein_coding	PUTATIVE	None	1176	171	56	64889783	64893476	1	C11orf4	NOF, NOF1, L49mt
11	MRPL49	ENSG00000149792	ENST00000526319	nonsense_mediated_decay	KNOWN	CCDS8096	1176	501	166	64889791	64894835	1	C11orf4	NOF, NOF1, L49mt
11	MRPL49	ENSG00000149792	ENST00000526171	protein_coding	PUTATIVE	None	1176	423	140	64889793	64893205	1	C11orf4	NOF, NOF1, L49mt
11	MRPL49	ENSG00000149792	ENST00000279242	protein_coding	KNOWN	CCDS8096	1176	501	166	64889800	64894843	1	C11orf4	NOF, NOF1, L49mt
11	MRPL49	ENSG00000149792	ENST00000531705	protein_coding	PUTATIVE	None	1176	300	99	64889808	64894722	1	C11orf4	NOF, NOF1, L49mt
11	MRPL49	ENSG00000149792	ENST00000533943	protein_coding	NOVEL	None	1176	382	126	64889827	64893650	1	C11orf4	NOF, NOF1, L49mt
11	MRPL49	ENSG00000149792	ENST00000532671	retained_intron	KNOWN	None	1176	None	None	64892197	64894835	1	C11orf4	NOF, NOF1, L49mt
6	None	ENSG00000235972	ENST00000456346	lincRNA	KNOWN	None	None	None	None	150361683	150363169	-1	None	None
HSCHR6_MHC_COX	None	ENSG00000258022	ENST00000549276	pseudogene	NOVEL	None	None	None	None	30461557	30461678	-1	None	None
16	None	ENSG00000262983	ENST00000572747	antisense	KNOWN	None	None	None	None	21206168	21217298	1	None	None
7	MTRNR2L6	ENSG00000270672	ENST00000604952	protein_coding	KNOWN	None	37163	75	24	142374104	142375550	1	None	None
6	PHBP1	ENSG00000213091	ENST00000392260	processed_pseudogene	KNOWN	None	8913	None	None	150363682	150364489	1	None	None
16	MLST8	ENSG00000167965	ENST00000562043	processed_transcript	PUTATIVE	None	24825	None	None	2254249	2255383	1	None	Lst8, Pop3, GBL, GbetaL
16	MLST8	ENSG00000167965	ENST00000563179	protein_coding	KNOWN	None	24825	153	50	2254597	2256382	1	None	Lst8, Pop3, GBL, GbetaL
16	MLST8	ENSG00000167965	ENST00000565926	processed_transcript	PUTATIVE	None	24825	None	None	2254648	2255471	1	None	Lst8, Pop3, GBL, GbetaL
16	MLST8	ENSG00000167965	ENST00000569457	protein_coding	KNOWN	None	24825	608	201	2254648	2258245	1	None	Lst8, Pop3, GBL, GbetaL
16	MLST8	ENSG00000167965	ENST00000564088	protein_coding	KNOWN	CCDS10462	24825	981	326	2255178	2259397	1	None	Lst8, Pop3, GBL, GbetaL
16	MLST8	ENSG00000167965	ENST00000382450	protein_coding	NOVEL	CCDS58409	24825	978	325	2255205	2259397	1	None	Lst8, Pop3, GBL, GbetaL
16	MLST8	ENSG00000167965	ENST00000569417	protein_coding	KNOWN	CCDS10462	24825	981	326	2255215	2259413	1	None	Lst8, Pop3, GBL, GbetaL
16	MLST8	ENSG00000167965	ENST00000570224	nonsense_mediated_decay	KNOWN	None	24825	219	72	2255226	2258325	1	None	Lst8, Pop3, GBL, GbetaL
16	MLST8	ENSG00000167965	ENST00000568542	retained_intron	KNOWN	None	24825	None	None	2255258	2259394	1	None	Lst8, Pop3, GBL, GbetaL
16	MLST8	ENSG00000167965	ENST00000564294	retained_intron	KNOWN	None	24825	None	None	2255451	2256881	1	None	Lst8, Pop3, GBL, GbetaL
16	MLST8	ENSG00000167965	ENST00000562851	nonsense_mediated_decay	KNOWN	None	24825	219	72	2255455	2257251	1	None	Lst8, Pop3, GBL, GbetaL
16	MLST8	ENSG00000167965	ENST00000567623	nonsense_mediated_decay	KNOWN	None	24825	351	116	2255455	2257327	1	None	Lst8, Pop3, GBL, GbetaL
16	MLST8	ENSG00000167965	ENST00000562352	protein_coding	NOVEL	None	24825	825	274	2255455	2258559	1	None	Lst8, Pop3, GBL, GbetaL
16	MLST8	ENSG00000167965	ENST00000565330	retained_intron	KNOWN	None	24825	None	None	2255455	2259099	1	None	Lst8, Pop3, GBL, GbetaL
16	MLST8	ENSG00000167965	ENST00000567928	retained_intron	KNOWN	None	24825	None	None	2255457	2256779	1	None	Lst8, Pop3, GBL, GbetaL
16	MLST8	ENSG00000167965	ENST00000562479	protein_coding	NOVEL	None	24825	499	165	2255457	2257254	1	None	Lst8, Pop3, GBL, GbetaL
16	MLST8	ENSG00000167965	ENST00000562844	processed_transcript	KNOWN	None	24825	None	None	2255457	2257298	1	None	Lst8, Pop3, GBL, GbetaL
16	MLST8	ENSG00000167965	ENST00000565269	retained_intron	KNOWN	None	24825	None	None	2255458	2256724	1	None	Lst8, Pop3, GBL, GbetaL
16	MLST8	ENSG00000167965	ENST00000563107	nonsense_mediated_decay	KNOWN	None	24825	396	131	2255466	2258343	1	None	Lst8, Pop3, GBL, GbetaL
16	MLST8	ENSG00000167965	ENST00000568194	retained_intron	KNOWN	None	24825	None	None	2255472	2259398	1	None	Lst8, Pop3, GBL, GbetaL
16	MLST8	ENSG00000167965	ENST00000566653	retained_intron	KNOWN	None	24825	None	None	2255478	2256722	1	None	Lst8, Pop3, GBL, GbetaL
16	MLST8	ENSG00000167965	ENST00000561651	processed_transcript	KNOWN	None	24825	None	None	2255482	2258493	1	None	Lst8, Pop3, GBL, GbetaL
16	MLST8	ENSG00000167965	ENST00000565687	nonsense_mediated_decay	KNOWN	None	24825	351	116	2255482	2258613	1	None	Lst8, Pop3, GBL, GbetaL
16	MLST8	ENSG00000167965	ENST00000564679	retained_intron	KNOWN	None	24825	None	None	2255485	2256821	1	None	Lst8, Pop3, GBL, GbetaL
16	MLST8	ENSG00000167965	ENST00000567282	nonsense_mediated_decay	KNOWN	None	24825	216	71	2255488	2258400	1	None	Lst8, Pop3, GBL, GbetaL
16	MLST8	ENSG00000167965	ENST00000565717	nonsense_mediated_decay	KNOWN	None	24825	219	72	2255491	2258329	1	None	Lst8, Pop3, GBL, GbetaL
16	MLST8	ENSG00000167965	ENST00000301724	protein_coding	PUTATIVE	None	24825	984	327	2255495	2259413	1	None	Lst8, Pop3, GBL, GbetaL
16	MLST8	ENSG00000167965	ENST00000566835	nonsense_mediated_decay	KNOWN	None	24825	597	198	2255732	2259417	1	None	Lst8, Pop3, GBL, GbetaL
16	MLST8	ENSG00000167965	ENST00000397124	protein_coding	KNOWN	CCDS10462	24825	981	326	2255742	2259398	1	None	Lst8, Pop3, GBL, GbetaL
16	MLST8	ENSG00000167965	ENST00000565250	protein_coding	KNOWN	CCDS10462	24825	981	326	2255770	2259353	1	None	Lst8, Pop3, GBL, GbetaL
16	MLST8	ENSG00000167965	ENST00000563067	retained_intron	KNOWN	None	24825	None	None	2256030	2259371	1	None	Lst8, Pop3, GBL, GbetaL
16	MLST8	ENSG00000167965	ENST00000564319	processed_transcript	KNOWN	None	24825	None	None	2256366	2257977	1	None	Lst8, Pop3, GBL, GbetaL
16	MLST8	ENSG00000167965	ENST00000569848	retained_intron	KNOWN	None	24825	None	None	2256519	2257548	1	None	Lst8, Pop3, GBL, GbetaL
16	MLST8	ENSG00000167965	ENST00000562392	retained_intron	KNOWN	None	24825	None	None	2257587	2259393	1	None	Lst8, Pop3, GBL, GbetaL
16	MLST8	ENSG00000167965	ENST00000562239	retained_intron	KNOWN	None	24825	None	None	2257828	2258539	1	None	Lst8, Pop3, GBL, GbetaL
16	MLST8	ENSG00000167965	ENST00000301725	protein_coding	KNOWN	None	24825	654	217	2255845	2259397	1	None	Lst8, Pop3, GBL, GbetaL
3	XIRP1	ENSG00000168334	ENST00000396251	protein_coding	KNOWN	CCDS56245	14301	3366	1121	39224701	39234087	-1	CMYA1	DKFZp451D042, Xin
3	XIRP1	ENSG00000168334	ENST00000340369	protein_coding	KNOWN	CCDS2683	14301	5532	1843	39224706	39234085	-1	CMYA1	DKFZp451D042, Xin
3	XIRP1	ENSG00000168334	ENST00000421646	protein_coding	KNOWN	None	14301	1581	526	39224707	39234086	-1	CMYA1	DKFZp451D042, Xin
1	TNFRSF25	ENSG00000215788	ENST00000473343	retained_intron	KNOWN	None	11910	None	None	6521211	6523682	-1	TNFRSF12	DR3, TRAMP, WSL-1, LARD, WSL-LR, DDR3, TR3, APO-3
1	TNFRSF25	ENSG00000215788	ENST00000513135	retained_intron	KNOWN	None	11910	None	None	6521211	6526159	-1	TNFRSF12	DR3, TRAMP, WSL-1, LARD, WSL-LR, DDR3, TR3, APO-3
1	TNFRSF25	ENSG00000215788	ENST00000485036	nonsense_mediated_decay	KNOWN	None	11910	834	277	6521211	6526235	-1	TNFRSF12	DR3, TRAMP, WSL-1, LARD, WSL-LR, DDR3, TR3, APO-3
1	TNFRSF25	ENSG00000215788	ENST00000480393	nonsense_mediated_decay	KNOWN	None	11910	762	253	6521211	6526235	-1	TNFRSF12	DR3, TRAMP, WSL-1, LARD, WSL-LR, DDR3, TR3, APO-3
1	TNFRSF25	ENSG00000215788	ENST00000377782	protein_coding	KNOWN	CCDS72	11910	1281	426	6521211	6526235	-1	TNFRSF12	DR3, TRAMP, WSL-1, LARD, WSL-LR, DDR3, TR3, APO-3
1	TNFRSF25	ENSG00000215788	ENST00000356876	protein_coding	KNOWN	CCDS71	11910	1254	417	6521211	6526255	-1	TNFRSF12	DR3, TRAMP, WSL-1, LARD, WSL-LR, DDR3, TR3, APO-3
1	TNFRSF25	ENSG00000215788	ENST00000351959	protein_coding	KNOWN	CCDS73	11910	1143	380	6521264	6526235	-1	TNFRSF12	DR3, TRAMP, WSL-1, LARD, WSL-LR, DDR3, TR3, APO-3
1	TNFRSF25	ENSG00000215788	ENST00000414040	nonsense_mediated_decay	KNOWN	None	11910	657	218	6521494	6526167	-1	TNFRSF12	DR3, TRAMP, WSL-1, LARD, WSL-LR, DDR3, TR3, APO-3
1	TNFRSF25	ENSG00000215788	ENST00000351748	protein_coding	KNOWN	CCDS75	11910	705	234	6521494	6526167	-1	TNFRSF12	DR3, TRAMP, WSL-1, LARD, WSL-LR, DDR3, TR3, APO-3
1	TNFRSF25	ENSG00000215788	ENST00000348333	protein_coding	KNOWN	CCDS74	11910	1119	372	6521494	6526167	-1	TNFRSF12	DR3, TRAMP, WSL-1, LARD, WSL-LR, DDR3, TR3, APO-3
1	TNFRSF25	ENSG00000215788	ENST00000502588	nonsense_mediated_decay	KNOWN	None	11910	411	136	6521494	6526167	-1	TNFRSF12	DR3, TRAMP, WSL-1, LARD, WSL-LR, DDR3, TR3, APO-3
1	TNFRSF25	ENSG00000215788	ENST00000502730	nonsense_mediated_decay	KNOWN	None	11910	381	126	6521494	6526167	-1	TNFRSF12	DR3, TRAMP, WSL-1, LARD, WSL-LR, DDR3, TR3, APO-3
1	TNFRSF25	ENSG00000215788	ENST00000510563	nonsense_mediated_decay	KNOWN	None	11910	546	181	6521494	6526167	-1	TNFRSF12	DR3, TRAMP, WSL-1, LARD, WSL-LR, DDR3, TR3, APO-3
1	TNFRSF25	ENSG00000215788	ENST00000453260	retained_intron	KNOWN	None	11910	None	None	6521540	6523407	-1	TNFRSF12	DR3, TRAMP, WSL-1, LARD, WSL-LR, DDR3, TR3, APO-3
1	TNFRSF25	ENSG00000215788	ENST00000475730	processed_transcript	KNOWN	None	11910	None	None	6521816	6522667	-1	TNFRSF12	DR3, TRAMP, WSL-1, LARD, WSL-LR, DDR3, TR3, APO-3
1	TNFRSF25	ENSG00000215788	ENST00000469691	retained_intron	KNOWN	None	11910	None	None	6522054	6525332	-1	TNFRSF12	DR3, TRAMP, WSL-1, LARD, WSL-LR, DDR3, TR3, APO-3
1	TNFRSF25	ENSG00000215788	ENST00000481401	protein_coding	PUTATIVE	None	11910	136	44	6522697	6525690	-1	TNFRSF12	DR3, TRAMP, WSL-1, LARD, WSL-LR, DDR3, TR3, APO-3
1	TNFRSF25	ENSG00000215788	ENST00000461703	processed_transcript	KNOWN	None	11910	None	None	6523596	6526167	-1	TNFRSF12	DR3, TRAMP, WSL-1, LARD, WSL-LR, DDR3, TR3, APO-3
1	TNFRSF25	ENSG00000215788	ENST00000453341	retained_intron	KNOWN	None	11910	None	None	6524171	6526159	-1	TNFRSF12	DR3, TRAMP, WSL-1, LARD, WSL-LR, DDR3, TR3, APO-3
1	TNFRSF25	ENSG00000215788	ENST00000515145	retained_intron	KNOWN	None	11910	None	None	6524627	6525918	-1	TNFRSF12	DR3, TRAMP, WSL-1, LARD, WSL-LR, DDR3, TR3, APO-3
20	RNU6-115P	ENSG00000201180	ENST00000364310	snRNA	KNOWN	None	47078	None	None	15003498	15003604	1	None	None
7	TRBV25-1	ENSG00000211751	ENST00000390398	TR_V_gene	KNOWN	None	12205	344	113	142378572	142379076	1	None	TRBV251, TCRBV11S1A1T, TCRBV25S1
16	CRYM-AS1	ENSG00000189149	ENST00000338573	lincRNA	KNOWN	None	34405	None	None	21312170	21329269	1	NCRNA00169	FLJ41766
16	CRYM-AS1	ENSG00000189149	ENST00000561968	lincRNA	KNOWN	None	34405	None	None	21312202	21328207	1	NCRNA00169	FLJ41766
16	CRYM-AS1	ENSG00000189149	ENST00000444326	lincRNA	KNOWN	None	34405	None	None	21314568	21329912	1	NCRNA00169	FLJ41766
6	None	ENSG00000238594	ENST00000459301	snoRNA	NOVEL	None	None	None	None	150485720	150485822	1	None	None
1	None	ENSG00000233268	ENST00000426570	processed_pseudogene	KNOWN	None	None	None	None	9720886	9722684	-1	None	None
6	TTBK1	ENSG00000146216	ENST00000259750	protein_coding	KNOWN	CCDS34455	19140	3966	1321	43211418	43255997	1	None	KIAA1855
6	TTBK1	ENSG00000146216	ENST00000304139	protein_coding	PUTATIVE	None	19140	2006	667	43215727	43237834	1	None	KIAA1855
6	RNU4-7P	ENSG00000201628	ENST00000364758	snRNA	KNOWN	None	10194	None	None	150647759	150647899	-1	RNU4P1	U4, U4/7
6	SSR1P1	ENSG00000220598	ENST00000407630	processed_pseudogene	KNOWN	None	39273	None	None	150705443	150706256	-1	None	None
7	TRBV27	ENSG00000211752	ENST00000390399	TR_V_gene	KNOWN	None	12208	344	113	142423173	142423688	1	None	TCRBV14S1, TCRBV27S1
8	None	ENSG00000253429	ENST00000522972	processed_pseudogene	KNOWN	None	None	None	None	95721180	95721472	-1	None	None
20	RNA5SP475	ENSG00000222500	ENST00000410568	rRNA	KNOWN	None	43375	None	None	15261410	15261519	-1	RN5S475	None
15	RN7SL319P	ENSG00000241807	ENST00000480656	misc_RNA	KNOWN	None	46335	None	None	76077453	76077726	1	None	None
3	CCDC50	ENSG00000152492	ENST00000392455	protein_coding	KNOWN	CCDS33913	18111	921	306	191046866	191116459	1	C3orf6, DFNA44	Ymer
3	CCDC50	ENSG00000152492	ENST00000392456	protein_coding	KNOWN	CCDS33912	18111	1449	482	191046874	191109964	1	C3orf6, DFNA44	Ymer
3	CCDC50	ENSG00000152492	ENST00000460064	retained_intron	KNOWN	None	18111	None	None	191078892	191088070	1	C3orf6, DFNA44	Ymer
1	LRRC8B	ENSG00000197147	ENST00000449440	protein_coding	KNOWN	None	30692	311	102	89990395	90048520	1	None	TA-LRRP, KIAA0231
1	LRRC8B	ENSG00000197147	ENST00000330947	protein_coding	KNOWN	CCDS724	30692	2412	803	89990462	90063423	1	None	TA-LRRP, KIAA0231
1	LRRC8B	ENSG00000197147	ENST00000358200	protein_coding	KNOWN	CCDS724	30692	2412	803	89990462	90058936	1	None	TA-LRRP, KIAA0231
1	LRRC8B	ENSG00000197147	ENST00000439853	protein_coding	KNOWN	CCDS724	30692	2412	803	90033800	90063418	1	None	TA-LRRP, KIAA0231
7	TRBV28	ENSG00000211753	ENST00000390400	TR_V_gene	KNOWN	None	12209	344	113	142428484	142428984	1	None	TCRBV28S1, TCRBV3S1
3	P2RY13	ENSG00000181631	ENST00000325602	protein_coding	KNOWN	CCDS3158	4537	1065	354	151044100	151047336	-1	GPR94, GPR86	FKSG77, P2Y13
8	None	ENSG00000199701	ENST00000362831	misc_RNA	NOVEL	None	None	None	None	95725943	95726040	-1	None	None
2	IMMT	ENSG00000132305	ENST00000254636	protein_coding	PUTATIVE	None	6047	1980	659	86371055	86422125	-1	None	P87, P89, HMP, MINOS2
2	IMMT	ENSG00000132305	ENST00000449247	protein_coding	KNOWN	CCDS46357	6047	2244	747	86371055	86422595	-1	None	P87, P89, HMP, MINOS2
2	IMMT	ENSG00000132305	ENST00000410111	protein_coding	KNOWN	CCDS46355	6047	2277	758	86371055	86422893	-1	None	P87, P89, HMP, MINOS2
2	IMMT	ENSG00000132305	ENST00000419070	protein_coding	NOVEL	None	6047	1840	612	86371059	86400885	-1	None	P87, P89, HMP, MINOS2
2	IMMT	ENSG00000132305	ENST00000442664	protein_coding	KNOWN	CCDS46356	6047	2274	757	86371059	86422526	-1	None	P87, P89, HMP, MINOS2
2	IMMT	ENSG00000132305	ENST00000409051	protein_coding	NOVEL	None	6047	2136	711	86371063	86422556	-1	None	P87, P89, HMP, MINOS2
2	IMMT	ENSG00000132305	ENST00000474969	retained_intron	KNOWN	None	6047	None	None	86385499	86422558	-1	None	P87, P89, HMP, MINOS2
2	IMMT	ENSG00000132305	ENST00000490238	processed_transcript	KNOWN	None	6047	None	None	86385600	86397924	-1	None	P87, P89, HMP, MINOS2
2	IMMT	ENSG00000132305	ENST00000409258	nonsense_mediated_decay	KNOWN	None	6047	444	147	86386370	86422556	-1	None	P87, P89, HMP, MINOS2
2	IMMT	ENSG00000132305	ENST00000460081	retained_intron	KNOWN	None	6047	None	None	86397914	86398700	-1	None	P87, P89, HMP, MINOS2
2	IMMT	ENSG00000132305	ENST00000486633	retained_intron	KNOWN	None	6047	None	None	86400631	86422573	-1	None	P87, P89, HMP, MINOS2
15	DNM1P49	ENSG00000261820	ENST00000564895	unprocessed_pseudogene	KNOWN	None	47040	None	None	76083811	76085024	-1	None	DNM1DN8@
7	DYNC1I1	ENSG00000158560	ENST00000447467	protein_coding	KNOWN	CCDS47645	2963	1887	628	95401866	95727736	1	DNCI1	DNCIC1
7	DYNC1I1	ENSG00000158560	ENST00000524053	protein_coding	KNOWN	None	2963	256	84	95401891	95442591	1	DNCI1	DNCIC1
7	DYNC1I1	ENSG00000158560	ENST00000324972	protein_coding	KNOWN	CCDS5644	2963	1938	645	95401902	95727724	1	DNCI1	DNCIC1
7	DYNC1I1	ENSG00000158560	ENST00000437599	protein_coding	NOVEL	None	2963	1878	625	95401909	95727736	1	DNCI1	DNCIC1
7	DYNC1I1	ENSG00000158560	ENST00000359388	protein_coding	KNOWN	CCDS47646	2963	1827	608	95401910	95727736	1	DNCI1	DNCIC1
7	DYNC1I1	ENSG00000158560	ENST00000413338	protein_coding	PUTATIVE	None	2963	351	116	95401916	95448275	1	DNCI1	DNCIC1
7	DYNC1I1	ENSG00000158560	ENST00000518089	protein_coding	KNOWN	None	2963	386	127	95433530	95457440	1	DNCI1	DNCIC1
7	DYNC1I1	ENSG00000158560	ENST00000457059	protein_coding	KNOWN	CCDS47645	2963	1887	628	95433596	95727311	1	DNCI1	DNCIC1
7	DYNC1I1	ENSG00000158560	ENST00000519371	processed_transcript	KNOWN	None	2963	None	None	95466930	95657633	1	DNCI1	DNCIC1
7	DYNC1I1	ENSG00000158560	ENST00000497626	processed_transcript	KNOWN	None	2963	None	None	95661979	95685476	1	DNCI1	DNCIC1
7	DYNC1I1	ENSG00000158560	ENST00000537881	protein_coding	KNOWN	None	2963	1809	602	95401906	95739634	1	DNCI1	DNCIC1
7	TRBV29-1	ENSG00000232869	ENST00000422143	TR_V_gene	KNOWN	None	12210	335	110	142448053	142448741	1	None	TRBV291, TCRBV29S1, TCRBV4S1A1T
15	FAN1	ENSG00000198690	ENST00000561594	protein_coding	KNOWN	CCDS58344	29170	1602	533	31196055	31203991	1	KIAA1018, MTMR15	None
15	FAN1	ENSG00000198690	ENST00000362065	protein_coding	KNOWN	CCDS32186	29170	3054	1017	31196076	31235311	1	KIAA1018, MTMR15	None
15	FAN1	ENSG00000198690	ENST00000561607	protein_coding	KNOWN	CCDS58344	29170	1602	533	31196095	31203846	1	KIAA1018, MTMR15	None
15	FAN1	ENSG00000198690	ENST00000565466	protein_coding	KNOWN	CCDS58344	29170	1602	533	31196096	31203474	1	KIAA1018, MTMR15	None
15	FAN1	ENSG00000198690	ENST00000565280	nonsense_mediated_decay	KNOWN	None	29170	1293	430	31196115	31235311	1	KIAA1018, MTMR15	None
15	FAN1	ENSG00000198690	ENST00000562892	protein_coding	PUTATIVE	None	29170	315	104	31196713	31202938	1	KIAA1018, MTMR15	None
15	FAN1	ENSG00000198690	ENST00000568145	processed_transcript	PUTATIVE	None	29170	None	None	31214465	31222857	1	KIAA1018, MTMR15	None
15	FAN1	ENSG00000198690	ENST00000562881	retained_intron	KNOWN	None	29170	None	None	31220627	31222842	1	KIAA1018, MTMR15	None
5	None	ENSG00000252831	ENST00000517022	miRNA	NOVEL	None	None	None	None	141913820	141913910	-1	None	None
8	None	ENSG00000254307	ENST00000521706	antisense	KNOWN	None	None	None	None	95803871	95805191	-1	None	None
8	None	ENSG00000254307	ENST00000510185	antisense	KNOWN	None	None	None	None	95804460	95805334	-1	None	None
12	CLEC4A	ENSG00000111729	ENST00000229332	protein_coding	KNOWN	CCDS8590	13257	714	237	8276228	8291203	1	CLECSF6	DCIR, DDB27
12	CLEC4A	ENSG00000111729	ENST00000345999	protein_coding	KNOWN	CCDS8591	13257	498	165	8276449	8291200	1	CLECSF6	DCIR, DDB27
12	CLEC4A	ENSG00000111729	ENST00000352620	protein_coding	KNOWN	CCDS8592	13257	615	204	8276475	8290883	1	CLECSF6	DCIR, DDB27
12	CLEC4A	ENSG00000111729	ENST00000360500	protein_coding	KNOWN	CCDS41745	13257	597	198	8276475	8290883	1	CLECSF6	DCIR, DDB27
12	CLEC4A	ENSG00000111729	ENST00000546339	protein_coding	PUTATIVE	None	13257	255	84	8276508	8290802	1	CLECSF6	DCIR, DDB27
5	None	ENSG00000225147	ENST00000427031	processed_pseudogene	KNOWN	None	None	None	None	141946265	141946641	1	None	None
19	VN1R90P	ENSG00000268794	ENST00000595717	unprocessed_pseudogene	KNOWN	None	37410	None	None	23471422	23472147	1	None	None
1	ATF6	ENSG00000118217	ENST00000367942	protein_coding	KNOWN	CCDS1235	791	2013	670	161736084	161933860	1	None	ATF6A
1	ATF6	ENSG00000118217	ENST00000476437	processed_transcript	KNOWN	None	791	None	None	161809865	161830034	1	None	ATF6A
15	None	ENSG00000252372	ENST00000516563	snoRNA	NOVEL	None	None	None	None	76109433	76109504	-1	None	None
20	None	ENSG00000225181	ENST00000453972	antisense	KNOWN	None	None	None	None	15532802	15533530	-1	None	None
15	RN7SL510P	ENSG00000266308	ENST00000581311	misc_RNA	KNOWN	None	46526	None	None	76187381	76187639	1	None	None
20	CDK5RAP1	ENSG00000101391	ENST00000427097	protein_coding	PUTATIVE	None	15880	770	255	31946645	31975339	-1	C20orf34	CGI-05, HSPC167, C42
20	CDK5RAP1	ENSG00000101391	ENST00000481964	processed_transcript	KNOWN	None	15880	None	None	31946645	31989285	-1	C20orf34	CGI-05, HSPC167, C42
20	CDK5RAP1	ENSG00000101391	ENST00000482967	processed_transcript	KNOWN	None	15880	None	None	31946645	31989310	-1	C20orf34	CGI-05, HSPC167, C42
20	CDK5RAP1	ENSG00000101391	ENST00000473997	processed_transcript	KNOWN	None	15880	None	None	31946645	31989323	-1	C20orf34	CGI-05, HSPC167, C42
20	CDK5RAP1	ENSG00000101391	ENST00000346416	protein_coding	KNOWN	CCDS13219	15880	1764	587	31946645	31989367	-1	C20orf34	CGI-05, HSPC167, C42
20	CDK5RAP1	ENSG00000101391	ENST00000357886	protein_coding	KNOWN	None	15880	1806	601	31946645	31989367	-1	C20orf34	CGI-05, HSPC167, C42
20	CDK5RAP1	ENSG00000101391	ENST00000339269	protein_coding	KNOWN	None	15880	1533	510	31946645	31989367	-1	C20orf34	CGI-05, HSPC167, C42
20	CDK5RAP1	ENSG00000101391	ENST00000461710	retained_intron	KNOWN	None	15880	None	None	31946647	31961165	-1	C20orf34	CGI-05, HSPC167, C42
20	CDK5RAP1	ENSG00000101391	ENST00000498525	processed_transcript	PUTATIVE	None	15880	None	None	31946651	31975310	-1	C20orf34	CGI-05, HSPC167, C42
20	CDK5RAP1	ENSG00000101391	ENST00000496381	processed_transcript	KNOWN	None	15880	None	None	31948157	31989284	-1	C20orf34	CGI-05, HSPC167, C42
20	CDK5RAP1	ENSG00000101391	ENST00000460043	processed_transcript	KNOWN	None	15880	None	None	31954714	31989314	-1	C20orf34	CGI-05, HSPC167, C42
20	CDK5RAP1	ENSG00000101391	ENST00000471264	processed_transcript	KNOWN	None	15880	None	None	31958305	31989258	-1	C20orf34	CGI-05, HSPC167, C42
20	CDK5RAP1	ENSG00000101391	ENST00000473791	retained_intron	KNOWN	None	15880	None	None	31961407	31967394	-1	C20orf34	CGI-05, HSPC167, C42
20	CDK5RAP1	ENSG00000101391	ENST00000477105	processed_transcript	KNOWN	None	15880	None	None	31961921	31989311	-1	C20orf34	CGI-05, HSPC167, C42
20	CDK5RAP1	ENSG00000101391	ENST00000461356	processed_transcript	KNOWN	None	15880	None	None	31967267	31989292	-1	C20orf34	CGI-05, HSPC167, C42
20	CDK5RAP1	ENSG00000101391	ENST00000488723	processed_transcript	KNOWN	None	15880	None	None	31967319	31989329	-1	C20orf34	CGI-05, HSPC167, C42
20	CDK5RAP1	ENSG00000101391	ENST00000452723	protein_coding	KNOWN	CCDS46589	15880	1494	497	31946645	31989337	-1	C20orf34	CGI-05, HSPC167, C42
20	CDK5RAP1	ENSG00000101391	ENST00000544843	protein_coding	KNOWN	None	15880	1281	426	31948030	31989325	-1	C20orf34	CGI-05, HSPC167, C42
19	TULP2	ENSG00000104804	ENST00000221399	protein_coding	KNOWN	CCDS12739	12424	1563	520	49384222	49401990	-1	None	TUBL2, CT65
19	TULP2	ENSG00000104804	ENST00000522341	protein_coding	PUTATIVE	None	12424	243	80	49384228	49385382	-1	None	TUBL2, CT65
19	TULP2	ENSG00000104804	ENST00000518572	protein_coding	PUTATIVE	None	12424	692	229	49391325	49401890	-1	None	TUBL2, CT65
19	TULP2	ENSG00000104804	ENST00000522945	protein_coding	PUTATIVE	None	12424	631	209	49391515	49401639	-1	None	TUBL2, CT65
19	TULP2	ENSG00000104804	ENST00000520977	protein_coding	PUTATIVE	None	12424	561	186	49392785	49400716	-1	None	TUBL2, CT65
19	TULP2	ENSG00000104804	ENST00000522229	retained_intron	KNOWN	None	12424	None	None	49398632	49399996	-1	None	TUBL2, CT65
8	None	ENSG00000272509	ENST00000605911	antisense	KNOWN	None	None	None	None	95896837	95897298	1	None	None
HSCHR21_4_CTG1_1	None	ENSG00000263314	ENST00000572040	antisense	KNOWN	None	None	None	None	34864363	34866122	-1	None	None
3	GOLGA4	ENSG00000144674	ENST00000361924	protein_coding	KNOWN	CCDS2666	4427	6693	2230	37284668	37408242	1	None	GOLG, GCP2, p230, golgin-240
3	GOLGA4	ENSG00000144674	ENST00000435830	processed_transcript	KNOWN	None	4427	None	None	37284682	37361873	1	None	GOLG, GCP2, p230, golgin-240
3	GOLGA4	ENSG00000144674	ENST00000444882	protein_coding	PUTATIVE	None	4427	501	166	37284738	37408240	1	None	GOLG, GCP2, p230, golgin-240
3	GOLGA4	ENSG00000144674	ENST00000356847	protein_coding	NOVEL	CCDS54564	4427	6732	2243	37284743	37408236	1	None	GOLG, GCP2, p230, golgin-240
3	GOLGA4	ENSG00000144674	ENST00000450863	protein_coding	NOVEL	None	4427	1336	444	37284761	37356997	1	None	GOLG, GCP2, p230, golgin-240
3	GOLGA4	ENSG00000144674	ENST00000429018	protein_coding	NOVEL	None	4427	1756	584	37284762	37366450	1	None	GOLG, GCP2, p230, golgin-240
3	GOLGA4	ENSG00000144674	ENST00000431105	protein_coding	PUTATIVE	None	4427	355	117	37284829	37323476	1	None	GOLG, GCP2, p230, golgin-240
3	GOLGA4	ENSG00000144674	ENST00000419177	processed_transcript	KNOWN	None	4427	None	None	37284915	37336568	1	None	GOLG, GCP2, p230, golgin-240
3	GOLGA4	ENSG00000144674	ENST00000437131	protein_coding	NOVEL	None	4427	6300	2099	37323674	37408241	1	None	GOLG, GCP2, p230, golgin-240
3	GOLGA4	ENSG00000144674	ENST00000497537	retained_intron	KNOWN	None	4427	None	None	37363080	37365112	1	None	GOLG, GCP2, p230, golgin-240
3	GOLGA4	ENSG00000144674	ENST00000498250	retained_intron	KNOWN	None	4427	None	None	37369256	37370830	1	None	GOLG, GCP2, p230, golgin-240
6	None	ENSG00000219622	ENST00000407887	processed_pseudogene	KNOWN	None	None	None	None	150825947	150831436	-1	None	None
15	None	ENSG00000260685	ENST00000563702	processed_pseudogene	KNOWN	None	None	None	None	76242805	76243485	-1	None	None
9	None	ENSG00000228376	ENST00000442849	processed_transcript	KNOWN	None	None	None	None	99837953	99844227	-1	None	None
9	None	ENSG00000228376	ENST00000436355	transcribed_processed_pseudogene	KNOWN	None	None	None	None	99838528	99839883	-1	None	None
6	None	ENSG00000232891	ENST00000430770	sense_intronic	KNOWN	None	None	None	None	150921970	150926986	1	None	None
10	FAM107B	ENSG00000065809	ENST00000378470	protein_coding	KNOWN	None	23726	396	131	14560556	14590669	-1	C10orf45	FLJ45505, MGC11034
10	FAM107B	ENSG00000065809	ENST00000181796	protein_coding	KNOWN	CCDS7102	23726	921	306	14560559	14816896	-1	C10orf45	FLJ45505, MGC11034
10	FAM107B	ENSG00000065809	ENST00000468747	protein_coding	KNOWN	None	23726	396	131	14561158	14646388	-1	C10orf45	FLJ45505, MGC11034
10	FAM107B	ENSG00000065809	ENST00000378467	protein_coding	KNOWN	None	23726	396	131	14561512	14646417	-1	C10orf45	FLJ45505, MGC11034
10	FAM107B	ENSG00000065809	ENST00000487335	nonsense_mediated_decay	KNOWN	None	23726	483	160	14561901	14816704	-1	C10orf45	FLJ45505, MGC11034
10	FAM107B	ENSG00000065809	ENST00000378465	protein_coding	KNOWN	None	23726	396	131	14562794	14614127	-1	C10orf45	FLJ45505, MGC11034
10	FAM107B	ENSG00000065809	ENST00000378458	protein_coding	KNOWN	None	23726	396	131	14562850	14614188	-1	C10orf45	FLJ45505, MGC11034
10	FAM107B	ENSG00000065809	ENST00000478076	protein_coding	KNOWN	None	23726	396	131	14563016	14598179	-1	C10orf45	FLJ45505, MGC11034
10	FAM107B	ENSG00000065809	ENST00000378462	protein_coding	KNOWN	None	23726	396	131	14563072	14614112	-1	C10orf45	FLJ45505, MGC11034
10	FAM107B	ENSG00000065809	ENST00000481209	nonsense_mediated_decay	KNOWN	None	23726	156	51	14563088	14590639	-1	C10orf45	FLJ45505, MGC11034
10	FAM107B	ENSG00000065809	ENST00000475858	retained_intron	KNOWN	None	23726	None	None	14563095	14564224	-1	C10orf45	FLJ45505, MGC11034
10	FAM107B	ENSG00000065809	ENST00000496330	protein_coding	KNOWN	None	23726	396	131	14563136	14596228	-1	C10orf45	FLJ45505, MGC11034
10	FAM107B	ENSG00000065809	ENST00000492700	retained_intron	KNOWN	None	23726	None	None	14563136	14598413	-1	C10orf45	FLJ45505, MGC11034
10	FAM107B	ENSG00000065809	ENST00000479731	protein_coding	KNOWN	None	23726	396	131	14563157	14614313	-1	C10orf45	FLJ45505, MGC11034
10	FAM107B	ENSG00000065809	ENST00000468492	protein_coding	KNOWN	None	23726	392	129	14563193	14614338	-1	C10orf45	FLJ45505, MGC11034
10	FAM107B	ENSG00000065809	ENST00000452706	protein_coding	KNOWN	None	23726	385	127	14563200	14614154	-1	C10orf45	FLJ45505, MGC11034
10	FAM107B	ENSG00000065809	ENST00000489100	protein_coding	KNOWN	None	23726	379	125	14563206	14574709	-1	C10orf45	FLJ45505, MGC11034
10	FAM107B	ENSG00000065809	ENST00000494865	protein_coding	KNOWN	None	23726	374	123	14563211	14597884	-1	C10orf45	FLJ45505, MGC11034
10	FAM107B	ENSG00000065809	ENST00000475786	protein_coding	KNOWN	None	23726	305	100	14563280	14598170	-1	C10orf45	FLJ45505, MGC11034
10	FAM107B	ENSG00000065809	ENST00000488576	protein_coding	KNOWN	None	23726	279	92	14563868	14614029	-1	C10orf45	FLJ45505, MGC11034
10	FAM107B	ENSG00000065809	ENST00000474143	retained_intron	KNOWN	None	23726	None	None	14563869	14595453	-1	C10orf45	FLJ45505, MGC11034
10	FAM107B	ENSG00000065809	ENST00000442012	protein_coding	KNOWN	None	23726	272	89	14563875	14654551	-1	C10orf45	FLJ45505, MGC11034
10	FAM107B	ENSG00000065809	ENST00000482277	protein_coding	KNOWN	None	23726	254	83	14563893	14614095	-1	C10orf45	FLJ45505, MGC11034
10	FAM107B	ENSG00000065809	ENST00000472095	protein_coding	KNOWN	None	23726	203	66	14563944	14614031	-1	C10orf45	FLJ45505, MGC11034
10	FAM107B	ENSG00000065809	ENST00000471815	processed_transcript	KNOWN	None	23726	None	None	14571527	14646294	-1	C10orf45	FLJ45505, MGC11034
10	FAM107B	ENSG00000065809	ENST00000464952	processed_transcript	KNOWN	None	23726	None	None	14571954	14613998	-1	C10orf45	FLJ45505, MGC11034
10	FAM107B	ENSG00000065809	ENST00000495292	processed_transcript	KNOWN	None	23726	None	None	14576785	14614154	-1	C10orf45	FLJ45505, MGC11034
10	FAM107B	ENSG00000065809	ENST00000491458	processed_transcript	KNOWN	None	23726	None	None	14644456	14646269	-1	C10orf45	FLJ45505, MGC11034
7	PRSS1	ENSG00000204983	ENST00000486171	protein_coding	NOVEL	None	9475	786	261	142457319	142460871	1	TRY1	None
7	PRSS1	ENSG00000204983	ENST00000485223	retained_intron	KNOWN	None	9475	None	None	142457323	142459859	1	TRY1	None
7	PRSS1	ENSG00000204983	ENST00000311737	protein_coding	KNOWN	CCDS5872	9475	744	247	142457330	142460921	1	TRY1	None
7	PRSS1	ENSG00000204983	ENST00000497041	retained_intron	KNOWN	None	9475	None	None	142457332	142458942	1	TRY1	None
7	PRSS1	ENSG00000204983	ENST00000492062	protein_coding	PUTATIVE	None	9475	429	142	142458516	142460920	1	TRY1	None
7	PRSS1	ENSG00000204983	ENST00000463701	retained_intron	KNOWN	None	9475	None	None	142458961	142460923	1	TRY1	None
3	AGTR1	ENSG00000144891	ENST00000497524	protein_coding	KNOWN	CCDS3137	336	1080	359	148415571	148460790	1	AGTR1B	AT1, AT2R1, AGTR1A, AT2R1A, HAT1R, AG2S, AT2R1B, AT1B
3	AGTR1	ENSG00000144891	ENST00000349243	protein_coding	KNOWN	CCDS3137	336	1080	359	148415658	148460790	1	AGTR1B	AT1, AT2R1, AGTR1A, AT2R1A, HAT1R, AG2S, AT2R1B, AT1B
3	AGTR1	ENSG00000144891	ENST00000404754	protein_coding	KNOWN	CCDS3137	336	1080	359	148415705	148460795	1	AGTR1B	AT1, AT2R1, AGTR1A, AT2R1A, HAT1R, AG2S, AT2R1B, AT1B
3	AGTR1	ENSG00000144891	ENST00000475166	processed_transcript	KNOWN	None	336	None	None	148415962	148449284	1	AGTR1B	AT1, AT2R1, AGTR1A, AT2R1A, HAT1R, AG2S, AT2R1B, AT1B
3	AGTR1	ENSG00000144891	ENST00000475347	protein_coding	KNOWN	CCDS3137	336	1080	359	148447887	148460034	1	AGTR1B	AT1, AT2R1, AGTR1A, AT2R1A, HAT1R, AG2S, AT2R1B, AT1B
3	AGTR1	ENSG00000144891	ENST00000474935	protein_coding	KNOWN	CCDS3137	336	1080	359	148447887	148460034	1	AGTR1B	AT1, AT2R1, AGTR1A, AT2R1A, HAT1R, AG2S, AT2R1B, AT1B
3	AGTR1	ENSG00000144891	ENST00000461609	protein_coding	KNOWN	CCDS3137	336	1080	359	148447911	148460034	1	AGTR1B	AT1, AT2R1, AGTR1A, AT2R1A, HAT1R, AG2S, AT2R1B, AT1B
3	AGTR1	ENSG00000144891	ENST00000542281	protein_coding	KNOWN	CCDS3137	336	1080	359	148415658	148460788	1	AGTR1B	AT1, AT2R1, AGTR1A, AT2R1A, HAT1R, AG2S, AT2R1B, AT1B
3	AGTR1	ENSG00000144891	ENST00000418473	protein_coding	KNOWN	CCDS3137	336	1080	359	148415658	148460788	1	AGTR1B	AT1, AT2R1, AGTR1A, AT2R1A, HAT1R, AG2S, AT2R1B, AT1B
3	AGTR1	ENSG00000144891	ENST00000402260	protein_coding	KNOWN	CCDS3137	336	1080	359	148457585	148460788	1	AGTR1B	AT1, AT2R1, AGTR1A, AT2R1A, HAT1R, AG2S, AT2R1B, AT1B
HG883_PATCH	None	ENSG00000263225	ENST00000572444	protein_coding	KNOWN	None	None	651	216	26691290	26692265	-1	None	None
Y	None	ENSG00000252038	ENST00000516229	miRNA	NOVEL	None	None	None	None	19734941	19735035	-1	None	None
9	None	ENSG00000266060	ENST00000583817	miRNA	NOVEL	None	None	None	None	137741659	137741806	-1	None	None
Y	TAF9P1	ENSG00000226353	ENST00000445421	processed_pseudogene	KNOWN	None	31743	None	None	19740393	19741282	1	None	None
5	RNU7-196P	ENSG00000238913	ENST00000459020	snRNA	KNOWN	None	45730	None	None	73123837	73123898	-1	None	None
9	None	ENSG00000263507	ENST00000583957	miRNA	NOVEL	None	None	None	None	137741837	137741914	-1	None	None
6	STX7	ENSG00000079950	ENST00000367941	protein_coding	KNOWN	CCDS5153	11442	786	261	132767006	132834201	-1	None	None
6	STX7	ENSG00000079950	ENST00000367937	protein_coding	KNOWN	None	11442	720	239	132782853	132834337	-1	None	None
6	STX7	ENSG00000079950	ENST00000448348	processed_transcript	KNOWN	None	11442	None	None	132791133	132834274	-1	None	None
6	STX7	ENSG00000079950	ENST00000475879	retained_intron	KNOWN	None	11442	None	None	132796419	132834204	-1	None	None
10	None	ENSG00000226694	ENST00000435539	lincRNA	KNOWN	None	None	None	None	2114039	2123291	1	None	None
5	None	ENSG00000259968	ENST00000565306	lincRNA	KNOWN	None	None	None	None	73248765	73249839	1	None	None
5	None	ENSG00000259968	ENST00000599835	lincRNA	KNOWN	None	None	None	None	73248765	73249836	1	None	None
4	PCDH10	ENSG00000138650	ENST00000264360	protein_coding	KNOWN	CCDS34063	13404	3123	1040	134070470	134112732	1	None	OL-PCDH, KIAA1400
4	PCDH10	ENSG00000138650	ENST00000511112	retained_intron	KNOWN	None	13404	None	None	134076048	134129356	1	None	OL-PCDH, KIAA1400
3	P2RY12	ENSG00000169313	ENST00000302632	protein_coding	KNOWN	CCDS3159	18124	1029	342	151055168	151102600	-1	None	P2Y12, SP1999, HORK3
3	P2RY12	ENSG00000169313	ENST00000468596	retained_intron	KNOWN	None	18124	None	None	151055946	151058641	-1	None	P2Y12, SP1999, HORK3
19	WASH5P	ENSG00000225373	ENST00000592209	processed_transcript	KNOWN	None	33884	None	None	60105	66509	-1	None	None
19	WASH5P	ENSG00000225373	ENST00000606546	processed_transcript	KNOWN	None	33884	None	None	60105	66509	-1	None	None
19	WASH5P	ENSG00000225373	ENST00000606728	processed_transcript	KNOWN	None	33884	None	None	60951	70966	-1	None	None
19	WASH5P	ENSG00000225373	ENST00000606872	retained_intron	KNOWN	None	33884	None	None	62115	66509	-1	None	None
19	WASH5P	ENSG00000225373	ENST00000607444	processed_transcript	KNOWN	None	33884	None	None	63821	66509	-1	None	None
19	WASH5P	ENSG00000225373	ENST00000607633	processed_transcript	KNOWN	None	33884	None	None	65058	66382	-1	None	None
19	WASH5P	ENSG00000225373	ENST00000589741	processed_transcript	KNOWN	None	33884	None	None	65822	66416	-1	None	None
19	WASH5P	ENSG00000225373	ENST00000607872	processed_transcript	KNOWN	None	33884	None	None	65822	66509	-1	None	None
19	WASH5P	ENSG00000225373	ENST00000587045	transcribed_processed_pseudogene	KNOWN	None	33884	None	None	66320	66492	-1	None	None
19	WASH5P	ENSG00000225373	ENST00000606592	processed_transcript	KNOWN	None	33884	None	None	66345	71568	-1	None	None
19	WASH5P	ENSG00000225373	ENST00000391654	processed_transcript	KNOWN	None	33884	None	None	66346	71535	-1	None	None
19	WASH5P	ENSG00000225373	ENST00000607556	processed_transcript	KNOWN	None	33884	None	None	66346	71607	-1	None	None
19	WASH5P	ENSG00000225373	ENST00000606554	retained_intron	KNOWN	None	33884	None	None	70652	71626	-1	None	None
9	MIR3689B	ENSG00000264163	ENST00000581772	miRNA	KNOWN	None	38924	None	None	137741971	137742118	-1	None	hsa-mir-3689b
HG883_PATCH	SEBOX	ENSG00000262318	ENST00000571396	protein_coding	PUTATIVE	None	32942	447	148	26691310	26695033	-1	None	OG9, OG9X
Y	CDY5P	ENSG00000226449	ENST00000411487	unprocessed_pseudogene	KNOWN	None	23850	None	None	19833478	19835057	1	None	None
5	None	ENSG00000248474	ENST00000511395	lincRNA	KNOWN	None	None	None	None	73379893	73399041	-1	None	None
1	None	ENSG00000231789	ENST00000415330	antisense	KNOWN	None	None	None	None	9732484	9747613	-1	None	None
20	None	ENSG00000212111	ENST00000390822	miRNA	NOVEL	None	None	None	None	15539025	15539113	-1	None	None
5	None	ENSG00000222551	ENST00000410619	miRNA	NOVEL	None	None	None	None	73567507	73567590	-1	None	None
2	REV1	ENSG00000135945	ENST00000393445	protein_coding	KNOWN	CCDS42722	14060	3753	1250	100016938	100106435	-1	REV1L	None
2	REV1	ENSG00000135945	ENST00000258428	protein_coding	KNOWN	CCDS2045	14060	3756	1251	100016938	100106497	-1	REV1L	None
2	REV1	ENSG00000135945	ENST00000413697	nonsense_mediated_decay	KNOWN	None	14060	210	69	100017413	100106497	-1	REV1L	None
2	REV1	ENSG00000135945	ENST00000482595	processed_transcript	KNOWN	None	14060	None	None	100018722	100029415	-1	REV1L	None
2	REV1	ENSG00000135945	ENST00000465086	retained_intron	KNOWN	None	14060	None	None	100018993	100019893	-1	REV1L	None
2	REV1	ENSG00000135945	ENST00000485487	retained_intron	KNOWN	None	14060	None	None	100019503	100022815	-1	REV1L	None
2	REV1	ENSG00000135945	ENST00000465835	processed_transcript	KNOWN	None	14060	None	None	100019519	100067942	-1	REV1L	None
2	REV1	ENSG00000135945	ENST00000438366	nonsense_mediated_decay	KNOWN	None	14060	292	96	100022390	100027312	-1	REV1L	None
2	REV1	ENSG00000135945	ENST00000472000	retained_intron	KNOWN	None	14060	None	None	100022395	100023390	-1	REV1L	None
2	REV1	ENSG00000135945	ENST00000477121	retained_intron	KNOWN	None	14060	None	None	100022546	100024865	-1	REV1L	None
2	REV1	ENSG00000135945	ENST00000481719	retained_intron	KNOWN	None	14060	None	None	100035294	100041096	-1	REV1L	None
2	REV1	ENSG00000135945	ENST00000450415	protein_coding	NOVEL	None	14060	577	191	100041243	100055189	-1	REV1L	None
2	REV1	ENSG00000135945	ENST00000486117	processed_transcript	KNOWN	None	14060	None	None	100048263	100055279	-1	REV1L	None
2	REV1	ENSG00000135945	ENST00000491752	retained_intron	KNOWN	None	14060	None	None	100051937	100055142	-1	REV1L	None
2	REV1	ENSG00000135945	ENST00000482887	processed_transcript	KNOWN	None	14060	None	None	100052299	100055239	-1	REV1L	None
2	REV1	ENSG00000135945	ENST00000473819	retained_intron	KNOWN	None	14060	None	None	100055036	100079250	-1	REV1L	None
Y	None	ENSG00000225896	ENST00000425789	processed_pseudogene	KNOWN	None	None	None	None	19838632	19838960	1	None	None
16	None	ENSG00000221257	ENST00000408330	miRNA	NOVEL	None	None	None	None	5810688	5810789	-1	None	None
5	None	ENSG00000248942	ENST00000507890	lincRNA	KNOWN	None	None	None	None	73602235	73604150	-1	None	None
19	SLC5A5	ENSG00000105641	ENST00000222248	protein_coding	KNOWN	CCDS12368	11040	1932	643	17982782	18005983	1	None	NIS
19	SLC5A5	ENSG00000105641	ENST00000597109	retained_intron	KNOWN	None	11040	None	None	17992788	17999187	1	None	NIS
5	None	ENSG00000254295	ENST00000519755	lincRNA	KNOWN	None	None	None	None	172381910	172384165	1	None	None
5	None	ENSG00000249551	ENST00000513366	lincRNA	KNOWN	None	None	None	None	117911270	117917019	1	None	None
HG1293_PATCH	None	ENSG00000264649	ENST00000579936	antisense	KNOWN	None	None	None	None	206181344	206190366	1	None	None
6	RIOK1	ENSG00000124784	ENST00000379834	protein_coding	KNOWN	CCDS4500	18656	1707	568	7389729	7418270	1	None	AD034, FLJ30006, bA288G3.1, RRP10
6	RIOK1	ENSG00000124784	ENST00000475351	nonsense_mediated_decay	KNOWN	None	18656	288	95	7390026	7403081	1	None	AD034, FLJ30006, bA288G3.1, RRP10
6	RIOK1	ENSG00000124784	ENST00000264874	retained_intron	KNOWN	None	18656	None	None	7396985	7418270	1	None	AD034, FLJ30006, bA288G3.1, RRP10
6	RIOK1	ENSG00000124784	ENST00000484626	retained_intron	KNOWN	None	18656	None	None	7404167	7405417	1	None	AD034, FLJ30006, bA288G3.1, RRP10
6	RIOK1	ENSG00000124784	ENST00000493691	retained_intron	KNOWN	None	18656	None	None	7410611	7411800	1	None	AD034, FLJ30006, bA288G3.1, RRP10
16	None	ENSG00000261444	ENST00000568264	unprocessed_pseudogene	KNOWN	None	None	None	None	30225730	30226020	1	None	None
21	C21orf62	ENSG00000205929	ENST00000490358	protein_coding	KNOWN	CCDS42919	1305	660	219	34165875	34186053	-1	C21orf120	B37, PRED81
21	C21orf62	ENSG00000205929	ENST00000487113	protein_coding	KNOWN	CCDS42919	1305	660	219	34165876	34185989	-1	C21orf120	B37, PRED81
21	C21orf62	ENSG00000205929	ENST00000382373	protein_coding	PUTATIVE	None	1305	801	266	34165996	34185999	-1	C21orf120	B37, PRED81
21	C21orf62	ENSG00000205929	ENST00000479548	protein_coding	KNOWN	CCDS42919	1305	660	219	34166032	34185944	-1	C21orf120	B37, PRED81
21	C21orf62	ENSG00000205929	ENST00000536776	protein_coding	KNOWN	CCDS42919	1305	660	219	34162985	34180028	-1	C21orf120	B37, PRED81
16	None	ENSG00000261203	ENST00000563429	unprocessed_pseudogene	KNOWN	None	None	None	None	30229541	30233251	1	None	None
16	None	ENSG00000270440	ENST00000603755	processed_pseudogene	KNOWN	None	None	None	None	5888132	5888662	-1	None	None
3	SLC6A11	ENSG00000132164	ENST00000254488	protein_coding	KNOWN	CCDS2602	11044	1899	632	10857885	10982419	1	None	GAT3
3	SLC6A11	ENSG00000132164	ENST00000454147	protein_coding	NOVEL	None	11044	627	208	10857886	10867183	1	None	GAT3
3	SLC6A11	ENSG00000132164	ENST00000464828	retained_intron	KNOWN	None	11044	None	None	10975652	10977083	1	None	GAT3
HG1293_PATCH	None	ENSG00000263498	ENST00000581195	processed_pseudogene	KNOWN	None	None	None	None	206224448	206224837	-1	None	None
1	LRRC8C	ENSG00000171488	ENST00000370454	protein_coding	KNOWN	CCDS725	25075	2412	803	90098631	90185092	1	None	AD158
1	LRRC8C	ENSG00000171488	ENST00000479252	processed_transcript	KNOWN	None	25075	None	None	90098631	90230077	1	None	AD158
1	LRRC8C	ENSG00000171488	ENST00000482063	nonsense_mediated_decay	KNOWN	None	25075	177	58	90098740	90174207	1	None	AD158
1	LRRC8C	ENSG00000171488	ENST00000416805	processed_transcript	KNOWN	None	25075	None	None	90229104	90235462	1	None	AD158
5	None	ENSG00000253785	ENST00000523057	processed_pseudogene	KNOWN	None	None	None	None	172402514	172403377	1	None	None
5	None	ENSG00000249128	ENST00000503320	lincRNA	KNOWN	None	None	None	None	117931883	117963787	1	None	None
16	None	ENSG00000257180	ENST00000549303	sense_intronic	KNOWN	None	None	None	None	6106976	6142955	1	None	None
6	OR2B7P	ENSG00000187763	ENST00000429302	unprocessed_pseudogene	KNOWN	None	13967	None	None	28014212	28015145	1	None	hs6M1-31P
20	ENSAP1	ENSG00000224274	ENST00000392855	processed_pseudogene	KNOWN	None	16588	None	None	15600139	15600464	-1	ENSAP	dJ822J19.1
6	TFAP2A	ENSG00000137203	ENST00000461628	protein_coding	PUTATIVE	None	11742	244	80	10393419	10404827	-1	TFAP2, AP2TF	AP-2
6	TFAP2A	ENSG00000137203	ENST00000379613	protein_coding	NOVEL	None	11742	1320	439	10396910	10415481	-1	TFAP2, AP2TF	AP-2
6	TFAP2A	ENSG00000137203	ENST00000489805	nonsense_mediated_decay	KNOWN	None	11742	342	113	10397643	10412408	-1	TFAP2, AP2TF	AP-2
6	TFAP2A	ENSG00000137203	ENST00000319516	protein_coding	KNOWN	CCDS43422	11742	1302	433	10398105	10419871	-1	TFAP2, AP2TF	AP-2
6	TFAP2A	ENSG00000137203	ENST00000379608	protein_coding	KNOWN	CCDS34337	11742	1296	431	10398148	10412607	-1	TFAP2, AP2TF	AP-2
6	TFAP2A	ENSG00000137203	ENST00000488193	nonsense_mediated_decay	KNOWN	None	11742	366	121	10398148	10415439	-1	TFAP2, AP2TF	AP-2
6	TFAP2A	ENSG00000137203	ENST00000482890	protein_coding	KNOWN	CCDS4510	11742	1314	437	10398246	10416423	-1	TFAP2, AP2TF	AP-2
6	TFAP2A	ENSG00000137203	ENST00000466073	protein_coding	PUTATIVE	None	11742	987	328	10398835	10415218	-1	TFAP2, AP2TF	AP-2
6	TFAP2A	ENSG00000137203	ENST00000497266	processed_transcript	KNOWN	None	11742	None	None	10398921	10411251	-1	TFAP2, AP2TF	AP-2
6	TFAP2A	ENSG00000137203	ENST00000475264	protein_coding	PUTATIVE	None	11742	656	217	10400947	10410327	-1	TFAP2, AP2TF	AP-2
6	TFAP2A	ENSG00000137203	ENST00000478375	retained_intron	KNOWN	None	11742	None	None	10402259	10415218	-1	TFAP2, AP2TF	AP-2
6	TFAP2A	ENSG00000137203	ENST00000498450	protein_coding	NOVEL	None	11742	408	135	10402771	10415233	-1	TFAP2, AP2TF	AP-2
6	TFAP2A	ENSG00000137203	ENST00000490875	processed_transcript	KNOWN	None	11742	None	None	10404854	10417440	-1	TFAP2, AP2TF	AP-2
6	TFAP2A	ENSG00000137203	ENST00000473652	processed_transcript	KNOWN	None	11742	None	None	10404901	10419892	-1	TFAP2, AP2TF	AP-2
6	TFAP2A	ENSG00000137203	ENST00000474952	retained_intron	KNOWN	None	11742	None	None	10406369	10412279	-1	TFAP2, AP2TF	AP-2
6	TFAP2A	ENSG00000137203	ENST00000462727	processed_transcript	KNOWN	None	11742	None	None	10407027	10411175	-1	TFAP2, AP2TF	AP-2
6	TFAP2A	ENSG00000137203	ENST00000464323	retained_intron	KNOWN	None	11742	None	None	10409319	10419787	-1	TFAP2, AP2TF	AP-2
6	TFAP2A	ENSG00000137203	ENST00000465858	protein_coding	PUTATIVE	None	11742	519	172	10410230	10413112	-1	TFAP2, AP2TF	AP-2
6	TFAP2A	ENSG00000137203	ENST00000486038	processed_transcript	KNOWN	None	11742	None	None	10418422	10419856	-1	TFAP2, AP2TF	AP-2
6	TFAP2A	ENSG00000137203	ENST00000379604	protein_coding	KNOWN	CCDS4510	11742	1314	437	10396916	10415470	-1	TFAP2, AP2TF	AP-2
8	ADCY8	ENSG00000155897	ENST00000286355	protein_coding	KNOWN	CCDS6363	239	3756	1251	131792547	132054672	-1	ADCY3	HBAC1, AC8
8	ADCY8	ENSG00000155897	ENST00000377928	protein_coding	NOVEL	None	239	3363	1120	131792636	132052579	-1	ADCY3	HBAC1, AC8
8	ADCY8	ENSG00000155897	ENST00000522949	protein_coding	PUTATIVE	None	239	756	251	131916018	132003111	-1	ADCY3	HBAC1, AC8
5	RNU7-34P	ENSG00000238904	ENST00000459394	snRNA	KNOWN	None	34130	None	None	118093906	118093969	1	None	U7.34
16	None	ENSG00000260835	ENST00000564076	sense_intronic	KNOWN	None	None	None	None	6623768	6627360	1	None	None
19	VN1R91P	ENSG00000268148	ENST00000594377	unprocessed_pseudogene	KNOWN	None	37411	None	None	23473651	23473819	1	None	None
19	None	ENSG00000267934	ENST00000600671	antisense	KNOWN	None	None	None	None	23506770	23511903	1	None	None
5	None	ENSG00000249426	ENST00000515364	lincRNA	KNOWN	None	None	None	None	118096169	118121154	-1	None	None
6	OR2B8P	ENSG00000182477	ENST00000432841	unprocessed_pseudogene	KNOWN	None	13968	None	None	28021006	28021943	-1	OR2B8	hs6M1-29P
1	None	ENSG00000271264	ENST00000603781	processed_pseudogene	KNOWN	None	None	None	None	9840880	9841298	1	None	None
6	None	ENSG00000224029	ENST00000456018	sense_intronic	KNOWN	None	None	None	None	150945813	150947222	1	None	None
20	SMOX	ENSG00000088826	ENST00000493223	processed_transcript	KNOWN	None	15862	None	None	4101627	4155751	1	C20orf16	FLJ20746, dJ779E11.1, PAO, PAOh1, MGC1010, SMO
20	SMOX	ENSG00000088826	ENST00000339123	protein_coding	KNOWN	CCDS13076	15862	1509	502	4129426	4168394	1	C20orf16	FLJ20746, dJ779E11.1, PAO, PAOh1, MGC1010, SMO
20	SMOX	ENSG00000088826	ENST00000305958	protein_coding	KNOWN	CCDS13075	15862	1668	555	4129426	4168394	1	C20orf16	FLJ20746, dJ779E11.1, PAO, PAOh1, MGC1010, SMO
20	SMOX	ENSG00000088826	ENST00000278795	protein_coding	KNOWN	CCDS13078	15862	1599	532	4129426	4168394	1	C20orf16	FLJ20746, dJ779E11.1, PAO, PAOh1, MGC1010, SMO
20	SMOX	ENSG00000088826	ENST00000484515	processed_transcript	KNOWN	None	15862	None	None	4129478	4162623	1	C20orf16	FLJ20746, dJ779E11.1, PAO, PAOh1, MGC1010, SMO
20	SMOX	ENSG00000088826	ENST00000346595	protein_coding	KNOWN	CCDS13077	15862	573	190	4129582	4168394	1	C20orf16	FLJ20746, dJ779E11.1, PAO, PAOh1, MGC1010, SMO
20	SMOX	ENSG00000088826	ENST00000602910	retained_intron	KNOWN	None	15862	None	None	4151130	4153322	1	C20orf16	FLJ20746, dJ779E11.1, PAO, PAOh1, MGC1010, SMO
20	SMOX	ENSG00000088826	ENST00000379460	protein_coding	KNOWN	CCDS13075	15862	1668	555	4152357	4168394	1	C20orf16	FLJ20746, dJ779E11.1, PAO, PAOh1, MGC1010, SMO
20	SMOX	ENSG00000088826	ENST00000457205	protein_coding	KNOWN	None	15862	1329	442	4158219	4168394	1	C20orf16	FLJ20746, dJ779E11.1, PAO, PAOh1, MGC1010, SMO
20	SMOX	ENSG00000088826	ENST00000494098	processed_transcript	KNOWN	None	15862	None	None	4162541	4168394	1	C20orf16	FLJ20746, dJ779E11.1, PAO, PAOh1, MGC1010, SMO
20	SMOX	ENSG00000088826	ENST00000486998	processed_transcript	KNOWN	None	15862	None	None	4163856	4168394	1	C20orf16	FLJ20746, dJ779E11.1, PAO, PAOh1, MGC1010, SMO
20	SMOX	ENSG00000088826	ENST00000466004	processed_transcript	KNOWN	None	15862	None	None	4163906	4164301	1	C20orf16	FLJ20746, dJ779E11.1, PAO, PAOh1, MGC1010, SMO
19	None	ENSG00000269431	ENST00000597863	processed_pseudogene	KNOWN	None	None	None	None	23563119	23563678	1	None	None
6	None	ENSG00000226599	ENST00000455229	lincRNA	KNOWN	None	None	None	None	150971908	150973161	-1	None	None
19	None	ENSG00000268992	ENST00000601004	processed_pseudogene	KNOWN	None	None	None	None	23567332	23568095	1	None	None
22	MCHR1	ENSG00000128285	ENST00000249016	protein_coding	KNOWN	CCDS14004	4479	1269	422	41074754	41078818	1	GPR24	SLC1, MCH1R
22	MCHR1	ENSG00000128285	ENST00000498400	processed_transcript	KNOWN	None	4479	None	None	41075277	41078087	1	GPR24	SLC1, MCH1R
22	MCHR1	ENSG00000128285	ENST00000381433	protein_coding	PUTATIVE	None	4479	891	296	41075277	41078087	1	GPR24	SLC1, MCH1R
22	MCHR1	ENSG00000128285	ENST00000465662	processed_transcript	KNOWN	None	4479	None	None	41076111	41077416	1	GPR24	SLC1, MCH1R
6	PDCL3P5	ENSG00000213089	ENST00000398028	processed_pseudogene	KNOWN	None	44506	None	None	151148799	151149520	1	None	None
11	API5	ENSG00000166181	ENST00000534695	protein_coding	PUTATIVE	None	594	372	123	43333513	43364226	1	None	AAC-11, API5L1, AAC11
11	API5	ENSG00000166181	ENST00000455725	protein_coding	PUTATIVE	None	594	1542	513	43333528	43364530	1	None	AAC-11, API5L1, AAC11
11	API5	ENSG00000166181	ENST00000530300	retained_intron	KNOWN	None	594	None	None	43333539	43340534	1	None	AAC-11, API5L1, AAC11
11	API5	ENSG00000166181	ENST00000531273	protein_coding	KNOWN	CCDS44572	594	1575	524	43333539	43364214	1	None	AAC-11, API5L1, AAC11
11	API5	ENSG00000166181	ENST00000420461	protein_coding	KNOWN	CCDS44573	594	1353	450	43333548	43364531	1	None	AAC-11, API5L1, AAC11
11	API5	ENSG00000166181	ENST00000378852	protein_coding	KNOWN	CCDS31465	594	1515	504	43333553	43366079	1	None	AAC-11, API5L1, AAC11
11	API5	ENSG00000166181	ENST00000534600	protein_coding	KNOWN	None	594	1533	510	43333646	43357780	1	None	AAC-11, API5L1, AAC11
11	API5	ENSG00000166181	ENST00000526394	protein_coding	NOVEL	None	594	883	293	43343594	43357490	1	None	AAC-11, API5L1, AAC11
11	API5	ENSG00000166181	ENST00000532267	retained_intron	KNOWN	None	594	None	None	43351536	43357614	1	None	AAC-11, API5L1, AAC11
11	API5	ENSG00000166181	ENST00000529932	retained_intron	KNOWN	None	594	None	None	43351783	43357771	1	None	AAC-11, API5L1, AAC11
11	API5	ENSG00000166181	ENST00000529334	processed_transcript	PUTATIVE	None	594	None	None	43356829	43360923	1	None	AAC-11, API5L1, AAC11
6	OR1F12	ENSG00000220721	ENST00000402365	unprocessed_pseudogene	KNOWN	None	13964	None	None	28041094	28042011	1	OR1F12P	hs6M1-35P, OR1F12Q
4	None	ENSG00000251482	ENST00000505898	processed_pseudogene	KNOWN	None	None	None	None	150711104	150711455	1	None	None
6	None	ENSG00000218996	ENST00000404372	processed_pseudogene	KNOWN	None	None	None	None	151256104	151256702	1	None	None
19	None	ENSG00000269416	ENST00000600643	lincRNA	KNOWN	None	None	None	None	23582035	23598873	-1	None	None
19	None	ENSG00000269416	ENST00000596283	lincRNA	KNOWN	None	None	None	None	23582272	23590893	-1	None	None
19	None	ENSG00000269416	ENST00000593573	lincRNA	KNOWN	None	None	None	None	23583786	23598861	-1	None	None
19	None	ENSG00000269416	ENST00000601293	lincRNA	KNOWN	None	None	None	None	23583789	23598877	-1	None	None
19	None	ENSG00000269416	ENST00000602077	lincRNA	KNOWN	None	None	None	None	23585164	23598876	-1	None	None
19	None	ENSG00000269416	ENST00000598922	lincRNA	KNOWN	None	None	None	None	23585219	23598867	-1	None	None
19	None	ENSG00000269416	ENST00000601338	lincRNA	KNOWN	None	None	None	None	23586014	23598876	-1	None	None
19	None	ENSG00000269416	ENST00000594576	lincRNA	KNOWN	None	None	None	None	23586082	23598867	-1	None	None
19	None	ENSG00000269416	ENST00000596763	lincRNA	KNOWN	None	None	None	None	23587554	23598849	-1	None	None
X	None	ENSG00000230265	ENST00000420915	processed_pseudogene	KNOWN	None	None	None	None	26575792	26576447	1	None	None
21	OLIG2	ENSG00000205927	ENST00000382357	protein_coding	KNOWN	CCDS13620	9398	972	323	34398153	34401504	1	PRKCBP2, BHLHB1	RACK17, OLIGO2, bHLHe19
21	OLIG2	ENSG00000205927	ENST00000430860	protein_coding	KNOWN	None	9398	187	61	34398243	34399357	1	PRKCBP2, BHLHB1	RACK17, OLIGO2, bHLHe19
21	OLIG2	ENSG00000205927	ENST00000333337	protein_coding	KNOWN	CCDS13620	9398	972	323	34398243	34401504	1	PRKCBP2, BHLHB1	RACK17, OLIGO2, bHLHe19
HG883_PATCH	SARM1	ENSG00000267556	ENST00000591907	processed_transcript	KNOWN	None	17074	None	None	26691378	26725154	1	None	SARM, SAMD2, KIAA0524
HG883_PATCH	SARM1	ENSG00000267556	ENST00000591663	protein_coding	NOVEL	None	17074	2073	690	26699154	26723305	1	None	SARM, SAMD2, KIAA0524
HG883_PATCH	SARM1	ENSG00000267556	ENST00000585453	retained_intron	KNOWN	None	17074	None	None	26711689	26725182	1	None	SARM, SAMD2, KIAA0524
HG883_PATCH	SARM1	ENSG00000267556	ENST00000589014	nonsense_mediated_decay	KNOWN	None	17074	355	117	26711845	26715413	1	None	SARM, SAMD2, KIAA0524
HG883_PATCH	SARM1	ENSG00000267556	ENST00000585482	protein_coding	NOVEL	None	17074	772	256	26712119	26723430	1	None	SARM, SAMD2, KIAA0524
HG883_PATCH	SARM1	ENSG00000267556	ENST00000585569	retained_intron	KNOWN	None	17074	None	None	26712450	26723217	1	None	SARM, SAMD2, KIAA0524
HG883_PATCH	SARM1	ENSG00000267556	ENST00000591407	retained_intron	KNOWN	None	17074	None	None	26715017	26722997	1	None	SARM, SAMD2, KIAA0524
HG883_PATCH	SARM1	ENSG00000267556	ENST00000587683	protein_coding	PUTATIVE	None	17074	323	106	26715289	26723839	1	None	SARM, SAMD2, KIAA0524
11	None	ENSG00000258529	ENST00000524880	nonsense_mediated_decay	KNOWN	None	None	870	289	111657010	111750149	-1	None	None
11	None	ENSG00000258529	ENST00000526587	processed_transcript	KNOWN	None	None	None	None	111735904	111747291	-1	None	None
11	None	ENSG00000258529	ENST00000527377	processed_transcript	KNOWN	None	None	None	None	111741018	111747568	-1	None	None
X	VENTXP1	ENSG00000259849	ENST00000569334	lincRNA	KNOWN	None	30900	None	None	26576454	26579169	1	None	NA88A, CT18
12	TM7SF3	ENSG00000064115	ENST00000343028	protein_coding	KNOWN	CCDS8710	23049	1713	570	27126128	27167327	-1	None	None
12	TM7SF3	ENSG00000064115	ENST00000544179	retained_intron	KNOWN	None	23049	None	None	27127029	27128708	-1	None	None
12	TM7SF3	ENSG00000064115	ENST00000545344	protein_coding	NOVEL	None	23049	666	221	27127087	27143479	-1	None	None
12	TM7SF3	ENSG00000064115	ENST00000545303	protein_coding	PUTATIVE	None	23049	434	143	27128429	27148201	-1	None	None
12	TM7SF3	ENSG00000064115	ENST00000537406	protein_coding	NOVEL	None	23049	244	80	27128489	27133541	-1	None	None
12	TM7SF3	ENSG00000064115	ENST00000535260	nonsense_mediated_decay	KNOWN	None	23049	601	199	27128510	27148230	-1	None	None
12	TM7SF3	ENSG00000064115	ENST00000543882	nonsense_mediated_decay	KNOWN	None	23049	459	152	27129195	27149718	-1	None	None
12	TM7SF3	ENSG00000064115	ENST00000541081	retained_intron	KNOWN	None	23049	None	None	27129263	27133204	-1	None	None
12	TM7SF3	ENSG00000064115	ENST00000542667	processed_transcript	KNOWN	None	23049	None	None	27132835	27167144	-1	None	None
12	TM7SF3	ENSG00000064115	ENST00000543655	protein_coding	PUTATIVE	None	23049	409	135	27133499	27156218	-1	None	None
12	TM7SF3	ENSG00000064115	ENST00000535819	protein_coding	PUTATIVE	None	23049	409	135	27133499	27167280	-1	None	None
12	TM7SF3	ENSG00000064115	ENST00000543803	protein_coding	PUTATIVE	None	23049	386	127	27148168	27167292	-1	None	None
12	TM7SF3	ENSG00000064115	ENST00000542019	nonsense_mediated_decay	KNOWN	None	23049	150	49	27148173	27167306	-1	None	None
12	TM7SF3	ENSG00000064115	ENST00000539741	protein_coding	PUTATIVE	None	23049	260	85	27148234	27167307	-1	None	None
12	TM7SF3	ENSG00000064115	ENST00000543088	protein_coding	PUTATIVE	None	23049	200	65	27148294	27167367	-1	None	None
12	TM7SF3	ENSG00000064115	ENST00000535423	protein_coding	PUTATIVE	None	23049	111	36	27149716	27167302	-1	None	None
12	TM7SF3	ENSG00000064115	ENST00000512808	protein_coding	PUTATIVE	None	23049	346	114	27149784	27165947	-1	None	None
12	TM7SF3	ENSG00000064115	ENST00000545600	protein_coding	KNOWN	None	23049	349	115	27152522	27167331	-1	None	None
12	TM7SF3	ENSG00000064115	ENST00000539399	processed_transcript	KNOWN	None	23049	None	None	27152637	27167317	-1	None	None
16	SPIRE2	ENSG00000204991	ENST00000564878	processed_transcript	KNOWN	None	30623	None	None	89884587	89916970	1	None	spir-2, KIAA1832
16	SPIRE2	ENSG00000204991	ENST00000565103	processed_transcript	KNOWN	None	30623	None	None	89884658	89888938	1	None	spir-2, KIAA1832
16	SPIRE2	ENSG00000204991	ENST00000393062	protein_coding	KNOWN	None	30623	2001	666	89894907	89936799	1	None	spir-2, KIAA1832
16	SPIRE2	ENSG00000204991	ENST00000378247	protein_coding	KNOWN	CCDS32516	30623	2145	714	89894916	89937727	1	None	spir-2, KIAA1832
16	SPIRE2	ENSG00000204991	ENST00000563972	protein_coding	PUTATIVE	None	30623	300	99	89894955	89913564	1	None	spir-2, KIAA1832
16	SPIRE2	ENSG00000204991	ENST00000566337	nonsense_mediated_decay	KNOWN	None	30623	123	40	89895106	89925597	1	None	spir-2, KIAA1832
16	SPIRE2	ENSG00000204991	ENST00000569108	retained_intron	KNOWN	None	30623	None	None	89916274	89936794	1	None	spir-2, KIAA1832
16	SPIRE2	ENSG00000204991	ENST00000561883	retained_intron	KNOWN	None	30623	None	None	89920730	89922469	1	None	spir-2, KIAA1832
16	SPIRE2	ENSG00000204991	ENST00000562029	retained_intron	KNOWN	None	30623	None	None	89928374	89936815	1	None	spir-2, KIAA1832
16	SPIRE2	ENSG00000204991	ENST00000565628	retained_intron	KNOWN	None	30623	None	None	89929850	89936609	1	None	spir-2, KIAA1832
1	None	ENSG00000223989	ENST00000454104	antisense	KNOWN	None	None	None	None	9908376	9910212	1	None	None
18	None	ENSG00000265944	ENST00000584361	protein_coding	KNOWN	CCDS58612	None	408	135	6511415	6590652	1	None	None
14	TINF2	ENSG00000092330	ENST00000558703	retained_intron	KNOWN	None	11824	None	None	24708849	24709448	-1	None	TIN2
14	TINF2	ENSG00000092330	ENST00000560019	protein_coding	PUTATIVE	None	11824	258	85	24708849	24709680	-1	None	TIN2
14	TINF2	ENSG00000092330	ENST00000399423	protein_coding	KNOWN	CCDS41937	11824	1065	354	24708849	24711869	-1	None	TIN2
14	TINF2	ENSG00000092330	ENST00000267415	protein_coding	KNOWN	CCDS41936	11824	1356	451	24708849	24711880	-1	None	TIN2
14	TINF2	ENSG00000092330	ENST00000559969	protein_coding	PUTATIVE	None	11824	823	273	24708885	24711494	-1	None	TIN2
14	TINF2	ENSG00000092330	ENST00000558566	protein_coding	PUTATIVE	None	11824	423	140	24708888	24711819	-1	None	TIN2
14	TINF2	ENSG00000092330	ENST00000557915	retained_intron	KNOWN	None	11824	None	None	24709001	24709804	-1	None	TIN2
14	TINF2	ENSG00000092330	ENST00000559019	protein_coding	PUTATIVE	None	11824	216	71	24709689	24711838	-1	None	TIN2
14	TINF2	ENSG00000092330	ENST00000559549	retained_intron	KNOWN	None	11824	None	None	24709785	24710642	-1	None	TIN2
14	TINF2	ENSG00000092330	ENST00000558476	protein_coding	PUTATIVE	None	11824	439	145	24709809	24711791	-1	None	TIN2
14	TINF2	ENSG00000092330	ENST00000559147	retained_intron	KNOWN	None	11824	None	None	24710320	24711548	-1	None	TIN2
14	TINF2	ENSG00000092330	ENST00000557830	retained_intron	KNOWN	None	11824	None	None	24710597	24711283	-1	None	TIN2
14	TINF2	ENSG00000092330	ENST00000557921	protein_coding	NOVEL	None	11824	273	90	24710902	24711764	-1	None	TIN2
14	TINF2	ENSG00000092330	ENST00000558510	processed_transcript	KNOWN	None	11824	None	None	24710936	24711841	-1	None	TIN2
14	TINF2	ENSG00000092330	ENST00000540705	protein_coding	KNOWN	None	11824	1251	416	24708853	24711811	-1	None	TIN2
14	TINF2	ENSG00000092330	ENST00000538777	protein_coding	KNOWN	None	11824	423	140	24708895	24711813	-1	None	TIN2
1	None	ENSG00000271949	ENST00000370453	nonsense_mediated_decay	KNOWN	None	None	159	52	90098699	90398809	1	None	None
3	POU1F1	ENSG00000064835	ENST00000350375	protein_coding	KNOWN	CCDS2919	9210	876	291	87308554	87325737	-1	PIT1	GHF-1, POU1F1a
3	POU1F1	ENSG00000064835	ENST00000344265	protein_coding	KNOWN	CCDS46873	9210	954	317	87308891	87325654	-1	PIT1	GHF-1, POU1F1a
3	POU1F1	ENSG00000064835	ENST00000561167	protein_coding	NOVEL	None	9210	650	215	87309045	87325612	-1	PIT1	GHF-1, POU1F1a
3	POU1F1	ENSG00000064835	ENST00000560656	protein_coding	NOVEL	None	9210	510	169	87309047	87325612	-1	PIT1	GHF-1, POU1F1a
7	CLDN12	ENSG00000157224	ENST00000416322	protein_coding	KNOWN	None	2034	527	174	90013035	90042517	1	None	None
7	CLDN12	ENSG00000157224	ENST00000496677	protein_coding	KNOWN	CCDS5618	2034	735	244	90032667	90042725	1	None	None
7	CLDN12	ENSG00000157224	ENST00000287916	protein_coding	KNOWN	CCDS5618	2034	735	244	90032700	90045268	1	None	None
7	CLDN12	ENSG00000157224	ENST00000462636	retained_intron	KNOWN	None	2034	None	None	90032704	90041794	1	None	None
7	CLDN12	ENSG00000157224	ENST00000480135	processed_transcript	KNOWN	None	2034	None	None	90032748	90142705	1	None	None
7	CLDN12	ENSG00000157224	ENST00000495768	processed_transcript	KNOWN	None	2034	None	None	90032752	90035394	1	None	None
7	CLDN12	ENSG00000157224	ENST00000394604	protein_coding	KNOWN	None	2034	562	186	90032762	90042552	1	None	None
7	CLDN12	ENSG00000157224	ENST00000394605	protein_coding	KNOWN	CCDS5618	2034	735	244	90032781	90045268	1	None	None
7	CLDN12	ENSG00000157224	ENST00000498033	processed_transcript	KNOWN	None	2034	None	None	90032798	90123730	1	None	None
7	CLDN12	ENSG00000157224	ENST00000483862	processed_transcript	KNOWN	None	2034	None	None	90032833	90142697	1	None	None
7	CLDN12	ENSG00000157224	ENST00000498326	processed_transcript	KNOWN	None	2034	None	None	90032850	90038498	1	None	None
7	CLDN12	ENSG00000157224	ENST00000427904	protein_coding	KNOWN	None	2034	379	125	90032881	90042369	1	None	None
7	CLDN12	ENSG00000157224	ENST00000451941	processed_transcript	KNOWN	None	2034	None	None	90034895	90142716	1	None	None
7	CLDN12	ENSG00000157224	ENST00000478752	processed_transcript	PUTATIVE	None	2034	None	None	90092554	90099661	1	None	None
7	CLDN12	ENSG00000157224	ENST00000485696	processed_transcript	KNOWN	None	2034	None	None	90095724	90142685	1	None	None
7	CLDN12	ENSG00000157224	ENST00000476475	processed_transcript	KNOWN	None	2034	None	None	90123484	90142702	1	None	None
7	CLDN12	ENSG00000157224	ENST00000535571	protein_coding	KNOWN	CCDS5618	2034	735	244	90032712	90045268	1	None	None
21	COL18A1	ENSG00000182871	ENST00000400337	protein_coding	KNOWN	CCDS42971	2195	4020	1339	46825052	46933634	1	KNO	KS, KNO1
21	COL18A1	ENSG00000182871	ENST00000355480	protein_coding	KNOWN	CCDS42972	2195	4560	1519	46875403	46933634	1	KNO	KS, KNO1
21	COL18A1	ENSG00000182871	ENST00000342220	protein_coding	NOVEL	None	2195	2064	687	46910189	46933634	1	KNO	KS, KNO1
21	COL18A1	ENSG00000182871	ENST00000459895	processed_transcript	PUTATIVE	None	2195	None	None	46913109	46917726	1	KNO	KS, KNO1
21	COL18A1	ENSG00000182871	ENST00000423214	protein_coding	PUTATIVE	None	2195	839	278	46925272	46932177	1	KNO	KS, KNO1
21	COL18A1	ENSG00000182871	ENST00000473212	retained_intron	KNOWN	None	2195	None	None	46925933	46932481	1	KNO	KS, KNO1
21	COL18A1	ENSG00000182871	ENST00000359759	protein_coding	KNOWN	None	2195	5265	1754	46875424	46933633	1	KNO	KS, KNO1
7	RNU6-1104P	ENSG00000207454	ENST00000384723	snRNA	KNOWN	None	48067	None	None	100913219	100913322	-1	None	None
7	AZGP1P2	ENSG00000214252	ENST00000454506	unprocessed_pseudogene	KNOWN	None	912	None	None	100930763	100933052	-1	None	None
X	MAOA	ENSG00000189221	ENST00000338702	protein_coding	KNOWN	CCDS14260	6833	1584	527	43515467	43606068	1	None	None
X	MAOA	ENSG00000189221	ENST00000497485	processed_transcript	KNOWN	None	6833	None	None	43515550	43590629	1	None	None
X	MAOA	ENSG00000189221	ENST00000490604	processed_transcript	KNOWN	None	6833	None	None	43602951	43603905	1	None	None
X	MAOA	ENSG00000189221	ENST00000542639	protein_coding	KNOWN	CCDS59163	6833	1185	394	43515548	43604409	1	None	None
3	IGSF10	ENSG00000152580	ENST00000489791	protein_coding	PUTATIVE	None	26384	261	86	151143172	151160938	-1	None	FLJ25972, CMF608
3	IGSF10	ENSG00000152580	ENST00000497472	processed_transcript	PUTATIVE	None	26384	None	None	151150498	151154710	-1	None	FLJ25972, CMF608
3	IGSF10	ENSG00000152580	ENST00000282466	protein_coding	KNOWN	CCDS3160	26384	7872	2623	151151282	151176497	-1	None	FLJ25972, CMF608
3	IGSF10	ENSG00000152580	ENST00000493841	processed_transcript	KNOWN	None	26384	None	None	151154311	151158568	-1	None	FLJ25972, CMF608
3	IGSF10	ENSG00000152580	ENST00000495443	processed_transcript	KNOWN	None	26384	None	None	151154329	151158559	-1	None	FLJ25972, CMF608
11	JRKL	ENSG00000183340	ENST00000546177	processed_transcript	KNOWN	None	6200	None	None	96123153	96240738	1	None	HHMJG
11	JRKL	ENSG00000183340	ENST00000332349	protein_coding	KNOWN	CCDS8308	6200	1575	524	96123158	96126421	1	None	HHMJG
11	JRKL	ENSG00000183340	ENST00000458427	protein_coding	KNOWN	CCDS8308	6200	1575	524	96123158	96126727	1	None	HHMJG
12	TMTC1	ENSG00000133687	ENST00000256062	protein_coding	KNOWN	CCDS8718	24099	2325	774	29653773	29937692	-1	None	ARG99, OLF, FLJ31400, FLJ41625
12	TMTC1	ENSG00000133687	ENST00000551659	protein_coding	NOVEL	None	24099	2835	944	29658532	29936830	-1	None	ARG99, OLF, FLJ31400, FLJ41625
12	TMTC1	ENSG00000133687	ENST00000552618	protein_coding	NOVEL	None	24099	2721	906	29658632	29936731	-1	None	ARG99, OLF, FLJ31400, FLJ41625
12	TMTC1	ENSG00000133687	ENST00000552925	processed_transcript	KNOWN	None	24099	None	None	29658910	29672387	-1	None	ARG99, OLF, FLJ31400, FLJ41625
12	TMTC1	ENSG00000133687	ENST00000319685	processed_transcript	KNOWN	None	24099	None	None	29658915	29794171	-1	None	ARG99, OLF, FLJ31400, FLJ41625
12	TMTC1	ENSG00000133687	ENST00000539277	protein_coding	PUTATIVE	CCDS53772	24099	2649	882	29659729	29936743	-1	None	ARG99, OLF, FLJ31400, FLJ41625
12	TMTC1	ENSG00000133687	ENST00000553189	retained_intron	KNOWN	None	24099	None	None	29685501	29935979	-1	None	ARG99, OLF, FLJ31400, FLJ41625
12	TMTC1	ENSG00000133687	ENST00000550354	protein_coding	PUTATIVE	None	24099	393	130	29721654	29757157	-1	None	ARG99, OLF, FLJ31400, FLJ41625
12	TMTC1	ENSG00000133687	ENST00000546582	processed_transcript	KNOWN	None	24099	None	None	29725117	29762916	-1	None	ARG99, OLF, FLJ31400, FLJ41625
12	TMTC1	ENSG00000133687	ENST00000381224	protein_coding	KNOWN	None	24099	1725	574	29689064	29937692	-1	None	ARG99, OLF, FLJ31400, FLJ41625
3	COX17	ENSG00000138495	ENST00000490145	nonsense_mediated_decay	KNOWN	None	2264	137	44	119373360	119395769	-1	None	None
3	COX17	ENSG00000138495	ENST00000468918	nonsense_mediated_decay	KNOWN	CCDS2993	2264	192	63	119378942	119396301	-1	None	None
3	COX17	ENSG00000138495	ENST00000261070	protein_coding	KNOWN	CCDS2993	2264	192	63	119388118	119396250	-1	None	None
3	COX17	ENSG00000138495	ENST00000486606	nonsense_mediated_decay	KNOWN	None	2264	176	57	119388379	119396141	-1	None	None
3	COX17	ENSG00000138495	ENST00000484810	protein_coding	NOVEL	None	2264	297	98	119388379	119396193	-1	None	None
3	COX17	ENSG00000138495	ENST00000497997	retained_intron	KNOWN	None	2264	None	None	119388381	119394424	-1	None	None
3	COX17	ENSG00000138495	ENST00000497116	protein_coding	KNOWN	CCDS2993	2264	192	63	119393226	119396211	-1	None	None
7	None	ENSG00000232301	ENST00000429254	antisense	KNOWN	None	None	None	None	100942894	100944551	1	None	None
7	None	ENSG00000232445	ENST00000419422	antisense	KNOWN	None	None	None	None	100951627	100954266	1	None	None
1	None	ENSG00000228150	ENST00000445884	sense_intronic	KNOWN	None	None	None	None	10002981	10010032	1	None	None
14	ANG	ENSG00000214274	ENST00000336811	protein_coding	KNOWN	CCDS9554	483	444	147	21152336	21162345	1	None	RNASE5
14	ANG	ENSG00000214274	ENST00000554073	processed_transcript	KNOWN	None	483	None	None	21152773	21167130	1	None	RNASE5
14	ANG	ENSG00000214274	ENST00000397990	protein_coding	KNOWN	CCDS9554	483	444	147	21156932	21162345	1	None	RNASE5
7	None	ENSG00000233683	ENST00000413033	processed_pseudogene	KNOWN	None	None	None	None	101032149	101032361	-1	None	None
HSCHR6_MHC_COX	NRM	ENSG00000235773	ENST00000465737	processed_transcript	KNOWN	None	8003	None	None	30645693	30647999	-1	None	NRM29
HSCHR6_MHC_COX	NRM	ENSG00000235773	ENST00000436892	protein_coding	KNOWN	None	8003	787	261	30645693	30648369	-1	None	NRM29
HSCHR6_MHC_COX	NRM	ENSG00000235773	ENST00000484533	processed_transcript	KNOWN	None	8003	None	None	30645693	30648613	-1	None	NRM29
HSCHR6_MHC_COX	NRM	ENSG00000235773	ENST00000485127	processed_transcript	KNOWN	None	8003	None	None	30645693	30648620	-1	None	NRM29
HSCHR6_MHC_COX	NRM	ENSG00000235773	ENST00000456720	protein_coding	KNOWN	None	8003	612	203	30645693	30648622	-1	None	NRM29
HSCHR6_MHC_COX	NRM	ENSG00000235773	ENST00000477619	processed_transcript	KNOWN	None	8003	None	None	30645693	30648632	-1	None	NRM29
HSCHR6_MHC_COX	NRM	ENSG00000235773	ENST00000460461	processed_transcript	KNOWN	None	8003	None	None	30645693	30648648	-1	None	NRM29
HSCHR6_MHC_COX	NRM	ENSG00000235773	ENST00000438502	protein_coding	KNOWN	None	8003	789	262	30645693	30649066	-1	None	NRM29
11	SIGIRR	ENSG00000185187	ENST00000528845	protein_coding	NOVEL	None	30575	393	130	405716	406370	-1	None	TIR8
11	SIGIRR	ENSG00000185187	ENST00000526395	protein_coding	NOVEL	None	30575	428	141	405716	407135	-1	None	TIR8
11	SIGIRR	ENSG00000185187	ENST00000431843	protein_coding	KNOWN	CCDS31325	30575	1233	410	405716	414976	-1	None	TIR8
11	SIGIRR	ENSG00000185187	ENST00000397632	protein_coding	KNOWN	CCDS31325	30575	1233	410	405716	417325	-1	None	TIR8
11	SIGIRR	ENSG00000185187	ENST00000332725	protein_coding	KNOWN	CCDS31325	30575	1233	410	405716	417397	-1	None	TIR8
11	SIGIRR	ENSG00000185187	ENST00000527295	retained_intron	KNOWN	None	30575	None	None	405716	417455	-1	None	TIR8
11	SIGIRR	ENSG00000185187	ENST00000527987	retained_intron	KNOWN	None	30575	None	None	405728	407191	-1	None	TIR8
11	SIGIRR	ENSG00000185187	ENST00000531205	protein_coding	KNOWN	None	30575	1515	504	405872	409977	-1	None	TIR8
11	SIGIRR	ENSG00000185187	ENST00000534145	retained_intron	KNOWN	None	30575	None	None	406427	407195	-1	None	TIR8
11	SIGIRR	ENSG00000185187	ENST00000528209	protein_coding	PUTATIVE	None	30575	567	188	406843	414957	-1	None	TIR8
11	SIGIRR	ENSG00000185187	ENST00000525299	processed_transcript	KNOWN	None	30575	None	None	406876	414931	-1	None	TIR8
11	SIGIRR	ENSG00000185187	ENST00000528698	processed_transcript	KNOWN	None	30575	None	None	407063	410014	-1	None	TIR8
11	SIGIRR	ENSG00000185187	ENST00000534217	processed_transcript	KNOWN	None	30575	None	None	407123	414984	-1	None	TIR8
11	SIGIRR	ENSG00000185187	ENST00000528536	retained_intron	KNOWN	None	30575	None	None	407233	407846	-1	None	TIR8
11	SIGIRR	ENSG00000185187	ENST00000526788	processed_transcript	KNOWN	None	30575	None	None	407315	414923	-1	None	TIR8
11	SIGIRR	ENSG00000185187	ENST00000530494	protein_coding	NOVEL	None	30575	430	142	407452	414948	-1	None	TIR8
11	SIGIRR	ENSG00000185187	ENST00000529486	processed_transcript	KNOWN	None	30575	None	None	407452	414989	-1	None	TIR8
11	SIGIRR	ENSG00000185187	ENST00000530683	processed_transcript	KNOWN	None	30575	None	None	407527	410016	-1	None	TIR8
11	SIGIRR	ENSG00000185187	ENST00000528116	processed_transcript	KNOWN	None	30575	None	None	407889	415004	-1	None	TIR8
11	SIGIRR	ENSG00000185187	ENST00000527136	processed_transcript	KNOWN	None	30575	None	None	407897	414999	-1	None	TIR8
11	SIGIRR	ENSG00000185187	ENST00000528058	protein_coding	PUTATIVE	None	30575	171	56	408763	414996	-1	None	TIR8
11	SIGIRR	ENSG00000185187	ENST00000525070	retained_intron	KNOWN	None	30575	None	None	409466	414989	-1	None	TIR8
11	SIGIRR	ENSG00000185187	ENST00000382520	protein_coding	KNOWN	None	30575	1515	504	405903	417325	-1	None	TIR8
1	LRRC8D	ENSG00000171492	ENST00000525774	protein_coding	KNOWN	None	16992	92	29	90286573	90398719	1	LRRC5	FLJ10470
1	LRRC8D	ENSG00000171492	ENST00000337338	protein_coding	KNOWN	CCDS726	16992	2577	858	90286591	90402170	1	LRRC5	FLJ10470
1	LRRC8D	ENSG00000171492	ENST00000394593	protein_coding	KNOWN	CCDS726	16992	2577	858	90287480	90401560	1	LRRC5	FLJ10470
1	LRRC8D	ENSG00000171492	ENST00000532201	protein_coding	KNOWN	None	16992	365	120	90299252	90398992	1	LRRC5	FLJ10470
1	LRRC8D	ENSG00000171492	ENST00000414841	protein_coding	KNOWN	None	16992	350	115	90308607	90398977	1	LRRC5	FLJ10470
1	LRRC8D	ENSG00000171492	ENST00000527156	protein_coding	KNOWN	None	16992	560	185	90308982	90399187	1	LRRC5	FLJ10470
1	LRRC8D	ENSG00000171492	ENST00000441269	protein_coding	KNOWN	None	16992	824	273	90312139	90399451	1	LRRC5	FLJ10470
10	MIR4682	ENSG00000265370	ENST00000580643	miRNA	KNOWN	None	41788	None	None	121718025	121718104	1	None	hsa-mir-4682
5	IGIP	ENSG00000182700	ENST00000333305	protein_coding	KNOWN	CCDS34244	33847	162	53	139505521	139508391	1	C5orf53	LOC492311
2	UBE2F	ENSG00000184182	ENST00000440223	nonsense_mediated_decay	KNOWN	None	12480	147	48	238875469	238940896	1	None	NCE2
2	UBE2F	ENSG00000184182	ENST00000441728	nonsense_mediated_decay	KNOWN	None	12480	309	102	238875587	238950527	1	None	NCE2
2	UBE2F	ENSG00000184182	ENST00000272930	protein_coding	KNOWN	CCDS2523	12480	558	185	238875597	238951236	1	None	NCE2
2	UBE2F	ENSG00000184182	ENST00000433568	nonsense_mediated_decay	KNOWN	None	12480	261	86	238875656	238925272	1	None	NCE2
2	UBE2F	ENSG00000184182	ENST00000448502	protein_coding	NOVEL	None	12480	426	141	238875656	238939236	1	None	NCE2
2	UBE2F	ENSG00000184182	ENST00000416292	protein_coding	NOVEL	None	12480	417	138	238875656	238949934	1	None	NCE2
2	UBE2F	ENSG00000184182	ENST00000409633	protein_coding	NOVEL	None	12480	495	164	238875656	238950186	1	None	NCE2
2	UBE2F	ENSG00000184182	ENST00000455999	nonsense_mediated_decay	KNOWN	None	12480	306	101	238875660	238950121	1	None	NCE2
2	UBE2F	ENSG00000184182	ENST00000417231	nonsense_mediated_decay	KNOWN	None	12480	144	47	238875668	238950183	1	None	NCE2
2	UBE2F	ENSG00000184182	ENST00000445676	nonsense_mediated_decay	KNOWN	None	12480	237	78	238875670	238950333	1	None	NCE2
2	UBE2F	ENSG00000184182	ENST00000439338	nonsense_mediated_decay	KNOWN	None	12480	192	63	238875682	238950056	1	None	NCE2
2	UBE2F	ENSG00000184182	ENST00000439780	nonsense_mediated_decay	KNOWN	None	12480	372	123	238875702	238949961	1	None	NCE2
2	UBE2F	ENSG00000184182	ENST00000454786	nonsense_mediated_decay	KNOWN	None	12480	144	47	238875717	238950380	1	None	NCE2
2	UBE2F	ENSG00000184182	ENST00000433241	nonsense_mediated_decay	KNOWN	None	12480	363	120	238875722	238950246	1	None	NCE2
2	UBE2F	ENSG00000184182	ENST00000409953	protein_coding	PUTATIVE	None	12480	486	161	238875723	238950411	1	None	NCE2
2	UBE2F	ENSG00000184182	ENST00000409332	protein_coding	NOVEL	None	12480	492	163	238875724	238950558	1	None	NCE2
2	UBE2F	ENSG00000184182	ENST00000434655	protein_coding	KNOWN	None	12480	515	170	238877435	238949936	1	None	NCE2
2	UBE2F	ENSG00000184182	ENST00000434137	protein_coding	NOVEL	None	12480	459	152	238881737	238944563	1	None	NCE2
2	UBE2F	ENSG00000184182	ENST00000480828	retained_intron	KNOWN	None	12480	None	None	238933902	238950424	1	None	NCE2
2	UBE2F	ENSG00000184182	ENST00000482096	retained_intron	KNOWN	None	12480	None	None	238933980	238941310	1	None	NCE2
2	UBE2F	ENSG00000184182	ENST00000472479	retained_intron	KNOWN	None	12480	None	None	238943770	238950574	1	None	NCE2
2	UBE2F	ENSG00000184182	ENST00000414443	protein_coding	KNOWN	None	12480	462	153	238875676	238950957	1	None	NCE2
HSCHR6_MHC_SSTO	LST1	ENSG00000230791	ENST00000455655	protein_coding	KNOWN	None	14189	201	66	31543845	31546630	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_SSTO	LST1	ENSG00000230791	ENST00000453995	protein_coding	KNOWN	None	14189	294	97	31543900	31546630	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_SSTO	LST1	ENSG00000230791	ENST00000470603	retained_intron	KNOWN	None	14189	None	None	31543915	31546630	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_SSTO	LST1	ENSG00000230791	ENST00000428898	protein_coding	KNOWN	None	14189	42	13	31543938	31546630	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_SSTO	LST1	ENSG00000230791	ENST00000449388	protein_coding	KNOWN	None	14189	87	28	31543938	31546630	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_SSTO	LST1	ENSG00000230791	ENST00000446239	protein_coding	KNOWN	None	14189	156	51	31543941	31546630	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_SSTO	LST1	ENSG00000230791	ENST00000486031	retained_intron	KNOWN	None	14189	None	None	31543956	31546630	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_SSTO	LST1	ENSG00000230791	ENST00000438381	protein_coding	KNOWN	None	14189	201	66	31544420	31546630	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_SSTO	LST1	ENSG00000230791	ENST00000435428	protein_coding	KNOWN	None	14189	87	28	31544569	31546630	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_SSTO	LST1	ENSG00000230791	ENST00000433520	protein_coding	KNOWN	None	14189	109	35	31544616	31545451	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_SSTO	LST1	ENSG00000230791	ENST00000452762	protein_coding	KNOWN	None	14189	87	28	31544730	31546630	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_SSTO	LST1	ENSG00000230791	ENST00000414519	protein_coding	KNOWN	None	14189	87	28	31544743	31546630	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_SSTO	LST1	ENSG00000230791	ENST00000429874	protein_coding	KNOWN	None	14189	294	97	31544753	31546630	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_SSTO	LST1	ENSG00000230791	ENST00000447391	protein_coding	KNOWN	None	14189	201	66	31544787	31546630	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_SSTO	LST1	ENSG00000230791	ENST00000428405	protein_coding	KNOWN	None	14189	201	66	31544801	31546630	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_SSTO	LST1	ENSG00000230791	ENST00000418551	protein_coding	KNOWN	None	14189	138	45	31544807	31545562	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_SSTO	LST1	ENSG00000230791	ENST00000420333	protein_coding	KNOWN	None	14189	180	59	31544818	31546630	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_SSTO	LST1	ENSG00000230791	ENST00000426202	protein_coding	KNOWN	None	14189	249	82	31544838	31546630	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_SSTO	LST1	ENSG00000230791	ENST00000450291	protein_coding	KNOWN	None	14189	222	73	31544921	31546630	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_SSTO	LST1	ENSG00000230791	ENST00000433305	protein_coding	KNOWN	None	14189	108	35	31544921	31546630	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_SSTO	LST1	ENSG00000230791	ENST00000448236	protein_coding	KNOWN	None	14189	315	104	31544921	31546630	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_SSTO	LST1	ENSG00000230791	ENST00000482275	retained_intron	KNOWN	None	14189	None	None	31544976	31546630	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_SSTO	LST1	ENSG00000230791	ENST00000448633	protein_coding	KNOWN	None	14189	131	42	31545025	31546630	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_SSTO	LST1	ENSG00000230791	ENST00000551014	protein_coding	KNOWN	None	14189	108	35	31543900	31546306	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_SSTO	LST1	ENSG00000230791	ENST00000546752	protein_coding	KNOWN	None	14189	276	91	31544921	31546629	1	None	LST-1, B144, D6S49E
7	None	ENSG00000233123	ENST00000451953	lincRNA	KNOWN	None	None	None	None	101206059	101212251	-1	None	None
7	None	ENSG00000233123	ENST00000437900	lincRNA	KNOWN	None	None	None	None	101208586	101212286	-1	None	None
7	None	ENSG00000233123	ENST00000434537	lincRNA	KNOWN	None	None	None	None	101208597	101212256	-1	None	None
10	None	ENSG00000180230	ENST00000318548	processed_pseudogene	KNOWN	None	None	None	None	121756598	121757221	-1	None	None
10	None	ENSG00000223455	ENST00000425391	processed_pseudogene	KNOWN	None	None	None	None	121829492	121829671	-1	None	None
15	None	ENSG00000260392	ENST00000562300	sense_overlapping	KNOWN	None	None	None	None	56835150	56921790	-1	None	None
15	None	ENSG00000260392	ENST00000568246	sense_overlapping	KNOWN	None	None	None	None	56840136	56921763	-1	None	None
1	RN7SKP269	ENSG00000202415	ENST00000365545	misc_RNA	KNOWN	None	45993	None	None	10007376	10007694	1	None	None
9	VN1R51P	ENSG00000228038	ENST00000411675	processed_pseudogene	KNOWN	None	37371	None	None	99855976	99856920	-1	None	None
HSCHR6_MHC_MCF	PFDN6	ENSG00000235692	ENST00000431830	protein_coding	KNOWN	None	4926	390	129	33427426	33429057	1	HKE2	KE-2, H2-KE2, PFD6
HSCHR6_MHC_MCF	PFDN6	ENSG00000235692	ENST00000432391	protein_coding	KNOWN	None	4926	390	129	33427719	33429057	1	HKE2	KE-2, H2-KE2, PFD6
HSCHR6_MHC_MCF	PFDN6	ENSG00000235692	ENST00000448335	retained_intron	KNOWN	None	4926	None	None	33427720	33428999	1	HKE2	KE-2, H2-KE2, PFD6
HSCHR6_MHC_MCF	PFDN6	ENSG00000235692	ENST00000451970	protein_coding	KNOWN	None	4926	390	129	33427721	33428986	1	HKE2	KE-2, H2-KE2, PFD6
HSCHR6_MHC_MCF	PFDN6	ENSG00000235692	ENST00000494315	retained_intron	KNOWN	None	4926	None	None	33427751	33428992	1	HKE2	KE-2, H2-KE2, PFD6
HSCHR6_MHC_MCF	PFDN6	ENSG00000235692	ENST00000468094	protein_coding	KNOWN	None	4926	312	103	33427899	33436525	1	HKE2	KE-2, H2-KE2, PFD6
HSCHR6_MHC_MCF	PFDN6	ENSG00000235692	ENST00000547641	protein_coding	KNOWN	None	4926	390	129	33427725	33429045	1	HKE2	KE-2, H2-KE2, PFD6
HG1293_PATCH	None	ENSG00000263431	ENST00000582804	lincRNA	KNOWN	None	None	None	None	206567509	206568017	1	None	None
5	None	ENSG00000238335	ENST00000458884	miRNA	NOVEL	None	None	None	None	37802073	37802167	-1	None	None
1	MIR5697	ENSG00000265521	ENST00000578045	miRNA	KNOWN	None	43509	None	None	10027439	10027516	1	None	hsa-mir-5697
4	BMPR1B	ENSG00000138696	ENST00000515059	protein_coding	KNOWN	CCDS3642	1077	1509	502	95679119	96079599	1	None	ALK6, CDw293
4	BMPR1B	ENSG00000138696	ENST00000506363	protein_coding	KNOWN	None	1077	375	124	95916947	96044986	1	None	ALK6, CDw293
4	BMPR1B	ENSG00000138696	ENST00000512312	protein_coding	KNOWN	CCDS3642	1077	1509	502	95917383	96075824	1	None	ALK6, CDw293
4	BMPR1B	ENSG00000138696	ENST00000509540	protein_coding	KNOWN	CCDS3642	1077	1509	502	95972830	96075968	1	None	ALK6, CDw293
4	BMPR1B	ENSG00000138696	ENST00000502683	protein_coding	KNOWN	None	1077	345	114	96012585	96036940	1	None	ALK6, CDw293
4	BMPR1B	ENSG00000138696	ENST00000264568	protein_coding	KNOWN	CCDS3642	1077	1509	502	96012642	96075968	1	None	ALK6, CDw293
4	BMPR1B	ENSG00000138696	ENST00000394931	protein_coding	KNOWN	CCDS3642	1077	1509	502	96025506	96076167	1	None	ALK6, CDw293
4	BMPR1B	ENSG00000138696	ENST00000440890	protein_coding	KNOWN	CCDS58919	1077	1599	532	95972830	96075968	1	None	ALK6, CDw293
5	GDNF-AS1	ENSG00000248587	ENST00000503382	lincRNA	KNOWN	None	43592	None	None	37840540	37874996	1	None	GDNFOS
5	GDNF-AS1	ENSG00000248587	ENST00000514532	lincRNA	KNOWN	None	43592	None	None	37870009	37874996	1	None	GDNFOS
5	GDNF-AS1	ENSG00000248587	ENST00000510986	lincRNA	KNOWN	None	43592	None	None	37873527	37875901	1	None	GDNFOS
HG1293_PATCH	None	ENSG00000263536	ENST00000446714	processed_pseudogene	KNOWN	None	None	None	None	206592476	206593267	1	None	None
7	TRIM24	ENSG00000122779	ENST00000343526	protein_coding	KNOWN	CCDS5847	11812	3153	1050	138145079	138274738	1	TIF1	hTIF1, Tif1a, RNF82, TIF1A
7	TRIM24	ENSG00000122779	ENST00000415680	protein_coding	KNOWN	CCDS47720	11812	3051	1016	138145180	138270330	1	TIF1	hTIF1, Tif1a, RNF82, TIF1A
7	TRIM24	ENSG00000122779	ENST00000497516	processed_transcript	KNOWN	None	11812	None	None	138145810	138255613	1	TIF1	hTIF1, Tif1a, RNF82, TIF1A
7	TRIM24	ENSG00000122779	ENST00000485318	processed_transcript	KNOWN	None	11812	None	None	138199145	138200050	1	TIF1	hTIF1, Tif1a, RNF82, TIF1A
7	TRIM24	ENSG00000122779	ENST00000464210	processed_transcript	KNOWN	None	11812	None	None	138199145	138210059	1	TIF1	hTIF1, Tif1a, RNF82, TIF1A
7	TRIM24	ENSG00000122779	ENST00000493595	processed_transcript	KNOWN	None	11812	None	None	138239515	138258387	1	TIF1	hTIF1, Tif1a, RNF82, TIF1A
2	KCNG3	ENSG00000171126	ENST00000306078	protein_coding	KNOWN	CCDS1809	18306	1311	436	42669157	42721237	-1	None	Kv6.3
2	KCNG3	ENSG00000171126	ENST00000394973	protein_coding	KNOWN	CCDS42674	18306	1278	425	42669172	42721117	-1	None	Kv6.3
5	None	ENSG00000248539	ENST00000513673	lincRNA	KNOWN	None	None	None	None	37899465	37920971	-1	None	None
7	None	ENSG00000259294	ENST00000560499	antisense	KNOWN	None	None	None	None	101465527	101468009	-1	None	None
8	None	ENSG00000167912	ENST00000523683	antisense	KNOWN	None	None	None	None	60031599	60032590	1	None	None
8	None	ENSG00000167912	ENST00000518993	antisense	KNOWN	None	None	None	None	60031777	60033905	1	None	None
8	None	ENSG00000167912	ENST00000517898	antisense	KNOWN	None	None	None	None	60032505	60033874	1	None	None
7	None	ENSG00000272219	ENST00000606640	sense_intronic	KNOWN	None	None	None	None	101603396	101605174	1	None	None
5	None	ENSG00000250032	ENST00000510938	lincRNA	KNOWN	None	None	None	None	37939467	37948057	-1	None	None
17	RARA	ENSG00000131759	ENST00000577646	protein_coding	KNOWN	None	9864	199	65	38465444	38504588	1	None	RAR, NR1B1
17	RARA	ENSG00000131759	ENST00000254066	protein_coding	KNOWN	CCDS11366	9864	1389	462	38465446	38513048	1	None	RAR, NR1B1
17	RARA	ENSG00000131759	ENST00000394089	protein_coding	KNOWN	CCDS11366	9864	1389	462	38474533	38512583	1	None	RAR, NR1B1
17	RARA	ENSG00000131759	ENST00000425707	protein_coding	NOVEL	CCDS45671	9864	1098	365	38474537	38513094	1	None	RAR, NR1B1
17	RARA	ENSG00000131759	ENST00000582914	processed_transcript	KNOWN	None	9864	None	None	38479243	38487420	1	None	RAR, NR1B1
17	RARA	ENSG00000131759	ENST00000394086	protein_coding	PUTATIVE	None	9864	1437	478	38497640	38513047	1	None	RAR, NR1B1
17	RARA	ENSG00000131759	ENST00000394081	protein_coding	KNOWN	CCDS42317	9864	1374	457	38498615	38513047	1	None	RAR, NR1B1
17	RARA	ENSG00000131759	ENST00000579727	processed_transcript	KNOWN	None	9864	None	None	38498651	38506070	1	None	RAR, NR1B1
17	RARA	ENSG00000131759	ENST00000475125	protein_coding	PUTATIVE	None	9864	558	185	38501493	38510661	1	None	RAR, NR1B1
17	RARA	ENSG00000131759	ENST00000420042	processed_transcript	KNOWN	None	9864	None	None	38507639	38512465	1	None	RAR, NR1B1
16	None	ENSG00000257403	ENST00000549658	unprocessed_pseudogene	KNOWN	None	None	None	None	21358460	21363459	1	None	None
6	RNU6-302P	ENSG00000202119	ENST00000365249	snRNA	KNOWN	None	47265	None	None	151260358	151260464	1	None	None
5	None	ENSG00000251518	ENST00000503870	lincRNA	KNOWN	None	None	None	None	37948593	37951157	1	None	None
6	ABCF1	ENSG00000204574	ENST00000326195	protein_coding	KNOWN	CCDS34380	70	2538	845	30539153	30559309	1	ABC50	EST123147
6	ABCF1	ENSG00000204574	ENST00000376545	protein_coding	KNOWN	CCDS34381	70	2424	807	30539170	30559090	1	ABC50	EST123147
6	ABCF1	ENSG00000204574	ENST00000441867	protein_coding	NOVEL	None	70	1019	338	30539210	30551485	1	ABC50	EST123147
6	ABCF1	ENSG00000204574	ENST00000468958	protein_coding	PUTATIVE	None	70	316	104	30539219	30548225	1	ABC50	EST123147
6	ABCF1	ENSG00000204574	ENST00000542772	retained_intron	KNOWN	None	70	None	None	30545904	30546271	1	ABC50	EST123147
6	ABCF1	ENSG00000204574	ENST00000475993	nonsense_mediated_decay	KNOWN	None	70	1789	595	30550242	30564956	1	ABC50	EST123147
6	ABCF1	ENSG00000204574	ENST00000479542	retained_intron	KNOWN	None	70	None	None	30557206	30558520	1	ABC50	EST123147
6	ABCF1	ENSG00000204574	ENST00000396515	protein_coding	KNOWN	None	70	717	238	30539170	30559307	1	ABC50	EST123147
7	None	ENSG00000272544	ENST00000606465	sense_intronic	KNOWN	None	None	None	None	101676303	101677447	1	None	None
19	GTPBP3	ENSG00000130299	ENST00000361619	protein_coding	KNOWN	CCDS56088	14880	1545	514	17445729	17452777	1	None	MSS1, THDF1, GTPBG3, MTGP1, FLJ14700
19	GTPBP3	ENSG00000130299	ENST00000598532	processed_transcript	PUTATIVE	None	14880	None	None	17445809	17448069	1	None	MSS1, THDF1, GTPBG3, MTGP1, FLJ14700
19	GTPBP3	ENSG00000130299	ENST00000601213	nonsense_mediated_decay	KNOWN	None	14880	378	125	17445809	17449484	1	None	MSS1, THDF1, GTPBG3, MTGP1, FLJ14700
19	GTPBP3	ENSG00000130299	ENST00000595381	processed_transcript	PUTATIVE	None	14880	None	None	17447495	17448157	1	None	MSS1, THDF1, GTPBG3, MTGP1, FLJ14700
19	GTPBP3	ENSG00000130299	ENST00000594345	processed_transcript	KNOWN	None	14880	None	None	17447501	17449550	1	None	MSS1, THDF1, GTPBG3, MTGP1, FLJ14700
19	GTPBP3	ENSG00000130299	ENST00000598038	processed_transcript	KNOWN	None	14880	None	None	17447533	17453539	1	None	MSS1, THDF1, GTPBG3, MTGP1, FLJ14700
19	GTPBP3	ENSG00000130299	ENST00000595951	processed_transcript	PUTATIVE	None	14880	None	None	17447537	17448784	1	None	MSS1, THDF1, GTPBG3, MTGP1, FLJ14700
19	GTPBP3	ENSG00000130299	ENST00000600995	processed_transcript	KNOWN	None	14880	None	None	17447537	17449517	1	None	MSS1, THDF1, GTPBG3, MTGP1, FLJ14700
19	GTPBP3	ENSG00000130299	ENST00000596941	processed_transcript	KNOWN	None	14880	None	None	17447682	17449528	1	None	MSS1, THDF1, GTPBG3, MTGP1, FLJ14700
19	GTPBP3	ENSG00000130299	ENST00000596218	processed_transcript	KNOWN	None	14880	None	None	17447782	17449824	1	None	MSS1, THDF1, GTPBG3, MTGP1, FLJ14700
19	GTPBP3	ENSG00000130299	ENST00000599429	retained_intron	KNOWN	None	14880	None	None	17448326	17449260	1	None	MSS1, THDF1, GTPBG3, MTGP1, FLJ14700
19	GTPBP3	ENSG00000130299	ENST00000324894	protein_coding	KNOWN	CCDS32951	14880	1479	492	17448353	17453544	1	None	MSS1, THDF1, GTPBG3, MTGP1, FLJ14700
19	GTPBP3	ENSG00000130299	ENST00000358792	protein_coding	KNOWN	CCDS32950	14880	1575	524	17448364	17452831	1	None	MSS1, THDF1, GTPBG3, MTGP1, FLJ14700
19	GTPBP3	ENSG00000130299	ENST00000600625	protein_coding	KNOWN	CCDS59364	14880	1416	471	17448364	17453532	1	None	MSS1, THDF1, GTPBG3, MTGP1, FLJ14700
19	GTPBP3	ENSG00000130299	ENST00000601261	retained_intron	KNOWN	None	14880	None	None	17448368	17449491	1	None	MSS1, THDF1, GTPBG3, MTGP1, FLJ14700
19	GTPBP3	ENSG00000130299	ENST00000593297	processed_transcript	KNOWN	None	14880	None	None	17448368	17449549	1	None	MSS1, THDF1, GTPBG3, MTGP1, FLJ14700
19	GTPBP3	ENSG00000130299	ENST00000596166	processed_transcript	PUTATIVE	None	14880	None	None	17448368	17450296	1	None	MSS1, THDF1, GTPBG3, MTGP1, FLJ14700
19	GTPBP3	ENSG00000130299	ENST00000598493	nonsense_mediated_decay	KNOWN	None	14880	456	151	17448368	17451934	1	None	MSS1, THDF1, GTPBG3, MTGP1, FLJ14700
19	GTPBP3	ENSG00000130299	ENST00000602165	nonsense_mediated_decay	KNOWN	None	14880	306	101	17448380	17449552	1	None	MSS1, THDF1, GTPBG3, MTGP1, FLJ14700
19	GTPBP3	ENSG00000130299	ENST00000596001	retained_intron	KNOWN	None	14880	None	None	17448395	17449970	1	None	MSS1, THDF1, GTPBG3, MTGP1, FLJ14700
19	GTPBP3	ENSG00000130299	ENST00000600610	nonsense_mediated_decay	KNOWN	None	14880	135	44	17448397	17450381	1	None	MSS1, THDF1, GTPBG3, MTGP1, FLJ14700
19	GTPBP3	ENSG00000130299	ENST00000594018	nonsense_mediated_decay	KNOWN	None	14880	684	227	17448401	17451865	1	None	MSS1, THDF1, GTPBG3, MTGP1, FLJ14700
19	GTPBP3	ENSG00000130299	ENST00000599329	retained_intron	KNOWN	None	14880	None	None	17448427	17449242	1	None	MSS1, THDF1, GTPBG3, MTGP1, FLJ14700
19	GTPBP3	ENSG00000130299	ENST00000601983	retained_intron	KNOWN	None	14880	None	None	17449005	17449953	1	None	MSS1, THDF1, GTPBG3, MTGP1, FLJ14700
19	GTPBP3	ENSG00000130299	ENST00000602056	retained_intron	KNOWN	None	14880	None	None	17449567	17452134	1	None	MSS1, THDF1, GTPBG3, MTGP1, FLJ14700
19	GTPBP3	ENSG00000130299	ENST00000594703	retained_intron	KNOWN	None	14880	None	None	17449569	17450288	1	None	MSS1, THDF1, GTPBG3, MTGP1, FLJ14700
19	GTPBP3	ENSG00000130299	ENST00000596125	retained_intron	KNOWN	None	14880	None	None	17450198	17452440	1	None	MSS1, THDF1, GTPBG3, MTGP1, FLJ14700
19	GTPBP3	ENSG00000130299	ENST00000595194	retained_intron	KNOWN	None	14880	None	None	17451755	17452473	1	None	MSS1, THDF1, GTPBG3, MTGP1, FLJ14700
1	None	ENSG00000241326	ENST00000413148	sense_intronic	KNOWN	None	None	None	None	10043199	10044626	1	None	None
6	None	ENSG00000221469	ENST00000408542	miRNA	NOVEL	None	None	None	None	151361052	151361107	-1	None	None
17	PLEKHM1	ENSG00000225190	ENST00000430334	protein_coding	KNOWN	CCDS32671	29017	3171	1056	43513266	43568110	-1	None	KIAA0356
17	PLEKHM1	ENSG00000225190	ENST00000580404	processed_transcript	KNOWN	None	29017	None	None	43513269	43523639	-1	None	KIAA0356
17	PLEKHM1	ENSG00000225190	ENST00000579197	nonsense_mediated_decay	KNOWN	None	29017	192	63	43513270	43568094	-1	None	KIAA0356
17	PLEKHM1	ENSG00000225190	ENST00000581448	nonsense_mediated_decay	KNOWN	None	29017	1008	335	43514837	43568095	-1	None	KIAA0356
17	PLEKHM1	ENSG00000225190	ENST00000591580	protein_coding	NOVEL	None	29017	341	112	43514915	43522899	-1	None	KIAA0356
17	PLEKHM1	ENSG00000225190	ENST00000579131	processed_transcript	KNOWN	None	29017	None	None	43515282	43518425	-1	None	KIAA0356
17	PLEKHM1	ENSG00000225190	ENST00000585506	retained_intron	KNOWN	None	29017	None	None	43516880	43517739	-1	None	KIAA0356
17	PLEKHM1	ENSG00000225190	ENST00000590991	nonsense_mediated_decay	KNOWN	None	29017	138	45	43516912	43522873	-1	None	KIAA0356
17	PLEKHM1	ENSG00000225190	ENST00000583150	processed_transcript	KNOWN	None	29017	None	None	43516981	43525478	-1	None	KIAA0356
17	PLEKHM1	ENSG00000225190	ENST00000446609	nonsense_mediated_decay	KNOWN	None	29017	192	63	43517529	43565224	-1	None	KIAA0356
17	PLEKHM1	ENSG00000225190	ENST00000582035	retained_intron	KNOWN	None	29017	None	None	43530304	43532137	-1	None	KIAA0356
17	PLEKHM1	ENSG00000225190	ENST00000580205	processed_transcript	KNOWN	None	29017	None	None	43530304	43537798	-1	None	KIAA0356
17	PLEKHM1	ENSG00000225190	ENST00000582119	processed_transcript	KNOWN	None	29017	None	None	43545612	43565228	-1	None	KIAA0356
17	PLEKHM1	ENSG00000225190	ENST00000584420	protein_coding	PUTATIVE	None	29017	422	139	43552577	43568104	-1	None	KIAA0356
17	PLEKHM1	ENSG00000225190	ENST00000589780	protein_coding	PUTATIVE	None	29017	456	151	43552732	43568107	-1	None	KIAA0356
17	PLEKHM1	ENSG00000225190	ENST00000586562	processed_transcript	KNOWN	None	29017	None	None	43552963	43568115	-1	None	KIAA0356
17	PLEKHM1	ENSG00000225190	ENST00000586084	nonsense_mediated_decay	KNOWN	None	29017	300	99	43553062	43568107	-1	None	KIAA0356
17	PLEKHM1	ENSG00000225190	ENST00000581932	retained_intron	KNOWN	None	29017	None	None	43554440	43559891	-1	None	KIAA0356
17	PLEKHM1	ENSG00000225190	ENST00000421073	protein_coding	KNOWN	None	29017	2904	967	43513270	43568094	-1	None	KIAA0356
5	None	ENSG00000248533	ENST00000506429	lincRNA	KNOWN	None	None	None	None	37953504	37967066	1	None	None
7	None	ENSG00000230110	ENST00000548367	pseudogene	NOVEL	None	None	None	None	101804400	101804617	-1	None	None
1	OLFML2B	ENSG00000162745	ENST00000533556	nonsense_mediated_decay	KNOWN	None	24558	273	90	161952982	161953737	-1	None	DKFZP586L151
1	OLFML2B	ENSG00000162745	ENST00000294794	protein_coding	KNOWN	CCDS1236	24558	2253	750	161952982	161993644	-1	None	DKFZP586L151
1	OLFML2B	ENSG00000162745	ENST00000525589	nonsense_mediated_decay	KNOWN	None	24558	267	88	161952983	161953731	-1	None	DKFZP586L151
1	OLFML2B	ENSG00000162745	ENST00000367940	protein_coding	NOVEL	None	24558	2256	751	161953246	161993430	-1	None	DKFZP586L151
1	OLFML2B	ENSG00000162745	ENST00000367938	protein_coding	KNOWN	None	24558	702	233	161953343	161955022	-1	None	DKFZP586L151
6	None	ENSG00000232290	ENST00000445833	antisense	KNOWN	None	None	None	None	151376033	151377193	-1	None	None
2	HEATR5B	ENSG00000008869	ENST00000425467	protein_coding	PUTATIVE	None	29273	348	115	37195526	37216002	-1	None	KIAA1414, DKFZp686P15184
2	HEATR5B	ENSG00000008869	ENST00000233099	protein_coding	KNOWN	CCDS33181	29273	6216	2071	37208040	37311485	-1	None	KIAA1414, DKFZp686P15184
2	HEATR5B	ENSG00000008869	ENST00000471051	retained_intron	KNOWN	None	29273	None	None	37235311	37241138	-1	None	KIAA1414, DKFZp686P15184
2	HEATR5B	ENSG00000008869	ENST00000467978	retained_intron	KNOWN	None	29273	None	None	37268167	37283627	-1	None	KIAA1414, DKFZp686P15184
2	HEATR5B	ENSG00000008869	ENST00000478810	retained_intron	KNOWN	None	29273	None	None	37299355	37303307	-1	None	KIAA1414, DKFZp686P15184
2	HEATR5B	ENSG00000008869	ENST00000354531	protein_coding	KNOWN	None	29273	5949	1982	37208153	37311485	-1	None	KIAA1414, DKFZp686P15184
22	RN7SL704P	ENSG00000241693	ENST00000478699	misc_RNA	KNOWN	None	46720	None	None	38627726	38627999	1	None	None
6	None	ENSG00000223598	ENST00000415477	antisense	KNOWN	None	None	None	None	151409239	151549582	-1	None	None
22	None	ENSG00000265311	ENST00000579493	miRNA	NOVEL	None	None	None	None	38670345	38670430	-1	None	None
7	None	ENSG00000258040	ENST00000549745	pseudogene	NOVEL	None	None	None	None	101805576	101806076	1	None	None
HG883_PATCH	VTN	ENSG00000262062	ENST00000573054	protein_coding	KNOWN	None	12724	1437	478	26694297	26697843	-1	None	VN
HG883_PATCH	VTN	ENSG00000262062	ENST00000575551	retained_intron	KNOWN	None	12724	None	None	26694889	26695958	-1	None	VN
HG883_PATCH	VTN	ENSG00000262062	ENST00000572672	protein_coding	KNOWN	None	12724	354	117	26696703	26700110	-1	None	VN
3	ATP1B3	ENSG00000069849	ENST00000475483	protein_coding	PUTATIVE	None	806	401	132	141594966	141634852	1	None	FLJ29027, CD298
3	ATP1B3	ENSG00000069849	ENST00000286371	protein_coding	KNOWN	CCDS3121	806	840	279	141595456	141645326	1	None	FLJ29027, CD298
3	ATP1B3	ENSG00000069849	ENST00000465172	nonsense_mediated_decay	KNOWN	None	806	135	44	141595458	141645356	1	None	FLJ29027, CD298
3	ATP1B3	ENSG00000069849	ENST00000466678	nonsense_mediated_decay	KNOWN	None	806	131	42	141595648	141645323	1	None	FLJ29027, CD298
3	ATP1B3	ENSG00000069849	ENST00000462082	protein_coding	PUTATIVE	None	806	270	89	141595697	141645024	1	None	FLJ29027, CD298
3	ATP1B3	ENSG00000069849	ENST00000495216	protein_coding	PUTATIVE	None	806	359	118	141596371	141632548	1	None	FLJ29027, CD298
3	ATP1B3	ENSG00000069849	ENST00000482635	retained_intron	KNOWN	None	806	None	None	141622570	141641022	1	None	FLJ29027, CD298
3	ATP1B3	ENSG00000069849	ENST00000487199	nonsense_mediated_decay	KNOWN	None	806	84	27	141634812	141644570	1	None	FLJ29027, CD298
3	ATP1B3	ENSG00000069849	ENST00000484727	processed_transcript	PUTATIVE	None	806	None	None	141640376	141644827	1	None	FLJ29027, CD298
3	ATP1B3	ENSG00000069849	ENST00000486782	retained_intron	KNOWN	None	806	None	None	141640790	141644485	1	None	FLJ29027, CD298
3	ATP1B3	ENSG00000069849	ENST00000539728	protein_coding	KNOWN	None	806	582	193	141595485	141645356	1	None	FLJ29027, CD298
7	None	ENSG00000256295	ENST00000544012	pseudogene	NOVEL	None	None	None	None	101830099	101830319	-1	None	None
14	ASB2	ENSG00000100628	ENST00000555019	protein_coding	NOVEL	CCDS55940	16012	1908	635	94400499	94443137	-1	None	ASB-2
14	ASB2	ENSG00000100628	ENST00000315988	protein_coding	KNOWN	CCDS9915	16012	1764	587	94400512	94423767	-1	None	ASB-2
14	ASB2	ENSG00000100628	ENST00000553883	retained_intron	KNOWN	None	16012	None	None	94400513	94406841	-1	None	ASB-2
14	ASB2	ENSG00000100628	ENST00000555507	protein_coding	PUTATIVE	None	16012	1444	480	94404065	94421925	-1	None	ASB-2
14	ASB2	ENSG00000100628	ENST00000556337	processed_transcript	KNOWN	None	16012	None	None	94405681	94443076	-1	None	ASB-2
14	ASB2	ENSG00000100628	ENST00000556062	protein_coding	NOVEL	None	16012	407	134	94417356	94421617	-1	None	ASB-2
14	ASB2	ENSG00000100628	ENST00000555287	protein_coding	PUTATIVE	None	16012	335	110	94419751	94443065	-1	None	ASB-2
14	ASB2	ENSG00000100628	ENST00000556793	retained_intron	KNOWN	None	16012	None	None	94420537	94423395	-1	None	ASB-2
14	ASB2	ENSG00000100628	ENST00000557613	protein_coding	PUTATIVE	None	16012	367	121	94420669	94440429	-1	None	ASB-2
14	ASB2	ENSG00000100628	ENST00000555374	processed_transcript	PUTATIVE	None	16012	None	None	94434601	94443085	-1	None	ASB-2
12	ASCL4	ENSG00000187855	ENST00000342331	protein_coding	KNOWN	CCDS31894	24311	522	173	108168162	108170421	1	None	HASH4, bHLHa44
15	None	ENSG00000260359	ENST00000565106	lincRNA	KNOWN	None	None	None	None	95024040	95027181	1	None	None
12	DDX54	ENSG00000123064	ENST00000314045	protein_coding	KNOWN	CCDS44984	20084	2649	882	113594979	113623284	-1	None	MGC2835, APR-5, DP97
12	DDX54	ENSG00000123064	ENST00000306014	protein_coding	KNOWN	CCDS31907	20084	2646	881	113594979	113623284	-1	None	MGC2835, APR-5, DP97
12	DDX54	ENSG00000123064	ENST00000549271	processed_transcript	PUTATIVE	None	20084	None	None	113596380	113599295	-1	None	MGC2835, APR-5, DP97
12	DDX54	ENSG00000123064	ENST00000551912	processed_transcript	PUTATIVE	None	20084	None	None	113596647	113599261	-1	None	MGC2835, APR-5, DP97
12	DDX54	ENSG00000123064	ENST00000546898	protein_coding	PUTATIVE	None	20084	479	158	113599726	113603677	-1	None	MGC2835, APR-5, DP97
12	DDX54	ENSG00000123064	ENST00000550016	processed_transcript	KNOWN	None	20084	None	None	113599756	113603483	-1	None	MGC2835, APR-5, DP97
12	DDX54	ENSG00000123064	ENST00000548786	retained_intron	KNOWN	None	20084	None	None	113600523	113601898	-1	None	MGC2835, APR-5, DP97
12	DDX54	ENSG00000123064	ENST00000551344	nonsense_mediated_decay	KNOWN	None	20084	247	81	113612681	113623245	-1	None	MGC2835, APR-5, DP97
12	DDX54	ENSG00000123064	ENST00000552375	protein_coding	PUTATIVE	None	20084	625	207	113612841	113621607	-1	None	MGC2835, APR-5, DP97
12	DDX54	ENSG00000123064	ENST00000546869	retained_intron	KNOWN	None	20084	None	None	113614633	113615168	-1	None	MGC2835, APR-5, DP97
15	None	ENSG00000259331	ENST00000560391	lincRNA	KNOWN	None	None	None	None	95143243	95144050	1	None	None
1	None	ENSG00000225786	ENST00000450492	pseudogene	NOVEL	None	None	None	None	10078085	10078592	-1	None	None
6	None	ENSG00000219747	ENST00000405720	processed_pseudogene	KNOWN	None	None	None	None	151420665	151421069	1	None	None
15	None	ENSG00000260521	ENST00000565166	processed_pseudogene	KNOWN	None	None	None	None	95398703	95400143	1	None	None
22	SLC25A17	ENSG00000100372	ENST00000263255	nonsense_mediated_decay	KNOWN	None	10987	192	63	41165634	41215334	-1	None	PMP34
22	SLC25A17	ENSG00000100372	ENST00000491545	processed_transcript	KNOWN	None	10987	None	None	41165634	41215342	-1	None	PMP34
22	SLC25A17	ENSG00000100372	ENST00000435456	protein_coding	KNOWN	CCDS14005	10987	924	307	41165634	41215386	-1	None	PMP34
22	SLC25A17	ENSG00000100372	ENST00000402844	protein_coding	PUTATIVE	None	10987	678	225	41166092	41176198	-1	None	PMP34
22	SLC25A17	ENSG00000100372	ENST00000447566	nonsense_mediated_decay	KNOWN	None	10987	132	43	41166493	41215354	-1	None	PMP34
22	SLC25A17	ENSG00000100372	ENST00000420970	nonsense_mediated_decay	KNOWN	None	10987	720	239	41166899	41215330	-1	None	PMP34
22	SLC25A17	ENSG00000100372	ENST00000430221	nonsense_mediated_decay	KNOWN	None	10987	150	49	41169941	41215320	-1	None	PMP34
22	SLC25A17	ENSG00000100372	ENST00000427084	nonsense_mediated_decay	KNOWN	None	10987	171	56	41173064	41215371	-1	None	PMP34
22	SLC25A17	ENSG00000100372	ENST00000458600	nonsense_mediated_decay	KNOWN	None	10987	138	45	41173232	41215403	-1	None	PMP34
22	SLC25A17	ENSG00000100372	ENST00000443810	nonsense_mediated_decay	KNOWN	None	10987	138	45	41173303	41215384	-1	None	PMP34
22	SLC25A17	ENSG00000100372	ENST00000412879	nonsense_mediated_decay	KNOWN	None	10987	147	48	41173342	41215393	-1	None	PMP34
22	SLC25A17	ENSG00000100372	ENST00000426396	nonsense_mediated_decay	KNOWN	None	10987	447	148	41173364	41215336	-1	None	PMP34
22	SLC25A17	ENSG00000100372	ENST00000434193	nonsense_mediated_decay	KNOWN	None	10987	138	45	41175038	41215341	-1	None	PMP34
22	SLC25A17	ENSG00000100372	ENST00000478550	processed_transcript	KNOWN	None	10987	None	None	41175066	41176259	-1	None	PMP34
22	SLC25A17	ENSG00000100372	ENST00000449676	nonsense_mediated_decay	KNOWN	None	10987	138	45	41175082	41215350	-1	None	PMP34
22	SLC25A17	ENSG00000100372	ENST00000434185	protein_coding	PUTATIVE	None	10987	276	91	41188536	41215379	-1	None	PMP34
22	SLC25A17	ENSG00000100372	ENST00000542412	protein_coding	KNOWN	None	10987	705	234	41166805	41215291	-1	None	PMP34
22	SLC25A17	ENSG00000100372	ENST00000544408	protein_coding	KNOWN	None	10987	813	270	41166371	41215313	-1	None	PMP34
6	None	ENSG00000231883	ENST00000431947	lincRNA	KNOWN	None	None	None	None	151517816	151518773	-1	None	None
8	None	ENSG00000261139	ENST00000569326	retained_intron	KNOWN	None	None	None	None	145721763	145725663	-1	None	None
7	CALU	ENSG00000128595	ENST00000535011	protein_coding	KNOWN	CCDS56508	1458	675	224	128379346	128411531	1	None	None
7	CALU	ENSG00000128595	ENST00000542996	protein_coding	KNOWN	CCDS56507	1458	972	323	128379346	128411531	1	None	None
7	CALU	ENSG00000128595	ENST00000249364	protein_coding	KNOWN	CCDS5805	1458	948	315	128379396	128411528	1	None	None
7	CALU	ENSG00000128595	ENST00000449187	protein_coding	KNOWN	CCDS47703	1458	948	315	128379417	128410630	1	None	None
7	CALU	ENSG00000128595	ENST00000479257	protein_coding	KNOWN	CCDS56506	1458	972	323	128379458	128409990	1	None	None
7	CALU	ENSG00000128595	ENST00000493278	protein_coding	KNOWN	None	1458	442	146	128399016	128411861	1	None	None
7	CALU	ENSG00000128595	ENST00000535623	protein_coding	KNOWN	None	1458	444	147	128379346	128411530	1	None	None
7	CALU	ENSG00000128595	ENST00000538546	protein_coding	KNOWN	None	1458	495	164	128379346	128411530	1	None	None
7	RNU6-912P	ENSG00000200670	ENST00000363800	snRNA	KNOWN	None	47875	None	None	65279659	65279762	1	None	None
16	None	ENSG00000261733	ENST00000565840	processed_pseudogene	KNOWN	None	None	None	None	34763493	34763688	-1	None	None
15	None	ENSG00000270017	ENST00000602330	lincRNA	KNOWN	None	None	None	None	95398815	95400240	-1	None	None
7	None	ENSG00000236529	ENST00000447086	processed_pseudogene	KNOWN	None	None	None	None	65305199	65305583	1	None	None
19	CILP2	ENSG00000160161	ENST00000291495	protein_coding	KNOWN	CCDS12405	24213	3471	1156	19649057	19657468	1	None	MGC45771
19	CILP2	ENSG00000160161	ENST00000586018	protein_coding	NOVEL	None	24213	3489	1162	19649057	19657468	1	None	MGC45771
19	CILP2	ENSG00000160161	ENST00000588333	retained_intron	KNOWN	None	24213	None	None	19651468	19653466	1	None	MGC45771
7	RNU6-973P	ENSG00000201560	ENST00000364690	snRNA	KNOWN	None	47936	None	None	65324647	65324753	-1	None	None
16	None	ENSG00000259963	ENST00000567192	processed_pseudogene	KNOWN	None	None	None	None	6771787	6771961	1	None	None
7	None	ENSG00000224365	ENST00000429409	processed_pseudogene	KNOWN	None	None	None	None	65469004	65469124	1	None	None
22	None	ENSG00000244627	ENST00000428294	processed_transcript	KNOWN	None	None	None	None	38731767	38794921	-1	None	None
22	None	ENSG00000244627	ENST00000428606	processed_transcript	KNOWN	None	None	None	None	38732342	38740439	-1	None	None
22	None	ENSG00000244627	ENST00000407491	processed_transcript	KNOWN	None	None	None	None	38740537	38794878	-1	None	None
22	None	ENSG00000244627	ENST00000443042	processed_transcript	KNOWN	None	None	None	None	38740629	38794878	-1	None	None
22	None	ENSG00000244627	ENST00000457665	processed_transcript	KNOWN	None	None	None	None	38746382	38794865	-1	None	None
22	None	ENSG00000244627	ENST00000381645	processed_transcript	KNOWN	None	None	None	None	38756404	38793450	-1	None	None
22	None	ENSG00000244627	ENST00000443658	processed_transcript	KNOWN	None	None	None	None	38757145	38794934	-1	None	None
22	None	ENSG00000244627	ENST00000381646	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	38757386	38780101	-1	None	None
22	None	ENSG00000244627	ENST00000455209	processed_transcript	KNOWN	None	None	None	None	38764903	38794926	-1	None	None
22	None	ENSG00000244627	ENST00000454577	processed_transcript	KNOWN	None	None	None	None	38776156	38794925	-1	None	None
1	None	ENSG00000224340	ENST00000456484	processed_pseudogene	KNOWN	None	None	None	None	10114503	10114839	-1	None	None
HSCHR6_MHC_SSTO	TRIM26	ENSG00000234046	ENST00000472707	retained_intron	KNOWN	None	12962	None	None	30141782	30147717	-1	ZNF173	RNF95
HSCHR6_MHC_SSTO	TRIM26	ENSG00000234046	ENST00000422349	protein_coding	KNOWN	None	12962	1620	539	30141782	30162091	-1	ZNF173	RNF95
HSCHR6_MHC_SSTO	TRIM26	ENSG00000234046	ENST00000445259	protein_coding	KNOWN	None	12962	1620	539	30141782	30170697	-1	ZNF173	RNF95
HSCHR6_MHC_SSTO	TRIM26	ENSG00000234046	ENST00000427535	protein_coding	KNOWN	None	12962	1620	539	30141782	30170758	-1	ZNF173	RNF95
HSCHR6_MHC_SSTO	TRIM26	ENSG00000234046	ENST00000423901	protein_coding	KNOWN	None	12962	745	247	30153861	30170750	-1	ZNF173	RNF95
HSCHR6_MHC_SSTO	TRIM26	ENSG00000234046	ENST00000444979	protein_coding	KNOWN	None	12962	477	158	30153904	30162047	-1	ZNF173	RNF95
HSCHR6_MHC_SSTO	TRIM26	ENSG00000234046	ENST00000415789	protein_coding	KNOWN	None	12962	472	156	30155816	30170716	-1	ZNF173	RNF95
HSCHR6_MHC_SSTO	TRIM26	ENSG00000234046	ENST00000447942	protein_coding	KNOWN	None	12962	366	121	30156063	30170697	-1	ZNF173	RNF95
HSCHR6_MHC_SSTO	TRIM26	ENSG00000234046	ENST00000477353	processed_transcript	KNOWN	None	12962	None	None	30156089	30170696	-1	ZNF173	RNF95
5	PTMAP2	ENSG00000197744	ENST00000397627	processed_pseudogene	KNOWN	None	9625	None	None	118309491	118309817	1	None	None
16	RARRES2P8	ENSG00000259996	ENST00000566335	processed_pseudogene	KNOWN	None	48707	None	None	34777650	34778016	-1	None	None
7	None	ENSG00000229886	ENST00000411872	processed_pseudogene	KNOWN	None	None	None	None	65490113	65496531	-1	None	None
5	None	ENSG00000249494	ENST00000506486	antisense	KNOWN	None	None	None	None	118342042	118373363	-1	None	None
5	None	ENSG00000249494	ENST00000504820	antisense	KNOWN	None	None	None	None	118347498	118406585	-1	None	None
5	None	ENSG00000249494	ENST00000510128	antisense	KNOWN	None	None	None	None	118355610	118406556	-1	None	None
10	COL17A1	ENSG00000065618	ENST00000353479	protein_coding	KNOWN	CCDS7554	2194	4494	1497	105791044	105845760	-1	BPAG2	BP180
10	COL17A1	ENSG00000065618	ENST00000369733	protein_coding	PUTATIVE	None	2194	4248	1415	105791044	105845760	-1	BPAG2	BP180
10	COL17A1	ENSG00000065618	ENST00000433822	protein_coding	KNOWN	None	2194	200	65	105791046	105792726	-1	BPAG2	BP180
10	COL17A1	ENSG00000065618	ENST00000480127	processed_transcript	PUTATIVE	None	2194	None	None	105814934	105815733	-1	BPAG2	BP180
10	COL17A1	ENSG00000065618	ENST00000393211	protein_coding	PUTATIVE	None	2194	1254	417	105819075	105845536	-1	BPAG2	BP180
10	COL17A1	ENSG00000065618	ENST00000488320	retained_intron	KNOWN	None	2194	None	None	105819443	105824306	-1	BPAG2	BP180
10	COL17A1	ENSG00000065618	ENST00000483876	retained_intron	KNOWN	None	2194	None	None	105830219	105840412	-1	BPAG2	BP180
4	None	ENSG00000248237	ENST00000504389	processed_pseudogene	KNOWN	None	None	None	None	61649833	61650414	1	None	None
3	SYNPR	ENSG00000163630	ENST00000478456	processed_transcript	KNOWN	None	16507	None	None	63213991	63542372	1	None	MGC26651, SPO
3	SYNPR	ENSG00000163630	ENST00000478300	protein_coding	KNOWN	CCDS46859	16507	858	285	63263799	63602597	1	None	MGC26651, SPO
3	SYNPR	ENSG00000163630	ENST00000450542	nonsense_mediated_decay	KNOWN	None	16507	105	34	63263994	63601212	1	None	MGC26651, SPO
3	SYNPR	ENSG00000163630	ENST00000468110	nonsense_mediated_decay	KNOWN	None	16507	228	75	63264004	63601596	1	None	MGC26651, SPO
3	SYNPR	ENSG00000163630	ENST00000496889	processed_transcript	KNOWN	None	16507	None	None	63264327	63542325	1	None	MGC26651, SPO
3	SYNPR	ENSG00000163630	ENST00000460142	processed_transcript	KNOWN	None	16507	None	None	63264342	63542417	1	None	MGC26651, SPO
3	SYNPR	ENSG00000163630	ENST00000493532	processed_transcript	KNOWN	None	16507	None	None	63337105	63594992	1	None	MGC26651, SPO
3	SYNPR	ENSG00000163630	ENST00000467934	processed_transcript	KNOWN	None	16507	None	None	63428753	63542398	1	None	MGC26651, SPO
3	SYNPR	ENSG00000163630	ENST00000295894	protein_coding	KNOWN	CCDS46860	16507	798	265	63428753	63602597	1	None	MGC26651, SPO
3	SYNPR	ENSG00000163630	ENST00000498449	nonsense_mediated_decay	KNOWN	None	16507	168	55	63428790	63601522	1	None	MGC26651, SPO
3	SYNPR	ENSG00000163630	ENST00000472899	nonsense_mediated_decay	KNOWN	None	16507	156	51	63428986	63542417	1	None	MGC26651, SPO
3	SYNPR	ENSG00000163630	ENST00000479198	protein_coding	PUTATIVE	None	16507	609	202	63429004	63602597	1	None	MGC26651, SPO
3	SYNPR	ENSG00000163630	ENST00000478744	processed_transcript	KNOWN	None	16507	None	None	63429009	63596189	1	None	MGC26651, SPO
3	SYNPR	ENSG00000163630	ENST00000460711	protein_coding	NOVEL	None	16507	831	276	63429009	63602596	1	None	MGC26651, SPO
3	SYNPR	ENSG00000163630	ENST00000465156	protein_coding	NOVEL	None	16507	606	201	63429013	63601271	1	None	MGC26651, SPO
17	SARM1	ENSG00000004139	ENST00000379061	processed_transcript	KNOWN	None	17074	None	None	26691378	26725151	1	None	SARM, SAMD2, KIAA0524
17	SARM1	ENSG00000004139	ENST00000457710	protein_coding	NOVEL	None	17074	2073	690	26698683	26728065	1	None	SARM, SAMD2, KIAA0524
17	SARM1	ENSG00000004139	ENST00000003834	retained_intron	KNOWN	None	17074	None	None	26711689	26725179	1	None	SARM, SAMD2, KIAA0524
17	SARM1	ENSG00000004139	ENST00000582323	nonsense_mediated_decay	KNOWN	None	17074	355	117	26711845	26715413	1	None	SARM, SAMD2, KIAA0524
17	SARM1	ENSG00000004139	ENST00000578128	protein_coding	NOVEL	None	17074	772	256	26712119	26723430	1	None	SARM, SAMD2, KIAA0524
17	SARM1	ENSG00000004139	ENST00000577870	retained_intron	KNOWN	None	17074	None	None	26712450	26723217	1	None	SARM, SAMD2, KIAA0524
17	SARM1	ENSG00000004139	ENST00000580711	retained_intron	KNOWN	None	17074	None	None	26715017	26722997	1	None	SARM, SAMD2, KIAA0524
17	SARM1	ENSG00000004139	ENST00000579593	protein_coding	PUTATIVE	None	17074	323	106	26715289	26723839	1	None	SARM, SAMD2, KIAA0524
16	None	ENSG00000260994	ENST00000562369	processed_pseudogene	KNOWN	None	None	None	None	34782288	34783200	1	None	None
2	DPP10	ENSG00000175497	ENST00000436732	protein_coding	PUTATIVE	None	20823	181	59	115199876	116257145	1	None	DPRP3
2	DPP10	ENSG00000175497	ENST00000410059	protein_coding	KNOWN	CCDS46400	20823	2391	796	115199876	116603328	1	None	DPRP3
2	DPP10	ENSG00000175497	ENST00000461250	retained_intron	KNOWN	None	20823	None	None	115219154	116337819	1	None	DPRP3
2	DPP10	ENSG00000175497	ENST00000409163	protein_coding	PUTATIVE	CCDS54389	20823	2241	746	115219180	116600903	1	None	DPRP3
2	DPP10	ENSG00000175497	ENST00000492708	processed_transcript	KNOWN	None	20823	None	None	115822150	115824395	1	None	DPRP3
2	DPP10	ENSG00000175497	ENST00000393146	protein_coding	PUTATIVE	None	20823	776	257	115822249	116497405	1	None	DPRP3
2	DPP10	ENSG00000175497	ENST00000393147	protein_coding	KNOWN	CCDS54388	20823	2403	800	115919179	116599921	1	None	DPRP3
2	DPP10	ENSG00000175497	ENST00000310323	protein_coding	KNOWN	CCDS33278	20823	2370	789	115919684	116600476	1	None	DPRP3
2	DPP10	ENSG00000175497	ENST00000486885	retained_intron	KNOWN	None	20823	None	None	115919732	116283962	1	None	DPRP3
2	DPP10	ENSG00000175497	ENST00000429914	nonsense_mediated_decay	KNOWN	None	20823	183	60	115919811	116447457	1	None	DPRP3
2	DPP10	ENSG00000175497	ENST00000419287	protein_coding	KNOWN	None	20823	291	96	115992032	116283548	1	None	DPRP3
2	DPP10	ENSG00000175497	ENST00000488208	processed_transcript	KNOWN	None	20823	None	None	116198448	116497341	1	None	DPRP3
2	DPP10	ENSG00000175497	ENST00000473362	retained_intron	KNOWN	None	20823	None	None	116572239	116594258	1	None	DPRP3
9	OGN	ENSG00000106809	ENST00000262551	protein_coding	KNOWN	CCDS6695	8126	897	298	95146249	95166841	-1	None	mimecan, OIF, SLRR3A
9	OGN	ENSG00000106809	ENST00000375561	protein_coding	KNOWN	CCDS6695	8126	897	298	95146249	95166895	-1	None	mimecan, OIF, SLRR3A
9	OGN	ENSG00000106809	ENST00000468743	processed_transcript	KNOWN	None	8126	None	None	95151923	95155434	-1	None	mimecan, OIF, SLRR3A
9	OGN	ENSG00000106809	ENST00000447356	protein_coding	KNOWN	None	8126	804	267	95152136	95166978	-1	None	mimecan, OIF, SLRR3A
7	None	ENSG00000252997	ENST00000517188	miRNA	NOVEL	None	None	None	None	65521221	65521305	-1	None	None
5	DCTN4	ENSG00000132912	ENST00000447998	protein_coding	KNOWN	CCDS4310	15518	1383	460	150088002	150138671	-1	None	None
5	DCTN4	ENSG00000132912	ENST00000424236	protein_coding	KNOWN	CCDS47311	15518	1212	403	150088310	150138082	-1	None	None
5	DCTN4	ENSG00000132912	ENST00000446090	protein_coding	KNOWN	CCDS47310	15518	1404	467	150090420	150138597	-1	None	None
5	DCTN4	ENSG00000132912	ENST00000518909	retained_intron	KNOWN	None	15518	None	None	150097838	150110872	-1	None	None
5	DCTN4	ENSG00000132912	ENST00000522625	retained_intron	KNOWN	None	15518	None	None	150110197	150111356	-1	None	None
5	DCTN4	ENSG00000132912	ENST00000521728	protein_coding	PUTATIVE	None	15518	275	90	150110626	150122721	-1	None	None
5	DCTN4	ENSG00000132912	ENST00000519552	retained_intron	KNOWN	None	15518	None	None	150110673	150113471	-1	None	None
5	DCTN4	ENSG00000132912	ENST00000519313	retained_intron	KNOWN	None	15518	None	None	150110937	150138252	-1	None	None
5	DCTN4	ENSG00000132912	ENST00000518015	protein_coding	KNOWN	None	15518	402	133	150111016	150138260	-1	None	None
5	DCTN4	ENSG00000132912	ENST00000521448	nonsense_mediated_decay	KNOWN	None	15518	261	86	150112946	150138582	-1	None	None
5	DCTN4	ENSG00000132912	ENST00000521533	protein_coding	KNOWN	None	15518	343	113	150112953	150138066	-1	None	None
5	DCTN4	ENSG00000132912	ENST00000521093	processed_transcript	KNOWN	None	15518	None	None	150112956	150138198	-1	None	None
5	DCTN4	ENSG00000132912	ENST00000520195	processed_transcript	KNOWN	None	15518	None	None	150112958	150114037	-1	None	None
5	DCTN4	ENSG00000132912	ENST00000517421	nonsense_mediated_decay	KNOWN	None	15518	261	86	150115871	150138657	-1	None	None
4	MIR548AG1	ENSG00000265829	ENST00000579932	miRNA	KNOWN	None	41625	None	None	61788337	61788402	1	None	hsa-mir-548ag-1
7	None	ENSG00000205596	ENST00000418542	processed_pseudogene	KNOWN	None	None	None	None	65535891	65536305	-1	None	None
4	RNU7-151P	ENSG00000252739	ENST00000516930	snRNA	KNOWN	None	45685	None	None	103758204	103758256	-1	None	None
4	None	ENSG00000240152	ENST00000506379	lincRNA	KNOWN	None	None	None	None	62009374	62019447	1	None	None
4	None	ENSG00000240152	ENST00000398777	lincRNA	KNOWN	None	None	None	None	62009375	62019680	1	None	None
16	RNU7-99P	ENSG00000252080	ENST00000516271	snRNA	KNOWN	None	45633	None	None	6798909	6798970	1	None	None
16	RNU6-457P	ENSG00000200869	ENST00000363999	snRNA	KNOWN	None	47420	None	None	6923900	6924006	1	None	None
16	RNU6-328P	ENSG00000212189	ENST00000390887	snRNA	KNOWN	None	47291	None	None	7054008	7054113	-1	None	None
16	None	ENSG00000240419	ENST00000495947	processed_pseudogene	KNOWN	None	None	None	None	7176294	7176640	-1	None	None
9	POLE3	ENSG00000148229	ENST00000479871	processed_transcript	KNOWN	None	13546	None	None	116169515	116172623	-1	None	CHRAC17, Ybl1, p17, CHARAC17
9	POLE3	ENSG00000148229	ENST00000374169	protein_coding	KNOWN	CCDS6795	13546	444	147	116169515	116172662	-1	None	CHRAC17, Ybl1, p17, CHARAC17
9	POLE3	ENSG00000148229	ENST00000374171	protein_coding	KNOWN	CCDS6795	13546	444	147	116169515	116172952	-1	None	CHRAC17, Ybl1, p17, CHARAC17
9	POLE3	ENSG00000148229	ENST00000475080	processed_transcript	KNOWN	None	13546	None	None	116171224	116172630	-1	None	CHRAC17, Ybl1, p17, CHARAC17
4	None	ENSG00000241261	ENST00000489069	processed_pseudogene	KNOWN	None	None	None	None	62077370	62077921	1	None	None
4	None	ENSG00000205682	ENST00000381217	lincRNA	KNOWN	None	None	None	None	62285964	62293939	-1	None	None
11	TSG101	ENSG00000074319	ENST00000536719	protein_coding	PUTATIVE	None	15971	1098	365	18489883	18548498	-1	TSG10	VPS23
11	TSG101	ENSG00000074319	ENST00000580814	nonsense_mediated_decay	KNOWN	None	15971	192	63	18490578	18503278	-1	TSG10	VPS23
11	TSG101	ENSG00000074319	ENST00000584526	nonsense_mediated_decay	KNOWN	None	15971	232	76	18496766	18503318	-1	TSG10	VPS23
11	TSG101	ENSG00000074319	ENST00000251968	protein_coding	KNOWN	CCDS7842	15971	1173	390	18501858	18548779	-1	TSG10	VPS23
11	TSG101	ENSG00000074319	ENST00000540555	retained_intron	KNOWN	None	15971	None	None	18503038	18505608	-1	TSG10	VPS23
11	TSG101	ENSG00000074319	ENST00000545247	retained_intron	KNOWN	None	15971	None	None	18505383	18548460	-1	TSG10	VPS23
11	TSG101	ENSG00000074319	ENST00000543054	retained_intron	KNOWN	None	15971	None	None	18505483	18536397	-1	TSG10	VPS23
11	TSG101	ENSG00000074319	ENST00000543087	processed_transcript	KNOWN	None	15971	None	None	18512377	18536390	-1	TSG10	VPS23
11	TSG101	ENSG00000074319	ENST00000544804	processed_transcript	KNOWN	None	15971	None	None	18524032	18548428	-1	TSG10	VPS23
11	TSG101	ENSG00000074319	ENST00000438874	processed_transcript	KNOWN	None	15971	None	None	18524090	18548446	-1	TSG10	VPS23
11	TSG101	ENSG00000074319	ENST00000542488	processed_transcript	KNOWN	None	15971	None	None	18528404	18548368	-1	TSG10	VPS23
11	TSG101	ENSG00000074319	ENST00000535077	processed_transcript	KNOWN	None	15971	None	None	18528413	18548467	-1	TSG10	VPS23
11	TSG101	ENSG00000074319	ENST00000357193	protein_coding	KNOWN	None	15971	858	285	18501860	18548472	-1	TSG10	VPS23
5	RNU6-373P	ENSG00000223179	ENST00000411247	snRNA	KNOWN	None	47336	None	None	118343266	118343363	1	None	None
16	None	ENSG00000252405	ENST00000516596	snoRNA	NOVEL	None	None	None	None	7481218	7481297	1	None	None
15	UACA	ENSG00000137831	ENST00000322954	protein_coding	KNOWN	CCDS10235	15947	4251	1416	70946893	71055932	-1	None	FLJ10128, KIAA1561
15	UACA	ENSG00000137831	ENST00000379983	protein_coding	KNOWN	CCDS32280	15947	4212	1403	70949141	70994647	-1	None	FLJ10128, KIAA1561
15	UACA	ENSG00000137831	ENST00000560441	protein_coding	PUTATIVE	None	15947	4206	1401	70949271	70994647	-1	None	FLJ10128, KIAA1561
15	UACA	ENSG00000137831	ENST00000559206	retained_intron	KNOWN	None	15947	None	None	70949273	70954035	-1	None	FLJ10128, KIAA1561
15	UACA	ENSG00000137831	ENST00000560831	processed_transcript	KNOWN	None	15947	None	None	70949274	70957283	-1	None	FLJ10128, KIAA1561
15	UACA	ENSG00000137831	ENST00000539319	protein_coding	NOVEL	None	15947	3924	1307	70949316	71055769	-1	None	FLJ10128, KIAA1561
15	UACA	ENSG00000137831	ENST00000558758	protein_coding	PUTATIVE	None	15947	1694	563	70961257	70994620	-1	None	FLJ10128, KIAA1561
15	UACA	ENSG00000137831	ENST00000559290	retained_intron	KNOWN	None	15947	None	None	70961433	70964312	-1	None	FLJ10128, KIAA1561
15	UACA	ENSG00000137831	ENST00000558308	retained_intron	KNOWN	None	15947	None	None	70964217	70979982	-1	None	FLJ10128, KIAA1561
15	UACA	ENSG00000137831	ENST00000560523	retained_intron	KNOWN	None	15947	None	None	70964217	70992005	-1	None	FLJ10128, KIAA1561
15	UACA	ENSG00000137831	ENST00000559156	retained_intron	KNOWN	None	15947	None	None	70968646	70976739	-1	None	FLJ10128, KIAA1561
15	UACA	ENSG00000137831	ENST00000560951	retained_intron	KNOWN	None	15947	None	None	70970438	70972373	-1	None	FLJ10128, KIAA1561
15	UACA	ENSG00000137831	ENST00000559183	processed_transcript	KNOWN	None	15947	None	None	70973876	70976642	-1	None	FLJ10128, KIAA1561
15	UACA	ENSG00000137831	ENST00000560167	protein_coding	PUTATIVE	None	15947	677	224	70976696	70995614	-1	None	FLJ10128, KIAA1561
5	None	ENSG00000250678	ENST00000503783	processed_pseudogene	KNOWN	None	None	None	None	118345755	118346237	1	None	None
5	ST8SIA4	ENSG00000113532	ENST00000231461	protein_coding	KNOWN	CCDS4091	10871	1080	359	100142639	100238970	-1	SIAT8D	PST, PST1
5	ST8SIA4	ENSG00000113532	ENST00000451528	protein_coding	KNOWN	CCDS47252	10871	507	168	100221015	100238918	-1	SIAT8D	PST, PST1
5	ST8SIA4	ENSG00000113532	ENST00000507360	processed_transcript	PUTATIVE	None	10871	None	None	100222056	100226586	-1	SIAT8D	PST, PST1
5	ST8SIA4	ENSG00000113532	ENST00000523381	nonsense_mediated_decay	KNOWN	None	10871	141	46	100231366	100238928	-1	SIAT8D	PST, PST1
21	OLIG1	ENSG00000184221	ENST00000382348	protein_coding	KNOWN	CCDS42920	16983	816	271	34442450	34444726	1	None	BHLHB6, bHLHe21
21	OLIG1	ENSG00000184221	ENST00000426947	protein_coding	KNOWN	None	16983	98	31	34443271	34444719	1	None	BHLHB6, bHLHe21
21	OLIG1	ENSG00000184221	ENST00000498799	processed_transcript	KNOWN	None	16983	None	None	34443974	34444719	1	None	BHLHB6, bHLHe21
21	OLIG1	ENSG00000184221	ENST00000333063	protein_coding	KNOWN	None	16983	768	255	34442450	34444725	1	None	BHLHB6, bHLHe21
16	None	ENSG00000261198	ENST00000565247	antisense	KNOWN	None	None	None	None	7664232	7664994	-1	None	None
12	WSCD2	ENSG00000075035	ENST00000547525	protein_coding	KNOWN	CCDS41828	29117	1698	565	108523248	108643896	1	None	KIAA0789
12	WSCD2	ENSG00000075035	ENST00000552195	processed_transcript	PUTATIVE	None	29117	None	None	108523367	108589114	1	None	KIAA0789
12	WSCD2	ENSG00000075035	ENST00000550529	processed_transcript	PUTATIVE	None	29117	None	None	108523380	108589343	1	None	KIAA0789
12	WSCD2	ENSG00000075035	ENST00000551106	processed_transcript	PUTATIVE	None	29117	None	None	108523446	108589271	1	None	KIAA0789
12	WSCD2	ENSG00000075035	ENST00000551638	protein_coding	PUTATIVE	None	29117	371	122	108523583	108620792	1	None	KIAA0789
12	WSCD2	ENSG00000075035	ENST00000546401	processed_transcript	PUTATIVE	None	29117	None	None	108525508	108589463	1	None	KIAA0789
12	WSCD2	ENSG00000075035	ENST00000332082	protein_coding	KNOWN	CCDS41828	29117	1698	565	108525528	108644314	1	None	KIAA0789
12	WSCD2	ENSG00000075035	ENST00000551057	processed_transcript	PUTATIVE	None	29117	None	None	108525557	108589224	1	None	KIAA0789
12	WSCD2	ENSG00000075035	ENST00000551734	processed_transcript	PUTATIVE	None	29117	None	None	108525558	108589360	1	None	KIAA0789
12	WSCD2	ENSG00000075035	ENST00000546811	processed_transcript	PUTATIVE	None	29117	None	None	108583123	108589090	1	None	KIAA0789
12	WSCD2	ENSG00000075035	ENST00000549903	protein_coding	KNOWN	None	29117	1758	585	108589610	108643896	1	None	KIAA0789
12	WSCD2	ENSG00000075035	ENST00000547185	processed_transcript	PUTATIVE	None	29117	None	None	108589972	108590961	1	None	KIAA0789
12	WSCD2	ENSG00000075035	ENST00000546629	retained_intron	KNOWN	None	29117	None	None	108620767	108626906	1	None	KIAA0789
12	WSCD2	ENSG00000075035	ENST00000261400	protein_coding	KNOWN	None	29117	1758	585	108523511	108644311	1	None	KIAA0789
8	None	ENSG00000243979	ENST00000391360	processed_pseudogene	KNOWN	None	None	None	None	95903467	95904335	1	None	None
5	None	ENSG00000250928	ENST00000505786	processed_pseudogene	KNOWN	None	None	None	None	118347166	118347751	1	None	None
20	PPIAP17	ENSG00000225622	ENST00000438507	processed_pseudogene	KNOWN	None	16334	None	None	16204395	16205180	-1	PPIP11	bA494B22.1
1	ALPL	ENSG00000162551	ENST00000374840	protein_coding	KNOWN	CCDS217	438	1575	524	21835865	21904905	1	HOPS	TNSALP
1	ALPL	ENSG00000162551	ENST00000468526	processed_transcript	KNOWN	None	438	None	None	21835890	21890704	1	HOPS	TNSALP
1	ALPL	ENSG00000162551	ENST00000374832	protein_coding	KNOWN	CCDS217	438	1575	524	21877772	21904505	1	HOPS	TNSALP
1	ALPL	ENSG00000162551	ENST00000374830	protein_coding	KNOWN	None	438	513	170	21896796	21904224	1	HOPS	TNSALP
1	ALPL	ENSG00000162551	ENST00000374829	protein_coding	KNOWN	None	438	513	170	21900971	21904892	1	HOPS	TNSALP
1	ALPL	ENSG00000162551	ENST00000425315	protein_coding	KNOWN	CCDS217	438	1575	524	21880575	21904902	1	HOPS	TNSALP
1	ALPL	ENSG00000162551	ENST00000539907	protein_coding	KNOWN	CCDS53274	438	1344	447	21835858	21904902	1	HOPS	TNSALP
1	ALPL	ENSG00000162551	ENST00000540617	protein_coding	KNOWN	CCDS53275	438	1410	469	21835858	21904902	1	HOPS	TNSALP
1	ZNF326	ENSG00000162664	ENST00000394583	nonsense_mediated_decay	KNOWN	None	14104	162	53	90460671	90493785	1	None	Zfp326, ZAN75, FLJ20403, ZIRD
1	ZNF326	ENSG00000162664	ENST00000340281	protein_coding	KNOWN	CCDS727	14104	1749	582	90460674	90494097	1	None	Zfp326, ZAN75, FLJ20403, ZIRD
1	ZNF326	ENSG00000162664	ENST00000361911	protein_coding	KNOWN	CCDS728	14104	213	70	90460693	90472008	1	None	Zfp326, ZAN75, FLJ20403, ZIRD
1	ZNF326	ENSG00000162664	ENST00000370447	protein_coding	NOVEL	None	14104	1482	493	90460696	90494097	1	None	Zfp326, ZAN75, FLJ20403, ZIRD
1	ZNF326	ENSG00000162664	ENST00000455342	protein_coding	KNOWN	None	14104	1131	376	90460727	90493375	1	None	Zfp326, ZAN75, FLJ20403, ZIRD
16	None	ENSG00000252138	ENST00000516329	snoRNA	NOVEL	None	None	None	None	7776843	7776953	-1	None	None
16	None	ENSG00000260289	ENST00000567103	lincRNA	KNOWN	None	None	None	None	7938491	7944397	-1	None	None
10	PNLIPRP1	ENSG00000187021	ENST00000525157	processed_transcript	KNOWN	None	9156	None	None	118349897	118353862	1	None	PLRP1
10	PNLIPRP1	ENSG00000187021	ENST00000530626	retained_intron	KNOWN	None	9156	None	None	118349934	118351654	1	None	PLRP1
10	PNLIPRP1	ENSG00000187021	ENST00000484402	retained_intron	KNOWN	None	9156	None	None	118349935	118354709	1	None	PLRP1
10	PNLIPRP1	ENSG00000187021	ENST00000470678	retained_intron	KNOWN	None	9156	None	None	118349937	118352077	1	None	PLRP1
10	PNLIPRP1	ENSG00000187021	ENST00000531984	protein_coding	KNOWN	None	9156	574	190	118349937	118355834	1	None	PLRP1
10	PNLIPRP1	ENSG00000187021	ENST00000482159	retained_intron	KNOWN	None	9156	None	None	118350471	118352700	1	None	PLRP1
10	PNLIPRP1	ENSG00000187021	ENST00000529584	retained_intron	KNOWN	None	9156	None	None	118350471	118354732	1	None	PLRP1
10	PNLIPRP1	ENSG00000187021	ENST00000531825	retained_intron	KNOWN	None	9156	None	None	118350471	118368679	1	None	PLRP1
10	PNLIPRP1	ENSG00000187021	ENST00000526223	retained_intron	KNOWN	None	9156	None	None	118350472	118368687	1	None	PLRP1
10	PNLIPRP1	ENSG00000187021	ENST00000525820	retained_intron	KNOWN	None	9156	None	None	118350472	118368687	1	None	PLRP1
10	PNLIPRP1	ENSG00000187021	ENST00000358834	protein_coding	KNOWN	CCDS7595	9156	1404	467	118350474	118368687	1	None	PLRP1
10	PNLIPRP1	ENSG00000187021	ENST00000528052	protein_coding	KNOWN	CCDS7595	9156	1404	467	118350481	118368686	1	None	PLRP1
10	PNLIPRP1	ENSG00000187021	ENST00000497792	nonsense_mediated_decay	KNOWN	None	9156	357	118	118350528	118355834	1	None	PLRP1
10	PNLIPRP1	ENSG00000187021	ENST00000530319	protein_coding	NOVEL	None	9156	557	184	118350528	118357457	1	None	PLRP1
10	PNLIPRP1	ENSG00000187021	ENST00000527980	protein_coding	NOVEL	None	9156	491	162	118350554	118357574	1	None	PLRP1
10	PNLIPRP1	ENSG00000187021	ENST00000480870	processed_transcript	KNOWN	None	9156	None	None	118350563	118354011	1	None	PLRP1
10	PNLIPRP1	ENSG00000187021	ENST00000471549	protein_coding	KNOWN	None	9156	395	130	118350592	118354306	1	None	PLRP1
10	PNLIPRP1	ENSG00000187021	ENST00000534537	protein_coding	NOVEL	None	9156	1404	467	118350642	118368683	1	None	PLRP1
10	PNLIPRP1	ENSG00000187021	ENST00000510125	processed_transcript	PUTATIVE	None	9156	None	None	118352198	118353424	1	None	PLRP1
10	PNLIPRP1	ENSG00000187021	ENST00000482833	nonsense_mediated_decay	KNOWN	None	9156	540	179	118354242	118368687	1	None	PLRP1
10	PNLIPRP1	ENSG00000187021	ENST00000534513	retained_intron	KNOWN	None	9156	None	None	118357581	118360028	1	None	PLRP1
10	PNLIPRP1	ENSG00000187021	ENST00000442761	protein_coding	KNOWN	None	9156	354	117	118350490	118353854	1	None	PLRP1
11	MS4A18	ENSG00000214782	ENST00000529108	protein_coding	PUTATIVE	None	37636	726	241	60501007	60511685	1	None	None
11	MS4A18	ENSG00000214782	ENST00000398983	protein_coding	KNOWN	None	37636	969	322	60496789	60511239	1	None	None
1	PGAM1P11	ENSG00000233623	ENST00000416729	processed_pseudogene	KNOWN	None	42464	None	None	10118729	10119706	1	None	None
5	None	ENSG00000239011	ENST00000458753	snoRNA	NOVEL	None	None	None	None	118404992	118405095	-1	None	None
10	RNU6-889P	ENSG00000252998	ENST00000517189	snRNA	KNOWN	None	47852	None	None	2140361	2140463	1	None	None
9	MIR3689D2	ENSG00000264136	ENST00000580187	miRNA	KNOWN	None	41846	None	None	137742123	137742202	-1	None	hsa-mir-3689d-2
16	None	ENSG00000222109	ENST00000410177	miRNA	NOVEL	None	None	None	None	7949340	7949433	-1	None	None
5	C5orf45	ENSG00000161010	ENST00000522663	nonsense_mediated_decay	KNOWN	None	30817	258	85	179262133	179285860	-1	None	MGC65027, MGC78537, DKFZp686L2452, LOC51149
5	C5orf45	ENSG00000161010	ENST00000518235	protein_coding	PUTATIVE	None	30817	690	229	179263634	179285806	-1	None	MGC65027, MGC78537, DKFZp686L2452, LOC51149
5	C5orf45	ENSG00000161010	ENST00000520698	protein_coding	PUTATIVE	None	30817	525	174	179263802	179285797	-1	None	MGC65027, MGC78537, DKFZp686L2452, LOC51149
5	C5orf45	ENSG00000161010	ENST00000518950	retained_intron	KNOWN	None	30817	None	None	179264143	179265255	-1	None	MGC65027, MGC78537, DKFZp686L2452, LOC51149
5	C5orf45	ENSG00000161010	ENST00000376931	protein_coding	KNOWN	CCDS34318	30817	867	288	179264266	179285808	-1	None	MGC65027, MGC78537, DKFZp686L2452, LOC51149
5	C5orf45	ENSG00000161010	ENST00000523267	processed_transcript	PUTATIVE	None	30817	None	None	179264274	179271221	-1	None	MGC65027, MGC78537, DKFZp686L2452, LOC51149
5	C5orf45	ENSG00000161010	ENST00000518219	protein_coding	PUTATIVE	None	30817	579	192	179264276	179285808	-1	None	MGC65027, MGC78537, DKFZp686L2452, LOC51149
5	C5orf45	ENSG00000161010	ENST00000523084	protein_coding	PUTATIVE	None	30817	630	209	179264276	179285834	-1	None	MGC65027, MGC78537, DKFZp686L2452, LOC51149
5	C5orf45	ENSG00000161010	ENST00000292586	protein_coding	KNOWN	CCDS34319	30817	1032	343	179264276	179285887	-1	None	MGC65027, MGC78537, DKFZp686L2452, LOC51149
5	C5orf45	ENSG00000161010	ENST00000521299	nonsense_mediated_decay	KNOWN	None	30817	249	82	179264527	179285844	-1	None	MGC65027, MGC78537, DKFZp686L2452, LOC51149
5	C5orf45	ENSG00000161010	ENST00000521333	protein_coding	PUTATIVE	None	30817	342	113	179264693	179285817	-1	None	MGC65027, MGC78537, DKFZp686L2452, LOC51149
5	C5orf45	ENSG00000161010	ENST00000520150	retained_intron	KNOWN	None	30817	None	None	179267240	179285846	-1	None	MGC65027, MGC78537, DKFZp686L2452, LOC51149
5	C5orf45	ENSG00000161010	ENST00000520900	retained_intron	KNOWN	None	30817	None	None	179267590	179271325	-1	None	MGC65027, MGC78537, DKFZp686L2452, LOC51149
5	C5orf45	ENSG00000161010	ENST00000519208	nonsense_mediated_decay	KNOWN	None	30817	249	82	179267713	179285838	-1	None	MGC65027, MGC78537, DKFZp686L2452, LOC51149
5	C5orf45	ENSG00000161010	ENST00000523737	nonsense_mediated_decay	KNOWN	None	30817	156	51	179267809	179285844	-1	None	MGC65027, MGC78537, DKFZp686L2452, LOC51149
5	C5orf45	ENSG00000161010	ENST00000520995	nonsense_mediated_decay	KNOWN	None	30817	258	85	179267921	179285839	-1	None	MGC65027, MGC78537, DKFZp686L2452, LOC51149
5	C5orf45	ENSG00000161010	ENST00000521675	retained_intron	KNOWN	None	30817	None	None	179268269	179271220	-1	None	MGC65027, MGC78537, DKFZp686L2452, LOC51149
5	C5orf45	ENSG00000161010	ENST00000524068	nonsense_mediated_decay	KNOWN	None	30817	273	90	179268908	179285809	-1	None	MGC65027, MGC78537, DKFZp686L2452, LOC51149
5	C5orf45	ENSG00000161010	ENST00000522157	nonsense_mediated_decay	KNOWN	None	30817	282	93	179269008	179285808	-1	None	MGC65027, MGC78537, DKFZp686L2452, LOC51149
5	C5orf45	ENSG00000161010	ENST00000523835	nonsense_mediated_decay	KNOWN	None	30817	192	63	179269047	179285808	-1	None	MGC65027, MGC78537, DKFZp686L2452, LOC51149
5	C5orf45	ENSG00000161010	ENST00000519213	nonsense_mediated_decay	KNOWN	None	30817	285	94	179271174	179285844	-1	None	MGC65027, MGC78537, DKFZp686L2452, LOC51149
5	C5orf45	ENSG00000161010	ENST00000519318	retained_intron	KNOWN	None	30817	None	None	179274357	179285808	-1	None	MGC65027, MGC78537, DKFZp686L2452, LOC51149
5	C5orf45	ENSG00000161010	ENST00000517338	processed_transcript	KNOWN	None	30817	None	None	179278093	179285806	-1	None	MGC65027, MGC78537, DKFZp686L2452, LOC51149
5	C5orf45	ENSG00000161010	ENST00000519398	retained_intron	KNOWN	None	30817	None	None	179280283	179289173	-1	None	MGC65027, MGC78537, DKFZp686L2452, LOC51149
5	C5orf45	ENSG00000161010	ENST00000403396	protein_coding	KNOWN	None	30817	816	271	179261436	179285860	-1	None	MGC65027, MGC78537, DKFZp686L2452, LOC51149
5	None	ENSG00000248885	ENST00000513820	processed_pseudogene	KNOWN	None	None	None	None	118462477	118464139	-1	None	None
10	None	ENSG00000227912	ENST00000421077	lincRNA	KNOWN	None	None	None	None	2208526	2211654	1	None	None
18	ARHGAP28	ENSG00000088756	ENST00000383472	protein_coding	NOVEL	None	25509	2190	729	6729717	6912154	1	None	KIAA1314, FLJ10312
18	ARHGAP28	ENSG00000088756	ENST00000583410	protein_coding	PUTATIVE	None	25509	220	72	6729945	6824963	1	None	KIAA1314, FLJ10312
18	ARHGAP28	ENSG00000088756	ENST00000584387	protein_coding	PUTATIVE	None	25509	413	136	6730042	6851106	1	None	KIAA1314, FLJ10312
18	ARHGAP28	ENSG00000088756	ENST00000532723	protein_coding	KNOWN	None	25509	351	116	6774001	6837377	1	None	KIAA1314, FLJ10312
18	ARHGAP28	ENSG00000088756	ENST00000262227	protein_coding	KNOWN	None	25509	2013	670	6788493	6898718	1	None	KIAA1314, FLJ10312
18	ARHGAP28	ENSG00000088756	ENST00000581099	protein_coding	KNOWN	None	25509	334	110	6834474	6868233	1	None	KIAA1314, FLJ10312
18	ARHGAP28	ENSG00000088756	ENST00000419673	protein_coding	KNOWN	CCDS32785	25509	1713	570	6834474	6915715	1	None	KIAA1314, FLJ10312
18	ARHGAP28	ENSG00000088756	ENST00000531294	protein_coding	NOVEL	None	25509	1698	565	6834479	6912414	1	None	KIAA1314, FLJ10312
18	ARHGAP28	ENSG00000088756	ENST00000584287	nonsense_mediated_decay	KNOWN	None	25509	174	57	6837196	6870645	1	None	KIAA1314, FLJ10312
18	ARHGAP28	ENSG00000088756	ENST00000577524	nonsense_mediated_decay	KNOWN	None	25509	174	57	6837196	6870660	1	None	KIAA1314, FLJ10312
18	ARHGAP28	ENSG00000088756	ENST00000532996	protein_coding	NOVEL	None	25509	1638	545	6850790	6898720	1	None	KIAA1314, FLJ10312
18	ARHGAP28	ENSG00000088756	ENST00000579689	protein_coding	NOVEL	None	25509	608	201	6873465	6890047	1	None	KIAA1314, FLJ10312
18	ARHGAP28	ENSG00000088756	ENST00000579245	retained_intron	KNOWN	None	25509	None	None	6873480	6882360	1	None	KIAA1314, FLJ10312
18	ARHGAP28	ENSG00000088756	ENST00000579796	retained_intron	KNOWN	None	25509	None	None	6896759	6898718	1	None	KIAA1314, FLJ10312
18	ARHGAP28	ENSG00000088756	ENST00000400091	protein_coding	KNOWN	None	25509	2169	722	6729821	6898718	1	None	KIAA1314, FLJ10312
18	ARHGAP28	ENSG00000088756	ENST00000314319	protein_coding	KNOWN	CCDS32785	25509	1713	570	6837192	6915699	1	None	KIAA1314, FLJ10312
18	ARHGAP28	ENSG00000088756	ENST00000418986	protein_coding	KNOWN	None	25509	1692	563	6837192	6898573	1	None	KIAA1314, FLJ10312
16	None	ENSG00000260003	ENST00000562361	lincRNA	KNOWN	None	None	None	None	8326265	8345702	-1	None	None
8	RECQL4	ENSG00000160957	ENST00000532237	processed_transcript	KNOWN	None	9949	None	None	145736671	145743229	-1	None	RecQ4
8	RECQL4	ENSG00000160957	ENST00000532269	processed_transcript	KNOWN	None	9949	None	None	145736674	145743210	-1	None	RecQ4
8	RECQL4	ENSG00000160957	ENST00000301323	processed_transcript	KNOWN	None	9949	None	None	145736677	145738096	-1	None	RecQ4
8	RECQL4	ENSG00000160957	ENST00000531875	processed_transcript	KNOWN	None	9949	None	None	145736708	145738155	-1	None	RecQ4
8	RECQL4	ENSG00000160957	ENST00000529424	processed_transcript	KNOWN	None	9949	None	None	145736773	145737756	-1	None	RecQ4
8	RECQL4	ENSG00000160957	ENST00000534626	processed_transcript	KNOWN	None	9949	None	None	145738234	145739898	-1	None	RecQ4
8	RECQL4	ENSG00000160957	ENST00000532846	processed_transcript	KNOWN	None	9949	None	None	145739569	145741277	-1	None	RecQ4
8	RECQL4	ENSG00000160957	ENST00000524998	processed_transcript	KNOWN	None	9949	None	None	145741242	145742883	-1	None	RecQ4
8	RECQL4	ENSG00000160957	ENST00000534538	processed_transcript	KNOWN	None	9949	None	None	145741629	145743012	-1	None	RecQ4
8	RECQL4	ENSG00000160957	ENST00000534270	retained_intron	KNOWN	None	9949	None	None	145742217	145742956	-1	None	RecQ4
8	RECQL4	ENSG00000160957	ENST00000428558	protein_coding	KNOWN	None	9949	3627	1208	145736667	145743210	-1	None	RecQ4
9	MIR3689E	ENSG00000266827	ENST00000582479	miRNA	KNOWN	None	41887	None	None	137742416	137742487	-1	None	hsa-mir-3689e
11	XRRA1	ENSG00000166435	ENST00000530562	nonsense_mediated_decay	KNOWN	None	18868	726	241	74518784	74660225	-1	None	FLJ00225
11	XRRA1	ENSG00000166435	ENST00000340360	protein_coding	KNOWN	CCDS44680	18868	2379	792	74551275	74660232	-1	None	FLJ00225
11	XRRA1	ENSG00000166435	ENST00000321448	protein_coding	PUTATIVE	CCDS58159	18868	1554	517	74551955	74660194	-1	None	FLJ00225
11	XRRA1	ENSG00000166435	ENST00000531849	nonsense_mediated_decay	KNOWN	None	18868	348	115	74551976	74660245	-1	None	FLJ00225
11	XRRA1	ENSG00000166435	ENST00000531449	nonsense_mediated_decay	KNOWN	None	18868	191	62	74554013	74617406	-1	None	FLJ00225
11	XRRA1	ENSG00000166435	ENST00000527087	protein_coding	KNOWN	CCDS58160	18868	1797	598	74554013	74660161	-1	None	FLJ00225
11	XRRA1	ENSG00000166435	ENST00000431210	retained_intron	KNOWN	None	18868	None	None	74554015	74575159	-1	None	FLJ00225
11	XRRA1	ENSG00000166435	ENST00000530280	processed_transcript	PUTATIVE	None	18868	None	None	74559170	74563109	-1	None	FLJ00225
11	XRRA1	ENSG00000166435	ENST00000529926	retained_intron	KNOWN	None	18868	None	None	74561915	74617397	-1	None	FLJ00225
11	XRRA1	ENSG00000166435	ENST00000528819	processed_transcript	PUTATIVE	None	18868	None	None	74570212	74618266	-1	None	FLJ00225
11	XRRA1	ENSG00000166435	ENST00000525407	protein_coding	KNOWN	None	18868	889	295	74617398	74660065	-1	None	FLJ00225
11	XRRA1	ENSG00000166435	ENST00000528219	protein_coding	PUTATIVE	None	18868	166	54	74617398	74660125	-1	None	FLJ00225
11	XRRA1	ENSG00000166435	ENST00000526047	retained_intron	KNOWN	None	18868	None	None	74617885	74632344	-1	None	FLJ00225
11	XRRA1	ENSG00000166435	ENST00000531852	protein_coding	PUTATIVE	None	18868	59	18	74618193	74660149	-1	None	FLJ00225
11	XRRA1	ENSG00000166435	ENST00000533598	processed_transcript	KNOWN	None	18868	None	None	74620964	74660120	-1	None	FLJ00225
11	XRRA1	ENSG00000166435	ENST00000534041	processed_transcript	KNOWN	None	18868	None	None	74632320	74660140	-1	None	FLJ00225
11	XRRA1	ENSG00000166435	ENST00000534798	processed_transcript	KNOWN	None	18868	None	None	74638436	74660136	-1	None	FLJ00225
11	XRRA1	ENSG00000166435	ENST00000529400	processed_transcript	KNOWN	None	18868	None	None	74641345	74660207	-1	None	FLJ00225
11	XRRA1	ENSG00000166435	ENST00000524430	processed_transcript	KNOWN	None	18868	None	None	74642810	74660176	-1	None	FLJ00225
11	XRRA1	ENSG00000166435	ENST00000533990	retained_intron	KNOWN	None	18868	None	None	74644306	74647961	-1	None	FLJ00225
4	PRSS12	ENSG00000164099	ENST00000296498	protein_coding	KNOWN	CCDS3709	9477	2628	875	119201193	119274158	-1	None	BSSP-3, MRT1
4	PRSS12	ENSG00000164099	ENST00000510903	processed_transcript	PUTATIVE	None	9477	None	None	119204094	119219930	-1	None	BSSP-3, MRT1
4	PRSS12	ENSG00000164099	ENST00000515089	retained_intron	KNOWN	None	9477	None	None	119224433	119234431	-1	None	BSSP-3, MRT1
4	PRSS12	ENSG00000164099	ENST00000503043	retained_intron	KNOWN	None	9477	None	None	119234101	119239710	-1	None	BSSP-3, MRT1
3	None	ENSG00000234742	ENST00000452862	processed_pseudogene	KNOWN	None	None	None	None	197577271	197577825	-1	None	None
5	LAMTOR3P2	ENSG00000248979	ENST00000504479	processed_pseudogene	KNOWN	None	39727	None	None	118468346	118468577	-1	None	None
10	FBXW4	ENSG00000107829	ENST00000470093	processed_transcript	KNOWN	None	10847	None	None	103370423	103386656	-1	SHFM3	Fbw4, dactylin
10	FBXW4	ENSG00000107829	ENST00000331272	protein_coding	KNOWN	CCDS31271	10847	1239	412	103370423	103455016	-1	SHFM3	Fbw4, dactylin
10	FBXW4	ENSG00000107829	ENST00000482428	processed_transcript	KNOWN	None	10847	None	None	103371414	103372910	-1	SHFM3	Fbw4, dactylin
10	FBXW4	ENSG00000107829	ENST00000457105	processed_transcript	KNOWN	None	10847	None	None	103384504	103455052	-1	SHFM3	Fbw4, dactylin
10	FBXW4	ENSG00000107829	ENST00000489578	retained_intron	KNOWN	None	10847	None	None	103433322	103436471	-1	SHFM3	Fbw4, dactylin
16	None	ENSG00000261319	ENST00000566208	lincRNA	KNOWN	None	None	None	None	8348494	8349774	1	None	None
21	C21orf54	ENSG00000229086	ENST00000451980	protein_coding	KNOWN	None	1296	327	108	34537776	34542541	-1	None	None
5	RNU6-701P	ENSG00000206786	ENST00000384059	snRNA	KNOWN	None	47664	None	None	118474554	118474660	1	None	None
12	ATP6V0A2	ENSG00000185344	ENST00000330342	protein_coding	KNOWN	CCDS9254	18481	2571	856	124196865	124246302	1	None	TJ6, a2, TJ6s, TJ6M, ATP6a2, J6B7, ATP6N1D, Vph1, Stv1
12	ATP6V0A2	ENSG00000185344	ENST00000540368	retained_intron	KNOWN	None	18481	None	None	124196903	124222049	1	None	TJ6, a2, TJ6s, TJ6M, ATP6a2, J6B7, ATP6N1D, Vph1, Stv1
12	ATP6V0A2	ENSG00000185344	ENST00000504192	protein_coding	PUTATIVE	None	18481	985	327	124207757	124229192	1	None	TJ6, a2, TJ6s, TJ6M, ATP6a2, J6B7, ATP6N1D, Vph1, Stv1
12	ATP6V0A2	ENSG00000185344	ENST00000545059	retained_intron	KNOWN	None	18481	None	None	124215189	124229510	1	None	TJ6, a2, TJ6s, TJ6M, ATP6a2, J6B7, ATP6N1D, Vph1, Stv1
12	ATP6V0A2	ENSG00000185344	ENST00000536426	processed_transcript	KNOWN	None	18481	None	None	124223506	124232273	1	None	TJ6, a2, TJ6s, TJ6M, ATP6a2, J6B7, ATP6N1D, Vph1, Stv1
12	ATP6V0A2	ENSG00000185344	ENST00000534943	protein_coding	PUTATIVE	None	18481	394	130	124234543	124242562	1	None	TJ6, a2, TJ6s, TJ6M, ATP6a2, J6B7, ATP6N1D, Vph1, Stv1
12	ATP6V0A2	ENSG00000185344	ENST00000544833	protein_coding	PUTATIVE	None	18481	417	138	124238538	124242767	1	None	TJ6, a2, TJ6s, TJ6M, ATP6a2, J6B7, ATP6N1D, Vph1, Stv1
12	ATP6V0A2	ENSG00000185344	ENST00000543687	processed_transcript	KNOWN	None	18481	None	None	124240874	124243234	1	None	TJ6, a2, TJ6s, TJ6M, ATP6a2, J6B7, ATP6N1D, Vph1, Stv1
12	None	ENSG00000256001	ENST00000541419	lincRNA	KNOWN	None	None	None	None	127629617	127631077	-1	None	None
12	None	ENSG00000256001	ENST00000535022	lincRNA	KNOWN	None	None	None	None	127630186	127630534	-1	None	None
16	None	ENSG00000264844	ENST00000583554	miRNA	NOVEL	None	None	None	None	8359541	8359659	-1	None	None
6	SLC22A23	ENSG00000137266	ENST00000436008	protein_coding	NOVEL	None	21106	2085	694	3269196	3457256	-1	C6orf85	FLJ22174
6	SLC22A23	ENSG00000137266	ENST00000406686	protein_coding	KNOWN	CCDS47363	21106	2061	686	3269692	3456793	-1	C6orf85	FLJ22174
6	SLC22A23	ENSG00000137266	ENST00000497691	nonsense_mediated_decay	KNOWN	None	21106	279	92	3272008	3445203	-1	C6orf85	FLJ22174
6	SLC22A23	ENSG00000137266	ENST00000380302	protein_coding	KNOWN	CCDS34331	21106	1218	405	3272008	3445247	-1	C6orf85	FLJ22174
6	SLC22A23	ENSG00000137266	ENST00000490273	protein_coding	KNOWN	CCDS34331	21106	1218	405	3273064	3445218	-1	C6orf85	FLJ22174
6	SLC22A23	ENSG00000137266	ENST00000482874	retained_intron	KNOWN	None	21106	None	None	3273590	3284354	-1	C6orf85	FLJ22174
6	SLC22A23	ENSG00000137266	ENST00000485307	protein_coding	PUTATIVE	None	21106	1323	440	3283699	3456277	-1	C6orf85	FLJ22174
6	SLC22A23	ENSG00000137266	ENST00000467177	protein_coding	PUTATIVE	None	21106	1159	385	3284108	3439652	-1	C6orf85	FLJ22174
6	SLC22A23	ENSG00000137266	ENST00000467144	processed_transcript	KNOWN	None	21106	None	None	3287218	3324417	-1	C6orf85	FLJ22174
6	SLC22A23	ENSG00000137266	ENST00000496753	processed_transcript	KNOWN	None	21106	None	None	3290000	3378220	-1	C6orf85	FLJ22174
6	SLC22A23	ENSG00000137266	ENST00000433689	processed_transcript	KNOWN	None	21106	None	None	3323576	3324399	-1	C6orf85	FLJ22174
6	SLC22A23	ENSG00000137266	ENST00000380298	protein_coding	KNOWN	None	21106	1086	361	3323576	3456793	-1	C6orf85	FLJ22174
5	MIR5706	ENSG00000264536	ENST00000579841	miRNA	KNOWN	None	43500	None	None	118490332	118490411	1	None	hsa-mir-5706
16	None	ENSG00000260058	ENST00000564185	lincRNA	KNOWN	None	None	None	None	8359964	8407862	1	None	None
3	RNU6-858P	ENSG00000199306	ENST00000362436	snRNA	KNOWN	None	47821	None	None	197621378	197621484	1	None	None
20	None	ENSG00000221448	ENST00000408521	miRNA	NOVEL	None	None	None	None	16390942	16391036	-1	None	None
3	RNU6-621P	ENSG00000201622	ENST00000364752	snRNA	KNOWN	None	47584	None	None	197721472	197721580	1	None	None
16	CCDC113	ENSG00000103021	ENST00000569374	protein_coding	PUTATIVE	None	25002	192	63	58265061	58288000	1	None	HSPC065, DKFZp434N1418
16	CCDC113	ENSG00000103021	ENST00000443128	protein_coding	KNOWN	CCDS45497	25002	972	323	58283840	58317740	1	None	HSPC065, DKFZp434N1418
16	CCDC113	ENSG00000103021	ENST00000219299	protein_coding	KNOWN	CCDS10795	25002	1134	377	58283840	58317740	1	None	HSPC065, DKFZp434N1418
16	CCDC113	ENSG00000103021	ENST00000561517	nonsense_mediated_decay	KNOWN	None	25002	177	58	58283856	58296444	1	None	HSPC065, DKFZp434N1418
16	CCDC113	ENSG00000103021	ENST00000566498	processed_transcript	PUTATIVE	None	25002	None	None	58283892	58286671	1	None	HSPC065, DKFZp434N1418
5	None	ENSG00000266587	ENST00000578612	miRNA	NOVEL	None	None	None	None	118593035	118593132	-1	None	None
12	None	ENSG00000239776	ENST00000488123	miRNA	NOVEL	None	None	None	None	127650616	127650672	-1	None	None
11	MS4A15	ENSG00000166961	ENST00000528170	protein_coding	NOVEL	None	28573	600	199	60524426	60543272	1	None	None
11	MS4A15	ENSG00000166961	ENST00000337911	protein_coding	KNOWN	CCDS7991	28573	444	147	60524476	60544204	1	None	None
11	MS4A15	ENSG00000166961	ENST00000429322	nonsense_mediated_decay	KNOWN	None	28573	564	187	60524477	60544205	1	None	None
11	MS4A15	ENSG00000166961	ENST00000405633	protein_coding	KNOWN	CCDS44617	28573	723	240	60524481	60544204	1	None	None
5	RN7SL174P	ENSG00000243333	ENST00000475578	misc_RNA	KNOWN	None	46190	None	None	118642039	118642326	-1	None	None
3	LMLN-AS1	ENSG00000232832	ENST00000423460	antisense	KNOWN	None	40738	None	None	197765192	197766105	-1	None	None
16	None	ENSG00000259819	ENST00000566236	lincRNA	KNOWN	None	None	None	None	8419866	8426278	1	None	None
10	None	ENSG00000228702	ENST00000424552	processed_pseudogene	KNOWN	None	None	None	None	46221142	46221486	-1	None	None
15	None	ENSG00000221517	ENST00000408590	miRNA	NOVEL	None	None	None	None	83145848	83145931	-1	None	None
HG299_PATCH	FOXR1	ENSG00000262245	ENST00000575308	protein_coding	KNOWN	None	29980	879	292	118842417	118852001	1	None	DLNB13, FOXN5
HG299_PATCH	FOXR1	ENSG00000262245	ENST00000574527	nonsense_mediated_decay	KNOWN	None	29980	621	206	118842422	118851974	1	None	DLNB13, FOXN5
HG299_PATCH	FOXR1	ENSG00000262245	ENST00000573299	protein_coding	PUTATIVE	None	29980	409	135	118849489	118851282	1	None	DLNB13, FOXN5
10	None	ENSG00000270434	ENST00000603431	processed_pseudogene	KNOWN	None	None	None	None	46308096	46308392	-1	None	None
5	RNA5SP190	ENSG00000202092	ENST00000365222	rRNA	KNOWN	None	43090	None	None	118781411	118781528	1	RN5S190	None
8	None	ENSG00000253622	ENST00000518439	sense_intronic	KNOWN	None	None	None	None	118140694	118142538	1	None	None
12	None	ENSG00000256292	ENST00000536330	lincRNA	KNOWN	None	None	None	None	127759012	127768828	-1	None	None
5	None	ENSG00000239084	ENST00000459203	snoRNA	NOVEL	None	None	None	None	118804654	118804750	-1	None	None
16	None	ENSG00000183604	ENST00000529428	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	30278874	30346375	-1	None	None
16	None	ENSG00000183604	ENST00000532983	processed_transcript	KNOWN	None	None	None	None	30281386	30291291	-1	None	None
16	None	ENSG00000183604	ENST00000411546	processed_transcript	KNOWN	None	None	None	None	30296344	30346695	-1	None	None
16	None	ENSG00000183604	ENST00000420114	unprocessed_pseudogene	KNOWN	None	None	None	None	30234230	30292625	-1	None	None
15	RN7SL410P	ENSG00000243464	ENST00000467788	misc_RNA	KNOWN	None	46426	None	None	83146764	83147043	-1	None	None
1	NOS1AP	ENSG00000198929	ENST00000530878	protein_coding	KNOWN	CCDS53421	16859	1506	501	162039564	162338241	1	None	KIAA0464, CAPON
1	NOS1AP	ENSG00000198929	ENST00000361897	protein_coding	KNOWN	CCDS1237	16859	1521	506	162039566	162340265	1	None	KIAA0464, CAPON
1	NOS1AP	ENSG00000198929	ENST00000430120	nonsense_mediated_decay	KNOWN	None	16859	1050	349	162039880	162337282	1	None	KIAA0464, CAPON
1	NOS1AP	ENSG00000198929	ENST00000464284	protein_coding	PUTATIVE	None	16859	243	80	162330327	162337011	1	None	KIAA0464, CAPON
1	NOS1AP	ENSG00000198929	ENST00000493151	protein_coding	KNOWN	CCDS44267	16859	636	211	162332773	162339813	1	None	KIAA0464, CAPON
1	NOS1AP	ENSG00000198929	ENST00000454693	processed_transcript	KNOWN	None	16859	None	None	162336694	162337309	1	None	KIAA0464, CAPON
1	NOS1AP	ENSG00000198929	ENST00000367932	nonsense_mediated_decay	KNOWN	None	16859	156	51	162337102	162353321	1	None	KIAA0464, CAPON
16	None	ENSG00000260379	ENST00000567734	processed_pseudogene	KNOWN	None	None	None	None	8558071	8558587	1	None	None
21	IGHV1OR21-1	ENSG00000169861	ENST00000302092	IG_V_gene	KNOWN	None	38040	353	116	10862622	10863057	1	None	IGHV1/OR21-1
21	IGHV1OR21-1	ENSG00000169861	ENST00000559480	IG_V_gene	KNOWN	None	38040	363	120	10862622	10863067	1	None	IGHV1/OR21-1
18	None	ENSG00000267010	ENST00000592021	lincRNA	KNOWN	None	None	None	None	56419380	56421709	1	None	None
10	None	ENSG00000239883	ENST00000440803	processed_transcript	KNOWN	None	None	None	None	46349541	46387931	-1	None	None
10	None	ENSG00000239883	ENST00000417555	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	46383613	46411619	-1	None	None
10	None	ENSG00000239883	ENST00000435772	unprocessed_pseudogene	KNOWN	None	None	None	None	46358510	46411606	-1	None	None
5	None	ENSG00000213663	ENST00000487382	processed_pseudogene	KNOWN	None	None	None	None	118882826	118883301	-1	None	None
16	HBZ	ENSG00000130656	ENST00000252951	protein_coding	KNOWN	CCDS10397	4835	429	142	202686	204502	1	None	None
5	FABP5P6	ENSG00000249919	ENST00000510588	processed_pseudogene	KNOWN	None	31069	None	None	118890945	118891353	-1	FABP5L6	None
15	GOLGA6L10	ENSG00000254374	ENST00000503347	processed_transcript	KNOWN	None	37228	None	None	83188579	83192684	1	None	None
15	GOLGA6L10	ENSG00000254374	ENST00000512735	transcribed_unprocessed_pseudogene	KNOWN	None	37228	None	None	83188643	83195200	1	None	None
15	GOLGA6L10	ENSG00000254374	ENST00000558310	processed_transcript	KNOWN	None	37228	None	None	83193194	83195251	1	None	None
18	None	ENSG00000267705	ENST00000587011	lincRNA	KNOWN	None	None	None	None	56419411	56421130	-1	None	None
1	RNU6-828P	ENSG00000201746	ENST00000364876	snRNA	KNOWN	None	47791	None	None	10223326	10223432	1	None	None
2	MTA3	ENSG00000057935	ENST00000405592	protein_coding	PUTATIVE	None	23784	1614	537	42721709	42984087	1	None	KIAA1266
2	MTA3	ENSG00000057935	ENST00000406652	protein_coding	PUTATIVE	None	23784	1614	537	42795185	42984087	1	None	KIAA1266
2	MTA3	ENSG00000057935	ENST00000484780	processed_transcript	KNOWN	None	23784	None	None	42795251	42883442	1	None	KIAA1266
2	MTA3	ENSG00000057935	ENST00000461256	processed_transcript	KNOWN	None	23784	None	None	42795308	42886916	1	None	KIAA1266
2	MTA3	ENSG00000057935	ENST00000407270	protein_coding	KNOWN	CCDS46267	23784	1548	515	42795657	42936684	1	None	KIAA1266
2	MTA3	ENSG00000057935	ENST00000454356	nonsense_mediated_decay	KNOWN	None	23784	1179	392	42795815	42936353	1	None	KIAA1266
2	MTA3	ENSG00000057935	ENST00000406911	protein_coding	NOVEL	None	23784	1545	514	42795815	42936684	1	None	KIAA1266
2	MTA3	ENSG00000057935	ENST00000409019	nonsense_mediated_decay	KNOWN	None	23784	1773	590	42795878	42981200	1	None	KIAA1266
2	MTA3	ENSG00000057935	ENST00000430763	nonsense_mediated_decay	KNOWN	None	23784	276	91	42795881	42886929	1	None	KIAA1266
2	MTA3	ENSG00000057935	ENST00000405094	protein_coding	KNOWN	None	23784	1785	594	42795886	42980539	1	None	KIAA1266
2	MTA3	ENSG00000057935	ENST00000433553	protein_coding	PUTATIVE	None	23784	53	16	42796524	42836628	1	None	KIAA1266
2	MTA3	ENSG00000057935	ENST00000493983	processed_transcript	KNOWN	None	23784	None	None	42797577	42883345	1	None	KIAA1266
2	MTA3	ENSG00000057935	ENST00000491314	processed_transcript	KNOWN	None	23784	None	None	42840815	42871385	1	None	KIAA1266
2	MTA3	ENSG00000057935	ENST00000490611	retained_intron	KNOWN	None	23784	None	None	42886660	42909846	1	None	KIAA1266
2	MTA3	ENSG00000057935	ENST00000472767	processed_transcript	KNOWN	None	23784	None	None	42922905	42936293	1	None	KIAA1266
2	MTA3	ENSG00000057935	ENST00000475383	processed_transcript	KNOWN	None	23784	None	None	42922905	42936351	1	None	KIAA1266
2	MTA3	ENSG00000057935	ENST00000482875	retained_intron	KNOWN	None	23784	None	None	42929447	42936353	1	None	KIAA1266
2	MTA3	ENSG00000057935	ENST00000467925	retained_intron	KNOWN	None	23784	None	None	42930789	42980988	1	None	KIAA1266
2	MTA3	ENSG00000057935	ENST00000478602	retained_intron	KNOWN	None	23784	None	None	42936215	42950474	1	None	KIAA1266
16	None	ENSG00000261066	ENST00000562516	lincRNA	KNOWN	None	None	None	None	8576551	8582015	-1	None	None
11	SUV420H1	ENSG00000110066	ENST00000304363	protein_coding	KNOWN	CCDS31623	24283	2658	885	67922330	67980882	-1	None	CGI-85, KMT5B
11	SUV420H1	ENSG00000110066	ENST00000441488	nonsense_mediated_decay	KNOWN	None	24283	837	278	67925047	67957548	-1	None	CGI-85, KMT5B
11	SUV420H1	ENSG00000110066	ENST00000427752	nonsense_mediated_decay	KNOWN	None	24283	480	159	67925760	67980882	-1	None	CGI-85, KMT5B
11	SUV420H1	ENSG00000110066	ENST00000401547	protein_coding	KNOWN	CCDS44660	24283	1182	393	67933182	67980753	-1	None	CGI-85, KMT5B
11	SUV420H1	ENSG00000110066	ENST00000405515	protein_coding	KNOWN	CCDS44660	24283	1182	393	67933182	67981295	-1	None	CGI-85, KMT5B
11	SUV420H1	ENSG00000110066	ENST00000402789	protein_coding	PUTATIVE	None	24283	1209	402	67933186	67981062	-1	None	CGI-85, KMT5B
11	SUV420H1	ENSG00000110066	ENST00000402185	protein_coding	NOVEL	None	24283	1113	370	67933874	67981068	-1	None	CGI-85, KMT5B
11	SUV420H1	ENSG00000110066	ENST00000323599	nonsense_mediated_decay	KNOWN	None	24283	311	102	67938586	67947632	-1	None	CGI-85, KMT5B
11	SUV420H1	ENSG00000110066	ENST00000533271	protein_coding	PUTATIVE	None	24283	193	63	67939121	67944181	-1	None	CGI-85, KMT5B
11	SUV420H1	ENSG00000110066	ENST00000524672	retained_intron	KNOWN	None	24283	None	None	67939144	67947289	-1	None	CGI-85, KMT5B
11	SUV420H1	ENSG00000110066	ENST00000453170	protein_coding	PUTATIVE	None	24283	361	119	67941350	67980784	-1	None	CGI-85, KMT5B
11	SUV420H1	ENSG00000110066	ENST00000458496	protein_coding	PUTATIVE	None	24283	301	99	67942514	67981145	-1	None	CGI-85, KMT5B
11	SUV420H1	ENSG00000110066	ENST00000434573	protein_coding	KNOWN	None	24283	354	117	67947622	67980221	-1	None	CGI-85, KMT5B
11	SUV420H1	ENSG00000110066	ENST00000466295	retained_intron	KNOWN	None	24283	None	None	67957073	67981034	-1	None	CGI-85, KMT5B
3	ANKRD18DP	ENSG00000226435	ENST00000455355	transcribed_unprocessed_pseudogene	KNOWN	None	28016	None	None	197780393	197807383	-1	None	None
3	ANKRD18DP	ENSG00000226435	ENST00000435620	processed_transcript	KNOWN	None	28016	None	None	197784402	197807542	-1	None	None
3	ANKRD18DP	ENSG00000226435	ENST00000335478	processed_transcript	KNOWN	None	28016	None	None	197784924	197807591	-1	None	None
3	ANKRD18DP	ENSG00000226435	ENST00000440713	retained_intron	KNOWN	None	28016	None	None	197786121	197790893	-1	None	None
20	RPLP0P1	ENSG00000226229	ENST00000457002	processed_pseudogene	KNOWN	None	16585	None	None	16566978	16567338	-1	None	dJ777L9.2
X	None	ENSG00000236160	ENST00000431868	processed_pseudogene	KNOWN	None	None	None	None	26675408	26675624	-1	None	None
5	None	ENSG00000239067	ENST00000459005	snoRNA	NOVEL	None	None	None	None	118945897	118946000	-1	None	None
16	RN7SL743P	ENSG00000243954	ENST00000475032	misc_RNA	KNOWN	None	46759	None	None	8777111	8777406	1	None	None
5	None	ENSG00000250895	ENST00000505780	processed_pseudogene	KNOWN	None	None	None	None	118988218	118988695	-1	None	None
4	None	ENSG00000238948	ENST00000458860	snoRNA	NOVEL	None	None	None	None	103780550	103780653	-1	None	None
16	RNU7-63P	ENSG00000238417	ENST00000459054	snRNA	KNOWN	None	34159	None	None	8799313	8799374	-1	None	U7.63
1	MIR1273D	ENSG00000264881	ENST00000577266	miRNA	KNOWN	None	38375	None	None	10287776	10287861	1	None	hsa-mir-1273d
4	PABPC1P7	ENSG00000250651	ENST00000413177	processed_pseudogene	KNOWN	None	37987	None	None	103817882	103819394	1	None	None
11	SPDYC	ENSG00000204710	ENST00000377185	protein_coding	KNOWN	CCDS31606	32681	882	293	64937625	64940715	1	None	Ringo2
5	RN7SL814P	ENSG00000244326	ENST00000487715	misc_RNA	KNOWN	None	46830	None	None	73613811	73614107	1	None	None
20	EEF1A2	ENSG00000101210	ENST00000298049	protein_coding	KNOWN	CCDS13522	3192	1392	463	62119366	62129187	-1	STNL, STN	EEF1AL, HS1
20	EEF1A2	ENSG00000101210	ENST00000217182	protein_coding	KNOWN	CCDS13522	3192	1392	463	62119366	62130505	-1	STNL, STN	EEF1AL, HS1
8	RN7SL826P	ENSG00000240151	ENST00000479724	misc_RNA	KNOWN	None	46842	None	None	118176207	118176492	1	None	None
5	None	ENSG00000251041	ENST00000512458	lincRNA	KNOWN	None	None	None	None	73617456	73635977	1	None	None
8	None	ENSG00000252852	ENST00000517043	snoRNA	NOVEL	None	None	None	None	118325767	118325900	1	None	None
19	None	ENSG00000268049	ENST00000599952	antisense	KNOWN	None	None	None	None	58869365	58870969	1	None	None
4	ACTR3BP4	ENSG00000249283	ENST00000503033	processed_pseudogene	KNOWN	None	38681	None	None	103883113	103884484	1	None	None
4	ACTR3BP4	ENSG00000249283	ENST00000541553	processed_pseudogene	KNOWN	None	38681	None	None	103883628	103884209	1	None	None
5	PLAC8L1	ENSG00000173261	ENST00000311450	protein_coding	KNOWN	CCDS34264	31746	534	177	145463949	145483932	-1	None	None
5	PLAC8L1	ENSG00000173261	ENST00000512998	nonsense_mediated_decay	KNOWN	None	31746	261	86	145463949	145483932	-1	None	None
8	RPS10P16	ENSG00000239917	ENST00000483812	unprocessed_pseudogene	KNOWN	None	36200	None	None	118535510	118536300	-1	None	None
19	None	ENSG00000269054	ENST00000599889	antisense	KNOWN	None	None	None	None	58873951	58877958	1	None	None
5	None	ENSG00000249343	ENST00000508083	lincRNA	KNOWN	None	None	None	None	73618311	73624122	1	None	None
8	RPS26P35	ENSG00000242206	ENST00000480579	processed_pseudogene	KNOWN	None	36229	None	None	119774095	119774440	-1	None	None
HSCHR6_MHC_DBB	HLA-DMA	ENSG00000241394	ENST00000472231	retained_intron	KNOWN	None	4934	None	None	32894331	32895392	-1	None	D6S222E, RING6
HSCHR6_MHC_DBB	HLA-DMA	ENSG00000241394	ENST00000487750	retained_intron	KNOWN	None	4934	None	None	32894331	32898829	-1	None	D6S222E, RING6
HSCHR6_MHC_DBB	HLA-DMA	ENSG00000241394	ENST00000443447	protein_coding	KNOWN	None	4934	501	166	32894338	32898782	-1	None	D6S222E, RING6
HSCHR6_MHC_DBB	HLA-DMA	ENSG00000241394	ENST00000420931	protein_coding	KNOWN	None	4934	684	227	32894338	32898829	-1	None	D6S222E, RING6
HSCHR6_MHC_DBB	HLA-DMA	ENSG00000241394	ENST00000439054	protein_coding	KNOWN	None	4934	786	261	32894338	32898843	-1	None	D6S222E, RING6
HSCHR6_MHC_DBB	HLA-DMA	ENSG00000241394	ENST00000467732	processed_transcript	KNOWN	None	4934	None	None	32894459	32896524	-1	None	D6S222E, RING6
HSCHR6_MHC_DBB	HLA-DMA	ENSG00000241394	ENST00000470656	processed_transcript	KNOWN	None	4934	None	None	32894492	32895610	-1	None	D6S222E, RING6
HSCHR6_MHC_DBB	HLA-DMA	ENSG00000241394	ENST00000456486	protein_coding	KNOWN	None	4934	871	289	32894992	32898182	-1	None	D6S222E, RING6
HSCHR6_MHC_DBB	HLA-DMA	ENSG00000241394	ENST00000441171	protein_coding	KNOWN	None	4934	507	168	32895378	32896524	-1	None	D6S222E, RING6
HSCHR6_MHC_DBB	HLA-DMA	ENSG00000241394	ENST00000465136	retained_intron	KNOWN	None	4934	None	None	32895805	32898755	-1	None	D6S222E, RING6
19	RNA5SP473	ENSG00000252211	ENST00000516402	rRNA	KNOWN	None	43373	None	None	58874805	58874929	1	RN5S473	None
8	RNU6-12P	ENSG00000207334	ENST00000384604	snRNA	KNOWN	None	34256	None	None	119988752	119988858	1	RNU6-12	None
4	None	ENSG00000248740	ENST00000513793	lincRNA	KNOWN	None	None	None	None	104177316	104374815	1	None	None
4	None	ENSG00000248740	ENST00000508099	lincRNA	KNOWN	None	None	None	None	104298160	104360898	1	None	None
4	None	ENSG00000248740	ENST00000510200	lincRNA	KNOWN	None	None	None	None	104346199	104360885	1	None	None
19	MIR4754	ENSG00000266640	ENST00000582477	miRNA	KNOWN	None	41786	None	None	58898137	58898225	-1	None	hsa-mir-4754
12	None	ENSG00000256496	ENST00000544240	unprocessed_pseudogene	KNOWN	None	None	None	None	127802254	127804531	-1	None	None
1	RNU6-37P	ENSG00000199562	ENST00000362692	snRNA	KNOWN	None	34281	None	None	10359024	10359130	1	RNU6-37	None
19	None	ENSG00000268307	ENST00000596379	lincRNA	KNOWN	None	None	None	None	58911588	58912046	1	None	None
19	None	ENSG00000268361	ENST00000594374	protein_coding	PUTATIVE	None	None	393	130	44058844	44097188	-1	None	None
HG883_PATCH	SLC46A1	ENSG00000262186	ENST00000576273	protein_coding	KNOWN	None	30521	1380	459	26721775	26733229	-1	None	HCP1, MGC9564, PCFT
HG883_PATCH	SLC46A1	ENSG00000262186	ENST00000592419	protein_coding	KNOWN	None	30521	1296	431	26722695	26733220	-1	None	HCP1, MGC9564, PCFT
HG883_PATCH	SLC46A1	ENSG00000262186	ENST00000592104	protein_coding	PUTATIVE	None	30521	373	123	26726365	26731840	-1	None	HCP1, MGC9564, PCFT
HG883_PATCH	SLC46A1	ENSG00000262186	ENST00000591835	retained_intron	KNOWN	None	30521	None	None	26727537	26728064	-1	None	HCP1, MGC9564, PCFT
HG883_PATCH	SLC46A1	ENSG00000262186	ENST00000589595	processed_transcript	KNOWN	None	30521	None	None	26731259	26732766	-1	None	HCP1, MGC9564, PCFT
HG883_PATCH	SLC46A1	ENSG00000262186	ENST00000587665	retained_intron	KNOWN	None	30521	None	None	26731335	26733187	-1	None	HCP1, MGC9564, PCFT
HG883_PATCH	SLC46A1	ENSG00000262186	ENST00000590521	protein_coding	PUTATIVE	None	30521	751	249	26731743	26733649	-1	None	HCP1, MGC9564, PCFT
HG883_PATCH	SLC46A1	ENSG00000262186	ENST00000586777	protein_coding	PUTATIVE	None	30521	385	127	26732067	26733618	-1	None	HCP1, MGC9564, PCFT
HG883_PATCH	SLC46A1	ENSG00000262186	ENST00000592941	protein_coding	PUTATIVE	None	30521	98	31	26732396	26734216	-1	None	HCP1, MGC9564, PCFT
20	None	ENSG00000200494	ENST00000363624	misc_RNA	NOVEL	None	None	None	None	16651286	16651387	-1	None	None
12	RNU1-104P	ENSG00000253089	ENST00000517280	snRNA	KNOWN	None	48446	None	None	127805900	127806074	1	None	None
19	None	ENSG00000232098	ENST00000593393	lincRNA	KNOWN	None	None	None	None	58915605	58918663	-1	None	None
19	None	ENSG00000232098	ENST00000597309	lincRNA	KNOWN	None	None	None	None	58917763	58918544	-1	None	None
19	None	ENSG00000232098	ENST00000597980	lincRNA	KNOWN	None	None	None	None	58917926	58919851	-1	None	None
19	None	ENSG00000232098	ENST00000444227	lincRNA	KNOWN	None	None	None	None	58915623	58918663	-1	None	None
5	None	ENSG00000250446	ENST00000506612	lincRNA	KNOWN	None	None	None	None	73623820	73630591	-1	None	None
12	None	ENSG00000256362	ENST00000545739	lincRNA	KNOWN	None	None	None	None	127808700	127824617	-1	None	None
5	None	ENSG00000248673	ENST00000507781	lincRNA	KNOWN	None	None	None	None	73665201	73832801	-1	None	None
Y	PRYP1	ENSG00000224166	ENST00000412474	unprocessed_pseudogene	KNOWN	None	34018	None	None	19841408	19856476	-1	PRYP7, PRY4P	None
12	None	ENSG00000256502	ENST00000541512	processed_pseudogene	KNOWN	None	None	None	None	127828803	127828947	-1	None	None
5	CARD6	ENSG00000132357	ENST00000254691	protein_coding	KNOWN	CCDS3935	16394	3114	1037	40841286	40855456	1	None	CINCIN1
5	CARD6	ENSG00000132357	ENST00000381677	protein_coding	PUTATIVE	None	16394	933	310	40841410	40860275	1	None	CINCIN1
19	None	ENSG00000268543	ENST00000596296	lincRNA	KNOWN	None	None	None	None	58929927	58930677	1	None	None
1	RN7SL731P	ENSG00000264501	ENST00000584329	misc_RNA	KNOWN	None	46747	None	None	10366523	10366813	1	None	None
5	None	ENSG00000234259	ENST00000511500	processed_pseudogene	KNOWN	None	None	None	None	119015892	119016775	1	None	None
19	None	ENSG00000268912	ENST00000594816	lincRNA	KNOWN	None	None	None	None	58939999	58942515	-1	None	None
20	None	ENSG00000235208	ENST00000443141	processed_pseudogene	KNOWN	None	None	None	None	16664753	16665049	-1	None	None
16	None	ENSG00000260764	ENST00000564410	processed_pseudogene	KNOWN	None	None	None	None	8825273	8825416	-1	None	None
18	HAUS1	ENSG00000152240	ENST00000282058	protein_coding	KNOWN	CCDS11928	25174	837	278	43684298	43708299	1	CCDC5	HEI-C, HsT1461, FLJ40084
18	HAUS1	ENSG00000152240	ENST00000592471	protein_coding	PUTATIVE	None	25174	323	106	43684344	43699927	1	CCDC5	HEI-C, HsT1461, FLJ40084
18	HAUS1	ENSG00000152240	ENST00000591098	retained_intron	KNOWN	None	25174	None	None	43684346	43698440	1	CCDC5	HEI-C, HsT1461, FLJ40084
18	HAUS1	ENSG00000152240	ENST00000586060	nonsense_mediated_decay	KNOWN	None	25174	285	94	43684351	43708087	1	CCDC5	HEI-C, HsT1461, FLJ40084
18	HAUS1	ENSG00000152240	ENST00000591715	nonsense_mediated_decay	KNOWN	None	25174	243	80	43684362	43708296	1	CCDC5	HEI-C, HsT1461, FLJ40084
18	HAUS1	ENSG00000152240	ENST00000592206	nonsense_mediated_decay	KNOWN	None	25174	216	71	43684366	43704859	1	CCDC5	HEI-C, HsT1461, FLJ40084
18	HAUS1	ENSG00000152240	ENST00000585518	protein_coding	PUTATIVE	None	25174	372	123	43684368	43708145	1	CCDC5	HEI-C, HsT1461, FLJ40084
18	HAUS1	ENSG00000152240	ENST00000589554	nonsense_mediated_decay	KNOWN	None	25174	285	94	43684372	43708135	1	CCDC5	HEI-C, HsT1461, FLJ40084
18	HAUS1	ENSG00000152240	ENST00000593165	nonsense_mediated_decay	KNOWN	None	25174	284	93	43684388	43708205	1	CCDC5	HEI-C, HsT1461, FLJ40084
18	HAUS1	ENSG00000152240	ENST00000588704	processed_transcript	KNOWN	None	25174	None	None	43695034	43708235	1	CCDC5	HEI-C, HsT1461, FLJ40084
18	HAUS1	ENSG00000152240	ENST00000595199	retained_intron	KNOWN	None	25174	None	None	43703147	43705941	1	CCDC5	HEI-C, HsT1461, FLJ40084
18	HAUS1	ENSG00000152240	ENST00000585425	processed_transcript	KNOWN	None	25174	None	None	43706622	43708298	1	CCDC5	HEI-C, HsT1461, FLJ40084
5	None	ENSG00000251293	ENST00000514240	lincRNA	KNOWN	None	None	None	None	119581143	119669197	-1	None	None
HSCHR6_MHC_DBB	PRR3	ENSG00000223887	ENST00000454399	protein_coding	KNOWN	None	21149	567	188	30514898	30521735	1	None	CAT56, Em:AB014077.1, Em:AB023052.2
HSCHR6_MHC_DBB	PRR3	ENSG00000223887	ENST00000442290	protein_coding	KNOWN	None	21149	504	167	30515292	30521735	1	None	CAT56, Em:AB014077.1, Em:AB023052.2
HSCHR6_MHC_DBB	PRR3	ENSG00000223887	ENST00000461185	processed_transcript	KNOWN	None	21149	None	None	30515326	30521735	1	None	CAT56, Em:AB014077.1, Em:AB023052.2
HSCHR6_MHC_DBB	PRR3	ENSG00000223887	ENST00000469088	processed_transcript	KNOWN	None	21149	None	None	30515328	30521735	1	None	CAT56, Em:AB014077.1, Em:AB023052.2
HSCHR6_MHC_DBB	PRR3	ENSG00000223887	ENST00000475643	retained_intron	KNOWN	None	21149	None	None	30515359	30516448	1	None	CAT56, Em:AB014077.1, Em:AB023052.2
HSCHR6_MHC_DBB	PRR3	ENSG00000223887	ENST00000484363	retained_intron	KNOWN	None	21149	None	None	30518043	30521735	1	None	CAT56, Em:AB014077.1, Em:AB023052.2
1	RN7SL721P	ENSG00000265945	ENST00000579866	misc_RNA	KNOWN	None	46737	None	None	10450059	10450353	1	None	None
16	None	ENSG00000260350	ENST00000567942	antisense	KNOWN	None	None	None	None	8941507	8942581	-1	None	None
16	SEPT1	ENSG00000180096	ENST00000321367	protein_coding	KNOWN	None	2879	1245	414	30389454	30394171	-1	DIFF6	PNUTL3
16	SEPT1	ENSG00000180096	ENST00000563957	retained_intron	KNOWN	None	2879	None	None	30389458	30394134	-1	DIFF6	PNUTL3
16	SEPT1	ENSG00000180096	ENST00000572252	nonsense_mediated_decay	KNOWN	None	2879	213	70	30389476	30393868	-1	DIFF6	PNUTL3
16	SEPT1	ENSG00000180096	ENST00000573615	retained_intron	KNOWN	None	2879	None	None	30389505	30393691	-1	DIFF6	PNUTL3
16	SEPT1	ENSG00000180096	ENST00000566517	protein_coding	PUTATIVE	None	2879	933	310	30389931	30393752	-1	DIFF6	PNUTL3
16	SEPT1	ENSG00000180096	ENST00000568577	nonsense_mediated_decay	KNOWN	None	2879	141	46	30390810	30394134	-1	DIFF6	PNUTL3
16	SEPT1	ENSG00000180096	ENST00000563743	retained_intron	KNOWN	None	2879	None	None	30392816	30393898	-1	DIFF6	PNUTL3
16	SEPT1	ENSG00000180096	ENST00000562152	retained_intron	KNOWN	None	2879	None	None	30393164	30394134	-1	DIFF6	PNUTL3
16	SEPT1	ENSG00000180096	ENST00000570039	processed_transcript	KNOWN	None	2879	None	None	30394073	30407312	-1	DIFF6	PNUTL3
16	SEPT1	ENSG00000180096	ENST00000567783	processed_transcript	KNOWN	None	2879	None	None	30394143	30406224	-1	DIFF6	PNUTL3
16	SEPT1	ENSG00000180096	ENST00000571393	protein_coding	KNOWN	None	2879	1104	367	30389457	30394171	-1	DIFF6	PNUTL3
X	RN7SL799P	ENSG00000244006	ENST00000475891	misc_RNA	KNOWN	None	46815	None	None	63430570	63430866	1	None	None
19	OR1M1	ENSG00000170929	ENST00000429566	protein_coding	KNOWN	CCDS32896	8220	942	313	9203855	9204889	1	None	OR19-6
19	PINLYP	ENSG00000234465	ENST00000244321	retained_intron	KNOWN	None	44206	None	None	44080952	44083238	1	None	None
19	PINLYP	ENSG00000234465	ENST00000599207	protein_coding	NOVEL	None	44206	615	204	44081344	44086250	1	None	None
19	PINLYP	ENSG00000234465	ENST00000562255	protein_coding	KNOWN	CCDS58667	44206	351	116	44084696	44086250	1	None	None
19	PINLYP	ENSG00000234465	ENST00000569031	protein_coding	KNOWN	CCDS58667	44206	351	116	44084790	44086250	1	None	None
19	PINLYP	ENSG00000234465	ENST00000413422	retained_intron	KNOWN	None	44206	None	None	44084790	44088116	1	None	None
19	PINLYP	ENSG00000234465	ENST00000562365	protein_coding	KNOWN	CCDS58667	44206	351	116	44085189	44086256	1	None	None
5	RNU6-718P	ENSG00000251975	ENST00000516166	snRNA	KNOWN	None	47681	None	None	119673244	119673348	-1	None	None
19	RNU6-611P	ENSG00000207003	ENST00000384276	snRNA	KNOWN	None	47574	None	None	45550716	45550819	1	None	None
6	RNU6-300P	ENSG00000238616	ENST00000459080	snRNA	KNOWN	None	47263	None	None	151522476	151522579	1	None	None
19	None	ENSG00000267348	ENST00000586744	processed_transcript	PUTATIVE	None	None	None	None	45579768	45593649	-1	None	None
12	CELA1	ENSG00000139610	ENST00000293636	protein_coding	KNOWN	CCDS8812	3308	777	258	51722227	51740463	-1	ELA1	None
10	SLC18A3	ENSG00000187714	ENST00000374115	protein_coding	KNOWN	CCDS7231	10936	1599	532	50818347	50820765	1	None	VACHT
3	MAP6D1	ENSG00000180834	ENST00000318631	protein_coding	KNOWN	CCDS3247	25753	600	199	183533664	183543366	-1	None	FLJ12748
3	MAP6D1	ENSG00000180834	ENST00000431348	protein_coding	NOVEL	None	25753	549	182	183534850	183543382	-1	None	FLJ12748
3	MAP6D1	ENSG00000180834	ENST00000445426	nonsense_mediated_decay	KNOWN	None	25753	400	132	183535165	183543309	-1	None	FLJ12748
3	MAP6D1	ENSG00000180834	ENST00000463801	processed_transcript	PUTATIVE	None	25753	None	None	183537951	183543013	-1	None	FLJ12748
3	HTR1F	ENSG00000179097	ENST00000319595	protein_coding	KNOWN	CCDS2920	5292	1101	366	88039846	88042919	1	None	HTR1EL, 5-HT1F
6	None	ENSG00000213087	ENST00000440335	processed_pseudogene	KNOWN	None	None	None	None	151546685	151547082	-1	None	None
X	SHROOM4	ENSG00000158352	ENST00000289292	protein_coding	KNOWN	CCDS35277	29215	4482	1493	50334647	50557302	-1	None	KIAA1202
X	SHROOM4	ENSG00000158352	ENST00000483955	processed_transcript	KNOWN	None	29215	None	None	50334695	50339237	-1	None	KIAA1202
X	SHROOM4	ENSG00000158352	ENST00000460112	protein_coding	NOVEL	None	29215	4134	1377	50335365	50386683	-1	None	KIAA1202
X	SHROOM4	ENSG00000158352	ENST00000484922	processed_transcript	KNOWN	None	29215	None	None	50430039	50438937	-1	None	KIAA1202
X	SHROOM4	ENSG00000158352	ENST00000376020	protein_coding	KNOWN	CCDS35277	29215	4482	1493	50334647	50557044	-1	None	KIAA1202
19	None	ENSG00000267176	ENST00000586556	antisense	KNOWN	None	None	None	None	45588587	45593632	-1	None	None
19	OR7G2	ENSG00000170923	ENST00000305456	protein_coding	KNOWN	CCDS32897	8466	1038	345	9212945	9213982	-1	None	OST260
17	RPL38	ENSG00000172809	ENST00000439590	protein_coding	KNOWN	CCDS11696	10349	213	70	72199721	72206019	1	None	L38
17	RPL38	ENSG00000172809	ENST00000311111	protein_coding	KNOWN	CCDS11696	10349	213	70	72199792	72206794	1	None	L38
17	RPL38	ENSG00000172809	ENST00000530646	retained_intron	KNOWN	None	10349	None	None	72199801	72202422	1	None	L38
17	RPL38	ENSG00000172809	ENST00000529123	retained_intron	KNOWN	None	10349	None	None	72199814	72200732	1	None	L38
17	RPL38	ENSG00000172809	ENST00000584577	protein_coding	PUTATIVE	None	10349	204	67	72199832	72206017	1	None	L38
17	RPL38	ENSG00000172809	ENST00000534490	protein_coding	PUTATIVE	None	10349	195	64	72199833	72205600	1	None	L38
17	RPL38	ENSG00000172809	ENST00000528433	protein_coding	KNOWN	None	10349	64	20	72199843	72200329	1	None	L38
17	RPL38	ENSG00000172809	ENST00000533498	protein_coding	KNOWN	CCDS11696	10349	213	70	72199843	72206035	1	None	L38
8	None	ENSG00000254247	ENST00000522216	processed_pseudogene	KNOWN	None	None	None	None	119994818	119995114	-1	None	None
11	TRIM49C	ENSG00000204449	ENST00000448984	protein_coding	KNOWN	CCDS53694	38877	1359	452	89764274	89775193	1	TRIM49L2	None
11	TRIM49C	ENSG00000204449	ENST00000432771	protein_coding	KNOWN	None	38877	1341	446	89764274	89806558	1	TRIM49L2	None
7	TRBJ2-1	ENSG00000211764	ENST00000390412	TR_J_gene	KNOWN	None	12168	50	15	142494049	142494098	1	None	TRBJ21, TCRBJ2S1
1	None	ENSG00000271989	ENST00000607572	antisense	KNOWN	None	None	None	None	10489938	10490734	-1	None	None
20	MAFB	ENSG00000204103	ENST00000373313	protein_coding	KNOWN	CCDS13311	6408	972	323	39314488	39317880	-1	KRML	None
20	MAFB	ENSG00000204103	ENST00000396967	protein_coding	KNOWN	CCDS13311	6408	972	323	39315607	39317498	-1	KRML	None
9	MIR3689F	ENSG00000266514	ENST00000579617	miRNA	KNOWN	None	41702	None	None	137742588	137742653	-1	None	hsa-mir-3689f
8	None	ENSG00000254278	ENST00000518362	antisense	KNOWN	None	None	None	None	120075181	120081021	-1	None	None
X	None	ENSG00000213754	ENST00000396110	processed_pseudogene	KNOWN	None	None	None	None	63524927	63526613	-1	None	None
10	None	ENSG00000231326	ENST00000418524	lincRNA	KNOWN	None	None	None	None	2211334	2231668	-1	None	None
10	None	ENSG00000231326	ENST00000436003	lincRNA	KNOWN	None	None	None	None	2211341	2218626	-1	None	None
HSCHR6_MHC_COX	None	ENSG00000257440	ENST00000551930	pseudogene	NOVEL	None	None	None	None	30467330	30467402	1	None	None
20	None	ENSG00000228809	ENST00000425939	antisense	KNOWN	None	None	None	None	16695489	16711593	-1	None	None
6	TBC1D32	ENSG00000146350	ENST00000398197	processed_transcript	KNOWN	None	21485	None	None	121400640	121558208	-1	C6orf171, C6orf170	FLJ30899, dJ310J6.1, FLJ34235, bA57L9.1, BROMI
6	TBC1D32	ENSG00000146350	ENST00000275159	protein_coding	PUTATIVE	None	21485	3897	1298	121401383	121655576	-1	C6orf171, C6orf170	FLJ30899, dJ310J6.1, FLJ34235, bA57L9.1, BROMI
6	TBC1D32	ENSG00000146350	ENST00000464622	nonsense_mediated_decay	KNOWN	None	21485	327	108	121401383	121655624	-1	C6orf171, C6orf170	FLJ30899, dJ310J6.1, FLJ34235, bA57L9.1, BROMI
6	TBC1D32	ENSG00000146350	ENST00000398212	protein_coding	PUTATIVE	CCDS43501	21485	3774	1257	121401917	121655626	-1	C6orf171, C6orf170	FLJ30899, dJ310J6.1, FLJ34235, bA57L9.1, BROMI
6	TBC1D32	ENSG00000146350	ENST00000519972	retained_intron	KNOWN	None	21485	None	None	121402005	121427316	-1	C6orf171, C6orf170	FLJ30899, dJ310J6.1, FLJ34235, bA57L9.1, BROMI
6	TBC1D32	ENSG00000146350	ENST00000368464	processed_transcript	KNOWN	None	21485	None	None	121417056	121436462	-1	C6orf171, C6orf170	FLJ30899, dJ310J6.1, FLJ34235, bA57L9.1, BROMI
6	TBC1D32	ENSG00000146350	ENST00000509492	nonsense_mediated_decay	KNOWN	None	21485	204	67	121433532	121481183	-1	C6orf171, C6orf170	FLJ30899, dJ310J6.1, FLJ34235, bA57L9.1, BROMI
6	TBC1D32	ENSG00000146350	ENST00000523345	processed_transcript	KNOWN	None	21485	None	None	121447601	121484208	-1	C6orf171, C6orf170	FLJ30899, dJ310J6.1, FLJ34235, bA57L9.1, BROMI
6	TBC1D32	ENSG00000146350	ENST00000422369	protein_coding	PUTATIVE	None	21485	641	212	121629171	121655891	-1	C6orf171, C6orf170	FLJ30899, dJ310J6.1, FLJ34235, bA57L9.1, BROMI
19	EIF5AP3	ENSG00000267346	ENST00000589460	processed_pseudogene	KNOWN	None	3304	None	None	45631827	45632288	1	None	None
HSCHR6_MHC_COX	None	ENSG00000257172	ENST00000548798	pseudogene	NOVEL	None	None	None	None	30469052	30469136	-1	None	None
15	None	ENSG00000259422	ENST00000558424	antisense	KNOWN	None	None	None	None	76467232	76473827	-1	None	None
16	None	ENSG00000260276	ENST00000565934	antisense	KNOWN	None	None	None	None	8941962	8954274	1	None	None
19	OR7G1	ENSG00000161807	ENST00000541538	protein_coding	KNOWN	CCDS32898	8465	936	311	9225504	9226439	-1	OR7G1P	OR19-15
19	OR7G1	ENSG00000161807	ENST00000293614	protein_coding	KNOWN	None	8465	1002	333	9225274	9226439	-1	OR7G1P	OR19-15
19	None	ENSG00000267044	ENST00000591432	antisense	KNOWN	None	None	None	None	45639251	45640235	-1	None	None
10	None	ENSG00000227932	ENST00000446557	lincRNA	KNOWN	None	None	None	None	26953135	26965088	-1	None	None
19	None	ENSG00000267037	ENST00000589594	lincRNA	KNOWN	None	None	None	None	45653008	45653863	-1	None	None
8	MAL2	ENSG00000147676	ENST00000522112	processed_transcript	KNOWN	None	13634	None	None	120177273	120255768	1	None	None
8	MAL2	ENSG00000147676	ENST00000534619	processed_transcript	KNOWN	None	13634	None	None	120220188	120255762	1	None	None
8	MAL2	ENSG00000147676	ENST00000521748	processed_transcript	KNOWN	None	13634	None	None	120220610	120257913	1	None	None
8	MAL2	ENSG00000147676	ENST00000531508	processed_transcript	KNOWN	None	13634	None	None	120221108	120255888	1	None	None
8	MAL2	ENSG00000147676	ENST00000276681	protein_coding	KNOWN	None	13634	531	176	120220610	120257909	1	None	None
9	None	ENSG00000232355	ENST00000412680	unprocessed_pseudogene	KNOWN	None	None	None	None	137760082	137760321	1	None	None
8	None	ENSG00000238791	ENST00000459225	snoRNA	NOVEL	None	None	None	None	95918245	95918347	-1	None	None
5	None	ENSG00000261036	ENST00000569928	lincRNA	KNOWN	None	None	None	None	119681602	119740532	-1	None	None
12	CDK4	ENSG00000135446	ENST00000257904	protein_coding	KNOWN	CCDS8953	1773	912	303	58141510	58146304	-1	None	PSK-J3
12	CDK4	ENSG00000135446	ENST00000552713	retained_intron	KNOWN	None	1773	None	None	58142194	58143578	-1	None	PSK-J3
12	CDK4	ENSG00000135446	ENST00000549606	protein_coding	PUTATIVE	None	1773	123	40	58142209	58146136	-1	None	PSK-J3
12	CDK4	ENSG00000135446	ENST00000553237	nonsense_mediated_decay	KNOWN	None	1773	225	74	58142303	58146109	-1	None	PSK-J3
12	CDK4	ENSG00000135446	ENST00000546489	protein_coding	PUTATIVE	None	1773	624	207	58142374	58146105	-1	None	PSK-J3
12	CDK4	ENSG00000135446	ENST00000551888	processed_transcript	KNOWN	None	1773	None	None	58142974	58146116	-1	None	PSK-J3
12	CDK4	ENSG00000135446	ENST00000547281	protein_coding	PUTATIVE	None	1773	559	185	58143003	58146059	-1	None	PSK-J3
12	CDK4	ENSG00000135446	ENST00000550419	nonsense_mediated_decay	KNOWN	None	1773	606	201	58143017	58146078	-1	None	PSK-J3
12	CDK4	ENSG00000135446	ENST00000551800	protein_coding	PUTATIVE	None	1773	397	131	58144452	58146132	-1	None	PSK-J3
12	CDK4	ENSG00000135446	ENST00000552254	protein_coding	KNOWN	None	1773	609	202	58144462	58145660	-1	None	PSK-J3
12	CDK4	ENSG00000135446	ENST00000551706	retained_intron	KNOWN	None	1773	None	None	58144610	58146147	-1	None	PSK-J3
12	CDK4	ENSG00000135446	ENST00000552388	protein_coding	KNOWN	None	1773	511	169	58144717	58146105	-1	None	PSK-J3
12	CDK4	ENSG00000135446	ENST00000552862	protein_coding	KNOWN	None	1773	346	114	58144998	58149796	-1	None	PSK-J3
12	CDK4	ENSG00000135446	ENST00000547853	protein_coding	KNOWN	None	1773	6	1	58145495	58145898	-1	None	PSK-J3
12	CDK4	ENSG00000135446	ENST00000540325	protein_coding	KNOWN	None	1773	552	183	58142303	58146109	-1	None	PSK-J3
12	CDK4	ENSG00000135446	ENST00000312990	protein_coding	KNOWN	None	1773	336	111	58142045	58146115	-1	None	PSK-J3
HSCHR6_MHC_COX	None	ENSG00000258321	ENST00000546996	pseudogene	NOVEL	None	None	None	None	30470152	30470239	-1	None	None
5	None	ENSG00000254328	ENST00000521201	processed_pseudogene	KNOWN	None	None	None	None	172413683	172414201	1	None	None
21	TPTE	ENSG00000166157	ENST00000298232	protein_coding	KNOWN	CCDS33512	12023	1602	533	10906201	10990920	-1	None	PTEN2, CT44
21	TPTE	ENSG00000166157	ENST00000361285	protein_coding	KNOWN	CCDS13560	12023	1656	551	10906741	10990882	-1	None	PTEN2, CT44
21	TPTE	ENSG00000166157	ENST00000342420	protein_coding	KNOWN	CCDS33511	12023	1542	513	10906741	10990882	-1	None	PTEN2, CT44
21	TPTE	ENSG00000166157	ENST00000447568	processed_transcript	KNOWN	None	12023	None	None	10906741	10990882	-1	None	PTEN2, CT44
21	TPTE	ENSG00000166157	ENST00000415664	processed_transcript	KNOWN	None	12023	None	None	10906741	11029719	-1	None	PTEN2, CT44
21	TPTE	ENSG00000166157	ENST00000328758	protein_coding	PUTATIVE	None	12023	392	129	10951266	10990883	-1	None	PTEN2, CT44
1	None	ENSG00000203469	ENST00000424487	antisense	KNOWN	None	None	None	None	10518612	10519395	1	None	None
8	None	ENSG00000253878	ENST00000523905	sense_intronic	KNOWN	None	None	None	None	95962265	95963624	1	None	None
8	None	ENSG00000253878	ENST00000519034	sense_intronic	KNOWN	None	None	None	None	95962453	95963624	1	None	None
HSCHR6_MHC_COX	None	ENSG00000223827	ENST00000442976	processed_transcript	PUTATIVE	None	None	None	None	30473891	30476845	1	None	None
Y	DDX3Y	ENSG00000067048	ENST00000360160	protein_coding	KNOWN	CCDS14782	2699	1983	660	15016019	15030451	1	DBY	None
Y	DDX3Y	ENSG00000067048	ENST00000454054	protein_coding	KNOWN	None	2699	673	223	15016029	15025765	1	DBY	None
Y	DDX3Y	ENSG00000067048	ENST00000336079	protein_coding	KNOWN	CCDS14782	2699	1983	660	15016742	15032390	1	DBY	None
Y	DDX3Y	ENSG00000067048	ENST00000493363	processed_transcript	KNOWN	None	2699	None	None	15016760	15021607	1	DBY	None
Y	DDX3Y	ENSG00000067048	ENST00000440554	protein_coding	KNOWN	None	2699	750	249	15017649	15026561	1	DBY	None
Y	DDX3Y	ENSG00000067048	ENST00000469101	processed_transcript	PUTATIVE	None	2699	None	None	15024552	15025713	1	DBY	None
Y	DDX3Y	ENSG00000067048	ENST00000472510	processed_transcript	PUTATIVE	None	2699	None	None	15024875	15026811	1	DBY	None
Y	DDX3Y	ENSG00000067048	ENST00000463199	processed_transcript	PUTATIVE	None	2699	None	None	15024920	15027139	1	DBY	None
Y	DDX3Y	ENSG00000067048	ENST00000495478	processed_transcript	PUTATIVE	None	2699	None	None	15027408	15028265	1	DBY	None
5	SNORA74B	ENSG00000212402	ENST00000391100	snoRNA	KNOWN	None	32660	None	None	172447731	172447931	1	None	U19-2
5	None	ENSG00000207210	ENST00000384481	misc_RNA	NOVEL	None	None	None	None	172479455	172479558	-1	None	None
10	HSPA8P3	ENSG00000234788	ENST00000449300	processed_pseudogene	KNOWN	None	44918	None	None	27003551	27004761	1	None	None
22	CLCP1	ENSG00000232305	ENST00000455251	processed_pseudogene	KNOWN	None	19257	None	None	17903436	17903823	-1	None	None
HSCHR6_MHC_COX	None	ENSG00000257713	ENST00000547097	pseudogene	NOVEL	None	None	None	None	30488111	30489197	1	None	None
5	CDC42P5	ENSG00000253439	ENST00000518654	processed_pseudogene	KNOWN	None	44429	None	None	172512345	172513213	-1	None	None
10	C10orf53	ENSG00000178645	ENST00000374113	protein_coding	KNOWN	None	27421	282	93	50887697	50904090	1	None	Em:AC069546.1
10	C10orf53	ENSG00000178645	ENST00000374111	protein_coding	KNOWN	CCDS41521	27421	282	93	50887732	50903153	1	None	Em:AC069546.1
10	C10orf53	ENSG00000178645	ENST00000374112	protein_coding	KNOWN	CCDS31202	27421	474	157	50887732	50918307	1	None	Em:AC069546.1
10	C10orf53	ENSG00000178645	ENST00000535836	protein_coding	KNOWN	CCDS31202	27421	474	157	50887732	50918307	1	None	Em:AC069546.1
1	BARHL2	ENSG00000143032	ENST00000370445	protein_coding	KNOWN	CCDS730	954	1164	387	91177096	91182794	-1	None	None
22	DNAJA1P6	ENSG00000228045	ENST00000437347	processed_pseudogene	KNOWN	None	39342	None	None	17997708	17998061	-1	None	None
X	CHM	ENSG00000188419	ENST00000357749	protein_coding	KNOWN	CCDS14454	1940	1962	653	85116185	85302566	-1	TCD, DXS540	REP-1
X	CHM	ENSG00000188419	ENST00000467744	processed_transcript	KNOWN	None	1940	None	None	85116186	85302309	-1	TCD, DXS540	REP-1
X	CHM	ENSG00000188419	ENST00000358786	protein_coding	KNOWN	CCDS48139	1940	333	110	85224092	85302543	-1	TCD, DXS540	REP-1
X	CHM	ENSG00000188419	ENST00000487515	processed_transcript	KNOWN	None	1940	None	None	85233660	85236813	-1	TCD, DXS540	REP-1
X	CHM	ENSG00000188419	ENST00000483950	processed_transcript	KNOWN	None	1940	None	None	85281962	85302565	-1	TCD, DXS540	REP-1
X	CHM	ENSG00000188419	ENST00000537751	protein_coding	KNOWN	None	1940	1518	505	85119335	85302539	-1	TCD, DXS540	REP-1
15	TYRO3P	ENSG00000259581	ENST00000558165	processed_pseudogene	KNOWN	None	12447	None	None	76551327	76554031	-1	None	None
10	None	ENSG00000235843	ENST00000458171	antisense	KNOWN	None	None	None	None	27006564	27007707	1	None	None
22	None	ENSG00000236754	ENST00000443935	antisense	KNOWN	None	None	None	None	18062923	18071958	-1	None	None
12	ARHGAP9	ENSG00000123329	ENST00000393791	protein_coding	KNOWN	CCDS8941	14130	2196	731	57866038	57873633	-1	None	MGC1295, 10C
12	ARHGAP9	ENSG00000123329	ENST00000552953	retained_intron	KNOWN	None	14130	None	None	57866047	57870424	-1	None	MGC1295, 10C
12	ARHGAP9	ENSG00000123329	ENST00000424809	protein_coding	KNOWN	CCDS44929	14130	1923	640	57866047	57873415	-1	None	MGC1295, 10C
12	ARHGAP9	ENSG00000123329	ENST00000393797	protein_coding	PUTATIVE	None	14130	2466	821	57866047	57882597	-1	None	MGC1295, 10C
12	ARHGAP9	ENSG00000123329	ENST00000550399	protein_coding	NOVEL	None	14130	470	155	57866048	57868717	-1	None	MGC1295, 10C
12	ARHGAP9	ENSG00000123329	ENST00000546200	retained_intron	KNOWN	None	14130	None	None	57866049	57871634	-1	None	MGC1295, 10C
12	ARHGAP9	ENSG00000123329	ENST00000550288	protein_coding	NOVEL	None	14130	2211	736	57866049	57882509	-1	None	MGC1295, 10C
12	ARHGAP9	ENSG00000123329	ENST00000430041	protein_coding	KNOWN	CCDS44928	14130	1644	547	57866053	57871981	-1	None	MGC1295, 10C
12	ARHGAP9	ENSG00000123329	ENST00000550440	retained_intron	KNOWN	None	14130	None	None	57866260	57869194	-1	None	MGC1295, 10C
12	ARHGAP9	ENSG00000123329	ENST00000550130	protein_coding	NOVEL	None	14130	504	167	57866459	57869146	-1	None	MGC1295, 10C
12	ARHGAP9	ENSG00000123329	ENST00000546704	retained_intron	KNOWN	None	14130	None	None	57868052	57868923	-1	None	MGC1295, 10C
12	ARHGAP9	ENSG00000123329	ENST00000548139	protein_coding	KNOWN	None	14130	890	295	57869268	57871842	-1	None	MGC1295, 10C
12	ARHGAP9	ENSG00000123329	ENST00000548148	retained_intron	KNOWN	None	14130	None	None	57869861	57872120	-1	None	MGC1295, 10C
12	ARHGAP9	ENSG00000123329	ENST00000550454	processed_transcript	KNOWN	None	14130	None	None	57869919	57871639	-1	None	MGC1295, 10C
12	ARHGAP9	ENSG00000123329	ENST00000547200	processed_transcript	KNOWN	None	14130	None	None	57869941	57870120	-1	None	MGC1295, 10C
12	ARHGAP9	ENSG00000123329	ENST00000552604	protein_coding	NOVEL	None	14130	458	151	57870160	57871656	-1	None	MGC1295, 10C
12	ARHGAP9	ENSG00000123329	ENST00000552420	retained_intron	KNOWN	None	14130	None	None	57870513	57873629	-1	None	MGC1295, 10C
12	ARHGAP9	ENSG00000123329	ENST00000551574	retained_intron	KNOWN	None	14130	None	None	57870614	57871819	-1	None	MGC1295, 10C
12	ARHGAP9	ENSG00000123329	ENST00000551452	protein_coding	PUTATIVE	None	14130	522	173	57870654	57871567	-1	None	MGC1295, 10C
12	ARHGAP9	ENSG00000123329	ENST00000552066	protein_coding	KNOWN	None	14130	394	130	57870671	57872393	-1	None	MGC1295, 10C
12	ARHGAP9	ENSG00000123329	ENST00000547216	retained_intron	KNOWN	None	14130	None	None	57870717	57871599	-1	None	MGC1295, 10C
12	ARHGAP9	ENSG00000123329	ENST00000551000	retained_intron	KNOWN	None	14130	None	None	57870997	57871650	-1	None	MGC1295, 10C
12	ARHGAP9	ENSG00000123329	ENST00000549602	protein_coding	KNOWN	None	14130	183	60	57871263	57871933	-1	None	MGC1295, 10C
12	ARHGAP9	ENSG00000123329	ENST00000552249	protein_coding	PUTATIVE	None	14130	426	141	57871326	57873649	-1	None	MGC1295, 10C
12	ARHGAP9	ENSG00000123329	ENST00000356411	protein_coding	KNOWN	None	14130	2253	750	57866039	57873633	-1	None	MGC1295, 10C
1	None	ENSG00000254706	ENST00000431696	protein_coding	PUTATIVE	None	None	541	179	162335197	162351905	1	None	None
11	CD3E	ENSG00000198851	ENST00000361763	protein_coding	KNOWN	CCDS31685	1674	624	207	118175260	118186890	1	None	None
11	CD3E	ENSG00000198851	ENST00000529713	retained_intron	KNOWN	None	1674	None	None	118175445	118184056	1	None	None
11	CD3E	ENSG00000198851	ENST00000528435	retained_intron	KNOWN	None	1674	None	None	118175445	118184459	1	None	None
11	CD3E	ENSG00000198851	ENST00000526146	retained_intron	KNOWN	None	1674	None	None	118175452	118186890	1	None	None
11	CD3E	ENSG00000198851	ENST00000528600	protein_coding	NOVEL	None	1674	606	201	118175614	118186886	1	None	None
11	CD3E	ENSG00000198851	ENST00000531913	retained_intron	KNOWN	None	1674	None	None	118182859	118186701	1	None	None
20	TOP1	ENSG00000198900	ENST00000361337	protein_coding	KNOWN	CCDS13312	11986	2298	765	39657458	39753127	1	None	None
5	None	ENSG00000253172	ENST00000521251	antisense	KNOWN	None	None	None	None	172571165	172572042	-1	None	None
11	SYT8	ENSG00000149043	ENST00000430303	protein_coding	NOVEL	None	19264	307	101	1849537	1857164	1	None	DKFZp434K0322
11	SYT8	ENSG00000149043	ENST00000417052	protein_coding	NOVEL	None	19264	299	98	1849773	1857156	1	None	DKFZp434K0322
11	SYT8	ENSG00000149043	ENST00000479276	retained_intron	KNOWN	None	19264	None	None	1852317	1858751	1	None	DKFZp434K0322
11	SYT8	ENSG00000149043	ENST00000490707	retained_intron	KNOWN	None	19264	None	None	1855022	1858751	1	None	DKFZp434K0322
11	SYT8	ENSG00000149043	ENST00000479089	retained_intron	KNOWN	None	19264	None	None	1855540	1858751	1	None	DKFZp434K0322
11	SYT8	ENSG00000149043	ENST00000381968	protein_coding	KNOWN	CCDS7726	19264	1206	401	1855674	1858751	1	None	DKFZp434K0322
11	SYT8	ENSG00000149043	ENST00000464897	retained_intron	KNOWN	None	19264	None	None	1855706	1858751	1	None	DKFZp434K0322
11	SYT8	ENSG00000149043	ENST00000475245	retained_intron	KNOWN	None	19264	None	None	1855802	1857334	1	None	DKFZp434K0322
11	SYT8	ENSG00000149043	ENST00000381978	protein_coding	PUTATIVE	None	19264	1201	399	1855820	1858751	1	None	DKFZp434K0322
11	SYT8	ENSG00000149043	ENST00000341958	protein_coding	NOVEL	None	19264	1164	387	1856034	1858751	1	None	DKFZp434K0322
11	SYT8	ENSG00000149043	ENST00000424556	nonsense_mediated_decay	KNOWN	None	19264	390	129	1856101	1858751	1	None	DKFZp434K0322
11	SYT8	ENSG00000149043	ENST00000482118	retained_intron	KNOWN	None	19264	None	None	1856336	1856812	1	None	DKFZp434K0322
11	SYT8	ENSG00000149043	ENST00000483280	processed_transcript	PUTATIVE	None	19264	None	None	1856790	1857648	1	None	DKFZp434K0322
11	SYT8	ENSG00000149043	ENST00000494431	retained_intron	KNOWN	None	19264	None	None	1857259	1857782	1	None	DKFZp434K0322
11	SYT8	ENSG00000149043	ENST00000535046	protein_coding	KNOWN	None	19264	933	310	1852683	1858740	1	None	DKFZp434K0322
11	SYT8	ENSG00000149043	ENST00000436964	protein_coding	KNOWN	None	19264	477	158	1848709	1857516	1	None	DKFZp434K0322
22	None	ENSG00000251737	ENST00000515928	snoRNA	NOVEL	None	None	None	None	18124172	18124285	-1	None	None
14	EDDM3A	ENSG00000181562	ENST00000326842	protein_coding	KNOWN	CCDS9556	16978	444	147	21214051	21216539	1	FAM12A	HE3-ALPHA
8	None	ENSG00000253528	ENST00000521219	processed_pseudogene	KNOWN	None	None	None	None	95986801	95987081	-1	None	None
22	MIR3198-1	ENSG00000264757	ENST00000583102	miRNA	KNOWN	None	38236	None	None	18246946	18247025	-1	MIR3198	hsa-mir-3198-1
5	RPL7AP33	ENSG00000254200	ENST00000521552	processed_pseudogene	KNOWN	None	36679	None	None	172652839	172653426	-1	None	None
1	RN7SL614P	ENSG00000243267	ENST00000461850	misc_RNA	KNOWN	None	46630	None	None	10676893	10677170	1	None	None
15	None	ENSG00000259514	ENST00000559539	antisense	KNOWN	None	None	None	None	76631950	76634404	-1	None	None
HG299_PATCH	CCDC84	ENSG00000263192	ENST00000573263	protein_coding	KNOWN	None	30460	999	332	118868852	118886455	1	None	DLNB14
HG299_PATCH	CCDC84	ENSG00000263192	ENST00000575136	retained_intron	KNOWN	None	30460	None	None	118868855	118882972	1	None	DLNB14
HG299_PATCH	CCDC84	ENSG00000263192	ENST00000574276	nonsense_mediated_decay	KNOWN	None	30460	447	148	118868865	118886351	1	None	DLNB14
HG299_PATCH	CCDC84	ENSG00000263192	ENST00000571659	nonsense_mediated_decay	KNOWN	None	30460	585	194	118868878	118886351	1	None	DLNB14
HG299_PATCH	CCDC84	ENSG00000263192	ENST00000574118	retained_intron	KNOWN	None	30460	None	None	118868885	118870592	1	None	DLNB14
HG299_PATCH	CCDC84	ENSG00000263192	ENST00000583749	processed_transcript	KNOWN	None	30460	None	None	118869751	118885056	1	None	DLNB14
HG299_PATCH	CCDC84	ENSG00000263192	ENST00000573305	retained_intron	KNOWN	None	30460	None	None	118880244	118882887	1	None	DLNB14
HG299_PATCH	CCDC84	ENSG00000263192	ENST00000581628	retained_intron	KNOWN	None	30460	None	None	118881917	118885802	1	None	DLNB14
HG299_PATCH	CCDC84	ENSG00000263192	ENST00000576531	retained_intron	KNOWN	None	30460	None	None	118882669	118886501	1	None	DLNB14
HG299_PATCH	CCDC84	ENSG00000263192	ENST00000572939	retained_intron	KNOWN	None	30460	None	None	118884776	118886138	1	None	DLNB14
6	None	ENSG00000243236	ENST00000448991	processed_transcript	KNOWN	None	None	None	None	52804524	52810263	-1	None	None
6	None	ENSG00000243236	ENST00000406231	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	52804704	52822319	-1	None	None
9	PKN3	ENSG00000160447	ENST00000291906	protein_coding	KNOWN	CCDS6908	17999	2670	889	131464802	131483197	1	None	PKNbeta
9	PKN3	ENSG00000160447	ENST00000483521	processed_transcript	KNOWN	None	17999	None	None	131475396	131483019	1	None	PKNbeta
9	PKN3	ENSG00000160447	ENST00000485301	processed_transcript	KNOWN	None	17999	None	None	131476885	131482289	1	None	PKNbeta
5	None	ENSG00000201277	ENST00000364407	misc_RNA	NOVEL	None	None	None	None	172681193	172681293	-1	None	None
22	None	ENSG00000093100	ENST00000476405	retained_intron	KNOWN	None	None	None	None	18270418	18294263	-1	None	None
8	RNU6-1209P	ENSG00000200525	ENST00000363655	snRNA	KNOWN	None	48172	None	None	96067442	96067548	1	None	None
5	RNA5SP200	ENSG00000252169	ENST00000516360	rRNA	KNOWN	None	43100	None	None	172719520	172719622	-1	RN5S200	None
8	EFR3A	ENSG00000132294	ENST00000254624	protein_coding	KNOWN	CCDS34942	28970	2466	821	132916335	133025889	1	None	KIAA0143
8	EFR3A	ENSG00000132294	ENST00000522709	protein_coding	PUTATIVE	None	28970	399	132	132916356	132966083	1	None	KIAA0143
8	EFR3A	ENSG00000132294	ENST00000520362	protein_coding	PUTATIVE	None	28970	40	12	132952128	132957052	1	None	KIAA0143
8	EFR3A	ENSG00000132294	ENST00000519656	protein_coding	PUTATIVE	None	28970	2358	785	132952148	133025889	1	None	KIAA0143
8	EFR3A	ENSG00000132294	ENST00000519920	processed_transcript	KNOWN	None	28970	None	None	132996386	133013203	1	None	KIAA0143
8	EFR3A	ENSG00000132294	ENST00000523074	retained_intron	KNOWN	None	28970	None	None	133008637	133023326	1	None	KIAA0143
8	EFR3A	ENSG00000132294	ENST00000521940	processed_transcript	KNOWN	None	28970	None	None	133013002	133023393	1	None	KIAA0143
8	EFR3A	ENSG00000132294	ENST00000334503	protein_coding	KNOWN	None	28970	2466	821	132947755	133025452	1	None	KIAA0143
19	None	ENSG00000269473	ENST00000595059	lincRNA	KNOWN	None	None	None	None	58951815	58957216	1	None	None
4	None	ENSG00000226439	ENST00000461060	processed_pseudogene	KNOWN	None	None	None	None	62641167	62641568	-1	None	None
5	RNU6-500P	ENSG00000199219	ENST00000362349	snRNA	KNOWN	None	47463	None	None	172789137	172789243	-1	None	None
1	None	ENSG00000272078	ENST00000606802	antisense	KNOWN	None	None	None	None	10699298	10714390	1	None	None
15	DNM1P42	ENSG00000259637	ENST00000560794	unprocessed_pseudogene	KNOWN	None	35192	None	None	83200404	83202890	-1	DNM1DN11@	DNM1DN11-8
8	MIR3150A	ENSG00000245080	ENST00000501164	antisense	KNOWN	None	38362	None	None	96079036	96085148	-1	MIR3150	hsa-mir-3150, hsa-mir-3150a
8	MIR3150A	ENSG00000245080	ENST00000517864	antisense	KNOWN	None	38362	None	None	96081152	96085410	-1	MIR3150	hsa-mir-3150, hsa-mir-3150a
8	MIR3150A	ENSG00000245080	ENST00000580142	miRNA	KNOWN	None	38362	None	None	96085139	96085224	-1	MIR3150	hsa-mir-3150, hsa-mir-3150a
8	MIR3150B	ENSG00000245080	ENST00000501164	antisense	KNOWN	None	38938	None	None	96079036	96085148	-1	None	hsa-mir-3150b
8	MIR3150B	ENSG00000245080	ENST00000517864	antisense	KNOWN	None	38938	None	None	96081152	96085410	-1	None	hsa-mir-3150b
8	MIR3150B	ENSG00000245080	ENST00000580142	miRNA	KNOWN	None	38938	None	None	96085139	96085224	-1	None	hsa-mir-3150b
19	None	ENSG00000269106	ENST00000598051	antisense	KNOWN	None	None	None	None	58986722	58987130	-1	None	None
1	C1orf226	ENSG00000239887	ENST00000420220	protein_coding	KNOWN	None	34351	513	170	162336698	162353167	1	None	FLJ13137
1	C1orf226	ENSG00000239887	ENST00000426197	protein_coding	KNOWN	CCDS44268	34351	948	315	162348631	162353501	1	None	FLJ13137
1	C1orf226	ENSG00000239887	ENST00000458626	protein_coding	KNOWN	CCDS53422	34351	819	272	162351520	162356600	1	None	FLJ13137
5	None	ENSG00000253968	ENST00000523205	lincRNA	KNOWN	None	None	None	None	172841038	172878168	1	None	None
6	None	ENSG00000252106	ENST00000516297	misc_RNA	NOVEL	None	None	None	None	52843956	52844053	-1	None	None
15	OR4M2	ENSG00000182974	ENST00000332663	protein_coding	PUTATIVE	CCDS32172	15373	942	313	22368478	22369561	1	None	None
5	None	ENSG00000252968	ENST00000517159	miRNA	NOVEL	None	None	None	None	142029565	142029647	-1	None	None
17	PAFAH1B1	ENSG00000007168	ENST00000576586	protein_coding	KNOWN	None	8574	246	81	2496504	2570339	1	MDCR, MDS	LIS1, PAFAH
17	PAFAH1B1	ENSG00000007168	ENST00000397195	protein_coding	KNOWN	CCDS32528	8574	1233	410	2497040	2588909	1	MDCR, MDS	LIS1, PAFAH
17	PAFAH1B1	ENSG00000007168	ENST00000575477	processed_transcript	KNOWN	None	8574	None	None	2497109	2569384	1	MDCR, MDS	LIS1, PAFAH
17	PAFAH1B1	ENSG00000007168	ENST00000572915	nonsense_mediated_decay	KNOWN	None	8574	45	14	2497251	2587793	1	MDCR, MDS	LIS1, PAFAH
17	PAFAH1B1	ENSG00000007168	ENST00000570400	nonsense_mediated_decay	KNOWN	None	8574	45	14	2497256	2570476	1	MDCR, MDS	LIS1, PAFAH
17	PAFAH1B1	ENSG00000007168	ENST00000571289	retained_intron	KNOWN	None	8574	None	None	2497262	2541942	1	MDCR, MDS	LIS1, PAFAH
17	PAFAH1B1	ENSG00000007168	ENST00000574816	processed_transcript	KNOWN	None	8574	None	None	2512833	2585204	1	MDCR, MDS	LIS1, PAFAH
17	PAFAH1B1	ENSG00000007168	ENST00000397193	processed_transcript	KNOWN	None	8574	None	None	2570588	2585332	1	MDCR, MDS	LIS1, PAFAH
17	PAFAH1B1	ENSG00000007168	ENST00000574468	protein_coding	PUTATIVE	None	8574	627	208	2573562	2585490	1	MDCR, MDS	LIS1, PAFAH
17	PAFAH1B1	ENSG00000007168	ENST00000571495	retained_intron	KNOWN	None	8574	None	None	2576959	2585642	1	MDCR, MDS	LIS1, PAFAH
17	PAFAH1B1	ENSG00000007168	ENST00000574213	processed_transcript	PUTATIVE	None	8574	None	None	2584138	2585151	1	MDCR, MDS	LIS1, PAFAH
17	PAFAH1B1	ENSG00000007168	ENST00000451360	protein_coding	KNOWN	None	8574	618	205	2573562	2585490	1	MDCR, MDS	LIS1, PAFAH
19	RNU6-1337P	ENSG00000252334	ENST00000516525	snRNA	KNOWN	None	48300	None	None	58995116	58995210	-1	None	None
4	None	ENSG00000202169	ENST00000365299	misc_RNA	NOVEL	None	None	None	None	62772031	62772126	1	None	None
6	RN7SK	ENSG00000202198	ENST00000365328	misc_RNA	KNOWN	None	10037	None	None	52860418	52860748	1	None	7SK
5	None	ENSG00000261757	ENST00000566527	lincRNA	KNOWN	None	None	None	None	142083347	142084986	1	None	None
5	RNU6-658P	ENSG00000207336	ENST00000384606	snRNA	KNOWN	None	47621	None	None	74020924	74021029	-1	None	None
5	None	ENSG00000253141	ENST00000519400	lincRNA	KNOWN	None	None	None	None	172890503	172896884	1	None	None
5	None	ENSG00000253141	ENST00000518605	lincRNA	KNOWN	None	None	None	None	172896685	172911587	1	None	None
19	RN7SL693P	ENSG00000265272	ENST00000579576	misc_RNA	KNOWN	None	46709	None	None	59002214	59002488	-1	None	None
6	RN7SL244P	ENSG00000242865	ENST00000493405	misc_RNA	KNOWN	None	46260	None	None	52955759	52956056	1	None	None
5	RNU6-1330P	ENSG00000199645	ENST00000362775	snRNA	KNOWN	None	48293	None	None	74075134	74075238	1	None	None
7	CDCA7L	ENSG00000164649	ENST00000356195	protein_coding	KNOWN	CCDS47559	30777	1263	420	21940518	21985496	-1	None	RAM2, R1, JPO2
7	CDCA7L	ENSG00000164649	ENST00000488845	retained_intron	KNOWN	None	30777	None	None	21940519	21945327	-1	None	RAM2, R1, JPO2
7	CDCA7L	ENSG00000164649	ENST00000406877	protein_coding	KNOWN	CCDS5374	30777	1365	454	21940519	21985702	-1	None	RAM2, R1, JPO2
7	CDCA7L	ENSG00000164649	ENST00000373934	protein_coding	KNOWN	CCDS47558	30777	1227	408	21941417	21985502	-1	None	RAM2, R1, JPO2
7	CDCA7L	ENSG00000164649	ENST00000435717	protein_coding	PUTATIVE	None	30777	295	97	21942272	21943877	-1	None	RAM2, R1, JPO2
7	CDCA7L	ENSG00000164649	ENST00000489669	retained_intron	KNOWN	None	30777	None	None	21943377	21945193	-1	None	RAM2, R1, JPO2
7	CDCA7L	ENSG00000164649	ENST00000465490	processed_transcript	KNOWN	None	30777	None	None	21943768	21956515	-1	None	RAM2, R1, JPO2
7	CDCA7L	ENSG00000164649	ENST00000457951	protein_coding	NOVEL	None	30777	469	155	21947819	21985521	-1	None	RAM2, R1, JPO2
7	CDCA7L	ENSG00000164649	ENST00000447180	protein_coding	NOVEL	None	30777	339	112	21947985	21985496	-1	None	RAM2, R1, JPO2
7	CDCA7L	ENSG00000164649	ENST00000435031	protein_coding	KNOWN	None	30777	288	95	21948039	21984491	-1	None	RAM2, R1, JPO2
19	RN7SL525P	ENSG00000264910	ENST00000579267	misc_RNA	KNOWN	None	46541	None	None	59054670	59054945	-1	None	None
17	NTN1	ENSG00000065320	ENST00000173229	protein_coding	KNOWN	CCDS11148	8029	1815	604	8924859	9147317	1	None	NTN1L
17	NTN1	ENSG00000065320	ENST00000436734	protein_coding	PUTATIVE	None	8029	462	153	9066252	9086993	1	None	NTN1L
17	NTN1	ENSG00000065320	ENST00000538852	protein_coding	KNOWN	CCDS11148	8029	1815	604	8925554	9147317	1	None	NTN1L
17	NTN1	ENSG00000065320	ENST00000546090	protein_coding	KNOWN	CCDS11148	8029	1815	604	8925620	9147317	1	None	NTN1L
6	None	ENSG00000261745	ENST00000566420	sense_overlapping	KNOWN	None	None	None	None	52990445	52990944	-1	None	None
16	SNX29P1	ENSG00000158482	ENST00000548357	unprocessed_pseudogene	KNOWN	None	31913	None	None	21391494	21397385	1	RUNDC2B	None
16	SNX29P1	ENSG00000158482	ENST00000324089	unprocessed_pseudogene	KNOWN	None	31913	None	None	21391313	21403412	1	RUNDC2B	None
22	MIR648	ENSG00000207780	ENST00000385046	miRNA	KNOWN	None	32904	None	None	18463634	18463727	-1	MIRN648	hsa-mir-648
5	None	ENSG00000250071	ENST00000511688	processed_pseudogene	KNOWN	None	None	None	None	74094819	74095925	1	None	None
X	SHC1P1	ENSG00000230889	ENST00000425230	processed_pseudogene	KNOWN	None	10841	None	None	63652281	63654025	1	None	None
4	None	ENSG00000248692	ENST00000504135	antisense	KNOWN	None	None	None	None	62937470	63031263	-1	None	None
4	None	ENSG00000248692	ENST00000506704	antisense	KNOWN	None	None	None	None	62937473	63031272	-1	None	None
4	None	ENSG00000248692	ENST00000509461	antisense	KNOWN	None	None	None	None	62938565	63031272	-1	None	None
4	None	ENSG00000248692	ENST00000502339	antisense	KNOWN	None	None	None	None	62983623	63002474	-1	None	None
19	None	ENSG00000267858	ENST00000593642	antisense	KNOWN	None	None	None	None	59070496	59081951	1	None	None
19	None	ENSG00000267858	ENST00000600726	antisense	KNOWN	None	None	None	None	59070553	59082396	1	None	None
19	None	ENSG00000267858	ENST00000600534	antisense	KNOWN	None	None	None	None	59070592	59086164	1	None	None
15	None	ENSG00000270036	ENST00000602530	lincRNA	KNOWN	None	None	None	None	76635983	76636706	1	None	None
11	FDXACB1	ENSG00000255561	ENST00000260257	protein_coding	KNOWN	CCDS44729	25110	1875	624	111744780	111749904	-1	None	LOC91893, hCG_2033039
11	FDXACB1	ENSG00000255561	ENST00000531487	nonsense_mediated_decay	KNOWN	None	25110	318	105	111745483	111750181	-1	None	LOC91893, hCG_2033039
11	FDXACB1	ENSG00000255561	ENST00000528274	protein_coding	PUTATIVE	None	25110	1188	395	111746066	111751967	-1	None	LOC91893, hCG_2033039
11	FDXACB1	ENSG00000255561	ENST00000542429	protein_coding	KNOWN	None	25110	1428	475	111745483	111749811	-1	None	LOC91893, hCG_2033039
15	OR4N4	ENSG00000183706	ENST00000328795	protein_coding	KNOWN	CCDS32173	15375	951	316	22382382	22383507	1	None	None
6	None	ENSG00000251930	ENST00000516121	snoRNA	NOVEL	None	None	None	None	53012606	53012727	-1	None	None
6	AKAP7	ENSG00000118507	ENST00000431975	protein_coding	NOVEL	CCDS5142	377	1047	348	131456806	131604675	1	None	AKAP18, AKAP15
6	AKAP7	ENSG00000118507	ENST00000541650	protein_coding	NOVEL	None	377	1053	350	131456877	131604672	1	None	AKAP18, AKAP15
6	AKAP7	ENSG00000118507	ENST00000366358	processed_transcript	KNOWN	None	377	None	None	131458518	131505698	1	None	AKAP18, AKAP15
6	AKAP7	ENSG00000118507	ENST00000479599	nonsense_mediated_decay	KNOWN	None	377	155	50	131481199	131490375	1	None	AKAP18, AKAP15
6	AKAP7	ENSG00000118507	ENST00000543815	processed_transcript	KNOWN	None	377	None	None	131481315	131540890	1	None	AKAP18, AKAP15
6	AKAP7	ENSG00000118507	ENST00000535150	retained_intron	KNOWN	None	377	None	None	131485476	131603984	1	None	AKAP18, AKAP15
6	AKAP7	ENSG00000118507	ENST00000537868	protein_coding	PUTATIVE	None	377	264	87	131521131	131604324	1	None	AKAP18, AKAP15
6	AKAP7	ENSG00000118507	ENST00000263050	protein_coding	PUTATIVE	None	377	255	84	131521967	131604675	1	None	AKAP18, AKAP15
6	AKAP7	ENSG00000118507	ENST00000342266	protein_coding	KNOWN	CCDS5143	377	246	81	131571299	131604672	1	None	AKAP18, AKAP15
6	AKAP7	ENSG00000118507	ENST00000474850	protein_coding	KNOWN	CCDS5144	377	315	104	131571570	131603083	1	None	AKAP18, AKAP15
6	AKAP7	ENSG00000118507	ENST00000368123	protein_coding	KNOWN	None	377	981	326	131466461	131604673	1	None	AKAP18, AKAP15
7	None	ENSG00000234185	ENST00000435524	antisense	KNOWN	None	None	None	None	65584590	65629998	-1	None	None
X	YWHAZP7	ENSG00000227261	ENST00000436906	processed_pseudogene	KNOWN	None	39028	None	None	63832512	63833142	-1	None	None
10	C1DP4	ENSG00000227515	ENST00000455429	processed_pseudogene	KNOWN	None	38028	None	None	81800377	81800800	-1	None	None
6	RNU6-464P	ENSG00000253026	ENST00000517217	snRNA	KNOWN	None	47427	None	None	53018593	53018696	-1	None	None
5	None	ENSG00000271714	ENST00000606270	antisense	KNOWN	None	None	None	None	74161718	74163679	1	None	None
15	None	ENSG00000261232	ENST00000566966	processed_pseudogene	KNOWN	None	None	None	None	76764440	76764706	1	None	None
X	KRT8P27	ENSG00000226502	ENST00000447301	processed_pseudogene	KNOWN	None	33379	None	None	63842997	63844453	1	None	None
6	SOD1P1	ENSG00000219074	ENST00000407803	processed_pseudogene	KNOWN	None	45134	None	None	53061518	53061957	-1	None	None
7	RNU6-313P	ENSG00000252126	ENST00000516317	snRNA	KNOWN	None	47276	None	None	65809291	65809401	1	None	None
4	MAD2L1	ENSG00000164109	ENST00000296509	protein_coding	KNOWN	CCDS3715	6763	618	205	120980577	120988229	-1	None	MAD2, HSMAD2
4	MAD2L1	ENSG00000164109	ENST00000333047	nonsense_mediated_decay	KNOWN	None	6763	273	90	120980592	120987988	-1	None	MAD2, HSMAD2
4	MAD2L1	ENSG00000164109	ENST00000512484	retained_intron	KNOWN	None	6763	None	None	120980983	120982191	-1	None	MAD2, HSMAD2
4	MAD2L1	ENSG00000164109	ENST00000504707	nonsense_mediated_decay	KNOWN	None	6763	126	41	120980983	120988013	-1	None	MAD2, HSMAD2
4	MAD2L1	ENSG00000164109	ENST00000511295	retained_intron	KNOWN	None	6763	None	None	120986606	120987976	-1	None	MAD2, HSMAD2
5	None	ENSG00000212363	ENST00000391061	snoRNA	NOVEL	None	None	None	None	74178481	74178608	-1	None	None
1	None	ENSG00000225158	ENST00000450782	processed_pseudogene	KNOWN	None	None	None	None	10955818	10956055	1	None	None
X	GRPEL2P2	ENSG00000225814	ENST00000421856	processed_pseudogene	KNOWN	None	41970	None	None	63917758	63918427	-1	None	None
10	TMEM254-AS1	ENSG00000230091	ENST00000412298	antisense	KNOWN	None	27340	None	None	81806616	81838651	-1	None	None
10	TMEM254-AS1	ENSG00000230091	ENST00000448729	antisense	KNOWN	None	27340	None	None	81807463	81838600	-1	None	None
10	TMEM254-AS1	ENSG00000230091	ENST00000432070	antisense	KNOWN	None	27340	None	None	81807478	81838668	-1	None	None
5	None	ENSG00000249856	ENST00000505200	lincRNA	KNOWN	None	None	None	None	74213551	74319753	-1	None	None
22	None	ENSG00000235445	ENST00000429618	sense_intronic	KNOWN	None	None	None	None	18465971	18466385	-1	None	None
7	LINC00174	ENSG00000179406	ENST00000421767	lincRNA	KNOWN	None	27788	None	None	65841031	65866325	-1	NCRNA00174	None
7	LINC00174	ENSG00000179406	ENST00000416572	lincRNA	KNOWN	None	27788	None	None	65844814	65860906	-1	NCRNA00174	None
7	LINC00174	ENSG00000179406	ENST00000438894	lincRNA	KNOWN	None	27788	None	None	65847406	65856529	-1	NCRNA00174	None
7	LINC00174	ENSG00000179406	ENST00000416366	lincRNA	KNOWN	None	27788	None	None	65855118	65858716	-1	NCRNA00174	None
Y	ACTG1P2	ENSG00000229129	ENST00000415776	processed_pseudogene	KNOWN	None	147	None	None	19868881	19870005	-1	ACTL2, ACTGP2	None
X	ARHGEF6	ENSG00000129675	ENST00000370620	protein_coding	KNOWN	None	685	1869	622	135747706	135849502	-1	MRX46	alphaPIX, Cool-2, KIAA0006, alpha-PIX, Cool2
X	ARHGEF6	ENSG00000129675	ENST00000370622	protein_coding	KNOWN	None	685	1869	622	135747706	135850786	-1	MRX46	alphaPIX, Cool-2, KIAA0006, alpha-PIX, Cool2
X	ARHGEF6	ENSG00000129675	ENST00000250617	protein_coding	KNOWN	CCDS14660	685	2331	776	135747706	135864247	-1	MRX46	alphaPIX, Cool-2, KIAA0006, alpha-PIX, Cool2
X	ARHGEF6	ENSG00000129675	ENST00000535227	protein_coding	KNOWN	None	685	1950	649	135749946	135849551	-1	MRX46	alphaPIX, Cool-2, KIAA0006, alpha-PIX, Cool2
5	None	ENSG00000236714	ENST00000432677	lincRNA	KNOWN	None	None	None	None	142125165	142140563	1	None	None
7	KLHL7-AS1	ENSG00000230658	ENST00000419813	processed_transcript	KNOWN	None	43431	None	None	23140847	23145322	-1	None	PLATAK
5	None	ENSG00000196390	ENST00000509680	processed_pseudogene	KNOWN	None	None	None	None	74225705	74226391	1	None	None
Y	None	ENSG00000250868	ENST00000510392	unprocessed_pseudogene	KNOWN	None	None	None	None	19880996	19889280	-1	None	None
Y	None	ENSG00000250868	ENST00000354494	pseudogene	KNOWN	None	None	None	None	19880862	19882440	-1	None	None
15	IGHV1OR15-1	ENSG00000270505	ENST00000604066	IG_V_gene	KNOWN	None	5563	353	116	22448382	22448819	-1	None	IGHV1/OR15-1
5	None	ENSG00000239517	ENST00000477662	processed_pseudogene	KNOWN	None	None	None	None	74227487	74227642	1	None	None
10	PRF1	ENSG00000180644	ENST00000373209	protein_coding	KNOWN	CCDS7305	9360	1668	555	72357104	72362515	-1	None	PFP, P1, HPLH2
10	PRF1	ENSG00000180644	ENST00000441259	protein_coding	KNOWN	CCDS7305	9360	1668	555	72357105	72362531	-1	None	PFP, P1, HPLH2
1	C1orf111	ENSG00000171722	ENST00000367935	protein_coding	KNOWN	CCDS1238	27648	786	261	162343515	162346660	-1	None	None
1	C1orf111	ENSG00000171722	ENST00000493255	processed_transcript	KNOWN	None	27648	None	None	162344234	162346598	-1	None	None
5	ARHGAP26-AS1	ENSG00000226272	ENST00000433595	antisense	KNOWN	None	40792	None	None	142239169	142248475	-1	None	None
5	ARHGAP26-AS1	ENSG00000226272	ENST00000432015	antisense	KNOWN	None	40792	None	None	142239169	142248481	-1	None	None
5	ARHGAP26-AS1	ENSG00000226272	ENST00000434610	antisense	KNOWN	None	40792	None	None	142239169	142248487	-1	None	None
5	None	ENSG00000182383	ENST00000469428	processed_pseudogene	KNOWN	None	None	None	None	74286014	74286462	-1	None	None
4	DDIT4L	ENSG00000145358	ENST00000273990	protein_coding	KNOWN	CCDS34036	30555	582	193	101107027	101111625	-1	None	REDD2, Rtp801L
4	DDIT4L	ENSG00000145358	ENST00000502763	protein_coding	KNOWN	None	30555	531	176	101108885	101111461	-1	None	REDD2, Rtp801L
4	DDIT4L	ENSG00000145358	ENST00000513992	protein_coding	KNOWN	None	30555	384	127	101109032	101111939	-1	None	REDD2, Rtp801L
5	None	ENSG00000249157	ENST00000509755	processed_pseudogene	KNOWN	None	None	None	None	74302538	74302837	-1	None	None
22	None	ENSG00000234913	ENST00000441167	sense_intronic	KNOWN	None	None	None	None	18487036	18490074	-1	None	None
Y	USP9YP23	ENSG00000223555	ENST00000455085	unprocessed_pseudogene	KNOWN	None	38759	None	None	19894090	19896695	1	None	None
X	BMP15	ENSG00000130385	ENST00000252677	protein_coding	KNOWN	CCDS14334	1068	1179	392	50653784	50659607	1	None	GDF9B
5	None	ENSG00000250889	ENST00000503568	lincRNA	KNOWN	None	None	None	None	74343544	74348468	-1	None	None
5	None	ENSG00000250889	ENST00000506086	lincRNA	KNOWN	None	None	None	None	74343858	74348668	-1	None	None
4	PABPC4L	ENSG00000254535	ENST00000421491	protein_coding	KNOWN	None	31955	1113	370	135117488	135122903	-1	None	None
4	PABPC4L	ENSG00000254535	ENST00000529122	protein_coding	KNOWN	None	31955	1287	428	135117488	135122903	-1	None	None
11	RNASEH2C	ENSG00000172922	ENST00000534482	nonsense_mediated_decay	KNOWN	None	24116	389	128	65482367	65487954	-1	None	AYP1, AGS3
11	RNASEH2C	ENSG00000172922	ENST00000308418	protein_coding	KNOWN	CCDS8111	24116	495	164	65485144	65488418	-1	None	AYP1, AGS3
11	RNASEH2C	ENSG00000172922	ENST00000533698	nonsense_mediated_decay	KNOWN	None	24116	374	123	65486007	65487939	-1	None	AYP1, AGS3
11	RNASEH2C	ENSG00000172922	ENST00000531596	nonsense_mediated_decay	KNOWN	None	24116	476	157	65486238	65488210	-1	None	AYP1, AGS3
11	RNASEH2C	ENSG00000172922	ENST00000528220	protein_coding	PUTATIVE	None	24116	246	81	65486641	65488289	-1	None	AYP1, AGS3
11	RNASEH2C	ENSG00000172922	ENST00000527610	protein_coding	PUTATIVE	None	24116	744	247	65487192	65488272	-1	None	AYP1, AGS3
11	RNASEH2C	ENSG00000172922	ENST00000530192	retained_intron	KNOWN	None	24116	None	None	65487525	65488269	-1	None	AYP1, AGS3
15	None	ENSG00000269182	ENST00000599120	protein_coding	NOVEL	None	None	33	10	22456895	22460351	1	None	None
Y	USP9YP27	ENSG00000235521	ENST00000418455	unprocessed_pseudogene	KNOWN	None	38763	None	None	19900195	19901364	-1	None	None
19	MIR1302-2	ENSG00000267588	ENST00000590978	lincRNA	KNOWN	None	35294	None	None	71161	72718	1	MIRN1302-2	hsa-mir-1302-2
19	MIR1302-2	ENSG00000267588	ENST00000586110	lincRNA	KNOWN	None	35294	None	None	71786	72719	1	MIRN1302-2	hsa-mir-1302-2
19	MIR1302-2	ENSG00000267588	ENST00000408051	miRNA	KNOWN	None	35294	None	None	71973	72110	1	MIRN1302-2	hsa-mir-1302-2
19	MIR1302-9	ENSG00000267588	ENST00000590978	lincRNA	KNOWN	None	38218	None	None	71161	72718	1	None	hsa-mir-1302-9
19	MIR1302-9	ENSG00000267588	ENST00000586110	lincRNA	KNOWN	None	38218	None	None	71786	72719	1	None	hsa-mir-1302-9
19	MIR1302-9	ENSG00000267588	ENST00000408051	miRNA	KNOWN	None	38218	None	None	71973	72110	1	None	hsa-mir-1302-9
19	MIR1302-10	ENSG00000267588	ENST00000590978	lincRNA	KNOWN	None	38233	None	None	71161	72718	1	None	hsa-mir-1302-10
19	MIR1302-10	ENSG00000267588	ENST00000586110	lincRNA	KNOWN	None	38233	None	None	71786	72719	1	None	hsa-mir-1302-10
19	MIR1302-10	ENSG00000267588	ENST00000408051	miRNA	KNOWN	None	38233	None	None	71973	72110	1	None	hsa-mir-1302-10
19	MIR1302-11	ENSG00000267588	ENST00000590978	lincRNA	KNOWN	None	38246	None	None	71161	72718	1	None	hsa-mir-1302-11
19	MIR1302-11	ENSG00000267588	ENST00000586110	lincRNA	KNOWN	None	38246	None	None	71786	72719	1	None	hsa-mir-1302-11
19	MIR1302-11	ENSG00000267588	ENST00000408051	miRNA	KNOWN	None	38246	None	None	71973	72110	1	None	hsa-mir-1302-11
7	RNU6-96P	ENSG00000222364	ENST00000410432	snRNA	KNOWN	None	47059	None	None	65860178	65860273	1	None	None
22	RHEBP3	ENSG00000237446	ENST00000411920	processed_pseudogene	KNOWN	None	44992	None	None	18501980	18502966	1	None	None
5	GLRX	ENSG00000173221	ENST00000508780	protein_coding	KNOWN	CCDS4078	4330	321	106	95087023	95158430	-1	None	GRX, GRX1
5	GLRX	ENSG00000173221	ENST00000507605	processed_transcript	KNOWN	None	4330	None	None	95117040	95157995	-1	None	GRX, GRX1
5	GLRX	ENSG00000173221	ENST00000237858	protein_coding	KNOWN	CCDS4078	4330	321	106	95149553	95158709	-1	None	GRX, GRX1
5	GLRX	ENSG00000173221	ENST00000379979	protein_coding	KNOWN	CCDS4078	4330	321	106	95149675	95158418	-1	None	GRX, GRX1
5	GLRX	ENSG00000173221	ENST00000507412	retained_intron	KNOWN	None	4330	None	None	95149683	95155206	-1	None	GRX, GRX1
5	GLRX	ENSG00000173221	ENST00000505427	protein_coding	KNOWN	CCDS4078	4330	321	106	95150267	95158426	-1	None	GRX, GRX1
5	GLRX	ENSG00000173221	ENST00000512469	protein_coding	KNOWN	CCDS4078	4330	321	106	95152114	95158415	-1	None	GRX, GRX1
20	None	ENSG00000236985	ENST00000422574	lincRNA	KNOWN	None	None	None	None	16838607	16844793	-1	None	None
5	SUMO2P5	ENSG00000251663	ENST00000506790	processed_pseudogene	KNOWN	None	39015	None	None	74521249	74521493	1	None	None
7	None	ENSG00000251451	ENST00000502460	unprocessed_pseudogene	KNOWN	None	None	None	None	65872275	65874226	-1	None	None
Y	RNU1-128P	ENSG00000252513	ENST00000516704	snRNA	KNOWN	None	48470	None	None	19900883	19901042	-1	None	None
1	CFL1P6	ENSG00000215785	ENST00000400899	processed_pseudogene	KNOWN	None	34545	None	None	11051035	11051854	-1	CFLP6	None
17	PPY2	ENSG00000265060	ENST00000583761	processed_transcript	KNOWN	None	9328	None	None	26574470	26575315	1	None	None
17	PPY2	ENSG00000265060	ENST00000582808	transcribed_unprocessed_pseudogene	KNOWN	None	9328	None	None	26574470	26575315	1	None	None
1	ZNF644	ENSG00000122482	ENST00000370440	protein_coding	KNOWN	CCDS731	29222	3984	1327	91380859	91487030	-1	None	KIAA1221, BM-005, MGC60165, MGC70410
1	ZNF644	ENSG00000122482	ENST00000347275	protein_coding	KNOWN	CCDS732	29222	318	105	91380861	91487014	-1	None	KIAA1221, BM-005, MGC60165, MGC70410
1	ZNF644	ENSG00000122482	ENST00000361321	protein_coding	PUTATIVE	CCDS732	29222	318	105	91381742	91487829	-1	None	KIAA1221, BM-005, MGC60165, MGC70410
1	ZNF644	ENSG00000122482	ENST00000467231	processed_transcript	KNOWN	None	29222	None	None	91381947	91487571	-1	None	KIAA1221, BM-005, MGC60165, MGC70410
1	ZNF644	ENSG00000122482	ENST00000479798	processed_transcript	KNOWN	None	29222	None	None	91382047	91401085	-1	None	KIAA1221, BM-005, MGC60165, MGC70410
1	ZNF644	ENSG00000122482	ENST00000482709	processed_transcript	KNOWN	None	29222	None	None	91382348	91383948	-1	None	KIAA1221, BM-005, MGC60165, MGC70410
1	ZNF644	ENSG00000122482	ENST00000498303	processed_transcript	KNOWN	None	29222	None	None	91406506	91487638	-1	None	KIAA1221, BM-005, MGC60165, MGC70410
1	ZNF644	ENSG00000122482	ENST00000474405	processed_transcript	KNOWN	None	29222	None	None	91438301	91447927	-1	None	KIAA1221, BM-005, MGC60165, MGC70410
1	ZNF644	ENSG00000122482	ENST00000495966	processed_transcript	KNOWN	None	29222	None	None	91486005	91487612	-1	None	KIAA1221, BM-005, MGC60165, MGC70410
1	ZNF644	ENSG00000122482	ENST00000482467	processed_transcript	KNOWN	None	29222	None	None	91486086	91487282	-1	None	KIAA1221, BM-005, MGC60165, MGC70410
1	ZNF644	ENSG00000122482	ENST00000337393	protein_coding	KNOWN	CCDS731	29222	3984	1327	91380897	91487770	-1	None	KIAA1221, BM-005, MGC60165, MGC70410
Y	TRAPPC2P3	ENSG00000224964	ENST00000443200	unprocessed_pseudogene	KNOWN	None	10712	None	None	19909863	19912576	-1	SEDLP3	None
X	NUDT10	ENSG00000122824	ENST00000376006	protein_coding	KNOWN	CCDS35278	17621	495	164	51075083	51080377	1	None	DIPP3a, hDIPP3alpha
X	NUDT10	ENSG00000122824	ENST00000356450	protein_coding	KNOWN	CCDS35278	17621	495	164	51075682	51080377	1	None	DIPP3a, hDIPP3alpha
15	IGHV4OR15-8	ENSG00000259261	ENST00000557788	IG_V_gene	KNOWN	None	5658	353	116	22472918	22473353	-1	VSIG6	IGHV4/OR15-8, IGHV4OR158
17	DYNLL2	ENSG00000121083	ENST00000240343	protein_coding	KNOWN	CCDS11601	24596	270	89	56160776	56168592	1	None	MGC17810, Dlc2, DNCL1B, RSPH22
11	MS4A10	ENSG00000172689	ENST00000308287	protein_coding	KNOWN	CCDS7992	13368	804	267	60552821	60568778	1	None	CD20L7, MS4A9
7	AK3P3	ENSG00000230042	ENST00000431883	processed_pseudogene	KNOWN	None	39062	None	None	23168797	23169460	1	None	None
1	SH2D1B	ENSG00000198574	ENST00000367929	protein_coding	KNOWN	CCDS30928	30416	399	132	162365056	162381916	-1	None	EAT2
1	SH2D1B	ENSG00000198574	ENST00000493550	processed_transcript	KNOWN	None	30416	None	None	162372267	162381928	-1	None	EAT2
1	SH2D1B	ENSG00000198574	ENST00000359567	protein_coding	KNOWN	None	30416	234	77	162365373	162381916	-1	None	EAT2
X	None	ENSG00000236982	ENST00000428431	processed_pseudogene	KNOWN	None	None	None	None	63946628	63946928	-1	None	None
Y	OFD1P1Y	ENSG00000226011	ENST00000411756	unprocessed_pseudogene	KNOWN	None	23873	None	None	19921687	19937209	1	OFDYP1, OFD1P1	None
15	MIR3713	ENSG00000266449	ENST00000581359	miRNA	KNOWN	None	38926	None	None	76878988	76879032	1	None	hsa-mir-3713
17	None	ENSG00000203479	ENST00000366296	pseudogene	NOVEL	None	None	None	None	26581511	26581655	-1	None	None
8	None	ENSG00000254248	ENST00000518598	antisense	KNOWN	None	None	None	None	96083960	96100152	-1	None	None
22	None	ENSG00000229955	ENST00000454123	processed_transcript	PUTATIVE	None	None	None	None	38783923	38784862	-1	None	None
17	None	ENSG00000263788	ENST00000581722	processed_pseudogene	KNOWN	None	None	None	None	26583401	26583695	-1	None	None
19	IRGQ	ENSG00000167378	ENST00000596409	retained_intron	KNOWN	None	24868	None	None	44090088	44093839	-1	IRGQ1	FKSG27
19	IRGQ	ENSG00000167378	ENST00000601520	processed_transcript	KNOWN	None	24868	None	None	44090429	44097159	-1	IRGQ1	FKSG27
19	IRGQ	ENSG00000167378	ENST00000602269	protein_coding	KNOWN	CCDS33040	24868	1872	623	44096026	44099676	-1	IRGQ1	FKSG27
19	IRGQ	ENSG00000167378	ENST00000598324	protein_coding	KNOWN	None	24868	408	135	44099083	44100287	-1	IRGQ1	FKSG27
19	IRGQ	ENSG00000167378	ENST00000422989	protein_coding	KNOWN	CCDS33040	24868	1872	623	44088521	44100287	-1	IRGQ1	FKSG27
16	None	ENSG00000180747	ENST00000520823	processed_transcript	KNOWN	None	None	None	None	21458004	21478481	-1	None	None
16	None	ENSG00000180747	ENST00000522480	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	21458399	21513207	-1	None	None
16	None	ENSG00000180747	ENST00000440195	processed_transcript	KNOWN	None	None	None	None	21458834	21468260	-1	None	None
16	None	ENSG00000180747	ENST00000522841	processed_transcript	KNOWN	None	None	None	None	21474526	21531765	-1	None	None
16	None	ENSG00000180747	ENST00000437413	processed_transcript	KNOWN	None	None	None	None	21490866	21531500	-1	None	None
16	None	ENSG00000180747	ENST00000435197	processed_transcript	KNOWN	None	None	None	None	21513410	21531331	-1	None	None
16	None	ENSG00000180747	ENST00000445756	unprocessed_pseudogene	KNOWN	None	None	None	None	21458339	21471141	-1	None	None
16	None	ENSG00000180747	ENST00000330588	unprocessed_pseudogene	KNOWN	None	None	None	None	21483651	21498990	-1	None	None
22	None	ENSG00000228620	ENST00000433230	antisense	KNOWN	None	None	None	None	38820293	38823341	1	None	None
10	None	ENSG00000221402	ENST00000408475	miRNA	NOVEL	None	None	None	None	121883644	121883738	-1	None	None
17	None	ENSG00000264486	ENST00000578466	lincRNA	KNOWN	None	None	None	None	26583464	26592577	1	None	None
20	None	ENSG00000212165	ENST00000390863	snoRNA	NOVEL	None	None	None	None	16963477	16963678	-1	None	None
HG883_PATCH	None	ENSG00000264547	ENST00000580938	nonsense_mediated_decay	KNOWN	None	None	516	171	26782771	26941202	-1	None	None
HG883_PATCH	None	ENSG00000264547	ENST00000579903	retained_intron	KNOWN	None	None	None	None	26904589	26905449	-1	None	None
HG883_PATCH	None	ENSG00000264547	ENST00000577975	retained_intron	KNOWN	None	None	None	None	26904589	26905754	-1	None	None
HG883_PATCH	None	ENSG00000264547	ENST00000581234	protein_coding	PUTATIVE	None	None	556	184	26904599	26906425	-1	None	None
HG883_PATCH	None	ENSG00000264547	ENST00000583180	retained_intron	KNOWN	None	None	None	None	26904622	26906271	-1	None	None
HG883_PATCH	None	ENSG00000264547	ENST00000581542	retained_intron	KNOWN	None	None	None	None	26905396	26907105	-1	None	None
HG883_PATCH	None	ENSG00000264547	ENST00000578859	retained_intron	KNOWN	None	None	None	None	26906179	26907190	-1	None	None
HG883_PATCH	None	ENSG00000264547	ENST00000577459	retained_intron	KNOWN	None	None	None	None	26906228	26910645	-1	None	None
HG883_PATCH	None	ENSG00000264547	ENST00000578992	retained_intron	KNOWN	None	None	None	None	26906419	26907791	-1	None	None
HG883_PATCH	None	ENSG00000264547	ENST00000579196	nonsense_mediated_decay	KNOWN	None	None	174	57	26906835	26910637	-1	None	None
HG883_PATCH	None	ENSG00000264547	ENST00000584940	nonsense_mediated_decay	KNOWN	None	None	390	129	26907028	26913017	-1	None	None
HG883_PATCH	None	ENSG00000264547	ENST00000581114	protein_coding	PUTATIVE	None	None	1009	335	26907031	26941204	-1	None	None
HG883_PATCH	None	ENSG00000264547	ENST00000579296	protein_coding	NOVEL	None	None	715	237	26911445	26918772	-1	None	None
HG883_PATCH	None	ENSG00000264547	ENST00000582966	nonsense_mediated_decay	KNOWN	None	None	516	171	26930489	26941216	-1	None	None
HG883_PATCH	None	ENSG00000264547	ENST00000581062	protein_coding	PUTATIVE	None	None	369	122	26932065	26941200	-1	None	None
15	GOLGA6L1	ENSG00000197414	ENST00000560659	protein_coding	KNOWN	None	37444	1857	618	22736484	22745998	1	None	None
15	GOLGA6L1	ENSG00000197414	ENST00000316397	protein_coding	KNOWN	CCDS53919	37444	2007	668	22736246	22746002	1	None	None
7	None	ENSG00000230189	ENST00000442578	processed_transcript	KNOWN	None	None	None	None	65874130	65952977	-1	None	None
7	None	ENSG00000230189	ENST00000411606	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	65892936	65918621	-1	None	None
7	None	ENSG00000230189	ENST00000429320	processed_transcript	KNOWN	None	None	None	None	65941290	65955046	-1	None	None
6	MCM3	ENSG00000112118	ENST00000229854	protein_coding	KNOWN	None	6945	2427	808	52128807	52149549	-1	None	None
6	MCM3	ENSG00000112118	ENST00000596288	protein_coding	KNOWN	CCDS4940	6945	2562	853	52128807	52149635	-1	None	None
6	MCM3	ENSG00000112118	ENST00000421471	protein_coding	NOVEL	None	6945	987	328	52129419	52138573	-1	None	None
6	MCM3	ENSG00000112118	ENST00000476448	processed_transcript	KNOWN	None	6945	None	None	52140780	52144250	-1	None	None
6	MCM3	ENSG00000112118	ENST00000596983	nonsense_mediated_decay	KNOWN	None	6945	234	77	52146909	52149679	-1	None	None
6	MCM3	ENSG00000112118	ENST00000419835	protein_coding	KNOWN	None	6945	2289	762	52129013	52149505	-1	None	None
7	None	ENSG00000226816	ENST00000413042	lincRNA	KNOWN	None	None	None	None	23245632	23247664	1	None	None
10	None	ENSG00000220842	ENST00000495531	processed_pseudogene	KNOWN	None	None	None	None	122114213	122114695	-1	None	None
10	None	ENSG00000220842	ENST00000536557	processed_pseudogene	KNOWN	None	None	None	None	122114177	122114718	-1	None	None
22	None	ENSG00000224279	ENST00000446147	processed_pseudogene	KNOWN	None	None	None	None	38970936	38971436	-1	None	None
17	None	ENSG00000260777	ENST00000564762	lincRNA	KNOWN	None	None	None	None	26590660	26593395	-1	None	None
22	None	ENSG00000230912	ENST00000423346	antisense	KNOWN	None	None	None	None	39062513	39064755	-1	None	None
11	C11orf1	ENSG00000137720	ENST00000528125	protein_coding	PUTATIVE	None	1163	315	104	111749659	111754624	1	None	FLJ23499
11	C11orf1	ENSG00000137720	ENST00000260276	protein_coding	KNOWN	CCDS8350	1163	453	150	111749948	111756699	1	None	FLJ23499
11	C11orf1	ENSG00000137720	ENST00000530214	protein_coding	NOVEL	None	1163	366	121	111750266	111754798	1	None	FLJ23499
11	C11orf1	ENSG00000137720	ENST00000530799	protein_coding	PUTATIVE	None	1163	426	141	111750285	111754529	1	None	FLJ23499
11	C11orf1	ENSG00000137720	ENST00000529270	protein_coding	PUTATIVE	None	1163	573	190	111751500	111754793	1	None	FLJ23499
17	None	ENSG00000266306	ENST00000584928	unprocessed_pseudogene	KNOWN	None	None	None	None	26596229	26599391	-1	None	None
Y	TCEB1P6	ENSG00000225740	ENST00000429066	processed_pseudogene	KNOWN	None	38142	None	None	19949081	19949408	-1	None	None
11	NAALAD2	ENSG00000077616	ENST00000525497	protein_coding	KNOWN	None	14526	265	87	89864683	89880568	1	None	NAALADASE2, NAADALASE2, GPCIII
11	NAALAD2	ENSG00000077616	ENST00000534061	protein_coding	KNOWN	CCDS8288	14526	2223	740	89867697	89926062	1	None	NAALADASE2, NAADALASE2, GPCIII
11	NAALAD2	ENSG00000077616	ENST00000527493	nonsense_mediated_decay	KNOWN	None	14526	852	283	89867783	89897518	1	None	NAALADASE2, NAADALASE2, GPCIII
11	NAALAD2	ENSG00000077616	ENST00000529090	retained_intron	KNOWN	None	14526	None	None	89867832	89891925	1	None	NAALADASE2, NAADALASE2, GPCIII
11	NAALAD2	ENSG00000077616	ENST00000524501	retained_intron	KNOWN	None	14526	None	None	89867863	89897369	1	None	NAALADASE2, NAADALASE2, GPCIII
11	NAALAD2	ENSG00000077616	ENST00000321955	protein_coding	NOVEL	None	14526	2124	707	89867880	89925779	1	None	NAALADASE2, NAADALASE2, GPCIII
11	NAALAD2	ENSG00000077616	ENST00000525171	protein_coding	PUTATIVE	None	14526	1119	372	89867897	89897369	1	None	NAALADASE2, NAADALASE2, GPCIII
11	NAALAD2	ENSG00000077616	ENST00000375944	protein_coding	NOVEL	None	14526	918	305	89867906	89925057	1	None	NAALADASE2, NAADALASE2, GPCIII
11	NAALAD2	ENSG00000077616	ENST00000526637	protein_coding	PUTATIVE	None	14526	321	106	89868232	89882275	1	None	NAALADASE2, NAADALASE2, GPCIII
11	NAALAD2	ENSG00000077616	ENST00000532691	retained_intron	KNOWN	None	14526	None	None	89895660	89902853	1	None	NAALADASE2, NAADALASE2, GPCIII
17	SNF8	ENSG00000159210	ENST00000502492	protein_coding	KNOWN	CCDS11541	17028	777	258	47006678	47022479	-1	None	EAP30, VPS22, Dot3
17	SNF8	ENSG00000159210	ENST00000509995	nonsense_mediated_decay	KNOWN	None	17028	245	80	47007733	47022095	-1	None	EAP30, VPS22, Dot3
17	SNF8	ENSG00000159210	ENST00000510558	nonsense_mediated_decay	KNOWN	None	17028	504	167	47007733	47022168	-1	None	EAP30, VPS22, Dot3
17	SNF8	ENSG00000159210	ENST00000290330	protein_coding	KNOWN	None	17028	774	257	47007736	47022172	-1	None	EAP30, VPS22, Dot3
17	SNF8	ENSG00000159210	ENST00000514089	processed_transcript	KNOWN	None	17028	None	None	47007743	47014480	-1	None	EAP30, VPS22, Dot3
17	SNF8	ENSG00000159210	ENST00000515572	retained_intron	KNOWN	None	17028	None	None	47007750	47010953	-1	None	EAP30, VPS22, Dot3
17	SNF8	ENSG00000159210	ENST00000504000	retained_intron	KNOWN	None	17028	None	None	47007752	47010680	-1	None	EAP30, VPS22, Dot3
17	SNF8	ENSG00000159210	ENST00000509989	nonsense_mediated_decay	KNOWN	None	17028	49	15	47007788	47014416	-1	None	EAP30, VPS22, Dot3
17	SNF8	ENSG00000159210	ENST00000573795	nonsense_mediated_decay	KNOWN	None	17028	111	36	47007791	47022173	-1	None	EAP30, VPS22, Dot3
17	SNF8	ENSG00000159210	ENST00000576353	nonsense_mediated_decay	KNOWN	None	17028	162	53	47007866	47022187	-1	None	EAP30, VPS22, Dot3
17	SNF8	ENSG00000159210	ENST00000507302	nonsense_mediated_decay	KNOWN	None	17028	312	103	47009005	47022109	-1	None	EAP30, VPS22, Dot3
17	SNF8	ENSG00000159210	ENST00000514929	nonsense_mediated_decay	KNOWN	None	17028	426	141	47009005	47022193	-1	None	EAP30, VPS22, Dot3
17	SNF8	ENSG00000159210	ENST00000512243	retained_intron	KNOWN	None	17028	None	None	47013065	47022070	-1	None	EAP30, VPS22, Dot3
17	SNF8	ENSG00000159210	ENST00000511214	retained_intron	KNOWN	None	17028	None	None	47013396	47014601	-1	None	EAP30, VPS22, Dot3
17	SNF8	ENSG00000159210	ENST00000506104	retained_intron	KNOWN	None	17028	None	None	47013403	47014469	-1	None	EAP30, VPS22, Dot3
17	SNF8	ENSG00000159210	ENST00000515174	retained_intron	KNOWN	None	17028	None	None	47014018	47021501	-1	None	EAP30, VPS22, Dot3
17	SNF8	ENSG00000159210	ENST00000510195	retained_intron	KNOWN	None	17028	None	None	47014358	47022168	-1	None	EAP30, VPS22, Dot3
22	None	ENSG00000228274	ENST00000431924	antisense	KNOWN	None	None	None	None	39063590	39077775	-1	None	None
22	None	ENSG00000228274	ENST00000422408	antisense	KNOWN	None	None	None	None	39063867	39065832	-1	None	None
22	None	ENSG00000228274	ENST00000444381	antisense	KNOWN	None	None	None	None	39066473	39077825	-1	None	None
22	None	ENSG00000228274	ENST00000412067	antisense	KNOWN	None	None	None	None	39071819	39077792	-1	None	None
11	CASP1	ENSG00000137752	ENST00000532439	protein_coding	NOVEL	None	1499	711	236	104896170	104901230	-1	IL1BC	ICE
11	CASP1	ENSG00000137752	ENST00000527625	retained_intron	KNOWN	None	1499	None	None	104896235	104897899	-1	IL1BC	ICE
11	CASP1	ENSG00000137752	ENST00000526568	protein_coding	KNOWN	CCDS53704	1499	936	311	104896235	104905840	-1	IL1BC	ICE
11	CASP1	ENSG00000137752	ENST00000527979	protein_coding	PUTATIVE	None	1499	1104	367	104896235	104905856	-1	IL1BC	ICE
11	CASP1	ENSG00000137752	ENST00000533400	protein_coding	KNOWN	CCDS8330	1499	1215	404	104896235	104905876	-1	IL1BC	ICE
11	CASP1	ENSG00000137752	ENST00000436863	protein_coding	KNOWN	CCDS8330	1499	1215	404	104896235	104905977	-1	IL1BC	ICE
11	CASP1	ENSG00000137752	ENST00000525825	protein_coding	KNOWN	CCDS8329	1499	1152	383	104896936	104905876	-1	IL1BC	ICE
11	CASP1	ENSG00000137752	ENST00000531166	protein_coding	KNOWN	CCDS8332	1499	267	88	104896952	104905840	-1	IL1BC	ICE
11	CASP1	ENSG00000137752	ENST00000534497	protein_coding	KNOWN	CCDS8331	1499	792	263	104896952	104905840	-1	IL1BC	ICE
11	CASP1	ENSG00000137752	ENST00000529871	nonsense_mediated_decay	KNOWN	None	1499	333	110	104897148	104905874	-1	IL1BC	ICE
11	CASP1	ENSG00000137752	ENST00000528974	protein_coding	PUTATIVE	None	1499	906	301	104897273	104905874	-1	IL1BC	ICE
11	CASP1	ENSG00000137752	ENST00000526511	retained_intron	KNOWN	None	1499	None	None	104901169	104905866	-1	IL1BC	ICE
11	CASP1	ENSG00000137752	ENST00000528424	retained_intron	KNOWN	None	1499	None	None	104901581	104905085	-1	IL1BC	ICE
11	CASP1	ENSG00000137752	ENST00000532520	retained_intron	KNOWN	None	1499	None	None	104901850	104905870	-1	IL1BC	ICE
11	CASP1	ENSG00000137752	ENST00000598974	protein_coding	KNOWN	None	1499	1215	404	104896248	104972158	-1	IL1BC	ICE
11	CASP1	ENSG00000137752	ENST00000593315	protein_coding	KNOWN	None	1499	1152	383	104896248	104972158	-1	IL1BC	ICE
11	CASP1	ENSG00000137752	ENST00000594519	protein_coding	KNOWN	None	1499	792	263	104896248	104972158	-1	IL1BC	ICE
11	CASP1	ENSG00000137752	ENST00000415981	protein_coding	KNOWN	None	1499	267	88	104896248	104972158	-1	IL1BC	ICE
11	CASP1	ENSG00000137752	ENST00000446369	protein_coding	KNOWN	CCDS8331	1499	792	263	104896248	104905857	-1	IL1BC	ICE
11	CASP1	ENSG00000137752	ENST00000353247	protein_coding	KNOWN	CCDS8332	1499	267	88	104896248	104905857	-1	IL1BC	ICE
11	CASP1	ENSG00000137752	ENST00000393136	protein_coding	KNOWN	CCDS8329	1499	1152	383	104896248	104905840	-1	IL1BC	ICE
X	CXorf67	ENSG00000187690	ENST00000342995	protein_coding	KNOWN	None	33738	1512	503	51149767	51151687	1	None	None
Y	CDY6P	ENSG00000229138	ENST00000413320	unprocessed_pseudogene	KNOWN	None	23853	None	None	19993979	19995588	-1	None	None
20	RNU6-27P	ENSG00000251955	ENST00000516146	snRNA	KNOWN	None	34271	None	None	17168155	17168261	1	RNU6-27	None
17	None	ENSG00000264029	ENST00000583209	unprocessed_pseudogene	KNOWN	None	None	None	None	26601683	26602742	-1	None	None
7	None	ENSG00000232627	ENST00000425959	processed_pseudogene	KNOWN	None	None	None	None	23405237	23405595	1	None	None
X	NUDT11	ENSG00000196368	ENST00000375992	protein_coding	KNOWN	CCDS43952	18011	495	164	51232863	51239448	-1	None	DIPP3b, FLJ10628, hDIPP3beta
5	None	ENSG00000247372	ENST00000501886	antisense	KNOWN	None	None	None	None	74615980	74632739	-1	None	None
1	None	ENSG00000264181	ENST00000582090	miRNA	NOVEL	None	None	None	None	11058233	11058320	-1	None	None
19	FAM138F	ENSG00000233630	ENST00000448235	lincRNA	KNOWN	None	33581	None	None	76220	77690	-1	None	F379
19	FAM138F	ENSG00000233630	ENST00000586011	lincRNA	KNOWN	None	33581	None	None	76789	77659	-1	None	F379
17	KRT18P55	ENSG00000265480	ENST00000577198	processed_transcript	KNOWN	None	26874	None	None	26603012	26634408	-1	None	None
17	KRT18P55	ENSG00000265480	ENST00000578578	transcribed_unprocessed_pseudogene	KNOWN	None	26874	None	None	26603071	26644809	-1	None	None
17	KRT18P55	ENSG00000265480	ENST00000581956	processed_transcript	KNOWN	None	26874	None	None	26604244	26634408	-1	None	None
5	None	ENSG00000271815	ENST00000607296	lincRNA	KNOWN	None	None	None	None	74659585	74660067	1	None	None
19	STK11	ENSG00000118046	ENST00000585748	processed_transcript	KNOWN	None	11389	None	None	1189406	1219385	1	None	PJS, LKB1
19	STK11	ENSG00000118046	ENST00000326873	protein_coding	KNOWN	CCDS45896	11389	1302	433	1205740	1228428	1	None	PJS, LKB1
19	STK11	ENSG00000118046	ENST00000593219	nonsense_mediated_decay	KNOWN	None	11389	306	101	1206815	1223172	1	None	PJS, LKB1
19	STK11	ENSG00000118046	ENST00000589152	retained_intron	KNOWN	None	11389	None	None	1206823	1228011	1	None	PJS, LKB1
19	STK11	ENSG00000118046	ENST00000585851	protein_coding	NOVEL	None	11389	460	152	1206868	1220616	1	None	PJS, LKB1
19	STK11	ENSG00000118046	ENST00000586358	retained_intron	KNOWN	None	11389	None	None	1207090	1221340	1	None	PJS, LKB1
19	STK11	ENSG00000118046	ENST00000591133	retained_intron	KNOWN	None	11389	None	None	1220012	1222008	1	None	PJS, LKB1
19	STK11	ENSG00000118046	ENST00000586243	protein_coding	NOVEL	None	11389	844	280	1221212	1227856	1	None	PJS, LKB1
19	STK11	ENSG00000118046	ENST00000585465	retained_intron	KNOWN	None	11389	None	None	1223147	1228093	1	None	PJS, LKB1
20	None	ENSG00000220540	ENST00000402970	processed_pseudogene	KNOWN	None	None	None	None	17168779	17168989	1	None	None
7	None	ENSG00000212264	ENST00000390962	snoRNA	NOVEL	None	None	None	None	23436065	23436135	1	None	None
4	None	ENSG00000225405	ENST00000470598	processed_pseudogene	KNOWN	None	None	None	None	62971378	62971767	-1	None	None
5	None	ENSG00000242198	ENST00000494006	processed_pseudogene	KNOWN	None	None	None	None	74670288	74670634	1	None	None
8	None	ENSG00000206853	ENST00000384126	snoRNA	NOVEL	None	None	None	None	60049931	60050061	-1	None	None
1	None	ENSG00000207213	ENST00000384484	misc_RNA	NOVEL	None	None	None	None	11059919	11060002	-1	None	None
5	RNU7-175P	ENSG00000251724	ENST00000515915	snRNA	KNOWN	None	45709	None	None	74834423	74834483	-1	None	None
7	RNU7-143P	ENSG00000252590	ENST00000516781	snRNA	KNOWN	None	45677	None	None	23490277	23490341	1	None	None
5	None	ENSG00000248881	ENST00000511329	antisense	KNOWN	None	None	None	None	74894307	74895205	-1	None	None
15	None	ENSG00000225625	ENST00000569307	processed_pseudogene	KNOWN	None	None	None	None	57138538	57138803	1	None	None
15	None	ENSG00000225625	ENST00000325778	processed_pseudogene	KNOWN	None	None	None	None	57138538	57138804	1	None	None
22	None	ENSG00000235295	ENST00000443243	lincRNA	KNOWN	None	None	None	None	18512151	18520734	1	None	None
5	None	ENSG00000272040	ENST00000606908	lincRNA	KNOWN	None	None	None	None	74904642	74905808	1	None	None
4	None	ENSG00000241344	ENST00000483696	processed_pseudogene	KNOWN	None	None	None	None	63114012	63114488	1	None	None
HG299_PATCH	RPS25	ENSG00000262088	ENST00000570603	nonsense_mediated_decay	KNOWN	None	10413	120	39	118886422	118889040	-1	None	S25
HG299_PATCH	RPS25	ENSG00000262088	ENST00000573025	nonsense_mediated_decay	KNOWN	None	10413	120	39	118886422	118889388	-1	None	S25
HG299_PATCH	RPS25	ENSG00000262088	ENST00000573464	protein_coding	KNOWN	None	10413	378	125	118886422	118889400	-1	None	S25
HG299_PATCH	RPS25	ENSG00000262088	ENST00000572434	nonsense_mediated_decay	KNOWN	None	10413	138	45	118886429	118889054	-1	None	S25
HG299_PATCH	RPS25	ENSG00000262088	ENST00000574244	retained_intron	KNOWN	None	10413	None	None	118886436	118889401	-1	None	S25
HG299_PATCH	RPS25	ENSG00000262088	ENST00000575083	retained_intron	KNOWN	None	10413	None	None	118888071	118889376	-1	None	S25
HG299_PATCH	RPS25	ENSG00000262088	ENST00000574076	processed_transcript	KNOWN	None	10413	None	None	118888408	118888754	-1	None	S25
15	GTF2A2	ENSG00000140307	ENST00000396060	protein_coding	KNOWN	CCDS10173	4647	330	109	59930261	59949737	-1	None	TFIIA, HsT18745
15	GTF2A2	ENSG00000140307	ENST00000267869	processed_transcript	KNOWN	None	4647	None	None	59931058	59949696	-1	None	TFIIA, HsT18745
15	GTF2A2	ENSG00000140307	ENST00000396064	protein_coding	NOVEL	None	4647	207	68	59931065	59949719	-1	None	TFIIA, HsT18745
15	GTF2A2	ENSG00000140307	ENST00000396063	protein_coding	KNOWN	CCDS10173	4647	330	109	59931068	59949713	-1	None	TFIIA, HsT18745
15	GTF2A2	ENSG00000140307	ENST00000396061	protein_coding	KNOWN	CCDS10173	4647	330	109	59931308	59949678	-1	None	TFIIA, HsT18745
15	GTF2A2	ENSG00000140307	ENST00000484743	protein_coding	NOVEL	None	4647	225	74	59931312	59949719	-1	None	TFIIA, HsT18745
15	GTF2A2	ENSG00000140307	ENST00000559141	processed_transcript	PUTATIVE	None	4647	None	None	59934335	59949674	-1	None	TFIIA, HsT18745
15	GTF2A2	ENSG00000140307	ENST00000559706	protein_coding	NOVEL	None	4647	217	71	59934413	59949720	-1	None	TFIIA, HsT18745
15	GTF2A2	ENSG00000140307	ENST00000480768	retained_intron	KNOWN	None	4647	None	None	59943384	59949740	-1	None	TFIIA, HsT18745
15	GTF2A2	ENSG00000140307	ENST00000472508	processed_transcript	PUTATIVE	None	4647	None	None	59944499	59949682	-1	None	TFIIA, HsT18745
11	None	ENSG00000245008	ENST00000572256	processed_transcript	KNOWN	None	None	None	None	128499548	128556323	-1	None	None
11	None	ENSG00000245008	ENST00000501648	protein_coding	PUTATIVE	None	None	303	100	128551135	128556817	-1	None	None
22	None	ENSG00000225335	ENST00000426483	antisense	KNOWN	None	None	None	None	18559293	18560563	-1	None	None
7	None	ENSG00000236654	ENST00000428259	processed_pseudogene	KNOWN	None	None	None	None	23520372	23520578	1	None	None
1	None	ENSG00000271895	ENST00000607145	antisense	KNOWN	None	None	None	None	11089716	11090585	1	None	None
4	None	ENSG00000250249	ENST00000509121	processed_pseudogene	KNOWN	None	None	None	None	63157280	63158055	1	None	None
HSCHR6_MHC_COX	GTF2H4	ENSG00000236895	ENST00000413314	protein_coding	KNOWN	None	4658	1389	462	30865832	30871754	1	None	TFB2, TFIIH, P52
HSCHR6_MHC_COX	GTF2H4	ENSG00000236895	ENST00000423881	protein_coding	KNOWN	None	4658	1389	462	30865869	30871754	1	None	TFB2, TFIIH, P52
HSCHR6_MHC_COX	GTF2H4	ENSG00000236895	ENST00000456195	protein_coding	KNOWN	None	4658	414	137	30865871	30868282	1	None	TFB2, TFIIH, P52
HSCHR6_MHC_COX	GTF2H4	ENSG00000236895	ENST00000472251	retained_intron	KNOWN	None	4658	None	None	30867090	30870041	1	None	TFB2, TFIIH, P52
HSCHR6_MHC_COX	GTF2H4	ENSG00000236895	ENST00000461964	retained_intron	KNOWN	None	4658	None	None	30869599	30871754	1	None	TFB2, TFIIH, P52
HSCHR6_MHC_COX	GTF2H4	ENSG00000236895	ENST00000470485	retained_intron	KNOWN	None	4658	None	None	30869871	30871754	1	None	TFB2, TFIIH, P52
8	RNA5SP267	ENSG00000201763	ENST00000364893	rRNA	KNOWN	None	43167	None	None	60368444	60368569	1	RN5S267	None
1	UHMK1	ENSG00000152332	ENST00000489294	protein_coding	KNOWN	CCDS1239	19683	1260	419	162467633	162499400	1	None	KIS, Kist
1	UHMK1	ENSG00000152332	ENST00000282169	processed_transcript	KNOWN	None	19683	None	None	162467875	162493844	1	None	KIS, Kist
1	UHMK1	ENSG00000152332	ENST00000545294	protein_coding	KNOWN	CCDS53423	19683	1038	345	162467041	162493844	1	None	KIS, Kist
1	UHMK1	ENSG00000152332	ENST00000538489	protein_coding	KNOWN	CCDS53424	19683	1035	344	162467595	162499419	1	None	KIS, Kist
22	None	ENSG00000236890	ENST00000427227	processed_pseudogene	KNOWN	None	None	None	None	18564232	18564441	-1	None	None
8	None	ENSG00000254150	ENST00000524110	processed_pseudogene	KNOWN	None	None	None	None	60470087	60470414	-1	None	None
17	None	ENSG00000207844	ENST00000385109	miRNA	NOVEL	None	None	None	None	26603489	26603579	-1	None	None
10	OGDHL	ENSG00000197444	ENST00000374103	protein_coding	KNOWN	CCDS7234	25590	3033	1010	50942689	50970369	-1	None	FLJ10851
10	OGDHL	ENSG00000197444	ENST00000490844	processed_transcript	KNOWN	None	25590	None	None	50942692	50947545	-1	None	FLJ10851
10	OGDHL	ENSG00000197444	ENST00000496884	processed_transcript	KNOWN	None	25590	None	None	50951617	50953403	-1	None	FLJ10851
10	OGDHL	ENSG00000197444	ENST00000471460	processed_transcript	KNOWN	None	25590	None	None	50964636	50966622	-1	None	FLJ10851
10	OGDHL	ENSG00000197444	ENST00000419399	protein_coding	KNOWN	CCDS44390	25590	2862	953	50942690	50970425	-1	None	FLJ10851
10	OGDHL	ENSG00000197444	ENST00000432695	protein_coding	KNOWN	CCDS44391	25590	2406	801	50942690	50970425	-1	None	FLJ10851
22	DEPDC5	ENSG00000100150	ENST00000437411	protein_coding	KNOWN	None	18423	137	44	32149944	32154610	1	None	KIAA0645, DEP.5
22	DEPDC5	ENSG00000100150	ENST00000469969	retained_intron	KNOWN	None	18423	None	None	32149956	32151497	1	None	KIAA0645, DEP.5
22	DEPDC5	ENSG00000100150	ENST00000456178	nonsense_mediated_decay	KNOWN	None	18423	81	26	32149965	32174123	1	None	KIAA0645, DEP.5
22	DEPDC5	ENSG00000100150	ENST00000400242	protein_coding	KNOWN	CCDS43007	18423	1680	559	32150055	32211974	1	None	KIAA0645, DEP.5
22	DEPDC5	ENSG00000100150	ENST00000382112	protein_coding	NOVEL	CCDS46692	18423	4785	1594	32150838	32302991	1	None	KIAA0645, DEP.5
22	DEPDC5	ENSG00000100150	ENST00000382111	protein_coding	NOVEL	None	18423	4659	1552	32150848	32302884	1	None	KIAA0645, DEP.5
22	DEPDC5	ENSG00000100150	ENST00000400248	protein_coding	KNOWN	CCDS43006	18423	4719	1572	32150849	32303001	1	None	KIAA0645, DEP.5
22	DEPDC5	ENSG00000100150	ENST00000458532	protein_coding	PUTATIVE	None	18423	181	59	32164838	32180244	1	None	KIAA0645, DEP.5
22	DEPDC5	ENSG00000100150	ENST00000469974	retained_intron	KNOWN	None	18423	None	None	32180811	32198724	1	None	KIAA0645, DEP.5
22	DEPDC5	ENSG00000100150	ENST00000473802	retained_intron	KNOWN	None	18423	None	None	32188673	32200205	1	None	KIAA0645, DEP.5
22	DEPDC5	ENSG00000100150	ENST00000448753	nonsense_mediated_decay	KNOWN	None	18423	1980	659	32215052	32302984	1	None	KIAA0645, DEP.5
22	DEPDC5	ENSG00000100150	ENST00000433147	protein_coding	PUTATIVE	None	18423	2938	978	32215150	32302995	1	None	KIAA0645, DEP.5
22	DEPDC5	ENSG00000100150	ENST00000462414	processed_transcript	PUTATIVE	None	18423	None	None	32229835	32234707	1	None	KIAA0645, DEP.5
22	DEPDC5	ENSG00000100150	ENST00000471914	retained_intron	KNOWN	None	18423	None	None	32229852	32239648	1	None	KIAA0645, DEP.5
22	DEPDC5	ENSG00000100150	ENST00000494065	retained_intron	KNOWN	None	18423	None	None	32229904	32233300	1	None	KIAA0645, DEP.5
22	DEPDC5	ENSG00000100150	ENST00000490731	retained_intron	KNOWN	None	18423	None	None	32232834	32239645	1	None	KIAA0645, DEP.5
22	DEPDC5	ENSG00000100150	ENST00000494060	processed_transcript	KNOWN	None	18423	None	None	32242925	32271429	1	None	KIAA0645, DEP.5
22	DEPDC5	ENSG00000100150	ENST00000479261	retained_intron	KNOWN	None	18423	None	None	32269960	32275682	1	None	KIAA0645, DEP.5
22	DEPDC5	ENSG00000100150	ENST00000497340	processed_transcript	PUTATIVE	None	18423	None	None	32293621	32302998	1	None	KIAA0645, DEP.5
22	DEPDC5	ENSG00000100150	ENST00000535622	protein_coding	KNOWN	CCDS56229	18423	4512	1503	32149965	32302736	1	None	KIAA0645, DEP.5
22	DEPDC5	ENSG00000100150	ENST00000266091	protein_coding	KNOWN	None	18423	4746	1581	32150069	32303000	1	None	KIAA0645, DEP.5
22	DEPDC5	ENSG00000100150	ENST00000400249	protein_coding	KNOWN	CCDS43006	18423	4719	1572	32150069	32303000	1	None	KIAA0645, DEP.5
22	DEPDC5	ENSG00000100150	ENST00000400246	protein_coding	KNOWN	None	18423	4659	1552	32150069	32303000	1	None	KIAA0645, DEP.5
22	DEPDC5	ENSG00000100150	ENST00000382105	protein_coding	KNOWN	None	18423	3690	1229	32150069	32303000	1	None	KIAA0645, DEP.5
22	DEPDC5	ENSG00000100150	ENST00000536766	protein_coding	KNOWN	None	18423	1995	664	32150040	32230243	1	None	KIAA0645, DEP.5
22	DEPDC5	ENSG00000100150	ENST00000539165	protein_coding	KNOWN	None	18423	1263	420	32248902	32302784	1	None	KIAA0645, DEP.5
HSCHR6_MHC_MCF	RGL2	ENSG00000228736	ENST00000478195	processed_transcript	KNOWN	None	9769	None	None	33429778	33435227	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_MCF	RGL2	ENSG00000228736	ENST00000492105	retained_intron	KNOWN	None	9769	None	None	33429778	33436645	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_MCF	RGL2	ENSG00000228736	ENST00000472578	processed_transcript	KNOWN	None	9769	None	None	33429778	33437054	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_MCF	RGL2	ENSG00000228736	ENST00000480780	processed_transcript	PUTATIVE	None	9769	None	None	33429778	33437099	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_MCF	RGL2	ENSG00000228736	ENST00000416548	protein_coding	KNOWN	None	9769	2334	777	33429778	33437448	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_MCF	RGL2	ENSG00000228736	ENST00000469276	processed_transcript	PUTATIVE	None	9769	None	None	33430230	33432054	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_MCF	RGL2	ENSG00000228736	ENST00000463656	retained_intron	KNOWN	None	9769	None	None	33431219	33433747	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_MCF	RGL2	ENSG00000228736	ENST00000477761	retained_intron	KNOWN	None	9769	None	None	33433811	33436110	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_MCF	RGL2	ENSG00000228736	ENST00000470552	retained_intron	KNOWN	None	9769	None	None	33433930	33436117	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_MCF	RGL2	ENSG00000228736	ENST00000463248	processed_transcript	KNOWN	None	9769	None	None	33434223	33435816	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_MCF	RGL2	ENSG00000228736	ENST00000477261	retained_intron	KNOWN	None	9769	None	None	33434281	33435510	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_MCF	RGL2	ENSG00000228736	ENST00000412959	protein_coding	KNOWN	None	9769	440	145	33434568	33436934	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_MCF	RGL2	ENSG00000228736	ENST00000548778	protein_coding	KNOWN	None	9769	1977	658	33430171	33437523	-1	RAB2L	KE1.5, HKE1.5
8	None	ENSG00000253260	ENST00000521456	lincRNA	KNOWN	None	None	None	None	60473886	60506260	-1	None	None
17	None	ENSG00000203478	ENST00000366295	pseudogene	NOVEL	None	None	None	None	26608165	26608318	-1	None	None
4	None	ENSG00000248847	ENST00000512059	processed_pseudogene	KNOWN	None	None	None	None	63355213	63355936	-1	None	None
17	OR4D1	ENSG00000141194	ENST00000268912	protein_coding	KNOWN	CCDS42365	8293	933	310	56232494	56233517	1	OR4D3	TPCR16
15	None	ENSG00000222586	ENST00000410654	miRNA	NOVEL	None	None	None	None	57258523	57258595	-1	None	None
17	None	ENSG00000203465	ENST00000366283	pseudogene	NOVEL	None	None	None	None	26626484	26626637	-1	None	None
15	None	ENSG00000259462	ENST00000560650	antisense	KNOWN	None	None	None	None	83316521	83361572	1	None	None
22	None	ENSG00000235617	ENST00000450866	unprocessed_pseudogene	KNOWN	None	None	None	None	18584378	18584654	1	None	None
4	HMGN1P11	ENSG00000248336	ENST00000508668	processed_pseudogene	KNOWN	None	39355	None	None	63376187	63376489	1	None	None
8	None	ENSG00000253879	ENST00000522898	lincRNA	KNOWN	None	None	None	None	60513937	60519564	1	None	None
8	None	ENSG00000253879	ENST00000521274	lincRNA	KNOWN	None	None	None	None	60513963	60526334	1	None	None
17	None	ENSG00000203477	ENST00000366294	pseudogene	NOVEL	None	None	None	None	26631095	26631246	1	None	None
16	None	ENSG00000261079	ENST00000563701	lincRNA	KNOWN	None	None	None	None	74401360	74403724	1	None	None
7	RPS2P32	ENSG00000232818	ENST00000439199	processed_pseudogene	KNOWN	None	30518	None	None	23530092	23530983	1	None	MGC27348
5	None	ENSG00000253768	ENST00000519821	lincRNA	KNOWN	None	None	None	None	172989481	173000202	1	None	None
22	ARL2BPP10	ENSG00000225225	ENST00000446487	processed_pseudogene	KNOWN	None	39454	None	None	18585223	18586415	-1	None	None
20	ADRA1D	ENSG00000171873	ENST00000379453	protein_coding	KNOWN	CCDS13079	280	1719	572	4201329	4229721	-1	None	ADRA1R, ADRA1A, ADRA1
15	None	ENSG00000258433	ENST00000554649	lincRNA	KNOWN	None	None	None	None	95577613	95578966	-1	None	None
17	OR4D2	ENSG00000255713	ENST00000545221	protein_coding	KNOWN	CCDS32688	8294	924	307	56247017	56247940	1	None	None
16	None	ENSG00000261170	ENST00000567148	antisense	KNOWN	None	None	None	None	74456018	74469152	1	None	None
16	None	ENSG00000261170	ENST00000566506	antisense	KNOWN	None	None	None	None	74456028	74468597	1	None	None
5	None	ENSG00000254164	ENST00000520300	lincRNA	KNOWN	None	None	None	None	173001941	173003278	1	None	None
15	None	ENSG00000268488	ENST00000598763	protein_coding	NOVEL	None	None	48	15	44075041	44075231	-1	None	None
15	None	ENSG00000258773	ENST00000554787	lincRNA	KNOWN	None	None	None	None	95623324	95676088	-1	None	None
6	ZBTB9	ENSG00000213588	ENST00000395064	protein_coding	KNOWN	CCDS4780	28323	1422	473	33422356	33425325	1	None	MGC23166, ZNF919
22	None	ENSG00000187979	ENST00000434390	antisense	KNOWN	None	None	None	None	18660805	18688682	-1	None	None
16	None	ENSG00000183889	ENST00000540039	processed_transcript	KNOWN	None	None	None	None	16411301	16412832	1	None	None
16	None	ENSG00000183889	ENST00000536260	processed_transcript	KNOWN	None	None	None	None	16411466	16418660	1	None	None
16	None	ENSG00000183889	ENST00000537112	processed_transcript	KNOWN	None	None	None	None	16416162	16444443	1	None	None
16	None	ENSG00000183889	ENST00000537085	processed_transcript	KNOWN	None	None	None	None	16416206	16418384	1	None	None
16	None	ENSG00000183889	ENST00000381497	protein_coding	NOVEL	None	None	1110	369	16425734	16444447	1	None	None
16	None	ENSG00000183889	ENST00000538085	processed_transcript	KNOWN	None	None	None	None	16427505	16441312	1	None	None
16	None	ENSG00000183889	ENST00000534258	retained_intron	KNOWN	None	None	None	None	16427594	16434358	1	None	None
16	None	ENSG00000183889	ENST00000535961	processed_transcript	KNOWN	None	None	None	None	16429882	16437962	1	None	None
16	None	ENSG00000183889	ENST00000524823	protein_coding	PUTATIVE	None	None	812	269	16434185	16443173	1	None	None
16	None	ENSG00000183889	ENST00000283050	retained_intron	KNOWN	None	None	None	None	16434229	16441490	1	None	None
16	None	ENSG00000183889	ENST00000527703	protein_coding	PUTATIVE	None	None	345	114	16438227	16444060	1	None	None
16	None	ENSG00000183889	ENST00000331436	protein_coding	KNOWN	None	None	1110	369	16429787	16444435	1	None	None
16	None	ENSG00000183889	ENST00000541593	protein_coding	KNOWN	None	None	699	232	16429787	16443142	1	None	None
5	None	ENSG00000253955	ENST00000517299	antisense	KNOWN	None	None	None	None	173006646	173012071	1	None	None
5	None	ENSG00000253955	ENST00000519897	antisense	KNOWN	None	None	None	None	173006652	173008615	1	None	None
1	None	ENSG00000226849	ENST00000452378	antisense	KNOWN	None	None	None	None	11128528	11133154	1	None	None
19	ZNF576	ENSG00000124444	ENST00000391965	protein_coding	KNOWN	CCDS12625	28357	513	170	44100544	44104156	1	None	MGC2508
19	ZNF576	ENSG00000124444	ENST00000525771	protein_coding	KNOWN	CCDS12625	28357	513	170	44100559	44104522	1	None	MGC2508
19	ZNF576	ENSG00000124444	ENST00000533118	protein_coding	KNOWN	CCDS12625	28357	513	170	44100632	44103646	1	None	MGC2508
19	ZNF576	ENSG00000124444	ENST00000528387	protein_coding	KNOWN	CCDS12625	28357	513	170	44100727	44103677	1	None	MGC2508
19	ZNF576	ENSG00000124444	ENST00000529930	protein_coding	KNOWN	CCDS12625	28357	513	170	44100747	44103566	1	None	MGC2508
19	ZNF576	ENSG00000124444	ENST00000336564	protein_coding	KNOWN	CCDS12625	28357	513	170	44100757	44105309	1	None	MGC2508
19	ZNF576	ENSG00000124444	ENST00000595041	retained_intron	KNOWN	None	28357	None	None	44100767	44101697	1	None	MGC2508
16	None	ENSG00000260539	ENST00000566788	lincRNA	KNOWN	None	None	None	None	74481325	74483790	-1	None	None
14	EDDM3B	ENSG00000181552	ENST00000326783	protein_coding	KNOWN	CCDS9557	19223	444	147	21236586	21239107	1	FAM12B	HE3-BETA
X	RNF113A	ENSG00000125352	ENST00000371442	protein_coding	KNOWN	CCDS14589	12974	1032	343	119004497	119005791	-1	ZNF183	RNF113, Cwc24
15	None	ENSG00000248441	ENST00000555332	lincRNA	KNOWN	None	None	None	None	95819690	95832714	-1	None	None
15	None	ENSG00000248441	ENST00000508732	lincRNA	KNOWN	None	None	None	None	95822513	95870329	-1	None	None
15	None	ENSG00000248441	ENST00000556899	lincRNA	KNOWN	None	None	None	None	95831517	95870358	-1	None	None
2	UBE2F-SCLY	ENSG00000258984	ENST00000449891	nonsense_mediated_decay	KNOWN	None	48339	222	73	238875656	239008053	1	None	None
2	UBE2F-SCLY	ENSG00000258984	ENST00000449191	nonsense_mediated_decay	KNOWN	None	48339	396	131	238875717	238976811	1	None	None
16	RNU6-237P	ENSG00000251794	ENST00000515985	snRNA	KNOWN	None	47200	None	None	74490439	74490509	1	None	None
6	C6orf226	ENSG00000221821	ENST00000408925	protein_coding	NOVEL	CCDS43463	34431	306	101	42858005	42858554	-1	None	LOC441150
7	None	ENSG00000200847	ENST00000363977	misc_RNA	NOVEL	None	None	None	None	23531411	23531512	-1	None	None
5	None	ENSG00000253959	ENST00000523242	lincRNA	KNOWN	None	None	None	None	173069522	173085197	1	None	None
16	None	ENSG00000207525	ENST00000384794	misc_RNA	NOVEL	None	None	None	None	74497786	74497886	-1	None	None
2	OXER1	ENSG00000162881	ENST00000378661	protein_coding	KNOWN	CCDS1810	24884	1272	423	42989642	42991401	-1	None	GPCR, TG1019, GPR170
16	None	ENSG00000240861	ENST00000485799	processed_pseudogene	KNOWN	None	None	None	None	74586149	74586644	1	None	None
17	POLDIP2	ENSG00000004142	ENST00000003607	processed_transcript	KNOWN	None	23781	None	None	26674203	26684545	-1	None	PDIP38, DKFZP586F1524
17	POLDIP2	ENSG00000004142	ENST00000540200	protein_coding	KNOWN	None	23781	1104	367	26673659	26684473	-1	None	PDIP38, DKFZP586F1524
5	None	ENSG00000253428	ENST00000521373	lincRNA	KNOWN	None	None	None	None	173116462	173132852	1	None	None
7	None	ENSG00000224785	ENST00000444025	processed_pseudogene	KNOWN	None	None	None	None	23602078	23603880	-1	None	None
16	VPS35	ENSG00000069329	ENST00000299138	protein_coding	KNOWN	CCDS10721	13487	2391	796	46690054	46723104	-1	None	FLJ10752, MEM3, PARK17
16	VPS35	ENSG00000069329	ENST00000568784	nonsense_mediated_decay	KNOWN	None	13487	147	48	46693589	46723059	-1	None	FLJ10752, MEM3, PARK17
16	VPS35	ENSG00000069329	ENST00000562420	retained_intron	KNOWN	None	13487	None	None	46695739	46703126	-1	None	FLJ10752, MEM3, PARK17
16	VPS35	ENSG00000069329	ENST00000568642	processed_transcript	KNOWN	None	13487	None	None	46706330	46712955	-1	None	FLJ10752, MEM3, PARK17
16	VPS35	ENSG00000069329	ENST00000569950	retained_intron	KNOWN	None	13487	None	None	46710417	46723430	-1	None	FLJ10752, MEM3, PARK17
16	VPS35	ENSG00000069329	ENST00000565228	retained_intron	KNOWN	None	13487	None	None	46710490	46711598	-1	None	FLJ10752, MEM3, PARK17
16	VPS35	ENSG00000069329	ENST00000563884	retained_intron	KNOWN	None	13487	None	None	46714587	46715868	-1	None	FLJ10752, MEM3, PARK17
16	VPS35	ENSG00000069329	ENST00000568612	nonsense_mediated_decay	KNOWN	None	13487	126	41	46714599	46723063	-1	None	FLJ10752, MEM3, PARK17
16	VPS35	ENSG00000069329	ENST00000561713	nonsense_mediated_decay	KNOWN	None	13487	144	47	46715291	46723106	-1	None	FLJ10752, MEM3, PARK17
16	VPS35	ENSG00000069329	ENST00000568191	retained_intron	KNOWN	None	13487	None	None	46715668	46717519	-1	None	FLJ10752, MEM3, PARK17
16	VPS35	ENSG00000069329	ENST00000563984	retained_intron	KNOWN	None	13487	None	None	46716794	46723092	-1	None	FLJ10752, MEM3, PARK17
12	SLC25A3	ENSG00000075415	ENST00000401722	protein_coding	KNOWN	CCDS9065	10989	1086	361	98987369	98995485	1	PHC	None
12	SLC25A3	ENSG00000075415	ENST00000188376	protein_coding	KNOWN	CCDS9065	10989	1086	361	98987403	98995775	1	PHC	None
12	SLC25A3	ENSG00000075415	ENST00000551917	protein_coding	KNOWN	CCDS9066	10989	1089	362	98987428	98995485	1	PHC	None
12	SLC25A3	ENSG00000075415	ENST00000546766	retained_intron	KNOWN	None	10989	None	None	98987433	98995775	1	PHC	None
12	SLC25A3	ENSG00000075415	ENST00000548046	protein_coding	PUTATIVE	None	10989	461	152	98987434	98991812	1	PHC	None
12	SLC25A3	ENSG00000075415	ENST00000552981	protein_coding	KNOWN	CCDS9065	10989	1086	361	98987438	98995486	1	PHC	None
12	SLC25A3	ENSG00000075415	ENST00000551265	protein_coding	PUTATIVE	None	10989	369	122	98987464	98988281	1	PHC	None
12	SLC25A3	ENSG00000075415	ENST00000550695	protein_coding	PUTATIVE	None	10989	463	153	98987464	98991814	1	PHC	None
12	SLC25A3	ENSG00000075415	ENST00000547534	protein_coding	PUTATIVE	None	10989	471	156	98987464	98991851	1	PHC	None
12	SLC25A3	ENSG00000075415	ENST00000549338	protein_coding	KNOWN	CCDS9065	10989	1086	361	98987474	98995452	1	PHC	None
12	SLC25A3	ENSG00000075415	ENST00000551123	nonsense_mediated_decay	KNOWN	None	10989	315	104	98987474	98995485	1	PHC	None
12	SLC25A3	ENSG00000075415	ENST00000548847	protein_coding	NOVEL	None	10989	975	324	98987503	98995446	1	PHC	None
12	SLC25A3	ENSG00000075415	ENST00000547908	retained_intron	KNOWN	None	10989	None	None	98989442	98992341	1	PHC	None
12	SLC25A3	ENSG00000075415	ENST00000547444	retained_intron	KNOWN	None	10989	None	None	98991343	98992345	1	PHC	None
12	SLC25A3	ENSG00000075415	ENST00000548480	retained_intron	KNOWN	None	10989	None	None	98993636	98995486	1	PHC	None
12	SLC25A3	ENSG00000075415	ENST00000547869	retained_intron	KNOWN	None	10989	None	None	98994843	98995946	1	PHC	None
12	SLC25A3	ENSG00000075415	ENST00000228318	protein_coding	KNOWN	CCDS9066	10989	1089	362	98987403	98995775	1	PHC	None
9	ALDOB	ENSG00000136872	ENST00000374855	protein_coding	KNOWN	CCDS6756	417	1095	364	104182860	104198105	-1	None	None
9	ALDOB	ENSG00000136872	ENST00000468981	processed_transcript	KNOWN	None	417	None	None	104187843	104198037	-1	None	None
16	None	ENSG00000270945	ENST00000604681	processed_pseudogene	KNOWN	None	None	None	None	74646494	74647119	-1	None	None
5	SIMC1	ENSG00000170085	ENST00000430704	protein_coding	KNOWN	CCDS4398	24779	1374	457	175665370	175772992	1	C5orf25	FLJ44216, OOMA1, PLEIAD
5	SIMC1	ENSG00000170085	ENST00000443967	protein_coding	KNOWN	None	24779	2619	872	175665370	175772994	1	C5orf25	FLJ44216, OOMA1, PLEIAD
5	SIMC1	ENSG00000170085	ENST00000495423	retained_intron	KNOWN	None	24779	None	None	175665385	175723677	1	C5orf25	FLJ44216, OOMA1, PLEIAD
5	SIMC1	ENSG00000170085	ENST00000508769	processed_transcript	KNOWN	None	24779	None	None	175665456	175716802	1	C5orf25	FLJ44216, OOMA1, PLEIAD
5	SIMC1	ENSG00000170085	ENST00000467472	processed_transcript	KNOWN	None	24779	None	None	175665510	175723325	1	C5orf25	FLJ44216, OOMA1, PLEIAD
5	SIMC1	ENSG00000170085	ENST00000514128	processed_transcript	KNOWN	None	24779	None	None	175665659	175716957	1	C5orf25	FLJ44216, OOMA1, PLEIAD
5	SIMC1	ENSG00000170085	ENST00000503595	processed_transcript	KNOWN	None	24779	None	None	175697233	175717212	1	C5orf25	FLJ44216, OOMA1, PLEIAD
5	SIMC1	ENSG00000170085	ENST00000481515	retained_intron	KNOWN	None	24779	None	None	175723126	175749818	1	C5orf25	FLJ44216, OOMA1, PLEIAD
5	SIMC1	ENSG00000170085	ENST00000332772	protein_coding	KNOWN	None	24779	1002	333	175740083	175772992	1	C5orf25	FLJ44216, OOMA1, PLEIAD
5	SIMC1	ENSG00000170085	ENST00000341199	protein_coding	KNOWN	CCDS4398	24779	1374	457	175665365	175772988	1	C5orf25	FLJ44216, OOMA1, PLEIAD
5	SIMC1	ENSG00000170085	ENST00000429602	protein_coding	KNOWN	None	24779	1836	611	175665403	175731480	1	C5orf25	FLJ44216, OOMA1, PLEIAD
16	None	ENSG00000262904	ENST00000575258	processed_pseudogene	KNOWN	None	None	None	None	74701404	74702604	1	None	None
15	None	ENSG00000259437	ENST00000559904	lincRNA	KNOWN	None	None	None	None	67212149	67224093	1	None	None
X	NDUFA1	ENSG00000125356	ENST00000371437	protein_coding	KNOWN	CCDS14590	7683	213	70	119005450	119010625	1	None	MWFE, CI-MWFE
5	C7	ENSG00000112936	ENST00000313164	protein_coding	KNOWN	CCDS47201	1346	2532	843	40909354	40983041	1	None	None
5	C7	ENSG00000112936	ENST00000508185	retained_intron	KNOWN	None	1346	None	None	40934425	40945462	1	None	None
5	C7	ENSG00000112936	ENST00000489457	processed_transcript	PUTATIVE	None	1346	None	None	40936440	40937589	1	None	None
5	C7	ENSG00000112936	ENST00000486779	retained_intron	KNOWN	None	1346	None	None	40964581	40972673	1	None	None
5	C7	ENSG00000112936	ENST00000513922	retained_intron	KNOWN	None	1346	None	None	40972505	40976943	1	None	None
5	C7	ENSG00000112936	ENST00000494960	processed_transcript	KNOWN	None	1346	None	None	40972623	40980452	1	None	None
5	C7	ENSG00000112936	ENST00000464864	retained_intron	KNOWN	None	1346	None	None	40976765	40981868	1	None	None
16	None	ENSG00000263661	ENST00000577804	miRNA	NOVEL	None	None	None	None	74781109	74781209	1	None	None
1	None	ENSG00000230337	ENST00000447600	antisense	KNOWN	None	None	None	None	11159732	11162108	1	None	None
1	None	ENSG00000230337	ENST00000435388	antisense	KNOWN	None	None	None	None	11159732	11162157	1	None	None
7	None	ENSG00000232553	ENST00000416636	processed_pseudogene	KNOWN	None	None	None	None	23624681	23625974	-1	None	None
14	MIR329-1	ENSG00000207761	ENST00000385028	miRNA	KNOWN	None	32050	None	None	101493122	101493201	1	MIRN329-1	hsa-mir-329-1
5	None	ENSG00000270741	ENST00000604148	processed_pseudogene	KNOWN	None	None	None	None	119993772	119994066	-1	None	None
HSCHR6_MHC_MANN	None	ENSG00000271881	ENST00000606456	protein_coding	NOVEL	None	None	108	35	28730486	28730593	1	None	None
16	None	ENSG00000261458	ENST00000565194	unprocessed_pseudogene	KNOWN	None	None	None	None	74876485	74877781	1	None	None
8	RNU6-285P	ENSG00000222488	ENST00000410556	snRNA	KNOWN	None	47248	None	None	73931180	73931279	-1	None	None
11	CRYAB	ENSG00000109846	ENST00000526180	protein_coding	KNOWN	CCDS8351	2389	528	175	111779289	111782738	-1	CRYA2	HSPB5
11	CRYAB	ENSG00000109846	ENST00000524660	protein_coding	PUTATIVE	None	2389	319	105	111779343	111779991	-1	CRYA2	HSPB5
11	CRYAB	ENSG00000109846	ENST00000533280	protein_coding	PUTATIVE	None	2389	327	108	111779344	111781468	-1	CRYA2	HSPB5
11	CRYAB	ENSG00000109846	ENST00000525823	protein_coding	PUTATIVE	None	2389	327	108	111779344	111781617	-1	CRYA2	HSPB5
11	CRYAB	ENSG00000109846	ENST00000533475	protein_coding	KNOWN	CCDS8351	2389	528	175	111779347	111784573	-1	CRYA2	HSPB5
11	CRYAB	ENSG00000109846	ENST00000527950	protein_coding	KNOWN	CCDS8351	2389	528	175	111779347	111794446	-1	CRYA2	HSPB5
11	CRYAB	ENSG00000109846	ENST00000227251	protein_coding	KNOWN	CCDS8351	2389	528	175	111779353	111782734	-1	CRYA2	HSPB5
11	CRYAB	ENSG00000109846	ENST00000531198	protein_coding	KNOWN	CCDS8351	2389	528	175	111779370	111783921	-1	CRYA2	HSPB5
11	CRYAB	ENSG00000109846	ENST00000528961	protein_coding	PUTATIVE	None	2389	325	107	111779490	111781584	-1	CRYA2	HSPB5
11	CRYAB	ENSG00000109846	ENST00000527899	protein_coding	KNOWN	None	2389	524	173	111779492	111784071	-1	CRYA2	HSPB5
11	CRYAB	ENSG00000109846	ENST00000526167	protein_coding	PUTATIVE	None	2389	320	105	111779495	111781554	-1	CRYA2	HSPB5
11	CRYAB	ENSG00000109846	ENST00000529647	protein_coding	KNOWN	None	2389	389	128	111779627	111784303	-1	CRYA2	HSPB5
11	CRYAB	ENSG00000109846	ENST00000533971	protein_coding	PUTATIVE	None	2389	468	155	111780486	111782540	-1	CRYA2	HSPB5
11	CRYAB	ENSG00000109846	ENST00000528628	protein_coding	KNOWN	None	2389	232	76	111781143	111783651	-1	CRYA2	HSPB5
11	CRYAB	ENSG00000109846	ENST00000533879	protein_coding	KNOWN	None	2389	206	67	111781169	111783937	-1	CRYA2	HSPB5
16	None	ENSG00000259939	ENST00000564919	antisense	KNOWN	None	None	None	None	8947169	8948204	1	None	None
8	None	ENSG00000272254	ENST00000607665	antisense	KNOWN	None	None	None	None	73955145	73955581	-1	None	None
19	ONECUT3	ENSG00000205922	ENST00000382349	protein_coding	KNOWN	CCDS45900	13399	1485	494	1752372	1780987	1	None	None
12	SCAF11	ENSG00000139218	ENST00000547654	processed_transcript	PUTATIVE	None	10784	None	None	46312914	46316883	-1	SFRS2IP, SRSF2IP	SIP1, SRRP129, CASP11
12	SCAF11	ENSG00000139218	ENST00000550629	processed_transcript	KNOWN	None	10784	None	None	46312914	46318571	-1	SFRS2IP, SRSF2IP	SIP1, SRRP129, CASP11
12	SCAF11	ENSG00000139218	ENST00000465950	protein_coding	KNOWN	None	10784	3447	1148	46315192	46323748	-1	SFRS2IP, SRSF2IP	SIP1, SRRP129, CASP11
12	SCAF11	ENSG00000139218	ENST00000369367	protein_coding	KNOWN	CCDS8748	10784	4392	1463	46315192	46384348	-1	SFRS2IP, SRSF2IP	SIP1, SRRP129, CASP11
12	SCAF11	ENSG00000139218	ENST00000549162	protein_coding	NOVEL	None	10784	3816	1271	46315831	46328293	-1	SFRS2IP, SRSF2IP	SIP1, SRRP129, CASP11
12	SCAF11	ENSG00000139218	ENST00000550893	retained_intron	KNOWN	None	10784	None	None	46316141	46316940	-1	SFRS2IP, SRSF2IP	SIP1, SRRP129, CASP11
12	SCAF11	ENSG00000139218	ENST00000547950	retained_intron	KNOWN	None	10784	None	None	46318730	46320493	-1	SFRS2IP, SRSF2IP	SIP1, SRRP129, CASP11
12	SCAF11	ENSG00000139218	ENST00000547018	non_stop_decay	KNOWN	None	10784	2805	934	46320499	46385903	-1	SFRS2IP, SRSF2IP	SIP1, SRRP129, CASP11
12	SCAF11	ENSG00000139218	ENST00000484275	processed_transcript	KNOWN	None	10784	None	None	46322567	46328866	-1	SFRS2IP, SRSF2IP	SIP1, SRRP129, CASP11
12	SCAF11	ENSG00000139218	ENST00000546534	retained_intron	KNOWN	None	10784	None	None	46324733	46326955	-1	SFRS2IP, SRSF2IP	SIP1, SRRP129, CASP11
12	SCAF11	ENSG00000139218	ENST00000551391	retained_intron	KNOWN	None	10784	None	None	46338867	46342313	-1	SFRS2IP, SRSF2IP	SIP1, SRRP129, CASP11
12	SCAF11	ENSG00000139218	ENST00000266589	protein_coding	NOVEL	None	10784	353	116	46342313	46384348	-1	SFRS2IP, SRSF2IP	SIP1, SRRP129, CASP11
12	SCAF11	ENSG00000139218	ENST00000395454	protein_coding	PUTATIVE	None	10784	234	77	46348517	46384367	-1	SFRS2IP, SRSF2IP	SIP1, SRRP129, CASP11
12	SCAF11	ENSG00000139218	ENST00000395453	protein_coding	PUTATIVE	None	10784	234	77	46354238	46384363	-1	SFRS2IP, SRSF2IP	SIP1, SRRP129, CASP11
12	SCAF11	ENSG00000139218	ENST00000474828	retained_intron	KNOWN	None	10784	None	None	46355190	46384359	-1	SFRS2IP, SRSF2IP	SIP1, SRRP129, CASP11
12	SCAF11	ENSG00000139218	ENST00000419565	protein_coding	KNOWN	CCDS8748	10784	4392	1463	46315831	46385903	-1	SFRS2IP, SRSF2IP	SIP1, SRRP129, CASP11
20	PRNP	ENSG00000171867	ENST00000379440	protein_coding	KNOWN	CCDS13080	9449	762	253	4666882	4682236	1	PRIP, GSS, CJD	CD230, PRP, AltPrP
20	PRNP	ENSG00000171867	ENST00000430350	protein_coding	KNOWN	CCDS13080	9449	762	253	4666996	4682236	1	PRIP, GSS, CJD	CD230, PRP, AltPrP
20	PRNP	ENSG00000171867	ENST00000424424	protein_coding	KNOWN	None	9449	747	248	4667105	4680613	1	PRIP, GSS, CJD	CD230, PRP, AltPrP
20	PRNP	ENSG00000171867	ENST00000457586	protein_coding	KNOWN	None	9449	651	216	4667189	4680517	1	PRIP, GSS, CJD	CD230, PRP, AltPrP
15	None	ENSG00000259289	ENST00000558436	lincRNA	KNOWN	None	None	None	None	67223885	67248856	-1	None	None
6	BAK1	ENSG00000030110	ENST00000374467	protein_coding	KNOWN	CCDS4781	949	636	211	33540329	33548019	-1	CDN1	BCL2L7, BAK
6	BAK1	ENSG00000030110	ENST00000360661	protein_coding	KNOWN	CCDS4781	949	636	211	33541233	33547997	-1	CDN1	BCL2L7, BAK
6	BAK1	ENSG00000030110	ENST00000442998	protein_coding	KNOWN	None	949	462	153	33540330	33547981	-1	CDN1	BCL2L7, BAK
17	KPNB1	ENSG00000108424	ENST00000535458	protein_coding	PUTATIVE	None	6400	2196	731	45726842	45759999	1	None	NTF97, IPOB, MGC2155, MGC2156, MGC2157, IMB1, Impnb, IPO1
17	KPNB1	ENSG00000108424	ENST00000583648	protein_coding	KNOWN	None	6400	446	147	45726861	45734389	1	None	NTF97, IPOB, MGC2155, MGC2156, MGC2157, IMB1, Impnb, IPO1
17	KPNB1	ENSG00000108424	ENST00000290158	protein_coding	KNOWN	CCDS11513	6400	2631	876	45727204	45762871	1	None	NTF97, IPOB, MGC2155, MGC2156, MGC2157, IMB1, Impnb, IPO1
17	KPNB1	ENSG00000108424	ENST00000577918	processed_transcript	KNOWN	None	6400	None	None	45727518	45739604	1	None	NTF97, IPOB, MGC2155, MGC2156, MGC2157, IMB1, Impnb, IPO1
17	KPNB1	ENSG00000108424	ENST00000577875	protein_coding	PUTATIVE	None	6400	182	59	45727724	45736007	1	None	NTF97, IPOB, MGC2155, MGC2156, MGC2157, IMB1, Impnb, IPO1
17	KPNB1	ENSG00000108424	ENST00000540627	protein_coding	PUTATIVE	None	6400	2196	731	45728562	45760046	1	None	NTF97, IPOB, MGC2155, MGC2156, MGC2157, IMB1, Impnb, IPO1
17	KPNB1	ENSG00000108424	ENST00000582097	protein_coding	NOVEL	None	6400	2071	689	45734291	45760046	1	None	NTF97, IPOB, MGC2155, MGC2156, MGC2157, IMB1, Impnb, IPO1
17	KPNB1	ENSG00000108424	ENST00000583013	protein_coding	NOVEL	None	6400	742	246	45745731	45750927	1	None	NTF97, IPOB, MGC2155, MGC2156, MGC2157, IMB1, Impnb, IPO1
17	KPNB1	ENSG00000108424	ENST00000579901	processed_transcript	KNOWN	None	6400	None	None	45747690	45753852	1	None	NTF97, IPOB, MGC2155, MGC2156, MGC2157, IMB1, Impnb, IPO1
17	KPNB1	ENSG00000108424	ENST00000578718	processed_transcript	KNOWN	None	6400	None	None	45747743	45752121	1	None	NTF97, IPOB, MGC2155, MGC2156, MGC2157, IMB1, Impnb, IPO1
17	KPNB1	ENSG00000108424	ENST00000580019	retained_intron	KNOWN	None	6400	None	None	45750455	45751205	1	None	NTF97, IPOB, MGC2155, MGC2156, MGC2157, IMB1, Impnb, IPO1
17	KPNB1	ENSG00000108424	ENST00000580573	retained_intron	KNOWN	None	6400	None	None	45754414	45756005	1	None	NTF97, IPOB, MGC2155, MGC2156, MGC2157, IMB1, Impnb, IPO1
17	KPNB1	ENSG00000108424	ENST00000580158	retained_intron	KNOWN	None	6400	None	None	45757246	45759955	1	None	NTF97, IPOB, MGC2155, MGC2156, MGC2157, IMB1, Impnb, IPO1
17	KPNB1	ENSG00000108424	ENST00000582126	nonsense_mediated_decay	KNOWN	None	6400	68	21	45757969	45761877	1	None	NTF97, IPOB, MGC2155, MGC2156, MGC2157, IMB1, Impnb, IPO1
17	KPNB1	ENSG00000108424	ENST00000537679	protein_coding	KNOWN	None	6400	1983	660	45734291	45760046	1	None	NTF97, IPOB, MGC2155, MGC2156, MGC2157, IMB1, Impnb, IPO1
HSCHR6_MHC_MANN	TRIM27	ENSG00000237462	ENST00000491158	processed_transcript	KNOWN	None	9975	None	None	28882558	28887965	-1	RFP	RNF76
HSCHR6_MHC_MANN	TRIM27	ENSG00000237462	ENST00000437415	protein_coding	KNOWN	None	9975	747	248	28887794	28891771	-1	RFP	RNF76
HSCHR6_MHC_MANN	TRIM27	ENSG00000237462	ENST00000436621	protein_coding	KNOWN	None	9975	747	248	28887794	28891770	-1	RFP	RNF76
HSCHR6_MHC_MANN	TRIM27	ENSG00000237462	ENST00000464409	retained_intron	KNOWN	None	9975	None	None	28887794	28891695	-1	RFP	RNF76
HSCHR6_MHC_MANN	TRIM27	ENSG00000237462	ENST00000497916	processed_transcript	KNOWN	None	9975	None	None	28887794	28889758	-1	RFP	RNF76
14	MIR329-2	ENSG00000207762	ENST00000385029	miRNA	KNOWN	None	32051	None	None	101493437	101493520	1	MIRN329-2	hsa-mir-329-2
15	SERINC4	ENSG00000184716	ENST00000448553	nonsense_mediated_decay	KNOWN	None	32237	710	235	44086360	44091331	-1	None	FLJ40363
15	SERINC4	ENSG00000184716	ENST00000457418	nonsense_mediated_decay	KNOWN	None	32237	291	96	44086360	44092295	-1	None	FLJ40363
15	SERINC4	ENSG00000184716	ENST00000299969	protein_coding	NOVEL	None	32237	1281	426	44086360	44092330	-1	None	FLJ40363
15	SERINC4	ENSG00000184716	ENST00000319327	protein_coding	NOVEL	CCDS58360	32237	1557	518	44086360	44092419	-1	None	FLJ40363
15	SERINC4	ENSG00000184716	ENST00000412697	nonsense_mediated_decay	KNOWN	None	32237	269	88	44086428	44091325	-1	None	FLJ40363
15	SERINC4	ENSG00000184716	ENST00000476490	retained_intron	KNOWN	None	32237	None	None	44088928	44091293	-1	None	FLJ40363
15	SERINC4	ENSG00000184716	ENST00000249714	protein_coding	KNOWN	None	32237	825	274	44086478	44092295	-1	None	FLJ40363
2	HAAO	ENSG00000162882	ENST00000406007	retained_intron	KNOWN	None	4796	None	None	42994229	42997033	-1	None	None
2	HAAO	ENSG00000162882	ENST00000294973	protein_coding	KNOWN	CCDS33187	4796	861	286	42994229	43019732	-1	None	None
2	HAAO	ENSG00000162882	ENST00000402698	retained_intron	KNOWN	None	4796	None	None	42994260	43019714	-1	None	None
2	HAAO	ENSG00000162882	ENST00000404451	retained_intron	KNOWN	None	4796	None	None	42994807	43019671	-1	None	None
2	HAAO	ENSG00000162882	ENST00000431905	protein_coding	PUTATIVE	None	4796	530	175	42996851	43019712	-1	None	None
2	HAAO	ENSG00000162882	ENST00000406924	retained_intron	KNOWN	None	4796	None	None	42997027	43019733	-1	None	None
2	HAAO	ENSG00000162882	ENST00000402268	retained_intron	KNOWN	None	4796	None	None	43009927	43019707	-1	None	None
7	FCF1P1	ENSG00000227436	ENST00000432690	processed_pseudogene	KNOWN	None	44613	None	None	23658952	23662445	1	None	None
9	None	ENSG00000182021	ENST00000598595	lincRNA	KNOWN	None	None	None	None	67017400	67030737	-1	None	None
9	None	ENSG00000182021	ENST00000597935	lincRNA	KNOWN	None	None	None	None	67017400	67030858	-1	None	None
9	None	ENSG00000182021	ENST00000426350	lincRNA	KNOWN	None	None	None	None	67017400	67030982	-1	None	None
9	None	ENSG00000182021	ENST00000315293	lincRNA	KNOWN	None	None	None	None	67017400	67032072	-1	None	None
9	None	ENSG00000182021	ENST00000601096	lincRNA	KNOWN	None	None	None	None	67018912	67027343	-1	None	None
5	ARHGAP26-IT1	ENSG00000230789	ENST00000433186	sense_intronic	KNOWN	None	41429	None	None	142572065	142573731	1	None	None
8	None	ENSG00000253636	ENST00000517664	antisense	KNOWN	None	None	None	None	73964413	73975296	1	None	None
11	TAF6L	ENSG00000162227	ENST00000294168	protein_coding	KNOWN	CCDS8035	17305	1869	622	62538775	62554814	1	None	PAF65A
11	TAF6L	ENSG00000162227	ENST00000526261	protein_coding	KNOWN	None	17305	151	49	62538829	62543859	1	None	PAF65A
11	TAF6L	ENSG00000162227	ENST00000525405	nonsense_mediated_decay	KNOWN	None	17305	192	63	62538839	62546366	1	None	PAF65A
11	TAF6L	ENSG00000162227	ENST00000524976	retained_intron	KNOWN	None	17305	None	None	62538874	62549937	1	None	PAF65A
11	TAF6L	ENSG00000162227	ENST00000532915	retained_intron	KNOWN	None	17305	None	None	62538875	62546260	1	None	PAF65A
11	TAF6L	ENSG00000162227	ENST00000529509	protein_coding	KNOWN	None	17305	436	144	62539511	62545807	1	None	PAF65A
11	TAF6L	ENSG00000162227	ENST00000531265	retained_intron	KNOWN	None	17305	None	None	62546159	62549413	1	None	PAF65A
11	TAF6L	ENSG00000162227	ENST00000533823	retained_intron	KNOWN	None	17305	None	None	62549198	62549805	1	None	PAF65A
5	None	ENSG00000231579	ENST00000478287	processed_pseudogene	KNOWN	None	None	None	None	142712170	142712804	1	None	None
4	None	ENSG00000251577	ENST00000512401	antisense	KNOWN	None	None	None	None	104469902	104514574	1	None	None
4	None	ENSG00000251577	ENST00000502936	antisense	KNOWN	None	None	None	None	104469902	104545691	1	None	None
14	MIR494	ENSG00000194717	ENST00000349529	miRNA	KNOWN	None	32084	None	None	101495971	101496051	1	MIRN494	hsa-mir-494
5	None	ENSG00000249429	ENST00000340585	lincRNA	KNOWN	None	None	None	None	142869420	142910915	-1	None	None
15	LINC00924	ENSG00000259134	ENST00000554837	lincRNA	KNOWN	None	27081	None	None	95976324	96049343	1	None	None
15	LINC00924	ENSG00000259134	ENST00000556053	lincRNA	KNOWN	None	27081	None	None	95976324	96051076	1	None	None
3	CGGBP1	ENSG00000163320	ENST00000309534	protein_coding	KNOWN	CCDS43111	1888	504	167	88101094	88108198	-1	None	p20-CGGBP, CGGBP
3	CGGBP1	ENSG00000163320	ENST00000398392	protein_coding	KNOWN	CCDS43111	1888	504	167	88101162	88106459	-1	None	p20-CGGBP, CGGBP
3	CGGBP1	ENSG00000163320	ENST00000482016	protein_coding	KNOWN	CCDS43111	1888	504	167	88104564	88108218	-1	None	p20-CGGBP, CGGBP
3	CGGBP1	ENSG00000163320	ENST00000462901	protein_coding	KNOWN	CCDS43111	1888	504	167	88104576	88199035	-1	None	p20-CGGBP, CGGBP
3	CGGBP1	ENSG00000163320	ENST00000467332	protein_coding	KNOWN	None	1888	319	105	88104808	88198965	-1	None	p20-CGGBP, CGGBP
3	CGGBP1	ENSG00000163320	ENST00000474441	processed_transcript	PUTATIVE	None	1888	None	None	88106788	88108095	-1	None	p20-CGGBP, CGGBP
15	None	ENSG00000256122	ENST00000537528	pseudogene	NOVEL	None	None	None	None	67263384	67263457	-1	None	None
17	None	ENSG00000167524	ENST00000579457	retained_intron	KNOWN	None	None	None	None	26934982	26937956	-1	None	None
17	None	ENSG00000167524	ENST00000578956	protein_coding	PUTATIVE	None	None	441	146	26937016	26938518	-1	None	None
17	None	ENSG00000167524	ENST00000494272	nonsense_mediated_decay	KNOWN	None	None	278	91	26937438	26939384	-1	None	None
17	None	ENSG00000167524	ENST00000301037	protein_coding	KNOWN	None	None	1233	410	26937496	26941179	-1	None	None
17	None	ENSG00000167524	ENST00000581199	retained_intron	KNOWN	None	None	None	None	26938562	26941211	-1	None	None
17	None	ENSG00000167524	ENST00000526073	processed_transcript	KNOWN	None	None	None	None	26938815	26941203	-1	None	None
17	None	ENSG00000167524	ENST00000461399	retained_intron	KNOWN	None	None	None	None	26939344	26940627	-1	None	None
17	None	ENSG00000167524	ENST00000527918	retained_intron	KNOWN	None	None	None	None	26939357	26940838	-1	None	None
17	None	ENSG00000167524	ENST00000530121	protein_coding	PUTATIVE	None	None	559	185	26939361	26941201	-1	None	None
17	None	ENSG00000167524	ENST00000469832	processed_transcript	KNOWN	None	None	None	None	26939617	26941215	-1	None	None
17	None	ENSG00000167524	ENST00000527863	retained_intron	KNOWN	None	None	None	None	26939996	26941200	-1	None	None
17	None	ENSG00000167524	ENST00000525510	protein_coding	PUTATIVE	None	None	520	172	26940050	26941218	-1	None	None
5	RNU7-156P	ENSG00000253023	ENST00000517214	snRNA	KNOWN	None	45690	None	None	142922079	142922152	-1	None	None
11	FLI1	ENSG00000151702	ENST00000527767	processed_transcript	KNOWN	None	3749	None	None	128555046	128642734	1	None	SIC-1, EWSR2
11	FLI1	ENSG00000151702	ENST00000525560	protein_coding	PUTATIVE	CCDS59230	3749	780	259	128556430	128681291	1	None	SIC-1, EWSR2
11	FLI1	ENSG00000151702	ENST00000429175	protein_coding	KNOWN	CCDS44768	3749	1359	452	128563890	128682311	1	None	SIC-1, EWSR2
11	FLI1	ENSG00000151702	ENST00000527786	nonsense_mediated_decay	KNOWN	None	3749	249	82	128563983	128681115	1	None	SIC-1, EWSR2
11	FLI1	ENSG00000151702	ENST00000534087	protein_coding	NOVEL	CCDS53725	3749	1260	419	128563987	128681398	1	None	SIC-1, EWSR2
11	FLI1	ENSG00000151702	ENST00000528790	retained_intron	KNOWN	None	3749	None	None	128673771	128682311	1	None	SIC-1, EWSR2
11	FLI1	ENSG00000151702	ENST00000344954	protein_coding	KNOWN	CCDS53725	3749	1260	419	128562389	128683161	1	None	SIC-1, EWSR2
11	FLI1	ENSG00000151702	ENST00000281428	protein_coding	KNOWN	CCDS59231	3749	1161	386	128634685	128683161	1	None	SIC-1, EWSR2
5	None	ENSG00000251205	ENST00000514942	lincRNA	KNOWN	None	None	None	None	142938784	142942113	1	None	None
8	None	ENSG00000237061	ENST00000442274	sense_intronic	KNOWN	None	None	None	None	73996022	73998114	-1	None	None
HG299_PATCH	TRAPPC4	ENSG00000267619	ENST00000589939	protein_coding	KNOWN	None	19943	660	219	118889142	118894844	1	None	TRS23, SBDN, PTD009
HG299_PATCH	TRAPPC4	ENSG00000267619	ENST00000592617	retained_intron	KNOWN	None	19943	None	None	118889473	118890213	1	None	TRS23, SBDN, PTD009
HG299_PATCH	TRAPPC4	ENSG00000267619	ENST00000592821	retained_intron	KNOWN	None	19943	None	None	118889476	118891459	1	None	TRS23, SBDN, PTD009
HG299_PATCH	TRAPPC4	ENSG00000267619	ENST00000592469	protein_coding	NOVEL	None	19943	531	176	118889476	118894131	1	None	TRS23, SBDN, PTD009
HG299_PATCH	TRAPPC4	ENSG00000267619	ENST00000591486	protein_coding	NOVEL	None	19943	381	126	118889476	118894352	1	None	TRS23, SBDN, PTD009
HG299_PATCH	TRAPPC4	ENSG00000267619	ENST00000589948	protein_coding	NOVEL	None	19943	498	165	118889476	118894375	1	None	TRS23, SBDN, PTD009
HG299_PATCH	TRAPPC4	ENSG00000267619	ENST00000588102	retained_intron	KNOWN	None	19943	None	None	118889476	118894382	1	None	TRS23, SBDN, PTD009
HG299_PATCH	TRAPPC4	ENSG00000267619	ENST00000592924	protein_coding	NOVEL	None	19943	546	181	118889476	118894382	1	None	TRS23, SBDN, PTD009
HG299_PATCH	TRAPPC4	ENSG00000267619	ENST00000589243	protein_coding	PUTATIVE	None	19943	774	257	118889476	118896164	1	None	TRS23, SBDN, PTD009
HG299_PATCH	TRAPPC4	ENSG00000267619	ENST00000591507	nonsense_mediated_decay	KNOWN	None	19943	354	117	118889500	118894104	1	None	TRS23, SBDN, PTD009
HG299_PATCH	TRAPPC4	ENSG00000267619	ENST00000588678	nonsense_mediated_decay	KNOWN	None	19943	381	126	118889505	118894369	1	None	TRS23, SBDN, PTD009
HG299_PATCH	TRAPPC4	ENSG00000267619	ENST00000591170	retained_intron	KNOWN	None	19943	None	None	118890102	118894381	1	None	TRS23, SBDN, PTD009
HG299_PATCH	TRAPPC4	ENSG00000267619	ENST00000592865	retained_intron	KNOWN	None	19943	None	None	118891027	118894384	1	None	TRS23, SBDN, PTD009
HG299_PATCH	TRAPPC4	ENSG00000267619	ENST00000586000	processed_transcript	KNOWN	None	19943	None	None	118892478	118893992	1	None	TRS23, SBDN, PTD009
14	MIR1193	ENSG00000221036	ENST00000408109	miRNA	KNOWN	None	38247	None	None	101496389	101496466	1	None	hsa-mir-1193
5	None	ENSG00000249881	ENST00000503323	sense_overlapping	KNOWN	None	None	None	None	142985193	143208337	1	None	None
22	APOL4	ENSG00000100336	ENST00000479929	processed_transcript	KNOWN	None	14867	None	None	36585172	36600852	-1	None	APOLIV
22	APOL4	ENSG00000100336	ENST00000404685	protein_coding	PUTATIVE	None	14867	393	130	36585177	36600879	-1	None	APOLIV
22	APOL4	ENSG00000100336	ENST00000405511	protein_coding	PUTATIVE	None	14867	384	127	36585177	36600879	-1	None	APOLIV
22	APOL4	ENSG00000100336	ENST00000429038	protein_coding	PUTATIVE	None	14867	384	127	36586845	36600852	-1	None	APOLIV
22	APOL4	ENSG00000100336	ENST00000524531	processed_transcript	KNOWN	None	14867	None	None	36587307	36600854	-1	None	APOLIV
22	APOL4	ENSG00000100336	ENST00000493203	nonsense_mediated_decay	KNOWN	None	14867	213	70	36587911	36597923	-1	None	APOLIV
22	APOL4	ENSG00000100336	ENST00000457630	protein_coding	PUTATIVE	None	14867	216	71	36587952	36600852	-1	None	APOLIV
22	APOL4	ENSG00000100336	ENST00000419360	protein_coding	PUTATIVE	None	14867	194	63	36591372	36600852	-1	None	APOLIV
22	APOL4	ENSG00000100336	ENST00000449084	protein_coding	PUTATIVE	None	14867	182	59	36591384	36600886	-1	None	APOLIV
22	APOL4	ENSG00000100336	ENST00000397275	protein_coding	PUTATIVE	None	14867	324	107	36593501	36600789	-1	None	APOLIV
22	APOL4	ENSG00000100336	ENST00000436763	protein_coding	PUTATIVE	None	14867	77	24	36595381	36600852	-1	None	APOLIV
22	APOL4	ENSG00000100336	ENST00000480236	retained_intron	KNOWN	None	14867	None	None	36597630	36600761	-1	None	APOLIV
22	APOL4	ENSG00000100336	ENST00000352371	protein_coding	KNOWN	None	14867	1053	350	36587123	36600879	-1	None	APOLIV
22	APOL4	ENSG00000100336	ENST00000332987	protein_coding	KNOWN	None	14867	1044	347	36587123	36600879	-1	None	APOLIV
22	APOL4	ENSG00000100336	ENST00000328429	protein_coding	KNOWN	None	14867	324	107	36593502	36600789	-1	None	APOLIV
9	AQP7P4	ENSG00000176115	ENST00000447083	unprocessed_pseudogene	KNOWN	None	32056	None	None	67032331	67048373	1	None	None
9	AQP7P4	ENSG00000176115	ENST00000322309	unprocessed_pseudogene	KNOWN	None	32056	None	None	67046286	67048175	1	None	None
20	RNU1-131P	ENSG00000238833	ENST00000458943	snRNA	KNOWN	None	48473	None	None	17189705	17189865	1	None	None
HSCHR6_MHC_MANN	MDC1	ENSG00000228575	ENST00000440369	protein_coding	KNOWN	None	21163	6270	2089	30712282	30730363	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_MANN	MDC1	ENSG00000228575	ENST00000483673	retained_intron	KNOWN	None	21163	None	None	30712790	30716556	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_MANN	MDC1	ENSG00000228575	ENST00000419172	protein_coding	KNOWN	None	21163	916	304	30717923	30724388	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_MANN	MDC1	ENSG00000228575	ENST00000491518	retained_intron	KNOWN	None	21163	None	None	30718057	30720159	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_MANN	MDC1	ENSG00000228575	ENST00000482029	processed_transcript	KNOWN	None	21163	None	None	30723946	30724405	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_MANN	MDC1	ENSG00000228575	ENST00000425029	protein_coding	KNOWN	None	21163	487	161	30726307	30729649	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_MANN	MDC1	ENSG00000228575	ENST00000417228	protein_coding	KNOWN	None	21163	380	125	30726414	30729921	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_MANN	MDC1	ENSG00000228575	ENST00000424638	protein_coding	KNOWN	None	21163	340	112	30726454	30729595	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_MANN	MDC1	ENSG00000228575	ENST00000548542	protein_coding	KNOWN	None	21163	5478	1825	30712283	30730155	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_MANN	MDC1	ENSG00000228575	ENST00000547047	protein_coding	KNOWN	None	21163	5409	1802	30712283	30730155	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_MANN	MDC1	ENSG00000228575	ENST00000548248	protein_coding	KNOWN	None	21163	735	244	30712870	30730155	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_MANN	MDC1	ENSG00000228575	ENST00000550500	protein_coding	KNOWN	None	21163	732	243	30725682	30730155	-1	None	NFBD1, KIAA0170, Em:AB023051.5
15	None	ENSG00000259347	ENST00000558071	lincRNA	KNOWN	None	None	None	None	67278699	67351591	-1	None	None
15	None	ENSG00000259347	ENST00000558097	lincRNA	KNOWN	None	None	None	None	67278703	67293328	-1	None	None
15	None	ENSG00000259347	ENST00000560662	lincRNA	KNOWN	None	None	None	None	67278704	67286525	-1	None	None
12	None	ENSG00000251844	ENST00000516035	snoRNA	NOVEL	None	None	None	None	97945915	97946006	-1	None	None
3	SLC35A5	ENSG00000138459	ENST00000484995	protein_coding	KNOWN	None	20792	442	146	112280556	112299406	1	None	FLJ20730
3	SLC35A5	ENSG00000138459	ENST00000492406	protein_coding	KNOWN	CCDS2967	20792	1275	424	112280857	112304424	1	None	FLJ20730
3	SLC35A5	ENSG00000138459	ENST00000468642	protein_coding	KNOWN	None	20792	264	87	112280884	112289421	1	None	FLJ20730
3	SLC35A5	ENSG00000138459	ENST00000261034	nonsense_mediated_decay	KNOWN	None	20792	708	235	112280919	112303003	1	None	FLJ20730
3	SLC35A5	ENSG00000138459	ENST00000460713	processed_transcript	KNOWN	None	20792	None	None	112282308	112301999	1	None	FLJ20730
3	SLC35A5	ENSG00000138459	ENST00000494706	nonsense_mediated_decay	KNOWN	None	20792	360	119	112282975	112301577	1	None	FLJ20730
3	SLC35A5	ENSG00000138459	ENST00000460615	retained_intron	KNOWN	None	20792	None	None	112289286	112299603	1	None	FLJ20730
19	None	ENSG00000268341	ENST00000598357	protein_coding	NOVEL	None	None	195	64	45842445	45842639	1	None	None
8	REXO1L1	ENSG00000205176	ENST00000379010	protein_coding	PUTATIVE	None	24660	2028	675	86568695	86575726	-1	None	GOR
15	MTMR10	ENSG00000166912	ENST00000435680	protein_coding	KNOWN	CCDS45204	25999	2334	777	31231144	31283807	-1	None	FLJ20313
15	MTMR10	ENSG00000166912	ENST00000568604	nonsense_mediated_decay	KNOWN	None	25999	657	218	31231151	31283806	-1	None	FLJ20313
15	MTMR10	ENSG00000166912	ENST00000566338	retained_intron	KNOWN	None	25999	None	None	31231728	31242539	-1	None	FLJ20313
15	MTMR10	ENSG00000166912	ENST00000568547	nonsense_mediated_decay	KNOWN	None	25999	259	85	31233410	31266592	-1	None	FLJ20313
15	MTMR10	ENSG00000166912	ENST00000567567	nonsense_mediated_decay	KNOWN	None	25999	573	190	31233412	31283781	-1	None	FLJ20313
15	MTMR10	ENSG00000166912	ENST00000563714	protein_coding	KNOWN	None	25999	1356	451	31238413	31283618	-1	None	FLJ20313
15	MTMR10	ENSG00000166912	ENST00000566981	protein_coding	PUTATIVE	None	25999	912	303	31238607	31253136	-1	None	FLJ20313
15	MTMR10	ENSG00000166912	ENST00000565728	retained_intron	KNOWN	None	25999	None	None	31239257	31283799	-1	None	FLJ20313
15	MTMR10	ENSG00000166912	ENST00000568611	retained_intron	KNOWN	None	25999	None	None	31251249	31260414	-1	None	FLJ20313
15	MTMR10	ENSG00000166912	ENST00000564787	nonsense_mediated_decay	KNOWN	None	25999	153	50	31253084	31283810	-1	None	FLJ20313
15	MTMR10	ENSG00000166912	ENST00000314404	protein_coding	KNOWN	None	25999	819	272	31233410	31266592	-1	None	FLJ20313
15	MTMR10	ENSG00000166912	ENST00000425768	protein_coding	KNOWN	None	25999	657	218	31231144	31283807	-1	None	FLJ20313
11	TCEB1P22	ENSG00000255006	ENST00000529735	processed_pseudogene	KNOWN	None	38158	None	None	120490643	120490976	-1	None	None
3	KLHL40	ENSG00000157119	ENST00000287777	protein_coding	KNOWN	CCDS2703	30372	1866	621	42727011	42734036	1	KBTBD5	SRYP, NEM8
4	RNA5SP167	ENSG00000202331	ENST00000365461	rRNA	KNOWN	None	43067	None	None	150828712	150828827	1	RN5S167	None
20	DYNLT3P1	ENSG00000232241	ENST00000378574	processed_pseudogene	KNOWN	None	16571	None	None	17459730	17460076	-1	TCTE1P	dJ531H16.2
10	C10orf95	ENSG00000120055	ENST00000239125	protein_coding	KNOWN	CCDS7534	25880	774	257	104209594	104211300	-1	None	FLJ14280
1	MTOR-AS1	ENSG00000225602	ENST00000445982	antisense	KNOWN	None	40242	None	None	11203955	11209594	1	None	None
1	MTOR-AS1	ENSG00000225602	ENST00000420480	antisense	KNOWN	None	40242	None	None	11204481	11209594	1	None	None
17	CAMTA2	ENSG00000108509	ENST00000574951	nonsense_mediated_decay	KNOWN	None	18807	486	161	4871292	4889529	-1	None	KIAA0909
17	CAMTA2	ENSG00000108509	ENST00000414043	protein_coding	KNOWN	CCDS54072	18807	3726	1241	4871292	4890407	-1	None	KIAA0909
17	CAMTA2	ENSG00000108509	ENST00000361571	protein_coding	KNOWN	CCDS54071	18807	3606	1201	4871292	4890665	-1	None	KIAA0909
17	CAMTA2	ENSG00000108509	ENST00000572543	protein_coding	NOVEL	None	18807	3624	1207	4871292	4890936	-1	None	KIAA0909
17	CAMTA2	ENSG00000108509	ENST00000381311	protein_coding	KNOWN	CCDS54073	18807	3594	1197	4871292	4890945	-1	None	KIAA0909
17	CAMTA2	ENSG00000108509	ENST00000348066	protein_coding	KNOWN	CCDS11063	18807	3609	1202	4871293	4890947	-1	None	KIAA0909
17	CAMTA2	ENSG00000108509	ENST00000572192	retained_intron	KNOWN	None	18807	None	None	4871434	4872376	-1	None	KIAA0909
17	CAMTA2	ENSG00000108509	ENST00000574442	retained_intron	KNOWN	None	18807	None	None	4871692	4872710	-1	None	KIAA0909
17	CAMTA2	ENSG00000108509	ENST00000576872	retained_intron	KNOWN	None	18807	None	None	4872723	4876088	-1	None	KIAA0909
17	CAMTA2	ENSG00000108509	ENST00000572326	processed_transcript	KNOWN	None	18807	None	None	4876246	4881864	-1	None	KIAA0909
17	CAMTA2	ENSG00000108509	ENST00000575192	retained_intron	KNOWN	None	18807	None	None	4877343	4880495	-1	None	KIAA0909
17	CAMTA2	ENSG00000108509	ENST00000575365	processed_transcript	KNOWN	None	18807	None	None	4880438	4882737	-1	None	KIAA0909
17	CAMTA2	ENSG00000108509	ENST00000573004	nonsense_mediated_decay	KNOWN	None	18807	492	163	4883731	4890927	-1	None	KIAA0909
17	CAMTA2	ENSG00000108509	ENST00000574606	protein_coding	NOVEL	None	18807	534	177	4883913	4889508	-1	None	KIAA0909
17	CAMTA2	ENSG00000108509	ENST00000571831	processed_transcript	KNOWN	None	18807	None	None	4885014	4887055	-1	None	KIAA0909
17	CAMTA2	ENSG00000108509	ENST00000575580	retained_intron	KNOWN	None	18807	None	None	4886097	4886531	-1	None	KIAA0909
17	CAMTA2	ENSG00000108509	ENST00000358183	protein_coding	KNOWN	None	18807	3588	1195	4871287	4890960	-1	None	KIAA0909
8	REXO1L11P	ENSG00000223524	ENST00000425429	protein_coding	KNOWN	None	44434	2028	675	86747543	86749570	1	None	None
4	RNU6-1230P	ENSG00000207121	ENST00000384393	snRNA	KNOWN	None	48193	None	None	150855528	150855635	1	None	None
4	None	ENSG00000250704	ENST00000505586	lincRNA	KNOWN	None	None	None	None	150877360	150879724	1	None	None
2	AFF3	ENSG00000144218	ENST00000409579	protein_coding	NOVEL	CCDS33258	6473	3756	1251	100167583	100722590	-1	LAF4	MLLT2-like
2	AFF3	ENSG00000144218	ENST00000409236	protein_coding	KNOWN	CCDS42723	6473	3681	1226	100167816	100721178	-1	LAF4	MLLT2-like
2	AFF3	ENSG00000144218	ENST00000445815	protein_coding	NOVEL	None	6473	555	184	100170855	100194832	-1	LAF4	MLLT2-like
2	AFF3	ENSG00000144218	ENST00000430789	nonsense_mediated_decay	KNOWN	None	6473	538	178	100247040	100623307	-1	LAF4	MLLT2-like
2	AFF3	ENSG00000144218	ENST00000498090	retained_intron	KNOWN	None	6473	None	None	100622611	100624413	-1	LAF4	MLLT2-like
2	AFF3	ENSG00000144218	ENST00000432037	protein_coding	KNOWN	None	6473	483	160	100623614	100720992	-1	LAF4	MLLT2-like
2	AFF3	ENSG00000144218	ENST00000423966	protein_coding	KNOWN	None	6473	466	154	100623631	100759037	-1	LAF4	MLLT2-like
2	AFF3	ENSG00000144218	ENST00000441400	protein_coding	KNOWN	None	6473	386	127	100623711	100721889	-1	LAF4	MLLT2-like
2	AFF3	ENSG00000144218	ENST00000424600	protein_coding	KNOWN	None	6473	342	113	100623755	100721801	-1	LAF4	MLLT2-like
2	AFF3	ENSG00000144218	ENST00000416492	protein_coding	KNOWN	None	6473	298	98	100623799	100759045	-1	LAF4	MLLT2-like
2	AFF3	ENSG00000144218	ENST00000440445	protein_coding	PUTATIVE	None	6473	467	154	100623861	100722269	-1	LAF4	MLLT2-like
2	AFF3	ENSG00000144218	ENST00000415384	protein_coding	PUTATIVE	None	6473	549	182	100625361	100722509	-1	LAF4	MLLT2-like
2	AFF3	ENSG00000144218	ENST00000427118	protein_coding	KNOWN	None	6473	53	16	100720864	100722509	-1	LAF4	MLLT2-like
2	AFF3	ENSG00000144218	ENST00000483600	processed_transcript	KNOWN	None	6473	None	None	100726307	100759201	-1	LAF4	MLLT2-like
2	AFF3	ENSG00000144218	ENST00000317233	protein_coding	KNOWN	CCDS42723	6473	3681	1226	100163718	100759037	-1	LAF4	MLLT2-like
2	AFF3	ENSG00000144218	ENST00000356421	protein_coding	KNOWN	CCDS33258	6473	3756	1251	100163718	100722045	-1	LAF4	MLLT2-like
12	MIR135A2	ENSG00000207586	ENST00000384854	miRNA	KNOWN	None	31521	None	None	97957590	97957689	1	MIRN135-2, MIRN135A2	hsa-mir-135-2, hsa-mir-135a-2
8	REXO1L10P	ENSG00000255940	ENST00000540724	protein_coding	KNOWN	None	44433	2028	675	86756718	86758745	-1	None	None
4	RNU7-194P	ENSG00000238721	ENST00000459053	snRNA	KNOWN	None	45728	None	None	151130858	151130920	1	None	None
17	SLC43A2	ENSG00000167703	ENST00000571650	protein_coding	NOVEL	None	23087	1722	573	1477673	1531635	-1	None	MGC34680
17	SLC43A2	ENSG00000167703	ENST00000301335	protein_coding	KNOWN	CCDS11006	23087	1710	569	1477696	1532130	-1	None	MGC34680
17	SLC43A2	ENSG00000167703	ENST00000412517	protein_coding	PUTATIVE	None	23087	1299	432	1478795	1508379	-1	None	MGC34680
17	SLC43A2	ENSG00000167703	ENST00000576537	retained_intron	KNOWN	None	23087	None	None	1479897	1481999	-1	None	MGC34680
17	SLC43A2	ENSG00000167703	ENST00000576769	retained_intron	KNOWN	None	23087	None	None	1481548	1486992	-1	None	MGC34680
17	SLC43A2	ENSG00000167703	ENST00000572135	retained_intron	KNOWN	None	23087	None	None	1488533	1531544	-1	None	MGC34680
17	SLC43A2	ENSG00000167703	ENST00000574743	retained_intron	KNOWN	None	23087	None	None	1488533	1532180	-1	None	MGC34680
17	SLC43A2	ENSG00000167703	ENST00000572801	nonsense_mediated_decay	KNOWN	None	23087	189	62	1494144	1532134	-1	None	MGC34680
17	SLC43A2	ENSG00000167703	ENST00000574274	processed_transcript	KNOWN	None	23087	None	None	1494201	1508570	-1	None	MGC34680
17	SLC43A2	ENSG00000167703	ENST00000576721	nonsense_mediated_decay	KNOWN	None	23087	171	56	1494734	1508238	-1	None	MGC34680
17	SLC43A2	ENSG00000167703	ENST00000571376	nonsense_mediated_decay	KNOWN	None	23087	330	109	1494916	1531205	-1	None	MGC34680
17	SLC43A2	ENSG00000167703	ENST00000575944	retained_intron	KNOWN	None	23087	None	None	1519660	1531093	-1	None	MGC34680
17	SLC43A2	ENSG00000167703	ENST00000382147	protein_coding	KNOWN	None	23087	1722	573	1477698	1532130	-1	None	MGC34680
8	None	ENSG00000253564	ENST00000518337	processed_pseudogene	KNOWN	None	None	None	None	74128164	74128862	-1	None	None
14	TRAV13-1	ENSG00000211788	ENST00000390436	TR_V_gene	KNOWN	None	12108	337	111	22337020	22337546	1	None	None
4	None	ENSG00000248521	ENST00000514501	processed_pseudogene	KNOWN	None	None	None	None	151343797	151344794	-1	None	None
3	SLC31A1P1	ENSG00000224426	ENST00000451221	processed_pseudogene	KNOWN	None	17124	None	None	172321230	172321796	-1	SLC31A1P	CTR1psi
14	MIR543	ENSG00000212040	ENST00000390751	miRNA	KNOWN	None	33664	None	None	101498324	101498401	1	MIRN543	hsa-mir-543
5	RNU6-680P	ENSG00000207333	ENST00000384603	snRNA	KNOWN	None	47643	None	None	75005320	75005424	-1	None	None
5	SLC25A5P9	ENSG00000251078	ENST00000509905	processed_pseudogene	KNOWN	None	35468	None	None	75048395	75049304	-1	None	None
22	ST13	ENSG00000100380	ENST00000216218	protein_coding	KNOWN	CCDS14006	11343	1110	369	41220539	41253026	-1	None	SNC6, HSPABP1, HIP, P48, FAM10A1
22	ST13	ENSG00000100380	ENST00000480048	retained_intron	KNOWN	None	11343	None	None	41223154	41231909	-1	None	SNC6, HSPABP1, HIP, P48, FAM10A1
22	ST13	ENSG00000100380	ENST00000455824	nonsense_mediated_decay	KNOWN	None	11343	117	38	41223225	41252620	-1	None	SNC6, HSPABP1, HIP, P48, FAM10A1
22	ST13	ENSG00000100380	ENST00000413424	nonsense_mediated_decay	KNOWN	None	11343	439	145	41226879	41240894	-1	None	SNC6, HSPABP1, HIP, P48, FAM10A1
22	ST13	ENSG00000100380	ENST00000411695	protein_coding	PUTATIVE	None	11343	487	161	41228656	41250602	-1	None	SNC6, HSPABP1, HIP, P48, FAM10A1
22	ST13	ENSG00000100380	ENST00000495652	retained_intron	KNOWN	None	11343	None	None	41231397	41231953	-1	None	SNC6, HSPABP1, HIP, P48, FAM10A1
14	MIR495	ENSG00000207743	ENST00000385010	miRNA	KNOWN	None	32085	None	None	101500092	101500173	1	MIRN495	hsa-mir-495
4	None	ENSG00000272297	ENST00000509111	protein_coding	PUTATIVE	None	None	278	91	187347700	187476464	-1	None	None
11	None	ENSG00000250493	ENST00000505153	antisense	KNOWN	None	None	None	None	120738642	120765506	-1	None	None
HSCHR6_MHC_COX	None	ENSG00000257328	ENST00000548699	protein_coding	NOVEL	None	None	216	71	28478550	28503695	-1	None	None
8	None	ENSG00000254213	ENST00000521579	processed_pseudogene	KNOWN	None	None	None	None	74189599	74190281	-1	None	None
8	ATP6V0D2	ENSG00000147614	ENST00000521564	protein_coding	KNOWN	None	18266	108	35	86999552	87111315	1	None	FLJ38708, VMA6, ATP6D2
8	ATP6V0D2	ENSG00000147614	ENST00000523635	protein_coding	KNOWN	None	18266	130	42	87086118	87111337	1	None	FLJ38708, VMA6, ATP6D2
8	ATP6V0D2	ENSG00000147614	ENST00000285393	protein_coding	KNOWN	CCDS6241	18266	1053	350	87111066	87166457	1	None	FLJ38708, VMA6, ATP6D2
12	None	ENSG00000257157	ENST00000551083	processed_pseudogene	KNOWN	None	None	None	None	98073657	98073825	-1	None	None
19	OR7G3	ENSG00000170920	ENST00000305444	protein_coding	KNOWN	CCDS32899	8467	939	312	9236688	9237626	-1	None	OST085
11	CNTN5	ENSG00000149972	ENST00000525047	processed_transcript	KNOWN	None	2175	None	None	98891683	98920574	1	None	NB-2, hNB-2
11	CNTN5	ENSG00000149972	ENST00000528727	retained_intron	KNOWN	None	2175	None	None	98891706	100096179	1	None	NB-2, hNB-2
11	CNTN5	ENSG00000149972	ENST00000527185	protein_coding	PUTATIVE	CCDS58168	2175	2736	911	98891871	100180434	1	None	NB-2, hNB-2
11	CNTN5	ENSG00000149972	ENST00000528682	protein_coding	KNOWN	CCDS53696	2175	3303	1100	98891920	100227297	1	None	NB-2, hNB-2
11	CNTN5	ENSG00000149972	ENST00000524871	protein_coding	KNOWN	CCDS53696	2175	3303	1100	98891920	100229616	1	None	NB-2, hNB-2
11	CNTN5	ENSG00000149972	ENST00000418526	protein_coding	KNOWN	CCDS53697	2175	3081	1026	99426870	100227473	1	None	NB-2, hNB-2
11	CNTN5	ENSG00000149972	ENST00000530458	protein_coding	NOVEL	None	2175	177	58	99426877	99429065	1	None	NB-2, hNB-2
11	CNTN5	ENSG00000149972	ENST00000525236	processed_transcript	KNOWN	None	2175	None	None	99827538	99874700	1	None	NB-2, hNB-2
11	CNTN5	ENSG00000149972	ENST00000527682	retained_intron	KNOWN	None	2175	None	None	99941133	99945138	1	None	NB-2, hNB-2
11	CNTN5	ENSG00000149972	ENST00000524560	processed_transcript	KNOWN	None	2175	None	None	100061909	100227020	1	None	NB-2, hNB-2
11	CNTN5	ENSG00000149972	ENST00000279463	protein_coding	KNOWN	CCDS53696	2175	3303	1100	99426946	100226951	1	None	NB-2, hNB-2
20	RPS27AP2	ENSG00000232333	ENST00000457576	processed_pseudogene	KNOWN	None	16572	None	None	17497488	17497952	1	None	dJ531H16.4
5	SLCO4C1	ENSG00000173930	ENST00000310954	protein_coding	KNOWN	CCDS34205	23612	2175	724	101569690	101632253	-1	None	SLC21A20, OATP4C1, OATPX, OATP-H
3	None	ENSG00000264711	ENST00000579277	miRNA	NOVEL	None	None	None	None	172389349	172389429	-1	None	None
5	None	ENSG00000251419	ENST00000505953	processed_pseudogene	KNOWN	None	None	None	None	75127080	75128589	-1	None	None
HSCHR6_MHC_COX	None	ENSG00000257770	ENST00000550775	protein_coding	NOVEL	None	None	666	221	28493789	28502728	1	None	None
HSCHR6_MHC_COX	None	ENSG00000257770	ENST00000551639	protein_coding	KNOWN	None	None	303	100	28493789	28502728	1	None	None
4	None	ENSG00000249690	ENST00000507934	antisense	KNOWN	None	None	None	None	151500241	151502697	1	None	None
14	None	ENSG00000265032	ENST00000579587	miRNA	NOVEL	None	None	None	None	101505680	101505774	1	None	None
20	None	ENSG00000225129	ENST00000424662	lincRNA	KNOWN	None	None	None	None	57927250	57932829	-1	None	None
3	None	ENSG00000231384	ENST00000444110	processed_pseudogene	KNOWN	None	None	None	None	172398504	172399014	1	None	None
14	MIR376C	ENSG00000271946	ENST00000607441	miRNA	KNOWN	None	31782	None	None	101506017	101506102	1	MIRN368, MIRN376C	hsa-mir-368, hsa-mir-376c
15	RN7SKP217	ENSG00000201510	ENST00000364640	misc_RNA	KNOWN	None	45941	None	None	77028982	77029321	1	None	None
4	None	ENSG00000221235	ENST00000408308	miRNA	NOVEL	None	None	None	None	151560908	151561018	-1	None	None
16	TERF2	ENSG00000132604	ENST00000254942	protein_coding	KNOWN	None	11729	1629	542	69389464	69419891	-1	TRBF2	TRF2
16	TERF2	ENSG00000132604	ENST00000566051	protein_coding	PUTATIVE	None	11729	148	48	69390237	69395374	-1	TRBF2	TRF2
16	TERF2	ENSG00000132604	ENST00000567130	retained_intron	KNOWN	None	11729	None	None	69395255	69400887	-1	TRBF2	TRF2
16	TERF2	ENSG00000132604	ENST00000569584	protein_coding	PUTATIVE	None	11729	734	243	69398870	69406185	-1	TRBF2	TRF2
16	TERF2	ENSG00000132604	ENST00000566750	protein_coding	PUTATIVE	None	11729	849	282	69400838	69419473	-1	TRBF2	TRF2
16	TERF2	ENSG00000132604	ENST00000569542	protein_coding	NOVEL	None	11729	431	142	69400850	69418553	-1	TRBF2	TRF2
16	TERF2	ENSG00000132604	ENST00000566257	protein_coding	PUTATIVE	None	11729	618	205	69400952	69418650	-1	TRBF2	TRF2
16	TERF2	ENSG00000132604	ENST00000564982	nonsense_mediated_decay	KNOWN	None	11729	300	99	69400984	69406258	-1	TRBF2	TRF2
16	TERF2	ENSG00000132604	ENST00000569611	processed_transcript	KNOWN	None	11729	None	None	69402411	69419502	-1	TRBF2	TRF2
16	TERF2	ENSG00000132604	ENST00000567296	protein_coding	KNOWN	None	11729	882	293	69404114	69419891	-1	TRBF2	TRF2
16	TERF2	ENSG00000132604	ENST00000569280	nonsense_mediated_decay	KNOWN	None	11729	182	59	69404437	69419636	-1	TRBF2	TRF2
16	TERF2	ENSG00000132604	ENST00000567841	processed_transcript	KNOWN	None	11729	None	None	69406172	69442474	-1	TRBF2	TRF2
16	TERF2	ENSG00000132604	ENST00000603068	protein_coding	KNOWN	CCDS10879	11729	1503	500	69389535	69419873	-1	TRBF2	TRF2
5	KLHL3	ENSG00000146021	ENST00000506491	protein_coding	KNOWN	CCDS58969	6354	1518	505	136953189	137042125	-1	None	KIAA1129
5	KLHL3	ENSG00000146021	ENST00000508657	protein_coding	PUTATIVE	CCDS58970	6354	1668	555	136953189	137056999	-1	None	KIAA1129
5	KLHL3	ENSG00000146021	ENST00000309755	protein_coding	KNOWN	CCDS4192	6354	1764	587	136953189	137071779	-1	None	KIAA1129
5	KLHL3	ENSG00000146021	ENST00000509694	retained_intron	KNOWN	None	6354	None	None	136953348	136964369	-1	None	KIAA1129
5	KLHL3	ENSG00000146021	ENST00000447439	retained_intron	KNOWN	None	6354	None	None	136956910	136965632	-1	None	KIAA1129
5	KLHL3	ENSG00000146021	ENST00000506873	processed_transcript	KNOWN	None	6354	None	None	136957191	137008616	-1	None	KIAA1129
5	KLHL3	ENSG00000146021	ENST00000504208	nonsense_mediated_decay	KNOWN	None	6354	318	105	136957628	137042116	-1	None	KIAA1129
5	KLHL3	ENSG00000146021	ENST00000502381	processed_transcript	KNOWN	None	6354	None	None	136969733	137009586	-1	None	KIAA1129
5	KLHL3	ENSG00000146021	ENST00000505853	protein_coding	NOVEL	None	6354	1201	399	136972983	137071704	-1	None	KIAA1129
5	KLHL3	ENSG00000146021	ENST00000504496	processed_transcript	KNOWN	None	6354	None	None	136996400	137028374	-1	None	KIAA1129
5	KLHL3	ENSG00000146021	ENST00000514149	processed_transcript	KNOWN	None	6354	None	None	137007456	137009540	-1	None	KIAA1129
5	KLHL3	ENSG00000146021	ENST00000515334	processed_transcript	KNOWN	None	6354	None	None	137008443	137041828	-1	None	KIAA1129
5	KLHL3	ENSG00000146021	ENST00000510529	processed_transcript	KNOWN	None	6354	None	None	137013106	137034072	-1	None	KIAA1129
5	KLHL3	ENSG00000146021	ENST00000512977	processed_transcript	KNOWN	None	6354	None	None	137041739	137071547	-1	None	KIAA1129
5	KLHL3	ENSG00000146021	ENST00000541417	protein_coding	KNOWN	None	6354	603	200	136957628	137042109	-1	None	KIAA1129
5	KLHL3	ENSG00000146021	ENST00000394937	protein_coding	KNOWN	None	6354	906	301	136988447	137071778	-1	None	KIAA1129
5	None	ENSG00000249301	ENST00000512973	processed_pseudogene	KNOWN	None	None	None	None	75206108	75206401	-1	None	None
4	ZBTB8OSP1	ENSG00000183432	ENST00000342688	processed_pseudogene	KNOWN	None	19043	None	None	151642133	151642630	1	None	None
8	None	ENSG00000250295	ENST00000520894	antisense	KNOWN	None	None	None	None	74209946	74227844	-1	None	None
8	None	ENSG00000250295	ENST00000514599	antisense	KNOWN	None	None	None	None	74223141	74268696	-1	None	None
8	None	ENSG00000250295	ENST00000517475	antisense	KNOWN	None	None	None	None	74227651	74268595	-1	None	None
8	None	ENSG00000253773	ENST00000517655	lincRNA	KNOWN	None	None	None	None	96216684	96444894	1	None	None
8	None	ENSG00000253773	ENST00000521905	lincRNA	KNOWN	None	None	None	None	96281064	96665938	1	None	None
8	None	ENSG00000253773	ENST00000517437	lincRNA	KNOWN	None	None	None	None	96444865	96822364	1	None	None
18	TAF4B	ENSG00000141384	ENST00000269142	protein_coding	KNOWN	CCDS42421	11538	2589	862	23805900	23971649	1	TAF2C2	TAFII105
18	TAF4B	ENSG00000141384	ENST00000578121	protein_coding	NOVEL	None	11538	2604	867	23806450	23970128	1	TAF2C2	TAFII105
18	TAF4B	ENSG00000141384	ENST00000418698	nonsense_mediated_decay	KNOWN	None	11538	1857	618	23806847	23971647	1	TAF2C2	TAFII105
18	TAF4B	ENSG00000141384	ENST00000400466	protein_coding	KNOWN	None	11538	1857	618	23806409	23875183	1	TAF2C2	TAFII105
11	HMGB1P42	ENSG00000254735	ENST00000532126	processed_pseudogene	KNOWN	None	39189	None	None	120806811	120807363	-1	None	None
4	MTNR1A	ENSG00000168412	ENST00000307161	protein_coding	KNOWN	CCDS3848	7463	1053	350	187454809	187476721	-1	None	MEL-1A-R
18	C18orf25	ENSG00000152242	ENST00000587591	protein_coding	KNOWN	None	28172	438	145	43753519	43796284	1	None	MGC12909, ARKL1
18	C18orf25	ENSG00000152242	ENST00000588730	protein_coding	PUTATIVE	None	28172	310	102	43753519	43820018	1	None	MGC12909, ARKL1
18	C18orf25	ENSG00000152242	ENST00000282059	protein_coding	KNOWN	CCDS42430	28172	1212	403	43753993	43846949	1	None	MGC12909, ARKL1
18	C18orf25	ENSG00000152242	ENST00000321319	protein_coding	KNOWN	CCDS42431	28172	1029	342	43754000	43846946	1	None	MGC12909, ARKL1
5	BIN2P2	ENSG00000248684	ENST00000503900	processed_pseudogene	KNOWN	None	43661	None	None	75206390	75207692	1	None	None
X	None	ENSG00000227657	ENST00000443077	unprocessed_pseudogene	KNOWN	None	None	None	None	105806004	105806634	-1	None	None
19	NUCB1	ENSG00000104805	ENST00000405315	protein_coding	KNOWN	CCDS12740	8043	1386	461	49403307	49426629	1	None	NUC, Calnuc
19	NUCB1	ENSG00000104805	ENST00000407032	protein_coding	KNOWN	CCDS12740	8043	1386	461	49403577	49426528	1	None	NUC, Calnuc
19	NUCB1	ENSG00000104805	ENST00000452087	protein_coding	NOVEL	None	8043	803	266	49403580	49422001	1	None	NUC, Calnuc
19	NUCB1	ENSG00000104805	ENST00000485798	processed_transcript	KNOWN	None	8043	None	None	49403596	49426201	1	None	NUC, Calnuc
19	NUCB1	ENSG00000104805	ENST00000443560	nonsense_mediated_decay	KNOWN	None	8043	228	75	49403612	49409098	1	None	NUC, Calnuc
19	NUCB1	ENSG00000104805	ENST00000411700	protein_coding	KNOWN	None	8043	373	123	49403627	49409139	1	None	NUC, Calnuc
19	NUCB1	ENSG00000104805	ENST00000451312	protein_coding	KNOWN	None	8043	332	109	49403823	49409098	1	None	NUC, Calnuc
19	NUCB1	ENSG00000104805	ENST00000424608	protein_coding	NOVEL	None	8043	884	293	49404055	49422516	1	None	NUC, Calnuc
19	NUCB1	ENSG00000104805	ENST00000465524	retained_intron	KNOWN	None	8043	None	None	49414475	49425123	1	None	NUC, Calnuc
19	NUCB1	ENSG00000104805	ENST00000460125	retained_intron	KNOWN	None	8043	None	None	49421633	49422405	1	None	NUC, Calnuc
19	NUCB1	ENSG00000104805	ENST00000469291	retained_intron	KNOWN	None	8043	None	None	49422002	49424521	1	None	NUC, Calnuc
19	NUCB1	ENSG00000104805	ENST00000492367	retained_intron	KNOWN	None	8043	None	None	49422257	49426525	1	None	NUC, Calnuc
19	NUCB1	ENSG00000104805	ENST00000263273	protein_coding	KNOWN	CCDS12740	8043	1386	461	49404041	49426522	1	None	NUC, Calnuc
4	PCDH18	ENSG00000189184	ENST00000412923	protein_coding	KNOWN	None	14268	3405	1134	138440072	138453613	-1	None	KIAA1562, PCDH68L
4	PCDH18	ENSG00000189184	ENST00000344876	protein_coding	KNOWN	CCDS34064	14268	3408	1135	138440072	138453629	-1	None	KIAA1562, PCDH68L
4	PCDH18	ENSG00000189184	ENST00000507846	protein_coding	NOVEL	None	14268	2745	914	138440857	138453648	-1	None	KIAA1562, PCDH68L
4	PCDH18	ENSG00000189184	ENST00000511115	protein_coding	NOVEL	None	14268	948	315	138441992	138453565	-1	None	KIAA1562, PCDH68L
4	PCDH18	ENSG00000189184	ENST00000510305	protein_coding	NOVEL	None	14268	1041	346	138441992	138453648	-1	None	KIAA1562, PCDH68L
1	RNU6-537P	ENSG00000253086	ENST00000517277	snRNA	KNOWN	None	47500	None	None	11212407	11212509	1	None	None
20	None	ENSG00000230352	ENST00000440889	lincRNA	KNOWN	None	None	None	None	57935982	57939828	-1	None	None
5	None	ENSG00000228367	ENST00000506543	processed_pseudogene	KNOWN	None	None	None	None	75216495	75217485	-1	None	None
12	None	ENSG00000257501	ENST00000552582	processed_transcript	KNOWN	None	None	None	None	98107190	98147376	-1	None	None
12	None	ENSG00000257501	ENST00000550548	processed_transcript	KNOWN	None	None	None	None	98123826	98150295	-1	None	None
12	None	ENSG00000257501	ENST00000554613	transcribed_processed_pseudogene	KNOWN	None	None	None	None	98126359	98127045	-1	None	None
12	None	ENSG00000257501	ENST00000550221	retained_intron	KNOWN	None	None	None	None	98146877	98150268	-1	None	None
12	None	ENSG00000257501	ENST00000552615	retained_intron	KNOWN	None	None	None	None	98147034	98155637	-1	None	None
15	RN7SL278P	ENSG00000243365	ENST00000488843	misc_RNA	KNOWN	None	46294	None	None	77269258	77269551	-1	None	None
11	SLC22A18AS	ENSG00000254827	ENST00000533594	protein_coding	KNOWN	CCDS7739	10965	762	253	2909010	2924970	-1	BWSCR1B, ORCTL2S, SLC22A1LS	BWR1B, p27-BWR1B
11	SLC22A18AS	ENSG00000254827	ENST00000526203	protein_coding	KNOWN	None	10965	453	150	2909325	2910660	-1	BWSCR1B, ORCTL2S, SLC22A1LS	BWR1B, p27-BWR1B
11	SLC22A18AS	ENSG00000254827	ENST00000455942	protein_coding	KNOWN	None	10965	453	150	2909327	2924720	-1	BWSCR1B, ORCTL2S, SLC22A1LS	BWR1B, p27-BWR1B
15	TUBGCP5	ENSG00000153575	ENST00000283645	protein_coding	KNOWN	CCDS10008	18600	3075	1024	22833395	22873892	1	None	GCP5, KIAA1899
15	TUBGCP5	ENSG00000153575	ENST00000453949	protein_coding	KNOWN	CCDS45188	18600	3075	1024	22833496	22872783	1	None	GCP5, KIAA1899
15	TUBGCP5	ENSG00000153575	ENST00000558664	protein_coding	NOVEL	None	18600	500	165	22836120	22846891	1	None	GCP5, KIAA1899
15	TUBGCP5	ENSG00000153575	ENST00000559846	processed_transcript	KNOWN	None	18600	None	None	22848692	22863108	1	None	GCP5, KIAA1899
15	TUBGCP5	ENSG00000153575	ENST00000561214	protein_coding	NOVEL	None	18600	676	224	22864187	22867636	1	None	GCP5, KIAA1899
15	TUBGCP5	ENSG00000153575	ENST00000559534	retained_intron	KNOWN	None	18600	None	None	22864271	22867269	1	None	GCP5, KIAA1899
15	TUBGCP5	ENSG00000153575	ENST00000558915	retained_intron	KNOWN	None	18600	None	None	22868498	22869977	1	None	GCP5, KIAA1899
2	DDX18	ENSG00000088205	ENST00000263239	protein_coding	KNOWN	CCDS2120	2741	2013	670	118572226	118589955	1	None	MrDb
2	DDX18	ENSG00000088205	ENST00000474694	processed_transcript	KNOWN	None	2741	None	None	118572634	118582175	1	None	MrDb
2	DDX18	ENSG00000088205	ENST00000489933	retained_intron	KNOWN	None	2741	None	None	118579552	118580356	1	None	MrDb
2	DDX18	ENSG00000088205	ENST00000415038	protein_coding	NOVEL	None	2741	644	213	118579723	118586541	1	None	MrDb
2	DDX18	ENSG00000088205	ENST00000476149	retained_intron	KNOWN	None	2741	None	None	118581913	118589946	1	None	MrDb
2	DDX18	ENSG00000088205	ENST00000461443	retained_intron	KNOWN	None	2741	None	None	118582573	118583559	1	None	MrDb
15	KRT8P23	ENSG00000259565	ENST00000560090	processed_pseudogene	KNOWN	None	33375	None	None	77271586	77272792	-1	None	None
15	HMGN2P47	ENSG00000259246	ENST00000559378	processed_pseudogene	KNOWN	None	44422	None	None	67293115	67293519	-1	None	None
14	TRAV12-2	ENSG00000211789	ENST00000390437	TR_V_gene	KNOWN	None	12106	340	112	22356037	22356682	1	None	None
5	None	ENSG00000249777	ENST00000512058	processed_pseudogene	KNOWN	None	None	None	None	75371356	75371745	1	None	None
1	None	ENSG00000271794	ENST00000607349	snoRNA	NOVEL	None	None	None	None	11229564	11229670	-1	None	None
14	MIR654	ENSG00000207934	ENST00000385199	miRNA	KNOWN	None	32910	None	None	101506556	101506636	1	MIRN654	hsa-mir-654
20	PIEZO1P1	ENSG00000233686	ENST00000485427	processed_pseudogene	KNOWN	None	16214	None	None	58035674	58035892	-1	C20orf83, FAM38CP	bA164D18.1
1	UAP1	ENSG00000117143	ENST00000412525	protein_coding	KNOWN	None	12457	660	219	162531321	162549392	1	SPAG2	AGX1, AgX
1	UAP1	ENSG00000117143	ENST00000367926	protein_coding	KNOWN	CCDS1240	12457	1518	505	162531323	162569627	1	SPAG2	AGX1, AgX
1	UAP1	ENSG00000117143	ENST00000476240	processed_transcript	KNOWN	None	12457	None	None	162531512	162532334	1	SPAG2	AGX1, AgX
1	UAP1	ENSG00000117143	ENST00000367925	protein_coding	KNOWN	None	12457	1569	522	162535827	162569621	1	SPAG2	AGX1, AgX
1	UAP1	ENSG00000117143	ENST00000367924	protein_coding	KNOWN	None	12457	1566	521	162535827	162569621	1	SPAG2	AGX1, AgX
1	UAP1	ENSG00000117143	ENST00000474728	processed_transcript	KNOWN	None	12457	None	None	162551221	162557895	1	SPAG2	AGX1, AgX
1	UAP1	ENSG00000117143	ENST00000486089	processed_transcript	KNOWN	None	12457	None	None	162567031	162569589	1	SPAG2	AGX1, AgX
1	UAP1	ENSG00000117143	ENST00000271469	protein_coding	KNOWN	None	12457	1569	522	162531323	162569626	1	SPAG2	AGX1, AgX
14	MIR376A1	ENSG00000264882	ENST00000584362	miRNA	KNOWN	None	31869	None	None	101507104	101507206	1	MIRN376A, MIRN376A1	hsa-mir-376a, hsa-mir-376a-1
8	None	ENSG00000253351	ENST00000523171	lincRNA	KNOWN	None	None	None	None	96219235	96228602	-1	None	None
15	None	ENSG00000242634	ENST00000497294	processed_pseudogene	KNOWN	None	None	None	None	67524784	67525175	1	None	None
5	None	ENSG00000251342	ENST00000513990	processed_pseudogene	KNOWN	None	None	None	None	75374491	75375588	1	None	None
19	APOE	ENSG00000130203	ENST00000252486	protein_coding	KNOWN	CCDS12647	613	954	317	45409011	45412650	1	AD2	None
19	APOE	ENSG00000130203	ENST00000446996	protein_coding	PUTATIVE	None	613	648	215	45409048	45412201	1	AD2	None
19	APOE	ENSG00000130203	ENST00000485628	retained_intron	KNOWN	None	613	None	None	45409053	45410583	1	AD2	None
19	APOE	ENSG00000130203	ENST00000434152	protein_coding	PUTATIVE	None	613	807	268	45409069	45412282	1	AD2	None
19	APOE	ENSG00000130203	ENST00000425718	protein_coding	KNOWN	None	613	658	218	45409617	45412211	1	AD2	None
14	MIR300	ENSG00000215957	ENST00000401138	miRNA	KNOWN	None	33636	None	None	101507700	101507782	1	MIRN300	hsa-mir-300
14	RNASE6	ENSG00000169413	ENST00000304677	protein_coding	KNOWN	CCDS9558	10048	453	150	21249210	21250626	1	RNS6	None
1	RNU6-291P	ENSG00000207451	ENST00000384720	snRNA	KNOWN	None	47254	None	None	11286311	11286417	1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000257212	ENST00000547011	protein_coding	NOVEL	None	None	195	64	30179165	30328137	-1	None	None
15	None	ENSG00000260787	ENST00000569742	lincRNA	KNOWN	None	None	None	None	77334178	77335533	-1	None	None
8	None	ENSG00000253339	ENST00000519134	lincRNA	KNOWN	None	None	None	None	74271148	74274710	1	None	None
8	None	ENSG00000253339	ENST00000518355	lincRNA	KNOWN	None	None	None	None	74271148	74275023	1	None	None
16	CETP	ENSG00000087237	ENST00000200676	protein_coding	KNOWN	CCDS10772	1869	1482	493	56995762	57017757	1	None	BPIFF
16	CETP	ENSG00000087237	ENST00000379780	protein_coding	KNOWN	None	1869	1302	433	56995835	57017756	1	None	BPIFF
16	CETP	ENSG00000087237	ENST00000569082	processed_transcript	KNOWN	None	1869	None	None	56995894	57007280	1	None	BPIFF
16	CETP	ENSG00000087237	ENST00000566128	protein_coding	PUTATIVE	None	1869	1287	428	56996019	57017757	1	None	BPIFF
19	RPL23AP79	ENSG00000213753	ENST00000479047	processed_transcript	KNOWN	None	36226	None	None	59084870	59093013	1	None	None
19	RPL23AP79	ENSG00000213753	ENST00000487264	processed_transcript	KNOWN	None	36226	None	None	59086812	59111168	1	None	None
19	RPL23AP79	ENSG00000213753	ENST00000473164	processed_transcript	KNOWN	None	36226	None	None	59086823	59110942	1	None	None
19	RPL23AP79	ENSG00000213753	ENST00000493504	processed_transcript	KNOWN	None	36226	None	None	59086827	59095764	1	None	None
19	RPL23AP79	ENSG00000213753	ENST00000492393	processed_transcript	KNOWN	None	36226	None	None	59097652	59100861	1	None	None
19	RPL23AP79	ENSG00000213753	ENST00000595439	processed_transcript	KNOWN	None	36226	None	None	59097652	59100861	1	None	None
19	RPL23AP79	ENSG00000213753	ENST00000595155	processed_transcript	KNOWN	None	36226	None	None	59100433	59100862	1	None	None
19	RPL23AP79	ENSG00000213753	ENST00000464061	transcribed_processed_pseudogene	KNOWN	None	36226	None	None	59110334	59110802	1	None	None
8	None	ENSG00000253945	ENST00000523014	processed_pseudogene	KNOWN	None	None	None	None	96416030	96416122	1	None	None
4	RNA5SP168	ENSG00000252451	ENST00000516642	rRNA	KNOWN	None	43068	None	None	151891823	151891934	-1	RN5S168	None
14	TRAV8-4	ENSG00000211790	ENST00000390438	TR_V_gene	KNOWN	None	12149	341	112	22362613	22363210	1	None	None
19	OR4G3P	ENSG00000266945	ENST00000586820	unprocessed_pseudogene	KNOWN	None	8304	None	None	94062	94956	1	OR4G3, OR4G5P	OLC, OLC-7501
19	OR4G3P	ENSG00000266945	ENST00000598977	unprocessed_pseudogene	KNOWN	None	8304	None	None	94659	96511	1	OR4G3, OR4G5P	OLC, OLC-7501
X	DACH2	ENSG00000126733	ENST00000373131	protein_coding	KNOWN	CCDS48140	16814	1716	571	85403462	86087605	1	None	None
X	DACH2	ENSG00000126733	ENST00000461604	nonsense_mediated_decay	KNOWN	None	16814	1323	440	85403464	86087607	1	None	None
X	DACH2	ENSG00000126733	ENST00000506327	nonsense_mediated_decay	KNOWN	None	16814	528	175	85403625	86087206	1	None	None
X	DACH2	ENSG00000126733	ENST00000373125	protein_coding	KNOWN	CCDS14455	16814	1800	599	85403625	86087590	1	None	None
X	DACH2	ENSG00000126733	ENST00000508860	protein_coding	KNOWN	CCDS55457	16814	1299	432	85517971	86087577	1	None	None
X	DACH2	ENSG00000126733	ENST00000510272	protein_coding	KNOWN	None	16814	1143	380	85517971	86087605	1	None	None
X	DACH2	ENSG00000126733	ENST00000484479	protein_coding	NOVEL	None	16814	750	249	85969655	86087605	1	None	None
X	DACH2	ENSG00000126733	ENST00000477378	processed_transcript	KNOWN	None	16814	None	None	85991257	86083104	1	None	None
3	RNU6-547P	ENSG00000252082	ENST00000516273	snRNA	KNOWN	None	47510	None	None	172420914	172421015	1	None	None
4	AK4P6	ENSG00000235606	ENST00000505168	processed_pseudogene	KNOWN	None	39069	None	None	151948242	151948769	1	None	None
1	RPL39P6	ENSG00000238173	ENST00000448289	processed_pseudogene	KNOWN	None	35803	None	None	11293020	11293169	1	None	None
15	None	ENSG00000259652	ENST00000560446	lincRNA	KNOWN	None	None	None	None	77336022	77337502	1	None	None
15	IQCH-AS1	ENSG00000259673	ENST00000559298	lincRNA	KNOWN	None	44104	None	None	67695957	67813974	-1	None	None
15	IQCH-AS1	ENSG00000259673	ENST00000561232	lincRNA	KNOWN	None	44104	None	None	67695957	67814182	-1	None	None
15	IQCH-AS1	ENSG00000259673	ENST00000558025	lincRNA	KNOWN	None	44104	None	None	67700415	67705876	-1	None	None
15	IQCH-AS1	ENSG00000259673	ENST00000559285	lincRNA	KNOWN	None	44104	None	None	67713547	67813287	-1	None	None
15	IQCH-AS1	ENSG00000259673	ENST00000559702	lincRNA	KNOWN	None	44104	None	None	67812344	67813400	-1	None	None
11	None	ENSG00000254515	ENST00000529628	processed_pseudogene	KNOWN	None	None	None	None	121109013	121109397	1	None	None
9	ACER2	ENSG00000177076	ENST00000340967	protein_coding	KNOWN	CCDS34992	23675	828	275	19409057	19452018	1	ASAH3L	FLJ41587
9	ACER2	ENSG00000177076	ENST00000380376	protein_coding	KNOWN	None	23675	423	140	19408925	19446248	1	ASAH3L	FLJ41587
4	None	ENSG00000201264	ENST00000364394	snoRNA	NOVEL	None	None	None	None	152023209	152023280	1	None	None
19	OR4G1P	ENSG00000267310	ENST00000588632	unprocessed_pseudogene	KNOWN	None	8302	None	None	104535	105471	1	OR4G8P	OLB
5	None	ENSG00000250003	ENST00000513039	lincRNA	KNOWN	None	None	None	None	38025799	38184034	1	None	None
3	None	ENSG00000200355	ENST00000363485	snoRNA	NOVEL	None	None	None	None	172489067	172489195	-1	None	None
15	HNRNPA3P11	ENSG00000260689	ENST00000564298	processed_pseudogene	KNOWN	None	48757	None	None	57539158	57540091	-1	None	None
19	ERCC2	ENSG00000104884	ENST00000391945	protein_coding	KNOWN	CCDS33049	3434	2283	760	45853095	45873876	-1	XPD	MAG, EM9, MGC102762, MGC126218, MGC126219
19	ERCC2	ENSG00000104884	ENST00000588652	retained_intron	KNOWN	None	3434	None	None	45854853	45862196	-1	XPD	MAG, EM9, MGC102762, MGC126218, MGC126219
19	ERCC2	ENSG00000104884	ENST00000391942	retained_intron	KNOWN	None	3434	None	None	45854853	45865189	-1	XPD	MAG, EM9, MGC102762, MGC126218, MGC126219
19	ERCC2	ENSG00000104884	ENST00000391941	protein_coding	NOVEL	None	3434	2118	705	45855467	45874176	-1	XPD	MAG, EM9, MGC102762, MGC126218, MGC126219
19	ERCC2	ENSG00000104884	ENST00000587376	nonsense_mediated_decay	KNOWN	None	3434	608	201	45856500	45867315	-1	XPD	MAG, EM9, MGC102762, MGC126218, MGC126219
19	ERCC2	ENSG00000104884	ENST00000485403	protein_coding	KNOWN	CCDS46112	3434	1218	405	45862017	45873642	-1	XPD	MAG, EM9, MGC102762, MGC126218, MGC126219
19	ERCC2	ENSG00000104884	ENST00000586131	protein_coding	NOVEL	None	3434	877	291	45867244	45873791	-1	XPD	MAG, EM9, MGC102762, MGC126218, MGC126219
19	ERCC2	ENSG00000104884	ENST00000591309	nonsense_mediated_decay	KNOWN	None	3434	384	127	45867295	45873815	-1	XPD	MAG, EM9, MGC102762, MGC126218, MGC126219
19	ERCC2	ENSG00000104884	ENST00000586737	retained_intron	KNOWN	None	3434	None	None	45867349	45873813	-1	XPD	MAG, EM9, MGC102762, MGC126218, MGC126219
19	ERCC2	ENSG00000104884	ENST00000586441	retained_intron	KNOWN	None	3434	None	None	45867494	45873813	-1	XPD	MAG, EM9, MGC102762, MGC126218, MGC126219
19	ERCC2	ENSG00000104884	ENST00000586856	protein_coding	NOVEL	None	3434	327	108	45868300	45873786	-1	XPD	MAG, EM9, MGC102762, MGC126218, MGC126219
19	ERCC2	ENSG00000104884	ENST00000391944	protein_coding	KNOWN	None	3434	2049	682	45854861	45873826	-1	XPD	MAG, EM9, MGC102762, MGC126218, MGC126219
19	ERCC2	ENSG00000104884	ENST00000391940	protein_coding	KNOWN	CCDS46112	3434	1218	405	45862118	45873808	-1	XPD	MAG, EM9, MGC102762, MGC126218, MGC126219
19	ERCC2	ENSG00000104884	ENST00000221481	protein_coding	KNOWN	None	3434	384	127	45867033	45873815	-1	XPD	MAG, EM9, MGC102762, MGC126218, MGC126219
HG883_PATCH	SLC13A2	ENSG00000262654	ENST00000576741	protein_coding	KNOWN	None	10917	1926	641	26800312	26824797	1	None	NaDC-1
HG883_PATCH	SLC13A2	ENSG00000262654	ENST00000572344	protein_coding	KNOWN	None	10917	1779	592	26800312	26824800	1	None	NaDC-1
HG883_PATCH	SLC13A2	ENSG00000262654	ENST00000580827	nonsense_mediated_decay	KNOWN	None	10917	108	35	26800711	26824337	1	None	NaDC-1
HG883_PATCH	SLC13A2	ENSG00000262654	ENST00000573453	retained_intron	KNOWN	None	10917	None	None	26800757	26821095	1	None	NaDC-1
HG883_PATCH	SLC13A2	ENSG00000262654	ENST00000581961	nonsense_mediated_decay	KNOWN	None	10917	83	26	26800757	26824713	1	None	NaDC-1
HG883_PATCH	SLC13A2	ENSG00000262654	ENST00000573316	nonsense_mediated_decay	KNOWN	None	10917	83	26	26800757	26824797	1	None	NaDC-1
3	RNU4-4P	ENSG00000201458	ENST00000364588	snRNA	KNOWN	None	10197	None	None	172514219	172514348	-1	RNU4P4	U4, U4/5
5	None	ENSG00000238836	ENST00000458832	miRNA	NOVEL	None	None	None	None	38081774	38081845	-1	None	None
11	RPS4XP12	ENSG00000244400	ENST00000461747	processed_pseudogene	KNOWN	None	35951	None	None	121120979	121121687	-1	RPS4P12	None
5	None	ENSG00000248461	ENST00000508853	lincRNA	KNOWN	None	None	None	None	38148582	38153817	1	None	None
19	None	ENSG00000267792	ENST00000586141	processed_pseudogene	KNOWN	None	None	None	None	145485	145812	1	None	None
8	None	ENSG00000253413	ENST00000522215	processed_pseudogene	KNOWN	None	None	None	None	60672606	60672822	1	None	None
6	None	ENSG00000218713	ENST00000394808	processed_pseudogene	KNOWN	None	None	None	None	53071396	53073495	-1	None	None
20	None	ENSG00000227282	ENST00000443747	lincRNA	KNOWN	None	None	None	None	58090246	58091094	1	None	None
5	EGFLAM-AS4	ENSG00000248730	ENST00000512496	antisense	KNOWN	None	41166	None	None	38282366	38291088	-1	None	None
20	PRND	ENSG00000171864	ENST00000305817	protein_coding	KNOWN	CCDS13081	15748	531	176	4702556	4709106	1	None	DPL, dJ1068H6.4, DOPPEL, PrPLP
19	OR4F8P	ENSG00000266971	ENST00000589943	unprocessed_pseudogene	KNOWN	None	15395	None	None	156279	157215	-1	OR4F20P, OR4F9P	None
10	SMNDC1	ENSG00000119953	ENST00000369603	protein_coding	KNOWN	CCDS7565	16900	717	238	112052798	112064709	-1	None	SPF30, SMNR, TDRD16C
10	SMNDC1	ENSG00000119953	ENST00000369592	protein_coding	PUTATIVE	CCDS7565	16900	717	238	112053820	112064455	-1	None	SPF30, SMNR, TDRD16C
10	SMNDC1	ENSG00000119953	ENST00000460483	processed_transcript	KNOWN	None	16900	None	None	112054988	112064664	-1	None	SPF30, SMNR, TDRD16C
10	SMNDC1	ENSG00000119953	ENST00000471297	processed_transcript	KNOWN	None	16900	None	None	112057328	112064696	-1	None	SPF30, SMNR, TDRD16C
10	SMNDC1	ENSG00000119953	ENST00000477763	retained_intron	KNOWN	None	16900	None	None	112058435	112063889	-1	None	SPF30, SMNR, TDRD16C
15	None	ENSG00000239035	ENST00000459428	snoRNA	NOVEL	None	None	None	None	57570768	57570871	-1	None	None
17	None	ENSG00000174093	ENST00000523258	nonsense_mediated_decay	KNOWN	None	None	502	166	36337717	36358166	-1	None	None
17	None	ENSG00000174093	ENST00000523052	nonsense_mediated_decay	KNOWN	None	None	155	50	36344880	36375123	-1	None	None
17	None	ENSG00000174093	ENST00000520499	nonsense_mediated_decay	KNOWN	None	None	492	163	36351796	36413178	-1	None	None
17	None	ENSG00000174093	ENST00000520237	protein_coding	PUTATIVE	None	None	1433	476	36351796	36413269	-1	None	None
17	None	ENSG00000174093	ENST00000400815	retained_intron	KNOWN	None	None	None	None	36351803	36421858	-1	None	None
17	None	ENSG00000174093	ENST00000523089	protein_coding	PUTATIVE	None	None	1292	429	36351936	36413133	-1	None	None
17	None	ENSG00000174093	ENST00000518004	protein_coding	PUTATIVE	None	None	1414	470	36351936	36421841	-1	None	None
17	None	ENSG00000174093	ENST00000544906	protein_coding	KNOWN	None	None	975	324	36344880	36375123	-1	None	None
17	None	ENSG00000174093	ENST00000312412	protein_coding	KNOWN	None	None	1437	478	36351803	36413159	-1	None	None
14	MIR1185-1	ENSG00000221525	ENST00000408598	miRNA	KNOWN	None	35257	None	None	101509314	101509399	1	MIRN1185-1	hsa-mir-1185-1
6	RNU1-136P	ENSG00000206908	ENST00000384181	snRNA	KNOWN	None	48478	None	None	53084059	53084222	1	None	None
1	UBE2V2P3	ENSG00000238199	ENST00000433562	processed_pseudogene	KNOWN	None	44891	None	None	11338673	11339408	-1	None	None
14	MIR1185-2	ENSG00000221614	ENST00000408687	miRNA	KNOWN	None	35254	None	None	101510535	101510620	1	MIRN1185-2	hsa-mir-1185-2
19	None	ENSG00000267616	ENST00000585721	lincRNA	KNOWN	None	None	None	None	159361	174665	-1	None	None
3	ATP5G1P4	ENSG00000227440	ENST00000430660	processed_pseudogene	KNOWN	None	39507	None	None	172546526	172546966	-1	None	None
11	LMO2	ENSG00000135363	ENST00000464025	retained_intron	KNOWN	None	6642	None	None	33880122	33886697	-1	RBTNL1	TTG2, RHOM2, RBTN2
11	LMO2	ENSG00000135363	ENST00000411482	nonsense_mediated_decay	KNOWN	None	6642	168	55	33880122	33891082	-1	RBTNL1	TTG2, RHOM2, RBTN2
11	LMO2	ENSG00000135363	ENST00000395833	protein_coding	KNOWN	CCDS44567	6642	477	158	33880122	33891362	-1	RBTNL1	TTG2, RHOM2, RBTN2
11	LMO2	ENSG00000135363	ENST00000257818	protein_coding	KNOWN	CCDS7888	6642	684	227	33880122	33913836	-1	RBTNL1	TTG2, RHOM2, RBTN2
11	LMO2	ENSG00000135363	ENST00000465614	retained_intron	KNOWN	None	6642	None	None	33886310	33891858	-1	RBTNL1	TTG2, RHOM2, RBTN2
11	LMO2	ENSG00000135363	ENST00000493667	processed_transcript	KNOWN	None	6642	None	None	33891091	33892075	-1	RBTNL1	TTG2, RHOM2, RBTN2
9	None	ENSG00000236403	ENST00000417054	lincRNA	KNOWN	None	None	None	None	137828997	137835041	1	None	None
8	None	ENSG00000253235	ENST00000522560	lincRNA	KNOWN	None	None	None	None	74281005	74281530	-1	None	None
16	None	ENSG00000247033	ENST00000499110	antisense	KNOWN	None	None	None	None	75142499	75144610	-1	None	None
5	None	ENSG00000253686	ENST00000517733	lincRNA	KNOWN	None	None	None	None	173134617	173173212	-1	None	None
5	None	ENSG00000253686	ENST00000521128	lincRNA	KNOWN	None	None	None	None	173137443	173146695	-1	None	None
5	None	ENSG00000253686	ENST00000518902	lincRNA	KNOWN	None	None	None	None	173146249	173173214	-1	None	None
17	None	ENSG00000258924	ENST00000591482	processed_transcript	KNOWN	None	None	None	None	26684670	26708716	1	None	None
17	None	ENSG00000258924	ENST00000579762	processed_transcript	KNOWN	None	None	None	None	26684675	26685491	1	None	None
10	RNU6-576P	ENSG00000212156	ENST00000390854	snRNA	KNOWN	None	47539	None	None	2241581	2241682	1	None	None
14	TRAV13-2	ENSG00000211791	ENST00000390439	TR_V_gene	KNOWN	None	12109	340	112	22386363	22386931	1	None	None
16	None	ENSG00000261058	ENST00000563098	lincRNA	KNOWN	None	None	None	None	75153456	75178098	1	None	None
14	MIR381HG	ENSG00000258861	ENST00000553692	lincRNA	KNOWN	None	20136	None	None	101511494	101518132	1	C14orf89	NCRNA00225
10	LINC00701	ENSG00000234556	ENST00000418295	lincRNA	KNOWN	None	44674	None	None	2347277	2357269	-1	None	None
14	None	ENSG00000259084	ENST00000488933	sense_overlapping	KNOWN	None	None	None	None	96129593	96158965	1	None	None
14	None	ENSG00000259084	ENST00000495847	sense_overlapping	KNOWN	None	None	None	None	96129593	96158965	1	None	None
14	None	ENSG00000259084	ENST00000461160	sense_overlapping	KNOWN	None	None	None	None	96129593	96158965	1	None	None
14	None	ENSG00000259084	ENST00000553913	sense_overlapping	KNOWN	None	None	None	None	96129593	96158967	1	None	None
20	RN7SKP69	ENSG00000202260	ENST00000365390	misc_RNA	KNOWN	None	45793	None	None	17556851	17557155	-1	None	None
2	SCLY	ENSG00000132330	ENST00000254663	protein_coding	KNOWN	CCDS2524	18161	1362	453	238969530	239008054	1	None	SCL
2	SCLY	ENSG00000132330	ENST00000480357	retained_intron	KNOWN	None	18161	None	None	238969569	239008053	1	None	SCL
2	SCLY	ENSG00000132330	ENST00000497256	retained_intron	KNOWN	None	18161	None	None	238969607	238976872	1	None	SCL
2	SCLY	ENSG00000132330	ENST00000413463	protein_coding	NOVEL	None	18161	512	169	238969642	238990843	1	None	SCL
2	SCLY	ENSG00000132330	ENST00000446202	nonsense_mediated_decay	KNOWN	None	18161	222	73	238969661	238990382	1	None	SCL
2	SCLY	ENSG00000132330	ENST00000409736	protein_coding	KNOWN	None	18161	954	317	238969672	239000724	1	None	SCL
2	SCLY	ENSG00000132330	ENST00000423324	nonsense_mediated_decay	KNOWN	None	18161	216	71	238969684	238991944	1	None	SCL
2	SCLY	ENSG00000132330	ENST00000412508	protein_coding	NOVEL	None	18161	585	194	238969695	239006860	1	None	SCL
2	SCLY	ENSG00000132330	ENST00000443532	nonsense_mediated_decay	KNOWN	None	18161	330	109	238969723	238990862	1	None	SCL
2	SCLY	ENSG00000132330	ENST00000416757	protein_coding	PUTATIVE	None	18161	456	151	238969732	238978477	1	None	SCL
2	SCLY	ENSG00000132330	ENST00000487197	retained_intron	KNOWN	None	18161	None	None	238969754	238973736	1	None	SCL
2	SCLY	ENSG00000132330	ENST00000480859	processed_transcript	KNOWN	None	18161	None	None	238969934	238990367	1	None	SCL
2	SCLY	ENSG00000132330	ENST00000482031	retained_intron	KNOWN	None	18161	None	None	238973001	238991716	1	None	SCL
2	SCLY	ENSG00000132330	ENST00000431487	protein_coding	PUTATIVE	None	18161	506	167	238978098	238991887	1	None	SCL
2	SCLY	ENSG00000132330	ENST00000437134	protein_coding	PUTATIVE	None	18161	754	250	238978105	239008000	1	None	SCL
2	SCLY	ENSG00000132330	ENST00000497951	retained_intron	KNOWN	None	18161	None	None	238987206	239000114	1	None	SCL
2	SCLY	ENSG00000132330	ENST00000450965	protein_coding	PUTATIVE	None	18161	726	241	238990376	239008054	1	None	SCL
2	SCLY	ENSG00000132330	ENST00000440143	protein_coding	PUTATIVE	None	18161	179	58	238990742	239000164	1	None	SCL
2	SCLY	ENSG00000132330	ENST00000433750	protein_coding	PUTATIVE	None	18161	368	121	238991887	239003490	1	None	SCL
2	SCLY	ENSG00000132330	ENST00000463433	retained_intron	KNOWN	None	18161	None	None	238999859	239004827	1	None	SCL
2	SCLY	ENSG00000132330	ENST00000555827	protein_coding	KNOWN	None	18161	1338	445	238969632	239008053	1	None	SCL
2	SCLY	ENSG00000132330	ENST00000422984	protein_coding	KNOWN	None	18161	1056	351	238969672	239007102	1	None	SCL
2	SCLY	ENSG00000132330	ENST00000429612	protein_coding	KNOWN	None	18161	720	239	238969695	239007536	1	None	SCL
2	SCLY	ENSG00000132330	ENST00000373332	protein_coding	KNOWN	None	18161	708	235	238969632	238999928	1	None	SCL
16	None	ENSG00000213318	ENST00000474978	processed_pseudogene	KNOWN	None	None	None	None	75226363	75227145	-1	None	None
2	DTNB	ENSG00000138101	ENST00000398951	nonsense_mediated_decay	KNOWN	None	3058	450	149	25600112	25896419	-1	None	None
2	DTNB	ENSG00000138101	ENST00000406818	protein_coding	KNOWN	CCDS46237	3058	1884	627	25600112	25896503	-1	None	None
2	DTNB	ENSG00000138101	ENST00000404103	protein_coding	KNOWN	CCDS46235	3058	1794	597	25600112	25896503	-1	None	None
2	DTNB	ENSG00000138101	ENST00000407661	protein_coding	KNOWN	CCDS46236	3058	1830	609	25600112	25896503	-1	None	None
2	DTNB	ENSG00000138101	ENST00000407038	protein_coding	KNOWN	CCDS46234	3058	1704	567	25600112	25896503	-1	None	None
2	DTNB	ENSG00000138101	ENST00000405222	protein_coding	KNOWN	CCDS46233	3058	1683	560	25600112	25896503	-1	None	None
2	DTNB	ENSG00000138101	ENST00000497476	processed_transcript	PUTATIVE	None	3058	None	None	25600114	25608964	-1	None	None
2	DTNB	ENSG00000138101	ENST00000407186	protein_coding	NOVEL	None	3058	1773	590	25600127	25896430	-1	None	None
2	DTNB	ENSG00000138101	ENST00000356599	nonsense_mediated_decay	KNOWN	None	3058	192	63	25600153	25896465	-1	None	None
2	DTNB	ENSG00000138101	ENST00000488457	retained_intron	KNOWN	None	3058	None	None	25600182	25602782	-1	None	None
2	DTNB	ENSG00000138101	ENST00000489949	retained_intron	KNOWN	None	3058	None	None	25606552	25650885	-1	None	None
2	DTNB	ENSG00000138101	ENST00000479898	retained_intron	KNOWN	None	3058	None	None	25610063	25704514	-1	None	None
2	DTNB	ENSG00000138101	ENST00000498437	retained_intron	KNOWN	None	3058	None	None	25610093	25611509	-1	None	None
2	DTNB	ENSG00000138101	ENST00000482145	retained_intron	KNOWN	None	3058	None	None	25611130	25704714	-1	None	None
2	DTNB	ENSG00000138101	ENST00000481841	processed_transcript	KNOWN	None	3058	None	None	25611187	25720520	-1	None	None
2	DTNB	ENSG00000138101	ENST00000485845	retained_intron	KNOWN	None	3058	None	None	25641971	25875529	-1	None	None
2	DTNB	ENSG00000138101	ENST00000486555	processed_transcript	KNOWN	None	3058	None	None	25656779	25720454	-1	None	None
2	DTNB	ENSG00000138101	ENST00000489756	processed_transcript	KNOWN	None	3058	None	None	25656779	25720488	-1	None	None
2	DTNB	ENSG00000138101	ENST00000493538	retained_intron	KNOWN	None	3058	None	None	25799385	25896298	-1	None	None
2	DTNB	ENSG00000138101	ENST00000493386	retained_intron	KNOWN	None	3058	None	None	25799433	25819325	-1	None	None
2	DTNB	ENSG00000138101	ENST00000472690	processed_transcript	KNOWN	None	3058	None	None	25799698	25872799	-1	None	None
2	DTNB	ENSG00000138101	ENST00000474987	processed_transcript	KNOWN	None	3058	None	None	25799822	25821912	-1	None	None
2	DTNB	ENSG00000138101	ENST00000473113	processed_transcript	PUTATIVE	None	3058	None	None	25817758	25830162	-1	None	None
2	DTNB	ENSG00000138101	ENST00000303659	protein_coding	KNOWN	None	3058	565	187	25818993	25876049	-1	None	None
2	DTNB	ENSG00000138101	ENST00000495466	processed_transcript	KNOWN	None	3058	None	None	25830127	25873091	-1	None	None
2	DTNB	ENSG00000138101	ENST00000349996	protein_coding	KNOWN	None	3058	397	131	25830156	25895815	-1	None	None
2	DTNB	ENSG00000138101	ENST00000460418	retained_intron	KNOWN	None	3058	None	None	25851040	25862197	-1	None	None
2	DTNB	ENSG00000138101	ENST00000486826	processed_transcript	PUTATIVE	None	3058	None	None	25851052	25896357	-1	None	None
2	DTNB	ENSG00000138101	ENST00000288642	protein_coding	KNOWN	None	3058	1794	597	25600131	25896503	-1	None	None
2	DTNB	ENSG00000138101	ENST00000496972	protein_coding	KNOWN	CCDS58702	3058	1638	545	25600067	25873093	-1	None	None
2	DTNB	ENSG00000138101	ENST00000545439	protein_coding	KNOWN	None	3058	1251	416	25600385	25896421	-1	None	None
5	None	ENSG00000263401	ENST00000580730	miRNA	NOVEL	None	None	None	None	173157081	173157180	1	None	None
9	None	ENSG00000227958	ENST00000452377	lincRNA	KNOWN	None	None	None	None	138096568	138129443	-1	None	None
8	STAU2-AS1	ENSG00000253302	ENST00000522703	lincRNA	KNOWN	None	44101	None	None	74332239	74351472	1	None	None
8	STAU2-AS1	ENSG00000253302	ENST00000517604	lincRNA	KNOWN	None	44101	None	None	74332309	74353761	1	None	None
16	None	ENSG00000239114	ENST00000459570	snoRNA	NOVEL	None	None	None	None	30290569	30290672	-1	None	None
17	MIR4723	ENSG00000264302	ENST00000585070	miRNA	KNOWN	None	41660	None	None	26687677	26687757	1	None	hsa-mir-4723
11	BMPR1APS2	ENSG00000232460	ENST00000527904	processed_pseudogene	KNOWN	None	21743	None	None	121232563	121233574	-1	None	None
11	BMPR1APS2	ENSG00000232460	ENST00000451822	processed_pseudogene	KNOWN	None	21743	None	None	121232559	121233572	-1	None	None
17	None	ENSG00000265618	ENST00000577850	antisense	KNOWN	None	None	None	None	26688623	26689881	-1	None	None
10	None	ENSG00000234170	ENST00000414107	lincRNA	KNOWN	None	None	None	None	2488447	2489546	-1	None	None
10	None	ENSG00000234170	ENST00000441907	lincRNA	KNOWN	None	None	None	None	2488447	2489546	-1	None	None
10	None	ENSG00000234170	ENST00000439973	lincRNA	KNOWN	None	None	None	None	2488452	2489546	-1	None	None
X	None	ENSG00000237971	ENST00000451184	processed_pseudogene	KNOWN	None	None	None	None	64404898	64407145	-1	None	None
19	ATP8B3	ENSG00000130270	ENST00000310127	protein_coding	KNOWN	CCDS45901	13535	3903	1300	1782074	1812275	-1	None	ATPIK
19	ATP8B3	ENSG00000130270	ENST00000531925	nonsense_mediated_decay	KNOWN	None	13535	261	86	1782076	1812275	-1	None	ATPIK
19	ATP8B3	ENSG00000130270	ENST00000525591	protein_coding	KNOWN	CCDS54196	13535	3792	1263	1783027	1812199	-1	None	ATPIK
19	ATP8B3	ENSG00000130270	ENST00000526847	nonsense_mediated_decay	KNOWN	None	13535	116	37	1785557	1790816	-1	None	ATPIK
19	ATP8B3	ENSG00000130270	ENST00000526092	protein_coding	PUTATIVE	None	13535	1689	562	1798760	1812275	-1	None	ATPIK
19	ATP8B3	ENSG00000130270	ENST00000533107	retained_intron	KNOWN	None	13535	None	None	1798763	1806159	-1	None	ATPIK
19	ATP8B3	ENSG00000130270	ENST00000533993	protein_coding	NOVEL	None	13535	882	293	1805189	1811623	-1	None	ATPIK
19	ATP8B3	ENSG00000130270	ENST00000587160	protein_coding	KNOWN	None	13535	323	106	1810608	1812236	-1	None	ATPIK
19	ATP8B3	ENSG00000130270	ENST00000539485	protein_coding	KNOWN	None	13535	3933	1310	1782076	1812270	-1	None	ATPIK
10	ADAMTS14	ENSG00000138316	ENST00000373208	protein_coding	KNOWN	CCDS7307	14899	3681	1226	72432559	72522197	1	None	None
10	ADAMTS14	ENSG00000138316	ENST00000373207	protein_coding	KNOWN	CCDS7306	14899	3672	1223	72432559	72522197	1	None	None
5	None	ENSG00000254211	ENST00000520324	lincRNA	KNOWN	None	None	None	None	173213793	173215416	-1	None	None
5	None	ENSG00000254211	ENST00000523617	lincRNA	KNOWN	None	None	None	None	173213931	173217928	-1	None	None
5	None	ENSG00000254211	ENST00000522731	lincRNA	KNOWN	None	None	None	None	173216278	173217945	-1	None	None
5	None	ENSG00000254211	ENST00000522571	lincRNA	KNOWN	None	None	None	None	173217462	173234884	-1	None	None
5	None	ENSG00000254211	ENST00000518675	lincRNA	KNOWN	None	None	None	None	173217812	173236042	-1	None	None
20	None	ENSG00000230495	ENST00000434165	processed_pseudogene	KNOWN	None	None	None	None	17579900	17580452	-1	None	None
14	MIR381	ENSG00000199020	ENST00000362150	miRNA	KNOWN	None	31874	None	None	101512257	101512331	1	MIRN381	hsa-mir-381
17	None	ENSG00000264098	ENST00000583956	antisense	KNOWN	None	None	None	None	26729128	26731067	1	None	None
3	None	ENSG00000237501	ENST00000428618	processed_pseudogene	KNOWN	None	None	None	None	172548771	172549019	-1	None	None
16	None	ENSG00000240338	ENST00000489723	processed_transcript	KNOWN	None	None	None	None	75259972	75262093	1	None	None
16	None	ENSG00000240338	ENST00000463353	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	75260239	75262013	1	None	None
16	None	ENSG00000240338	ENST00000498687	retained_intron	KNOWN	None	None	None	None	75260415	75261204	1	None	None
16	None	ENSG00000240338	ENST00000467381	retained_intron	KNOWN	None	None	None	None	75260884	75262093	1	None	None
17	None	ENSG00000265254	ENST00000580714	antisense	KNOWN	None	None	None	None	26732258	26733814	1	None	None
16	HBM	ENSG00000206177	ENST00000472539	processed_transcript	KNOWN	None	4826	None	None	203891	216760	1	HBAP2	None
16	HBM	ENSG00000206177	ENST00000496585	processed_transcript	KNOWN	None	4826	None	None	214481	216760	1	HBAP2	None
16	HBM	ENSG00000206177	ENST00000356815	protein_coding	KNOWN	CCDS32347	4826	426	141	215977	216767	1	HBAP2	None
3	None	ENSG00000239141	ENST00000459193	snoRNA	KNOWN	None	None	None	None	172692932	172693032	-1	None	None
20	None	ENSG00000238194	ENST00000443055	antisense	KNOWN	None	None	None	None	58201519	58203334	-1	None	None
20	None	ENSG00000238194	ENST00000451510	antisense	KNOWN	None	None	None	None	58201536	58203344	-1	None	None
9	None	ENSG00000233936	ENST00000420883	lincRNA	KNOWN	None	None	None	None	138137542	138144554	-1	None	None
X	None	ENSG00000222596	ENST00000410664	miRNA	NOVEL	None	None	None	None	64435117	64435222	1	None	None
17	H3F3BP2	ENSG00000265541	ENST00000583907	unprocessed_pseudogene	KNOWN	None	42979	None	None	26743940	26744510	1	None	None
1	None	ENSG00000224338	ENST00000435243	processed_pseudogene	KNOWN	None	None	None	None	11485314	11485878	-1	None	None
11	None	ENSG00000271022	ENST00000603448	processed_pseudogene	KNOWN	None	None	None	None	121297354	121298125	-1	None	None
3	IQCJ	ENSG00000214216	ENST00000481796	processed_transcript	KNOWN	None	32406	None	None	158680717	158980466	1	None	None
3	IQCJ	ENSG00000214216	ENST00000397832	protein_coding	KNOWN	CCDS46947	32406	339	112	158787117	158981536	1	None	None
3	IQCJ	ENSG00000214216	ENST00000451172	protein_coding	KNOWN	CCDS46946	32406	480	159	158787117	158983492	1	None	None
3	IQCJ	ENSG00000214216	ENST00000482126	protein_coding	NOVEL	CCDS56290	32406	399	132	158787117	158984096	1	None	None
5	STARD4	ENSG00000164211	ENST00000296632	protein_coding	KNOWN	CCDS4104	18058	618	205	110831731	110848208	-1	None	None
5	STARD4	ENSG00000164211	ENST00000512160	protein_coding	PUTATIVE	None	18058	168	55	110832645	110848233	-1	None	None
5	STARD4	ENSG00000164211	ENST00000511137	nonsense_mediated_decay	KNOWN	None	18058	168	55	110835100	110848233	-1	None	None
5	STARD4	ENSG00000164211	ENST00000502931	processed_transcript	KNOWN	None	18058	None	None	110835283	110848233	-1	None	None
5	STARD4	ENSG00000164211	ENST00000505803	protein_coding	KNOWN	None	18058	575	190	110835580	110848260	-1	None	None
5	STARD4	ENSG00000164211	ENST00000502322	protein_coding	PUTATIVE	None	18058	480	159	110835845	110848288	-1	None	None
5	STARD4	ENSG00000164211	ENST00000509887	protein_coding	PUTATIVE	None	18058	168	55	110835944	110848233	-1	None	None
5	STARD4	ENSG00000164211	ENST00000511569	processed_transcript	KNOWN	None	18058	None	None	110836162	110848233	-1	None	None
5	STARD4	ENSG00000164211	ENST00000511436	processed_transcript	KNOWN	None	18058	None	None	110836307	110848233	-1	None	None
5	STARD4	ENSG00000164211	ENST00000510346	processed_transcript	KNOWN	None	18058	None	None	110836329	110848169	-1	None	None
5	STARD4	ENSG00000164211	ENST00000455172	nonsense_mediated_decay	KNOWN	None	18058	207	68	110836686	110848210	-1	None	None
5	STARD4	ENSG00000164211	ENST00000508215	retained_intron	KNOWN	None	18058	None	None	110841914	110848208	-1	None	None
9	None	ENSG00000235572	ENST00000450850	lincRNA	KNOWN	None	None	None	None	138244530	138246066	1	None	None
X	CCT4P2	ENSG00000225569	ENST00000233836	processed_pseudogene	KNOWN	None	35141	None	None	64490793	64492899	1	None	None
5	RNU4-69P	ENSG00000222609	ENST00000410677	snRNA	KNOWN	None	47005	None	None	120046393	120046535	-1	None	None
3	None	ENSG00000237473	ENST00000447709	lincRNA	KNOWN	None	None	None	None	172871527	173054755	1	None	None
16	None	ENSG00000261481	ENST00000570290	antisense	KNOWN	None	None	None	None	8963108	8963889	1	None	None
X	GSPT2	ENSG00000189369	ENST00000340438	protein_coding	KNOWN	CCDS14336	4622	1887	628	51486481	51489324	1	None	eRF3b, FLJ10441
9	SOCS5P2	ENSG00000224682	ENST00000449637	processed_pseudogene	KNOWN	None	44598	None	None	138339292	138342000	1	None	None
15	LINC00926	ENSG00000247982	ENST00000501726	lincRNA	KNOWN	None	27514	None	None	57592563	57599959	1	None	None
15	LINC00926	ENSG00000247982	ENST00000502027	lincRNA	KNOWN	None	27514	None	None	57596923	57599956	1	None	None
17	EPX	ENSG00000121053	ENST00000225371	protein_coding	KNOWN	CCDS11602	3423	2148	715	56270098	56282535	1	None	EPO, EPP, EPX-PEN
5	None	ENSG00000248927	ENST00000511422	lincRNA	KNOWN	None	None	None	None	120116913	120126473	1	None	None
18	RNF165	ENSG00000141622	ENST00000593230	protein_coding	PUTATIVE	None	31696	468	155	43906772	44030312	1	None	ARKL2
18	RNF165	ENSG00000141622	ENST00000587853	protein_coding	PUTATIVE	None	31696	69	22	43913931	43917610	1	None	ARKL2
18	RNF165	ENSG00000141622	ENST00000590330	protein_coding	PUTATIVE	None	31696	69	22	43913991	43916591	1	None	ARKL2
18	RNF165	ENSG00000141622	ENST00000588679	protein_coding	PUTATIVE	None	31696	207	68	43914187	43917090	1	None	ARKL2
18	RNF165	ENSG00000141622	ENST00000586604	nonsense_mediated_decay	KNOWN	None	31696	87	28	43914187	44043103	1	None	ARKL2
18	RNF165	ENSG00000141622	ENST00000269439	protein_coding	KNOWN	CCDS32823	31696	1041	346	43914187	44043103	1	None	ARKL2
18	RNF165	ENSG00000141622	ENST00000592777	retained_intron	KNOWN	None	31696	None	None	44027410	44036030	1	None	ARKL2
18	RNF165	ENSG00000141622	ENST00000543885	protein_coding	KNOWN	CCDS58621	31696	465	154	43914187	44040322	1	None	ARKL2
6	RNU6-1247P	ENSG00000252431	ENST00000516622	snRNA	KNOWN	None	48210	None	None	151601650	151601747	-1	None	None
HG883_PATCH	FOXN1	ENSG00000264253	ENST00000582057	protein_coding	KNOWN	None	12765	352	116	26833262	26851750	1	WHN, RONU	FKHL20
HG883_PATCH	FOXN1	ENSG00000264253	ENST00000577642	protein_coding	KNOWN	None	12765	1947	648	26833279	26864455	1	WHN, RONU	FKHL20
HG883_PATCH	FOXN1	ENSG00000264253	ENST00000584474	protein_coding	KNOWN	None	12765	1947	648	26850960	26865915	1	WHN, RONU	FKHL20
11	None	ENSG00000246790	ENST00000501964	antisense	KNOWN	None	None	None	None	121318040	121323722	-1	None	None
11	None	ENSG00000246790	ENST00000529160	antisense	KNOWN	None	None	None	None	121320405	121323628	-1	None	None
17	None	ENSG00000263870	ENST00000579654	unprocessed_pseudogene	KNOWN	None	None	None	None	26771081	26772581	-1	None	None
6	RNY4P20	ENSG00000252487	ENST00000516678	misc_RNA	KNOWN	None	34070	None	None	151619976	151620068	-1	None	None
16	None	ENSG00000260219	ENST00000563252	lincRNA	KNOWN	None	None	None	None	30366762	30367848	1	None	None
16	None	ENSG00000260979	ENST00000564485	lincRNA	KNOWN	None	None	None	None	9056563	9060847	1	None	None
6	RN7SKP268	ENSG00000223039	ENST00000411107	misc_RNA	KNOWN	None	45992	None	None	151640770	151641085	1	None	None
10	TMEM180	ENSG00000138111	ENST00000238936	protein_coding	KNOWN	CCDS7535	26196	1554	517	104221152	104236802	1	C10orf77	FLJ22529, bA18I14.8
10	TMEM180	ENSG00000138111	ENST00000450947	processed_transcript	KNOWN	None	26196	None	None	104225738	104229783	1	C10orf77	FLJ22529, bA18I14.8
10	TMEM180	ENSG00000138111	ENST00000428200	processed_transcript	KNOWN	None	26196	None	None	104225775	104228397	1	C10orf77	FLJ22529, bA18I14.8
10	TMEM180	ENSG00000138111	ENST00000469294	processed_transcript	KNOWN	None	26196	None	None	104230783	104232004	1	C10orf77	FLJ22529, bA18I14.8
10	TMEM180	ENSG00000138111	ENST00000369931	protein_coding	KNOWN	None	26196	462	153	104221170	104232007	1	C10orf77	FLJ22529, bA18I14.8
10	TMEM180	ENSG00000138111	ENST00000366277	protein_coding	KNOWN	None	26196	741	246	104221149	104236005	1	C10orf77	FLJ22529, bA18I14.8
8	None	ENSG00000253723	ENST00000518653	processed_pseudogene	KNOWN	None	None	None	None	60733683	60733992	1	None	None
7	MAGI2	ENSG00000187391	ENST00000419488	protein_coding	KNOWN	None	18957	4326	1441	77646393	79082871	-1	None	AIP1, ARIP1, KIAA0705, ACVRIP1, MAGI-2
7	MAGI2	ENSG00000187391	ENST00000354212	protein_coding	KNOWN	CCDS5594	18957	4368	1455	77646393	79082890	-1	None	AIP1, ARIP1, KIAA0705, ACVRIP1, MAGI-2
7	MAGI2	ENSG00000187391	ENST00000522391	protein_coding	NOVEL	None	18957	3852	1283	77648856	79082786	-1	None	AIP1, ARIP1, KIAA0705, ACVRIP1, MAGI-2
7	MAGI2	ENSG00000187391	ENST00000519748	retained_intron	KNOWN	None	18957	None	None	77707700	78119337	-1	None	AIP1, ARIP1, KIAA0705, ACVRIP1, MAGI-2
7	MAGI2	ENSG00000187391	ENST00000522342	processed_transcript	KNOWN	None	18957	None	None	77787524	77807384	-1	None	AIP1, ARIP1, KIAA0705, ACVRIP1, MAGI-2
7	MAGI2	ENSG00000187391	ENST00000524268	retained_intron	KNOWN	None	18957	None	None	77789116	77797290	-1	None	AIP1, ARIP1, KIAA0705, ACVRIP1, MAGI-2
7	MAGI2	ENSG00000187391	ENST00000524316	processed_transcript	KNOWN	None	18957	None	None	77807353	77827173	-1	None	AIP1, ARIP1, KIAA0705, ACVRIP1, MAGI-2
7	MAGI2	ENSG00000187391	ENST00000520379	retained_intron	KNOWN	None	18957	None	None	77814822	78119318	-1	None	AIP1, ARIP1, KIAA0705, ACVRIP1, MAGI-2
7	MAGI2	ENSG00000187391	ENST00000517762	processed_transcript	PUTATIVE	None	18957	None	None	78147839	78150964	-1	None	AIP1, ARIP1, KIAA0705, ACVRIP1, MAGI-2
7	MAGI2	ENSG00000187391	ENST00000535697	protein_coding	KNOWN	None	18957	1668	555	77885106	78400396	-1	None	AIP1, ARIP1, KIAA0705, ACVRIP1, MAGI-2
7	MAGI2	ENSG00000187391	ENST00000536571	protein_coding	KNOWN	None	18957	1653	550	77885087	78400638	-1	None	AIP1, ARIP1, KIAA0705, ACVRIP1, MAGI-2
HG883_PATCH	POLDIP2	ENSG00000262464	ENST00000575502	processed_transcript	KNOWN	None	23781	None	None	26674233	26684545	-1	None	PDIP38, DKFZP586F1524
15	None	ENSG00000259707	ENST00000560043	processed_pseudogene	KNOWN	None	None	None	None	83360475	83361110	-1	None	None
12	RNU6-36P	ENSG00000206899	ENST00000384172	snRNA	KNOWN	None	34280	None	None	98115494	98115600	1	RNU6-36	None
5	None	ENSG00000251135	ENST00000509046	processed_pseudogene	KNOWN	None	None	None	None	120375785	120379727	1	None	None
10	None	ENSG00000264261	ENST00000580586	miRNA	NOVEL	None	None	None	None	2495329	2495418	-1	None	None
8	None	ENSG00000254775	ENST00000531077	lincRNA	KNOWN	None	None	None	None	60962146	60987274	1	None	None
3	None	ENSG00000237645	ENST00000449016	processed_pseudogene	KNOWN	None	None	None	None	173362021	173362501	1	None	None
15	None	ENSG00000228141	ENST00000559535	lincRNA	KNOWN	None	None	None	None	83379223	83382745	-1	None	None
15	None	ENSG00000228141	ENST00000440089	lincRNA	KNOWN	None	None	None	None	83379223	83382745	-1	None	None
15	None	ENSG00000228141	ENST00000440479	lincRNA	KNOWN	None	None	None	None	83379225	83382778	-1	None	None
10	None	ENSG00000237500	ENST00000431209	lincRNA	KNOWN	None	None	None	None	2541913	2542762	1	None	None
17	RPS7P1	ENSG00000183405	ENST00000465875	processed_pseudogene	KNOWN	None	17081	None	None	26794840	26795424	1	None	None
17	RPS7P1	ENSG00000183405	ENST00000393464	processed_pseudogene	KNOWN	None	17081	None	None	26794814	26795460	1	None	None
X	AKAP14	ENSG00000186471	ENST00000371431	protein_coding	KNOWN	CCDS14591	24061	594	197	119029800	119054679	1	None	AKAP28
X	AKAP14	ENSG00000186471	ENST00000371422	protein_coding	KNOWN	CCDS35377	24061	270	89	119030156	119037615	1	None	AKAP28
X	AKAP14	ENSG00000186471	ENST00000334356	protein_coding	KNOWN	CCDS35376	24061	414	137	119030156	119054679	1	None	AKAP28
X	AKAP14	ENSG00000186471	ENST00000491105	processed_transcript	KNOWN	None	24061	None	None	119053747	119054679	1	None	AKAP28
X	AKAP14	ENSG00000186471	ENST00000371423	protein_coding	KNOWN	None	24061	417	138	119029800	119054675	1	None	AKAP28
X	AKAP14	ENSG00000186471	ENST00000371425	protein_coding	KNOWN	CCDS35376	24061	414	137	119029936	119054675	1	None	AKAP28
X	AKAP14	ENSG00000186471	ENST00000394594	protein_coding	KNOWN	CCDS35377	24061	270	89	119029936	119037618	1	None	AKAP28
1	None	ENSG00000235643	ENST00000453135	lincRNA	KNOWN	None	None	None	None	11669588	11673412	1	None	None
10	None	ENSG00000235281	ENST00000438753	lincRNA	KNOWN	None	None	None	None	2543975	2609431	1	None	None
10	None	ENSG00000235281	ENST00000437289	lincRNA	KNOWN	None	None	None	None	2543995	2579817	1	None	None
19	USP29	ENSG00000131864	ENST00000600020	protein_coding	KNOWN	None	18563	92	29	57630506	57640135	1	None	None
19	USP29	ENSG00000131864	ENST00000254181	protein_coding	KNOWN	CCDS33124	18563	2769	922	57631411	57643294	1	None	None
19	USP29	ENSG00000131864	ENST00000600940	protein_coding	KNOWN	None	18563	39	12	57631459	57640082	1	None	None
19	USP29	ENSG00000131864	ENST00000598197	protein_coding	KNOWN	CCDS33124	18563	2769	922	57640011	57643294	1	None	None
10	PTPN20B	ENSG00000183675	ENST00000374237	nonsense_mediated_decay	KNOWN	None	23423	439	145	48736874	48798780	-1	None	bA42B19.1, DKFZP566K0524
10	PTPN20B	ENSG00000183675	ENST00000331650	protein_coding	KNOWN	CCDS41515	23423	1020	339	48737040	48827934	-1	None	bA42B19.1, DKFZP566K0524
10	PTPN20B	ENSG00000183675	ENST00000509544	processed_transcript	KNOWN	None	23423	None	None	48737040	48827934	-1	None	bA42B19.1, DKFZP566K0524
10	PTPN20B	ENSG00000183675	ENST00000504747	processed_transcript	KNOWN	None	23423	None	None	48737040	48827966	-1	None	bA42B19.1, DKFZP566K0524
10	PTPN20B	ENSG00000183675	ENST00000374240	protein_coding	KNOWN	CCDS7221	23423	681	226	48737042	48827927	-1	None	bA42B19.1, DKFZP566K0524
10	PTPN20B	ENSG00000183675	ENST00000374233	protein_coding	KNOWN	CCDS41514	23423	1263	420	48738573	48806939	-1	None	bA42B19.1, DKFZP566K0524
10	PTPN20B	ENSG00000183675	ENST00000507417	protein_coding	KNOWN	None	23423	597	198	48738573	48806939	-1	None	bA42B19.1, DKFZP566K0524
10	PTPN20B	ENSG00000183675	ENST00000514592	protein_coding	KNOWN	CCDS53534	23423	810	269	48738573	48827581	-1	None	bA42B19.1, DKFZP566K0524
10	PTPN20B	ENSG00000183675	ENST00000513933	nonsense_mediated_decay	KNOWN	None	23423	315	104	48738573	48827581	-1	None	bA42B19.1, DKFZP566K0524
10	PTPN20B	ENSG00000183675	ENST00000505714	processed_transcript	KNOWN	None	23423	None	None	48738573	48827581	-1	None	bA42B19.1, DKFZP566K0524
10	PTPN20B	ENSG00000183675	ENST00000515532	protein_coding	KNOWN	CCDS7221	23423	681	226	48738573	48827581	-1	None	bA42B19.1, DKFZP566K0524
10	PTPN20B	ENSG00000183675	ENST00000507329	processed_transcript	KNOWN	None	23423	None	None	48738573	48827581	-1	None	bA42B19.1, DKFZP566K0524
10	PTPN20B	ENSG00000183675	ENST00000514491	protein_coding	KNOWN	CCDS41513	23423	1236	411	48738573	48827581	-1	None	bA42B19.1, DKFZP566K0524
10	PTPN20B	ENSG00000183675	ENST00000509230	protein_coding	KNOWN	CCDS53535	23423	654	217	48738573	48827581	-1	None	bA42B19.1, DKFZP566K0524
10	PTPN20B	ENSG00000183675	ENST00000509631	protein_coding	KNOWN	CCDS41515	23423	1020	339	48738573	48827581	-1	None	bA42B19.1, DKFZP566K0524
10	PTPN20B	ENSG00000183675	ENST00000510840	protein_coding	KNOWN	None	23423	621	206	48738573	48827581	-1	None	bA42B19.1, DKFZP566K0524
10	PTPN20B	ENSG00000183675	ENST00000512924	protein_coding	KNOWN	None	23423	594	197	48738573	48827581	-1	None	bA42B19.1, DKFZP566K0524
10	PTPN20B	ENSG00000183675	ENST00000509753	protein_coding	KNOWN	None	23423	1179	392	48738573	48827581	-1	None	bA42B19.1, DKFZP566K0524
10	PTPN20B	ENSG00000183675	ENST00000511387	protein_coding	KNOWN	CCDS53533	23423	411	136	48738573	48827581	-1	None	bA42B19.1, DKFZP566K0524
10	PTPN20B	ENSG00000183675	ENST00000502266	protein_coding	KNOWN	CCDS41516	23423	438	145	48738573	48827581	-1	None	bA42B19.1, DKFZP566K0524
10	PTPN20B	ENSG00000183675	ENST00000395674	protein_coding	KNOWN	CCDS41512	23423	687	228	48738573	48827581	-1	None	bA42B19.1, DKFZP566K0524
10	PTPN20B	ENSG00000183675	ENST00000503086	processed_transcript	KNOWN	None	23423	None	None	48738574	48806945	-1	None	bA42B19.1, DKFZP566K0524
10	PTPN20B	ENSG00000183675	ENST00000512321	protein_coding	KNOWN	None	23423	438	145	48738574	48806945	-1	None	bA42B19.1, DKFZP566K0524
10	PTPN20B	ENSG00000183675	ENST00000417914	protein_coding	KNOWN	None	23423	379	125	48739412	48827934	-1	None	bA42B19.1, DKFZP566K0524
10	PTPN20B	ENSG00000183675	ENST00000507697	nonsense_mediated_decay	KNOWN	None	23423	189	62	48757708	48818461	-1	None	bA42B19.1, DKFZP566K0524
10	PTPN20B	ENSG00000183675	ENST00000472263	retained_intron	KNOWN	None	23423	None	None	48792520	48806896	-1	None	bA42B19.1, DKFZP566K0524
10	PTPN20B	ENSG00000183675	ENST00000510141	protein_coding	KNOWN	None	23423	204	67	48795370	48813364	-1	None	bA42B19.1, DKFZP566K0524
10	PTPN20B	ENSG00000183675	ENST00000395660	protein_coding	KNOWN	None	23423	1179	392	48737042	48806985	-1	None	bA42B19.1, DKFZP566K0524
10	PTPN20B	ENSG00000183675	ENST00000374235	protein_coding	KNOWN	None	23423	837	278	48737042	48806985	-1	None	bA42B19.1, DKFZP566K0524
10	PTPN20B	ENSG00000183675	ENST00000395661	protein_coding	KNOWN	None	23423	621	206	48737042	48806985	-1	None	bA42B19.1, DKFZP566K0524
10	PTPN20B	ENSG00000183675	ENST00000395668	protein_coding	KNOWN	CCDS41515	23423	1020	339	48737042	48827924	-1	None	bA42B19.1, DKFZP566K0524
10	PTPN20B	ENSG00000183675	ENST00000395662	protein_coding	KNOWN	CCDS41516	23423	438	145	48737042	48827924	-1	None	bA42B19.1, DKFZP566K0524
15	None	ENSG00000260172	ENST00000564843	lincRNA	KNOWN	None	None	None	None	57611336	57616106	1	None	None
12	MIR4495	ENSG00000265861	ENST00000577562	miRNA	KNOWN	None	41693	None	None	98332834	98332899	-1	None	hsa-mir-4495
11	None	ENSG00000254614	ENST00000528551	nonsense_mediated_decay	KNOWN	None	None	117	38	64945077	64948355	-1	None	None
11	None	ENSG00000254614	ENST00000526623	protein_coding	PUTATIVE	None	None	759	252	64947700	64949305	-1	None	None
17	None	ENSG00000265168	ENST00000585189	antisense	KNOWN	None	None	None	None	26900135	26901261	1	None	None
19	GLTSCR1	ENSG00000063169	ENST00000396720	protein_coding	KNOWN	CCDS46134	4332	4683	1560	48111453	48206479	1	None	None
19	GLTSCR1	ENSG00000063169	ENST00000594866	protein_coding	KNOWN	None	4332	379	125	48112380	48182806	1	None	None
19	GLTSCR1	ENSG00000063169	ENST00000602258	retained_intron	KNOWN	None	4332	None	None	48203222	48206533	1	None	None
14	TRAV14DV4	ENSG00000211792	ENST00000390440	TR_V_gene	KNOWN	None	12110	350	115	22392239	22392827	1	None	TRAV14/DV4, TCRAV6S1-hDV104S1, hADV14S1
7	AASS	ENSG00000008311	ENST00000460376	retained_intron	KNOWN	None	17366	None	None	121715701	121726207	-1	None	LORSDH, LKRSDH
7	AASS	ENSG00000008311	ENST00000393376	protein_coding	KNOWN	CCDS5783	17366	2781	926	121716187	121773876	-1	None	LORSDH, LKRSDH
7	AASS	ENSG00000008311	ENST00000473553	processed_transcript	KNOWN	None	17366	None	None	121716203	121784309	-1	None	LORSDH, LKRSDH
7	AASS	ENSG00000008311	ENST00000417368	protein_coding	KNOWN	CCDS5783	17366	2781	926	121716296	121784334	-1	None	LORSDH, LKRSDH
7	AASS	ENSG00000008311	ENST00000431170	nonsense_mediated_decay	KNOWN	None	17366	1536	511	121716357	121773835	-1	None	LORSDH, LKRSDH
7	AASS	ENSG00000008311	ENST00000358954	nonsense_mediated_decay	KNOWN	None	17366	2199	732	121716357	121773835	-1	None	LORSDH, LKRSDH
7	AASS	ENSG00000008311	ENST00000426162	nonsense_mediated_decay	KNOWN	None	17366	66	21	121717890	121722926	-1	None	LORSDH, LKRSDH
HSCHR6_MHC_SSTO	TRIM39	ENSG00000229929	ENST00000453856	protein_coding	KNOWN	None	10065	434	143	30283373	30286646	1	RNF23	None
HSCHR6_MHC_SSTO	TRIM39	ENSG00000229929	ENST00000450818	protein_coding	KNOWN	None	10065	222	73	30283729	30286434	1	RNF23	None
HSCHR6_MHC_SSTO	TRIM39	ENSG00000229929	ENST00000452705	protein_coding	KNOWN	None	10065	1467	488	30283738	30300626	1	RNF23	None
HSCHR6_MHC_SSTO	TRIM39	ENSG00000229929	ENST00000450421	protein_coding	KNOWN	None	10065	782	259	30283799	30292874	1	RNF23	None
HSCHR6_MHC_SSTO	TRIM39	ENSG00000229929	ENST00000443109	protein_coding	KNOWN	None	10065	1467	488	30283814	30300626	1	RNF23	None
HSCHR6_MHC_SSTO	TRIM39	ENSG00000229929	ENST00000429069	protein_coding	KNOWN	None	10065	178	58	30283851	30286390	1	RNF23	None
HSCHR6_MHC_SSTO	TRIM39	ENSG00000229929	ENST00000419790	protein_coding	KNOWN	None	10065	1467	488	30284153	30300626	1	RNF23	None
HSCHR6_MHC_SSTO	TRIM39	ENSG00000229929	ENST00000418079	protein_coding	KNOWN	None	10065	145	47	30284417	30286357	1	RNF23	None
HSCHR6_MHC_SSTO	TRIM39	ENSG00000229929	ENST00000426469	protein_coding	KNOWN	None	10065	1557	518	30285784	30300626	1	RNF23	None
HSCHR6_MHC_SSTO	TRIM39	ENSG00000229929	ENST00000426384	protein_coding	KNOWN	None	10065	683	226	30286424	30298367	1	RNF23	None
HSCHR6_MHC_SSTO	TRIM39	ENSG00000229929	ENST00000552520	protein_coding	KNOWN	None	10065	1557	518	30283738	30300625	1	RNF23	None
HSCHR6_MHC_SSTO	TRIM39	ENSG00000229929	ENST00000550063	protein_coding	KNOWN	None	10065	1557	518	30283738	30300625	1	RNF23	None
HSCHR6_MHC_SSTO	TRIM39	ENSG00000229929	ENST00000552594	protein_coding	KNOWN	None	10065	1467	488	30283738	30300625	1	RNF23	None
HSCHR6_MHC_SSTO	TRIM39	ENSG00000229929	ENST00000546617	protein_coding	KNOWN	None	10065	1236	411	30283738	30298959	1	RNF23	None
HSCHR6_MHC_SSTO	TRIM39	ENSG00000229929	ENST00000552257	protein_coding	KNOWN	None	10065	1254	417	30283738	30303707	1	RNF23	None
12	MIR4303	ENSG00000263890	ENST00000581299	miRNA	KNOWN	None	38256	None	None	98389161	98389226	-1	None	hsa-mir-4303
HSCHR6_MHC_SSTO	HLA-DRB4	ENSG00000227357	ENST00000411565	protein_coding	KNOWN	None	4952	801	266	32509573	32524536	-1	HLA-DR4B	None
8	SLC2A13P1	ENSG00000254954	ENST00000531560	processed_pseudogene	KNOWN	None	48929	None	None	61054380	61054701	1	None	None
9	PPP1R26-AS1	ENSG00000225361	ENST00000603624	antisense	KNOWN	None	48717	None	None	138354573	138364095	-1	None	None
9	PPP1R26-AS1	ENSG00000225361	ENST00000455039	antisense	KNOWN	None	48717	None	None	138360018	138372623	-1	None	None
9	PPP1R26-AS1	ENSG00000225361	ENST00000605260	antisense	KNOWN	None	48717	None	None	138363472	138372564	-1	None	None
9	PPP1R26-AS1	ENSG00000225361	ENST00000603893	antisense	KNOWN	None	48717	None	None	138372161	138372584	-1	None	None
8	None	ENSG00000253972	ENST00000523307	lincRNA	KNOWN	None	None	None	None	120227351	120259076	-1	None	None
8	None	ENSG00000253972	ENST00000524129	lincRNA	KNOWN	None	None	None	None	120227412	120259083	-1	None	None
8	None	ENSG00000253972	ENST00000522187	lincRNA	KNOWN	None	None	None	None	120227778	120259088	-1	None	None
8	None	ENSG00000253972	ENST00000522828	lincRNA	KNOWN	None	None	None	None	120233334	120259055	-1	None	None
8	None	ENSG00000253972	ENST00000521048	lincRNA	KNOWN	None	None	None	None	120236044	120259083	-1	None	None
3	NLGN1-AS1	ENSG00000228213	ENST00000423873	antisense	KNOWN	None	40676	None	None	173628288	173638586	-1	None	None
3	NLGN1-AS1	ENSG00000228213	ENST00000457192	antisense	KNOWN	None	40676	None	None	173628426	173638448	-1	None	None
17	SPAG5-AS1	ENSG00000227543	ENST00000414744	processed_transcript	KNOWN	None	41140	None	None	26925808	26944393	1	None	None
17	SPAG5-AS1	ENSG00000227543	ENST00000556050	antisense	KNOWN	None	41140	None	None	26926151	26933928	1	None	None
17	SPAG5-AS1	ENSG00000227543	ENST00000554154	antisense	KNOWN	None	41140	None	None	26926174	26943544	1	None	None
17	SPAG5-AS1	ENSG00000227543	ENST00000424210	antisense	KNOWN	None	41140	None	None	26938950	26944393	1	None	None
17	SPAG5-AS1	ENSG00000227543	ENST00000584675	retained_intron	KNOWN	None	41140	None	None	26942702	26944390	1	None	None
15	None	ENSG00000260870	ENST00000567319	processed_pseudogene	KNOWN	None	None	None	None	57617670	57618645	-1	None	None
5	None	ENSG00000248853	ENST00000513196	processed_pseudogene	KNOWN	None	None	None	None	120394939	120396648	1	None	None
4	GUCY1A3	ENSG00000164116	ENST00000506455	protein_coding	KNOWN	CCDS34085	4685	2073	690	156587863	156651584	1	GUC1A3	GC-SA3
4	GUCY1A3	ENSG00000164116	ENST00000511108	protein_coding	KNOWN	CCDS34085	4685	2073	690	156587878	156651782	1	GUC1A3	GC-SA3
4	GUCY1A3	ENSG00000164116	ENST00000512983	retained_intron	KNOWN	None	4685	None	None	156587980	156632533	1	GUC1A3	GC-SA3
4	GUCY1A3	ENSG00000164116	ENST00000511507	protein_coding	NOVEL	CCDS54812	4685	1875	624	156588000	156643721	1	GUC1A3	GC-SA3
4	GUCY1A3	ENSG00000164116	ENST00000515602	processed_transcript	KNOWN	None	4685	None	None	156588088	156631763	1	GUC1A3	GC-SA3
4	GUCY1A3	ENSG00000164116	ENST00000455639	protein_coding	KNOWN	CCDS34085	4685	2073	690	156588115	156651568	1	GUC1A3	GC-SA3
4	GUCY1A3	ENSG00000164116	ENST00000509901	nonsense_mediated_decay	KNOWN	None	4685	249	82	156588194	156651597	1	GUC1A3	GC-SA3
4	GUCY1A3	ENSG00000164116	ENST00000443668	nonsense_mediated_decay	KNOWN	None	4685	417	138	156588256	156653499	1	GUC1A3	GC-SA3
4	GUCY1A3	ENSG00000164116	ENST00000393832	protein_coding	PUTATIVE	None	4685	1299	432	156588281	156653497	1	GUC1A3	GC-SA3
4	GUCY1A3	ENSG00000164116	ENST00000296518	protein_coding	KNOWN	CCDS34085	4685	2073	690	156588350	156653501	1	GUC1A3	GC-SA3
4	GUCY1A3	ENSG00000164116	ENST00000515201	nonsense_mediated_decay	KNOWN	None	4685	432	143	156588490	156651594	1	GUC1A3	GC-SA3
4	GUCY1A3	ENSG00000164116	ENST00000513574	protein_coding	KNOWN	CCDS34085	4685	2073	690	156588815	156651584	1	GUC1A3	GC-SA3
14	TRAV9-2	ENSG00000211793	ENST00000390441	TR_V_gene	KNOWN	None	12154	338	111	22409313	22409848	1	None	None
HSCHR6_MHC_COX	None	ENSG00000257160	ENST00000549801	pseudogene	NOVEL	None	None	None	None	30490516	30490640	1	None	None
16	None	ENSG00000261392	ENST00000562893	lincRNA	KNOWN	None	None	None	None	9162411	9166269	1	None	None
10	None	ENSG00000223027	ENST00000411095	snoRNA	NOVEL	None	None	None	None	27077946	27078086	1	None	None
20	RNU7-141P	ENSG00000238777	ENST00000459304	snRNA	KNOWN	None	45675	None	None	58427722	58427783	-1	None	None
5	None	ENSG00000250847	ENST00000504908	unprocessed_pseudogene	KNOWN	None	None	None	None	120531675	120531905	-1	None	None
HSCHR6_MHC_COX	None	ENSG00000257393	ENST00000548297	pseudogene	NOVEL	None	None	None	None	30496297	30496517	1	None	None
11	RNU6-256P	ENSG00000252556	ENST00000516747	snRNA	KNOWN	None	47219	None	None	121875063	121875159	1	None	None
10	None	ENSG00000231743	ENST00000419388	processed_pseudogene	KNOWN	None	None	None	None	2978213	2978633	1	None	None
12	None	ENSG00000258312	ENST00000548344	lincRNA	KNOWN	None	None	None	None	98506792	98686223	-1	None	None
16	None	ENSG00000262944	ENST00000574285	sense_intronic	KNOWN	None	None	None	None	9198705	9200618	1	None	None
10	RNU6-946P	ENSG00000206605	ENST00000383878	snRNA	KNOWN	None	47909	None	None	27079469	27079575	-1	None	None
6	None	ENSG00000238939	ENST00000458767	snoRNA	NOVEL	None	None	None	None	151668162	151668247	-1	None	None
7	SKP1P1	ENSG00000231234	ENST00000438081	processed_pseudogene	KNOWN	None	33696	None	None	65888392	65888880	-1	OCP2, TCEB1L, TCEB1P	EMC19
7	SKP1P1	ENSG00000231234	ENST00000433793	processed_pseudogene	KNOWN	None	33696	None	None	65888515	65888655	-1	OCP2, TCEB1L, TCEB1P	EMC19
1	None	ENSG00000177553	ENST00000376620	antisense	KNOWN	None	None	None	None	11837134	11839676	-1	None	None
10	None	ENSG00000238414	ENST00000458804	snoRNA	NOVEL	None	None	None	None	27157094	27157193	1	None	None
17	None	ENSG00000264608	ENST00000582858	sense_intronic	KNOWN	None	None	None	None	26928845	26929302	-1	None	None
4	FGF5	ENSG00000138675	ENST00000312465	protein_coding	KNOWN	CCDS34021	3683	807	268	81187753	81211348	1	None	None
4	FGF5	ENSG00000138675	ENST00000456523	protein_coding	KNOWN	CCDS3586	3683	372	123	81187793	81212171	1	None	None
4	FGF5	ENSG00000138675	ENST00000380628	processed_transcript	KNOWN	None	3683	None	None	81187979	81189672	1	None	None
4	FGF5	ENSG00000138675	ENST00000507780	nonsense_mediated_decay	KNOWN	None	3683	360	119	81188096	81257834	1	None	None
4	FGF5	ENSG00000138675	ENST00000503413	processed_transcript	KNOWN	None	3683	None	None	81189419	81210112	1	None	None
HSCHR6_MHC_COX	None	ENSG00000258030	ENST00000552281	pseudogene	NOVEL	None	None	None	None	30506629	30506750	1	None	None
12	GALNT6	ENSG00000139629	ENST00000543196	protein_coding	KNOWN	CCDS8813	4128	1869	622	51745031	51777347	-1	None	None
12	GALNT6	ENSG00000139629	ENST00000356317	protein_coding	KNOWN	CCDS8813	4128	1869	622	51747537	51785193	-1	None	None
12	GALNT6	ENSG00000139629	ENST00000603680	retained_intron	KNOWN	None	4128	None	None	51747553	51754010	-1	None	None
12	GALNT6	ENSG00000139629	ENST00000603641	nonsense_mediated_decay	KNOWN	None	4128	1098	365	51748055	51773565	-1	None	None
12	GALNT6	ENSG00000139629	ENST00000604381	protein_coding	KNOWN	None	4128	412	136	51773154	51785436	-1	None	None
12	GALNT6	ENSG00000139629	ENST00000604847	protein_coding	KNOWN	None	4128	369	122	51773197	51785220	-1	None	None
12	GALNT6	ENSG00000139629	ENST00000604426	protein_coding	KNOWN	None	4128	236	77	51773330	51786651	-1	None	None
12	GALNT6	ENSG00000139629	ENST00000605617	protein_coding	KNOWN	None	4128	206	67	51773360	51785447	-1	None	None
12	GALNT6	ENSG00000139629	ENST00000603188	protein_coding	KNOWN	None	4128	188	61	51773378	51785218	-1	None	None
12	GALNT6	ENSG00000139629	ENST00000603563	protein_coding	KNOWN	None	4128	166	54	51773400	51785083	-1	None	None
12	GALNT6	ENSG00000139629	ENST00000605138	protein_coding	KNOWN	None	4128	118	38	51773448	51785413	-1	None	None
12	GALNT6	ENSG00000139629	ENST00000604506	protein_coding	KNOWN	None	4128	70	22	51773496	51785220	-1	None	None
12	GALNT6	ENSG00000139629	ENST00000605055	protein_coding	KNOWN	None	4128	69	22	51773497	51785436	-1	None	None
12	GALNT6	ENSG00000139629	ENST00000603203	processed_transcript	KNOWN	None	4128	None	None	51773570	51785435	-1	None	None
12	GALNT6	ENSG00000139629	ENST00000605822	processed_transcript	KNOWN	None	4128	None	None	51773597	51785739	-1	None	None
12	GALNT6	ENSG00000139629	ENST00000605089	processed_transcript	KNOWN	None	4128	None	None	51773625	51785174	-1	None	None
12	GALNT6	ENSG00000139629	ENST00000603482	processed_transcript	KNOWN	None	4128	None	None	51776119	51785459	-1	None	None
12	GALNT6	ENSG00000139629	ENST00000605367	processed_transcript	KNOWN	None	4128	None	None	51776245	51785188	-1	None	None
12	GALNT6	ENSG00000139629	ENST00000605720	processed_transcript	KNOWN	None	4128	None	None	51776245	51785375	-1	None	None
19	ZNF317	ENSG00000130803	ENST00000247956	protein_coding	KNOWN	CCDS12210	13507	1788	595	9251056	9274089	1	None	None
19	ZNF317	ENSG00000130803	ENST00000360385	protein_coding	KNOWN	CCDS54213	13507	1692	563	9251073	9274084	1	None	None
19	ZNF317	ENSG00000130803	ENST00000591278	nonsense_mediated_decay	KNOWN	None	13507	321	106	9251091	9274091	1	None	None
19	ZNF317	ENSG00000130803	ENST00000419608	retained_intron	KNOWN	None	13507	None	None	9251105	9268386	1	None	None
19	ZNF317	ENSG00000130803	ENST00000590152	retained_intron	KNOWN	None	13507	None	None	9266688	9272109	1	None	None
19	ZNF317	ENSG00000130803	ENST00000591508	protein_coding	PUTATIVE	None	13507	135	44	9268748	9274100	1	None	None
7	None	ENSG00000252265	ENST00000516456	snoRNA	NOVEL	None	None	None	None	65899494	65899605	1	None	None
3	AADACL2	ENSG00000197953	ENST00000445270	nonsense_mediated_decay	KNOWN	None	24427	162	53	151451704	151479127	1	None	MGC72001
3	AADACL2	ENSG00000197953	ENST00000356517	protein_coding	KNOWN	CCDS3161	24427	1206	401	151451715	151475554	1	None	MGC72001
15	None	ENSG00000259315	ENST00000560958	processed_transcript	KNOWN	None	None	None	None	83394625	83407368	-1	None	None
15	None	ENSG00000259315	ENST00000558391	transcribed_processed_pseudogene	KNOWN	None	None	None	None	83395059	83396177	-1	None	None
15	None	ENSG00000259315	ENST00000561222	processed_transcript	KNOWN	None	None	None	None	83399542	83407656	-1	None	None
7	None	ENSG00000236928	ENST00000442005	processed_pseudogene	KNOWN	None	None	None	None	65899621	65900141	-1	None	None
7	None	ENSG00000236928	ENST00000411686	processed_pseudogene	KNOWN	None	None	None	None	65899678	65900465	-1	None	None
10	LINC00202-1	ENSG00000232224	ENST00000458682	lincRNA	KNOWN	None	24672	None	None	27220135	27223852	-1	C10orf51, NCRNA00202, LINC00202	bB27G4.1
10	LINC00202-1	ENSG00000232224	ENST00000458084	lincRNA	KNOWN	None	24672	None	None	27220135	27226788	-1	C10orf51, NCRNA00202, LINC00202	bB27G4.1
10	LINC00202-1	ENSG00000232224	ENST00000431296	lincRNA	KNOWN	None	24672	None	None	27220135	27230930	-1	C10orf51, NCRNA00202, LINC00202	bB27G4.1
17	None	ENSG00000265287	ENST00000579019	antisense	KNOWN	None	None	None	None	26934981	26936748	1	None	None
8	None	ENSG00000251396	ENST00000530725	lincRNA	KNOWN	None	None	None	None	61297147	61429339	-1	None	None
8	None	ENSG00000251396	ENST00000506428	lincRNA	KNOWN	None	None	None	None	61315771	61326377	-1	None	None
8	None	ENSG00000251396	ENST00000531654	lincRNA	KNOWN	None	None	None	None	61317238	61326489	-1	None	None
8	None	ENSG00000251396	ENST00000476425	lincRNA	KNOWN	None	None	None	None	61317570	61421318	-1	None	None
8	None	ENSG00000251396	ENST00000534117	lincRNA	KNOWN	None	None	None	None	61324899	61325813	-1	None	None
8	None	ENSG00000251396	ENST00000530033	lincRNA	KNOWN	None	None	None	None	61325569	61326211	-1	None	None
8	None	ENSG00000251396	ENST00000532232	lincRNA	KNOWN	None	None	None	None	61381422	61429354	-1	None	None
19	None	ENSG00000267290	ENST00000588418	lincRNA	KNOWN	None	None	None	None	176907	177913	1	None	None
19	None	ENSG00000225157	ENST00000441087	pseudogene	NOVEL	None	None	None	None	45687584	45688190	-1	None	None
19	None	ENSG00000267237	ENST00000587432	unprocessed_pseudogene	KNOWN	None	None	None	None	182673	196756	-1	None	None
17	None	ENSG00000264044	ENST00000583787	processed_transcript	KNOWN	None	None	None	None	26960224	26961758	1	None	None
17	None	ENSG00000264044	ENST00000577814	antisense	KNOWN	None	None	None	None	26960265	26962968	1	None	None
3	PYDC2	ENSG00000253548	ENST00000518817	protein_coding	KNOWN	None	33512	294	97	191178952	191179245	1	None	POP2
12	TARBP2	ENSG00000139546	ENST00000550147	nonsense_mediated_decay	KNOWN	None	11569	342	113	53894705	53900215	1	None	None
12	TARBP2	ENSG00000139546	ENST00000266987	protein_coding	KNOWN	CCDS8861	11569	1101	366	53894710	53900215	1	None	None
12	TARBP2	ENSG00000139546	ENST00000456234	protein_coding	KNOWN	CCDS41791	11569	1038	345	53894737	53900208	1	None	None
12	TARBP2	ENSG00000139546	ENST00000552857	protein_coding	PUTATIVE	None	11569	498	165	53895058	53900013	1	None	None
12	TARBP2	ENSG00000139546	ENST00000549610	retained_intron	KNOWN	None	11569	None	None	53895086	53898179	1	None	None
12	TARBP2	ENSG00000139546	ENST00000546889	retained_intron	KNOWN	None	11569	None	None	53895089	53896704	1	None	None
12	TARBP2	ENSG00000139546	ENST00000548971	nonsense_mediated_decay	KNOWN	None	11569	285	94	53895090	53900183	1	None	None
12	TARBP2	ENSG00000139546	ENST00000547388	retained_intron	KNOWN	None	11569	None	None	53895116	53897256	1	None	None
12	TARBP2	ENSG00000139546	ENST00000552650	retained_intron	KNOWN	None	11569	None	None	53895134	53897482	1	None	None
12	TARBP2	ENSG00000139546	ENST00000547064	nonsense_mediated_decay	KNOWN	None	11569	96	31	53895150	53899577	1	None	None
12	TARBP2	ENSG00000139546	ENST00000551741	nonsense_mediated_decay	KNOWN	None	11569	279	92	53895375	53899635	1	None	None
12	TARBP2	ENSG00000139546	ENST00000552817	protein_coding	PUTATIVE	None	11569	482	159	53895381	53899470	1	None	None
12	TARBP2	ENSG00000139546	ENST00000549028	processed_transcript	KNOWN	None	11569	None	None	53895383	53897333	1	None	None
12	TARBP2	ENSG00000139546	ENST00000549572	nonsense_mediated_decay	KNOWN	None	11569	564	187	53895388	53900207	1	None	None
12	TARBP2	ENSG00000139546	ENST00000549679	nonsense_mediated_decay	KNOWN	None	11569	267	88	53895389	53900180	1	None	None
12	TARBP2	ENSG00000139546	ENST00000394357	protein_coding	NOVEL	CCDS41791	11569	1038	345	53895403	53900196	1	None	None
12	TARBP2	ENSG00000139546	ENST00000550407	protein_coding	PUTATIVE	None	11569	682	226	53895835	53900180	1	None	None
12	TARBP2	ENSG00000139546	ENST00000551157	retained_intron	KNOWN	None	11569	None	None	53896387	53899515	1	None	None
12	TARBP2	ENSG00000139546	ENST00000547541	retained_intron	KNOWN	None	11569	None	None	53897258	53898503	1	None	None
12	TARBP2	ENSG00000139546	ENST00000546763	retained_intron	KNOWN	None	11569	None	None	53897498	53898571	1	None	None
HG299_PATCH	SLC37A4	ENSG00000262676	ENST00000577093	protein_coding	KNOWN	None	4061	1290	429	118894824	118901583	-1	G6PT1, G6PT2, G6PT3	GSD1b, GSD1c, GSD1d
HG299_PATCH	SLC37A4	ENSG00000262676	ENST00000586294	retained_intron	KNOWN	None	4061	None	None	118895066	118899716	-1	G6PT1, G6PT2, G6PT3	GSD1b, GSD1c, GSD1d
HG299_PATCH	SLC37A4	ENSG00000262676	ENST00000587952	retained_intron	KNOWN	None	4061	None	None	118895066	118901572	-1	G6PT1, G6PT2, G6PT3	GSD1b, GSD1c, GSD1d
HG299_PATCH	SLC37A4	ENSG00000262676	ENST00000572996	protein_coding	KNOWN	None	4061	1290	429	118895098	118901570	-1	G6PT1, G6PT2, G6PT3	GSD1b, GSD1c, GSD1d
HG299_PATCH	SLC37A4	ENSG00000262676	ENST00000587116	protein_coding	PUTATIVE	None	4061	1071	356	118895588	118901581	-1	G6PT1, G6PT2, G6PT3	GSD1b, GSD1c, GSD1d
HG299_PATCH	SLC37A4	ENSG00000262676	ENST00000586306	nonsense_mediated_decay	KNOWN	None	4061	1071	356	118895620	118900078	-1	G6PT1, G6PT2, G6PT3	GSD1b, GSD1c, GSD1d
HG299_PATCH	SLC37A4	ENSG00000262676	ENST00000587792	retained_intron	KNOWN	None	4061	None	None	118895620	118900078	-1	G6PT1, G6PT2, G6PT3	GSD1b, GSD1c, GSD1d
HG299_PATCH	SLC37A4	ENSG00000262676	ENST00000590663	protein_coding	KNOWN	None	4061	1356	451	118895620	118901597	-1	G6PT1, G6PT2, G6PT3	GSD1b, GSD1c, GSD1d
HG299_PATCH	SLC37A4	ENSG00000262676	ENST00000586062	nonsense_mediated_decay	KNOWN	None	4061	390	129	118895862	118900096	-1	G6PT1, G6PT2, G6PT3	GSD1b, GSD1c, GSD1d
HG299_PATCH	SLC37A4	ENSG00000262676	ENST00000591582	retained_intron	KNOWN	None	4061	None	None	118897376	118901581	-1	G6PT1, G6PT2, G6PT3	GSD1b, GSD1c, GSD1d
HG299_PATCH	SLC37A4	ENSG00000262676	ENST00000585401	nonsense_mediated_decay	KNOWN	None	4061	156	51	118897664	118901571	-1	G6PT1, G6PT2, G6PT3	GSD1b, GSD1c, GSD1d
HSCHR6_MHC_COX	RPS18	ENSG00000235650	ENST00000454021	protein_coding	KNOWN	None	10401	459	152	33161393	33165893	1	D6S218E	KE3, KE-3, HKE3, S18
HSCHR6_MHC_COX	RPS18	ENSG00000235650	ENST00000486781	protein_coding	KNOWN	None	10401	249	82	33161458	33165893	1	D6S218E	KE3, KE-3, HKE3, S18
HSCHR6_MHC_COX	RPS18	ENSG00000235650	ENST00000473242	retained_intron	KNOWN	None	10401	None	None	33161471	33165888	1	D6S218E	KE3, KE-3, HKE3, S18
HSCHR6_MHC_COX	RPS18	ENSG00000235650	ENST00000484321	protein_coding	KNOWN	None	10401	249	82	33161479	33165893	1	D6S218E	KE3, KE-3, HKE3, S18
HSCHR6_MHC_COX	RPS18	ENSG00000235650	ENST00000472979	retained_intron	KNOWN	None	10401	None	None	33161482	33165888	1	D6S218E	KE3, KE-3, HKE3, S18
HSCHR6_MHC_COX	RPS18	ENSG00000235650	ENST00000475634	retained_intron	KNOWN	None	10401	None	None	33161515	33165893	1	D6S218E	KE3, KE-3, HKE3, S18
HSCHR6_MHC_COX	RPS18	ENSG00000235650	ENST00000464602	retained_intron	KNOWN	None	10401	None	None	33164704	33165893	1	D6S218E	KE3, KE-3, HKE3, S18
HSCHR6_MHC_COX	RPS18	ENSG00000235650	ENST00000461925	retained_intron	KNOWN	None	10401	None	None	33165249	33165893	1	D6S218E	KE3, KE-3, HKE3, S18
19	CNN2	ENSG00000064666	ENST00000263097	protein_coding	KNOWN	CCDS12053	2156	930	309	1026298	1039068	1	None	None
19	CNN2	ENSG00000064666	ENST00000562015	processed_transcript	KNOWN	None	2156	None	None	1026585	1032694	1	None	None
19	CNN2	ENSG00000064666	ENST00000606983	processed_transcript	KNOWN	None	2156	None	None	1026610	1038872	1	None	None
19	CNN2	ENSG00000064666	ENST00000348419	protein_coding	KNOWN	CCDS12054	2156	813	270	1026610	1039063	1	None	None
19	CNN2	ENSG00000064666	ENST00000565096	protein_coding	NOVEL	None	2156	897	298	1026618	1038026	1	None	None
19	CNN2	ENSG00000064666	ENST00000569352	nonsense_mediated_decay	KNOWN	None	2156	447	148	1026628	1037631	1	None	None
19	CNN2	ENSG00000064666	ENST00000562958	protein_coding	NOVEL	None	2156	993	330	1026628	1038377	1	None	None
19	CNN2	ENSG00000064666	ENST00000562075	protein_coding	PUTATIVE	None	2156	463	153	1026690	1036676	1	None	None
19	CNN2	ENSG00000064666	ENST00000607102	protein_coding	PUTATIVE	None	2156	307	101	1026690	1036687	1	None	None
19	CNN2	ENSG00000064666	ENST00000566695	retained_intron	KNOWN	None	2156	None	None	1030942	1037732	1	None	None
19	CNN2	ENSG00000064666	ENST00000568865	protein_coding	NOVEL	None	2156	657	218	1031136	1038063	1	None	None
19	CNN2	ENSG00000064666	ENST00000564572	retained_intron	KNOWN	None	2156	None	None	1036798	1039063	1	None	None
14	RNASE1	ENSG00000129538	ENST00000397967	protein_coding	KNOWN	CCDS9559	10044	471	156	21269387	21271437	-1	RNS1	None
14	RNASE1	ENSG00000129538	ENST00000340900	protein_coding	KNOWN	CCDS9559	10044	471	156	21269505	21271014	-1	RNS1	None
14	RNASE1	ENSG00000129538	ENST00000412779	protein_coding	KNOWN	CCDS9559	10044	471	156	21269515	21270565	-1	RNS1	None
14	RNASE1	ENSG00000129538	ENST00000555698	protein_coding	PUTATIVE	None	10044	351	116	21269553	21271007	-1	RNS1	None
14	RNASE1	ENSG00000129538	ENST00000397970	protein_coding	KNOWN	CCDS9559	10044	471	156	21269619	21271007	-1	RNS1	None
19	None	ENSG00000267045	ENST00000590022	lincRNA	KNOWN	None	None	None	None	45741890	45748628	-1	None	None
6	None	ENSG00000252615	ENST00000516806	misc_RNA	NOVEL	None	None	None	None	151699135	151699234	-1	None	None
9	FRRS1L	ENSG00000136805	ENST00000374581	protein_coding	KNOWN	CCDS35098	1362	1035	344	111899167	111929571	-1	C9orf4	CG-6
6	HSPA8P15	ENSG00000219395	ENST00000401676	processed_pseudogene	KNOWN	None	44930	None	None	151732394	151735080	-1	None	None
19	CICP19	ENSG00000267639	ENST00000592994	unprocessed_pseudogene	KNOWN	None	48829	None	None	193236	196050	1	None	None
7	None	ENSG00000244510	ENST00000424928	unprocessed_pseudogene	KNOWN	None	None	None	None	65947788	65955095	-1	None	None
19	RPS16P9	ENSG00000242675	ENST00000477220	processed_pseudogene	KNOWN	None	35659	None	None	45835956	45836382	-1	None	None
11	None	ENSG00000255248	ENST00000530955	sense_overlapping	KNOWN	None	None	None	None	121899063	121972410	-1	None	None
11	None	ENSG00000255248	ENST00000532319	sense_overlapping	KNOWN	None	None	None	None	121936268	121971156	-1	None	None
11	None	ENSG00000255248	ENST00000531470	sense_overlapping	KNOWN	None	None	None	None	121937044	121940864	-1	None	None
11	None	ENSG00000255248	ENST00000531381	sense_overlapping	KNOWN	None	None	None	None	121959811	121972886	-1	None	None
11	None	ENSG00000255248	ENST00000529823	sense_overlapping	KNOWN	None	None	None	None	121959814	121972874	-1	None	None
11	None	ENSG00000255248	ENST00000524376	sense_overlapping	KNOWN	None	None	None	None	121959818	121971155	-1	None	None
11	None	ENSG00000255248	ENST00000528986	sense_overlapping	KNOWN	None	None	None	None	121959818	121971737	-1	None	None
11	None	ENSG00000255248	ENST00000531071	sense_overlapping	KNOWN	None	None	None	None	121961763	121972405	-1	None	None
11	None	ENSG00000255248	ENST00000534195	sense_overlapping	KNOWN	None	None	None	None	121961962	121975877	-1	None	None
11	None	ENSG00000255248	ENST00000532890	sense_overlapping	KNOWN	None	None	None	None	121961993	121972394	-1	None	None
11	None	ENSG00000255248	ENST00000532315	sense_overlapping	KNOWN	None	None	None	None	121962125	121976650	-1	None	None
11	None	ENSG00000255248	ENST00000534297	sense_overlapping	KNOWN	None	None	None	None	121962253	121987031	-1	None	None
11	None	ENSG00000255248	ENST00000530072	sense_overlapping	KNOWN	None	None	None	None	121971386	121972394	-1	None	None
11	None	ENSG00000255248	ENST00000531629	sense_overlapping	KNOWN	None	None	None	None	121971617	121972394	-1	None	None
HSCHR6_MHC_COX	None	ENSG00000266362	ENST00000578281	miRNA	KNOWN	None	None	None	None	30541958	30542043	1	None	None
17	RPS12P28	ENSG00000240494	ENST00000494679	processed_pseudogene	KNOWN	None	36972	None	None	26982575	26983001	1	None	None
6	RNU6-813P	ENSG00000207422	ENST00000384691	snRNA	KNOWN	None	47776	None	None	151936908	151937014	-1	None	None
19	None	ENSG00000272098	ENST00000607682	processed_transcript	KNOWN	None	None	None	None	197075	199431	-1	None	None
19	None	ENSG00000272098	ENST00000605890	transcribed_processed_pseudogene	KNOWN	None	None	None	None	197307	197718	-1	None	None
HSCHR6_MHC_COX	None	ENSG00000265548	ENST00000577463	miRNA	KNOWN	None	None	None	None	30573855	30573931	-1	None	None
6	None	ENSG00000233823	ENST00000451697	antisense	KNOWN	None	None	None	None	152134411	152135314	-1	None	None
13	LECT1	ENSG00000136110	ENST00000448904	protein_coding	KNOWN	CCDS45051	17005	1002	333	53277399	53313947	-1	MYETS1	CHM-I, CHM1, chondromodulin, BRICD3
13	LECT1	ENSG00000136110	ENST00000377962	protein_coding	KNOWN	CCDS9437	17005	1005	334	53277404	53313915	-1	MYETS1	CHM-I, CHM1, chondromodulin, BRICD3
13	LECT1	ENSG00000136110	ENST00000431550	protein_coding	KNOWN	None	17005	388	128	53286851	53313487	-1	MYETS1	CHM-I, CHM1, chondromodulin, BRICD3
HSCHR6_MHC_COX	PTMAP1	ENSG00000225453	ENST00000447774	processed_pseudogene	KNOWN	None	9624	None	None	30591257	30591523	1	None	Em:AB023049.6
HSCHR6_MHC_COX	PTMAP1	ENSG00000225453	ENST00000551963	pseudogene	KNOWN	None	9624	None	None	30591257	30591501	1	None	Em:AB023049.6
22	APOL2	ENSG00000128335	ENST00000358502	protein_coding	KNOWN	CCDS43014	619	1014	337	36622256	36635689	-1	None	APOL-II
22	APOL2	ENSG00000128335	ENST00000249066	protein_coding	KNOWN	CCDS43014	619	1014	337	36622256	36636000	-1	None	APOL-II
22	APOL2	ENSG00000128335	ENST00000451256	protein_coding	PUTATIVE	None	619	1350	449	36623388	36635573	-1	None	APOL-II
22	APOL2	ENSG00000128335	ENST00000529194	protein_coding	KNOWN	None	619	386	127	36624078	36635273	-1	None	APOL-II
22	APOL2	ENSG00000128335	ENST00000454728	protein_coding	KNOWN	None	619	223	73	36624241	36635607	-1	None	APOL-II
22	APOL2	ENSG00000128335	ENST00000476579	processed_transcript	KNOWN	None	619	None	None	36632931	36635285	-1	None	APOL-II
22	APOL2	ENSG00000128335	ENST00000489186	processed_transcript	KNOWN	None	619	None	None	36632973	36635628	-1	None	APOL-II
22	APOL2	ENSG00000128335	ENST00000473549	processed_transcript	KNOWN	None	619	None	None	36632979	36635719	-1	None	APOL-II
22	APOL2	ENSG00000128335	ENST00000484830	processed_transcript	KNOWN	None	619	None	None	36633010	36635616	-1	None	APOL-II
1	NPPA-AS1	ENSG00000242349	ENST00000446542	antisense	KNOWN	None	37635	None	None	11901074	11907741	1	NPPAAS, NPPA-AS	None
1	NPPA-AS1	ENSG00000242349	ENST00000400892	antisense	KNOWN	None	37635	None	None	11903918	11908136	1	NPPAAS, NPPA-AS	None
9	TPM2	ENSG00000198467	ENST00000378300	protein_coding	NOVEL	None	12011	969	322	35681989	35689900	-1	AMCD1	DA1, NEM4
9	TPM2	ENSG00000198467	ENST00000378292	protein_coding	KNOWN	CCDS6586	12011	855	284	35681989	35691017	-1	AMCD1	DA1, NEM4
9	TPM2	ENSG00000198467	ENST00000329305	protein_coding	NOVEL	None	12011	855	284	35682011	35689910	-1	AMCD1	DA1, NEM4
9	TPM2	ENSG00000198467	ENST00000360958	protein_coding	KNOWN	CCDS6587	12011	855	284	35682927	35689919	-1	AMCD1	DA1, NEM4
9	TPM2	ENSG00000198467	ENST00000607559	protein_coding	PUTATIVE	None	12011	336	111	35684038	35685463	-1	AMCD1	DA1, NEM4
9	TPM2	ENSG00000198467	ENST00000471212	retained_intron	KNOWN	None	12011	None	None	35684248	35689897	-1	AMCD1	DA1, NEM4
9	TPM2	ENSG00000198467	ENST00000486018	retained_intron	KNOWN	None	12011	None	None	35684748	35685540	-1	AMCD1	DA1, NEM4
9	TPM2	ENSG00000198467	ENST00000604975	retained_intron	KNOWN	None	12011	None	None	35685142	35689922	-1	AMCD1	DA1, NEM4
19	None	ENSG00000267029	ENST00000587271	transcribed_processed_pseudogene	KNOWN	None	None	None	None	197955	198333	1	None	None
19	None	ENSG00000267029	ENST00000590372	processed_transcript	KNOWN	None	None	None	None	198052	200775	1	None	None
17	None	ENSG00000265205	ENST00000578819	antisense	KNOWN	None	None	None	None	26997072	26999822	-1	None	None
16	RNU6-758P	ENSG00000252101	ENST00000516292	snRNA	KNOWN	None	47721	None	None	75320610	75320696	-1	None	None
HSCHR6_MHC_COX	None	ENSG00000266702	ENST00000583768	miRNA	NOVEL	None	None	None	None	30606290	30606383	1	None	None
17	SNORD42B	ENSG00000238423	ENST00000458893	snoRNA	KNOWN	None	10181	None	None	27047568	27047634	1	RNU42B	U42B
16	None	ENSG00000259999	ENST00000568140	sense_intronic	KNOWN	None	None	None	None	75355788	75358946	-1	None	None
10	None	ENSG00000234522	ENST00000447093	unprocessed_pseudogene	KNOWN	None	None	None	None	122194495	122199888	1	None	None
3	AADAC	ENSG00000114771	ENST00000232892	protein_coding	KNOWN	CCDS33877	17	1200	399	151531825	151546272	1	None	DAC, CES5A1
3	AADAC	ENSG00000114771	ENST00000488869	protein_coding	PUTATIVE	None	17	615	204	151531861	151542648	1	None	DAC, CES5A1
HSCHR6_MHC_COX	RPL7P4	ENSG00000235342	ENST00000416360	processed_pseudogene	KNOWN	None	21634	None	None	30654450	30655179	-1	None	Em:AB023049.2
19	MIR330	ENSG00000199066	ENST00000362196	miRNA	KNOWN	None	31771	None	None	46142252	46142345	-1	MIRN330	hsa-mir-330
19	None	ENSG00000206082	ENST00000587051	unprocessed_pseudogene	KNOWN	None	None	None	None	200460	205074	-1	None	None
20	PRNT	ENSG00000180259	ENST00000418528	protein_coding	KNOWN	None	18046	285	94	4711928	4721314	-1	None	M8
20	PRNT	ENSG00000180259	ENST00000326539	protein_coding	KNOWN	None	18046	285	94	4711928	4721314	-1	None	M8
20	PRNT	ENSG00000180259	ENST00000423718	protein_coding	KNOWN	None	18046	285	94	4711928	4721314	-1	None	M8
16	None	ENSG00000261783	ENST00000561956	sense_intronic	KNOWN	None	None	None	None	75413716	75415158	-1	None	None
15	None	ENSG00000266697	ENST00000577648	miRNA	NOVEL	None	None	None	None	83395302	83395385	-1	None	None
1	DDR2	ENSG00000162733	ENST00000446985	protein_coding	KNOWN	None	2731	390	129	162601163	162724618	1	TYRO10, NTRKR3	TKT
1	DDR2	ENSG00000162733	ENST00000415555	protein_coding	KNOWN	None	2731	444	147	162601801	162724972	1	TYRO10, NTRKR3	TKT
1	DDR2	ENSG00000162733	ENST00000367922	protein_coding	KNOWN	CCDS1241	2731	2568	855	162602255	162750237	1	TYRO10, NTRKR3	TKT
1	DDR2	ENSG00000162733	ENST00000367921	protein_coding	KNOWN	CCDS1241	2731	2568	855	162602260	162750211	1	TYRO10, NTRKR3	TKT
1	DDR2	ENSG00000162733	ENST00000458105	protein_coding	KNOWN	None	2731	501	166	162737027	162740526	1	TYRO10, NTRKR3	TKT
1	DDR2	ENSG00000162733	ENST00000433757	protein_coding	KNOWN	None	2731	514	170	162737080	162742225	1	TYRO10, NTRKR3	TKT
20	None	ENSG00000228340	ENST00000426753	processed_transcript	KNOWN	None	None	None	None	58662895	58676427	1	None	None
20	None	ENSG00000228340	ENST00000428772	processed_transcript	KNOWN	None	None	None	None	58662912	58676427	1	None	None
20	None	ENSG00000228340	ENST00000431181	processed_transcript	KNOWN	None	None	None	None	58662919	58821187	1	None	None
20	None	ENSG00000228340	ENST00000427691	processed_transcript	KNOWN	None	None	None	None	58662943	58755971	1	None	None
20	None	ENSG00000228340	ENST00000439507	processed_transcript	KNOWN	None	None	None	None	58663003	58676427	1	None	None
20	None	ENSG00000228340	ENST00000457508	processed_transcript	KNOWN	None	None	None	None	58663694	58676427	1	None	None
20	None	ENSG00000228340	ENST00000458422	processed_transcript	KNOWN	None	None	None	None	58696116	58859671	1	None	None
20	None	ENSG00000228340	ENST00000432910	processed_transcript	KNOWN	None	None	None	None	58713548	58897314	1	None	None
20	None	ENSG00000228340	ENST00000437035	processed_transcript	KNOWN	None	None	None	None	58755936	59102516	1	None	None
20	None	ENSG00000228340	ENST00000421257	processed_transcript	KNOWN	None	None	None	None	58755937	58906642	1	None	None
20	None	ENSG00000228340	ENST00000427820	processed_transcript	KNOWN	None	None	None	None	58755946	58825060	1	None	None
19	RN7SL836P	ENSG00000241226	ENST00000476140	misc_RNA	KNOWN	None	46852	None	None	46154768	46155060	1	None	None
16	None	ENSG00000252122	ENST00000516313	snoRNA	NOVEL	None	None	None	None	75443230	75443364	-1	None	None
10	LINC00614	ENSG00000236983	ENST00000433966	lincRNA	KNOWN	None	30165	None	None	27232252	27233347	-1	C10orf52	FLJ35853
15	None	ENSG00000259442	ENST00000558342	antisense	KNOWN	None	None	None	None	83412975	83419041	1	None	None
19	MIR642A	ENSG00000207773	ENST00000385039	miRNA	KNOWN	None	32898	None	None	46178186	46178282	1	MIRN642, MIR642	hsa-mir-642
10	None	ENSG00000265239	ENST00000580337	miRNA	NOVEL	None	None	None	None	122223346	122223443	-1	None	None
19	RNU6-1076P	ENSG00000222329	ENST00000410397	snRNA	KNOWN	None	48039	None	None	223158	223261	-1	None	None
19	None	ENSG00000259605	ENST00000559756	antisense	KNOWN	None	None	None	None	46268043	46272311	1	None	None
19	None	ENSG00000259605	ENST00000592217	antisense	KNOWN	None	None	None	None	46271645	46273064	1	None	None
HSCHR6_MHC_COX	MDC1-AS1	ENSG00000236766	ENST00000442464	processed_transcript	KNOWN	None	39764	None	None	30660710	30670826	1	None	None
10	WDR11-AS1	ENSG00000227165	ENST00000456120	antisense	KNOWN	None	27437	None	None	122521324	122536396	-1	None	None
10	WDR11-AS1	ENSG00000227165	ENST00000598981	antisense	KNOWN	None	27437	None	None	122521324	122610721	-1	None	None
10	WDR11-AS1	ENSG00000227165	ENST00000451706	antisense	KNOWN	None	27437	None	None	122522913	122552872	-1	None	None
19	None	ENSG00000267600	ENST00000587910	processed_pseudogene	KNOWN	None	None	None	None	229640	230165	-1	None	None
10	RNU6-490P	ENSG00000199855	ENST00000362985	snRNA	KNOWN	None	47453	None	None	27377250	27377356	-1	None	None
HSCHR6_MHC_COX	None	ENSG00000266119	ENST00000583857	misc_RNA	NOVEL	None	None	None	None	30693941	30694051	-1	None	None
19	None	ENSG00000267395	ENST00000590076	antisense	KNOWN	None	None	None	None	46271054	46275233	1	None	None
19	None	ENSG00000267395	ENST00000586251	antisense	KNOWN	None	None	None	None	46274240	46275762	1	None	None
19	None	ENSG00000267395	ENST00000591530	antisense	KNOWN	None	None	None	None	46274254	46275762	1	None	None
19	None	ENSG00000267395	ENST00000586498	antisense	KNOWN	None	None	None	None	46274271	46275762	1	None	None
10	RNU2-24P	ENSG00000252639	ENST00000516830	snRNA	KNOWN	None	48517	None	None	27482287	27482429	-1	None	None
10	None	ENSG00000271670	ENST00000605549	antisense	KNOWN	None	None	None	None	122638768	122640179	-1	None	None
2	MRPL35	ENSG00000132313	ENST00000254644	protein_coding	KNOWN	CCDS1987	14489	513	170	86426478	86439961	1	None	None
2	MRPL35	ENSG00000132313	ENST00000605125	protein_coding	PUTATIVE	None	14489	288	95	86426580	86438168	1	None	None
2	MRPL35	ENSG00000132313	ENST00000337109	protein_coding	KNOWN	CCDS1988	14489	567	188	86426580	86440917	1	None	None
2	MRPL35	ENSG00000132313	ENST00000409180	protein_coding	PUTATIVE	None	14489	534	177	86426586	86440861	1	None	None
16	DYNC1LI2	ENSG00000135720	ENST00000258198	protein_coding	KNOWN	CCDS10818	2966	1479	492	66754796	66785701	-1	DNCLI2	None
16	DYNC1LI2	ENSG00000135720	ENST00000443351	protein_coding	NOVEL	None	2966	1248	415	66757381	66785504	-1	DNCLI2	None
16	DYNC1LI2	ENSG00000135720	ENST00000563628	protein_coding	PUTATIVE	None	2966	150	49	66757473	66763002	-1	DNCLI2	None
16	DYNC1LI2	ENSG00000135720	ENST00000569320	protein_coding	NOVEL	None	2966	504	167	66757488	66764122	-1	DNCLI2	None
16	DYNC1LI2	ENSG00000135720	ENST00000564559	nonsense_mediated_decay	KNOWN	None	2966	277	91	66757504	66762122	-1	DNCLI2	None
16	DYNC1LI2	ENSG00000135720	ENST00000567499	retained_intron	KNOWN	None	2966	None	None	66757504	66767449	-1	DNCLI2	None
16	DYNC1LI2	ENSG00000135720	ENST00000568453	retained_intron	KNOWN	None	2966	None	None	66757509	66764251	-1	DNCLI2	None
16	DYNC1LI2	ENSG00000135720	ENST00000564833	retained_intron	KNOWN	None	2966	None	None	66759752	66766540	-1	DNCLI2	None
16	DYNC1LI2	ENSG00000135720	ENST00000565532	retained_intron	KNOWN	None	2966	None	None	66761900	66770100	-1	DNCLI2	None
16	DYNC1LI2	ENSG00000135720	ENST00000570201	processed_transcript	PUTATIVE	None	2966	None	None	66762943	66764937	-1	DNCLI2	None
16	DYNC1LI2	ENSG00000135720	ENST00000440564	protein_coding	NOVEL	None	2966	816	271	66765912	66785497	-1	DNCLI2	None
16	DYNC1LI2	ENSG00000135720	ENST00000561727	retained_intron	KNOWN	None	2966	None	None	66767876	66770140	-1	DNCLI2	None
16	DYNC1LI2	ENSG00000135720	ENST00000566150	protein_coding	PUTATIVE	None	2966	558	185	66770005	66785504	-1	DNCLI2	None
16	DYNC1LI2	ENSG00000135720	ENST00000568180	nonsense_mediated_decay	KNOWN	None	2966	171	56	66770071	66785504	-1	DNCLI2	None
16	DYNC1LI2	ENSG00000135720	ENST00000564090	nonsense_mediated_decay	KNOWN	None	2966	123	40	66776354	66785504	-1	DNCLI2	None
16	DYNC1LI2	ENSG00000135720	ENST00000379482	protein_coding	KNOWN	None	2966	630	209	66757278	66785500	-1	DNCLI2	None
HSCHR6_MHC_COX	RN7SL579P	ENSG00000263728	ENST00000581371	misc_RNA	KNOWN	None	46595	None	None	30708646	30708893	1	None	None
10	RNU7-12P	ENSG00000251839	ENST00000516030	snRNA	KNOWN	None	34108	None	None	27521184	27521245	-1	RNU7-100P	U7.12
10	None	ENSG00000227307	ENST00000414774	lincRNA	KNOWN	None	None	None	None	122685059	122740213	-1	None	None
6	GGNBP1	ENSG00000204188	ENST00000374458	protein_coding	KNOWN	None	19427	330	109	33551515	33556803	1	None	None
4	None	ENSG00000250920	ENST00000509399	lincRNA	KNOWN	None	None	None	None	104472084	104480284	-1	None	None
8	VPS28	ENSG00000160948	ENST00000529182	protein_coding	NOVEL	CCDS34967	18178	702	233	145649000	145652366	-1	None	None
8	VPS28	ENSG00000160948	ENST00000526977	nonsense_mediated_decay	KNOWN	None	18178	189	62	145649000	145652366	-1	None	None
8	VPS28	ENSG00000160948	ENST00000526054	protein_coding	KNOWN	CCDS6425	18178	666	221	145649000	145652366	-1	None	None
8	VPS28	ENSG00000160948	ENST00000526204	nonsense_mediated_decay	KNOWN	None	18178	108	35	145649003	145652366	-1	None	None
8	VPS28	ENSG00000160948	ENST00000530983	nonsense_mediated_decay	KNOWN	None	18178	189	62	145649004	145652366	-1	None	None
8	VPS28	ENSG00000160948	ENST00000528142	retained_intron	KNOWN	None	18178	None	None	145649005	145652366	-1	None	None
8	VPS28	ENSG00000160948	ENST00000530836	nonsense_mediated_decay	KNOWN	None	18178	108	35	145649014	145652366	-1	None	None
8	VPS28	ENSG00000160948	ENST00000527797	nonsense_mediated_decay	KNOWN	None	18178	198	65	145649055	145652381	-1	None	None
8	VPS28	ENSG00000160948	ENST00000533806	protein_coding	PUTATIVE	None	18178	556	184	145649247	145653931	-1	None	None
8	VPS28	ENSG00000160948	ENST00000531032	protein_coding	PUTATIVE	None	18178	484	160	145649488	145653926	-1	None	None
8	VPS28	ENSG00000160948	ENST00000531924	retained_intron	KNOWN	None	18178	None	None	145650348	145652677	-1	None	None
8	VPS28	ENSG00000160948	ENST00000526734	processed_transcript	KNOWN	None	18178	None	None	145650779	145653926	-1	None	None
8	VPS28	ENSG00000160948	ENST00000530790	protein_coding	NOVEL	None	18178	159	52	145651101	145653927	-1	None	None
8	VPS28	ENSG00000160948	ENST00000524521	processed_transcript	PUTATIVE	None	18178	None	None	145651854	145653926	-1	None	None
8	VPS28	ENSG00000160948	ENST00000292510	protein_coding	KNOWN	CCDS6425	18178	666	221	145649000	145653927	-1	None	None
8	VPS28	ENSG00000160948	ENST00000377348	protein_coding	KNOWN	CCDS34967	18178	702	233	145649000	145653927	-1	None	None
HSCHR6_MHC_COX	HCG20	ENSG00000224641	ENST00000431949	processed_transcript	PUTATIVE	None	31334	None	None	30724441	30749869	1	None	AB023051.1, NCRNA00149
HSCHR6_MHC_COX	HCG20	ENSG00000224641	ENST00000448592	processed_transcript	KNOWN	None	31334	None	None	30739574	30749869	1	None	AB023051.1, NCRNA00149
10	None	ENSG00000236762	ENST00000433839	processed_pseudogene	KNOWN	None	None	None	None	122892604	122893237	-1	None	None
5	RANBP3L	ENSG00000164188	ENST00000296604	protein_coding	KNOWN	CCDS3918	26353	1398	465	36248536	36302004	-1	None	FLJ25422
5	RANBP3L	ENSG00000164188	ENST00000502994	protein_coding	NOVEL	CCDS54843	26353	1473	490	36249435	36302002	-1	None	FLJ25422
5	RANBP3L	ENSG00000164188	ENST00000515759	protein_coding	NOVEL	None	26353	966	321	36256898	36302002	-1	None	FLJ25422
5	RANBP3L	ENSG00000164188	ENST00000505865	protein_coding	KNOWN	None	26353	326	107	36265565	36302216	-1	None	FLJ25422
20	RASSF2	ENSG00000101265	ENST00000478553	processed_transcript	KNOWN	None	9883	None	None	4760669	4776150	-1	None	KIAA0168, CENP-34
20	RASSF2	ENSG00000101265	ENST00000379400	protein_coding	KNOWN	CCDS13083	9883	981	326	4760669	4804291	-1	None	KIAA0168, CENP-34
20	RASSF2	ENSG00000101265	ENST00000379376	protein_coding	KNOWN	CCDS13083	9883	981	326	4760672	4795769	-1	None	KIAA0168, CENP-34
6	SYNE1-AS1	ENSG00000234577	ENST00000412161	antisense	KNOWN	None	40793	None	None	152701681	152702699	1	None	None
13	SOHLH2	ENSG00000120669	ENST00000379881	protein_coding	KNOWN	CCDS9355	26026	1278	425	36742345	36788752	-1	None	FLJ20449, TEB1, bHLHe81, SPATA28
13	SOHLH2	ENSG00000120669	ENST00000317764	protein_coding	PUTATIVE	None	26026	678	225	36756129	36788725	-1	None	FLJ20449, TEB1, bHLHe81, SPATA28
13	SOHLH2	ENSG00000120669	ENST00000554962	protein_coding	KNOWN	CCDS55896	26026	1509	502	36742931	36871979	-1	None	FLJ20449, TEB1, bHLHe81, SPATA28
10	None	ENSG00000227143	ENST00000429809	lincRNA	KNOWN	None	None	None	None	122938214	122945480	1	None	None
12	GLTP	ENSG00000139433	ENST00000318348	protein_coding	KNOWN	CCDS9136	24867	630	209	110288748	110318293	-1	None	None
12	GLTP	ENSG00000139433	ENST00000544393	protein_coding	NOVEL	None	24867	573	190	110290066	110318226	-1	None	None
12	GLTP	ENSG00000139433	ENST00000540772	protein_coding	PUTATIVE	None	24867	550	182	110290350	110318130	-1	None	None
12	GLTP	ENSG00000139433	ENST00000536390	nonsense_mediated_decay	KNOWN	None	24867	204	67	110290470	110318188	-1	None	None
12	GLTP	ENSG00000139433	ENST00000537066	nonsense_mediated_decay	KNOWN	None	24867	204	67	110293423	110318183	-1	None	None
19	None	ENSG00000269148	ENST00000601618	antisense	KNOWN	None	None	None	None	46333422	46334366	1	None	None
6	None	ENSG00000226193	ENST00000458194	antisense	KNOWN	None	None	None	None	152723533	152726101	1	None	None
11	RCE1	ENSG00000173653	ENST00000533277	retained_intron	KNOWN	None	13721	None	None	66610306	66613997	1	RCE1A, RCE1B	hRCE1, FACE-2, FACE2
11	RCE1	ENSG00000173653	ENST00000309657	protein_coding	KNOWN	CCDS8151	13721	990	329	66610883	66614017	1	RCE1A, RCE1B	hRCE1, FACE-2, FACE2
11	RCE1	ENSG00000173653	ENST00000524506	protein_coding	KNOWN	None	13721	927	308	66610908	66613999	1	RCE1A, RCE1B	hRCE1, FACE-2, FACE2
11	RCE1	ENSG00000173653	ENST00000524849	nonsense_mediated_decay	KNOWN	None	13721	309	102	66610922	66614003	1	RCE1A, RCE1B	hRCE1, FACE-2, FACE2
11	RCE1	ENSG00000173653	ENST00000530610	retained_intron	KNOWN	None	13721	None	None	66610981	66611609	1	RCE1A, RCE1B	hRCE1, FACE-2, FACE2
11	RCE1	ENSG00000173653	ENST00000534822	retained_intron	KNOWN	None	13721	None	None	66611006	66611489	1	RCE1A, RCE1B	hRCE1, FACE-2, FACE2
11	RCE1	ENSG00000173653	ENST00000532775	retained_intron	KNOWN	None	13721	None	None	66611119	66612479	1	RCE1A, RCE1B	hRCE1, FACE-2, FACE2
11	RCE1	ENSG00000173653	ENST00000525356	protein_coding	NOVEL	None	13721	621	206	66611194	66613999	1	RCE1A, RCE1B	hRCE1, FACE-2, FACE2
11	RCE1	ENSG00000173653	ENST00000534645	processed_transcript	KNOWN	None	13721	None	None	66611255	66612230	1	RCE1A, RCE1B	hRCE1, FACE-2, FACE2
9	EPB41L4B	ENSG00000095203	ENST00000374566	protein_coding	KNOWN	CCDS43859	19818	2703	900	111934255	112083244	-1	None	EHM2
9	EPB41L4B	ENSG00000095203	ENST00000374557	protein_coding	KNOWN	CCDS43860	19818	1557	518	112002011	112083244	-1	None	EHM2
10	RN7SKP167	ENSG00000222979	ENST00000411047	misc_RNA	KNOWN	None	45891	None	None	123170430	123170714	1	None	None
19	MIR769	ENSG00000211580	ENST00000390225	miRNA	KNOWN	None	33138	None	None	46522190	46522307	1	MIRN769	hsa-mir-769
3	FGF12	ENSG00000114279	ENST00000445105	protein_coding	KNOWN	CCDS46983	3668	546	181	191859847	192445388	-1	FGF12B	FHF1
3	FGF12	ENSG00000114279	ENST00000454309	protein_coding	KNOWN	CCDS3301	3668	732	243	191860298	192126838	-1	FGF12B	FHF1
3	FGF12	ENSG00000114279	ENST00000440901	protein_coding	NOVEL	None	3668	417	138	191861388	191986538	-1	FGF12B	FHF1
3	FGF12	ENSG00000114279	ENST00000450716	protein_coding	KNOWN	CCDS46983	3668	546	181	191861767	192485553	-1	FGF12B	FHF1
3	FGF12	ENSG00000114279	ENST00000430714	protein_coding	NOVEL	None	3668	435	144	191861777	192445289	-1	FGF12B	FHF1
3	FGF12	ENSG00000114279	ENST00000448795	protein_coding	PUTATIVE	None	3668	423	140	191861849	192445330	-1	FGF12B	FHF1
3	FGF12	ENSG00000114279	ENST00000418610	protein_coding	KNOWN	None	3668	321	106	191888353	192445314	-1	FGF12B	FHF1
3	FGF12	ENSG00000114279	ENST00000466144	processed_transcript	PUTATIVE	None	3668	None	None	192390755	192445376	-1	FGF12B	FHF1
3	FGF12	ENSG00000114279	ENST00000491636	retained_intron	KNOWN	None	3668	None	None	192444671	192445376	-1	FGF12B	FHF1
3	FGF12	ENSG00000114279	ENST00000264730	protein_coding	KNOWN	CCDS46983	3668	546	181	191859684	192444982	-1	FGF12B	FHF1
10	None	ENSG00000263577	ENST00000578607	miRNA	NOVEL	None	None	None	None	27524846	27524929	-1	None	None
10	None	ENSG00000223432	ENST00000434988	lincRNA	KNOWN	None	None	None	None	123374939	123375353	-1	None	None
6	None	ENSG00000238474	ENST00000459439	snoRNA	NOVEL	None	None	None	None	109612458	109612561	-1	None	None
19	None	ENSG00000268401	ENST00000595955	lincRNA	KNOWN	None	None	None	None	46530912	46533419	1	None	None
19	None	ENSG00000268401	ENST00000601033	lincRNA	KNOWN	None	None	None	None	46531127	46531747	1	None	None
1	None	ENSG00000224904	ENST00000438808	processed_pseudogene	KNOWN	None	None	None	None	11937827	11940463	1	None	None
19	ZIM3	ENSG00000141946	ENST00000269834	protein_coding	KNOWN	CCDS33125	16366	1419	472	57645464	57656570	-1	None	ZNF657
10	RPS15AP5	ENSG00000223540	ENST00000436276	processed_pseudogene	KNOWN	None	23743	None	None	123473121	123473508	1	None	Em:AC025947.3
6	None	ENSG00000201023	ENST00000364153	misc_RNA	NOVEL	None	None	None	None	109626697	109626798	1	None	None
Y	USP9YP7	ENSG00000224485	ENST00000436723	unprocessed_pseudogene	KNOWN	None	38079	None	None	20020635	20022686	1	None	None
6	None	ENSG00000218632	ENST00000437739	processed_pseudogene	KNOWN	None	None	None	None	109648378	109649117	-1	None	None
9	FAM220CP	ENSG00000213612	ENST00000395253	processed_pseudogene	KNOWN	None	43640	None	None	99883941	99884771	1	None	None
4	SNORD73A	ENSG00000208797	ENST00000386062	snoRNA	KNOWN	None	10235	None	None	152024979	152025043	1	RNU73	U73a, RNU73A
6	None	ENSG00000260273	ENST00000563105	antisense	KNOWN	None	None	None	None	109703998	109704869	1	None	None
6	None	ENSG00000239160	ENST00000459391	miRNA	NOVEL	None	None	None	None	109755377	109755443	-1	None	None
4	None	ENSG00000270681	ENST00000603472	antisense	KNOWN	None	None	None	None	152061143	152062255	1	None	None
17	PRPSAP2	ENSG00000141127	ENST00000441887	protein_coding	KNOWN	None	9467	421	139	18743398	18785889	1	None	PAP41
17	PRPSAP2	ENSG00000141127	ENST00000573432	processed_transcript	KNOWN	None	9467	None	None	18759612	18781101	1	None	PAP41
17	PRPSAP2	ENSG00000141127	ENST00000432893	protein_coding	KNOWN	None	9467	804	267	18759612	18827297	1	None	PAP41
17	PRPSAP2	ENSG00000141127	ENST00000414602	protein_coding	KNOWN	None	9467	584	193	18759642	18793190	1	None	PAP41
17	PRPSAP2	ENSG00000141127	ENST00000574522	protein_coding	KNOWN	None	9467	280	92	18759654	18781051	1	None	PAP41
17	PRPSAP2	ENSG00000141127	ENST00000570450	protein_coding	KNOWN	None	9467	528	175	18759655	18785996	1	None	PAP41
17	PRPSAP2	ENSG00000141127	ENST00000492129	nonsense_mediated_decay	KNOWN	None	9467	237	78	18759663	18834581	1	None	PAP41
17	PRPSAP2	ENSG00000141127	ENST00000419071	protein_coding	NOVEL	CCDS58526	9467	990	329	18759666	18834307	1	None	PAP41
17	PRPSAP2	ENSG00000141127	ENST00000573253	nonsense_mediated_decay	KNOWN	None	9467	144	47	18759681	18781140	1	None	PAP41
17	PRPSAP2	ENSG00000141127	ENST00000487101	nonsense_mediated_decay	KNOWN	None	9467	237	78	18759694	18814564	1	None	PAP41
17	PRPSAP2	ENSG00000141127	ENST00000571907	nonsense_mediated_decay	KNOWN	None	9467	144	47	18761409	18775941	1	None	PAP41
17	PRPSAP2	ENSG00000141127	ENST00000419284	protein_coding	KNOWN	None	9467	528	175	18761417	18785996	1	None	PAP41
17	PRPSAP2	ENSG00000141127	ENST00000268835	protein_coding	KNOWN	CCDS11200	9467	1110	369	18761420	18834528	1	None	PAP41
17	PRPSAP2	ENSG00000141127	ENST00000412418	protein_coding	KNOWN	None	9467	804	267	18761443	18827297	1	None	PAP41
17	PRPSAP2	ENSG00000141127	ENST00000575228	protein_coding	NOVEL	None	9467	171	56	18761444	18775947	1	None	PAP41
17	PRPSAP2	ENSG00000141127	ENST00000395656	nonsense_mediated_decay	KNOWN	None	9467	237	78	18761450	18834337	1	None	PAP41
17	PRPSAP2	ENSG00000141127	ENST00000478622	processed_transcript	KNOWN	None	9467	None	None	18761462	18781158	1	None	PAP41
17	PRPSAP2	ENSG00000141127	ENST00000575102	protein_coding	KNOWN	None	9467	67	21	18761476	18769213	1	None	PAP41
17	PRPSAP2	ENSG00000141127	ENST00000455992	nonsense_mediated_decay	KNOWN	None	9467	486	161	18761499	18827313	1	None	PAP41
17	PRPSAP2	ENSG00000141127	ENST00000576355	protein_coding	KNOWN	None	9467	312	103	18761755	18781083	1	None	PAP41
17	PRPSAP2	ENSG00000141127	ENST00000422237	protein_coding	KNOWN	None	9467	733	243	18763828	18814564	1	None	PAP41
17	PRPSAP2	ENSG00000141127	ENST00000542013	protein_coding	NOVEL	CCDS58525	9467	963	320	18768862	18834047	1	None	PAP41
17	PRPSAP2	ENSG00000141127	ENST00000574451	protein_coding	NOVEL	None	9467	782	259	18785902	18834248	1	None	PAP41
17	PRPSAP2	ENSG00000141127	ENST00000575337	processed_transcript	KNOWN	None	9467	None	None	18785993	18808359	1	None	PAP41
17	PRPSAP2	ENSG00000141127	ENST00000460724	protein_coding	PUTATIVE	None	9467	430	142	18814467	18833133	1	None	PAP41
17	PRPSAP2	ENSG00000141127	ENST00000466106	retained_intron	KNOWN	None	9467	None	None	18831581	18834581	1	None	PAP41
17	PRPSAP2	ENSG00000141127	ENST00000536323	protein_coding	KNOWN	CCDS58527	9467	852	283	18761496	18834337	1	None	PAP41
3	ZNF502	ENSG00000196653	ENST00000436624	protein_coding	KNOWN	CCDS2719	23718	1635	544	44754138	44764469	1	None	FLJ14855, FLJ12515
3	ZNF502	ENSG00000196653	ENST00000296091	protein_coding	KNOWN	CCDS2719	23718	1635	544	44754138	44765323	1	None	FLJ14855, FLJ12515
3	ZNF502	ENSG00000196653	ENST00000411443	protein_coding	KNOWN	None	23718	465	154	44754168	44762774	1	None	FLJ14855, FLJ12515
3	ZNF502	ENSG00000196653	ENST00000449836	protein_coding	KNOWN	CCDS2719	23718	1635	544	44754135	44765321	1	None	FLJ14855, FLJ12515
1	HFM1	ENSG00000162669	ENST00000462405	processed_transcript	KNOWN	None	20193	None	None	91726323	91818194	-1	SEC63D1	MER3, FLJ39011, FLJ36760
1	HFM1	ENSG00000162669	ENST00000370425	protein_coding	KNOWN	CCDS30769	20193	4308	1435	91726323	91870426	-1	SEC63D1	MER3, FLJ39011, FLJ36760
1	HFM1	ENSG00000162669	ENST00000430465	protein_coding	PUTATIVE	None	20193	1877	624	91727743	91813006	-1	SEC63D1	MER3, FLJ39011, FLJ36760
1	HFM1	ENSG00000162669	ENST00000497520	processed_transcript	KNOWN	None	20193	None	None	91781697	91794494	-1	SEC63D1	MER3, FLJ39011, FLJ36760
1	HFM1	ENSG00000162669	ENST00000481900	retained_intron	KNOWN	None	20193	None	None	91843000	91870366	-1	SEC63D1	MER3, FLJ39011, FLJ36760
1	HFM1	ENSG00000162669	ENST00000488023	retained_intron	KNOWN	None	20193	None	None	91843316	91870365	-1	SEC63D1	MER3, FLJ39011, FLJ36760
1	HFM1	ENSG00000162669	ENST00000448819	protein_coding	PUTATIVE	None	20193	454	150	91845790	91870413	-1	SEC63D1	MER3, FLJ39011, FLJ36760
1	HFM1	ENSG00000162669	ENST00000427444	protein_coding	PUTATIVE	None	20193	589	195	91851171	91870397	-1	SEC63D1	MER3, FLJ39011, FLJ36760
1	HFM1	ENSG00000162669	ENST00000455133	protein_coding	KNOWN	None	20193	414	137	91859730	91870292	-1	SEC63D1	MER3, FLJ39011, FLJ36760
1	HFM1	ENSG00000162669	ENST00000370424	protein_coding	KNOWN	None	20193	3345	1114	91726747	91870378	-1	SEC63D1	MER3, FLJ39011, FLJ36760
1	HFM1	ENSG00000162669	ENST00000294696	protein_coding	KNOWN	None	20193	1656	551	91726324	91870426	-1	SEC63D1	MER3, FLJ39011, FLJ36760
16	HBA2	ENSG00000188536	ENST00000251595	protein_coding	KNOWN	CCDS10398	4824	429	142	222846	223709	1	None	None
16	HBA2	ENSG00000188536	ENST00000397806	protein_coding	PUTATIVE	None	4824	333	110	222889	223709	1	None	None
16	HBA2	ENSG00000188536	ENST00000482565	retained_intron	KNOWN	None	4824	None	None	222893	223674	1	None	None
16	HBA2	ENSG00000188536	ENST00000484216	retained_intron	KNOWN	None	4824	None	None	222943	223462	1	None	None
6	None	ENSG00000223537	ENST00000423747	antisense	KNOWN	None	None	None	None	109809109	109830496	1	None	None
4	None	ENSG00000249012	ENST00000504587	unprocessed_pseudogene	KNOWN	None	None	None	None	152180655	152184001	1	None	None
1	RNU5E-1	ENSG00000199347	ENST00000362477	snRNA	KNOWN	None	10215	None	None	11968209	11968328	1	RNU5E	U5E
7	FKBP14	ENSG00000106080	ENST00000222803	protein_coding	KNOWN	CCDS5423	18625	636	211	30050203	30066300	-1	None	FLJ20731, FKBP22
7	FKBP14	ENSG00000106080	ENST00000419018	nonsense_mediated_decay	KNOWN	None	18625	201	66	30053904	30066278	-1	None	FLJ20731, FKBP22
7	FKBP14	ENSG00000106080	ENST00000412494	nonsense_mediated_decay	KNOWN	None	18625	268	88	30054287	30066035	-1	None	FLJ20731, FKBP22
7	FKBP14	ENSG00000106080	ENST00000479939	retained_intron	KNOWN	None	18625	None	None	30062007	30066252	-1	None	FLJ20731, FKBP22
9	SLC24A2	ENSG00000155886	ENST00000341998	protein_coding	KNOWN	CCDS6493	10976	1986	661	19507450	19786926	-1	None	NCKX2
9	SLC24A2	ENSG00000155886	ENST00000286344	protein_coding	KNOWN	CCDS55297	10976	1935	644	19515978	19786926	-1	None	NCKX2
6	None	ENSG00000253037	ENST00000517228	miRNA	NOVEL	None	None	None	None	109825590	109825729	1	None	None
15	None	ENSG00000269951	ENST00000602975	sense_intronic	KNOWN	None	None	None	None	77359996	77360667	-1	None	None
5	CYSTM1	ENSG00000120306	ENST00000261811	protein_coding	KNOWN	CCDS4221	30239	294	97	139554227	139623372	1	C5orf32	ORF1-FL49
5	CYSTM1	ENSG00000120306	ENST00000509589	processed_transcript	PUTATIVE	None	30239	None	None	139554741	139624395	1	C5orf32	ORF1-FL49
5	CYSTM1	ENSG00000120306	ENST00000504227	processed_transcript	KNOWN	None	30239	None	None	139554773	139645415	1	C5orf32	ORF1-FL49
5	CYSTM1	ENSG00000120306	ENST00000509789	processed_transcript	KNOWN	None	30239	None	None	139554773	139661637	1	C5orf32	ORF1-FL49
6	RNA5SP223	ENSG00000202044	ENST00000365174	rRNA	KNOWN	None	43123	None	None	152731410	152731529	1	RN5S223	None
6	None	ENSG00000232311	ENST00000458693	lincRNA	KNOWN	None	None	None	None	110147725	110149988	1	None	None
8	None	ENSG00000253872	ENST00000519366	lincRNA	KNOWN	None	None	None	None	96517634	96539752	1	None	None
6	None	ENSG00000233464	ENST00000449282	antisense	KNOWN	None	None	None	None	152867068	152868109	1	None	None
22	PRDX3P1	ENSG00000229598	ENST00000418695	processed_pseudogene	KNOWN	None	39264	None	None	39118748	39119510	-1	None	None
10	None	ENSG00000234182	ENST00000439575	lincRNA	KNOWN	None	None	None	None	3052723	3055303	1	None	None
11	CD3D	ENSG00000167286	ENST00000300692	protein_coding	KNOWN	CCDS8394	1673	516	171	118209669	118213459	-1	T3D	None
11	CD3D	ENSG00000167286	ENST00000534687	protein_coding	PUTATIVE	None	1673	397	131	118209791	118211652	-1	T3D	None
11	CD3D	ENSG00000167286	ENST00000529594	protein_coding	NOVEL	None	1673	297	98	118209792	118213362	-1	T3D	None
11	CD3D	ENSG00000167286	ENST00000392884	protein_coding	KNOWN	CCDS41724	1673	384	127	118209809	118213346	-1	T3D	None
11	CD3D	ENSG00000167286	ENST00000526561	retained_intron	KNOWN	None	1673	None	None	118209809	118213346	-1	T3D	None
6	BTNL2	ENSG00000204290	ENST00000454136	protein_coding	KNOWN	None	1142	1449	482	32361740	32374905	-1	None	HSBLMHC1, BTL-II
6	BTNL2	ENSG00000204290	ENST00000465865	nonsense_mediated_decay	KNOWN	None	1142	207	68	32362513	32374900	-1	None	HSBLMHC1, BTL-II
6	BTNL2	ENSG00000204290	ENST00000446536	protein_coding	NOVEL	None	1142	326	107	32372814	32374905	-1	None	HSBLMHC1, BTL-II
6	BTNL2	ENSG00000204290	ENST00000374995	protein_coding	KNOWN	None	1142	1167	388	32361746	32374900	-1	None	HSBLMHC1, BTL-II
6	BTNL2	ENSG00000204290	ENST00000374993	protein_coding	KNOWN	None	1142	1368	455	32362513	32374900	-1	None	HSBLMHC1, BTL-II
6	BTNL2	ENSG00000204290	ENST00000414363	protein_coding	KNOWN	None	1142	738	245	32362513	32374900	-1	None	HSBLMHC1, BTL-II
6	BTNL2	ENSG00000204290	ENST00000540315	protein_coding	KNOWN	None	1142	738	245	32362513	32374900	-1	None	HSBLMHC1, BTL-II
6	BTNL2	ENSG00000204290	ENST00000544175	protein_coding	KNOWN	None	1142	537	178	32362513	32374900	-1	None	HSBLMHC1, BTL-II
6	BTNL2	ENSG00000204290	ENST00000429232	protein_coding	KNOWN	None	1142	816	271	32362513	32374900	-1	None	HSBLMHC1, BTL-II
HG883_PATCH	None	ENSG00000262091	ENST00000574599	processed_transcript	KNOWN	None	None	None	None	26684670	26708716	1	None	None
HG883_PATCH	None	ENSG00000262091	ENST00000572096	processed_transcript	KNOWN	None	None	None	None	26684675	26685491	1	None	None
1	RAP1GAP	ENSG00000076864	ENST00000374763	protein_coding	NOVEL	None	9858	2247	748	21922714	21946534	-1	RAP1GA1	KIAA0474, RAP1GAP1, RAP1GAPII
1	RAP1GAP	ENSG00000076864	ENST00000471600	nonsense_mediated_decay	KNOWN	None	9858	1809	602	21922714	21978313	-1	RAP1GA1	KIAA0474, RAP1GAP1, RAP1GAPII
1	RAP1GAP	ENSG00000076864	ENST00000374765	protein_coding	KNOWN	CCDS218	9858	1992	663	21922714	21995799	-1	RAP1GA1	KIAA0474, RAP1GAP1, RAP1GAPII
1	RAP1GAP	ENSG00000076864	ENST00000495204	nonsense_mediated_decay	KNOWN	None	9858	1854	617	21922715	21995793	-1	RAP1GA1	KIAA0474, RAP1GAP1, RAP1GAPII
1	RAP1GAP	ENSG00000076864	ENST00000542643	protein_coding	KNOWN	CCDS53276	9858	2046	681	21922715	21995794	-1	RAP1GA1	KIAA0474, RAP1GAP1, RAP1GAPII
1	RAP1GAP	ENSG00000076864	ENST00000359708	protein_coding	KNOWN	None	9858	804	267	21938519	21978329	-1	RAP1GA1	KIAA0474, RAP1GAP1, RAP1GAPII
1	RAP1GAP	ENSG00000076864	ENST00000374757	processed_transcript	KNOWN	None	9858	None	None	21939529	21978396	-1	RAP1GA1	KIAA0474, RAP1GAP1, RAP1GAPII
1	RAP1GAP	ENSG00000076864	ENST00000599760	protein_coding	KNOWN	None	9858	394	130	21940573	21949011	-1	RAP1GA1	KIAA0474, RAP1GAP1, RAP1GAPII
1	RAP1GAP	ENSG00000076864	ENST00000317967	protein_coding	KNOWN	None	9858	290	95	21943800	21995801	-1	RAP1GA1	KIAA0474, RAP1GAP1, RAP1GAPII
1	RAP1GAP	ENSG00000076864	ENST00000447293	protein_coding	KNOWN	None	9858	107	34	21944425	21979800	-1	RAP1GA1	KIAA0474, RAP1GAP1, RAP1GAPII
1	RAP1GAP	ENSG00000076864	ENST00000482984	processed_transcript	KNOWN	None	9858	None	None	21946534	21994174	-1	RAP1GA1	KIAA0474, RAP1GAP1, RAP1GAPII
1	RAP1GAP	ENSG00000076864	ENST00000464457	processed_transcript	KNOWN	None	9858	None	None	21949416	21995776	-1	RAP1GA1	KIAA0474, RAP1GAP1, RAP1GAPII
1	RAP1GAP	ENSG00000076864	ENST00000290101	protein_coding	KNOWN	CCDS53277	9858	2184	727	21922708	21978348	-1	RAP1GA1	KIAA0474, RAP1GAP1, RAP1GAPII
1	RAP1GAP	ENSG00000076864	ENST00000374761	protein_coding	KNOWN	None	9858	2085	694	21922708	21948906	-1	RAP1GA1	KIAA0474, RAP1GAP1, RAP1GAPII
15	None	ENSG00000259722	ENST00000560574	processed_pseudogene	KNOWN	None	None	None	None	77496920	77497442	1	None	None
1	RNU5E-4P	ENSG00000201801	ENST00000364931	snRNA	KNOWN	None	42513	None	None	11969865	11969984	-1	None	None
HG883_PATCH	MIR4723	ENSG00000263411	ENST00000581205	miRNA	KNOWN	None	41660	None	None	26687677	26687757	1	None	hsa-mir-4723
11	CAPN1	ENSG00000014216	ENST00000528396	protein_coding	KNOWN	None	1476	490	162	64948037	64953421	1	None	muCANP, muCL, CANP, CANPL1
11	CAPN1	ENSG00000014216	ENST00000529133	protein_coding	KNOWN	None	1476	573	190	64948508	64953504	1	None	muCANP, muCL, CANP, CANPL1
11	CAPN1	ENSG00000014216	ENST00000533820	protein_coding	KNOWN	CCDS44644	1476	2145	714	64948665	64979477	1	None	muCANP, muCL, CANP, CANPL1
11	CAPN1	ENSG00000014216	ENST00000527739	protein_coding	KNOWN	None	1476	485	160	64949158	64953416	1	None	muCANP, muCL, CANP, CANPL1
11	CAPN1	ENSG00000014216	ENST00000526966	protein_coding	KNOWN	None	1476	485	160	64949194	64953416	1	None	muCANP, muCL, CANP, CANPL1
11	CAPN1	ENSG00000014216	ENST00000533129	protein_coding	KNOWN	CCDS44644	1476	2145	714	64949204	64979329	1	None	muCANP, muCL, CANP, CANPL1
11	CAPN1	ENSG00000014216	ENST00000524773	protein_coding	KNOWN	CCDS44644	1476	2145	714	64949216	64979472	1	None	muCANP, muCL, CANP, CANPL1
11	CAPN1	ENSG00000014216	ENST00000530442	retained_intron	KNOWN	None	1476	None	None	64949271	64951139	1	None	muCANP, muCL, CANP, CANPL1
11	CAPN1	ENSG00000014216	ENST00000279247	protein_coding	KNOWN	CCDS44644	1476	2145	714	64949343	64979476	1	None	muCANP, muCL, CANP, CANPL1
11	CAPN1	ENSG00000014216	ENST00000528739	processed_transcript	KNOWN	None	1476	None	None	64949390	64951053	1	None	muCANP, muCL, CANP, CANPL1
11	CAPN1	ENSG00000014216	ENST00000532285	protein_coding	KNOWN	None	1476	189	62	64949402	64950361	1	None	muCANP, muCL, CANP, CANPL1
11	CAPN1	ENSG00000014216	ENST00000527189	processed_transcript	KNOWN	None	1476	None	None	64949402	64953475	1	None	muCANP, muCL, CANP, CANPL1
11	CAPN1	ENSG00000014216	ENST00000527469	processed_transcript	KNOWN	None	1476	None	None	64949405	64953408	1	None	muCANP, muCL, CANP, CANPL1
11	CAPN1	ENSG00000014216	ENST00000534373	protein_coding	KNOWN	None	1476	407	134	64949409	64951014	1	None	muCANP, muCL, CANP, CANPL1
11	CAPN1	ENSG00000014216	ENST00000526954	nonsense_mediated_decay	KNOWN	None	1476	606	201	64949471	64955490	1	None	muCANP, muCL, CANP, CANPL1
11	CAPN1	ENSG00000014216	ENST00000531068	protein_coding	KNOWN	None	1476	367	121	64949906	64950974	1	None	muCANP, muCL, CANP, CANPL1
11	CAPN1	ENSG00000014216	ENST00000527699	protein_coding	KNOWN	None	1476	456	151	64949906	64951063	1	None	muCANP, muCL, CANP, CANPL1
11	CAPN1	ENSG00000014216	ENST00000533909	protein_coding	KNOWN	None	1476	445	147	64949924	64951052	1	None	muCANP, muCL, CANP, CANPL1
11	CAPN1	ENSG00000014216	ENST00000527323	protein_coding	KNOWN	CCDS44644	1476	2145	714	64949933	64979458	1	None	muCANP, muCL, CANP, CANPL1
11	CAPN1	ENSG00000014216	ENST00000526468	protein_coding	PUTATIVE	None	1476	574	190	64950807	64955471	1	None	muCANP, muCL, CANP, CANPL1
11	CAPN1	ENSG00000014216	ENST00000527897	retained_intron	KNOWN	None	1476	None	None	64953403	64955157	1	None	muCANP, muCL, CANP, CANPL1
11	CAPN1	ENSG00000014216	ENST00000533079	retained_intron	KNOWN	None	1476	None	None	64955412	64973546	1	None	muCANP, muCL, CANP, CANPL1
11	CAPN1	ENSG00000014216	ENST00000527887	retained_intron	KNOWN	None	1476	None	None	64955716	64956160	1	None	muCANP, muCL, CANP, CANPL1
11	CAPN1	ENSG00000014216	ENST00000530495	processed_transcript	KNOWN	None	1476	None	None	64970843	64974140	1	None	muCANP, muCL, CANP, CANPL1
11	CAPN1	ENSG00000014216	ENST00000525013	retained_intron	KNOWN	None	1476	None	None	64973728	64976854	1	None	muCANP, muCL, CANP, CANPL1
11	CAPN1	ENSG00000014216	ENST00000528165	retained_intron	KNOWN	None	1476	None	None	64975949	64979476	1	None	muCANP, muCL, CANP, CANPL1
11	CAPN1	ENSG00000014216	ENST00000533704	retained_intron	KNOWN	None	1476	None	None	64976421	64977863	1	None	muCANP, muCL, CANP, CANPL1
11	CAPN1	ENSG00000014216	ENST00000530567	retained_intron	KNOWN	None	1476	None	None	64976615	64979477	1	None	muCANP, muCL, CANP, CANPL1
8	RNU6-690P	ENSG00000202112	ENST00000365242	snRNA	KNOWN	None	47653	None	None	96611342	96611447	1	None	None
HG883_PATCH	None	ENSG00000265756	ENST00000581007	antisense	KNOWN	None	None	None	None	26688623	26689881	-1	None	None
HG883_PATCH	None	ENSG00000266062	ENST00000578338	antisense	KNOWN	None	None	None	None	26729129	26731068	1	None	None
15	None	ENSG00000230459	ENST00000421698	processed_pseudogene	KNOWN	None	None	None	None	77570807	77571116	1	None	None
15	None	ENSG00000230459	ENST00000449095	processed_pseudogene	KNOWN	None	None	None	None	77570807	77571079	1	None	None
HG883_PATCH	None	ENSG00000266234	ENST00000583616	antisense	KNOWN	None	None	None	None	26732259	26733815	1	None	None
3	RN7SKP234	ENSG00000252982	ENST00000517173	misc_RNA	KNOWN	None	45958	None	None	173775431	173775654	1	None	None
2	LONRF2	ENSG00000170500	ENST00000393437	protein_coding	KNOWN	CCDS2046	24788	2265	754	100889753	100939195	-1	None	FLJ45273, RNF192
2	LONRF2	ENSG00000170500	ENST00000409647	protein_coding	KNOWN	None	24788	1536	511	100900004	100925967	-1	None	FLJ45273, RNF192
1	None	ENSG00000270914	ENST00000603287	processed_pseudogene	KNOWN	None	None	None	None	12077273	12077365	-1	None	None
12	None	ENSG00000257580	ENST00000547032	processed_pseudogene	KNOWN	None	None	None	None	98711519	98712127	1	None	None
HG883_PATCH	H3F3BP2	ENSG00000266080	ENST00000583971	unprocessed_pseudogene	KNOWN	None	42979	None	None	26743941	26744511	1	None	None
HSCHR6_MHC_MANN	AGPAT1	ENSG00000227642	ENST00000414520	protein_coding	KNOWN	None	324	852	283	32175416	32180319	-1	None	LPAAT-alpha
HSCHR6_MHC_MANN	AGPAT1	ENSG00000227642	ENST00000414933	protein_coding	KNOWN	None	324	852	283	32175416	32183326	-1	None	LPAAT-alpha
HSCHR6_MHC_MANN	AGPAT1	ENSG00000227642	ENST00000444369	protein_coding	KNOWN	None	324	852	283	32175416	32184284	-1	None	LPAAT-alpha
HSCHR6_MHC_MANN	AGPAT1	ENSG00000227642	ENST00000456421	protein_coding	KNOWN	None	324	852	283	32175416	32184529	-1	None	LPAAT-alpha
HSCHR6_MHC_MANN	AGPAT1	ENSG00000227642	ENST00000488004	processed_transcript	KNOWN	None	324	None	None	32175416	32184546	-1	None	LPAAT-alpha
HSCHR6_MHC_MANN	AGPAT1	ENSG00000227642	ENST00000454929	protein_coding	KNOWN	None	324	852	283	32175416	32184990	-1	None	LPAAT-alpha
HSCHR6_MHC_MANN	AGPAT1	ENSG00000227642	ENST00000456679	protein_coding	KNOWN	None	324	852	283	32175416	32185300	-1	None	LPAAT-alpha
HSCHR6_MHC_MANN	AGPAT1	ENSG00000227642	ENST00000469628	processed_transcript	KNOWN	None	324	None	None	32177369	32183101	-1	None	LPAAT-alpha
8	None	ENSG00000223297	ENST00000411365	miRNA	NOVEL	None	None	None	None	96691066	96691143	-1	None	None
3	None	ENSG00000232601	ENST00000411665	processed_pseudogene	KNOWN	None	None	None	None	174020734	174021077	-1	None	None
8	None	ENSG00000254079	ENST00000523996	processed_pseudogene	KNOWN	None	None	None	None	96960009	96960461	-1	None	None
15	BNIP2	ENSG00000140299	ENST00000267859	protein_coding	KNOWN	CCDS10174	1083	1308	435	59951345	59981733	-1	None	Nip2, BNIP-2
15	BNIP2	ENSG00000140299	ENST00000478981	processed_transcript	KNOWN	None	1083	None	None	59955092	59961148	-1	None	Nip2, BNIP-2
15	BNIP2	ENSG00000140299	ENST00000607373	protein_coding	NOVEL	None	1083	945	314	59955565	59981479	-1	None	Nip2, BNIP-2
15	BNIP2	ENSG00000140299	ENST00000439052	protein_coding	PUTATIVE	None	1083	615	204	59955578	59970215	-1	None	Nip2, BNIP-2
15	BNIP2	ENSG00000140299	ENST00000415213	protein_coding	KNOWN	None	1083	1131	376	59955956	59981125	-1	None	Nip2, BNIP-2
15	BNIP2	ENSG00000140299	ENST00000560776	retained_intron	KNOWN	None	1083	None	None	59960954	59961561	-1	None	Nip2, BNIP-2
15	BNIP2	ENSG00000140299	ENST00000448414	nonsense_mediated_decay	KNOWN	None	1083	262	86	59961488	59972495	-1	None	Nip2, BNIP-2
15	BNIP2	ENSG00000140299	ENST00000464390	retained_intron	KNOWN	None	1083	None	None	59963380	59970839	-1	None	Nip2, BNIP-2
15	BNIP2	ENSG00000140299	ENST00000560458	retained_intron	KNOWN	None	1083	None	None	59970012	59981538	-1	None	Nip2, BNIP-2
15	BNIP2	ENSG00000140299	ENST00000417312	processed_transcript	KNOWN	None	1083	None	None	59970248	59981519	-1	None	Nip2, BNIP-2
15	BNIP2	ENSG00000140299	ENST00000557987	retained_intron	KNOWN	None	1083	None	None	59970771	59974701	-1	None	Nip2, BNIP-2
15	BNIP2	ENSG00000140299	ENST00000477543	retained_intron	KNOWN	None	1083	None	None	59971455	59981508	-1	None	Nip2, BNIP-2
17	None	ENSG00000264577	ENST00000582718	antisense	KNOWN	None	None	None	None	27048505	27049895	-1	None	None
16	None	ENSG00000261046	ENST00000563532	processed_pseudogene	KNOWN	None	None	None	None	34787280	34788372	1	None	None
5	DROSHA	ENSG00000113360	ENST00000511367	protein_coding	KNOWN	CCDS47195	17904	4125	1374	31400604	31532168	-1	RNASEN	RNASE3L, Etohi2, HSA242976, RN3
5	DROSHA	ENSG00000113360	ENST00000513349	protein_coding	NOVEL	CCDS47194	17904	4014	1337	31401241	31532216	-1	RNASEN	RNASE3L, Etohi2, HSA242976, RN3
5	DROSHA	ENSG00000113360	ENST00000514927	retained_intron	KNOWN	None	17904	None	None	31401254	31407063	-1	RNASEN	RNASE3L, Etohi2, HSA242976, RN3
5	DROSHA	ENSG00000113360	ENST00000511778	retained_intron	KNOWN	None	17904	None	None	31401519	31423428	-1	RNASEN	RNASE3L, Etohi2, HSA242976, RN3
5	DROSHA	ENSG00000113360	ENST00000512166	retained_intron	KNOWN	None	17904	None	None	31401658	31407157	-1	RNASEN	RNASE3L, Etohi2, HSA242976, RN3
5	DROSHA	ENSG00000113360	ENST00000509067	retained_intron	KNOWN	None	17904	None	None	31408843	31409658	-1	RNASEN	RNASE3L, Etohi2, HSA242976, RN3
5	DROSHA	ENSG00000113360	ENST00000504133	retained_intron	KNOWN	None	17904	None	None	31421431	31437431	-1	RNASEN	RNASE3L, Etohi2, HSA242976, RN3
5	DROSHA	ENSG00000113360	ENST00000510178	processed_transcript	KNOWN	None	17904	None	None	31421858	31429640	-1	RNASEN	RNASE3L, Etohi2, HSA242976, RN3
5	DROSHA	ENSG00000113360	ENST00000505601	processed_transcript	KNOWN	None	17904	None	None	31449384	31468113	-1	RNASEN	RNASE3L, Etohi2, HSA242976, RN3
5	DROSHA	ENSG00000113360	ENST00000507174	retained_intron	KNOWN	None	17904	None	None	31449476	31466593	-1	RNASEN	RNASE3L, Etohi2, HSA242976, RN3
5	DROSHA	ENSG00000113360	ENST00000509608	retained_intron	KNOWN	None	17904	None	None	31464195	31468098	-1	RNASEN	RNASE3L, Etohi2, HSA242976, RN3
5	DROSHA	ENSG00000113360	ENST00000512124	processed_transcript	KNOWN	None	17904	None	None	31467566	31485018	-1	RNASEN	RNASE3L, Etohi2, HSA242976, RN3
5	DROSHA	ENSG00000113360	ENST00000511803	retained_intron	KNOWN	None	17904	None	None	31467625	31472340	-1	RNASEN	RNASE3L, Etohi2, HSA242976, RN3
5	DROSHA	ENSG00000113360	ENST00000510375	processed_transcript	KNOWN	None	17904	None	None	31468052	31486840	-1	RNASEN	RNASE3L, Etohi2, HSA242976, RN3
5	DROSHA	ENSG00000113360	ENST00000512885	processed_transcript	KNOWN	None	17904	None	None	31472234	31489190	-1	RNASEN	RNASE3L, Etohi2, HSA242976, RN3
5	DROSHA	ENSG00000113360	ENST00000512076	protein_coding	PUTATIVE	None	17904	1124	373	31493316	31526527	-1	RNASEN	RNASE3L, Etohi2, HSA242976, RN3
5	DROSHA	ENSG00000113360	ENST00000512302	protein_coding	PUTATIVE	None	17904	585	194	31515101	31526433	-1	RNASEN	RNASE3L, Etohi2, HSA242976, RN3
5	DROSHA	ENSG00000113360	ENST00000507438	protein_coding	KNOWN	None	17904	604	200	31526436	31532303	-1	RNASEN	RNASE3L, Etohi2, HSA242976, RN3
5	DROSHA	ENSG00000113360	ENST00000504361	processed_transcript	KNOWN	None	17904	None	None	31526862	31532181	-1	RNASEN	RNASE3L, Etohi2, HSA242976, RN3
5	DROSHA	ENSG00000113360	ENST00000344624	protein_coding	KNOWN	CCDS47195	17904	4125	1374	31400609	31529213	-1	RNASEN	RNASE3L, Etohi2, HSA242976, RN3
5	DROSHA	ENSG00000113360	ENST00000442743	protein_coding	KNOWN	CCDS47194	17904	4014	1337	31400609	31529213	-1	RNASEN	RNASE3L, Etohi2, HSA242976, RN3
12	RNU4-41P	ENSG00000201296	ENST00000364426	snRNA	KNOWN	None	46977	None	None	98811674	98811816	-1	None	None
HG1304_PATCH	None	ENSG00000266823	ENST00000582936	antisense	KNOWN	None	None	None	None	112475967	112479534	1	None	None
HG1304_PATCH	None	ENSG00000266823	ENST00000592963	antisense	KNOWN	None	None	None	None	112475989	112487670	1	None	None
HG1304_PATCH	None	ENSG00000266823	ENST00000586179	antisense	KNOWN	None	None	None	None	112475993	112476934	1	None	None
1	None	ENSG00000202461	ENST00000365591	misc_RNA	NOVEL	None	None	None	None	12084069	12084181	-1	None	None
17	SNORD4A	ENSG00000238578	ENST00000459174	snoRNA	KNOWN	None	10097	None	None	27049600	27049671	1	RNU101A	Z17A, mgh18S-121
3	None	ENSG00000213169	ENST00000435269	processed_pseudogene	KNOWN	None	None	None	None	174095034	174095795	1	None	None
16	None	ENSG00000260134	ENST00000568105	processed_pseudogene	KNOWN	None	None	None	None	34809205	34809865	1	None	None
3	PARL	ENSG00000175193	ENST00000317096	protein_coding	KNOWN	CCDS3248	18253	1140	379	183547173	183602695	-1	PSARL	PRO2207, PSARL1, RHBDS1
3	PARL	ENSG00000175193	ENST00000418450	protein_coding	NOVEL	None	18253	338	111	183547178	183560142	-1	PSARL	PRO2207, PSARL1, RHBDS1
3	PARL	ENSG00000175193	ENST00000450375	protein_coding	PUTATIVE	None	18253	192	63	183547178	183560182	-1	PSARL	PRO2207, PSARL1, RHBDS1
3	PARL	ENSG00000175193	ENST00000417784	protein_coding	NOVEL	None	18253	514	170	183547178	183562062	-1	PSARL	PRO2207, PSARL1, RHBDS1
3	PARL	ENSG00000175193	ENST00000311101	protein_coding	KNOWN	CCDS33897	18253	990	329	183547178	183602676	-1	PSARL	PRO2207, PSARL1, RHBDS1
3	PARL	ENSG00000175193	ENST00000435888	protein_coding	NOVEL	None	18253	888	295	183547185	183602643	-1	PSARL	PRO2207, PSARL1, RHBDS1
3	PARL	ENSG00000175193	ENST00000421484	nonsense_mediated_decay	KNOWN	None	18253	522	173	183547297	183602696	-1	PSARL	PRO2207, PSARL1, RHBDS1
3	PARL	ENSG00000175193	ENST00000449306	protein_coding	NOVEL	None	18253	476	157	183551556	183602515	-1	PSARL	PRO2207, PSARL1, RHBDS1
3	PARL	ENSG00000175193	ENST00000488202	retained_intron	KNOWN	None	18253	None	None	183558358	183562562	-1	PSARL	PRO2207, PSARL1, RHBDS1
3	PARL	ENSG00000175193	ENST00000469056	retained_intron	KNOWN	None	18253	None	None	183580395	183602721	-1	PSARL	PRO2207, PSARL1, RHBDS1
7	TMEM106B	ENSG00000106460	ENST00000396668	protein_coding	KNOWN	CCDS5358	22407	825	274	12250867	12272715	1	None	MGC33727, FLJ11273
7	TMEM106B	ENSG00000106460	ENST00000420833	nonsense_mediated_decay	KNOWN	None	22407	315	104	12250896	12270565	1	None	MGC33727, FLJ11273
7	TMEM106B	ENSG00000106460	ENST00000444443	protein_coding	KNOWN	None	22407	330	109	12250922	12263900	1	None	MGC33727, FLJ11273
7	TMEM106B	ENSG00000106460	ENST00000396667	protein_coding	KNOWN	CCDS5358	22407	825	274	12250926	12276886	1	None	MGC33727, FLJ11273
7	TMEM106B	ENSG00000106460	ENST00000453686	nonsense_mediated_decay	KNOWN	None	22407	315	104	12250935	12255333	1	None	MGC33727, FLJ11273
7	TMEM106B	ENSG00000106460	ENST00000442107	protein_coding	KNOWN	None	22407	75	24	12250949	12254511	1	None	MGC33727, FLJ11273
7	TMEM106B	ENSG00000106460	ENST00000492762	retained_intron	KNOWN	None	22407	None	None	12269374	12271155	1	None	MGC33727, FLJ11273
7	TMEM106B	ENSG00000106460	ENST00000462754	retained_intron	KNOWN	None	22407	None	None	12269984	12272026	1	None	MGC33727, FLJ11273
17	VAT1	ENSG00000108828	ENST00000355653	protein_coding	KNOWN	CCDS11451	16919	1182	393	41166622	41174435	-1	None	VATI, FLJ20230
17	VAT1	ENSG00000108828	ENST00000592388	nonsense_mediated_decay	KNOWN	None	16919	91	29	41166624	41168330	-1	None	VATI, FLJ20230
17	VAT1	ENSG00000108828	ENST00000587173	protein_coding	KNOWN	None	16919	978	325	41167916	41174373	-1	None	VATI, FLJ20230
17	VAT1	ENSG00000108828	ENST00000420567	protein_coding	PUTATIVE	None	16919	780	259	41167935	41172290	-1	None	VATI, FLJ20230
17	VAT1	ENSG00000108828	ENST00000587147	protein_coding	PUTATIVE	None	16919	378	125	41168084	41170062	-1	None	VATI, FLJ20230
17	VAT1	ENSG00000108828	ENST00000590924	protein_coding	PUTATIVE	None	16919	463	153	41169849	41177140	-1	None	VATI, FLJ20230
17	VAT1	ENSG00000108828	ENST00000589709	protein_coding	PUTATIVE	None	16919	453	150	41169859	41171572	-1	None	VATI, FLJ20230
17	VAT1	ENSG00000108828	ENST00000589828	protein_coding	PUTATIVE	None	16919	278	91	41170139	41171044	-1	None	VATI, FLJ20230
17	VAT1	ENSG00000108828	ENST00000587062	protein_coding	KNOWN	None	16919	438	145	41170766	41177139	-1	None	VATI, FLJ20230
17	SNORD42A	ENSG00000238649	ENST00000459584	snoRNA	KNOWN	None	10180	None	None	27050447	27050510	1	RNU42A	U42
20	SNTA1	ENSG00000101400	ENST00000217381	protein_coding	KNOWN	CCDS13220	11167	1518	505	31995761	32031698	-1	SNT1	TACIP1, LQT12
17	SNORD4B	ENSG00000238597	ENST00000459083	snoRNA	KNOWN	None	10098	None	None	27050700	27050771	1	RNU101B	Z17B
12	SLC9A7P1	ENSG00000227825	ENST00000554295	processed_transcript	PUTATIVE	None	32679	None	None	98847613	98850923	-1	None	None
12	SLC9A7P1	ENSG00000227825	ENST00000556476	transcribed_processed_pseudogene	KNOWN	None	32679	None	None	98848655	98850893	-1	None	None
12	SLC9A7P1	ENSG00000227825	ENST00000370696	processed_pseudogene	KNOWN	None	32679	None	None	98848402	98850923	-1	None	None
17	None	ENSG00000267729	ENST00000587898	antisense	KNOWN	None	None	None	None	27054276	27054757	1	None	None
16	None	ENSG00000260746	ENST00000567585	unprocessed_pseudogene	KNOWN	None	None	None	None	34872994	34879551	-1	None	None
HG883_PATCH	None	ENSG00000265447	ENST00000584295	unprocessed_pseudogene	KNOWN	None	None	None	None	26771082	26772582	-1	None	None
11	SLC22A18	ENSG00000110628	ENST00000347936	protein_coding	KNOWN	CCDS7740	10964	1275	424	2920951	2946476	1	ORCTL2, BWSCR1A, IMPT1, SLC22A1L	BWR1A, TSSC5, ITM
11	SLC22A18	ENSG00000110628	ENST00000312221	protein_coding	KNOWN	CCDS7740	10964	1275	424	2923423	2946476	1	ORCTL2, BWSCR1A, IMPT1, SLC22A1L	BWR1A, TSSC5, ITM
11	SLC22A18	ENSG00000110628	ENST00000449793	protein_coding	NOVEL	None	10964	981	326	2923513	2946457	1	ORCTL2, BWSCR1A, IMPT1, SLC22A1L	BWR1A, TSSC5, ITM
11	SLC22A18	ENSG00000110628	ENST00000380574	protein_coding	KNOWN	CCDS7740	10964	1275	424	2923650	2946476	1	ORCTL2, BWSCR1A, IMPT1, SLC22A1L	BWR1A, TSSC5, ITM
11	SLC22A18	ENSG00000110628	ENST00000485423	protein_coding	KNOWN	None	10964	403	133	2924344	2930586	1	ORCTL2, BWSCR1A, IMPT1, SLC22A1L	BWR1A, TSSC5, ITM
11	SLC22A18	ENSG00000110628	ENST00000492567	processed_transcript	KNOWN	None	10964	None	None	2924606	2937616	1	ORCTL2, BWSCR1A, IMPT1, SLC22A1L	BWR1A, TSSC5, ITM
11	SLC22A18	ENSG00000110628	ENST00000498244	retained_intron	KNOWN	None	10964	None	None	2930503	2931048	1	ORCTL2, BWSCR1A, IMPT1, SLC22A1L	BWR1A, TSSC5, ITM
11	SLC22A18	ENSG00000110628	ENST00000467719	retained_intron	KNOWN	None	10964	None	None	2937376	2942468	1	ORCTL2, BWSCR1A, IMPT1, SLC22A1L	BWR1A, TSSC5, ITM
11	SLC22A18	ENSG00000110628	ENST00000463571	retained_intron	KNOWN	None	10964	None	None	2937466	2946332	1	ORCTL2, BWSCR1A, IMPT1, SLC22A1L	BWR1A, TSSC5, ITM
11	SLC22A18	ENSG00000110628	ENST00000498209	processed_transcript	KNOWN	None	10964	None	None	2937873	2943056	1	ORCTL2, BWSCR1A, IMPT1, SLC22A1L	BWR1A, TSSC5, ITM
11	SLC22A18	ENSG00000110628	ENST00000441077	processed_transcript	KNOWN	None	10964	None	None	2937912	2946476	1	ORCTL2, BWSCR1A, IMPT1, SLC22A1L	BWR1A, TSSC5, ITM
11	SLC22A18	ENSG00000110628	ENST00000449603	processed_transcript	KNOWN	None	10964	None	None	2938178	2946413	1	ORCTL2, BWSCR1A, IMPT1, SLC22A1L	BWR1A, TSSC5, ITM
11	SLC22A18	ENSG00000110628	ENST00000495518	retained_intron	KNOWN	None	10964	None	None	2943198	2946470	1	ORCTL2, BWSCR1A, IMPT1, SLC22A1L	BWR1A, TSSC5, ITM
1	RN7SL649P	ENSG00000243539	ENST00000496974	misc_RNA	KNOWN	None	46665	None	None	12096799	12097071	-1	None	None
12	RSRC2	ENSG00000111011	ENST00000331738	protein_coding	KNOWN	CCDS31920	30559	1305	434	122989190	123011546	-1	None	FLJ11021
12	RSRC2	ENSG00000111011	ENST00000433877	nonsense_mediated_decay	KNOWN	None	30559	231	76	122989606	123011483	-1	None	FLJ11021
12	RSRC2	ENSG00000111011	ENST00000532695	nonsense_mediated_decay	KNOWN	None	30559	231	76	122989606	123011547	-1	None	FLJ11021
12	RSRC2	ENSG00000111011	ENST00000527173	retained_intron	KNOWN	None	30559	None	None	122989853	123008303	-1	None	FLJ11021
12	RSRC2	ENSG00000111011	ENST00000392442	processed_transcript	KNOWN	None	30559	None	None	122989877	122998464	-1	None	FLJ11021
12	RSRC2	ENSG00000111011	ENST00000525332	processed_transcript	PUTATIVE	None	30559	None	None	122989927	122992953	-1	None	FLJ11021
12	RSRC2	ENSG00000111011	ENST00000531389	retained_intron	KNOWN	None	30559	None	None	122990919	122992913	-1	None	FLJ11021
12	RSRC2	ENSG00000111011	ENST00000525335	retained_intron	KNOWN	None	30559	None	None	122992797	123011496	-1	None	FLJ11021
12	RSRC2	ENSG00000111011	ENST00000344591	protein_coding	PUTATIVE	None	30559	709	235	122992914	123011507	-1	None	FLJ11021
12	RSRC2	ENSG00000111011	ENST00000528263	nonsense_mediated_decay	KNOWN	None	30559	530	175	122992925	123003575	-1	None	FLJ11021
12	RSRC2	ENSG00000111011	ENST00000527399	nonsense_mediated_decay	KNOWN	None	30559	231	76	122995658	123011542	-1	None	FLJ11021
12	RSRC2	ENSG00000111011	ENST00000524399	retained_intron	KNOWN	None	30559	None	None	122999320	123001943	-1	None	FLJ11021
12	RSRC2	ENSG00000111011	ENST00000527796	retained_intron	KNOWN	None	30559	None	None	122999710	123011534	-1	None	FLJ11021
12	RSRC2	ENSG00000111011	ENST00000526560	protein_coding	PUTATIVE	None	30559	274	90	123001783	123011509	-1	None	FLJ11021
12	RSRC2	ENSG00000111011	ENST00000527461	processed_transcript	KNOWN	None	30559	None	None	123003387	123011506	-1	None	FLJ11021
12	RSRC2	ENSG00000111011	ENST00000531639	retained_intron	KNOWN	None	30559	None	None	123003477	123006989	-1	None	FLJ11021
12	RSRC2	ENSG00000111011	ENST00000532186	processed_transcript	KNOWN	None	30559	None	None	123003990	123006838	-1	None	FLJ11021
12	RSRC2	ENSG00000111011	ENST00000525387	retained_intron	KNOWN	None	30559	None	None	123004457	123011501	-1	None	FLJ11021
12	RSRC2	ENSG00000111011	ENST00000528279	protein_coding	PUTATIVE	None	30559	77	24	123005093	123011487	-1	None	FLJ11021
12	RSRC2	ENSG00000111011	ENST00000525570	retained_intron	KNOWN	None	30559	None	None	123005525	123011496	-1	None	FLJ11021
12	RSRC2	ENSG00000111011	ENST00000354654	protein_coding	KNOWN	None	30559	1161	386	122989273	123011546	-1	None	FLJ11021
5	MIR5197	ENSG00000266478	ENST00000583721	miRNA	KNOWN	None	43450	None	None	143059425	143059536	1	None	hsa-mir-5197
17	None	ENSG00000265073	ENST00000584779	antisense	KNOWN	None	None	None	None	27059981	27069783	-1	None	None
17	None	ENSG00000265073	ENST00000582536	antisense	KNOWN	None	None	None	None	27069248	27070120	-1	None	None
3	CPB1	ENSG00000153002	ENST00000491148	protein_coding	KNOWN	CCDS33874	2299	1254	417	148508889	148577974	1	None	None
3	CPB1	ENSG00000153002	ENST00000494888	protein_coding	KNOWN	None	2299	178	58	148523447	148552315	1	None	None
3	CPB1	ENSG00000153002	ENST00000462345	protein_coding	KNOWN	None	2299	298	98	148528463	148558498	1	None	None
3	CPB1	ENSG00000153002	ENST00000468341	protein_coding	NOVEL	None	2299	610	202	148545607	148562488	1	None	None
3	CPB1	ENSG00000153002	ENST00000465718	retained_intron	KNOWN	None	2299	None	None	148545711	148559622	1	None	None
3	CPB1	ENSG00000153002	ENST00000484877	processed_transcript	KNOWN	None	2299	None	None	148555962	148562283	1	None	None
3	CPB1	ENSG00000153002	ENST00000473621	retained_intron	KNOWN	None	2299	None	None	148572128	148577974	1	None	None
3	CPB1	ENSG00000153002	ENST00000498639	processed_transcript	PUTATIVE	None	2299	None	None	148574230	148577974	1	None	None
3	CPB1	ENSG00000153002	ENST00000476847	processed_transcript	PUTATIVE	None	2299	None	None	148575314	148577970	1	None	None
3	CPB1	ENSG00000153002	ENST00000282957	protein_coding	KNOWN	CCDS33874	2299	1254	417	148545588	148577970	1	None	None
5	None	ENSG00000225869	ENST00000502593	processed_pseudogene	KNOWN	None	None	None	None	143131655	143132269	-1	None	None
9	KLF4	ENSG00000136826	ENST00000497048	retained_intron	KNOWN	None	6348	None	None	110247133	110250728	-1	None	EZF, GKLF
9	KLF4	ENSG00000136826	ENST00000493306	retained_intron	KNOWN	None	6348	None	None	110247133	110251718	-1	None	EZF, GKLF
9	KLF4	ENSG00000136826	ENST00000374672	protein_coding	KNOWN	CCDS6770	6348	1440	479	110247133	110251927	-1	None	EZF, GKLF
9	KLF4	ENSG00000136826	ENST00000411706	protein_coding	PUTATIVE	None	6348	698	231	110249950	110251411	-1	None	EZF, GKLF
9	KLF4	ENSG00000136826	ENST00000420475	protein_coding	KNOWN	None	6348	67	21	110251270	110252763	-1	None	EZF, GKLF
2	CCDC93	ENSG00000125633	ENST00000376300	protein_coding	KNOWN	CCDS2121	25611	1896	631	118673054	118771709	-1	None	FLJ10996
2	CCDC93	ENSG00000125633	ENST00000319432	protein_coding	NOVEL	None	25611	1893	630	118673054	118771709	-1	None	FLJ10996
2	CCDC93	ENSG00000125633	ENST00000437999	nonsense_mediated_decay	KNOWN	None	25611	276	91	118677881	118705755	-1	None	FLJ10996
2	CCDC93	ENSG00000125633	ENST00000474546	retained_intron	KNOWN	None	25611	None	None	118688619	118693414	-1	None	FLJ10996
2	CCDC93	ENSG00000125633	ENST00000470650	retained_intron	KNOWN	None	25611	None	None	118693074	118694477	-1	None	FLJ10996
2	CCDC93	ENSG00000125633	ENST00000466171	retained_intron	KNOWN	None	25611	None	None	118694088	118701656	-1	None	FLJ10996
2	CCDC93	ENSG00000125633	ENST00000488908	retained_intron	KNOWN	None	25611	None	None	118705609	118709988	-1	None	FLJ10996
2	CCDC93	ENSG00000125633	ENST00000460781	processed_transcript	KNOWN	None	25611	None	None	118709065	118753865	-1	None	FLJ10996
2	CCDC93	ENSG00000125633	ENST00000474006	retained_intron	KNOWN	None	25611	None	None	118753028	118758713	-1	None	FLJ10996
10	None	ENSG00000262412	ENST00000574842	lincRNA	KNOWN	None	None	None	None	27532059	27539733	1	None	None
3	RN7SKP40	ENSG00000253020	ENST00000517211	misc_RNA	KNOWN	None	45764	None	None	174349613	174349892	1	None	None
HG883_PATCH	RPS7P1	ENSG00000263266	ENST00000571702	processed_pseudogene	KNOWN	None	17081	None	None	26794841	26795425	1	None	None
17	None	ENSG00000265474	ENST00000577325	antisense	KNOWN	None	None	None	None	27072587	27074670	-1	None	None
3	None	ENSG00000230497	ENST00000414101	processed_pseudogene	KNOWN	None	None	None	None	174777151	174777821	-1	None	None
5	RN7SL87P	ENSG00000239390	ENST00000497657	misc_RNA	KNOWN	None	46103	None	None	143520444	143520729	1	None	None
17	None	ENSG00000265840	ENST00000579468	antisense	KNOWN	None	None	None	None	27076749	27077097	-1	None	None
9	ANKRD18CP	ENSG00000159712	ENST00000354752	unprocessed_pseudogene	KNOWN	None	43601	None	None	99918852	99983517	-1	None	None
1	RNU6-777P	ENSG00000201135	ENST00000364265	snRNA	KNOWN	None	47740	None	None	12137938	12138041	-1	None	None
HG1304_PATCH	None	ENSG00000271233	ENST00000605658	lincRNA	KNOWN	None	None	None	None	112538842	112540772	-1	None	None
18	KCTD1	ENSG00000134504	ENST00000579973	protein_coding	KNOWN	CCDS11888	18249	774	257	24034874	24220308	-1	C18orf5	None
18	KCTD1	ENSG00000134504	ENST00000408011	protein_coding	KNOWN	CCDS11888	18249	774	257	24034938	24129399	-1	C18orf5	None
18	KCTD1	ENSG00000134504	ENST00000580059	protein_coding	KNOWN	CCDS11888	18249	774	257	24035462	24127082	-1	C18orf5	None
18	KCTD1	ENSG00000134504	ENST00000577255	retained_intron	KNOWN	None	18249	None	None	24035677	24056855	-1	C18orf5	None
18	KCTD1	ENSG00000134504	ENST00000580191	protein_coding	PUTATIVE	None	18249	781	259	24035724	24237365	-1	C18orf5	None
18	KCTD1	ENSG00000134504	ENST00000582494	processed_transcript	KNOWN	None	18249	None	None	24035734	24040840	-1	C18orf5	None
18	KCTD1	ENSG00000134504	ENST00000580638	protein_coding	KNOWN	None	18249	625	207	24035856	24129783	-1	C18orf5	None
18	KCTD1	ENSG00000134504	ENST00000578973	protein_coding	PUTATIVE	None	18249	301	99	24039753	24126963	-1	C18orf5	None
18	KCTD1	ENSG00000134504	ENST00000584630	processed_transcript	KNOWN	None	18249	None	None	24161126	24237358	-1	C18orf5	None
18	KCTD1	ENSG00000134504	ENST00000417602	protein_coding	KNOWN	None	18249	2598	865	24034877	24128500	-1	C18orf5	None
18	KCTD1	ENSG00000134504	ENST00000317932	protein_coding	KNOWN	CCDS11888	18249	774	257	24034877	24209206	-1	C18orf5	None
5	None	ENSG00000249605	ENST00000505261	sense_intronic	KNOWN	None	None	None	None	143748897	143764873	1	None	None
17	RPL31P58	ENSG00000243053	ENST00000469001	processed_pseudogene	KNOWN	None	35862	None	None	27129462	27129840	1	None	None
HG1304_PATCH	None	ENSG00000270663	ENST00000578750	lincRNA	KNOWN	None	None	None	None	112555367	112555960	-1	None	None
10	LRRC37A6P	ENSG00000230445	ENST00000448648	transcribed_processed_pseudogene	KNOWN	None	33746	None	None	27535279	27540722	-1	None	None
10	LRRC37A6P	ENSG00000230445	ENST00000284414	processed_transcript	KNOWN	None	33746	None	None	27536230	27539491	-1	None	None
10	LRRC37A6P	ENSG00000230445	ENST00000575554	processed_transcript	KNOWN	None	33746	None	None	27539927	27548384	-1	None	None
10	LRRC37A6P	ENSG00000230445	ENST00000574795	processed_transcript	KNOWN	None	33746	None	None	27540033	27540724	-1	None	None
3	NAALADL2-AS3	ENSG00000230292	ENST00000453180	antisense	KNOWN	None	41014	None	None	174797097	174833032	-1	None	None
3	NAALADL2-AS3	ENSG00000230292	ENST00000436929	retained_intron	KNOWN	None	41014	None	None	174797102	174830390	-1	None	None
5	CKS1BP5	ENSG00000250972	ENST00000434172	processed_pseudogene	KNOWN	None	17640	None	None	143818769	143819041	1	None	None
17	None	ENSG00000238516	ENST00000459041	misc_RNA	NOVEL	None	None	None	None	27161740	27161840	1	None	None
1	None	ENSG00000227875	ENST00000439324	processed_pseudogene	KNOWN	None	None	None	None	12140350	12140604	-1	None	None
17	None	ENSG00000264138	ENST00000582737	unprocessed_pseudogene	KNOWN	None	None	None	None	27175878	27176610	1	None	None
5	None	ENSG00000259787	ENST00000566630	sense_overlapping	KNOWN	None	None	None	None	143861871	143865249	1	None	None
9	RNU6-798P	ENSG00000252721	ENST00000516912	snRNA	KNOWN	None	47761	None	None	99955205	99955307	-1	None	None
3	CCDC54	ENSG00000138483	ENST00000261058	protein_coding	KNOWN	CCDS2949	30703	987	328	107096188	107097481	1	None	NYD-SP17, FLJ25362, SP17
6	GJA10	ENSG00000135355	ENST00000369352	protein_coding	KNOWN	CCDS5025	16995	1632	543	90604188	90605839	1	None	CX62
9	None	ENSG00000242375	ENST00000416066	lincRNA	KNOWN	None	None	None	None	99957633	99959969	-1	None	None
5	None	ENSG00000248127	ENST00000503652	lincRNA	KNOWN	None	None	None	None	75377771	75380011	-1	None	None
6	PI16	ENSG00000164530	ENST00000373674	protein_coding	KNOWN	CCDS34440	21245	1392	463	36922209	36932613	1	None	MGC45378, dJ90K10.5, MSMBBP
6	PI16	ENSG00000164530	ENST00000491324	processed_transcript	KNOWN	None	21245	None	None	36930766	36932443	1	None	MGC45378, dJ90K10.5, MSMBBP
12	TMPO-AS1	ENSG00000257167	ENST00000548760	antisense	KNOWN	None	44158	None	None	98906751	98910200	-1	None	None
12	TMPO-AS1	ENSG00000257167	ENST00000546421	antisense	KNOWN	None	44158	None	None	98909072	98909988	-1	None	None
3	SCHIP1	ENSG00000151967	ENST00000445224	protein_coding	KNOWN	CCDS56294	15678	735	244	159557650	159615149	1	None	SCHIP-1
3	SCHIP1	ENSG00000151967	ENST00000461058	retained_intron	KNOWN	None	15678	None	None	159557727	159604165	1	None	SCHIP-1
3	SCHIP1	ENSG00000151967	ENST00000495954	nonsense_mediated_decay	KNOWN	None	15678	159	52	159557729	159615023	1	None	SCHIP-1
3	SCHIP1	ENSG00000151967	ENST00000483730	processed_transcript	PUTATIVE	None	15678	None	None	159557849	159563841	1	None	SCHIP-1
3	SCHIP1	ENSG00000151967	ENST00000472483	retained_intron	KNOWN	None	15678	None	None	159557888	159605908	1	None	SCHIP-1
3	SCHIP1	ENSG00000151967	ENST00000482804	protein_coding	PUTATIVE	None	15678	783	260	159570728	159615138	1	None	SCHIP-1
3	SCHIP1	ENSG00000151967	ENST00000482885	retained_intron	KNOWN	None	15678	None	None	159570781	159612512	1	None	SCHIP-1
3	SCHIP1	ENSG00000151967	ENST00000475932	retained_intron	KNOWN	None	15678	None	None	159606581	159609946	1	None	SCHIP-1
17	MIR144	ENSG00000264066	ENST00000582320	lincRNA	KNOWN	None	31531	None	None	27188090	27188984	-1	MIRN144	hsa-mir-144
17	MIR144	ENSG00000264066	ENST00000385059	miRNA	KNOWN	None	31531	None	None	27188387	27188458	-1	MIRN144	hsa-mir-144
17	MIR144	ENSG00000264066	ENST00000384886	miRNA	KNOWN	None	31531	None	None	27188551	27188636	-1	MIRN144	hsa-mir-144
17	MIR144	ENSG00000264066	ENST00000581873	miRNA	KNOWN	None	31531	None	None	27188673	27188748	-1	MIRN144	hsa-mir-144
17	MIR451A	ENSG00000264066	ENST00000582320	lincRNA	KNOWN	None	32053	None	None	27188090	27188984	-1	MIRN451, MIR451	hsa-mir-451
17	MIR451A	ENSG00000264066	ENST00000385059	miRNA	KNOWN	None	32053	None	None	27188387	27188458	-1	MIRN451, MIR451	hsa-mir-451
17	MIR451A	ENSG00000264066	ENST00000384886	miRNA	KNOWN	None	32053	None	None	27188551	27188636	-1	MIRN451, MIR451	hsa-mir-451
17	MIR451A	ENSG00000264066	ENST00000581873	miRNA	KNOWN	None	32053	None	None	27188673	27188748	-1	MIRN451, MIR451	hsa-mir-451
17	MIR4732	ENSG00000264066	ENST00000582320	lincRNA	KNOWN	None	41639	None	None	27188090	27188984	-1	None	hsa-mir-4732
17	MIR4732	ENSG00000264066	ENST00000385059	miRNA	KNOWN	None	41639	None	None	27188387	27188458	-1	None	hsa-mir-4732
17	MIR4732	ENSG00000264066	ENST00000384886	miRNA	KNOWN	None	41639	None	None	27188551	27188636	-1	None	hsa-mir-4732
17	MIR4732	ENSG00000264066	ENST00000581873	miRNA	KNOWN	None	41639	None	None	27188673	27188748	-1	None	hsa-mir-4732
17	MIR451B	ENSG00000264066	ENST00000582320	lincRNA	KNOWN	None	41655	None	None	27188090	27188984	-1	None	hsa-mir-451b
17	MIR451B	ENSG00000264066	ENST00000385059	miRNA	KNOWN	None	41655	None	None	27188387	27188458	-1	None	hsa-mir-451b
17	MIR451B	ENSG00000264066	ENST00000384886	miRNA	KNOWN	None	41655	None	None	27188551	27188636	-1	None	hsa-mir-451b
17	MIR451B	ENSG00000264066	ENST00000581873	miRNA	KNOWN	None	41655	None	None	27188673	27188748	-1	None	hsa-mir-451b
5	RNA5SP186	ENSG00000252833	ENST00000517024	rRNA	KNOWN	None	43086	None	None	75387533	75387626	-1	RN5S186	None
HSCHR6_MHC_MANN	C6orf100	ENSG00000231041	ENST00000421470	protein_coding	KNOWN	None	21195	189	62	28911662	28912322	1	None	dJ25J6.5
X	MAGED1	ENSG00000179222	ENST00000375772	protein_coding	KNOWN	CCDS14337	6813	2337	778	51546103	51645450	1	None	NRAGE, DLXIN-1
X	MAGED1	ENSG00000179222	ENST00000375722	protein_coding	KNOWN	CCDS14337	6813	2337	778	51636629	51645450	1	None	NRAGE, DLXIN-1
X	MAGED1	ENSG00000179222	ENST00000326587	protein_coding	KNOWN	CCDS14337	6813	2337	778	51636698	51645453	1	None	NRAGE, DLXIN-1
X	MAGED1	ENSG00000179222	ENST00000375695	protein_coding	KNOWN	CCDS35279	6813	2505	834	51636735	51645450	1	None	NRAGE, DLXIN-1
X	MAGED1	ENSG00000179222	ENST00000486579	processed_transcript	KNOWN	None	6813	None	None	51636736	51644656	1	None	NRAGE, DLXIN-1
X	MAGED1	ENSG00000179222	ENST00000470461	processed_transcript	KNOWN	None	6813	None	None	51636742	51638848	1	None	NRAGE, DLXIN-1
X	MAGED1	ENSG00000179222	ENST00000494718	processed_transcript	KNOWN	None	6813	None	None	51636745	51645450	1	None	NRAGE, DLXIN-1
X	MAGED1	ENSG00000179222	ENST00000485420	processed_transcript	KNOWN	None	6813	None	None	51636754	51645448	1	None	NRAGE, DLXIN-1
X	MAGED1	ENSG00000179222	ENST00000482188	processed_transcript	KNOWN	None	6813	None	None	51637665	51638798	1	None	NRAGE, DLXIN-1
X	MAGED1	ENSG00000179222	ENST00000482599	processed_transcript	KNOWN	None	6813	None	None	51638752	51639570	1	None	NRAGE, DLXIN-1
X	MAGED1	ENSG00000179222	ENST00000473931	processed_transcript	KNOWN	None	6813	None	None	51641707	51645450	1	None	NRAGE, DLXIN-1
5	None	ENSG00000213488	ENST00000511084	processed_pseudogene	KNOWN	None	None	None	None	143901703	143902551	1	None	None
5	None	ENSG00000251668	ENST00000507884	processed_pseudogene	KNOWN	None	None	None	None	75466755	75466928	1	None	None
HSCHR6_MHC_COX	None	ENSG00000258160	ENST00000548090	protein_coding	NOVEL	None	None	24	7	32618752	32622508	-1	None	None
HSCHR6_MHC_DBB	ABCF1	ENSG00000232169	ENST00000419893	protein_coding	KNOWN	None	70	2538	845	30529391	30549446	1	ABC50	EST123147
HSCHR6_MHC_DBB	ABCF1	ENSG00000232169	ENST00000448939	protein_coding	KNOWN	None	70	2424	807	30529408	30549446	1	ABC50	EST123147
HSCHR6_MHC_DBB	ABCF1	ENSG00000232169	ENST00000429395	protein_coding	KNOWN	None	70	1019	338	30529448	30541729	1	ABC50	EST123147
HSCHR6_MHC_DBB	ABCF1	ENSG00000232169	ENST00000460247	processed_transcript	KNOWN	None	70	None	None	30529457	30538467	1	ABC50	EST123147
HSCHR6_MHC_DBB	ABCF1	ENSG00000232169	ENST00000457970	protein_coding	KNOWN	None	70	717	238	30529467	30549446	1	ABC50	EST123147
HSCHR6_MHC_DBB	ABCF1	ENSG00000232169	ENST00000475528	processed_transcript	KNOWN	None	70	None	None	30540486	30555197	1	ABC50	EST123147
HSCHR6_MHC_DBB	ABCF1	ENSG00000232169	ENST00000479321	retained_intron	KNOWN	None	70	None	None	30547443	30548758	1	ABC50	EST123147
16	None	ENSG00000261476	ENST00000563554	sense_intronic	KNOWN	None	None	None	None	75492150	75493915	-1	None	None
5	None	ENSG00000254893	ENST00000506621	processed_pseudogene	KNOWN	None	None	None	None	75469457	75470008	-1	None	None
5	None	ENSG00000254893	ENST00000527880	processed_pseudogene	KNOWN	None	None	None	None	75465911	75470171	-1	None	None
5	RN7SKP246	ENSG00000201423	ENST00000364553	misc_RNA	KNOWN	None	45970	None	None	143914917	143915233	-1	None	None
16	None	ENSG00000203472	ENST00000530512	antisense	KNOWN	None	None	None	None	75509794	75529305	1	None	None
10	RPL22P18	ENSG00000230171	ENST00000417197	processed_pseudogene	KNOWN	None	36232	None	None	81885697	81886073	1	None	None
HSCHR6_MHC_COX	LINC00243	ENSG00000236006	ENST00000419202	processed_transcript	KNOWN	None	30956	None	None	30756280	30788292	-1	C6orf214, NCRNA00243	bQB230F21.2, FLJ40693, bQB10J12.2
HSCHR6_MHC_COX	LINC00243	ENSG00000236006	ENST00000452623	processed_transcript	KNOWN	None	30956	None	None	30770493	30788292	-1	C6orf214, NCRNA00243	bQB230F21.2, FLJ40693, bQB10J12.2
5	None	ENSG00000249229	ENST00000505629	processed_pseudogene	KNOWN	None	None	None	None	144381416	144385352	-1	None	None
3	NAALADL2-AS2	ENSG00000226779	ENST00000424690	antisense	KNOWN	None	41015	None	None	174952651	174988885	-1	None	None
4	DDX3YP3	ENSG00000251571	ENST00000506389	processed_pseudogene	KNOWN	None	42173	None	None	104493246	104495239	1	None	None
16	None	ENSG00000262583	ENST00000575421	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	75533686	75539181	-1	None	None
16	None	ENSG00000262583	ENST00000571737	processed_transcript	KNOWN	None	None	None	None	75538556	75550178	-1	None	None
11	CREB3L1	ENSG00000157613	ENST00000529193	protein_coding	KNOWN	CCDS53620	18856	1560	519	46299212	46342972	1	None	OASIS
11	CREB3L1	ENSG00000157613	ENST00000534787	protein_coding	PUTATIVE	None	18856	317	104	46316677	46329490	1	None	OASIS
11	CREB3L1	ENSG00000157613	ENST00000527342	retained_intron	KNOWN	None	18856	None	None	46332465	46334174	1	None	OASIS
11	CREB3L1	ENSG00000157613	ENST00000530518	protein_coding	PUTATIVE	None	18856	372	123	46332708	46336938	1	None	OASIS
11	CREB3L1	ENSG00000157613	ENST00000534616	processed_transcript	KNOWN	None	18856	None	None	46337030	46341850	1	None	OASIS
11	CREB3L1	ENSG00000157613	ENST00000530244	retained_intron	KNOWN	None	18856	None	None	46337212	46342959	1	None	OASIS
11	CREB3L1	ENSG00000157613	ENST00000288400	protein_coding	KNOWN	None	18856	1560	519	46299228	46342970	1	None	OASIS
HSCHR6_MHC_COX	HLA-DQA2	ENSG00000204276	ENST00000443184	protein_coding	KNOWN	None	4943	768	255	32632816	32638891	1	HLA-DXA	None
1	MIR4632	ENSG00000263676	ENST00000584158	miRNA	KNOWN	None	41593	None	None	12251770	12251830	1	None	hsa-mir-4632
HSCHR6_MHC_COX	None	ENSG00000231522	ENST00000447617	processed_transcript	KNOWN	None	None	None	None	30797162	30805800	-1	None	None
3	MIR4789	ENSG00000264974	ENST00000577469	miRNA	KNOWN	None	41719	None	None	175087329	175087410	1	None	hsa-mir-4789
6	HMGB1P20	ENSG00000219163	ENST00000402555	processed_pseudogene	KNOWN	None	39103	None	None	53100419	53101095	-1	None	None
5	None	ENSG00000221467	ENST00000408540	miRNA	NOVEL	None	None	None	None	144577338	144577422	1	None	None
12	RN7SL179P	ENSG00000264461	ENST00000578359	misc_RNA	KNOWN	None	46195	None	None	98918254	98918535	-1	None	None
6	MIR5685	ENSG00000264056	ENST00000579080	miRNA	KNOWN	None	43543	None	None	53141791	53141869	1	None	hsa-mir-5685
HSCHR6_MHC_MCF	ZFP57	ENSG00000223858	ENST00000416974	protein_coding	KNOWN	None	18791	1551	516	29640045	29648669	-1	C6orf40	ZNF698, bA145L22, bA145L22.2
HSCHR6_MHC_MCF	ZFP57	ENSG00000223858	ENST00000552809	protein_coding	KNOWN	None	18791	1611	536	29639954	29644711	-1	C6orf40	ZNF698, bA145L22, bA145L22.2
HSCHR6_MHC_MCF	ZFP57	ENSG00000223858	ENST00000552898	protein_coding	KNOWN	None	18791	1551	516	29639954	29644560	-1	C6orf40	ZNF698, bA145L22, bA145L22.2
5	None	ENSG00000251031	ENST00000504204	lincRNA	KNOWN	None	None	None	None	144602173	144608545	-1	None	None
12	None	ENSG00000225185	ENST00000557282	processed_pseudogene	KNOWN	None	None	None	None	98984501	98984992	-1	None	None
12	None	ENSG00000225185	ENST00000420972	processed_pseudogene	KNOWN	None	None	None	None	98984501	98984983	-1	None	None
6	RPS16P5	ENSG00000217527	ENST00000406501	transcribed_processed_pseudogene	KNOWN	None	36183	None	None	53201741	53202144	-1	None	None
4	RNU6-635P	ENSG00000252460	ENST00000516651	snRNA	KNOWN	None	47598	None	None	104845697	104845798	1	None	None
HSCHR6_MHC_COX	RN7SKP138	ENSG00000265903	ENST00000581577	misc_RNA	KNOWN	None	45862	None	None	30821900	30822202	1	None	None
14	TRAV12-3	ENSG00000211794	ENST00000390442	TR_V_gene	KNOWN	None	12107	343	113	22433680	22434290	1	None	TRAV123, TCRAV2S2, TCRAV12S3
8	PSKH2	ENSG00000147613	ENST00000276616	protein_coding	KNOWN	CCDS6240	18997	1158	385	87060602	87081926	-1	None	None
8	PSKH2	ENSG00000147613	ENST00000517981	processed_transcript	PUTATIVE	None	18997	None	None	87076308	87100850	-1	None	None
8	PSKH2	ENSG00000147613	ENST00000523010	processed_transcript	PUTATIVE	None	18997	None	None	87076460	87097081	-1	None	None
4	None	ENSG00000249614	ENST00000510505	lincRNA	KNOWN	None	None	None	None	104882773	104958080	1	None	None
20	None	ENSG00000221220	ENST00000408293	miRNA	NOVEL	None	None	None	None	17823227	17823372	1	None	None
4	FAT1	ENSG00000083857	ENST00000441802	protein_coding	KNOWN	CCDS47177	3595	13767	4588	187508937	187645009	-1	FAT	CDHF7, CDHR8
4	FAT1	ENSG00000083857	ENST00000500085	retained_intron	KNOWN	None	3595	None	None	187508981	187518385	-1	FAT	CDHF7, CDHR8
4	FAT1	ENSG00000083857	ENST00000512772	protein_coding	PUTATIVE	None	3595	1105	367	187509546	187517995	-1	FAT	CDHF7, CDHR8
4	FAT1	ENSG00000083857	ENST00000507105	protein_coding	PUTATIVE	None	3595	854	283	187509961	187519178	-1	FAT	CDHF7, CDHR8
4	FAT1	ENSG00000083857	ENST00000509537	nonsense_mediated_decay	KNOWN	None	3595	159	52	187510144	187516899	-1	FAT	CDHF7, CDHR8
4	FAT1	ENSG00000083857	ENST00000509927	protein_coding	PUTATIVE	None	3595	357	118	187510226	187516954	-1	FAT	CDHF7, CDHR8
4	FAT1	ENSG00000083857	ENST00000507662	processed_transcript	PUTATIVE	None	3595	None	None	187518265	187519281	-1	FAT	CDHF7, CDHR8
4	FAT1	ENSG00000083857	ENST00000512347	processed_transcript	PUTATIVE	None	3595	None	None	187518884	187519975	-1	FAT	CDHF7, CDHR8
4	FAT1	ENSG00000083857	ENST00000503253	retained_intron	KNOWN	None	3595	None	None	187521485	187522854	-1	FAT	CDHF7, CDHR8
4	FAT1	ENSG00000083857	ENST00000508035	retained_intron	KNOWN	None	3595	None	None	187530404	187531224	-1	FAT	CDHF7, CDHR8
4	FAT1	ENSG00000083857	ENST00000509647	protein_coding	KNOWN	None	3595	1465	487	187629517	187647876	-1	FAT	CDHF7, CDHR8
14	None	ENSG00000257275	ENST00000547644	antisense	KNOWN	None	None	None	None	96178084	96222004	1	None	None
14	None	ENSG00000257275	ENST00000553445	antisense	KNOWN	None	None	None	None	96178094	96221915	1	None	None
14	None	ENSG00000257275	ENST00000556386	antisense	KNOWN	None	None	None	None	96181817	96223993	1	None	None
19	None	ENSG00000267922	ENST00000597989	lincRNA	KNOWN	None	None	None	None	46604380	46699475	1	None	None
3	RNU6-1233P	ENSG00000199792	ENST00000362922	snRNA	KNOWN	None	48196	None	None	175115036	175115137	-1	None	None
4	None	ENSG00000251170	ENST00000514327	lincRNA	KNOWN	None	None	None	None	105151537	105332192	1	None	None
4	None	ENSG00000251170	ENST00000505680	lincRNA	KNOWN	None	None	None	None	105154934	105257190	1	None	None
3	RNU4-91P	ENSG00000201648	ENST00000364778	snRNA	KNOWN	None	47027	None	None	175327267	175327401	1	None	None
1	None	ENSG00000225196	ENST00000453852	processed_pseudogene	KNOWN	None	None	None	None	12280851	12281166	-1	None	None
20	None	ENSG00000233625	ENST00000425405	lincRNA	KNOWN	None	None	None	None	17868007	17868804	-1	None	None
19	None	ENSG00000268053	ENST00000598627	processed_pseudogene	KNOWN	None	None	None	None	46614337	46617121	-1	None	None
3	None	ENSG00000236241	ENST00000454746	processed_pseudogene	KNOWN	None	None	None	None	175392875	175394589	-1	None	None
4	None	ENSG00000215999	ENST00000401180	miRNA	NOVEL	None	None	None	None	105199264	105199348	-1	None	None
21	IFNAR2	ENSG00000159110	ENST00000382264	protein_coding	KNOWN	CCDS13622	5433	996	331	34602206	34635061	1	IFNABR	None
21	IFNAR2	ENSG00000159110	ENST00000404220	protein_coding	KNOWN	CCDS13622	5433	996	331	34602276	34637980	1	IFNABR	None
21	IFNAR2	ENSG00000159110	ENST00000342136	protein_coding	KNOWN	CCDS13621	5433	1548	515	34602279	34636830	1	IFNABR	None
21	IFNAR2	ENSG00000159110	ENST00000420068	processed_transcript	KNOWN	None	5433	None	None	34602287	34619158	1	IFNABR	None
21	IFNAR2	ENSG00000159110	ENST00000342101	protein_coding	PUTATIVE	None	5433	720	239	34602441	34636830	1	IFNABR	None
21	IFNAR2	ENSG00000159110	ENST00000382238	nonsense_mediated_decay	KNOWN	None	5433	594	197	34602446	34635160	1	IFNABR	None
21	IFNAR2	ENSG00000159110	ENST00000413881	protein_coding	PUTATIVE	None	5433	504	167	34602487	34635160	1	IFNABR	None
21	IFNAR2	ENSG00000159110	ENST00000443073	protein_coding	PUTATIVE	None	5433	687	228	34602487	34635160	1	IFNABR	None
21	IFNAR2	ENSG00000159110	ENST00000447980	protein_coding	PUTATIVE	None	5433	612	203	34602714	34621159	1	IFNABR	None
21	IFNAR2	ENSG00000159110	ENST00000417007	nonsense_mediated_decay	KNOWN	None	5433	165	54	34621049	34635062	1	IFNABR	None
21	IFNAR2	ENSG00000159110	ENST00000382241	protein_coding	KNOWN	CCDS13621	5433	1548	515	34602231	34636818	1	IFNABR	None
15	RNU6-844P	ENSG00000252984	ENST00000517175	snRNA	KNOWN	None	47807	None	None	57697272	57697373	-1	None	None
19	EHD2	ENSG00000024422	ENST00000263277	protein_coding	KNOWN	CCDS12704	3243	1632	543	48216600	48246391	1	PAST2	None
19	EHD2	ENSG00000024422	ENST00000538399	protein_coding	PUTATIVE	None	3243	1224	407	48216679	48245110	1	PAST2	None
19	EHD2	ENSG00000024422	ENST00000602215	processed_transcript	KNOWN	None	3243	None	None	48229426	48234765	1	PAST2	None
19	EHD2	ENSG00000024422	ENST00000596225	nonsense_mediated_decay	KNOWN	None	3243	93	30	48229461	48244394	1	PAST2	None
19	EHD2	ENSG00000024422	ENST00000540884	processed_transcript	KNOWN	None	3243	None	None	48232874	48245122	1	PAST2	None
12	SPIC	ENSG00000166211	ENST00000551346	protein_coding	KNOWN	CCDS9082	29549	747	248	101869199	101880775	1	None	MGC40611, SPI-C
12	SPIC	ENSG00000166211	ENST00000299272	protein_coding	KNOWN	CCDS9082	29549	747	248	101870657	101880769	1	None	MGC40611, SPI-C
15	None	ENSG00000261489	ENST00000563031	lincRNA	KNOWN	None	None	None	None	57769682	57770527	-1	None	None
12	SNORA53	ENSG00000212443	ENST00000391141	snoRNA	KNOWN	None	32646	None	None	98993413	98993661	1	None	ACA53
21	None	ENSG00000267937	ENST00000597817	protein_coding	KNOWN	None	None	234	77	38888740	38888973	1	None	None
19	TGIF1P1	ENSG00000259339	ENST00000558095	processed_pseudogene	KNOWN	None	30730	None	None	46640003	46640804	-1	None	None
12	PDZRN4	ENSG00000165966	ENST00000402685	protein_coding	KNOWN	CCDS53777	30552	3111	1036	41582250	41967920	1	None	DKFZp434B0417, LNX4, FLJ33777, IMAGE5767589
12	PDZRN4	ENSG00000165966	ENST00000539469	protein_coding	KNOWN	CCDS8739	30552	2337	778	41831485	41968134	1	None	DKFZp434B0417, LNX4, FLJ33777, IMAGE5767589
12	PDZRN4	ENSG00000165966	ENST00000298919	protein_coding	KNOWN	None	30552	2331	776	41831541	41968384	1	None	DKFZp434B0417, LNX4, FLJ33777, IMAGE5767589
12	PDZRN4	ENSG00000165966	ENST00000548316	retained_intron	KNOWN	None	30552	None	None	41903353	41968392	1	None	DKFZp434B0417, LNX4, FLJ33777, IMAGE5767589
4	None	ENSG00000272082	ENST00000606234	miRNA	NOVEL	None	None	None	None	105412033	105412111	1	None	None
14	TRAV8-6	ENSG00000211795	ENST00000390443	TR_V_gene	KNOWN	None	12151	341	112	22446699	22447360	1	None	None
15	None	ENSG00000261265	ENST00000566990	lincRNA	KNOWN	None	None	None	None	57819385	57821207	-1	None	None
7	RADIL	ENSG00000157927	ENST00000445392	nonsense_mediated_decay	KNOWN	None	22226	1224	407	4836686	4923285	-1	None	FLJ10324, KIAA1849, RASIP2
7	RADIL	ENSG00000157927	ENST00000472999	retained_intron	KNOWN	None	22226	None	None	4838736	4843699	-1	None	FLJ10324, KIAA1849, RASIP2
7	RADIL	ENSG00000157927	ENST00000399583	protein_coding	KNOWN	CCDS43544	22226	3228	1075	4838736	4923350	-1	None	FLJ10324, KIAA1849, RASIP2
7	RADIL	ENSG00000157927	ENST00000473130	retained_intron	KNOWN	None	22226	None	None	4838740	4871840	-1	None	FLJ10324, KIAA1849, RASIP2
7	RADIL	ENSG00000157927	ENST00000469399	retained_intron	KNOWN	None	22226	None	None	4844876	4854964	-1	None	FLJ10324, KIAA1849, RASIP2
7	RADIL	ENSG00000157927	ENST00000484211	retained_intron	KNOWN	None	22226	None	None	4854909	4871850	-1	None	FLJ10324, KIAA1849, RASIP2
7	RADIL	ENSG00000157927	ENST00000457174	protein_coding	KNOWN	None	22226	402	133	4917369	4921840	-1	None	FLJ10324, KIAA1849, RASIP2
7	RADIL	ENSG00000157927	ENST00000538469	protein_coding	KNOWN	None	22226	2508	835	4838848	4877688	-1	None	FLJ10324, KIAA1849, RASIP2
7	RADIL	ENSG00000157927	ENST00000536091	protein_coding	KNOWN	None	22226	1629	542	4838740	4923295	-1	None	FLJ10324, KIAA1849, RASIP2
12	None	ENSG00000221625	ENST00000408698	miRNA	NOVEL	None	None	None	None	98999652	98999738	1	None	None
3	MAATS1	ENSG00000183833	ENST00000468630	retained_intron	KNOWN	None	24010	None	None	119421869	119459650	1	C3orf15	AAT1, AAT1alpha, SPATA26
3	MAATS1	ENSG00000183833	ENST00000273390	protein_coding	KNOWN	CCDS2994	24010	2304	767	119421869	119485949	1	C3orf15	AAT1, AAT1alpha, SPATA26
3	MAATS1	ENSG00000183833	ENST00000482573	nonsense_mediated_decay	KNOWN	None	24010	144	47	119421869	119485949	1	C3orf15	AAT1, AAT1alpha, SPATA26
3	MAATS1	ENSG00000183833	ENST00000463700	protein_coding	KNOWN	None	24010	717	238	119421880	119434781	1	C3orf15	AAT1, AAT1alpha, SPATA26
3	MAATS1	ENSG00000183833	ENST00000482927	nonsense_mediated_decay	KNOWN	None	24010	168	55	119421883	119484193	1	C3orf15	AAT1, AAT1alpha, SPATA26
3	MAATS1	ENSG00000183833	ENST00000488533	retained_intron	KNOWN	None	24010	None	None	119421891	119425951	1	C3orf15	AAT1, AAT1alpha, SPATA26
3	MAATS1	ENSG00000183833	ENST00000469659	retained_intron	KNOWN	None	24010	None	None	119421891	119429208	1	C3orf15	AAT1, AAT1alpha, SPATA26
3	MAATS1	ENSG00000183833	ENST00000475093	nonsense_mediated_decay	KNOWN	None	24010	396	131	119421898	119484133	1	C3orf15	AAT1, AAT1alpha, SPATA26
3	MAATS1	ENSG00000183833	ENST00000483134	retained_intron	KNOWN	None	24010	None	None	119424820	119459650	1	C3orf15	AAT1, AAT1alpha, SPATA26
3	MAATS1	ENSG00000183833	ENST00000498167	nonsense_mediated_decay	KNOWN	None	24010	306	101	119426356	119445195	1	C3orf15	AAT1, AAT1alpha, SPATA26
3	MAATS1	ENSG00000183833	ENST00000461322	retained_intron	KNOWN	None	24010	None	None	119452216	119458227	1	C3orf15	AAT1, AAT1alpha, SPATA26
3	MAATS1	ENSG00000183833	ENST00000470948	processed_transcript	KNOWN	None	24010	None	None	119466477	119484123	1	C3orf15	AAT1, AAT1alpha, SPATA26
3	MAATS1	ENSG00000183833	ENST00000482995	processed_transcript	KNOWN	None	24010	None	None	119469290	119484088	1	C3orf15	AAT1, AAT1alpha, SPATA26
3	MAATS1	ENSG00000183833	ENST00000472117	processed_transcript	KNOWN	None	24010	None	None	119469305	119484543	1	C3orf15	AAT1, AAT1alpha, SPATA26
3	MAATS1	ENSG00000183833	ENST00000496010	processed_transcript	KNOWN	None	24010	None	None	119469311	119484087	1	C3orf15	AAT1, AAT1alpha, SPATA26
3	MAATS1	ENSG00000183833	ENST00000475543	processed_transcript	KNOWN	None	24010	None	None	119469320	119484433	1	C3orf15	AAT1, AAT1alpha, SPATA26
4	None	ENSG00000245384	ENST00000500179	antisense	KNOWN	None	None	None	None	105412122	105618749	1	None	None
3	UBE2V1P2	ENSG00000214192	ENST00000397758	processed_pseudogene	KNOWN	None	32648	None	None	175436019	175436458	-1	None	None
6	BACH2	ENSG00000112182	ENST00000257749	protein_coding	KNOWN	CCDS5026	14078	2526	841	90636248	91006461	-1	None	BTBD25
6	BACH2	ENSG00000112182	ENST00000343122	protein_coding	KNOWN	CCDS5026	14078	2526	841	90641204	91006461	-1	None	BTBD25
6	BACH2	ENSG00000112182	ENST00000481150	processed_transcript	KNOWN	None	14078	None	None	90717809	90718546	-1	None	BTBD25
6	BACH2	ENSG00000112182	ENST00000406998	protein_coding	KNOWN	None	14078	243	80	90718321	91006461	-1	None	BTBD25
6	BACH2	ENSG00000112182	ENST00000453877	protein_coding	KNOWN	None	14078	243	80	90718321	91006461	-1	None	BTBD25
6	BACH2	ENSG00000112182	ENST00000470301	processed_transcript	KNOWN	None	14078	None	None	90798680	91006461	-1	None	BTBD25
6	BACH2	ENSG00000112182	ENST00000493201	processed_transcript	KNOWN	None	14078	None	None	90798773	90927964	-1	None	BTBD25
6	BACH2	ENSG00000112182	ENST00000472023	processed_transcript	KNOWN	None	14078	None	None	90798785	91006461	-1	None	BTBD25
6	BACH2	ENSG00000112182	ENST00000494747	processed_transcript	KNOWN	None	14078	None	None	90814084	91006461	-1	None	BTBD25
6	BACH2	ENSG00000112182	ENST00000537989	protein_coding	KNOWN	CCDS5026	14078	2526	841	90636248	91006627	-1	None	BTBD25
15	None	ENSG00000240874	ENST00000485045	processed_pseudogene	KNOWN	None	None	None	None	57848149	57848577	-1	None	None
X	PDHA1	ENSG00000131828	ENST00000423505	protein_coding	KNOWN	None	8806	615	204	19362040	19371282	1	PDHA	None
X	PDHA1	ENSG00000131828	ENST00000417819	protein_coding	KNOWN	None	8806	363	120	19362048	19368216	1	PDHA	None
X	PDHA1	ENSG00000131828	ENST00000422285	protein_coding	KNOWN	CCDS14192	8806	1173	390	19362051	19379803	1	PDHA	None
X	PDHA1	ENSG00000131828	ENST00000492364	processed_transcript	KNOWN	None	8806	None	None	19362054	19369616	1	PDHA	None
X	PDHA1	ENSG00000131828	ENST00000355808	protein_coding	KNOWN	None	8806	611	202	19362068	19372688	1	PDHA	None
X	PDHA1	ENSG00000131828	ENST00000379805	protein_coding	KNOWN	None	8806	543	180	19362086	19371445	1	PDHA	None
X	PDHA1	ENSG00000131828	ENST00000479146	processed_transcript	KNOWN	None	8806	None	None	19370947	19373563	1	PDHA	None
X	PDHA1	ENSG00000131828	ENST00000481733	processed_transcript	KNOWN	None	8806	None	None	19373436	19377143	1	PDHA	None
X	PDHA1	ENSG00000131828	ENST00000379804	protein_coding	KNOWN	None	8806	330	109	19373700	19377962	1	PDHA	None
X	PDHA1	ENSG00000131828	ENST00000478795	processed_transcript	KNOWN	None	8806	None	None	19375500	19377950	1	PDHA	None
X	PDHA1	ENSG00000131828	ENST00000379806	protein_coding	KNOWN	CCDS55380	8806	1287	428	19362011	19379823	1	PDHA	None
X	PDHA1	ENSG00000131828	ENST00000545074	protein_coding	KNOWN	CCDS55381	8806	1194	397	19362011	19379823	1	PDHA	None
X	PDHA1	ENSG00000131828	ENST00000540249	protein_coding	KNOWN	CCDS55382	8806	1080	359	19362011	19379823	1	PDHA	None
19	None	ENSG00000269729	ENST00000599127	lincRNA	KNOWN	None	None	None	None	46667150	46683904	-1	None	None
19	None	ENSG00000269729	ENST00000600152	lincRNA	KNOWN	None	None	None	None	46676792	46677286	-1	None	None
14	None	ENSG00000263357	ENST00000577955	miRNA	NOVEL	None	None	None	None	96317818	96317927	-1	None	None
14	None	ENSG00000258987	ENST00000557646	protein_coding	PUTATIVE	None	None	279	92	94405901	94410475	1	None	None
12	None	ENSG00000258204	ENST00000549019	processed_pseudogene	KNOWN	None	None	None	None	99188263	99188742	1	None	None
21	KCNJ6	ENSG00000157542	ENST00000400482	protein_coding	KNOWN	CCDS42927	6267	1272	423	38996789	39288749	-1	KCNJ7	Kir3.2, GIRK2, KATP2, BIR1, hiGIRK2
21	KCNJ6	ENSG00000157542	ENST00000288309	protein_coding	KNOWN	CCDS42927	6267	1272	423	38997461	39285557	-1	KCNJ7	Kir3.2, GIRK2, KATP2, BIR1, hiGIRK2
12	None	ENSG00000257458	ENST00000551372	processed_transcript	KNOWN	None	None	None	None	99325460	99370434	1	None	None
1	None	ENSG00000252969	ENST00000517160	snoRNA	NOVEL	None	None	None	None	12281205	12281328	-1	None	None
8	SLC7A13	ENSG00000164893	ENST00000297524	protein_coding	KNOWN	CCDS34917	23092	1413	470	87226281	87242610	-1	None	AGT-1, XAT2
8	SLC7A13	ENSG00000164893	ENST00000419776	protein_coding	KNOWN	None	23092	1302	433	87226621	87242589	-1	None	AGT-1, XAT2
8	SLC7A13	ENSG00000164893	ENST00000520624	processed_transcript	KNOWN	None	23092	None	None	87229855	87333375	-1	None	AGT-1, XAT2
4	TIFA	ENSG00000145365	ENST00000361717	protein_coding	KNOWN	CCDS34051	19075	555	184	113196783	113207059	-1	None	MGC20791, T2BP, T6BP, TIFAA
4	TIFA	ENSG00000145365	ENST00000500655	protein_coding	KNOWN	CCDS34051	19075	555	184	113198915	113202929	-1	None	MGC20791, T2BP, T6BP, TIFAA
11	ELP4	ENSG00000109911	ENST00000350638	protein_coding	KNOWN	CCDS7875	1171	1275	424	31531297	31805546	1	C11orf19	PAXNEB
11	ELP4	ENSG00000109911	ENST00000379163	protein_coding	NOVEL	None	1171	1431	476	31531317	31805319	1	C11orf19	PAXNEB
11	ELP4	ENSG00000109911	ENST00000474374	nonsense_mediated_decay	KNOWN	None	1171	558	185	31531318	31671769	1	C11orf19	PAXNEB
11	ELP4	ENSG00000109911	ENST00000395934	protein_coding	KNOWN	None	1171	1608	535	31531325	31805323	1	C11orf19	PAXNEB
19	None	ENSG00000268621	ENST00000594027	lincRNA	KNOWN	None	None	None	None	46692423	46706291	-1	None	None
19	None	ENSG00000268621	ENST00000598518	lincRNA	KNOWN	None	None	None	None	46692893	46706319	-1	None	None
19	None	ENSG00000268621	ENST00000599817	lincRNA	KNOWN	None	None	None	None	46699035	46706340	-1	None	None
19	None	ENSG00000268621	ENST00000598754	lincRNA	KNOWN	None	None	None	None	46701357	46706223	-1	None	None
19	None	ENSG00000268621	ENST00000601263	lincRNA	KNOWN	None	None	None	None	46701544	46706186	-1	None	None
19	None	ENSG00000268621	ENST00000595673	lincRNA	KNOWN	None	None	None	None	46704044	46706340	-1	None	None
5	None	ENSG00000268424	ENST00000597120	protein_coding	NOVEL	None	None	273	90	101569696	101571279	1	None	None
6	None	ENSG00000271367	ENST00000605281	lincRNA	KNOWN	None	None	None	None	53214956	53215503	1	None	None
3	None	ENSG00000271842	ENST00000606657	snoRNA	NOVEL	None	None	None	None	175457059	175457164	1	None	None
2	REEP1	ENSG00000068615	ENST00000165698	protein_coding	KNOWN	CCDS1989	25786	606	201	86441116	86564777	-1	C2orf23	FLJ13110, SPG31
2	REEP1	ENSG00000068615	ENST00000437769	protein_coding	NOVEL	None	25786	361	119	86459747	86564712	-1	C2orf23	FLJ13110, SPG31
2	REEP1	ENSG00000068615	ENST00000453231	protein_coding	PUTATIVE	None	25786	571	189	86459793	86565206	-1	C2orf23	FLJ13110, SPG31
2	REEP1	ENSG00000068615	ENST00000490915	retained_intron	KNOWN	None	25786	None	None	86459799	86482141	-1	C2orf23	FLJ13110, SPG31
2	REEP1	ENSG00000068615	ENST00000428491	protein_coding	PUTATIVE	None	25786	421	139	86459841	86564750	-1	C2orf23	FLJ13110, SPG31
2	REEP1	ENSG00000068615	ENST00000473407	processed_transcript	KNOWN	None	25786	None	None	86459857	86564592	-1	C2orf23	FLJ13110, SPG31
2	REEP1	ENSG00000068615	ENST00000489855	protein_coding	PUTATIVE	None	25786	443	146	86478475	86509333	-1	C2orf23	FLJ13110, SPG31
2	REEP1	ENSG00000068615	ENST00000475475	processed_transcript	PUTATIVE	None	25786	None	None	86491117	86564188	-1	C2orf23	FLJ13110, SPG31
2	REEP1	ENSG00000068615	ENST00000541910	protein_coding	KNOWN	CCDS54373	25786	432	143	86441122	86564777	-1	C2orf23	FLJ13110, SPG31
2	REEP1	ENSG00000068615	ENST00000538924	protein_coding	KNOWN	CCDS54374	25786	627	208	86441122	86565206	-1	C2orf23	FLJ13110, SPG31
2	REEP1	ENSG00000068615	ENST00000535845	protein_coding	KNOWN	CCDS54372	25786	525	174	86441122	86564777	-1	C2orf23	FLJ13110, SPG31
2	REEP1	ENSG00000068615	ENST00000540790	protein_coding	KNOWN	None	25786	543	180	86444087	86564749	-1	C2orf23	FLJ13110, SPG31
3	RNU6-1317P	ENSG00000201452	ENST00000364582	snRNA	KNOWN	None	48280	None	None	175485346	175485449	1	None	None
6	RPL31P28	ENSG00000219863	ENST00000406329	processed_pseudogene	KNOWN	None	36253	None	None	53219513	53219863	1	None	None
6	RPL31P28	ENSG00000219863	ENST00000598486	processed_pseudogene	KNOWN	None	36253	None	None	53219486	53219863	1	None	None
14	TRAV16	ENSG00000211796	ENST00000390444	TR_V_gene	KNOWN	None	12112	329	108	22458735	22459177	1	None	TCRAV16S1, TCRAV9S1
8	None	ENSG00000206776	ENST00000384049	snoRNA	NOVEL	None	None	None	None	120400588	120400709	1	None	None
3	NAALADL2-AS1	ENSG00000225552	ENST00000426315	antisense	KNOWN	None	41016	None	None	175490933	175494121	-1	None	None
1	SNORA59A	ENSG00000239149	ENST00000459326	snoRNA	KNOWN	None	32653	None	None	12567300	12567451	1	None	ACA59
19	IGFL1P1	ENSG00000268879	ENST00000599950	unprocessed_pseudogene	KNOWN	None	32956	None	None	46699495	46700580	1	None	IGFL-5P
6	HSPD1P16	ENSG00000218792	ENST00000402302	processed_pseudogene	KNOWN	None	35128	None	None	153026870	153027263	1	None	HSPD1-13P
6	None	ENSG00000272009	ENST00000605945	antisense	KNOWN	None	None	None	None	28046570	28048908	-1	None	None
19	NWD1	ENSG00000188039	ENST00000518676	nonsense_mediated_decay	KNOWN	None	27619	540	179	16830787	16928764	1	None	None
19	NWD1	ENSG00000188039	ENST00000524140	protein_coding	KNOWN	CCDS32945	27619	4299	1432	16830791	16928774	1	None	None
19	NWD1	ENSG00000188039	ENST00000549814	protein_coding	NOVEL	None	27619	4569	1522	16830860	16927934	1	None	None
19	NWD1	ENSG00000188039	ENST00000438489	nonsense_mediated_decay	KNOWN	None	27619	231	76	16842006	16927537	1	None	None
19	NWD1	ENSG00000188039	ENST00000552788	protein_coding	NOVEL	None	27619	4695	1564	16842009	16928409	1	None	None
19	NWD1	ENSG00000188039	ENST00000379808	protein_coding	KNOWN	CCDS32945	27619	4299	1432	16842006	16927537	1	None	None
19	NWD1	ENSG00000188039	ENST00000339803	protein_coding	KNOWN	None	27619	4290	1429	16855868	16927537	1	None	None
19	NWD1	ENSG00000188039	ENST00000523826	protein_coding	KNOWN	None	27619	4077	1358	16842006	16927537	1	None	None
12	RNA5SP366	ENSG00000202324	ENST00000365454	rRNA	KNOWN	None	43266	None	None	99477561	99477683	-1	RN5S366	None
3	IL17RC	ENSG00000163702	ENST00000383812	protein_coding	KNOWN	CCDS2591	18358	2118	705	9958758	9975301	1	None	IL17-RL
3	IL17RC	ENSG00000163702	ENST00000469686	retained_intron	KNOWN	None	18358	None	None	9958782	9959649	1	None	IL17-RL
3	IL17RC	ENSG00000163702	ENST00000451165	nonsense_mediated_decay	KNOWN	None	18358	276	91	9958782	9965974	1	None	IL17-RL
3	IL17RC	ENSG00000163702	ENST00000434756	nonsense_mediated_decay	KNOWN	None	18358	297	98	9958782	9970069	1	None	IL17-RL
3	IL17RC	ENSG00000163702	ENST00000438091	protein_coding	NOVEL	None	18358	990	329	9958782	9970314	1	None	IL17-RL
3	IL17RC	ENSG00000163702	ENST00000412901	nonsense_mediated_decay	KNOWN	None	18358	729	242	9958782	9971564	1	None	IL17-RL
3	IL17RC	ENSG00000163702	ENST00000466046	retained_intron	KNOWN	None	18358	None	None	9958782	9975277	1	None	IL17-RL
3	IL17RC	ENSG00000163702	ENST00000295981	protein_coding	KNOWN	CCDS2590	18358	2376	791	9958782	9975304	1	None	IL17-RL
3	IL17RC	ENSG00000163702	ENST00000451231	nonsense_mediated_decay	KNOWN	None	18358	372	123	9958782	9975304	1	None	IL17-RL
3	IL17RC	ENSG00000163702	ENST00000483582	retained_intron	KNOWN	None	18358	None	None	9958782	9975314	1	None	IL17-RL
3	IL17RC	ENSG00000163702	ENST00000481032	retained_intron	KNOWN	None	18358	None	None	9958786	9959641	1	None	IL17-RL
3	IL17RC	ENSG00000163702	ENST00000497102	retained_intron	KNOWN	None	18358	None	None	9958793	9959760	1	None	IL17-RL
3	IL17RC	ENSG00000163702	ENST00000494365	retained_intron	KNOWN	None	18358	None	None	9958793	9975300	1	None	IL17-RL
3	IL17RC	ENSG00000163702	ENST00000498214	processed_transcript	KNOWN	None	18358	None	None	9958793	9975301	1	None	IL17-RL
3	IL17RC	ENSG00000163702	ENST00000436503	protein_coding	NOVEL	None	18358	1248	415	9958803	9972128	1	None	IL17-RL
3	IL17RC	ENSG00000163702	ENST00000403601	protein_coding	KNOWN	CCDS46746	18358	2163	720	9958803	9975305	1	None	IL17-RL
3	IL17RC	ENSG00000163702	ENST00000476810	nonsense_mediated_decay	KNOWN	None	18358	135	44	9958809	9965729	1	None	IL17-RL
3	IL17RC	ENSG00000163702	ENST00000451271	nonsense_mediated_decay	KNOWN	None	18358	213	70	9958809	9975301	1	None	IL17-RL
3	IL17RC	ENSG00000163702	ENST00000424206	nonsense_mediated_decay	KNOWN	None	18358	471	156	9958818	9965976	1	None	IL17-RL
3	IL17RC	ENSG00000163702	ENST00000490512	retained_intron	KNOWN	None	18358	None	None	9958826	9965947	1	None	IL17-RL
3	IL17RC	ENSG00000163702	ENST00000440502	nonsense_mediated_decay	KNOWN	None	18358	300	99	9958839	9962284	1	None	IL17-RL
3	IL17RC	ENSG00000163702	ENST00000455057	protein_coding	NOVEL	CCDS56241	18358	2067	688	9958847	9975301	1	None	IL17-RL
3	IL17RC	ENSG00000163702	ENST00000413608	protein_coding	NOVEL	CCDS56240	18358	2124	707	9959000	9975300	1	None	IL17-RL
3	IL17RC	ENSG00000163702	ENST00000478206	retained_intron	KNOWN	None	18358	None	None	9962078	9965952	1	None	IL17-RL
3	IL17RC	ENSG00000163702	ENST00000464406	retained_intron	KNOWN	None	18358	None	None	9965706	9974385	1	None	IL17-RL
3	IL17RC	ENSG00000163702	ENST00000461995	retained_intron	KNOWN	None	18358	None	None	9969845	9974832	1	None	IL17-RL
3	IL17RC	ENSG00000163702	ENST00000497387	retained_intron	KNOWN	None	18358	None	None	9970712	9975304	1	None	IL17-RL
3	IL17RC	ENSG00000163702	ENST00000466712	retained_intron	KNOWN	None	18358	None	None	9972266	9974387	1	None	IL17-RL
3	IL17RC	ENSG00000163702	ENST00000465794	retained_intron	KNOWN	None	18358	None	None	9972507	9974642	1	None	IL17-RL
3	IL17RC	ENSG00000163702	ENST00000416074	protein_coding	KNOWN	None	18358	1641	546	9958837	9975304	1	None	IL17-RL
12	None	ENSG00000258039	ENST00000547633	processed_transcript	KNOWN	None	None	None	None	99487137	99498789	1	None	None
15	None	ENSG00000250988	ENST00000544685	antisense	KNOWN	None	None	None	None	83419316	83423689	1	None	None
15	None	ENSG00000250988	ENST00000558687	antisense	KNOWN	None	None	None	None	83419318	83423789	1	None	None
15	None	ENSG00000250988	ENST00000561107	antisense	KNOWN	None	None	None	None	83419324	83425956	1	None	None
15	None	ENSG00000250988	ENST00000558174	antisense	KNOWN	None	None	None	None	83419335	83425958	1	None	None
15	None	ENSG00000250988	ENST00000559366	antisense	KNOWN	None	None	None	None	83419336	83425958	1	None	None
6	None	ENSG00000224893	ENST00000456715	lincRNA	KNOWN	None	None	None	None	153115631	153153048	-1	None	None
6	None	ENSG00000224893	ENST00000417654	lincRNA	KNOWN	None	None	None	None	153125888	153126263	-1	None	None
14	None	ENSG00000258516	ENST00000554889	lincRNA	KNOWN	None	None	None	None	96321885	96332742	-1	None	None
14	None	ENSG00000258516	ENST00000553963	lincRNA	KNOWN	None	None	None	None	96322085	96332801	-1	None	None
22	GGT3P	ENSG00000197421	ENST00000412448	processed_transcript	KNOWN	None	4252	None	None	18761178	18792992	-1	GGT3	None
22	GGT3P	ENSG00000197421	ENST00000453783	transcribed_unprocessed_pseudogene	KNOWN	None	4252	None	None	18761338	18778736	-1	GGT3	None
22	GGT3P	ENSG00000197421	ENST00000445651	processed_transcript	KNOWN	None	4252	None	None	18782044	18830912	-1	GGT3	None
22	GGT3P	ENSG00000197421	ENST00000430306	processed_transcript	KNOWN	None	4252	None	None	18782111	18812514	-1	GGT3	None
3	None	ENSG00000260217	ENST00000562617	lincRNA	KNOWN	None	None	None	None	175656717	175658825	-1	None	None
1	PLEKHG5	ENSG00000171680	ENST00000489097	retained_intron	KNOWN	None	29105	None	None	6526152	6537648	-1	None	KIAA0720, Syx, GEF720, Tech
1	PLEKHG5	ENSG00000171680	ENST00000377748	protein_coding	KNOWN	CCDS41240	29105	3252	1083	6526152	6580069	-1	None	KIAA0720, Syx, GEF720, Tech
1	PLEKHG5	ENSG00000171680	ENST00000487949	retained_intron	KNOWN	None	29105	None	None	6527182	6531643	-1	None	KIAA0720, Syx, GEF720, Tech
1	PLEKHG5	ENSG00000171680	ENST00000377725	protein_coding	KNOWN	CCDS57967	29105	2793	930	6527182	6550630	-1	None	KIAA0720, Syx, GEF720, Tech
1	PLEKHG5	ENSG00000171680	ENST00000377728	protein_coding	KNOWN	CCDS79	29105	3021	1006	6527182	6551760	-1	None	KIAA0720, Syx, GEF720, Tech
1	PLEKHG5	ENSG00000171680	ENST00000377732	protein_coding	KNOWN	None	29105	3132	1043	6527182	6556756	-1	None	KIAA0720, Syx, GEF720, Tech
1	PLEKHG5	ENSG00000171680	ENST00000400915	protein_coding	KNOWN	CCDS41241	29105	3189	1062	6527182	6557450	-1	None	KIAA0720, Syx, GEF720, Tech
1	PLEKHG5	ENSG00000171680	ENST00000377740	protein_coding	KNOWN	None	29105	2559	852	6527182	6580121	-1	None	KIAA0720, Syx, GEF720, Tech
1	PLEKHG5	ENSG00000171680	ENST00000537245	protein_coding	KNOWN	CCDS57969	29105	3258	1085	6527565	6557156	-1	None	KIAA0720, Syx, GEF720, Tech
1	PLEKHG5	ENSG00000171680	ENST00000535355	protein_coding	KNOWN	CCDS57968	29105	3228	1075	6527183	6545529	-1	None	KIAA0720, Syx, GEF720, Tech
1	PLEKHG5	ENSG00000171680	ENST00000340850	protein_coding	KNOWN	CCDS79	29105	3021	1006	6526152	6550640	-1	None	KIAA0720, Syx, GEF720, Tech
1	PLEKHG5	ENSG00000171680	ENST00000400913	protein_coding	KNOWN	CCDS79	29105	3021	1006	6526152	6546014	-1	None	KIAA0720, Syx, GEF720, Tech
1	PLEKHG5	ENSG00000171680	ENST00000377737	protein_coding	KNOWN	CCDS79	29105	3021	1006	6527183	6580069	-1	None	KIAA0720, Syx, GEF720, Tech
1	PLEKHG5	ENSG00000171680	ENST00000544978	protein_coding	KNOWN	CCDS57967	29105	2793	930	6527903	6557484	-1	None	KIAA0720, Syx, GEF720, Tech
10	MKX	ENSG00000150051	ENST00000375790	protein_coding	KNOWN	CCDS7156	23729	1059	352	27961804	28034989	-1	C10orf48, IRXL1	MGC39616
10	MKX	ENSG00000150051	ENST00000460919	protein_coding	NOVEL	None	23729	872	289	28007492	28032474	-1	C10orf48, IRXL1	MGC39616
10	MKX	ENSG00000150051	ENST00000561227	protein_coding	KNOWN	None	23729	174	57	28032171	28034523	-1	C10orf48, IRXL1	MGC39616
10	MKX	ENSG00000150051	ENST00000419761	protein_coding	KNOWN	CCDS7156	23729	1059	352	27961804	28034778	-1	C10orf48, IRXL1	MGC39616
12	ZNF705A	ENSG00000196946	ENST00000402465	protein_coding	KNOWN	None	32281	232	76	8290733	8327916	1	None	FLJ16353
12	ZNF705A	ENSG00000196946	ENST00000396570	protein_coding	KNOWN	None	32281	621	206	8309630	8329897	1	None	FLJ16353
12	ZNF705A	ENSG00000196946	ENST00000359286	protein_coding	KNOWN	CCDS31737	32281	903	300	8325133	8332642	1	None	FLJ16353
12	ZNF705A	ENSG00000196946	ENST00000398526	protein_coding	PUTATIVE	None	32281	305	100	8328453	8341133	1	None	FLJ16353
1	None	ENSG00000229484	ENST00000416696	lincRNA	KNOWN	None	None	None	None	12587766	12588462	1	None	None
12	RPS4XP1	ENSG00000214203	ENST00000482189	processed_pseudogene	KNOWN	None	32444	None	None	100402830	100403616	-1	RPS4P1	None
6	ZSCAN12P1	ENSG00000219891	ENST00000529104	processed_transcript	KNOWN	None	13850	None	None	28058932	28061442	1	ZNF305P1, ZNF96P1, ZNF96L1, ZSCAN12L1	ZNF187p1, dJ313I6.7
6	ZSCAN12P1	ENSG00000219891	ENST00000406489	transcribed_unprocessed_pseudogene	KNOWN	None	13850	None	None	28060205	28060623	1	ZNF305P1, ZNF96P1, ZNF96L1, ZSCAN12L1	ZNF187p1, dJ313I6.7
15	None	ENSG00000261219	ENST00000567865	lincRNA	KNOWN	None	None	None	None	58012493	58013126	1	None	None
HSCHR6_MHC_COX	SCAND3	ENSG00000248496	ENST00000508341	protein_coding	KNOWN	None	13851	2382	793	28541284	28555112	-1	ZNF305P2, ZNF452	ZFP38-L, KIAA1925, FLJ31087, Buster4
HSCHR6_MHC_COX	SCAND3	ENSG00000248496	ENST00000600483	protein_coding	KNOWN	None	13851	3978	1325	28539408	28555112	-1	ZNF305P2, ZNF452	ZFP38-L, KIAA1925, FLJ31087, Buster4
2	ESPNL	ENSG00000144488	ENST00000343063	protein_coding	KNOWN	CCDS2525	27937	3018	1005	239008798	239041928	1	None	FLJ42568
2	ESPNL	ENSG00000144488	ENST00000409169	protein_coding	KNOWN	None	27937	2886	961	239009061	239041928	1	None	FLJ42568
2	ESPNL	ENSG00000144488	ENST00000409506	protein_coding	KNOWN	None	27937	1914	637	239036031	239041928	1	None	FLJ42568
2	ESPNL	ENSG00000144488	ENST00000423032	protein_coding	KNOWN	None	27937	247	81	239036036	239037483	1	None	FLJ42568
2	ESPNL	ENSG00000144488	ENST00000477241	processed_transcript	PUTATIVE	None	27937	None	None	239037589	239041922	1	None	FLJ42568
14	TRAV17	ENSG00000211797	ENST00000390445	TR_V_gene	KNOWN	None	12113	337	111	22465778	22466407	1	None	TCRAV17S1, TCRAV3S1
12	C12orf52	ENSG00000139405	ENST00000549621	protein_coding	KNOWN	CCDS9166	25925	810	269	113623331	113630169	1	None	FLJ14827, RITA
12	C12orf52	ENSG00000139405	ENST00000548278	protein_coding	KNOWN	CCDS9166	25925	810	269	113623331	113630173	1	None	FLJ14827, RITA
12	C12orf52	ENSG00000139405	ENST00000552495	protein_coding	PUTATIVE	None	25925	882	293	113623347	113630166	1	None	FLJ14827, RITA
15	None	ENSG00000259477	ENST00000558410	processed_pseudogene	KNOWN	None	None	None	None	58271914	58272844	-1	None	None
10	PITRM1-AS1	ENSG00000237399	ENST00000601046	antisense	KNOWN	None	44675	None	None	3183824	3206441	1	None	None
10	PITRM1-AS1	ENSG00000237399	ENST00000598280	antisense	KNOWN	None	44675	None	None	3183824	3210164	1	None	None
10	PITRM1-AS1	ENSG00000237399	ENST00000441377	antisense	KNOWN	None	44675	None	None	3183864	3187425	1	None	None
10	PITRM1-AS1	ENSG00000237399	ENST00000430356	retained_intron	KNOWN	None	44675	None	None	3185241	3190814	1	None	None
8	None	ENSG00000248762	ENST00000505564	lincRNA	KNOWN	None	None	None	None	96998336	97005331	-1	None	None
2	None	ENSG00000269383	ENST00000595083	protein_coding	NOVEL	None	None	303	100	100986705	100987007	-1	None	None
3	None	ENSG00000230362	ENST00000437653	processed_pseudogene	KNOWN	None	None	None	None	175695285	175696358	-1	None	None
15	None	ENSG00000259362	ENST00000561283	lincRNA	KNOWN	None	None	None	None	77817882	77826452	1	None	None
15	None	ENSG00000258489	ENST00000554412	lincRNA	KNOWN	None	None	None	None	96006821	96036999	-1	None	None
13	PCDH8	ENSG00000136099	ENST00000377942	protein_coding	KNOWN	CCDS9438	8660	3213	1070	53418109	53422775	-1	None	PAPC, ARCADLIN
13	PCDH8	ENSG00000136099	ENST00000338862	protein_coding	KNOWN	CCDS9439	8660	2922	973	53418116	53422640	-1	None	PAPC, ARCADLIN
15	RNU2-3P	ENSG00000222076	ENST00000410144	snRNA	KNOWN	None	10153	None	None	96289033	96289223	1	RNU2P1	U2
8	None	ENSG00000183663	ENST00000513953	processed_pseudogene	KNOWN	None	None	None	None	97080957	97081909	-1	None	None
1	RNU6ATAC18P	ENSG00000221340	ENST00000408413	snRNA	KNOWN	None	46917	None	None	12630000	12630100	-1	None	None
21	DSCR4	ENSG00000184029	ENST00000398948	protein_coding	PUTATIVE	None	3045	384	127	39323728	39493433	-1	None	DCRB
21	DSCR4	ENSG00000184029	ENST00000328264	protein_coding	KNOWN	CCDS33554	3045	357	118	39426313	39493454	-1	None	DCRB
21	DSCR4	ENSG00000184029	ENST00000482032	nonsense_mediated_decay	KNOWN	None	3045	240	79	39465338	39493425	-1	None	DCRB
15	None	ENSG00000259348	ENST00000561051	lincRNA	KNOWN	None	None	None	None	96571318	96590159	-1	None	None
7	COPG2	ENSG00000158623	ENST00000425248	protein_coding	KNOWN	None	2237	467	154	130146089	130148500	-1	None	2-COP
7	COPG2	ENSG00000158623	ENST00000490070	retained_intron	KNOWN	None	2237	None	None	130147115	130148067	-1	None	2-COP
7	COPG2	ENSG00000158623	ENST00000330992	protein_coding	KNOWN	None	2237	737	244	130295824	130353563	-1	None	2-COP
7	COPG2	ENSG00000158623	ENST00000445977	protein_coding	KNOWN	None	2237	741	246	130295820	130353598	-1	None	2-COP
3	SLC6A1	ENSG00000157103	ENST00000287766	protein_coding	KNOWN	CCDS2603	11042	1800	599	11034410	11080933	1	None	GAT1, GABATR, GABATHG
3	SLC6A1	ENSG00000157103	ENST00000425938	protein_coding	KNOWN	None	11042	116	37	11034414	11059013	1	None	GAT1, GABATR, GABATHG
3	SLC6A1	ENSG00000157103	ENST00000462473	processed_transcript	KNOWN	None	11042	None	None	11034420	11059562	1	None	GAT1, GABATR, GABATHG
3	SLC6A1	ENSG00000157103	ENST00000460480	processed_transcript	KNOWN	None	11042	None	None	11058802	11064123	1	None	GAT1, GABATR, GABATHG
3	SLC6A1	ENSG00000157103	ENST00000495636	retained_intron	KNOWN	None	11042	None	None	11074923	11078964	1	None	GAT1, GABATR, GABATHG
3	SLC6A1	ENSG00000157103	ENST00000536032	protein_coding	KNOWN	None	11042	1266	421	11058802	11078834	1	None	GAT1, GABATR, GABATHG
9	None	ENSG00000226706	ENST00000415062	antisense	KNOWN	None	None	None	None	138395119	138398293	-1	None	None
15	None	ENSG00000259702	ENST00000558860	lincRNA	KNOWN	None	None	None	None	96592504	96607655	-1	None	None
14	TRAV18	ENSG00000211798	ENST00000390446	TR_V_gene	KNOWN	None	12114	335	110	22471345	22471912	1	None	TCRAV18S1
14	TTC9	ENSG00000133985	ENST00000256367	protein_coding	KNOWN	CCDS45132	20267	669	222	71108504	71142077	1	None	KIAA0227, TTC9A
1	HSD17B7	ENSG00000132196	ENST00000485405	processed_transcript	KNOWN	None	5215	None	None	162760492	162782607	1	None	PRAP, SDR37C1
1	HSD17B7	ENSG00000132196	ENST00000463037	processed_transcript	KNOWN	None	5215	None	None	162760511	162769727	1	None	PRAP, SDR37C1
1	HSD17B7	ENSG00000132196	ENST00000367915	protein_coding	PUTATIVE	None	5215	255	84	162760513	162762842	1	None	PRAP, SDR37C1
1	HSD17B7	ENSG00000132196	ENST00000466176	nonsense_mediated_decay	KNOWN	None	5215	330	109	162760523	162769624	1	None	PRAP, SDR37C1
1	HSD17B7	ENSG00000132196	ENST00000254521	protein_coding	KNOWN	CCDS1242	5215	1026	341	162760536	162782319	1	None	PRAP, SDR37C1
1	HSD17B7	ENSG00000132196	ENST00000367913	protein_coding	KNOWN	None	5215	336	111	162760579	162767939	1	None	PRAP, SDR37C1
1	HSD17B7	ENSG00000132196	ENST00000484251	processed_transcript	KNOWN	None	5215	None	None	162766976	162769727	1	None	PRAP, SDR37C1
1	HSD17B7	ENSG00000132196	ENST00000413934	protein_coding	PUTATIVE	None	5215	357	118	162768720	162775282	1	None	PRAP, SDR37C1
1	HSD17B7	ENSG00000132196	ENST00000494450	processed_transcript	KNOWN	None	5215	None	None	162769294	162774102	1	None	PRAP, SDR37C1
1	HSD17B7	ENSG00000132196	ENST00000470195	processed_transcript	KNOWN	None	5215	None	None	162769552	162782316	1	None	PRAP, SDR37C1
1	HSD17B7	ENSG00000132196	ENST00000488656	processed_transcript	KNOWN	None	5215	None	None	162772708	162774109	1	None	PRAP, SDR37C1
1	HSD17B7	ENSG00000132196	ENST00000367917	protein_coding	KNOWN	None	5215	921	306	162760523	162782607	1	None	PRAP, SDR37C1
2	THADA	ENSG00000115970	ENST00000405975	protein_coding	KNOWN	CCDS46268	19217	5862	1953	43457975	43823185	-1	None	FLJ21877, KIAA1767, GITA
2	THADA	ENSG00000115970	ENST00000407351	protein_coding	NOVEL	None	19217	3581	1192	43457990	43797654	-1	None	FLJ21877, KIAA1767, GITA
2	THADA	ENSG00000115970	ENST00000405006	protein_coding	KNOWN	CCDS46268	19217	5862	1953	43457991	43823113	-1	None	FLJ21877, KIAA1767, GITA
2	THADA	ENSG00000115970	ENST00000398653	nonsense_mediated_decay	KNOWN	None	19217	894	297	43457991	43823177	-1	None	FLJ21877, KIAA1767, GITA
2	THADA	ENSG00000115970	ENST00000467668	processed_transcript	KNOWN	None	19217	None	None	43458346	43504440	-1	None	FLJ21877, KIAA1767, GITA
2	THADA	ENSG00000115970	ENST00000485018	retained_intron	KNOWN	None	19217	None	None	43514124	43520205	-1	None	FLJ21877, KIAA1767, GITA
2	THADA	ENSG00000115970	ENST00000486735	processed_transcript	KNOWN	None	19217	None	None	43520131	43619061	-1	None	FLJ21877, KIAA1767, GITA
2	THADA	ENSG00000115970	ENST00000473004	processed_transcript	KNOWN	None	19217	None	None	43560294	43625197	-1	None	FLJ21877, KIAA1767, GITA
2	THADA	ENSG00000115970	ENST00000408045	nonsense_mediated_decay	KNOWN	None	19217	894	297	43570140	43823177	-1	None	FLJ21877, KIAA1767, GITA
2	THADA	ENSG00000115970	ENST00000497770	processed_transcript	KNOWN	None	19217	None	None	43571260	43599376	-1	None	FLJ21877, KIAA1767, GITA
2	THADA	ENSG00000115970	ENST00000402796	nonsense_mediated_decay	KNOWN	None	19217	1227	408	43571261	43801952	-1	None	FLJ21877, KIAA1767, GITA
2	THADA	ENSG00000115970	ENST00000485353	processed_transcript	KNOWN	None	19217	None	None	43571296	43690398	-1	None	FLJ21877, KIAA1767, GITA
2	THADA	ENSG00000115970	ENST00000469323	processed_transcript	KNOWN	None	19217	None	None	43655242	43713811	-1	None	FLJ21877, KIAA1767, GITA
2	THADA	ENSG00000115970	ENST00000436947	processed_transcript	KNOWN	None	19217	None	None	43711417	43735892	-1	None	FLJ21877, KIAA1767, GITA
2	THADA	ENSG00000115970	ENST00000462185	processed_transcript	KNOWN	None	19217	None	None	43732857	43768442	-1	None	FLJ21877, KIAA1767, GITA
2	THADA	ENSG00000115970	ENST00000402360	protein_coding	PUTATIVE	None	19217	2814	937	43779207	43819559	-1	None	FLJ21877, KIAA1767, GITA
2	THADA	ENSG00000115970	ENST00000404790	protein_coding	PUTATIVE	None	19217	2685	894	43783232	43823162	-1	None	FLJ21877, KIAA1767, GITA
2	THADA	ENSG00000115970	ENST00000474159	nonsense_mediated_decay	KNOWN	None	19217	1047	348	43783488	43819555	-1	None	FLJ21877, KIAA1767, GITA
2	THADA	ENSG00000115970	ENST00000403856	protein_coding	PUTATIVE	None	19217	2613	870	43789357	43823146	-1	None	FLJ21877, KIAA1767, GITA
2	THADA	ENSG00000115970	ENST00000330266	protein_coding	KNOWN	None	19217	3294	1097	43393800	43804327	-1	None	FLJ21877, KIAA1767, GITA
2	THADA	ENSG00000115970	ENST00000415080	protein_coding	KNOWN	None	19217	4905	1634	43457976	43823185	-1	None	FLJ21877, KIAA1767, GITA
15	None	ENSG00000259420	ENST00000560590	lincRNA	KNOWN	None	None	None	None	77861312	77865206	1	None	None
15	None	ENSG00000259420	ENST00000561123	lincRNA	KNOWN	None	None	None	None	77861312	77901023	1	None	None
19	None	ENSG00000267305	ENST00000588755	processed_pseudogene	KNOWN	None	None	None	None	239145	239247	-1	None	None
1	None	ENSG00000272482	ENST00000606790	lincRNA	KNOWN	None	None	None	None	12678906	12679250	-1	None	None
19	None	ENSG00000271846	ENST00000607399	processed_pseudogene	KNOWN	None	None	None	None	259260	259346	-1	None	None
12	None	ENSG00000257696	ENST00000550886	antisense	KNOWN	None	None	None	None	100536836	100538449	1	None	None
10	None	ENSG00000224250	ENST00000447943	antisense	KNOWN	None	None	None	None	123495818	123499245	1	None	None
16	CCDC64B	ENSG00000162069	ENST00000572240	retained_intron	KNOWN	None	33584	None	None	3077683	3081975	-1	None	None
16	CCDC64B	ENSG00000162069	ENST00000573514	protein_coding	KNOWN	None	33584	906	301	3077685	3083003	-1	None	None
16	CCDC64B	ENSG00000162069	ENST00000572449	protein_coding	KNOWN	CCDS45393	33584	1527	508	3077713	3086927	-1	None	None
16	CCDC64B	ENSG00000162069	ENST00000576826	retained_intron	KNOWN	None	33584	None	None	3079971	3086927	-1	None	None
16	CCDC64B	ENSG00000162069	ENST00000389347	protein_coding	KNOWN	CCDS45393	33584	1527	508	3077868	3085542	-1	None	None
8	None	ENSG00000253398	ENST00000519786	antisense	KNOWN	None	None	None	None	120432150	120474590	-1	None	None
19	VN2R11P	ENSG00000267447	ENST00000589981	processed_pseudogene	KNOWN	None	33217	None	None	279495	280170	1	None	None
15	NR2F2-AS1	ENSG00000247809	ENST00000560800	antisense	KNOWN	None	44222	None	None	96670598	96870250	-1	None	None
15	NR2F2-AS1	ENSG00000247809	ENST00000559505	antisense	KNOWN	None	44222	None	None	96696645	96766284	-1	None	None
15	NR2F2-AS1	ENSG00000247809	ENST00000561402	antisense	KNOWN	None	44222	None	None	96809615	96826200	-1	None	None
15	NR2F2-AS1	ENSG00000247809	ENST00000560395	antisense	KNOWN	None	44222	None	None	96809758	96819225	-1	None	None
15	NR2F2-AS1	ENSG00000247809	ENST00000502125	antisense	KNOWN	None	44222	None	None	96812001	96870590	-1	None	None
15	NR2F2-AS1	ENSG00000247809	ENST00000561344	antisense	KNOWN	None	44222	None	None	96813044	96870577	-1	None	None
15	NR2F2-AS1	ENSG00000247809	ENST00000558929	antisense	KNOWN	None	44222	None	None	96816025	96865874	-1	None	None
15	NR2F2-AS1	ENSG00000247809	ENST00000557863	antisense	KNOWN	None	44222	None	None	96826153	96870345	-1	None	None
15	NR2F2-AS1	ENSG00000247809	ENST00000560170	antisense	KNOWN	None	44222	None	None	96828455	96870586	-1	None	None
15	NR2F2-AS1	ENSG00000247809	ENST00000558935	antisense	KNOWN	None	44222	None	None	96833673	96870326	-1	None	None
15	NR2F2-AS1	ENSG00000247809	ENST00000560010	antisense	KNOWN	None	44222	None	None	96833674	96870556	-1	None	None
10	None	ENSG00000201884	ENST00000365014	misc_RNA	NOVEL	None	None	None	None	123606115	123606215	1	None	None
3	CX3CR1	ENSG00000168329	ENST00000399220	protein_coding	KNOWN	CCDS43069	2558	1068	355	39304985	39321525	-1	GPR13, CMKBRL1	CMKDR1, V28, CCRL1
3	CX3CR1	ENSG00000168329	ENST00000435290	protein_coding	KNOWN	None	2558	499	165	39307502	39321930	-1	GPR13, CMKBRL1	CMKDR1, V28, CCRL1
3	CX3CR1	ENSG00000168329	ENST00000412814	protein_coding	KNOWN	None	2558	319	105	39307682	39322764	-1	GPR13, CMKBRL1	CMKDR1, V28, CCRL1
3	CX3CR1	ENSG00000168329	ENST00000358309	protein_coding	KNOWN	CCDS54571	2558	1164	387	39304986	39323226	-1	GPR13, CMKBRL1	CMKDR1, V28, CCRL1
3	CX3CR1	ENSG00000168329	ENST00000541347	protein_coding	KNOWN	CCDS43069	2558	1068	355	39304986	39322764	-1	GPR13, CMKBRL1	CMKDR1, V28, CCRL1
3	CX3CR1	ENSG00000168329	ENST00000542107	protein_coding	KNOWN	CCDS43069	2558	1068	355	39304986	39321930	-1	GPR13, CMKBRL1	CMKDR1, V28, CCRL1
17	MKS1	ENSG00000011143	ENST00000393119	protein_coding	KNOWN	CCDS11603	7121	1680	559	56282803	56296666	-1	MKS	FLJ20345, POC12, BBS13
17	MKS1	ENSG00000011143	ENST00000313863	protein_coding	PUTATIVE	None	7121	1371	456	56282814	56296593	-1	MKS	FLJ20345, POC12, BBS13
17	MKS1	ENSG00000011143	ENST00000537529	protein_coding	KNOWN	CCDS54148	7121	1650	549	56283101	56296966	-1	MKS	FLJ20345, POC12, BBS13
17	MKS1	ENSG00000011143	ENST00000393120	nonsense_mediated_decay	KNOWN	None	7121	495	164	56283102	56296597	-1	MKS	FLJ20345, POC12, BBS13
17	MKS1	ENSG00000011143	ENST00000583577	retained_intron	KNOWN	None	7121	None	None	56283249	56284141	-1	MKS	FLJ20345, POC12, BBS13
17	MKS1	ENSG00000011143	ENST00000577315	protein_coding	PUTATIVE	None	7121	352	116	56284922	56288351	-1	MKS	FLJ20345, POC12, BBS13
17	MKS1	ENSG00000011143	ENST00000577824	protein_coding	PUTATIVE	None	7121	686	227	56284923	56291740	-1	MKS	FLJ20345, POC12, BBS13
17	MKS1	ENSG00000011143	ENST00000585134	protein_coding	PUTATIVE	None	7121	636	211	56284927	56290423	-1	MKS	FLJ20345, POC12, BBS13
17	MKS1	ENSG00000011143	ENST00000579358	retained_intron	KNOWN	None	7121	None	None	56285502	56288481	-1	MKS	FLJ20345, POC12, BBS13
17	MKS1	ENSG00000011143	ENST00000581761	nonsense_mediated_decay	KNOWN	None	7121	366	121	56288020	56296606	-1	MKS	FLJ20345, POC12, BBS13
17	MKS1	ENSG00000011143	ENST00000580127	nonsense_mediated_decay	KNOWN	None	7121	441	146	56291167	56296666	-1	MKS	FLJ20345, POC12, BBS13
17	MKS1	ENSG00000011143	ENST00000578789	nonsense_mediated_decay	KNOWN	None	7121	147	48	56291220	56296614	-1	MKS	FLJ20345, POC12, BBS13
17	MKS1	ENSG00000011143	ENST00000581180	retained_intron	KNOWN	None	7121	None	None	56292967	56296591	-1	MKS	FLJ20345, POC12, BBS13
17	MKS1	ENSG00000011143	ENST00000337050	protein_coding	KNOWN	None	7121	1566	521	56282912	56296601	-1	MKS	FLJ20345, POC12, BBS13
17	MKS1	ENSG00000011143	ENST00000546108	protein_coding	KNOWN	None	7121	1071	356	56283102	56296597	-1	MKS	FLJ20345, POC12, BBS13
8	None	ENSG00000254037	ENST00000518830	processed_pseudogene	KNOWN	None	None	None	None	120492519	120493015	-1	None	None
10	LINC00857	ENSG00000237523	ENST00000422847	lincRNA	KNOWN	None	45114	None	None	81967466	81979413	1	None	None
10	LINC00857	ENSG00000237523	ENST00000432308	lincRNA	KNOWN	None	45114	None	None	81967965	81978370	1	None	None
14	MIR487B	ENSG00000207754	ENST00000385021	miRNA	KNOWN	None	32533	None	None	101512792	101512875	1	MIRN487B	hsa-mir-487b
HSCHR6_MHC_MANN	ZNF311	ENSG00000235589	ENST00000436574	protein_coding	KNOWN	None	13847	2001	666	28962566	28973041	-1	None	None
HSCHR6_MHC_MANN	ZNF311	ENSG00000235589	ENST00000490260	processed_transcript	KNOWN	None	13847	None	None	28962566	28973097	-1	None	None
16	None	ENSG00000259992	ENST00000564489	processed_transcript	KNOWN	None	None	None	None	75575297	75642343	-1	None	None
8	None	ENSG00000254273	ENST00000523233	processed_pseudogene	KNOWN	None	None	None	None	74423511	74423889	-1	None	None
3	DZIP1L	ENSG00000158163	ENST00000327532	protein_coding	KNOWN	CCDS3096	26551	2304	767	137780832	137834451	-1	None	FLJ32844, DZIP2
3	DZIP1L	ENSG00000158163	ENST00000486487	protein_coding	PUTATIVE	None	26551	445	147	137783245	137786482	-1	None	FLJ32844, DZIP2
3	DZIP1L	ENSG00000158163	ENST00000488595	processed_transcript	KNOWN	None	26551	None	None	137787143	137811307	-1	None	FLJ32844, DZIP2
3	DZIP1L	ENSG00000158163	ENST00000469243	protein_coding	KNOWN	CCDS54645	26551	1620	539	137787825	137832322	-1	None	FLJ32844, DZIP2
3	DZIP1L	ENSG00000158163	ENST00000466301	retained_intron	KNOWN	None	26551	None	None	137799191	137800671	-1	None	FLJ32844, DZIP2
3	DZIP1L	ENSG00000158163	ENST00000473850	retained_intron	KNOWN	None	26551	None	None	137805816	137807742	-1	None	FLJ32844, DZIP2
3	DZIP1L	ENSG00000158163	ENST00000490472	retained_intron	KNOWN	None	26551	None	None	137811194	137822620	-1	None	FLJ32844, DZIP2
3	DZIP1L	ENSG00000158163	ENST00000467030	protein_coding	KNOWN	None	26551	201	66	137822613	137834453	-1	None	FLJ32844, DZIP2
3	DZIP1L	ENSG00000158163	ENST00000492010	protein_coding	KNOWN	None	26551	118	38	137822696	137834660	-1	None	FLJ32844, DZIP2
6	ITPR3	ENSG00000096433	ENST00000374316	protein_coding	KNOWN	CCDS4783	6182	8016	2671	33588142	33664351	1	None	IP3R3
6	ITPR3	ENSG00000096433	ENST00000605930	protein_coding	KNOWN	CCDS4783	6182	8016	2671	33589161	33664346	1	None	IP3R3
8	None	ENSG00000253495	ENST00000519781	processed_pseudogene	KNOWN	None	None	None	None	120630402	120630714	-1	None	None
4	None	ENSG00000250350	ENST00000507181	unprocessed_pseudogene	KNOWN	None	None	None	None	152200182	152200344	-1	None	None
14	TRAV19	ENSG00000211799	ENST00000390447	TR_V_gene	KNOWN	None	12115	350	115	22475751	22476420	1	None	TCRAV12S1, TCRAV19S1
10	RPS12P2	ENSG00000234319	ENST00000439728	processed_pseudogene	KNOWN	None	24221	None	None	81975607	81975875	-1	None	bA40F6.3
14	MIR539	ENSG00000202560	ENST00000365690	miRNA	KNOWN	None	32529	None	None	101513658	101513735	1	MIRN539	hsa-mir-539
19	None	ENSG00000267124	ENST00000591533	antisense	KNOWN	None	None	None	None	305573	306467	1	None	None
19	TMEM59L	ENSG00000105696	ENST00000600490	protein_coding	KNOWN	CCDS12383	13237	1029	342	18718240	18731849	1	C19orf4	BSMAP
19	TMEM59L	ENSG00000105696	ENST00000594859	retained_intron	KNOWN	None	13237	None	None	18723683	18728719	1	C19orf4	BSMAP
19	TMEM59L	ENSG00000105696	ENST00000598660	retained_intron	KNOWN	None	13237	None	None	18723687	18731816	1	C19orf4	BSMAP
19	TMEM59L	ENSG00000105696	ENST00000594709	protein_coding	PUTATIVE	None	13237	403	133	18726786	18729264	1	C19orf4	BSMAP
19	TMEM59L	ENSG00000105696	ENST00000262817	protein_coding	KNOWN	CCDS12383	13237	1029	342	18723682	18731841	1	C19orf4	BSMAP
1	None	ENSG00000226166	ENST00000436879	processed_pseudogene	KNOWN	None	None	None	None	12752925	12753036	1	None	None
8	RN7SKP153	ENSG00000201896	ENST00000365026	misc_RNA	KNOWN	None	45877	None	None	120724070	120724385	-1	None	None
16	RN7SL520P	ENSG00000240199	ENST00000474110	misc_RNA	KNOWN	None	46536	None	None	75732431	75732728	-1	None	None
8	None	ENSG00000253383	ENST00000522790	processed_pseudogene	KNOWN	None	None	None	None	74502809	74503118	1	None	None
19	None	ENSG00000267443	ENST00000591757	lincRNA	KNOWN	None	None	None	None	397589	398941	1	None	None
4	COX7B2	ENSG00000170516	ENST00000396533	protein_coding	KNOWN	CCDS3472	24381	246	81	46736844	46911224	-1	None	None
4	COX7B2	ENSG00000170516	ENST00000355591	protein_coding	KNOWN	CCDS3472	24381	246	81	46736844	46911248	-1	None	None
4	COX7B2	ENSG00000170516	ENST00000505102	protein_coding	KNOWN	None	24381	98	31	46737112	46911252	-1	None	None
4	COX7B2	ENSG00000170516	ENST00000302930	protein_coding	KNOWN	CCDS3472	24381	246	81	46736849	46894123	-1	None	None
4	COX7B2	ENSG00000170516	ENST00000543208	protein_coding	KNOWN	None	24381	243	80	46736849	46878777	-1	None	None
3	ABI3BP	ENSG00000154175	ENST00000471714	protein_coding	NOVEL	None	17265	5334	1777	100468000	100712359	-1	None	NESHBP, DKFZP586L2024, TARSH
3	ABI3BP	ENSG00000154175	ENST00000470336	retained_intron	KNOWN	None	17265	None	None	100468179	100565393	-1	None	NESHBP, DKFZP586L2024, TARSH
3	ABI3BP	ENSG00000154175	ENST00000284322	protein_coding	KNOWN	CCDS46880	17265	3228	1075	100468179	100712359	-1	None	NESHBP, DKFZP586L2024, TARSH
3	ABI3BP	ENSG00000154175	ENST00000495591	protein_coding	NOVEL	None	17265	3395	1130	100469084	100565272	-1	None	NESHBP, DKFZP586L2024, TARSH
3	ABI3BP	ENSG00000154175	ENST00000487012	retained_intron	KNOWN	None	17265	None	None	100469300	100556037	-1	None	NESHBP, DKFZP586L2024, TARSH
3	ABI3BP	ENSG00000154175	ENST00000497021	retained_intron	KNOWN	None	17265	None	None	100471351	100484750	-1	None	NESHBP, DKFZP586L2024, TARSH
3	ABI3BP	ENSG00000154175	ENST00000486770	protein_coding	PUTATIVE	None	17265	700	232	100489731	100523696	-1	None	NESHBP, DKFZP586L2024, TARSH
3	ABI3BP	ENSG00000154175	ENST00000469764	processed_transcript	KNOWN	None	17265	None	None	100493448	100497471	-1	None	NESHBP, DKFZP586L2024, TARSH
3	ABI3BP	ENSG00000154175	ENST00000497395	protein_coding	PUTATIVE	None	17265	566	187	100494135	100523688	-1	None	NESHBP, DKFZP586L2024, TARSH
3	ABI3BP	ENSG00000154175	ENST00000471901	protein_coding	PUTATIVE	None	17265	922	306	100498975	100551158	-1	None	NESHBP, DKFZP586L2024, TARSH
3	ABI3BP	ENSG00000154175	ENST00000527943	protein_coding	PUTATIVE	None	17265	453	150	100513767	100530121	-1	None	NESHBP, DKFZP586L2024, TARSH
3	ABI3BP	ENSG00000154175	ENST00000482765	protein_coding	PUTATIVE	None	17265	475	157	100513767	100531368	-1	None	NESHBP, DKFZP586L2024, TARSH
3	ABI3BP	ENSG00000154175	ENST00000478235	protein_coding	PUTATIVE	None	17265	561	186	100513767	100551149	-1	None	NESHBP, DKFZP586L2024, TARSH
3	ABI3BP	ENSG00000154175	ENST00000466947	protein_coding	PUTATIVE	None	17265	560	185	100513767	100565274	-1	None	NESHBP, DKFZP586L2024, TARSH
3	ABI3BP	ENSG00000154175	ENST00000533795	protein_coding	PUTATIVE	None	17265	563	186	100527037	100559006	-1	None	NESHBP, DKFZP586L2024, TARSH
3	ABI3BP	ENSG00000154175	ENST00000528305	protein_coding	PUTATIVE	None	17265	375	124	100532505	100585800	-1	None	NESHBP, DKFZP586L2024, TARSH
3	ABI3BP	ENSG00000154175	ENST00000495063	protein_coding	PUTATIVE	None	17265	3018	1005	100534855	100712297	-1	None	NESHBP, DKFZP586L2024, TARSH
3	ABI3BP	ENSG00000154175	ENST00000528490	protein_coding	PUTATIVE	None	17265	561	186	100547237	100566517	-1	None	NESHBP, DKFZP586L2024, TARSH
3	ABI3BP	ENSG00000154175	ENST00000487249	retained_intron	KNOWN	None	17265	None	None	100549422	100556167	-1	None	NESHBP, DKFZP586L2024, TARSH
3	ABI3BP	ENSG00000154175	ENST00000534413	protein_coding	PUTATIVE	None	17265	450	149	100551108	100559702	-1	None	NESHBP, DKFZP586L2024, TARSH
3	ABI3BP	ENSG00000154175	ENST00000534256	protein_coding	PUTATIVE	None	17265	261	86	100555968	100560874	-1	None	NESHBP, DKFZP586L2024, TARSH
3	ABI3BP	ENSG00000154175	ENST00000533855	protein_coding	PUTATIVE	None	17265	910	302	100557251	100585764	-1	None	NESHBP, DKFZP586L2024, TARSH
3	ABI3BP	ENSG00000154175	ENST00000459682	protein_coding	PUTATIVE	None	17265	251	82	100568889	100581707	-1	None	NESHBP, DKFZP586L2024, TARSH
3	ABI3BP	ENSG00000154175	ENST00000483129	protein_coding	NOVEL	None	17265	560	185	100581155	100604422	-1	None	NESHBP, DKFZP586L2024, TARSH
3	ABI3BP	ENSG00000154175	ENST00000475896	retained_intron	KNOWN	None	17265	None	None	100581262	100712294	-1	None	NESHBP, DKFZP586L2024, TARSH
3	ABI3BP	ENSG00000154175	ENST00000527258	protein_coding	PUTATIVE	None	17265	573	190	100594374	100633308	-1	None	NESHBP, DKFZP586L2024, TARSH
3	ABI3BP	ENSG00000154175	ENST00000530539	protein_coding	NOVEL	None	17265	484	160	100604986	100712336	-1	None	NESHBP, DKFZP586L2024, TARSH
3	ABI3BP	ENSG00000154175	ENST00000530236	nonsense_mediated_decay	KNOWN	None	17265	183	60	100617648	100712265	-1	None	NESHBP, DKFZP586L2024, TARSH
3	ABI3BP	ENSG00000154175	ENST00000532144	processed_transcript	KNOWN	None	17265	None	None	100617681	100649838	-1	None	NESHBP, DKFZP586L2024, TARSH
3	ABI3BP	ENSG00000154175	ENST00000383691	protein_coding	KNOWN	None	17265	3090	1029	100469084	100565272	-1	None	NESHBP, DKFZP586L2024, TARSH
14	MIR889	ENSG00000216099	ENST00000401280	miRNA	KNOWN	None	33651	None	None	101514238	101514316	1	MIRN889	hsa-mir-889
16	PARD6A	ENSG00000102981	ENST00000602551	protein_coding	NOVEL	None	15943	951	316	67694849	67696677	1	None	PAR-6, PAR-6A, TAX40, PAR6alpha, TIP-40
16	PARD6A	ENSG00000102981	ENST00000458121	protein_coding	KNOWN	CCDS45514	15943	1038	345	67694851	67696681	1	None	PAR-6, PAR-6A, TAX40, PAR6alpha, TIP-40
16	PARD6A	ENSG00000102981	ENST00000219255	protein_coding	KNOWN	CCDS10843	15943	1041	346	67694862	67696677	1	None	PAR-6, PAR-6A, TAX40, PAR6alpha, TIP-40
16	PARD6A	ENSG00000102981	ENST00000602727	retained_intron	KNOWN	None	15943	None	None	67695135	67696633	1	None	PAR-6, PAR-6A, TAX40, PAR6alpha, TIP-40
10	None	ENSG00000234382	ENST00000423182	unprocessed_pseudogene	KNOWN	None	None	None	None	81993420	82005123	1	None	None
19	RNA5SP462	ENSG00000252539	ENST00000516730	rRNA	KNOWN	None	43362	None	None	453134	453245	1	RN5S462	None
19	EFNA2	ENSG00000099617	ENST00000215368	protein_coding	KNOWN	CCDS12061	3222	642	213	1286153	1301430	1	EPLG6	ELF-1, LERK6
12	None	ENSG00000238105	ENST00000304813	retained_intron	KNOWN	None	None	None	None	100550135	100555056	-1	None	None
12	None	ENSG00000238105	ENST00000397112	processed_transcript	KNOWN	None	None	None	None	100550190	100567437	-1	None	None
12	None	ENSG00000238105	ENST00000545820	retained_intron	KNOWN	None	None	None	None	100550195	100555428	-1	None	None
12	None	ENSG00000238105	ENST00000537988	retained_intron	KNOWN	None	None	None	None	100550217	100556612	-1	None	None
12	None	ENSG00000238105	ENST00000266746	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	100550399	100566937	-1	None	None
12	None	ENSG00000238105	ENST00000546413	retained_intron	KNOWN	None	None	None	None	100557020	100559954	-1	None	None
12	None	ENSG00000238105	ENST00000421840	processed_transcript	KNOWN	None	None	None	None	100558826	100567023	-1	None	None
12	None	ENSG00000238105	ENST00000456437	unprocessed_pseudogene	KNOWN	None	None	None	None	100550784	100551852	-1	None	None
12	None	ENSG00000238105	ENST00000429462	unprocessed_pseudogene	KNOWN	None	None	None	None	100552517	100567071	-1	None	None
15	None	ENSG00000270964	ENST00000604760	lincRNA	KNOWN	None	None	None	None	67833410	67834942	-1	None	None
19	None	ENSG00000266933	ENST00000592413	antisense	KNOWN	None	None	None	None	490046	507813	-1	None	None
21	DSCR8	ENSG00000198054	ENST00000478613	processed_transcript	KNOWN	None	16707	None	None	39493545	39528605	1	C21orf65	MTAG2, CT25.1a, CT25.1b, MMA-1a, MMA-1b
21	DSCR8	ENSG00000198054	ENST00000469658	processed_transcript	KNOWN	None	16707	None	None	39493567	39528605	1	C21orf65	MTAG2, CT25.1a, CT25.1b, MMA-1a, MMA-1b
21	DSCR8	ENSG00000198054	ENST00000400477	protein_coding	KNOWN	None	16707	276	91	39493567	39528605	1	C21orf65	MTAG2, CT25.1a, CT25.1b, MMA-1a, MMA-1b
21	DSCR8	ENSG00000198054	ENST00000495344	processed_transcript	KNOWN	None	16707	None	None	39493567	39528605	1	C21orf65	MTAG2, CT25.1a, CT25.1b, MMA-1a, MMA-1b
21	DSCR8	ENSG00000198054	ENST00000465532	processed_transcript	KNOWN	None	16707	None	None	39493567	39528605	1	C21orf65	MTAG2, CT25.1a, CT25.1b, MMA-1a, MMA-1b
21	DSCR8	ENSG00000198054	ENST00000357704	protein_coding	KNOWN	None	16707	294	97	39493567	39528605	1	C21orf65	MTAG2, CT25.1a, CT25.1b, MMA-1a, MMA-1b
21	DSCR8	ENSG00000198054	ENST00000472602	processed_transcript	KNOWN	None	16707	None	None	39527643	39560110	1	C21orf65	MTAG2, CT25.1a, CT25.1b, MMA-1a, MMA-1b
4	METTL14	ENSG00000145388	ENST00000388822	protein_coding	KNOWN	CCDS34053	29330	1371	456	119606523	119633806	1	None	KIAA1627
4	METTL14	ENSG00000145388	ENST00000506780	protein_coding	NOVEL	None	29330	1257	418	119606568	119631758	1	None	KIAA1627
4	METTL14	ENSG00000145388	ENST00000508801	protein_coding	PUTATIVE	None	29330	365	120	119606570	119610584	1	None	KIAA1627
4	METTL14	ENSG00000145388	ENST00000502564	retained_intron	KNOWN	None	29330	None	None	119613197	119625209	1	None	KIAA1627
14	MIR544A	ENSG00000207587	ENST00000384855	miRNA	KNOWN	None	32530	None	None	101514995	101515085	1	MIRN544, MIR544	hsa-mir-544
11	None	ENSG00000170276	ENST00000304298	protein_coding	KNOWN	CCDS8352	None	549	182	111782966	111784817	1	None	None
11	None	ENSG00000170276	ENST00000537382	protein_coding	KNOWN	CCDS8352	None	549	182	111783460	111789574	1	None	None
8	VENTXP6	ENSG00000254105	ENST00000521543	processed_pseudogene	KNOWN	None	32216	None	None	74563524	74563837	1	None	None
HG299_PATCH	HYOU1	ENSG00000262812	ENST00000572084	protein_coding	NOVEL	None	16931	2814	937	118914898	118927867	-1	None	ORP150, HSP12A, Grp170
HG299_PATCH	HYOU1	ENSG00000262812	ENST00000572361	protein_coding	NOVEL	None	16931	2814	937	118916022	118927844	-1	None	ORP150, HSP12A, Grp170
HG299_PATCH	HYOU1	ENSG00000262812	ENST00000571646	protein_coding	KNOWN	None	16931	3000	999	118916023	118927847	-1	None	ORP150, HSP12A, Grp170
HG299_PATCH	HYOU1	ENSG00000262812	ENST00000576732	nonsense_mediated_decay	KNOWN	None	16931	117	38	118919071	118927849	-1	None	ORP150, HSP12A, Grp170
HG299_PATCH	HYOU1	ENSG00000262812	ENST00000572660	protein_coding	KNOWN	None	16931	1959	652	118919762	118927560	-1	None	ORP150, HSP12A, Grp170
HG299_PATCH	HYOU1	ENSG00000262812	ENST00000575010	retained_intron	KNOWN	None	16931	None	None	118923084	118926129	-1	None	ORP150, HSP12A, Grp170
HG299_PATCH	HYOU1	ENSG00000262812	ENST00000571083	protein_coding	KNOWN	None	16931	673	223	118925210	118927815	-1	None	ORP150, HSP12A, Grp170
HG299_PATCH	HYOU1	ENSG00000262812	ENST00000576667	nonsense_mediated_decay	KNOWN	None	16931	117	38	118925296	118927912	-1	None	ORP150, HSP12A, Grp170
HG299_PATCH	HYOU1	ENSG00000262812	ENST00000573138	protein_coding	KNOWN	None	16931	474	157	118925717	118927852	-1	None	ORP150, HSP12A, Grp170
HG299_PATCH	HYOU1	ENSG00000262812	ENST00000572633	retained_intron	KNOWN	None	16931	None	None	118925734	118927620	-1	None	ORP150, HSP12A, Grp170
HG299_PATCH	HYOU1	ENSG00000262812	ENST00000571479	protein_coding	KNOWN	None	16931	447	148	118925744	118927885	-1	None	ORP150, HSP12A, Grp170
HG299_PATCH	HYOU1	ENSG00000262812	ENST00000574351	retained_intron	KNOWN	None	16931	None	None	118925866	118927822	-1	None	ORP150, HSP12A, Grp170
HG299_PATCH	HYOU1	ENSG00000262812	ENST00000576391	retained_intron	KNOWN	None	16931	None	None	118925913	118927844	-1	None	ORP150, HSP12A, Grp170
HG299_PATCH	HYOU1	ENSG00000262812	ENST00000575856	protein_coding	KNOWN	None	16931	308	101	118926007	118927839	-1	None	ORP150, HSP12A, Grp170
HG299_PATCH	HYOU1	ENSG00000262812	ENST00000571867	protein_coding	KNOWN	None	16931	276	91	118926039	118927852	-1	None	ORP150, HSP12A, Grp170
HG299_PATCH	HYOU1	ENSG00000262812	ENST00000576424	retained_intron	KNOWN	None	16931	None	None	118926204	118927852	-1	None	ORP150, HSP12A, Grp170
3	EOMES	ENSG00000163508	ENST00000295743	protein_coding	KNOWN	CCDS2646	3372	2061	686	27757440	27763989	-1	None	TBR2
3	EOMES	ENSG00000163508	ENST00000449599	protein_coding	KNOWN	None	3372	2118	705	27757868	27763803	-1	None	TBR2
3	EOMES	ENSG00000163508	ENST00000461503	processed_transcript	KNOWN	None	3372	None	None	27760355	27764202	-1	None	TBR2
3	EOMES	ENSG00000163508	ENST00000537516	protein_coding	KNOWN	None	3372	1233	410	27758000	27764206	-1	None	TBR2
2	CHST10	ENSG00000115526	ENST00000264249	protein_coding	KNOWN	CCDS2047	19650	1071	356	101008327	101034118	-1	None	HNK-1ST
2	CHST10	ENSG00000115526	ENST00000409701	protein_coding	KNOWN	CCDS2047	19650	1071	356	101009707	101033473	-1	None	HNK-1ST
2	CHST10	ENSG00000115526	ENST00000484382	processed_transcript	KNOWN	None	19650	None	None	101014370	101033916	-1	None	HNK-1ST
2	CHST10	ENSG00000115526	ENST00000409046	protein_coding	KNOWN	None	19650	424	140	101014373	101033796	-1	None	HNK-1ST
2	CHST10	ENSG00000115526	ENST00000420858	protein_coding	KNOWN	None	19650	399	132	101014398	101032307	-1	None	HNK-1ST
2	CHST10	ENSG00000115526	ENST00000448989	protein_coding	PUTATIVE	None	19650	427	141	101014514	101033649	-1	None	HNK-1ST
2	CHST10	ENSG00000115526	ENST00000421474	protein_coding	KNOWN	None	19650	255	84	101014542	101033802	-1	None	HNK-1ST
2	CHST10	ENSG00000115526	ENST00000418201	protein_coding	KNOWN	None	19650	192	63	101019026	101033813	-1	None	HNK-1ST
2	CHST10	ENSG00000115526	ENST00000435960	protein_coding	KNOWN	None	19650	100	32	101023038	101033841	-1	None	HNK-1ST
2	CHST10	ENSG00000115526	ENST00000485085	processed_transcript	KNOWN	None	19650	None	None	101024135	101034076	-1	None	HNK-1ST
2	CHST10	ENSG00000115526	ENST00000487860	retained_intron	KNOWN	None	19650	None	None	101024636	101033873	-1	None	HNK-1ST
2	CHST10	ENSG00000115526	ENST00000466583	processed_transcript	KNOWN	None	19650	None	None	101031515	101033717	-1	None	HNK-1ST
2	CHST10	ENSG00000115526	ENST00000542617	protein_coding	KNOWN	None	19650	1215	404	101009604	101033649	-1	None	HNK-1ST
13	OLFM4	ENSG00000102837	ENST00000219022	protein_coding	KNOWN	CCDS9440	17190	1533	510	53602894	53626192	1	None	OlfD, GW112, GC1
22	APOL1	ENSG00000100342	ENST00000397278	protein_coding	KNOWN	CCDS13926	618	1197	398	36649056	36663571	1	APOL	None
22	APOL1	ENSG00000100342	ENST00000319136	protein_coding	KNOWN	CCDS13925	618	1245	414	36649124	36663567	1	APOL	None
22	APOL1	ENSG00000100342	ENST00000422471	nonsense_mediated_decay	KNOWN	None	618	426	141	36649177	36657719	1	APOL	None
22	APOL1	ENSG00000100342	ENST00000475519	retained_intron	KNOWN	None	618	None	None	36649179	36653606	1	APOL	None
22	APOL1	ENSG00000100342	ENST00000438034	protein_coding	KNOWN	None	618	354	117	36649179	36657721	1	APOL	None
22	APOL1	ENSG00000100342	ENST00000439680	nonsense_mediated_decay	KNOWN	None	618	372	123	36649179	36657745	1	APOL	None
22	APOL1	ENSG00000100342	ENST00000427990	protein_coding	KNOWN	None	618	479	158	36649179	36661361	1	APOL	None
22	APOL1	ENSG00000100342	ENST00000433768	protein_coding	KNOWN	None	618	424	140	36649207	36657690	1	APOL	None
22	APOL1	ENSG00000100342	ENST00000431184	nonsense_mediated_decay	KNOWN	None	618	429	142	36649210	36657679	1	APOL	None
22	APOL1	ENSG00000100342	ENST00000422706	protein_coding	KNOWN	CCDS13926	618	1197	398	36649117	36663576	1	APOL	None
22	APOL1	ENSG00000100342	ENST00000426053	protein_coding	KNOWN	CCDS46702	618	1143	380	36649117	36663576	1	APOL	None
22	APOL1	ENSG00000100342	ENST00000397279	protein_coding	KNOWN	CCDS13926	618	1197	398	36649187	36663129	1	APOL	None
22	APOL1	ENSG00000100342	ENST00000440669	protein_coding	KNOWN	None	618	426	141	36649207	36661610	1	APOL	None
22	APOL1	ENSG00000100342	ENST00000347595	protein_coding	KNOWN	None	618	834	277	36649181	36662207	1	APOL	None
14	TRAV20	ENSG00000211800	ENST00000390448	TR_V_gene	KNOWN	None	12117	337	111	22508840	22509399	1	None	None
14	MIR655	ENSG00000207646	ENST00000362159	miRNA	KNOWN	None	32911	None	None	101515887	101515983	1	MIRN655	hsa-mir-655
1	None	ENSG00000238771	ENST00000458803	snoRNA	NOVEL	None	None	None	None	12799693	12799796	1	None	None
8	RN7SL396P	ENSG00000244642	ENST00000471086	misc_RNA	KNOWN	None	46412	None	None	120874902	120875181	1	None	None
8	None	ENSG00000254538	ENST00000533978	lincRNA	KNOWN	None	None	None	None	74582676	74640293	1	None	None
8	None	ENSG00000254538	ENST00000534723	lincRNA	KNOWN	None	None	None	None	74640078	74645132	1	None	None
9	ZNF322P1	ENSG00000188801	ENST00000568013	processed_pseudogene	KNOWN	None	14003	None	None	99960585	99961793	-1	ZNF322, ZNF322B	None
9	ZNF322P1	ENSG00000188801	ENST00000375210	processed_pseudogene	KNOWN	None	14003	None	None	99959537	99961910	-1	ZNF322, ZNF322B	None
8	None	ENSG00000245330	ENST00000500705	lincRNA	KNOWN	None	None	None	None	120879659	120886728	-1	None	None
8	None	ENSG00000245330	ENST00000523563	lincRNA	KNOWN	None	None	None	None	120884718	120886723	-1	None	None
15	HNRNPA1P5	ENSG00000259512	ENST00000558213	processed_pseudogene	KNOWN	None	15787	None	None	67920190	67921473	1	None	None
19	None	ENSG00000268460	ENST00000593980	lincRNA	KNOWN	None	None	None	None	46706683	46715832	1	None	None
19	None	ENSG00000268460	ENST00000596066	retained_intron	KNOWN	None	None	None	None	46710000	46713345	1	None	None
19	None	ENSG00000268460	ENST00000598170	lincRNA	KNOWN	None	None	None	None	46713499	46718094	1	None	None
8	RNA5SP277	ENSG00000202356	ENST00000365486	rRNA	KNOWN	None	43177	None	None	120903372	120903469	-1	RN5S277	None
9	None	ENSG00000203279	ENST00000607322	lincRNA	KNOWN	None	None	None	None	99962757	100000982	-1	None	None
9	None	ENSG00000203279	ENST00000366109	lincRNA	KNOWN	None	None	None	None	100000046	100000960	-1	None	None
1	None	ENSG00000228338	ENST00000438401	lincRNA	KNOWN	None	None	None	None	12882549	12883022	-1	None	None
6	RN7SL617P	ENSG00000241162	ENST00000485298	misc_RNA	KNOWN	None	46633	None	None	110761202	110761506	-1	None	None
9	None	ENSG00000235494	ENST00000420204	lincRNA	KNOWN	None	None	None	None	99995483	99997296	1	None	None
6	None	ENSG00000260188	ENST00000569685	antisense	KNOWN	None	None	None	None	110799110	110800639	1	None	None
14	OTUB2	ENSG00000089723	ENST00000203664	protein_coding	KNOWN	CCDS9917	20351	705	234	94492675	94515276	1	C14orf137	FLJ21916, MGC3102
14	OTUB2	ENSG00000089723	ENST00000553723	protein_coding	KNOWN	None	20351	222	73	94492724	94505757	1	C14orf137	FLJ21916, MGC3102
14	TRAV21	ENSG00000211801	ENST00000390449	TR_V_gene	KNOWN	None	12118	336	111	22520773	22521315	1	None	None
6	None	ENSG00000219559	ENST00000405355	processed_pseudogene	KNOWN	None	None	None	None	110883378	110883818	-1	None	None
HSCHR6_MHC_COX	DDR1-AS1	ENSG00000224360	ENST00000414662	processed_transcript	KNOWN	None	28694	None	None	30824631	30833593	-1	TIGD1L	bPG70P20.2, bCX111D4.7, bQB10J12.1
6	RXRB	ENSG00000204231	ENST00000374685	protein_coding	NOVEL	CCDS59007	10478	1614	537	33161365	33168391	-1	None	NR2B2, H-2RIIBP, RCoR-1
6	RXRB	ENSG00000204231	ENST00000374680	protein_coding	KNOWN	CCDS4768	10478	1602	533	33161365	33168465	-1	None	NR2B2, H-2RIIBP, RCoR-1
6	RXRB	ENSG00000204231	ENST00000483281	nonsense_mediated_decay	KNOWN	None	10478	240	79	33161997	33168414	-1	None	NR2B2, H-2RIIBP, RCoR-1
6	RXRB	ENSG00000204231	ENST00000483821	retained_intron	KNOWN	None	10478	None	None	33162441	33163137	-1	None	NR2B2, H-2RIIBP, RCoR-1
6	RXRB	ENSG00000204231	ENST00000481441	retained_intron	KNOWN	None	10478	None	None	33163562	33166412	-1	None	NR2B2, H-2RIIBP, RCoR-1
6	RXRB	ENSG00000204231	ENST00000544186	protein_coding	KNOWN	None	10478	1044	347	33162347	33168630	-1	None	NR2B2, H-2RIIBP, RCoR-1
6	RXRB	ENSG00000204231	ENST00000413614	protein_coding	KNOWN	None	10478	861	286	33163812	33168433	-1	None	NR2B2, H-2RIIBP, RCoR-1
16	LRRC29	ENSG00000125122	ENST00000409509	protein_coding	KNOWN	CCDS32465	13605	672	223	67241042	67260913	-1	FBXL9	FBL9
16	LRRC29	ENSG00000125122	ENST00000409037	protein_coding	KNOWN	CCDS32465	13605	672	223	67241043	67244988	-1	FBXL9	FBL9
16	LRRC29	ENSG00000125122	ENST00000393992	protein_coding	KNOWN	CCDS32465	13605	672	223	67241043	67260721	-1	FBXL9	FBL9
16	LRRC29	ENSG00000125122	ENST00000433915	protein_coding	NOVEL	None	13605	485	160	67241551	67260916	-1	FBXL9	FBL9
16	LRRC29	ENSG00000125122	ENST00000424285	protein_coding	KNOWN	None	13605	496	164	67241783	67260780	-1	FBXL9	FBL9
16	LRRC29	ENSG00000125122	ENST00000447579	protein_coding	NOVEL	None	13605	546	181	67242293	67260691	-1	FBXL9	FBL9
16	LRRC29	ENSG00000125122	ENST00000462169	processed_transcript	PUTATIVE	None	13605	None	None	67244251	67260930	-1	FBXL9	FBL9
16	LRRC29	ENSG00000125122	ENST00000485549	processed_transcript	PUTATIVE	None	13605	None	None	67244643	67260951	-1	FBXL9	FBL9
16	LRRC29	ENSG00000125122	ENST00000341546	protein_coding	KNOWN	CCDS32465	13605	672	223	67241043	67260901	-1	FBXL9	FBL9
HSCHR6_MHC_COX	MIR4640	ENSG00000264008	ENST00000577264	miRNA	KNOWN	None	41561	None	None	30848554	30848643	1	None	hsa-mir-4640
9	None	ENSG00000254876	ENST00000527128	retained_intron	KNOWN	None	None	None	None	100000731	100054275	1	None	None
9	None	ENSG00000254876	ENST00000375204	processed_transcript	KNOWN	None	None	None	None	100000765	100059596	1	None	None
3	CCDC80	ENSG00000091986	ENST00000206423	protein_coding	KNOWN	CCDS2968	30649	2853	950	112323407	112360116	-1	None	URB, SSG1, DRO1
3	CCDC80	ENSG00000091986	ENST00000439685	protein_coding	KNOWN	CCDS2968	30649	2853	950	112323948	112360147	-1	None	URB, SSG1, DRO1
3	CCDC80	ENSG00000091986	ENST00000479368	protein_coding	PUTATIVE	None	30649	637	211	112324314	112329127	-1	None	URB, SSG1, DRO1
3	CCDC80	ENSG00000091986	ENST00000461431	protein_coding	NOVEL	None	30649	781	259	112324447	112356944	-1	None	URB, SSG1, DRO1
3	CCDC80	ENSG00000091986	ENST00000475181	processed_transcript	PUTATIVE	None	30649	None	None	112358247	112359903	-1	None	URB, SSG1, DRO1
3	CCDC80	ENSG00000091986	ENST00000469554	processed_transcript	PUTATIVE	None	30649	None	None	112359279	112359990	-1	None	URB, SSG1, DRO1
3	CCDC80	ENSG00000091986	ENST00000473959	processed_transcript	KNOWN	None	30649	None	None	112359568	112368294	-1	None	URB, SSG1, DRO1
3	CCDC80	ENSG00000091986	ENST00000480275	processed_transcript	PUTATIVE	None	30649	None	None	112359613	112368377	-1	None	URB, SSG1, DRO1
13	PRR20A	ENSG00000204919	ENST00000377931	protein_coding	KNOWN	CCDS31981	24754	666	221	57715052	57718073	1	PRR20	FLJ40296
HSCHR6_MHC_COX	None	ENSG00000266178	ENST00000582837	misc_RNA	NOVEL	None	None	None	None	30890115	30890203	-1	None	None
6	None	ENSG00000270934	ENST00000603085	processed_pseudogene	KNOWN	None	None	None	None	110919296	110919908	1	None	None
6	DEK	ENSG00000124795	ENST00000397239	protein_coding	KNOWN	CCDS34344	2768	1128	375	18224099	18265054	-1	None	D6S231E
6	DEK	ENSG00000124795	ENST00000505224	nonsense_mediated_decay	KNOWN	None	2768	1044	347	18225256	18264766	-1	None	D6S231E
6	DEK	ENSG00000124795	ENST00000244776	protein_coding	KNOWN	CCDS47382	2768	1026	341	18225701	18264772	-1	None	D6S231E
6	DEK	ENSG00000124795	ENST00000507591	protein_coding	PUTATIVE	None	2768	471	156	18226110	18249971	-1	None	D6S231E
6	DEK	ENSG00000124795	ENST00000515770	nonsense_mediated_decay	KNOWN	None	2768	485	160	18236723	18256670	-1	None	D6S231E
6	DEK	ENSG00000124795	ENST00000512145	retained_intron	KNOWN	None	2768	None	None	18237281	18256605	-1	None	D6S231E
6	DEK	ENSG00000124795	ENST00000503715	protein_coding	PUTATIVE	None	2768	367	121	18255967	18264772	-1	None	D6S231E
6	DEK	ENSG00000124795	ENST00000515742	protein_coding	PUTATIVE	None	2768	455	150	18256604	18264439	-1	None	D6S231E
4	EMCN	ENSG00000164035	ENST00000296420	protein_coding	KNOWN	CCDS3655	16041	786	261	101316498	101439250	-1	None	MUC14
4	EMCN	ENSG00000164035	ENST00000305864	protein_coding	KNOWN	None	16041	537	178	101318621	101439160	-1	None	MUC14
4	EMCN	ENSG00000164035	ENST00000506300	protein_coding	NOVEL	None	16041	231	76	101318951	101396234	-1	None	MUC14
4	EMCN	ENSG00000164035	ENST00000511970	protein_coding	NOVEL	CCDS54782	16041	747	248	101319027	101439158	-1	None	MUC14
4	EMCN	ENSG00000164035	ENST00000502569	protein_coding	NOVEL	None	16041	495	164	101342455	101439159	-1	None	MUC14
4	EMCN	ENSG00000164035	ENST00000502327	processed_transcript	KNOWN	None	16041	None	None	101367177	101439165	-1	None	MUC14
4	EMCN	ENSG00000164035	ENST00000512253	processed_transcript	KNOWN	None	16041	None	None	101386658	101439158	-1	None	MUC14
4	EMCN	ENSG00000164035	ENST00000506323	processed_transcript	KNOWN	None	16041	None	None	101395011	101439179	-1	None	MUC14
4	EMCN	ENSG00000164035	ENST00000510657	processed_transcript	KNOWN	None	16041	None	None	101401129	101801283	-1	None	MUC14
4	EMCN	ENSG00000164035	ENST00000502744	processed_transcript	KNOWN	None	16041	None	None	101404534	101439155	-1	None	MUC14
HSCHR6_MHC_COX	HCG21	ENSG00000223454	ENST00000455908	processed_transcript	KNOWN	None	31335	None	None	30903456	30912338	-1	None	AB023048.2, NCRNA00150
HSCHR6_MHC_COX	None	ENSG00000257917	ENST00000551795	protein_coding	NOVEL	None	None	108	35	28731301	28731408	1	None	None
6	None	ENSG00000213150	ENST00000392575	processed_pseudogene	KNOWN	None	None	None	None	110966902	110967761	1	None	None
5	None	ENSG00000229855	ENST00000599562	lincRNA	KNOWN	None	None	None	None	120535399	120661174	1	None	None
5	None	ENSG00000229855	ENST00000433406	lincRNA	KNOWN	None	None	None	None	120658245	120661532	1	None	None
5	None	ENSG00000229855	ENST00000596736	lincRNA	KNOWN	None	None	None	None	120658249	120661651	1	None	None
5	None	ENSG00000229855	ENST00000594690	lincRNA	KNOWN	None	None	None	None	120658249	120686145	1	None	None
5	None	ENSG00000229855	ENST00000597452	lincRNA	KNOWN	None	None	None	None	120658249	120693093	1	None	None
5	PWWP2A	ENSG00000170234	ENST00000524050	nonsense_mediated_decay	KNOWN	None	29406	106	34	159488808	159520187	-1	None	KIAA1935
5	PWWP2A	ENSG00000170234	ENST00000456329	protein_coding	KNOWN	CCDS47331	29406	1683	560	159502889	159546430	-1	None	KIAA1935
5	PWWP2A	ENSG00000170234	ENST00000521424	nonsense_mediated_decay	KNOWN	None	29406	210	69	159504851	159520291	-1	None	KIAA1935
5	PWWP2A	ENSG00000170234	ENST00000523662	protein_coding	NOVEL	CCDS58990	29406	1563	520	159504940	159546429	-1	None	KIAA1935
5	PWWP2A	ENSG00000170234	ENST00000307063	protein_coding	KNOWN	CCDS47332	29406	2268	755	159518349	159546430	-1	None	KIAA1935
5	PWWP2A	ENSG00000170234	ENST00000520662	nonsense_mediated_decay	KNOWN	None	29406	150	49	159520765	159545840	-1	None	KIAA1935
6	None	ENSG00000217041	ENST00000406786	processed_pseudogene	KNOWN	None	None	None	None	111021765	111022103	1	None	None
10	None	ENSG00000226864	ENST00000437593	antisense	KNOWN	None	None	None	None	123687827	123711480	1	None	None
20	PLCG1	ENSG00000124181	ENST00000244007	protein_coding	KNOWN	CCDS13313	9065	3876	1291	39765600	39804361	1	PLC1	PLC148, PLC-II, PLCgamma1, NCKAP3
20	PLCG1	ENSG00000124181	ENST00000373271	protein_coding	KNOWN	CCDS13314	9065	3873	1290	39765877	39804361	1	PLC1	PLC148, PLC-II, PLCgamma1, NCKAP3
20	PLCG1	ENSG00000124181	ENST00000490253	retained_intron	KNOWN	None	9065	None	None	39766190	39788463	1	PLC1	PLC148, PLC-II, PLCgamma1, NCKAP3
20	PLCG1	ENSG00000124181	ENST00000483646	processed_transcript	KNOWN	None	9065	None	None	39766372	39791177	1	PLC1	PLC148, PLC-II, PLCgamma1, NCKAP3
20	PLCG1	ENSG00000124181	ENST00000492148	retained_intron	KNOWN	None	9065	None	None	39791614	39792662	1	PLC1	PLC148, PLC-II, PLCgamma1, NCKAP3
20	PLCG1	ENSG00000124181	ENST00000470528	retained_intron	KNOWN	None	9065	None	None	39791814	39792645	1	PLC1	PLC148, PLC-II, PLCgamma1, NCKAP3
20	PLCG1	ENSG00000124181	ENST00000473632	processed_transcript	PUTATIVE	None	9065	None	None	39793920	39794500	1	PLC1	PLC148, PLC-II, PLCgamma1, NCKAP3
20	PLCG1	ENSG00000124181	ENST00000465571	processed_transcript	PUTATIVE	None	9065	None	None	39794710	39795520	1	PLC1	PLC148, PLC-II, PLCgamma1, NCKAP3
20	PLCG1	ENSG00000124181	ENST00000477870	retained_intron	KNOWN	None	9065	None	None	39796297	39799258	1	PLC1	PLC148, PLC-II, PLCgamma1, NCKAP3
20	PLCG1	ENSG00000124181	ENST00000483175	retained_intron	KNOWN	None	9065	None	None	39797396	39799348	1	PLC1	PLC148, PLC-II, PLCgamma1, NCKAP3
20	PLCG1	ENSG00000124181	ENST00000599785	nonsense_mediated_decay	KNOWN	None	9065	153	50	39798829	39811629	1	PLC1	PLC148, PLC-II, PLCgamma1, NCKAP3
20	PLCG1	ENSG00000124181	ENST00000461641	processed_transcript	PUTATIVE	None	9065	None	None	39801051	39802952	1	PLC1	PLC148, PLC-II, PLCgamma1, NCKAP3
20	PLCG1	ENSG00000124181	ENST00000373272	protein_coding	KNOWN	CCDS13313	9065	3876	1291	39765877	39804361	1	PLC1	PLC148, PLC-II, PLCgamma1, NCKAP3
11	MEN1	ENSG00000133895	ENST00000377316	protein_coding	NOVEL	None	7010	1668	555	64570982	64577957	-1	None	None
11	MEN1	ENSG00000133895	ENST00000377321	protein_coding	NOVEL	None	7010	1728	575	64570988	64578030	-1	None	None
11	MEN1	ENSG00000133895	ENST00000377326	protein_coding	KNOWN	CCDS31600	7010	1833	610	64570988	64578080	-1	None	None
11	MEN1	ENSG00000133895	ENST00000312049	protein_coding	KNOWN	CCDS31600	7010	1833	610	64570988	64578188	-1	None	None
11	MEN1	ENSG00000133895	ENST00000315422	protein_coding	KNOWN	CCDS31600	7010	1833	610	64570988	64578213	-1	None	None
11	MEN1	ENSG00000133895	ENST00000377313	protein_coding	KNOWN	CCDS8083	7010	1848	615	64571806	64577604	-1	None	None
11	MEN1	ENSG00000133895	ENST00000478548	processed_transcript	KNOWN	None	7010	None	None	64571847	64573840	-1	None	None
11	MEN1	ENSG00000133895	ENST00000487019	processed_transcript	KNOWN	None	7010	None	None	64572598	64573464	-1	None	None
11	MEN1	ENSG00000133895	ENST00000440873	protein_coding	KNOWN	None	7010	1039	345	64573714	64578030	-1	None	None
11	MEN1	ENSG00000133895	ENST00000450708	protein_coding	KNOWN	None	7010	843	280	64574552	64578053	-1	None	None
11	MEN1	ENSG00000133895	ENST00000413626	protein_coding	KNOWN	None	7010	783	260	64575024	64577993	-1	None	None
11	MEN1	ENSG00000133895	ENST00000429702	protein_coding	KNOWN	None	7010	440	145	64577142	64578766	-1	None	None
11	MEN1	ENSG00000133895	ENST00000424912	protein_coding	KNOWN	None	7010	440	145	64577142	64578766	-1	None	None
11	MEN1	ENSG00000133895	ENST00000337652	protein_coding	KNOWN	CCDS8083	7010	1848	615	64570996	64578766	-1	None	None
11	MEN1	ENSG00000133895	ENST00000394376	protein_coding	KNOWN	CCDS8083	7010	1848	615	64570996	64578766	-1	None	None
11	MEN1	ENSG00000133895	ENST00000394374	protein_coding	KNOWN	CCDS8083	7010	1848	615	64570996	64578213	-1	None	None
11	MEN1	ENSG00000133895	ENST00000443283	protein_coding	KNOWN	CCDS8083	7010	1848	615	64570996	64578188	-1	None	None
10	ARMC4P1	ENSG00000238021	ENST00000576034	processed_transcript	KNOWN	None	44937	None	None	27547691	27577753	1	None	None
10	ARMC4P1	ENSG00000238021	ENST00000438905	transcribed_unprocessed_pseudogene	KNOWN	None	44937	None	None	27551886	27577753	1	None	None
1	None	ENSG00000231103	ENST00000438176	unprocessed_pseudogene	KNOWN	None	None	None	None	12897978	12901210	-1	None	None
16	None	ENSG00000260349	ENST00000565648	antisense	KNOWN	None	None	None	None	9199691	9201031	-1	None	None
14	TRAV22	ENSG00000211802	ENST00000390450	TR_V_gene	KNOWN	None	12119	331	109	22538820	22539471	1	None	TCRAV13S1, TCRAV22S1
17	SLC4A1	ENSG00000004939	ENST00000262418	protein_coding	KNOWN	CCDS11481	11027	2736	911	42325753	42345509	-1	EPB3, AE1, DI, WD	RTA1A, CD233, FR, SW, WR
17	SLC4A1	ENSG00000004939	ENST00000497360	retained_intron	KNOWN	None	11027	None	None	42334561	42345492	-1	EPB3, AE1, DI, WD	RTA1A, CD233, FR, SW, WR
17	SLC4A1	ENSG00000004939	ENST00000471005	processed_transcript	KNOWN	None	11027	None	None	42337772	42339434	-1	EPB3, AE1, DI, WD	RTA1A, CD233, FR, SW, WR
17	SLC4A1	ENSG00000004939	ENST00000498270	retained_intron	KNOWN	None	11027	None	None	42338173	42345509	-1	EPB3, AE1, DI, WD	RTA1A, CD233, FR, SW, WR
6	None	ENSG00000219150	ENST00000401964	processed_pseudogene	KNOWN	None	None	None	None	111027565	111028085	-1	None	None
2	KLHL30	ENSG00000168427	ENST00000409223	protein_coding	KNOWN	CCDS46555	24770	1737	578	239047363	239061588	1	None	FLJ43374
2	KLHL30	ENSG00000168427	ENST00000305959	protein_coding	KNOWN	None	24770	1683	560	239047363	239061547	1	None	FLJ43374
16	None	ENSG00000263244	ENST00000574616	sense_intronic	KNOWN	None	None	None	None	9201098	9207038	1	None	None
10	RNU6-728P	ENSG00000202245	ENST00000365375	snRNA	KNOWN	None	47691	None	None	124105205	124105308	1	None	None
10	MIR3941	ENSG00000265442	ENST00000582572	miRNA	KNOWN	None	38949	None	None	124176481	124176583	1	None	hsa-mir-3941
6	RNU6-957P	ENSG00000200522	ENST00000363652	snRNA	KNOWN	None	47920	None	None	111043453	111043551	-1	None	None
11	CD3G	ENSG00000160654	ENST00000533462	retained_intron	KNOWN	None	1675	None	None	118215059	118220913	1	None	None
11	CD3G	ENSG00000160654	ENST00000527777	retained_intron	KNOWN	None	1675	None	None	118215059	118221624	1	None	None
11	CD3G	ENSG00000160654	ENST00000532917	protein_coding	KNOWN	CCDS8395	1675	549	182	118215071	118225876	1	None	None
11	CD3G	ENSG00000160654	ENST00000292144	nonsense_mediated_decay	KNOWN	None	1675	123	40	118215080	118224552	1	None	None
11	CD3G	ENSG00000160654	ENST00000528540	processed_transcript	KNOWN	None	1675	None	None	118215101	118220591	1	None	None
11	CD3G	ENSG00000160654	ENST00000532903	processed_transcript	KNOWN	None	1675	None	None	118215122	118223962	1	None	None
11	CD3G	ENSG00000160654	ENST00000392883	protein_coding	KNOWN	None	1675	237	78	118215059	118224497	1	None	None
HSCHR6_MHC_COX	None	ENSG00000258349	ENST00000548865	pseudogene	NOVEL	None	None	None	None	30955218	30955519	-1	None	None
16	RPL21P119	ENSG00000220793	ENST00000484462	processed_pseudogene	KNOWN	None	35614	None	None	9250259	9250738	-1	None	None
16	RPL21P119	ENSG00000220793	ENST00000403916	processed_pseudogene	KNOWN	None	35614	None	None	9250219	9250761	-1	None	None
6	None	ENSG00000212587	ENST00000391285	snoRNA	NOVEL	None	None	None	None	111169749	111169876	1	None	None
6	RNU6-1115P	ENSG00000199360	ENST00000362490	snRNA	KNOWN	None	48078	None	None	111177620	111177725	1	None	None
X	KLHL4	ENSG00000102271	ENST00000373119	protein_coding	KNOWN	CCDS14457	6355	2157	718	86772752	86925050	1	None	KIAA1687, DKELCHL, KHL4
X	KLHL4	ENSG00000102271	ENST00000373114	protein_coding	KNOWN	CCDS14456	6355	2163	720	86772817	86924596	1	None	KIAA1687, DKELCHL, KHL4
HSCHR6_MHC_COX	None	ENSG00000234063	ENST00000435571	processed_transcript	PUTATIVE	None	None	None	None	30987507	30992304	1	None	None
6	CNN2P9	ENSG00000213149	ENST00000417134	processed_pseudogene	KNOWN	None	39534	None	None	111179442	111180350	1	None	None
17	None	ENSG00000264304	ENST00000579673	antisense	KNOWN	None	None	None	None	27219487	27220360	1	None	None
13	PRR20B	ENSG00000204918	ENST00000377930	protein_coding	KNOWN	CCDS45053	37220	666	221	57721622	57724643	1	None	None
10	None	ENSG00000176584	ENST00000439464	processed_transcript	KNOWN	None	None	None	None	124516210	124557161	1	None	None
10	None	ENSG00000176584	ENST00000607497	transcribed_processed_pseudogene	KNOWN	None	None	None	None	124539597	124544595	1	None	None
10	None	ENSG00000176584	ENST00000605982	processed_transcript	KNOWN	None	None	None	None	124556207	124558696	1	None	None
5	None	ENSG00000244088	ENST00000482216	processed_pseudogene	KNOWN	None	None	None	None	120911543	120912015	-1	None	None
18	LOXHD1	ENSG00000167210	ENST00000300591	protein_coding	KNOWN	CCDS45861	26521	3345	1114	44056935	44139275	-1	DFNB77	FLJ32670, LH2D1
18	LOXHD1	ENSG00000167210	ENST00000398705	protein_coding	KNOWN	CCDS54184	26521	1374	457	44056936	44099034	-1	DFNB77	FLJ32670, LH2D1
18	LOXHD1	ENSG00000167210	ENST00000579038	protein_coding	PUTATIVE	None	26521	3036	1011	44056936	44136732	-1	DFNB77	FLJ32670, LH2D1
18	LOXHD1	ENSG00000167210	ENST00000582408	protein_coding	NOVEL	None	26521	3303	1100	44057223	44139255	-1	DFNB77	FLJ32670, LH2D1
18	LOXHD1	ENSG00000167210	ENST00000398686	protein_coding	KNOWN	CCDS45862	26521	1539	512	44057236	44099049	-1	DFNB77	FLJ32670, LH2D1
18	LOXHD1	ENSG00000167210	ENST00000441551	protein_coding	NOVEL	None	26521	6204	2067	44057413	44236996	-1	DFNB77	FLJ32670, LH2D1
18	LOXHD1	ENSG00000167210	ENST00000414184	protein_coding	PUTATIVE	None	26521	541	179	44085855	44100661	-1	DFNB77	FLJ32670, LH2D1
18	LOXHD1	ENSG00000167210	ENST00000335730	retained_intron	KNOWN	None	26521	None	None	44089530	44181626	-1	DFNB77	FLJ32670, LH2D1
18	LOXHD1	ENSG00000167210	ENST00000452425	protein_coding	PUTATIVE	None	26521	171	56	44089775	44100688	-1	DFNB77	FLJ32670, LH2D1
18	LOXHD1	ENSG00000167210	ENST00000536111	nonsense_mediated_decay	KNOWN	None	26521	921	306	44109263	44135334	-1	DFNB77	FLJ32670, LH2D1
18	LOXHD1	ENSG00000167210	ENST00000419859	protein_coding	PUTATIVE	None	26521	69	22	44126970	44139252	-1	DFNB77	FLJ32670, LH2D1
18	LOXHD1	ENSG00000167210	ENST00000398722	protein_coding	KNOWN	None	26521	5844	1947	44056936	44181479	-1	DFNB77	FLJ32670, LH2D1
18	LOXHD1	ENSG00000167210	ENST00000536736	protein_coding	KNOWN	None	26521	6636	2211	44057223	44236996	-1	DFNB77	FLJ32670, LH2D1
18	LOXHD1	ENSG00000167210	ENST00000441893	protein_coding	KNOWN	None	26521	3435	1144	44057223	44139255	-1	DFNB77	FLJ32670, LH2D1
19	DUXA	ENSG00000258873	ENST00000554048	protein_coding	KNOWN	CCDS33126	32179	615	204	57665389	57678811	-1	None	None
16	None	ENSG00000264694	ENST00000580426	miRNA	NOVEL	None	None	None	None	9407692	9407761	-1	None	None
17	None	ENSG00000266642	ENST00000580603	antisense	KNOWN	None	None	None	None	27224756	27226412	1	None	None
17	None	ENSG00000266642	ENST00000579187	antisense	KNOWN	None	None	None	None	27224799	27225901	1	None	None
16	None	ENSG00000266492	ENST00000581060	miRNA	NOVEL	None	None	None	None	9407764	9407831	-1	None	None
15	C15orf62	ENSG00000188277	ENST00000344320	protein_coding	KNOWN	CCDS45229	34489	528	175	41062159	41064643	1	None	LOC643338
5	None	ENSG00000213661	ENST00000466718	processed_pseudogene	KNOWN	None	None	None	None	120951942	120952502	1	None	None
14	MAP3K9	ENSG00000006432	ENST00000554752	protein_coding	KNOWN	None	6861	3315	1104	71189243	71275888	-1	MLK1	PRKE1, MEKK9
14	MAP3K9	ENSG00000006432	ENST00000555993	protein_coding	KNOWN	CCDS32112	6861	3357	1118	71196368	71276251	-1	MLK1	PRKE1, MEKK9
14	MAP3K9	ENSG00000006432	ENST00000553414	protein_coding	PUTATIVE	None	6861	2514	837	71196383	71250157	-1	MLK1	PRKE1, MEKK9
14	MAP3K9	ENSG00000006432	ENST00000381250	protein_coding	PUTATIVE	None	6861	3246	1081	71196653	71276223	-1	MLK1	PRKE1, MEKK9
14	MAP3K9	ENSG00000006432	ENST00000554146	protein_coding	PUTATIVE	None	6861	2499	832	71196852	71250162	-1	MLK1	PRKE1, MEKK9
14	MAP3K9	ENSG00000006432	ENST00000554024	retained_intron	KNOWN	None	6861	None	None	71216270	71219673	-1	MLK1	PRKE1, MEKK9
14	LINC00617	ENSG00000250366	ENST00000504119	lincRNA	KNOWN	None	44088	None	None	96342729	96391899	1	None	megamind-like
14	LINC00617	ENSG00000250366	ENST00000503525	lincRNA	KNOWN	None	44088	None	None	96343109	96391908	1	None	megamind-like
14	LINC00617	ENSG00000250366	ENST00000554321	lincRNA	KNOWN	None	44088	None	None	96343156	96389392	1	None	megamind-like
6	None	ENSG00000271607	ENST00000605131	processed_pseudogene	KNOWN	None	None	None	None	111185063	111185654	1	None	None
16	None	ENSG00000261617	ENST00000564305	lincRNA	KNOWN	None	None	None	None	9449445	9501950	1	None	None
3	TEX264	ENSG00000164081	ENST00000419358	protein_coding	KNOWN	None	30247	313	103	51696709	51718483	1	None	ZSIG11, FLJ13935
3	TEX264	ENSG00000164081	ENST00000489026	processed_transcript	KNOWN	None	30247	None	None	51705191	51738034	1	None	ZSIG11, FLJ13935
3	TEX264	ENSG00000164081	ENST00000341333	protein_coding	KNOWN	CCDS2833	30247	942	313	51705248	51738339	1	None	ZSIG11, FLJ13935
3	TEX264	ENSG00000164081	ENST00000412249	protein_coding	KNOWN	None	30247	419	138	51705254	51718589	1	None	ZSIG11, FLJ13935
3	TEX264	ENSG00000164081	ENST00000425781	protein_coding	KNOWN	None	30247	453	150	51705261	51718623	1	None	ZSIG11, FLJ13935
3	TEX264	ENSG00000164081	ENST00000415259	protein_coding	KNOWN	CCDS2833	30247	942	313	51705271	51738299	1	None	ZSIG11, FLJ13935
3	TEX264	ENSG00000164081	ENST00000395057	protein_coding	KNOWN	CCDS2833	30247	942	313	51705290	51738337	1	None	ZSIG11, FLJ13935
3	TEX264	ENSG00000164081	ENST00000416589	protein_coding	KNOWN	CCDS2833	30247	942	313	51705312	51738333	1	None	ZSIG11, FLJ13935
3	TEX264	ENSG00000164081	ENST00000493444	processed_transcript	KNOWN	None	30247	None	None	51705643	51737825	1	None	ZSIG11, FLJ13935
3	TEX264	ENSG00000164081	ENST00000457927	protein_coding	KNOWN	None	30247	647	214	51705844	51733588	1	None	ZSIG11, FLJ13935
3	TEX264	ENSG00000164081	ENST00000444233	protein_coding	KNOWN	None	30247	650	215	51705911	51733591	1	None	ZSIG11, FLJ13935
3	TEX264	ENSG00000164081	ENST00000483429	processed_transcript	KNOWN	None	30247	None	None	51708493	51718575	1	None	ZSIG11, FLJ13935
3	TEX264	ENSG00000164081	ENST00000463857	processed_transcript	KNOWN	None	30247	None	None	51715477	51738333	1	None	ZSIG11, FLJ13935
3	TEX264	ENSG00000164081	ENST00000457573	protein_coding	KNOWN	CCDS2833	30247	942	313	51705222	51738338	1	None	ZSIG11, FLJ13935
3	ZNF501	ENSG00000186446	ENST00000396048	protein_coding	KNOWN	CCDS2720	23717	816	271	44771088	44778575	1	ZNF52	MGC21738
3	ZNF501	ENSG00000186446	ENST00000486486	retained_intron	KNOWN	None	23717	None	None	44771116	44773411	1	ZNF52	MGC21738
3	ZNF501	ENSG00000186446	ENST00000491543	processed_transcript	PUTATIVE	None	23717	None	None	44771123	44775791	1	ZNF52	MGC21738
3	ZNF501	ENSG00000186446	ENST00000484233	processed_transcript	PUTATIVE	None	23717	None	None	44771273	44773757	1	ZNF52	MGC21738
5	GTF2H2	ENSG00000145736	ENST00000274400	protein_coding	KNOWN	CCDS34183	4656	1188	395	70330784	70363428	-1	None	BTF2, TFIIH, BTF2P44, T-BTF2P44, p44
5	GTF2H2	ENSG00000145736	ENST00000519783	nonsense_mediated_decay	KNOWN	None	4656	156	51	70330843	70363428	-1	None	BTF2, TFIIH, BTF2P44, T-BTF2P44, p44
5	GTF2H2	ENSG00000145736	ENST00000330280	protein_coding	NOVEL	CCDS34183	4656	1188	395	70330903	70363477	-1	None	BTF2, TFIIH, BTF2P44, T-BTF2P44, p44
5	GTF2H2	ENSG00000145736	ENST00000518898	nonsense_mediated_decay	KNOWN	None	4656	457	151	70331156	70357592	-1	None	BTF2, TFIIH, BTF2P44, T-BTF2P44, p44
5	GTF2H2	ENSG00000145736	ENST00000517900	protein_coding	PUTATIVE	None	4656	372	123	70331409	70363479	-1	None	BTF2, TFIIH, BTF2P44, T-BTF2P44, p44
5	GTF2H2	ENSG00000145736	ENST00000521942	retained_intron	KNOWN	None	4656	None	None	70343283	70358626	-1	None	BTF2, TFIIH, BTF2P44, T-BTF2P44, p44
5	GTF2H2	ENSG00000145736	ENST00000522654	retained_intron	KNOWN	None	4656	None	None	70343916	70363501	-1	None	BTF2, TFIIH, BTF2P44, T-BTF2P44, p44
5	GTF2H2	ENSG00000145736	ENST00000523003	retained_intron	KNOWN	None	4656	None	None	70350857	70363516	-1	None	BTF2, TFIIH, BTF2P44, T-BTF2P44, p44
5	GTF2H2	ENSG00000145736	ENST00000521858	retained_intron	KNOWN	None	4656	None	None	70353702	70358626	-1	None	BTF2, TFIIH, BTF2P44, T-BTF2P44, p44
5	GTF2H2	ENSG00000145736	ENST00000523693	retained_intron	KNOWN	None	4656	None	None	70356334	70363503	-1	None	BTF2, TFIIH, BTF2P44, T-BTF2P44, p44
5	GTF2H2	ENSG00000145736	ENST00000508592	retained_intron	KNOWN	None	4656	None	None	70357237	70358590	-1	None	BTF2, TFIIH, BTF2P44, T-BTF2P44, p44
5	GTF2H2	ENSG00000145736	ENST00000521602	protein_coding	KNOWN	None	4656	71	22	70357578	70363475	-1	None	BTF2, TFIIH, BTF2P44, T-BTF2P44, p44
5	GTF2H2	ENSG00000145736	ENST00000518275	processed_transcript	PUTATIVE	None	4656	None	None	70358579	70363465	-1	None	BTF2, TFIIH, BTF2P44, T-BTF2P44, p44
5	GTF2H2	ENSG00000145736	ENST00000425596	protein_coding	KNOWN	None	4656	1017	338	70330842	70363430	-1	None	BTF2, TFIIH, BTF2P44, T-BTF2P44, p44
HSCHR6_MHC_COX	TRIM27	ENSG00000237071	ENST00000435528	protein_coding	KNOWN	None	9975	1542	513	28871599	28892590	-1	RFP	RNF76
HSCHR6_MHC_COX	TRIM27	ENSG00000237071	ENST00000427689	protein_coding	KNOWN	None	9975	1077	358	28871599	28892589	-1	RFP	RNF76
HSCHR6_MHC_COX	TRIM27	ENSG00000237071	ENST00000453610	protein_coding	KNOWN	None	9975	745	247	28871599	28877582	-1	RFP	RNF76
HSCHR6_MHC_COX	TRIM27	ENSG00000237071	ENST00000485666	processed_transcript	KNOWN	None	9975	None	None	28871600	28892514	-1	RFP	RNF76
HSCHR6_MHC_COX	TRIM27	ENSG00000237071	ENST00000478121	processed_transcript	KNOWN	None	9975	None	None	28873071	28876181	-1	RFP	RNF76
HSCHR6_MHC_COX	TRIM27	ENSG00000237071	ENST00000493717	processed_transcript	KNOWN	None	9975	None	None	28879902	28890577	-1	RFP	RNF76
HSCHR6_MHC_COX	TRIM27	ENSG00000237071	ENST00000480250	processed_transcript	KNOWN	None	9975	None	None	28883374	28888784	-1	RFP	RNF76
5	None	ENSG00000249600	ENST00000509365	processed_pseudogene	KNOWN	None	None	None	None	121007068	121007567	-1	None	None
X	OFD1	ENSG00000046651	ENST00000340096	protein_coding	KNOWN	CCDS14157	2567	3039	1012	13752864	13787472	1	CXorf5, RP23	71-7A, JBTS10
X	OFD1	ENSG00000046651	ENST00000380567	protein_coding	KNOWN	None	2567	2619	872	13752864	13787472	1	CXorf5, RP23	71-7A, JBTS10
X	OFD1	ENSG00000046651	ENST00000485052	processed_transcript	KNOWN	None	2567	None	None	13752876	13754666	1	CXorf5, RP23	71-7A, JBTS10
X	OFD1	ENSG00000046651	ENST00000490265	processed_transcript	KNOWN	None	2567	None	None	13752880	13787472	1	CXorf5, RP23	71-7A, JBTS10
X	OFD1	ENSG00000046651	ENST00000466534	processed_transcript	KNOWN	None	2567	None	None	13756813	13757433	1	CXorf5, RP23	71-7A, JBTS10
X	OFD1	ENSG00000046651	ENST00000464463	processed_transcript	KNOWN	None	2567	None	None	13778759	13787290	1	CXorf5, RP23	71-7A, JBTS10
X	OFD1	ENSG00000046651	ENST00000474705	processed_transcript	KNOWN	None	2567	None	None	13786024	13787292	1	CXorf5, RP23	71-7A, JBTS10
X	OFD1	ENSG00000046651	ENST00000380550	protein_coding	KNOWN	None	2567	2919	972	13752832	13787480	1	CXorf5, RP23	71-7A, JBTS10
X	OFD1	ENSG00000046651	ENST00000398395	protein_coding	KNOWN	None	2567	1104	367	13752851	13771024	1	CXorf5, RP23	71-7A, JBTS10
3	EI24P1	ENSG00000236357	ENST00000416584	processed_pseudogene	KNOWN	None	44586	None	None	175785830	175786696	-1	None	None
16	None	ENSG00000261397	ENST00000568030	lincRNA	KNOWN	None	None	None	None	9535151	9538842	-1	None	None
5	PFDN1	ENSG00000113068	ENST00000261813	protein_coding	KNOWN	CCDS4222	8866	369	122	139624624	139682706	-1	None	PFD1
5	PFDN1	ENSG00000113068	ENST00000514611	processed_transcript	PUTATIVE	None	8866	None	None	139624672	139680168	-1	None	PFD1
5	PFDN1	ENSG00000113068	ENST00000510217	protein_coding	PUTATIVE	None	8866	108	35	139624710	139682698	-1	None	PFD1
5	PFDN1	ENSG00000113068	ENST00000512707	retained_intron	KNOWN	None	8866	None	None	139624932	139661120	-1	None	PFD1
5	PFDN1	ENSG00000113068	ENST00000524074	protein_coding	PUTATIVE	None	8866	354	117	139625033	139682668	-1	None	PFD1
5	PFDN1	ENSG00000113068	ENST00000512925	processed_transcript	KNOWN	None	8866	None	None	139625137	139672792	-1	None	PFD1
5	PFDN1	ENSG00000113068	ENST00000507185	retained_intron	KNOWN	None	8866	None	None	139660545	139682671	-1	None	PFD1
5	None	ENSG00000247311	ENST00000504829	antisense	KNOWN	None	None	None	None	121464457	121490551	-1	None	None
20	DEFB125	ENSG00000178591	ENST00000382410	protein_coding	KNOWN	CCDS12989	18105	471	156	68351	77174	1	None	DEFB-25
17	None	ENSG00000265845	ENST00000580782	antisense	KNOWN	None	None	None	None	27253293	27271767	1	None	None
17	None	ENSG00000265845	ENST00000582631	antisense	KNOWN	None	None	None	None	27253559	27256983	1	None	None
17	None	ENSG00000265845	ENST00000592890	antisense	KNOWN	None	None	None	None	27254768	27256990	1	None	None
5	None	ENSG00000249610	ENST00000505209	antisense	KNOWN	None	None	None	None	121490191	121491710	-1	None	None
4	C4orf22	ENSG00000197826	ENST00000358105	protein_coding	KNOWN	CCDS3587	28554	702	233	81256874	81884910	1	None	None
4	C4orf22	ENSG00000197826	ENST00000512931	processed_transcript	KNOWN	None	28554	None	None	81256896	81570304	1	None	None
4	C4orf22	ENSG00000197826	ENST00000514249	nonsense_mediated_decay	KNOWN	None	28554	261	86	81256896	81570360	1	None	None
4	C4orf22	ENSG00000197826	ENST00000502497	processed_transcript	KNOWN	None	28554	None	None	81256897	81711661	1	None	None
4	C4orf22	ENSG00000197826	ENST00000513920	nonsense_mediated_decay	KNOWN	None	28554	471	156	81256922	81794228	1	None	None
4	C4orf22	ENSG00000197826	ENST00000508675	protein_coding	KNOWN	CCDS56336	28554	753	250	81256923	81884766	1	None	None
4	C4orf22	ENSG00000197826	ENST00000503883	processed_transcript	KNOWN	None	28554	None	None	81256935	81504445	1	None	None
4	C4orf22	ENSG00000197826	ENST00000508314	processed_transcript	KNOWN	None	28554	None	None	81791203	81884851	1	None	None
14	TRAV23DV6	ENSG00000211803	ENST00000390451	TR_V_gene	KNOWN	None	12120	364	120	22554684	22555238	1	None	TRAV23/DV6, TCRAV17S1
19	NDUFS7	ENSG00000115286	ENST00000546283	protein_coding	PUTATIVE	None	7714	621	206	1383526	1393544	1	None	PSST, FLJ46880, FLJ45860, CI-20
19	NDUFS7	ENSG00000115286	ENST00000233627	protein_coding	KNOWN	CCDS12063	7714	642	213	1383630	1395583	1	None	PSST, FLJ46880, FLJ45860, CI-20
19	NDUFS7	ENSG00000115286	ENST00000545446	retained_intron	KNOWN	None	7714	None	None	1383883	1395583	1	None	PSST, FLJ46880, FLJ45860, CI-20
19	NDUFS7	ENSG00000115286	ENST00000543289	retained_intron	KNOWN	None	7714	None	None	1383889	1395583	1	None	PSST, FLJ46880, FLJ45860, CI-20
19	NDUFS7	ENSG00000115286	ENST00000538662	retained_intron	KNOWN	None	7714	None	None	1383899	1393876	1	None	PSST, FLJ46880, FLJ45860, CI-20
19	NDUFS7	ENSG00000115286	ENST00000539480	protein_coding	PUTATIVE	None	7714	549	182	1383899	1394869	1	None	PSST, FLJ46880, FLJ45860, CI-20
19	NDUFS7	ENSG00000115286	ENST00000436115	retained_intron	KNOWN	None	7714	None	None	1383903	1393709	1	None	PSST, FLJ46880, FLJ45860, CI-20
19	NDUFS7	ENSG00000115286	ENST00000534853	nonsense_mediated_decay	KNOWN	None	7714	201	66	1383906	1395575	1	None	PSST, FLJ46880, FLJ45860, CI-20
19	NDUFS7	ENSG00000115286	ENST00000546172	nonsense_mediated_decay	KNOWN	None	7714	126	41	1383917	1395427	1	None	PSST, FLJ46880, FLJ45860, CI-20
19	NDUFS7	ENSG00000115286	ENST00000414651	protein_coding	PUTATIVE	None	7714	711	236	1383922	1393531	1	None	PSST, FLJ46880, FLJ45860, CI-20
19	NDUFS7	ENSG00000115286	ENST00000538929	processed_transcript	KNOWN	None	7714	None	None	1384050	1393325	1	None	PSST, FLJ46880, FLJ45860, CI-20
19	NDUFS7	ENSG00000115286	ENST00000538523	retained_intron	KNOWN	None	7714	None	None	1387744	1393548	1	None	PSST, FLJ46880, FLJ45860, CI-20
19	NDUFS7	ENSG00000115286	ENST00000540530	processed_transcript	KNOWN	None	7714	None	None	1387804	1395546	1	None	PSST, FLJ46880, FLJ45860, CI-20
19	NDUFS7	ENSG00000115286	ENST00000535382	retained_intron	KNOWN	None	7714	None	None	1387999	1395583	1	None	PSST, FLJ46880, FLJ45860, CI-20
19	NDUFS7	ENSG00000115286	ENST00000539882	retained_intron	KNOWN	None	7714	None	None	1388024	1388798	1	None	PSST, FLJ46880, FLJ45860, CI-20
19	NDUFS7	ENSG00000115286	ENST00000591358	retained_intron	KNOWN	None	7714	None	None	1391841	1395583	1	None	PSST, FLJ46880, FLJ45860, CI-20
19	NDUFS7	ENSG00000115286	ENST00000313408	protein_coding	KNOWN	None	7714	621	206	1383903	1395580	1	None	PSST, FLJ46880, FLJ45860, CI-20
11	MIR125B1	ENSG00000207971	ENST00000385236	miRNA	KNOWN	None	31506	None	None	121970465	121970552	-1	MIRN125B1	hsa-mir-125b-1
8	PDCL3P1	ENSG00000226301	ENST00000534575	processed_pseudogene	KNOWN	None	31826	None	None	61299821	61300554	1	None	None
16	None	ENSG00000261075	ENST00000570118	lincRNA	KNOWN	None	None	None	None	9539867	9549362	-1	None	None
17	None	ENSG00000265908	ENST00000579154	antisense	KNOWN	None	None	None	None	27271814	27272412	1	None	None
1	RNU6-1072P	ENSG00000207434	ENST00000384703	snRNA	KNOWN	None	48035	None	None	12982374	12982480	1	None	None
13	PRR20C	ENSG00000229665	ENST00000544357	protein_coding	KNOWN	CCDS45054	37221	666	221	57728195	57731216	1	None	None
17	None	ENSG00000263613	ENST00000581964	antisense	KNOWN	None	None	None	None	27336817	27338027	-1	None	None
15	None	ENSG00000259285	ENST00000559684	antisense	KNOWN	None	None	None	None	58357423	58363241	1	None	None
10	ANXA7	ENSG00000138279	ENST00000372921	protein_coding	KNOWN	CCDS7325	545	1401	466	75135203	75173825	-1	ANX7	None
10	ANXA7	ENSG00000138279	ENST00000372919	protein_coding	KNOWN	CCDS7326	545	1467	488	75135203	75173825	-1	ANX7	None
10	ANXA7	ENSG00000138279	ENST00000463788	processed_transcript	KNOWN	None	545	None	None	75135407	75138716	-1	ANX7	None
10	ANXA7	ENSG00000138279	ENST00000492380	processed_transcript	KNOWN	None	545	None	None	75143019	75173834	-1	ANX7	None
10	ANXA7	ENSG00000138279	ENST00000394847	protein_coding	KNOWN	None	545	434	143	75156278	75168165	-1	ANX7	None
10	ANXA7	ENSG00000138279	ENST00000535178	protein_coding	KNOWN	None	545	1011	336	75135847	75173816	-1	ANX7	None
3	None	ENSG00000229729	ENST00000473136	protein_coding	PUTATIVE	None	None	1077	358	88108424	88184648	1	None	None
3	None	ENSG00000229729	ENST00000498458	processed_transcript	KNOWN	None	None	None	None	88178081	88188123	1	None	None
4	None	ENSG00000250670	ENST00000508358	lincRNA	KNOWN	None	None	None	None	105478117	105490034	1	None	None
17	None	ENSG00000238007	ENST00000436028	sense_intronic	KNOWN	None	None	None	None	27339883	27343530	1	None	None
17	None	ENSG00000238007	ENST00000426489	sense_intronic	KNOWN	None	None	None	None	27342360	27343530	1	None	None
13	CCDC169-SOHLH2	ENSG00000250709	ENST00000511166	protein_coding	KNOWN	CCDS55896	38866	1509	502	36742931	36871979	-1	C13orf38-SOHLH2	None
9	None	ENSG00000221613	ENST00000408686	miRNA	NOVEL	None	None	None	None	138420457	138420546	-1	None	None
5	EGFLAM-AS3	ENSG00000249071	ENST00000505267	antisense	KNOWN	None	41167	None	None	38345449	38346653	-1	None	None
8	None	ENSG00000271349	ENST00000604771	processed_pseudogene	KNOWN	None	None	None	None	97139195	97140029	-1	None	None
8	None	ENSG00000255840	ENST00000537903	pseudogene	NOVEL	None	None	None	None	61334378	61334454	-1	None	None
3	SUCNR1	ENSG00000198829	ENST00000362032	protein_coding	KNOWN	CCDS3162	4542	1005	334	151591431	151599665	1	GPR91	None
8	None	ENSG00000270131	ENST00000602571	lincRNA	KNOWN	None	None	None	None	97152800	97153172	-1	None	None
1	None	ENSG00000234064	ENST00000418187	unprocessed_pseudogene	KNOWN	None	None	None	None	12985990	12988081	1	None	None
17	None	ENSG00000263781	ENST00000580924	processed_pseudogene	KNOWN	None	None	None	None	27348343	27348658	-1	None	None
17	None	ENSG00000263781	ENST00000602084	processed_pseudogene	KNOWN	None	None	None	None	27348338	27348658	-1	None	None
2	FAM132B	ENSG00000178752	ENST00000486834	retained_intron	KNOWN	None	26727	None	None	239067623	239073367	1	None	FLJ37034, CTRP15, C1QTNF15
2	FAM132B	ENSG00000178752	ENST00000546354	protein_coding	PUTATIVE	None	26727	1065	354	239067649	239075695	1	None	FLJ37034, CTRP15, C1QTNF15
2	FAM132B	ENSG00000178752	ENST00000481917	retained_intron	KNOWN	None	26727	None	None	239072283	239075824	1	None	FLJ37034, CTRP15, C1QTNF15
2	FAM132B	ENSG00000178752	ENST00000473274	retained_intron	KNOWN	None	26727	None	None	239072633	239077541	1	None	FLJ37034, CTRP15, C1QTNF15
2	FAM132B	ENSG00000178752	ENST00000479091	retained_intron	KNOWN	None	26727	None	None	239072669	239077516	1	None	FLJ37034, CTRP15, C1QTNF15
2	FAM132B	ENSG00000178752	ENST00000344233	protein_coding	PUTATIVE	None	26727	224	73	239072974	239077516	1	None	FLJ37034, CTRP15, C1QTNF15
2	FAM132B	ENSG00000178752	ENST00000357303	protein_coding	PUTATIVE	None	26727	191	62	239074234	239077516	1	None	FLJ37034, CTRP15, C1QTNF15
15	None	ENSG00000259651	ENST00000561363	processed_pseudogene	KNOWN	None	None	None	None	58442474	58442762	1	None	None
3	TREX1	ENSG00000213689	ENST00000395677	retained_intron	KNOWN	None	12269	None	None	48506445	48509044	1	AGS1	DRN3
3	TREX1	ENSG00000213689	ENST00000296443	protein_coding	KNOWN	CCDS2769	12269	945	314	48506445	48509044	1	AGS1	DRN3
3	TREX1	ENSG00000213689	ENST00000433541	protein_coding	KNOWN	None	12269	528	175	48507210	48509044	1	AGS1	DRN3
3	TREX1	ENSG00000213689	ENST00000444177	protein_coding	KNOWN	CCDS59451	12269	915	304	48507345	48509042	1	AGS1	DRN3
3	TREX1	ENSG00000213689	ENST00000456089	protein_coding	KNOWN	None	12269	528	175	48507661	48509044	1	AGS1	DRN3
3	TREX1	ENSG00000213689	ENST00000492235	processed_transcript	KNOWN	None	12269	None	None	48507669	48508832	1	AGS1	DRN3
3	TREX1	ENSG00000213689	ENST00000422277	protein_coding	KNOWN	CCDS43086	12269	1110	369	48507229	48509041	1	AGS1	DRN3
3	TREX1	ENSG00000213689	ENST00000436480	protein_coding	KNOWN	CCDS2769	12269	945	314	48507229	48509041	1	AGS1	DRN3
7	CYCS	ENSG00000172115	ENST00000305786	protein_coding	KNOWN	CCDS5393	19986	318	105	25159710	25164980	-1	None	HCS
7	CYCS	ENSG00000172115	ENST00000409409	protein_coding	KNOWN	CCDS5393	19986	318	105	25162926	25164868	-1	None	HCS
7	CYCS	ENSG00000172115	ENST00000409764	protein_coding	KNOWN	CCDS5393	19986	318	105	25163063	25164879	-1	None	HCS
7	CYCS	ENSG00000172115	ENST00000413447	protein_coding	KNOWN	None	19986	303	100	25163335	25164879	-1	None	HCS
15	None	ENSG00000259666	ENST00000558691	antisense	KNOWN	None	None	None	None	77934106	77941582	1	None	None
15	None	ENSG00000259666	ENST00000558887	antisense	KNOWN	None	None	None	None	77938684	77943997	1	None	None
15	None	ENSG00000259666	ENST00000560265	antisense	KNOWN	None	None	None	None	77938700	77940543	1	None	None
6	None	ENSG00000219392	ENST00000405929	unprocessed_pseudogene	KNOWN	None	None	None	None	28083406	28084329	1	None	None
6	PTCRA	ENSG00000171611	ENST00000304672	protein_coding	KNOWN	CCDS4874	21290	846	281	42883727	42893573	1	None	PTA, PT-ALPHA
6	PTCRA	ENSG00000171611	ENST00000441198	protein_coding	KNOWN	CCDS59019	21290	771	256	42883727	42893573	1	None	PTA, PT-ALPHA
6	PTCRA	ENSG00000171611	ENST00000446507	protein_coding	KNOWN	CCDS59020	21290	525	174	42883727	42893573	1	None	PTA, PT-ALPHA
17	None	ENSG00000263709	ENST00000582196	antisense	KNOWN	None	None	None	None	27467501	27482507	1	None	None
16	CDH15	ENSG00000129910	ENST00000521087	processed_transcript	KNOWN	None	1754	None	None	89238175	89250013	1	CDH3, CDH14	None
16	CDH15	ENSG00000129910	ENST00000524089	retained_intron	KNOWN	None	1754	None	None	89238175	89252600	1	CDH3, CDH14	None
16	CDH15	ENSG00000129910	ENST00000289746	protein_coding	KNOWN	CCDS10976	1754	2445	814	89238175	89261900	1	CDH3, CDH14	None
10	RNU6-666P	ENSG00000200369	ENST00000363499	snRNA	KNOWN	None	47629	None	None	27604049	27604155	1	None	None
3	BBX	ENSG00000114439	ENST00000415149	protein_coding	KNOWN	CCDS2950	14422	2736	911	107241783	107530171	1	None	MDS001, HSPC339, HBP2
3	BBX	ENSG00000114439	ENST00000402543	protein_coding	NOVEL	None	14422	2676	891	107241808	107525189	1	None	MDS001, HSPC339, HBP2
3	BBX	ENSG00000114439	ENST00000325805	protein_coding	KNOWN	CCDS46881	14422	2826	941	107241823	107524708	1	None	MDS001, HSPC339, HBP2
3	BBX	ENSG00000114439	ENST00000474137	retained_intron	KNOWN	None	14422	None	None	107241833	107245597	1	None	MDS001, HSPC339, HBP2
3	BBX	ENSG00000114439	ENST00000485939	processed_transcript	KNOWN	None	14422	None	None	107241838	107491529	1	None	MDS001, HSPC339, HBP2
3	BBX	ENSG00000114439	ENST00000427402	protein_coding	KNOWN	None	14422	581	192	107241850	107447787	1	None	MDS001, HSPC339, HBP2
3	BBX	ENSG00000114439	ENST00000416476	protein_coding	PUTATIVE	None	14422	1887	628	107241890	107524445	1	None	MDS001, HSPC339, HBP2
3	BBX	ENSG00000114439	ENST00000454540	protein_coding	KNOWN	None	14422	39	12	107242301	107429346	1	None	MDS001, HSPC339, HBP2
3	BBX	ENSG00000114439	ENST00000431630	protein_coding	NOVEL	None	14422	358	118	107242954	107435559	1	None	MDS001, HSPC339, HBP2
3	BBX	ENSG00000114439	ENST00000449335	protein_coding	KNOWN	None	14422	432	143	107242954	107447638	1	None	MDS001, HSPC339, HBP2
3	BBX	ENSG00000114439	ENST00000456817	protein_coding	KNOWN	None	14422	215	70	107243204	107435506	1	None	MDS001, HSPC339, HBP2
3	BBX	ENSG00000114439	ENST00000458458	protein_coding	KNOWN	None	14422	293	96	107243204	107435584	1	None	MDS001, HSPC339, HBP2
3	BBX	ENSG00000114439	ENST00000456419	protein_coding	KNOWN	None	14422	616	204	107244238	107451817	1	None	MDS001, HSPC339, HBP2
3	BBX	ENSG00000114439	ENST00000402163	protein_coding	KNOWN	None	14422	1345	447	107244249	107491913	1	None	MDS001, HSPC339, HBP2
3	BBX	ENSG00000114439	ENST00000406780	protein_coding	KNOWN	CCDS2950	14422	2736	911	107318160	107524705	1	None	MDS001, HSPC339, HBP2
3	BBX	ENSG00000114439	ENST00000413213	protein_coding	KNOWN	None	14422	447	148	107364683	107447653	1	None	MDS001, HSPC339, HBP2
3	BBX	ENSG00000114439	ENST00000449271	protein_coding	KNOWN	None	14422	341	112	107364777	107435632	1	None	MDS001, HSPC339, HBP2
3	BBX	ENSG00000114439	ENST00000425868	protein_coding	KNOWN	None	14422	72	23	107364780	107429379	1	None	MDS001, HSPC339, HBP2
3	BBX	ENSG00000114439	ENST00000449213	protein_coding	KNOWN	None	14422	477	158	107364781	107447683	1	None	MDS001, HSPC339, HBP2
3	BBX	ENSG00000114439	ENST00000457496	protein_coding	KNOWN	None	14422	255	84	107381436	107435546	1	None	MDS001, HSPC339, HBP2
3	BBX	ENSG00000114439	ENST00000429270	protein_coding	KNOWN	None	14422	498	165	107393652	107447704	1	None	MDS001, HSPC339, HBP2
3	BBX	ENSG00000114439	ENST00000472032	processed_transcript	KNOWN	None	14422	None	None	107403403	107491632	1	None	MDS001, HSPC339, HBP2
3	BBX	ENSG00000114439	ENST00000497629	retained_intron	KNOWN	None	14422	None	None	107435306	107447783	1	None	MDS001, HSPC339, HBP2
3	BBX	ENSG00000114439	ENST00000473542	processed_transcript	KNOWN	None	14422	None	None	107495052	107517506	1	None	MDS001, HSPC339, HBP2
3	BBX	ENSG00000114439	ENST00000443253	protein_coding	NOVEL	None	14422	238	78	107497350	107517518	1	None	MDS001, HSPC339, HBP2
3	BBX	ENSG00000114439	ENST00000458347	protein_coding	NOVEL	None	14422	396	131	107517438	107524318	1	None	MDS001, HSPC339, HBP2
6	None	ENSG00000266595	ENST00000577204	miRNA	NOVEL	None	None	None	None	153177801	153177879	-1	None	None
11	ANO5	ENSG00000171714	ENST00000324559	protein_coding	KNOWN	CCDS31444	27337	2742	913	22214722	22304903	1	TMEM16E	GDD1
11	ANO5	ENSG00000171714	ENST00000532043	processed_transcript	KNOWN	None	27337	None	None	22291943	22299580	1	TMEM16E	GDD1
17	None	ENSG00000264050	ENST00000580309	processed_pseudogene	KNOWN	None	None	None	None	27524089	27524803	-1	None	None
8	None	ENSG00000254224	ENST00000520575	antisense	KNOWN	None	None	None	None	97247655	97250262	1	None	None
6	TUBB4BP7	ENSG00000217372	ENST00000406999	processed_pseudogene	KNOWN	None	42337	None	None	153219182	153220415	1	None	None
HSCHR6_MHC_COX	HCG22	ENSG00000238234	ENST00000421410	processed_transcript	KNOWN	None	27780	None	None	31014486	31020156	1	None	FLJ37114, PBMUCL2
17	TWF1P1	ENSG00000178082	ENST00000580812	processed_pseudogene	KNOWN	None	21736	None	None	27530444	27531492	-1	PTK9P1	A6ps1
17	TWF1P1	ENSG00000178082	ENST00000318495	pseudogene	KNOWN	None	21736	None	None	27530441	27531492	-1	PTK9P1	A6ps1
8	None	ENSG00000199732	ENST00000362862	misc_RNA	NOVEL	None	None	None	None	97321449	97321550	-1	None	None
5	NUP155	ENSG00000113569	ENST00000231498	protein_coding	KNOWN	CCDS3921	8063	4176	1391	37288239	37371283	-1	None	KIAA0791, N155
5	NUP155	ENSG00000113569	ENST00000508182	retained_intron	KNOWN	None	8063	None	None	37291735	37293276	-1	None	KIAA0791, N155
5	NUP155	ENSG00000113569	ENST00000502533	processed_transcript	KNOWN	None	8063	None	None	37291940	37310770	-1	None	KIAA0791, N155
5	NUP155	ENSG00000113569	ENST00000381843	protein_coding	KNOWN	CCDS43310	8063	3999	1332	37291941	37370887	-1	None	KIAA0791, N155
5	NUP155	ENSG00000113569	ENST00000513532	protein_coding	NOVEL	None	8063	3984	1327	37292002	37371183	-1	None	KIAA0791, N155
5	NUP155	ENSG00000113569	ENST00000515054	retained_intron	KNOWN	None	8063	None	None	37301116	37303518	-1	None	KIAA0791, N155
5	NUP155	ENSG00000113569	ENST00000507233	retained_intron	KNOWN	None	8063	None	None	37342499	37350304	-1	None	KIAA0791, N155
5	NUP155	ENSG00000113569	ENST00000507675	nonsense_mediated_decay	KNOWN	None	8063	165	54	37363990	37371205	-1	None	KIAA0791, N155
17	MLX	ENSG00000108788	ENST00000435881	protein_coding	KNOWN	CCDS45687	11645	735	244	40719086	40725257	1	TCFL4	MAD7, MXD7, bHLHd13
17	MLX	ENSG00000108788	ENST00000246912	protein_coding	KNOWN	CCDS11430	11645	897	298	40719090	40725257	1	TCFL4	MAD7, MXD7, bHLHd13
17	MLX	ENSG00000108788	ENST00000346833	protein_coding	KNOWN	CCDS42341	11645	645	214	40719090	40725257	1	TCFL4	MAD7, MXD7, bHLHd13
17	MLX	ENSG00000108788	ENST00000590050	retained_intron	KNOWN	None	11645	None	None	40719090	40725257	1	TCFL4	MAD7, MXD7, bHLHd13
17	MLX	ENSG00000108788	ENST00000591024	protein_coding	NOVEL	None	11645	745	247	40719092	40722196	1	TCFL4	MAD7, MXD7, bHLHd13
17	MLX	ENSG00000108788	ENST00000590084	retained_intron	KNOWN	None	11645	None	None	40719117	40721308	1	TCFL4	MAD7, MXD7, bHLHd13
17	MLX	ENSG00000108788	ENST00000592717	retained_intron	KNOWN	None	11645	None	None	40719120	40720122	1	TCFL4	MAD7, MXD7, bHLHd13
17	MLX	ENSG00000108788	ENST00000585403	retained_intron	KNOWN	None	11645	None	None	40719121	40723747	1	TCFL4	MAD7, MXD7, bHLHd13
17	MLX	ENSG00000108788	ENST00000586393	retained_intron	KNOWN	None	11645	None	None	40719135	40721517	1	TCFL4	MAD7, MXD7, bHLHd13
17	MLX	ENSG00000108788	ENST00000591195	retained_intron	KNOWN	None	11645	None	None	40719299	40720916	1	TCFL4	MAD7, MXD7, bHLHd13
17	MLX	ENSG00000108788	ENST00000588320	retained_intron	KNOWN	None	11645	None	None	40720095	40724723	1	TCFL4	MAD7, MXD7, bHLHd13
13	ATP12A	ENSG00000075673	ENST00000381946	protein_coding	KNOWN	CCDS31948	13816	3120	1039	25254715	25285911	1	ATP1AL1	None
13	ATP12A	ENSG00000075673	ENST00000218548	protein_coding	KNOWN	CCDS53858	13816	3138	1045	25254549	25285921	1	ATP1AL1	None
8	None	ENSG00000253105	ENST00000523862	lincRNA	KNOWN	None	None	None	None	97384093	97398876	-1	None	None
8	None	ENSG00000253105	ENST00000522767	lincRNA	KNOWN	None	None	None	None	97384320	97399666	-1	None	None
10	None	ENSG00000215409	ENST00000422707	unprocessed_pseudogene	KNOWN	None	None	None	None	27620286	27630181	-1	None	None
17	RPL35AP35	ENSG00000239256	ENST00000492004	processed_pseudogene	KNOWN	None	36677	None	None	27667500	27667840	-1	None	None
4	FDCSP	ENSG00000181617	ENST00000317987	protein_coding	KNOWN	CCDS3537	19215	258	85	71091788	71100969	1	C4orf7	FDC-SP
18	AQP4	ENSG00000171885	ENST00000383168	protein_coding	KNOWN	CCDS11889	637	972	323	24432002	24445782	-1	None	MIWC
18	AQP4	ENSG00000171885	ENST00000581374	protein_coding	KNOWN	CCDS58617	637	906	301	24435781	24442812	-1	None	MIWC
18	AQP4	ENSG00000171885	ENST00000440832	protein_coding	KNOWN	CCDS58617	637	906	301	24436175	24443154	-1	None	MIWC
18	AQP4	ENSG00000171885	ENST00000583022	processed_transcript	KNOWN	None	637	None	None	24436253	24442140	-1	None	MIWC
18	AQP4	ENSG00000171885	ENST00000584088	retained_intron	KNOWN	None	637	None	None	24440655	24442370	-1	None	MIWC
18	AQP4	ENSG00000171885	ENST00000578776	protein_coding	PUTATIVE	None	637	557	184	24440749	24445671	-1	None	MIWC
18	AQP4	ENSG00000171885	ENST00000383170	nonsense_mediated_decay	KNOWN	None	637	297	98	24441218	24445735	-1	None	MIWC
10	EIF5AP4	ENSG00000234743	ENST00000441206	processed_pseudogene	KNOWN	None	31442	None	None	82006975	82007439	-1	EIF5AL3	None
15	None	ENSG00000259281	ENST00000557799	antisense	KNOWN	None	None	None	None	77952394	77960416	1	None	None
1	None	ENSG00000250894	ENST00000504262	unprocessed_pseudogene	KNOWN	None	None	None	None	13012966	13015755	-1	None	None
17	None	ENSG00000266111	ENST00000584958	lincRNA	KNOWN	None	None	None	None	27679087	27731118	1	None	None
1	C1orf110	ENSG00000185860	ENST00000524691	processed_transcript	KNOWN	None	28736	None	None	162794248	162825573	-1	None	MGC48998
1	C1orf110	ENSG00000185860	ENST00000367912	protein_coding	PUTATIVE	None	28736	720	239	162821106	162838605	-1	None	MGC48998
1	C1orf110	ENSG00000185860	ENST00000367910	protein_coding	KNOWN	CCDS44269	28736	909	302	162824087	162838551	-1	None	MGC48998
1	C1orf110	ENSG00000185860	ENST00000524710	retained_intron	KNOWN	None	28736	None	None	162824879	162825736	-1	None	MGC48998
1	C1orf110	ENSG00000185860	ENST00000367911	protein_coding	KNOWN	None	28736	708	235	162822818	162838605	-1	None	MGC48998
8	RNU6-1172P	ENSG00000202095	ENST00000365225	snRNA	KNOWN	None	48135	None	None	97443282	97443388	-1	None	None
10	None	ENSG00000232950	ENST00000449011	processed_pseudogene	KNOWN	None	None	None	None	82057476	82059411	1	None	None
HSCHR6_MHC_COX	RNU6-186P	ENSG00000265921	ENST00000581785	snRNA	KNOWN	None	47149	None	None	31043287	31043386	1	None	None
8	None	ENSG00000272249	ENST00000606010	antisense	KNOWN	None	None	None	None	98145063	98145607	-1	None	None
19	APOC1	ENSG00000130208	ENST00000588750	protein_coding	KNOWN	CCDS12648	607	252	83	45417504	45422599	1	None	None
19	APOC1	ENSG00000130208	ENST00000588802	protein_coding	KNOWN	CCDS12648	607	252	83	45417582	45422603	1	None	None
19	APOC1	ENSG00000130208	ENST00000592535	protein_coding	KNOWN	None	607	231	76	45417812	45422466	1	None	None
19	APOC1	ENSG00000130208	ENST00000592885	protein_coding	NOVEL	None	607	390	129	45417960	45422601	1	None	None
19	APOC1	ENSG00000130208	ENST00000589781	protein_coding	NOVEL	None	607	90	29	45417967	45422600	1	None	None
19	APOC1	ENSG00000130208	ENST00000589078	protein_coding	KNOWN	None	607	161	52	45418097	45419549	1	None	None
19	APOC1	ENSG00000130208	ENST00000590334	nonsense_mediated_decay	KNOWN	None	607	252	83	45418126	45422599	1	None	None
19	APOC1	ENSG00000130208	ENST00000586638	protein_coding	NOVEL	None	607	279	92	45418126	45422603	1	None	None
19	APOC1	ENSG00000130208	ENST00000592176	nonsense_mediated_decay	KNOWN	None	607	120	39	45418126	45422606	1	None	None
19	APOC1	ENSG00000130208	ENST00000252491	protein_coding	KNOWN	CCDS12648	607	252	83	45417921	45422606	1	None	None
17	MIR4523	ENSG00000264808	ENST00000577218	antisense	KNOWN	None	41583	None	None	27696735	27717795	-1	None	hsa-mir-4523
2	NMS	ENSG00000204640	ENST00000376865	protein_coding	KNOWN	CCDS33259	32203	462	153	101086944	101099742	1	None	None
7	SLC26A5	ENSG00000170615	ENST00000339444	protein_coding	KNOWN	CCDS43630	9359	2058	685	102993177	103086598	-1	PRES	DFNB61
7	SLC26A5	ENSG00000170615	ENST00000356767	protein_coding	KNOWN	CCDS5732	9359	1008	335	102993177	103086598	-1	PRES	DFNB61
7	SLC26A5	ENSG00000170615	ENST00000393735	protein_coding	KNOWN	CCDS43629	9359	1551	516	102993177	103086598	-1	PRES	DFNB61
7	SLC26A5	ENSG00000170615	ENST00000445809	nonsense_mediated_decay	KNOWN	None	9359	747	248	103014654	103083643	-1	PRES	DFNB61
7	SLC26A5	ENSG00000170615	ENST00000454864	nonsense_mediated_decay	KNOWN	None	9359	1344	447	103014654	103083643	-1	PRES	DFNB61
7	SLC26A5	ENSG00000170615	ENST00000393730	protein_coding	NOVEL	CCDS55150	9359	2139	712	103014654	103083643	-1	PRES	DFNB61
7	SLC26A5	ENSG00000170615	ENST00000306312	protein_coding	KNOWN	CCDS5733	9359	2235	744	103014654	103086624	-1	PRES	DFNB61
7	SLC26A5	ENSG00000170615	ENST00000423416	nonsense_mediated_decay	KNOWN	None	9359	1422	473	103014708	103083643	-1	PRES	DFNB61
7	SLC26A5	ENSG00000170615	ENST00000456463	nonsense_mediated_decay	KNOWN	None	9359	636	211	103014713	103083641	-1	PRES	DFNB61
7	SLC26A5	ENSG00000170615	ENST00000393729	protein_coding	NOVEL	None	9359	2124	707	103014713	103083641	-1	PRES	DFNB61
7	SLC26A5	ENSG00000170615	ENST00000393727	protein_coding	NOVEL	None	9359	2241	746	103014825	103061969	-1	PRES	DFNB61
7	SLC26A5	ENSG00000170615	ENST00000393723	protein_coding	NOVEL	None	9359	2145	714	103014825	103061969	-1	PRES	DFNB61
7	SLC26A5	ENSG00000170615	ENST00000487407	retained_intron	KNOWN	None	9359	None	None	103028970	103086624	-1	PRES	DFNB61
7	SLC26A5	ENSG00000170615	ENST00000432958	protein_coding	KNOWN	CCDS55150	9359	2139	712	103014659	103086624	-1	PRES	DFNB61
7	SLC26A5	ENSG00000170615	ENST00000354356	protein_coding	KNOWN	None	9359	534	177	103014708	103083643	-1	PRES	DFNB61
HSCHR6_MHC_COX	None	ENSG00000258238	ENST00000548238	pseudogene	NOVEL	None	None	None	None	31059652	31059916	1	None	None
15	None	ENSG00000259213	ENST00000559749	antisense	KNOWN	None	None	None	None	78079535	78080917	1	None	None
15	None	ENSG00000259213	ENST00000560453	antisense	KNOWN	None	None	None	None	78080414	78081016	1	None	None
17	RNU4-34P	ENSG00000222363	ENST00000410431	snRNA	KNOWN	None	46970	None	None	27715578	27715701	1	None	None
HSCHR6_MHC_COX	None	ENSG00000257993	ENST00000552825	pseudogene	NOVEL	None	None	None	None	31082895	31083064	-1	None	None
17	MIR4523	ENSG00000263719	ENST00000580425	miRNA	KNOWN	None	41583	None	None	27717680	27717748	1	None	hsa-mir-4523
HSCHR6_MHC_COX	None	ENSG00000257811	ENST00000549250	pseudogene	NOVEL	None	None	None	None	31094619	31094839	1	None	None
17	RNU6-711P	ENSG00000253064	ENST00000517255	snRNA	KNOWN	None	47674	None	None	27751780	27751885	-1	None	None
9	None	ENSG00000203659	ENST00000366466	pseudogene	NOVEL	None	None	None	None	32553187	32553801	1	None	None
9	None	ENSG00000214006	ENST00000397218	pseudogene	NOVEL	None	None	None	None	32556904	32557921	1	None	None
5	SLCO6A1	ENSG00000205359	ENST00000506729	protein_coding	KNOWN	CCDS34206	23613	2160	719	101707486	101834720	-1	None	OATP6A1, OATPY, MGC26949, CT48
5	SLCO6A1	ENSG00000205359	ENST00000511588	protein_coding	KNOWN	None	23613	78	25	101707492	101709133	-1	None	OATP6A1, OATPY, MGC26949, CT48
5	SLCO6A1	ENSG00000205359	ENST00000514765	retained_intron	KNOWN	None	23613	None	None	101707649	101726933	-1	None	OATP6A1, OATPY, MGC26949, CT48
5	SLCO6A1	ENSG00000205359	ENST00000379807	protein_coding	KNOWN	CCDS34206	23613	2160	719	101707649	101834683	-1	None	OATP6A1, OATPY, MGC26949, CT48
5	SLCO6A1	ENSG00000205359	ENST00000389019	protein_coding	KNOWN	None	23613	1974	657	101707649	101834720	-1	None	OATP6A1, OATPY, MGC26949, CT48
5	SLCO6A1	ENSG00000205359	ENST00000513675	protein_coding	KNOWN	None	23613	1401	466	101707650	101834617	-1	None	OATP6A1, OATPY, MGC26949, CT48
5	SLCO6A1	ENSG00000205359	ENST00000514551	processed_transcript	KNOWN	None	23613	None	None	101755627	101834354	-1	None	OATP6A1, OATPY, MGC26949, CT48
5	SLCO6A1	ENSG00000205359	ENST00000505739	retained_intron	KNOWN	None	23613	None	None	101774245	101813401	-1	None	OATP6A1, OATPY, MGC26949, CT48
5	SLCO6A1	ENSG00000205359	ENST00000505407	processed_transcript	KNOWN	None	23613	None	None	101811426	101834514	-1	None	OATP6A1, OATPY, MGC26949, CT48
5	SLCO6A1	ENSG00000205359	ENST00000379810	protein_coding	KNOWN	None	23613	1401	466	101707654	101834720	-1	None	OATP6A1, OATPY, MGC26949, CT48
3	LMCD1	ENSG00000071282	ENST00000157600	protein_coding	KNOWN	CCDS33688	6633	1098	365	8543393	8609805	1	None	None
3	LMCD1	ENSG00000071282	ENST00000415597	protein_coding	NOVEL	None	6633	701	232	8543509	8590549	1	None	None
3	LMCD1	ENSG00000071282	ENST00000470776	retained_intron	KNOWN	None	6633	None	None	8543511	8579204	1	None	None
3	LMCD1	ENSG00000071282	ENST00000454244	protein_coding	KNOWN	None	6633	879	292	8543544	8609307	1	None	None
3	LMCD1	ENSG00000071282	ENST00000456506	nonsense_mediated_decay	KNOWN	None	6633	177	58	8543574	8609450	1	None	None
3	LMCD1	ENSG00000071282	ENST00000426878	protein_coding	PUTATIVE	None	6633	615	204	8578869	8592135	1	None	None
3	LMCD1	ENSG00000071282	ENST00000535732	protein_coding	KNOWN	None	6633	744	247	8543511	8591580	1	None	None
3	LMCD1	ENSG00000071282	ENST00000397386	protein_coding	KNOWN	None	6633	762	253	8543572	8609450	1	None	None
7	AGR3	ENSG00000173467	ENST00000310398	protein_coding	KNOWN	CCDS5365	24167	501	166	16899029	16921611	-1	None	HAG3, hAG-3, BCMP11, PDIA18
7	AGR3	ENSG00000173467	ENST00000402239	protein_coding	PUTATIVE	None	24167	492	163	16900077	16921605	-1	None	HAG3, hAG-3, BCMP11, PDIA18
7	AGR3	ENSG00000173467	ENST00000414935	protein_coding	PUTATIVE	None	24167	386	127	16900124	16921611	-1	None	HAG3, hAG-3, BCMP11, PDIA18
7	AGR3	ENSG00000173467	ENST00000486448	retained_intron	KNOWN	None	24167	None	None	16913040	16921597	-1	None	HAG3, hAG-3, BCMP11, PDIA18
1	None	ENSG00000270601	ENST00000605221	unprocessed_pseudogene	KNOWN	None	None	None	None	13108842	13112679	-1	None	None
9	None	ENSG00000265285	ENST00000582107	miRNA	NOVEL	None	None	None	None	67094933	67094999	1	None	None
2	PDCL3	ENSG00000115539	ENST00000264254	protein_coding	KNOWN	CCDS33261	28860	720	239	101179152	101193197	1	None	VIAF1
2	PDCL3	ENSG00000115539	ENST00000416255	protein_coding	PUTATIVE	None	28860	261	86	101179720	101188094	1	None	VIAF1
2	PDCL3	ENSG00000115539	ENST00000450127	protein_coding	PUTATIVE	None	28860	452	149	101185417	101188502	1	None	VIAF1
9	None	ENSG00000265601	ENST00000584771	miRNA	NOVEL	None	None	None	None	67225386	67225452	-1	None	None
17	ABCA9	ENSG00000154258	ENST00000340001	protein_coding	KNOWN	CCDS11681	39	4875	1624	66970629	67057205	-1	None	EST640918
17	ABCA9	ENSG00000154258	ENST00000453985	protein_coding	NOVEL	None	39	4761	1586	66970773	67057065	-1	None	EST640918
17	ABCA9	ENSG00000154258	ENST00000482072	processed_transcript	KNOWN	None	39	None	None	66982749	66985282	-1	None	EST640918
17	ABCA9	ENSG00000154258	ENST00000460872	retained_intron	KNOWN	None	39	None	None	66986066	66988823	-1	None	EST640918
17	ABCA9	ENSG00000154258	ENST00000492580	retained_intron	KNOWN	None	39	None	None	67007966	67013913	-1	None	EST640918
17	ABCA9	ENSG00000154258	ENST00000461623	retained_intron	KNOWN	None	39	None	None	67028742	67045498	-1	None	EST640918
17	ABCA9	ENSG00000154258	ENST00000495634	protein_coding	KNOWN	None	39	804	267	67039056	67057047	-1	None	EST640918
17	ABCA9	ENSG00000154258	ENST00000585714	protein_coding	KNOWN	None	39	269	88	67045459	67057090	-1	None	EST640918
17	ABCA9	ENSG00000154258	ENST00000370732	protein_coding	KNOWN	None	39	4308	1435	66970774	67057136	-1	None	EST640918
5	EGFLAM-AS2	ENSG00000248572	ENST00000512603	antisense	KNOWN	None	41168	None	None	38399916	38403515	-1	None	None
5	EGFLAM-AS2	ENSG00000248572	ENST00000514377	antisense	KNOWN	None	41168	None	None	38401171	38403464	-1	None	None
19	RPL12P41	ENSG00000269637	ENST00000599500	processed_pseudogene	KNOWN	None	35999	None	None	46722680	46723177	1	None	None
2	INSIG2	ENSG00000125629	ENST00000411929	nonsense_mediated_decay	KNOWN	None	20452	120	39	118846028	118865948	1	None	None
2	INSIG2	ENSG00000125629	ENST00000471186	processed_transcript	KNOWN	None	20452	None	None	118846050	118867596	1	None	None
2	INSIG2	ENSG00000125629	ENST00000245787	protein_coding	KNOWN	CCDS2122	20452	678	225	118846050	118867604	1	None	None
2	INSIG2	ENSG00000125629	ENST00000485520	processed_transcript	KNOWN	None	20452	None	None	118846050	118868573	1	None	None
2	INSIG2	ENSG00000125629	ENST00000467223	processed_transcript	KNOWN	None	20452	None	None	118846126	118865966	1	None	None
2	INSIG2	ENSG00000125629	ENST00000488995	processed_transcript	KNOWN	None	20452	None	None	118860114	118864718	1	None	None
2	INSIG2	ENSG00000125629	ENST00000479999	processed_transcript	KNOWN	None	20452	None	None	118864235	118866043	1	None	None
7	None	ENSG00000244657	ENST00000441664	unprocessed_pseudogene	KNOWN	None	None	None	None	65950082	65951519	-1	None	None
17	STX8	ENSG00000170310	ENST00000575858	nonsense_mediated_decay	KNOWN	None	11443	135	44	9153789	9479152	-1	None	CARB
17	STX8	ENSG00000170310	ENST00000306357	protein_coding	KNOWN	CCDS32565	11443	711	236	9153789	9479553	-1	None	CARB
17	STX8	ENSG00000170310	ENST00000570583	processed_transcript	PUTATIVE	None	11443	None	None	9153791	9341206	-1	None	CARB
17	STX8	ENSG00000170310	ENST00000570987	processed_transcript	PUTATIVE	None	11443	None	None	9153804	9176751	-1	None	CARB
17	STX8	ENSG00000170310	ENST00000574431	protein_coding	PUTATIVE	None	11443	378	125	9153804	9479154	-1	None	CARB
17	STX8	ENSG00000170310	ENST00000575294	nonsense_mediated_decay	KNOWN	None	11443	156	51	9153824	9479128	-1	None	CARB
17	STX8	ENSG00000170310	ENST00000574775	retained_intron	KNOWN	None	11443	None	None	9281206	9395182	-1	None	CARB
17	STX8	ENSG00000170310	ENST00000573016	protein_coding	KNOWN	None	11443	338	111	9408465	9479908	-1	None	CARB
17	STX8	ENSG00000170310	ENST00000573881	processed_transcript	PUTATIVE	None	11443	None	None	9443997	9460827	-1	None	CARB
17	STX8	ENSG00000170310	ENST00000573373	protein_coding	PUTATIVE	None	11443	228	75	9456116	9479137	-1	None	CARB
17	STX8	ENSG00000170310	ENST00000574382	retained_intron	KNOWN	None	11443	None	None	9460214	9471775	-1	None	CARB
17	STX8	ENSG00000170310	ENST00000573077	processed_transcript	KNOWN	None	11443	None	None	9471722	9473259	-1	None	CARB
12	EMP1	ENSG00000134531	ENST00000256951	protein_coding	KNOWN	CCDS8660	3333	474	157	13349650	13369708	1	None	TMP, CL-20
12	EMP1	ENSG00000134531	ENST00000431267	protein_coding	PUTATIVE	None	3333	273	90	13349657	13368215	1	None	TMP, CL-20
12	EMP1	ENSG00000134531	ENST00000542474	protein_coding	KNOWN	None	3333	10	2	13349660	13364454	1	None	TMP, CL-20
12	EMP1	ENSG00000134531	ENST00000544053	protein_coding	PUTATIVE	None	3333	285	94	13349660	13367806	1	None	TMP, CL-20
12	EMP1	ENSG00000134531	ENST00000542289	processed_transcript	KNOWN	None	3333	None	None	13349660	13368329	1	None	TMP, CL-20
12	EMP1	ENSG00000134531	ENST00000538364	protein_coding	PUTATIVE	None	3333	439	145	13349717	13366878	1	None	TMP, CL-20
12	EMP1	ENSG00000134531	ENST00000535134	processed_transcript	KNOWN	None	3333	None	None	13349720	13362504	1	None	TMP, CL-20
12	EMP1	ENSG00000134531	ENST00000541935	retained_intron	KNOWN	None	3333	None	None	13349720	13364836	1	None	TMP, CL-20
12	EMP1	ENSG00000134531	ENST00000396301	protein_coding	PUTATIVE	None	3333	426	141	13349720	13367734	1	None	TMP, CL-20
12	EMP1	ENSG00000134531	ENST00000537612	protein_coding	PUTATIVE	None	3333	210	69	13364445	13369707	1	None	TMP, CL-20
12	EMP1	ENSG00000134531	ENST00000536383	retained_intron	KNOWN	None	3333	None	None	13366349	13367752	1	None	TMP, CL-20
12	EMP1	ENSG00000134531	ENST00000546357	retained_intron	KNOWN	None	3333	None	None	13366386	13367299	1	None	TMP, CL-20
19	None	ENSG00000269745	ENST00000597337	antisense	KNOWN	None	None	None	None	46732221	46733645	-1	None	None
9	AQP7P1	ENSG00000186466	ENST00000412626	unprocessed_pseudogene	KNOWN	None	32048	None	None	67272039	67288063	-1	None	None
9	AQP7P1	ENSG00000186466	ENST00000334576	unprocessed_pseudogene	KNOWN	None	32048	None	None	67272038	67289492	-1	None	None
7	None	ENSG00000223473	ENST00000450353	lincRNA	KNOWN	None	None	None	None	65956083	65958525	-1	None	None
7	None	ENSG00000223473	ENST00000412091	lincRNA	KNOWN	None	None	None	None	65956996	65958553	-1	None	None
19	IGFL1P2	ENSG00000268238	ENST00000593820	unprocessed_pseudogene	KNOWN	None	32957	None	None	46763677	46764115	-1	None	IGFL-6P
19	ADCK4	ENSG00000123815	ENST00000324464	protein_coding	KNOWN	CCDS12562	19041	1635	544	41197434	41222790	-1	None	FLJ12229, COQ8
19	ADCK4	ENSG00000123815	ENST00000593724	retained_intron	KNOWN	None	19041	None	None	41197435	41207364	-1	None	FLJ12229, COQ8
19	ADCK4	ENSG00000123815	ENST00000243583	protein_coding	KNOWN	CCDS46081	19041	1512	503	41197435	41220978	-1	None	FLJ12229, COQ8
19	ADCK4	ENSG00000123815	ENST00000595254	protein_coding	PUTATIVE	None	19041	613	203	41206310	41220990	-1	None	FLJ12229, COQ8
19	ADCK4	ENSG00000123815	ENST00000596455	retained_intron	KNOWN	None	19041	None	None	41208504	41221690	-1	None	FLJ12229, COQ8
19	ADCK4	ENSG00000123815	ENST00000599643	nonsense_mediated_decay	KNOWN	None	19041	348	115	41208505	41221872	-1	None	FLJ12229, COQ8
19	ADCK4	ENSG00000123815	ENST00000601304	nonsense_mediated_decay	KNOWN	None	19041	246	81	41209627	41220690	-1	None	FLJ12229, COQ8
19	ADCK4	ENSG00000123815	ENST00000601967	protein_coding	KNOWN	None	19041	690	229	41209647	41221003	-1	None	FLJ12229, COQ8
19	ADCK4	ENSG00000123815	ENST00000601451	retained_intron	KNOWN	None	19041	None	None	41210073	41222790	-1	None	FLJ12229, COQ8
19	ADCK4	ENSG00000123815	ENST00000600080	protein_coding	PUTATIVE	None	19041	220	72	41211023	41220989	-1	None	FLJ12229, COQ8
19	ADCK4	ENSG00000123815	ENST00000593544	retained_intron	KNOWN	None	19041	None	None	41211217	41221011	-1	None	FLJ12229, COQ8
19	ADCK4	ENSG00000123815	ENST00000594490	protein_coding	NOVEL	None	19041	403	133	41211239	41220540	-1	None	FLJ12229, COQ8
19	ADCK4	ENSG00000123815	ENST00000594084	protein_coding	KNOWN	None	19041	473	156	41211247	41224112	-1	None	FLJ12229, COQ8
19	ADCK4	ENSG00000123815	ENST00000594720	protein_coding	KNOWN	None	19041	448	148	41211272	41222801	-1	None	FLJ12229, COQ8
19	ADCK4	ENSG00000123815	ENST00000600707	protein_coding	KNOWN	None	19041	364	120	41215967	41221518	-1	None	FLJ12229, COQ8
19	ADCK4	ENSG00000123815	ENST00000596357	protein_coding	KNOWN	None	19041	331	109	41216000	41220976	-1	None	FLJ12229, COQ8
19	ADCK4	ENSG00000123815	ENST00000593723	protein_coding	KNOWN	None	19041	30	9	41220508	41221521	-1	None	FLJ12229, COQ8
19	ADCK4	ENSG00000123815	ENST00000450541	protein_coding	KNOWN	CCDS46081	19041	1512	503	41197434	41222790	-1	None	FLJ12229, COQ8
5	EGFLAM-AS1	ENSG00000249491	ENST00000508986	antisense	KNOWN	None	41169	None	None	38425138	38427478	-1	None	None
19	RNU6-924P	ENSG00000199796	ENST00000362926	snRNA	KNOWN	None	47887	None	None	46809727	46809834	-1	None	None
19	None	ENSG00000269124	ENST00000596807	antisense	KNOWN	None	None	None	None	46823454	46843261	-1	None	None
5	None	ENSG00000248234	ENST00000513087	processed_pseudogene	KNOWN	None	None	None	None	38429994	38430262	-1	None	None
18	LAMA1	ENSG00000101680	ENST00000389658	protein_coding	KNOWN	CCDS32787	6481	9228	3075	6941743	7117813	-1	LAMA	None
18	LAMA1	ENSG00000101680	ENST00000492048	retained_intron	KNOWN	None	6481	None	None	6941888	6956446	-1	LAMA	None
18	LAMA1	ENSG00000101680	ENST00000488064	retained_intron	KNOWN	None	6481	None	None	6941888	6965955	-1	LAMA	None
18	LAMA1	ENSG00000101680	ENST00000579014	retained_intron	KNOWN	None	6481	None	None	6941947	7117758	-1	LAMA	None
18	LAMA1	ENSG00000101680	ENST00000488089	retained_intron	KNOWN	None	6481	None	None	6953729	6960694	-1	LAMA	None
18	LAMA1	ENSG00000101680	ENST00000490190	retained_intron	KNOWN	None	6481	None	None	6963884	6965546	-1	LAMA	None
18	LAMA1	ENSG00000101680	ENST00000484335	retained_intron	KNOWN	None	6481	None	None	6965399	6972207	-1	LAMA	None
18	LAMA1	ENSG00000101680	ENST00000585178	retained_intron	KNOWN	None	6481	None	None	7038571	7040236	-1	LAMA	None
4	ALPK1	ENSG00000073331	ENST00000514594	processed_transcript	KNOWN	None	20917	None	None	113206665	113237007	1	None	Lak, FLJ22670, KIAA1527
4	ALPK1	ENSG00000073331	ENST00000505176	processed_transcript	KNOWN	None	20917	None	None	113218525	113264432	1	None	Lak, FLJ22670, KIAA1527
4	ALPK1	ENSG00000073331	ENST00000177648	protein_coding	KNOWN	CCDS3697	20917	3735	1244	113218526	113362968	1	None	Lak, FLJ22670, KIAA1527
4	ALPK1	ENSG00000073331	ENST00000502366	processed_transcript	KNOWN	None	20917	None	None	113218535	113264740	1	None	Lak, FLJ22670, KIAA1527
4	ALPK1	ENSG00000073331	ENST00000509722	nonsense_mediated_decay	KNOWN	None	20917	402	133	113218536	113362527	1	None	Lak, FLJ22670, KIAA1527
4	ALPK1	ENSG00000073331	ENST00000505127	nonsense_mediated_decay	KNOWN	None	20917	915	304	113218538	113362820	1	None	Lak, FLJ22670, KIAA1527
4	ALPK1	ENSG00000073331	ENST00000504488	retained_intron	KNOWN	None	20917	None	None	113218541	113237461	1	None	Lak, FLJ22670, KIAA1527
4	ALPK1	ENSG00000073331	ENST00000509688	retained_intron	KNOWN	None	20917	None	None	113218547	113306002	1	None	Lak, FLJ22670, KIAA1527
4	ALPK1	ENSG00000073331	ENST00000426472	processed_transcript	KNOWN	None	20917	None	None	113218552	113274168	1	None	Lak, FLJ22670, KIAA1527
4	ALPK1	ENSG00000073331	ENST00000515330	nonsense_mediated_decay	KNOWN	None	20917	507	168	113218552	113346849	1	None	Lak, FLJ22670, KIAA1527
4	ALPK1	ENSG00000073331	ENST00000515106	nonsense_mediated_decay	KNOWN	None	20917	330	109	113218557	113333601	1	None	Lak, FLJ22670, KIAA1527
4	ALPK1	ENSG00000073331	ENST00000504745	retained_intron	KNOWN	None	20917	None	None	113303660	113363776	1	None	Lak, FLJ22670, KIAA1527
4	ALPK1	ENSG00000073331	ENST00000505912	processed_transcript	KNOWN	None	20917	None	None	113332071	113336273	1	None	Lak, FLJ22670, KIAA1527
4	ALPK1	ENSG00000073331	ENST00000509209	retained_intron	KNOWN	None	20917	None	None	113344944	113347119	1	None	Lak, FLJ22670, KIAA1527
4	ALPK1	ENSG00000073331	ENST00000508589	processed_transcript	KNOWN	None	20917	None	None	113346207	113348805	1	None	Lak, FLJ22670, KIAA1527
4	ALPK1	ENSG00000073331	ENST00000512847	retained_intron	KNOWN	None	20917	None	None	113347662	113349267	1	None	Lak, FLJ22670, KIAA1527
4	ALPK1	ENSG00000073331	ENST00000458497	protein_coding	KNOWN	CCDS3697	20917	3735	1244	113218499	113363762	1	None	Lak, FLJ22670, KIAA1527
4	ALPK1	ENSG00000073331	ENST00000504176	protein_coding	KNOWN	CCDS58923	20917	3501	1166	113218536	113362527	1	None	Lak, FLJ22670, KIAA1527
5	None	ENSG00000251257	ENST00000510469	antisense	KNOWN	None	None	None	None	38461029	38468409	-1	None	None
5	None	ENSG00000251257	ENST00000510137	antisense	KNOWN	None	None	None	None	38466265	38468441	-1	None	None
1	None	ENSG00000250113	ENST00000512015	unprocessed_pseudogene	KNOWN	None	None	None	None	13123246	13126086	-1	None	None
5	None	ENSG00000250803	ENST00000515596	processed_transcript	KNOWN	None	None	None	None	121493063	121499013	1	None	None
5	None	ENSG00000250803	ENST00000509403	processed_transcript	KNOWN	None	None	None	None	121495871	121518353	1	None	None
5	None	ENSG00000250803	ENST00000514637	processed_transcript	KNOWN	None	None	None	None	121495886	121515756	1	None	None
5	None	ENSG00000250803	ENST00000514887	transcribed_processed_pseudogene	KNOWN	None	None	None	None	121515251	121518334	1	None	None
19	CCDC124	ENSG00000007080	ENST00000445755	protein_coding	KNOWN	CCDS12369	25171	672	223	18043825	18054746	1	None	None
19	CCDC124	ENSG00000007080	ENST00000602080	retained_intron	KNOWN	None	25171	None	None	18043832	18047801	1	None	None
19	CCDC124	ENSG00000007080	ENST00000597436	protein_coding	KNOWN	CCDS12369	25171	672	223	18045905	18054800	1	None	None
19	CCDC124	ENSG00000007080	ENST00000596123	protein_coding	KNOWN	None	25171	410	135	18047060	18054130	1	None	None
16	ATP5F1P7	ENSG00000261424	ENST00000567330	processed_pseudogene	KNOWN	None	39748	None	None	75742954	75743713	-1	None	None
2	ILKAP	ENSG00000132323	ENST00000254654	protein_coding	KNOWN	CCDS2526	15566	1179	392	239079042	239112370	-1	None	DKFZP434J2031, FLJ10181
2	ILKAP	ENSG00000132323	ENST00000465131	retained_intron	KNOWN	None	15566	None	None	239079043	239082567	-1	None	DKFZP434J2031, FLJ10181
2	ILKAP	ENSG00000132323	ENST00000463129	retained_intron	KNOWN	None	15566	None	None	239079043	239112279	-1	None	DKFZP434J2031, FLJ10181
2	ILKAP	ENSG00000132323	ENST00000450411	protein_coding	PUTATIVE	None	15566	612	203	239079049	239092737	-1	None	DKFZP434J2031, FLJ10181
2	ILKAP	ENSG00000132323	ENST00000466468	retained_intron	KNOWN	None	15566	None	None	239079050	239095698	-1	None	DKFZP434J2031, FLJ10181
2	ILKAP	ENSG00000132323	ENST00000479400	retained_intron	KNOWN	None	15566	None	None	239092357	239097235	-1	None	DKFZP434J2031, FLJ10181
2	ILKAP	ENSG00000132323	ENST00000457149	protein_coding	NOVEL	None	15566	638	211	239092364	239112349	-1	None	DKFZP434J2031, FLJ10181
2	ILKAP	ENSG00000132323	ENST00000498727	retained_intron	KNOWN	None	15566	None	None	239098332	239112321	-1	None	DKFZP434J2031, FLJ10181
2	ILKAP	ENSG00000132323	ENST00000467133	retained_intron	KNOWN	None	15566	None	None	239098339	239112336	-1	None	DKFZP434J2031, FLJ10181
2	ILKAP	ENSG00000132323	ENST00000490837	processed_transcript	KNOWN	None	15566	None	None	239103050	239112336	-1	None	DKFZP434J2031, FLJ10181
14	DDX24	ENSG00000089737	ENST00000555762	retained_intron	KNOWN	None	13266	None	None	94517266	94547544	-1	None	None
14	DDX24	ENSG00000089737	ENST00000553400	processed_transcript	PUTATIVE	None	13266	None	None	94517268	94518170	-1	None	None
14	DDX24	ENSG00000089737	ENST00000553451	processed_transcript	PUTATIVE	None	13266	None	None	94517268	94522509	-1	None	None
14	DDX24	ENSG00000089737	ENST00000330836	protein_coding	KNOWN	CCDS9918	13266	2580	859	94517268	94547591	-1	None	None
14	DDX24	ENSG00000089737	ENST00000544005	protein_coding	PUTATIVE	None	13266	1830	609	94517269	94547548	-1	None	None
14	DDX24	ENSG00000089737	ENST00000555054	protein_coding	PUTATIVE	None	13266	2451	816	94517311	94547548	-1	None	None
14	DDX24	ENSG00000089737	ENST00000556635	retained_intron	KNOWN	None	13266	None	None	94517534	94519724	-1	None	None
14	DDX24	ENSG00000089737	ENST00000555324	retained_intron	KNOWN	None	13266	None	None	94545312	94547492	-1	None	None
5	LIFR-AS1	ENSG00000244968	ENST00000500733	antisense	KNOWN	None	43600	None	None	38556888	38608964	1	None	None
5	LIFR-AS1	ENSG00000244968	ENST00000500817	antisense	KNOWN	None	43600	None	None	38558932	38671318	1	None	None
5	LIFR-AS1	ENSG00000244968	ENST00000514291	antisense	KNOWN	None	43600	None	None	38559044	38579696	1	None	None
7	None	ENSG00000258093	ENST00000552717	pseudogene	NOVEL	None	None	None	None	101831879	101832108	-1	None	None
7	PLEKHA8	ENSG00000106086	ENST00000483799	processed_transcript	KNOWN	None	30037	None	None	30067020	30088827	1	None	FAPP2, MGC3358
7	PLEKHA8	ENSG00000106086	ENST00000258679	protein_coding	KNOWN	CCDS5424	30037	1323	440	30067978	30130360	1	None	FAPP2, MGC3358
7	PLEKHA8	ENSG00000106086	ENST00000396257	protein_coding	KNOWN	None	30037	1368	455	30068041	30169088	1	None	FAPP2, MGC3358
7	PLEKHA8	ENSG00000106086	ENST00000396259	protein_coding	KNOWN	None	30037	1320	439	30068057	30170096	1	None	FAPP2, MGC3358
7	PLEKHA8	ENSG00000106086	ENST00000440706	protein_coding	KNOWN	None	30037	1638	545	30068301	30124279	1	None	FAPP2, MGC3358
7	PLEKHA8	ENSG00000106086	ENST00000498106	retained_intron	KNOWN	None	30037	None	None	30085826	30090402	1	None	FAPP2, MGC3358
7	PLEKHA8	ENSG00000106086	ENST00000449726	protein_coding	KNOWN	CCDS56473	30037	1560	519	30068029	30119543	1	None	FAPP2, MGC3358
7	None	ENSG00000252824	ENST00000517015	snoRNA	NOVEL	None	None	None	None	101837356	101837444	-1	None	None
7	PDIA4	ENSG00000155660	ENST00000286091	protein_coding	KNOWN	CCDS5893	30167	1938	645	148700154	148725733	-1	None	ERP70, ERP72
7	PDIA4	ENSG00000155660	ENST00000466592	retained_intron	KNOWN	None	30167	None	None	148701291	148703375	-1	None	ERP70, ERP72
7	PDIA4	ENSG00000155660	ENST00000413966	protein_coding	PUTATIVE	None	30167	490	162	148716213	148725560	-1	None	ERP70, ERP72
7	None	ENSG00000264642	ENST00000580604	miRNA	NOVEL	None	None	None	None	101881601	101881686	-1	None	None
5	LARS	ENSG00000133706	ENST00000394434	protein_coding	KNOWN	CCDS34265	6512	3531	1176	145492601	145562223	-1	None	HSPC192, FLJ10595, FLJ21788, LARS1, LEUS, RNTLS
5	LARS	ENSG00000133706	ENST00000506231	retained_intron	KNOWN	None	6512	None	None	145493474	145512189	-1	None	HSPC192, FLJ10595, FLJ21788, LARS1, LEUS, RNTLS
5	LARS	ENSG00000133706	ENST00000510191	protein_coding	PUTATIVE	None	6512	3369	1122	145493474	145562186	-1	None	HSPC192, FLJ10595, FLJ21788, LARS1, LEUS, RNTLS
5	LARS	ENSG00000133706	ENST00000508709	retained_intron	KNOWN	None	6512	None	None	145503542	145509779	-1	None	HSPC192, FLJ10595, FLJ21788, LARS1, LEUS, RNTLS
5	LARS	ENSG00000133706	ENST00000504611	retained_intron	KNOWN	None	6512	None	None	145508646	145510120	-1	None	HSPC192, FLJ10595, FLJ21788, LARS1, LEUS, RNTLS
5	LARS	ENSG00000133706	ENST00000512412	processed_transcript	KNOWN	None	6512	None	None	145512620	145523101	-1	None	HSPC192, FLJ10595, FLJ21788, LARS1, LEUS, RNTLS
5	LARS	ENSG00000133706	ENST00000514104	retained_intron	KNOWN	None	6512	None	None	145522345	145523896	-1	None	HSPC192, FLJ10595, FLJ21788, LARS1, LEUS, RNTLS
5	LARS	ENSG00000133706	ENST00000504323	retained_intron	KNOWN	None	6512	None	None	145522522	145524294	-1	None	HSPC192, FLJ10595, FLJ21788, LARS1, LEUS, RNTLS
5	LARS	ENSG00000133706	ENST00000508667	retained_intron	KNOWN	None	6512	None	None	145522807	145531511	-1	None	HSPC192, FLJ10595, FLJ21788, LARS1, LEUS, RNTLS
5	LARS	ENSG00000133706	ENST00000507095	processed_transcript	KNOWN	None	6512	None	None	145523050	145531470	-1	None	HSPC192, FLJ10595, FLJ21788, LARS1, LEUS, RNTLS
5	LARS	ENSG00000133706	ENST00000511505	processed_transcript	KNOWN	None	6512	None	None	145536960	145562212	-1	None	HSPC192, FLJ10595, FLJ21788, LARS1, LEUS, RNTLS
5	LARS	ENSG00000133706	ENST00000505223	processed_transcript	KNOWN	None	6512	None	None	145543961	145562213	-1	None	HSPC192, FLJ10595, FLJ21788, LARS1, LEUS, RNTLS
5	LARS	ENSG00000133706	ENST00000503654	processed_transcript	KNOWN	None	6512	None	None	145547792	145562083	-1	None	HSPC192, FLJ10595, FLJ21788, LARS1, LEUS, RNTLS
5	LARS	ENSG00000133706	ENST00000506436	retained_intron	KNOWN	None	6512	None	None	145552254	145562038	-1	None	HSPC192, FLJ10595, FLJ21788, LARS1, LEUS, RNTLS
5	LARS	ENSG00000133706	ENST00000545646	protein_coding	KNOWN	None	6512	3393	1130	145493406	145562166	-1	None	HSPC192, FLJ10595, FLJ21788, LARS1, LEUS, RNTLS
5	LARS	ENSG00000133706	ENST00000274562	protein_coding	KNOWN	None	6512	3450	1149	145493474	145562180	-1	None	HSPC192, FLJ10595, FLJ21788, LARS1, LEUS, RNTLS
12	MARCH9	ENSG00000139266	ENST00000266643	protein_coding	KNOWN	CCDS31847	25139	1041	346	58148881	58154190	1	None	RNF179, FLJ36578
12	MARCH9	ENSG00000139266	ENST00000552279	retained_intron	KNOWN	None	25139	None	None	58149511	58151383	1	None	RNF179, FLJ36578
12	MARCH9	ENSG00000139266	ENST00000548358	protein_coding	KNOWN	None	25139	702	233	58151270	58153199	1	None	RNF179, FLJ36578
7	MIR4285	ENSG00000264675	ENST00000581001	miRNA	KNOWN	None	38337	None	None	101936369	101936453	1	None	hsa-mir-4285
7	ADAM22	ENSG00000008277	ENST00000398204	protein_coding	KNOWN	CCDS43609	201	2613	870	87563458	87832204	1	None	MDC2
7	ADAM22	ENSG00000008277	ENST00000439864	protein_coding	PUTATIVE	None	201	1029	342	87563566	87762119	1	None	MDC2
7	ADAM22	ENSG00000008277	ENST00000412441	protein_coding	NOVEL	None	201	589	195	87563644	87743963	1	None	MDC2
7	ADAM22	ENSG00000008277	ENST00000398201	protein_coding	KNOWN	CCDS43610	201	2580	859	87563662	87811428	1	None	MDC2
7	ADAM22	ENSG00000008277	ENST00000265727	protein_coding	KNOWN	CCDS47637	201	2721	906	87563702	87825897	1	None	MDC2
7	ADAM22	ENSG00000008277	ENST00000398209	protein_coding	KNOWN	CCDS43608	201	2700	899	87563735	87832204	1	None	MDC2
7	ADAM22	ENSG00000008277	ENST00000398203	protein_coding	PUTATIVE	None	201	2413	803	87564071	87810923	1	None	MDC2
7	ADAM22	ENSG00000008277	ENST00000478920	processed_transcript	KNOWN	None	201	None	None	87719234	87759754	1	None	MDC2
7	ADAM22	ENSG00000008277	ENST00000426930	protein_coding	NOVEL	None	201	993	330	87792346	87826072	1	None	MDC2
7	ADAM22	ENSG00000008277	ENST00000413139	protein_coding	NOVEL	None	201	793	263	87795173	87825806	1	None	MDC2
7	ADAM22	ENSG00000008277	ENST00000476330	processed_transcript	KNOWN	None	201	None	None	87811320	87815737	1	None	MDC2
7	ADAM22	ENSG00000008277	ENST00000315984	protein_coding	KNOWN	None	201	2700	899	87563702	87826447	1	None	MDC2
7	None	ENSG00000170409	ENST00000433904	unprocessed_pseudogene	KNOWN	None	None	None	None	101967674	101969945	-1	None	None
5	MIR3650	ENSG00000265304	ENST00000581972	miRNA	KNOWN	None	38981	None	None	38557604	38557663	-1	None	hsa-mir-3650
4	RNU6-1282P	ENSG00000252544	ENST00000516735	snRNA	KNOWN	None	48245	None	None	152221670	152221765	1	None	None
1	RGS4	ENSG00000117152	ENST00000421743	protein_coding	KNOWN	CCDS44270	10000	909	302	163038565	163046592	1	SCZD9	None
1	RGS4	ENSG00000117152	ENST00000527393	processed_transcript	KNOWN	None	10000	None	None	163038725	163043284	1	SCZD9	None
1	RGS4	ENSG00000117152	ENST00000367909	protein_coding	KNOWN	CCDS1243	10000	618	205	163038935	163046592	1	SCZD9	None
1	RGS4	ENSG00000117152	ENST00000531057	protein_coding	PUTATIVE	None	10000	342	113	163039151	163044498	1	SCZD9	None
1	RGS4	ENSG00000117152	ENST00000527809	protein_coding	KNOWN	CCDS44272	10000	564	187	163039151	163044545	1	SCZD9	None
1	RGS4	ENSG00000117152	ENST00000367908	protein_coding	KNOWN	CCDS44271	10000	282	93	163039151	163046381	1	SCZD9	None
1	RGS4	ENSG00000117152	ENST00000491263	processed_transcript	KNOWN	None	10000	None	None	163039153	163046381	1	SCZD9	None
1	RGS4	ENSG00000117152	ENST00000533019	processed_transcript	KNOWN	None	10000	None	None	163040327	163044133	1	SCZD9	None
1	RGS4	ENSG00000117152	ENST00000367906	protein_coding	KNOWN	CCDS44272	10000	564	187	163041834	163044606	1	SCZD9	None
1	RGS4	ENSG00000117152	ENST00000528938	protein_coding	KNOWN	None	10000	431	142	163041936	163044217	1	SCZD9	None
5	None	ENSG00000251189	ENST00000511734	lincRNA	KNOWN	None	None	None	None	38682172	38685228	1	None	None
4	None	ENSG00000270265	ENST00000603264	lincRNA	KNOWN	None	None	None	None	152254927	152274376	-1	None	None
4	None	ENSG00000251611	ENST00000508847	lincRNA	KNOWN	None	None	None	None	152328703	152329987	-1	None	None
5	None	ENSG00000249911	ENST00000506463	lincRNA	KNOWN	None	None	None	None	38710469	38720375	-1	None	None
2	GEN1	ENSG00000178295	ENST00000317402	protein_coding	KNOWN	CCDS1691	26881	2727	908	17935125	17966076	1	None	FLJ40869, Gen
2	GEN1	ENSG00000178295	ENST00000524465	protein_coding	KNOWN	None	26881	379	125	17935414	17946194	1	None	FLJ40869, Gen
2	GEN1	ENSG00000178295	ENST00000532257	protein_coding	KNOWN	None	26881	280	92	17935427	17942781	1	None	FLJ40869, Gen
2	GEN1	ENSG00000178295	ENST00000534669	retained_intron	KNOWN	None	26881	None	None	17942663	17946411	1	None	FLJ40869, Gen
2	GEN1	ENSG00000178295	ENST00000528873	protein_coding	NOVEL	None	26881	871	289	17952343	17962037	1	None	FLJ40869, Gen
2	GEN1	ENSG00000178295	ENST00000534451	retained_intron	KNOWN	None	26881	None	None	17953915	17955739	1	None	FLJ40869, Gen
2	GEN1	ENSG00000178295	ENST00000381254	protein_coding	KNOWN	CCDS1691	26881	2727	908	17935414	17966632	1	None	FLJ40869, Gen
4	None	ENSG00000221657	ENST00000408730	miRNA	NOVEL	None	None	None	None	152486875	152486961	-1	None	None
19	None	ENSG00000267751	ENST00000589457	antisense	KNOWN	None	None	None	None	567212	571745	-1	None	None
19	None	ENSG00000267751	ENST00000588908	antisense	KNOWN	None	None	None	None	567229	571736	-1	None	None
19	None	ENSG00000267751	ENST00000590292	antisense	KNOWN	None	None	None	None	567311	571734	-1	None	None
19	None	ENSG00000267751	ENST00000588290	antisense	KNOWN	None	None	None	None	567410	572215	-1	None	None
4	RN7SKP35	ENSG00000253019	ENST00000517210	misc_RNA	KNOWN	None	45759	None	None	152497918	152498068	1	None	None
3	PIGZ	ENSG00000119227	ENST00000412723	protein_coding	KNOWN	CCDS3324	30596	1740	579	196673214	196695704	-1	None	FLJ12768, MGC52163, SMP3
3	PIGZ	ENSG00000119227	ENST00000413127	protein_coding	PUTATIVE	None	30596	148	48	196673608	196678801	-1	None	FLJ12768, MGC52163, SMP3
3	PIGZ	ENSG00000119227	ENST00000443835	protein_coding	PUTATIVE	None	30596	279	92	196674968	196695742	-1	None	FLJ12768, MGC52163, SMP3
3	PIGZ	ENSG00000119227	ENST00000238138	retained_intron	KNOWN	None	30596	None	None	196678409	196695931	-1	None	FLJ12768, MGC52163, SMP3
19	LILRB3	ENSG00000204577	ENST00000391750	protein_coding	KNOWN	CCDS33105	6607	1896	631	54720147	54727378	-1	None	LIR-3, HL9, ILT5, LIR3, CD85a
19	LILRB3	ENSG00000204577	ENST00000414379	nonsense_mediated_decay	KNOWN	None	6607	576	191	54720543	54726850	-1	None	LIR-3, HL9, ILT5, LIR3, CD85a
19	LILRB3	ENSG00000204577	ENST00000346401	protein_coding	KNOWN	None	6607	1932	643	54720753	54726911	-1	None	LIR-3, HL9, ILT5, LIR3, CD85a
19	LILRB3	ENSG00000204577	ENST00000245620	protein_coding	NOVEL	CCDS46175	6607	1899	632	54720797	54726850	-1	None	LIR-3, HL9, ILT5, LIR3, CD85a
19	LILRB3	ENSG00000204577	ENST00000460208	retained_intron	KNOWN	None	6607	None	None	54720965	54721567	-1	None	LIR-3, HL9, ILT5, LIR3, CD85a
19	LILRB3	ENSG00000204577	ENST00000469273	processed_transcript	KNOWN	None	6607	None	None	54720989	54724660	-1	None	LIR-3, HL9, ILT5, LIR3, CD85a
19	LILRB3	ENSG00000204577	ENST00000436504	retained_intron	KNOWN	None	6607	None	None	54722464	54723224	-1	None	LIR-3, HL9, ILT5, LIR3, CD85a
19	LILRB3	ENSG00000204577	ENST00000468668	retained_intron	KNOWN	None	6607	None	None	54725850	54726959	-1	None	LIR-3, HL9, ILT5, LIR3, CD85a
19	LILRB3	ENSG00000204577	ENST00000445347	protein_coding	KNOWN	None	6607	475	157	54725883	54726959	-1	None	LIR-3, HL9, ILT5, LIR3, CD85a
19	LILRB3	ENSG00000204577	ENST00000407860	protein_coding	KNOWN	None	6607	1947	648	54720797	54746602	-1	None	LIR-3, HL9, ILT5, LIR3, CD85a
19	LILRB3	ENSG00000204577	ENST00000424807	protein_coding	KNOWN	CCDS33105	6607	1896	631	54720147	54726959	-1	None	LIR-3, HL9, ILT5, LIR3, CD85a
4	None	ENSG00000251603	ENST00000508664	antisense	KNOWN	None	None	None	None	152588376	152591654	1	None	None
20	DEFB126	ENSG00000125788	ENST00000382398	protein_coding	KNOWN	CCDS12990	15900	336	111	123010	126392	1	C20orf8	bA530N10.1, DEFB-26
20	DEFB126	ENSG00000125788	ENST00000542572	processed_transcript	PUTATIVE	None	15900	None	None	123275	126390	1	C20orf8	bA530N10.1, DEFB-26
9	None	ENSG00000237339	ENST00000447907	lincRNA	KNOWN	None	None	None	None	138466781	138477210	1	None	None
9	None	ENSG00000237339	ENST00000445997	lincRNA	KNOWN	None	None	None	None	138466797	138478958	1	None	None
9	None	ENSG00000237339	ENST00000447497	lincRNA	KNOWN	None	None	None	None	138475589	138477118	1	None	None
5	None	ENSG00000249740	ENST00000513480	lincRNA	KNOWN	None	None	None	None	38736157	38845870	-1	None	None
5	None	ENSG00000249740	ENST00000512519	lincRNA	KNOWN	None	None	None	None	38843365	38845931	-1	None	None
19	None	ENSG00000267036	ENST00000589661	processed_pseudogene	KNOWN	None	None	None	None	590277	591603	-1	None	None
16	None	ENSG00000260071	ENST00000570038	lincRNA	KNOWN	None	None	None	None	9560512	9611421	1	None	None
4	None	ENSG00000251455	ENST00000514269	antisense	KNOWN	None	None	None	None	152595635	152599045	1	None	None
7	MPLKIP	ENSG00000168303	ENST00000306984	protein_coding	KNOWN	CCDS5463	16002	540	179	40172342	40174258	-1	C7orf11	ORF20, TTDN1
9	None	ENSG00000232303	ENST00000433250	processed_pseudogene	KNOWN	None	None	None	None	32566146	32567124	-1	None	None
4	None	ENSG00000249184	ENST00000513617	lincRNA	KNOWN	None	None	None	None	152720652	152722500	1	None	None
11	HSPB2-C11orf52	ENSG00000254445	ENST00000527616	nonsense_mediated_decay	KNOWN	CCDS8352	41996	549	182	111783460	111789574	1	None	None
11	HSPB2-C11orf52	ENSG00000254445	ENST00000534100	nonsense_mediated_decay	KNOWN	None	41996	159	52	111783466	111797595	1	None	None
16	RNA5SP403	ENSG00000200468	ENST00000363598	rRNA	KNOWN	None	43303	None	None	9658247	9658354	-1	RN5S403	None
4	None	ENSG00000249708	ENST00000515805	lincRNA	KNOWN	None	None	None	None	152808695	152812415	-1	None	None
15	FOXB1	ENSG00000171956	ENST00000396057	protein_coding	KNOWN	CCDS32255	3799	978	325	60296421	60298355	1	None	HFKH-5, FKH5
15	FOXB1	ENSG00000171956	ENST00000560857	processed_transcript	KNOWN	None	3799	None	None	60296433	60353929	1	None	HFKH-5, FKH5
15	FOXB1	ENSG00000171956	ENST00000558693	processed_transcript	PUTATIVE	None	3799	None	None	60328329	60334098	1	None	HFKH-5, FKH5
16	None	ENSG00000261313	ENST00000569807	lincRNA	KNOWN	None	None	None	None	75872528	75894765	-1	None	None
16	None	ENSG00000261313	ENST00000567477	lincRNA	KNOWN	None	None	None	None	75872671	75894730	-1	None	None
16	None	ENSG00000261313	ENST00000564405	lincRNA	KNOWN	None	None	None	None	75872734	75894745	-1	None	None
16	RNA5SP404	ENSG00000252927	ENST00000517118	rRNA	KNOWN	None	43304	None	None	9693954	9694085	1	RN5S404	None
3	SLC22A13	ENSG00000172940	ENST00000311856	protein_coding	KNOWN	CCDS2676	8494	1656	551	38307303	38319806	1	ORCTL3	OCTL1, OCTL3, OAT10
3	SLC22A13	ENSG00000172940	ENST00000415844	nonsense_mediated_decay	KNOWN	None	8494	696	231	38307397	38317819	1	ORCTL3	OCTL1, OCTL3, OAT10
3	SLC22A13	ENSG00000172940	ENST00000450935	protein_coding	KNOWN	None	8494	618	205	38307397	38317819	1	ORCTL3	OCTL1, OCTL3, OAT10
10	None	ENSG00000236968	ENST00000445932	lincRNA	KNOWN	None	None	None	None	3266008	3269599	1	None	None
16	None	ENSG00000260432	ENST00000562861	lincRNA	KNOWN	None	None	None	None	9847272	9851895	-1	None	None
22	None	ENSG00000257034	ENST00000544928	pseudogene	NOVEL	None	None	None	None	39127778	39128531	1	None	None
1	None	ENSG00000204505	ENST00000415919	unprocessed_pseudogene	KNOWN	None	None	None	None	13140456	13145000	1	None	None
4	None	ENSG00000249818	ENST00000510416	lincRNA	KNOWN	None	None	None	None	152826084	152849800	-1	None	None
16	SLC22A31	ENSG00000259803	ENST00000562855	protein_coding	NOVEL	None	27091	1671	556	89262406	89268072	-1	None	None
16	SLC22A31	ENSG00000259803	ENST00000563595	retained_intron	KNOWN	None	27091	None	None	89262559	89265248	-1	None	None
16	SLC22A31	ENSG00000259803	ENST00000562916	retained_intron	KNOWN	None	27091	None	None	89262755	89265275	-1	None	None
16	SLC22A31	ENSG00000259803	ENST00000568161	retained_intron	KNOWN	None	27091	None	None	89265513	89266529	-1	None	None
16	SLC22A31	ENSG00000259803	ENST00000603735	retained_intron	KNOWN	None	27091	None	None	89265820	89266726	-1	None	None
16	None	ENSG00000261810	ENST00000569218	antisense	KNOWN	None	None	None	None	10127541	10131154	1	None	None
22	None	ENSG00000203583	ENST00000366392	pseudogene	KNOWN	None	None	None	None	39128914	39129588	1	None	None
19	None	ENSG00000266939	ENST00000591847	antisense	KNOWN	None	None	None	None	615886	617159	-1	None	None
16	RNA5SP430	ENSG00000199299	ENST00000362429	rRNA	KNOWN	None	43330	None	None	75894946	75895055	-1	RN5S430	None
22	None	ENSG00000244491	ENST00000420118	processed_transcript	PUTATIVE	None	None	None	None	39130730	39134770	1	None	None
4	None	ENSG00000248991	ENST00000507949	lincRNA	KNOWN	None	None	None	None	152840620	152865085	1	None	None
6	PHF3	ENSG00000118482	ENST00000506783	protein_coding	PUTATIVE	None	8921	3217	1071	64345725	64419110	1	None	None
6	PHF3	ENSG00000118482	ENST00000481385	protein_coding	PUTATIVE	None	8921	2439	812	64345728	64408135	1	None	None
6	PHF3	ENSG00000118482	ENST00000515594	protein_coding	PUTATIVE	None	8921	2582	859	64345730	64422259	1	None	None
6	PHF3	ENSG00000118482	ENST00000494284	protein_coding	PUTATIVE	None	8921	2465	820	64345741	64404580	1	None	None
6	PHF3	ENSG00000118482	ENST00000262043	protein_coding	KNOWN	CCDS4966	8921	6120	2039	64345741	64425377	1	None	None
6	PHF3	ENSG00000118482	ENST00000509876	nonsense_mediated_decay	KNOWN	None	8921	249	82	64346016	64424350	1	None	None
6	PHF3	ENSG00000118482	ENST00000509330	protein_coding	PUTATIVE	None	8921	2211	736	64346386	64396225	1	None	None
6	PHF3	ENSG00000118482	ENST00000514822	protein_coding	PUTATIVE	None	8921	313	103	64389586	64394146	1	None	None
6	PHF3	ENSG00000118482	ENST00000503248	processed_transcript	KNOWN	None	8921	None	None	64412183	64416044	1	None	None
6	PHF3	ENSG00000118482	ENST00000505138	protein_coding	NOVEL	None	8921	509	168	64416690	64489101	1	None	None
6	PHF3	ENSG00000118482	ENST00000420043	processed_transcript	PUTATIVE	None	8921	None	None	64487498	64489229	1	None	None
6	PHF3	ENSG00000118482	ENST00000393387	protein_coding	KNOWN	CCDS4966	8921	6120	2039	64356431	64424405	1	None	None
Y	USP9YP6	ENSG00000226116	ENST00000413550	unprocessed_pseudogene	KNOWN	None	38078	None	None	20024579	20033510	-1	CDY24P	None
16	None	ENSG00000260223	ENST00000564561	lincRNA	KNOWN	None	None	None	None	76141181	76181677	-1	None	None
16	None	ENSG00000260223	ENST00000563923	lincRNA	KNOWN	None	None	None	None	76170020	76181704	-1	None	None
22	None	ENSG00000230149	ENST00000418803	processed_transcript	PUTATIVE	None	None	None	None	39130735	39134995	1	None	None
13	PRR20D	ENSG00000227151	ENST00000452123	protein_coding	KNOWN	CCDS45055	37222	666	221	57734766	57737787	1	None	None
19	None	ENSG00000272448	ENST00000607288	antisense	KNOWN	None	None	None	None	623519	623982	1	None	None
2	EN1	ENSG00000163064	ENST00000295206	protein_coding	KNOWN	CCDS2123	3342	1179	392	119599747	119605254	-1	None	None
2	EN1	ENSG00000163064	ENST00000546667	processed_transcript	KNOWN	None	3342	None	None	119600811	119601928	-1	None	None
3	ZNF654	ENSG00000175105	ENST00000309495	protein_coding	KNOWN	CCDS46874	25612	1746	581	88188254	88193815	1	None	FLJ10997, FLJ21142
HSCHR6_MHC_MCF	HLA-F	ENSG00000234487	ENST00000422439	protein_coding	KNOWN	None	4963	1003	333	29687668	29690477	1	None	None
HSCHR6_MHC_MCF	HLA-F	ENSG00000234487	ENST00000414958	protein_coding	KNOWN	None	4963	393	130	29688193	29689145	1	None	None
HSCHR6_MHC_MCF	HLA-F	ENSG00000234487	ENST00000490874	processed_transcript	KNOWN	None	4963	None	None	29688306	29689329	1	None	None
HSCHR6_MHC_MCF	HLA-F	ENSG00000234487	ENST00000376844	protein_coding	KNOWN	None	4963	1003	333	29688322	29690477	1	None	None
HSCHR6_MHC_MCF	HLA-F	ENSG00000234487	ENST00000473718	processed_transcript	KNOWN	None	4963	None	None	29688341	29690477	1	None	None
HSCHR6_MHC_MCF	HLA-F	ENSG00000234487	ENST00000466006	processed_transcript	KNOWN	None	4963	None	None	29688348	29690001	1	None	None
HSCHR6_MHC_MCF	HLA-F	ENSG00000234487	ENST00000441200	protein_coding	KNOWN	None	4963	727	241	29688378	29690477	1	None	None
HSCHR6_MHC_MCF	HLA-F	ENSG00000234487	ENST00000482707	processed_transcript	KNOWN	None	4963	None	None	29688418	29689266	1	None	None
HSCHR6_MHC_MCF	HLA-F	ENSG00000234487	ENST00000462607	processed_transcript	KNOWN	None	4963	None	None	29688854	29690213	1	None	None
HSCHR6_MHC_MCF	HLA-F	ENSG00000234487	ENST00000420024	protein_coding	KNOWN	None	4963	639	212	29688953	29690477	1	None	None
HSCHR6_MHC_MCF	HLA-F	ENSG00000234487	ENST00000465778	processed_transcript	KNOWN	None	4963	None	None	29689071	29690477	1	None	None
HSCHR6_MHC_MCF	HLA-F	ENSG00000234487	ENST00000465114	processed_transcript	KNOWN	None	4963	None	None	29689968	29690477	1	None	None
HSCHR6_MHC_MCF	HLA-F	ENSG00000234487	ENST00000473105	processed_transcript	KNOWN	None	4963	None	None	29690368	29690477	1	None	None
HSCHR6_MHC_MCF	HLA-F	ENSG00000234487	ENST00000437226	protein_coding	KNOWN	None	4963	30	9	29690448	29690477	1	None	None
6	MTCH1	ENSG00000137409	ENST00000373616	protein_coding	KNOWN	CCDS4828	17586	1119	372	36935917	36954074	-1	None	CGI-64, PSAP, SLC25A49
6	MTCH1	ENSG00000137409	ENST00000373627	protein_coding	KNOWN	None	17586	1170	389	36935917	36954074	-1	None	CGI-64, PSAP, SLC25A49
6	MTCH1	ENSG00000137409	ENST00000471737	processed_transcript	KNOWN	None	17586	None	None	36936536	36938692	-1	None	CGI-64, PSAP, SLC25A49
6	MTCH1	ENSG00000137409	ENST00000418541	protein_coding	KNOWN	None	17586	602	199	36936688	36945449	-1	None	CGI-64, PSAP, SLC25A49
6	MTCH1	ENSG00000137409	ENST00000460219	protein_coding	PUTATIVE	None	17586	1185	394	36937242	36953901	-1	None	CGI-64, PSAP, SLC25A49
6	MTCH1	ENSG00000137409	ENST00000492754	processed_transcript	KNOWN	None	17586	None	None	36937832	36940452	-1	None	CGI-64, PSAP, SLC25A49
6	MTCH1	ENSG00000137409	ENST00000538808	protein_coding	KNOWN	None	17586	765	254	36937502	36953833	-1	None	CGI-64, PSAP, SLC25A49
14	NRXN3	ENSG00000021645	ENST00000554738	nonsense_mediated_decay	KNOWN	None	8010	4179	1392	78708734	80328376	1	C14orf60	KIAA0743
14	NRXN3	ENSG00000021645	ENST00000556088	retained_intron	KNOWN	None	8010	None	None	78709945	79111770	1	C14orf60	KIAA0743
14	NRXN3	ENSG00000021645	ENST00000553363	protein_coding	NOVEL	None	8010	523	173	78744986	79117654	1	C14orf60	KIAA0743
14	NRXN3	ENSG00000021645	ENST00000553631	protein_coding	PUTATIVE	None	8010	225	74	78870074	79175850	1	C14orf60	KIAA0743
14	NRXN3	ENSG00000021645	ENST00000554719	protein_coding	KNOWN	CCDS9870	8010	3186	1061	78870093	80328786	1	C14orf60	KIAA0743
14	NRXN3	ENSG00000021645	ENST00000556496	retained_intron	KNOWN	None	8010	None	None	79081275	79454642	1	C14orf60	KIAA0743
14	NRXN3	ENSG00000021645	ENST00000557081	protein_coding	PUTATIVE	None	8010	359	118	79164563	79175984	1	C14orf60	KIAA0743
14	NRXN3	ENSG00000021645	ENST00000557594	protein_coding	NOVEL	None	8010	1914	637	79745682	80328821	1	C14orf60	KIAA0743
14	NRXN3	ENSG00000021645	ENST00000281127	protein_coding	KNOWN	CCDS9871	8010	1299	432	79745756	80330762	1	C14orf60	KIAA0743
14	NRXN3	ENSG00000021645	ENST00000428277	protein_coding	KNOWN	CCDS45145	8010	1380	459	79746249	80330760	1	C14orf60	KIAA0743
14	NRXN3	ENSG00000021645	ENST00000555387	nonsense_mediated_decay	KNOWN	None	8010	1197	398	79746606	80328797	1	C14orf60	KIAA0743
14	NRXN3	ENSG00000021645	ENST00000555073	processed_transcript	KNOWN	None	8010	None	None	79746845	80130235	1	C14orf60	KIAA0743
14	NRXN3	ENSG00000021645	ENST00000553803	processed_transcript	KNOWN	None	8010	None	None	79765138	80039354	1	C14orf60	KIAA0743
14	NRXN3	ENSG00000021645	ENST00000556003	processed_transcript	KNOWN	None	8010	None	None	79780394	80328302	1	C14orf60	KIAA0743
14	NRXN3	ENSG00000021645	ENST00000335750	protein_coding	KNOWN	CCDS9870	8010	3186	1061	79081275	80328307	1	C14orf60	KIAA0743
22	None	ENSG00000225450	ENST00000416406	antisense	KNOWN	None	None	None	None	39135008	39145046	1	None	None
4	None	ENSG00000251249	ENST00000515329	lincRNA	KNOWN	None	None	None	None	152877143	152890533	1	None	None
4	None	ENSG00000251249	ENST00000513759	lincRNA	KNOWN	None	None	None	None	152877155	152888742	1	None	None
4	None	ENSG00000251249	ENST00000504207	retained_intron	KNOWN	None	None	None	None	152877342	152878650	1	None	None
7	None	ENSG00000200552	ENST00000363682	misc_RNA	NOVEL	None	None	None	None	101977281	101977382	1	None	None
HSCHR6_MHC_COX	POLR2LP	ENSG00000226993	ENST00000443307	processed_pseudogene	KNOWN	None	31340	None	None	31101019	31101205	1	None	AB023060.6
3	CCR8	ENSG00000179934	ENST00000326306	protein_coding	KNOWN	CCDS2684	1609	1068	355	39371197	39374937	1	CMKBRL2, CMKBR8	CY6, TER1, CKR-L1, GPR-CY6, CDw198
3	CCR8	ENSG00000179934	ENST00000414803	protein_coding	PUTATIVE	None	1609	357	118	39371264	39375002	1	CMKBRL2, CMKBR8	CY6, TER1, CKR-L1, GPR-CY6, CDw198
3	CCR8	ENSG00000179934	ENST00000545843	protein_coding	KNOWN	None	1609	819	272	39371264	39375171	1	CMKBRL2, CMKBR8	CY6, TER1, CKR-L1, GPR-CY6, CDw198
7	None	ENSG00000228546	ENST00000432573	unprocessed_pseudogene	KNOWN	None	None	None	None	101977727	101979559	1	None	None
22	None	ENSG00000235209	ENST00000450216	lincRNA	KNOWN	None	None	None	None	39317232	39320713	1	None	None
10	RNU6-452P	ENSG00000207135	ENST00000384406	snRNA	KNOWN	None	47415	None	None	27624430	27624536	-1	None	None
11	C11orf52	ENSG00000149300	ENST00000529342	protein_coding	KNOWN	None	30531	132	43	111788756	111796438	1	None	MGC14839, FLJ25219
11	C11orf52	ENSG00000149300	ENST00000278601	protein_coding	KNOWN	CCDS8353	30531	372	123	111789601	111797596	1	None	MGC14839, FLJ25219
11	C11orf52	ENSG00000149300	ENST00000527286	processed_transcript	KNOWN	None	30531	None	None	111789721	111797202	1	None	MGC14839, FLJ25219
11	C11orf52	ENSG00000149300	ENST00000529012	retained_intron	KNOWN	None	30531	None	None	111794969	111797103	1	None	MGC14839, FLJ25219
22	APOBEC3B-AS1	ENSG00000249310	ENST00000513758	antisense	KNOWN	None	43836	None	None	39387564	39394214	-1	None	None
8	WWP1	ENSG00000123124	ENST00000517970	protein_coding	KNOWN	CCDS6242	17004	2769	922	87354967	87480732	1	None	AIP5, DKFZP434D2111
8	WWP1	ENSG00000123124	ENST00000523863	processed_transcript	KNOWN	None	17004	None	None	87355003	87399255	1	None	AIP5, DKFZP434D2111
8	WWP1	ENSG00000123124	ENST00000518683	retained_intron	KNOWN	None	17004	None	None	87393046	87460726	1	None	AIP5, DKFZP434D2111
8	WWP1	ENSG00000123124	ENST00000520374	processed_transcript	KNOWN	None	17004	None	None	87417284	87442932	1	None	AIP5, DKFZP434D2111
8	WWP1	ENSG00000123124	ENST00000521079	processed_transcript	KNOWN	None	17004	None	None	87429452	87443894	1	None	AIP5, DKFZP434D2111
8	WWP1	ENSG00000123124	ENST00000520453	protein_coding	NOVEL	None	17004	696	231	87447687	87460664	1	None	AIP5, DKFZP434D2111
8	WWP1	ENSG00000123124	ENST00000521997	retained_intron	KNOWN	None	17004	None	None	87447840	87464810	1	None	AIP5, DKFZP434D2111
8	WWP1	ENSG00000123124	ENST00000524036	retained_intron	KNOWN	None	17004	None	None	87454501	87464825	1	None	AIP5, DKFZP434D2111
8	WWP1	ENSG00000123124	ENST00000520521	retained_intron	KNOWN	None	17004	None	None	87470218	87473971	1	None	AIP5, DKFZP434D2111
8	WWP1	ENSG00000123124	ENST00000520798	protein_coding	PUTATIVE	None	17004	168	55	87473456	87490649	1	None	AIP5, DKFZP434D2111
8	WWP1	ENSG00000123124	ENST00000265428	protein_coding	KNOWN	CCDS6242	17004	2769	922	87386270	87479705	1	None	AIP5, DKFZP434D2111
8	WWP1	ENSG00000123124	ENST00000341922	protein_coding	KNOWN	None	17004	2379	792	87386270	87479705	1	None	AIP5, DKFZP434D2111
8	WWP1	ENSG00000123124	ENST00000349423	protein_coding	KNOWN	None	17004	2115	704	87386270	87479705	1	None	AIP5, DKFZP434D2111
15	ASB7	ENSG00000183475	ENST00000332783	protein_coding	KNOWN	CCDS10387	17182	957	318	101142739	101191910	1	None	None
15	ASB7	ENSG00000183475	ENST00000558747	protein_coding	NOVEL	None	17182	351	116	101142813	101189738	1	None	None
15	ASB7	ENSG00000183475	ENST00000343276	protein_coding	KNOWN	CCDS10388	17182	825	274	101142814	101170414	1	None	None
15	ASB7	ENSG00000183475	ENST00000561192	retained_intron	KNOWN	None	17182	None	None	101149752	101152717	1	None	None
16	IMPDH1P11	ENSG00000261647	ENST00000567885	processed_pseudogene	KNOWN	None	6054	None	None	10205239	10206742	1	IMPDHL1	None
3	MBNL1	ENSG00000152601	ENST00000477171	processed_transcript	PUTATIVE	None	6923	None	None	151961617	152017899	1	MBNL	KIAA0428, EXP42, EXP40, EXP35, EXP
3	MBNL1	ENSG00000152601	ENST00000355460	protein_coding	KNOWN	CCDS3164	6923	1113	370	151986257	152183569	1	MBNL	KIAA0428, EXP42, EXP40, EXP35, EXP
3	MBNL1	ENSG00000152601	ENST00000461436	processed_transcript	PUTATIVE	None	6923	None	None	151986695	152020238	1	MBNL	KIAA0428, EXP42, EXP40, EXP35, EXP
3	MBNL1	ENSG00000152601	ENST00000495875	protein_coding	PUTATIVE	None	6923	270	89	151986709	152150706	1	MBNL	KIAA0428, EXP42, EXP40, EXP35, EXP
3	MBNL1	ENSG00000152601	ENST00000493459	protein_coding	PUTATIVE	None	6923	1032	343	151986736	152183007	1	MBNL	KIAA0428, EXP42, EXP40, EXP35, EXP
3	MBNL1	ENSG00000152601	ENST00000324210	protein_coding	KNOWN	CCDS3163	6923	1149	382	151986752	152183552	1	MBNL	KIAA0428, EXP42, EXP40, EXP35, EXP
3	MBNL1	ENSG00000152601	ENST00000459747	protein_coding	PUTATIVE	None	6923	175	57	151986892	152132898	1	MBNL	KIAA0428, EXP42, EXP40, EXP35, EXP
3	MBNL1	ENSG00000152601	ENST00000460591	protein_coding	PUTATIVE	None	6923	466	154	151987238	152163263	1	MBNL	KIAA0428, EXP42, EXP40, EXP35, EXP
3	MBNL1	ENSG00000152601	ENST00000466565	processed_transcript	PUTATIVE	None	6923	None	None	152016771	152018016	1	MBNL	KIAA0428, EXP42, EXP40, EXP35, EXP
3	MBNL1	ENSG00000152601	ENST00000498502	protein_coding	PUTATIVE	None	6923	1047	348	152017194	152183552	1	MBNL	KIAA0428, EXP42, EXP40, EXP35, EXP
3	MBNL1	ENSG00000152601	ENST00000485910	protein_coding	KNOWN	CCDS54656	6923	909	302	152017472	152182992	1	MBNL	KIAA0428, EXP42, EXP40, EXP35, EXP
3	MBNL1	ENSG00000152601	ENST00000463374	protein_coding	KNOWN	CCDS3165	6923	1167	388	152017472	152183569	1	MBNL	KIAA0428, EXP42, EXP40, EXP35, EXP
3	MBNL1	ENSG00000152601	ENST00000465907	protein_coding	NOVEL	CCDS3166	6923	945	314	152017983	152177116	1	MBNL	KIAA0428, EXP42, EXP40, EXP35, EXP
3	MBNL1	ENSG00000152601	ENST00000492948	protein_coding	KNOWN	CCDS3168	6923	1029	342	152017983	152177116	1	MBNL	KIAA0428, EXP42, EXP40, EXP35, EXP
3	MBNL1	ENSG00000152601	ENST00000485509	protein_coding	KNOWN	CCDS3167	6923	1023	340	152017983	152177116	1	MBNL	KIAA0428, EXP42, EXP40, EXP35, EXP
3	MBNL1	ENSG00000152601	ENST00000464596	protein_coding	NOVEL	None	6923	989	328	152017987	152177091	1	MBNL	KIAA0428, EXP42, EXP40, EXP35, EXP
3	MBNL1	ENSG00000152601	ENST00000460166	processed_transcript	KNOWN	None	6923	None	None	152132847	152173366	1	MBNL	KIAA0428, EXP42, EXP40, EXP35, EXP
3	MBNL1	ENSG00000152601	ENST00000478535	protein_coding	PUTATIVE	None	6923	633	210	152132847	152180948	1	MBNL	KIAA0428, EXP42, EXP40, EXP35, EXP
3	MBNL1	ENSG00000152601	ENST00000497971	retained_intron	KNOWN	None	6923	None	None	152175480	152183569	1	MBNL	KIAA0428, EXP42, EXP40, EXP35, EXP
3	MBNL1	ENSG00000152601	ENST00000282486	protein_coding	KNOWN	CCDS3165	6923	1167	388	151985829	152183568	1	MBNL	KIAA0428, EXP42, EXP40, EXP35, EXP
3	MBNL1	ENSG00000152601	ENST00000282488	protein_coding	KNOWN	CCDS54656	6923	909	302	151985829	152183568	1	MBNL	KIAA0428, EXP42, EXP40, EXP35, EXP
3	MBNL1	ENSG00000152601	ENST00000324196	protein_coding	KNOWN	CCDS3167	6923	1023	340	152017194	152183568	1	MBNL	KIAA0428, EXP42, EXP40, EXP35, EXP
3	MBNL1	ENSG00000152601	ENST00000545754	protein_coding	KNOWN	CCDS3166	6923	945	314	152017194	152183568	1	MBNL	KIAA0428, EXP42, EXP40, EXP35, EXP
3	MBNL1	ENSG00000152601	ENST00000357472	protein_coding	KNOWN	CCDS3168	6923	1029	342	152017194	152183568	1	MBNL	KIAA0428, EXP42, EXP40, EXP35, EXP
10	None	ENSG00000260151	ENST00000568270	lincRNA	KNOWN	None	None	None	None	27632365	27633846	1	None	None
22	None	ENSG00000259421	ENST00000558766	unprocessed_pseudogene	KNOWN	None	None	None	None	39466419	39466676	1	None	None
16	PRSS54	ENSG00000103023	ENST00000567164	protein_coding	KNOWN	CCDS32463	26336	1188	395	58313901	58328943	-1	None	FLJ25339, KLKBL4, CT67
16	PRSS54	ENSG00000103023	ENST00000543437	protein_coding	PUTATIVE	None	26336	891	296	58313907	58328880	-1	None	FLJ25339, KLKBL4, CT67
16	PRSS54	ENSG00000103023	ENST00000569079	protein_coding	PUTATIVE	None	26336	610	202	58314409	58328887	-1	None	FLJ25339, KLKBL4, CT67
16	PRSS54	ENSG00000103023	ENST00000563336	processed_transcript	PUTATIVE	None	26336	None	None	58318309	58319206	-1	None	FLJ25339, KLKBL4, CT67
16	PRSS54	ENSG00000103023	ENST00000569727	protein_coding	NOVEL	None	26336	559	185	58318589	58328951	-1	None	FLJ25339, KLKBL4, CT67
16	PRSS54	ENSG00000103023	ENST00000219301	protein_coding	KNOWN	CCDS32463	26336	1188	395	58313901	58328951	-1	None	FLJ25339, KLKBL4, CT67
7	SPDYE6	ENSG00000166667	ENST00000432799	unprocessed_pseudogene	KNOWN	None	35465	None	None	101988828	101995406	-1	None	None
7	SPDYE6	ENSG00000166667	ENST00000331921	unprocessed_pseudogene	KNOWN	None	35465	None	None	101986192	101996889	-1	None	None
11	CCDC86	ENSG00000110104	ENST00000227520	protein_coding	KNOWN	CCDS7993	28359	1083	360	60609544	60618554	1	None	MGC2574
11	CCDC86	ENSG00000110104	ENST00000535217	nonsense_mediated_decay	KNOWN	None	28359	265	87	60609618	60618519	1	None	MGC2574
11	CCDC86	ENSG00000110104	ENST00000545580	protein_coding	PUTATIVE	None	28359	315	104	60614946	60618019	1	None	MGC2574
5	None	ENSG00000272139	ENST00000607804	antisense	KNOWN	None	None	None	None	121646992	121647368	-1	None	None
HSCHR6_MHC_COX	PSORS1C3	ENSG00000223364	ENST00000444400	processed_transcript	KNOWN	None	17203	None	None	31134078	31138243	-1	None	NCRNA00196
3	TNIK	ENSG00000154310	ENST00000436636	protein_coding	KNOWN	CCDS46956	30765	4083	1360	170779128	171178197	-1	None	KIAA0551
3	TNIK	ENSG00000154310	ENST00000496492	retained_intron	KNOWN	None	30765	None	None	170781050	170819861	-1	None	KIAA0551
3	TNIK	ENSG00000154310	ENST00000341852	protein_coding	KNOWN	CCDS54674	30765	3831	1276	170781119	171178197	-1	None	KIAA0551
3	TNIK	ENSG00000154310	ENST00000464785	processed_transcript	PUTATIVE	None	30765	None	None	170781341	170781831	-1	None	KIAA0551
3	TNIK	ENSG00000154310	ENST00000284483	protein_coding	KNOWN	CCDS54679	30765	4059	1352	170781670	171177852	-1	None	KIAA0551
3	TNIK	ENSG00000154310	ENST00000475336	protein_coding	KNOWN	CCDS54673	30765	3807	1268	170781670	171177852	-1	None	KIAA0551
3	TNIK	ENSG00000154310	ENST00000357327	protein_coding	KNOWN	CCDS54676	30765	3996	1331	170781670	171177852	-1	None	KIAA0551
3	TNIK	ENSG00000154310	ENST00000460047	protein_coding	KNOWN	CCDS54677	30765	3894	1297	170781670	171177852	-1	None	KIAA0551
3	TNIK	ENSG00000154310	ENST00000488470	protein_coding	KNOWN	CCDS54678	30765	3918	1305	170781670	171177852	-1	None	KIAA0551
3	TNIK	ENSG00000154310	ENST00000470834	protein_coding	KNOWN	CCDS54675	30765	3972	1323	170781670	171177852	-1	None	KIAA0551
3	TNIK	ENSG00000154310	ENST00000484051	retained_intron	KNOWN	None	30765	None	None	170784163	170800471	-1	None	KIAA0551
3	TNIK	ENSG00000154310	ENST00000487846	retained_intron	KNOWN	None	30765	None	None	170784259	170797372	-1	None	KIAA0551
3	TNIK	ENSG00000154310	ENST00000459881	retained_intron	KNOWN	None	30765	None	None	170784276	170789195	-1	None	KIAA0551
3	TNIK	ENSG00000154310	ENST00000468757	protein_coding	PUTATIVE	None	30765	1052	349	170875340	170943500	-1	None	KIAA0551
3	TNIK	ENSG00000154310	ENST00000465393	protein_coding	PUTATIVE	None	30765	138	45	171064723	171178194	-1	None	KIAA0551
3	TNIK	ENSG00000154310	ENST00000369326	protein_coding	KNOWN	None	30765	4017	1338	170780292	171178197	-1	None	KIAA0551
3	TNIK	ENSG00000154310	ENST00000538048	protein_coding	KNOWN	None	30765	3939	1312	170780292	171178197	-1	None	KIAA0551
5	None	ENSG00000248577	ENST00000505442	processed_pseudogene	KNOWN	None	None	None	None	38763260	38764391	-1	None	None
22	None	ENSG00000225720	ENST00000560933	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	39487591	39488115	1	None	None
22	None	ENSG00000225720	ENST00000424436	processed_transcript	KNOWN	None	None	None	None	39487639	39488860	1	None	None
20	DEFB127	ENSG00000088782	ENST00000382388	protein_coding	KNOWN	CCDS12991	16206	300	99	138111	139804	1	C20orf73	bA530N10.2, DEF-27
2	NPAS2	ENSG00000170485	ENST00000335681	protein_coding	KNOWN	CCDS2048	7895	2475	824	101436614	101613291	1	None	MOP4, PASD4, bHLHe9
2	NPAS2	ENSG00000170485	ENST00000427413	protein_coding	PUTATIVE	None	7895	623	206	101437487	101564761	1	None	MOP4, PASD4, bHLHe9
2	NPAS2	ENSG00000170485	ENST00000486017	processed_transcript	KNOWN	None	7895	None	None	101541608	101580638	1	None	MOP4, PASD4, bHLHe9
2	NPAS2	ENSG00000170485	ENST00000448812	protein_coding	NOVEL	None	7895	774	257	101541608	101587511	1	None	MOP4, PASD4, bHLHe9
2	NPAS2	ENSG00000170485	ENST00000451740	protein_coding	NOVEL	None	7895	321	106	101541624	101554304	1	None	MOP4, PASD4, bHLHe9
2	NPAS2	ENSG00000170485	ENST00000492373	processed_transcript	KNOWN	None	7895	None	None	101550573	101581380	1	None	MOP4, PASD4, bHLHe9
2	NPAS2	ENSG00000170485	ENST00000474550	retained_intron	KNOWN	None	7895	None	None	101587063	101612517	1	None	MOP4, PASD4, bHLHe9
2	NPAS2	ENSG00000170485	ENST00000471974	processed_transcript	KNOWN	None	7895	None	None	101591265	101599098	1	None	MOP4, PASD4, bHLHe9
2	NPAS2	ENSG00000170485	ENST00000450763	protein_coding	PUTATIVE	None	7895	607	201	101591328	101609989	1	None	MOP4, PASD4, bHLHe9
2	NPAS2	ENSG00000170485	ENST00000433408	protein_coding	PUTATIVE	None	7895	808	268	101598716	101612517	1	None	MOP4, PASD4, bHLHe9
2	NPAS2	ENSG00000170485	ENST00000495559	retained_intron	KNOWN	None	7895	None	None	101604772	101613284	1	None	MOP4, PASD4, bHLHe9
2	NPAS2	ENSG00000170485	ENST00000490052	processed_transcript	KNOWN	None	7895	None	None	101610905	101612517	1	None	MOP4, PASD4, bHLHe9
2	NPAS2	ENSG00000170485	ENST00000542504	protein_coding	KNOWN	None	7895	2670	889	101437487	101612097	1	None	MOP4, PASD4, bHLHe9
10	FAM210CP	ENSG00000213770	ENST00000445714	processed_pseudogene	KNOWN	None	44938	None	None	27638646	27639219	-1	None	None
11	BTBD10	ENSG00000148925	ENST00000278174	protein_coding	KNOWN	CCDS7811	21445	1428	475	13409548	13484827	-1	None	GMRP1, GMRP-1, MGC13007
11	BTBD10	ENSG00000148925	ENST00000527102	nonsense_mediated_decay	KNOWN	None	21445	609	202	13409571	13484773	-1	None	GMRP1, GMRP-1, MGC13007
11	BTBD10	ENSG00000148925	ENST00000530907	protein_coding	PUTATIVE	None	21445	1452	483	13410230	13461826	-1	None	GMRP1, GMRP-1, MGC13007
11	BTBD10	ENSG00000148925	ENST00000528120	protein_coding	PUTATIVE	None	21445	1284	427	13410249	13484844	-1	None	GMRP1, GMRP-1, MGC13007
11	BTBD10	ENSG00000148925	ENST00000525864	retained_intron	KNOWN	None	21445	None	None	13426875	13484727	-1	None	GMRP1, GMRP-1, MGC13007
11	BTBD10	ENSG00000148925	ENST00000525661	retained_intron	KNOWN	None	21445	None	None	13427096	13461755	-1	None	GMRP1, GMRP-1, MGC13007
11	BTBD10	ENSG00000148925	ENST00000525108	nonsense_mediated_decay	KNOWN	None	21445	111	36	13427313	13484844	-1	None	GMRP1, GMRP-1, MGC13007
11	BTBD10	ENSG00000148925	ENST00000532261	processed_transcript	PUTATIVE	None	21445	None	None	13441040	13461755	-1	None	GMRP1, GMRP-1, MGC13007
11	BTBD10	ENSG00000148925	ENST00000529708	protein_coding	KNOWN	None	21445	198	65	13443289	13484823	-1	None	GMRP1, GMRP-1, MGC13007
11	BTBD10	ENSG00000148925	ENST00000526841	protein_coding	KNOWN	None	21445	193	63	13443294	13484728	-1	None	GMRP1, GMRP-1, MGC13007
11	BTBD10	ENSG00000148925	ENST00000527858	processed_transcript	PUTATIVE	None	21445	None	None	13466712	13484799	-1	None	GMRP1, GMRP-1, MGC13007
12	APOF	ENSG00000175336	ENST00000398189	protein_coding	KNOWN	CCDS44923	615	981	326	56754353	56756607	-1	None	None
12	APOF	ENSG00000175336	ENST00000541105	protein_coding	KNOWN	None	615	927	308	56754386	56756607	-1	None	None
8	None	ENSG00000254343	ENST00000520544	lincRNA	KNOWN	None	None	None	None	121064419	121068423	1	None	None
8	None	ENSG00000254343	ENST00000574086	lincRNA	KNOWN	None	None	None	None	121066919	121068440	1	None	None
18	SERPINB4	ENSG00000206073	ENST00000341074	protein_coding	KNOWN	CCDS11986	10570	1173	390	61304493	61311532	-1	SCCA2	PI11, LEUPIN, SCCA-2, SCCA1
18	SERPINB4	ENSG00000206073	ENST00000413673	protein_coding	NOVEL	None	10570	1115	370	61304952	61310816	-1	SCCA2	PI11, LEUPIN, SCCA-2, SCCA1
18	SERPINB4	ENSG00000206073	ENST00000436264	protein_coding	NOVEL	None	10570	635	210	61306423	61311490	-1	SCCA2	PI11, LEUPIN, SCCA-2, SCCA1
18	SERPINB4	ENSG00000206073	ENST00000498496	retained_intron	KNOWN	None	10570	None	None	61310131	61311489	-1	SCCA2	PI11, LEUPIN, SCCA-2, SCCA1
18	SERPINB4	ENSG00000206073	ENST00000356424	protein_coding	KNOWN	None	10570	1017	338	61304494	61311502	-1	SCCA2	PI11, LEUPIN, SCCA-2, SCCA1
1	None	ENSG00000233336	ENST00000437631	lincRNA	KNOWN	None	None	None	None	13146777	13147256	1	None	None
2	MARCO	ENSG00000019169	ENST00000327097	protein_coding	KNOWN	CCDS2124	6895	1563	520	119699742	119752236	1	None	SCARA2
2	MARCO	ENSG00000019169	ENST00000412481	protein_coding	PUTATIVE	None	6895	191	62	119699866	119727915	1	None	SCARA2
2	MARCO	ENSG00000019169	ENST00000494979	retained_intron	KNOWN	None	6895	None	None	119750593	119752234	1	None	SCARA2
2	MARCO	ENSG00000019169	ENST00000541757	protein_coding	KNOWN	None	6895	1329	442	119699864	119752230	1	None	SCARA2
3	SNTN	ENSG00000188817	ENST00000343837	protein_coding	KNOWN	CCDS33779	33706	444	147	63638344	63650397	1	None	FLJ44379, S100AL
3	SNTN	ENSG00000188817	ENST00000469440	protein_coding	NOVEL	None	33706	499	165	63638355	63649736	1	None	FLJ44379, S100AL
3	SNTN	ENSG00000188817	ENST00000496807	protein_coding	PUTATIVE	None	33706	348	115	63638374	63664696	1	None	FLJ44379, S100AL
22	COX5BP7	ENSG00000226024	ENST00000414780	processed_pseudogene	KNOWN	None	2276	None	None	39516298	39516571	-1	COX5BL7	None
19	None	ENSG00000268810	ENST00000599645	antisense	KNOWN	None	None	None	None	46885749	46886426	-1	None	None
2	KDM3A	ENSG00000115548	ENST00000452034	protein_coding	KNOWN	None	20815	363	120	86667770	86678246	1	JMJD1, JMJD1A	TSGA, KIAA0742, JHMD2A
2	KDM3A	ENSG00000115548	ENST00000409556	protein_coding	KNOWN	CCDS1990	20815	3966	1321	86667924	86719839	1	JMJD1, JMJD1A	TSGA, KIAA0742, JHMD2A
2	KDM3A	ENSG00000115548	ENST00000441719	nonsense_mediated_decay	KNOWN	None	20815	2136	711	86668502	86719837	1	JMJD1, JMJD1A	TSGA, KIAA0742, JHMD2A
2	KDM3A	ENSG00000115548	ENST00000409064	protein_coding	KNOWN	CCDS1990	20815	3966	1321	86668584	86719839	1	JMJD1, JMJD1A	TSGA, KIAA0742, JHMD2A
2	KDM3A	ENSG00000115548	ENST00000427678	protein_coding	KNOWN	None	20815	512	169	86669118	86682266	1	JMJD1, JMJD1A	TSGA, KIAA0742, JHMD2A
2	KDM3A	ENSG00000115548	ENST00000498528	processed_transcript	PUTATIVE	None	20815	None	None	86669447	86677010	1	JMJD1, JMJD1A	TSGA, KIAA0742, JHMD2A
2	KDM3A	ENSG00000115548	ENST00000466058	processed_transcript	PUTATIVE	None	20815	None	None	86670301	86677020	1	JMJD1, JMJD1A	TSGA, KIAA0742, JHMD2A
2	KDM3A	ENSG00000115548	ENST00000463013	retained_intron	KNOWN	None	20815	None	None	86676937	86683778	1	JMJD1, JMJD1A	TSGA, KIAA0742, JHMD2A
2	KDM3A	ENSG00000115548	ENST00000488971	retained_intron	KNOWN	None	20815	None	None	86683556	86693956	1	JMJD1, JMJD1A	TSGA, KIAA0742, JHMD2A
2	KDM3A	ENSG00000115548	ENST00000485171	processed_transcript	KNOWN	None	20815	None	None	86693755	86702073	1	JMJD1, JMJD1A	TSGA, KIAA0742, JHMD2A
2	KDM3A	ENSG00000115548	ENST00000462197	processed_transcript	KNOWN	None	20815	None	None	86711804	86716713	1	JMJD1, JMJD1A	TSGA, KIAA0742, JHMD2A
2	KDM3A	ENSG00000115548	ENST00000491383	retained_intron	KNOWN	None	20815	None	None	86714051	86719839	1	JMJD1, JMJD1A	TSGA, KIAA0742, JHMD2A
2	KDM3A	ENSG00000115548	ENST00000470160	retained_intron	KNOWN	None	20815	None	None	86714817	86719838	1	JMJD1, JMJD1A	TSGA, KIAA0742, JHMD2A
2	KDM3A	ENSG00000115548	ENST00000483866	retained_intron	KNOWN	None	20815	None	None	86716300	86718051	1	JMJD1, JMJD1A	TSGA, KIAA0742, JHMD2A
2	KDM3A	ENSG00000115548	ENST00000312912	protein_coding	KNOWN	CCDS1990	20815	3966	1321	86668271	86719833	1	JMJD1, JMJD1A	TSGA, KIAA0742, JHMD2A
2	KDM3A	ENSG00000115548	ENST00000542128	protein_coding	KNOWN	None	20815	3810	1269	86669171	86719335	1	JMJD1, JMJD1A	TSGA, KIAA0742, JHMD2A
19	None	ENSG00000269151	ENST00000598616	antisense	KNOWN	None	None	None	None	46893772	46894109	-1	None	None
22	None	ENSG00000233899	ENST00000430647	processed_transcript	KNOWN	None	None	None	None	39532704	39537189	-1	None	None
20	DEFB128	ENSG00000185982	ENST00000334391	protein_coding	KNOWN	CCDS33430	18106	282	93	168494	170322	-1	None	DEFB-28
19	GAPDHP38	ENSG00000249210	ENST00000503632	unprocessed_pseudogene	KNOWN	None	37792	None	None	47061898	47062899	1	None	None
22	FUNDC2P4	ENSG00000227009	ENST00000441207	processed_pseudogene	KNOWN	None	37971	None	None	39551530	39551950	1	None	None
16	RN7SL493P	ENSG00000266439	ENST00000580401	misc_RNA	KNOWN	None	46509	None	None	10315634	10315930	-1	None	None
19	None	ENSG00000269292	ENST00000597609	antisense	KNOWN	None	None	None	None	47112534	47114036	-1	None	None
18	GALR1	ENSG00000166573	ENST00000299727	protein_coding	KNOWN	CCDS12012	4132	1050	349	74962505	74980858	1	GALNR1, GALNR	None
18	GALR1	ENSG00000166573	ENST00000582943	processed_transcript	PUTATIVE	None	4132	None	None	74965696	74968173	1	GALNR1, GALNR	None
HSCHR6_MHC_QBL	TRIM26	ENSG00000137313	ENST00000463977	processed_transcript	KNOWN	None	12962	None	None	30141750	30147697	-1	ZNF173	RNF95
HSCHR6_MHC_QBL	TRIM26	ENSG00000137313	ENST00000383607	protein_coding	KNOWN	None	12962	1620	539	30141750	30162069	-1	ZNF173	RNF95
HSCHR6_MHC_QBL	TRIM26	ENSG00000137313	ENST00000327357	protein_coding	KNOWN	None	12962	1620	539	30141750	30170667	-1	ZNF173	RNF95
HSCHR6_MHC_QBL	TRIM26	ENSG00000137313	ENST00000396558	protein_coding	KNOWN	None	12962	1620	539	30141750	30170728	-1	ZNF173	RNF95
HSCHR6_MHC_QBL	TRIM26	ENSG00000137313	ENST00000412755	protein_coding	KNOWN	None	12962	745	247	30153843	30170720	-1	ZNF173	RNF95
HSCHR6_MHC_QBL	TRIM26	ENSG00000137313	ENST00000419171	protein_coding	KNOWN	None	12962	472	156	30155798	30170686	-1	ZNF173	RNF95
HSCHR6_MHC_QBL	TRIM26	ENSG00000137313	ENST00000427612	protein_coding	KNOWN	None	12962	366	121	30156045	30170667	-1	ZNF173	RNF95
HSCHR6_MHC_QBL	TRIM26	ENSG00000137313	ENST00000461313	processed_transcript	KNOWN	None	12962	None	None	30156071	30170666	-1	ZNF173	RNF95
22	None	ENSG00000224794	ENST00000434516	antisense	KNOWN	None	None	None	None	39688993	39691568	1	None	None
3	C3orf38	ENSG00000179021	ENST00000318887	protein_coding	KNOWN	CCDS2921	28384	990	329	88198893	88207118	1	None	MGC26717
3	C3orf38	ENSG00000179021	ENST00000486971	protein_coding	PUTATIVE	None	28384	423	140	88199137	88206094	1	None	MGC26717
3	C3orf38	ENSG00000179021	ENST00000464919	processed_transcript	KNOWN	None	28384	None	None	88199754	88202496	1	None	MGC26717
3	C3orf38	ENSG00000179021	ENST00000485219	processed_transcript	PUTATIVE	None	28384	None	None	88206039	88217879	1	None	MGC26717
19	DACT3-AS1	ENSG00000245598	ENST00000525008	antisense	KNOWN	None	44120	None	None	47163621	47180704	1	None	None
19	DACT3-AS1	ENSG00000245598	ENST00000500689	antisense	KNOWN	None	44120	None	None	47164735	47174598	1	None	None
19	DACT3-AS1	ENSG00000245598	ENST00000525352	antisense	KNOWN	None	44120	None	None	47165242	47176893	1	None	None
13	PRR20E	ENSG00000234278	ENST00000434815	protein_coding	KNOWN	CCDS45056	37223	666	221	57741331	57744352	1	None	None
13	PRR20E	ENSG00000234278	ENST00000445351	protein_coding	KNOWN	CCDS45056	37223	666	221	57741718	57744352	1	None	None
22	SNORD83B	ENSG00000209480	ENST00000386745	snoRNA	KNOWN	None	17132	None	None	39709824	39709916	-1	RNU83B	U83B
5	None	ENSG00000250629	ENST00000514586	antisense	KNOWN	None	None	None	None	38783682	38792856	1	None	None
X	None	ENSG00000216938	ENST00000402913	processed_pseudogene	KNOWN	None	None	None	None	26704143	26706072	1	None	None
22	SNORD83A	ENSG00000209482	ENST00000386747	snoRNA	KNOWN	None	17131	None	None	39711218	39711312	-1	RNU83A	U83A
5	AIG1P1	ENSG00000249089	ENST00000503376	unprocessed_pseudogene	KNOWN	None	43926	None	None	39022513	39022660	1	None	None
7	None	ENSG00000237310	ENST00000445681	lincRNA	KNOWN	None	None	None	None	65958693	65960461	1	None	None
7	None	ENSG00000237310	ENST00000452565	lincRNA	KNOWN	None	None	None	None	65958773	65960459	1	None	None
22	SNORD43	ENSG00000263764	ENST00000583861	snoRNA	KNOWN	None	10182	None	None	39715055	39715118	-1	RNU43	U43
X	HMGA1P1	ENSG00000236683	ENST00000415560	processed_pseudogene	KNOWN	None	13321	None	None	26766146	26767207	1	HMGA1L1	HMGIYL1
X	HMGA1P1	ENSG00000236683	ENST00000374117	processed_pseudogene	KNOWN	None	13321	None	None	26766146	26766469	1	HMGA1L1	HMGIYL1
5	GOLGA5P1	ENSG00000251215	ENST00000507317	processed_pseudogene	KNOWN	None	43925	None	None	39169312	39170437	-1	None	None
1	None	ENSG00000229978	ENST00000448180	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	13162645	13165443	-1	None	None
1	None	ENSG00000229978	ENST00000434606	processed_transcript	PUTATIVE	None	None	None	None	13162851	13164468	-1	None	None
17	SSH2	ENSG00000141298	ENST00000269033	protein_coding	KNOWN	CCDS11253	30580	4272	1423	27952956	28257170	-1	None	KIAA1725
17	SSH2	ENSG00000141298	ENST00000577991	protein_coding	PUTATIVE	None	30580	350	115	27957620	27958502	-1	None	KIAA1725
17	SSH2	ENSG00000141298	ENST00000540801	protein_coding	NOVEL	None	30580	4353	1450	27957767	28257111	-1	None	KIAA1725
17	SSH2	ENSG00000141298	ENST00000394848	retained_intron	KNOWN	None	30580	None	None	27974712	28257018	-1	None	KIAA1725
17	SSH2	ENSG00000141298	ENST00000579040	nonsense_mediated_decay	KNOWN	None	30580	338	111	28000919	28257191	-1	None	KIAA1725
17	SSH2	ENSG00000141298	ENST00000324677	processed_transcript	KNOWN	None	30580	None	None	28000932	28088408	-1	None	KIAA1725
17	SSH2	ENSG00000141298	ENST00000577483	retained_intron	KNOWN	None	30580	None	None	28002848	28257125	-1	None	KIAA1725
17	SSH2	ENSG00000141298	ENST00000592397	protein_coding	PUTATIVE	None	30580	361	119	28004737	28166160	-1	None	KIAA1725
17	SSH2	ENSG00000141298	ENST00000578411	retained_intron	KNOWN	None	30580	None	None	28120634	28257185	-1	None	KIAA1725
17	SSH2	ENSG00000141298	ENST00000582084	protein_coding	PUTATIVE	None	30580	147	48	28252235	28257294	-1	None	KIAA1725
17	SSH2	ENSG00000141298	ENST00000590153	protein_coding	PUTATIVE	None	30580	147	48	28252295	28257246	-1	None	KIAA1725
17	SSH2	ENSG00000141298	ENST00000579954	protein_coding	PUTATIVE	None	30580	129	42	28255300	28257080	-1	None	KIAA1725
X	RNU1-142P	ENSG00000252491	ENST00000516682	snRNA	KNOWN	None	48484	None	None	26808259	26808403	1	None	None
20	PPDPF	ENSG00000125534	ENST00000370179	protein_coding	KNOWN	CCDS13523	16142	345	114	62152077	62153559	1	C20orf149	dJ697K14.9, exdpf
20	PPDPF	ENSG00000125534	ENST00000464438	processed_transcript	KNOWN	None	16142	None	None	62152118	62152879	1	C20orf149	dJ697K14.9, exdpf
20	PPDPF	ENSG00000125534	ENST00000370177	protein_coding	KNOWN	None	16142	423	140	62152128	62153291	1	C20orf149	dJ697K14.9, exdpf
20	PPDPF	ENSG00000125534	ENST00000473620	processed_transcript	KNOWN	None	16142	None	None	62152130	62153302	1	C20orf149	dJ697K14.9, exdpf
X	None	ENSG00000242021	ENST00000436019	lincRNA	KNOWN	None	None	None	None	27177022	27194415	-1	None	None
6	None	ENSG00000219329	ENST00000402967	processed_pseudogene	KNOWN	None	None	None	None	111244769	111245310	1	None	None
5	None	ENSG00000271334	ENST00000604954	lincRNA	KNOWN	None	None	None	None	39520533	39524810	1	None	None
5	None	ENSG00000271334	ENST00000603514	lincRNA	KNOWN	None	None	None	None	39521621	39524805	1	None	None
6	None	ENSG00000238775	ENST00000458794	snoRNA	NOVEL	None	None	None	None	111284669	111284772	1	None	None
7	CYTH3	ENSG00000008256	ENST00000350796	protein_coding	KNOWN	CCDS5346	9504	1200	399	6201407	6312275	-1	PSCD3	GRP1, ARNO3
7	CYTH3	ENSG00000008256	ENST00000465320	processed_transcript	KNOWN	None	9504	None	None	6204371	6209852	-1	PSCD3	GRP1, ARNO3
7	CYTH3	ENSG00000008256	ENST00000495176	retained_intron	KNOWN	None	9504	None	None	6205176	6210590	-1	PSCD3	GRP1, ARNO3
7	CYTH3	ENSG00000008256	ENST00000461891	processed_transcript	KNOWN	None	9504	None	None	6205198	6211447	-1	PSCD3	GRP1, ARNO3
7	CYTH3	ENSG00000008256	ENST00000488964	processed_transcript	KNOWN	None	9504	None	None	6205365	6211768	-1	PSCD3	GRP1, ARNO3
7	CYTH3	ENSG00000008256	ENST00000466543	retained_intron	KNOWN	None	9504	None	None	6210480	6211741	-1	PSCD3	GRP1, ARNO3
7	CYTH3	ENSG00000008256	ENST00000491641	processed_transcript	KNOWN	None	9504	None	None	6210483	6212706	-1	PSCD3	GRP1, ARNO3
7	CYTH3	ENSG00000008256	ENST00000478541	retained_intron	KNOWN	None	9504	None	None	6210641	6217572	-1	PSCD3	GRP1, ARNO3
7	CYTH3	ENSG00000008256	ENST00000481329	retained_intron	KNOWN	None	9504	None	None	6210757	6212706	-1	PSCD3	GRP1, ARNO3
7	CYTH3	ENSG00000008256	ENST00000482460	processed_transcript	KNOWN	None	9504	None	None	6226695	6312275	-1	PSCD3	GRP1, ARNO3
7	CYTH3	ENSG00000008256	ENST00000396741	protein_coding	KNOWN	None	9504	945	314	6204500	6212706	-1	PSCD3	GRP1, ARNO3
6	None	ENSG00000266032	ENST00000583422	miRNA	NOVEL	None	None	None	None	111290976	111291075	-1	None	None
X	None	ENSG00000228933	ENST00000422048	processed_transcript	KNOWN	None	None	None	None	27193037	27417114	-1	None	None
7	None	ENSG00000179342	ENST00000474858	processed_pseudogene	KNOWN	None	None	None	None	65970142	65971210	-1	None	None
7	None	ENSG00000179342	ENST00000324712	pseudogene	KNOWN	None	None	None	None	65970581	65970953	-1	None	None
6	RNU6-906P	ENSG00000207431	ENST00000384700	snRNA	KNOWN	None	47869	None	None	111329473	111329579	-1	None	None
7	SVOPL	ENSG00000157703	ENST00000288513	protein_coding	KNOWN	CCDS5848	27034	1023	340	138279030	138347897	-1	None	MGC46715
7	SVOPL	ENSG00000157703	ENST00000441685	nonsense_mediated_decay	KNOWN	None	27034	702	233	138279030	138348316	-1	None	MGC46715
7	SVOPL	ENSG00000157703	ENST00000421622	protein_coding	NOVEL	None	27034	1119	372	138279030	138386097	-1	None	MGC46715
7	SVOPL	ENSG00000157703	ENST00000478865	retained_intron	KNOWN	None	27034	None	None	138279032	138310839	-1	None	MGC46715
7	SVOPL	ENSG00000157703	ENST00000463557	processed_transcript	KNOWN	None	27034	None	None	138279182	138312189	-1	None	MGC46715
7	SVOPL	ENSG00000157703	ENST00000419765	protein_coding	NOVEL	CCDS47721	27034	1479	492	138279345	138363824	-1	None	MGC46715
7	SVOPL	ENSG00000157703	ENST00000436657	protein_coding	KNOWN	CCDS5848	27034	1023	340	138279030	138348969	-1	None	MGC46715
12	ULK1	ENSG00000177169	ENST00000321867	protein_coding	KNOWN	CCDS9274	12558	3153	1050	132379196	132407712	1	None	ATG1, ATG1A
12	ULK1	ENSG00000177169	ENST00000537421	protein_coding	PUTATIVE	None	12558	554	183	132391035	132394541	1	None	ATG1, ATG1A
12	ULK1	ENSG00000177169	ENST00000542313	protein_coding	PUTATIVE	None	12558	280	92	132393164	132393714	1	None	ATG1, ATG1A
12	ULK1	ENSG00000177169	ENST00000541761	protein_coding	PUTATIVE	None	12558	729	242	132400488	132403930	1	None	ATG1, ATG1A
12	ULK1	ENSG00000177169	ENST00000540647	protein_coding	PUTATIVE	None	12558	888	295	132402847	132406095	1	None	ATG1, ATG1A
12	ULK1	ENSG00000177169	ENST00000544718	retained_intron	KNOWN	None	12558	None	None	132403786	132406496	1	None	ATG1, ATG1A
12	ULK1	ENSG00000177169	ENST00000540568	retained_intron	KNOWN	None	12558	None	None	132404612	132406826	1	None	ATG1, ATG1A
HSCHR6_MHC_MANN	OR2W1	ENSG00000228652	ENST00000439723	protein_coding	KNOWN	None	8281	963	320	29011994	29013021	-1	None	hs6M1-15
X	None	ENSG00000233807	ENST00000452559	processed_pseudogene	KNOWN	None	None	None	None	27236248	27236795	-1	None	None
3	C3orf49	ENSG00000163632	ENST00000295896	protein_coding	KNOWN	None	25190	879	292	63805038	63834312	1	None	None
3	C3orf49	ENSG00000163632	ENST00000491896	retained_intron	KNOWN	None	25190	None	None	63809176	63817782	1	None	None
12	IQCD	ENSG00000166578	ENST00000299732	protein_coding	KNOWN	CCDS9167	25168	1044	347	113633246	113658899	-1	None	None
12	IQCD	ENSG00000166578	ENST00000416617	protein_coding	KNOWN	None	25168	1350	449	113633248	113658899	-1	None	None
12	IQCD	ENSG00000166578	ENST00000546692	protein_coding	PUTATIVE	None	25168	1239	412	113637850	113658832	-1	None	None
4	None	ENSG00000248242	ENST00000515127	lincRNA	KNOWN	None	None	None	None	105575031	105887950	-1	None	None
X	None	ENSG00000252486	ENST00000516677	misc_RNA	NOVEL	None	None	None	None	27270236	27270352	-1	None	None
20	DEFB129	ENSG00000125903	ENST00000246105	protein_coding	KNOWN	CCDS12992	16218	552	183	207899	210527	1	C20orf87	bA530N10.3, DEFB-29
X	PTP4A1P5	ENSG00000235642	ENST00000420305	processed_pseudogene	KNOWN	None	41932	None	None	27445894	27446348	-1	None	None
4	None	ENSG00000244470	ENST00000474399	processed_pseudogene	KNOWN	None	None	None	None	105807275	105808112	-1	None	None
HSCHR6_MHC_MANN	OR2B3	ENSG00000231319	ENST00000419873	protein_coding	KNOWN	None	8238	942	313	29053989	29055094	-1	OR2B3P	OR6-4
X	SMEK3P	ENSG00000224960	ENST00000412172	processed_pseudogene	KNOWN	None	33146	None	None	27478921	27481413	-1	None	FLJ32867, FLFL3P, smk1
5	None	ENSG00000249621	ENST00000512105	lincRNA	KNOWN	None	None	None	None	121656986	121659053	-1	None	None
4	PRDM5	ENSG00000138738	ENST00000513741	processed_transcript	KNOWN	None	9349	None	None	121606074	121631566	-1	None	PFM2
4	PRDM5	ENSG00000138738	ENST00000264808	protein_coding	KNOWN	CCDS3716	9349	1893	630	121613070	121844004	-1	None	PFM2
4	PRDM5	ENSG00000138738	ENST00000428209	protein_coding	KNOWN	None	9349	1800	599	121615978	121844013	-1	None	PFM2
4	PRDM5	ENSG00000138738	ENST00000515109	protein_coding	PUTATIVE	None	9349	1506	501	121615978	121844020	-1	None	PFM2
4	PRDM5	ENSG00000138738	ENST00000505484	retained_intron	KNOWN	None	9349	None	None	121616266	121843836	-1	None	PFM2
4	PRDM5	ENSG00000138738	ENST00000506065	processed_transcript	KNOWN	None	9349	None	None	121616313	121683921	-1	None	PFM2
4	PRDM5	ENSG00000138738	ENST00000503661	retained_intron	KNOWN	None	9349	None	None	121706179	121734161	-1	None	PFM2
4	PRDM5	ENSG00000138738	ENST00000502409	nonsense_mediated_decay	KNOWN	None	9349	437	144	121706186	121742331	-1	None	PFM2
4	PRDM5	ENSG00000138738	ENST00000512845	retained_intron	KNOWN	None	9349	None	None	121737218	121843850	-1	None	PFM2
4	PRDM5	ENSG00000138738	ENST00000507611	retained_intron	KNOWN	None	9349	None	None	121739326	121742503	-1	None	PFM2
4	PRDM5	ENSG00000138738	ENST00000394435	protein_coding	KNOWN	None	9349	336	111	121758500	121844025	-1	None	PFM2
4	PRDM5	ENSG00000138738	ENST00000505033	processed_transcript	KNOWN	None	9349	None	None	121806660	121843881	-1	None	PFM2
X	None	ENSG00000223391	ENST00000424882	processed_pseudogene	KNOWN	None	None	None	None	27535888	27535998	-1	None	None
HG299_PATCH	None	ENSG00000262478	ENST00000576118	misc_RNA	NOVEL	None	None	None	None	118865044	118865343	1	None	None
16	None	ENSG00000260756	ENST00000569215	lincRNA	KNOWN	None	None	None	None	10445297	10446609	-1	None	None
5	None	ENSG00000249916	ENST00000507143	antisense	KNOWN	None	None	None	None	121705457	121719263	-1	None	None
HG299_PATCH	None	ENSG00000262571	ENST00000579863	lincRNA	KNOWN	None	None	None	None	118865534	118867314	-1	None	None
HG299_PATCH	None	ENSG00000262571	ENST00000571060	lincRNA	KNOWN	None	None	None	None	118866905	118868714	-1	None	None
19	SRRM5	ENSG00000226763	ENST00000607544	protein_coding	KNOWN	CCDS46095	37248	2148	715	44100769	44118649	1	None	None
19	SRRM5	ENSG00000226763	ENST00000526798	protein_coding	KNOWN	None	37248	2193	730	44100769	44118649	1	None	None
19	SRRM5	ENSG00000226763	ENST00000417606	protein_coding	KNOWN	CCDS46095	37248	2148	715	44116253	44118649	1	None	None
4	None	ENSG00000248373	ENST00000506148	lincRNA	KNOWN	None	None	None	None	105828514	106038002	1	None	None
4	None	ENSG00000248373	ENST00000515649	lincRNA	KNOWN	None	None	None	None	105828563	105891241	1	None	None
4	None	ENSG00000248373	ENST00000506386	lincRNA	KNOWN	None	None	None	None	105894869	106041157	1	None	None
X	None	ENSG00000238247	ENST00000367074	processed_pseudogene	KNOWN	None	None	None	None	27536001	27537876	1	None	None
HSCHR6_MHC_MANN	OR2J3	ENSG00000233636	ENST00000430478	protein_coding	KNOWN	None	8261	936	311	29079673	29080608	1	None	OR6-6
3	GPX1	ENSG00000233276	ENST00000419783	protein_coding	KNOWN	CCDS43091	4553	612	203	49394609	49396033	-1	None	None
3	GPX1	ENSG00000233276	ENST00000419349	protein_coding	KNOWN	CCDS54582	4553	297	98	49394611	49395716	-1	None	None
3	GPX1	ENSG00000233276	ENST00000496791	processed_transcript	KNOWN	None	4553	None	None	49395041	49395758	-1	None	None
16	RN7SL99P	ENSG00000264305	ENST00000585079	misc_RNA	KNOWN	None	46115	None	None	10499800	10500074	1	None	None
5	CCDC11P1	ENSG00000251515	ENST00000503137	processed_pseudogene	KNOWN	None	43919	None	None	39571580	39572741	-1	None	None
20	DEFB132	ENSG00000186458	ENST00000382376	protein_coding	KNOWN	CCDS12993	33806	288	95	238377	241737	1	None	RP5-1103G7.6, DEFB32
16	RNU6-633P	ENSG00000199482	ENST00000362612	snRNA	KNOWN	None	47596	None	None	10590129	10590231	1	None	None
HG299_PATCH	RPL23AP64	ENSG00000262948	ENST00000577081	processed_pseudogene	KNOWN	None	36552	None	None	118873722	118874156	-1	None	None
19	TMEM150B	ENSG00000180061	ENST00000326652	protein_coding	KNOWN	CCDS42629	34415	702	233	55824169	55836669	-1	TMEM224	None
19	TMEM150B	ENSG00000180061	ENST00000592603	nonsense_mediated_decay	KNOWN	None	34415	192	63	55824169	55836673	-1	TMEM224	None
19	TMEM150B	ENSG00000180061	ENST00000586609	nonsense_mediated_decay	KNOWN	None	34415	192	63	55824170	55836673	-1	TMEM224	None
19	TMEM150B	ENSG00000180061	ENST00000585918	protein_coding	NOVEL	None	34415	457	151	55824337	55831819	-1	TMEM224	None
19	TMEM150B	ENSG00000180061	ENST00000592731	nonsense_mediated_decay	KNOWN	None	34415	255	84	55824341	55836679	-1	TMEM224	None
19	TMEM150B	ENSG00000180061	ENST00000591570	protein_coding	KNOWN	None	34415	403	133	55828256	55836708	-1	TMEM224	None
19	TMEM150B	ENSG00000180061	ENST00000592891	retained_intron	KNOWN	None	34415	None	None	55830832	55845416	-1	TMEM224	None
19	TMEM150B	ENSG00000180061	ENST00000438693	protein_coding	KNOWN	CCDS42629	34415	702	233	55824227	55836708	-1	TMEM224	None
16	None	ENSG00000260468	ENST00000566787	lincRNA	KNOWN	None	None	None	None	10608699	10622059	-1	None	None
HSCHR6_MHC_MANN	OR2J2	ENSG00000226347	ENST00000457762	protein_coding	KNOWN	None	8260	939	312	29141320	29142360	1	None	OR6-8, hs6M1-6, dJ80I19.4
22	None	ENSG00000227188	ENST00000432239	antisense	KNOWN	None	None	None	None	39871812	39872827	-1	None	None
HG299_PATCH	None	ENSG00000262257	ENST00000570943	antisense	KNOWN	None	None	None	None	118874452	118875603	-1	None	None
X	None	ENSG00000231315	ENST00000545306	pseudogene	NOVEL	None	None	None	None	27765013	27766908	1	None	None
19	None	ENSG00000268784	ENST00000596579	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	59093391	59093976	1	None	None
HG299_PATCH	None	ENSG00000261858	ENST00000571616	processed_pseudogene	KNOWN	None	None	None	None	118876437	118876644	-1	None	None
22	None	ENSG00000235647	ENST00000458183	processed_pseudogene	KNOWN	None	None	None	None	40146132	40147298	1	None	None
2	C1QL2	ENSG00000144119	ENST00000272520	protein_coding	KNOWN	CCDS42737	24181	864	287	119913819	119916465	-1	None	CTRP10, C1QTNF10
X	None	ENSG00000229731	ENST00000450488	processed_pseudogene	KNOWN	None	None	None	None	27830002	27831019	1	None	None
19	None	ENSG00000269032	ENST00000597341	transcribed_processed_pseudogene	KNOWN	None	None	None	None	59097525	59097723	1	None	None
3	CCDC13	ENSG00000244607	ENST00000479631	processed_transcript	KNOWN	None	26358	None	None	42734155	42755618	-1	None	FLJ25467
3	CCDC13	ENSG00000244607	ENST00000496027	processed_transcript	KNOWN	None	26358	None	None	42740200	42774414	-1	None	FLJ25467
3	CCDC13	ENSG00000244607	ENST00000310232	protein_coding	KNOWN	CCDS2705	26358	2148	715	42749761	42814745	-1	None	FLJ25467
3	CCDC13	ENSG00000244607	ENST00000466031	processed_transcript	KNOWN	None	26358	None	None	42751190	42755641	-1	None	FLJ25467
3	CCDC13	ENSG00000244607	ENST00000472921	processed_transcript	KNOWN	None	26358	None	None	42754654	42775036	-1	None	FLJ25467
3	CCDC13	ENSG00000244607	ENST00000482100	processed_transcript	KNOWN	None	26358	None	None	42759460	42761017	-1	None	FLJ25467
3	CCDC13	ENSG00000244607	ENST00000479576	retained_intron	KNOWN	None	26358	None	None	42787227	42798612	-1	None	FLJ25467
3	CCDC13	ENSG00000244607	ENST00000492806	retained_intron	KNOWN	None	26358	None	None	42788286	42814745	-1	None	FLJ25467
3	CCDC13	ENSG00000244607	ENST00000435327	processed_transcript	KNOWN	None	26358	None	None	42791307	42814735	-1	None	FLJ25467
HSCHR6_MHC_DBB	MSH5	ENSG00000230293	ENST00000430217	protein_coding	KNOWN	None	7328	582	193	31689945	31694192	1	None	None
HSCHR6_MHC_DBB	MSH5	ENSG00000230293	ENST00000427735	protein_coding	KNOWN	None	7328	2505	834	31689951	31712638	1	None	None
HSCHR6_MHC_DBB	MSH5	ENSG00000230293	ENST00000457742	protein_coding	KNOWN	None	7328	2505	834	31689954	31712638	1	None	None
HSCHR6_MHC_DBB	MSH5	ENSG00000230293	ENST00000468394	retained_intron	KNOWN	None	7328	None	None	31689971	31693438	1	None	None
HSCHR6_MHC_DBB	MSH5	ENSG00000230293	ENST00000460275	processed_transcript	KNOWN	None	7328	None	None	31689975	31708570	1	None	None
HSCHR6_MHC_DBB	MSH5	ENSG00000230293	ENST00000435700	protein_coding	KNOWN	None	7328	2508	835	31689975	31712638	1	None	None
HSCHR6_MHC_DBB	MSH5	ENSG00000230293	ENST00000436559	protein_coding	KNOWN	None	7328	2466	821	31689975	31712638	1	None	None
HSCHR6_MHC_DBB	MSH5	ENSG00000230293	ENST00000470446	retained_intron	KNOWN	None	7328	None	None	31691200	31703998	1	None	None
HSCHR6_MHC_DBB	MSH5	ENSG00000230293	ENST00000435942	protein_coding	KNOWN	None	7328	1000	332	31693936	31709453	1	None	None
HSCHR6_MHC_DBB	MSH5	ENSG00000230293	ENST00000485795	processed_transcript	KNOWN	None	7328	None	None	31701455	31709096	1	None	None
HSCHR6_MHC_DBB	MSH5	ENSG00000230293	ENST00000439816	protein_coding	KNOWN	None	7328	1527	508	31706554	31712638	1	None	None
HSCHR6_MHC_DBB	MSH5	ENSG00000230293	ENST00000465562	retained_intron	KNOWN	None	7328	None	None	31708157	31709464	1	None	None
HSCHR6_MHC_DBB	MSH5	ENSG00000230293	ENST00000469938	nonsense_mediated_decay	KNOWN	None	7328	501	166	31709879	31712638	1	None	None
HSCHR6_MHC_DBB	MSH5	ENSG00000230293	ENST00000469909	processed_transcript	KNOWN	None	7328	None	None	31710682	31713106	1	None	None
HSCHR6_MHC_DBB	MSH5	ENSG00000230293	ENST00000452856	protein_coding	KNOWN	None	7328	471	156	31711174	31712638	1	None	None
HSCHR6_MHC_DBB	MSH5	ENSG00000230293	ENST00000478248	retained_intron	KNOWN	None	7328	None	None	31711885	31712638	1	None	None
HSCHR6_MHC_DBB	MSH5	ENSG00000230293	ENST00000497157	protein_coding	KNOWN	None	7328	2556	851	31689974	31714807	1	None	None
HSCHR6_MHC_DBB	MSH5	ENSG00000230293	ENST00000549746	protein_coding	KNOWN	None	7328	816	271	31689902	31711750	1	None	None
5	None	ENSG00000250328	ENST00000510972	antisense	KNOWN	None	None	None	None	121772192	121814782	-1	None	None
5	None	ENSG00000250328	ENST00000509993	antisense	KNOWN	None	None	None	None	121772454	121804762	-1	None	None
5	None	ENSG00000250328	ENST00000506053	antisense	KNOWN	None	None	None	None	121772457	121804754	-1	None	None
5	None	ENSG00000250328	ENST00000503529	antisense	KNOWN	None	None	None	None	121772949	121814775	-1	None	None
5	None	ENSG00000250328	ENST00000505546	antisense	KNOWN	None	None	None	None	121780354	121812785	-1	None	None
16	SLC38A7	ENSG00000103042	ENST00000570101	protein_coding	KNOWN	CCDS10800	25582	1389	462	58699013	58718627	-1	None	FLJ10815
16	SLC38A7	ENSG00000103042	ENST00000219320	protein_coding	KNOWN	CCDS10800	25582	1389	462	58699013	58719008	-1	None	FLJ10815
16	SLC38A7	ENSG00000103042	ENST00000564100	protein_coding	PUTATIVE	None	25582	1065	354	58700276	58718611	-1	None	FLJ10815
16	SLC38A7	ENSG00000103042	ENST00000566598	nonsense_mediated_decay	KNOWN	None	25582	783	260	58701182	58718085	-1	None	FLJ10815
16	SLC38A7	ENSG00000103042	ENST00000564010	protein_coding	PUTATIVE	None	25582	1122	373	58701266	58718674	-1	None	FLJ10815
16	SLC38A7	ENSG00000103042	ENST00000566953	processed_transcript	KNOWN	None	25582	None	None	58701287	58718014	-1	None	FLJ10815
16	SLC38A7	ENSG00000103042	ENST00000562149	retained_intron	KNOWN	None	25582	None	None	58705476	58718647	-1	None	FLJ10815
16	SLC38A7	ENSG00000103042	ENST00000569209	retained_intron	KNOWN	None	25582	None	None	58705934	58711481	-1	None	FLJ10815
16	SLC38A7	ENSG00000103042	ENST00000565785	nonsense_mediated_decay	KNOWN	None	25582	511	169	58706000	58712667	-1	None	FLJ10815
16	SLC38A7	ENSG00000103042	ENST00000570214	protein_coding	PUTATIVE	None	25582	195	64	58709848	58718674	-1	None	FLJ10815
16	SLC38A7	ENSG00000103042	ENST00000562397	protein_coding	KNOWN	None	25582	422	139	58712647	58718647	-1	None	FLJ10815
16	SLC38A7	ENSG00000103042	ENST00000563196	protein_coding	KNOWN	None	25582	284	93	58712785	58718674	-1	None	FLJ10815
16	SLC38A7	ENSG00000103042	ENST00000564391	protein_coding	PUTATIVE	None	25582	408	135	58713514	58717957	-1	None	FLJ10815
16	SLC38A7	ENSG00000103042	ENST00000564720	retained_intron	KNOWN	None	25582	None	None	58715292	58718674	-1	None	FLJ10815
16	SLC38A7	ENSG00000103042	ENST00000567930	processed_transcript	PUTATIVE	None	25582	None	None	58715420	58718227	-1	None	FLJ10815
16	SLC38A7	ENSG00000103042	ENST00000564964	retained_intron	KNOWN	None	25582	None	None	58717570	58718674	-1	None	FLJ10815
HSCHR6_MHC_MANN	OR14J1	ENSG00000234100	ENST00000435798	protein_coding	KNOWN	None	13971	966	321	29274451	29275567	1	OR5U1	hs6M1-28
22	RN7SKP210	ENSG00000238875	ENST00000459176	misc_RNA	KNOWN	None	45934	None	None	40270259	40270519	-1	None	None
5	HMGN2P4	ENSG00000249014	ENST00000506772	processed_pseudogene	KNOWN	None	33567	None	None	75537849	75538229	-1	HMGN2L4	None
1	None	ENSG00000236179	ENST00000458709	unprocessed_pseudogene	KNOWN	None	None	None	None	13171871	13173157	-1	None	None
X	None	ENSG00000226199	ENST00000432774	processed_pseudogene	KNOWN	None	None	None	None	27850292	27851321	1	None	None
16	None	ENSG00000269205	ENST00000598236	protein_coding	KNOWN	None	None	129	42	2031633	2032918	1	None	None
19	RN7SL364P	ENSG00000243560	ENST00000473668	misc_RNA	KNOWN	None	46380	None	None	47192056	47192325	-1	None	None
22	UQCRFS1P1	ENSG00000226085	ENST00000435169	processed_pseudogene	KNOWN	None	12588	None	None	40271293	40272112	1	UQCRFSL1	None
22	UQCRFS1P1	ENSG00000226085	ENST00000412347	processed_pseudogene	KNOWN	None	12588	None	None	40271295	40272119	1	UQCRFSL1	None
19	MIR320E	ENSG00000211513	ENST00000390179	miRNA	KNOWN	None	38230	None	None	47212550	47212602	-1	None	hsa-mir-320e
19	None	ENSG00000269600	ENST00000596029	antisense	KNOWN	None	None	None	None	59105263	59110644	-1	None	None
19	None	ENSG00000269600	ENST00000596427	antisense	KNOWN	None	None	None	None	59108550	59110722	-1	None	None
HSCHR5_1_CTG1	MRPS36	ENSG00000262605	ENST00000572087	protein_coding	KNOWN	None	16631	312	103	68513587	68525954	1	None	DC47, MRP-S36
HSCHR5_1_CTG1	MRPS36	ENSG00000262605	ENST00000576182	processed_transcript	KNOWN	None	16631	None	None	68513613	68525056	1	None	DC47, MRP-S36
HSCHR5_1_CTG1	MRPS36	ENSG00000262605	ENST00000574786	protein_coding	PUTATIVE	None	16631	117	38	68513659	68525700	1	None	DC47, MRP-S36
HSCHR5_1_CTG1	MRPS36	ENSG00000262605	ENST00000576200	processed_transcript	KNOWN	None	16631	None	None	68513714	68524029	1	None	DC47, MRP-S36
22	None	ENSG00000225528	ENST00000424496	sense_intronic	KNOWN	None	None	None	None	40356401	40360687	1	None	None
6	HLA-DRA	ENSG00000204287	ENST00000395388	protein_coding	KNOWN	CCDS4750	4947	765	254	32407619	32412823	1	HLA-DRA1	None
6	HLA-DRA	ENSG00000204287	ENST00000374982	protein_coding	NOVEL	None	4947	690	229	32407655	32412823	1	HLA-DRA1	None
5	None	ENSG00000251107	ENST00000507570	processed_pseudogene	KNOWN	None	None	None	None	75576781	75577092	1	None	None
19	None	ENSG00000269487	ENST00000600716	antisense	KNOWN	None	None	None	None	47231860	47235957	1	None	None
15	MIR4509-2	ENSG00000263930	ENST00000579193	miRNA	KNOWN	None	41537	None	None	22675148	22675241	-1	None	hsa-mir-4509-2
15	MIR4509-3	ENSG00000263930	ENST00000579193	miRNA	KNOWN	None	41610	None	None	22675148	22675241	-1	None	hsa-mir-4509-3
15	MIR4509-1	ENSG00000263930	ENST00000579193	miRNA	KNOWN	None	41860	None	None	22675148	22675241	-1	None	hsa-mir-4509-1
16	ZNF778	ENSG00000170100	ENST00000565877	processed_transcript	KNOWN	None	26479	None	None	89284118	89284715	1	None	FLJ31875
16	ZNF778	ENSG00000170100	ENST00000564906	protein_coding	KNOWN	None	26479	243	80	89284118	89289690	1	None	FLJ31875
16	ZNF778	ENSG00000170100	ENST00000433976	protein_coding	KNOWN	CCDS45550	26479	2190	729	89284118	89295363	1	None	FLJ31875
16	ZNF778	ENSG00000170100	ENST00000567651	nonsense_mediated_decay	KNOWN	None	26479	144	47	89287480	89294198	1	None	FLJ31875
16	ZNF778	ENSG00000170100	ENST00000306502	protein_coding	KNOWN	None	26479	2064	687	89287484	89295122	1	None	FLJ31875
16	ZNF778	ENSG00000170100	ENST00000565414	retained_intron	KNOWN	None	26479	None	None	89291042	89293186	1	None	FLJ31875
16	ENKD1	ENSG00000124074	ENST00000243878	protein_coding	KNOWN	CCDS10844	25246	1041	346	67696848	67700667	-1	C16orf48	DKFZP434A1319
16	ENKD1	ENSG00000124074	ENST00000602942	retained_intron	KNOWN	None	25246	None	None	67696849	67698415	-1	C16orf48	DKFZP434A1319
16	ENKD1	ENSG00000124074	ENST00000602644	protein_coding	NOVEL	None	25246	678	225	67696873	67700630	-1	C16orf48	DKFZP434A1319
16	ENKD1	ENSG00000124074	ENST00000602415	nonsense_mediated_decay	KNOWN	None	25246	433	143	67697121	67700177	-1	C16orf48	DKFZP434A1319
16	ENKD1	ENSG00000124074	ENST00000602642	retained_intron	KNOWN	None	25246	None	None	67697179	67697744	-1	C16orf48	DKFZP434A1319
16	ENKD1	ENSG00000124074	ENST00000602409	processed_transcript	KNOWN	None	25246	None	None	67697690	67700032	-1	C16orf48	DKFZP434A1319
16	ENKD1	ENSG00000124074	ENST00000602531	retained_intron	KNOWN	None	25246	None	None	67698856	67701168	-1	C16orf48	DKFZP434A1319
8	RNU6-1202P	ENSG00000252753	ENST00000516944	snRNA	KNOWN	None	48165	None	None	61397741	61397799	-1	None	None
22	None	ENSG00000261202	ENST00000569912	lincRNA	KNOWN	None	None	None	None	40439072	40440534	-1	None	None
14	None	ENSG00000178107	ENST00000320322	lincRNA	KNOWN	None	None	None	None	21576202	21584862	1	None	None
19	None	ENSG00000222614	ENST00000410682	misc_RNA	NOVEL	None	None	None	None	47239569	47239676	1	None	None
8	None	ENSG00000255321	ENST00000531379	antisense	KNOWN	None	None	None	None	61464516	61465595	-1	None	None
13	PCDH17	ENSG00000118946	ENST00000484979	nonsense_mediated_decay	KNOWN	None	14267	2670	889	58205944	58299695	1	None	PCDH68, PCH68
13	PCDH17	ENSG00000118946	ENST00000377918	protein_coding	KNOWN	CCDS31986	14267	3480	1159	58206655	58303445	1	None	PCDH68, PCH68
X	None	ENSG00000232834	ENST00000456549	processed_pseudogene	KNOWN	None	None	None	None	27865705	27866056	-1	None	None
19	HNRNPMP2	ENSG00000269576	ENST00000596369	processed_pseudogene	KNOWN	None	48746	None	None	47312842	47313440	1	None	None
22	None	ENSG00000228599	ENST00000449200	processed_pseudogene	KNOWN	None	None	None	None	40502329	40503070	-1	None	None
17	GIP	ENSG00000159224	ENST00000357424	protein_coding	KNOWN	CCDS11542	4270	462	153	47035916	47045958	-1	None	None
HSCHR6_MHC_MANN	OR5V1	ENSG00000243441	ENST00000444009	protein_coding	KNOWN	None	13972	966	321	29323057	29399325	-1	None	hs6M1-21
HSCHR6_MHC_MANN	OR5V1	ENSG00000243441	ENST00000458372	protein_coding	KNOWN	None	13972	966	321	29323057	29373914	-1	None	hs6M1-21
HSCHR6_MHC_MANN	OR5V1	ENSG00000243441	ENST00000550240	protein_coding	KNOWN	None	13972	966	321	29323057	29324104	-1	None	hs6M1-21
8	C8orf86	ENSG00000196166	ENST00000358138	protein_coding	KNOWN	CCDS6108	33774	672	223	38368352	38386180	-1	None	FLJ43582
8	C8orf86	ENSG00000196166	ENST00000437935	protein_coding	PUTATIVE	None	33774	423	140	38368897	38386175	-1	None	FLJ43582
15	None	ENSG00000259626	ENST00000559068	processed_pseudogene	KNOWN	None	None	None	None	58442834	58443161	1	None	None
16	GFER	ENSG00000127554	ENST00000569451	protein_coding	PUTATIVE	None	4236	330	109	2034208	2036113	1	None	HSS, ERV1, ALR, HERV1, HPO1, HPO2
16	GFER	ENSG00000127554	ENST00000248114	protein_coding	KNOWN	CCDS32368	4236	618	205	2034214	2037750	1	None	HSS, ERV1, ALR, HERV1, HPO1, HPO2
16	GFER	ENSG00000127554	ENST00000561710	protein_coding	PUTATIVE	None	4236	420	139	2034259	2035010	1	None	HSS, ERV1, ALR, HERV1, HPO1, HPO2
16	GFER	ENSG00000127554	ENST00000565658	retained_intron	KNOWN	None	4236	None	None	2034333	2036619	1	None	HSS, ERV1, ALR, HERV1, HPO1, HPO2
16	GFER	ENSG00000127554	ENST00000567719	protein_coding	PUTATIVE	None	4236	393	130	2034712	2036116	1	None	HSS, ERV1, ALR, HERV1, HPO1, HPO2
22	None	ENSG00000254994	ENST00000498234	processed_transcript	KNOWN	None	None	None	None	40761043	40786467	1	None	None
15	ABCB10P1	ENSG00000259689	ENST00000558695	processed_pseudogene	KNOWN	None	14114	None	None	22691016	22693200	-1	ABCB10P, ABCB10P2	M-ABC2, MABC2
14	None	ENSG00000271358	ENST00000603288	processed_pseudogene	KNOWN	None	None	None	None	96485821	96486102	1	None	None
6	SLC22A7	ENSG00000137204	ENST00000480882	processed_transcript	KNOWN	None	10971	None	None	43263432	43267258	1	None	NLT, OAT2
6	SLC22A7	ENSG00000137204	ENST00000487175	processed_transcript	KNOWN	None	10971	None	None	43263529	43269430	1	None	NLT, OAT2
6	SLC22A7	ENSG00000137204	ENST00000451757	protein_coding	KNOWN	None	10971	443	146	43265736	43267804	1	None	NLT, OAT2
6	SLC22A7	ENSG00000137204	ENST00000449231	protein_coding	KNOWN	None	10971	835	277	43265999	43267519	1	None	NLT, OAT2
6	SLC22A7	ENSG00000137204	ENST00000498232	nonsense_mediated_decay	KNOWN	None	10971	708	235	43265999	43267926	1	None	NLT, OAT2
6	SLC22A7	ENSG00000137204	ENST00000372589	protein_coding	KNOWN	CCDS4892	10971	1641	546	43266002	43273276	1	None	NLT, OAT2
6	SLC22A7	ENSG00000137204	ENST00000372585	protein_coding	KNOWN	CCDS4893	10971	1647	548	43266002	43273276	1	None	NLT, OAT2
6	SLC22A7	ENSG00000137204	ENST00000372574	protein_coding	KNOWN	None	10971	1620	539	43266097	43272218	1	None	NLT, OAT2
6	SLC22A7	ENSG00000137204	ENST00000436107	protein_coding	KNOWN	None	10971	634	210	43269267	43271945	1	None	NLT, OAT2
3	HDAC11	ENSG00000163517	ENST00000433119	protein_coding	PUTATIVE	None	19086	711	236	13521224	13546834	1	None	None
3	HDAC11	ENSG00000163517	ENST00000295757	protein_coding	KNOWN	CCDS2615	19086	1044	347	13521665	13547916	1	None	None
3	HDAC11	ENSG00000163517	ENST00000402259	protein_coding	PUTATIVE	None	19086	546	181	13521782	13546571	1	None	None
3	HDAC11	ENSG00000163517	ENST00000402271	protein_coding	NOVEL	None	19086	807	268	13521803	13546349	1	None	None
3	HDAC11	ENSG00000163517	ENST00000425430	nonsense_mediated_decay	KNOWN	None	19086	162	53	13521806	13546456	1	None	None
3	HDAC11	ENSG00000163517	ENST00000404548	protein_coding	PUTATIVE	None	19086	441	146	13521824	13546089	1	None	None
3	HDAC11	ENSG00000163517	ENST00000404040	protein_coding	NOVEL	None	19086	744	247	13521824	13546382	1	None	None
3	HDAC11	ENSG00000163517	ENST00000458642	protein_coding	PUTATIVE	None	19086	559	185	13521833	13543199	1	None	None
3	HDAC11	ENSG00000163517	ENST00000405478	protein_coding	PUTATIVE	None	19086	614	203	13521844	13545642	1	None	None
3	HDAC11	ENSG00000163517	ENST00000405025	protein_coding	PUTATIVE	None	19086	357	118	13521876	13546043	1	None	None
3	HDAC11	ENSG00000163517	ENST00000475818	retained_intron	KNOWN	None	19086	None	None	13521881	13544088	1	None	None
3	HDAC11	ENSG00000163517	ENST00000522202	protein_coding	KNOWN	CCDS46760	19086	891	296	13521911	13546733	1	None	None
3	HDAC11	ENSG00000163517	ENST00000418189	protein_coding	PUTATIVE	None	19086	322	106	13521957	13538248	1	None	None
3	HDAC11	ENSG00000163517	ENST00000434848	protein_coding	PUTATIVE	None	19086	505	167	13522200	13544439	1	None	None
3	HDAC11	ENSG00000163517	ENST00000416248	protein_coding	PUTATIVE	None	19086	275	90	13522297	13538342	1	None	None
3	HDAC11	ENSG00000163517	ENST00000455904	protein_coding	PUTATIVE	None	19086	498	165	13522595	13544413	1	None	None
3	HDAC11	ENSG00000163517	ENST00000437379	protein_coding	PUTATIVE	None	19086	960	319	13522746	13547907	1	None	None
3	HDAC11	ENSG00000163517	ENST00000487585	retained_intron	KNOWN	None	19086	None	None	13522882	13544739	1	None	None
3	HDAC11	ENSG00000163517	ENST00000498532	retained_intron	KNOWN	None	19086	None	None	13538088	13545613	1	None	None
3	HDAC11	ENSG00000163517	ENST00000495099	processed_transcript	KNOWN	None	19086	None	None	13538326	13544448	1	None	None
3	HDAC11	ENSG00000163517	ENST00000446613	protein_coding	KNOWN	None	19086	468	155	13521806	13546456	1	None	None
16	None	ENSG00000256013	ENST00000535363	antisense	KNOWN	None	None	None	None	10623297	10625939	1	None	None
8	None	ENSG00000228862	ENST00000532768	lincRNA	KNOWN	None	None	None	None	61544068	61545330	-1	None	None
8	None	ENSG00000228862	ENST00000526470	lincRNA	KNOWN	None	None	None	None	61544114	61548830	-1	None	None
14	None	ENSG00000258722	ENST00000555477	processed_pseudogene	KNOWN	None	None	None	None	21578454	21581631	-1	None	None
1	RGS5	ENSG00000143248	ENST00000469495	processed_transcript	PUTATIVE	None	10001	None	None	163080911	163122506	-1	None	None
1	RGS5	ENSG00000143248	ENST00000313961	protein_coding	KNOWN	CCDS1244	10001	546	181	163112094	163172903	-1	None	None
1	RGS5	ENSG00000143248	ENST00000367903	protein_coding	PUTATIVE	None	10001	606	201	163116846	163187426	-1	None	None
1	RGS5	ENSG00000143248	ENST00000530507	protein_coding	NOVEL	CCDS58041	10001	558	185	163116907	163172693	-1	None	None
1	RGS5	ENSG00000143248	ENST00000527988	protein_coding	NOVEL	CCDS55652	10001	222	73	163117132	163172625	-1	None	None
1	RGS5	ENSG00000143248	ENST00000531954	processed_transcript	KNOWN	None	10001	None	None	163117264	163291525	-1	None	None
1	RGS5	ENSG00000143248	ENST00000525894	retained_intron	KNOWN	None	10001	None	None	163122263	163172705	-1	None	None
1	RGS5	ENSG00000143248	ENST00000531476	protein_coding	NOVEL	None	10001	215	70	163122398	163172688	-1	None	None
1	RGS5	ENSG00000143248	ENST00000530241	processed_transcript	KNOWN	None	10001	None	None	163122400	163291541	-1	None	None
1	RGS5	ENSG00000143248	ENST00000534288	processed_transcript	KNOWN	None	10001	None	None	163122440	163291577	-1	None	None
1	RGS5	ENSG00000143248	ENST00000428971	processed_transcript	KNOWN	None	10001	None	None	163131744	163291562	-1	None	None
8	CYC1	ENSG00000179091	ENST00000318911	protein_coding	KNOWN	CCDS6415	2579	978	325	145149930	145152428	1	None	UQCR4
8	CYC1	ENSG00000179091	ENST00000533444	retained_intron	KNOWN	None	2579	None	None	145149942	145152428	1	None	UQCR4
8	CYC1	ENSG00000179091	ENST00000528618	retained_intron	KNOWN	None	2579	None	None	145150389	145151418	1	None	UQCR4
8	CYC1	ENSG00000179091	ENST00000525122	retained_intron	KNOWN	None	2579	None	None	145151248	145152079	1	None	UQCR4
HG299_PATCH	MIR3656	ENSG00000266629	ENST00000570796	miRNA	KNOWN	None	38889	None	None	118889654	118889722	1	None	hsa-mir-3656
22	None	ENSG00000239989	ENST00000437537	processed_pseudogene	KNOWN	None	None	None	None	18781927	18782317	-1	None	None
HSCHR6_MHC_MANN	OR12D3	ENSG00000224487	ENST00000430148	protein_coding	KNOWN	None	13963	951	316	29340936	29417450	-1	None	hs6M1-27
HSCHR6_MHC_MANN	OR12D3	ENSG00000224487	ENST00000550913	protein_coding	KNOWN	None	13963	951	316	29340936	29342804	-1	None	hs6M1-27
HG299_PATCH	None	ENSG00000262996	ENST00000573735	antisense	KNOWN	None	None	None	None	118914898	118916204	1	None	None
22	None	ENSG00000234764	ENST00000428850	processed_pseudogene	KNOWN	None	None	None	None	18821207	18821951	1	None	None
14	None	ENSG00000221236	ENST00000408309	miRNA	NOVEL	None	None	None	None	96603188	96603280	1	None	None
15	None	ENSG00000259600	ENST00000559334	processed_pseudogene	KNOWN	None	None	None	None	58443232	58444712	1	None	None
1	HNRNPCP5	ENSG00000179412	ENST00000323770	processed_pseudogene	KNOWN	None	48813	None	None	13182993	13183872	-1	None	None
1	HNRNPCP5	ENSG00000179412	ENST00000449855	processed_pseudogene	KNOWN	None	48813	None	None	13182960	13184326	-1	None	None
17	TBKBP1	ENSG00000198933	ENST00000578982	protein_coding	KNOWN	None	30140	585	194	45771447	45776092	1	None	ProSAPiP2, KIAA0775
17	TBKBP1	ENSG00000198933	ENST00000537587	protein_coding	KNOWN	None	30140	626	207	45771985	45776133	1	None	ProSAPiP2, KIAA0775
17	TBKBP1	ENSG00000198933	ENST00000361722	protein_coding	KNOWN	CCDS45722	30140	1848	615	45772630	45789416	1	None	ProSAPiP2, KIAA0775
22	None	ENSG00000161103	ENST00000412938	processed_transcript	KNOWN	None	None	None	None	18837631	18848562	1	None	None
22	None	ENSG00000161103	ENST00000445398	processed_transcript	PUTATIVE	None	None	None	None	18839143	18844197	1	None	None
22	None	ENSG00000161103	ENST00000416498	processed_transcript	PUTATIVE	None	None	None	None	18840389	18842446	1	None	None
X	MIR548AN	ENSG00000263515	ENST00000408286	miRNA	KNOWN	None	41681	None	None	105883044	105883126	1	None	hsa-mir-548an
19	MAP4K1	ENSG00000104814	ENST00000593196	processed_transcript	KNOWN	None	6863	None	None	39078281	39086370	-1	None	HPK1
19	MAP4K1	ENSG00000104814	ENST00000591517	protein_coding	KNOWN	CCDS59385	6863	2502	833	39078281	39108564	-1	None	HPK1
19	MAP4K1	ENSG00000104814	ENST00000586296	protein_coding	NOVEL	None	6863	1188	395	39078284	39108606	-1	None	HPK1
19	MAP4K1	ENSG00000104814	ENST00000589130	protein_coding	PUTATIVE	None	6863	2454	817	39078286	39109522	-1	None	HPK1
19	MAP4K1	ENSG00000104814	ENST00000396857	protein_coding	KNOWN	CCDS42564	6863	2466	821	39078309	39108643	-1	None	HPK1
19	MAP4K1	ENSG00000104814	ENST00000591210	retained_intron	KNOWN	None	6863	None	None	39078314	39084009	-1	None	HPK1
19	MAP4K1	ENSG00000104814	ENST00000591921	protein_coding	NOVEL	None	6863	1577	524	39078340	39100274	-1	None	HPK1
19	MAP4K1	ENSG00000104814	ENST00000588938	retained_intron	KNOWN	None	6863	None	None	39083911	39087733	-1	None	HPK1
19	MAP4K1	ENSG00000104814	ENST00000585583	nonsense_mediated_decay	KNOWN	None	6863	208	68	39087988	39104567	-1	None	HPK1
19	MAP4K1	ENSG00000104814	ENST00000589002	processed_transcript	KNOWN	None	6863	None	None	39096826	39104567	-1	None	HPK1
19	MAP4K1	ENSG00000104814	ENST00000592888	retained_intron	KNOWN	None	6863	None	None	39101729	39105117	-1	None	HPK1
19	MAP4K1	ENSG00000104814	ENST00000591707	retained_intron	KNOWN	None	6863	None	None	39101740	39105138	-1	None	HPK1
19	MAP4K1	ENSG00000104814	ENST00000592225	retained_intron	KNOWN	None	6863	None	None	39104683	39105513	-1	None	HPK1
19	MAP4K1	ENSG00000104814	ENST00000588083	retained_intron	KNOWN	None	6863	None	None	39104707	39108485	-1	None	HPK1
19	MAP4K1	ENSG00000104814	ENST00000587300	retained_intron	KNOWN	None	6863	None	None	39106818	39108609	-1	None	HPK1
19	MAP4K1	ENSG00000104814	ENST00000423454	protein_coding	KNOWN	None	6863	720	239	39087988	39104567	-1	None	HPK1
HSCHR6_MHC_MANN	OR12D2	ENSG00000233481	ENST00000414415	protein_coding	KNOWN	None	8178	924	307	29364007	29365039	1	None	hs6M1-20
14	None	ENSG00000258412	ENST00000555383	sense_intronic	KNOWN	None	None	None	None	96677197	96681155	1	None	None
8	None	ENSG00000254869	ENST00000529518	lincRNA	KNOWN	None	None	None	None	61565061	61566120	-1	None	None
10	None	ENSG00000235858	ENST00000416657	lincRNA	KNOWN	None	None	None	None	82093527	82094182	1	None	None
20	CBFA2T2	ENSG00000078699	ENST00000471007	processed_transcript	KNOWN	None	1536	None	None	32077881	32206352	1	None	MTGR1, ZMYND3
20	CBFA2T2	ENSG00000078699	ENST00000375279	protein_coding	KNOWN	CCDS13221	1536	1815	604	32077923	32237842	1	None	MTGR1, ZMYND3
20	CBFA2T2	ENSG00000078699	ENST00000417366	protein_coding	KNOWN	None	1536	542	179	32077939	32210952	1	None	MTGR1, ZMYND3
20	CBFA2T2	ENSG00000078699	ENST00000344201	protein_coding	PUTATIVE	None	1536	792	263	32150140	32211760	1	None	MTGR1, ZMYND3
20	CBFA2T2	ENSG00000078699	ENST00000492345	nonsense_mediated_decay	KNOWN	None	1536	1728	575	32150186	32237842	1	None	MTGR1, ZMYND3
20	CBFA2T2	ENSG00000078699	ENST00000454955	protein_coding	KNOWN	None	1536	239	78	32150372	32198933	1	None	MTGR1, ZMYND3
20	CBFA2T2	ENSG00000078699	ENST00000359606	protein_coding	PUTATIVE	None	1536	1845	614	32188142	32237842	1	None	MTGR1, ZMYND3
20	CBFA2T2	ENSG00000078699	ENST00000491618	processed_transcript	KNOWN	None	1536	None	None	32207371	32224468	1	None	MTGR1, ZMYND3
20	CBFA2T2	ENSG00000078699	ENST00000342704	protein_coding	KNOWN	CCDS46590	1536	1788	595	32077928	32237837	1	None	MTGR1, ZMYND3
20	CBFA2T2	ENSG00000078699	ENST00000346541	protein_coding	KNOWN	CCDS13221	1536	1815	604	32150171	32237837	1	None	MTGR1, ZMYND3
20	CBFA2T2	ENSG00000078699	ENST00000397800	protein_coding	KNOWN	None	1536	1728	575	32150171	32237837	1	None	MTGR1, ZMYND3
20	CBFA2T2	ENSG00000078699	ENST00000397798	protein_coding	KNOWN	None	1536	792	263	32150171	32211738	1	None	MTGR1, ZMYND3
20	CBFA2T2	ENSG00000078699	ENST00000543126	protein_coding	KNOWN	None	1536	459	152	32226545	32234496	1	None	MTGR1, ZMYND3
15	GOLGA8DP	ENSG00000185182	ENST00000314246	processed_transcript	KNOWN	None	32376	None	None	22704721	22714634	-1	GOLGA8D	None
15	GOLGA8DP	ENSG00000185182	ENST00000341390	transcribed_unprocessed_pseudogene	KNOWN	None	32376	None	None	22705316	22715604	-1	GOLGA8D	None
11	TMEM223	ENSG00000168569	ENST00000527073	processed_transcript	KNOWN	None	28464	None	None	62539101	62559215	-1	None	MGC3196
11	TMEM223	ENSG00000168569	ENST00000528367	protein_coding	PUTATIVE	None	28464	412	136	62539133	62559464	-1	None	MGC3196
11	TMEM223	ENSG00000168569	ENST00000525631	protein_coding	PUTATIVE	None	28464	321	106	62554981	62559469	-1	None	MGC3196
11	TMEM223	ENSG00000168569	ENST00000307366	protein_coding	KNOWN	CCDS44628	28464	609	202	62557443	62559493	-1	None	MGC3196
10	None	ENSG00000271738	ENST00000606162	lincRNA	KNOWN	None	None	None	None	82194765	82196869	1	None	None
13	RNA5SP29	ENSG00000222920	ENST00000410988	rRNA	KNOWN	None	42605	None	None	51601883	51601988	-1	RN5S29	None
20	PTK6	ENSG00000101213	ENST00000217185	protein_coding	KNOWN	CCDS13524	9617	1356	451	62159778	62168695	-1	None	BRK
20	PTK6	ENSG00000101213	ENST00000542869	protein_coding	KNOWN	None	9617	1053	350	62160698	62168723	-1	None	BRK
22	BCRP7	ENSG00000215544	ENST00000511549	unprocessed_pseudogene	KNOWN	None	39075	None	None	18843134	18846153	-1	None	None
14	None	ENSG00000258788	ENST00000555221	processed_pseudogene	KNOWN	None	None	None	None	96689445	96689684	1	None	None
HG299_PATCH	VPS11	ENSG00000262342	ENST00000576000	processed_transcript	KNOWN	None	14583	None	None	118938402	118952681	1	None	RNF108, PEP5
HG299_PATCH	VPS11	ENSG00000262342	ENST00000576186	retained_intron	KNOWN	None	14583	None	None	118938499	118952673	1	None	RNF108, PEP5
HG299_PATCH	VPS11	ENSG00000262342	ENST00000571749	processed_transcript	KNOWN	None	14583	None	None	118938531	118952676	1	None	RNF108, PEP5
HG299_PATCH	VPS11	ENSG00000262342	ENST00000570436	retained_intron	KNOWN	None	14583	None	None	118940262	118941493	1	None	RNF108, PEP5
HG299_PATCH	VPS11	ENSG00000262342	ENST00000574669	retained_intron	KNOWN	None	14583	None	None	118944124	118947637	1	None	RNF108, PEP5
HG299_PATCH	VPS11	ENSG00000262342	ENST00000572081	processed_transcript	KNOWN	None	14583	None	None	118944531	118948356	1	None	RNF108, PEP5
HG299_PATCH	VPS11	ENSG00000262342	ENST00000570875	processed_transcript	KNOWN	None	14583	None	None	118947729	118949038	1	None	RNF108, PEP5
13	LINC00371	ENSG00000226792	ENST00000563710	lincRNA	KNOWN	None	42693	None	None	51656984	51685078	-1	None	None
13	LINC00371	ENSG00000226792	ENST00000433280	lincRNA	KNOWN	None	42693	None	None	51658217	51746524	-1	None	None
13	LINC00371	ENSG00000226792	ENST00000569306	lincRNA	KNOWN	None	42693	None	None	51658260	51746358	-1	None	None
2	STEAP3	ENSG00000115107	ENST00000393110	protein_coding	KNOWN	CCDS42738	24592	1497	498	119981407	120023228	1	None	TSAP6, dudlin-2, STMP3
2	STEAP3	ENSG00000115107	ENST00000393106	protein_coding	KNOWN	CCDS2125	24592	1467	488	119981407	120023228	1	None	TSAP6, dudlin-2, STMP3
2	STEAP3	ENSG00000115107	ENST00000409811	protein_coding	KNOWN	None	24592	1374	457	119981429	120021274	1	None	TSAP6, dudlin-2, STMP3
2	STEAP3	ENSG00000115107	ENST00000393107	protein_coding	KNOWN	CCDS2125	24592	1467	488	119981429	120021274	1	None	TSAP6, dudlin-2, STMP3
2	STEAP3	ENSG00000115107	ENST00000393108	protein_coding	KNOWN	CCDS2125	24592	1467	488	119981384	120023228	1	None	TSAP6, dudlin-2, STMP3
2	STEAP3	ENSG00000115107	ENST00000354888	protein_coding	KNOWN	CCDS2125	24592	1467	488	119981384	120023225	1	None	TSAP6, dudlin-2, STMP3
2	STEAP3	ENSG00000115107	ENST00000425223	protein_coding	KNOWN	CCDS2125	24592	1467	488	120002047	120023225	1	None	TSAP6, dudlin-2, STMP3
2	STEAP3	ENSG00000115107	ENST00000450943	protein_coding	KNOWN	None	24592	1374	457	119981384	120015221	1	None	TSAP6, dudlin-2, STMP3
5	INTS6P1	ENSG00000250492	ENST00000504674	processed_pseudogene	KNOWN	None	43921	None	None	39719086	39721615	-1	None	None
X	MORF4L1P5	ENSG00000231857	ENST00000433352	processed_pseudogene	KNOWN	None	35425	None	None	64547868	64551113	-1	MORF4LP5	None
1	None	ENSG00000224199	ENST00000457244	unprocessed_pseudogene	KNOWN	None	None	None	None	13196270	13199067	1	None	None
9	None	ENSG00000256239	ENST00000541085	processed_pseudogene	KNOWN	None	None	None	None	32629452	32635667	-1	None	None
9	ZNF483	ENSG00000173258	ENST00000358151	protein_coding	KNOWN	CCDS35105	23384	771	256	114287439	114340124	1	None	ZKSCAN16, KIAA1962, ZSCAN48
9	ZNF483	ENSG00000173258	ENST00000374374	protein_coding	KNOWN	None	23384	537	178	114287496	114290300	1	None	ZKSCAN16, KIAA1962, ZSCAN48
9	ZNF483	ENSG00000173258	ENST00000309235	protein_coding	KNOWN	CCDS35106	23384	2235	744	114287513	114306712	1	None	ZKSCAN16, KIAA1962, ZSCAN48
9	ZNF483	ENSG00000173258	ENST00000355824	protein_coding	KNOWN	None	23384	735	244	114287469	114302041	1	None	ZKSCAN16, KIAA1962, ZSCAN48
22	DGCR5	ENSG00000237517	ENST00000438934	antisense	KNOWN	None	16757	None	None	18958027	18982141	1	None	NCRNA00037, LINC00037
22	DGCR5	ENSG00000237517	ENST00000440005	antisense	KNOWN	None	16757	None	None	18958038	19018755	1	None	NCRNA00037, LINC00037
22	DGCR5	ENSG00000237517	ENST00000421572	antisense	KNOWN	None	16757	None	None	18958096	18978396	1	None	NCRNA00037, LINC00037
22	DGCR5	ENSG00000237517	ENST00000424407	antisense	KNOWN	None	16757	None	None	18985787	19002299	1	None	NCRNA00037, LINC00037
22	DGCR5	ENSG00000237517	ENST00000399539	antisense	KNOWN	None	16757	None	None	18973215	18973941	1	None	NCRNA00037, LINC00037
22	DGCR5	ENSG00000237517	ENST00000537283	antisense	KNOWN	None	16757	None	None	18979510	18980156	1	None	NCRNA00037, LINC00037
22	DGCR5	ENSG00000237517	ENST00000540720	antisense	KNOWN	None	16757	None	None	18985788	18987264	1	None	NCRNA00037, LINC00037
9	None	ENSG00000223440	ENST00000430787	antisense	KNOWN	None	None	None	None	32633452	32648683	1	None	None
X	None	ENSG00000237963	ENST00000454528	processed_pseudogene	KNOWN	None	None	None	None	64576770	64577427	-1	None	None
5	GCSHP1	ENSG00000248651	ENST00000512554	processed_pseudogene	KNOWN	None	43922	None	None	39888678	39889161	-1	None	None
Y	CDY7P	ENSG00000237558	ENST00000429883	unprocessed_pseudogene	KNOWN	None	23854	None	None	20063469	20065380	1	None	None
6	EHMT2	ENSG00000204371	ENST00000478491	processed_transcript	KNOWN	None	14129	None	None	31847536	31852583	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
6	EHMT2	ENSG00000204371	ENST00000461880	retained_intron	KNOWN	None	14129	None	None	31847536	31852918	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
6	EHMT2	ENSG00000204371	ENST00000494816	retained_intron	KNOWN	None	14129	None	None	31847536	31854214	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
6	EHMT2	ENSG00000204371	ENST00000480912	processed_transcript	KNOWN	None	14129	None	None	31847536	31864281	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
6	EHMT2	ENSG00000204371	ENST00000395728	protein_coding	KNOWN	None	14129	3804	1267	31847536	31864979	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
6	EHMT2	ENSG00000204371	ENST00000375528	protein_coding	KNOWN	None	14129	3702	1233	31847536	31864999	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
6	EHMT2	ENSG00000204371	ENST00000375530	protein_coding	KNOWN	CCDS4726	14129	3531	1176	31847536	31865454	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
6	EHMT2	ENSG00000204371	ENST00000375537	protein_coding	KNOWN	CCDS4725	14129	3633	1210	31847536	31865461	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
6	EHMT2	ENSG00000204371	ENST00000436026	protein_coding	KNOWN	None	14129	894	297	31851596	31854841	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
6	EHMT2	ENSG00000204371	ENST00000477678	retained_intron	KNOWN	None	14129	None	None	31852450	31854896	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
6	EHMT2	ENSG00000204371	ENST00000463484	retained_intron	KNOWN	None	14129	None	None	31860195	31860963	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
6	EHMT2	ENSG00000204371	ENST00000465429	retained_intron	KNOWN	None	14129	None	None	31863178	31865464	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
9	None	ENSG00000230516	ENST00000413291	lincRNA	KNOWN	None	None	None	None	32643101	32645024	-1	None	None
13	RPL5P31	ENSG00000214878	ENST00000399168	processed_pseudogene	KNOWN	None	42036	None	None	51735859	51736493	-1	None	None
19	None	ENSG00000261204	ENST00000564240	lincRNA	KNOWN	None	None	None	None	637105	637537	-1	None	None
6	GSTM2P1	ENSG00000218803	ENST00000405166	processed_pseudogene	KNOWN	None	38009	None	None	111368071	111368724	-1	None	None
X	TLE1P1	ENSG00000228158	ENST00000422965	processed_pseudogene	KNOWN	None	39438	None	None	64627964	64628552	1	None	None
X	TLE1P1	ENSG00000228158	ENST00000426165	processed_pseudogene	KNOWN	None	39438	None	None	64628131	64628565	1	None	None
9	None	ENSG00000238001	ENST00000433292	processed_pseudogene	KNOWN	None	None	None	None	32676061	32676518	-1	None	None
5	LINC00603	ENSG00000250048	ENST00000507027	lincRNA	KNOWN	None	43918	None	None	40052393	40053426	1	None	None
20	C20orf96	ENSG00000196476	ENST00000382369	protein_coding	KNOWN	None	16227	987	328	251504	271070	-1	None	dJ1103G7.2
20	C20orf96	ENSG00000196476	ENST00000360321	protein_coding	KNOWN	CCDS12994	16227	1092	363	251504	271390	-1	None	dJ1103G7.2
20	C20orf96	ENSG00000196476	ENST00000400269	protein_coding	KNOWN	None	16227	771	256	257210	271304	-1	None	dJ1103G7.2
17	TNFSF12-TNFSF13	ENSG00000248871	ENST00000293826	protein_coding	KNOWN	CCDS11108	33537	993	330	7452416	7464918	1	None	TWE-PRIL
4	RNU6-351P	ENSG00000251906	ENST00000516097	snRNA	KNOWN	None	47314	None	None	105895819	105895928	1	None	None
13	None	ENSG00000271242	ENST00000605362	processed_pseudogene	KNOWN	None	None	None	None	51770017	51770217	1	None	None
22	XPNPEP3	ENSG00000196236	ENST00000417688	retained_intron	KNOWN	None	28052	None	None	41253081	41266347	1	None	APP3, NPHPL1
22	XPNPEP3	ENSG00000196236	ENST00000482652	processed_transcript	KNOWN	None	28052	None	None	41253101	41258774	1	None	APP3, NPHPL1
22	XPNPEP3	ENSG00000196236	ENST00000357137	protein_coding	KNOWN	CCDS14007	28052	1524	507	41253102	41328819	1	None	APP3, NPHPL1
22	XPNPEP3	ENSG00000196236	ENST00000428799	nonsense_mediated_decay	KNOWN	None	28052	210	69	41253135	41323509	1	None	APP3, NPHPL1
22	XPNPEP3	ENSG00000196236	ENST00000465258	processed_transcript	KNOWN	None	28052	None	None	41258270	41277928	1	None	APP3, NPHPL1
22	XPNPEP3	ENSG00000196236	ENST00000476644	nonsense_mediated_decay	KNOWN	None	28052	87	28	41322353	41368585	1	None	APP3, NPHPL1
22	XPNPEP3	ENSG00000196236	ENST00000541156	protein_coding	KNOWN	None	28052	867	288	41253088	41305149	1	None	APP3, NPHPL1
22	XPNPEP3	ENSG00000196236	ENST00000414396	protein_coding	KNOWN	None	28052	837	278	41253094	41284477	1	None	APP3, NPHPL1
22	XPNPEP3	ENSG00000196236	ENST00000544094	protein_coding	KNOWN	None	28052	1455	484	41258269	41363838	1	None	APP3, NPHPL1
11	TMEM179B	ENSG00000185475	ENST00000532586	retained_intron	KNOWN	None	33744	None	None	62554887	62557639	1	None	None
11	TMEM179B	ENSG00000185475	ENST00000533861	protein_coding	PUTATIVE	None	33744	435	144	62554887	62557718	1	None	None
11	TMEM179B	ENSG00000185475	ENST00000333449	protein_coding	KNOWN	CCDS8036	33744	660	219	62554899	62557877	1	None	None
11	TMEM179B	ENSG00000185475	ENST00000532345	retained_intron	KNOWN	None	33744	None	None	62556532	62557582	1	None	None
11	TMEM179B	ENSG00000185475	ENST00000526546	protein_coding	PUTATIVE	None	33744	286	94	62556641	62557295	1	None	None
Y	USP9YP34	ENSG00000233378	ENST00000453983	unprocessed_pseudogene	KNOWN	None	38778	None	None	20096229	20105140	1	None	None
6	RNU6-960P	ENSG00000200926	ENST00000364056	snRNA	KNOWN	None	47923	None	None	111412416	111412535	-1	None	None
4	CSN3	ENSG00000171209	ENST00000304954	protein_coding	KNOWN	CCDS3538	2446	549	182	71108305	71117145	1	CSN10	None
14	TGM1	ENSG00000092295	ENST00000206765	protein_coding	KNOWN	CCDS9622	11777	2454	817	24718320	24732416	-1	ICR2	TGASE, TGK, LI, LI1
14	TGM1	ENSG00000092295	ENST00000544573	protein_coding	PUTATIVE	None	11777	1128	375	24718414	24732386	-1	ICR2	TGASE, TGK, LI, LI1
14	TGM1	ENSG00000092295	ENST00000559669	protein_coding	PUTATIVE	None	11777	387	128	24723329	24724262	-1	ICR2	TGASE, TGK, LI, LI1
14	TGM1	ENSG00000092295	ENST00000559136	protein_coding	PUTATIVE	None	11777	628	208	24724660	24729364	-1	ICR2	TGASE, TGK, LI, LI1
14	TGM1	ENSG00000092295	ENST00000558074	protein_coding	KNOWN	None	11777	405	134	24731004	24732744	-1	ICR2	TGASE, TGK, LI, LI1
14	TGM1	ENSG00000092295	ENST00000560443	protein_coding	KNOWN	None	11777	194	63	24731365	24733470	-1	ICR2	TGASE, TGK, LI, LI1
14	TGM1	ENSG00000092295	ENST00000560478	protein_coding	KNOWN	None	11777	151	49	24731408	24733444	-1	ICR2	TGASE, TGK, LI, LI1
14	TGM1	ENSG00000092295	ENST00000560226	protein_coding	KNOWN	None	11777	126	41	24731433	24732746	-1	ICR2	TGASE, TGK, LI, LI1
14	TGM1	ENSG00000092295	ENST00000561067	protein_coding	KNOWN	None	11777	28	8	24731531	24733638	-1	ICR2	TGASE, TGK, LI, LI1
X	None	ENSG00000227534	ENST00000433173	processed_pseudogene	KNOWN	None	None	None	None	64688967	64690260	1	None	None
12	SUDS3	ENSG00000111707	ENST00000543473	protein_coding	KNOWN	CCDS44993	29545	987	328	118814185	118855836	1	None	SDS3, FLJ00052, SAP45
12	SUDS3	ENSG00000111707	ENST00000541591	processed_transcript	KNOWN	None	29545	None	None	118839577	118852460	1	None	SDS3, FLJ00052, SAP45
12	SUDS3	ENSG00000111707	ENST00000541280	processed_transcript	KNOWN	None	29545	None	None	118840038	118852191	1	None	SDS3, FLJ00052, SAP45
12	SUDS3	ENSG00000111707	ENST00000360286	processed_transcript	KNOWN	None	29545	None	None	118841306	118848952	1	None	SDS3, FLJ00052, SAP45
12	SUDS3	ENSG00000111707	ENST00000397564	protein_coding	KNOWN	None	29545	990	329	118814358	118855840	1	None	SDS3, FLJ00052, SAP45
13	MIR5693	ENSG00000266072	ENST00000577722	miRNA	KNOWN	None	43499	None	None	51922703	51922775	-1	None	hsa-mir-5693
16	None	ENSG00000196796	ENST00000424293	protein_coding	NOVEL	None	None	1297	431	29049923	29064047	1	None	None
6	None	ENSG00000231046	ENST00000425364	antisense	KNOWN	None	None	None	None	111548950	111580237	-1	None	None
HSCHR6_MHC_DBB	BRD2	ENSG00000230678	ENST00000469015	processed_transcript	KNOWN	None	1103	None	None	32923568	32923623	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_DBB	BRD2	ENSG00000230678	ENST00000494008	processed_transcript	KNOWN	None	1103	None	None	32923568	32923916	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_DBB	BRD2	ENSG00000230678	ENST00000465885	retained_intron	KNOWN	None	1103	None	None	32923568	32923933	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_DBB	BRD2	ENSG00000230678	ENST00000486112	retained_intron	KNOWN	None	1103	None	None	32923568	32924520	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_DBB	BRD2	ENSG00000230678	ENST00000425016	protein_coding	KNOWN	None	1103	985	327	32923568	32927227	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_DBB	BRD2	ENSG00000230678	ENST00000452539	protein_coding	KNOWN	None	1103	985	327	32923568	32927227	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_DBB	BRD2	ENSG00000230678	ENST00000447730	protein_coding	KNOWN	None	1103	985	327	32923568	32927227	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_DBB	BRD2	ENSG00000230678	ENST00000442219	protein_coding	KNOWN	None	1103	1090	362	32923568	32927227	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_DBB	BRD2	ENSG00000230678	ENST00000518754	protein_coding	KNOWN	None	1103	985	327	32923568	32927227	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_DBB	BRD2	ENSG00000230678	ENST00000494471	retained_intron	KNOWN	None	1103	None	None	32925261	32927008	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_DBB	BRD2	ENSG00000230678	ENST00000498329	processed_transcript	PUTATIVE	None	1103	None	None	32925403	32926487	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
16	TCF25	ENSG00000141002	ENST00000561585	retained_intron	KNOWN	None	29181	None	None	89940000	89950471	1	None	Nulp1, KIAA1049
16	TCF25	ENSG00000141002	ENST00000561958	protein_coding	NOVEL	None	29181	701	232	89940014	89960175	1	None	Nulp1, KIAA1049
16	TCF25	ENSG00000141002	ENST00000263346	protein_coding	KNOWN	CCDS10987	29181	2031	676	89940020	89977792	1	None	Nulp1, KIAA1049
16	TCF25	ENSG00000141002	ENST00000563032	processed_transcript	KNOWN	None	29181	None	None	89940051	89941263	1	None	Nulp1, KIAA1049
16	TCF25	ENSG00000141002	ENST00000564652	nonsense_mediated_decay	KNOWN	None	29181	231	76	89940052	89958655	1	None	Nulp1, KIAA1049
16	TCF25	ENSG00000141002	ENST00000565196	protein_coding	NOVEL	None	29181	631	209	89940052	89958683	1	None	Nulp1, KIAA1049
16	TCF25	ENSG00000141002	ENST00000568412	protein_coding	NOVEL	None	29181	797	264	89940076	89962491	1	None	Nulp1, KIAA1049
16	TCF25	ENSG00000141002	ENST00000563406	processed_transcript	KNOWN	None	29181	None	None	89940958	89951021	1	None	Nulp1, KIAA1049
16	TCF25	ENSG00000141002	ENST00000565404	protein_coding	PUTATIVE	None	29181	440	145	89949802	89952538	1	None	Nulp1, KIAA1049
16	TCF25	ENSG00000141002	ENST00000566751	processed_transcript	KNOWN	None	29181	None	None	89951050	89961545	1	None	Nulp1, KIAA1049
16	TCF25	ENSG00000141002	ENST00000562256	protein_coding	PUTATIVE	None	29181	1711	569	89951052	89977792	1	None	Nulp1, KIAA1049
16	TCF25	ENSG00000141002	ENST00000568409	protein_coding	NOVEL	None	29181	857	284	89954057	89970591	1	None	Nulp1, KIAA1049
16	TCF25	ENSG00000141002	ENST00000568870	retained_intron	KNOWN	None	29181	None	None	89958601	89960315	1	None	Nulp1, KIAA1049
16	TCF25	ENSG00000141002	ENST00000562184	retained_intron	KNOWN	None	29181	None	None	89961364	89967201	1	None	Nulp1, KIAA1049
16	TCF25	ENSG00000141002	ENST00000563636	retained_intron	KNOWN	None	29181	None	None	89961523	89967447	1	None	Nulp1, KIAA1049
16	TCF25	ENSG00000141002	ENST00000566158	retained_intron	KNOWN	None	29181	None	None	89962398	89965243	1	None	Nulp1, KIAA1049
16	TCF25	ENSG00000141002	ENST00000570116	retained_intron	KNOWN	None	29181	None	None	89962398	89977758	1	None	Nulp1, KIAA1049
16	TCF25	ENSG00000141002	ENST00000562193	protein_coding	NOVEL	None	29181	627	208	89965009	89971383	1	None	Nulp1, KIAA1049
16	TCF25	ENSG00000141002	ENST00000563484	retained_intron	KNOWN	None	29181	None	None	89971417	89975582	1	None	Nulp1, KIAA1049
16	TCF25	ENSG00000141002	ENST00000566283	protein_coding	NOVEL	None	29181	352	116	89975374	89977787	1	None	Nulp1, KIAA1049
16	TCF25	ENSG00000141002	ENST00000567171	retained_intron	KNOWN	None	29181	None	None	89975836	89977786	1	None	Nulp1, KIAA1049
16	TCF25	ENSG00000141002	ENST00000564957	processed_transcript	KNOWN	None	29181	None	None	89976248	89977787	1	None	Nulp1, KIAA1049
16	TCF25	ENSG00000141002	ENST00000565860	processed_transcript	KNOWN	None	29181	None	None	89976701	89977787	1	None	Nulp1, KIAA1049
16	TCF25	ENSG00000141002	ENST00000263347	protein_coding	KNOWN	None	29181	1422	473	89952253	89977792	1	None	Nulp1, KIAA1049
10	None	ENSG00000226762	ENST00000417149	lincRNA	KNOWN	None	None	None	None	3282563	3299402	-1	None	None
6	None	ENSG00000230177	ENST00000444259	antisense	KNOWN	None	None	None	None	111599135	111599945	1	None	None
5	AFAP1L1	ENSG00000157510	ENST00000455574	retained_intron	KNOWN	None	26714	None	None	148651434	148691938	1	None	FLJ36748
5	AFAP1L1	ENSG00000157510	ENST00000296721	protein_coding	KNOWN	CCDS34274	26714	2307	768	148651434	148721365	1	None	FLJ36748
5	AFAP1L1	ENSG00000157510	ENST00000522492	processed_transcript	KNOWN	None	26714	None	None	148651458	148687176	1	None	FLJ36748
5	AFAP1L1	ENSG00000157510	ENST00000515000	protein_coding	KNOWN	CCDS54932	26714	2178	725	148651482	148719684	1	None	FLJ36748
5	AFAP1L1	ENSG00000157510	ENST00000508444	retained_intron	KNOWN	None	26714	None	None	148680754	148682231	1	None	FLJ36748
5	AFAP1L1	ENSG00000157510	ENST00000513665	retained_intron	KNOWN	None	26714	None	None	148695203	148721365	1	None	FLJ36748
12	TIMELESS	ENSG00000111602	ENST00000229201	protein_coding	KNOWN	None	11813	3624	1207	56810903	56843187	-1	None	hTIM, TIM, TIM1
12	TIMELESS	ENSG00000111602	ENST00000553532	protein_coding	KNOWN	CCDS8918	11813	3627	1208	56810907	56843183	-1	None	hTIM, TIM, TIM1
12	TIMELESS	ENSG00000111602	ENST00000557589	retained_intron	KNOWN	None	11813	None	None	56810911	56818573	-1	None	hTIM, TIM, TIM1
12	TIMELESS	ENSG00000111602	ENST00000554616	protein_coding	PUTATIVE	None	11813	2118	705	56811188	56843180	-1	None	hTIM, TIM, TIM1
12	TIMELESS	ENSG00000111602	ENST00000553314	retained_intron	KNOWN	None	11813	None	None	56812074	56814874	-1	None	hTIM, TIM, TIM1
12	TIMELESS	ENSG00000111602	ENST00000555808	retained_intron	KNOWN	None	11813	None	None	56815336	56816005	-1	None	hTIM, TIM, TIM1
20	NANP	ENSG00000170191	ENST00000304788	protein_coding	KNOWN	CCDS13173	16140	747	248	25593571	25604811	-1	C20orf147, HDHD4	dJ694B14.3, MGC26833
X	FRMD8P1	ENSG00000227942	ENST00000440433	processed_pseudogene	KNOWN	None	24690	None	None	64770778	64772301	-1	None	FKSG43
5	MED10	ENSG00000133398	ENST00000255764	protein_coding	KNOWN	CCDS34134	28760	408	135	6371994	6378707	-1	None	TRG20, L6, MGC5309, NUT2
5	MED10	ENSG00000133398	ENST00000503112	retained_intron	KNOWN	None	28760	None	None	6372278	6374924	-1	None	TRG20, L6, MGC5309, NUT2
5	MED10	ENSG00000133398	ENST00000504058	retained_intron	KNOWN	None	28760	None	None	6376925	6378684	-1	None	TRG20, L6, MGC5309, NUT2
4	None	ENSG00000251473	ENST00000505438	processed_pseudogene	KNOWN	None	None	None	None	106024048	106025161	-1	None	None
2	None	ENSG00000186235	ENST00000475669	processed_transcript	KNOWN	None	None	None	None	239133193	239140226	-1	None	None
2	None	ENSG00000186235	ENST00000409376	protein_coding	PUTATIVE	None	None	441	146	239133754	239140011	-1	None	None
2	None	ENSG00000186235	ENST00000409070	protein_coding	PUTATIVE	None	None	501	166	239133757	239140072	-1	None	None
2	None	ENSG00000186235	ENST00000409942	protein_coding	PUTATIVE	None	None	441	146	239133757	239140166	-1	None	None
2	None	ENSG00000186235	ENST00000470346	processed_transcript	KNOWN	None	None	None	None	239133761	239140254	-1	None	None
2	None	ENSG00000186235	ENST00000466075	retained_intron	KNOWN	None	None	None	None	239136186	239140318	-1	None	None
2	None	ENSG00000186235	ENST00000334973	protein_coding	KNOWN	None	None	432	143	239133754	239140318	-1	None	None
6	None	ENSG00000271789	ENST00000607386	lincRNA	KNOWN	None	None	None	None	111618329	111619713	1	None	None
6	CNPY3	ENSG00000137161	ENST00000372836	protein_coding	KNOWN	CCDS4875	11968	837	278	42896938	42907025	1	TNRC5	CAG4A
6	CNPY3	ENSG00000137161	ENST00000394142	protein_coding	KNOWN	None	11968	165	54	42896982	42907007	1	TNRC5	CAG4A
9	None	ENSG00000224045	ENST00000434190	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	138479848	138483821	1	None	None
9	None	ENSG00000224045	ENST00000434697	processed_transcript	KNOWN	None	None	None	None	138480455	138482681	1	None	None
Y	USP9YP32	ENSG00000237616	ENST00000452432	unprocessed_pseudogene	KNOWN	None	38776	None	None	20107081	20109132	-1	None	None
3	THOC7	ENSG00000163634	ENST00000295899	protein_coding	KNOWN	CCDS2900	29874	615	204	63819546	63849579	-1	None	NIF3L1BP1, FLJ23445, fSAP24
3	THOC7	ENSG00000163634	ENST00000469584	nonsense_mediated_decay	KNOWN	None	29874	45	14	63819547	63849544	-1	None	NIF3L1BP1, FLJ23445, fSAP24
3	THOC7	ENSG00000163634	ENST00000473141	processed_transcript	KNOWN	None	29874	None	None	63820830	63840418	-1	None	NIF3L1BP1, FLJ23445, fSAP24
3	THOC7	ENSG00000163634	ENST00000469153	nonsense_mediated_decay	KNOWN	None	29874	92	29	63820841	63825449	-1	None	NIF3L1BP1, FLJ23445, fSAP24
3	THOC7	ENSG00000163634	ENST00000498422	processed_transcript	KNOWN	None	29874	None	None	63821003	63849462	-1	None	NIF3L1BP1, FLJ23445, fSAP24
3	THOC7	ENSG00000163634	ENST00000464327	nonsense_mediated_decay	KNOWN	None	29874	51	16	63823668	63849475	-1	None	NIF3L1BP1, FLJ23445, fSAP24
3	THOC7	ENSG00000163634	ENST00000487570	retained_intron	KNOWN	None	29874	None	None	63823777	63825455	-1	None	NIF3L1BP1, FLJ23445, fSAP24
X	None	ENSG00000231669	ENST00000439474	processed_transcript	KNOWN	None	None	None	None	64808261	64809649	1	None	None
X	None	ENSG00000231669	ENST00000429601	processed_transcript	KNOWN	None	None	None	None	64808278	64820630	1	None	None
X	None	ENSG00000231669	ENST00000447323	processed_transcript	KNOWN	None	None	None	None	64808284	64813305	1	None	None
10	None	ENSG00000272135	ENST00000442370	processed_transcript	KNOWN	None	None	None	None	124578332	124583027	1	None	None
10	None	ENSG00000272135	ENST00000606028	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	124580001	124585965	1	None	None
10	None	ENSG00000272135	ENST00000260742	unprocessed_pseudogene	KNOWN	None	None	None	None	124583194	124585859	1	None	None
6	None	ENSG00000272356	ENST00000607434	antisense	KNOWN	None	None	None	None	111630406	111634720	1	None	None
Y	CDY8P	ENSG00000224033	ENST00000428380	unprocessed_pseudogene	KNOWN	None	23855	None	None	20134179	20135788	1	None	None
6	FCF1P5	ENSG00000220392	ENST00000406490	processed_pseudogene	KNOWN	None	44617	None	None	111674905	111675386	1	None	None
10	None	ENSG00000227338	ENST00000436340	lincRNA	KNOWN	None	None	None	None	3308195	3309207	1	None	None
6	REV3L-IT1	ENSG00000229276	ENST00000411895	sense_intronic	KNOWN	None	41377	None	None	111681844	111682810	-1	None	None
Y	TCEB1P12	ENSG00000230412	ENST00000458706	processed_pseudogene	KNOWN	None	38148	None	None	20230369	20230696	1	None	None
13	None	ENSG00000269965	ENST00000602881	sense_intronic	KNOWN	None	None	None	None	51935701	51936371	-1	None	None
6	BRD7P4	ENSG00000218676	ENST00000406170	processed_pseudogene	KNOWN	None	37630	None	None	111751463	111752984	1	None	None
14	None	ENSG00000265250	ENST00000577219	miRNA	NOVEL	None	None	None	None	101518340	101518436	1	None	None
10	None	ENSG00000233321	ENST00000413993	lincRNA	KNOWN	None	None	None	None	3529086	3545030	-1	None	None
9	OMD	ENSG00000127083	ENST00000375550	protein_coding	KNOWN	CCDS6696	8134	1266	421	95176527	95186743	-1	None	osteoadherin, SLRR2C
14	MIR487A	ENSG00000207558	ENST00000384827	miRNA	KNOWN	None	32343	None	None	101518783	101518862	1	MIRN487, MIRN487A	hsa-mir-487, hsa-mir-487a
Y	OFD1P2Y	ENSG00000226611	ENST00000421895	unprocessed_pseudogene	KNOWN	None	23874	None	None	20242567	20258088	-1	OFDYP2, OFD1P2, OFD1PY2	None
19	None	ENSG00000269014	ENST00000597106	processed_pseudogene	KNOWN	None	None	None	None	47330152	47331697	-1	None	None
12	TCHP	ENSG00000139437	ENST00000537218	retained_intron	KNOWN	None	28135	None	None	110338069	110342832	1	None	MGC10854, TpMs
12	TCHP	ENSG00000139437	ENST00000544838	nonsense_mediated_decay	KNOWN	CCDS9137	28135	1497	498	110338079	110391074	1	None	MGC10854, TpMs
12	TCHP	ENSG00000139437	ENST00000405876	protein_coding	KNOWN	CCDS9137	28135	1497	498	110338085	110355874	1	None	MGC10854, TpMs
12	TCHP	ENSG00000139437	ENST00000312777	protein_coding	KNOWN	CCDS9137	28135	1497	498	110338323	110355868	1	None	MGC10854, TpMs
12	TCHP	ENSG00000139437	ENST00000536408	protein_coding	KNOWN	None	28135	522	173	110338414	110344442	1	None	MGC10854, TpMs
12	TCHP	ENSG00000139437	ENST00000549550	retained_intron	KNOWN	None	28135	None	None	110346620	110352333	1	None	MGC10854, TpMs
12	TCHP	ENSG00000139437	ENST00000551627	retained_intron	KNOWN	None	28135	None	None	110350778	110354546	1	None	MGC10854, TpMs
12	TCHP	ENSG00000139437	ENST00000537880	retained_intron	KNOWN	None	28135	None	None	110352011	110355871	1	None	MGC10854, TpMs
12	TCHP	ENSG00000139437	ENST00000549524	retained_intron	KNOWN	None	28135	None	None	110367650	110371956	1	None	MGC10854, TpMs
12	TCHP	ENSG00000139437	ENST00000550780	processed_transcript	KNOWN	None	28135	None	None	110370849	110421646	1	None	MGC10854, TpMs
8	None	ENSG00000253273	ENST00000519383	unprocessed_pseudogene	KNOWN	None	None	None	None	74743378	74744182	1	None	None
15	None	ENSG00000259359	ENST00000560176	lincRNA	KNOWN	None	None	None	None	96714810	96717175	1	None	None
15	None	ENSG00000259359	ENST00000558449	lincRNA	KNOWN	None	None	None	None	96714824	96717568	1	None	None
1	CDC7	ENSG00000097046	ENST00000234626	protein_coding	KNOWN	CCDS734	1745	1725	574	91966450	91991321	1	CDC7L1	Hsk1, huCdc7, HsCdc7
1	CDC7	ENSG00000097046	ENST00000426137	protein_coding	KNOWN	None	1745	472	156	91966695	91977380	1	CDC7L1	Hsk1, huCdc7, HsCdc7
1	CDC7	ENSG00000097046	ENST00000497611	processed_transcript	KNOWN	None	1745	None	None	91966717	91973962	1	CDC7L1	Hsk1, huCdc7, HsCdc7
1	CDC7	ENSG00000097046	ENST00000486509	processed_transcript	KNOWN	None	1745	None	None	91978684	91985837	1	CDC7L1	Hsk1, huCdc7, HsCdc7
1	CDC7	ENSG00000097046	ENST00000430031	protein_coding	KNOWN	None	1745	1641	546	91966408	91990056	1	CDC7L1	Hsk1, huCdc7, HsCdc7
1	CDC7	ENSG00000097046	ENST00000428239	protein_coding	KNOWN	CCDS734	1745	1725	574	91966665	91991321	1	CDC7L1	Hsk1, huCdc7, HsCdc7
19	None	ENSG00000252071	ENST00000516262	snoRNA	NOVEL	None	None	None	None	47451546	47451631	1	None	None
13	None	ENSG00000270101	ENST00000602636	sense_intronic	KNOWN	None	None	None	None	51936795	51937579	-1	None	None
4	CABS1	ENSG00000145309	ENST00000273936	protein_coding	KNOWN	CCDS3539	30710	1188	395	71200698	71202833	1	C4orf35	NYD-SP26, FLJ32897, CLPH
15	ZFYVE19	ENSG00000166140	ENST00000570108	protein_coding	NOVEL	None	20758	1347	448	41099284	41106543	1	None	FLJ14840
15	ZFYVE19	ENSG00000166140	ENST00000564258	protein_coding	PUTATIVE	CCDS58355	20758	891	296	41099287	41106763	1	None	FLJ14840
15	ZFYVE19	ENSG00000166140	ENST00000355341	protein_coding	KNOWN	CCDS42025	20758	1416	471	41099287	41106767	1	None	FLJ14840
15	ZFYVE19	ENSG00000166140	ENST00000336455	protein_coding	KNOWN	CCDS58353	20758	1386	461	41099432	41106767	1	None	FLJ14840
15	ZFYVE19	ENSG00000166140	ENST00000299173	protein_coding	NOVEL	CCDS58354	20758	1212	403	41099788	41106767	1	None	FLJ14840
15	ZFYVE19	ENSG00000166140	ENST00000568062	nonsense_mediated_decay	KNOWN	None	20758	305	100	41099840	41102297	1	None	FLJ14840
15	ZFYVE19	ENSG00000166140	ENST00000563530	processed_transcript	KNOWN	None	20758	None	None	41099858	41101383	1	None	FLJ14840
15	ZFYVE19	ENSG00000166140	ENST00000566407	protein_coding	PUTATIVE	None	20758	922	306	41099875	41105998	1	None	FLJ14840
15	ZFYVE19	ENSG00000166140	ENST00000567756	nonsense_mediated_decay	KNOWN	None	20758	144	47	41099932	41102881	1	None	FLJ14840
15	ZFYVE19	ENSG00000166140	ENST00000561617	protein_coding	NOVEL	None	20758	812	269	41099955	41105100	1	None	FLJ14840
15	ZFYVE19	ENSG00000166140	ENST00000569057	nonsense_mediated_decay	KNOWN	None	20758	154	50	41099961	41106262	1	None	FLJ14840
15	ZFYVE19	ENSG00000166140	ENST00000561768	nonsense_mediated_decay	KNOWN	None	20758	65	20	41099966	41106719	1	None	FLJ14840
15	ZFYVE19	ENSG00000166140	ENST00000560078	retained_intron	KNOWN	None	20758	None	None	41100319	41106767	1	None	FLJ14840
15	ZFYVE19	ENSG00000166140	ENST00000566767	protein_coding	PUTATIVE	None	20758	171	56	41101117	41102393	1	None	FLJ14840
15	ZFYVE19	ENSG00000166140	ENST00000570162	retained_intron	KNOWN	None	20758	None	None	41102279	41103272	1	None	FLJ14840
15	ZFYVE19	ENSG00000166140	ENST00000563497	retained_intron	KNOWN	None	20758	None	None	41105861	41106520	1	None	FLJ14840
6	GTF3C6	ENSG00000155115	ENST00000329970	protein_coding	KNOWN	CCDS5087	20872	642	213	111279763	111289093	1	C6orf51	bA397G5.3, TFIIIC35
6	GTF3C6	ENSG00000155115	ENST00000480191	processed_transcript	KNOWN	None	20872	None	None	111280131	111289093	1	C6orf51	bA397G5.3, TFIIIC35
Y	TRAPPC2P8	ENSG00000225895	ENST00000440676	unprocessed_pseudogene	KNOWN	None	37731	None	None	20267200	20269988	1	None	TRAPPC2P3B
1	None	ENSG00000233394	ENST00000453094	unprocessed_pseudogene	KNOWN	None	None	None	None	13351482	13354323	1	None	None
3	MFI2	ENSG00000163975	ENST00000469783	retained_intron	KNOWN	None	7037	None	None	196715492	196731050	-1	None	CD228, FLJ38863, MAP97, MGC4856, MTF1
3	MFI2	ENSG00000163975	ENST00000296350	protein_coding	KNOWN	CCDS3325	7037	2217	738	196728611	196756687	-1	None	CD228, FLJ38863, MAP97, MGC4856, MTF1
3	MFI2	ENSG00000163975	ENST00000296351	protein_coding	KNOWN	CCDS3326	7037	909	302	196745824	196756662	-1	None	CD228, FLJ38863, MAP97, MGC4856, MTF1
3	MFI2	ENSG00000163975	ENST00000489445	retained_intron	KNOWN	None	7037	None	None	196748165	196749966	-1	None	CD228, FLJ38863, MAP97, MGC4856, MTF1
3	MFI2	ENSG00000163975	ENST00000439320	protein_coding	NOVEL	None	7037	544	180	196750725	196756658	-1	None	CD228, FLJ38863, MAP97, MGC4856, MTF1
3	MFI2	ENSG00000163975	ENST00000491399	retained_intron	KNOWN	None	7037	None	None	196751206	196753935	-1	None	CD228, FLJ38863, MAP97, MGC4856, MTF1
3	MFI2	ENSG00000163975	ENST00000473501	retained_intron	KNOWN	None	7037	None	None	196752413	196756165	-1	None	CD228, FLJ38863, MAP97, MGC4856, MTF1
6	TRAF3IP2-AS1	ENSG00000231889	ENST00000532226	antisense	KNOWN	None	40005	None	None	111804714	111814206	1	TRAF3IP2-AS2, C6orf3, NCRNA00248	C6UAS
6	TRAF3IP2-AS1	ENSG00000231889	ENST00000525151	antisense	KNOWN	None	40005	None	None	111804719	111824811	1	TRAF3IP2-AS2, C6orf3, NCRNA00248	C6UAS
6	TRAF3IP2-AS1	ENSG00000231889	ENST00000438298	antisense	KNOWN	None	40005	None	None	111804744	111898363	1	TRAF3IP2-AS2, C6orf3, NCRNA00248	C6UAS
6	TRAF3IP2-AS1	ENSG00000231889	ENST00000442928	antisense	KNOWN	None	40005	None	None	111804753	111908336	1	TRAF3IP2-AS2, C6orf3, NCRNA00248	C6UAS
6	TRAF3IP2-AS1	ENSG00000231889	ENST00000532353	antisense	KNOWN	None	40005	None	None	111804758	111919505	1	TRAF3IP2-AS2, C6orf3, NCRNA00248	C6UAS
6	TRAF3IP2-AS1	ENSG00000231889	ENST00000420651	antisense	KNOWN	None	40005	None	None	111804761	111824714	1	TRAF3IP2-AS2, C6orf3, NCRNA00248	C6UAS
6	TRAF3IP2-AS1	ENSG00000231889	ENST00000449449	antisense	KNOWN	None	40005	None	None	111804765	111897944	1	TRAF3IP2-AS2, C6orf3, NCRNA00248	C6UAS
6	TRAF3IP2-AS1	ENSG00000231889	ENST00000456352	antisense	KNOWN	None	40005	None	None	111804815	111897956	1	TRAF3IP2-AS2, C6orf3, NCRNA00248	C6UAS
6	TRAF3IP2-AS1	ENSG00000231889	ENST00000440001	antisense	KNOWN	None	40005	None	None	111804868	111824814	1	TRAF3IP2-AS2, C6orf3, NCRNA00248	C6UAS
6	TRAF3IP2-AS1	ENSG00000231889	ENST00000440395	antisense	KNOWN	None	40005	None	None	111805855	111897793	1	TRAF3IP2-AS2, C6orf3, NCRNA00248	C6UAS
6	TRAF3IP2-AS1	ENSG00000231889	ENST00000606892	antisense	KNOWN	None	40005	None	None	111886454	111898080	1	TRAF3IP2-AS2, C6orf3, NCRNA00248	C6UAS
6	TRAF3IP2-AS1	ENSG00000231889	ENST00000607066	antisense	KNOWN	None	40005	None	None	111895822	111908337	1	TRAF3IP2-AS2, C6orf3, NCRNA00248	C6UAS
12	DNAH10	ENSG00000197653	ENST00000409039	protein_coding	KNOWN	CCDS9255	2941	13416	4471	124247042	124420753	1	None	FLJ43808
12	DNAH10	ENSG00000197653	ENST00000467219	retained_intron	KNOWN	None	2941	None	None	124265651	124298804	1	None	FLJ43808
12	DNAH10	ENSG00000197653	ENST00000447853	retained_intron	KNOWN	None	2941	None	None	124265674	124298445	1	None	FLJ43808
12	DNAH10	ENSG00000197653	ENST00000497783	nonsense_mediated_decay	KNOWN	None	2941	1854	617	124319986	124366784	1	None	FLJ43808
12	DNAH10	ENSG00000197653	ENST00000540041	protein_coding	PUTATIVE	None	2941	1019	338	124392860	124399116	1	None	FLJ43808
12	DNAH10	ENSG00000197653	ENST00000492261	retained_intron	KNOWN	None	2941	None	None	124409682	124420260	1	None	FLJ43808
12	DNAH10	ENSG00000197653	ENST00000545078	retained_intron	KNOWN	None	2941	None	None	124411313	124414286	1	None	FLJ43808
12	DNAH10	ENSG00000197653	ENST00000538983	processed_transcript	KNOWN	None	2941	None	None	124416338	124417986	1	None	FLJ43808
11	MIRLET7A2	ENSG00000198975	ENST00000362105	miRNA	KNOWN	None	31477	None	None	122017229	122017301	-1	MIRNLET7A2	hsa-let-7a-2
Y	USP9YP15	ENSG00000233120	ENST00000442391	unprocessed_pseudogene	KNOWN	None	38751	None	None	20278413	20279581	1	None	None
15	None	ENSG00000259763	ENST00000558885	lincRNA	KNOWN	None	None	None	None	96779014	96779932	1	None	None
X	EEF1A1P40	ENSG00000231144	ENST00000412883	processed_pseudogene	KNOWN	None	37918	None	None	106275478	106276050	1	None	None
3	None	ENSG00000271413	ENST00000604457	processed_pseudogene	KNOWN	None	None	None	None	175786895	175787040	1	None	None
9	TMEM2	ENSG00000135048	ENST00000377044	protein_coding	KNOWN	CCDS6638	11869	4152	1383	74298282	74383800	-1	None	None
9	TMEM2	ENSG00000135048	ENST00000377057	retained_intron	KNOWN	None	11869	None	None	74298288	74313157	-1	None	None
9	TMEM2	ENSG00000135048	ENST00000538669	retained_intron	KNOWN	None	11869	None	None	74298487	74302344	-1	None	None
9	TMEM2	ENSG00000135048	ENST00000377066	protein_coding	KNOWN	CCDS47979	11869	3963	1320	74298901	74383302	-1	None	None
9	TMEM2	ENSG00000135048	ENST00000542935	nonsense_mediated_decay	KNOWN	None	11869	1743	580	74298901	74383302	-1	None	None
9	TMEM2	ENSG00000135048	ENST00000396272	protein_coding	PUTATIVE	None	11869	1131	376	74299972	74319848	-1	None	None
9	TMEM2	ENSG00000135048	ENST00000474495	retained_intron	KNOWN	None	11869	None	None	74312744	74319729	-1	None	None
9	TMEM2	ENSG00000135048	ENST00000377055	protein_coding	PUTATIVE	None	11869	537	178	74314108	74324246	-1	None	None
9	TMEM2	ENSG00000135048	ENST00000377043	protein_coding	PUTATIVE	None	11869	531	176	74319333	74327070	-1	None	None
9	TMEM2	ENSG00000135048	ENST00000537329	retained_intron	KNOWN	None	11869	None	None	74319716	74327359	-1	None	None
9	TMEM2	ENSG00000135048	ENST00000546219	retained_intron	KNOWN	None	11869	None	None	74345069	74345900	-1	None	None
9	TMEM2	ENSG00000135048	ENST00000543165	retained_intron	KNOWN	None	11869	None	None	74364917	74383429	-1	None	None
9	TMEM2	ENSG00000135048	ENST00000545719	protein_coding	KNOWN	None	11869	55	17	74365235	74431606	-1	None	None
15	MIR1469	ENSG00000222651	ENST00000410719	miRNA	KNOWN	None	35378	None	None	96876490	96876536	1	MIRN1469	hsa-mir-1469
19	WTIP	ENSG00000142279	ENST00000590071	protein_coding	KNOWN	CCDS59375	20964	1293	430	34972543	34997258	1	None	None
19	WTIP	ENSG00000142279	ENST00000585928	protein_coding	PUTATIVE	None	20964	602	199	34973433	34989534	1	None	None
19	WTIP	ENSG00000142279	ENST00000270288	protein_coding	KNOWN	None	20964	1965	654	34971874	34992085	1	None	None
Y	RNU1-95P	ENSG00000252166	ENST00000516357	snRNA	KNOWN	None	48437	None	None	20278734	20278893	1	None	None
3	None	ENSG00000238026	ENST00000419971	processed_pseudogene	KNOWN	None	None	None	None	175831490	175832325	-1	None	None
Y	USP9YP16	ENSG00000232744	ENST00000430287	unprocessed_pseudogene	KNOWN	None	38752	None	None	20283081	20285685	-1	None	None
15	None	ENSG00000259275	ENST00000558382	lincRNA	KNOWN	None	None	None	None	96897466	96946964	1	None	None
15	None	ENSG00000259275	ENST00000558499	lincRNA	KNOWN	None	None	None	None	96897619	96933952	1	None	None
X	None	ENSG00000228345	ENST00000457557	processed_pseudogene	KNOWN	None	None	None	None	27872440	27873470	1	None	None
13	INTS6-AS1	ENSG00000236778	ENST00000595435	antisense	KNOWN	None	42691	None	None	52026503	52124028	1	None	None
13	INTS6-AS1	ENSG00000236778	ENST00000593672	antisense	KNOWN	None	42691	None	None	52026503	52124028	1	None	None
13	INTS6-AS1	ENSG00000236778	ENST00000596050	antisense	KNOWN	None	42691	None	None	52026504	52124028	1	None	None
13	INTS6-AS1	ENSG00000236778	ENST00000594959	antisense	KNOWN	None	42691	None	None	52026506	52124011	1	None	None
13	INTS6-AS1	ENSG00000236778	ENST00000595424	antisense	KNOWN	None	42691	None	None	52026565	52042503	1	None	None
13	INTS6-AS1	ENSG00000236778	ENST00000598905	antisense	KNOWN	None	42691	None	None	52027477	52028966	1	None	None
13	INTS6-AS1	ENSG00000236778	ENST00000593709	antisense	KNOWN	None	42691	None	None	52027519	52080774	1	None	None
13	INTS6-AS1	ENSG00000236778	ENST00000434512	antisense	KNOWN	None	42691	None	None	52028283	52124128	1	None	None
13	INTS6-AS1	ENSG00000236778	ENST00000595997	antisense	KNOWN	None	42691	None	None	52028300	52041785	1	None	None
13	INTS6-AS1	ENSG00000236778	ENST00000593928	antisense	KNOWN	None	42691	None	None	52028300	52042503	1	None	None
13	INTS6-AS1	ENSG00000236778	ENST00000601572	antisense	KNOWN	None	42691	None	None	52028300	52042509	1	None	None
13	INTS6-AS1	ENSG00000236778	ENST00000594358	antisense	KNOWN	None	42691	None	None	52028300	52042916	1	None	None
13	INTS6-AS1	ENSG00000236778	ENST00000594604	antisense	KNOWN	None	42691	None	None	52028300	52043129	1	None	None
13	INTS6-AS1	ENSG00000236778	ENST00000594488	antisense	KNOWN	None	42691	None	None	52028300	52046211	1	None	None
13	INTS6-AS1	ENSG00000236778	ENST00000598864	antisense	KNOWN	None	42691	None	None	52028300	52064774	1	None	None
13	INTS6-AS1	ENSG00000236778	ENST00000600477	antisense	KNOWN	None	42691	None	None	52028300	52069805	1	None	None
13	INTS6-AS1	ENSG00000236778	ENST00000593429	antisense	KNOWN	None	42691	None	None	52028300	52074637	1	None	None
13	INTS6-AS1	ENSG00000236778	ENST00000596180	antisense	KNOWN	None	42691	None	None	52028300	52090092	1	None	None
13	INTS6-AS1	ENSG00000236778	ENST00000596303	antisense	KNOWN	None	42691	None	None	52028300	52092604	1	None	None
13	INTS6-AS1	ENSG00000236778	ENST00000597745	antisense	KNOWN	None	42691	None	None	52028300	52116321	1	None	None
13	INTS6-AS1	ENSG00000236778	ENST00000602089	antisense	KNOWN	None	42691	None	None	52028300	52124299	1	None	None
13	INTS6-AS1	ENSG00000236778	ENST00000599315	antisense	KNOWN	None	42691	None	None	52028300	52126471	1	None	None
13	INTS6-AS1	ENSG00000236778	ENST00000601318	antisense	KNOWN	None	42691	None	None	52028300	52126500	1	None	None
13	INTS6-AS1	ENSG00000236778	ENST00000601034	antisense	KNOWN	None	42691	None	None	52028304	52036761	1	None	None
4	SMR3A	ENSG00000109208	ENST00000226460	protein_coding	KNOWN	CCDS34000	19216	405	134	71226478	71232875	1	PROL5	PBI, PRL5
14	RNU6-252P	ENSG00000200102	ENST00000363232	snRNA	KNOWN	None	47215	None	None	21581798	21581904	-1	None	None
14	None	ENSG00000259102	ENST00000553649	processed_pseudogene	KNOWN	None	None	None	None	21630672	21631902	1	None	None
Y	None	ENSG00000244646	ENST00000442362	unprocessed_pseudogene	KNOWN	None	None	None	None	20290496	20298506	1	None	None
Y	None	ENSG00000244646	ENST00000535771	pseudogene	KNOWN	None	None	None	None	20297335	20298913	1	None	None
11	MIR100	ENSG00000207994	ENST00000385259	miRNA	KNOWN	None	31487	None	None	122022937	122023016	-1	MIRN100	hsa-mir-100
14	None	ENSG00000258906	ENST00000554853	processed_pseudogene	KNOWN	None	None	None	None	21652500	21653118	-1	None	None
X	None	ENSG00000233243	ENST00000421897	processed_pseudogene	KNOWN	None	None	None	None	27882010	27882466	1	None	None
8	MSRA	ENSG00000175806	ENST00000317173	protein_coding	KNOWN	CCDS5975	7377	708	235	9911778	10286401	1	None	None
8	MSRA	ENSG00000175806	ENST00000441698	protein_coding	KNOWN	CCDS47798	7377	588	195	9911880	10285875	1	None	None
8	MSRA	ENSG00000175806	ENST00000518255	protein_coding	PUTATIVE	None	7377	642	213	9912011	10195333	1	None	None
8	MSRA	ENSG00000175806	ENST00000521209	protein_coding	PUTATIVE	None	7377	180	59	9916480	10108427	1	None	None
8	MSRA	ENSG00000175806	ENST00000522907	protein_coding	PUTATIVE	None	7377	247	81	9953061	10177401	1	None	None
8	MSRA	ENSG00000175806	ENST00000528246	protein_coding	PUTATIVE	CCDS56522	7377	510	169	9953062	10286395	1	None	None
8	MSRA	ENSG00000175806	ENST00000523637	retained_intron	KNOWN	None	7377	None	None	9953237	10177873	1	None	None
8	MSRA	ENSG00000175806	ENST00000382490	protein_coding	KNOWN	CCDS47799	7377	579	192	9953237	10286399	1	None	None
8	MSRA	ENSG00000175806	ENST00000521686	protein_coding	PUTATIVE	None	7377	274	90	10159045	10211473	1	None	None
8	MSRA	ENSG00000175806	ENST00000517594	processed_transcript	KNOWN	None	7377	None	None	10183978	10269075	1	None	None
HSCHR6_MHC_COX	HLA-DQB2	ENSG00000224305	ENST00000429783	protein_coding	KNOWN	None	4945	795	264	32647573	32655010	-1	HLA-DXB	None
HSCHR6_MHC_COX	HLA-DQB2	ENSG00000224305	ENST00000415137	protein_coding	KNOWN	None	4945	828	275	32647573	32655008	-1	HLA-DXB	None
HSCHR6_MHC_COX	HLA-DQB2	ENSG00000224305	ENST00000438757	protein_coding	KNOWN	None	4945	684	227	32647573	32654966	-1	HLA-DXB	None
HSCHR6_MHC_COX	HLA-DQB2	ENSG00000224305	ENST00000421468	protein_coding	KNOWN	None	4945	656	217	32647863	32654942	-1	HLA-DXB	None
HSCHR6_MHC_COX	HLA-DQB2	ENSG00000224305	ENST00000547938	protein_coding	KNOWN	None	4945	627	208	32647573	32655029	-1	HLA-DXB	None
12	CYP27B1	ENSG00000111012	ENST00000547344	retained_intron	KNOWN	None	2606	None	None	58156117	58160878	-1	VDD1, PDDR	CYP1, P450c1
12	CYP27B1	ENSG00000111012	ENST00000228606	protein_coding	KNOWN	CCDS8954	2606	1527	508	58156122	58161034	-1	VDD1, PDDR	CYP1, P450c1
12	CYP27B1	ENSG00000111012	ENST00000546567	protein_coding	PUTATIVE	None	2606	471	156	58157920	58159468	-1	VDD1, PDDR	CYP1, P450c1
12	CYP27B1	ENSG00000111012	ENST00000547451	retained_intron	KNOWN	None	2606	None	None	58158327	58159468	-1	VDD1, PDDR	CYP1, P450c1
12	CYP27B1	ENSG00000111012	ENST00000552186	retained_intron	KNOWN	None	2606	None	None	58159240	58160294	-1	VDD1, PDDR	CYP1, P450c1
12	CYP27B1	ENSG00000111012	ENST00000546496	processed_transcript	KNOWN	None	2606	None	None	58159253	58160239	-1	VDD1, PDDR	CYP1, P450c1
X	None	ENSG00000224589	ENST00000449607	processed_pseudogene	KNOWN	None	None	None	None	27911465	27912176	-1	None	None
Y	ACTG1P11	ENSG00000229465	ENST00000425411	processed_pseudogene	KNOWN	None	37651	None	None	20309770	20310894	1	None	None
16	ZNF205	ENSG00000122386	ENST00000382192	protein_coding	KNOWN	CCDS10494	12996	1665	554	3162561	3170518	1	ZNF210	Zfp13
16	ZNF205	ENSG00000122386	ENST00000219091	protein_coding	KNOWN	CCDS10494	12996	1665	554	3162574	3170484	1	ZNF210	Zfp13
16	ZNF205	ENSG00000122386	ENST00000444510	protein_coding	KNOWN	None	12996	354	117	3162662	3165912	1	ZNF210	Zfp13
16	ZNF205	ENSG00000122386	ENST00000414351	protein_coding	KNOWN	None	12996	836	277	3162796	3169497	1	ZNF210	Zfp13
16	ZNF205	ENSG00000122386	ENST00000570935	protein_coding	NOVEL	None	12996	766	254	3165522	3169761	1	ZNF210	Zfp13
X	None	ENSG00000213569	ENST00000399148	processed_pseudogene	KNOWN	None	None	None	None	106374889	106375499	1	None	None
16	SYNGR3	ENSG00000127561	ENST00000563869	protein_coding	PUTATIVE	None	11501	719	238	2039661	2043170	1	None	None
16	SYNGR3	ENSG00000127561	ENST00000248121	protein_coding	KNOWN	CCDS10456	11501	690	229	2039946	2044276	1	None	None
16	SYNGR3	ENSG00000127561	ENST00000568896	protein_coding	NOVEL	None	11501	533	176	2040158	2042712	1	None	None
16	SYNGR3	ENSG00000127561	ENST00000562045	protein_coding	PUTATIVE	None	11501	231	76	2041125	2043375	1	None	None
16	SYNGR3	ENSG00000127561	ENST00000564642	retained_intron	KNOWN	None	11501	None	None	2042464	2043299	1	None	None
7	CYP3A43	ENSG00000021461	ENST00000354829	protein_coding	KNOWN	CCDS5676	17450	1512	503	99425636	99463718	1	None	None
7	CYP3A43	ENSG00000021461	ENST00000436834	nonsense_mediated_decay	KNOWN	None	17450	171	56	99425666	99463624	1	None	None
7	CYP3A43	ENSG00000021461	ENST00000417625	protein_coding	NOVEL	None	17450	1182	393	99425666	99463624	1	None	None
7	CYP3A43	ENSG00000021461	ENST00000463915	processed_transcript	KNOWN	None	17450	None	None	99425672	99463668	1	None	None
7	CYP3A43	ENSG00000021461	ENST00000444905	protein_coding	PUTATIVE	None	17450	504	167	99425672	99463668	1	None	None
7	CYP3A43	ENSG00000021461	ENST00000415413	protein_coding	NOVEL	None	17450	879	292	99425672	99463668	1	None	None
7	CYP3A43	ENSG00000021461	ENST00000477658	processed_transcript	KNOWN	None	17450	None	None	99425672	99463668	1	None	None
7	CYP3A43	ENSG00000021461	ENST00000495115	processed_transcript	KNOWN	None	17450	None	None	99425672	99463668	1	None	None
7	CYP3A43	ENSG00000021461	ENST00000433277	nonsense_mediated_decay	KNOWN	None	17450	291	96	99425672	99463668	1	None	None
7	CYP3A43	ENSG00000021461	ENST00000491648	processed_transcript	KNOWN	None	17450	None	None	99425672	99463668	1	None	None
7	CYP3A43	ENSG00000021461	ENST00000481362	retained_intron	KNOWN	None	17450	None	None	99425739	99463624	1	None	None
7	CYP3A43	ENSG00000021461	ENST00000434806	nonsense_mediated_decay	KNOWN	None	17450	753	250	99425739	99463624	1	None	None
7	CYP3A43	ENSG00000021461	ENST00000312017	protein_coding	KNOWN	CCDS5677	17450	1263	420	99425739	99463624	1	None	None
7	CYP3A43	ENSG00000021461	ENST00000222382	protein_coding	KNOWN	CCDS5675	17450	1515	504	99425739	99463624	1	None	None
7	CYP3A43	ENSG00000021461	ENST00000472352	retained_intron	KNOWN	None	17450	None	None	99453111	99459463	1	None	None
7	CYP3A43	ENSG00000021461	ENST00000421837	protein_coding	KNOWN	None	17450	225	74	99425636	99437043	1	None	None
7	CYP3A43	ENSG00000021461	ENST00000342499	protein_coding	KNOWN	None	17450	843	280	99425666	99463624	1	None	None
11	None	ENSG00000255090	ENST00000532350	lincRNA	KNOWN	None	None	None	None	122026130	122073770	-1	None	None
11	None	ENSG00000255090	ENST00000533109	processed_transcript	PUTATIVE	None	None	None	None	122026259	122051108	-1	None	None
11	None	ENSG00000255090	ENST00000534782	lincRNA	KNOWN	None	None	None	None	122026259	122073770	-1	None	None
11	None	ENSG00000255090	ENST00000534496	processed_transcript	KNOWN	None	None	None	None	122051044	122073754	-1	None	None
11	None	ENSG00000255090	ENST00000527474	lincRNA	KNOWN	None	None	None	None	122051046	122238681	-1	None	None
11	None	ENSG00000255090	ENST00000529804	processed_transcript	KNOWN	None	None	None	None	122073472	122180159	-1	None	None
11	None	ENSG00000255090	ENST00000529733	lincRNA	KNOWN	None	None	None	None	122074217	122238580	-1	None	None
11	None	ENSG00000255090	ENST00000528381	lincRNA	KNOWN	None	None	None	None	122104970	122238523	-1	None	None
11	None	ENSG00000255090	ENST00000526674	lincRNA	KNOWN	None	None	None	None	122162982	122293579	-1	None	None
Y	PRYP2	ENSG00000231311	ENST00000416652	unprocessed_pseudogene	KNOWN	None	34019	None	None	20323252	20338370	1	None	None
1	USP48	ENSG00000090686	ENST00000308271	protein_coding	KNOWN	CCDS30623	18533	3108	1035	22005072	22110099	-1	USP31	FLJ23277, FLJ11328, FLJ20103, FLJ23054, MGC14879
1	USP48	ENSG00000090686	ENST00000374732	protein_coding	KNOWN	None	18533	1566	521	22005396	22051612	-1	USP31	FLJ23277, FLJ11328, FLJ20103, FLJ23054, MGC14879
1	USP48	ENSG00000090686	ENST00000479177	processed_transcript	KNOWN	None	18533	None	None	22005692	22007745	-1	USP31	FLJ23277, FLJ11328, FLJ20103, FLJ23054, MGC14879
1	USP48	ENSG00000090686	ENST00000529637	protein_coding	NOVEL	None	18533	3144	1047	22005860	22109484	-1	USP31	FLJ23277, FLJ11328, FLJ20103, FLJ23054, MGC14879
1	USP48	ENSG00000090686	ENST00000464577	retained_intron	KNOWN	None	18533	None	None	22012385	22031108	-1	USP31	FLJ23277, FLJ11328, FLJ20103, FLJ23054, MGC14879
1	USP48	ENSG00000090686	ENST00000471752	retained_intron	KNOWN	None	18533	None	None	22041617	22047639	-1	USP31	FLJ23277, FLJ11328, FLJ20103, FLJ23054, MGC14879
1	USP48	ENSG00000090686	ENST00000487880	processed_transcript	KNOWN	None	18533	None	None	22047529	22053063	-1	USP31	FLJ23277, FLJ11328, FLJ20103, FLJ23054, MGC14879
1	USP48	ENSG00000090686	ENST00000526044	protein_coding	PUTATIVE	None	18533	406	134	22050391	22059329	-1	USP31	FLJ23277, FLJ11328, FLJ20103, FLJ23054, MGC14879
1	USP48	ENSG00000090686	ENST00000534705	protein_coding	PUTATIVE	None	18533	440	145	22050465	22059319	-1	USP31	FLJ23277, FLJ11328, FLJ20103, FLJ23054, MGC14879
1	USP48	ENSG00000090686	ENST00000421625	protein_coding	KNOWN	CCDS44084	18533	1458	485	22054344	22110099	-1	USP31	FLJ23277, FLJ11328, FLJ20103, FLJ23054, MGC14879
1	USP48	ENSG00000090686	ENST00000374730	nonsense_mediated_decay	KNOWN	None	18533	346	114	22055105	22074684	-1	USP31	FLJ23277, FLJ11328, FLJ20103, FLJ23054, MGC14879
1	USP48	ENSG00000090686	ENST00000527823	protein_coding	PUTATIVE	None	18533	144	47	22079500	22108513	-1	USP31	FLJ23277, FLJ11328, FLJ20103, FLJ23054, MGC14879
1	USP48	ENSG00000090686	ENST00000532737	protein_coding	PUTATIVE	None	18533	116	37	22079528	22109719	-1	USP31	FLJ23277, FLJ11328, FLJ20103, FLJ23054, MGC14879
1	USP48	ENSG00000090686	ENST00000489108	processed_transcript	KNOWN	None	18533	None	None	22083954	22109436	-1	USP31	FLJ23277, FLJ11328, FLJ20103, FLJ23054, MGC14879
1	USP48	ENSG00000090686	ENST00000400301	protein_coding	KNOWN	None	18533	2952	983	22004791	22109688	-1	USP31	FLJ23277, FLJ11328, FLJ20103, FLJ23054, MGC14879
X	None	ENSG00000199832	ENST00000362962	misc_RNA	NOVEL	None	None	None	None	106445807	106445913	1	None	None
X	None	ENSG00000263509	ENST00000581985	miRNA	NOVEL	None	None	None	None	28395080	28395178	-1	None	None
5	KRT18P56	ENSG00000249668	ENST00000507275	processed_pseudogene	KNOWN	None	43923	None	None	40066753	40067302	1	None	None
X	None	ENSG00000223742	ENST00000456037	lincRNA	KNOWN	None	None	None	None	28589649	28604512	-1	None	None
14	LINC00641	ENSG00000258441	ENST00000555379	retained_intron	KNOWN	None	27511	None	None	21668238	21673662	-1	None	None
14	LINC00641	ENSG00000258441	ENST00000555688	lincRNA	KNOWN	None	27511	None	None	21668620	21675059	-1	None	None
6	None	ENSG00000220745	ENST00000405959	processed_pseudogene	KNOWN	None	None	None	None	153280494	153280740	-1	None	None
2	HES6	ENSG00000144485	ENST00000272937	protein_coding	KNOWN	CCDS2527	18254	675	224	239146908	239148765	-1	None	bHLHb41
2	HES6	ENSG00000144485	ENST00000409160	protein_coding	KNOWN	None	18254	645	214	239146911	239148679	-1	None	bHLHb41
2	HES6	ENSG00000144485	ENST00000409002	protein_coding	NOVEL	CCDS46556	18254	669	222	239146917	239148612	-1	None	bHLHb41
2	HES6	ENSG00000144485	ENST00000409182	protein_coding	NOVEL	None	18254	588	195	239147246	239148599	-1	None	bHLHb41
2	HES6	ENSG00000144485	ENST00000417803	protein_coding	PUTATIVE	None	18254	51	16	239147417	239148312	-1	None	bHLHb41
2	HES6	ENSG00000144485	ENST00000409574	protein_coding	PUTATIVE	None	18254	339	112	239147501	239148682	-1	None	bHLHb41
2	HES6	ENSG00000144485	ENST00000409356	protein_coding	PUTATIVE	None	18254	285	94	239147811	239148665	-1	None	bHLHb41
2	HES6	ENSG00000144485	ENST00000436051	protein_coding	PUTATIVE	None	18254	512	169	239147821	239149303	-1	None	bHLHb41
2	HES6	ENSG00000144485	ENST00000450098	protein_coding	PUTATIVE	None	18254	434	143	239147857	239148642	-1	None	bHLHb41
Y	TCEB1P26	ENSG00000236599	ENST00000436067	processed_pseudogene	KNOWN	None	38731	None	None	20340818	20341146	-1	None	None
X	None	ENSG00000226436	ENST00000416765	processed_pseudogene	KNOWN	None	None	None	None	28677182	28677586	-1	None	None
22	SEZ6L	ENSG00000100095	ENST00000404234	protein_coding	NOVEL	CCDS54508	10763	3072	1023	26565440	26776437	1	None	None
22	SEZ6L	ENSG00000100095	ENST00000360929	protein_coding	KNOWN	CCDS54511	10763	2850	949	26565480	26779562	1	None	None
22	SEZ6L	ENSG00000100095	ENST00000248933	protein_coding	KNOWN	CCDS13833	10763	3075	1024	26565541	26776339	1	None	None
22	SEZ6L	ENSG00000100095	ENST00000343706	protein_coding	KNOWN	CCDS54510	10763	2847	948	26565624	26776300	1	None	None
22	SEZ6L	ENSG00000100095	ENST00000403121	protein_coding	PUTATIVE	None	10763	2163	720	26688217	26776434	1	None	None
22	SEZ6L	ENSG00000100095	ENST00000402979	protein_coding	PUTATIVE	None	10763	2391	796	26688217	26776434	1	None	None
22	SEZ6L	ENSG00000100095	ENST00000483291	retained_intron	KNOWN	None	10763	None	None	26743755	26747422	1	None	None
22	SEZ6L	ENSG00000100095	ENST00000494013	processed_transcript	KNOWN	None	10763	None	None	26760715	26773686	1	None	None
22	SEZ6L	ENSG00000100095	ENST00000529632	protein_coding	KNOWN	CCDS54509	10763	3042	1013	26565440	26779555	1	None	None
22	SEZ6L	ENSG00000100095	ENST00000411842	protein_coding	KNOWN	None	10763	420	139	26743681	26776525	1	None	None
6	None	ENSG00000227627	ENST00000442269	antisense	KNOWN	None	None	None	None	153304885	153310358	1	None	None
5	LINC00604	ENSG00000250585	ENST00000508437	lincRNA	KNOWN	None	43924	None	None	40260759	40267759	1	None	None
X	None	ENSG00000201666	ENST00000364796	snoRNA	NOVEL	None	None	None	None	28942186	28942255	1	None	None
Y	CDY9P	ENSG00000232899	ENST00000451397	unprocessed_pseudogene	KNOWN	None	23851	None	None	20344721	20346300	-1	None	None
X	MYCLP1	ENSG00000204053	ENST00000372451	processed_pseudogene	KNOWN	None	7556	None	None	106515812	106516886	1	MYCL2, MYCL1P1	None
X	MYCLP1	ENSG00000204053	ENST00000544793	pseudogene	KNOWN	None	7556	None	None	106515812	106516888	1	MYCL2, MYCL1P1	None
1	NOL9	ENSG00000162408	ENST00000377705	protein_coding	KNOWN	CCDS80	26265	2109	702	6581407	6614595	-1	None	FLJ23323, NET6, Grc3
1	NOL9	ENSG00000162408	ENST00000464383	retained_intron	KNOWN	None	26265	None	None	6592055	6605077	-1	None	FLJ23323, NET6, Grc3
1	NOL9	ENSG00000162408	ENST00000462798	retained_intron	KNOWN	None	26265	None	None	6592289	6593445	-1	None	FLJ23323, NET6, Grc3
1	NOL9	ENSG00000162408	ENST00000460777	retained_intron	KNOWN	None	26265	None	None	6609316	6610548	-1	None	FLJ23323, NET6, Grc3
1	NOL9	ENSG00000162408	ENST00000464665	retained_intron	KNOWN	None	26265	None	None	6609422	6614560	-1	None	FLJ23323, NET6, Grc3
HSCHR6_MHC_QBL	C6orf10	ENSG00000206310	ENST00000399749	protein_coding	KNOWN	None	13922	1692	563	32218297	32297127	-1	None	TSBP
HSCHR6_MHC_QBL	C6orf10	ENSG00000206310	ENST00000383262	protein_coding	KNOWN	None	13922	1689	562	32218297	32297155	-1	None	TSBP
6	None	ENSG00000212101	ENST00000390812	miRNA	NOVEL	None	None	None	None	153373597	153373679	1	None	None
X	None	ENSG00000237994	ENST00000424251	sense_intronic	KNOWN	None	None	None	None	28960167	28960685	1	None	None
4	SMR3B	ENSG00000171201	ENST00000504825	protein_coding	KNOWN	CCDS3540	17326	240	79	71235810	71255623	1	PROL3	P-B, PRL3
4	SMR3B	ENSG00000171201	ENST00000304915	protein_coding	KNOWN	CCDS3540	17326	240	79	71248795	71255961	1	PROL3	P-B, PRL3
4	SMR3B	ENSG00000171201	ENST00000508027	retained_intron	KNOWN	None	17326	None	None	71248848	71250807	1	PROL3	P-B, PRL3
5	RNU1-150P	ENSG00000199361	ENST00000362491	snRNA	KNOWN	None	48492	None	None	40269660	40269821	1	None	None
6	RNA5SP224	ENSG00000201939	ENST00000365069	rRNA	KNOWN	None	43124	None	None	153480355	153480480	-1	RN5S224	None
5	None	ENSG00000265615	ENST00000583717	miRNA	NOVEL	None	None	None	None	40320420	40320517	1	None	None
1	None	ENSG00000231219	ENST00000431596	unprocessed_pseudogene	KNOWN	None	None	None	None	13379149	13381237	-1	None	None
Y	TAF9P2	ENSG00000229302	ENST00000454958	processed_pseudogene	KNOWN	None	31744	None	None	20438493	20439381	-1	None	None
5	None	ENSG00000199552	ENST00000362682	snoRNA	NOVEL	None	None	None	None	40655065	40655196	1	None	None
8	None	ENSG00000245857	ENST00000500823	lincRNA	KNOWN	None	None	None	None	6693076	6699979	1	None	None
8	None	ENSG00000245857	ENST00000531701	lincRNA	KNOWN	None	None	None	None	6699433	6742798	1	None	None
3	CPA3	ENSG00000163751	ENST00000296046	protein_coding	KNOWN	CCDS3138	2298	1254	417	148583043	148614983	1	None	None
3	CPA3	ENSG00000163751	ENST00000477926	retained_intron	KNOWN	None	2298	None	None	148599256	148614309	1	None	None
14	None	ENSG00000260830	ENST00000565098	antisense	KNOWN	None	None	None	None	21852451	21853079	1	None	None
2	C2orf76	ENSG00000186132	ENST00000409466	protein_coding	KNOWN	CCDS42739	27017	381	126	120059801	120124318	-1	None	MGC104437, LOC130355, AIM29
2	C2orf76	ENSG00000186132	ENST00000334816	protein_coding	KNOWN	CCDS42739	27017	381	126	120059804	120124404	-1	None	MGC104437, LOC130355, AIM29
2	C2orf76	ENSG00000186132	ENST00000409877	protein_coding	KNOWN	CCDS42739	27017	381	126	120060020	120124258	-1	None	MGC104437, LOC130355, AIM29
2	C2orf76	ENSG00000186132	ENST00000409523	protein_coding	KNOWN	CCDS42739	27017	381	126	120060020	120124258	-1	None	MGC104437, LOC130355, AIM29
2	C2orf76	ENSG00000186132	ENST00000414534	protein_coding	PUTATIVE	None	27017	256	84	120078745	120124339	-1	None	MGC104437, LOC130355, AIM29
2	C2orf76	ENSG00000186132	ENST00000498049	processed_transcript	KNOWN	None	27017	None	None	120096403	120124401	-1	None	MGC104437, LOC130355, AIM29
14	SNORD9	ENSG00000199436	ENST00000362566	snoRNA	KNOWN	None	32705	None	None	21860309	21860412	-1	None	mgU6-53B
10	None	ENSG00000255624	ENST00000368895	transcribed_processed_pseudogene	KNOWN	None	None	None	None	124639367	124657540	1	None	None
10	None	ENSG00000255624	ENST00000425266	processed_transcript	PUTATIVE	None	None	None	None	124647949	124657485	1	None	None
10	None	ENSG00000255624	ENST00000453301	processed_pseudogene	KNOWN	None	None	None	None	124643295	124658230	1	None	None
10	None	ENSG00000255624	ENST00000416234	processed_pseudogene	KNOWN	None	None	None	None	124639246	124657400	1	None	None
X	DNAJA1P3	ENSG00000215007	ENST00000399417	processed_pseudogene	KNOWN	None	39339	None	None	106594880	106596073	-1	None	None
19	ZNF264	ENSG00000083844	ENST00000263095	protein_coding	KNOWN	CCDS33127	13057	1884	627	57702868	57724724	1	None	KIAA0412
19	ZNF264	ENSG00000083844	ENST00000594126	protein_coding	KNOWN	None	13057	117	38	57702869	57705326	1	None	KIAA0412
19	ZNF264	ENSG00000083844	ENST00000600531	protein_coding	PUTATIVE	None	13057	255	84	57702869	57706337	1	None	KIAA0412
19	ZNF264	ENSG00000083844	ENST00000597447	protein_coding	NOVEL	None	13057	290	95	57702891	57722851	1	None	KIAA0412
19	ZNF264	ENSG00000083844	ENST00000599653	protein_coding	PUTATIVE	None	13057	195	64	57702905	57705537	1	None	KIAA0412
19	ZNF264	ENSG00000083844	ENST00000536056	protein_coding	KNOWN	CCDS33127	13057	1884	627	57703143	57724487	1	None	KIAA0412
20	ZNF337	ENSG00000130684	ENST00000376436	protein_coding	KNOWN	CCDS13174	15809	2256	751	25654851	25667593	-1	None	dJ694B14.1
20	ZNF337	ENSG00000130684	ENST00000252979	protein_coding	KNOWN	CCDS13174	15809	2256	751	25654851	25677477	-1	None	dJ694B14.1
20	ZNF337	ENSG00000130684	ENST00000481610	processed_transcript	KNOWN	None	15809	None	None	25657585	25677451	-1	None	dJ694B14.1
20	ZNF337	ENSG00000130684	ENST00000538750	protein_coding	KNOWN	None	15809	2160	719	25655647	25667346	-1	None	dJ694B14.1
10	ACTR1A	ENSG00000138107	ENST00000369905	protein_coding	KNOWN	CCDS7536	167	1131	376	104238986	104262468	-1	None	ARP1
10	ACTR1A	ENSG00000138107	ENST00000470322	processed_transcript	KNOWN	None	167	None	None	104238987	104243437	-1	None	ARP1
10	ACTR1A	ENSG00000138107	ENST00000487599	protein_coding	NOVEL	None	167	999	332	104238994	104262435	-1	None	ARP1
10	ACTR1A	ENSG00000138107	ENST00000494549	processed_transcript	KNOWN	None	167	None	None	104240552	104244131	-1	None	ARP1
10	ACTR1A	ENSG00000138107	ENST00000481044	processed_transcript	KNOWN	None	167	None	None	104242771	104262411	-1	None	ARP1
10	ACTR1A	ENSG00000138107	ENST00000480947	processed_transcript	KNOWN	None	167	None	None	104243831	104247990	-1	None	ARP1
10	ACTR1A	ENSG00000138107	ENST00000446605	protein_coding	KNOWN	None	167	990	329	104240351	104262466	-1	None	ARP1
10	ACTR1A	ENSG00000138107	ENST00000545684	protein_coding	KNOWN	None	167	909	302	104240331	104262482	-1	None	ARP1
3	None	ENSG00000223715	ENST00000434969	lincRNA	KNOWN	None	None	None	None	176321931	176353320	-1	None	None
3	None	ENSG00000223715	ENST00000421034	lincRNA	KNOWN	None	None	None	None	176344067	176352245	-1	None	None
16	NMRAL1	ENSG00000153406	ENST00000283429	protein_coding	KNOWN	CCDS10516	24987	900	299	4511681	4524896	-1	None	FLJ25918, HSCARG, SDR48A1
16	NMRAL1	ENSG00000153406	ENST00000574733	protein_coding	KNOWN	CCDS10516	24987	900	299	4511692	4526307	-1	None	FLJ25918, HSCARG, SDR48A1
16	NMRAL1	ENSG00000153406	ENST00000571448	nonsense_mediated_decay	KNOWN	None	24987	480	159	4511693	4516406	-1	None	FLJ25918, HSCARG, SDR48A1
16	NMRAL1	ENSG00000153406	ENST00000572232	protein_coding	NOVEL	None	24987	573	190	4511695	4516337	-1	None	FLJ25918, HSCARG, SDR48A1
16	NMRAL1	ENSG00000153406	ENST00000404295	protein_coding	KNOWN	CCDS10516	24987	900	299	4511695	4524623	-1	None	FLJ25918, HSCARG, SDR48A1
16	NMRAL1	ENSG00000153406	ENST00000574425	protein_coding	KNOWN	CCDS10516	24987	900	299	4511696	4524644	-1	None	FLJ25918, HSCARG, SDR48A1
16	NMRAL1	ENSG00000153406	ENST00000572110	protein_coding	NOVEL	None	24987	375	124	4511700	4516175	-1	None	FLJ25918, HSCARG, SDR48A1
16	NMRAL1	ENSG00000153406	ENST00000573533	retained_intron	KNOWN	None	24987	None	None	4511786	4514241	-1	None	FLJ25918, HSCARG, SDR48A1
16	NMRAL1	ENSG00000153406	ENST00000576176	protein_coding	PUTATIVE	None	24987	672	223	4513569	4519366	-1	None	FLJ25918, HSCARG, SDR48A1
16	NMRAL1	ENSG00000153406	ENST00000571291	nonsense_mediated_decay	KNOWN	None	24987	126	41	4513744	4526298	-1	None	FLJ25918, HSCARG, SDR48A1
16	NMRAL1	ENSG00000153406	ENST00000572391	processed_transcript	KNOWN	None	24987	None	None	4513804	4519686	-1	None	FLJ25918, HSCARG, SDR48A1
16	NMRAL1	ENSG00000153406	ENST00000573520	nonsense_mediated_decay	KNOWN	None	24987	174	57	4516164	4524652	-1	None	FLJ25918, HSCARG, SDR48A1
16	NMRAL1	ENSG00000153406	ENST00000573571	protein_coding	NOVEL	None	24987	564	187	4516212	4524543	-1	None	FLJ25918, HSCARG, SDR48A1
16	NMRAL1	ENSG00000153406	ENST00000575002	processed_transcript	KNOWN	None	24987	None	None	4517006	4524626	-1	None	FLJ25918, HSCARG, SDR48A1
16	NMRAL1	ENSG00000153406	ENST00000575557	processed_transcript	KNOWN	None	24987	None	None	4519392	4524556	-1	None	FLJ25918, HSCARG, SDR48A1
16	NMRAL1	ENSG00000153406	ENST00000576935	processed_transcript	KNOWN	None	24987	None	None	4519444	4524456	-1	None	FLJ25918, HSCARG, SDR48A1
16	NMRAL1	ENSG00000153406	ENST00000575995	processed_transcript	KNOWN	None	24987	None	None	4519631	4524557	-1	None	FLJ25918, HSCARG, SDR48A1
16	NMRAL1	ENSG00000153406	ENST00000572559	processed_transcript	KNOWN	None	24987	None	None	4524685	4545764	-1	None	FLJ25918, HSCARG, SDR48A1
14	SNORD8	ENSG00000200785	ENST00000363915	snoRNA	KNOWN	None	20159	None	None	21865451	21865560	-1	RNU6C	mgU6-53
8	None	ENSG00000250752	ENST00000514593	processed_pseudogene	KNOWN	None	None	None	None	6756400	6756990	-1	None	None
16	None	ENSG00000259791	ENST00000566449	lincRNA	KNOWN	None	None	None	None	34874400	34874953	1	None	None
17	IGF2BP1	ENSG00000159217	ENST00000290341	protein_coding	KNOWN	CCDS11543	28866	1734	577	47074774	47133012	1	None	IMP-1
17	IGF2BP1	ENSG00000159217	ENST00000510023	processed_transcript	PUTATIVE	None	28866	None	None	47074848	47082220	1	None	IMP-1
17	IGF2BP1	ENSG00000159217	ENST00000431824	protein_coding	NOVEL	CCDS54138	28866	1317	438	47075108	47126806	1	None	IMP-1
17	IGF2BP1	ENSG00000159217	ENST00000515586	processed_transcript	KNOWN	None	28866	None	None	47075125	47114295	1	None	IMP-1
17	IGF2BP1	ENSG00000159217	ENST00000499130	processed_transcript	KNOWN	None	28866	None	None	47091279	47114195	1	None	IMP-1
17	IGF2BP1	ENSG00000159217	ENST00000505562	retained_intron	KNOWN	None	28866	None	None	47103754	47115800	1	None	IMP-1
1	RNU6-771P	ENSG00000207511	ENST00000384780	snRNA	KNOWN	None	47734	None	None	13384735	13384841	-1	None	None
16	None	ENSG00000260522	ENST00000565935	processed_pseudogene	KNOWN	None	None	None	None	34956639	34956900	-1	None	None
14	None	ENSG00000241035	ENST00000480068	processed_pseudogene	KNOWN	None	None	None	None	21867084	21867441	1	None	None
3	None	ENSG00000232461	ENST00000428516	lincRNA	KNOWN	None	None	None	None	176361729	176585626	-1	None	None
4	PROL1	ENSG00000171199	ENST00000399575	protein_coding	PUTATIVE	CCDS43235	17279	747	248	71263599	71275911	1	None	BPLP, PRL1, opiorphin
4	PROL1	ENSG00000171199	ENST00000514338	processed_transcript	KNOWN	None	17279	None	None	71263648	71275609	1	None	BPLP, PRL1, opiorphin
4	PROL1	ENSG00000171199	ENST00000505023	processed_transcript	KNOWN	None	17279	None	None	71263682	71275625	1	None	BPLP, PRL1, opiorphin
14	EIF4EBP1P1	ENSG00000258870	ENST00000557776	processed_pseudogene	KNOWN	None	20160	None	None	21887779	21888119	1	EIF4EBP1P	None
Y	UTY	ENSG00000183878	ENST00000331397	protein_coding	KNOWN	CCDS14783	12638	4044	1347	15360259	15592553	-1	None	None
Y	UTY	ENSG00000183878	ENST00000362096	protein_coding	KNOWN	CCDS14784	12638	3723	1240	15409321	15592550	-1	None	None
Y	UTY	ENSG00000183878	ENST00000329134	protein_coding	KNOWN	CCDS14785	12638	3240	1079	15434914	15592550	-1	None	None
Y	UTY	ENSG00000183878	ENST00000478900	processed_transcript	KNOWN	None	12638	None	None	15472368	15591420	-1	None	None
Y	UTY	ENSG00000183878	ENST00000474365	processed_transcript	KNOWN	None	12638	None	None	15505032	15591384	-1	None	None
Y	UTY	ENSG00000183878	ENST00000382893	protein_coding	KNOWN	None	12638	624	207	15508182	15591858	-1	None	None
Y	UTY	ENSG00000183878	ENST00000479713	processed_transcript	PUTATIVE	None	12638	None	None	15590922	15591803	-1	None	None
Y	UTY	ENSG00000183878	ENST00000382896	protein_coding	KNOWN	CCDS59184	12638	4179	1392	15361736	15591545	-1	None	None
Y	UTY	ENSG00000183878	ENST00000537580	protein_coding	KNOWN	CCDS59185	12638	3636	1211	15361736	15591545	-1	None	None
Y	UTY	ENSG00000183878	ENST00000538878	protein_coding	KNOWN	None	12638	3141	1046	15434927	15591551	-1	None	None
Y	UTY	ENSG00000183878	ENST00000540140	protein_coding	KNOWN	None	12638	3018	1005	15434948	15591545	-1	None	None
Y	UTY	ENSG00000183878	ENST00000545955	protein_coding	KNOWN	None	12638	3210	1069	15435435	15591545	-1	None	None
9	None	ENSG00000228522	ENST00000444603	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	67285298	67293727	1	None	None
9	None	ENSG00000228522	ENST00000432011	processed_transcript	KNOWN	None	None	None	None	67289570	67298632	1	None	None
3	RNA5SP147	ENSG00000252302	ENST00000516493	rRNA	KNOWN	None	43047	None	None	176481021	176481129	1	RN5S147	None
9	MLLT3	ENSG00000171843	ENST00000380338	protein_coding	KNOWN	CCDS6494	7136	1707	568	20341663	20622542	-1	None	AF-9, AF9, YEATS3
9	MLLT3	ENSG00000171843	ENST00000380323	processed_transcript	KNOWN	None	7136	None	None	20345075	20382485	-1	None	AF-9, AF9, YEATS3
9	MLLT3	ENSG00000171843	ENST00000469261	processed_transcript	KNOWN	None	7136	None	None	20346291	20363567	-1	None	AF-9, AF9, YEATS3
9	MLLT3	ENSG00000171843	ENST00000488705	processed_transcript	KNOWN	None	7136	None	None	20346351	20382469	-1	None	AF-9, AF9, YEATS3
9	MLLT3	ENSG00000171843	ENST00000380321	protein_coding	KNOWN	None	7136	489	162	20346404	20382467	-1	None	AF-9, AF9, YEATS3
9	MLLT3	ENSG00000171843	ENST00000468513	processed_transcript	KNOWN	None	7136	None	None	20360740	20411960	-1	None	AF-9, AF9, YEATS3
9	MLLT3	ENSG00000171843	ENST00000491137	processed_transcript	KNOWN	None	7136	None	None	20360751	20382450	-1	None	AF-9, AF9, YEATS3
9	MLLT3	ENSG00000171843	ENST00000475957	processed_transcript	KNOWN	None	7136	None	None	20362703	20622439	-1	None	AF-9, AF9, YEATS3
9	MLLT3	ENSG00000171843	ENST00000429426	protein_coding	KNOWN	None	7136	1698	565	20346197	20621872	-1	None	AF-9, AF9, YEATS3
9	MLLT3	ENSG00000171843	ENST00000355930	protein_coding	KNOWN	None	7136	417	138	20344968	20622514	-1	None	AF-9, AF9, YEATS3
X	KRT18P49	ENSG00000214720	ENST00000427083	processed_pseudogene	KNOWN	None	33419	None	None	106671860	106672691	1	None	None
16	RNA5SP406	ENSG00000251915	ENST00000516106	rRNA	KNOWN	None	43306	None	None	34968764	34968875	1	RN5S406	None
8	None	ENSG00000250290	ENST00000505112	processed_pseudogene	KNOWN	None	None	None	None	121647798	121650444	-1	None	None
16	RNA5SP407	ENSG00000222207	ENST00000410275	rRNA	KNOWN	None	43307	None	None	34969010	34969119	1	RN5S407	None
19	SLC25A42	ENSG00000181035	ENST00000318596	protein_coding	KNOWN	CCDS32966	28380	957	318	19174808	19223697	1	None	MGC26694
19	SLC25A42	ENSG00000181035	ENST00000597661	retained_intron	KNOWN	None	28380	None	None	19174827	19217259	1	None	MGC26694
19	SLC25A42	ENSG00000181035	ENST00000594070	retained_intron	KNOWN	None	28380	None	None	19206752	19217743	1	None	MGC26694
19	SLC25A42	ENSG00000181035	ENST00000600275	processed_transcript	KNOWN	None	28380	None	None	19212590	19218797	1	None	MGC26694
19	SLC25A42	ENSG00000181035	ENST00000600251	retained_intron	KNOWN	None	28380	None	None	19212604	19216043	1	None	MGC26694
19	SLC25A42	ENSG00000181035	ENST00000596819	retained_intron	KNOWN	None	28380	None	None	19216672	19221455	1	None	MGC26694
16	RNA5SP408	ENSG00000251924	ENST00000516115	rRNA	KNOWN	None	43308	None	None	34969743	34969842	1	RN5S408	None
8	None	ENSG00000248318	ENST00000509350	antisense	KNOWN	None	None	None	None	121773493	121789072	1	None	None
16	None	ENSG00000260983	ENST00000568714	lincRNA	KNOWN	None	None	None	None	76262283	76296263	-1	None	None
16	RNA5SP409	ENSG00000252624	ENST00000516815	rRNA	KNOWN	None	43309	None	None	34969996	34970104	1	RN5S409	None
4	UNC5C	ENSG00000182168	ENST00000453304	protein_coding	KNOWN	CCDS3643	12569	2796	931	96083655	96470357	-1	None	None
4	UNC5C	ENSG00000182168	ENST00000513796	protein_coding	NOVEL	None	12569	2235	744	96106306	96470123	-1	None	None
4	UNC5C	ENSG00000182168	ENST00000506749	protein_coding	NOVEL	None	12569	1794	597	96137194	96470357	-1	None	None
4	UNC5C	ENSG00000182168	ENST00000504962	protein_coding	PUTATIVE	None	12569	783	260	96169097	96470351	-1	None	None
9	SCAI	ENSG00000173611	ENST00000336505	protein_coding	KNOWN	CCDS48017	26709	1821	606	127714380	127905775	-1	C9orf126	FLJ36664, NET40
9	SCAI	ENSG00000173611	ENST00000477186	nonsense_mediated_decay	KNOWN	None	26709	1473	490	127715067	127905766	-1	C9orf126	FLJ36664, NET40
9	SCAI	ENSG00000173611	ENST00000373549	protein_coding	KNOWN	CCDS43877	26709	1890	629	127715067	127905775	-1	C9orf126	FLJ36664, NET40
9	SCAI	ENSG00000173611	ENST00000467917	nonsense_mediated_decay	KNOWN	None	26709	265	87	127715148	127762202	-1	C9orf126	FLJ36664, NET40
9	SCAI	ENSG00000173611	ENST00000494102	nonsense_mediated_decay	KNOWN	None	26709	99	32	127733537	127738465	-1	C9orf126	FLJ36664, NET40
9	SCAI	ENSG00000173611	ENST00000487795	processed_transcript	KNOWN	None	26709	None	None	127762190	127765969	-1	C9orf126	FLJ36664, NET40
9	SCAI	ENSG00000173611	ENST00000468569	retained_intron	KNOWN	None	26709	None	None	127904533	127905785	-1	C9orf126	FLJ36664, NET40
6	None	ENSG00000269293	ENST00000600652	antisense	KNOWN	None	None	None	None	28089573	28105071	-1	None	None
6	None	ENSG00000269293	ENST00000602810	antisense	KNOWN	None	None	None	None	28089576	28104644	-1	None	None
5	HARS2	ENSG00000112855	ENST00000230771	protein_coding	KNOWN	CCDS4238	4817	1521	506	140071011	140078876	1	HARSL	HO3, HARSR
5	HARS2	ENSG00000112855	ENST00000520095	nonsense_mediated_decay	KNOWN	None	4817	300	99	140071015	140075355	1	HARSL	HO3, HARSR
5	HARS2	ENSG00000112855	ENST00000510104	nonsense_mediated_decay	KNOWN	None	4817	300	99	140071016	140075929	1	HARSL	HO3, HARSR
5	HARS2	ENSG00000112855	ENST00000509299	protein_coding	PUTATIVE	None	4817	544	180	140071038	140075219	1	HARSL	HO3, HARSR
5	HARS2	ENSG00000112855	ENST00000511913	retained_intron	KNOWN	None	4817	None	None	140071040	140073876	1	HARSL	HO3, HARSR
5	HARS2	ENSG00000112855	ENST00000503873	protein_coding	PUTATIVE	None	4817	350	115	140071043	140073798	1	HARSL	HO3, HARSR
5	HARS2	ENSG00000112855	ENST00000502303	processed_transcript	KNOWN	None	4817	None	None	140071053	140075153	1	HARSL	HO3, HARSR
5	HARS2	ENSG00000112855	ENST00000513912	retained_intron	KNOWN	None	4817	None	None	140071099	140073388	1	HARSL	HO3, HARSR
5	HARS2	ENSG00000112855	ENST00000506318	retained_intron	KNOWN	None	4817	None	None	140071148	140073572	1	HARSL	HO3, HARSR
5	HARS2	ENSG00000112855	ENST00000508522	protein_coding	NOVEL	None	4817	1446	481	140071194	140078213	1	HARSL	HO3, HARSR
5	HARS2	ENSG00000112855	ENST00000448069	protein_coding	NOVEL	None	4817	1005	334	140071199	140078523	1	HARSL	HO3, HARSR
5	HARS2	ENSG00000112855	ENST00000513688	retained_intron	KNOWN	None	4817	None	None	140073061	140075741	1	HARSL	HO3, HARSR
5	HARS2	ENSG00000112855	ENST00000435019	protein_coding	KNOWN	None	4817	1401	466	140071047	140078889	1	HARSL	HO3, HARSR
5	HARS2	ENSG00000112855	ENST00000437649	protein_coding	KNOWN	None	4817	1299	432	140071047	140078889	1	HARSL	HO3, HARSR
5	HARS2	ENSG00000112855	ENST00000432671	protein_coding	KNOWN	None	4817	1179	392	140071047	140078889	1	HARSL	HO3, HARSR
9	None	ENSG00000237238	ENST00000443754	unprocessed_pseudogene	KNOWN	None	None	None	None	67327775	67334983	-1	None	None
1	None	ENSG00000237700	ENST00000437300	unitary_pseudogene	KNOWN	None	None	None	None	13411551	13414482	1	None	None
8	None	ENSG00000254625	ENST00000526235	antisense	KNOWN	None	None	None	None	6786130	6787995	1	None	None
15	SCARNA15	ENSG00000252690	ENST00000607520	retained_intron	KNOWN	None	32572	None	None	83421636	83425960	1	None	ACA45
15	SCARNA15	ENSG00000252690	ENST00000516881	snoRNA	KNOWN	None	32572	None	None	83424697	83424823	1	None	ACA45
2	RPL31	ENSG00000071082	ENST00000264258	protein_coding	KNOWN	CCDS2049	10334	378	125	101618177	101623729	1	None	L31
2	RPL31	ENSG00000071082	ENST00000409000	protein_coding	PUTATIVE	None	10334	240	79	101618691	101621066	1	None	L31
2	RPL31	ENSG00000071082	ENST00000409028	protein_coding	PUTATIVE	CCDS46373	10334	387	128	101618745	101636190	1	None	L31
2	RPL31	ENSG00000071082	ENST00000409320	protein_coding	KNOWN	CCDS46374	10334	366	121	101618755	101622880	1	None	L31
2	RPL31	ENSG00000071082	ENST00000409733	protein_coding	KNOWN	CCDS2049	10334	378	125	101618755	101622881	1	None	L31
2	RPL31	ENSG00000071082	ENST00000409650	protein_coding	PUTATIVE	None	10334	363	120	101618755	101634751	1	None	L31
2	RPL31	ENSG00000071082	ENST00000409038	protein_coding	PUTATIVE	None	10334	393	130	101618755	101634768	1	None	L31
2	RPL31	ENSG00000071082	ENST00000419276	nonsense_mediated_decay	KNOWN	None	10334	240	79	101618773	101622885	1	None	L31
2	RPL31	ENSG00000071082	ENST00000456292	protein_coding	KNOWN	None	10334	346	114	101619153	101622533	1	None	L31
2	RPL31	ENSG00000071082	ENST00000409711	protein_coding	PUTATIVE	None	10334	240	79	101619153	101622829	1	None	L31
2	RPL31	ENSG00000071082	ENST00000441435	protein_coding	PUTATIVE	None	10334	326	107	101619201	101640494	1	None	L31
16	RPL18P13	ENSG00000244485	ENST00000478088	processed_pseudogene	KNOWN	None	35599	None	None	76268953	76269521	-1	None	None
16	None	ENSG00000261122	ENST00000562769	lincRNA	KNOWN	None	None	None	None	34977639	34989997	1	None	None
16	None	ENSG00000261122	ENST00000566900	lincRNA	KNOWN	None	None	None	None	34980923	34990886	1	None	None
16	None	ENSG00000261122	ENST00000565625	lincRNA	KNOWN	None	None	None	None	34982728	34990167	1	None	None
16	None	ENSG00000261122	ENST00000516136	rRNA	KNOWN	None	None	None	None	34980894	34981007	1	None	None
16	None	ENSG00000261122	ENST00000516234	rRNA	KNOWN	None	None	None	None	34981143	34981265	1	None	None
16	None	ENSG00000261122	ENST00000516580	rRNA	KNOWN	None	None	None	None	34982891	34983026	1	None	None
8	None	ENSG00000272502	ENST00000605955	antisense	KNOWN	None	None	None	None	121824459	121825599	1	None	None
9	None	ENSG00000255036	ENST00000375206	processed_transcript	KNOWN	None	None	None	None	100000779	100139569	1	None	None
9	None	ENSG00000255036	ENST00000534123	processed_transcript	KNOWN	None	None	None	None	100013111	100139380	1	None	None
9	None	ENSG00000255036	ENST00000532526	processed_transcript	KNOWN	None	None	None	None	100013111	100139380	1	None	None
9	None	ENSG00000255036	ENST00000529787	processed_transcript	KNOWN	None	None	None	None	100052874	100139215	1	None	None
16	RN7SKP233	ENSG00000252814	ENST00000517005	misc_RNA	KNOWN	None	45957	None	None	76321527	76321636	1	None	None
6	None	ENSG00000218426	ENST00000492974	processed_pseudogene	KNOWN	None	None	None	None	153603422	153603868	-1	None	None
6	None	ENSG00000261839	ENST00000565046	lincRNA	KNOWN	None	None	None	None	28104627	28107456	1	None	None
16	None	ENSG00000264645	ENST00000580124	miRNA	NOVEL	None	None	None	None	76413923	76414056	1	None	None
2	GPATCH11	ENSG00000152133	ENST00000409774	protein_coding	KNOWN	CCDS1785	26768	780	259	37311594	37326387	1	CCDC75	FLJ38348, CENPY, CENP-Y
2	GPATCH11	ENSG00000152133	ENST00000281932	protein_coding	KNOWN	None	26768	471	156	37311661	37326387	1	CCDC75	FLJ38348, CENPY, CENP-Y
2	GPATCH11	ENSG00000152133	ENST00000473067	retained_intron	KNOWN	None	26768	None	None	37315507	37321467	1	CCDC75	FLJ38348, CENPY, CENP-Y
15	None	ENSG00000259805	ENST00000566841	antisense	KNOWN	None	None	None	None	83594636	83772195	1	None	None
16	None	ENSG00000252022	ENST00000516213	snoRNA	NOVEL	None	None	None	None	76503405	76503492	-1	None	None
X	NANOGP9	ENSG00000231809	ENST00000439890	processed_pseudogene	KNOWN	None	23107	None	None	64992583	64993474	-1	None	None
9	None	ENSG00000230867	ENST00000424561	processed_pseudogene	KNOWN	None	None	None	None	32727067	32727520	-1	None	None
15	None	ENSG00000260608	ENST00000570202	antisense	KNOWN	None	None	None	None	83681413	83730597	1	None	None
6	None	ENSG00000237312	ENST00000436953	lincRNA	KNOWN	None	None	None	None	153625730	153630117	-1	None	None
16	None	ENSG00000250514	ENST00000512279	lincRNA	KNOWN	None	None	None	None	76668895	76692375	1	None	None
8	None	ENSG00000253619	ENST00000517739	lincRNA	KNOWN	None	None	None	None	121925305	122131994	1	None	None
1	NUF2	ENSG00000143228	ENST00000534289	protein_coding	KNOWN	None	14621	373	123	163236366	163306576	1	CDCA1	NUF2R, CT106
1	NUF2	ENSG00000143228	ENST00000450453	protein_coding	KNOWN	None	14621	435	144	163291680	163306638	1	CDCA1	NUF2R, CT106
1	NUF2	ENSG00000143228	ENST00000524800	protein_coding	NOVEL	None	14621	1254	417	163291690	163325517	1	CDCA1	NUF2R, CT106
1	NUF2	ENSG00000143228	ENST00000442820	protein_coding	KNOWN	None	14621	606	201	163291725	163309267	1	CDCA1	NUF2R, CT106
1	NUF2	ENSG00000143228	ENST00000367900	protein_coding	KNOWN	CCDS1245	14621	1395	464	163291725	163325554	1	CDCA1	NUF2R, CT106
1	NUF2	ENSG00000143228	ENST00000271452	protein_coding	KNOWN	CCDS1245	14621	1395	464	163291744	163325554	1	CDCA1	NUF2R, CT106
1	NUF2	ENSG00000143228	ENST00000490881	processed_transcript	KNOWN	None	14621	None	None	163291754	163307883	1	CDCA1	NUF2R, CT106
1	NUF2	ENSG00000143228	ENST00000487578	retained_intron	KNOWN	None	14621	None	None	163291776	163298351	1	CDCA1	NUF2R, CT106
1	NUF2	ENSG00000143228	ENST00000497990	nonsense_mediated_decay	KNOWN	None	14621	666	221	163291836	163315508	1	CDCA1	NUF2R, CT106
1	NUF2	ENSG00000143228	ENST00000527439	retained_intron	KNOWN	None	14621	None	None	163307805	163316030	1	CDCA1	NUF2R, CT106
1	NUF2	ENSG00000143228	ENST00000527120	retained_intron	KNOWN	None	14621	None	None	163309071	163313613	1	CDCA1	NUF2R, CT106
1	NUF2	ENSG00000143228	ENST00000531529	retained_intron	KNOWN	None	14621	None	None	163310045	163313605	1	CDCA1	NUF2R, CT106
HSCHR5_1_CTG1	CDK7	ENSG00000262841	ENST00000571061	protein_coding	PUTATIVE	None	1778	448	148	68530666	68568715	1	None	CAK1, CDKN7, MO15, STK1, CAK
HSCHR5_1_CTG1	CDK7	ENSG00000262841	ENST00000575932	retained_intron	KNOWN	None	1778	None	None	68530686	68551848	1	None	CAK1, CDKN7, MO15, STK1, CAK
HSCHR5_1_CTG1	CDK7	ENSG00000262841	ENST00000571640	protein_coding	KNOWN	None	1778	1041	346	68530698	68573234	1	None	CAK1, CDKN7, MO15, STK1, CAK
HSCHR5_1_CTG1	CDK7	ENSG00000262841	ENST00000574774	nonsense_mediated_decay	KNOWN	None	1778	234	77	68530704	68565112	1	None	CAK1, CDKN7, MO15, STK1, CAK
HSCHR5_1_CTG1	CDK7	ENSG00000262841	ENST00000573813	retained_intron	KNOWN	None	1778	None	None	68530708	68531320	1	None	CAK1, CDKN7, MO15, STK1, CAK
HSCHR5_1_CTG1	CDK7	ENSG00000262841	ENST00000574222	nonsense_mediated_decay	KNOWN	None	1778	168	55	68530712	68555701	1	None	CAK1, CDKN7, MO15, STK1, CAK
HSCHR5_1_CTG1	CDK7	ENSG00000262841	ENST00000572069	nonsense_mediated_decay	KNOWN	None	1778	177	58	68530717	68558032	1	None	CAK1, CDKN7, MO15, STK1, CAK
HSCHR5_1_CTG1	CDK7	ENSG00000262841	ENST00000576181	nonsense_mediated_decay	KNOWN	None	1778	132	43	68530723	68568762	1	None	CAK1, CDKN7, MO15, STK1, CAK
HSCHR5_1_CTG1	CDK7	ENSG00000262841	ENST00000573963	protein_coding	NOVEL	None	1778	930	309	68530737	68573116	1	None	CAK1, CDKN7, MO15, STK1, CAK
HSCHR5_1_CTG1	CDK7	ENSG00000262841	ENST00000576893	nonsense_mediated_decay	KNOWN	None	1778	177	58	68530783	68558119	1	None	CAK1, CDKN7, MO15, STK1, CAK
HSCHR5_1_CTG1	CDK7	ENSG00000262841	ENST00000570502	nonsense_mediated_decay	KNOWN	None	1778	210	69	68530794	68572380	1	None	CAK1, CDKN7, MO15, STK1, CAK
HSCHR5_1_CTG1	CDK7	ENSG00000262841	ENST00000571967	protein_coding	PUTATIVE	None	1778	762	253	68530942	68573149	1	None	CAK1, CDKN7, MO15, STK1, CAK
HSCHR5_1_CTG1	CDK7	ENSG00000262841	ENST00000570332	processed_transcript	KNOWN	None	1778	None	None	68530968	68568807	1	None	CAK1, CDKN7, MO15, STK1, CAK
6	None	ENSG00000264321	ENST00000585146	miRNA	NOVEL	None	None	None	None	153665248	153665350	1	None	None
6	ZNF192P1	ENSG00000226314	ENST00000440790	processed_transcript	KNOWN	None	18777	None	None	28129559	28137372	1	ZNF389	dJ265C24.4, ZNF389P
6	ZNF192P1	ENSG00000226314	ENST00000570126	retained_intron	KNOWN	None	18777	None	None	28129570	28131289	1	ZNF389	dJ265C24.4, ZNF389P
6	ZNF192P1	ENSG00000226314	ENST00000570042	retained_intron	KNOWN	None	18777	None	None	28130196	28134416	1	ZNF389	dJ265C24.4, ZNF389P
6	ZNF192P1	ENSG00000226314	ENST00000562227	processed_transcript	KNOWN	None	18777	None	None	28130401	28134936	1	ZNF389	dJ265C24.4, ZNF389P
6	ZNF192P1	ENSG00000226314	ENST00000565888	transcribed_unprocessed_pseudogene	KNOWN	None	18777	None	None	28134337	28135146	1	ZNF389	dJ265C24.4, ZNF389P
9	None	ENSG00000223408	ENST00000441326	lincRNA	KNOWN	None	None	None	None	67579807	67583159	-1	None	None
X	None	ENSG00000233833	ENST00000430422	processed_pseudogene	KNOWN	None	None	None	None	65014187	65015677	1	None	None
9	None	ENSG00000221696	ENST00000408769	miRNA	NOVEL	None	None	None	None	32764294	32764420	1	None	None
7	STYXL1	ENSG00000127952	ENST00000359697	protein_coding	KNOWN	CCDS5580	18165	942	313	75625660	75677281	-1	DUSP24	MK-STYX
7	STYXL1	ENSG00000127952	ENST00000340062	protein_coding	KNOWN	None	18165	654	217	75625660	75677301	-1	DUSP24	MK-STYX
7	STYXL1	ENSG00000127952	ENST00000430497	nonsense_mediated_decay	KNOWN	None	18165	205	67	75625684	75657990	-1	DUSP24	MK-STYX
7	STYXL1	ENSG00000127952	ENST00000438695	nonsense_mediated_decay	KNOWN	None	18165	205	67	75625684	75657990	-1	DUSP24	MK-STYX
7	STYXL1	ENSG00000127952	ENST00000431581	protein_coding	KNOWN	CCDS5580	18165	942	313	75625727	75677271	-1	DUSP24	MK-STYX
7	STYXL1	ENSG00000127952	ENST00000454618	protein_coding	NOVEL	None	18165	663	220	75625817	75657989	-1	DUSP24	MK-STYX
7	STYXL1	ENSG00000127952	ENST00000451157	protein_coding	PUTATIVE	None	18165	849	282	75627863	75677298	-1	DUSP24	MK-STYX
7	STYXL1	ENSG00000127952	ENST00000474328	retained_intron	KNOWN	None	18165	None	None	75633057	75677306	-1	DUSP24	MK-STYX
7	STYXL1	ENSG00000127952	ENST00000460184	processed_transcript	KNOWN	None	18165	None	None	75643071	75677322	-1	DUSP24	MK-STYX
7	STYXL1	ENSG00000127952	ENST00000248600	protein_coding	KNOWN	CCDS5580	18165	942	313	75625656	75677321	-1	DUSP24	MK-STYX
7	STYXL1	ENSG00000127952	ENST00000360591	protein_coding	KNOWN	None	18165	339	112	75625661	75677301	-1	DUSP24	MK-STYX
15	None	ENSG00000249214	ENST00000328906	pseudogene	NOVEL	None	None	None	None	83684154	83684448	1	None	None
6	None	ENSG00000264858	ENST00000582349	miRNA	NOVEL	None	None	None	None	153740156	153740225	-1	None	None
16	None	ENSG00000259995	ENST00000567777	lincRNA	KNOWN	None	None	None	None	76770239	76962066	1	None	None
HSCHR6_MHC_QBL	BTNL2	ENSG00000229597	ENST00000458581	protein_coding	KNOWN	None	1142	636	211	32318107	32321541	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_QBL	BTNL2	ENSG00000229597	ENST00000422056	protein_coding	KNOWN	None	1142	777	258	32326972	32332375	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_QBL	BTNL2	ENSG00000229597	ENST00000446311	protein_coding	KNOWN	None	1142	326	107	32330271	32332375	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_QBL	BTNL2	ENSG00000229597	ENST00000552394	protein_coding	KNOWN	None	1142	1167	388	32319207	32332368	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_QBL	BTNL2	ENSG00000229597	ENST00000550531	protein_coding	KNOWN	None	1142	1368	455	32319974	32332368	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_QBL	BTNL2	ENSG00000229597	ENST00000551868	protein_coding	KNOWN	None	1142	738	245	32319974	32332368	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_QBL	BTNL2	ENSG00000229597	ENST00000547502	protein_coding	KNOWN	None	1142	738	245	32319974	32332368	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_QBL	BTNL2	ENSG00000229597	ENST00000550698	protein_coding	KNOWN	None	1142	537	178	32319974	32332368	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_QBL	BTNL2	ENSG00000229597	ENST00000551101	protein_coding	KNOWN	None	1142	816	271	32319974	32332368	-1	None	HSBLMHC1, BTL-II
9	None	ENSG00000272113	ENST00000607168	misc_RNA	NOVEL	None	None	None	None	32820249	32820356	1	None	None
8	None	ENSG00000252093	ENST00000516284	miRNA	NOVEL	None	None	None	None	122081628	122081814	1	None	None
6	RNA5SP225	ENSG00000222806	ENST00000410874	rRNA	KNOWN	None	43125	None	None	153741573	153741707	1	RN5S225	None
15	None	ENSG00000259767	ENST00000560450	sense_intronic	KNOWN	None	None	None	None	83690988	83693088	-1	None	None
16	MIR4719	ENSG00000266426	ENST00000585233	miRNA	KNOWN	None	41807	None	None	76902833	76902916	1	None	hsa-mir-4719
6	None	ENSG00000217160	ENST00000402702	processed_pseudogene	KNOWN	None	None	None	None	153986842	153987525	1	None	None
9	None	ENSG00000236796	ENST00000448273	unprocessed_pseudogene	KNOWN	None	None	None	None	32836573	32869593	-1	None	None
9	None	ENSG00000199432	ENST00000362562	misc_RNA	NOVEL	None	None	None	None	67764522	67764633	1	None	None
7	STX1A	ENSG00000106089	ENST00000222812	protein_coding	KNOWN	CCDS34655	11433	867	288	73113536	73133988	-1	STX1	HPC-1, p35-1
7	STX1A	ENSG00000106089	ENST00000395156	protein_coding	PUTATIVE	CCDS55120	11433	756	251	73113536	73133989	-1	STX1	HPC-1, p35-1
7	STX1A	ENSG00000106089	ENST00000484736	processed_transcript	PUTATIVE	None	11433	None	None	73114089	73115261	-1	STX1	HPC-1, p35-1
7	STX1A	ENSG00000106089	ENST00000480126	processed_transcript	KNOWN	None	11433	None	None	73114617	73118589	-1	STX1	HPC-1, p35-1
7	STX1A	ENSG00000106089	ENST00000491645	processed_transcript	PUTATIVE	None	11433	None	None	73114646	73115540	-1	STX1	HPC-1, p35-1
7	STX1A	ENSG00000106089	ENST00000395154	protein_coding	PUTATIVE	None	11433	843	280	73115059	73133987	-1	STX1	HPC-1, p35-1
7	STX1A	ENSG00000106089	ENST00000497980	retained_intron	KNOWN	None	11433	None	None	73115107	73118385	-1	STX1	HPC-1, p35-1
7	STX1A	ENSG00000106089	ENST00000491427	retained_intron	KNOWN	None	11433	None	None	73115113	73118826	-1	STX1	HPC-1, p35-1
7	STX1A	ENSG00000106089	ENST00000496216	processed_transcript	KNOWN	None	11433	None	None	73115135	73120210	-1	STX1	HPC-1, p35-1
7	STX1A	ENSG00000106089	ENST00000395155	protein_coding	NOVEL	None	11433	783	260	73115157	73133961	-1	STX1	HPC-1, p35-1
7	STX1A	ENSG00000106089	ENST00000461441	retained_intron	KNOWN	None	11433	None	None	73116867	73118521	-1	STX1	HPC-1, p35-1
7	STX1A	ENSG00000106089	ENST00000470878	processed_transcript	KNOWN	None	11433	None	None	73117175	73133956	-1	STX1	HPC-1, p35-1
7	STX1A	ENSG00000106089	ENST00000494245	retained_intron	KNOWN	None	11433	None	None	73118093	73119795	-1	STX1	HPC-1, p35-1
7	STX1A	ENSG00000106089	ENST00000462135	retained_intron	KNOWN	None	11433	None	None	73118510	73134002	-1	STX1	HPC-1, p35-1
8	None	ENSG00000271219	ENST00000604710	processed_pseudogene	KNOWN	None	None	None	None	122125598	122126159	-1	None	None
8	None	ENSG00000221644	ENST00000408717	miRNA	NOVEL	None	None	None	None	122198998	122199132	-1	None	None
6	None	ENSG00000242246	ENST00000406098	processed_pseudogene	KNOWN	None	None	None	None	153987601	153987801	1	None	None
9	None	ENSG00000170217	ENST00000515258	processed_transcript	KNOWN	None	None	None	None	67785634	67786684	1	None	None
9	None	ENSG00000170217	ENST00000578729	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	67786277	67786483	1	None	None
9	None	ENSG00000170217	ENST00000306009	unprocessed_pseudogene	KNOWN	None	None	None	None	67785682	67786401	1	None	None
15	None	ENSG00000260351	ENST00000568441	antisense	KNOWN	None	None	None	None	83691323	83759534	1	None	None
19	None	ENSG00000267666	ENST00000591866	lincRNA	KNOWN	None	None	None	None	663482	668063	1	None	None
6	None	ENSG00000218776	ENST00000406985	processed_pseudogene	KNOWN	None	None	None	None	153987762	153988453	1	None	None
22	None	ENSG00000229999	ENST00000414261	antisense	KNOWN	None	None	None	None	40768668	40784294	-1	None	None
8	RPL35AP19	ENSG00000239872	ENST00000469425	processed_pseudogene	KNOWN	None	36631	None	None	122392377	122392705	-1	None	None
19	RPS2P52	ENSG00000213726	ENST00000469610	processed_pseudogene	KNOWN	None	36059	None	None	690381	691175	1	None	None
16	CAPNS2	ENSG00000256812	ENST00000457326	protein_coding	KNOWN	CCDS54010	16371	747	248	55600584	55601599	1	None	MGC12536, MGC14804
22	None	ENSG00000227413	ENST00000442557	processed_pseudogene	KNOWN	None	None	None	None	40829140	40829645	1	None	None
16	None	ENSG00000199787	ENST00000362917	snoRNA	NOVEL	None	None	None	None	30430946	30431080	-1	None	None
15	None	ENSG00000259308	ENST00000559181	processed_pseudogene	KNOWN	None	None	None	None	83713120	83713523	1	None	None
16	None	ENSG00000202476	ENST00000365606	misc_RNA	NOVEL	None	None	None	None	30465318	30465418	-1	None	None
22	None	ENSG00000232564	ENST00000417123	antisense	KNOWN	None	None	None	None	40917804	40922711	1	None	None
10	TFAM	ENSG00000108064	ENST00000487519	protein_coding	KNOWN	CCDS7253	11741	741	246	60144782	60158981	1	TCF6, TCF6L2	None
10	TFAM	ENSG00000108064	ENST00000373899	processed_transcript	KNOWN	None	11741	None	None	60145105	60154944	1	TCF6, TCF6L2	None
10	TFAM	ENSG00000108064	ENST00000373895	protein_coding	KNOWN	CCDS59217	11741	645	214	60145194	60155048	1	TCF6, TCF6L2	None
10	TFAM	ENSG00000108064	ENST00000395377	protein_coding	KNOWN	None	11741	658	218	60145364	60154299	1	TCF6, TCF6L2	None
1	None	ENSG00000228229	ENST00000432559	lincRNA	KNOWN	None	None	None	None	13429634	13430113	1	None	None
16	None	ENSG00000222701	ENST00000410769	misc_RNA	NOVEL	None	None	None	None	30482908	30483024	1	None	None
22	None	ENSG00000252124	ENST00000516315	miRNA	NOVEL	None	None	None	None	40924061	40924137	-1	None	None
16	None	ENSG00000261346	ENST00000569459	antisense	KNOWN	None	None	None	None	30488501	30500674	-1	None	None
4	MUC7	ENSG00000171195	ENST00000515308	processed_transcript	KNOWN	None	7518	None	None	71296209	71339735	1	None	FLJ27047, MG2
4	MUC7	ENSG00000171195	ENST00000505411	protein_coding	KNOWN	None	7518	408	135	71337675	71346869	1	None	FLJ27047, MG2
4	MUC7	ENSG00000171195	ENST00000504482	retained_intron	KNOWN	None	7518	None	None	71337730	71346742	1	None	FLJ27047, MG2
4	MUC7	ENSG00000171195	ENST00000304887	protein_coding	KNOWN	CCDS3541	7518	1134	377	71337834	71348714	1	None	FLJ27047, MG2
4	MUC7	ENSG00000171195	ENST00000514512	processed_transcript	KNOWN	None	7518	None	None	71337914	71346995	1	None	FLJ27047, MG2
4	MUC7	ENSG00000171195	ENST00000413702	protein_coding	KNOWN	CCDS3541	7518	1134	377	71296209	71348713	1	None	FLJ27047, MG2
4	MUC7	ENSG00000171195	ENST00000456088	protein_coding	KNOWN	CCDS3541	7518	1134	377	71337675	71348713	1	None	FLJ27047, MG2
14	MIR382	ENSG00000207742	ENST00000385009	miRNA	KNOWN	None	31875	None	None	101520638	101520723	-1	MIRN382	hsa-mir-382
19	SUV420H2	ENSG00000133247	ENST00000589338	retained_intron	KNOWN	None	28405	None	None	55851221	55855186	1	None	MGC2705, KMT5C
19	SUV420H2	ENSG00000133247	ENST00000255613	protein_coding	KNOWN	CCDS12922	28405	1389	462	55851221	55859488	1	None	MGC2705, KMT5C
19	SUV420H2	ENSG00000133247	ENST00000498738	retained_intron	KNOWN	None	28405	None	None	55851244	55854153	1	None	MGC2705, KMT5C
19	SUV420H2	ENSG00000133247	ENST00000402499	processed_transcript	KNOWN	None	28405	None	None	55851254	55856561	1	None	MGC2705, KMT5C
19	SUV420H2	ENSG00000133247	ENST00000445196	nonsense_mediated_decay	KNOWN	None	28405	294	97	55851286	55859488	1	None	MGC2705, KMT5C
19	SUV420H2	ENSG00000133247	ENST00000464185	retained_intron	KNOWN	None	28405	None	None	55852984	55855747	1	None	MGC2705, KMT5C
19	SUV420H2	ENSG00000133247	ENST00000592631	nonsense_mediated_decay	KNOWN	None	28405	294	97	55853209	55858099	1	None	MGC2705, KMT5C
19	SUV420H2	ENSG00000133247	ENST00000468951	retained_intron	KNOWN	None	28405	None	None	55853690	55855539	1	None	MGC2705, KMT5C
19	SUV420H2	ENSG00000133247	ENST00000460956	processed_transcript	KNOWN	None	28405	None	None	55853986	55858043	1	None	MGC2705, KMT5C
19	SUV420H2	ENSG00000133247	ENST00000587442	processed_transcript	KNOWN	None	28405	None	None	55854143	55857977	1	None	MGC2705, KMT5C
19	SUV420H2	ENSG00000133247	ENST00000474492	retained_intron	KNOWN	None	28405	None	None	55857441	55858584	1	None	MGC2705, KMT5C
22	COX6B1P3	ENSG00000172912	ENST00000312310	processed_pseudogene	KNOWN	None	2283	None	None	40965290	40965899	1	COX6BP3	None
8	None	ENSG00000263525	ENST00000583308	miRNA	NOVEL	None	None	None	None	122555137	122555235	-1	None	None
18	SERPINB11	ENSG00000206072	ENST00000489748	processed_transcript	KNOWN	None	14221	None	None	61314813	61387314	1	None	EPIPIN
18	SERPINB11	ENSG00000206072	ENST00000382749	polymorphic_pseudogene	KNOWN	None	14221	1179	392	61369538	61391127	1	None	EPIPIN
18	SERPINB11	ENSG00000206072	ENST00000467649	processed_transcript	KNOWN	None	14221	None	None	61370194	61383373	1	None	EPIPIN
18	SERPINB11	ENSG00000206072	ENST00000544088	protein_coding	KNOWN	None	14221	1179	392	61370194	61391123	1	None	EPIPIN
18	SERPINB11	ENSG00000206072	ENST00000538847	protein_coding	KNOWN	None	14221	573	190	61370194	61391123	1	None	EPIPIN
18	SERPINB11	ENSG00000206072	ENST00000536691	protein_coding	KNOWN	None	14221	654	217	61370194	61390804	1	None	EPIPIN
10	TRIAP1P1	ENSG00000237956	ENST00000427062	processed_pseudogene	KNOWN	None	31659	None	None	27667067	27667291	-1	C10orf135	bA748L13.4
16	None	ENSG00000260487	ENST00000562525	antisense	KNOWN	None	None	None	None	30491909	30492667	-1	None	None
19	None	ENSG00000272473	ENST00000606966	lincRNA	KNOWN	None	None	None	None	781002	781862	-1	None	None
21	SLC19A1	ENSG00000173638	ENST00000417954	protein_coding	PUTATIVE	None	10937	809	268	46913486	46951455	-1	None	FOLT
21	SLC19A1	ENSG00000173638	ENST00000567670	protein_coding	PUTATIVE	None	10937	1638	545	46918115	46964325	-1	None	FOLT
21	SLC19A1	ENSG00000173638	ENST00000461785	processed_transcript	KNOWN	None	10937	None	None	46922427	46924035	-1	None	FOLT
21	SLC19A1	ENSG00000173638	ENST00000468508	processed_transcript	KNOWN	None	10937	None	None	46932276	46935047	-1	None	FOLT
21	SLC19A1	ENSG00000173638	ENST00000460174	processed_transcript	KNOWN	None	10937	None	None	46932739	46935682	-1	None	FOLT
21	SLC19A1	ENSG00000173638	ENST00000311124	protein_coding	KNOWN	CCDS13725	10937	1776	591	46933690	46962385	-1	None	FOLT
21	SLC19A1	ENSG00000173638	ENST00000380010	protein_coding	PUTATIVE	CCDS56218	10937	1470	489	46934629	46962385	-1	None	FOLT
21	SLC19A1	ENSG00000173638	ENST00000477688	processed_transcript	KNOWN	None	10937	None	None	46951332	46954620	-1	None	FOLT
21	SLC19A1	ENSG00000173638	ENST00000427839	protein_coding	KNOWN	None	10937	547	181	46951705	46961752	-1	None	FOLT
21	SLC19A1	ENSG00000173638	ENST00000443742	protein_coding	KNOWN	None	10937	464	153	46951788	46964314	-1	None	FOLT
21	SLC19A1	ENSG00000173638	ENST00000486303	processed_transcript	KNOWN	None	10937	None	None	46955898	46957847	-1	None	FOLT
21	SLC19A1	ENSG00000173638	ENST00000528477	protein_coding	KNOWN	None	10937	182	59	46957692	46964316	-1	None	FOLT
21	SLC19A1	ENSG00000173638	ENST00000485649	protein_coding	KNOWN	CCDS56217	10937	1656	551	46935432	46954529	-1	None	FOLT
16	RNU7-61P	ENSG00000251706	ENST00000515897	snRNA	KNOWN	None	34157	None	None	30494456	30494516	-1	None	U7.61
8	HAS2-AS1	ENSG00000248690	ENST00000518865	antisense	KNOWN	None	34340	None	None	122651533	122655691	1	HAS2AS, HAS2-AS	HASNT, NCRNA00077
8	HAS2-AS1	ENSG00000248690	ENST00000514180	antisense	KNOWN	None	34340	None	None	122651586	122656933	1	HAS2AS, HAS2-AS	HASNT, NCRNA00077
8	HAS2-AS1	ENSG00000248690	ENST00000522197	antisense	KNOWN	None	34340	None	None	122652142	122654957	1	HAS2AS, HAS2-AS	HASNT, NCRNA00077
8	HAS2-AS1	ENSG00000248690	ENST00000520043	antisense	KNOWN	None	34340	None	None	122653676	122656933	1	HAS2AS, HAS2-AS	HASNT, NCRNA00077
22	RPL4P6	ENSG00000230071	ENST00000438116	processed_pseudogene	KNOWN	None	35611	None	None	40982704	40984007	-1	None	None
HSCHR6_MHC_COX	HCG27	ENSG00000232758	ENST00000452334	processed_transcript	KNOWN	None	27366	None	None	31158106	31164310	1	None	bPG299F13.9, bCX101P6.9, bQB115I13.2, FLJ40123
HSCHR6_MHC_COX	HCG27	ENSG00000232758	ENST00000430914	processed_transcript	PUTATIVE	None	27366	None	None	31158484	31163565	1	None	bPG299F13.9, bCX101P6.9, bQB115I13.2, FLJ40123
HSCHR6_MHC_COX	HCG27	ENSG00000232758	ENST00000432497	processed_transcript	PUTATIVE	None	27366	None	None	31162356	31163344	1	None	bPG299F13.9, bCX101P6.9, bQB115I13.2, FLJ40123
3	SLC22A14	ENSG00000144671	ENST00000466887	protein_coding	PUTATIVE	None	8495	358	118	38323785	38349190	1	ORCTL4	OCTL2
3	SLC22A14	ENSG00000144671	ENST00000448498	protein_coding	KNOWN	CCDS2677	8495	1785	594	38323789	38359740	1	ORCTL4	OCTL2
3	SLC22A14	ENSG00000144671	ENST00000496724	retained_intron	KNOWN	None	8495	None	None	38346665	38349652	1	ORCTL4	OCTL2
3	SLC22A14	ENSG00000144671	ENST00000273173	protein_coding	KNOWN	CCDS2677	8495	1785	594	38347427	38360066	1	ORCTL4	OCTL2
19	None	ENSG00000267530	ENST00000606242	lincRNA	KNOWN	None	None	None	None	782755	784948	1	None	None
19	None	ENSG00000267530	ENST00000586061	lincRNA	KNOWN	None	None	None	None	782796	785080	1	None	None
HSCHR6_MHC_QBL	TRIM39	ENSG00000206495	ENST00000424571	protein_coding	KNOWN	None	10065	434	143	30283753	30287026	1	RNF23	None
HSCHR6_MHC_QBL	TRIM39	ENSG00000206495	ENST00000447542	protein_coding	KNOWN	None	10065	222	73	30284109	30286814	1	RNF23	None
HSCHR6_MHC_QBL	TRIM39	ENSG00000206495	ENST00000400644	protein_coding	KNOWN	None	10065	1467	488	30284118	30301010	1	RNF23	None
HSCHR6_MHC_QBL	TRIM39	ENSG00000206495	ENST00000447077	protein_coding	KNOWN	None	10065	782	259	30284179	30293258	1	RNF23	None
HSCHR6_MHC_QBL	TRIM39	ENSG00000206495	ENST00000383601	protein_coding	KNOWN	None	10065	1467	488	30284194	30301010	1	RNF23	None
HSCHR6_MHC_QBL	TRIM39	ENSG00000206495	ENST00000441470	protein_coding	KNOWN	None	10065	178	58	30284231	30286770	1	RNF23	None
HSCHR6_MHC_QBL	TRIM39	ENSG00000206495	ENST00000383603	protein_coding	KNOWN	None	10065	1467	488	30284533	30301010	1	RNF23	None
HSCHR6_MHC_QBL	TRIM39	ENSG00000206495	ENST00000426443	protein_coding	KNOWN	None	10065	145	47	30284797	30286737	1	RNF23	None
HSCHR6_MHC_QBL	TRIM39	ENSG00000206495	ENST00000383602	protein_coding	KNOWN	None	10065	1557	518	30286164	30301010	1	RNF23	None
HSCHR6_MHC_QBL	TRIM39	ENSG00000206495	ENST00000457154	protein_coding	KNOWN	None	10065	683	226	30286804	30298751	1	RNF23	None
HSCHR6_MHC_QBL	TRIM39	ENSG00000206495	ENST00000549959	protein_coding	KNOWN	None	10065	1557	518	30284118	30301009	1	RNF23	None
HSCHR6_MHC_QBL	TRIM39	ENSG00000206495	ENST00000547598	protein_coding	KNOWN	None	10065	1467	488	30284118	30301009	1	RNF23	None
HSCHR6_MHC_QBL	TRIM39	ENSG00000206495	ENST00000550282	protein_coding	KNOWN	None	10065	1557	518	30284118	30301009	1	RNF23	None
HSCHR6_MHC_QBL	TRIM39	ENSG00000206495	ENST00000550625	protein_coding	KNOWN	None	10065	1236	411	30284118	30299343	1	RNF23	None
HSCHR6_MHC_QBL	TRIM39	ENSG00000206495	ENST00000550618	protein_coding	KNOWN	None	10065	1254	417	30284118	30304091	1	RNF23	None
9	ASPN	ENSG00000106819	ENST00000375544	protein_coding	KNOWN	None	14872	1143	380	95218487	95244788	-1	None	FLJ20129, SLRR1C, PLAP1
9	ASPN	ENSG00000106819	ENST00000375543	protein_coding	NOVEL	None	14872	732	243	95218487	95244788	-1	None	FLJ20129, SLRR1C, PLAP1
9	ASPN	ENSG00000106819	ENST00000395538	protein_coding	KNOWN	None	14872	729	242	95227005	95244788	-1	None	FLJ20129, SLRR1C, PLAP1
9	ASPN	ENSG00000106819	ENST00000450139	protein_coding	KNOWN	None	14872	240	79	95233013	95244788	-1	None	FLJ20129, SLRR1C, PLAP1
10	None	ENSG00000226659	ENST00000417559	antisense	KNOWN	None	None	None	None	82289353	82295698	-1	None	None
12	CMKLR1	ENSG00000174600	ENST00000312143	protein_coding	KNOWN	CCDS44965	2121	1122	373	108681821	108733094	-1	None	RVER1
12	CMKLR1	ENSG00000174600	ENST00000552995	protein_coding	KNOWN	CCDS41829	2121	1116	371	108685347	108733090	-1	None	RVER1
12	CMKLR1	ENSG00000174600	ENST00000550402	protein_coding	KNOWN	CCDS44965	2121	1122	373	108685448	108733118	-1	None	RVER1
12	CMKLR1	ENSG00000174600	ENST00000550573	protein_coding	KNOWN	None	2121	441	146	108686299	108714439	-1	None	RVER1
12	CMKLR1	ENSG00000174600	ENST00000549466	protein_coding	KNOWN	None	2121	430	142	108686310	108711694	-1	None	RVER1
12	CMKLR1	ENSG00000174600	ENST00000412676	protein_coding	KNOWN	CCDS44965	2121	1122	373	108681821	108714439	-1	None	RVER1
12	CMKLR1	ENSG00000174600	ENST00000397688	protein_coding	KNOWN	CCDS41829	2121	1116	371	108681821	108733094	-1	None	RVER1
22	None	ENSG00000271275	ENST00000604539	processed_pseudogene	KNOWN	None	None	None	None	18984651	18985108	-1	None	None
6	None	ENSG00000216901	ENST00000405613	unprocessed_pseudogene	KNOWN	None	None	None	None	28143966	28144452	1	None	None
11	AP5B1	ENSG00000254470	ENST00000532090	protein_coding	NOVEL	CCDS58146	25104	2637	878	65543364	65548273	-1	None	PP1030, AP-5, DKFZp761E198
17	ERAL1	ENSG00000132591	ENST00000254928	protein_coding	KNOWN	CCDS11244	3424	1314	437	27181956	27188085	1	None	HERA-B
17	ERAL1	ENSG00000132591	ENST00000412138	nonsense_mediated_decay	KNOWN	None	3424	516	171	27182028	27185793	1	None	HERA-B
17	ERAL1	ENSG00000132591	ENST00000578001	processed_transcript	KNOWN	None	3424	None	None	27182047	27185413	1	None	HERA-B
17	ERAL1	ENSG00000132591	ENST00000461894	nonsense_mediated_decay	KNOWN	None	3424	830	275	27182054	27188077	1	None	HERA-B
17	ERAL1	ENSG00000132591	ENST00000580917	protein_coding	NOVEL	None	3424	850	282	27182064	27186131	1	None	HERA-B
17	ERAL1	ENSG00000132591	ENST00000577942	retained_intron	KNOWN	None	3424	None	None	27185040	27186131	1	None	HERA-B
17	ERAL1	ENSG00000132591	ENST00000471992	retained_intron	KNOWN	None	3424	None	None	27185056	27188027	1	None	HERA-B
17	ERAL1	ENSG00000132591	ENST00000583487	protein_coding	PUTATIVE	None	3424	243	80	27186003	27188079	1	None	HERA-B
22	None	ENSG00000270393	ENST00000603208	processed_pseudogene	KNOWN	None	None	None	None	19005556	19006429	-1	None	None
10	None	ENSG00000230500	ENST00000419777	antisense	KNOWN	None	None	None	None	28033715	28056723	1	None	None
10	None	ENSG00000230500	ENST00000412244	antisense	KNOWN	None	None	None	None	28050518	28056722	1	None	None
22	CA15P1	ENSG00000241527	ENST00000481698	unitary_pseudogene	KNOWN	None	44364	None	None	19019077	19022077	-1	None	None
2	DBI	ENSG00000155368	ENST00000355857	protein_coding	KNOWN	CCDS42740	2690	264	87	120124497	120130126	1	None	ACBP, ACBD1
2	DBI	ENSG00000155368	ENST00000492375	retained_intron	KNOWN	None	2690	None	None	120124511	120126421	1	None	ACBP, ACBD1
2	DBI	ENSG00000155368	ENST00000409094	protein_coding	KNOWN	CCDS2126	2690	315	104	120124565	120130057	1	None	ACBP, ACBD1
2	DBI	ENSG00000155368	ENST00000311521	protein_coding	KNOWN	CCDS2126	2690	315	104	120124646	120130122	1	None	ACBP, ACBD1
2	DBI	ENSG00000155368	ENST00000460901	processed_transcript	KNOWN	None	2690	None	None	120124657	120130030	1	None	ACBP, ACBD1
2	DBI	ENSG00000155368	ENST00000393103	protein_coding	PUTATIVE	CCDS42741	2690	267	88	120125253	120129983	1	None	ACBP, ACBD1
2	DBI	ENSG00000155368	ENST00000475783	retained_intron	KNOWN	None	2690	None	None	120127793	120130076	1	None	ACBP, ACBD1
2	DBI	ENSG00000155368	ENST00000535617	protein_coding	KNOWN	CCDS54390	2690	390	129	120124553	120130116	1	None	ACBP, ACBD1
2	DBI	ENSG00000155368	ENST00000542275	protein_coding	KNOWN	CCDS54391	2690	447	148	120124829	120130116	1	None	ACBP, ACBD1
2	DBI	ENSG00000155368	ENST00000535757	protein_coding	KNOWN	CCDS2126	2690	315	104	120124553	120130116	1	None	ACBP, ACBD1
16	None	ENSG00000261332	ENST00000563751	antisense	KNOWN	None	None	None	None	30510087	30510875	-1	None	None
22	None	ENSG00000206739	ENST00000384012	misc_RNA	NOVEL	None	None	None	None	19032769	19032880	1	None	None
15	MIR4515	ENSG00000263643	ENST00000584082	miRNA	KNOWN	None	41800	None	None	83736087	83736167	1	None	hsa-mir-4515
6	ZNF192P2	ENSG00000218016	ENST00000402215	unprocessed_pseudogene	KNOWN	None	42862	None	None	28155828	28157210	1	None	None
17	None	ENSG00000267318	ENST00000591035	protein_coding	PUTATIVE	None	None	165	54	58018269	58050462	1	None	None
22	None	ENSG00000237347	ENST00000412461	processed_pseudogene	KNOWN	None	None	None	None	19043314	19044025	1	None	None
15	None	ENSG00000260579	ENST00000565513	antisense	KNOWN	None	None	None	None	83782369	83783318	-1	None	None
3	ARL6IP5	ENSG00000144746	ENST00000273258	protein_coding	KNOWN	CCDS2912	16937	567	188	69134095	69155217	1	None	PRAF3, JWA, GTRAP3-18, DERP11, HSPC127
3	ARL6IP5	ENSG00000144746	ENST00000484921	nonsense_mediated_decay	KNOWN	None	16937	282	93	69134166	69153640	1	None	PRAF3, JWA, GTRAP3-18, DERP11, HSPC127
3	ARL6IP5	ENSG00000144746	ENST00000478935	protein_coding	PUTATIVE	None	16937	267	88	69134172	69155215	1	None	PRAF3, JWA, GTRAP3-18, DERP11, HSPC127
3	ARL6IP5	ENSG00000144746	ENST00000470936	retained_intron	KNOWN	None	16937	None	None	69134187	69151381	1	None	PRAF3, JWA, GTRAP3-18, DERP11, HSPC127
3	ARL6IP5	ENSG00000144746	ENST00000485444	nonsense_mediated_decay	KNOWN	None	16937	180	59	69134193	69151045	1	None	PRAF3, JWA, GTRAP3-18, DERP11, HSPC127
5	None	ENSG00000253109	ENST00000519073	processed_pseudogene	KNOWN	None	None	None	None	173466754	173467243	-1	None	None
1	None	ENSG00000204485	ENST00000457228	unprocessed_pseudogene	KNOWN	None	None	None	None	13607745	13610487	-1	None	None
1	None	ENSG00000204485	ENST00000359310	unprocessed_pseudogene	KNOWN	None	None	None	None	13607431	13611550	-1	None	None
18	SALL3	ENSG00000256463	ENST00000537592	protein_coding	KNOWN	CCDS12013	10527	3903	1300	76740275	76757322	1	None	ZNF796
18	SALL3	ENSG00000256463	ENST00000575389	protein_coding	KNOWN	None	10527	3687	1228	76740275	76757631	1	None	ZNF796
18	SALL3	ENSG00000256463	ENST00000572928	processed_transcript	KNOWN	None	10527	None	None	76745010	76752162	1	None	ZNF796
18	SALL3	ENSG00000256463	ENST00000536229	protein_coding	NOVEL	None	10527	3288	1095	76751682	76757322	1	None	ZNF796
18	SALL3	ENSG00000256463	ENST00000573324	protein_coding	PUTATIVE	None	10527	452	149	76754798	76762677	1	None	ZNF796
3	KIAA1143	ENSG00000163807	ENST00000484437	processed_transcript	KNOWN	None	29198	None	None	44779153	44803003	-1	None	None
3	KIAA1143	ENSG00000163807	ENST00000296121	protein_coding	KNOWN	CCDS2721	29198	465	154	44790238	44803154	-1	None	None
3	IL12A	ENSG00000168811	ENST00000305579	protein_coding	KNOWN	CCDS3187	5969	762	253	159706537	159713799	1	NKSF1	CLMF, IL-12A, p35, NFSK
3	IL12A	ENSG00000168811	ENST00000480088	retained_intron	KNOWN	None	5969	None	None	159706623	159708119	1	NKSF1	CLMF, IL-12A, p35, NFSK
3	IL12A	ENSG00000168811	ENST00000468862	retained_intron	KNOWN	None	5969	None	None	159706648	159713806	1	NKSF1	CLMF, IL-12A, p35, NFSK
3	IL12A	ENSG00000168811	ENST00000496308	retained_intron	KNOWN	None	5969	None	None	159706657	159713458	1	NKSF1	CLMF, IL-12A, p35, NFSK
3	IL12A	ENSG00000168811	ENST00000480787	protein_coding	NOVEL	None	5969	648	215	159706741	159713458	1	NKSF1	CLMF, IL-12A, p35, NFSK
3	IL12A	ENSG00000168811	ENST00000466512	protein_coding	NOVEL	None	5969	720	239	159706741	159713806	1	NKSF1	CLMF, IL-12A, p35, NFSK
15	None	ENSG00000259986	ENST00000568634	antisense	KNOWN	None	None	None	None	83847934	83854820	1	None	None
15	None	ENSG00000259986	ENST00000561498	antisense	KNOWN	None	None	None	None	83849554	83853548	1	None	None
15	None	ENSG00000259986	ENST00000565495	antisense	KNOWN	None	None	None	None	83853557	84108197	1	None	None
17	RNU6-1034P	ENSG00000202205	ENST00000365335	snRNA	KNOWN	None	47997	None	None	27772318	27772418	-1	None	None
5	None	ENSG00000253244	ENST00000523279	antisense	KNOWN	None	None	None	None	173483063	173483588	-1	None	None
17	None	ENSG00000264031	ENST00000581474	antisense	KNOWN	None	None	None	None	27887565	28034108	1	None	None
22	None	ENSG00000223461	ENST00000456035	antisense	KNOWN	None	None	None	None	19109042	19112016	1	None	None
16	MIR4518	ENSG00000266305	ENST00000580665	miRNA	KNOWN	None	41809	None	None	30515240	30515322	1	None	hsa-mir-4518
17	None	ENSG00000264290	ENST00000579050	sense_intronic	KNOWN	None	None	None	None	27896598	27897537	1	None	None
19	PDCD5	ENSG00000105185	ENST00000590247	protein_coding	KNOWN	CCDS12423	8764	378	125	33071974	33078331	1	None	TFAR19, MGC9294
19	PDCD5	ENSG00000105185	ENST00000588331	retained_intron	KNOWN	None	8764	None	None	33072096	33073732	1	None	TFAR19, MGC9294
19	PDCD5	ENSG00000105185	ENST00000419343	retained_intron	KNOWN	None	8764	None	None	33072107	33078293	1	None	TFAR19, MGC9294
19	PDCD5	ENSG00000105185	ENST00000221784	nonsense_mediated_decay	KNOWN	None	8764	168	55	33072108	33078331	1	None	TFAR19, MGC9294
19	PDCD5	ENSG00000105185	ENST00000592786	protein_coding	PUTATIVE	None	8764	198	65	33072138	33078358	1	None	TFAR19, MGC9294
19	PDCD5	ENSG00000105185	ENST00000379316	protein_coding	NOVEL	None	8764	123	40	33072163	33078203	1	None	TFAR19, MGC9294
19	PDCD5	ENSG00000105185	ENST00000586035	protein_coding	PUTATIVE	None	8764	264	87	33072432	33078320	1	None	TFAR19, MGC9294
19	PDCD5	ENSG00000105185	ENST00000590025	retained_intron	KNOWN	None	8764	None	None	33074865	33078327	1	None	TFAR19, MGC9294
19	PDCD5	ENSG00000105185	ENST00000586316	retained_intron	KNOWN	None	8764	None	None	33075775	33078331	1	None	TFAR19, MGC9294
19	PDCD5	ENSG00000105185	ENST00000588622	retained_intron	KNOWN	None	8764	None	None	33077551	33078331	1	None	TFAR19, MGC9294
8	None	ENSG00000254209	ENST00000518922	lincRNA	KNOWN	None	None	None	None	122684013	122696802	-1	None	None
22	TSSK1A	ENSG00000231086	ENST00000450724	unitary_pseudogene	KNOWN	None	11400	None	None	19112392	19113159	1	STK22A, TSSK7P	TSSK1, SPOGA1
6	TOB2P1	ENSG00000176933	ENST00000469761	processed_pseudogene	KNOWN	None	13986	None	None	28185421	28186412	-1	TOB2P	TOB4p, p373c6.3
6	TOB2P1	ENSG00000176933	ENST00000544893	processed_pseudogene	KNOWN	None	13986	None	None	28185514	28186655	-1	TOB2P	TOB4p, p373c6.3
17	None	ENSG00000264647	ENST00000584986	antisense	KNOWN	None	None	None	None	27918721	27919259	-1	None	None
15	None	ENSG00000223180	ENST00000411248	miRNA	NOVEL	None	None	None	None	84284938	84285010	1	None	None
22	None	ENSG00000260924	ENST00000565162	antisense	KNOWN	None	None	None	None	19158908	19160345	1	None	None
6	CDYL	ENSG00000153046	ENST00000328908	protein_coding	KNOWN	None	1811	1797	598	4706393	4955781	1	None	DKFZP586C1622, CDYL1
6	CDYL	ENSG00000153046	ENST00000491864	processed_transcript	KNOWN	None	1811	None	None	4716075	4892346	1	None	DKFZP586C1622, CDYL1
6	CDYL	ENSG00000153046	ENST00000440139	protein_coding	PUTATIVE	None	1811	513	170	4773205	4943831	1	None	DKFZP586C1622, CDYL1
6	CDYL	ENSG00000153046	ENST00000483019	processed_transcript	PUTATIVE	None	1811	None	None	4773275	4892581	1	None	DKFZP586C1622, CDYL1
6	CDYL	ENSG00000153046	ENST00000397588	protein_coding	KNOWN	CCDS4491	1811	1635	544	4776669	4954490	1	None	DKFZP586C1622, CDYL1
6	CDYL	ENSG00000153046	ENST00000472453	processed_transcript	KNOWN	None	1811	None	None	4776676	4954744	1	None	DKFZP586C1622, CDYL1
6	CDYL	ENSG00000153046	ENST00000449732	protein_coding	KNOWN	CCDS47364	1811	1239	412	4836332	4954607	1	None	DKFZP586C1622, CDYL1
6	CDYL	ENSG00000153046	ENST00000343762	protein_coding	KNOWN	CCDS47364	1811	1239	412	4890226	4955785	1	None	DKFZP586C1622, CDYL1
6	CDYL	ENSG00000153046	ENST00000469671	retained_intron	KNOWN	None	1811	None	None	4928929	4944047	1	None	DKFZP586C1622, CDYL1
17	None	ENSG00000264007	ENST00000582367	sense_intronic	KNOWN	None	None	None	None	27948635	27949272	-1	None	None
8	None	ENSG00000248478	ENST00000458107	lincRNA	KNOWN	None	None	None	None	122691366	122719871	1	None	None
11	OVOL1	ENSG00000172818	ENST00000335987	protein_coding	KNOWN	CCDS8112	8525	804	267	65554493	65564690	1	None	None
11	OVOL1	ENSG00000172818	ENST00000531907	processed_transcript	PUTATIVE	None	8525	None	None	65557600	65561566	1	None	None
11	OVOL1	ENSG00000172818	ENST00000532448	protein_coding	PUTATIVE	None	8525	618	205	65561180	65563560	1	None	None
15	RNU6-401P	ENSG00000212374	ENST00000391072	snRNA	KNOWN	None	47364	None	None	84386179	84386274	1	None	None
17	None	ENSG00000263370	ENST00000581240	antisense	KNOWN	None	None	None	None	27966645	27967843	1	None	None
22	None	ENSG00000230194	ENST00000433141	processed_pseudogene	KNOWN	None	None	None	None	19225966	19226262	-1	None	None
15	TUBA8P2	ENSG00000261665	ENST00000569261	transcribed_processed_pseudogene	KNOWN	None	44569	None	None	84408536	84408951	1	None	None
22	None	ENSG00000251940	ENST00000516131	snoRNA	NOVEL	None	None	None	None	19237396	19237489	1	None	None
17	RNU6-920P	ENSG00000222858	ENST00000410926	snRNA	KNOWN	None	47883	None	None	27968629	27968720	-1	None	None
12	TPCN1	ENSG00000186815	ENST00000552642	protein_coding	PUTATIVE	None	18182	379	125	113658855	113705684	1	None	KIAA1169, FLJ20612, TPC1
12	TPCN1	ENSG00000186815	ENST00000547275	protein_coding	PUTATIVE	None	18182	441	146	113658879	113704023	1	None	KIAA1169, FLJ20612, TPC1
12	TPCN1	ENSG00000186815	ENST00000552985	protein_coding	PUTATIVE	None	18182	645	214	113658885	113704134	1	None	KIAA1169, FLJ20612, TPC1
12	TPCN1	ENSG00000186815	ENST00000550873	protein_coding	KNOWN	None	18182	255	84	113659037	113704002	1	None	KIAA1169, FLJ20612, TPC1
12	TPCN1	ENSG00000186815	ENST00000551096	protein_coding	PUTATIVE	None	18182	373	123	113659234	113698217	1	None	KIAA1169, FLJ20612, TPC1
12	TPCN1	ENSG00000186815	ENST00000551099	protein_coding	KNOWN	None	18182	299	98	113659243	113698207	1	None	KIAA1169, FLJ20612, TPC1
12	TPCN1	ENSG00000186815	ENST00000335509	protein_coding	KNOWN	CCDS31908	18182	2451	816	113659243	113736390	1	None	KIAA1169, FLJ20612, TPC1
12	TPCN1	ENSG00000186815	ENST00000552897	protein_coding	PUTATIVE	None	18182	323	106	113659251	113705760	1	None	KIAA1169, FLJ20612, TPC1
12	TPCN1	ENSG00000186815	ENST00000550785	protein_coding	KNOWN	CCDS44985	18182	2667	888	113659265	113736390	1	None	KIAA1169, FLJ20612, TPC1
12	TPCN1	ENSG00000186815	ENST00000549279	protein_coding	PUTATIVE	None	18182	299	98	113659269	113698207	1	None	KIAA1169, FLJ20612, TPC1
12	TPCN1	ENSG00000186815	ENST00000552077	retained_intron	KNOWN	None	18182	None	None	113659291	113733934	1	None	KIAA1169, FLJ20612, TPC1
12	TPCN1	ENSG00000186815	ENST00000392569	protein_coding	PUTATIVE	None	18182	2247	748	113682066	113733999	1	None	KIAA1169, FLJ20612, TPC1
12	TPCN1	ENSG00000186815	ENST00000552542	protein_coding	PUTATIVE	None	18182	360	119	113682173	113706582	1	None	KIAA1169, FLJ20612, TPC1
12	TPCN1	ENSG00000186815	ENST00000428632	retained_intron	KNOWN	None	18182	None	None	113682308	113726500	1	None	KIAA1169, FLJ20612, TPC1
12	TPCN1	ENSG00000186815	ENST00000548465	protein_coding	PUTATIVE	None	18182	435	144	113698107	113706657	1	None	KIAA1169, FLJ20612, TPC1
12	TPCN1	ENSG00000186815	ENST00000546781	protein_coding	PUTATIVE	None	18182	610	202	113714723	113724870	1	None	KIAA1169, FLJ20612, TPC1
12	TPCN1	ENSG00000186815	ENST00000551127	retained_intron	KNOWN	None	18182	None	None	113714808	113733933	1	None	KIAA1169, FLJ20612, TPC1
12	TPCN1	ENSG00000186815	ENST00000546503	retained_intron	KNOWN	None	18182	None	None	113715058	113718119	1	None	KIAA1169, FLJ20612, TPC1
12	TPCN1	ENSG00000186815	ENST00000550543	retained_intron	KNOWN	None	18182	None	None	113722430	113725209	1	None	KIAA1169, FLJ20612, TPC1
12	TPCN1	ENSG00000186815	ENST00000547955	nonsense_mediated_decay	KNOWN	None	18182	313	103	113722521	113729428	1	None	KIAA1169, FLJ20612, TPC1
12	TPCN1	ENSG00000186815	ENST00000546907	retained_intron	KNOWN	None	18182	None	None	113727854	113729736	1	None	KIAA1169, FLJ20612, TPC1
12	TPCN1	ENSG00000186815	ENST00000546787	processed_transcript	KNOWN	None	18182	None	None	113730824	113733817	1	None	KIAA1169, FLJ20612, TPC1
12	TPCN1	ENSG00000186815	ENST00000541517	protein_coding	KNOWN	CCDS44985	18182	2667	888	113663049	113736387	1	None	KIAA1169, FLJ20612, TPC1
22	KRT18P62	ENSG00000233471	ENST00000446618	processed_pseudogene	KNOWN	None	48889	None	None	19245043	19246329	1	None	None
17	None	ENSG00000265625	ENST00000582881	sense_intronic	KNOWN	None	None	None	None	27971814	27972865	-1	None	None
3	A4GNT	ENSG00000118017	ENST00000236709	protein_coding	KNOWN	CCDS3097	17968	1023	340	137842560	137851229	-1	None	alpha4GnT
3	SHISA5	ENSG00000164054	ENST00000296444	protein_coding	KNOWN	CCDS2770	30376	723	240	48509197	48541864	-1	None	SCOTIN, hShisa5
3	SHISA5	ENSG00000164054	ENST00000444115	protein_coding	KNOWN	None	30376	630	209	48509269	48542259	-1	None	SCOTIN, hShisa5
3	SHISA5	ENSG00000164054	ENST00000466424	processed_transcript	KNOWN	None	30376	None	None	48509275	48511244	-1	None	SCOTIN, hShisa5
3	SHISA5	ENSG00000164054	ENST00000494854	retained_intron	KNOWN	None	30376	None	None	48509275	48514512	-1	None	SCOTIN, hShisa5
3	SHISA5	ENSG00000164054	ENST00000426002	protein_coding	KNOWN	None	30376	414	137	48509275	48514617	-1	None	SCOTIN, hShisa5
3	SHISA5	ENSG00000164054	ENST00000465449	processed_transcript	KNOWN	None	30376	None	None	48509275	48514941	-1	None	SCOTIN, hShisa5
3	SHISA5	ENSG00000164054	ENST00000417962	nonsense_mediated_decay	KNOWN	None	30376	142	46	48509276	48541483	-1	None	SCOTIN, hShisa5
3	SHISA5	ENSG00000164054	ENST00000442747	protein_coding	KNOWN	None	30376	630	209	48509276	48542228	-1	None	SCOTIN, hShisa5
3	SHISA5	ENSG00000164054	ENST00000443308	protein_coding	NOVEL	None	30376	702	233	48509310	48541562	-1	None	SCOTIN, hShisa5
3	SHISA5	ENSG00000164054	ENST00000460758	retained_intron	KNOWN	None	30376	None	None	48510064	48514536	-1	None	SCOTIN, hShisa5
3	SHISA5	ENSG00000164054	ENST00000497863	retained_intron	KNOWN	None	30376	None	None	48510167	48514488	-1	None	SCOTIN, hShisa5
3	SHISA5	ENSG00000164054	ENST00000486344	processed_transcript	KNOWN	None	30376	None	None	48510759	48520968	-1	None	SCOTIN, hShisa5
3	SHISA5	ENSG00000164054	ENST00000424965	nonsense_mediated_decay	KNOWN	None	30376	372	123	48510862	48541598	-1	None	SCOTIN, hShisa5
3	SHISA5	ENSG00000164054	ENST00000417841	protein_coding	KNOWN	None	30376	337	111	48511127	48541573	-1	None	SCOTIN, hShisa5
3	SHISA5	ENSG00000164054	ENST00000415268	nonsense_mediated_decay	KNOWN	None	30376	186	61	48511193	48541587	-1	None	SCOTIN, hShisa5
3	SHISA5	ENSG00000164054	ENST00000441507	nonsense_mediated_decay	KNOWN	None	30376	135	44	48538612	48541573	-1	None	SCOTIN, hShisa5
3	SHISA5	ENSG00000164054	ENST00000490864	processed_transcript	KNOWN	None	30376	None	None	48538615	48542209	-1	None	SCOTIN, hShisa5
3	SHISA5	ENSG00000164054	ENST00000496408	processed_transcript	KNOWN	None	30376	None	None	48539794	48542235	-1	None	SCOTIN, hShisa5
8	FGL1	ENSG00000104760	ENST00000398056	protein_coding	KNOWN	CCDS6004	3695	939	312	17721889	17767874	-1	None	HFREP-1
8	FGL1	ENSG00000104760	ENST00000522444	protein_coding	KNOWN	CCDS6004	3695	939	312	17721898	17743288	-1	None	HFREP-1
8	FGL1	ENSG00000104760	ENST00000518650	protein_coding	KNOWN	CCDS6004	3695	939	312	17722093	17749318	-1	None	HFREP-1
8	FGL1	ENSG00000104760	ENST00000522636	retained_intron	KNOWN	None	3695	None	None	17722167	17732174	-1	None	HFREP-1
8	FGL1	ENSG00000104760	ENST00000523097	retained_intron	KNOWN	None	3695	None	None	17725846	17739674	-1	None	HFREP-1
8	FGL1	ENSG00000104760	ENST00000518769	retained_intron	KNOWN	None	3695	None	None	17743029	17752850	-1	None	HFREP-1
8	FGL1	ENSG00000104760	ENST00000519055	retained_intron	KNOWN	None	3695	None	None	17748775	17753053	-1	None	HFREP-1
8	FGL1	ENSG00000104760	ENST00000381841	protein_coding	KNOWN	CCDS6004	3695	939	312	17721902	17753047	-1	None	HFREP-1
8	FGL1	ENSG00000104760	ENST00000427924	protein_coding	KNOWN	CCDS6004	3695	939	312	17721902	17753047	-1	None	HFREP-1
8	FGL1	ENSG00000104760	ENST00000398054	protein_coding	KNOWN	CCDS6004	3695	939	312	17721902	17752913	-1	None	HFREP-1
8	FGL1	ENSG00000104760	ENST00000381840	protein_coding	KNOWN	CCDS6004	3695	939	312	17721902	17752913	-1	None	HFREP-1
22	RN7SL168P	ENSG00000244296	ENST00000463821	misc_RNA	KNOWN	None	46184	None	None	19353289	19353565	1	None	None
8	None	ENSG00000254018	ENST00000523550	lincRNA	KNOWN	None	None	None	None	122896963	122916512	1	None	None
HSCHR6_MHC_COX	None	ENSG00000228583	ENST00000455922	processed_transcript	PUTATIVE	None	None	None	None	31160511	31162263	-1	None	None
HSCHR6_MHC_DBB	HLA-DOA	ENSG00000235744	ENST00000452598	protein_coding	KNOWN	None	4936	753	250	32949907	32955340	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
HSCHR6_MHC_DBB	HLA-DOA	ENSG00000235744	ENST00000484506	processed_transcript	KNOWN	None	4936	None	None	32952335	32953112	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
HSCHR6_MHC_DBB	HLA-DOA	ENSG00000235744	ENST00000478557	retained_intron	KNOWN	None	4936	None	None	32952529	32953782	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
HSCHR6_MHC_DBB	HLA-DOA	ENSG00000235744	ENST00000468742	processed_transcript	KNOWN	None	4936	None	None	32953173	32953852	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
HSCHR6_MHC_DBB	HLA-DOA	ENSG00000235744	ENST00000416763	protein_coding	KNOWN	None	4936	260	85	32953225	32955307	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
HSCHR6_MHC_DBB	HLA-DOA	ENSG00000235744	ENST00000465500	processed_transcript	KNOWN	None	4936	None	None	32953789	32955310	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
HSCHR6_MHC_DBB	HLA-DOA	ENSG00000235744	ENST00000549881	protein_coding	KNOWN	None	4936	186	61	32952474	32955288	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
12	CCDC59	ENSG00000133773	ENST00000552377	protein_coding	PUTATIVE	None	25005	543	180	82617460	82752175	-1	None	HSPC128, TAP26, BR22
12	CCDC59	ENSG00000133773	ENST00000256151	protein_coding	KNOWN	CCDS9023	25005	726	241	82746085	82752567	-1	None	HSPC128, TAP26, BR22
12	CCDC59	ENSG00000133773	ENST00000550589	retained_intron	KNOWN	None	25005	None	None	82746618	82749900	-1	None	HSPC128, TAP26, BR22
12	CCDC59	ENSG00000133773	ENST00000548126	processed_transcript	KNOWN	None	25005	None	None	82746626	82752565	-1	None	HSPC128, TAP26, BR22
12	CCDC59	ENSG00000133773	ENST00000547758	retained_intron	KNOWN	None	25005	None	None	82750623	82752584	-1	None	HSPC128, TAP26, BR22
12	CCDC59	ENSG00000133773	ENST00000552606	retained_intron	KNOWN	None	25005	None	None	82750636	82752188	-1	None	HSPC128, TAP26, BR22
12	CCDC59	ENSG00000133773	ENST00000552412	processed_transcript	PUTATIVE	None	25005	None	None	82750894	82752071	-1	None	HSPC128, TAP26, BR22
22	None	ENSG00000185065	ENST00000431090	processed_transcript	KNOWN	None	None	None	None	19435416	19437628	1	None	None
17	FADS6	ENSG00000172782	ENST00000310226	protein_coding	KNOWN	CCDS54163	30459	1053	350	72873428	72889708	-1	None	None
17	FADS6	ENSG00000172782	ENST00000413142	retained_intron	KNOWN	None	30459	None	None	72874047	72879014	-1	None	None
17	FADS6	ENSG00000172782	ENST00000579663	protein_coding	PUTATIVE	None	30459	660	219	72875172	72878834	-1	None	None
17	RPL21P123	ENSG00000240531	ENST00000493028	transcribed_processed_pseudogene	KNOWN	None	35691	None	None	28043297	28043703	-1	None	None
10	RN7SKP132	ENSG00000251810	ENST00000516001	misc_RNA	KNOWN	None	45856	None	None	28072775	28072982	-1	None	None
6	None	ENSG00000217044	ENST00000405526	processed_pseudogene	KNOWN	None	None	None	None	153988453	153989241	1	None	None
17	RNFT1	ENSG00000189050	ENST00000305783	protein_coding	KNOWN	CCDS11622	30206	1308	435	58029601	58042080	-1	None	PTD016
17	RNFT1	ENSG00000189050	ENST00000482446	nonsense_mediated_decay	KNOWN	None	30206	738	245	58029723	58042095	-1	None	PTD016
17	RNFT1	ENSG00000189050	ENST00000466544	nonsense_mediated_decay	KNOWN	None	30206	519	172	58029757	58042122	-1	None	PTD016
17	RNFT1	ENSG00000189050	ENST00000486103	retained_intron	KNOWN	None	30206	None	None	58031310	58035998	-1	None	PTD016
17	RNFT1	ENSG00000189050	ENST00000484257	nonsense_mediated_decay	KNOWN	None	30206	215	70	58033849	58039960	-1	None	PTD016
17	RNFT1	ENSG00000189050	ENST00000589113	protein_coding	NOVEL	None	30206	669	222	58035724	58042095	-1	None	PTD016
17	RNFT1	ENSG00000189050	ENST00000493737	retained_intron	KNOWN	None	30206	None	None	58035795	58040327	-1	None	PTD016
17	RNFT1	ENSG00000189050	ENST00000586083	retained_intron	KNOWN	None	30206	None	None	58036745	58042073	-1	None	PTD016
17	RNFT1	ENSG00000189050	ENST00000477207	retained_intron	KNOWN	None	30206	None	None	58039682	58042098	-1	None	PTD016
17	RNFT1	ENSG00000189050	ENST00000442346	protein_coding	KNOWN	None	30206	408	135	58030324	58042098	-1	None	PTD016
17	None	ENSG00000263657	ENST00000577846	antisense	KNOWN	None	None	None	None	28088121	28114854	1	None	None
HSCHR6_MHC_COX	None	ENSG00000257744	ENST00000548374	pseudogene	NOVEL	None	None	None	None	31222160	31222501	-1	None	None
17	None	ENSG00000265713	ENST00000580031	transcribed_processed_pseudogene	KNOWN	None	None	None	None	28102765	28103719	-1	None	None
15	None	ENSG00000259614	ENST00000559595	processed_pseudogene	KNOWN	None	None	None	None	96931443	96932285	-1	None	None
10	CDNF	ENSG00000185267	ENST00000378442	protein_coding	KNOWN	None	24913	258	85	14861249	14880574	-1	ARMETL1	None
10	CDNF	ENSG00000185267	ENST00000378441	processed_transcript	KNOWN	None	24913	None	None	14861530	14879921	-1	ARMETL1	None
10	CDNF	ENSG00000185267	ENST00000467405	processed_transcript	KNOWN	None	24913	None	None	14861884	14870204	-1	ARMETL1	None
10	CDNF	ENSG00000185267	ENST00000466269	processed_transcript	KNOWN	None	24913	None	None	14861887	14878289	-1	ARMETL1	None
10	CDNF	ENSG00000185267	ENST00000465530	protein_coding	KNOWN	CCDS31148	24913	564	187	14861979	14880071	-1	ARMETL1	None
17	None	ENSG00000252657	ENST00000516848	snoRNA	NOVEL	None	None	None	None	28104637	28104762	1	None	None
20	FAM182B	ENSG00000175170	ENST00000478164	processed_transcript	KNOWN	None	34503	None	None	25744102	25848786	-1	None	None
20	FAM182B	ENSG00000175170	ENST00000453481	processed_transcript	KNOWN	None	34503	None	None	25754652	25755908	-1	None	None
20	FAM182B	ENSG00000175170	ENST00000376403	protein_coding	PUTATIVE	None	34503	459	152	25754654	25843837	-1	None	None
20	FAM182B	ENSG00000175170	ENST00000485279	processed_transcript	KNOWN	None	34503	None	None	25754867	25755906	-1	None	None
20	FAM182B	ENSG00000175170	ENST00000584071	protein_coding	PUTATIVE	None	34503	321	106	25755659	25842213	-1	None	None
20	FAM182B	ENSG00000175170	ENST00000582267	processed_transcript	KNOWN	None	34503	None	None	25755813	25848861	-1	None	None
20	FAM182B	ENSG00000175170	ENST00000584356	processed_transcript	KNOWN	None	34503	None	None	25755891	25840539	-1	None	None
20	FAM182B	ENSG00000175170	ENST00000424021	processed_transcript	KNOWN	None	34503	None	None	25847708	25848804	-1	None	None
20	FAM182B	ENSG00000175170	ENST00000376404	protein_coding	KNOWN	None	34503	234	77	25744102	25848786	-1	None	None
22	None	ENSG00000230485	ENST00000420012	processed_pseudogene	KNOWN	None	None	None	None	19618273	19621097	-1	None	None
2	PER2	ENSG00000132326	ENST00000254657	protein_coding	KNOWN	CCDS2528	8846	3768	1255	239152679	239197250	-1	None	KIAA0347
2	PER2	ENSG00000132326	ENST00000491417	retained_intron	KNOWN	None	8846	None	None	239170082	239171616	-1	None	KIAA0347
2	PER2	ENSG00000132326	ENST00000355768	protein_coding	KNOWN	None	8846	1215	404	239170451	239186577	-1	None	KIAA0347
2	PER2	ENSG00000132326	ENST00000431832	protein_coding	KNOWN	None	8846	328	108	239184504	239198743	-1	None	KIAA0347
2	PER2	ENSG00000132326	ENST00000440245	protein_coding	KNOWN	None	8846	1452	483	239170183	239198743	-1	None	KIAA0347
2	PER2	ENSG00000132326	ENST00000254658	protein_coding	KNOWN	None	8846	1215	404	239152679	239197207	-1	None	KIAA0347
10	RPL36AP55	ENSG00000226016	ENST00000454114	processed_pseudogene	KNOWN	None	44939	None	None	28193138	28194091	1	None	None
5	None	ENSG00000250348	ENST00000502589	antisense	KNOWN	None	None	None	None	75581367	75607287	-1	None	None
22	None	ENSG00000225007	ENST00000452326	lincRNA	KNOWN	None	None	None	None	19654546	19655078	1	None	None
4	None	ENSG00000265085	ENST00000585196	miRNA	NOVEL	None	None	None	None	63461095	63461180	1	None	None
13	CCDC169	ENSG00000242715	ENST00000479850	processed_transcript	KNOWN	None	34361	None	None	36801182	36871977	-1	C13orf38	RP11-251J8.1, LOC728591
13	CCDC169	ENSG00000242715	ENST00000506800	nonsense_mediated_decay	KNOWN	None	34361	276	91	36801257	36871886	-1	C13orf38	RP11-251J8.1, LOC728591
13	CCDC169	ENSG00000242715	ENST00000491049	protein_coding	KNOWN	CCDS45027	34361	420	139	36801257	36871886	-1	C13orf38	RP11-251J8.1, LOC728591
13	CCDC169	ENSG00000242715	ENST00000503173	protein_coding	NOVEL	CCDS55897	34361	726	241	36801257	36871886	-1	C13orf38	RP11-251J8.1, LOC728591
13	CCDC169	ENSG00000242715	ENST00000239860	protein_coding	KNOWN	CCDS53863	34361	426	141	36801257	36871886	-1	C13orf38	RP11-251J8.1, LOC728591
13	CCDC169	ENSG00000242715	ENST00000379864	protein_coding	KNOWN	CCDS45027	34361	420	139	36801257	36871961	-1	C13orf38	RP11-251J8.1, LOC728591
13	CCDC169	ENSG00000242715	ENST00000510088	protein_coding	KNOWN	CCDS45029	34361	339	112	36804912	36871961	-1	C13orf38	RP11-251J8.1, LOC728591
13	CCDC169	ENSG00000242715	ENST00000379862	protein_coding	KNOWN	CCDS45029	34361	339	112	36805299	36871888	-1	C13orf38	RP11-251J8.1, LOC728591
13	CCDC169	ENSG00000242715	ENST00000239859	protein_coding	KNOWN	CCDS45028	34361	645	214	36805299	36871888	-1	C13orf38	RP11-251J8.1, LOC728591
13	CCDC169	ENSG00000242715	ENST00000471781	processed_transcript	KNOWN	None	34361	None	None	36822727	36871973	-1	C13orf38	RP11-251J8.1, LOC728591
13	CCDC169	ENSG00000242715	ENST00000486683	processed_transcript	KNOWN	None	34361	None	None	36822739	36871969	-1	C13orf38	RP11-251J8.1, LOC728591
13	CCDC169	ENSG00000242715	ENST00000477250	processed_transcript	KNOWN	None	34361	None	None	36854194	36871969	-1	C13orf38	RP11-251J8.1, LOC728591
13	CCDC169	ENSG00000242715	ENST00000485600	processed_transcript	KNOWN	None	34361	None	None	36856965	36871974	-1	C13orf38	RP11-251J8.1, LOC728591
5	None	ENSG00000266045	ENST00000581282	lincRNA	KNOWN	None	None	None	None	75627662	75629781	1	None	None
4	EXOC5P1	ENSG00000180673	ENST00000510543	processed_pseudogene	KNOWN	None	43870	None	None	63682544	63684512	1	None	None
22	None	ENSG00000235776	ENST00000424559	processed_pseudogene	KNOWN	None	None	None	None	19779817	19780617	1	None	None
HSCHR6_MHC_COX	USP8P1	ENSG00000233486	ENST00000484424	processed_pseudogene	KNOWN	None	13987	None	None	31234395	31237566	1	USP8P	KIAA0055-hom, D84394.7
22	None	ENSG00000232926	ENST00000420617	processed_pseudogene	KNOWN	None	None	None	None	19874812	19875493	1	None	None
5	None	ENSG00000253447	ENST00000517582	antisense	KNOWN	None	None	None	None	173508509	173513562	-1	None	None
5	None	ENSG00000253447	ENST00000519942	antisense	KNOWN	None	None	None	None	173508521	173513545	-1	None	None
5	None	ENSG00000253447	ENST00000520190	antisense	KNOWN	None	None	None	None	173509278	173513478	-1	None	None
HSCHR6_MHC_COX	RPL3P2	ENSG00000228461	ENST00000428665	processed_pseudogene	KNOWN	None	17834	None	None	31239129	31240331	1	None	RPL3-Hom
11	PTGDR2	ENSG00000183134	ENST00000332539	protein_coding	KNOWN	CCDS7994	4502	1188	395	60618413	60623444	-1	GPR44	CRTH2, CD294, DP2
6	None	ENSG00000197062	ENST00000423234	unprocessed_pseudogene	KNOWN	None	None	None	None	28239857	28244873	1	None	None
6	None	ENSG00000197062	ENST00000421553	unprocessed_pseudogene	KNOWN	None	None	None	None	28234788	28245974	1	None	None
6	None	ENSG00000197062	ENST00000316606	unprocessed_pseudogene	KNOWN	None	None	None	None	28234788	28245974	1	None	None
22	MIR4761	ENSG00000265087	ENST00000585066	miRNA	KNOWN	None	41591	None	None	19951276	19951357	1	None	hsa-mir-4761
5	C5orf27	ENSG00000236882	ENST00000357880	protein_coding	KNOWN	None	24687	291	96	95187936	95194724	1	None	FLJ38821, FIS
5	C5orf27	ENSG00000236882	ENST00000436592	protein_coding	KNOWN	None	24687	291	96	95187936	95195837	1	None	FLJ38821, FIS
HSCHR6_MHC_COX	WASF5P	ENSG00000231433	ENST00000414327	processed_pseudogene	KNOWN	None	21665	None	None	31246323	31247777	-1	None	Em:D84394.5
7	None	ENSG00000228953	ENST00000457376	processed_pseudogene	KNOWN	None	None	None	None	23695301	23695480	1	None	None
16	SLC6A2	ENSG00000103546	ENST00000568943	protein_coding	KNOWN	CCDS10754	11048	1854	617	55689516	55736258	1	NET1, NAT1, SLC6A5	NET
16	SLC6A2	ENSG00000103546	ENST00000568529	protein_coding	PUTATIVE	None	11048	887	294	55689998	55728025	1	NET1, NAT1, SLC6A5	NET
16	SLC6A2	ENSG00000103546	ENST00000414754	protein_coding	NOVEL	None	11048	1686	561	55690022	55737662	1	NET1, NAT1, SLC6A5	NET
16	SLC6A2	ENSG00000103546	ENST00000568655	protein_coding	PUTATIVE	None	11048	600	199	55690166	55706043	1	NET1, NAT1, SLC6A5	NET
16	SLC6A2	ENSG00000103546	ENST00000379906	protein_coding	KNOWN	CCDS10754	11048	1854	617	55690352	55737700	1	NET1, NAT1, SLC6A5	NET
16	SLC6A2	ENSG00000103546	ENST00000561820	protein_coding	KNOWN	None	11048	1815	604	55690530	55739560	1	NET1, NAT1, SLC6A5	NET
16	SLC6A2	ENSG00000103546	ENST00000566163	protein_coding	NOVEL	None	11048	1719	572	55690567	55736258	1	NET1, NAT1, SLC6A5	NET
16	SLC6A2	ENSG00000103546	ENST00000567238	protein_coding	PUTATIVE	CCDS58463	11048	1539	512	55705583	55737703	1	NET1, NAT1, SLC6A5	NET
16	SLC6A2	ENSG00000103546	ENST00000574918	protein_coding	PUTATIVE	None	11048	176	57	55734186	55739765	1	NET1, NAT1, SLC6A5	NET
16	SLC6A2	ENSG00000103546	ENST00000219833	protein_coding	KNOWN	CCDS54011	11048	1887	628	55690556	55740104	1	NET1, NAT1, SLC6A5	NET
22	MIR185	ENSG00000208023	ENST00000385288	miRNA	KNOWN	None	31556	None	None	20020662	20020743	1	MIRN185	hsa-mir-185
1	TGFBR3	ENSG00000069702	ENST00000533089	nonsense_mediated_decay	KNOWN	None	11774	270	89	92146455	92327603	-1	None	betaglycan, BGCAN
1	TGFBR3	ENSG00000069702	ENST00000370399	protein_coding	KNOWN	CCDS55614	11774	2553	850	92147983	92371892	-1	None	betaglycan, BGCAN
1	TGFBR3	ENSG00000069702	ENST00000525962	protein_coding	KNOWN	CCDS30770	11774	2556	851	92147987	92327150	-1	None	betaglycan, BGCAN
1	TGFBR3	ENSG00000069702	ENST00000532540	nonsense_mediated_decay	KNOWN	None	11774	150	49	92148204	92351489	-1	None	betaglycan, BGCAN
1	TGFBR3	ENSG00000069702	ENST00000465892	protein_coding	KNOWN	CCDS55614	11774	2553	850	92149286	92351666	-1	None	betaglycan, BGCAN
1	TGFBR3	ENSG00000069702	ENST00000470600	retained_intron	KNOWN	None	11774	None	None	92161047	92177920	-1	None	betaglycan, BGCAN
1	TGFBR3	ENSG00000069702	ENST00000529608	retained_intron	KNOWN	None	11774	None	None	92185450	92193475	-1	None	betaglycan, BGCAN
1	TGFBR3	ENSG00000069702	ENST00000468996	processed_transcript	KNOWN	None	11774	None	None	92193334	92231989	-1	None	betaglycan, BGCAN
1	TGFBR3	ENSG00000069702	ENST00000417833	protein_coding	KNOWN	None	11774	106	34	92262984	92351679	-1	None	betaglycan, BGCAN
1	TGFBR3	ENSG00000069702	ENST00000533370	processed_transcript	KNOWN	None	11774	None	None	92329396	92351708	-1	None	betaglycan, BGCAN
1	TGFBR3	ENSG00000069702	ENST00000212355	protein_coding	KNOWN	CCDS30770	11774	2556	851	92145902	92351787	-1	None	betaglycan, BGCAN
10	RNA5SP310	ENSG00000239152	ENST00000459084	rRNA	KNOWN	None	43210	None	None	46351755	46351870	1	RN5S310	None
19	ZNF428	ENSG00000131116	ENST00000300811	protein_coding	KNOWN	CCDS12626	20804	567	188	44111371	44124026	-1	C19orf37	MGC51082, Zfp428
19	ZNF428	ENSG00000131116	ENST00000598676	protein_coding	NOVEL	None	20804	655	217	44111780	44123751	-1	C19orf37	MGC51082, Zfp428
19	ZNF428	ENSG00000131116	ENST00000595304	retained_intron	KNOWN	None	20804	None	None	44118089	44123780	-1	C19orf37	MGC51082, Zfp428
9	None	ENSG00000229198	ENST00000418128	unprocessed_pseudogene	KNOWN	None	None	None	None	67789326	67789530	-1	None	None
9	None	ENSG00000233172	ENST00000419793	unprocessed_pseudogene	KNOWN	None	None	None	None	67789674	67789866	1	None	None
3	None	ENSG00000228308	ENST00000451289	lincRNA	KNOWN	None	None	None	None	176531943	176534789	-1	None	None
7	None	ENSG00000223275	ENST00000411343	miRNA	NOVEL	None	None	None	None	23708896	23708973	-1	None	None
22	None	ENSG00000236540	ENST00000415503	antisense	KNOWN	None	None	None	None	20050503	20053600	-1	None	None
22	None	ENSG00000236540	ENST00000600937	antisense	KNOWN	None	None	None	None	20050534	20056685	-1	None	None
22	None	ENSG00000236540	ENST00000595864	antisense	KNOWN	None	None	None	None	20050534	20057784	-1	None	None
22	None	ENSG00000236540	ENST00000596334	antisense	KNOWN	None	None	None	None	20050534	20057797	-1	None	None
22	None	ENSG00000236540	ENST00000600617	antisense	KNOWN	None	None	None	None	20050534	20057977	-1	None	None
22	None	ENSG00000236540	ENST00000601746	antisense	KNOWN	None	None	None	None	20050534	20058023	-1	None	None
22	None	ENSG00000236540	ENST00000598339	antisense	KNOWN	None	None	None	None	20050534	20058045	-1	None	None
3	MTND5P15	ENSG00000231888	ENST00000434246	processed_pseudogene	KNOWN	None	42277	None	None	176728507	176728855	-1	None	None
19	AURKC	ENSG00000105146	ENST00000415300	protein_coding	KNOWN	CCDS46205	11391	873	290	57742377	57746785	1	STK13	AurC, ARK3
19	AURKC	ENSG00000105146	ENST00000302804	protein_coding	KNOWN	CCDS33128	11391	930	309	57742431	57746916	1	STK13	AurC, ARK3
19	AURKC	ENSG00000105146	ENST00000601799	nonsense_mediated_decay	KNOWN	None	11391	141	46	57742508	57746916	1	STK13	AurC, ARK3
19	AURKC	ENSG00000105146	ENST00000599062	protein_coding	NOVEL	None	11391	921	306	57742617	57746785	1	STK13	AurC, ARK3
19	AURKC	ENSG00000105146	ENST00000598785	protein_coding	KNOWN	CCDS46206	11391	828	275	57742987	57746915	1	STK13	AurC, ARK3
19	AURKC	ENSG00000105146	ENST00000596375	nonsense_mediated_decay	KNOWN	None	11391	342	113	57743096	57746771	1	STK13	AurC, ARK3
19	AURKC	ENSG00000105146	ENST00000594599	protein_coding	NOVEL	None	11391	414	137	57743986	57746916	1	STK13	AurC, ARK3
19	AURKC	ENSG00000105146	ENST00000448930	protein_coding	KNOWN	CCDS46206	11391	828	275	57742377	57746915	1	STK13	AurC, ARK3
16	None	ENSG00000235560	ENST00000457283	antisense	KNOWN	None	None	None	None	30546073	30548465	1	None	None
16	None	ENSG00000235560	ENST00000569752	antisense	KNOWN	None	None	None	None	30546432	30547520	1	None	None
12	CAPZA3	ENSG00000177938	ENST00000317658	protein_coding	KNOWN	CCDS8681	24205	900	299	18891045	18892121	1	None	Gsg3, CAPPA3
10	FRMPD2P2	ENSG00000150175	ENST00000431305	unprocessed_pseudogene	KNOWN	None	23453	None	None	46657899	46681603	-1	PDZK5B, PDZD5B, FRMPD2L2	bA556L1.2
10	FRMPD2P2	ENSG00000150175	ENST00000374337	unprocessed_pseudogene	KNOWN	None	23453	None	None	46657135	46675788	-1	PDZK5B, PDZD5B, FRMPD2L2	bA556L1.2
12	SRRM4	ENSG00000139767	ENST00000267260	protein_coding	KNOWN	CCDS44994	29389	1836	611	119419300	119600856	1	KIAA1853	nSR100
12	SRRM4	ENSG00000139767	ENST00000545224	processed_transcript	KNOWN	None	29389	None	None	119551900	119568554	1	KIAA1853	nSR100
12	SRRM4	ENSG00000139767	ENST00000537597	processed_transcript	KNOWN	None	29389	None	None	119562054	119570968	1	KIAA1853	nSR100
3	TBL1XR1-AS1	ENSG00000231310	ENST00000454723	antisense	KNOWN	None	41243	None	None	176762649	176765711	1	None	None
7	None	ENSG00000234286	ENST00000454029	antisense	KNOWN	None	None	None	None	23719814	23720405	-1	None	None
19	None	ENSG00000266927	ENST00000591918	lincRNA	KNOWN	None	None	None	None	786650	787037	1	None	None
13	RPS4XP16	ENSG00000224892	ENST00000596904	processed_transcript	KNOWN	None	36365	None	None	52028300	52035152	1	RPS4P16	None
13	RPS4XP16	ENSG00000224892	ENST00000595905	processed_transcript	KNOWN	None	36365	None	None	52028300	52035448	1	RPS4P16	None
13	RPS4XP16	ENSG00000224892	ENST00000427198	transcribed_processed_pseudogene	KNOWN	None	36365	None	None	52034661	52035451	1	RPS4P16	None
20	ZHX3	ENSG00000174306	ENST00000421422	protein_coding	NOVEL	None	15935	2035	677	39807088	39832681	-1	TIX1	KIAA0395
20	ZHX3	ENSG00000174306	ENST00000309060	protein_coding	KNOWN	CCDS13315	15935	2871	956	39807088	39928718	-1	TIX1	KIAA0395
20	ZHX3	ENSG00000174306	ENST00000560364	nonsense_mediated_decay	KNOWN	None	15935	499	165	39810755	39946242	-1	TIX1	KIAA0395
20	ZHX3	ENSG00000174306	ENST00000559234	protein_coding	KNOWN	CCDS13315	15935	2871	956	39810755	39946242	-1	TIX1	KIAA0395
20	ZHX3	ENSG00000174306	ENST00000557816	protein_coding	NOVEL	None	15935	948	315	39813461	39928727	-1	TIX1	KIAA0395
20	ZHX3	ENSG00000174306	ENST00000558993	protein_coding	KNOWN	None	15935	948	315	39813461	39945826	-1	TIX1	KIAA0395
20	ZHX3	ENSG00000174306	ENST00000544979	protein_coding	NOVEL	None	15935	2910	969	39813467	39900898	-1	TIX1	KIAA0395
20	ZHX3	ENSG00000174306	ENST00000560361	protein_coding	KNOWN	CCDS13315	15935	2871	956	39813467	39928734	-1	TIX1	KIAA0395
20	ZHX3	ENSG00000174306	ENST00000559436	protein_coding	NOVEL	None	15935	384	127	39813471	39831036	-1	TIX1	KIAA0395
20	ZHX3	ENSG00000174306	ENST00000432768	protein_coding	KNOWN	CCDS13315	15935	2871	956	39813556	39928766	-1	TIX1	KIAA0395
20	ZHX3	ENSG00000174306	ENST00000441102	protein_coding	KNOWN	None	15935	355	117	39833202	39946237	-1	TIX1	KIAA0395
20	ZHX3	ENSG00000174306	ENST00000373261	protein_coding	KNOWN	None	15935	289	95	39833268	39928718	-1	TIX1	KIAA0395
20	ZHX3	ENSG00000174306	ENST00000436440	protein_coding	KNOWN	None	15935	269	88	39833288	39928718	-1	TIX1	KIAA0395
20	ZHX3	ENSG00000174306	ENST00000436099	protein_coding	KNOWN	None	15935	143	46	39833414	39928714	-1	TIX1	KIAA0395
20	ZHX3	ENSG00000174306	ENST00000419740	protein_coding	KNOWN	None	15935	139	45	39833418	39900893	-1	TIX1	KIAA0395
20	ZHX3	ENSG00000174306	ENST00000487057	processed_transcript	KNOWN	None	15935	None	None	39842398	39928730	-1	TIX1	KIAA0395
20	ZHX3	ENSG00000174306	ENST00000561291	processed_transcript	KNOWN	None	15935	None	None	39867367	39900885	-1	TIX1	KIAA0395
20	ZHX3	ENSG00000174306	ENST00000485686	processed_transcript	KNOWN	None	15935	None	None	39897621	39928757	-1	TIX1	KIAA0395
20	ZHX3	ENSG00000174306	ENST00000560759	processed_transcript	KNOWN	None	15935	None	None	39897630	39900904	-1	TIX1	KIAA0395
20	ZHX3	ENSG00000174306	ENST00000560456	processed_transcript	KNOWN	None	15935	None	None	39897630	39900913	-1	TIX1	KIAA0395
20	ZHX3	ENSG00000174306	ENST00000559028	processed_transcript	KNOWN	None	15935	None	None	39897630	39928767	-1	TIX1	KIAA0395
20	ZHX3	ENSG00000174306	ENST00000559296	processed_transcript	KNOWN	None	15935	None	None	39897630	39946312	-1	TIX1	KIAA0395
20	ZHX3	ENSG00000174306	ENST00000540170	protein_coding	KNOWN	CCDS13315	15935	2871	956	39807091	39928721	-1	TIX1	KIAA0395
4	None	ENSG00000251055	ENST00000507857	lincRNA	KNOWN	None	None	None	None	63994029	64009599	1	None	None
17	USH1G	ENSG00000182040	ENST00000319642	protein_coding	KNOWN	CCDS32725	16356	1386	461	72912176	72919351	-1	None	Sans, FLJ33924, ANKS4A
17	USH1G	ENSG00000182040	ENST00000579243	nonsense_mediated_decay	KNOWN	None	16356	348	115	72914011	72919351	-1	None	Sans, FLJ33924, ANKS4A
5	UBE2QL1	ENSG00000215218	ENST00000399816	protein_coding	KNOWN	CCDS47189	37269	486	161	6448736	6495022	1	None	FLJ25076
3	None	ENSG00000201343	ENST00000364473	misc_RNA	NOVEL	None	None	None	None	176838479	176838588	-1	None	None
9	None	ENSG00000236233	ENST00000315762	processed_transcript	KNOWN	None	None	None	None	67792167	67794649	1	None	None
9	None	ENSG00000236233	ENST00000452444	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	67793334	67793991	1	None	None
16	None	ENSG00000260310	ENST00000566325	sense_intronic	KNOWN	None	None	None	None	10670356	10672040	-1	None	None
4	LARP1BP1	ENSG00000231442	ENST00000506036	processed_pseudogene	KNOWN	None	37097	None	None	64215832	64217190	1	None	None
13	RN7SL320P	ENSG00000243900	ENST00000484133	misc_RNA	KNOWN	None	46336	None	None	52043886	52044181	1	None	None
22	None	ENSG00000268292	ENST00000600090	antisense	KNOWN	None	None	None	None	20052075	20053228	-1	None	None
11	ZP1	ENSG00000149506	ENST00000278853	protein_coding	KNOWN	CCDS31572	13187	1917	638	60635035	60643166	1	None	None
11	ZP1	ENSG00000149506	ENST00000540908	nonsense_mediated_decay	KNOWN	None	13187	122	39	60636630	60638593	1	None	None
11	ZP1	ENSG00000149506	ENST00000537203	retained_intron	KNOWN	None	13187	None	None	60637985	60643166	1	None	None
11	ZP1	ENSG00000149506	ENST00000542971	retained_intron	KNOWN	None	13187	None	None	60638314	60640754	1	None	None
11	ZP1	ENSG00000149506	ENST00000543020	retained_intron	KNOWN	None	13187	None	None	60640598	60642444	1	None	None
3	RNU6-681P	ENSG00000200882	ENST00000364012	snRNA	KNOWN	None	47644	None	None	176843805	176843908	-1	None	None
4	None	ENSG00000250775	ENST00000508825	lincRNA	KNOWN	None	None	None	None	64334419	64359996	-1	None	None
19	GLTSCR2	ENSG00000105373	ENST00000246802	protein_coding	KNOWN	CCDS12705	4333	1437	478	48248779	48260315	1	None	PICT-1
19	GLTSCR2	ENSG00000105373	ENST00000594525	retained_intron	KNOWN	None	4333	None	None	48248808	48255966	1	None	PICT-1
19	GLTSCR2	ENSG00000105373	ENST00000598681	processed_transcript	KNOWN	None	4333	None	None	48248822	48260001	1	None	PICT-1
19	GLTSCR2	ENSG00000105373	ENST00000600410	retained_intron	KNOWN	None	4333	None	None	48248822	48260314	1	None	PICT-1
19	GLTSCR2	ENSG00000105373	ENST00000599253	processed_transcript	KNOWN	None	4333	None	None	48248830	48249943	1	None	PICT-1
19	GLTSCR2	ENSG00000105373	ENST00000599582	processed_transcript	KNOWN	None	4333	None	None	48249148	48255810	1	None	PICT-1
19	GLTSCR2	ENSG00000105373	ENST00000595143	protein_coding	PUTATIVE	None	4333	797	264	48253435	48260262	1	None	PICT-1
19	GLTSCR2	ENSG00000105373	ENST00000600266	retained_intron	KNOWN	None	4333	None	None	48253493	48254779	1	None	PICT-1
19	GLTSCR2	ENSG00000105373	ENST00000597985	protein_coding	NOVEL	None	4333	603	200	48253503	48260315	1	None	PICT-1
19	GLTSCR2	ENSG00000105373	ENST00000598959	protein_coding	NOVEL	None	4333	448	148	48254294	48260315	1	None	PICT-1
19	GLTSCR2	ENSG00000105373	ENST00000594182	protein_coding	PUTATIVE	None	4333	300	99	48258731	48260314	1	None	PICT-1
19	GLTSCR2	ENSG00000105373	ENST00000598285	retained_intron	KNOWN	None	4333	None	None	48259787	48260305	1	None	PICT-1
13	SNRPGP11	ENSG00000229906	ENST00000411777	processed_pseudogene	KNOWN	None	39330	None	None	52070156	52070387	-1	None	None
15	ANXA2	ENSG00000182718	ENST00000396024	protein_coding	KNOWN	CCDS10175	537	1020	339	60639333	60690185	-1	ANX2, ANX2L4, CAL1H, LPC2D	LIP2
15	ANXA2	ENSG00000182718	ENST00000451270	protein_coding	KNOWN	CCDS10175	537	1020	339	60639526	60690242	-1	ANX2, ANX2L4, CAL1H, LPC2D	LIP2
15	ANXA2	ENSG00000182718	ENST00000332680	protein_coding	KNOWN	CCDS32256	537	1074	357	60639531	60690184	-1	ANX2, ANX2L4, CAL1H, LPC2D	LIP2
15	ANXA2	ENSG00000182718	ENST00000504475	retained_intron	KNOWN	None	537	None	None	60639536	60677026	-1	ANX2, ANX2L4, CAL1H, LPC2D	LIP2
15	ANXA2	ENSG00000182718	ENST00000560014	nonsense_mediated_decay	KNOWN	None	537	693	230	60639536	60679296	-1	ANX2, ANX2L4, CAL1H, LPC2D	LIP2
15	ANXA2	ENSG00000182718	ENST00000421017	protein_coding	KNOWN	CCDS10175	537	1020	339	60639541	60690185	-1	ANX2, ANX2L4, CAL1H, LPC2D	LIP2
15	ANXA2	ENSG00000182718	ENST00000559647	retained_intron	KNOWN	None	537	None	None	60641274	60643752	-1	ANX2, ANX2L4, CAL1H, LPC2D	LIP2
15	ANXA2	ENSG00000182718	ENST00000559176	protein_coding	NOVEL	None	537	744	247	60643391	60666704	-1	ANX2, ANX2L4, CAL1H, LPC2D	LIP2
15	ANXA2	ENSG00000182718	ENST00000558985	protein_coding	PUTATIVE	None	537	427	141	60643923	60690232	-1	ANX2, ANX2L4, CAL1H, LPC2D	LIP2
15	ANXA2	ENSG00000182718	ENST00000560466	protein_coding	PUTATIVE	None	537	418	138	60643932	60690185	-1	ANX2, ANX2L4, CAL1H, LPC2D	LIP2
15	ANXA2	ENSG00000182718	ENST00000559818	protein_coding	KNOWN	None	537	769	255	60643932	60690941	-1	ANX2, ANX2L4, CAL1H, LPC2D	LIP2
15	ANXA2	ENSG00000182718	ENST00000558132	protein_coding	NOVEL	None	537	525	174	60643981	60690185	-1	ANX2, ANX2L4, CAL1H, LPC2D	LIP2
15	ANXA2	ENSG00000182718	ENST00000561022	nonsense_mediated_decay	KNOWN	None	537	210	69	60643986	60690185	-1	ANX2, ANX2L4, CAL1H, LPC2D	LIP2
15	ANXA2	ENSG00000182718	ENST00000560367	protein_coding	KNOWN	None	537	682	226	60644582	60689537	-1	ANX2, ANX2L4, CAL1H, LPC2D	LIP2
15	ANXA2	ENSG00000182718	ENST00000558503	nonsense_mediated_decay	KNOWN	None	537	399	132	60646352	60690173	-1	ANX2, ANX2L4, CAL1H, LPC2D	LIP2
15	ANXA2	ENSG00000182718	ENST00000558998	protein_coding	PUTATIVE	None	537	237	78	60646353	60690163	-1	ANX2, ANX2L4, CAL1H, LPC2D	LIP2
15	ANXA2	ENSG00000182718	ENST00000559559	retained_intron	KNOWN	None	537	None	None	60647627	60690187	-1	ANX2, ANX2L4, CAL1H, LPC2D	LIP2
15	ANXA2	ENSG00000182718	ENST00000560389	protein_coding	KNOWN	None	537	528	175	60648118	60683496	-1	ANX2, ANX2L4, CAL1H, LPC2D	LIP2
15	ANXA2	ENSG00000182718	ENST00000560165	protein_coding	KNOWN	None	537	528	175	60648118	60690167	-1	ANX2, ANX2L4, CAL1H, LPC2D	LIP2
15	ANXA2	ENSG00000182718	ENST00000559113	protein_coding	PUTATIVE	None	537	177	58	60648118	60690185	-1	ANX2, ANX2L4, CAL1H, LPC2D	LIP2
15	ANXA2	ENSG00000182718	ENST00000557906	protein_coding	KNOWN	None	537	528	175	60648118	60690185	-1	ANX2, ANX2L4, CAL1H, LPC2D	LIP2
15	ANXA2	ENSG00000182718	ENST00000559725	protein_coding	PUTATIVE	None	537	135	44	60648160	60690200	-1	ANX2, ANX2L4, CAL1H, LPC2D	LIP2
15	ANXA2	ENSG00000182718	ENST00000559350	protein_coding	KNOWN	None	537	448	148	60649345	60683326	-1	ANX2, ANX2L4, CAL1H, LPC2D	LIP2
15	ANXA2	ENSG00000182718	ENST00000558558	protein_coding	KNOWN	None	537	403	133	60649390	60690185	-1	ANX2, ANX2L4, CAL1H, LPC2D	LIP2
15	ANXA2	ENSG00000182718	ENST00000558986	protein_coding	KNOWN	None	537	400	132	60649393	60683350	-1	ANX2, ANX2L4, CAL1H, LPC2D	LIP2
15	ANXA2	ENSG00000182718	ENST00000559467	protein_coding	KNOWN	None	537	357	118	60653140	60690177	-1	ANX2, ANX2L4, CAL1H, LPC2D	LIP2
15	ANXA2	ENSG00000182718	ENST00000559956	protein_coding	KNOWN	None	537	357	118	60653140	60690183	-1	ANX2, ANX2L4, CAL1H, LPC2D	LIP2
15	ANXA2	ENSG00000182718	ENST00000559780	protein_coding	PUTATIVE	None	537	440	145	60653141	60690173	-1	ANX2, ANX2L4, CAL1H, LPC2D	LIP2
15	ANXA2	ENSG00000182718	ENST00000560468	protein_coding	KNOWN	None	537	331	109	60653166	60690185	-1	ANX2, ANX2L4, CAL1H, LPC2D	LIP2
15	ANXA2	ENSG00000182718	ENST00000561445	processed_transcript	KNOWN	None	537	None	None	60653647	60690185	-1	ANX2, ANX2L4, CAL1H, LPC2D	LIP2
15	ANXA2	ENSG00000182718	ENST00000557937	processed_transcript	KNOWN	None	537	None	None	60654826	60690185	-1	ANX2, ANX2L4, CAL1H, LPC2D	LIP2
15	ANXA2	ENSG00000182718	ENST00000557904	protein_coding	KNOWN	None	537	243	80	60656628	60695082	-1	ANX2, ANX2L4, CAL1H, LPC2D	LIP2
15	ANXA2	ENSG00000182718	ENST00000559370	protein_coding	KNOWN	None	537	196	64	60656675	60690185	-1	ANX2, ANX2L4, CAL1H, LPC2D	LIP2
15	ANXA2	ENSG00000182718	ENST00000558169	protein_coding	KNOWN	None	537	142	46	60674547	60690187	-1	ANX2, ANX2L4, CAL1H, LPC2D	LIP2
15	ANXA2	ENSG00000182718	ENST00000560546	retained_intron	KNOWN	None	537	None	None	60677756	60690185	-1	ANX2, ANX2L4, CAL1H, LPC2D	LIP2
15	ANXA2	ENSG00000182718	ENST00000557986	protein_coding	PUTATIVE	None	537	14	3	60685296	60690172	-1	ANX2, ANX2L4, CAL1H, LPC2D	LIP2
15	ANXA2	ENSG00000182718	ENST00000560936	retained_intron	KNOWN	None	537	None	None	60687846	60690185	-1	ANX2, ANX2L4, CAL1H, LPC2D	LIP2
15	ANXA2	ENSG00000182718	ENST00000560495	retained_intron	KNOWN	None	537	None	None	60688106	60690187	-1	ANX2, ANX2L4, CAL1H, LPC2D	LIP2
16	None	ENSG00000263279	ENST00000576710	antisense	KNOWN	None	None	None	None	10785130	10786830	1	None	None
3	LINC00501	ENSG00000203645	ENST00000425388	lincRNA	KNOWN	None	43439	None	None	177012230	177041206	1	None	None
16	None	ENSG00000260494	ENST00000569728	unprocessed_pseudogene	KNOWN	None	None	None	None	30548523	30549552	-1	None	None
13	MIR4703	ENSG00000266611	ENST00000577728	miRNA	KNOWN	None	41817	None	None	52126725	52126803	1	None	hsa-mir-4703
22	MIR3618	ENSG00000266567	ENST00000580330	miRNA	KNOWN	None	38937	None	None	20073269	20073356	1	None	hsa-mir-3618
4	RNU6-191P	ENSG00000252104	ENST00000516295	snRNA	KNOWN	None	47154	None	None	65263412	65263505	-1	None	None
X	None	ENSG00000230039	ENST00000426799	processed_pseudogene	KNOWN	None	None	None	None	65041097	65042091	-1	None	None
7	PCMTD1P3	ENSG00000234800	ENST00000451824	processed_pseudogene	KNOWN	None	38806	None	None	23760930	23761401	-1	None	None
22	MIR1306	ENSG00000221366	ENST00000408439	miRNA	KNOWN	None	35371	None	None	20073581	20073665	1	MIRN1306	hsa-mir-1306
5	None	ENSG00000254011	ENST00000520587	sense_intronic	KNOWN	None	None	None	None	173600104	173608817	1	None	None
16	None	ENSG00000263241	ENST00000575007	unprocessed_pseudogene	KNOWN	None	None	None	None	10812490	10813619	-1	None	None
X	None	ENSG00000217835	ENST00000456392	processed_pseudogene	KNOWN	None	None	None	None	65176131	65177038	-1	None	None
11	None	ENSG00000255015	ENST00000527100	lincRNA	KNOWN	None	None	None	None	122165646	122172471	-1	None	None
5	None	ENSG00000249722	ENST00000503317	lincRNA	KNOWN	None	None	None	None	173756615	173757506	1	None	None
16	None	ENSG00000262107	ENST00000571794	unprocessed_pseudogene	KNOWN	None	None	None	None	10813690	10813872	1	None	None
1	None	ENSG00000224581	ENST00000447851	unprocessed_pseudogene	KNOWN	None	None	None	None	13632348	13635279	1	None	None
5	None	ENSG00000251235	ENST00000504370	processed_pseudogene	KNOWN	None	None	None	None	75672500	75672974	1	None	None
5	None	ENSG00000251235	ENST00000540181	processed_pseudogene	KNOWN	None	None	None	None	75672500	75672967	1	None	None
3	ASS1P7	ENSG00000236893	ENST00000423174	processed_pseudogene	KNOWN	None	770	None	None	177014949	177016174	-1	ASSP7	None
HSCHR5_1_CTG1	CCDC125	ENSG00000262407	ENST00000571019	processed_transcript	KNOWN	None	28924	None	None	68577165	68616348	-1	None	KENAE
HSCHR5_1_CTG1	CCDC125	ENSG00000262407	ENST00000573254	protein_coding	PUTATIVE	None	28924	939	312	68577879	68628568	-1	None	KENAE
HSCHR5_1_CTG1	CCDC125	ENSG00000262407	ENST00000571468	protein_coding	KNOWN	None	28924	1161	386	68578298	68628552	-1	None	KENAE
HSCHR5_1_CTG1	CCDC125	ENSG00000262407	ENST00000572100	protein_coding	KNOWN	None	28924	1536	511	68578550	68616305	-1	None	KENAE
HSCHR5_1_CTG1	CCDC125	ENSG00000262407	ENST00000577070	retained_intron	KNOWN	None	28924	None	None	68603476	68619612	-1	None	KENAE
HSCHR5_1_CTG1	CCDC125	ENSG00000262407	ENST00000574651	processed_transcript	KNOWN	None	28924	None	None	68609447	68616345	-1	None	KENAE
16	None	ENSG00000239791	ENST00000486926	antisense	KNOWN	None	None	None	None	30583571	30594213	1	None	None
16	None	ENSG00000239791	ENST00000492040	antisense	KNOWN	None	None	None	None	30583576	30595181	1	None	None
11	None	ENSG00000255219	ENST00000526777	antisense	KNOWN	None	None	None	None	122165898	122178727	1	None	None
X	RNA5SP500	ENSG00000201356	ENST00000364486	rRNA	KNOWN	None	43400	None	None	29000969	29001087	-1	RN5S500	None
5	None	ENSG00000250574	ENST00000505876	processed_pseudogene	KNOWN	None	None	None	None	75806265	75806591	1	None	None
8	PRSS55	ENSG00000184647	ENST00000328655	protein_coding	KNOWN	CCDS5976	30824	1059	352	10383056	10396328	1	None	T-SP1, UNQ9391
8	PRSS55	ENSG00000184647	ENST00000522210	protein_coding	KNOWN	CCDS56523	30824	831	276	10383056	10411676	1	None	T-SP1, UNQ9391
8	PRSS55	ENSG00000184647	ENST00000518641	nonsense_mediated_decay	KNOWN	None	30824	547	181	10386922	10402708	1	None	T-SP1, UNQ9391
X	None	ENSG00000227393	ENST00000416609	processed_pseudogene	KNOWN	None	None	None	None	29387118	29387962	-1	None	None
5	ASS1P10	ENSG00000215325	ENST00000507235	processed_pseudogene	KNOWN	None	760	None	None	144608374	144609617	1	ASSP10	None
3	None	ENSG00000226782	ENST00000457125	lincRNA	KNOWN	None	None	None	None	177055416	177066954	-1	None	None
5	None	ENSG00000249713	ENST00000511327	antisense	KNOWN	None	None	None	None	75902433	75904795	-1	None	None
22	GAPDHP37	ENSG00000231907	ENST00000442317	processed_pseudogene	KNOWN	None	37791	None	None	41069488	41070455	-1	None	None
X	MIR4666B	ENSG00000264090	ENST00000578142	miRNA	KNOWN	None	43486	None	None	29592395	29592475	1	None	hsa-mir-4666b
2	TMEM37	ENSG00000171227	ENST00000409826	protein_coding	PUTATIVE	None	18216	609	202	120187477	120195175	1	None	PR1, PR
2	TMEM37	ENSG00000171227	ENST00000417645	protein_coding	PUTATIVE	None	18216	200	65	120187620	120194626	1	None	PR1, PR
2	TMEM37	ENSG00000171227	ENST00000306406	protein_coding	KNOWN	CCDS33281	18216	573	190	120189445	120196096	1	None	PR1, PR
2	TMEM37	ENSG00000171227	ENST00000465296	processed_transcript	KNOWN	None	18216	None	None	120189666	120195123	1	None	PR1, PR
1	TAS1R1	ENSG00000173662	ENST00000333172	protein_coding	KNOWN	CCDS81	14448	2526	841	6615241	6639817	1	GPR70	T1R1, TR1
1	TAS1R1	ENSG00000173662	ENST00000351136	protein_coding	KNOWN	CCDS82	14448	1764	587	6615369	6639686	1	GPR70	T1R1, TR1
1	TAS1R1	ENSG00000173662	ENST00000411823	protein_coding	PUTATIVE	None	14448	1220	405	6631001	6639486	1	GPR70	T1R1, TR1
1	TAS1R1	ENSG00000173662	ENST00000415267	protein_coding	PUTATIVE	None	14448	740	245	6631001	6639486	1	GPR70	T1R1, TR1
1	TAS1R1	ENSG00000173662	ENST00000328191	protein_coding	KNOWN	None	14448	1443	480	6615338	6639782	1	GPR70	T1R1, TR1
5	None	ENSG00000225407	ENST00000507514	antisense	KNOWN	None	None	None	None	75987264	76012040	-1	None	None
19	APOC4-APOC2	ENSG00000224916	ENST00000585685	nonsense_mediated_decay	KNOWN	CCDS12649	44426	384	127	45445495	45452822	1	None	None
19	APOC4-APOC2	ENSG00000224916	ENST00000589057	protein_coding	NOVEL	None	44426	537	178	45445513	45452627	1	None	None
19	APOC4-APOC2	ENSG00000224916	ENST00000592257	processed_transcript	KNOWN	None	44426	None	None	45449292	45452652	1	None	None
19	APOC4-APOC2	ENSG00000224916	ENST00000591597	processed_transcript	KNOWN	None	44426	None	None	45449313	45452656	1	None	None
19	APOC4-APOC2	ENSG00000224916	ENST00000419266	protein_coding	KNOWN	CCDS12649	44426	384	127	45445495	45452820	1	None	None
19	APOC4-APOC2	ENSG00000224916	ENST00000436871	protein_coding	KNOWN	CCDS12649	44426	384	127	45445495	45448751	1	None	None
19	APOC4-APOC2	ENSG00000224916	ENST00000252490	protein_coding	KNOWN	CCDS12650	44426	306	101	45449243	45452814	1	None	None
22	None	ENSG00000230769	ENST00000424746	processed_pseudogene	KNOWN	None	None	None	None	41184781	41185271	-1	None	None
5	NNT	ENSG00000112992	ENST00000505678	protein_coding	KNOWN	None	7863	597	198	43602794	43616165	1	None	None
5	NNT	ENSG00000112992	ENST00000512422	protein_coding	KNOWN	None	7863	652	216	43602807	43619186	1	None	None
5	NNT	ENSG00000112992	ENST00000264663	protein_coding	KNOWN	CCDS3949	7863	3261	1086	43602825	43707507	1	None	None
5	NNT	ENSG00000112992	ENST00000344920	protein_coding	KNOWN	CCDS3949	7863	3261	1086	43603229	43705334	1	None	None
5	NNT	ENSG00000112992	ENST00000512996	protein_coding	PUTATIVE	None	7863	2868	955	43603301	43705588	1	None	None
5	NNT	ENSG00000112992	ENST00000515208	protein_coding	PUTATIVE	None	7863	175	57	43613193	43616136	1	None	None
5	NNT	ENSG00000112992	ENST00000506893	retained_intron	KNOWN	None	7863	None	None	43644847	43645767	1	None	None
5	NNT	ENSG00000112992	ENST00000503651	protein_coding	PUTATIVE	None	7863	174	57	43645459	43648553	1	None	None
5	NNT	ENSG00000112992	ENST00000513390	retained_intron	KNOWN	None	7863	None	None	43651886	43653682	1	None	None
5	NNT	ENSG00000112992	ENST00000503059	nonsense_mediated_decay	KNOWN	None	7863	35	10	43677881	43704846	1	None	None
5	ELL2	ENSG00000118985	ENST00000237853	protein_coding	KNOWN	CCDS4080	17064	1923	640	95220802	95297775	-1	None	None
5	ELL2	ENSG00000118985	ENST00000508757	protein_coding	PUTATIVE	None	17064	413	136	95226653	95234021	-1	None	None
5	ELL2	ENSG00000118985	ENST00000513343	protein_coding	NOVEL	None	17064	455	150	95234468	95297552	-1	None	None
5	ELL2	ENSG00000118985	ENST00000505584	retained_intron	KNOWN	None	17064	None	None	95235932	95236836	-1	None	None
5	ELL2	ENSG00000118985	ENST00000506628	processed_transcript	KNOWN	None	17064	None	None	95242228	95297491	-1	None	None
5	ELL2	ENSG00000118985	ENST00000508694	retained_intron	KNOWN	None	17064	None	None	95249030	95278717	-1	None	None
5	ELL2	ENSG00000118985	ENST00000515020	retained_intron	KNOWN	None	17064	None	None	95278622	95297486	-1	None	None
5	ELL2	ENSG00000118985	ENST00000431061	protein_coding	KNOWN	None	17064	1173	390	95224368	95297553	-1	None	None
11	RNU4ATAC10P	ENSG00000252776	ENST00000516967	snRNA	KNOWN	None	46896	None	None	122319918	122320039	1	None	None
18	SERPINB3	ENSG00000057149	ENST00000283752	protein_coding	KNOWN	CCDS11987	10569	1173	390	61322431	61329197	-1	SCC, SCCA1	T4-A, HsT1196
18	SERPINB3	ENSG00000057149	ENST00000332821	protein_coding	NOVEL	None	10569	1017	338	61322432	61329118	-1	SCC, SCCA1	T4-A, HsT1196
6	TAAR9	ENSG00000237110	ENST00000434551	polymorphic_pseudogene	KNOWN	None	20977	1042	346	132859429	132860470	1	TRAR3	TA3, TAR3
5	None	ENSG00000249306	ENST00000515513	lincRNA	KNOWN	None	None	None	None	173763298	173953457	1	None	None
5	None	ENSG00000249306	ENST00000507361	lincRNA	KNOWN	None	None	None	None	173763357	173955718	1	None	None
5	None	ENSG00000249306	ENST00000510234	lincRNA	KNOWN	None	None	None	None	173763498	173954048	1	None	None
5	None	ENSG00000249306	ENST00000504512	lincRNA	KNOWN	None	None	None	None	173930686	173953383	1	None	None
5	None	ENSG00000249306	ENST00000511707	lincRNA	KNOWN	None	None	None	None	173930818	173947668	1	None	None
5	None	ENSG00000249306	ENST00000506862	lincRNA	KNOWN	None	None	None	None	173944762	173959460	1	None	None
12	None	ENSG00000221770	ENST00000408843	miRNA	NOVEL	None	None	None	None	100551034	100551116	-1	None	None
22	JTBP1	ENSG00000233603	ENST00000441314	processed_pseudogene	KNOWN	None	39180	None	None	41194043	41194289	1	None	None
5	MROH2B	ENSG00000171495	ENST00000511934	retained_intron	KNOWN	None	26857	None	None	40998119	41000170	-1	HEATR7B2	DKFZp781F0822, FLJ40243
5	MROH2B	ENSG00000171495	ENST00000503890	retained_intron	KNOWN	None	26857	None	None	40998122	41051659	-1	HEATR7B2	DKFZp781F0822, FLJ40243
5	MROH2B	ENSG00000171495	ENST00000515297	retained_intron	KNOWN	None	26857	None	None	40998122	41058308	-1	HEATR7B2	DKFZp781F0822, FLJ40243
5	MROH2B	ENSG00000171495	ENST00000506092	protein_coding	PUTATIVE	None	26857	3423	1140	40998123	41058326	-1	HEATR7B2	DKFZp781F0822, FLJ40243
5	MROH2B	ENSG00000171495	ENST00000399564	protein_coding	KNOWN	CCDS47202	26857	4758	1585	40998124	41071405	-1	HEATR7B2	DKFZp781F0822, FLJ40243
5	MROH2B	ENSG00000171495	ENST00000508575	retained_intron	KNOWN	None	26857	None	None	41048306	41071444	-1	HEATR7B2	DKFZp781F0822, FLJ40243
10	None	ENSG00000231082	ENST00000436500	lincRNA	KNOWN	None	None	None	None	82409553	82413488	1	None	None
17	OTOP2	ENSG00000183034	ENST00000584711	retained_intron	KNOWN	None	19657	None	None	72920370	72924140	1	None	None
17	OTOP2	ENSG00000183034	ENST00000580223	protein_coding	KNOWN	CCDS11708	19657	1689	562	72920698	72930007	1	None	None
17	OTOP2	ENSG00000183034	ENST00000331427	protein_coding	KNOWN	CCDS11708	19657	1689	562	72920370	72930006	1	None	None
5	None	ENSG00000250842	ENST00000504620	lincRNA	KNOWN	None	None	None	None	144717495	144761233	-1	None	None
22	MIR4766	ENSG00000266594	ENST00000584704	miRNA	KNOWN	None	41680	None	None	41209887	41209962	-1	None	hsa-mir-4766
7	None	ENSG00000231328	ENST00000458300	processed_pseudogene	KNOWN	None	None	None	None	23850763	23851279	-1	None	None
22	None	ENSG00000238887	ENST00000459164	snoRNA	NOVEL	None	None	None	None	41310883	41310986	1	None	None
19	CADM4	ENSG00000105767	ENST00000222374	protein_coding	KNOWN	CCDS12627	30825	1167	388	44126520	44143991	-1	IGSF4C	TSLL2, Necl-4, SynCAM4
19	CADM4	ENSG00000105767	ENST00000593506	processed_transcript	KNOWN	None	30825	None	None	44128988	44130123	-1	IGSF4C	TSLL2, Necl-4, SynCAM4
5	None	ENSG00000248125	ENST00000512571	lincRNA	KNOWN	None	None	None	None	144809431	144820738	1	None	None
5	None	ENSG00000248125	ENST00000513657	lincRNA	KNOWN	None	None	None	None	144809466	144830662	1	None	None
22	RNU6-379P	ENSG00000200683	ENST00000363813	snRNA	KNOWN	None	47342	None	None	41313747	41313850	1	None	None
2	TBC1D8	ENSG00000204634	ENST00000376840	protein_coding	KNOWN	CCDS46375	17791	3423	1140	101624079	101767715	-1	None	HBLP1, VRP, AD3
2	TBC1D8	ENSG00000204634	ENST00000409318	protein_coding	KNOWN	None	17791	3468	1155	101624079	101767846	-1	None	HBLP1, VRP, AD3
2	TBC1D8	ENSG00000204634	ENST00000494011	retained_intron	KNOWN	None	17791	None	None	101627502	101638835	-1	None	HBLP1, VRP, AD3
2	TBC1D8	ENSG00000204634	ENST00000473937	retained_intron	KNOWN	None	17791	None	None	101644765	101649406	-1	None	HBLP1, VRP, AD3
2	TBC1D8	ENSG00000204634	ENST00000485875	retained_intron	KNOWN	None	17791	None	None	101644807	101646434	-1	None	HBLP1, VRP, AD3
2	TBC1D8	ENSG00000204634	ENST00000481317	processed_transcript	KNOWN	None	17791	None	None	101644929	101648943	-1	None	HBLP1, VRP, AD3
2	TBC1D8	ENSG00000204634	ENST00000487392	processed_transcript	KNOWN	None	17791	None	None	101675914	101726425	-1	None	HBLP1, VRP, AD3
2	TBC1D8	ENSG00000204634	ENST00000463469	processed_transcript	KNOWN	None	17791	None	None	101706715	101869328	-1	None	HBLP1, VRP, AD3
2	TBC1D8	ENSG00000204634	ENST00000462819	processed_transcript	KNOWN	None	17791	None	None	101804286	101869317	-1	None	HBLP1, VRP, AD3
2	TBC1D8	ENSG00000204634	ENST00000485851	processed_transcript	KNOWN	None	17791	None	None	101804446	101869326	-1	None	HBLP1, VRP, AD3
19	None	ENSG00000269741	ENST00000599166	nonsense_mediated_decay	KNOWN	None	None	276	91	51499274	51507085	-1	None	None
19	None	ENSG00000269741	ENST00000250366	nonsense_mediated_decay	KNOWN	CCDS12816	None	753	250	51503806	51512837	-1	None	None
16	DOC2A	ENSG00000149927	ENST00000350119	protein_coding	KNOWN	CCDS10666	2985	1203	400	30016830	30022401	-1	None	None
16	DOC2A	ENSG00000149927	ENST00000564233	retained_intron	KNOWN	None	2985	None	None	30016837	30023043	-1	None	None
16	DOC2A	ENSG00000149927	ENST00000564357	protein_coding	NOVEL	None	2985	712	236	30016965	30018574	-1	None	None
16	DOC2A	ENSG00000149927	ENST00000564944	protein_coding	KNOWN	CCDS10666	2985	1203	400	30017120	30022742	-1	None	None
16	DOC2A	ENSG00000149927	ENST00000564979	protein_coding	KNOWN	CCDS10666	2985	1203	400	30017193	30023625	-1	None	None
16	DOC2A	ENSG00000149927	ENST00000566310	nonsense_mediated_decay	KNOWN	None	2985	492	163	30017440	30022348	-1	None	None
16	DOC2A	ENSG00000149927	ENST00000561671	nonsense_mediated_decay	KNOWN	None	2985	180	59	30017615	30022348	-1	None	None
16	DOC2A	ENSG00000149927	ENST00000565273	protein_coding	KNOWN	None	2985	656	217	30018492	30022305	-1	None	None
16	DOC2A	ENSG00000149927	ENST00000567332	protein_coding	PUTATIVE	None	2985	241	79	30018553	30022312	-1	None	None
16	DOC2A	ENSG00000149927	ENST00000563378	protein_coding	KNOWN	None	2985	528	175	30020316	30023657	-1	None	None
16	DOC2A	ENSG00000149927	ENST00000563125	protein_coding	PUTATIVE	None	2985	160	52	30020330	30021837	-1	None	None
16	DOC2A	ENSG00000149927	ENST00000574405	protein_coding	PUTATIVE	None	2985	39	12	30020547	30032616	-1	None	None
16	DOC2A	ENSG00000149927	ENST00000566456	retained_intron	KNOWN	None	2985	None	None	30020607	30022314	-1	None	None
16	DOC2A	ENSG00000149927	ENST00000570194	processed_transcript	KNOWN	None	2985	None	None	30022240	30034540	-1	None	None
16	DOC2A	ENSG00000149927	ENST00000567824	processed_transcript	KNOWN	None	2985	None	None	30023585	30033009	-1	None	None
16	DOC2A	ENSG00000149927	ENST00000564075	processed_transcript	KNOWN	None	2985	None	None	30026291	30034422	-1	None	None
16	DOC2A	ENSG00000149927	ENST00000572637	processed_transcript	KNOWN	None	2985	None	None	30029963	30034591	-1	None	None
22	None	ENSG00000222698	ENST00000410766	misc_RNA	NOVEL	None	None	None	None	41441501	41441595	1	None	None
11	DIXDC1	ENSG00000150764	ENST00000529225	protein_coding	PUTATIVE	None	23695	657	218	111797868	111846719	1	None	KIAA1735
11	DIXDC1	ENSG00000150764	ENST00000389821	processed_transcript	KNOWN	None	23695	None	None	111807927	111893308	1	None	KIAA1735
11	DIXDC1	ENSG00000150764	ENST00000528399	retained_intron	KNOWN	None	23695	None	None	111808144	111845091	1	None	KIAA1735
11	DIXDC1	ENSG00000150764	ENST00000531396	protein_coding	KNOWN	None	23695	660	219	111808151	111845764	1	None	KIAA1735
11	DIXDC1	ENSG00000150764	ENST00000524385	processed_transcript	KNOWN	None	23695	None	None	111847630	111859779	1	None	KIAA1735
11	DIXDC1	ENSG00000150764	ENST00000530411	processed_transcript	KNOWN	None	23695	None	None	111848033	111892703	1	None	KIAA1735
11	DIXDC1	ENSG00000150764	ENST00000524609	retained_intron	KNOWN	None	23695	None	None	111852942	111891779	1	None	KIAA1735
11	DIXDC1	ENSG00000150764	ENST00000526500	retained_intron	KNOWN	None	23695	None	None	111859671	111890062	1	None	KIAA1735
11	DIXDC1	ENSG00000150764	ENST00000530645	retained_intron	KNOWN	None	23695	None	None	111864454	111867049	1	None	KIAA1735
11	DIXDC1	ENSG00000150764	ENST00000526418	retained_intron	KNOWN	None	23695	None	None	111888298	111889945	1	None	KIAA1735
11	DIXDC1	ENSG00000150764	ENST00000440460	protein_coding	KNOWN	None	23695	2049	682	111807927	111893305	1	None	KIAA1735
11	DIXDC1	ENSG00000150764	ENST00000315253	protein_coding	KNOWN	None	23695	1416	471	111848033	111893305	1	None	KIAA1735
22	None	ENSG00000266175	ENST00000582149	miRNA	NOVEL	None	None	None	None	41456636	41456705	-1	None	None
3	SLC25A38	ENSG00000144659	ENST00000273158	protein_coding	KNOWN	CCDS2685	26054	915	304	39424839	39438842	1	None	FLJ20551
3	SLC25A38	ENSG00000144659	ENST00000431510	protein_coding	PUTATIVE	None	26054	444	147	39424880	39433111	1	None	FLJ20551
15	ALDH1A3	ENSG00000184254	ENST00000558568	processed_transcript	KNOWN	None	409	None	None	101402129	101425534	1	ALDH6	RALDH3
15	ALDH1A3	ENSG00000184254	ENST00000561338	protein_coding	PUTATIVE	None	409	434	143	101417919	101433192	1	ALDH6	RALDH3
15	ALDH1A3	ENSG00000184254	ENST00000329841	protein_coding	KNOWN	CCDS10389	409	1539	512	101419581	101456831	1	ALDH6	RALDH3
15	ALDH1A3	ENSG00000184254	ENST00000558033	nonsense_mediated_decay	KNOWN	None	409	426	141	101420018	101436219	1	ALDH6	RALDH3
15	ALDH1A3	ENSG00000184254	ENST00000557963	protein_coding	PUTATIVE	None	409	309	102	101420044	101421713	1	ALDH6	RALDH3
15	ALDH1A3	ENSG00000184254	ENST00000560555	processed_transcript	KNOWN	None	409	None	None	101420053	101432444	1	ALDH6	RALDH3
15	ALDH1A3	ENSG00000184254	ENST00000346623	protein_coding	NOVEL	None	409	1218	405	101420080	101456831	1	ALDH6	RALDH3
15	ALDH1A3	ENSG00000184254	ENST00000558869	retained_intron	KNOWN	None	409	None	None	101438265	101447435	1	ALDH6	RALDH3
22	None	ENSG00000237214	ENST00000418783	processed_pseudogene	KNOWN	None	None	None	None	41460056	41460637	1	None	None
22	None	ENSG00000237214	ENST00000399188	processed_pseudogene	KNOWN	None	None	None	None	41460056	41460640	1	None	None
6	TAAR8	ENSG00000146385	ENST00000275200	protein_coding	KNOWN	CCDS5154	14964	1029	342	132873832	132874860	1	GPR102, TRAR5	TA5, TAR5
3	LINC00578	ENSG00000228221	ENST00000442937	lincRNA	KNOWN	None	43807	None	None	177159709	177469882	1	None	None
3	LINC00578	ENSG00000228221	ENST00000439009	lincRNA	KNOWN	None	43807	None	None	177159752	177470093	1	None	None
3	LINC00578	ENSG00000228221	ENST00000445673	lincRNA	KNOWN	None	43807	None	None	177335378	177469882	1	None	None
3	LINC00578	ENSG00000228221	ENST00000446548	lincRNA	KNOWN	None	43807	None	None	177394498	177469920	1	None	None
1	None	ENSG00000259961	ENST00000563570	antisense	KNOWN	None	None	None	None	13839715	13842765	1	None	None
16	None	ENSG00000238954	ENST00000459321	snoRNA	NOVEL	None	None	None	None	21468647	21468750	-1	None	None
22	None	ENSG00000199515	ENST00000362645	misc_RNA	NOVEL	None	None	None	None	41461558	41461650	-1	None	None
14	RN7SL650P	ENSG00000263621	ENST00000583681	misc_RNA	KNOWN	None	46666	None	None	21897669	21897965	-1	None	None
2	SCTR	ENSG00000080293	ENST00000019103	protein_coding	KNOWN	CCDS2127	10608	1323	440	120197419	120282070	-1	None	None
2	SCTR	ENSG00000080293	ENST00000494326	retained_intron	KNOWN	None	10608	None	None	120197421	120199239	-1	None	None
2	SCTR	ENSG00000080293	ENST00000485440	retained_intron	KNOWN	None	10608	None	None	120197421	120237465	-1	None	None
16	MIR3680-1	ENSG00000265462	ENST00000581433	miRNA	KNOWN	None	38989	None	None	21517370	21517456	-1	MIR3680	hsa-mir-3680
16	MIR3680-2	ENSG00000265462	ENST00000581433	miRNA	KNOWN	None	43472	None	None	21517370	21517456	-1	None	hsa-mir-3680-2
22	None	ENSG00000213857	ENST00000423293	processed_pseudogene	KNOWN	None	None	None	None	41470184	41471243	-1	None	None
19	None	ENSG00000267757	ENST00000591087	processed_transcript	KNOWN	None	None	None	None	46144752	46146047	1	None	None
19	None	ENSG00000267757	ENST00000587092	retained_intron	KNOWN	None	None	None	None	46144905	46145615	1	None	None
19	None	ENSG00000267757	ENST00000593161	protein_coding	PUTATIVE	CCDS59398	None	315	104	46144949	46146098	1	None	None
8	DEFA8P	ENSG00000223629	ENST00000457582	unprocessed_pseudogene	KNOWN	None	31799	None	None	6808248	6809121	-1	None	DEFAP1
22	MIR1281	ENSG00000221160	ENST00000408233	miRNA	KNOWN	None	35359	None	None	41488517	41488570	1	MIRN1281	hsa-mir-1281
5	None	ENSG00000249363	ENST00000509592	processed_pseudogene	KNOWN	None	None	None	None	145107923	145108912	-1	None	None
4	GABRA4	ENSG00000109158	ENST00000264318	protein_coding	KNOWN	CCDS3473	4078	1665	554	46920917	46996424	-1	None	None
4	GABRA4	ENSG00000109158	ENST00000511523	nonsense_mediated_decay	KNOWN	None	4078	111	36	46930144	46995522	-1	None	None
4	GABRA4	ENSG00000109158	ENST00000508560	nonsense_mediated_decay	KNOWN	None	4078	111	36	46930144	46995522	-1	None	None
4	GABRA4	ENSG00000109158	ENST00000502874	nonsense_mediated_decay	KNOWN	None	4078	111	36	46973100	46995557	-1	None	None
4	GABRA4	ENSG00000109158	ENST00000509316	processed_transcript	KNOWN	None	4078	None	None	46994687	46995565	-1	None	None
22	RNU6-375P	ENSG00000252859	ENST00000517050	snRNA	KNOWN	None	47338	None	None	41564221	41564320	1	None	None
22	None	ENSG00000243762	ENST00000412713	processed_transcript	PUTATIVE	None	None	None	None	20098344	20099398	-1	None	None
21	None	ENSG00000249624	ENST00000433395	protein_coding	PUTATIVE	None	None	1000	332	34619079	34655517	1	None	None
21	None	ENSG00000249624	ENST00000435704	nonsense_mediated_decay	KNOWN	None	None	278	91	34619118	34649006	1	None	None
21	None	ENSG00000249624	ENST00000451624	retained_intron	KNOWN	None	None	None	None	34619157	34656082	1	None	None
21	None	ENSG00000249624	ENST00000432231	nonsense_mediated_decay	KNOWN	None	None	338	111	34621020	34655517	1	None	None
21	None	ENSG00000249624	ENST00000549211	nonsense_mediated_decay	KNOWN	None	None	84	27	34625057	34640790	1	None	None
7	None	ENSG00000227930	ENST00000412828	lincRNA	KNOWN	None	None	None	None	23931323	23936954	-1	None	None
11	H2AFX	ENSG00000188486	ENST00000530167	protein_coding	KNOWN	CCDS8410	4739	432	143	118964564	118966177	-1	H2AX	None
11	H2AFX	ENSG00000188486	ENST00000375167	nonsense_mediated_decay	KNOWN	CCDS8410	4739	432	143	118964589	118966159	-1	H2AX	None
8	SHARPIN	ENSG00000179526	ENST00000532536	protein_coding	PUTATIVE	None	25321	288	95	145153536	145154225	-1	None	DKFZP434N1923, SIPL1
8	SHARPIN	ENSG00000179526	ENST00000398712	protein_coding	KNOWN	CCDS43777	25321	1164	387	145153540	145159093	-1	None	DKFZP434N1923, SIPL1
8	SHARPIN	ENSG00000179526	ENST00000359551	nonsense_mediated_decay	KNOWN	None	25321	981	326	145153540	145159140	-1	None	DKFZP434N1923, SIPL1
8	SHARPIN	ENSG00000179526	ENST00000530216	retained_intron	KNOWN	None	25321	None	None	145154153	145155745	-1	None	DKFZP434N1923, SIPL1
8	SHARPIN	ENSG00000179526	ENST00000534242	processed_transcript	KNOWN	None	25321	None	None	145154194	145159153	-1	None	DKFZP434N1923, SIPL1
8	SHARPIN	ENSG00000179526	ENST00000525275	retained_intron	KNOWN	None	25321	None	None	145154204	145154892	-1	None	DKFZP434N1923, SIPL1
8	SHARPIN	ENSG00000179526	ENST00000533948	processed_transcript	KNOWN	None	25321	None	None	145154422	145159172	-1	None	DKFZP434N1923, SIPL1
8	SHARPIN	ENSG00000179526	ENST00000534435	retained_intron	KNOWN	None	25321	None	None	145157545	145158999	-1	None	DKFZP434N1923, SIPL1
8	SHARPIN	ENSG00000179526	ENST00000531375	retained_intron	KNOWN	None	25321	None	None	145157720	145158659	-1	None	DKFZP434N1923, SIPL1
8	SHARPIN	ENSG00000179526	ENST00000533184	processed_transcript	KNOWN	None	25321	None	None	145158020	145163027	-1	None	DKFZP434N1923, SIPL1
22	None	ENSG00000264346	ENST00000578179	snoRNA	NOVEL	None	None	None	None	20113925	20114049	1	None	None
11	RNU4ATAC5P	ENSG00000253035	ENST00000517226	snRNA	KNOWN	None	46891	None	None	122322182	122322307	1	None	None
6	TAAR6	ENSG00000146383	ENST00000275198	protein_coding	KNOWN	CCDS5155	20978	1038	345	132891461	132892498	1	TRAR4	TA4
7	C7orf31	ENSG00000153790	ENST00000409280	protein_coding	KNOWN	CCDS5394	21722	1773	590	25174316	25219973	-1	None	None
7	C7orf31	ENSG00000153790	ENST00000283905	protein_coding	KNOWN	CCDS5394	21722	1773	590	25175354	25219919	-1	None	None
7	C7orf31	ENSG00000153790	ENST00000443822	protein_coding	KNOWN	None	21722	461	152	25194764	25219021	-1	None	None
7	C7orf31	ENSG00000153790	ENST00000415598	protein_coding	KNOWN	None	21722	347	114	25200844	25219975	-1	None	None
7	C7orf31	ENSG00000153790	ENST00000444434	protein_coding	KNOWN	None	21722	278	91	25207941	25219667	-1	None	None
12	RN7SL176P	ENSG00000266610	ENST00000580352	misc_RNA	KNOWN	None	46192	None	None	100552275	100552521	-1	None	None
14	None	ENSG00000257096	ENST00000535893	antisense	KNOWN	None	None	None	None	21989234	21990794	1	None	None
22	None	ENSG00000249923	ENST00000506039	antisense	KNOWN	None	None	None	None	20186252	20192441	-1	None	None
11	RNU6-592P	ENSG00000223265	ENST00000411333	snRNA	KNOWN	None	47555	None	None	122449913	122450015	-1	None	None
16	SLC7A5P2	ENSG00000258186	ENST00000553010	transcribed_processed_pseudogene	KNOWN	None	24951	None	None	21531151	21531686	-1	None	IMAA, hLAT1-3TM
19	KLK9	ENSG00000213022	ENST00000594211	protein_coding	NOVEL	CCDS12816	6370	753	250	51506367	51512804	-1	None	KLK-L3
19	KLK9	ENSG00000213022	ENST00000544410	nonsense_mediated_decay	KNOWN	None	6370	186	61	51506367	51512890	-1	None	KLK-L3
19	KLK9	ENSG00000213022	ENST00000376832	protein_coding	KNOWN	CCDS12816	6370	753	250	51503806	51512837	-1	None	KLK-L3
5	None	ENSG00000248493	ENST00000511152	processed_pseudogene	KNOWN	None	None	None	None	145376781	145377566	1	None	None
5	None	ENSG00000212567	ENST00000391265	snoRNA	KNOWN	None	None	None	None	40790179	40790306	-1	None	None
X	None	ENSG00000207846	ENST00000385111	miRNA	NOVEL	None	None	None	None	106672219	106672309	1	None	None
12	None	ENSG00000257489	ENST00000548404	processed_transcript	KNOWN	None	None	None	None	100566974	100590754	-1	None	None
12	None	ENSG00000257489	ENST00000550096	processed_transcript	KNOWN	None	None	None	None	100567090	100593561	-1	None	None
12	None	ENSG00000257489	ENST00000546397	processed_transcript	KNOWN	None	None	None	None	100567125	100571432	-1	None	None
12	None	ENSG00000257489	ENST00000548782	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	100574331	100593540	-1	None	None
7	None	ENSG00000238849	ENST00000459324	snoRNA	NOVEL	None	None	None	None	23934647	23934753	-1	None	None
5	SNORD72	ENSG00000212296	ENST00000390994	snoRNA	KNOWN	None	32733	None	None	40832758	40832837	-1	None	HBII-240
14	RBBP4P5	ENSG00000256737	ENST00000398583	processed_pseudogene	KNOWN	None	42372	None	None	22031950	22033215	1	None	None
3	DBR1	ENSG00000138231	ENST00000260803	protein_coding	KNOWN	CCDS33863	15594	1635	544	137879854	137893791	-1	None	None
3	DBR1	ENSG00000138231	ENST00000460271	retained_intron	KNOWN	None	15594	None	None	137882191	137883045	-1	None	None
3	DBR1	ENSG00000138231	ENST00000477557	nonsense_mediated_decay	KNOWN	None	15594	357	118	137882191	137893701	-1	None	None
3	DBR1	ENSG00000138231	ENST00000463982	processed_transcript	KNOWN	None	15594	None	None	137890162	137893708	-1	None	None
3	DBR1	ENSG00000138231	ENST00000505015	protein_coding	KNOWN	None	15594	933	310	137880215	137893727	-1	None	None
1	None	ENSG00000215909	ENST00000401091	processed_pseudogene	KNOWN	None	None	None	None	13881496	13882189	1	None	None
22	MIR1286	ENSG00000221039	ENST00000408112	miRNA	KNOWN	None	35279	None	None	20236657	20236734	-1	MIRN1286	hsa-mir-1286
5	RNU7-161P	ENSG00000253098	ENST00000517289	snRNA	KNOWN	None	45695	None	None	40911169	40911230	-1	None	None
6	TAAR5	ENSG00000135569	ENST00000258034	protein_coding	KNOWN	CCDS5156	30236	1014	337	132909731	132910877	-1	None	PNR
Y	CLUHP2	ENSG00000228945	ENST00000426660	unprocessed_pseudogene	KNOWN	None	38453	None	None	20442064	20446647	1	KIAA0664P2	KIAA0664L2
7	RNA5SP228	ENSG00000252041	ENST00000516232	rRNA	KNOWN	None	43128	None	None	24172324	24172456	1	RN5S228	None
5	None	ENSG00000248120	ENST00000504890	processed_pseudogene	KNOWN	None	None	None	None	40967607	40967865	-1	None	None
X	FRMPD3-AS1	ENSG00000227610	ENST00000415252	antisense	KNOWN	None	41239	None	None	106756213	106789051	-1	None	None
22	None	ENSG00000161132	ENST00000438948	unprocessed_pseudogene	KNOWN	None	None	None	None	20287283	20300739	1	None	None
14	MIR134	ENSG00000207993	ENST00000385258	miRNA	KNOWN	None	31519	None	None	101521008	101521110	1	MIRN134	hsa-mir-134
17	OTOP3	ENSG00000182938	ENST00000580749	nonsense_mediated_decay	KNOWN	None	19658	141	46	72931814	72946087	1	None	None
17	OTOP3	ENSG00000182938	ENST00000328801	protein_coding	KNOWN	CCDS11709	19658	1791	596	72931897	72946083	1	None	None
7	None	ENSG00000228944	ENST00000439839	antisense	KNOWN	None	None	None	None	24236281	24295338	-1	None	None
16	None	ENSG00000257639	ENST00000550637	unprocessed_pseudogene	KNOWN	None	None	None	None	21544266	21561694	-1	None	None
15	None	ENSG00000259410	ENST00000558889	lincRNA	KNOWN	None	None	None	None	68125063	68166204	1	None	None
15	None	ENSG00000259410	ENST00000560577	retained_intron	KNOWN	None	None	None	None	68125420	68166204	1	None	None
8	DEFA9P	ENSG00000233238	ENST00000433042	unprocessed_pseudogene	KNOWN	None	31800	None	None	6816811	6817683	-1	None	DEFAP2
7	None	ENSG00000239969	ENST00000484974	processed_transcript	KNOWN	None	None	None	None	102004609	102021080	1	None	None
7	None	ENSG00000239969	ENST00000476426	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	102004615	102016765	1	None	None
7	None	ENSG00000239969	ENST00000492837	processed_transcript	KNOWN	None	None	None	None	102004745	102021078	1	None	None
18	ATP9B	ENSG00000166377	ENST00000588600	protein_coding	NOVEL	None	13541	301	99	76829285	76856481	1	None	ATPIIB
18	ATP9B	ENSG00000166377	ENST00000586366	nonsense_mediated_decay	KNOWN	None	13541	870	289	76829392	77015271	1	None	ATPIIB
18	ATP9B	ENSG00000166377	ENST00000426216	protein_coding	KNOWN	CCDS12014	13541	3444	1147	76829394	77138283	1	None	ATPIIB
18	ATP9B	ENSG00000166377	ENST00000307671	protein_coding	KNOWN	None	13541	3411	1136	76829397	77137491	1	None	ATPIIB
18	ATP9B	ENSG00000166377	ENST00000586672	protein_coding	NOVEL	None	13541	578	191	76829406	76914529	1	None	ATPIIB
18	ATP9B	ENSG00000166377	ENST00000586722	protein_coding	PUTATIVE	None	13541	567	188	76829408	76876082	1	None	ATPIIB
18	ATP9B	ENSG00000166377	ENST00000591464	processed_transcript	KNOWN	None	13541	None	None	76829482	76903859	1	None	ATPIIB
18	ATP9B	ENSG00000166377	ENST00000590271	retained_intron	KNOWN	None	13541	None	None	76847307	77037268	1	None	ATPIIB
18	ATP9B	ENSG00000166377	ENST00000591395	processed_transcript	PUTATIVE	None	13541	None	None	76847315	76856535	1	None	ATPIIB
18	ATP9B	ENSG00000166377	ENST00000490210	retained_intron	KNOWN	None	13541	None	None	76873310	77124284	1	None	ATPIIB
18	ATP9B	ENSG00000166377	ENST00000590608	retained_intron	KNOWN	None	13541	None	None	76886267	76904286	1	None	ATPIIB
18	ATP9B	ENSG00000166377	ENST00000588772	retained_intron	KNOWN	None	13541	None	None	76914502	76954608	1	None	ATPIIB
18	ATP9B	ENSG00000166377	ENST00000585674	retained_intron	KNOWN	None	13541	None	None	76966936	77037264	1	None	ATPIIB
18	ATP9B	ENSG00000166377	ENST00000587878	nonsense_mediated_decay	KNOWN	None	13541	56	17	76966977	77037200	1	None	ATPIIB
18	ATP9B	ENSG00000166377	ENST00000590163	processed_transcript	KNOWN	None	13541	None	None	77059899	77089213	1	None	ATPIIB
18	ATP9B	ENSG00000166377	ENST00000591518	retained_intron	KNOWN	None	13541	None	None	77063604	77067440	1	None	ATPIIB
18	ATP9B	ENSG00000166377	ENST00000589326	protein_coding	PUTATIVE	None	13541	438	145	77067112	77092998	1	None	ATPIIB
18	ATP9B	ENSG00000166377	ENST00000589732	protein_coding	PUTATIVE	None	13541	423	140	77067190	77093000	1	None	ATPIIB
18	ATP9B	ENSG00000166377	ENST00000588895	nonsense_mediated_decay	KNOWN	None	13541	242	79	77096626	77105486	1	None	ATPIIB
18	ATP9B	ENSG00000166377	ENST00000586774	retained_intron	KNOWN	None	13541	None	None	77104139	77105840	1	None	ATPIIB
18	ATP9B	ENSG00000166377	ENST00000590477	nonsense_mediated_decay	KNOWN	None	13541	603	200	77104328	77138266	1	None	ATPIIB
18	ATP9B	ENSG00000166377	ENST00000589951	retained_intron	KNOWN	None	13541	None	None	77107808	77134197	1	None	ATPIIB
18	ATP9B	ENSG00000166377	ENST00000588921	nonsense_mediated_decay	KNOWN	None	13541	421	139	77107907	77138142	1	None	ATPIIB
18	ATP9B	ENSG00000166377	ENST00000587919	nonsense_mediated_decay	KNOWN	None	13541	112	36	77119396	77134027	1	None	ATPIIB
18	ATP9B	ENSG00000166377	ENST00000587410	retained_intron	KNOWN	None	13541	None	None	77132390	77134275	1	None	ATPIIB
18	ATP9B	ENSG00000166377	ENST00000458297	protein_coding	KNOWN	None	13541	411	136	76829490	76876070	1	None	ATPIIB
18	ATP9B	ENSG00000166377	ENST00000543761	protein_coding	KNOWN	None	13541	1374	457	77090080	77138141	1	None	ATPIIB
5	None	ENSG00000238688	ENST00000459544	snoRNA	NOVEL	None	None	None	None	76079921	76080024	1	None	None
19	CNFN	ENSG00000105427	ENST00000222032	protein_coding	KNOWN	CCDS12606	30183	339	112	42891171	42894439	-1	None	PLAC8L2
19	CNFN	ENSG00000105427	ENST00000597255	protein_coding	KNOWN	CCDS12606	30183	339	112	42891253	42894420	-1	None	PLAC8L2
19	PBX4	ENSG00000105717	ENST00000558276	retained_intron	KNOWN	None	13403	None	None	19672522	19674630	-1	None	None
19	PBX4	ENSG00000105717	ENST00000251203	protein_coding	KNOWN	CCDS12406	13403	1125	374	19672523	19729725	-1	None	None
19	PBX4	ENSG00000105717	ENST00000557978	nonsense_mediated_decay	KNOWN	None	13403	351	116	19672832	19729502	-1	None	None
19	PBX4	ENSG00000105717	ENST00000558222	nonsense_mediated_decay	KNOWN	None	13403	351	116	19675584	19729490	-1	None	None
19	PBX4	ENSG00000105717	ENST00000559735	retained_intron	KNOWN	None	13403	None	None	19681035	19690763	-1	None	None
X	RBMX	ENSG00000147274	ENST00000561733	processed_transcript	KNOWN	None	9910	None	None	135930163	135955584	-1	None	RNMX, hnRNP-G, HNRNPG
X	RBMX	ENSG00000147274	ENST00000431446	protein_coding	KNOWN	CCDS55510	9910	591	196	135951346	135962884	-1	None	RNMX, hnRNP-G, HNRNPG
X	RBMX	ENSG00000147274	ENST00000496459	processed_transcript	KNOWN	None	9910	None	None	135951351	135956141	-1	None	RNMX, hnRNP-G, HNRNPG
X	RBMX	ENSG00000147274	ENST00000568578	nonsense_mediated_decay	KNOWN	None	9910	237	78	135951353	135962881	-1	None	RNMX, hnRNP-G, HNRNPG
X	RBMX	ENSG00000147274	ENST00000419968	protein_coding	NOVEL	None	9910	877	291	135954434	135961590	-1	None	RNMX, hnRNP-G, HNRNPG
X	RBMX	ENSG00000147274	ENST00000464781	nonsense_mediated_decay	KNOWN	None	9910	237	78	135955608	135962884	-1	None	RNMX, hnRNP-G, HNRNPG
X	RBMX	ENSG00000147274	ENST00000320676	protein_coding	KNOWN	CCDS14661	9910	1176	391	135955620	135962884	-1	None	RNMX, hnRNP-G, HNRNPG
X	RBMX	ENSG00000147274	ENST00000562646	protein_coding	PUTATIVE	None	9910	891	296	135956117	135962884	-1	None	RNMX, hnRNP-G, HNRNPG
X	RBMX	ENSG00000147274	ENST00000565438	protein_coding	PUTATIVE	None	9910	792	263	135956137	135962923	-1	None	RNMX, hnRNP-G, HNRNPG
X	RBMX	ENSG00000147274	ENST00000567262	processed_transcript	KNOWN	None	9910	None	None	135958759	135962884	-1	None	RNMX, hnRNP-G, HNRNPG
X	RBMX	ENSG00000147274	ENST00000563370	nonsense_mediated_decay	KNOWN	None	9910	114	37	135960075	135962884	-1	None	RNMX, hnRNP-G, HNRNPG
X	RBMX	ENSG00000147274	ENST00000565907	retained_intron	KNOWN	None	9910	None	None	135961176	135962881	-1	None	RNMX, hnRNP-G, HNRNPG
X	RBMX	ENSG00000147274	ENST00000570135	protein_coding	KNOWN	None	9910	771	256	135955608	135962884	-1	None	RNMX, hnRNP-G, HNRNPG
11	GLULP3	ENSG00000254572	ENST00000526011	processed_pseudogene	KNOWN	None	4344	None	None	122484152	122485194	-1	GLULL3	None
14	MIR485	ENSG00000208027	ENST00000385292	miRNA	KNOWN	None	32067	None	None	101521738	101521848	1	MIRN485	hsa-mir-485
5	RN7SL208P	ENSG00000264391	ENST00000577964	misc_RNA	KNOWN	None	46224	None	None	76132727	76133020	-1	None	None
5	None	ENSG00000251556	ENST00000514002	antisense	KNOWN	None	None	None	None	145478969	145499975	1	None	None
8	None	ENSG00000272469	ENST00000607344	misc_RNA	NOVEL	None	None	None	None	74746010	74746277	-1	None	None
5	RNU6ATAC36P	ENSG00000252684	ENST00000516875	snRNA	KNOWN	None	46935	None	None	76244616	76244695	1	None	None
14	None	ENSG00000256081	ENST00000541653	processed_pseudogene	KNOWN	None	None	None	None	22053414	22054404	-1	None	None
5	None	ENSG00000250615	ENST00000512650	antisense	KNOWN	None	None	None	None	76369706	76370345	1	None	None
8	GYG1P1	ENSG00000251633	ENST00000460864	unprocessed_pseudogene	KNOWN	None	39712	None	None	74817592	74827245	-1	None	None
Y	None	ENSG00000252439	ENST00000516630	miRNA	NOVEL	None	None	None	None	20444739	20444833	1	None	None
11	None	ENSG00000254935	ENST00000531724	processed_pseudogene	KNOWN	None	None	None	None	122489559	122489982	1	None	None
5	SKIV2L2	ENSG00000039123	ENST00000230640	protein_coding	KNOWN	CCDS3967	18734	3129	1042	54603588	54721409	1	KIAA0052	Mtr4, Dob1, fSAP118
5	SKIV2L2	ENSG00000039123	ENST00000504388	processed_transcript	KNOWN	None	18734	None	None	54603829	54620533	1	KIAA0052	Mtr4, Dob1, fSAP118
5	SKIV2L2	ENSG00000039123	ENST00000506750	nonsense_mediated_decay	KNOWN	None	18734	270	89	54603829	54720934	1	KIAA0052	Mtr4, Dob1, fSAP118
5	SKIV2L2	ENSG00000039123	ENST00000503165	processed_transcript	KNOWN	None	18734	None	None	54603838	54625235	1	KIAA0052	Mtr4, Dob1, fSAP118
5	SKIV2L2	ENSG00000039123	ENST00000504997	processed_transcript	KNOWN	None	18734	None	None	54603897	54642957	1	KIAA0052	Mtr4, Dob1, fSAP118
5	SKIV2L2	ENSG00000039123	ENST00000505565	nonsense_mediated_decay	KNOWN	None	18734	265	87	54618155	54640448	1	KIAA0052	Mtr4, Dob1, fSAP118
5	SKIV2L2	ENSG00000039123	ENST00000502953	retained_intron	KNOWN	None	18734	None	None	54623358	54639200	1	KIAA0052	Mtr4, Dob1, fSAP118
5	SKIV2L2	ENSG00000039123	ENST00000518955	retained_intron	KNOWN	None	18734	None	None	54701080	54711957	1	KIAA0052	Mtr4, Dob1, fSAP118
5	SKIV2L2	ENSG00000039123	ENST00000508716	protein_coding	PUTATIVE	None	18734	217	71	54711884	54720813	1	KIAA0052	Mtr4, Dob1, fSAP118
5	SKIV2L2	ENSG00000039123	ENST00000545714	protein_coding	KNOWN	None	18734	2826	941	54603829	54720934	1	KIAA0052	Mtr4, Dob1, fSAP118
Y	FAM224A	ENSG00000233522	ENST00000419557	lincRNA	KNOWN	None	37736	None	None	20488139	20515096	1	NCRNA00230A, LINC00230A	None
21	IL10RB	ENSG00000243646	ENST00000290200	protein_coding	KNOWN	CCDS13623	5965	978	325	34638663	34669539	1	CRFB4, D21S58, D21S66	CRF2-4, CDW210B, IL-10R2
21	IL10RB	ENSG00000243646	ENST00000422891	nonsense_mediated_decay	KNOWN	None	5965	216	71	34638687	34668544	1	CRFB4, D21S58, D21S66	CRF2-4, CDW210B, IL-10R2
21	IL10RB	ENSG00000243646	ENST00000493295	retained_intron	KNOWN	None	5965	None	None	34640233	34669258	1	CRFB4, D21S58, D21S66	CRF2-4, CDW210B, IL-10R2
21	IL10RB	ENSG00000243646	ENST00000498371	retained_intron	KNOWN	None	5965	None	None	34640587	34660425	1	CRFB4, D21S58, D21S66	CRF2-4, CDW210B, IL-10R2
21	IL10RB	ENSG00000243646	ENST00000451065	nonsense_mediated_decay	KNOWN	None	5965	651	216	34648917	34668655	1	CRFB4, D21S58, D21S66	CRF2-4, CDW210B, IL-10R2
7	None	ENSG00000239486	ENST00000426478	unprocessed_pseudogene	KNOWN	None	None	None	None	102020912	102023184	-1	None	None
6	None	ENSG00000220733	ENST00000407663	processed_pseudogene	KNOWN	None	None	None	None	153989312	153989497	1	None	None
16	RNA5SP410	ENSG00000252094	ENST00000516285	rRNA	KNOWN	None	43310	None	None	34980360	34980465	1	RN5S410	None
11	None	ENSG00000239079	ENST00000458998	snoRNA	NOVEL	None	None	None	None	122596916	122597019	-1	None	None
1	RNA5SP41	ENSG00000222952	ENST00000411020	rRNA	KNOWN	None	42817	None	None	13949679	13949779	-1	RN5S41	None
HSCHR6_MHC_SSTO	None	ENSG00000257187	ENST00000552722	protein_coding	NOVEL	None	None	105	34	31545597	31546661	-1	None	None
7	MIR548O	ENSG00000221510	ENST00000408583	miRNA	KNOWN	None	35333	None	None	102046189	102046302	-1	MIRN548O	hsa-mir-548o
16	RNA5SP413	ENSG00000252182	ENST00000516373	rRNA	KNOWN	None	43313	None	None	34981403	34981511	1	RN5S413	None
3	RN7SKP52	ENSG00000252028	ENST00000516219	misc_RNA	KNOWN	None	45776	None	None	177221091	177221340	-1	None	None
7	None	ENSG00000239098	ENST00000458937	snoRNA	NOVEL	None	None	None	None	24301228	24301333	-1	None	None
6	TAAR2	ENSG00000146378	ENST00000275191	protein_coding	KNOWN	CCDS5157	4514	921	306	132938161	132939317	-1	GPR58	None
6	TAAR2	ENSG00000146378	ENST00000367931	protein_coding	KNOWN	CCDS34541	4514	1056	351	132938289	132945414	-1	GPR58	None
6	TAAR2	ENSG00000146378	ENST00000537809	protein_coding	KNOWN	CCDS5157	4514	921	306	132938289	132945414	-1	GPR58	None
16	RNA5SP415	ENSG00000253055	ENST00000517246	rRNA	KNOWN	None	43315	None	None	34984432	34984546	1	RN5S415	None
14	MIR323B	ENSG00000208004	ENST00000385269	miRNA	KNOWN	None	38349	None	None	101522556	101522637	1	MIR453, MIRN453	hsa-mir-323b, hsa-mir-453
X	None	ENSG00000249615	ENST00000509000	processed_transcript	PUTATIVE	None	None	None	None	107020963	107037689	1	None	None
7	None	ENSG00000239480	ENST00000468165	antisense	KNOWN	None	None	None	None	102067265	102075227	-1	None	None
Y	RNA5SP522	ENSG00000251953	ENST00000516144	rRNA	KNOWN	None	43422	None	None	20508009	20508124	-1	RN5S522	None
3	None	ENSG00000236385	ENST00000456755	lincRNA	KNOWN	None	None	None	None	177339170	177346075	-1	None	None
11	ARHGAP42	ENSG00000165895	ENST00000524892	protein_coding	NOVEL	None	26545	2523	840	100558384	100862668	1	None	FLJ32810, GRAF3
11	ARHGAP42	ENSG00000165895	ENST00000534060	processed_transcript	KNOWN	None	26545	None	None	100609174	100784255	1	None	FLJ32810, GRAF3
11	ARHGAP42	ENSG00000165895	ENST00000529406	processed_transcript	KNOWN	None	26545	None	None	100641072	100784257	1	None	FLJ32810, GRAF3
11	ARHGAP42	ENSG00000165895	ENST00000524649	retained_intron	KNOWN	None	26545	None	None	100641097	100730638	1	None	FLJ32810, GRAF3
11	ARHGAP42	ENSG00000165895	ENST00000525558	processed_transcript	KNOWN	None	26545	None	None	100710135	100730360	1	None	FLJ32810, GRAF3
11	ARHGAP42	ENSG00000165895	ENST00000531183	protein_coding	PUTATIVE	None	26545	690	229	100784231	100819266	1	None	FLJ32810, GRAF3
11	ARHGAP42	ENSG00000165895	ENST00000529535	nonsense_mediated_decay	KNOWN	None	26545	1331	442	100830581	100859600	1	None	FLJ32810, GRAF3
11	ARHGAP42	ENSG00000165895	ENST00000298815	protein_coding	KNOWN	None	26545	2625	874	100558407	100861656	1	None	FLJ32810, GRAF3
14	MIR154	ENSG00000207978	ENST00000385243	miRNA	KNOWN	None	31541	None	None	101526092	101526175	1	MIRN154	hsa-mir-154
Y	RNA5SP523	ENSG00000252667	ENST00000516858	rRNA	KNOWN	None	43423	None	None	20509921	20510033	-1	RN5S523	None
7	MIR5090	ENSG00000266715	ENST00000582533	miRNA	KNOWN	None	43547	None	None	102106189	102106273	1	None	hsa-mir-5090
8	DEFA10P	ENSG00000233531	ENST00000455014	unprocessed_pseudogene	KNOWN	None	31801	None	None	6825663	6826635	-1	None	None
1	None	ENSG00000266358	ENST00000577470	miRNA	NOVEL	None	None	None	None	13950397	13950497	-1	None	None
5	None	ENSG00000251478	ENST00000504215	processed_pseudogene	KNOWN	None	None	None	None	41585984	41587889	-1	None	None
16	RNA5SP416	ENSG00000252647	ENST00000516838	rRNA	KNOWN	None	43316	None	None	34985945	34986055	1	RN5S416	None
7	RNU6-1103P	ENSG00000206877	ENST00000384150	snRNA	KNOWN	None	48066	None	None	24576951	24577057	1	None	None
15	None	ENSG00000245719	ENST00000502156	lincRNA	KNOWN	None	None	None	None	68126648	68131217	-1	None	None
7	MIR4467	ENSG00000264471	ENST00000578629	miRNA	KNOWN	None	41896	None	None	102111916	102111978	1	None	hsa-mir-4467
11	RNU4-23P	ENSG00000199709	ENST00000362839	snRNA	KNOWN	None	46959	None	None	122797742	122797881	1	None	None
Y	TUBB1P1	ENSG00000249726	ENST00000503144	unprocessed_pseudogene	KNOWN	None	23982	None	None	20548860	20551037	1	None	None
16	RNA5SP417	ENSG00000252268	ENST00000516459	rRNA	KNOWN	None	43317	None	None	34986199	34986306	1	RN5S417	None
7	None	ENSG00000256604	ENST00000538869	pseudogene	NOVEL	None	None	None	None	102120179	102121095	-1	None	None
11	ATP5F1P5	ENSG00000254944	ENST00000526403	processed_pseudogene	KNOWN	None	39746	None	None	122831035	122831794	1	None	None
22	DNAJB7	ENSG00000172404	ENST00000307221	protein_coding	KNOWN	CCDS14008	24986	930	309	41255553	41258130	-1	None	HSC3
8	None	ENSG00000202220	ENST00000365350	misc_RNA	NOVEL	None	None	None	None	74892019	74892112	-1	None	None
16	RNA5SP418	ENSG00000251760	ENST00000515951	rRNA	KNOWN	None	43318	None	None	34987197	34987313	1	RN5S418	None
15	None	ENSG00000221000	ENST00000408073	miRNA	NOVEL	None	None	None	None	22705928	22706010	-1	None	None
11	CFL1	ENSG00000172757	ENST00000530157	processed_transcript	PUTATIVE	None	1874	None	None	65590493	65591574	-1	CFL	None
11	CFL1	ENSG00000172757	ENST00000527752	processed_transcript	KNOWN	None	1874	None	None	65590493	65625628	-1	CFL	None
11	CFL1	ENSG00000172757	ENST00000525710	processed_transcript	PUTATIVE	None	1874	None	None	65593793	65599241	-1	CFL	None
11	CFL1	ENSG00000172757	ENST00000525451	protein_coding	KNOWN	CCDS8114	1874	501	166	65622146	65626886	-1	CFL	None
11	CFL1	ENSG00000172757	ENST00000530945	retained_intron	KNOWN	None	1874	None	None	65622303	65625665	-1	CFL	None
11	CFL1	ENSG00000172757	ENST00000527344	protein_coding	PUTATIVE	None	1874	450	149	65622446	65624504	-1	CFL	None
11	CFL1	ENSG00000172757	ENST00000531407	protein_coding	PUTATIVE	None	1874	450	149	65622480	65625339	-1	CFL	None
11	CFL1	ENSG00000172757	ENST00000524553	protein_coding	PUTATIVE	None	1874	450	149	65622525	65624435	-1	CFL	None
11	CFL1	ENSG00000172757	ENST00000534769	protein_coding	PUTATIVE	None	1874	615	204	65622712	65628892	-1	CFL	None
11	CFL1	ENSG00000172757	ENST00000531413	protein_coding	PUTATIVE	None	1874	450	149	65622728	65626760	-1	CFL	None
11	CFL1	ENSG00000172757	ENST00000532134	protein_coding	PUTATIVE	None	1874	479	158	65622829	65629497	-1	CFL	None
11	CFL1	ENSG00000172757	ENST00000530413	protein_coding	PUTATIVE	None	1874	368	121	65622889	65623944	-1	CFL	None
11	CFL1	ENSG00000172757	ENST00000534784	protein_coding	PUTATIVE	None	1874	238	78	65623428	65625014	-1	CFL	None
11	CFL1	ENSG00000172757	ENST00000526975	protein_coding	KNOWN	None	1874	272	89	65623445	65626753	-1	CFL	None
11	CFL1	ENSG00000172757	ENST00000308162	protein_coding	KNOWN	CCDS8114	1874	501	166	65622308	65625804	-1	CFL	None
14	MIR496	ENSG00000207961	ENST00000385226	miRNA	KNOWN	None	32086	None	None	101526910	101527011	1	MIRN496	hsa-mir-496
7	None	ENSG00000271745	ENST00000607525	miRNA	NOVEL	None	None	None	None	102120527	102120612	1	None	None
16	RNA5SP419	ENSG00000251717	ENST00000515908	rRNA	KNOWN	None	43319	None	None	34988167	34988301	1	RN5S419	None
12	None	ENSG00000206790	ENST00000384063	misc_RNA	NOVEL	None	None	None	None	100651466	100651568	-1	None	None
14	None	ENSG00000169202	ENST00000312058	unprocessed_pseudogene	KNOWN	None	None	None	None	22070049	22070976	-1	None	None
7	None	ENSG00000271096	ENST00000604488	processed_pseudogene	KNOWN	None	None	None	None	24628734	24629026	-1	None	None
7	None	ENSG00000238392	ENST00000459585	miRNA	NOVEL	None	None	None	None	102147650	102147734	-1	None	None
3	None	ENSG00000200288	ENST00000363418	snoRNA	NOVEL	None	None	None	None	177342070	177342197	-1	None	None
8	RPS20P21	ENSG00000244295	ENST00000466859	processed_pseudogene	KNOWN	None	35993	None	None	74894360	74894702	1	None	None
3	LMOD3	ENSG00000163380	ENST00000420581	protein_coding	KNOWN	CCDS46862	6649	1683	560	69156023	69171717	-1	None	None
3	LMOD3	ENSG00000163380	ENST00000489031	protein_coding	KNOWN	CCDS46862	6649	1683	560	69157823	69171746	-1	None	None
3	LMOD3	ENSG00000163380	ENST00000475434	protein_coding	KNOWN	CCDS46862	6649	1683	560	69157875	69172183	-1	None	None
7	TSGA13	ENSG00000213265	ENST00000456951	protein_coding	KNOWN	CCDS5824	12369	828	275	130353488	130372268	-1	None	None
7	TSGA13	ENSG00000213265	ENST00000356588	protein_coding	KNOWN	CCDS5824	12369	828	275	130353767	130371406	-1	None	None
7	TSGA13	ENSG00000213265	ENST00000443954	protein_coding	KNOWN	None	12369	229	75	130364151	130371403	-1	None	None
7	TSGA13	ENSG00000213265	ENST00000438346	protein_coding	KNOWN	None	12369	174	57	130365784	130371412	-1	None	None
16	RNA5SP420	ENSG00000252806	ENST00000516997	rRNA	KNOWN	None	43320	None	None	34988417	34988553	1	RN5S420	None
7	None	ENSG00000238997	ENST00000411396	miRNA	NOVEL	None	None	None	None	102246813	102246897	-1	None	None
12	None	ENSG00000238748	ENST00000459038	snoRNA	NOVEL	None	None	None	None	100795923	100796028	1	None	None
17	WDR16	ENSG00000166596	ENST00000396219	protein_coding	KNOWN	CCDS42262	16053	1659	552	9479944	9546699	1	None	WDRPUH, FLJ37528
17	WDR16	ENSG00000166596	ENST00000352665	protein_coding	KNOWN	CCDS11149	16053	1863	620	9479944	9546776	1	None	WDRPUH, FLJ37528
17	WDR16	ENSG00000166596	ENST00000575247	nonsense_mediated_decay	KNOWN	None	16053	96	31	9479959	9501631	1	None	WDRPUH, FLJ37528
17	WDR16	ENSG00000166596	ENST00000574937	nonsense_mediated_decay	KNOWN	None	16053	147	48	9479961	9515674	1	None	WDRPUH, FLJ37528
17	WDR16	ENSG00000166596	ENST00000572333	nonsense_mediated_decay	KNOWN	None	16053	96	31	9479987	9503500	1	None	WDRPUH, FLJ37528
17	WDR16	ENSG00000166596	ENST00000576630	nonsense_mediated_decay	KNOWN	None	16053	129	42	9479987	9546702	1	None	WDRPUH, FLJ37528
17	WDR16	ENSG00000166596	ENST00000576499	retained_intron	KNOWN	None	16053	None	None	9479999	9497803	1	None	WDRPUH, FLJ37528
17	WDR16	ENSG00000166596	ENST00000576320	retained_intron	KNOWN	None	16053	None	None	9489223	9501886	1	None	WDRPUH, FLJ37528
17	WDR16	ENSG00000166596	ENST00000576714	processed_transcript	KNOWN	None	16053	None	None	9536283	9542462	1	None	WDRPUH, FLJ37528
17	WDR16	ENSG00000166596	ENST00000574097	protein_coding	PUTATIVE	None	16053	280	92	9538748	9546707	1	None	WDRPUH, FLJ37528
17	WDR16	ENSG00000166596	ENST00000299764	protein_coding	KNOWN	None	16053	1893	630	9487589	9546772	1	None	WDRPUH, FLJ37528
16	RNA5SP421	ENSG00000252673	ENST00000516864	rRNA	KNOWN	None	43321	None	None	34988926	34989059	1	RN5S421	None
1	None	ENSG00000237445	ENST00000441809	lincRNA	KNOWN	None	None	None	None	13983806	13986405	-1	None	None
7	RASA4DP	ENSG00000233297	ENST00000460726	unprocessed_pseudogene	KNOWN	None	44226	None	None	102322283	102330916	-1	None	None
11	None	ENSG00000213184	ENST00000532044	processed_pseudogene	KNOWN	None	None	None	None	122888346	122889369	1	None	None
16	RNA5SP422	ENSG00000252587	ENST00000516778	rRNA	KNOWN	None	43322	None	None	34989294	34989404	1	RN5S422	None
HSCHR6_MHC_COX	HLA-DOB	ENSG00000241386	ENST00000465683	nonsense_mediated_decay	KNOWN	None	4937	117	38	32702866	32707079	-1	None	None
HSCHR6_MHC_COX	HLA-DOB	ENSG00000241386	ENST00000447178	protein_coding	KNOWN	None	4937	822	273	32702866	32707151	-1	None	None
HSCHR6_MHC_COX	HLA-DOB	ENSG00000241386	ENST00000474748	retained_intron	KNOWN	None	4937	None	None	32703150	32707091	-1	None	None
HSCHR6_MHC_COX	HLA-DOB	ENSG00000241386	ENST00000439310	protein_coding	KNOWN	None	4937	543	180	32704473	32707013	-1	None	None
15	RNU6-1	ENSG00000206625	ENST00000383898	snRNA	KNOWN	None	10227	None	None	68132277	68132383	-1	RNU6A	U6, U6-1
12	AKAP3	ENSG00000111254	ENST00000545990	protein_coding	KNOWN	CCDS8531	373	2562	853	4724674	4758213	-1	None	FSP95, SOB1, AKAP110, CT82
12	AKAP3	ENSG00000111254	ENST00000540967	protein_coding	PUTATIVE	None	373	485	160	4737583	4754366	-1	None	FSP95, SOB1, AKAP110, CT82
12	AKAP3	ENSG00000111254	ENST00000536414	protein_coding	KNOWN	None	373	290	95	4737778	4754323	-1	None	FSP95, SOB1, AKAP110, CT82
12	AKAP3	ENSG00000111254	ENST00000541484	processed_transcript	KNOWN	None	373	None	None	4751065	4758213	-1	None	FSP95, SOB1, AKAP110, CT82
12	AKAP3	ENSG00000111254	ENST00000544636	processed_transcript	PUTATIVE	None	373	None	None	4751152	4758174	-1	None	FSP95, SOB1, AKAP110, CT82
12	AKAP3	ENSG00000111254	ENST00000228850	protein_coding	KNOWN	CCDS8531	373	2562	853	4724677	4754343	-1	None	FSP95, SOB1, AKAP110, CT82
X	None	ENSG00000236064	ENST00000430140	processed_transcript	KNOWN	None	None	None	None	107137827	107179210	-1	None	None
5	None	ENSG00000239602	ENST00000477363	processed_pseudogene	KNOWN	None	None	None	None	145517318	145517944	1	None	None
14	MIR377	ENSG00000199015	ENST00000362145	miRNA	KNOWN	None	31870	None	None	101528343	101528476	1	MIRN377	hsa-mir-377
22	RBX1	ENSG00000100387	ENST00000476110	retained_intron	KNOWN	None	9928	None	None	41347351	41360415	1	None	ROC1, RNF75, BA554C12.1
22	RBX1	ENSG00000100387	ENST00000216225	protein_coding	KNOWN	CCDS14009	9928	327	108	41347363	41369313	1	None	ROC1, RNF75, BA554C12.1
22	RBX1	ENSG00000100387	ENST00000467617	retained_intron	KNOWN	None	9928	None	None	41362205	41368666	1	None	ROC1, RNF75, BA554C12.1
16	RNA5SP423	ENSG00000252936	ENST00000517127	rRNA	KNOWN	None	43323	None	None	34989548	34989656	1	RN5S423	None
11	DPAGT1	ENSG00000172269	ENST00000409993	protein_coding	KNOWN	CCDS8411	2995	1227	408	118967213	118979041	-1	DPAGT2, DPAGT	GPT, D11S366, DGPT, ALG7, CDG-Ij
11	DPAGT1	ENSG00000172269	ENST00000354202	protein_coding	KNOWN	CCDS8411	2995	1227	408	118967217	118972852	-1	DPAGT2, DPAGT	GPT, D11S366, DGPT, ALG7, CDG-Ij
11	DPAGT1	ENSG00000172269	ENST00000392834	nonsense_mediated_decay	KNOWN	None	2995	174	57	118967220	118972588	-1	DPAGT2, DPAGT	GPT, D11S366, DGPT, ALG7, CDG-Ij
11	DPAGT1	ENSG00000172269	ENST00000461999	retained_intron	KNOWN	None	2995	None	None	118967221	118971119	-1	DPAGT2, DPAGT	GPT, D11S366, DGPT, ALG7, CDG-Ij
11	DPAGT1	ENSG00000172269	ENST00000481084	retained_intron	KNOWN	None	2995	None	None	118967221	118972852	-1	DPAGT2, DPAGT	GPT, D11S366, DGPT, ALG7, CDG-Ij
11	DPAGT1	ENSG00000172269	ENST00000414373	nonsense_mediated_decay	KNOWN	None	2995	288	95	118967259	118972570	-1	DPAGT2, DPAGT	GPT, D11S366, DGPT, ALG7, CDG-Ij
11	DPAGT1	ENSG00000172269	ENST00000442480	nonsense_mediated_decay	KNOWN	None	2995	681	226	118967668	118973081	-1	DPAGT2, DPAGT	GPT, D11S366, DGPT, ALG7, CDG-Ij
11	DPAGT1	ENSG00000172269	ENST00000525456	retained_intron	KNOWN	None	2995	None	None	118967973	118971838	-1	DPAGT2, DPAGT	GPT, D11S366, DGPT, ALG7, CDG-Ij
11	DPAGT1	ENSG00000172269	ENST00000524658	retained_intron	KNOWN	None	2995	None	None	118968047	118969145	-1	DPAGT2, DPAGT	GPT, D11S366, DGPT, ALG7, CDG-Ij
11	DPAGT1	ENSG00000172269	ENST00000530052	retained_intron	KNOWN	None	2995	None	None	118968670	118971733	-1	DPAGT2, DPAGT	GPT, D11S366, DGPT, ALG7, CDG-Ij
11	DPAGT1	ENSG00000172269	ENST00000533687	retained_intron	KNOWN	None	2995	None	None	118968784	118971626	-1	DPAGT2, DPAGT	GPT, D11S366, DGPT, ALG7, CDG-Ij
11	DPAGT1	ENSG00000172269	ENST00000445653	processed_transcript	KNOWN	None	2995	None	None	118971339	118972542	-1	DPAGT2, DPAGT	GPT, D11S366, DGPT, ALG7, CDG-Ij
11	DPAGT1	ENSG00000172269	ENST00000460183	retained_intron	KNOWN	None	2995	None	None	118971339	118972570	-1	DPAGT2, DPAGT	GPT, D11S366, DGPT, ALG7, CDG-Ij
11	DPAGT1	ENSG00000172269	ENST00000472016	retained_intron	KNOWN	None	2995	None	None	118971640	118972563	-1	DPAGT2, DPAGT	GPT, D11S366, DGPT, ALG7, CDG-Ij
11	DPAGT1	ENSG00000172269	ENST00000432443	protein_coding	KNOWN	None	2995	984	327	118967345	118972588	-1	DPAGT2, DPAGT	GPT, D11S366, DGPT, ALG7, CDG-Ij
3	None	ENSG00000228561	ENST00000423466	lincRNA	KNOWN	None	None	None	None	177401415	177409038	1	None	None
14	MIR541	ENSG00000216179	ENST00000401360	miRNA	KNOWN	None	33650	None	None	101530832	101530915	1	MIRN541	hsa-mir-541
15	RN7SL545P	ENSG00000241034	ENST00000495815	misc_RNA	KNOWN	None	46561	None	None	22706884	22707162	-1	None	None
16	None	ENSG00000260611	ENST00000564385	lincRNA	KNOWN	None	None	None	None	35019940	35021258	-1	None	None
3	EPHA3	ENSG00000044524	ENST00000336596	protein_coding	KNOWN	CCDS2922	3387	2952	983	89156674	89531284	1	ETK, ETK1, TYRO4	HEK, HEK4
3	EPHA3	ENSG00000044524	ENST00000452448	protein_coding	KNOWN	CCDS46875	3387	1620	539	89156812	89449495	1	ETK, ETK1, TYRO4	HEK, HEK4
3	EPHA3	ENSG00000044524	ENST00000494014	protein_coding	PUTATIVE	None	3387	2757	918	89156826	89528809	1	ETK, ETK1, TYRO4	HEK, HEK4
HSCHR5_1_CTG1	TAF9	ENSG00000263302	ENST00000576354	protein_coding	KNOWN	None	11542	519	172	68646822	68665383	-1	TAF2G	TAFII31, TAFII32, TAFIID32, MGC5067, CGI-137, MGC1603, MGC3647, AD-004
HSCHR5_1_CTG1	TAF9	ENSG00000263302	ENST00000570599	processed_transcript	KNOWN	None	11542	None	None	68647483	68665344	-1	TAF2G	TAFII31, TAFII32, TAFIID32, MGC5067, CGI-137, MGC1603, MGC3647, AD-004
HSCHR5_1_CTG1	TAF9	ENSG00000263302	ENST00000575603	protein_coding	KNOWN	None	11542	510	169	68647564	68665854	-1	TAF2G	TAFII31, TAFII32, TAFIID32, MGC5067, CGI-137, MGC1603, MGC3647, AD-004
HSCHR5_1_CTG1	TAF9	ENSG00000263302	ENST00000576974	protein_coding	NOVEL	None	11542	426	141	68647768	68665361	-1	TAF2G	TAFII31, TAFII32, TAFIID32, MGC5067, CGI-137, MGC1603, MGC3647, AD-004
HSCHR5_1_CTG1	TAF9	ENSG00000263302	ENST00000571444	protein_coding	KNOWN	None	11542	795	264	68660583	68662661	-1	TAF2G	TAFII31, TAFII32, TAFIID32, MGC5067, CGI-137, MGC1603, MGC3647, AD-004
HSCHR5_1_CTG1	TAF9	ENSG00000263302	ENST00000577094	protein_coding	KNOWN	None	11542	795	264	68660585	68665483	-1	TAF2G	TAFII31, TAFII32, TAFIID32, MGC5067, CGI-137, MGC1603, MGC3647, AD-004
HSCHR5_1_CTG1	TAF9	ENSG00000263302	ENST00000575716	protein_coding	KNOWN	None	11542	593	196	68660985	68665331	-1	TAF2G	TAFII31, TAFII32, TAFIID32, MGC5067, CGI-137, MGC1603, MGC3647, AD-004
HSCHR5_1_CTG1	TAF9	ENSG00000263302	ENST00000573218	protein_coding	KNOWN	None	11542	499	165	68661079	68665157	-1	TAF2G	TAFII31, TAFII32, TAFIID32, MGC5067, CGI-137, MGC1603, MGC3647, AD-004
HSCHR5_1_CTG1	TAF9	ENSG00000263302	ENST00000575344	protein_coding	KNOWN	None	11542	407	134	68661171	68663750	-1	TAF2G	TAFII31, TAFII32, TAFIID32, MGC5067, CGI-137, MGC1603, MGC3647, AD-004
HSCHR5_1_CTG1	TAF9	ENSG00000263302	ENST00000574082	protein_coding	KNOWN	None	11542	381	126	68661197	68665318	-1	TAF2G	TAFII31, TAFII32, TAFIID32, MGC5067, CGI-137, MGC1603, MGC3647, AD-004
HSCHR5_1_CTG1	TAF9	ENSG00000263302	ENST00000576134	protein_coding	KNOWN	None	11542	306	101	68661272	68665003	-1	TAF2G	TAFII31, TAFII32, TAFIID32, MGC5067, CGI-137, MGC1603, MGC3647, AD-004
8	DEFT1P	ENSG00000215378	ENST00000453425	unprocessed_pseudogene	KNOWN	None	18339	None	None	6844700	6847243	-1	DEFQ1, DEFT1	None
15	None	ENSG00000261702	ENST00000567857	processed_pseudogene	KNOWN	None	None	None	None	68266729	68266963	-1	None	None
16	HMGN2P41	ENSG00000261620	ENST00000569492	processed_pseudogene	KNOWN	None	39412	None	None	35037240	35037651	-1	None	None
7	None	ENSG00000271330	ENST00000605160	processed_pseudogene	KNOWN	None	None	None	None	24713928	24714231	-1	None	None
16	None	ENSG00000271609	ENST00000605544	processed_pseudogene	KNOWN	None	None	None	None	21549808	21550115	1	None	None
12	None	ENSG00000271177	ENST00000605098	processed_pseudogene	KNOWN	None	None	None	None	100918964	100919198	-1	None	None
1	None	ENSG00000253085	ENST00000517276	snoRNA	NOVEL	None	None	None	None	14022565	14022694	-1	None	None
16	None	ENSG00000252798	ENST00000516989	snoRNA	NOVEL	None	None	None	None	21598948	21599185	1	None	None
7	None	ENSG00000213385	ENST00000434317	processed_pseudogene	KNOWN	None	None	None	None	102395593	102396386	1	None	None
3	KIF15	ENSG00000163808	ENST00000326047	protein_coding	KNOWN	CCDS33744	17273	4167	1388	44803209	44894753	1	KNSL7	HKLP2, NY-BR-62
3	KIF15	ENSG00000163808	ENST00000438321	nonsense_mediated_decay	KNOWN	None	17273	252	83	44803213	44894753	1	KNSL7	HKLP2, NY-BR-62
3	KIF15	ENSG00000163808	ENST00000481166	protein_coding	PUTATIVE	None	17273	2134	710	44803354	44868982	1	KNSL7	HKLP2, NY-BR-62
3	KIF15	ENSG00000163808	ENST00000425755	protein_coding	PUTATIVE	None	17273	3072	1023	44840679	44894513	1	KNSL7	HKLP2, NY-BR-62
3	KIF15	ENSG00000163808	ENST00000493134	retained_intron	KNOWN	None	17273	None	None	44840705	44854762	1	KNSL7	HKLP2, NY-BR-62
3	KIF15	ENSG00000163808	ENST00000453693	nonsense_mediated_decay	KNOWN	None	17273	386	127	44856463	44894746	1	KNSL7	HKLP2, NY-BR-62
3	KIF15	ENSG00000163808	ENST00000422209	nonsense_mediated_decay	KNOWN	None	17273	584	193	44884615	44914868	1	KNSL7	HKLP2, NY-BR-62
11	RPL34P23	ENSG00000243669	ENST00000469983	processed_pseudogene	KNOWN	None	35820	None	None	122906575	122906932	1	None	None
5	None	ENSG00000239317	ENST00000495857	processed_pseudogene	KNOWN	None	None	None	None	145518334	145518571	1	None	None
X	NKAP	ENSG00000101882	ENST00000477789	processed_transcript	KNOWN	None	29873	None	None	119059014	119072040	-1	None	FLJ22626
X	NKAP	ENSG00000101882	ENST00000371410	protein_coding	KNOWN	CCDS14592	29873	1248	415	119059018	119077735	-1	None	FLJ22626
X	NKAP	ENSG00000101882	ENST00000482407	processed_transcript	KNOWN	None	29873	None	None	119064088	119066715	-1	None	FLJ22626
15	None	ENSG00000259596	ENST00000560026	processed_transcript	KNOWN	None	None	None	None	22747313	22782336	-1	None	None
7	RNU6-1136P	ENSG00000252643	ENST00000516834	snRNA	KNOWN	None	48099	None	None	102475052	102475155	1	None	None
4	None	ENSG00000250768	ENST00000508984	processed_pseudogene	KNOWN	None	None	None	None	65296627	65298933	1	None	None
16	VN1R70P	ENSG00000261515	ENST00000564064	processed_pseudogene	KNOWN	None	37391	None	None	35071257	35072103	1	None	None
8	None	ENSG00000253833	ENST00000517767	processed_pseudogene	KNOWN	None	None	None	None	74896728	74897118	1	None	None
7	RN7SKP198	ENSG00000238324	ENST00000459286	misc_RNA	KNOWN	None	45922	None	None	102497897	102498202	1	None	None
16	None	ENSG00000261596	ENST00000564271	sense_intronic	KNOWN	None	None	None	None	21638063	21638723	1	None	None
7	None	ENSG00000230257	ENST00000420058	processed_transcript	KNOWN	None	None	None	None	102613969	102629303	1	None	None
5	RNU7-180P	ENSG00000238374	ENST00000459240	snRNA	KNOWN	None	45714	None	None	145624754	145624816	-1	None	None
12	None	ENSG00000257803	ENST00000547380	processed_pseudogene	KNOWN	None	None	None	None	100972522	100973975	1	None	None
16	RNU6-1005P	ENSG00000207248	ENST00000384519	snRNA	KNOWN	None	47968	None	None	21653375	21653481	1	None	None
14	MIR409	ENSG00000199107	ENST00000362237	miRNA	KNOWN	None	32055	None	None	101531637	101531715	1	MIRN409	hsa-mir-409
7	None	ENSG00000238976	ENST00000459086	miRNA	NOVEL	None	None	None	None	24940431	24940524	1	None	None
8	TACC1	ENSG00000147526	ENST00000519416	protein_coding	NOVEL	None	11522	1830	609	38585704	38708311	1	None	None
8	TACC1	ENSG00000147526	ENST00000520615	protein_coding	KNOWN	CCDS55224	11522	1833	610	38585708	38708311	1	None	None
8	TACC1	ENSG00000147526	ENST00000522474	processed_transcript	KNOWN	None	11522	None	None	38585862	38602719	1	None	None
8	TACC1	ENSG00000147526	ENST00000520340	protein_coding	PUTATIVE	None	11522	1743	580	38586106	38696967	1	None	None
8	TACC1	ENSG00000147526	ENST00000522983	processed_transcript	KNOWN	None	11522	None	None	38586135	38602870	1	None	None
8	TACC1	ENSG00000147526	ENST00000518415	protein_coding	KNOWN	None	11522	2196	731	38586158	38705650	1	None	None
8	TACC1	ENSG00000147526	ENST00000521642	protein_coding	PUTATIVE	None	11522	399	132	38614757	38688695	1	None	None
8	TACC1	ENSG00000147526	ENST00000521050	protein_coding	PUTATIVE	None	11522	435	144	38614795	38688695	1	None	None
8	TACC1	ENSG00000147526	ENST00000522904	protein_coding	PUTATIVE	None	11522	1672	556	38614799	38693809	1	None	None
8	TACC1	ENSG00000147526	ENST00000522752	processed_transcript	KNOWN	None	11522	None	None	38614817	38698136	1	None	None
8	TACC1	ENSG00000147526	ENST00000524354	protein_coding	KNOWN	None	11522	387	128	38643192	38677149	1	None	None
8	TACC1	ENSG00000147526	ENST00000522544	processed_transcript	PUTATIVE	None	11522	None	None	38643192	38677232	1	None	None
8	TACC1	ENSG00000147526	ENST00000523239	processed_transcript	KNOWN	None	11522	None	None	38643429	38696025	1	None	None
8	TACC1	ENSG00000147526	ENST00000317827	protein_coding	KNOWN	CCDS6109	11522	2418	805	38644722	38710546	1	None	None
8	TACC1	ENSG00000147526	ENST00000276520	protein_coding	KNOWN	CCDS47845	11522	1188	395	38644781	38710546	1	None	None
8	TACC1	ENSG00000147526	ENST00000521528	protein_coding	KNOWN	None	11522	91	29	38645624	38677438	1	None	None
8	TACC1	ENSG00000147526	ENST00000520973	protein_coding	KNOWN	None	11522	1746	581	38645624	38705794	1	None	None
8	TACC1	ENSG00000147526	ENST00000521935	protein_coding	KNOWN	None	11522	414	137	38645681	38677761	1	None	None
8	TACC1	ENSG00000147526	ENST00000523834	processed_transcript	PUTATIVE	None	11522	None	None	38645840	38677268	1	None	None
8	TACC1	ENSG00000147526	ENST00000521154	retained_intron	KNOWN	None	11522	None	None	38645879	38677140	1	None	None
8	TACC1	ENSG00000147526	ENST00000524193	protein_coding	KNOWN	None	11522	182	59	38662968	38677529	1	None	None
8	TACC1	ENSG00000147526	ENST00000522955	retained_intron	KNOWN	None	11522	None	None	38662970	38685585	1	None	None
8	TACC1	ENSG00000147526	ENST00000521866	protein_coding	PUTATIVE	None	11522	1688	561	38677439	38705660	1	None	None
8	TACC1	ENSG00000147526	ENST00000518809	protein_coding	PUTATIVE	None	11522	1364	453	38677850	38708293	1	None	None
8	TACC1	ENSG00000147526	ENST00000520611	protein_coding	PUTATIVE	None	11522	729	242	38678065	38706039	1	None	None
8	TACC1	ENSG00000147526	ENST00000517336	processed_transcript	PUTATIVE	None	11522	None	None	38682170	38684806	1	None	None
8	TACC1	ENSG00000147526	ENST00000519093	retained_intron	KNOWN	None	11522	None	None	38696802	38710546	1	None	None
8	TACC1	ENSG00000147526	ENST00000521568	retained_intron	KNOWN	None	11522	None	None	38697569	38701081	1	None	None
8	TACC1	ENSG00000147526	ENST00000522548	retained_intron	KNOWN	None	11522	None	None	38703987	38705800	1	None	None
8	TACC1	ENSG00000147526	ENST00000443286	protein_coding	KNOWN	None	11522	2379	792	38586105	38705633	1	None	None
8	TACC1	ENSG00000147526	ENST00000330691	protein_coding	KNOWN	None	11522	1140	379	38614851	38710546	1	None	None
8	TACC1	ENSG00000147526	ENST00000348567	protein_coding	KNOWN	None	11522	1104	367	38614851	38710546	1	None	None
8	TACC1	ENSG00000147526	ENST00000379931	protein_coding	KNOWN	None	11522	2454	817	38644722	38710546	1	None	None
8	RNU6-1300P	ENSG00000212348	ENST00000391046	snRNA	KNOWN	None	48263	None	None	74960912	74961019	1	None	None
1	RNU6-1265P	ENSG00000252151	ENST00000516342	snRNA	KNOWN	None	48228	None	None	14450728	14450830	-1	None	None
5	None	ENSG00000250025	ENST00000515598	antisense	KNOWN	None	None	None	None	145686661	145756526	-1	None	None
5	None	ENSG00000250025	ENST00000511390	antisense	KNOWN	None	None	None	None	145740258	145754988	-1	None	None
14	None	ENSG00000256385	ENST00000545592	processed_pseudogene	KNOWN	None	None	None	None	22080078	22080535	-1	None	None
3	None	ENSG00000231574	ENST00000436078	lincRNA	KNOWN	None	None	None	None	177534653	177617012	1	None	None
3	None	ENSG00000231574	ENST00000434309	lincRNA	KNOWN	None	None	None	None	177545571	177614720	1	None	None
14	MIR412	ENSG00000199012	ENST00000362142	miRNA	KNOWN	None	32064	None	None	101531784	101531874	1	MIRN412	hsa-mir-412
11	POLR2L	ENSG00000177700	ENST00000534030	nonsense_mediated_decay	KNOWN	CCDS7720	9199	204	67	837356	842529	-1	None	RPB10beta, RBP10, RPABC5, RPB7.6, hRPB7.6, hsRPB10b
11	POLR2L	ENSG00000177700	ENST00000322028	protein_coding	KNOWN	CCDS7720	9199	204	67	839721	842545	-1	None	RPB10beta, RBP10, RPABC5, RPB7.6, hRPB7.6, hsRPB10b
X	None	ENSG00000207363	ENST00000384633	misc_RNA	NOVEL	None	None	None	None	107144375	107144476	-1	None	None
15	None	ENSG00000260109	ENST00000568867	unprocessed_pseudogene	KNOWN	None	None	None	None	68277397	68278626	1	None	None
8	DEFT1P2	ENSG00000232039	ENST00000453669	unprocessed_pseudogene	KNOWN	None	33599	None	None	6863815	6864911	-1	None	None
10	RPS7P9	ENSG00000233353	ENST00000414704	processed_pseudogene	KNOWN	None	36998	None	None	82476239	82476824	-1	None	None
16	RNU6-196P	ENSG00000207042	ENST00000384315	snRNA	KNOWN	None	47159	None	None	21653615	21653721	1	None	None
7	None	ENSG00000234999	ENST00000420809	processed_pseudogene	KNOWN	None	None	None	None	24945754	24946213	-1	None	None
8	None	ENSG00000254288	ENST00000519323	lincRNA	KNOWN	None	None	None	None	74964575	75012088	1	None	None
HSCHR6_MHC_SSTO	NCR3	ENSG00000223833	ENST00000437517	protein_coding	KNOWN	None	19077	606	201	31546616	31550705	-1	LY117	1C7, NKp30, CD337
HSCHR6_MHC_SSTO	NCR3	ENSG00000223833	ENST00000436253	protein_coding	KNOWN	None	19077	534	177	31546616	31550705	-1	LY117	1C7, NKp30, CD337
HSCHR6_MHC_SSTO	NCR3	ENSG00000223833	ENST00000489751	processed_transcript	KNOWN	None	19077	None	None	31546616	31550679	-1	LY117	1C7, NKp30, CD337
HSCHR6_MHC_SSTO	NCR3	ENSG00000223833	ENST00000466586	processed_transcript	KNOWN	None	19077	None	None	31546616	31550532	-1	LY117	1C7, NKp30, CD337
HSCHR6_MHC_SSTO	NCR3	ENSG00000223833	ENST00000452296	protein_coding	KNOWN	None	19077	573	190	31546996	31550705	-1	LY117	1C7, NKp30, CD337
HSCHR6_MHC_SSTO	NCR3	ENSG00000223833	ENST00000419086	protein_coding	KNOWN	None	19077	498	165	31547018	31550469	-1	LY117	1C7, NKp30, CD337
HSCHR6_MHC_SSTO	NCR3	ENSG00000223833	ENST00000465928	nonsense_mediated_decay	KNOWN	None	19077	348	115	31547018	31550469	-1	LY117	1C7, NKp30, CD337
16	None	ENSG00000260306	ENST00000567370	lincRNA	KNOWN	None	None	None	None	21805416	21807080	-1	None	None
X	None	ENSG00000225728	ENST00000451535	processed_pseudogene	KNOWN	None	None	None	None	107182493	107182872	-1	None	None
14	MIR369	ENSG00000199025	ENST00000362155	miRNA	KNOWN	None	31783	None	None	101531918	101532024	1	MIRN369	hsa-mir-369
1	None	ENSG00000231606	ENST00000449215	lincRNA	KNOWN	None	None	None	None	14548386	14549613	-1	None	None
5	SNORA47	ENSG00000238961	ENST00000458862	snoRNA	KNOWN	None	32640	None	None	76376259	76376396	-1	None	HBI-115
19	PTGER1	ENSG00000160951	ENST00000292513	protein_coding	KNOWN	CCDS12309	9593	1209	402	14583278	14586174	-1	None	EP1
12	METTL25	ENSG00000127720	ENST00000248306	protein_coding	KNOWN	CCDS9024	26228	1812	603	82752276	82873015	1	C12orf26	FLJ22789
12	METTL25	ENSG00000127720	ENST00000548569	processed_transcript	KNOWN	None	26228	None	None	82752307	82782681	1	C12orf26	FLJ22789
12	METTL25	ENSG00000127720	ENST00000547985	processed_transcript	PUTATIVE	None	26228	None	None	82752308	82780751	1	C12orf26	FLJ22789
12	METTL25	ENSG00000127720	ENST00000547357	processed_transcript	KNOWN	None	26228	None	None	82752308	82853710	1	C12orf26	FLJ22789
12	METTL25	ENSG00000127720	ENST00000548200	protein_coding	PUTATIVE	None	26228	717	238	82752319	82792759	1	C12orf26	FLJ22789
12	METTL25	ENSG00000127720	ENST00000550058	protein_coding	PUTATIVE	None	26228	568	188	82752673	82792734	1	C12orf26	FLJ22789
12	METTL25	ENSG00000127720	ENST00000551722	processed_transcript	KNOWN	None	26228	None	None	82767806	82792782	1	C12orf26	FLJ22789
12	METTL25	ENSG00000127720	ENST00000550298	protein_coding	PUTATIVE	None	26228	432	143	82793138	82832866	1	C12orf26	FLJ22789
12	METTL25	ENSG00000127720	ENST00000548432	retained_intron	KNOWN	None	26228	None	None	82832294	82872945	1	C12orf26	FLJ22789
12	METTL25	ENSG00000127720	ENST00000552741	processed_transcript	KNOWN	None	26228	None	None	82868278	82873015	1	C12orf26	FLJ22789
12	METTL25	ENSG00000127720	ENST00000551645	retained_intron	KNOWN	None	26228	None	None	82870078	82872948	1	C12orf26	FLJ22789
X	None	ENSG00000237311	ENST00000424241	antisense	KNOWN	None	None	None	None	65219593	65220913	1	None	None
8	RPS3AP32	ENSG00000240047	ENST00000479876	processed_pseudogene	KNOWN	None	36717	None	None	74968117	74968882	1	None	None
6	None	ENSG00000270326	ENST00000605757	processed_pseudogene	KNOWN	None	None	None	None	28287437	28287629	-1	None	None
12	None	ENSG00000239036	ENST00000458984	miRNA	NOVEL	None	None	None	None	101049500	101049582	-1	None	None
10	None	ENSG00000233703	ENST00000456245	processed_pseudogene	KNOWN	None	None	None	None	82509388	82510987	-1	None	None
14	ARL6IP1P1	ENSG00000255664	ENST00000545836	processed_pseudogene	KNOWN	None	23178	None	None	22117944	22118553	-1	ARL6IPP1	None
7	RBM48	ENSG00000127993	ENST00000265732	protein_coding	KNOWN	CCDS43615	21785	1104	367	92158087	92166848	1	C7orf64	DKFZp564O0523, HSPC304
7	RBM48	ENSG00000127993	ENST00000481551	protein_coding	NOVEL	None	21785	1131	376	92158087	92167319	1	C7orf64	DKFZp564O0523, HSPC304
7	RBM48	ENSG00000127993	ENST00000496410	protein_coding	PUTATIVE	None	21785	275	90	92158121	92161864	1	C7orf64	DKFZp564O0523, HSPC304
11	RPS26P43	ENSG00000244641	ENST00000497201	processed_pseudogene	KNOWN	None	36675	None	None	122920495	122921061	-1	None	None
10	FARSBP1	ENSG00000231060	ENST00000435808	processed_pseudogene	KNOWN	None	45115	None	None	82535921	82537844	-1	None	None
6	RNU2-45P	ENSG00000251877	ENST00000516068	snRNA	KNOWN	None	48538	None	None	28378047	28378233	1	None	None
15	None	ENSG00000259184	ENST00000560512	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	22751742	22752819	-1	None	None
X	MIR223	ENSG00000207939	ENST00000385204	miRNA	KNOWN	None	31603	None	None	65238712	65238821	1	MIRN223	hsa-mir-223
16	RRN3P1	ENSG00000248124	ENST00000546471	processed_transcript	KNOWN	None	30548	None	None	21807951	21819058	-1	None	None
16	RRN3P1	ENSG00000248124	ENST00000551901	transcribed_unprocessed_pseudogene	KNOWN	None	30548	None	None	21810989	21831705	-1	None	None
16	RRN3P1	ENSG00000248124	ENST00000551681	processed_transcript	KNOWN	None	30548	None	None	21821748	21831731	-1	None	None
16	RRN3P1	ENSG00000248124	ENST00000514813	unprocessed_pseudogene	KNOWN	None	30548	None	None	21812126	21831716	-1	None	None
15	None	ENSG00000264779	ENST00000577331	miRNA	NOVEL	None	None	None	None	68522010	68522127	1	None	None
12	None	ENSG00000257325	ENST00000552332	antisense	KNOWN	None	None	None	None	101246109	101253040	-1	None	None
8	DEFA11P	ENSG00000234178	ENST00000446470	unprocessed_pseudogene	KNOWN	None	33354	None	None	6886163	6887011	-1	None	DEFAP3
17	None	ENSG00000266208	ENST00000578774	protein_coding	PUTATIVE	None	None	990	329	38516907	38520945	1	None	None
X	None	ENSG00000215168	ENST00000311910	processed_pseudogene	KNOWN	None	None	None	None	65275429	65276429	-1	None	None
14	MIR410	ENSG00000199092	ENST00000362222	miRNA	KNOWN	None	32065	None	None	101532249	101532328	1	MIRN410	hsa-mir-410
17	HID1	ENSG00000167861	ENST00000532395	retained_intron	KNOWN	None	15736	None	None	72946838	72951067	-1	C17orf28	DMC1, HID-1
17	HID1	ENSG00000167861	ENST00000425042	protein_coding	KNOWN	CCDS32726	15736	2367	788	72946839	72968829	-1	C17orf28	DMC1, HID-1
17	HID1	ENSG00000167861	ENST00000534480	nonsense_mediated_decay	KNOWN	None	15736	576	191	72947551	72968815	-1	C17orf28	DMC1, HID-1
17	HID1	ENSG00000167861	ENST00000578002	processed_transcript	KNOWN	None	15736	None	None	72950421	72952051	-1	C17orf28	DMC1, HID-1
17	HID1	ENSG00000167861	ENST00000532894	retained_intron	KNOWN	None	15736	None	None	72951916	72956010	-1	C17orf28	DMC1, HID-1
17	HID1	ENSG00000167861	ENST00000318565	protein_coding	PUTATIVE	None	15736	748	248	72954064	72956190	-1	C17orf28	DMC1, HID-1
17	HID1	ENSG00000167861	ENST00000583244	retained_intron	KNOWN	None	15736	None	None	72954298	72955096	-1	C17orf28	DMC1, HID-1
17	HID1	ENSG00000167861	ENST00000530857	protein_coding	PUTATIVE	None	15736	760	252	72955071	72968811	-1	C17orf28	DMC1, HID-1
17	HID1	ENSG00000167861	ENST00000528902	retained_intron	KNOWN	None	15736	None	None	72957692	72968858	-1	C17orf28	DMC1, HID-1
17	HID1	ENSG00000167861	ENST00000532900	processed_transcript	KNOWN	None	15736	None	None	72958383	72969261	-1	C17orf28	DMC1, HID-1
17	HID1	ENSG00000167861	ENST00000581676	protein_coding	PUTATIVE	None	15736	343	113	72959068	72968866	-1	C17orf28	DMC1, HID-1
17	HID1	ENSG00000167861	ENST00000530904	processed_transcript	KNOWN	None	15736	None	None	72959082	72969056	-1	C17orf28	DMC1, HID-1
17	HID1	ENSG00000167861	ENST00000525128	retained_intron	KNOWN	None	15736	None	None	72959603	72968827	-1	C17orf28	DMC1, HID-1
17	HID1	ENSG00000167861	ENST00000579818	processed_transcript	KNOWN	None	15736	None	None	72959866	72968825	-1	C17orf28	DMC1, HID-1
12	None	ENSG00000258007	ENST00000549036	antisense	KNOWN	None	None	None	None	101432198	101432872	-1	None	None
15	HMGN2P40	ENSG00000260602	ENST00000566875	processed_pseudogene	KNOWN	None	39411	None	None	68546887	68547277	1	None	None
4	None	ENSG00000251430	ENST00000514397	unprocessed_pseudogene	KNOWN	None	None	None	None	65472136	65472331	1	None	None
11	None	ENSG00000184566	ENST00000330381	protein_coding	KNOWN	None	None	369	122	33902189	33903338	1	None	None
6	COX11P1	ENSG00000231162	ENST00000489116	processed_pseudogene	KNOWN	None	2262	None	None	28414750	28415584	1	COX11P	None
6	COX11P1	ENSG00000231162	ENST00000393171	processed_pseudogene	KNOWN	None	2262	None	None	28415069	28415584	1	COX11P	None
X	EIF4BP9	ENSG00000237294	ENST00000438308	processed_pseudogene	KNOWN	None	37942	None	None	65294677	65296189	-1	None	None
4	None	ENSG00000251385	ENST00000509187	processed_pseudogene	KNOWN	None	None	None	None	65473421	65474549	-1	None	None
11	NXF1	ENSG00000162231	ENST00000531709	protein_coding	KNOWN	CCDS44629	8071	1071	356	62559595	62572942	-1	None	TAP, Mex67, DKFZp667O0311
11	NXF1	ENSG00000162231	ENST00000532297	protein_coding	KNOWN	CCDS8037	8071	1860	619	62559643	62573774	-1	None	TAP, Mex67, DKFZp667O0311
11	NXF1	ENSG00000162231	ENST00000527902	protein_coding	NOVEL	None	8071	374	123	62559703	62563554	-1	None	TAP, Mex67, DKFZp667O0311
11	NXF1	ENSG00000162231	ENST00000533048	processed_transcript	KNOWN	None	8071	None	None	62559825	62564530	-1	None	TAP, Mex67, DKFZp667O0311
11	NXF1	ENSG00000162231	ENST00000533499	retained_intron	KNOWN	None	8071	None	None	62559887	62562872	-1	None	TAP, Mex67, DKFZp667O0311
11	NXF1	ENSG00000162231	ENST00000527497	retained_intron	KNOWN	None	8071	None	None	62559890	62562100	-1	None	TAP, Mex67, DKFZp667O0311
11	NXF1	ENSG00000162231	ENST00000530875	protein_coding	NOVEL	None	8071	1809	602	62561810	62572941	-1	None	TAP, Mex67, DKFZp667O0311
11	NXF1	ENSG00000162231	ENST00000533440	retained_intron	KNOWN	None	8071	None	None	62562223	62564035	-1	None	TAP, Mex67, DKFZp667O0311
11	NXF1	ENSG00000162231	ENST00000531872	retained_intron	KNOWN	None	8071	None	None	62563621	62566078	-1	None	TAP, Mex67, DKFZp667O0311
11	NXF1	ENSG00000162231	ENST00000531579	processed_transcript	KNOWN	None	8071	None	None	62563777	62572941	-1	None	TAP, Mex67, DKFZp667O0311
11	NXF1	ENSG00000162231	ENST00000526163	processed_transcript	KNOWN	None	8071	None	None	62566317	62572912	-1	None	TAP, Mex67, DKFZp667O0311
11	NXF1	ENSG00000162231	ENST00000531131	processed_transcript	KNOWN	None	8071	None	None	62567585	62572912	-1	None	TAP, Mex67, DKFZp667O0311
11	NXF1	ENSG00000162231	ENST00000533671	protein_coding	PUTATIVE	None	8071	346	114	62569446	62572665	-1	None	TAP, Mex67, DKFZp667O0311
11	NXF1	ENSG00000162231	ENST00000525576	nonsense_mediated_decay	KNOWN	None	8071	231	76	62569476	62572912	-1	None	TAP, Mex67, DKFZp667O0311
11	NXF1	ENSG00000162231	ENST00000531474	protein_coding	PUTATIVE	None	8071	189	62	62570891	62571657	-1	None	TAP, Mex67, DKFZp667O0311
11	NXF1	ENSG00000162231	ENST00000527064	retained_intron	KNOWN	None	8071	None	None	62571022	62572943	-1	None	TAP, Mex67, DKFZp667O0311
11	NXF1	ENSG00000162231	ENST00000294172	protein_coding	KNOWN	CCDS8037	8071	1860	619	62559598	62572964	-1	None	TAP, Mex67, DKFZp667O0311
11	NXF1	ENSG00000162231	ENST00000439713	protein_coding	KNOWN	CCDS44629	8071	1071	356	62567794	62572901	-1	None	TAP, Mex67, DKFZp667O0311
1	None	ENSG00000234593	ENST00000447908	lincRNA	KNOWN	None	None	None	None	14675450	14677518	-1	None	None
2	None	ENSG00000268396	ENST00000598920	protein_coding	NOVEL	None	None	75	24	239192329	239192498	1	None	None
4	MTND6P16	ENSG00000249893	ENST00000504006	unprocessed_pseudogene	KNOWN	None	39479	None	None	65474623	65475142	1	None	None
14	OR4E1	ENSG00000180636	ENST00000413808	processed_pseudogene	KNOWN	None	8296	None	None	22138203	22139150	-1	OR4E1P	None
14	OR4E1	ENSG00000180636	ENST00000303519	pseudogene	KNOWN	None	8296	None	None	22138234	22139135	-1	OR4E1P	None
10	None	ENSG00000236892	ENST00000426811	lincRNA	KNOWN	None	None	None	None	3574286	3579223	-1	None	None
10	None	ENSG00000236892	ENST00000413757	lincRNA	KNOWN	None	None	None	None	3577304	3579049	-1	None	None
1	PBX1	ENSG00000185630	ENST00000467023	processed_transcript	KNOWN	None	8632	None	None	164524821	164533252	1	None	None
1	PBX1	ENSG00000185630	ENST00000485769	protein_coding	PUTATIVE	None	8632	213	70	164528437	164529594	1	None	None
1	PBX1	ENSG00000185630	ENST00000340699	protein_coding	KNOWN	None	8632	510	169	164528644	164761975	1	None	None
1	PBX1	ENSG00000185630	ENST00000420696	protein_coding	KNOWN	CCDS1246	8632	1293	430	164528872	164821068	1	None	None
1	PBX1	ENSG00000185630	ENST00000498497	retained_intron	KNOWN	None	8632	None	None	164529060	164654202	1	None	None
1	PBX1	ENSG00000185630	ENST00000559240	protein_coding	NOVEL	None	8632	1020	339	164529060	164815913	1	None	None
1	PBX1	ENSG00000185630	ENST00000367897	protein_coding	KNOWN	CCDS55654	8632	1044	347	164529060	164816192	1	None	None
1	PBX1	ENSG00000185630	ENST00000605467	retained_intron	KNOWN	None	8632	None	None	164529250	164529687	1	None	None
1	PBX1	ENSG00000185630	ENST00000559578	protein_coding	PUTATIVE	None	8632	479	158	164532042	164769120	1	None	None
1	PBX1	ENSG00000185630	ENST00000560469	processed_transcript	KNOWN	None	8632	None	None	164546021	164816338	1	None	None
1	PBX1	ENSG00000185630	ENST00000496120	processed_transcript	KNOWN	None	8632	None	None	164559587	164816338	1	None	None
1	PBX1	ENSG00000185630	ENST00000468104	processed_transcript	KNOWN	None	8632	None	None	164574430	164816308	1	None	None
1	PBX1	ENSG00000185630	ENST00000560641	protein_coding	PUTATIVE	None	8632	978	325	164595243	164816338	1	None	None
1	PBX1	ENSG00000185630	ENST00000474046	processed_transcript	KNOWN	None	8632	None	None	164595273	164651720	1	None	None
1	PBX1	ENSG00000185630	ENST00000482110	protein_coding	PUTATIVE	None	8632	386	127	164600218	164769126	1	None	None
1	PBX1	ENSG00000185630	ENST00000558796	processed_transcript	KNOWN	None	8632	None	None	164621133	164868533	1	None	None
1	PBX1	ENSG00000185630	ENST00000558837	protein_coding	PUTATIVE	None	8632	416	137	164742149	164776808	1	None	None
1	PBX1	ENSG00000185630	ENST00000559560	protein_coding	PUTATIVE	None	8632	293	96	164756880	164769033	1	None	None
1	PBX1	ENSG00000185630	ENST00000465089	retained_intron	KNOWN	None	8632	None	None	164781965	164819594	1	None	None
1	PBX1	ENSG00000185630	ENST00000540236	protein_coding	KNOWN	CCDS55653	8632	1263	420	164529060	164818639	1	None	None
1	PBX1	ENSG00000185630	ENST00000401534	protein_coding	KNOWN	CCDS55654	8632	1044	347	164529060	164790820	1	None	None
1	PBX1	ENSG00000185630	ENST00000540246	protein_coding	KNOWN	None	8632	906	301	164761729	164854300	1	None	None
14	MIR656	ENSG00000207959	ENST00000385224	miRNA	KNOWN	None	32912	None	None	101533061	101533138	1	MIRN656	hsa-mir-656
19	LONP1	ENSG00000196365	ENST00000587552	retained_intron	KNOWN	None	9479	None	None	5691845	5719815	-1	PRSS15	LonHS, hLON, PIM1
19	LONP1	ENSG00000196365	ENST00000360614	protein_coding	KNOWN	CCDS12148	9479	2880	959	5691845	5720301	-1	PRSS15	LonHS, hLON, PIM1
19	LONP1	ENSG00000196365	ENST00000590558	nonsense_mediated_decay	KNOWN	None	9479	558	185	5691846	5719882	-1	PRSS15	LonHS, hLON, PIM1
19	LONP1	ENSG00000196365	ENST00000585374	protein_coding	PUTATIVE	None	9479	2538	845	5691846	5720157	-1	PRSS15	LonHS, hLON, PIM1
19	LONP1	ENSG00000196365	ENST00000593119	protein_coding	NOVEL	None	9479	2688	895	5691846	5720176	-1	PRSS15	LonHS, hLON, PIM1
19	LONP1	ENSG00000196365	ENST00000540670	protein_coding	PUTATIVE	None	9479	2292	763	5691846	5720583	-1	PRSS15	LonHS, hLON, PIM1
19	LONP1	ENSG00000196365	ENST00000590729	protein_coding	PUTATIVE	None	9479	2490	829	5691966	5719860	-1	PRSS15	LonHS, hLON, PIM1
19	LONP1	ENSG00000196365	ENST00000589473	protein_coding	PUTATIVE	None	9479	793	263	5692004	5694557	-1	PRSS15	LonHS, hLON, PIM1
19	LONP1	ENSG00000196365	ENST00000590206	protein_coding	PUTATIVE	None	9479	725	240	5696698	5707822	-1	PRSS15	LonHS, hLON, PIM1
19	LONP1	ENSG00000196365	ENST00000588589	retained_intron	KNOWN	None	9479	None	None	5700896	5708043	-1	PRSS15	LonHS, hLON, PIM1
19	LONP1	ENSG00000196365	ENST00000587365	protein_coding	PUTATIVE	None	9479	630	209	5700920	5720154	-1	PRSS15	LonHS, hLON, PIM1
19	LONP1	ENSG00000196365	ENST00000591321	retained_intron	KNOWN	None	9479	None	None	5705922	5708969	-1	PRSS15	LonHS, hLON, PIM1
19	LONP1	ENSG00000196365	ENST00000586617	nonsense_mediated_decay	KNOWN	None	9479	261	86	5707823	5720157	-1	PRSS15	LonHS, hLON, PIM1
19	LONP1	ENSG00000196365	ENST00000590728	processed_transcript	KNOWN	None	9479	None	None	5714914	5720167	-1	PRSS15	LonHS, hLON, PIM1
19	LONP1	ENSG00000196365	ENST00000590511	processed_transcript	KNOWN	None	9479	None	None	5717366	5720174	-1	PRSS15	LonHS, hLON, PIM1
11	GLB1L3	ENSG00000166105	ENST00000389887	protein_coding	KNOWN	None	25147	942	313	134144139	134175202	1	None	FLJ90231
11	GLB1L3	ENSG00000166105	ENST00000431683	protein_coding	KNOWN	CCDS44780	25147	1962	653	134146635	134189457	1	None	FLJ90231
11	GLB1L3	ENSG00000166105	ENST00000532985	retained_intron	KNOWN	None	25147	None	None	134156996	134158895	1	None	FLJ90231
11	GLB1L3	ENSG00000166105	ENST00000486034	retained_intron	KNOWN	None	25147	None	None	134157011	134189452	1	None	FLJ90231
11	GLB1L3	ENSG00000166105	ENST00000498012	retained_intron	KNOWN	None	25147	None	None	134157034	134189458	1	None	FLJ90231
11	GLB1L3	ENSG00000166105	ENST00000455971	nonsense_mediated_decay	KNOWN	None	25147	560	185	134177086	134189178	1	None	FLJ90231
11	GLB1L3	ENSG00000166105	ENST00000410100	retained_intron	KNOWN	None	25147	None	None	134179598	134184341	1	None	FLJ90231
11	GLB1L3	ENSG00000166105	ENST00000467068	retained_intron	KNOWN	None	25147	None	None	134179598	134189457	1	None	FLJ90231
1	ZBTB48	ENSG00000204859	ENST00000319084	protein_coding	KNOWN	None	4930	932	309	6640061	6642359	1	HKR3	ZNF855
1	ZBTB48	ENSG00000204859	ENST00000435905	protein_coding	KNOWN	None	4930	878	291	6640077	6642305	1	HKR3	ZNF855
1	ZBTB48	ENSG00000204859	ENST00000377674	protein_coding	KNOWN	CCDS84	4930	2067	688	6640108	6649340	1	HKR3	ZNF855
1	ZBTB48	ENSG00000204859	ENST00000488936	protein_coding	NOVEL	None	4930	690	229	6640148	6648165	1	HKR3	ZNF855
1	ZBTB48	ENSG00000204859	ENST00000482360	retained_intron	KNOWN	None	4930	None	None	6645362	6649340	1	HKR3	ZNF855
1	ZBTB48	ENSG00000204859	ENST00000498342	retained_intron	KNOWN	None	4930	None	None	6646267	6649340	1	HKR3	ZNF855
1	ZBTB48	ENSG00000204859	ENST00000466813	nonsense_mediated_decay	KNOWN	None	4930	387	128	6647316	6649220	1	HKR3	ZNF855
1	ZBTB48	ENSG00000204859	ENST00000466941	retained_intron	KNOWN	None	4930	None	None	6648747	6649340	1	HKR3	ZNF855
4	MTND5P13	ENSG00000250169	ENST00000513046	processed_pseudogene	KNOWN	None	42304	None	None	65475172	65476250	-1	None	None
X	None	ENSG00000231356	ENST00000415190	processed_pseudogene	KNOWN	None	None	None	None	65580608	65581618	-1	None	None
6	None	ENSG00000220514	ENST00000402379	processed_pseudogene	KNOWN	None	None	None	None	153989724	153989993	1	None	None
8	RNU6-1197P	ENSG00000212485	ENST00000391183	snRNA	KNOWN	None	48160	None	None	74991772	74991878	1	None	None
5	ZBED3-AS1	ENSG00000250802	ENST00000503969	antisense	KNOWN	None	44188	None	None	76382565	76443781	1	None	None
5	ZBED3-AS1	ENSG00000250802	ENST00000505918	retained_intron	KNOWN	None	44188	None	None	76382592	76383741	1	None	None
5	ZBED3-AS1	ENSG00000250802	ENST00000514905	antisense	KNOWN	None	44188	None	None	76382592	76435336	1	None	None
5	ZBED3-AS1	ENSG00000250802	ENST00000515419	antisense	KNOWN	None	44188	None	None	76382623	76443570	1	None	None
5	ZBED3-AS1	ENSG00000250802	ENST00000512213	antisense	KNOWN	None	44188	None	None	76382626	76401633	1	None	None
5	ZBED3-AS1	ENSG00000250802	ENST00000502433	antisense	KNOWN	None	44188	None	None	76382626	76435128	1	None	None
5	ZBED3-AS1	ENSG00000250802	ENST00000512001	antisense	KNOWN	None	44188	None	None	76382839	76444336	1	None	None
5	ZBED3-AS1	ENSG00000250802	ENST00000514640	antisense	KNOWN	None	44188	None	None	76383262	76401217	1	None	None
5	ZBED3-AS1	ENSG00000250802	ENST00000514114	antisense	KNOWN	None	44188	None	None	76383288	76447216	1	None	None
5	ZBED3-AS1	ENSG00000250802	ENST00000513591	antisense	KNOWN	None	44188	None	None	76383884	76444348	1	None	None
5	ZBED3-AS1	ENSG00000250802	ENST00000514288	antisense	KNOWN	None	44188	None	None	76383905	76414200	1	None	None
5	ZBED3-AS1	ENSG00000250802	ENST00000504506	antisense	KNOWN	None	44188	None	None	76384100	76427032	1	None	None
5	ZBED3-AS1	ENSG00000250802	ENST00000507749	antisense	KNOWN	None	44188	None	None	76384202	76435235	1	None	None
5	ZBED3-AS1	ENSG00000250802	ENST00000513406	antisense	KNOWN	None	44188	None	None	76414145	76443935	1	None	None
5	ZBED3-AS1	ENSG00000250802	ENST00000508401	antisense	KNOWN	None	44188	None	None	76414147	76462734	1	None	None
5	ZBED3-AS1	ENSG00000250802	ENST00000511547	antisense	KNOWN	None	44188	None	None	76435074	76442447	1	None	None
5	ZBED3-AS1	ENSG00000250802	ENST00000515356	antisense	KNOWN	None	44188	None	None	76435074	76444348	1	None	None
9	None	ENSG00000231193	ENST00000424177	lincRNA	KNOWN	None	None	None	None	32840596	32841760	-1	None	None
8	None	ENSG00000253115	ENST00000522498	lincRNA	KNOWN	None	None	None	None	75015751	75018979	1	None	None
9	None	ENSG00000236543	ENST00000430816	antisense	KNOWN	None	None	None	None	138506142	138507354	1	None	None
X	None	ENSG00000226820	ENST00000422490	unprocessed_pseudogene	KNOWN	None	None	None	None	65657187	65660510	1	None	None
17	GJD3	ENSG00000183153	ENST00000578689	protein_coding	KNOWN	CCDS58547	19147	885	294	38519183	38520067	-1	GJC1	CX31.9, GJA11, Cx30.2
17	GJD3	ENSG00000183153	ENST00000337376	protein_coding	KNOWN	None	19147	891	296	38517235	38520067	-1	GJC1	CX31.9, GJA11, Cx30.2
HSCHR6_MHC_QBL	HLA-DRA	ENSG00000206308	ENST00000383259	protein_coding	KNOWN	None	4947	765	254	32365090	32370300	1	HLA-DRA1	None
HSCHR6_MHC_QBL	HLA-DRA	ENSG00000206308	ENST00000461633	processed_transcript	PUTATIVE	None	4947	None	None	32365120	32368443	1	HLA-DRA1	None
HSCHR6_MHC_QBL	HLA-DRA	ENSG00000206308	ENST00000383258	protein_coding	KNOWN	None	4947	690	229	32365172	32370300	1	HLA-DRA1	None
HSCHR6_MHC_QBL	HLA-DRA	ENSG00000206308	ENST00000551750	protein_coding	KNOWN	None	4947	714	237	32365118	32370298	1	HLA-DRA1	None
6	MTND4P13	ENSG00000216713	ENST00000402078	processed_pseudogene	KNOWN	None	42222	None	None	153990014	153991036	1	None	None
4	None	ENSG00000248259	ENST00000514859	unprocessed_pseudogene	KNOWN	None	None	None	None	65476334	65476627	-1	None	None
16	NPIPB11	ENSG00000254206	ENST00000524087	protein_coding	PUTATIVE	None	37453	3486	1161	29392675	29415350	-1	None	None
9	None	ENSG00000223807	ENST00000418151	processed_pseudogene	KNOWN	None	None	None	None	32926049	32926448	1	None	None
15	None	ENSG00000260657	ENST00000563057	lincRNA	KNOWN	None	None	None	None	68560130	68570332	-1	None	None
11	LMO1	ENSG00000166407	ENST00000335790	protein_coding	KNOWN	CCDS44534	6641	471	156	8245851	8285405	-1	RBTN1	TTG1, RHOM1
11	LMO1	ENSG00000166407	ENST00000428101	protein_coding	PUTATIVE	CCDS58118	6641	468	155	8245861	8290263	-1	RBTN1	TTG1, RHOM1
11	LMO1	ENSG00000166407	ENST00000524379	retained_intron	KNOWN	None	6641	None	None	8245996	8284935	-1	RBTN1	TTG1, RHOM1
11	LMO1	ENSG00000166407	ENST00000534484	protein_coding	PUTATIVE	None	6641	438	145	8246026	8285405	-1	RBTN1	TTG1, RHOM1
4	None	ENSG00000249045	ENST00000506306	unprocessed_pseudogene	KNOWN	None	None	None	None	65476698	65477026	-1	None	None
9	None	ENSG00000238058	ENST00000423793	antisense	KNOWN	None	None	None	None	138799658	138805359	1	None	None
X	PKMP2	ENSG00000235892	ENST00000412159	processed_pseudogene	KNOWN	None	44244	None	None	65717590	65719266	1	None	None
9	ASS1P12	ENSG00000237437	ENST00000452496	processed_pseudogene	KNOWN	None	762	None	None	32945994	32947220	1	ASSP12	None
12	GXYLT1	ENSG00000151233	ENST00000398675	protein_coding	KNOWN	CCDS41772	27482	1323	440	42475647	42538681	-1	GLT8D3	FLJ43151
12	GXYLT1	ENSG00000151233	ENST00000280876	protein_coding	KNOWN	CCDS41771	27482	1230	409	42480947	42538514	-1	GLT8D3	FLJ43151
15	ELMO2P1	ENSG00000259400	ENST00000559072	transcribed_unprocessed_pseudogene	KNOWN	None	38008	None	None	22777713	22789974	-1	None	None
7	None	ENSG00000234406	ENST00000457229	processed_pseudogene	KNOWN	None	None	None	None	25225242	25228343	1	None	None
6	RNU6-896P	ENSG00000199246	ENST00000362376	snRNA	KNOWN	None	47859	None	None	154002582	154002688	1	None	None
7	C7orf10	ENSG00000175600	ENST00000401647	protein_coding	NOVEL	CCDS55106	16001	1194	397	40174576	40900230	1	None	FLJ11808, ORF19, DERP13
7	C7orf10	ENSG00000175600	ENST00000335693	protein_coding	KNOWN	CCDS55105	16001	1338	445	40174576	40900362	1	None	FLJ11808, ORF19, DERP13
7	C7orf10	ENSG00000175600	ENST00000444074	nonsense_mediated_decay	KNOWN	None	16001	149	48	40174600	40234574	1	None	FLJ11808, ORF19, DERP13
7	C7orf10	ENSG00000175600	ENST00000413931	protein_coding	NOVEL	None	16001	539	178	40174615	40234659	1	None	FLJ11808, ORF19, DERP13
7	C7orf10	ENSG00000175600	ENST00000416370	protein_coding	PUTATIVE	None	16001	1265	420	40174615	40539113	1	None	FLJ11808, ORF19, DERP13
7	C7orf10	ENSG00000175600	ENST00000488110	processed_transcript	KNOWN	None	16001	None	None	40314110	40427757	1	None	FLJ11808, ORF19, DERP13
7	C7orf10	ENSG00000175600	ENST00000464028	processed_transcript	KNOWN	None	16001	None	None	40832781	40900356	1	None	FLJ11808, ORF19, DERP13
7	C7orf10	ENSG00000175600	ENST00000460466	processed_transcript	KNOWN	None	16001	None	None	40847756	40900108	1	None	FLJ11808, ORF19, DERP13
7	C7orf10	ENSG00000175600	ENST00000309930	protein_coding	KNOWN	CCDS55104	16001	1416	471	40174575	40900357	1	None	FLJ11808, ORF19, DERP13
7	C7orf10	ENSG00000175600	ENST00000540834	protein_coding	KNOWN	None	16001	609	202	40174619	40257727	1	None	FLJ11808, ORF19, DERP13
6	OR2E1P	ENSG00000219262	ENST00000402553	unprocessed_pseudogene	KNOWN	None	15507	None	None	28423425	28423918	-1	OR2E1, OR2E2	hs6M1-9, hs6M1-9p, HS29K1, HSNH0569I24
HSCHR6_MHC_MANN	OR10C1	ENSG00000232397	ENST00000457403	protein_coding	KNOWN	None	8165	939	312	29406664	29408312	1	OR10C2	hs6M1-17, OR10C1P
HSCHR6_MHC_MANN	OR10C1	ENSG00000232397	ENST00000552404	protein_coding	KNOWN	None	8165	885	294	29384656	29408279	1	OR10C2	hs6M1-17, OR10C1P
14	MEG9	ENSG00000223403	ENST00000429368	lincRNA	KNOWN	None	43874	None	None	101536248	101539271	1	None	LINC00584
14	MEG9	ENSG00000223403	ENST00000554016	lincRNA	KNOWN	None	43874	None	None	101536790	101539274	1	None	LINC00584
14	MEG9	ENSG00000223403	ENST00000452349	lincRNA	KNOWN	None	43874	None	None	101538144	101538895	1	None	LINC00584
10	None	ENSG00000229672	ENST00000421629	antisense	KNOWN	None	None	None	None	3793259	3805418	1	None	None
6	HMGB3P19	ENSG00000217085	ENST00000403971	processed_pseudogene	KNOWN	None	39311	None	None	154259568	154260127	-1	None	None
4	None	ENSG00000252136	ENST00000516327	snoRNA	KNOWN	None	None	None	None	106027144	106027251	1	None	None
21	KCNJ15	ENSG00000157551	ENST00000549158	protein_coding	KNOWN	None	6261	76	24	39529128	39671259	1	None	Kir4.2, Kir1.3, IRKK
21	KCNJ15	ENSG00000157551	ENST00000549805	protein_coding	KNOWN	None	6261	145	47	39529128	39671328	1	None	Kir4.2, Kir1.3, IRKK
21	KCNJ15	ENSG00000157551	ENST00000547341	protein_coding	KNOWN	None	6261	145	47	39529128	39671328	1	None	Kir4.2, Kir1.3, IRKK
21	KCNJ15	ENSG00000157551	ENST00000549932	protein_coding	KNOWN	None	6261	145	47	39529128	39671328	1	None	Kir4.2, Kir1.3, IRKK
21	KCNJ15	ENSG00000157551	ENST00000547595	protein_coding	KNOWN	None	6261	145	47	39529128	39671328	1	None	Kir4.2, Kir1.3, IRKK
21	KCNJ15	ENSG00000157551	ENST00000548700	protein_coding	KNOWN	None	6261	145	47	39529128	39671328	1	None	Kir4.2, Kir1.3, IRKK
21	KCNJ15	ENSG00000157551	ENST00000551422	protein_coding	KNOWN	None	6261	145	47	39529128	39671328	1	None	Kir4.2, Kir1.3, IRKK
21	KCNJ15	ENSG00000157551	ENST00000398925	protein_coding	KNOWN	None	6261	184	60	39628663	39671367	1	None	Kir4.2, Kir1.3, IRKK
21	KCNJ15	ENSG00000157551	ENST00000398928	protein_coding	KNOWN	None	6261	470	155	39628663	39671653	1	None	Kir4.2, Kir1.3, IRKK
21	KCNJ15	ENSG00000157551	ENST00000328656	protein_coding	KNOWN	CCDS13656	6261	1128	375	39628663	39673743	1	None	Kir4.2, Kir1.3, IRKK
21	KCNJ15	ENSG00000157551	ENST00000443341	protein_coding	KNOWN	None	6261	119	38	39628664	39671302	1	None	Kir4.2, Kir1.3, IRKK
21	KCNJ15	ENSG00000157551	ENST00000417042	protein_coding	KNOWN	None	6261	58	18	39628797	39671241	1	None	Kir4.2, Kir1.3, IRKK
21	KCNJ15	ENSG00000157551	ENST00000398938	protein_coding	KNOWN	CCDS13656	6261	1128	375	39628870	39673412	1	None	Kir4.2, Kir1.3, IRKK
21	KCNJ15	ENSG00000157551	ENST00000398932	protein_coding	KNOWN	CCDS13656	6261	1128	375	39644172	39673412	1	None	Kir4.2, Kir1.3, IRKK
21	KCNJ15	ENSG00000157551	ENST00000438657	protein_coding	KNOWN	None	6261	736	244	39644217	39671919	1	None	Kir4.2, Kir1.3, IRKK
21	KCNJ15	ENSG00000157551	ENST00000398930	protein_coding	KNOWN	CCDS13656	6261	1128	375	39644345	39673743	1	None	Kir4.2, Kir1.3, IRKK
21	KCNJ15	ENSG00000157551	ENST00000398927	protein_coding	KNOWN	None	6261	470	155	39668479	39671653	1	None	Kir4.2, Kir1.3, IRKK
21	KCNJ15	ENSG00000157551	ENST00000419868	protein_coding	KNOWN	None	6261	417	138	39668848	39671600	1	None	Kir4.2, Kir1.3, IRKK
21	KCNJ15	ENSG00000157551	ENST00000398934	protein_coding	KNOWN	CCDS13656	6261	1128	375	39644429	39673748	1	None	Kir4.2, Kir1.3, IRKK
4	None	ENSG00000251259	ENST00000504082	lincRNA	KNOWN	None	None	None	None	106058437	106061776	-1	None	None
8	DEFA7P	ENSG00000206042	ENST00000382676	unprocessed_pseudogene	KNOWN	None	31798	None	None	6896093	6896961	-1	DEFA7	None
12	C12orf36	ENSG00000180861	ENST00000318426	protein_coding	KNOWN	None	26598	417	138	13524023	13529645	-1	None	FLJ33810
12	C12orf36	ENSG00000180861	ENST00000539026	protein_coding	PUTATIVE	None	26598	354	117	13527732	13529609	-1	None	FLJ33810
12	C12orf36	ENSG00000180861	ENST00000532841	protein_coding	PUTATIVE	None	26598	186	61	13528461	13540101	-1	None	FLJ33810
12	C12orf36	ENSG00000180861	ENST00000531049	processed_transcript	KNOWN	None	26598	None	None	13529163	13540101	-1	None	FLJ33810
12	C12orf36	ENSG00000180861	ENST00000527705	protein_coding	KNOWN	None	26598	417	138	13525948	13529364	-1	None	FLJ33810
4	TET2-AS1	ENSG00000251586	ENST00000515414	antisense	KNOWN	None	41125	None	None	106092511	106099220	-1	None	None
8	None	ENSG00000253983	ENST00000522339	antisense	KNOWN	None	None	None	None	75111631	75120676	1	None	None
15	TRPM1	ENSG00000134160	ENST00000397795	protein_coding	KNOWN	CCDS10024	7146	4812	1603	31293264	31393910	-1	MLSN1	LTRPC1
15	TRPM1	ENSG00000134160	ENST00000256552	protein_coding	PUTATIVE	CCDS58346	7146	4878	1625	31293537	31393924	-1	MLSN1	LTRPC1
15	TRPM1	ENSG00000134160	ENST00000560801	nonsense_mediated_decay	KNOWN	None	7146	693	230	31294025	31362236	-1	MLSN1	LTRPC1
15	TRPM1	ENSG00000134160	ENST00000558768	protein_coding	KNOWN	None	7146	4584	1527	31294025	31362236	-1	MLSN1	LTRPC1
15	TRPM1	ENSG00000134160	ENST00000559177	protein_coding	NOVEL	None	7146	1515	504	31294667	31453157	-1	MLSN1	LTRPC1
15	TRPM1	ENSG00000134160	ENST00000558445	protein_coding	KNOWN	None	7146	4170	1389	31294667	31453157	-1	MLSN1	LTRPC1
15	TRPM1	ENSG00000134160	ENST00000558212	retained_intron	KNOWN	None	7146	None	None	31319167	31323535	-1	MLSN1	LTRPC1
15	TRPM1	ENSG00000134160	ENST00000557948	retained_intron	KNOWN	None	7146	None	None	31320639	31325218	-1	MLSN1	LTRPC1
15	TRPM1	ENSG00000134160	ENST00000560658	nonsense_mediated_decay	KNOWN	None	7146	903	300	31352438	31393909	-1	MLSN1	LTRPC1
15	TRPM1	ENSG00000134160	ENST00000558070	retained_intron	KNOWN	None	7146	None	None	31352668	31354954	-1	MLSN1	LTRPC1
15	TRPM1	ENSG00000134160	ENST00000559179	protein_coding	PUTATIVE	CCDS58345	7146	411	136	31361579	31393930	-1	MLSN1	LTRPC1
15	TRPM1	ENSG00000134160	ENST00000542188	protein_coding	KNOWN	CCDS58347	7146	4929	1642	31293553	31453476	-1	MLSN1	LTRPC1
9	None	ENSG00000260193	ENST00000566567	lincRNA	KNOWN	None	None	None	None	138999654	139000927	-1	None	None
9	None	ENSG00000260193	ENST00000563018	lincRNA	KNOWN	None	None	None	None	138999951	139001270	-1	None	None
2	None	ENSG00000163075	ENST00000295220	nonsense_mediated_decay	KNOWN	None	None	810	269	120302008	120414237	1	None	None
2	None	ENSG00000163075	ENST00000463985	nonsense_mediated_decay	KNOWN	None	None	405	134	120302025	120317553	1	None	None
2	None	ENSG00000163075	ENST00000413057	nonsense_mediated_decay	KNOWN	None	None	162	53	120302025	120388662	1	None	None
2	None	ENSG00000163075	ENST00000442513	protein_coding	NOVEL	None	None	527	174	120302044	120319690	1	None	None
2	None	ENSG00000163075	ENST00000594033	nonsense_mediated_decay	KNOWN	None	None	273	90	120302047	120319642	1	None	None
2	None	ENSG00000163075	ENST00000413369	protein_coding	KNOWN	CCDS33282	None	2523	840	120302047	120414237	1	None	None
2	None	ENSG00000163075	ENST00000598644	protein_coding	NOVEL	None	None	564	187	120302061	120331046	1	None	None
2	None	ENSG00000163075	ENST00000594371	protein_coding	PUTATIVE	None	None	521	172	120303739	120338526	1	None	None
2	None	ENSG00000163075	ENST00000488358	retained_intron	KNOWN	None	None	None	None	120317327	120359154	1	None	None
2	None	ENSG00000163075	ENST00000475569	retained_intron	KNOWN	None	None	None	None	120344268	120359021	1	None	None
2	None	ENSG00000163075	ENST00000594141	protein_coding	PUTATIVE	None	None	141	46	120344705	120347829	1	None	None
2	None	ENSG00000163075	ENST00000597189	processed_transcript	KNOWN	None	None	None	None	120360239	120385328	1	None	None
2	None	ENSG00000163075	ENST00000599827	protein_coding	PUTATIVE	None	None	355	117	120369237	120383378	1	None	None
2	None	ENSG00000163075	ENST00000443972	protein_coding	KNOWN	None	None	1199	398	120373200	120419827	1	None	None
2	None	ENSG00000163075	ENST00000600951	nonsense_mediated_decay	KNOWN	None	None	266	87	120387518	120397448	1	None	None
2	None	ENSG00000163075	ENST00000434869	protein_coding	PUTATIVE	None	None	290	95	120395938	120406227	1	None	None
2	None	ENSG00000163075	ENST00000464578	processed_transcript	KNOWN	None	None	None	None	120413541	120414236	1	None	None
2	None	ENSG00000163075	ENST00000602047	protein_coding	KNOWN	None	None	1665	554	120302025	120414236	1	None	None
15	None	ENSG00000261425	ENST00000569808	lincRNA	KNOWN	None	None	None	None	68591128	68593343	-1	None	None
20	LPIN3	ENSG00000132793	ENST00000373257	protein_coding	KNOWN	CCDS33469	14451	2556	851	39969560	39989222	1	LIPN3L	SMP2
20	LPIN3	ENSG00000132793	ENST00000445975	protein_coding	KNOWN	None	14451	808	268	39981321	39987110	1	LIPN3L	SMP2
20	LPIN3	ENSG00000132793	ENST00000496565	processed_transcript	KNOWN	None	14451	None	None	39985751	39987469	1	LIPN3L	SMP2
20	LPIN3	ENSG00000132793	ENST00000491528	processed_transcript	KNOWN	None	14451	None	None	39986616	39987533	1	LIPN3L	SMP2
X	None	ENSG00000189372	ENST00000453808	unprocessed_pseudogene	KNOWN	None	None	None	None	107626628	107627223	1	None	None
17	RND2	ENSG00000108830	ENST00000587117	retained_intron	KNOWN	None	18315	None	None	41177258	41178270	1	ARHN	Rho7, RhoN
17	RND2	ENSG00000108830	ENST00000587250	protein_coding	KNOWN	CCDS11452	18315	684	227	41177258	41181245	1	ARHN	Rho7, RhoN
17	RND2	ENSG00000108830	ENST00000544533	protein_coding	KNOWN	None	18315	687	228	41177258	41184057	1	ARHN	Rho7, RhoN
13	RNU6-65P	ENSG00000252141	ENST00000516332	snRNA	KNOWN	None	42555	None	None	52139548	52139645	1	RNU6-65	None
10	ARMC4	ENSG00000169126	ENST00000481659	processed_transcript	KNOWN	None	25583	None	None	28101093	28125092	-1	None	FLJ10817, FLJ10376, DKFZP434P1735
10	ARMC4	ENSG00000169126	ENST00000305242	protein_coding	KNOWN	CCDS7157	25583	3135	1044	28101097	28287977	-1	None	FLJ10817, FLJ10376, DKFZP434P1735
10	ARMC4	ENSG00000169126	ENST00000467083	processed_transcript	KNOWN	None	25583	None	None	28101099	28102371	-1	None	FLJ10817, FLJ10376, DKFZP434P1735
10	ARMC4	ENSG00000169126	ENST00000480504	processed_transcript	KNOWN	None	25583	None	None	28233752	28270833	-1	None	FLJ10817, FLJ10376, DKFZP434P1735
10	ARMC4	ENSG00000169126	ENST00000434029	protein_coding	KNOWN	None	25583	1170	389	28245978	28276378	-1	None	FLJ10817, FLJ10376, DKFZP434P1735
10	ARMC4	ENSG00000169126	ENST00000486279	protein_coding	KNOWN	None	25583	171	56	28283901	28286443	-1	None	FLJ10817, FLJ10376, DKFZP434P1735
10	ARMC4	ENSG00000169126	ENST00000537576	protein_coding	KNOWN	None	25583	2118	705	28064115	28272367	-1	None	FLJ10817, FLJ10376, DKFZP434P1735
10	ARMC4	ENSG00000169126	ENST00000545014	protein_coding	KNOWN	None	25583	1839	612	28101099	28270800	-1	None	FLJ10817, FLJ10376, DKFZP434P1735
10	ARMC4	ENSG00000169126	ENST00000239715	protein_coding	KNOWN	None	25583	1059	352	28245978	28276378	-1	None	FLJ10817, FLJ10376, DKFZP434P1735
5	None	ENSG00000271724	ENST00000508845	lincRNA	KNOWN	None	None	None	None	145755154	145755782	-1	None	None
HSCHR6_MHC_MANN	OR11A1	ENSG00000237258	ENST00000421634	protein_coding	KNOWN	None	8176	948	315	29392863	29395825	-1	OR11A2	hs6M1-18
HSCHR6_MHC_MANN	OR11A1	ENSG00000237258	ENST00000428144	protein_coding	KNOWN	None	8176	948	315	29392863	29424418	-1	OR11A2	hs6M1-18
HSCHR6_MHC_MANN	OR11A1	ENSG00000237258	ENST00000552225	protein_coding	KNOWN	None	8176	948	315	29392863	29395091	-1	OR11A2	hs6M1-18
13	RNY1P6	ENSG00000206920	ENST00000384193	misc_RNA	KNOWN	None	42483	None	None	52160560	52160668	-1	None	None
10	None	ENSG00000228353	ENST00000415358	antisense	KNOWN	None	None	None	None	3810107	3810943	1	None	None
1	TBCAP2	ENSG00000235829	ENST00000416175	processed_pseudogene	KNOWN	None	42631	None	None	15018625	15019109	-1	None	None
13	DIAPH3	ENSG00000139734	ENST00000400324	protein_coding	KNOWN	CCDS41898	15480	3582	1193	60239717	60738121	-1	AUNA1	DRF3, FLJ34705, AN, NSDAN
13	DIAPH3	ENSG00000139734	ENST00000377908	protein_coding	NOVEL	CCDS58296	15480	3549	1182	60240718	60737900	-1	AUNA1	DRF3, FLJ34705, AN, NSDAN
13	DIAPH3	ENSG00000139734	ENST00000400319	protein_coding	NOVEL	CCDS58294	15480	3372	1123	60240718	60737900	-1	AUNA1	DRF3, FLJ34705, AN, NSDAN
13	DIAPH3	ENSG00000139734	ENST00000400320	protein_coding	NOVEL	CCDS58295	15480	3444	1147	60240718	60737900	-1	AUNA1	DRF3, FLJ34705, AN, NSDAN
13	DIAPH3	ENSG00000139734	ENST00000470420	processed_transcript	KNOWN	None	15480	None	None	60240875	60270327	-1	AUNA1	DRF3, FLJ34705, AN, NSDAN
13	DIAPH3	ENSG00000139734	ENST00000267215	protein_coding	NOVEL	CCDS58297	15480	3339	1112	60348193	60737900	-1	AUNA1	DRF3, FLJ34705, AN, NSDAN
13	DIAPH3	ENSG00000139734	ENST00000465066	processed_transcript	KNOWN	None	15480	None	None	60348297	60587343	-1	AUNA1	DRF3, FLJ34705, AN, NSDAN
13	DIAPH3	ENSG00000139734	ENST00000498416	processed_transcript	KNOWN	None	15480	None	None	60435388	60587312	-1	AUNA1	DRF3, FLJ34705, AN, NSDAN
13	DIAPH3	ENSG00000139734	ENST00000400330	protein_coding	KNOWN	None	15480	3582	1193	60239725	60738119	-1	AUNA1	DRF3, FLJ34705, AN, NSDAN
16	ANKRD11	ENSG00000167522	ENST00000378330	protein_coding	KNOWN	CCDS32513	21316	7992	2663	89334038	89556726	-1	None	LZ16, T13
16	ANKRD11	ENSG00000167522	ENST00000301030	protein_coding	KNOWN	CCDS32513	21316	7992	2663	89334038	89556969	-1	None	LZ16, T13
16	ANKRD11	ENSG00000167522	ENST00000330736	nonsense_mediated_decay	KNOWN	None	21316	294	97	89334756	89383550	-1	None	LZ16, T13
16	ANKRD11	ENSG00000167522	ENST00000562194	protein_coding	NOVEL	None	21316	616	204	89334941	89355086	-1	None	LZ16, T13
16	ANKRD11	ENSG00000167522	ENST00000568100	retained_intron	KNOWN	None	21316	None	None	89351623	89352889	-1	None	LZ16, T13
16	ANKRD11	ENSG00000167522	ENST00000562275	nonsense_mediated_decay	KNOWN	None	21316	294	97	89353071	89383483	-1	None	LZ16, T13
16	ANKRD11	ENSG00000167522	ENST00000378332	nonsense_mediated_decay	KNOWN	None	21316	108	35	89353071	89556925	-1	None	LZ16, T13
16	ANKRD11	ENSG00000167522	ENST00000564553	retained_intron	KNOWN	None	21316	None	None	89357380	89379844	-1	None	LZ16, T13
16	ANKRD11	ENSG00000167522	ENST00000562816	processed_transcript	KNOWN	None	21316	None	None	89358136	89555601	-1	None	LZ16, T13
16	ANKRD11	ENSG00000167522	ENST00000567736	processed_transcript	KNOWN	None	21316	None	None	89365284	89386764	-1	None	LZ16, T13
16	ANKRD11	ENSG00000167522	ENST00000568924	processed_transcript	KNOWN	None	21316	None	None	89367053	89379993	-1	None	LZ16, T13
16	ANKRD11	ENSG00000167522	ENST00000563291	protein_coding	PUTATIVE	None	21316	375	124	89367104	89395394	-1	None	LZ16, T13
16	ANKRD11	ENSG00000167522	ENST00000566858	processed_transcript	KNOWN	None	21316	None	None	89367174	89406378	-1	None	LZ16, T13
16	ANKRD11	ENSG00000167522	ENST00000567699	processed_transcript	KNOWN	None	21316	None	None	89367918	89383486	-1	None	LZ16, T13
16	ANKRD11	ENSG00000167522	ENST00000568512	processed_transcript	KNOWN	None	21316	None	None	89427926	89556701	-1	None	LZ16, T13
16	ANKRD11	ENSG00000167522	ENST00000566973	processed_transcript	KNOWN	None	21316	None	None	89439262	89556728	-1	None	LZ16, T13
9	TCEA1P4	ENSG00000236184	ENST00000415066	processed_pseudogene	KNOWN	None	31091	None	None	32979558	32980401	-1	None	None
5	None	ENSG00000248842	ENST00000507391	lincRNA	KNOWN	None	None	None	None	145780544	145786922	1	None	None
9	None	ENSG00000264527	ENST00000584807	lincRNA	KNOWN	None	None	None	None	139141824	139143051	-1	None	None
16	None	ENSG00000261740	ENST00000569622	protein_coding	PUTATIVE	None	None	748	248	29454551	29465668	-1	None	None
16	None	ENSG00000261740	ENST00000565417	nonsense_mediated_decay	KNOWN	None	None	268	88	29454570	29465677	-1	None	None
16	None	ENSG00000261740	ENST00000568556	nonsense_mediated_decay	KNOWN	None	None	375	124	29454591	29465972	-1	None	None
2	CNOT11	ENSG00000158435	ENST00000289382	protein_coding	KNOWN	CCDS2050	25217	1533	510	101869264	101886778	1	C2orf29	C40
2	CNOT11	ENSG00000158435	ENST00000462489	retained_intron	KNOWN	None	25217	None	None	101878893	101883246	1	C2orf29	C40
2	CNOT11	ENSG00000158435	ENST00000420107	protein_coding	PUTATIVE	None	25217	382	126	101881437	101885777	1	C2orf29	C40
12	HELB	ENSG00000127311	ENST00000247815	protein_coding	KNOWN	CCDS8976	17196	3264	1087	66696325	66731979	1	None	None
12	HELB	ENSG00000127311	ENST00000440906	nonsense_mediated_decay	KNOWN	None	17196	1725	574	66696359	66731938	1	None	None
12	HELB	ENSG00000127311	ENST00000542394	nonsense_mediated_decay	KNOWN	None	17196	2541	846	66696359	66731949	1	None	None
12	HELB	ENSG00000127311	ENST00000545134	nonsense_mediated_decay	KNOWN	CCDS8976	17196	3264	1087	66696360	66737423	1	None	None
12	HELB	ENSG00000127311	ENST00000545455	retained_intron	KNOWN	None	17196	None	None	66715182	66718858	1	None	None
12	HELB	ENSG00000127311	ENST00000536862	retained_intron	KNOWN	None	17196	None	None	66716520	66718299	1	None	None
16	None	ENSG00000260167	ENST00000563540	antisense	KNOWN	None	None	None	None	30597228	30619914	1	None	None
X	PIGFP3	ENSG00000227592	ENST00000441918	processed_pseudogene	KNOWN	None	45151	None	None	30035277	30035998	-1	None	None
6	TAAR1	ENSG00000146399	ENST00000275216	protein_coding	KNOWN	CCDS5158	17734	1020	339	132966123	132967142	-1	TRAR1	TAR1, TA1
14	None	ENSG00000256350	ENST00000539655	unprocessed_pseudogene	KNOWN	None	None	None	None	22167176	22167373	-1	None	None
16	None	ENSG00000261588	ENST00000564755	processed_pseudogene	KNOWN	None	None	None	None	30598983	30599241	-1	None	None
19	ARRDC2	ENSG00000105643	ENST00000379656	protein_coding	KNOWN	CCDS32956	25225	1209	402	18111941	18124156	1	None	CLONE24945, PP2703
19	ARRDC2	ENSG00000105643	ENST00000595712	processed_transcript	KNOWN	None	25225	None	None	18117991	18120698	1	None	CLONE24945, PP2703
19	ARRDC2	ENSG00000105643	ENST00000600788	processed_transcript	KNOWN	None	25225	None	None	18118049	18119586	1	None	CLONE24945, PP2703
19	ARRDC2	ENSG00000105643	ENST00000222250	protein_coding	KNOWN	CCDS12370	25225	1224	407	18118977	18124911	1	None	CLONE24945, PP2703
19	ARRDC2	ENSG00000105643	ENST00000596105	retained_intron	KNOWN	None	25225	None	None	18118978	18119664	1	None	CLONE24945, PP2703
19	ARRDC2	ENSG00000105643	ENST00000593460	retained_intron	KNOWN	None	25225	None	None	18118979	18124909	1	None	CLONE24945, PP2703
19	ARRDC2	ENSG00000105643	ENST00000593560	retained_intron	KNOWN	None	25225	None	None	18119334	18120839	1	None	CLONE24945, PP2703
19	ARRDC2	ENSG00000105643	ENST00000594411	processed_transcript	KNOWN	None	25225	None	None	18120358	18121167	1	None	CLONE24945, PP2703
9	None	ENSG00000225693	ENST00000425356	processed_pseudogene	KNOWN	None	None	None	None	33019680	33020163	-1	None	None
10	None	ENSG00000230573	ENST00000413339	lincRNA	KNOWN	None	None	None	None	3876142	3876920	1	None	None
X	None	ENSG00000270794	ENST00000604248	processed_pseudogene	KNOWN	None	None	None	None	30227540	30228326	1	None	None
8	None	ENSG00000255273	ENST00000526806	processed_pseudogene	KNOWN	None	None	None	None	6940493	6940850	1	None	None
10	TACR2	ENSG00000075073	ENST00000373307	protein_coding	KNOWN	None	11527	561	186	71163659	71169038	-1	TAC2R, NKNAR	SKR, NK2R
10	TACR2	ENSG00000075073	ENST00000373306	protein_coding	KNOWN	CCDS7293	11527	1197	398	71164240	71176623	-1	TAC2R, NKNAR	SKR, NK2R
9	None	ENSG00000222169	ENST00000410237	miRNA	NOVEL	None	None	None	None	33042107	33042214	-1	None	None
5	None	ENSG00000250407	ENST00000512730	antisense	KNOWN	None	None	None	None	145942789	145996567	1	None	None
7	None	ENSG00000234500	ENST00000448776	unprocessed_pseudogene	KNOWN	None	None	None	None	65976543	66010053	1	None	None
2	TRAF3IP1	ENSG00000204104	ENST00000391993	protein_coding	KNOWN	CCDS46557	17861	1878	625	239229082	239309463	1	None	MIP-T3, DKFZP434F124, MIPT3
2	TRAF3IP1	ENSG00000204104	ENST00000373327	protein_coding	KNOWN	CCDS33415	17861	2076	691	239229082	239309541	1	None	MIP-T3, DKFZP434F124, MIPT3
2	TRAF3IP1	ENSG00000204104	ENST00000409739	nonsense_mediated_decay	KNOWN	None	17861	159	52	239229177	239237983	1	None	MIP-T3, DKFZP434F124, MIPT3
2	TRAF3IP1	ENSG00000204104	ENST00000462122	retained_intron	KNOWN	None	17861	None	None	239255824	239306321	1	None	MIP-T3, DKFZP434F124, MIPT3
2	TRAF3IP1	ENSG00000204104	ENST00000483951	retained_intron	KNOWN	None	17861	None	None	239306063	239307612	1	None	MIP-T3, DKFZP434F124, MIPT3
2	TRAF3IP1	ENSG00000204104	ENST00000391994	protein_coding	KNOWN	None	17861	2076	691	239229185	239309537	1	None	MIP-T3, DKFZP434F124, MIPT3
9	None	ENSG00000233554	ENST00000426270	antisense	KNOWN	None	None	None	None	33166973	33179708	1	None	None
9	None	ENSG00000233554	ENST00000442432	antisense	KNOWN	None	None	None	None	33166973	33179981	1	None	None
4	RNA5SP169	ENSG00000253077	ENST00000517268	rRNA	KNOWN	None	43069	None	None	152892649	152892765	-1	RN5S169	None
15	None	ENSG00000259344	ENST00000557922	processed_transcript	KNOWN	None	None	None	None	23095170	23115256	-1	None	None
15	None	ENSG00000259344	ENST00000561118	processed_transcript	KNOWN	None	None	None	None	23108596	23114618	-1	None	None
15	None	ENSG00000259344	ENST00000561063	processed_transcript	KNOWN	None	None	None	None	23108596	23115152	-1	None	None
15	None	ENSG00000259344	ENST00000560859	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	23108754	23114261	-1	None	None
20	SLC23A2	ENSG00000089057	ENST00000338244	protein_coding	KNOWN	CCDS13085	10973	1953	650	4833002	4982145	-1	SLC23A1	SVCT2, KIAA0238, YSPL2
20	SLC23A2	ENSG00000089057	ENST00000379333	protein_coding	KNOWN	CCDS13085	10973	1953	650	4833002	4990939	-1	SLC23A1	SVCT2, KIAA0238, YSPL2
20	SLC23A2	ENSG00000089057	ENST00000423430	protein_coding	KNOWN	None	10973	911	302	4840013	4880293	-1	SLC23A1	SVCT2, KIAA0238, YSPL2
20	SLC23A2	ENSG00000089057	ENST00000468355	processed_transcript	KNOWN	None	10973	None	None	4850234	4990916	-1	SLC23A1	SVCT2, KIAA0238, YSPL2
20	SLC23A2	ENSG00000089057	ENST00000496331	processed_transcript	KNOWN	None	10973	None	None	4854523	4866637	-1	SLC23A1	SVCT2, KIAA0238, YSPL2
20	SLC23A2	ENSG00000089057	ENST00000424750	protein_coding	KNOWN	None	10973	1611	536	4837237	4982153	-1	SLC23A1	SVCT2, KIAA0238, YSPL2
HSCHR6_MHC_COX	B3GALT4	ENSG00000226936	ENST00000415322	protein_coding	KNOWN	None	919	1137	378	33166523	33168208	1	None	beta3Gal-T4, GalT4
4	None	ENSG00000245954	ENST00000509332	lincRNA	KNOWN	None	None	None	None	153021906	153025384	1	None	None
4	None	ENSG00000245954	ENST00000504144	lincRNA	KNOWN	None	None	None	None	153021912	153023087	1	None	None
4	None	ENSG00000245954	ENST00000499452	lincRNA	KNOWN	None	None	None	None	153021970	153025872	1	None	None
6	None	ENSG00000220506	ENST00000404926	processed_pseudogene	KNOWN	None	None	None	None	111816194	111816916	-1	None	None
7	None	ENSG00000213798	ENST00000417617	processed_pseudogene	KNOWN	None	None	None	None	25251789	25252584	-1	None	None
17	TOP2A	ENSG00000131747	ENST00000423485	protein_coding	KNOWN	CCDS45672	11989	4596	1531	38544768	38574202	-1	TOP2	None
17	TOP2A	ENSG00000131747	ENST00000577541	protein_coding	KNOWN	None	11989	84	27	38544778	38545854	-1	TOP2	None
17	TOP2A	ENSG00000131747	ENST00000578412	retained_intron	KNOWN	None	11989	None	None	38545814	38548353	-1	TOP2	None
17	TOP2A	ENSG00000131747	ENST00000577706	retained_intron	KNOWN	None	11989	None	None	38552635	38555513	-1	TOP2	None
17	TOP2A	ENSG00000131747	ENST00000581055	protein_coding	PUTATIVE	None	11989	442	146	38569732	38573957	-1	TOP2	None
4	RN7SL89P	ENSG00000243383	ENST00000480252	misc_RNA	KNOWN	None	46105	None	None	106214815	106215100	1	None	None
10	WARS2P1	ENSG00000227209	ENST00000429678	processed_pseudogene	KNOWN	None	45116	None	None	82700421	82700957	-1	None	None
3	SH3BP5	ENSG00000131370	ENST00000383791	protein_coding	KNOWN	CCDS2625	10827	1368	455	15296360	15374136	-1	None	Sab
3	SH3BP5	ENSG00000131370	ENST00000412806	nonsense_mediated_decay	KNOWN	None	10827	174	57	15296511	15374063	-1	None	Sab
3	SH3BP5	ENSG00000131370	ENST00000426925	protein_coding	KNOWN	CCDS43055	10827	897	298	15297096	15374696	-1	None	Sab
3	SH3BP5	ENSG00000131370	ENST00000408919	protein_coding	KNOWN	CCDS43055	10827	897	298	15297157	15382875	-1	None	Sab
3	SH3BP5	ENSG00000131370	ENST00000366391	protein_coding	KNOWN	None	10827	384	127	15300372	15317552	-1	None	Sab
3	SH3BP5	ENSG00000131370	ENST00000450625	nonsense_mediated_decay	KNOWN	None	10827	210	69	15303665	15373983	-1	None	Sab
3	SH3BP5	ENSG00000131370	ENST00000417936	protein_coding	KNOWN	None	10827	153	50	15303668	15317416	-1	None	Sab
3	SH3BP5	ENSG00000131370	ENST00000465894	processed_transcript	KNOWN	None	10827	None	None	15311350	15382744	-1	None	Sab
3	SH3BP5	ENSG00000131370	ENST00000459627	processed_transcript	PUTATIVE	None	10827	None	None	15345609	15373570	-1	None	Sab
3	SH3BP5	ENSG00000131370	ENST00000253688	protein_coding	KNOWN	CCDS43055	10827	897	298	15297096	15374067	-1	None	Sab
4	RNU6-553P	ENSG00000200917	ENST00000364047	snRNA	KNOWN	None	47516	None	None	106328154	106328249	1	None	None
20	FRG1B	ENSG00000149531	ENST00000468180	processed_transcript	KNOWN	None	15792	None	None	29611857	29613061	1	C20orf80	bA348I14.2
20	FRG1B	ENSG00000149531	ENST00000278882	protein_coding	KNOWN	None	15792	549	182	29611857	29634010	1	C20orf80	bA348I14.2
20	FRG1B	ENSG00000149531	ENST00000482423	processed_transcript	KNOWN	None	15792	None	None	29612261	29623254	1	C20orf80	bA348I14.2
20	FRG1B	ENSG00000149531	ENST00000479318	nonsense_mediated_decay	KNOWN	None	15792	226	74	29625873	29631927	1	C20orf80	bA348I14.2
20	FRG1B	ENSG00000149531	ENST00000439954	protein_coding	KNOWN	None	15792	366	121	29611879	29628413	1	C20orf80	bA348I14.2
20	FRG1B	ENSG00000149531	ENST00000358464	protein_coding	KNOWN	None	15792	549	182	29611879	29634006	1	C20orf80	bA348I14.2
9	MIR4673	ENSG00000263403	ENST00000584777	miRNA	KNOWN	None	41574	None	None	139414020	139414078	-1	None	hsa-mir-4673
HSCHR6_MHC_MANN	OR2H1	ENSG00000224395	ENST00000435958	protein_coding	KNOWN	None	8252	951	316	29424528	29431676	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_MANN	OR2H1	ENSG00000224395	ENST00000458051	protein_coding	KNOWN	None	8252	951	316	29424535	29431676	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_MANN	OR2H1	ENSG00000224395	ENST00000477792	processed_transcript	KNOWN	None	8252	None	None	29424550	29428434	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_MANN	OR2H1	ENSG00000224395	ENST00000415581	protein_coding	KNOWN	None	8252	951	316	29427118	29431676	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_MANN	OR2H1	ENSG00000224395	ENST00000438840	protein_coding	KNOWN	None	8252	951	316	29428788	29430081	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_MANN	OR2H1	ENSG00000224395	ENST00000494944	processed_transcript	KNOWN	None	8252	None	None	29428843	29430068	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_MANN	OR2H1	ENSG00000224395	ENST00000486630	processed_transcript	KNOWN	None	8252	None	None	29428843	29430068	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_MANN	OR2H1	ENSG00000224395	ENST00000552129	protein_coding	KNOWN	None	8252	951	316	29425800	29431668	1	OR2H6, OR2H8	OR6-2
7	OPN1SW	ENSG00000128617	ENST00000249389	protein_coding	KNOWN	CCDS5806	1012	1047	348	128412545	128415844	-1	BCP	BOP, CBT
10	RPA2P2	ENSG00000226466	ENST00000419698	processed_pseudogene	KNOWN	None	45117	None	None	82896296	82897091	-1	None	None
4	EEF1A1P9	ENSG00000249264	ENST00000514975	processed_pseudogene	KNOWN	None	3204	None	None	106405855	106407237	1	EEF1AL7	None
10	None	ENSG00000226005	ENST00000432452	lincRNA	KNOWN	None	None	None	None	3976711	3978005	1	None	None
7	None	ENSG00000229180	ENST00000449307	lincRNA	KNOWN	None	None	None	None	65992918	66007536	-1	None	None
14	None	ENSG00000248358	ENST00000542992	lincRNA	KNOWN	None	None	None	None	22183018	22184486	-1	None	None
16	ZNF598	ENSG00000167962	ENST00000562988	retained_intron	KNOWN	None	28079	None	None	2047655	2059765	-1	None	FLJ00086
16	ZNF598	ENSG00000167962	ENST00000563630	protein_coding	NOVEL	None	28079	2550	849	2047655	2059824	-1	None	FLJ00086
16	ZNF598	ENSG00000167962	ENST00000565396	retained_intron	KNOWN	None	28079	None	None	2047656	2059796	-1	None	FLJ00086
16	ZNF598	ENSG00000167962	ENST00000567008	retained_intron	KNOWN	None	28079	None	None	2048154	2049196	-1	None	FLJ00086
16	ZNF598	ENSG00000167962	ENST00000562103	protein_coding	NOVEL	None	28079	2550	849	2048233	2059748	-1	None	FLJ00086
16	ZNF598	ENSG00000167962	ENST00000564556	nonsense_mediated_decay	KNOWN	None	28079	611	202	2048425	2050072	-1	None	FLJ00086
16	ZNF598	ENSG00000167962	ENST00000564824	retained_intron	KNOWN	None	28079	None	None	2049501	2059765	-1	None	FLJ00086
16	ZNF598	ENSG00000167962	ENST00000561787	retained_intron	KNOWN	None	28079	None	None	2049895	2051745	-1	None	FLJ00086
16	ZNF598	ENSG00000167962	ENST00000567625	nonsense_mediated_decay	KNOWN	None	28079	272	89	2050011	2052346	-1	None	FLJ00086
16	ZNF598	ENSG00000167962	ENST00000431526	protein_coding	KNOWN	None	28079	2715	904	2047768	2059763	-1	None	FLJ00086
4	None	ENSG00000250706	ENST00000504799	lincRNA	KNOWN	None	None	None	None	153067537	153099725	-1	None	None
19	MIR4745	ENSG00000265767	ENST00000577608	miRNA	KNOWN	None	41868	None	None	804940	805001	1	None	hsa-mir-4745
16	None	ENSG00000261782	ENST00000564203	processed_pseudogene	KNOWN	None	None	None	None	35113407	35113869	-1	None	None
8	None	ENSG00000234120	ENST00000421457	processed_pseudogene	KNOWN	None	None	None	None	6969836	6971250	-1	None	None
19	MIR3187	ENSG00000263414	ENST00000583431	miRNA	KNOWN	None	38319	None	None	813584	813653	1	None	hsa-mir-3187
9	None	ENSG00000227512	ENST00000439501	antisense	KNOWN	None	None	None	None	139437333	139438287	1	None	None
12	GRIN2B	ENSG00000150086	ENST00000279593	protein_coding	KNOWN	CCDS8662	4586	4455	1484	13714144	14133053	-1	NMDAR2B	GluN2B
19	RNU6-9	ENSG00000207507	ENST00000384776	snRNA	KNOWN	None	34269	None	None	893484	893590	1	None	U6-9
7	None	ENSG00000232559	ENST00000428370	unprocessed_pseudogene	KNOWN	None	None	None	None	66019575	66041910	-1	None	None
7	None	ENSG00000232559	ENST00000445080	unprocessed_pseudogene	KNOWN	None	None	None	None	66010634	66057373	-1	None	None
10	None	ENSG00000265990	ENST00000584578	miRNA	NOVEL	None	None	None	None	82904408	82904487	1	None	None
4	None	ENSG00000251377	ENST00000504957	lincRNA	KNOWN	None	None	None	None	153128573	153147022	-1	None	None
4	None	ENSG00000251377	ENST00000504785	lincRNA	KNOWN	None	None	None	None	153143620	153146551	-1	None	None
4	None	ENSG00000216425	ENST00000502488	processed_pseudogene	KNOWN	None	None	None	None	106447753	106448554	-1	None	None
9	MIR4674	ENSG00000265181	ENST00000582457	miRNA	KNOWN	None	41729	None	None	139440625	139440711	-1	None	hsa-mir-4674
16	None	ENSG00000221580	ENST00000408653	miRNA	NOVEL	None	None	None	None	35136344	35136453	1	None	None
19	None	ENSG00000267159	ENST00000585647	antisense	KNOWN	None	None	None	None	928257	928817	-1	None	None
10	None	ENSG00000221378	ENST00000408451	miRNA	NOVEL	None	None	None	None	83810018	83810104	1	None	None
15	CYFIP1	ENSG00000068793	ENST00000561185	protein_coding	KNOWN	None	13759	483	160	22892005	22929809	1	None	KIAA0068, P140SRA-1, SHYC
15	CYFIP1	ENSG00000068793	ENST00000313077	protein_coding	KNOWN	CCDS10009	13759	3762	1253	22892663	23006016	1	None	KIAA0068, P140SRA-1, SHYC
15	CYFIP1	ENSG00000068793	ENST00000561274	protein_coding	KNOWN	None	13759	453	150	22892686	22929779	1	None	KIAA0068, P140SRA-1, SHYC
15	CYFIP1	ENSG00000068793	ENST00000560848	protein_coding	KNOWN	CCDS10009	13759	3762	1253	22892716	23003602	1	None	KIAA0068, P140SRA-1, SHYC
15	CYFIP1	ENSG00000068793	ENST00000558430	nonsense_mediated_decay	KNOWN	None	13759	234	77	22892720	22928471	1	None	KIAA0068, P140SRA-1, SHYC
15	CYFIP1	ENSG00000068793	ENST00000559393	retained_intron	KNOWN	None	13759	None	None	22926081	22929839	1	None	KIAA0068, P140SRA-1, SHYC
15	CYFIP1	ENSG00000068793	ENST00000557859	protein_coding	NOVEL	None	13759	553	183	22947053	22958241	1	None	KIAA0068, P140SRA-1, SHYC
15	CYFIP1	ENSG00000068793	ENST00000558549	nonsense_mediated_decay	KNOWN	None	13759	137	44	22955159	22956585	1	None	KIAA0068, P140SRA-1, SHYC
15	CYFIP1	ENSG00000068793	ENST00000435939	protein_coding	KNOWN	CCDS45189	13759	2469	822	22955755	23005943	1	None	KIAA0068, P140SRA-1, SHYC
15	CYFIP1	ENSG00000068793	ENST00000558826	retained_intron	KNOWN	None	13759	None	None	22957965	22969310	1	None	KIAA0068, P140SRA-1, SHYC
15	CYFIP1	ENSG00000068793	ENST00000561296	retained_intron	KNOWN	None	13759	None	None	22960684	22963874	1	None	KIAA0068, P140SRA-1, SHYC
15	CYFIP1	ENSG00000068793	ENST00000561020	retained_intron	KNOWN	None	13759	None	None	22967628	23003602	1	None	KIAA0068, P140SRA-1, SHYC
15	CYFIP1	ENSG00000068793	ENST00000557890	retained_intron	KNOWN	None	13759	None	None	22997606	22999387	1	None	KIAA0068, P140SRA-1, SHYC
15	CYFIP1	ENSG00000068793	ENST00000561263	protein_coding	PUTATIVE	None	13759	531	176	22997833	23000431	1	None	KIAA0068, P140SRA-1, SHYC
16	PPP1R1AP2	ENSG00000261084	ENST00000561752	processed_pseudogene	KNOWN	None	16317	None	None	35146491	35146887	1	None	None
12	FAM90A1	ENSG00000171847	ENST00000307435	protein_coding	KNOWN	CCDS31738	25526	1395	464	8373856	8380197	-1	None	FLJ10408
12	FAM90A1	ENSG00000171847	ENST00000538603	protein_coding	KNOWN	CCDS31738	25526	1395	464	8373859	8380214	-1	None	FLJ10408
12	FAM90A1	ENSG00000171847	ENST00000442295	protein_coding	KNOWN	None	25526	42	13	8377387	8380183	-1	None	FLJ10408
10	None	ENSG00000227101	ENST00000455525	lincRNA	KNOWN	None	None	None	None	4067132	4070586	1	None	None
10	None	ENSG00000229458	ENST00000440589	antisense	KNOWN	None	None	None	None	83983969	83988935	-1	None	None
6	None	ENSG00000237593	ENST00000456309	processed_pseudogene	KNOWN	None	None	None	None	154538065	154538623	1	None	None
19	None	ENSG00000266990	ENST00000588380	antisense	KNOWN	None	None	None	None	999795	1002756	-1	None	None
14	RPL4P1	ENSG00000240954	ENST00000496596	processed_pseudogene	KNOWN	None	23551	None	None	22218553	22219830	1	None	None
4	None	ENSG00000266244	ENST00000579090	miRNA	NOVEL	None	None	None	None	153149620	153149686	1	None	None
14	TRDV1	ENSG00000211804	ENST00000390452	TR_V_gene	KNOWN	None	12262	347	114	22564309	22564896	1	None	hDV101S1
16	None	ENSG00000237102	ENST00000454102	protein_coding	KNOWN	None	None	543	180	67244251	67260930	-1	None	None
6	None	ENSG00000220181	ENST00000404107	processed_pseudogene	KNOWN	None	None	None	None	154870651	154871376	1	None	None
14	None	ENSG00000222776	ENST00000410844	miRNA	NOVEL	None	None	None	None	22248785	22248866	1	None	None
4	RN7SL446P	ENSG00000244544	ENST00000476053	misc_RNA	KNOWN	None	46462	None	None	153185301	153185597	-1	None	None
19	RNU6-2	ENSG00000207357	ENST00000384627	snRNA	KNOWN	None	34270	None	None	1021521	1021627	1	None	U6-2
X	None	ENSG00000207146	ENST00000384417	misc_RNA	NOVEL	None	None	None	None	107920181	107920287	-1	None	None
6	RPS4XP8	ENSG00000219146	ENST00000402039	processed_pseudogene	KNOWN	None	36683	None	None	154897443	154898213	1	RPS4P8	None
4	None	ENSG00000270302	ENST00000603643	lincRNA	KNOWN	None	None	None	None	153229435	153231135	-1	None	None
19	None	ENSG00000267020	ENST00000585757	antisense	KNOWN	None	None	None	None	1038726	1039063	-1	None	None
14	TRAV11	ENSG00000256474	ENST00000539512	TR_V_pseudogene	KNOWN	None	12104	None	None	22297692	22298223	1	None	None
6	None	ENSG00000231316	ENST00000427423	processed_pseudogene	KNOWN	None	None	None	None	154926750	154927088	-1	None	None
4	ATP5EP1	ENSG00000250922	ENST00000510257	processed_pseudogene	KNOWN	None	839	None	None	106453632	106453787	1	None	None
4	None	ENSG00000270883	ENST00000605407	lincRNA	KNOWN	None	None	None	None	153239054	153239516	-1	None	None
10	NRG3-AS1	ENSG00000225738	ENST00000502725	antisense	KNOWN	None	31429	None	None	83988741	83992333	-1	C10orf100	Em:AC010157.1
10	NRG3-AS1	ENSG00000225738	ENST00000448936	antisense	KNOWN	None	31429	None	None	83989886	83992675	-1	C10orf100	Em:AC010157.1
10	NRG3-AS1	ENSG00000225738	ENST00000505481	retained_intron	KNOWN	None	31429	None	None	83992006	83992676	-1	C10orf100	Em:AC010157.1
3	MB21D2	ENSG00000180611	ENST00000392452	protein_coding	KNOWN	CCDS3302	30438	1476	491	192514604	192635950	-1	C3orf59	None
19	HMGB2P1	ENSG00000267736	ENST00000591146	processed_pseudogene	KNOWN	None	39174	None	None	1203208	1203820	1	None	None
8	None	ENSG00000216206	ENST00000401387	miRNA	NOVEL	None	None	None	None	6973421	6973570	-1	None	None
12	PTGES3	ENSG00000110958	ENST00000262033	protein_coding	KNOWN	CCDS31836	16049	483	160	57057127	57082084	-1	None	p23, TEBP, cPGES
12	PTGES3	ENSG00000110958	ENST00000537473	processed_transcript	KNOWN	None	16049	None	None	57057136	57081781	-1	None	p23, TEBP, cPGES
12	PTGES3	ENSG00000110958	ENST00000414274	protein_coding	NOVEL	None	16049	393	130	57057397	57082071	-1	None	p23, TEBP, cPGES
12	PTGES3	ENSG00000110958	ENST00000436399	protein_coding	NOVEL	None	16049	384	127	57057869	57081946	-1	None	p23, TEBP, cPGES
12	PTGES3	ENSG00000110958	ENST00000448157	protein_coding	NOVEL	None	16049	420	139	57057951	57082068	-1	None	p23, TEBP, cPGES
12	PTGES3	ENSG00000110958	ENST00000456859	protein_coding	PUTATIVE	None	16049	375	124	57058057	57082159	-1	None	p23, TEBP, cPGES
6	TNFRSF21	ENSG00000146072	ENST00000296861	protein_coding	KNOWN	CCDS4921	13469	1968	655	47199268	47277641	-1	None	DR6, CD358
1	LDLRAD2	ENSG00000187942	ENST00000344642	protein_coding	KNOWN	CCDS30624	32071	819	272	22138758	22151714	1	None	None
1	LDLRAD2	ENSG00000187942	ENST00000484271	processed_transcript	KNOWN	None	32071	None	None	22147990	22149041	1	None	None
1	LDLRAD2	ENSG00000187942	ENST00000543870	protein_coding	KNOWN	CCDS30624	32071	819	272	22138856	22150456	1	None	None
6	None	ENSG00000205625	ENST00000307155	processed_pseudogene	KNOWN	None	None	None	None	155027777	155028929	1	None	None
4	None	ENSG00000270750	ENST00000603766	lincRNA	KNOWN	None	None	None	None	153241696	153242196	-1	None	None
19	OR7D2	ENSG00000188000	ENST00000344248	protein_coding	KNOWN	CCDS32900	8378	939	312	9296279	9299493	1	None	OR19-4, HTPCRH03, FLJ38149
X	None	ENSG00000261409	ENST00000564206	sense_overlapping	KNOWN	None	None	None	None	107963179	107968174	-1	None	None
15	None	ENSG00000259542	ENST00000558246	lincRNA	KNOWN	None	None	None	None	96936375	96948419	-1	None	None
15	None	ENSG00000259542	ENST00000560242	lincRNA	KNOWN	None	None	None	None	96936403	96939415	-1	None	None
15	None	ENSG00000259542	ENST00000559611	lincRNA	KNOWN	None	None	None	None	96936403	96944801	-1	None	None
15	None	ENSG00000259542	ENST00000561097	lincRNA	KNOWN	None	None	None	None	96936403	96948412	-1	None	None
4	None	ENSG00000270751	ENST00000605147	antisense	KNOWN	None	None	None	None	153258807	153259250	1	None	None
14	TRAV8-5	ENSG00000256379	ENST00000537369	TR_V_pseudogene	KNOWN	None	12150	None	None	22371257	22371778	1	None	TRAV85, TCRAV8S5
16	ANKRD26P1	ENSG00000261239	ENST00000571006	processed_transcript	KNOWN	None	32955	None	None	46503253	46551863	-1	None	FLJ43980
16	ANKRD26P1	ENSG00000261239	ENST00000566933	processed_transcript	KNOWN	None	32955	None	None	46503574	46512399	-1	None	FLJ43980
16	ANKRD26P1	ENSG00000261239	ENST00000566201	processed_transcript	KNOWN	None	32955	None	None	46505451	46603009	-1	None	FLJ43980
16	ANKRD26P1	ENSG00000261239	ENST00000569528	transcribed_unprocessed_pseudogene	KNOWN	None	32955	None	None	46505451	46603009	-1	None	FLJ43980
16	ANKRD26P1	ENSG00000261239	ENST00000571606	processed_transcript	KNOWN	None	32955	None	None	46508034	46512351	-1	None	FLJ43980
16	ANKRD26P1	ENSG00000261239	ENST00000574898	processed_transcript	KNOWN	None	32955	None	None	46534471	46551966	-1	None	FLJ43980
19	None	ENSG00000267778	ENST00000592843	lincRNA	KNOWN	None	None	None	None	1238178	1239521	1	None	None
HSCHR6_MHC_DBB	HLA-DPA1	ENSG00000229685	ENST00000454805	protein_coding	KNOWN	None	4938	783	260	33010288	33026429	-1	HLA-DP1A	None
HSCHR6_MHC_DBB	HLA-DPA1	ENSG00000229685	ENST00000484244	retained_intron	KNOWN	None	4938	None	None	33010726	33019334	-1	HLA-DP1A	None
HSCHR6_MHC_DBB	HLA-DPA1	ENSG00000229685	ENST00000442259	protein_coding	KNOWN	None	4938	385	127	33013379	33014967	-1	HLA-DP1A	None
HSCHR6_MHC_DBB	HLA-DPA1	ENSG00000229685	ENST00000437676	protein_coding	KNOWN	None	4938	636	211	33014417	33019356	-1	HLA-DP1A	None
HSCHR6_MHC_DBB	HLA-DPA1	ENSG00000229685	ENST00000436183	protein_coding	KNOWN	None	4938	628	208	33014738	33026486	-1	HLA-DP1A	None
HSCHR6_MHC_DBB	HLA-DPA1	ENSG00000229685	ENST00000486449	processed_transcript	KNOWN	None	4938	None	None	33014823	33026474	-1	HLA-DP1A	None
HSCHR6_MHC_DBB	HLA-DPA1	ENSG00000229685	ENST00000475500	processed_transcript	KNOWN	None	4938	None	None	33014881	33019352	-1	HLA-DP1A	None
HSCHR6_MHC_DBB	HLA-DPA1	ENSG00000229685	ENST00000423630	protein_coding	KNOWN	None	4938	69	22	33019221	33026494	-1	HLA-DP1A	None
HSCHR6_MHC_DBB	HLA-DPA1	ENSG00000229685	ENST00000549300	protein_coding	KNOWN	None	4938	783	260	33010736	33019320	-1	HLA-DP1A	None
4	MIR3140	ENSG00000264678	ENST00000583685	miRNA	KNOWN	None	38183	None	None	153410479	153410568	-1	None	hsa-mir-3140
19	OR7D4	ENSG00000174667	ENST00000308682	protein_coding	KNOWN	CCDS32901	8380	939	312	9324526	9325542	-1	OR7D4P	hg105, OR19-B
8	RPS3AP30	ENSG00000228744	ENST00000438784	processed_pseudogene	KNOWN	None	35538	None	None	6980379	6981226	1	None	None
16	BOLA2	ENSG00000183336	ENST00000330978	protein_coding	KNOWN	CCDS32426	29488	459	152	29464914	29466285	-1	None	My016, BOLA2A
6	None	ENSG00000255389	ENST00000531702	antisense	KNOWN	None	None	None	None	111921078	111923498	1	None	None
1	TMEM51-AS1	ENSG00000175147	ENST00000404665	processed_transcript	KNOWN	None	26301	None	None	15442448	15478898	-1	C1orf126	FLJ23703
1	TMEM51-AS1	ENSG00000175147	ENST00000310916	processed_transcript	KNOWN	None	26301	None	None	15442449	15478960	-1	C1orf126	FLJ23703
4	MIR4453	ENSG00000268471	ENST00000604157	lincRNA	KNOWN	None	41892	None	None	153457416	153460415	1	None	hsa-mir-4453
4	MIR4453	ENSG00000268471	ENST00000584019	miRNA	KNOWN	None	41892	None	None	153457580	153457668	1	None	hsa-mir-4453
4	MIR4453	ENSG00000268471	ENST00000594836	lincRNA	KNOWN	None	41892	None	None	153457416	153460412	1	None	hsa-mir-4453
19	CIRBP-AS1	ENSG00000267493	ENST00000585832	antisense	KNOWN	None	28588	None	None	1268165	1270240	-1	C19orf23	MGC39338
19	CIRBP-AS1	ENSG00000267493	ENST00000600215	antisense	KNOWN	None	28588	None	None	1269822	1270139	-1	C19orf23	MGC39338
7	None	ENSG00000232491	ENST00000455031	processed_pseudogene	KNOWN	None	None	None	None	66021203	66022052	1	None	None
5	None	ENSG00000251538	ENST00000511194	lincRNA	KNOWN	None	None	None	None	121964647	122066254	-1	None	None
5	None	ENSG00000251538	ENST00000514657	lincRNA	KNOWN	None	None	None	None	122035085	122040764	-1	None	None
5	None	ENSG00000251538	ENST00000508992	lincRNA	KNOWN	None	None	None	None	122065104	122066380	-1	None	None
6	None	ENSG00000239015	ENST00000459131	snoRNA	NOVEL	None	None	None	None	111967530	111967630	-1	None	None
19	KLK10	ENSG00000129451	ENST00000309958	protein_coding	KNOWN	CCDS12817	6358	831	276	51515995	51523282	-1	PRSSL1	NES1
19	KLK10	ENSG00000129451	ENST00000358789	protein_coding	KNOWN	CCDS12817	6358	831	276	51517526	51523020	-1	PRSSL1	NES1
19	KLK10	ENSG00000129451	ENST00000601467	nonsense_mediated_decay	KNOWN	None	6358	132	43	51517766	51522105	-1	PRSSL1	NES1
19	KLK10	ENSG00000129451	ENST00000599987	retained_intron	KNOWN	None	6358	None	None	51519069	51520578	-1	PRSSL1	NES1
19	KLK10	ENSG00000129451	ENST00000599077	protein_coding	KNOWN	None	6358	429	142	51519253	51523431	-1	PRSSL1	NES1
19	KLK10	ENSG00000129451	ENST00000391805	protein_coding	KNOWN	CCDS12817	6358	831	276	51516001	51523431	-1	PRSSL1	NES1
19	OR7E24	ENSG00000237521	ENST00000456448	protein_coding	KNOWN	CCDS45955	8396	1020	339	9361606	9362820	1	OR7E24P	OR19-8, HSHT2, OR7E24Q
14	TRAV24	ENSG00000211805	ENST00000390453	TR_V_gene	KNOWN	None	12121	343	113	22573620	22574123	1	None	None
19	RPS15P9	ENSG00000240846	ENST00000494093	processed_pseudogene	KNOWN	None	36440	None	None	1307403	1307720	-1	None	None
Y	FAM41AY2	ENSG00000226362	ENST00000458627	lincRNA	KNOWN	None	37135	None	None	20552880	20566932	-1	None	None
12	HSPB8	ENSG00000152137	ENST00000281938	protein_coding	KNOWN	CCDS9189	30171	591	196	119616447	119632551	1	None	H11, E2IG1, HSP22, HspB8
12	HSPB8	ENSG00000152137	ENST00000541798	protein_coding	PUTATIVE	None	30171	458	151	119617395	119658936	1	None	H11, E2IG1, HSP22, HspB8
12	HSPB8	ENSG00000152137	ENST00000542496	processed_transcript	PUTATIVE	None	30171	None	None	119624605	119631633	1	None	H11, E2IG1, HSP22, HspB8
X	None	ENSG00000237863	ENST00000436013	processed_transcript	KNOWN	None	None	None	None	107979770	107982133	1	None	None
8	None	ENSG00000253633	ENST00000519630	processed_transcript	KNOWN	None	None	None	None	103540968	103550896	1	None	None
8	None	ENSG00000253633	ENST00000523572	protein_coding	PUTATIVE	None	None	126	41	103540983	103542029	1	None	None
12	FICD	ENSG00000198855	ENST00000552695	protein_coding	KNOWN	CCDS9116	18416	1377	458	108908962	108914987	1	None	HYPE, HIP13
12	FICD	ENSG00000198855	ENST00000552758	protein_coding	PUTATIVE	None	18416	420	139	108909077	108911232	1	None	HYPE, HIP13
12	FICD	ENSG00000198855	ENST00000361549	protein_coding	PUTATIVE	None	18416	543	180	108909093	108913307	1	None	HYPE, HIP13
12	FICD	ENSG00000198855	ENST00000549641	protein_coding	PUTATIVE	None	18416	170	55	108910898	108919609	1	None	HYPE, HIP13
12	FICD	ENSG00000198855	ENST00000546448	processed_transcript	PUTATIVE	None	18416	None	None	108918436	108919614	1	None	HYPE, HIP13
8	None	ENSG00000253596	ENST00000521872	antisense	KNOWN	None	None	None	None	75259992	75262285	-1	None	None
11	CAPRIN1	ENSG00000135387	ENST00000341394	protein_coding	KNOWN	CCDS31453	6743	2130	709	34073230	34122703	1	M11S1, GPIAP1	caprin-1, RNG105
11	CAPRIN1	ENSG00000135387	ENST00000526477	processed_transcript	PUTATIVE	None	6743	None	None	34073279	34074414	1	M11S1, GPIAP1	caprin-1, RNG105
11	CAPRIN1	ENSG00000135387	ENST00000389645	protein_coding	NOVEL	CCDS31454	6743	2085	694	34073279	34120601	1	M11S1, GPIAP1	caprin-1, RNG105
11	CAPRIN1	ENSG00000135387	ENST00000528856	processed_transcript	KNOWN	None	6743	None	None	34073279	34120879	1	M11S1, GPIAP1	caprin-1, RNG105
11	CAPRIN1	ENSG00000135387	ENST00000534042	processed_transcript	KNOWN	None	6743	None	None	34073298	34098170	1	M11S1, GPIAP1	caprin-1, RNG105
11	CAPRIN1	ENSG00000135387	ENST00000534825	protein_coding	PUTATIVE	None	6743	560	185	34073602	34097976	1	M11S1, GPIAP1	caprin-1, RNG105
11	CAPRIN1	ENSG00000135387	ENST00000532820	protein_coding	KNOWN	CCDS31453	6743	2130	709	34073757	34122011	1	M11S1, GPIAP1	caprin-1, RNG105
11	CAPRIN1	ENSG00000135387	ENST00000530820	protein_coding	NOVEL	CCDS31454	6743	2085	694	34073876	34120605	1	M11S1, GPIAP1	caprin-1, RNG105
11	CAPRIN1	ENSG00000135387	ENST00000529307	protein_coding	NOVEL	None	6743	1887	628	34074528	34121061	1	M11S1, GPIAP1	caprin-1, RNG105
11	CAPRIN1	ENSG00000135387	ENST00000526494	processed_transcript	KNOWN	None	6743	None	None	34074998	34097962	1	M11S1, GPIAP1	caprin-1, RNG105
11	CAPRIN1	ENSG00000135387	ENST00000532755	processed_transcript	KNOWN	None	6743	None	None	34075069	34093487	1	M11S1, GPIAP1	caprin-1, RNG105
11	CAPRIN1	ENSG00000135387	ENST00000533641	processed_transcript	KNOWN	None	6743	None	None	34077233	34097920	1	M11S1, GPIAP1	caprin-1, RNG105
11	CAPRIN1	ENSG00000135387	ENST00000530008	processed_transcript	KNOWN	None	6743	None	None	34077285	34098143	1	M11S1, GPIAP1	caprin-1, RNG105
11	CAPRIN1	ENSG00000135387	ENST00000533657	processed_transcript	KNOWN	None	6743	None	None	34111573	34122698	1	M11S1, GPIAP1	caprin-1, RNG105
11	CAPRIN1	ENSG00000135387	ENST00000528948	processed_transcript	PUTATIVE	None	6743	None	None	34113166	34118172	1	M11S1, GPIAP1	caprin-1, RNG105
11	CAPRIN1	ENSG00000135387	ENST00000531668	processed_transcript	KNOWN	None	6743	None	None	34117366	34120935	1	M11S1, GPIAP1	caprin-1, RNG105
11	CAPRIN1	ENSG00000135387	ENST00000533562	processed_transcript	PUTATIVE	None	6743	None	None	34117707	34118819	1	M11S1, GPIAP1	caprin-1, RNG105
14	TRAV15	ENSG00000258482	ENST00000556680	TR_V_pseudogene	KNOWN	None	12111	None	None	22418629	22418877	1	None	TCRAV15S1
15	None	ENSG00000271232	ENST00000603171	processed_pseudogene	KNOWN	None	None	None	None	69041840	69043030	1	None	None
4	None	ENSG00000250522	ENST00000514879	antisense	KNOWN	None	None	None	None	106461347	106473512	-1	None	None
8	None	ENSG00000207417	ENST00000384686	misc_RNA	NOVEL	None	None	None	None	75288922	75289028	1	None	None
Y	TCEB1P13	ENSG00000225716	ENST00000443934	processed_pseudogene	KNOWN	None	38149	None	None	20602683	20603011	1	None	None
16	None	ENSG00000261904	ENST00000571250	unprocessed_pseudogene	KNOWN	None	None	None	None	10813872	10815321	-1	None	None
5	NSUN2	ENSG00000037474	ENST00000264670	protein_coding	KNOWN	CCDS3869	25994	2304	767	6599352	6633404	-1	None	FLJ20303, TRM4, Misu
5	NSUN2	ENSG00000037474	ENST00000504374	nonsense_mediated_decay	KNOWN	None	25994	609	202	6599353	6633404	-1	None	FLJ20303, TRM4, Misu
5	NSUN2	ENSG00000037474	ENST00000505892	retained_intron	KNOWN	None	25994	None	None	6599354	6621602	-1	None	FLJ20303, TRM4, Misu
5	NSUN2	ENSG00000037474	ENST00000513888	retained_intron	KNOWN	None	25994	None	None	6599513	6604995	-1	None	FLJ20303, TRM4, Misu
5	NSUN2	ENSG00000037474	ENST00000506139	protein_coding	NOVEL	CCDS54832	25994	2199	732	6599682	6633155	-1	None	FLJ20303, TRM4, Misu
5	NSUN2	ENSG00000037474	ENST00000514127	nonsense_mediated_decay	KNOWN	None	25994	308	101	6600143	6607370	-1	None	FLJ20303, TRM4, Misu
5	NSUN2	ENSG00000037474	ENST00000502932	retained_intron	KNOWN	None	25994	None	None	6603982	6604821	-1	None	FLJ20303, TRM4, Misu
5	NSUN2	ENSG00000037474	ENST00000507888	retained_intron	KNOWN	None	25994	None	None	6604914	6607039	-1	None	FLJ20303, TRM4, Misu
5	NSUN2	ENSG00000037474	ENST00000505264	processed_transcript	KNOWN	None	25994	None	None	6620229	6625751	-1	None	FLJ20303, TRM4, Misu
5	NSUN2	ENSG00000037474	ENST00000539938	protein_coding	KNOWN	None	25994	1596	531	6599353	6633404	-1	None	FLJ20303, TRM4, Misu
19	None	ENSG00000267372	ENST00000590086	lincRNA	KNOWN	None	None	None	None	1321224	1322863	1	None	None
2	RNF149	ENSG00000163162	ENST00000485752	processed_transcript	PUTATIVE	None	23137	None	None	101887681	101889398	-1	None	FLJ90504
2	RNF149	ENSG00000163162	ENST00000424632	nonsense_mediated_decay	KNOWN	None	23137	1197	398	101887684	101925163	-1	None	FLJ90504
2	RNF149	ENSG00000163162	ENST00000295317	protein_coding	KNOWN	CCDS2051	23137	1203	400	101892553	101925158	-1	None	FLJ90504
2	RNF149	ENSG00000163162	ENST00000490553	retained_intron	KNOWN	None	23137	None	None	101897955	101902569	-1	None	FLJ90504
2	RNF149	ENSG00000163162	ENST00000463726	retained_intron	KNOWN	None	23137	None	None	101898321	101902965	-1	None	FLJ90504
2	RNF149	ENSG00000163162	ENST00000478404	retained_intron	KNOWN	None	23137	None	None	101905170	101911124	-1	None	FLJ90504
14	None	ENSG00000230805	ENST00000555599	lincRNA	KNOWN	None	None	None	None	101540206	101544012	-1	None	None
14	None	ENSG00000230805	ENST00000448840	lincRNA	KNOWN	None	None	None	None	101540233	101544008	-1	None	None
14	None	ENSG00000230805	ENST00000555103	lincRNA	KNOWN	None	None	None	None	101540290	101544247	-1	None	None
14	None	ENSG00000230805	ENST00000556035	lincRNA	KNOWN	None	None	None	None	101542642	101543106	-1	None	None
14	None	ENSG00000230805	ENST00000556136	lincRNA	KNOWN	None	None	None	None	101542927	101543876	-1	None	None
7	None	ENSG00000264045	ENST00000579931	miRNA	NOVEL	None	None	None	None	102654703	102654802	1	None	None
16	None	ENSG00000262322	ENST00000572715	unprocessed_pseudogene	KNOWN	None	None	None	None	10815555	10816925	-1	None	None
15	None	ENSG00000259425	ENST00000559762	processed_transcript	KNOWN	None	None	None	None	23096869	23099874	1	None	None
15	None	ENSG00000259425	ENST00000560434	retained_intron	KNOWN	None	None	None	None	23096948	23098684	1	None	None
15	None	ENSG00000259425	ENST00000559740	processed_transcript	KNOWN	None	None	None	None	23096948	23099971	1	None	None
15	None	ENSG00000259425	ENST00000558417	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	23097010	23105332	1	None	None
HSCHR6_MHC_MCF	SFTA2	ENSG00000237814	ENST00000466574	retained_intron	KNOWN	None	18386	None	None	30977672	30978428	-1	SFTPG	None
HSCHR6_MHC_MCF	SFTA2	ENSG00000237814	ENST00000454649	protein_coding	KNOWN	None	18386	237	78	30977672	30978494	-1	SFTPG	None
7	None	ENSG00000236226	ENST00000447336	antisense	KNOWN	None	None	None	None	102670551	102671801	1	None	None
2	EIF2AK2	ENSG00000055332	ENST00000233057	protein_coding	KNOWN	CCDS1786	9437	1656	551	37326353	37384190	-1	PRKR	PKR, EIF2AK1
2	EIF2AK2	ENSG00000055332	ENST00000405334	protein_coding	NOVEL	CCDS46259	9437	1533	510	37334416	37374949	-1	PRKR	PKR, EIF2AK1
2	EIF2AK2	ENSG00000055332	ENST00000462861	retained_intron	KNOWN	None	9437	None	None	37334489	37336643	-1	PRKR	PKR, EIF2AK1
2	EIF2AK2	ENSG00000055332	ENST00000496059	retained_intron	KNOWN	None	9437	None	None	37363872	37374104	-1	PRKR	PKR, EIF2AK1
2	EIF2AK2	ENSG00000055332	ENST00000411537	protein_coding	KNOWN	None	9437	348	115	37368737	37384175	-1	PRKR	PKR, EIF2AK1
2	EIF2AK2	ENSG00000055332	ENST00000390013	protein_coding	KNOWN	None	9437	307	101	37368778	37384208	-1	PRKR	PKR, EIF2AK1
2	EIF2AK2	ENSG00000055332	ENST00000395127	protein_coding	KNOWN	CCDS1786	9437	1656	551	37333699	37384190	-1	PRKR	PKR, EIF2AK1
11	TSPAN4	ENSG00000214063	ENST00000397397	protein_coding	KNOWN	CCDS7721	11859	717	238	842808	867111	1	TM4SF7	NAG-2, TSPAN-4, TETRASPAN
11	TSPAN4	ENSG00000214063	ENST00000397411	protein_coding	KNOWN	CCDS7721	11859	717	238	842812	866817	1	TM4SF7	NAG-2, TSPAN-4, TETRASPAN
11	TSPAN4	ENSG00000214063	ENST00000530404	protein_coding	KNOWN	None	11859	255	84	843315	862741	1	TM4SF7	NAG-2, TSPAN-4, TETRASPAN
11	TSPAN4	ENSG00000214063	ENST00000525334	protein_coding	KNOWN	None	11859	300	99	843339	865753	1	TM4SF7	NAG-2, TSPAN-4, TETRASPAN
11	TSPAN4	ENSG00000214063	ENST00000409543	protein_coding	KNOWN	CCDS7721	11859	717	238	844117	866857	1	TM4SF7	NAG-2, TSPAN-4, TETRASPAN
11	TSPAN4	ENSG00000214063	ENST00000525201	protein_coding	KNOWN	CCDS41589	11859	525	174	844153	866676	1	TM4SF7	NAG-2, TSPAN-4, TETRASPAN
11	TSPAN4	ENSG00000214063	ENST00000526055	retained_intron	KNOWN	None	11859	None	None	847197	862834	1	TM4SF7	NAG-2, TSPAN-4, TETRASPAN
11	TSPAN4	ENSG00000214063	ENST00000524895	retained_intron	KNOWN	None	11859	None	None	847197	864653	1	TM4SF7	NAG-2, TSPAN-4, TETRASPAN
11	TSPAN4	ENSG00000214063	ENST00000532375	protein_coding	NOVEL	None	11859	397	131	847197	865942	1	TM4SF7	NAG-2, TSPAN-4, TETRASPAN
11	TSPAN4	ENSG00000214063	ENST00000346501	protein_coding	NOVEL	None	11859	615	204	847197	866776	1	TM4SF7	NAG-2, TSPAN-4, TETRASPAN
11	TSPAN4	ENSG00000214063	ENST00000464987	retained_intron	KNOWN	None	11859	None	None	847197	867109	1	TM4SF7	NAG-2, TSPAN-4, TETRASPAN
11	TSPAN4	ENSG00000214063	ENST00000409531	protein_coding	PUTATIVE	None	11859	774	257	848810	867111	1	TM4SF7	NAG-2, TSPAN-4, TETRASPAN
11	TSPAN4	ENSG00000214063	ENST00000527644	protein_coding	KNOWN	None	11859	479	158	849816	865740	1	TM4SF7	NAG-2, TSPAN-4, TETRASPAN
11	TSPAN4	ENSG00000214063	ENST00000468468	retained_intron	KNOWN	None	11859	None	None	862297	867109	1	TM4SF7	NAG-2, TSPAN-4, TETRASPAN
11	TSPAN4	ENSG00000214063	ENST00000529566	retained_intron	KNOWN	None	11859	None	None	862345	865825	1	TM4SF7	NAG-2, TSPAN-4, TETRASPAN
11	TSPAN4	ENSG00000214063	ENST00000494815	retained_intron	KNOWN	None	11859	None	None	863272	867111	1	TM4SF7	NAG-2, TSPAN-4, TETRASPAN
11	TSPAN4	ENSG00000214063	ENST00000397408	protein_coding	KNOWN	CCDS7721	11859	717	238	842941	867116	1	TM4SF7	NAG-2, TSPAN-4, TETRASPAN
11	TSPAN4	ENSG00000214063	ENST00000397406	protein_coding	KNOWN	CCDS7721	11859	717	238	844081	867116	1	TM4SF7	NAG-2, TSPAN-4, TETRASPAN
11	TSPAN4	ENSG00000214063	ENST00000397404	protein_coding	KNOWN	CCDS7721	11859	717	238	844446	867116	1	TM4SF7	NAG-2, TSPAN-4, TETRASPAN
11	TSPAN4	ENSG00000214063	ENST00000397396	protein_coding	KNOWN	CCDS41589	11859	525	174	842824	867116	1	TM4SF7	NAG-2, TSPAN-4, TETRASPAN
16	TMEM208	ENSG00000168701	ENST00000567193	retained_intron	KNOWN	None	25015	None	None	67261006	67263128	1	None	HSPC171
16	TMEM208	ENSG00000168701	ENST00000563168	retained_intron	KNOWN	None	25015	None	None	67261016	67263151	1	None	HSPC171
16	TMEM208	ENSG00000168701	ENST00000304800	protein_coding	KNOWN	CCDS45511	25015	522	173	67261016	67263181	1	None	HSPC171
16	TMEM208	ENSG00000168701	ENST00000566486	retained_intron	KNOWN	None	25015	None	None	67261021	67262205	1	None	HSPC171
16	TMEM208	ENSG00000168701	ENST00000563953	protein_coding	PUTATIVE	None	25015	312	103	67261023	67263165	1	None	HSPC171
16	TMEM208	ENSG00000168701	ENST00000561586	retained_intron	KNOWN	None	25015	None	None	67261048	67262859	1	None	HSPC171
16	TMEM208	ENSG00000168701	ENST00000562235	nonsense_mediated_decay	KNOWN	None	25015	303	100	67261060	67263181	1	None	HSPC171
16	TMEM208	ENSG00000168701	ENST00000565201	protein_coding	PUTATIVE	None	25015	423	140	67261071	67263181	1	None	HSPC171
16	TMEM208	ENSG00000168701	ENST00000564087	nonsense_mediated_decay	KNOWN	None	25015	111	36	67261116	67262525	1	None	HSPC171
16	TMEM208	ENSG00000168701	ENST00000563426	processed_transcript	PUTATIVE	None	25015	None	None	67262421	67263181	1	None	HSPC171
16	TMEM208	ENSG00000168701	ENST00000563271	retained_intron	KNOWN	None	25015	None	None	67262429	67263181	1	None	HSPC171
16	TMEM208	ENSG00000168701	ENST00000564649	retained_intron	KNOWN	None	25015	None	None	67262574	67263181	1	None	HSPC171
7	CDK14	ENSG00000058091	ENST00000449528	protein_coding	PUTATIVE	None	8883	382	126	90095738	90419943	1	PFTK1	PFTAIRE1
7	CDK14	ENSG00000058091	ENST00000484035	processed_transcript	KNOWN	None	8883	None	None	90193088	90419940	1	PFTK1	PFTAIRE1
7	CDK14	ENSG00000058091	ENST00000446224	protein_coding	PUTATIVE	None	8883	381	126	90193088	90419942	1	PFTK1	PFTAIRE1
7	CDK14	ENSG00000058091	ENST00000430760	protein_coding	PUTATIVE	None	8883	382	126	90193088	90419943	1	PFTK1	PFTAIRE1
7	CDK14	ENSG00000058091	ENST00000456689	protein_coding	PUTATIVE	None	8883	382	126	90193088	90419943	1	PFTK1	PFTAIRE1
7	CDK14	ENSG00000058091	ENST00000380050	protein_coding	KNOWN	None	8883	1410	469	90225811	90839905	1	PFTK1	PFTAIRE1
7	CDK14	ENSG00000058091	ENST00000496279	processed_transcript	KNOWN	None	8883	None	None	90338565	90355958	1	PFTK1	PFTAIRE1
7	CDK14	ENSG00000058091	ENST00000446790	protein_coding	PUTATIVE	None	8883	276	91	90338580	90377040	1	PFTK1	PFTAIRE1
7	CDK14	ENSG00000058091	ENST00000265741	protein_coding	KNOWN	CCDS5619	8883	1356	451	90338712	90839904	1	PFTK1	PFTAIRE1
7	CDK14	ENSG00000058091	ENST00000406263	protein_coding	PUTATIVE	None	8883	1272	423	90338845	90839900	1	PFTK1	PFTAIRE1
7	CDK14	ENSG00000058091	ENST00000431029	nonsense_mediated_decay	KNOWN	None	8883	342	113	90339176	90585108	1	PFTK1	PFTAIRE1
7	CDK14	ENSG00000058091	ENST00000478540	processed_transcript	PUTATIVE	None	8883	None	None	90355818	90419929	1	PFTK1	PFTAIRE1
7	CDK14	ENSG00000058091	ENST00000487145	processed_transcript	KNOWN	None	8883	None	None	90453920	90585111	1	PFTK1	PFTAIRE1
7	CDK14	ENSG00000058091	ENST00000460493	processed_transcript	PUTATIVE	None	8883	None	None	90585107	90609116	1	PFTK1	PFTAIRE1
7	CDK14	ENSG00000058091	ENST00000436577	protein_coding	KNOWN	None	8883	1023	340	90339176	90836677	1	PFTK1	PFTAIRE1
3	None	ENSG00000242107	ENST00000473137	protein_coding	PUTATIVE	None	None	385	127	159733811	159744605	1	None	None
3	None	ENSG00000242107	ENST00000471921	processed_transcript	PUTATIVE	None	None	None	None	159744448	159749210	1	None	None
14	TRAV25	ENSG00000211806	ENST00000390454	TR_V_gene	KNOWN	None	12122	327	108	22580300	22580984	1	None	TCRAV25S1, TCRAV32S1
6	HLA-DRB5	ENSG00000198502	ENST00000374975	protein_coding	KNOWN	CCDS4751	4953	801	266	32485120	32498064	-1	None	None
7	CRYZP1	ENSG00000233025	ENST00000428923	processed_pseudogene	KNOWN	None	2421	None	None	102729111	102730057	-1	None	None
4	GABRB1	ENSG00000163288	ENST00000513567	protein_coding	PUTATIVE	None	4081	353	116	46995740	47163477	1	None	None
4	GABRB1	ENSG00000163288	ENST00000295454	protein_coding	KNOWN	CCDS3474	4081	1425	474	47033377	47428461	1	None	None
4	GABRB1	ENSG00000163288	ENST00000509366	processed_transcript	KNOWN	None	4081	None	None	47033568	47045362	1	None	None
4	GABRB1	ENSG00000163288	ENST00000381582	retained_intron	KNOWN	None	4081	None	None	47033598	47035030	1	None	None
4	GABRB1	ENSG00000163288	ENST00000510909	nonsense_mediated_decay	KNOWN	None	4081	264	87	47033650	47405402	1	None	None
4	GABRB1	ENSG00000163288	ENST00000538619	protein_coding	KNOWN	None	4081	1215	404	47033650	47428157	1	None	None
16	None	ENSG00000262259	ENST00000572277	unprocessed_pseudogene	KNOWN	None	None	None	None	10816922	10817212	-1	None	None
19	None	ENSG00000267755	ENST00000587059	antisense	KNOWN	None	None	None	None	1376772	1377237	-1	None	None
19	None	ENSG00000267755	ENST00000589673	antisense	KNOWN	None	None	None	None	1376772	1377519	-1	None	None
7	RPL19P12	ENSG00000224415	ENST00000432746	processed_pseudogene	KNOWN	None	36047	None	None	102781796	102782386	-1	None	None
5	ARGFXP1	ENSG00000240058	ENST00000489176	processed_pseudogene	KNOWN	None	17252	None	None	122011490	122012450	1	None	None
19	PLAUR	ENSG00000011422	ENST00000339082	protein_coding	KNOWN	CCDS33041	9053	846	281	44150247	44174318	-1	None	URKR, UPAR, CD87
19	PLAUR	ENSG00000011422	ENST00000593447	protein_coding	PUTATIVE	None	9053	401	132	44152728	44160768	-1	None	URKR, UPAR, CD87
19	PLAUR	ENSG00000011422	ENST00000601723	protein_coding	NOVEL	None	9053	861	286	44152731	44174305	-1	None	URKR, UPAR, CD87
19	PLAUR	ENSG00000011422	ENST00000340093	protein_coding	KNOWN	CCDS12628	9053	1008	335	44152732	44174502	-1	None	URKR, UPAR, CD87
19	PLAUR	ENSG00000011422	ENST00000221264	protein_coding	KNOWN	CCDS33042	9053	873	290	44152732	44174699	-1	None	URKR, UPAR, CD87
19	PLAUR	ENSG00000011422	ENST00000595038	protein_coding	PUTATIVE	None	9053	463	153	44155976	44160725	-1	None	URKR, UPAR, CD87
19	PLAUR	ENSG00000011422	ENST00000594364	retained_intron	KNOWN	None	9053	None	None	44156193	44160954	-1	None	URKR, UPAR, CD87
19	PLAUR	ENSG00000011422	ENST00000593714	protein_coding	PUTATIVE	None	9053	555	184	44156377	44171843	-1	None	URKR, UPAR, CD87
19	PLAUR	ENSG00000011422	ENST00000599892	protein_coding	PUTATIVE	None	9053	678	225	44156378	44172472	-1	None	URKR, UPAR, CD87
19	PLAUR	ENSG00000011422	ENST00000597107	nonsense_mediated_decay	KNOWN	None	9053	141	46	44159591	44174293	-1	None	URKR, UPAR, CD87
19	PLAUR	ENSG00000011422	ENST00000602141	protein_coding	PUTATIVE	None	9053	458	151	44159665	44172396	-1	None	URKR, UPAR, CD87
19	PLAUR	ENSG00000011422	ENST00000593939	protein_coding	PUTATIVE	None	9053	457	151	44160631	44172408	-1	None	URKR, UPAR, CD87
19	PLAUR	ENSG00000011422	ENST00000593396	retained_intron	KNOWN	None	9053	None	None	44160718	44165700	-1	None	URKR, UPAR, CD87
19	PLAUR	ENSG00000011422	ENST00000598875	retained_intron	KNOWN	None	9053	None	None	44169262	44174319	-1	None	URKR, UPAR, CD87
19	PLAUR	ENSG00000011422	ENST00000599546	protein_coding	PUTATIVE	None	9053	236	77	44169509	44172456	-1	None	URKR, UPAR, CD87
19	PLAUR	ENSG00000011422	ENST00000601876	retained_intron	KNOWN	None	9053	None	None	44171367	44174320	-1	None	URKR, UPAR, CD87
8	MIR5681A	ENSG00000266502	ENST00000581129	miRNA	KNOWN	None	43518	None	None	75460778	75460852	1	None	hsa-mir-5681a
14	DIO2	ENSG00000211448	ENST00000438257	protein_coding	KNOWN	CCDS45146	2884	822	273	80663873	80677970	-1	None	TXDI2, SelY
14	DIO2	ENSG00000211448	ENST00000557010	protein_coding	KNOWN	CCDS45146	2884	822	273	80663873	80697397	-1	None	TXDI2, SelY
14	DIO2	ENSG00000211448	ENST00000556811	protein_coding	PUTATIVE	None	2884	175	57	80668846	80677657	-1	None	TXDI2, SelY
14	DIO2	ENSG00000211448	ENST00000555750	protein_coding	KNOWN	CCDS55934	2884	930	309	80668941	80677843	-1	None	TXDI2, SelY
14	DIO2	ENSG00000211448	ENST00000557125	protein_coding	PUTATIVE	None	2884	171	56	80668961	80677815	-1	None	TXDI2, SelY
14	DIO2	ENSG00000211448	ENST00000555844	nonsense_mediated_decay	KNOWN	None	2884	112	36	80669162	80677657	-1	None	TXDI2, SelY
14	DIO2	ENSG00000211448	ENST00000554188	protein_coding	KNOWN	None	2884	164	53	80677652	80854100	-1	None	TXDI2, SelY
14	DIO2	ENSG00000211448	ENST00000553968	protein_coding	KNOWN	None	2884	19	5	80677797	80678521	-1	None	TXDI2, SelY
14	DIO2	ENSG00000211448	ENST00000553594	protein_coding	KNOWN	None	2884	18	5	80677798	80782219	-1	None	TXDI2, SelY
14	DIO2	ENSG00000211448	ENST00000556384	processed_transcript	PUTATIVE	None	2884	None	None	80744772	80782181	-1	None	TXDI2, SelY
14	DIO2	ENSG00000211448	ENST00000422005	protein_coding	KNOWN	None	2884	399	132	80668633	80682502	-1	None	TXDI2, SelY
7	KLF14	ENSG00000174595	ENST00000310992	protein_coding	KNOWN	CCDS5825	23025	972	323	130417401	130418888	-1	None	BTEB5
HSCHR6_MHC_MCF	HLA-G	ENSG00000237216	ENST00000450984	protein_coding	PUTATIVE	None	4964	1032	343	29791626	29795784	1	None	None
HSCHR6_MHC_MCF	HLA-G	ENSG00000237216	ENST00000449127	protein_coding	KNOWN	None	4964	1017	338	29792480	29795784	1	None	None
HSCHR6_MHC_MCF	HLA-G	ENSG00000237216	ENST00000494247	retained_intron	KNOWN	None	4964	None	None	29792504	29795784	1	None	None
HSCHR6_MHC_MCF	HLA-G	ENSG00000237216	ENST00000412263	protein_coding	NOVEL	None	4964	741	246	29792504	29795784	1	None	None
HSCHR6_MHC_MCF	HLA-G	ENSG00000237216	ENST00000466488	nonsense_mediated_decay	KNOWN	None	4964	741	246	29792504	29795784	1	None	None
HSCHR6_MHC_MCF	HLA-G	ENSG00000237216	ENST00000415687	protein_coding	NOVEL	None	4964	465	154	29792504	29795784	1	None	None
HSCHR6_MHC_MCF	HLA-G	ENSG00000237216	ENST00000547931	protein_coding	KNOWN	None	4964	1017	338	29791638	29795781	1	None	None
3	C3orf80	ENSG00000180044	ENST00000326474	protein_coding	KNOWN	CCDS54667	40048	744	247	159943423	159945999	1	None	None
15	MIR4312	ENSG00000265195	ENST00000579909	miRNA	KNOWN	None	38376	None	None	69094189	69094264	-1	None	hsa-mir-4312
9	RNU4ATAC15P	ENSG00000252224	ENST00000516415	snRNA	KNOWN	None	46901	None	None	33174168	33174293	1	None	None
11	KCNJ1	ENSG00000151704	ENST00000392665	protein_coding	PUTATIVE	CCDS8477	6255	1119	372	128706210	128737191	-1	None	Kir1.1, ROMK1
11	KCNJ1	ENSG00000151704	ENST00000440599	protein_coding	NOVEL	CCDS8477	6255	1119	372	128707952	128737265	-1	None	Kir1.1, ROMK1
11	KCNJ1	ENSG00000151704	ENST00000324036	protein_coding	KNOWN	CCDS8477	6255	1119	372	128708050	128737268	-1	None	Kir1.1, ROMK1
11	KCNJ1	ENSG00000151704	ENST00000392664	protein_coding	KNOWN	CCDS8476	6255	1176	391	128708639	128712429	-1	None	Kir1.1, ROMK1
11	KCNJ1	ENSG00000151704	ENST00000324003	protein_coding	PUTATIVE	None	6255	418	138	128709721	128737176	-1	None	Kir1.1, ROMK1
11	KCNJ1	ENSG00000151704	ENST00000531562	retained_intron	KNOWN	None	6255	None	None	128709959	128737191	-1	None	Kir1.1, ROMK1
11	KCNJ1	ENSG00000151704	ENST00000392666	protein_coding	KNOWN	CCDS8477	6255	1119	372	128707915	128737268	-1	None	Kir1.1, ROMK1
8	None	ENSG00000253341	ENST00000517662	processed_pseudogene	KNOWN	None	None	None	None	75515479	75516479	-1	None	None
9	None	ENSG00000200544	ENST00000363674	misc_RNA	NOVEL	None	None	None	None	33352786	33352872	-1	None	None
8	None	ENSG00000254683	ENST00000528310	processed_pseudogene	KNOWN	None	None	None	None	7001154	7001363	-1	None	None
6	RNU6-824P	ENSG00000200594	ENST00000363724	snRNA	KNOWN	None	47787	None	None	155146310	155146413	-1	None	None
9	None	ENSG00000223678	ENST00000450864	antisense	KNOWN	None	None	None	None	33402855	33409946	1	None	None
20	MIR646	ENSG00000207802	ENST00000385067	miRNA	KNOWN	None	32902	None	None	58883532	58883625	1	MIRN646	hsa-mir-646
6	None	ENSG00000218757	ENST00000404382	processed_pseudogene	KNOWN	None	None	None	None	155166208	155166754	-1	None	None
9	None	ENSG00000270542	ENST00000605264	processed_pseudogene	KNOWN	None	None	None	None	33449753	33449939	1	None	None
14	None	ENSG00000258557	ENST00000556398	processed_pseudogene	KNOWN	None	None	None	None	22431047	22431270	-1	None	None
15	None	ENSG00000259286	ENST00000560974	processed_pseudogene	KNOWN	None	None	None	None	69126169	69127088	1	None	None
1	KLHL21	ENSG00000162413	ENST00000377658	protein_coding	KNOWN	CCDS30575	29041	1794	597	6650784	6662929	-1	None	KIAA0469
1	KLHL21	ENSG00000162413	ENST00000377663	protein_coding	PUTATIVE	None	29041	1620	539	6650784	6663061	-1	None	KIAA0469
1	KLHL21	ENSG00000162413	ENST00000467612	protein_coding	PUTATIVE	None	29041	693	230	6653253	6674620	-1	None	KIAA0469
1	KLHL21	ENSG00000162413	ENST00000496707	protein_coding	PUTATIVE	None	29041	677	224	6653441	6659876	-1	None	KIAA0469
1	KLHL21	ENSG00000162413	ENST00000463043	protein_coding	PUTATIVE	None	29041	402	133	6654141	6674667	-1	None	KIAA0469
X	RNU6-309P	ENSG00000201443	ENST00000364573	snRNA	KNOWN	None	47272	None	None	108069994	108070099	1	None	None
3	TMEM41A	ENSG00000163900	ENST00000382227	nonsense_mediated_decay	KNOWN	None	30544	300	99	185194284	185216823	-1	None	MGC15397
3	TMEM41A	ENSG00000163900	ENST00000475480	processed_transcript	KNOWN	None	30544	None	None	185197948	185216773	-1	None	MGC15397
3	TMEM41A	ENSG00000163900	ENST00000484062	processed_transcript	KNOWN	None	30544	None	None	185200459	185207815	-1	None	MGC15397
3	TMEM41A	ENSG00000163900	ENST00000421852	protein_coding	KNOWN	CCDS3271	30544	795	264	185207389	185216845	-1	None	MGC15397
3	TMEM41A	ENSG00000163900	ENST00000296254	protein_coding	PUTATIVE	None	30544	279	92	185208785	185216775	-1	None	MGC15397
3	TMEM41A	ENSG00000163900	ENST00000467061	retained_intron	KNOWN	None	30544	None	None	185210064	185216845	-1	None	MGC15397
3	TMEM41A	ENSG00000163900	ENST00000467520	processed_transcript	PUTATIVE	None	30544	None	None	185213016	185216510	-1	None	MGC15397
Y	OFD1P4Y	ENSG00000229406	ENST00000455273	unprocessed_pseudogene	KNOWN	None	23876	None	None	20615036	20634023	-1	OFDYP4, OFD1P4, OFD1PY4	None
3	None	ENSG00000248710	ENST00000483754	nonsense_mediated_decay	KNOWN	None	None	2847	948	159945241	160167617	-1	None	None
14	None	ENSG00000258705	ENST00000553572	processed_pseudogene	KNOWN	None	None	None	None	22480149	22483203	1	None	None
8	None	ENSG00000254080	ENST00000522127	antisense	KNOWN	None	None	None	None	75521933	75545555	-1	None	None
9	None	ENSG00000226823	ENST00000379514	unprocessed_pseudogene	KNOWN	None	None	None	None	33503653	33510709	-1	None	None
20	MTCO2P1	ENSG00000229690	ENST00000424648	processed_pseudogene	KNOWN	None	16564	None	None	58989454	58989930	-1	MTCO2L	dJ342K12.1
3	GYG1	ENSG00000163754	ENST00000345003	protein_coding	KNOWN	CCDS3139	4699	1053	350	148709128	148745419	1	GYG	None
3	GYG1	ENSG00000163754	ENST00000296048	protein_coding	KNOWN	CCDS54654	4699	1002	333	148709239	148745419	1	GYG	None
3	GYG1	ENSG00000163754	ENST00000483267	protein_coding	PUTATIVE	None	4699	582	193	148709299	148742042	1	GYG	None
3	GYG1	ENSG00000163754	ENST00000478067	processed_transcript	KNOWN	None	4699	None	None	148709327	148714634	1	GYG	None
3	GYG1	ENSG00000163754	ENST00000484197	protein_coding	PUTATIVE	CCDS54655	4699	840	279	148709345	148745418	1	GYG	None
3	GYG1	ENSG00000163754	ENST00000492285	protein_coding	PUTATIVE	None	4699	331	109	148709355	148714679	1	GYG	None
3	GYG1	ENSG00000163754	ENST00000461191	protein_coding	NOVEL	None	4699	797	264	148709359	148742040	1	GYG	None
3	GYG1	ENSG00000163754	ENST00000473005	protein_coding	PUTATIVE	None	4699	180	59	148710158	148714263	1	GYG	None
3	GYG1	ENSG00000163754	ENST00000465547	processed_transcript	PUTATIVE	None	4699	None	None	148711999	148714547	1	GYG	None
3	GYG1	ENSG00000163754	ENST00000497528	processed_transcript	PUTATIVE	None	4699	None	None	148714618	148727176	1	GYG	None
3	GYG1	ENSG00000163754	ENST00000488851	processed_transcript	KNOWN	None	4699	None	None	148718721	148726063	1	GYG	None
3	GYG1	ENSG00000163754	ENST00000479119	processed_transcript	PUTATIVE	None	4699	None	None	148721741	148745134	1	GYG	None
3	GYG1	ENSG00000163754	ENST00000469873	retained_intron	KNOWN	None	4699	None	None	148726668	148742021	1	GYG	None
19	GIPC1	ENSG00000123159	ENST00000393033	protein_coding	KNOWN	CCDS12310	1226	1002	333	14588574	14606944	-1	C19orf3, RGS19IP1	TIP-2, Hs.6454, GIPC, SEMCAP, GLUT1CBP, SYNECTIN, NIP
19	GIPC1	ENSG00000123159	ENST00000345425	protein_coding	KNOWN	CCDS12310	1226	1002	333	14588574	14606944	-1	C19orf3, RGS19IP1	TIP-2, Hs.6454, GIPC, SEMCAP, GLUT1CBP, SYNECTIN, NIP
19	GIPC1	ENSG00000123159	ENST00000585606	retained_intron	KNOWN	None	1226	None	None	14588576	14591408	-1	C19orf3, RGS19IP1	TIP-2, Hs.6454, GIPC, SEMCAP, GLUT1CBP, SYNECTIN, NIP
19	GIPC1	ENSG00000123159	ENST00000589631	protein_coding	NOVEL	None	1226	387	128	14588816	14590669	-1	C19orf3, RGS19IP1	TIP-2, Hs.6454, GIPC, SEMCAP, GLUT1CBP, SYNECTIN, NIP
19	GIPC1	ENSG00000123159	ENST00000586027	protein_coding	KNOWN	CCDS12310	1226	1002	333	14589058	14606944	-1	C19orf3, RGS19IP1	TIP-2, Hs.6454, GIPC, SEMCAP, GLUT1CBP, SYNECTIN, NIP
19	GIPC1	ENSG00000123159	ENST00000591349	protein_coding	KNOWN	CCDS12311	1226	711	236	14589058	14606944	-1	C19orf3, RGS19IP1	TIP-2, Hs.6454, GIPC, SEMCAP, GLUT1CBP, SYNECTIN, NIP
19	GIPC1	ENSG00000123159	ENST00000589497	nonsense_mediated_decay	KNOWN	None	1226	189	62	14589068	14606864	-1	C19orf3, RGS19IP1	TIP-2, Hs.6454, GIPC, SEMCAP, GLUT1CBP, SYNECTIN, NIP
19	GIPC1	ENSG00000123159	ENST00000587210	protein_coding	KNOWN	None	1226	477	158	14590224	14606944	-1	C19orf3, RGS19IP1	TIP-2, Hs.6454, GIPC, SEMCAP, GLUT1CBP, SYNECTIN, NIP
19	GIPC1	ENSG00000123159	ENST00000587969	protein_coding	KNOWN	None	1226	363	120	14591118	14591708	-1	C19orf3, RGS19IP1	TIP-2, Hs.6454, GIPC, SEMCAP, GLUT1CBP, SYNECTIN, NIP
19	GIPC1	ENSG00000123159	ENST00000587811	retained_intron	KNOWN	None	1226	None	None	14592559	14594275	-1	C19orf3, RGS19IP1	TIP-2, Hs.6454, GIPC, SEMCAP, GLUT1CBP, SYNECTIN, NIP
19	GIPC1	ENSG00000123159	ENST00000587934	protein_coding	KNOWN	None	1226	121	39	14593668	14602555	-1	C19orf3, RGS19IP1	TIP-2, Hs.6454, GIPC, SEMCAP, GLUT1CBP, SYNECTIN, NIP
19	GIPC1	ENSG00000123159	ENST00000591245	protein_coding	KNOWN	None	1226	120	39	14593669	14594257	-1	C19orf3, RGS19IP1	TIP-2, Hs.6454, GIPC, SEMCAP, GLUT1CBP, SYNECTIN, NIP
19	GIPC1	ENSG00000123159	ENST00000393029	protein_coding	KNOWN	CCDS12311	1226	711	236	14588572	14606944	-1	C19orf3, RGS19IP1	TIP-2, Hs.6454, GIPC, SEMCAP, GLUT1CBP, SYNECTIN, NIP
19	GIPC1	ENSG00000123159	ENST00000393028	protein_coding	KNOWN	CCDS12311	1226	711	236	14588572	14606944	-1	C19orf3, RGS19IP1	TIP-2, Hs.6454, GIPC, SEMCAP, GLUT1CBP, SYNECTIN, NIP
19	CCDC8	ENSG00000169515	ENST00000307522	protein_coding	KNOWN	CCDS12685	25367	1617	538	46913629	46916841	-1	None	DKFZp564K0322, 3M3, PPP1R20
15	None	ENSG00000137808	ENST00000557966	retained_intron	KNOWN	None	None	None	None	69222843	69321229	1	None	None
HSCHR6_MHC_SSTO	HLA-DRB1	ENSG00000228080	ENST00000419393	protein_coding	KNOWN	None	4948	801	266	32637568	32652274	-1	HLA-DR1B	None
HSCHR6_MHC_SSTO	HLA-DRB1	ENSG00000228080	ENST00000412634	protein_coding	KNOWN	None	4948	751	249	32639841	32670792	-1	HLA-DR1B	None
HSCHR6_MHC_SSTO	HLA-DRB1	ENSG00000228080	ENST00000553034	protein_coding	KNOWN	None	4948	891	296	32638215	32652269	-1	HLA-DR1B	None
15	None	ENSG00000259745	ENST00000558160	transcribed_processed_pseudogene	KNOWN	None	None	None	None	69314569	69316516	1	None	None
Y	USP9YP14	ENSG00000227494	ENST00000430663	unprocessed_pseudogene	KNOWN	None	38748	None	None	20642973	20649286	1	None	None
8	None	ENSG00000230106	ENST00000424055	processed_pseudogene	KNOWN	None	None	None	None	7028072	7028263	1	None	None
9	PTGR1	ENSG00000106853	ENST00000466771	nonsense_mediated_decay	KNOWN	None	18429	357	118	114324857	114341180	-1	LTB4DH	ZADH3
9	PTGR1	ENSG00000106853	ENST00000309195	protein_coding	KNOWN	CCDS6779	18429	990	329	114325247	114361687	-1	LTB4DH	ZADH3
9	PTGR1	ENSG00000106853	ENST00000374324	nonsense_mediated_decay	KNOWN	None	18429	222	73	114325253	114359712	-1	LTB4DH	ZADH3
9	PTGR1	ENSG00000106853	ENST00000422125	protein_coding	NOVEL	None	18429	358	118	114345832	114361975	-1	LTB4DH	ZADH3
9	PTGR1	ENSG00000106853	ENST00000374313	retained_intron	KNOWN	None	18429	None	None	114354578	114362096	-1	LTB4DH	ZADH3
9	PTGR1	ENSG00000106853	ENST00000374308	retained_intron	KNOWN	None	18429	None	None	114354647	114361687	-1	LTB4DH	ZADH3
9	PTGR1	ENSG00000106853	ENST00000485319	retained_intron	KNOWN	None	18429	None	None	114354971	114359693	-1	LTB4DH	ZADH3
9	PTGR1	ENSG00000106853	ENST00000538962	protein_coding	KNOWN	CCDS55331	18429	906	301	114312002	114362135	-1	LTB4DH	ZADH3
9	PTGR1	ENSG00000106853	ENST00000407693	protein_coding	KNOWN	CCDS6779	18429	990	329	114325247	114362135	-1	LTB4DH	ZADH3
9	PTGR1	ENSG00000106853	ENST00000238248	protein_coding	KNOWN	None	18429	534	177	114326519	114362135	-1	LTB4DH	ZADH3
1	LMX1A	ENSG00000162761	ENST00000342310	protein_coding	KNOWN	CCDS1247	6653	1149	382	165171104	165325952	-1	LMX1	LMX1.1
1	LMX1A	ENSG00000162761	ENST00000294816	protein_coding	KNOWN	CCDS1247	6653	1149	382	165171110	165325478	-1	LMX1	LMX1.1
1	LMX1A	ENSG00000162761	ENST00000489443	processed_transcript	KNOWN	None	6653	None	None	165172645	165182517	-1	LMX1	LMX1.1
1	LMX1A	ENSG00000162761	ENST00000367893	protein_coding	KNOWN	CCDS1247	6653	1149	382	165173111	165324983	-1	LMX1	LMX1.1
8	None	ENSG00000253706	ENST00000523860	antisense	KNOWN	None	None	None	None	75711019	75779160	-1	None	None
8	None	ENSG00000253706	ENST00000518128	antisense	KNOWN	None	None	None	None	75728286	75779174	-1	None	None
8	None	ENSG00000253706	ENST00000522914	antisense	KNOWN	None	None	None	None	75757083	75779171	-1	None	None
5	OXCT1-AS1	ENSG00000248668	ENST00000508458	antisense	KNOWN	None	40423	None	None	41870132	41871059	1	None	None
5	OXCT1-AS1	ENSG00000248668	ENST00000510509	retained_intron	KNOWN	None	40423	None	None	41870222	41870818	1	None	None
1	None	ENSG00000215720	ENST00000400795	processed_pseudogene	KNOWN	None	None	None	None	15518324	15519341	-1	None	None
X	None	ENSG00000226958	ENST00000419932	processed_pseudogene	KNOWN	None	None	None	None	108297361	108297792	-1	None	None
19	PNMAL1	ENSG00000182013	ENST00000438932	protein_coding	KNOWN	CCDS46124	25578	1137	378	46969748	46974664	-1	None	KIAA1183L, FLJ10781
19	PNMAL1	ENSG00000182013	ENST00000313683	protein_coding	KNOWN	CCDS33059	25578	1320	439	46969755	46974820	-1	None	KIAA1183L, FLJ10781
19	PNMAL1	ENSG00000182013	ENST00000602246	protein_coding	NOVEL	None	25578	255	84	46971785	46974820	-1	None	KIAA1183L, FLJ10781
8	RPS3AP33	ENSG00000214268	ENST00000397972	processed_pseudogene	KNOWN	None	35476	None	None	7048423	7049085	-1	None	None
17	FAM64A	ENSG00000129195	ENST00000572447	protein_coding	KNOWN	CCDS32541	25483	717	238	6347735	6354789	1	None	FLJ10156, FLJ10491, CATS
17	FAM64A	ENSG00000129195	ENST00000250056	protein_coding	KNOWN	CCDS56016	25483	747	248	6347761	6354385	1	None	FLJ10156, FLJ10491, CATS
17	FAM64A	ENSG00000129195	ENST00000573557	nonsense_mediated_decay	KNOWN	None	25483	537	178	6347762	6353761	1	None	FLJ10156, FLJ10491, CATS
17	FAM64A	ENSG00000129195	ENST00000571373	protein_coding	PUTATIVE	None	25483	744	247	6347763	6353258	1	None	FLJ10156, FLJ10491, CATS
17	FAM64A	ENSG00000129195	ENST00000570337	protein_coding	PUTATIVE	None	25483	744	247	6347763	6353685	1	None	FLJ10156, FLJ10491, CATS
17	FAM64A	ENSG00000129195	ENST00000572595	protein_coding	NOVEL	None	25483	840	279	6347766	6354375	1	None	FLJ10156, FLJ10491, CATS
17	FAM64A	ENSG00000129195	ENST00000576056	protein_coding	NOVEL	CCDS32541	25483	717	238	6347795	6353611	1	None	FLJ10156, FLJ10491, CATS
17	FAM64A	ENSG00000129195	ENST00000573385	retained_intron	KNOWN	None	25483	None	None	6350667	6352869	1	None	FLJ10156, FLJ10491, CATS
17	FAM64A	ENSG00000129195	ENST00000571572	protein_coding	NOVEL	None	25483	391	129	6350815	6353915	1	None	FLJ10156, FLJ10491, CATS
HSCHR6_MHC_COX	WDR46	ENSG00000204221	ENST00000484137	processed_transcript	PUTATIVE	None	13923	None	None	33168491	33169905	-1	C6orf11	BING4, UTP7
HSCHR6_MHC_COX	WDR46	ENSG00000204221	ENST00000461806	retained_intron	KNOWN	None	13923	None	None	33168491	33170234	-1	C6orf11	BING4, UTP7
HSCHR6_MHC_COX	WDR46	ENSG00000204221	ENST00000466026	processed_transcript	KNOWN	None	13923	None	None	33168491	33170294	-1	C6orf11	BING4, UTP7
HSCHR6_MHC_COX	WDR46	ENSG00000204221	ENST00000432933	protein_coding	KNOWN	None	13923	1833	610	33168491	33178914	-1	C6orf11	BING4, UTP7
HSCHR6_MHC_COX	WDR46	ENSG00000204221	ENST00000497444	retained_intron	KNOWN	None	13923	None	None	33168954	33176816	-1	C6orf11	BING4, UTP7
HSCHR6_MHC_COX	WDR46	ENSG00000204221	ENST00000456332	protein_coding	KNOWN	None	13923	968	321	33170299	33178274	-1	C6orf11	BING4, UTP7
HSCHR6_MHC_COX	WDR46	ENSG00000204221	ENST00000488244	retained_intron	KNOWN	None	13923	None	None	33176630	33177413	-1	C6orf11	BING4, UTP7
HSCHR6_MHC_COX	WDR46	ENSG00000204221	ENST00000495811	processed_transcript	KNOWN	None	13923	None	None	33176879	33178634	-1	C6orf11	BING4, UTP7
HSCHR6_MHC_COX	WDR46	ENSG00000204221	ENST00000497025	processed_transcript	KNOWN	None	13923	None	None	33177051	33178589	-1	C6orf11	BING4, UTP7
HSCHR6_MHC_COX	WDR46	ENSG00000204221	ENST00000498798	retained_intron	KNOWN	None	13923	None	None	33177443	33178399	-1	C6orf11	BING4, UTP7
7	C7orf65	ENSG00000221845	ENST00000408988	protein_coding	PUTATIVE	CCDS43580	34432	456	151	47694842	47701246	1	None	FLJ44108
14	TRAV26-1	ENSG00000211807	ENST00000390455	TR_V_gene	KNOWN	None	12123	328	108	22591276	22592243	1	None	None
14	None	ENSG00000259004	ENST00000557121	lincRNA	KNOWN	None	None	None	None	101587193	101589879	1	None	None
3	SSUH2	ENSG00000125046	ENST00000341795	protein_coding	KNOWN	CCDS2568	24809	1062	353	8661086	8693760	-1	C3orf32	fls485, ssu-2
3	SSUH2	ENSG00000125046	ENST00000413305	nonsense_mediated_decay	KNOWN	None	24809	471	156	8661092	8686480	-1	C3orf32	fls485, ssu-2
3	SSUH2	ENSG00000125046	ENST00000420394	nonsense_mediated_decay	KNOWN	None	24809	120	39	8661092	8693747	-1	C3orf32	fls485, ssu-2
3	SSUH2	ENSG00000125046	ENST00000455157	nonsense_mediated_decay	KNOWN	None	24809	255	84	8661269	8719094	-1	C3orf32	fls485, ssu-2
3	SSUH2	ENSG00000125046	ENST00000317371	protein_coding	KNOWN	CCDS2568	24809	1062	353	8661281	8723757	-1	C3orf32	fls485, ssu-2
3	SSUH2	ENSG00000125046	ENST00000495366	retained_intron	KNOWN	None	24809	None	None	8661286	8681701	-1	C3orf32	fls485, ssu-2
3	SSUH2	ENSG00000125046	ENST00000435138	nonsense_mediated_decay	KNOWN	None	24809	258	85	8661287	8786722	-1	C3orf32	fls485, ssu-2
3	SSUH2	ENSG00000125046	ENST00000415132	protein_coding	KNOWN	None	24809	948	315	8661297	8700652	-1	C3orf32	fls485, ssu-2
3	SSUH2	ENSG00000125046	ENST00000492435	processed_transcript	KNOWN	None	24809	None	None	8669341	8675401	-1	C3orf32	fls485, ssu-2
3	SSUH2	ENSG00000125046	ENST00000427408	protein_coding	PUTATIVE	None	24809	519	172	8672497	8686484	-1	C3orf32	fls485, ssu-2
3	SSUH2	ENSG00000125046	ENST00000466215	processed_transcript	KNOWN	None	24809	None	None	8673762	8719038	-1	C3orf32	fls485, ssu-2
3	SSUH2	ENSG00000125046	ENST00000484585	processed_transcript	KNOWN	None	24809	None	None	8673767	8686484	-1	C3orf32	fls485, ssu-2
3	SSUH2	ENSG00000125046	ENST00000483845	processed_transcript	KNOWN	None	24809	None	None	8675567	8686480	-1	C3orf32	fls485, ssu-2
3	SSUH2	ENSG00000125046	ENST00000470009	processed_transcript	KNOWN	None	24809	None	None	8705427	8723765	-1	C3orf32	fls485, ssu-2
3	SSUH2	ENSG00000125046	ENST00000464494	processed_transcript	KNOWN	None	24809	None	None	8705430	8719089	-1	C3orf32	fls485, ssu-2
3	SSUH2	ENSG00000125046	ENST00000478513	processed_transcript	KNOWN	None	24809	None	None	8732321	8786726	-1	C3orf32	fls485, ssu-2
3	SSUH2	ENSG00000125046	ENST00000544814	protein_coding	KNOWN	CCDS58815	24809	1128	375	8661540	8686484	-1	C3orf32	fls485, ssu-2
X	None	ENSG00000215000	ENST00000399414	processed_pseudogene	KNOWN	None	None	None	None	108585042	108585926	1	None	None
X	None	ENSG00000215000	ENST00000540381	processed_pseudogene	KNOWN	None	None	None	None	108585421	108585860	1	None	None
15	None	ENSG00000259265	ENST00000559495	antisense	KNOWN	None	None	None	None	69329889	69335905	-1	None	None
6	ARG1	ENSG00000118520	ENST00000368087	protein_coding	KNOWN	CCDS5145	663	969	322	131894284	131905472	1	None	None
6	ARG1	ENSG00000118520	ENST00000469293	processed_transcript	KNOWN	None	663	None	None	131894334	131900582	1	None	None
6	ARG1	ENSG00000118520	ENST00000356962	protein_coding	KNOWN	CCDS59038	663	993	330	131894365	131905465	1	None	None
6	ARG1	ENSG00000118520	ENST00000275196	processed_transcript	KNOWN	None	663	None	None	131894366	131904538	1	None	None
6	ARG1	ENSG00000118520	ENST00000476845	protein_coding	KNOWN	None	663	711	236	131894366	131905465	1	None	None
6	ARG1	ENSG00000118520	ENST00000498260	processed_transcript	KNOWN	None	663	None	None	131894382	131900805	1	None	None
6	ARG1	ENSG00000118520	ENST00000492505	processed_transcript	KNOWN	None	663	None	None	131894385	131902440	1	None	None
6	ARG1	ENSG00000118520	ENST00000473794	processed_transcript	KNOWN	None	663	None	None	131894392	131904566	1	None	None
6	ARG1	ENSG00000118520	ENST00000484820	processed_transcript	KNOWN	None	663	None	None	131897774	131900558	1	None	None
1	BRDT	ENSG00000137948	ENST00000362005	protein_coding	KNOWN	CCDS735	1105	2844	947	92414928	92479978	1	None	BRD6, CT9
1	BRDT	ENSG00000137948	ENST00000370389	protein_coding	PUTATIVE	CCDS55616	1105	2625	874	92414928	92479978	1	None	BRD6, CT9
1	BRDT	ENSG00000137948	ENST00000423434	protein_coding	KNOWN	None	1105	530	175	92414929	92441907	1	None	BRD6, CT9
1	BRDT	ENSG00000137948	ENST00000440509	protein_coding	KNOWN	None	1105	601	199	92414941	92441978	1	None	BRD6, CT9
1	BRDT	ENSG00000137948	ENST00000461218	processed_transcript	KNOWN	None	1105	None	None	92414955	92415856	1	None	BRD6, CT9
1	BRDT	ENSG00000137948	ENST00000470955	processed_transcript	KNOWN	None	1105	None	None	92414955	92415859	1	None	BRD6, CT9
1	BRDT	ENSG00000137948	ENST00000476711	processed_transcript	KNOWN	None	1105	None	None	92414955	92415889	1	None	BRD6, CT9
1	BRDT	ENSG00000137948	ENST00000449584	protein_coding	KNOWN	None	1105	156	51	92414955	92428467	1	None	BRD6, CT9
1	BRDT	ENSG00000137948	ENST00000427104	protein_coding	KNOWN	None	1105	466	154	92414955	92441843	1	None	BRD6, CT9
1	BRDT	ENSG00000137948	ENST00000355011	protein_coding	KNOWN	None	1105	42	13	92414958	92428353	1	None	BRD6, CT9
1	BRDT	ENSG00000137948	ENST00000448194	protein_coding	KNOWN	None	1105	466	154	92414958	92441843	1	None	BRD6, CT9
1	BRDT	ENSG00000137948	ENST00000426141	protein_coding	KNOWN	None	1105	1388	461	92414958	92446300	1	None	BRD6, CT9
1	BRDT	ENSG00000137948	ENST00000484833	processed_transcript	KNOWN	None	1105	None	None	92414960	92415869	1	None	BRD6, CT9
1	BRDT	ENSG00000137948	ENST00000450792	protein_coding	KNOWN	None	1105	288	95	92414960	92430279	1	None	BRD6, CT9
1	BRDT	ENSG00000137948	ENST00000548992	protein_coding	KNOWN	None	1105	301	99	92414960	92430292	1	None	BRD6, CT9
1	BRDT	ENSG00000137948	ENST00000552654	protein_coding	PUTATIVE	None	1105	190	62	92414960	92433781	1	None	BRD6, CT9
1	BRDT	ENSG00000137948	ENST00000457265	protein_coding	KNOWN	None	1105	95	30	92414991	92428406	1	None	BRD6, CT9
1	BRDT	ENSG00000137948	ENST00000402388	protein_coding	KNOWN	CCDS735	1105	2844	947	92417719	92479978	1	None	BRD6, CT9
1	BRDT	ENSG00000137948	ENST00000484781	processed_transcript	KNOWN	None	1105	None	None	92442638	92445160	1	None	BRD6, CT9
1	BRDT	ENSG00000137948	ENST00000399546	protein_coding	KNOWN	CCDS735	1105	2844	947	92414928	92479983	1	None	BRD6, CT9
1	BRDT	ENSG00000137948	ENST00000394530	protein_coding	KNOWN	CCDS55615	1105	2706	901	92414929	92479975	1	None	BRD6, CT9
13	RN7SL413P	ENSG00000242893	ENST00000482700	misc_RNA	KNOWN	None	46429	None	None	52168057	52168351	-1	None	None
19	None	ENSG00000248015	ENST00000501448	antisense	KNOWN	None	None	None	None	1392169	1396466	-1	None	None
19	None	ENSG00000248015	ENST00000585596	antisense	KNOWN	None	None	None	None	1393565	1394866	-1	None	None
19	None	ENSG00000248015	ENST00000589734	antisense	KNOWN	None	None	None	None	1393577	1394877	-1	None	None
7	FASTK	ENSG00000164896	ENST00000489884	processed_transcript	KNOWN	None	24676	None	None	150773711	150777881	-1	None	FAST
7	FASTK	ENSG00000164896	ENST00000465272	retained_intron	KNOWN	None	24676	None	None	150773713	150774242	-1	None	FAST
7	FASTK	ENSG00000164896	ENST00000467237	retained_intron	KNOWN	None	24676	None	None	150773713	150777583	-1	None	FAST
7	FASTK	ENSG00000164896	ENST00000353841	protein_coding	KNOWN	CCDS5919	24676	1227	408	150773713	150777929	-1	None	FAST
7	FASTK	ENSG00000164896	ENST00000297532	protein_coding	KNOWN	CCDS5918	24676	1650	549	150773713	150777931	-1	None	FAST
7	FASTK	ENSG00000164896	ENST00000482571	protein_coding	NOVEL	CCDS59088	24676	1569	522	150773713	150777949	-1	None	FAST
7	FASTK	ENSG00000164896	ENST00000460980	retained_intron	KNOWN	None	24676	None	None	150773716	150777953	-1	None	FAST
7	FASTK	ENSG00000164896	ENST00000469237	retained_intron	KNOWN	None	24676	None	None	150773725	150776415	-1	None	FAST
7	FASTK	ENSG00000164896	ENST00000482806	retained_intron	KNOWN	None	24676	None	None	150773733	150777877	-1	None	FAST
7	FASTK	ENSG00000164896	ENST00000483953	retained_intron	KNOWN	None	24676	None	None	150773742	150775998	-1	None	FAST
7	FASTK	ENSG00000164896	ENST00000466855	retained_intron	KNOWN	None	24676	None	None	150773803	150776466	-1	None	FAST
7	FASTK	ENSG00000164896	ENST00000459800	retained_intron	KNOWN	None	24676	None	None	150774078	150774599	-1	None	FAST
7	FASTK	ENSG00000164896	ENST00000478477	processed_transcript	KNOWN	None	24676	None	None	150774786	150777018	-1	None	FAST
7	FASTK	ENSG00000164896	ENST00000461979	processed_transcript	KNOWN	None	24676	None	None	150774859	150777933	-1	None	FAST
7	FASTK	ENSG00000164896	ENST00000478883	retained_intron	KNOWN	None	24676	None	None	150774962	150776136	-1	None	FAST
7	FASTK	ENSG00000164896	ENST00000496663	processed_transcript	KNOWN	None	24676	None	None	150776585	150777916	-1	None	FAST
7	FASTK	ENSG00000164896	ENST00000540185	protein_coding	KNOWN	None	24676	480	159	150773713	150777880	-1	None	FAST
14	None	ENSG00000206761	ENST00000384034	snoRNA	NOVEL	None	None	None	None	101611818	101612032	-1	None	None
13	ATP5F1P1	ENSG00000224451	ENST00000433775	processed_pseudogene	KNOWN	None	39742	None	None	52172552	52173596	1	None	None
14	None	ENSG00000258681	ENST00000555951	processed_pseudogene	KNOWN	None	None	None	None	101683709	101684578	-1	None	None
HSCHR6_MHC_MCF	DPCR1	ENSG00000257232	ENST00000548730	protein_coding	KNOWN	None	21666	2667	888	30987293	30997453	1	None	PBLT, bCX105N19.6
6	GNMT	ENSG00000124713	ENST00000372808	protein_coding	KNOWN	CCDS4876	4415	888	295	42928496	42931618	1	None	None
13	None	ENSG00000231856	ENST00000456688	antisense	KNOWN	None	None	None	None	52378433	52387356	1	None	None
22	EP300	ENSG00000100393	ENST00000263253	protein_coding	KNOWN	CCDS14010	3373	7245	2414	41487790	41576081	1	None	p300, KAT3B
8	None	ENSG00000221567	ENST00000408640	miRNA	NOVEL	None	None	None	None	7055962	7056110	1	None	None
13	CTAGE3P	ENSG00000232872	ENST00000454280	processed_pseudogene	KNOWN	None	24348	None	None	52482354	52484757	-1	CTAGE3	cTAGE-3
12	PUS1	ENSG00000177192	ENST00000443358	protein_coding	KNOWN	CCDS31928	15508	1200	399	132413745	132428404	1	None	None
12	PUS1	ENSG00000177192	ENST00000376649	protein_coding	KNOWN	CCDS9275	15508	1284	427	132413768	132428404	1	None	None
12	PUS1	ENSG00000177192	ENST00000322060	protein_coding	KNOWN	None	15508	1153	383	132413787	132426529	1	None	None
12	PUS1	ENSG00000177192	ENST00000542167	protein_coding	PUTATIVE	None	15508	1125	374	132413821	132428404	1	None	None
12	PUS1	ENSG00000177192	ENST00000538037	protein_coding	KNOWN	None	15508	461	152	132413827	132423821	1	None	None
12	PUS1	ENSG00000177192	ENST00000544662	retained_intron	KNOWN	None	15508	None	None	132413849	132417225	1	None	None
12	PUS1	ENSG00000177192	ENST00000456665	protein_coding	NOVEL	None	15508	469	155	132413852	132417378	1	None	None
12	PUS1	ENSG00000177192	ENST00000544213	protein_coding	NOVEL	None	15508	553	183	132414134	132417378	1	None	None
12	PUS1	ENSG00000177192	ENST00000535067	protein_coding	NOVEL	None	15508	405	134	132414300	132428402	1	None	None
12	PUS1	ENSG00000177192	ENST00000537484	protein_coding	NOVEL	None	15508	600	199	132414310	132425967	1	None	None
12	PUS1	ENSG00000177192	ENST00000543754	retained_intron	KNOWN	None	15508	None	None	132425472	132428404	1	None	None
12	PUS1	ENSG00000177192	ENST00000440818	protein_coding	KNOWN	CCDS31928	15508	1200	399	132413798	132428406	1	None	None
8	None	ENSG00000231930	ENST00000436691	processed_pseudogene	KNOWN	None	None	None	None	7058278	7058379	1	None	None
12	None	ENSG00000255639	ENST00000543979	retained_intron	KNOWN	None	None	None	None	4766800	4835972	1	None	None
12	None	ENSG00000255639	ENST00000544741	nonsense_mediated_decay	KNOWN	None	None	252	83	4778907	4853747	1	None	None
13	FABP5P2	ENSG00000236044	ENST00000439042	processed_pseudogene	KNOWN	None	31060	None	None	52540878	52541285	1	FABP5L2	None
14	None	ENSG00000238634	ENST00000458941	miRNA	NOVEL	None	None	None	None	22610887	22610964	1	None	None
15	LINC00277	ENSG00000212766	ENST00000415504	lincRNA	KNOWN	None	26596	None	None	69365266	69388147	1	TMEM84, NCRNA00277	FLJ33768
15	LINC00277	ENSG00000212766	ENST00000559914	lincRNA	KNOWN	None	26596	None	None	69365278	69367206	1	TMEM84, NCRNA00277	FLJ33768
15	LINC00277	ENSG00000212766	ENST00000558369	lincRNA	KNOWN	None	26596	None	None	69365280	69383413	1	TMEM84, NCRNA00277	FLJ33768
15	LINC00277	ENSG00000212766	ENST00000558922	lincRNA	KNOWN	None	26596	None	None	69366759	69388160	1	TMEM84, NCRNA00277	FLJ33768
15	LINC00277	ENSG00000212766	ENST00000559964	lincRNA	KNOWN	None	26596	None	None	69366924	69384099	1	TMEM84, NCRNA00277	FLJ33768
15	LINC00277	ENSG00000212766	ENST00000558147	lincRNA	KNOWN	None	26596	None	None	69373190	69383734	1	TMEM84, NCRNA00277	FLJ33768
15	LINC00277	ENSG00000212766	ENST00000440444	lincRNA	KNOWN	None	26596	None	None	69373202	69388147	1	TMEM84, NCRNA00277	FLJ33768
15	LINC00277	ENSG00000212766	ENST00000435479	lincRNA	KNOWN	None	26596	None	None	69373210	69387595	1	TMEM84, NCRNA00277	FLJ33768
8	ODF1	ENSG00000155087	ENST00000285402	protein_coding	KNOWN	CCDS6293	8113	753	250	103563800	103573216	1	None	ODFPG, ODF27, RT7, HSPB10, CT133
8	ODF1	ENSG00000155087	ENST00000518835	protein_coding	PUTATIVE	None	8113	132	43	103572690	103573245	1	None	ODFPG, ODF27, RT7, HSPB10, CT133
14	TRAV28	ENSG00000258835	ENST00000557548	TR_V_pseudogene	KNOWN	None	12126	None	None	22623012	22623571	1	None	None
20	MIR4533	ENSG00000266140	ENST00000581943	miRNA	KNOWN	None	41886	None	None	59053169	59053239	1	None	hsa-mir-4533
19	KLK11	ENSG00000167757	ENST00000600362	protein_coding	NOVEL	None	6359	330	109	51525472	51529858	-1	PRSS20	TLSP
19	KLK11	ENSG00000167757	ENST00000319720	protein_coding	KNOWN	CCDS12819	6359	753	250	51525487	51531295	-1	PRSS20	TLSP
19	KLK11	ENSG00000167757	ENST00000594768	protein_coding	KNOWN	CCDS12818	6359	849	282	51525489	51530959	-1	PRSS20	TLSP
19	KLK11	ENSG00000167757	ENST00000593681	protein_coding	PUTATIVE	None	6359	424	140	51525492	51527467	-1	PRSS20	TLSP
19	KLK11	ENSG00000167757	ENST00000453757	protein_coding	KNOWN	CCDS12819	6359	753	250	51525492	51529870	-1	PRSS20	TLSP
19	KLK11	ENSG00000167757	ENST00000319756	nonsense_mediated_decay	KNOWN	None	6359	351	116	51525492	51530879	-1	PRSS20	TLSP
19	KLK11	ENSG00000167757	ENST00000391804	protein_coding	KNOWN	CCDS54297	6359	828	275	51525745	51531210	-1	PRSS20	TLSP
19	KLK11	ENSG00000167757	ENST00000594827	retained_intron	KNOWN	None	6359	None	None	51525946	51529872	-1	PRSS20	TLSP
19	KLK11	ENSG00000167757	ENST00000598799	protein_coding	KNOWN	None	6359	512	169	51526436	51529072	-1	PRSS20	TLSP
19	KLK11	ENSG00000167757	ENST00000594458	processed_transcript	KNOWN	None	6359	None	None	51527479	51530462	-1	PRSS20	TLSP
19	KLK11	ENSG00000167757	ENST00000601671	protein_coding	KNOWN	None	6359	205	67	51527559	51529872	-1	PRSS20	TLSP
1	HSPG2	ENSG00000142798	ENST00000486901	processed_transcript	KNOWN	None	5273	None	None	22148738	22157206	-1	SJS1	perlecan, PRCAN
1	HSPG2	ENSG00000142798	ENST00000374695	protein_coding	KNOWN	CCDS30625	5273	13176	4391	22148738	22263790	-1	SJS1	perlecan, PRCAN
1	HSPG2	ENSG00000142798	ENST00000481644	processed_transcript	KNOWN	None	5273	None	None	22149794	22150759	-1	SJS1	perlecan, PRCAN
1	HSPG2	ENSG00000142798	ENST00000469378	processed_transcript	KNOWN	None	5273	None	None	22159609	22160107	-1	SJS1	perlecan, PRCAN
1	HSPG2	ENSG00000142798	ENST00000426143	protein_coding	KNOWN	None	5273	563	186	22160031	22161840	-1	SJS1	perlecan, PRCAN
1	HSPG2	ENSG00000142798	ENST00000471322	processed_transcript	KNOWN	None	5273	None	None	22161646	22163410	-1	SJS1	perlecan, PRCAN
1	HSPG2	ENSG00000142798	ENST00000374676	protein_coding	KNOWN	None	5273	284	93	22161902	22165499	-1	SJS1	perlecan, PRCAN
1	HSPG2	ENSG00000142798	ENST00000453796	protein_coding	KNOWN	None	5273	621	206	22172689	22174451	-1	SJS1	perlecan, PRCAN
1	HSPG2	ENSG00000142798	ENST00000493940	processed_transcript	KNOWN	None	5273	None	None	22177804	22181149	-1	SJS1	perlecan, PRCAN
1	HSPG2	ENSG00000142798	ENST00000427897	protein_coding	KNOWN	None	5273	589	195	22199352	22201199	-1	SJS1	perlecan, PRCAN
1	HSPG2	ENSG00000142798	ENST00000498495	processed_transcript	KNOWN	None	5273	None	None	22200971	22201701	-1	SJS1	perlecan, PRCAN
1	HSPG2	ENSG00000142798	ENST00000480900	retained_intron	KNOWN	None	5273	None	None	22204007	22205567	-1	SJS1	perlecan, PRCAN
1	HSPG2	ENSG00000142798	ENST00000412328	protein_coding	KNOWN	None	5273	720	239	22213726	22222803	-1	SJS1	perlecan, PRCAN
1	HSPG2	ENSG00000142798	ENST00000374673	protein_coding	KNOWN	None	5273	538	178	22213728	22215214	-1	SJS1	perlecan, PRCAN
1	HSPG2	ENSG00000142798	ENST00000439717	protein_coding	KNOWN	None	5273	573	190	22216309	22222764	-1	SJS1	perlecan, PRCAN
1	HSPG2	ENSG00000142798	ENST00000430507	protein_coding	KNOWN	None	5273	489	162	22172716	22181889	-1	SJS1	perlecan, PRCAN
4	ARHGEF38-IT1	ENSG00000249885	ENST00000512262	sense_intronic	KNOWN	None	41483	None	None	106482748	106491395	1	None	None
15	None	ENSG00000270628	ENST00000604568	processed_pseudogene	KNOWN	None	None	None	None	23116383	23116940	1	None	None
7	MKLN1	ENSG00000128585	ENST00000421797	protein_coding	NOVEL	None	7109	1932	643	130794855	131172603	1	None	TWA2
7	MKLN1	ENSG00000128585	ENST00000416992	protein_coding	PUTATIVE	None	7109	378	125	130794899	131084143	1	None	TWA2
7	MKLN1	ENSG00000128585	ENST00000429546	protein_coding	PUTATIVE	None	7109	237	78	130969821	131084116	1	None	TWA2
7	MKLN1	ENSG00000128585	ENST00000446815	protein_coding	PUTATIVE	None	7109	291	96	131012605	131084056	1	None	TWA2
7	MKLN1	ENSG00000128585	ENST00000494286	processed_transcript	KNOWN	None	7109	None	None	131012615	131099462	1	None	TWA2
7	MKLN1	ENSG00000128585	ENST00000352689	protein_coding	KNOWN	CCDS34754	7109	2208	735	131012619	131181395	1	None	TWA2
7	MKLN1	ENSG00000128585	ENST00000494785	retained_intron	KNOWN	None	7109	None	None	131012642	131163719	1	None	TWA2
7	MKLN1	ENSG00000128585	ENST00000458153	nonsense_mediated_decay	KNOWN	None	7109	513	170	131012656	131172721	1	None	TWA2
7	MKLN1	ENSG00000128585	ENST00000498778	processed_transcript	KNOWN	None	7109	None	None	131148035	131175298	1	None	TWA2
7	MKLN1	ENSG00000128585	ENST00000497746	retained_intron	KNOWN	None	7109	None	None	131148084	131155937	1	None	TWA2
7	MKLN1	ENSG00000128585	ENST00000496815	processed_transcript	KNOWN	None	7109	None	None	131155597	131157026	1	None	TWA2
7	MKLN1	ENSG00000128585	ENST00000468830	retained_intron	KNOWN	None	7109	None	None	131163230	131172721	1	None	TWA2
19	LIPE	ENSG00000079435	ENST00000244289	protein_coding	KNOWN	CCDS12607	6621	3231	1076	42905659	42931578	-1	None	HSL
19	LIPE	ENSG00000079435	ENST00000597620	protein_coding	NOVEL	None	6621	915	304	42905968	42911378	-1	None	HSL
19	LIPE	ENSG00000079435	ENST00000599918	protein_coding	NOVEL	None	6621	824	273	42906189	42910471	-1	None	HSL
19	LIPE	ENSG00000079435	ENST00000600224	retained_intron	KNOWN	None	6621	None	None	42906825	42909989	-1	None	HSL
19	LIPE	ENSG00000079435	ENST00000602000	processed_transcript	KNOWN	None	6621	None	None	42911552	42927374	-1	None	HSL
19	LIPE	ENSG00000079435	ENST00000599783	protein_coding	PUTATIVE	None	6621	780	259	42912239	42928275	-1	None	HSL
19	LIPE	ENSG00000079435	ENST00000599211	protein_coding	PUTATIVE	None	6621	667	221	42912247	42916600	-1	None	HSL
19	LIPE	ENSG00000079435	ENST00000597001	protein_coding	PUTATIVE	None	6621	528	175	42912463	42927355	-1	None	HSL
19	LIPE	ENSG00000079435	ENST00000601189	protein_coding	PUTATIVE	None	6621	241	79	42914734	42916499	-1	None	HSL
8	None	ENSG00000255025	ENST00000530288	processed_pseudogene	KNOWN	None	None	None	None	7095808	7096153	-1	None	None
6	GINM1	ENSG00000055211	ENST00000367419	protein_coding	KNOWN	CCDS5216	21074	993	330	149887430	149912884	1	C6orf72	dJ12G14.2
6	GINM1	ENSG00000055211	ENST00000433539	protein_coding	KNOWN	None	21074	378	125	149900059	149903419	1	C6orf72	dJ12G14.2
X	None	ENSG00000233874	ENST00000440201	processed_pseudogene	KNOWN	None	None	None	None	108811707	108813518	1	None	None
2	ASB1	ENSG00000065802	ENST00000463352	processed_transcript	KNOWN	None	16011	None	None	239335383	239353016	1	None	ASB-1
2	ASB1	ENSG00000065802	ENST00000264607	protein_coding	KNOWN	CCDS33416	16011	1008	335	239335465	239360891	1	None	ASB-1
2	ASB1	ENSG00000065802	ENST00000469885	processed_transcript	KNOWN	None	16011	None	None	239335471	239344522	1	None	ASB-1
2	ASB1	ENSG00000065802	ENST00000409297	protein_coding	NOVEL	None	16011	705	234	239335645	239355258	1	None	ASB-1
2	ASB1	ENSG00000065802	ENST00000438264	nonsense_mediated_decay	KNOWN	None	16011	186	61	239335670	239355292	1	None	ASB-1
2	ASB1	ENSG00000065802	ENST00000491653	retained_intron	KNOWN	None	16011	None	None	239341955	239353115	1	None	ASB-1
2	ASB1	ENSG00000065802	ENST00000468122	processed_transcript	PUTATIVE	None	16011	None	None	239343810	239355038	1	None	ASB-1
2	ASB1	ENSG00000065802	ENST00000481566	processed_transcript	PUTATIVE	None	16011	None	None	239355025	239360854	1	None	ASB-1
2	ASB1	ENSG00000065802	ENST00000473306	processed_transcript	PUTATIVE	None	16011	None	None	239358786	239360891	1	None	ASB-1
HSCHR5_1_CTG1	RAD17	ENSG00000262511	ENST00000572636	processed_transcript	KNOWN	None	9807	None	None	68665134	68678057	1	None	Rad24, RAD17Sp, CCYC
HSCHR5_1_CTG1	RAD17	ENSG00000262511	ENST00000576867	protein_coding	KNOWN	None	9807	2013	670	68665138	68710869	1	None	Rad24, RAD17Sp, CCYC
HSCHR5_1_CTG1	RAD17	ENSG00000262511	ENST00000575896	protein_coding	KNOWN	None	9807	62	19	68665151	68669713	1	None	Rad24, RAD17Sp, CCYC
HSCHR5_1_CTG1	RAD17	ENSG00000262511	ENST00000575406	protein_coding	KNOWN	None	9807	2046	681	68665647	68710869	1	None	Rad24, RAD17Sp, CCYC
HSCHR5_1_CTG1	RAD17	ENSG00000262511	ENST00000573405	protein_coding	KNOWN	None	9807	2013	670	68665653	68710869	1	None	Rad24, RAD17Sp, CCYC
HSCHR5_1_CTG1	RAD17	ENSG00000262511	ENST00000575665	processed_transcript	KNOWN	None	9807	None	None	68665659	68667307	1	None	Rad24, RAD17Sp, CCYC
HSCHR5_1_CTG1	RAD17	ENSG00000262511	ENST00000571123	protein_coding	KNOWN	None	9807	1518	505	68665661	68710428	1	None	Rad24, RAD17Sp, CCYC
HSCHR5_1_CTG1	RAD17	ENSG00000262511	ENST00000575983	processed_transcript	KNOWN	None	9807	None	None	68665662	68710561	1	None	Rad24, RAD17Sp, CCYC
HSCHR5_1_CTG1	RAD17	ENSG00000262511	ENST00000575651	protein_coding	KNOWN	None	9807	2013	670	68665666	68710869	1	None	Rad24, RAD17Sp, CCYC
HSCHR5_1_CTG1	RAD17	ENSG00000262511	ENST00000576047	protein_coding	KNOWN	None	9807	2013	670	68665683	68710869	1	None	Rad24, RAD17Sp, CCYC
HSCHR5_1_CTG1	RAD17	ENSG00000262511	ENST00000575782	protein_coding	NOVEL	None	9807	150	49	68665933	68680964	1	None	Rad24, RAD17Sp, CCYC
HSCHR5_1_CTG1	RAD17	ENSG00000262511	ENST00000575747	protein_coding	KNOWN	None	9807	508	168	68666087	68678088	1	None	Rad24, RAD17Sp, CCYC
HSCHR5_1_CTG1	RAD17	ENSG00000262511	ENST00000573282	protein_coding	KNOWN	None	9807	2013	670	68666546	68710869	1	None	Rad24, RAD17Sp, CCYC
HSCHR5_1_CTG1	RAD17	ENSG00000262511	ENST00000575476	protein_coding	KNOWN	None	9807	1755	584	68666876	68710428	1	None	Rad24, RAD17Sp, CCYC
HSCHR5_1_CTG1	RAD17	ENSG00000262511	ENST00000572356	protein_coding	KNOWN	None	9807	2046	681	68667292	68710369	1	None	Rad24, RAD17Sp, CCYC
HSCHR5_1_CTG1	RAD17	ENSG00000262511	ENST00000572982	processed_transcript	KNOWN	None	9807	None	None	68680111	68687953	1	None	Rad24, RAD17Sp, CCYC
HSCHR5_1_CTG1	RAD17	ENSG00000262511	ENST00000573383	nonsense_mediated_decay	KNOWN	None	9807	498	165	68682254	68689534	1	None	Rad24, RAD17Sp, CCYC
HSCHR5_1_CTG1	RAD17	ENSG00000262511	ENST00000572601	protein_coding	PUTATIVE	None	9807	555	184	68688002	68710323	1	None	Rad24, RAD17Sp, CCYC
1	None	ENSG00000233485	ENST00000428747	antisense	KNOWN	None	None	None	None	15653176	15670372	-1	None	None
14	TRAV31	ENSG00000249048	ENST00000502780	TR_V_pseudogene	KNOWN	None	12130	None	None	22645170	22645761	1	None	TCRAV31S1
13	None	ENSG00000272281	ENST00000416599	processed_transcript	KNOWN	None	None	None	None	52741844	52768600	-1	None	None
13	None	ENSG00000272281	ENST00000607588	processed_transcript	KNOWN	None	None	None	None	52743230	52745961	-1	None	None
13	None	ENSG00000272281	ENST00000606974	processed_transcript	KNOWN	None	None	None	None	52745352	52768555	-1	None	None
13	None	ENSG00000272281	ENST00000606619	processed_transcript	KNOWN	None	None	None	None	52763768	52768547	-1	None	None
13	None	ENSG00000272281	ENST00000605924	processed_transcript	KNOWN	None	None	None	None	52793479	52899740	-1	None	None
13	None	ENSG00000272281	ENST00000606973	processed_transcript	KNOWN	None	None	None	None	52793487	52828155	-1	None	None
13	None	ENSG00000272281	ENST00000606043	processed_transcript	KNOWN	None	None	None	None	52797374	52828860	-1	None	None
13	None	ENSG00000272281	ENST00000605936	processed_transcript	KNOWN	None	None	None	None	52887764	52897952	-1	None	None
13	None	ENSG00000272281	ENST00000606711	processed_transcript	KNOWN	None	None	None	None	52899774	52908412	-1	None	None
13	None	ENSG00000272281	ENST00000606031	processed_transcript	KNOWN	None	None	None	None	52741857	52865680	-1	None	None
3	GRM2	ENSG00000164082	ENST00000395052	protein_coding	KNOWN	CCDS2834	4594	2619	872	51741086	51752426	1	None	GPRC1B, mGlu2, MGLUR2
3	GRM2	ENSG00000164082	ENST00000296479	nonsense_mediated_decay	KNOWN	None	4594	1308	435	51741104	51752128	1	None	GPRC1B, mGlu2, MGLUR2
3	GRM2	ENSG00000164082	ENST00000475478	processed_transcript	KNOWN	None	4594	None	None	51741106	51752629	1	None	GPRC1B, mGlu2, MGLUR2
3	GRM2	ENSG00000164082	ENST00000464585	retained_intron	KNOWN	None	4594	None	None	51741321	51752629	1	None	GPRC1B, mGlu2, MGLUR2
3	GRM2	ENSG00000164082	ENST00000419928	protein_coding	KNOWN	None	4594	210	69	51741427	51743209	1	None	GPRC1B, mGlu2, MGLUR2
3	GRM2	ENSG00000164082	ENST00000442933	protein_coding	NOVEL	None	4594	1785	594	51742861	51752268	1	None	GPRC1B, mGlu2, MGLUR2
3	GRM2	ENSG00000164082	ENST00000477330	processed_transcript	KNOWN	None	4594	None	None	51745288	51746597	1	None	GPRC1B, mGlu2, MGLUR2
3	GRM2	ENSG00000164082	ENST00000496661	processed_transcript	KNOWN	None	4594	None	None	51745288	51748084	1	None	GPRC1B, mGlu2, MGLUR2
5	NREP	ENSG00000134986	ENST00000514515	nonsense_mediated_decay	KNOWN	None	16834	114	37	110998318	111092891	-1	C5orf13	P311, D4S114, PRO1873, PTZ17, SEZ17
5	NREP	ENSG00000134986	ENST00000509025	protein_coding	PUTATIVE	None	16834	114	37	111004888	111092891	-1	C5orf13	P311, D4S114, PRO1873, PTZ17, SEZ17
5	NREP	ENSG00000134986	ENST00000379671	protein_coding	KNOWN	CCDS4105	16834	207	68	111064509	111093421	-1	C5orf13	P311, D4S114, PRO1873, PTZ17, SEZ17
5	NREP	ENSG00000134986	ENST00000257435	protein_coding	KNOWN	CCDS4105	16834	207	68	111064993	111092955	-1	C5orf13	P311, D4S114, PRO1873, PTZ17, SEZ17
5	NREP	ENSG00000134986	ENST00000446294	protein_coding	KNOWN	CCDS4105	16834	207	68	111065013	111093167	-1	C5orf13	P311, D4S114, PRO1873, PTZ17, SEZ17
5	NREP	ENSG00000134986	ENST00000395634	protein_coding	KNOWN	CCDS47255	16834	339	112	111065681	111312628	-1	C5orf13	P311, D4S114, PRO1873, PTZ17, SEZ17
5	NREP	ENSG00000134986	ENST00000515855	protein_coding	PUTATIVE	None	16834	108	35	111066214	111092891	-1	C5orf13	P311, D4S114, PRO1873, PTZ17, SEZ17
5	NREP	ENSG00000134986	ENST00000507742	processed_transcript	KNOWN	None	16834	None	None	111066339	111092926	-1	C5orf13	P311, D4S114, PRO1873, PTZ17, SEZ17
5	NREP	ENSG00000134986	ENST00000509979	protein_coding	PUTATIVE	None	16834	108	35	111066355	111093767	-1	C5orf13	P311, D4S114, PRO1873, PTZ17, SEZ17
5	NREP	ENSG00000134986	ENST00000450761	protein_coding	KNOWN	CCDS4105	16834	207	68	111066388	111333161	-1	C5orf13	P311, D4S114, PRO1873, PTZ17, SEZ17
5	NREP	ENSG00000134986	ENST00000419114	protein_coding	KNOWN	CCDS4105	16834	207	68	111066401	111093252	-1	C5orf13	P311, D4S114, PRO1873, PTZ17, SEZ17
5	NREP	ENSG00000134986	ENST00000509427	protein_coding	KNOWN	CCDS4105	16834	207	68	111066421	111093106	-1	C5orf13	P311, D4S114, PRO1873, PTZ17, SEZ17
5	NREP	ENSG00000134986	ENST00000453526	protein_coding	KNOWN	CCDS4105	16834	207	68	111066444	111093098	-1	C5orf13	P311, D4S114, PRO1873, PTZ17, SEZ17
5	NREP	ENSG00000134986	ENST00000455559	protein_coding	KNOWN	CCDS4105	16834	207	68	111066503	111093915	-1	C5orf13	P311, D4S114, PRO1873, PTZ17, SEZ17
5	NREP	ENSG00000134986	ENST00000508870	protein_coding	KNOWN	CCDS4105	16834	207	68	111066565	111093340	-1	C5orf13	P311, D4S114, PRO1873, PTZ17, SEZ17
5	NREP	ENSG00000134986	ENST00000513100	protein_coding	KNOWN	None	16834	196	64	111066629	111093791	-1	C5orf13	P311, D4S114, PRO1873, PTZ17, SEZ17
5	NREP	ENSG00000134986	ENST00000504018	retained_intron	KNOWN	None	16834	None	None	111066651	111091948	-1	C5orf13	P311, D4S114, PRO1873, PTZ17, SEZ17
5	NREP	ENSG00000134986	ENST00000508161	protein_coding	KNOWN	None	16834	101	32	111066724	111093900	-1	C5orf13	P311, D4S114, PRO1873, PTZ17, SEZ17
5	NREP	ENSG00000134986	ENST00000503429	retained_intron	KNOWN	None	16834	None	None	111070185	111092891	-1	C5orf13	P311, D4S114, PRO1873, PTZ17, SEZ17
5	NREP	ENSG00000134986	ENST00000505864	retained_intron	KNOWN	None	16834	None	None	111070681	111093330	-1	C5orf13	P311, D4S114, PRO1873, PTZ17, SEZ17
5	NREP	ENSG00000134986	ENST00000507032	protein_coding	KNOWN	None	16834	15	4	111071193	111093739	-1	C5orf13	P311, D4S114, PRO1873, PTZ17, SEZ17
5	NREP	ENSG00000134986	ENST00000513684	retained_intron	KNOWN	None	16834	None	None	111091054	111092861	-1	C5orf13	P311, D4S114, PRO1873, PTZ17, SEZ17
5	NREP	ENSG00000134986	ENST00000447165	protein_coding	KNOWN	CCDS4105	16834	207	68	111065000	111091948	-1	C5orf13	P311, D4S114, PRO1873, PTZ17, SEZ17
12	MYBPC1	ENSG00000196091	ENST00000550514	protein_coding	PUTATIVE	None	7549	314	103	101962131	102036217	1	None	None
12	MYBPC1	ENSG00000196091	ENST00000547405	protein_coding	NOVEL	CCDS58273	7549	3363	1120	101988627	102079589	1	None	None
12	MYBPC1	ENSG00000196091	ENST00000452455	protein_coding	PUTATIVE	CCDS58268	7549	3522	1173	101988747	102079647	1	None	None
12	MYBPC1	ENSG00000196091	ENST00000547627	retained_intron	KNOWN	None	7549	None	None	101988749	102021958	1	None	None
12	MYBPC1	ENSG00000196091	ENST00000392934	protein_coding	PUTATIVE	CCDS58272	7549	3420	1139	101988749	102079584	1	None	None
12	MYBPC1	ENSG00000196091	ENST00000547509	protein_coding	NOVEL	None	7549	3399	1132	101988749	102079590	1	None	None
12	MYBPC1	ENSG00000196091	ENST00000361685	protein_coding	KNOWN	CCDS9084	7549	3447	1148	101988749	102079654	1	None	None
12	MYBPC1	ENSG00000196091	ENST00000550501	processed_transcript	KNOWN	None	7549	None	None	101988749	102079658	1	None	None
12	MYBPC1	ENSG00000196091	ENST00000549145	protein_coding	NOVEL	None	7549	3465	1154	101988749	102079796	1	None	None
12	MYBPC1	ENSG00000196091	ENST00000553190	protein_coding	KNOWN	CCDS55877	7549	3372	1123	101988762	102079648	1	None	None
12	MYBPC1	ENSG00000196091	ENST00000545503	protein_coding	NOVEL	CCDS58269	7549	3441	1146	101988774	102079393	1	None	None
12	MYBPC1	ENSG00000196091	ENST00000536007	protein_coding	NOVEL	CCDS58270	7549	3384	1127	101988774	102079393	1	None	None
12	MYBPC1	ENSG00000196091	ENST00000541119	protein_coding	NOVEL	CCDS58271	7549	3405	1134	101988774	102079393	1	None	None
12	MYBPC1	ENSG00000196091	ENST00000361466	protein_coding	KNOWN	CCDS9083	7549	3516	1171	101988774	102079648	1	None	None
12	MYBPC1	ENSG00000196091	ENST00000551300	protein_coding	PUTATIVE	None	7549	3075	1024	101988775	102079647	1	None	None
12	MYBPC1	ENSG00000196091	ENST00000550270	protein_coding	KNOWN	CCDS9085	7549	3426	1141	101988849	102078173	1	None	None
12	MYBPC1	ENSG00000196091	ENST00000552198	retained_intron	KNOWN	None	7549	None	None	102010957	102036227	1	None	None
12	MYBPC1	ENSG00000196091	ENST00000550312	retained_intron	KNOWN	None	7549	None	None	102020630	102030928	1	None	None
12	MYBPC1	ENSG00000196091	ENST00000548834	retained_intron	KNOWN	None	7549	None	None	102022804	102025900	1	None	None
12	MYBPC1	ENSG00000196091	ENST00000550812	processed_transcript	PUTATIVE	None	7549	None	None	102053778	102055024	1	None	None
12	MYBPC1	ENSG00000196091	ENST00000548298	processed_transcript	KNOWN	None	7549	None	None	102058201	102067262	1	None	None
12	MYBPC1	ENSG00000196091	ENST00000548532	processed_transcript	KNOWN	None	7549	None	None	102058218	102064187	1	None	None
12	MYBPC1	ENSG00000196091	ENST00000549608	retained_intron	KNOWN	None	7549	None	None	102059981	102079589	1	None	None
12	MYBPC1	ENSG00000196091	ENST00000441232	protein_coding	KNOWN	None	7549	3495	1164	101988747	102079658	1	None	None
12	MYBPC1	ENSG00000196091	ENST00000360610	protein_coding	KNOWN	CCDS9085	7549	3426	1141	101988747	102079658	1	None	None
14	TRAV8-7	ENSG00000211808	ENST00000390456	TR_V_gene	KNOWN	None	12152	341	112	22600515	22600996	1	None	None
1	PHF13	ENSG00000116273	ENST00000377648	protein_coding	KNOWN	CCDS85	22983	903	300	6673745	6684093	1	None	MGC43399
1	PHF13	ENSG00000116273	ENST00000495385	processed_transcript	KNOWN	None	22983	None	None	6673822	6682705	1	None	MGC43399
15	None	ENSG00000259480	ENST00000560053	processed_transcript	KNOWN	None	None	None	None	23128188	23131927	-1	None	None
15	None	ENSG00000259480	ENST00000558839	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	23128407	23145997	-1	None	None
17	CDR2L	ENSG00000109089	ENST00000337231	protein_coding	KNOWN	CCDS11710	29999	1398	465	72983727	73001895	1	None	HUMPPA
10	PARG	ENSG00000227345	ENST00000402038	protein_coding	KNOWN	None	8605	1476	491	51026325	51130715	-1	None	None
10	PARG	ENSG00000227345	ENST00000492350	processed_transcript	KNOWN	None	8605	None	None	51040849	51041320	-1	None	None
10	PARG	ENSG00000227345	ENST00000497481	processed_transcript	KNOWN	None	8605	None	None	51073367	51075480	-1	None	None
8	None	ENSG00000253777	ENST00000523157	processed_pseudogene	KNOWN	None	None	None	None	75716522	75717046	-1	None	None
14	None	ENSG00000258497	ENST00000555328	lincRNA	KNOWN	None	None	None	None	101723669	101744655	1	None	None
11	TNNI2	ENSG00000130598	ENST00000381911	protein_coding	KNOWN	CCDS31333	11946	549	182	1860219	1862908	1	None	AMCD2B, DA2B, FSSV
11	TNNI2	ENSG00000130598	ENST00000381906	protein_coding	KNOWN	CCDS31333	11946	549	182	1860711	1862908	1	None	AMCD2B, DA2B, FSSV
11	TNNI2	ENSG00000130598	ENST00000381905	protein_coding	PUTATIVE	CCDS53594	11946	549	182	1861424	1862908	1	None	AMCD2B, DA2B, FSSV
11	TNNI2	ENSG00000130598	ENST00000468473	retained_intron	KNOWN	None	11946	None	None	1861448	1861965	1	None	AMCD2B, DA2B, FSSV
11	TNNI2	ENSG00000130598	ENST00000252898	protein_coding	KNOWN	CCDS31333	11946	549	182	1860927	1862910	1	None	AMCD2B, DA2B, FSSV
2	CREG2	ENSG00000175874	ENST00000324768	protein_coding	KNOWN	CCDS2052	14272	873	290	101965209	102004057	-1	None	None
2	CREG2	ENSG00000175874	ENST00000495455	processed_transcript	KNOWN	None	14272	None	None	101998541	102003602	-1	None	None
2	CREG2	ENSG00000175874	ENST00000486966	processed_transcript	KNOWN	None	14272	None	None	101999388	102003928	-1	None	None
8	OR7E125P	ENSG00000177306	ENST00000443450	unprocessed_pseudogene	KNOWN	None	15098	None	None	7104248	7105093	-1	None	PJCG6
8	OR7E125P	ENSG00000177306	ENST00000318406	unprocessed_pseudogene	KNOWN	None	15098	None	None	7104248	7105874	-1	None	PJCG6
14	TRAV32	ENSG00000258905	ENST00000553993	TR_V_pseudogene	KNOWN	None	12131	None	None	22653458	22653953	1	None	None
4	AMTN	ENSG00000187689	ENST00000339336	protein_coding	KNOWN	CCDS3542	33188	630	209	71384257	71398459	1	None	UNQ689, RSTI689
4	AMTN	ENSG00000187689	ENST00000504451	protein_coding	KNOWN	None	33188	627	208	71384302	71398231	1	None	UNQ689, RSTI689
X	None	ENSG00000243736	ENST00000439581	processed_transcript	KNOWN	None	None	None	None	108867473	108877915	-1	None	None
14	TRAV33	ENSG00000258812	ENST00000557514	TR_V_pseudogene	KNOWN	None	12132	None	None	22658052	22658607	1	None	C14orf12
1	None	ENSG00000236045	ENST00000439788	antisense	KNOWN	None	None	None	None	15660662	15661960	-1	None	None
20	MIR548AG2	ENSG00000265617	ENST00000581228	miRNA	KNOWN	None	41745	None	None	59139620	59139683	1	None	hsa-mir-548ag-2
7	FAM133B	ENSG00000234545	ENST00000438306	protein_coding	KNOWN	CCDS47641	28629	714	237	92190107	92219707	-1	None	MGC40405
7	FAM133B	ENSG00000234545	ENST00000445716	protein_coding	KNOWN	CCDS47640	28629	744	247	92190417	92219708	-1	None	MGC40405
7	FAM133B	ENSG00000234545	ENST00000415397	nonsense_mediated_decay	KNOWN	None	28629	318	105	92190451	92219643	-1	None	MGC40405
7	FAM133B	ENSG00000234545	ENST00000481407	retained_intron	KNOWN	None	28629	None	None	92190530	92219704	-1	None	MGC40405
7	FAM133B	ENSG00000234545	ENST00000427372	protein_coding	KNOWN	CCDS47641	28629	714	237	92191596	92219384	-1	None	MGC40405
7	FAM133B	ENSG00000234545	ENST00000494079	protein_coding	PUTATIVE	None	28629	363	120	92194822	92207031	-1	None	MGC40405
7	FAM133B	ENSG00000234545	ENST00000468931	retained_intron	KNOWN	None	28629	None	None	92195364	92205168	-1	None	MGC40405
7	FAM133B	ENSG00000234545	ENST00000490747	retained_intron	KNOWN	None	28629	None	None	92198856	92206708	-1	None	MGC40405
7	FAM133B	ENSG00000234545	ENST00000492686	retained_intron	KNOWN	None	28629	None	None	92207633	92211120	-1	None	MGC40405
7	FAM133B	ENSG00000234545	ENST00000480397	retained_intron	KNOWN	None	28629	None	None	92208469	92219652	-1	None	MGC40405
7	FAM133B	ENSG00000234545	ENST00000456502	protein_coding	KNOWN	None	28629	92	29	92210820	92219344	-1	None	MGC40405
7	ATP6V0A4	ENSG00000105929	ENST00000310018	protein_coding	KNOWN	CCDS5849	866	2523	840	138391040	138482941	-1	ATP6N1B, ATP6N2, RTA1C	RDRTA2, VPP2, RTADR, a4, Vph1, Stv1
7	ATP6V0A4	ENSG00000105929	ENST00000353492	protein_coding	KNOWN	CCDS5849	866	2523	840	138391271	138482849	-1	ATP6N1B, ATP6N2, RTA1C	RDRTA2, VPP2, RTADR, a4, Vph1, Stv1
7	ATP6V0A4	ENSG00000105929	ENST00000471085	processed_transcript	PUTATIVE	None	866	None	None	138418933	138432420	-1	ATP6N1B, ATP6N2, RTA1C	RDRTA2, VPP2, RTADR, a4, Vph1, Stv1
7	ATP6V0A4	ENSG00000105929	ENST00000478480	retained_intron	KNOWN	None	866	None	None	138429870	138440736	-1	ATP6N1B, ATP6N2, RTA1C	RDRTA2, VPP2, RTADR, a4, Vph1, Stv1
7	ATP6V0A4	ENSG00000105929	ENST00000483139	processed_transcript	KNOWN	None	866	None	None	138444621	138458793	-1	ATP6N1B, ATP6N2, RTA1C	RDRTA2, VPP2, RTADR, a4, Vph1, Stv1
7	ATP6V0A4	ENSG00000105929	ENST00000479909	processed_transcript	KNOWN	None	866	None	None	138470989	138484305	-1	ATP6N1B, ATP6N2, RTA1C	RDRTA2, VPP2, RTADR, a4, Vph1, Stv1
7	ATP6V0A4	ENSG00000105929	ENST00000393054	protein_coding	KNOWN	CCDS5849	866	2523	840	138391040	138458782	-1	ATP6N1B, ATP6N2, RTA1C	RDRTA2, VPP2, RTADR, a4, Vph1, Stv1
12	YAF2	ENSG00000015153	ENST00000442791	protein_coding	KNOWN	CCDS53779	17363	615	204	42552836	42632038	-1	None	None
12	YAF2	ENSG00000015153	ENST00000534854	protein_coding	KNOWN	CCDS31775	17363	543	180	42552926	42632050	-1	None	None
12	YAF2	ENSG00000015153	ENST00000380790	protein_coding	KNOWN	CCDS53778	17363	417	138	42553704	42632089	-1	None	None
12	YAF2	ENSG00000015153	ENST00000550315	retained_intron	KNOWN	None	17363	None	None	42553844	42555430	-1	None	None
12	YAF2	ENSG00000015153	ENST00000552109	nonsense_mediated_decay	KNOWN	None	17363	219	72	42554068	42632050	-1	None	None
12	YAF2	ENSG00000015153	ENST00000547622	processed_transcript	KNOWN	None	17363	None	None	42554298	42631314	-1	None	None
12	YAF2	ENSG00000015153	ENST00000547351	nonsense_mediated_decay	KNOWN	None	17363	291	96	42554410	42632023	-1	None	None
12	YAF2	ENSG00000015153	ENST00000551268	nonsense_mediated_decay	KNOWN	None	17363	171	56	42555415	42632065	-1	None	None
12	YAF2	ENSG00000015153	ENST00000551528	retained_intron	KNOWN	None	17363	None	None	42555430	42604638	-1	None	None
12	YAF2	ENSG00000015153	ENST00000548661	nonsense_mediated_decay	KNOWN	None	17363	135	44	42555455	42632105	-1	None	None
12	YAF2	ENSG00000015153	ENST00000546972	retained_intron	KNOWN	None	17363	None	None	42555473	42593346	-1	None	None
12	YAF2	ENSG00000015153	ENST00000546726	nonsense_mediated_decay	KNOWN	None	17363	204	67	42555473	42631982	-1	None	None
12	YAF2	ENSG00000015153	ENST00000547724	processed_transcript	KNOWN	None	17363	None	None	42555474	42631602	-1	None	None
12	YAF2	ENSG00000015153	ENST00000552928	nonsense_mediated_decay	KNOWN	None	17363	363	120	42555492	42632025	-1	None	None
12	YAF2	ENSG00000015153	ENST00000548917	protein_coding	PUTATIVE	None	17363	102	33	42555501	42631602	-1	None	None
12	YAF2	ENSG00000015153	ENST00000547254	nonsense_mediated_decay	KNOWN	None	17363	204	67	42555551	42632151	-1	None	None
12	YAF2	ENSG00000015153	ENST00000541702	processed_transcript	KNOWN	None	17363	None	None	42625026	42632050	-1	None	None
12	YAF2	ENSG00000015153	ENST00000546782	retained_intron	KNOWN	None	17363	None	None	42629444	42631585	-1	None	None
12	YAF2	ENSG00000015153	ENST00000327791	protein_coding	KNOWN	None	17363	471	156	42550906	42632050	-1	None	None
12	YAF2	ENSG00000015153	ENST00000380788	protein_coding	KNOWN	None	17363	516	171	42554068	42632050	-1	None	None
12	YAF2	ENSG00000015153	ENST00000555248	protein_coding	KNOWN	CCDS53780	17363	354	117	42625026	42632151	-1	None	None
12	PLEKHA5	ENSG00000052126	ENST00000540972	protein_coding	PUTATIVE	CCDS55809	30036	231	76	19282686	19354937	1	None	PEPP2, KIAA1686, FLJ10667
12	PLEKHA5	ENSG00000052126	ENST00000429027	protein_coding	NOVEL	CCDS58213	30036	3849	1282	19282702	19529334	1	None	PEPP2, KIAA1686, FLJ10667
12	PLEKHA5	ENSG00000052126	ENST00000299275	protein_coding	KNOWN	CCDS8682	30036	3351	1116	19282728	19529334	1	None	PEPP2, KIAA1686, FLJ10667
12	PLEKHA5	ENSG00000052126	ENST00000538714	protein_coding	KNOWN	CCDS44840	30036	3525	1174	19282730	19526602	1	None	PEPP2, KIAA1686, FLJ10667
12	PLEKHA5	ENSG00000052126	ENST00000535357	processed_transcript	KNOWN	None	30036	None	None	19282994	19360667	1	None	PEPP2, KIAA1686, FLJ10667
12	PLEKHA5	ENSG00000052126	ENST00000538034	processed_transcript	KNOWN	None	30036	None	None	19283644	19410377	1	None	PEPP2, KIAA1686, FLJ10667
12	PLEKHA5	ENSG00000052126	ENST00000538305	protein_coding	NOVEL	None	30036	354	117	19358196	19418751	1	None	PEPP2, KIAA1686, FLJ10667
12	PLEKHA5	ENSG00000052126	ENST00000536974	protein_coding	NOVEL	None	30036	2931	976	19389858	19514596	1	None	PEPP2, KIAA1686, FLJ10667
12	PLEKHA5	ENSG00000052126	ENST00000534979	processed_transcript	KNOWN	None	30036	None	None	19389875	19406943	1	None	PEPP2, KIAA1686, FLJ10667
12	PLEKHA5	ENSG00000052126	ENST00000510738	processed_transcript	KNOWN	None	30036	None	None	19410408	19460494	1	None	PEPP2, KIAA1686, FLJ10667
12	PLEKHA5	ENSG00000052126	ENST00000538677	nonsense_mediated_decay	KNOWN	None	30036	406	134	19436571	19473519	1	None	PEPP2, KIAA1686, FLJ10667
12	PLEKHA5	ENSG00000052126	ENST00000538068	retained_intron	KNOWN	None	30036	None	None	19472580	19496350	1	None	PEPP2, KIAA1686, FLJ10667
12	PLEKHA5	ENSG00000052126	ENST00000537027	retained_intron	KNOWN	None	30036	None	None	19473470	19474594	1	None	PEPP2, KIAA1686, FLJ10667
12	PLEKHA5	ENSG00000052126	ENST00000538972	protein_coding	KNOWN	None	30036	1194	397	19475452	19529331	1	None	PEPP2, KIAA1686, FLJ10667
12	PLEKHA5	ENSG00000052126	ENST00000317589	protein_coding	KNOWN	None	30036	3540	1179	19282648	19529331	1	None	PEPP2, KIAA1686, FLJ10667
12	PLEKHA5	ENSG00000052126	ENST00000355397	protein_coding	KNOWN	CCDS44840	30036	3525	1174	19282648	19529331	1	None	PEPP2, KIAA1686, FLJ10667
12	PLEKHA5	ENSG00000052126	ENST00000359180	protein_coding	KNOWN	None	30036	3183	1060	19282648	19529331	1	None	PEPP2, KIAA1686, FLJ10667
12	PLEKHA5	ENSG00000052126	ENST00000309364	protein_coding	KNOWN	None	30036	1953	650	19282648	19459440	1	None	PEPP2, KIAA1686, FLJ10667
12	PLEKHA5	ENSG00000052126	ENST00000424268	protein_coding	KNOWN	None	30036	3318	1105	19358259	19529331	1	None	PEPP2, KIAA1686, FLJ10667
12	PLEKHA5	ENSG00000052126	ENST00000543806	protein_coding	KNOWN	CCDS58214	30036	3297	1098	19358259	19528743	1	None	PEPP2, KIAA1686, FLJ10667
12	PLEKHA5	ENSG00000052126	ENST00000539256	protein_coding	KNOWN	None	30036	2625	874	19282728	19528526	1	None	PEPP2, KIAA1686, FLJ10667
4	TACR3	ENSG00000169836	ENST00000304883	protein_coding	KNOWN	CCDS3664	11528	1398	465	104507188	104640973	-1	None	NK3R
3	HRASLS	ENSG00000127252	ENST00000264735	protein_coding	KNOWN	CCDS3303	14922	822	273	192958914	192988644	1	None	H-REV107, HRASLS1
3	HRASLS	ENSG00000127252	ENST00000416012	nonsense_mediated_decay	KNOWN	None	14922	336	111	192980791	192995527	1	None	H-REV107, HRASLS1
3	HRASLS	ENSG00000127252	ENST00000602513	protein_coding	KNOWN	None	14922	507	168	192958914	192988643	1	None	H-REV107, HRASLS1
17	ICT1	ENSG00000167862	ENST00000584208	protein_coding	NOVEL	None	5359	576	191	73008765	73017034	1	None	DS-1
17	ICT1	ENSG00000167862	ENST00000301585	protein_coding	KNOWN	CCDS11711	5359	621	206	73008769	73017356	1	None	DS-1
17	ICT1	ENSG00000167862	ENST00000580800	nonsense_mediated_decay	KNOWN	None	5359	214	70	73008832	73016670	1	None	DS-1
17	ICT1	ENSG00000167862	ENST00000583772	retained_intron	KNOWN	None	5359	None	None	73016324	73017356	1	None	DS-1
21	ERG	ENSG00000157554	ENST00000398905	protein_coding	NOVEL	None	3446	1368	455	39751949	39870366	-1	None	erg-3, p55
21	ERG	ENSG00000157554	ENST00000398907	protein_coding	NOVEL	None	3446	1371	456	39751949	39870366	-1	None	erg-3, p55
21	ERG	ENSG00000157554	ENST00000288319	protein_coding	KNOWN	CCDS13658	3446	1440	479	39751949	39870407	-1	None	erg-3, p55
21	ERG	ENSG00000157554	ENST00000398897	protein_coding	KNOWN	CCDS58789	3446	1092	363	39751949	39956824	-1	None	erg-3, p55
21	ERG	ENSG00000157554	ENST00000398911	protein_coding	KNOWN	CCDS13657	3446	1389	462	39751949	39956869	-1	None	erg-3, p55
21	ERG	ENSG00000157554	ENST00000417133	protein_coding	KNOWN	CCDS46648	3446	1461	486	39751949	40033618	-1	None	erg-3, p55
21	ERG	ENSG00000157554	ENST00000398910	protein_coding	NOVEL	None	3446	1392	463	39751949	40033618	-1	None	erg-3, p55
21	ERG	ENSG00000157554	ENST00000453032	protein_coding	KNOWN	CCDS46649	3446	1164	387	39755048	39870400	-1	None	erg-3, p55
21	ERG	ENSG00000157554	ENST00000398919	protein_coding	KNOWN	CCDS46648	3446	1461	486	39755213	40032591	-1	None	erg-3, p55
21	ERG	ENSG00000157554	ENST00000481609	processed_transcript	KNOWN	None	3446	None	None	39763581	39870380	-1	None	erg-3, p55
21	ERG	ENSG00000157554	ENST00000492833	processed_transcript	KNOWN	None	3446	None	None	39767292	39817544	-1	None	erg-3, p55
21	ERG	ENSG00000157554	ENST00000468474	retained_intron	KNOWN	None	3446	None	None	39771994	40033618	-1	None	erg-3, p55
21	ERG	ENSG00000157554	ENST00000473107	processed_transcript	KNOWN	None	3446	None	None	39775526	39821028	-1	None	erg-3, p55
21	ERG	ENSG00000157554	ENST00000485493	processed_transcript	KNOWN	None	3446	None	None	39842698	40033618	-1	None	erg-3, p55
21	ERG	ENSG00000157554	ENST00000442448	protein_coding	KNOWN	CCDS13657	3446	1389	462	39751952	40033704	-1	None	erg-3, p55
21	ERG	ENSG00000157554	ENST00000429727	protein_coding	KNOWN	None	3446	516	171	39763872	39870345	-1	None	erg-3, p55
6	None	ENSG00000246350	ENST00000499525	processed_transcript	KNOWN	None	None	None	None	28555155	28559524	1	None	None
2	TMEM177	ENSG00000144120	ENST00000401466	protein_coding	KNOWN	CCDS2128	28143	936	311	120436743	120439694	1	None	MGC10993
2	TMEM177	ENSG00000144120	ENST00000272521	protein_coding	KNOWN	CCDS2128	28143	936	311	120436746	120439694	1	None	MGC10993
2	TMEM177	ENSG00000144120	ENST00000445518	protein_coding	KNOWN	None	28143	342	113	120436767	120438771	1	None	MGC10993
2	TMEM177	ENSG00000144120	ENST00000496203	processed_transcript	KNOWN	None	28143	None	None	120436779	120444040	1	None	MGC10993
2	TMEM177	ENSG00000144120	ENST00000409951	protein_coding	PUTATIVE	None	28143	327	108	120436779	120444083	1	None	MGC10993
2	TMEM177	ENSG00000144120	ENST00000424086	protein_coding	KNOWN	CCDS2128	28143	936	311	120436743	120439694	1	None	MGC10993
14	TRAV27	ENSG00000211809	ENST00000390457	TR_V_gene	KNOWN	None	12125	328	108	22615949	22616587	1	None	None
16	HBA1	ENSG00000206172	ENST00000320868	protein_coding	KNOWN	CCDS10399	4823	429	142	226679	227521	1	None	None
16	HBA1	ENSG00000206172	ENST00000472694	retained_intron	KNOWN	None	4823	None	None	226697	227519	1	None	None
16	HBA1	ENSG00000206172	ENST00000397797	protein_coding	PUTATIVE	None	4823	333	110	226703	227521	1	None	None
16	HBA1	ENSG00000206172	ENST00000487791	retained_intron	KNOWN	None	4823	None	None	226747	227273	1	None	None
3	CMC1	ENSG00000187118	ENST00000477739	retained_intron	KNOWN	None	28783	None	None	28283075	28361253	1	C3orf68	MGC61571
3	CMC1	ENSG00000187118	ENST00000466830	protein_coding	KNOWN	CCDS33722	28783	321	106	28283086	28366633	1	C3orf68	MGC61571
3	CMC1	ENSG00000187118	ENST00000423894	protein_coding	NOVEL	None	28783	231	76	28283109	28361262	1	C3orf68	MGC61571
3	CMC1	ENSG00000187118	ENST00000334841	nonsense_mediated_decay	KNOWN	None	28783	144	47	28283115	28361264	1	C3orf68	MGC61571
3	CMC1	ENSG00000187118	ENST00000418849	protein_coding	PUTATIVE	None	28783	340	112	28295219	28361264	1	C3orf68	MGC61571
3	CMC1	ENSG00000187118	ENST00000396610	retained_intron	KNOWN	None	28783	None	None	28304603	28361232	1	C3orf68	MGC61571
3	CMC1	ENSG00000187118	ENST00000468330	processed_transcript	KNOWN	None	28783	None	None	28333292	28357898	1	C3orf68	MGC61571
3	CMC1	ENSG00000187118	ENST00000495428	processed_transcript	KNOWN	None	28783	None	None	28333339	28361261	1	C3orf68	MGC61571
3	CMC1	ENSG00000187118	ENST00000467644	processed_transcript	KNOWN	None	28783	None	None	28338592	28361264	1	C3orf68	MGC61571
3	CMC1	ENSG00000187118	ENST00000469102	processed_transcript	KNOWN	None	28783	None	None	28357392	28361264	1	C3orf68	MGC61571
3	CMC1	ENSG00000187118	ENST00000482499	processed_transcript	KNOWN	None	28783	None	None	28357844	28361267	1	C3orf68	MGC61571
16	ZNF213	ENSG00000085644	ENST00000573771	protein_coding	KNOWN	None	13005	154	50	3179778	3187435	1	None	CR53, ZKSCAN21, ZSCAN53
16	ZNF213	ENSG00000085644	ENST00000574902	protein_coding	KNOWN	CCDS10495	13005	1380	459	3184924	3192804	1	None	CR53, ZKSCAN21, ZSCAN53
16	ZNF213	ENSG00000085644	ENST00000396878	protein_coding	KNOWN	CCDS10495	13005	1380	459	3185029	3192806	1	None	CR53, ZKSCAN21, ZSCAN53
16	ZNF213	ENSG00000085644	ENST00000576416	protein_coding	KNOWN	CCDS10495	13005	1380	459	3185134	3191780	1	None	CR53, ZKSCAN21, ZSCAN53
16	ZNF213	ENSG00000085644	ENST00000574928	retained_intron	KNOWN	None	13005	None	None	3185139	3192805	1	None	CR53, ZKSCAN21, ZSCAN53
16	ZNF213	ENSG00000085644	ENST00000576863	nonsense_mediated_decay	KNOWN	None	13005	438	145	3185160	3192805	1	None	CR53, ZKSCAN21, ZSCAN53
16	ZNF213	ENSG00000085644	ENST00000572647	protein_coding	PUTATIVE	None	13005	549	182	3187405	3191533	1	None	CR53, ZKSCAN21, ZSCAN53
16	ZNF213	ENSG00000085644	ENST00000574575	protein_coding	NOVEL	None	13005	813	270	3187651	3191356	1	None	CR53, ZKSCAN21, ZSCAN53
16	ZNF213	ENSG00000085644	ENST00000416391	protein_coding	KNOWN	None	13005	906	301	3187460	3191533	1	None	CR53, ZKSCAN21, ZSCAN53
HSCHR6_MHC_COX	C6orf100	ENSG00000237634	ENST00000438996	protein_coding	KNOWN	None	21195	189	62	28908184	28908844	1	None	dJ25J6.5
6	None	ENSG00000271440	ENST00000605542	processed_pseudogene	KNOWN	None	None	None	None	28601158	28601371	-1	None	None
1	RXRG	ENSG00000143171	ENST00000359842	protein_coding	KNOWN	CCDS1248	10479	1392	463	165370159	165414433	-1	None	NR2B3
1	RXRG	ENSG00000143171	ENST00000470566	processed_transcript	KNOWN	None	10479	None	None	165379987	165394209	-1	None	NR2B3
1	RXRG	ENSG00000143171	ENST00000465764	processed_transcript	KNOWN	None	10479	None	None	165406165	165414409	-1	None	NR2B3
2	TWIST2	ENSG00000233608	ENST00000448943	protein_coding	KNOWN	CCDS46558	20670	483	160	239756673	239795893	1	None	DERMO1, Dermo-1, bHLHa39
6	None	ENSG00000272278	ENST00000606479	miRNA	NOVEL	None	None	None	None	28615974	28616042	-1	None	None
8	None	ENSG00000254303	ENST00000523792	lincRNA	KNOWN	None	None	None	None	122966879	123139423	-1	None	None
6	LINC00533	ENSG00000235570	ENST00000456103	lincRNA	KNOWN	None	18690	None	None	28616063	28616843	-1	C6orf38	bA373N24.1, C6orf39
5	None	ENSG00000240281	ENST00000494052	processed_pseudogene	KNOWN	None	None	None	None	41895170	41895701	1	None	None
6	VNN1	ENSG00000112299	ENST00000367928	protein_coding	KNOWN	CCDS5159	12705	1542	513	133002729	133035188	-1	None	Tiff66
15	RNU6-1339P	ENSG00000200444	ENST00000363574	snRNA	KNOWN	None	48302	None	None	84493615	84493705	-1	None	None
8	MRPS36P3	ENSG00000253814	ENST00000519284	processed_pseudogene	KNOWN	None	29773	None	None	123103719	123103848	1	None	None
HSCHR6_MHC_QBL	APOM	ENSG00000206409	ENST00000419996	protein_coding	KNOWN	None	13916	390	129	31610434	31616099	1	None	ApoM, G3a, NG20
HSCHR6_MHC_QBL	APOM	ENSG00000206409	ENST00000400157	protein_coding	KNOWN	None	13916	351	116	31610435	31616227	1	None	ApoM, G3a, NG20
HSCHR6_MHC_QBL	APOM	ENSG00000206409	ENST00000383438	protein_coding	KNOWN	None	13916	567	188	31613911	31616227	1	None	ApoM, G3a, NG20
HSCHR6_MHC_MANN	TUBB	ENSG00000232575	ENST00000436628	protein_coding	KNOWN	None	20778	1335	444	30732675	30737900	1	None	OK/SW-cl.56, MGC16435, M40, Tubb5
HSCHR6_MHC_MANN	TUBB	ENSG00000232575	ENST00000437490	protein_coding	KNOWN	None	20778	1119	372	30734048	30737900	1	None	OK/SW-cl.56, MGC16435, M40, Tubb5
HSCHR6_MHC_MANN	TUBB	ENSG00000232575	ENST00000426754	protein_coding	KNOWN	None	20778	1281	426	30734141	30737900	1	None	OK/SW-cl.56, MGC16435, M40, Tubb5
HSCHR6_MHC_MANN	TUBB	ENSG00000232575	ENST00000425102	protein_coding	KNOWN	None	20778	1119	372	30734173	30737900	1	None	OK/SW-cl.56, MGC16435, M40, Tubb5
HSCHR6_MHC_MANN	TUBB	ENSG00000232575	ENST00000549902	protein_coding	KNOWN	None	20778	1305	434	30732831	30737002	1	None	OK/SW-cl.56, MGC16435, M40, Tubb5
HSCHR6_MHC_MANN	MAS1L	ENSG00000228377	ENST00000420035	protein_coding	KNOWN	None	13961	1137	378	29454045	29455309	-1	None	MAS-L, MRG, dJ994E9.2
1	None	ENSG00000228140	ENST00000427824	lincRNA	KNOWN	None	None	None	None	15729475	15735929	-1	None	None
X	RNU6-394P	ENSG00000222667	ENST00000410735	snRNA	KNOWN	None	47357	None	None	65896100	65896206	-1	None	None
10	CHST3	ENSG00000122863	ENST00000373115	protein_coding	KNOWN	CCDS7312	1971	1440	479	73724123	73773322	1	None	C6ST, C6ST1
13	RNF17	ENSG00000132972	ENST00000255324	protein_coding	KNOWN	CCDS9308	10060	4872	1623	25338290	25454059	1	TDRD4	Mmip-2, SPATA23, FLJ11045
13	RNF17	ENSG00000132972	ENST00000255326	processed_transcript	KNOWN	None	10060	None	None	25338339	25370380	1	TDRD4	Mmip-2, SPATA23, FLJ11045
13	RNF17	ENSG00000132972	ENST00000255325	protein_coding	PUTATIVE	None	10060	1965	654	25338339	25398515	1	TDRD4	Mmip-2, SPATA23, FLJ11045
13	RNF17	ENSG00000132972	ENST00000418120	protein_coding	PUTATIVE	None	10060	2567	854	25377872	25448399	1	TDRD4	Mmip-2, SPATA23, FLJ11045
13	RNF17	ENSG00000132972	ENST00000339524	protein_coding	PUTATIVE	None	10060	1902	633	25418017	25454059	1	TDRD4	Mmip-2, SPATA23, FLJ11045
13	RNF17	ENSG00000132972	ENST00000381921	protein_coding	KNOWN	None	10060	4746	1581	25338301	25454056	1	TDRD4	Mmip-2, SPATA23, FLJ11045
X	None	ENSG00000226280	ENST00000441055	processed_pseudogene	KNOWN	None	None	None	None	66593415	66595362	1	None	None
13	UBAC2	ENSG00000134882	ENST00000355700	protein_coding	NOVEL	None	20486	613	203	99853028	100037569	1	PHGDHL1	FLJ30548, RP11-178C10.1
13	UBAC2	ENSG00000134882	ENST00000403766	protein_coding	NOVEL	CCDS45064	20486	1035	344	99853028	100037794	1	PHGDHL1	FLJ30548, RP11-178C10.1
13	UBAC2	ENSG00000134882	ENST00000468067	processed_transcript	KNOWN	None	20486	None	None	99853141	99992819	1	PHGDHL1	FLJ30548, RP11-178C10.1
13	UBAC2	ENSG00000134882	ENST00000473091	processed_transcript	KNOWN	None	20486	None	None	99853146	99966474	1	PHGDHL1	FLJ30548, RP11-178C10.1
13	UBAC2	ENSG00000134882	ENST00000376440	protein_coding	KNOWN	CCDS9490	20486	930	309	99853163	100038681	1	PHGDHL1	FLJ30548, RP11-178C10.1
13	UBAC2	ENSG00000134882	ENST00000457666	protein_coding	PUTATIVE	None	20486	407	134	99853170	99896878	1	PHGDHL1	FLJ30548, RP11-178C10.1
13	UBAC2	ENSG00000134882	ENST00000494576	processed_transcript	KNOWN	None	20486	None	None	99896769	100038688	1	PHGDHL1	FLJ30548, RP11-178C10.1
13	UBAC2	ENSG00000134882	ENST00000473194	processed_transcript	KNOWN	None	20486	None	None	99960206	100037648	1	PHGDHL1	FLJ30548, RP11-178C10.1
13	UBAC2	ENSG00000134882	ENST00000460562	processed_transcript	KNOWN	None	20486	None	None	99965037	100038688	1	PHGDHL1	FLJ30548, RP11-178C10.1
13	UBAC2	ENSG00000134882	ENST00000480738	processed_transcript	KNOWN	None	20486	None	None	99966962	100037952	1	PHGDHL1	FLJ30548, RP11-178C10.1
13	UBAC2	ENSG00000134882	ENST00000474510	processed_transcript	KNOWN	None	20486	None	None	100020041	100029820	1	PHGDHL1	FLJ30548, RP11-178C10.1
20	None	ENSG00000261035	ENST00000569070	lincRNA	KNOWN	None	None	None	None	59387060	59389267	-1	None	None
13	None	ENSG00000217576	ENST00000451298	processed_transcript	KNOWN	None	None	None	None	52741844	52865692	-1	None	None
15	None	ENSG00000221484	ENST00000408557	miRNA	NOVEL	None	None	None	None	84657985	84658097	-1	None	None
7	None	ENSG00000177418	ENST00000325130	pseudogene	NOVEL	None	None	None	None	66021832	66022349	-1	None	None
8	None	ENSG00000255364	ENST00000533992	lincRNA	KNOWN	None	None	None	None	123426571	123440790	-1	None	None
16	ZNF771	ENSG00000179965	ENST00000319296	protein_coding	KNOWN	CCDS45460	29653	954	317	30418618	30430728	1	None	DSC43
16	ZNF771	ENSG00000179965	ENST00000566625	protein_coding	NOVEL	None	29653	159	52	30418950	30440920	1	None	DSC43
16	ZNF771	ENSG00000179965	ENST00000564550	protein_coding	NOVEL	None	29653	189	62	30419352	30425930	1	None	DSC43
16	ZNF771	ENSG00000179965	ENST00000434417	protein_coding	KNOWN	CCDS45460	29653	954	317	30418735	30429915	1	None	DSC43
2	RFX8	ENSG00000196460	ENST00000481179	nonsense_mediated_decay	KNOWN	None	37253	462	153	102013823	102091165	-1	None	FLJ42986
2	RFX8	ENSG00000196460	ENST00000428343	protein_coding	KNOWN	CCDS46376	37253	1422	473	102013866	102091165	-1	None	FLJ42986
2	RFX8	ENSG00000196460	ENST00000492238	retained_intron	KNOWN	None	37253	None	None	102037845	102051568	-1	None	FLJ42986
2	RFX8	ENSG00000196460	ENST00000484091	nonsense_mediated_decay	KNOWN	None	37253	243	80	102038160	102091163	-1	None	FLJ42986
2	RFX8	ENSG00000196460	ENST00000376826	protein_coding	KNOWN	None	37253	1761	586	102013823	102090737	-1	None	FLJ42986
14	TRAV37	ENSG00000259068	ENST00000553906	TR_V_pseudogene	KNOWN	None	12136	None	None	22733632	22734147	1	None	None
X	None	ENSG00000233710	ENST00000449099	processed_pseudogene	KNOWN	None	None	None	None	66753005	66753829	1	None	None
15	None	ENSG00000259609	ENST00000559921	unprocessed_pseudogene	KNOWN	None	None	None	None	84721865	84748849	-1	None	None
1	THAP3	ENSG00000041988	ENST00000054650	protein_coding	KNOWN	CCDS55572	20855	720	239	6684926	6693625	1	None	None
1	THAP3	ENSG00000041988	ENST00000484676	processed_transcript	KNOWN	None	20855	None	None	6685231	6688579	1	None	None
1	THAP3	ENSG00000041988	ENST00000307896	protein_coding	KNOWN	CCDS55573	20855	717	238	6685241	6693428	1	None	None
1	THAP3	ENSG00000041988	ENST00000377627	protein_coding	KNOWN	CCDS86	20855	528	175	6685252	6695646	1	None	None
1	THAP3	ENSG00000041988	ENST00000484669	processed_transcript	KNOWN	None	20855	None	None	6685258	6693333	1	None	None
1	THAP3	ENSG00000041988	ENST00000487819	nonsense_mediated_decay	KNOWN	None	20855	375	124	6685285	6693181	1	None	None
1	THAP3	ENSG00000041988	ENST00000472925	protein_coding	PUTATIVE	None	20855	694	230	6685290	6693111	1	None	None
1	THAP3	ENSG00000041988	ENST00000480647	retained_intron	KNOWN	None	20855	None	None	6688455	6690386	1	None	None
7	RPL35P5	ENSG00000225573	ENST00000433398	processed_pseudogene	KNOWN	None	36955	None	None	66071725	66072094	-1	None	None
7	RPL35P5	ENSG00000225573	ENST00000598872	processed_pseudogene	KNOWN	None	36955	None	None	66071740	66072093	-1	None	None
9	None	ENSG00000228072	ENST00000420315	antisense	KNOWN	None	None	None	None	33512957	33514771	-1	None	None
8	None	ENSG00000255325	ENST00000530350	lincRNA	KNOWN	None	None	None	None	123497754	123502054	-1	None	None
20	None	ENSG00000229755	ENST00000420710	lincRNA	KNOWN	None	None	None	None	59652280	59652872	-1	None	None
20	EMILIN3	ENSG00000183798	ENST00000332312	protein_coding	KNOWN	CCDS13316	16123	2301	766	39988606	39995467	-1	C20orf130, EMILIN5	dJ620E11.4
8	FAM90A15P	ENSG00000230045	ENST00000514465	unprocessed_pseudogene	KNOWN	None	32263	None	None	7114426	7117436	1	FAM90A15	None
8	FAM90A15P	ENSG00000230045	ENST00000414026	unprocessed_pseudogene	KNOWN	None	32263	None	None	7114426	7117436	1	FAM90A15	None
9	None	ENSG00000225123	ENST00000437894	processed_pseudogene	KNOWN	None	None	None	None	33574359	33574586	-1	None	None
14	PCNX	ENSG00000100731	ENST00000554879	retained_intron	KNOWN	None	19740	None	None	71374122	71479555	1	PCNXL1	KIAA0995, KIAA0805
14	PCNX	ENSG00000100731	ENST00000304743	protein_coding	KNOWN	CCDS9806	19740	7026	2341	71374122	71582099	1	PCNXL1	KIAA0995, KIAA0805
14	PCNX	ENSG00000100731	ENST00000554292	processed_transcript	PUTATIVE	None	19740	None	None	71374387	71409657	1	PCNXL1	KIAA0995, KIAA0805
14	PCNX	ENSG00000100731	ENST00000439984	protein_coding	NOVEL	None	19740	6693	2230	71374456	71576835	1	PCNXL1	KIAA0995, KIAA0805
14	PCNX	ENSG00000100731	ENST00000553508	retained_intron	KNOWN	None	19740	None	None	71413599	71435988	1	PCNXL1	KIAA0995, KIAA0805
14	PCNX	ENSG00000100731	ENST00000553272	processed_transcript	KNOWN	None	19740	None	None	71432082	71444007	1	PCNXL1	KIAA0995, KIAA0805
14	PCNX	ENSG00000100731	ENST00000553428	processed_transcript	KNOWN	None	19740	None	None	71432087	71443868	1	PCNXL1	KIAA0995, KIAA0805
14	PCNX	ENSG00000100731	ENST00000556846	retained_intron	KNOWN	None	19740	None	None	71445095	71476585	1	PCNXL1	KIAA0995, KIAA0805
14	PCNX	ENSG00000100731	ENST00000554691	protein_coding	NOVEL	None	19740	3986	1327	71479748	71576870	1	PCNXL1	KIAA0995, KIAA0805
14	PCNX	ENSG00000100731	ENST00000554707	retained_intron	KNOWN	None	19740	None	None	71492912	71493919	1	PCNXL1	KIAA0995, KIAA0805
14	PCNX	ENSG00000100731	ENST00000556849	protein_coding	PUTATIVE	None	19740	595	197	71514677	71540476	1	PCNXL1	KIAA0995, KIAA0805
14	PCNX	ENSG00000100731	ENST00000556516	processed_transcript	KNOWN	None	19740	None	None	71517375	71527459	1	PCNXL1	KIAA0995, KIAA0805
14	PCNX	ENSG00000100731	ENST00000557428	processed_transcript	KNOWN	None	19740	None	None	71545368	71568906	1	PCNXL1	KIAA0995, KIAA0805
14	PCNX	ENSG00000100731	ENST00000556272	processed_transcript	KNOWN	None	19740	None	None	71559271	71576865	1	PCNXL1	KIAA0995, KIAA0805
14	PCNX	ENSG00000100731	ENST00000555780	protein_coding	PUTATIVE	None	19740	288	95	71575737	71576878	1	PCNXL1	KIAA0995, KIAA0805
14	PCNX	ENSG00000100731	ENST00000238570	protein_coding	KNOWN	None	19740	6810	2269	71374122	71582099	1	PCNXL1	KIAA0995, KIAA0805
HSCHR6_MHC_SSTO	RPP21	ENSG00000239927	ENST00000425575	protein_coding	KNOWN	None	21300	489	162	30302028	30303754	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_SSTO	RPP21	ENSG00000239927	ENST00000489296	processed_transcript	KNOWN	None	21300	None	None	30302031	30303390	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_SSTO	RPP21	ENSG00000239927	ENST00000488929	retained_intron	KNOWN	None	21300	None	None	30302039	30303754	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_SSTO	RPP21	ENSG00000239927	ENST00000465345	processed_transcript	KNOWN	None	21300	None	None	30302048	30303754	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_SSTO	RPP21	ENSG00000239927	ENST00000472882	processed_transcript	KNOWN	None	21300	None	None	30302050	30303781	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_SSTO	RPP21	ENSG00000239927	ENST00000470122	retained_intron	KNOWN	None	21300	None	None	30302052	30303754	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_SSTO	RPP21	ENSG00000239927	ENST00000376642	protein_coding	KNOWN	None	21300	465	154	30302056	30303754	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_SSTO	RPP21	ENSG00000239927	ENST00000430900	protein_coding	KNOWN	None	21300	534	177	30302056	30303754	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_SSTO	RPP21	ENSG00000239927	ENST00000415583	protein_coding	KNOWN	None	21300	435	144	30302066	30303754	1	C6orf135	FLJ22638, Em:AB014085.3
11	PRPF19	ENSG00000110107	ENST00000227524	protein_coding	KNOWN	CCDS7995	17896	1515	504	60658202	60674060	-1	PRP19	UBOX4, NMP200, PSO4, hPSO4
11	PRPF19	ENSG00000110107	ENST00000540473	protein_coding	PUTATIVE	None	17896	138	45	60658208	60669886	-1	PRP19	UBOX4, NMP200, PSO4, hPSO4
11	PRPF19	ENSG00000110107	ENST00000535326	protein_coding	NOVEL	None	17896	360	119	60658219	60666403	-1	PRP19	UBOX4, NMP200, PSO4, hPSO4
11	PRPF19	ENSG00000110107	ENST00000539960	retained_intron	KNOWN	None	17896	None	None	60665022	60666687	-1	PRP19	UBOX4, NMP200, PSO4, hPSO4
11	PRPF19	ENSG00000110107	ENST00000539180	retained_intron	KNOWN	None	17896	None	None	60665352	60665941	-1	PRP19	UBOX4, NMP200, PSO4, hPSO4
11	PRPF19	ENSG00000110107	ENST00000541371	protein_coding	NOVEL	None	17896	756	251	60666013	60674041	-1	PRP19	UBOX4, NMP200, PSO4, hPSO4
11	PRPF19	ENSG00000110107	ENST00000546152	protein_coding	PUTATIVE	None	17896	312	103	60668971	60674013	-1	PRP19	UBOX4, NMP200, PSO4, hPSO4
1	None	ENSG00000251866	ENST00000516057	snoRNA	NOVEL	None	None	None	None	15868660	15868799	1	None	None
13	MRPS31P5	ENSG00000243406	ENST00000423686	transcribed_unprocessed_pseudogene	KNOWN	None	39253	None	None	52749774	52768513	-1	MRPS31P3	None
22	None	ENSG00000232754	ENST00000415054	antisense	KNOWN	None	None	None	None	41565194	41579148	-1	None	None
15	EFTUD1P1	ENSG00000259404	ENST00000558187	processed_transcript	KNOWN	None	31739	None	None	84748920	84782428	1	FAM42B	HsT19321
15	EFTUD1P1	ENSG00000259404	ENST00000560401	transcribed_unprocessed_pseudogene	KNOWN	None	31739	None	None	84748920	84795356	1	FAM42B	HsT19321
15	EFTUD1P1	ENSG00000259404	ENST00000558550	processed_transcript	KNOWN	None	31739	None	None	84758977	84773571	1	FAM42B	HsT19321
15	EFTUD1P1	ENSG00000259404	ENST00000560381	processed_transcript	KNOWN	None	31739	None	None	84781698	84790313	1	FAM42B	HsT19321
2	MSGN1	ENSG00000151379	ENST00000281047	protein_coding	KNOWN	CCDS42657	14907	582	193	17997763	17998368	1	None	pMesogenin1
17	KCTD2	ENSG00000180901	ENST00000579242	processed_transcript	KNOWN	None	21294	None	None	73028670	73045379	1	None	KIAA0176
17	KCTD2	ENSG00000180901	ENST00000582840	processed_transcript	KNOWN	None	21294	None	None	73028675	73045354	1	None	KIAA0176
17	KCTD2	ENSG00000180901	ENST00000584767	processed_transcript	KNOWN	None	21294	None	None	73028695	73045418	1	None	KIAA0176
17	KCTD2	ENSG00000180901	ENST00000584570	processed_transcript	KNOWN	None	21294	None	None	73028705	73036558	1	None	KIAA0176
17	KCTD2	ENSG00000180901	ENST00000581589	protein_coding	PUTATIVE	None	21294	195	64	73028707	73059358	1	None	KIAA0176
17	KCTD2	ENSG00000180901	ENST00000375286	nonsense_mediated_decay	KNOWN	None	21294	225	74	73043279	73061984	1	None	KIAA0176
17	KCTD2	ENSG00000180901	ENST00000322444	protein_coding	KNOWN	CCDS32728	21294	792	263	73043340	73061979	1	None	KIAA0176
17	KCTD2	ENSG00000180901	ENST00000577516	processed_transcript	KNOWN	None	21294	None	None	73044938	73059190	1	None	KIAA0176
17	KCTD2	ENSG00000180901	ENST00000579230	retained_intron	KNOWN	None	21294	None	None	73055218	73059453	1	None	KIAA0176
22	None	ENSG00000231993	ENST00000420537	processed_transcript	KNOWN	None	None	None	None	41570595	41593460	-1	None	None
19	RN7SL533P	ENSG00000263555	ENST00000584468	misc_RNA	KNOWN	None	46549	None	None	47582188	47582450	1	None	None
22	LRRC37A14P	ENSG00000215771	ENST00000452297	processed_pseudogene	KNOWN	None	43818	None	None	41585731	41586192	-1	None	None
20	DEFB115	ENSG00000215547	ENST00000400552	protein_coding	KNOWN	CCDS42859	18096	267	88	29845467	29847435	1	None	DEFB-15
4	None	ENSG00000248778	ENST00000503155	processed_pseudogene	KNOWN	None	None	None	None	106600207	106601251	-1	None	None
19	MIR3190	ENSG00000265134	ENST00000577414	miRNA	KNOWN	None	38190	None	None	47730199	47730278	1	None	hsa-mir-3190
19	MIR3191	ENSG00000265134	ENST00000577414	miRNA	KNOWN	None	38222	None	None	47730199	47730278	1	None	hsa-mir-3191
7	None	ENSG00000226824	ENST00000448096	sense_intronic	KNOWN	None	None	None	None	66119525	66131286	1	None	None
7	None	ENSG00000226824	ENST00000439360	sense_intronic	KNOWN	None	None	None	None	66119538	66134285	1	None	None
7	None	ENSG00000226824	ENST00000428557	sense_intronic	KNOWN	None	None	None	None	66119573	66134842	1	None	None
1	None	ENSG00000272510	ENST00000606186	antisense	KNOWN	None	None	None	None	15892106	15892451	-1	None	None
14	TRAV29DV5	ENSG00000211810	ENST00000390458	TR_V_gene	KNOWN	None	12127	358	118	22631134	22631766	1	None	TRAV29/DV5
22	None	ENSG00000235513	ENST00000441316	antisense	KNOWN	None	None	None	None	41605126	41613631	-1	None	None
22	None	ENSG00000235513	ENST00000451176	antisense	KNOWN	None	None	None	None	41605686	41613627	-1	None	None
5	RNA5SP196	ENSG00000252793	ENST00000516984	rRNA	KNOWN	None	43096	None	None	145965662	145965763	-1	RN5S196	None
5	RN7SL791P	ENSG00000241291	ENST00000467868	misc_RNA	KNOWN	None	46807	None	None	146035966	146036258	-1	None	None
13	TPTE2P2	ENSG00000239372	ENST00000403471	transcribed_unprocessed_pseudogene	KNOWN	None	38076	None	None	52793663	52871963	-1	None	None
5	KRT8P48	ENSG00000248568	ENST00000515599	processed_pseudogene	KNOWN	None	48344	None	None	146085944	146087163	-1	None	None
9	ECM2	ENSG00000106823	ENST00000344604	protein_coding	KNOWN	CCDS6698	3154	2100	699	95257594	95298337	-1	None	None
9	ECM2	ENSG00000106823	ENST00000375540	protein_coding	KNOWN	None	3154	495	164	95278994	95298337	-1	None	None
9	ECM2	ENSG00000106823	ENST00000395534	protein_coding	KNOWN	None	3154	480	159	95279970	95298937	-1	None	None
9	ECM2	ENSG00000106823	ENST00000444490	protein_coding	KNOWN	CCDS56578	3154	1932	643	95256365	95298254	-1	None	None
X	None	ENSG00000237319	ENST00000448300	processed_pseudogene	KNOWN	None	None	None	None	108880063	108880292	1	None	None
3	ATXN7	ENSG00000163635	ENST00000474513	protein_coding	KNOWN	None	10560	77	24	63850233	63898351	1	SCA7	OPCA3, ADCAII
3	ATXN7	ENSG00000163635	ENST00000474112	retained_intron	KNOWN	None	10560	None	None	63850233	63982312	1	SCA7	OPCA3, ADCAII
3	ATXN7	ENSG00000163635	ENST00000295900	protein_coding	KNOWN	CCDS43102	10560	2679	892	63850236	63989138	1	SCA7	OPCA3, ADCAII
3	ATXN7	ENSG00000163635	ENST00000487717	protein_coding	KNOWN	CCDS43102	10560	2679	892	63897605	63985883	1	SCA7	OPCA3, ADCAII
3	ATXN7	ENSG00000163635	ENST00000484332	protein_coding	PUTATIVE	CCDS46861	10560	2244	747	63953420	63985472	1	SCA7	OPCA3, ADCAII
3	ATXN7	ENSG00000163635	ENST00000475897	retained_intron	KNOWN	None	10560	None	None	63953483	63966339	1	SCA7	OPCA3, ADCAII
3	ATXN7	ENSG00000163635	ENST00000488239	processed_transcript	KNOWN	None	10560	None	None	63954045	63968099	1	SCA7	OPCA3, ADCAII
3	ATXN7	ENSG00000163635	ENST00000466529	retained_intron	KNOWN	None	10560	None	None	63967863	63974150	1	SCA7	OPCA3, ADCAII
3	ATXN7	ENSG00000163635	ENST00000472569	retained_intron	KNOWN	None	10560	None	None	63968567	63974139	1	SCA7	OPCA3, ADCAII
3	ATXN7	ENSG00000163635	ENST00000484668	retained_intron	KNOWN	None	10560	None	None	63973875	63976661	1	SCA7	OPCA3, ADCAII
3	ATXN7	ENSG00000163635	ENST00000477516	retained_intron	KNOWN	None	10560	None	None	63976186	63981553	1	SCA7	OPCA3, ADCAII
3	ATXN7	ENSG00000163635	ENST00000522345	protein_coding	NOVEL	None	10560	346	114	63981986	63985230	1	SCA7	OPCA3, ADCAII
3	ATXN7	ENSG00000163635	ENST00000398590	protein_coding	KNOWN	CCDS54603	10560	2838	945	63850233	63989129	1	SCA7	OPCA3, ADCAII
3	ATXN7	ENSG00000163635	ENST00000538065	protein_coding	KNOWN	CCDS54603	10560	2838	945	63898275	63989129	1	SCA7	OPCA3, ADCAII
7	TRBJ2-2	ENSG00000211765	ENST00000390413	TR_J_gene	KNOWN	None	12169	51	16	142494244	142494294	1	None	TRBJ22, TCRBJ2S2
5	None	ENSG00000265875	ENST00000578667	miRNA	NOVEL	None	None	None	None	146114398	146114467	1	None	None
HSCHR6_MHC_QBL	C6orf47	ENSG00000203623	ENST00000366432	protein_coding	KNOWN	None	19076	885	294	31616315	31618789	-1	None	D6S53E, G4
5	PPP2R2B-IT1	ENSG00000249553	ENST00000505921	sense_intronic	KNOWN	None	42984	None	None	146293770	146299069	-1	None	None
19	VN1R92P	ENSG00000268908	ENST00000598511	unprocessed_pseudogene	KNOWN	None	37412	None	None	23627064	23627991	1	None	None
14	None	ENSG00000256221	ENST00000543361	processed_pseudogene	KNOWN	None	None	None	None	22801352	22803115	-1	None	None
19	ZNF725P	ENSG00000268100	ENST00000596753	unprocessed_pseudogene	KNOWN	None	32461	None	None	23675230	23695458	-1	ZNF725	None
7	ZNF786	ENSG00000197362	ENST00000316286	protein_coding	PUTATIVE	None	21806	2091	696	148766735	148787874	-1	None	DKFZp762I137
7	ZNF786	ENSG00000197362	ENST00000491431	protein_coding	KNOWN	CCDS47738	21806	2349	782	148767055	148787797	-1	None	DKFZp762I137
7	ZNF786	ENSG00000197362	ENST00000451334	protein_coding	KNOWN	None	21806	2238	745	148767187	148787810	-1	None	DKFZp762I137
10	HSPA14	ENSG00000187522	ENST00000378372	protein_coding	KNOWN	CCDS7103	29526	1530	509	14880163	14913740	1	None	HSP70-4, HSP70L1
10	HSPA14	ENSG00000187522	ENST00000493863	processed_transcript	KNOWN	None	29526	None	None	14880228	14884840	1	None	HSP70-4, HSP70L1
10	HSPA14	ENSG00000187522	ENST00000437161	protein_coding	KNOWN	None	29526	432	143	14880301	14886736	1	None	HSP70-4, HSP70L1
10	HSPA14	ENSG00000187522	ENST00000493178	processed_transcript	KNOWN	None	29526	None	None	14880330	14884309	1	None	HSP70-4, HSP70L1
10	HSPA14	ENSG00000187522	ENST00000441647	protein_coding	KNOWN	None	29526	386	127	14880436	14891667	1	None	HSP70-4, HSP70L1
10	HSPA14	ENSG00000187522	ENST00000470430	processed_transcript	KNOWN	None	29526	None	None	14892714	14896206	1	None	HSP70-4, HSP70L1
5	None	ENSG00000250343	ENST00000504297	antisense	KNOWN	None	None	None	None	146559767	146614422	-1	None	None
1	None	ENSG00000237301	ENST00000428945	antisense	KNOWN	None	None	None	None	15912631	15930121	-1	None	None
20	None	ENSG00000229606	ENST00000441660	lincRNA	KNOWN	None	None	None	None	59654196	59655235	1	None	None
7	None	ENSG00000202233	ENST00000365363	snoRNA	NOVEL	None	None	None	None	25304275	25304377	1	None	None
8	None	ENSG00000253819	ENST00000521608	lincRNA	KNOWN	None	None	None	None	123682624	123706345	-1	None	None
6	KATNA1	ENSG00000186625	ENST00000335647	protein_coding	KNOWN	CCDS5217	6216	1476	491	149916009	149959728	-1	None	None
6	KATNA1	ENSG00000186625	ENST00000335643	protein_coding	KNOWN	CCDS56456	6216	936	311	149916009	149969871	-1	None	None
6	KATNA1	ENSG00000186625	ENST00000494504	processed_transcript	KNOWN	None	6216	None	None	149918266	149944247	-1	None	None
6	KATNA1	ENSG00000186625	ENST00000481905	processed_transcript	KNOWN	None	6216	None	None	149919189	149924509	-1	None	None
6	KATNA1	ENSG00000186625	ENST00000470620	processed_transcript	KNOWN	None	6216	None	None	149919404	149969829	-1	None	None
6	KATNA1	ENSG00000186625	ENST00000444282	protein_coding	KNOWN	None	6216	842	279	149922776	149969887	-1	None	None
6	KATNA1	ENSG00000186625	ENST00000420200	protein_coding	KNOWN	None	6216	633	210	149924500	149970108	-1	None	None
6	KATNA1	ENSG00000186625	ENST00000367411	protein_coding	KNOWN	CCDS5217	6216	1476	491	149916013	149969850	-1	None	None
16	DCTPP1	ENSG00000179958	ENST00000319285	protein_coding	KNOWN	CCDS10680	28777	513	170	30434940	30441396	-1	None	MGC5627, RS21C6, CDA03, XTP3TPA
16	DCTPP1	ENSG00000179958	ENST00000567983	protein_coding	NOVEL	None	28777	216	71	30435019	30441351	-1	None	MGC5627, RS21C6, CDA03, XTP3TPA
16	DCTPP1	ENSG00000179958	ENST00000568434	protein_coding	PUTATIVE	None	28777	150	49	30435235	30440610	-1	None	MGC5627, RS21C6, CDA03, XTP3TPA
16	DCTPP1	ENSG00000179958	ENST00000568973	protein_coding	PUTATIVE	None	28777	150	49	30435300	30441121	-1	None	MGC5627, RS21C6, CDA03, XTP3TPA
16	DCTPP1	ENSG00000179958	ENST00000565758	protein_coding	PUTATIVE	None	28777	150	49	30435355	30441313	-1	None	MGC5627, RS21C6, CDA03, XTP3TPA
5	None	ENSG00000272239	ENST00000607270	antisense	KNOWN	None	None	None	None	146781323	146781559	1	None	None
12	CLEC6A	ENSG00000205846	ENST00000382073	protein_coding	KNOWN	CCDS31739	14556	630	209	8608522	8630926	1	CLECSF10	dectin-2
5	None	ENSG00000249518	ENST00000514574	processed_pseudogene	KNOWN	None	None	None	None	147231207	147232222	-1	None	None
6	None	ENSG00000227012	ENST00000449069	lincRNA	KNOWN	None	None	None	None	112221692	112223054	1	None	None
2	PTPN4	ENSG00000088179	ENST00000263708	protein_coding	KNOWN	CCDS2129	9656	2781	926	120517207	120741394	1	None	PTPMEG
2	PTPN4	ENSG00000088179	ENST00000460162	processed_transcript	PUTATIVE	None	9656	None	None	120517530	120567460	1	None	PTPMEG
2	PTPN4	ENSG00000088179	ENST00000420482	protein_coding	KNOWN	None	9656	225	74	120517753	120620198	1	None	PTPMEG
2	PTPN4	ENSG00000088179	ENST00000460289	processed_transcript	KNOWN	None	9656	None	None	120517796	120637693	1	None	PTPMEG
2	PTPN4	ENSG00000088179	ENST00000488279	protein_coding	PUTATIVE	None	9656	484	160	120517800	120639722	1	None	PTPMEG
2	PTPN4	ENSG00000088179	ENST00000485247	processed_transcript	KNOWN	None	9656	None	None	120517851	120640155	1	None	PTPMEG
2	PTPN4	ENSG00000088179	ENST00000433888	nonsense_mediated_decay	KNOWN	None	9656	366	121	120634899	120692536	1	None	PTPMEG
2	PTPN4	ENSG00000088179	ENST00000430976	nonsense_mediated_decay	KNOWN	None	9656	407	134	120640079	120735037	1	None	PTPMEG
2	PTPN4	ENSG00000088179	ENST00000488896	retained_intron	KNOWN	None	9656	None	None	120689856	120692680	1	None	PTPMEG
2	PTPN4	ENSG00000088179	ENST00000431283	protein_coding	PUTATIVE	None	9656	594	197	120690052	120704246	1	None	PTPMEG
2	PTPN4	ENSG00000088179	ENST00000469511	retained_intron	KNOWN	None	9656	None	None	120718368	120725448	1	None	PTPMEG
2	PTPN4	ENSG00000088179	ENST00000441089	protein_coding	NOVEL	None	9656	658	218	120718400	120734659	1	None	PTPMEG
2	PTPN4	ENSG00000088179	ENST00000544261	protein_coding	KNOWN	None	9656	1680	559	120687352	120734843	1	None	PTPMEG
8	None	ENSG00000254043	ENST00000520696	lincRNA	KNOWN	None	None	None	None	75803386	75808537	-1	None	None
2	KCNS3	ENSG00000170745	ENST00000403915	protein_coding	KNOWN	CCDS1692	6302	1476	491	18059114	18114221	1	None	Kv9.3
2	KCNS3	ENSG00000170745	ENST00000481414	processed_transcript	KNOWN	None	6302	None	None	18059934	18100902	1	None	Kv9.3
2	KCNS3	ENSG00000170745	ENST00000304101	protein_coding	KNOWN	CCDS1692	6302	1476	491	18059945	18114228	1	None	Kv9.3
2	KCNS3	ENSG00000170745	ENST00000465292	processed_transcript	KNOWN	None	6302	None	None	18059961	18542882	1	None	Kv9.3
2	KCNS3	ENSG00000170745	ENST00000419802	protein_coding	KNOWN	None	6302	223	73	18060650	18112498	1	None	Kv9.3
12	None	ENSG00000257767	ENST00000546840	protein_coding	PUTATIVE	None	None	784	260	112191694	112229222	1	None	None
6	None	ENSG00000237234	ENST00000425503	antisense	KNOWN	None	None	None	None	112475967	112479534	1	None	None
6	None	ENSG00000237234	ENST00000585373	antisense	KNOWN	None	None	None	None	112475989	112487670	1	None	None
6	None	ENSG00000237234	ENST00000588689	antisense	KNOWN	None	None	None	None	112475993	112476934	1	None	None
8	None	ENSG00000254238	ENST00000520778	antisense	KNOWN	None	None	None	None	75938663	75941695	-1	None	None
7	TSEN15P3	ENSG00000234922	ENST00000422363	processed_pseudogene	KNOWN	None	43964	None	None	25305543	25305909	-1	None	None
14	None	ENSG00000258460	ENST00000553561	lincRNA	KNOWN	None	None	None	None	101798853	101800668	-1	None	None
7	TRBJ2-2P	ENSG00000211766	ENST00000390414	TR_J_gene	KNOWN	None	12170	46	14	142494381	142494426	1	None	TRBJ22P
4	None	ENSG00000248328	ENST00000513351	unprocessed_pseudogene	KNOWN	None	None	None	None	65477092	65477606	-1	None	None
14	LINC00524	ENSG00000259023	ENST00000556987	lincRNA	KNOWN	None	20118	None	None	101872324	101874259	-1	C14orf71	None
12	EID3	ENSG00000255150	ENST00000527879	protein_coding	KNOWN	CCDS53822	32961	1002	333	104697517	104698980	1	None	FLJ25832, NSMCE4B, NSE4B
4	None	ENSG00000244669	ENST00000473356	processed_pseudogene	KNOWN	None	None	None	None	65632848	65633615	-1	None	None
7	TRBJ2-3	ENSG00000211767	ENST00000390415	TR_J_gene	KNOWN	None	12171	49	15	142494531	142494579	1	None	TRBJ23, TCRBJ2S3
8	None	ENSG00000253712	ENST00000467082	lincRNA	KNOWN	None	None	None	None	76079939	76088891	-1	None	None
4	BMP3	ENSG00000152785	ENST00000282701	protein_coding	KNOWN	CCDS3588	1070	1419	472	81952119	81978685	1	None	None
14	TRAV30	ENSG00000259092	ENST00000557168	TR_V_gene	KNOWN	None	12129	337	111	22636325	22636884	1	None	None
4	None	ENSG00000250125	ENST00000509932	lincRNA	KNOWN	None	None	None	None	65779999	65870218	-1	None	None
14	None	ENSG00000259082	ENST00000555725	lincRNA	KNOWN	None	None	None	None	101908413	101910652	1	None	None
19	None	ENSG00000268455	ENST00000600110	unprocessed_pseudogene	KNOWN	None	None	None	None	23778924	23780961	1	None	None
16	NPIPA7	ENSG00000214967	ENST00000530217	protein_coding	NOVEL	None	41982	1110	369	16472912	16487811	1	None	None
16	NPIPA7	ENSG00000214967	ENST00000344087	protein_coding	NOVEL	None	41982	170	55	16484691	16487665	1	None	None
16	NPIPA7	ENSG00000214967	ENST00000422673	protein_coding	KNOWN	None	41982	528	175	16481306	16486537	1	None	None
16	NPIPA7	ENSG00000214967	ENST00000327792	protein_coding	KNOWN	None	41982	462	153	16481598	16487799	1	None	None
4	None	ENSG00000248447	ENST00000513297	processed_pseudogene	KNOWN	None	None	None	None	65900352	65901735	-1	None	None
20	DEFB116	ENSG00000215545	ENST00000400549	protein_coding	KNOWN	CCDS42860	18097	309	102	29891015	29896388	-1	None	DEFB-16
16	SLX1B	ENSG00000181625	ENST00000330181	protein_coding	KNOWN	CCDS10648	28748	828	275	29465822	29469540	1	GIYD2	MGC5178
16	SLX1B	ENSG00000181625	ENST00000565219	retained_intron	KNOWN	None	28748	None	None	29465866	29469510	1	GIYD2	MGC5178
16	SLX1B	ENSG00000181625	ENST00000351581	protein_coding	KNOWN	CCDS10649	28748	486	161	29465883	29469540	1	GIYD2	MGC5178
16	SLX1B	ENSG00000181625	ENST00000567248	protein_coding	PUTATIVE	None	28748	265	87	29466426	29467081	1	GIYD2	MGC5178
16	SLX1B	ENSG00000181625	ENST00000566424	retained_intron	KNOWN	None	28748	None	None	29468291	29469509	1	GIYD2	MGC5178
1	CHCHD2P6	ENSG00000235084	ENST00000454346	processed_pseudogene	KNOWN	None	39590	None	None	15931092	15931538	1	None	None
1	CHCHD2P6	ENSG00000235084	ENST00000420030	processed_pseudogene	KNOWN	None	39590	None	None	15931077	15931538	1	None	None
6	FAM83B	ENSG00000168143	ENST00000306858	protein_coding	KNOWN	CCDS34479	21357	3036	1011	54711569	54806820	1	C6orf143	FLJ30642
8	CASC9	ENSG00000249395	ENST00000504531	lincRNA	KNOWN	None	48906	None	None	76135639	76190696	-1	None	LINC00981
8	CASC9	ENSG00000249395	ENST00000522183	lincRNA	KNOWN	None	48906	None	None	76135938	76236976	-1	None	LINC00981
8	CASC9	ENSG00000249395	ENST00000521147	lincRNA	KNOWN	None	48906	None	None	76136004	76190732	-1	None	LINC00981
8	CASC9	ENSG00000249395	ENST00000523313	lincRNA	KNOWN	None	48906	None	None	76136133	76236551	-1	None	LINC00981
10	SPOCK2	ENSG00000107742	ENST00000373109	protein_coding	KNOWN	CCDS7313	13564	1275	424	73818793	73848531	-1	None	KIAA0275, testican-2
10	SPOCK2	ENSG00000107742	ENST00000463279	processed_transcript	KNOWN	None	13564	None	None	73822563	73829009	-1	None	KIAA0275, testican-2
10	SPOCK2	ENSG00000107742	ENST00000469121	processed_transcript	KNOWN	None	13564	None	None	73822622	73829909	-1	None	KIAA0275, testican-2
10	SPOCK2	ENSG00000107742	ENST00000460053	processed_transcript	KNOWN	None	13564	None	None	73822761	73828623	-1	None	KIAA0275, testican-2
10	SPOCK2	ENSG00000107742	ENST00000495888	processed_transcript	KNOWN	None	13564	None	None	73846439	73848279	-1	None	KIAA0275, testican-2
10	SPOCK2	ENSG00000107742	ENST00000483699	processed_transcript	KNOWN	None	13564	None	None	73848115	73848790	-1	None	KIAA0275, testican-2
10	SPOCK2	ENSG00000107742	ENST00000317376	protein_coding	KNOWN	CCDS7313	13564	1275	424	73818793	73848790	-1	None	KIAA0275, testican-2
10	SPOCK2	ENSG00000107742	ENST00000536168	protein_coding	KNOWN	None	13564	1275	424	73818793	73848086	-1	None	KIAA0275, testican-2
10	SPOCK2	ENSG00000107742	ENST00000412663	protein_coding	KNOWN	CCDS44431	13564	234	77	73845984	73848790	-1	None	KIAA0275, testican-2
17	VTN	ENSG00000272099	ENST00000226218	protein_coding	KNOWN	CCDS11229	12724	1437	478	26694297	26697843	-1	None	VN
17	VTN	ENSG00000272099	ENST00000539746	retained_intron	KNOWN	None	12724	None	None	26694889	26695958	-1	None	VN
17	VTN	ENSG00000272099	ENST00000542029	protein_coding	KNOWN	None	12724	354	117	26696703	26700110	-1	None	VN
12	CHST11	ENSG00000171310	ENST00000550711	processed_transcript	PUTATIVE	None	17422	None	None	104849073	104850774	1	None	C4ST1, C4St-1, C4ST, HSA269537
12	CHST11	ENSG00000171310	ENST00000547956	protein_coding	PUTATIVE	None	17422	234	77	104850746	104996057	1	None	C4ST1, C4St-1, C4ST, HSA269537
12	CHST11	ENSG00000171310	ENST00000549260	protein_coding	KNOWN	CCDS55878	17422	1044	347	104850749	105155792	1	None	C4ST1, C4St-1, C4ST, HSA269537
12	CHST11	ENSG00000171310	ENST00000303694	protein_coding	KNOWN	CCDS9099	17422	1059	352	104850751	105155792	1	None	C4ST1, C4St-1, C4ST, HSA269537
12	CHST11	ENSG00000171310	ENST00000546689	protein_coding	PUTATIVE	None	17422	219	72	104850779	104995925	1	None	C4ST1, C4St-1, C4ST, HSA269537
12	CHST11	ENSG00000171310	ENST00000549016	protein_coding	PUTATIVE	None	17422	475	157	104982626	105151117	1	None	C4ST1, C4St-1, C4ST, HSA269537
15	HYPK	ENSG00000242028	ENST00000406925	protein_coding	KNOWN	CCDS10104	18418	390	129	44088340	44094280	1	C15orf63	HSPC136, FLJ20431
15	HYPK	ENSG00000242028	ENST00000498605	processed_transcript	KNOWN	None	18418	None	None	44092509	44093788	1	C15orf63	HSPC136, FLJ20431
15	HYPK	ENSG00000242028	ENST00000442995	protein_coding	KNOWN	CCDS10104	18418	390	129	44092621	44094489	1	C15orf63	HSPC136, FLJ20431
15	HYPK	ENSG00000242028	ENST00000458412	protein_coding	PUTATIVE	None	18418	249	82	44092797	44095241	1	C15orf63	HSPC136, FLJ20431
15	HYPK	ENSG00000242028	ENST00000497142	processed_transcript	KNOWN	None	18418	None	None	44092825	44094126	1	C15orf63	HSPC136, FLJ20431
1	LRRC52	ENSG00000162763	ENST00000294818	protein_coding	KNOWN	CCDS30930	32156	942	313	165513244	165533198	1	None	FLJ25811
20	DEFB118	ENSG00000131068	ENST00000253381	protein_coding	KNOWN	CCDS13177	16196	372	123	29956421	29961726	1	C20orf63	dJ1018D12.3, DEFB-18, ESC42
19	None	ENSG00000269619	ENST00000601565	lincRNA	KNOWN	None	None	None	None	47849965	47850584	1	None	None
10	RNU6-441P	ENSG00000207275	ENST00000384545	snRNA	KNOWN	None	47404	None	None	84100527	84100632	1	None	None
19	SIN3B	ENSG00000127511	ENST00000248054	protein_coding	KNOWN	None	19354	3393	1130	16940211	16991161	1	None	KIAA0700
19	SIN3B	ENSG00000127511	ENST00000596802	protein_coding	KNOWN	None	19354	1062	353	16940218	16966556	1	None	KIAA0700
19	SIN3B	ENSG00000127511	ENST00000379803	protein_coding	KNOWN	CCDS32946	19354	3489	1162	16940218	16991164	1	None	KIAA0700
19	SIN3B	ENSG00000127511	ENST00000596638	protein_coding	PUTATIVE	None	19354	929	308	16952763	16974097	1	None	KIAA0700
19	SIN3B	ENSG00000127511	ENST00000599880	processed_transcript	PUTATIVE	None	19354	None	None	16973908	16976401	1	None	KIAA0700
19	SIN3B	ENSG00000127511	ENST00000595541	protein_coding	PUTATIVE	None	19354	2163	720	16974085	16989772	1	None	KIAA0700
19	SIN3B	ENSG00000127511	ENST00000594372	retained_intron	KNOWN	None	19354	None	None	16975933	16980434	1	None	KIAA0700
19	SIN3B	ENSG00000127511	ENST00000595900	processed_transcript	PUTATIVE	None	19354	None	None	16980693	16983477	1	None	KIAA0700
19	SIN3B	ENSG00000127511	ENST00000602204	retained_intron	KNOWN	None	19354	None	None	16980780	16982449	1	None	KIAA0700
19	SIN3B	ENSG00000127511	ENST00000595049	retained_intron	KNOWN	None	19354	None	None	16986742	16989517	1	None	KIAA0700
19	SIN3B	ENSG00000127511	ENST00000601141	retained_intron	KNOWN	None	19354	None	None	16987750	16989871	1	None	KIAA0700
19	SIN3B	ENSG00000127511	ENST00000594235	processed_transcript	KNOWN	None	19354	None	None	16987973	16989753	1	None	KIAA0700
17	ALDH3A1	ENSG00000108602	ENST00000468746	nonsense_mediated_decay	KNOWN	None	405	1191	396	19641297	19651654	-1	ALDH3	None
17	ALDH3A1	ENSG00000108602	ENST00000395555	protein_coding	NOVEL	None	405	1170	389	19641297	19651654	-1	ALDH3	None
17	ALDH3A1	ENSG00000108602	ENST00000479677	retained_intron	KNOWN	None	405	None	None	19641297	19651677	-1	ALDH3	None
17	ALDH3A1	ENSG00000108602	ENST00000494157	protein_coding	PUTATIVE	None	405	1143	380	19641297	19651706	-1	ALDH3	None
17	ALDH3A1	ENSG00000108602	ENST00000225740	protein_coding	KNOWN	CCDS11212	405	1362	453	19641297	19651746	-1	ALDH3	None
17	ALDH3A1	ENSG00000108602	ENST00000457500	protein_coding	KNOWN	CCDS11212	405	1362	453	19641301	19648772	-1	ALDH3	None
17	ALDH3A1	ENSG00000108602	ENST00000439102	protein_coding	KNOWN	None	405	1116	371	19642821	19648993	-1	ALDH3	None
17	ALDH3A1	ENSG00000108602	ENST00000487650	retained_intron	KNOWN	None	405	None	None	19643488	19644669	-1	ALDH3	None
17	ALDH3A1	ENSG00000108602	ENST00000485472	retained_intron	KNOWN	None	405	None	None	19643684	19646813	-1	ALDH3	None
17	ALDH3A1	ENSG00000108602	ENST00000426645	protein_coding	NOVEL	None	405	777	258	19644406	19648446	-1	ALDH3	None
17	ALDH3A1	ENSG00000108602	ENST00000485231	processed_transcript	KNOWN	None	405	None	None	19645939	19651611	-1	ALDH3	None
17	ALDH3A1	ENSG00000108602	ENST00000575860	retained_intron	KNOWN	None	405	None	None	19646344	19648459	-1	ALDH3	None
17	ALDH3A1	ENSG00000108602	ENST00000574162	protein_coding	KNOWN	None	405	394	130	19646545	19652256	-1	ALDH3	None
17	ALDH3A1	ENSG00000108602	ENST00000573368	protein_coding	KNOWN	None	405	359	118	19646580	19648725	-1	ALDH3	None
17	ALDH3A1	ENSG00000108602	ENST00000570414	protein_coding	KNOWN	None	405	224	73	19646715	19651606	-1	ALDH3	None
17	ALDH3A1	ENSG00000108602	ENST00000575103	retained_intron	KNOWN	None	405	None	None	19648135	19648925	-1	ALDH3	None
17	ALDH3A1	ENSG00000108602	ENST00000444455	protein_coding	KNOWN	CCDS11212	405	1362	453	19641300	19648925	-1	ALDH3	None
7	None	ENSG00000233824	ENST00000414127	lincRNA	KNOWN	None	None	None	None	25360921	25366434	-1	None	None
10	RNU6-478P	ENSG00000200774	ENST00000363904	snRNA	KNOWN	None	47441	None	None	84827718	84827827	-1	None	None
19	ZNF699	ENSG00000196110	ENST00000591998	protein_coding	KNOWN	CCDS42495	24750	1929	642	9404951	9420249	-1	None	FLJ38144, hang
19	ZNF699	ENSG00000196110	ENST00000588336	processed_transcript	KNOWN	None	24750	None	None	9413139	9420514	-1	None	FLJ38144, hang
19	ZNF699	ENSG00000196110	ENST00000308650	protein_coding	KNOWN	CCDS42495	24750	1929	642	9404951	9415795	-1	None	FLJ38144, hang
12	TMTC2	ENSG00000179104	ENST00000551915	retained_intron	KNOWN	None	25440	None	None	83080659	83380352	1	None	DKFZp762A217
12	TMTC2	ENSG00000179104	ENST00000321196	protein_coding	KNOWN	CCDS9025	25440	2511	836	83080659	83528631	1	None	DKFZp762A217
12	TMTC2	ENSG00000179104	ENST00000548305	protein_coding	PUTATIVE	None	25440	1914	637	83080780	83359746	1	None	DKFZp762A217
12	TMTC2	ENSG00000179104	ENST00000546590	nonsense_mediated_decay	KNOWN	None	25440	108	35	83081260	83528649	1	None	DKFZp762A217
12	TMTC2	ENSG00000179104	ENST00000549919	protein_coding	PUTATIVE	None	25440	2493	830	83152334	83528081	1	None	DKFZp762A217
7	None	ENSG00000271064	ENST00000603786	processed_pseudogene	KNOWN	None	None	None	None	66213825	66214064	-1	None	None
10	MARK2P15	ENSG00000234931	ENST00000432204	processed_pseudogene	KNOWN	None	45119	None	None	85071384	85074231	-1	None	None
16	RNU6-845P	ENSG00000199448	ENST00000362578	snRNA	KNOWN	None	47808	None	None	46590001	46590103	-1	None	None
17	PLD6	ENSG00000179598	ENST00000321560	protein_coding	KNOWN	CCDS11182	30447	759	252	17104309	17109629	-1	None	None
HSCHR6_MHC_QBL	GPANK1	ENSG00000206408	ENST00000400139	protein_coding	KNOWN	None	13920	1071	356	31619246	31624306	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_QBL	GPANK1	ENSG00000206408	ENST00000400129	protein_coding	KNOWN	None	13920	1071	356	31620098	31623413	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_QBL	GPANK1	ENSG00000206408	ENST00000383434	protein_coding	KNOWN	None	13920	1071	356	31620098	31623653	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_QBL	GPANK1	ENSG00000206408	ENST00000400134	protein_coding	KNOWN	None	13920	1071	356	31620098	31623873	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_QBL	GPANK1	ENSG00000206408	ENST00000383436	protein_coding	KNOWN	None	13920	1071	356	31620098	31623884	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_QBL	GPANK1	ENSG00000206408	ENST00000425437	protein_coding	KNOWN	None	13920	596	197	31621906	31623820	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_QBL	GPANK1	ENSG00000206408	ENST00000415610	protein_coding	KNOWN	None	13920	494	163	31622008	31623465	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_QBL	GPANK1	ENSG00000206408	ENST00000414010	protein_coding	KNOWN	None	13920	456	151	31622046	31623213	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_QBL	GPANK1	ENSG00000206408	ENST00000441661	protein_coding	KNOWN	None	13920	321	106	31622181	31623857	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_QBL	GPANK1	ENSG00000206408	ENST00000438225	protein_coding	KNOWN	None	13920	269	88	31622233	31623208	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
16	None	ENSG00000261356	ENST00000565911	processed_pseudogene	KNOWN	None	None	None	None	46605449	46606048	1	None	None
10	None	ENSG00000265268	ENST00000580418	miRNA	NOVEL	None	None	None	None	85196790	85196885	-1	None	None
10	None	ENSG00000233945	ENST00000441776	lincRNA	KNOWN	None	None	None	None	85432162	85435195	-1	None	None
22	L3MBTL2	ENSG00000100395	ENST00000216237	protein_coding	KNOWN	CCDS14011	18594	2118	705	41601209	41627275	1	None	H-l(3)mbt-l, DKFZP761I141, dJ756G23.3
22	L3MBTL2	ENSG00000100395	ENST00000481902	retained_intron	KNOWN	None	18594	None	None	41601286	41623814	1	None	H-l(3)mbt-l, DKFZP761I141, dJ756G23.3
22	L3MBTL2	ENSG00000100395	ENST00000489136	processed_transcript	KNOWN	None	18594	None	None	41601306	41613177	1	None	H-l(3)mbt-l, DKFZP761I141, dJ756G23.3
22	L3MBTL2	ENSG00000100395	ENST00000466589	retained_intron	KNOWN	None	18594	None	None	41601313	41626658	1	None	H-l(3)mbt-l, DKFZP761I141, dJ756G23.3
22	L3MBTL2	ENSG00000100395	ENST00000453659	nonsense_mediated_decay	KNOWN	None	18594	123	40	41601316	41606012	1	None	H-l(3)mbt-l, DKFZP761I141, dJ756G23.3
22	L3MBTL2	ENSG00000100395	ENST00000479978	retained_intron	KNOWN	None	18594	None	None	41601325	41627274	1	None	H-l(3)mbt-l, DKFZP761I141, dJ756G23.3
22	L3MBTL2	ENSG00000100395	ENST00000452106	nonsense_mediated_decay	KNOWN	None	18594	1845	614	41601328	41627275	1	None	H-l(3)mbt-l, DKFZP761I141, dJ756G23.3
22	L3MBTL2	ENSG00000100395	ENST00000449635	protein_coding	KNOWN	None	18594	864	287	41605700	41617371	1	None	H-l(3)mbt-l, DKFZP761I141, dJ756G23.3
22	L3MBTL2	ENSG00000100395	ENST00000450939	nonsense_mediated_decay	KNOWN	None	18594	699	232	41605700	41620169	1	None	H-l(3)mbt-l, DKFZP761I141, dJ756G23.3
2	HDAC4	ENSG00000068024	ENST00000345617	protein_coding	KNOWN	CCDS2529	14063	3255	1084	239969864	240322643	-1	None	KIAA0288, HDAC-A, HDACA, HD4, HA6116, HDAC-4
2	HDAC4	ENSG00000068024	ENST00000430200	protein_coding	NOVEL	None	14063	527	174	239974742	239988677	-1	None	KIAA0288, HDAC-A, HDACA, HD4, HA6116, HDAC-4
2	HDAC4	ENSG00000068024	ENST00000494800	processed_transcript	KNOWN	None	14063	None	None	239976880	240002831	-1	None	KIAA0288, HDAC-A, HDACA, HD4, HA6116, HDAC-4
2	HDAC4	ENSG00000068024	ENST00000487617	retained_intron	KNOWN	None	14063	None	None	240002614	240029749	-1	None	KIAA0288, HDAC-A, HDACA, HD4, HA6116, HDAC-4
2	HDAC4	ENSG00000068024	ENST00000463007	retained_intron	KNOWN	None	14063	None	None	240011372	240220334	-1	None	KIAA0288, HDAC-A, HDACA, HD4, HA6116, HDAC-4
2	HDAC4	ENSG00000068024	ENST00000495497	retained_intron	KNOWN	None	14063	None	None	240012840	240024537	-1	None	KIAA0288, HDAC-A, HDACA, HD4, HA6116, HDAC-4
2	HDAC4	ENSG00000068024	ENST00000493582	retained_intron	KNOWN	None	14063	None	None	240016270	240323348	-1	None	KIAA0288, HDAC-A, HDACA, HD4, HA6116, HDAC-4
2	HDAC4	ENSG00000068024	ENST00000535493	retained_intron	KNOWN	None	14063	None	None	240016586	240220225	-1	None	KIAA0288, HDAC-A, HDACA, HD4, HA6116, HDAC-4
2	HDAC4	ENSG00000068024	ENST00000460235	retained_intron	KNOWN	None	14063	None	None	240024305	240029800	-1	None	KIAA0288, HDAC-A, HDACA, HD4, HA6116, HDAC-4
2	HDAC4	ENSG00000068024	ENST00000461113	retained_intron	KNOWN	None	14063	None	None	240048329	240076709	-1	None	KIAA0288, HDAC-A, HDACA, HD4, HA6116, HDAC-4
2	HDAC4	ENSG00000068024	ENST00000445704	protein_coding	NOVEL	None	14063	445	147	240056021	240062669	-1	None	KIAA0288, HDAC-A, HDACA, HD4, HA6116, HDAC-4
2	HDAC4	ENSG00000068024	ENST00000553145	processed_transcript	KNOWN	None	14063	None	None	240056045	240077271	-1	None	KIAA0288, HDAC-A, HDACA, HD4, HA6116, HDAC-4
2	HDAC4	ENSG00000068024	ENST00000454542	protein_coding	PUTATIVE	None	14063	488	161	240085529	240112752	-1	None	KIAA0288, HDAC-A, HDACA, HD4, HA6116, HDAC-4
2	HDAC4	ENSG00000068024	ENST00000446876	protein_coding	PUTATIVE	None	14063	369	122	240098149	240230907	-1	None	KIAA0288, HDAC-A, HDACA, HD4, HA6116, HDAC-4
2	HDAC4	ENSG00000068024	ENST00000496347	retained_intron	KNOWN	None	14063	None	None	240108184	240158365	-1	None	KIAA0288, HDAC-A, HDACA, HD4, HA6116, HDAC-4
2	HDAC4	ENSG00000068024	ENST00000544989	protein_coding	KNOWN	None	14063	89	28	240158294	240322705	-1	None	KIAA0288, HDAC-A, HDACA, HD4, HA6116, HDAC-4
2	HDAC4	ENSG00000068024	ENST00000543185	protein_coding	KNOWN	None	14063	2007	668	239974703	240077271	-1	None	KIAA0288, HDAC-A, HDACA, HD4, HA6116, HDAC-4
2	HDAC4	ENSG00000068024	ENST00000541256	protein_coding	KNOWN	None	14063	2214	737	240016195	240112752	-1	None	KIAA0288, HDAC-A, HDACA, HD4, HA6116, HDAC-4
16	None	ENSG00000263196	ENST00000574391	unprocessed_pseudogene	KNOWN	None	None	None	None	10817281	10817623	-1	None	None
17	ATP5H	ENSG00000167863	ENST00000580649	retained_intron	KNOWN	None	845	None	None	73034958	73037293	-1	None	ATPQ, ATP5JD
17	ATP5H	ENSG00000167863	ENST00000301587	protein_coding	KNOWN	CCDS11712	845	486	161	73034958	73043058	-1	None	ATPQ, ATP5JD
17	ATP5H	ENSG00000167863	ENST00000344546	protein_coding	KNOWN	CCDS32727	845	414	137	73034958	73043080	-1	None	ATPQ, ATP5JD
17	ATP5H	ENSG00000167863	ENST00000538432	nonsense_mediated_decay	KNOWN	None	845	246	81	73035113	73043045	-1	None	ATPQ, ATP5JD
17	ATP5H	ENSG00000167863	ENST00000582341	retained_intron	KNOWN	None	845	None	None	73037527	73038756	-1	None	ATPQ, ATP5JD
7	NPVF	ENSG00000105954	ENST00000222674	protein_coding	KNOWN	CCDS5395	13782	591	196	25264189	25268105	-1	C7orf9	RFRP
7	None	ENSG00000260951	ENST00000562268	lincRNA	KNOWN	None	None	None	None	25397859	25399527	-1	None	None
5	None	ENSG00000212114	ENST00000390825	miRNA	NOVEL	None	None	None	None	122112126	122112222	-1	None	None
11	RHOG	ENSG00000177105	ENST00000351018	protein_coding	KNOWN	CCDS7748	672	576	191	3848208	3862213	-1	ARHG	RhoG, MGC125835, MGC125836
11	RHOG	ENSG00000177105	ENST00000396979	protein_coding	KNOWN	CCDS7748	672	576	191	3848212	3859097	-1	ARHG	RhoG, MGC125835, MGC125836
11	RHOG	ENSG00000177105	ENST00000396978	protein_coding	KNOWN	CCDS7748	672	576	191	3848646	3862072	-1	ARHG	RhoG, MGC125835, MGC125836
11	RHOG	ENSG00000177105	ENST00000533217	protein_coding	KNOWN	CCDS7748	672	576	191	3848675	3851881	-1	ARHG	RhoG, MGC125835, MGC125836
5	None	ENSG00000252295	ENST00000516486	snoRNA	NOVEL	None	None	None	None	122131820	122131922	1	None	None
9	None	ENSG00000237886	ENST00000429224	antisense	KNOWN	None	None	None	None	139440664	139443901	1	None	None
9	None	ENSG00000237886	ENST00000450304	antisense	KNOWN	None	None	None	None	139443582	139444345	1	None	None
20	DEFB119	ENSG00000180483	ENST00000492344	processed_transcript	KNOWN	None	18099	None	None	29964967	29978372	-1	DEFB120	DEFB-19, DEFB-20
20	DEFB119	ENSG00000180483	ENST00000339144	protein_coding	PUTATIVE	None	18099	132	43	29964967	29978393	-1	DEFB120	DEFB-19, DEFB-20
20	DEFB119	ENSG00000180483	ENST00000376321	protein_coding	KNOWN	CCDS13178	18099	255	84	29964967	29978406	-1	DEFB120	DEFB-19, DEFB-20
20	DEFB119	ENSG00000180483	ENST00000376315	protein_coding	KNOWN	CCDS33455	18099	267	88	29976771	29978286	-1	DEFB120	DEFB-19, DEFB-20
5	None	ENSG00000260686	ENST00000565823	sense_overlapping	KNOWN	None	None	None	None	122168051	122170228	1	None	None
10	CYP26C1	ENSG00000187553	ENST00000285949	protein_coding	KNOWN	CCDS7425	20577	1569	522	94821021	94828454	1	None	None
16	None	ENSG00000260678	ENST00000562444	transcribed_processed_pseudogene	KNOWN	None	None	None	None	30626577	30627000	-1	None	None
10	None	ENSG00000236990	ENST00000455199	lincRNA	KNOWN	None	None	None	None	4093918	4131205	1	None	None
17	None	ENSG00000264187	ENST00000427497	nonsense_mediated_decay	KNOWN	None	None	288	95	17105963	17140499	-1	None	None
3	ATP13A5	ENSG00000187527	ENST00000342358	protein_coding	KNOWN	CCDS33914	31789	3657	1218	192992579	193096632	-1	None	FLJ16025
3	ATP13A5	ENSG00000187527	ENST00000495496	processed_transcript	KNOWN	None	31789	None	None	192992678	193031152	-1	None	FLJ16025
3	ATP13A5	ENSG00000187527	ENST00000488957	retained_intron	KNOWN	None	31789	None	None	193030490	193041801	-1	None	FLJ16025
3	ATP13A5	ENSG00000187527	ENST00000446087	protein_coding	NOVEL	None	31789	474	157	193080403	193096609	-1	None	FLJ16025
7	None	ENSG00000227386	ENST00000412197	lincRNA	KNOWN	None	None	None	None	25587382	25590682	-1	None	None
16	None	ENSG00000262158	ENST00000572729	unprocessed_pseudogene	KNOWN	None	None	None	None	10817693	10818474	-1	None	None
11	RPL31P47	ENSG00000233541	ENST00000479573	processed_pseudogene	KNOWN	None	36124	None	None	122921869	122922109	1	None	None
9	None	ENSG00000252440	ENST00000516631	snoRNA	NOVEL	None	None	None	None	139496967	139497062	1	None	None
10	TSPAN15	ENSG00000099282	ENST00000373290	protein_coding	KNOWN	CCDS7294	23298	885	294	71211229	71267425	1	TM4SF15	NET-7
10	TSPAN15	ENSG00000099282	ENST00000478112	retained_intron	KNOWN	None	23298	None	None	71211233	71243848	1	TM4SF15	NET-7
10	TSPAN15	ENSG00000099282	ENST00000475069	retained_intron	KNOWN	None	23298	None	None	71243581	71266096	1	TM4SF15	NET-7
10	TSPAN15	ENSG00000099282	ENST00000452130	protein_coding	PUTATIVE	None	23298	483	160	71243624	71267422	1	TM4SF15	NET-7
10	TSPAN15	ENSG00000099282	ENST00000490083	processed_transcript	KNOWN	None	23298	None	None	71254704	71266612	1	TM4SF15	NET-7
10	TSPAN15	ENSG00000099282	ENST00000486093	processed_transcript	KNOWN	None	23298	None	None	71254727	71266833	1	TM4SF15	NET-7
10	TSPAN15	ENSG00000099282	ENST00000459981	processed_transcript	KNOWN	None	23298	None	None	71254891	71266751	1	TM4SF15	NET-7
10	TSPAN15	ENSG00000099282	ENST00000470508	retained_intron	KNOWN	None	23298	None	None	71265724	71266985	1	TM4SF15	NET-7
12	ALDH2	ENSG00000111275	ENST00000416293	protein_coding	NOVEL	CCDS55885	404	1413	470	112204691	112247442	1	None	None
12	ALDH2	ENSG00000111275	ENST00000261733	protein_coding	KNOWN	CCDS9155	404	1554	517	112204726	112247782	1	None	None
12	ALDH2	ENSG00000111275	ENST00000548536	nonsense_mediated_decay	KNOWN	None	404	240	79	112204752	112247434	1	None	None
12	ALDH2	ENSG00000111275	ENST00000549106	nonsense_mediated_decay	KNOWN	None	404	352	116	112230415	112247474	1	None	None
1	RNU7-179P	ENSG00000252417	ENST00000516608	snRNA	KNOWN	None	45713	None	None	15934573	15934640	-1	None	None
3	None	ENSG00000225790	ENST00000450500	lincRNA	KNOWN	None	None	None	None	177652611	177655450	1	None	None
5	None	ENSG00000239103	ENST00000459089	snoRNA	NOVEL	None	None	None	None	122345237	122345335	-1	None	None
4	ZFP42	ENSG00000179059	ENST00000509524	protein_coding	KNOWN	CCDS3849	30949	933	310	188916925	188926199	1	None	REX1, ZNF754
4	ZFP42	ENSG00000179059	ENST00000326866	protein_coding	KNOWN	CCDS3849	30949	933	310	188916925	188926204	1	None	REX1, ZNF754
5	None	ENSG00000268714	ENST00000600981	protein_coding	PUTATIVE	None	None	420	139	115358088	115394625	1	None	None
16	None	ENSG00000262381	ENST00000576835	unprocessed_pseudogene	KNOWN	None	None	None	None	10818477	10819153	-1	None	None
7	None	ENSG00000222101	ENST00000410169	miRNA	NOVEL	None	None	None	None	25610288	25610378	1	None	None
11	UBE4A	ENSG00000110344	ENST00000252108	protein_coding	KNOWN	CCDS55790	12499	3201	1066	118230300	118269926	1	None	UBOX2, UFD2, KIAA0126, E4
11	UBE4A	ENSG00000110344	ENST00000431736	protein_coding	KNOWN	CCDS8396	12499	3222	1073	118230359	118269922	1	None	UBOX2, UFD2, KIAA0126, E4
11	UBE4A	ENSG00000110344	ENST00000545354	protein_coding	KNOWN	None	12499	1617	538	118249216	118267222	1	None	UBOX2, UFD2, KIAA0126, E4
12	None	ENSG00000258033	ENST00000547000	unprocessed_pseudogene	KNOWN	None	None	None	None	101460512	101463010	1	None	None
1	None	ENSG00000236500	ENST00000422383	processed_pseudogene	KNOWN	None	None	None	None	15941138	15941362	-1	None	None
5	RN7SL689P	ENSG00000263432	ENST00000577215	misc_RNA	KNOWN	None	46705	None	None	122358184	122358478	-1	None	None
15	None	ENSG00000259312	ENST00000559214	lincRNA	KNOWN	None	None	None	None	96981800	96987496	1	None	None
13	GPR18	ENSG00000125245	ENST00000340807	protein_coding	KNOWN	CCDS9491	4472	996	331	99906986	99913998	-1	None	None
13	GPR18	ENSG00000125245	ENST00000416594	protein_coding	KNOWN	None	4472	294	97	99907833	99910628	-1	None	None
13	GPR18	ENSG00000125245	ENST00000397473	protein_coding	KNOWN	CCDS9491	4472	996	331	99906968	99910682	-1	None	None
13	GPR18	ENSG00000125245	ENST00000397470	protein_coding	KNOWN	CCDS9491	4472	996	331	99906968	99910682	-1	None	None
15	MFAP1	ENSG00000140259	ENST00000267812	protein_coding	KNOWN	CCDS10105	7032	1320	439	44096690	44117000	-1	None	None
15	MFAP1	ENSG00000140259	ENST00000484386	retained_intron	KNOWN	None	7032	None	None	44097104	44102330	-1	None	None
5	None	ENSG00000249996	ENST00000506859	antisense	KNOWN	None	None	None	None	122371966	122390362	1	None	None
15	PGAM1P12	ENSG00000250825	ENST00000505622	processed_pseudogene	KNOWN	None	42459	None	None	96984796	96985543	-1	None	None
11	SNORD14E	ENSG00000200879	ENST00000364009	snoRNA	KNOWN	None	30354	None	None	122928785	122928869	-1	None	None
X	None	ENSG00000234201	ENST00000445879	processed_pseudogene	KNOWN	None	None	None	None	67011797	67012737	-1	None	None
16	None	ENSG00000262488	ENST00000577174	processed_pseudogene	KNOWN	None	None	None	None	10934241	10935401	-1	None	None
16	GINS3	ENSG00000181938	ENST00000567400	processed_transcript	PUTATIVE	None	25851	None	None	58328984	58333877	1	None	FLJ13912, PSF3
16	GINS3	ENSG00000181938	ENST00000561952	processed_transcript	PUTATIVE	None	25851	None	None	58329020	58420685	1	None	FLJ13912, PSF3
16	GINS3	ENSG00000181938	ENST00000568468	processed_transcript	KNOWN	None	25851	None	None	58329093	58421274	1	None	FLJ13912, PSF3
16	GINS3	ENSG00000181938	ENST00000564814	processed_transcript	PUTATIVE	None	25851	None	None	58329301	58426478	1	None	FLJ13912, PSF3
16	GINS3	ENSG00000181938	ENST00000567432	processed_transcript	PUTATIVE	None	25851	None	None	58401948	58420606	1	None	FLJ13912, PSF3
16	GINS3	ENSG00000181938	ENST00000426538	protein_coding	KNOWN	CCDS45498	25851	768	255	58426298	58439385	1	None	FLJ13912, PSF3
16	GINS3	ENSG00000181938	ENST00000328514	protein_coding	KNOWN	CCDS45499	25851	417	138	58426298	58439940	1	None	FLJ13912, PSF3
16	GINS3	ENSG00000181938	ENST00000318129	protein_coding	KNOWN	CCDS10796	25851	651	216	58426298	58440048	1	None	FLJ13912, PSF3
16	GINS3	ENSG00000181938	ENST00000567909	processed_transcript	PUTATIVE	None	25851	None	None	58426602	58427577	1	None	FLJ13912, PSF3
16	GINS3	ENSG00000181938	ENST00000567143	retained_intron	KNOWN	None	25851	None	None	58436846	58440047	1	None	FLJ13912, PSF3
3	None	ENSG00000270321	ENST00000603299	lincRNA	KNOWN	None	None	None	None	177671854	177677586	-1	None	None
7	None	ENSG00000223561	ENST00000446840	processed_transcript	KNOWN	None	None	None	None	25632971	25702673	-1	None	None
7	None	ENSG00000223561	ENST00000456777	processed_transcript	KNOWN	None	None	None	None	25634153	25790614	-1	None	None
7	None	ENSG00000223561	ENST00000423689	retained_intron	KNOWN	None	None	None	None	25696691	25702561	-1	None	None
X	None	ENSG00000266257	ENST00000582731	miRNA	NOVEL	None	None	None	None	30333202	30333295	-1	None	None
15	None	ENSG00000242295	ENST00000465747	processed_pseudogene	KNOWN	None	None	None	None	96991384	96991723	1	None	None
5	RN7SL711P	ENSG00000263654	ENST00000579731	misc_RNA	KNOWN	None	46727	None	None	122406477	122406773	1	None	None
X	CKS1BP6	ENSG00000178556	ENST00000424932	processed_pseudogene	KNOWN	None	24608	None	None	30635571	30635810	1	None	None
11	SNORD14D	ENSG00000207118	ENST00000384390	snoRNA	KNOWN	None	30353	None	None	122929617	122929703	-1	None	None
10	DUSP5	ENSG00000138166	ENST00000369583	protein_coding	KNOWN	CCDS7566	3071	1155	384	112257596	112271302	1	None	HVH3
10	DUSP5	ENSG00000138166	ENST00000468749	processed_transcript	KNOWN	None	3071	None	None	112262505	112270195	1	None	HVH3
1	MGST3	ENSG00000143198	ENST00000367889	protein_coding	KNOWN	CCDS1249	7064	459	152	165600098	165624857	1	None	GST-III
1	MGST3	ENSG00000143198	ENST00000367888	protein_coding	PUTATIVE	None	7064	390	129	165600450	165631033	1	None	GST-III
1	MGST3	ENSG00000143198	ENST00000461308	retained_intron	KNOWN	None	7064	None	None	165600463	165620011	1	None	GST-III
1	MGST3	ENSG00000143198	ENST00000460632	processed_transcript	KNOWN	None	7064	None	None	165600474	165606386	1	None	GST-III
1	MGST3	ENSG00000143198	ENST00000495447	retained_intron	KNOWN	None	7064	None	None	165600476	165624854	1	None	GST-III
1	MGST3	ENSG00000143198	ENST00000367885	protein_coding	PUTATIVE	None	7064	501	166	165600477	165624857	1	None	GST-III
1	MGST3	ENSG00000143198	ENST00000404549	protein_coding	PUTATIVE	None	7064	501	166	165600477	165624857	1	None	GST-III
1	MGST3	ENSG00000143198	ENST00000367884	protein_coding	KNOWN	CCDS1249	7064	459	152	165600492	165624857	1	None	GST-III
1	MGST3	ENSG00000143198	ENST00000488688	retained_intron	KNOWN	None	7064	None	None	165600495	165620831	1	None	GST-III
1	MGST3	ENSG00000143198	ENST00000367883	protein_coding	KNOWN	None	7064	501	166	165601300	165624857	1	None	GST-III
1	MGST3	ENSG00000143198	ENST00000461759	processed_transcript	KNOWN	None	7064	None	None	165614898	165617907	1	None	GST-III
1	MGST3	ENSG00000143198	ENST00000477450	processed_transcript	KNOWN	None	7064	None	None	165619075	165623038	1	None	GST-III
1	MGST3	ENSG00000143198	ENST00000494074	retained_intron	KNOWN	None	7064	None	None	165623070	165624857	1	None	GST-III
1	MGST3	ENSG00000143198	ENST00000367886	protein_coding	KNOWN	None	7064	501	166	165601477	165624853	1	None	GST-III
X	None	ENSG00000260118	ENST00000561973	lincRNA	KNOWN	None	None	None	None	67233312	67234743	-1	None	None
12	RNU6-768P	ENSG00000207414	ENST00000384683	snRNA	KNOWN	None	47731	None	None	101593049	101593155	-1	None	None
5	None	ENSG00000223652	ENST00000442777	antisense	KNOWN	None	None	None	None	122422943	122424990	-1	None	None
5	None	ENSG00000223652	ENST00000458103	antisense	KNOWN	None	None	None	None	122423329	122425994	-1	None	None
X	FTLP2	ENSG00000232368	ENST00000431458	processed_pseudogene	KNOWN	None	4001	None	None	30648415	30648942	1	FTLL2	None
12	CCDC60	ENSG00000183273	ENST00000536742	protein_coding	PUTATIVE	None	28610	402	133	119772517	119871441	1	None	MGC39827
12	CCDC60	ENSG00000183273	ENST00000327554	protein_coding	KNOWN	CCDS9190	28610	1653	550	119772517	119978852	1	None	MGC39827
12	CCDC60	ENSG00000183273	ENST00000539847	protein_coding	PUTATIVE	None	28610	174	57	119772734	119866730	1	None	MGC39827
12	CCDC60	ENSG00000183273	ENST00000546345	processed_transcript	KNOWN	None	28610	None	None	119772832	119917557	1	None	MGC39827
12	CCDC60	ENSG00000183273	ENST00000535685	processed_transcript	KNOWN	None	28610	None	None	119773016	119885717	1	None	MGC39827
HSCHR6_MHC_COX	ZNF311	ENSG00000223687	ENST00000487312	processed_transcript	KNOWN	None	13847	None	None	28959158	28969698	-1	None	None
HSCHR6_MHC_COX	ZNF311	ENSG00000223687	ENST00000452316	protein_coding	KNOWN	None	13847	2001	666	28959244	28969642	-1	None	None
3	RNU6-1120P	ENSG00000199858	ENST00000362988	snRNA	KNOWN	None	48083	None	None	177725460	177725567	-1	None	None
1	None	ENSG00000271742	ENST00000606262	lincRNA	KNOWN	None	None	None	None	16009368	16009623	-1	None	None
15	None	ENSG00000259534	ENST00000560586	lincRNA	KNOWN	None	None	None	None	96992072	96992979	1	None	None
10	CYP26A1	ENSG00000095596	ENST00000371531	protein_coding	KNOWN	CCDS7427	2603	1287	428	94833232	94837641	1	None	P450RAI, CP26, CYP26, P450RAI1
10	CYP26A1	ENSG00000095596	ENST00000224356	protein_coding	KNOWN	CCDS7426	2603	1494	497	94833647	94837647	1	None	P450RAI, CP26, CYP26, P450RAI1
10	CYP26A1	ENSG00000095596	ENST00000394139	protein_coding	KNOWN	CCDS7427	2603	1287	428	94833647	94837647	1	None	P450RAI, CP26, CYP26, P450RAI1
11	SNORD14C	ENSG00000202252	ENST00000365382	snoRNA	KNOWN	None	30352	None	None	122930043	122930130	-1	None	None
X	None	ENSG00000228328	ENST00000426382	processed_pseudogene	KNOWN	None	None	None	None	67290362	67291609	-1	None	None
X	GK-IT1	ENSG00000229331	ENST00000441146	sense_intronic	KNOWN	None	41339	None	None	30689752	30690283	1	None	None
15	RN7SKP254	ENSG00000222617	ENST00000410685	misc_RNA	KNOWN	None	45978	None	None	97029812	97030121	1	None	None
16	None	ENSG00000262151	ENST00000572017	antisense	KNOWN	None	None	None	None	10958771	10982609	-1	None	None
16	None	ENSG00000262151	ENST00000573071	antisense	KNOWN	None	None	None	None	10971057	10982495	-1	None	None
15	None	ENSG00000259340	ENST00000559699	processed_pseudogene	KNOWN	None	None	None	None	97094611	97094747	1	None	None
4	PRKG2	ENSG00000138669	ENST00000395578	protein_coding	KNOWN	CCDS3589	9416	2289	762	82009837	82136188	-1	None	cGKII, PRKGR2
4	PRKG2	ENSG00000138669	ENST00000509169	processed_transcript	KNOWN	None	9416	None	None	82010647	82075311	-1	None	cGKII, PRKGR2
4	PRKG2	ENSG00000138669	ENST00000509474	processed_transcript	KNOWN	None	9416	None	None	82010751	82075407	-1	None	cGKII, PRKGR2
4	PRKG2	ENSG00000138669	ENST00000456882	processed_transcript	KNOWN	None	9416	None	None	82061782	82075298	-1	None	cGKII, PRKGR2
4	PRKG2	ENSG00000138669	ENST00000264399	protein_coding	KNOWN	CCDS3589	9416	2289	762	82009837	82126215	-1	None	cGKII, PRKGR2
4	PRKG2	ENSG00000138669	ENST00000418486	protein_coding	KNOWN	None	9416	2202	733	82010583	82136218	-1	None	cGKII, PRKGR2
4	PRKG2	ENSG00000138669	ENST00000545647	protein_coding	KNOWN	None	9416	1029	342	82010647	82074886	-1	None	cGKII, PRKGR2
12	None	ENSG00000241744	ENST00000472008	processed_pseudogene	KNOWN	None	None	None	None	101621919	101622654	-1	None	None
X	None	ENSG00000241886	ENST00000497961	processed_transcript	PUTATIVE	None	None	None	None	30716324	30740049	1	None	None
17	None	ENSG00000214921	ENST00000399246	protein_coding	KNOWN	None	None	111	36	42325758	42327236	-1	None	None
10	FGF8	ENSG00000107831	ENST00000469792	nonsense_mediated_decay	KNOWN	None	3686	114	37	103529899	103535854	-1	None	AIGF
10	FGF8	ENSG00000107831	ENST00000344255	protein_coding	KNOWN	CCDS7517	3686	702	233	103530081	103535657	-1	None	AIGF
10	FGF8	ENSG00000107831	ENST00000485728	processed_transcript	KNOWN	None	3686	None	None	103530081	103535657	-1	None	AIGF
10	FGF8	ENSG00000107831	ENST00000320185	protein_coding	KNOWN	CCDS7516	3686	735	244	103530081	103535716	-1	None	AIGF
10	FGF8	ENSG00000107831	ENST00000346714	protein_coding	KNOWN	CCDS7518	3686	615	204	103530081	103535731	-1	None	AIGF
10	FGF8	ENSG00000107831	ENST00000347978	protein_coding	KNOWN	CCDS7515	3686	648	215	103530081	103535827	-1	None	AIGF
19	None	ENSG00000267759	ENST00000586403	sense_intronic	KNOWN	None	None	None	None	1413900	1414734	1	None	None
X	GK-AS1	ENSG00000243055	ENST00000464659	antisense	KNOWN	None	40255	None	None	30718115	30742291	-1	None	None
5	None	ENSG00000213655	ENST00000513479	processed_pseudogene	KNOWN	None	None	None	None	122571773	122572064	1	None	None
6	RPF2	ENSG00000197498	ENST00000368864	nonsense_mediated_decay	KNOWN	None	20870	231	76	111303218	111345530	1	BXDC1	FLJ21087, bA397G5.4
6	RPF2	ENSG00000197498	ENST00000441448	protein_coding	KNOWN	CCDS5088	20870	921	306	111303218	111347303	1	BXDC1	FLJ21087, bA397G5.4
6	RPF2	ENSG00000197498	ENST00000607388	nonsense_mediated_decay	KNOWN	None	20870	180	59	111303253	111349466	1	BXDC1	FLJ21087, bA397G5.4
6	RPF2	ENSG00000197498	ENST00000425871	protein_coding	PUTATIVE	None	20870	642	213	111303519	111345530	1	BXDC1	FLJ21087, bA397G5.4
13	GPR183	ENSG00000169508	ENST00000376414	protein_coding	KNOWN	CCDS9492	3128	1086	361	99946784	99959659	-1	EBI2	None
15	FAM149B1P1	ENSG00000214424	ENST00000533428	processed_pseudogene	KNOWN	None	31735	None	None	97300217	97301826	1	KIAA0974P, FAM149B2	None
1	None	ENSG00000264048	ENST00000584345	miRNA	NOVEL	None	None	None	None	16010967	16011053	1	None	None
10	None	ENSG00000233472	ENST00000425137	lincRNA	KNOWN	None	None	None	None	28288717	28338544	1	None	None
17	None	ENSG00000268413	ENST00000597382	protein_coding	NOVEL	None	None	57	18	42335297	42355825	1	None	None
HSCHR5_1_CTG1	MARVELD2	ENSG00000263043	ENST00000573599	protein_coding	KNOWN	None	26401	1677	558	68711180	68737670	1	MRVLDC2, DFNB49	FLJ30532, TRIC
HSCHR5_1_CTG1	MARVELD2	ENSG00000263043	ENST00000573228	protein_coding	KNOWN	None	26401	436	144	68711297	68715889	1	MRVLDC2, DFNB49	FLJ30532, TRIC
HSCHR5_1_CTG1	MARVELD2	ENSG00000263043	ENST00000571304	protein_coding	KNOWN	None	26401	1550	515	68711450	68736110	1	MRVLDC2, DFNB49	FLJ30532, TRIC
HSCHR5_1_CTG1	MARVELD2	ENSG00000263043	ENST00000571909	protein_coding	NOVEL	None	26401	1329	442	68715436	68737484	1	MRVLDC2, DFNB49	FLJ30532, TRIC
HSCHR5_1_CTG1	MARVELD2	ENSG00000263043	ENST00000576933	protein_coding	KNOWN	None	26401	1641	546	68715454	68739968	1	MRVLDC2, DFNB49	FLJ30532, TRIC
X	TAB3-AS1	ENSG00000231542	ENST00000428263	antisense	KNOWN	None	20176	None	None	30852740	30853417	1	CXorf29	OTTHUMG00000021331
16	None	ENSG00000263013	ENST00000570440	sense_intronic	KNOWN	None	None	None	None	11032743	11033901	-1	None	None
3	None	ENSG00000223930	ENST00000414475	lincRNA	KNOWN	None	None	None	None	177919838	178103097	-1	None	None
3	None	ENSG00000223930	ENST00000439810	lincRNA	KNOWN	None	None	None	None	177924467	178103205	-1	None	None
3	None	ENSG00000223930	ENST00000411727	lincRNA	KNOWN	None	None	None	None	178051327	178103184	-1	None	None
3	None	ENSG00000223930	ENST00000418585	lincRNA	KNOWN	None	None	None	None	178052810	178103164	-1	None	None
3	None	ENSG00000223930	ENST00000417383	lincRNA	KNOWN	None	None	None	None	178052813	178103145	-1	None	None
19	GIPR	ENSG00000010310	ENST00000590918	protein_coding	KNOWN	CCDS12671	4271	1401	466	46171502	46186982	1	None	None
19	GIPR	ENSG00000010310	ENST00000263281	protein_coding	KNOWN	None	4271	1260	419	46171514	46185413	1	None	None
19	GIPR	ENSG00000010310	ENST00000304207	protein_coding	NOVEL	None	4271	1293	430	46171515	46185246	1	None	None
19	GIPR	ENSG00000010310	ENST00000585889	nonsense_mediated_decay	KNOWN	None	4271	798	265	46171515	46185251	1	None	None
19	GIPR	ENSG00000010310	ENST00000591322	protein_coding	PUTATIVE	None	4271	52	16	46173514	46174620	1	None	None
19	GIPR	ENSG00000010310	ENST00000588816	retained_intron	KNOWN	None	4271	None	None	46175876	46178670	1	None	None
19	GIPR	ENSG00000010310	ENST00000591224	retained_intron	KNOWN	None	4271	None	None	46180784	46181658	1	None	None
19	GIPR	ENSG00000010310	ENST00000593127	processed_transcript	KNOWN	None	4271	None	None	46180895	46181384	1	None	None
5	KRT8P33	ENSG00000250539	ENST00000508125	processed_pseudogene	KNOWN	None	39867	None	None	122736616	122738038	-1	None	None
19	None	ENSG00000267317	ENST00000591252	retained_intron	KNOWN	None	None	None	None	1457664	1458590	-1	None	None
19	None	ENSG00000267317	ENST00000588225	antisense	KNOWN	None	None	None	None	1457895	1462764	-1	None	None
HSCHR6_MHC_COX	None	ENSG00000258009	ENST00000551929	pseudogene	NOVEL	None	None	None	None	31265840	31266054	-1	None	None
15	SPATA8-AS1	ENSG00000259282	ENST00000560888	antisense	KNOWN	None	48627	None	None	97315235	97324884	-1	None	None
15	SPATA8-AS1	ENSG00000259282	ENST00000558722	antisense	KNOWN	None	48627	None	None	97315237	97326542	-1	None	None
16	None	ENSG00000262222	ENST00000573379	antisense	KNOWN	None	None	None	None	11034576	11036878	1	None	None
5	HMGB3P17	ENSG00000249400	ENST00000504195	processed_pseudogene	KNOWN	None	39309	None	None	122804475	122805123	-1	None	None
11	STK33	ENSG00000130413	ENST00000473980	processed_transcript	KNOWN	None	14568	None	None	8413418	8474453	-1	None	None
11	STK33	ENSG00000130413	ENST00000486305	retained_intron	KNOWN	None	14568	None	None	8413418	8489201	-1	None	None
11	STK33	ENSG00000130413	ENST00000447869	protein_coding	KNOWN	CCDS7789	14568	1545	514	8413418	8497371	-1	None	None
11	STK33	ENSG00000130413	ENST00000315204	protein_coding	KNOWN	CCDS7789	14568	1545	514	8413418	8615503	-1	None	None
11	STK33	ENSG00000130413	ENST00000396672	protein_coding	KNOWN	CCDS7789	14568	1545	514	8413418	8615503	-1	None	None
11	STK33	ENSG00000130413	ENST00000358872	protein_coding	PUTATIVE	None	14568	984	327	8413418	8615775	-1	None	None
11	STK33	ENSG00000130413	ENST00000444064	protein_coding	PUTATIVE	None	14568	612	203	8413426	8476341	-1	None	None
11	STK33	ENSG00000130413	ENST00000534493	protein_coding	PUTATIVE	None	14568	1422	473	8413734	8615702	-1	None	None
11	STK33	ENSG00000130413	ENST00000526517	processed_transcript	KNOWN	None	14568	None	None	8455407	8615806	-1	None	None
11	STK33	ENSG00000130413	ENST00000524760	protein_coding	PUTATIVE	None	14568	635	210	8462273	8496302	-1	None	None
11	STK33	ENSG00000130413	ENST00000418597	protein_coding	PUTATIVE	None	14568	647	214	8476307	8615555	-1	None	None
11	STK33	ENSG00000130413	ENST00000422559	protein_coding	PUTATIVE	None	14568	574	190	8478888	8615707	-1	None	None
11	STK33	ENSG00000130413	ENST00000457885	protein_coding	KNOWN	None	14568	514	170	8483396	8498830	-1	None	None
11	STK33	ENSG00000130413	ENST00000532336	retained_intron	KNOWN	None	14568	None	None	8496195	8615532	-1	None	None
11	STK33	ENSG00000130413	ENST00000431279	protein_coding	KNOWN	None	14568	191	62	8496262	8615516	-1	None	None
11	STK33	ENSG00000130413	ENST00000454443	protein_coding	KNOWN	None	14568	113	36	8496340	8615836	-1	None	None
11	STK33	ENSG00000130413	ENST00000526360	protein_coding	KNOWN	None	14568	87	28	8496366	8587458	-1	None	None
11	STK33	ENSG00000130413	ENST00000396673	protein_coding	KNOWN	None	14568	1347	448	8413418	8615503	-1	None	None
1	None	ENSG00000237938	ENST00000453804	antisense	KNOWN	None	None	None	None	16049214	16063391	-1	None	None
8	None	ENSG00000265393	ENST00000580385	antisense	KNOWN	None	None	None	None	145737950	145739056	1	None	None
16	None	ENSG00000229917	ENST00000425129	processed_pseudogene	KNOWN	None	None	None	None	11120881	11121620	1	None	None
3	ELP6	ENSG00000163832	ENST00000296149	protein_coding	KNOWN	CCDS43082	25976	801	266	47537130	47555251	-1	TMEM103, C3orf75	FLJ20211
3	ELP6	ENSG00000163832	ENST00000442215	nonsense_mediated_decay	KNOWN	None	25976	183	60	47537131	47555199	-1	TMEM103, C3orf75	FLJ20211
3	ELP6	ENSG00000163832	ENST00000446787	protein_coding	PUTATIVE	None	25976	582	193	47537436	47552705	-1	TMEM103, C3orf75	FLJ20211
3	ELP6	ENSG00000163832	ENST00000439305	protein_coding	PUTATIVE	None	25976	582	193	47537519	47554903	-1	TMEM103, C3orf75	FLJ20211
3	ELP6	ENSG00000163832	ENST00000412761	protein_coding	PUTATIVE	None	25976	473	156	47539756	47552868	-1	TMEM103, C3orf75	FLJ20211
3	ELP6	ENSG00000163832	ENST00000444760	protein_coding	PUTATIVE	None	25976	453	150	47539776	47554871	-1	TMEM103, C3orf75	FLJ20211
3	ELP6	ENSG00000163832	ENST00000445044	nonsense_mediated_decay	KNOWN	None	25976	207	68	47539778	47554880	-1	TMEM103, C3orf75	FLJ20211
3	ELP6	ENSG00000163832	ENST00000461208	retained_intron	KNOWN	None	25976	None	None	47543017	47552716	-1	TMEM103, C3orf75	FLJ20211
3	ELP6	ENSG00000163832	ENST00000425291	protein_coding	PUTATIVE	None	25976	340	112	47543106	47552805	-1	TMEM103, C3orf75	FLJ20211
3	ELP6	ENSG00000163832	ENST00000494161	retained_intron	KNOWN	None	25976	None	None	47543140	47555192	-1	TMEM103, C3orf75	FLJ20211
3	ELP6	ENSG00000163832	ENST00000449409	protein_coding	PUTATIVE	None	25976	297	98	47543149	47554829	-1	TMEM103, C3orf75	FLJ20211
3	ELP6	ENSG00000163832	ENST00000414236	protein_coding	PUTATIVE	None	25976	240	79	47543206	47554832	-1	TMEM103, C3orf75	FLJ20211
3	ELP6	ENSG00000163832	ENST00000485029	retained_intron	KNOWN	None	25976	None	None	47545684	47555199	-1	TMEM103, C3orf75	FLJ20211
3	ELP6	ENSG00000163832	ENST00000483205	retained_intron	KNOWN	None	25976	None	None	47551446	47555201	-1	TMEM103, C3orf75	FLJ20211
3	ELP6	ENSG00000163832	ENST00000460502	processed_transcript	KNOWN	None	25976	None	None	47553259	47554851	-1	TMEM103, C3orf75	FLJ20211
8	None	ENSG00000255681	ENST00000536320	pseudogene	NOVEL	None	None	None	None	145774891	145775057	1	None	None
9	ZDHHC12	ENSG00000160446	ENST00000372663	protein_coding	KNOWN	CCDS6909	19159	804	267	131483148	131486385	-1	None	ZNF400, FLJ14524
9	ZDHHC12	ENSG00000160446	ENST00000372672	protein_coding	NOVEL	None	19159	648	215	131483148	131486401	-1	None	ZNF400, FLJ14524
9	ZDHHC12	ENSG00000160446	ENST00000372667	protein_coding	NOVEL	None	19159	846	281	131483149	131486402	-1	None	ZNF400, FLJ14524
9	ZDHHC12	ENSG00000160446	ENST00000467312	processed_transcript	KNOWN	None	19159	None	None	131483159	131486406	-1	None	ZNF400, FLJ14524
9	ZDHHC12	ENSG00000160446	ENST00000452105	protein_coding	KNOWN	None	19159	616	204	131483676	131486400	-1	None	ZNF400, FLJ14524
9	ZDHHC12	ENSG00000160446	ENST00000406904	protein_coding	KNOWN	None	19159	630	209	131483947	131486388	-1	None	ZNF400, FLJ14524
15	RN7SKP181	ENSG00000223120	ENST00000411188	misc_RNA	KNOWN	None	45905	None	None	97385299	97385614	1	None	None
4	None	ENSG00000243417	ENST00000493479	processed_pseudogene	KNOWN	None	None	None	None	153472429	153473516	-1	None	None
11	None	ENSG00000255342	ENST00000527351	processed_pseudogene	KNOWN	None	None	None	None	123006631	123007084	-1	None	None
8	None	ENSG00000256822	ENST00000538467	pseudogene	NOVEL	None	None	None	None	145784429	145784599	-1	None	None
19	APOC4	ENSG00000267467	ENST00000592954	protein_coding	KNOWN	CCDS12649	611	384	127	45445495	45448753	1	None	None
19	APOC4	ENSG00000267467	ENST00000591600	protein_coding	PUTATIVE	None	611	222	73	45445531	45448273	1	None	None
4	None	ENSG00000240669	ENST00000496058	processed_pseudogene	KNOWN	None	None	None	None	153535027	153535485	-1	None	None
15	None	ENSG00000215948	ENST00000401129	miRNA	NOVEL	None	None	None	None	97634492	97634582	-1	None	None
4	None	ENSG00000248571	ENST00000515789	antisense	KNOWN	None	None	None	None	153587520	153591259	1	None	None
12	None	ENSG00000238800	ENST00000458958	snoRNA	NOVEL	None	None	None	None	101752526	101752627	-1	None	None
15	None	ENSG00000259403	ENST00000559394	lincRNA	KNOWN	None	None	None	None	97815407	97862518	-1	None	None
12	None	ENSG00000257543	ENST00000547360	lincRNA	KNOWN	None	None	None	None	101802150	101802838	-1	None	None
4	None	ENSG00000250980	ENST00000511141	processed_pseudogene	KNOWN	None	None	None	None	153717215	153717983	-1	None	None
8	PCM1	ENSG00000078674	ENST00000325083	protein_coding	KNOWN	CCDS47812	8727	6075	2024	17780349	17885477	1	None	PTC4
8	PCM1	ENSG00000078674	ENST00000518930	processed_transcript	KNOWN	None	8727	None	None	17780477	17810544	1	None	PTC4
8	PCM1	ENSG00000078674	ENST00000517545	retained_intron	KNOWN	None	8727	None	None	17780499	17785462	1	None	PTC4
8	PCM1	ENSG00000078674	ENST00000517730	protein_coding	PUTATIVE	None	8727	2247	748	17780499	17817612	1	None	PTC4
8	PCM1	ENSG00000078674	ENST00000518537	protein_coding	PUTATIVE	None	8727	1593	530	17780508	17813464	1	None	PTC4
8	PCM1	ENSG00000078674	ENST00000518936	processed_transcript	KNOWN	None	8727	None	None	17780515	17794830	1	None	PTC4
8	PCM1	ENSG00000078674	ENST00000523055	protein_coding	KNOWN	None	8727	1225	407	17780519	17810632	1	None	PTC4
8	PCM1	ENSG00000078674	ENST00000519253	protein_coding	NOVEL	None	8727	6051	2016	17780537	17885312	1	None	PTC4
8	PCM1	ENSG00000078674	ENST00000524226	protein_coding	NOVEL	None	8727	5583	1860	17782253	17885478	1	None	PTC4
8	PCM1	ENSG00000078674	ENST00000518985	processed_transcript	PUTATIVE	None	8727	None	None	17794685	17796525	1	None	PTC4
8	PCM1	ENSG00000078674	ENST00000517836	retained_intron	KNOWN	None	8727	None	None	17815167	17819722	1	None	PTC4
8	PCM1	ENSG00000078674	ENST00000518762	processed_transcript	PUTATIVE	None	8727	None	None	17817603	17822279	1	None	PTC4
8	PCM1	ENSG00000078674	ENST00000524356	retained_intron	KNOWN	None	8727	None	None	17820462	17823544	1	None	PTC4
8	PCM1	ENSG00000078674	ENST00000523540	retained_intron	KNOWN	None	8727	None	None	17826932	17830151	1	None	PTC4
8	PCM1	ENSG00000078674	ENST00000522275	protein_coding	PUTATIVE	None	8727	2294	763	17830092	17885256	1	None	PTC4
8	PCM1	ENSG00000078674	ENST00000522998	retained_intron	KNOWN	None	8727	None	None	17830182	17843772	1	None	PTC4
8	PCM1	ENSG00000078674	ENST00000522777	retained_intron	KNOWN	None	8727	None	None	17837730	17840790	1	None	PTC4
8	PCM1	ENSG00000078674	ENST00000521338	retained_intron	KNOWN	None	8727	None	None	17863563	17867174	1	None	PTC4
8	PCM1	ENSG00000078674	ENST00000519802	retained_intron	KNOWN	None	8727	None	None	17871337	17885267	1	None	PTC4
8	PCM1	ENSG00000078674	ENST00000518877	retained_intron	KNOWN	None	8727	None	None	17871391	17883120	1	None	PTC4
8	PCM1	ENSG00000078674	ENST00000524203	processed_transcript	PUTATIVE	None	8727	None	None	17871497	17873304	1	None	PTC4
8	PCM1	ENSG00000078674	ENST00000523896	retained_intron	KNOWN	None	8727	None	None	17882460	17885267	1	None	PTC4
8	PCM1	ENSG00000078674	ENST00000327578	protein_coding	KNOWN	None	8727	2172	723	17830092	17885256	1	None	PTC4
8	None	ENSG00000265295	ENST00000577818	miRNA	NOVEL	None	None	None	None	145792691	145792776	1	None	None
13	TM9SF2	ENSG00000125304	ENST00000376387	protein_coding	KNOWN	CCDS9493	11865	1992	663	100153671	100216260	1	None	P76
13	TM9SF2	ENSG00000125304	ENST00000463709	processed_transcript	KNOWN	None	11865	None	None	100166469	100190116	1	None	P76
13	TM9SF2	ENSG00000125304	ENST00000466555	processed_transcript	KNOWN	None	11865	None	None	100192765	100193990	1	None	P76
5	None	ENSG00000239694	ENST00000475442	processed_pseudogene	KNOWN	None	None	None	None	41951415	41952295	-1	None	None
8	None	ENSG00000255456	ENST00000529377	antisense	KNOWN	None	None	None	None	145809424	145811872	1	None	None
1	None	ENSG00000224459	ENST00000418525	antisense	KNOWN	None	None	None	None	16066546	16076391	-1	None	None
4	None	ENSG00000252375	ENST00000516566	miRNA	NOVEL	None	None	None	None	153822118	153822231	1	None	None
4	None	ENSG00000231841	ENST00000414628	processed_pseudogene	KNOWN	None	None	None	None	153848598	153849359	1	None	None
15	None	ENSG00000259485	ENST00000560314	lincRNA	KNOWN	None	None	None	None	97839111	97959054	1	None	None
15	None	ENSG00000259485	ENST00000559321	lincRNA	KNOWN	None	None	None	None	97954485	97975324	1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000258023	ENST00000549632	protein_coding	NOVEL	None	None	36	11	32656765	32656819	1	None	None
5	None	ENSG00000202105	ENST00000365235	misc_RNA	NOVEL	None	None	None	None	122846130	122846231	-1	None	None
11	None	ENSG00000254710	ENST00000531681	antisense	KNOWN	None	None	None	None	123059510	123098985	1	None	None
11	KLC2	ENSG00000174996	ENST00000531240	protein_coding	KNOWN	None	20716	316	104	66024765	66029300	1	None	FLJ12387
11	KLC2	ENSG00000174996	ENST00000526758	protein_coding	KNOWN	None	20716	435	144	66025091	66029419	1	None	FLJ12387
11	KLC2	ENSG00000174996	ENST00000440228	protein_coding	KNOWN	None	20716	498	165	66025091	66029632	1	None	FLJ12387
11	KLC2	ENSG00000174996	ENST00000394067	protein_coding	KNOWN	CCDS8130	20716	1869	622	66025174	66035276	1	None	FLJ12387
11	KLC2	ENSG00000174996	ENST00000316924	protein_coding	KNOWN	CCDS8130	20716	1869	622	66025174	66035331	1	None	FLJ12387
11	KLC2	ENSG00000174996	ENST00000394078	protein_coding	PUTATIVE	None	20716	1002	333	66025190	66035300	1	None	FLJ12387
11	KLC2	ENSG00000174996	ENST00000461611	protein_coding	KNOWN	None	20716	568	188	66025279	66031177	1	None	FLJ12387
11	KLC2	ENSG00000174996	ENST00000475757	protein_coding	KNOWN	None	20716	514	170	66025507	66029648	1	None	FLJ12387
11	KLC2	ENSG00000174996	ENST00000394066	protein_coding	KNOWN	CCDS44653	20716	1638	545	66026016	66035330	1	None	FLJ12387
11	KLC2	ENSG00000174996	ENST00000394065	protein_coding	PUTATIVE	None	20716	1566	521	66028384	66035330	1	None	FLJ12387
11	KLC2	ENSG00000174996	ENST00000483152	retained_intron	KNOWN	None	20716	None	None	66029307	66030126	1	None	FLJ12387
11	KLC2	ENSG00000174996	ENST00000534023	retained_intron	KNOWN	None	20716	None	None	66029401	66030533	1	None	FLJ12387
11	KLC2	ENSG00000174996	ENST00000417856	protein_coding	KNOWN	CCDS8130	20716	1869	622	66024765	66035330	1	None	FLJ12387
11	KLC2	ENSG00000174996	ENST00000421552	protein_coding	KNOWN	CCDS44653	20716	1638	545	66025174	66035330	1	None	FLJ12387
10	LINC00702	ENSG00000233117	ENST00000454470	lincRNA	KNOWN	None	44676	None	None	4277752	4285835	-1	None	None
10	LINC00702	ENSG00000233117	ENST00000418372	lincRNA	KNOWN	None	44676	None	None	4285142	4285981	-1	None	None
5	KRT18P16	ENSG00000235275	ENST00000510337	processed_pseudogene	KNOWN	None	33384	None	None	122971804	122973097	1	None	None
5	None	ENSG00000199487	ENST00000362617	misc_RNA	NOVEL	None	None	None	None	41963970	41964071	-1	None	None
4	None	ENSG00000249022	ENST00000515232	lincRNA	KNOWN	None	None	None	None	153955363	154012317	1	None	None
8	None	ENSG00000254533	ENST00000525376	lincRNA	KNOWN	None	None	None	None	145923999	145924570	-1	None	None
16	None	ENSG00000262020	ENST00000572828	antisense	KNOWN	None	None	None	None	11160353	11164959	-1	None	None
5	MTHFD2P6	ENSG00000249266	ENST00000506170	processed_pseudogene	KNOWN	None	48864	None	None	41967241	41968468	-1	None	None
12	RNU6-1068P	ENSG00000222890	ENST00000410958	snRNA	KNOWN	None	48031	None	None	101805135	101805237	1	None	None
8	TONSL	ENSG00000160949	ENST00000497613	retained_intron	KNOWN	None	7801	None	None	145654165	145668239	-1	NFKBIL2	IKBR
8	TONSL	ENSG00000160949	ENST00000409379	protein_coding	KNOWN	CCDS34968	7801	4137	1378	145654191	145669827	-1	NFKBIL2	IKBR
9	None	ENSG00000228401	ENST00000411904	antisense	KNOWN	None	None	None	None	139543062	139554873	-1	None	None
9	None	ENSG00000228401	ENST00000597530	antisense	KNOWN	None	None	None	None	139543174	139554873	-1	None	None
4	RNU6-1196P	ENSG00000252030	ENST00000516221	snRNA	KNOWN	None	48159	None	None	154186814	154186907	-1	None	None
11	None	ENSG00000200496	ENST00000363626	snoRNA	NOVEL	None	None	None	None	123172098	123172231	1	None	None
5	HMGB1P29	ENSG00000250862	ENST00000505659	processed_pseudogene	KNOWN	None	39120	None	None	123556272	123556770	-1	None	None
18	SERPINB7	ENSG00000166396	ENST00000425392	protein_coding	KNOWN	None	13902	383	126	61420169	61463546	1	None	MEGSIN
18	SERPINB7	ENSG00000166396	ENST00000398019	protein_coding	KNOWN	CCDS11988	13902	1143	380	61442644	61472604	1	None	MEGSIN
18	SERPINB7	ENSG00000166396	ENST00000447428	protein_coding	KNOWN	None	13902	494	163	61445011	61465877	1	None	MEGSIN
18	SERPINB7	ENSG00000166396	ENST00000431370	protein_coding	KNOWN	None	13902	384	127	61445211	61463547	1	None	MEGSIN
18	SERPINB7	ENSG00000166396	ENST00000336429	protein_coding	KNOWN	CCDS11988	13902	1143	380	61420277	61472603	1	None	MEGSIN
18	SERPINB7	ENSG00000166396	ENST00000540675	protein_coding	KNOWN	CCDS58633	13902	1092	363	61442655	61471909	1	None	MEGSIN
18	SERPINB7	ENSG00000166396	ENST00000546027	protein_coding	KNOWN	CCDS11988	13902	1143	380	61445014	61472169	1	None	MEGSIN
20	NECAB3	ENSG00000125967	ENST00000477778	processed_transcript	KNOWN	None	15851	None	None	32244893	32247353	-1	SYTIP2, APBA2BP	XB51, dJ63M2.4, NIP1, dJ63M2.5, EFCBP3
20	NECAB3	ENSG00000125967	ENST00000246190	protein_coding	KNOWN	CCDS42866	15851	1191	396	32244893	32262214	-1	SYTIP2, APBA2BP	XB51, dJ63M2.4, NIP1, dJ63M2.5, EFCBP3
20	NECAB3	ENSG00000125967	ENST00000375238	protein_coding	KNOWN	CCDS42867	15851	1089	362	32244893	32262269	-1	SYTIP2, APBA2BP	XB51, dJ63M2.4, NIP1, dJ63M2.5, EFCBP3
20	NECAB3	ENSG00000125967	ENST00000606525	processed_transcript	KNOWN	None	15851	None	None	32244894	32250584	-1	SYTIP2, APBA2BP	XB51, dJ63M2.4, NIP1, dJ63M2.5, EFCBP3
20	NECAB3	ENSG00000125967	ENST00000488489	nonsense_mediated_decay	KNOWN	None	15851	165	54	32244894	32262226	-1	SYTIP2, APBA2BP	XB51, dJ63M2.4, NIP1, dJ63M2.5, EFCBP3
20	NECAB3	ENSG00000125967	ENST00000483813	processed_transcript	KNOWN	None	15851	None	None	32245370	32250225	-1	SYTIP2, APBA2BP	XB51, dJ63M2.4, NIP1, dJ63M2.5, EFCBP3
20	NECAB3	ENSG00000125967	ENST00000485399	nonsense_mediated_decay	KNOWN	None	15851	579	192	32245443	32262195	-1	SYTIP2, APBA2BP	XB51, dJ63M2.4, NIP1, dJ63M2.5, EFCBP3
20	NECAB3	ENSG00000125967	ENST00000485976	processed_transcript	KNOWN	None	15851	None	None	32245483	32251525	-1	SYTIP2, APBA2BP	XB51, dJ63M2.4, NIP1, dJ63M2.5, EFCBP3
20	NECAB3	ENSG00000125967	ENST00000478237	processed_transcript	KNOWN	None	15851	None	None	32245536	32250043	-1	SYTIP2, APBA2BP	XB51, dJ63M2.4, NIP1, dJ63M2.5, EFCBP3
20	NECAB3	ENSG00000125967	ENST00000494174	processed_transcript	KNOWN	None	15851	None	None	32245563	32257234	-1	SYTIP2, APBA2BP	XB51, dJ63M2.4, NIP1, dJ63M2.5, EFCBP3
20	NECAB3	ENSG00000125967	ENST00000463246	processed_transcript	KNOWN	None	15851	None	None	32245751	32249990	-1	SYTIP2, APBA2BP	XB51, dJ63M2.4, NIP1, dJ63M2.5, EFCBP3
20	NECAB3	ENSG00000125967	ENST00000480994	protein_coding	PUTATIVE	None	15851	377	124	32245768	32254465	-1	SYTIP2, APBA2BP	XB51, dJ63M2.4, NIP1, dJ63M2.5, EFCBP3
20	NECAB3	ENSG00000125967	ENST00000606690	protein_coding	NOVEL	None	15851	893	296	32246286	32262165	-1	SYTIP2, APBA2BP	XB51, dJ63M2.4, NIP1, dJ63M2.5, EFCBP3
20	NECAB3	ENSG00000125967	ENST00000439478	protein_coding	NOVEL	None	15851	868	288	32246329	32262215	-1	SYTIP2, APBA2BP	XB51, dJ63M2.4, NIP1, dJ63M2.5, EFCBP3
20	NECAB3	ENSG00000125967	ENST00000607805	nonsense_mediated_decay	KNOWN	None	15851	633	210	32246333	32262214	-1	SYTIP2, APBA2BP	XB51, dJ63M2.4, NIP1, dJ63M2.5, EFCBP3
20	NECAB3	ENSG00000125967	ENST00000498353	processed_transcript	KNOWN	None	15851	None	None	32247465	32250229	-1	SYTIP2, APBA2BP	XB51, dJ63M2.4, NIP1, dJ63M2.5, EFCBP3
20	NECAB3	ENSG00000125967	ENST00000493590	nonsense_mediated_decay	KNOWN	None	15851	216	71	32247691	32262172	-1	SYTIP2, APBA2BP	XB51, dJ63M2.4, NIP1, dJ63M2.5, EFCBP3
20	NECAB3	ENSG00000125967	ENST00000606106	processed_transcript	KNOWN	None	15851	None	None	32247733	32254508	-1	SYTIP2, APBA2BP	XB51, dJ63M2.4, NIP1, dJ63M2.5, EFCBP3
20	NECAB3	ENSG00000125967	ENST00000606699	retained_intron	KNOWN	None	15851	None	None	32248057	32262226	-1	SYTIP2, APBA2BP	XB51, dJ63M2.4, NIP1, dJ63M2.5, EFCBP3
20	NECAB3	ENSG00000125967	ENST00000473892	protein_coding	PUTATIVE	None	15851	287	94	32256949	32258571	-1	SYTIP2, APBA2BP	XB51, dJ63M2.4, NIP1, dJ63M2.5, EFCBP3
20	NECAB3	ENSG00000125967	ENST00000484824	retained_intron	KNOWN	None	15851	None	None	32257254	32262226	-1	SYTIP2, APBA2BP	XB51, dJ63M2.4, NIP1, dJ63M2.5, EFCBP3
20	NECAB3	ENSG00000125967	ENST00000607055	retained_intron	KNOWN	None	15851	None	None	32259840	32262194	-1	SYTIP2, APBA2BP	XB51, dJ63M2.4, NIP1, dJ63M2.5, EFCBP3
4	None	ENSG00000201786	ENST00000364916	misc_RNA	NOVEL	None	None	None	None	154188061	154188162	-1	None	None
15	RN7SL677P	ENSG00000242863	ENST00000466970	misc_RNA	KNOWN	None	46693	None	None	97896727	97897015	1	None	None
12	RPS27P23	ENSG00000239413	ENST00000487608	processed_pseudogene	KNOWN	None	35716	None	None	101818219	101818469	1	None	None
1	None	ENSG00000224321	ENST00000431782	processed_pseudogene	KNOWN	None	None	None	None	16119291	16119780	1	None	None
5	None	ENSG00000253807	ENST00000520192	lincRNA	KNOWN	None	None	None	None	123641923	123721948	-1	None	None
5	None	ENSG00000253807	ENST00000519703	lincRNA	KNOWN	None	None	None	None	123649342	123740772	-1	None	None
11	PHLDA2	ENSG00000181649	ENST00000314222	protein_coding	KNOWN	CCDS7741	12385	459	152	2949503	2950685	-1	TSSC3	IPL, BWR1C, HLDA2
5	None	ENSG00000260786	ENST00000564402	lincRNA	KNOWN	None	None	None	None	42188368	42191625	1	None	None
6	MAP3K7	ENSG00000135341	ENST00000369325	protein_coding	KNOWN	CCDS5029	6859	1557	518	91223292	91296602	-1	TAK1	MEKK7
6	MAP3K7	ENSG00000135341	ENST00000369327	protein_coding	KNOWN	CCDS5030	6859	1476	491	91223292	91296608	-1	TAK1	MEKK7
6	MAP3K7	ENSG00000135341	ENST00000369332	protein_coding	KNOWN	CCDS5027	6859	1740	579	91223292	91296764	-1	TAK1	MEKK7
6	MAP3K7	ENSG00000135341	ENST00000369329	protein_coding	KNOWN	CCDS5028	6859	1821	606	91223292	91296764	-1	TAK1	MEKK7
6	MAP3K7	ENSG00000135341	ENST00000479630	processed_transcript	KNOWN	None	6859	None	None	91225353	91246937	-1	TAK1	MEKK7
6	MAP3K7	ENSG00000135341	ENST00000369320	protein_coding	KNOWN	None	6859	783	260	91225402	91263183	-1	TAK1	MEKK7
16	None	ENSG00000263033	ENST00000572466	lincRNA	KNOWN	None	None	None	None	11290034	11318373	1	None	None
17	RUNDC3A	ENSG00000108309	ENST00000590834	retained_intron	KNOWN	None	16984	None	None	42385781	42396038	1	None	RPIP8, RAP2IP
17	RUNDC3A	ENSG00000108309	ENST00000426726	protein_coding	KNOWN	CCDS45698	16984	1341	446	42385927	42396039	1	None	RPIP8, RAP2IP
17	RUNDC3A	ENSG00000108309	ENST00000590941	protein_coding	NOVEL	CCDS59294	16984	1203	400	42385951	42395094	1	None	RPIP8, RAP2IP
17	RUNDC3A	ENSG00000108309	ENST00000225441	protein_coding	KNOWN	CCDS45699	16984	1218	405	42385964	42395238	1	None	RPIP8, RAP2IP
17	RUNDC3A	ENSG00000108309	ENST00000587483	retained_intron	KNOWN	None	16984	None	None	42388072	42396037	1	None	RPIP8, RAP2IP
17	RUNDC3A	ENSG00000108309	ENST00000593079	retained_intron	KNOWN	None	16984	None	None	42392126	42393081	1	None	RPIP8, RAP2IP
17	RUNDC3A	ENSG00000108309	ENST00000588564	retained_intron	KNOWN	None	16984	None	None	42393923	42396038	1	None	RPIP8, RAP2IP
11	None	ENSG00000254823	ENST00000527533	lincRNA	KNOWN	None	None	None	None	123184382	123185478	-1	None	None
11	None	ENSG00000254823	ENST00000527774	lincRNA	KNOWN	None	None	None	None	123184411	123185475	-1	None	None
16	HNRNPCP4	ENSG00000263179	ENST00000571636	processed_pseudogene	KNOWN	None	48816	None	None	11336510	11337409	1	None	None
7	CCDC136	ENSG00000128596	ENST00000485998	protein_coding	KNOWN	None	22225	411	136	128430811	128441304	1	None	KIAA1793, NAG6, DKFZP434G156
7	CCDC136	ENSG00000128596	ENST00000459946	protein_coding	KNOWN	None	22225	306	101	128431464	128434782	1	None	KIAA1793, NAG6, DKFZP434G156
7	CCDC136	ENSG00000128596	ENST00000378685	protein_coding	KNOWN	CCDS56510	22225	1305	434	128431498	128462181	1	None	KIAA1793, NAG6, DKFZP434G156
7	CCDC136	ENSG00000128596	ENST00000464832	protein_coding	KNOWN	None	22225	1341	446	128431504	128462182	1	None	KIAA1793, NAG6, DKFZP434G156
7	CCDC136	ENSG00000128596	ENST00000472049	protein_coding	KNOWN	None	22225	17	4	128431512	128432482	1	None	KIAA1793, NAG6, DKFZP434G156
7	CCDC136	ENSG00000128596	ENST00000488925	protein_coding	KNOWN	None	22225	191	62	128431672	128434576	1	None	KIAA1793, NAG6, DKFZP434G156
7	CCDC136	ENSG00000128596	ENST00000487361	protein_coding	NOVEL	None	22225	1548	515	128432072	128462173	1	None	KIAA1793, NAG6, DKFZP434G156
7	CCDC136	ENSG00000128596	ENST00000297788	protein_coding	KNOWN	CCDS47704	22225	3465	1154	128432099	128462184	1	None	KIAA1793, NAG6, DKFZP434G156
7	CCDC136	ENSG00000128596	ENST00000480137	retained_intron	KNOWN	None	22225	None	None	128441240	128462184	1	None	KIAA1793, NAG6, DKFZP434G156
7	CCDC136	ENSG00000128596	ENST00000494552	protein_coding	NOVEL	None	22225	3104	1033	128441264	128462179	1	None	KIAA1793, NAG6, DKFZP434G156
7	CCDC136	ENSG00000128596	ENST00000528772	retained_intron	KNOWN	None	22225	None	None	128445902	128458322	1	None	KIAA1793, NAG6, DKFZP434G156
7	CCDC136	ENSG00000128596	ENST00000464672	protein_coding	PUTATIVE	None	22225	1647	548	128446429	128462186	1	None	KIAA1793, NAG6, DKFZP434G156
7	CCDC136	ENSG00000128596	ENST00000485832	retained_intron	KNOWN	None	22225	None	None	128446801	128447887	1	None	KIAA1793, NAG6, DKFZP434G156
7	CCDC136	ENSG00000128596	ENST00000460941	retained_intron	KNOWN	None	22225	None	None	128449221	128450250	1	None	KIAA1793, NAG6, DKFZP434G156
7	CCDC136	ENSG00000128596	ENST00000471729	processed_transcript	KNOWN	None	22225	None	None	128454703	128461939	1	None	KIAA1793, NAG6, DKFZP434G156
5	SERBP1P6	ENSG00000248873	ENST00000507707	processed_pseudogene	KNOWN	None	44635	None	None	42465502	42468970	-1	None	None
17	SLC16A5	ENSG00000170190	ENST00000580123	protein_coding	KNOWN	CCDS11713	10926	1518	505	73083822	73102257	1	None	MCT5, MCT6
17	SLC16A5	ENSG00000170190	ENST00000578847	protein_coding	KNOWN	None	10926	160	52	73083829	73089891	1	None	MCT5, MCT6
17	SLC16A5	ENSG00000170190	ENST00000585293	processed_transcript	KNOWN	None	10926	None	None	73084036	73096104	1	None	MCT5, MCT6
17	SLC16A5	ENSG00000170190	ENST00000578376	protein_coding	KNOWN	None	10926	1364	453	73084055	73100275	1	None	MCT5, MCT6
17	SLC16A5	ENSG00000170190	ENST00000329783	protein_coding	KNOWN	CCDS11713	10926	1518	505	73084055	73102257	1	None	MCT5, MCT6
17	SLC16A5	ENSG00000170190	ENST00000582048	processed_transcript	KNOWN	None	10926	None	None	73084060	73096134	1	None	MCT5, MCT6
17	SLC16A5	ENSG00000170190	ENST00000450736	protein_coding	KNOWN	CCDS11713	10926	1518	505	73085033	73102246	1	None	MCT5, MCT6
17	SLC16A5	ENSG00000170190	ENST00000584207	protein_coding	PUTATIVE	None	10926	609	202	73086257	73096277	1	None	MCT5, MCT6
17	SLC16A5	ENSG00000170190	ENST00000538213	protein_coding	PUTATIVE	None	10926	1503	500	73089382	73100505	1	None	MCT5, MCT6
17	SLC16A5	ENSG00000170190	ENST00000584118	protein_coding	KNOWN	None	10926	708	235	73089451	73096466	1	None	MCT5, MCT6
6	GFOD1	ENSG00000145990	ENST00000379284	protein_coding	PUTATIVE	CCDS56397	21096	864	287	13358062	13408369	-1	C6orf114	FLJ20330, ADG-90
6	GFOD1	ENSG00000145990	ENST00000379287	protein_coding	KNOWN	CCDS4524	21096	1173	390	13358062	13487787	-1	C6orf114	FLJ20330, ADG-90
6	GFOD1	ENSG00000145990	ENST00000605067	processed_transcript	KNOWN	None	21096	None	None	13469500	13472276	-1	C6orf114	FLJ20330, ADG-90
6	GFOD1	ENSG00000145990	ENST00000603223	protein_coding	NOVEL	None	21096	447	148	13469500	13487894	-1	C6orf114	FLJ20330, ADG-90
6	GFOD1	ENSG00000145990	ENST00000379278	processed_transcript	KNOWN	None	21096	None	None	13469507	13486415	-1	C6orf114	FLJ20330, ADG-90
7	None	ENSG00000238841	ENST00000459364	snoRNA	NOVEL	None	None	None	None	66255341	66255451	-1	None	None
5	None	ENSG00000250860	ENST00000506867	processed_pseudogene	KNOWN	None	None	None	None	42466995	42468402	-1	None	None
18	CHST9	ENSG00000154080	ENST00000284224	protein_coding	KNOWN	CCDS42422	19898	1332	443	24495595	24765281	-1	None	GALNAC4ST-2, GALNAC-4-ST2
18	CHST9	ENSG00000154080	ENST00000581714	protein_coding	KNOWN	CCDS42422	19898	1332	443	24495741	24723002	-1	None	GALNAC4ST-2, GALNAC-4-ST2
18	CHST9	ENSG00000154080	ENST00000580774	protein_coding	PUTATIVE	CCDS58618	19898	225	74	24495743	24765262	-1	None	GALNAC4ST-2, GALNAC-4-ST2
16	XYLT1	ENSG00000103489	ENST00000261381	protein_coding	KNOWN	CCDS10569	15516	2880	959	17195626	17564738	-1	None	XT-I, PXYLT1
16	XYLT1	ENSG00000103489	ENST00000575674	retained_intron	KNOWN	None	15516	None	None	17291888	17352885	-1	None	XT-I, PXYLT1
16	XYLT1	ENSG00000103489	ENST00000568226	processed_transcript	KNOWN	None	15516	None	None	17448529	17497358	-1	None	XT-I, PXYLT1
16	XYLT1	ENSG00000103489	ENST00000563403	processed_transcript	KNOWN	None	15516	None	None	17449085	17463582	-1	None	XT-I, PXYLT1
12	None	ENSG00000206929	ENST00000384202	misc_RNA	NOVEL	None	None	None	None	101840603	101840710	1	None	None
19	APOC2	ENSG00000234906	ENST00000590360	protein_coding	KNOWN	CCDS12650	609	306	101	45450460	45452822	1	None	None
19	APOC2	ENSG00000234906	ENST00000585786	protein_coding	NOVEL	None	609	219	72	45451543	45452589	1	None	None
HSCHR6_MHC_SSTO	HLA-DQA1	ENSG00000232062	ENST00000418023	protein_coding	KNOWN	None	4942	768	255	32697728	32703592	1	HLA-DQA	CELIAC1
HSCHR6_MHC_SSTO	HLA-DQA1	ENSG00000232062	ENST00000444296	protein_coding	KNOWN	None	4942	768	255	32697811	32703592	1	HLA-DQA	CELIAC1
HSCHR6_MHC_SSTO	HLA-DQA1	ENSG00000232062	ENST00000552932	protein_coding	KNOWN	None	4942	388	128	32697780	32702687	1	HLA-DQA	CELIAC1
HSCHR6_MHC_SSTO	HLA-DQA1	ENSG00000232062	ENST00000548597	protein_coding	KNOWN	None	4942	600	199	32697780	32726026	1	HLA-DQA	CELIAC1
HSCHR6_MHC_SSTO	HLA-DQA1	ENSG00000232062	ENST00000550158	protein_coding	KNOWN	None	4942	603	200	32697780	32725380	1	HLA-DQA	CELIAC1
HSCHR6_MHC_SSTO	HLA-DQA1	ENSG00000232062	ENST00000547425	protein_coding	KNOWN	None	4942	573	190	32697780	32706059	1	HLA-DQA	CELIAC1
12	RNU5E-5P	ENSG00000202249	ENST00000365379	snRNA	KNOWN	None	42520	None	None	101860483	101860598	1	None	None
7	GTF2IRD1P1	ENSG00000230583	ENST00000457166	processed_transcript	KNOWN	None	44136	None	None	66274980	66309813	-1	None	None
7	GTF2IRD1P1	ENSG00000230583	ENST00000434721	transcribed_unprocessed_pseudogene	KNOWN	None	44136	None	None	66280823	66298013	-1	None	None
5	None	ENSG00000270513	ENST00000603736	processed_pseudogene	KNOWN	None	None	None	None	42729240	42729621	1	None	None
11	SLC17A6	ENSG00000091664	ENST00000263160	protein_coding	KNOWN	CCDS7856	16703	1749	582	22359643	22401049	1	None	DNPI, VGLUT2
11	SLC17A6	ENSG00000091664	ENST00000534115	retained_intron	KNOWN	None	16703	None	None	22364523	22382511	1	None	DNPI, VGLUT2
HSCHR5_1_CTG1	OCLN	ENSG00000262667	ENST00000574259	protein_coding	KNOWN	None	8104	1569	522	68787834	68852251	1	None	None
HSCHR5_1_CTG1	OCLN	ENSG00000262667	ENST00000572261	protein_coding	KNOWN	None	8104	1569	522	68788332	68849261	1	None	None
HSCHR5_1_CTG1	OCLN	ENSG00000262667	ENST00000571704	nonsense_mediated_decay	KNOWN	None	8104	393	130	68799743	68849302	1	None	None
HSCHR5_1_CTG1	OCLN	ENSG00000262667	ENST00000572202	processed_transcript	KNOWN	None	8104	None	None	68840281	68849587	1	None	None
3	KCNMB2-IT1	ENSG00000223941	ENST00000455307	sense_intronic	KNOWN	None	41353	None	None	178136989	178175093	1	KCNMB2-IT1	None
3	KCNMB2-IT1	ENSG00000223941	ENST00000436432	sense_intronic	KNOWN	None	41353	None	None	178137022	178175097	1	KCNMB2-IT1	None
3	KCNMB2-IT1	ENSG00000223941	ENST00000441018	sense_intronic	KNOWN	None	41353	None	None	178137046	178175091	1	KCNMB2-IT1	None
5	None	ENSG00000272234	ENST00000606056	antisense	KNOWN	None	None	None	None	42806496	42807099	1	None	None
12	GALNT8	ENSG00000130035	ENST00000252318	protein_coding	KNOWN	CCDS8533	4130	1914	637	4829507	4881892	1	None	GALNAC-T8
12	GALNT8	ENSG00000130035	ENST00000542998	protein_coding	PUTATIVE	None	4130	485	160	4872510	4960169	1	None	GALNAC-T8
12	GALNT8	ENSG00000130035	ENST00000535354	protein_coding	PUTATIVE	None	4130	266	87	4873134	4877642	1	None	GALNAC-T8
12	GALNT8	ENSG00000130035	ENST00000541339	processed_transcript	KNOWN	None	4130	None	None	4923503	4960277	1	None	GALNAC-T8
20	FAM217B	ENSG00000196227	ENST00000358293	protein_coding	KNOWN	CCDS13484	16170	1152	383	58508819	58523735	1	C20orf177	dJ551D2.5
20	FAM217B	ENSG00000196227	ENST00000360816	protein_coding	KNOWN	CCDS13484	16170	1152	383	58515494	58523735	1	C20orf177	dJ551D2.5
20	FAM217B	ENSG00000196227	ENST00000469084	processed_transcript	KNOWN	None	16170	None	None	58515514	58520055	1	C20orf177	dJ551D2.5
20	FAM217B	ENSG00000196227	ENST00000421092	protein_coding	KNOWN	None	16170	143	46	58517179	58519141	1	C20orf177	dJ551D2.5
4	ANXA2P1	ENSG00000213406	ENST00000505539	processed_pseudogene	KNOWN	None	538	None	None	154228944	154229869	-1	LPC2A, ANX2P1, ANX2L1	None
5	None	ENSG00000249092	ENST00000505144	processed_pseudogene	KNOWN	None	None	None	None	42892421	42892919	-1	None	None
1	None	ENSG00000233954	ENST00000483273	processed_pseudogene	KNOWN	None	None	None	None	16133869	16134144	-1	None	None
1	None	ENSG00000233954	ENST00000538385	processed_pseudogene	KNOWN	None	None	None	None	16133679	16134194	-1	None	None
4	None	ENSG00000263596	ENST00000578990	miRNA	NOVEL	None	None	None	None	154281685	154281806	1	None	None
17	B4GALNT2	ENSG00000167080	ENST00000504681	protein_coding	KNOWN	CCDS54140	24136	1443	480	47209822	47247351	1	GALGT2	Sda, Cad
17	B4GALNT2	ENSG00000167080	ENST00000393354	protein_coding	KNOWN	CCDS54139	24136	1521	506	47210131	47247236	1	GALGT2	Sda, Cad
17	B4GALNT2	ENSG00000167080	ENST00000300404	protein_coding	KNOWN	CCDS11544	24136	1701	566	47210329	47247236	1	GALGT2	Sda, Cad
8	ADAMDEC1	ENSG00000134028	ENST00000256412	protein_coding	KNOWN	CCDS6044	16299	1413	470	24241798	24263526	1	None	M12.219
8	ADAMDEC1	ENSG00000134028	ENST00000522298	protein_coding	PUTATIVE	CCDS55212	16299	1176	391	24241983	24263526	1	None	M12.219
8	ADAMDEC1	ENSG00000134028	ENST00000520193	nonsense_mediated_decay	KNOWN	None	16299	126	41	24242018	24263230	1	None	M12.219
8	ADAMDEC1	ENSG00000134028	ENST00000519953	processed_transcript	PUTATIVE	None	16299	None	None	24262805	24263525	1	None	M12.219
8	ADAMDEC1	ENSG00000134028	ENST00000538205	protein_coding	KNOWN	CCDS55212	16299	1176	391	24241798	24263526	1	None	M12.219
5	None	ENSG00000251163	ENST00000515476	processed_pseudogene	KNOWN	None	None	None	None	42897364	42897934	-1	None	None
5	None	ENSG00000251421	ENST00000510004	lincRNA	KNOWN	None	None	None	None	123731296	123736088	1	None	None
16	None	ENSG00000212228	ENST00000390926	snoRNA	NOVEL	None	None	None	None	11367970	11368093	-1	None	None
5	None	ENSG00000251662	ENST00000510853	lincRNA	KNOWN	None	None	None	None	123731640	123736348	1	None	None
12	RNA5SP367	ENSG00000252366	ENST00000516557	rRNA	KNOWN	None	43267	None	None	101866117	101866234	1	RN5S367	None
16	None	ENSG00000238409	ENST00000458946	snoRNA	NOVEL	None	None	None	None	11387067	11387170	1	None	None
11	PC	ENSG00000173599	ENST00000529047	protein_coding	NOVEL	None	8636	897	298	66615704	66617812	-1	None	PCB
11	PC	ENSG00000173599	ENST00000393955	protein_coding	NOVEL	CCDS8152	8636	3537	1178	66615984	66675372	-1	None	PCB
11	PC	ENSG00000173599	ENST00000393958	protein_coding	KNOWN	CCDS8152	8636	3537	1178	66615996	66725847	-1	None	PCB
11	PC	ENSG00000173599	ENST00000528224	processed_transcript	PUTATIVE	None	8636	None	None	66616029	66617358	-1	None	PCB
11	PC	ENSG00000173599	ENST00000529352	processed_transcript	PUTATIVE	None	8636	None	None	66616370	66616742	-1	None	PCB
11	PC	ENSG00000173599	ENST00000530259	processed_transcript	KNOWN	None	8636	None	None	66618325	66620433	-1	None	PCB
11	PC	ENSG00000173599	ENST00000530187	processed_transcript	KNOWN	None	8636	None	None	66625354	66627946	-1	None	PCB
11	PC	ENSG00000173599	ENST00000524491	protein_coding	NOVEL	None	8636	1470	489	66627889	66725847	-1	None	PCB
11	PC	ENSG00000173599	ENST00000531614	processed_transcript	KNOWN	None	8636	None	None	66638785	66725373	-1	None	PCB
11	PC	ENSG00000173599	ENST00000528403	processed_transcript	KNOWN	None	8636	None	None	66638843	66725841	-1	None	PCB
11	PC	ENSG00000173599	ENST00000534194	processed_transcript	KNOWN	None	8636	None	None	66719767	66725815	-1	None	PCB
11	PC	ENSG00000173599	ENST00000525476	processed_transcript	PUTATIVE	None	8636	None	None	66719901	66721880	-1	None	PCB
11	PC	ENSG00000173599	ENST00000393960	protein_coding	KNOWN	CCDS8152	8636	3537	1178	66615997	66725847	-1	None	PCB
11	PC	ENSG00000173599	ENST00000355677	protein_coding	KNOWN	None	8636	1590	529	66627889	66725847	-1	None	PCB
6	GJA1	ENSG00000152661	ENST00000282561	protein_coding	KNOWN	CCDS5123	4274	1149	382	121756838	121770873	1	ODDD, GJAL	CX43, ODD, ODOD, SDTY3
11	None	ENSG00000254407	ENST00000528576	processed_pseudogene	KNOWN	None	None	None	None	123210882	123211422	-1	None	None
16	MIR548H2	ENSG00000221801	ENST00000408874	miRNA	KNOWN	None	35343	None	None	11400297	11400384	-1	MIRN548H2	hsa-mir-548h-2
7	None	ENSG00000232546	ENST00000419595	unprocessed_pseudogene	KNOWN	None	None	None	None	66313483	66323123	1	None	None
5	None	ENSG00000248600	ENST00000502809	lincRNA	KNOWN	None	None	None	None	123791066	123795791	1	None	None
1	EPHX4	ENSG00000172031	ENST00000370383	protein_coding	KNOWN	CCDS736	23758	1089	362	92495539	92529093	1	ABHD7	EPHXRP, FLJ90341
1	EPHX4	ENSG00000172031	ENST00000480758	processed_transcript	KNOWN	None	23758	None	None	92498118	92509351	1	ABHD7	EPHXRP, FLJ90341
9	PTPN3	ENSG00000070159	ENST00000447271	processed_transcript	KNOWN	None	9655	None	None	112137746	112141260	-1	None	PTPH1
9	PTPN3	ENSG00000070159	ENST00000374541	protein_coding	KNOWN	CCDS6776	9655	2742	913	112137980	112260586	-1	None	PTPH1
9	PTPN3	ENSG00000070159	ENST00000497739	processed_transcript	KNOWN	None	9655	None	None	112151517	112160050	-1	None	PTPH1
9	PTPN3	ENSG00000070159	ENST00000262539	protein_coding	KNOWN	None	9655	2280	759	112141652	112260590	-1	None	PTPH1
9	PTPN3	ENSG00000070159	ENST00000412145	protein_coding	KNOWN	CCDS48001	9655	2349	782	112137974	112213664	-1	None	PTPH1
9	PTPN3	ENSG00000070159	ENST00000446349	protein_coding	KNOWN	CCDS48000	9655	2214	737	112137974	112213664	-1	None	PTPH1
9	PTPN3	ENSG00000070159	ENST00000394827	protein_coding	KNOWN	None	9655	1146	381	112141367	112180063	-1	None	PTPH1
1	CELA3B	ENSG00000219073	ENST00000337107	protein_coding	KNOWN	CCDS219	15945	813	270	22303514	22315837	1	ELA3B	CBPP
1	CELA3B	ENSG00000219073	ENST00000374666	protein_coding	KNOWN	None	15945	494	163	22304386	22310270	1	ELA3B	CBPP
1	CELA3B	ENSG00000219073	ENST00000400277	protein_coding	KNOWN	None	15945	543	180	22307595	22325135	1	ELA3B	CBPP
1	CELA3B	ENSG00000219073	ENST00000473526	processed_transcript	KNOWN	None	15945	None	None	22310759	22315847	1	ELA3B	CBPP
16	None	ENSG00000199668	ENST00000362798	misc_RNA	NOVEL	None	None	None	None	11408924	11409035	1	None	None
1	None	ENSG00000178715	ENST00000321418	processed_pseudogene	KNOWN	None	None	None	None	16154727	16155164	1	None	None
1	None	ENSG00000178715	ENST00000395968	processed_pseudogene	KNOWN	None	None	None	None	16154724	16155167	1	None	None
19	None	ENSG00000267114	ENST00000591646	protein_coding	PUTATIVE	None	None	231	76	45453301	45457264	-1	None	None
1	DNAJC11	ENSG00000007923	ENST00000465508	processed_transcript	KNOWN	None	25570	None	None	6694228	6705117	-1	None	FLJ10737
1	DNAJC11	ENSG00000007923	ENST00000451196	protein_coding	KNOWN	None	25570	999	332	6694228	6741097	-1	None	FLJ10737
1	DNAJC11	ENSG00000007923	ENST00000377577	protein_coding	KNOWN	CCDS87	25570	1680	559	6694228	6761984	-1	None	FLJ10737
1	DNAJC11	ENSG00000007923	ENST00000294401	protein_coding	KNOWN	None	25570	1524	507	6695173	6761984	-1	None	FLJ10737
1	DNAJC11	ENSG00000007923	ENST00000472414	processed_transcript	KNOWN	None	25570	None	None	6697361	6705172	-1	None	FLJ10737
1	DNAJC11	ENSG00000007923	ENST00000426784	protein_coding	KNOWN	None	25570	973	323	6705860	6761862	-1	None	FLJ10737
1	DNAJC11	ENSG00000007923	ENST00000473993	processed_transcript	KNOWN	None	25570	None	None	6705936	6761882	-1	None	FLJ10737
1	DNAJC11	ENSG00000007923	ENST00000469318	processed_transcript	KNOWN	None	25570	None	None	6712974	6728270	-1	None	FLJ10737
1	DNAJC11	ENSG00000007923	ENST00000485073	processed_transcript	KNOWN	None	25570	None	None	6713869	6761864	-1	None	FLJ10737
1	DNAJC11	ENSG00000007923	ENST00000460594	processed_transcript	KNOWN	None	25570	None	None	6714168	6761883	-1	None	FLJ10737
1	DNAJC11	ENSG00000007923	ENST00000465911	processed_transcript	KNOWN	None	25570	None	None	6730521	6761879	-1	None	FLJ10737
1	DNAJC11	ENSG00000007923	ENST00000349363	protein_coding	KNOWN	None	25570	957	318	6694228	6741097	-1	None	FLJ10737
1	DNAJC11	ENSG00000007923	ENST00000542246	protein_coding	KNOWN	None	25570	1566	521	6695446	6741356	-1	None	FLJ10737
1	DNAJC11	ENSG00000007923	ENST00000377573	protein_coding	KNOWN	None	25570	1410	469	6695551	6761863	-1	None	FLJ10737
8	None	ENSG00000255085	ENST00000524514	processed_transcript	KNOWN	None	None	None	None	145925738	145932591	1	None	None
8	None	ENSG00000255085	ENST00000578723	processed_transcript	KNOWN	None	None	None	None	145926044	145932720	1	None	None
8	None	ENSG00000255085	ENST00000528794	processed_transcript	KNOWN	None	None	None	None	145926044	145932917	1	None	None
8	None	ENSG00000255085	ENST00000581667	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	145930919	145933902	1	None	None
8	None	ENSG00000255085	ENST00000529026	processed_transcript	KNOWN	None	None	None	None	145931015	145932542	1	None	None
8	None	ENSG00000255085	ENST00000601863	unprocessed_pseudogene	KNOWN	None	None	None	None	145932681	145933665	1	None	None
12	None	ENSG00000257514	ENST00000552081	antisense	KNOWN	None	None	None	None	102040498	102044726	-1	None	None
12	None	ENSG00000257514	ENST00000547027	antisense	KNOWN	None	None	None	None	102040498	102053748	-1	None	None
16	None	ENSG00000263080	ENST00000572913	antisense	KNOWN	None	None	None	None	11435666	11439068	-1	None	None
16	None	ENSG00000263080	ENST00000572706	antisense	KNOWN	None	None	None	None	11438208	11439054	-1	None	None
2	RDH14	ENSG00000240857	ENST00000381249	protein_coding	KNOWN	CCDS1693	19979	1011	336	18735989	18741946	-1	None	PAN2, SDR7C4
2	RDH14	ENSG00000240857	ENST00000468071	processed_transcript	KNOWN	None	19979	None	None	18736388	18741945	-1	None	PAN2, SDR7C4
6	SLC39A7	ENSG00000112473	ENST00000444757	protein_coding	PUTATIVE	None	4927	662	219	33168222	33170469	1	HKE4	H2-KE4, D6S2244E, KE4, RING5, ZIP7
6	SLC39A7	ENSG00000112473	ENST00000374675	protein_coding	KNOWN	CCDS43453	4927	1410	469	33168603	33172216	1	HKE4	H2-KE4, D6S2244E, KE4, RING5, ZIP7
6	SLC39A7	ENSG00000112473	ENST00000374677	protein_coding	KNOWN	CCDS43453	4927	1410	469	33168650	33172216	1	HKE4	H2-KE4, D6S2244E, KE4, RING5, ZIP7
6	SLC39A7	ENSG00000112473	ENST00000463972	processed_transcript	PUTATIVE	None	4927	None	None	33170032	33172216	1	HKE4	H2-KE4, D6S2244E, KE4, RING5, ZIP7
12	None	ENSG00000199933	ENST00000363063	misc_RNA	KNOWN	None	None	None	None	102113586	102113696	1	None	None
5	None	ENSG00000251656	ENST00000508612	processed_pseudogene	KNOWN	None	None	None	None	42908310	42908769	-1	None	None
1	None	ENSG00000179743	ENST00000317122	antisense	KNOWN	None	None	None	None	16160974	16174642	-1	None	None
1	None	ENSG00000179743	ENST00000535249	antisense	KNOWN	None	None	None	None	16160560	16162355	-1	None	None
5	None	ENSG00000251214	ENST00000513422	lincRNA	KNOWN	None	None	None	None	123795605	123796242	-1	None	None
12	RNU6-101P	ENSG00000222255	ENST00000410323	snRNA	KNOWN	None	47064	None	None	102159184	102159287	-1	None	None
11	MIR4493	ENSG00000265357	ENST00000584016	miRNA	KNOWN	None	41778	None	None	123252148	123252220	-1	None	hsa-mir-4493
2	ADAM17	ENSG00000151694	ENST00000310823	protein_coding	KNOWN	CCDS1665	195	2475	824	9628615	9695917	-1	TACE	cSVP, CD156B
2	ADAM17	ENSG00000151694	ENST00000497134	protein_coding	NOVEL	None	195	858	285	9661725	9695921	-1	TACE	cSVP, CD156B
2	ADAM17	ENSG00000151694	ENST00000478059	retained_intron	KNOWN	None	195	None	None	9667630	9695903	-1	TACE	cSVP, CD156B
1	None	ENSG00000238818	ENST00000459258	snoRNA	NOVEL	None	None	None	None	16237392	16237492	1	None	None
3	RNA5SP148	ENSG00000252336	ENST00000516527	rRNA	KNOWN	None	43048	None	None	178146985	178147078	-1	RN5S148	None
5	None	ENSG00000249516	ENST00000503839	processed_pseudogene	KNOWN	None	None	None	None	42917516	42918086	1	None	None
1	None	ENSG00000270620	ENST00000604816	unprocessed_pseudogene	KNOWN	None	None	None	None	16244193	16244403	-1	None	None
12	None	ENSG00000258230	ENST00000552036	transcribed_processed_pseudogene	KNOWN	None	None	None	None	102166892	102167199	-1	None	None
12	None	ENSG00000258230	ENST00000600133	processed_transcript	KNOWN	None	None	None	None	102166966	102167533	-1	None	None
5	None	ENSG00000250711	ENST00000503606	processed_pseudogene	KNOWN	None	None	None	None	42972726	42973194	1	None	None
17	MRPL45	ENSG00000174100	ENST00000312513	protein_coding	KNOWN	CCDS11326	16651	921	306	36452989	36479101	1	None	MGC11321
17	MRPL45	ENSG00000174100	ENST00000582535	protein_coding	NOVEL	None	16651	478	158	36452998	36476568	1	None	MGC11321
17	MRPL45	ENSG00000174100	ENST00000580762	nonsense_mediated_decay	KNOWN	None	16651	498	165	36453139	36476640	1	None	MGC11321
17	MRPL45	ENSG00000174100	ENST00000581817	retained_intron	KNOWN	None	16651	None	None	36455379	36462964	1	None	MGC11321
17	MRPL45	ENSG00000174100	ENST00000579911	nonsense_mediated_decay	KNOWN	None	16651	106	34	36462500	36478775	1	None	MGC11321
1	ALDH9A1	ENSG00000143149	ENST00000354775	protein_coding	KNOWN	CCDS1250	412	1557	518	165631453	165668100	-1	ALDH7, ALDH4, ALDH9	E3
1	ALDH9A1	ENSG00000143149	ENST00000463610	processed_transcript	KNOWN	None	412	None	None	165632012	165634443	-1	ALDH7, ALDH4, ALDH9	E3
1	ALDH9A1	ENSG00000143149	ENST00000491436	processed_transcript	KNOWN	None	412	None	None	165637911	165649872	-1	ALDH7, ALDH4, ALDH9	E3
1	ALDH9A1	ENSG00000143149	ENST00000461664	processed_transcript	KNOWN	None	412	None	None	165649724	165667777	-1	ALDH7, ALDH4, ALDH9	E3
1	ALDH9A1	ENSG00000143149	ENST00000471457	retained_intron	KNOWN	None	412	None	None	165652062	165667750	-1	ALDH7, ALDH4, ALDH9	E3
1	ALDH9A1	ENSG00000143149	ENST00000538148	protein_coding	KNOWN	None	412	1275	424	165632048	165667545	-1	ALDH7, ALDH4, ALDH9	E3
12	FGD4	ENSG00000139132	ENST00000534526	protein_coding	PUTATIVE	None	19125	2712	903	32552463	32793467	1	None	FRABP, frabin, ZFYVE6, CMT4H
12	FGD4	ENSG00000139132	ENST00000550091	processed_transcript	KNOWN	None	19125	None	None	32552790	32735185	1	None	FRABP, frabin, ZFYVE6, CMT4H
12	FGD4	ENSG00000139132	ENST00000531134	protein_coding	PUTATIVE	None	19125	2556	851	32638906	32793673	1	None	FRABP, frabin, ZFYVE6, CMT4H
12	FGD4	ENSG00000139132	ENST00000472289	protein_coding	KNOWN	None	19125	624	207	32654977	32735889	1	None	FRABP, frabin, ZFYVE6, CMT4H
12	FGD4	ENSG00000139132	ENST00000494275	retained_intron	KNOWN	None	19125	None	None	32654983	32735889	1	None	FRABP, frabin, ZFYVE6, CMT4H
12	FGD4	ENSG00000139132	ENST00000497153	processed_transcript	KNOWN	None	19125	None	None	32655065	32729232	1	None	FRABP, frabin, ZFYVE6, CMT4H
12	FGD4	ENSG00000139132	ENST00000493087	nonsense_mediated_decay	KNOWN	None	19125	708	235	32655068	32793584	1	None	FRABP, frabin, ZFYVE6, CMT4H
12	FGD4	ENSG00000139132	ENST00000551984	nonsense_mediated_decay	KNOWN	None	19125	123	40	32655091	32793682	1	None	FRABP, frabin, ZFYVE6, CMT4H
12	FGD4	ENSG00000139132	ENST00000427716	protein_coding	KNOWN	CCDS8727	19125	2301	766	32655094	32798984	1	None	FRABP, frabin, ZFYVE6, CMT4H
12	FGD4	ENSG00000139132	ENST00000473513	processed_transcript	KNOWN	None	19125	None	None	32655095	32732574	1	None	FRABP, frabin, ZFYVE6, CMT4H
12	FGD4	ENSG00000139132	ENST00000395740	nonsense_mediated_decay	KNOWN	None	19125	708	235	32655104	32791863	1	None	FRABP, frabin, ZFYVE6, CMT4H
12	FGD4	ENSG00000139132	ENST00000479023	processed_transcript	KNOWN	None	19125	None	None	32655113	32729278	1	None	FRABP, frabin, ZFYVE6, CMT4H
12	FGD4	ENSG00000139132	ENST00000546442	protein_coding	PUTATIVE	None	19125	2022	673	32655118	32794453	1	None	FRABP, frabin, ZFYVE6, CMT4H
12	FGD4	ENSG00000139132	ENST00000583694	protein_coding	KNOWN	None	19125	91	29	32655151	32729382	1	None	FRABP, frabin, ZFYVE6, CMT4H
12	FGD4	ENSG00000139132	ENST00000525053	protein_coding	PUTATIVE	None	19125	2637	878	32687258	32793671	1	None	FRABP, frabin, ZFYVE6, CMT4H
12	FGD4	ENSG00000139132	ENST00000494977	nonsense_mediated_decay	KNOWN	None	19125	197	64	32735313	32797685	1	None	FRABP, frabin, ZFYVE6, CMT4H
12	FGD4	ENSG00000139132	ENST00000266482	protein_coding	KNOWN	None	19125	1416	471	32655104	32791851	1	None	FRABP, frabin, ZFYVE6, CMT4H
12	FGD4	ENSG00000139132	ENST00000381025	protein_coding	KNOWN	None	19125	843	280	32751460	32777637	1	None	FRABP, frabin, ZFYVE6, CMT4H
15	None	ENSG00000259664	ENST00000558621	lincRNA	KNOWN	None	None	None	None	97913601	97971182	-1	None	None
1	None	ENSG00000234607	ENST00000416882	processed_pseudogene	KNOWN	None	None	None	None	16296127	16296689	1	None	None
3	None	ENSG00000271131	ENST00000603675	processed_pseudogene	KNOWN	None	None	None	None	178211115	178211598	-1	None	None
15	RNA5SP401	ENSG00000251729	ENST00000515920	rRNA	KNOWN	None	43301	None	None	98015356	98015482	-1	RN5S401	None
15	None	ENSG00000259524	ENST00000559955	lincRNA	KNOWN	None	None	None	None	98058517	98065041	-1	None	None
1	None	ENSG00000231353	ENST00000424379	unprocessed_pseudogene	KNOWN	None	None	None	None	16314677	16314936	1	None	None
11	None	ENSG00000255414	ENST00000525757	lincRNA	KNOWN	None	None	None	None	123325106	123331118	1	None	None
7	None	ENSG00000230295	ENST00000423746	unprocessed_pseudogene	KNOWN	None	None	None	None	66345695	66347968	1	None	None
1	TBC1D3P6	ENSG00000224966	ENST00000505954	unprocessed_pseudogene	KNOWN	None	43568	None	None	16316366	16321246	1	None	None
15	None	ENSG00000259582	ENST00000559363	lincRNA	KNOWN	None	None	None	None	98096514	98103932	-1	None	None
3	ARMC8	ENSG00000114098	ENST00000481646	protein_coding	KNOWN	CCDS54646	24999	1980	659	137906109	138015391	1	None	HSPC056, DKFZP434A043, GID5, VID28
3	ARMC8	ENSG00000114098	ENST00000469044	protein_coding	KNOWN	None	24999	2022	673	137906126	138017231	1	None	HSPC056, DKFZP434A043, GID5, VID28
3	ARMC8	ENSG00000114098	ENST00000491704	protein_coding	KNOWN	None	24999	1896	631	137906143	138015236	1	None	HSPC056, DKFZP434A043, GID5, VID28
3	ARMC8	ENSG00000114098	ENST00000461600	protein_coding	KNOWN	None	24999	595	197	137906147	137953942	1	None	HSPC056, DKFZP434A043, GID5, VID28
3	ARMC8	ENSG00000114098	ENST00000466749	protein_coding	KNOWN	None	24999	391	129	137906160	137947841	1	None	HSPC056, DKFZP434A043, GID5, VID28
3	ARMC8	ENSG00000114098	ENST00000358441	protein_coding	KNOWN	CCDS3098	24999	1158	385	137906184	137965729	1	None	HSPC056, DKFZP434A043, GID5, VID28
3	ARMC8	ENSG00000114098	ENST00000489213	protein_coding	NOVEL	None	24999	1074	357	137906192	137964477	1	None	HSPC056, DKFZP434A043, GID5, VID28
3	ARMC8	ENSG00000114098	ENST00000461822	protein_coding	NOVEL	CCDS58853	24999	1821	606	137906359	138015096	1	None	HSPC056, DKFZP434A043, GID5, VID28
3	ARMC8	ENSG00000114098	ENST00000485396	protein_coding	NOVEL	None	24999	1803	600	137906370	138014775	1	None	HSPC056, DKFZP434A043, GID5, VID28
3	ARMC8	ENSG00000114098	ENST00000471453	protein_coding	KNOWN	CCDS3098	24999	1158	385	137906371	137965699	1	None	HSPC056, DKFZP434A043, GID5, VID28
3	ARMC8	ENSG00000114098	ENST00000470821	protein_coding	NOVEL	None	24999	1200	399	137906373	137964523	1	None	HSPC056, DKFZP434A043, GID5, VID28
3	ARMC8	ENSG00000114098	ENST00000471709	protein_coding	NOVEL	None	24999	683	226	137906389	137956414	1	None	HSPC056, DKFZP434A043, GID5, VID28
3	ARMC8	ENSG00000114098	ENST00000463485	protein_coding	NOVEL	None	24999	1056	351	137906394	137986071	1	None	HSPC056, DKFZP434A043, GID5, VID28
3	ARMC8	ENSG00000114098	ENST00000468560	protein_coding	KNOWN	None	24999	77	24	137906618	137928732	1	None	HSPC056, DKFZP434A043, GID5, VID28
3	ARMC8	ENSG00000114098	ENST00000470842	retained_intron	KNOWN	None	24999	None	None	137942231	137947893	1	None	HSPC056, DKFZP434A043, GID5, VID28
3	ARMC8	ENSG00000114098	ENST00000470549	nonsense_mediated_decay	KNOWN	None	24999	353	116	137942478	137964172	1	None	HSPC056, DKFZP434A043, GID5, VID28
3	ARMC8	ENSG00000114098	ENST00000469860	protein_coding	NOVEL	None	24999	341	112	137942478	137964524	1	None	HSPC056, DKFZP434A043, GID5, VID28
3	ARMC8	ENSG00000114098	ENST00000460495	retained_intron	KNOWN	None	24999	None	None	137956121	138015383	1	None	HSPC056, DKFZP434A043, GID5, VID28
3	ARMC8	ENSG00000114098	ENST00000486832	retained_intron	KNOWN	None	24999	None	None	137956862	137965314	1	None	HSPC056, DKFZP434A043, GID5, VID28
3	ARMC8	ENSG00000114098	ENST00000466762	retained_intron	KNOWN	None	24999	None	None	137982353	138017215	1	None	HSPC056, DKFZP434A043, GID5, VID28
3	ARMC8	ENSG00000114098	ENST00000464181	protein_coding	PUTATIVE	None	24999	271	89	137991922	138006856	1	None	HSPC056, DKFZP434A043, GID5, VID28
3	ARMC8	ENSG00000114098	ENST00000494015	retained_intron	KNOWN	None	24999	None	None	138007863	138009470	1	None	HSPC056, DKFZP434A043, GID5, VID28
3	ARMC8	ENSG00000114098	ENST00000538260	protein_coding	KNOWN	CCDS58854	24999	1929	642	137906390	138015263	1	None	HSPC056, DKFZP434A043, GID5, VID28
3	ARMC8	ENSG00000114098	ENST00000393058	protein_coding	KNOWN	None	24999	1992	663	137906390	138015263	1	None	HSPC056, DKFZP434A043, GID5, VID28
8	RP1L1	ENSG00000183638	ENST00000382483	protein_coding	KNOWN	CCDS43708	15946	7203	2400	10463859	10512612	-1	None	DCDC4B
8	RP1L1	ENSG00000183638	ENST00000329335	processed_transcript	KNOWN	None	15946	None	None	10478606	10569697	-1	None	DCDC4B
15	None	ENSG00000259870	ENST00000562480	antisense	KNOWN	None	None	None	None	98419519	98421616	1	None	None
4	None	ENSG00000251175	ENST00000504955	antisense	KNOWN	None	None	None	None	106667402	106748329	-1	None	None
4	None	ENSG00000251175	ENST00000506527	antisense	KNOWN	None	None	None	None	106736302	106748313	-1	None	None
4	None	ENSG00000251175	ENST00000509003	antisense	KNOWN	None	None	None	None	106736307	106748326	-1	None	None
3	None	ENSG00000237978	ENST00000437488	antisense	KNOWN	None	None	None	None	178244293	178578140	-1	None	None
3	None	ENSG00000237978	ENST00000432385	antisense	KNOWN	None	None	None	None	178447072	178577338	-1	None	None
3	None	ENSG00000237978	ENST00000451742	antisense	KNOWN	None	None	None	None	178464727	178578137	-1	None	None
3	None	ENSG00000237978	ENST00000425330	antisense	KNOWN	None	None	None	None	178466077	178578193	-1	None	None
3	None	ENSG00000237978	ENST00000421498	antisense	KNOWN	None	None	None	None	178466776	178519724	-1	None	None
15	None	ENSG00000259478	ENST00000561121	lincRNA	KNOWN	None	None	None	None	98525739	98534372	-1	None	None
7	RNU6-1254P	ENSG00000212568	ENST00000391266	snRNA	KNOWN	None	48217	None	None	66356175	66356278	1	None	None
HSCHR6_MHC_MANN	RNF5	ENSG00000228907	ENST00000453473	protein_coding	KNOWN	None	10068	543	180	32185558	32187997	1	None	NG2, G16, RING5, RMA1
HSCHR6_MHC_MANN	RNF5	ENSG00000228907	ENST00000464353	processed_transcript	KNOWN	None	10068	None	None	32185641	32186977	1	None	NG2, G16, RING5, RMA1
12	MLF2	ENSG00000089693	ENST00000203630	protein_coding	KNOWN	CCDS8559	7126	747	248	6857173	6862721	-1	None	NTN4
12	MLF2	ENSG00000089693	ENST00000541305	retained_intron	KNOWN	None	7126	None	None	6857887	6859484	-1	None	NTN4
12	MLF2	ENSG00000089693	ENST00000542154	protein_coding	KNOWN	CCDS8559	7126	747	248	6857933	6862082	-1	None	NTN4
12	MLF2	ENSG00000089693	ENST00000539187	protein_coding	KNOWN	CCDS8559	7126	747	248	6857961	6876641	-1	None	NTN4
12	MLF2	ENSG00000089693	ENST00000537126	protein_coding	PUTATIVE	None	7126	692	229	6858048	6862235	-1	None	NTN4
12	MLF2	ENSG00000089693	ENST00000541346	retained_intron	KNOWN	None	7126	None	None	6858953	6862283	-1	None	NTN4
12	MLF2	ENSG00000089693	ENST00000540710	protein_coding	PUTATIVE	None	7126	364	120	6859378	6861874	-1	None	NTN4
12	MLF2	ENSG00000089693	ENST00000564181	processed_transcript	KNOWN	None	7126	None	None	6859510	6860322	-1	None	NTN4
12	MLF2	ENSG00000089693	ENST00000536207	protein_coding	NOVEL	None	7126	238	78	6859911	6861844	-1	None	NTN4
12	MLF2	ENSG00000089693	ENST00000536249	retained_intron	KNOWN	None	7126	None	None	6860988	6862133	-1	None	NTN4
12	MLF2	ENSG00000089693	ENST00000435120	protein_coding	KNOWN	CCDS8559	7126	747	248	6857170	6862082	-1	None	NTN4
7	None	ENSG00000179131	ENST00000427776	processed_pseudogene	KNOWN	None	None	None	None	66379568	66379930	1	None	None
16	None	ENSG00000261680	ENST00000568120	processed_pseudogene	KNOWN	None	None	None	None	30635606	30636035	-1	None	None
1	BTBD8	ENSG00000189195	ENST00000370382	protein_coding	KNOWN	None	21019	918	305	92545862	92605503	1	None	None
1	BTBD8	ENSG00000189195	ENST00000342818	protein_coding	KNOWN	CCDS737	21019	1137	378	92545893	92613393	1	None	None
1	BTBD8	ENSG00000189195	ENST00000540648	protein_coding	KNOWN	None	21019	852	283	92546095	92613310	1	None	None
19	NAPA-AS1	ENSG00000268061	ENST00000593284	antisense	KNOWN	None	44118	None	None	47987539	47999639	1	None	None
19	NAPA-AS1	ENSG00000268061	ENST00000594367	antisense	KNOWN	None	44118	None	None	47987565	48004854	1	None	None
1	None	ENSG00000233078	ENST00000437156	antisense	KNOWN	None	None	None	None	16332655	16333166	-1	None	None
14	None	ENSG00000259166	ENST00000553318	lincRNA	KNOWN	None	None	None	None	101913979	101923454	1	None	None
2	ZFP36L2	ENSG00000152518	ENST00000282388	protein_coding	KNOWN	CCDS1811	1108	1485	494	43449541	43453748	-1	BRF2	ERF2, RNF162C, TIS11D
8	None	ENSG00000263612	ENST00000583427	lincRNA	KNOWN	None	None	None	None	145939284	145940230	1	None	None
9	SEMA4D	ENSG00000187764	ENST00000339861	protein_coding	NOVEL	CCDS47991	10732	2217	738	91975702	92112953	-1	SEMAJ, C9orf164	CD100, coll-4, FLJ39737
9	SEMA4D	ENSG00000187764	ENST00000492386	retained_intron	KNOWN	None	10732	None	None	91975706	91992197	-1	SEMAJ, C9orf164	CD100, coll-4, FLJ39737
9	SEMA4D	ENSG00000187764	ENST00000420101	protein_coding	KNOWN	None	10732	372	123	91976516	91979566	-1	SEMAJ, C9orf164	CD100, coll-4, FLJ39737
9	SEMA4D	ENSG00000187764	ENST00000475255	processed_transcript	KNOWN	None	10732	None	None	91976516	91980569	-1	SEMAJ, C9orf164	CD100, coll-4, FLJ39737
9	SEMA4D	ENSG00000187764	ENST00000469653	processed_transcript	KNOWN	None	10732	None	None	91976516	91984434	-1	SEMAJ, C9orf164	CD100, coll-4, FLJ39737
9	SEMA4D	ENSG00000187764	ENST00000455551	protein_coding	NOVEL	CCDS47991	10732	2217	738	91976524	92113045	-1	SEMAJ, C9orf164	CD100, coll-4, FLJ39737
9	SEMA4D	ENSG00000187764	ENST00000429836	nonsense_mediated_decay	KNOWN	None	10732	1647	548	91976894	92094805	-1	SEMAJ, C9orf164	CD100, coll-4, FLJ39737
9	SEMA4D	ENSG00000187764	ENST00000537934	nonsense_mediated_decay	KNOWN	None	10732	1647	548	91977154	92094805	-1	SEMAJ, C9orf164	CD100, coll-4, FLJ39737
9	SEMA4D	ENSG00000187764	ENST00000450295	protein_coding	KNOWN	CCDS6685	10732	2589	862	91991301	92033748	-1	SEMAJ, C9orf164	CD100, coll-4, FLJ39737
9	SEMA4D	ENSG00000187764	ENST00000438547	protein_coding	KNOWN	CCDS6685	10732	2589	862	91992150	92094805	-1	SEMAJ, C9orf164	CD100, coll-4, FLJ39737
9	SEMA4D	ENSG00000187764	ENST00000422704	protein_coding	KNOWN	CCDS6685	10732	2589	862	91992306	92113004	-1	SEMAJ, C9orf164	CD100, coll-4, FLJ39737
9	SEMA4D	ENSG00000187764	ENST00000486935	retained_intron	KNOWN	None	10732	None	None	91994290	91996758	-1	SEMAJ, C9orf164	CD100, coll-4, FLJ39737
9	SEMA4D	ENSG00000187764	ENST00000540183	retained_intron	KNOWN	None	10732	None	None	91994502	91996102	-1	SEMAJ, C9orf164	CD100, coll-4, FLJ39737
9	SEMA4D	ENSG00000187764	ENST00000544513	retained_intron	KNOWN	None	10732	None	None	91995971	92001664	-1	SEMAJ, C9orf164	CD100, coll-4, FLJ39737
9	SEMA4D	ENSG00000187764	ENST00000474258	retained_intron	KNOWN	None	10732	None	None	92002087	92003641	-1	SEMAJ, C9orf164	CD100, coll-4, FLJ39737
9	SEMA4D	ENSG00000187764	ENST00000420681	protein_coding	KNOWN	None	10732	439	145	92008546	92051398	-1	SEMAJ, C9orf164	CD100, coll-4, FLJ39737
9	SEMA4D	ENSG00000187764	ENST00000433650	protein_coding	KNOWN	None	10732	227	74	92017811	92020841	-1	SEMAJ, C9orf164	CD100, coll-4, FLJ39737
9	SEMA4D	ENSG00000187764	ENST00000540475	protein_coding	KNOWN	None	10732	198	65	92017840	92094805	-1	SEMAJ, C9orf164	CD100, coll-4, FLJ39737
9	SEMA4D	ENSG00000187764	ENST00000418828	protein_coding	KNOWN	None	10732	178	58	92017860	92051378	-1	SEMAJ, C9orf164	CD100, coll-4, FLJ39737
9	SEMA4D	ENSG00000187764	ENST00000420670	protein_coding	KNOWN	None	10732	3	0	92020369	92112347	-1	SEMAJ, C9orf164	CD100, coll-4, FLJ39737
9	SEMA4D	ENSG00000187764	ENST00000464051	processed_transcript	KNOWN	None	10732	None	None	92020476	92033148	-1	SEMAJ, C9orf164	CD100, coll-4, FLJ39737
9	SEMA4D	ENSG00000187764	ENST00000482128	processed_transcript	KNOWN	None	10732	None	None	92020517	92051493	-1	SEMAJ, C9orf164	CD100, coll-4, FLJ39737
9	SEMA4D	ENSG00000187764	ENST00000420987	protein_coding	KNOWN	CCDS47991	10732	2217	738	91975706	92070868	-1	SEMAJ, C9orf164	CD100, coll-4, FLJ39737
9	SEMA4D	ENSG00000187764	ENST00000343780	protein_coding	KNOWN	CCDS47991	10732	2217	738	91977154	92094805	-1	SEMAJ, C9orf164	CD100, coll-4, FLJ39737
9	SEMA4D	ENSG00000187764	ENST00000356444	protein_coding	KNOWN	CCDS6685	10732	2589	862	91992152	92070868	-1	SEMAJ, C9orf164	CD100, coll-4, FLJ39737
19	KLHL26	ENSG00000167487	ENST00000300976	protein_coding	KNOWN	CCDS12384	25623	1848	615	18747775	18781309	1	None	None
19	KLHL26	ENSG00000167487	ENST00000595182	protein_coding	PUTATIVE	None	25623	309	102	18747835	18778436	1	None	None
19	KLHL26	ENSG00000167487	ENST00000600657	nonsense_mediated_decay	KNOWN	None	25623	141	46	18747838	18778659	1	None	None
19	KLHL26	ENSG00000167487	ENST00000599006	protein_coding	PUTATIVE	None	25623	438	145	18747838	18780608	1	None	None
19	KLHL26	ENSG00000167487	ENST00000595423	protein_coding	PUTATIVE	None	25623	554	183	18747867	18778676	1	None	None
19	KLHL26	ENSG00000167487	ENST00000596843	processed_transcript	KNOWN	None	25623	None	None	18755448	18778802	1	None	None
13	None	ENSG00000271564	ENST00000603464	lincRNA	KNOWN	None	None	None	None	52908430	52916031	1	None	None
7	RN7SL43P	ENSG00000264761	ENST00000463926	misc_RNA	KNOWN	None	46059	None	None	66445107	66445395	1	None	None
1	CELA3A	ENSG00000142789	ENST00000290122	protein_coding	KNOWN	CCDS220	15944	813	270	22328149	22339015	1	ELA3A	ELA3
1	CELA3A	ENSG00000142789	ENST00000374663	protein_coding	KNOWN	None	15944	366	121	22328153	22332561	1	ELA3A	ELA3
1	CELA3A	ENSG00000142789	ENST00000400271	protein_coding	KNOWN	None	15944	228	75	22333943	22339032	1	ELA3A	ELA3
1	None	ENSG00000232456	ENST00000447882	unprocessed_pseudogene	KNOWN	None	None	None	None	16361673	16366524	-1	None	None
16	None	ENSG00000260113	ENST00000567049	processed_pseudogene	KNOWN	None	None	None	None	30638297	30638499	1	None	None
7	None	ENSG00000233383	ENST00000457546	processed_pseudogene	KNOWN	None	None	None	None	66554244	66554457	-1	None	None
19	RN7SL322P	ENSG00000264280	ENST00000583519	misc_RNA	KNOWN	None	46338	None	None	48084280	48084576	1	None	None
15	None	ENSG00000258483	ENST00000554798	lincRNA	KNOWN	None	None	None	None	98563824	98565007	1	None	None
13	RNY4P24	ENSG00000199605	ENST00000362735	misc_RNA	KNOWN	None	42474	None	None	52974139	52974234	1	None	None
4	EFTUD1P2	ENSG00000248998	ENST00000514817	processed_pseudogene	KNOWN	None	44202	None	None	66008421	66011481	-1	None	None
19	None	ENSG00000268746	ENST00000599924	lincRNA	KNOWN	None	None	None	None	48110781	48236355	1	None	None
18	CDH2	ENSG00000170558	ENST00000269141	protein_coding	KNOWN	CCDS11891	1759	2721	906	25530930	25757410	-1	NCAD	CDHN, CD325
18	CDH2	ENSG00000170558	ENST00000399380	protein_coding	NOVEL	None	1759	2628	875	25531045	25616549	-1	NCAD	CDHN, CD325
18	CDH2	ENSG00000170558	ENST00000418492	protein_coding	PUTATIVE	None	1759	573	190	25585934	25625560	-1	NCAD	CDHN, CD325
18	CDH2	ENSG00000170558	ENST00000430882	protein_coding	PUTATIVE	None	1759	360	119	25589768	25677193	-1	NCAD	CDHN, CD325
18	CDH2	ENSG00000170558	ENST00000413878	protein_coding	PUTATIVE	None	1759	219	72	25591882	25739261	-1	NCAD	CDHN, CD325
13	LINC00345	ENSG00000235660	ENST00000443679	lincRNA	KNOWN	None	42503	None	None	53058296	53058815	-1	None	None
8	RN7SL395P	ENSG00000244307	ENST00000462960	misc_RNA	KNOWN	None	46411	None	None	146010683	146010971	1	None	None
19	None	ENSG00000269806	ENST00000598376	antisense	KNOWN	None	None	None	None	48118956	48129652	-1	None	None
1	None	ENSG00000227959	ENST00000424774	antisense	KNOWN	None	None	None	None	16481706	16483824	1	None	None
8	None	ENSG00000263640	ENST00000578937	miRNA	NOVEL	None	None	None	None	146078798	146078907	1	None	None
15	RNU6-134P	ENSG00000252477	ENST00000516668	snRNA	KNOWN	None	47097	None	None	98569271	98569368	1	None	None
19	SNORD23	ENSG00000221803	ENST00000408876	snoRNA	KNOWN	None	32718	None	None	48259110	48259219	1	None	HBII-115
11	SF3A3P2	ENSG00000254449	ENST00000528675	processed_pseudogene	KNOWN	None	23277	None	None	123468654	123470160	-1	None	None
13	None	ENSG00000244471	ENST00000418237	lincRNA	KNOWN	None	None	None	None	53063128	53073279	1	None	None
13	None	ENSG00000244471	ENST00000446689	lincRNA	KNOWN	None	None	None	None	53063128	53073440	1	None	None
22	None	ENSG00000188424	ENST00000454636	antisense	KNOWN	None	None	None	None	20326328	20350457	1	None	None
19	TMPRSS9	ENSG00000178297	ENST00000395264	retained_intron	KNOWN	None	30079	None	None	2389769	2414201	1	None	None
19	TMPRSS9	ENSG00000178297	ENST00000332578	protein_coding	KNOWN	CCDS12088	30079	3180	1059	2389784	2426237	1	None	None
19	TMPRSS9	ENSG00000178297	ENST00000592650	processed_transcript	KNOWN	None	30079	None	None	2396176	2398820	1	None	None
19	TMPRSS9	ENSG00000178297	ENST00000587863	retained_intron	KNOWN	None	30079	None	None	2416241	2418024	1	None	None
5	GAPDHP71	ENSG00000213376	ENST00000511530	processed_pseudogene	KNOWN	None	4149	None	None	173940308	173941310	1	GAPDL16, GAPDHL16	None
14	DIO3OS	ENSG00000258498	ENST00000557109	lincRNA	KNOWN	None	20348	None	None	102018558	102026740	-1	C14orf134	NCRNA00041, DIO3-AS1
14	DIO3OS	ENSG00000258498	ENST00000556120	lincRNA	KNOWN	None	20348	None	None	102018560	102022013	-1	C14orf134	NCRNA00041, DIO3-AS1
14	DIO3OS	ENSG00000258498	ENST00000553575	lincRNA	KNOWN	None	20348	None	None	102018560	102022013	-1	C14orf134	NCRNA00041, DIO3-AS1
14	DIO3OS	ENSG00000258498	ENST00000556266	lincRNA	KNOWN	None	20348	None	None	102023641	102025113	-1	C14orf134	NCRNA00041, DIO3-AS1
14	DIO3OS	ENSG00000258498	ENST00000554441	lincRNA	KNOWN	None	20348	None	None	102023641	102026712	-1	C14orf134	NCRNA00041, DIO3-AS1
14	DIO3OS	ENSG00000258498	ENST00000554735	lincRNA	KNOWN	None	20348	None	None	102023641	102026748	-1	C14orf134	NCRNA00041, DIO3-AS1
14	DIO3OS	ENSG00000258498	ENST00000555174	lincRNA	KNOWN	None	20348	None	None	102023641	102026759	-1	C14orf134	NCRNA00041, DIO3-AS1
14	DIO3OS	ENSG00000258498	ENST00000557661	lincRNA	KNOWN	None	20348	None	None	102023641	102026768	-1	C14orf134	NCRNA00041, DIO3-AS1
14	DIO3OS	ENSG00000258498	ENST00000557532	lincRNA	KNOWN	None	20348	None	None	102023645	102026740	-1	C14orf134	NCRNA00041, DIO3-AS1
14	DIO3OS	ENSG00000258498	ENST00000554694	lincRNA	KNOWN	None	20348	None	None	102023645	102026740	-1	C14orf134	NCRNA00041, DIO3-AS1
14	DIO3OS	ENSG00000258498	ENST00000555882	lincRNA	KNOWN	None	20348	None	None	102024890	102026643	-1	C14orf134	NCRNA00041, DIO3-AS1
14	DIO3OS	ENSG00000258498	ENST00000553729	lincRNA	KNOWN	None	20348	None	None	102025925	102026729	-1	C14orf134	NCRNA00041, DIO3-AS1
14	DIO3OS	ENSG00000258498	ENST00000408206	miRNA	KNOWN	None	20348	None	None	102026624	102026759	-1	C14orf134	NCRNA00041, DIO3-AS1
6	None	ENSG00000187461	ENST00000558378	protein_coding	NOVEL	None	None	411	136	13469513	13486415	-1	None	None
10	None	ENSG00000223565	ENST00000446320	processed_pseudogene	KNOWN	None	None	None	None	85495262	85496249	1	None	None
8	KLF10	ENSG00000155090	ENST00000285407	protein_coding	KNOWN	CCDS6294	11810	1443	480	103661007	103668130	-1	TIEG	EGRA, TIEG1
8	KLF10	ENSG00000155090	ENST00000395884	protein_coding	PUTATIVE	CCDS47905	11810	1410	469	103661014	103666603	-1	TIEG	EGRA, TIEG1
19	None	ENSG00000269656	ENST00000602048	antisense	KNOWN	None	None	None	None	48260293	48272097	-1	None	None
9	None	ENSG00000196979	ENST00000358748	protein_coding	KNOWN	None	None	570	189	132902889	132906498	-1	None	None
9	PPP6C	ENSG00000119414	ENST00000373547	protein_coding	KNOWN	CCDS6861	9323	918	305	127908852	127952097	-1	None	PP6
9	PPP6C	ENSG00000119414	ENST00000456642	protein_coding	KNOWN	None	9323	375	124	127916233	127952062	-1	None	PP6
9	PPP6C	ENSG00000119414	ENST00000451402	protein_coding	KNOWN	CCDS48018	9323	1029	342	127908853	127952218	-1	None	PP6
9	PPP6C	ENSG00000119414	ENST00000415905	protein_coding	KNOWN	CCDS48019	9323	852	283	127908853	127952218	-1	None	PP6
9	PPP6C	ENSG00000119414	ENST00000373546	protein_coding	KNOWN	None	9323	477	158	127911776	127952071	-1	None	PP6
6	HSF2	ENSG00000025156	ENST00000368455	protein_coding	KNOWN	CCDS5124	5225	1611	536	122720691	122754111	1	None	None
6	HSF2	ENSG00000025156	ENST00000465214	processed_transcript	KNOWN	None	5225	None	None	122743301	122753137	1	None	None
6	HSF2	ENSG00000025156	ENST00000452194	protein_coding	KNOWN	CCDS47470	5225	1557	518	122720696	122754264	1	None	None
10	RNU6-129P	ENSG00000212324	ENST00000391022	snRNA	KNOWN	None	47092	None	None	85524114	85524220	1	None	None
12	RNA5SP368	ENSG00000201168	ENST00000364298	rRNA	KNOWN	None	43268	None	None	102173592	102173707	1	RN5S368	None
2	NT5C1B-RDH14	ENSG00000250741	ENST00000532967	protein_coding	KNOWN	CCDS56111	38831	1809	602	18736811	18770828	-1	None	None
2	NT5C1B-RDH14	ENSG00000250741	ENST00000444297	protein_coding	NOVEL	None	38831	1599	532	18736811	18770830	-1	None	None
13	SPG20	ENSG00000133104	ENST00000438666	protein_coding	KNOWN	CCDS9356	18514	2001	666	36875775	36920420	-1	None	KIAA0610, TAHCCP1
13	SPG20	ENSG00000133104	ENST00000494062	protein_coding	KNOWN	CCDS9356	18514	2001	666	36877739	36920630	-1	None	KIAA0610, TAHCCP1
13	SPG20	ENSG00000133104	ENST00000491805	processed_transcript	KNOWN	None	18514	None	None	36878459	36886721	-1	None	KIAA0610, TAHCCP1
13	SPG20	ENSG00000133104	ENST00000460126	processed_transcript	KNOWN	None	18514	None	None	36878588	36886548	-1	None	KIAA0610, TAHCCP1
13	SPG20	ENSG00000133104	ENST00000475603	processed_transcript	KNOWN	None	18514	None	None	36878594	36900760	-1	None	KIAA0610, TAHCCP1
13	SPG20	ENSG00000133104	ENST00000482146	processed_transcript	KNOWN	None	18514	None	None	36886279	36888578	-1	None	KIAA0610, TAHCCP1
13	SPG20	ENSG00000133104	ENST00000495510	processed_transcript	KNOWN	None	18514	None	None	36900060	36920420	-1	None	KIAA0610, TAHCCP1
13	SPG20	ENSG00000133104	ENST00000494703	processed_transcript	KNOWN	None	18514	None	None	36909370	36920914	-1	None	KIAA0610, TAHCCP1
13	SPG20	ENSG00000133104	ENST00000476377	processed_transcript	KNOWN	None	18514	None	None	36909718	36919771	-1	None	KIAA0610, TAHCCP1
13	SPG20	ENSG00000133104	ENST00000355182	protein_coding	KNOWN	CCDS9356	18514	2001	666	36875777	36944317	-1	None	KIAA0610, TAHCCP1
13	SPG20	ENSG00000133104	ENST00000451493	protein_coding	KNOWN	CCDS9356	18514	2001	666	36875777	36920934	-1	None	KIAA0610, TAHCCP1
15	None	ENSG00000259511	ENST00000558195	protein_coding	PUTATIVE	CCDS58396	None	396	131	84841242	84850986	1	None	None
1	None	ENSG00000224621	ENST00000426353	antisense	KNOWN	None	None	None	None	16485761	16488378	1	None	None
12	None	ENSG00000238940	ENST00000459085	snoRNA	NOVEL	None	None	None	None	102183593	102183693	1	None	None
10	None	ENSG00000233258	ENST00000432108	lincRNA	KNOWN	None	None	None	None	85671410	85672678	-1	None	None
19	RPL23AP80	ENSG00000213035	ENST00000495605	processed_pseudogene	KNOWN	None	36956	None	None	48297724	48298147	-1	None	None
5	SUMO2P6	ENSG00000249031	ENST00000505273	processed_pseudogene	KNOWN	None	39016	None	None	173988779	173989066	1	None	None
11	None	ENSG00000254467	ENST00000532961	lincRNA	KNOWN	None	None	None	None	123539207	123542345	1	None	None
1	ARHGEF19-AS1	ENSG00000234166	ENST00000457809	antisense	KNOWN	None	39996	None	None	16524349	16524852	1	None	None
10	RNU1-65P	ENSG00000200789	ENST00000363919	snRNA	KNOWN	None	48407	None	None	85763088	85763235	1	None	None
16	RNU6-416P	ENSG00000252074	ENST00000516265	snRNA	KNOWN	None	47379	None	None	30686621	30686723	-1	None	None
19	CLPTM1	ENSG00000104853	ENST00000588855	retained_intron	KNOWN	None	2087	None	None	45457842	45491120	1	None	None
19	CLPTM1	ENSG00000104853	ENST00000546079	protein_coding	PUTATIVE	None	2087	1704	567	45457848	45496448	1	None	None
19	CLPTM1	ENSG00000104853	ENST00000541297	protein_coding	PUTATIVE	None	2087	1968	655	45457848	45496454	1	None	None
19	CLPTM1	ENSG00000104853	ENST00000337392	protein_coding	KNOWN	CCDS12651	2087	2010	669	45458503	45496599	1	None	None
19	CLPTM1	ENSG00000104853	ENST00000591304	protein_coding	NOVEL	None	2087	513	170	45458638	45488561	1	None	None
19	CLPTM1	ENSG00000104853	ENST00000585961	protein_coding	PUTATIVE	None	2087	55	17	45458815	45477747	1	None	None
19	CLPTM1	ENSG00000104853	ENST00000587537	retained_intron	KNOWN	None	2087	None	None	45477804	45490194	1	None	None
19	CLPTM1	ENSG00000104853	ENST00000589158	processed_transcript	KNOWN	None	2087	None	None	45487544	45490648	1	None	None
19	CLPTM1	ENSG00000104853	ENST00000588274	retained_intron	KNOWN	None	2087	None	None	45490162	45493843	1	None	None
19	CLPTM1	ENSG00000104853	ENST00000589347	nonsense_mediated_decay	KNOWN	None	2087	459	152	45490619	45495894	1	None	None
19	CLPTM1	ENSG00000104853	ENST00000586975	retained_intron	KNOWN	None	2087	None	None	45493242	45494517	1	None	None
19	CLPTM1	ENSG00000104853	ENST00000586915	protein_coding	PUTATIVE	None	2087	630	209	45495526	45496452	1	None	None
12	RNU6-172P	ENSG00000222932	ENST00000411000	snRNA	KNOWN	None	47135	None	None	102190188	102190280	-1	None	None
10	HMGN2P8	ENSG00000212769	ENST00000391458	processed_pseudogene	KNOWN	None	31662	None	None	85841185	85841751	1	HMGN2L8	AC022394.1
12	RNA5SP369	ENSG00000223046	ENST00000411114	rRNA	KNOWN	None	43269	None	None	102230598	102230705	1	RN5S369	None
16	None	ENSG00000261840	ENST00000564775	antisense	KNOWN	None	None	None	None	30709030	30710282	-1	None	None
16	None	ENSG00000261840	ENST00000568500	antisense	KNOWN	None	None	None	None	30709034	30710379	-1	None	None
11	None	ENSG00000266814	ENST00000582000	miRNA	NOVEL	None	None	None	None	123579381	123579478	-1	None	None
3	HRH1	ENSG00000196639	ENST00000438284	protein_coding	KNOWN	CCDS2604	5182	1464	487	11178779	11302461	1	None	None
3	HRH1	ENSG00000196639	ENST00000431010	protein_coding	KNOWN	CCDS2604	5182	1464	487	11196214	11304939	1	None	None
3	HRH1	ENSG00000196639	ENST00000413416	protein_coding	KNOWN	None	5182	38	11	11267717	11300761	1	None	None
3	HRH1	ENSG00000196639	ENST00000397056	protein_coding	KNOWN	CCDS2604	5182	1464	487	11294385	11305243	1	None	None
13	TPTE2P3	ENSG00000198384	ENST00000441562	unprocessed_pseudogene	KNOWN	None	27345	None	None	53096767	53161041	1	None	None
13	TPTE2P3	ENSG00000198384	ENST00000427445	unprocessed_pseudogene	KNOWN	None	27345	None	None	53063128	53161222	1	None	None
1	ANO7P1	ENSG00000237276	ENST00000442385	processed_transcript	KNOWN	None	32248	None	None	16542404	16543655	-1	TMEM16M, C1orf224, ANO7L1	None
1	ANO7P1	ENSG00000237276	ENST00000475369	processed_transcript	KNOWN	None	32248	None	None	16542952	16543823	-1	TMEM16M, C1orf224, ANO7L1	None
1	ANO7P1	ENSG00000237276	ENST00000602586	transcribed_unprocessed_pseudogene	KNOWN	None	32248	None	None	16542964	16554522	-1	TMEM16M, C1orf224, ANO7L1	None
9	NCS1	ENSG00000107130	ENST00000372398	protein_coding	KNOWN	CCDS6932	3953	573	190	132934857	132999583	1	FREQ	NCS-1
9	NCS1	ENSG00000107130	ENST00000493042	processed_transcript	KNOWN	None	3953	None	None	132956107	132980199	1	FREQ	NCS-1
9	NCS1	ENSG00000107130	ENST00000458469	protein_coding	KNOWN	CCDS48043	3953	519	172	132962872	132999583	1	FREQ	NCS-1
12	RNU6-1183P	ENSG00000252863	ENST00000517054	snRNA	KNOWN	None	48146	None	None	102265520	102265579	-1	None	None
5	None	ENSG00000248362	ENST00000512300	antisense	KNOWN	None	None	None	None	147265649	147266441	-1	None	None
5	None	ENSG00000250256	ENST00000505567	lincRNA	KNOWN	None	None	None	None	174045167	174052778	1	None	None
11	RNU1-21P	ENSG00000200197	ENST00000363327	snRNA	KNOWN	None	41947	None	None	123634635	123634797	1	None	None
8	ZNF252P	ENSG00000196922	ENST00000426361	processed_transcript	KNOWN	None	13046	None	None	146198975	146228280	-1	ZNF252	None
8	ZNF252P	ENSG00000196922	ENST00000592792	unitary_pseudogene	KNOWN	None	13046	None	None	146201576	146225109	-1	ZNF252	None
8	ZNF252P	ENSG00000196922	ENST00000427606	retained_intron	KNOWN	None	13046	None	None	146202071	146221548	-1	ZNF252	None
8	ZNF252P	ENSG00000196922	ENST00000527222	processed_transcript	KNOWN	None	13046	None	None	146203525	146228281	-1	ZNF252	None
8	ZNF252P	ENSG00000196922	ENST00000528392	processed_transcript	KNOWN	None	13046	None	None	146203701	146228281	-1	ZNF252	None
8	ZNF252P	ENSG00000196922	ENST00000534037	processed_transcript	KNOWN	None	13046	None	None	146221108	146228261	-1	ZNF252	None
8	ZNF252P	ENSG00000196922	ENST00000529315	processed_transcript	KNOWN	None	13046	None	None	146221838	146228267	-1	ZNF252	None
8	ZNF252P	ENSG00000196922	ENST00000528327	retained_intron	KNOWN	None	13046	None	None	146223368	146228236	-1	ZNF252	None
8	ZNF252P	ENSG00000196922	ENST00000355436	unitary_pseudogene	KNOWN	None	13046	None	None	146201799	146203910	-1	ZNF252	None
5	None	ENSG00000251320	ENST00000505162	antisense	KNOWN	None	None	None	None	147266675	147267267	1	None	None
7	ZNF425	ENSG00000204947	ENST00000378061	protein_coding	KNOWN	CCDS34773	20690	2259	752	148799876	148823438	-1	None	None
7	ZNF425	ENSG00000204947	ENST00000495685	retained_intron	KNOWN	None	20690	None	None	148802365	148809488	-1	None	None
7	ZNF425	ENSG00000204947	ENST00000483014	protein_coding	PUTATIVE	None	20690	448	148	148802581	148823398	-1	None	None
7	ZNF425	ENSG00000204947	ENST00000484196	processed_transcript	KNOWN	None	20690	None	None	148809110	148810546	-1	None	None
12	None	ENSG00000258153	ENST00000550617	processed_pseudogene	KNOWN	None	None	None	None	102267094	102267401	-1	None	None
7	MIR4650-1	ENSG00000266525	ENST00000579075	miRNA	KNOWN	None	41755	None	None	66579309	66579384	-1	None	hsa-mir-4650-1
17	FLCN	ENSG00000154803	ENST00000285071	protein_coding	KNOWN	CCDS32579	27310	1740	579	17115526	17140453	-1	None	BHD, MGC17998, MGC23445
17	FLCN	ENSG00000154803	ENST00000577591	retained_intron	KNOWN	None	27310	None	None	17120286	17122417	-1	None	BHD, MGC17998, MGC23445
17	FLCN	ENSG00000154803	ENST00000466317	retained_intron	KNOWN	None	27310	None	None	17122881	17126436	-1	None	BHD, MGC17998, MGC23445
17	FLCN	ENSG00000154803	ENST00000389169	protein_coding	KNOWN	CCDS32580	27310	1029	342	17124485	17140453	-1	None	BHD, MGC17998, MGC23445
17	FLCN	ENSG00000154803	ENST00000480316	retained_intron	KNOWN	None	27310	None	None	17124902	17127819	-1	None	BHD, MGC17998, MGC23445
17	FLCN	ENSG00000154803	ENST00000417064	protein_coding	NOVEL	None	27310	459	152	17127236	17140496	-1	None	BHD, MGC17998, MGC23445
17	FLCN	ENSG00000154803	ENST00000389168	retained_intron	KNOWN	None	27310	None	None	17127867	17132791	-1	None	BHD, MGC17998, MGC23445
17	FLCN	ENSG00000154803	ENST00000389171	retained_intron	KNOWN	None	27310	None	None	17127867	17140502	-1	None	BHD, MGC17998, MGC23445
17	FLCN	ENSG00000154803	ENST00000461699	protein_coding	KNOWN	None	27310	112	36	17131340	17132043	-1	None	BHD, MGC17998, MGC23445
17	FLCN	ENSG00000154803	ENST00000473853	retained_intron	KNOWN	None	27310	None	None	17134838	17136126	-1	None	BHD, MGC17998, MGC23445
19	ZNF559	ENSG00000188321	ENST00000587557	protein_coding	PUTATIVE	None	28197	1809	602	9434448	9454519	1	None	MGC13105
19	ZNF559	ENSG00000188321	ENST00000592504	protein_coding	PUTATIVE	None	28197	528	175	9434855	9452760	1	None	MGC13105
19	ZNF559	ENSG00000188321	ENST00000585352	protein_coding	PUTATIVE	CCDS59349	28197	255	84	9434855	9452824	1	None	MGC13105
19	ZNF559	ENSG00000188321	ENST00000317221	protein_coding	PUTATIVE	CCDS59349	28197	255	84	9434855	9454519	1	None	MGC13105
19	ZNF559	ENSG00000188321	ENST00000586255	protein_coding	PUTATIVE	None	28197	450	149	9434855	9461838	1	None	MGC13105
19	ZNF559	ENSG00000188321	ENST00000592896	protein_coding	PUTATIVE	None	28197	339	112	9434873	9453141	1	None	MGC13105
19	ZNF559	ENSG00000188321	ENST00000605750	protein_coding	PUTATIVE	None	28197	1575	524	9434873	9454286	1	None	MGC13105
19	ZNF559	ENSG00000188321	ENST00000589208	protein_coding	PUTATIVE	None	28197	443	146	9434898	9452810	1	None	MGC13105
19	ZNF559	ENSG00000188321	ENST00000592298	protein_coding	KNOWN	None	28197	204	67	9434902	9451821	1	None	MGC13105
19	ZNF559	ENSG00000188321	ENST00000585377	protein_coding	PUTATIVE	None	28197	117	38	9434907	9449258	1	None	MGC13105
19	ZNF559	ENSG00000188321	ENST00000393883	protein_coding	KNOWN	CCDS12211	28197	1617	538	9434928	9454521	1	None	MGC13105
19	ZNF559	ENSG00000188321	ENST00000588124	protein_coding	PUTATIVE	None	28197	243	80	9434983	9449994	1	None	MGC13105
19	ZNF559	ENSG00000188321	ENST00000591652	protein_coding	PUTATIVE	None	28197	159	52	9449932	9454521	1	None	MGC13105
19	ZNF559	ENSG00000188321	ENST00000603380	protein_coding	KNOWN	CCDS12211	28197	1617	538	9434873	9454519	1	None	MGC13105
19	ZNF559	ENSG00000188321	ENST00000538743	protein_coding	KNOWN	None	28197	1377	458	9434878	9454286	1	None	MGC13105
11	OR6M2P	ENSG00000254613	ENST00000529831	processed_pseudogene	KNOWN	None	14713	None	None	123711714	123712584	-1	None	None
7	None	ENSG00000265024	ENST00000578565	miRNA	NOVEL	None	None	None	None	66604058	66604157	-1	None	None
20	TMEM230	ENSG00000089063	ENST00000379277	protein_coding	KNOWN	CCDS13086	15876	363	120	5080486	5093550	-1	C20orf30	HSPC274
20	TMEM230	ENSG00000089063	ENST00000492419	processed_transcript	KNOWN	None	15876	None	None	5080486	5093615	-1	C20orf30	HSPC274
20	TMEM230	ENSG00000089063	ENST00000379299	protein_coding	KNOWN	CCDS13086	15876	363	120	5080486	5093688	-1	C20orf30	HSPC274
20	TMEM230	ENSG00000089063	ENST00000379286	protein_coding	KNOWN	CCDS13086	15876	363	120	5080486	5093688	-1	C20orf30	HSPC274
20	TMEM230	ENSG00000089063	ENST00000379279	protein_coding	KNOWN	CCDS13086	15876	363	120	5080486	5093695	-1	C20orf30	HSPC274
20	TMEM230	ENSG00000089063	ENST00000379283	protein_coding	KNOWN	CCDS13086	15876	363	120	5080486	5093696	-1	C20orf30	HSPC274
20	TMEM230	ENSG00000089063	ENST00000342308	protein_coding	KNOWN	CCDS33438	15876	552	183	5080486	5093733	-1	C20orf30	HSPC274
20	TMEM230	ENSG00000089063	ENST00000202834	protein_coding	KNOWN	CCDS13086	15876	363	120	5080486	5093749	-1	C20orf30	HSPC274
20	TMEM230	ENSG00000089063	ENST00000379276	protein_coding	KNOWN	None	15876	222	73	5086834	5093399	-1	C20orf30	HSPC274
7	NFE2L3	ENSG00000050344	ENST00000056233	protein_coding	KNOWN	CCDS5396	7783	2085	694	26191860	26226745	1	None	Nrf3
7	NFE2L3	ENSG00000050344	ENST00000607375	protein_coding	PUTATIVE	None	7783	252	83	26217623	26223494	1	None	Nrf3
7	NFE2L3	ENSG00000050344	ENST00000606261	retained_intron	KNOWN	None	7783	None	None	26223680	26225937	1	None	Nrf3
15	GOLGA6L4	ENSG00000184206	ENST00000510439	protein_coding	NOVEL	None	27256	1725	574	84904525	84914120	1	None	None
15	GOLGA6L4	ENSG00000184206	ENST00000512109	protein_coding	NOVEL	None	27256	585	194	84906338	84911429	1	None	None
15	GOLGA6L4	ENSG00000184206	ENST00000515814	retained_intron	KNOWN	None	27256	None	None	84906670	84909435	1	None	None
15	GOLGA6L4	ENSG00000184206	ENST00000379674	retained_intron	KNOWN	None	27256	None	None	84909369	84910104	1	None	None
15	GOLGA6L4	ENSG00000184206	ENST00000424966	protein_coding	KNOWN	None	27256	348	115	84908573	84910104	1	None	None
15	GOLGA6L4	ENSG00000184206	ENST00000422563	protein_coding	KNOWN	None	27256	753	250	84908671	84911353	1	None	None
7	TRBJ2-4	ENSG00000211768	ENST00000390416	TR_J_gene	KNOWN	None	12172	50	15	142494682	142494731	1	None	TRBJ24, TCRBJ2S4
12	None	ENSG00000257202	ENST00000551918	antisense	KNOWN	None	None	None	None	102317188	102318497	-1	None	None
7	None	ENSG00000230358	ENST00000413323	unprocessed_pseudogene	KNOWN	None	None	None	None	66744765	66751217	1	None	None
7	None	ENSG00000230358	ENST00000442619	unprocessed_pseudogene	KNOWN	None	None	None	None	66744765	66751606	1	None	None
HSCHR5_1_CTG1	GTF2H2	ENSG00000262169	ENST00000575347	retained_intron	KNOWN	None	4656	None	None	68855801	68868460	1	None	BTF2, TFIIH, BTF2P44, T-BTF2P44, p44
HSCHR5_1_CTG1	GTF2H2	ENSG00000262169	ENST00000573350	retained_intron	KNOWN	None	4656	None	None	68855814	68862984	1	None	BTF2, TFIIH, BTF2P44, T-BTF2P44, p44
HSCHR5_1_CTG1	GTF2H2	ENSG00000262169	ENST00000573501	retained_intron	KNOWN	None	4656	None	None	68855816	68875400	1	None	BTF2, TFIIH, BTF2P44, T-BTF2P44, p44
HSCHR5_1_CTG1	GTF2H2	ENSG00000262169	ENST00000575673	protein_coding	KNOWN	None	4656	1188	395	68855835	68888381	1	None	BTF2, TFIIH, BTF2P44, T-BTF2P44, p44
HSCHR5_1_CTG1	GTF2H2	ENSG00000262169	ENST00000576299	protein_coding	PUTATIVE	None	4656	372	123	68855838	68887854	1	None	BTF2, TFIIH, BTF2P44, T-BTF2P44, p44
HSCHR5_1_CTG1	GTF2H2	ENSG00000262169	ENST00000573143	protein_coding	KNOWN	None	4656	1188	395	68855840	68888133	1	None	BTF2, TFIIH, BTF2P44, T-BTF2P44, p44
HSCHR5_1_CTG1	GTF2H2	ENSG00000262169	ENST00000570610	protein_coding	KNOWN	None	4656	9	2	68855842	68860736	1	None	BTF2, TFIIH, BTF2P44, T-BTF2P44, p44
HSCHR5_1_CTG1	GTF2H2	ENSG00000262169	ENST00000574454	protein_coding	KNOWN	None	4656	12	3	68855852	68860739	1	None	BTF2, TFIIH, BTF2P44, T-BTF2P44, p44
HSCHR5_1_CTG1	GTF2H2	ENSG00000262169	ENST00000576799	nonsense_mediated_decay	KNOWN	None	4656	156	51	68855889	68888468	1	None	BTF2, TFIIH, BTF2P44, T-BTF2P44, p44
HSCHR5_1_CTG1	GTF2H2	ENSG00000262169	ENST00000574959	retained_intron	KNOWN	None	4656	None	None	68860692	68865615	1	None	BTF2, TFIIH, BTF2P44, T-BTF2P44, p44
HSCHR5_1_CTG1	GTF2H2	ENSG00000262169	ENST00000572539	retained_intron	KNOWN	None	4656	None	None	68860692	68875788	1	None	BTF2, TFIIH, BTF2P44, T-BTF2P44, p44
HSCHR5_1_CTG1	GTF2H2	ENSG00000262169	ENST00000573783	retained_intron	KNOWN	None	4656	None	None	68860728	68862081	1	None	BTF2, TFIIH, BTF2P44, T-BTF2P44, p44
19	RPS27P29	ENSG00000240231	ENST00000463110	processed_pseudogene	KNOWN	None	36516	None	None	23780143	23780394	1	None	None
11	PAX6	ENSG00000007372	ENST00000379132	protein_coding	KNOWN	CCDS31451	8620	1269	422	31810458	31839509	-1	AN2	D11S812E, AN, WAGR
11	PAX6	ENSG00000007372	ENST00000379129	protein_coding	KNOWN	CCDS31452	8620	1311	436	31810460	31839509	-1	AN2	D11S812E, AN, WAGR
11	PAX6	ENSG00000007372	ENST00000379107	protein_coding	KNOWN	CCDS31452	8620	1311	436	31810730	31831853	-1	AN2	D11S812E, AN, WAGR
11	PAX6	ENSG00000007372	ENST00000464174	retained_intron	KNOWN	None	8620	None	None	31811378	31839485	-1	AN2	D11S812E, AN, WAGR
11	PAX6	ENSG00000007372	ENST00000241001	protein_coding	KNOWN	CCDS31451	8620	1269	422	31811461	31832785	-1	AN2	D11S812E, AN, WAGR
11	PAX6	ENSG00000007372	ENST00000379115	protein_coding	KNOWN	CCDS31452	8620	1311	436	31811465	31832879	-1	AN2	D11S812E, AN, WAGR
11	PAX6	ENSG00000007372	ENST00000474783	retained_intron	KNOWN	None	8620	None	None	31811466	31812857	-1	AN2	D11S812E, AN, WAGR
11	PAX6	ENSG00000007372	ENST00000379111	protein_coding	KNOWN	CCDS31451	8620	1269	422	31811470	31832593	-1	AN2	D11S812E, AN, WAGR
11	PAX6	ENSG00000007372	ENST00000379123	protein_coding	KNOWN	CCDS31451	8620	1269	422	31811470	31833225	-1	AN2	D11S812E, AN, WAGR
11	PAX6	ENSG00000007372	ENST00000494377	retained_intron	KNOWN	None	8620	None	None	31811484	31824881	-1	AN2	D11S812E, AN, WAGR
11	PAX6	ENSG00000007372	ENST00000470027	retained_intron	KNOWN	None	8620	None	None	31811484	31825594	-1	AN2	D11S812E, AN, WAGR
11	PAX6	ENSG00000007372	ENST00000379109	protein_coding	KNOWN	None	8620	1267	421	31811484	31832215	-1	AN2	D11S812E, AN, WAGR
11	PAX6	ENSG00000007372	ENST00000533333	retained_intron	KNOWN	None	8620	None	None	31811484	31832856	-1	AN2	D11S812E, AN, WAGR
11	PAX6	ENSG00000007372	ENST00000532916	retained_intron	KNOWN	None	8620	None	None	31814721	31815674	-1	AN2	D11S812E, AN, WAGR
11	PAX6	ENSG00000007372	ENST00000530373	processed_transcript	KNOWN	None	8620	None	None	31815031	31822194	-1	AN2	D11S812E, AN, WAGR
11	PAX6	ENSG00000007372	ENST00000531910	processed_transcript	KNOWN	None	8620	None	None	31815222	31822883	-1	AN2	D11S812E, AN, WAGR
11	PAX6	ENSG00000007372	ENST00000471303	processed_transcript	KNOWN	None	8620	None	None	31815646	31825592	-1	AN2	D11S812E, AN, WAGR
11	PAX6	ENSG00000007372	ENST00000455099	protein_coding	NOVEL	None	8620	373	123	31816328	31828469	-1	AN2	D11S812E, AN, WAGR
11	PAX6	ENSG00000007372	ENST00000481563	processed_transcript	KNOWN	None	8620	None	None	31822255	31825573	-1	AN2	D11S812E, AN, WAGR
11	PAX6	ENSG00000007372	ENST00000534390	retained_intron	KNOWN	None	8620	None	None	31822311	31824519	-1	AN2	D11S812E, AN, WAGR
11	PAX6	ENSG00000007372	ENST00000534353	processed_transcript	KNOWN	None	8620	None	None	31823126	31826167	-1	AN2	D11S812E, AN, WAGR
11	PAX6	ENSG00000007372	ENST00000530714	processed_transcript	KNOWN	None	8620	None	None	31823165	31825221	-1	AN2	D11S812E, AN, WAGR
11	PAX6	ENSG00000007372	ENST00000533156	processed_transcript	KNOWN	None	8620	None	None	31823276	31827561	-1	AN2	D11S812E, AN, WAGR
11	PAX6	ENSG00000007372	ENST00000524853	protein_coding	KNOWN	None	8620	173	56	31823293	31833725	-1	AN2	D11S812E, AN, WAGR
11	PAX6	ENSG00000007372	ENST00000423822	protein_coding	KNOWN	None	8620	185	60	31823417	31839422	-1	AN2	D11S812E, AN, WAGR
11	PAX6	ENSG00000007372	ENST00000438681	protein_coding	KNOWN	None	8620	116	37	31824277	31832685	-1	AN2	D11S812E, AN, WAGR
11	PAX6	ENSG00000007372	ENST00000527769	retained_intron	KNOWN	None	8620	None	None	31827892	31832666	-1	AN2	D11S812E, AN, WAGR
11	PAX6	ENSG00000007372	ENST00000532175	retained_intron	KNOWN	None	8620	None	None	31827892	31839496	-1	AN2	D11S812E, AN, WAGR
11	PAX6	ENSG00000007372	ENST00000525535	protein_coding	KNOWN	None	8620	6	1	31827954	31834474	-1	AN2	D11S812E, AN, WAGR
11	PAX6	ENSG00000007372	ENST00000419022	protein_coding	KNOWN	CCDS31452	8620	1311	436	31806340	31839509	-1	AN2	D11S812E, AN, WAGR
11	OR6M3P	ENSG00000254430	ENST00000531567	processed_pseudogene	KNOWN	None	14741	None	None	123732530	123733229	-1	None	None
10	LINC00703	ENSG00000224382	ENST00000454152	lincRNA	KNOWN	None	44677	None	None	4426438	4452804	1	None	None
10	LINC00703	ENSG00000224382	ENST00000434902	lincRNA	KNOWN	None	44677	None	None	4448694	4451443	1	None	None
3	None	ENSG00000200616	ENST00000363746	misc_RNA	NOVEL	None	None	None	None	178815519	178815628	1	None	None
12	None	ENSG00000241917	ENST00000494902	processed_pseudogene	KNOWN	None	None	None	None	102329994	102330452	1	None	None
9	MIR126	ENSG00000199161	ENST00000362291	miRNA	KNOWN	None	31508	None	None	139565054	139565138	1	MIRN126	hsa-mir-126
16	GPR56	ENSG00000205336	ENST00000565587	protein_coding	KNOWN	None	4512	149	48	57644564	57685196	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000568791	protein_coding	KNOWN	None	4512	244	80	57653605	57685287	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000570044	protein_coding	KNOWN	None	4512	212	69	57653606	57685259	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000567553	protein_coding	NOVEL	None	4512	272	89	57653645	57685304	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000565314	protein_coding	KNOWN	None	4512	422	139	57653649	57685469	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000564912	processed_transcript	KNOWN	None	4512	None	None	57653650	57687943	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000562673	processed_transcript	KNOWN	None	4512	None	None	57653652	57685343	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000564907	nonsense_mediated_decay	KNOWN	None	4512	294	97	57653663	57698944	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000568908	protein_coding	KNOWN	CCDS32461	4512	2064	687	57653854	57698934	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000568909	protein_coding	KNOWN	CCDS32460	4512	2082	693	57653910	57698940	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000566778	protein_coding	KNOWN	None	4512	310	102	57653957	57685342	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000562101	processed_transcript	KNOWN	None	4512	None	None	57653958	57685379	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000561872	processed_transcript	KNOWN	None	4512	None	None	57653958	57685498	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000561988	protein_coding	KNOWN	None	4512	769	255	57653958	57688046	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000567835	protein_coding	KNOWN	CCDS32460	4512	2082	693	57653989	57698940	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000569372	protein_coding	KNOWN	None	4512	332	109	57654008	57685379	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000563548	protein_coding	NOVEL	None	4512	377	124	57654008	57685409	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000562003	protein_coding	NOVEL	None	4512	439	145	57654016	57685471	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000561833	protein_coding	KNOWN	None	4512	487	161	57654706	57685534	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000569531	protein_coding	KNOWN	None	4512	356	117	57655248	57685403	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000565013	protein_coding	KNOWN	None	4512	357	118	57661623	57685404	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000561696	protein_coding	KNOWN	None	4512	502	166	57661623	57687129	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000562414	protein_coding	KNOWN	None	4512	127	41	57662138	57685174	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000561969	protein_coding	KNOWN	None	4512	479	158	57662212	57685526	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000568487	processed_transcript	PUTATIVE	None	4512	None	None	57662216	57675539	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000562631	protein_coding	KNOWN	CCDS32461	4512	2064	687	57662218	57698940	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000563445	protein_coding	KNOWN	None	4512	339	112	57662220	57685386	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000562608	processed_transcript	KNOWN	None	4512	None	None	57662236	57685516	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000565338	protein_coding	KNOWN	None	4512	169	55	57662248	57685216	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000567702	protein_coding	KNOWN	None	4512	322	106	57662250	57685369	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000567154	protein_coding	KNOWN	None	4512	348	115	57662434	57685395	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000388813	protein_coding	KNOWN	CCDS32461	4512	2064	687	57662467	57698928	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000563007	nonsense_mediated_decay	KNOWN	None	4512	294	97	57662491	57687215	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000562558	protein_coding	KNOWN	CCDS32461	4512	2064	687	57662517	57698937	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000566271	protein_coding	NOVEL	None	4512	594	197	57662518	57687206	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000568645	nonsense_mediated_decay	KNOWN	None	4512	294	97	57662521	57687219	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000563374	protein_coding	KNOWN	None	4512	236	77	57662536	57685279	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000568234	protein_coding	NOVEL	None	4512	434	143	57662544	57685466	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000565770	protein_coding	NOVEL	None	4512	270	89	57662547	57685276	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000564338	protein_coding	KNOWN	None	4512	344	113	57662547	57685376	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000566164	protein_coding	KNOWN	None	4512	349	115	57662547	57685396	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000567397	protein_coding	KNOWN	None	4512	295	97	57662602	57685327	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000568979	protein_coding	NOVEL	None	4512	285	94	57662602	57685488	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000569992	processed_transcript	KNOWN	None	4512	None	None	57663227	57685369	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000566123	protein_coding	KNOWN	None	4512	253	83	57665011	57685300	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000562682	protein_coding	KNOWN	None	4512	232	76	57665087	57685279	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000561782	protein_coding	KNOWN	None	4512	504	167	57665137	57685536	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000564783	protein_coding	KNOWN	None	4512	19	5	57673207	57684218	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000564729	protein_coding	KNOWN	None	4512	164	53	57673324	57685211	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000565976	protein_coding	KNOWN	None	4512	282	93	57673325	57685329	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000566888	processed_transcript	KNOWN	None	4512	None	None	57673325	57685517	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000562804	processed_transcript	PUTATIVE	None	4512	None	None	57673337	57675567	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000566508	protein_coding	KNOWN	None	4512	291	96	57673337	57685381	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000565539	nonsense_mediated_decay	KNOWN	None	4512	294	97	57673337	57697880	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000567915	protein_coding	NOVEL	None	4512	354	117	57673354	57685386	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000569132	processed_transcript	KNOWN	None	4512	None	None	57673372	57685358	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000564103	protein_coding	NOVEL	None	4512	205	67	57673383	57685534	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000562467	protein_coding	NOVEL	None	4512	354	117	57673391	57685386	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000568700	processed_transcript	PUTATIVE	None	4512	None	None	57673392	57686060	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000540164	protein_coding	KNOWN	CCDS32461	4512	2064	687	57673430	57698944	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000568531	protein_coding	NOVEL	None	4512	377	124	57673435	57687160	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000564360	protein_coding	KNOWN	None	4512	300	99	57673983	57685347	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000568074	protein_coding	KNOWN	None	4512	253	83	57674024	57685300	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000563414	protein_coding	KNOWN	None	4512	333	110	57674877	57685380	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000568618	protein_coding	KNOWN	None	4512	283	93	57676919	57685330	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000569494	protein_coding	KNOWN	None	4512	502	166	57679859	57687129	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000566169	protein_coding	KNOWN	None	4512	462	153	57679874	57685509	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000568157	protein_coding	KNOWN	None	4512	394	130	57679955	57685441	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000569154	protein_coding	NOVEL	None	4512	355	117	57680044	57685361	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000569101	protein_coding	KNOWN	None	4512	597	198	57680823	57687224	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000563862	protein_coding	NOVEL	None	4512	493	163	57680852	57685525	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000564722	protein_coding	KNOWN	None	4512	393	130	57680854	57685440	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000569158	protein_coding	KNOWN	None	4512	367	121	57680889	57685414	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000566187	protein_coding	KNOWN	None	4512	459	152	57681357	57685506	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000565505	retained_intron	KNOWN	None	4512	None	None	57686705	57687956	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000565391	protein_coding	PUTATIVE	None	4512	561	186	57687143	57694767	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000388812	protein_coding	KNOWN	CCDS32460	4512	2082	693	57662419	57698944	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000538815	protein_coding	KNOWN	CCDS32461	4512	2064	687	57662419	57698944	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000456916	protein_coding	KNOWN	CCDS32460	4512	2082	693	57662419	57698944	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000379694	protein_coding	KNOWN	None	4512	1572	523	57683709	57698937	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000379696	protein_coding	KNOWN	CCDS32460	4512	2082	693	57683711	57698944	1	None	TM7LN4, TM7XN1
16	GPR56	ENSG00000205336	ENST00000544297	protein_coding	KNOWN	None	4512	1539	512	57673337	57697880	1	None	TM7LN4, TM7XN1
16	None	ENSG00000185710	ENST00000523028	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	21890659	21927345	-1	None	None
16	None	ENSG00000185710	ENST00000540706	processed_transcript	KNOWN	None	None	None	None	21891094	21900501	-1	None	None
16	None	ENSG00000185710	ENST00000543702	processed_transcript	KNOWN	None	None	None	None	21892076	21893548	-1	None	None
16	None	ENSG00000185710	ENST00000380598	processed_transcript	KNOWN	None	None	None	None	21896275	21900608	-1	None	None
16	None	ENSG00000185710	ENST00000381448	processed_transcript	KNOWN	None	None	None	None	21912873	21922693	-1	None	None
16	None	ENSG00000185710	ENST00000517529	processed_transcript	KNOWN	None	None	None	None	21915440	21930477	-1	None	None
16	None	ENSG00000185710	ENST00000457001	unprocessed_pseudogene	KNOWN	None	None	None	None	21906847	21916329	-1	None	None
7	TRBJ2-5	ENSG00000211769	ENST00000390417	TR_J_gene	KNOWN	None	12173	48	15	142494803	142494850	1	None	TRBJ25, TCRBJ2S5
15	LARP6	ENSG00000166173	ENST00000299213	protein_coding	KNOWN	CCDS32281	24012	1476	491	71123863	71146498	-1	None	acheron, FLJ11196
15	LARP6	ENSG00000166173	ENST00000559316	protein_coding	PUTATIVE	None	24012	94	30	71125221	71145797	-1	None	acheron, FLJ11196
15	LARP6	ENSG00000166173	ENST00000560052	processed_transcript	KNOWN	None	24012	None	None	71143766	71145864	-1	None	acheron, FLJ11196
15	LARP6	ENSG00000166173	ENST00000344870	protein_coding	KNOWN	CCDS10236	24012	282	93	71143766	71146460	-1	None	acheron, FLJ11196
15	LARP6	ENSG00000166173	ENST00000559140	protein_coding	PUTATIVE	None	24012	235	77	71143828	71146347	-1	None	acheron, FLJ11196
11	OR10G6	ENSG00000198674	ENST00000533497	unprocessed_pseudogene	KNOWN	None	14836	None	None	123864874	123865870	-1	OR10G6P	OR10G6Q
11	OR10G6	ENSG00000198674	ENST00000307002	unprocessed_pseudogene	KNOWN	None	14836	None	None	123864870	123865868	-1	OR10G6P	OR10G6Q
19	VN1R93P	ENSG00000269320	ENST00000601155	unprocessed_pseudogene	KNOWN	None	37413	None	None	23785369	23785908	1	None	None
1	MT1XP1	ENSG00000233929	ENST00000421314	processed_pseudogene	KNOWN	None	7442	None	None	16567708	16567893	-1	MTL1	None
7	TRBJ2-6	ENSG00000211770	ENST00000390418	TR_J_gene	KNOWN	None	12174	53	16	142494923	142494975	1	None	TRBJ26, TCRBJ2S6
4	RN7SL419P	ENSG00000243883	ENST00000471592	misc_RNA	KNOWN	None	46435	None	None	154302879	154303167	-1	None	None
3	None	ENSG00000229102	ENST00000435560	lincRNA	KNOWN	None	None	None	None	178819154	178865761	-1	None	None
4	None	ENSG00000250771	ENST00000602666	processed_transcript	KNOWN	None	None	None	None	154561320	154602332	1	None	None
4	None	ENSG00000250771	ENST00000507055	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	154599411	154601702	1	None	None
3	None	ENSG00000201957	ENST00000365087	snoRNA	KNOWN	None	None	None	None	178886871	178886998	-1	None	None
11	DGKZ	ENSG00000149091	ENST00000343674	protein_coding	KNOWN	CCDS7918	2857	2838	945	46354455	46402104	1	None	DAGK5, hDGKzeta, DGK-ZETA, DAGK6
11	DGKZ	ENSG00000149091	ENST00000525242	protein_coding	PUTATIVE	None	2857	50	15	46360148	46389595	1	None	DAGK5, hDGKzeta, DGK-ZETA, DAGK6
11	DGKZ	ENSG00000149091	ENST00000532868	protein_coding	KNOWN	None	2857	2802	933	46366817	46401670	1	None	DAGK5, hDGKzeta, DGK-ZETA, DAGK6
11	DGKZ	ENSG00000149091	ENST00000528615	protein_coding	PUTATIVE	None	2857	2124	707	46366953	46401660	1	None	DAGK5, hDGKzeta, DGK-ZETA, DAGK6
11	DGKZ	ENSG00000149091	ENST00000531879	retained_intron	KNOWN	None	2857	None	None	46366982	46400630	1	None	DAGK5, hDGKzeta, DGK-ZETA, DAGK6
11	DGKZ	ENSG00000149091	ENST00000527674	retained_intron	KNOWN	None	2857	None	None	46366984	46390725	1	None	DAGK5, hDGKzeta, DGK-ZETA, DAGK6
11	DGKZ	ENSG00000149091	ENST00000524984	nonsense_mediated_decay	KNOWN	None	2857	408	135	46366987	46402104	1	None	DAGK5, hDGKzeta, DGK-ZETA, DAGK6
11	DGKZ	ENSG00000149091	ENST00000527911	protein_coding	KNOWN	CCDS55757	2857	2805	934	46369013	46401832	1	None	DAGK5, hDGKzeta, DGK-ZETA, DAGK6
11	DGKZ	ENSG00000149091	ENST00000533376	nonsense_mediated_decay	KNOWN	None	2857	165	54	46369073	46392934	1	None	DAGK5, hDGKzeta, DGK-ZETA, DAGK6
11	DGKZ	ENSG00000149091	ENST00000456247	protein_coding	KNOWN	CCDS55759	2857	2787	928	46369122	46402104	1	None	DAGK5, hDGKzeta, DGK-ZETA, DAGK6
11	DGKZ	ENSG00000149091	ENST00000421244	protein_coding	KNOWN	CCDS44580	2857	2790	929	46369138	46401497	1	None	DAGK5, hDGKzeta, DGK-ZETA, DAGK6
11	DGKZ	ENSG00000149091	ENST00000525434	processed_transcript	KNOWN	None	2857	None	None	46383072	46389206	1	None	DAGK5, hDGKzeta, DGK-ZETA, DAGK6
11	DGKZ	ENSG00000149091	ENST00000454345	protein_coding	KNOWN	CCDS41640	2857	3354	1117	46383145	46402104	1	None	DAGK5, hDGKzeta, DGK-ZETA, DAGK6
11	DGKZ	ENSG00000149091	ENST00000534215	processed_transcript	KNOWN	None	2857	None	None	46383157	46389557	1	None	DAGK5, hDGKzeta, DGK-ZETA, DAGK6
11	DGKZ	ENSG00000149091	ENST00000528173	retained_intron	KNOWN	None	2857	None	None	46388865	46402103	1	None	DAGK5, hDGKzeta, DGK-ZETA, DAGK6
11	DGKZ	ENSG00000149091	ENST00000524448	protein_coding	PUTATIVE	None	2857	294	97	46389202	46392934	1	None	DAGK5, hDGKzeta, DGK-ZETA, DAGK6
11	DGKZ	ENSG00000149091	ENST00000527903	retained_intron	KNOWN	None	2857	None	None	46393275	46394447	1	None	DAGK5, hDGKzeta, DGK-ZETA, DAGK6
11	DGKZ	ENSG00000149091	ENST00000524869	protein_coding	NOVEL	None	2857	592	196	46395979	46397418	1	None	DAGK5, hDGKzeta, DGK-ZETA, DAGK6
11	DGKZ	ENSG00000149091	ENST00000529698	retained_intron	KNOWN	None	2857	None	None	46396574	46398900	1	None	DAGK5, hDGKzeta, DGK-ZETA, DAGK6
11	DGKZ	ENSG00000149091	ENST00000527211	retained_intron	KNOWN	None	2857	None	None	46398070	46402101	1	None	DAGK5, hDGKzeta, DGK-ZETA, DAGK6
11	DGKZ	ENSG00000149091	ENST00000529660	processed_transcript	KNOWN	None	2857	None	None	46398698	46401118	1	None	DAGK5, hDGKzeta, DGK-ZETA, DAGK6
11	DGKZ	ENSG00000149091	ENST00000534802	retained_intron	KNOWN	None	2857	None	None	46399518	46402101	1	None	DAGK5, hDGKzeta, DGK-ZETA, DAGK6
11	DGKZ	ENSG00000149091	ENST00000532941	retained_intron	KNOWN	None	2857	None	None	46399520	46400477	1	None	DAGK5, hDGKzeta, DGK-ZETA, DAGK6
11	DGKZ	ENSG00000149091	ENST00000395574	protein_coding	KNOWN	None	2857	2688	895	46366987	46402104	1	None	DAGK5, hDGKzeta, DGK-ZETA, DAGK6
11	DGKZ	ENSG00000149091	ENST00000543978	protein_coding	KNOWN	None	2857	846	281	46368956	46402104	1	None	DAGK5, hDGKzeta, DGK-ZETA, DAGK6
11	DGKZ	ENSG00000149091	ENST00000318201	protein_coding	KNOWN	CCDS55758	2857	2721	906	46369138	46401917	1	None	DAGK5, hDGKzeta, DGK-ZETA, DAGK6
4	None	ENSG00000250740	ENST00000511059	antisense	KNOWN	None	None	None	None	106848217	106850735	-1	None	None
4	None	ENSG00000250740	ENST00000512514	antisense	KNOWN	None	None	None	None	106848219	106853879	-1	None	None
8	HIGD1AP6	ENSG00000253229	ENST00000521833	processed_pseudogene	KNOWN	None	43001	None	None	76214531	76214809	1	None	None
1	None	ENSG00000226457	ENST00000445689	processed_pseudogene	KNOWN	None	None	None	None	16695645	16696025	-1	None	None
12	None	ENSG00000258308	ENST00000550307	lincRNA	KNOWN	None	None	None	None	102348776	102356168	-1	None	None
12	None	ENSG00000258308	ENST00000547004	lincRNA	KNOWN	None	None	None	None	102350991	102356168	-1	None	None
2	PLEKHH2	ENSG00000152527	ENST00000282406	protein_coding	KNOWN	CCDS1812	30506	4482	1493	43864412	43995126	1	None	KIAA2028, PLEKHH1L
2	PLEKHH2	ENSG00000152527	ENST00000405223	retained_intron	KNOWN	None	30506	None	None	43864439	43968504	1	None	KIAA2028, PLEKHH1L
2	PLEKHH2	ENSG00000152527	ENST00000405000	retained_intron	KNOWN	None	30506	None	None	43864447	43992931	1	None	KIAA2028, PLEKHH1L
2	PLEKHH2	ENSG00000152527	ENST00000491692	nonsense_mediated_decay	KNOWN	None	30506	270	89	43864478	43924378	1	None	KIAA2028, PLEKHH1L
2	PLEKHH2	ENSG00000152527	ENST00000460356	retained_intron	KNOWN	None	30506	None	None	43919369	43922343	1	None	KIAA2028, PLEKHH1L
2	PLEKHH2	ENSG00000152527	ENST00000480103	retained_intron	KNOWN	None	30506	None	None	43958680	43971009	1	None	KIAA2028, PLEKHH1L
2	PLEKHH2	ENSG00000152527	ENST00000493408	retained_intron	KNOWN	None	30506	None	None	43968124	43971273	1	None	KIAA2028, PLEKHH1L
2	PLEKHH2	ENSG00000152527	ENST00000490038	nonsense_mediated_decay	KNOWN	None	30506	267	88	43973038	43992621	1	None	KIAA2028, PLEKHH1L
12	MED21	ENSG00000152944	ENST00000546323	protein_coding	PUTATIVE	None	11473	480	159	27175479	27183689	1	SURB7	SRB7
12	MED21	ENSG00000152944	ENST00000536503	processed_transcript	KNOWN	None	11473	None	None	27175483	27182418	1	SURB7	SRB7
12	MED21	ENSG00000152944	ENST00000282892	protein_coding	KNOWN	CCDS8711	11473	435	144	27175483	27182682	1	SURB7	SRB7
12	MED21	ENSG00000152944	ENST00000536711	nonsense_mediated_decay	KNOWN	None	11473	264	87	27175495	27181269	1	SURB7	SRB7
12	MED21	ENSG00000152944	ENST00000538186	processed_transcript	KNOWN	None	11473	None	None	27175510	27219173	1	SURB7	SRB7
12	MED21	ENSG00000152944	ENST00000544998	processed_transcript	KNOWN	None	11473	None	None	27199085	27219276	1	SURB7	SRB7
4	None	ENSG00000248208	ENST00000502774	processed_pseudogene	KNOWN	None	None	None	None	154579724	154580805	1	None	None
19	None	ENSG00000233836	ENST00000471224	processed_transcript	KNOWN	None	None	None	None	23945746	24014998	1	None	None
19	None	ENSG00000233836	ENST00000475499	processed_transcript	KNOWN	None	None	None	None	23945814	24014998	1	None	None
19	None	ENSG00000233836	ENST00000472297	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	23973574	24016116	1	None	None
8	PKMP4	ENSG00000254023	ENST00000523134	processed_pseudogene	KNOWN	None	44246	None	None	76288944	76289249	1	None	None
14	RABGGTA	ENSG00000100949	ENST00000561055	retained_intron	KNOWN	None	9795	None	None	24734744	24736914	-1	None	PTAR3
14	RABGGTA	ENSG00000100949	ENST00000560521	protein_coding	PUTATIVE	None	9795	527	174	24734744	24737369	-1	None	PTAR3
14	RABGGTA	ENSG00000100949	ENST00000399409	protein_coding	KNOWN	CCDS45088	9795	1704	567	24734744	24740805	-1	None	PTAR3
14	RABGGTA	ENSG00000100949	ENST00000216840	protein_coding	KNOWN	CCDS45088	9795	1704	567	24734744	24740945	-1	None	PTAR3
14	RABGGTA	ENSG00000100949	ENST00000560243	nonsense_mediated_decay	KNOWN	None	9795	411	136	24734748	24737370	-1	None	PTAR3
14	RABGGTA	ENSG00000100949	ENST00000559551	retained_intron	KNOWN	None	9795	None	None	24734758	24740762	-1	None	PTAR3
14	RABGGTA	ENSG00000100949	ENST00000559974	nonsense_mediated_decay	KNOWN	None	9795	1275	424	24734762	24740755	-1	None	PTAR3
14	RABGGTA	ENSG00000100949	ENST00000558376	nonsense_mediated_decay	KNOWN	None	9795	1275	424	24734763	24740755	-1	None	PTAR3
14	RABGGTA	ENSG00000100949	ENST00000560777	protein_coding	PUTATIVE	None	9795	531	176	24734774	24739207	-1	None	PTAR3
14	RABGGTA	ENSG00000100949	ENST00000560998	retained_intron	KNOWN	None	9795	None	None	24734776	24740716	-1	None	PTAR3
14	RABGGTA	ENSG00000100949	ENST00000558649	retained_intron	KNOWN	None	9795	None	None	24735811	24737592	-1	None	PTAR3
14	RABGGTA	ENSG00000100949	ENST00000559850	retained_intron	KNOWN	None	9795	None	None	24735992	24737388	-1	None	PTAR3
14	RABGGTA	ENSG00000100949	ENST00000560871	processed_transcript	KNOWN	None	9795	None	None	24736023	24738355	-1	None	PTAR3
14	RABGGTA	ENSG00000100949	ENST00000543002	retained_intron	KNOWN	None	9795	None	None	24737110	24740389	-1	None	PTAR3
14	RABGGTA	ENSG00000100949	ENST00000558534	processed_transcript	KNOWN	None	9795	None	None	24738494	24740789	-1	None	PTAR3
14	RABGGTA	ENSG00000100949	ENST00000558936	retained_intron	KNOWN	None	9795	None	None	24738552	24739650	-1	None	PTAR3
14	RABGGTA	ENSG00000100949	ENST00000559586	processed_transcript	KNOWN	None	9795	None	None	24738580	24740817	-1	None	PTAR3
14	RABGGTA	ENSG00000100949	ENST00000560127	nonsense_mediated_decay	KNOWN	None	9795	222	73	24738835	24740744	-1	None	PTAR3
14	RABGGTA	ENSG00000100949	ENST00000558954	processed_transcript	KNOWN	None	9795	None	None	24738866	24740803	-1	None	PTAR3
14	RABGGTA	ENSG00000100949	ENST00000560163	processed_transcript	KNOWN	None	9795	None	None	24739161	24740722	-1	None	PTAR3
14	RABGGTA	ENSG00000100949	ENST00000560207	retained_intron	KNOWN	None	9795	None	None	24739555	24740610	-1	None	PTAR3
19	None	ENSG00000271150	ENST00000604064	processed_pseudogene	KNOWN	None	None	None	None	48297907	48298177	1	None	None
11	OR10G5P	ENSG00000226461	ENST00000532733	unprocessed_pseudogene	KNOWN	None	14811	None	None	123880362	123880719	1	None	None
8	None	ENSG00000221029	ENST00000408102	miRNA	NOVEL	None	None	None	None	76698600	76698695	-1	None	None
19	None	ENSG00000259108	ENST00000555406	lincRNA	KNOWN	None	None	None	None	48366740	48367756	-1	None	None
19	None	ENSG00000259108	ENST00000556021	lincRNA	KNOWN	None	None	None	None	48366873	48368598	-1	None	None
4	None	ENSG00000249351	ENST00000508904	processed_pseudogene	KNOWN	None	None	None	None	66082334	66083151	1	None	None
15	None	ENSG00000259222	ENST00000559870	lincRNA	KNOWN	None	None	None	None	69373219	69392275	1	None	None
1	None	ENSG00000226029	ENST00000457898	lincRNA	KNOWN	None	None	None	None	16787443	16794976	1	None	None
1	KIAA1107	ENSG00000069712	ENST00000370378	protein_coding	KNOWN	CCDS44172	29192	4065	1354	92632609	92650280	1	None	None
1	KIAA1107	ENSG00000069712	ENST00000409154	protein_coding	KNOWN	None	29192	4230	1409	92632542	92650279	1	None	None
3	LRRFIP1P1	ENSG00000240429	ENST00000498774	processed_pseudogene	KNOWN	None	32937	None	None	178976816	178979061	-1	None	None
8	None	ENSG00000238595	ENST00000459528	snoRNA	NOVEL	None	None	None	None	76805035	76805139	-1	None	None
20	DEFB121	ENSG00000204548	ENST00000376312	processed_transcript	KNOWN	None	18101	None	None	29992648	30000641	-1	None	DEFB-21
20	DEFB121	ENSG00000204548	ENST00000376314	protein_coding	KNOWN	CCDS33456	18101	231	76	29992672	29994069	-1	None	DEFB-21
8	RNU2-54P	ENSG00000222231	ENST00000410299	snRNA	KNOWN	None	48547	None	None	77177778	77177967	-1	None	None
16	None	ENSG00000260251	ENST00000568014	unprocessed_pseudogene	KNOWN	None	None	None	None	46607675	46609006	1	None	None
4	None	ENSG00000243199	ENST00000466377	processed_pseudogene	KNOWN	None	None	None	None	66439177	66440046	1	None	None
10	None	ENSG00000271933	ENST00000606511	antisense	KNOWN	None	None	None	None	85898176	85900338	-1	None	None
19	None	ENSG00000221072	ENST00000408145	miRNA	NOVEL	None	None	None	None	48401990	48402073	-1	None	None
19	None	ENSG00000221595	ENST00000408668	miRNA	NOVEL	None	None	None	None	48554681	48554766	-1	None	None
8	None	ENSG00000270866	ENST00000603284	lincRNA	KNOWN	None	None	None	None	77316233	77317326	1	None	None
11	OR10D5P	ENSG00000213182	ENST00000392760	unprocessed_pseudogene	KNOWN	None	14838	None	None	123925577	123926414	1	None	None
10	LINC00858	ENSG00000229404	ENST00000415469	lincRNA	KNOWN	None	27276	None	None	86039736	86054415	1	None	None
10	LINC00858	ENSG00000229404	ENST00000437892	lincRNA	KNOWN	None	27276	None	None	86039747	86048751	1	None	None
4	None	ENSG00000250846	ENST00000509473	lincRNA	KNOWN	None	None	None	None	66535679	66559104	1	None	None
4	None	ENSG00000250846	ENST00000514260	lincRNA	KNOWN	None	None	None	None	66536248	66559104	1	None	None
4	None	ENSG00000250846	ENST00000507117	lincRNA	KNOWN	None	None	None	None	66536327	66563747	1	None	None
4	None	ENSG00000250846	ENST00000535369	lincRNA	KNOWN	None	None	None	None	66535679	66536157	1	None	None
19	None	ENSG00000269420	ENST00000601548	antisense	KNOWN	None	None	None	None	48564628	48565512	1	None	None
19	None	ENSG00000269420	ENST00000596552	antisense	KNOWN	None	None	None	None	48564685	48568202	1	None	None
19	None	ENSG00000269420	ENST00000601950	antisense	KNOWN	None	None	None	None	48564695	48565479	1	None	None
12	CLEC4D	ENSG00000166527	ENST00000382064	protein_coding	KNOWN	None	14554	432	143	8662071	8672869	1	CLECSF8	Mpcl
12	CLEC4D	ENSG00000166527	ENST00000299665	protein_coding	KNOWN	CCDS8593	14554	648	215	8666136	8674962	1	CLECSF8	Mpcl
10	RPL12P29	ENSG00000233189	ENST00000425565	processed_pseudogene	KNOWN	None	35791	None	None	86148926	86149382	-1	None	None
15	None	ENSG00000259199	ENST00000560360	lincRNA	KNOWN	None	None	None	None	98589896	98836406	-1	None	None
16	None	ENSG00000261512	ENST00000562549	lincRNA	KNOWN	None	None	None	None	46656773	46658355	-1	None	None
16	None	ENSG00000261512	ENST00000574180	lincRNA	KNOWN	None	None	None	None	46656773	46658363	-1	None	None
3	None	ENSG00000260743	ENST00000569932	sense_overlapping	KNOWN	None	None	None	None	179058110	179059675	1	None	None
15	None	ENSG00000266374	ENST00000584174	miRNA	NOVEL	None	None	None	None	69452990	69453063	1	None	None
1	CROCCP3	ENSG00000080947	ENST00000263511	processed_transcript	KNOWN	None	29405	None	None	16793931	16819196	-1	CROCCL2	KIAA1922
1	CROCCP3	ENSG00000080947	ENST00000591348	processed_transcript	KNOWN	None	29405	None	None	16795417	16817577	-1	CROCCL2	KIAA1922
1	CROCCP3	ENSG00000080947	ENST00000420820	transcribed_unprocessed_pseudogene	KNOWN	None	29405	None	None	16802411	16817802	-1	CROCCL2	KIAA1922
1	CROCCP3	ENSG00000080947	ENST00000591316	retained_intron	KNOWN	None	29405	None	None	16803425	16809836	-1	CROCCL2	KIAA1922
1	CROCCP3	ENSG00000080947	ENST00000590118	processed_transcript	KNOWN	None	29405	None	None	16817129	16825752	-1	CROCCL2	KIAA1922
1	CROCCP3	ENSG00000080947	ENST00000589964	processed_transcript	KNOWN	None	29405	None	None	16817141	16825752	-1	CROCCL2	KIAA1922
15	None	ENSG00000265047	ENST00000580566	miRNA	NOVEL	None	None	None	None	69539448	69539549	1	None	None
19	TMED1	ENSG00000099203	ENST00000214869	protein_coding	KNOWN	CCDS12249	17291	684	227	10943114	10946966	-1	None	ST2L, MGC1270, IL1RL1LG, Il1rl1l
19	TMED1	ENSG00000099203	ENST00000586835	protein_coding	PUTATIVE	None	17291	197	64	10943363	10945680	-1	None	ST2L, MGC1270, IL1RL1LG, Il1rl1l
19	TMED1	ENSG00000099203	ENST00000591695	protein_coding	PUTATIVE	None	17291	558	185	10943489	10946994	-1	None	ST2L, MGC1270, IL1RL1LG, Il1rl1l
19	TMED1	ENSG00000099203	ENST00000588259	nonsense_mediated_decay	KNOWN	None	17291	225	74	10943651	10946877	-1	None	ST2L, MGC1270, IL1RL1LG, Il1rl1l
19	TMED1	ENSG00000099203	ENST00000588289	protein_coding	PUTATIVE	None	17291	249	82	10943661	10946308	-1	None	ST2L, MGC1270, IL1RL1LG, Il1rl1l
19	TMED1	ENSG00000099203	ENST00000591157	nonsense_mediated_decay	KNOWN	None	17291	288	95	10943661	10946925	-1	None	ST2L, MGC1270, IL1RL1LG, Il1rl1l
19	TMED1	ENSG00000099203	ENST00000589638	protein_coding	NOVEL	None	17291	574	190	10943727	10946871	-1	None	ST2L, MGC1270, IL1RL1LG, Il1rl1l
15	RN7SL438P	ENSG00000241774	ENST00000494456	misc_RNA	KNOWN	None	46454	None	None	69542866	69543134	-1	None	None
X	GPM6B	ENSG00000046653	ENST00000316715	protein_coding	KNOWN	CCDS35206	4461	987	328	13789150	13835461	-1	None	M6B, MGC17150, MGC54284
X	GPM6B	ENSG00000046653	ENST00000454189	protein_coding	KNOWN	CCDS48084	4461	741	246	13789575	13956757	-1	None	M6B, MGC17150, MGC54284
X	GPM6B	ENSG00000046653	ENST00000493677	protein_coding	PUTATIVE	None	4461	909	302	13790818	13835188	-1	None	M6B, MGC17150, MGC54284
X	GPM6B	ENSG00000046653	ENST00000472735	protein_coding	NOVEL	None	4461	553	183	13790973	13799124	-1	None	M6B, MGC17150, MGC54284
X	GPM6B	ENSG00000046653	ENST00000355135	protein_coding	KNOWN	CCDS35207	4461	918	305	13792073	13835188	-1	None	M6B, MGC17150, MGC54284
X	GPM6B	ENSG00000046653	ENST00000356942	protein_coding	KNOWN	CCDS14158	4461	798	265	13792073	13835465	-1	None	M6B, MGC17150, MGC54284
X	GPM6B	ENSG00000046653	ENST00000398361	protein_coding	PUTATIVE	None	4461	540	179	13792456	13956534	-1	None	M6B, MGC17150, MGC54284
X	GPM6B	ENSG00000046653	ENST00000495211	protein_coding	PUTATIVE	None	4461	645	214	13794286	13802040	-1	None	M6B, MGC17150, MGC54284
X	GPM6B	ENSG00000046653	ENST00000493085	protein_coding	PUTATIVE	None	4461	284	93	13797972	13907176	-1	None	M6B, MGC17150, MGC54284
X	GPM6B	ENSG00000046653	ENST00000468080	protein_coding	PUTATIVE	None	4461	229	75	13798027	13907731	-1	None	M6B, MGC17150, MGC54284
X	GPM6B	ENSG00000046653	ENST00000475307	protein_coding	KNOWN	None	4461	321	106	13801568	13835442	-1	None	M6B, MGC17150, MGC54284
8	None	ENSG00000271167	ENST00000603837	lincRNA	KNOWN	None	None	None	None	77316293	77319373	1	None	None
12	None	ENSG00000258288	ENST00000551462	processed_pseudogene	KNOWN	None	None	None	None	102357679	102358118	1	None	None
20	DEFB123	ENSG00000180424	ENST00000376309	protein_coding	KNOWN	CCDS13180	18103	204	67	30028322	30038060	1	None	DEFB-23
7	MAFK	ENSG00000198517	ENST00000343242	protein_coding	KNOWN	CCDS5325	6782	471	156	1570350	1582679	1	None	P18, NFE2U
7	MAFK	ENSG00000198517	ENST00000403150	nonsense_mediated_decay	KNOWN	CCDS5325	6782	471	156	1577123	1582322	1	None	P18, NFE2U
7	MAFK	ENSG00000198517	ENST00000406174	protein_coding	KNOWN	None	6782	469	155	1578344	1580009	1	None	P18, NFE2U
2	EPB41L5	ENSG00000115109	ENST00000263713	protein_coding	KNOWN	CCDS2130	19819	2202	733	120770581	120936695	1	None	KIAA1548, FLJ12957, BE37, YMO1
2	EPB41L5	ENSG00000115109	ENST00000443902	protein_coding	KNOWN	CCDS54393	19819	2064	687	120770653	120933437	1	None	KIAA1548, FLJ12957, BE37, YMO1
2	EPB41L5	ENSG00000115109	ENST00000331393	protein_coding	KNOWN	CCDS54392	19819	1518	505	120770695	120861975	1	None	KIAA1548, FLJ12957, BE37, YMO1
2	EPB41L5	ENSG00000115109	ENST00000443124	protein_coding	KNOWN	CCDS54392	19819	1518	505	120770787	120862691	1	None	KIAA1548, FLJ12957, BE37, YMO1
2	EPB41L5	ENSG00000115109	ENST00000452780	protein_coding	KNOWN	None	19819	2199	732	120776661	120936694	1	None	KIAA1548, FLJ12957, BE37, YMO1
2	EPB41L5	ENSG00000115109	ENST00000466241	retained_intron	KNOWN	None	19819	None	None	120776724	120831976	1	None	KIAA1548, FLJ12957, BE37, YMO1
2	EPB41L5	ENSG00000115109	ENST00000489017	processed_transcript	KNOWN	None	19819	None	None	120848059	120859203	1	None	KIAA1548, FLJ12957, BE37, YMO1
2	EPB41L5	ENSG00000115109	ENST00000461128	retained_intron	KNOWN	None	19819	None	None	120849208	120885668	1	None	KIAA1548, FLJ12957, BE37, YMO1
2	EPB41L5	ENSG00000115109	ENST00000495030	processed_transcript	PUTATIVE	None	19819	None	None	120858286	120866049	1	None	KIAA1548, FLJ12957, BE37, YMO1
2	EPB41L5	ENSG00000115109	ENST00000488691	processed_transcript	KNOWN	None	19819	None	None	120918143	120925536	1	None	KIAA1548, FLJ12957, BE37, YMO1
15	None	ENSG00000261634	ENST00000570122	antisense	KNOWN	None	None	None	None	69570667	69580778	-1	None	None
15	None	ENSG00000261634	ENST00000565312	antisense	KNOWN	None	None	None	None	69576162	69578470	-1	None	None
15	None	ENSG00000261634	ENST00000563004	antisense	KNOWN	None	None	None	None	69578444	69591097	-1	None	None
1	CDC42	ENSG00000070831	ENST00000344548	protein_coding	KNOWN	CCDS221	1736	576	191	22379161	22419437	1	None	G25K, CDC42Hs
1	CDC42	ENSG00000070831	ENST00000315554	protein_coding	KNOWN	CCDS222	1736	576	191	22379182	22417297	1	None	G25K, CDC42Hs
1	CDC42	ENSG00000070831	ENST00000498236	processed_transcript	KNOWN	None	1736	None	None	22379200	22416503	1	None	G25K, CDC42Hs
1	CDC42	ENSG00000070831	ENST00000411827	protein_coding	KNOWN	None	1736	410	135	22379790	22413283	1	None	G25K, CDC42Hs
1	CDC42	ENSG00000070831	ENST00000400259	protein_coding	KNOWN	CCDS221	1736	576	191	22379120	22419416	1	None	G25K, CDC42Hs
1	CDC42	ENSG00000070831	ENST00000421089	protein_coding	KNOWN	None	1736	702	233	22379204	22418282	1	None	G25K, CDC42Hs
17	TBX21	ENSG00000073861	ENST00000177694	protein_coding	KNOWN	CCDS11514	11599	1608	535	45810610	45823485	1	None	TBLYM, T-bet
17	TBX21	ENSG00000073861	ENST00000581328	retained_intron	KNOWN	None	11599	None	None	45810791	45820172	1	None	TBLYM, T-bet
3	FRMD4B	ENSG00000114541	ENST00000398540	protein_coding	KNOWN	CCDS46863	24886	3105	1034	69219141	69435224	-1	None	KIAA1013, GRSP1
3	FRMD4B	ENSG00000114541	ENST00000478263	protein_coding	PUTATIVE	None	24886	2061	686	69219958	69249999	-1	None	KIAA1013, GRSP1
3	FRMD4B	ENSG00000114541	ENST00000462512	protein_coding	PUTATIVE	None	24886	483	160	69244400	69250049	-1	None	KIAA1013, GRSP1
3	FRMD4B	ENSG00000114541	ENST00000497475	retained_intron	KNOWN	None	24886	None	None	69245870	69249672	-1	None	KIAA1013, GRSP1
3	FRMD4B	ENSG00000114541	ENST00000489817	protein_coding	NOVEL	None	24886	52	16	69246047	69248421	-1	None	KIAA1013, GRSP1
3	FRMD4B	ENSG00000114541	ENST00000470070	retained_intron	KNOWN	None	24886	None	None	69246866	69370095	-1	None	KIAA1013, GRSP1
3	FRMD4B	ENSG00000114541	ENST00000483668	retained_intron	KNOWN	None	24886	None	None	69247848	69299363	-1	None	KIAA1013, GRSP1
3	FRMD4B	ENSG00000114541	ENST00000487751	retained_intron	KNOWN	None	24886	None	None	69247877	69299399	-1	None	KIAA1013, GRSP1
3	FRMD4B	ENSG00000114541	ENST00000493880	protein_coding	PUTATIVE	None	24886	549	182	69265414	69342212	-1	None	KIAA1013, GRSP1
3	FRMD4B	ENSG00000114541	ENST00000473029	protein_coding	PUTATIVE	None	24886	503	166	69273758	69370105	-1	None	KIAA1013, GRSP1
3	FRMD4B	ENSG00000114541	ENST00000460709	protein_coding	PUTATIVE	None	24886	427	141	69273834	69402848	-1	None	KIAA1013, GRSP1
3	FRMD4B	ENSG00000114541	ENST00000473188	retained_intron	KNOWN	None	24886	None	None	69336796	69435455	-1	None	KIAA1013, GRSP1
3	FRMD4B	ENSG00000114541	ENST00000459638	protein_coding	PUTATIVE	None	24886	340	112	69336902	69591734	-1	None	KIAA1013, GRSP1
3	FRMD4B	ENSG00000114541	ENST00000462308	processed_transcript	KNOWN	None	24886	None	None	69355558	69370133	-1	None	KIAA1013, GRSP1
3	FRMD4B	ENSG00000114541	ENST00000497880	protein_coding	PUTATIVE	None	24886	241	79	69359589	69590491	-1	None	KIAA1013, GRSP1
3	FRMD4B	ENSG00000114541	ENST00000497757	processed_transcript	KNOWN	None	24886	None	None	69383112	69482280	-1	None	KIAA1013, GRSP1
3	FRMD4B	ENSG00000114541	ENST00000493127	processed_transcript	KNOWN	None	24886	None	None	69383323	69435078	-1	None	KIAA1013, GRSP1
3	FRMD4B	ENSG00000114541	ENST00000462888	processed_transcript	KNOWN	None	24886	None	None	69425958	69435239	-1	None	KIAA1013, GRSP1
3	FRMD4B	ENSG00000114541	ENST00000542259	protein_coding	KNOWN	None	24886	2943	980	69219146	69435430	-1	None	KIAA1013, GRSP1
HSCHR6_MHC_QBL	CSNK2B	ENSG00000206406	ENST00000400116	protein_coding	KNOWN	None	2460	705	234	31623259	31628093	1	None	None
HSCHR6_MHC_QBL	CSNK2B	ENSG00000206406	ENST00000383433	protein_coding	KNOWN	None	2460	648	215	31624087	31628093	1	None	None
HSCHR6_MHC_QBL	CSNK2B	ENSG00000206406	ENST00000486289	retained_intron	KNOWN	None	2460	None	None	31624104	31628366	1	None	None
HSCHR6_MHC_QBL	CSNK2B	ENSG00000206406	ENST00000464582	retained_intron	KNOWN	None	2460	None	None	31624110	31626264	1	None	None
HSCHR6_MHC_QBL	CSNK2B	ENSG00000206406	ENST00000481308	retained_intron	KNOWN	None	2460	None	None	31624117	31627487	1	None	None
HSCHR6_MHC_QBL	CSNK2B	ENSG00000206406	ENST00000464220	processed_transcript	KNOWN	None	2460	None	None	31624121	31628093	1	None	None
HSCHR6_MHC_QBL	CSNK2B	ENSG00000206406	ENST00000383431	protein_coding	KNOWN	None	2460	687	228	31624125	31631569	1	None	None
HSCHR6_MHC_QBL	CSNK2B	ENSG00000206406	ENST00000383427	protein_coding	KNOWN	None	2460	648	215	31624315	31628093	1	None	None
HSCHR6_MHC_QBL	CSNK2B	ENSG00000206406	ENST00000400110	protein_coding	KNOWN	None	2460	648	215	31624378	31628093	1	None	None
3	None	ENSG00000269728	ENST00000595265	lincRNA	KNOWN	None	None	None	None	179113877	179115965	-1	None	None
2	NT5C1B	ENSG00000185013	ENST00000304081	protein_coding	KNOWN	CCDS33149	17818	1653	550	18744138	18770835	-1	None	AIRP, CN-IB
2	NT5C1B	ENSG00000185013	ENST00000406971	nonsense_mediated_decay	KNOWN	None	17818	612	203	18744198	18770838	-1	None	AIRP, CN-IB
2	NT5C1B	ENSG00000185013	ENST00000359846	protein_coding	KNOWN	CCDS33150	17818	1833	610	18744498	18770812	-1	None	AIRP, CN-IB
2	NT5C1B	ENSG00000185013	ENST00000418427	protein_coding	PUTATIVE	None	17818	796	264	18744944	18765177	-1	None	AIRP, CN-IB
2	NT5C1B	ENSG00000185013	ENST00000490687	retained_intron	KNOWN	None	17818	None	None	18765010	18768304	-1	None	AIRP, CN-IB
2	NT5C1B	ENSG00000185013	ENST00000416783	protein_coding	KNOWN	None	17818	617	204	18766117	18770802	-1	None	AIRP, CN-IB
2	NT5C1B	ENSG00000185013	ENST00000460052	processed_transcript	KNOWN	None	17818	None	None	18766212	18770830	-1	None	AIRP, CN-IB
2	NT5C1B	ENSG00000185013	ENST00000600945	protein_coding	KNOWN	CCDS56111	17818	1809	602	18737050	18770838	-1	None	AIRP, CN-IB
6	RNU6-1226P	ENSG00000207044	ENST00000384317	snRNA	KNOWN	None	48189	None	None	112517642	112517748	-1	None	None
19	PPP5D1	ENSG00000230510	ENST00000602017	protein_coding	KNOWN	None	44209	377	124	46984053	47104189	-1	None	None
19	PPP5D1	ENSG00000230510	ENST00000595691	processed_transcript	KNOWN	None	44209	None	None	46984342	46993377	-1	None	None
19	PPP5D1	ENSG00000230510	ENST00000414155	protein_coding	PUTATIVE	None	44209	516	171	47021936	47104457	-1	None	None
19	PPP5D1	ENSG00000230510	ENST00000593359	retained_intron	KNOWN	None	44209	None	None	47028733	47104188	-1	None	None
19	PPP5D1	ENSG00000230510	ENST00000594701	retained_intron	KNOWN	None	44209	None	None	47101406	47104182	-1	None	None
8	None	ENSG00000254300	ENST00000518732	lincRNA	KNOWN	None	None	None	None	77318889	77436591	1	None	None
11	SPCS2	ENSG00000118363	ENST00000263672	protein_coding	KNOWN	CCDS44681	28962	681	226	74660292	74690076	1	None	KIAA0102
11	SPCS2	ENSG00000118363	ENST00000530257	protein_coding	NOVEL	None	28962	474	157	74660306	74688201	1	None	KIAA0102
11	SPCS2	ENSG00000118363	ENST00000526361	protein_coding	PUTATIVE	None	28962	264	87	74660309	74688393	1	None	KIAA0102
11	SPCS2	ENSG00000118363	ENST00000532972	protein_coding	NOVEL	None	28962	774	257	74660310	74688132	1	None	KIAA0102
11	SPCS2	ENSG00000118363	ENST00000527290	retained_intron	KNOWN	None	28962	None	None	74660316	74676214	1	None	KIAA0102
11	SPCS2	ENSG00000118363	ENST00000528265	processed_transcript	PUTATIVE	None	28962	None	None	74660323	74688662	1	None	KIAA0102
11	SPCS2	ENSG00000118363	ENST00000527225	processed_transcript	PUTATIVE	None	28962	None	None	74660324	74688101	1	None	KIAA0102
11	SPCS2	ENSG00000118363	ENST00000526883	protein_coding	NOVEL	None	28962	498	165	74660569	74680736	1	None	KIAA0102
14	IFI27L1	ENSG00000165948	ENST00000555523	protein_coding	KNOWN	CCDS9919	19754	315	104	94547628	94569060	1	FAM14B	None
14	IFI27L1	ENSG00000165948	ENST00000553350	processed_transcript	PUTATIVE	None	19754	None	None	94547647	94570192	1	FAM14B	None
14	IFI27L1	ENSG00000165948	ENST00000557600	retained_intron	KNOWN	None	19754	None	None	94547657	94567694	1	FAM14B	None
14	IFI27L1	ENSG00000165948	ENST00000393115	protein_coding	KNOWN	CCDS9919	19754	315	104	94547675	94569055	1	FAM14B	None
14	IFI27L1	ENSG00000165948	ENST00000555065	processed_transcript	PUTATIVE	None	19754	None	None	94547702	94555645	1	FAM14B	None
14	IFI27L1	ENSG00000165948	ENST00000554166	protein_coding	PUTATIVE	None	19754	280	92	94547702	94568882	1	FAM14B	None
14	IFI27L1	ENSG00000165948	ENST00000556381	protein_coding	PUTATIVE	None	19754	276	91	94547702	94568987	1	FAM14B	None
14	IFI27L1	ENSG00000165948	ENST00000553664	protein_coding	PUTATIVE	None	19754	318	105	94547711	94569054	1	FAM14B	None
14	IFI27L1	ENSG00000165948	ENST00000555341	protein_coding	PUTATIVE	None	19754	285	94	94547721	94568887	1	FAM14B	None
14	IFI27L1	ENSG00000165948	ENST00000557218	protein_coding	NOVEL	None	19754	153	50	94547728	94569055	1	FAM14B	None
14	IFI27L1	ENSG00000165948	ENST00000554544	protein_coding	NOVEL	None	19754	120	39	94547733	94569055	1	FAM14B	None
14	IFI27L1	ENSG00000165948	ENST00000557066	protein_coding	NOVEL	None	19754	153	50	94547742	94569055	1	FAM14B	None
14	IFI27L1	ENSG00000165948	ENST00000554562	protein_coding	PUTATIVE	None	19754	279	92	94563253	94569055	1	FAM14B	None
6	None	ENSG00000270661	ENST00000603682	lincRNA	KNOWN	None	None	None	None	112538841	112540771	-1	None	None
11	OR10D4P	ENSG00000186268	ENST00000525892	unprocessed_pseudogene	KNOWN	None	14770	None	None	123964289	123965239	-1	OR10D4, OR10D6P	None
6	None	ENSG00000271208	ENST00000605586	lincRNA	KNOWN	None	None	None	None	112555366	112555959	-1	None	None
13	MRPS31P4	ENSG00000250299	ENST00000509685	unprocessed_pseudogene	KNOWN	None	42649	None	None	53191693	53211581	1	None	None
12	None	ENSG00000257222	ENST00000552707	antisense	KNOWN	None	None	None	None	102457133	102468598	1	None	None
4	COMMD8	ENSG00000169019	ENST00000381571	protein_coding	KNOWN	CCDS3475	26036	552	183	47452885	47465736	-1	None	FLJ20502
4	COMMD8	ENSG00000169019	ENST00000509220	retained_intron	KNOWN	None	26036	None	None	47461864	47465682	-1	None	FLJ20502
20	CHD6	ENSG00000124177	ENST00000373233	protein_coding	KNOWN	CCDS13317	19057	8148	2715	40030741	40247133	-1	None	KIAA1335, FLJ22369, dJ620E11.1, CHD5, RIGB
20	CHD6	ENSG00000124177	ENST00000480022	processed_transcript	KNOWN	None	19057	None	None	40033163	40043705	-1	None	KIAA1335, FLJ22369, dJ620E11.1, CHD5, RIGB
20	CHD6	ENSG00000124177	ENST00000440697	protein_coding	KNOWN	None	19057	1577	524	40054782	40127957	-1	None	KIAA1335, FLJ22369, dJ620E11.1, CHD5, RIGB
20	CHD6	ENSG00000124177	ENST00000476641	processed_transcript	KNOWN	None	19057	None	None	40101673	40113147	-1	None	KIAA1335, FLJ22369, dJ620E11.1, CHD5, RIGB
20	CHD6	ENSG00000124177	ENST00000470470	processed_transcript	KNOWN	None	19057	None	None	40125449	40161924	-1	None	KIAA1335, FLJ22369, dJ620E11.1, CHD5, RIGB
20	CHD6	ENSG00000124177	ENST00000373222	protein_coding	KNOWN	None	19057	1122	373	40125449	40247014	-1	None	KIAA1335, FLJ22369, dJ620E11.1, CHD5, RIGB
20	CHD6	ENSG00000124177	ENST00000482596	processed_transcript	KNOWN	None	19057	None	None	40143559	40247023	-1	None	KIAA1335, FLJ22369, dJ620E11.1, CHD5, RIGB
20	CHD6	ENSG00000124177	ENST00000440647	protein_coding	KNOWN	None	19057	448	148	40161795	40243412	-1	None	KIAA1335, FLJ22369, dJ620E11.1, CHD5, RIGB
20	CHD6	ENSG00000124177	ENST00000309279	protein_coding	KNOWN	None	19057	2469	822	40065960	40247133	-1	None	KIAA1335, FLJ22369, dJ620E11.1, CHD5, RIGB
6	None	ENSG00000226440	ENST00000433684	antisense	KNOWN	None	None	None	None	112557460	112627885	1	None	None
6	None	ENSG00000226440	ENST00000588837	antisense	KNOWN	None	None	None	None	112558007	112600728	1	None	None
6	None	ENSG00000226440	ENST00000590293	antisense	KNOWN	None	None	None	None	112558007	112614034	1	None	None
6	None	ENSG00000226440	ENST00000585450	antisense	KNOWN	None	None	None	None	112558007	112627773	1	None	None
6	None	ENSG00000226440	ENST00000590804	antisense	KNOWN	None	None	None	None	112558007	112627881	1	None	None
6	None	ENSG00000226440	ENST00000590584	antisense	KNOWN	None	None	None	None	112558007	112627885	1	None	None
6	None	ENSG00000226440	ENST00000585504	antisense	KNOWN	None	None	None	None	112558007	112666523	1	None	None
6	None	ENSG00000226440	ENST00000585611	antisense	KNOWN	None	None	None	None	112558007	112670906	1	None	None
6	None	ENSG00000226440	ENST00000590673	antisense	KNOWN	None	None	None	None	112558007	112671016	1	None	None
6	None	ENSG00000226440	ENST00000587816	antisense	KNOWN	None	None	None	None	112558007	112671296	1	None	None
9	SNX18P7	ENSG00000234373	ENST00000454116	processed_pseudogene	KNOWN	None	39615	None	None	33576378	33577012	1	None	None
9	None	ENSG00000221693	ENST00000408766	miRNA	NOVEL	None	None	None	None	139588588	139588714	1	None	None
3	None	ENSG00000242539	ENST00000600539	antisense	KNOWN	None	None	None	None	179114749	179116979	1	None	None
3	None	ENSG00000242539	ENST00000598857	antisense	KNOWN	None	None	None	None	179115121	179116103	1	None	None
3	None	ENSG00000242539	ENST00000495081	antisense	KNOWN	None	None	None	None	179115496	179116471	1	None	None
20	DEFB124	ENSG00000180383	ENST00000317676	protein_coding	KNOWN	CCDS33457	18104	216	71	30053309	30060816	-1	None	DEFB-24
20	DEFB124	ENSG00000180383	ENST00000481595	processed_transcript	KNOWN	None	18104	None	None	30060402	30064560	-1	None	DEFB-24
10	None	ENSG00000230096	ENST00000420082	lincRNA	KNOWN	None	None	None	None	4457497	4468371	-1	None	None
7	TRBJ2-7	ENSG00000211771	ENST00000390419	TR_J_gene	KNOWN	None	12175	47	14	142495140	142495186	1	None	TRBJ27, TCRBJ2S7
5	PCSK1	ENSG00000175426	ENST00000311106	protein_coding	KNOWN	CCDS4081	8743	2262	753	95726119	95768984	-1	NEC1	PC1, PC3, SPC3
5	PCSK1	ENSG00000175426	ENST00000513085	processed_transcript	KNOWN	None	8743	None	None	95728629	95748689	-1	NEC1	PC1, PC3, SPC3
5	PCSK1	ENSG00000175426	ENST00000508626	protein_coding	PUTATIVE	CCDS54881	8743	2121	706	95728631	95767864	-1	NEC1	PC1, PC3, SPC3
5	PCSK1	ENSG00000175426	ENST00000509190	protein_coding	KNOWN	None	8743	473	156	95759087	95769847	-1	NEC1	PC1, PC3, SPC3
HSCHR6_MHC_MCF	None	ENSG00000227506	ENST00000487327	processed_transcript	NOVEL	None	None	None	None	31030044	31032720	1	None	None
HSCHR6_MHC_MCF	None	ENSG00000227506	ENST00000420532	protein_coding	NOVEL	None	None	1701	566	31030044	31036234	1	None	None
HSCHR6_MHC_MCF	None	ENSG00000227506	ENST00000549059	protein_coding	KNOWN	None	None	1251	416	31030034	31036229	1	None	None
12	RN7SL793P	ENSG00000264554	ENST00000583259	misc_RNA	KNOWN	None	46809	None	None	102611098	102611391	-1	None	None
9	None	ENSG00000226562	ENST00000433357	lincRNA	KNOWN	None	None	None	None	33580693	33605280	1	None	None
9	None	ENSG00000226562	ENST00000602933	lincRNA	KNOWN	None	None	None	None	33603338	33605289	1	None	None
9	None	ENSG00000226562	ENST00000432139	lincRNA	KNOWN	None	None	None	None	33604295	33605275	1	None	None
6	SIRT5	ENSG00000124523	ENST00000379250	nonsense_mediated_decay	KNOWN	None	14933	240	79	13574816	13612405	1	None	None
6	SIRT5	ENSG00000124523	ENST00000359782	protein_coding	KNOWN	CCDS54966	14933	879	292	13574826	13612521	1	None	None
6	SIRT5	ENSG00000124523	ENST00000606427	nonsense_mediated_decay	KNOWN	None	14933	126	41	13574831	13588657	1	None	None
6	SIRT5	ENSG00000124523	ENST00000379262	protein_coding	KNOWN	CCDS4527	14933	900	299	13574833	13605971	1	None	None
6	SIRT5	ENSG00000124523	ENST00000606117	protein_coding	KNOWN	CCDS4526	14933	933	310	13574875	13614790	1	None	None
6	SIRT5	ENSG00000124523	ENST00000397350	protein_coding	KNOWN	CCDS56398	14933	609	202	13574833	13612105	1	None	None
11	OR10N1P	ENSG00000213181	ENST00000392758	unprocessed_pseudogene	KNOWN	None	14689	None	None	123975807	123976675	-1	None	None
7	TRBC2	ENSG00000211772	ENST00000466254	TR_C_gene	KNOWN	None	12157	539	178	142498725	142500432	1	None	TCRBC2
16	None	ENSG00000260797	ENST00000568646	processed_pseudogene	KNOWN	None	None	None	None	76912171	76912833	-1	None	None
13	SPG20OS	ENSG00000120664	ENST00000488319	nonsense_mediated_decay	KNOWN	None	39933	159	52	36920568	36943738	1	C13orf43	None
13	SPG20OS	ENSG00000120664	ENST00000379848	protein_coding	PUTATIVE	None	39933	159	52	36920569	36942547	1	C13orf43	None
13	SPG20OS	ENSG00000120664	ENST00000493739	nonsense_mediated_decay	KNOWN	None	39933	159	52	36920569	36943662	1	C13orf43	None
9	SNHG7	ENSG00000233016	ENST00000414282	antisense	KNOWN	None	28254	None	None	139615818	139622636	-1	None	MGC16037, NCRNA00061
9	SNHG7	ENSG00000233016	ENST00000416970	antisense	KNOWN	None	28254	None	None	139619110	139622636	-1	None	MGC16037, NCRNA00061
9	SNHG7	ENSG00000233016	ENST00000436596	antisense	KNOWN	None	28254	None	None	139619112	139620935	-1	None	MGC16037, NCRNA00061
9	SNHG7	ENSG00000233016	ENST00000447221	antisense	KNOWN	None	28254	None	None	139619686	139622636	-1	None	MGC16037, NCRNA00061
9	SNHG7	ENSG00000233016	ENST00000362567	snoRNA	KNOWN	None	28254	None	None	139620557	139620686	-1	None	MGC16037, NCRNA00061
9	SNHG7	ENSG00000233016	ENST00000391185	snoRNA	KNOWN	None	28254	None	None	139621200	139621331	-1	None	MGC16037, NCRNA00061
1	TMCO1	ENSG00000143183	ENST00000392129	protein_coding	KNOWN	None	18188	567	188	165696032	165738139	-1	TMCC4	HP10122
1	TMCO1	ENSG00000143183	ENST00000367881	protein_coding	KNOWN	CCDS1251	18188	720	239	165696032	165738417	-1	TMCC4	HP10122
1	TMCO1	ENSG00000143183	ENST00000580248	protein_coding	PUTATIVE	None	18188	315	104	165696543	165796992	-1	TMCC4	HP10122
1	TMCO1	ENSG00000143183	ENST00000464650	protein_coding	PUTATIVE	None	18188	315	104	165696775	165738113	-1	TMCC4	HP10122
1	TMCO1	ENSG00000143183	ENST00000476143	nonsense_mediated_decay	KNOWN	None	18188	287	94	165697323	165738125	-1	TMCC4	HP10122
1	TMCO1	ENSG00000143183	ENST00000481278	protein_coding	PUTATIVE	None	18188	430	142	165712406	165738074	-1	TMCC4	HP10122
1	TMCO1	ENSG00000143183	ENST00000465705	nonsense_mediated_decay	KNOWN	None	18188	459	152	165712416	165738155	-1	TMCC4	HP10122
13	MIR759	ENSG00000211579	ENST00000390224	miRNA	KNOWN	None	37307	None	None	53384179	53384274	1	None	hsa-mir-759
12	None	ENSG00000258142	ENST00000547375	processed_pseudogene	KNOWN	None	None	None	None	102623805	102624311	-1	None	None
13	PPIAP26	ENSG00000150276	ENST00000377951	processed_pseudogene	KNOWN	None	39271	None	None	53394632	53395153	1	None	None
16	None	ENSG00000261063	ENST00000569032	antisense	KNOWN	None	None	None	None	77235371	77283854	-1	None	None
4	PPP3CA	ENSG00000138814	ENST00000512215	protein_coding	NOVEL	None	9314	870	289	101944566	102268634	-1	CALN, CALNA	CNA1, PPP2B
4	PPP3CA	ENSG00000138814	ENST00000394854	protein_coding	KNOWN	CCDS34037	9314	1566	521	101944587	102268637	-1	CALN, CALNA	CNA1, PPP2B
4	PPP3CA	ENSG00000138814	ENST00000323055	protein_coding	NOVEL	CCDS47113	9314	1410	469	101944588	102268628	-1	CALN, CALNA	CNA1, PPP2B
4	PPP3CA	ENSG00000138814	ENST00000394853	protein_coding	KNOWN	CCDS47114	9314	1536	511	101945485	102268484	-1	CALN, CALNA	CNA1, PPP2B
4	PPP3CA	ENSG00000138814	ENST00000507176	protein_coding	PUTATIVE	None	9314	1272	423	101946475	102267999	-1	CALN, CALNA	CNA1, PPP2B
4	PPP3CA	ENSG00000138814	ENST00000492351	nonsense_mediated_decay	KNOWN	None	9314	51	16	102004352	102117085	-1	CALN, CALNA	CNA1, PPP2B
4	PPP3CA	ENSG00000138814	ENST00000510292	processed_transcript	KNOWN	None	9314	None	None	102015025	102079476	-1	CALN, CALNA	CNA1, PPP2B
4	PPP3CA	ENSG00000138814	ENST00000529324	protein_coding	PUTATIVE	None	9314	441	146	102019575	102269435	-1	CALN, CALNA	CNA1, PPP2B
4	PPP3CA	ENSG00000138814	ENST00000525819	protein_coding	PUTATIVE	None	9314	396	131	102019620	102268717	-1	CALN, CALNA	CNA1, PPP2B
4	PPP3CA	ENSG00000138814	ENST00000523694	protein_coding	KNOWN	None	9314	1365	454	101947022	102267953	-1	CALN, CALNA	CNA1, PPP2B
11	OR10D1P	ENSG00000196403	ENST00000355343	unprocessed_pseudogene	KNOWN	None	8166	None	None	124029128	124030063	1	OR10D2P	OST074, HTPCRX03
7	TRBV30	ENSG00000237254	ENST00000417977	TR_V_gene	KNOWN	None	12214	335	110	142510271	142511084	-1	None	TCRBV20S1A1N2, TCRBV30S1
16	VN2R10P	ENSG00000226348	ENST00000411871	unitary_pseudogene	KNOWN	None	33216	None	None	77254303	77255155	1	None	None
5	EEF1GP2	ENSG00000250346	ENST00000509352	processed_pseudogene	KNOWN	None	44557	None	None	147301742	147302984	1	None	None
19	None	ENSG00000269534	ENST00000596563	antisense	KNOWN	None	None	None	None	48621689	48630963	1	None	None
19	None	ENSG00000269534	ENST00000596839	antisense	KNOWN	None	None	None	None	48621695	48630641	1	None	None
13	None	ENSG00000237092	ENST00000417989	lincRNA	KNOWN	None	None	None	None	53720674	53725943	-1	None	None
6	RPP40	ENSG00000124787	ENST00000380051	protein_coding	KNOWN	CCDS34333	20992	1092	363	4994966	5004281	-1	RNASEP1	bA428J1.3
6	RPP40	ENSG00000124787	ENST00000319533	protein_coding	NOVEL	None	20992	1023	340	4995281	5004270	-1	RNASEP1	bA428J1.3
6	RPP40	ENSG00000124787	ENST00000464646	protein_coding	KNOWN	None	20992	912	303	4995312	5003892	-1	RNASEP1	bA428J1.3
6	RPP40	ENSG00000124787	ENST00000468105	retained_intron	KNOWN	None	20992	None	None	4998922	5004281	-1	RNASEP1	bA428J1.3
6	RPP40	ENSG00000124787	ENST00000479782	nonsense_mediated_decay	KNOWN	None	20992	342	113	4999062	5004252	-1	RNASEP1	bA428J1.3
6	RPP40	ENSG00000124787	ENST00000483546	retained_intron	KNOWN	None	20992	None	None	5002010	5004297	-1	RNASEP1	bA428J1.3
12	None	ENSG00000257254	ENST00000551181	processed_pseudogene	KNOWN	None	None	None	None	102907029	102907433	-1	None	None
5	HMGN1P16	ENSG00000249503	ENST00000508308	processed_pseudogene	KNOWN	None	39360	None	None	147600923	147601205	-1	None	None
16	None	ENSG00000260922	ENST00000561672	antisense	KNOWN	None	None	None	None	77268774	77324831	1	None	None
3	None	ENSG00000239255	ENST00000473810	processed_pseudogene	KNOWN	None	None	None	None	179170183	179170207	-1	None	None
1	C1orf146	ENSG00000203910	ENST00000370375	protein_coding	KNOWN	CCDS30772	24032	543	180	92683497	92711370	1	None	None
1	C1orf146	ENSG00000203910	ENST00000370373	protein_coding	PUTATIVE	None	24032	366	121	92683589	92711272	1	None	None
21	IFNAR1	ENSG00000142166	ENST00000493503	processed_transcript	KNOWN	None	5432	None	None	34696782	34707917	1	IFNAR	IFRC
21	IFNAR1	ENSG00000142166	ENST00000270139	protein_coding	KNOWN	CCDS13624	5432	1674	557	34697209	34732168	1	IFNAR	IFRC
21	IFNAR1	ENSG00000142166	ENST00000442071	protein_coding	NOVEL	None	5432	408	135	34697278	34717583	1	IFNAR	IFRC
21	IFNAR1	ENSG00000142166	ENST00000442357	protein_coding	KNOWN	None	5432	1491	496	34697278	34728159	1	IFNAR	IFRC
21	IFNAR1	ENSG00000142166	ENST00000416947	protein_coding	KNOWN	None	5432	1467	488	34696734	34727997	1	IFNAR	IFRC
16	None	ENSG00000260701	ENST00000564358	antisense	KNOWN	None	None	None	None	77467279	77478233	1	None	None
5	None	ENSG00000271788	ENST00000607715	lincRNA	KNOWN	None	None	None	None	43006835	43007645	-1	None	None
19	ANKRD27	ENSG00000105186	ENST00000306065	protein_coding	KNOWN	CCDS32986	25310	3153	1050	33087913	33166105	-1	None	FLJ00040, DKFZp434L0718, VARP
19	ANKRD27	ENSG00000105186	ENST00000587667	processed_transcript	PUTATIVE	None	25310	None	None	33089234	33091192	-1	None	FLJ00040, DKFZp434L0718, VARP
19	ANKRD27	ENSG00000105186	ENST00000591100	protein_coding	NOVEL	None	25310	502	166	33118989	33134110	-1	None	FLJ00040, DKFZp434L0718, VARP
19	ANKRD27	ENSG00000105186	ENST00000587352	protein_coding	NOVEL	None	25310	1170	389	33128206	33166075	-1	None	FLJ00040, DKFZp434L0718, VARP
19	ANKRD27	ENSG00000105186	ENST00000593232	retained_intron	KNOWN	None	25310	None	None	33133969	33134691	-1	None	FLJ00040, DKFZp434L0718, VARP
19	ANKRD27	ENSG00000105186	ENST00000586463	protein_coding	PUTATIVE	None	25310	92	29	33134029	33166093	-1	None	FLJ00040, DKFZp434L0718, VARP
19	ANKRD27	ENSG00000105186	ENST00000588700	nonsense_mediated_decay	KNOWN	None	25310	249	82	33134033	33166098	-1	None	FLJ00040, DKFZp434L0718, VARP
19	ANKRD27	ENSG00000105186	ENST00000586693	processed_transcript	KNOWN	None	25310	None	None	33135303	33166053	-1	None	FLJ00040, DKFZp434L0718, VARP
19	ANKRD27	ENSG00000105186	ENST00000590519	protein_coding	KNOWN	None	25310	225	74	33137510	33167028	-1	None	FLJ00040, DKFZp434L0718, VARP
17	KIAA0100	ENSG00000007202	ENST00000528896	protein_coding	KNOWN	CCDS32595	28960	6708	2235	26941458	26972149	-1	None	DKFZp686M0843, MGC111488, BCOX1, CT101, BCOX
17	KIAA0100	ENSG00000007202	ENST00000389003	protein_coding	PUTATIVE	None	28960	6279	2092	26941900	26972472	-1	None	DKFZp686M0843, MGC111488, BCOX1, CT101, BCOX
17	KIAA0100	ENSG00000007202	ENST00000583860	retained_intron	KNOWN	None	28960	None	None	26943278	26943952	-1	None	DKFZp686M0843, MGC111488, BCOX1, CT101, BCOX
17	KIAA0100	ENSG00000007202	ENST00000579924	processed_transcript	KNOWN	None	28960	None	None	26943685	26946793	-1	None	DKFZp686M0843, MGC111488, BCOX1, CT101, BCOX
17	KIAA0100	ENSG00000007202	ENST00000580395	retained_intron	KNOWN	None	28960	None	None	26945736	26947078	-1	None	DKFZp686M0843, MGC111488, BCOX1, CT101, BCOX
17	KIAA0100	ENSG00000007202	ENST00000577261	protein_coding	NOVEL	None	28960	862	286	26958502	26960671	-1	None	DKFZp686M0843, MGC111488, BCOX1, CT101, BCOX
17	KIAA0100	ENSG00000007202	ENST00000582417	retained_intron	KNOWN	None	28960	None	None	26959099	26960494	-1	None	DKFZp686M0843, MGC111488, BCOX1, CT101, BCOX
17	KIAA0100	ENSG00000007202	ENST00000581064	retained_intron	KNOWN	None	28960	None	None	26960704	26961688	-1	None	DKFZp686M0843, MGC111488, BCOX1, CT101, BCOX
17	KIAA0100	ENSG00000007202	ENST00000580882	retained_intron	KNOWN	None	28960	None	None	26966079	26972173	-1	None	DKFZp686M0843, MGC111488, BCOX1, CT101, BCOX
17	KIAA0100	ENSG00000007202	ENST00000581267	nonsense_mediated_decay	KNOWN	None	28960	65	20	26966333	26968948	-1	None	DKFZp686M0843, MGC111488, BCOX1, CT101, BCOX
17	KIAA0100	ENSG00000007202	ENST00000577417	retained_intron	KNOWN	None	28960	None	None	26966334	26972129	-1	None	DKFZp686M0843, MGC111488, BCOX1, CT101, BCOX
17	KIAA0100	ENSG00000007202	ENST00000583403	nonsense_mediated_decay	KNOWN	None	28960	261	86	26966705	26972166	-1	None	DKFZp686M0843, MGC111488, BCOX1, CT101, BCOX
17	KIAA0100	ENSG00000007202	ENST00000577580	retained_intron	KNOWN	None	28960	None	None	26966984	26969499	-1	None	DKFZp686M0843, MGC111488, BCOX1, CT101, BCOX
17	KIAA0100	ENSG00000007202	ENST00000579253	retained_intron	KNOWN	None	28960	None	None	26967415	26969065	-1	None	DKFZp686M0843, MGC111488, BCOX1, CT101, BCOX
17	KIAA0100	ENSG00000007202	ENST00000582901	retained_intron	KNOWN	None	28960	None	None	26969081	26970298	-1	None	DKFZp686M0843, MGC111488, BCOX1, CT101, BCOX
17	KIAA0100	ENSG00000007202	ENST00000544884	protein_coding	KNOWN	None	28960	6279	2092	26941896	26972472	-1	None	DKFZp686M0843, MGC111488, BCOX1, CT101, BCOX
11	OR8F1P	ENSG00000239426	ENST00000425243	unprocessed_pseudogene	KNOWN	None	14691	None	None	124077890	124078819	1	None	None
11	OR8F1P	ENSG00000239426	ENST00000318460	unprocessed_pseudogene	KNOWN	None	14691	None	None	124077890	124078822	1	None	None
20	REM1	ENSG00000088320	ENST00000201979	protein_coding	KNOWN	CCDS13181	15922	897	298	30063096	30072708	1	REM	GES
16	None	ENSG00000216131	ENST00000401312	miRNA	NOVEL	None	None	None	None	77469907	77469999	-1	None	None
9	C9orf139	ENSG00000180539	ENST00000314330	protein_coding	KNOWN	CCDS7023	31426	573	190	139921916	139931234	1	None	FLJ36268, FLJ42909
4	TRIML2	ENSG00000179046	ENST00000512729	protein_coding	KNOWN	CCDS3850	26378	1164	387	189012427	189026747	-1	None	FLJ25801, SPRYD6
4	TRIML2	ENSG00000179046	ENST00000326754	protein_coding	NOVEL	None	26378	1239	412	189012491	189026402	-1	None	FLJ25801, SPRYD6
4	TRIML2	ENSG00000179046	ENST00000503475	nonsense_mediated_decay	KNOWN	None	26378	357	118	189012527	189022404	-1	None	FLJ25801, SPRYD6
4	TRIML2	ENSG00000179046	ENST00000503141	nonsense_mediated_decay	KNOWN	None	26378	357	118	189012527	189022404	-1	None	FLJ25801, SPRYD6
4	TRIML2	ENSG00000179046	ENST00000511771	retained_intron	KNOWN	None	26378	None	None	189019783	189026747	-1	None	FLJ25801, SPRYD6
4	TRIML2	ENSG00000179046	ENST00000502707	processed_transcript	PUTATIVE	None	26378	None	None	189026534	189027193	-1	None	FLJ25801, SPRYD6
4	TRIML2	ENSG00000179046	ENST00000394461	processed_transcript	PUTATIVE	None	26378	None	None	189026567	189030757	-1	None	FLJ25801, SPRYD6
4	TRIML2	ENSG00000179046	ENST00000536972	protein_coding	KNOWN	None	26378	666	221	189019783	189030422	-1	None	FLJ25801, SPRYD6
16	None	ENSG00000261154	ENST00000563289	lincRNA	KNOWN	None	None	None	None	77624703	77644578	1	None	None
1	RNU1-1	ENSG00000206652	ENST00000383925	snRNA	KNOWN	None	10120	None	None	16840617	16840780	-1	RNU1, RNU1G4, RNU1A3, RNU1A	Rnu1a1, U1, HU1-1, U1A1, HSD1
12	LINC00485	ENSG00000258169	ENST00000547179	lincRNA	KNOWN	None	27476	None	None	103203058	103218177	-1	None	None
3	CPOX	ENSG00000080819	ENST00000512905	nonsense_mediated_decay	KNOWN	None	2321	212	69	98239976	98304342	-1	CPO	CPX, HCP
3	CPOX	ENSG00000080819	ENST00000264193	protein_coding	KNOWN	CCDS2932	2321	1365	454	98298286	98312567	-1	CPO	CPX, HCP
3	CPOX	ENSG00000080819	ENST00000510489	retained_intron	KNOWN	None	2321	None	None	98300252	98304706	-1	CPO	CPX, HCP
3	CPOX	ENSG00000080819	ENST00000513674	nonsense_mediated_decay	KNOWN	None	2321	528	175	98308506	98312492	-1	CPO	CPX, HCP
3	CPOX	ENSG00000080819	ENST00000515041	retained_intron	KNOWN	None	2321	None	None	98309363	98312454	-1	CPO	CPX, HCP
12	SLC41A2	ENSG00000136052	ENST00000258538	protein_coding	KNOWN	CCDS9100	31045	1722	573	105196331	105322433	-1	None	DKFZP434K0427
12	SLC41A2	ENSG00000136052	ENST00000549713	processed_transcript	KNOWN	None	31045	None	None	105198753	105227957	-1	None	DKFZP434K0427
12	SLC41A2	ENSG00000136052	ENST00000437220	protein_coding	PUTATIVE	None	31045	447	148	105282811	105321980	-1	None	DKFZP434K0427
12	SLC41A2	ENSG00000136052	ENST00000415674	protein_coding	KNOWN	None	31045	431	142	105321875	105352071	-1	None	DKFZP434K0427
12	SLC41A2	ENSG00000136052	ENST00000411411	protein_coding	KNOWN	None	31045	366	121	105321940	105345306	-1	None	DKFZP434K0427
12	SLC41A2	ENSG00000136052	ENST00000449866	protein_coding	KNOWN	None	31045	284	93	105322022	105352522	-1	None	DKFZP434K0427
12	SLC41A2	ENSG00000136052	ENST00000433540	protein_coding	KNOWN	None	31045	228	75	105322078	105352097	-1	None	DKFZP434K0427
12	SLC41A2	ENSG00000136052	ENST00000424946	protein_coding	KNOWN	None	31045	217	71	105322089	105352071	-1	None	DKFZP434K0427
12	SLC41A2	ENSG00000136052	ENST00000417469	protein_coding	KNOWN	None	31045	138	45	105322168	105352476	-1	None	DKFZP434K0427
12	SLC41A2	ENSG00000136052	ENST00000432951	protein_coding	KNOWN	None	31045	36	11	105322270	105352066	-1	None	DKFZP434K0427
1	None	ENSG00000261135	ENST00000562878	lincRNA	KNOWN	None	None	None	None	16841140	16842249	1	None	None
6	HLA-DRB1	ENSG00000196126	ENST00000360004	protein_coding	KNOWN	CCDS47409	4948	801	266	32546546	32557625	-1	HLA-DR1B	None
1	None	ENSG00000224174	ENST00000452795	lincRNA	KNOWN	None	None	None	None	16847189	16848291	1	None	None
3	MTHFD2P7	ENSG00000181260	ENST00000483867	processed_pseudogene	KNOWN	None	48865	None	None	179182134	179183116	1	None	None
9	FUT7	ENSG00000180549	ENST00000314412	protein_coding	KNOWN	CCDS7022	4018	1029	342	139924626	139927462	-1	None	None
1	None	ENSG00000233421	ENST00000415386	lincRNA	KNOWN	None	None	None	None	16860381	16862144	-1	None	None
1	None	ENSG00000233421	ENST00000516290	snRNA	KNOWN	None	None	None	None	16860576	16860719	-1	None	None
11	OR8G3P	ENSG00000255425	ENST00000524943	unprocessed_pseudogene	KNOWN	None	14698	None	None	124085927	124086392	1	None	None
11	OR8G3P	ENSG00000255425	ENST00000544048	unprocessed_pseudogene	KNOWN	None	14698	None	None	124085346	124086334	1	None	None
Y	RNU1-48P	ENSG00000252209	ENST00000516400	snRNA	KNOWN	None	48390	None	None	20648397	20648558	1	None	None
12	GRIP1	ENSG00000155974	ENST00000398016	protein_coding	KNOWN	CCDS41807	18708	3231	1076	66741211	67072753	-1	None	None
12	GRIP1	ENSG00000155974	ENST00000538164	protein_coding	NOVEL	None	18708	2786	927	66742605	66911702	-1	None	None
12	GRIP1	ENSG00000155974	ENST00000540854	protein_coding	PUTATIVE	None	18708	366	121	66742607	66932888	-1	None	None
12	GRIP1	ENSG00000155974	ENST00000538211	protein_coding	NOVEL	None	18708	3169	1055	66742816	67072925	-1	None	None
12	GRIP1	ENSG00000155974	ENST00000535323	retained_intron	KNOWN	None	18708	None	None	66742959	66766121	-1	None	None
12	GRIP1	ENSG00000155974	ENST00000540433	protein_coding	PUTATIVE	None	18708	2628	875	66765534	67197894	-1	None	None
12	GRIP1	ENSG00000155974	ENST00000536215	protein_coding	PUTATIVE	None	18708	2362	786	66765599	66964838	-1	None	None
12	GRIP1	ENSG00000155974	ENST00000541299	retained_intron	KNOWN	None	18708	None	None	66765644	66786312	-1	None	None
12	GRIP1	ENSG00000155974	ENST00000542021	processed_transcript	PUTATIVE	None	18708	None	None	66788108	66801211	-1	None	None
12	GRIP1	ENSG00000155974	ENST00000543172	protein_coding	NOVEL	None	18708	848	281	66838505	66911719	-1	None	None
12	GRIP1	ENSG00000155974	ENST00000535002	nonsense_mediated_decay	KNOWN	None	18708	233	76	66839176	66859202	-1	None	None
12	GRIP1	ENSG00000155974	ENST00000545666	protein_coding	NOVEL	None	18708	630	209	66909410	67072714	-1	None	None
12	GRIP1	ENSG00000155974	ENST00000542309	protein_coding	PUTATIVE	None	18708	448	148	66909507	67041129	-1	None	None
12	GRIP1	ENSG00000155974	ENST00000539540	protein_coding	PUTATIVE	None	18708	362	119	66911729	67197760	-1	None	None
12	GRIP1	ENSG00000155974	ENST00000541947	protein_coding	PUTATIVE	None	18708	566	187	66923625	67197966	-1	None	None
12	GRIP1	ENSG00000155974	ENST00000538373	protein_coding	PUTATIVE	None	18708	47	14	66935652	67197966	-1	None	None
12	GRIP1	ENSG00000155974	ENST00000359742	protein_coding	KNOWN	None	18708	3387	1128	66741211	67072925	-1	None	None
12	GRIP1	ENSG00000155974	ENST00000286445	protein_coding	KNOWN	None	18708	3342	1113	66741211	67072925	-1	None	None
Y	USP9YP5	ENSG00000249634	ENST00000511770	unprocessed_pseudogene	KNOWN	None	38418	None	None	20652801	20656181	-1	None	None
1	None	ENSG00000225710	ENST00000438396	unprocessed_pseudogene	KNOWN	None	None	None	None	16875146	16879026	-1	None	None
3	None	ENSG00000239096	ENST00000459278	snoRNA	NOVEL	None	None	None	None	179332563	179332666	-1	None	None
16	TLDC1	ENSG00000140950	ENST00000343629	protein_coding	KNOWN	CCDS32498	29325	1371	456	84511681	84538364	-1	KIAA1609	None
16	TLDC1	ENSG00000140950	ENST00000566995	nonsense_mediated_decay	KNOWN	None	29325	582	193	84513303	84538253	-1	KIAA1609	None
16	TLDC1	ENSG00000140950	ENST00000570036	nonsense_mediated_decay	KNOWN	None	29325	174	57	84513397	84538296	-1	KIAA1609	None
16	TLDC1	ENSG00000140950	ENST00000567321	retained_intron	KNOWN	None	29325	None	None	84519610	84522042	-1	KIAA1609	None
16	TLDC1	ENSG00000140950	ENST00000561807	processed_transcript	KNOWN	None	29325	None	None	84522958	84538262	-1	KIAA1609	None
16	TLDC1	ENSG00000140950	ENST00000565079	protein_coding	KNOWN	None	29325	444	147	84522969	84587639	-1	KIAA1609	None
16	TLDC1	ENSG00000140950	ENST00000562447	protein_coding	KNOWN	None	29325	249	82	84529424	84538227	-1	KIAA1609	None
16	TLDC1	ENSG00000140950	ENST00000565701	retained_intron	KNOWN	None	29325	None	None	84531310	84538235	-1	KIAA1609	None
16	TLDC1	ENSG00000140950	ENST00000565765	protein_coding	KNOWN	None	29325	136	44	84531557	84538265	-1	KIAA1609	None
16	TLDC1	ENSG00000140950	ENST00000535580	protein_coding	KNOWN	None	29325	1290	429	84513397	84538296	-1	KIAA1609	None
12	METTL1	ENSG00000037897	ENST00000324871	protein_coding	KNOWN	CCDS8955	7030	831	276	58162254	58166576	-1	C12orf1	TRM8, TRMT8
12	METTL1	ENSG00000037897	ENST00000257848	protein_coding	KNOWN	CCDS8956	7030	468	155	58162365	58165902	-1	C12orf1	TRM8, TRMT8
12	METTL1	ENSG00000037897	ENST00000547653	protein_coding	PUTATIVE	None	7030	190	62	58162421	58163438	-1	C12orf1	TRM8, TRMT8
12	METTL1	ENSG00000037897	ENST00000548504	protein_coding	NOVEL	None	7030	371	122	58162832	58163648	-1	C12orf1	TRM8, TRMT8
12	METTL1	ENSG00000037897	ENST00000551117	nonsense_mediated_decay	KNOWN	None	7030	245	80	58163087	58165859	-1	C12orf1	TRM8, TRMT8
12	METTL1	ENSG00000037897	ENST00000553125	nonsense_mediated_decay	KNOWN	None	7030	111	36	58163363	58165899	-1	C12orf1	TRM8, TRMT8
12	METTL1	ENSG00000037897	ENST00000548681	processed_transcript	KNOWN	None	7030	None	None	58164467	58165897	-1	C12orf1	TRM8, TRMT8
12	METTL1	ENSG00000037897	ENST00000549773	retained_intron	KNOWN	None	7030	None	None	58164540	58165884	-1	C12orf1	TRM8, TRMT8
1	None	ENSG00000266584	ENST00000577341	miRNA	NOVEL	None	None	None	None	16875409	16875482	1	None	None
3	None	ENSG00000213165	ENST00000392655	pseudogene	NOVEL	None	None	None	None	179343366	179345434	1	None	None
1	None	ENSG00000271732	ENST00000607700	lincRNA	KNOWN	None	None	None	None	16943886	16944224	1	None	None
11	NAP1L4	ENSG00000205531	ENST00000380542	protein_coding	KNOWN	CCDS41599	7640	1128	375	2965667	3013607	-1	None	NAP2
11	NAP1L4	ENSG00000205531	ENST00000469805	retained_intron	KNOWN	None	7640	None	None	2965668	2973999	-1	None	NAP2
11	NAP1L4	ENSG00000205531	ENST00000469089	processed_transcript	KNOWN	None	7640	None	None	2966293	2972525	-1	None	NAP2
11	NAP1L4	ENSG00000205531	ENST00000526115	protein_coding	NOVEL	None	7640	1161	386	2966342	3013607	-1	None	NAP2
11	NAP1L4	ENSG00000205531	ENST00000492594	retained_intron	KNOWN	None	7640	None	None	2966561	2977020	-1	None	NAP2
11	NAP1L4	ENSG00000205531	ENST00000526023	processed_transcript	KNOWN	None	7640	None	None	2966665	2973267	-1	None	NAP2
11	NAP1L4	ENSG00000205531	ENST00000492685	nonsense_mediated_decay	KNOWN	None	7640	615	204	2966827	2991134	-1	None	NAP2
11	NAP1L4	ENSG00000205531	ENST00000528363	retained_intron	KNOWN	None	7640	None	None	2975534	2985942	-1	None	NAP2
11	NAP1L4	ENSG00000205531	ENST00000483643	retained_intron	KNOWN	None	7640	None	None	2975718	2981361	-1	None	NAP2
11	NAP1L4	ENSG00000205531	ENST00000528261	retained_intron	KNOWN	None	7640	None	None	2975792	2980164	-1	None	NAP2
11	NAP1L4	ENSG00000205531	ENST00000532325	protein_coding	PUTATIVE	None	7640	462	153	2979714	3013530	-1	None	NAP2
11	NAP1L4	ENSG00000205531	ENST00000448187	protein_coding	NOVEL	None	7640	836	277	2979721	3013518	-1	None	NAP2
11	NAP1L4	ENSG00000205531	ENST00000399614	protein_coding	PUTATIVE	None	7640	468	155	2985955	3013530	-1	None	NAP2
11	NAP1L4	ENSG00000205531	ENST00000430811	protein_coding	KNOWN	None	7640	534	177	2991033	3013332	-1	None	NAP2
11	NAP1L4	ENSG00000205531	ENST00000529361	protein_coding	NOVEL	None	7640	508	168	2991095	3013488	-1	None	NAP2
11	NAP1L4	ENSG00000205531	ENST00000528968	protein_coding	KNOWN	None	7640	421	139	2991146	3013488	-1	None	NAP2
11	NAP1L4	ENSG00000205531	ENST00000530064	protein_coding	KNOWN	None	7640	400	132	2992680	3010498	-1	None	NAP2
11	NAP1L4	ENSG00000205531	ENST00000526842	protein_coding	KNOWN	None	7640	386	127	2992694	3013492	-1	None	NAP2
11	NAP1L4	ENSG00000205531	ENST00000531291	protein_coding	KNOWN	None	7640	321	106	2992759	3013489	-1	None	NAP2
11	NAP1L4	ENSG00000205531	ENST00000455338	protein_coding	NOVEL	None	7640	304	100	2993379	3010389	-1	None	NAP2
11	NAP1L4	ENSG00000205531	ENST00000534372	protein_coding	KNOWN	None	7640	236	77	2993411	3013488	-1	None	NAP2
17	FLOT2	ENSG00000132589	ENST00000394906	protein_coding	NOVEL	None	3758	1452	483	27206353	27224670	-1	M17S1	ESA, ESA1, ECS-1, ECS1
17	FLOT2	ENSG00000132589	ENST00000394908	protein_coding	KNOWN	CCDS11245	3758	1287	428	27206353	27224697	-1	M17S1	ESA, ESA1, ECS-1, ECS1
17	FLOT2	ENSG00000132589	ENST00000580805	nonsense_mediated_decay	KNOWN	None	3758	357	118	27206357	27224671	-1	M17S1	ESA, ESA1, ECS-1, ECS1
17	FLOT2	ENSG00000132589	ENST00000584569	processed_transcript	KNOWN	None	3758	None	None	27206359	27209677	-1	M17S1	ESA, ESA1, ECS-1, ECS1
17	FLOT2	ENSG00000132589	ENST00000577789	processed_transcript	KNOWN	None	3758	None	None	27206359	27224670	-1	M17S1	ESA, ESA1, ECS-1, ECS1
17	FLOT2	ENSG00000132589	ENST00000585169	protein_coding	NOVEL	None	3758	1287	428	27206359	27224670	-1	M17S1	ESA, ESA1, ECS-1, ECS1
17	FLOT2	ENSG00000132589	ENST00000586827	nonsense_mediated_decay	KNOWN	None	3758	207	68	27207596	27224606	-1	M17S1	ESA, ESA1, ECS-1, ECS1
17	FLOT2	ENSG00000132589	ENST00000465427	protein_coding	PUTATIVE	None	3758	746	247	27208362	27212965	-1	M17S1	ESA, ESA1, ECS-1, ECS1
17	FLOT2	ENSG00000132589	ENST00000593158	retained_intron	KNOWN	None	3758	None	None	27208793	27224606	-1	M17S1	ESA, ESA1, ECS-1, ECS1
17	FLOT2	ENSG00000132589	ENST00000580313	retained_intron	KNOWN	None	3758	None	None	27209651	27213029	-1	M17S1	ESA, ESA1, ECS-1, ECS1
17	FLOT2	ENSG00000132589	ENST00000582174	retained_intron	KNOWN	None	3758	None	None	27209758	27224672	-1	M17S1	ESA, ESA1, ECS-1, ECS1
17	FLOT2	ENSG00000132589	ENST00000581509	retained_intron	KNOWN	None	3758	None	None	27209997	27216044	-1	M17S1	ESA, ESA1, ECS-1, ECS1
12	None	ENSG00000221807	ENST00000408880	miRNA	NOVEL	None	None	None	None	103320292	103320383	-1	None	None
Y	None	ENSG00000251510	ENST00000510613	processed_transcript	KNOWN	None	None	None	None	20653626	20709584	1	None	None
3	None	ENSG00000243977	ENST00000496255	processed_pseudogene	KNOWN	None	None	None	None	179367282	179367988	-1	None	None
1	CROCCP2	ENSG00000215908	ENST00000412962	lincRNA	KNOWN	None	28170	None	None	16944757	16961054	-1	CROCCL1	MGC12760
1	CROCCP2	ENSG00000215908	ENST00000362058	retained_intron	KNOWN	None	28170	None	None	16956165	16971178	-1	CROCCL1	MGC12760
1	CROCCP2	ENSG00000215908	ENST00000540383	lincRNA	KNOWN	None	28170	None	None	16944751	16957401	-1	CROCCL1	MGC12760
7	ZNF398	ENSG00000197024	ENST00000426851	protein_coding	KNOWN	CCDS47739	18373	1416	471	148823508	148879894	1	None	ZER6, KIAA1339, P51, P71
7	ZNF398	ENSG00000197024	ENST00000485111	processed_transcript	KNOWN	None	18373	None	None	148844200	148863327	1	None	ZER6, KIAA1339, P51, P71
7	ZNF398	ENSG00000197024	ENST00000475153	protein_coding	KNOWN	CCDS5894	18373	1929	642	148844568	148877557	1	None	ZER6, KIAA1339, P51, P71
7	ZNF398	ENSG00000197024	ENST00000483892	protein_coding	KNOWN	CCDS47739	18373	1416	471	148845219	148876975	1	None	ZER6, KIAA1339, P51, P71
7	ZNF398	ENSG00000197024	ENST00000491174	protein_coding	KNOWN	CCDS47739	18373	1416	471	148845495	148877030	1	None	ZER6, KIAA1339, P51, P71
7	ZNF398	ENSG00000197024	ENST00000540950	protein_coding	KNOWN	None	18373	1944	647	148845505	148877030	1	None	ZER6, KIAA1339, P51, P71
7	ZNF398	ENSG00000197024	ENST00000420008	protein_coding	KNOWN	CCDS47739	18373	1416	471	148844560	148880116	1	None	ZER6, KIAA1339, P51, P71
7	ZNF398	ENSG00000197024	ENST00000335901	protein_coding	KNOWN	CCDS47739	18373	1416	471	148849678	148880116	1	None	ZER6, KIAA1339, P51, P71
4	FAM200B	ENSG00000237765	ENST00000510920	processed_transcript	KNOWN	None	27740	None	None	15683285	15688935	1	None	C4orf53
4	FAM200B	ENSG00000237765	ENST00000504823	processed_transcript	KNOWN	None	27740	None	None	15683292	15690317	1	None	C4orf53
4	FAM200B	ENSG00000237765	ENST00000504137	processed_transcript	KNOWN	None	27740	None	None	15683341	15692070	1	None	C4orf53
4	FAM200B	ENSG00000237765	ENST00000515697	processed_transcript	KNOWN	None	27740	None	None	15683356	15690236	1	None	C4orf53
4	FAM200B	ENSG00000237765	ENST00000509022	processed_transcript	KNOWN	None	27740	None	None	15683375	15688229	1	None	C4orf53
4	FAM200B	ENSG00000237765	ENST00000510032	processed_transcript	KNOWN	None	27740	None	None	15683377	15688229	1	None	C4orf53
4	FAM200B	ENSG00000237765	ENST00000512855	processed_transcript	KNOWN	None	27740	None	None	15683379	15688768	1	None	C4orf53
4	FAM200B	ENSG00000237765	ENST00000515430	processed_transcript	KNOWN	None	27740	None	None	15683379	15689083	1	None	C4orf53
4	FAM200B	ENSG00000237765	ENST00000505260	processed_transcript	KNOWN	None	27740	None	None	15683379	15690719	1	None	C4orf53
4	FAM200B	ENSG00000237765	ENST00000504598	processed_transcript	KNOWN	None	27740	None	None	15683379	15707188	1	None	C4orf53
4	FAM200B	ENSG00000237765	ENST00000502502	processed_transcript	KNOWN	None	27740	None	None	15683380	15688191	1	None	C4orf53
4	FAM200B	ENSG00000237765	ENST00000503617	protein_coding	PUTATIVE	None	27740	73	23	15683380	15688673	1	None	C4orf53
4	FAM200B	ENSG00000237765	ENST00000507305	processed_transcript	KNOWN	None	27740	None	None	15683414	15689085	1	None	C4orf53
4	FAM200B	ENSG00000237765	ENST00000507992	processed_transcript	KNOWN	None	27740	None	None	15683419	15688019	1	None	C4orf53
4	FAM200B	ENSG00000237765	ENST00000513053	processed_transcript	KNOWN	None	27740	None	None	15683429	15688928	1	None	C4orf53
4	FAM200B	ENSG00000237765	ENST00000422728	protein_coding	PUTATIVE	CCDS47028	27740	1974	657	15683429	15690724	1	None	C4orf53
4	FAM200B	ENSG00000237765	ENST00000514803	processed_transcript	KNOWN	None	27740	None	None	15683446	15688229	1	None	C4orf53
4	FAM200B	ENSG00000237765	ENST00000508567	processed_transcript	KNOWN	None	27740	None	None	15683448	15688768	1	None	C4orf53
4	FAM200B	ENSG00000237765	ENST00000503600	processed_transcript	KNOWN	None	27740	None	None	15683458	15690242	1	None	C4orf53
4	FAM200B	ENSG00000237765	ENST00000502856	processed_transcript	KNOWN	None	27740	None	None	15683484	15690595	1	None	C4orf53
4	FAM200B	ENSG00000237765	ENST00000510186	processed_transcript	KNOWN	None	27740	None	None	15683529	15688764	1	None	C4orf53
4	FAM200B	ENSG00000237765	ENST00000506610	processed_transcript	KNOWN	None	27740	None	None	15686305	15690595	1	None	C4orf53
11	None	ENSG00000181214	ENST00000412796	unprocessed_pseudogene	KNOWN	None	None	None	None	124095437	124096344	1	None	None
11	None	ENSG00000181214	ENST00000366149	pseudogene	KNOWN	None	None	None	None	124095437	124096365	1	None	None
8	None	ENSG00000238901	ENST00000459148	snoRNA	NOVEL	None	None	None	None	123683530	123683633	1	None	None
3	ABCC5	ENSG00000114770	ENST00000334444	protein_coding	KNOWN	CCDS43176	56	4314	1437	183637722	183735803	-1	None	MRP5, SMRP, EST277145, MOAT-C
3	ABCC5	ENSG00000114770	ENST00000437205	nonsense_mediated_decay	KNOWN	None	56	1422	473	183637727	183735624	-1	None	MRP5, SMRP, EST277145, MOAT-C
3	ABCC5	ENSG00000114770	ENST00000443497	nonsense_mediated_decay	KNOWN	None	56	212	69	183643448	183660568	-1	None	MRP5, SMRP, EST277145, MOAT-C
3	ABCC5	ENSG00000114770	ENST00000476402	retained_intron	KNOWN	None	56	None	None	183685092	183689619	-1	None	MRP5, SMRP, EST277145, MOAT-C
3	ABCC5	ENSG00000114770	ENST00000492216	processed_transcript	KNOWN	None	56	None	None	183695306	183701364	-1	None	MRP5, SMRP, EST277145, MOAT-C
3	ABCC5	ENSG00000114770	ENST00000427120	protein_coding	PUTATIVE	None	56	696	231	183701541	183735651	-1	None	MRP5, SMRP, EST277145, MOAT-C
3	ABCC5	ENSG00000114770	ENST00000443376	nonsense_mediated_decay	KNOWN	None	56	639	212	183701541	183735677	-1	None	MRP5, SMRP, EST277145, MOAT-C
3	ABCC5	ENSG00000114770	ENST00000392579	protein_coding	PUTATIVE	None	56	678	225	183701541	183735677	-1	None	MRP5, SMRP, EST277145, MOAT-C
3	ABCC5	ENSG00000114770	ENST00000382494	protein_coding	PUTATIVE	CCDS33898	56	627	208	183701541	183735677	-1	None	MRP5, SMRP, EST277145, MOAT-C
3	ABCC5	ENSG00000114770	ENST00000438979	nonsense_mediated_decay	KNOWN	None	56	162	53	183705559	183735704	-1	None	MRP5, SMRP, EST277145, MOAT-C
3	ABCC5	ENSG00000114770	ENST00000437341	protein_coding	KNOWN	None	56	442	146	183706361	183735232	-1	None	MRP5, SMRP, EST277145, MOAT-C
3	ABCC5	ENSG00000114770	ENST00000446941	protein_coding	PUTATIVE	None	56	162	53	183718451	183735727	-1	None	MRP5, SMRP, EST277145, MOAT-C
3	ABCC5	ENSG00000114770	ENST00000265586	protein_coding	KNOWN	None	56	4185	1394	183639002	183732192	-1	None	MRP5, SMRP, EST277145, MOAT-C
8	None	ENSG00000263443	ENST00000577765	lincRNA	KNOWN	None	None	None	None	123712508	123715662	-1	None	None
Y	XKRYP1	ENSG00000238067	ENST00000423438	unprocessed_pseudogene	KNOWN	None	23908	None	None	20670463	20670954	1	None	None
13	CCNA1	ENSG00000133101	ENST00000463403	processed_transcript	KNOWN	None	1577	None	None	37006040	37011848	1	None	None
13	CCNA1	ENSG00000133101	ENST00000255465	protein_coding	KNOWN	CCDS9357	1577	1398	465	37006495	37017019	1	None	None
13	CCNA1	ENSG00000133101	ENST00000418263	protein_coding	KNOWN	CCDS45030	1577	1395	464	37006409	37017019	1	None	None
13	CCNA1	ENSG00000133101	ENST00000440264	protein_coding	KNOWN	CCDS45031	1577	1266	421	37005967	37017019	1	None	None
13	CCNA1	ENSG00000133101	ENST00000449823	protein_coding	KNOWN	CCDS45031	1577	1266	421	37005967	37017019	1	None	None
8	None	ENSG00000235165	ENST00000442838	processed_pseudogene	KNOWN	None	None	None	None	123781513	123782389	1	None	None
Y	PRYP5	ENSG00000233546	ENST00000451909	unprocessed_pseudogene	KNOWN	None	38785	None	None	20691244	20691509	1	None	None
13	PCDH8P1	ENSG00000225510	ENST00000428983	processed_pseudogene	KNOWN	None	39937	None	None	53774116	53776547	1	None	None
Y	TCEB1P7	ENSG00000230377	ENST00000439968	processed_pseudogene	KNOWN	None	38143	None	None	20694212	20694542	-1	None	None
8	None	ENSG00000272384	ENST00000607710	lincRNA	KNOWN	None	None	None	None	123792210	123793069	-1	None	None
7	HUS1	ENSG00000136273	ENST00000436444	nonsense_mediated_decay	KNOWN	CCDS34635	5309	843	280	47735328	48019178	-1	None	None
7	HUS1	ENSG00000136273	ENST00000258774	protein_coding	KNOWN	CCDS34635	5309	843	280	48002885	48019140	-1	None	None
7	HUS1	ENSG00000136273	ENST00000458191	nonsense_mediated_decay	KNOWN	None	5309	780	259	48003917	48019150	-1	None	None
7	HUS1	ENSG00000136273	ENST00000432325	protein_coding	PUTATIVE	None	5309	780	259	48004763	48019150	-1	None	None
7	HUS1	ENSG00000136273	ENST00000442024	nonsense_mediated_decay	KNOWN	None	5309	316	104	48008416	48018131	-1	None	None
7	HUS1	ENSG00000136273	ENST00000432627	protein_coding	PUTATIVE	None	5309	551	182	48008842	48019101	-1	None	None
7	HUS1	ENSG00000136273	ENST00000433977	nonsense_mediated_decay	KNOWN	None	5309	483	160	48015210	48018492	-1	None	None
7	HUS1	ENSG00000136273	ENST00000446009	protein_coding	PUTATIVE	None	5309	435	144	48015252	48019150	-1	None	None
7	HUS1	ENSG00000136273	ENST00000468868	retained_intron	KNOWN	None	5309	None	None	48017857	48019150	-1	None	None
12	None	ENSG00000257703	ENST00000548594	antisense	KNOWN	None	None	None	None	103474728	103572453	-1	None	None
12	None	ENSG00000257703	ENST00000548415	antisense	KNOWN	None	None	None	None	103474868	103572179	-1	None	None
4	GUCY1B3	ENSG00000061918	ENST00000505154	protein_coding	PUTATIVE	None	4687	1656	551	156680144	156727942	1	GUC1B3	GC-SB3, GC-S-beta-1
4	GUCY1B3	ENSG00000061918	ENST00000502959	protein_coding	NOVEL	None	4687	1926	641	156680173	156727770	1	GUC1B3	GC-SB3, GC-S-beta-1
4	GUCY1B3	ENSG00000061918	ENST00000505764	protein_coding	PUTATIVE	None	4687	1800	599	156680178	156727890	1	GUC1B3	GC-SB3, GC-S-beta-1
4	GUCY1B3	ENSG00000061918	ENST00000507146	protein_coding	PUTATIVE	None	4687	1785	594	156680183	156727985	1	GUC1B3	GC-SB3, GC-S-beta-1
4	GUCY1B3	ENSG00000061918	ENST00000264424	protein_coding	KNOWN	CCDS47154	4687	1860	619	156680211	156728743	1	GUC1B3	GC-SB3, GC-S-beta-1
4	GUCY1B3	ENSG00000061918	ENST00000503520	protein_coding	NOVEL	None	4687	1761	586	156680242	156727700	1	GUC1B3	GC-SB3, GC-S-beta-1
4	GUCY1B3	ENSG00000061918	ENST00000513437	protein_coding	PUTATIVE	None	4687	1656	551	156680611	156727976	1	GUC1B3	GC-SB3, GC-S-beta-1
8	None	ENSG00000258417	ENST00000262283	protein_coding	NOVEL	None	None	2070	689	133036485	133097902	-1	None	None
8	None	ENSG00000258417	ENST00000443356	protein_coding	KNOWN	None	None	1482	493	133036467	133071627	-1	None	None
8	None	ENSG00000258417	ENST00000603859	protein_coding	KNOWN	CCDS47919	None	1434	477	133036467	133071627	-1	None	None
13	RN7SL618P	ENSG00000241613	ENST00000477850	misc_RNA	KNOWN	None	46634	None	None	53832212	53832505	1	None	None
Y	USP9YP1	ENSG00000250951	ENST00000513521	unprocessed_pseudogene	KNOWN	None	31741	None	None	20702866	20706014	1	None	None
8	None	ENSG00000272043	ENST00000607393	lincRNA	KNOWN	None	None	None	None	123792999	123793310	1	None	None
20	ZCCHC3	ENSG00000177764	ENST00000382352	protein_coding	KNOWN	CCDS42844	16230	1215	404	277737	280965	1	C20orf99	dJ1103G7.7
5	None	ENSG00000248109	ENST00000513133	lincRNA	KNOWN	None	None	None	None	147618133	147622157	1	None	None
5	ARL14EPL	ENSG00000268223	ENST00000601302	protein_coding	NOVEL	CCDS59490	44201	459	152	115387163	115395815	1	None	None
3	HHATL	ENSG00000010282	ENST00000490003	retained_intron	KNOWN	None	13242	None	None	42734155	42734942	-1	C3orf3, GUP1	KIAA1173, OACT3, MSTP002, MBOAT3
3	HHATL	ENSG00000010282	ENST00000466007	retained_intron	KNOWN	None	13242	None	None	42734155	42735455	-1	C3orf3, GUP1	KIAA1173, OACT3, MSTP002, MBOAT3
3	HHATL	ENSG00000010282	ENST00000426666	protein_coding	PUTATIVE	None	13242	373	123	42734155	42738591	-1	C3orf3, GUP1	KIAA1173, OACT3, MSTP002, MBOAT3
3	HHATL	ENSG00000010282	ENST00000310417	protein_coding	KNOWN	CCDS2704	13242	1515	504	42734155	42743013	-1	C3orf3, GUP1	KIAA1173, OACT3, MSTP002, MBOAT3
3	HHATL	ENSG00000010282	ENST00000441594	protein_coding	KNOWN	CCDS2704	13242	1515	504	42734155	42744319	-1	C3orf3, GUP1	KIAA1173, OACT3, MSTP002, MBOAT3
3	HHATL	ENSG00000010282	ENST00000480939	retained_intron	KNOWN	None	13242	None	None	42734592	42735693	-1	C3orf3, GUP1	KIAA1173, OACT3, MSTP002, MBOAT3
3	HHATL	ENSG00000010282	ENST00000457462	protein_coding	PUTATIVE	None	13242	783	260	42738525	42744270	-1	C3orf3, GUP1	KIAA1173, OACT3, MSTP002, MBOAT3
3	HHATL	ENSG00000010282	ENST00000416756	protein_coding	KNOWN	None	13242	694	230	42739633	42744316	-1	C3orf3, GUP1	KIAA1173, OACT3, MSTP002, MBOAT3
3	HHATL	ENSG00000010282	ENST00000455195	protein_coding	PUTATIVE	None	13242	611	202	42739716	42742689	-1	C3orf3, GUP1	KIAA1173, OACT3, MSTP002, MBOAT3
3	HHATL	ENSG00000010282	ENST00000417472	protein_coding	PUTATIVE	None	13242	349	115	42739783	42744136	-1	C3orf3, GUP1	KIAA1173, OACT3, MSTP002, MBOAT3
3	HHATL	ENSG00000010282	ENST00000442469	protein_coding	PUTATIVE	None	13242	353	116	42740330	42744136	-1	C3orf3, GUP1	KIAA1173, OACT3, MSTP002, MBOAT3
3	HHATL	ENSG00000010282	ENST00000497000	retained_intron	KNOWN	None	13242	None	None	42740545	42743013	-1	C3orf3, GUP1	KIAA1173, OACT3, MSTP002, MBOAT3
11	RPS6KA4	ENSG00000162302	ENST00000528057	protein_coding	KNOWN	None	10433	2298	765	64126620	64139687	1	None	RSK-B, MSK2
11	RPS6KA4	ENSG00000162302	ENST00000334205	protein_coding	KNOWN	CCDS8073	10433	2319	772	64126643	64139687	1	None	RSK-B, MSK2
11	RPS6KA4	ENSG00000162302	ENST00000530383	retained_intron	KNOWN	None	10433	None	None	64126653	64127260	1	None	RSK-B, MSK2
11	RPS6KA4	ENSG00000162302	ENST00000531659	retained_intron	KNOWN	None	10433	None	None	64126654	64128103	1	None	RSK-B, MSK2
11	RPS6KA4	ENSG00000162302	ENST00000528355	nonsense_mediated_decay	KNOWN	None	10433	147	48	64126654	64139157	1	None	RSK-B, MSK2
11	RPS6KA4	ENSG00000162302	ENST00000530504	protein_coding	KNOWN	None	10433	2114	703	64126756	64138813	1	None	RSK-B, MSK2
11	RPS6KA4	ENSG00000162302	ENST00000532885	retained_intron	KNOWN	None	10433	None	None	64127989	64135875	1	None	RSK-B, MSK2
11	RPS6KA4	ENSG00000162302	ENST00000532496	retained_intron	KNOWN	None	10433	None	None	64128462	64129474	1	None	RSK-B, MSK2
11	RPS6KA4	ENSG00000162302	ENST00000294261	protein_coding	KNOWN	None	10433	1575	524	64126646	64139686	1	None	RSK-B, MSK2
3	None	ENSG00000270178	ENST00000602704	lincRNA	KNOWN	None	None	None	None	179521851	179522154	1	None	None
3	PEX5L-AS1	ENSG00000243799	ENST00000466064	antisense	KNOWN	None	41251	None	None	179593164	179599397	1	None	None
HSCHR6_MHC_MCF	None	ENSG00000257590	ENST00000551866	protein_coding	NOVEL	None	None	399	132	31039435	31040043	1	None	None
1	WNT4	ENSG00000162552	ENST00000290167	protein_coding	KNOWN	CCDS223	12783	1056	351	22443798	22469459	-1	None	WNT-4
1	WNT4	ENSG00000162552	ENST00000415567	protein_coding	KNOWN	None	12783	451	149	22453531	22456344	-1	None	WNT-4
1	WNT4	ENSG00000162552	ENST00000441048	protein_coding	KNOWN	None	12783	156	51	22453967	22470462	-1	None	WNT-4
1	WNT4	ENSG00000162552	ENST00000542383	protein_coding	KNOWN	None	12783	891	296	22446521	22470385	-1	None	WNT-4
HSCHR6_MHC_MANN	GABBR1	ENSG00000237051	ENST00000448754	protein_coding	KNOWN	None	4070	2535	844	29522994	29595405	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_MANN	GABBR1	ENSG00000237051	ENST00000418225	protein_coding	KNOWN	None	4070	2886	961	29569634	29600532	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_MANN	GABBR1	ENSG00000237051	ENST00000458612	protein_coding	KNOWN	None	4070	2535	844	29569634	29595380	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_MANN	GABBR1	ENSG00000237051	ENST00000440316	protein_coding	KNOWN	None	4070	2700	899	29569634	29600507	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_MANN	GABBR1	ENSG00000237051	ENST00000464091	processed_transcript	KNOWN	None	4070	None	None	29569634	29600306	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_MANN	GABBR1	ENSG00000237051	ENST00000496077	processed_transcript	KNOWN	None	4070	None	None	29569634	29576138	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_MANN	GABBR1	ENSG00000237051	ENST00000473033	processed_transcript	KNOWN	None	4070	None	None	29570718	29572553	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_MANN	GABBR1	ENSG00000237051	ENST00000496339	processed_transcript	KNOWN	None	4070	None	None	29572317	29599757	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_MANN	GABBR1	ENSG00000237051	ENST00000475876	processed_transcript	KNOWN	None	4070	None	None	29572814	29573993	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_MANN	GABBR1	ENSG00000237051	ENST00000482516	processed_transcript	KNOWN	None	4070	None	None	29575859	29579998	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_MANN	GABBR1	ENSG00000237051	ENST00000491155	processed_transcript	KNOWN	None	4070	None	None	29589171	29591628	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_MANN	GABBR1	ENSG00000237051	ENST00000460802	processed_transcript	KNOWN	None	4070	None	None	29597269	29600439	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_MANN	GABBR1	ENSG00000237051	ENST00000550820	protein_coding	KNOWN	None	4070	1737	578	29569633	29600557	-1	None	hGB1a, GPRC3A
22	RNU6-495P	ENSG00000199865	ENST00000362995	snRNA	KNOWN	None	47458	None	None	41773181	41773287	-1	None	None
22	None	ENSG00000200332	ENST00000363462	misc_RNA	NOVEL	None	None	None	None	42044093	42044194	-1	None	None
13	CLYBL	ENSG00000125246	ENST00000376360	protein_coding	KNOWN	CCDS32002	18355	1023	340	100258923	100544824	1	None	CLB
13	CLYBL	ENSG00000125246	ENST00000376354	protein_coding	KNOWN	None	18355	921	306	100258944	100543867	1	None	CLB
13	CLYBL	ENSG00000125246	ENST00000339105	protein_coding	KNOWN	CCDS32002	18355	1023	340	100258950	100544818	1	None	CLB
13	CLYBL	ENSG00000125246	ENST00000416504	protein_coding	KNOWN	None	18355	546	181	100511115	100517492	1	None	CLB
13	CLYBL	ENSG00000125246	ENST00000443887	protein_coding	KNOWN	None	18355	444	147	100511115	100517492	1	None	CLB
13	CLYBL	ENSG00000125246	ENST00000419700	protein_coding	KNOWN	None	18355	312	103	100518571	100545148	1	None	CLB
13	CLYBL	ENSG00000125246	ENST00000425186	protein_coding	KNOWN	None	18355	270	89	100523272	100543866	1	None	CLB
13	CLYBL	ENSG00000125246	ENST00000376355	protein_coding	KNOWN	None	18355	921	306	100258919	100549387	1	None	CLB
13	CLYBL	ENSG00000125246	ENST00000444838	protein_coding	KNOWN	None	18355	909	302	100258923	100530447	1	None	CLB
22	RNU6-476P	ENSG00000207457	ENST00000384726	snRNA	KNOWN	None	47439	None	None	42075715	42075821	1	None	None
11	OR8G7P	ENSG00000254845	ENST00000529130	unprocessed_pseudogene	KNOWN	None	19625	None	None	124109121	124110228	1	None	None
7	EPHB6	ENSG00000106123	ENST00000442129	protein_coding	KNOWN	CCDS5873	3396	3066	1021	142552823	142568847	1	None	HEP
7	EPHB6	ENSG00000106123	ENST00000497095	processed_transcript	KNOWN	None	3396	None	None	142552866	142559892	1	None	HEP
7	EPHB6	ENSG00000106123	ENST00000466783	retained_intron	KNOWN	None	3396	None	None	142552886	142568847	1	None	HEP
7	EPHB6	ENSG00000106123	ENST00000425995	nonsense_mediated_decay	KNOWN	None	3396	153	50	142552905	142568840	1	None	HEP
7	EPHB6	ENSG00000106123	ENST00000422643	nonsense_mediated_decay	KNOWN	None	3396	552	183	142560513	142568840	1	None	HEP
7	EPHB6	ENSG00000106123	ENST00000486511	retained_intron	KNOWN	None	3396	None	None	142565037	142568847	1	None	HEP
7	EPHB6	ENSG00000106123	ENST00000471581	retained_intron	KNOWN	None	3396	None	None	142567525	142568368	1	None	HEP
7	EPHB6	ENSG00000106123	ENST00000476059	processed_transcript	KNOWN	None	3396	None	None	142567651	142568845	1	None	HEP
7	EPHB6	ENSG00000106123	ENST00000392957	protein_coding	KNOWN	CCDS5873	3396	3066	1021	142552792	142568847	1	None	HEP
7	EPHB6	ENSG00000106123	ENST00000411471	protein_coding	KNOWN	None	3396	2235	744	142560986	142568847	1	None	HEP
22	None	ENSG00000255782	ENST00000539984	pseudogene	NOVEL	None	None	None	None	42090191	42092048	1	None	None
HSCHR6_MHC_MCF	C6orf15	ENSG00000224105	ENST00000440933	protein_coding	KNOWN	None	13927	978	325	31157528	31158864	-1	None	STG
2	None	ENSG00000213828	ENST00000396489	protein_coding	NOVEL	None	None	264	87	240083493	240084053	-1	None	None
4	None	ENSG00000249635	ENST00000513220	antisense	KNOWN	None	None	None	None	106924474	106943635	-1	None	None
20	SOX12	ENSG00000177732	ENST00000544632	protein_coding	KNOWN	CCDS12995	11198	948	315	306207	309181	1	SOX22	None
20	SOX12	ENSG00000177732	ENST00000342665	protein_coding	KNOWN	CCDS12995	11198	948	315	306239	310865	1	SOX22	None
22	HMGN2P10	ENSG00000231261	ENST00000448085	processed_pseudogene	KNOWN	None	4988	None	None	42105229	42105493	-1	HMG17L2, HMGN2L10	bK216E10
12	RNU7-184P	ENSG00000239164	ENST00000459092	snRNA	KNOWN	None	45718	None	None	103507812	103507865	-1	None	None
12	None	ENSG00000238909	ENST00000459228	miRNA	NOVEL	None	None	None	None	103632176	103632253	-1	None	None
22	RNU6ATAC22P	ENSG00000252603	ENST00000516794	snRNA	KNOWN	None	46921	None	None	42118047	42118135	-1	None	None
22	None	ENSG00000206813	ENST00000384086	misc_RNA	NOVEL	None	None	None	None	42143316	42143417	1	None	None
9	RN7SL787P	ENSG00000240165	ENST00000491684	misc_RNA	KNOWN	None	46803	None	None	67858947	67859228	-1	None	None
3	AZI2	ENSG00000163512	ENST00000429369	protein_coding	PUTATIVE	None	24002	229	75	28356494	28373898	-1	None	NAP1, FLJ21939, AZ2
3	AZI2	ENSG00000163512	ENST00000479665	protein_coding	KNOWN	CCDS2647	24002	1179	392	28362538	28390618	-1	None	NAP1, FLJ21939, AZ2
3	AZI2	ENSG00000163512	ENST00000295748	processed_transcript	KNOWN	None	24002	None	None	28363844	28390281	-1	None	NAP1, FLJ21939, AZ2
3	AZI2	ENSG00000163512	ENST00000476174	retained_intron	KNOWN	None	24002	None	None	28365678	28368493	-1	None	NAP1, FLJ21939, AZ2
3	AZI2	ENSG00000163512	ENST00000492044	retained_intron	KNOWN	None	24002	None	None	28365797	28378444	-1	None	NAP1, FLJ21939, AZ2
3	AZI2	ENSG00000163512	ENST00000463512	retained_intron	KNOWN	None	24002	None	None	28367981	28390463	-1	None	NAP1, FLJ21939, AZ2
3	AZI2	ENSG00000163512	ENST00000334100	protein_coding	KNOWN	CCDS46783	24002	699	232	28373180	28390120	-1	None	NAP1, FLJ21939, AZ2
3	AZI2	ENSG00000163512	ENST00000488978	retained_intron	KNOWN	None	24002	None	None	28373181	28378613	-1	None	NAP1, FLJ21939, AZ2
3	AZI2	ENSG00000163512	ENST00000470234	retained_intron	KNOWN	None	24002	None	None	28373182	28373928	-1	None	NAP1, FLJ21939, AZ2
3	AZI2	ENSG00000163512	ENST00000420543	protein_coding	KNOWN	CCDS46782	24002	732	243	28373182	28390541	-1	None	NAP1, FLJ21939, AZ2
3	AZI2	ENSG00000163512	ENST00000457172	protein_coding	KNOWN	CCDS46782	24002	732	243	28373317	28390310	-1	None	NAP1, FLJ21939, AZ2
3	AZI2	ENSG00000163512	ENST00000414162	protein_coding	KNOWN	None	24002	647	214	28373860	28390415	-1	None	NAP1, FLJ21939, AZ2
3	AZI2	ENSG00000163512	ENST00000462936	retained_intron	KNOWN	None	24002	None	None	28378319	28380108	-1	None	NAP1, FLJ21939, AZ2
3	AZI2	ENSG00000163512	ENST00000415852	protein_coding	KNOWN	None	24002	286	94	28380037	28389968	-1	None	NAP1, FLJ21939, AZ2
2	None	ENSG00000222020	ENST00000409526	protein_coding	PUTATIVE	None	None	168	55	240323130	240324051	1	None	None
2	None	ENSG00000222020	ENST00000428471	protein_coding	PUTATIVE	None	None	305	100	240323442	240324049	1	None	None
2	None	ENSG00000222020	ENST00000413029	protein_coding	PUTATIVE	None	None	337	111	240323499	240324058	1	None	None
22	None	ENSG00000184068	ENST00000333487	processed_transcript	KNOWN	None	None	None	None	42227219	42230669	-1	None	None
9	None	ENSG00000252878	ENST00000517069	snoRNA	NOVEL	None	None	None	None	67864533	67864627	1	None	None
Y	GPM6BP1	ENSG00000230458	ENST00000446387	unprocessed_pseudogene	KNOWN	None	38782	None	None	20740303	20740446	1	None	None
1	MST1P2	ENSG00000186301	ENST00000457982	unprocessed_pseudogene	KNOWN	None	7383	None	None	16972117	16976784	1	MSTP2	MSPL2, MSPL-2
1	MST1P2	ENSG00000186301	ENST00000334429	unprocessed_pseudogene	KNOWN	None	7383	None	None	16972069	16976914	1	MSTP2	MSPL2, MSPL-2
1	MST1P2	ENSG00000186301	ENST00000418421	unprocessed_pseudogene	KNOWN	None	7383	None	None	16972108	16974871	1	MSTP2	MSPL2, MSPL-2
22	MIR33A	ENSG00000207932	ENST00000385197	miRNA	KNOWN	None	31634	None	None	42296948	42297016	1	MIRN33, MIRN33A	hsa-mir-33, hsa-mir-33a
9	None	ENSG00000223983	ENST00000414918	processed_pseudogene	KNOWN	None	None	None	None	67864636	67864981	1	None	None
X	TAB3-AS2	ENSG00000235512	ENST00000445240	antisense	KNOWN	None	40013	None	None	30872438	30872824	1	None	None
Y	TTTY9B	ENSG00000131007	ENST00000433794	antisense	KNOWN	None	32425	None	None	20743092	20752407	-1	None	NCRNA00132
Y	TTTY9B	ENSG00000131007	ENST00000545582	antisense	KNOWN	None	32425	None	None	20743092	20750598	-1	None	NCRNA00132
22	None	ENSG00000260655	ENST00000566575	lincRNA	KNOWN	None	None	None	None	42318027	42319104	-1	None	None
6	AGPAT4	ENSG00000026652	ENST00000320285	protein_coding	KNOWN	CCDS5280	20885	1137	378	161551057	161695093	-1	None	LPAAT-delta, dJ473J16.2
6	AGPAT4	ENSG00000026652	ENST00000437165	protein_coding	KNOWN	None	20885	317	104	161564988	161570321	-1	None	LPAAT-delta, dJ473J16.2
6	AGPAT4	ENSG00000026652	ENST00000436279	nonsense_mediated_decay	KNOWN	None	20885	402	133	161570237	161653268	-1	None	LPAAT-delta, dJ473J16.2
6	AGPAT4	ENSG00000026652	ENST00000366905	protein_coding	KNOWN	None	20885	480	159	161586870	161695064	-1	None	LPAAT-delta, dJ473J16.2
6	AGPAT4	ENSG00000026652	ENST00000457520	protein_coding	KNOWN	None	20885	651	216	161557287	161695077	-1	None	LPAAT-delta, dJ473J16.2
6	AGPAT4	ENSG00000026652	ENST00000366911	protein_coding	KNOWN	None	20885	357	118	161551011	161695057	-1	None	LPAAT-delta, dJ473J16.2
6	AGPAT4	ENSG00000026652	ENST00000366906	protein_coding	KNOWN	None	20885	375	124	161574693	161695082	-1	None	LPAAT-delta, dJ473J16.2
6	AGPAT4	ENSG00000026652	ENST00000366908	protein_coding	KNOWN	None	20885	402	133	161567555	161695051	-1	None	LPAAT-delta, dJ473J16.2
9	RNU6-368P	ENSG00000238397	ENST00000391117	snRNA	KNOWN	None	47331	None	None	67937393	67937499	1	None	None
18	SERPINB2	ENSG00000197632	ENST00000404622	protein_coding	KNOWN	None	8584	341	112	61538926	61564377	1	PLANH2, PAI2	HsT1201
18	SERPINB2	ENSG00000197632	ENST00000299502	protein_coding	KNOWN	CCDS11989	8584	1248	415	61554934	61571124	1	PLANH2, PAI2	HsT1201
18	SERPINB2	ENSG00000197632	ENST00000413956	protein_coding	KNOWN	None	8584	483	160	61554993	61565026	1	PLANH2, PAI2	HsT1201
18	SERPINB2	ENSG00000197632	ENST00000443281	protein_coding	KNOWN	None	8584	398	131	61557791	61564434	1	PLANH2, PAI2	HsT1201
18	SERPINB2	ENSG00000197632	ENST00000482254	processed_transcript	KNOWN	None	8584	None	None	61559851	61569787	1	PLANH2, PAI2	HsT1201
18	SERPINB2	ENSG00000197632	ENST00000457692	protein_coding	KNOWN	CCDS11989	8584	1248	415	61554939	61571113	1	PLANH2, PAI2	HsT1201
X	DMD-AS1	ENSG00000244186	ENST00000481143	antisense	KNOWN	None	42629	None	None	31115794	31187673	1	None	None
22	MIR378I	ENSG00000263463	ENST00000582688	miRNA	KNOWN	None	41620	None	None	42319226	42319301	-1	None	hsa-mir-378i
9	None	ENSG00000233555	ENST00000433508	processed_pseudogene	KNOWN	None	None	None	None	68176988	68177568	-1	None	None
X	DMD-AS2	ENSG00000242286	ENST00000489449	antisense	KNOWN	None	40184	None	None	31279225	31341747	1	None	None
2	None	ENSG00000196758	ENST00000358775	protein_coding	PUTATIVE	None	None	591	196	240499995	240507788	1	None	None
5	None	ENSG00000250438	ENST00000510570	lincRNA	KNOWN	None	None	None	None	123805284	123805594	1	None	None
X	RNU6-894P	ENSG00000252903	ENST00000517094	snRNA	KNOWN	None	47857	None	None	31366309	31366414	1	None	None
5	None	ENSG00000248296	ENST00000503145	lincRNA	KNOWN	None	None	None	None	123828468	123872041	-1	None	None
5	HAPLN1	ENSG00000145681	ENST00000274341	protein_coding	KNOWN	CCDS4061	2380	1065	354	82933624	83017432	-1	CRTL1	None
5	HAPLN1	ENSG00000145681	ENST00000510978	protein_coding	KNOWN	None	2380	775	257	82940182	82969556	-1	CRTL1	None
5	HAPLN1	ENSG00000145681	ENST00000508307	protein_coding	KNOWN	None	2380	597	198	82940360	82970127	-1	CRTL1	None
5	HAPLN1	ENSG00000145681	ENST00000503117	protein_coding	KNOWN	None	2380	547	181	82940407	82969363	-1	CRTL1	None
5	HAPLN1	ENSG00000145681	ENST00000504713	protein_coding	KNOWN	None	2380	474	157	82940483	82970632	-1	CRTL1	None
5	HAPLN1	ENSG00000145681	ENST00000514416	protein_coding	PUTATIVE	None	2380	486	161	82947839	82978357	-1	CRTL1	None
5	HAPLN1	ENSG00000145681	ENST00000515590	protein_coding	KNOWN	None	2380	459	152	82948285	83016632	-1	CRTL1	None
16	None	ENSG00000262703	ENST00000574681	antisense	KNOWN	None	None	None	None	11442000	11443178	-1	None	None
14	RD3L	ENSG00000227729	ENST00000557640	protein_coding	KNOWN	CCDS58338	40912	597	198	104406763	104408645	-1	TDRD9-AS1	TDRD9AS1
14	RD3L	ENSG00000227729	ENST00000455348	protein_coding	KNOWN	CCDS58338	40912	597	198	104406765	104408032	-1	TDRD9-AS1	TDRD9AS1
2	None	ENSG00000220256	ENST00000407524	protein_coding	PUTATIVE	None	None	177	58	240684554	240724577	1	None	None
10	CTGLF8P	ENSG00000243289	ENST00000417888	unprocessed_pseudogene	KNOWN	None	23461	None	None	46717127	46733073	-1	None	bA556L1.5
20	None	ENSG00000225106	ENST00000447909	antisense	KNOWN	None	None	None	None	60313275	60330112	-1	None	None
20	None	ENSG00000225106	ENST00000442888	antisense	KNOWN	None	None	None	None	60313919	60330081	-1	None	None
6	None	ENSG00000216663	ENST00000404237	processed_pseudogene	KNOWN	None	None	None	None	112646955	112647951	-1	None	None
16	None	ENSG00000238774	ENST00000458885	miRNA	NOVEL	None	None	None	None	11442584	11442653	1	None	None
7	None	ENSG00000239622	ENST00000466070	processed_pseudogene	KNOWN	None	None	None	None	25729200	25729579	-1	None	None
6	None	ENSG00000219773	ENST00000401872	processed_pseudogene	KNOWN	None	None	None	None	112677043	112677916	-1	None	None
HSCHR6_MHC_MCF	PSORS1C1	ENSG00000233734	ENST00000491367	processed_transcript	KNOWN	None	17202	None	None	31161055	31165122	1	C6orf16	SEEK1
HSCHR6_MHC_MCF	PSORS1C1	ENSG00000233734	ENST00000491077	processed_transcript	KNOWN	None	17202	None	None	31161130	31163601	1	C6orf16	SEEK1
HSCHR6_MHC_MCF	PSORS1C1	ENSG00000233734	ENST00000433334	protein_coding	KNOWN	None	17202	459	152	31161136	31186363	1	C6orf16	SEEK1
HSCHR6_MHC_MCF	PSORS1C1	ENSG00000233734	ENST00000498583	processed_transcript	KNOWN	None	17202	None	None	31161136	31186363	1	C6orf16	SEEK1
HSCHR6_MHC_MCF	PSORS1C1	ENSG00000233734	ENST00000497823	processed_transcript	KNOWN	None	17202	None	None	31184684	31186363	1	C6orf16	SEEK1
5	None	ENSG00000249112	ENST00000515092	lincRNA	KNOWN	None	None	None	None	124043520	124046430	1	None	None
9	TLN1	ENSG00000137076	ENST00000314888	protein_coding	KNOWN	CCDS35009	11845	7626	2541	35696945	35732392	-1	TLN	ILWEQ
9	TLN1	ENSG00000137076	ENST00000489255	processed_transcript	KNOWN	None	11845	None	None	35698041	35699325	-1	TLN	ILWEQ
9	TLN1	ENSG00000137076	ENST00000464379	processed_transcript	KNOWN	None	11845	None	None	35703556	35707871	-1	TLN	ILWEQ
9	TLN1	ENSG00000137076	ENST00000466916	retained_intron	KNOWN	None	11845	None	None	35703557	35704190	-1	TLN	ILWEQ
9	TLN1	ENSG00000137076	ENST00000465002	retained_intron	KNOWN	None	11845	None	None	35703780	35704412	-1	TLN	ILWEQ
9	TLN1	ENSG00000137076	ENST00000486788	retained_intron	KNOWN	None	11845	None	None	35704320	35706195	-1	TLN	ILWEQ
9	TLN1	ENSG00000137076	ENST00000495712	processed_transcript	KNOWN	None	11845	None	None	35707353	35707964	-1	TLN	ILWEQ
9	TLN1	ENSG00000137076	ENST00000378192	retained_intron	KNOWN	None	11845	None	None	35723101	35732101	-1	TLN	ILWEQ
9	TLN1	ENSG00000137076	ENST00000540444	protein_coding	KNOWN	None	11845	7290	2429	35697334	35732392	-1	TLN	ILWEQ
12	ATF7IP	ENSG00000171681	ENST00000539659	processed_transcript	KNOWN	None	20092	None	None	14518610	14613501	1	None	FLJ10688, p621
12	ATF7IP	ENSG00000171681	ENST00000537653	retained_intron	KNOWN	None	20092	None	None	14518611	14629366	1	None	FLJ10688, p621
12	ATF7IP	ENSG00000171681	ENST00000538511	protein_coding	PUTATIVE	None	20092	289	95	14518618	14599964	1	None	FLJ10688, p621
12	ATF7IP	ENSG00000171681	ENST00000545723	protein_coding	PUTATIVE	None	20092	430	142	14518622	14591181	1	None	FLJ10688, p621
12	ATF7IP	ENSG00000171681	ENST00000543189	protein_coding	KNOWN	None	20092	3318	1105	14518627	14635024	1	None	FLJ10688, p621
12	ATF7IP	ENSG00000171681	ENST00000536444	protein_coding	PUTATIVE	None	20092	3810	1269	14518663	14651473	1	None	FLJ10688, p621
12	ATF7IP	ENSG00000171681	ENST00000542967	protein_coding	KNOWN	None	20092	528	175	14520258	14577377	1	None	FLJ10688, p621
12	ATF7IP	ENSG00000171681	ENST00000534828	protein_coding	KNOWN	None	20092	456	151	14520297	14577305	1	None	FLJ10688, p621
12	ATF7IP	ENSG00000171681	ENST00000535132	protein_coding	KNOWN	None	20092	309	102	14520307	14577158	1	None	FLJ10688, p621
12	ATF7IP	ENSG00000171681	ENST00000544627	protein_coding	PUTATIVE	None	20092	3837	1278	14537998	14651697	1	None	FLJ10688, p621
12	ATF7IP	ENSG00000171681	ENST00000541654	processed_transcript	KNOWN	None	20092	None	None	14538250	14613955	1	None	FLJ10688, p621
12	ATF7IP	ENSG00000171681	ENST00000542991	protein_coding	KNOWN	None	20092	177	58	14547797	14577026	1	None	FLJ10688, p621
12	ATF7IP	ENSG00000171681	ENST00000541056	protein_coding	KNOWN	None	20092	508	168	14561424	14577357	1	None	FLJ10688, p621
12	ATF7IP	ENSG00000171681	ENST00000539057	protein_coding	KNOWN	None	20092	530	175	14569847	14577379	1	None	FLJ10688, p621
12	ATF7IP	ENSG00000171681	ENST00000545769	protein_coding	KNOWN	None	20092	506	167	14572070	14577355	1	None	FLJ10688, p621
12	ATF7IP	ENSG00000171681	ENST00000428217	protein_coding	KNOWN	None	20092	376	124	14572098	14577225	1	None	FLJ10688, p621
12	ATF7IP	ENSG00000171681	ENST00000396279	protein_coding	KNOWN	None	20092	1546	514	14572122	14578395	1	None	FLJ10688, p621
12	ATF7IP	ENSG00000171681	ENST00000542514	protein_coding	KNOWN	None	20092	397	131	14572127	14577246	1	None	FLJ10688, p621
12	ATF7IP	ENSG00000171681	ENST00000536279	protein_coding	KNOWN	None	20092	268	88	14572145	14577117	1	None	FLJ10688, p621
12	ATF7IP	ENSG00000171681	ENST00000542508	protein_coding	KNOWN	None	20092	97	31	14572905	14576946	1	None	FLJ10688, p621
12	ATF7IP	ENSG00000171681	ENST00000540793	protein_coding	KNOWN	CCDS8663	20092	3813	1270	14576695	14651181	1	None	FLJ10688, p621
12	ATF7IP	ENSG00000171681	ENST00000535179	retained_intron	KNOWN	None	20092	None	None	14619044	14629088	1	None	FLJ10688, p621
12	ATF7IP	ENSG00000171681	ENST00000535738	protein_coding	PUTATIVE	None	20092	346	114	14631270	14634840	1	None	FLJ10688, p621
12	ATF7IP	ENSG00000171681	ENST00000261168	protein_coding	KNOWN	CCDS8663	20092	3813	1270	14518616	14651697	1	None	FLJ10688, p621
8	ZFHX4-AS1	ENSG00000253661	ENST00000522961	antisense	KNOWN	None	44165	None	None	77403435	77595391	-1	None	None
8	ZFHX4-AS1	ENSG00000253661	ENST00000518143	antisense	KNOWN	None	44165	None	None	77523116	77595513	-1	None	None
8	ZFHX4-AS1	ENSG00000253661	ENST00000521894	antisense	KNOWN	None	44165	None	None	77523611	77527556	-1	None	None
8	ZFHX4-AS1	ENSG00000253661	ENST00000522357	antisense	KNOWN	None	44165	None	None	77523909	77527263	-1	None	None
8	ZFHX4-AS1	ENSG00000253661	ENST00000523977	antisense	KNOWN	None	44165	None	None	77527427	77528676	-1	None	None
X	RNA5SP501	ENSG00000222922	ENST00000410990	rRNA	KNOWN	None	43401	None	None	32120182	32120293	1	RN5S501	None
10	BMS1P1	ENSG00000204177	ENST00000445221	processed_transcript	KNOWN	None	23649	None	None	46737612	46761205	-1	BMS1LP1	bA556L1.3, OTTHUMG00000018098
10	BMS1P1	ENSG00000204177	ENST00000374336	transcribed_unprocessed_pseudogene	KNOWN	None	23649	None	None	46749775	46761198	-1	BMS1LP1	bA556L1.3, OTTHUMG00000018098
16	None	ENSG00000262636	ENST00000574976	processed_pseudogene	KNOWN	None	None	None	None	11474716	11474975	-1	None	None
16	HBQ1	ENSG00000086506	ENST00000199708	protein_coding	KNOWN	CCDS10400	4833	429	142	230452	231180	1	None	None
X	NPM1P8	ENSG00000236285	ENST00000458237	processed_pseudogene	KNOWN	None	7928	None	None	32224019	32224855	1	None	None
5	None	ENSG00000250206	ENST00000512050	antisense	KNOWN	None	None	None	None	124064524	124065086	1	None	None
16	None	ENSG00000221226	ENST00000408299	miRNA	NOVEL	None	None	None	None	77744198	77744281	1	None	None
7	None	ENSG00000270933	ENST00000602992	lincRNA	KNOWN	None	None	None	None	25988277	25989023	-1	None	None
16	None	ENSG00000262999	ENST00000572950	antisense	KNOWN	None	None	None	None	11559116	11567030	1	None	None
X	MIR3915	ENSG00000263600	ENST00000578518	miRNA	KNOWN	None	38955	None	None	32601773	32601869	-1	None	hsa-mir-3915
16	None	ENSG00000261707	ENST00000563690	antisense	KNOWN	None	None	None	None	77775365	77776897	-1	None	None
5	None	ENSG00000250530	ENST00000502467	antisense	KNOWN	None	None	None	None	124065403	124065848	1	None	None
16	None	ENSG00000272310	ENST00000605889	snoRNA	NOVEL	None	None	None	None	11561497	11561585	1	None	None
5	None	ENSG00000251274	ENST00000515136	antisense	KNOWN	None	None	None	None	124068940	124069465	1	None	None
19	None	ENSG00000269321	ENST00000594589	antisense	KNOWN	None	None	None	None	48649165	48650670	1	None	None
16	RN7SL522P	ENSG00000265731	ENST00000578135	misc_RNA	KNOWN	None	46538	None	None	11571888	11572132	1	None	None
6	ABRACL	ENSG00000146386	ENST00000367660	protein_coding	KNOWN	CCDS43509	21230	246	81	139349819	139364439	1	C6orf115	PRO2013, HSPC280, Costars
6	ABRACL	ENSG00000146386	ENST00000461027	protein_coding	KNOWN	None	21230	204	67	139349979	139355713	1	C6orf115	PRO2013, HSPC280, Costars
17	ABCA6	ENSG00000154262	ENST00000284425	protein_coding	KNOWN	CCDS11683	36	4854	1617	67074843	67138015	-1	None	EST155051
17	ABCA6	ENSG00000154262	ENST00000446604	processed_transcript	KNOWN	None	36	None	None	67075058	67094733	-1	None	EST155051
17	ABCA6	ENSG00000154262	ENST00000589482	retained_intron	KNOWN	None	36	None	None	67081795	67083759	-1	None	EST155051
17	ABCA6	ENSG00000154262	ENST00000590311	retained_intron	KNOWN	None	36	None	None	67100053	67111583	-1	None	EST155051
17	ABCA6	ENSG00000154262	ENST00000589803	retained_intron	KNOWN	None	36	None	None	67101632	67114129	-1	None	EST155051
17	ABCA6	ENSG00000154262	ENST00000592493	processed_transcript	KNOWN	None	36	None	None	67110921	67112055	-1	None	EST155051
17	ABCA6	ENSG00000154262	ENST00000590645	protein_coding	KNOWN	None	36	558	185	67131371	67138029	-1	None	EST155051
16	None	ENSG00000262420	ENST00000572811	antisense	KNOWN	None	None	None	None	11835766	11838362	1	None	None
16	None	ENSG00000262420	ENST00000593864	antisense	KNOWN	None	None	None	None	11835766	11838361	1	None	None
14	TRAV26-2	ENSG00000211812	ENST00000390460	TR_V_gene	KNOWN	None	12124	327	108	22670477	22671262	1	None	TRAV262, TCRAV4S1, TCRAV26S2
15	None	ENSG00000259504	ENST00000558269	lincRNA	KNOWN	None	None	None	None	69571014	69580903	1	None	None
15	None	ENSG00000259504	ENST00000558454	lincRNA	KNOWN	None	None	None	None	69576501	69587661	1	None	None
22	None	ENSG00000235578	ENST00000458154	lincRNA	KNOWN	None	None	None	None	20330726	20331888	-1	None	None
5	None	ENSG00000251456	ENST00000507630	sense_intronic	KNOWN	None	None	None	None	124070311	124070868	-1	None	None
10	BCCIP	ENSG00000107949	ENST00000278100	protein_coding	KNOWN	CCDS7651	978	945	314	127512115	127525122	1	None	BCCIPalpha, TOK-1
10	BCCIP	ENSG00000107949	ENST00000299130	protein_coding	KNOWN	CCDS7650	978	879	292	127512115	127531375	1	None	BCCIPalpha, TOK-1
10	BCCIP	ENSG00000107949	ENST00000368759	protein_coding	KNOWN	CCDS7649	978	969	322	127512115	127542264	1	None	BCCIPalpha, TOK-1
10	BCCIP	ENSG00000107949	ENST00000463330	processed_transcript	KNOWN	None	978	None	None	127512179	127520219	1	None	BCCIPalpha, TOK-1
10	BCCIP	ENSG00000107949	ENST00000478798	processed_transcript	KNOWN	None	978	None	None	127514063	127520106	1	None	BCCIPalpha, TOK-1
10	BCCIP	ENSG00000107949	ENST00000429863	protein_coding	KNOWN	None	978	789	262	127512115	127530506	1	None	BCCIPalpha, TOK-1
1	GLMN	ENSG00000174842	ENST00000370360	protein_coding	KNOWN	CCDS738	14373	1785	594	92711959	92764533	-1	VMGLOM	FAP48, GLML, GVM, FKBPAP
1	GLMN	ENSG00000174842	ENST00000495106	nonsense_mediated_decay	KNOWN	None	14373	1254	417	92712047	92764544	-1	VMGLOM	FAP48, GLML, GVM, FKBPAP
1	GLMN	ENSG00000174842	ENST00000471465	retained_intron	KNOWN	None	14373	None	None	92712049	92713965	-1	VMGLOM	FAP48, GLML, GVM, FKBPAP
1	GLMN	ENSG00000174842	ENST00000495852	protein_coding	PUTATIVE	None	14373	894	297	92712619	92752049	-1	VMGLOM	FAP48, GLML, GVM, FKBPAP
1	GLMN	ENSG00000174842	ENST00000463560	protein_coding	NOVEL	None	14373	734	243	92728422	92752149	-1	VMGLOM	FAP48, GLML, GVM, FKBPAP
1	GLMN	ENSG00000174842	ENST00000487911	retained_intron	KNOWN	None	14373	None	None	92763078	92764544	-1	VMGLOM	FAP48, GLML, GVM, FKBPAP
1	GLMN	ENSG00000174842	ENST00000534881	protein_coding	KNOWN	None	14373	1743	580	92711960	92764544	-1	VMGLOM	FAP48, GLML, GVM, FKBPAP
1	UCK2	ENSG00000143179	ENST00000367879	protein_coding	KNOWN	CCDS1252	12562	786	261	165796768	165877346	1	UMPK	None
1	UCK2	ENSG00000143179	ENST00000462329	processed_transcript	KNOWN	None	12562	None	None	165861889	165877337	1	UMPK	None
1	UCK2	ENSG00000143179	ENST00000464197	processed_transcript	KNOWN	None	12562	None	None	165863403	165877027	1	UMPK	None
1	UCK2	ENSG00000143179	ENST00000469256	processed_transcript	KNOWN	None	12562	None	None	165864813	165877311	1	UMPK	None
1	UCK2	ENSG00000143179	ENST00000470820	processed_transcript	KNOWN	None	12562	None	None	165864822	165877108	1	UMPK	None
1	UCK2	ENSG00000143179	ENST00000463772	processed_transcript	KNOWN	None	12562	None	None	165867216	165877346	1	UMPK	None
1	UCK2	ENSG00000143179	ENST00000479872	processed_transcript	KNOWN	None	12562	None	None	165871832	165880855	1	UMPK	None
1	UCK2	ENSG00000143179	ENST00000475333	processed_transcript	KNOWN	None	12562	None	None	165873303	165877185	1	UMPK	None
1	UCK2	ENSG00000143179	ENST00000372212	protein_coding	KNOWN	None	12562	393	130	165797059	165877607	1	UMPK	None
11	KCNJ5	ENSG00000120457	ENST00000529694	protein_coding	KNOWN	CCDS8479	6266	1260	419	128761251	128790930	1	None	Kir3.4, CIR, KATP1, GIRK4, LQT13
11	KCNJ5	ENSG00000120457	ENST00000338350	protein_coding	PUTATIVE	CCDS8479	6266	1260	419	128761364	128786748	1	None	Kir3.4, CIR, KATP1, GIRK4, LQT13
11	KCNJ5	ENSG00000120457	ENST00000533599	protein_coding	PUTATIVE	CCDS8479	6266	1260	419	128781079	128786626	1	None	Kir3.4, CIR, KATP1, GIRK4, LQT13
16	CREBBP	ENSG00000005339	ENST00000262367	protein_coding	KNOWN	CCDS10509	2348	7329	2442	3775055	3930727	-1	RSTS	RTS, CBP, KAT3A
16	CREBBP	ENSG00000005339	ENST00000382070	protein_coding	KNOWN	CCDS45399	2348	7215	2404	3777540	3930121	-1	RSTS	RTS, CBP, KAT3A
16	CREBBP	ENSG00000005339	ENST00000571763	retained_intron	KNOWN	None	2348	None	None	3781909	3787000	-1	RSTS	RTS, CBP, KAT3A
16	CREBBP	ENSG00000005339	ENST00000576720	retained_intron	KNOWN	None	2348	None	None	3781912	3793469	-1	RSTS	RTS, CBP, KAT3A
16	CREBBP	ENSG00000005339	ENST00000574740	retained_intron	KNOWN	None	2348	None	None	3786509	3794958	-1	RSTS	RTS, CBP, KAT3A
16	CREBBP	ENSG00000005339	ENST00000573517	protein_coding	PUTATIVE	None	2348	588	195	3789447	3801809	-1	RSTS	RTS, CBP, KAT3A
16	CREBBP	ENSG00000005339	ENST00000570939	protein_coding	NOVEL	None	2348	864	287	3789615	3817833	-1	RSTS	RTS, CBP, KAT3A
16	CREBBP	ENSG00000005339	ENST00000572569	retained_intron	KNOWN	None	2348	None	None	3790444	3795655	-1	RSTS	RTS, CBP, KAT3A
16	CREBBP	ENSG00000005339	ENST00000573672	retained_intron	KNOWN	None	2348	None	None	3817303	3820704	-1	RSTS	RTS, CBP, KAT3A
16	CREBBP	ENSG00000005339	ENST00000571826	protein_coding	PUTATIVE	None	2348	545	180	3823637	3828173	-1	RSTS	RTS, CBP, KAT3A
16	CREBBP	ENSG00000005339	ENST00000572134	protein_coding	PUTATIVE	None	2348	764	253	3823637	3830868	-1	RSTS	RTS, CBP, KAT3A
16	CREBBP	ENSG00000005339	ENST00000575237	retained_intron	KNOWN	None	2348	None	None	3823741	3824747	-1	RSTS	RTS, CBP, KAT3A
15	None	ENSG00000221376	ENST00000408449	snoRNA	NOVEL	None	None	None	None	69617632	69617759	-1	None	None
15	RNU6-1186P	ENSG00000222361	ENST00000410429	snRNA	KNOWN	None	48149	None	None	98617896	98617992	-1	None	None
15	RNA5SP398	ENSG00000252972	ENST00000517163	rRNA	KNOWN	None	43298	None	None	69659924	69660020	1	RN5S398	None
9	VAV2	ENSG00000160293	ENST00000406606	protein_coding	KNOWN	CCDS6979	12658	2520	839	136627016	136857403	-1	None	None
9	VAV2	ENSG00000160293	ENST00000371850	protein_coding	KNOWN	CCDS48053	12658	2637	878	136627016	136857432	-1	None	None
9	VAV2	ENSG00000160293	ENST00000371851	protein_coding	KNOWN	None	12658	2607	868	136627016	136857726	-1	None	None
9	VAV2	ENSG00000160293	ENST00000486113	processed_transcript	KNOWN	None	12658	None	None	136726334	136857381	-1	None	None
9	VAV2	ENSG00000160293	ENST00000472905	processed_transcript	KNOWN	None	12658	None	None	136790973	136804423	-1	None	None
15	None	ENSG00000259611	ENST00000561215	lincRNA	KNOWN	None	None	None	None	98628856	98632038	-1	None	None
15	None	ENSG00000259611	ENST00000560195	lincRNA	KNOWN	None	None	None	None	98628922	98646941	-1	None	None
15	None	ENSG00000259645	ENST00000560870	sense_intronic	KNOWN	None	None	None	None	69683531	69684488	1	None	None
1	ZBTB40	ENSG00000184677	ENST00000400239	protein_coding	KNOWN	None	29045	1360	452	22778360	22832734	1	None	KIAA0478, ZNF923
1	ZBTB40	ENSG00000184677	ENST00000375647	protein_coding	KNOWN	CCDS224	29045	3720	1239	22778360	22857647	1	None	KIAA0478, ZNF923
1	ZBTB40	ENSG00000184677	ENST00000404138	protein_coding	KNOWN	CCDS224	29045	3720	1239	22778344	22857650	1	None	KIAA0478, ZNF923
1	ZBTB40	ENSG00000184677	ENST00000374651	protein_coding	KNOWN	None	29045	3384	1127	22778472	22853855	1	None	KIAA0478, ZNF923
Y	OFD1P5Y	ENSG00000240438	ENST00000447585	unprocessed_pseudogene	KNOWN	None	23877	None	None	20743949	20790963	-1	OFDYP5, OFD1P5, OFD1PY5	None
15	None	ENSG00000259266	ENST00000561045	processed_pseudogene	KNOWN	None	None	None	None	98661400	98661549	1	None	None
17	PSMC3IP	ENSG00000131470	ENST00000393795	protein_coding	KNOWN	CCDS45688	17928	654	217	40724333	40729813	-1	None	TBPIP, GT198, HUMGT198A
17	PSMC3IP	ENSG00000131470	ENST00000253789	protein_coding	KNOWN	CCDS11431	17928	618	205	40724341	40729849	-1	None	TBPIP, GT198, HUMGT198A
17	PSMC3IP	ENSG00000131470	ENST00000587209	protein_coding	PUTATIVE	CCDS59289	17928	465	154	40724361	40729715	-1	None	TBPIP, GT198, HUMGT198A
17	PSMC3IP	ENSG00000131470	ENST00000586337	nonsense_mediated_decay	KNOWN	None	17928	255	84	40724914	40729706	-1	None	TBPIP, GT198, HUMGT198A
17	PSMC3IP	ENSG00000131470	ENST00000590760	protein_coding	PUTATIVE	None	17928	279	92	40724980	40729714	-1	None	TBPIP, GT198, HUMGT198A
17	PSMC3IP	ENSG00000131470	ENST00000589505	retained_intron	KNOWN	None	17928	None	None	40724980	40729813	-1	None	TBPIP, GT198, HUMGT198A
17	PSMC3IP	ENSG00000131470	ENST00000588544	nonsense_mediated_decay	KNOWN	None	17928	258	85	40724980	40729813	-1	None	TBPIP, GT198, HUMGT198A
17	PSMC3IP	ENSG00000131470	ENST00000590931	nonsense_mediated_decay	KNOWN	None	17928	351	116	40724980	40729813	-1	None	TBPIP, GT198, HUMGT198A
17	PSMC3IP	ENSG00000131470	ENST00000587268	retained_intron	KNOWN	None	17928	None	None	40728695	40729690	-1	None	TBPIP, GT198, HUMGT198A
15	None	ENSG00000259426	ENST00000560539	antisense	KNOWN	None	None	None	None	69689243	69707368	-1	None	None
15	None	ENSG00000259426	ENST00000558617	antisense	KNOWN	None	None	None	None	69689243	69707368	-1	None	None
15	None	ENSG00000259426	ENST00000558107	antisense	KNOWN	None	None	None	None	69696184	69706559	-1	None	None
2	MAP4K4	ENSG00000071054	ENST00000427603	protein_coding	KNOWN	None	6866	306	101	102313312	102440515	1	None	HGK, NIK, FLH21957
2	MAP4K4	ENSG00000071054	ENST00000425019	protein_coding	NOVEL	None	6866	3819	1272	102314206	102507958	1	None	HGK, NIK, FLH21957
2	MAP4K4	ENSG00000071054	ENST00000413150	protein_coding	NOVEL	None	6866	3465	1154	102314488	102511149	1	None	HGK, NIK, FLH21957
2	MAP4K4	ENSG00000071054	ENST00000347699	protein_coding	KNOWN	CCDS56130	6866	3720	1239	102314543	102507783	1	None	HGK, NIK, FLH21957
2	MAP4K4	ENSG00000071054	ENST00000456652	protein_coding	NOVEL	None	6866	3117	1038	102314543	102508449	1	None	HGK, NIK, FLH21957
2	MAP4K4	ENSG00000071054	ENST00000417294	protein_coding	NOVEL	None	6866	3513	1170	102314992	102508449	1	None	HGK, NIK, FLH21957
2	MAP4K4	ENSG00000071054	ENST00000496989	processed_transcript	KNOWN	None	6866	None	None	102413696	102448278	1	None	HGK, NIK, FLH21957
2	MAP4K4	ENSG00000071054	ENST00000489490	retained_intron	KNOWN	None	6866	None	None	102441781	102446216	1	None	HGK, NIK, FLH21957
2	MAP4K4	ENSG00000071054	ENST00000476609	retained_intron	KNOWN	None	6866	None	None	102441864	102478702	1	None	HGK, NIK, FLH21957
2	MAP4K4	ENSG00000071054	ENST00000421882	protein_coding	NOVEL	None	6866	3169	1055	102456290	102507958	1	None	HGK, NIK, FLH21957
2	MAP4K4	ENSG00000071054	ENST00000418101	protein_coding	PUTATIVE	None	6866	776	257	102472439	102481465	1	None	HGK, NIK, FLH21957
2	MAP4K4	ENSG00000071054	ENST00000477711	retained_intron	KNOWN	None	6866	None	None	102482955	102484192	1	None	HGK, NIK, FLH21957
2	MAP4K4	ENSG00000071054	ENST00000498066	processed_transcript	KNOWN	None	6866	None	None	102483998	102487095	1	None	HGK, NIK, FLH21957
2	MAP4K4	ENSG00000071054	ENST00000491743	retained_intron	KNOWN	None	6866	None	None	102484318	102486547	1	None	HGK, NIK, FLH21957
2	MAP4K4	ENSG00000071054	ENST00000324219	protein_coding	KNOWN	None	6866	3963	1320	102314469	102507790	1	None	HGK, NIK, FLH21957
2	MAP4K4	ENSG00000071054	ENST00000350198	protein_coding	KNOWN	None	6866	3501	1166	102314469	102507790	1	None	HGK, NIK, FLH21957
2	MAP4K4	ENSG00000071054	ENST00000302217	protein_coding	KNOWN	None	6866	3129	1042	102314469	102507790	1	None	HGK, NIK, FLH21957
2	MAP4K4	ENSG00000071054	ENST00000350878	protein_coding	KNOWN	None	6866	3840	1279	102413726	102507790	1	None	HGK, NIK, FLH21957
15	None	ENSG00000259320	ENST00000559643	lincRNA	KNOWN	None	None	None	None	98665792	98674836	-1	None	None
4	None	ENSG00000248479	ENST00000503625	lincRNA	KNOWN	None	None	None	None	66567920	66571271	1	None	None
15	None	ENSG00000259041	ENST00000557499	lincRNA	KNOWN	None	None	None	None	98825304	98829136	1	None	None
8	C8orf74	ENSG00000171060	ENST00000304519	protein_coding	KNOWN	CCDS47800	32296	885	294	10530147	10558103	1	None	None
8	C8orf74	ENSG00000171060	ENST00000524025	processed_transcript	KNOWN	None	32296	None	None	10530163	10537509	1	None	None
8	C8orf74	ENSG00000171060	ENST00000517414	processed_transcript	KNOWN	None	32296	None	None	10530163	10545994	1	None	None
8	C8orf74	ENSG00000171060	ENST00000523723	nonsense_mediated_decay	KNOWN	None	32296	300	99	10530163	10547266	1	None	None
8	C8orf74	ENSG00000171060	ENST00000523289	nonsense_mediated_decay	KNOWN	None	32296	300	99	10530171	10558100	1	None	None
8	C8orf74	ENSG00000171060	ENST00000521818	protein_coding	PUTATIVE	None	32296	298	98	10530181	10550481	1	None	None
8	C8orf74	ENSG00000171060	ENST00000519925	processed_transcript	KNOWN	None	32296	None	None	10532156	10533348	1	None	None
6	HCRTR2	ENSG00000137252	ENST00000370862	protein_coding	KNOWN	CCDS4956	4849	1335	444	55039050	55147418	1	None	OX2R
14	TRAV34	ENSG00000211813	ENST00000390461	TR_V_gene	KNOWN	None	12133	337	111	22675418	22676025	1	None	TCRAV26S1, TCRAV34S1
17	TNFSF13	ENSG00000161955	ENST00000483039	protein_coding	PUTATIVE	None	11928	345	114	7461609	7464609	1	None	APRIL, CD256
17	TNFSF13	ENSG00000161955	ENST00000396542	protein_coding	KNOWN	CCDS56019	11928	618	205	7461610	7464152	1	None	APRIL, CD256
17	TNFSF13	ENSG00000161955	ENST00000438470	protein_coding	PUTATIVE	None	11928	450	149	7461617	7463711	1	None	APRIL, CD256
17	TNFSF13	ENSG00000161955	ENST00000436057	protein_coding	PUTATIVE	None	11928	476	157	7461619	7463689	1	None	APRIL, CD256
17	TNFSF13	ENSG00000161955	ENST00000349228	protein_coding	KNOWN	CCDS11112	11928	705	234	7461793	7464917	1	None	APRIL, CD256
17	TNFSF13	ENSG00000161955	ENST00000338784	protein_coding	KNOWN	CCDS11111	11928	753	250	7461914	7464925	1	None	APRIL, CD256
17	TNFSF13	ENSG00000161955	ENST00000396545	protein_coding	KNOWN	CCDS42256	11928	744	247	7462104	7464918	1	None	APRIL, CD256
17	TNFSF13	ENSG00000161955	ENST00000380535	protein_coding	KNOWN	CCDS56018	11928	669	222	7462076	7464384	1	None	APRIL, CD256
4	RNU2-40P	ENSG00000222765	ENST00000410833	snRNA	KNOWN	None	48533	None	None	66672958	66673153	-1	None	None
14	None	ENSG00000258919	ENST00000553270	lincRNA	KNOWN	None	None	None	None	102095321	102098867	-1	None	None
4	None	ENSG00000251527	ENST00000507344	lincRNA	KNOWN	None	None	None	None	66724479	66725922	1	None	None
3	MRPL47	ENSG00000136522	ENST00000476781	protein_coding	KNOWN	CCDS3232	16652	753	250	179306073	179322442	-1	None	CGI-204, NCM1
3	MRPL47	ENSG00000136522	ENST00000259038	protein_coding	KNOWN	None	16652	693	230	179306243	179322428	-1	None	CGI-204, NCM1
3	MRPL47	ENSG00000136522	ENST00000392659	protein_coding	KNOWN	CCDS3233	16652	423	140	179306619	179322437	-1	None	CGI-204, NCM1
8	None	ENSG00000253681	ENST00000524269	sense_intronic	KNOWN	None	None	None	None	77488786	77491580	-1	None	None
HSCHR6_MHC_QBL	HLA-DRB3	ENSG00000196101	ENST00000307137	protein_coding	KNOWN	None	4951	801	266	32417557	32430644	-1	HLA-DR3B	None
14	None	ENSG00000258404	ENST00000557778	lincRNA	KNOWN	None	None	None	None	102100791	102197445	-1	None	None
X	MAP3K15	ENSG00000180815	ENST00000518578	processed_transcript	KNOWN	None	31689	None	None	19378174	19500394	-1	None	bA723P2.3, FLJ16518
X	MAP3K15	ENSG00000180815	ENST00000359173	protein_coding	PUTATIVE	None	31689	2247	748	19378176	19478245	-1	None	bA723P2.3, FLJ16518
X	MAP3K15	ENSG00000180815	ENST00000470101	retained_intron	KNOWN	None	31689	None	None	19378178	19391296	-1	None	bA723P2.3, FLJ16518
X	MAP3K15	ENSG00000180815	ENST00000469203	protein_coding	PUTATIVE	None	31689	3438	1145	19378797	19504642	-1	None	bA723P2.3, FLJ16518
X	MAP3K15	ENSG00000180815	ENST00000338883	protein_coding	KNOWN	None	31689	3942	1313	19378174	19533379	-1	None	bA723P2.3, FLJ16518
8	MRPL9P1	ENSG00000254305	ENST00000520744	transcribed_processed_pseudogene	KNOWN	None	29726	None	None	77515475	77516087	-1	None	None
15	LRRC49	ENSG00000137821	ENST00000544974	protein_coding	PUTATIVE	None	25965	2031	676	71145578	71341973	1	None	FLJ20156
15	LRRC49	ENSG00000137821	ENST00000558799	processed_transcript	KNOWN	None	25965	None	None	71145717	71197039	1	None	FLJ20156
15	LRRC49	ENSG00000137821	ENST00000558546	protein_coding	PUTATIVE	None	25965	91	29	71145717	71203928	1	None	FLJ20156
15	LRRC49	ENSG00000137821	ENST00000561081	nonsense_mediated_decay	KNOWN	None	25965	225	74	71184782	71342410	1	None	FLJ20156
15	LRRC49	ENSG00000137821	ENST00000559201	nonsense_mediated_decay	KNOWN	None	25965	189	62	71184810	71197010	1	None	FLJ20156
15	LRRC49	ENSG00000137821	ENST00000560107	nonsense_mediated_decay	KNOWN	None	25965	204	67	71184934	71342414	1	None	FLJ20156
15	LRRC49	ENSG00000137821	ENST00000560369	protein_coding	NOVEL	CCDS58376	25965	2076	691	71184965	71342192	1	None	FLJ20156
15	LRRC49	ENSG00000137821	ENST00000260382	protein_coding	KNOWN	CCDS32282	25965	2061	686	71184974	71342414	1	None	FLJ20156
15	LRRC49	ENSG00000137821	ENST00000559670	nonsense_mediated_decay	KNOWN	None	25965	204	67	71185135	71211440	1	None	FLJ20156
15	LRRC49	ENSG00000137821	ENST00000558032	nonsense_mediated_decay	KNOWN	None	25965	189	62	71185184	71193290	1	None	FLJ20156
15	LRRC49	ENSG00000137821	ENST00000560755	protein_coding	PUTATIVE	None	25965	351	116	71185187	71193292	1	None	FLJ20156
15	LRRC49	ENSG00000137821	ENST00000560980	retained_intron	KNOWN	None	25965	None	None	71185188	71276891	1	None	FLJ20156
15	LRRC49	ENSG00000137821	ENST00000558204	nonsense_mediated_decay	KNOWN	None	25965	189	62	71185201	71197039	1	None	FLJ20156
15	LRRC49	ENSG00000137821	ENST00000557977	protein_coding	PUTATIVE	None	25965	63	20	71185579	71203900	1	None	FLJ20156
15	LRRC49	ENSG00000137821	ENST00000560691	protein_coding	PUTATIVE	None	25965	1179	392	71187878	71341973	1	None	FLJ20156
15	LRRC49	ENSG00000137821	ENST00000558271	retained_intron	KNOWN	None	25965	None	None	71187940	71196935	1	None	FLJ20156
15	LRRC49	ENSG00000137821	ENST00000436542	processed_transcript	KNOWN	None	25965	None	None	71187978	71341968	1	None	FLJ20156
15	LRRC49	ENSG00000137821	ENST00000558137	processed_transcript	KNOWN	None	25965	None	None	71194873	71256250	1	None	FLJ20156
15	LRRC49	ENSG00000137821	ENST00000561285	processed_transcript	KNOWN	None	25965	None	None	71199789	71256222	1	None	FLJ20156
15	LRRC49	ENSG00000137821	ENST00000559469	retained_intron	KNOWN	None	25965	None	None	71210546	71256278	1	None	FLJ20156
15	LRRC49	ENSG00000137821	ENST00000558456	protein_coding	PUTATIVE	None	25965	235	77	71228826	71276544	1	None	FLJ20156
15	LRRC49	ENSG00000137821	ENST00000560158	protein_coding	PUTATIVE	None	25965	1125	374	71228867	71342414	1	None	FLJ20156
15	LRRC49	ENSG00000137821	ENST00000558808	protein_coding	PUTATIVE	None	25965	288	95	71228874	71276597	1	None	FLJ20156
15	LRRC49	ENSG00000137821	ENST00000559806	protein_coding	PUTATIVE	None	25965	347	114	71228874	71300777	1	None	FLJ20156
15	LRRC49	ENSG00000137821	ENST00000559069	protein_coding	PUTATIVE	None	25965	273	90	71228874	71300787	1	None	FLJ20156
15	LRRC49	ENSG00000137821	ENST00000559685	retained_intron	KNOWN	None	25965	None	None	71228955	71300956	1	None	FLJ20156
15	LRRC49	ENSG00000137821	ENST00000559422	processed_transcript	KNOWN	None	25965	None	None	71272438	71302317	1	None	FLJ20156
15	LRRC49	ENSG00000137821	ENST00000561131	processed_transcript	KNOWN	None	25965	None	None	71341116	71342414	1	None	FLJ20156
15	LRRC49	ENSG00000137821	ENST00000443425	protein_coding	KNOWN	CCDS55971	25965	1929	642	71185171	71342410	1	None	FLJ20156
6	VNN3	ENSG00000093134	ENST00000367927	protein_coding	KNOWN	None	16431	825	274	133043926	133055904	-1	None	HSA238982
6	VNN3	ENSG00000093134	ENST00000425515	protein_coding	KNOWN	None	16431	354	117	133043928	133055904	-1	None	HSA238982
6	VNN3	ENSG00000093134	ENST00000509351	protein_coding	KNOWN	None	16431	390	129	133044065	133055831	-1	None	HSA238982
6	VNN3	ENSG00000093134	ENST00000417437	protein_coding	NOVEL	None	16431	486	161	133044065	133055831	-1	None	HSA238982
6	VNN3	ENSG00000093134	ENST00000414302	protein_coding	KNOWN	None	16431	402	133	133044065	133055831	-1	None	HSA238982
6	VNN3	ENSG00000093134	ENST00000423615	protein_coding	KNOWN	None	16431	390	129	133044065	133055831	-1	None	HSA238982
6	VNN3	ENSG00000093134	ENST00000427187	protein_coding	KNOWN	None	16431	624	207	133044065	133055831	-1	None	HSA238982
6	VNN3	ENSG00000093134	ENST00000275223	protein_coding	KNOWN	None	16431	354	117	133044065	133055831	-1	None	HSA238982
6	VNN3	ENSG00000093134	ENST00000519686	protein_coding	KNOWN	None	16431	354	117	133044065	133055831	-1	None	HSA238982
6	VNN3	ENSG00000093134	ENST00000392393	protein_coding	KNOWN	None	16431	444	147	133044065	133055904	-1	None	HSA238982
6	VNN3	ENSG00000093134	ENST00000450865	protein_coding	NOVEL	None	16431	510	169	133046060	133055904	-1	None	HSA238982
6	VNN3	ENSG00000093134	ENST00000544102	protein_coding	KNOWN	None	16431	181	59	133048133	133055472	-1	None	HSA238982
6	VNN3	ENSG00000093134	ENST00000580813	processed_transcript	KNOWN	None	16431	None	None	133050051	133051799	-1	None	HSA238982
6	VNN3	ENSG00000093134	ENST00000448644	retained_intron	KNOWN	None	16431	None	None	133054773	133055904	-1	None	HSA238982
6	VNN3	ENSG00000093134	ENST00000207771	protein_coding	KNOWN	None	16431	1503	500	133043928	133055904	-1	None	HSA238982
6	VNN3	ENSG00000093134	ENST00000392394	protein_coding	KNOWN	None	16431	444	147	133052567	133055904	-1	None	HSA238982
HSCHR6_MHC_SSTO	None	ENSG00000257670	ENST00000552988	protein_coding	NOVEL	None	None	212	69	31551176	31658141	1	None	None
3	PROS1	ENSG00000184500	ENST00000394236	protein_coding	KNOWN	CCDS2923	9456	2031	676	93591881	93692910	-1	PROS	None
3	PROS1	ENSG00000184500	ENST00000407433	protein_coding	PUTATIVE	None	9456	1638	545	93591953	93677598	-1	PROS	None
3	PROS1	ENSG00000184500	ENST00000348974	protein_coding	PUTATIVE	None	9456	693	230	93624632	93692706	-1	PROS	None
3	PROS1	ENSG00000184500	ENST00000472684	protein_coding	PUTATIVE	None	9456	168	55	93624668	93692483	-1	PROS	None
3	PROS1	ENSG00000184500	ENST00000488658	retained_intron	KNOWN	None	9456	None	None	93624884	93630001	-1	PROS	None
14	None	ENSG00000241494	ENST00000472981	processed_pseudogene	KNOWN	None	None	None	None	102144280	102144717	1	None	None
14	ASPG	ENSG00000166183	ENST00000551177	protein_coding	KNOWN	CCDS45170	20123	1722	573	104552016	104579098	1	C14orf76	None
14	ASPG	ENSG00000166183	ENST00000548372	retained_intron	KNOWN	None	20123	None	None	104552023	104573572	1	C14orf76	None
14	ASPG	ENSG00000166183	ENST00000546892	protein_coding	NOVEL	None	20123	1668	555	104552028	104578970	1	C14orf76	None
14	ASPG	ENSG00000166183	ENST00000551170	protein_coding	NOVEL	None	20123	377	124	104559828	104571719	1	C14orf76	None
14	ASPG	ENSG00000166183	ENST00000549809	processed_transcript	KNOWN	None	20123	None	None	104571266	104573570	1	C14orf76	None
14	ASPG	ENSG00000166183	ENST00000552126	processed_transcript	KNOWN	None	20123	None	None	104571299	104573556	1	C14orf76	None
14	ASPG	ENSG00000166183	ENST00000556267	processed_transcript	PUTATIVE	None	20123	None	None	104571320	104571681	1	C14orf76	None
14	ASPG	ENSG00000166183	ENST00000550583	protein_coding	KNOWN	None	20123	423	140	104573567	104578925	1	C14orf76	None
14	ASPG	ENSG00000166183	ENST00000551871	retained_intron	KNOWN	None	20123	None	None	104577958	104579045	1	C14orf76	None
14	ASPG	ENSG00000166183	ENST00000455920	protein_coding	KNOWN	None	20123	1740	579	104552048	104578925	1	C14orf76	None
15	None	ENSG00000207395	ENST00000384665	misc_RNA	NOVEL	None	None	None	None	69698780	69698891	1	None	None
14	None	ENSG00000259088	ENST00000554859	antisense	KNOWN	None	None	None	None	102262892	102276658	-1	None	None
14	TRAV35	ENSG00000211814	ENST00000390462	TR_V_gene	KNOWN	None	12134	330	109	22689792	22690371	1	None	TCRAV25S1, TCRAV35S1
7	PMS2P4	ENSG00000067601	ENST00000412466	transcribed_unprocessed_pseudogene	KNOWN	None	9129	None	None	66760595	66767894	-1	PMS2L4	PMS6
7	PMS2P4	ENSG00000067601	ENST00000414507	processed_transcript	KNOWN	None	9129	None	None	66760605	66767406	-1	PMS2L4	PMS6
7	PMS2P4	ENSG00000067601	ENST00000275546	unprocessed_pseudogene	KNOWN	None	9129	None	None	66752528	66767417	-1	PMS2L4	PMS6
HSCHR6_MHC_COX	None	ENSG00000225939	ENST00000434529	unprocessed_pseudogene	KNOWN	None	None	None	None	31266627	31267361	-1	None	None
5	None	ENSG00000222316	ENST00000410384	miRNA	NOVEL	None	None	None	None	76433792	76433901	1	None	None
5	HMGB1P35	ENSG00000251566	ENST00000503360	processed_pseudogene	KNOWN	None	39175	None	None	76442393	76442990	1	None	None
HSCHR6_MHC_SSTO	HLA-DQB1	ENSG00000231939	ENST00000414518	protein_coding	KNOWN	None	4944	786	261	32715138	32722385	-1	HLA-DQB	IDDM1, CELIAC1
HSCHR6_MHC_SSTO	HLA-DQB1	ENSG00000231939	ENST00000549367	protein_coding	KNOWN	None	4944	741	246	32716521	32722352	-1	HLA-DQB	IDDM1, CELIAC1
HSCHR6_MHC_SSTO	HLA-DQB1	ENSG00000231939	ENST00000548083	protein_coding	KNOWN	None	4944	540	179	32717363	32722352	-1	HLA-DQB	IDDM1, CELIAC1
19	REXO1	ENSG00000079313	ENST00000170168	protein_coding	KNOWN	CCDS32866	24616	3666	1221	1815248	1848452	-1	TCEB3BP1	EloA-BP1, KIAA1138
19	REXO1	ENSG00000079313	ENST00000587404	retained_intron	KNOWN	None	24616	None	None	1816038	1816386	-1	TCEB3BP1	EloA-BP1, KIAA1138
19	REXO1	ENSG00000079313	ENST00000586291	retained_intron	KNOWN	None	24616	None	None	1816093	1816764	-1	TCEB3BP1	EloA-BP1, KIAA1138
19	REXO1	ENSG00000079313	ENST00000590936	nonsense_mediated_decay	KNOWN	None	24616	485	160	1816428	1819962	-1	TCEB3BP1	EloA-BP1, KIAA1138
19	REXO1	ENSG00000079313	ENST00000588743	retained_intron	KNOWN	None	24616	None	None	1817178	1818734	-1	TCEB3BP1	EloA-BP1, KIAA1138
19	REXO1	ENSG00000079313	ENST00000586343	processed_transcript	KNOWN	None	24616	None	None	1818557	1821566	-1	TCEB3BP1	EloA-BP1, KIAA1138
19	REXO1	ENSG00000079313	ENST00000587524	processed_transcript	KNOWN	None	24616	None	None	1827647	1848445	-1	TCEB3BP1	EloA-BP1, KIAA1138
11	ANO9	ENSG00000185101	ENST00000526142	retained_intron	KNOWN	None	20679	None	None	417933	429758	-1	TP53I5, TMEM16J	PIG5
11	ANO9	ENSG00000185101	ENST00000534161	retained_intron	KNOWN	None	20679	None	None	417935	429866	-1	TP53I5, TMEM16J	PIG5
11	ANO9	ENSG00000185101	ENST00000532094	retained_intron	KNOWN	None	20679	None	None	417938	441996	-1	TP53I5, TMEM16J	PIG5
11	ANO9	ENSG00000185101	ENST00000528927	retained_intron	KNOWN	None	20679	None	None	418192	441957	-1	TP53I5, TMEM16J	PIG5
11	ANO9	ENSG00000185101	ENST00000332826	protein_coding	KNOWN	CCDS31326	20679	2349	782	418263	442011	-1	TP53I5, TMEM16J	PIG5
11	ANO9	ENSG00000185101	ENST00000524802	retained_intron	KNOWN	None	20679	None	None	418541	419415	-1	TP53I5, TMEM16J	PIG5
11	ANO9	ENSG00000185101	ENST00000525804	retained_intron	KNOWN	None	20679	None	None	420929	421286	-1	TP53I5, TMEM16J	PIG5
11	ANO9	ENSG00000185101	ENST00000525857	retained_intron	KNOWN	None	20679	None	None	429543	430113	-1	TP53I5, TMEM16J	PIG5
1	RNU1-3	ENSG00000207513	ENST00000384782	snRNA	KNOWN	None	10130	None	None	16993280	16993443	-1	RNU1G3	HSD4
16	CASP16	ENSG00000228146	ENST00000571356	processed_transcript	KNOWN	None	27290	None	None	3194220	3195168	1	None	None
16	CASP16	ENSG00000228146	ENST00000575497	retained_intron	KNOWN	None	27290	None	None	3194220	3197089	1	None	None
16	CASP16	ENSG00000228146	ENST00000428155	protein_coding	KNOWN	None	27290	552	183	3194244	3199964	1	None	None
16	CASP16	ENSG00000228146	ENST00000576807	retained_intron	KNOWN	None	27290	None	None	3197129	3198074	1	None	None
18	LRRC30	ENSG00000206422	ENST00000383467	protein_coding	KNOWN	CCDS42409	30219	906	301	7231123	7232045	1	None	None
1	None	ENSG00000264742	ENST00000584111	miRNA	NOVEL	None	None	None	None	17007750	17007823	1	None	None
10	None	ENSG00000226395	ENST00000417885	processed_pseudogene	KNOWN	None	None	None	None	28293631	28293861	1	None	None
15	ZSCAN2	ENSG00000176371	ENST00000540936	protein_coding	NOVEL	None	20994	321	106	85144217	85163880	1	ZFP29	FLJ20595, ZNF854
15	ZSCAN2	ENSG00000176371	ENST00000448803	protein_coding	KNOWN	CCDS10329	20994	1845	614	85144236	85166947	1	ZFP29	FLJ20595, ZNF854
15	ZSCAN2	ENSG00000176371	ENST00000546275	protein_coding	KNOWN	None	20994	161	52	85144240	85147319	1	ZFP29	FLJ20595, ZNF854
15	ZSCAN2	ENSG00000176371	ENST00000546148	protein_coding	KNOWN	CCDS10329	20994	1845	614	85144246	85165439	1	ZFP29	FLJ20595, ZNF854
15	ZSCAN2	ENSG00000176371	ENST00000442073	protein_coding	KNOWN	None	20994	98	31	85144247	85147256	1	ZFP29	FLJ20595, ZNF854
15	ZSCAN2	ENSG00000176371	ENST00000334141	protein_coding	KNOWN	CCDS32316	20994	453	150	85144249	85150120	1	ZFP29	FLJ20595, ZNF854
15	ZSCAN2	ENSG00000176371	ENST00000358472	protein_coding	PUTATIVE	None	20994	1395	464	85144251	85166947	1	ZFP29	FLJ20595, ZNF854
15	ZSCAN2	ENSG00000176371	ENST00000502939	protein_coding	KNOWN	None	20994	83	26	85144254	85147241	1	ZFP29	FLJ20595, ZNF854
15	ZSCAN2	ENSG00000176371	ENST00000379358	protein_coding	KNOWN	CCDS32315	20994	441	146	85144281	85159845	1	ZFP29	FLJ20595, ZNF854
15	ZSCAN2	ENSG00000176371	ENST00000327179	protein_coding	NOVEL	None	20994	1842	613	85144281	85165625	1	ZFP29	FLJ20595, ZNF854
15	ZSCAN2	ENSG00000176371	ENST00000541040	protein_coding	PUTATIVE	None	20994	633	210	85147132	85166867	1	ZFP29	FLJ20595, ZNF854
15	ZSCAN2	ENSG00000176371	ENST00000538076	protein_coding	PUTATIVE	None	20994	717	238	85147132	85166874	1	ZFP29	FLJ20595, ZNF854
15	ZSCAN2	ENSG00000176371	ENST00000540894	nonsense_mediated_decay	KNOWN	CCDS10329	20994	1845	614	85147132	85166874	1	ZFP29	FLJ20595, ZNF854
15	ZSCAN2	ENSG00000176371	ENST00000485222	protein_coding	PUTATIVE	None	20994	603	200	85147132	85166948	1	ZFP29	FLJ20595, ZNF854
15	ZSCAN2	ENSG00000176371	ENST00000303310	processed_transcript	PUTATIVE	None	20994	None	None	85166159	85171027	1	ZFP29	FLJ20595, ZNF854
22	ASPHD2	ENSG00000128203	ENST00000215906	protein_coding	KNOWN	CCDS13834	30437	1110	369	26825239	26840981	1	None	FLJ39838
1	EIF1AXP1	ENSG00000236698	ENST00000419267	processed_pseudogene	KNOWN	None	19900	None	None	17012116	17012550	-1	EIF1AP1	None
22	None	ENSG00000230410	ENST00000451267	lincRNA	KNOWN	None	None	None	None	20336866	20338449	-1	None	None
22	None	ENSG00000230410	ENST00000429995	lincRNA	KNOWN	None	None	None	None	20337736	20341114	-1	None	None
HSCHR6_MHC_COX	DHFRP2	ENSG00000230016	ENST00000446380	processed_pseudogene	KNOWN	None	2863	None	None	31324608	31325154	-1	None	None
2	NDUFA10	ENSG00000130414	ENST00000419408	protein_coding	PUTATIVE	None	7684	390	129	240831867	240951077	-1	None	CI-42k
2	NDUFA10	ENSG00000130414	ENST00000252711	protein_coding	KNOWN	CCDS2531	7684	1068	355	240896789	240964819	-1	None	CI-42k
2	NDUFA10	ENSG00000130414	ENST00000471378	processed_transcript	PUTATIVE	None	7684	None	None	240897954	240916002	-1	None	CI-42k
2	NDUFA10	ENSG00000130414	ENST00000476216	retained_intron	KNOWN	None	7684	None	None	240900148	240951144	-1	None	CI-42k
2	NDUFA10	ENSG00000130414	ENST00000404554	protein_coding	NOVEL	None	7684	1173	390	240900156	240964723	-1	None	CI-42k
2	NDUFA10	ENSG00000130414	ENST00000485344	retained_intron	KNOWN	None	7684	None	None	240900158	240964740	-1	None	CI-42k
2	NDUFA10	ENSG00000130414	ENST00000443626	protein_coding	NOVEL	None	7684	734	243	240900581	240964760	-1	None	CI-42k
2	NDUFA10	ENSG00000130414	ENST00000444548	protein_coding	PUTATIVE	None	7684	400	132	240908869	240951093	-1	None	CI-42k
2	NDUFA10	ENSG00000130414	ENST00000448880	protein_coding	PUTATIVE	None	7684	417	138	240912933	240951071	-1	None	CI-42k
2	NDUFA10	ENSG00000130414	ENST00000307300	protein_coding	NOVEL	None	7684	1290	429	240922934	240964741	-1	None	CI-42k
2	NDUFA10	ENSG00000130414	ENST00000414580	nonsense_mediated_decay	KNOWN	None	7684	285	94	240954216	240964730	-1	None	CI-42k
2	NDUFA10	ENSG00000130414	ENST00000407129	protein_coding	PUTATIVE	None	7684	606	201	240957824	240964724	-1	None	CI-42k
2	NDUFA10	ENSG00000130414	ENST00000497536	retained_intron	KNOWN	None	7684	None	None	240960534	240964741	-1	None	CI-42k
20	MIR1257	ENSG00000221417	ENST00000408490	miRNA	KNOWN	None	35322	None	None	60528602	60528718	-1	MIRN1257	hsa-mir-1257
22	None	ENSG00000235704	ENST00000426653	lincRNA	KNOWN	None	None	None	None	20377669	20378803	1	None	None
9	HMCN2	ENSG00000148357	ENST00000415566	protein_coding	NOVEL	None	21293	2091	696	133046882	133072340	1	None	DKFZp434P0216, FLJ23816
9	HMCN2	ENSG00000148357	ENST00000420499	protein_coding	NOVEL	None	21293	1781	592	133223932	133235846	1	None	DKFZp434P0216, FLJ23816
9	HMCN2	ENSG00000148357	ENST00000442930	protein_coding	PUTATIVE	None	21293	421	139	133231604	133235846	1	None	DKFZp434P0216, FLJ23816
9	HMCN2	ENSG00000148357	ENST00000462148	processed_transcript	KNOWN	None	21293	None	None	133247681	133248467	1	None	DKFZp434P0216, FLJ23816
9	HMCN2	ENSG00000148357	ENST00000455439	protein_coding	PUTATIVE	None	21293	463	153	133259836	133261889	1	None	DKFZp434P0216, FLJ23816
9	HMCN2	ENSG00000148357	ENST00000487727	processed_transcript	KNOWN	None	21293	None	None	133259836	133294969	1	None	DKFZp434P0216, FLJ23816
9	HMCN2	ENSG00000148357	ENST00000480829	processed_transcript	KNOWN	None	21293	None	None	133274029	133282639	1	None	DKFZp434P0216, FLJ23816
9	HMCN2	ENSG00000148357	ENST00000428715	protein_coding	NOVEL	None	21293	2370	789	133285948	133309510	1	None	DKFZp434P0216, FLJ23816
9	HMCN2	ENSG00000148357	ENST00000302481	protein_coding	KNOWN	None	21293	663	220	133305669	133309508	1	None	DKFZp434P0216, FLJ23816
HSCHR6_MHC_SSTO	AIF1	ENSG00000235588	ENST00000440907	protein_coding	KNOWN	None	352	444	147	31572910	31574747	1	None	IRT-1, AIF-1, Em:AF129756.17, IBA1
HSCHR6_MHC_SSTO	AIF1	ENSG00000235588	ENST00000486737	retained_intron	KNOWN	None	352	None	None	31572943	31574066	1	None	IRT-1, AIF-1, Em:AF129756.17, IBA1
HSCHR6_MHC_SSTO	AIF1	ENSG00000235588	ENST00000412407	protein_coding	KNOWN	None	352	486	161	31572953	31574747	1	None	IRT-1, AIF-1, Em:AF129756.17, IBA1
HSCHR6_MHC_SSTO	AIF1	ENSG00000235588	ENST00000495860	retained_intron	KNOWN	None	352	None	None	31573006	31574747	1	None	IRT-1, AIF-1, Em:AF129756.17, IBA1
HSCHR6_MHC_SSTO	AIF1	ENSG00000235588	ENST00000481716	retained_intron	KNOWN	None	352	None	None	31573352	31574747	1	None	IRT-1, AIF-1, Em:AF129756.17, IBA1
HSCHR6_MHC_SSTO	AIF1	ENSG00000235588	ENST00000424944	protein_coding	KNOWN	None	352	282	93	31573717	31574747	1	None	IRT-1, AIF-1, Em:AF129756.17, IBA1
HSCHR6_MHC_SSTO	AIF1	ENSG00000235588	ENST00000549432	protein_coding	KNOWN	None	352	282	93	31572957	31574740	1	None	IRT-1, AIF-1, Em:AF129756.17, IBA1
1	ESPNP	ENSG00000268869	ENST00000414828	processed_transcript	PUTATIVE	None	23285	None	None	17013834	17018804	-1	None	None
1	ESPNP	ENSG00000268869	ENST00000270691	transcribed_unprocessed_pseudogene	KNOWN	None	23285	None	None	17017713	17046652	-1	None	None
1	ESPNP	ENSG00000268869	ENST00000492551	processed_transcript	KNOWN	None	23285	None	None	17017713	17046652	-1	None	None
1	ESPNP	ENSG00000268869	ENST00000535711	unprocessed_pseudogene	KNOWN	None	23285	None	None	17033419	17037114	-1	None	None
X	CPXCR1	ENSG00000147183	ENST00000276127	protein_coding	KNOWN	CCDS14458	2332	906	301	88002226	88009786	1	None	CT77
X	CPXCR1	ENSG00000147183	ENST00000373111	protein_coding	KNOWN	CCDS14458	2332	906	301	88002236	88009781	1	None	CT77
15	None	ENSG00000259191	ENST00000560942	processed_pseudogene	KNOWN	None	None	None	None	69726805	69727459	-1	None	None
22	None	ENSG00000206176	ENST00000424812	lincRNA	KNOWN	None	None	None	None	20378814	20380089	1	None	None
22	None	ENSG00000206176	ENST00000448747	lincRNA	KNOWN	None	None	None	None	20378909	20380045	1	None	None
22	None	ENSG00000206176	ENST00000412928	lincRNA	KNOWN	None	None	None	None	20378933	20380071	1	None	None
22	None	ENSG00000206176	ENST00000436846	lincRNA	KNOWN	None	None	None	None	20378938	20380071	1	None	None
22	None	ENSG00000206176	ENST00000438669	lincRNA	KNOWN	None	None	None	None	20379276	20380440	1	None	None
22	None	ENSG00000206176	ENST00000544204	lincRNA	KNOWN	None	None	None	None	20379677	20380438	1	None	None
20	None	ENSG00000235018	ENST00000442115	processed_pseudogene	KNOWN	None	None	None	None	60612485	60613012	-1	None	None
16	RAB43P1	ENSG00000259856	ENST00000561790	processed_pseudogene	KNOWN	None	33153	None	None	46660316	46660904	-1	RAB43P	RAB41P
8	None	ENSG00000253416	ENST00000519660	lincRNA	KNOWN	None	None	None	None	77816827	77825635	1	None	None
5	KIAA1191	ENSG00000122203	ENST00000298569	protein_coding	KNOWN	CCDS4399	29209	918	305	175773064	175788971	-1	None	FLJ21022
5	KIAA1191	ENSG00000122203	ENST00000393728	processed_transcript	KNOWN	None	29209	None	None	175773065	175788742	-1	None	FLJ21022
5	KIAA1191	ENSG00000122203	ENST00000393725	protein_coding	KNOWN	CCDS43402	29209	861	286	175773065	175788768	-1	None	FLJ21022
5	KIAA1191	ENSG00000122203	ENST00000510164	protein_coding	KNOWN	CCDS4399	29209	918	305	175774497	175788764	-1	None	FLJ21022
5	KIAA1191	ENSG00000122203	ENST00000533553	protein_coding	NOVEL	None	29209	123	40	175774972	175788767	-1	None	FLJ21022
5	KIAA1191	ENSG00000122203	ENST00000506983	protein_coding	KNOWN	None	29209	287	94	175777731	175788800	-1	None	FLJ21022
5	KIAA1191	ENSG00000122203	ENST00000503082	protein_coding	KNOWN	None	29209	210	69	175779692	175788790	-1	None	FLJ21022
5	KIAA1191	ENSG00000122203	ENST00000504688	protein_coding	KNOWN	None	29209	196	64	175779706	175788767	-1	None	FLJ21022
5	KIAA1191	ENSG00000122203	ENST00000506668	processed_transcript	KNOWN	None	29209	None	None	175780199	175788738	-1	None	FLJ21022
5	KIAA1191	ENSG00000122203	ENST00000508023	retained_intron	KNOWN	None	29209	None	None	175786523	175788767	-1	None	FLJ21022
5	KIAA1191	ENSG00000122203	ENST00000506613	processed_transcript	KNOWN	None	29209	None	None	175786528	175788565	-1	None	FLJ21022
7	SLC25A13	ENSG00000004864	ENST00000265631	protein_coding	KNOWN	CCDS5645	10983	2028	675	95749532	95951405	-1	CTLN2	CITRIN, ARALAR2
7	SLC25A13	ENSG00000004864	ENST00000494085	processed_transcript	KNOWN	None	10983	None	None	95750268	95751310	-1	CTLN2	CITRIN, ARALAR2
7	SLC25A13	ENSG00000004864	ENST00000490072	processed_transcript	KNOWN	None	10983	None	None	95775866	95814323	-1	CTLN2	CITRIN, ARALAR2
7	SLC25A13	ENSG00000004864	ENST00000484495	processed_transcript	KNOWN	None	10983	None	None	95799180	95818691	-1	CTLN2	CITRIN, ARALAR2
7	SLC25A13	ENSG00000004864	ENST00000492869	processed_transcript	KNOWN	None	10983	None	None	95799356	95813886	-1	CTLN2	CITRIN, ARALAR2
7	SLC25A13	ENSG00000004864	ENST00000472162	nonsense_mediated_decay	KNOWN	None	10983	222	73	95822460	95951448	-1	CTLN2	CITRIN, ARALAR2
7	SLC25A13	ENSG00000004864	ENST00000487710	processed_transcript	KNOWN	None	10983	None	None	95926210	95938996	-1	CTLN2	CITRIN, ARALAR2
7	SLC25A13	ENSG00000004864	ENST00000416240	protein_coding	KNOWN	CCDS55130	10983	2031	676	95749533	95951459	-1	CTLN2	CITRIN, ARALAR2
7	SLC25A13	ENSG00000004864	ENST00000542654	protein_coding	KNOWN	None	10983	1704	567	95750212	95951323	-1	CTLN2	CITRIN, ARALAR2
1	CAMTA1	ENSG00000171735	ENST00000303635	protein_coding	KNOWN	CCDS30576	18806	5022	1673	6845384	7829766	1	None	KIAA0833
1	CAMTA1	ENSG00000171735	ENST00000490738	processed_transcript	KNOWN	None	18806	None	None	6845514	6932113	1	None	KIAA0833
1	CAMTA1	ENSG00000171735	ENST00000476163	processed_transcript	KNOWN	None	18806	None	None	6845524	6948261	1	None	KIAA0833
1	CAMTA1	ENSG00000171735	ENST00000473578	protein_coding	PUTATIVE	CCDS55574	18806	243	80	6845540	6932098	1	None	KIAA0833
1	CAMTA1	ENSG00000171735	ENST00000557126	protein_coding	PUTATIVE	CCDS55575	18806	306	101	6845551	6947925	1	None	KIAA0833
1	CAMTA1	ENSG00000171735	ENST00000467404	protein_coding	PUTATIVE	None	18806	279	92	6845578	6932079	1	None	KIAA0833
1	CAMTA1	ENSG00000171735	ENST00000461311	nonsense_mediated_decay	KNOWN	None	18806	222	73	6845612	6947847	1	None	KIAA0833
1	CAMTA1	ENSG00000171735	ENST00000486138	nonsense_mediated_decay	KNOWN	None	18806	133	43	6867048	6931918	1	None	KIAA0833
1	CAMTA1	ENSG00000171735	ENST00000482934	nonsense_mediated_decay	KNOWN	None	18806	119	38	6885170	6948248	1	None	KIAA0833
1	CAMTA1	ENSG00000171735	ENST00000470648	processed_transcript	KNOWN	None	18806	None	None	6913108	6948253	1	None	KIAA0833
1	CAMTA1	ENSG00000171735	ENST00000461580	processed_transcript	KNOWN	None	18806	None	None	6913112	6948210	1	None	KIAA0833
1	CAMTA1	ENSG00000171735	ENST00000472283	processed_transcript	KNOWN	None	18806	None	None	6913155	6932105	1	None	KIAA0833
1	CAMTA1	ENSG00000171735	ENST00000467267	processed_transcript	KNOWN	None	18806	None	None	6934116	6947902	1	None	KIAA0833
1	CAMTA1	ENSG00000171735	ENST00000495233	protein_coding	PUTATIVE	None	18806	1913	636	7796468	7827916	1	None	KIAA0833
1	CAMTA1	ENSG00000171735	ENST00000490905	protein_coding	PUTATIVE	None	18806	719	238	7804974	7827916	1	None	KIAA0833
1	CAMTA1	ENSG00000171735	ENST00000476864	protein_coding	NOVEL	None	18806	714	237	7805021	7826582	1	None	KIAA0833
1	CAMTA1	ENSG00000171735	ENST00000439411	protein_coding	KNOWN	None	18806	4980	1659	6845591	7826582	1	None	KIAA0833
16	None	ENSG00000260909	ENST00000566702	unprocessed_pseudogene	KNOWN	None	None	None	None	46683038	46683761	1	None	None
17	ARMC7	ENSG00000125449	ENST00000581078	protein_coding	PUTATIVE	None	26168	312	103	73106047	73125265	1	None	FLJ22160
17	ARMC7	ENSG00000125449	ENST00000582136	protein_coding	PUTATIVE	None	26168	249	82	73106073	73110921	1	None	FLJ22160
17	ARMC7	ENSG00000125449	ENST00000245543	protein_coding	KNOWN	CCDS11714	26168	597	198	73106082	73126360	1	None	FLJ22160
17	ARMC7	ENSG00000125449	ENST00000584947	protein_coding	PUTATIVE	None	26168	306	101	73106276	73110925	1	None	FLJ22160
17	ARMC7	ENSG00000125449	ENST00000579096	processed_transcript	KNOWN	None	26168	None	None	73110386	73125546	1	None	FLJ22160
3	FAM208A	ENSG00000163946	ENST00000459993	retained_intron	KNOWN	None	30314	None	None	56654161	56668000	-1	C3orf63	se89-1, RAP140, KIAA1105
3	FAM208A	ENSG00000163946	ENST00000431842	protein_coding	KNOWN	CCDS2877	30314	3702	1233	56654573	56698359	-1	C3orf63	se89-1, RAP140, KIAA1105
3	FAM208A	ENSG00000163946	ENST00000493960	protein_coding	PUTATIVE	CCDS46853	30314	4539	1512	56656766	56717045	-1	C3orf63	se89-1, RAP140, KIAA1105
3	FAM208A	ENSG00000163946	ENST00000355628	protein_coding	KNOWN	None	30314	4830	1609	56656887	56717265	-1	C3orf63	se89-1, RAP140, KIAA1105
3	FAM208A	ENSG00000163946	ENST00000485156	processed_transcript	KNOWN	None	30314	None	None	56657145	56661098	-1	C3orf63	se89-1, RAP140, KIAA1105
3	FAM208A	ENSG00000163946	ENST00000487036	retained_intron	KNOWN	None	30314	None	None	56658863	56662668	-1	C3orf63	se89-1, RAP140, KIAA1105
3	FAM208A	ENSG00000163946	ENST00000461863	retained_intron	KNOWN	None	30314	None	None	56661677	56663131	-1	C3orf63	se89-1, RAP140, KIAA1105
3	FAM208A	ENSG00000163946	ENST00000478052	processed_transcript	KNOWN	None	30314	None	None	56694997	56702517	-1	C3orf63	se89-1, RAP140, KIAA1105
3	FAM208A	ENSG00000163946	ENST00000477406	retained_intron	KNOWN	None	30314	None	None	56705380	56707701	-1	C3orf63	se89-1, RAP140, KIAA1105
14	RNU6-790P	ENSG00000207208	ENST00000384479	snRNA	KNOWN	None	47753	None	None	102269564	102269668	1	None	None
HSCHR5_1_CTG1	NAIP	ENSG00000263062	ENST00000576435	protein_coding	PUTATIVE	None	7634	3480	1159	68898377	68953119	1	BIRC1	NLRB1
HSCHR5_1_CTG1	NAIP	ENSG00000263062	ENST00000573660	retained_intron	KNOWN	None	7634	None	None	68902716	68925347	1	BIRC1	NLRB1
HSCHR5_1_CTG1	NAIP	ENSG00000263062	ENST00000575684	retained_intron	KNOWN	None	7634	None	None	68902760	68919892	1	BIRC1	NLRB1
HSCHR5_1_CTG1	NAIP	ENSG00000263062	ENST00000576583	protein_coding	KNOWN	None	7634	4212	1403	68902780	68953416	1	BIRC1	NLRB1
HSCHR5_1_CTG1	NAIP	ENSG00000263062	ENST00000576661	protein_coding	NOVEL	None	7634	4044	1347	68902780	68953419	1	BIRC1	NLRB1
HSCHR5_1_CTG1	NAIP	ENSG00000263062	ENST00000571544	processed_transcript	KNOWN	None	7634	None	None	68911717	68920156	1	BIRC1	NLRB1
HSCHR5_1_CTG1	NAIP	ENSG00000263062	ENST00000570813	retained_intron	KNOWN	None	7634	None	None	68936938	68954986	1	BIRC1	NLRB1
HSCHR5_1_CTG1	NAIP	ENSG00000263062	ENST00000571516	protein_coding	NOVEL	None	7634	579	192	68947238	68953222	1	BIRC1	NLRB1
14	None	ENSG00000256705	ENST00000556205	antisense	KNOWN	None	None	None	None	102299772	102305868	-1	None	None
16	None	ENSG00000261131	ENST00000569353	sense_intronic	KNOWN	None	None	None	None	46694608	46695503	-1	None	None
17	SPNS2	ENSG00000183018	ENST00000329078	protein_coding	KNOWN	CCDS42237	26992	1650	549	4402133	4442330	1	None	None
17	SPNS2	ENSG00000183018	ENST00000571386	protein_coding	PUTATIVE	None	26992	846	281	4436327	4441093	1	None	None
17	SPNS2	ENSG00000183018	ENST00000576635	retained_intron	KNOWN	None	26992	None	None	4436538	4440994	1	None	None
17	SPNS2	ENSG00000183018	ENST00000571668	retained_intron	KNOWN	None	26992	None	None	4437021	4441013	1	None	None
17	SPNS2	ENSG00000183018	ENST00000573106	retained_intron	KNOWN	None	26992	None	None	4437028	4441308	1	None	None
17	SPNS2	ENSG00000183018	ENST00000573990	retained_intron	KNOWN	None	26992	None	None	4437043	4440025	1	None	None
17	SPNS2	ENSG00000183018	ENST00000570641	retained_intron	KNOWN	None	26992	None	None	4437680	4440112	1	None	None
17	SPNS2	ENSG00000183018	ENST00000570979	retained_intron	KNOWN	None	26992	None	None	4440057	4442330	1	None	None
8	None	ENSG00000266712	ENST00000584629	miRNA	KNOWN	None	None	None	None	77879004	77879086	-1	None	None
15	None	ENSG00000207119	ENST00000384391	snoRNA	NOVEL	None	None	None	None	69750281	69750488	-1	None	None
16	None	ENSG00000261788	ENST00000562218	lincRNA	KNOWN	None	None	None	None	46737281	46737937	-1	None	None
8	HIGD1AP18	ENSG00000253952	ENST00000520730	processed_pseudogene	KNOWN	None	43013	None	None	77925987	77926264	-1	None	None
17	GPR179	ENSG00000188888	ENST00000584976	processed_transcript	PUTATIVE	None	31371	None	None	36481413	36484386	-1	GPR158L1	None
17	GPR179	ENSG00000188888	ENST00000342292	protein_coding	KNOWN	CCDS42308	31371	7104	2367	36481493	36499693	-1	GPR158L1	None
17	GPR179	ENSG00000188888	ENST00000494542	retained_intron	KNOWN	None	31371	None	None	36495218	36499730	-1	GPR158L1	None
15	None	ENSG00000259215	ENST00000558702	lincRNA	KNOWN	None	None	None	None	69750861	69754145	-1	None	None
X	TGIF2LX	ENSG00000153779	ENST00000283891	protein_coding	KNOWN	CCDS14459	18570	726	241	89176881	89177882	1	None	None
X	TGIF2LX	ENSG00000153779	ENST00000561129	protein_coding	KNOWN	CCDS14459	18570	726	241	89176955	89177882	1	None	None
10	FAM21D	ENSG00000174196	ENST00000311663	protein_coding	KNOWN	None	23418	927	308	51187938	51192032	1	None	bA592B15.4
14	TRAV36DV7	ENSG00000211815	ENST00000390463	TR_V_gene	KNOWN	None	12135	340	112	22694641	22695149	1	None	TRAV36/DV7
13	None	ENSG00000220990	ENST00000408063	miRNA	NOVEL	None	None	None	None	53941980	53942091	-1	None	None
3	DLG1	ENSG00000075711	ENST00000346964	protein_coding	KNOWN	CCDS3327	2900	2781	926	196769431	197025447	-1	None	SAP97, SAP-97, hdlg, DLGH1, dJ1061C18.1.1
3	DLG1	ENSG00000075711	ENST00000469371	retained_intron	KNOWN	None	2900	None	None	196769904	196797874	-1	None	SAP97, SAP-97, hdlg, DLGH1, dJ1061C18.1.1
3	DLG1	ENSG00000075711	ENST00000419354	protein_coding	KNOWN	CCDS43194	2900	2715	904	196770502	197026171	-1	None	SAP97, SAP-97, hdlg, DLGH1, dJ1061C18.1.1
3	DLG1	ENSG00000075711	ENST00000452595	protein_coding	PUTATIVE	CCDS56300	2900	2367	788	196771131	196911002	-1	None	SAP97, SAP-97, hdlg, DLGH1, dJ1061C18.1.1
3	DLG1	ENSG00000075711	ENST00000422288	protein_coding	KNOWN	None	2900	2562	853	196771202	197024075	-1	None	SAP97, SAP-97, hdlg, DLGH1, dJ1061C18.1.1
3	DLG1	ENSG00000075711	ENST00000448528	protein_coding	KNOWN	CCDS43194	2900	2715	904	196771422	197025447	-1	None	SAP97, SAP-97, hdlg, DLGH1, dJ1061C18.1.1
3	DLG1	ENSG00000075711	ENST00000443183	protein_coding	PUTATIVE	CCDS56301	2900	2403	800	196771431	196910729	-1	None	SAP97, SAP-97, hdlg, DLGH1, dJ1061C18.1.1
3	DLG1	ENSG00000075711	ENST00000450955	protein_coding	KNOWN	None	2900	2682	893	196771494	197024075	-1	None	SAP97, SAP-97, hdlg, DLGH1, dJ1061C18.1.1
3	DLG1	ENSG00000075711	ENST00000392382	protein_coding	KNOWN	None	2900	2616	871	196771494	197024986	-1	None	SAP97, SAP-97, hdlg, DLGH1, dJ1061C18.1.1
3	DLG1	ENSG00000075711	ENST00000475394	retained_intron	KNOWN	None	2900	None	None	196778448	196802742	-1	None	SAP97, SAP-97, hdlg, DLGH1, dJ1061C18.1.1
3	DLG1	ENSG00000075711	ENST00000470629	retained_intron	KNOWN	None	2900	None	None	196792580	196796353	-1	None	SAP97, SAP-97, hdlg, DLGH1, dJ1061C18.1.1
3	DLG1	ENSG00000075711	ENST00000419227	nonsense_mediated_decay	KNOWN	None	2900	1113	370	196796088	197025447	-1	None	SAP97, SAP-97, hdlg, DLGH1, dJ1061C18.1.1
3	DLG1	ENSG00000075711	ENST00000392381	nonsense_mediated_decay	KNOWN	None	2900	1977	658	196805334	197024986	-1	None	SAP97, SAP-97, hdlg, DLGH1, dJ1061C18.1.1
3	DLG1	ENSG00000075711	ENST00000471733	retained_intron	KNOWN	None	2900	None	None	196807349	197025502	-1	None	SAP97, SAP-97, hdlg, DLGH1, dJ1061C18.1.1
3	DLG1	ENSG00000075711	ENST00000493937	processed_transcript	PUTATIVE	None	2900	None	None	196807861	196812529	-1	None	SAP97, SAP-97, hdlg, DLGH1, dJ1061C18.1.1
3	DLG1	ENSG00000075711	ENST00000447466	protein_coding	PUTATIVE	None	2900	858	285	196842909	196910505	-1	None	SAP97, SAP-97, hdlg, DLGH1, dJ1061C18.1.1
3	DLG1	ENSG00000075711	ENST00000477312	retained_intron	KNOWN	None	2900	None	None	196863195	196869670	-1	None	SAP97, SAP-97, hdlg, DLGH1, dJ1061C18.1.1
3	DLG1	ENSG00000075711	ENST00000453607	protein_coding	PUTATIVE	None	2900	366	121	196867016	196987332	-1	None	SAP97, SAP-97, hdlg, DLGH1, dJ1061C18.1.1
3	DLG1	ENSG00000075711	ENST00000456699	protein_coding	NOVEL	None	2900	537	178	196876614	197024604	-1	None	SAP97, SAP-97, hdlg, DLGH1, dJ1061C18.1.1
3	DLG1	ENSG00000075711	ENST00000392380	protein_coding	KNOWN	None	2900	624	207	196876626	197024604	-1	None	SAP97, SAP-97, hdlg, DLGH1, dJ1061C18.1.1
3	DLG1	ENSG00000075711	ENST00000485409	processed_transcript	KNOWN	None	2900	None	None	196921208	197023760	-1	None	SAP97, SAP-97, hdlg, DLGH1, dJ1061C18.1.1
3	DLG1	ENSG00000075711	ENST00000419553	protein_coding	KNOWN	None	2900	463	153	196921316	197025494	-1	None	SAP97, SAP-97, hdlg, DLGH1, dJ1061C18.1.1
3	DLG1	ENSG00000075711	ENST00000469073	processed_transcript	PUTATIVE	None	2900	None	None	196921406	196953230	-1	None	SAP97, SAP-97, hdlg, DLGH1, dJ1061C18.1.1
3	DLG1	ENSG00000075711	ENST00000436682	protein_coding	KNOWN	None	2900	370	122	196921409	197024556	-1	None	SAP97, SAP-97, hdlg, DLGH1, dJ1061C18.1.1
3	DLG1	ENSG00000075711	ENST00000486877	retained_intron	KNOWN	None	2900	None	None	197009481	197024604	-1	None	SAP97, SAP-97, hdlg, DLGH1, dJ1061C18.1.1
3	DLG1	ENSG00000075711	ENST00000412364	protein_coding	KNOWN	None	2900	318	105	197009550	197024467	-1	None	SAP97, SAP-97, hdlg, DLGH1, dJ1061C18.1.1
3	DLG1	ENSG00000075711	ENST00000434148	protein_coding	KNOWN	None	2900	107	34	197023261	197024394	-1	None	SAP97, SAP-97, hdlg, DLGH1, dJ1061C18.1.1
3	DLG1	ENSG00000075711	ENST00000357674	protein_coding	KNOWN	None	2900	2682	893	196769431	197025447	-1	None	SAP97, SAP-97, hdlg, DLGH1, dJ1061C18.1.1
3	DLG1	ENSG00000075711	ENST00000314062	protein_coding	KNOWN	None	2900	2562	853	196769431	197025447	-1	None	SAP97, SAP-97, hdlg, DLGH1, dJ1061C18.1.1
13	LINC00558	ENSG00000261517	ENST00000569422	lincRNA	KNOWN	None	43702	None	None	54389554	54450254	1	None	None
20	PPP1R3D	ENSG00000132825	ENST00000370996	protein_coding	KNOWN	CCDS13483	9294	900	299	58511894	58515352	-1	PPP1R6	None
1	RNU1-4	ENSG00000207389	ENST00000384659	snRNA	KNOWN	None	10128	None	None	17067011	17067174	1	RNU1E2, RNU1G2, RNU1D2, RNU1F1, RNU1G1	HSD6, U1E2, HSD2, U1D2, HSD5, U1B2, U1F, HSD7
6	SOGA3	ENSG00000214338	ENST00000525778	protein_coding	KNOWN	CCDS43505	21494	2844	947	127793939	127840336	-1	C6orf174	dJ403A15.3
6	SOGA3	ENSG00000214338	ENST00000465909	protein_coding	NOVEL	None	21494	2835	944	127793951	127840036	-1	C6orf174	dJ403A15.3
6	SOGA3	ENSG00000214338	ENST00000467753	protein_coding	KNOWN	None	21494	31	9	127837729	127840065	-1	C6orf174	dJ403A15.3
6	SOGA3	ENSG00000214338	ENST00000556132	protein_coding	KNOWN	CCDS43505	21494	2844	947	127759551	127840500	-1	C6orf174	dJ403A15.3
6	SOGA3	ENSG00000214338	ENST00000368268	protein_coding	KNOWN	CCDS43505	21494	2844	947	127771330	127837759	-1	C6orf174	dJ403A15.3
1	CROCCP4	ENSG00000227684	ENST00000457096	unprocessed_pseudogene	KNOWN	None	43864	None	None	17076728	17077459	1	None	None
13	LINC00458	ENSG00000234787	ENST00000423442	lincRNA	KNOWN	None	42807	None	None	54689924	54707001	-1	None	None
13	LINC00458	ENSG00000234787	ENST00000606055	lincRNA	KNOWN	None	42807	None	None	54689984	54701478	-1	None	None
13	LINC00458	ENSG00000234787	ENST00000427299	lincRNA	KNOWN	None	42807	None	None	54698459	54706997	-1	None	None
13	LINC00458	ENSG00000234787	ENST00000607494	lincRNA	KNOWN	None	42807	None	None	54698948	54706986	-1	None	None
13	LINC00458	ENSG00000234787	ENST00000606706	lincRNA	KNOWN	None	42807	None	None	54699130	54706954	-1	None	None
13	LINC00458	ENSG00000234787	ENST00000451744	lincRNA	KNOWN	None	42807	None	None	54700997	54707001	-1	None	None
1	FAM78B	ENSG00000188859	ENST00000435676	nonsense_mediated_decay	KNOWN	None	13495	763	253	166026674	166135462	-1	None	None
1	FAM78B	ENSG00000188859	ENST00000456900	nonsense_mediated_decay	KNOWN	CCDS30931	13495	786	261	166028926	166135618	-1	None	None
1	FAM78B	ENSG00000188859	ENST00000441649	nonsense_mediated_decay	KNOWN	None	13495	772	256	166029138	166135471	-1	None	None
1	FAM78B	ENSG00000188859	ENST00000354422	protein_coding	KNOWN	CCDS30931	13495	786	261	166039256	166135952	-1	None	None
1	FAM78B	ENSG00000188859	ENST00000338353	protein_coding	KNOWN	CCDS30931	13495	786	261	166039257	166136206	-1	None	None
X	RNU6-1225P	ENSG00000252145	ENST00000516336	snRNA	KNOWN	None	48188	None	None	67321910	67321974	-1	None	None
14	TRAV38-1	ENSG00000211816	ENST00000390464	TR_V_gene	KNOWN	None	12137	350	115	22739851	22740446	1	None	TRAV381, TCRAV14S2, TCRAV38S1
1	MST1L	ENSG00000186715	ENST00000455405	processed_transcript	KNOWN	None	7390	None	None	17081405	17085367	-1	MSTP7, MSTP9, MST1P9	D1F15S1A, MSPL7, MSPL-7
1	MST1L	ENSG00000186715	ENST00000442552	transcribed_unprocessed_pseudogene	KNOWN	None	7390	None	None	17083727	17090975	-1	MSTP7, MSTP9, MST1P9	D1F15S1A, MSPL7, MSPL-7
1	MST1L	ENSG00000186715	ENST00000544155	processed_transcript	KNOWN	None	7390	None	None	17084548	17085318	-1	MSTP7, MSTP9, MST1P9	D1F15S1A, MSPL7, MSPL-7
1	MST1L	ENSG00000186715	ENST00000545160	processed_transcript	KNOWN	None	7390	None	None	17087332	17096732	-1	MSTP7, MSTP9, MST1P9	D1F15S1A, MSPL7, MSPL-7
1	MST1L	ENSG00000186715	ENST00000389184	unprocessed_pseudogene	KNOWN	None	7390	None	None	17081405	17087579	-1	MSTP7, MSTP9, MST1P9	D1F15S1A, MSPL7, MSPL-7
X	None	ENSG00000228125	ENST00000440655	processed_pseudogene	KNOWN	None	None	None	None	67352710	67353279	1	None	None
5	None	ENSG00000177738	ENST00000314957	sense_overlapping	KNOWN	None	None	None	None	43014516	43018826	-1	None	None
5	None	ENSG00000177738	ENST00000499871	sense_overlapping	KNOWN	None	None	None	None	43014836	43018913	-1	None	None
5	None	ENSG00000177738	ENST00000503152	sense_overlapping	KNOWN	None	None	None	None	43014838	43067521	-1	None	None
14	PELI2	ENSG00000139946	ENST00000559044	protein_coding	PUTATIVE	None	8828	284	93	56584532	56757062	1	None	None
14	PELI2	ENSG00000139946	ENST00000267460	protein_coding	KNOWN	CCDS9726	8828	1263	420	56585093	56768244	1	None	None
14	PELI2	ENSG00000139946	ENST00000561019	protein_coding	PUTATIVE	None	8828	233	76	56585827	56757011	1	None	None
22	PI4KA	ENSG00000241973	ENST00000255882	protein_coding	KNOWN	CCDS33603	8983	6309	2102	21061979	21213100	-1	PIK4CA	PI4K-ALPHA, pi4K230
22	PI4KA	ENSG00000241973	ENST00000492581	retained_intron	KNOWN	None	8983	None	None	21061981	21076297	-1	PIK4CA	PI4K-ALPHA, pi4K230
22	PI4KA	ENSG00000241973	ENST00000477245	retained_intron	KNOWN	None	8983	None	None	21061991	21088955	-1	PIK4CA	PI4K-ALPHA, pi4K230
22	PI4KA	ENSG00000241973	ENST00000466772	retained_intron	KNOWN	None	8983	None	None	21061992	21081645	-1	PIK4CA	PI4K-ALPHA, pi4K230
22	PI4KA	ENSG00000241973	ENST00000399213	protein_coding	NOVEL	None	8983	1308	435	21062007	21075706	-1	PIK4CA	PI4K-ALPHA, pi4K230
22	PI4KA	ENSG00000241973	ENST00000482030	retained_intron	KNOWN	None	8983	None	None	21065040	21067281	-1	PIK4CA	PI4K-ALPHA, pi4K230
22	PI4KA	ENSG00000241973	ENST00000466394	retained_intron	KNOWN	None	8983	None	None	21065590	21072132	-1	PIK4CA	PI4K-ALPHA, pi4K230
22	PI4KA	ENSG00000241973	ENST00000489966	retained_intron	KNOWN	None	8983	None	None	21080604	21081581	-1	PIK4CA	PI4K-ALPHA, pi4K230
22	PI4KA	ENSG00000241973	ENST00000485123	retained_intron	KNOWN	None	8983	None	None	21081857	21083759	-1	PIK4CA	PI4K-ALPHA, pi4K230
22	PI4KA	ENSG00000241973	ENST00000462210	retained_intron	KNOWN	None	8983	None	None	21088024	21088783	-1	PIK4CA	PI4K-ALPHA, pi4K230
22	PI4KA	ENSG00000241973	ENST00000477368	processed_transcript	PUTATIVE	None	8983	None	None	21088765	21091154	-1	PIK4CA	PI4K-ALPHA, pi4K230
22	PI4KA	ENSG00000241973	ENST00000494113	retained_intron	KNOWN	None	8983	None	None	21088765	21097205	-1	PIK4CA	PI4K-ALPHA, pi4K230
22	PI4KA	ENSG00000241973	ENST00000475414	retained_intron	KNOWN	None	8983	None	None	21101772	21105968	-1	PIK4CA	PI4K-ALPHA, pi4K230
22	PI4KA	ENSG00000241973	ENST00000466162	processed_transcript	KNOWN	None	8983	None	None	21107434	21147662	-1	PIK4CA	PI4K-ALPHA, pi4K230
22	PI4KA	ENSG00000241973	ENST00000490873	processed_transcript	KNOWN	None	8983	None	None	21107434	21147662	-1	PIK4CA	PI4K-ALPHA, pi4K230
22	PI4KA	ENSG00000241973	ENST00000484220	retained_intron	KNOWN	None	8983	None	None	21118903	21150446	-1	PIK4CA	PI4K-ALPHA, pi4K230
22	PI4KA	ENSG00000241973	ENST00000485963	retained_intron	KNOWN	None	8983	None	None	21152766	21213100	-1	PIK4CA	PI4K-ALPHA, pi4K230
22	PI4KA	ENSG00000241973	ENST00000485950	retained_intron	KNOWN	None	8983	None	None	21153228	21156306	-1	PIK4CA	PI4K-ALPHA, pi4K230
22	PI4KA	ENSG00000241973	ENST00000449120	protein_coding	PUTATIVE	None	8983	261	86	21178635	21213705	-1	PIK4CA	PI4K-ALPHA, pi4K230
22	PI4KA	ENSG00000241973	ENST00000572273	protein_coding	KNOWN	None	8983	6135	2044	21061981	21213070	-1	PIK4CA	PI4K-ALPHA, pi4K230
22	PI4KA	ENSG00000241973	ENST00000414196	protein_coding	KNOWN	CCDS46667	8983	2565	854	21061981	21088955	-1	PIK4CA	PI4K-ALPHA, pi4K230
7	VWDE	ENSG00000146530	ENST00000275358	protein_coding	NOVEL	CCDS47544	21897	4773	1590	12370511	12443531	-1	None	FLJ14712
7	VWDE	ENSG00000146530	ENST00000485526	retained_intron	KNOWN	None	21897	None	None	12370513	12373352	-1	None	FLJ14712
7	VWDE	ENSG00000146530	ENST00000521169	nonsense_mediated_decay	KNOWN	None	21897	1059	352	12370544	12443567	-1	None	FLJ14712
7	VWDE	ENSG00000146530	ENST00000452576	nonsense_mediated_decay	KNOWN	None	21897	3909	1302	12370544	12443567	-1	None	FLJ14712
7	VWDE	ENSG00000146530	ENST00000326715	nonsense_mediated_decay	KNOWN	None	21897	513	170	12417190	12443350	-1	None	FLJ14712
17	NT5C	ENSG00000125458	ENST00000582160	protein_coding	PUTATIVE	None	17144	348	115	73126320	73127541	-1	UMPH2	DNT1, DNT-1, PN-I, cdN, dNT-1
17	NT5C	ENSG00000125458	ENST00000580758	nonsense_mediated_decay	KNOWN	None	17144	354	117	73126323	73127838	-1	UMPH2	DNT1, DNT-1, PN-I, cdN, dNT-1
17	NT5C	ENSG00000125458	ENST00000583655	retained_intron	KNOWN	None	17144	None	None	73126323	73127844	-1	UMPH2	DNT1, DNT-1, PN-I, cdN, dNT-1
17	NT5C	ENSG00000125458	ENST00000245552	protein_coding	KNOWN	CCDS11715	17144	606	201	73126323	73127890	-1	UMPH2	DNT1, DNT-1, PN-I, cdN, dNT-1
17	NT5C	ENSG00000125458	ENST00000578407	protein_coding	NOVEL	None	17144	462	153	73126325	73127778	-1	UMPH2	DNT1, DNT-1, PN-I, cdN, dNT-1
17	NT5C	ENSG00000125458	ENST00000582744	nonsense_mediated_decay	KNOWN	None	17144	120	39	73126366	73127568	-1	UMPH2	DNT1, DNT-1, PN-I, cdN, dNT-1
17	NT5C	ENSG00000125458	ENST00000580423	protein_coding	PUTATIVE	None	17144	262	86	73126427	73127353	-1	UMPH2	DNT1, DNT-1, PN-I, cdN, dNT-1
17	NT5C	ENSG00000125458	ENST00000577523	retained_intron	KNOWN	None	17144	None	None	73126458	73127520	-1	UMPH2	DNT1, DNT-1, PN-I, cdN, dNT-1
17	NT5C	ENSG00000125458	ENST00000584352	retained_intron	KNOWN	None	17144	None	None	73126531	73127143	-1	UMPH2	DNT1, DNT-1, PN-I, cdN, dNT-1
17	NT5C	ENSG00000125458	ENST00000582170	protein_coding	PUTATIVE	None	17144	549	182	73126568	73127839	-1	UMPH2	DNT1, DNT-1, PN-I, cdN, dNT-1
17	NT5C	ENSG00000125458	ENST00000579023	retained_intron	KNOWN	None	17144	None	None	73126641	73127825	-1	UMPH2	DNT1, DNT-1, PN-I, cdN, dNT-1
17	NT5C	ENSG00000125458	ENST00000578337	protein_coding	PUTATIVE	None	17144	120	39	73126663	73127416	-1	UMPH2	DNT1, DNT-1, PN-I, cdN, dNT-1
17	NT5C	ENSG00000125458	ENST00000578095	retained_intron	KNOWN	None	17144	None	None	73126666	73127852	-1	UMPH2	DNT1, DNT-1, PN-I, cdN, dNT-1
17	NT5C	ENSG00000125458	ENST00000579082	processed_transcript	KNOWN	None	17144	None	None	73126883	73127809	-1	UMPH2	DNT1, DNT-1, PN-I, cdN, dNT-1
6	KRT18P65	ENSG00000215807	ENST00000439811	processed_pseudogene	KNOWN	None	48892	None	None	112682639	112683924	-1	None	None
6	KRT18P65	ENSG00000215807	ENST00000399684	processed_pseudogene	KNOWN	None	48892	None	None	112683278	112684039	-1	None	None
20	None	ENSG00000265306	ENST00000585001	miRNA	KNOWN	None	None	None	None	60639858	60639941	1	None	None
6	None	ENSG00000266485	ENST00000583484	miRNA	NOVEL	None	None	None	None	112683050	112683141	-1	None	None
11	TMEM218	ENSG00000150433	ENST00000531909	protein_coding	KNOWN	CCDS31715	27344	348	115	124966441	124981604	-1	None	None
11	TMEM218	ENSG00000150433	ENST00000527257	retained_intron	KNOWN	None	27344	None	None	124966931	124974937	-1	None	None
11	TMEM218	ENSG00000150433	ENST00000528724	protein_coding	PUTATIVE	None	27344	426	141	124966967	124972705	-1	None	None
11	TMEM218	ENSG00000150433	ENST00000531262	processed_transcript	KNOWN	None	27344	None	None	124967038	124981513	-1	None	None
11	TMEM218	ENSG00000150433	ENST00000532156	protein_coding	PUTATIVE	None	27344	138	45	124967139	124981475	-1	None	None
11	TMEM218	ENSG00000150433	ENST00000532407	protein_coding	PUTATIVE	CCDS31715	27344	348	115	124967140	124981475	-1	None	None
11	TMEM218	ENSG00000150433	ENST00000279968	protein_coding	PUTATIVE	CCDS31715	27344	348	115	124967140	124981475	-1	None	None
11	TMEM218	ENSG00000150433	ENST00000531851	retained_intron	KNOWN	None	27344	None	None	124967153	124981485	-1	None	None
11	TMEM218	ENSG00000150433	ENST00000526175	protein_coding	PUTATIVE	CCDS31715	27344	348	115	124967222	124981512	-1	None	None
11	TMEM218	ENSG00000150433	ENST00000527766	protein_coding	PUTATIVE	CCDS31715	27344	348	115	124967235	124981494	-1	None	None
11	TMEM218	ENSG00000150433	ENST00000529609	protein_coding	PUTATIVE	None	27344	138	45	124967338	124981517	-1	None	None
11	TMEM218	ENSG00000150433	ENST00000529583	protein_coding	PUTATIVE	CCDS31715	27344	348	115	124967382	124981500	-1	None	None
11	TMEM218	ENSG00000150433	ENST00000527271	protein_coding	PUTATIVE	CCDS31715	27344	348	115	124967426	124981509	-1	None	None
11	TMEM218	ENSG00000150433	ENST00000524373	protein_coding	PUTATIVE	None	27344	212	69	124971098	124981507	-1	None	None
11	TMEM218	ENSG00000150433	ENST00000533273	protein_coding	PUTATIVE	None	27344	211	69	124971099	124981528	-1	None	None
11	TMEM218	ENSG00000150433	ENST00000529530	protein_coding	PUTATIVE	None	27344	158	51	124971152	124981659	-1	None	None
11	TMEM218	ENSG00000150433	ENST00000532717	retained_intron	KNOWN	None	27344	None	None	124972201	124981528	-1	None	None
11	TMEM218	ENSG00000150433	ENST00000455225	protein_coding	KNOWN	CCDS31715	27344	348	115	124966398	124973205	-1	None	None
6	FEM1AP3	ENSG00000217770	ENST00000403722	processed_pseudogene	KNOWN	None	39831	None	None	112686906	112688646	-1	None	None
1	None	ENSG00000267884	ENST00000595430	protein_coding	KNOWN	None	None	396	131	166026679	166028709	-1	None	None
HSCHR6_MHC_MCF	TAPBP	ENSG00000206208	ENST00000495024	processed_transcript	PUTATIVE	None	11566	None	None	33437818	33452366	-1	None	TAPA
HSCHR6_MHC_MCF	TAPBP	ENSG00000206208	ENST00000383067	protein_coding	KNOWN	None	11566	1401	466	33437818	33452373	-1	None	TAPA
HSCHR6_MHC_MCF	TAPBP	ENSG00000206208	ENST00000383066	protein_coding	KNOWN	None	11566	1347	448	33437818	33452509	-1	None	TAPA
HSCHR6_MHC_MCF	TAPBP	ENSG00000206208	ENST00000459684	processed_transcript	PUTATIVE	None	11566	None	None	33437855	33452178	-1	None	TAPA
HSCHR6_MHC_MCF	TAPBP	ENSG00000206208	ENST00000383065	protein_coding	KNOWN	None	11566	1515	504	33441761	33452334	-1	None	TAPA
HSCHR6_MHC_MCF	TAPBP	ENSG00000206208	ENST00000481172	retained_intron	KNOWN	None	11566	None	None	33441787	33452171	-1	None	TAPA
HSCHR6_MHC_MCF	TAPBP	ENSG00000206208	ENST00000479706	processed_transcript	PUTATIVE	None	11566	None	None	33442392	33452163	-1	None	TAPA
HSCHR6_MHC_MCF	TAPBP	ENSG00000206208	ENST00000444432	protein_coding	KNOWN	None	11566	607	201	33443113	33452168	-1	None	TAPA
HSCHR6_MHC_MCF	TAPBP	ENSG00000206208	ENST00000464179	processed_transcript	PUTATIVE	None	11566	None	None	33451136	33452077	-1	None	TAPA
HSCHR6_MHC_MCF	TAPBP	ENSG00000206208	ENST00000551943	protein_coding	KNOWN	None	11566	1086	361	33437821	33452509	-1	None	TAPA
HSCHR6_MHC_MCF	TAPBP	ENSG00000206208	ENST00000546700	protein_coding	KNOWN	None	11566	1347	448	33441899	33452509	-1	None	TAPA
HSCHR6_MHC_MCF	TAPBP	ENSG00000206208	ENST00000550794	protein_coding	KNOWN	None	11566	471	156	33442424	33452509	-1	None	TAPA
20	None	ENSG00000226332	ENST00000414042	antisense	KNOWN	None	None	None	None	60880488	60881381	-1	None	None
6	RPSAP2	ENSG00000237425	ENST00000416785	processed_pseudogene	KNOWN	None	18771	None	None	28699794	28700681	1	LAMR1P2	bA60E24.1
10	TNPO1P1	ENSG00000225423	ENST00000423641	processed_pseudogene	KNOWN	None	45120	None	None	86150664	86151801	1	None	None
9	None	ENSG00000234042	ENST00000452635	processed_pseudogene	KNOWN	None	None	None	None	68298799	68299489	1	None	None
19	CXCL17	ENSG00000189377	ENST00000601181	protein_coding	KNOWN	CCDS12608	19232	360	119	42932440	42947200	-1	None	Dcip1, UNQ473, DMC, VCC1
19	CXCL17	ENSG00000189377	ENST00000341918	nonsense_mediated_decay	KNOWN	None	19232	189	62	42932685	42947004	-1	None	Dcip1, UNQ473, DMC, VCC1
19	KLK12	ENSG00000186474	ENST00000525263	protein_coding	KNOWN	CCDS12821	6360	747	248	51532348	51537997	-1	None	KLK-L5
19	KLK12	ENSG00000186474	ENST00000530943	nonsense_mediated_decay	KNOWN	None	6360	240	79	51532350	51538118	-1	None	KLK-L5
19	KLK12	ENSG00000186474	ENST00000526824	nonsense_mediated_decay	KNOWN	None	6360	240	79	51532350	51538486	-1	None	KLK-L5
19	KLK12	ENSG00000186474	ENST00000531374	nonsense_mediated_decay	KNOWN	None	6360	534	177	51532386	51538118	-1	None	KLK-L5
19	KLK12	ENSG00000186474	ENST00000529888	protein_coding	KNOWN	CCDS54298	6360	336	111	51532386	51538118	-1	None	KLK-L5
19	KLK12	ENSG00000186474	ENST00000250351	protein_coding	KNOWN	CCDS12820	6360	765	254	51532411	51538148	-1	None	KLK-L5
19	KLK12	ENSG00000186474	ENST00000250352	protein_coding	KNOWN	None	6360	435	144	51532350	51538486	-1	None	KLK-L5
19	KLK12	ENSG00000186474	ENST00000319590	protein_coding	KNOWN	CCDS12821	6360	747	248	51532348	51538148	-1	None	KLK-L5
4	None	ENSG00000249309	ENST00000505051	antisense	KNOWN	None	None	None	None	154641479	154648874	1	None	None
9	None	ENSG00000268951	ENST00000444097	processed_pseudogene	KNOWN	None	None	None	None	68315598	68316175	1	None	None
6	None	ENSG00000232299	ENST00000446322	lincRNA	KNOWN	None	None	None	None	112797740	112802838	-1	None	None
3	ATP13A4	ENSG00000127249	ENST00000400270	protein_coding	KNOWN	None	25422	639	212	193119866	193136772	-1	None	DKFZp761I1011, FLJ37958
3	ATP13A4	ENSG00000127249	ENST00000428352	nonsense_mediated_decay	KNOWN	None	25422	1730	575	193119867	193185137	-1	None	DKFZp761I1011, FLJ37958
3	ATP13A4	ENSG00000127249	ENST00000450950	nonsense_mediated_decay	KNOWN	None	25422	252	83	193120139	193272658	-1	None	DKFZp761I1011, FLJ37958
3	ATP13A4	ENSG00000127249	ENST00000392443	protein_coding	NOVEL	None	25422	3534	1177	193120147	193272776	-1	None	DKFZp761I1011, FLJ37958
3	ATP13A4	ENSG00000127249	ENST00000342695	protein_coding	KNOWN	CCDS3304	25422	3591	1196	193120147	193272911	-1	None	DKFZp761I1011, FLJ37958
3	ATP13A4	ENSG00000127249	ENST00000482964	processed_transcript	KNOWN	None	25422	None	None	193120289	193130160	-1	None	DKFZp761I1011, FLJ37958
3	ATP13A4	ENSG00000127249	ENST00000474776	retained_intron	KNOWN	None	25422	None	None	193151649	193156884	-1	None	DKFZp761I1011, FLJ37958
3	ATP13A4	ENSG00000127249	ENST00000437904	nonsense_mediated_decay	KNOWN	None	25422	367	121	193156283	193160341	-1	None	DKFZp761I1011, FLJ37958
3	ATP13A4	ENSG00000127249	ENST00000490925	retained_intron	KNOWN	None	25422	None	None	193157904	193272696	-1	None	DKFZp761I1011, FLJ37958
3	ATP13A4	ENSG00000127249	ENST00000295548	protein_coding	KNOWN	None	25422	1731	576	193176387	193272588	-1	None	DKFZp761I1011, FLJ37958
3	ATP13A4	ENSG00000127249	ENST00000489140	processed_transcript	KNOWN	None	25422	None	None	193220334	193310900	-1	None	DKFZp761I1011, FLJ37958
10	CACYBPP1	ENSG00000225928	ENST00000438592	processed_pseudogene	KNOWN	None	45122	None	None	86214435	86215812	-1	None	None
6	None	ENSG00000239095	ENST00000459116	snoRNA	NOVEL	None	None	None	None	112797928	112798029	1	None	None
9	None	ENSG00000224267	ENST00000431077	lincRNA	KNOWN	None	None	None	None	68324611	68340644	1	None	None
1	EPHA8	ENSG00000070886	ENST00000374644	protein_coding	KNOWN	CCDS30626	3391	1488	495	22890057	22916114	1	EEK	Hek3
1	EPHA8	ENSG00000070886	ENST00000166244	protein_coding	KNOWN	CCDS225	3391	3018	1005	22890057	22930087	1	EEK	Hek3
1	EPHA8	ENSG00000070886	ENST00000538803	protein_coding	KNOWN	CCDS30626	3391	1488	495	22890070	22916103	1	EEK	Hek3
6	None	ENSG00000221191	ENST00000408264	miRNA	NOVEL	None	None	None	None	28743693	28743800	1	None	None
19	None	ENSG00000268583	ENST00000595201	antisense	KNOWN	None	None	None	None	48707340	48716411	1	None	None
6	None	ENSG00000252215	ENST00000516406	miRNA	NOVEL	None	None	None	None	112853384	112853487	1	None	None
4	None	ENSG00000252181	ENST00000516372	miRNA	NOVEL	None	None	None	None	154794519	154794603	-1	None	None
6	None	ENSG00000235559	ENST00000440030	processed_pseudogene	NOVEL	None	None	None	None	28751410	28751781	-1	None	None
6	None	ENSG00000225580	ENST00000418595	processed_pseudogene	KNOWN	None	None	None	None	112937905	112939082	-1	None	None
19	None	ENSG00000268001	ENST00000602172	antisense	KNOWN	None	None	None	None	48758932	48761456	1	None	None
4	None	ENSG00000264137	ENST00000584770	miRNA	NOVEL	None	None	None	None	155140061	155140145	1	None	None
10	RPS3AP5	ENSG00000178429	ENST00000389400	processed_pseudogene	KNOWN	None	23744	None	None	86320199	86321019	1	None	bA486O22.3
6	None	ENSG00000271498	ENST00000604713	processed_pseudogene	KNOWN	None	None	None	None	113147141	113147672	1	None	None
4	None	ENSG00000249200	ENST00000513721	processed_pseudogene	KNOWN	None	None	None	None	155295038	155295499	1	None	None
9	NPDC1	ENSG00000107281	ENST00000371600	protein_coding	KNOWN	None	7899	1212	403	139933922	139938544	-1	None	DKFZp586J0523, CAB-, CAB1
9	NPDC1	ENSG00000107281	ENST00000371601	protein_coding	KNOWN	CCDS7024	7899	978	325	139933922	139940655	-1	None	DKFZp586J0523, CAB-, CAB1
9	NPDC1	ENSG00000107281	ENST00000496498	processed_transcript	KNOWN	None	7899	None	None	139934120	139934608	-1	None	DKFZp586J0523, CAB-, CAB1
9	NPDC1	ENSG00000107281	ENST00000472668	processed_transcript	KNOWN	None	7899	None	None	139934136	139934830	-1	None	DKFZp586J0523, CAB-, CAB1
9	NPDC1	ENSG00000107281	ENST00000488145	processed_transcript	KNOWN	None	7899	None	None	139935265	139940508	-1	None	DKFZp586J0523, CAB-, CAB1
9	NPDC1	ENSG00000107281	ENST00000485589	processed_transcript	KNOWN	None	7899	None	None	139937322	139940631	-1	None	DKFZp586J0523, CAB-, CAB1
9	None	ENSG00000225360	ENST00000443910	processed_pseudogene	KNOWN	None	None	None	None	68325436	68325907	1	None	None
19	TMEM161A	ENSG00000064545	ENST00000450333	protein_coding	KNOWN	CCDS58656	26020	1131	376	19229978	19249275	-1	None	FLJ39645, FLJ20422
19	TMEM161A	ENSG00000064545	ENST00000587406	retained_intron	KNOWN	None	26020	None	None	19230424	19249302	-1	None	FLJ39645, FLJ20422
19	TMEM161A	ENSG00000064545	ENST00000162044	protein_coding	KNOWN	CCDS12393	26020	1440	479	19230424	19249302	-1	None	FLJ39645, FLJ20422
19	TMEM161A	ENSG00000064545	ENST00000587985	nonsense_mediated_decay	KNOWN	None	26020	978	325	19230449	19249271	-1	None	FLJ39645, FLJ20422
19	TMEM161A	ENSG00000064545	ENST00000589448	retained_intron	KNOWN	None	26020	None	None	19230458	19249271	-1	None	FLJ39645, FLJ20422
19	TMEM161A	ENSG00000064545	ENST00000587583	protein_coding	NOVEL	None	26020	1365	454	19230469	19249256	-1	None	FLJ39645, FLJ20422
19	TMEM161A	ENSG00000064545	ENST00000591443	retained_intron	KNOWN	None	26020	None	None	19230547	19231784	-1	None	FLJ39645, FLJ20422
19	TMEM161A	ENSG00000064545	ENST00000587925	protein_coding	NOVEL	None	26020	584	193	19231669	19243210	-1	None	FLJ39645, FLJ20422
19	TMEM161A	ENSG00000064545	ENST00000587096	protein_coding	PUTATIVE	None	26020	946	314	19231893	19249276	-1	None	FLJ39645, FLJ20422
19	TMEM161A	ENSG00000064545	ENST00000591031	retained_intron	KNOWN	None	26020	None	None	19232151	19241320	-1	None	FLJ39645, FLJ20422
19	TMEM161A	ENSG00000064545	ENST00000590216	nonsense_mediated_decay	KNOWN	None	26020	123	40	19232466	19249262	-1	None	FLJ39645, FLJ20422
19	TMEM161A	ENSG00000064545	ENST00000592369	processed_transcript	KNOWN	None	26020	None	None	19241001	19249310	-1	None	FLJ39645, FLJ20422
19	TMEM161A	ENSG00000064545	ENST00000587915	protein_coding	PUTATIVE	None	26020	435	144	19241074	19249322	-1	None	FLJ39645, FLJ20422
19	TMEM161A	ENSG00000064545	ENST00000592147	protein_coding	PUTATIVE	None	26020	89	28	19243467	19249256	-1	None	FLJ39645, FLJ20422
19	TMEM161A	ENSG00000064545	ENST00000586357	retained_intron	KNOWN	None	26020	None	None	19243689	19249281	-1	None	FLJ39645, FLJ20422
9	MYO5BP3	ENSG00000228656	ENST00000431872	processed_pseudogene	KNOWN	None	38497	None	None	68357280	68358558	-1	None	None
11	TMEM133	ENSG00000170647	ENST00000303130	protein_coding	KNOWN	CCDS8309	24033	390	129	100862811	100864663	1	None	AD031
19	None	ENSG00000269662	ENST00000601077	processed_pseudogene	KNOWN	None	None	None	None	23981726	23982279	-1	None	None
4	None	ENSG00000250609	ENST00000505711	processed_pseudogene	KNOWN	None	None	None	None	155444639	155445959	1	None	None
19	None	ENSG00000268186	ENST00000600941	lincRNA	KNOWN	None	None	None	None	48766157	48774540	-1	None	None
X	MIR548F5	ENSG00000221348	ENST00000408421	miRNA	KNOWN	None	35309	None	None	32659591	32659676	-1	MIRN548F5	hsa-mir-548f-5
9	C9orf43	ENSG00000157653	ENST00000490544	processed_transcript	KNOWN	None	23570	None	None	116172334	116183431	1	None	MGC17358
9	C9orf43	ENSG00000157653	ENST00000374165	protein_coding	KNOWN	CCDS6796	23570	1386	461	116172966	116191964	1	None	MGC17358
9	C9orf43	ENSG00000157653	ENST00000288462	protein_coding	KNOWN	CCDS6796	23570	1386	461	116173022	116191964	1	None	MGC17358
10	RNA5SP311	ENSG00000238405	ENST00000411290	rRNA	KNOWN	None	43211	None	None	46742028	46742143	1	RN5S311	None
19	None	ENSG00000248146	ENST00000504608	processed_transcript	KNOWN	None	None	None	None	48809557	48825151	-1	None	None
X	DMD-AS3	ENSG00000236828	ENST00000439592	antisense	KNOWN	None	40185	None	None	32773057	32774517	1	None	None
19	None	ENSG00000267924	ENST00000599944	lincRNA	KNOWN	None	None	None	None	24000401	24057503	-1	None	None
9	CDK2AP2P3	ENSG00000226020	ENST00000422476	processed_pseudogene	KNOWN	None	38494	None	None	68370604	68370975	-1	None	None
X	None	ENSG00000238969	ENST00000459244	snoRNA	NOVEL	None	None	None	None	32866024	32866122	-1	None	None
6	RNU6-1163P	ENSG00000201386	ENST00000364516	snRNA	KNOWN	None	48126	None	None	113292695	113292801	1	None	None
5	None	ENSG00000251131	ENST00000509036	antisense	KNOWN	None	None	None	None	43018531	43024349	1	None	None
5	None	ENSG00000251131	ENST00000506791	antisense	KNOWN	None	None	None	None	43018585	43024336	1	None	None
10	GLUD1P7	ENSG00000227194	ENST00000435321	unprocessed_pseudogene	KNOWN	None	23636	None	None	46772794	46778894	1	GLUDP7	bA342C24.3
20	CDH26	ENSG00000124215	ENST00000348616	protein_coding	KNOWN	CCDS13485	15902	2499	832	58533482	58588168	1	None	VR20
20	CDH26	ENSG00000124215	ENST00000477058	processed_transcript	KNOWN	None	15902	None	None	58561069	58564208	1	None	VR20
20	CDH26	ENSG00000124215	ENST00000370991	protein_coding	KNOWN	None	15902	1334	443	58564161	58609066	1	None	VR20
20	CDH26	ENSG00000124215	ENST00000497614	processed_transcript	PUTATIVE	None	15902	None	None	58569263	58588168	1	None	VR20
20	CDH26	ENSG00000124215	ENST00000244049	protein_coding	KNOWN	None	15902	375	124	58571419	58589134	1	None	VR20
20	CDH26	ENSG00000124215	ENST00000350849	protein_coding	KNOWN	CCDS13486	15902	498	165	58571429	58589584	1	None	VR20
20	CDH26	ENSG00000124215	ENST00000456106	protein_coding	PUTATIVE	None	15902	241	79	58571449	58587597	1	None	VR20
20	CDH26	ENSG00000124215	ENST00000244047	protein_coding	KNOWN	None	15902	2559	852	58533471	58608731	1	None	VR20
2	TMEM185B	ENSG00000226479	ENST00000426077	protein_coding	KNOWN	CCDS58722	18896	1053	350	120978854	120980984	-1	FAM11B	FLJ20979
1	POGK	ENSG00000143157	ENST00000449930	protein_coding	KNOWN	None	18800	629	208	166808684	166818445	1	None	KIAA15131, LST003, BASS2, KRBOX2
1	POGK	ENSG00000143157	ENST00000367876	protein_coding	KNOWN	CCDS1254	18800	1830	609	166808694	166825581	1	None	KIAA15131, LST003, BASS2, KRBOX2
1	POGK	ENSG00000143157	ENST00000367875	protein_coding	KNOWN	CCDS1254	18800	1830	609	166809326	166823710	1	None	KIAA15131, LST003, BASS2, KRBOX2
1	POGK	ENSG00000143157	ENST00000537173	protein_coding	KNOWN	None	18800	1476	491	166808681	166822397	1	None	KIAA15131, LST003, BASS2, KRBOX2
1	POGK	ENSG00000143157	ENST00000536514	protein_coding	KNOWN	None	18800	1575	524	166808681	166819948	1	None	KIAA15131, LST003, BASS2, KRBOX2
14	TRAV38-2DV8	ENSG00000211817	ENST00000390465	TR_V_gene	KNOWN	None	12138	349	115	22748988	22749631	1	None	TRAV38-2/DV8, TRAV382DV8, TCRAV14S1, hADV38S2
X	TBCAP1	ENSG00000226781	ENST00000436520	processed_pseudogene	KNOWN	None	42630	None	None	33059512	33059838	1	None	None
19	None	ENSG00000269289	ENST00000596326	antisense	KNOWN	None	None	None	None	24101883	24140732	-1	None	None
19	None	ENSG00000269289	ENST00000598914	antisense	KNOWN	None	None	None	None	24132381	24140536	-1	None	None
4	RNU6-1285P	ENSG00000200350	ENST00000363480	snRNA	KNOWN	None	48248	None	None	155465085	155465189	-1	None	None
22	MYH9	ENSG00000100345	ENST00000216181	protein_coding	KNOWN	CCDS13927	7579	5883	1960	36677327	36784063	-1	DFNA17	NMMHCA, NMHC-II-A, MHA, FTNS, EPSTS
22	MYH9	ENSG00000100345	ENST00000475726	processed_transcript	KNOWN	None	7579	None	None	36680208	36682090	-1	DFNA17	NMMHCA, NMHC-II-A, MHA, FTNS, EPSTS
22	MYH9	ENSG00000100345	ENST00000486218	retained_intron	KNOWN	None	7579	None	None	36680260	36682067	-1	DFNA17	NMMHCA, NMHC-II-A, MHA, FTNS, EPSTS
22	MYH9	ENSG00000100345	ENST00000459960	retained_intron	KNOWN	None	7579	None	None	36691558	36693369	-1	DFNA17	NMMHCA, NMHC-II-A, MHA, FTNS, EPSTS
22	MYH9	ENSG00000100345	ENST00000495928	processed_transcript	PUTATIVE	None	7579	None	None	36696956	36697760	-1	DFNA17	NMMHCA, NMHC-II-A, MHA, FTNS, EPSTS
22	MYH9	ENSG00000100345	ENST00000473022	retained_intron	KNOWN	None	7579	None	None	36698354	36700071	-1	DFNA17	NMMHCA, NMHC-II-A, MHA, FTNS, EPSTS
22	MYH9	ENSG00000100345	ENST00000477189	retained_intron	KNOWN	None	7579	None	None	36712558	36715880	-1	DFNA17	NMMHCA, NMHC-II-A, MHA, FTNS, EPSTS
22	MYH9	ENSG00000100345	ENST00000472210	processed_transcript	PUTATIVE	None	7579	None	None	36716286	36717967	-1	DFNA17	NMMHCA, NMHC-II-A, MHA, FTNS, EPSTS
22	MYH9	ENSG00000100345	ENST00000463027	processed_transcript	KNOWN	None	7579	None	None	36716319	36724997	-1	DFNA17	NMMHCA, NMHC-II-A, MHA, FTNS, EPSTS
22	MYH9	ENSG00000100345	ENST00000401701	protein_coding	NOVEL	None	7579	657	218	36721078	36761157	-1	DFNA17	NMMHCA, NMHC-II-A, MHA, FTNS, EPSTS
22	MYH9	ENSG00000100345	ENST00000456729	protein_coding	KNOWN	None	7579	309	102	36744973	36761156	-1	DFNA17	NMMHCA, NMHC-II-A, MHA, FTNS, EPSTS
4	None	ENSG00000248611	ENST00000507985	processed_pseudogene	KNOWN	None	None	None	None	155476360	155477137	1	None	None
19	None	ENSG00000267531	ENST00000539076	protein_coding	NOVEL	None	None	390	129	55851254	55856561	1	None	None
X	None	ENSG00000215310	ENST00000399993	processed_pseudogene	KNOWN	None	None	None	None	33429061	33430290	1	None	None
19	None	ENSG00000269397	ENST00000594230	sense_intronic	KNOWN	None	None	None	None	24110590	24112089	1	None	None
15	None	ENSG00000259507	ENST00000557841	processed_pseudogene	KNOWN	None	None	None	None	99010069	99010641	1	None	None
4	None	ENSG00000249074	ENST00000506966	processed_pseudogene	KNOWN	None	None	None	None	155645738	155646032	1	None	None
19	ZNF92P3	ENSG00000269421	ENST00000596594	unprocessed_pseudogene	KNOWN	None	39555	None	None	24118022	24118975	1	None	None
15	None	ENSG00000259424	ENST00000560221	antisense	KNOWN	None	None	None	None	99190180	99190600	-1	None	None
7	MDFIC	ENSG00000135272	ENST00000393486	protein_coding	KNOWN	CCDS55155	28870	741	246	114562209	114659256	1	None	HIC
7	MDFIC	ENSG00000135272	ENST00000257724	protein_coding	KNOWN	CCDS34737	28870	1068	355	114562209	114659256	1	None	HIC
7	MDFIC	ENSG00000135272	ENST00000448022	protein_coding	PUTATIVE	None	28870	132	43	114562616	114563720	1	None	HIC
7	MDFIC	ENSG00000135272	ENST00000423503	protein_coding	PUTATIVE	None	28870	132	43	114562909	114563713	1	None	HIC
7	MDFIC	ENSG00000135272	ENST00000431629	nonsense_mediated_decay	KNOWN	None	28870	471	156	114563119	114656015	1	None	HIC
7	MDFIC	ENSG00000135272	ENST00000427207	protein_coding	PUTATIVE	None	28870	471	156	114563131	114620139	1	None	HIC
7	MDFIC	ENSG00000135272	ENST00000498196	protein_coding	PUTATIVE	None	28870	406	134	114573924	114655819	1	None	HIC
22	CHADL	ENSG00000100399	ENST00000417999	protein_coding	KNOWN	None	25165	2054	683	41625517	41635625	-1	None	SLRR4B
22	CHADL	ENSG00000100399	ENST00000216241	protein_coding	KNOWN	CCDS46715	25165	2289	762	41625517	41636938	-1	None	SLRR4B
22	CHADL	ENSG00000100399	ENST00000455425	protein_coding	PUTATIVE	None	25165	758	251	41631144	41636898	-1	None	SLRR4B
1	None	ENSG00000223643	ENST00000414340	lincRNA	KNOWN	None	None	None	None	17177752	17179294	-1	None	None
1	None	ENSG00000223643	ENST00000422345	lincRNA	KNOWN	None	None	None	None	17177816	17179624	-1	None	None
5	GRPEL2	ENSG00000164284	ENST00000513661	protein_coding	PUTATIVE	None	21060	387	128	148724993	148729421	1	None	DKFZp451C205, Mt-GrpE#2, FLJ23713
5	GRPEL2	ENSG00000164284	ENST00000329271	protein_coding	KNOWN	CCDS4295	21060	678	225	148724993	148734146	1	None	DKFZp451C205, Mt-GrpE#2, FLJ23713
5	GRPEL2	ENSG00000164284	ENST00000416916	protein_coding	PUTATIVE	None	21060	369	122	148725065	148731217	1	None	DKFZp451C205, Mt-GrpE#2, FLJ23713
5	GRPEL2	ENSG00000164284	ENST00000507562	processed_transcript	KNOWN	None	21060	None	None	148725182	148734146	1	None	DKFZp451C205, Mt-GrpE#2, FLJ23713
X	None	ENSG00000233928	ENST00000439992	lincRNA	KNOWN	None	None	None	None	33744625	33960397	1	None	None
X	None	ENSG00000233928	ENST00000445233	lincRNA	KNOWN	None	None	None	None	33760235	33960352	1	None	None
4	None	ENSG00000249413	ENST00000508572	lincRNA	KNOWN	None	None	None	None	66864564	67015730	1	None	None
6	FCF1P10	ENSG00000218490	ENST00000407590	processed_pseudogene	KNOWN	None	44622	None	None	113332139	113332617	1	None	None
22	HPS4	ENSG00000100099	ENST00000519774	processed_transcript	KNOWN	None	15844	None	None	26839389	26859981	-1	None	KIAA1667, LE
22	HPS4	ENSG00000100099	ENST00000493455	processed_transcript	KNOWN	None	15844	None	None	26840193	26860158	-1	None	KIAA1667, LE
22	HPS4	ENSG00000100099	ENST00000491142	processed_transcript	KNOWN	None	15844	None	None	26847446	26848858	-1	None	KIAA1667, LE
22	HPS4	ENSG00000100099	ENST00000398145	protein_coding	KNOWN	CCDS13835	15844	2127	708	26847446	26879778	-1	None	KIAA1667, LE
22	HPS4	ENSG00000100099	ENST00000429411	nonsense_mediated_decay	KNOWN	None	15844	576	191	26848049	26875414	-1	None	KIAA1667, LE
22	HPS4	ENSG00000100099	ENST00000464362	nonsense_mediated_decay	KNOWN	None	15844	504	167	26848049	26875512	-1	None	KIAA1667, LE
22	HPS4	ENSG00000100099	ENST00000402105	protein_coding	KNOWN	CCDS46677	15844	2112	703	26848049	26875647	-1	None	KIAA1667, LE
22	HPS4	ENSG00000100099	ENST00000336873	protein_coding	KNOWN	CCDS13835	15844	2127	708	26848049	26879761	-1	None	KIAA1667, LE
22	HPS4	ENSG00000100099	ENST00000439453	nonsense_mediated_decay	KNOWN	None	15844	591	196	26848049	26879802	-1	None	KIAA1667, LE
22	HPS4	ENSG00000100099	ENST00000466781	retained_intron	KNOWN	None	15844	None	None	26848049	26879803	-1	None	KIAA1667, LE
22	HPS4	ENSG00000100099	ENST00000496385	retained_intron	KNOWN	None	15844	None	None	26849078	26875454	-1	None	KIAA1667, LE
22	HPS4	ENSG00000100099	ENST00000485842	retained_intron	KNOWN	None	15844	None	None	26849612	26868916	-1	None	KIAA1667, LE
22	HPS4	ENSG00000100099	ENST00000422379	protein_coding	NOVEL	None	15844	1445	480	26860205	26879749	-1	None	KIAA1667, LE
22	HPS4	ENSG00000100099	ENST00000459918	processed_transcript	KNOWN	None	15844	None	None	26861487	26872977	-1	None	KIAA1667, LE
22	HPS4	ENSG00000100099	ENST00000481910	retained_intron	KNOWN	None	15844	None	None	26871336	26875377	-1	None	KIAA1667, LE
22	HPS4	ENSG00000100099	ENST00000483631	processed_transcript	KNOWN	None	15844	None	None	26872957	26879802	-1	None	KIAA1667, LE
22	HPS4	ENSG00000100099	ENST00000479064	processed_transcript	KNOWN	None	15844	None	None	26877801	26879802	-1	None	KIAA1667, LE
22	HPS4	ENSG00000100099	ENST00000473782	processed_transcript	KNOWN	None	15844	None	None	26877824	26879794	-1	None	KIAA1667, LE
22	HPS4	ENSG00000100099	ENST00000398141	protein_coding	KNOWN	None	15844	2166	721	26847446	26875347	-1	None	KIAA1667, LE
19	RNA5-8SP4	ENSG00000201966	ENST00000365096	rRNA	KNOWN	None	41958	None	None	24187160	24187309	-1	RN5-8S4	None
X	PABPC5	ENSG00000174740	ENST00000373105	protein_coding	KNOWN	None	13629	657	218	90689594	90691999	1	None	PABP5
X	PABPC5	ENSG00000174740	ENST00000312600	protein_coding	KNOWN	CCDS14460	13629	1149	382	90689823	90693583	1	None	PABP5
4	None	ENSG00000249041	ENST00000515071	antisense	KNOWN	None	None	None	None	155675908	155703025	-1	None	None
4	None	ENSG00000272304	ENST00000513540	lincRNA	KNOWN	None	None	None	None	66868999	66882510	1	None	None
19	None	ENSG00000268362	ENST00000594934	lincRNA	KNOWN	None	None	None	None	24216247	24249711	1	None	None
19	None	ENSG00000268362	ENST00000597683	lincRNA	KNOWN	None	None	None	None	24216251	24249490	1	None	None
X	FTH1P14	ENSG00000185638	ENST00000482930	processed_pseudogene	KNOWN	None	39090	None	None	34165153	34165703	1	None	None
4	None	ENSG00000236562	ENST00000505282	processed_pseudogene	KNOWN	None	None	None	None	66959860	66960244	1	None	None
4	None	ENSG00000236562	ENST00000443143	processed_pseudogene	KNOWN	None	None	None	None	66959844	66960242	1	None	None
1	None	ENSG00000230239	ENST00000414128	lincRNA	KNOWN	None	None	None	None	17181902	17185779	1	None	None
14	TRAV39	ENSG00000211818	ENST00000390466	TR_V_gene	KNOWN	None	12139	331	109	22771939	22772438	1	None	TCRAV27S1, TCRAV39S1
X	None	ENSG00000233571	ENST00000412652	lincRNA	KNOWN	None	None	None	None	34224842	34433654	-1	None	None
16	BCAR4	ENSG00000262117	ENST00000571259	lincRNA	KNOWN	None	22170	None	None	11913686	11922685	-1	None	None
16	BCAR4	ENSG00000262117	ENST00000573037	lincRNA	KNOWN	None	22170	None	None	11913687	11922689	-1	None	None
16	BCAR4	ENSG00000262117	ENST00000571158	lincRNA	KNOWN	None	22170	None	None	11913699	11922702	-1	None	None
16	BCAR4	ENSG00000262117	ENST00000573319	lincRNA	KNOWN	None	22170	None	None	11913707	11922668	-1	None	None
16	BCAR4	ENSG00000262117	ENST00000574028	lincRNA	KNOWN	None	22170	None	None	11913805	11922675	-1	None	None
16	BCAR4	ENSG00000262117	ENST00000577041	lincRNA	KNOWN	None	22170	None	None	11914008	11922668	-1	None	None
4	MIR1269A	ENSG00000221563	ENST00000408636	miRNA	KNOWN	None	35337	None	None	67142542	67142646	1	MIRN1269, MIR1269	hsa-mir-1269
4	RPS23P3	ENSG00000244099	ENST00000470993	processed_pseudogene	KNOWN	None	35499	None	None	67296810	67297239	1	None	None
19	None	ENSG00000268058	ENST00000596017	processed_pseudogene	KNOWN	None	None	None	None	24281227	24281782	-1	None	None
1	MIR3675	ENSG00000263811	ENST00000583661	miRNA	KNOWN	None	38973	None	None	17185444	17185516	-1	None	hsa-mir-3675
4	RNU6-699P	ENSG00000252890	ENST00000517081	snRNA	KNOWN	None	47662	None	None	67762980	67763089	1	None	None
19	HAVCR1P1	ENSG00000268442	ENST00000598671	processed_pseudogene	KNOWN	None	44033	None	None	24345172	24346227	-1	None	None
4	None	ENSG00000250075	ENST00000502400	lincRNA	KNOWN	None	None	None	None	68283023	68333969	-1	None	None
4	None	ENSG00000250075	ENST00000503987	lincRNA	KNOWN	None	None	None	None	68284260	68286772	-1	None	None
4	None	ENSG00000250075	ENST00000505155	lincRNA	KNOWN	None	None	None	None	68286477	68287718	-1	None	None
Y	RAB9AP4	ENSG00000235479	ENST00000415230	unprocessed_pseudogene	KNOWN	None	38108	None	None	20811557	20812165	1	None	None
1	None	ENSG00000228549	ENST00000438002	lincRNA	KNOWN	None	None	None	None	17197440	17200574	1	None	None
1	None	ENSG00000228549	ENST00000451828	lincRNA	KNOWN	None	None	None	None	17198753	17200536	1	None	None
1	None	ENSG00000228549	ENST00000453554	lincRNA	KNOWN	None	None	None	None	17198779	17200539	1	None	None
1	None	ENSG00000228549	ENST00000457856	lincRNA	KNOWN	None	None	None	None	17199534	17200587	1	None	None
1	None	ENSG00000228549	ENST00000362684	snRNA	KNOWN	None	None	None	None	17200203	17200346	1	None	None
5	ALDH7A1P1	ENSG00000251400	ENST00000510973	processed_pseudogene	KNOWN	None	878	None	None	76586093	76587625	1	ATQL1	None
6	RPL31P33	ENSG00000218049	ENST00000407447	processed_pseudogene	KNOWN	None	36886	None	None	53233468	53233807	1	None	None
19	None	ENSG00000267696	ENST00000600419	lincRNA	KNOWN	None	None	None	None	28129391	28131546	-1	None	None
19	None	ENSG00000267696	ENST00000598435	lincRNA	KNOWN	None	None	None	None	28129391	28131546	-1	None	None
19	None	ENSG00000267696	ENST00000589010	lincRNA	KNOWN	None	None	None	None	28129417	28137391	-1	None	None
20	MIR4758	ENSG00000265329	ENST00000577688	miRNA	KNOWN	None	41836	None	None	60907543	60907613	-1	None	hsa-mir-4758
5	RPS2P24	ENSG00000244019	ENST00000494599	processed_pseudogene	KNOWN	None	35887	None	None	76841222	76842091	1	None	None
6	None	ENSG00000218261	ENST00000402839	processed_pseudogene	KNOWN	None	None	None	None	53243301	53243659	1	None	None
6	None	ENSG00000271338	ENST00000605511	processed_pseudogene	KNOWN	None	None	None	None	53246317	53247001	1	None	None
4	RNU1-63P	ENSG00000206629	ENST00000383902	snRNA	KNOWN	None	48405	None	None	68295309	68295472	-1	None	None
19	LPAR2	ENSG00000064547	ENST00000586703	protein_coding	KNOWN	CCDS12407	3168	1056	351	19734477	19739017	-1	EDG4	EDG-4, LPA2
19	LPAR2	ENSG00000064547	ENST00000407877	protein_coding	KNOWN	CCDS12407	3168	1056	351	19734478	19739048	-1	EDG4	EDG-4, LPA2
19	LPAR2	ENSG00000064547	ENST00000542587	protein_coding	KNOWN	CCDS12407	3168	1056	351	19734478	19739739	-1	EDG4	EDG-4, LPA2
19	LPAR2	ENSG00000064547	ENST00000591042	protein_coding	KNOWN	None	3168	241	79	19737853	19739024	-1	EDG4	EDG-4, LPA2
19	LPAR2	ENSG00000064547	ENST00000588233	protein_coding	KNOWN	None	3168	224	73	19737870	19739570	-1	EDG4	EDG-4, LPA2
19	LPAR2	ENSG00000064547	ENST00000592061	protein_coding	KNOWN	None	3168	76	24	19738018	19738609	-1	EDG4	EDG-4, LPA2
19	LPAR2	ENSG00000064547	ENST00000588461	protein_coding	KNOWN	None	3168	61	19	19738033	19739338	-1	EDG4	EDG-4, LPA2
19	LPAR2	ENSG00000064547	ENST00000590629	retained_intron	KNOWN	None	3168	None	None	19738314	19739030	-1	EDG4	EDG-4, LPA2
19	LPAR2	ENSG00000064547	ENST00000589311	processed_transcript	KNOWN	None	3168	None	None	19738657	19739359	-1	EDG4	EDG-4, LPA2
5	None	ENSG00000244363	ENST00000493874	processed_pseudogene	KNOWN	None	None	None	None	76878201	76878947	1	None	None
5	None	ENSG00000244363	ENST00000593668	processed_pseudogene	KNOWN	None	None	None	None	76878198	76879010	1	None	None
5	None	ENSG00000249643	ENST00000505538	antisense	KNOWN	None	None	None	None	124073092	124073698	1	None	None
2	RALB	ENSG00000144118	ENST00000447591	protein_coding	PUTATIVE	None	9840	515	170	120997640	121047281	1	None	None
2	RALB	ENSG00000144118	ENST00000272519	protein_coding	KNOWN	CCDS2131	9840	621	206	121010334	121052289	1	None	None
2	RALB	ENSG00000144118	ENST00000420510	protein_coding	NOVEL	CCDS2131	9840	621	206	121010381	121051241	1	None	None
2	RALB	ENSG00000144118	ENST00000431732	nonsense_mediated_decay	KNOWN	None	9840	141	46	121010426	121050731	1	None	None
2	RALB	ENSG00000144118	ENST00000470417	processed_transcript	KNOWN	None	9840	None	None	121010451	121052252	1	None	None
2	RALB	ENSG00000144118	ENST00000412383	protein_coding	KNOWN	None	9840	501	166	121010875	121047333	1	None	None
2	RALB	ENSG00000144118	ENST00000449649	protein_coding	NOVEL	None	9840	336	111	121011027	121047168	1	None	None
2	RALB	ENSG00000144118	ENST00000474855	protein_coding	KNOWN	None	9840	687	228	120997640	121051689	1	None	None
2	RALB	ENSG00000144118	ENST00000404963	protein_coding	KNOWN	None	9840	684	227	121010429	121052285	1	None	None
19	ABCA7	ENSG00000064687	ENST00000263094	protein_coding	KNOWN	CCDS12055	37	6441	2146	1040102	1065568	1	None	ABCX
19	ABCA7	ENSG00000064687	ENST00000530703	retained_intron	KNOWN	None	37	None	None	1040115	1041681	1	None	ABCX
19	ABCA7	ENSG00000064687	ENST00000524850	protein_coding	KNOWN	None	37	492	163	1040119	1042390	1	None	ABCX
19	ABCA7	ENSG00000064687	ENST00000526885	retained_intron	KNOWN	None	37	None	None	1040122	1042743	1	None	ABCX
19	ABCA7	ENSG00000064687	ENST00000525238	retained_intron	KNOWN	None	37	None	None	1040126	1042464	1	None	ABCX
19	ABCA7	ENSG00000064687	ENST00000531467	protein_coding	KNOWN	None	37	409	135	1041201	1042175	1	None	ABCX
19	ABCA7	ENSG00000064687	ENST00000527496	retained_intron	KNOWN	None	37	None	None	1041204	1042103	1	None	ABCX
19	ABCA7	ENSG00000064687	ENST00000435683	protein_coding	NOVEL	None	37	6027	2008	1042661	1065424	1	None	ABCX
19	ABCA7	ENSG00000064687	ENST00000533574	processed_transcript	KNOWN	None	37	None	None	1045531	1047553	1	None	ABCX
19	ABCA7	ENSG00000064687	ENST00000530092	nonsense_mediated_decay	KNOWN	None	37	185	60	1054077	1055938	1	None	ABCX
19	ABCA7	ENSG00000064687	ENST00000525073	protein_coding	NOVEL	None	37	1774	590	1056933	1065568	1	None	ABCX
19	ABCA7	ENSG00000064687	ENST00000529442	retained_intron	KNOWN	None	37	None	None	1057039	1058156	1	None	ABCX
19	ABCA7	ENSG00000064687	ENST00000532194	retained_intron	KNOWN	None	37	None	None	1057039	1059262	1	None	ABCX
19	ABCA7	ENSG00000064687	ENST00000525939	retained_intron	KNOWN	None	37	None	None	1062260	1063944	1	None	ABCX
19	ABCA7	ENSG00000064687	ENST00000531478	retained_intron	KNOWN	None	37	None	None	1064051	1065571	1	None	ABCX
19	ABCA7	ENSG00000064687	ENST00000524383	processed_transcript	KNOWN	None	37	None	None	1064658	1065327	1	None	ABCX
19	ABCA7	ENSG00000064687	ENST00000433129	protein_coding	KNOWN	CCDS12055	37	6441	2146	1041361	1065568	1	None	ABCX
5	HIGD1AP3	ENSG00000248929	ENST00000515857	processed_pseudogene	KNOWN	None	42998	None	None	174059935	174060212	1	None	None
5	None	ENSG00000242814	ENST00000464124	processed_pseudogene	KNOWN	None	None	None	None	124144521	124144926	-1	None	None
1	None	ENSG00000238142	ENST00000422124	lincRNA	KNOWN	None	None	None	None	17215033	17215868	-1	None	None
1	None	ENSG00000238142	ENST00000416869	lincRNA	KNOWN	None	None	None	None	17215037	17216137	-1	None	None
1	None	ENSG00000238142	ENST00000457075	lincRNA	KNOWN	None	None	None	None	17215037	17216144	-1	None	None
19	LINC00662	ENSG00000261824	ENST00000588027	lincRNA	KNOWN	None	27122	None	None	28175488	28284286	-1	None	None
19	LINC00662	ENSG00000261824	ENST00000590677	lincRNA	KNOWN	None	27122	None	None	28206694	28284302	-1	None	None
19	LINC00662	ENSG00000261824	ENST00000588150	lincRNA	KNOWN	None	27122	None	None	28213937	28262740	-1	None	None
19	LINC00662	ENSG00000261824	ENST00000561521	lincRNA	KNOWN	None	27122	None	None	28221181	28237138	-1	None	None
19	LINC00662	ENSG00000261824	ENST00000586248	lincRNA	KNOWN	None	27122	None	None	28264871	28284286	-1	None	None
19	LINC00662	ENSG00000261824	ENST00000586954	lincRNA	KNOWN	None	27122	None	None	28266665	28284279	-1	None	None
19	LINC00662	ENSG00000261824	ENST00000591338	lincRNA	KNOWN	None	27122	None	None	28269548	28283939	-1	None	None
19	LINC00662	ENSG00000261824	ENST00000590523	lincRNA	KNOWN	None	27122	None	None	28281399	28284848	-1	None	None
19	LINC00662	ENSG00000261824	ENST00000591458	lincRNA	KNOWN	None	27122	None	None	28282611	28284286	-1	None	None
16	RNU6-1043P	ENSG00000222287	ENST00000410355	snRNA	KNOWN	None	48006	None	None	30712658	30712756	-1	None	None
5	None	ENSG00000248443	ENST00000511091	lincRNA	KNOWN	None	None	None	None	124165165	124165983	1	None	None
16	SNORA30	ENSG00000206755	ENST00000384028	snoRNA	KNOWN	None	32620	None	None	30721858	30721986	1	None	ACA30
5	ACTBP2	ENSG00000213763	ENST00000515712	processed_pseudogene	KNOWN	None	135	None	None	77080705	77081827	1	None	None
5	None	ENSG00000249261	ENST00000510242	lincRNA	KNOWN	None	None	None	None	124204665	124205607	-1	None	None
17	OSBPL7	ENSG00000006025	ENST00000007414	protein_coding	KNOWN	CCDS11515	16387	2529	842	45884738	45899136	-1	None	ORP7, MGC71150
17	OSBPL7	ENSG00000006025	ENST00000583167	retained_intron	KNOWN	None	16387	None	None	45884739	45894367	-1	None	ORP7, MGC71150
17	OSBPL7	ENSG00000006025	ENST00000579728	nonsense_mediated_decay	KNOWN	None	16387	1263	420	45884740	45898224	-1	None	ORP7, MGC71150
17	OSBPL7	ENSG00000006025	ENST00000578461	nonsense_mediated_decay	KNOWN	None	16387	60	19	45885582	45886481	-1	None	ORP7, MGC71150
17	OSBPL7	ENSG00000006025	ENST00000580140	retained_intron	KNOWN	None	16387	None	None	45892654	45899169	-1	None	ORP7, MGC71150
17	OSBPL7	ENSG00000006025	ENST00000580808	retained_intron	KNOWN	None	16387	None	None	45893632	45894290	-1	None	ORP7, MGC71150
17	OSBPL7	ENSG00000006025	ENST00000584698	retained_intron	KNOWN	None	16387	None	None	45893953	45896504	-1	None	ORP7, MGC71150
17	OSBPL7	ENSG00000006025	ENST00000580226	retained_intron	KNOWN	None	16387	None	None	45896699	45899147	-1	None	ORP7, MGC71150
17	OSBPL7	ENSG00000006025	ENST00000585051	retained_intron	KNOWN	None	16387	None	None	45897087	45899107	-1	None	ORP7, MGC71150
17	OSBPL7	ENSG00000006025	ENST00000392507	protein_coding	KNOWN	CCDS11515	16387	2529	842	45884739	45899200	-1	None	ORP7, MGC71150
5	None	ENSG00000251670	ENST00000502684	lincRNA	KNOWN	None	None	None	None	174178307	174277728	1	None	None
1	None	ENSG00000235241	ENST00000453917	processed_pseudogene	KNOWN	None	None	None	None	17215590	17216097	1	None	None
5	None	ENSG00000249423	ENST00000509456	lincRNA	KNOWN	None	None	None	None	124255640	124257291	1	None	None
5	None	ENSG00000253572	ENST00000523413	lincRNA	KNOWN	None	None	None	None	77238581	77242262	-1	None	None
16	None	ENSG00000260899	ENST00000483578	lincRNA	KNOWN	None	None	None	None	30751988	30762702	1	None	None
1	RNU1-2	ENSG00000207005	ENST00000384278	snRNA	KNOWN	None	10123	None	None	17222475	17222638	1	RNU1C1, RNU1C2	U1C1, U1C21
20	None	ENSG00000228812	ENST00000477848	antisense	KNOWN	None	None	None	None	60928066	60931271	1	None	None
20	None	ENSG00000228812	ENST00000478167	antisense	KNOWN	None	None	None	None	60928068	60931527	1	None	None
20	None	ENSG00000228812	ENST00000487421	antisense	KNOWN	None	None	None	None	60928069	60931536	1	None	None
20	None	ENSG00000228812	ENST00000456721	antisense	KNOWN	None	None	None	None	60928097	60931525	1	None	None
5	None	ENSG00000250411	ENST00000513915	lincRNA	KNOWN	None	None	None	None	124372524	124377932	1	None	None
1	None	ENSG00000272426	ENST00000606899	lincRNA	KNOWN	None	None	None	None	17230834	17231271	-1	None	None
11	PTH	ENSG00000152266	ENST00000282091	protein_coding	KNOWN	CCDS7812	9606	348	115	13513602	13517567	-1	None	PTH1
11	PTH	ENSG00000152266	ENST00000529816	protein_coding	KNOWN	CCDS7812	9606	348	115	13513646	13517728	-1	None	PTH1
5	MIR4634	ENSG00000266890	ENST00000583531	miRNA	KNOWN	None	41559	None	None	174178737	174178790	1	None	hsa-mir-4634
1	None	ENSG00000226526	ENST00000446261	antisense	KNOWN	None	None	None	None	17305421	17331586	1	None	None
19	DHDH	ENSG00000104808	ENST00000221403	protein_coding	KNOWN	CCDS12741	17887	1005	334	49436939	49448226	1	None	HUM2DD
19	DHDH	ENSG00000104808	ENST00000523250	protein_coding	PUTATIVE	None	17887	588	195	49436959	49448216	1	None	HUM2DD
19	DHDH	ENSG00000104808	ENST00000522614	protein_coding	NOVEL	None	17887	729	242	49436962	49448220	1	None	HUM2DD
19	DHDH	ENSG00000104808	ENST00000520557	nonsense_mediated_decay	KNOWN	None	17887	414	137	49437015	49448225	1	None	HUM2DD
5	None	ENSG00000251144	ENST00000510150	lincRNA	KNOWN	None	None	None	None	174247030	174253327	1	None	None
HSCHR5_1_CTG1	SMN2	ENSG00000262170	ENST00000571656	nonsense_mediated_decay	KNOWN	None	11118	139	45	68969494	68977346	-1	None	BCD541, SMNC, GEMIN1, TDRD16B
HSCHR5_1_CTG1	SMN2	ENSG00000262170	ENST00000575481	nonsense_mediated_decay	KNOWN	None	11118	885	294	68970420	68998357	-1	None	BCD541, SMNC, GEMIN1, TDRD16B
HSCHR5_1_CTG1	SMN2	ENSG00000262170	ENST00000572839	protein_coding	KNOWN	None	11118	885	294	68970424	68998358	-1	None	BCD541, SMNC, GEMIN1, TDRD16B
HSCHR5_1_CTG1	SMN2	ENSG00000262170	ENST00000575993	protein_coding	NOVEL	None	11118	684	227	68971310	68998376	-1	None	BCD541, SMNC, GEMIN1, TDRD16B
HSCHR5_1_CTG1	SMN2	ENSG00000262170	ENST00000575598	protein_coding	NOVEL	None	11118	430	142	68971405	68980989	-1	None	BCD541, SMNC, GEMIN1, TDRD16B
HSCHR5_1_CTG1	SMN2	ENSG00000262170	ENST00000574020	nonsense_mediated_decay	KNOWN	None	11118	240	79	68978680	68980925	-1	None	BCD541, SMNC, GEMIN1, TDRD16B
1	None	ENSG00000252180	ENST00000516371	misc_RNA	NOVEL	None	None	None	None	17484692	17484779	1	None	None
5	None	ENSG00000250194	ENST00000508858	processed_pseudogene	KNOWN	None	None	None	None	124410358	124410673	1	None	None
11	PGR	ENSG00000082175	ENST00000325455	protein_coding	KNOWN	CCDS8310	8910	2802	933	100900355	101001255	-1	None	PR, NR3C3
11	PGR	ENSG00000082175	ENST00000534013	protein_coding	PUTATIVE	CCDS59229	8910	1020	339	100909411	101000458	-1	None	PR, NR3C3
11	PGR	ENSG00000082175	ENST00000533207	retained_intron	KNOWN	None	8910	None	None	100909792	100934756	-1	None	PR, NR3C3
11	PGR	ENSG00000082175	ENST00000528960	nonsense_mediated_decay	KNOWN	None	8910	2295	764	100909847	100999801	-1	None	PR, NR3C3
11	PGR	ENSG00000082175	ENST00000534780	nonsense_mediated_decay	KNOWN	None	8910	2412	803	100909847	100999801	-1	None	PR, NR3C3
11	PGR	ENSG00000082175	ENST00000526300	nonsense_mediated_decay	KNOWN	None	8910	2088	695	100909847	100999801	-1	None	PR, NR3C3
11	PGR	ENSG00000082175	ENST00000263463	protein_coding	NOVEL	None	8910	2496	831	100909847	100999801	-1	None	PR, NR3C3
11	PGR	ENSG00000082175	ENST00000530764	retained_intron	KNOWN	None	8910	None	None	100912392	100922201	-1	None	PR, NR3C3
16	None	ENSG00000262026	ENST00000575562	antisense	KNOWN	None	None	None	None	30789770	30791473	1	None	None
1	None	ENSG00000204362	ENST00000412427	lincRNA	KNOWN	None	None	None	None	17516278	17524112	1	None	None
18	PTPRM	ENSG00000173482	ENST00000580170	protein_coding	NOVEL	CCDS58613	9675	4398	1465	7566780	8406666	1	PTPRL1	RPTPU, hR-PTPu
18	PTPRM	ENSG00000173482	ENST00000332175	protein_coding	KNOWN	CCDS11840	9675	4359	1452	7566780	8406859	1	PTPRL1	RPTPU, hR-PTPu
18	PTPRM	ENSG00000173482	ENST00000400053	protein_coding	PUTATIVE	None	9675	4173	1390	7754971	8406854	1	PTPRL1	RPTPU, hR-PTPu
18	PTPRM	ENSG00000173482	ENST00000578916	protein_coding	PUTATIVE	None	9675	520	172	7946868	8069710	1	PTPRL1	RPTPU, hR-PTPu
18	PTPRM	ENSG00000173482	ENST00000578600	processed_transcript	KNOWN	None	9675	None	None	8017790	8069957	1	PTPRL1	RPTPU, hR-PTPu
18	PTPRM	ENSG00000173482	ENST00000578571	processed_transcript	KNOWN	None	9675	None	None	8017821	8113630	1	PTPRL1	RPTPU, hR-PTPu
18	PTPRM	ENSG00000173482	ENST00000578698	processed_transcript	KNOWN	None	9675	None	None	8049362	8076562	1	PTPRL1	RPTPU, hR-PTPu
18	PTPRM	ENSG00000173482	ENST00000583289	protein_coding	NOVEL	None	9675	792	263	8085700	8143776	1	PTPRL1	RPTPU, hR-PTPu
18	PTPRM	ENSG00000173482	ENST00000577468	protein_coding	PUTATIVE	None	9675	624	207	8113569	8296453	1	PTPRL1	RPTPU, hR-PTPu
18	PTPRM	ENSG00000173482	ENST00000577827	retained_intron	KNOWN	None	9675	None	None	8121850	8406664	1	PTPRL1	RPTPU, hR-PTPu
18	PTPRM	ENSG00000173482	ENST00000578093	processed_transcript	KNOWN	None	9675	None	None	8244055	8251819	1	PTPRL1	RPTPU, hR-PTPu
18	PTPRM	ENSG00000173482	ENST00000580838	processed_transcript	KNOWN	None	9675	None	None	8247872	8270445	1	PTPRL1	RPTPU, hR-PTPu
18	PTPRM	ENSG00000173482	ENST00000583153	protein_coding	PUTATIVE	None	9675	713	236	8370931	8379311	1	PTPRL1	RPTPU, hR-PTPu
18	PTPRM	ENSG00000173482	ENST00000580949	processed_transcript	KNOWN	None	9675	None	None	8399699	8406662	1	PTPRL1	RPTPU, hR-PTPu
18	PTPRM	ENSG00000173482	ENST00000400060	protein_coding	KNOWN	None	9675	4401	1466	7567817	8406160	1	PTPRL1	RPTPU, hR-PTPu
18	PTPRM	ENSG00000173482	ENST00000444013	protein_coding	KNOWN	None	9675	3720	1239	7946952	8406854	1	PTPRL1	RPTPU, hR-PTPu
19	CCDC151	ENSG00000198003	ENST00000356392	protein_coding	KNOWN	CCDS42501	28303	1788	595	11531272	11545925	-1	None	MGC20983
19	CCDC151	ENSG00000198003	ENST00000591345	nonsense_mediated_decay	KNOWN	None	28303	348	115	11531272	11545999	-1	None	MGC20983
19	CCDC151	ENSG00000198003	ENST00000591179	protein_coding	NOVEL	None	28303	1608	535	11531273	11545942	-1	None	MGC20983
19	CCDC151	ENSG00000198003	ENST00000586836	protein_coding	PUTATIVE	None	28303	1215	404	11531273	11546603	-1	None	MGC20983
19	CCDC151	ENSG00000198003	ENST00000593281	retained_intron	KNOWN	None	28303	None	None	11541379	11545720	-1	None	MGC20983
19	CCDC151	ENSG00000198003	ENST00000545100	protein_coding	KNOWN	None	28303	1626	541	11531273	11546603	-1	None	MGC20983
5	None	ENSG00000249365	ENST00000512965	lincRNA	KNOWN	None	None	None	None	124443897	124485622	1	None	None
15	RGMA	ENSG00000182175	ENST00000329082	protein_coding	KNOWN	CCDS45357	30308	1353	450	93586637	93632433	-1	None	RGM
15	RGMA	ENSG00000182175	ENST00000542321	protein_coding	PUTATIVE	CCDS53973	30308	1305	434	93586646	93616377	-1	None	RGM
15	RGMA	ENSG00000182175	ENST00000554387	nonsense_mediated_decay	KNOWN	None	30308	186	61	93586647	93616909	-1	None	RGM
15	RGMA	ENSG00000182175	ENST00000557301	protein_coding	PUTATIVE	CCDS53974	30308	1377	458	93588048	93617092	-1	None	RGM
15	RGMA	ENSG00000182175	ENST00000557420	protein_coding	PUTATIVE	None	30308	141	46	93588177	93616374	-1	None	RGM
15	RGMA	ENSG00000182175	ENST00000556658	protein_coding	PUTATIVE	None	30308	1026	341	93588186	93616892	-1	None	RGM
15	RGMA	ENSG00000182175	ENST00000556087	protein_coding	PUTATIVE	None	30308	621	206	93594512	93617357	-1	None	RGM
15	RGMA	ENSG00000182175	ENST00000555584	processed_transcript	KNOWN	None	30308	None	None	93595502	93606298	-1	None	RGM
15	RGMA	ENSG00000182175	ENST00000555598	protein_coding	PUTATIVE	None	30308	270	89	93595550	93631752	-1	None	RGM
15	RGMA	ENSG00000182175	ENST00000557608	retained_intron	KNOWN	None	30308	None	None	93609235	93616363	-1	None	RGM
15	RGMA	ENSG00000182175	ENST00000556950	protein_coding	PUTATIVE	None	30308	31	9	93616196	93631882	-1	None	RGM
15	RGMA	ENSG00000182175	ENST00000543599	protein_coding	KNOWN	CCDS53973	30308	1305	434	93586636	93631752	-1	None	RGM
15	RGMA	ENSG00000182175	ENST00000425933	protein_coding	KNOWN	CCDS53973	30308	1305	434	93586636	93616939	-1	None	RGM
15	RGMA	ENSG00000182175	ENST00000538818	protein_coding	KNOWN	None	30308	1026	341	93586647	93616909	-1	None	RGM
1	MIR3972	ENSG00000266634	ENST00000582732	miRNA	KNOWN	None	41876	None	None	17604384	17604470	1	None	hsa-mir-3972
16	None	ENSG00000263307	ENST00000574364	antisense	KNOWN	None	None	None	None	11945506	11989468	1	None	None
19	KIR2DL3	ENSG00000243772	ENST00000342376	protein_coding	KNOWN	CCDS33107	6331	1026	341	55249980	55264504	1	None	cl-6, nkat2, nkat2a, nkat2b, p58, CD158B2
19	KIR2DL3	ENSG00000243772	ENST00000434419	protein_coding	KNOWN	None	6331	1047	348	55249982	55295776	1	None	cl-6, nkat2, nkat2a, nkat2b, p58, CD158B2
5	None	ENSG00000248631	ENST00000514619	lincRNA	KNOWN	None	None	None	None	124537581	124538223	1	None	None
5	HMGB1P22	ENSG00000250721	ENST00000505315	processed_pseudogene	KNOWN	None	39107	None	None	124601221	124601344	1	None	None
6	None	ENSG00000265764	ENST00000577570	miRNA	NOVEL	None	None	None	None	28763749	28763812	-1	None	None
7	GNAI1	ENSG00000127955	ENST00000442586	protein_coding	KNOWN	None	4384	68	21	79763271	79764544	1	None	None
7	GNAI1	ENSG00000127955	ENST00000490206	processed_transcript	KNOWN	None	4384	None	None	79763814	79818548	1	None	None
7	GNAI1	ENSG00000127955	ENST00000351004	protein_coding	KNOWN	CCDS5595	4384	1065	354	79764104	79848718	1	None	None
7	GNAI1	ENSG00000127955	ENST00000418742	protein_coding	PUTATIVE	None	4384	434	143	79764605	79833148	1	None	None
7	GNAI1	ENSG00000127955	ENST00000457358	protein_coding	PUTATIVE	CCDS59061	4384	909	302	79765071	79847177	1	None	None
7	GNAI1	ENSG00000127955	ENST00000447650	protein_coding	PUTATIVE	None	4384	125	40	79816375	79818525	1	None	None
6	None	ENSG00000225173	ENST00000457253	lincRNA	KNOWN	None	None	None	None	28805646	28806783	-1	None	None
HSCHR6_MHC_DBB	PPP1R10	ENSG00000227804	ENST00000449113	protein_coding	KNOWN	None	9284	2823	940	30558418	30575262	-1	None	PNUTS, FB19, CAT53, p99
HSCHR6_MHC_DBB	PPP1R10	ENSG00000227804	ENST00000461315	retained_intron	KNOWN	None	9284	None	None	30561591	30562230	-1	None	PNUTS, FB19, CAT53, p99
HSCHR6_MHC_DBB	PPP1R10	ENSG00000227804	ENST00000472740	retained_intron	KNOWN	None	9284	None	None	30562630	30564016	-1	None	PNUTS, FB19, CAT53, p99
HSCHR6_MHC_DBB	PPP1R10	ENSG00000227804	ENST00000463922	retained_intron	KNOWN	None	9284	None	None	30563036	30564755	-1	None	PNUTS, FB19, CAT53, p99
HSCHR6_MHC_DBB	PPP1R10	ENSG00000227804	ENST00000491226	retained_intron	KNOWN	None	9284	None	None	30563827	30564261	-1	None	PNUTS, FB19, CAT53, p99
HSCHR6_MHC_DBB	PPP1R10	ENSG00000227804	ENST00000475926	processed_transcript	KNOWN	None	9284	None	None	30567965	30575262	-1	None	PNUTS, FB19, CAT53, p99
HSCHR6_MHC_DBB	PPP1R10	ENSG00000227804	ENST00000486669	processed_transcript	KNOWN	None	9284	None	None	30574602	30576630	-1	None	PNUTS, FB19, CAT53, p99
HSCHR6_MHC_DBB	PPP1R10	ENSG00000227804	ENST00000547333	protein_coding	KNOWN	None	9284	936	311	30562954	30575261	-1	None	PNUTS, FB19, CAT53, p99
16	None	ENSG00000261560	ENST00000568144	sense_intronic	KNOWN	None	None	None	None	11974932	11976426	-1	None	None
4	BST1	ENSG00000109743	ENST00000265016	protein_coding	KNOWN	CCDS3416	1118	957	318	15704573	15733796	1	None	CD157
4	BST1	ENSG00000109743	ENST00000382346	protein_coding	NOVEL	None	1118	1002	333	15704719	15734410	1	None	CD157
4	BST1	ENSG00000109743	ENST00000505785	protein_coding	PUTATIVE	None	1118	560	185	15709132	15725289	1	None	CD157
4	BST1	ENSG00000109743	ENST00000514445	protein_coding	PUTATIVE	None	1118	468	155	15713429	15739931	1	None	CD157
4	BST1	ENSG00000109743	ENST00000514989	protein_coding	PUTATIVE	None	1118	293	96	15716951	15739936	1	None	CD157
1	PADI6	ENSG00000256049	ENST00000434762	processed_transcript	KNOWN	None	20449	None	None	17698691	17728195	1	None	None
1	PADI6	ENSG00000256049	ENST00000358481	processed_transcript	KNOWN	None	20449	None	None	17698691	17728195	1	None	None
15	MEIS2	ENSG00000134138	ENST00000338564	protein_coding	KNOWN	CCDS10045	7001	1413	470	37181406	37393406	-1	None	MRG1, HsT18361
15	MEIS2	ENSG00000134138	ENST00000561208	protein_coding	KNOWN	CCDS10044	7001	1434	477	37181409	37392086	-1	None	MRG1, HsT18361
15	MEIS2	ENSG00000134138	ENST00000397624	protein_coding	KNOWN	CCDS45220	7001	921	306	37183232	37390522	-1	None	MRG1, HsT18361
15	MEIS2	ENSG00000134138	ENST00000560702	retained_intron	KNOWN	None	7001	None	None	37183233	37190540	-1	None	MRG1, HsT18361
15	MEIS2	ENSG00000134138	ENST00000314177	nonsense_mediated_decay	KNOWN	None	7001	909	302	37183286	37391922	-1	None	MRG1, HsT18361
15	MEIS2	ENSG00000134138	ENST00000559085	protein_coding	KNOWN	CCDS45219	7001	1167	388	37183457	37390503	-1	None	MRG1, HsT18361
15	MEIS2	ENSG00000134138	ENST00000560570	nonsense_mediated_decay	KNOWN	None	7001	297	98	37183457	37391683	-1	None	MRG1, HsT18361
15	MEIS2	ENSG00000134138	ENST00000557796	protein_coding	KNOWN	CCDS42014	7001	1146	381	37183611	37391507	-1	None	MRG1, HsT18361
15	MEIS2	ENSG00000134138	ENST00000397620	protein_coding	KNOWN	CCDS45220	7001	921	306	37184049	37391597	-1	None	MRG1, HsT18361
15	MEIS2	ENSG00000134138	ENST00000424352	protein_coding	KNOWN	CCDS45217	7001	1206	401	37184051	37392731	-1	None	MRG1, HsT18361
15	MEIS2	ENSG00000134138	ENST00000559972	retained_intron	KNOWN	None	7001	None	None	37184257	37187488	-1	None	MRG1, HsT18361
15	MEIS2	ENSG00000134138	ENST00000561264	retained_intron	KNOWN	None	7001	None	None	37184331	37187479	-1	None	MRG1, HsT18361
15	MEIS2	ENSG00000134138	ENST00000561284	retained_intron	KNOWN	None	7001	None	None	37184420	37190636	-1	None	MRG1, HsT18361
15	MEIS2	ENSG00000134138	ENST00000559371	retained_intron	KNOWN	None	7001	None	None	37184637	37189277	-1	None	MRG1, HsT18361
15	MEIS2	ENSG00000134138	ENST00000557992	retained_intron	KNOWN	None	7001	None	None	37186619	37187503	-1	None	MRG1, HsT18361
15	MEIS2	ENSG00000134138	ENST00000558643	retained_intron	KNOWN	None	7001	None	None	37186908	37189351	-1	None	MRG1, HsT18361
15	MEIS2	ENSG00000134138	ENST00000559561	protein_coding	KNOWN	CCDS45218	7001	1185	394	37186953	37391922	-1	None	MRG1, HsT18361
15	MEIS2	ENSG00000134138	ENST00000559408	processed_transcript	KNOWN	None	7001	None	None	37186985	37196268	-1	None	MRG1, HsT18361
15	MEIS2	ENSG00000134138	ENST00000607277	protein_coding	NOVEL	None	7001	705	234	37187350	37387222	-1	None	MRG1, HsT18361
15	MEIS2	ENSG00000134138	ENST00000561163	retained_intron	KNOWN	None	7001	None	None	37328592	37390732	-1	None	MRG1, HsT18361
15	MEIS2	ENSG00000134138	ENST00000606653	protein_coding	PUTATIVE	None	7001	420	139	37358498	37386766	-1	None	MRG1, HsT18361
15	MEIS2	ENSG00000134138	ENST00000561422	retained_intron	KNOWN	None	7001	None	None	37375971	37386230	-1	None	MRG1, HsT18361
15	MEIS2	ENSG00000134138	ENST00000560617	protein_coding	PUTATIVE	None	7001	315	104	37375973	37389568	-1	None	MRG1, HsT18361
15	MEIS2	ENSG00000134138	ENST00000560697	protein_coding	PUTATIVE	None	7001	283	93	37376005	37388707	-1	None	MRG1, HsT18361
15	MEIS2	ENSG00000134138	ENST00000558313	protein_coding	KNOWN	None	7001	237	78	37386716	37393480	-1	None	MRG1, HsT18361
15	MEIS2	ENSG00000134138	ENST00000559129	retained_intron	KNOWN	None	7001	None	None	37386717	37388392	-1	None	MRG1, HsT18361
15	MEIS2	ENSG00000134138	ENST00000382766	protein_coding	KNOWN	CCDS10045	7001	1413	470	37183233	37392704	-1	None	MRG1, HsT18361
15	MEIS2	ENSG00000134138	ENST00000444725	protein_coding	KNOWN	CCDS45218	7001	1185	394	37183233	37392704	-1	None	MRG1, HsT18361
15	MEIS2	ENSG00000134138	ENST00000340545	protein_coding	KNOWN	CCDS42014	7001	1146	381	37183233	37393504	-1	None	MRG1, HsT18361
15	MEIS2	ENSG00000134138	ENST00000219869	protein_coding	KNOWN	None	7001	768	255	37183457	37391683	-1	None	MRG1, HsT18361
3	XYLB	ENSG00000093217	ENST00000427323	protein_coding	PUTATIVE	None	12839	201	66	38388251	38398649	1	None	FLJ10343, FLJ12539
3	XYLB	ENSG00000093217	ENST00000207870	protein_coding	KNOWN	CCDS2678	12839	1611	536	38388270	38456467	1	None	FLJ10343, FLJ12539
3	XYLB	ENSG00000093217	ENST00000424034	nonsense_mediated_decay	KNOWN	None	12839	186	61	38388299	38456467	1	None	FLJ10343, FLJ12539
3	XYLB	ENSG00000093217	ENST00000487569	processed_transcript	PUTATIVE	None	12839	None	None	38408299	38411772	1	None	FLJ10343, FLJ12539
3	XYLB	ENSG00000093217	ENST00000472721	processed_transcript	KNOWN	None	12839	None	None	38418412	38462839	1	None	FLJ10343, FLJ12539
3	XYLB	ENSG00000093217	ENST00000542835	protein_coding	KNOWN	None	12839	1200	399	38388346	38454767	1	None	FLJ10343, FLJ12539
6	None	ENSG00000225595	ENST00000440244	lincRNA	KNOWN	None	None	None	None	28827402	28831127	-1	None	None
6	None	ENSG00000225595	ENST00000606727	lincRNA	KNOWN	None	None	None	None	28828927	28831454	-1	None	None
6	None	ENSG00000225595	ENST00000606624	lincRNA	KNOWN	None	None	None	None	28831067	28832407	-1	None	None
5	RN7SKP117	ENSG00000222107	ENST00000410175	misc_RNA	KNOWN	None	45841	None	None	124686561	124686824	-1	None	None
5	None	ENSG00000204754	ENST00000377300	lincRNA	KNOWN	None	None	None	None	174346085	174422516	-1	None	None
1	C1QA	ENSG00000173372	ENST00000374642	protein_coding	KNOWN	CCDS226	1241	738	245	22962999	22966101	1	None	None
1	C1QA	ENSG00000173372	ENST00000438241	protein_coding	KNOWN	None	1241	662	219	22963255	22965824	1	None	None
1	C1QA	ENSG00000173372	ENST00000402322	protein_coding	KNOWN	CCDS226	1241	738	245	22964073	22966101	1	None	None
15	LRRK1	ENSG00000154237	ENST00000388948	protein_coding	KNOWN	CCDS42086	18608	6048	2015	101459420	101610317	1	None	FLJ23119, KIAA1790, Roco1, RIPK6
15	LRRK1	ENSG00000154237	ENST00000534045	protein_coding	KNOWN	None	18608	97	31	101459532	101464934	1	None	FLJ23119, KIAA1790, Roco1, RIPK6
15	LRRK1	ENSG00000154237	ENST00000527698	retained_intron	KNOWN	None	18608	None	None	101459542	101514353	1	None	FLJ23119, KIAA1790, Roco1, RIPK6
15	LRRK1	ENSG00000154237	ENST00000532029	protein_coding	NOVEL	None	18608	795	264	101459550	101529853	1	None	FLJ23119, KIAA1790, Roco1, RIPK6
15	LRRK1	ENSG00000154237	ENST00000525284	nonsense_mediated_decay	KNOWN	None	18608	2070	689	101464808	101609273	1	None	FLJ23119, KIAA1790, Roco1, RIPK6
15	LRRK1	ENSG00000154237	ENST00000531270	nonsense_mediated_decay	KNOWN	None	18608	1953	650	101464808	101609273	1	None	FLJ23119, KIAA1790, Roco1, RIPK6
15	LRRK1	ENSG00000154237	ENST00000525617	retained_intron	KNOWN	None	18608	None	None	101561914	101565154	1	None	FLJ23119, KIAA1790, Roco1, RIPK6
15	LRRK1	ENSG00000154237	ENST00000538064	retained_intron	KNOWN	None	18608	None	None	101562545	101566236	1	None	FLJ23119, KIAA1790, Roco1, RIPK6
15	LRRK1	ENSG00000154237	ENST00000526457	nonsense_mediated_decay	KNOWN	None	18608	1982	659	101593542	101610310	1	None	FLJ23119, KIAA1790, Roco1, RIPK6
15	LRRK1	ENSG00000154237	ENST00000525395	processed_transcript	KNOWN	None	18608	None	None	101597242	101605685	1	None	FLJ23119, KIAA1790, Roco1, RIPK6
15	LRRK1	ENSG00000154237	ENST00000532145	processed_transcript	KNOWN	None	18608	None	None	101604621	101610308	1	None	FLJ23119, KIAA1790, Roco1, RIPK6
15	LRRK1	ENSG00000154237	ENST00000284395	protein_coding	KNOWN	None	18608	6039	2012	101459460	101610315	1	None	FLJ23119, KIAA1790, Roco1, RIPK6
16	COX6CP1	ENSG00000260318	ENST00000564972	processed_pseudogene	KNOWN	None	2286	None	None	11997780	11997994	-1	None	None
9	PRSS3P4	ENSG00000204982	ENST00000453323	unprocessed_pseudogene	KNOWN	None	43789	None	None	33613846	33614007	-1	None	None
5	MKI67IPP2	ENSG00000251122	ENST00000513462	processed_pseudogene	KNOWN	None	44950	None	None	174350093	174350948	1	None	None
1	TADA1	ENSG00000152382	ENST00000467021	processed_transcript	KNOWN	None	30631	None	None	166825747	166832453	-1	TADA1L	STAF42, ADA1, hADA1, HFI1
1	TADA1	ENSG00000152382	ENST00000367874	protein_coding	KNOWN	CCDS1255	30631	1008	335	166825747	166845564	-1	TADA1L	STAF42, ADA1, hADA1, HFI1
5	None	ENSG00000249932	ENST00000507341	lincRNA	KNOWN	None	None	None	None	124704261	124704842	1	None	None
14	TRAV40	ENSG00000211819	ENST00000390467	TR_V_gene	KNOWN	None	12141	317	104	22782922	22783351	1	None	TCRAV31S1, TCRAV40S1
20	HM13	ENSG00000101294	ENST00000335574	protein_coding	KNOWN	CCDS13183	16435	1185	394	30102231	30157370	1	None	H13, dJ324O17.1, SPP, PSL3, IMP1, IMPAS, PSENL3, SPPL1
20	HM13	ENSG00000101294	ENST00000340852	protein_coding	KNOWN	CCDS13182	16435	1134	377	30102231	30157370	1	None	H13, dJ324O17.1, SPP, PSL3, IMP1, IMPAS, PSENL3, SPPL1
20	HM13	ENSG00000101294	ENST00000398174	protein_coding	KNOWN	CCDS42861	16435	1281	426	30102231	30157370	1	None	H13, dJ324O17.1, SPP, PSL3, IMP1, IMPAS, PSENL3, SPPL1
20	HM13	ENSG00000101294	ENST00000498035	retained_intron	KNOWN	None	16435	None	None	30102260	30127596	1	None	H13, dJ324O17.1, SPP, PSL3, IMP1, IMPAS, PSENL3, SPPL1
20	HM13	ENSG00000101294	ENST00000496438	processed_transcript	KNOWN	None	16435	None	None	30102305	30137020	1	None	H13, dJ324O17.1, SPP, PSL3, IMP1, IMPAS, PSENL3, SPPL1
20	HM13	ENSG00000101294	ENST00000344042	protein_coding	PUTATIVE	None	16435	816	271	30102324	30149533	1	None	H13, dJ324O17.1, SPP, PSL3, IMP1, IMPAS, PSENL3, SPPL1
20	HM13	ENSG00000101294	ENST00000460225	processed_transcript	KNOWN	None	16435	None	None	30102424	30142631	1	None	H13, dJ324O17.1, SPP, PSL3, IMP1, IMPAS, PSENL3, SPPL1
20	HM13	ENSG00000101294	ENST00000466766	processed_transcript	KNOWN	None	16435	None	None	30102458	30126031	1	None	H13, dJ324O17.1, SPP, PSL3, IMP1, IMPAS, PSENL3, SPPL1
20	HM13	ENSG00000101294	ENST00000469126	processed_transcript	KNOWN	None	16435	None	None	30125986	30156014	1	None	H13, dJ324O17.1, SPP, PSL3, IMP1, IMPAS, PSENL3, SPPL1
20	HM13	ENSG00000101294	ENST00000492709	processed_transcript	KNOWN	None	16435	None	None	30125998	30157370	1	None	H13, dJ324O17.1, SPP, PSL3, IMP1, IMPAS, PSENL3, SPPL1
20	HM13	ENSG00000101294	ENST00000469097	processed_transcript	KNOWN	None	16435	None	None	30132831	30157221	1	None	H13, dJ324O17.1, SPP, PSL3, IMP1, IMPAS, PSENL3, SPPL1
20	HM13	ENSG00000101294	ENST00000487964	processed_transcript	KNOWN	None	16435	None	None	30135185	30154078	1	None	H13, dJ324O17.1, SPP, PSL3, IMP1, IMPAS, PSENL3, SPPL1
20	HM13	ENSG00000101294	ENST00000464508	processed_transcript	KNOWN	None	16435	None	None	30135209	30136836	1	None	H13, dJ324O17.1, SPP, PSL3, IMP1, IMPAS, PSENL3, SPPL1
20	HM13	ENSG00000101294	ENST00000479096	processed_transcript	KNOWN	None	16435	None	None	30135251	30136832	1	None	H13, dJ324O17.1, SPP, PSL3, IMP1, IMPAS, PSENL3, SPPL1
20	HM13	ENSG00000101294	ENST00000464661	processed_transcript	KNOWN	None	16435	None	None	30135268	30142628	1	None	H13, dJ324O17.1, SPP, PSL3, IMP1, IMPAS, PSENL3, SPPL1
20	HM13	ENSG00000101294	ENST00000460389	processed_transcript	KNOWN	None	16435	None	None	30136442	30157111	1	None	H13, dJ324O17.1, SPP, PSL3, IMP1, IMPAS, PSENL3, SPPL1
20	HM13	ENSG00000101294	ENST00000494153	processed_transcript	KNOWN	None	16435	None	None	30136584	30156977	1	None	H13, dJ324O17.1, SPP, PSL3, IMP1, IMPAS, PSENL3, SPPL1
20	HM13	ENSG00000101294	ENST00000483310	processed_transcript	KNOWN	None	16435	None	None	30136830	30150474	1	None	H13, dJ324O17.1, SPP, PSL3, IMP1, IMPAS, PSENL3, SPPL1
20	HM13	ENSG00000101294	ENST00000464173	processed_transcript	KNOWN	None	16435	None	None	30136865	30138274	1	None	H13, dJ324O17.1, SPP, PSL3, IMP1, IMPAS, PSENL3, SPPL1
20	HM13	ENSG00000101294	ENST00000472128	processed_transcript	KNOWN	None	16435	None	None	30136894	30155789	1	None	H13, dJ324O17.1, SPP, PSL3, IMP1, IMPAS, PSENL3, SPPL1
20	HM13	ENSG00000101294	ENST00000474466	processed_transcript	KNOWN	None	16435	None	None	30142391	30154070	1	None	H13, dJ324O17.1, SPP, PSL3, IMP1, IMPAS, PSENL3, SPPL1
20	HM13	ENSG00000101294	ENST00000468559	processed_transcript	KNOWN	None	16435	None	None	30142550	30157370	1	None	H13, dJ324O17.1, SPP, PSL3, IMP1, IMPAS, PSENL3, SPPL1
20	HM13	ENSG00000101294	ENST00000493364	processed_transcript	KNOWN	None	16435	None	None	30153860	30157055	1	None	H13, dJ324O17.1, SPP, PSL3, IMP1, IMPAS, PSENL3, SPPL1
20	HM13	ENSG00000101294	ENST00000487281	processed_transcript	KNOWN	None	16435	None	None	30153957	30157370	1	None	H13, dJ324O17.1, SPP, PSL3, IMP1, IMPAS, PSENL3, SPPL1
20	HM13	ENSG00000101294	ENST00000376127	protein_coding	KNOWN	None	16435	1008	335	30102262	30157345	1	None	H13, dJ324O17.1, SPP, PSL3, IMP1, IMPAS, PSENL3, SPPL1
6	GFRAL	ENSG00000187871	ENST00000340465	protein_coding	KNOWN	CCDS4957	32789	1185	394	55192267	55267291	1	C6orf144	GRAL, UNQ9356, bA360D14.1
6	RPL13P	ENSG00000213916	ENST00000396818	processed_pseudogene	KNOWN	None	13978	None	None	28829193	28829824	1	None	BBC1p, dJ111M5.1
19	CEACAM1	ENSG00000079385	ENST00000352591	protein_coding	KNOWN	CCDS54273	1814	1293	430	43011456	43032598	-1	BGP	BGP1, CD66a
19	CEACAM1	ENSG00000079385	ENST00000161559	protein_coding	KNOWN	CCDS12609	1814	1581	526	43011458	43032661	-1	BGP	BGP1, CD66a
19	CEACAM1	ENSG00000079385	ENST00000403444	protein_coding	KNOWN	CCDS46089	1814	1395	464	43011466	43032630	-1	BGP	BGP1, CD66a
19	CEACAM1	ENSG00000079385	ENST00000403461	protein_coding	KNOWN	CCDS54272	1814	1107	368	43013244	43032532	-1	BGP	BGP1, CD66a
19	CEACAM1	ENSG00000079385	ENST00000488639	processed_transcript	KNOWN	None	1814	None	None	43013252	43016563	-1	BGP	BGP1, CD66a
19	CEACAM1	ENSG00000079385	ENST00000358394	protein_coding	KNOWN	CCDS54274	1814	1386	461	43013255	43032618	-1	BGP	BGP1, CD66a
19	CEACAM1	ENSG00000079385	ENST00000465051	retained_intron	KNOWN	None	1814	None	None	43013256	43015236	-1	BGP	BGP1, CD66a
19	CEACAM1	ENSG00000079385	ENST00000599389	protein_coding	KNOWN	None	1814	1200	399	43013359	43032633	-1	BGP	BGP1, CD66a
19	CEACAM1	ENSG00000079385	ENST00000485605	retained_intron	KNOWN	None	1814	None	None	43015041	43023615	-1	BGP	BGP1, CD66a
19	CEACAM1	ENSG00000079385	ENST00000344391	retained_intron	KNOWN	None	1814	None	None	43022668	43032601	-1	BGP	BGP1, CD66a
19	CEACAM1	ENSG00000079385	ENST00000377806	retained_intron	KNOWN	None	1814	None	None	43022668	43032621	-1	BGP	BGP1, CD66a
19	CEACAM1	ENSG00000079385	ENST00000403136	retained_intron	KNOWN	None	1814	None	None	43024694	43032621	-1	BGP	BGP1, CD66a
19	CEACAM1	ENSG00000079385	ENST00000600172	protein_coding	PUTATIVE	None	1814	297	98	43031200	43065386	-1	BGP	BGP1, CD66a
19	CEACAM1	ENSG00000079385	ENST00000471298	protein_coding	PUTATIVE	None	1814	283	93	43031214	43031974	-1	BGP	BGP1, CD66a
19	CEACAM1	ENSG00000079385	ENST00000351134	protein_coding	KNOWN	None	1814	759	252	43011458	43032639	-1	BGP	BGP1, CD66a
19	CEACAM1	ENSG00000079385	ENST00000308072	protein_coding	KNOWN	None	1814	1080	359	43013274	43032633	-1	BGP	BGP1, CD66a
5	None	ENSG00000248293	ENST00000511864	unprocessed_pseudogene	KNOWN	None	None	None	None	174353544	174353720	1	None	None
1	VAMP3	ENSG00000049245	ENST00000054666	protein_coding	KNOWN	CCDS88	12644	303	100	7831329	7841492	1	None	CEB
1	VAMP3	ENSG00000049245	ENST00000470357	protein_coding	PUTATIVE	None	12644	219	72	7832767	7839866	1	None	CEB
1	VAMP3	ENSG00000049245	ENST00000487194	retained_intron	KNOWN	None	12644	None	None	7837157	7838229	1	None	CEB
6	ZNF90P2	ENSG00000233366	ENST00000419323	processed_pseudogene	KNOWN	None	21687	None	None	28856609	28857683	-1	ZNF463P	dJ111M5.3
11	PAFAH1B2	ENSG00000168092	ENST00000527958	protein_coding	KNOWN	CCDS8380	8575	690	229	117014983	117041761	1	None	None
11	PAFAH1B2	ENSG00000168092	ENST00000304808	protein_coding	PUTATIVE	None	8575	528	175	117015009	117038708	1	None	None
11	PAFAH1B2	ENSG00000168092	ENST00000529887	protein_coding	PUTATIVE	CCDS53715	8575	468	155	117015014	117047138	1	None	None
11	PAFAH1B2	ENSG00000168092	ENST00000526888	processed_transcript	PUTATIVE	None	8575	None	None	117015025	117047610	1	None	None
11	PAFAH1B2	ENSG00000168092	ENST00000530272	protein_coding	PUTATIVE	CCDS53714	8575	609	202	117015060	117046853	1	None	None
11	PAFAH1B2	ENSG00000168092	ENST00000533206	retained_intron	KNOWN	None	8575	None	None	117015098	117034838	1	None	None
11	PAFAH1B2	ENSG00000168092	ENST00000533677	retained_intron	KNOWN	None	8575	None	None	117030103	117031979	1	None	None
11	PAFAH1B2	ENSG00000168092	ENST00000419197	protein_coding	KNOWN	CCDS53713	8575	399	132	117015000	117047590	1	None	None
16	None	ENSG00000260082	ENST00000568660	processed_pseudogene	KNOWN	None	None	None	None	30832389	30833431	-1	None	None
19	CDC37	ENSG00000105401	ENST00000222005	protein_coding	KNOWN	CCDS12237	1735	1137	378	10501810	10514209	-1	None	P50CDC37
19	CDC37	ENSG00000105401	ENST00000591248	retained_intron	KNOWN	None	1735	None	None	10502129	10514206	-1	None	P50CDC37
19	CDC37	ENSG00000105401	ENST00000589625	protein_coding	NOVEL	None	1735	554	183	10502194	10505944	-1	None	P50CDC37
19	CDC37	ENSG00000105401	ENST00000589331	protein_coding	PUTATIVE	None	1735	314	103	10503452	10504089	-1	None	P50CDC37
19	CDC37	ENSG00000105401	ENST00000590632	retained_intron	KNOWN	None	1735	None	None	10503761	10504462	-1	None	P50CDC37
19	CDC37	ENSG00000105401	ENST00000589629	protein_coding	NOVEL	None	1735	690	229	10503771	10514193	-1	None	P50CDC37
19	CDC37	ENSG00000105401	ENST00000593124	protein_coding	NOVEL	None	1735	1061	352	10503936	10530797	-1	None	P50CDC37
19	CDC37	ENSG00000105401	ENST00000589755	retained_intron	KNOWN	None	1735	None	None	10503967	10506513	-1	None	P50CDC37
19	CDC37	ENSG00000105401	ENST00000588498	retained_intron	KNOWN	None	1735	None	None	10504084	10506667	-1	None	P50CDC37
19	CDC37	ENSG00000105401	ENST00000588869	nonsense_mediated_decay	KNOWN	None	1735	183	60	10505699	10514187	-1	None	P50CDC37
6	HCG14	ENSG00000224157	ENST00000444986	antisense	KNOWN	None	18323	None	None	28864307	28865099	1	None	dJ111M5.4
10	DNMBP	ENSG00000107554	ENST00000324109	protein_coding	KNOWN	CCDS7485	30373	4734	1577	101635334	101769676	-1	None	KIAA1010, Tuba, ARHGEF36
10	DNMBP	ENSG00000107554	ENST00000472036	processed_transcript	KNOWN	None	30373	None	None	101646161	101649252	-1	None	KIAA1010, Tuba, ARHGEF36
10	DNMBP	ENSG00000107554	ENST00000422692	protein_coding	KNOWN	None	30373	673	223	101657954	101673839	-1	None	KIAA1010, Tuba, ARHGEF36
10	DNMBP	ENSG00000107554	ENST00000342239	protein_coding	KNOWN	None	30373	4806	1601	101635334	101769676	-1	None	KIAA1010, Tuba, ARHGEF36
10	DNMBP	ENSG00000107554	ENST00000543621	protein_coding	KNOWN	None	30373	2472	823	101635334	101690753	-1	None	KIAA1010, Tuba, ARHGEF36
10	DNMBP	ENSG00000107554	ENST00000540316	protein_coding	KNOWN	None	30373	1542	513	101636554	101658019	-1	None	KIAA1010, Tuba, ARHGEF36
8	None	ENSG00000253372	ENST00000521482	sense_intronic	KNOWN	None	None	None	None	123819985	123828756	1	None	None
8	None	ENSG00000253372	ENST00000524348	sense_intronic	KNOWN	None	None	None	None	123821009	123828013	1	None	None
6	RNU6-930P	ENSG00000212240	ENST00000390938	snRNA	KNOWN	None	47893	None	None	28883422	28883521	1	None	None
5	None	ENSG00000249403	ENST00000507398	lincRNA	KNOWN	None	None	None	None	174413298	174414053	1	None	None
7	HNRNPA2B1	ENSG00000122566	ENST00000476233	processed_transcript	KNOWN	None	5033	None	None	26229547	26231298	-1	HNRPA2B1	None
7	HNRNPA2B1	ENSG00000122566	ENST00000354667	protein_coding	KNOWN	CCDS43557	5033	1062	353	26229547	26240366	-1	HNRPA2B1	None
7	HNRNPA2B1	ENSG00000122566	ENST00000360787	nonsense_mediated_decay	KNOWN	CCDS43557	5033	1062	353	26229745	26240366	-1	HNRPA2B1	None
7	HNRNPA2B1	ENSG00000122566	ENST00000463181	retained_intron	KNOWN	None	5033	None	None	26229924	26240404	-1	HNRPA2B1	None
7	HNRNPA2B1	ENSG00000122566	ENST00000356674	protein_coding	KNOWN	CCDS5397	5033	1026	341	26231464	26240366	-1	HNRPA2B1	None
7	HNRNPA2B1	ENSG00000122566	ENST00000490912	retained_intron	KNOWN	None	5033	None	None	26231469	26241149	-1	HNRPA2B1	None
7	HNRNPA2B1	ENSG00000122566	ENST00000495810	retained_intron	KNOWN	None	5033	None	None	26235332	26236527	-1	HNRPA2B1	None
6	KRT18P1	ENSG00000228666	ENST00000452408	processed_pseudogene	KNOWN	None	6434	None	None	28936907	28938237	-1	None	dJ25J6.3
10	DUSP8P3	ENSG00000215097	ENST00000399571	processed_pseudogene	KNOWN	None	3077	None	None	46773447	46775206	1	DUSPP	HVH4
10	RNU6-163P	ENSG00000207124	ENST00000384396	snRNA	KNOWN	None	47126	None	None	4557144	4557249	1	None	None
14	TRAV41	ENSG00000211820	ENST00000390468	TR_V_gene	KNOWN	None	12142	336	111	22788620	22789123	1	None	TCRAV19S1, TCRAV41S1
16	MIR4519	ENSG00000260083	ENST00000570025	antisense	KNOWN	None	41544	None	None	30886543	30906400	1	None	hsa-mir-4519
16	MIR4519	ENSG00000260083	ENST00000564901	antisense	KNOWN	None	41544	None	None	30886782	30906401	1	None	hsa-mir-4519
16	MIR4519	ENSG00000260083	ENST00000565573	antisense	KNOWN	None	41544	None	None	30887233	30906541	1	None	hsa-mir-4519
10	LINC00704	ENSG00000231298	ENST00000430998	lincRNA	KNOWN	None	44678	None	None	4692377	4720346	-1	None	None
10	LINC00704	ENSG00000231298	ENST00000443994	lincRNA	KNOWN	None	44678	None	None	4693295	4698992	-1	None	None
10	LINC00704	ENSG00000231298	ENST00000449712	lincRNA	KNOWN	None	44678	None	None	4693353	4720324	-1	None	None
11	C11orf24	ENSG00000171067	ENST00000304271	protein_coding	KNOWN	CCDS8180	1174	1350	449	68028803	68039430	-1	None	DM4E3
11	C11orf24	ENSG00000171067	ENST00000531745	processed_transcript	PUTATIVE	None	1174	None	None	68028931	68030823	-1	None	DM4E3
11	C11orf24	ENSG00000171067	ENST00000533310	protein_coding	NOVEL	None	1174	345	114	68029077	68039415	-1	None	DM4E3
11	C11orf24	ENSG00000171067	ENST00000530166	processed_transcript	KNOWN	None	1174	None	None	68029931	68039469	-1	None	DM4E3
11	C11orf24	ENSG00000171067	ENST00000527280	protein_coding	KNOWN	None	1174	76	24	68031160	68039457	-1	None	DM4E3
11	C11orf24	ENSG00000171067	ENST00000529590	processed_transcript	PUTATIVE	None	1174	None	None	68034569	68039439	-1	None	DM4E3
11	C11orf24	ENSG00000171067	ENST00000532534	processed_transcript	PUTATIVE	None	1174	None	None	68034648	68039384	-1	None	DM4E3
11	C11orf24	ENSG00000171067	ENST00000532969	processed_transcript	PUTATIVE	None	1174	None	None	68034929	68039386	-1	None	DM4E3
11	C11orf24	ENSG00000171067	ENST00000529339	retained_intron	KNOWN	None	1174	None	None	68035208	68039415	-1	None	DM4E3
12	SLC6A15	ENSG00000072041	ENST00000309283	protein_coding	PUTATIVE	None	13621	951	316	85253492	85267109	-1	None	hv7-3, NTT73, FLJ10316, V7-3, SBAT1
12	SLC6A15	ENSG00000072041	ENST00000266682	protein_coding	KNOWN	CCDS9026	13621	2193	730	85254102	85306655	-1	None	hv7-3, NTT73, FLJ10316, V7-3, SBAT1
12	SLC6A15	ENSG00000072041	ENST00000552192	protein_coding	PUTATIVE	CCDS53816	13621	1872	623	85255373	85306580	-1	None	hv7-3, NTT73, FLJ10316, V7-3, SBAT1
12	SLC6A15	ENSG00000072041	ENST00000548267	retained_intron	KNOWN	None	13621	None	None	85255382	85261612	-1	None	hv7-3, NTT73, FLJ10316, V7-3, SBAT1
12	SLC6A15	ENSG00000072041	ENST00000551818	processed_transcript	KNOWN	None	13621	None	None	85264341	85268307	-1	None	hv7-3, NTT73, FLJ10316, V7-3, SBAT1
12	SLC6A15	ENSG00000072041	ENST00000551388	processed_transcript	KNOWN	None	13621	None	None	85266866	85306604	-1	None	hv7-3, NTT73, FLJ10316, V7-3, SBAT1
12	SLC6A15	ENSG00000072041	ENST00000551612	protein_coding	PUTATIVE	None	13621	215	70	85266908	85306572	-1	None	hv7-3, NTT73, FLJ10316, V7-3, SBAT1
12	SLC6A15	ENSG00000072041	ENST00000450363	protein_coding	KNOWN	CCDS9027	13621	870	289	85274624	85306572	-1	None	hv7-3, NTT73, FLJ10316, V7-3, SBAT1
12	SLC6A15	ENSG00000072041	ENST00000547240	processed_transcript	KNOWN	None	13621	None	None	85277777	85306600	-1	None	hv7-3, NTT73, FLJ10316, V7-3, SBAT1
12	SLC6A15	ENSG00000072041	ENST00000549540	protein_coding	KNOWN	None	13621	288	95	85285612	85305803	-1	None	hv7-3, NTT73, FLJ10316, V7-3, SBAT1
12	SLC6A15	ENSG00000072041	ENST00000551010	protein_coding	KNOWN	None	13621	59	18	85285841	85307394	-1	None	hv7-3, NTT73, FLJ10316, V7-3, SBAT1
6	RN7SL471P	ENSG00000263426	ENST00000580476	misc_RNA	KNOWN	None	46487	None	None	28945252	28945547	1	None	None
15	WDR76	ENSG00000092470	ENST00000263795	protein_coding	KNOWN	CCDS10106	25773	1881	626	44119161	44160617	1	None	FLJ12973
15	WDR76	ENSG00000092470	ENST00000381246	protein_coding	PUTATIVE	CCDS53938	25773	1689	562	44119178	44159216	1	None	FLJ12973
15	WDR76	ENSG00000092470	ENST00000452115	protein_coding	PUTATIVE	None	25773	686	227	44119186	44134869	1	None	FLJ12973
15	WDR76	ENSG00000092470	ENST00000478130	processed_transcript	KNOWN	None	25773	None	None	44150705	44159216	1	None	FLJ12973
HSCHR6_MHC_MANN	AGER	ENSG00000229058	ENST00000474565	retained_intron	KNOWN	None	320	None	None	32188172	32188839	-1	None	RAGE
HSCHR6_MHC_MANN	AGER	ENSG00000229058	ENST00000494732	retained_intron	KNOWN	None	320	None	None	32188172	32190135	-1	None	RAGE
HSCHR6_MHC_MANN	AGER	ENSG00000229058	ENST00000495229	retained_intron	KNOWN	None	320	None	None	32188172	32190135	-1	None	RAGE
HSCHR6_MHC_MANN	AGER	ENSG00000229058	ENST00000412470	protein_coding	KNOWN	None	320	1029	342	32188172	32191441	-1	None	RAGE
HSCHR6_MHC_MANN	AGER	ENSG00000229058	ENST00000449037	protein_coding	KNOWN	None	320	1044	347	32188172	32191450	-1	None	RAGE
HSCHR6_MHC_MANN	AGER	ENSG00000229058	ENST00000490201	retained_intron	KNOWN	None	320	None	None	32188172	32191450	-1	None	RAGE
HSCHR6_MHC_MANN	AGER	ENSG00000229058	ENST00000456918	protein_coding	KNOWN	None	320	1215	404	32188172	32191528	-1	None	RAGE
HSCHR6_MHC_MANN	AGER	ENSG00000229058	ENST00000444630	protein_coding	KNOWN	None	320	703	233	32190072	32191439	-1	None	RAGE
HSCHR6_MHC_MANN	AGER	ENSG00000229058	ENST00000424476	protein_coding	KNOWN	None	320	700	232	32190084	32191441	-1	None	RAGE
HSCHR6_MHC_MANN	AGER	ENSG00000229058	ENST00000550959	protein_coding	KNOWN	None	320	462	153	32188326	32191436	-1	None	RAGE
HSCHR6_MHC_MANN	AGER	ENSG00000229058	ENST00000547155	protein_coding	KNOWN	None	320	885	294	32188347	32191426	-1	None	RAGE
HSCHR6_MHC_MANN	AGER	ENSG00000229058	ENST00000552517	protein_coding	KNOWN	None	320	402	133	32188347	32191426	-1	None	RAGE
HSCHR6_MHC_MANN	AGER	ENSG00000229058	ENST00000547651	protein_coding	KNOWN	None	320	1092	363	32188326	32191436	-1	None	RAGE
HSCHR6_MHC_MANN	AGER	ENSG00000229058	ENST00000549758	protein_coding	KNOWN	None	320	366	121	32188326	32191436	-1	None	RAGE
HSCHR6_MHC_MANN	AGER	ENSG00000229058	ENST00000553014	protein_coding	KNOWN	None	320	387	128	32190613	32191426	-1	None	RAGE
6	HCG15	ENSG00000227214	ENST00000438190	antisense	KNOWN	None	18361	None	None	28953980	28955261	1	None	dJ25J6.6
1	C1QC	ENSG00000159189	ENST00000374640	protein_coding	KNOWN	CCDS227	1245	738	245	22970123	22974603	1	C1QG	None
1	C1QC	ENSG00000159189	ENST00000374639	protein_coding	KNOWN	CCDS227	1245	738	245	22970126	22974603	1	C1QG	None
1	C1QC	ENSG00000159189	ENST00000374637	protein_coding	KNOWN	CCDS227	1245	738	245	22970146	22974380	1	C1QG	None
10	CTSLP5	ENSG00000228745	ENST00000443343	unprocessed_pseudogene	KNOWN	None	23580	None	None	46790404	46791522	-1	CTSLL5, CTSL1P5	bA342C24.4
5	None	ENSG00000247199	ENST00000501695	antisense	KNOWN	None	None	None	None	147647870	147763346	-1	None	None
17	HN1	ENSG00000189159	ENST00000476258	protein_coding	KNOWN	CCDS45772	14569	327	108	73131343	73150338	-1	None	ARM2, HN1A
17	HN1	ENSG00000189159	ENST00000409753	protein_coding	KNOWN	CCDS45771	14569	465	154	73131343	73150778	-1	None	ARM2, HN1A
17	HN1	ENSG00000189159	ENST00000482348	protein_coding	KNOWN	CCDS45772	14569	327	108	73131381	73149388	-1	None	ARM2, HN1A
17	HN1	ENSG00000189159	ENST00000304834	nonsense_mediated_decay	KNOWN	None	14569	135	44	73131402	73150770	-1	None	ARM2, HN1A
17	HN1	ENSG00000189159	ENST00000356033	protein_coding	KNOWN	CCDS32729	14569	546	181	73131402	73150770	-1	None	ARM2, HN1A
17	HN1	ENSG00000189159	ENST00000470924	protein_coding	KNOWN	CCDS45772	14569	327	108	73131981	73149961	-1	None	ARM2, HN1A
17	HN1	ENSG00000189159	ENST00000481094	retained_intron	KNOWN	None	14569	None	None	73132079	73142875	-1	None	ARM2, HN1A
17	HN1	ENSG00000189159	ENST00000481647	protein_coding	KNOWN	CCDS45772	14569	327	108	73132087	73149921	-1	None	ARM2, HN1A
17	HN1	ENSG00000189159	ENST00000580380	protein_coding	PUTATIVE	None	14569	281	92	73132243	73164376	-1	None	ARM2, HN1A
17	HN1	ENSG00000189159	ENST00000581874	protein_coding	PUTATIVE	None	14569	315	104	73132296	73150607	-1	None	ARM2, HN1A
17	HN1	ENSG00000189159	ENST00000584079	processed_transcript	KNOWN	None	14569	None	None	73143633	73164356	-1	None	ARM2, HN1A
17	HN1	ENSG00000189159	ENST00000465454	processed_transcript	KNOWN	None	14569	None	None	73143879	73150607	-1	None	ARM2, HN1A
17	HN1	ENSG00000189159	ENST00000405458	protein_coding	KNOWN	CCDS45772	14569	327	108	73131343	73150774	-1	None	ARM2, HN1A
17	HN1	ENSG00000189159	ENST00000392566	protein_coding	KNOWN	None	14569	327	108	73132197	73150607	-1	None	ARM2, HN1A
16	LUC7L	ENSG00000007392	ENST00000426094	nonsense_mediated_decay	KNOWN	None	6723	129	42	238968	279438	-1	None	LUC7B1, hLuc7B1, Luc7
16	LUC7L	ENSG00000007392	ENST00000293872	protein_coding	KNOWN	CCDS32348	6723	1116	371	238968	279449	-1	None	LUC7B1, hLuc7B1, Luc7
16	LUC7L	ENSG00000007392	ENST00000337351	protein_coding	KNOWN	CCDS10401	6723	978	325	238968	279462	-1	None	LUC7B1, hLuc7B1, Luc7
16	LUC7L	ENSG00000007392	ENST00000397783	protein_coding	KNOWN	CCDS10401	6723	978	325	238970	279462	-1	None	LUC7B1, hLuc7B1, Luc7
16	LUC7L	ENSG00000007392	ENST00000468732	retained_intron	KNOWN	None	6723	None	None	238989	240594	-1	None	LUC7B1, hLuc7B1, Luc7
16	LUC7L	ENSG00000007392	ENST00000429378	protein_coding	NOVEL	None	6723	513	170	238989	256086	-1	None	LUC7B1, hLuc7B1, Luc7
16	LUC7L	ENSG00000007392	ENST00000490762	retained_intron	KNOWN	None	6723	None	None	238989	279450	-1	None	LUC7B1, hLuc7B1, Luc7
16	LUC7L	ENSG00000007392	ENST00000464711	retained_intron	KNOWN	None	6723	None	None	239097	259772	-1	None	LUC7B1, hLuc7B1, Luc7
16	LUC7L	ENSG00000007392	ENST00000442701	protein_coding	KNOWN	None	6723	181	59	239114	240548	-1	None	LUC7B1, hLuc7B1, Luc7
16	LUC7L	ENSG00000007392	ENST00000397780	protein_coding	PUTATIVE	None	6723	819	272	239895	277685	-1	None	LUC7B1, hLuc7B1, Luc7
16	LUC7L	ENSG00000007392	ENST00000419516	nonsense_mediated_decay	KNOWN	None	6723	168	55	239895	279433	-1	None	LUC7B1, hLuc7B1, Luc7
16	LUC7L	ENSG00000007392	ENST00000495349	retained_intron	KNOWN	None	6723	None	None	240000	258507	-1	None	LUC7B1, hLuc7B1, Luc7
16	LUC7L	ENSG00000007392	ENST00000418978	nonsense_mediated_decay	KNOWN	None	6723	168	55	240121	279373	-1	None	LUC7B1, hLuc7B1, Luc7
16	LUC7L	ENSG00000007392	ENST00000430864	protein_coding	PUTATIVE	None	6723	548	181	240540	279421	-1	None	LUC7B1, hLuc7B1, Luc7
16	LUC7L	ENSG00000007392	ENST00000443357	protein_coding	PUTATIVE	None	6723	252	83	256003	277655	-1	None	LUC7B1, hLuc7B1, Luc7
16	LUC7L	ENSG00000007392	ENST00000494366	processed_transcript	PUTATIVE	None	6723	None	None	258632	279141	-1	None	LUC7B1, hLuc7B1, Luc7
16	LUC7L	ENSG00000007392	ENST00000469109	retained_intron	KNOWN	None	6723	None	None	270170	277613	-1	None	LUC7B1, hLuc7B1, Luc7
16	LUC7L	ENSG00000007392	ENST00000428363	protein_coding	PUTATIVE	None	6723	96	31	270648	278721	-1	None	LUC7B1, hLuc7B1, Luc7
16	LUC7L	ENSG00000007392	ENST00000467552	retained_intron	KNOWN	None	6723	None	None	278123	278989	-1	None	LUC7B1, hLuc7B1, Luc7
16	LUC7L	ENSG00000007392	ENST00000494545	retained_intron	KNOWN	None	6723	None	None	278228	279339	-1	None	LUC7B1, hLuc7B1, Luc7
16	None	ENSG00000261330	ENST00000567559	processed_pseudogene	KNOWN	None	None	None	None	77926319	77926812	1	None	None
5	ARL2BPP6	ENSG00000248355	ENST00000512757	processed_pseudogene	KNOWN	None	39450	None	None	174717734	174718255	1	None	None
16	None	ENSG00000261540	ENST00000563114	antisense	KNOWN	None	None	None	None	78048580	78093351	-1	None	None
10	None	ENSG00000227586	ENST00000469206	processed_pseudogene	KNOWN	None	None	None	None	124931051	124931391	-1	None	None
10	None	ENSG00000227586	ENST00000536479	processed_pseudogene	KNOWN	None	None	None	None	124931048	124931395	-1	None	None
12	CLEC4E	ENSG00000166523	ENST00000299663	protein_coding	KNOWN	CCDS8594	14555	660	219	8685901	8693559	-1	CLECSF9	mincle
12	CLEC4E	ENSG00000166523	ENST00000446457	protein_coding	PUTATIVE	None	14555	279	92	8687080	8693473	-1	CLECSF9	mincle
12	CLEC4E	ENSG00000166523	ENST00000545274	protein_coding	NOVEL	None	14555	525	174	8687105	8693469	-1	CLECSF9	mincle
12	CLEC4E	ENSG00000166523	ENST00000537698	protein_coding	PUTATIVE	None	14555	284	93	8687177	8691851	-1	CLECSF9	mincle
12	CLEC4E	ENSG00000166523	ENST00000450725	nonsense_mediated_decay	KNOWN	None	14555	279	92	8687359	8693501	-1	CLECSF9	mincle
12	CLEC4E	ENSG00000166523	ENST00000446809	retained_intron	KNOWN	None	14555	None	None	8691550	8693497	-1	CLECSF9	mincle
16	KRT8P22	ENSG00000260731	ENST00000562317	processed_pseudogene	KNOWN	None	33374	None	None	78082380	78083794	-1	None	None
5	PGBD4P3	ENSG00000249834	ENST00000440731	processed_pseudogene	KNOWN	None	44068	None	None	147686861	147687821	1	None	None
7	TMEM184A	ENSG00000164855	ENST00000297477	protein_coding	KNOWN	CCDS43537	28797	1242	413	1581871	1596066	-1	None	MGC9712
7	TMEM184A	ENSG00000164855	ENST00000449955	processed_transcript	PUTATIVE	None	28797	None	None	1583450	1585885	-1	None	MGC9712
7	TMEM184A	ENSG00000164855	ENST00000319018	nonsense_mediated_decay	KNOWN	None	28797	501	166	1583450	1595819	-1	None	MGC9712
7	TMEM184A	ENSG00000164855	ENST00000421996	processed_transcript	PUTATIVE	None	28797	None	None	1583466	1585415	-1	None	MGC9712
7	TMEM184A	ENSG00000164855	ENST00000468535	retained_intron	KNOWN	None	28797	None	None	1585865	1590566	-1	None	MGC9712
7	TMEM184A	ENSG00000164855	ENST00000319010	protein_coding	NOVEL	None	28797	742	246	1588285	1595873	-1	None	MGC9712
7	TMEM184A	ENSG00000164855	ENST00000474813	retained_intron	KNOWN	None	28797	None	None	1589114	1595108	-1	None	MGC9712
7	TMEM184A	ENSG00000164855	ENST00000421923	nonsense_mediated_decay	KNOWN	None	28797	393	130	1589534	1600457	-1	None	MGC9712
7	TMEM184A	ENSG00000164855	ENST00000414730	protein_coding	KNOWN	None	28797	527	174	1589784	1595167	-1	None	MGC9712
7	TMEM184A	ENSG00000164855	ENST00000441933	protein_coding	KNOWN	None	28797	476	157	1589941	1595756	-1	None	MGC9712
7	TMEM184A	ENSG00000164855	ENST00000431208	protein_coding	KNOWN	None	28797	419	138	1589998	1600457	-1	None	MGC9712
5	None	ENSG00000251330	ENST00000520980	antisense	KNOWN	None	None	None	None	147809722	147810370	1	None	None
5	COMMD10	ENSG00000145781	ENST00000274458	protein_coding	KNOWN	CCDS34215	30201	609	202	115420688	115628984	1	None	PTD002
5	COMMD10	ENSG00000145781	ENST00000507356	nonsense_mediated_decay	KNOWN	None	30201	420	139	115420713	115628415	1	None	PTD002
5	COMMD10	ENSG00000145781	ENST00000515539	protein_coding	PUTATIVE	None	30201	567	188	115421171	115628354	1	None	PTD002
5	COMMD10	ENSG00000145781	ENST00000506589	protein_coding	PUTATIVE	None	30201	366	121	115426776	115628613	1	None	PTD002
5	COMMD10	ENSG00000145781	ENST00000508250	processed_transcript	KNOWN	None	30201	None	None	115627236	115642620	1	None	PTD002
5	COMMD10	ENSG00000145781	ENST00000503424	processed_transcript	KNOWN	None	30201	None	None	115628154	115748459	1	None	PTD002
16	HMOX2	ENSG00000103415	ENST00000575051	protein_coding	KNOWN	None	5014	715	237	4524691	4559431	1	None	HO-2
16	HMOX2	ENSG00000103415	ENST00000570646	protein_coding	KNOWN	CCDS10517	5014	951	316	4525925	4560348	1	None	HO-2
16	HMOX2	ENSG00000103415	ENST00000458134	protein_coding	KNOWN	CCDS10517	5014	951	316	4526341	4560296	1	None	HO-2
16	HMOX2	ENSG00000103415	ENST00000219700	protein_coding	KNOWN	CCDS10517	5014	951	316	4526380	4560347	1	None	HO-2
16	HMOX2	ENSG00000103415	ENST00000575120	protein_coding	PUTATIVE	None	5014	864	287	4526407	4559837	1	None	HO-2
16	HMOX2	ENSG00000103415	ENST00000572812	protein_coding	KNOWN	None	5014	330	109	4526413	4557839	1	None	HO-2
16	HMOX2	ENSG00000103415	ENST00000574466	protein_coding	KNOWN	None	5014	392	129	4526413	4557901	1	None	HO-2
16	HMOX2	ENSG00000103415	ENST00000576827	protein_coding	KNOWN	None	5014	394	130	4526440	4557903	1	None	HO-2
16	HMOX2	ENSG00000103415	ENST00000574594	processed_transcript	KNOWN	None	5014	None	None	4526443	4546763	1	None	HO-2
16	HMOX2	ENSG00000103415	ENST00000570445	protein_coding	KNOWN	None	5014	689	228	4526460	4558198	1	None	HO-2
16	HMOX2	ENSG00000103415	ENST00000575129	protein_coding	KNOWN	None	5014	396	131	4545859	4557905	1	None	HO-2
16	HMOX2	ENSG00000103415	ENST00000398595	protein_coding	KNOWN	CCDS10517	5014	951	316	4545859	4559902	1	None	HO-2
16	HMOX2	ENSG00000103415	ENST00000570622	protein_coding	PUTATIVE	None	5014	332	109	4558060	4559780	1	None	HO-2
16	HMOX2	ENSG00000103415	ENST00000406590	protein_coding	KNOWN	CCDS10517	5014	951	316	4524719	4560347	1	None	HO-2
16	HMOX2	ENSG00000103415	ENST00000414777	protein_coding	KNOWN	CCDS10517	5014	951	316	4545859	4560347	1	None	HO-2
5	HTR4-IT1	ENSG00000253297	ENST00000517511	sense_intronic	KNOWN	None	41345	None	None	148024250	148025953	-1	None	None
5	None	ENSG00000239026	ENST00000459518	snoRNA	NOVEL	None	None	None	None	174877819	174877921	-1	None	None
11	POLA2	ENSG00000014138	ENST00000265465	protein_coding	KNOWN	CCDS8098	30073	1797	598	65029233	65066156	1	None	FLJ21662
11	POLA2	ENSG00000014138	ENST00000527850	nonsense_mediated_decay	KNOWN	None	30073	114	37	65029391	65063969	1	None	FLJ21662
11	POLA2	ENSG00000014138	ENST00000532469	retained_intron	KNOWN	None	30073	None	None	65029403	65047491	1	None	FLJ21662
11	POLA2	ENSG00000014138	ENST00000532391	protein_coding	PUTATIVE	None	30073	438	145	65033952	65046297	1	None	FLJ21662
11	POLA2	ENSG00000014138	ENST00000527618	retained_intron	KNOWN	None	30073	None	None	65047939	65065087	1	None	FLJ21662
11	POLA2	ENSG00000014138	ENST00000525924	protein_coding	PUTATIVE	None	30073	785	260	65049978	65073060	1	None	FLJ21662
11	POLA2	ENSG00000014138	ENST00000533192	retained_intron	KNOWN	None	30073	None	None	65055073	65062247	1	None	FLJ21662
11	POLA2	ENSG00000014138	ENST00000534785	processed_transcript	KNOWN	None	30073	None	None	65061649	65065023	1	None	FLJ21662
11	POLA2	ENSG00000014138	ENST00000541089	protein_coding	KNOWN	None	30073	1086	361	65029433	65063681	1	None	FLJ21662
22	LINC00634	ENSG00000205704	ENST00000505157	unitary_pseudogene	KNOWN	None	27930	None	None	42348169	42353835	1	None	None
22	LINC00634	ENSG00000205704	ENST00000381348	processed_transcript	KNOWN	None	27930	None	None	42348178	42354937	1	None	None
22	LINC00634	ENSG00000205704	ENST00000522737	unitary_pseudogene	KNOWN	None	27930	None	None	42354196	42354651	1	None	None
10	None	ENSG00000265463	ENST00000584134	miRNA	NOVEL	None	None	None	None	124975618	124975704	-1	None	None
5	None	ENSG00000272411	ENST00000606841	antisense	KNOWN	None	None	None	None	148349903	148350216	1	None	None
5	None	ENSG00000270839	ENST00000605088	processed_pseudogene	KNOWN	None	None	None	None	174910598	174911195	-1	None	None
16	None	ENSG00000261776	ENST00000567157	processed_pseudogene	KNOWN	None	None	None	None	78089721	78090824	-1	None	None
5	RNU6-732P	ENSG00000251842	ENST00000516033	snRNA	KNOWN	None	47695	None	None	148437117	148437219	-1	None	None
5	RN7SKP148	ENSG00000222111	ENST00000410179	misc_RNA	KNOWN	None	45872	None	None	175055191	175055465	1	None	None
14	TRDV2	ENSG00000211821	ENST00000390469	TR_V_gene	KNOWN	None	12263	345	114	22891362	22892033	1	None	hDV102S1, MGC117421
5	RNU6-226P	ENSG00000200648	ENST00000363778	snRNA	KNOWN	None	47189	None	None	175130901	175131007	1	None	None
5	MIR584	ENSG00000207714	ENST00000384981	miRNA	KNOWN	None	32840	None	None	148441876	148441972	-1	MIRN584	hsa-mir-584
16	MIR4519	ENSG00000265991	ENST00000579767	miRNA	KNOWN	None	41544	None	None	30886587	30886644	-1	None	hsa-mir-4519
19	SCGB2B2	ENSG00000205209	ENST00000595326	processed_transcript	KNOWN	None	27616	None	None	35084234	35123881	-1	SCGBL	SCGB4A2
19	SCGB2B2	ENSG00000205209	ENST00000601241	protein_coding	KNOWN	CCDS32989	27616	291	96	35084347	35166604	-1	SCGBL	SCGB4A2
19	SCGB2B2	ENSG00000205209	ENST00000379204	protein_coding	KNOWN	CCDS32989	27616	291	96	35084347	35085490	-1	SCGBL	SCGB4A2
22	None	ENSG00000224883	ENST00000424613	antisense	KNOWN	None	None	None	None	42377308	42378221	-1	None	None
5	None	ENSG00000250820	ENST00000502813	sense_overlapping	KNOWN	None	None	None	None	175333942	175385541	-1	None	None
1	None	ENSG00000227751	ENST00000439577	antisense	KNOWN	None	None	None	None	17733256	17733878	1	None	None
6	GCNT2	ENSG00000111846	ENST00000410107	protein_coding	PUTATIVE	None	4204	351	116	10492456	10627455	1	NACGT1, II, GCNT5, CCAT	IGNT, NAGCT1, bA421M1.1, bA360O19.2, ULG3
6	GCNT2	ENSG00000111846	ENST00000489225	processed_transcript	KNOWN	None	4204	None	None	10492457	10627205	1	NACGT1, II, GCNT5, CCAT	IGNT, NAGCT1, bA421M1.1, bA360O19.2, ULG3
6	GCNT2	ENSG00000111846	ENST00000488742	processed_transcript	KNOWN	None	4204	None	None	10492459	10528940	1	NACGT1, II, GCNT5, CCAT	IGNT, NAGCT1, bA421M1.1, bA360O19.2, ULG3
6	GCNT2	ENSG00000111846	ENST00000498320	processed_transcript	KNOWN	None	4204	None	None	10521516	10529342	1	NACGT1, II, GCNT5, CCAT	IGNT, NAGCT1, bA421M1.1, bA360O19.2, ULG3
6	GCNT2	ENSG00000111846	ENST00000474983	retained_intron	KNOWN	None	4204	None	None	10521542	10530500	1	NACGT1, II, GCNT5, CCAT	IGNT, NAGCT1, bA421M1.1, bA360O19.2, ULG3
6	GCNT2	ENSG00000111846	ENST00000397423	processed_transcript	KNOWN	None	4204	None	None	10521565	10629600	1	NACGT1, II, GCNT5, CCAT	IGNT, NAGCT1, bA421M1.1, bA360O19.2, ULG3
6	GCNT2	ENSG00000111846	ENST00000475577	processed_transcript	KNOWN	None	4204	None	None	10521584	10626849	1	NACGT1, II, GCNT5, CCAT	IGNT, NAGCT1, bA421M1.1, bA360O19.2, ULG3
6	GCNT2	ENSG00000111846	ENST00000495262	protein_coding	KNOWN	CCDS34338	4204	1209	402	10521584	10627310	1	NACGT1, II, GCNT5, CCAT	IGNT, NAGCT1, bA421M1.1, bA360O19.2, ULG3
6	GCNT2	ENSG00000111846	ENST00000489819	processed_transcript	KNOWN	None	4204	None	None	10521653	10626790	1	NACGT1, II, GCNT5, CCAT	IGNT, NAGCT1, bA421M1.1, bA360O19.2, ULG3
6	GCNT2	ENSG00000111846	ENST00000474518	processed_transcript	KNOWN	None	4204	None	None	10521718	10621655	1	NACGT1, II, GCNT5, CCAT	IGNT, NAGCT1, bA421M1.1, bA360O19.2, ULG3
6	GCNT2	ENSG00000111846	ENST00000483204	retained_intron	KNOWN	None	4204	None	None	10527599	10530183	1	NACGT1, II, GCNT5, CCAT	IGNT, NAGCT1, bA421M1.1, bA360O19.2, ULG3
6	GCNT2	ENSG00000111846	ENST00000379597	protein_coding	KNOWN	CCDS34338	4204	1209	402	10528589	10629600	1	NACGT1, II, GCNT5, CCAT	IGNT, NAGCT1, bA421M1.1, bA360O19.2, ULG3
6	GCNT2	ENSG00000111846	ENST00000485764	processed_transcript	KNOWN	None	4204	None	None	10530030	10626697	1	NACGT1, II, GCNT5, CCAT	IGNT, NAGCT1, bA421M1.1, bA360O19.2, ULG3
6	GCNT2	ENSG00000111846	ENST00000461400	retained_intron	KNOWN	None	4204	None	None	10530045	10621878	1	NACGT1, II, GCNT5, CCAT	IGNT, NAGCT1, bA421M1.1, bA360O19.2, ULG3
6	GCNT2	ENSG00000111846	ENST00000316170	protein_coding	KNOWN	CCDS4512	4204	1203	400	10556240	10629601	1	NACGT1, II, GCNT5, CCAT	IGNT, NAGCT1, bA421M1.1, bA360O19.2, ULG3
6	GCNT2	ENSG00000111846	ENST00000459872	processed_transcript	PUTATIVE	None	4204	None	None	10557034	10619674	1	NACGT1, II, GCNT5, CCAT	IGNT, NAGCT1, bA421M1.1, bA360O19.2, ULG3
6	GCNT2	ENSG00000111846	ENST00000265012	protein_coding	KNOWN	CCDS4513	4204	1209	402	10585979	10629601	1	NACGT1, II, GCNT5, CCAT	IGNT, NAGCT1, bA421M1.1, bA360O19.2, ULG3
6	HECA	ENSG00000112406	ENST00000367658	protein_coding	KNOWN	CCDS5194	21041	1632	543	139456249	139501939	1	None	HDCL, hHDC, HDC, dJ225E12.1
5	None	ENSG00000250072	ENST00000515519	lincRNA	KNOWN	None	None	None	None	148442880	148451090	1	None	None
5	None	ENSG00000250072	ENST00000509139	lincRNA	KNOWN	None	None	None	None	148443018	148489350	1	None	None
5	None	ENSG00000250072	ENST00000515304	lincRNA	KNOWN	None	None	None	None	148443049	148443737	1	None	None
5	None	ENSG00000250072	ENST00000507318	lincRNA	KNOWN	None	None	None	None	148443066	148446548	1	None	None
5	None	ENSG00000250072	ENST00000507373	lincRNA	KNOWN	None	None	None	None	148443172	148486701	1	None	None
5	None	ENSG00000250072	ENST00000512007	lincRNA	KNOWN	None	None	None	None	148443836	148469015	1	None	None
16	None	ENSG00000262721	ENST00000572471	sense_overlapping	KNOWN	None	None	None	None	30887087	30906537	-1	None	None
17	BRCA1	ENSG00000012048	ENST00000357654	protein_coding	KNOWN	CCDS11453	1100	5592	1863	41196312	41277387	-1	None	RNF53, BRCC1, PPP1R53
17	BRCA1	ENSG00000012048	ENST00000468300	protein_coding	KNOWN	CCDS11455	1100	2100	699	41196822	41277468	-1	None	RNF53, BRCC1, PPP1R53
17	BRCA1	ENSG00000012048	ENST00000586385	protein_coding	PUTATIVE	None	1100	522	173	41197580	41277346	-1	None	RNF53, BRCC1, PPP1R53
17	BRCA1	ENSG00000012048	ENST00000591534	protein_coding	PUTATIVE	None	1100	1065	354	41197580	41277346	-1	None	RNF53, BRCC1, PPP1R53
17	BRCA1	ENSG00000012048	ENST00000591849	protein_coding	PUTATIVE	None	1100	291	96	41197580	41277346	-1	None	RNF53, BRCC1, PPP1R53
17	BRCA1	ENSG00000012048	ENST00000493795	protein_coding	KNOWN	CCDS11459	1100	5451	1816	41197646	41277419	-1	None	RNF53, BRCC1, PPP1R53
17	BRCA1	ENSG00000012048	ENST00000471181	protein_coding	KNOWN	CCDS11456	1100	5655	1884	41197646	41277500	-1	None	RNF53, BRCC1, PPP1R53
17	BRCA1	ENSG00000012048	ENST00000461221	nonsense_mediated_decay	KNOWN	None	1100	192	63	41197695	41277305	-1	None	RNF53, BRCC1, PPP1R53
17	BRCA1	ENSG00000012048	ENST00000491747	protein_coding	NOVEL	CCDS11454	1100	2280	759	41197695	41277373	-1	None	RNF53, BRCC1, PPP1R53
17	BRCA1	ENSG00000012048	ENST00000484087	protein_coding	NOVEL	None	1100	1495	497	41215361	41256933	-1	None	RNF53, BRCC1, PPP1R53
17	BRCA1	ENSG00000012048	ENST00000478531	protein_coding	NOVEL	None	1100	1870	622	41215361	41277376	-1	None	RNF53, BRCC1, PPP1R53
17	BRCA1	ENSG00000012048	ENST00000493919	protein_coding	NOVEL	None	1100	1716	571	41215377	41277419	-1	None	RNF53, BRCC1, PPP1R53
17	BRCA1	ENSG00000012048	ENST00000472490	retained_intron	KNOWN	None	1100	None	None	41219291	41223083	-1	None	RNF53, BRCC1, PPP1R53
17	BRCA1	ENSG00000012048	ENST00000487825	protein_coding	NOVEL	None	1100	800	265	41228505	41256933	-1	None	RNF53, BRCC1, PPP1R53
17	BRCA1	ENSG00000012048	ENST00000461574	protein_coding	NOVEL	None	1100	726	241	41228554	41243841	-1	None	RNF53, BRCC1, PPP1R53
17	BRCA1	ENSG00000012048	ENST00000467274	retained_intron	KNOWN	None	1100	None	None	41243115	41277332	-1	None	RNF53, BRCC1, PPP1R53
17	BRCA1	ENSG00000012048	ENST00000412061	non_stop_decay	KNOWN	None	1100	1312	436	41245587	41247883	-1	None	RNF53, BRCC1, PPP1R53
17	BRCA1	ENSG00000012048	ENST00000470026	protein_coding	KNOWN	None	1100	1947	648	41245601	41277340	-1	None	RNF53, BRCC1, PPP1R53
17	BRCA1	ENSG00000012048	ENST00000477152	protein_coding	NOVEL	None	1100	1867	621	41245603	41277381	-1	None	RNF53, BRCC1, PPP1R53
17	BRCA1	ENSG00000012048	ENST00000492859	nonsense_mediated_decay	KNOWN	None	1100	180	59	41246129	41277317	-1	None	RNF53, BRCC1, PPP1R53
17	BRCA1	ENSG00000012048	ENST00000497488	protein_coding	PUTATIVE	None	1100	531	176	41246129	41277317	-1	None	RNF53, BRCC1, PPP1R53
17	BRCA1	ENSG00000012048	ENST00000494123	protein_coding	KNOWN	None	1100	1419	472	41246129	41277467	-1	None	RNF53, BRCC1, PPP1R53
17	BRCA1	ENSG00000012048	ENST00000473961	protein_coding	NOVEL	None	1100	958	318	41246187	41256908	-1	None	RNF53, BRCC1, PPP1R53
17	BRCA1	ENSG00000012048	ENST00000476777	protein_coding	NOVEL	None	1100	667	221	41247863	41277370	-1	None	RNF53, BRCC1, PPP1R53
17	BRCA1	ENSG00000012048	ENST00000461798	nonsense_mediated_decay	KNOWN	None	1100	192	63	41251848	41277387	-1	None	RNF53, BRCC1, PPP1R53
17	BRCA1	ENSG00000012048	ENST00000489037	protein_coding	NOVEL	None	1100	296	97	41256206	41277338	-1	None	RNF53, BRCC1, PPP1R53
17	BRCA1	ENSG00000012048	ENST00000354071	protein_coding	KNOWN	None	1100	4797	1598	41196313	41277500	-1	None	RNF53, BRCC1, PPP1R53
17	BRCA1	ENSG00000012048	ENST00000352993	protein_coding	KNOWN	None	1100	2166	721	41196313	41277500	-1	None	RNF53, BRCC1, PPP1R53
17	BRCA1	ENSG00000012048	ENST00000346315	protein_coding	KNOWN	None	1100	4875	1624	41196313	41277468	-1	None	RNF53, BRCC1, PPP1R53
17	BRCA1	ENSG00000012048	ENST00000351666	protein_coding	KNOWN	None	1100	2043	680	41196313	41276132	-1	None	RNF53, BRCC1, PPP1R53
17	BRCA1	ENSG00000012048	ENST00000309486	protein_coding	KNOWN	None	1100	4704	1567	41196313	41277468	-1	None	RNF53, BRCC1, PPP1R53
1	None	ENSG00000266727	ENST00000583469	miRNA	NOVEL	None	None	None	None	17740127	17740190	-1	None	None
6	CD2AP	ENSG00000198087	ENST00000359314	protein_coding	KNOWN	CCDS34472	14258	1920	639	47445525	47594999	1	None	CMS
6	CD2AP	ENSG00000198087	ENST00000477159	retained_intron	KNOWN	None	14258	None	None	47501421	47512881	1	None	CMS
6	CD2AP	ENSG00000198087	ENST00000463175	retained_intron	KNOWN	None	14258	None	None	47544249	47547642	1	None	CMS
6	CD2AP	ENSG00000198087	ENST00000479857	processed_transcript	KNOWN	None	14258	None	None	47547130	47550009	1	None	CMS
6	CD2AP	ENSG00000198087	ENST00000486693	processed_transcript	PUTATIVE	None	14258	None	None	47575608	47577249	1	None	CMS
1	None	ENSG00000239020	ENST00000458798	snoRNA	NOVEL	None	None	None	None	17776259	17776359	1	None	None
5	None	ENSG00000266083	ENST00000581426	miRNA	NOVEL	None	None	None	None	175362212	175362304	-1	None	None
1	None	ENSG00000236648	ENST00000430540	lincRNA	KNOWN	None	None	None	None	18044182	18076473	1	None	None
5	None	ENSG00000250801	ENST00000509329	antisense	KNOWN	None	None	None	None	175399614	175406411	1	None	None
5	None	ENSG00000250801	ENST00000502354	antisense	KNOWN	None	None	None	None	175399618	175412859	1	None	None
5	None	ENSG00000250801	ENST00000511796	antisense	KNOWN	None	None	None	None	175399625	175406239	1	None	None
2	INHBB	ENSG00000163083	ENST00000295228	protein_coding	KNOWN	CCDS2132	6067	1224	407	121103719	121109384	1	None	None
1	None	ENSG00000261781	ENST00000569711	lincRNA	KNOWN	None	None	None	None	18392151	18400906	1	None	None
8	SOX7	ENSG00000171056	ENST00000304501	protein_coding	KNOWN	CCDS5977	18196	1167	388	10581278	10588022	-1	None	None
8	SOX7	ENSG00000171056	ENST00000553390	protein_coding	KNOWN	None	18196	1323	440	10582909	10697357	-1	None	None
1	RPAP2	ENSG00000122484	ENST00000370343	protein_coding	KNOWN	CCDS740	25791	1839	612	92764522	92853730	1	C1orf82	FLJ13150
1	RPAP2	ENSG00000122484	ENST00000484158	processed_transcript	KNOWN	None	25791	None	None	92764642	92789641	1	C1orf82	FLJ13150
1	RPAP2	ENSG00000122484	ENST00000477322	retained_intron	KNOWN	None	25791	None	None	92798799	92852790	1	C1orf82	FLJ13150
20	None	ENSG00000233017	ENST00000433121	lincRNA	KNOWN	None	None	None	None	61004604	61006568	1	None	None
2	OR6B2	ENSG00000182083	ENST00000402971	protein_coding	KNOWN	CCDS46559	15041	939	312	240968841	240969906	-1	OR6B2P	None
1	None	ENSG00000230035	ENST00000419667	antisense	KNOWN	None	None	None	None	18493423	18505840	-1	None	None
1	C1QB	ENSG00000173369	ENST00000510260	protein_coding	KNOWN	None	1242	460	152	22979255	22987583	1	None	None
1	C1QB	ENSG00000173369	ENST00000509305	protein_coding	KNOWN	None	1242	756	251	22979474	22988031	1	None	None
1	C1QB	ENSG00000173369	ENST00000432749	protein_coding	KNOWN	None	1242	686	227	22979682	22987809	1	None	None
1	C1QB	ENSG00000173369	ENST00000314933	protein_coding	KNOWN	CCDS228	1242	762	253	22979682	22988029	1	None	None
16	MIR762	ENSG00000211591	ENST00000390236	miRNA	KNOWN	None	37303	None	None	30905224	30905306	1	None	hsa-mir-762
1	None	ENSG00000225387	ENST00000420211	lincRNA	PUTATIVE	None	None	None	None	18712323	18715008	1	None	None
HSCHR6_MHC_DBB	HLA-DPB1	ENSG00000237710	ENST00000454006	protein_coding	KNOWN	None	4940	777	258	33021645	33032912	1	HLA-DP1B	None
HSCHR6_MHC_DBB	HLA-DPB1	ENSG00000237710	ENST00000411424	protein_coding	KNOWN	None	4940	687	228	33021691	33032912	1	HLA-DP1B	None
HSCHR6_MHC_DBB	HLA-DPB1	ENSG00000237710	ENST00000497181	retained_intron	KNOWN	None	4940	None	None	33021729	33026951	1	HLA-DP1B	None
HSCHR6_MHC_DBB	HLA-DPB1	ENSG00000237710	ENST00000495662	processed_transcript	KNOWN	None	4940	None	None	33026105	33030668	1	HLA-DP1B	None
HSCHR6_MHC_DBB	HLA-DPB1	ENSG00000237710	ENST00000472101	processed_transcript	KNOWN	None	4940	None	None	33026105	33029731	1	HLA-DP1B	None
HSCHR6_MHC_DBB	HLA-DPB1	ENSG00000237710	ENST00000487405	processed_transcript	KNOWN	None	4940	None	None	33026162	33030942	1	HLA-DP1B	None
HSCHR6_MHC_DBB	HLA-DPB1	ENSG00000237710	ENST00000456386	protein_coding	KNOWN	None	4940	688	228	33026206	33031600	1	HLA-DP1B	None
HSCHR6_MHC_DBB	HLA-DPB1	ENSG00000237710	ENST00000458614	protein_coding	KNOWN	None	4940	707	234	33026391	33032912	1	HLA-DP1B	None
HSCHR6_MHC_DBB	HLA-DPB1	ENSG00000237710	ENST00000472682	processed_transcript	KNOWN	None	4940	None	None	33026660	33029609	1	HLA-DP1B	None
HSCHR6_MHC_DBB	HLA-DPB1	ENSG00000237710	ENST00000548235	protein_coding	KNOWN	None	4940	249	82	33021702	33032910	1	HLA-DP1B	None
16	CTF2P	ENSG00000230447	ENST00000412003	unitary_pseudogene	KNOWN	None	33173	None	None	30915669	30921529	-1	None	NP
16	None	ENSG00000260969	ENST00000567099	antisense	KNOWN	None	None	None	None	78271259	78275115	-1	None	None
10	None	ENSG00000270902	ENST00000604869	processed_pseudogene	KNOWN	None	None	None	None	125082938	125083102	-1	None	None
1	None	ENSG00000235282	ENST00000596113	processed_pseudogene	KNOWN	None	None	None	None	18839612	18839877	1	None	None
1	None	ENSG00000235282	ENST00000441355	processed_pseudogene	KNOWN	None	None	None	None	18839612	18839881	1	None	None
10	None	ENSG00000230131	ENST00000448347	lincRNA	KNOWN	None	None	None	None	125115966	125277224	1	None	None
10	None	ENSG00000230131	ENST00000448671	lincRNA	KNOWN	None	None	None	None	125208869	125248852	1	None	None
3	GPR15	ENSG00000154165	ENST00000284311	protein_coding	KNOWN	CCDS2931	4469	1083	360	98250743	98251960	1	None	None
2	PRR21	ENSG00000221961	ENST00000486799	protein_coding	KNOWN	None	33866	1167	388	240981233	240982399	-1	None	None
2	PRR21	ENSG00000221961	ENST00000408934	protein_coding	KNOWN	CCDS33417	33866	1170	389	240981230	240982399	-1	None	None
2	None	ENSG00000268194	ENST00000593290	protein_coding	KNOWN	None	None	534	177	121221911	121223697	-1	None	None
12	GIT2	ENSG00000139436	ENST00000355312	protein_coding	KNOWN	CCDS9138	4273	2280	759	110367607	110434029	-1	None	KIAA0148
12	GIT2	ENSG00000139436	ENST00000457474	protein_coding	KNOWN	CCDS55884	4273	2046	681	110367609	110434100	-1	None	KIAA0148
12	GIT2	ENSG00000139436	ENST00000361006	protein_coding	KNOWN	CCDS44968	4273	2190	729	110367609	110434109	-1	None	KIAA0148
12	GIT2	ENSG00000139436	ENST00000553118	protein_coding	KNOWN	CCDS44969	4273	1896	631	110370420	110434194	-1	None	KIAA0148
12	GIT2	ENSG00000139436	ENST00000551209	protein_coding	NOVEL	None	4273	2127	708	110370783	110434029	-1	None	KIAA0148
12	GIT2	ENSG00000139436	ENST00000552978	retained_intron	KNOWN	None	4273	None	None	110370843	110376782	-1	None	KIAA0148
12	GIT2	ENSG00000139436	ENST00000550186	protein_coding	PUTATIVE	None	4273	1925	640	110370862	110434029	-1	None	KIAA0148
12	GIT2	ENSG00000139436	ENST00000546613	processed_transcript	KNOWN	None	4273	None	None	110370901	110376827	-1	None	KIAA0148
12	GIT2	ENSG00000139436	ENST00000548000	processed_transcript	KNOWN	None	4273	None	None	110370917	110380826	-1	None	KIAA0148
12	GIT2	ENSG00000139436	ENST00000548655	processed_transcript	KNOWN	None	4273	None	None	110371842	110378306	-1	None	KIAA0148
12	GIT2	ENSG00000139436	ENST00000549999	retained_intron	KNOWN	None	4273	None	None	110371845	110392355	-1	None	KIAA0148
12	GIT2	ENSG00000139436	ENST00000550480	retained_intron	KNOWN	None	4273	None	None	110376340	110377490	-1	None	KIAA0148
12	GIT2	ENSG00000139436	ENST00000547815	protein_coding	KNOWN	CCDS9139	4273	1416	471	110385127	110434101	-1	None	KIAA0148
12	GIT2	ENSG00000139436	ENST00000320063	protein_coding	PUTATIVE	None	4273	1266	421	110385867	110434096	-1	None	KIAA0148
12	GIT2	ENSG00000139436	ENST00000551455	retained_intron	KNOWN	None	4273	None	None	110388499	110434178	-1	None	KIAA0148
12	GIT2	ENSG00000139436	ENST00000547694	retained_intron	KNOWN	None	4273	None	None	110390485	110397763	-1	None	KIAA0148
12	GIT2	ENSG00000139436	ENST00000551721	retained_intron	KNOWN	None	4273	None	None	110399456	110420985	-1	None	KIAA0148
12	GIT2	ENSG00000139436	ENST00000548643	retained_intron	KNOWN	None	4273	None	None	110418757	110434173	-1	None	KIAA0148
12	GIT2	ENSG00000139436	ENST00000547267	retained_intron	KNOWN	None	4273	None	None	110421413	110429893	-1	None	KIAA0148
12	GIT2	ENSG00000139436	ENST00000360185	protein_coding	KNOWN	None	4273	2130	709	110367607	110434194	-1	None	KIAA0148
12	GIT2	ENSG00000139436	ENST00000354574	protein_coding	KNOWN	None	4273	2046	681	110367607	110434194	-1	None	KIAA0148
12	GIT2	ENSG00000139436	ENST00000338373	protein_coding	KNOWN	None	4273	1986	661	110367607	110434194	-1	None	KIAA0148
12	GIT2	ENSG00000139436	ENST00000343646	protein_coding	KNOWN	None	4273	1950	649	110367607	110434194	-1	None	KIAA0148
12	GIT2	ENSG00000139436	ENST00000356259	protein_coding	KNOWN	None	4273	1941	646	110367607	110434194	-1	None	KIAA0148
HSCHR5_1_CTG1	SERF1B	ENSG00000262305	ENST00000576191	protein_coding	KNOWN	None	10756	333	110	69004901	69022766	-1	None	FAM2B, H4F5C
HSCHR5_1_CTG1	SERF1B	ENSG00000262305	ENST00000572408	protein_coding	PUTATIVE	None	10756	246	81	69004911	69022662	-1	None	FAM2B, H4F5C
HSCHR5_1_CTG1	SERF1B	ENSG00000262305	ENST00000573686	protein_coding	PUTATIVE	None	10756	291	96	69006006	69022501	-1	None	FAM2B, H4F5C
HSCHR5_1_CTG1	SERF1B	ENSG00000262305	ENST00000572521	protein_coding	KNOWN	None	10756	189	62	69015331	69022788	-1	None	FAM2B, H4F5C
HSCHR5_1_CTG1	SERF1B	ENSG00000262305	ENST00000573393	protein_coding	PUTATIVE	None	10756	147	48	69015333	69021771	-1	None	FAM2B, H4F5C
HSCHR5_1_CTG1	SERF1B	ENSG00000262305	ENST00000573188	protein_coding	PUTATIVE	None	10756	147	48	69015534	69022448	-1	None	FAM2B, H4F5C
HSCHR5_1_CTG1	SERF1B	ENSG00000262305	ENST00000573668	protein_coding	PUTATIVE	None	10756	228	75	69017910	69022679	-1	None	FAM2B, H4F5C
HSCHR5_1_CTG1	SERF1B	ENSG00000262305	ENST00000570647	protein_coding	PUTATIVE	None	10756	74	23	69021520	69022472	-1	None	FAM2B, H4F5C
12	None	ENSG00000257415	ENST00000551967	processed_pseudogene	KNOWN	None	None	None	None	103897159	103898714	1	None	None
20	SRMS	ENSG00000125508	ENST00000217188	protein_coding	KNOWN	CCDS13525	11298	1467	488	62172163	62178857	-1	C20orf148	SRM, dJ697K14.1
10	None	ENSG00000225152	ENST00000415509	lincRNA	KNOWN	None	None	None	None	125185229	125187156	-1	None	None
1	None	ENSG00000225478	ENST00000450125	processed_pseudogene	KNOWN	None	None	None	None	18921908	18922130	1	None	None
2	OR6B3	ENSG00000178586	ENST00000319423	protein_coding	KNOWN	CCDS42837	15042	996	331	240984494	240985489	-1	OR6B3P	OR6B3Q
14	TRDD1	ENSG00000223997	ENST00000415118	TR_D_gene	KNOWN	None	12254	8	1	22907539	22907546	1	None	None
10	None	ENSG00000234542	ENST00000451295	lincRNA	KNOWN	None	None	None	None	125333743	125343283	1	None	None
1	MIR4695	ENSG00000265606	ENST00000577305	miRNA	KNOWN	None	41573	None	None	19209696	19209769	-1	None	hsa-mir-4695
2	None	ENSG00000267963	ENST00000593909	protein_coding	NOVEL	None	None	51	16	241053907	241064304	1	None	None
3	CD200R1L	ENSG00000206531	ENST00000398214	protein_coding	KNOWN	CCDS43131	24665	816	271	112534556	112564797	-1	None	CD200RLa, CD200R2
3	CD200R1L	ENSG00000206531	ENST00000488794	protein_coding	PUTATIVE	CCDS56267	24665	753	250	112534556	112565703	-1	None	CD200RLa, CD200R2
3	CD200R1L	ENSG00000206531	ENST00000486723	nonsense_mediated_decay	KNOWN	None	24665	168	55	112534635	112564790	-1	None	CD200RLa, CD200R2
3	CD200R1L	ENSG00000206531	ENST00000448932	protein_coding	KNOWN	CCDS56267	24665	753	250	112534556	112564797	-1	None	CD200RLa, CD200R2
3	RPSA	ENSG00000168028	ENST00000301821	protein_coding	KNOWN	CCDS2686	6502	888	295	39448180	39454033	1	LAMR1	LRP, 37LRP, p40, SA
3	RPSA	ENSG00000168028	ENST00000477325	retained_intron	KNOWN	None	6502	None	None	39448207	39450477	1	LAMR1	LRP, 37LRP, p40, SA
3	RPSA	ENSG00000168028	ENST00000475346	retained_intron	KNOWN	None	6502	None	None	39448209	39449686	1	LAMR1	LRP, 37LRP, p40, SA
3	RPSA	ENSG00000168028	ENST00000487876	retained_intron	KNOWN	None	6502	None	None	39448210	39449567	1	LAMR1	LRP, 37LRP, p40, SA
3	RPSA	ENSG00000168028	ENST00000458478	protein_coding	KNOWN	None	6502	791	262	39448224	39453550	1	LAMR1	LRP, 37LRP, p40, SA
3	RPSA	ENSG00000168028	ENST00000443003	protein_coding	NOVEL	None	6502	903	300	39448226	39453925	1	LAMR1	LRP, 37LRP, p40, SA
3	RPSA	ENSG00000168028	ENST00000444512	nonsense_mediated_decay	KNOWN	None	6502	273	90	39448254	39452340	1	LAMR1	LRP, 37LRP, p40, SA
3	RPSA	ENSG00000168028	ENST00000490490	processed_transcript	KNOWN	None	6502	None	None	39449695	39452425	1	LAMR1	LRP, 37LRP, p40, SA
3	RPSA	ENSG00000168028	ENST00000478027	processed_transcript	KNOWN	None	6502	None	None	39450028	39453929	1	LAMR1	LRP, 37LRP, p40, SA
3	RPSA	ENSG00000168028	ENST00000495394	retained_intron	KNOWN	None	6502	None	None	39451750	39453925	1	LAMR1	LRP, 37LRP, p40, SA
1	MIR1290	ENSG00000221662	ENST00000408735	miRNA	KNOWN	None	35283	None	None	19223565	19223642	-1	MIRN1290	hsa-mir-1290
1	None	ENSG00000272084	ENST00000606379	3prime_overlapping_ncrna	KNOWN	None	None	None	None	19398604	19402005	-1	None	None
1	PER3	ENSG00000049246	ENST00000377541	protein_coding	PUTATIVE	None	8847	1137	378	7844380	7864018	1	None	None
1	PER3	ENSG00000049246	ENST00000377532	protein_coding	NOVEL	None	8847	3633	1210	7844714	7905237	1	None	None
1	PER3	ENSG00000049246	ENST00000361923	protein_coding	KNOWN	CCDS89	8847	3606	1201	7844763	7905237	1	None	None
1	PER3	ENSG00000049246	ENST00000473653	retained_intron	KNOWN	None	8847	None	None	7845583	7848398	1	None	None
1	PER3	ENSG00000049246	ENST00000602883	retained_intron	KNOWN	None	8847	None	None	7847382	7848630	1	None	None
1	PER3	ENSG00000049246	ENST00000463106	retained_intron	KNOWN	None	8847	None	None	7863111	7870407	1	None	None
1	PER3	ENSG00000049246	ENST00000494684	retained_intron	KNOWN	None	8847	None	None	7896868	7902944	1	None	None
5	None	ENSG00000253558	ENST00000517330	transcribed_processed_pseudogene	KNOWN	None	None	None	None	77337703	77339962	-1	None	None
1	None	ENSG00000266098	ENST00000582644	miRNA	NOVEL	None	None	None	None	19410046	19410145	-1	None	None
11	SNX32	ENSG00000172803	ENST00000308342	protein_coding	KNOWN	CCDS8113	26423	1212	403	65601112	65621172	1	SNX6B	FLJ30934
11	SNX32	ENSG00000172803	ENST00000533298	retained_intron	KNOWN	None	26423	None	None	65601305	65618231	1	SNX6B	FLJ30934
11	SNX32	ENSG00000172803	ENST00000531503	retained_intron	KNOWN	None	26423	None	None	65601370	65617724	1	SNX6B	FLJ30934
11	SNX32	ENSG00000172803	ENST00000531795	processed_transcript	PUTATIVE	None	26423	None	None	65601414	65616983	1	SNX6B	FLJ30934
11	SNX32	ENSG00000172803	ENST00000526972	retained_intron	KNOWN	None	26423	None	None	65601430	65618925	1	SNX6B	FLJ30934
11	SNX32	ENSG00000172803	ENST00000534387	retained_intron	KNOWN	None	26423	None	None	65601438	65618034	1	SNX6B	FLJ30934
11	SNX32	ENSG00000172803	ENST00000524729	retained_intron	KNOWN	None	26423	None	None	65601444	65617730	1	SNX6B	FLJ30934
11	SNX32	ENSG00000172803	ENST00000530101	retained_intron	KNOWN	None	26423	None	None	65601450	65624367	1	SNX6B	FLJ30934
11	SNX32	ENSG00000172803	ENST00000533236	retained_intron	KNOWN	None	26423	None	None	65601475	65618819	1	SNX6B	FLJ30934
1	None	ENSG00000230424	ENST00000437898	antisense	KNOWN	None	None	None	None	19536995	19567198	1	None	None
11	SSSCA1	ENSG00000173465	ENST00000309328	protein_coding	KNOWN	CCDS8104	11328	600	199	65337901	65339241	1	None	p27
11	SSSCA1	ENSG00000173465	ENST00000531405	protein_coding	PUTATIVE	None	11328	489	162	65337931	65339359	1	None	p27
11	SSSCA1	ENSG00000173465	ENST00000527920	protein_coding	PUTATIVE	None	11328	183	60	65337956	65340363	1	None	p27
11	SSSCA1	ENSG00000173465	ENST00000526877	protein_coding	PUTATIVE	None	11328	246	81	65337958	65339329	1	None	p27
11	SSSCA1	ENSG00000173465	ENST00000533115	protein_coding	PUTATIVE	None	11328	582	193	65338074	65340363	1	None	p27
11	SSSCA1	ENSG00000173465	ENST00000526433	protein_coding	PUTATIVE	None	11328	323	106	65338153	65341413	1	None	p27
11	SSSCA1	ENSG00000173465	ENST00000527413	retained_intron	KNOWN	None	11328	None	None	65338288	65339239	1	None	p27
1	ILDR2	ENSG00000143195	ENST00000271417	protein_coding	KNOWN	CCDS1256	18131	1920	639	166882443	166944561	-1	C1orf32	None
1	ILDR2	ENSG00000143195	ENST00000528703	protein_coding	NOVEL	None	18131	1743	580	166888103	166944719	-1	C1orf32	None
1	ILDR2	ENSG00000143195	ENST00000525740	protein_coding	NOVEL	None	18131	1539	512	166888103	166944719	-1	C1orf32	None
1	ILDR2	ENSG00000143195	ENST00000529387	protein_coding	PUTATIVE	None	18131	504	167	166888103	166944719	-1	C1orf32	None
1	ILDR2	ENSG00000143195	ENST00000469934	protein_coding	PUTATIVE	None	18131	1314	437	166888103	166944719	-1	C1orf32	None
1	ILDR2	ENSG00000143195	ENST00000529071	protein_coding	NOVEL	None	18131	1863	620	166888103	166944719	-1	C1orf32	None
1	ILDR2	ENSG00000143195	ENST00000526687	protein_coding	NOVEL	None	18131	1596	531	166888103	166944719	-1	C1orf32	None
5	None	ENSG00000222085	ENST00000410153	miRNA	NOVEL	None	None	None	None	77352448	77352570	-1	None	None
1	None	ENSG00000270728	ENST00000604801	processed_pseudogene	KNOWN	None	None	None	None	19623574	19624397	1	None	None
2	MYEOV2	ENSG00000172428	ENST00000307266	protein_coding	KNOWN	CCDS2532	21314	759	252	241065980	241075764	-1	None	None
2	MYEOV2	ENSG00000172428	ENST00000607357	protein_coding	NOVEL	None	21314	174	57	241070243	241075720	-1	None	None
2	MYEOV2	ENSG00000172428	ENST00000491765	retained_intron	KNOWN	None	21314	None	None	241070245	241073707	-1	None	None
2	MYEOV2	ENSG00000172428	ENST00000489698	processed_transcript	PUTATIVE	None	21314	None	None	241070245	241075593	-1	None	None
2	MYEOV2	ENSG00000172428	ENST00000403160	protein_coding	NOVEL	None	21314	149	48	241073400	241076224	-1	None	None
5	ATP6V1G1P6	ENSG00000249372	ENST00000504007	processed_pseudogene	KNOWN	None	37673	None	None	77518008	77518341	1	None	None
10	None	ENSG00000222374	ENST00000410442	miRNA	NOVEL	None	None	None	None	28599782	28599888	1	None	None
3	PEX5L-AS2	ENSG00000244302	ENST00000462801	antisense	KNOWN	None	41252	None	None	179616017	179639683	1	None	None
1	RNU6-1099P	ENSG00000200403	ENST00000363533	snRNA	KNOWN	None	48062	None	None	19631570	19631676	-1	None	None
5	None	ENSG00000251605	ENST00000509930	processed_pseudogene	KNOWN	None	None	None	None	77603327	77603738	1	None	None
20	None	ENSG00000272050	ENST00000606283	lincRNA	KNOWN	None	None	None	None	61052926	61053650	1	None	None
1	RN7SL85P	ENSG00000265192	ENST00000583604	misc_RNA	KNOWN	None	46101	None	None	19646299	19646554	-1	None	None
5	RNU6-183P	ENSG00000200331	ENST00000363461	snRNA	KNOWN	None	47146	None	None	77610740	77610849	-1	None	None
1	RN7SL277P	ENSG00000240490	ENST00000481521	misc_RNA	KNOWN	None	46293	None	None	19750878	19751163	1	None	None
X	None	ENSG00000236072	ENST00000454146	processed_pseudogene	KNOWN	None	None	None	None	34405839	34406581	1	None	None
5	None	ENSG00000206714	ENST00000383987	misc_RNA	NOVEL	None	None	None	None	77612860	77612961	1	None	None
1	RNU4-28P	ENSG00000201609	ENST00000364739	snRNA	KNOWN	None	46964	None	None	19837087	19837227	1	None	None
1	None	ENSG00000239027	ENST00000458906	snoRNA	NOVEL	None	None	None	None	19858664	19858768	-1	None	None
6	SOCS5P5	ENSG00000216904	ENST00000402732	processed_pseudogene	KNOWN	None	44601	None	None	113543368	113545274	1	None	None
X	None	ENSG00000271136	ENST00000605319	processed_pseudogene	KNOWN	None	None	None	None	34535037	34535475	1	None	None
5	None	ENSG00000245556	ENST00000513755	lincRNA	KNOWN	None	None	None	None	77638189	77656217	-1	None	None
5	None	ENSG00000245556	ENST00000421004	lincRNA	KNOWN	None	None	None	None	77654625	77656331	-1	None	None
10	ZNF101P1	ENSG00000237746	ENST00000435701	processed_pseudogene	KNOWN	None	44940	None	None	28627483	28629871	-1	None	None
1	None	ENSG00000235185	ENST00000416470	antisense	KNOWN	None	None	None	None	19918296	19923326	-1	None	None
X	None	ENSG00000225384	ENST00000445763	processed_pseudogene	KNOWN	None	None	None	None	34735557	34736109	-1	None	None
6	HMGCLL1	ENSG00000146151	ENST00000274901	protein_coding	KNOWN	CCDS43474	21359	1023	340	55299167	55444012	-1	None	DKFZP434G1411, bA418P12.1
6	HMGCLL1	ENSG00000146151	ENST00000398661	protein_coding	KNOWN	CCDS43475	21359	1113	370	55299173	55443985	-1	None	DKFZP434G1411, bA418P12.1
6	HMGCLL1	ENSG00000146151	ENST00000370852	nonsense_mediated_decay	KNOWN	None	21359	162	53	55299178	55443897	-1	None	DKFZP434G1411, bA418P12.1
6	HMGCLL1	ENSG00000146151	ENST00000370850	protein_coding	NOVEL	None	21359	714	237	55300114	55443964	-1	None	DKFZP434G1411, bA418P12.1
6	HMGCLL1	ENSG00000146151	ENST00000508459	protein_coding	NOVEL	None	21359	525	174	55300151	55443903	-1	None	DKFZP434G1411, bA418P12.1
6	HMGCLL1	ENSG00000146151	ENST00000308161	protein_coding	NOVEL	None	21359	927	308	55300198	55443978	-1	None	DKFZP434G1411, bA418P12.1
6	HMGCLL1	ENSG00000146151	ENST00000507223	processed_transcript	KNOWN	None	21359	None	None	55300217	55304526	-1	None	DKFZP434G1411, bA418P12.1
6	HMGCLL1	ENSG00000146151	ENST00000428842	protein_coding	PUTATIVE	None	21359	456	151	55376873	55443871	-1	None	DKFZP434G1411, bA418P12.1
6	HMGCLL1	ENSG00000146151	ENST00000515546	nonsense_mediated_decay	KNOWN	None	21359	120	39	55381366	55443964	-1	None	DKFZP434G1411, bA418P12.1
6	HMGCLL1	ENSG00000146151	ENST00000358072	protein_coding	KNOWN	None	21359	162	53	55428659	55443893	-1	None	DKFZP434G1411, bA418P12.1
1	RPS14P3	ENSG00000226396	ENST00000457263	processed_pseudogene	KNOWN	None	35797	None	None	19934608	19935062	1	None	None
19	DNAJB1	ENSG00000132002	ENST00000254322	protein_coding	KNOWN	CCDS12312	5270	1023	340	14625582	14629232	-1	HSPF1	Hsp40, Sis1, RSPH16B
19	DNAJB1	ENSG00000132002	ENST00000396969	protein_coding	PUTATIVE	None	5270	723	240	14626461	14640120	-1	HSPF1	Hsp40, Sis1, RSPH16B
19	DNAJB1	ENSG00000132002	ENST00000598235	protein_coding	PUTATIVE	None	5270	550	182	14626925	14628645	-1	HSPF1	Hsp40, Sis1, RSPH16B
19	DNAJB1	ENSG00000132002	ENST00000595139	protein_coding	PUTATIVE	None	5270	488	161	14627381	14628381	-1	HSPF1	Hsp40, Sis1, RSPH16B
19	DNAJB1	ENSG00000132002	ENST00000596853	protein_coding	PUTATIVE	None	5270	350	115	14627420	14640005	-1	HSPF1	Hsp40, Sis1, RSPH16B
19	DNAJB1	ENSG00000132002	ENST00000595992	protein_coding	PUTATIVE	None	5270	348	115	14627422	14640112	-1	HSPF1	Hsp40, Sis1, RSPH16B
19	DNAJB1	ENSG00000132002	ENST00000594099	protein_coding	PUTATIVE	None	5270	322	106	14627448	14640582	-1	HSPF1	Hsp40, Sis1, RSPH16B
19	DNAJB1	ENSG00000132002	ENST00000601533	protein_coding	PUTATIVE	None	5270	273	90	14627497	14640120	-1	HSPF1	Hsp40, Sis1, RSPH16B
19	DNAJB1	ENSG00000132002	ENST00000598692	protein_coding	PUTATIVE	None	5270	241	79	14627529	14640134	-1	HSPF1	Hsp40, Sis1, RSPH16B
19	DNAJB1	ENSG00000132002	ENST00000596075	protein_coding	PUTATIVE	None	5270	239	78	14627531	14640063	-1	HSPF1	Hsp40, Sis1, RSPH16B
19	DNAJB1	ENSG00000132002	ENST00000601087	retained_intron	KNOWN	None	5270	None	None	14638179	14640065	-1	HSPF1	Hsp40, Sis1, RSPH16B
4	PDHA2	ENSG00000163114	ENST00000295266	protein_coding	KNOWN	CCDS3644	8807	1167	388	96761239	96762625	1	PDHAL	None
1	None	ENSG00000235434	ENST00000454736	antisense	KNOWN	None	None	None	None	20140860	20145995	1	None	None
14	TRDD2	ENSG00000237235	ENST00000434970	TR_D_gene	KNOWN	None	12255	9	2	22907999	22908007	1	None	None
10	MYOF	ENSG00000138119	ENST00000463743	nonsense_mediated_decay	KNOWN	None	3656	3533	1176	95066186	95139744	-1	FER1L3	KIAA1207
10	MYOF	ENSG00000138119	ENST00000358334	protein_coding	KNOWN	CCDS41550	3656	6147	2048	95066187	95241951	-1	FER1L3	KIAA1207
10	MYOF	ENSG00000138119	ENST00000359263	protein_coding	KNOWN	CCDS41551	3656	6186	2061	95066187	95241951	-1	FER1L3	KIAA1207
10	MYOF	ENSG00000138119	ENST00000474161	retained_intron	KNOWN	None	3656	None	None	95082875	95083432	-1	FER1L3	KIAA1207
10	MYOF	ENSG00000138119	ENST00000485212	processed_transcript	KNOWN	None	3656	None	None	95084027	95089530	-1	FER1L3	KIAA1207
10	MYOF	ENSG00000138119	ENST00000475358	processed_transcript	KNOWN	None	3656	None	None	95097285	95100006	-1	FER1L3	KIAA1207
10	MYOF	ENSG00000138119	ENST00000371489	protein_coding	KNOWN	None	3656	1338	445	95156942	95242074	-1	FER1L3	KIAA1207
10	MYOF	ENSG00000138119	ENST00000371488	protein_coding	KNOWN	None	3656	483	160	95185498	95241951	-1	FER1L3	KIAA1207
10	MYOF	ENSG00000138119	ENST00000488645	processed_transcript	KNOWN	None	3656	None	None	95185828	95241951	-1	FER1L3	KIAA1207
10	MYOF	ENSG00000138119	ENST00000371501	protein_coding	KNOWN	None	3656	6186	2061	95066187	95242074	-1	FER1L3	KIAA1207
10	MYOF	ENSG00000138119	ENST00000371502	protein_coding	KNOWN	None	3656	6156	2051	95066187	95242074	-1	FER1L3	KIAA1207
4	None	ENSG00000249692	ENST00000502989	processed_pseudogene	KNOWN	None	None	None	None	155691720	155692068	1	None	None
19	LILRA6	ENSG00000244482	ENST00000430421	nonsense_mediated_decay	KNOWN	None	15495	582	193	54740468	54746617	-1	LILRB6	ILT8, CD85b
19	LILRA6	ENSG00000244482	ENST00000396365	protein_coding	NOVEL	CCDS42610	15495	1446	481	54742425	54746640	-1	LILRB6	ILT8, CD85b
19	LILRA6	ENSG00000244482	ENST00000245621	protein_coding	KNOWN	None	15495	1395	464	54742829	54746600	-1	LILRB6	ILT8, CD85b
19	LILRA6	ENSG00000244482	ENST00000474697	retained_intron	KNOWN	None	15495	None	None	54744914	54746621	-1	LILRB6	ILT8, CD85b
19	LILRA6	ENSG00000244482	ENST00000440558	protein_coding	KNOWN	None	15495	1896	631	54720737	54746649	-1	LILRB6	ILT8, CD85b
19	LILRA6	ENSG00000244482	ENST00000270464	protein_coding	KNOWN	None	15495	1899	632	54720797	54746602	-1	LILRB6	ILT8, CD85b
19	LILRA6	ENSG00000244482	ENST00000419410	protein_coding	KNOWN	None	15495	1899	632	54720797	54746602	-1	LILRB6	ILT8, CD85b
19	LILRA6	ENSG00000244482	ENST00000391735	protein_coding	KNOWN	None	15495	582	193	54720797	54746602	-1	LILRB6	ILT8, CD85b
1	RN7SL304P	ENSG00000242688	ENST00000488028	misc_RNA	KNOWN	None	46320	None	None	20297462	20297760	1	None	None
X	None	ENSG00000222864	ENST00000410932	miRNA	NOVEL	None	None	None	None	35074448	35074575	-1	None	None
1	None	ENSG00000227066	ENST00000417884	lincRNA	KNOWN	None	None	None	None	20480831	20487061	1	None	None
1	None	ENSG00000227066	ENST00000431027	lincRNA	KNOWN	None	None	None	None	20484185	20487059	1	None	None
X	None	ENSG00000229347	ENST00000427910	processed_pseudogene	KNOWN	None	None	None	None	35077044	35078091	1	None	None
19	COX6B2	ENSG00000160471	ENST00000588572	protein_coding	KNOWN	CCDS42630	24380	267	88	55860674	55866064	-1	None	COXVIB2, FLJ32865, CT59
19	COX6B2	ENSG00000160471	ENST00000326529	protein_coding	KNOWN	CCDS42630	24380	267	88	55861070	55866182	-1	None	COXVIB2, FLJ32865, CT59
19	COX6B2	ENSG00000160471	ENST00000593184	protein_coding	KNOWN	CCDS42630	24380	267	88	55861076	55866079	-1	None	COXVIB2, FLJ32865, CT59
19	COX6B2	ENSG00000160471	ENST00000590900	protein_coding	KNOWN	CCDS42630	24380	267	88	55861781	55865908	-1	None	COXVIB2, FLJ32865, CT59
19	COX6B2	ENSG00000160471	ENST00000589879	processed_transcript	KNOWN	None	24380	None	None	55863125	55864762	-1	None	COXVIB2, FLJ32865, CT59
19	COX6B2	ENSG00000160471	ENST00000588586	processed_transcript	KNOWN	None	24380	None	None	55863375	55863536	-1	None	COXVIB2, FLJ32865, CT59
19	COX6B2	ENSG00000160471	ENST00000586191	processed_transcript	KNOWN	None	24380	None	None	55863547	55865057	-1	None	COXVIB2, FLJ32865, CT59
19	COX6B2	ENSG00000160471	ENST00000589467	retained_intron	KNOWN	None	24380	None	None	55864965	55866087	-1	None	COXVIB2, FLJ32865, CT59
19	COX6B2	ENSG00000160471	ENST00000587357	retained_intron	KNOWN	None	24380	None	None	55865476	55866079	-1	None	COXVIB2, FLJ32865, CT59
19	COX6B2	ENSG00000160471	ENST00000587854	retained_intron	KNOWN	None	24380	None	None	55865508	55866055	-1	None	COXVIB2, FLJ32865, CT59
4	RNU2-66P	ENSG00000222582	ENST00000410650	snRNA	KNOWN	None	48559	None	None	155708270	155708430	1	None	None
19	BAX	ENSG00000087088	ENST00000502487	retained_intron	KNOWN	None	959	None	None	49458072	49464961	1	None	BCL2L4
19	BAX	ENSG00000087088	ENST00000345358	protein_coding	KNOWN	CCDS12742	959	579	192	49458134	49465055	1	None	BCL2L4
19	BAX	ENSG00000087088	ENST00000513545	retained_intron	KNOWN	None	959	None	None	49458154	49464970	1	None	BCL2L4
19	BAX	ENSG00000087088	ENST00000515540	nonsense_mediated_decay	KNOWN	None	959	126	41	49458186	49459573	1	None	BCL2L4
19	BAX	ENSG00000087088	ENST00000356483	nonsense_mediated_decay	KNOWN	None	959	495	164	49458186	49464893	1	None	BCL2L4
19	BAX	ENSG00000087088	ENST00000415969	protein_coding	KNOWN	CCDS12745	959	540	179	49458186	49464893	1	None	BCL2L4
19	BAX	ENSG00000087088	ENST00000354470	protein_coding	KNOWN	CCDS12743	959	432	143	49458186	49464894	1	None	BCL2L4
19	BAX	ENSG00000087088	ENST00000506183	protein_coding	PUTATIVE	None	959	380	125	49458186	49464896	1	None	BCL2L4
19	BAX	ENSG00000087088	ENST00000293288	protein_coding	KNOWN	CCDS12744	959	657	218	49458186	49465055	1	None	BCL2L4
19	BAX	ENSG00000087088	ENST00000503726	retained_intron	KNOWN	None	959	None	None	49458765	49464092	1	None	BCL2L4
19	BAX	ENSG00000087088	ENST00000513217	retained_intron	KNOWN	None	959	None	None	49459110	49464454	1	None	BCL2L4
19	BAX	ENSG00000087088	ENST00000539787	protein_coding	KNOWN	None	959	495	164	49458117	49465052	1	None	BCL2L4
19	BAX	ENSG00000087088	ENST00000391871	protein_coding	KNOWN	None	959	126	41	49458137	49465052	1	None	BCL2L4
16	LSM3P5	ENSG00000260014	ENST00000566307	processed_pseudogene	KNOWN	None	44350	None	None	78389426	78389731	1	None	None
4	RNU2-44P	ENSG00000252604	ENST00000516795	snRNA	KNOWN	None	48537	None	None	155711443	155711636	1	None	None
1	None	ENSG00000225986	ENST00000442226	antisense	KNOWN	None	None	None	None	20510735	20512979	-1	None	None
19	ZNF302	ENSG00000089335	ENST00000512455	retained_intron	KNOWN	None	13848	None	None	35168544	35173954	1	None	ZNF327, ZNF135L, ZNF140L
19	ZNF302	ENSG00000089335	ENST00000502743	protein_coding	NOVEL	None	13848	360	119	35168552	35175042	1	None	ZNF327, ZNF135L, ZNF140L
19	ZNF302	ENSG00000089335	ENST00000509528	processed_transcript	PUTATIVE	None	13848	None	None	35168552	35175446	1	None	ZNF327, ZNF135L, ZNF140L
19	ZNF302	ENSG00000089335	ENST00000506901	protein_coding	NOVEL	None	13848	398	131	35168559	35175077	1	None	ZNF327, ZNF135L, ZNF140L
19	ZNF302	ENSG00000089335	ENST00000457781	protein_coding	KNOWN	CCDS46042	13848	1200	399	35168567	35177302	1	None	ZNF327, ZNF135L, ZNF140L
19	ZNF302	ENSG00000089335	ENST00000505163	protein_coding	KNOWN	None	13848	427	141	35168583	35175369	1	None	ZNF327, ZNF135L, ZNF140L
19	ZNF302	ENSG00000089335	ENST00000505242	protein_coding	KNOWN	CCDS46042	13848	1200	399	35168583	35177297	1	None	ZNF327, ZNF135L, ZNF140L
19	ZNF302	ENSG00000089335	ENST00000423823	protein_coding	KNOWN	CCDS46042	13848	1200	399	35168594	35177296	1	None	ZNF327, ZNF135L, ZNF140L
19	ZNF302	ENSG00000089335	ENST00000507959	protein_coding	NOVEL	None	13848	399	132	35168607	35175310	1	None	ZNF327, ZNF135L, ZNF140L
19	ZNF302	ENSG00000089335	ENST00000510002	retained_intron	KNOWN	None	13848	None	None	35168612	35174052	1	None	ZNF327, ZNF135L, ZNF140L
19	ZNF302	ENSG00000089335	ENST00000446502	protein_coding	NOVEL	None	13848	1332	443	35168622	35177237	1	None	ZNF327, ZNF135L, ZNF140L
19	ZNF302	ENSG00000089335	ENST00000505365	protein_coding	NOVEL	None	13848	396	131	35168741	35177301	1	None	ZNF327, ZNF135L, ZNF140L
19	ZNF302	ENSG00000089335	ENST00000509196	retained_intron	KNOWN	None	13848	None	None	35172188	35177296	1	None	ZNF327, ZNF135L, ZNF140L
4	None	ENSG00000250538	ENST00000511017	antisense	KNOWN	None	None	None	None	156127681	156129583	-1	None	None
4	None	ENSG00000250538	ENST00000508687	antisense	KNOWN	None	None	None	None	156128318	156130179	-1	None	None
2	OTOS	ENSG00000178602	ENST00000391989	protein_coding	KNOWN	CCDS2533	22644	270	89	241078446	241083979	-1	None	OTOSP
2	OTOS	ENSG00000178602	ENST00000319460	protein_coding	KNOWN	CCDS2533	22644	270	89	241078446	241080073	-1	None	OTOSP
16	None	ENSG00000260733	ENST00000563408	antisense	KNOWN	None	None	None	None	78529823	78540465	-1	None	None
19	None	ENSG00000268530	ENST00000600529	antisense	KNOWN	None	None	None	None	48968850	48970194	-1	None	None
19	None	ENSG00000268530	ENST00000596497	antisense	KNOWN	None	None	None	None	48968865	48972401	-1	None	None
19	None	ENSG00000268530	ENST00000593476	antisense	KNOWN	None	None	None	None	48968868	48972950	-1	None	None
19	None	ENSG00000268530	ENST00000600650	antisense	KNOWN	None	None	None	None	48968920	48972764	-1	None	None
11	OR8G1	ENSG00000197849	ENST00000534473	unprocessed_pseudogene	KNOWN	None	8484	None	None	124120423	124121199	1	OR8G1P	TPCR25, HSTPCR25
11	OR8G1	ENSG00000197849	ENST00000341493	unprocessed_pseudogene	KNOWN	None	8484	None	None	124120423	124135763	1	OR8G1P	TPCR25, HSTPCR25
6	AHI1	ENSG00000135541	ENST00000367800	protein_coding	KNOWN	CCDS47483	21575	3591	1196	135604670	135818883	-1	None	FLJ20069, ORF1, JBTS3
6	AHI1	ENSG00000135541	ENST00000457866	protein_coding	KNOWN	CCDS47483	21575	3591	1196	135605124	135818903	-1	None	FLJ20069, ORF1, JBTS3
6	AHI1	ENSG00000135541	ENST00000475846	nonsense_mediated_decay	KNOWN	None	21575	1627	541	135606034	135763823	-1	None	FLJ20069, ORF1, JBTS3
6	AHI1	ENSG00000135541	ENST00000498558	retained_intron	KNOWN	None	21575	None	None	135606323	135621971	-1	None	FLJ20069, ORF1, JBTS3
6	AHI1	ENSG00000135541	ENST00000367799	protein_coding	PUTATIVE	None	21575	2006	667	135606430	135769552	-1	None	FLJ20069, ORF1, JBTS3
6	AHI1	ENSG00000135541	ENST00000527681	nonsense_mediated_decay	KNOWN	None	21575	88	28	135606433	135621670	-1	None	FLJ20069, ORF1, JBTS3
6	AHI1	ENSG00000135541	ENST00000265602	protein_coding	KNOWN	CCDS47483	21575	3591	1196	135606434	135818914	-1	None	FLJ20069, ORF1, JBTS3
6	AHI1	ENSG00000135541	ENST00000487135	retained_intron	KNOWN	None	21575	None	None	135606519	135621791	-1	None	FLJ20069, ORF1, JBTS3
6	AHI1	ENSG00000135541	ENST00000533029	retained_intron	KNOWN	None	21575	None	None	135623511	135644517	-1	None	FLJ20069, ORF1, JBTS3
6	AHI1	ENSG00000135541	ENST00000531788	nonsense_mediated_decay	KNOWN	None	21575	1830	609	135639572	135818878	-1	None	FLJ20069, ORF1, JBTS3
6	AHI1	ENSG00000135541	ENST00000327035	protein_coding	KNOWN	CCDS47484	21575	3162	1053	135708922	135818883	-1	None	FLJ20069, ORF1, JBTS3
6	AHI1	ENSG00000135541	ENST00000529865	protein_coding	PUTATIVE	None	21575	389	128	135715795	135732646	-1	None	FLJ20069, ORF1, JBTS3
6	AHI1	ENSG00000135541	ENST00000524469	protein_coding	NOVEL	None	21575	865	287	135784275	135818875	-1	None	FLJ20069, ORF1, JBTS3
6	AHI1	ENSG00000135541	ENST00000488690	protein_coding	PUTATIVE	None	21575	165	54	135811055	135818787	-1	None	FLJ20069, ORF1, JBTS3
6	AHI1	ENSG00000135541	ENST00000528103	protein_coding	PUTATIVE	None	21575	147	48	135811598	135813516	-1	None	FLJ20069, ORF1, JBTS3
6	AHI1	ENSG00000135541	ENST00000534469	protein_coding	PUTATIVE	None	21575	147	48	135811598	135816778	-1	None	FLJ20069, ORF1, JBTS3
6	AHI1	ENSG00000135541	ENST00000531527	processed_transcript	KNOWN	None	21575	None	None	135813390	135818878	-1	None	FLJ20069, ORF1, JBTS3
6	AHI1	ENSG00000135541	ENST00000417892	protein_coding	KNOWN	None	21575	1497	498	135606034	135763823	-1	None	FLJ20069, ORF1, JBTS3
6	AHI1	ENSG00000135541	ENST00000367798	protein_coding	KNOWN	None	21575	165	54	135811334	135818386	-1	None	FLJ20069, ORF1, JBTS3
1	None	ENSG00000228105	ENST00000435552	lincRNA	KNOWN	None	None	None	None	20569588	20571148	1	None	None
1	None	ENSG00000226664	ENST00000444923	antisense	KNOWN	None	None	None	None	20620704	20649680	-1	None	None
20	None	ENSG00000260542	ENST00000569373	lincRNA	KNOWN	None	None	None	None	61088965	61091152	-1	None	None
9	ANXA2P2	ENSG00000231991	ENST00000435128	processed_pseudogene	KNOWN	None	539	None	None	33624272	33625291	1	ANX2P2, ANX2L2, LPC2B	None
9	ANXA2P2	ENSG00000231991	ENST00000426153	processed_pseudogene	KNOWN	None	539	None	None	33624223	33625532	1	ANX2P2, ANX2L2, LPC2B	None
HSCHR6_MHC_COX	RNU6-683P	ENSG00000264185	ENST00000581308	snRNA	KNOWN	None	47646	None	None	31328372	31328478	1	None	None
5	SCAMP1	ENSG00000085365	ENST00000339292	processed_transcript	KNOWN	None	10563	None	None	77656407	77774894	1	None	SCAMP37
5	SCAMP1	ENSG00000085365	ENST00000509998	processed_transcript	KNOWN	None	10563	None	None	77656435	77771849	1	None	SCAMP37
5	SCAMP1	ENSG00000085365	ENST00000508822	processed_transcript	KNOWN	None	10563	None	None	77656435	77771849	1	None	SCAMP37
5	SCAMP1	ENSG00000085365	ENST00000511551	processed_transcript	KNOWN	None	10563	None	None	77656452	77712459	1	None	SCAMP37
5	SCAMP1	ENSG00000085365	ENST00000510030	processed_transcript	KNOWN	None	10563	None	None	77656629	77712412	1	None	SCAMP37
5	SCAMP1	ENSG00000085365	ENST00000320280	processed_transcript	KNOWN	None	10563	None	None	77712427	77774638	1	None	SCAMP37
5	SCAMP1	ENSG00000085365	ENST00000506858	processed_transcript	KNOWN	None	10563	None	None	77753616	77772652	1	None	SCAMP37
5	SCAMP1	ENSG00000085365	ENST00000538629	protein_coding	KNOWN	None	10563	1017	338	77656339	77776562	1	None	SCAMP37
1	None	ENSG00000236963	ENST00000426428	lincRNA	KNOWN	None	None	None	None	20687072	20755275	-1	None	None
1	None	ENSG00000236963	ENST00000418743	lincRNA	KNOWN	None	None	None	None	20724598	20755232	-1	None	None
1	None	ENSG00000236963	ENST00000423486	lincRNA	KNOWN	None	None	None	None	20725209	20757727	-1	None	None
19	None	ENSG00000269423	ENST00000597574	lincRNA	KNOWN	None	None	None	None	48969623	48970237	1	None	None
HSCHR6_MHC_COX	None	ENSG00000223971	ENST00000434840	processed_pseudogene	KNOWN	None	None	None	None	31335649	31336251	1	None	None
4	STPG2	ENSG00000163116	ENST00000522676	protein_coding	PUTATIVE	None	28712	561	186	98105244	98893505	-1	C4orf37	MGC46496
4	STPG2	ENSG00000163116	ENST00000506482	processed_transcript	KNOWN	None	28712	None	None	98156795	98814354	-1	C4orf37	MGC46496
4	STPG2	ENSG00000163116	ENST00000295268	protein_coding	KNOWN	CCDS3645	28712	1380	459	98480027	99064391	-1	C4orf37	MGC46496
11	STIM1	ENSG00000167323	ENST00000525403	protein_coding	PUTATIVE	None	11386	332	109	3875757	4080567	1	None	GOK, D11S4896E
11	STIM1	ENSG00000167323	ENST00000300737	protein_coding	KNOWN	CCDS7749	11386	2058	685	3876932	4114439	1	None	GOK, D11S4896E
11	STIM1	ENSG00000167323	ENST00000527651	protein_coding	NOVEL	None	11386	1623	540	3877412	4113028	1	None	GOK, D11S4896E
11	STIM1	ENSG00000167323	ENST00000532610	protein_coding	PUTATIVE	None	11386	398	131	3888333	4080633	1	None	GOK, D11S4896E
11	STIM1	ENSG00000167323	ENST00000532919	protein_coding	PUTATIVE	None	11386	418	138	3888537	4091282	1	None	GOK, D11S4896E
11	STIM1	ENSG00000167323	ENST00000530554	protein_coding	PUTATIVE	None	11386	242	79	3889278	4076834	1	None	GOK, D11S4896E
11	STIM1	ENSG00000167323	ENST00000524822	protein_coding	PUTATIVE	None	11386	163	53	3909317	4045217	1	None	GOK, D11S4896E
11	STIM1	ENSG00000167323	ENST00000525055	protein_coding	PUTATIVE	None	11386	248	81	3924693	4076840	1	None	GOK, D11S4896E
11	STIM1	ENSG00000167323	ENST00000528656	protein_coding	PUTATIVE	None	11386	351	116	3924693	4080586	1	None	GOK, D11S4896E
11	STIM1	ENSG00000167323	ENST00000532990	protein_coding	PUTATIVE	None	11386	203	66	3968573	4076795	1	None	GOK, D11S4896E
11	STIM1	ENSG00000167323	ENST00000526771	processed_transcript	KNOWN	None	11386	None	None	4010392	4091294	1	None	GOK, D11S4896E
11	STIM1	ENSG00000167323	ENST00000527484	processed_transcript	KNOWN	None	11386	None	None	4020832	4091299	1	None	GOK, D11S4896E
11	STIM1	ENSG00000167323	ENST00000533445	processed_transcript	KNOWN	None	11386	None	None	4076753	4103451	1	None	GOK, D11S4896E
11	STIM1	ENSG00000167323	ENST00000533977	protein_coding	PUTATIVE	None	11386	1539	512	4079979	4113356	1	None	GOK, D11S4896E
11	STIM1	ENSG00000167323	ENST00000526596	protein_coding	PUTATIVE	None	11386	1214	403	4095749	4112899	1	None	GOK, D11S4896E
11	STIM1	ENSG00000167323	ENST00000533343	retained_intron	KNOWN	None	11386	None	None	4103435	4104884	1	None	GOK, D11S4896E
11	STIM1	ENSG00000167323	ENST00000531332	retained_intron	KNOWN	None	11386	None	None	4104387	4112663	1	None	GOK, D11S4896E
11	STIM1	ENSG00000167323	ENST00000526156	retained_intron	KNOWN	None	11386	None	None	4107435	4113196	1	None	GOK, D11S4896E
11	STIM1	ENSG00000167323	ENST00000534707	processed_transcript	KNOWN	None	11386	None	None	4109803	4110315	1	None	GOK, D11S4896E
20	PTPRT	ENSG00000196090	ENST00000373187	protein_coding	KNOWN	CCDS42874	9682	4326	1441	40701392	41818373	-1	None	RPTPrho, KIAA0283
20	PTPRT	ENSG00000196090	ENST00000356100	protein_coding	KNOWN	None	9682	4353	1450	40701392	41818373	-1	None	RPTPrho, KIAA0283
20	PTPRT	ENSG00000196090	ENST00000373184	protein_coding	KNOWN	None	9682	4356	1451	40701392	41818373	-1	None	RPTPrho, KIAA0283
20	PTPRT	ENSG00000196090	ENST00000373190	protein_coding	KNOWN	None	9682	4323	1440	40701392	41818482	-1	None	RPTPrho, KIAA0283
20	PTPRT	ENSG00000196090	ENST00000373193	protein_coding	KNOWN	None	9682	4335	1444	40701392	41818557	-1	None	RPTPrho, KIAA0283
20	PTPRT	ENSG00000196090	ENST00000373198	protein_coding	KNOWN	None	9682	4392	1463	40701392	41818609	-1	None	RPTPrho, KIAA0283
20	PTPRT	ENSG00000196090	ENST00000373201	protein_coding	KNOWN	None	9682	4296	1431	40701392	41818610	-1	None	RPTPrho, KIAA0283
20	PTPRT	ENSG00000196090	ENST00000485499	processed_transcript	KNOWN	None	9682	None	None	41514482	41595059	-1	None	RPTPrho, KIAA0283
6	TXLNB	ENSG00000164440	ENST00000358430	protein_coding	KNOWN	CCDS34545	21617	2055	684	139561198	139613276	-1	C6orf198	DKFZp451A175, MDP77, dJ522B19.2
6	TXLNB	ENSG00000164440	ENST00000367652	protein_coding	KNOWN	None	21617	398	131	139576517	139583734	-1	C6orf198	DKFZp451A175, MDP77, dJ522B19.2
5	None	ENSG00000245317	ENST00000499601	protein_coding	PUTATIVE	None	None	471	156	179286013	179288283	1	None	None
11	None	ENSG00000254873	ENST00000531742	processed_transcript	KNOWN	None	None	None	None	118267810	118272024	-1	None	None
11	None	ENSG00000254873	ENST00000534438	protein_coding	PUTATIVE	None	None	117	38	118269621	118272610	-1	None	None
9	TRBV22OR9-2	ENSG00000234122	ENST00000441373	TR_V_pseudogene	KNOWN	None	18740	None	None	33634109	33634244	1	None	TCRBV29S2O, TCRBV22S2, TRBV22/OR9-2
9	TRBV24OR9-2	ENSG00000215206	ENST00000416632	TR_V_pseudogene	KNOWN	None	12204	None	None	33649045	33649612	1	TCRBV15O	TRBV24/OR9-2, TCRBV15S2O, TCRBV24S2
14	TRDD3	ENSG00000228985	ENST00000448914	TR_D_gene	KNOWN	None	12256	13	3	22918105	22918117	1	None	None
19	None	ENSG00000269751	ENST00000599877	lincRNA	KNOWN	None	None	None	None	48983104	48985571	1	None	None
19	None	ENSG00000269751	ENST00000600597	lincRNA	KNOWN	None	None	None	None	48983183	48984136	1	None	None
1	EPHB2	ENSG00000133216	ENST00000374630	protein_coding	KNOWN	CCDS229	3393	2961	986	23037458	23240236	1	DRT, ERK, EPHT3	Hek5, Tyro5
1	EPHB2	ENSG00000133216	ENST00000400191	protein_coding	KNOWN	None	3393	3168	1055	23037458	23241818	1	DRT, ERK, EPHT3	Hek5, Tyro5
1	EPHB2	ENSG00000133216	ENST00000374632	protein_coding	KNOWN	CCDS230	3393	2964	987	23037463	23240763	1	DRT, ERK, EPHT3	Hek5, Tyro5
1	EPHB2	ENSG00000133216	ENST00000374627	protein_coding	KNOWN	None	3393	2841	946	23101671	23240245	1	DRT, ERK, EPHT3	Hek5, Tyro5
1	EPHB2	ENSG00000133216	ENST00000465676	processed_transcript	KNOWN	None	3393	None	None	23126733	23222971	1	DRT, ERK, EPHT3	Hek5, Tyro5
1	EPHB2	ENSG00000133216	ENST00000490436	processed_transcript	KNOWN	None	3393	None	None	23191652	23209333	1	DRT, ERK, EPHT3	Hek5, Tyro5
1	EPHB2	ENSG00000133216	ENST00000544305	protein_coding	KNOWN	None	3393	1449	482	23037332	23217758	1	DRT, ERK, EPHT3	Hek5, Tyro5
2	GLI2	ENSG00000074047	ENST00000482119	processed_transcript	KNOWN	None	4318	None	None	121493199	121709042	1	None	THP2, HPE9, THP1
2	GLI2	ENSG00000074047	ENST00000472722	retained_intron	KNOWN	None	4318	None	None	121493199	121709339	1	None	THP2, HPE9, THP1
2	GLI2	ENSG00000074047	ENST00000418323	protein_coding	NOVEL	None	4318	246	81	121493823	121685034	1	None	THP2, HPE9, THP1
2	GLI2	ENSG00000074047	ENST00000438299	nonsense_mediated_decay	KNOWN	None	4318	204	67	121549859	121748956	1	None	THP2, HPE9, THP1
2	GLI2	ENSG00000074047	ENST00000452692	nonsense_mediated_decay	KNOWN	None	4318	204	67	121549859	121748956	1	None	THP2, HPE9, THP1
2	GLI2	ENSG00000074047	ENST00000445186	nonsense_mediated_decay	KNOWN	None	4318	204	67	121549859	121748956	1	None	THP2, HPE9, THP1
2	GLI2	ENSG00000074047	ENST00000341310	nonsense_mediated_decay	KNOWN	None	4318	204	67	121549859	121748956	1	None	THP2, HPE9, THP1
2	GLI2	ENSG00000074047	ENST00000452319	protein_coding	NOVEL	CCDS33283	4318	4761	1586	121549985	121750229	1	None	THP2, HPE9, THP1
2	GLI2	ENSG00000074047	ENST00000437950	nonsense_mediated_decay	KNOWN	None	4318	204	67	121554867	121746061	1	None	THP2, HPE9, THP1
2	GLI2	ENSG00000074047	ENST00000435313	processed_transcript	KNOWN	None	4318	None	None	121554872	121744011	1	None	THP2, HPE9, THP1
2	GLI2	ENSG00000074047	ENST00000360874	protein_coding	PUTATIVE	None	4318	529	175	121554921	121728065	1	None	THP2, HPE9, THP1
2	GLI2	ENSG00000074047	ENST00000433812	nonsense_mediated_decay	KNOWN	None	4318	171	56	121554921	121732610	1	None	THP2, HPE9, THP1
2	GLI2	ENSG00000074047	ENST00000361492	protein_coding	KNOWN	CCDS33283	4318	4761	1586	121554867	121750228	1	None	THP2, HPE9, THP1
2	GLI2	ENSG00000074047	ENST00000314490	protein_coding	KNOWN	None	4318	2490	829	121554867	121748195	1	None	THP2, HPE9, THP1
5	HBEGF	ENSG00000113070	ENST00000230990	protein_coding	KNOWN	CCDS4223	3059	627	208	139712428	139726216	-1	HEGFL, DTS, DTR	None
5	HBEGF	ENSG00000113070	ENST00000482211	retained_intron	KNOWN	None	3059	None	None	139713109	139714715	-1	HEGFL, DTS, DTR	None
5	HBEGF	ENSG00000113070	ENST00000498452	retained_intron	KNOWN	None	3059	None	None	139715476	139722647	-1	HEGFL, DTS, DTR	None
5	HBEGF	ENSG00000113070	ENST00000507104	protein_coding	KNOWN	CCDS4223	3059	627	208	139712801	139726188	-1	HEGFL, DTS, DTR	None
17	LPO	ENSG00000167419	ENST00000582328	protein_coding	KNOWN	CCDS54149	6678	1890	629	56295909	56345587	1	None	SPO
17	LPO	ENSG00000167419	ENST00000262290	protein_coding	KNOWN	CCDS32689	6678	2139	712	56315787	56345879	1	None	SPO
17	LPO	ENSG00000167419	ENST00000543544	protein_coding	PUTATIVE	None	6678	1962	653	56315952	56345503	1	None	SPO
17	LPO	ENSG00000167419	ENST00000578403	retained_intron	KNOWN	None	6678	None	None	56316032	56328614	1	None	SPO
17	LPO	ENSG00000167419	ENST00000582684	retained_intron	KNOWN	None	6678	None	None	56316062	56321819	1	None	SPO
17	LPO	ENSG00000167419	ENST00000580346	retained_intron	KNOWN	None	6678	None	None	56316062	56328653	1	None	SPO
17	LPO	ENSG00000167419	ENST00000578643	retained_intron	KNOWN	None	6678	None	None	56316062	56329206	1	None	SPO
17	LPO	ENSG00000167419	ENST00000581008	protein_coding	PUTATIVE	None	6678	369	122	56316076	56327029	1	None	SPO
17	LPO	ENSG00000167419	ENST00000580890	nonsense_mediated_decay	KNOWN	None	6678	288	95	56326459	56345799	1	None	SPO
17	LPO	ENSG00000167419	ENST00000389576	nonsense_mediated_decay	KNOWN	None	6678	354	117	56329543	56345879	1	None	SPO
17	LPO	ENSG00000167419	ENST00000421678	protein_coding	KNOWN	CCDS54149	6678	1890	629	56315787	56345878	1	None	SPO
12	TMEM233	ENSG00000224982	ENST00000426426	protein_coding	KNOWN	CCDS44995	37219	330	109	120031264	120079363	1	None	IFITMD2
12	TMEM233	ENSG00000224982	ENST00000453450	processed_transcript	KNOWN	None	37219	None	None	120031719	120078618	1	None	IFITMD2
19	None	ENSG00000269814	ENST00000598924	lincRNA	KNOWN	None	None	None	None	49016464	49016917	-1	None	None
1	None	ENSG00000226487	ENST00000421114	lincRNA	KNOWN	None	None	None	None	20738797	20739746	-1	None	None
1	RPS4XP4	ENSG00000215520	ENST00000443195	processed_pseudogene	KNOWN	None	36545	None	None	20852482	20853244	1	RPS4P4	None
6	RN7SKP256	ENSG00000253010	ENST00000517201	misc_RNA	KNOWN	None	45980	None	None	53280092	53280405	-1	None	None
12	SLC4A8	ENSG00000050438	ENST00000535225	protein_coding	PUTATIVE	CCDS58233	11034	1917	638	51785101	51868359	1	None	NBC3
12	SLC4A8	ENSG00000050438	ENST00000604314	retained_intron	KNOWN	None	11034	None	None	51785132	51891648	1	None	NBC3
12	SLC4A8	ENSG00000050438	ENST00000547697	retained_intron	KNOWN	None	11034	None	None	51785520	51856676	1	None	NBC3
12	SLC4A8	ENSG00000050438	ENST00000548352	processed_transcript	KNOWN	None	11034	None	None	51813884	51847370	1	None	NBC3
12	SLC4A8	ENSG00000050438	ENST00000453097	protein_coding	KNOWN	CCDS44890	11034	3282	1093	51818555	51902118	1	None	NBC3
12	SLC4A8	ENSG00000050438	ENST00000548811	processed_transcript	PUTATIVE	None	11034	None	None	51818652	51834963	1	None	NBC3
12	SLC4A8	ENSG00000050438	ENST00000546497	retained_intron	KNOWN	None	11034	None	None	51818718	51834636	1	None	NBC3
12	SLC4A8	ENSG00000050438	ENST00000319957	retained_intron	KNOWN	None	11034	None	None	51818757	51891646	1	None	NBC3
12	SLC4A8	ENSG00000050438	ENST00000514353	protein_coding	PUTATIVE	CCDS58232	11034	2244	747	51818901	51874394	1	None	NBC3
12	SLC4A8	ENSG00000050438	ENST00000551071	retained_intron	KNOWN	None	11034	None	None	51834492	51891646	1	None	NBC3
12	SLC4A8	ENSG00000050438	ENST00000552001	retained_intron	KNOWN	None	11034	None	None	51844612	51851227	1	None	NBC3
12	SLC4A8	ENSG00000050438	ENST00000550211	processed_transcript	KNOWN	None	11034	None	None	51855002	51863465	1	None	NBC3
12	SLC4A8	ENSG00000050438	ENST00000546663	processed_transcript	KNOWN	None	11034	None	None	51862853	51865364	1	None	NBC3
12	SLC4A8	ENSG00000050438	ENST00000548616	retained_intron	KNOWN	None	11034	None	None	51888135	51888802	1	None	NBC3
12	SLC4A8	ENSG00000050438	ENST00000546872	retained_intron	KNOWN	None	11034	None	None	51888657	51891017	1	None	NBC3
12	SLC4A8	ENSG00000050438	ENST00000546875	retained_intron	KNOWN	None	11034	None	None	51895612	51902980	1	None	NBC3
12	SLC4A8	ENSG00000050438	ENST00000358657	protein_coding	KNOWN	None	11034	3216	1071	51796945	51891646	1	None	NBC3
12	SLC4A8	ENSG00000050438	ENST00000394856	protein_coding	KNOWN	CCDS58232	11034	2244	747	51818594	51874006	1	None	NBC3
6	NANOGP3	ENSG00000271373	ENST00000605855	processed_pseudogene	KNOWN	None	23101	None	None	53283250	53283535	-1	None	None
12	None	ENSG00000257994	ENST00000546924	unprocessed_pseudogene	KNOWN	None	None	None	None	103899189	103899952	-1	None	None
Y	TRAPPC2P7	ENSG00000249606	ENST00000509650	unprocessed_pseudogene	KNOWN	None	10716	None	None	20817406	20818076	-1	SEDLP7	None
22	PI4KAP1	ENSG00000215513	ENST00000452435	processed_transcript	PUTATIVE	None	33576	None	None	20383524	20387658	-1	None	None
22	PI4KAP1	ENSG00000215513	ENST00000455715	processed_transcript	KNOWN	None	33576	None	None	20383524	20387732	-1	None	None
22	PI4KAP1	ENSG00000215513	ENST00000452110	processed_transcript	KNOWN	None	33576	None	None	20383524	20398220	-1	None	None
22	PI4KAP1	ENSG00000215513	ENST00000430523	processed_transcript	KNOWN	None	33576	None	None	20383538	20398695	-1	None	None
22	PI4KAP1	ENSG00000215513	ENST00000400467	transcribed_unprocessed_pseudogene	KNOWN	None	33576	None	None	20383872	20398665	-1	None	None
22	PI4KAP1	ENSG00000215513	ENST00000416922	processed_transcript	KNOWN	None	33576	None	None	20387890	20424567	-1	None	None
22	PI4KAP1	ENSG00000215513	ENST00000438765	processed_transcript	KNOWN	None	33576	None	None	20387923	20427835	-1	None	None
22	PI4KAP1	ENSG00000215513	ENST00000418108	processed_transcript	PUTATIVE	None	33576	None	None	20397878	20398637	-1	None	None
22	PI4KAP1	ENSG00000215513	ENST00000437178	unprocessed_pseudogene	KNOWN	None	33576	None	None	20383538	20402426	-1	None	None
22	PI4KAP1	ENSG00000215513	ENST00000544467	unprocessed_pseudogene	KNOWN	None	33576	None	None	20383538	20402426	-1	None	None
5	RELL2	ENSG00000164620	ENST00000520674	processed_transcript	KNOWN	None	26902	None	None	141016517	141020630	1	C5orf16	FLJ90583
5	RELL2	ENSG00000164620	ENST00000518025	processed_transcript	KNOWN	None	26902	None	None	141016572	141020631	1	C5orf16	FLJ90583
5	RELL2	ENSG00000164620	ENST00000521367	protein_coding	NOVEL	None	26902	699	232	141016579	141020585	1	C5orf16	FLJ90583
5	RELL2	ENSG00000164620	ENST00000297164	protein_coding	KNOWN	CCDS4265	26902	912	303	141016593	141020644	1	C5orf16	FLJ90583
5	RELL2	ENSG00000164620	ENST00000517794	processed_transcript	KNOWN	None	26902	None	None	141017004	141019196	1	C5orf16	FLJ90583
5	RELL2	ENSG00000164620	ENST00000518856	protein_coding	NOVEL	None	26902	714	237	141017009	141020620	1	C5orf16	FLJ90583
5	RELL2	ENSG00000164620	ENST00000444782	protein_coding	KNOWN	CCDS4265	26902	912	303	141016517	141020630	1	C5orf16	FLJ90583
6	None	ENSG00000212065	ENST00000390776	miRNA	NOVEL	None	None	None	None	53321245	53321330	-1	None	None
8	None	ENSG00000221542	ENST00000408615	miRNA	NOVEL	None	None	None	None	123858930	123859018	-1	None	None
1	PINK1-AS	ENSG00000117242	ENST00000451424	retained_intron	KNOWN	None	38872	None	None	20969150	20978686	-1	PINK1-AS1	FLJ00387, PINK1AS
6	None	ENSG00000249379	ENST00000508884	antisense	KNOWN	None	None	None	None	53367983	53371717	1	None	None
8	None	ENSG00000259631	ENST00000559049	lincRNA	KNOWN	None	None	None	None	123989266	123997869	-1	None	None
11	ATP5L	ENSG00000167283	ENST00000300688	protein_coding	KNOWN	CCDS8397	14247	312	103	118271869	118280560	1	None	ATP5JG
11	ATP5L	ENSG00000167283	ENST00000529790	retained_intron	KNOWN	None	14247	None	None	118272325	118280292	1	None	ATP5JG
11	ATP5L	ENSG00000167283	ENST00000529770	processed_transcript	KNOWN	None	14247	None	None	118272334	118279914	1	None	ATP5JG
11	ATP5L	ENSG00000167283	ENST00000533172	processed_transcript	KNOWN	None	14247	None	None	118272337	118279914	1	None	ATP5JG
11	ATP5L	ENSG00000167283	ENST00000524422	protein_coding	PUTATIVE	None	14247	231	76	118272347	118302211	1	None	ATP5JG
11	ATP5L	ENSG00000167283	ENST00000529460	processed_transcript	KNOWN	None	14247	None	None	118272348	118279914	1	None	ATP5JG
11	ATP5L	ENSG00000167283	ENST00000534385	retained_intron	KNOWN	None	14247	None	None	118272367	118278208	1	None	ATP5JG
11	ATP5L	ENSG00000167283	ENST00000527186	retained_intron	KNOWN	None	14247	None	None	118276842	118280325	1	None	ATP5JG
9	GBGT1	ENSG00000148288	ENST00000372043	protein_coding	KNOWN	None	20460	885	294	136028340	136039306	-1	None	UDP-GalNAc, A3GALNT, MGC44848, FS
9	GBGT1	ENSG00000148288	ENST00000470431	processed_transcript	KNOWN	None	20460	None	None	136028340	136039306	-1	None	UDP-GalNAc, A3GALNT, MGC44848, FS
9	GBGT1	ENSG00000148288	ENST00000472281	processed_transcript	KNOWN	None	20460	None	None	136028340	136039306	-1	None	UDP-GalNAc, A3GALNT, MGC44848, FS
9	GBGT1	ENSG00000148288	ENST00000372040	protein_coding	KNOWN	CCDS6960	20460	1044	347	136028340	136039332	-1	None	UDP-GalNAc, A3GALNT, MGC44848, FS
9	GBGT1	ENSG00000148288	ENST00000372038	protein_coding	KNOWN	None	20460	483	160	136029462	136039284	-1	None	UDP-GalNAc, A3GALNT, MGC44848, FS
9	GBGT1	ENSG00000148288	ENST00000372036	protein_coding	KNOWN	None	20460	219	72	136035167	136039282	-1	None	UDP-GalNAc, A3GALNT, MGC44848, FS
9	GBGT1	ENSG00000148288	ENST00000487864	processed_transcript	KNOWN	None	20460	None	None	136036435	136039288	-1	None	UDP-GalNAc, A3GALNT, MGC44848, FS
9	GBGT1	ENSG00000148288	ENST00000540636	protein_coding	KNOWN	None	20460	993	330	136028789	136039301	-1	None	UDP-GalNAc, A3GALNT, MGC44848, FS
5	EDIL3	ENSG00000164176	ENST00000296591	protein_coding	KNOWN	CCDS4062	3173	1443	480	83236373	83680611	-1	None	DEL1
5	EDIL3	ENSG00000164176	ENST00000380138	protein_coding	KNOWN	None	3173	1413	470	83236419	83680204	-1	None	DEL1
5	EDIL3	ENSG00000164176	ENST00000510271	processed_transcript	KNOWN	None	3173	None	None	83343425	83374647	-1	None	DEL1
5	EDIL3	ENSG00000164176	ENST00000507663	processed_transcript	KNOWN	None	3173	None	None	83402478	83477060	-1	None	DEL1
Y	OFD1P6Y	ENSG00000242153	ENST00000451061	unprocessed_pseudogene	KNOWN	None	13657	None	None	20835919	20899975	1	OFD1P2, OFDYP6, OFD1P6, OFD1PY6	None
Y	OFD1P6Y	ENSG00000242153	ENST00000538268	unprocessed_pseudogene	KNOWN	None	13657	None	None	20893577	20901083	1	OFD1P2, OFDYP6, OFD1P6, OFD1PY6	None
15	None	ENSG00000259694	ENST00000558110	lincRNA	KNOWN	None	None	None	None	84839930	84841946	-1	None	None
1	None	ENSG00000257033	ENST00000535128	pseudogene	NOVEL	None	None	None	None	20976856	20977207	-1	None	None
1	None	ENSG00000235432	ENST00000440621	unprocessed_pseudogene	KNOWN	None	None	None	None	21019227	21020506	-1	None	None
8	None	ENSG00000253607	ENST00000521258	antisense	KNOWN	None	None	None	None	124014800	124042991	1	None	None
1	None	ENSG00000233069	ENST00000436642	antisense	KNOWN	None	None	None	None	21059373	21060445	1	None	None
4	AMBN	ENSG00000178522	ENST00000322937	protein_coding	KNOWN	CCDS3543	452	1344	447	71457973	71473005	1	None	None
4	AMBN	ENSG00000178522	ENST00000449493	protein_coding	KNOWN	None	452	1299	432	71458012	71472596	1	None	None
1	None	ENSG00000203394	ENST00000413451	antisense	KNOWN	None	None	None	None	21069480	21070455	1	None	None
11	FAR1	ENSG00000197601	ENST00000354817	protein_coding	KNOWN	CCDS7813	26222	1548	515	13690217	13753893	1	MLSTD2	FLJ22728, SDR10E1
11	FAR1	ENSG00000197601	ENST00000532701	protein_coding	PUTATIVE	None	26222	1006	334	13690258	13734631	1	MLSTD2	FLJ22728, SDR10E1
11	FAR1	ENSG00000197601	ENST00000532769	retained_intron	KNOWN	None	26222	None	None	13716303	13722114	1	MLSTD2	FLJ22728, SDR10E1
11	FAR1	ENSG00000197601	ENST00000524933	retained_intron	KNOWN	None	26222	None	None	13716447	13732646	1	MLSTD2	FLJ22728, SDR10E1
11	FAR1	ENSG00000197601	ENST00000527202	processed_transcript	KNOWN	None	26222	None	None	13732271	13737390	1	MLSTD2	FLJ22728, SDR10E1
11	FAR1	ENSG00000197601	ENST00000532502	protein_coding	PUTATIVE	None	26222	420	139	13741450	13753893	1	MLSTD2	FLJ22728, SDR10E1
HSCHR5_1_CTG1	GTF2H2D	ENSG00000262261	ENST00000575358	nonsense_mediated_decay	KNOWN	None	35418	156	51	69477955	69510494	-1	None	LOC730394
HSCHR5_1_CTG1	GTF2H2D	ENSG00000262261	ENST00000574713	protein_coding	KNOWN	None	35418	1188	395	69478287	69510519	-1	None	LOC730394
HSCHR5_1_CTG1	GTF2H2D	ENSG00000262261	ENST00000577126	protein_coding	KNOWN	None	35418	1188	395	69478290	69510541	-1	None	LOC730394
HSCHR5_1_CTG1	GTF2H2D	ENSG00000262261	ENST00000573741	retained_intron	KNOWN	None	35418	None	None	69490382	69510565	-1	None	LOC730394
HSCHR5_1_CTG1	GTF2H2D	ENSG00000262261	ENST00000572872	retained_intron	KNOWN	None	35418	None	None	69490995	69510565	-1	None	LOC730394
HSCHR5_1_CTG1	GTF2H2D	ENSG00000262261	ENST00000570722	protein_coding	PUTATIVE	None	35418	498	165	69497948	69510579	-1	None	LOC730394
HSCHR5_1_CTG1	GTF2H2D	ENSG00000262261	ENST00000570640	nonsense_mediated_decay	KNOWN	None	35418	156	51	69500780	69510565	-1	None	LOC730394
3	RNA5SP149	ENSG00000201822	ENST00000364952	rRNA	KNOWN	None	43049	None	None	179879674	179879765	-1	RN5S149	None
1	RNU7-200P	ENSG00000251914	ENST00000516105	snRNA	KNOWN	None	45734	None	None	21167734	21167795	1	None	None
1	MIR1256	ENSG00000221808	ENST00000408881	miRNA	KNOWN	None	35321	None	None	21314807	21314925	-1	MIRN1256	hsa-mir-1256
6	None	ENSG00000231683	ENST00000502390	lincRNA	KNOWN	None	None	None	None	53426087	53481805	-1	None	None
6	None	ENSG00000231683	ENST00000503985	lincRNA	KNOWN	None	None	None	None	53426704	53481969	-1	None	None
6	None	ENSG00000231683	ENST00000505995	lincRNA	KNOWN	None	None	None	None	53426718	53481792	-1	None	None
6	None	ENSG00000231683	ENST00000506206	lincRNA	KNOWN	None	None	None	None	53428856	53481807	-1	None	None
6	None	ENSG00000231683	ENST00000510846	lincRNA	KNOWN	None	None	None	None	53429056	53481807	-1	None	None
6	None	ENSG00000231683	ENST00000504928	lincRNA	KNOWN	None	None	None	None	53429095	53448131	-1	None	None
6	None	ENSG00000231683	ENST00000420819	lincRNA	KNOWN	None	None	None	None	53434079	53438063	-1	None	None
20	C20orf166-AS1	ENSG00000174403	ENST00000412495	antisense	KNOWN	None	26393	None	None	61141550	61148733	-1	C20orf200, NCRNA00335	FLJ30313
20	C20orf166-AS1	ENSG00000174403	ENST00000475015	antisense	KNOWN	None	26393	None	None	61141754	61148731	-1	C20orf200, NCRNA00335	FLJ30313
20	C20orf166-AS1	ENSG00000174403	ENST00000436101	antisense	KNOWN	None	26393	None	None	61144021	61148718	-1	C20orf200, NCRNA00335	FLJ30313
6	None	ENSG00000223811	ENST00000445974	lincRNA	KNOWN	None	None	None	None	113678205	113689146	-1	None	None
10	PNLIPRP2	ENSG00000165862	ENST00000298771	processed_transcript	KNOWN	None	9157	None	None	118380465	118404654	1	None	PLRP2
10	PNLIPRP2	ENSG00000165862	ENST00000444825	retained_intron	KNOWN	None	9157	None	None	118380817	118386608	1	None	PLRP2
10	PNLIPRP2	ENSG00000165862	ENST00000429325	processed_transcript	KNOWN	None	9157	None	None	118380818	118387300	1	None	PLRP2
10	PNLIPRP2	ENSG00000165862	ENST00000433618	polymorphic_pseudogene	KNOWN	None	9157	1409	468	118380818	118404608	1	None	PLRP2
10	PNLIPRP2	ENSG00000165862	ENST00000537242	protein_coding	KNOWN	None	9157	1407	468	118380465	118404654	1	None	PLRP2
15	CSPG4P11	ENSG00000259726	ENST00000560634	unprocessed_pseudogene	KNOWN	None	48363	None	None	84855504	84866136	1	None	None
1	None	ENSG00000233072	ENST00000420703	processed_pseudogene	KNOWN	None	None	None	None	21330043	21330427	-1	None	None
6	None	ENSG00000232316	ENST00000421737	lincRNA	KNOWN	None	None	None	None	113749742	113754623	-1	None	None
6	None	ENSG00000232316	ENST00000430728	lincRNA	KNOWN	None	None	None	None	113749753	113753843	-1	None	None
12	PRKAB1	ENSG00000111725	ENST00000229328	protein_coding	KNOWN	CCDS9191	9378	813	270	120105558	120119435	1	None	None
12	PRKAB1	ENSG00000111725	ENST00000541640	protein_coding	KNOWN	CCDS9191	9378	813	270	120105669	120119429	1	None	None
12	PRKAB1	ENSG00000111725	ENST00000537400	nonsense_mediated_decay	KNOWN	None	9378	177	58	120105955	120110232	1	None	None
12	PRKAB1	ENSG00000111725	ENST00000540121	protein_coding	PUTATIVE	None	9378	315	104	120107229	120118646	1	None	None
12	PRKAB1	ENSG00000111725	ENST00000545223	protein_coding	PUTATIVE	None	9378	187	61	120110049	120117756	1	None	None
12	PRKAB1	ENSG00000111725	ENST00000545870	retained_intron	KNOWN	None	9378	None	None	120111615	120117806	1	None	None
12	PRKAB1	ENSG00000111725	ENST00000542698	retained_intron	KNOWN	None	9378	None	None	120115160	120119424	1	None	None
12	PRKAB1	ENSG00000111725	ENST00000538271	retained_intron	KNOWN	None	9378	None	None	120116790	120117786	1	None	None
12	PRKAB1	ENSG00000111725	ENST00000537057	processed_transcript	KNOWN	None	9378	None	None	120117883	120119392	1	None	None
1	MAEL	ENSG00000143194	ENST00000367872	protein_coding	KNOWN	CCDS1257	25929	1305	434	166958346	166991451	1	None	FLJ14904, CT128, SPATA35
1	MAEL	ENSG00000143194	ENST00000447624	protein_coding	KNOWN	None	25929	948	315	166958525	166987196	1	None	FLJ14904, CT128, SPATA35
1	MAEL	ENSG00000143194	ENST00000491055	processed_transcript	KNOWN	None	25929	None	None	166959162	166991451	1	None	FLJ14904, CT128, SPATA35
1	MAEL	ENSG00000143194	ENST00000487826	processed_transcript	KNOWN	None	25929	None	None	166974313	166974853	1	None	FLJ14904, CT128, SPATA35
1	MAEL	ENSG00000143194	ENST00000367870	protein_coding	KNOWN	None	25929	1212	403	166958498	166991414	1	None	FLJ14904, CT128, SPATA35
1	None	ENSG00000236073	ENST00000431514	processed_pseudogene	KNOWN	None	None	None	None	21400132	21400246	-1	None	None
2	GPC1	ENSG00000063660	ENST00000264039	protein_coding	KNOWN	CCDS2534	4449	1677	558	241375088	241407493	1	None	glypican
2	GPC1	ENSG00000063660	ENST00000469694	retained_intron	KNOWN	None	4449	None	None	241381744	241405775	1	None	glypican
2	GPC1	ENSG00000063660	ENST00000420138	protein_coding	NOVEL	None	4449	1795	597	241392228	241405747	1	None	glypican
2	GPC1	ENSG00000063660	ENST00000426280	protein_coding	PUTATIVE	None	4449	469	155	241394255	241401901	1	None	glypican
2	GPC1	ENSG00000063660	ENST00000427506	protein_coding	NOVEL	None	4449	573	190	241396851	241401985	1	None	glypican
2	GPC1	ENSG00000063660	ENST00000425056	protein_coding	NOVEL	None	4449	1085	360	241397382	241404356	1	None	glypican
2	GPC1	ENSG00000063660	ENST00000495100	retained_intron	KNOWN	None	4449	None	None	241397604	241405775	1	None	glypican
2	GPC1	ENSG00000063660	ENST00000455111	protein_coding	NOVEL	None	4449	841	279	241402814	241405617	1	None	glypican
2	GPC1	ENSG00000063660	ENST00000466624	processed_transcript	PUTATIVE	None	4449	None	None	241404944	241406210	1	None	glypican
8	RNY4P5	ENSG00000199678	ENST00000362808	misc_RNA	KNOWN	None	34052	None	None	124056957	124057052	1	None	None
6	None	ENSG00000222677	ENST00000410745	miRNA	NOVEL	None	None	None	None	113836189	113836285	1	None	None
1	None	ENSG00000235112	ENST00000430808	processed_pseudogene	KNOWN	None	None	None	None	21487968	21488574	1	None	None
6	None	ENSG00000236347	ENST00000415883	lincRNA	KNOWN	None	None	None	None	113852320	113864995	1	None	None
8	HMGB1P19	ENSG00000253463	ENST00000517578	processed_pseudogene	KNOWN	None	39101	None	None	124135346	124135922	1	None	None
5	PAM	ENSG00000145730	ENST00000505654	protein_coding	KNOWN	None	8596	87	28	102089685	102201986	1	None	PAL, PHM
5	PAM	ENSG00000145730	ENST00000508060	processed_transcript	KNOWN	None	8596	None	None	102090371	102201616	1	None	PAL, PHM
5	PAM	ENSG00000145730	ENST00000510208	processed_transcript	KNOWN	None	8596	None	None	102090487	102201784	1	None	PAL, PHM
5	PAM	ENSG00000145730	ENST00000506127	processed_transcript	KNOWN	None	8596	None	None	102091018	102174293	1	None	PAL, PHM
5	PAM	ENSG00000145730	ENST00000512073	protein_coding	KNOWN	None	8596	75	24	102091047	102201974	1	None	PAL, PHM
5	PAM	ENSG00000145730	ENST00000502472	processed_transcript	KNOWN	None	8596	None	None	102143761	102282589	1	None	PAL, PHM
5	PAM	ENSG00000145730	ENST00000509523	processed_transcript	KNOWN	None	8596	None	None	102143767	102201896	1	None	PAL, PHM
5	PAM	ENSG00000145730	ENST00000511839	protein_coding	KNOWN	None	8596	205	67	102200241	102203092	1	None	PAL, PHM
5	PAM	ENSG00000145730	ENST00000511477	protein_coding	KNOWN	None	8596	126	41	102200948	102203013	1	None	PAL, PHM
5	PAM	ENSG00000145730	ENST00000506006	protein_coding	KNOWN	None	8596	85	27	102201014	102201984	1	None	PAL, PHM
5	PAM	ENSG00000145730	ENST00000509832	protein_coding	KNOWN	None	8596	159	52	102201183	102203046	1	None	PAL, PHM
5	PAM	ENSG00000145730	ENST00000438793	protein_coding	KNOWN	CCDS54885	8596	2922	973	102201430	102366809	1	None	PAL, PHM
5	PAM	ENSG00000145730	ENST00000346918	protein_coding	KNOWN	CCDS4094	8596	2664	887	102201441	102364948	1	None	PAL, PHM
5	PAM	ENSG00000145730	ENST00000513648	processed_transcript	KNOWN	None	8596	None	None	102201523	102209508	1	None	PAL, PHM
5	PAM	ENSG00000145730	ENST00000345721	nonsense_mediated_decay	KNOWN	None	8596	528	175	102201523	102365215	1	None	PAL, PHM
5	PAM	ENSG00000145730	ENST00000348126	protein_coding	KNOWN	CCDS4093	8596	2601	866	102201527	102365417	1	None	PAL, PHM
5	PAM	ENSG00000145730	ENST00000304400	protein_coding	KNOWN	CCDS43348	8596	2925	974	102201714	102364814	1	None	PAL, PHM
5	PAM	ENSG00000145730	ENST00000455264	protein_coding	KNOWN	CCDS4092	8596	2718	905	102201820	102364869	1	None	PAL, PHM
5	PAM	ENSG00000145730	ENST00000509636	processed_transcript	KNOWN	None	8596	None	None	102202291	102282580	1	None	PAL, PHM
5	PAM	ENSG00000145730	ENST00000506260	processed_transcript	KNOWN	None	8596	None	None	102231617	102285277	1	None	PAL, PHM
5	PAM	ENSG00000145730	ENST00000379799	protein_coding	PUTATIVE	None	8596	2038	678	102285281	102365298	1	None	PAL, PHM
5	PAM	ENSG00000145730	ENST00000505372	retained_intron	KNOWN	None	8596	None	None	102295701	102310541	1	None	PAL, PHM
5	PAM	ENSG00000145730	ENST00000511429	retained_intron	KNOWN	None	8596	None	None	102325475	102342563	1	None	PAL, PHM
5	PAM	ENSG00000145730	ENST00000510006	processed_transcript	KNOWN	None	8596	None	None	102343157	102364971	1	None	PAL, PHM
5	PAM	ENSG00000145730	ENST00000515456	processed_transcript	KNOWN	None	8596	None	None	102343246	102363926	1	None	PAL, PHM
5	PAM	ENSG00000145730	ENST00000504691	protein_coding	PUTATIVE	None	8596	752	249	102343263	102365434	1	None	PAL, PHM
5	PAM	ENSG00000145730	ENST00000504456	processed_transcript	KNOWN	None	8596	None	None	102343273	102364896	1	None	PAL, PHM
5	PAM	ENSG00000145730	ENST00000274392	protein_coding	KNOWN	None	8596	2628	875	102201761	102365215	1	None	PAL, PHM
5	PAM	ENSG00000145730	ENST00000379787	protein_coding	KNOWN	None	8596	1008	335	102201527	102364769	1	None	PAL, PHM
6	None	ENSG00000218208	ENST00000402798	processed_pseudogene	KNOWN	None	None	None	None	113902703	113903149	1	None	None
1	None	ENSG00000266867	ENST00000584440	miRNA	NOVEL	None	None	None	None	21503059	21503122	-1	None	None
12	None	ENSG00000257762	ENST00000550185	lincRNA	KNOWN	None	None	None	None	103941572	103953593	1	None	None
12	None	ENSG00000257762	ENST00000551174	lincRNA	KNOWN	None	None	None	None	103941604	103944439	1	None	None
15	MIR4714	ENSG00000264480	ENST00000580728	miRNA	KNOWN	None	41763	None	None	99327655	99327731	1	None	hsa-mir-4714
1	None	ENSG00000236936	ENST00000416959	antisense	KNOWN	None	None	None	None	21592575	21593744	1	None	None
8	None	ENSG00000221461	ENST00000408534	snoRNA	NOVEL	None	None	None	None	124192551	124192765	-1	None	None
15	None	ENSG00000259621	ENST00000558736	antisense	KNOWN	None	None	None	None	99423888	99436764	-1	None	None
8	None	ENSG00000253258	ENST00000522383	antisense	KNOWN	None	None	None	None	124193878	124195028	-1	None	None
6	None	ENSG00000266650	ENST00000583518	miRNA	NOVEL	None	None	None	None	113924117	113924227	1	None	None
5	OR1X1P	ENSG00000272494	ENST00000606159	unprocessed_pseudogene	KNOWN	None	15062	None	None	175433148	175434390	1	None	None
15	None	ENSG00000259475	ENST00000559468	antisense	KNOWN	None	None	None	None	99497378	99646030	-1	None	None
8	MAF1	ENSG00000179632	ENST00000322428	protein_coding	KNOWN	CCDS6416	24966	771	256	145159402	145162514	1	None	DKFZp586G1123
8	MAF1	ENSG00000179632	ENST00000534585	protein_coding	NOVEL	None	24966	861	286	145159415	145162514	1	None	DKFZp586G1123
8	MAF1	ENSG00000179632	ENST00000532522	protein_coding	KNOWN	CCDS6416	24966	771	256	145159878	145162120	1	None	DKFZp586G1123
8	MAF1	ENSG00000179632	ENST00000527572	protein_coding	KNOWN	None	24966	210	69	145159881	145160898	1	None	DKFZp586G1123
8	MAF1	ENSG00000179632	ENST00000527058	protein_coding	NOVEL	None	24966	757	251	145159986	145161784	1	None	DKFZp586G1123
8	MAF1	ENSG00000179632	ENST00000534811	protein_coding	PUTATIVE	None	24966	495	164	145161504	145162295	1	None	DKFZp586G1123
6	None	ENSG00000230943	ENST00000427157	lincRNA	KNOWN	None	None	None	None	113944737	113971276	-1	None	None
6	None	ENSG00000230943	ENST00000452675	lincRNA	KNOWN	None	None	None	None	113944981	113953716	-1	None	None
HSCHR6_MHC_QBL	RPP21	ENSG00000242726	ENST00000456870	protein_coding	KNOWN	None	21300	489	162	30302412	30304138	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_QBL	RPP21	ENSG00000242726	ENST00000480480	processed_transcript	KNOWN	None	21300	None	None	30302415	30303774	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_QBL	RPP21	ENSG00000242726	ENST00000467844	retained_intron	KNOWN	None	21300	None	None	30302423	30304138	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_QBL	RPP21	ENSG00000242726	ENST00000491758	processed_transcript	KNOWN	None	21300	None	None	30302432	30304138	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_QBL	RPP21	ENSG00000242726	ENST00000482830	processed_transcript	KNOWN	None	21300	None	None	30302434	30304165	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_QBL	RPP21	ENSG00000242726	ENST00000482357	processed_transcript	KNOWN	None	21300	None	None	30302436	30304138	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_QBL	RPP21	ENSG00000242726	ENST00000434282	protein_coding	KNOWN	None	21300	465	154	30302440	30304138	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_QBL	RPP21	ENSG00000242726	ENST00000422320	protein_coding	KNOWN	None	21300	534	177	30302440	30304138	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_QBL	RPP21	ENSG00000242726	ENST00000422720	protein_coding	KNOWN	None	21300	435	144	30302450	30304138	1	C6orf135	FLJ22638, Em:AB014085.3
1	None	ENSG00000231105	ENST00000449034	antisense	KNOWN	None	None	None	None	21619783	21626267	1	None	None
16	FBXL19-AS1	ENSG00000260852	ENST00000563777	antisense	KNOWN	None	27557	None	None	30930640	30934590	-1	NCRNA00095	MGC125469, MGC125470, MGC125472
HSCHR6_MHC_QBL	HLA-DRB1	ENSG00000206306	ENST00000328980	protein_coding	KNOWN	None	4948	801	266	32481203	32494627	-1	HLA-DR1B	None
HSCHR6_MHC_QBL	HLA-DRB1	ENSG00000206306	ENST00000415796	protein_coding	KNOWN	None	4948	753	250	32483636	32511820	-1	HLA-DR1B	None
15	None	ENSG00000261054	ENST00000566974	antisense	KNOWN	None	None	None	None	99669037	99672011	-1	None	None
14	None	ENSG00000259161	ENST00000553295	processed_pseudogene	KNOWN	None	None	None	None	102309731	102310459	-1	None	None
6	None	ENSG00000221559	ENST00000408632	miRNA	NOVEL	None	None	None	None	114026035	114026125	1	None	None
8	None	ENSG00000222334	ENST00000410402	miRNA	NOVEL	None	None	None	None	78199052	78199131	1	None	None
15	None	ENSG00000261616	ENST00000564527	antisense	KNOWN	None	None	None	None	99679522	99685575	1	None	None
6	None	ENSG00000253091	ENST00000517282	snoRNA	NOVEL	None	None	None	None	114102518	114102667	-1	None	None
1	PPP1R11P1	ENSG00000236216	ENST00000486095	processed_pseudogene	KNOWN	None	16326	None	None	21724480	21724855	1	None	None
1	PPP1R11P1	ENSG00000236216	ENST00000537790	processed_pseudogene	KNOWN	None	16326	None	None	21724480	21724833	1	None	None
15	None	ENSG00000259921	ENST00000563495	sense_intronic	KNOWN	None	None	None	None	99697436	99701345	-1	None	None
15	None	ENSG00000264771	ENST00000581052	miRNA	NOVEL	None	None	None	None	99797744	99797875	1	None	None
7	MIR148A	ENSG00000199085	ENST00000362215	miRNA	KNOWN	None	31535	None	None	25989539	25989606	-1	MIRN148, MIRN148A	hsa-mir-148, hsa-mir-148a
22	SLC25A5P1	ENSG00000215347	ENST00000450250	processed_pseudogene	KNOWN	None	19250	None	None	42397073	42397970	-1	ANTP3	bK250D10.4
16	None	ENSG00000261837	ENST00000568764	sense_intronic	KNOWN	None	None	None	None	78568271	78569545	1	None	None
17	CRHR1	ENSG00000120088	ENST00000347197	nonsense_mediated_decay	KNOWN	None	2357	438	145	43861673	43913191	1	CRHR	CRF-R, CRF1
17	CRHR1	ENSG00000120088	ENST00000314537	protein_coding	KNOWN	CCDS42350	2357	1248	415	43861686	43913192	1	CRHR	CRF-R, CRF1
17	CRHR1	ENSG00000120088	ENST00000352855	protein_coding	KNOWN	CCDS45714	2357	1128	375	43861893	43912130	1	CRHR	CRF-R, CRF1
17	CRHR1	ENSG00000120088	ENST00000577353	protein_coding	KNOWN	CCDS45713	2357	1206	401	43861911	43912130	1	CRHR	CRF-R, CRF1
17	CRHR1	ENSG00000120088	ENST00000398285	protein_coding	KNOWN	CCDS45712	2357	1335	444	43861911	43913194	1	CRHR	CRF-R, CRF1
17	CRHR1	ENSG00000120088	ENST00000582766	retained_intron	KNOWN	None	2357	None	None	43861935	43908306	1	CRHR	CRF-R, CRF1
17	CRHR1	ENSG00000120088	ENST00000580955	nonsense_mediated_decay	KNOWN	None	2357	281	92	43884440	43907491	1	CRHR	CRF-R, CRF1
17	CRHR1	ENSG00000120088	ENST00000583888	nonsense_mediated_decay	KNOWN	None	2357	459	152	43893924	43912207	1	CRHR	CRF-R, CRF1
17	CRHR1	ENSG00000120088	ENST00000581479	retained_intron	KNOWN	None	2357	None	None	43907766	43910568	1	CRHR	CRF-R, CRF1
17	CRHR1	ENSG00000120088	ENST00000580876	protein_coding	PUTATIVE	None	2357	223	73	43910504	43912011	1	CRHR	CRF-R, CRF1
17	CRHR1	ENSG00000120088	ENST00000535778	nonsense_mediated_decay	KNOWN	None	2357	157	51	43910504	43913010	1	CRHR	CRF-R, CRF1
17	CRHR1	ENSG00000120088	ENST00000339069	protein_coding	KNOWN	None	2357	858	285	43699292	43912267	1	CRHR	CRF-R, CRF1
17	CRHR1	ENSG00000120088	ENST00000293493	protein_coding	KNOWN	CCDS58556	2357	723	240	43699267	43912137	1	CRHR	CRF-R, CRF1
15	HSP90B2P	ENSG00000259706	ENST00000559111	processed_pseudogene	KNOWN	None	12099	None	None	99797837	99800220	1	TRAP1, TRA1P1, HSPCP2	GRP94P1, GRP94b, HSP
5	None	ENSG00000250992	ENST00000509643	antisense	KNOWN	None	None	None	None	175467747	175469881	1	None	None
22	None	ENSG00000238498	ENST00000458891	snoRNA	NOVEL	None	None	None	None	42472062	42472165	-1	None	None
16	RPS3P7	ENSG00000243101	ENST00000488662	processed_pseudogene	KNOWN	None	36056	None	None	78859178	78859903	1	None	None
1	None	ENSG00000228823	ENST00000443127	unprocessed_pseudogene	KNOWN	None	None	None	None	21737953	21739786	-1	None	None
X	PCDH11X	ENSG00000102290	ENST00000395337	protein_coding	KNOWN	CCDS14463	8656	3078	1025	91034260	91139006	1	PCDH11	PCDH-X, PCDHX
X	PCDH11X	ENSG00000102290	ENST00000361724	protein_coding	KNOWN	CCDS14464	8656	3066	1021	91089659	91134997	1	PCDH11	PCDH-X, PCDHX
X	PCDH11X	ENSG00000102290	ENST00000373094	protein_coding	KNOWN	CCDS14461	8656	4044	1347	91089659	91878226	1	PCDH11	PCDH-X, PCDHX
X	PCDH11X	ENSG00000102290	ENST00000373097	protein_coding	KNOWN	CCDS14462	8656	4014	1337	91089659	91878229	1	PCDH11	PCDH-X, PCDHX
X	PCDH11X	ENSG00000102290	ENST00000361655	protein_coding	PUTATIVE	CCDS55460	8656	3990	1329	91090504	91873939	1	PCDH11	PCDH-X, PCDHX
X	PCDH11X	ENSG00000102290	ENST00000406881	protein_coding	PUTATIVE	CCDS55459	8656	4020	1339	91090504	91873939	1	PCDH11	PCDH-X, PCDHX
X	PCDH11X	ENSG00000102290	ENST00000373088	protein_coding	KNOWN	CCDS55461	8656	3933	1310	91090504	91874067	1	PCDH11	PCDH-X, PCDHX
X	PCDH11X	ENSG00000102290	ENST00000504220	protein_coding	KNOWN	CCDS55458	8656	3198	1065	91090504	91874075	1	PCDH11	PCDH-X, PCDHX
X	PCDH11X	ENSG00000102290	ENST00000298274	protein_coding	KNOWN	None	8656	3933	1310	91090504	91873939	1	PCDH11	PCDH-X, PCDHX
22	None	ENSG00000270083	ENST00000602718	sense_intronic	KNOWN	None	None	None	None	42485634	42486032	-1	None	None
5	None	ENSG00000251458	ENST00000504629	lincRNA	KNOWN	None	None	None	None	175551213	175558464	-1	None	None
1	None	ENSG00000236009	ENST00000444647	lincRNA	KNOWN	None	None	None	None	21742391	21743985	1	None	None
1	None	ENSG00000236009	ENST00000423921	lincRNA	KNOWN	None	None	None	None	21742815	21743867	1	None	None
15	None	ENSG00000245750	ENST00000558633	lincRNA	KNOWN	None	None	None	None	69755365	69857576	1	None	None
15	None	ENSG00000245750	ENST00000558309	lincRNA	KNOWN	None	None	None	None	69755446	69857574	1	None	None
15	None	ENSG00000245750	ENST00000559025	lincRNA	KNOWN	None	None	None	None	69755446	69857574	1	None	None
15	None	ENSG00000245750	ENST00000560882	lincRNA	KNOWN	None	None	None	None	69760375	69863422	1	None	None
15	None	ENSG00000245750	ENST00000559029	lincRNA	KNOWN	None	None	None	None	69845055	69856009	1	None	None
15	None	ENSG00000245750	ENST00000558781	lincRNA	KNOWN	None	None	None	None	69850531	69863422	1	None	None
15	None	ENSG00000245750	ENST00000498938	lincRNA	KNOWN	None	None	None	None	69854062	69863422	1	None	None
15	None	ENSG00000245750	ENST00000559477	lincRNA	KNOWN	None	None	None	None	69857531	69863775	1	None	None
16	None	ENSG00000260816	ENST00000568885	sense_intronic	KNOWN	None	None	None	None	78931062	78933541	1	None	None
10	None	ENSG00000238469	ENST00000458781	miRNA	NOVEL	None	None	None	None	86623021	86623118	1	None	None
19	None	ENSG00000268093	ENST00000600303	antisense	KNOWN	None	None	None	None	49122529	49127115	-1	None	None
19	None	ENSG00000268093	ENST00000598735	processed_transcript	KNOWN	None	None	None	None	49122826	49126658	-1	None	None
19	None	ENSG00000268093	ENST00000594850	antisense	KNOWN	None	None	None	None	49123761	49127389	-1	None	None
9	FOCAD	ENSG00000188352	ENST00000380249	protein_coding	KNOWN	CCDS34993	23377	5406	1801	20658308	20995954	1	KIAA1797	FLJ20375
9	FOCAD	ENSG00000188352	ENST00000604036	processed_transcript	KNOWN	None	23377	None	None	20683977	20720420	1	KIAA1797	FLJ20375
9	FOCAD	ENSG00000188352	ENST00000605031	processed_transcript	KNOWN	None	23377	None	None	20726285	20770111	1	KIAA1797	FLJ20375
9	FOCAD	ENSG00000188352	ENST00000604103	processed_transcript	KNOWN	None	23377	None	None	20726350	20770132	1	KIAA1797	FLJ20375
9	FOCAD	ENSG00000188352	ENST00000603492	processed_transcript	KNOWN	None	23377	None	None	20789333	20823048	1	KIAA1797	FLJ20375
9	FOCAD	ENSG00000188352	ENST00000605086	protein_coding	PUTATIVE	None	23377	3714	1237	20820293	20995947	1	KIAA1797	FLJ20375
9	FOCAD	ENSG00000188352	ENST00000603648	nonsense_mediated_decay	KNOWN	None	23377	141	46	20820388	20865966	1	KIAA1797	FLJ20375
9	FOCAD	ENSG00000188352	ENST00000603844	processed_transcript	KNOWN	None	23377	None	None	20822992	20863146	1	KIAA1797	FLJ20375
9	FOCAD	ENSG00000188352	ENST00000605852	processed_transcript	KNOWN	None	23377	None	None	20872806	20907201	1	KIAA1797	FLJ20375
9	FOCAD	ENSG00000188352	ENST00000604828	processed_transcript	KNOWN	None	23377	None	None	20873842	20875814	1	KIAA1797	FLJ20375
9	FOCAD	ENSG00000188352	ENST00000603552	processed_transcript	KNOWN	None	23377	None	None	20881905	20885528	1	KIAA1797	FLJ20375
9	FOCAD	ENSG00000188352	ENST00000603610	processed_transcript	KNOWN	None	23377	None	None	20896970	20912907	1	KIAA1797	FLJ20375
9	FOCAD	ENSG00000188352	ENST00000603044	protein_coding	PUTATIVE	None	23377	385	127	20927764	20946730	1	KIAA1797	FLJ20375
9	FOCAD	ENSG00000188352	ENST00000604254	protein_coding	PUTATIVE	None	23377	541	179	20927801	20948393	1	KIAA1797	FLJ20375
9	FOCAD	ENSG00000188352	ENST00000603695	protein_coding	PUTATIVE	None	23377	297	98	20928943	20944716	1	KIAA1797	FLJ20375
9	FOCAD	ENSG00000188352	ENST00000603631	processed_transcript	KNOWN	None	23377	None	None	20952419	20981460	1	KIAA1797	FLJ20375
9	FOCAD	ENSG00000188352	ENST00000338382	protein_coding	KNOWN	CCDS34993	23377	5406	1801	20715353	20995947	1	KIAA1797	FLJ20375
5	None	ENSG00000251623	ENST00000510029	lincRNA	KNOWN	None	None	None	None	175564160	175582741	1	None	None
10	None	ENSG00000237267	ENST00000454178	lincRNA	KNOWN	None	None	None	None	86953177	86957714	-1	None	None
4	None	ENSG00000250030	ENST00000508720	processed_pseudogene	KNOWN	None	None	None	None	68311985	68312292	1	None	None
16	None	ENSG00000261537	ENST00000561938	sense_intronic	KNOWN	None	None	None	None	79028242	79038627	1	None	None
15	FRMD5	ENSG00000171877	ENST00000417257	protein_coding	KNOWN	CCDS10107	28214	1713	570	44162962	44487429	-1	None	MGC14161
15	FRMD5	ENSG00000171877	ENST00000402883	protein_coding	PUTATIVE	None	28214	1554	517	44162965	44487408	-1	None	MGC14161
15	FRMD5	ENSG00000171877	ENST00000449926	protein_coding	NOVEL	None	28214	1425	474	44165473	44216507	-1	None	MGC14161
15	FRMD5	ENSG00000171877	ENST00000484674	protein_coding	PUTATIVE	None	28214	1245	414	44165473	44486644	-1	None	MGC14161
15	FRMD5	ENSG00000171877	ENST00000458630	nonsense_mediated_decay	KNOWN	None	28214	358	118	44165473	44487238	-1	None	MGC14161
15	FRMD5	ENSG00000171877	ENST00000421674	nonsense_mediated_decay	KNOWN	None	28214	372	123	44165473	44487391	-1	None	MGC14161
15	FRMD5	ENSG00000171877	ENST00000558108	protein_coding	PUTATIVE	None	28214	537	178	44165731	44211700	-1	None	MGC14161
15	FRMD5	ENSG00000171877	ENST00000451277	nonsense_mediated_decay	KNOWN	None	28214	651	216	44165733	44487450	-1	None	MGC14161
15	FRMD5	ENSG00000171877	ENST00000473965	retained_intron	KNOWN	None	28214	None	None	44166558	44177304	-1	None	MGC14161
15	FRMD5	ENSG00000171877	ENST00000479319	retained_intron	KNOWN	None	28214	None	None	44194112	44202125	-1	None	MGC14161
18	ST8SIA5	ENSG00000101638	ENST00000315087	protein_coding	KNOWN	CCDS11930	17827	1131	376	44259081	44337132	-1	SIAT8E	None
18	ST8SIA5	ENSG00000101638	ENST00000590497	processed_transcript	KNOWN	None	17827	None	None	44259206	44311726	-1	SIAT8E	None
18	ST8SIA5	ENSG00000101638	ENST00000538168	protein_coding	NOVEL	None	17827	1239	412	44259631	44336772	-1	SIAT8E	None
18	ST8SIA5	ENSG00000101638	ENST00000536490	protein_coding	NOVEL	None	17827	1038	345	44259846	44336773	-1	SIAT8E	None
18	ST8SIA5	ENSG00000101638	ENST00000587428	retained_intron	KNOWN	None	17827	None	None	44260331	44268944	-1	SIAT8E	None
18	ST8SIA5	ENSG00000101638	ENST00000589088	retained_intron	KNOWN	None	17827	None	None	44265832	44268880	-1	SIAT8E	None
18	ST8SIA5	ENSG00000101638	ENST00000591375	nonsense_mediated_decay	KNOWN	None	17827	165	54	44268847	44339105	-1	SIAT8E	None
18	ST8SIA5	ENSG00000101638	ENST00000588155	retained_intron	KNOWN	None	17827	None	None	44271413	44336773	-1	SIAT8E	None
18	ST8SIA5	ENSG00000101638	ENST00000590488	nonsense_mediated_decay	KNOWN	None	17827	123	40	44310169	44339220	-1	SIAT8E	None
10	None	ENSG00000221293	ENST00000408366	miRNA	NOVEL	None	None	None	None	125494301	125494372	-1	None	None
10	None	ENSG00000231138	ENST00000446888	antisense	KNOWN	None	None	None	None	125536186	125537265	1	None	None
22	NDUFA6-AS1	ENSG00000237037	ENST00000416037	antisense	KNOWN	None	45273	None	None	42486937	42533614	1	None	None
22	NDUFA6-AS1	ENSG00000237037	ENST00000417327	antisense	KNOWN	None	45273	None	None	42486960	42521354	1	None	None
22	NDUFA6-AS1	ENSG00000237037	ENST00000439129	antisense	KNOWN	None	45273	None	None	42486960	42533510	1	None	None
22	NDUFA6-AS1	ENSG00000237037	ENST00000536447	antisense	KNOWN	None	45273	None	None	42486971	42520964	1	None	None
22	NDUFA6-AS1	ENSG00000237037	ENST00000595777	antisense	KNOWN	None	45273	None	None	42487208	42520964	1	None	None
22	NDUFA6-AS1	ENSG00000237037	ENST00000600968	antisense	KNOWN	None	45273	None	None	42487356	42520964	1	None	None
22	NDUFA6-AS1	ENSG00000237037	ENST00000434834	antisense	KNOWN	None	45273	None	None	42487406	42521007	1	None	None
22	NDUFA6-AS1	ENSG00000237037	ENST00000451451	antisense	KNOWN	None	45273	None	None	42519739	42521033	1	None	None
4	None	ENSG00000270257	ENST00000604441	processed_pseudogene	KNOWN	None	None	None	None	68503895	68504077	1	None	None
16	None	ENSG00000260694	ENST00000567386	antisense	KNOWN	None	None	None	None	79111273	79112131	-1	None	None
5	None	ENSG00000272382	ENST00000607830	lincRNA	KNOWN	None	None	None	None	43033818	43034737	1	None	None
16	None	ENSG00000261487	ENST00000566056	processed_transcript	KNOWN	None	None	None	None	30959707	30965640	1	None	None
16	None	ENSG00000261487	ENST00000562642	processed_transcript	KNOWN	None	None	None	None	30959852	30967832	1	None	None
16	None	ENSG00000260479	ENST00000563230	sense_intronic	KNOWN	None	None	None	None	79123947	79135651	1	None	None
2	None	ENSG00000233404	ENST00000414004	protein_coding	NOVEL	None	None	582	193	102508955	102511150	1	None	None
10	None	ENSG00000221437	ENST00000408510	miRNA	NOVEL	None	None	None	None	125670995	125671077	-1	None	None
11	OR8G5	ENSG00000255298	ENST00000533406	unprocessed_pseudogene	KNOWN	None	19622	None	None	124134840	124135631	1	OR8G5P, OR8G6	None
HSCHR6_MHC_COX	ZDHHC20P2	ENSG00000232659	ENST00000449890	processed_pseudogene	KNOWN	None	33457	None	None	31338654	31339080	1	None	OTTHUMG00000133740
5	TBC1D9B	ENSG00000197226	ENST00000518085	processed_transcript	PUTATIVE	None	29097	None	None	179289066	179294028	-1	None	KIAA0676
5	TBC1D9B	ENSG00000197226	ENST00000519746	protein_coding	PUTATIVE	None	29097	1230	409	179289066	179298805	-1	None	KIAA0676
5	TBC1D9B	ENSG00000197226	ENST00000355235	protein_coding	KNOWN	CCDS4450	29097	3702	1233	179289066	179334856	-1	None	KIAA0676
5	TBC1D9B	ENSG00000197226	ENST00000356834	protein_coding	KNOWN	CCDS43408	29097	3753	1250	179289066	179334859	-1	None	KIAA0676
5	TBC1D9B	ENSG00000197226	ENST00000522472	protein_coding	PUTATIVE	None	29097	499	165	179289373	179306703	-1	None	KIAA0676
5	TBC1D9B	ENSG00000197226	ENST00000521469	retained_intron	KNOWN	None	29097	None	None	179289738	179299274	-1	None	KIAA0676
5	TBC1D9B	ENSG00000197226	ENST00000520794	retained_intron	KNOWN	None	29097	None	None	179289743	179294302	-1	None	KIAA0676
5	TBC1D9B	ENSG00000197226	ENST00000524222	protein_coding	PUTATIVE	None	29097	881	292	179290404	179320233	-1	None	KIAA0676
5	TBC1D9B	ENSG00000197226	ENST00000522180	processed_transcript	KNOWN	None	29097	None	None	179294241	179298501	-1	None	KIAA0676
5	TBC1D9B	ENSG00000197226	ENST00000519757	retained_intron	KNOWN	None	29097	None	None	179294304	179298816	-1	None	KIAA0676
5	TBC1D9B	ENSG00000197226	ENST00000522921	retained_intron	KNOWN	None	29097	None	None	179294805	179297700	-1	None	KIAA0676
5	TBC1D9B	ENSG00000197226	ENST00000520912	retained_intron	KNOWN	None	29097	None	None	179295058	179297408	-1	None	KIAA0676
5	TBC1D9B	ENSG00000197226	ENST00000521669	retained_intron	KNOWN	None	29097	None	None	179299416	179300135	-1	None	KIAA0676
5	TBC1D9B	ENSG00000197226	ENST00000518459	retained_intron	KNOWN	None	29097	None	None	179301927	179306406	-1	None	KIAA0676
5	TBC1D9B	ENSG00000197226	ENST00000518115	retained_intron	KNOWN	None	29097	None	None	179306046	179307023	-1	None	KIAA0676
5	TBC1D9B	ENSG00000197226	ENST00000522029	processed_transcript	KNOWN	None	29097	None	None	179311369	179320237	-1	None	KIAA0676
5	TBC1D9B	ENSG00000197226	ENST00000518120	processed_transcript	PUTATIVE	None	29097	None	None	179314671	179315314	-1	None	KIAA0676
5	TBC1D9B	ENSG00000197226	ENST00000517782	processed_transcript	PUTATIVE	None	29097	None	None	179315103	179321458	-1	None	KIAA0676
5	TBC1D9B	ENSG00000197226	ENST00000522224	nonsense_mediated_decay	KNOWN	None	29097	303	100	179320425	179334852	-1	None	KIAA0676
5	TBC1D9B	ENSG00000197226	ENST00000444477	protein_coding	KNOWN	None	29097	1176	391	179289073	179298805	-1	None	KIAA0676
19	SEC1P	ENSG00000232871	ENST00000474419	processed_transcript	KNOWN	None	44149	None	None	49141328	49183482	1	None	None
19	SEC1P	ENSG00000232871	ENST00000483163	processed_transcript	KNOWN	None	44149	None	None	49141328	49183482	1	None	None
19	SEC1P	ENSG00000232871	ENST00000430145	processed_transcript	KNOWN	None	44149	None	None	49141356	49184424	1	None	None
19	SEC1P	ENSG00000232871	ENST00000473944	unitary_pseudogene	KNOWN	None	44149	None	None	49183338	49184277	1	None	None
19	SEC1P	ENSG00000232871	ENST00000521217	unitary_pseudogene	KNOWN	None	44149	None	None	49141358	49184461	1	None	None
10	None	ENSG00000234677	ENST00000435782	sense_intronic	KNOWN	None	None	None	None	125673090	125691113	-1	None	None
1	NBPF2P	ENSG00000227001	ENST00000453025	unprocessed_pseudogene	KNOWN	None	31987	None	None	21751118	21754460	-1	None	None
1	NBPF2P	ENSG00000227001	ENST00000426482	unprocessed_pseudogene	KNOWN	None	31987	None	None	21751163	21754451	-1	None	None
15	None	ENSG00000225151	ENST00000559668	processed_transcript	KNOWN	None	None	None	None	84868063	84898774	-1	None	None
15	None	ENSG00000225151	ENST00000400817	processed_transcript	KNOWN	None	None	None	None	84868063	84898877	-1	None	None
15	None	ENSG00000225151	ENST00000316967	processed_transcript	KNOWN	None	None	None	None	84868064	84898888	-1	None	None
15	None	ENSG00000225151	ENST00000559990	processed_transcript	KNOWN	None	None	None	None	84869633	84873277	-1	None	None
15	None	ENSG00000225151	ENST00000558526	processed_transcript	KNOWN	None	None	None	None	84869713	84873268	-1	None	None
15	None	ENSG00000225151	ENST00000559654	processed_transcript	KNOWN	None	None	None	None	84871461	84898842	-1	None	None
15	None	ENSG00000225151	ENST00000557980	processed_transcript	KNOWN	None	None	None	None	84871481	84898842	-1	None	None
15	None	ENSG00000225151	ENST00000561015	processed_transcript	KNOWN	None	None	None	None	84871554	84873356	-1	None	None
15	None	ENSG00000225151	ENST00000560408	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	84872618	84874071	-1	None	None
15	None	ENSG00000225151	ENST00000557881	processed_transcript	KNOWN	None	None	None	None	84872934	84898888	-1	None	None
15	None	ENSG00000225151	ENST00000436127	unprocessed_pseudogene	KNOWN	None	None	None	None	84867600	84874024	-1	None	None
15	None	ENSG00000225151	ENST00000456029	unprocessed_pseudogene	KNOWN	None	None	None	None	84869932	84874024	-1	None	None
10	MSS51	ENSG00000166343	ENST00000487126	nonsense_mediated_decay	KNOWN	None	21000	546	181	75183339	75193318	-1	ZMYND17	FLJ39565
10	MSS51	ENSG00000166343	ENST00000372912	protein_coding	KNOWN	CCDS31221	21000	1383	460	75184187	75188045	-1	ZMYND17	FLJ39565
10	MSS51	ENSG00000166343	ENST00000299432	protein_coding	KNOWN	CCDS31221	21000	1383	460	75183339	75193319	-1	ZMYND17	FLJ39565
17	SOCS7	ENSG00000174111	ENST00000331159	protein_coding	NOVEL	None	29846	1644	547	36508111	36555901	1	None	NAP4, NCKAP4
17	SOCS7	ENSG00000174111	ENST00000577233	protein_coding	KNOWN	CCDS32637	29846	1746	581	36508128	36556019	1	None	NAP4, NCKAP4
17	SOCS7	ENSG00000174111	ENST00000584132	retained_intron	KNOWN	None	29846	None	None	36508434	36555886	1	None	NAP4, NCKAP4
17	SOCS7	ENSG00000174111	ENST00000580660	protein_coding	PUTATIVE	None	29846	480	159	36508826	36533564	1	None	NAP4, NCKAP4
4	None	ENSG00000248049	ENST00000498917	antisense	KNOWN	None	None	None	None	68566998	68588223	1	None	None
4	None	ENSG00000248049	ENST00000506606	antisense	KNOWN	None	None	None	None	68567051	68588220	1	None	None
4	None	ENSG00000248049	ENST00000500538	antisense	KNOWN	None	None	None	None	68567079	68946670	1	None	None
4	None	ENSG00000248049	ENST00000514109	antisense	KNOWN	None	None	None	None	68567113	68586736	1	None	None
4	None	ENSG00000248049	ENST00000502758	antisense	KNOWN	None	None	None	None	68597862	68656229	1	None	None
4	None	ENSG00000248049	ENST00000499180	antisense	KNOWN	None	None	None	None	68928780	68945944	1	None	None
4	None	ENSG00000248049	ENST00000511571	antisense	KNOWN	None	None	None	None	68928801	68946363	1	None	None
HSCHR6_MHC_COX	HLA-S	ENSG00000225145	ENST00000417754	unprocessed_pseudogene	KNOWN	None	19395	None	None	31340324	31340538	-1	None	HLA-17
5	None	ENSG00000215068	ENST00000451894	antisense	KNOWN	None	None	None	None	43041677	43045366	1	None	None
5	None	ENSG00000215068	ENST00000505541	antisense	KNOWN	None	None	None	None	43041859	43044988	1	None	None
5	None	ENSG00000215068	ENST00000399543	retained_intron	KNOWN	None	None	None	None	43042195	43045492	1	None	None
5	None	ENSG00000215068	ENST00000508913	retained_intron	KNOWN	None	None	None	None	43042235	43045370	1	None	None
5	None	ENSG00000215068	ENST00000515108	retained_intron	KNOWN	None	None	None	None	43042235	43045370	1	None	None
5	None	ENSG00000248147	ENST00000511994	lincRNA	KNOWN	None	None	None	None	124704456	124705035	-1	None	None
HSCHR6_MHC_QBL	HLA-DQA1	ENSG00000206305	ENST00000383251	protein_coding	KNOWN	None	4942	765	254	32538584	32544863	1	HLA-DQA	CELIAC1
HSCHR6_MHC_QBL	HLA-DQA1	ENSG00000206305	ENST00000399675	protein_coding	KNOWN	None	4942	765	254	32538667	32544863	1	HLA-DQA	CELIAC1
HSCHR6_MHC_QBL	HLA-DQA1	ENSG00000206305	ENST00000399678	protein_coding	KNOWN	None	4942	765	254	32538667	32544863	1	HLA-DQA	CELIAC1
HSCHR6_MHC_QBL	HLA-DQA1	ENSG00000206305	ENST00000548014	protein_coding	KNOWN	None	4942	759	252	32538633	32544425	1	HLA-DQA	CELIAC1
10	None	ENSG00000213438	ENST00000394192	processed_pseudogene	KNOWN	None	None	None	None	125751426	125752185	1	None	None
3	ST3GAL6	ENSG00000064225	ENST00000489112	retained_intron	KNOWN	None	18080	None	None	98451080	98491813	1	SIAT10	ST3GALVI
3	ST3GAL6	ENSG00000064225	ENST00000483910	protein_coding	KNOWN	CCDS2933	18080	996	331	98451099	98513206	1	SIAT10	ST3GALVI
3	ST3GAL6	ENSG00000064225	ENST00000460774	protein_coding	PUTATIVE	None	18080	303	100	98451109	98503820	1	SIAT10	ST3GALVI
3	ST3GAL6	ENSG00000064225	ENST00000469105	nonsense_mediated_decay	KNOWN	None	18080	273	90	98451110	98514098	1	SIAT10	ST3GALVI
3	ST3GAL6	ENSG00000064225	ENST00000466482	processed_transcript	KNOWN	None	18080	None	None	98451213	98501761	1	SIAT10	ST3GALVI
3	ST3GAL6	ENSG00000064225	ENST00000462152	processed_transcript	KNOWN	None	18080	None	None	98451223	98512788	1	SIAT10	ST3GALVI
3	ST3GAL6	ENSG00000064225	ENST00000486249	nonsense_mediated_decay	KNOWN	None	18080	273	90	98451294	98514689	1	SIAT10	ST3GALVI
3	ST3GAL6	ENSG00000064225	ENST00000497008	protein_coding	PUTATIVE	None	18080	495	164	98451319	98507039	1	SIAT10	ST3GALVI
3	ST3GAL6	ENSG00000064225	ENST00000486334	protein_coding	KNOWN	None	18080	695	230	98451535	98507246	1	SIAT10	ST3GALVI
3	ST3GAL6	ENSG00000064225	ENST00000480133	processed_transcript	KNOWN	None	18080	None	None	98451558	98489784	1	SIAT10	ST3GALVI
3	ST3GAL6	ENSG00000064225	ENST00000497621	nonsense_mediated_decay	KNOWN	None	18080	198	65	98451558	98513237	1	SIAT10	ST3GALVI
3	ST3GAL6	ENSG00000064225	ENST00000465004	processed_transcript	KNOWN	None	18080	None	None	98452300	98475390	1	SIAT10	ST3GALVI
3	ST3GAL6	ENSG00000064225	ENST00000476833	nonsense_mediated_decay	KNOWN	None	18080	273	90	98482153	98501344	1	SIAT10	ST3GALVI
3	ST3GAL6	ENSG00000064225	ENST00000468553	protein_coding	NOVEL	None	18080	441	146	98482161	98501304	1	SIAT10	ST3GALVI
3	ST3GAL6	ENSG00000064225	ENST00000490684	retained_intron	KNOWN	None	18080	None	None	98482165	98491949	1	SIAT10	ST3GALVI
3	ST3GAL6	ENSG00000064225	ENST00000485391	protein_coding	PUTATIVE	None	18080	656	217	98482184	98507303	1	SIAT10	ST3GALVI
3	ST3GAL6	ENSG00000064225	ENST00000495376	nonsense_mediated_decay	KNOWN	None	18080	273	90	98482192	98502583	1	SIAT10	ST3GALVI
3	ST3GAL6	ENSG00000064225	ENST00000492254	protein_coding	PUTATIVE	None	18080	788	261	98482197	98507270	1	SIAT10	ST3GALVI
3	ST3GAL6	ENSG00000064225	ENST00000477574	protein_coding	PUTATIVE	None	18080	363	120	98489233	98506916	1	SIAT10	ST3GALVI
3	ST3GAL6	ENSG00000064225	ENST00000485145	protein_coding	PUTATIVE	None	18080	473	156	98489899	98507282	1	SIAT10	ST3GALVI
3	ST3GAL6	ENSG00000064225	ENST00000474595	processed_transcript	KNOWN	None	18080	None	None	98491086	98512609	1	SIAT10	ST3GALVI
3	ST3GAL6	ENSG00000064225	ENST00000477899	processed_transcript	KNOWN	None	18080	None	None	98502355	98510837	1	SIAT10	ST3GALVI
3	ST3GAL6	ENSG00000064225	ENST00000493953	processed_transcript	KNOWN	None	18080	None	None	98503274	98510841	1	SIAT10	ST3GALVI
3	ST3GAL6	ENSG00000064225	ENST00000491912	processed_transcript	KNOWN	None	18080	None	None	98510703	98539841	1	SIAT10	ST3GALVI
3	ST3GAL6	ENSG00000064225	ENST00000495502	processed_transcript	KNOWN	None	18080	None	None	98520149	98540045	1	SIAT10	ST3GALVI
3	ST3GAL6	ENSG00000064225	ENST00000394162	protein_coding	KNOWN	CCDS2933	18080	996	331	98451572	98513234	1	SIAT10	ST3GALVI
3	ST3GAL6	ENSG00000064225	ENST00000265261	protein_coding	KNOWN	CCDS59452	18080	642	213	98451294	98514689	1	SIAT10	ST3GALVI
16	None	ENSG00000261216	ENST00000562802	antisense	KNOWN	None	None	None	None	12002065	12002773	1	None	None
1	GFI1	ENSG00000162676	ENST00000370332	protein_coding	KNOWN	CCDS30773	4237	1269	422	92940319	92949511	-1	ZNF163	GFI1A, GFI-1
1	GFI1	ENSG00000162676	ENST00000294702	protein_coding	KNOWN	CCDS30773	4237	1269	422	92940321	92952433	-1	ZNF163	GFI1A, GFI-1
1	GFI1	ENSG00000162676	ENST00000483490	processed_transcript	KNOWN	None	4237	None	None	92948547	92950239	-1	ZNF163	GFI1A, GFI-1
1	GFI1	ENSG00000162676	ENST00000427103	protein_coding	KNOWN	CCDS30773	4237	1269	422	92940319	92951628	-1	ZNF163	GFI1A, GFI-1
5	None	ENSG00000249677	ENST00000502275	lincRNA	KNOWN	None	None	None	None	124705858	124706617	-1	None	None
1	HS6ST1P1	ENSG00000187952	ENST00000481504	processed_pseudogene	KNOWN	None	31835	None	None	21754796	21756029	1	HS6ST1P	None
1	HS6ST1P1	ENSG00000187952	ENST00000544728	processed_pseudogene	KNOWN	None	31835	None	None	21754804	21756030	1	HS6ST1P	None
16	None	ENSG00000266163	ENST00000583357	miRNA	NOVEL	None	None	None	None	12009518	12009595	-1	None	None
5	None	ENSG00000248596	ENST00000515403	lincRNA	KNOWN	None	None	None	None	175570088	175612158	-1	None	None
5	None	ENSG00000248596	ENST00000513919	lincRNA	KNOWN	None	None	None	None	175570453	175575050	-1	None	None
5	None	ENSG00000248596	ENST00000503307	lincRNA	KNOWN	None	None	None	None	175585614	175595041	-1	None	None
5	None	ENSG00000248596	ENST00000508056	lincRNA	KNOWN	None	None	None	None	175600355	175626298	-1	None	None
5	None	ENSG00000248596	ENST00000510155	lincRNA	KNOWN	None	None	None	None	175600356	175602396	-1	None	None
5	None	ENSG00000248596	ENST00000512260	retained_intron	KNOWN	None	None	None	None	175603523	175612183	-1	None	None
5	None	ENSG00000248596	ENST00000510850	retained_intron	KNOWN	None	None	None	None	175607010	175612159	-1	None	None
5	None	ENSG00000250402	ENST00000511631	lincRNA	KNOWN	None	None	None	None	124712527	124713132	1	None	None
1	CROCCP5	ENSG00000186543	ENST00000436658	unprocessed_pseudogene	KNOWN	None	43865	None	None	21760811	21764051	1	None	None
16	UBL5P4	ENSG00000260224	ENST00000562584	processed_pseudogene	KNOWN	None	44642	None	None	12062365	12062600	-1	None	None
HSCHR6_MHC_COX	TAP2	ENSG00000228582	ENST00000414145	protein_coding	KNOWN	None	44	1962	653	32711936	32728828	-1	ABCB3	PSF2, RING11, D6S217E
HSCHR6_MHC_COX	TAP2	ENSG00000228582	ENST00000443713	protein_coding	KNOWN	None	44	2061	686	32715517	32728881	-1	ABCB3	PSF2, RING11, D6S217E
HSCHR6_MHC_COX	TAP2	ENSG00000228582	ENST00000485043	retained_intron	KNOWN	None	44	None	None	32719046	32720829	-1	ABCB3	PSF2, RING11, D6S217E
HSCHR6_MHC_COX	TAP2	ENSG00000228582	ENST00000463174	processed_transcript	PUTATIVE	None	44	None	None	32722397	32722835	-1	ABCB3	PSF2, RING11, D6S217E
3	GAPDHP36	ENSG00000213158	ENST00000480688	processed_pseudogene	KNOWN	None	37790	None	None	179918924	179930896	1	None	None
1	PFN1P10	ENSG00000176378	ENST00000455962	processed_pseudogene	KNOWN	None	42985	None	None	21786249	21786575	-1	None	None
16	C16orf86	ENSG00000159761	ENST00000459925	retained_intron	KNOWN	None	33755	None	None	67700719	67702660	1	None	FLJ41802
16	C16orf86	ENSG00000159761	ENST00000403458	protein_coding	KNOWN	CCDS32468	33755	954	317	67700719	67702661	1	None	FLJ41802
16	C16orf86	ENSG00000159761	ENST00000602974	processed_transcript	KNOWN	None	33755	None	None	67700736	67702003	1	None	FLJ41802
16	C16orf86	ENSG00000159761	ENST00000445068	nonsense_mediated_decay	KNOWN	None	33755	171	56	67700740	67702660	1	None	FLJ41802
16	C16orf86	ENSG00000159761	ENST00000602365	protein_coding	NOVEL	None	33755	596	197	67700793	67702118	1	None	FLJ41802
16	C16orf86	ENSG00000159761	ENST00000602987	retained_intron	KNOWN	None	33755	None	None	67701211	67702099	1	None	FLJ41802
7	AHR	ENSG00000106546	ENST00000242057	protein_coding	KNOWN	CCDS5366	348	2547	848	17338246	17385774	1	None	bHLHe76
7	AHR	ENSG00000106546	ENST00000463496	nonsense_mediated_decay	KNOWN	CCDS5366	348	2547	848	17338307	17385776	1	None	bHLHe76
7	AHR	ENSG00000106546	ENST00000475440	processed_transcript	PUTATIVE	None	348	None	None	17369482	17373574	1	None	bHLHe76
7	AHR	ENSG00000106546	ENST00000481944	processed_transcript	PUTATIVE	None	348	None	None	17374534	17375699	1	None	bHLHe76
7	AHR	ENSG00000106546	ENST00000492120	processed_transcript	PUTATIVE	None	348	None	None	17375269	17379151	1	None	bHLHe76
22	OLA1P1	ENSG00000213790	ENST00000396387	processed_pseudogene	KNOWN	None	45274	None	None	42503769	42504957	-1	None	None
5	None	ENSG00000250269	ENST00000511583	lincRNA	KNOWN	None	None	None	None	124718552	124719148	-1	None	None
16	None	ENSG00000268218	ENST00000602042	protein_coding	KNOWN	None	None	399	132	89334512	89339452	1	None	None
1	None	ENSG00000233431	ENST00000457706	antisense	KNOWN	None	None	None	None	21912965	21917680	1	None	None
16	MC1R	ENSG00000258839	ENST00000539976	processed_transcript	KNOWN	None	6929	None	None	89978527	89981576	1	None	MSH-R
16	MC1R	ENSG00000258839	ENST00000555427	protein_coding	PUTATIVE	None	6929	1149	382	89979826	89987381	1	None	MSH-R
16	MC1R	ENSG00000258839	ENST00000555147	protein_coding	KNOWN	CCDS56011	6929	954	317	89984287	89987385	1	None	MSH-R
4	None	ENSG00000249924	ENST00000513660	lincRNA	KNOWN	None	None	None	None	156207314	156208288	-1	None	None
22	None	ENSG00000227370	ENST00000417586	processed_pseudogene	KNOWN	None	None	None	None	42528550	42529005	1	None	None
22	None	ENSG00000232710	ENST00000428786	sense_intronic	KNOWN	None	None	None	None	42532442	42535938	-1	None	None
1	None	ENSG00000221781	ENST00000408854	miRNA	NOVEL	None	None	None	None	21918904	21919041	-1	None	None
1	None	ENSG00000231978	ENST00000434488	processed_pseudogene	KNOWN	None	None	None	None	22094762	22095068	1	None	None
2	IL1R2	ENSG00000115590	ENST00000332549	protein_coding	KNOWN	CCDS2054	5994	1197	398	102608306	102645006	1	IL1RB	CD121b
2	IL1R2	ENSG00000115590	ENST00000464994	processed_transcript	KNOWN	None	5994	None	None	102608422	102626430	1	IL1RB	CD121b
2	IL1R2	ENSG00000115590	ENST00000493749	retained_intron	KNOWN	None	5994	None	None	102608422	102626647	1	IL1RB	CD121b
2	IL1R2	ENSG00000115590	ENST00000393414	protein_coding	KNOWN	CCDS2054	5994	1197	398	102615457	102644879	1	IL1RB	CD121b
2	IL1R2	ENSG00000115590	ENST00000457817	protein_coding	KNOWN	None	5994	688	228	102618447	102636274	1	IL1RB	CD121b
2	IL1R2	ENSG00000115590	ENST00000441002	protein_coding	NOVEL	CCDS58719	5994	891	296	102624977	102641288	1	IL1RB	CD121b
2	IL1R2	ENSG00000115590	ENST00000482658	retained_intron	KNOWN	None	5994	None	None	102626024	102632948	1	IL1RB	CD121b
2	IL1R2	ENSG00000115590	ENST00000474085	retained_intron	KNOWN	None	5994	None	None	102638525	102644876	1	IL1RB	CD121b
2	IL1R2	ENSG00000115590	ENST00000485335	processed_transcript	KNOWN	None	5994	None	None	102639852	102644879	1	IL1RB	CD121b
22	CYP2D8P1	ENSG00000226450	ENST00000433633	unprocessed_pseudogene	KNOWN	None	2628	None	None	42545877	42551007	-1	CYP2DP1, CYP2D8P	None
7	ZNF282	ENSG00000170265	ENST00000262085	protein_coding	KNOWN	CCDS5895	13076	2016	671	148892577	148923339	1	None	HUB1
7	ZNF282	ENSG00000170265	ENST00000479907	protein_coding	PUTATIVE	None	13076	1392	463	148892642	148921755	1	None	HUB1
7	ZNF282	ENSG00000170265	ENST00000462740	retained_intron	KNOWN	None	13076	None	None	148903728	148904478	1	None	HUB1
7	ZNF282	ENSG00000170265	ENST00000470381	retained_intron	KNOWN	None	13076	None	None	148909400	148921358	1	None	HUB1
X	RNU6-1087P	ENSG00000252411	ENST00000516602	snRNA	KNOWN	None	48050	None	None	35612290	35612390	1	None	None
3	CD200R1	ENSG00000163606	ENST00000471858	protein_coding	KNOWN	CCDS2970	24235	978	325	112640056	112693937	-1	MOX2R	OX2R, HCRTR2, CD200R
3	CD200R1	ENSG00000163606	ENST00000308611	protein_coding	KNOWN	CCDS2969	24235	1047	348	112641537	112693969	-1	MOX2R	OX2R, HCRTR2, CD200R
3	CD200R1	ENSG00000163606	ENST00000295863	protein_coding	PUTATIVE	None	24235	639	212	112641835	112693950	-1	MOX2R	OX2R, HCRTR2, CD200R
3	CD200R1	ENSG00000163606	ENST00000440122	protein_coding	KNOWN	CCDS46889	24235	567	188	112647765	112693759	-1	MOX2R	OX2R, HCRTR2, CD200R
3	CD200R1	ENSG00000163606	ENST00000490004	protein_coding	KNOWN	CCDS54623	24235	498	165	112647765	112693759	-1	MOX2R	OX2R, HCRTR2, CD200R
X	SIAH1P1	ENSG00000230227	ENST00000479411	processed_pseudogene	KNOWN	None	30966	None	None	35644259	35645181	1	SIAH1L	None
X	SIAH1P1	ENSG00000230227	ENST00000420507	processed_pseudogene	KNOWN	None	30966	None	None	35644247	35645092	1	SIAH1L	None
4	TRIML1	ENSG00000184108	ENST00000332517	protein_coding	KNOWN	CCDS3851	26698	1407	468	189060573	189068776	1	None	FLJ36180, RNF209
4	TRIML1	ENSG00000184108	ENST00000507581	processed_transcript	KNOWN	None	26698	None	None	189064797	189068897	1	None	FLJ36180, RNF209
4	TRIML1	ENSG00000184108	ENST00000512233	processed_transcript	KNOWN	None	26698	None	None	189064817	189068460	1	None	FLJ36180, RNF209
7	TMEM243	ENSG00000135185	ENST00000257637	protein_coding	KNOWN	CCDS5602	21707	357	118	86825478	86849049	-1	C7orf23	MGC4175, MM-TRAG
7	TMEM243	ENSG00000135185	ENST00000433078	protein_coding	KNOWN	CCDS5602	21707	357	118	86825478	86849903	-1	C7orf23	MGC4175, MM-TRAG
7	TMEM243	ENSG00000135185	ENST00000481425	processed_transcript	KNOWN	None	21707	None	None	86825916	86846237	-1	C7orf23	MGC4175, MM-TRAG
7	TMEM243	ENSG00000135185	ENST00000423734	protein_coding	PUTATIVE	None	21707	360	119	86827017	86848946	-1	C7orf23	MGC4175, MM-TRAG
7	TMEM243	ENSG00000135185	ENST00000465976	processed_transcript	KNOWN	None	21707	None	None	86827034	86832359	-1	C7orf23	MGC4175, MM-TRAG
7	TMEM243	ENSG00000135185	ENST00000492231	retained_intron	KNOWN	None	21707	None	None	86827299	86828929	-1	C7orf23	MGC4175, MM-TRAG
7	TMEM243	ENSG00000135185	ENST00000474074	retained_intron	KNOWN	None	21707	None	None	86827544	86848942	-1	C7orf23	MGC4175, MM-TRAG
7	TMEM243	ENSG00000135185	ENST00000455575	protein_coding	KNOWN	None	21707	15	4	86848805	86849846	-1	C7orf23	MGC4175, MM-TRAG
4	None	ENSG00000250910	ENST00000598252	antisense	KNOWN	None	None	None	None	156226119	156281498	1	None	None
4	None	ENSG00000250910	ENST00000595229	antisense	KNOWN	None	None	None	None	156226124	156272319	1	None	None
4	None	ENSG00000250910	ENST00000597955	antisense	KNOWN	None	None	None	None	156226149	156267709	1	None	None
4	None	ENSG00000250910	ENST00000593387	antisense	KNOWN	None	None	None	None	156226149	156278356	1	None	None
4	None	ENSG00000250910	ENST00000602249	antisense	KNOWN	None	None	None	None	156226150	156251102	1	None	None
4	None	ENSG00000250910	ENST00000593486	antisense	KNOWN	None	None	None	None	156226150	156267521	1	None	None
4	None	ENSG00000250910	ENST00000595760	antisense	KNOWN	None	None	None	None	156226150	156267711	1	None	None
4	None	ENSG00000250910	ENST00000597939	antisense	KNOWN	None	None	None	None	156226150	156275526	1	None	None
4	None	ENSG00000250910	ENST00000601977	antisense	KNOWN	None	None	None	None	156226150	156278348	1	None	None
4	None	ENSG00000250910	ENST00000512269	antisense	KNOWN	None	None	None	None	156226164	156267711	1	None	None
4	None	ENSG00000250910	ENST00000508191	antisense	KNOWN	None	None	None	None	156226180	156251462	1	None	None
4	None	ENSG00000250910	ENST00000599555	antisense	KNOWN	None	None	None	None	156242795	156263456	1	None	None
4	None	ENSG00000250910	ENST00000417474	antisense	KNOWN	None	None	None	None	156275368	156281613	1	None	None
4	None	ENSG00000250910	ENST00000596754	antisense	KNOWN	None	None	None	None	156278259	156282374	1	None	None
4	None	ENSG00000250910	ENST00000594666	antisense	KNOWN	None	None	None	None	156278259	156284299	1	None	None
4	None	ENSG00000250910	ENST00000594492	antisense	KNOWN	None	None	None	None	156278259	156284460	1	None	None
4	None	ENSG00000250910	ENST00000598890	antisense	KNOWN	None	None	None	None	156278259	156288539	1	None	None
4	None	ENSG00000250910	ENST00000597831	antisense	KNOWN	None	None	None	None	156278259	156290002	1	None	None
4	None	ENSG00000250910	ENST00000600928	antisense	KNOWN	None	None	None	None	156278268	156288661	1	None	None
4	None	ENSG00000250910	ENST00000596165	antisense	KNOWN	None	None	None	None	156278272	156302498	1	None	None
1	None	ENSG00000232037	ENST00000423231	processed_pseudogene	KNOWN	None	None	None	None	22234591	22235073	1	None	None
1	None	ENSG00000232037	ENST00000398929	processed_pseudogene	KNOWN	None	None	None	None	22234678	22235073	1	None	None
1	UTS2	ENSG00000049247	ENST00000377516	protein_coding	PUTATIVE	None	12636	420	139	7903143	7913572	-1	None	UII, U-II, UCN2, PRO1068
1	UTS2	ENSG00000049247	ENST00000361696	protein_coding	KNOWN	CCDS91	12636	375	124	7907682	7913095	-1	None	UII, U-II, UCN2, PRO1068
1	UTS2	ENSG00000049247	ENST00000054668	protein_coding	KNOWN	CCDS90	12636	420	139	7907826	7913491	-1	None	UII, U-II, UCN2, PRO1068
1	RN7SL421P	ENSG00000264385	ENST00000582599	misc_RNA	KNOWN	None	46437	None	None	22305444	22305729	-1	None	None
2	DYNC2LI1	ENSG00000138036	ENST00000260605	protein_coding	KNOWN	CCDS1813	24595	1056	351	44001178	44037149	1	None	D2LIC, LIC3, CGI-60, DKFZP564A033
2	DYNC2LI1	ENSG00000138036	ENST00000496980	nonsense_mediated_decay	KNOWN	None	24595	285	94	44001188	44016860	1	None	D2LIC, LIC3, CGI-60, DKFZP564A033
2	DYNC2LI1	ENSG00000138036	ENST00000406852	protein_coding	KNOWN	CCDS46270	24595	606	201	44001188	44022318	1	None	D2LIC, LIC3, CGI-60, DKFZP564A033
2	DYNC2LI1	ENSG00000138036	ENST00000479242	nonsense_mediated_decay	KNOWN	None	24595	219	72	44001188	44023069	1	None	D2LIC, LIC3, CGI-60, DKFZP564A033
2	DYNC2LI1	ENSG00000138036	ENST00000398823	protein_coding	NOVEL	None	24595	435	144	44001203	44022322	1	None	D2LIC, LIC3, CGI-60, DKFZP564A033
2	DYNC2LI1	ENSG00000138036	ENST00000489222	processed_transcript	KNOWN	None	24595	None	None	44001203	44028056	1	None	D2LIC, LIC3, CGI-60, DKFZP564A033
2	DYNC2LI1	ENSG00000138036	ENST00000605786	protein_coding	KNOWN	None	24595	1059	352	44001221	44037136	1	None	D2LIC, LIC3, CGI-60, DKFZP564A033
2	DYNC2LI1	ENSG00000138036	ENST00000462426	nonsense_mediated_decay	KNOWN	None	24595	228	75	44001225	44023098	1	None	D2LIC, LIC3, CGI-60, DKFZP564A033
2	DYNC2LI1	ENSG00000138036	ENST00000378587	protein_coding	KNOWN	None	24595	956	317	44003962	44032694	1	None	D2LIC, LIC3, CGI-60, DKFZP564A033
2	DYNC2LI1	ENSG00000138036	ENST00000482738	retained_intron	KNOWN	None	24595	None	None	44028410	44032316	1	None	D2LIC, LIC3, CGI-60, DKFZP564A033
2	DYNC2LI1	ENSG00000138036	ENST00000443170	protein_coding	KNOWN	None	24595	678	225	44001188	44036915	1	None	D2LIC, LIC3, CGI-60, DKFZP564A033
17	GNGT2	ENSG00000167083	ENST00000503070	protein_coding	PUTATIVE	None	4412	267	88	47280153	47286274	-1	None	GNG9
17	GNGT2	ENSG00000167083	ENST00000511277	protein_coding	KNOWN	CCDS11545	4412	210	69	47283591	47286762	-1	None	GNG9
17	GNGT2	ENSG00000167083	ENST00000300406	protein_coding	KNOWN	CCDS11545	4412	210	69	47283751	47286747	-1	None	GNG9
17	GNGT2	ENSG00000167083	ENST00000515635	protein_coding	KNOWN	CCDS11545	4412	210	69	47283941	47286579	-1	None	GNG9
17	GNGT2	ENSG00000167083	ENST00000507680	protein_coding	KNOWN	CCDS11545	4412	210	69	47284007	47287936	-1	None	GNG9
17	GNGT2	ENSG00000167083	ENST00000511673	protein_coding	KNOWN	CCDS11545	4412	210	69	47284119	47286762	-1	None	GNG9
1	RN7SL386P	ENSG00000263991	ENST00000485776	misc_RNA	KNOWN	None	46402	None	None	22313974	22314268	1	None	None
22	None	ENSG00000182057	ENST00000332965	lincRNA	KNOWN	None	None	None	None	42665759	42670868	1	None	None
22	None	ENSG00000182057	ENST00000415205	lincRNA	KNOWN	None	None	None	None	42665766	42671202	1	None	None
22	None	ENSG00000182057	ENST00000446578	lincRNA	KNOWN	None	None	None	None	42665774	42671039	1	None	None
1	RNU6-1022P	ENSG00000201919	ENST00000365049	snRNA	KNOWN	None	47985	None	None	22314309	22314412	1	None	None
15	HNRNPA1P62	ENSG00000259228	ENST00000559372	processed_pseudogene	KNOWN	None	48792	None	None	99824830	99825781	-1	None	None
12	AICDA	ENSG00000111732	ENST00000229335	protein_coding	KNOWN	CCDS41747	13203	597	198	8754762	8765467	-1	None	HIGM2, CDA2, ARP2, AID
12	AICDA	ENSG00000111732	ENST00000543081	protein_coding	PUTATIVE	None	13203	434	143	8756282	8759612	-1	None	HIGM2, CDA2, ARP2, AID
12	AICDA	ENSG00000111732	ENST00000544516	protein_coding	PUTATIVE	None	13203	206	67	8756880	8759612	-1	None	HIGM2, CDA2, ARP2, AID
12	AICDA	ENSG00000111732	ENST00000545576	retained_intron	KNOWN	None	13203	None	None	8756880	8765397	-1	None	HIGM2, CDA2, ARP2, AID
12	AICDA	ENSG00000111732	ENST00000537228	protein_coding	NOVEL	None	13203	567	188	8756880	8765463	-1	None	HIGM2, CDA2, ARP2, AID
12	AICDA	ENSG00000111732	ENST00000545512	protein_coding	PUTATIVE	None	13203	592	196	8756881	8759612	-1	None	HIGM2, CDA2, ARP2, AID
1	RN7SL768P	ENSG00000263582	ENST00000584415	misc_RNA	KNOWN	None	46784	None	None	22330078	22330361	-1	None	None
16	None	ENSG00000260911	ENST00000570266	lincRNA	KNOWN	None	None	None	None	31054471	31061201	1	None	None
16	SEPHS2	ENSG00000179918	ENST00000478753	protein_coding	KNOWN	None	19686	1452	483	30454952	30457502	-1	None	SPS2, SPS2b
16	SEPHS2	ENSG00000179918	ENST00000542752	protein_coding	KNOWN	None	19686	1176	391	30454960	30457224	-1	None	SPS2, SPS2b
16	SEPHS2	ENSG00000179918	ENST00000500504	protein_coding	KNOWN	CCDS42150	19686	1347	448	30455702	30457048	-1	None	SPS2, SPS2b
9	TRBV25OR9-2	ENSG00000240215	ENST00000438417	unprocessed_pseudogene	KNOWN	None	12206	None	None	33662164	33662661	1	TCRBV11O	TRBV25/OR9-2, TCRBV11S2O, TCRBV25S2
1	RN7SL186P	ENSG00000263929	ENST00000466485	misc_RNA	KNOWN	None	46202	None	None	22337143	22337437	1	None	None
17	CLUH	ENSG00000132361	ENST00000570628	protein_coding	KNOWN	CCDS45572	29094	3930	1309	2592682	2615314	-1	KIAA0664	CLU1
17	CLUH	ENSG00000132361	ENST00000575014	protein_coding	PUTATIVE	None	29094	3729	1242	2592683	2606793	-1	KIAA0664	CLU1
17	CLUH	ENSG00000132361	ENST00000574210	retained_intron	KNOWN	None	29094	None	None	2594847	2598243	-1	KIAA0664	CLU1
17	CLUH	ENSG00000132361	ENST00000574426	nonsense_mediated_decay	KNOWN	None	29094	2310	769	2594903	2615089	-1	KIAA0664	CLU1
17	CLUH	ENSG00000132361	ENST00000572014	retained_intron	KNOWN	None	29094	None	None	2595601	2597448	-1	KIAA0664	CLU1
17	CLUH	ENSG00000132361	ENST00000574166	retained_intron	KNOWN	None	29094	None	None	2597812	2598897	-1	KIAA0664	CLU1
17	CLUH	ENSG00000132361	ENST00000573641	retained_intron	KNOWN	None	29094	None	None	2598320	2598993	-1	KIAA0664	CLU1
17	CLUH	ENSG00000132361	ENST00000575624	retained_intron	KNOWN	None	29094	None	None	2598999	2599767	-1	KIAA0664	CLU1
17	CLUH	ENSG00000132361	ENST00000572129	protein_coding	PUTATIVE	None	29094	480	159	2601842	2604772	-1	KIAA0664	CLU1
17	CLUH	ENSG00000132361	ENST00000571539	retained_intron	KNOWN	None	29094	None	None	2604408	2604744	-1	KIAA0664	CLU1
17	CLUH	ENSG00000132361	ENST00000576885	protein_coding	KNOWN	None	29094	494	163	2605219	2615086	-1	KIAA0664	CLU1
17	CLUH	ENSG00000132361	ENST00000572414	protein_coding	PUTATIVE	None	29094	540	179	2605287	2615058	-1	KIAA0664	CLU1
17	CLUH	ENSG00000132361	ENST00000576309	protein_coding	KNOWN	None	29094	273	90	2606700	2614492	-1	KIAA0664	CLU1
17	CLUH	ENSG00000132361	ENST00000571566	protein_coding	KNOWN	None	29094	220	72	2606753	2615957	-1	KIAA0664	CLU1
17	CLUH	ENSG00000132361	ENST00000435359	protein_coding	KNOWN	CCDS45572	29094	3930	1309	2592680	2614927	-1	KIAA0664	CLU1
17	CLUH	ENSG00000132361	ENST00000538975	protein_coding	KNOWN	CCDS45572	29094	3930	1309	2592680	2607844	-1	KIAA0664	CLU1
16	None	ENSG00000261124	ENST00000568708	antisense	KNOWN	None	None	None	None	31076816	31080567	1	None	None
1	RNU6-776P	ENSG00000201273	ENST00000364403	snRNA	KNOWN	None	47739	None	None	22337478	22337581	1	None	None
15	None	ENSG00000259257	ENST00000558361	processed_pseudogene	KNOWN	None	None	None	None	99878062	99878686	1	None	None
5	SMIM3	ENSG00000256235	ENST00000526627	protein_coding	KNOWN	CCDS47312	30248	183	60	150157508	150176296	1	C5orf62	MSTP150, NID67
1	None	ENSG00000228397	ENST00000455966	lincRNA	KNOWN	None	None	None	None	22350487	22351461	-1	None	None
16	None	ENSG00000252809	ENST00000517000	miRNA	NOVEL	None	None	None	None	31120551	31120634	1	None	None
15	None	ENSG00000259590	ENST00000561362	lincRNA	KNOWN	None	None	None	None	99935384	99936798	-1	None	None
16	None	ENSG00000262766	ENST00000576336	sense_intronic	KNOWN	None	None	None	None	31129399	31130068	1	None	None
22	None	ENSG00000233903	ENST00000420096	lincRNA	KNOWN	None	None	None	None	42672361	42673057	1	None	None
16	None	ENSG00000261385	ENST00000563605	antisense	KNOWN	None	None	None	None	31142754	31143198	1	None	None
1	LINC00339	ENSG00000218510	ENST00000434233	lincRNA	KNOWN	None	25011	None	None	22351681	22357396	1	NCRNA00339	HSPC157
1	LINC00339	ENSG00000218510	ENST00000420503	lincRNA	KNOWN	None	25011	None	None	22352004	22357293	1	NCRNA00339	HSPC157
1	LINC00339	ENSG00000218510	ENST00000416769	lincRNA	KNOWN	None	25011	None	None	22352027	22357716	1	NCRNA00339	HSPC157
1	LINC00339	ENSG00000218510	ENST00000452322	lincRNA	KNOWN	None	25011	None	None	22354832	22357105	1	NCRNA00339	HSPC157
1	LINC00339	ENSG00000218510	ENST00000404210	lincRNA	KNOWN	None	25011	None	None	22352027	22357713	1	NCRNA00339	HSPC157
11	SLC5A4P1	ENSG00000255116	ENST00000532944	unprocessed_pseudogene	KNOWN	None	45041	None	None	124143866	124144475	1	None	None
19	None	ENSG00000269590	ENST00000597961	protein_coding	PUTATIVE	None	None	585	194	12775642	12780211	-1	None	None
22	None	ENSG00000229891	ENST00000432473	lincRNA	KNOWN	None	None	None	None	42760406	42765174	-1	None	None
22	None	ENSG00000229891	ENST00000412060	lincRNA	KNOWN	None	None	None	None	42760408	42765214	-1	None	None
22	None	ENSG00000229891	ENST00000424852	lincRNA	KNOWN	None	None	None	None	42760531	42765242	-1	None	None
9	PTENP1	ENSG00000237984	ENST00000532280	processed_transcript	KNOWN	None	9589	None	None	33673502	33677497	-1	None	PTEN2, psiPTEN, PTH2, PTEN-rs, PTENpg1
9	PTENP1	ENSG00000237984	ENST00000447117	transcribed_processed_pseudogene	KNOWN	None	9589	None	None	33675435	33676649	-1	None	PTEN2, psiPTEN, PTH2, PTEN-rs, PTENpg1
9	PTENP1	ENSG00000237984	ENST00000451527	processed_pseudogene	KNOWN	None	9589	None	None	33675438	33676649	-1	None	PTEN2, psiPTEN, PTH2, PTEN-rs, PTENpg1
21	ETS2	ENSG00000157557	ENST00000360214	protein_coding	KNOWN	CCDS13659	3489	1410	469	40177231	40196879	1	None	None
21	ETS2	ENSG00000157557	ENST00000360938	protein_coding	KNOWN	CCDS13659	3489	1410	469	40177755	40196879	1	None	None
21	ETS2	ENSG00000157557	ENST00000432278	protein_coding	KNOWN	None	3489	505	167	40177875	40186905	1	None	None
21	ETS2	ENSG00000157557	ENST00000456966	protein_coding	KNOWN	None	3489	811	269	40181560	40190570	1	None	None
5	FGF10	ENSG00000070193	ENST00000264664	protein_coding	KNOWN	CCDS3950	3666	627	208	44303646	44388899	-1	None	None
5	FGF10	ENSG00000070193	ENST00000513107	protein_coding	KNOWN	None	3666	198	65	44388587	44389808	-1	None	None
12	MYL6B	ENSG00000196465	ENST00000553066	protein_coding	KNOWN	CCDS8905	29823	627	208	56546040	56551766	1	None	MLC1SA
12	MYL6B	ENSG00000196465	ENST00000550443	protein_coding	KNOWN	CCDS8905	29823	627	208	56546223	56551760	1	None	MLC1SA
12	MYL6B	ENSG00000196465	ENST00000551834	protein_coding	KNOWN	None	29823	87	28	56546374	56547789	1	None	MLC1SA
12	MYL6B	ENSG00000196465	ENST00000405661	retained_intron	KNOWN	None	29823	None	None	56546374	56550026	1	None	MLC1SA
12	MYL6B	ENSG00000196465	ENST00000552568	protein_coding	NOVEL	None	29823	528	175	56546391	56551760	1	None	MLC1SA
12	MYL6B	ENSG00000196465	ENST00000550152	processed_transcript	KNOWN	None	29823	None	None	56547656	56549773	1	None	MLC1SA
12	MYL6B	ENSG00000196465	ENST00000549178	retained_intron	KNOWN	None	29823	None	None	56547677	56551760	1	None	MLC1SA
12	MYL6B	ENSG00000196465	ENST00000548548	retained_intron	KNOWN	None	29823	None	None	56550721	56551759	1	None	MLC1SA
12	MYL6B	ENSG00000196465	ENST00000550550	retained_intron	KNOWN	None	29823	None	None	56551141	56551760	1	None	MLC1SA
12	MYL6B	ENSG00000196465	ENST00000549380	retained_intron	KNOWN	None	29823	None	None	56551399	56551765	1	None	MLC1SA
12	MYL6B	ENSG00000196465	ENST00000207437	protein_coding	KNOWN	CCDS8905	29823	627	208	56546335	56551771	1	None	MLC1SA
16	NME3	ENSG00000103024	ENST00000219302	protein_coding	KNOWN	CCDS10443	7851	510	169	1820287	1821731	-1	None	DR-nm23, NM23-H3, NDPKC
16	NME3	ENSG00000103024	ENST00000564628	protein_coding	PUTATIVE	None	7851	372	123	1820321	1821496	-1	None	DR-nm23, NM23-H3, NDPKC
16	NME3	ENSG00000103024	ENST00000561637	retained_intron	KNOWN	None	7851	None	None	1820336	1821539	-1	None	DR-nm23, NM23-H3, NDPKC
16	NME3	ENSG00000103024	ENST00000567271	retained_intron	KNOWN	None	7851	None	None	1820342	1821207	-1	None	DR-nm23, NM23-H3, NDPKC
16	NME3	ENSG00000103024	ENST00000568561	nonsense_mediated_decay	KNOWN	None	7851	162	53	1820343	1821511	-1	None	DR-nm23, NM23-H3, NDPKC
16	NME3	ENSG00000103024	ENST00000563498	protein_coding	PUTATIVE	None	7851	258	85	1820345	1821562	-1	None	DR-nm23, NM23-H3, NDPKC
16	NME3	ENSG00000103024	ENST00000566600	retained_intron	KNOWN	None	7851	None	None	1820378	1821558	-1	None	DR-nm23, NM23-H3, NDPKC
16	NME3	ENSG00000103024	ENST00000563367	retained_intron	KNOWN	None	7851	None	None	1820462	1821544	-1	None	DR-nm23, NM23-H3, NDPKC
16	NME3	ENSG00000103024	ENST00000565379	retained_intron	KNOWN	None	7851	None	None	1820482	1821514	-1	None	DR-nm23, NM23-H3, NDPKC
16	NME3	ENSG00000103024	ENST00000563854	nonsense_mediated_decay	KNOWN	None	7851	174	57	1820543	1821514	-1	None	DR-nm23, NM23-H3, NDPKC
16	NME3	ENSG00000103024	ENST00000564252	retained_intron	KNOWN	None	7851	None	None	1820650	1821324	-1	None	DR-nm23, NM23-H3, NDPKC
16	SPG7	ENSG00000197912	ENST00000563783	processed_transcript	KNOWN	None	11237	None	None	89557325	89577000	1	CMAR	CAR, SPG5C
16	SPG7	ENSG00000197912	ENST00000568509	processed_transcript	KNOWN	None	11237	None	None	89557626	89564876	1	CMAR	CAR, SPG5C
16	SPG7	ENSG00000197912	ENST00000566371	protein_coding	PUTATIVE	None	11237	393	130	89573910	89590562	1	CMAR	CAR, SPG5C
16	SPG7	ENSG00000197912	ENST00000268704	protein_coding	KNOWN	CCDS10977	11237	2388	795	89574811	89624174	1	CMAR	CAR, SPG5C
16	SPG7	ENSG00000197912	ENST00000341316	protein_coding	KNOWN	CCDS10978	11237	1470	489	89574819	89604129	1	CMAR	CAR, SPG5C
16	SPG7	ENSG00000197912	ENST00000569363	processed_transcript	KNOWN	None	11237	None	None	89574985	89580979	1	CMAR	CAR, SPG5C
16	SPG7	ENSG00000197912	ENST00000568151	protein_coding	PUTATIVE	None	11237	544	180	89575121	89590485	1	CMAR	CAR, SPG5C
16	SPG7	ENSG00000197912	ENST00000562775	retained_intron	KNOWN	None	11237	None	None	89589128	89592803	1	CMAR	CAR, SPG5C
16	SPG7	ENSG00000197912	ENST00000564047	retained_intron	KNOWN	None	11237	None	None	89590612	89596122	1	CMAR	CAR, SPG5C
16	SPG7	ENSG00000197912	ENST00000564409	retained_intron	KNOWN	None	11237	None	None	89595613	89598978	1	CMAR	CAR, SPG5C
16	SPG7	ENSG00000197912	ENST00000561945	retained_intron	KNOWN	None	11237	None	None	89598281	89611098	1	CMAR	CAR, SPG5C
16	SPG7	ENSG00000197912	ENST00000567138	retained_intron	KNOWN	None	11237	None	None	89598443	89599133	1	CMAR	CAR, SPG5C
16	SPG7	ENSG00000197912	ENST00000563218	retained_intron	KNOWN	None	11237	None	None	89598995	89614786	1	CMAR	CAR, SPG5C
16	SPG7	ENSG00000197912	ENST00000569820	nonsense_mediated_decay	KNOWN	None	11237	212	69	89611056	89624176	1	CMAR	CAR, SPG5C
16	SPG7	ENSG00000197912	ENST00000566221	nonsense_mediated_decay	KNOWN	None	11237	320	105	89611134	89619487	1	CMAR	CAR, SPG5C
16	SPG7	ENSG00000197912	ENST00000561911	nonsense_mediated_decay	KNOWN	None	11237	633	210	89613072	89623538	1	CMAR	CAR, SPG5C
16	SPG7	ENSG00000197912	ENST00000565370	retained_intron	KNOWN	None	11237	None	None	89615297	89619508	1	CMAR	CAR, SPG5C
16	SPG7	ENSG00000197912	ENST00000561702	retained_intron	KNOWN	None	11237	None	None	89616254	89624170	1	CMAR	CAR, SPG5C
16	SPG7	ENSG00000197912	ENST00000568205	retained_intron	KNOWN	None	11237	None	None	89616944	89619775	1	CMAR	CAR, SPG5C
16	SPG7	ENSG00000197912	ENST00000566682	protein_coding	PUTATIVE	None	11237	464	153	89619472	89621410	1	CMAR	CAR, SPG5C
16	SPG7	ENSG00000197912	ENST00000569720	retained_intron	KNOWN	None	11237	None	None	89620075	89623831	1	CMAR	CAR, SPG5C
16	SPG7	ENSG00000197912	ENST00000565891	processed_transcript	KNOWN	None	11237	None	None	89622272	89623950	1	CMAR	CAR, SPG5C
3	LIPH	ENSG00000163898	ENST00000296252	protein_coding	KNOWN	CCDS3272	18483	1356	451	185224050	185270401	-1	None	mPA-PLA1, PLA1B, mPA-PLA1alpha, LPDLR
3	LIPH	ENSG00000163898	ENST00000424591	protein_coding	NOVEL	None	18483	1254	417	185225854	185270346	-1	None	mPA-PLA1, PLA1B, mPA-PLA1alpha, LPDLR
3	LIPH	ENSG00000163898	ENST00000435679	protein_coding	PUTATIVE	None	18483	221	72	185226345	185234869	-1	None	mPA-PLA1, PLA1B, mPA-PLA1alpha, LPDLR
3	LIPH	ENSG00000163898	ENST00000452897	protein_coding	NOVEL	None	18483	256	84	185236932	185251448	-1	None	mPA-PLA1, PLA1B, mPA-PLA1alpha, LPDLR
3	LIPH	ENSG00000163898	ENST00000429510	nonsense_mediated_decay	KNOWN	None	18483	144	47	185251464	185270298	-1	None	mPA-PLA1, PLA1B, mPA-PLA1alpha, LPDLR
10	None	ENSG00000232334	ENST00000455505	processed_pseudogene	KNOWN	None	None	None	None	125763820	125764344	-1	None	None
3	CXCR6	ENSG00000172215	ENST00000438735	protein_coding	KNOWN	CCDS2735	16647	1029	342	45982425	45989829	1	None	TYMSTR, STRL33, BONZO, CD186
3	CXCR6	ENSG00000172215	ENST00000304552	protein_coding	KNOWN	CCDS2735	16647	1029	342	45984964	45989845	1	None	TYMSTR, STRL33, BONZO, CD186
3	CXCR6	ENSG00000172215	ENST00000458629	protein_coding	KNOWN	CCDS2735	16647	1029	342	45986511	45989315	1	None	TYMSTR, STRL33, BONZO, CD186
3	CXCR6	ENSG00000172215	ENST00000457814	protein_coding	KNOWN	CCDS2735	16647	1029	342	45986541	45989002	1	None	TYMSTR, STRL33, BONZO, CD186
1	CDC42-IT1	ENSG00000230068	ENST00000431803	sense_intronic	KNOWN	None	41317	None	None	22385690	22390692	1	None	None
16	C16orf92	ENSG00000167194	ENST00000561910	nonsense_mediated_decay	KNOWN	None	26346	120	39	30034655	30035621	1	None	FLJ25404
16	C16orf92	ENSG00000167194	ENST00000300575	protein_coding	KNOWN	CCDS42146	26346	399	132	30034655	30036023	1	None	FLJ25404
16	C16orf92	ENSG00000167194	ENST00000569198	protein_coding	NOVEL	None	26346	345	114	30035047	30039057	1	None	FLJ25404
16	C16orf92	ENSG00000167194	ENST00000567847	protein_coding	NOVEL	None	26346	150	49	30035074	30039023	1	None	FLJ25404
10	None	ENSG00000269962	ENST00000602332	lincRNA	KNOWN	None	None	None	None	126133808	126134344	-1	None	None
19	SNRPD2	ENSG00000125743	ENST00000342669	protein_coding	KNOWN	CCDS33053	11159	357	118	46190712	46195591	-1	SNRPD1	Sm-D2
19	SNRPD2	ENSG00000125743	ENST00000585392	protein_coding	PUTATIVE	None	11159	165	54	46190718	46195146	-1	SNRPD1	Sm-D2
19	SNRPD2	ENSG00000125743	ENST00000587367	protein_coding	KNOWN	CCDS54281	11159	327	108	46190720	46195198	-1	SNRPD1	Sm-D2
19	SNRPD2	ENSG00000125743	ENST00000588599	protein_coding	KNOWN	CCDS54281	11159	327	108	46190721	46195029	-1	SNRPD1	Sm-D2
19	SNRPD2	ENSG00000125743	ENST00000391932	protein_coding	KNOWN	CCDS54281	11159	327	108	46190721	46195199	-1	SNRPD1	Sm-D2
19	SNRPD2	ENSG00000125743	ENST00000588301	protein_coding	KNOWN	CCDS33053	11159	357	118	46190721	46195574	-1	SNRPD1	Sm-D2
19	SNRPD2	ENSG00000125743	ENST00000590212	protein_coding	PUTATIVE	None	11159	237	78	46190769	46195175	-1	SNRPD1	Sm-D2
19	SNRPD2	ENSG00000125743	ENST00000587579	processed_transcript	KNOWN	None	11159	None	None	46195412	46195827	-1	SNRPD1	Sm-D2
12	None	ENSG00000212594	ENST00000391292	snoRNA	NOVEL	None	None	None	None	103985890	103986021	1	None	None
22	None	ENSG00000230107	ENST00000428765	lincRNA	KNOWN	None	None	None	None	42834029	42842201	1	None	None
1	None	ENSG00000271428	ENST00000604049	processed_pseudogene	KNOWN	None	None	None	None	22394833	22395320	-1	None	None
HSCHR6_MHC_COX	None	ENSG00000264692	ENST00000494551	misc_RNA	NOVEL	None	None	None	None	31360424	31360522	-1	None	None
1	None	ENSG00000271840	ENST00000606754	lincRNA	KNOWN	None	None	None	None	22427106	22427853	1	None	None
HSCHR6_MHC_COX	None	ENSG00000257192	ENST00000550725	pseudogene	NOVEL	None	None	None	None	31376218	31376551	1	None	None
1	MIR4418	ENSG00000266564	ENST00000581169	miRNA	KNOWN	None	41789	None	None	22592732	22592793	1	None	hsa-mir-4418
HSCHR6_MHC_MCF	CDSN	ENSG00000237165	ENST00000457875	protein_coding	KNOWN	None	1802	1590	529	31161395	31166747	-1	None	D6S586E
3	HLTF	ENSG00000071794	ENST00000465259	protein_coding	NOVEL	None	11099	3027	1008	148747914	148804309	-1	SNF2L3, SMARCA3	HIP116A, HLTF1, RNF80
3	HLTF	ENSG00000071794	ENST00000310053	protein_coding	KNOWN	CCDS33875	11099	3030	1009	148747914	148804317	-1	SNF2L3, SMARCA3	HIP116A, HLTF1, RNF80
3	HLTF	ENSG00000071794	ENST00000392912	protein_coding	KNOWN	CCDS33875	11099	3030	1009	148748472	148804291	-1	SNF2L3, SMARCA3	HIP116A, HLTF1, RNF80
3	HLTF	ENSG00000071794	ENST00000494055	protein_coding	KNOWN	CCDS33875	11099	3030	1009	148748782	148804341	-1	SNF2L3, SMARCA3	HIP116A, HLTF1, RNF80
3	HLTF	ENSG00000071794	ENST00000467858	protein_coding	NOVEL	None	11099	1276	424	148752710	148768027	-1	SNF2L3, SMARCA3	HIP116A, HLTF1, RNF80
3	HLTF	ENSG00000071794	ENST00000472830	retained_intron	KNOWN	None	11099	None	None	148752776	148758046	-1	SNF2L3, SMARCA3	HIP116A, HLTF1, RNF80
3	HLTF	ENSG00000071794	ENST00000497427	retained_intron	KNOWN	None	11099	None	None	148757929	148759831	-1	SNF2L3, SMARCA3	HIP116A, HLTF1, RNF80
3	HLTF	ENSG00000071794	ENST00000493881	processed_transcript	KNOWN	None	11099	None	None	148768057	148778587	-1	SNF2L3, SMARCA3	HIP116A, HLTF1, RNF80
3	HLTF	ENSG00000071794	ENST00000481663	processed_transcript	PUTATIVE	None	11099	None	None	148801419	148804292	-1	SNF2L3, SMARCA3	HIP116A, HLTF1, RNF80
HSCHR6_MHC_COX	None	ENSG00000234858	ENST00000414257	processed_transcript	KNOWN	None	None	None	None	31399874	31405174	1	None	None
1	None	ENSG00000234397	ENST00000487348	processed_pseudogene	KNOWN	None	None	None	None	22649333	22649824	-1	None	None
11	OR8B7P	ENSG00000254976	ENST00000526868	unprocessed_pseudogene	KNOWN	None	8476	None	None	124194767	124195685	-1	OR8B13P	None
21	IFNGR2	ENSG00000159128	ENST00000290219	protein_coding	KNOWN	CCDS33544	5440	1014	337	34775202	34809828	1	IFNGT1	AF-1
21	IFNGR2	ENSG00000159128	ENST00000439213	nonsense_mediated_decay	KNOWN	None	5440	213	70	34775733	34804523	1	IFNGT1	AF-1
21	IFNGR2	ENSG00000159128	ENST00000381995	protein_coding	NOVEL	None	5440	1071	356	34775738	34809828	1	IFNGT1	AF-1
21	IFNGR2	ENSG00000159128	ENST00000545369	nonsense_mediated_decay	KNOWN	None	5440	114	37	34775747	34809251	1	IFNGT1	AF-1
21	IFNGR2	ENSG00000159128	ENST00000405436	protein_coding	PUTATIVE	None	5440	777	258	34775772	34809809	1	IFNGT1	AF-1
21	IFNGR2	ENSG00000159128	ENST00000421802	protein_coding	PUTATIVE	None	5440	182	59	34804626	34851655	1	IFNGT1	AF-1
1	ZBTB40-IT1	ENSG00000237200	ENST00000438551	sense_intronic	KNOWN	None	41493	None	None	22843967	22846201	1	None	None
11	LRP5	ENSG00000162337	ENST00000294304	protein_coding	KNOWN	CCDS8181	6697	4848	1615	68080077	68216743	1	LRP7, OPPG, EVR1	LR3, BMND1, HBM, OPS, OPTA1, VBCH2
11	LRP5	ENSG00000162337	ENST00000529993	nonsense_mediated_decay	KNOWN	None	6697	1416	471	68080152	68216740	1	LRP7, OPPG, EVR1	LR3, BMND1, HBM, OPS, OPTA1, VBCH2
11	LRP5	ENSG00000162337	ENST00000528890	retained_intron	KNOWN	None	6697	None	None	68171445	68174015	1	LRP7, OPPG, EVR1	LR3, BMND1, HBM, OPS, OPTA1, VBCH2
11	LRP5	ENSG00000162337	ENST00000528714	processed_transcript	PUTATIVE	None	6697	None	None	68177497	68180663	1	LRP7, OPPG, EVR1	LR3, BMND1, HBM, OPS, OPTA1, VBCH2
11	LRP5	ENSG00000162337	ENST00000533695	retained_intron	KNOWN	None	6697	None	None	68206061	68207421	1	LRP7, OPPG, EVR1	LR3, BMND1, HBM, OPS, OPTA1, VBCH2
11	LRP5	ENSG00000162337	ENST00000529702	protein_coding	NOVEL	None	6697	518	171	68207341	68216606	1	LRP7, OPPG, EVR1	LR3, BMND1, HBM, OPS, OPTA1, VBCH2
11	LRP5	ENSG00000162337	ENST00000529481	processed_transcript	PUTATIVE	None	6697	None	None	68214449	68216650	1	LRP7, OPPG, EVR1	LR3, BMND1, HBM, OPS, OPTA1, VBCH2
HSCHR6_MHC_COX	HCP5	ENSG00000237105	ENST00000419355	processed_transcript	KNOWN	None	21659	None	None	31418402	31421036	1	None	D6S2650E, P5-1
HSCHR6_MHC_COX	HCP5	ENSG00000237105	ENST00000438873	processed_transcript	PUTATIVE	None	21659	None	None	31418412	31421036	1	None	D6S2650E, P5-1
2	None	ENSG00000218416	ENST00000471662	retained_intron	KNOWN	None	None	None	None	241388732	241390960	-1	None	None
2	None	ENSG00000218416	ENST00000404327	protein_coding	PUTATIVE	None	None	471	156	241388835	241396131	-1	None	None
2	None	ENSG00000218416	ENST00000404891	protein_coding	PUTATIVE	None	None	258	85	241388836	241396117	-1	None	None
20	PCNA	ENSG00000132646	ENST00000379143	protein_coding	KNOWN	CCDS13087	8729	786	261	5095599	5100672	-1	None	None
20	PCNA	ENSG00000132646	ENST00000379160	protein_coding	KNOWN	CCDS13087	8729	786	261	5095599	5107272	-1	None	None
11	C11orf45	ENSG00000174370	ENST00000310799	protein_coding	KNOWN	CCDS8478	28584	438	145	128769460	128775592	-1	None	MGC35558, FLJ43646
11	C11orf45	ENSG00000174370	ENST00000530168	processed_transcript	KNOWN	None	28584	None	None	128772315	128774405	-1	None	MGC35558, FLJ43646
11	C11orf45	ENSG00000174370	ENST00000524878	protein_coding	PUTATIVE	CCDS8478	28584	438	145	128772452	128775930	-1	None	MGC35558, FLJ43646
1	MIR4684	ENSG00000265422	ENST00000581646	miRNA	KNOWN	None	41695	None	None	23046010	23046091	1	None	hsa-mir-4684
22	SERHL	ENSG00000172250	ENST00000455578	retained_intron	KNOWN	None	14408	None	None	42896585	42908565	1	None	HS126B42, BK126B4.1, dJ222E13.1
22	SERHL	ENSG00000172250	ENST00000359906	antisense	KNOWN	None	14408	None	None	42896596	42908566	1	None	HS126B42, BK126B4.1, dJ222E13.1
22	SERHL	ENSG00000172250	ENST00000434218	retained_intron	KNOWN	None	14408	None	None	42897602	42898659	1	None	HS126B42, BK126B4.1, dJ222E13.1
22	SERHL	ENSG00000172250	ENST00000421475	processed_transcript	KNOWN	None	14408	None	None	42896631	42906658	1	None	HS126B42, BK126B4.1, dJ222E13.1
HSCHR5_1_CTG1	BDP1	ENSG00000261932	ENST00000573110	protein_coding	KNOWN	None	13652	7875	2624	69966745	70078950	1	TFNR, TAF3B1	TFIIIB150, TFC5, TFIIIB90, KIAA1689, HSA238520, KIAA1241
HSCHR5_1_CTG1	BDP1	ENSG00000261932	ENST00000575569	retained_intron	KNOWN	None	13652	None	None	69966816	70056607	1	TFNR, TAF3B1	TFIIIB150, TFC5, TFIIIB90, KIAA1689, HSA238520, KIAA1241
HSCHR5_1_CTG1	BDP1	ENSG00000261932	ENST00000573570	retained_intron	KNOWN	None	13652	None	None	70005595	70022480	1	TFNR, TAF3B1	TFIIIB150, TFC5, TFIIIB90, KIAA1689, HSA238520, KIAA1241
HSCHR5_1_CTG1	BDP1	ENSG00000261932	ENST00000571147	processed_transcript	PUTATIVE	None	13652	None	None	70015859	70037750	1	TFNR, TAF3B1	TFIIIB150, TFC5, TFIIIB90, KIAA1689, HSA238520, KIAA1241
HSCHR5_1_CTG1	BDP1	ENSG00000261932	ENST00000573713	nonsense_mediated_decay	KNOWN	None	13652	1751	582	70033923	70078950	1	TFNR, TAF3B1	TFIIIB150, TFC5, TFIIIB90, KIAA1689, HSA238520, KIAA1241
HSCHR5_1_CTG1	BDP1	ENSG00000261932	ENST00000573653	nonsense_mediated_decay	KNOWN	None	13652	1821	606	70043504	70078950	1	TFNR, TAF3B1	TFIIIB150, TFC5, TFIIIB90, KIAA1689, HSA238520, KIAA1241
1	None	ENSG00000216157	ENST00000401338	miRNA	NOVEL	None	None	None	None	23075310	23075404	-1	None	None
1	TNFRSF9	ENSG00000049249	ENST00000377507	protein_coding	KNOWN	CCDS92	11924	768	255	7979907	8000926	-1	ILA	CD137, 4-1BB
1	TNFRSF9	ENSG00000049249	ENST00000474475	protein_coding	PUTATIVE	None	11924	264	87	7981860	7995160	-1	ILA	CD137, 4-1BB
1	TNFRSF9	ENSG00000049249	ENST00000492571	nonsense_mediated_decay	KNOWN	None	11924	228	75	7993187	7998364	-1	ILA	CD137, 4-1BB
10	None	ENSG00000230761	ENST00000453853	lincRNA	KNOWN	None	None	None	None	46797868	46809021	-1	None	None
8	None	ENSG00000258724	ENST00000554914	protein_coding	PUTATIVE	None	None	1323	440	10582909	10697357	-1	None	None
11	NEU3	ENSG00000162139	ENST00000294064	protein_coding	KNOWN	CCDS44682	7760	1386	461	74699179	74718743	1	None	None
11	NEU3	ENSG00000162139	ENST00000531509	protein_coding	KNOWN	CCDS44682	7760	1386	461	74699324	74718129	1	None	None
11	NEU3	ENSG00000162139	ENST00000529024	protein_coding	PUTATIVE	None	7760	306	101	74699743	74729938	1	None	None
11	NEU3	ENSG00000162139	ENST00000526068	protein_coding	PUTATIVE	None	7760	177	58	74699970	74701208	1	None	None
11	NEU3	ENSG00000162139	ENST00000532963	protein_coding	PUTATIVE	None	7760	306	101	74699979	74717879	1	None	None
11	NEU3	ENSG00000162139	ENST00000531619	protein_coding	PUTATIVE	None	7760	420	139	74699988	74716514	1	None	None
11	NEU3	ENSG00000162139	ENST00000534628	protein_coding	PUTATIVE	None	7760	513	170	74699989	74706088	1	None	None
11	NEU3	ENSG00000162139	ENST00000544263	protein_coding	KNOWN	None	7760	1287	428	74699743	74718129	1	None	None
11	NEU3	ENSG00000162139	ENST00000545272	protein_coding	KNOWN	None	7760	1059	352	74699990	74717879	1	None	None
1	None	ENSG00000225952	ENST00000419644	antisense	KNOWN	None	None	None	None	23162206	23163342	-1	None	None
9	ZER1	ENSG00000160445	ENST00000291900	protein_coding	KNOWN	CCDS6910	30960	2301	766	131492065	131534172	-1	C9orf60, ZYG11BL	ZYG, Hzyg
9	ZER1	ENSG00000160445	ENST00000494461	processed_transcript	KNOWN	None	30960	None	None	131515597	131533967	-1	C9orf60, ZYG11BL	ZYG, Hzyg
9	ZER1	ENSG00000160445	ENST00000414921	protein_coding	KNOWN	None	30960	494	163	131515695	131534220	-1	C9orf60, ZYG11BL	ZYG, Hzyg
9	ZER1	ENSG00000160445	ENST00000427848	protein_coding	KNOWN	None	30960	303	100	131516094	131534693	-1	C9orf60, ZYG11BL	ZYG, Hzyg
6	PEX6	ENSG00000124587	ENST00000304611	protein_coding	KNOWN	CCDS4877	8859	2943	980	42931608	42946958	-1	None	PXAAA1, PAF-2
6	PEX6	ENSG00000124587	ENST00000244546	protein_coding	KNOWN	None	8859	2217	738	42932073	42946888	-1	None	PXAAA1, PAF-2
1	LACTBL1	ENSG00000215906	ENST00000426928	protein_coding	PUTATIVE	None	35445	1641	546	23279536	23291831	-1	None	None
19	RN7SL345P	ENSG00000264835	ENST00000577762	misc_RNA	KNOWN	None	46361	None	None	49187292	49187563	1	None	None
Y	TTTY9A	ENSG00000131009	ENST00000432335	processed_transcript	KNOWN	None	18490	None	None	20891768	20901083	1	TTTY9	TTY9, NCRNA00131
1	MIR4253	ENSG00000264014	ENST00000581187	miRNA	KNOWN	None	38231	None	None	23189652	23189719	-1	None	hsa-mir-4253
10	None	ENSG00000222666	ENST00000410734	snoRNA	NOVEL	None	None	None	None	28696969	28697180	-1	None	None
19	RNU6-317P	ENSG00000206758	ENST00000384031	snRNA	KNOWN	None	47280	None	None	49296409	49296515	-1	None	None
5	None	ENSG00000251554	ENST00000509010	lincRNA	KNOWN	None	None	None	None	124731072	124731673	-1	None	None
10	None	ENSG00000237128	ENST00000421132	lincRNA	KNOWN	None	None	None	None	28721937	28784742	-1	None	None
1	None	ENSG00000240553	ENST00000427154	antisense	KNOWN	None	None	None	None	23346640	23414551	-1	None	None
19	NUCB1-AS1	ENSG00000235191	ENST00000416432	antisense	KNOWN	None	40419	None	None	49414187	49422148	-1	None	None
16	None	ENSG00000260488	ENST00000570197	antisense	KNOWN	None	None	None	None	12070708	12071707	-1	None	None
10	FAM35BP	ENSG00000165874	ENST00000497389	transcribed_unprocessed_pseudogene	KNOWN	None	31425	None	None	46897592	46939143	1	FAM35B	bA38L15.1
10	FAM35BP	ENSG00000165874	ENST00000475914	processed_transcript	KNOWN	None	31425	None	None	46914472	46923688	1	FAM35B	bA38L15.1
10	FAM35BP	ENSG00000165874	ENST00000539388	unprocessed_pseudogene	KNOWN	None	31425	None	None	46914587	46938619	1	FAM35B	bA38L15.1
12	None	ENSG00000257737	ENST00000551905	antisense	KNOWN	None	None	None	None	104048558	104051773	-1	None	None
8	None	ENSG00000253410	ENST00000519311	transcribed_processed_pseudogene	KNOWN	None	None	None	None	124205115	124205172	1	None	None
1	MIR3115	ENSG00000263793	ENST00000577915	miRNA	KNOWN	None	38371	None	None	23370798	23370865	1	None	hsa-mir-3115
5	None	ENSG00000260192	ENST00000564199	lincRNA	KNOWN	None	None	None	None	124828954	124937920	1	None	None
19	WDR83	ENSG00000123154	ENST00000418543	protein_coding	KNOWN	CCDS12275	32672	948	315	12777614	12786646	1	None	MORG1
19	WDR83	ENSG00000123154	ENST00000546754	retained_intron	KNOWN	None	32672	None	None	12777616	12786605	1	None	MORG1
19	WDR83	ENSG00000123154	ENST00000548381	nonsense_mediated_decay	KNOWN	None	32672	216	71	12777628	12786645	1	None	MORG1
19	WDR83	ENSG00000123154	ENST00000553179	nonsense_mediated_decay	KNOWN	None	32672	216	71	12777644	12784025	1	None	MORG1
19	WDR83	ENSG00000123154	ENST00000547255	retained_intron	KNOWN	None	32672	None	None	12780367	12784119	1	None	MORG1
19	WDR83	ENSG00000123154	ENST00000547481	nonsense_mediated_decay	KNOWN	None	32672	462	153	12780569	12784082	1	None	MORG1
19	WDR83	ENSG00000123154	ENST00000550939	retained_intron	KNOWN	None	32672	None	None	12780572	12781580	1	None	MORG1
19	WDR83	ENSG00000123154	ENST00000551329	retained_intron	KNOWN	None	32672	None	None	12780583	12783692	1	None	MORG1
19	WDR83	ENSG00000123154	ENST00000425834	nonsense_mediated_decay	KNOWN	None	32672	225	74	12780823	12786624	1	None	MORG1
19	WDR83	ENSG00000123154	ENST00000547797	protein_coding	NOVEL	None	32672	632	209	12781062	12786375	1	None	MORG1
19	WDR83	ENSG00000123154	ENST00000552700	retained_intron	KNOWN	None	32672	None	None	12783087	12786378	1	None	MORG1
19	WDR83	ENSG00000123154	ENST00000242796	protein_coding	KNOWN	CCDS12275	32672	948	315	12780517	12786645	1	None	MORG1
8	FAM83A-AS1	ENSG00000204949	ENST00000520576	antisense	KNOWN	None	48658	None	None	124213412	124214983	-1	None	HCCC11
8	FAM83A-AS1	ENSG00000204949	ENST00000517519	antisense	KNOWN	None	48658	None	None	124213412	124214983	-1	None	HCCC11
8	FAM83A-AS1	ENSG00000204949	ENST00000523330	antisense	KNOWN	None	48658	None	None	124213412	124214983	-1	None	HCCC11
1	MIR4419A	ENSG00000266802	ENST00000583845	miRNA	KNOWN	None	41828	None	None	23384351	23384427	-1	None	hsa-mir-4419a
HSCHR6_MHC_COX	None	ENSG00000264846	ENST00000577383	misc_RNA	NOVEL	None	None	None	None	31451933	31452034	-1	None	None
19	None	ENSG00000260366	ENST00000569130	sense_overlapping	KNOWN	None	None	None	None	49429428	49429701	1	None	None
16	RPS23P6	ENSG00000241641	ENST00000466136	processed_pseudogene	KNOWN	None	36511	None	None	12175094	12175759	1	None	None
1	C1orf234	ENSG00000227868	ENST00000440767	protein_coding	NOVEL	None	44651	442	146	23337327	23340517	-1	None	None
1	C1orf234	ENSG00000227868	ENST00000566855	protein_coding	NOVEL	CCDS57978	44651	366	121	23337327	23342343	-1	None	None
10	None	ENSG00000224439	ENST00000426103	processed_pseudogene	KNOWN	None	None	None	None	28725130	28726007	1	None	None
1	None	ENSG00000229010	ENST00000450968	processed_pseudogene	KNOWN	None	None	None	None	23466818	23467635	1	None	None
HSCHR6_MHC_MCF	PSORS1C2	ENSG00000227246	ENST00000413924	protein_coding	KNOWN	None	17199	411	136	31183859	31185675	-1	C6orf17	SPR1
8	None	ENSG00000255164	ENST00000530223	antisense	KNOWN	None	None	None	None	146218300	146220223	1	None	None
15	None	ENSG00000259760	ENST00000559569	antisense	KNOWN	None	None	None	None	99936818	99941520	-1	None	None
5	None	ENSG00000249950	ENST00000511727	processed_pseudogene	KNOWN	None	None	None	None	125198439	125198886	-1	None	None
15	None	ENSG00000259341	ENST00000560103	lincRNA	KNOWN	None	None	None	None	99967214	99971233	-1	None	None
3	None	ENSG00000239880	ENST00000493579	processed_pseudogene	KNOWN	None	None	None	None	180040895	180042847	1	None	None
1	RNU6-514P	ENSG00000206935	ENST00000384208	snRNA	KNOWN	None	47477	None	None	23489197	23489303	1	None	None
14	TEX22	ENSG00000226174	ENST00000548638	nonsense_mediated_decay	KNOWN	None	40026	192	63	105864916	105916443	1	None	None
14	TEX22	ENSG00000226174	ENST00000451127	protein_coding	PUTATIVE	CCDS53916	40026	453	150	105864920	105880196	1	None	None
6	HSD17B8	ENSG00000204228	ENST00000374662	protein_coding	KNOWN	CCDS4769	3554	786	261	33172419	33174608	1	FABGL	HKE6, D6S2245E, RING2, KE6, H2-KE6, SDR30C1
6	HSD17B8	ENSG00000204228	ENST00000469186	processed_transcript	KNOWN	None	3554	None	None	33172463	33174226	1	FABGL	HKE6, D6S2245E, RING2, KE6, H2-KE6, SDR30C1
8	MIR4663	ENSG00000266324	ENST00000582039	miRNA	KNOWN	None	41623	None	None	124228028	124228103	-1	None	hsa-mir-4663
5	None	ENSG00000249904	ENST00000505809	processed_pseudogene	KNOWN	None	None	None	None	125221978	125222446	-1	None	None
1	RNU6-135P	ENSG00000252578	ENST00000516769	snRNA	KNOWN	None	47098	None	None	23490446	23490546	1	None	None
11	C2CD2L	ENSG00000172375	ENST00000534024	processed_transcript	PUTATIVE	None	29000	None	None	118972908	118978406	1	TMEM24	KIAA0285
11	C2CD2L	ENSG00000172375	ENST00000528271	processed_transcript	PUTATIVE	None	29000	None	None	118977425	118978256	1	TMEM24	KIAA0285
11	C2CD2L	ENSG00000172375	ENST00000529600	processed_transcript	PUTATIVE	None	29000	None	None	118977452	118978286	1	TMEM24	KIAA0285
11	C2CD2L	ENSG00000172375	ENST00000529885	processed_transcript	PUTATIVE	None	29000	None	None	118977460	118978406	1	TMEM24	KIAA0285
11	C2CD2L	ENSG00000172375	ENST00000527854	processed_transcript	PUTATIVE	None	29000	None	None	118977652	118978468	1	TMEM24	KIAA0285
11	C2CD2L	ENSG00000172375	ENST00000336702	protein_coding	KNOWN	CCDS8413	29000	2124	707	118978093	118989252	1	TMEM24	KIAA0285
11	C2CD2L	ENSG00000172375	ENST00000529874	retained_intron	KNOWN	None	29000	None	None	118980813	118984844	1	TMEM24	KIAA0285
11	C2CD2L	ENSG00000172375	ENST00000525598	retained_intron	KNOWN	None	29000	None	None	118981297	118987831	1	TMEM24	KIAA0285
11	C2CD2L	ENSG00000172375	ENST00000528586	protein_coding	PUTATIVE	None	29000	1176	391	118981767	118987831	1	TMEM24	KIAA0285
11	C2CD2L	ENSG00000172375	ENST00000533458	retained_intron	KNOWN	None	29000	None	None	118982271	118983999	1	TMEM24	KIAA0285
8	TMED10P1	ENSG00000254618	ENST00000534816	processed_pseudogene	KNOWN	None	30754	None	None	146220272	146220926	1	TMED10P	Tmp21-II
16	None	ENSG00000263343	ENST00000575892	processed_pseudogene	KNOWN	None	None	None	None	31176969	31177248	1	None	None
Y	GPM6BP2	ENSG00000236429	ENST00000432046	unprocessed_pseudogene	KNOWN	None	38781	None	None	20903729	20903872	-1	None	None
8	UBA52P5	ENSG00000243498	ENST00000461723	processed_pseudogene	KNOWN	None	36993	None	None	124249092	124249302	1	None	None
1	None	ENSG00000215381	ENST00000442089	processed_pseudogene	KNOWN	None	None	None	None	23571258	23571717	1	None	None
HSCHR6_MHC_COX	PPIAP9	ENSG00000236415	ENST00000443635	processed_pseudogene	KNOWN	None	9272	None	None	31474726	31475537	-1	PPIP9	Em:AC006046.3
1	GPA33	ENSG00000143167	ENST00000527955	processed_transcript	KNOWN	None	4445	None	None	167022073	167047956	-1	None	A33
1	GPA33	ENSG00000143167	ENST00000367868	protein_coding	KNOWN	CCDS1258	4445	960	319	167022073	167059868	-1	None	A33
1	GPA33	ENSG00000143167	ENST00000534512	nonsense_mediated_decay	KNOWN	None	4445	246	81	167032927	167059563	-1	None	A33
15	RPL7P5	ENSG00000241562	ENST00000471472	processed_pseudogene	KNOWN	None	28886	None	None	100091587	100092322	-1	None	None
Y	None	ENSG00000248395	ENST00000505047	processed_transcript	KNOWN	None	None	None	None	20934594	20990548	-1	None	None
16	NDUFA3P6	ENSG00000262366	ENST00000571486	processed_pseudogene	KNOWN	None	45055	None	None	31185894	31186143	1	None	None
8	RNU6-628P	ENSG00000222607	ENST00000410675	snRNA	KNOWN	None	47591	None	None	124275083	124275189	1	None	None
1	EVI5	ENSG00000067208	ENST00000370331	protein_coding	KNOWN	CCDS30774	3501	2433	810	92974253	93257961	-1	None	NB4S
1	EVI5	ENSG00000067208	ENST00000491940	processed_transcript	KNOWN	None	3501	None	None	93029199	93131512	-1	None	NB4S
1	EVI5	ENSG00000067208	ENST00000492513	processed_transcript	KNOWN	None	3501	None	None	93073006	93091491	-1	None	NB4S
1	EVI5	ENSG00000067208	ENST00000468580	processed_transcript	KNOWN	None	3501	None	None	93073173	93142734	-1	None	NB4S
1	EVI5	ENSG00000067208	ENST00000492613	processed_transcript	KNOWN	None	3501	None	None	93091247	93142775	-1	None	NB4S
1	EVI5	ENSG00000067208	ENST00000474806	processed_transcript	KNOWN	None	3501	None	None	93169415	93250663	-1	None	NB4S
1	EVI5	ENSG00000067208	ENST00000466778	processed_transcript	KNOWN	None	3501	None	None	93202117	93250523	-1	None	NB4S
1	EVI5	ENSG00000067208	ENST00000540033	protein_coding	KNOWN	CCDS30774	3501	2433	810	92974260	93257961	-1	None	NB4S
1	EVI5	ENSG00000067208	ENST00000543509	protein_coding	KNOWN	None	3501	2466	821	92979213	93257951	-1	None	NB4S
1	None	ENSG00000261326	ENST00000566551	lincRNA	KNOWN	None	None	None	None	23607802	23613245	-1	None	None
1	None	ENSG00000261326	ENST00000604481	lincRNA	KNOWN	None	None	None	None	23610849	23611947	-1	None	None
8	None	ENSG00000238422	ENST00000458773	snoRNA	NOVEL	None	None	None	None	124278882	124278985	-1	None	None
2	TFCP2L1	ENSG00000115112	ENST00000263707	protein_coding	KNOWN	CCDS2134	17925	1440	479	121974163	122042783	-1	None	LBP-9, CRTR1
2	TFCP2L1	ENSG00000115112	ENST00000464621	retained_intron	KNOWN	None	17925	None	None	121981740	121991850	-1	None	LBP-9, CRTR1
8	ZNF252P-AS1	ENSG00000255559	ENST00000527067	antisense	KNOWN	None	27821	None	None	146228197	146231432	1	C8orf77	None
7	None	ENSG00000201565	ENST00000364695	misc_RNA	NOVEL	None	None	None	None	66762640	66762741	-1	None	None
9	PTGER4P3	ENSG00000239684	ENST00000458150	processed_pseudogene	KNOWN	None	38498	None	None	68371626	68371877	-1	None	None
16	None	ENSG00000260304	ENST00000564743	antisense	KNOWN	None	None	None	None	31193832	31194606	-1	None	None
8	None	ENSG00000253336	ENST00000523778	processed_pseudogene	KNOWN	None	None	None	None	124300595	124302743	1	None	None
1	None	ENSG00000201405	ENST00000364535	misc_RNA	KNOWN	None	None	None	None	23696747	23696839	1	None	None
16	None	ENSG00000260060	ENST00000565152	antisense	KNOWN	None	None	None	None	31207452	31208284	1	None	None
6	EYS	ENSG00000188107	ENST00000503581	protein_coding	KNOWN	CCDS47445	21555	9435	3144	64429876	66417118	-1	C6orf180, EGFL11, RP25, EGFL10, C6orf178, C6orf179	dJ1018A4.2, bA166P24.2, SPAM, bA307F22.3, dJ303F19.1, bA74E24.1
6	EYS	ENSG00000188107	ENST00000370621	protein_coding	KNOWN	None	21555	9498	3165	64430032	66417107	-1	C6orf180, EGFL11, RP25, EGFL10, C6orf178, C6orf179	dJ1018A4.2, bA166P24.2, SPAM, bA307F22.3, dJ303F19.1, bA74E24.1
6	EYS	ENSG00000188107	ENST00000398580	protein_coding	PUTATIVE	None	21555	1420	472	64454004	64776269	-1	C6orf180, EGFL11, RP25, EGFL10, C6orf178, C6orf179	dJ1018A4.2, bA166P24.2, SPAM, bA307F22.3, dJ303F19.1, bA74E24.1
6	EYS	ENSG00000188107	ENST00000486069	processed_transcript	KNOWN	None	21555	None	None	64495896	64516133	-1	C6orf180, EGFL11, RP25, EGFL10, C6orf178, C6orf179	dJ1018A4.2, bA166P24.2, SPAM, bA307F22.3, dJ303F19.1, bA74E24.1
6	EYS	ENSG00000188107	ENST00000330816	processed_transcript	PUTATIVE	None	21555	None	None	65303024	65423228	-1	C6orf180, EGFL11, RP25, EGFL10, C6orf178, C6orf179	dJ1018A4.2, bA166P24.2, SPAM, bA307F22.3, dJ303F19.1, bA74E24.1
6	EYS	ENSG00000188107	ENST00000370615	processed_transcript	PUTATIVE	None	21555	None	None	66005650	66012904	-1	C6orf180, EGFL11, RP25, EGFL10, C6orf178, C6orf179	dJ1018A4.2, bA166P24.2, SPAM, bA307F22.3, dJ303F19.1, bA74E24.1
6	EYS	ENSG00000188107	ENST00000447127	processed_transcript	PUTATIVE	None	21555	None	None	66005718	66012830	-1	C6orf180, EGFL11, RP25, EGFL10, C6orf178, C6orf179	dJ1018A4.2, bA166P24.2, SPAM, bA307F22.3, dJ303F19.1, bA74E24.1
6	EYS	ENSG00000188107	ENST00000393380	protein_coding	NOVEL	CCDS47446	21555	1860	619	66039165	66417118	-1	C6orf180, EGFL11, RP25, EGFL10, C6orf178, C6orf179	dJ1018A4.2, bA166P24.2, SPAM, bA307F22.3, dJ303F19.1, bA74E24.1
6	EYS	ENSG00000188107	ENST00000342421	protein_coding	NOVEL	CCDS4967	21555	1785	594	66044803	66205886	-1	C6orf180, EGFL11, RP25, EGFL10, C6orf178, C6orf179	dJ1018A4.2, bA166P24.2, SPAM, bA307F22.3, dJ303F19.1, bA74E24.1
6	EYS	ENSG00000188107	ENST00000489873	retained_intron	KNOWN	None	21555	None	None	66199254	66417107	-1	C6orf180, EGFL11, RP25, EGFL10, C6orf178, C6orf179	dJ1018A4.2, bA166P24.2, SPAM, bA307F22.3, dJ303F19.1, bA74E24.1
6	EYS	ENSG00000188107	ENST00000471279	nonsense_mediated_decay	KNOWN	None	21555	459	152	66200553	66205891	-1	C6orf180, EGFL11, RP25, EGFL10, C6orf178, C6orf179	dJ1018A4.2, bA166P24.2, SPAM, bA307F22.3, dJ303F19.1, bA74E24.1
6	EYS	ENSG00000188107	ENST00000370616	protein_coding	KNOWN	None	21555	9498	3165	64430492	66205303	-1	C6orf180, EGFL11, RP25, EGFL10, C6orf178, C6orf179	dJ1018A4.2, bA166P24.2, SPAM, bA307F22.3, dJ303F19.1, bA74E24.1
6	EYS	ENSG00000188107	ENST00000370618	protein_coding	KNOWN	CCDS4967	21555	1785	594	66044854	66417107	-1	C6orf180, EGFL11, RP25, EGFL10, C6orf178, C6orf179	dJ1018A4.2, bA166P24.2, SPAM, bA307F22.3, dJ303F19.1, bA74E24.1
12	None	ENSG00000257766	ENST00000550175	antisense	KNOWN	None	None	None	None	104062353	104063184	-1	None	None
16	None	ENSG00000261925	ENST00000576745	lincRNA	KNOWN	None	None	None	None	31237281	31238481	1	None	None
15	None	ENSG00000201724	ENST00000364854	misc_RNA	NOVEL	None	None	None	None	100221991	100222082	-1	None	None
8	OC90	ENSG00000253117	ENST00000254627	protein_coding	KNOWN	CCDS47919	8100	1434	477	133036467	133071627	-1	PLA2L	None
15	None	ENSG00000221691	ENST00000408764	miRNA	NOVEL	None	None	None	None	100291924	100292010	1	None	None
9	None	ENSG00000225411	ENST00000417843	lincRNA	KNOWN	None	None	None	None	68397878	68409893	-1	None	None
13	SERTM1	ENSG00000180440	ENST00000315190	protein_coding	KNOWN	CCDS9358	33792	324	107	37248049	37271976	1	C13orf36	None
1	None	ENSG00000271420	ENST00000605350	lincRNA	KNOWN	None	None	None	None	23704873	23705522	-1	None	None
5	None	ENSG00000270989	ENST00000604368	processed_pseudogene	KNOWN	None	None	None	None	175630317	175630713	-1	None	None
7	STAG3L4	ENSG00000106610	ENST00000416602	processed_transcript	KNOWN	None	33887	None	None	66767608	66786513	1	None	FLJ13195, STAG3L4P
7	STAG3L4	ENSG00000106610	ENST00000472361	retained_intron	KNOWN	None	33887	None	None	66767646	66774702	1	None	FLJ13195, STAG3L4P
7	STAG3L4	ENSG00000106610	ENST00000352103	transcribed_unprocessed_pseudogene	KNOWN	None	33887	None	None	66770974	66774702	1	None	FLJ13195, STAG3L4P
8	None	ENSG00000255530	ENST00000525753	processed_pseudogene	KNOWN	None	None	None	None	146230947	146231292	-1	None	None
X	None	ENSG00000206646	ENST00000383919	misc_RNA	NOVEL	None	None	None	None	67580917	67581029	1	None	None
16	RNU7-199P	ENSG00000252876	ENST00000517067	snRNA	KNOWN	None	45733	None	None	31278758	31278812	-1	None	None
9	RNA5SP284	ENSG00000207277	ENST00000384547	rRNA	KNOWN	None	43184	None	None	68408924	68409041	1	RN5S284	None
1	None	ENSG00000232482	ENST00000445848	processed_pseudogene	KNOWN	None	None	None	None	23737325	23738639	1	None	None
6	TNXB	ENSG00000168477	ENST00000375244	protein_coding	PUTATIVE	None	11976	12735	4244	32008931	32077151	-1	TNXB1, TNXB2	TNXBS, XBS, XB
6	TNXB	ENSG00000168477	ENST00000451343	protein_coding	KNOWN	CCDS4736	11976	2022	673	32008932	32013905	-1	TNXB1, TNXB2	TNXBS, XBS, XB
6	TNXB	ENSG00000168477	ENST00000490077	retained_intron	KNOWN	None	11976	None	None	32008932	32014384	-1	TNXB1, TNXB2	TNXBS, XBS, XB
6	TNXB	ENSG00000168477	ENST00000498094	retained_intron	KNOWN	None	11976	None	None	32010043	32011229	-1	TNXB1, TNXB2	TNXBS, XBS, XB
6	TNXB	ENSG00000168477	ENST00000479795	protein_coding	PUTATIVE	None	11976	2529	842	32060991	32077090	-1	TNXB1, TNXB2	TNXBS, XBS, XB
6	TNXB	ENSG00000168477	ENST00000486148	retained_intron	KNOWN	None	11976	None	None	32063356	32076998	-1	TNXB1, TNXB2	TNXBS, XBS, XB
6	TNXB	ENSG00000168477	ENST00000442721	protein_coding	PUTATIVE	None	11976	23	6	32065953	32083111	-1	TNXB1, TNXB2	TNXBS, XBS, XB
6	TNXB	ENSG00000168477	ENST00000375247	protein_coding	KNOWN	None	11976	12729	4242	32008932	32077151	-1	TNXB1, TNXB2	TNXBS, XBS, XB
X	None	ENSG00000225925	ENST00000450604	processed_pseudogene	KNOWN	None	None	None	None	67694552	67696716	1	None	None
5	None	ENSG00000251667	ENST00000508559	processed_pseudogene	KNOWN	None	None	None	None	175735066	175736016	1	None	None
9	None	ENSG00000232815	ENST00000455245	unprocessed_pseudogene	KNOWN	None	None	None	None	68413482	68414196	-1	None	None
13	None	ENSG00000271652	ENST00000605764	processed_pseudogene	KNOWN	None	None	None	None	54690611	54690986	1	None	None
9	MIR4477A	ENSG00000266017	ENST00000581659	miRNA	KNOWN	None	41859	None	None	68415308	68415388	1	None	hsa-mir-4477a
9	MIR4477B	ENSG00000266017	ENST00000581659	miRNA	KNOWN	None	41898	None	None	68415308	68415388	1	None	hsa-mir-4477b
15	DNM1P46	ENSG00000182397	ENST00000341853	processed_transcript	KNOWN	None	35199	None	None	100330361	100347132	-1	DNM1DN14@, C15orf51	DNM1DN14.2, FLJ45937, DKFZp434I1020
15	DNM1P46	ENSG00000182397	ENST00000561042	processed_transcript	KNOWN	None	35199	None	None	100330989	100347114	-1	DNM1DN14@, C15orf51	DNM1DN14.2, FLJ45937, DKFZp434I1020
15	DNM1P46	ENSG00000182397	ENST00000559110	processed_transcript	KNOWN	None	35199	None	None	100331042	100347100	-1	DNM1DN14@, C15orf51	DNM1DN14.2, FLJ45937, DKFZp434I1020
15	DNM1P46	ENSG00000182397	ENST00000415963	transcribed_unprocessed_pseudogene	KNOWN	None	35199	None	None	100338328	100341384	-1	DNM1DN14@, C15orf51	DNM1DN14.2, FLJ45937, DKFZp434I1020
15	DNM1P46	ENSG00000182397	ENST00000425045	processed_transcript	KNOWN	None	35199	None	None	100340134	100345136	-1	DNM1DN14@, C15orf51	DNM1DN14.2, FLJ45937, DKFZp434I1020
3	NDUFB5	ENSG00000136521	ENST00000488002	retained_intron	KNOWN	None	7700	None	None	179322478	179335206	1	None	SGDH, CI-SGDH, MGC12314
3	NDUFB5	ENSG00000136521	ENST00000259037	protein_coding	KNOWN	CCDS3234	7700	570	189	179322490	179342285	1	None	SGDH, CI-SGDH, MGC12314
3	NDUFB5	ENSG00000136521	ENST00000493866	protein_coding	NOVEL	CCDS56297	7700	414	137	179322579	179345435	1	None	SGDH, CI-SGDH, MGC12314
3	NDUFB5	ENSG00000136521	ENST00000472629	protein_coding	NOVEL	None	7700	534	177	179322589	179342023	1	None	SGDH, CI-SGDH, MGC12314
3	NDUFB5	ENSG00000136521	ENST00000468210	nonsense_mediated_decay	KNOWN	None	7700	201	66	179322597	179342164	1	None	SGDH, CI-SGDH, MGC12314
3	NDUFB5	ENSG00000136521	ENST00000359944	nonsense_mediated_decay	KNOWN	None	7700	129	42	179322599	179342288	1	None	SGDH, CI-SGDH, MGC12314
3	NDUFB5	ENSG00000136521	ENST00000477177	retained_intron	KNOWN	None	7700	None	None	179322604	179333196	1	None	SGDH, CI-SGDH, MGC12314
3	NDUFB5	ENSG00000136521	ENST00000482604	protein_coding	NOVEL	None	7700	620	205	179322614	179341879	1	None	SGDH, CI-SGDH, MGC12314
3	NDUFB5	ENSG00000136521	ENST00000480374	nonsense_mediated_decay	KNOWN	None	7700	303	100	179322629	179342055	1	None	SGDH, CI-SGDH, MGC12314
3	NDUFB5	ENSG00000136521	ENST00000496904	processed_transcript	PUTATIVE	None	7700	None	None	179322678	179336265	1	None	SGDH, CI-SGDH, MGC12314
3	NDUFB5	ENSG00000136521	ENST00000473500	processed_transcript	KNOWN	None	7700	None	None	179322695	179342139	1	None	SGDH, CI-SGDH, MGC12314
3	NDUFB5	ENSG00000136521	ENST00000491054	retained_intron	KNOWN	None	7700	None	None	179332994	179336310	1	None	SGDH, CI-SGDH, MGC12314
3	NDUFB5	ENSG00000136521	ENST00000471112	protein_coding	PUTATIVE	None	7700	171	56	179333795	179342286	1	None	SGDH, CI-SGDH, MGC12314
3	NDUFB5	ENSG00000136521	ENST00000476587	retained_intron	KNOWN	None	7700	None	None	179334763	179342165	1	None	SGDH, CI-SGDH, MGC12314
3	NDUFB5	ENSG00000136521	ENST00000493716	retained_intron	KNOWN	None	7700	None	None	179336015	179341888	1	None	SGDH, CI-SGDH, MGC12314
1	None	ENSG00000235052	ENST00000451217	lincRNA	KNOWN	None	None	None	None	23875630	23877406	-1	None	None
11	OR8B6P	ENSG00000255225	ENST00000525146	unprocessed_pseudogene	KNOWN	None	8475	None	None	124208679	124209558	-1	None	None
8	PINX1	ENSG00000254093	ENST00000314787	protein_coding	KNOWN	CCDS47801	30046	987	328	10622473	10697386	-1	None	PinX1, LPTL, LPTS, FLJ20565, MGC8850
8	PINX1	ENSG00000254093	ENST00000519088	protein_coding	KNOWN	None	30046	525	174	10622669	10697386	-1	None	PinX1, LPTL, LPTS, FLJ20565, MGC8850
8	PINX1	ENSG00000254093	ENST00000524114	protein_coding	PUTATIVE	None	30046	595	197	10623333	10697281	-1	None	PinX1, LPTL, LPTS, FLJ20565, MGC8850
8	PINX1	ENSG00000254093	ENST00000523559	nonsense_mediated_decay	KNOWN	None	30046	405	134	10623365	10697386	-1	None	PinX1, LPTL, LPTS, FLJ20565, MGC8850
8	PINX1	ENSG00000254093	ENST00000524061	nonsense_mediated_decay	KNOWN	None	30046	59	18	10645032	10683679	-1	None	PinX1, LPTL, LPTS, FLJ20565, MGC8850
8	PINX1	ENSG00000254093	ENST00000517607	processed_transcript	KNOWN	None	30046	None	None	10679370	10690494	-1	None	PinX1, LPTL, LPTS, FLJ20565, MGC8850
8	PINX1	ENSG00000254093	ENST00000520018	processed_transcript	KNOWN	None	30046	None	None	10690401	10697350	-1	None	PinX1, LPTL, LPTS, FLJ20565, MGC8850
8	PINX1	ENSG00000254093	ENST00000524026	retained_intron	KNOWN	None	30046	None	None	10691862	10697394	-1	None	PinX1, LPTL, LPTS, FLJ20565, MGC8850
8	PINX1	ENSG00000254093	ENST00000426190	protein_coding	KNOWN	None	30046	519	172	10622475	10697386	-1	None	PinX1, LPTL, LPTS, FLJ20565, MGC8850
16	None	ENSG00000261245	ENST00000561830	unprocessed_pseudogene	KNOWN	None	None	None	None	31372599	31373016	-1	None	None
13	RPL13AP25	ENSG00000136149	ENST00000484130	processed_pseudogene	KNOWN	None	36981	None	None	55014839	55015450	-1	None	None
9	None	ENSG00000215548	ENST00000376334	unprocessed_pseudogene	KNOWN	None	None	None	None	68427861	68455375	-1	None	None
1	None	ENSG00000229239	ENST00000451300	unprocessed_pseudogene	KNOWN	None	None	None	None	23996784	24006749	1	None	None
3	RHO	ENSG00000163914	ENST00000296271	protein_coding	KNOWN	CCDS3063	10012	1047	348	129247483	129254012	1	RP4	OPN2
13	RFXAP	ENSG00000133111	ENST00000255476	protein_coding	KNOWN	CCDS9359	9988	819	272	37393361	37403241	1	None	None
13	RFXAP	ENSG00000133111	ENST00000472888	processed_transcript	KNOWN	None	9988	None	None	37399563	37403234	1	None	None
1	None	ENSG00000203589	ENST00000366398	processed_pseudogene	KNOWN	None	None	None	None	24032291	24033424	-1	None	None
1	RN7SL532P	ENSG00000244609	ENST00000466184	misc_RNA	KNOWN	None	46548	None	None	24063100	24063380	-1	None	None
1	None	ENSG00000236810	ENST00000427796	antisense	KNOWN	None	None	None	None	24086872	24104777	-1	None	None
1	None	ENSG00000236810	ENST00000447961	antisense	KNOWN	None	None	None	None	24098101	24098887	-1	None	None
17	NOS2	ENSG00000007171	ENST00000313735	protein_coding	KNOWN	CCDS11223	7873	3462	1153	26083792	26127525	-1	NOS2A	iNOS, NOS, HEP-NOS
20	C20orf195	ENSG00000125531	ENST00000370098	protein_coding	KNOWN	CCDS13526	28764	957	318	62184373	62188061	1	None	MGC5356
20	C20orf195	ENSG00000125531	ENST00000370097	protein_coding	KNOWN	CCDS13526	28764	957	318	62185496	62188061	1	None	MGC5356
5	None	ENSG00000250909	ENST00000508187	antisense	KNOWN	None	None	None	None	175774944	175780587	1	None	None
14	CEP128	ENSG00000100629	ENST00000554502	nonsense_mediated_decay	KNOWN	None	20359	2039	678	80943330	81302680	-1	C14orf61, C14orf145	None
14	CEP128	ENSG00000100629	ENST00000556061	protein_coding	PUTATIVE	None	20359	481	159	80956822	81046769	-1	C14orf61, C14orf145	None
14	CEP128	ENSG00000100629	ENST00000555265	protein_coding	KNOWN	CCDS32130	20359	3285	1094	80962821	81408129	-1	C14orf61, C14orf145	None
14	CEP128	ENSG00000100629	ENST00000553717	processed_transcript	KNOWN	None	20359	None	None	80963840	80997344	-1	C14orf61, C14orf145	None
14	CEP128	ENSG00000100629	ENST00000557377	retained_intron	KNOWN	None	20359	None	None	80993028	80997304	-1	C14orf61, C14orf145	None
14	CEP128	ENSG00000100629	ENST00000554728	protein_coding	PUTATIVE	None	20359	420	139	81209099	81227936	-1	C14orf61, C14orf145	None
14	CEP128	ENSG00000100629	ENST00000554827	protein_coding	PUTATIVE	None	20359	908	301	81296509	81371272	-1	C14orf61, C14orf145	None
14	CEP128	ENSG00000100629	ENST00000216517	protein_coding	KNOWN	None	20359	1308	435	81296509	81408031	-1	C14orf61, C14orf145	None
14	CEP128	ENSG00000100629	ENST00000555529	protein_coding	KNOWN	None	20359	537	178	81366317	81425828	-1	C14orf61, C14orf145	None
14	CEP128	ENSG00000100629	ENST00000556042	protein_coding	KNOWN	None	20359	383	126	81371254	81425845	-1	C14orf61, C14orf145	None
14	CEP128	ENSG00000100629	ENST00000554298	retained_intron	KNOWN	None	20359	None	None	81371815	81408045	-1	C14orf61, C14orf145	None
14	CEP128	ENSG00000100629	ENST00000557411	protein_coding	PUTATIVE	None	20359	60	19	81380660	81408063	-1	C14orf61, C14orf145	None
14	CEP128	ENSG00000100629	ENST00000556981	protein_coding	KNOWN	None	20359	96	31	81382796	81425848	-1	C14orf61, C14orf145	None
14	CEP128	ENSG00000100629	ENST00000554368	processed_transcript	PUTATIVE	None	20359	None	None	81411900	81425861	-1	C14orf61, C14orf145	None
14	CEP128	ENSG00000100629	ENST00000556800	retained_intron	KNOWN	None	20359	None	None	81424142	81425850	-1	C14orf61, C14orf145	None
14	CEP128	ENSG00000100629	ENST00000281129	protein_coding	KNOWN	CCDS32130	20359	3285	1094	80962817	81405884	-1	C14orf61, C14orf145	None
14	CEP128	ENSG00000100629	ENST00000327841	protein_coding	KNOWN	None	20359	564	187	81360923	81405884	-1	C14orf61, C14orf145	None
7	None	ENSG00000228019	ENST00000449887	unprocessed_pseudogene	KNOWN	None	None	None	None	66772592	66773343	-1	None	None
13	None	ENSG00000266699	ENST00000584726	miRNA	NOVEL	None	None	None	None	55380002	55380092	-1	None	None
16	None	ENSG00000260757	ENST00000567545	sense_overlapping	KNOWN	None	None	None	None	31413886	31416020	1	None	None
13	MIR5007	ENSG00000264387	ENST00000583098	miRNA	KNOWN	None	43468	None	None	55748589	55748683	1	None	hsa-mir-5007
16	PPL	ENSG00000118898	ENST00000345988	protein_coding	KNOWN	CCDS10526	9273	5271	1756	4932508	4987136	-1	None	None
16	PPL	ENSG00000118898	ENST00000590782	protein_coding	NOVEL	None	9273	5265	1754	4932824	4987065	-1	None	None
16	PPL	ENSG00000118898	ENST00000592772	protein_coding	PUTATIVE	None	9273	3346	1114	4933573	5010742	-1	None	None
16	PPL	ENSG00000118898	ENST00000589090	retained_intron	KNOWN	None	9273	None	None	4938720	4940337	-1	None	None
16	PPL	ENSG00000118898	ENST00000590093	retained_intron	KNOWN	None	9273	None	None	4941444	4942180	-1	None	None
16	PPL	ENSG00000118898	ENST00000588556	retained_intron	KNOWN	None	9273	None	None	4942756	4943822	-1	None	None
20	NRSN2	ENSG00000125841	ENST00000492242	processed_transcript	KNOWN	None	16229	None	None	327527	334324	1	C20orf98	dJ1103G7.6
20	NRSN2	ENSG00000125841	ENST00000382291	protein_coding	KNOWN	CCDS12996	16229	615	204	327668	335512	1	C20orf98	dJ1103G7.6
20	NRSN2	ENSG00000125841	ENST00000382285	protein_coding	KNOWN	CCDS12996	16229	615	204	327749	334473	1	C20orf98	dJ1103G7.6
20	NRSN2	ENSG00000125841	ENST00000470439	processed_transcript	KNOWN	None	16229	None	None	328944	334147	1	C20orf98	dJ1103G7.6
1	RN7SL24P	ENSG00000264347	ENST00000580371	misc_RNA	KNOWN	None	46040	None	None	24208284	24208575	-1	None	None
13	HNF4GP1	ENSG00000228611	ENST00000430567	processed_pseudogene	KNOWN	None	35417	None	None	56573334	56574582	-1	None	None
7	None	ENSG00000235475	ENST00000430244	lincRNA	KNOWN	None	None	None	None	66800963	66805011	1	None	None
1	None	ENSG00000238538	ENST00000458849	snoRNA	NOVEL	None	None	None	None	24208745	24208842	1	None	None
5	None	ENSG00000251414	ENST00000512934	antisense	KNOWN	None	None	None	None	175781209	175783171	1	None	None
1	None	ENSG00000229106	ENST00000412176	processed_pseudogene	KNOWN	None	None	None	None	24227961	24229227	-1	None	None
3	None	ENSG00000241696	ENST00000488262	lincRNA	KNOWN	None	None	None	None	180131962	180140294	1	None	None
3	None	ENSG00000241696	ENST00000464537	lincRNA	KNOWN	None	None	None	None	180132000	180140168	1	None	None
5	MIR1271	ENSG00000221464	ENST00000408537	miRNA	KNOWN	None	35252	None	None	175794949	175795034	1	MIRN1271	hsa-mir-1271
13	SPATA2P1	ENSG00000228319	ENST00000431223	processed_pseudogene	KNOWN	None	39446	None	None	56788507	56791076	1	None	None
10	AGAP8	ENSG00000174194	ENST00000602930	protein_coding	PUTATIVE	None	23464	1944	647	51224681	51371321	-1	CTGLF5	None
10	AGAP8	ENSG00000174194	ENST00000425119	protein_coding	KNOWN	CCDS41522	23464	1992	663	51224688	51246535	-1	CTGLF5	None
10	AGAP8	ENSG00000174194	ENST00000479304	nonsense_mediated_decay	KNOWN	None	23464	396	131	51225967	51246361	-1	CTGLF5	None
10	AGAP8	ENSG00000174194	ENST00000470172	processed_transcript	KNOWN	None	23464	None	None	51227131	51230849	-1	CTGLF5	None
10	AGAP8	ENSG00000174194	ENST00000484805	processed_transcript	KNOWN	None	23464	None	None	51230467	51252947	-1	CTGLF5	None
10	AGAP8	ENSG00000174194	ENST00000482521	processed_transcript	KNOWN	None	23464	None	None	51240583	51243565	-1	CTGLF5	None
8	None	ENSG00000255000	ENST00000534696	processed_pseudogene	KNOWN	None	None	None	None	146273246	146274275	1	None	None
16	None	ENSG00000261474	ENST00000569291	lincRNA	KNOWN	None	None	None	None	31460856	31464814	-1	None	None
12	SLC38A1	ENSG00000111371	ENST00000398637	protein_coding	KNOWN	CCDS41774	13447	1464	487	46576846	46662795	-1	None	ATA1, NAT2, SAT1
12	SLC38A1	ENSG00000111371	ENST00000549049	protein_coding	KNOWN	CCDS41774	13447	1464	487	46581584	46662778	-1	None	ATA1, NAT2, SAT1
12	SLC38A1	ENSG00000111371	ENST00000439706	protein_coding	KNOWN	CCDS41774	13447	1464	487	46581584	46662780	-1	None	ATA1, NAT2, SAT1
12	SLC38A1	ENSG00000111371	ENST00000546893	protein_coding	KNOWN	CCDS41774	13447	1464	487	46582348	46662902	-1	None	ATA1, NAT2, SAT1
12	SLC38A1	ENSG00000111371	ENST00000552197	protein_coding	NOVEL	None	13447	1512	503	46589508	46661484	-1	None	ATA1, NAT2, SAT1
12	SLC38A1	ENSG00000111371	ENST00000548979	retained_intron	KNOWN	None	13447	None	None	46591161	46591804	-1	None	ATA1, NAT2, SAT1
12	SLC38A1	ENSG00000111371	ENST00000549633	processed_transcript	KNOWN	None	13447	None	None	46592511	46662826	-1	None	ATA1, NAT2, SAT1
12	SLC38A1	ENSG00000111371	ENST00000551506	processed_transcript	KNOWN	None	13447	None	None	46601366	46662589	-1	None	ATA1, NAT2, SAT1
12	SLC38A1	ENSG00000111371	ENST00000550173	protein_coding	PUTATIVE	None	13447	235	77	46623015	46663734	-1	None	ATA1, NAT2, SAT1
12	SLC38A1	ENSG00000111371	ENST00000546519	processed_transcript	PUTATIVE	None	13447	None	None	46662643	46663800	-1	None	ATA1, NAT2, SAT1
22	None	ENSG00000265106	ENST00000580472	miRNA	NOVEL	None	None	None	None	42948194	42948279	-1	None	None
1	PARK7	ENSG00000116288	ENST00000493373	protein_coding	KNOWN	None	16369	568	188	8014351	8045112	1	None	DJ-1, DJ1
1	PARK7	ENSG00000116288	ENST00000460192	retained_intron	KNOWN	None	16369	None	None	8021723	8031108	1	None	DJ-1, DJ1
1	PARK7	ENSG00000116288	ENST00000338639	protein_coding	KNOWN	CCDS93	16369	570	189	8021723	8045339	1	None	DJ-1, DJ1
1	PARK7	ENSG00000116288	ENST00000493678	protein_coding	KNOWN	CCDS93	16369	570	189	8021752	8045565	1	None	DJ-1, DJ1
1	PARK7	ENSG00000116288	ENST00000377493	protein_coding	NOVEL	None	16369	510	169	8021761	8045341	1	None	DJ-1, DJ1
1	PARK7	ENSG00000116288	ENST00000465354	retained_intron	KNOWN	None	16369	None	None	8021808	8031581	1	None	DJ-1, DJ1
1	PARK7	ENSG00000116288	ENST00000377491	protein_coding	KNOWN	CCDS93	16369	570	189	8021954	8045310	1	None	DJ-1, DJ1
1	PARK7	ENSG00000116288	ENST00000377488	protein_coding	KNOWN	CCDS93	16369	570	189	8022029	8045171	1	None	DJ-1, DJ1
1	PARK7	ENSG00000116288	ENST00000497113	processed_transcript	KNOWN	None	16369	None	None	8022827	8032017	1	None	DJ-1, DJ1
1	PARK7	ENSG00000116288	ENST00000469225	protein_coding	NOVEL	None	16369	483	160	8025411	8045342	1	None	DJ-1, DJ1
5	None	ENSG00000221373	ENST00000408446	miRNA	NOVEL	None	None	None	None	175878763	175878873	1	None	None
1	None	ENSG00000232557	ENST00000411815	lincRNA	KNOWN	None	None	None	None	24233601	24234375	-1	None	None
8	HHLA1	ENSG00000132297	ENST00000473291	retained_intron	KNOWN	None	4904	None	None	133076032	133093351	-1	PLA2L	None
8	HHLA1	ENSG00000132297	ENST00000434736	protein_coding	NOVEL	None	4904	1632	543	133081922	133123406	-1	PLA2L	None
8	HHLA1	ENSG00000132297	ENST00000414222	protein_coding	KNOWN	None	4904	1596	531	133073733	133117512	-1	PLA2L	None
13	None	ENSG00000238455	ENST00000459611	snoRNA	NOVEL	None	None	None	None	57133758	57133859	1	None	None
1	MIR378F	ENSG00000264926	ENST00000578143	miRNA	KNOWN	None	41686	None	None	24255560	24255637	1	None	hsa-mir-378f
16	None	ENSG00000260267	ENST00000564629	antisense	KNOWN	None	None	None	None	31468032	31471057	-1	None	None
13	RN7SKP6	ENSG00000201665	ENST00000364795	misc_RNA	KNOWN	None	42624	None	None	57459418	57459736	-1	None	None
1	KDM1A	ENSG00000004487	ENST00000356634	protein_coding	KNOWN	CCDS30627	29079	2559	852	23345941	23410182	1	AOF2, KDM1	KIAA0601, BHC110, LSD1
1	KDM1A	ENSG00000004487	ENST00000400181	protein_coding	NOVEL	CCDS53278	29079	2631	876	23345986	23410181	1	AOF2, KDM1	KIAA0601, BHC110, LSD1
1	KDM1A	ENSG00000004487	ENST00000481879	retained_intron	KNOWN	None	29079	None	None	23376918	23381911	1	AOF2, KDM1	KIAA0601, BHC110, LSD1
1	KDM1A	ENSG00000004487	ENST00000465864	protein_coding	NOVEL	None	29079	568	188	23398617	23406088	1	AOF2, KDM1	KIAA0601, BHC110, LSD1
1	KDM1A	ENSG00000004487	ENST00000494920	protein_coding	NOVEL	None	29079	905	300	23403727	23409847	1	AOF2, KDM1	KIAA0601, BHC110, LSD1
1	KDM1A	ENSG00000004487	ENST00000602503	retained_intron	KNOWN	None	29079	None	None	23407366	23410175	1	AOF2, KDM1	KIAA0601, BHC110, LSD1
1	KDM1A	ENSG00000004487	ENST00000542151	protein_coding	KNOWN	None	29079	2631	876	23345988	23410182	1	AOF2, KDM1	KIAA0601, BHC110, LSD1
X	None	ENSG00000182776	ENST00000375644	protein_coding	KNOWN	None	None	372	123	51793956	51797351	-1	None	None
1	None	ENSG00000230228	ENST00000421430	processed_pseudogene	KNOWN	None	None	None	None	24275506	24275873	-1	None	None
13	None	ENSG00000271140	ENST00000603320	unprocessed_pseudogene	KNOWN	None	None	None	None	57747587	57747766	1	None	None
6	None	ENSG00000255330	ENST00000481848	nonsense_mediated_decay	KNOWN	CCDS43505	None	2844	947	127759551	127840146	-1	None	None
6	None	ENSG00000255330	ENST00000473298	nonsense_mediated_decay	KNOWN	None	None	874	290	127765184	127797209	-1	None	None
6	None	ENSG00000255330	ENST00000464495	nonsense_mediated_decay	KNOWN	None	None	292	96	127771332	127796618	-1	None	None
6	None	ENSG00000255330	ENST00000474293	processed_transcript	KNOWN	None	None	None	None	127775015	127796839	-1	None	None
HSCHR6_MHC_COX	OR2W1	ENSG00000234101	ENST00000421766	protein_coding	KNOWN	None	8281	963	320	29008603	29009630	-1	None	hs6M1-15
13	MTCO2P3	ENSG00000230009	ENST00000442543	processed_pseudogene	KNOWN	None	39576	None	None	57778513	57778933	1	None	None
1	None	ENSG00000215905	ENST00000442164	processed_pseudogene	KNOWN	None	None	None	None	24334371	24335009	-1	None	None
5	RN7SL684P	ENSG00000243959	ENST00000465665	misc_RNA	KNOWN	None	46700	None	None	175974436	175974727	-1	None	None
11	TP53AIP1	ENSG00000120471	ENST00000458238	protein_coding	KNOWN	CCDS55797	29984	261	86	128804626	128812822	-1	None	p53AIP1
11	TP53AIP1	ENSG00000120471	ENST00000531399	protein_coding	KNOWN	CCDS8480	29984	375	124	128805265	128812822	-1	None	p53AIP1
11	TP53AIP1	ENSG00000120471	ENST00000525390	retained_intron	KNOWN	None	29984	None	None	128805265	128813038	-1	None	p53AIP1
11	TP53AIP1	ENSG00000120471	ENST00000530777	protein_coding	KNOWN	CCDS55798	29984	363	120	128805486	128807713	-1	None	p53AIP1
11	TP53AIP1	ENSG00000120471	ENST00000527504	nonsense_mediated_decay	KNOWN	CCDS58195	29984	327	108	128806432	128813040	-1	None	p53AIP1
11	TP53AIP1	ENSG00000120471	ENST00000602346	protein_coding	KNOWN	CCDS58195	29984	327	108	128805272	128812822	-1	None	p53AIP1
5	None	ENSG00000207420	ENST00000384689	misc_RNA	NOVEL	None	None	None	None	175983705	175983806	1	None	None
22	RRP7B	ENSG00000182841	ENST00000357802	processed_transcript	KNOWN	None	30454	None	None	42951229	42978044	-1	None	dJ222E13.2
22	RRP7B	ENSG00000182841	ENST00000437211	processed_transcript	KNOWN	None	30454	None	None	42965135	42978015	-1	None	dJ222E13.2
22	RRP7B	ENSG00000182841	ENST00000458605	processed_transcript	KNOWN	None	30454	None	None	42969250	42978017	-1	None	dJ222E13.2
22	RRP7B	ENSG00000182841	ENST00000566851	transcribed_unprocessed_pseudogene	KNOWN	None	30454	None	None	42970739	42978007	-1	None	dJ222E13.2
22	RRP7B	ENSG00000182841	ENST00000421116	processed_transcript	KNOWN	None	30454	None	None	42973104	42978003	-1	None	dJ222E13.2
10	SFR1	ENSG00000156384	ENST00000463224	processed_transcript	KNOWN	None	29574	None	None	105881816	105883121	1	C10orf78, MEIR5	MEI5, bA373N18.1, FLJ41960
10	SFR1	ENSG00000156384	ENST00000369729	protein_coding	KNOWN	CCDS31280	29574	699	232	105881816	105886143	1	C10orf78, MEIR5	MEI5, bA373N18.1, FLJ41960
10	SFR1	ENSG00000156384	ENST00000369727	protein_coding	KNOWN	CCDS31279	29574	738	245	105881923	105886143	1	C10orf78, MEIR5	MEI5, bA373N18.1, FLJ41960
10	SFR1	ENSG00000156384	ENST00000336358	protein_coding	KNOWN	None	29574	924	307	105882005	105885602	1	C10orf78, MEIR5	MEI5, bA373N18.1, FLJ41960
5	MIR4281	ENSG00000266329	ENST00000580852	miRNA	KNOWN	None	38357	None	None	176056440	176056501	-1	None	hsa-mir-4281
1	DUSP27	ENSG00000198842	ENST00000361200	protein_coding	KNOWN	CCDS30932	25034	3477	1158	167063282	167098366	1	None	None
1	DUSP27	ENSG00000198842	ENST00000485151	processed_transcript	KNOWN	None	25034	None	None	167095156	167098362	1	None	None
1	DUSP27	ENSG00000198842	ENST00000271385	protein_coding	KNOWN	CCDS30932	25034	3477	1158	167063577	167097845	1	None	None
1	DUSP27	ENSG00000198842	ENST00000443333	protein_coding	KNOWN	CCDS30932	25034	3477	1158	167064087	167098402	1	None	None
HSCHR6_MHC_COX	OR2B3	ENSG00000233180	ENST00000444830	protein_coding	KNOWN	None	8238	942	313	29050654	29051759	-1	OR2B3P	OR6-4
3	H1FOO	ENSG00000178804	ENST00000324382	protein_coding	KNOWN	CCDS3064	18463	1041	346	129262057	129270204	1	None	None
3	H1FOO	ENSG00000178804	ENST00000503977	protein_coding	PUTATIVE	None	18463	624	207	129267229	129270310	1	None	None
13	SLC25A5P4	ENSG00000234421	ENST00000418448	processed_pseudogene	KNOWN	None	35471	None	None	57888873	57890043	1	None	None
16	None	ENSG00000260740	ENST00000565137	antisense	KNOWN	None	None	None	None	31498691	31499813	-1	None	None
12	IPO8	ENSG00000133704	ENST00000256079	protein_coding	KNOWN	CCDS8719	9853	3114	1037	30781922	30848920	-1	RANBP8	IMP8
12	IPO8	ENSG00000133704	ENST00000544829	protein_coding	PUTATIVE	CCDS53773	9853	2499	832	30783406	30830178	-1	RANBP8	IMP8
12	IPO8	ENSG00000133704	ENST00000535598	protein_coding	PUTATIVE	None	9853	503	166	30784560	30790083	-1	RANBP8	IMP8
12	IPO8	ENSG00000133704	ENST00000542464	protein_coding	PUTATIVE	None	9853	501	166	30822202	30830094	-1	RANBP8	IMP8
12	IPO8	ENSG00000133704	ENST00000535989	protein_coding	PUTATIVE	None	9853	453	150	30833416	30841690	-1	RANBP8	IMP8
12	IPO8	ENSG00000133704	ENST00000540979	nonsense_mediated_decay	KNOWN	None	9853	108	35	30833456	30848803	-1	RANBP8	IMP8
12	IPO8	ENSG00000133704	ENST00000543446	protein_coding	PUTATIVE	None	9853	254	83	30837235	30841680	-1	RANBP8	IMP8
12	IPO8	ENSG00000133704	ENST00000358724	protein_coding	PUTATIVE	None	9853	101	32	30837271	30841692	-1	RANBP8	IMP8
12	IPO8	ENSG00000133704	ENST00000545077	protein_coding	PUTATIVE	None	9853	138	45	30837369	30848045	-1	RANBP8	IMP8
12	IPO8	ENSG00000133704	ENST00000538338	processed_transcript	KNOWN	None	9853	None	None	30839458	30841693	-1	RANBP8	IMP8
1	None	ENSG00000225315	ENST00000439239	antisense	KNOWN	None	None	None	None	24367325	24413289	1	None	None
X	None	ENSG00000233663	ENST00000446972	processed_pseudogene	KNOWN	None	None	None	None	35729028	35730059	1	None	None
5	None	ENSG00000248484	ENST00000507236	lincRNA	KNOWN	None	None	None	None	176134357	176153244	-1	None	None
6	CRIP3	ENSG00000146215	ENST00000416431	protein_coding	KNOWN	None	17751	331	109	43267448	43275614	-1	None	TLP-A, bA480N24.2, TLP
6	CRIP3	ENSG00000146215	ENST00000372569	protein_coding	KNOWN	CCDS4894	17751	615	204	43273210	43276535	-1	None	TLP-A, bA480N24.2, TLP
6	CRIP3	ENSG00000146215	ENST00000451294	protein_coding	KNOWN	None	17751	117	38	43273251	43274199	-1	None	TLP-A, bA480N24.2, TLP
6	CRIP3	ENSG00000146215	ENST00000477866	retained_intron	KNOWN	None	17751	None	None	43273455	43274381	-1	None	TLP-A, bA480N24.2, TLP
6	CRIP3	ENSG00000146215	ENST00000274990	protein_coding	KNOWN	None	17751	654	217	43273563	43276535	-1	None	TLP-A, bA480N24.2, TLP
6	CRIP3	ENSG00000146215	ENST00000487744	retained_intron	KNOWN	None	17751	None	None	43273965	43274867	-1	None	TLP-A, bA480N24.2, TLP
6	CRIP3	ENSG00000146215	ENST00000485819	retained_intron	KNOWN	None	17751	None	None	43275241	43276526	-1	None	TLP-A, bA480N24.2, TLP
16	None	ENSG00000260511	ENST00000562685	sense_intronic	KNOWN	None	None	None	None	79139854	79144779	1	None	None
1	None	ENSG00000230703	ENST00000429191	antisense	KNOWN	None	None	None	None	24393264	24410055	1	None	None
14	TMEM260	ENSG00000070269	ENST00000556810	protein_coding	PUTATIVE	None	20185	223	73	56955072	57052620	1	C14orf101	FLJ20392
14	TMEM260	ENSG00000070269	ENST00000556422	nonsense_mediated_decay	KNOWN	None	20185	762	253	57046338	57116233	1	C14orf101	FLJ20392
14	TMEM260	ENSG00000070269	ENST00000261556	protein_coding	KNOWN	CCDS9727	20185	2124	707	57046511	57116233	1	C14orf101	FLJ20392
14	TMEM260	ENSG00000070269	ENST00000557657	retained_intron	KNOWN	None	20185	None	None	57046543	57080628	1	C14orf101	FLJ20392
14	TMEM260	ENSG00000070269	ENST00000556975	processed_transcript	KNOWN	None	20185	None	None	57046544	57059942	1	C14orf101	FLJ20392
14	TMEM260	ENSG00000070269	ENST00000555497	nonsense_mediated_decay	KNOWN	None	20185	348	115	57046544	57114570	1	C14orf101	FLJ20392
14	TMEM260	ENSG00000070269	ENST00000557626	retained_intron	KNOWN	None	20185	None	None	57046549	57082982	1	C14orf101	FLJ20392
14	TMEM260	ENSG00000070269	ENST00000539559	nonsense_mediated_decay	KNOWN	None	20185	975	324	57046559	57114812	1	C14orf101	FLJ20392
14	TMEM260	ENSG00000070269	ENST00000556079	retained_intron	KNOWN	None	20185	None	None	57052411	57075907	1	C14orf101	FLJ20392
14	TMEM260	ENSG00000070269	ENST00000554981	retained_intron	KNOWN	None	20185	None	None	57052412	57070659	1	C14orf101	FLJ20392
14	TMEM260	ENSG00000070269	ENST00000556929	nonsense_mediated_decay	KNOWN	None	20185	62	19	57052573	57085381	1	C14orf101	FLJ20392
14	TMEM260	ENSG00000070269	ENST00000555905	nonsense_mediated_decay	KNOWN	None	20185	304	100	57075859	57099889	1	C14orf101	FLJ20392
14	TMEM260	ENSG00000070269	ENST00000553335	processed_transcript	KNOWN	None	20185	None	None	57075963	57086184	1	C14orf101	FLJ20392
14	TMEM260	ENSG00000070269	ENST00000556648	retained_intron	KNOWN	None	20185	None	None	57082169	57114640	1	C14orf101	FLJ20392
14	TMEM260	ENSG00000070269	ENST00000555046	protein_coding	PUTATIVE	None	20185	125	40	57103234	57117324	1	C14orf101	FLJ20392
14	TMEM260	ENSG00000070269	ENST00000538838	protein_coding	KNOWN	None	20185	1230	409	57046602	57101671	1	C14orf101	FLJ20392
14	TMEM260	ENSG00000070269	ENST00000536419	protein_coding	KNOWN	None	20185	726	241	57046544	57114570	1	C14orf101	FLJ20392
X	None	ENSG00000271088	ENST00000605789	processed_pseudogene	KNOWN	None	None	None	None	35759717	35762699	1	None	None
16	None	ENSG00000260625	ENST00000569782	antisense	KNOWN	None	None	None	None	31519792	31520569	1	None	None
13	SMAD9	ENSG00000120693	ENST00000399275	protein_coding	KNOWN	CCDS45032	6774	1404	467	37418968	37453966	-1	MADH6, MADH9	None
13	SMAD9	ENSG00000120693	ENST00000350148	protein_coding	KNOWN	CCDS9360	6774	1293	430	37418968	37494375	-1	MADH6, MADH9	None
13	SMAD9	ENSG00000120693	ENST00000483941	processed_transcript	KNOWN	None	6774	None	None	37453599	37494902	-1	MADH6, MADH9	None
13	SMAD9	ENSG00000120693	ENST00000379826	protein_coding	KNOWN	CCDS45032	6774	1404	467	37418968	37494409	-1	MADH6, MADH9	None
X	MAOB	ENSG00000069535	ENST00000378069	protein_coding	KNOWN	CCDS14261	6834	1563	520	43625858	43741693	-1	None	None
X	MAOB	ENSG00000069535	ENST00000478012	nonsense_mediated_decay	KNOWN	None	6834	270	89	43625885	43628607	-1	None	None
X	MAOB	ENSG00000069535	ENST00000487544	processed_transcript	KNOWN	None	6834	None	None	43656459	43741681	-1	None	None
X	MAOB	ENSG00000069535	ENST00000468431	processed_transcript	KNOWN	None	6834	None	None	43703046	43741549	-1	None	None
X	MAOB	ENSG00000069535	ENST00000536181	protein_coding	KNOWN	None	6834	1515	504	43626506	43741594	-1	None	None
X	MAOB	ENSG00000069535	ENST00000538942	protein_coding	KNOWN	None	6834	1236	411	43626631	43709736	-1	None	None
16	None	ENSG00000261722	ENST00000569677	lincRNA	KNOWN	None	None	None	None	79246608	79263350	-1	None	None
1	None	ENSG00000230023	ENST00000439059	lincRNA	KNOWN	None	None	None	None	24526730	24538183	1	None	None
HSCHR6_MHC_COX	OR2J3	ENSG00000232178	ENST00000414140	protein_coding	KNOWN	None	8261	936	311	29076341	29077276	1	None	OR6-6
12	None	ENSG00000238914	ENST00000459574	snoRNA	NOVEL	None	None	None	None	104114720	104114822	-1	None	None
10	PWWP2B	ENSG00000171813	ENST00000305233	protein_coding	KNOWN	CCDS7667	25150	1773	590	134210672	134231367	1	PWWP2	bA432J24.1, FLJ46823
10	PWWP2B	ENSG00000171813	ENST00000368609	protein_coding	KNOWN	CCDS44497	25150	1500	499	134210702	134231334	1	PWWP2	bA432J24.1, FLJ46823
X	None	ENSG00000233880	ENST00000434731	processed_pseudogene	KNOWN	None	None	None	None	35779616	35780596	1	None	None
1	None	ENSG00000221032	ENST00000408105	miRNA	NOVEL	None	None	None	None	24554407	24554520	1	None	None
3	TFDP2	ENSG00000114126	ENST00000489671	protein_coding	KNOWN	CCDS54650	11751	1341	446	141669989	141868363	-1	None	Dp-2
3	TFDP2	ENSG00000114126	ENST00000486111	protein_coding	NOVEL	CCDS43159	11751	1161	386	141670344	141747507	-1	None	Dp-2
3	TFDP2	ENSG00000114126	ENST00000477292	protein_coding	PUTATIVE	CCDS54647	11751	933	310	141670985	141747468	-1	None	Dp-2
3	TFDP2	ENSG00000114126	ENST00000495310	protein_coding	PUTATIVE	CCDS54649	11751	1050	349	141671118	141747488	-1	None	Dp-2
3	TFDP2	ENSG00000114126	ENST00000467072	protein_coding	KNOWN	CCDS43159	11751	1161	386	141671323	141868374	-1	None	Dp-2
3	TFDP2	ENSG00000114126	ENST00000479040	protein_coding	KNOWN	None	11751	1158	385	141671338	141724311	-1	None	Dp-2
3	TFDP2	ENSG00000114126	ENST00000487734	nonsense_mediated_decay	KNOWN	None	11751	213	70	141671338	141820599	-1	None	Dp-2
3	TFDP2	ENSG00000114126	ENST00000474279	protein_coding	PUTATIVE	None	11751	343	113	141671671	141682677	-1	None	Dp-2
3	TFDP2	ENSG00000114126	ENST00000467667	protein_coding	NOVEL	None	11751	745	247	141678642	141747439	-1	None	Dp-2
3	TFDP2	ENSG00000114126	ENST00000478006	protein_coding	PUTATIVE	None	11751	618	205	141682662	141747473	-1	None	Dp-2
3	TFDP2	ENSG00000114126	ENST00000497579	protein_coding	KNOWN	None	11751	661	219	141682694	141747999	-1	None	Dp-2
3	TFDP2	ENSG00000114126	ENST00000492919	retained_intron	KNOWN	None	11751	None	None	141692909	141714071	-1	None	Dp-2
3	TFDP2	ENSG00000114126	ENST00000493204	retained_intron	KNOWN	None	11751	None	None	141692947	141697530	-1	None	Dp-2
3	TFDP2	ENSG00000114126	ENST00000464782	processed_transcript	KNOWN	None	11751	None	None	141697379	141868379	-1	None	Dp-2
3	TFDP2	ENSG00000114126	ENST00000488107	protein_coding	KNOWN	None	11751	268	88	141697430	141809680	-1	None	Dp-2
3	TFDP2	ENSG00000114126	ENST00000494656	protein_coding	PUTATIVE	None	11751	202	66	141707909	141712427	-1	None	Dp-2
3	TFDP2	ENSG00000114126	ENST00000475734	protein_coding	KNOWN	None	11751	138	45	141712415	141868363	-1	None	Dp-2
3	TFDP2	ENSG00000114126	ENST00000471095	retained_intron	KNOWN	None	11751	None	None	141713112	141747448	-1	None	Dp-2
3	TFDP2	ENSG00000114126	ENST00000494358	protein_coding	KNOWN	None	11751	82	26	141713905	141868312	-1	None	Dp-2
3	TFDP2	ENSG00000114126	ENST00000467634	protein_coding	KNOWN	None	11751	257	84	141713913	141845212	-1	None	Dp-2
3	TFDP2	ENSG00000114126	ENST00000495095	processed_transcript	KNOWN	None	11751	None	None	141713938	141868379	-1	None	Dp-2
3	TFDP2	ENSG00000114126	ENST00000476617	processed_transcript	KNOWN	None	11751	None	None	141719167	141868312	-1	None	Dp-2
3	TFDP2	ENSG00000114126	ENST00000491667	retained_intron	KNOWN	None	11751	None	None	141811873	141868386	-1	None	Dp-2
3	TFDP2	ENSG00000114126	ENST00000499676	protein_coding	KNOWN	CCDS43159	11751	1161	386	141663277	141868386	-1	None	Dp-2
3	TFDP2	ENSG00000114126	ENST00000317104	protein_coding	KNOWN	None	11751	1113	370	141671324	141868302	-1	None	Dp-2
3	TFDP2	ENSG00000114126	ENST00000310282	protein_coding	KNOWN	CCDS43159	11751	1161	386	141671332	141724377	-1	None	Dp-2
3	TFDP2	ENSG00000114126	ENST00000397991	protein_coding	KNOWN	CCDS54648	11751	1257	418	141671345	141719195	-1	None	Dp-2
16	RNA5SP431	ENSG00000222244	ENST00000410312	rRNA	KNOWN	None	43331	None	None	79298351	79298470	1	RN5S431	None
1	None	ENSG00000266511	ENST00000584309	miRNA	NOVEL	None	None	None	None	24606257	24606345	-1	None	None
X	None	ENSG00000271519	ENST00000603371	processed_pseudogene	KNOWN	None	None	None	None	35882975	35887748	1	None	None
16	None	ENSG00000261472	ENST00000569938	lincRNA	KNOWN	None	None	None	None	79539500	79550190	1	None	None
1	None	ENSG00000232298	ENST00000437965	antisense	KNOWN	None	None	None	None	24634046	24648391	-1	None	None
HSCHR6_MHC_COX	OR2J2	ENSG00000231676	ENST00000411588	protein_coding	KNOWN	None	8260	939	312	29137979	29139019	1	None	OR6-8, hs6M1-6, dJ80I19.4
7	None	ENSG00000236848	ENST00000426806	processed_pseudogene	KNOWN	None	None	None	None	102792454	102792772	-1	None	None
13	RPL31P53	ENSG00000225352	ENST00000457065	processed_pseudogene	KNOWN	None	35749	None	None	57965305	57965652	-1	None	None
1	RN7SL857P	ENSG00000266551	ENST00000580228	misc_RNA	KNOWN	None	46873	None	None	24855945	24856204	-1	None	None
X	RNU6-641P	ENSG00000206733	ENST00000384006	snRNA	KNOWN	None	47604	None	None	36040056	36040162	-1	None	None
13	RNA5SP30	ENSG00000202422	ENST00000365552	rRNA	KNOWN	None	42606	None	None	58565484	58565598	1	RN5S30	None
1	None	ENSG00000264443	ENST00000577528	lincRNA	KNOWN	None	None	None	None	24865292	24882515	-1	None	None
17	MYBBP1A	ENSG00000132382	ENST00000571368	retained_intron	KNOWN	None	7546	None	None	4442197	4446594	-1	None	P160, PAP2, FLJ37886
17	MYBBP1A	ENSG00000132382	ENST00000573116	protein_coding	KNOWN	None	7546	3757	1251	4442197	4458207	-1	None	P160, PAP2, FLJ37886
17	MYBBP1A	ENSG00000132382	ENST00000254718	protein_coding	KNOWN	CCDS11046	7546	3987	1328	4442197	4458926	-1	None	P160, PAP2, FLJ37886
17	MYBBP1A	ENSG00000132382	ENST00000574934	retained_intron	KNOWN	None	7546	None	None	4442201	4445718	-1	None	P160, PAP2, FLJ37886
17	MYBBP1A	ENSG00000132382	ENST00000573723	protein_coding	NOVEL	None	7546	613	203	4442239	4453356	-1	None	P160, PAP2, FLJ37886
17	MYBBP1A	ENSG00000132382	ENST00000574547	retained_intron	KNOWN	None	7546	None	None	4442658	4447990	-1	None	P160, PAP2, FLJ37886
17	MYBBP1A	ENSG00000132382	ENST00000574167	retained_intron	KNOWN	None	7546	None	None	4442734	4445193	-1	None	P160, PAP2, FLJ37886
17	MYBBP1A	ENSG00000132382	ENST00000572759	protein_coding	PUTATIVE	None	7546	209	68	4442818	4448421	-1	None	P160, PAP2, FLJ37886
17	MYBBP1A	ENSG00000132382	ENST00000575662	retained_intron	KNOWN	None	7546	None	None	4443731	4445395	-1	None	P160, PAP2, FLJ37886
17	MYBBP1A	ENSG00000132382	ENST00000571354	retained_intron	KNOWN	None	7546	None	None	4448197	4449227	-1	None	P160, PAP2, FLJ37886
17	MYBBP1A	ENSG00000132382	ENST00000573175	retained_intron	KNOWN	None	7546	None	None	4450980	4453472	-1	None	P160, PAP2, FLJ37886
17	MYBBP1A	ENSG00000132382	ENST00000570986	retained_intron	KNOWN	None	7546	None	None	4455478	4458653	-1	None	P160, PAP2, FLJ37886
17	MYBBP1A	ENSG00000132382	ENST00000381556	protein_coding	KNOWN	CCDS42238	7546	3999	1332	4442192	4458681	-1	None	P160, PAP2, FLJ37886
X	HMGB1P16	ENSG00000229384	ENST00000447155	processed_pseudogene	KNOWN	None	39098	None	None	36229213	36229752	1	None	None
12	None	ENSG00000257681	ENST00000551299	antisense	KNOWN	None	None	None	None	104140093	104160684	-1	None	None
12	None	ENSG00000257681	ENST00000550029	antisense	KNOWN	None	None	None	None	104157090	104162636	-1	None	None
HSCHR6_MHC_COX	OR14J1	ENSG00000225291	ENST00000434778	protein_coding	KNOWN	None	13971	966	321	29271118	29272234	1	OR5U1	hs6M1-28
13	ZIC5	ENSG00000139800	ENST00000267294	protein_coding	KNOWN	CCDS9494	20322	1992	663	100615218	100624163	-1	None	None
13	None	ENSG00000232954	ENST00000454780	lincRNA	KNOWN	None	None	None	None	58785831	58807251	-1	None	None
1	None	ENSG00000227312	ENST00000443086	processed_pseudogene	KNOWN	None	None	None	None	24890118	24890465	1	None	None
16	ORC6	ENSG00000091651	ENST00000563599	nonsense_mediated_decay	KNOWN	None	17151	111	36	46723555	46731423	1	ORC6L	None
16	ORC6	ENSG00000091651	ENST00000219097	protein_coding	KNOWN	CCDS10722	17151	759	252	46723558	46732306	1	ORC6L	None
16	ORC6	ENSG00000091651	ENST00000569239	retained_intron	KNOWN	None	17151	None	None	46723571	46728431	1	ORC6L	None
16	ORC6	ENSG00000091651	ENST00000563306	retained_intron	KNOWN	None	17151	None	None	46723594	46730131	1	ORC6L	None
16	ORC6	ENSG00000091651	ENST00000568364	protein_coding	PUTATIVE	None	17151	504	167	46723609	46731730	1	ORC6L	None
16	ORC6	ENSG00000091651	ENST00000570260	processed_transcript	KNOWN	None	17151	None	None	46723619	46728963	1	ORC6L	None
16	ORC6	ENSG00000091651	ENST00000566860	protein_coding	PUTATIVE	None	17151	612	203	46724698	46732297	1	ORC6L	None
16	ORC6	ENSG00000091651	ENST00000575571	processed_transcript	KNOWN	None	17151	None	None	46728849	46731810	1	ORC6L	None
16	ORC6	ENSG00000091651	ENST00000567000	retained_intron	KNOWN	None	17151	None	None	46729021	46732294	1	ORC6L	None
12	METTL21B	ENSG00000123427	ENST00000548256	protein_coding	PUTATIVE	None	24936	324	107	58165275	58174213	1	FAM119B	DKFZP586D0919
12	METTL21B	ENSG00000123427	ENST00000551420	protein_coding	PUTATIVE	None	24936	138	45	58165983	58174563	1	FAM119B	DKFZP586D0919
12	METTL21B	ENSG00000123427	ENST00000300209	protein_coding	KNOWN	CCDS8957	24936	681	226	58166383	58176186	1	FAM119B	DKFZP586D0919
12	METTL21B	ENSG00000123427	ENST00000552307	processed_transcript	KNOWN	None	24936	None	None	58166439	58168550	1	FAM119B	DKFZP586D0919
12	METTL21B	ENSG00000123427	ENST00000333012	protein_coding	KNOWN	CCDS31848	24936	450	149	58166461	58176324	1	FAM119B	DKFZP586D0919
13	RNY4P29	ENSG00000222733	ENST00000410801	misc_RNA	KNOWN	None	42497	None	None	59101789	59101885	-1	None	None
13	CTAGE16P	ENSG00000214335	ENST00000435601	processed_pseudogene	KNOWN	None	41967	None	None	59102749	59105160	1	None	None
1	None	ENSG00000239106	ENST00000459380	misc_RNA	NOVEL	None	None	None	None	24951902	24952004	-1	None	None
13	DNAJA1P1	ENSG00000223717	ENST00000425106	processed_pseudogene	KNOWN	None	39337	None	None	59325181	59326367	-1	None	None
6	HCG16	ENSG00000244349	ENST00000445544	antisense	KNOWN	None	20424	None	None	28954577	28956313	1	None	dJ25J6.7
1	None	ENSG00000238986	ENST00000459464	snoRNA	NOVEL	None	None	None	None	24993474	24993578	-1	None	None
1	RNU6-1208P	ENSG00000238482	ENST00000459588	snRNA	KNOWN	None	48171	None	None	25104364	25104470	-1	None	None
13	HMGN2P39	ENSG00000214281	ENST00000398005	processed_pseudogene	KNOWN	None	39410	None	None	59584466	59584738	1	None	None
HSCHR6_MHC_COX	OR5V1	ENSG00000233046	ENST00000441440	protein_coding	KNOWN	None	13972	966	321	29319722	29370905	-1	None	hs6M1-21
HSCHR6_MHC_COX	OR5V1	ENSG00000233046	ENST00000446761	protein_coding	KNOWN	None	13972	966	321	29319722	29396318	-1	None	hs6M1-21
HSCHR6_MHC_COX	OR5V1	ENSG00000233046	ENST00000549299	protein_coding	KNOWN	None	13972	966	321	29319722	29320769	-1	None	hs6M1-21
6	OR2AD1P	ENSG00000223677	ENST00000441992	unprocessed_pseudogene	KNOWN	None	14749	None	None	28994457	28995384	-1	None	OR2AD1, hs6M1-8P
5	HNRNPA0	ENSG00000177733	ENST00000314940	protein_coding	KNOWN	CCDS4193	5030	918	305	137087075	137090039	-1	HNRPA0	hnRNPA0
1	None	ENSG00000229162	ENST00000456316	antisense	KNOWN	None	None	None	None	25287836	25289588	1	None	None
13	POLR3KP1	ENSG00000232647	ENST00000449146	processed_pseudogene	KNOWN	None	39577	None	None	59645596	59645937	-1	None	None
13	None	ENSG00000271190	ENST00000603596	processed_pseudogene	KNOWN	None	None	None	None	59836814	59837525	1	None	None
1	None	ENSG00000261025	ENST00000568143	lincRNA	KNOWN	None	None	None	None	25294914	25297356	-1	None	None
7	None	ENSG00000265600	ENST00000584839	miRNA	NOVEL	None	None	None	None	66821667	66821766	1	None	None
7	None	ENSG00000226392	ENST00000440681	unprocessed_pseudogene	KNOWN	None	None	None	None	67092818	67093006	1	None	None
1	MIR4425	ENSG00000264371	ENST00000580572	miRNA	KNOWN	None	41891	None	None	25349994	25350077	1	None	hsa-mir-4425
6	LATS1	ENSG00000131023	ENST00000543571	protein_coding	KNOWN	CCDS34551	6514	3393	1130	149979289	150039392	-1	None	WARTS
6	LATS1	ENSG00000131023	ENST00000253339	protein_coding	KNOWN	CCDS34551	6514	3393	1130	149982230	150023490	-1	None	WARTS
6	LATS1	ENSG00000131023	ENST00000441107	nonsense_mediated_decay	KNOWN	None	6514	408	135	149982833	150037561	-1	None	WARTS
6	LATS1	ENSG00000131023	ENST00000542747	processed_transcript	KNOWN	None	6514	None	None	149996832	150023099	-1	None	WARTS
6	LATS1	ENSG00000131023	ENST00000392273	protein_coding	KNOWN	CCDS59040	6514	2073	690	150004055	150039241	-1	None	WARTS
6	LATS1	ENSG00000131023	ENST00000458696	protein_coding	PUTATIVE	None	6514	602	199	150005461	150039170	-1	None	WARTS
6	LATS1	ENSG00000131023	ENST00000542720	nonsense_mediated_decay	KNOWN	None	6514	408	135	150005540	150039160	-1	None	WARTS
10	C10orf91	ENSG00000180066	ENST00000490765	processed_transcript	KNOWN	None	27275	None	None	134257831	134261424	1	None	bA432J24.4
10	C10orf91	ENSG00000180066	ENST00000392630	protein_coding	KNOWN	CCDS7668	27275	438	145	134258693	134262912	1	None	bA432J24.4
10	C10orf91	ENSG00000180066	ENST00000321248	protein_coding	KNOWN	CCDS7668	27275	438	145	134258693	134262890	1	None	bA432J24.4
2	IL1R1	ENSG00000115594	ENST00000452403	protein_coding	KNOWN	None	5993	241	79	102681004	102781413	1	IL1R, IL1RA	D2S1473, CD121A
2	IL1R1	ENSG00000115594	ENST00000409929	protein_coding	NOVEL	None	5993	1617	538	102686836	102793219	1	IL1R, IL1RA	D2S1473, CD121A
2	IL1R1	ENSG00000115594	ENST00000424272	protein_coding	NOVEL	None	5993	1344	447	102686836	102793219	1	IL1R, IL1RA	D2S1473, CD121A
2	IL1R1	ENSG00000115594	ENST00000409589	protein_coding	PUTATIVE	None	5993	522	173	102721023	102796326	1	IL1R, IL1RA	D2S1473, CD121A
2	IL1R1	ENSG00000115594	ENST00000409329	protein_coding	PUTATIVE	None	5993	1344	447	102721029	102792277	1	IL1R, IL1RA	D2S1473, CD121A
2	IL1R1	ENSG00000115594	ENST00000450319	protein_coding	KNOWN	None	5993	318	105	102758231	102781596	1	IL1R, IL1RA	D2S1473, CD121A
2	IL1R1	ENSG00000115594	ENST00000428279	protein_coding	PUTATIVE	None	5993	896	297	102758279	102792837	1	IL1R, IL1RA	D2S1473, CD121A
2	IL1R1	ENSG00000115594	ENST00000442590	protein_coding	KNOWN	None	5993	344	113	102758766	102781622	1	IL1R, IL1RA	D2S1473, CD121A
2	IL1R1	ENSG00000115594	ENST00000409288	protein_coding	PUTATIVE	None	5993	1344	447	102759246	102792219	1	IL1R, IL1RA	D2S1473, CD121A
2	IL1R1	ENSG00000115594	ENST00000410023	protein_coding	KNOWN	CCDS2055	5993	1710	569	102759246	102796334	1	IL1R, IL1RA	D2S1473, CD121A
2	IL1R1	ENSG00000115594	ENST00000413623	nonsense_mediated_decay	KNOWN	None	5993	360	119	102770409	102793302	1	IL1R, IL1RA	D2S1473, CD121A
2	IL1R1	ENSG00000115594	ENST00000430171	protein_coding	KNOWN	None	5993	547	181	102770423	102782633	1	IL1R, IL1RA	D2S1473, CD121A
2	IL1R1	ENSG00000115594	ENST00000422532	nonsense_mediated_decay	KNOWN	None	5993	374	123	102781234	102788289	1	IL1R, IL1RA	D2S1473, CD121A
2	IL1R1	ENSG00000115594	ENST00000233946	protein_coding	KNOWN	CCDS2055	5993	1710	569	102770402	102796334	1	IL1R, IL1RA	D2S1473, CD121A
9	TRBV26OR9-2	ENSG00000231165	ENST00000432077	IG_V_pseudogene	KNOWN	None	15485	None	None	33695765	33696057	1	None	TRBV26/OR9-2, TCRBV28S2O, TCRBV28S2, TCRBV26S2
20	C20orf197	ENSG00000176659	ENST00000313426	protein_coding	KNOWN	CCDS13487	26601	381	126	58630980	58648008	1	None	FLJ33860
7	None	ENSG00000237466	ENST00000414801	unprocessed_pseudogene	KNOWN	None	None	None	None	67093009	67093336	1	None	None
1	None	ENSG00000233755	ENST00000424084	lincRNA	KNOWN	None	None	None	None	25370198	25439610	-1	None	None
1	None	ENSG00000233755	ENST00000429666	lincRNA	KNOWN	None	None	None	None	25436949	25439611	-1	None	None
7	None	ENSG00000233423	ENST00000420758	lincRNA	KNOWN	None	None	None	None	67156045	67162016	-1	None	None
HSCHR6_MHC_COX	OR12D3	ENSG00000251394	ENST00000508665	protein_coding	KNOWN	None	13963	951	316	29337930	29414451	-1	None	hs6M1-27
HSCHR6_MHC_COX	OR12D3	ENSG00000251394	ENST00000552012	protein_coding	KNOWN	None	13963	951	316	29337930	29339798	-1	None	hs6M1-27
13	ZIC2	ENSG00000043355	ENST00000376335	protein_coding	KNOWN	CCDS9495	12873	1599	532	100634026	100639018	1	None	HPE5
13	ZIC2	ENSG00000043355	ENST00000490085	processed_transcript	KNOWN	None	12873	None	None	100636543	100637746	1	None	HPE5
13	ZIC2	ENSG00000043355	ENST00000468291	processed_transcript	KNOWN	None	12873	None	None	100636943	100637746	1	None	HPE5
13	ZIC2	ENSG00000043355	ENST00000477213	processed_transcript	KNOWN	None	12873	None	None	100637043	100637728	1	None	HPE5
13	ZIC2	ENSG00000043355	ENST00000481565	processed_transcript	KNOWN	None	12873	None	None	100637748	100638158	1	None	HPE5
11	OR8B5P	ENSG00000255030	ENST00000533932	unprocessed_pseudogene	KNOWN	None	8474	None	None	124227456	124228365	-1	None	None
HSCHR6_MHC_QBL	None	ENSG00000257538	ENST00000547947	protein_coding	NOVEL	None	None	51	16	32547665	32562350	1	None	None
7	None	ENSG00000223948	ENST00000425870	processed_pseudogene	KNOWN	None	None	None	None	67234616	67235455	-1	None	None
1	None	ENSG00000233419	ENST00000413189	processed_pseudogene	KNOWN	None	None	None	None	25451544	25451945	-1	None	None
1	None	ENSG00000233419	ENST00000451939	processed_pseudogene	KNOWN	None	None	None	None	25451544	25451870	-1	None	None
7	None	ENSG00000225209	ENST00000444745	lincRNA	KNOWN	None	None	None	None	67485240	67497677	1	None	None
7	DPY19L2P2	ENSG00000170629	ENST00000439473	processed_transcript	KNOWN	None	21764	None	None	102815580	102920666	-1	None	DKFZp434E092, FLJ36166
7	DPY19L2P2	ENSG00000170629	ENST00000438364	processed_transcript	KNOWN	None	21764	None	None	102815580	102920725	-1	None	DKFZp434E092, FLJ36166
7	DPY19L2P2	ENSG00000170629	ENST00000411491	processed_transcript	KNOWN	None	21764	None	None	102815720	102920752	-1	None	DKFZp434E092, FLJ36166
7	DPY19L2P2	ENSG00000170629	ENST00000312132	processed_transcript	KNOWN	None	21764	None	None	102815720	102920857	-1	None	DKFZp434E092, FLJ36166
7	DPY19L2P2	ENSG00000170629	ENST00000435536	transcribed_unprocessed_pseudogene	KNOWN	None	21764	None	None	102815790	102918085	-1	None	DKFZp434E092, FLJ36166
7	DPY19L2P2	ENSG00000170629	ENST00000446373	retained_intron	KNOWN	None	21764	None	None	102913539	102920724	-1	None	DKFZp434E092, FLJ36166
4	FRG1	ENSG00000109536	ENST00000226798	protein_coding	KNOWN	CCDS34121	3954	777	258	190861943	190884359	1	None	FSG1, FRG1A
4	FRG1	ENSG00000109536	ENST00000524583	protein_coding	PUTATIVE	None	3954	308	101	190862025	190883039	1	None	FSG1, FRG1A
4	FRG1	ENSG00000109536	ENST00000533157	nonsense_mediated_decay	KNOWN	None	3954	129	42	190862054	190876305	1	None	FSG1, FRG1A
4	FRG1	ENSG00000109536	ENST00000531991	protein_coding	PUTATIVE	None	3954	348	115	190862056	190878657	1	None	FSG1, FRG1A
4	FRG1	ENSG00000109536	ENST00000514482	processed_transcript	KNOWN	None	3954	None	None	190862179	190882331	1	None	FSG1, FRG1A
4	FRG1	ENSG00000109536	ENST00000507103	nonsense_mediated_decay	KNOWN	None	3954	255	84	190881903	190884343	1	None	FSG1, FRG1A
4	FRG1	ENSG00000109536	ENST00000505327	processed_transcript	PUTATIVE	None	3954	None	None	190882237	190884357	1	None	FSG1, FRG1A
1	None	ENSG00000231953	ENST00000455902	antisense	KNOWN	None	None	None	None	25534630	25535360	1	None	None
1	None	ENSG00000272432	ENST00000607698	lincRNA	KNOWN	None	None	None	None	25574328	25574812	1	None	None
5	RN7SKP145	ENSG00000200161	ENST00000363291	misc_RNA	KNOWN	None	45869	None	None	148495741	148496043	-1	None	None
18	SERPINB10	ENSG00000242550	ENST00000397996	protein_coding	PUTATIVE	None	8942	840	279	61564408	61584724	1	PI10	bomapin
18	SERPINB10	ENSG00000242550	ENST00000418725	protein_coding	PUTATIVE	None	8942	759	252	61564408	61584724	1	PI10	bomapin
18	SERPINB10	ENSG00000242550	ENST00000238508	protein_coding	KNOWN	CCDS11990	8942	1194	397	61575225	61603345	1	PI10	bomapin
7	None	ENSG00000236531	ENST00000424888	lincRNA	KNOWN	None	None	None	None	67556210	67584196	1	None	None
10	ASCC1	ENSG00000138303	ENST00000342444	protein_coding	KNOWN	CCDS55713	24268	1203	400	73856279	73976033	-1	None	CGI-18, ASC1p50, Em:AC022392.3
10	ASCC1	ENSG00000138303	ENST00000317168	protein_coding	KNOWN	CCDS31219	24268	1074	357	73856279	73976046	-1	None	CGI-18, ASC1p50, Em:AC022392.3
10	ASCC1	ENSG00000138303	ENST00000534259	retained_intron	KNOWN	None	24268	None	None	73856280	73894221	-1	None	CGI-18, ASC1p50, Em:AC022392.3
10	ASCC1	ENSG00000138303	ENST00000486689	protein_coding	PUTATIVE	None	24268	877	291	73856280	73970495	-1	None	CGI-18, ASC1p50, Em:AC022392.3
10	ASCC1	ENSG00000138303	ENST00000530394	protein_coding	PUTATIVE	None	24268	437	144	73856799	73921314	-1	None	CGI-18, ASC1p50, Em:AC022392.3
10	ASCC1	ENSG00000138303	ENST00000317126	protein_coding	KNOWN	CCDS31219	24268	1074	357	73857012	73976892	-1	None	CGI-18, ASC1p50, Em:AC022392.3
10	ASCC1	ENSG00000138303	ENST00000525286	protein_coding	NOVEL	None	24268	527	174	73887840	73956747	-1	None	CGI-18, ASC1p50, Em:AC022392.3
10	ASCC1	ENSG00000138303	ENST00000526801	processed_transcript	PUTATIVE	None	24268	None	None	73912656	73919133	-1	None	CGI-18, ASC1p50, Em:AC022392.3
10	ASCC1	ENSG00000138303	ENST00000531048	protein_coding	NOVEL	None	24268	417	138	73921307	73973089	-1	None	CGI-18, ASC1p50, Em:AC022392.3
10	ASCC1	ENSG00000138303	ENST00000461369	nonsense_mediated_decay	KNOWN	None	24268	211	69	73921371	73964263	-1	None	CGI-18, ASC1p50, Em:AC022392.3
10	ASCC1	ENSG00000138303	ENST00000530461	protein_coding	PUTATIVE	None	24268	372	123	73956569	73976044	-1	None	CGI-18, ASC1p50, Em:AC022392.3
10	ASCC1	ENSG00000138303	ENST00000527593	protein_coding	KNOWN	None	24268	457	151	73956601	73976034	-1	None	CGI-18, ASC1p50, Em:AC022392.3
10	ASCC1	ENSG00000138303	ENST00000524829	protein_coding	KNOWN	None	24268	370	122	73956688	73976069	-1	None	CGI-18, ASC1p50, Em:AC022392.3
10	ASCC1	ENSG00000138303	ENST00000532011	nonsense_mediated_decay	KNOWN	None	24268	132	43	73956696	73976040	-1	None	CGI-18, ASC1p50, Em:AC022392.3
10	ASCC1	ENSG00000138303	ENST00000526751	protein_coding	KNOWN	None	24268	310	102	73963185	73975731	-1	None	CGI-18, ASC1p50, Em:AC022392.3
10	ASCC1	ENSG00000138303	ENST00000492502	processed_transcript	KNOWN	None	24268	None	None	73963200	73976015	-1	None	CGI-18, ASC1p50, Em:AC022392.3
10	ASCC1	ENSG00000138303	ENST00000533958	protein_coding	KNOWN	None	24268	169	55	73970533	73976033	-1	None	CGI-18, ASC1p50, Em:AC022392.3
10	ASCC1	ENSG00000138303	ENST00000545550	protein_coding	KNOWN	None	24268	1140	379	73857012	73976892	-1	None	CGI-18, ASC1p50, Em:AC022392.3
10	ASCC1	ENSG00000138303	ENST00000394919	protein_coding	KNOWN	CCDS31219	24268	1074	357	73856278	73975694	-1	None	CGI-18, ASC1p50, Em:AC022392.3
10	ASCC1	ENSG00000138303	ENST00000394915	protein_coding	KNOWN	CCDS55713	24268	1203	400	73862127	73976039	-1	None	CGI-18, ASC1p50, Em:AC022392.3
1	None	ENSG00000261349	ENST00000566714	unprocessed_pseudogene	KNOWN	None	None	None	None	25592593	25593627	-1	None	None
5	None	ENSG00000248647	ENST00000522685	antisense	KNOWN	None	None	None	None	148543518	148656339	-1	None	None
5	None	ENSG00000248647	ENST00000512647	antisense	KNOWN	None	None	None	None	148554071	148656325	-1	None	None
7	None	ENSG00000232975	ENST00000432182	unprocessed_pseudogene	KNOWN	None	None	None	None	67562724	67563237	1	None	None
1	SDHDP6	ENSG00000224183	ENST00000414693	processed_pseudogene	KNOWN	None	10689	None	None	25620655	25621134	-1	None	None
HSCHR6_MHC_MCF	CCHCR1	ENSG00000224180	ENST00000431539	protein_coding	KNOWN	None	13930	769	255	31188755	31191552	-1	C6orf18	HCR
HSCHR6_MHC_MCF	CCHCR1	ENSG00000224180	ENST00000433804	protein_coding	KNOWN	None	13930	2349	782	31188755	31204550	-1	C6orf18	HCR
HSCHR6_MHC_MCF	CCHCR1	ENSG00000224180	ENST00000419528	protein_coding	KNOWN	None	13930	2349	782	31188755	31204126	-1	C6orf18	HCR
HSCHR6_MHC_MCF	CCHCR1	ENSG00000224180	ENST00000428677	protein_coding	KNOWN	None	13930	2190	729	31188755	31204538	-1	C6orf18	HCR
HSCHR6_MHC_MCF	CCHCR1	ENSG00000224180	ENST00000461619	retained_intron	KNOWN	None	13930	None	None	31189376	31191618	-1	C6orf18	HCR
HSCHR6_MHC_MCF	CCHCR1	ENSG00000224180	ENST00000485747	processed_transcript	KNOWN	None	13930	None	None	31189412	31191431	-1	C6orf18	HCR
HSCHR6_MHC_MCF	CCHCR1	ENSG00000224180	ENST00000471519	processed_transcript	KNOWN	None	13930	None	None	31195469	31204528	-1	C6orf18	HCR
HSCHR6_MHC_MCF	CCHCR1	ENSG00000224180	ENST00000439536	protein_coding	KNOWN	None	13930	948	315	31196414	31203423	-1	C6orf18	HCR
HSCHR6_MHC_MCF	CCHCR1	ENSG00000224180	ENST00000498184	retained_intron	KNOWN	None	13930	None	None	31197176	31201070	-1	C6orf18	HCR
HSCHR6_MHC_MCF	CCHCR1	ENSG00000224180	ENST00000438739	protein_coding	KNOWN	None	13930	565	187	31197401	31204419	-1	C6orf18	HCR
HSCHR6_MHC_MCF	CCHCR1	ENSG00000224180	ENST00000425351	protein_coding	KNOWN	None	13930	458	151	31200891	31204524	-1	C6orf18	HCR
HSCHR6_MHC_MCF	CCHCR1	ENSG00000224180	ENST00000423825	protein_coding	KNOWN	None	13930	514	170	31200913	31204406	-1	C6orf18	HCR
HSCHR6_MHC_MCF	CCHCR1	ENSG00000224180	ENST00000427654	protein_coding	KNOWN	None	13930	356	117	31200993	31204125	-1	C6orf18	HCR
HSCHR6_MHC_MCF	CCHCR1	ENSG00000224180	ENST00000438424	protein_coding	KNOWN	None	13930	380	125	31201047	31204542	-1	C6orf18	HCR
HSCHR6_MHC_MCF	CCHCR1	ENSG00000224180	ENST00000461634	retained_intron	KNOWN	None	13930	None	None	31202565	31203422	-1	C6orf18	HCR
HSCHR6_MHC_MCF	CCHCR1	ENSG00000224180	ENST00000481855	processed_transcript	KNOWN	None	13930	None	None	31203092	31204109	-1	C6orf18	HCR
3	None	ENSG00000201810	ENST00000364940	snoRNA	NOVEL	None	None	None	None	180260489	180260624	1	None	None
16	FAM57B	ENSG00000149926	ENST00000279389	protein_coding	KNOWN	None	25295	675	224	30035748	30041405	-1	None	DKFZP434I2117
16	FAM57B	ENSG00000149926	ENST00000380495	protein_coding	KNOWN	CCDS10667	25295	825	274	30035748	30042580	-1	None	DKFZP434I2117
16	FAM57B	ENSG00000149926	ENST00000564806	protein_coding	NOVEL	None	25295	513	170	30035773	30040857	-1	None	DKFZP434I2117
16	FAM57B	ENSG00000149926	ENST00000569508	nonsense_mediated_decay	KNOWN	None	25295	129	42	30037924	30047851	-1	None	DKFZP434I2117
16	FAM57B	ENSG00000149926	ENST00000561666	protein_coding	PUTATIVE	None	25295	439	145	30037935	30064299	-1	None	DKFZP434I2117
16	FAM57B	ENSG00000149926	ENST00000567037	processed_transcript	KNOWN	None	25295	None	None	30043986	30047851	-1	None	DKFZP434I2117
16	FAM57B	ENSG00000149926	ENST00000571269	protein_coding	PUTATIVE	None	25295	53	16	30046744	30064244	-1	None	DKFZP434I2117
X	RNU6-245P	ENSG00000206747	ENST00000384020	snRNA	KNOWN	None	47208	None	None	67759285	67759391	-1	None	None
16	TUBB3	ENSG00000198211	ENST00000556922	protein_coding	NOVEL	None	20772	2394	797	89985573	90002500	1	None	beta-4
7	FAM220A	ENSG00000178397	ENST00000313324	protein_coding	KNOWN	CCDS34599	22422	780	259	6369040	6388590	-1	C7orf70	SIPAR, MGC12966
7	FAM220A	ENSG00000178397	ENST00000524898	protein_coding	KNOWN	None	22422	360	119	6370426	6378324	-1	C7orf70	SIPAR, MGC12966
7	FAM220A	ENSG00000178397	ENST00000530143	protein_coding	KNOWN	None	22422	327	108	6370459	6388606	-1	C7orf70	SIPAR, MGC12966
7	FAM220A	ENSG00000178397	ENST00000533877	processed_transcript	PUTATIVE	None	22422	None	None	6370795	6388612	-1	C7orf70	SIPAR, MGC12966
7	FAM220A	ENSG00000178397	ENST00000578372	protein_coding	PUTATIVE	None	22422	207	68	6370846	6388389	-1	C7orf70	SIPAR, MGC12966
19	KLK13	ENSG00000167759	ENST00000601975	nonsense_mediated_decay	KNOWN	None	6361	297	98	51559463	51568141	-1	None	KLK-L4
19	KLK13	ENSG00000167759	ENST00000376799	nonsense_mediated_decay	KNOWN	None	6361	297	98	51559463	51568141	-1	None	KLK-L4
19	KLK13	ENSG00000167759	ENST00000156476	nonsense_mediated_decay	KNOWN	None	6361	300	99	51559463	51568367	-1	None	KLK-L4
19	KLK13	ENSG00000167759	ENST00000602090	nonsense_mediated_decay	KNOWN	None	6361	282	93	51559463	51568367	-1	None	KLK-L4
19	KLK13	ENSG00000167759	ENST00000441527	nonsense_mediated_decay	KNOWN	None	6361	282	93	51559463	51568367	-1	None	KLK-L4
19	KLK13	ENSG00000167759	ENST00000595793	protein_coding	KNOWN	CCDS12822	6361	834	277	51559794	51568367	-1	None	KLK-L4
19	KLK13	ENSG00000167759	ENST00000595547	protein_coding	NOVEL	None	6361	615	204	51559844	51568324	-1	None	KLK-L4
19	KLK13	ENSG00000167759	ENST00000335422	protein_coding	NOVEL	None	6361	378	125	51559844	51568324	-1	None	KLK-L4
19	KLK13	ENSG00000167759	ENST00000596955	protein_coding	PUTATIVE	None	6361	543	180	51562900	51568371	-1	None	KLK-L4
16	None	ENSG00000221330	ENST00000408403	miRNA	NOVEL	None	None	None	None	79703552	79703634	-1	None	None
7	None	ENSG00000226829	ENST00000446187	processed_transcript	KNOWN	None	None	None	None	67615270	67753220	-1	None	None
HSCHR6_MHC_QBL	HLA-DQB1	ENSG00000206302	ENST00000383247	protein_coding	KNOWN	None	4944	786	261	32555534	32563145	-1	HLA-DQB	IDDM1, CELIAC1
HSCHR6_MHC_QBL	HLA-DQB1	ENSG00000206302	ENST00000399670	protein_coding	KNOWN	None	4944	675	224	32555578	32563124	-1	HLA-DQB	IDDM1, CELIAC1
HSCHR6_MHC_QBL	HLA-DQB1	ENSG00000206302	ENST00000551970	protein_coding	KNOWN	None	4944	717	238	32555704	32563121	-1	HLA-DQB	IDDM1, CELIAC1
1	None	ENSG00000259984	ENST00000570165	unprocessed_pseudogene	KNOWN	None	None	None	None	25662920	25663956	-1	None	None
X	RPL31P63	ENSG00000236735	ENST00000422565	processed_pseudogene	KNOWN	None	35666	None	None	67819941	67820315	1	None	None
X	RPL31P63	ENSG00000236735	ENST00000395150	processed_pseudogene	KNOWN	None	35666	None	None	67819926	67820315	1	None	None
1	RNU6-1171P	ENSG00000252515	ENST00000516706	snRNA	KNOWN	None	48134	None	None	25667462	25667525	1	None	None
7	None	ENSG00000237754	ENST00000425735	processed_pseudogene	KNOWN	None	None	None	None	67706624	67707254	1	None	None
1	None	ENSG00000238889	ENST00000459565	snoRNA	NOVEL	None	None	None	None	25672765	25672868	-1	None	None
5	None	ENSG00000272144	ENST00000607250	lincRNA	KNOWN	None	None	None	None	43061497	43062543	1	None	None
3	None	ENSG00000239774	ENST00000472596	lincRNA	KNOWN	None	None	None	None	180284506	180319723	-1	None	None
16	None	ENSG00000260876	ENST00000563360	lincRNA	KNOWN	None	None	None	None	79710005	79760326	1	None	None
16	None	ENSG00000260876	ENST00000561510	lincRNA	KNOWN	None	None	None	None	79747744	79832987	1	None	None
16	None	ENSG00000260876	ENST00000568751	lincRNA	KNOWN	None	None	None	None	79804368	79835240	1	None	None
16	None	ENSG00000260876	ENST00000567665	lincRNA	KNOWN	None	None	None	None	79832431	79832987	1	None	None
16	None	ENSG00000260876	ENST00000569164	lincRNA	KNOWN	None	None	None	None	79832490	79841819	1	None	None
1	None	ENSG00000238084	ENST00000419297	processed_pseudogene	KNOWN	None	None	None	None	25725212	25725689	1	None	None
1	None	ENSG00000238084	ENST00000541879	processed_pseudogene	KNOWN	None	None	None	None	25725203	25725771	1	None	None
5	MYOT	ENSG00000120729	ENST00000239926	protein_coding	KNOWN	CCDS4194	12399	1497	498	137203480	137223540	1	TTID, LGMD1A, LGMD1	None
5	MYOT	ENSG00000120729	ENST00000421631	protein_coding	KNOWN	CCDS47268	12399	945	314	137203547	137223226	1	TTID, LGMD1A, LGMD1	None
5	MYOT	ENSG00000120729	ENST00000511625	retained_intron	KNOWN	None	12399	None	None	137203549	137211883	1	TTID, LGMD1A, LGMD1	None
5	MYOT	ENSG00000120729	ENST00000509812	processed_transcript	KNOWN	None	12399	None	None	137203549	137221793	1	TTID, LGMD1A, LGMD1	None
5	MYOT	ENSG00000120729	ENST00000515645	protein_coding	PUTATIVE	None	12399	1152	383	137203565	137223217	1	TTID, LGMD1A, LGMD1	None
5	MYOT	ENSG00000120729	ENST00000511254	retained_intron	KNOWN	None	12399	None	None	137216304	137221856	1	TTID, LGMD1A, LGMD1	None
5	MYOT	ENSG00000120729	ENST00000503748	retained_intron	KNOWN	None	12399	None	None	137216307	137219273	1	TTID, LGMD1A, LGMD1	None
5	MYOT	ENSG00000120729	ENST00000508938	retained_intron	KNOWN	None	12399	None	None	137222389	137223258	1	TTID, LGMD1A, LGMD1	None
8	XKR6	ENSG00000171044	ENST00000382461	protein_coding	PUTATIVE	None	27806	1256	417	10753555	10859991	-1	C8orf7, C8orf21, C8orf5	None
8	XKR6	ENSG00000171044	ENST00000416569	protein_coding	KNOWN	CCDS5978	27806	1926	641	10754033	11058875	-1	C8orf7, C8orf21, C8orf5	None
8	XKR6	ENSG00000171044	ENST00000529336	nonsense_mediated_decay	KNOWN	None	27806	278	91	10969155	11058343	-1	C8orf7, C8orf21, C8orf5	None
8	XKR6	ENSG00000171044	ENST00000297303	protein_coding	PUTATIVE	None	27806	864	287	11051945	11058848	-1	C8orf7, C8orf21, C8orf5	None
8	XKR6	ENSG00000171044	ENST00000304437	protein_coding	KNOWN	None	27806	1089	362	10753665	10859991	-1	C8orf7, C8orf21, C8orf5	None
14	IFI27	ENSG00000165949	ENST00000554448	protein_coding	KNOWN	None	5397	186	61	94571182	94582191	1	None	P27, FAM14D
14	IFI27	ENSG00000165949	ENST00000557098	protein_coding	PUTATIVE	None	5397	225	74	94577080	94583027	1	None	P27, FAM14D
14	IFI27	ENSG00000165949	ENST00000555081	retained_intron	KNOWN	None	5397	None	None	94577082	94578479	1	None	P27, FAM14D
14	IFI27	ENSG00000165949	ENST00000557700	retained_intron	KNOWN	None	5397	None	None	94577082	94578540	1	None	P27, FAM14D
14	IFI27	ENSG00000165949	ENST00000554800	protein_coding	KNOWN	None	5397	171	56	94577085	94582176	1	None	P27, FAM14D
14	IFI27	ENSG00000165949	ENST00000556544	protein_coding	KNOWN	None	5397	280	92	94577093	94582784	1	None	P27, FAM14D
14	IFI27	ENSG00000165949	ENST00000298902	protein_coding	KNOWN	CCDS32148	5397	360	119	94577095	94583032	1	None	P27, FAM14D
14	IFI27	ENSG00000165949	ENST00000555819	protein_coding	KNOWN	None	5397	121	39	94577101	94581226	1	None	P27, FAM14D
14	IFI27	ENSG00000165949	ENST00000557634	protein_coding	NOVEL	None	5397	330	109	94577108	94583030	1	None	P27, FAM14D
14	IFI27	ENSG00000165949	ENST00000555744	protein_coding	KNOWN	CCDS32148	5397	360	119	94577161	94583032	1	None	P27, FAM14D
14	IFI27	ENSG00000165949	ENST00000553285	retained_intron	KNOWN	None	5397	None	None	94579197	94583025	1	None	P27, FAM14D
14	IFI27	ENSG00000165949	ENST00000557035	nonsense_mediated_decay	KNOWN	None	5397	194	63	94581197	94583031	1	None	P27, FAM14D
14	IFI27	ENSG00000165949	ENST00000555121	retained_intron	KNOWN	None	5397	None	None	94581857	94583027	1	None	P27, FAM14D
14	IFI27	ENSG00000165949	ENST00000444961	protein_coding	KNOWN	None	5397	369	122	94577079	94583033	1	None	P27, FAM14D
14	IFI27	ENSG00000165949	ENST00000448882	protein_coding	KNOWN	None	5397	369	122	94577079	94583033	1	None	P27, FAM14D
1	None	ENSG00000266468	ENST00000577655	miRNA	NOVEL	None	None	None	None	25732722	25732780	1	None	None
11	MUS81	ENSG00000172732	ENST00000529857	protein_coding	PUTATIVE	None	29814	608	201	65624597	65629479	1	None	FLJ44872, SLX3
11	MUS81	ENSG00000172732	ENST00000533035	protein_coding	PUTATIVE	None	29814	1431	476	65627533	65633911	1	None	FLJ44872, SLX3
11	MUS81	ENSG00000172732	ENST00000308110	protein_coding	KNOWN	CCDS8115	29814	1656	551	65627876	65633910	1	None	FLJ44872, SLX3
11	MUS81	ENSG00000172732	ENST00000525768	protein_coding	PUTATIVE	None	29814	405	134	65628016	65630560	1	None	FLJ44872, SLX3
11	MUS81	ENSG00000172732	ENST00000524647	nonsense_mediated_decay	KNOWN	None	29814	1169	388	65628331	65633888	1	None	FLJ44872, SLX3
11	MUS81	ENSG00000172732	ENST00000529374	protein_coding	NOVEL	None	29814	1232	409	65628536	65632745	1	None	FLJ44872, SLX3
11	MUS81	ENSG00000172732	ENST00000533555	retained_intron	KNOWN	None	29814	None	None	65628768	65630893	1	None	FLJ44872, SLX3
11	MUS81	ENSG00000172732	ENST00000531905	retained_intron	KNOWN	None	29814	None	None	65628829	65633909	1	None	FLJ44872, SLX3
11	MUS81	ENSG00000172732	ENST00000530111	protein_coding	NOVEL	None	29814	692	229	65628870	65631361	1	None	FLJ44872, SLX3
11	MUS81	ENSG00000172732	ENST00000530928	retained_intron	KNOWN	None	29814	None	None	65630548	65633889	1	None	FLJ44872, SLX3
11	MUS81	ENSG00000172732	ENST00000525147	retained_intron	KNOWN	None	29814	None	None	65631104	65632286	1	None	FLJ44872, SLX3
11	MUS81	ENSG00000172732	ENST00000525224	processed_transcript	PUTATIVE	None	29814	None	None	65631277	65632286	1	None	FLJ44872, SLX3
11	MUS81	ENSG00000172732	ENST00000529786	retained_intron	KNOWN	None	29814	None	None	65631357	65633115	1	None	FLJ44872, SLX3
11	MUS81	ENSG00000172732	ENST00000530282	retained_intron	KNOWN	None	29814	None	None	65632331	65633646	1	None	FLJ44872, SLX3
11	MUS81	ENSG00000172732	ENST00000533519	retained_intron	KNOWN	None	29814	None	None	65632639	65633910	1	None	FLJ44872, SLX3
11	MUS81	ENSG00000172732	ENST00000529742	protein_coding	PUTATIVE	None	29814	192	63	65632691	65633910	1	None	FLJ44872, SLX3
11	MUS81	ENSG00000172732	ENST00000525006	processed_transcript	PUTATIVE	None	29814	None	None	65633329	65635124	1	None	FLJ44872, SLX3
1	None	ENSG00000225643	ENST00000412797	lincRNA	KNOWN	None	None	None	None	25907969	25916847	1	None	None
2	ANKMY1	ENSG00000144504	ENST00000373318	protein_coding	NOVEL	None	20987	2163	720	241418839	241497379	-1	None	FLJ20499, ZMYND13
2	ANKMY1	ENSG00000144504	ENST00000406958	protein_coding	NOVEL	None	20987	2109	702	241418839	241497380	-1	None	FLJ20499, ZMYND13
2	ANKMY1	ENSG00000144504	ENST00000272972	protein_coding	KNOWN	CCDS2536	20987	2826	941	241418839	241497391	-1	None	FLJ20499, ZMYND13
2	ANKMY1	ENSG00000144504	ENST00000361678	protein_coding	KNOWN	CCDS2535	20987	2154	717	241418839	241497438	-1	None	FLJ20499, ZMYND13
2	ANKMY1	ENSG00000144504	ENST00000403283	protein_coding	PUTATIVE	None	20987	2532	843	241418844	241500527	-1	None	FLJ20499, ZMYND13
2	ANKMY1	ENSG00000144504	ENST00000401804	protein_coding	NOVEL	None	20987	3093	1030	241419026	241497419	-1	None	FLJ20499, ZMYND13
2	ANKMY1	ENSG00000144504	ENST00000407275	protein_coding	NOVEL	None	20987	252	83	241420410	241439521	-1	None	FLJ20499, ZMYND13
2	ANKMY1	ENSG00000144504	ENST00000489677	retained_intron	KNOWN	None	20987	None	None	241439941	241447226	-1	None	FLJ20499, ZMYND13
2	ANKMY1	ENSG00000144504	ENST00000391988	protein_coding	NOVEL	None	20987	569	188	241439961	241459944	-1	None	FLJ20499, ZMYND13
2	ANKMY1	ENSG00000144504	ENST00000405523	protein_coding	KNOWN	None	20987	1320	439	241459172	241497438	-1	None	FLJ20499, ZMYND13
2	ANKMY1	ENSG00000144504	ENST00000405002	protein_coding	PUTATIVE	None	20987	879	292	241461355	241500508	-1	None	FLJ20499, ZMYND13
2	ANKMY1	ENSG00000144504	ENST00000480230	retained_intron	KNOWN	None	20987	None	None	241461356	241467298	-1	None	FLJ20499, ZMYND13
2	ANKMY1	ENSG00000144504	ENST00000484526	retained_intron	KNOWN	None	20987	None	None	241461356	241500508	-1	None	FLJ20499, ZMYND13
2	ANKMY1	ENSG00000144504	ENST00000459901	retained_intron	KNOWN	None	20987	None	None	241462675	241494977	-1	None	FLJ20499, ZMYND13
2	ANKMY1	ENSG00000144504	ENST00000496300	retained_intron	KNOWN	None	20987	None	None	241463240	241500185	-1	None	FLJ20499, ZMYND13
2	ANKMY1	ENSG00000144504	ENST00000441168	protein_coding	PUTATIVE	None	20987	504	167	241465102	241500508	-1	None	FLJ20499, ZMYND13
2	ANKMY1	ENSG00000144504	ENST00000443318	protein_coding	PUTATIVE	None	20987	565	187	241465221	241500193	-1	None	FLJ20499, ZMYND13
2	ANKMY1	ENSG00000144504	ENST00000462004	processed_transcript	KNOWN	None	20987	None	None	241465654	241500186	-1	None	FLJ20499, ZMYND13
2	ANKMY1	ENSG00000144504	ENST00000418708	protein_coding	KNOWN	None	20987	682	226	241468458	241508594	-1	None	FLJ20499, ZMYND13
2	ANKMY1	ENSG00000144504	ENST00000418505	protein_coding	NOVEL	None	20987	273	90	241471493	241508626	-1	None	FLJ20499, ZMYND13
2	ANKMY1	ENSG00000144504	ENST00000464991	retained_intron	KNOWN	None	20987	None	None	241492159	241500862	-1	None	FLJ20499, ZMYND13
2	ANKMY1	ENSG00000144504	ENST00000477316	retained_intron	KNOWN	None	20987	None	None	241492451	241496823	-1	None	FLJ20499, ZMYND13
2	ANKMY1	ENSG00000144504	ENST00000411765	protein_coding	KNOWN	None	20987	223	73	241494396	241500243	-1	None	FLJ20499, ZMYND13
2	ANKMY1	ENSG00000144504	ENST00000391987	protein_coding	KNOWN	CCDS2536	20987	2826	941	241418839	241497380	-1	None	FLJ20499, ZMYND13
2	ANKMY1	ENSG00000144504	ENST00000373320	protein_coding	KNOWN	None	20987	2136	711	241418839	241497380	-1	None	FLJ20499, ZMYND13
2	ANKMY1	ENSG00000144504	ENST00000536462	protein_coding	KNOWN	None	20987	1020	339	241452237	241500508	-1	None	FLJ20499, ZMYND13
22	RANGAP1	ENSG00000100401	ENST00000405486	protein_coding	KNOWN	CCDS14012	9854	1764	587	41641615	41681969	-1	SD	Fug1, KIAA1835
22	RANGAP1	ENSG00000100401	ENST00000356244	protein_coding	KNOWN	CCDS14012	9854	1764	587	41641615	41682255	-1	SD	Fug1, KIAA1835
22	RANGAP1	ENSG00000100401	ENST00000455915	protein_coding	KNOWN	CCDS14012	9854	1764	587	41641619	41678518	-1	SD	Fug1, KIAA1835
22	RANGAP1	ENSG00000100401	ENST00000446258	protein_coding	KNOWN	None	9854	759	252	41652025	41670664	-1	SD	Fug1, KIAA1835
22	RANGAP1	ENSG00000100401	ENST00000452543	protein_coding	KNOWN	None	9854	400	132	41660748	41677625	-1	SD	Fug1, KIAA1835
22	RANGAP1	ENSG00000100401	ENST00000418067	protein_coding	KNOWN	None	9854	300	99	41664101	41677642	-1	SD	Fug1, KIAA1835
22	RANGAP1	ENSG00000100401	ENST00000422838	protein_coding	KNOWN	None	9854	112	36	41676937	41681909	-1	SD	Fug1, KIAA1835
22	RANGAP1	ENSG00000100401	ENST00000407260	protein_coding	KNOWN	None	9854	1599	532	41642447	41676773	-1	SD	Fug1, KIAA1835
1	None	ENSG00000233478	ENST00000436991	antisense	KNOWN	None	None	None	None	25971035	25985602	-1	None	None
11	OR8B1P	ENSG00000227737	ENST00000419328	unprocessed_pseudogene	KNOWN	None	8470	None	None	124235530	124236447	-1	OR8B11P	OR11-561
X	MAGED4B	ENSG00000187243	ENST00000490581	nonsense_mediated_decay	KNOWN	None	22880	101	32	51804923	51807639	-1	None	None
X	MAGED4B	ENSG00000187243	ENST00000481096	retained_intron	KNOWN	None	22880	None	None	51804923	51809773	-1	None	None
X	MAGED4B	ENSG00000187243	ENST00000470594	retained_intron	KNOWN	None	22880	None	None	51804923	51812278	-1	None	None
X	MAGED4B	ENSG00000187243	ENST00000497164	protein_coding	KNOWN	CCDS14338	22880	2226	741	51804923	51812278	-1	None	None
X	MAGED4B	ENSG00000187243	ENST00000360134	protein_coding	KNOWN	CCDS35281	22880	2220	739	51804923	51812294	-1	None	None
X	MAGED4B	ENSG00000187243	ENST00000485287	protein_coding	NOVEL	CCDS56602	22880	2274	757	51804923	51812315	-1	None	None
X	MAGED4B	ENSG00000187243	ENST00000335504	protein_coding	KNOWN	CCDS14338	22880	2226	741	51804923	51812344	-1	None	None
X	MAGED4B	ENSG00000187243	ENST00000480114	nonsense_mediated_decay	KNOWN	None	22880	1065	354	51804925	51812303	-1	None	None
X	MAGED4B	ENSG00000187243	ENST00000471617	processed_transcript	KNOWN	None	22880	None	None	51804935	51807173	-1	None	None
X	MAGED4B	ENSG00000187243	ENST00000481193	nonsense_mediated_decay	KNOWN	None	22880	147	48	51805652	51808388	-1	None	None
X	MAGED4B	ENSG00000187243	ENST00000514560	retained_intron	KNOWN	None	22880	None	None	51809141	51809753	-1	None	None
X	MAGED4B	ENSG00000187243	ENST00000486469	processed_transcript	KNOWN	None	22880	None	None	51810098	51810701	-1	None	None
X	MAGED4B	ENSG00000187243	ENST00000486010	protein_coding	NOVEL	None	22880	815	270	51810106	51812268	-1	None	None
X	MAGED4B	ENSG00000187243	ENST00000431659	protein_coding	KNOWN	CCDS56602	22880	2274	757	51804923	51812368	-1	None	None
1	RPL5	ENSG00000122406	ENST00000370321	protein_coding	KNOWN	CCDS741	10360	894	297	93297582	93307481	1	None	L5
1	RPL5	ENSG00000122406	ENST00000470843	nonsense_mediated_decay	KNOWN	None	10360	192	63	93297621	93301911	1	None	L5
1	RPL5	ENSG00000122406	ENST00000315741	protein_coding	PUTATIVE	None	10360	391	129	93297666	93303026	1	None	L5
1	RPL5	ENSG00000122406	ENST00000461952	retained_intron	KNOWN	None	10360	None	None	93298319	93301828	1	None	L5
1	RPL5	ENSG00000122406	ENST00000497519	retained_intron	KNOWN	None	10360	None	None	93302167	93307419	1	None	L5
1	ERRFI1	ENSG00000116285	ENST00000474874	protein_coding	PUTATIVE	None	18185	162	53	8064464	8086343	-1	None	MIG-6, GENE-33, RALT
1	ERRFI1	ENSG00000116285	ENST00000377482	protein_coding	KNOWN	CCDS94	18185	1389	462	8071779	8086368	-1	None	MIG-6, GENE-33, RALT
1	ERRFI1	ENSG00000116285	ENST00000467067	protein_coding	PUTATIVE	None	18185	240	79	8073487	8075693	-1	None	MIG-6, GENE-33, RALT
1	ERRFI1	ENSG00000116285	ENST00000469499	protein_coding	PUTATIVE	None	18185	225	74	8073799	8086356	-1	None	MIG-6, GENE-33, RALT
1	ERRFI1	ENSG00000116285	ENST00000487559	nonsense_mediated_decay	KNOWN	None	18185	159	52	8074100	8086356	-1	None	MIG-6, GENE-33, RALT
1	None	ENSG00000228172	ENST00000442055	antisense	KNOWN	None	None	None	None	26143240	26146263	-1	None	None
1	None	ENSG00000228172	ENST00000453649	retained_intron	KNOWN	None	None	None	None	26143241	26146234	-1	None	None
19	None	ENSG00000267898	ENST00000599784	lincRNA	KNOWN	None	None	None	None	49467232	49468415	1	None	None
19	None	ENSG00000267898	ENST00000594305	lincRNA	KNOWN	None	None	None	None	49467247	49468286	1	None	None
HSCHR6_MHC_MCF	HLA-A	ENSG00000227715	ENST00000479494	retained_intron	KNOWN	None	4931	None	None	29988824	29991564	1	None	None
HSCHR6_MHC_MCF	HLA-A	ENSG00000227715	ENST00000476132	retained_intron	KNOWN	None	4931	None	None	29988824	29991564	1	None	None
HSCHR6_MHC_MCF	HLA-A	ENSG00000227715	ENST00000453057	protein_coding	KNOWN	None	4931	1096	364	29988824	29992167	1	None	None
HSCHR6_MHC_MCF	HLA-A	ENSG00000227715	ENST00000455882	protein_coding	KNOWN	None	4931	1114	370	29988824	29992167	1	None	None
HSCHR6_MHC_MCF	HLA-A	ENSG00000227715	ENST00000471291	retained_intron	KNOWN	None	4931	None	None	29988824	29992167	1	None	None
HSCHR6_MHC_MCF	HLA-A	ENSG00000227715	ENST00000413609	protein_coding	KNOWN	None	4931	898	298	29988824	29992167	1	None	None
HSCHR6_MHC_MCF	HLA-A	ENSG00000227715	ENST00000478186	retained_intron	KNOWN	None	4931	None	None	29988824	29992167	1	None	None
HSCHR6_MHC_MCF	HLA-A	ENSG00000227715	ENST00000547522	protein_coding	KNOWN	None	4931	1089	362	29846763	29992151	1	None	None
1	None	ENSG00000272478	ENST00000606617	antisense	KNOWN	None	None	None	None	26158404	26158625	-1	None	None
11	None	ENSG00000255384	ENST00000532619	protein_coding	PUTATIVE	None	None	444	147	118303836	118305921	-1	None	None
1	None	ENSG00000236528	ENST00000455431	antisense	KNOWN	None	None	None	None	26186104	26189911	1	None	None
6	CITED2	ENSG00000164442	ENST00000367651	protein_coding	KNOWN	CCDS5195	1987	813	270	139693393	139695757	-1	None	MRG1
6	CITED2	ENSG00000164442	ENST00000536159	protein_coding	KNOWN	CCDS5195	1987	813	270	139693396	139695499	-1	None	MRG1
6	CITED2	ENSG00000164442	ENST00000537332	protein_coding	KNOWN	CCDS5195	1987	813	270	139693396	139695350	-1	None	MRG1
19	PPP1R13L	ENSG00000104881	ENST00000360957	protein_coding	KNOWN	CCDS33050	18838	2487	828	45882892	45908296	-1	None	RAI, IASPP
19	PPP1R13L	ENSG00000104881	ENST00000589371	protein_coding	PUTATIVE	None	18838	273	90	45882896	45885850	-1	None	RAI, IASPP
19	PPP1R13L	ENSG00000104881	ENST00000591986	protein_coding	PUTATIVE	None	18838	89	28	45882896	45888876	-1	None	RAI, IASPP
19	PPP1R13L	ENSG00000104881	ENST00000587270	retained_intron	KNOWN	None	18838	None	None	45882896	45896425	-1	None	RAI, IASPP
19	PPP1R13L	ENSG00000104881	ENST00000418234	protein_coding	KNOWN	CCDS33050	18838	2487	828	45882896	45909607	-1	None	RAI, IASPP
19	PPP1R13L	ENSG00000104881	ENST00000589858	retained_intron	KNOWN	None	18838	None	None	45885822	45889361	-1	None	RAI, IASPP
19	PPP1R13L	ENSG00000104881	ENST00000585905	retained_intron	KNOWN	None	18838	None	None	45897911	45909567	-1	None	RAI, IASPP
19	PPP1R13L	ENSG00000104881	ENST00000593226	protein_coding	KNOWN	None	18838	385	127	45900130	45909585	-1	None	RAI, IASPP
19	PPP1R13L	ENSG00000104881	ENST00000592134	protein_coding	KNOWN	None	18838	180	59	45901281	45908321	-1	None	RAI, IASPP
13	RNU7-88P	ENSG00000239003	ENST00000458752	snRNA	KNOWN	None	42617	None	None	60054204	60054266	1	None	None
12	None	ENSG00000257754	ENST00000549448	antisense	KNOWN	None	None	None	None	104213388	104215863	1	None	None
1	None	ENSG00000207302	ENST00000384572	misc_RNA	NOVEL	None	None	None	None	26203987	26204096	1	None	None
1	SNRPFP2	ENSG00000229786	ENST00000440710	processed_pseudogene	KNOWN	None	39665	None	None	26213851	26214101	1	None	None
13	DIAPH3-AS1	ENSG00000227528	ENST00000435636	antisense	KNOWN	None	39915	None	None	60586885	60618491	1	None	None
13	DIAPH3-AS1	ENSG00000227528	ENST00000422052	antisense	KNOWN	None	39915	None	None	60587437	60618491	1	None	None
13	DIAPH3-AS1	ENSG00000227528	ENST00000432995	antisense	KNOWN	None	39915	None	None	60587440	60618491	1	None	None
7	MDH2	ENSG00000146701	ENST00000461263	protein_coding	PUTATIVE	None	6971	87	28	75677369	75678365	1	None	None
7	MDH2	ENSG00000146701	ENST00000315758	protein_coding	KNOWN	CCDS5581	6971	1017	338	75677385	75696826	1	None	None
7	MDH2	ENSG00000146701	ENST00000443006	protein_coding	PUTATIVE	None	6971	696	231	75677403	75696824	1	None	None
7	MDH2	ENSG00000146701	ENST00000461665	retained_intron	KNOWN	None	6971	None	None	75677454	75687493	1	None	None
7	MDH2	ENSG00000146701	ENST00000490105	processed_transcript	PUTATIVE	None	6971	None	None	75677479	75686765	1	None	None
7	MDH2	ENSG00000146701	ENST00000432020	protein_coding	NOVEL	None	6971	891	296	75677479	75696385	1	None	None
7	MDH2	ENSG00000146701	ENST00000492663	retained_intron	KNOWN	None	6971	None	None	75683822	75686778	1	None	None
7	MDH2	ENSG00000146701	ENST00000424167	retained_intron	KNOWN	None	6971	None	None	75689686	75694491	1	None	None
1	None	ENSG00000223624	ENST00000453780	processed_pseudogene	KNOWN	None	None	None	None	26215461	26215600	1	None	None
19	None	ENSG00000261770	ENST00000562493	lincRNA	KNOWN	None	None	None	None	28248092	28251757	-1	None	None
1	MIR3917	ENSG00000264021	ENST00000580971	miRNA	KNOWN	None	38911	None	None	26232853	26232945	-1	None	hsa-mir-3917
21	PSMG1	ENSG00000183527	ENST00000331573	protein_coding	KNOWN	CCDS13660	3043	867	288	40546695	40555777	-1	DSCR2	c21-LRP, LRPC21, PAC1
21	PSMG1	ENSG00000183527	ENST00000481921	retained_intron	KNOWN	None	3043	None	None	40547384	40550746	-1	DSCR2	c21-LRP, LRPC21, PAC1
21	PSMG1	ENSG00000183527	ENST00000411828	nonsense_mediated_decay	KNOWN	None	3043	40	12	40547514	40555213	-1	DSCR2	c21-LRP, LRPC21, PAC1
21	PSMG1	ENSG00000183527	ENST00000431628	nonsense_mediated_decay	KNOWN	None	3043	192	63	40547516	40555311	-1	DSCR2	c21-LRP, LRPC21, PAC1
21	PSMG1	ENSG00000183527	ENST00000380900	protein_coding	KNOWN	CCDS13661	3043	804	267	40547516	40555414	-1	DSCR2	c21-LRP, LRPC21, PAC1
1	None	ENSG00000266763	ENST00000584862	miRNA	NOVEL	None	None	None	None	26238240	26238313	1	None	None
13	RN7SL375P	ENSG00000265745	ENST00000492442	misc_RNA	KNOWN	None	46391	None	None	60608601	60608896	-1	None	None
1	RNU6-110P	ENSG00000207237	ENST00000384508	snRNA	KNOWN	None	47073	None	None	26290688	26290791	1	None	None
7	TFEC	ENSG00000105967	ENST00000265440	protein_coding	KNOWN	CCDS5762	11754	1044	347	115575202	115670795	-1	None	TCFEC, TFECL, bHLHe34
7	TFEC	ENSG00000105967	ENST00000320239	protein_coding	KNOWN	CCDS34738	11754	957	318	115575210	115670867	-1	None	TCFEC, TFECL, bHLHe34
7	TFEC	ENSG00000105967	ENST00000462828	processed_transcript	KNOWN	None	11754	None	None	115580003	115590948	-1	None	TCFEC, TFECL, bHLHe34
7	TFEC	ENSG00000105967	ENST00000393485	protein_coding	KNOWN	None	11754	594	197	115580003	115670798	-1	None	TCFEC, TFECL, bHLHe34
7	TFEC	ENSG00000105967	ENST00000484212	protein_coding	NOVEL	None	11754	951	316	115581810	115799950	-1	None	TCFEC, TFECL, bHLHe34
7	TFEC	ENSG00000105967	ENST00000497829	processed_transcript	KNOWN	None	11754	None	None	115596803	115608367	-1	None	TCFEC, TFECL, bHLHe34
7	TFEC	ENSG00000105967	ENST00000474337	processed_transcript	KNOWN	None	11754	None	None	115750827	115799949	-1	None	TCFEC, TFECL, bHLHe34
7	TFEC	ENSG00000105967	ENST00000465322	processed_transcript	KNOWN	None	11754	None	None	115760244	115799949	-1	None	TCFEC, TFECL, bHLHe34
7	TFEC	ENSG00000105967	ENST00000457268	protein_coding	KNOWN	CCDS59076	11754	843	280	115575202	115608304	-1	None	TCFEC, TFECL, bHLHe34
1	None	ENSG00000252190	ENST00000516381	snoRNA	NOVEL	None	None	None	None	26332497	26332621	1	None	None
13	DIAPH3-AS2	ENSG00000223815	ENST00000428656	antisense	KNOWN	None	39916	None	None	60718832	60727639	1	None	None
3	RNU6-486P	ENSG00000199986	ENST00000363116	snRNA	KNOWN	None	47449	None	None	180298845	180298951	1	None	None
1	None	ENSG00000252691	ENST00000516882	snoRNA	NOVEL	None	None	None	None	26332707	26332790	1	None	None
20	HELZ2	ENSG00000130589	ENST00000427522	protein_coding	KNOWN	CCDS13527	30021	6243	2080	62189439	62199427	-1	None	PDIP1, PRIC285, KIAA1769
20	HELZ2	ENSG00000130589	ENST00000478861	processed_transcript	KNOWN	None	30021	None	None	62190015	62192958	-1	None	PDIP1, PRIC285, KIAA1769
20	HELZ2	ENSG00000130589	ENST00000467148	protein_coding	KNOWN	CCDS33508	30021	7950	2649	62190555	62203808	-1	None	PDIP1, PRIC285, KIAA1769
20	HELZ2	ENSG00000130589	ENST00000479540	processed_transcript	KNOWN	None	30021	None	None	62201479	62205592	-1	None	PDIP1, PRIC285, KIAA1769
20	HELZ2	ENSG00000130589	ENST00000370082	retained_intron	KNOWN	None	30021	None	None	62201492	62205592	-1	None	PDIP1, PRIC285, KIAA1769
1	None	ENSG00000265320	ENST00000581535	miRNA	NOVEL	None	None	None	None	26398069	26398168	1	None	None
7	None	ENSG00000266430	ENST00000577937	miRNA	NOVEL	None	None	None	None	26099959	26100058	1	None	None
13	RNY4P28	ENSG00000202151	ENST00000365281	misc_RNA	KNOWN	None	42496	None	None	60761872	60761964	-1	None	None
10	C10orf82	ENSG00000165863	ENST00000369210	protein_coding	PUTATIVE	CCDS7596	28500	465	154	118423207	118429481	-1	None	MGC33547, Em:AC016825.4
10	C10orf82	ENSG00000165863	ENST00000467153	retained_intron	KNOWN	None	28500	None	None	118423297	118429470	-1	None	MGC33547, Em:AC016825.4
10	C10orf82	ENSG00000165863	ENST00000588184	protein_coding	KNOWN	None	28500	705	234	118423310	118429466	-1	None	MGC33547, Em:AC016825.4
10	C10orf82	ENSG00000165863	ENST00000588224	retained_intron	KNOWN	None	28500	None	None	118423797	118429775	-1	None	MGC33547, Em:AC016825.4
HSCHR6_MHC_QBL	None	ENSG00000257213	ENST00000551948	protein_coding	NOVEL	None	None	24	7	32624040	32627805	-1	None	None
13	LINC00434	ENSG00000227336	ENST00000423739	lincRNA	KNOWN	None	42769	None	None	60788486	60789080	-1	None	None
11	OR8C1P	ENSG00000229254	ENST00000427511	unprocessed_pseudogene	KNOWN	None	8478	None	None	124246773	124247697	-1	OR8C3P, OR8C4P	OR11-175, OR912-45, OR912-106
19	ITPKC	ENSG00000086544	ENST00000263370	protein_coding	KNOWN	CCDS12563	14897	2052	683	41223008	41246765	1	None	IP3KC, IP3-3KC
19	ITPKC	ENSG00000086544	ENST00000597003	nonsense_mediated_decay	KNOWN	None	14897	153	50	41235226	41245574	1	None	IP3KC, IP3-3KC
18	PIAS2	ENSG00000078043	ENST00000585916	protein_coding	KNOWN	CCDS32824	17311	1866	621	44388353	44497308	-1	None	PIASX-BETA, miz, PIASX-ALPHA, ZMIZ4
18	PIAS2	ENSG00000078043	ENST00000398654	nonsense_mediated_decay	KNOWN	None	17311	549	182	44392243	44497417	-1	None	PIASX-BETA, miz, PIASX-ALPHA, ZMIZ4
18	PIAS2	ENSG00000078043	ENST00000545673	protein_coding	PUTATIVE	None	17311	849	282	44398154	44497468	-1	None	PIASX-BETA, miz, PIASX-ALPHA, ZMIZ4
18	PIAS2	ENSG00000078043	ENST00000324794	protein_coding	KNOWN	CCDS32825	17311	1719	572	44398318	44497466	-1	None	PIASX-BETA, miz, PIASX-ALPHA, ZMIZ4
18	PIAS2	ENSG00000078043	ENST00000592212	retained_intron	KNOWN	None	17311	None	None	44407372	44483598	-1	None	PIASX-BETA, miz, PIASX-ALPHA, ZMIZ4
18	PIAS2	ENSG00000078043	ENST00000590127	retained_intron	KNOWN	None	17311	None	None	44407721	44497437	-1	None	PIASX-BETA, miz, PIASX-ALPHA, ZMIZ4
18	PIAS2	ENSG00000078043	ENST00000592011	retained_intron	KNOWN	None	17311	None	None	44416206	44500123	-1	None	PIASX-BETA, miz, PIASX-ALPHA, ZMIZ4
18	PIAS2	ENSG00000078043	ENST00000591865	retained_intron	KNOWN	None	17311	None	None	44423814	44424934	-1	None	PIASX-BETA, miz, PIASX-ALPHA, ZMIZ4
18	PIAS2	ENSG00000078043	ENST00000589819	retained_intron	KNOWN	None	17311	None	None	44426427	44444195	-1	None	PIASX-BETA, miz, PIASX-ALPHA, ZMIZ4
18	PIAS2	ENSG00000078043	ENST00000589917	protein_coding	PUTATIVE	None	17311	366	121	44470649	44500106	-1	None	PIASX-BETA, miz, PIASX-ALPHA, ZMIZ4
18	PIAS2	ENSG00000078043	ENST00000586953	protein_coding	PUTATIVE	None	17311	264	87	44470772	44497042	-1	None	PIASX-BETA, miz, PIASX-ALPHA, ZMIZ4
18	PIAS2	ENSG00000078043	ENST00000592221	protein_coding	PUTATIVE	None	17311	269	88	44470857	44498004	-1	None	PIASX-BETA, miz, PIASX-ALPHA, ZMIZ4
18	PIAS2	ENSG00000078043	ENST00000587810	protein_coding	PUTATIVE	None	17311	287	94	44470857	44500111	-1	None	PIASX-BETA, miz, PIASX-ALPHA, ZMIZ4
18	PIAS2	ENSG00000078043	ENST00000586170	processed_transcript	KNOWN	None	17311	None	None	44470995	44497383	-1	None	PIASX-BETA, miz, PIASX-ALPHA, ZMIZ4
18	PIAS2	ENSG00000078043	ENST00000586634	retained_intron	KNOWN	None	17311	None	None	44485723	44497313	-1	None	PIASX-BETA, miz, PIASX-ALPHA, ZMIZ4
18	PIAS2	ENSG00000078043	ENST00000590944	processed_transcript	KNOWN	None	17311	None	None	44487461	44487962	-1	None	PIASX-BETA, miz, PIASX-ALPHA, ZMIZ4
1	None	ENSG00000236782	ENST00000407889	antisense	KNOWN	None	None	None	None	26496438	26498156	-1	None	None
1	None	ENSG00000236782	ENST00000414762	antisense	KNOWN	None	None	None	None	26496671	26497304	-1	None	None
1	None	ENSG00000236782	ENST00000433939	antisense	KNOWN	None	None	None	None	26496671	26498229	-1	None	None
1	None	ENSG00000236782	ENST00000444682	antisense	KNOWN	None	None	None	None	26496685	26497864	-1	None	None
1	None	ENSG00000236782	ENST00000448923	antisense	KNOWN	None	None	None	None	26496983	26498312	-1	None	None
21	PCBP3	ENSG00000183570	ENST00000465077	processed_transcript	KNOWN	None	8651	None	None	47063608	47208653	1	None	None
21	PCBP3	ENSG00000183570	ENST00000400314	protein_coding	KNOWN	CCDS42974	8651	1116	371	47063608	47362368	1	None	None
21	PCBP3	ENSG00000183570	ENST00000472191	processed_transcript	KNOWN	None	8651	None	None	47063624	47088946	1	None	None
21	PCBP3	ENSG00000183570	ENST00000594149	processed_transcript	KNOWN	None	8651	None	None	47093469	47170970	1	None	None
21	PCBP3	ENSG00000183570	ENST00000593338	processed_transcript	KNOWN	None	8651	None	None	47155306	47169813	1	None	None
21	PCBP3	ENSG00000183570	ENST00000594320	processed_transcript	KNOWN	None	8651	None	None	47169307	47170389	1	None	None
21	PCBP3	ENSG00000183570	ENST00000423045	processed_transcript	KNOWN	None	8651	None	None	47170542	47172900	1	None	None
21	PCBP3	ENSG00000183570	ENST00000400310	protein_coding	KNOWN	None	8651	1056	351	47268077	47362368	1	None	None
21	PCBP3	ENSG00000183570	ENST00000400309	protein_coding	KNOWN	None	8651	1113	370	47269875	47362368	1	None	None
21	PCBP3	ENSG00000183570	ENST00000400308	protein_coding	KNOWN	CCDS46652	8651	1038	345	47269875	47362368	1	None	None
21	PCBP3	ENSG00000183570	ENST00000481302	processed_transcript	KNOWN	None	8651	None	None	47273885	47279691	1	None	None
21	PCBP3	ENSG00000183570	ENST00000498121	retained_intron	KNOWN	None	8651	None	None	47278851	47321504	1	None	None
21	PCBP3	ENSG00000183570	ENST00000549265	protein_coding	KNOWN	None	8651	16	4	47313791	47316223	1	None	None
21	PCBP3	ENSG00000183570	ENST00000400305	protein_coding	KNOWN	None	8651	969	322	47316184	47362368	1	None	None
21	PCBP3	ENSG00000183570	ENST00000400304	protein_coding	NOVEL	None	8651	1086	361	47316208	47361620	1	None	None
21	PCBP3	ENSG00000183570	ENST00000468429	processed_transcript	KNOWN	None	8651	None	None	47320929	47360113	1	None	None
21	PCBP3	ENSG00000183570	ENST00000475402	processed_transcript	KNOWN	None	8651	None	None	47333952	47361797	1	None	None
21	PCBP3	ENSG00000183570	ENST00000449640	protein_coding	KNOWN	CCDS42974	8651	1116	371	47269875	47362367	1	None	None
19	None	ENSG00000267575	ENST00000588122	processed_transcript	KNOWN	None	None	None	None	28284371	28409771	1	None	None
19	None	ENSG00000267575	ENST00000586784	lincRNA	KNOWN	None	None	None	None	28284391	28289190	1	None	None
19	None	ENSG00000267575	ENST00000592806	processed_transcript	KNOWN	None	None	None	None	28284396	28475892	1	None	None
19	None	ENSG00000267575	ENST00000590628	lincRNA	KNOWN	None	None	None	None	28284402	28297690	1	None	None
19	None	ENSG00000267575	ENST00000592404	lincRNA	KNOWN	None	None	None	None	28284403	28290311	1	None	None
19	None	ENSG00000267575	ENST00000588318	lincRNA	KNOWN	None	None	None	None	28284411	28285873	1	None	None
19	None	ENSG00000267575	ENST00000585917	lincRNA	KNOWN	None	None	None	None	28284431	28296680	1	None	None
19	None	ENSG00000267575	ENST00000586220	lincRNA	KNOWN	None	None	None	None	28284803	28288920	1	None	None
19	None	ENSG00000267575	ENST00000588784	processed_transcript	KNOWN	None	None	None	None	28284932	28287332	1	None	None
19	None	ENSG00000267575	ENST00000591549	processed_transcript	KNOWN	None	None	None	None	28284932	28409705	1	None	None
19	None	ENSG00000267575	ENST00000585827	lincRNA	KNOWN	None	None	None	None	28284947	28286060	1	None	None
19	None	ENSG00000267575	ENST00000588636	lincRNA	KNOWN	None	None	None	None	28284947	28286061	1	None	None
19	None	ENSG00000267575	ENST00000587188	lincRNA	KNOWN	None	None	None	None	28284957	28290374	1	None	None
19	None	ENSG00000267575	ENST00000586473	processed_transcript	KNOWN	None	None	None	None	28393503	28447494	1	None	None
7	None	ENSG00000232383	ENST00000441690	processed_pseudogene	KNOWN	None	None	None	None	26315815	26316226	1	None	None
HSCHR6_MHC_QBL	HLA-DQA2	ENSG00000225103	ENST00000446482	protein_coding	KNOWN	None	4943	768	255	32637805	32643664	1	HLA-DXA	None
13	TARDBPP2	ENSG00000238213	ENST00000448913	processed_pseudogene	KNOWN	None	39848	None	None	60848910	60850140	1	None	None
18	NFATC1	ENSG00000131196	ENST00000253506	protein_coding	KNOWN	CCDS12015	7775	2478	825	77155856	77289325	1	None	NF-ATC, NFATc, NFAT2
18	NFATC1	ENSG00000131196	ENST00000591814	protein_coding	KNOWN	CCDS59326	7775	2151	716	77155930	77228002	1	None	NF-ATC, NFATc, NFAT2
18	NFATC1	ENSG00000131196	ENST00000397790	protein_coding	KNOWN	CCDS12016	7775	1062	353	77155944	77289323	1	None	NF-ATC, NFATc, NFAT2
18	NFATC1	ENSG00000131196	ENST00000587635	protein_coding	NOVEL	None	7775	1920	639	77156131	77227676	1	None	NF-ATC, NFATc, NFAT2
18	NFATC1	ENSG00000131196	ENST00000542384	protein_coding	NOVEL	None	7775	2142	713	77156225	77287577	1	None	NF-ATC, NFATc, NFAT2
18	NFATC1	ENSG00000131196	ENST00000427363	protein_coding	KNOWN	None	7775	2832	943	77156225	77287577	1	None	NF-ATC, NFATc, NFAT2
18	NFATC1	ENSG00000131196	ENST00000318065	protein_coding	KNOWN	CCDS59327	7775	2439	812	77160322	77289323	1	None	NF-ATC, NFATc, NFAT2
18	NFATC1	ENSG00000131196	ENST00000590313	nonsense_mediated_decay	KNOWN	None	7775	216	71	77160331	77287741	1	None	NF-ATC, NFATc, NFAT2
18	NFATC1	ENSG00000131196	ENST00000592223	protein_coding	KNOWN	None	7775	2112	703	77160333	77228001	1	None	NF-ATC, NFATc, NFAT2
18	NFATC1	ENSG00000131196	ENST00000329101	protein_coding	KNOWN	CCDS32850	7775	2793	930	77160336	77289323	1	None	NF-ATC, NFATc, NFAT2
18	NFATC1	ENSG00000131196	ENST00000586434	protein_coding	NOVEL	None	7775	2103	700	77160392	77287577	1	None	NF-ATC, NFATc, NFAT2
18	NFATC1	ENSG00000131196	ENST00000590224	processed_transcript	PUTATIVE	None	7775	None	None	77208270	77211068	1	None	NF-ATC, NFATc, NFAT2
18	NFATC1	ENSG00000131196	ENST00000591065	retained_intron	KNOWN	None	7775	None	None	77208572	77211068	1	None	NF-ATC, NFATc, NFAT2
18	NFATC1	ENSG00000131196	ENST00000591089	retained_intron	KNOWN	None	7775	None	None	77211079	77212131	1	None	NF-ATC, NFATc, NFAT2
18	NFATC1	ENSG00000131196	ENST00000590861	processed_transcript	PUTATIVE	None	7775	None	None	77253396	77287665	1	None	NF-ATC, NFATc, NFAT2
18	NFATC1	ENSG00000131196	ENST00000590172	processed_transcript	PUTATIVE	None	7775	None	None	77283924	77289083	1	None	NF-ATC, NFATc, NFAT2
18	NFATC1	ENSG00000131196	ENST00000586695	processed_transcript	PUTATIVE	None	7775	None	None	77287119	77288578	1	None	NF-ATC, NFATc, NFAT2
18	NFATC1	ENSG00000131196	ENST00000545796	protein_coding	KNOWN	None	7775	1416	471	77160331	77287741	1	None	NF-ATC, NFATc, NFAT2
3	RHOA	ENSG00000067560	ENST00000418115	protein_coding	KNOWN	CCDS2795	667	582	193	49396578	49449635	-1	ARH12, ARHA	RhoA, Rho12, RHOH12
3	RHOA	ENSG00000067560	ENST00000454011	protein_coding	PUTATIVE	None	667	273	90	49397325	49449361	-1	ARH12, ARHA	RhoA, Rho12, RHOH12
3	RHOA	ENSG00000067560	ENST00000422781	protein_coding	NOVEL	None	667	564	187	49397555	49449403	-1	ARH12, ARHA	RhoA, Rho12, RHOH12
3	RHOA	ENSG00000067560	ENST00000445425	protein_coding	PUTATIVE	None	667	387	128	49399950	49449401	-1	ARH12, ARHA	RhoA, Rho12, RHOH12
3	RHOA	ENSG00000067560	ENST00000431929	protein_coding	PUTATIVE	None	667	259	85	49410673	49449530	-1	ARH12, ARHA	RhoA, Rho12, RHOH12
3	RHOA	ENSG00000067560	ENST00000265538	processed_transcript	KNOWN	None	667	None	None	49449378	49450431	-1	ARH12, ARHA	RhoA, Rho12, RHOH12
13	None	ENSG00000212054	ENST00000390765	miRNA	NOVEL	None	None	None	None	61026838	61026919	-1	None	None
13	RNA5SP31	ENSG00000223076	ENST00000411144	rRNA	KNOWN	None	42607	None	None	61187742	61187868	1	RN5S31	None
13	EIF4A1P6	ENSG00000236608	ENST00000448133	processed_pseudogene	KNOWN	None	37925	None	None	61211022	61212231	-1	None	None
10	LINC00705	ENSG00000225269	ENST00000417883	lincRNA	KNOWN	None	27874	None	None	4697619	4704611	1	None	None
20	CDH4	ENSG00000179242	ENST00000360469	protein_coding	KNOWN	CCDS13488	1763	2751	916	59827482	60515673	1	None	None
20	CDH4	ENSG00000179242	ENST00000543233	protein_coding	KNOWN	CCDS58784	1763	2529	842	60174834	60512307	1	None	None
13	LINC00378	ENSG00000225249	ENST00000413402	lincRNA	KNOWN	None	42704	None	None	61259333	61268202	1	None	None
13	LINC00378	ENSG00000225249	ENST00000455894	lincRNA	KNOWN	None	42704	None	None	61259333	61268662	1	None	None
17	ABI3	ENSG00000108798	ENST00000225941	protein_coding	KNOWN	CCDS11546	29859	1101	366	47287589	47300587	1	None	NESH, SSH3BP3
17	ABI3	ENSG00000108798	ENST00000419580	protein_coding	KNOWN	CCDS45725	29859	1083	360	47287773	47300398	1	None	NESH, SSH3BP3
17	ABI3	ENSG00000108798	ENST00000573347	protein_coding	PUTATIVE	None	29859	481	159	47296925	47299924	1	None	NESH, SSH3BP3
17	ABI3	ENSG00000108798	ENST00000571035	protein_coding	NOVEL	None	29859	574	190	47297220	47300369	1	None	NESH, SSH3BP3
4	RAP1GDS1	ENSG00000138698	ENST00000509011	protein_coding	NOVEL	None	9859	367	121	99182535	99313231	1	None	SmgGDS
4	RAP1GDS1	ENSG00000138698	ENST00000503667	nonsense_mediated_decay	KNOWN	None	9859	120	39	99182547	99273718	1	None	SmgGDS
4	RAP1GDS1	ENSG00000138698	ENST00000380158	protein_coding	KNOWN	CCDS47107	9859	1680	559	99182568	99363524	1	None	SmgGDS
4	RAP1GDS1	ENSG00000138698	ENST00000508490	nonsense_mediated_decay	KNOWN	None	9859	117	38	99182574	99273719	1	None	SmgGDS
4	RAP1GDS1	ENSG00000138698	ENST00000264572	protein_coding	KNOWN	CCDS47108	9859	1551	516	99182582	99363268	1	None	SmgGDS
4	RAP1GDS1	ENSG00000138698	ENST00000505378	retained_intron	KNOWN	None	9859	None	None	99182585	99313396	1	None	SmgGDS
4	RAP1GDS1	ENSG00000138698	ENST00000508213	protein_coding	NOVEL	None	9859	443	146	99182602	99313160	1	None	SmgGDS
4	RAP1GDS1	ENSG00000138698	ENST00000408927	protein_coding	KNOWN	CCDS43253	9859	1824	607	99182604	99365012	1	None	SmgGDS
4	RAP1GDS1	ENSG00000138698	ENST00000512857	processed_transcript	KNOWN	None	9859	None	None	99182608	99313140	1	None	SmgGDS
4	RAP1GDS1	ENSG00000138698	ENST00000511379	retained_intron	KNOWN	None	9859	None	None	99182611	99300641	1	None	SmgGDS
4	RAP1GDS1	ENSG00000138698	ENST00000514122	protein_coding	NOVEL	None	9859	474	157	99182612	99325737	1	None	SmgGDS
4	RAP1GDS1	ENSG00000138698	ENST00000453712	protein_coding	KNOWN	CCDS47106	9859	1824	607	99182620	99363817	1	None	SmgGDS
4	RAP1GDS1	ENSG00000138698	ENST00000515187	processed_transcript	KNOWN	None	9859	None	None	99182630	99273739	1	None	SmgGDS
4	RAP1GDS1	ENSG00000138698	ENST00000510870	nonsense_mediated_decay	KNOWN	None	9859	357	118	99182637	99313140	1	None	SmgGDS
4	RAP1GDS1	ENSG00000138698	ENST00000511212	protein_coding	NOVEL	None	9859	475	157	99182637	99313192	1	None	SmgGDS
4	RAP1GDS1	ENSG00000138698	ENST00000507303	retained_intron	KNOWN	None	9859	None	None	99182654	99313403	1	None	SmgGDS
4	RAP1GDS1	ENSG00000138698	ENST00000408900	protein_coding	KNOWN	CCDS43254	9859	1677	558	99182669	99363485	1	None	SmgGDS
4	RAP1GDS1	ENSG00000138698	ENST00000339360	protein_coding	KNOWN	CCDS47105	9859	1827	608	99182669	99363485	1	None	SmgGDS
4	RAP1GDS1	ENSG00000138698	ENST00000503745	processed_transcript	KNOWN	None	9859	None	None	99273664	99313231	1	None	SmgGDS
4	RAP1GDS1	ENSG00000138698	ENST00000509501	protein_coding	NOVEL	None	9859	757	251	99300253	99342434	1	None	SmgGDS
4	RAP1GDS1	ENSG00000138698	ENST00000514139	protein_coding	PUTATIVE	None	9859	304	100	99300310	99318060	1	None	SmgGDS
1	SLC45A1	ENSG00000162426	ENST00000471889	protein_coding	KNOWN	CCDS30577	17939	2247	748	8377886	8404225	1	DNB5	None
1	SLC45A1	ENSG00000162426	ENST00000497660	retained_intron	KNOWN	None	17939	None	None	8390198	8404217	1	DNB5	None
1	SLC45A1	ENSG00000162426	ENST00000481265	processed_transcript	KNOWN	None	17939	None	None	8390488	8396169	1	DNB5	None
1	SLC45A1	ENSG00000162426	ENST00000377479	protein_coding	KNOWN	None	17939	2349	782	8378169	8404227	1	DNB5	None
1	SLC45A1	ENSG00000162426	ENST00000289877	protein_coding	KNOWN	CCDS30577	17939	2247	748	8384390	8404227	1	DNB5	None
9	ATP6V1G1P3	ENSG00000224662	ENST00000442568	processed_pseudogene	KNOWN	None	37670	None	None	139674391	139674670	1	None	None
4	None	ENSG00000250205	ENST00000505390	processed_pseudogene	KNOWN	None	None	None	None	156302194	156302391	-1	None	None
13	RNY3P5	ENSG00000206854	ENST00000384127	misc_RNA	KNOWN	None	42489	None	None	61363694	61363795	1	None	None
9	KIAA1984-AS1	ENSG00000228544	ENST00000414656	antisense	KNOWN	None	44105	None	None	139698379	139703300	-1	None	None
13	RNY4P31	ENSG00000253018	ENST00000517209	misc_RNA	KNOWN	None	42499	None	None	61390831	61390923	-1	None	None
4	None	ENSG00000250398	ENST00000502884	processed_pseudogene	KNOWN	None	None	None	None	156304259	156305254	-1	None	None
16	ITGAL	ENSG00000005844	ENST00000356798	protein_coding	KNOWN	CCDS32433	6148	3513	1170	30483979	30534506	1	CD11A	LFA-1
16	ITGAL	ENSG00000005844	ENST00000562652	nonsense_mediated_decay	KNOWN	None	6148	273	90	30484040	30485928	1	CD11A	LFA-1
16	ITGAL	ENSG00000005844	ENST00000569570	processed_transcript	KNOWN	None	6148	None	None	30484043	30486723	1	CD11A	LFA-1
16	ITGAL	ENSG00000005844	ENST00000358164	protein_coding	KNOWN	CCDS45461	6148	3261	1086	30484050	30534289	1	CD11A	LFA-1
16	ITGAL	ENSG00000005844	ENST00000568926	nonsense_mediated_decay	KNOWN	None	6148	330	109	30484066	30521735	1	CD11A	LFA-1
16	ITGAL	ENSG00000005844	ENST00000565864	nonsense_mediated_decay	KNOWN	None	6148	168	55	30484067	30490511	1	CD11A	LFA-1
16	ITGAL	ENSG00000005844	ENST00000562857	nonsense_mediated_decay	KNOWN	None	6148	489	162	30484067	30495285	1	CD11A	LFA-1
16	ITGAL	ENSG00000005844	ENST00000565348	processed_transcript	KNOWN	None	6148	None	None	30484067	30495285	1	CD11A	LFA-1
16	ITGAL	ENSG00000005844	ENST00000564118	protein_coding	PUTATIVE	None	6148	611	202	30484071	30495285	1	CD11A	LFA-1
16	ITGAL	ENSG00000005844	ENST00000433423	protein_coding	NOVEL	None	6148	1215	404	30484072	30533100	1	CD11A	LFA-1
16	ITGAL	ENSG00000005844	ENST00000569725	protein_coding	PUTATIVE	None	6148	123	40	30485322	30490495	1	CD11A	LFA-1
16	ITGAL	ENSG00000005844	ENST00000566149	retained_intron	KNOWN	None	6148	None	None	30495212	30500625	1	CD11A	LFA-1
16	ITGAL	ENSG00000005844	ENST00000568012	processed_transcript	KNOWN	None	6148	None	None	30500204	30507522	1	CD11A	LFA-1
16	ITGAL	ENSG00000005844	ENST00000564935	retained_intron	KNOWN	None	6148	None	None	30500321	30506177	1	CD11A	LFA-1
16	ITGAL	ENSG00000005844	ENST00000568987	retained_intron	KNOWN	None	6148	None	None	30507753	30515540	1	CD11A	LFA-1
16	ITGAL	ENSG00000005844	ENST00000563615	nonsense_mediated_decay	KNOWN	None	6148	116	37	30510493	30521716	1	CD11A	LFA-1
16	ITGAL	ENSG00000005844	ENST00000562020	retained_intron	KNOWN	None	6148	None	None	30516193	30518093	1	CD11A	LFA-1
16	ITGAL	ENSG00000005844	ENST00000566267	processed_transcript	KNOWN	None	6148	None	None	30520680	30528391	1	CD11A	LFA-1
16	ITGAL	ENSG00000005844	ENST00000564632	retained_intron	KNOWN	None	6148	None	None	30531077	30533564	1	CD11A	LFA-1
16	ITGAL	ENSG00000005844	ENST00000454514	protein_coding	KNOWN	None	6148	489	162	30484071	30495454	1	CD11A	LFA-1
1	None	ENSG00000236155	ENST00000428812	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	26536232	26554331	1	None	None
1	None	ENSG00000236155	ENST00000447201	processed_transcript	KNOWN	None	None	None	None	26542603	26551653	1	None	None
1	None	ENSG00000236155	ENST00000448341	processed_transcript	KNOWN	None	None	None	None	26542605	26551614	1	None	None
1	None	ENSG00000236155	ENST00000451482	processed_transcript	KNOWN	None	None	None	None	26551811	26556331	1	None	None
7	None	ENSG00000225792	ENST00000451368	antisense	KNOWN	None	None	None	None	26411764	26415892	-1	None	None
7	None	ENSG00000225792	ENST00000451264	antisense	KNOWN	None	None	None	None	26411952	26416321	-1	None	None
13	None	ENSG00000227510	ENST00000414201	lincRNA	KNOWN	None	None	None	None	61491176	61494141	1	None	None
18	None	ENSG00000268706	ENST00000599868	protein_coding	NOVEL	None	None	93	30	61602042	61609601	-1	None	None
HSCHR5_1_CTG1	MCCC2	ENSG00000262057	ENST00000570834	nonsense_mediated_decay	KNOWN	None	6937	990	329	70098418	70168345	1	None	MCCB
HSCHR5_1_CTG1	MCCC2	ENSG00000262057	ENST00000575361	protein_coding	KNOWN	None	6937	1692	563	70098427	70169834	1	None	MCCB
HSCHR5_1_CTG1	MCCC2	ENSG00000262057	ENST00000571852	protein_coding	NOVEL	None	6937	1092	363	70098460	70152251	1	None	MCCB
HSCHR5_1_CTG1	MCCC2	ENSG00000262057	ENST00000576441	processed_transcript	KNOWN	None	6937	None	None	70104001	70114195	1	None	MCCB
HSCHR5_1_CTG1	MCCC2	ENSG00000262057	ENST00000576697	processed_transcript	KNOWN	None	6937	None	None	70107400	70146229	1	None	MCCB
HSCHR5_1_CTG1	MCCC2	ENSG00000262057	ENST00000574305	processed_transcript	KNOWN	None	6937	None	None	70113639	70147841	1	None	MCCB
HSCHR5_1_CTG1	MCCC2	ENSG00000262057	ENST00000571736	processed_transcript	KNOWN	None	6937	None	None	70115510	70152498	1	None	MCCB
HSCHR5_1_CTG1	MCCC2	ENSG00000262057	ENST00000572910	protein_coding	PUTATIVE	None	6937	858	285	70137784	70163852	1	None	MCCB
13	MIR3169	ENSG00000266663	ENST00000578032	miRNA	KNOWN	None	38380	None	None	61773932	61774014	-1	None	hsa-mir-3169
19	IL12RB1	ENSG00000096996	ENST00000600835	protein_coding	KNOWN	CCDS54232	5971	1989	662	18169805	18209759	-1	IL12RB	CD212
19	IL12RB1	ENSG00000096996	ENST00000593993	protein_coding	KNOWN	None	5971	1983	660	18170386	18197799	-1	IL12RB	CD212
19	IL12RB1	ENSG00000096996	ENST00000322153	protein_coding	KNOWN	CCDS32957	5971	1146	381	18181369	18197813	-1	IL12RB	CD212
19	IL12RB1	ENSG00000096996	ENST00000598019	protein_coding	KNOWN	None	5971	203	66	18192996	18209626	-1	IL12RB	CD212
19	IL12RB1	ENSG00000096996	ENST00000594176	protein_coding	KNOWN	None	5971	155	50	18193044	18209737	-1	IL12RB	CD212
19	IL12RB1	ENSG00000096996	ENST00000597416	retained_intron	KNOWN	None	5971	None	None	18193922	18197740	-1	IL12RB	CD212
19	IL12RB1	ENSG00000096996	ENST00000430026	protein_coding	KNOWN	CCDS54232	5971	1989	662	18170371	18197697	-1	IL12RB	CD212
1	None	ENSG00000270733	ENST00000603670	processed_pseudogene	KNOWN	None	None	None	None	26589532	26589889	-1	None	None
6	RING1	ENSG00000204227	ENST00000374656	protein_coding	KNOWN	CCDS34424	10018	1221	406	33176272	33180499	1	None	RNF1
6	RING1	ENSG00000204227	ENST00000478431	processed_transcript	PUTATIVE	None	10018	None	None	33177337	33180499	1	None	RNF1
18	HMSD	ENSG00000221887	ENST00000408945	protein_coding	KNOWN	CCDS42441	23037	420	139	61616535	61627646	1	C18orf53	ACC-6
18	HMSD	ENSG00000221887	ENST00000481726	processed_transcript	KNOWN	None	23037	None	None	61616591	61649008	1	C18orf53	ACC-6
18	HMSD	ENSG00000221887	ENST00000526932	protein_coding	KNOWN	None	23037	162	53	61621673	61627434	1	C18orf53	ACC-6
18	HMSD	ENSG00000221887	ENST00000498680	processed_transcript	PUTATIVE	None	23037	None	None	61627416	61636020	1	C18orf53	ACC-6
1	None	ENSG00000225854	ENST00000434718	processed_pseudogene	KNOWN	None	None	None	None	26653179	26653524	1	None	None
16	None	ENSG00000258947	ENST00000555810	protein_coding	NOVEL	None	None	568	188	89987800	90001643	1	None	None
16	None	ENSG00000258947	ENST00000554444	protein_coding	NOVEL	CCDS56012	None	1137	378	89988259	90002499	1	None	None
16	None	ENSG00000258947	ENST00000556565	protein_coding	NOVEL	None	None	139	45	89988324	90001214	1	None	None
16	None	ENSG00000258947	ENST00000315491	protein_coding	KNOWN	CCDS10988	None	1353	450	89989687	90002505	1	None	None
16	None	ENSG00000258947	ENST00000553656	nonsense_mediated_decay	KNOWN	None	None	156	51	89989746	90001206	1	None	None
16	None	ENSG00000258947	ENST00000556536	nonsense_mediated_decay	KNOWN	None	None	447	148	89989750	90001478	1	None	None
16	None	ENSG00000258947	ENST00000554116	processed_transcript	KNOWN	None	None	None	None	89989753	89998516	1	None	None
16	None	ENSG00000258947	ENST00000554927	retained_intron	KNOWN	None	None	None	None	89989753	89999425	1	None	None
16	None	ENSG00000258947	ENST00000557262	nonsense_mediated_decay	KNOWN	None	None	156	51	89989753	90000546	1	None	None
16	None	ENSG00000258947	ENST00000557490	nonsense_mediated_decay	KNOWN	None	None	264	87	89989753	90001379	1	None	None
16	None	ENSG00000258947	ENST00000555576	protein_coding	PUTATIVE	None	None	294	97	89989753	90005169	1	None	None
16	None	ENSG00000258947	ENST00000554336	protein_coding	PUTATIVE	None	None	357	118	89989762	90000709	1	None	None
16	None	ENSG00000258947	ENST00000555609	nonsense_mediated_decay	KNOWN	None	None	168	55	89989767	90002418	1	None	None
16	None	ENSG00000258947	ENST00000553967	protein_coding	PUTATIVE	None	None	495	164	89989774	90000409	1	None	None
16	None	ENSG00000258947	ENST00000304984	protein_coding	KNOWN	CCDS56012	None	1137	378	89996843	90002495	1	None	None
HSCHR6_MHC_MCF	ZBTB22	ENSG00000237056	ENST00000445320	protein_coding	KNOWN	None	13085	1905	634	33452540	33455858	-1	ZNF297	BING1, ZNF297A, fruitless, fru, ZBTB22A
HSCHR6_MHC_MCF	ZBTB22	ENSG00000237056	ENST00000436352	protein_coding	KNOWN	None	13085	448	148	33454591	33456064	-1	ZNF297	BING1, ZNF297A, fruitless, fru, ZBTB22A
HSCHR6_MHC_MCF	ZBTB22	ENSG00000237056	ENST00000548484	protein_coding	KNOWN	None	13085	1905	634	33452528	33456065	-1	ZNF297	BING1, ZNF297A, fruitless, fru, ZBTB22A
12	None	ENSG00000214198	ENST00000548527	processed_transcript	KNOWN	None	None	None	None	104237527	104276366	-1	None	None
12	None	ENSG00000214198	ENST00000551270	unitary_pseudogene	KNOWN	None	None	None	None	104237534	104309645	-1	None	None
12	None	ENSG00000214198	ENST00000551885	processed_transcript	KNOWN	None	None	None	None	104283176	104286947	-1	None	None
12	None	ENSG00000214198	ENST00000548520	processed_transcript	KNOWN	None	None	None	None	104283179	104286970	-1	None	None
12	None	ENSG00000214198	ENST00000552065	processed_transcript	KNOWN	None	None	None	None	104286772	104300050	-1	None	None
12	None	ENSG00000214198	ENST00000548897	processed_transcript	KNOWN	None	None	None	None	104307805	104323989	-1	None	None
12	None	ENSG00000214198	ENST00000388789	processed_transcript	KNOWN	None	None	None	None	104308740	104323909	-1	None	None
11	ARHGAP32	ENSG00000134909	ENST00000310343	protein_coding	KNOWN	CCDS44769	17399	6264	2087	128834955	129062093	-1	None	GRIT, KIAA0712, MGC1892, RICS, GC-GAP
11	ARHGAP32	ENSG00000134909	ENST00000526162	retained_intron	KNOWN	None	17399	None	None	128837820	128868297	-1	None	GRIT, KIAA0712, MGC1892, RICS, GC-GAP
11	ARHGAP32	ENSG00000134909	ENST00000392657	protein_coding	PUTATIVE	CCDS31718	17399	5217	1738	128837842	128894088	-1	None	GRIT, KIAA0712, MGC1892, RICS, GC-GAP
11	ARHGAP32	ENSG00000134909	ENST00000524655	protein_coding	PUTATIVE	None	17399	2841	946	128838658	129034240	-1	None	GRIT, KIAA0712, MGC1892, RICS, GC-GAP
11	ARHGAP32	ENSG00000134909	ENST00000527272	protein_coding	KNOWN	CCDS31718	17399	5217	1738	128838764	128868353	-1	None	GRIT, KIAA0712, MGC1892, RICS, GC-GAP
11	ARHGAP32	ENSG00000134909	ENST00000534357	retained_intron	KNOWN	None	17399	None	None	128850382	128851449	-1	None	GRIT, KIAA0712, MGC1892, RICS, GC-GAP
11	ARHGAP32	ENSG00000134909	ENST00000533509	retained_intron	KNOWN	None	17399	None	None	128855774	128936708	-1	None	GRIT, KIAA0712, MGC1892, RICS, GC-GAP
11	ARHGAP32	ENSG00000134909	ENST00000525234	protein_coding	PUTATIVE	None	17399	536	177	128936639	129149219	-1	None	GRIT, KIAA0712, MGC1892, RICS, GC-GAP
10	AKR1C6P	ENSG00000151631	ENST00000432950	unprocessed_pseudogene	KNOWN	None	44680	None	None	4914093	4934167	-1	None	TAKR
10	AKR1C6P	ENSG00000151631	ENST00000281339	unprocessed_pseudogene	KNOWN	None	44680	None	None	4927673	4934167	-1	None	TAKR
3	NR1I2	ENSG00000144852	ENST00000393716	protein_coding	KNOWN	CCDS43136	7968	1305	434	119499331	119537332	1	None	ONR1, PXR, BXR, SXR, PAR2
3	NR1I2	ENSG00000144852	ENST00000466380	protein_coding	KNOWN	CCDS54627	7968	1194	397	119499331	119537332	1	None	ONR1, PXR, BXR, SXR, PAR2
3	NR1I2	ENSG00000144852	ENST00000474090	retained_intron	KNOWN	None	7968	None	None	119500882	119529399	1	None	ONR1, PXR, BXR, SXR, PAR2
3	NR1I2	ENSG00000144852	ENST00000337940	protein_coding	KNOWN	CCDS2995	7968	1422	473	119501557	119537332	1	None	ONR1, PXR, BXR, SXR, PAR2
3	NR1I2	ENSG00000144852	ENST00000493757	retained_intron	KNOWN	None	7968	None	None	119529923	119537331	1	None	ONR1, PXR, BXR, SXR, PAR2
HSCHR6_MHC_COX	RPL15P4	ENSG00000230211	ENST00000417590	processed_pseudogene	KNOWN	None	21663	None	None	31483349	31483928	1	None	Em:AC006046.2
1	RN7SL490P	ENSG00000265143	ENST00000579210	misc_RNA	KNOWN	None	46506	None	None	26674956	26675210	-1	None	None
1	None	ENSG00000223583	ENST00000446498	processed_pseudogene	KNOWN	None	None	None	None	26781144	26781678	-1	None	None
6	SLC16A10	ENSG00000112394	ENST00000368851	protein_coding	KNOWN	CCDS5089	17027	1548	515	111408781	111544223	1	None	TAT1, MCT10
6	SLC16A10	ENSG00000112394	ENST00000439288	protein_coding	KNOWN	None	17027	620	205	111493898	111498915	1	None	TAT1, MCT10
6	SLC16A10	ENSG00000112394	ENST00000465319	processed_transcript	KNOWN	None	17027	None	None	111493898	111498915	1	None	TAT1, MCT10
6	SLC16A10	ENSG00000112394	ENST00000419619	protein_coding	KNOWN	None	17027	635	210	111493898	111499914	1	None	TAT1, MCT10
6	SLC16A10	ENSG00000112394	ENST00000368850	protein_coding	PUTATIVE	None	17027	606	201	111498415	111552397	1	None	TAT1, MCT10
17	SUMO2	ENSG00000188612	ENST00000420826	protein_coding	KNOWN	CCDS45774	11125	288	95	73163408	73179078	-1	SMT3H2	SMT3B
17	SUMO2	ENSG00000188612	ENST00000314523	protein_coding	KNOWN	CCDS45773	11125	216	71	73163963	73179051	-1	SMT3H2	SMT3B
17	SUMO2	ENSG00000188612	ENST00000578238	protein_coding	PUTATIVE	None	11125	159	52	73164308	73178658	-1	SMT3H2	SMT3B
1	None	ENSG00000225891	ENST00000423060	antisense	KNOWN	None	None	None	None	26789247	26793773	-1	None	None
10	RN7SKP39	ENSG00000222705	ENST00000410773	misc_RNA	KNOWN	None	45763	None	None	28731504	28731825	-1	None	None
19	None	ENSG00000270011	ENST00000446085	protein_coding	KNOWN	CCDS56081	None	363	120	9434850	9492866	1	None	None
19	None	ENSG00000270011	ENST00000603099	processed_transcript	KNOWN	None	None	None	None	9434853	9475585	1	None	None
19	None	ENSG00000270011	ENST00000603024	nonsense_mediated_decay	KNOWN	None	None	231	76	9434855	9488987	1	None	None
19	None	ENSG00000270011	ENST00000605775	nonsense_mediated_decay	KNOWN	None	None	162	53	9434855	9489294	1	None	None
19	None	ENSG00000270011	ENST00000604886	nonsense_mediated_decay	KNOWN	None	None	249	82	9434855	9490245	1	None	None
19	None	ENSG00000270011	ENST00000605301	processed_transcript	KNOWN	None	None	None	None	9434873	9475590	1	None	None
19	None	ENSG00000270011	ENST00000605522	processed_transcript	KNOWN	None	None	None	None	9434873	9475606	1	None	None
19	None	ENSG00000270011	ENST00000605006	nonsense_mediated_decay	KNOWN	None	None	144	47	9434873	9490797	1	None	None
19	None	ENSG00000270011	ENST00000604543	nonsense_mediated_decay	KNOWN	None	None	200	65	9434874	9489729	1	None	None
19	None	ENSG00000270011	ENST00000605093	nonsense_mediated_decay	KNOWN	None	None	139	45	9434878	9490359	1	None	None
19	None	ENSG00000270011	ENST00000593242	nonsense_mediated_decay	KNOWN	None	None	204	67	9434900	9489851	1	None	None
19	None	ENSG00000270011	ENST00000603656	protein_coding	KNOWN	None	None	379	125	9434967	9491866	1	None	None
19	None	ENSG00000270011	ENST00000605071	nonsense_mediated_decay	KNOWN	None	None	255	84	9434971	9482428	1	None	None
19	None	ENSG00000270011	ENST00000541595	protein_coding	KNOWN	CCDS12212	None	966	321	9435017	9493293	1	None	None
19	None	ENSG00000270011	ENST00000603974	nonsense_mediated_decay	KNOWN	None	None	336	111	9435388	9490798	1	None	None
19	None	ENSG00000270011	ENST00000605471	processed_transcript	KNOWN	None	None	None	None	9435388	9490808	1	None	None
10	WAC-AS1	ENSG00000254635	ENST00000527986	antisense	KNOWN	None	27347	None	None	28811581	28821672	-1	None	None
10	WAC-AS1	ENSG00000254635	ENST00000528337	antisense	KNOWN	None	27347	None	None	28811614	28821283	-1	None	None
1	DPPA2P2	ENSG00000224129	ENST00000418220	processed_pseudogene	KNOWN	None	44627	None	None	26845845	26846741	-1	None	None
1	MIR1976	ENSG00000238705	ENST00000459548	miRNA	KNOWN	None	37064	None	None	26881033	26881084	1	None	hsa-mir-1976
13	None	ENSG00000212007	ENST00000390718	miRNA	NOVEL	None	None	None	None	62334417	62334509	-1	None	None
1	RN7SL679P	ENSG00000243905	ENST00000497096	misc_RNA	KNOWN	None	46695	None	None	26919737	26920037	-1	None	None
HSCHR6_MHC_COX	None	ENSG00000263359	ENST00000583420	snoRNA	KNOWN	None	None	None	None	31491609	31491684	-1	None	None
13	RAC1P8	ENSG00000234033	ENST00000427086	processed_pseudogene	KNOWN	None	42005	None	None	62379283	62379809	1	None	None
1	None	ENSG00000252802	ENST00000516993	misc_RNA	NOVEL	None	None	None	None	26920431	26920532	-1	None	None
HSCHR6_MHC_COX	None	ENSG00000265607	ENST00000580739	snoRNA	KNOWN	None	None	None	None	31496333	31496410	-1	None	None
1	None	ENSG00000229247	ENST00000428860	processed_pseudogene	KNOWN	None	None	None	None	26966868	26967105	-1	None	None
13	None	ENSG00000270856	ENST00000605514	processed_pseudogene	KNOWN	None	None	None	None	62501223	62501405	-1	None	None
HSCHR6_MHC_COX	DDX39B-AS1	ENSG00000232256	ENST00000426686	processed_transcript	PUTATIVE	None	39771	None	None	31497536	31498363	1	None	None
HSCHR6_MHC_COX	DDX39B-AS1	ENSG00000232256	ENST00000431826	processed_transcript	PUTATIVE	None	39771	None	None	31497605	31498370	1	None	None
1	LUZP1	ENSG00000169641	ENST00000302291	protein_coding	KNOWN	CCDS30628	14985	3231	1076	23410523	23504301	-1	None	LUZP
1	LUZP1	ENSG00000169641	ENST00000314174	protein_coding	KNOWN	None	14985	3081	1026	23416920	23495310	-1	None	LUZP
1	LUZP1	ENSG00000169641	ENST00000471849	protein_coding	KNOWN	None	14985	819	272	23419936	23495338	-1	None	LUZP
1	LUZP1	ENSG00000169641	ENST00000475164	protein_coding	KNOWN	None	14985	107	34	23420648	23460172	-1	None	LUZP
1	LUZP1	ENSG00000169641	ENST00000418342	protein_coding	KNOWN	CCDS30628	14985	3231	1076	23410516	23495351	-1	None	LUZP
1	LUZP1	ENSG00000169641	ENST00000374623	protein_coding	KNOWN	CCDS30628	14985	3231	1076	23410516	23435623	-1	None	LUZP
13	LINC00358	ENSG00000229578	ENST00000432697	lincRNA	KNOWN	None	42678	None	None	62578226	62603681	-1	None	None
1	None	ENSG00000238316	ENST00000459201	snoRNA	NOVEL	None	None	None	None	26968777	26968880	-1	None	None
14	MTA1	ENSG00000182979	ENST00000331320	protein_coding	KNOWN	CCDS32169	7410	2148	715	105886159	105937066	1	None	None
14	MTA1	ENSG00000182979	ENST00000406191	protein_coding	NOVEL	None	7410	2112	703	105886229	105937066	1	None	None
14	MTA1	ENSG00000182979	ENST00000405646	protein_coding	NOVEL	None	7410	2097	698	105886275	105937066	1	None	None
14	MTA1	ENSG00000182979	ENST00000438610	nonsense_mediated_decay	KNOWN	CCDS55954	7410	1293	430	105886353	105936575	1	None	None
14	MTA1	ENSG00000182979	ENST00000551236	nonsense_mediated_decay	KNOWN	None	7410	173	56	105886356	105920635	1	None	None
14	MTA1	ENSG00000182979	ENST00000481012	retained_intron	KNOWN	None	7410	None	None	105905009	105929568	1	None	None
14	MTA1	ENSG00000182979	ENST00000424723	nonsense_mediated_decay	KNOWN	None	7410	166	54	105905052	105927137	1	None	None
14	MTA1	ENSG00000182979	ENST00000494026	retained_intron	KNOWN	None	7410	None	None	105915380	105924708	1	None	None
14	MTA1	ENSG00000182979	ENST00000498644	protein_coding	PUTATIVE	None	7410	684	227	105915577	105927290	1	None	None
14	MTA1	ENSG00000182979	ENST00000434050	protein_coding	NOVEL	None	7410	1536	511	105924681	105937066	1	None	None
14	MTA1	ENSG00000182979	ENST00000490198	retained_intron	KNOWN	None	7410	None	None	105927218	105931520	1	None	None
14	MTA1	ENSG00000182979	ENST00000550551	protein_coding	PUTATIVE	None	7410	140	45	105927231	105931039	1	None	None
14	MTA1	ENSG00000182979	ENST00000550808	retained_intron	KNOWN	None	7410	None	None	105929596	105930904	1	None	None
14	MTA1	ENSG00000182979	ENST00000469140	retained_intron	KNOWN	None	7410	None	None	105929890	105933529	1	None	None
14	MTA1	ENSG00000182979	ENST00000552286	retained_intron	KNOWN	None	7410	None	None	105931671	105936879	1	None	None
14	MTA1	ENSG00000182979	ENST00000426567	protein_coding	PUTATIVE	None	7410	376	124	105934446	105936544	1	None	None
14	MTA1	ENSG00000182979	ENST00000481206	retained_intron	KNOWN	None	7410	None	None	105935312	105936567	1	None	None
14	MTA1	ENSG00000182979	ENST00000494981	protein_coding	PUTATIVE	None	7410	427	141	105935406	105936634	1	None	None
14	MTA1	ENSG00000182979	ENST00000481635	retained_intron	KNOWN	None	7410	None	None	105935804	105936575	1	None	None
14	MTA1	ENSG00000182979	ENST00000435036	protein_coding	KNOWN	None	7410	768	255	105929534	105937020	1	None	None
10	RNU4ATAC6P	ENSG00000252401	ENST00000516592	snRNA	KNOWN	None	46892	None	None	28941559	28941684	1	None	None
1	None	ENSG00000235069	ENST00000443847	processed_pseudogene	KNOWN	None	None	None	None	26973938	26974172	1	None	None
13	None	ENSG00000230142	ENST00000455977	lincRNA	KNOWN	None	None	None	None	62798230	62824080	1	None	None
9	None	ENSG00000260947	ENST00000566968	lincRNA	KNOWN	None	None	None	None	33697457	33700984	1	None	None
10	TPRKBP1	ENSG00000231911	ENST00000456243	processed_pseudogene	KNOWN	None	44943	None	None	28947916	28948396	1	None	None
12	MAPKAPK5	ENSG00000089022	ENST00000550735	protein_coding	KNOWN	CCDS44976	6889	1416	471	112279782	112331220	1	None	PRAK
12	MAPKAPK5	ENSG00000089022	ENST00000547305	protein_coding	PUTATIVE	None	6889	156	51	112280279	112281200	1	None	PRAK
12	MAPKAPK5	ENSG00000089022	ENST00000553053	nonsense_mediated_decay	KNOWN	None	6889	225	74	112280287	112326329	1	None	PRAK
12	MAPKAPK5	ENSG00000089022	ENST00000546394	processed_transcript	KNOWN	None	6889	None	None	112280292	112308111	1	None	PRAK
12	MAPKAPK5	ENSG00000089022	ENST00000551404	protein_coding	KNOWN	CCDS44975	6889	1422	473	112280430	112330965	1	None	PRAK
12	MAPKAPK5	ENSG00000089022	ENST00000549875	protein_coding	PUTATIVE	None	6889	974	323	112280538	112330864	1	None	PRAK
12	MAPKAPK5	ENSG00000089022	ENST00000602983	retained_intron	KNOWN	None	6889	None	None	112280836	112281227	1	None	PRAK
12	MAPKAPK5	ENSG00000089022	ENST00000552111	retained_intron	KNOWN	None	6889	None	None	112323242	112327945	1	None	PRAK
12	MAPKAPK5	ENSG00000089022	ENST00000547067	retained_intron	KNOWN	None	6889	None	None	112325382	112330961	1	None	PRAK
12	MAPKAPK5	ENSG00000089022	ENST00000547915	retained_intron	KNOWN	None	6889	None	None	112327037	112334343	1	None	PRAK
1	None	ENSG00000260063	ENST00000569378	antisense	KNOWN	None	None	None	None	27018623	27020622	-1	None	None
19	TECR	ENSG00000099797	ENST00000600076	retained_intron	KNOWN	None	4551	None	None	14627897	14674550	1	SC2, GPSN2	TER
19	TECR	ENSG00000099797	ENST00000215567	protein_coding	KNOWN	CCDS12313	4551	927	308	14640372	14676790	1	SC2, GPSN2	TER
19	TECR	ENSG00000099797	ENST00000598298	protein_coding	PUTATIVE	None	4551	141	46	14640391	14675804	1	SC2, GPSN2	TER
19	TECR	ENSG00000099797	ENST00000596073	protein_coding	PUTATIVE	None	4551	462	153	14640404	14676789	1	SC2, GPSN2	TER
19	TECR	ENSG00000099797	ENST00000600083	protein_coding	PUTATIVE	None	4551	462	153	14640406	14676792	1	SC2, GPSN2	TER
19	TECR	ENSG00000099797	ENST00000598987	nonsense_mediated_decay	KNOWN	None	4551	180	59	14640407	14676789	1	SC2, GPSN2	TER
19	TECR	ENSG00000099797	ENST00000601652	retained_intron	KNOWN	None	4551	None	None	14640410	14674338	1	SC2, GPSN2	TER
19	TECR	ENSG00000099797	ENST00000593637	retained_intron	KNOWN	None	4551	None	None	14640422	14676070	1	SC2, GPSN2	TER
19	TECR	ENSG00000099797	ENST00000599646	retained_intron	KNOWN	None	4551	None	None	14640442	14643340	1	SC2, GPSN2	TER
19	TECR	ENSG00000099797	ENST00000594807	retained_intron	KNOWN	None	4551	None	None	14640442	14674931	1	SC2, GPSN2	TER
19	TECR	ENSG00000099797	ENST00000598333	nonsense_mediated_decay	KNOWN	None	4551	318	105	14640448	14676472	1	SC2, GPSN2	TER
19	TECR	ENSG00000099797	ENST00000596953	retained_intron	KNOWN	None	4551	None	None	14640453	14676095	1	SC2, GPSN2	TER
19	TECR	ENSG00000099797	ENST00000597607	retained_intron	KNOWN	None	4551	None	None	14640469	14676790	1	SC2, GPSN2	TER
19	TECR	ENSG00000099797	ENST00000596164	processed_transcript	KNOWN	None	4551	None	None	14640509	14674696	1	SC2, GPSN2	TER
19	TECR	ENSG00000099797	ENST00000598715	protein_coding	PUTATIVE	None	4551	395	130	14656536	14674885	1	SC2, GPSN2	TER
19	TECR	ENSG00000099797	ENST00000598918	nonsense_mediated_decay	KNOWN	None	4551	117	38	14656571	14674626	1	SC2, GPSN2	TER
19	TECR	ENSG00000099797	ENST00000594545	protein_coding	PUTATIVE	None	4551	130	42	14672779	14675793	1	SC2, GPSN2	TER
19	TECR	ENSG00000099797	ENST00000601461	retained_intron	KNOWN	None	4551	None	None	14672864	14675852	1	SC2, GPSN2	TER
19	TECR	ENSG00000099797	ENST00000600395	retained_intron	KNOWN	None	4551	None	None	14674870	14676783	1	SC2, GPSN2	TER
19	TECR	ENSG00000099797	ENST00000601187	protein_coding	NOVEL	None	4551	453	150	14675041	14676789	1	SC2, GPSN2	TER
19	TECR	ENSG00000099797	ENST00000601350	retained_intron	KNOWN	None	4551	None	None	14675064	14676733	1	SC2, GPSN2	TER
19	TECR	ENSG00000099797	ENST00000599101	retained_intron	KNOWN	None	4551	None	None	14675506	14676737	1	SC2, GPSN2	TER
19	TECR	ENSG00000099797	ENST00000593775	retained_intron	KNOWN	None	4551	None	None	14675510	14676787	1	SC2, GPSN2	TER
19	TECR	ENSG00000099797	ENST00000598408	retained_intron	KNOWN	None	4551	None	None	14675754	14676792	1	SC2, GPSN2	TER
19	TECR	ENSG00000099797	ENST00000594958	retained_intron	KNOWN	None	4551	None	None	14675773	14676773	1	SC2, GPSN2	TER
19	TECR	ENSG00000099797	ENST00000436007	protein_coding	KNOWN	None	4551	972	323	14640407	14676789	1	SC2, GPSN2	TER
1	POU2F1	ENSG00000143190	ENST00000367866	protein_coding	KNOWN	CCDS1259	9212	2301	766	167190066	167396582	1	OTF1	OCT1
1	POU2F1	ENSG00000143190	ENST00000559038	processed_transcript	KNOWN	None	9212	None	None	167190113	167334806	1	OTF1	OCT1
1	POU2F1	ENSG00000143190	ENST00000557909	processed_transcript	KNOWN	None	9212	None	None	167190123	167343420	1	OTF1	OCT1
1	POU2F1	ENSG00000143190	ENST00000558944	nonsense_mediated_decay	KNOWN	None	9212	1587	528	167190123	167385176	1	OTF1	OCT1
1	POU2F1	ENSG00000143190	ENST00000442313	nonsense_mediated_decay	KNOWN	None	9212	183	60	167190128	167341216	1	OTF1	OCT1
1	POU2F1	ENSG00000143190	ENST00000560232	nonsense_mediated_decay	KNOWN	None	9212	174	57	167190128	167365555	1	OTF1	OCT1
1	POU2F1	ENSG00000143190	ENST00000429375	protein_coding	KNOWN	CCDS55655	9212	2112	703	167190128	167385176	1	OTF1	OCT1
1	POU2F1	ENSG00000143190	ENST00000492850	processed_transcript	KNOWN	None	9212	None	None	167190132	167353106	1	OTF1	OCT1
1	POU2F1	ENSG00000143190	ENST00000367865	processed_transcript	KNOWN	None	9212	None	None	167190132	167396582	1	OTF1	OCT1
1	POU2F1	ENSG00000143190	ENST00000271411	nonsense_mediated_decay	KNOWN	None	9212	174	57	167190135	167396582	1	OTF1	OCT1
1	POU2F1	ENSG00000143190	ENST00000367862	protein_coding	KNOWN	CCDS55656	9212	2268	755	167298281	167396582	1	OTF1	OCT1
1	POU2F1	ENSG00000143190	ENST00000557874	retained_intron	KNOWN	None	9212	None	None	167298403	167381570	1	OTF1	OCT1
1	POU2F1	ENSG00000143190	ENST00000470928	processed_transcript	KNOWN	None	9212	None	None	167326697	167356492	1	OTF1	OCT1
1	POU2F1	ENSG00000143190	ENST00000443275	protein_coding	PUTATIVE	None	9212	1686	561	167341217	167385375	1	OTF1	OCT1
1	POU2F1	ENSG00000143190	ENST00000490100	retained_intron	KNOWN	None	9212	None	None	167352711	167358854	1	OTF1	OCT1
1	POU2F1	ENSG00000143190	ENST00000559648	processed_transcript	KNOWN	None	9212	None	None	167358914	167366062	1	OTF1	OCT1
1	POU2F1	ENSG00000143190	ENST00000420254	protein_coding	KNOWN	None	9212	1962	653	167190143	167385326	1	OTF1	OCT1
1	POU2F1	ENSG00000143190	ENST00000541643	protein_coding	KNOWN	None	9212	2232	743	167190143	167385317	1	OTF1	OCT1
1	POU2F1	ENSG00000143190	ENST00000452019	protein_coding	KNOWN	None	9212	765	254	167190128	167365555	1	OTF1	OCT1
7	None	ENSG00000214870	ENST00000439120	processed_transcript	KNOWN	None	None	None	None	26438213	26533876	1	None	None
7	None	ENSG00000214870	ENST00000430548	processed_transcript	KNOWN	None	None	None	None	26438221	26519642	1	None	None
7	None	ENSG00000214870	ENST00000421862	processed_transcript	KNOWN	None	None	None	None	26438221	26533764	1	None	None
7	None	ENSG00000214870	ENST00000449537	processed_transcript	KNOWN	None	None	None	None	26438233	26439183	1	None	None
7	None	ENSG00000214870	ENST00000420774	processed_transcript	KNOWN	None	None	None	None	26438272	26439274	1	None	None
7	None	ENSG00000214870	ENST00000448056	retained_intron	KNOWN	None	None	None	None	26479879	26533734	1	None	None
7	None	ENSG00000214870	ENST00000418758	processed_transcript	KNOWN	None	None	None	None	26438351	26538594	1	None	None
1	RN7SL501P	ENSG00000266138	ENST00000578818	misc_RNA	KNOWN	None	46517	None	None	27090115	27090393	1	None	None
13	None	ENSG00000227611	ENST00000422527	lincRNA	KNOWN	None	None	None	None	62895438	62896531	1	None	None
1	RN7SL165P	ENSG00000241188	ENST00000477476	misc_RNA	KNOWN	None	46181	None	None	27141313	27141601	1	None	None
13	LINC00459	ENSG00000229307	ENST00000431656	lincRNA	KNOWN	None	42808	None	None	62897790	62902966	1	None	None
1	None	ENSG00000226698	ENST00000448791	antisense	KNOWN	None	None	None	None	27202624	27204736	1	None	None
10	C10orf120	ENSG00000183559	ENST00000432000	protein_coding	NOVEL	None	25707	479	158	124457225	124459284	-1	None	bA318C4.1
10	C10orf120	ENSG00000183559	ENST00000329446	protein_coding	KNOWN	CCDS31302	25707	1008	335	124457225	124459338	-1	None	bA318C4.1
1	None	ENSG00000172746	ENST00000310055	unprocessed_pseudogene	KNOWN	None	None	None	None	27306656	27307466	1	None	None
13	RPL32P28	ENSG00000232105	ENST00000443577	processed_pseudogene	KNOWN	None	36328	None	None	62902121	62902517	1	None	None
10	PPP3CB	ENSG00000107758	ENST00000360663	protein_coding	KNOWN	CCDS7328	9315	1575	524	75196186	75255759	-1	CALNB	CALNA2, CNA2, PP2Bbeta
10	PPP3CB	ENSG00000107758	ENST00000430762	protein_coding	NOVEL	None	9315	564	187	75197956	75227377	-1	CALNB	CALNA2, CNA2, PP2Bbeta
10	PPP3CB	ENSG00000107758	ENST00000342558	protein_coding	KNOWN	None	9315	1491	496	75203538	75255754	-1	CALNB	CALNA2, CNA2, PP2Bbeta
10	PPP3CB	ENSG00000107758	ENST00000495897	processed_transcript	KNOWN	None	9315	None	None	75226719	75231335	-1	CALNB	CALNA2, CNA2, PP2Bbeta
10	PPP3CB	ENSG00000107758	ENST00000394829	protein_coding	KNOWN	CCDS44437	9315	1578	525	75196564	75255782	-1	CALNB	CALNA2, CNA2, PP2Bbeta
10	PPP3CB	ENSG00000107758	ENST00000394828	protein_coding	KNOWN	CCDS44436	9315	1548	515	75196564	75255782	-1	CALNB	CALNA2, CNA2, PP2Bbeta
10	PPP3CB	ENSG00000107758	ENST00000544628	protein_coding	KNOWN	None	9315	459	152	75196997	75226167	-1	CALNB	CALNA2, CNA2, PP2Bbeta
10	PPP3CB	ENSG00000107758	ENST00000394822	protein_coding	KNOWN	None	9315	1545	514	75204358	75255782	-1	CALNB	CALNA2, CNA2, PP2Bbeta
10	PPP3CB	ENSG00000107758	ENST00000545874	protein_coding	KNOWN	None	9315	1236	411	75203895	75255689	-1	CALNB	CALNA2, CNA2, PP2Bbeta
6	None	ENSG00000231912	ENST00000456424	lincRNA	KNOWN	None	None	None	None	114113032	114158556	1	None	None
1	None	ENSG00000224064	ENST00000455684	processed_pseudogene	KNOWN	None	None	None	None	27310119	27310515	1	None	None
6	None	ENSG00000219758	ENST00000480085	processed_pseudogene	KNOWN	None	None	None	None	114160466	114160808	1	None	None
6	None	ENSG00000219758	ENST00000538119	processed_pseudogene	KNOWN	None	None	None	None	114160463	114160807	1	None	None
HSCHR6_MHC_MCF	DAXX	ENSG00000231617	ENST00000445009	protein_coding	KNOWN	None	2681	2223	740	33456681	33461069	-1	None	DAP6
HSCHR6_MHC_MCF	DAXX	ENSG00000231617	ENST00000433482	protein_coding	KNOWN	None	2681	2223	740	33456681	33461049	-1	None	DAP6
HSCHR6_MHC_MCF	DAXX	ENSG00000231617	ENST00000467554	processed_transcript	KNOWN	None	2681	None	None	33457655	33461052	-1	None	DAP6
HSCHR6_MHC_MCF	DAXX	ENSG00000231617	ENST00000469277	processed_transcript	KNOWN	None	2681	None	None	33457707	33459991	-1	None	DAP6
HSCHR6_MHC_MCF	DAXX	ENSG00000231617	ENST00000488707	retained_intron	KNOWN	None	2681	None	None	33457786	33458582	-1	None	DAP6
HSCHR6_MHC_MCF	DAXX	ENSG00000231617	ENST00000468906	processed_transcript	KNOWN	None	2681	None	None	33458991	33461040	-1	None	DAP6
HSCHR6_MHC_MCF	DAXX	ENSG00000231617	ENST00000454197	protein_coding	KNOWN	None	2681	535	177	33459362	33461067	-1	None	DAP6
HSCHR6_MHC_MCF	DAXX	ENSG00000231617	ENST00000453931	protein_coding	KNOWN	None	2681	389	128	33459508	33467357	-1	None	DAP6
HSCHR6_MHC_MCF	DAXX	ENSG00000231617	ENST00000485010	retained_intron	KNOWN	None	2681	None	None	33459733	33461079	-1	None	DAP6
HSCHR6_MHC_MCF	DAXX	ENSG00000231617	ENST00000451280	protein_coding	KNOWN	None	2681	144	47	33459904	33460925	-1	None	DAP6
HSCHR6_MHC_MCF	DAXX	ENSG00000231617	ENST00000469788	processed_transcript	KNOWN	None	2681	None	None	33461750	33467390	-1	None	DAP6
1	OSTCP2	ENSG00000225294	ENST00000437956	processed_pseudogene	KNOWN	None	42864	None	None	27312388	27312831	-1	None	None
16	NPIPA8	ENSG00000214940	ENST00000525596	protein_coding	NOVEL	None	41983	1110	369	18411799	18430593	-1	None	LCR16a9
16	NPIPA8	ENSG00000214940	ENST00000545050	protein_coding	PUTATIVE	None	41983	391	129	18413115	18418092	-1	None	LCR16a9
16	NPIPA8	ENSG00000214940	ENST00000339303	protein_coding	KNOWN	None	41983	462	153	18411806	18441131	-1	None	LCR16a9
6	None	ENSG00000238563	ENST00000459557	snoRNA	NOVEL	None	None	None	None	114162001	114162089	1	None	None
2	IL1RL2	ENSG00000115598	ENST00000264257	protein_coding	KNOWN	CCDS2056	5999	1728	575	102803433	102856462	1	None	IL1R-rp2, IL1RRP2
2	IL1RL2	ENSG00000115598	ENST00000481806	processed_transcript	KNOWN	None	5999	None	None	102803466	102855798	1	None	IL1R-rp2, IL1RRP2
2	IL1RL2	ENSG00000115598	ENST00000421464	protein_coding	KNOWN	None	5999	516	171	102803774	102818042	1	None	IL1R-rp2, IL1RRP2
2	IL1RL2	ENSG00000115598	ENST00000441515	protein_coding	KNOWN	None	5999	1374	457	102803466	102855798	1	None	IL1R-rp2, IL1RRP2
2	IL1RL2	ENSG00000115598	ENST00000539491	protein_coding	KNOWN	CCDS2056	5999	1728	575	102803774	102855701	1	None	IL1R-rp2, IL1RRP2
9	None	ENSG00000227301	ENST00000449144	lincRNA	KNOWN	None	None	None	None	33719688	33722553	1	None	None
1	None	ENSG00000229985	ENST00000457038	processed_pseudogene	KNOWN	None	None	None	None	27503242	27503768	1	None	None
9	None	ENSG00000233776	ENST00000444956	antisense	KNOWN	None	None	None	None	33732973	33738414	-1	None	None
9	None	ENSG00000233776	ENST00000422764	antisense	KNOWN	None	None	None	None	33732973	33738414	-1	None	None
1	CHCHD3P3	ENSG00000214973	ENST00000446783	processed_pseudogene	KNOWN	None	44699	None	None	27527325	27527964	-1	None	None
12	C12orf45	ENSG00000151131	ENST00000552951	protein_coding	KNOWN	CCDS41825	28628	558	185	105380088	105389004	1	None	MGC40397
12	C12orf45	ENSG00000151131	ENST00000280749	protein_coding	PUTATIVE	None	28628	204	67	105380117	105388498	1	None	MGC40397
12	C12orf45	ENSG00000151131	ENST00000548583	processed_transcript	KNOWN	None	28628	None	None	105388270	105443515	1	None	MGC40397
HSCHR6_MHC_MCF	DOM3Z	ENSG00000224313	ENST00000498405	processed_transcript	KNOWN	None	2992	None	None	32014034	32015081	-1	DOM3Z	None
HSCHR6_MHC_MCF	DOM3Z	ENSG00000224313	ENST00000469441	retained_intron	KNOWN	None	2992	None	None	32014034	32015907	-1	DOM3Z	None
HSCHR6_MHC_MCF	DOM3Z	ENSG00000224313	ENST00000466972	retained_intron	KNOWN	None	2992	None	None	32014034	32015909	-1	DOM3Z	None
HSCHR6_MHC_MCF	DOM3Z	ENSG00000224313	ENST00000443250	protein_coding	KNOWN	None	2992	1191	396	32014034	32016195	-1	DOM3Z	None
HSCHR6_MHC_MCF	DOM3Z	ENSG00000224313	ENST00000475224	retained_intron	KNOWN	None	2992	None	None	32014034	32016319	-1	DOM3Z	None
HSCHR6_MHC_MCF	DOM3Z	ENSG00000224313	ENST00000439989	protein_coding	KNOWN	None	2992	1191	396	32014034	32016360	-1	DOM3Z	None
HSCHR6_MHC_MCF	DOM3Z	ENSG00000224313	ENST00000486106	retained_intron	KNOWN	None	2992	None	None	32014034	32016433	-1	DOM3Z	None
HSCHR6_MHC_MCF	DOM3Z	ENSG00000224313	ENST00000468023	retained_intron	KNOWN	None	2992	None	None	32014034	32016462	-1	DOM3Z	None
HSCHR6_MHC_MCF	DOM3Z	ENSG00000224313	ENST00000489083	retained_intron	KNOWN	None	2992	None	None	32014034	32016476	-1	DOM3Z	None
HSCHR6_MHC_MCF	DOM3Z	ENSG00000224313	ENST00000454430	protein_coding	KNOWN	None	2992	1191	396	32014034	32016516	-1	DOM3Z	None
HSCHR6_MHC_MCF	DOM3Z	ENSG00000224313	ENST00000468514	processed_transcript	KNOWN	None	2992	None	None	32014608	32016360	-1	DOM3Z	None
HSCHR6_MHC_MCF	DOM3Z	ENSG00000224313	ENST00000493244	processed_transcript	KNOWN	None	2992	None	None	32014835	32016322	-1	DOM3Z	None
HSCHR6_MHC_MCF	DOM3Z	ENSG00000224313	ENST00000462963	processed_transcript	KNOWN	None	2992	None	None	32014867	32016213	-1	DOM3Z	None
HSCHR6_MHC_MCF	DOM3Z	ENSG00000224313	ENST00000476947	processed_transcript	KNOWN	None	2992	None	None	32015126	32016233	-1	DOM3Z	None
1	NPM1P39	ENSG00000225159	ENST00000449818	processed_pseudogene	KNOWN	None	45218	None	None	27533421	27534287	1	None	None
1	HTR1D	ENSG00000179546	ENST00000374619	protein_coding	KNOWN	CCDS231	5289	1134	377	23518388	23521222	-1	HTRL	RDC4, HT1DA, 5-HT1D
1	HTR1D	ENSG00000179546	ENST00000314113	protein_coding	KNOWN	CCDS231	5289	1134	377	23516993	23520755	-1	HTRL	RDC4, HT1DA, 5-HT1D
10	None	ENSG00000223993	ENST00000444137	lincRNA	KNOWN	None	None	None	None	87191699	87192271	-1	None	None
1	SNRPEP7	ENSG00000225990	ENST00000438350	processed_pseudogene	KNOWN	None	43572	None	None	27537756	27537975	1	None	None
3	XCR1	ENSG00000173578	ENST00000309285	protein_coding	KNOWN	CCDS2736	1625	1002	333	46058516	46069234	-1	GPR5, CCXCR1	None
3	XCR1	ENSG00000173578	ENST00000395946	protein_coding	KNOWN	None	1625	108	35	46063332	46068979	-1	GPR5, CCXCR1	None
3	XCR1	ENSG00000173578	ENST00000542109	protein_coding	KNOWN	CCDS2736	1625	1002	333	46062291	46068979	-1	GPR5, CCXCR1	None
1	FAM69A	ENSG00000154511	ENST00000370310	protein_coding	KNOWN	CCDS44173	32213	1287	428	93307724	93427057	-1	None	FLJ23493
22	None	ENSG00000271796	ENST00000606583	snoRNA	NOVEL	None	None	None	None	20434077	20434153	-1	None	None
1	None	ENSG00000224311	ENST00000425205	antisense	KNOWN	None	None	None	None	27555597	27560843	-1	None	None
22	None	ENSG00000252571	ENST00000516762	snoRNA	NOVEL	None	None	None	None	20455222	20455364	1	None	None
1	None	ENSG00000252098	ENST00000516289	misc_RNA	NOVEL	None	None	None	None	27581955	27582058	-1	None	None
4	None	ENSG00000271606	ENST00000605504	unprocessed_pseudogene	KNOWN	None	None	None	None	156306504	156306644	1	None	None
8	AZIN1	ENSG00000155096	ENST00000337198	protein_coding	KNOWN	CCDS6295	16432	1347	448	103838585	103876965	-1	OAZIN	OAZI, ODC1L
8	AZIN1	ENSG00000155096	ENST00000347770	protein_coding	KNOWN	CCDS6295	16432	1347	448	103840051	103876421	-1	OAZIN	OAZI, ODC1L
8	AZIN1	ENSG00000155096	ENST00000518697	processed_transcript	KNOWN	None	16432	None	None	103840775	103842455	-1	OAZIN	OAZI, ODC1L
8	AZIN1	ENSG00000155096	ENST00000523071	retained_intron	KNOWN	None	16432	None	None	103846463	103847703	-1	OAZIN	OAZI, ODC1L
8	AZIN1	ENSG00000155096	ENST00000521536	protein_coding	NOVEL	None	16432	495	164	103846489	103870330	-1	OAZIN	OAZI, ODC1L
8	AZIN1	ENSG00000155096	ENST00000522311	processed_transcript	KNOWN	None	16432	None	None	103848474	103870272	-1	OAZIN	OAZI, ODC1L
8	AZIN1	ENSG00000155096	ENST00000520402	protein_coding	KNOWN	None	16432	291	96	103851130	103884640	-1	OAZIN	OAZI, ODC1L
8	AZIN1	ENSG00000155096	ENST00000518353	protein_coding	KNOWN	None	16432	99	32	103855782	103876356	-1	OAZIN	OAZI, ODC1L
8	AZIN1	ENSG00000155096	ENST00000518940	retained_intron	KNOWN	None	16432	None	None	103855936	103876263	-1	OAZIN	OAZI, ODC1L
8	AZIN1	ENSG00000155096	ENST00000517581	processed_transcript	KNOWN	None	16432	None	None	103862227	103906092	-1	OAZIN	OAZI, ODC1L
5	FCHSD1	ENSG00000197948	ENST00000435817	protein_coding	KNOWN	CCDS47295	25463	2073	690	141018869	141030986	-1	None	FLJ00007
5	FCHSD1	ENSG00000197948	ENST00000520747	retained_intron	KNOWN	None	25463	None	None	141018870	141022188	-1	None	FLJ00007
5	FCHSD1	ENSG00000197948	ENST00000520465	processed_transcript	KNOWN	None	25463	None	None	141018875	141021179	-1	None	FLJ00007
5	FCHSD1	ENSG00000197948	ENST00000523856	processed_transcript	KNOWN	None	25463	None	None	141018875	141027050	-1	None	FLJ00007
5	FCHSD1	ENSG00000197948	ENST00000522126	protein_coding	NOVEL	None	25463	1230	409	141020549	141030684	-1	None	FLJ00007
5	FCHSD1	ENSG00000197948	ENST00000522783	protein_coding	NOVEL	None	25463	1797	598	141020554	141030943	-1	None	FLJ00007
5	FCHSD1	ENSG00000197948	ENST00000518160	processed_transcript	KNOWN	None	25463	None	None	141020776	141022271	-1	None	FLJ00007
5	FCHSD1	ENSG00000197948	ENST00000518499	protein_coding	NOVEL	None	25463	634	210	141024197	141025931	-1	None	FLJ00007
5	FCHSD1	ENSG00000197948	ENST00000522763	processed_transcript	PUTATIVE	None	25463	None	None	141026075	141027096	-1	None	FLJ00007
5	FCHSD1	ENSG00000197948	ENST00000522386	processed_transcript	PUTATIVE	None	25463	None	None	141026239	141027398	-1	None	FLJ00007
5	FCHSD1	ENSG00000197948	ENST00000519800	protein_coding	NOVEL	None	25463	768	255	141027451	141030954	-1	None	FLJ00007
6	PARK2	ENSG00000185345	ENST00000366898	protein_coding	KNOWN	CCDS5281	8607	1398	465	161768452	163148803	-1	None	PDJ, AR-JP, parkin
6	PARK2	ENSG00000185345	ENST00000366897	protein_coding	KNOWN	CCDS5282	8607	1314	437	161769671	163148803	-1	None	PDJ, AR-JP, parkin
6	PARK2	ENSG00000185345	ENST00000366896	protein_coding	KNOWN	CCDS5283	8607	951	316	161769671	163148803	-1	None	PDJ, AR-JP, parkin
6	PARK2	ENSG00000185345	ENST00000366894	protein_coding	KNOWN	None	8607	825	274	161771131	163148700	-1	None	PDJ, AR-JP, parkin
6	PARK2	ENSG00000185345	ENST00000338468	protein_coding	KNOWN	None	8607	825	274	161771131	163148700	-1	None	PDJ, AR-JP, parkin
6	PARK2	ENSG00000185345	ENST00000479615	nonsense_mediated_decay	KNOWN	None	8607	657	218	161771131	163148700	-1	None	PDJ, AR-JP, parkin
6	PARK2	ENSG00000185345	ENST00000366892	protein_coding	KNOWN	None	8607	1107	368	161966144	163148796	-1	None	PDJ, AR-JP, parkin
4	None	ENSG00000249247	ENST00000503579	unprocessed_pseudogene	KNOWN	None	None	None	None	156372769	156373557	-1	None	None
1	None	ENSG00000243659	ENST00000428741	processed_pseudogene	KNOWN	None	None	None	None	27637731	27638329	1	None	None
4	MTND6P17	ENSG00000249770	ENST00000511811	unprocessed_pseudogene	KNOWN	None	39480	None	None	156373678	156374196	1	None	None
4	MTND5P9	ENSG00000248748	ENST00000503854	unprocessed_pseudogene	KNOWN	None	42305	None	None	156374201	156375955	-1	None	None
10	MPP7	ENSG00000150054	ENST00000375732	protein_coding	KNOWN	CCDS7158	26542	1731	576	28339922	28571067	-1	None	FLJ32798
10	MPP7	ENSG00000150054	ENST00000496637	nonsense_mediated_decay	KNOWN	None	26542	1365	454	28340097	28527666	-1	None	FLJ32798
10	MPP7	ENSG00000150054	ENST00000375719	protein_coding	KNOWN	CCDS7158	26542	1731	576	28342990	28571018	-1	None	FLJ32798
10	MPP7	ENSG00000150054	ENST00000441595	protein_coding	NOVEL	None	26542	936	311	28343072	28623415	-1	None	FLJ32798
10	MPP7	ENSG00000150054	ENST00000481244	processed_transcript	KNOWN	None	26542	None	None	28413001	28571035	-1	None	FLJ32798
10	MPP7	ENSG00000150054	ENST00000474731	processed_transcript	KNOWN	None	26542	None	None	28413939	28492161	-1	None	FLJ32798
10	MPP7	ENSG00000150054	ENST00000474682	processed_transcript	KNOWN	None	26542	None	None	28525530	28527629	-1	None	FLJ32798
10	MPP7	ENSG00000150054	ENST00000337532	protein_coding	KNOWN	CCDS7158	26542	1731	576	28339922	28569071	-1	None	FLJ32798
10	MPP7	ENSG00000150054	ENST00000540098	protein_coding	KNOWN	CCDS7158	26542	1731	576	28340098	28527666	-1	None	FLJ32798
10	MPP7	ENSG00000150054	ENST00000445954	protein_coding	KNOWN	None	26542	1125	374	28345526	28591995	-1	None	FLJ32798
HSCHR5_1_CTG1	CFL1P5	ENSG00000263071	ENST00000576793	processed_pseudogene	KNOWN	None	1877	None	None	68609180	68609681	-1	CFLL1, CFLP5	None
1	RNU6-48P	ENSG00000206888	ENST00000384161	snRNA	KNOWN	None	34292	None	None	27651710	27651816	1	RNU6-48	None
17	EFCAB5	ENSG00000176927	ENST00000448319	protein_coding	KNOWN	None	24801	310	102	28256218	28296096	1	None	FLJ46247
17	EFCAB5	ENSG00000176927	ENST00000534836	processed_transcript	KNOWN	None	24801	None	None	28256874	28326994	1	None	FLJ46247
17	EFCAB5	ENSG00000176927	ENST00000423598	nonsense_mediated_decay	KNOWN	None	24801	171	56	28256874	28401017	1	None	FLJ46247
17	EFCAB5	ENSG00000176927	ENST00000536908	protein_coding	KNOWN	CCDS54103	24801	2571	856	28256921	28400771	1	None	FLJ46247
17	EFCAB5	ENSG00000176927	ENST00000394835	protein_coding	KNOWN	CCDS11254	24801	4512	1503	28268623	28435470	1	None	FLJ46247
17	EFCAB5	ENSG00000176927	ENST00000421238	processed_transcript	KNOWN	None	24801	None	None	28268655	28295897	1	None	FLJ46247
17	EFCAB5	ENSG00000176927	ENST00000440741	nonsense_mediated_decay	KNOWN	None	24801	2781	926	28268686	28401648	1	None	FLJ46247
17	EFCAB5	ENSG00000176927	ENST00000419434	protein_coding	NOVEL	None	24801	3558	1185	28296201	28435470	1	None	FLJ46247
17	EFCAB5	ENSG00000176927	ENST00000588978	protein_coding	NOVEL	None	24801	2323	773	28296224	28435324	1	None	FLJ46247
17	EFCAB5	ENSG00000176927	ENST00000584826	processed_transcript	KNOWN	None	24801	None	None	28358781	28380352	1	None	FLJ46247
17	EFCAB5	ENSG00000176927	ENST00000581617	retained_intron	KNOWN	None	24801	None	None	28382913	28386901	1	None	FLJ46247
17	EFCAB5	ENSG00000176927	ENST00000582953	processed_transcript	KNOWN	None	24801	None	None	28414157	28419174	1	None	FLJ46247
17	EFCAB5	ENSG00000176927	ENST00000320856	protein_coding	KNOWN	None	24801	4140	1379	28268623	28435469	1	None	FLJ46247
17	EFCAB5	ENSG00000176927	ENST00000394832	protein_coding	KNOWN	None	24801	2928	975	28268623	28435469	1	None	FLJ46247
17	EFCAB5	ENSG00000176927	ENST00000378738	protein_coding	KNOWN	None	24801	2781	926	28268623	28400144	1	None	FLJ46247
17	EFCAB5	ENSG00000176927	ENST00000541045	protein_coding	KNOWN	None	24801	1710	569	28256874	28401017	1	None	FLJ46247
1	None	ENSG00000241547	ENST00000486001	processed_pseudogene	KNOWN	None	None	None	None	27651820	27652287	1	None	None
6	None	ENSG00000227502	ENST00000434296	lincRNA	KNOWN	None	None	None	None	114189178	114194516	-1	None	None
5	None	ENSG00000253406	ENST00000523176	antisense	KNOWN	None	None	None	None	148596086	148656368	-1	None	None
HSCHR5_1_CTG1	CHCHD2P2	ENSG00000263197	ENST00000575348	processed_pseudogene	KNOWN	None	39586	None	None	68629688	68630008	1	None	None
6	OR2P1P	ENSG00000236909	ENST00000413771	unprocessed_pseudogene	KNOWN	None	8272	None	None	29039601	29040376	-1	None	hs6M1-26
X	GEMIN8	ENSG00000046647	ENST00000380523	protein_coding	KNOWN	CCDS14159	26044	729	242	14026398	14048011	-1	FAM51A1	FLJ20514
X	GEMIN8	ENSG00000046647	ENST00000398355	protein_coding	KNOWN	CCDS14159	26044	729	242	14026792	14048012	-1	FAM51A1	FLJ20514
X	GEMIN8	ENSG00000046647	ENST00000332885	protein_coding	KNOWN	None	26044	531	176	14027230	14047734	-1	FAM51A1	FLJ20514
X	GEMIN8	ENSG00000046647	ENST00000460203	processed_transcript	KNOWN	None	26044	None	None	14032327	14038706	-1	FAM51A1	FLJ20514
X	GEMIN8	ENSG00000046647	ENST00000477386	processed_transcript	KNOWN	None	26044	None	None	14038196	14045263	-1	FAM51A1	FLJ20514
1	None	ENSG00000231207	ENST00000443746	processed_pseudogene	KNOWN	None	None	None	None	27715972	27716649	1	None	None
5	None	ENSG00000253618	ENST00000521295	antisense	KNOWN	None	None	None	None	148727679	148737205	-1	None	None
HSCHR5_1_CTG1	None	ENSG00000263996	ENST00000580411	misc_RNA	NOVEL	None	None	None	None	68751160	68751417	1	None	None
18	SERPINB8	ENSG00000166401	ENST00000397985	protein_coding	KNOWN	CCDS11991	8952	1125	374	61637159	61656608	1	PI8	CAP2
18	SERPINB8	ENSG00000166401	ENST00000397988	protein_coding	PUTATIVE	CCDS42442	8952	729	242	61637353	61653887	1	PI8	CAP2
18	SERPINB8	ENSG00000166401	ENST00000448851	protein_coding	KNOWN	None	8952	372	123	61637483	61649020	1	PI8	CAP2
18	SERPINB8	ENSG00000166401	ENST00000441827	protein_coding	KNOWN	None	8952	493	163	61637739	61650881	1	PI8	CAP2
18	SERPINB8	ENSG00000166401	ENST00000295211	protein_coding	PUTATIVE	None	8952	569	188	61647042	61654630	1	PI8	CAP2
18	SERPINB8	ENSG00000166401	ENST00000493661	processed_transcript	KNOWN	None	8952	None	None	61652410	61672278	1	PI8	CAP2
18	SERPINB8	ENSG00000166401	ENST00000353706	protein_coding	KNOWN	CCDS11991	8952	1125	374	61637263	61656605	1	PI8	CAP2
18	SERPINB8	ENSG00000166401	ENST00000542677	protein_coding	KNOWN	None	8952	579	192	61637315	61654789	1	PI8	CAP2
6	None	ENSG00000175967	ENST00000314481	antisense	KNOWN	None	None	None	None	114225302	114242806	1	None	None
5	None	ENSG00000253865	ENST00000521756	antisense	KNOWN	None	None	None	None	148751737	148754679	1	None	None
10	RN7SL248P	ENSG00000264977	ENST00000580067	misc_RNA	KNOWN	None	46264	None	None	46900386	46900669	-1	None	None
HSCHR5_1_CTG1	RPS27P14	ENSG00000262864	ENST00000570374	processed_pseudogene	KNOWN	None	35923	None	None	68765415	68765668	1	None	None
6	None	ENSG00000228364	ENST00000455287	processed_pseudogene	NOVEL	None	None	None	None	29044350	29044945	-1	None	None
1	None	ENSG00000241169	ENST00000492975	lincRNA	KNOWN	None	None	None	None	27783709	27786093	1	None	None
19	PNMAL2	ENSG00000204851	ENST00000594749	processed_transcript	KNOWN	None	29206	None	None	46990163	46999136	-1	None	KIAA1183
19	PNMAL2	ENSG00000204851	ENST00000599531	protein_coding	KNOWN	CCDS59400	29206	1908	635	46994448	46999755	-1	None	KIAA1183
19	PNMAL2	ENSG00000204851	ENST00000377655	protein_coding	KNOWN	None	29206	840	279	46994453	46998722	-1	None	KIAA1183
3	None	ENSG00000241946	ENST00000465165	processed_pseudogene	KNOWN	None	None	None	None	180307675	180307835	-1	None	None
10	None	ENSG00000272430	ENST00000605984	lincRNA	KNOWN	None	None	None	None	46914145	46917230	-1	None	None
1	None	ENSG00000237429	ENST00000443579	antisense	KNOWN	None	None	None	None	27852316	27857072	1	None	None
3	IQCF6	ENSG00000214686	ENST00000398780	protein_coding	KNOWN	CCDS54590	35158	324	107	51812580	51813009	-1	None	None
6	None	ENSG00000226099	ENST00000451843	antisense	KNOWN	None	None	None	None	114260792	114261212	1	None	None
6	None	ENSG00000227206	ENST00000419702	lincRNA	KNOWN	None	None	None	None	29091987	29096685	1	None	None
8	RNU6-875P	ENSG00000252297	ENST00000516488	snRNA	KNOWN	None	47838	None	None	124354654	124354759	1	None	None
HSCHR5_1_CTG1	None	ENSG00000262146	ENST00000573171	processed_transcript	KNOWN	None	None	None	None	68773020	68798008	-1	None	None
HSCHR5_1_CTG1	None	ENSG00000262146	ENST00000570686	processed_transcript	KNOWN	None	None	None	None	68773028	68781158	-1	None	None
8	MIR548D1	ENSG00000207704	ENST00000384971	miRNA	KNOWN	None	32801	None	None	124360274	124360370	1	MIRN548D1	hsa-mir-548d-1
8	MIR548AA1	ENSG00000207704	ENST00000384971	miRNA	KNOWN	None	38944	None	None	124360274	124360370	1	None	hsa-mir-548aa-1
5	MIR143HG	ENSG00000249669	ENST00000512096	lincRNA	KNOWN	None	42872	None	None	148786252	148803960	1	None	None
5	MIR143HG	ENSG00000249669	ENST00000523269	retained_intron	KNOWN	None	42872	None	None	148786441	148801189	1	None	None
5	MIR143HG	ENSG00000249669	ENST00000505254	lincRNA	KNOWN	None	42872	None	None	148786441	148808237	1	None	None
5	MIR143HG	ENSG00000249669	ENST00000602964	lincRNA	KNOWN	None	42872	None	None	148786442	148808241	1	None	None
5	MIR143HG	ENSG00000249669	ENST00000519898	lincRNA	KNOWN	None	42872	None	None	148786479	148805225	1	None	None
5	MIR143HG	ENSG00000249669	ENST00000522358	retained_intron	KNOWN	None	42872	None	None	148786526	148804027	1	None	None
5	MIR143HG	ENSG00000249669	ENST00000505340	lincRNA	KNOWN	None	42872	None	None	148786527	148800500	1	None	None
5	MIR143HG	ENSG00000249669	ENST00000524265	retained_intron	KNOWN	None	42872	None	None	148786527	148801504	1	None	None
5	MIR143HG	ENSG00000249669	ENST00000509909	lincRNA	KNOWN	None	42872	None	None	148786527	148803902	1	None	None
1	None	ENSG00000235912	ENST00000433132	processed_pseudogene	KNOWN	None	None	None	None	27975930	27976121	1	None	None
10	RHEBP1	ENSG00000229927	ENST00000448647	processed_pseudogene	KNOWN	None	10010	None	None	46914151	46914706	1	RHEB1	RHEB
6	OR2N1P	ENSG00000203492	ENST00000421799	unprocessed_pseudogene	KNOWN	None	8271	None	None	29105657	29106593	-1	None	OR6-7
8	DUTP2	ENSG00000254388	ENST00000519164	processed_pseudogene	KNOWN	None	39515	None	None	124364421	124364883	1	None	None
3	IFT80	ENSG00000068885	ENST00000326448	protein_coding	KNOWN	CCDS3188	29262	2334	777	159974774	160117320	-1	WDR56	KIAA1374
3	IFT80	ENSG00000068885	ENST00000483465	protein_coding	PUTATIVE	CCDS54668	29262	1923	640	159974780	160101444	-1	WDR56	KIAA1374
3	IFT80	ENSG00000068885	ENST00000496589	protein_coding	PUTATIVE	CCDS54668	29262	1923	640	159975968	160117061	-1	WDR56	KIAA1374
3	IFT80	ENSG00000068885	ENST00000487943	retained_intron	KNOWN	None	29262	None	None	159975973	160116997	-1	WDR56	KIAA1374
3	IFT80	ENSG00000068885	ENST00000478278	retained_intron	KNOWN	None	29262	None	None	159976191	159986549	-1	WDR56	KIAA1374
3	IFT80	ENSG00000068885	ENST00000463240	processed_transcript	KNOWN	None	29262	None	None	159976207	159995266	-1	WDR56	KIAA1374
3	IFT80	ENSG00000068885	ENST00000483325	protein_coding	PUTATIVE	None	29262	369	122	160016867	160025569	-1	WDR56	KIAA1374
3	IFT80	ENSG00000068885	ENST00000472555	nonsense_mediated_decay	KNOWN	None	29262	209	68	160021704	160075287	-1	WDR56	KIAA1374
3	IFT80	ENSG00000068885	ENST00000461213	retained_intron	KNOWN	None	29262	None	None	160021732	160037935	-1	WDR56	KIAA1374
3	IFT80	ENSG00000068885	ENST00000478460	processed_transcript	KNOWN	None	29262	None	None	160037621	160117009	-1	WDR56	KIAA1374
3	IFT80	ENSG00000068885	ENST00000484963	nonsense_mediated_decay	KNOWN	None	29262	168	55	160073801	160095242	-1	WDR56	KIAA1374
3	IFT80	ENSG00000068885	ENST00000465537	protein_coding	PUTATIVE	None	29262	366	121	160073801	160116995	-1	WDR56	KIAA1374
3	IFT80	ENSG00000068885	ENST00000472773	processed_transcript	KNOWN	None	29262	None	None	160075273	160117011	-1	WDR56	KIAA1374
3	IFT80	ENSG00000068885	ENST00000475677	protein_coding	PUTATIVE	None	29262	232	76	160075273	160117332	-1	WDR56	KIAA1374
3	IFT80	ENSG00000068885	ENST00000498409	protein_coding	KNOWN	None	29262	539	178	160083841	160117321	-1	WDR56	KIAA1374
3	IFT80	ENSG00000068885	ENST00000468218	protein_coding	PUTATIVE	None	29262	126	41	160083843	160117011	-1	WDR56	KIAA1374
3	IFT80	ENSG00000068885	ENST00000486856	protein_coding	PUTATIVE	None	29262	98	31	160083871	160117004	-1	WDR56	KIAA1374
3	IFT80	ENSG00000068885	ENST00000478370	protein_coding	PUTATIVE	None	29262	98	31	160083871	160117011	-1	WDR56	KIAA1374
3	IFT80	ENSG00000068885	ENST00000477495	processed_transcript	KNOWN	None	29262	None	None	160091280	160117033	-1	WDR56	KIAA1374
3	IFT80	ENSG00000068885	ENST00000482317	nonsense_mediated_decay	KNOWN	None	29262	288	95	160093607	160117004	-1	WDR56	KIAA1374
3	IFT80	ENSG00000068885	ENST00000465972	processed_transcript	KNOWN	None	29262	None	None	160095224	160117004	-1	WDR56	KIAA1374
3	IFT80	ENSG00000068885	ENST00000489004	protein_coding	KNOWN	None	29262	364	120	160095224	160117035	-1	WDR56	KIAA1374
3	IFT80	ENSG00000068885	ENST00000468327	processed_transcript	KNOWN	None	29262	None	None	160095230	160117003	-1	WDR56	KIAA1374
3	IFT80	ENSG00000068885	ENST00000478536	protein_coding	KNOWN	None	29262	193	63	160099357	160117332	-1	WDR56	KIAA1374
3	IFT80	ENSG00000068885	ENST00000498145	processed_transcript	KNOWN	None	29262	None	None	160099393	160117308	-1	WDR56	KIAA1374
3	IFT80	ENSG00000068885	ENST00000467254	retained_intron	KNOWN	None	29262	None	None	160101773	160117035	-1	WDR56	KIAA1374
3	IFT80	ENSG00000068885	ENST00000466326	processed_transcript	PUTATIVE	None	29262	None	None	160102389	160117668	-1	WDR56	KIAA1374
1	None	ENSG00000233975	ENST00000440492	lincRNA	KNOWN	None	None	None	None	27986839	27989233	-1	None	None
HSCHR5_1_CTG1	None	ENSG00000266528	ENST00000579320	misc_RNA	NOVEL	None	None	None	None	68774539	68774811	-1	None	None
10	None	ENSG00000271434	ENST00000604581	antisense	KNOWN	None	None	None	None	126136282	126138617	1	None	None
HSCHR5_1_CTG1	None	ENSG00000261895	ENST00000575180	snRNA	NOVEL	None	None	None	None	68826198	68826302	-1	None	None
10	None	ENSG00000229227	ENST00000424615	lincRNA	KNOWN	None	None	None	None	46937463	46947262	-1	None	None
10	None	ENSG00000229227	ENST00000437899	lincRNA	KNOWN	None	None	None	None	46937463	46951699	-1	None	None
10	None	ENSG00000229227	ENST00000600081	lincRNA	KNOWN	None	None	None	None	46937608	46938496	-1	None	None
10	None	ENSG00000229227	ENST00000593793	lincRNA	KNOWN	None	None	None	None	46937608	46947552	-1	None	None
10	None	ENSG00000229227	ENST00000594037	lincRNA	KNOWN	None	None	None	None	46937608	46947708	-1	None	None
16	None	ENSG00000260782	ENST00000566331	processed_pseudogene	KNOWN	None	None	None	None	46823810	46825952	1	None	None
1	None	ENSG00000225886	ENST00000430683	antisense	KNOWN	None	None	None	None	27995979	27996787	1	None	None
HSCHR5_1_CTG1	None	ENSG00000262205	ENST00000573875	snoRNA	NOVEL	None	None	None	None	68834750	68834853	-1	None	None
6	OR2J4P	ENSG00000224233	ENST00000453647	unprocessed_pseudogene	KNOWN	None	8262	None	None	29149287	29150222	1	None	OR6-9, hs6M1-5, dJ80I19.5
10	RPS10P18	ENSG00000229455	ENST00000442662	processed_pseudogene	KNOWN	None	36239	None	None	126178392	126179147	-1	None	None
11	OR8X1P	ENSG00000255048	ENST00000534542	unprocessed_pseudogene	KNOWN	None	31318	None	None	124274130	124274998	-1	None	None
17	HEATR6	ENSG00000068097	ENST00000184956	protein_coding	KNOWN	CCDS11623	24076	3546	1181	58120555	58156292	-1	None	ABC1, FLJ22087
17	HEATR6	ENSG00000068097	ENST00000585976	protein_coding	NOVEL	None	24076	3210	1069	58120853	58156282	-1	None	ABC1, FLJ22087
17	HEATR6	ENSG00000068097	ENST00000587003	nonsense_mediated_decay	KNOWN	None	24076	1242	413	58120924	58156282	-1	None	ABC1, FLJ22087
17	HEATR6	ENSG00000068097	ENST00000587314	nonsense_mediated_decay	KNOWN	None	24076	162	53	58121034	58125677	-1	None	ABC1, FLJ22087
17	HEATR6	ENSG00000068097	ENST00000591683	nonsense_mediated_decay	KNOWN	None	24076	363	120	58124725	58132959	-1	None	ABC1, FLJ22087
17	HEATR6	ENSG00000068097	ENST00000590587	nonsense_mediated_decay	KNOWN	None	24076	74	23	58147170	58153546	-1	None	ABC1, FLJ22087
17	HEATR6	ENSG00000068097	ENST00000593228	protein_coding	NOVEL	None	24076	550	182	58149582	58156273	-1	None	ABC1, FLJ22087
17	HEATR6	ENSG00000068097	ENST00000593097	protein_coding	NOVEL	None	24076	641	212	58150597	58156282	-1	None	ABC1, FLJ22087
17	HEATR6	ENSG00000068097	ENST00000592664	nonsense_mediated_decay	KNOWN	None	24076	345	114	58151207	58156282	-1	None	ABC1, FLJ22087
17	HEATR6	ENSG00000068097	ENST00000591074	retained_intron	KNOWN	None	24076	None	None	58152976	58156282	-1	None	ABC1, FLJ22087
17	HEATR6	ENSG00000068097	ENST00000585712	processed_transcript	KNOWN	None	24076	None	None	58153634	58156283	-1	None	ABC1, FLJ22087
16	FHOD1	ENSG00000135723	ENST00000569085	retained_intron	KNOWN	None	17905	None	None	67263290	67264099	-1	None	FHOS
16	FHOD1	ENSG00000135723	ENST00000258201	protein_coding	KNOWN	CCDS10834	17905	3495	1164	67263292	67281561	-1	None	FHOS
16	FHOD1	ENSG00000135723	ENST00000567752	retained_intron	KNOWN	None	17905	None	None	67263294	67281367	-1	None	FHOS
16	FHOD1	ENSG00000135723	ENST00000567687	protein_coding	NOVEL	None	17905	2232	743	67263321	67281399	-1	None	FHOS
16	FHOD1	ENSG00000135723	ENST00000566006	retained_intron	KNOWN	None	17905	None	None	67264217	67264983	-1	None	FHOS
16	FHOD1	ENSG00000135723	ENST00000567561	nonsense_mediated_decay	KNOWN	None	17905	68	21	67264232	67265961	-1	None	FHOS
16	FHOD1	ENSG00000135723	ENST00000567509	nonsense_mediated_decay	KNOWN	None	17905	327	108	67265353	67267664	-1	None	FHOS
16	FHOD1	ENSG00000135723	ENST00000569888	retained_intron	KNOWN	None	17905	None	None	67265693	67267934	-1	None	FHOS
16	FHOD1	ENSG00000135723	ENST00000561922	nonsense_mediated_decay	KNOWN	None	17905	474	157	67267584	67281381	-1	None	FHOS
16	FHOD1	ENSG00000135723	ENST00000568595	nonsense_mediated_decay	KNOWN	None	17905	85	27	67267851	67270519	-1	None	FHOS
16	FHOD1	ENSG00000135723	ENST00000562266	retained_intron	KNOWN	None	17905	None	None	67268083	67268657	-1	None	FHOS
1	RNU6-949P	ENSG00000206767	ENST00000384040	snRNA	KNOWN	None	47912	None	None	28002114	28002220	-1	None	None
5	None	ENSG00000251446	ENST00000512245	lincRNA	KNOWN	None	None	None	None	176153943	176166459	-1	None	None
HSCHR6_MHC_APD	None	ENSG00000272350	ENST00000606936	protein_coding	NOVEL	None	None	108	35	28730486	28730593	1	None	None
11	KMT2A	ENSG00000118058	ENST00000534358	protein_coding	NOVEL	CCDS55791	7132	11919	3972	118307205	118397539	1	MLL	TRX1, HRX, ALL-1, HTRX1, CXXC7, MLL1A
11	KMT2A	ENSG00000118058	ENST00000531904	protein_coding	PUTATIVE	None	7132	4317	1438	118307225	118355029	1	MLL	TRX1, HRX, ALL-1, HTRX1, CXXC7, MLL1A
11	KMT2A	ENSG00000118058	ENST00000389506	protein_coding	KNOWN	CCDS31686	7132	11910	3969	118307228	118394632	1	MLL	TRX1, HRX, ALL-1, HTRX1, CXXC7, MLL1A
11	KMT2A	ENSG00000118058	ENST00000532204	protein_coding	PUTATIVE	None	7132	264	87	118307459	118320699	1	MLL	TRX1, HRX, ALL-1, HTRX1, CXXC7, MLL1A
11	KMT2A	ENSG00000118058	ENST00000529852	protein_coding	PUTATIVE	None	7132	264	87	118307459	118321461	1	MLL	TRX1, HRX, ALL-1, HTRX1, CXXC7, MLL1A
11	KMT2A	ENSG00000118058	ENST00000527869	protein_coding	PUTATIVE	None	7132	481	159	118307477	118345022	1	MLL	TRX1, HRX, ALL-1, HTRX1, CXXC7, MLL1A
11	KMT2A	ENSG00000118058	ENST00000533790	protein_coding	PUTATIVE	None	7132	804	267	118307477	118348917	1	MLL	TRX1, HRX, ALL-1, HTRX1, CXXC7, MLL1A
11	KMT2A	ENSG00000118058	ENST00000392873	protein_coding	NOVEL	None	7132	1098	365	118352546	118362610	1	MLL	TRX1, HRX, ALL-1, HTRX1, CXXC7, MLL1A
11	KMT2A	ENSG00000118058	ENST00000420751	processed_transcript	KNOWN	None	7132	None	None	118352703	118355046	1	MLL	TRX1, HRX, ALL-1, HTRX1, CXXC7, MLL1A
11	KMT2A	ENSG00000118058	ENST00000528278	retained_intron	KNOWN	None	7132	None	None	118371417	118374279	1	MLL	TRX1, HRX, ALL-1, HTRX1, CXXC7, MLL1A
11	KMT2A	ENSG00000118058	ENST00000534085	retained_intron	KNOWN	None	7132	None	None	118377276	118378480	1	MLL	TRX1, HRX, ALL-1, HTRX1, CXXC7, MLL1A
11	KMT2A	ENSG00000118058	ENST00000534678	retained_intron	KNOWN	None	7132	None	None	118380661	118383097	1	MLL	TRX1, HRX, ALL-1, HTRX1, CXXC7, MLL1A
11	KMT2A	ENSG00000118058	ENST00000525408	retained_intron	KNOWN	None	7132	None	None	118390274	118392908	1	MLL	TRX1, HRX, ALL-1, HTRX1, CXXC7, MLL1A
11	KMT2A	ENSG00000118058	ENST00000527839	retained_intron	KNOWN	None	7132	None	None	118390550	118393124	1	MLL	TRX1, HRX, ALL-1, HTRX1, CXXC7, MLL1A
11	KMT2A	ENSG00000118058	ENST00000354520	protein_coding	KNOWN	None	7132	11796	3931	118307228	118395411	1	MLL	TRX1, HRX, ALL-1, HTRX1, CXXC7, MLL1A
6	PPP1R10	ENSG00000204569	ENST00000376511	protein_coding	KNOWN	CCDS4681	9284	2823	940	30568177	30585021	-1	None	PNUTS, FB19, CAT53, p99
6	PPP1R10	ENSG00000204569	ENST00000496955	retained_intron	KNOWN	None	9284	None	None	30571350	30571989	-1	None	PNUTS, FB19, CAT53, p99
6	PPP1R10	ENSG00000204569	ENST00000476704	retained_intron	KNOWN	None	9284	None	None	30572389	30573775	-1	None	PNUTS, FB19, CAT53, p99
6	PPP1R10	ENSG00000204569	ENST00000461593	retained_intron	KNOWN	None	9284	None	None	30572795	30574514	-1	None	PNUTS, FB19, CAT53, p99
6	PPP1R10	ENSG00000204569	ENST00000468181	retained_intron	KNOWN	None	9284	None	None	30573586	30574020	-1	None	PNUTS, FB19, CAT53, p99
6	PPP1R10	ENSG00000204569	ENST00000484449	processed_transcript	KNOWN	None	9284	None	None	30577724	30585021	-1	None	PNUTS, FB19, CAT53, p99
6	PPP1R10	ENSG00000204569	ENST00000473954	processed_transcript	KNOWN	None	9284	None	None	30584361	30586389	-1	None	PNUTS, FB19, CAT53, p99
1	CHMP1AP1	ENSG00000226662	ENST00000445563	processed_pseudogene	KNOWN	None	39514	None	None	28013321	28013982	-1	None	None
16	CKBP1	ENSG00000260889	ENST00000565489	processed_pseudogene	KNOWN	None	1993	None	None	46876544	46878530	-1	None	None
HSCHR5_1_CTG1	None	ENSG00000262977	ENST00000571128	lincRNA	KNOWN	None	None	None	None	68889083	68890825	1	None	None
6	OR2H4P	ENSG00000230598	ENST00000415595	unprocessed_pseudogene	KNOWN	None	8255	None	None	29183013	29183956	1	None	OR6-3, OR2H4, hs6M1-7, dJ80I19.6
1	RNU6-424P	ENSG00000207095	ENST00000384367	snRNA	KNOWN	None	47387	None	None	28020242	28020346	1	None	None
16	CES1	ENSG00000198848	ENST00000565568	nonsense_mediated_decay	KNOWN	None	1863	135	44	55836763	55846886	-1	None	HMSE, CES2, HMSE1, SES1, CEH, CES1A1, CES1A2
16	CES1	ENSG00000198848	ENST00000360526	protein_coding	KNOWN	CCDS32450	1863	1707	568	55836765	55867070	-1	None	HMSE, CES2, HMSE1, SES1, CEH, CES1A1, CES1A2
16	CES1	ENSG00000198848	ENST00000422046	protein_coding	KNOWN	CCDS45489	1863	1701	566	55836766	55867249	-1	None	HMSE, CES2, HMSE1, SES1, CEH, CES1A1, CES1A2
16	CES1	ENSG00000198848	ENST00000563241	protein_coding	NOVEL	None	1863	396	131	55836848	55844567	-1	None	HMSE, CES2, HMSE1, SES1, CEH, CES1A1, CES1A2
16	CES1	ENSG00000198848	ENST00000361503	protein_coding	KNOWN	CCDS45488	1863	1704	567	55836961	55867098	-1	None	HMSE, CES2, HMSE1, SES1, CEH, CES1A1, CES1A2
16	CES1	ENSG00000198848	ENST00000569260	nonsense_mediated_decay	KNOWN	None	1863	253	83	55844483	55853492	-1	None	HMSE, CES2, HMSE1, SES1, CEH, CES1A1, CES1A2
16	CES1	ENSG00000198848	ENST00000563005	retained_intron	KNOWN	None	1863	None	None	55853916	55867008	-1	None	HMSE, CES2, HMSE1, SES1, CEH, CES1A1, CES1A2
16	CES1	ENSG00000198848	ENST00000565403	retained_intron	KNOWN	None	1863	None	None	55854241	55867016	-1	None	HMSE, CES2, HMSE1, SES1, CEH, CES1A1, CES1A2
16	CES1	ENSG00000198848	ENST00000566555	processed_transcript	KNOWN	None	1863	None	None	55855341	55862087	-1	None	HMSE, CES2, HMSE1, SES1, CEH, CES1A1, CES1A2
1	None	ENSG00000231344	ENST00000446554	processed_pseudogene	KNOWN	None	None	None	None	28065602	28065950	1	None	None
HSCHR6_MHC_APD	PBX2	ENSG00000225987	ENST00000453487	protein_coding	KNOWN	None	8633	1293	430	32163854	32169304	-1	None	G17, HOX12, PBX2MHC
HSCHR6_MHC_APD	PBX2	ENSG00000225987	ENST00000471428	retained_intron	KNOWN	None	8633	None	None	32165374	32166633	-1	None	G17, HOX12, PBX2MHC
HSCHR6_MHC_APD	PBX2	ENSG00000225987	ENST00000498292	retained_intron	KNOWN	None	8633	None	None	32166091	32169060	-1	None	G17, HOX12, PBX2MHC
HSCHR6_MHC_APD	PBX2	ENSG00000225987	ENST00000498723	retained_intron	KNOWN	None	8633	None	None	32166351	32167934	-1	None	G17, HOX12, PBX2MHC
HSCHR6_MHC_APD	PBX2	ENSG00000225987	ENST00000494427	retained_intron	KNOWN	None	8633	None	None	32167398	32168195	-1	None	G17, HOX12, PBX2MHC
HSCHR6_MHC_APD	PBX2	ENSG00000225987	ENST00000549520	protein_coding	KNOWN	None	8633	1332	443	32164820	32169074	-1	None	G17, HOX12, PBX2MHC
HSCHR6_MHC_APD	PBX2	ENSG00000225987	ENST00000549406	protein_coding	KNOWN	None	8633	1392	463	32164820	32169294	-1	None	G17, HOX12, PBX2MHC
HSCHR6_MHC_APD	PBX2	ENSG00000225987	ENST00000551389	protein_coding	KNOWN	None	8633	1317	438	32164820	32169294	-1	None	G17, HOX12, PBX2MHC
19	GAMT	ENSG00000130005	ENST00000252288	protein_coding	KNOWN	CCDS12064	4136	711	236	1397091	1401542	-1	None	PIG2, TP53I2
19	GAMT	ENSG00000130005	ENST00000447102	protein_coding	KNOWN	CCDS45897	4136	810	269	1398252	1401569	-1	None	PIG2, TP53I2
19	GAMT	ENSG00000130005	ENST00000591788	protein_coding	PUTATIVE	None	4136	319	105	1398599	1399590	-1	None	PIG2, TP53I2
6	None	ENSG00000232505	ENST00000441381	lincRNA	KNOWN	None	None	None	None	29191750	29234862	1	None	None
6	None	ENSG00000232505	ENST00000606648	lincRNA	KNOWN	None	None	None	None	29191777	29258217	1	None	None
3	IQCF3	ENSG00000229972	ENST00000456080	protein_coding	KNOWN	CCDS46837	31816	465	154	51851620	51864872	1	None	None
3	IQCF3	ENSG00000229972	ENST00000437810	protein_coding	KNOWN	CCDS46837	31816	465	154	51860899	51864843	1	None	None
3	IQCF3	ENSG00000229972	ENST00000446775	protein_coding	KNOWN	CCDS46837	31816	465	154	51860899	51864847	1	None	None
3	IQCF3	ENSG00000229972	ENST00000472485	processed_transcript	KNOWN	None	31816	None	None	51862569	51863729	1	None	None
3	IQCF3	ENSG00000229972	ENST00000465028	retained_intron	KNOWN	None	31816	None	None	51862661	51863881	1	None	None
3	IQCF3	ENSG00000229972	ENST00000474242	retained_intron	KNOWN	None	31816	None	None	51862667	51863774	1	None	None
3	IQCF3	ENSG00000229972	ENST00000444293	protein_coding	PUTATIVE	None	31816	282	93	51863452	51864872	1	None	None
3	IQCF3	ENSG00000229972	ENST00000462079	processed_transcript	KNOWN	None	31816	None	None	51863846	51864872	1	None	None
3	IQCF3	ENSG00000229972	ENST00000440739	protein_coding	KNOWN	CCDS46837	31816	465	154	51862569	51864876	1	None	None
5	None	ENSG00000269636	ENST00000600109	protein_coding	KNOWN	None	None	408	135	150157867	150176297	1	None	None
1	RPEP3	ENSG00000230833	ENST00000425462	processed_pseudogene	KNOWN	None	44522	None	None	28066465	28067140	1	None	None
3	CCDC39-AS1	ENSG00000243187	ENST00000495357	antisense	KNOWN	None	41089	None	None	180397872	180418237	1	None	None
19	None	ENSG00000204850	ENST00000377652	protein_coding	KNOWN	None	None	612	203	46997765	46999755	1	None	None
X	RHOXF2B	ENSG00000203989	ENST00000371402	protein_coding	KNOWN	CCDS43985	33519	867	288	119205848	119211707	-1	None	None
1	None	ENSG00000269971	ENST00000602607	sense_intronic	KNOWN	None	None	None	None	28100369	28100552	1	None	None
6	OR2G1P	ENSG00000213911	ENST00000396808	unprocessed_pseudogene	KNOWN	None	8251	None	None	29197004	29197934	-1	None	OST619, hs6M1-25
19	QPCTL	ENSG00000011478	ENST00000012049	protein_coding	KNOWN	CCDS12672	25952	1149	382	46195741	46207247	1	None	FLJ20084
19	QPCTL	ENSG00000011478	ENST00000366382	protein_coding	KNOWN	CCDS54282	25952	867	288	46195955	46207247	1	None	FLJ20084
19	QPCTL	ENSG00000011478	ENST00000591606	nonsense_mediated_decay	KNOWN	None	25952	366	121	46196016	46202083	1	None	FLJ20084
19	QPCTL	ENSG00000011478	ENST00000592769	retained_intron	KNOWN	None	25952	None	None	46201738	46205081	1	None	FLJ20084
16	None	ENSG00000238712	ENST00000459388	snoRNA	NOVEL	None	None	None	None	21900888	21900991	-1	None	None
1	None	ENSG00000270031	ENST00000602843	sense_intronic	KNOWN	None	None	None	None	28146494	28146852	1	None	None
19	None	ENSG00000268423	ENST00000593888	protein_coding	PUTATIVE	None	None	378	125	47050313	47104118	-1	None	None
19	None	ENSG00000268423	ENST00000598743	processed_transcript	KNOWN	None	None	None	None	47071335	47092411	-1	None	None
16	None	ENSG00000257408	ENST00000550410	unprocessed_pseudogene	KNOWN	None	None	None	None	21950186	21956451	1	None	None
1	RNU6-1245P	ENSG00000223062	ENST00000411130	snRNA	KNOWN	None	48208	None	None	28151049	28151154	1	None	None
5	IRGM	ENSG00000237693	ENST00000522154	protein_coding	KNOWN	CCDS47313	29597	546	181	150226085	150228231	1	IRGM1	LRG47, LRG-47, IFI1
5	IRGM	ENSG00000237693	ENST00000520549	nonsense_mediated_decay	KNOWN	None	29597	215	70	150228059	150280298	1	IRGM1	LRG47, LRG-47, IFI1
22	None	ENSG00000252024	ENST00000516215	snoRNA	NOVEL	None	None	None	None	20455450	20455532	1	None	None
1	SCARNA1	ENSG00000252947	ENST00000517138	snoRNA	KNOWN	None	32555	None	None	28160912	28161077	1	None	ACA35
16	None	ENSG00000261725	ENST00000562529	processed_pseudogene	KNOWN	None	None	None	None	46884911	46885166	1	None	None
22	RN7SKP131	ENSG00000199876	ENST00000363006	misc_RNA	KNOWN	None	45855	None	None	20455669	20455969	-1	None	None
1	RERE	ENSG00000142599	ENST00000337907	protein_coding	KNOWN	CCDS95	9965	4701	1566	8412457	8877524	-1	ATN1L	KIAA0458, ARP, ARG, DNB1
1	RERE	ENSG00000142599	ENST00000377464	protein_coding	NOVEL	None	9965	3897	1298	8412466	8585998	-1	ATN1L	KIAA0458, ARP, ARG, DNB1
1	RERE	ENSG00000142599	ENST00000467350	processed_transcript	KNOWN	None	9965	None	None	8412969	8415142	-1	ATN1L	KIAA0458, ARP, ARG, DNB1
1	RERE	ENSG00000142599	ENST00000400907	protein_coding	PUTATIVE	None	9965	1755	584	8414003	8716430	-1	ATN1L	KIAA0458, ARP, ARG, DNB1
1	RERE	ENSG00000142599	ENST00000476556	protein_coding	KNOWN	CCDS41243	9965	3039	1012	8414153	8483726	-1	ATN1L	KIAA0458, ARP, ARG, DNB1
1	RERE	ENSG00000142599	ENST00000400908	protein_coding	KNOWN	CCDS95	9965	4701	1566	8414686	8877702	-1	ATN1L	KIAA0458, ARP, ARG, DNB1
1	RERE	ENSG00000142599	ENST00000505225	protein_coding	PUTATIVE	None	9965	533	176	8415581	8422904	-1	ATN1L	KIAA0458, ARP, ARG, DNB1
1	RERE	ENSG00000142599	ENST00000464367	non_stop_decay	KNOWN	None	9965	639	212	8423770	8424898	-1	ATN1L	KIAA0458, ARP, ARG, DNB1
1	RERE	ENSG00000142599	ENST00000488215	protein_coding	KNOWN	None	9965	78	25	8424116	8485272	-1	ATN1L	KIAA0458, ARP, ARG, DNB1
1	RERE	ENSG00000142599	ENST00000460659	processed_transcript	KNOWN	None	9965	None	None	8425915	8483479	-1	ATN1L	KIAA0458, ARP, ARG, DNB1
1	RERE	ENSG00000142599	ENST00000492766	processed_transcript	KNOWN	None	9965	None	None	8425936	8483726	-1	ATN1L	KIAA0458, ARP, ARG, DNB1
1	RERE	ENSG00000142599	ENST00000465125	processed_transcript	KNOWN	None	9965	None	None	8425940	8484294	-1	ATN1L	KIAA0458, ARP, ARG, DNB1
1	RERE	ENSG00000142599	ENST00000464972	protein_coding	PUTATIVE	None	9965	267	88	8482850	8586086	-1	ATN1L	KIAA0458, ARP, ARG, DNB1
1	RERE	ENSG00000142599	ENST00000480342	retained_intron	KNOWN	None	9965	None	None	8525030	8813897	-1	ATN1L	KIAA0458, ARP, ARG, DNB1
1	RERE	ENSG00000142599	ENST00000507012	processed_transcript	PUTATIVE	None	9965	None	None	8555211	8586098	-1	ATN1L	KIAA0458, ARP, ARG, DNB1
1	RERE	ENSG00000142599	ENST00000469251	processed_transcript	KNOWN	None	9965	None	None	8601283	8650900	-1	ATN1L	KIAA0458, ARP, ARG, DNB1
1	RERE	ENSG00000142599	ENST00000514428	protein_coding	NOVEL	None	9965	273	90	8616535	8684439	-1	ATN1L	KIAA0458, ARP, ARG, DNB1
1	RERE	ENSG00000142599	ENST00000468247	protein_coding	KNOWN	None	9965	105	34	8716252	8763278	-1	ATN1L	KIAA0458, ARP, ARG, DNB1
7	ABHD11	ENSG00000106077	ENST00000497897	retained_intron	KNOWN	None	16407	None	None	73150424	73153111	-1	WBSCR21	PP1226
7	ABHD11	ENSG00000106077	ENST00000437775	protein_coding	NOVEL	CCDS47608	16407	927	308	73150424	73153182	-1	WBSCR21	PP1226
7	ABHD11	ENSG00000106077	ENST00000357419	nonsense_mediated_decay	KNOWN	None	16407	306	101	73150424	73153182	-1	WBSCR21	PP1226
7	ABHD11	ENSG00000106077	ENST00000222800	protein_coding	KNOWN	CCDS5558	16407	948	315	73150424	73153197	-1	WBSCR21	PP1226
7	ABHD11	ENSG00000106077	ENST00000458339	protein_coding	PUTATIVE	None	16407	480	159	73150620	73153153	-1	WBSCR21	PP1226
7	ABHD11	ENSG00000106077	ENST00000412965	nonsense_mediated_decay	KNOWN	None	16407	554	183	73150866	73153069	-1	WBSCR21	PP1226
7	ABHD11	ENSG00000106077	ENST00000395147	protein_coding	KNOWN	CCDS47607	16407	777	258	73150889	73153162	-1	WBSCR21	PP1226
7	ABHD11	ENSG00000106077	ENST00000437891	nonsense_mediated_decay	KNOWN	None	16407	370	122	73150894	73152793	-1	WBSCR21	PP1226
7	ABHD11	ENSG00000106077	ENST00000486114	retained_intron	KNOWN	None	16407	None	None	73150993	73152840	-1	WBSCR21	PP1226
7	ABHD11	ENSG00000106077	ENST00000462381	retained_intron	KNOWN	None	16407	None	None	73151187	73151832	-1	WBSCR21	PP1226
7	ABHD11	ENSG00000106077	ENST00000474130	nonsense_mediated_decay	KNOWN	None	16407	264	87	73151898	73153097	-1	WBSCR21	PP1226
7	ABHD11	ENSG00000106077	ENST00000468331	processed_transcript	PUTATIVE	None	16407	None	None	73151976	73152713	-1	WBSCR21	PP1226
7	ABHD11	ENSG00000106077	ENST00000480445	processed_transcript	KNOWN	None	16407	None	None	73152000	73153182	-1	WBSCR21	PP1226
7	ABHD11	ENSG00000106077	ENST00000468998	processed_transcript	KNOWN	None	16407	None	None	73152044	73153161	-1	WBSCR21	PP1226
1	None	ENSG00000227050	ENST00000448015	antisense	KNOWN	None	None	None	None	28265386	28286704	-1	None	None
16	None	ENSG00000260395	ENST00000562640	processed_pseudogene	KNOWN	None	None	None	None	22009631	22010977	1	None	None
22	None	ENSG00000236984	ENST00000434754	unprocessed_pseudogene	KNOWN	None	None	None	None	20473206	20475156	-1	None	None
16	None	ENSG00000261173	ENST00000562536	antisense	KNOWN	None	None	None	None	47007900	47012894	1	None	None
17	FAM134C	ENSG00000141699	ENST00000589797	nonsense_mediated_decay	KNOWN	None	27258	243	80	40731531	40761395	-1	None	DKFZp686B1036, FLJ33806
17	FAM134C	ENSG00000141699	ENST00000309428	protein_coding	KNOWN	CCDS11432	27258	1401	466	40731533	40761402	-1	None	DKFZp686B1036, FLJ33806
17	FAM134C	ENSG00000141699	ENST00000585894	protein_coding	PUTATIVE	None	27258	1110	369	40733347	40762641	-1	None	DKFZp686B1036, FLJ33806
17	FAM134C	ENSG00000141699	ENST00000586870	nonsense_mediated_decay	KNOWN	None	27258	402	133	40733631	40761404	-1	None	DKFZp686B1036, FLJ33806
17	FAM134C	ENSG00000141699	ENST00000589007	retained_intron	KNOWN	None	27258	None	None	40734753	40738975	-1	None	DKFZp686B1036, FLJ33806
17	FAM134C	ENSG00000141699	ENST00000590035	retained_intron	KNOWN	None	27258	None	None	40737143	40738450	-1	None	DKFZp686B1036, FLJ33806
17	FAM134C	ENSG00000141699	ENST00000585726	nonsense_mediated_decay	KNOWN	None	27258	252	83	40737143	40761402	-1	None	DKFZp686B1036, FLJ33806
17	FAM134C	ENSG00000141699	ENST00000591547	protein_coding	PUTATIVE	None	27258	360	119	40737219	40762611	-1	None	DKFZp686B1036, FLJ33806
17	FAM134C	ENSG00000141699	ENST00000593251	nonsense_mediated_decay	KNOWN	None	27258	390	129	40737229	40761393	-1	None	DKFZp686B1036, FLJ33806
17	FAM134C	ENSG00000141699	ENST00000588423	protein_coding	PUTATIVE	None	27258	327	108	40738786	40762621	-1	None	DKFZp686B1036, FLJ33806
17	FAM134C	ENSG00000141699	ENST00000586796	retained_intron	KNOWN	None	27258	None	None	40739713	40761402	-1	None	DKFZp686B1036, FLJ33806
17	FAM134C	ENSG00000141699	ENST00000590541	nonsense_mediated_decay	KNOWN	None	27258	246	81	40744150	40761342	-1	None	DKFZp686B1036, FLJ33806
17	FAM134C	ENSG00000141699	ENST00000543197	protein_coding	KNOWN	None	27258	816	271	40733631	40761382	-1	None	DKFZp686B1036, FLJ33806
12	FKBP4	ENSG00000004478	ENST00000001008	protein_coding	KNOWN	CCDS8512	3720	1380	459	2904119	2913124	1	None	FKBP59, FKBP52
12	FKBP4	ENSG00000004478	ENST00000543769	nonsense_mediated_decay	KNOWN	None	3720	156	51	2904235	2906448	1	None	FKBP59, FKBP52
12	FKBP4	ENSG00000004478	ENST00000540260	processed_transcript	KNOWN	None	3720	None	None	2904823	2906368	1	None	FKBP59, FKBP52
12	FKBP4	ENSG00000004478	ENST00000538622	protein_coding	PUTATIVE	None	3720	258	85	2905847	2907037	1	None	FKBP59, FKBP52
12	FKBP4	ENSG00000004478	ENST00000543037	retained_intron	KNOWN	None	3720	None	None	2907933	2909631	1	None	FKBP59, FKBP52
12	FKBP4	ENSG00000004478	ENST00000539181	protein_coding	PUTATIVE	None	3720	254	83	2910344	2910969	1	None	FKBP59, FKBP52
12	FKBP4	ENSG00000004478	ENST00000544366	protein_coding	PUTATIVE	None	3720	71	22	2912363	2914576	1	None	FKBP59, FKBP52
17	ANKRD40	ENSG00000154945	ENST00000285243	protein_coding	KNOWN	CCDS11572	28233	1107	368	48770551	48785285	-1	None	MGC15396
17	ANKRD40	ENSG00000154945	ENST00000513072	protein_coding	PUTATIVE	None	28233	366	121	48776938	48778459	-1	None	MGC15396
17	ANKRD40	ENSG00000154945	ENST00000507114	retained_intron	KNOWN	None	28233	None	None	48777646	48785016	-1	None	MGC15396
11	OR8A2P	ENSG00000255510	ENST00000528631	processed_pseudogene	KNOWN	None	15306	None	None	124330430	124331381	1	None	None
22	CA15P2	ENSG00000234757	ENST00000424817	unprocessed_pseudogene	KNOWN	None	14916	None	None	20486312	20488882	-1	None	None
16	None	ENSG00000260277	ENST00000568354	antisense	KNOWN	None	None	None	None	22094577	22101485	-1	None	None
16	None	ENSG00000260277	ENST00000568410	antisense	KNOWN	None	None	None	None	22097120	22098427	-1	None	None
16	None	ENSG00000260277	ENST00000568603	antisense	KNOWN	None	None	None	None	22098308	22103552	-1	None	None
1	None	ENSG00000238231	ENST00000426041	processed_pseudogene	KNOWN	None	None	None	None	28316669	28317035	-1	None	None
10	None	ENSG00000233334	ENST00000448422	antisense	KNOWN	None	None	None	None	126392194	126402786	1	None	None
10	None	ENSG00000233334	ENST00000432699	antisense	KNOWN	None	None	None	None	126392753	126402272	1	None	None
12	IKBIP	ENSG00000166130	ENST00000393042	protein_coding	KNOWN	CCDS41822	26430	213	70	99007183	99038732	-1	None	FLJ31051, IKIP
12	IKBIP	ENSG00000166130	ENST00000342502	protein_coding	KNOWN	CCDS9067	26430	1053	350	99007183	99038891	-1	None	FLJ31051, IKIP
12	IKBIP	ENSG00000166130	ENST00000299157	protein_coding	KNOWN	CCDS9068	26430	1134	377	99018027	99038853	-1	None	FLJ31051, IKIP
12	IKBIP	ENSG00000166130	ENST00000420861	protein_coding	KNOWN	None	26430	735	244	99007183	99038732	-1	None	FLJ31051, IKIP
1	RN7SL559P	ENSG00000240750	ENST00000476501	misc_RNA	KNOWN	None	46575	None	None	28358397	28358691	-1	None	None
1	SPCS2P4	ENSG00000228589	ENST00000436160	processed_pseudogene	KNOWN	None	45237	None	None	28422253	28422933	-1	None	None
1	SPCS2P4	ENSG00000228589	ENST00000543748	processed_pseudogene	KNOWN	None	45237	None	None	28421582	28422833	-1	None	None
8	None	ENSG00000215346	ENST00000400102	protein_coding	NOVEL	None	None	243	80	10983980	10987745	-1	None	None
3	CAV3	ENSG00000182533	ENST00000343849	protein_coding	KNOWN	CCDS2569	1529	456	151	8775486	8788451	1	None	VIP-21, LGMD1C, VIP21, LQT9
3	CAV3	ENSG00000182533	ENST00000472766	processed_transcript	KNOWN	None	1529	None	None	8775522	8883492	1	None	VIP-21, LGMD1C, VIP21, LQT9
3	CAV3	ENSG00000182533	ENST00000397368	protein_coding	KNOWN	CCDS2569	1529	456	151	8775552	8788442	1	None	VIP-21, LGMD1C, VIP21, LQT9
7	OR2AE1	ENSG00000244623	ENST00000316368	protein_coding	KNOWN	CCDS34696	15087	972	323	99473610	99474680	-1	OR2AE2	None
22	PPP1R26P2	ENSG00000225894	ENST00000458527	processed_pseudogene	KNOWN	None	42016	None	None	20499890	20503484	-1	KIAA0649P2	None
3	RN7SL229P	ENSG00000242811	ENST00000495651	misc_RNA	KNOWN	None	46245	None	None	180454196	180454491	-1	None	None
1	None	ENSG00000228943	ENST00000443484	processed_pseudogene	KNOWN	None	None	None	None	28436250	28436809	1	None	None
13	ALG5	ENSG00000120697	ENST00000239891	protein_coding	KNOWN	CCDS9361	20266	975	324	37523967	37573504	-1	None	bA421P11.2
13	ALG5	ENSG00000120697	ENST00000486410	processed_transcript	KNOWN	None	20266	None	None	37523986	37527006	-1	None	bA421P11.2
13	ALG5	ENSG00000120697	ENST00000460230	processed_transcript	KNOWN	None	20266	None	None	37524131	37542193	-1	None	bA421P11.2
13	ALG5	ENSG00000120697	ENST00000496689	processed_transcript	KNOWN	None	20266	None	None	37559786	37574398	-1	None	bA421P11.2
13	ALG5	ENSG00000120697	ENST00000443765	protein_coding	KNOWN	CCDS45033	20266	885	294	37523912	37573504	-1	None	bA421P11.2
13	ALG5	ENSG00000120697	ENST00000413537	protein_coding	KNOWN	None	20266	693	230	37524162	37573473	-1	None	bA421P11.2
HSCHR6_MHC_APD	TRIM27	ENSG00000234495	ENST00000437160	protein_coding	KNOWN	None	9975	1542	513	28870783	28891771	-1	RFP	RNF76
HSCHR6_MHC_APD	TRIM27	ENSG00000234495	ENST00000412687	protein_coding	KNOWN	None	9975	1077	358	28870783	28891770	-1	RFP	RNF76
HSCHR6_MHC_APD	TRIM27	ENSG00000234495	ENST00000417993	protein_coding	KNOWN	None	9975	745	247	28870783	28876770	-1	RFP	RNF76
HSCHR6_MHC_APD	TRIM27	ENSG00000234495	ENST00000459807	processed_transcript	KNOWN	None	9975	None	None	28870783	28891695	-1	RFP	RNF76
HSCHR6_MHC_APD	TRIM27	ENSG00000234495	ENST00000494480	processed_transcript	KNOWN	None	9975	None	None	28872255	28875365	-1	RFP	RNF76
HSCHR6_MHC_APD	TRIM27	ENSG00000234495	ENST00000489285	processed_transcript	KNOWN	None	9975	None	None	28879088	28889758	-1	RFP	RNF76
HSCHR6_MHC_APD	TRIM27	ENSG00000234495	ENST00000498568	processed_transcript	KNOWN	None	9975	None	None	28882558	28887965	-1	RFP	RNF76
1	HNRNPR	ENSG00000125944	ENST00000464516	processed_transcript	KNOWN	None	5047	None	None	23630264	23633125	-1	HNRPR	hnRNP-R
1	HNRNPR	ENSG00000125944	ENST00000478691	protein_coding	PUTATIVE	None	5047	1608	535	23631181	23670829	-1	HNRPR	hnRNP-R
1	HNRNPR	ENSG00000125944	ENST00000374616	protein_coding	KNOWN	CCDS44085	5047	1911	636	23636276	23670803	-1	HNRPR	hnRNP-R
1	HNRNPR	ENSG00000125944	ENST00000476660	processed_transcript	KNOWN	None	5047	None	None	23636277	23638386	-1	HNRPR	hnRNP-R
1	HNRNPR	ENSG00000125944	ENST00000374612	protein_coding	KNOWN	CCDS232	5047	1902	633	23636279	23670815	-1	HNRPR	hnRNP-R
1	HNRNPR	ENSG00000125944	ENST00000302271	protein_coding	KNOWN	CCDS232	5047	1902	633	23636281	23670755	-1	HNRPR	hnRNP-R
1	HNRNPR	ENSG00000125944	ENST00000606561	protein_coding	PUTATIVE	None	5047	1485	494	23636826	23670788	-1	HNRPR	hnRNP-R
1	HNRNPR	ENSG00000125944	ENST00000463552	processed_transcript	KNOWN	None	5047	None	None	23640046	23665042	-1	HNRPR	hnRNP-R
1	HNRNPR	ENSG00000125944	ENST00000470941	processed_transcript	KNOWN	None	5047	None	None	23640092	23660124	-1	HNRPR	hnRNP-R
1	HNRNPR	ENSG00000125944	ENST00000476451	processed_transcript	KNOWN	None	5047	None	None	23644976	23664628	-1	HNRPR	hnRNP-R
1	HNRNPR	ENSG00000125944	ENST00000490652	processed_transcript	KNOWN	None	5047	None	None	23664763	23670810	-1	HNRPR	hnRNP-R
1	HNRNPR	ENSG00000125944	ENST00000427764	protein_coding	KNOWN	None	5047	1788	595	23636708	23670774	-1	HNRPR	hnRNP-R
1	HNRNPR	ENSG00000125944	ENST00000426846	protein_coding	KNOWN	None	5047	1422	473	23636886	23670773	-1	HNRPR	hnRNP-R
11	FAM89B	ENSG00000176973	ENST00000316409	protein_coding	KNOWN	CCDS8105	16708	531	176	65339820	65341669	1	None	None
11	FAM89B	ENSG00000176973	ENST00000449319	protein_coding	KNOWN	CCDS44648	16708	465	154	65339933	65341661	1	None	None
11	FAM89B	ENSG00000176973	ENST00000530349	protein_coding	KNOWN	CCDS53662	16708	570	189	65339999	65341663	1	None	None
20	SRSF6	ENSG00000124193	ENST00000483871	nonsense_mediated_decay	KNOWN	None	10788	408	135	42086568	42089974	1	SFRS6	SRP55, B52
20	SRSF6	ENSG00000124193	ENST00000244020	protein_coding	KNOWN	CCDS13318	10788	1035	344	42086568	42092245	1	SFRS6	SRP55, B52
1	None	ENSG00000214812	ENST00000399029	processed_pseudogene	KNOWN	None	None	None	None	28446960	28447832	-1	None	None
3	PSMD6	ENSG00000163636	ENST00000295901	protein_coding	KNOWN	CCDS2901	9564	1170	389	63996225	64009236	-1	None	S10, p44S10, KIAA0107, Rpn7
3	PSMD6	ENSG00000163636	ENST00000467853	retained_intron	KNOWN	None	9564	None	None	63996230	64003408	-1	None	S10, p44S10, KIAA0107, Rpn7
3	PSMD6	ENSG00000163636	ENST00000480205	protein_coding	PUTATIVE	None	9564	415	137	63996230	64005010	-1	None	S10, p44S10, KIAA0107, Rpn7
3	PSMD6	ENSG00000163636	ENST00000463139	retained_intron	KNOWN	None	9564	None	None	63996231	63998964	-1	None	S10, p44S10, KIAA0107, Rpn7
3	PSMD6	ENSG00000163636	ENST00000476464	retained_intron	KNOWN	None	9564	None	None	63996231	64009113	-1	None	S10, p44S10, KIAA0107, Rpn7
3	PSMD6	ENSG00000163636	ENST00000492933	protein_coding	NOVEL	None	9564	1329	442	63996231	64009148	-1	None	S10, p44S10, KIAA0107, Rpn7
3	PSMD6	ENSG00000163636	ENST00000482510	protein_coding	NOVEL	None	9564	1053	350	63996260	64009134	-1	None	S10, p44S10, KIAA0107, Rpn7
3	PSMD6	ENSG00000163636	ENST00000497315	retained_intron	KNOWN	None	9564	None	None	64003997	64005065	-1	None	S10, p44S10, KIAA0107, Rpn7
3	PSMD6	ENSG00000163636	ENST00000475036	retained_intron	KNOWN	None	9564	None	None	64004339	64009154	-1	None	S10, p44S10, KIAA0107, Rpn7
3	PSMD6	ENSG00000163636	ENST00000497323	protein_coding	NOVEL	None	9564	678	225	64004575	64009134	-1	None	S10, p44S10, KIAA0107, Rpn7
3	PSMD6	ENSG00000163636	ENST00000478185	protein_coding	NOVEL	None	9564	432	143	64005100	64009132	-1	None	S10, p44S10, KIAA0107, Rpn7
3	PSMD6	ENSG00000163636	ENST00000394431	protein_coding	KNOWN	None	9564	1056	351	63996231	64009658	-1	None	S10, p44S10, KIAA0107, Rpn7
1	RNU6-176P	ENSG00000253005	ENST00000517196	snRNA	KNOWN	None	47139	None	None	28469248	28469352	-1	None	None
17	NUP85	ENSG00000125450	ENST00000583569	protein_coding	PUTATIVE	None	8734	361	119	73201754	73211870	1	None	NUP75, FLJ12549
17	NUP85	ENSG00000125450	ENST00000583948	processed_transcript	KNOWN	None	8734	None	None	73201785	73222153	1	None	NUP75, FLJ12549
17	NUP85	ENSG00000125450	ENST00000245544	protein_coding	KNOWN	CCDS32730	8734	1971	656	73201786	73231853	1	None	NUP75, FLJ12549
17	NUP85	ENSG00000125450	ENST00000582833	processed_transcript	KNOWN	None	8734	None	None	73201802	73204715	1	None	NUP75, FLJ12549
17	NUP85	ENSG00000125450	ENST00000579324	protein_coding	PUTATIVE	None	8734	1635	544	73201802	73231852	1	None	NUP75, FLJ12549
17	NUP85	ENSG00000125450	ENST00000449421	processed_transcript	KNOWN	None	8734	None	None	73201804	73223073	1	None	NUP75, FLJ12549
17	NUP85	ENSG00000125450	ENST00000577208	processed_transcript	KNOWN	None	8734	None	None	73201815	73212439	1	None	NUP75, FLJ12549
17	NUP85	ENSG00000125450	ENST00000583548	processed_transcript	KNOWN	None	8734	None	None	73201815	73212460	1	None	NUP75, FLJ12549
17	NUP85	ENSG00000125450	ENST00000579298	protein_coding	NOVEL	None	8734	1836	611	73201815	73231786	1	None	NUP75, FLJ12549
17	NUP85	ENSG00000125450	ENST00000581104	nonsense_mediated_decay	KNOWN	None	8734	510	169	73201815	73231805	1	None	NUP75, FLJ12549
17	NUP85	ENSG00000125450	ENST00000578830	nonsense_mediated_decay	KNOWN	None	8734	301	99	73211896	73229049	1	None	NUP75, FLJ12549
17	NUP85	ENSG00000125450	ENST00000583877	protein_coding	NOVEL	None	8734	575	190	73214303	73222252	1	None	NUP75, FLJ12549
17	NUP85	ENSG00000125450	ENST00000577561	retained_intron	KNOWN	None	8734	None	None	73214388	73222044	1	None	NUP75, FLJ12549
17	NUP85	ENSG00000125450	ENST00000579557	protein_coding	NOVEL	None	8734	817	271	73221198	73229047	1	None	NUP75, FLJ12549
17	NUP85	ENSG00000125450	ENST00000577645	retained_intron	KNOWN	None	8734	None	None	73221463	73228072	1	None	NUP75, FLJ12549
17	NUP85	ENSG00000125450	ENST00000583070	protein_coding	NOVEL	None	8734	907	301	73221486	73231247	1	None	NUP75, FLJ12549
17	NUP85	ENSG00000125450	ENST00000580879	nonsense_mediated_decay	KNOWN	None	8734	60	19	73222203	73229042	1	None	NUP75, FLJ12549
17	NUP85	ENSG00000125450	ENST00000581335	processed_transcript	KNOWN	None	8734	None	None	73224043	73225221	1	None	NUP75, FLJ12549
17	NUP85	ENSG00000125450	ENST00000540768	protein_coding	PUTATIVE	None	8734	780	259	73224256	73231852	1	None	NUP75, FLJ12549
17	NUP85	ENSG00000125450	ENST00000582681	retained_intron	KNOWN	None	8734	None	None	73227233	73229036	1	None	NUP75, FLJ12549
17	NUP85	ENSG00000125450	ENST00000578294	retained_intron	KNOWN	None	8734	None	None	73229015	73230877	1	None	NUP75, FLJ12549
17	NUP85	ENSG00000125450	ENST00000579900	protein_coding	PUTATIVE	None	8734	345	114	73229220	73231853	1	None	NUP75, FLJ12549
17	NUP85	ENSG00000125450	ENST00000578987	nonsense_mediated_decay	KNOWN	None	8734	140	45	73230762	73231852	1	None	NUP75, FLJ12549
17	NUP85	ENSG00000125450	ENST00000579838	protein_coding	NOVEL	None	8734	295	97	73230799	73231852	1	None	NUP75, FLJ12549
17	NUP85	ENSG00000125450	ENST00000584155	nonsense_mediated_decay	KNOWN	None	8734	57	18	73230848	73231847	1	None	NUP75, FLJ12549
17	NUP85	ENSG00000125450	ENST00000541827	protein_coding	KNOWN	None	8734	1833	610	73201802	73231852	1	None	NUP75, FLJ12549
17	NUP85	ENSG00000125450	ENST00000447371	protein_coding	KNOWN	None	8734	1389	462	73201815	73231805	1	None	NUP75, FLJ12549
3	None	ENSG00000242068	ENST00000481241	processed_pseudogene	KNOWN	None	None	None	None	180490538	180491702	-1	None	None
9	NCLP1	ENSG00000213212	ENST00000445357	processed_pseudogene	KNOWN	None	35472	None	None	139707240	139709988	-1	None	None
1	RNU7-29P	ENSG00000252429	ENST00000516620	snRNA	KNOWN	None	34125	None	None	28470667	28470728	-1	None	U7.29
1	None	ENSG00000270605	ENST00000604716	antisense	KNOWN	None	None	None	None	28566020	28567964	-1	None	None
2	IL1RL1	ENSG00000115602	ENST00000233954	protein_coding	KNOWN	CCDS2057	5998	1671	556	102927962	102968497	1	None	ST2, FIT-1, ST2L, ST2V, DER4, T1, IL33R
2	IL1RL1	ENSG00000115602	ENST00000473175	processed_transcript	KNOWN	None	5998	None	None	102927989	102956656	1	None	ST2, FIT-1, ST2L, ST2V, DER4, T1, IL33R
2	IL1RL1	ENSG00000115602	ENST00000447231	protein_coding	KNOWN	None	5998	116	37	102928028	102955351	1	None	ST2, FIT-1, ST2L, ST2V, DER4, T1, IL33R
2	IL1RL1	ENSG00000115602	ENST00000311734	protein_coding	KNOWN	CCDS2058	5998	987	328	102953608	102962560	1	None	ST2, FIT-1, ST2L, ST2V, DER4, T1, IL33R
2	IL1RL1	ENSG00000115602	ENST00000463990	retained_intron	KNOWN	None	5998	None	None	102953710	102955926	1	None	ST2, FIT-1, ST2L, ST2V, DER4, T1, IL33R
2	IL1RL1	ENSG00000115602	ENST00000409584	protein_coding	PUTATIVE	None	5998	945	314	102953718	102961411	1	None	ST2, FIT-1, ST2L, ST2V, DER4, T1, IL33R
2	IL1RL1	ENSG00000115602	ENST00000482701	processed_transcript	KNOWN	None	5998	None	None	102953741	102959569	1	None	ST2, FIT-1, ST2L, ST2V, DER4, T1, IL33R
2	IL1RL1	ENSG00000115602	ENST00000427077	nonsense_mediated_decay	KNOWN	None	5998	780	259	102953748	102960216	1	None	ST2, FIT-1, ST2L, ST2V, DER4, T1, IL33R
2	IL1RL1	ENSG00000115602	ENST00000393393	protein_coding	KNOWN	None	5998	780	259	102927962	102957817	1	None	ST2, FIT-1, ST2L, ST2V, DER4, T1, IL33R
2	IL1RL1	ENSG00000115602	ENST00000404917	protein_coding	KNOWN	None	5998	636	211	102928023	102959947	1	None	ST2, FIT-1, ST2L, ST2V, DER4, T1, IL33R
1	None	ENSG00000271398	ENST00000605846	lincRNA	KNOWN	None	None	None	None	28573655	28574079	1	None	None
14	TRDJ1	ENSG00000211825	ENST00000390473	TR_J_gene	KNOWN	None	12257	51	16	22919081	22919131	1	None	None
1	None	ENSG00000206779	ENST00000384052	misc_RNA	NOVEL	None	None	None	None	28749066	28749166	-1	None	None
1	None	ENSG00000229820	ENST00000438601	processed_pseudogene	KNOWN	None	None	None	None	28780052	28780445	1	None	None
19	None	ENSG00000267264	ENST00000586818	processed_pseudogene	KNOWN	None	None	None	None	28294446	28294968	1	None	None
1	RNU6ATAC27P	ENSG00000221216	ENST00000408289	snRNA	KNOWN	None	46926	None	None	28807874	28807992	1	None	None
19	SLC25A1P5	ENSG00000267323	ENST00000587610	processed_pseudogene	KNOWN	None	43849	None	None	28296331	28297113	-1	None	None
1	SNHG3	ENSG00000242125	ENST00000413987	retained_intron	KNOWN	None	10118	None	None	28832492	28837404	1	RNU17D, RNU17C	U17HG, U17HG-A, NCRNA00014
1	SNHG3	ENSG00000242125	ENST00000447507	retained_intron	KNOWN	None	10118	None	None	28832555	28834782	1	RNU17D, RNU17C	U17HG, U17HG-A, NCRNA00014
1	SNHG3	ENSG00000242125	ENST00000437681	retained_intron	KNOWN	None	10118	None	None	28832863	28836145	1	RNU17D, RNU17C	U17HG, U17HG-A, NCRNA00014
1	SNHG3	ENSG00000242125	ENST00000364938	snoRNA	KNOWN	None	10118	None	None	28833878	28834083	1	RNU17D, RNU17C	U17HG, U17HG-A, NCRNA00014
7	C7orf41	ENSG00000180354	ENST00000324453	protein_coding	KNOWN	CCDS5425	25457	396	131	30174426	30202378	1	None	FLJ25903, Ells1
7	C7orf41	ENSG00000180354	ENST00000409688	protein_coding	NOVEL	None	25457	273	90	30174604	30197585	1	None	FLJ25903, Ells1
7	C7orf41	ENSG00000180354	ENST00000434060	protein_coding	PUTATIVE	None	25457	230	75	30176875	30185911	1	None	FLJ25903, Ells1
7	C7orf41	ENSG00000180354	ENST00000324489	protein_coding	KNOWN	None	25457	297	98	30185417	30202376	1	None	FLJ25903, Ells1
7	C7orf41	ENSG00000180354	ENST00000415604	protein_coding	KNOWN	CCDS5425	25457	396	131	30174753	30199534	1	None	FLJ25903, Ells1
7	C7orf41	ENSG00000180354	ENST00000455738	protein_coding	KNOWN	None	25457	297	98	30185513	30199534	1	None	FLJ25903, Ells1
19	CALM3	ENSG00000160014	ENST00000391918	protein_coding	PUTATIVE	None	1449	342	113	47104331	47112562	1	None	PHKD
19	CALM3	ENSG00000160014	ENST00000291295	protein_coding	KNOWN	CCDS33061	1449	450	149	47104493	47114050	1	None	PHKD
19	CALM3	ENSG00000160014	ENST00000597743	protein_coding	NOVEL	None	1449	252	83	47104533	47112576	1	None	PHKD
19	CALM3	ENSG00000160014	ENST00000477244	processed_transcript	KNOWN	None	1449	None	None	47104566	47112532	1	None	PHKD
19	CALM3	ENSG00000160014	ENST00000598871	protein_coding	PUTATIVE	None	1449	342	113	47104587	47112447	1	None	PHKD
19	CALM3	ENSG00000160014	ENST00000602169	retained_intron	KNOWN	None	1449	None	None	47104621	47109599	1	None	PHKD
19	CALM3	ENSG00000160014	ENST00000594523	protein_coding	PUTATIVE	None	1449	342	113	47104623	47112439	1	None	PHKD
19	CALM3	ENSG00000160014	ENST00000597868	retained_intron	KNOWN	None	1449	None	None	47104624	47112562	1	None	PHKD
19	CALM3	ENSG00000160014	ENST00000599839	protein_coding	PUTATIVE	None	1449	342	113	47105326	47113253	1	None	PHKD
19	CALM3	ENSG00000160014	ENST00000596362	protein_coding	PUTATIVE	None	1449	450	149	47105329	47113027	1	None	PHKD
19	CALM3	ENSG00000160014	ENST00000482455	processed_transcript	KNOWN	None	1449	None	None	47108450	47112500	1	None	PHKD
19	CALM3	ENSG00000160014	ENST00000486500	retained_intron	KNOWN	None	1449	None	None	47111219	47114038	1	None	PHKD
19	CALM3	ENSG00000160014	ENST00000595072	retained_intron	KNOWN	None	1449	None	None	47111230	47112491	1	None	PHKD
11	OR8B9P	ENSG00000229386	ENST00000419756	unprocessed_pseudogene	KNOWN	None	14746	None	None	124350895	124351819	-1	None	None
16	None	ENSG00000261648	ENST00000566641	lincRNA	KNOWN	None	None	None	None	31558019	31558558	-1	None	None
8	IMPDH1P6	ENSG00000254294	ENST00000520656	processed_pseudogene	KNOWN	None	33961	None	None	124412822	124414335	1	None	None
19	None	ENSG00000267389	ENST00000592118	processed_pseudogene	KNOWN	None	None	None	None	28303715	28387623	-1	None	None
5	None	ENSG00000248859	ENST00000512115	lincRNA	KNOWN	None	None	None	None	176170206	176170872	1	None	None
21	None	ENSG00000256715	ENST00000540061	protein_coding	NOVEL	None	None	144	47	14741931	14745386	-1	None	None
8	None	ENSG00000254113	ENST00000518970	lincRNA	KNOWN	None	None	None	None	124575310	124581002	-1	None	None
7	TRIM4	ENSG00000146833	ENST00000447480	protein_coding	PUTATIVE	None	16275	607	201	99474581	99516728	-1	None	RNF87
7	TRIM4	ENSG00000146833	ENST00000355947	protein_coding	KNOWN	CCDS5679	16275	1503	500	99488036	99517154	-1	None	RNF87
7	TRIM4	ENSG00000146833	ENST00000349062	protein_coding	KNOWN	CCDS5678	16275	1425	474	99488036	99517223	-1	None	RNF87
7	TRIM4	ENSG00000146833	ENST00000354241	protein_coding	KNOWN	None	16275	885	294	99498789	99517116	-1	None	RNF87
7	TRIM4	ENSG00000146833	ENST00000496896	retained_intron	KNOWN	None	16275	None	None	99505869	99507221	-1	None	RNF87
8	RN7SKP155	ENSG00000251840	ENST00000516031	misc_RNA	KNOWN	None	45879	None	None	124600999	124601286	1	None	None
19	None	ENSG00000266977	ENST00000589471	lincRNA	KNOWN	None	None	None	None	28340638	28380130	-1	None	None
4	ATP10D	ENSG00000145246	ENST00000273859	protein_coding	KNOWN	CCDS3476	13549	4281	1426	47487305	47595503	1	None	ATPVD, KIAA1487
4	ATP10D	ENSG00000145246	ENST00000507889	retained_intron	KNOWN	None	13549	None	None	47487314	47514863	1	None	ATPVD, KIAA1487
4	ATP10D	ENSG00000145246	ENST00000504445	protein_coding	NOVEL	None	13549	1608	535	47487316	47549581	1	None	ATPVD, KIAA1487
4	ATP10D	ENSG00000145246	ENST00000503288	nonsense_mediated_decay	KNOWN	None	13549	673	223	47538497	47594908	1	None	ATPVD, KIAA1487
4	ATP10D	ENSG00000145246	ENST00000505476	processed_transcript	KNOWN	None	13549	None	None	47580329	47593120	1	None	ATPVD, KIAA1487
4	ATP10D	ENSG00000145246	ENST00000512393	processed_transcript	KNOWN	None	13549	None	None	47582416	47585332	1	None	ATPVD, KIAA1487
4	ATP10D	ENSG00000145246	ENST00000505277	processed_transcript	KNOWN	None	13549	None	None	47584048	47593312	1	None	ATPVD, KIAA1487
16	None	ENSG00000261293	ENST00000566957	antisense	KNOWN	None	None	None	None	12187484	12189164	-1	None	None
1	SNORA73B	ENSG00000200087	ENST00000363217	snoRNA	KNOWN	None	10116	None	None	28835071	28835274	1	RNU17B	U17B
16	VN1R64P	ENSG00000213547	ENST00000424940	unitary_pseudogene	KNOWN	None	37384	None	None	31558126	31559058	1	None	None
8	None	ENSG00000253286	ENST00000518633	antisense	KNOWN	None	None	None	None	124626465	124651884	1	None	None
8	None	ENSG00000253286	ENST00000524355	antisense	KNOWN	None	None	None	None	124626465	124670810	1	None	None
19	None	ENSG00000267768	ENST00000590142	processed_pseudogene	KNOWN	None	None	None	None	28399264	28399462	-1	None	None
8	MTMR9	ENSG00000104643	ENST00000221086	protein_coding	KNOWN	CCDS5979	14596	1650	549	11141925	11185646	1	C8orf9, MTMR8	DKFZp434K171, LIP-STYX
8	MTMR9	ENSG00000104643	ENST00000530200	nonsense_mediated_decay	KNOWN	None	14596	306	101	11142336	11182036	1	C8orf9, MTMR8	DKFZp434K171, LIP-STYX
8	MTMR9	ENSG00000104643	ENST00000526292	protein_coding	PUTATIVE	None	14596	1395	464	11142603	11180566	1	C8orf9, MTMR8	DKFZp434K171, LIP-STYX
8	MTMR9	ENSG00000104643	ENST00000528389	retained_intron	KNOWN	None	14596	None	None	11152284	11158286	1	C8orf9, MTMR8	DKFZp434K171, LIP-STYX
5	ZNF346-IT1	ENSG00000251666	ENST00000515264	sense_intronic	KNOWN	None	41423	None	None	176478715	176479964	1	None	None
1	None	ENSG00000238821	ENST00000459072	snoRNA	NOVEL	None	None	None	None	28843988	28844087	1	None	None
21	POTED	ENSG00000166351	ENST00000299443	protein_coding	KNOWN	CCDS13562	23822	1755	584	14982498	15013906	1	ANKRD21, A26B3	POTE, POTE-21, POTE21, CT104.1
19	None	ENSG00000267630	ENST00000586408	unprocessed_pseudogene	KNOWN	None	None	None	None	28409851	28420278	1	None	None
5	None	ENSG00000241888	ENST00000470913	processed_pseudogene	KNOWN	None	None	None	None	125302470	125303778	-1	None	None
16	HPR	ENSG00000261701	ENST00000540303	protein_coding	KNOWN	CCDS42193	5156	1047	348	72097123	72111145	1	None	None
16	HPR	ENSG00000261701	ENST00000566168	retained_intron	KNOWN	None	5156	None	None	72097125	72108650	1	None	None
16	HPR	ENSG00000261701	ENST00000561690	protein_coding	PUTATIVE	None	5156	354	117	72097128	72111145	1	None	None
16	HPR	ENSG00000261701	ENST00000356967	protein_coding	KNOWN	None	5156	1047	348	72088522	72110980	1	None	None
16	HPR	ENSG00000261701	ENST00000228226	protein_coding	KNOWN	None	5156	1158	385	72107675	72110980	1	None	None
12	CIT	ENSG00000122966	ENST00000392521	protein_coding	NOVEL	CCDS55891	1985	6210	2069	120123595	120315095	-1	None	KIAA0949, STK21, CRIK
12	CIT	ENSG00000122966	ENST00000261833	protein_coding	KNOWN	CCDS9192	1985	6084	2027	120123596	120315092	-1	None	KIAA0949, STK21, CRIK
12	CIT	ENSG00000122966	ENST00000545913	retained_intron	KNOWN	None	1985	None	None	120123598	120242282	-1	None	KIAA0949, STK21, CRIK
12	CIT	ENSG00000122966	ENST00000392520	protein_coding	NOVEL	None	1985	4922	1639	120125754	120241187	-1	None	KIAA0949, STK21, CRIK
12	CIT	ENSG00000122966	ENST00000537607	processed_transcript	KNOWN	None	1985	None	None	120126016	120222165	-1	None	KIAA0949, STK21, CRIK
12	CIT	ENSG00000122966	ENST00000544872	retained_intron	KNOWN	None	1985	None	None	120128187	120135914	-1	None	KIAA0949, STK21, CRIK
12	CIT	ENSG00000122966	ENST00000469414	processed_transcript	PUTATIVE	None	1985	None	None	120128206	120135990	-1	None	KIAA0949, STK21, CRIK
12	CIT	ENSG00000122966	ENST00000538073	retained_intron	KNOWN	None	1985	None	None	120139657	120148537	-1	None	KIAA0949, STK21, CRIK
12	CIT	ENSG00000122966	ENST00000543324	processed_transcript	KNOWN	None	1985	None	None	120142167	120148899	-1	None	KIAA0949, STK21, CRIK
12	CIT	ENSG00000122966	ENST00000544800	retained_intron	KNOWN	None	1985	None	None	120148100	120148816	-1	None	KIAA0949, STK21, CRIK
12	CIT	ENSG00000122966	ENST00000543239	retained_intron	KNOWN	None	1985	None	None	120150115	120151623	-1	None	KIAA0949, STK21, CRIK
12	CIT	ENSG00000122966	ENST00000536008	retained_intron	KNOWN	None	1985	None	None	120150824	120151563	-1	None	KIAA0949, STK21, CRIK
12	CIT	ENSG00000122966	ENST00000544588	retained_intron	KNOWN	None	1985	None	None	120152014	120156806	-1	None	KIAA0949, STK21, CRIK
12	CIT	ENSG00000122966	ENST00000536325	protein_coding	PUTATIVE	None	1985	329	108	120158329	120295491	-1	None	KIAA0949, STK21, CRIK
12	CIT	ENSG00000122966	ENST00000546026	protein_coding	PUTATIVE	None	1985	486	161	120168300	120189900	-1	None	KIAA0949, STK21, CRIK
12	CIT	ENSG00000122966	ENST00000541841	retained_intron	KNOWN	None	1985	None	None	120173005	120180647	-1	None	KIAA0949, STK21, CRIK
12	CIT	ENSG00000122966	ENST00000488203	retained_intron	KNOWN	None	1985	None	None	120219960	120241290	-1	None	KIAA0949, STK21, CRIK
12	CIT	ENSG00000122966	ENST00000539413	processed_transcript	PUTATIVE	None	1985	None	None	120222829	120242295	-1	None	KIAA0949, STK21, CRIK
10	WDR96	ENSG00000197748	ENST00000457071	protein_coding	NOVEL	None	26684	1544	513	105889647	105920880	-1	C10orf79	FLJ36006, bA373N18.2, FLJ22944
10	WDR96	ENSG00000197748	ENST00000434629	protein_coding	NOVEL	None	26684	2993	996	105889692	105945823	-1	C10orf79	FLJ36006, bA373N18.2, FLJ22944
10	WDR96	ENSG00000197748	ENST00000479392	processed_transcript	KNOWN	None	26684	None	None	105893212	105902073	-1	C10orf79	FLJ36006, bA373N18.2, FLJ22944
10	WDR96	ENSG00000197748	ENST00000278064	protein_coding	KNOWN	None	26684	2613	870	105927343	105992120	-1	C10orf79	FLJ36006, bA373N18.2, FLJ22944
10	WDR96	ENSG00000197748	ENST00000369720	protein_coding	KNOWN	None	26684	1239	412	105952252	105992063	-1	C10orf79	FLJ36006, bA373N18.2, FLJ22944
10	WDR96	ENSG00000197748	ENST00000369719	protein_coding	KNOWN	None	26684	912	303	105963188	105992098	-1	C10orf79	FLJ36006, bA373N18.2, FLJ22944
10	WDR96	ENSG00000197748	ENST00000357060	protein_coding	KNOWN	CCDS31281	26684	4998	1665	105889646	105992120	-1	C10orf79	FLJ36006, bA373N18.2, FLJ22944
10	WDR96	ENSG00000197748	ENST00000428666	protein_coding	KNOWN	None	26684	4914	1637	105889646	105992120	-1	C10orf79	FLJ36006, bA373N18.2, FLJ22944
1	PRDX3P2	ENSG00000231468	ENST00000447051	processed_pseudogene	KNOWN	None	39265	None	None	28852830	28853739	-1	None	None
16	None	ENSG00000261475	ENST00000567765	lincRNA	KNOWN	None	None	None	None	31560464	31564888	-1	None	None
14	TRDJ4	ENSG00000211826	ENST00000390474	TR_J_gene	KNOWN	None	12260	48	15	22924241	22924288	1	None	None
19	GMIP	ENSG00000089639	ENST00000203556	protein_coding	KNOWN	CCDS12408	24852	2913	970	19740285	19754476	-1	None	ARHGAP46
19	GMIP	ENSG00000089639	ENST00000587238	protein_coding	NOVEL	None	24852	2835	944	19740652	19754370	-1	None	ARHGAP46
19	GMIP	ENSG00000089639	ENST00000586269	processed_transcript	KNOWN	None	24852	None	None	19744920	19746349	-1	None	ARHGAP46
19	GMIP	ENSG00000089639	ENST00000587713	retained_intron	KNOWN	None	24852	None	None	19745901	19748294	-1	None	ARHGAP46
19	GMIP	ENSG00000089639	ENST00000593186	protein_coding	NOVEL	None	24852	910	302	19745904	19748996	-1	None	ARHGAP46
19	GMIP	ENSG00000089639	ENST00000588171	nonsense_mediated_decay	KNOWN	None	24852	111	36	19748977	19754429	-1	None	ARHGAP46
19	GMIP	ENSG00000089639	ENST00000591047	nonsense_mediated_decay	KNOWN	None	24852	111	36	19749015	19754410	-1	None	ARHGAP46
19	GMIP	ENSG00000089639	ENST00000587205	protein_coding	PUTATIVE	None	24852	283	93	19751137	19754407	-1	None	ARHGAP46
19	GMIP	ENSG00000089639	ENST00000445806	protein_coding	KNOWN	None	24852	2826	941	19740640	19754414	-1	None	ARHGAP46
13	PCCA	ENSG00000175198	ENST00000376285	protein_coding	KNOWN	CCDS9496	8653	2187	728	100741337	101182686	1	None	None
13	PCCA	ENSG00000175198	ENST00000485946	processed_transcript	KNOWN	None	8653	None	None	100801455	100813879	1	None	None
13	PCCA	ENSG00000175198	ENST00000424527	protein_coding	PUTATIVE	None	8653	447	148	100945478	101077985	1	None	None
13	PCCA	ENSG00000175198	ENST00000443601	protein_coding	PUTATIVE	None	8653	418	138	100958030	100992513	1	None	None
13	PCCA	ENSG00000175198	ENST00000458283	protein_coding	KNOWN	None	8653	403	133	101020726	101182686	1	None	None
13	PCCA	ENSG00000175198	ENST00000413170	protein_coding	PUTATIVE	None	8653	253	83	101020753	101144071	1	None	None
13	PCCA	ENSG00000175198	ENST00000428969	protein_coding	KNOWN	None	8653	336	111	101167681	101182686	1	None	None
13	PCCA	ENSG00000175198	ENST00000376286	protein_coding	KNOWN	CCDS45065	8653	2109	702	100741269	101182686	1	None	None
13	PCCA	ENSG00000175198	ENST00000376279	protein_coding	KNOWN	CCDS53878	8653	2046	681	100741269	101182686	1	None	None
16	None	ENSG00000238685	ENST00000459171	snoRNA	NOVEL	None	None	None	None	12391054	12391180	-1	None	None
16	VN1R65P	ENSG00000260883	ENST00000566443	unitary_pseudogene	KNOWN	None	37385	None	None	31565426	31566233	1	None	None
4	CD38	ENSG00000004468	ENST00000502843	nonsense_mediated_decay	KNOWN	None	1667	369	122	15779898	15850878	1	None	None
4	CD38	ENSG00000004468	ENST00000226279	protein_coding	KNOWN	CCDS3417	1667	903	300	15779901	15851069	1	None	None
4	CD38	ENSG00000004468	ENST00000506191	retained_intron	KNOWN	None	1667	None	None	15779921	15818377	1	None	None
4	CD38	ENSG00000004468	ENST00000511430	retained_intron	KNOWN	None	1667	None	None	15779935	15827709	1	None	None
4	CD38	ENSG00000004468	ENST00000510674	protein_coding	PUTATIVE	None	1667	455	150	15818219	15842113	1	None	None
16	None	ENSG00000261113	ENST00000568125	antisense	KNOWN	None	None	None	None	22298029	22300059	-1	None	None
16	None	ENSG00000261113	ENST00000562376	antisense	KNOWN	None	None	None	None	22298234	22300057	-1	None	None
16	None	ENSG00000261113	ENST00000563344	antisense	KNOWN	None	None	None	None	22298263	22300053	-1	None	None
16	None	ENSG00000261394	ENST00000569490	antisense	KNOWN	None	None	None	None	12460839	12466439	-1	None	None
3	None	ENSG00000241473	ENST00000420887	processed_pseudogene	KNOWN	None	None	None	None	180538332	180539400	1	None	None
5	None	ENSG00000240729	ENST00000460608	processed_pseudogene	KNOWN	None	None	None	None	176691767	176692242	1	None	None
5	None	ENSG00000270706	ENST00000604252	processed_pseudogene	KNOWN	None	None	None	None	176692581	176693589	-1	None	None
5	COX7C	ENSG00000127184	ENST00000247655	protein_coding	KNOWN	CCDS4063	2292	192	63	85913721	85916779	1	None	None
5	COX7C	ENSG00000127184	ENST00000511472	processed_transcript	KNOWN	None	2292	None	None	85913745	85916583	1	None	None
5	COX7C	ENSG00000127184	ENST00000505430	processed_transcript	KNOWN	None	2292	None	None	85913758	85916583	1	None	None
5	COX7C	ENSG00000127184	ENST00000509578	protein_coding	KNOWN	CCDS4063	2292	192	63	85913773	85916578	1	None	None
5	COX7C	ENSG00000127184	ENST00000515763	protein_coding	PUTATIVE	None	2292	171	56	85913790	85916583	1	None	None
5	COX7C	ENSG00000127184	ENST00000513124	processed_transcript	KNOWN	None	2292	None	None	85913803	85916583	1	None	None
5	COX7C	ENSG00000127184	ENST00000510447	processed_transcript	KNOWN	None	2292	None	None	85913992	85916765	1	None	None
5	RN7SL562P	ENSG00000266089	ENST00000582768	misc_RNA	KNOWN	None	46578	None	None	176767675	176767919	-1	None	None
5	None	ENSG00000253864	ENST00000518014	lincRNA	KNOWN	None	None	None	None	148786526	148793660	1	None	None
16	None	ENSG00000261741	ENST00000568403	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	31574403	31576104	-1	None	None
16	None	ENSG00000261741	ENST00000565692	processed_transcript	KNOWN	None	None	None	None	31574506	31579037	-1	None	None
5	MIR143	ENSG00000208035	ENST00000385300	miRNA	KNOWN	None	31530	None	None	148808481	148808586	1	MIRN143	hsa-mir-143
5	None	ENSG00000248752	ENST00000450613	lincRNA	KNOWN	None	None	None	None	125412493	125615493	-1	None	None
8	PLEKHA2	ENSG00000169499	ENST00000521746	protein_coding	PUTATIVE	None	14336	750	249	38758753	38829298	1	None	TAPP2
8	PLEKHA2	ENSG00000169499	ENST00000518571	processed_transcript	KNOWN	None	14336	None	None	38758797	38827746	1	None	TAPP2
8	PLEKHA2	ENSG00000169499	ENST00000388745	processed_transcript	KNOWN	None	14336	None	None	38758809	38831428	1	None	TAPP2
8	PLEKHA2	ENSG00000169499	ENST00000519640	protein_coding	KNOWN	None	14336	345	114	38758862	38803739	1	None	TAPP2
8	PLEKHA2	ENSG00000169499	ENST00000521784	processed_transcript	KNOWN	None	14336	None	None	38759321	38829475	1	None	TAPP2
8	PLEKHA2	ENSG00000169499	ENST00000518070	retained_intron	KNOWN	None	14336	None	None	38808071	38809834	1	None	TAPP2
8	PLEKHA2	ENSG00000169499	ENST00000521382	processed_transcript	KNOWN	None	14336	None	None	38809784	38818431	1	None	TAPP2
8	PLEKHA2	ENSG00000169499	ENST00000518939	processed_transcript	KNOWN	None	14336	None	None	38826485	38828866	1	None	TAPP2
8	PLEKHA2	ENSG00000169499	ENST00000521123	processed_transcript	PUTATIVE	None	14336	None	None	38829135	38830081	1	None	TAPP2
8	PLEKHA2	ENSG00000169499	ENST00000420274	protein_coding	KNOWN	None	14336	1278	425	38758753	38831428	1	None	TAPP2
4	NDNF	ENSG00000173376	ENST00000379692	protein_coding	KNOWN	CCDS3717	26256	1707	568	121956768	121993673	-1	C4orf31	FLJ23191
4	NDNF	ENSG00000173376	ENST00000506900	processed_transcript	KNOWN	None	26256	None	None	121958239	121960139	-1	C4orf31	FLJ23191
4	NDNF	ENSG00000173376	ENST00000515757	protein_coding	KNOWN	None	26256	435	144	121958691	121994176	-1	C4orf31	FLJ23191
4	NDNF	ENSG00000173376	ENST00000511408	protein_coding	KNOWN	None	26256	350	115	121958776	121993156	-1	C4orf31	FLJ23191
16	None	ENSG00000260635	ENST00000566764	antisense	KNOWN	None	None	None	None	22376442	22380368	1	None	None
5	None	ENSG00000248107	ENST00000507428	lincRNA	KNOWN	None	None	None	None	125515270	125529543	1	None	None
20	TRIB3	ENSG00000101255	ENST00000217233	protein_coding	KNOWN	CCDS12997	16228	1077	358	361261	378203	1	C20orf97	dJ1103G7.3, TRB3
20	TRIB3	ENSG00000101255	ENST00000449710	protein_coding	KNOWN	None	16228	815	270	361890	377072	1	C20orf97	dJ1103G7.3, TRB3
20	TRIB3	ENSG00000101255	ENST00000485293	processed_transcript	KNOWN	None	16228	None	None	361941	368814	1	C20orf97	dJ1103G7.3, TRB3
20	TRIB3	ENSG00000101255	ENST00000422053	protein_coding	KNOWN	None	16228	1158	385	361941	377392	1	C20orf97	dJ1103G7.3, TRB3
13	None	ENSG00000271465	ENST00000603451	processed_pseudogene	KNOWN	None	None	None	None	62980191	62981049	-1	None	None
6	None	ENSG00000235899	ENST00000448327	antisense	KNOWN	None	None	None	None	53493178	53496192	1	None	None
1	SNHG12	ENSG00000197989	ENST00000464612	retained_intron	KNOWN	None	30062	None	None	28905050	28907522	-1	C1orf79	PNAS-123, LINC00100
1	SNHG12	ENSG00000197989	ENST00000475441	antisense	KNOWN	None	30062	None	None	28905050	28907741	-1	C1orf79	PNAS-123, LINC00100
1	SNHG12	ENSG00000197989	ENST00000531126	antisense	KNOWN	None	30062	None	None	28905050	28908346	-1	C1orf79	PNAS-123, LINC00100
1	SNHG12	ENSG00000197989	ENST00000461448	retained_intron	KNOWN	None	30062	None	None	28905050	28908354	-1	C1orf79	PNAS-123, LINC00100
1	SNHG12	ENSG00000197989	ENST00000470977	retained_intron	KNOWN	None	30062	None	None	28905050	28908384	-1	C1orf79	PNAS-123, LINC00100
1	SNHG12	ENSG00000197989	ENST00000474814	retained_intron	KNOWN	None	30062	None	None	28905051	28908383	-1	C1orf79	PNAS-123, LINC00100
1	SNHG12	ENSG00000197989	ENST00000481368	retained_intron	KNOWN	None	30062	None	None	28905052	28908175	-1	C1orf79	PNAS-123, LINC00100
1	SNHG12	ENSG00000197989	ENST00000481220	retained_intron	KNOWN	None	30062	None	None	28905053	28908365	-1	C1orf79	PNAS-123, LINC00100
1	SNHG12	ENSG00000197989	ENST00000488745	antisense	KNOWN	None	30062	None	None	28905053	28909495	-1	C1orf79	PNAS-123, LINC00100
1	SNHG12	ENSG00000197989	ENST00000483436	antisense	KNOWN	None	30062	None	None	28905058	28908330	-1	C1orf79	PNAS-123, LINC00100
1	SNHG12	ENSG00000197989	ENST00000464115	retained_intron	KNOWN	None	30062	None	None	28906847	28908365	-1	C1orf79	PNAS-123, LINC00100
1	SNHG12	ENSG00000197989	ENST00000461832	retained_intron	KNOWN	None	30062	None	None	28906871	28908369	-1	C1orf79	PNAS-123, LINC00100
1	SNHG12	ENSG00000197989	ENST00000384581	snoRNA	KNOWN	None	30062	None	None	28906276	28906405	-1	C1orf79	PNAS-123, LINC00100
1	SNHG12	ENSG00000197989	ENST00000384584	snoRNA	KNOWN	None	30062	None	None	28906893	28907024	-1	C1orf79	PNAS-123, LINC00100
1	SNHG12	ENSG00000197989	ENST00000384342	snoRNA	KNOWN	None	30062	None	None	28907432	28907566	-1	C1orf79	PNAS-123, LINC00100
16	None	ENSG00000260723	ENST00000564577	sense_intronic	KNOWN	None	None	None	None	12466669	12467756	1	None	None
16	None	ENSG00000260723	ENST00000561528	sense_intronic	KNOWN	None	None	None	None	12466680	12467754	1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000257502	ENST00000547551	protein_coding	NOVEL	None	None	81	26	32795638	32801343	-1	None	None
5	None	ENSG00000239393	ENST00000468335	processed_pseudogene	KNOWN	None	None	None	None	176773074	176773427	1	None	None
2	DUSP28	ENSG00000188542	ENST00000405954	protein_coding	KNOWN	CCDS33418	33237	531	176	241499719	241503431	1	None	VHP, DUSP26
2	DUSP28	ENSG00000188542	ENST00000438823	nonsense_mediated_decay	KNOWN	None	33237	424	140	241500209	241503431	1	None	VHP, DUSP26
2	DUSP28	ENSG00000188542	ENST00000479788	processed_transcript	PUTATIVE	None	33237	None	None	241501904	241503430	1	None	VHP, DUSP26
2	DUSP28	ENSG00000188542	ENST00000497221	processed_transcript	PUTATIVE	None	33237	None	None	241502400	241503430	1	None	VHP, DUSP26
2	DUSP28	ENSG00000188542	ENST00000343217	protein_coding	KNOWN	CCDS33418	33237	531	176	241499471	241503431	1	None	VHP, DUSP26
13	LINC00448	ENSG00000228669	ENST00000448411	lincRNA	KNOWN	None	42785	None	None	63246418	63306313	-1	None	None
13	LINC00448	ENSG00000228669	ENST00000438352	lincRNA	KNOWN	None	42785	None	None	63305993	63306492	-1	None	None
6	None	ENSG00000227885	ENST00000453790	lincRNA	KNOWN	None	None	None	None	53605547	53611820	-1	None	None
14	TRDJ2	ENSG00000211827	ENST00000390475	TR_J_gene	KNOWN	None	12258	54	17	22925681	22925734	1	None	None
5	PRR7-AS1	ENSG00000246334	ENST00000425316	antisense	KNOWN	None	27961	None	None	176865504	176874700	-1	None	None
5	PRR7-AS1	ENSG00000246334	ENST00000514846	antisense	KNOWN	None	27961	None	None	176869804	176871581	-1	None	None
5	PRR7-AS1	ENSG00000246334	ENST00000511565	antisense	KNOWN	None	27961	None	None	176870068	176871478	-1	None	None
5	PRR7-AS1	ENSG00000246334	ENST00000506465	antisense	KNOWN	None	27961	None	None	176872980	176874699	-1	None	None
6	None	ENSG00000228614	ENST00000429053	antisense	KNOWN	None	None	None	None	53655673	53659072	-1	None	None
11	OR8B10P	ENSG00000254646	ENST00000529692	processed_pseudogene	KNOWN	None	14751	None	None	124386207	124387138	-1	None	None
19	CRTC1	ENSG00000105662	ENST00000321949	protein_coding	KNOWN	CCDS32963	16062	1905	634	18794487	18888762	1	MECT1	KIAA0616, FLJ14027, TORC1
19	CRTC1	ENSG00000105662	ENST00000338797	protein_coding	KNOWN	CCDS42525	16062	1953	650	18794488	18893004	1	MECT1	KIAA0616, FLJ14027, TORC1
19	CRTC1	ENSG00000105662	ENST00000594658	protein_coding	KNOWN	None	16062	1782	593	18846419	18888762	1	MECT1	KIAA0616, FLJ14027, TORC1
19	CRTC1	ENSG00000105662	ENST00000601916	protein_coding	PUTATIVE	None	16062	1179	392	18853720	18888748	1	MECT1	KIAA0616, FLJ14027, TORC1
6	MIR1273C	ENSG00000264814	ENST00000578669	miRNA	KNOWN	None	38173	None	None	155174494	155174570	1	None	hsa-mir-1273c
5	None	ENSG00000265637	ENST00000584545	miRNA	NOVEL	None	None	None	None	125532528	125532608	1	None	None
6	None	ENSG00000271218	ENST00000474641	antisense	KNOWN	None	None	None	None	53783772	53785586	-1	None	None
6	None	ENSG00000223286	ENST00000411354	miRNA	NOVEL	None	None	None	None	155202416	155202504	1	None	None
HSCHR6_MHC_SSTO	HLA-DQA2	ENSG00000231526	ENST00000415898	protein_coding	KNOWN	None	4943	768	255	32799929	32805799	1	HLA-DXA	None
15	KLF13	ENSG00000169926	ENST00000307145	protein_coding	KNOWN	CCDS10025	13672	867	288	31619058	31670102	1	None	RFLAT-1, BTEB3, NSLP1, FKLF-2
15	KLF13	ENSG00000169926	ENST00000558921	processed_transcript	KNOWN	None	13672	None	None	31619770	31727789	1	None	RFLAT-1, BTEB3, NSLP1, FKLF-2
15	KLF13	ENSG00000169926	ENST00000560473	protein_coding	PUTATIVE	None	13672	303	100	31632136	31664646	1	None	RFLAT-1, BTEB3, NSLP1, FKLF-2
15	KLF13	ENSG00000169926	ENST00000558844	protein_coding	PUTATIVE	None	13672	42	13	31658357	31664385	1	None	RFLAT-1, BTEB3, NSLP1, FKLF-2
15	KLF13	ENSG00000169926	ENST00000558673	processed_transcript	KNOWN	None	13672	None	None	31668727	31670101	1	None	RFLAT-1, BTEB3, NSLP1, FKLF-2
15	KLF13	ENSG00000169926	ENST00000500533	processed_transcript	KNOWN	None	13672	None	None	31685046	31696113	1	None	RFLAT-1, BTEB3, NSLP1, FKLF-2
15	KLF13	ENSG00000169926	ENST00000558225	processed_transcript	KNOWN	None	13672	None	None	31685778	31727868	1	None	RFLAT-1, BTEB3, NSLP1, FKLF-2
6	None	ENSG00000238963	ENST00000459445	snoRNA	NOVEL	None	None	None	None	155226215	155226291	-1	None	None
5	None	ENSG00000250602	ENST00000515808	antisense	KNOWN	None	None	None	None	125769197	125826044	-1	None	None
5	None	ENSG00000250602	ENST00000512779	antisense	KNOWN	None	None	None	None	125794479	125803323	-1	None	None
5	None	ENSG00000250602	ENST00000512500	antisense	KNOWN	None	None	None	None	125816103	125826063	-1	None	None
6	None	ENSG00000236740	ENST00000511369	lincRNA	KNOWN	None	None	None	None	53794820	53859808	1	None	None
6	None	ENSG00000236740	ENST00000431554	lincRNA	KNOWN	None	None	None	None	53794844	53862465	1	None	None
6	None	ENSG00000235381	ENST00000435295	antisense	KNOWN	None	None	None	None	155574273	155577858	-1	None	None
13	None	ENSG00000227564	ENST00000439454	lincRNA	KNOWN	None	None	None	None	63757234	63801189	-1	None	None
11	TMEM109	ENSG00000110108	ENST00000227525	protein_coding	KNOWN	CCDS7996	28771	732	243	60681346	60690915	1	None	MGC5508
11	TMEM109	ENSG00000110108	ENST00000540407	protein_coding	PUTATIVE	None	28771	379	125	60681699	60689518	1	None	MGC5508
11	TMEM109	ENSG00000110108	ENST00000536171	protein_coding	KNOWN	CCDS7996	28771	732	243	60687150	60690848	1	None	MGC5508
11	TMEM109	ENSG00000110108	ENST00000540280	processed_transcript	PUTATIVE	None	28771	None	None	60690090	60690915	1	None	MGC5508
16	YBX3P1	ENSG00000261614	ENST00000566722	processed_pseudogene	KNOWN	None	2429	None	None	31579707	31580796	-1	CSDAP1	None
6	OR2U1P	ENSG00000204697	ENST00000377164	unprocessed_pseudogene	KNOWN	None	8278	None	None	29230480	29231856	-1	OR2AU1P	hs6M1-24
13	LINC00395	ENSG00000231061	ENST00000444536	antisense	KNOWN	None	42723	None	None	64241814	64291151	-1	None	None
13	LINC00395	ENSG00000231061	ENST00000451570	antisense	KNOWN	None	42723	None	None	64241815	64312151	-1	None	None
1	MTF2	ENSG00000143033	ENST00000370298	protein_coding	KNOWN	CCDS742	29535	1782	593	93544795	93604638	1	None	M96, PCL2, TDRD19A
1	MTF2	ENSG00000143033	ENST00000474314	processed_transcript	KNOWN	None	29535	None	None	93544827	93581049	1	None	M96, PCL2, TDRD19A
1	MTF2	ENSG00000143033	ENST00000473430	processed_transcript	KNOWN	None	29535	None	None	93544840	93584958	1	None	M96, PCL2, TDRD19A
1	MTF2	ENSG00000143033	ENST00000494963	processed_transcript	KNOWN	None	29535	None	None	93544853	93584895	1	None	M96, PCL2, TDRD19A
1	MTF2	ENSG00000143033	ENST00000471953	processed_transcript	KNOWN	None	29535	None	None	93544867	93602646	1	None	M96, PCL2, TDRD19A
1	MTF2	ENSG00000143033	ENST00000370303	protein_coding	KNOWN	CCDS53340	29535	1611	536	93544868	93602708	1	None	M96, PCL2, TDRD19A
1	MTF2	ENSG00000143033	ENST00000467953	processed_transcript	KNOWN	None	29535	None	None	93575803	93602689	1	None	M96, PCL2, TDRD19A
1	MTF2	ENSG00000143033	ENST00000497976	processed_transcript	KNOWN	None	29535	None	None	93575981	93599297	1	None	M96, PCL2, TDRD19A
1	MTF2	ENSG00000143033	ENST00000468457	processed_transcript	KNOWN	None	29535	None	None	93583902	93585831	1	None	M96, PCL2, TDRD19A
1	MTF2	ENSG00000143033	ENST00000476037	processed_transcript	KNOWN	None	29535	None	None	93586350	93602409	1	None	M96, PCL2, TDRD19A
1	MTF2	ENSG00000143033	ENST00000487263	processed_transcript	KNOWN	None	29535	None	None	93586356	93600016	1	None	M96, PCL2, TDRD19A
1	MTF2	ENSG00000143033	ENST00000489480	processed_transcript	KNOWN	None	29535	None	None	93594352	93602689	1	None	M96, PCL2, TDRD19A
1	MTF2	ENSG00000143033	ENST00000545708	protein_coding	KNOWN	CCDS53341	29535	1476	491	93544792	93604636	1	None	M96, PCL2, TDRD19A
1	MTF2	ENSG00000143033	ENST00000540243	protein_coding	KNOWN	CCDS53341	29535	1476	491	93544792	93604636	1	None	M96, PCL2, TDRD19A
16	ZNF720P1	ENSG00000260010	ENST00000562403	processed_pseudogene	KNOWN	None	34505	None	None	31612914	31614852	-1	None	None
16	None	ENSG00000260601	ENST00000565359	sense_intronic	KNOWN	None	None	None	None	12639339	12640541	1	None	None
6	None	ENSG00000228624	ENST00000519104	antisense	KNOWN	None	None	None	None	114290865	114661902	1	None	None
6	None	ENSG00000228624	ENST00000520554	antisense	KNOWN	None	None	None	None	114291118	114314627	1	None	None
6	None	ENSG00000228624	ENST00000436876	antisense	KNOWN	None	None	None	None	114291270	114316808	1	None	None
6	None	ENSG00000228624	ENST00000449620	antisense	KNOWN	None	None	None	None	114291399	114316966	1	None	None
6	None	ENSG00000228624	ENST00000521888	antisense	KNOWN	None	None	None	None	114292659	114314520	1	None	None
6	None	ENSG00000228624	ENST00000520891	antisense	KNOWN	None	None	None	None	114292660	114316979	1	None	None
6	None	ENSG00000228624	ENST00000522844	antisense	KNOWN	None	None	None	None	114292682	114317033	1	None	None
6	None	ENSG00000228624	ENST00000421891	antisense	KNOWN	None	None	None	None	114316308	114320962	1	None	None
6	None	ENSG00000228624	ENST00000519629	antisense	KNOWN	None	None	None	None	114316408	114317079	1	None	None
6	None	ENSG00000228624	ENST00000523087	antisense	KNOWN	None	None	None	None	114317119	114556880	1	None	None
6	None	ENSG00000228624	ENST00000519270	antisense	KNOWN	None	None	None	None	114317139	114380952	1	None	None
6	None	ENSG00000228624	ENST00000520034	antisense	KNOWN	None	None	None	None	114405733	114465082	1	None	None
6	None	ENSG00000228624	ENST00000431399	antisense	KNOWN	None	None	None	None	114433550	114453467	1	None	None
6	None	ENSG00000228624	ENST00000451415	antisense	KNOWN	None	None	None	None	114551305	114560363	1	None	None
6	None	ENSG00000228624	ENST00000606947	antisense	KNOWN	None	None	None	None	114552512	114573083	1	None	None
6	None	ENSG00000228624	ENST00000518470	antisense	KNOWN	None	None	None	None	114602976	114789738	1	None	None
6	None	ENSG00000228624	ENST00000522697	antisense	KNOWN	None	None	None	None	114746776	114792869	1	None	None
6	None	ENSG00000228624	ENST00000517965	antisense	KNOWN	None	None	None	None	114770124	114777798	1	None	None
6	OR2U2P	ENSG00000242524	ENST00000465951	unprocessed_pseudogene	KNOWN	None	8279	None	None	29236239	29237198	-1	None	hs6M1-23
5	None	ENSG00000249779	ENST00000514009	processed_pseudogene	KNOWN	None	None	None	None	43206811	43207913	1	None	None
6	MLIP-IT1	ENSG00000236996	ENST00000441845	sense_intronic	KNOWN	None	41461	None	None	53863688	53871950	1	None	None
10	RNU6-1067P	ENSG00000207483	ENST00000384752	snRNA	KNOWN	None	48030	None	None	28956848	28956954	1	None	None
3	FLYWCH1P1	ENSG00000239516	ENST00000460917	processed_pseudogene	KNOWN	None	38033	None	None	180545765	180547638	-1	None	None
9	ENTPD2	ENSG00000054179	ENST00000355097	protein_coding	KNOWN	CCDS7026	3364	1488	495	139942550	139948497	-1	CD39L1	NTPDase-2
9	ENTPD2	ENSG00000054179	ENST00000460614	processed_transcript	KNOWN	None	3364	None	None	139942559	139944065	-1	CD39L1	NTPDase-2
9	ENTPD2	ENSG00000054179	ENST00000312665	protein_coding	KNOWN	CCDS7025	3364	1419	472	139943049	139948470	-1	CD39L1	NTPDase-2
9	ENTPD2	ENSG00000054179	ENST00000469106	processed_transcript	KNOWN	None	3364	None	None	139944740	139948452	-1	CD39L1	NTPDase-2
5	None	ENSG00000249888	ENST00000511389	processed_pseudogene	KNOWN	None	None	None	None	43225608	43225915	-1	None	None
5	None	ENSG00000248996	ENST00000506025	antisense	KNOWN	None	None	None	None	176921996	176930648	1	None	None
14	TRDJ3	ENSG00000211828	ENST00000390476	TR_J_gene	KNOWN	None	12259	59	18	22928090	22928148	1	None	None
HSCHR6_MHC_COX	UQCRHP1	ENSG00000227650	ENST00000440146	processed_pseudogene	KNOWN	None	31341	None	None	31566274	31566547	-1	UQCRHP5	Em:AF129756.18
6	OR2B4P	ENSG00000197171	ENST00000356293	unprocessed_pseudogene	KNOWN	None	8239	None	None	29258488	29259430	1	None	hs6M1-22
6	ERHP2	ENSG00000218143	ENST00000402323	processed_pseudogene	KNOWN	None	41917	None	None	53881277	53881575	-1	None	None
5	None	ENSG00000247763	ENST00000501221	processed_pseudogene	KNOWN	None	None	None	None	43231914	43233275	-1	None	None
5	None	ENSG00000272459	ENST00000606358	lincRNA	KNOWN	None	None	None	None	176981825	176982365	1	None	None
22	C22orf24	ENSG00000128254	ENST00000248984	protein_coding	KNOWN	CCDS46693	23051	483	160	32329507	32341336	-1	None	HSN44A4A
22	C22orf24	ENSG00000128254	ENST00000486651	processed_transcript	KNOWN	None	23051	None	None	32330026	32341504	-1	None	HSN44A4A
22	C22orf24	ENSG00000128254	ENST00000484682	retained_intron	KNOWN	None	23051	None	None	32330334	32334440	-1	None	HSN44A4A
22	C22orf24	ENSG00000128254	ENST00000543051	protein_coding	KNOWN	None	23051	684	227	32329997	32334403	-1	None	HSN44A4A
10	None	ENSG00000236716	ENST00000456082	lincRNA	KNOWN	None	None	None	None	29032674	29033592	1	None	None
X	None	ENSG00000226484	ENST00000455438	processed_transcript	KNOWN	None	None	None	None	36383741	36458375	-1	None	None
16	VN1R66P	ENSG00000237185	ENST00000412929	unprocessed_pseudogene	KNOWN	None	37386	None	None	31659628	31660543	1	None	None
3	MOBP	ENSG00000168314	ENST00000451925	protein_coding	KNOWN	None	7189	175	57	39508689	39543735	1	None	None
3	MOBP	ENSG00000168314	ENST00000428261	protein_coding	KNOWN	CCDS2687	7189	246	81	39509096	39554938	1	None	None
3	MOBP	ENSG00000168314	ENST00000420739	protein_coding	KNOWN	None	7189	552	183	39509096	39555003	1	None	None
3	MOBP	ENSG00000168314	ENST00000415443	protein_coding	KNOWN	CCDS2687	7189	246	81	39509096	39555038	1	None	None
3	MOBP	ENSG00000168314	ENST00000447324	protein_coding	KNOWN	CCDS2687	7189	246	81	39509096	39555093	1	None	None
3	MOBP	ENSG00000168314	ENST00000383754	protein_coding	KNOWN	CCDS2687	7189	246	81	39509096	39557494	1	None	None
3	MOBP	ENSG00000168314	ENST00000436143	protein_coding	PUTATIVE	None	7189	188	61	39509171	39543715	1	None	None
3	MOBP	ENSG00000168314	ENST00000441980	protein_coding	KNOWN	None	7189	552	183	39509171	39544518	1	None	None
3	MOBP	ENSG00000168314	ENST00000311042	protein_coding	NOVEL	None	7189	621	206	39509171	39557492	1	None	None
3	MOBP	ENSG00000168314	ENST00000452959	nonsense_mediated_decay	KNOWN	CCDS2687	7189	246	81	39509195	39570970	1	None	None
3	MOBP	ENSG00000168314	ENST00000424090	nonsense_mediated_decay	KNOWN	None	7189	552	183	39543554	39566373	1	None	None
3	MOBP	ENSG00000168314	ENST00000442631	nonsense_mediated_decay	KNOWN	None	7189	549	182	39543557	39565985	1	None	None
3	MOBP	ENSG00000168314	ENST00000479860	processed_transcript	KNOWN	None	7189	None	None	39543706	39566047	1	None	None
3	MOBP	ENSG00000168314	ENST00000396228	protein_coding	KNOWN	CCDS2687	7189	246	81	39521586	39567101	1	None	None
3	MOBP	ENSG00000168314	ENST00000354668	protein_coding	KNOWN	None	7189	552	183	39509070	39544371	1	None	None
8	None	ENSG00000254000	ENST00000522087	lincRNA	KNOWN	None	None	None	None	124936999	124938173	-1	None	None
6	DDX6P1	ENSG00000230056	ENST00000441966	processed_pseudogene	KNOWN	None	13948	None	None	29297403	29298838	-1	DDX6P	DDX6-Lp, bA150A6.3
5	None	ENSG00000247679	ENST00000499900	antisense	KNOWN	None	None	None	None	177038254	177046755	1	None	None
6	MLIP-AS1	ENSG00000235050	ENST00000592093	antisense	KNOWN	None	40963	None	None	53893975	53912392	-1	None	None
6	MLIP-AS1	ENSG00000235050	ENST00000587216	antisense	KNOWN	None	40963	None	None	53893976	53912392	-1	None	None
6	MLIP-AS1	ENSG00000235050	ENST00000590739	antisense	KNOWN	None	40963	None	None	53894172	53912392	-1	None	None
6	MLIP-AS1	ENSG00000235050	ENST00000587744	antisense	KNOWN	None	40963	None	None	53895430	53912392	-1	None	None
6	MLIP-AS1	ENSG00000235050	ENST00000592236	antisense	KNOWN	None	40963	None	None	53896201	53912392	-1	None	None
6	MLIP-AS1	ENSG00000235050	ENST00000588900	antisense	KNOWN	None	40963	None	None	53910205	53912392	-1	None	None
6	MLIP-AS1	ENSG00000235050	ENST00000434196	antisense	KNOWN	None	40963	None	None	53910727	53912392	-1	None	None
6	MLIP-AS1	ENSG00000235050	ENST00000586980	antisense	KNOWN	None	40963	None	None	53911435	53912392	-1	None	None
6	MLIP-AS1	ENSG00000235050	ENST00000589041	antisense	KNOWN	None	40963	None	None	53911899	53944524	-1	None	None
8	FER1L6-AS1	ENSG00000181171	ENST00000518567	antisense	KNOWN	None	26652	None	None	124996378	125053023	-1	C8orf54	FLJ35721
7	None	ENSG00000233760	ENST00000420912	lincRNA	KNOWN	None	None	None	None	26591441	26596819	1	None	None
7	None	ENSG00000233760	ENST00000457000	lincRNA	KNOWN	None	None	None	None	26591458	26594733	1	None	None
7	None	ENSG00000233760	ENST00000430426	lincRNA	KNOWN	None	None	None	None	26591515	26594895	1	None	None
6	UBDP1	ENSG00000225797	ENST00000457888	unprocessed_pseudogene	KNOWN	None	18796	None	None	29432373	29437583	-1	None	dJ994E9.3
16	None	ENSG00000260631	ENST00000567098	processed_pseudogene	KNOWN	None	None	None	None	31692168	31693422	1	None	None
6	PAQR8	ENSG00000170915	ENST00000512121	protein_coding	KNOWN	None	15708	336	111	52226219	52268347	1	C6orf33	LMPB1, MPRB
6	PAQR8	ENSG00000170915	ENST00000442253	protein_coding	KNOWN	CCDS4941	15708	1065	354	52226926	52272575	1	C6orf33	LMPB1, MPRB
6	PAQR8	ENSG00000170915	ENST00000360726	protein_coding	KNOWN	CCDS4941	15708	1065	354	52227244	52272489	1	C6orf33	LMPB1, MPRB
20	MIR1-1	ENSG00000199017	ENST00000362147	miRNA	KNOWN	None	31499	None	None	61151510	61151586	1	MIRN1-1	hsa-mir-1-1
11	OR8A3P	ENSG00000255315	ENST00000528904	processed_pseudogene	KNOWN	None	31315	None	None	124401521	124401806	1	None	None
21	None	ENSG00000269011	ENST00000596508	protein_coding	KNOWN	None	None	420	139	15051621	15053459	-1	None	None
8	None	ENSG00000254249	ENST00000522005	antisense	KNOWN	None	None	None	None	125048251	125052709	-1	None	None
11	PTDSS2	ENSG00000174915	ENST00000532614	processed_transcript	KNOWN	None	15463	None	None	448268	487053	1	None	PSS2
11	PTDSS2	ENSG00000174915	ENST00000308020	protein_coding	KNOWN	CCDS7696	15463	1464	487	450280	491387	1	None	PSS2
11	PTDSS2	ENSG00000174915	ENST00000531520	nonsense_mediated_decay	KNOWN	None	15463	246	81	450296	487470	1	None	PSS2
11	PTDSS2	ENSG00000174915	ENST00000528617	processed_transcript	KNOWN	None	15463	None	None	450327	460879	1	None	PSS2
11	PTDSS2	ENSG00000174915	ENST00000525727	retained_intron	KNOWN	None	15463	None	None	450347	479445	1	None	PSS2
11	PTDSS2	ENSG00000174915	ENST00000525059	retained_intron	KNOWN	None	15463	None	None	450354	461051	1	None	PSS2
11	PTDSS2	ENSG00000174915	ENST00000526558	processed_transcript	KNOWN	None	15463	None	None	450420	459111	1	None	PSS2
11	PTDSS2	ENSG00000174915	ENST00000527479	nonsense_mediated_decay	KNOWN	None	15463	183	60	450451	479090	1	None	PSS2
11	PTDSS2	ENSG00000174915	ENST00000526878	retained_intron	KNOWN	None	15463	None	None	458674	491393	1	None	PSS2
11	PTDSS2	ENSG00000174915	ENST00000530087	processed_transcript	KNOWN	None	15463	None	None	473920	480594	1	None	PSS2
11	PTDSS2	ENSG00000174915	ENST00000527325	retained_intron	KNOWN	None	15463	None	None	487239	489730	1	None	PSS2
11	PTDSS2	ENSG00000174915	ENST00000531411	retained_intron	KNOWN	None	15463	None	None	489350	490546	1	None	PSS2
11	PTDSS2	ENSG00000174915	ENST00000530029	retained_intron	KNOWN	None	15463	None	None	489791	490720	1	None	PSS2
8	FER1L6-AS2	ENSG00000253868	ENST00000520031	antisense	KNOWN	None	26534	None	None	125058314	125183763	-1	C8orf78	FLJ32770
8	FER1L6-AS2	ENSG00000253868	ENST00000601180	antisense	KNOWN	None	26534	None	None	125058314	125073033	-1	C8orf78	FLJ32770
2	CLASP1	ENSG00000074054	ENST00000409078	protein_coding	KNOWN	None	17088	4416	1471	122095352	122407163	-1	None	KIAA0622, MAST1
2	CLASP1	ENSG00000074054	ENST00000452274	nonsense_mediated_decay	KNOWN	None	17088	2114	703	122098298	122260796	-1	None	KIAA0622, MAST1
2	CLASP1	ENSG00000074054	ENST00000472776	retained_intron	KNOWN	None	17088	None	None	122121695	122145652	-1	None	KIAA0622, MAST1
2	CLASP1	ENSG00000074054	ENST00000463621	protein_coding	NOVEL	None	17088	536	177	122165095	122185046	-1	None	KIAA0622, MAST1
2	CLASP1	ENSG00000074054	ENST00000430234	processed_transcript	KNOWN	None	17088	None	None	122216492	122247904	-1	None	KIAA0622, MAST1
2	CLASP1	ENSG00000074054	ENST00000491646	retained_intron	KNOWN	None	17088	None	None	122217198	122218771	-1	None	KIAA0622, MAST1
2	CLASP1	ENSG00000074054	ENST00000418989	protein_coding	PUTATIVE	None	17088	450	149	122217591	122262669	-1	None	KIAA0622, MAST1
2	CLASP1	ENSG00000074054	ENST00000449975	protein_coding	PUTATIVE	None	17088	331	109	122218685	122261564	-1	None	KIAA0622, MAST1
2	CLASP1	ENSG00000074054	ENST00000474065	retained_intron	KNOWN	None	17088	None	None	122220108	122283543	-1	None	KIAA0622, MAST1
2	CLASP1	ENSG00000074054	ENST00000480007	processed_transcript	KNOWN	None	17088	None	None	122220111	122270649	-1	None	KIAA0622, MAST1
2	CLASP1	ENSG00000074054	ENST00000485112	retained_intron	KNOWN	None	17088	None	None	122273241	122288321	-1	None	KIAA0622, MAST1
2	CLASP1	ENSG00000074054	ENST00000263710	protein_coding	KNOWN	None	17088	4617	1538	122095354	122407052	-1	None	KIAA0622, MAST1
2	CLASP1	ENSG00000074054	ENST00000455322	protein_coding	KNOWN	None	17088	4485	1494	122095354	122407052	-1	None	KIAA0622, MAST1
2	CLASP1	ENSG00000074054	ENST00000397587	protein_coding	KNOWN	None	17088	4437	1478	122095354	122407052	-1	None	KIAA0622, MAST1
2	CLASP1	ENSG00000074054	ENST00000541377	protein_coding	KNOWN	None	17088	4434	1477	122095354	122407052	-1	None	KIAA0622, MAST1
2	CLASP1	ENSG00000074054	ENST00000545861	protein_coding	KNOWN	None	17088	3738	1245	122098273	122247904	-1	None	KIAA0622, MAST1
2	CLASP1	ENSG00000074054	ENST00000541859	protein_coding	KNOWN	None	17088	3768	1255	122095354	122227853	-1	None	KIAA0622, MAST1
19	FBXO46	ENSG00000177051	ENST00000317683	protein_coding	KNOWN	CCDS46116	25069	1812	603	46213887	46234162	-1	FBXO34L	20D7-FC4, Fbx46
19	FBXO46	ENSG00000177051	ENST00000586899	protein_coding	KNOWN	None	25069	552	183	46216202	46226754	-1	FBXO34L	20D7-FC4, Fbx46
19	FBXO46	ENSG00000177051	ENST00000591686	protein_coding	KNOWN	None	25069	40	12	46216714	46218536	-1	FBXO34L	20D7-FC4, Fbx46
2	RNPEPL1	ENSG00000142327	ENST00000451363	protein_coding	PUTATIVE	None	10079	344	113	241505221	241516144	1	None	None
2	RNPEPL1	ENSG00000142327	ENST00000270357	protein_coding	KNOWN	None	10079	1485	494	241508104	241518149	1	None	None
2	RNPEPL1	ENSG00000142327	ENST00000486058	retained_intron	KNOWN	None	10079	None	None	241508278	241518144	1	None	None
2	RNPEPL1	ENSG00000142327	ENST00000481757	retained_intron	KNOWN	None	10079	None	None	241513287	241518141	1	None	None
2	RNPEPL1	ENSG00000142327	ENST00000493398	retained_intron	KNOWN	None	10079	None	None	241513971	241516383	1	None	None
2	RNPEPL1	ENSG00000142327	ENST00000464550	processed_transcript	KNOWN	None	10079	None	None	241514139	241517107	1	None	None
2	RNPEPL1	ENSG00000142327	ENST00000460884	retained_intron	KNOWN	None	10079	None	None	241514236	241515027	1	None	None
2	RNPEPL1	ENSG00000142327	ENST00000498042	retained_intron	KNOWN	None	10079	None	None	241514491	241515193	1	None	None
2	RNPEPL1	ENSG00000142327	ENST00000471657	retained_intron	KNOWN	None	10079	None	None	241514715	241517059	1	None	None
2	RNPEPL1	ENSG00000142327	ENST00000437406	protein_coding	NOVEL	None	10079	744	247	241514919	241518141	1	None	None
17	IGFBP4	ENSG00000141753	ENST00000269593	protein_coding	KNOWN	CCDS11367	5473	777	258	38599713	38613983	1	None	IBP4, BP-4, HT29-IGFBP, IGFBP-4
17	IGFBP4	ENSG00000141753	ENST00000542955	protein_coding	KNOWN	None	5473	477	158	38599702	38613335	1	None	IBP4, BP-4, HT29-IGFBP, IGFBP-4
8	None	ENSG00000250727	ENST00000507871	processed_pseudogene	KNOWN	None	None	None	None	125154129	125155753	1	None	None
14	TRDC	ENSG00000211829	ENST00000390477	TR_C_gene	KNOWN	None	12253	464	153	22931924	22934779	1	None	None
13	OR7E156P	ENSG00000215430	ENST00000400303	processed_pseudogene	KNOWN	None	31311	None	None	64316498	64316945	1	None	None
10	NPM3	ENSG00000107833	ENST00000370110	protein_coding	KNOWN	CCDS7519	7931	537	178	103541082	103543170	-1	None	None
10	NPM3	ENSG00000107833	ENST00000474993	processed_transcript	KNOWN	None	7931	None	None	103541089	103543141	-1	None	None
10	NPM3	ENSG00000107833	ENST00000462391	processed_transcript	KNOWN	None	7931	None	None	103541346	103543132	-1	None	None
10	NPM3	ENSG00000107833	ENST00000468544	processed_transcript	KNOWN	None	7931	None	None	103541484	103542405	-1	None	None
19	IRGC	ENSG00000124449	ENST00000244314	protein_coding	KNOWN	CCDS12629	28835	1392	463	44220162	44224173	1	IRGC1	Iigp5, CINEMA
19	IRGC	ENSG00000124449	ENST00000596627	protein_coding	PUTATIVE	None	28835	825	274	44220262	44223424	1	IRGC1	Iigp5, CINEMA
3	None	ENSG00000213157	ENST00000439549	processed_pseudogene	KNOWN	None	None	None	None	180605465	180605863	-1	None	None
10	C10orf55	ENSG00000222047	ENST00000409178	protein_coding	KNOWN	CCDS53541	31008	456	151	75669727	75682535	-1	None	bA417O11.3
10	C10orf55	ENSG00000222047	ENST00000412307	protein_coding	KNOWN	CCDS53541	31008	456	151	75669736	75676400	-1	None	bA417O11.3
21	LIPI	ENSG00000188992	ENST00000344577	protein_coding	KNOWN	CCDS13564	18821	1446	481	15481134	15579270	-1	None	PRED5, LPDL, CT17, mPA-PLA1beta, PLA1C
21	LIPI	ENSG00000188992	ENST00000400211	protein_coding	KNOWN	None	18821	421	139	15537572	15561424	-1	None	PRED5, LPDL, CT17, mPA-PLA1beta, PLA1C
21	LIPI	ENSG00000188992	ENST00000536861	protein_coding	KNOWN	None	18821	1383	460	15481134	15583166	-1	None	PRED5, LPDL, CT17, mPA-PLA1beta, PLA1C
14	KIF26A	ENSG00000066735	ENST00000423312	protein_coding	KNOWN	CCDS45171	20226	5649	1882	104605060	104646127	1	None	KIAA1236, DKFZP434N178
14	KIF26A	ENSG00000066735	ENST00000315264	protein_coding	PUTATIVE	None	20226	5232	1743	104605377	104647231	1	None	KIAA1236, DKFZP434N178
13	None	ENSG00000237378	ENST00000418943	lincRNA	KNOWN	None	None	None	None	64322132	64325213	1	None	None
7	FEZF1	ENSG00000128610	ENST00000442488	protein_coding	KNOWN	CCDS34741	22788	1428	475	121941448	121944559	-1	ZNF312B	None
7	FEZF1	ENSG00000128610	ENST00000427185	protein_coding	KNOWN	CCDS55157	22788	1278	425	121942023	121944553	-1	ZNF312B	None
7	FEZF1	ENSG00000128610	ENST00000418046	protein_coding	KNOWN	None	22788	107	34	121944385	121950745	-1	ZNF312B	None
7	FEZF1	ENSG00000128610	ENST00000331178	protein_coding	KNOWN	None	22788	1416	471	121941448	121944491	-1	ZNF312B	None
5	None	ENSG00000246596	ENST00000499314	processed_transcript	KNOWN	None	None	None	None	177046060	177058536	-1	None	None
5	None	ENSG00000246596	ENST00000500444	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	177053437	177099150	-1	None	None
5	None	ENSG00000246596	ENST00000515045	processed_transcript	KNOWN	None	None	None	None	177059076	177099210	-1	None	None
13	RNU6-81P	ENSG00000202478	ENST00000365608	snRNA	KNOWN	None	42571	None	None	64357934	64358037	1	RNU6-81	None
5	ZNF300	ENSG00000145908	ENST00000427179	protein_coding	PUTATIVE	None	13091	273	90	150273961	150284351	-1	None	None
5	ZNF300	ENSG00000145908	ENST00000394226	protein_coding	KNOWN	None	13091	1815	604	150273961	150284540	-1	None	None
5	ZNF300	ENSG00000145908	ENST00000446148	protein_coding	KNOWN	CCDS54940	13091	1863	620	150273954	150284545	-1	None	None
5	ZNF300	ENSG00000145908	ENST00000274599	protein_coding	KNOWN	CCDS4311	13091	1815	604	150273954	150284545	-1	None	None
5	ZNF300	ENSG00000145908	ENST00000418587	protein_coding	KNOWN	CCDS54939	13091	1707	568	150273954	150284545	-1	None	None
1	SNORD99	ENSG00000221539	ENST00000408612	snoRNA	KNOWN	None	32762	None	None	28905261	28905334	-1	None	HBII-420
13	PPP1R2P10	ENSG00000213232	ENST00000393023	processed_pseudogene	KNOWN	None	42008	None	None	64385147	64385741	-1	None	None
17	ARHGAP23	ENSG00000225485	ENST00000431231	protein_coding	KNOWN	CCDS56027	29293	4476	1491	36584662	36668628	1	None	KIAA1501
17	ARHGAP23	ENSG00000225485	ENST00000437668	protein_coding	NOVEL	None	29293	3435	1144	36584730	36666372	1	None	KIAA1501
17	ARHGAP23	ENSG00000225485	ENST00000582409	processed_transcript	PUTATIVE	None	29293	None	None	36609934	36614440	1	None	KIAA1501
17	ARHGAP23	ENSG00000225485	ENST00000549246	protein_coding	PUTATIVE	None	29293	307	101	36613644	36622513	1	None	KIAA1501
17	ARHGAP23	ENSG00000225485	ENST00000548333	nonsense_mediated_decay	KNOWN	None	29293	390	129	36625821	36638384	1	None	KIAA1501
17	ARHGAP23	ENSG00000225485	ENST00000581782	protein_coding	PUTATIVE	None	29293	488	161	36628180	36638799	1	None	KIAA1501
17	ARHGAP23	ENSG00000225485	ENST00000578665	nonsense_mediated_decay	KNOWN	None	29293	252	83	36638764	36646385	1	None	KIAA1501
17	ARHGAP23	ENSG00000225485	ENST00000548703	protein_coding	PUTATIVE	None	29293	408	135	36646702	36666296	1	None	KIAA1501
17	ARHGAP23	ENSG00000225485	ENST00000581023	retained_intron	KNOWN	None	29293	None	None	36646726	36647985	1	None	KIAA1501
17	ARHGAP23	ENSG00000225485	ENST00000547158	protein_coding	PUTATIVE	None	29293	193	63	36654035	36657366	1	None	KIAA1501
17	ARHGAP23	ENSG00000225485	ENST00000583703	retained_intron	KNOWN	None	29293	None	None	36656575	36666354	1	None	KIAA1501
17	ARHGAP23	ENSG00000225485	ENST00000443378	protein_coding	KNOWN	None	29293	4194	1397	36613644	36668628	1	None	KIAA1501
1	None	ENSG00000229388	ENST00000420776	lincRNA	KNOWN	None	None	None	None	28969740	28975042	1	None	None
1	None	ENSG00000229388	ENST00000427804	lincRNA	KNOWN	None	None	None	None	28972603	28975093	1	None	None
11	None	ENSG00000254937	ENST00000533869	processed_pseudogene	KNOWN	None	None	None	None	124408396	124409230	-1	None	None
20	MIR133A2	ENSG00000207764	ENST00000347538	miRNA	KNOWN	None	31518	None	None	61162119	61162220	1	MIRN133A2	hsa-mir-133a-2
13	None	ENSG00000219926	ENST00000607822	lincRNA	KNOWN	None	None	None	None	64402980	64417574	-1	None	None
13	None	ENSG00000219926	ENST00000606050	lincRNA	KNOWN	None	None	None	None	64402980	64418258	-1	None	None
13	None	ENSG00000219926	ENST00000450029	lincRNA	KNOWN	None	None	None	None	64403127	64405985	-1	None	None
1	RNU11	ENSG00000270103	ENST00000602813	lincRNA	KNOWN	None	10108	None	None	28975112	28975242	1	None	U11, RNU11-1
1	RNU11	ENSG00000270103	ENST00000387069	snRNA	KNOWN	None	10108	None	None	28975112	28975245	1	None	U11, RNU11-1
8	KCNQ3	ENSG00000184156	ENST00000388996	protein_coding	KNOWN	CCDS34943	6297	2619	872	133133108	133493200	-1	EBN2	Kv7.3
8	KCNQ3	ENSG00000184156	ENST00000521134	protein_coding	PUTATIVE	CCDS56554	6297	2259	752	133141228	133459509	-1	EBN2	Kv7.3
8	KCNQ3	ENSG00000184156	ENST00000519445	protein_coding	NOVEL	None	6297	2583	860	133141337	133492825	-1	EBN2	Kv7.3
8	KCNQ3	ENSG00000184156	ENST00000519589	retained_intron	KNOWN	None	6297	None	None	133141392	133492557	-1	EBN2	Kv7.3
1	None	ENSG00000252777	ENST00000516968	snoRNA	NOVEL	None	None	None	None	29016177	29016306	1	None	None
19	None	ENSG00000267706	ENST00000591954	nonsense_mediated_decay	KNOWN	None	None	1418	471	55863669	55870884	-1	None	None
11	SIDT2	ENSG00000149577	ENST00000324225	protein_coding	KNOWN	CCDS31682	24272	2499	832	117049449	117068158	1	None	CGI-40
11	SIDT2	ENSG00000149577	ENST00000532960	protein_coding	KNOWN	None	24272	330	109	117049452	117052547	1	None	CGI-40
11	SIDT2	ENSG00000149577	ENST00000525339	processed_transcript	PUTATIVE	None	24272	None	None	117049897	117062408	1	None	CGI-40
11	SIDT2	ENSG00000149577	ENST00000278951	protein_coding	KNOWN	None	24272	2568	855	117049897	117068160	1	None	CGI-40
11	SIDT2	ENSG00000149577	ENST00000524842	protein_coding	PUTATIVE	None	24272	513	170	117050085	117056940	1	None	CGI-40
11	SIDT2	ENSG00000149577	ENST00000531353	protein_coding	PUTATIVE	None	24272	293	96	117050404	117053314	1	None	CGI-40
11	SIDT2	ENSG00000149577	ENST00000528397	retained_intron	KNOWN	None	24272	None	None	117052160	117053256	1	None	CGI-40
11	SIDT2	ENSG00000149577	ENST00000530948	processed_transcript	KNOWN	None	24272	None	None	117052180	117054855	1	None	CGI-40
11	SIDT2	ENSG00000149577	ENST00000531255	retained_intron	KNOWN	None	24272	None	None	117052814	117054806	1	None	CGI-40
11	SIDT2	ENSG00000149577	ENST00000529441	retained_intron	KNOWN	None	24272	None	None	117056667	117063329	1	None	CGI-40
11	SIDT2	ENSG00000149577	ENST00000526813	retained_intron	KNOWN	None	24272	None	None	117058343	117062645	1	None	CGI-40
11	SIDT2	ENSG00000149577	ENST00000527654	retained_intron	KNOWN	None	24272	None	None	117059707	117060155	1	None	CGI-40
11	SIDT2	ENSG00000149577	ENST00000524988	retained_intron	KNOWN	None	24272	None	None	117059741	117060998	1	None	CGI-40
11	SIDT2	ENSG00000149577	ENST00000529484	retained_intron	KNOWN	None	24272	None	None	117061399	117064867	1	None	CGI-40
11	SIDT2	ENSG00000149577	ENST00000525065	retained_intron	KNOWN	None	24272	None	None	117061444	117063721	1	None	CGI-40
11	SIDT2	ENSG00000149577	ENST00000525478	protein_coding	PUTATIVE	None	24272	402	133	117063295	117067220	1	None	CGI-40
11	SIDT2	ENSG00000149577	ENST00000532062	protein_coding	PUTATIVE	None	24272	375	124	117063333	117067995	1	None	CGI-40
11	SIDT2	ENSG00000149577	ENST00000431081	protein_coding	KNOWN	None	24272	2490	829	117049910	117068011	1	None	CGI-40
1	None	ENSG00000226852	ENST00000443593	lincRNA	KNOWN	None	None	None	None	29194087	29197779	1	None	None
7	FZD1	ENSG00000157240	ENST00000287934	protein_coding	KNOWN	CCDS5620	4038	1944	647	90893783	90898123	1	None	DKFZp564G072
10	None	ENSG00000224504	ENST00000435367	lincRNA	KNOWN	None	None	None	None	87192619	87208718	1	None	None
1	None	ENSG00000233427	ENST00000418471	antisense	KNOWN	None	None	None	None	29196995	29203848	-1	None	None
20	RPL7P3	ENSG00000226094	ENST00000441388	processed_pseudogene	KNOWN	None	16566	None	None	61169878	61170591	1	None	dJ353C17.2
17	ITGAE	ENSG00000083457	ENST00000572179	processed_transcript	KNOWN	None	6147	None	None	3617922	3627131	-1	None	CD103, HUMINAE
17	ITGAE	ENSG00000083457	ENST00000263087	protein_coding	KNOWN	CCDS32531	6147	3540	1179	3617922	3704537	-1	None	CD103, HUMINAE
17	ITGAE	ENSG00000083457	ENST00000572433	retained_intron	KNOWN	None	6147	None	None	3617930	3623913	-1	None	CD103, HUMINAE
17	ITGAE	ENSG00000083457	ENST00000571937	retained_intron	KNOWN	None	6147	None	None	3617947	3621673	-1	None	CD103, HUMINAE
17	ITGAE	ENSG00000083457	ENST00000570415	retained_intron	KNOWN	None	6147	None	None	3617960	3631768	-1	None	CD103, HUMINAE
17	ITGAE	ENSG00000083457	ENST00000570360	processed_transcript	KNOWN	None	6147	None	None	3617986	3627148	-1	None	CD103, HUMINAE
17	ITGAE	ENSG00000083457	ENST00000571185	processed_transcript	KNOWN	None	6147	None	None	3627612	3642247	-1	None	CD103, HUMINAE
17	ITGAE	ENSG00000083457	ENST00000574026	protein_coding	PUTATIVE	None	6147	416	137	3631308	3646834	-1	None	CD103, HUMINAE
17	ITGAE	ENSG00000083457	ENST00000572121	processed_transcript	KNOWN	None	6147	None	None	3655164	3657990	-1	None	CD103, HUMINAE
HSCHR6_MHC_COX	LST1	ENSG00000226182	ENST00000432009	protein_coding	KNOWN	None	14189	201	66	31541313	31544094	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_COX	LST1	ENSG00000226182	ENST00000434314	protein_coding	KNOWN	None	14189	294	97	31541368	31544094	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_COX	LST1	ENSG00000226182	ENST00000490706	retained_intron	KNOWN	None	14189	None	None	31541383	31544094	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_COX	LST1	ENSG00000226182	ENST00000415781	protein_coding	KNOWN	None	14189	42	13	31541406	31544094	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_COX	LST1	ENSG00000226182	ENST00000441216	protein_coding	KNOWN	None	14189	87	28	31541406	31544094	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_COX	LST1	ENSG00000226182	ENST00000422035	protein_coding	KNOWN	None	14189	156	51	31541409	31544094	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_COX	LST1	ENSG00000226182	ENST00000489726	retained_intron	KNOWN	None	14189	None	None	31541424	31544094	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_COX	LST1	ENSG00000226182	ENST00000442052	protein_coding	KNOWN	None	14189	201	66	31541888	31544094	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_COX	LST1	ENSG00000226182	ENST00000433188	protein_coding	KNOWN	None	14189	87	28	31542037	31544094	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_COX	LST1	ENSG00000226182	ENST00000412283	protein_coding	KNOWN	None	14189	109	35	31542084	31542919	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_COX	LST1	ENSG00000226182	ENST00000429639	protein_coding	KNOWN	None	14189	87	28	31542198	31544094	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_COX	LST1	ENSG00000226182	ENST00000421478	protein_coding	KNOWN	None	14189	87	28	31542211	31544094	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_COX	LST1	ENSG00000226182	ENST00000455003	protein_coding	KNOWN	None	14189	294	97	31542221	31544094	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_COX	LST1	ENSG00000226182	ENST00000420157	protein_coding	KNOWN	None	14189	201	66	31542255	31544094	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_COX	LST1	ENSG00000226182	ENST00000433004	protein_coding	KNOWN	None	14189	201	66	31542269	31544094	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_COX	LST1	ENSG00000226182	ENST00000441278	protein_coding	KNOWN	None	14189	138	45	31542275	31543030	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_COX	LST1	ENSG00000226182	ENST00000422533	protein_coding	KNOWN	None	14189	180	59	31542286	31544094	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_COX	LST1	ENSG00000226182	ENST00000421781	protein_coding	KNOWN	None	14189	249	82	31542306	31544094	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_COX	LST1	ENSG00000226182	ENST00000420676	protein_coding	KNOWN	None	14189	222	73	31542389	31544094	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_COX	LST1	ENSG00000226182	ENST00000440328	protein_coding	KNOWN	None	14189	108	35	31542389	31544094	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_COX	LST1	ENSG00000226182	ENST00000412623	protein_coding	KNOWN	None	14189	315	104	31542389	31544094	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_COX	LST1	ENSG00000226182	ENST00000478933	retained_intron	KNOWN	None	14189	None	None	31542444	31544094	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_COX	LST1	ENSG00000226182	ENST00000412125	protein_coding	KNOWN	None	14189	131	42	31542493	31544094	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_COX	LST1	ENSG00000226182	ENST00000548695	protein_coding	KNOWN	None	14189	108	35	31541368	31543770	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_COX	LST1	ENSG00000226182	ENST00000550057	protein_coding	KNOWN	None	14189	276	91	31542389	31544093	1	None	LST-1, B144, D6S49E
10	None	ENSG00000230962	ENST00000441457	lincRNA	KNOWN	None	None	None	None	87209349	87251753	1	None	None
22	YWHAH	ENSG00000128245	ENST00000248975	protein_coding	KNOWN	CCDS13901	12853	741	246	32340447	32353590	1	YWHA1	None
22	YWHAH	ENSG00000128245	ENST00000443669	nonsense_mediated_decay	KNOWN	None	12853	120	39	32340508	32352469	1	YWHA1	None
22	YWHAH	ENSG00000128245	ENST00000397492	protein_coding	PUTATIVE	None	12853	219	72	32340508	32353590	1	YWHA1	None
22	YWHAH	ENSG00000128245	ENST00000479649	processed_transcript	KNOWN	None	12853	None	None	32340733	32352591	1	YWHA1	None
22	YWHAH	ENSG00000128245	ENST00000471374	processed_transcript	KNOWN	None	12853	None	None	32340952	32353590	1	YWHA1	None
22	YWHAH	ENSG00000128245	ENST00000420430	protein_coding	PUTATIVE	None	12853	486	161	32343409	32352563	1	YWHA1	None
1	None	ENSG00000199756	ENST00000362886	misc_RNA	NOVEL	None	None	None	None	29208238	29208347	-1	None	None
7	MTND4P3	ENSG00000225959	ENST00000417829	unprocessed_pseudogene	KNOWN	None	42190	None	None	67731306	67731846	-1	None	None
13	EXOSC8	ENSG00000120699	ENST00000489088	processed_transcript	KNOWN	None	17035	None	None	37572953	37580290	1	None	OIP2, RRP43, bA421P11.3, Rrp43p, EAP2, p9, CIP3
13	EXOSC8	ENSG00000120699	ENST00000389704	protein_coding	KNOWN	CCDS31958	17035	831	276	37574678	37583538	1	None	OIP2, RRP43, bA421P11.3, Rrp43p, EAP2, p9, CIP3
13	EXOSC8	ENSG00000120699	ENST00000239893	nonsense_mediated_decay	KNOWN	None	17035	114	37	37574920	37582970	1	None	OIP2, RRP43, bA421P11.3, Rrp43p, EAP2, p9, CIP3
13	EXOSC8	ENSG00000120699	ENST00000474661	processed_transcript	KNOWN	None	17035	None	None	37574923	37582922	1	None	OIP2, RRP43, bA421P11.3, Rrp43p, EAP2, p9, CIP3
13	EXOSC8	ENSG00000120699	ENST00000490537	retained_intron	KNOWN	None	17035	None	None	37574924	37583538	1	None	OIP2, RRP43, bA421P11.3, Rrp43p, EAP2, p9, CIP3
13	EXOSC8	ENSG00000120699	ENST00000488108	processed_transcript	KNOWN	None	17035	None	None	37575611	37577138	1	None	OIP2, RRP43, bA421P11.3, Rrp43p, EAP2, p9, CIP3
13	EXOSC8	ENSG00000120699	ENST00000464235	processed_transcript	KNOWN	None	17035	None	None	37576405	37582275	1	None	OIP2, RRP43, bA421P11.3, Rrp43p, EAP2, p9, CIP3
13	EXOSC8	ENSG00000120699	ENST00000488779	processed_transcript	KNOWN	None	17035	None	None	37576405	37582314	1	None	OIP2, RRP43, bA421P11.3, Rrp43p, EAP2, p9, CIP3
13	EXOSC8	ENSG00000120699	ENST00000470423	processed_transcript	KNOWN	None	17035	None	None	37576410	37578662	1	None	OIP2, RRP43, bA421P11.3, Rrp43p, EAP2, p9, CIP3
13	EXOSC8	ENSG00000120699	ENST00000495092	retained_intron	KNOWN	None	17035	None	None	37578355	37582969	1	None	OIP2, RRP43, bA421P11.3, Rrp43p, EAP2, p9, CIP3
13	EXOSC8	ENSG00000120699	ENST00000481013	protein_coding	PUTATIVE	None	17035	210	69	37581115	37583750	1	None	OIP2, RRP43, bA421P11.3, Rrp43p, EAP2, p9, CIP3
1	None	ENSG00000225616	ENST00000425821	processed_pseudogene	KNOWN	None	None	None	None	29308790	29309120	-1	None	None
10	RNU6-325P	ENSG00000223064	ENST00000411132	snRNA	KNOWN	None	47288	None	None	87297136	87297240	1	None	None
16	None	ENSG00000259821	ENST00000564193	lincRNA	KNOWN	None	None	None	None	47038424	47069296	1	None	None
HSCHR6_MHC_COX	OR12D2	ENSG00000235966	ENST00000438569	protein_coding	KNOWN	None	8178	924	307	29361002	29362034	1	None	hs6M1-20
10	RN7SKP84	ENSG00000252730	ENST00000516921	misc_RNA	KNOWN	None	45808	None	None	87318481	87318829	1	None	None
10	None	ENSG00000234942	ENST00000443311	antisense	KNOWN	None	None	None	None	87365150	87366263	1	None	None
7	None	ENSG00000228429	ENST00000433493	processed_pseudogene	KNOWN	None	None	None	None	68105785	68106571	1	None	None
11	CDC42BPG	ENSG00000171219	ENST00000342711	protein_coding	KNOWN	CCDS31601	29829	4656	1551	64590859	64612041	-1	None	HSMDPKIN, MRCKgamma, DMPK2, kappa-200
11	CDC42BPG	ENSG00000171219	ENST00000491280	processed_transcript	PUTATIVE	None	29829	None	None	64597864	64599954	-1	None	HSMDPKIN, MRCKgamma, DMPK2, kappa-200
11	CDC42BPG	ENSG00000171219	ENST00000468512	processed_transcript	KNOWN	None	29829	None	None	64600392	64601257	-1	None	HSMDPKIN, MRCKgamma, DMPK2, kappa-200
11	CDC42BPG	ENSG00000171219	ENST00000480767	retained_intron	KNOWN	None	29829	None	None	64600752	64601283	-1	None	HSMDPKIN, MRCKgamma, DMPK2, kappa-200
1	None	ENSG00000206704	ENST00000383977	misc_RNA	NOVEL	None	None	None	None	29312222	29312322	1	None	None
16	None	ENSG00000259983	ENST00000568326	transcribed_processed_pseudogene	KNOWN	None	None	None	None	47047868	47048276	1	None	None
1	None	ENSG00000225750	ENST00000413004	lincRNA	KNOWN	None	None	None	None	29471006	29473506	-1	None	None
16	None	ENSG00000233024	ENST00000545114	protein_coding	NOVEL	None	None	699	232	18451943	18468926	-1	None	None
16	None	ENSG00000233024	ENST00000427999	protein_coding	NOVEL	None	None	1110	369	18451952	18470696	-1	None	None
16	None	ENSG00000233024	ENST00000528301	protein_coding	PUTATIVE	None	None	671	222	18453691	18462221	-1	None	None
16	None	ENSG00000233024	ENST00000526166	retained_intron	KNOWN	None	None	None	None	18454904	18462177	-1	None	None
16	None	ENSG00000233024	ENST00000546267	processed_transcript	KNOWN	None	None	None	None	18455082	18473188	-1	None	None
16	None	ENSG00000233024	ENST00000533010	retained_intron	KNOWN	None	None	None	None	18458127	18468836	-1	None	None
16	None	ENSG00000233024	ENST00000543228	processed_transcript	KNOWN	None	None	None	None	18462115	18466547	-1	None	None
16	None	ENSG00000233024	ENST00000541810	protein_coding	KNOWN	None	None	1110	369	18451959	18466642	-1	None	None
16	None	ENSG00000233024	ENST00000531453	protein_coding	KNOWN	None	None	699	232	18452093	18466642	-1	None	None
16	None	ENSG00000238834	ENST00000458876	snoRNA	NOVEL	None	None	None	None	47154830	47154932	-1	None	None
12	NACA	ENSG00000196531	ENST00000550920	protein_coding	PUTATIVE	None	7629	642	213	57106212	57113384	-1	None	NACA1
12	NACA	ENSG00000196531	ENST00000550952	protein_coding	NOVEL	CCDS44925	7629	2778	925	57106217	57119083	-1	None	NACA1
12	NACA	ENSG00000196531	ENST00000356769	protein_coding	KNOWN	CCDS31837	7629	648	215	57106217	57120981	-1	None	NACA1
12	NACA	ENSG00000196531	ENST00000552540	protein_coding	KNOWN	CCDS31837	7629	648	215	57106219	57119040	-1	None	NACA1
12	NACA	ENSG00000196531	ENST00000393891	protein_coding	KNOWN	CCDS31837	7629	648	215	57106219	57119051	-1	None	NACA1
12	NACA	ENSG00000196531	ENST00000548386	processed_transcript	KNOWN	None	7629	None	None	57106224	57107366	-1	None	NACA1
12	NACA	ENSG00000196531	ENST00000548563	protein_coding	PUTATIVE	None	7629	411	136	57106224	57119083	-1	None	NACA1
12	NACA	ENSG00000196531	ENST00000546392	protein_coding	KNOWN	CCDS31837	7629	648	215	57106288	57119138	-1	None	NACA1
12	NACA	ENSG00000196531	ENST00000547914	nonsense_mediated_decay	KNOWN	None	7629	219	72	57106320	57119082	-1	None	NACA1
12	NACA	ENSG00000196531	ENST00000546410	retained_intron	KNOWN	None	7629	None	None	57106428	57107180	-1	None	NACA1
12	NACA	ENSG00000196531	ENST00000549259	protein_coding	KNOWN	None	7629	594	197	57106609	57118703	-1	None	NACA1
12	NACA	ENSG00000196531	ENST00000551775	processed_transcript	KNOWN	None	7629	None	None	57106848	57119088	-1	None	NACA1
12	NACA	ENSG00000196531	ENST00000552055	protein_coding	PUTATIVE	None	7629	444	147	57106900	57118820	-1	None	NACA1
12	NACA	ENSG00000196531	ENST00000546862	protein_coding	PUTATIVE	None	7629	214	70	57106905	57119069	-1	None	NACA1
12	NACA	ENSG00000196531	ENST00000549855	protein_coding	KNOWN	None	7629	379	125	57107323	57125412	-1	None	NACA1
12	NACA	ENSG00000196531	ENST00000551793	processed_transcript	KNOWN	None	7629	None	None	57107653	57119085	-1	None	NACA1
12	NACA	ENSG00000196531	ENST00000551520	retained_intron	KNOWN	None	7629	None	None	57108033	57119079	-1	None	NACA1
12	NACA	ENSG00000196531	ENST00000550343	processed_transcript	PUTATIVE	None	7629	None	None	57108037	57108541	-1	None	NACA1
12	NACA	ENSG00000196531	ENST00000548084	nonsense_mediated_decay	KNOWN	None	7629	105	34	57108165	57119054	-1	None	NACA1
12	NACA	ENSG00000196531	ENST00000546917	protein_coding	KNOWN	None	7629	17	4	57118289	57119300	-1	None	NACA1
12	NACA	ENSG00000196531	ENST00000454682	protein_coding	KNOWN	None	7629	6237	2078	57106212	57119326	-1	None	NACA1
1	None	ENSG00000227637	ENST00000450108	antisense	KNOWN	None	None	None	None	29479001	29479503	1	None	None
10	HSPA12A	ENSG00000165868	ENST00000369209	protein_coding	KNOWN	CCDS41569	19022	2028	675	118430703	118502085	-1	None	FLJ13874, KIAA0417
10	HSPA12A	ENSG00000165868	ENST00000480802	protein_coding	PUTATIVE	None	19022	360	119	118442967	118451978	-1	None	FLJ13874, KIAA0417
10	HSPA12A	ENSG00000165868	ENST00000481291	retained_intron	KNOWN	None	19022	None	None	118457655	118460596	-1	None	FLJ13874, KIAA0417
10	HSPA12A	ENSG00000165868	ENST00000468935	protein_coding	PUTATIVE	None	19022	409	135	118460465	118467757	-1	None	FLJ13874, KIAA0417
HSCHR6_MHC_COX	OR10C1	ENSG00000224234	ENST00000437403	protein_coding	KNOWN	None	8165	939	312	29403657	29405305	1	OR10C2	hs6M1-17, OR10C1P
HSCHR6_MHC_COX	OR10C1	ENSG00000224234	ENST00000551349	protein_coding	KNOWN	None	8165	885	294	29381648	29405272	1	OR10C2	hs6M1-17, OR10C1P
1	None	ENSG00000237934	ENST00000427046	antisense	KNOWN	None	None	None	None	29550445	29551328	1	None	None
20	C20orf144	ENSG00000149609	ENST00000375222	protein_coding	KNOWN	CCDS13223	16137	462	153	32250090	32251720	1	None	dJ63M2.6, bclt
20	C20orf144	ENSG00000149609	ENST00000607738	retained_intron	KNOWN	None	16137	None	None	32251172	32253425	1	None	dJ63M2.6, bclt
6	NUP43	ENSG00000120253	ENST00000340413	protein_coding	KNOWN	CCDS5218	21182	1143	380	150045451	150067708	-1	None	bA350J20.1, FLJ13287
6	NUP43	ENSG00000120253	ENST00000367404	protein_coding	NOVEL	None	21182	855	284	150047904	150067664	-1	None	bA350J20.1, FLJ13287
6	NUP43	ENSG00000120253	ENST00000403890	nonsense_mediated_decay	KNOWN	None	21182	354	117	150052534	150067696	-1	None	bA350J20.1, FLJ13287
6	NUP43	ENSG00000120253	ENST00000367402	nonsense_mediated_decay	KNOWN	None	21182	564	187	150052701	150067688	-1	None	bA350J20.1, FLJ13287
6	NUP43	ENSG00000120253	ENST00000543637	protein_coding	NOVEL	None	21182	536	177	150059902	150067671	-1	None	bA350J20.1, FLJ13287
6	NUP43	ENSG00000120253	ENST00000463048	processed_transcript	KNOWN	None	21182	None	None	150064774	150070801	-1	None	bA350J20.1, FLJ13287
6	NUP43	ENSG00000120253	ENST00000460354	protein_coding	KNOWN	CCDS5218	21182	1143	380	150045454	150067658	-1	None	bA350J20.1, FLJ13287
6	NUP43	ENSG00000120253	ENST00000367403	protein_coding	KNOWN	None	21182	747	248	150045459	150067814	-1	None	bA350J20.1, FLJ13287
16	None	ENSG00000260281	ENST00000564705	antisense	KNOWN	None	None	None	None	47178234	47196658	1	None	None
16	None	ENSG00000260281	ENST00000565694	antisense	KNOWN	None	None	None	None	47178355	47196647	1	None	None
17	SLC5A10	ENSG00000154025	ENST00000317977	protein_coding	KNOWN	None	23155	1701	566	18853658	18925908	1	None	SGLT5
17	SLC5A10	ENSG00000154025	ENST00000395647	protein_coding	KNOWN	CCDS11201	23155	1839	612	18855478	18924004	1	None	SGLT5
17	SLC5A10	ENSG00000154025	ENST00000395643	protein_coding	KNOWN	CCDS59278	23155	1710	569	18855501	18923998	1	None	SGLT5
17	SLC5A10	ENSG00000154025	ENST00000395645	protein_coding	KNOWN	CCDS42275	23155	1791	596	18855501	18924004	1	None	SGLT5
17	SLC5A10	ENSG00000154025	ENST00000584658	retained_intron	KNOWN	None	23155	None	None	18920954	18923042	1	None	SGLT5
17	SLC5A10	ENSG00000154025	ENST00000417251	protein_coding	KNOWN	CCDS59277	23155	1683	560	18855492	18923925	1	None	SGLT5
17	SLC5A10	ENSG00000154025	ENST00000395642	protein_coding	KNOWN	None	23155	1701	566	18855478	18924003	1	None	SGLT5
6	MAS1LP1	ENSG00000230164	ENST00000419416	unprocessed_pseudogene	KNOWN	None	33448	None	None	29442802	29443848	-1	MAS1LP	OTTHUMG00000086553
20	RBCK1	ENSG00000125826	ENST00000411647	protein_coding	KNOWN	None	15864	352	116	388142	398466	1	C20orf18	RBCK2, XAP4, RNF54, ZRANB4, UBCE7IP3, HOIL1
20	RBCK1	ENSG00000125826	ENST00000465226	processed_transcript	KNOWN	None	15864	None	None	388184	389395	1	C20orf18	RBCK2, XAP4, RNF54, ZRANB4, UBCE7IP3, HOIL1
20	RBCK1	ENSG00000125826	ENST00000382214	nonsense_mediated_decay	KNOWN	None	15864	1011	336	388694	411610	1	C20orf18	RBCK2, XAP4, RNF54, ZRANB4, UBCE7IP3, HOIL1
20	RBCK1	ENSG00000125826	ENST00000356286	protein_coding	KNOWN	CCDS13000	15864	1533	510	388697	411610	1	C20orf18	RBCK2, XAP4, RNF54, ZRANB4, UBCE7IP3, HOIL1
20	RBCK1	ENSG00000125826	ENST00000415942	nonsense_mediated_decay	KNOWN	None	15864	819	272	388697	411610	1	C20orf18	RBCK2, XAP4, RNF54, ZRANB4, UBCE7IP3, HOIL1
20	RBCK1	ENSG00000125826	ENST00000475269	protein_coding	PUTATIVE	None	15864	318	105	388722	391408	1	C20orf18	RBCK2, XAP4, RNF54, ZRANB4, UBCE7IP3, HOIL1
20	RBCK1	ENSG00000125826	ENST00000441733	protein_coding	NOVEL	None	15864	350	115	388791	398467	1	C20orf18	RBCK2, XAP4, RNF54, ZRANB4, UBCE7IP3, HOIL1
20	RBCK1	ENSG00000125826	ENST00000353660	protein_coding	KNOWN	CCDS12998	15864	1407	468	388815	411610	1	C20orf18	RBCK2, XAP4, RNF54, ZRANB4, UBCE7IP3, HOIL1
20	RBCK1	ENSG00000125826	ENST00000400245	processed_transcript	KNOWN	None	15864	None	None	388949	391408	1	C20orf18	RBCK2, XAP4, RNF54, ZRANB4, UBCE7IP3, HOIL1
20	RBCK1	ENSG00000125826	ENST00000382181	protein_coding	PUTATIVE	None	15864	1023	340	388957	411610	1	C20orf18	RBCK2, XAP4, RNF54, ZRANB4, UBCE7IP3, HOIL1
20	RBCK1	ENSG00000125826	ENST00000400247	protein_coding	PUTATIVE	None	15864	192	63	388987	391408	1	C20orf18	RBCK2, XAP4, RNF54, ZRANB4, UBCE7IP3, HOIL1
20	RBCK1	ENSG00000125826	ENST00000414880	protein_coding	NOVEL	None	15864	765	254	390528	400286	1	C20orf18	RBCK2, XAP4, RNF54, ZRANB4, UBCE7IP3, HOIL1
20	RBCK1	ENSG00000125826	ENST00000468272	retained_intron	KNOWN	None	15864	None	None	402798	411610	1	C20orf18	RBCK2, XAP4, RNF54, ZRANB4, UBCE7IP3, HOIL1
HSCHR5_1_CTG1	None	ENSG00000263113	ENST00000573091	processed_transcript	PUTATIVE	None	None	None	None	69050904	69058342	-1	None	None
HSCHR5_1_CTG1	None	ENSG00000263113	ENST00000575178	processed_transcript	PUTATIVE	None	None	None	None	69051069	69069858	-1	None	None
HSCHR5_1_CTG1	None	ENSG00000263113	ENST00000576853	processed_transcript	KNOWN	None	None	None	None	69060377	69144625	-1	None	None
HSCHR5_1_CTG1	None	ENSG00000263113	ENST00000571807	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	69132231	69138026	-1	None	None
6	RPS17P1	ENSG00000213900	ENST00000396783	processed_pseudogene	KNOWN	None	13982	None	None	29457048	29457453	-1	None	RPS17p, dJ994E9.1
2	OSR1	ENSG00000143867	ENST00000272223	protein_coding	KNOWN	CCDS1694	8111	801	266	19551246	19558414	-1	ODD	None
2	OSR1	ENSG00000143867	ENST00000487581	retained_intron	KNOWN	None	8111	None	None	19551773	19556673	-1	ODD	None
2	OSR1	ENSG00000143867	ENST00000498844	processed_transcript	PUTATIVE	None	8111	None	None	19557467	19558384	-1	ODD	None
2	OSR1	ENSG00000143867	ENST00000536433	protein_coding	KNOWN	CCDS1694	8111	801	266	19551773	19556677	-1	ODD	None
14	TRDV3	ENSG00000256590	ENST00000535880	TR_V_gene	KNOWN	None	12264	341	112	22938033	22938690	-1	None	hDV103S1
6	None	ENSG00000229274	ENST00000436804	lincRNA	KNOWN	None	None	None	None	29465286	29478333	1	None	None
Y	USP9YP2	ENSG00000249501	ENST00000504503	unprocessed_pseudogene	KNOWN	None	31742	None	None	20938165	20941313	-1	None	None
1	None	ENSG00000221550	ENST00000408623	miRNA	NOVEL	None	None	None	None	29580054	29580195	-1	None	None
12	SART3	ENSG00000075856	ENST00000228284	protein_coding	KNOWN	CCDS9117	16860	2892	963	108916357	108955165	-1	None	KIAA0156, RP11-13G14, TIP110, p110
12	SART3	ENSG00000075856	ENST00000546728	nonsense_mediated_decay	KNOWN	None	16860	1095	364	108916485	108954937	-1	None	KIAA0156, RP11-13G14, TIP110, p110
12	SART3	ENSG00000075856	ENST00000431469	protein_coding	NOVEL	None	16860	2784	927	108917189	108954935	-1	None	KIAA0156, RP11-13G14, TIP110, p110
12	SART3	ENSG00000075856	ENST00000547397	protein_coding	PUTATIVE	None	16860	435	144	108917646	108919962	-1	None	KIAA0156, RP11-13G14, TIP110, p110
12	SART3	ENSG00000075856	ENST00000546815	protein_coding	NOVEL	None	16860	2313	770	108919987	108954935	-1	None	KIAA0156, RP11-13G14, TIP110, p110
12	SART3	ENSG00000075856	ENST00000548582	retained_intron	KNOWN	None	16860	None	None	108923987	108926393	-1	None	KIAA0156, RP11-13G14, TIP110, p110
12	SART3	ENSG00000075856	ENST00000547528	nonsense_mediated_decay	KNOWN	None	16860	918	305	108923987	108954936	-1	None	KIAA0156, RP11-13G14, TIP110, p110
12	SART3	ENSG00000075856	ENST00000547196	retained_intron	KNOWN	None	16860	None	None	108924981	108925744	-1	None	KIAA0156, RP11-13G14, TIP110, p110
12	SART3	ENSG00000075856	ENST00000546808	retained_intron	KNOWN	None	16860	None	None	108924981	108929349	-1	None	KIAA0156, RP11-13G14, TIP110, p110
12	SART3	ENSG00000075856	ENST00000548077	retained_intron	KNOWN	None	16860	None	None	108925001	108931471	-1	None	KIAA0156, RP11-13G14, TIP110, p110
12	SART3	ENSG00000075856	ENST00000548119	retained_intron	KNOWN	None	16860	None	None	108930882	108931908	-1	None	KIAA0156, RP11-13G14, TIP110, p110
12	SART3	ENSG00000075856	ENST00000550322	protein_coding	PUTATIVE	None	16860	469	155	108936845	108943104	-1	None	KIAA0156, RP11-13G14, TIP110, p110
12	SART3	ENSG00000075856	ENST00000551416	retained_intron	KNOWN	None	16860	None	None	108936888	108938720	-1	None	KIAA0156, RP11-13G14, TIP110, p110
12	SART3	ENSG00000075856	ENST00000550619	protein_coding	PUTATIVE	None	16860	333	110	108938915	108947974	-1	None	KIAA0156, RP11-13G14, TIP110, p110
12	SART3	ENSG00000075856	ENST00000552221	processed_transcript	KNOWN	None	16860	None	None	108939065	108954944	-1	None	KIAA0156, RP11-13G14, TIP110, p110
12	SART3	ENSG00000075856	ENST00000546611	protein_coding	KNOWN	None	16860	390	129	108953993	108955176	-1	None	KIAA0156, RP11-13G14, TIP110, p110
16	None	ENSG00000260472	ENST00000563247	processed_pseudogene	KNOWN	None	None	None	None	31708718	31708928	-1	None	None
19	DAZAP1	ENSG00000071626	ENST00000336761	protein_coding	NOVEL	CCDS12066	2683	1137	378	1407568	1435719	1	None	MGC19907
19	DAZAP1	ENSG00000071626	ENST00000233078	protein_coding	KNOWN	CCDS12065	2683	1224	407	1407612	1435686	1	None	MGC19907
19	DAZAP1	ENSG00000071626	ENST00000586579	processed_transcript	KNOWN	None	2683	None	None	1407676	1428902	1	None	MGC19907
19	DAZAP1	ENSG00000071626	ENST00000592522	nonsense_mediated_decay	KNOWN	None	2683	114	37	1407707	1422422	1	None	MGC19907
19	DAZAP1	ENSG00000071626	ENST00000592453	protein_coding	NOVEL	None	2683	675	224	1407734	1430006	1	None	MGC19907
19	DAZAP1	ENSG00000071626	ENST00000590419	processed_transcript	KNOWN	None	2683	None	None	1409823	1418708	1	None	MGC19907
19	DAZAP1	ENSG00000071626	ENST00000587833	processed_transcript	KNOWN	None	2683	None	None	1415739	1421231	1	None	MGC19907
19	DAZAP1	ENSG00000071626	ENST00000589484	retained_intron	KNOWN	None	2683	None	None	1415969	1435680	1	None	MGC19907
19	DAZAP1	ENSG00000071626	ENST00000585485	retained_intron	KNOWN	None	2683	None	None	1426348	1435680	1	None	MGC19907
19	DAZAP1	ENSG00000071626	ENST00000587079	protein_coding	PUTATIVE	None	2683	620	205	1428896	1435361	1	None	MGC19907
19	DAZAP1	ENSG00000071626	ENST00000589874	retained_intron	KNOWN	None	2683	None	None	1432042	1435675	1	None	MGC19907
19	DAZAP1	ENSG00000071626	ENST00000591999	protein_coding	NOVEL	None	2683	90	29	1433737	1435029	1	None	MGC19907
1	None	ENSG00000230523	ENST00000417651	lincRNA	KNOWN	None	None	None	None	29656132	29676626	-1	None	None
6	None	ENSG00000224582	ENST00000434657	antisense	KNOWN	None	None	None	None	29497197	29501345	1	None	None
6	None	ENSG00000224582	ENST00000445296	antisense	KNOWN	None	None	None	None	29497253	29499934	1	None	None
1	None	ENSG00000266678	ENST00000580128	miRNA	NOVEL	None	None	None	None	29758993	29759074	1	None	None
Y	TCEB1P14	ENSG00000228193	ENST00000428070	processed_pseudogene	KNOWN	None	38150	None	None	20949636	20949966	1	None	None
16	None	ENSG00000260568	ENST00000563338	lincRNA	KNOWN	None	None	None	None	31710997	31711786	-1	None	None
8	ASAH1	ENSG00000104763	ENST00000262097	protein_coding	KNOWN	CCDS6006	735	1188	395	17913934	17941879	-1	ASAH	AC, PHP32, FLJ21558
8	ASAH1	ENSG00000104763	ENST00000381733	protein_coding	KNOWN	CCDS6005	735	1236	411	17913935	17942477	-1	ASAH	AC, PHP32, FLJ21558
8	ASAH1	ENSG00000104763	ENST00000520781	protein_coding	NOVEL	None	735	1113	370	17913961	17941879	-1	ASAH	AC, PHP32, FLJ21558
8	ASAH1	ENSG00000104763	ENST00000314146	protein_coding	KNOWN	CCDS47813	735	1170	389	17914707	17942494	-1	ASAH	AC, PHP32, FLJ21558
8	ASAH1	ENSG00000104763	ENST00000519468	processed_transcript	KNOWN	None	735	None	None	17917081	17941573	-1	ASAH	AC, PHP32, FLJ21558
8	ASAH1	ENSG00000104763	ENST00000521542	retained_intron	KNOWN	None	735	None	None	17917153	17919383	-1	ASAH	AC, PHP32, FLJ21558
8	ASAH1	ENSG00000104763	ENST00000518746	retained_intron	KNOWN	None	735	None	None	17918909	17919714	-1	ASAH	AC, PHP32, FLJ21558
8	ASAH1	ENSG00000104763	ENST00000523593	processed_transcript	KNOWN	None	735	None	None	17919192	17941598	-1	ASAH	AC, PHP32, FLJ21558
8	ASAH1	ENSG00000104763	ENST00000519545	processed_transcript	KNOWN	None	735	None	None	17919788	17933777	-1	ASAH	AC, PHP32, FLJ21558
8	ASAH1	ENSG00000104763	ENST00000517409	retained_intron	KNOWN	None	735	None	None	17919793	17921133	-1	ASAH	AC, PHP32, FLJ21558
8	ASAH1	ENSG00000104763	ENST00000523744	retained_intron	KNOWN	None	735	None	None	17920692	17922425	-1	ASAH	AC, PHP32, FLJ21558
8	ASAH1	ENSG00000104763	ENST00000518087	retained_intron	KNOWN	None	735	None	None	17924272	17941615	-1	ASAH	AC, PHP32, FLJ21558
8	ASAH1	ENSG00000104763	ENST00000520051	processed_transcript	KNOWN	None	735	None	None	17928818	17942453	-1	ASAH	AC, PHP32, FLJ21558
8	ASAH1	ENSG00000104763	ENST00000417108	protein_coding	KNOWN	None	735	918	305	17913961	17941603	-1	ASAH	AC, PHP32, FLJ21558
16	RPL23AP72	ENSG00000239840	ENST00000492447	processed_pseudogene	KNOWN	None	35736	None	None	47184043	47184477	-1	None	None
4	ST3GAL1P1	ENSG00000250656	ENST00000513810	processed_pseudogene	KNOWN	None	45174	None	None	68582093	68583106	-1	None	None
Y	PRYP6	ENSG00000248573	ENST00000514804	unprocessed_pseudogene	KNOWN	None	38786	None	None	20952595	20952937	-1	None	None
13	OR7E104P	ENSG00000215432	ENST00000400311	processed_pseudogene	KNOWN	None	15343	None	None	64411166	64411589	1	None	None
HSCHR5_1_CTG1	None	ENSG00000262391	ENST00000576245	lincRNA	KNOWN	None	None	None	None	69054485	69055468	-1	None	None
2	IL18R1	ENSG00000115604	ENST00000410040	protein_coding	KNOWN	CCDS2060	5988	1626	541	102927989	103013346	1	None	IL1RRP, IL-1Rrp, CD218a
2	IL18R1	ENSG00000115604	ENST00000409599	protein_coding	KNOWN	CCDS2060	5988	1626	541	102972389	103015218	1	None	IL1RRP, IL-1Rrp, CD218a
2	IL18R1	ENSG00000115604	ENST00000466357	retained_intron	KNOWN	None	5988	None	None	102972505	102979376	1	None	IL1RRP, IL-1Rrp, CD218a
2	IL18R1	ENSG00000115604	ENST00000233957	protein_coding	KNOWN	CCDS2060	5988	1626	541	102979097	103015218	1	None	IL1RRP, IL-1Rrp, CD218a
2	IL18R1	ENSG00000115604	ENST00000334376	protein_coding	KNOWN	None	5988	513	170	102979121	102990441	1	None	IL1RRP, IL-1Rrp, CD218a
20	ACTL10	ENSG00000182584	ENST00000330271	protein_coding	PUTATIVE	CCDS33463	16127	738	245	32254304	32256331	1	C20orf134	None
X	NAP1L3	ENSG00000186310	ENST00000373079	protein_coding	KNOWN	CCDS14465	7639	1521	506	92925929	92928567	-1	None	MB20, NPL3, MGC26312
X	NAP1L3	ENSG00000186310	ENST00000475430	processed_transcript	KNOWN	None	7639	None	None	92925934	92928567	-1	None	MB20, NPL3, MGC26312
X	NAP1L3	ENSG00000186310	ENST00000485425	processed_transcript	KNOWN	None	7639	None	None	92927652	92928547	-1	None	MB20, NPL3, MGC26312
4	None	ENSG00000270228	ENST00000603040	processed_pseudogene	KNOWN	None	None	None	None	68584714	68589980	-1	None	None
Y	XKRYP2	ENSG00000230904	ENST00000432915	unprocessed_pseudogene	KNOWN	None	23909	None	None	20973224	20973715	-1	None	None
X	None	ENSG00000234463	ENST00000446748	processed_pseudogene	KNOWN	None	None	None	None	67865168	67865369	-1	None	None
12	ALDH1L2	ENSG00000136010	ENST00000549335	retained_intron	KNOWN	None	26777	None	None	105413568	105460383	-1	None	FLJ38508, mtFDH
12	ALDH1L2	ENSG00000136010	ENST00000258494	protein_coding	KNOWN	CCDS31891	26777	2772	923	105413568	105478355	-1	None	FLJ38508, mtFDH
12	ALDH1L2	ENSG00000136010	ENST00000552270	nonsense_mediated_decay	KNOWN	None	26777	612	203	105418202	105478236	-1	None	FLJ38508, mtFDH
12	ALDH1L2	ENSG00000136010	ENST00000548418	protein_coding	PUTATIVE	None	26777	277	91	105423848	105425713	-1	None	FLJ38508, mtFDH
12	ALDH1L2	ENSG00000136010	ENST00000552427	retained_intron	KNOWN	None	26777	None	None	105464298	105478222	-1	None	FLJ38508, mtFDH
12	ALDH1L2	ENSG00000136010	ENST00000424857	protein_coding	KNOWN	None	26777	1551	516	105444470	105478341	-1	None	FLJ38508, mtFDH
HSCHR6_MHC_SSTO	HLA-E	ENSG00000230254	ENST00000427936	protein_coding	KNOWN	None	4962	1077	358	30448676	30453414	1	None	None
HSCHR6_MHC_SSTO	HLA-E	ENSG00000230254	ENST00000462865	retained_intron	KNOWN	None	4962	None	None	30448719	30449574	1	None	None
HSCHR6_MHC_SSTO	HLA-E	ENSG00000230254	ENST00000467974	retained_intron	KNOWN	None	4962	None	None	30448721	30450492	1	None	None
16	None	ENSG00000260744	ENST00000563757	antisense	KNOWN	None	None	None	None	47230222	47236340	1	None	None
6	GPR53P	ENSG00000229281	ENST00000457298	unprocessed_pseudogene	KNOWN	None	4509	None	None	29505481	29506564	-1	None	PsiGPR53, dJ271M21.8
HSCHR5_1_CTG1	None	ENSG00000262989	ENST00000577150	lincRNA	KNOWN	None	None	None	None	69057393	69058099	-1	None	None
Y	USP9YP10	ENSG00000238135	ENST00000454868	unprocessed_pseudogene	KNOWN	None	38454	None	None	20987993	20991373	1	None	None
4	None	ENSG00000270292	ENST00000603790	processed_pseudogene	KNOWN	None	None	None	None	68590901	68592113	-1	None	None
4	None	ENSG00000202374	ENST00000365504	snoRNA	NOVEL	None	None	None	None	68612954	68613104	1	None	None
X	ACTR3P2	ENSG00000232267	ENST00000439585	processed_pseudogene	KNOWN	None	38676	None	None	67991165	67992421	1	None	None
HSCHR5_1_CTG1	None	ENSG00000262491	ENST00000575490	lincRNA	KNOWN	None	None	None	None	69062740	69064595	-1	None	None
16	DHX38	ENSG00000140829	ENST00000268482	protein_coding	KNOWN	CCDS10907	17211	3684	1227	72127461	72146811	1	DDX38	PRP16, KIAA0224, hPrp16, PRPF16
16	DHX38	ENSG00000140829	ENST00000566794	protein_coding	KNOWN	None	17211	414	137	72127512	72130811	1	DDX38	PRP16, KIAA0224, hPrp16, PRPF16
16	DHX38	ENSG00000140829	ENST00000579387	nonsense_mediated_decay	KNOWN	None	17211	429	142	72127746	72146802	1	DDX38	PRP16, KIAA0224, hPrp16, PRPF16
16	DHX38	ENSG00000140829	ENST00000566489	protein_coding	KNOWN	None	17211	369	122	72127823	72130766	1	DDX38	PRP16, KIAA0224, hPrp16, PRPF16
16	DHX38	ENSG00000140829	ENST00000564307	retained_intron	KNOWN	None	17211	None	None	72130826	72133725	1	DDX38	PRP16, KIAA0224, hPrp16, PRPF16
16	DHX38	ENSG00000140829	ENST00000563650	retained_intron	KNOWN	None	17211	None	None	72131211	72133787	1	DDX38	PRP16, KIAA0224, hPrp16, PRPF16
16	DHX38	ENSG00000140829	ENST00000566329	retained_intron	KNOWN	None	17211	None	None	72134981	72137820	1	DDX38	PRP16, KIAA0224, hPrp16, PRPF16
16	DHX38	ENSG00000140829	ENST00000569935	retained_intron	KNOWN	None	17211	None	None	72137000	72138453	1	DDX38	PRP16, KIAA0224, hPrp16, PRPF16
16	DHX38	ENSG00000140829	ENST00000562774	protein_coding	PUTATIVE	None	17211	387	128	72138385	72146807	1	DDX38	PRP16, KIAA0224, hPrp16, PRPF16
16	DHX38	ENSG00000140829	ENST00000563819	protein_coding	NOVEL	None	17211	564	187	72142195	72146538	1	DDX38	PRP16, KIAA0224, hPrp16, PRPF16
16	DHX38	ENSG00000140829	ENST00000564622	retained_intron	KNOWN	None	17211	None	None	72142196	72142777	1	DDX38	PRP16, KIAA0224, hPrp16, PRPF16
16	DHX38	ENSG00000140829	ENST00000567552	retained_intron	KNOWN	None	17211	None	None	72142253	72146549	1	DDX38	PRP16, KIAA0224, hPrp16, PRPF16
16	DHX38	ENSG00000140829	ENST00000567142	protein_coding	KNOWN	None	17211	575	190	72142271	72146808	1	DDX38	PRP16, KIAA0224, hPrp16, PRPF16
16	DHX38	ENSG00000140829	ENST00000569952	retained_intron	KNOWN	None	17211	None	None	72142529	72143655	1	DDX38	PRP16, KIAA0224, hPrp16, PRPF16
16	DHX38	ENSG00000140829	ENST00000536867	protein_coding	KNOWN	None	17211	1620	539	72127746	72146802	1	DDX38	PRP16, KIAA0224, hPrp16, PRPF16
4	TMPRSS11CP	ENSG00000232398	ENST00000453277	unprocessed_pseudogene	KNOWN	None	31934	None	None	68632198	68639572	-1	None	None
13	None	ENSG00000272299	ENST00000606894	lincRNA	KNOWN	None	None	None	None	64411428	64412164	-1	None	None
16	CLUHP3	ENSG00000131797	ENST00000254109	processed_transcript	KNOWN	None	28447	None	None	31711911	31718758	1	C16orf67, KIAA0664P3, KIAA0664L3	MGC3020
16	CLUHP3	ENSG00000131797	ENST00000525610	processed_transcript	KNOWN	None	28447	None	None	31711916	31718743	1	C16orf67, KIAA0664P3, KIAA0664L3	MGC3020
16	CLUHP3	ENSG00000131797	ENST00000532304	processed_transcript	KNOWN	None	28447	None	None	31711956	31718758	1	C16orf67, KIAA0664P3, KIAA0664L3	MGC3020
16	CLUHP3	ENSG00000131797	ENST00000563678	transcribed_unprocessed_pseudogene	KNOWN	None	28447	None	None	31714489	31719902	1	C16orf67, KIAA0664P3, KIAA0664L3	MGC3020
16	CLUHP3	ENSG00000131797	ENST00000411844	retained_intron	KNOWN	None	28447	None	None	31715601	31717339	1	C16orf67, KIAA0664P3, KIAA0664L3	MGC3020
16	CLUHP3	ENSG00000131797	ENST00000431761	processed_transcript	PUTATIVE	None	28447	None	None	31716991	31718672	1	C16orf67, KIAA0664P3, KIAA0664L3	MGC3020
16	CLUHP3	ENSG00000131797	ENST00000562354	processed_transcript	KNOWN	None	28447	None	None	31718284	31721097	1	C16orf67, KIAA0664P3, KIAA0664L3	MGC3020
15	CASC4	ENSG00000166734	ENST00000559222	protein_coding	PUTATIVE	None	24892	338	111	44580927	44630079	1	None	H63, DKFZp459F1927
15	CASC4	ENSG00000166734	ENST00000557945	nonsense_mediated_decay	KNOWN	None	24892	534	177	44580929	44641116	1	None	H63, DKFZp459F1927
15	CASC4	ENSG00000166734	ENST00000299957	protein_coding	KNOWN	CCDS10108	24892	1311	436	44580929	44707956	1	None	H63, DKFZp459F1927
15	CASC4	ENSG00000166734	ENST00000429162	processed_transcript	KNOWN	None	24892	None	None	44580936	44600734	1	None	H63, DKFZp459F1927
15	CASC4	ENSG00000166734	ENST00000345795	protein_coding	KNOWN	CCDS10109	24892	1143	380	44580958	44707955	1	None	H63, DKFZp459F1927
15	CASC4	ENSG00000166734	ENST00000558735	nonsense_mediated_decay	KNOWN	None	24892	248	81	44581303	44624257	1	None	H63, DKFZp459F1927
15	CASC4	ENSG00000166734	ENST00000559037	processed_transcript	KNOWN	None	24892	None	None	44620898	44638347	1	None	H63, DKFZp459F1927
15	CASC4	ENSG00000166734	ENST00000558847	protein_coding	NOVEL	None	24892	485	160	44629962	44705741	1	None	H63, DKFZp459F1927
15	CASC4	ENSG00000166734	ENST00000559550	processed_transcript	PUTATIVE	None	24892	None	None	44673062	44674427	1	None	H63, DKFZp459F1927
15	CASC4	ENSG00000166734	ENST00000561305	protein_coding	KNOWN	None	24892	75	24	44695249	44706959	1	None	H63, DKFZp459F1927
15	CASC4	ENSG00000166734	ENST00000559151	processed_transcript	PUTATIVE	None	24892	None	None	44698528	44702045	1	None	H63, DKFZp459F1927
15	CASC4	ENSG00000166734	ENST00000360824	protein_coding	KNOWN	None	24892	534	177	44580958	44707955	1	None	H63, DKFZp459F1927
20	None	ENSG00000264490	ENST00000583223	lincRNA	KNOWN	None	None	None	None	61172797	61174714	1	None	None
20	None	ENSG00000264490	ENST00000593307	lincRNA	KNOWN	None	None	None	None	61172804	61174520	1	None	None
16	None	ENSG00000261390	ENST00000562921	lincRNA	KNOWN	None	None	None	None	79750622	79804460	-1	None	None
16	None	ENSG00000261390	ENST00000567993	lincRNA	KNOWN	None	None	None	None	79755209	79804429	-1	None	None
16	None	ENSG00000261390	ENST00000566729	lincRNA	KNOWN	None	None	None	None	79784589	79804460	-1	None	None
16	None	ENSG00000261390	ENST00000568389	lincRNA	KNOWN	None	None	None	None	79787283	79804198	-1	None	None
13	NFYAP1	ENSG00000237849	ENST00000431953	processed_pseudogene	KNOWN	None	34078	None	None	64549584	64550555	-1	NFYAP	None
7	RNA5SP231	ENSG00000222428	ENST00000410496	rRNA	KNOWN	None	43131	None	None	68188898	68189035	-1	RN5S231	None
7	S100A11P1	ENSG00000237632	ENST00000477525	processed_pseudogene	KNOWN	None	10491	None	None	102902447	102902758	1	S100A14, S100A11P	None
3	OXTR	ENSG00000180914	ENST00000316793	protein_coding	KNOWN	CCDS2570	8529	1170	389	8792094	8811303	-1	None	None
3	OXTR	ENSG00000180914	ENST00000449615	protein_coding	KNOWN	None	8529	276	91	8809598	8810363	-1	None	None
3	OXTR	ENSG00000180914	ENST00000431493	protein_coding	KNOWN	None	8529	130	42	8809744	8811314	-1	None	None
3	OXTR	ENSG00000180914	ENST00000474615	retained_intron	KNOWN	None	8529	None	None	8810129	8811299	-1	None	None
20	E2F1	ENSG00000101412	ENST00000343380	protein_coding	KNOWN	CCDS13224	3113	1314	437	32263489	32274210	-1	RBBP3	RBP3
22	None	ENSG00000216522	ENST00000412874	unprocessed_pseudogene	KNOWN	None	None	None	None	20610447	20616201	1	None	None
HSCHR5_1_CTG1	None	ENSG00000262041	ENST00000573509	unprocessed_pseudogene	KNOWN	None	None	None	None	69062889	69063183	1	None	None
7	None	ENSG00000233689	ENST00000447158	lincRNA	KNOWN	None	None	None	None	68505139	68511790	1	None	None
HSCHR6_MHC_SSTO	HLA-DQB2	ENSG00000226165	ENST00000426733	protein_coding	KNOWN	None	4945	684	227	32814683	32822075	-1	HLA-DXB	None
HSCHR6_MHC_SSTO	HLA-DQB2	ENSG00000226165	ENST00000442806	protein_coding	KNOWN	None	4945	828	275	32814683	32822117	-1	HLA-DXB	None
HSCHR6_MHC_SSTO	HLA-DQB2	ENSG00000226165	ENST00000430668	protein_coding	KNOWN	None	4945	795	264	32814683	32822119	-1	HLA-DXB	None
HSCHR6_MHC_SSTO	HLA-DQB2	ENSG00000226165	ENST00000435081	protein_coding	KNOWN	None	4945	656	217	32814973	32822051	-1	HLA-DXB	None
HSCHR6_MHC_SSTO	HLA-DQB2	ENSG00000226165	ENST00000551426	protein_coding	KNOWN	None	4945	627	208	32814683	32822138	-1	HLA-DXB	None
7	None	ENSG00000235354	ENST00000452798	processed_pseudogene	KNOWN	None	None	None	None	102989048	102989218	1	None	None
Y	USP9YP28	ENSG00000224151	ENST00000435142	unprocessed_pseudogene	KNOWN	None	38764	None	None	20994888	21001199	-1	None	None
HSCHR5_1_CTG1	None	ENSG00000263336	ENST00000575808	lincRNA	KNOWN	None	None	None	None	69110379	69110816	-1	None	None
7	RNU6-832P	ENSG00000200189	ENST00000363319	snRNA	KNOWN	None	47795	None	None	68590257	68590363	1	None	None
4	TMPRSS11GP	ENSG00000229009	ENST00000431070	transcribed_unprocessed_pseudogene	KNOWN	None	42983	None	None	68857402	68881486	-1	None	None
4	TMPRSS11GP	ENSG00000229009	ENST00000502496	processed_transcript	KNOWN	None	42983	None	None	68857530	68863205	-1	None	None
7	None	ENSG00000236839	ENST00000413094	lincRNA	KNOWN	None	None	None	None	68652820	68654305	-1	None	None
7	CDK6	ENSG00000105810	ENST00000265734	protein_coding	KNOWN	CCDS5628	1777	981	326	92234235	92463231	-1	None	PLSTIRE
7	CDK6	ENSG00000105810	ENST00000467166	retained_intron	KNOWN	None	1777	None	None	92244028	92247591	-1	None	PLSTIRE
7	CDK6	ENSG00000105810	ENST00000424848	protein_coding	KNOWN	CCDS5628	1777	981	326	92244454	92465908	-1	None	PLSTIRE
7	CDK6	ENSG00000105810	ENST00000473078	retained_intron	KNOWN	None	1777	None	None	92300549	92355024	-1	None	PLSTIRE
7	CDK6	ENSG00000105810	ENST00000491250	processed_transcript	KNOWN	None	1777	None	None	92462717	92464611	-1	None	PLSTIRE
13	LINC00355	ENSG00000227674	ENST00000456627	lincRNA	KNOWN	None	27061	None	None	64560504	64650144	-1	None	None
HSCHR5_1_CTG1	None	ENSG00000262957	ENST00000574698	lincRNA	KNOWN	None	None	None	None	69122191	69122773	-1	None	None
X	SERBP1P1	ENSG00000213740	ENST00000396021	processed_pseudogene	KNOWN	None	32247	None	None	68003315	68004909	1	SERBP1P	None
X	RPS15AP40	ENSG00000233921	ENST00000419621	processed_pseudogene	KNOWN	None	36041	None	None	36392908	36393298	-1	None	None
7	None	ENSG00000265655	ENST00000580240	miRNA	NOVEL	None	None	None	None	68655128	68655211	-1	None	None
11	TTC17	ENSG00000052841	ENST00000299240	protein_coding	KNOWN	None	25596	2871	956	43380482	43468269	1	None	FLJ10890
11	TTC17	ENSG00000052841	ENST00000039989	protein_coding	KNOWN	CCDS31466	25596	3426	1141	43380491	43516483	1	None	FLJ10890
11	TTC17	ENSG00000052841	ENST00000534347	nonsense_mediated_decay	KNOWN	None	25596	165	54	43380504	43413420	1	None	FLJ10890
11	TTC17	ENSG00000052841	ENST00000530469	retained_intron	KNOWN	None	25596	None	None	43400808	43413338	1	None	FLJ10890
11	TTC17	ENSG00000052841	ENST00000526774	processed_transcript	KNOWN	None	25596	None	None	43417686	43468094	1	None	FLJ10890
11	TTC17	ENSG00000052841	ENST00000524936	retained_intron	KNOWN	None	25596	None	None	43418547	43419608	1	None	FLJ10890
11	TTC17	ENSG00000052841	ENST00000525029	non_stop_decay	KNOWN	None	25596	419	138	43419583	43423172	1	None	FLJ10890
11	TTC17	ENSG00000052841	ENST00000530483	retained_intron	KNOWN	None	25596	None	None	43425602	43427426	1	None	FLJ10890
11	TTC17	ENSG00000052841	ENST00000534417	retained_intron	KNOWN	None	25596	None	None	43457772	43466055	1	None	FLJ10890
11	TTC17	ENSG00000052841	ENST00000525135	retained_intron	KNOWN	None	25596	None	None	43469134	43513714	1	None	FLJ10890
11	TTC17	ENSG00000052841	ENST00000525543	retained_intron	KNOWN	None	25596	None	None	43470153	43516477	1	None	FLJ10890
11	TTC17	ENSG00000052841	ENST00000533554	processed_transcript	PUTATIVE	None	25596	None	None	43471688	43489913	1	None	FLJ10890
11	TTC17	ENSG00000052841	ENST00000418561	protein_coding	NOVEL	None	25596	518	171	43472730	43515511	1	None	FLJ10890
11	TTC17	ENSG00000052841	ENST00000529140	retained_intron	KNOWN	None	25596	None	None	43511347	43515633	1	None	FLJ10890
11	TTC17	ENSG00000052841	ENST00000533072	retained_intron	KNOWN	None	25596	None	None	43512268	43516483	1	None	FLJ10890
HSCHR5_1_CTG1	None	ENSG00000262932	ENST00000571792	processed_pseudogene	KNOWN	None	None	None	None	69145316	69148817	1	None	None
13	LGMNP1	ENSG00000214269	ENST00000441282	processed_pseudogene	KNOWN	None	23079	None	None	65532229	65533528	-1	LGMN2P	None
X	None	ENSG00000221729	ENST00000408802	miRNA	NOVEL	None	None	None	None	36595470	36595565	1	None	None
7	None	ENSG00000225718	ENST00000435148	lincRNA	KNOWN	None	None	None	None	68689683	68895909	-1	None	None
7	None	ENSG00000225718	ENST00000426356	lincRNA	KNOWN	None	None	None	None	68734765	68736993	-1	None	None
7	None	ENSG00000225718	ENST00000421513	lincRNA	KNOWN	None	None	None	None	68824068	68895857	-1	None	None
X	FAM133A	ENSG00000179083	ENST00000332647	protein_coding	KNOWN	CCDS14466	26748	747	248	92929205	92967261	1	None	RP1-32F7.2, FLJ37659, CT115
X	FAM133A	ENSG00000179083	ENST00000538690	protein_coding	KNOWN	CCDS14466	26748	747	248	92929012	92967273	1	None	RP1-32F7.2, FLJ37659, CT115
X	FAM133A	ENSG00000179083	ENST00000355813	protein_coding	KNOWN	CCDS14466	26748	747	248	92929012	92967273	1	None	RP1-32F7.2, FLJ37659, CT115
X	FAM133A	ENSG00000179083	ENST00000322139	protein_coding	KNOWN	CCDS14466	26748	747	248	92929012	92967273	1	None	RP1-32F7.2, FLJ37659, CT115
X	HMGN1P35	ENSG00000172186	ENST00000303758	processed_pseudogene	KNOWN	None	39379	None	None	68393967	68394560	1	None	None
X	None	ENSG00000249467	ENST00000508758	processed_pseudogene	KNOWN	None	None	None	None	36737991	36738294	1	None	None
17	COPS3	ENSG00000141030	ENST00000539941	protein_coding	NOVEL	CCDS56022	2239	1212	403	17150141	17184091	-1	None	SGN3, CSN3
17	COPS3	ENSG00000141030	ENST00000486032	retained_intron	KNOWN	None	2239	None	None	17150149	17151201	-1	None	SGN3, CSN3
17	COPS3	ENSG00000141030	ENST00000579716	protein_coding	NOVEL	None	2239	156	51	17150149	17152341	-1	None	SGN3, CSN3
17	COPS3	ENSG00000141030	ENST00000268717	protein_coding	KNOWN	CCDS11183	2239	1272	423	17150150	17184607	-1	None	SGN3, CSN3
17	COPS3	ENSG00000141030	ENST00000578317	nonsense_mediated_decay	KNOWN	None	2239	96	31	17150151	17184505	-1	None	SGN3, CSN3
17	COPS3	ENSG00000141030	ENST00000439936	protein_coding	PUTATIVE	None	2239	1038	345	17150188	17184014	-1	None	SGN3, CSN3
17	COPS3	ENSG00000141030	ENST00000463097	retained_intron	KNOWN	None	2239	None	None	17152263	17158369	-1	None	SGN3, CSN3
17	COPS3	ENSG00000141030	ENST00000471414	retained_intron	KNOWN	None	2239	None	None	17158201	17164010	-1	None	SGN3, CSN3
17	COPS3	ENSG00000141030	ENST00000486810	retained_intron	KNOWN	None	2239	None	None	17163616	17179380	-1	None	SGN3, CSN3
17	COPS3	ENSG00000141030	ENST00000577210	nonsense_mediated_decay	KNOWN	None	2239	63	20	17163619	17184500	-1	None	SGN3, CSN3
17	COPS3	ENSG00000141030	ENST00000417352	protein_coding	PUTATIVE	None	2239	956	317	17163688	17184553	-1	None	SGN3, CSN3
17	COPS3	ENSG00000141030	ENST00000584216	nonsense_mediated_decay	KNOWN	None	2239	324	107	17163712	17184587	-1	None	SGN3, CSN3
17	COPS3	ENSG00000141030	ENST00000583160	protein_coding	NOVEL	None	2239	365	120	17165280	17174290	-1	None	SGN3, CSN3
17	COPS3	ENSG00000141030	ENST00000492672	nonsense_mediated_decay	KNOWN	None	2239	96	31	17165312	17184560	-1	None	SGN3, CSN3
17	COPS3	ENSG00000141030	ENST00000477299	nonsense_mediated_decay	KNOWN	None	2239	351	116	17165334	17184560	-1	None	SGN3, CSN3
17	COPS3	ENSG00000141030	ENST00000577246	nonsense_mediated_decay	KNOWN	None	2239	63	20	17165360	17184587	-1	None	SGN3, CSN3
17	COPS3	ENSG00000141030	ENST00000495640	nonsense_mediated_decay	KNOWN	None	2239	53	16	17168174	17174121	-1	None	SGN3, CSN3
17	COPS3	ENSG00000141030	ENST00000462236	retained_intron	KNOWN	None	2239	None	None	17168248	17184474	-1	None	SGN3, CSN3
HSCHR5_1_CTG1	None	ENSG00000263035	ENST00000575263	processed_transcript	KNOWN	None	None	None	None	69151881	69194073	-1	None	None
HSCHR5_1_CTG1	None	ENSG00000263035	ENST00000573304	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	69152688	69158487	-1	None	None
16	GFOD2	ENSG00000141098	ENST00000602377	processed_transcript	KNOWN	None	28159	None	None	67708434	67753242	-1	None	FLJ23802, MGC11335
16	GFOD2	ENSG00000141098	ENST00000268797	protein_coding	KNOWN	CCDS10845	28159	1158	385	67708436	67753324	-1	None	FLJ23802, MGC11335
16	GFOD2	ENSG00000141098	ENST00000602522	retained_intron	KNOWN	None	28159	None	None	67708437	67711387	-1	None	FLJ23802, MGC11335
16	GFOD2	ENSG00000141098	ENST00000602627	processed_transcript	KNOWN	None	28159	None	None	67709803	67719515	-1	None	FLJ23802, MGC11335
16	GFOD2	ENSG00000141098	ENST00000602496	nonsense_mediated_decay	KNOWN	CCDS59268	28159	339	112	67714652	67753227	-1	None	FLJ23802, MGC11335
16	GFOD2	ENSG00000141098	ENST00000602279	retained_intron	KNOWN	None	28159	None	None	67714677	67717618	-1	None	FLJ23802, MGC11335
16	GFOD2	ENSG00000141098	ENST00000602855	processed_transcript	KNOWN	None	28159	None	None	67717183	67753233	-1	None	FLJ23802, MGC11335
6	NMBR	ENSG00000135577	ENST00000480652	processed_transcript	KNOWN	None	7843	None	None	142379467	142397059	-1	None	None
6	NMBR	ENSG00000135577	ENST00000258042	protein_coding	KNOWN	CCDS5196	7843	1173	390	142396745	142409936	-1	None	None
X	LINC00269	ENSG00000215162	ENST00000399711	lincRNA	KNOWN	None	26586	None	None	68399400	68429767	1	CXorf62, NCRNA00269	FLJ33610
X	None	ENSG00000235510	ENST00000421222	unprocessed_pseudogene	KNOWN	None	None	None	None	36975986	36976212	1	None	None
10	ENO4	ENSG00000188316	ENST00000409522	protein_coding	PUTATIVE	None	31670	927	308	118609023	118642038	1	C10orf134	AC023283.3
10	ENO4	ENSG00000188316	ENST00000512864	protein_coding	PUTATIVE	None	31670	415	137	118609094	118616139	1	C10orf134	AC023283.3
10	ENO4	ENSG00000188316	ENST00000369207	protein_coding	PUTATIVE	None	31670	1092	363	118618545	118671299	1	C10orf134	AC023283.3
10	ENO4	ENSG00000188316	ENST00000341276	protein_coding	KNOWN	None	31670	1887	628	118609023	118642017	1	C10orf134	AC023283.3
11	FANCF	ENSG00000183161	ENST00000327470	protein_coding	KNOWN	CCDS7857	3587	1125	374	22644079	22647387	-1	None	FAF
14	TRAJ61	ENSG00000211831	ENST00000390479	TR_J_gene	KNOWN	None	12094	60	19	22944306	22944365	1	None	None
22	None	ENSG00000223579	ENST00000577456	lincRNA	KNOWN	None	None	None	None	20632023	20656899	-1	None	None
22	None	ENSG00000223579	ENST00000414550	lincRNA	KNOWN	None	None	None	None	20632132	20656828	-1	None	None
22	None	ENSG00000223579	ENST00000428139	lincRNA	KNOWN	None	None	None	None	20640889	20656782	-1	None	None
22	None	ENSG00000223579	ENST00000412656	lincRNA	KNOWN	None	None	None	None	20640968	20661407	-1	None	None
X	None	ENSG00000223723	ENST00000453595	processed_pseudogene	KNOWN	None	None	None	None	36980269	36981498	-1	None	None
Y	RNU1-41P	ENSG00000251970	ENST00000516161	snRNA	KNOWN	None	48383	None	None	20995615	20995776	-1	None	None
HSCHR5_1_CTG1	None	ENSG00000262034	ENST00000570872	processed_pseudogene	KNOWN	None	None	None	None	69165769	69169270	1	None	None
Y	OFD1P7Y	ENSG00000238088	ENST00000454643	unprocessed_pseudogene	KNOWN	None	23879	None	None	21010150	21029166	1	OFDYP7, OFD1P7, OFD1PY7	None
2	TTC32	ENSG00000183891	ENST00000402414	protein_coding	PUTATIVE	None	32954	159	52	20096404	20101717	-1	None	None
2	TTC32	ENSG00000183891	ENST00000333610	protein_coding	KNOWN	CCDS33151	32954	456	151	20096514	20101747	-1	None	None
2	TTC32	ENSG00000183891	ENST00000495698	retained_intron	KNOWN	None	32954	None	None	20096787	20098238	-1	None	None
2	TTC32	ENSG00000183891	ENST00000431392	protein_coding	PUTATIVE	None	32954	259	85	20097630	20101402	-1	None	None
HSCHR5_1_CTG1	None	ENSG00000263330	ENST00000577045	processed_transcript	KNOWN	None	None	None	None	69359870	69409658	1	None	None
HSCHR5_1_CTG1	None	ENSG00000263330	ENST00000570736	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	69391102	69430017	1	None	None
9	MIR4292	ENSG00000265806	ENST00000585012	miRNA	KNOWN	None	38348	None	None	139725409	139725475	1	None	hsa-mir-4292
2	SULT6B1	ENSG00000138068	ENST00000407963	protein_coding	KNOWN	CCDS33182	33433	798	265	37395078	37423741	-1	None	None
2	SULT6B1	ENSG00000138068	ENST00000420611	protein_coding	KNOWN	None	33433	50	15	37415620	37417088	-1	None	None
2	SULT6B1	ENSG00000138068	ENST00000416345	protein_coding	KNOWN	None	33433	50	15	37415620	37423225	-1	None	None
2	SULT6B1	ENSG00000138068	ENST00000433192	protein_coding	KNOWN	None	33433	50	15	37415620	37423716	-1	None	None
2	SULT6B1	ENSG00000138068	ENST00000535679	protein_coding	KNOWN	None	33433	912	303	37394963	37415783	-1	None	None
2	SULT6B1	ENSG00000138068	ENST00000379149	protein_coding	KNOWN	None	33433	600	199	37394963	37415783	-1	None	None
2	SULT6B1	ENSG00000138068	ENST00000260637	protein_coding	KNOWN	CCDS33182	33433	798	265	37394963	37415690	-1	None	None
HSCHR5_1_CTG1	None	ENSG00000262331	ENST00000571760	processed_pseudogene	KNOWN	None	None	None	None	69415951	69416918	-1	None	None
3	CCR3	ENSG00000183625	ENST00000357422	protein_coding	KNOWN	CCDS2738	1604	1068	355	46205096	46308106	1	CMKBR3	CC-CKR-3, CKR3, CD193
3	CCR3	ENSG00000183625	ENST00000395940	protein_coding	KNOWN	CCDS2738	1604	1068	355	46283922	46308111	1	CMKBR3	CC-CKR-3, CKR3, CD193
3	CCR3	ENSG00000183625	ENST00000452454	protein_coding	KNOWN	None	1604	241	79	46283951	46306890	1	CMKBR3	CC-CKR-3, CKR3, CD193
3	CCR3	ENSG00000183625	ENST00000484025	retained_intron	KNOWN	None	1604	None	None	46283952	46306235	1	CMKBR3	CC-CKR-3, CKR3, CD193
3	CCR3	ENSG00000183625	ENST00000457243	protein_coding	KNOWN	None	1604	63	20	46283952	46306712	1	CMKBR3	CC-CKR-3, CKR3, CD193
3	CCR3	ENSG00000183625	ENST00000475150	retained_intron	KNOWN	None	1604	None	None	46304881	46306856	1	CMKBR3	CC-CKR-3, CKR3, CD193
3	CCR3	ENSG00000183625	ENST00000395942	protein_coding	KNOWN	CCDS2738	1604	1068	355	46306619	46307819	1	CMKBR3	CC-CKR-3, CKR3, CD193
3	CCR3	ENSG00000183625	ENST00000545097	protein_coding	KNOWN	CCDS54574	1604	1131	376	46283872	46308197	1	CMKBR3	CC-CKR-3, CKR3, CD193
3	CCR3	ENSG00000183625	ENST00000541018	protein_coding	KNOWN	CCDS2738	1604	1068	355	46283872	46308197	1	CMKBR3	CC-CKR-3, CKR3, CD193
HSCHR5_1_CTG1	None	ENSG00000262197	ENST00000574067	processed_pseudogene	KNOWN	None	None	None	None	69433886	69438199	-1	None	None
20	None	ENSG00000232121	ENST00000427132	antisense	KNOWN	None	None	None	None	61265033	61266856	-1	None	None
9	IPPK	ENSG00000127080	ENST00000287996	protein_coding	KNOWN	CCDS6699	14645	1476	491	95375466	95432547	-1	C9orf12	INSP5K2, FLJ13163, IP5K, IPK1
9	IPPK	ENSG00000127080	ENST00000486841	processed_transcript	KNOWN	None	14645	None	None	95376838	95382612	-1	C9orf12	INSP5K2, FLJ13163, IP5K, IPK1
9	IPPK	ENSG00000127080	ENST00000375522	protein_coding	KNOWN	None	14645	492	163	95377809	95400361	-1	C9orf12	INSP5K2, FLJ13163, IP5K, IPK1
Y	MTCYBP2	ENSG00000217179	ENST00000407745	processed_pseudogene	KNOWN	None	38807	None	None	21033988	21034158	1	None	None
7	None	ENSG00000230654	ENST00000447065	unprocessed_pseudogene	KNOWN	None	None	None	None	68795684	68796364	-1	None	None
HSCHR5_1_CTG1	None	ENSG00000262713	ENST00000573516	processed_transcript	KNOWN	None	None	None	None	69446751	69463695	-1	None	None
HSCHR5_1_CTG1	None	ENSG00000262713	ENST00000573835	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	69447358	69452492	-1	None	None
4	ADAD1	ENSG00000164113	ENST00000446706	protein_coding	KNOWN	None	30713	469	155	123300121	123305061	1	None	Tenr
4	ADAD1	ENSG00000164113	ENST00000296513	protein_coding	KNOWN	CCDS34058	30713	1731	576	123300168	123350939	1	None	Tenr
4	ADAD1	ENSG00000164113	ENST00000464160	retained_intron	KNOWN	None	30713	None	None	123300183	123301337	1	None	Tenr
4	ADAD1	ENSG00000164113	ENST00000439307	protein_coding	KNOWN	None	30713	724	240	123300595	123317532	1	None	Tenr
4	ADAD1	ENSG00000164113	ENST00000388724	protein_coding	KNOWN	CCDS54800	30713	1698	565	123300598	123350957	1	None	Tenr
4	ADAD1	ENSG00000164113	ENST00000388725	protein_coding	PUTATIVE	CCDS54801	30713	1677	558	123300671	123350939	1	None	Tenr
4	ADAD1	ENSG00000164113	ENST00000492454	processed_transcript	KNOWN	None	30713	None	None	123301474	123329104	1	None	Tenr
X	RHOXF1	ENSG00000101883	ENST00000217999	protein_coding	KNOWN	CCDS14593	29993	555	184	119243011	119249847	-1	None	OTEX, PEPP1
5	SEMA6A	ENSG00000092421	ENST00000343348	protein_coding	KNOWN	CCDS47256	10738	3093	1030	115779312	115910630	-1	SEMAQ	KIAA1368, SEMA6A1, SEMA, HT018
5	SEMA6A	ENSG00000092421	ENST00000257414	protein_coding	KNOWN	None	10738	3144	1047	115781446	115910091	-1	SEMAQ	KIAA1368, SEMA6A1, SEMA, HT018
5	SEMA6A	ENSG00000092421	ENST00000513137	protein_coding	KNOWN	None	10738	1374	457	115781830	115805240	-1	SEMAQ	KIAA1368, SEMA6A1, SEMA, HT018
5	SEMA6A	ENSG00000092421	ENST00000515129	protein_coding	PUTATIVE	None	10738	1637	544	115781830	115814373	-1	SEMAQ	KIAA1368, SEMA6A1, SEMA, HT018
5	SEMA6A	ENSG00000092421	ENST00000503865	protein_coding	KNOWN	None	10738	1230	409	115782160	115785342	-1	SEMAQ	KIAA1368, SEMA6A1, SEMA, HT018
5	SEMA6A	ENSG00000092421	ENST00000510263	protein_coding	KNOWN	CCDS47256	10738	3093	1030	115782309	115872154	-1	SEMAQ	KIAA1368, SEMA6A1, SEMA, HT018
5	SEMA6A	ENSG00000092421	ENST00000506114	processed_transcript	KNOWN	None	10738	None	None	115783384	115815975	-1	SEMAQ	KIAA1368, SEMA6A1, SEMA, HT018
5	SEMA6A	ENSG00000092421	ENST00000514316	processed_transcript	KNOWN	None	10738	None	None	115813962	115815936	-1	SEMAQ	KIAA1368, SEMA6A1, SEMA, HT018
5	SEMA6A	ENSG00000092421	ENST00000503402	retained_intron	KNOWN	None	10738	None	None	115818155	115822925	-1	SEMAQ	KIAA1368, SEMA6A1, SEMA, HT018
5	SEMA6A	ENSG00000092421	ENST00000510024	retained_intron	KNOWN	None	10738	None	None	115822337	115824705	-1	SEMAQ	KIAA1368, SEMA6A1, SEMA, HT018
5	SEMA6A	ENSG00000092421	ENST00000502996	processed_transcript	KNOWN	None	10738	None	None	115822445	115831141	-1	SEMAQ	KIAA1368, SEMA6A1, SEMA, HT018
5	SEMA6A	ENSG00000092421	ENST00000503962	processed_transcript	KNOWN	None	10738	None	None	115824611	115838373	-1	SEMAQ	KIAA1368, SEMA6A1, SEMA, HT018
5	SEMA6A	ENSG00000092421	ENST00000515009	protein_coding	KNOWN	None	10738	479	158	115827492	115872124	-1	SEMAQ	KIAA1368, SEMA6A1, SEMA, HT018
5	SEMA6A	ENSG00000092421	ENST00000509665	protein_coding	KNOWN	None	10738	342	113	115831947	115890592	-1	SEMAQ	KIAA1368, SEMA6A1, SEMA, HT018
5	SEMA6A	ENSG00000092421	ENST00000512156	processed_transcript	PUTATIVE	None	10738	None	None	115885811	115909930	-1	SEMAQ	KIAA1368, SEMA6A1, SEMA, HT018
5	SEMA6A	ENSG00000092421	ENST00000282394	protein_coding	KNOWN	None	10738	1524	507	115781830	115814373	-1	SEMAQ	KIAA1368, SEMA6A1, SEMA, HT018
7	None	ENSG00000229031	ENST00000414449	unprocessed_pseudogene	KNOWN	None	None	None	None	68796821	68798619	-1	None	None
5	None	ENSG00000249849	ENST00000509363	antisense	KNOWN	None	None	None	None	177109295	177140970	1	None	None
10	CUZD1	ENSG00000138161	ENST00000368904	protein_coding	KNOWN	CCDS7631	17937	1824	607	124591665	124610309	-1	None	ERG-1, UO-44
10	CUZD1	ENSG00000138161	ENST00000368899	retained_intron	KNOWN	None	17937	None	None	124591674	124597614	-1	None	ERG-1, UO-44
10	CUZD1	ENSG00000138161	ENST00000368901	nonsense_mediated_decay	KNOWN	None	17937	159	52	124591674	124605691	-1	None	ERG-1, UO-44
10	CUZD1	ENSG00000138161	ENST00000368900	nonsense_mediated_decay	KNOWN	None	17937	159	52	124591674	124605691	-1	None	ERG-1, UO-44
10	CUZD1	ENSG00000138161	ENST00000338948	nonsense_mediated_decay	KNOWN	None	17937	144	47	124591674	124605691	-1	None	ERG-1, UO-44
10	CUZD1	ENSG00000138161	ENST00000545804	protein_coding	KNOWN	CCDS7631	17937	1824	607	124591675	124639146	-1	None	ERG-1, UO-44
10	CUZD1	ENSG00000138161	ENST00000392790	protein_coding	KNOWN	CCDS7631	17937	1824	607	124591675	124605691	-1	None	ERG-1, UO-44
Y	TTTY14	ENSG00000176728	ENST00000324446	processed_transcript	KNOWN	None	18495	None	None	21034387	21040114	-1	NCRNA00185, CYorf14	TTY14, NCRNA00137, PRO2834
Y	TTTY14	ENSG00000176728	ENST00000454875	processed_transcript	KNOWN	None	18495	None	None	21034389	21239004	-1	NCRNA00185, CYorf14	TTY14, NCRNA00137, PRO2834
Y	TTTY14	ENSG00000176728	ENST00000452584	processed_transcript	KNOWN	None	18495	None	None	21094203	21237882	-1	NCRNA00185, CYorf14	TTY14, NCRNA00137, PRO2834
Y	TTTY14	ENSG00000176728	ENST00000331787	processed_transcript	KNOWN	None	18495	None	None	21094585	21239302	-1	NCRNA00185, CYorf14	TTY14, NCRNA00137, PRO2834
Y	TTTY14	ENSG00000176728	ENST00000447937	processed_transcript	KNOWN	None	18495	None	None	21203384	21239281	-1	NCRNA00185, CYorf14	TTY14, NCRNA00137, PRO2834
21	RBM11	ENSG00000185272	ENST00000468643	processed_transcript	KNOWN	None	9897	None	None	15588451	15600693	1	None	None
21	RBM11	ENSG00000185272	ENST00000468788	processed_transcript	KNOWN	None	9897	None	None	15588466	15599375	1	None	None
21	RBM11	ENSG00000185272	ENST00000495055	processed_transcript	KNOWN	None	9897	None	None	15588474	15600494	1	None	None
21	RBM11	ENSG00000185272	ENST00000461088	retained_intron	KNOWN	None	9897	None	None	15588475	15593774	1	None	None
21	RBM11	ENSG00000185272	ENST00000400577	protein_coding	KNOWN	CCDS46635	9897	846	281	15588499	15600693	1	None	None
21	RBM11	ENSG00000185272	ENST00000475864	processed_transcript	PUTATIVE	None	9897	None	None	15596696	15599705	1	None	None
HSCHR5_1_CTG1	None	ENSG00000262360	ENST00000577073	lincRNA	KNOWN	None	None	None	None	69475596	69477340	-1	None	None
19	None	ENSG00000267715	ENST00000585643	antisense	KNOWN	None	None	None	None	1484535	1485273	1	None	None
14	TRAJ59	ENSG00000211832	ENST00000390480	TR_J_gene	KNOWN	None	12091	54	17	22945543	22945596	1	None	None
19	None	ENSG00000267092	ENST00000590252	antisense	KNOWN	None	None	None	None	1508381	1508962	1	None	None
HSCHR5_1_CTG1	None	ENSG00000263922	ENST00000584761	miRNA	NOVEL	None	None	None	None	69515271	69515340	-1	None	None
20	PXMP4	ENSG00000101417	ENST00000409299	protein_coding	KNOWN	CCDS13225	15920	639	212	32294512	32308106	-1	None	PMP24
20	PXMP4	ENSG00000101417	ENST00000344022	protein_coding	KNOWN	CCDS13226	15920	216	71	32295075	32308125	-1	None	PMP24
20	PXMP4	ENSG00000101417	ENST00000217398	protein_coding	PUTATIVE	None	15920	435	144	32295295	32308116	-1	None	PMP24
12	None	ENSG00000257921	ENST00000471530	nonsense_mediated_decay	KNOWN	None	None	484	160	58166811	58180829	1	None	None
12	None	ENSG00000257921	ENST00000553083	processed_transcript	KNOWN	None	None	None	None	58166835	58180026	1	None	None
12	None	ENSG00000257921	ENST00000546504	protein_coding	PUTATIVE	None	None	373	123	58166836	58180030	1	None	None
19	None	ENSG00000237452	ENST00000457052	protein_coding	PUTATIVE	None	None	1917	638	46236509	46267792	1	None	None
4	FRG2	ENSG00000205097	ENST00000504750	protein_coding	NOVEL	None	19136	840	279	190945506	190948409	-1	None	FRG2A
4	FRG2	ENSG00000205097	ENST00000378763	protein_coding	KNOWN	CCDS34123	19136	837	278	190945522	190948412	-1	None	FRG2A
19	None	ENSG00000266399	ENST00000581992	miRNA	NOVEL	None	None	None	None	1553980	1554031	-1	None	None
8	KIAA1875	ENSG00000179698	ENST00000534167	nonsense_mediated_decay	KNOWN	None	26959	2514	837	145162629	145173218	1	None	None
8	KIAA1875	ENSG00000179698	ENST00000323662	protein_coding	PUTATIVE	None	26959	4869	1622	145162629	145173218	1	None	None
8	KIAA1875	ENSG00000179698	ENST00000525150	retained_intron	KNOWN	None	26959	None	None	145164602	145171293	1	None	None
8	KIAA1875	ENSG00000179698	ENST00000533108	processed_transcript	KNOWN	None	26959	None	None	145164630	145166108	1	None	None
8	KIAA1875	ENSG00000179698	ENST00000528691	retained_intron	KNOWN	None	26959	None	None	145164630	145171285	1	None	None
8	KIAA1875	ENSG00000179698	ENST00000529209	retained_intron	KNOWN	None	26959	None	None	145167372	145171286	1	None	None
HSCHR5_1_CTG1	None	ENSG00000262474	ENST00000572465	unprocessed_pseudogene	KNOWN	None	None	None	None	69517117	69536103	-1	None	None
11	GLB1L2	ENSG00000149328	ENST00000535456	protein_coding	KNOWN	CCDS31724	25129	1911	636	134201768	134246218	1	None	None
11	GLB1L2	ENSG00000149328	ENST00000525089	protein_coding	PUTATIVE	None	25129	1726	574	134212747	134246218	1	None	None
11	GLB1L2	ENSG00000149328	ENST00000529077	processed_transcript	KNOWN	None	25129	None	None	134216284	134248235	1	None	None
11	GLB1L2	ENSG00000149328	ENST00000531081	retained_intron	KNOWN	None	25129	None	None	134217230	134234974	1	None	None
11	GLB1L2	ENSG00000149328	ENST00000533324	protein_coding	PUTATIVE	None	25129	582	193	134225909	134239771	1	None	None
11	GLB1L2	ENSG00000149328	ENST00000533355	processed_transcript	KNOWN	None	25129	None	None	134228954	134241722	1	None	None
11	GLB1L2	ENSG00000149328	ENST00000339772	protein_coding	KNOWN	CCDS31724	25129	1911	636	134201768	134246215	1	None	None
11	GLB1L2	ENSG00000149328	ENST00000389881	protein_coding	KNOWN	CCDS31724	25129	1911	636	134201956	134248235	1	None	None
16	None	ENSG00000260012	ENST00000562293	processed_pseudogene	KNOWN	None	None	None	None	47296652	47297411	1	None	None
19	None	ENSG00000222720	ENST00000410788	miRNA	NOVEL	None	None	None	None	1556604	1556685	1	None	None
19	RN7SL477P	ENSG00000239367	ENST00000488440	misc_RNA	KNOWN	None	46493	None	None	1570574	1570859	-1	None	None
19	None	ENSG00000267161	ENST00000588960	lincRNA	KNOWN	None	None	None	None	1573595	1575474	-1	None	None
22	SLC5A1	ENSG00000100170	ENST00000266088	protein_coding	KNOWN	CCDS13902	11036	1995	664	32439019	32509016	1	SGLT1	D22S675, NAGT
22	SLC5A1	ENSG00000100170	ENST00000486394	retained_intron	KNOWN	None	11036	None	None	32479038	32482313	1	SGLT1	D22S675, NAGT
22	SLC5A1	ENSG00000100170	ENST00000477969	retained_intron	KNOWN	None	11036	None	None	32480836	32498194	1	SGLT1	D22S675, NAGT
22	SLC5A1	ENSG00000100170	ENST00000543737	protein_coding	KNOWN	CCDS58805	11036	1614	537	32455178	32506346	1	SGLT1	D22S675, NAGT
9	RABEPK	ENSG00000136933	ENST00000373544	protein_coding	KNOWN	None	16896	465	154	127962824	127984666	1	None	RAB9P40, bA65N13.1
9	RABEPK	ENSG00000136933	ENST00000373538	protein_coding	KNOWN	CCDS6862	16896	1119	372	127962882	127996334	1	None	RAB9P40, bA65N13.1
9	RABEPK	ENSG00000136933	ENST00000416065	protein_coding	KNOWN	None	16896	733	243	127962884	127982937	1	None	RAB9P40, bA65N13.1
9	RABEPK	ENSG00000136933	ENST00000394125	protein_coding	KNOWN	CCDS6862	16896	1119	372	127962821	127996437	1	None	RAB9P40, bA65N13.1
9	RABEPK	ENSG00000136933	ENST00000259460	protein_coding	KNOWN	CCDS55341	16896	966	321	127962821	127996437	1	None	RAB9P40, bA65N13.1
9	RABEPK	ENSG00000136933	ENST00000394124	protein_coding	KNOWN	None	16896	465	154	127962841	127996285	1	None	RAB9P40, bA65N13.1
16	None	ENSG00000261369	ENST00000564739	antisense	KNOWN	None	None	None	None	47333358	47351725	1	None	None
10	None	ENSG00000199466	ENST00000362596	misc_RNA	NOVEL	None	None	None	None	126454765	126454866	1	None	None
X	RHOXF2	ENSG00000131721	ENST00000371388	protein_coding	KNOWN	CCDS14594	30011	867	288	119292467	119297945	1	None	THG1, PEPP-2, PEPP2, CT107
16	None	ENSG00000261082	ENST00000567966	lincRNA	KNOWN	None	None	None	None	79831947	79861047	-1	None	None
11	CHORDC1	ENSG00000110172	ENST00000320585	protein_coding	KNOWN	CCDS8289	14525	999	332	89934328	89956532	-1	None	CHP1
11	CHORDC1	ENSG00000110172	ENST00000529987	protein_coding	PUTATIVE	None	14525	435	144	89934612	89943933	-1	None	CHP1
11	CHORDC1	ENSG00000110172	ENST00000533724	retained_intron	KNOWN	None	14525	None	None	89934617	89956209	-1	None	CHP1
11	CHORDC1	ENSG00000110172	ENST00000457199	protein_coding	KNOWN	CCDS44705	14525	942	313	89934617	89956227	-1	None	CHP1
11	CHORDC1	ENSG00000110172	ENST00000529726	protein_coding	PUTATIVE	None	14525	435	144	89935117	89942646	-1	None	CHP1
11	CHORDC1	ENSG00000110172	ENST00000525317	nonsense_mediated_decay	KNOWN	None	14525	555	184	89935575	89956198	-1	None	CHP1
11	CHORDC1	ENSG00000110172	ENST00000533772	nonsense_mediated_decay	KNOWN	None	14525	363	120	89943739	89956217	-1	None	CHP1
11	CHORDC1	ENSG00000110172	ENST00000530765	protein_coding	PUTATIVE	None	14525	351	116	89946477	89956245	-1	None	CHP1
11	CHORDC1	ENSG00000110172	ENST00000533062	nonsense_mediated_decay	KNOWN	None	14525	120	39	89947147	89956239	-1	None	CHP1
11	CHORDC1	ENSG00000110172	ENST00000529402	nonsense_mediated_decay	KNOWN	None	14525	354	117	89947186	89956240	-1	None	CHP1
11	CHORDC1	ENSG00000110172	ENST00000533739	retained_intron	KNOWN	None	14525	None	None	89950915	89956202	-1	None	CHP1
10	None	ENSG00000203457	ENST00000366275	pseudogene	NOVEL	None	None	None	None	126493333	126493557	1	None	None
20	None	ENSG00000229882	ENST00000418953	antisense	KNOWN	None	None	None	None	61265124	61267214	1	None	None
19	None	ENSG00000266926	ENST00000592406	retained_intron	KNOWN	None	None	None	None	1581789	1582322	-1	None	None
16	None	ENSG00000222767	ENST00000410835	misc_RNA	NOVEL	None	None	None	None	47346938	47347032	-1	None	None
16	None	ENSG00000260237	ENST00000565531	lincRNA	KNOWN	None	None	None	None	80074559	80079642	1	None	None
19	RNU6-1223P	ENSG00000252933	ENST00000517124	snRNA	KNOWN	None	48186	None	None	1616491	1616594	-1	None	None
16	RNA5SP424	ENSG00000212290	ENST00000390988	rRNA	KNOWN	None	43324	None	None	47484258	47484372	-1	RN5S424	None
10	None	ENSG00000207494	ENST00000384763	misc_RNA	NOVEL	None	None	None	None	126503527	126503631	-1	None	None
16	RNA5SP425	ENSG00000222268	ENST00000410336	rRNA	KNOWN	None	43325	None	None	47539343	47539454	1	RN5S425	None
5	None	ENSG00000248943	ENST00000515739	lincRNA	KNOWN	None	None	None	None	177228205	177230345	-1	None	None
19	None	ENSG00000267073	ENST00000586506	lincRNA	KNOWN	None	None	None	None	1748055	1748740	1	None	None
19	None	ENSG00000267073	ENST00000592934	lincRNA	KNOWN	None	None	None	None	1748159	1748744	1	None	None
16	None	ENSG00000262038	ENST00000573040	sense_intronic	KNOWN	None	None	None	None	47563101	47563827	1	None	None
2	IL18RAP	ENSG00000115607	ENST00000264260	protein_coding	KNOWN	CCDS2061	5989	1800	599	103035149	103069025	1	None	AcPL, CD218b
2	IL18RAP	ENSG00000115607	ENST00000450855	protein_coding	KNOWN	None	5989	134	43	103035905	103040334	1	None	AcPL, CD218b
2	IL18RAP	ENSG00000115607	ENST00000409369	protein_coding	NOVEL	None	5989	1374	457	103036146	103068844	1	None	AcPL, CD218b
2	IL18RAP	ENSG00000115607	ENST00000497795	retained_intron	KNOWN	None	5989	None	None	103039616	103040650	1	None	AcPL, CD218b
19	None	ENSG00000267007	ENST00000586259	antisense	KNOWN	None	None	None	None	1815248	1815872	1	None	None
16	None	ENSG00000259866	ENST00000568688	processed_pseudogene	KNOWN	None	None	None	None	47595218	47596391	-1	None	None
11	TRIM66	ENSG00000166436	ENST00000402157	protein_coding	NOVEL	None	29005	3738	1245	8633587	8693413	-1	C11orf29	KIAA0298, TIF1D
11	TRIM66	ENSG00000166436	ENST00000481014	retained_intron	KNOWN	None	29005	None	None	8637086	8680383	-1	C11orf29	KIAA0298, TIF1D
11	TRIM66	ENSG00000166436	ENST00000529211	retained_intron	KNOWN	None	29005	None	None	8639116	8640831	-1	C11orf29	KIAA0298, TIF1D
11	TRIM66	ENSG00000166436	ENST00000525788	retained_intron	KNOWN	None	29005	None	None	8639311	8642590	-1	C11orf29	KIAA0298, TIF1D
11	TRIM66	ENSG00000166436	ENST00000530502	protein_coding	PUTATIVE	None	29005	858	285	8640424	8644392	-1	C11orf29	KIAA0298, TIF1D
11	TRIM66	ENSG00000166436	ENST00000531498	processed_transcript	KNOWN	None	29005	None	None	8665877	8693413	-1	C11orf29	KIAA0298, TIF1D
11	TRIM66	ENSG00000166436	ENST00000529057	processed_transcript	PUTATIVE	None	29005	None	None	8667269	8669613	-1	C11orf29	KIAA0298, TIF1D
11	TRIM66	ENSG00000166436	ENST00000299550	protein_coding	KNOWN	None	29005	3651	1216	8633584	8680383	-1	C11orf29	KIAA0298, TIF1D
19	MIR1909	ENSG00000223244	ENST00000411312	miRNA	KNOWN	None	35393	None	None	1816158	1816237	-1	MIRN1909	hsa-mir-1909
11	LRFN4	ENSG00000173621	ENST00000531590	processed_transcript	PUTATIVE	None	28456	None	None	66624118	66625261	1	None	MGC3103, SALM3., FIGLER6
11	LRFN4	ENSG00000173621	ENST00000393952	protein_coding	NOVEL	None	28456	1257	418	66624589	66627946	1	None	MGC3103, SALM3., FIGLER6
11	LRFN4	ENSG00000173621	ENST00000309602	protein_coding	KNOWN	CCDS8153	28456	1908	635	66624973	66627946	1	None	MGC3103, SALM3., FIGLER6
1	ZNF436	ENSG00000125945	ENST00000314011	protein_coding	KNOWN	CCDS233	20814	1413	470	23685941	23695935	-1	None	KIAA1710, Zfp46
1	ZNF436	ENSG00000125945	ENST00000374609	protein_coding	KNOWN	None	20814	909	302	23686467	23694831	-1	None	KIAA1710, Zfp46
1	ZNF436	ENSG00000125945	ENST00000374608	protein_coding	KNOWN	CCDS233	20814	1413	470	23686468	23694879	-1	None	KIAA1710, Zfp46
14	TRAJ58	ENSG00000211833	ENST00000390481	TR_J_gene	KNOWN	None	12090	63	20	22946696	22946758	1	None	None
16	EIF4BP5	ENSG00000261336	ENST00000567338	processed_pseudogene	KNOWN	None	37938	None	None	47599001	47600795	-1	None	None
16	NDUFA5P11	ENSG00000259918	ENST00000567995	processed_pseudogene	KNOWN	None	48853	None	None	47632565	47632907	-1	None	None
19	None	ENSG00000267244	ENST00000593201	antisense	KNOWN	None	None	None	None	1822088	1824542	1	None	None
19	None	ENSG00000267244	ENST00000590823	retained_intron	KNOWN	None	None	None	None	1822145	1824544	1	None	None
19	None	ENSG00000267244	ENST00000590531	antisense	KNOWN	None	None	None	None	1822560	1823153	1	None	None
19	None	ENSG00000267244	ENST00000587741	antisense	KNOWN	None	None	None	None	1823199	1824541	1	None	None
7	MTERF	ENSG00000127989	ENST00000419292	protein_coding	PUTATIVE	None	21463	1140	379	91500243	91510016	-1	None	None
7	MTERF	ENSG00000127989	ENST00000351870	protein_coding	KNOWN	CCDS5621	21463	1200	399	91502205	91510034	-1	None	None
7	MTERF	ENSG00000127989	ENST00000406735	protein_coding	PUTATIVE	None	21463	1140	379	91502636	91510006	-1	None	None
7	MTERF	ENSG00000127989	ENST00000456229	protein_coding	PUTATIVE	None	21463	419	138	91503629	91509993	-1	None	None
7	MTERF	ENSG00000127989	ENST00000442961	protein_coding	KNOWN	None	21463	476	157	91503632	91510004	-1	None	None
7	MTERF	ENSG00000127989	ENST00000425936	protein_coding	PUTATIVE	None	21463	80	25	91503968	91509977	-1	None	None
7	MTERF	ENSG00000127989	ENST00000481516	processed_transcript	KNOWN	None	21463	None	None	91506209	91509753	-1	None	None
10	None	ENSG00000231187	ENST00000506914	antisense	KNOWN	None	None	None	None	46951472	46966835	1	None	None
10	None	ENSG00000231187	ENST00000430188	antisense	KNOWN	None	None	None	None	46951553	46953608	1	None	None
10	CPN1	ENSG00000120054	ENST00000370418	protein_coding	KNOWN	CCDS7486	2312	1377	458	101801950	101841634	-1	None	None
10	CPN1	ENSG00000120054	ENST00000441382	protein_coding	KNOWN	None	2312	612	203	101808524	101825151	-1	None	None
16	None	ENSG00000261231	ENST00000565451	lincRNA	KNOWN	None	None	None	None	47758479	47897510	1	None	None
16	None	ENSG00000261231	ENST00000569726	lincRNA	KNOWN	None	None	None	None	47892490	47942342	1	None	None
19	None	ENSG00000267125	ENST00000592884	antisense	KNOWN	None	None	None	None	1852398	1853621	1	None	None
X	GLRA2	ENSG00000101958	ENST00000218075	protein_coding	KNOWN	CCDS14160	4327	1359	452	14547650	14749934	1	GLR	None
X	GLRA2	ENSG00000101958	ENST00000355020	protein_coding	KNOWN	CCDS48085	4327	1359	452	14547894	14748692	1	GLR	None
X	GLRA2	ENSG00000101958	ENST00000415367	protein_coding	KNOWN	None	4327	646	214	14549268	14625369	1	GLR	None
X	GLRA2	ENSG00000101958	ENST00000443437	protein_coding	KNOWN	CCDS55371	4327	1092	363	14547420	14749931	1	GLR	None
19	None	ENSG00000267141	ENST00000586694	antisense	KNOWN	None	None	None	None	1860249	1862018	1	None	None
HSCHR6_MHC_COX	None	ENSG00000263879	ENST00000585011	snoRNA	KNOWN	None	None	None	None	31578266	31578397	1	None	None
19	None	ENSG00000268655	ENST00000600007	lincRNA	KNOWN	None	None	None	None	49521504	49522741	-1	None	None
HSCHR6_MHC_COX	OR11A1	ENSG00000230780	ENST00000427264	protein_coding	KNOWN	None	8176	948	315	29389855	29392817	-1	OR11A2	hs6M1-18
HSCHR6_MHC_COX	OR11A1	ENSG00000230780	ENST00000444884	protein_coding	KNOWN	None	8176	948	315	29389855	29421426	-1	OR11A2	hs6M1-18
HSCHR6_MHC_COX	OR11A1	ENSG00000230780	ENST00000547645	protein_coding	KNOWN	None	8176	948	315	29389855	29392083	-1	OR11A2	hs6M1-18
20	None	ENSG00000232803	ENST00000451648	antisense	KNOWN	None	None	None	None	61294371	61297979	-1	None	None
20	None	ENSG00000232803	ENST00000411824	antisense	KNOWN	None	None	None	None	61294371	61298076	-1	None	None
20	None	ENSG00000232803	ENST00000433126	antisense	KNOWN	None	None	None	None	61294383	61297974	-1	None	None
4	RASGEF1B	ENSG00000138670	ENST00000509081	protein_coding	NOVEL	None	24881	1419	472	82347547	82392390	-1	None	GPIG4, FLJ31695
4	RASGEF1B	ENSG00000138670	ENST00000264400	protein_coding	KNOWN	CCDS34022	24881	1422	473	82348219	82393069	-1	None	GPIG4, FLJ31695
4	RASGEF1B	ENSG00000138670	ENST00000335927	protein_coding	KNOWN	None	24881	1296	431	82348603	82393058	-1	None	GPIG4, FLJ31695
4	RASGEF1B	ENSG00000138670	ENST00000504863	protein_coding	PUTATIVE	None	24881	698	231	82355830	82393061	-1	None	GPIG4, FLJ31695
4	RASGEF1B	ENSG00000138670	ENST00000436139	protein_coding	PUTATIVE	None	24881	633	210	82372047	82393044	-1	None	GPIG4, FLJ31695
4	RASGEF1B	ENSG00000138670	ENST00000514889	processed_transcript	KNOWN	None	24881	None	None	82373183	82378756	-1	None	GPIG4, FLJ31695
4	RASGEF1B	ENSG00000138670	ENST00000507538	retained_intron	KNOWN	None	24881	None	None	82380137	82393082	-1	None	GPIG4, FLJ31695
4	RASGEF1B	ENSG00000138670	ENST00000512716	protein_coding	KNOWN	None	24881	30	9	82380633	82965397	-1	None	GPIG4, FLJ31695
10	RNU6-270P	ENSG00000201001	ENST00000364131	snRNA	KNOWN	None	47233	None	None	29049628	29049732	-1	None	None
9	OBP2B	ENSG00000171102	ENST00000372034	protein_coding	KNOWN	CCDS6961	23381	513	170	136080664	136084628	-1	None	hOBPIIb
9	OBP2B	ENSG00000171102	ENST00000473737	nonsense_mediated_decay	KNOWN	None	23381	498	165	136080664	136084628	-1	None	hOBPIIb
9	OBP2B	ENSG00000171102	ENST00000461961	processed_transcript	KNOWN	None	23381	None	None	136080664	136084628	-1	None	hOBPIIb
9	OBP2B	ENSG00000171102	ENST00000372032	protein_coding	KNOWN	None	23381	258	85	136080667	136084630	-1	None	hOBPIIb
19	None	ENSG00000261526	ENST00000565797	lincRNA	KNOWN	None	None	None	None	1874881	1876168	-1	None	None
11	UEVLD	ENSG00000151116	ENST00000396197	protein_coding	KNOWN	CCDS41624	30866	1416	471	18551156	18610230	-1	None	Attp, UEV3
11	UEVLD	ENSG00000151116	ENST00000543987	protein_coding	KNOWN	CCDS7843	30866	1140	379	18552748	18610293	-1	None	Attp, UEV3
11	UEVLD	ENSG00000151116	ENST00000540666	processed_transcript	KNOWN	None	30866	None	None	18553224	18610221	-1	None	Attp, UEV3
11	UEVLD	ENSG00000151116	ENST00000535484	protein_coding	PUTATIVE	CCDS58122	30866	1026	341	18553245	18601065	-1	None	Attp, UEV3
11	UEVLD	ENSG00000151116	ENST00000320750	protein_coding	NOVEL	CCDS58123	30866	1074	357	18553326	18610233	-1	None	Attp, UEV3
11	UEVLD	ENSG00000151116	ENST00000379387	protein_coding	PUTATIVE	CCDS58124	30866	1350	449	18553421	18610253	-1	None	Attp, UEV3
11	UEVLD	ENSG00000151116	ENST00000396196	nonsense_mediated_decay	KNOWN	None	30866	198	65	18553828	18610264	-1	None	Attp, UEV3
11	UEVLD	ENSG00000151116	ENST00000541984	protein_coding	NOVEL	CCDS58125	30866	600	199	18553932	18610264	-1	None	Attp, UEV3
11	UEVLD	ENSG00000151116	ENST00000539569	retained_intron	KNOWN	None	30866	None	None	18553953	18558311	-1	None	Attp, UEV3
11	UEVLD	ENSG00000151116	ENST00000300038	protein_coding	KNOWN	None	30866	648	215	18585193	18610228	-1	None	Attp, UEV3
11	UEVLD	ENSG00000151116	ENST00000540917	processed_transcript	KNOWN	None	30866	None	None	18586442	18610228	-1	None	Attp, UEV3
11	UEVLD	ENSG00000151116	ENST00000535340	retained_intron	KNOWN	None	30866	None	None	18591445	18610252	-1	None	Attp, UEV3
11	UEVLD	ENSG00000151116	ENST00000490736	processed_transcript	KNOWN	None	30866	None	None	18591892	18610294	-1	None	Attp, UEV3
19	None	ENSG00000267232	ENST00000592720	lincRNA	KNOWN	None	None	None	None	1875015	1875991	1	None	None
10	LINC00837	ENSG00000235824	ENST00000443246	lincRNA	KNOWN	None	27436	None	None	29078117	29084935	-1	None	None
10	LINC00837	ENSG00000235824	ENST00000446012	lincRNA	KNOWN	None	27436	None	None	29081498	29085042	-1	None	None
19	NTF6A	ENSG00000267019	ENST00000591175	unprocessed_pseudogene	KNOWN	None	8025	None	None	49528718	49529277	-1	NTF6	PSI-NT4, NTF5P
2	ABCG5	ENSG00000138075	ENST00000260645	protein_coding	KNOWN	CCDS1814	13886	1956	651	44039611	44065958	-1	None	STSL
2	ABCG5	ENSG00000138075	ENST00000486512	nonsense_mediated_decay	KNOWN	None	13886	357	118	44039699	44065889	-1	None	STSL
2	ABCG5	ENSG00000138075	ENST00000405322	protein_coding	PUTATIVE	None	13886	1443	480	44039699	44065891	-1	None	STSL
2	ABCG5	ENSG00000138075	ENST00000409962	nonsense_mediated_decay	KNOWN	None	13886	399	132	44039982	44066004	-1	None	STSL
2	ABCG5	ENSG00000138075	ENST00000543989	protein_coding	KNOWN	None	13886	771	256	44039699	44065889	-1	None	STSL
16	None	ENSG00000260706	ENST00000567851	lincRNA	KNOWN	None	None	None	None	80099733	80191552	1	None	None
16	None	ENSG00000260706	ENST00000563397	lincRNA	KNOWN	None	None	None	None	80099746	80201474	1	None	None
19	None	ENSG00000198683	ENST00000367461	pseudogene	NOVEL	None	None	None	None	1925185	1926009	1	None	None
19	NTF6G	ENSG00000267099	ENST00000591094	unprocessed_pseudogene	KNOWN	None	8027	None	None	49532983	49533598	1	None	None
11	RAB1B	ENSG00000174903	ENST00000311481	protein_coding	KNOWN	CCDS31613	18370	606	201	66036004	66044963	1	None	None
11	RAB1B	ENSG00000174903	ENST00000527397	protein_coding	NOVEL	None	18370	510	169	66036061	66044100	1	None	None
19	NTF6B	ENSG00000267685	ENST00000591913	unprocessed_pseudogene	KNOWN	None	8026	None	None	49541736	49542295	-1	None	None
4	GIMD1	ENSG00000250298	ENST00000507153	lincRNA	KNOWN	None	44141	None	None	107279555	107288359	-1	None	None
17	ACKR6	ENSG00000091622	ENST00000421306	protein_coding	KNOWN	CCDS54080	21043	2817	938	6354584	6459780	-1	CORD5	NIR1, RDGBA3, ACKR6
17	ACKR6	ENSG00000091622	ENST00000262483	protein_coding	KNOWN	CCDS11076	21043	2925	974	6354585	6459814	-1	CORD5	NIR1, RDGBA3, ACKR6
17	ACKR6	ENSG00000091622	ENST00000576664	processed_transcript	KNOWN	None	21043	None	None	6358711	6376536	-1	CORD5	NIR1, RDGBA3, ACKR6
17	ACKR6	ENSG00000091622	ENST00000572795	retained_intron	KNOWN	None	21043	None	None	6358720	6385149	-1	CORD5	NIR1, RDGBA3, ACKR6
17	ACKR6	ENSG00000091622	ENST00000575201	protein_coding	PUTATIVE	None	21043	349	115	6363889	6367201	-1	CORD5	NIR1, RDGBA3, ACKR6
19	None	ENSG00000268669	ENST00000593746	unprocessed_pseudogene	KNOWN	None	None	None	None	49545431	49545988	1	None	None
HSCHR6_MHC_COX	None	ENSG00000258192	ENST00000550732	pseudogene	NOVEL	None	None	None	None	31613489	31615925	-1	None	None
6	GJE1	ENSG00000203733	ENST00000450456	protein_coding	KNOWN	None	33251	618	205	142454227	142456288	1	None	CX23
19	None	ENSG00000269706	ENST00000596318	unprocessed_pseudogene	KNOWN	None	None	None	None	49553474	49554103	-1	None	None
19	None	ENSG00000268108	ENST00000597865	antisense	KNOWN	None	None	None	None	49563870	49564389	1	None	None
1	C1orf213	ENSG00000249087	ENST00000458053	processed_transcript	KNOWN	None	25122	None	None	23695490	23698276	1	None	FLJ90508
1	C1orf213	ENSG00000249087	ENST00000454117	protein_coding	PUTATIVE	None	25122	291	96	23695711	23698332	1	None	FLJ90508
1	C1orf213	ENSG00000249087	ENST00000518821	protein_coding	PUTATIVE	None	25122	102	33	23695731	23698005	1	None	FLJ90508
1	C1orf213	ENSG00000249087	ENST00000437367	protein_coding	PUTATIVE	None	25122	297	98	23695743	23698276	1	None	FLJ90508
1	C1orf213	ENSG00000249087	ENST00000518600	protein_coding	PUTATIVE	None	25122	100	32	23697637	23698276	1	None	FLJ90508
1	C1orf213	ENSG00000249087	ENST00000335648	protein_coding	KNOWN	None	25122	381	126	23695729	23698275	1	None	FLJ90508
22	TXN2	ENSG00000100348	ENST00000216185	protein_coding	KNOWN	CCDS13928	17772	501	166	36863083	36878077	-1	None	MT-TRX
22	TXN2	ENSG00000100348	ENST00000416967	protein_coding	PUTATIVE	None	17772	195	64	36863093	36877681	-1	None	MT-TRX
22	TXN2	ENSG00000100348	ENST00000487725	processed_transcript	KNOWN	None	17772	None	None	36863596	36877679	-1	None	MT-TRX
22	TXN2	ENSG00000100348	ENST00000403313	protein_coding	KNOWN	CCDS13928	17772	501	166	36863638	36877387	-1	None	MT-TRX
22	TXN2	ENSG00000100348	ENST00000411915	nonsense_mediated_decay	KNOWN	None	17772	441	146	36863931	36877643	-1	None	MT-TRX
19	None	ENSG00000268287	ENST00000599209	lincRNA	KNOWN	None	None	None	None	49567516	49568113	1	None	None
HSCHR6_MHC_COX	OR2H1	ENSG00000235132	ENST00000456657	protein_coding	KNOWN	None	8252	951	316	29421536	29428682	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_COX	OR2H1	ENSG00000235132	ENST00000436167	protein_coding	KNOWN	None	8252	951	316	29421543	29428682	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_COX	OR2H1	ENSG00000235132	ENST00000475039	processed_transcript	KNOWN	None	8252	None	None	29421558	29425440	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_COX	OR2H1	ENSG00000235132	ENST00000440672	protein_coding	KNOWN	None	8252	951	316	29424126	29428682	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_COX	OR2H1	ENSG00000235132	ENST00000444920	protein_coding	KNOWN	None	8252	951	316	29425794	29427087	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_COX	OR2H1	ENSG00000235132	ENST00000487930	processed_transcript	KNOWN	None	8252	None	None	29425849	29427074	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_COX	OR2H1	ENSG00000235132	ENST00000473147	processed_transcript	KNOWN	None	8252	None	None	29425849	29427074	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_COX	OR2H1	ENSG00000235132	ENST00000551060	protein_coding	KNOWN	None	8252	951	316	29422808	29428674	1	OR2H6, OR2H8	OR6-2
16	None	ENSG00000259867	ENST00000568776	antisense	KNOWN	None	None	None	None	80188950	80597032	-1	None	None
16	None	ENSG00000259867	ENST00000565050	antisense	KNOWN	None	None	None	None	80189146	80574844	-1	None	None
16	None	ENSG00000259867	ENST00000568819	antisense	KNOWN	None	None	None	None	80251932	80574767	-1	None	None
16	None	ENSG00000259867	ENST00000564411	antisense	KNOWN	None	None	None	None	80541466	80574764	-1	None	None
16	None	ENSG00000259867	ENST00000563267	antisense	KNOWN	None	None	None	None	80560736	80574850	-1	None	None
16	None	ENSG00000259867	ENST00000568552	antisense	KNOWN	None	None	None	None	80562539	80574774	-1	None	None
5	FABP6	ENSG00000170231	ENST00000393980	protein_coding	KNOWN	CCDS43393	3561	534	177	159614374	159665742	1	None	I-15P, ILLBP, I-BAP, ILBP3, I-BABP, ILBP, I-BALB
5	FABP6	ENSG00000170231	ENST00000523955	nonsense_mediated_decay	KNOWN	None	3561	117	38	159640734	159665723	1	None	I-15P, ILLBP, I-BAP, ILBP3, I-BABP, ILBP, I-BALB
5	FABP6	ENSG00000170231	ENST00000402432	protein_coding	KNOWN	CCDS4349	3561	387	128	159656437	159665723	1	None	I-15P, ILLBP, I-BAP, ILBP3, I-BABP, ILBP, I-BALB
5	FABP6	ENSG00000170231	ENST00000521362	retained_intron	KNOWN	None	3561	None	None	159659042	159665723	1	None	I-15P, ILLBP, I-BAP, ILBP3, I-BABP, ILBP, I-BALB
5	FABP6	ENSG00000170231	ENST00000393982	protein_coding	KNOWN	CCDS43393	3561	534	177	159626048	159665729	1	None	I-15P, ILLBP, I-BAP, ILBP3, I-BABP, ILBP, I-BALB
20	CDS2	ENSG00000101290	ENST00000460006	protein_coding	KNOWN	CCDS13088	1801	1338	445	5107432	5178533	1	None	None
20	CDS2	ENSG00000101290	ENST00000467923	processed_transcript	KNOWN	None	1801	None	None	5107525	5163824	1	None	None
20	CDS2	ENSG00000101290	ENST00000450570	protein_coding	KNOWN	None	1801	751	249	5107573	5167420	1	None	None
20	CDS2	ENSG00000101290	ENST00000468817	processed_transcript	KNOWN	None	1801	None	None	5107655	5168525	1	None	None
20	CDS2	ENSG00000101290	ENST00000486875	processed_transcript	KNOWN	None	1801	None	None	5107694	5156298	1	None	None
20	CDS2	ENSG00000101290	ENST00000379070	processed_transcript	KNOWN	None	1801	None	None	5156748	5172000	1	None	None
20	CDS2	ENSG00000101290	ENST00000379062	protein_coding	KNOWN	None	1801	978	325	5107611	5171010	1	None	None
20	CDS2	ENSG00000101290	ENST00000535100	protein_coding	KNOWN	None	1801	648	215	5159468	5171003	1	None	None
HSCHR6_MHC_SSTO	HLA-DOB	ENSG00000239457	ENST00000472450	protein_coding	PUTATIVE	None	4937	735	244	32870615	32874828	-1	None	None
HSCHR6_MHC_SSTO	HLA-DOB	ENSG00000239457	ENST00000456406	protein_coding	KNOWN	None	4937	822	273	32870615	32874900	-1	None	None
HSCHR6_MHC_SSTO	HLA-DOB	ENSG00000239457	ENST00000486158	retained_intron	KNOWN	None	4937	None	None	32870899	32874840	-1	None	None
HSCHR6_MHC_SSTO	HLA-DOB	ENSG00000239457	ENST00000455155	protein_coding	PUTATIVE	None	4937	543	180	32872222	32874762	-1	None	None
HSCHR6_MHC_SSTO	HLA-DOB	ENSG00000239457	ENST00000527042	protein_coding	PUTATIVE	None	4937	462	153	32872275	32874888	-1	None	None
8	ARF1P3	ENSG00000253885	ENST00000520038	processed_pseudogene	KNOWN	None	39884	None	None	125164164	125164674	1	None	None
19	SMG9	ENSG00000105771	ENST00000270066	protein_coding	KNOWN	CCDS33043	25763	1563	520	44235301	44259142	-1	C19orf61	FLJ12886
19	SMG9	ENSG00000105771	ENST00000600097	retained_intron	KNOWN	None	25763	None	None	44235542	44237262	-1	C19orf61	FLJ12886
19	SMG9	ENSG00000105771	ENST00000601170	protein_coding	KNOWN	None	25763	1488	495	44236422	44259114	-1	C19orf61	FLJ12886
19	SMG9	ENSG00000105771	ENST00000594081	retained_intron	KNOWN	None	25763	None	None	44237496	44238231	-1	C19orf61	FLJ12886
19	SMG9	ENSG00000105771	ENST00000598860	retained_intron	KNOWN	None	25763	None	None	44237576	44238977	-1	C19orf61	FLJ12886
19	SMG9	ENSG00000105771	ENST00000597598	nonsense_mediated_decay	KNOWN	None	25763	473	156	44238612	44251886	-1	C19orf61	FLJ12886
19	SMG9	ENSG00000105771	ENST00000595700	retained_intron	KNOWN	None	25763	None	None	44242002	44259019	-1	C19orf61	FLJ12886
19	SMG9	ENSG00000105771	ENST00000602222	protein_coding	KNOWN	None	25763	551	182	44251631	44258786	-1	C19orf61	FLJ12886
19	SMG9	ENSG00000105771	ENST00000597586	protein_coding	KNOWN	None	25763	468	155	44251807	44258750	-1	C19orf61	FLJ12886
19	SMG9	ENSG00000105771	ENST00000601925	protein_coding	KNOWN	None	25763	446	147	44251829	44258779	-1	C19orf61	FLJ12886
19	SMG9	ENSG00000105771	ENST00000599804	protein_coding	KNOWN	None	25763	361	119	44251914	44258786	-1	C19orf61	FLJ12886
19	SMG9	ENSG00000105771	ENST00000596714	protein_coding	KNOWN	None	25763	346	114	44251929	44258753	-1	C19orf61	FLJ12886
19	SMG9	ENSG00000105771	ENST00000598886	retained_intron	KNOWN	None	25763	None	None	44251949	44259074	-1	C19orf61	FLJ12886
7	ZNF212	ENSG00000170260	ENST00000335870	protein_coding	KNOWN	CCDS5896	13004	1488	495	148936742	148952700	1	None	C2H2-150
7	ZNF212	ENSG00000170260	ENST00000486371	nonsense_mediated_decay	KNOWN	None	13004	153	50	148936753	148947491	1	None	C2H2-150
7	ZNF212	ENSG00000170260	ENST00000462724	nonsense_mediated_decay	KNOWN	None	13004	153	50	148936785	148947883	1	None	C2H2-150
7	ZNF212	ENSG00000170260	ENST00000481584	protein_coding	PUTATIVE	None	13004	581	192	148947534	148950859	1	None	C2H2-150
7	ZNF212	ENSG00000170260	ENST00000488917	nonsense_mediated_decay	KNOWN	None	13004	208	68	148947801	148950902	1	None	C2H2-150
5	None	ENSG00000170089	ENST00000515065	processed_transcript	KNOWN	None	None	None	None	177236408	177310917	1	None	None
5	None	ENSG00000170089	ENST00000506082	processed_transcript	KNOWN	None	None	None	None	177236482	177309384	1	None	None
5	None	ENSG00000170089	ENST00000510692	processed_transcript	KNOWN	None	None	None	None	177259753	177309517	1	None	None
5	None	ENSG00000170089	ENST00000506672	processed_transcript	KNOWN	None	None	None	None	177302523	177311273	1	None	None
5	None	ENSG00000170089	ENST00000512851	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	177302596	177310832	1	None	None
5	None	ENSG00000170089	ENST00000515525	processed_transcript	KNOWN	None	None	None	None	177303256	177309506	1	None	None
5	None	ENSG00000170089	ENST00000507037	processed_transcript	KNOWN	None	None	None	None	177303256	177377733	1	None	None
5	None	ENSG00000170089	ENST00000502601	retained_intron	KNOWN	None	None	None	None	177305532	177309662	1	None	None
5	None	ENSG00000170089	ENST00000511074	processed_transcript	KNOWN	None	None	None	None	177305791	177310702	1	None	None
5	None	ENSG00000170089	ENST00000504756	retained_intron	KNOWN	None	None	None	None	177309392	177310001	1	None	None
5	None	ENSG00000170089	ENST00000358442	processed_transcript	KNOWN	None	None	None	None	177309444	177348388	1	None	None
5	None	ENSG00000170089	ENST00000514635	processed_transcript	KNOWN	None	None	None	None	177309687	177344268	1	None	None
5	None	ENSG00000170089	ENST00000503449	processed_transcript	KNOWN	None	None	None	None	177312261	177359278	1	None	None
5	None	ENSG00000170089	ENST00000303154	unprocessed_pseudogene	KNOWN	None	None	None	None	177302551	177311238	1	None	None
8	None	ENSG00000214803	ENST00000523703	lincRNA	KNOWN	None	None	None	None	125204912	125259639	-1	None	None
14	TRAJ57	ENSG00000211834	ENST00000390482	TR_J_gene	KNOWN	None	12089	63	20	22947861	22947923	1	None	None
1	CD247	ENSG00000198821	ENST00000485089	processed_transcript	KNOWN	None	1677	None	None	167399877	167403303	-1	CD3Z	CD3H, CD3Q
1	CD247	ENSG00000198821	ENST00000483825	processed_transcript	KNOWN	None	1677	None	None	167399877	167487766	-1	CD3Z	CD3H, CD3Q
1	CD247	ENSG00000198821	ENST00000362089	protein_coding	KNOWN	CCDS1261	1677	495	164	167399877	167487775	-1	CD3Z	CD3H, CD3Q
1	CD247	ENSG00000198821	ENST00000392122	protein_coding	KNOWN	CCDS1260	1677	492	163	167399877	167487847	-1	CD3Z	CD3H, CD3Q
1	CD247	ENSG00000198821	ENST00000476733	processed_transcript	KNOWN	None	1677	None	None	167400398	167408858	-1	CD3Z	CD3H, CD3Q
1	CD247	ENSG00000198821	ENST00000470379	processed_transcript	KNOWN	None	1677	None	None	167400410	167408877	-1	CD3Z	CD3H, CD3Q
1	CD247	ENSG00000198821	ENST00000479979	processed_transcript	KNOWN	None	1677	None	None	167409110	167487847	-1	CD3Z	CD3H, CD3Q
1	ENO1	ENSG00000074800	ENST00000234590	protein_coding	KNOWN	CCDS97	3350	1305	434	8921061	8938749	-1	ENO1L1, MPB1	PPH, MBP-1
1	ENO1	ENSG00000074800	ENST00000464920	retained_intron	KNOWN	None	3350	None	None	8921064	8931356	-1	ENO1L1, MPB1	PPH, MBP-1
1	ENO1	ENSG00000074800	ENST00000497492	protein_coding	KNOWN	None	3350	585	194	8926420	8938326	-1	ENO1L1, MPB1	PPH, MBP-1
1	ENO1	ENSG00000074800	ENST00000486051	retained_intron	KNOWN	None	3350	None	None	8930231	8938747	-1	ENO1L1, MPB1	PPH, MBP-1
1	ENO1	ENSG00000074800	ENST00000492343	retained_intron	KNOWN	None	3350	None	None	8931411	8938735	-1	ENO1L1, MPB1	PPH, MBP-1
1	ENO1	ENSG00000074800	ENST00000489867	protein_coding	KNOWN	None	3350	53	16	8934915	8939308	-1	ENO1L1, MPB1	PPH, MBP-1
8	RMDN1	ENSG00000176623	ENST00000517710	protein_coding	PUTATIVE	None	24285	479	158	87480486	87491240	-1	FAM82B	CGI-90, FLJ20665, RMD1
8	RMDN1	ENSG00000176623	ENST00000519247	protein_coding	PUTATIVE	None	24285	392	129	87480497	87487143	-1	FAM82B	CGI-90, FLJ20665, RMD1
8	RMDN1	ENSG00000176623	ENST00000519789	protein_coding	PUTATIVE	None	24285	676	224	87484577	87519306	-1	FAM82B	CGI-90, FLJ20665, RMD1
8	RMDN1	ENSG00000176623	ENST00000519639	protein_coding	PUTATIVE	None	24285	455	150	87484578	87498744	-1	FAM82B	CGI-90, FLJ20665, RMD1
8	RMDN1	ENSG00000176623	ENST00000406452	protein_coding	KNOWN	CCDS34918	24285	945	314	87484579	87521009	-1	FAM82B	CGI-90, FLJ20665, RMD1
8	RMDN1	ENSG00000176623	ENST00000523911	protein_coding	PUTATIVE	None	24285	747	248	87484582	87526567	-1	FAM82B	CGI-90, FLJ20665, RMD1
8	RMDN1	ENSG00000176623	ENST00000519966	protein_coding	NOVEL	None	24285	816	271	87486250	87520910	-1	FAM82B	CGI-90, FLJ20665, RMD1
8	RMDN1	ENSG00000176623	ENST00000517404	retained_intron	KNOWN	None	24285	None	None	87486338	87487279	-1	FAM82B	CGI-90, FLJ20665, RMD1
8	RMDN1	ENSG00000176623	ENST00000430676	protein_coding	NOVEL	None	24285	855	284	87486341	87520904	-1	FAM82B	CGI-90, FLJ20665, RMD1
8	RMDN1	ENSG00000176623	ENST00000517821	retained_intron	KNOWN	None	24285	None	None	87486475	87489682	-1	FAM82B	CGI-90, FLJ20665, RMD1
8	RMDN1	ENSG00000176623	ENST00000520719	protein_coding	NOVEL	None	24285	498	165	87486478	87498799	-1	FAM82B	CGI-90, FLJ20665, RMD1
8	RMDN1	ENSG00000176623	ENST00000522942	protein_coding	PUTATIVE	None	24285	323	106	87486641	87492563	-1	FAM82B	CGI-90, FLJ20665, RMD1
8	RMDN1	ENSG00000176623	ENST00000518390	retained_intron	KNOWN	None	24285	None	None	87490989	87500788	-1	FAM82B	CGI-90, FLJ20665, RMD1
8	RMDN1	ENSG00000176623	ENST00000519145	retained_intron	KNOWN	None	24285	None	None	87491054	87498728	-1	FAM82B	CGI-90, FLJ20665, RMD1
8	RMDN1	ENSG00000176623	ENST00000524172	nonsense_mediated_decay	KNOWN	None	24285	129	42	87491200	87520522	-1	FAM82B	CGI-90, FLJ20665, RMD1
8	RMDN1	ENSG00000176623	ENST00000522804	nonsense_mediated_decay	KNOWN	None	24285	327	108	87496920	87520913	-1	FAM82B	CGI-90, FLJ20665, RMD1
8	RMDN1	ENSG00000176623	ENST00000523370	nonsense_mediated_decay	KNOWN	None	24285	195	64	87498790	87526586	-1	FAM82B	CGI-90, FLJ20665, RMD1
8	RMDN1	ENSG00000176623	ENST00000521045	protein_coding	PUTATIVE	None	24285	285	94	87498791	87520658	-1	FAM82B	CGI-90, FLJ20665, RMD1
8	RMDN1	ENSG00000176623	ENST00000518772	processed_transcript	PUTATIVE	None	24285	None	None	87517059	87520848	-1	FAM82B	CGI-90, FLJ20665, RMD1
11	DLAT	ENSG00000150768	ENST00000280346	protein_coding	KNOWN	CCDS8354	2896	1944	647	111895538	111935114	1	DLTA	PDC-E2
11	DLAT	ENSG00000150768	ENST00000533297	nonsense_mediated_decay	KNOWN	None	2896	198	65	111896132	111933495	1	DLTA	PDC-E2
11	DLAT	ENSG00000150768	ENST00000393051	protein_coding	NOVEL	None	2896	1629	542	111896164	111935114	1	DLTA	PDC-E2
11	DLAT	ENSG00000150768	ENST00000531306	protein_coding	NOVEL	None	2896	1440	479	111896320	111933585	1	DLTA	PDC-E2
11	DLAT	ENSG00000150768	ENST00000527231	retained_intron	KNOWN	None	2896	None	None	111930719	111932271	1	DLTA	PDC-E2
11	DLAT	ENSG00000150768	ENST00000537636	protein_coding	KNOWN	None	2896	1257	418	111896320	111933585	1	DLTA	PDC-E2
15	None	ENSG00000221008	ENST00000408081	miRNA	NOVEL	None	None	None	None	84873268	84873351	-1	None	None
2	SLC9A4	ENSG00000180251	ENST00000295269	protein_coding	KNOWN	CCDS33264	11077	2397	798	103089762	103150431	1	None	NHE4
2	SLC9A4	ENSG00000180251	ENST00000492154	retained_intron	KNOWN	None	11077	None	None	103119901	103122264	1	None	NHE4
X	None	ENSG00000231069	ENST00000418104	unprocessed_pseudogene	KNOWN	None	None	None	None	37003596	37004166	-1	None	None
5	None	ENSG00000261604	ENST00000565748	antisense	KNOWN	None	None	None	None	43287703	43289827	1	None	None
5	None	ENSG00000261604	ENST00000569313	antisense	KNOWN	None	None	None	None	43289497	43290941	1	None	None
7	RAPGEF5	ENSG00000136237	ENST00000401957	protein_coding	KNOWN	None	16862	1743	580	22157856	22233527	-1	None	KIAA0277, GFR, MR-GEF
7	RAPGEF5	ENSG00000136237	ENST00000488366	processed_transcript	KNOWN	None	16862	None	None	22164850	22175690	-1	None	KIAA0277, GFR, MR-GEF
7	RAPGEF5	ENSG00000136237	ENST00000468825	retained_intron	KNOWN	None	16862	None	None	22179375	22184884	-1	None	KIAA0277, GFR, MR-GEF
7	RAPGEF5	ENSG00000136237	ENST00000458533	protein_coding	PUTATIVE	None	16862	426	141	22194188	22234381	-1	None	KIAA0277, GFR, MR-GEF
7	RAPGEF5	ENSG00000136237	ENST00000451559	nonsense_mediated_decay	KNOWN	None	16862	375	124	22197482	22233362	-1	None	KIAA0277, GFR, MR-GEF
7	RAPGEF5	ENSG00000136237	ENST00000420196	protein_coding	NOVEL	None	16862	467	154	22206688	22259857	-1	None	KIAA0277, GFR, MR-GEF
7	RAPGEF5	ENSG00000136237	ENST00000475788	processed_transcript	KNOWN	None	16862	None	None	22231057	22330860	-1	None	KIAA0277, GFR, MR-GEF
7	RAPGEF5	ENSG00000136237	ENST00000405243	protein_coding	PUTATIVE	None	16862	1203	400	22231795	22396763	-1	None	KIAA0277, GFR, MR-GEF
7	RAPGEF5	ENSG00000136237	ENST00000471484	processed_transcript	KNOWN	None	16862	None	None	22348066	22395844	-1	None	KIAA0277, GFR, MR-GEF
7	RAPGEF5	ENSG00000136237	ENST00000497668	processed_transcript	KNOWN	None	16862	None	None	22395929	22396529	-1	None	KIAA0277, GFR, MR-GEF
7	RAPGEF5	ENSG00000136237	ENST00000344041	protein_coding	KNOWN	CCDS55093	16862	2193	730	22157909	22396533	-1	None	KIAA0277, GFR, MR-GEF
X	None	ENSG00000231706	ENST00000438233	processed_pseudogene	KNOWN	None	None	None	None	68705186	68705495	-1	None	None
X	FTH1P18	ENSG00000243048	ENST00000412071	unprocessed_pseudogene	KNOWN	None	3988	None	None	37061096	37061644	-1	FTHL18	None
X	FTH1P18	ENSG00000243048	ENST00000397453	unprocessed_pseudogene	KNOWN	None	3988	None	None	37061096	37061650	-1	FTHL18	None
HSCHR6_MHC_COX	MAS1L	ENSG00000233141	ENST00000415802	protein_coding	KNOWN	None	13961	1137	378	29451051	29452315	-1	None	MAS-L, MRG, dJ994E9.2
1	TCEA3	ENSG00000204219	ENST00000450454	protein_coding	KNOWN	CCDS44086	11615	1047	348	23707554	23751233	-1	None	TFIIS.H
1	TCEA3	ENSG00000204219	ENST00000476978	protein_coding	PUTATIVE	None	11615	237	78	23709926	23713912	-1	None	TFIIS.H
1	TCEA3	ENSG00000204219	ENST00000374601	protein_coding	PUTATIVE	None	11615	465	154	23729974	23751200	-1	None	TFIIS.H
1	TCEA3	ENSG00000204219	ENST00000461794	protein_coding	PUTATIVE	None	11615	354	117	23730562	23745879	-1	None	TFIIS.H
1	TCEA3	ENSG00000204219	ENST00000374602	retained_intron	KNOWN	None	11615	None	None	23735053	23745729	-1	None	TFIIS.H
1	TCEA3	ENSG00000204219	ENST00000492271	retained_intron	KNOWN	None	11615	None	None	23743838	23744791	-1	None	TFIIS.H
14	DHRS1	ENSG00000157379	ENST00000559084	retained_intron	KNOWN	None	16445	None	None	24759804	24760331	-1	None	FLJ25430, MGC20204, SDR19C1
14	DHRS1	ENSG00000157379	ENST00000561281	retained_intron	KNOWN	None	16445	None	None	24759804	24761127	-1	None	FLJ25430, MGC20204, SDR19C1
14	DHRS1	ENSG00000157379	ENST00000559088	processed_transcript	KNOWN	None	16445	None	None	24759804	24761849	-1	None	FLJ25430, MGC20204, SDR19C1
14	DHRS1	ENSG00000157379	ENST00000288111	protein_coding	KNOWN	CCDS9623	16445	942	313	24759804	24769039	-1	None	FLJ25430, MGC20204, SDR19C1
14	DHRS1	ENSG00000157379	ENST00000561137	retained_intron	KNOWN	None	16445	None	None	24759806	24763862	-1	None	FLJ25430, MGC20204, SDR19C1
14	DHRS1	ENSG00000157379	ENST00000396813	protein_coding	KNOWN	CCDS9623	16445	942	313	24759806	24768666	-1	None	FLJ25430, MGC20204, SDR19C1
14	DHRS1	ENSG00000157379	ENST00000558340	nonsense_mediated_decay	KNOWN	None	16445	444	147	24759809	24768949	-1	None	FLJ25430, MGC20204, SDR19C1
14	DHRS1	ENSG00000157379	ENST00000561273	retained_intron	KNOWN	None	16445	None	None	24759842	24768967	-1	None	FLJ25430, MGC20204, SDR19C1
14	DHRS1	ENSG00000157379	ENST00000559483	processed_transcript	KNOWN	None	16445	None	None	24761418	24768898	-1	None	FLJ25430, MGC20204, SDR19C1
14	DHRS1	ENSG00000157379	ENST00000560991	retained_intron	KNOWN	None	16445	None	None	24765868	24768957	-1	None	FLJ25430, MGC20204, SDR19C1
14	DHRS1	ENSG00000157379	ENST00000558114	retained_intron	KNOWN	None	16445	None	None	24767917	24768975	-1	None	FLJ25430, MGC20204, SDR19C1
X	None	ENSG00000264604	ENST00000579664	miRNA	NOVEL	None	None	None	None	68724548	68724666	1	None	None
9	None	ENSG00000235481	ENST00000454429	antisense	KNOWN	None	None	None	None	33785948	33818793	-1	None	None
5	None	ENSG00000188850	ENST00000511991	processed_transcript	KNOWN	None	None	None	None	43336266	43348818	1	None	None
5	None	ENSG00000188850	ENST00000514136	transcribed_processed_pseudogene	KNOWN	None	None	None	None	43348431	43348774	1	None	None
X	None	ENSG00000228160	ENST00000454131	lincRNA	KNOWN	None	None	None	None	68789512	68790200	-1	None	None
9	TBC1D13	ENSG00000107021	ENST00000372648	protein_coding	KNOWN	CCDS6911	25571	1203	400	131549483	131572711	1	None	FLJ10743
9	TBC1D13	ENSG00000107021	ENST00000475097	processed_transcript	KNOWN	None	25571	None	None	131549549	131559409	1	None	FLJ10743
9	TBC1D13	ENSG00000107021	ENST00000466056	processed_transcript	KNOWN	None	25571	None	None	131549612	131565727	1	None	FLJ10743
9	TBC1D13	ENSG00000107021	ENST00000223865	protein_coding	KNOWN	None	25571	828	275	131549628	131572703	1	None	FLJ10743
9	TBC1D13	ENSG00000107021	ENST00000539497	protein_coding	KNOWN	None	25571	660	219	131549586	131572703	1	None	FLJ10743
4	ASIC5	ENSG00000256394	ENST00000537611	protein_coding	KNOWN	CCDS3793	17537	1518	505	156750881	156787425	-1	ACCN5	INAC, HINAC
X	None	ENSG00000272351	ENST00000606950	rRNA	NOVEL	None	None	None	None	68892323	68892441	1	None	None
9	TRBV29OR9-2	ENSG00000223394	ENST00000427589	IG_V_pseudogene	KNOWN	None	12211	None	None	33786526	33786826	1	TCRBV4O	TRBV29/OR9-2, TCRBV29S2, TCRBV4S2O
9	None	ENSG00000200834	ENST00000363964	misc_RNA	KNOWN	None	None	None	None	33830976	33831076	1	None	None
5	None	ENSG00000249492	ENST00000504469	retained_intron	KNOWN	None	None	None	None	43484061	43488542	1	None	None
5	None	ENSG00000249492	ENST00000505645	antisense	KNOWN	None	None	None	None	43484174	43509458	1	None	None
9	RNU4ATAC11P	ENSG00000251748	ENST00000515939	snRNA	KNOWN	None	46897	None	None	33868538	33868663	1	None	None
X	None	ENSG00000214071	ENST00000435382	unprocessed_pseudogene	KNOWN	None	None	None	None	37095924	37096474	-1	None	None
9	None	ENSG00000230925	ENST00000414426	antisense	KNOWN	None	None	None	None	33909607	33911120	-1	None	None
19	RN7SL708P	ENSG00000265675	ENST00000580952	misc_RNA	KNOWN	None	46724	None	None	49584589	49584885	1	None	None
15	SIN3A	ENSG00000169375	ENST00000394947	protein_coding	KNOWN	CCDS10279	19353	3822	1273	75661720	75744045	-1	None	KIAA0700, DKFZP434K2235
15	SIN3A	ENSG00000169375	ENST00000360439	protein_coding	KNOWN	CCDS10279	19353	3822	1273	75663274	75748124	-1	None	KIAA0700, DKFZP434K2235
15	SIN3A	ENSG00000169375	ENST00000394949	protein_coding	KNOWN	CCDS10279	19353	3822	1273	75663471	75743926	-1	None	KIAA0700, DKFZP434K2235
15	SIN3A	ENSG00000169375	ENST00000566640	retained_intron	KNOWN	None	19353	None	None	75664323	75668721	-1	None	KIAA0700, DKFZP434K2235
15	SIN3A	ENSG00000169375	ENST00000570124	retained_intron	KNOWN	None	19353	None	None	75668081	75673429	-1	None	KIAA0700, DKFZP434K2235
15	SIN3A	ENSG00000169375	ENST00000570021	retained_intron	KNOWN	None	19353	None	None	75676349	75682162	-1	None	KIAA0700, DKFZP434K2235
15	SIN3A	ENSG00000169375	ENST00000564778	protein_coding	KNOWN	None	19353	529	175	75705331	75748183	-1	None	KIAA0700, DKFZP434K2235
15	SIN3A	ENSG00000169375	ENST00000562776	protein_coding	KNOWN	None	19353	426	141	75706593	75747367	-1	None	KIAA0700, DKFZP434K2235
15	SIN3A	ENSG00000169375	ENST00000568431	protein_coding	KNOWN	None	19353	391	129	75706628	75748154	-1	None	KIAA0700, DKFZP434K2235
15	SIN3A	ENSG00000169375	ENST00000567289	protein_coding	KNOWN	None	19353	471	156	75711551	75744005	-1	None	KIAA0700, DKFZP434K2235
15	SIN3A	ENSG00000169375	ENST00000570115	protein_coding	KNOWN	None	19353	370	122	75714984	75748181	-1	None	KIAA0700, DKFZP434K2235
15	SIN3A	ENSG00000169375	ENST00000568309	protein_coding	KNOWN	None	19353	321	106	75715033	75748156	-1	None	KIAA0700, DKFZP434K2235
15	SIN3A	ENSG00000169375	ENST00000568190	protein_coding	KNOWN	None	19353	294	97	75715060	75748156	-1	None	KIAA0700, DKFZP434K2235
15	SIN3A	ENSG00000169375	ENST00000568919	retained_intron	KNOWN	None	19353	None	None	75722410	75743878	-1	None	KIAA0700, DKFZP434K2235
15	SIN3A	ENSG00000169375	ENST00000565264	protein_coding	KNOWN	None	19353	55	17	75722662	75744087	-1	None	KIAA0700, DKFZP434K2235
5	EEF1A1P19	ENSG00000249855	ENST00000513637	processed_pseudogene	KNOWN	None	37892	None	None	43495175	43496556	-1	None	None
19	SLC6A21P	ENSG00000269009	ENST00000599458	processed_pseudogene	KNOWN	None	31400	None	None	49758729	49759359	-1	SLC6A21	None
17	LUC7L3	ENSG00000108848	ENST00000505658	protein_coding	KNOWN	CCDS11573	24309	1299	432	48796905	48833574	1	None	LUC7A, CROP, OA48-18, CREAP-1, FLJ11063, CRA, hLuc7A
17	LUC7L3	ENSG00000108848	ENST00000508045	nonsense_mediated_decay	KNOWN	None	24309	240	79	48796931	48822174	1	None	LUC7A, CROP, OA48-18, CREAP-1, FLJ11063, CRA, hLuc7A
17	LUC7L3	ENSG00000108848	ENST00000508218	retained_intron	KNOWN	None	24309	None	None	48796958	48818653	1	None	LUC7A, CROP, OA48-18, CREAP-1, FLJ11063, CRA, hLuc7A
17	LUC7L3	ENSG00000108848	ENST00000506686	nonsense_mediated_decay	KNOWN	None	24309	240	79	48796959	48815557	1	None	LUC7A, CROP, OA48-18, CREAP-1, FLJ11063, CRA, hLuc7A
17	LUC7L3	ENSG00000108848	ENST00000509335	nonsense_mediated_decay	KNOWN	None	24309	240	79	48796959	48818510	1	None	LUC7A, CROP, OA48-18, CREAP-1, FLJ11063, CRA, hLuc7A
17	LUC7L3	ENSG00000108848	ENST00000504563	nonsense_mediated_decay	KNOWN	None	24309	240	79	48796960	48821153	1	None	LUC7A, CROP, OA48-18, CREAP-1, FLJ11063, CRA, hLuc7A
17	LUC7L3	ENSG00000108848	ENST00000393227	protein_coding	PUTATIVE	None	24309	1470	489	48796960	48828978	1	None	LUC7A, CROP, OA48-18, CREAP-1, FLJ11063, CRA, hLuc7A
17	LUC7L3	ENSG00000108848	ENST00000240304	protein_coding	KNOWN	CCDS11573	24309	1299	432	48796964	48830070	1	None	LUC7A, CROP, OA48-18, CREAP-1, FLJ11063, CRA, hLuc7A
17	LUC7L3	ENSG00000108848	ENST00000505619	protein_coding	NOVEL	None	24309	554	183	48796990	48819073	1	None	LUC7A, CROP, OA48-18, CREAP-1, FLJ11063, CRA, hLuc7A
17	LUC7L3	ENSG00000108848	ENST00000508482	nonsense_mediated_decay	KNOWN	None	24309	165	54	48796990	48828365	1	None	LUC7A, CROP, OA48-18, CREAP-1, FLJ11063, CRA, hLuc7A
17	LUC7L3	ENSG00000108848	ENST00000510984	protein_coding	PUTATIVE	None	24309	109	35	48797008	48818593	1	None	LUC7A, CROP, OA48-18, CREAP-1, FLJ11063, CRA, hLuc7A
17	LUC7L3	ENSG00000108848	ENST00000507200	nonsense_mediated_decay	KNOWN	None	24309	120	39	48797163	48821160	1	None	LUC7A, CROP, OA48-18, CREAP-1, FLJ11063, CRA, hLuc7A
17	LUC7L3	ENSG00000108848	ENST00000513025	protein_coding	PUTATIVE	None	24309	140	45	48813996	48819034	1	None	LUC7A, CROP, OA48-18, CREAP-1, FLJ11063, CRA, hLuc7A
17	LUC7L3	ENSG00000108848	ENST00000507503	retained_intron	KNOWN	None	24309	None	None	48817628	48822169	1	None	LUC7A, CROP, OA48-18, CREAP-1, FLJ11063, CRA, hLuc7A
17	LUC7L3	ENSG00000108848	ENST00000511068	retained_intron	KNOWN	None	24309	None	None	48821033	48822150	1	None	LUC7A, CROP, OA48-18, CREAP-1, FLJ11063, CRA, hLuc7A
17	LUC7L3	ENSG00000108848	ENST00000504065	nonsense_mediated_decay	KNOWN	None	24309	624	207	48822022	48828208	1	None	LUC7A, CROP, OA48-18, CREAP-1, FLJ11063, CRA, hLuc7A
17	LUC7L3	ENSG00000108848	ENST00000509487	nonsense_mediated_decay	KNOWN	None	24309	324	107	48823267	48828374	1	None	LUC7A, CROP, OA48-18, CREAP-1, FLJ11063, CRA, hLuc7A
17	LUC7L3	ENSG00000108848	ENST00000511974	protein_coding	PUTATIVE	None	24309	259	85	48823936	48828930	1	None	LUC7A, CROP, OA48-18, CREAP-1, FLJ11063, CRA, hLuc7A
17	LUC7L3	ENSG00000108848	ENST00000513969	protein_coding	PUTATIVE	None	24309	370	122	48823975	48829643	1	None	LUC7A, CROP, OA48-18, CREAP-1, FLJ11063, CRA, hLuc7A
17	LUC7L3	ENSG00000108848	ENST00000503728	protein_coding	PUTATIVE	None	24309	356	117	48823980	48829946	1	None	LUC7A, CROP, OA48-18, CREAP-1, FLJ11063, CRA, hLuc7A
17	LUC7L3	ENSG00000108848	ENST00000512549	processed_transcript	PUTATIVE	None	24309	None	None	48825750	48827911	1	None	LUC7A, CROP, OA48-18, CREAP-1, FLJ11063, CRA, hLuc7A
17	LUC7L3	ENSG00000108848	ENST00000503798	processed_transcript	PUTATIVE	None	24309	None	None	48828412	48829911	1	None	LUC7A, CROP, OA48-18, CREAP-1, FLJ11063, CRA, hLuc7A
17	LUC7L3	ENSG00000108848	ENST00000311571	protein_coding	KNOWN	None	24309	240	79	48796964	48814721	1	None	LUC7A, CROP, OA48-18, CREAP-1, FLJ11063, CRA, hLuc7A
17	LUC7L3	ENSG00000108848	ENST00000544170	protein_coding	KNOWN	None	24309	1071	356	48796990	48828365	1	None	LUC7A, CROP, OA48-18, CREAP-1, FLJ11063, CRA, hLuc7A
5	MIR145	ENSG00000269936	ENST00000602315	lincRNA	KNOWN	None	31532	None	None	148809849	148812397	1	MIRN145	hsa-mir-145, MIR-145
5	MIR145	ENSG00000269936	ENST00000384967	miRNA	KNOWN	None	31532	None	None	148810209	148810296	1	MIRN145	hsa-mir-145, MIR-145
9	SNORD121B	ENSG00000238300	ENST00000458838	snoRNA	KNOWN	None	33569	None	None	33934294	33934374	-1	None	None
5	None	ENSG00000248554	ENST00000512498	antisense	KNOWN	None	None	None	None	43511160	43521913	1	None	None
X	MOB1AP2	ENSG00000233810	ENST00000446060	processed_pseudogene	KNOWN	None	42639	None	None	37150420	37151479	1	MOBKL1BP2	None
9	SNORD121A	ENSG00000238886	ENST00000459386	snoRNA	KNOWN	None	33560	None	None	33952767	33952848	-1	None	None
19	None	ENSG00000265023	ENST00000583949	miRNA	NOVEL	None	None	None	None	49769740	49769825	1	None	None
10	None	ENSG00000270002	ENST00000474115	processed_transcript	KNOWN	None	None	None	None	87403830	87407823	1	None	None
2	WDR35	ENSG00000118965	ENST00000281405	protein_coding	KNOWN	CCDS1695	29250	3513	1170	20110021	20189883	-1	None	MGC33196, KIAA1336, IFT121
2	WDR35	ENSG00000118965	ENST00000345530	protein_coding	KNOWN	CCDS33152	29250	3546	1181	20110021	20189892	-1	None	MGC33196, KIAA1336, IFT121
2	WDR35	ENSG00000118965	ENST00000445063	nonsense_mediated_decay	KNOWN	None	29250	752	249	20113003	20175397	-1	None	MGC33196, KIAA1336, IFT121
2	WDR35	ENSG00000118965	ENST00000414212	nonsense_mediated_decay	KNOWN	None	29250	2622	873	20113319	20189809	-1	None	MGC33196, KIAA1336, IFT121
2	WDR35	ENSG00000118965	ENST00000453014	protein_coding	PUTATIVE	None	29250	1221	406	20134793	20153632	-1	None	MGC33196, KIAA1336, IFT121
2	WDR35	ENSG00000118965	ENST00000494964	retained_intron	KNOWN	None	29250	None	None	20147933	20151682	-1	None	MGC33196, KIAA1336, IFT121
2	WDR35	ENSG00000118965	ENST00000416055	protein_coding	KNOWN	None	29250	1680	559	20113003	20175397	-1	None	MGC33196, KIAA1336, IFT121
9	OSTCP8	ENSG00000226801	ENST00000445117	processed_pseudogene	KNOWN	None	42869	None	None	33968069	33968516	-1	None	None
19	SUMO1P4	ENSG00000235555	ENST00000429430	processed_pseudogene	KNOWN	None	33151	None	None	49778376	49778677	1	None	None
10	TIMM23B	ENSG00000204152	ENST00000478381	protein_coding	NOVEL	None	23581	357	118	51371390	51387763	1	None	bA592B15.7
10	TIMM23B	ENSG00000204152	ENST00000462932	nonsense_mediated_decay	KNOWN	None	23581	300	99	51371395	51387763	1	None	bA592B15.7
10	TIMM23B	ENSG00000204152	ENST00000374098	protein_coding	KNOWN	None	23581	514	170	51371417	51387763	1	None	bA592B15.7
10	TIMM23B	ENSG00000204152	ENST00000483296	nonsense_mediated_decay	KNOWN	None	23581	117	38	51371427	51387763	1	None	bA592B15.7
10	TIMM23B	ENSG00000204152	ENST00000374097	protein_coding	NOVEL	None	23581	403	133	51371436	51387763	1	None	bA592B15.7
10	TIMM23B	ENSG00000204152	ENST00000451577	protein_coding	KNOWN	None	23581	369	122	51371407	51387768	1	None	bA592B15.7
X	None	ENSG00000241607	ENST00000413104	unprocessed_pseudogene	KNOWN	None	None	None	None	37300776	37301321	1	None	None
5	MRPS30	ENSG00000112996	ENST00000507110	protein_coding	KNOWN	CCDS3951	8769	1320	439	44809027	44815624	1	PDCD9	PAP
5	MRPS30	ENSG00000112996	ENST00000515647	processed_transcript	KNOWN	None	8769	None	None	44809945	44815168	1	PDCD9	PAP
5	MRPS30	ENSG00000112996	ENST00000508129	retained_intron	KNOWN	None	8769	None	None	44812087	44813731	1	PDCD9	PAP
5	MRPS30	ENSG00000112996	ENST00000230914	processed_transcript	KNOWN	None	8769	None	None	44815321	44820530	1	PDCD9	PAP
16	None	ENSG00000260790	ENST00000568827	antisense	KNOWN	None	None	None	None	22386180	22387594	1	None	None
16	None	ENSG00000260790	ENST00000567158	antisense	KNOWN	None	None	None	None	22386208	22389501	1	None	None
4	MTND4P8	ENSG00000248548	ENST00000514997	unprocessed_pseudogene	KNOWN	None	42227	None	None	156376202	156377563	-1	None	None
7	SAMD9	ENSG00000205413	ENST00000379958	protein_coding	KNOWN	CCDS34680	1348	4770	1589	92728829	92747336	-1	C7orf5	KIAA2004, FLJ20073
7	SAMD9	ENSG00000205413	ENST00000446617	protein_coding	KNOWN	None	1348	3849	1282	92731562	92747275	-1	C7orf5	KIAA2004, FLJ20073
12	TSFM	ENSG00000123297	ENST00000454289	protein_coding	KNOWN	CCDS8958	12367	978	325	58176372	58191367	1	None	EF-Tsmt, EF-TS
12	TSFM	ENSG00000123297	ENST00000323833	protein_coding	KNOWN	CCDS53809	12367	1041	346	58176559	58190517	1	None	EF-Tsmt, EF-TS
12	TSFM	ENSG00000123297	ENST00000417094	nonsense_mediated_decay	KNOWN	None	12367	270	89	58176564	58179983	1	None	EF-Tsmt, EF-TS
12	TSFM	ENSG00000123297	ENST00000550559	protein_coding	PUTATIVE	None	12367	693	230	58176570	58196557	1	None	EF-Tsmt, EF-TS
12	TSFM	ENSG00000123297	ENST00000548851	protein_coding	PUTATIVE	None	12367	603	200	58176570	58201854	1	None	EF-Tsmt, EF-TS
12	TSFM	ENSG00000123297	ENST00000434359	protein_coding	PUTATIVE	None	12367	421	139	58176586	58186856	1	None	EF-Tsmt, EF-TS
12	TSFM	ENSG00000123297	ENST00000457189	protein_coding	PUTATIVE	None	12367	506	167	58176601	58190044	1	None	EF-Tsmt, EF-TS
12	TSFM	ENSG00000123297	ENST00000497617	processed_transcript	KNOWN	None	12367	None	None	58176664	58190150	1	None	EF-Tsmt, EF-TS
12	TSFM	ENSG00000123297	ENST00000543727	protein_coding	KNOWN	CCDS53810	12367	648	215	58176528	58196639	1	None	EF-Tsmt, EF-TS
12	TSFM	ENSG00000123297	ENST00000540550	protein_coding	KNOWN	CCDS53811	12367	504	167	58176528	58191370	1	None	EF-Tsmt, EF-TS
12	TSFM	ENSG00000123297	ENST00000350762	protein_coding	KNOWN	None	12367	858	285	58176564	58190549	1	None	EF-Tsmt, EF-TS
X	FTH1P19	ENSG00000219186	ENST00000402402	unprocessed_pseudogene	KNOWN	None	33525	None	None	37351274	37351801	1	FTHL19	None
16	None	ENSG00000230872	ENST00000420133	unitary_pseudogene	KNOWN	None	None	None	None	22393757	22418749	1	None	None
19	MIR4324	ENSG00000265407	ENST00000584846	miRNA	KNOWN	None	38392	None	None	49812054	49812125	-1	None	hsa-mir-4324
4	MTND3P3	ENSG00000249127	ENST00000505004	unprocessed_pseudogene	KNOWN	None	42155	None	None	156377790	156378133	-1	None	None
19	None	ENSG00000197813	ENST00000602554	lincRNA	KNOWN	None	None	None	None	49834874	49843539	-1	None	None
19	None	ENSG00000197813	ENST00000358234	lincRNA	KNOWN	None	None	None	None	49834916	49843560	-1	None	None
19	None	ENSG00000197813	ENST00000602721	lincRNA	KNOWN	None	None	None	None	49843506	49843865	-1	None	None
6	SERINC1	ENSG00000111897	ENST00000368454	protein_coding	KNOWN	CCDS5125	13464	1362	453	122764499	122907269	-1	TDE2	TMS-2, TDE1L, KIAA1253
6	SERINC1	ENSG00000111897	ENST00000339697	protein_coding	KNOWN	CCDS5125	13464	1362	453	122764493	122792952	-1	TDE2	TMS-2, TDE1L, KIAA1253
3	ZCWPW2	ENSG00000206559	ENST00000420223	protein_coding	KNOWN	None	23574	380	125	28390637	28476648	1	None	ZCW2
3	ZCWPW2	ENSG00000206559	ENST00000383768	protein_coding	KNOWN	CCDS33723	23574	1071	356	28390640	28566636	1	None	ZCW2
3	ZCWPW2	ENSG00000206559	ENST00000428875	protein_coding	PUTATIVE	None	23574	496	164	28454610	28503231	1	None	ZCW2
3	ZCWPW2	ENSG00000206559	ENST00000419130	protein_coding	PUTATIVE	None	23574	724	240	28476715	28566636	1	None	ZCW2
3	ZCWPW2	ENSG00000206559	ENST00000457897	protein_coding	PUTATIVE	None	23574	575	190	28552494	28579613	1	None	ZCW2
3	ZCWPW2	ENSG00000206559	ENST00000421010	protein_coding	KNOWN	CCDS33723	23574	1071	356	28431985	28566630	1	None	ZCW2
X	FTH1P27	ENSG00000234355	ENST00000449509	unprocessed_pseudogene	KNOWN	None	39091	None	None	37364563	37365113	1	None	None
4	None	ENSG00000249698	ENST00000506989	unprocessed_pseudogene	KNOWN	None	None	None	None	156378332	156379112	-1	None	None
3	PLXND1	ENSG00000004399	ENST00000324093	protein_coding	KNOWN	CCDS33854	9107	5778	1925	129274018	129325661	-1	None	KIAA0620
3	PLXND1	ENSG00000004399	ENST00000501038	retained_intron	KNOWN	None	9107	None	None	129274057	129275877	-1	None	KIAA0620
3	PLXND1	ENSG00000004399	ENST00000504689	protein_coding	PUTATIVE	None	9107	168	55	129274057	129276066	-1	None	KIAA0620
3	PLXND1	ENSG00000004399	ENST00000504524	retained_intron	KNOWN	None	9107	None	None	129274057	129277540	-1	None	KIAA0620
3	PLXND1	ENSG00000004399	ENST00000512744	nonsense_mediated_decay	KNOWN	None	9107	1141	379	129274061	129284834	-1	None	KIAA0620
3	PLXND1	ENSG00000004399	ENST00000506979	protein_coding	PUTATIVE	None	9107	691	229	129275460	129279899	-1	None	KIAA0620
3	PLXND1	ENSG00000004399	ENST00000508630	retained_intron	KNOWN	None	9107	None	None	129277379	129279785	-1	None	KIAA0620
3	PLXND1	ENSG00000004399	ENST00000512807	retained_intron	KNOWN	None	9107	None	None	129278008	129279257	-1	None	KIAA0620
3	PLXND1	ENSG00000004399	ENST00000504979	retained_intron	KNOWN	None	9107	None	None	129281316	129282056	-1	None	KIAA0620
3	PLXND1	ENSG00000004399	ENST00000503166	retained_intron	KNOWN	None	9107	None	None	129281937	129285009	-1	None	KIAA0620
3	PLXND1	ENSG00000004399	ENST00000514990	retained_intron	KNOWN	None	9107	None	None	129288032	129290047	-1	None	KIAA0620
3	PLXND1	ENSG00000004399	ENST00000504767	retained_intron	KNOWN	None	9107	None	None	129289527	129290566	-1	None	KIAA0620
3	PLXND1	ENSG00000004399	ENST00000511018	retained_intron	KNOWN	None	9107	None	None	129289715	129290701	-1	None	KIAA0620
3	PLXND1	ENSG00000004399	ENST00000515191	retained_intron	KNOWN	None	9107	None	None	129290383	129291825	-1	None	KIAA0620
3	PLXND1	ENSG00000004399	ENST00000505505	retained_intron	KNOWN	None	9107	None	None	129293179	129297391	-1	None	KIAA0620
3	PLXND1	ENSG00000004399	ENST00000505665	nonsense_mediated_decay	KNOWN	None	9107	338	111	129302474	129305528	-1	None	KIAA0620
3	PLXND1	ENSG00000004399	ENST00000505237	protein_coding	PUTATIVE	None	9107	507	168	129304795	129308370	-1	None	KIAA0620
3	PLXND1	ENSG00000004399	ENST00000393239	protein_coding	KNOWN	None	9107	5358	1785	129274018	129325661	-1	None	KIAA0620
7	PSMG3	ENSG00000157778	ENST00000288607	protein_coding	KNOWN	CCDS5327	22420	369	122	1606966	1609629	-1	C7orf48	MGC10911, PAC3
7	PSMG3	ENSG00000157778	ENST00000404674	protein_coding	KNOWN	CCDS5327	22420	369	122	1606987	1609681	-1	C7orf48	MGC10911, PAC3
7	PSMG3	ENSG00000157778	ENST00000252329	protein_coding	KNOWN	CCDS5327	22420	369	122	1607249	1610641	-1	C7orf48	MGC10911, PAC3
4	MTATP6P9	ENSG00000248420	ENST00000515039	unprocessed_pseudogene	KNOWN	None	44583	None	None	156379113	156379792	-1	None	None
5	None	ENSG00000230551	ENST00000499521	retained_intron	KNOWN	None	None	None	None	148873877	148884233	-1	None	None
5	None	ENSG00000230551	ENST00000412431	processed_transcript	KNOWN	None	None	None	None	148872949	148880816	-1	None	None
7	None	ENSG00000251852	ENST00000516043	misc_RNA	NOVEL	None	None	None	None	103073908	103074008	-1	None	None
4	None	ENSG00000249386	ENST00000503214	unprocessed_pseudogene	KNOWN	None	None	None	None	156380022	156380715	-1	None	None
19	None	ENSG00000268157	ENST00000596488	antisense	KNOWN	None	None	None	None	49859409	49861026	1	None	None
7	None	ENSG00000252047	ENST00000516238	misc_RNA	KNOWN	None	None	None	None	103075441	103075539	-1	None	None
4	TNIP3	ENSG00000050730	ENST00000057513	protein_coding	KNOWN	CCDS3718	19315	978	325	122052563	122085495	-1	None	LIND, FLJ21162, ABIN-3
4	TNIP3	ENSG00000050730	ENST00000507879	protein_coding	PUTATIVE	CCDS58925	19315	1110	369	122053195	122137782	-1	None	LIND, FLJ21162, ABIN-3
4	TNIP3	ENSG00000050730	ENST00000509841	protein_coding	PUTATIVE	CCDS58926	19315	1131	376	122053438	122148621	-1	None	LIND, FLJ21162, ABIN-3
4	TNIP3	ENSG00000050730	ENST00000511909	processed_transcript	KNOWN	None	19315	None	None	122053547	122071270	-1	None	LIND, FLJ21162, ABIN-3
4	TNIP3	ENSG00000050730	ENST00000515605	retained_intron	KNOWN	None	19315	None	None	122053692	122078438	-1	None	LIND, FLJ21162, ABIN-3
4	TNIP3	ENSG00000050730	ENST00000515036	protein_coding	PUTATIVE	None	19315	261	86	122058604	122063054	-1	None	LIND, FLJ21162, ABIN-3
4	TNIP3	ENSG00000050730	ENST00000506753	retained_intron	KNOWN	None	19315	None	None	122075393	122085476	-1	None	LIND, FLJ21162, ABIN-3
4	TNIP3	ENSG00000050730	ENST00000454328	protein_coding	KNOWN	CCDS3718	19315	978	325	122052563	122137655	-1	None	LIND, FLJ21162, ABIN-3
20	L3MBTL1	ENSG00000185513	ENST00000434666	protein_coding	PUTATIVE	None	15905	254	83	42136320	42143790	1	L3MBTL	ZC2HC3, dJ138B7.3, DKFZp586P1522, KIAA0681
20	L3MBTL1	ENSG00000185513	ENST00000427442	protein_coding	KNOWN	CCDS46602	15905	2523	840	42136320	42170243	1	L3MBTL	ZC2HC3, dJ138B7.3, DKFZp586P1522, KIAA0681
20	L3MBTL1	ENSG00000185513	ENST00000439769	protein_coding	KNOWN	None	15905	414	137	42136350	42143394	1	L3MBTL	ZC2HC3, dJ138B7.3, DKFZp586P1522, KIAA0681
20	L3MBTL1	ENSG00000185513	ENST00000373135	protein_coding	PUTATIVE	CCDS13319	15905	2319	772	42143053	42170535	1	L3MBTL	ZC2HC3, dJ138B7.3, DKFZp586P1522, KIAA0681
20	L3MBTL1	ENSG00000185513	ENST00000473289	retained_intron	KNOWN	None	15905	None	None	42143083	42143904	1	L3MBTL	ZC2HC3, dJ138B7.3, DKFZp586P1522, KIAA0681
20	L3MBTL1	ENSG00000185513	ENST00000468336	retained_intron	KNOWN	None	15905	None	None	42143091	42144205	1	L3MBTL	ZC2HC3, dJ138B7.3, DKFZp586P1522, KIAA0681
20	L3MBTL1	ENSG00000185513	ENST00000430781	retained_intron	KNOWN	None	15905	None	None	42143109	42157531	1	L3MBTL	ZC2HC3, dJ138B7.3, DKFZp586P1522, KIAA0681
20	L3MBTL1	ENSG00000185513	ENST00000373134	protein_coding	KNOWN	None	15905	2232	743	42143166	42169829	1	L3MBTL	ZC2HC3, dJ138B7.3, DKFZp586P1522, KIAA0681
20	L3MBTL1	ENSG00000185513	ENST00000457824	processed_transcript	KNOWN	None	15905	None	None	42143189	42157871	1	L3MBTL	ZC2HC3, dJ138B7.3, DKFZp586P1522, KIAA0681
20	L3MBTL1	ENSG00000185513	ENST00000473981	processed_transcript	KNOWN	None	15905	None	None	42143348	42144780	1	L3MBTL	ZC2HC3, dJ138B7.3, DKFZp586P1522, KIAA0681
20	L3MBTL1	ENSG00000185513	ENST00000485334	retained_intron	KNOWN	None	15905	None	None	42157297	42163043	1	L3MBTL	ZC2HC3, dJ138B7.3, DKFZp586P1522, KIAA0681
20	L3MBTL1	ENSG00000185513	ENST00000422861	protein_coding	PUTATIVE	None	15905	1617	538	42157347	42179590	1	L3MBTL	ZC2HC3, dJ138B7.3, DKFZp586P1522, KIAA0681
20	L3MBTL1	ENSG00000185513	ENST00000445228	nonsense_mediated_decay	KNOWN	None	15905	136	44	42158974	42164874	1	L3MBTL	ZC2HC3, dJ138B7.3, DKFZp586P1522, KIAA0681
20	L3MBTL1	ENSG00000185513	ENST00000497347	retained_intron	KNOWN	None	15905	None	None	42159384	42164480	1	L3MBTL	ZC2HC3, dJ138B7.3, DKFZp586P1522, KIAA0681
20	L3MBTL1	ENSG00000185513	ENST00000373133	retained_intron	KNOWN	None	15905	None	None	42159609	42169829	1	L3MBTL	ZC2HC3, dJ138B7.3, DKFZp586P1522, KIAA0681
20	L3MBTL1	ENSG00000185513	ENST00000483547	retained_intron	KNOWN	None	15905	None	None	42163276	42164577	1	L3MBTL	ZC2HC3, dJ138B7.3, DKFZp586P1522, KIAA0681
20	L3MBTL1	ENSG00000185513	ENST00000494117	retained_intron	KNOWN	None	15905	None	None	42167615	42170534	1	L3MBTL	ZC2HC3, dJ138B7.3, DKFZp586P1522, KIAA0681
20	L3MBTL1	ENSG00000185513	ENST00000471977	processed_transcript	KNOWN	None	15905	None	None	42168791	42176946	1	L3MBTL	ZC2HC3, dJ138B7.3, DKFZp586P1522, KIAA0681
20	L3MBTL1	ENSG00000185513	ENST00000418998	protein_coding	KNOWN	CCDS46602	15905	2523	840	42136350	42170243	1	L3MBTL	ZC2HC3, dJ138B7.3, DKFZp586P1522, KIAA0681
20	L3MBTL1	ENSG00000185513	ENST00000444063	protein_coding	KNOWN	None	15905	2217	738	42143053	42170534	1	L3MBTL	ZC2HC3, dJ138B7.3, DKFZp586P1522, KIAA0681
7	None	ENSG00000234715	ENST00000422488	processed_transcript	KNOWN	None	None	None	None	103085654	103154454	1	None	None
14	C14orf144	ENSG00000228032	ENST00000419115	protein_coding	KNOWN	None	20358	165	54	104710541	104712473	1	None	None
19	None	ENSG00000268686	ENST00000599433	antisense	KNOWN	None	None	None	None	49871962	49891338	-1	None	None
HSCHR6_MHC_QBL	LY6G5B	ENSG00000239285	ENST00000383429	protein_coding	KNOWN	None	13931	639	212	31627141	31631569	1	C6orf19	G5b
HSCHR6_MHC_QBL	LY6G5B	ENSG00000239285	ENST00000432544	retained_intron	KNOWN	None	13931	None	None	31628402	31631569	1	C6orf19	G5b
HSCHR6_MHC_QBL	LY6G5B	ENSG00000239285	ENST00000462244	protein_coding	KNOWN	None	13931	606	201	31628974	31631569	1	C6orf19	G5b
2	SLC9A2	ENSG00000115616	ENST00000233969	protein_coding	KNOWN	CCDS2062	11072	2439	812	103236166	103327777	1	NHE2	None
2	SLC9A2	ENSG00000115616	ENST00000467657	retained_intron	KNOWN	None	11072	None	None	103300757	103303227	1	NHE2	None
2	SLC9A2	ENSG00000115616	ENST00000469286	processed_transcript	KNOWN	None	11072	None	None	103306153	103318910	1	NHE2	None
5	PCYOX1L	ENSG00000145882	ENST00000274569	protein_coding	KNOWN	CCDS4296	28477	1485	494	148737570	148749216	1	None	MGC3265
5	PCYOX1L	ENSG00000145882	ENST00000510990	nonsense_mediated_decay	KNOWN	None	28477	336	111	148737600	148745534	1	None	MGC3265
5	PCYOX1L	ENSG00000145882	ENST00000511945	nonsense_mediated_decay	KNOWN	None	28477	249	82	148737632	148749216	1	None	MGC3265
5	PCYOX1L	ENSG00000145882	ENST00000505669	nonsense_mediated_decay	KNOWN	None	28477	249	82	148737632	148749216	1	None	MGC3265
5	PCYOX1L	ENSG00000145882	ENST00000503240	retained_intron	KNOWN	None	28477	None	None	148741616	148749216	1	None	MGC3265
5	PCYOX1L	ENSG00000145882	ENST00000514349	protein_coding	PUTATIVE	None	28477	1215	404	148741803	148749216	1	None	MGC3265
5	PCYOX1L	ENSG00000145882	ENST00000507621	retained_intron	KNOWN	None	28477	None	None	148742632	148749216	1	None	MGC3265
7	SNX13	ENSG00000071189	ENST00000428135	protein_coding	KNOWN	CCDS47551	21335	2874	957	17830385	17980117	-1	None	RGS-PX1, KIAA0713
7	SNX13	ENSG00000071189	ENST00000409389	protein_coding	NOVEL	None	21335	2667	888	17832466	17980091	-1	None	RGS-PX1, KIAA0713
7	SNX13	ENSG00000071189	ENST00000409076	nonsense_mediated_decay	KNOWN	None	21335	465	154	17833044	17980074	-1	None	RGS-PX1, KIAA0713
7	SNX13	ENSG00000071189	ENST00000496855	processed_transcript	KNOWN	None	21335	None	None	17833388	17861320	-1	None	RGS-PX1, KIAA0713
7	SNX13	ENSG00000071189	ENST00000444712	nonsense_mediated_decay	KNOWN	None	21335	132	43	17855843	17980124	-1	None	RGS-PX1, KIAA0713
7	SNX13	ENSG00000071189	ENST00000482558	retained_intron	KNOWN	None	21335	None	None	17907905	17980054	-1	None	RGS-PX1, KIAA0713
7	SNX13	ENSG00000071189	ENST00000409604	protein_coding	PUTATIVE	None	21335	570	189	17919050	17980107	-1	None	RGS-PX1, KIAA0713
7	SNX13	ENSG00000071189	ENST00000492626	retained_intron	KNOWN	None	21335	None	None	17927779	17939729	-1	None	RGS-PX1, KIAA0713
7	SNX13	ENSG00000071189	ENST00000474067	processed_transcript	KNOWN	None	21335	None	None	17931169	17980111	-1	None	RGS-PX1, KIAA0713
7	SNX13	ENSG00000071189	ENST00000475800	processed_transcript	KNOWN	None	21335	None	None	17931169	17980114	-1	None	RGS-PX1, KIAA0713
7	SNX13	ENSG00000071189	ENST00000498463	processed_transcript	KNOWN	None	21335	None	None	17931185	17939871	-1	None	RGS-PX1, KIAA0713
7	SNX13	ENSG00000071189	ENST00000494402	processed_transcript	KNOWN	None	21335	None	None	17932971	17939811	-1	None	RGS-PX1, KIAA0713
7	SNX13	ENSG00000071189	ENST00000471744	processed_transcript	KNOWN	None	21335	None	None	17936957	17980114	-1	None	RGS-PX1, KIAA0713
X	DIAPH2	ENSG00000147202	ENST00000373049	protein_coding	KNOWN	CCDS14468	2877	3291	1096	95939711	96724834	1	None	POF, DIA, POF2, DIA2
X	DIAPH2	ENSG00000147202	ENST00000324765	protein_coding	KNOWN	CCDS14467	2877	3306	1101	95939711	96859996	1	None	POF, DIA, POF2, DIA2
X	DIAPH2	ENSG00000147202	ENST00000373061	protein_coding	KNOWN	None	2877	3306	1101	95939662	96855597	1	None	POF, DIA, POF2, DIA2
X	DIAPH2	ENSG00000147202	ENST00000373054	protein_coding	KNOWN	None	2877	3294	1097	95939662	96854316	1	None	POF, DIA, POF2, DIA2
X	DIAPH2	ENSG00000147202	ENST00000355827	protein_coding	KNOWN	None	2877	3291	1096	95939662	96724837	1	None	POF, DIA, POF2, DIA2
16	None	ENSG00000260497	ENST00000568348	processed_pseudogene	KNOWN	None	None	None	None	47794691	47794832	-1	None	None
16	None	ENSG00000261325	ENST00000570024	lincRNA	KNOWN	None	None	None	None	47883225	47921041	-1	None	None
16	NLRC5	ENSG00000140853	ENST00000539881	nonsense_mediated_decay	KNOWN	None	29933	2163	720	57023397	57082266	1	None	NOD27, CLR16.1, FLJ21709
16	NLRC5	ENSG00000140853	ENST00000262510	protein_coding	KNOWN	CCDS10773	29933	5601	1866	57023410	57117436	1	None	NOD27, CLR16.1, FLJ21709
16	NLRC5	ENSG00000140853	ENST00000543141	processed_transcript	KNOWN	None	29933	None	None	57023475	57026356	1	None	NOD27, CLR16.1, FLJ21709
16	NLRC5	ENSG00000140853	ENST00000538273	retained_intron	KNOWN	None	29933	None	None	57023475	57055024	1	None	NOD27, CLR16.1, FLJ21709
16	NLRC5	ENSG00000140853	ENST00000535658	processed_transcript	KNOWN	None	29933	None	None	57023506	57025038	1	None	NOD27, CLR16.1, FLJ21709
16	NLRC5	ENSG00000140853	ENST00000544641	protein_coding	KNOWN	None	29933	224	73	57037765	57054848	1	None	NOD27, CLR16.1, FLJ21709
16	NLRC5	ENSG00000140853	ENST00000538059	protein_coding	KNOWN	None	29933	57	18	57038398	57054681	1	None	NOD27, CLR16.1, FLJ21709
16	NLRC5	ENSG00000140853	ENST00000539144	protein_coding	NOVEL	None	29933	5514	1837	57054625	57117431	1	None	NOD27, CLR16.1, FLJ21709
16	NLRC5	ENSG00000140853	ENST00000538805	protein_coding	PUTATIVE	None	29933	3541	1179	57059599	57095915	1	None	NOD27, CLR16.1, FLJ21709
16	NLRC5	ENSG00000140853	ENST00000545081	nonsense_mediated_decay	KNOWN	None	29933	3172	1056	57059674	57117431	1	None	NOD27, CLR16.1, FLJ21709
16	NLRC5	ENSG00000140853	ENST00000538110	protein_coding	PUTATIVE	None	29933	2656	884	57060335	57095845	1	None	NOD27, CLR16.1, FLJ21709
16	NLRC5	ENSG00000140853	ENST00000536231	retained_intron	KNOWN	None	29933	None	None	57060551	57063996	1	None	NOD27, CLR16.1, FLJ21709
16	NLRC5	ENSG00000140853	ENST00000543030	protein_coding	PUTATIVE	None	29933	1894	630	57060791	57095878	1	None	NOD27, CLR16.1, FLJ21709
16	NLRC5	ENSG00000140853	ENST00000538453	nonsense_mediated_decay	KNOWN	None	29933	2109	702	57068084	57117443	1	None	NOD27, CLR16.1, FLJ21709
16	NLRC5	ENSG00000140853	ENST00000540182	nonsense_mediated_decay	KNOWN	None	29933	1163	386	57074600	57117436	1	None	NOD27, CLR16.1, FLJ21709
16	NLRC5	ENSG00000140853	ENST00000538930	retained_intron	KNOWN	None	29933	None	None	57075233	57096656	1	None	NOD27, CLR16.1, FLJ21709
16	NLRC5	ENSG00000140853	ENST00000538778	retained_intron	KNOWN	None	29933	None	None	57075320	57095431	1	None	NOD27, CLR16.1, FLJ21709
16	NLRC5	ENSG00000140853	ENST00000541020	retained_intron	KNOWN	None	29933	None	None	57075400	57077720	1	None	NOD27, CLR16.1, FLJ21709
16	NLRC5	ENSG00000140853	ENST00000537056	nonsense_mediated_decay	KNOWN	None	29933	976	324	57077493	57117436	1	None	NOD27, CLR16.1, FLJ21709
16	NLRC5	ENSG00000140853	ENST00000534931	retained_intron	KNOWN	None	29933	None	None	57079209	57088948	1	None	NOD27, CLR16.1, FLJ21709
16	NLRC5	ENSG00000140853	ENST00000399221	protein_coding	PUTATIVE	None	29933	472	156	57091977	57095915	1	None	NOD27, CLR16.1, FLJ21709
16	NLRC5	ENSG00000140853	ENST00000535284	retained_intron	KNOWN	None	29933	None	None	57093095	57095916	1	None	NOD27, CLR16.1, FLJ21709
16	NLRC5	ENSG00000140853	ENST00000543402	retained_intron	KNOWN	None	29933	None	None	57093112	57095845	1	None	NOD27, CLR16.1, FLJ21709
16	NLRC5	ENSG00000140853	ENST00000545349	nonsense_mediated_decay	KNOWN	None	29933	332	109	57103789	57111281	1	None	NOD27, CLR16.1, FLJ21709
16	NLRC5	ENSG00000140853	ENST00000544189	retained_intron	KNOWN	None	29933	None	None	57108083	57110763	1	None	NOD27, CLR16.1, FLJ21709
16	NLRC5	ENSG00000140853	ENST00000534927	retained_intron	KNOWN	None	29933	None	None	57109837	57116509	1	None	NOD27, CLR16.1, FLJ21709
16	NLRC5	ENSG00000140853	ENST00000543103	retained_intron	KNOWN	None	29933	None	None	57114731	57117432	1	None	NOD27, CLR16.1, FLJ21709
16	NLRC5	ENSG00000140853	ENST00000543049	retained_intron	KNOWN	None	29933	None	None	57114911	57116545	1	None	NOD27, CLR16.1, FLJ21709
16	NLRC5	ENSG00000140853	ENST00000308149	protein_coding	KNOWN	None	29933	5514	1837	57023410	57117436	1	None	NOD27, CLR16.1, FLJ21709
16	NLRC5	ENSG00000140853	ENST00000436936	protein_coding	KNOWN	None	29933	4656	1551	57023410	57117436	1	None	NOD27, CLR16.1, FLJ21709
1	TMED5	ENSG00000117500	ENST00000370282	protein_coding	KNOWN	CCDS743	24251	690	229	93615299	93646285	-1	None	CGI-100
1	TMED5	ENSG00000117500	ENST00000370290	nonsense_mediated_decay	KNOWN	None	24251	363	120	93617415	93646073	-1	None	CGI-100
1	TMED5	ENSG00000117500	ENST00000483033	processed_transcript	KNOWN	None	24251	None	None	93619753	93628767	-1	None	CGI-100
1	TMED5	ENSG00000117500	ENST00000479918	protein_coding	KNOWN	CCDS53342	24251	582	193	93619789	93645918	-1	None	CGI-100
1	TMED5	ENSG00000117500	ENST00000370280	protein_coding	KNOWN	None	24251	489	162	93621597	93645818	-1	None	CGI-100
19	SIX5	ENSG00000177045	ENST00000317578	protein_coding	KNOWN	CCDS12673	10891	2220	739	46268043	46272484	-1	DMAHP	None
19	SIX5	ENSG00000177045	ENST00000560160	protein_coding	NOVEL	None	10891	767	254	46268147	46271885	-1	DMAHP	None
19	SIX5	ENSG00000177045	ENST00000560168	protein_coding	PUTATIVE	None	10891	210	69	46268651	46272113	-1	DMAHP	None
18	DSC3	ENSG00000134762	ENST00000360428	protein_coding	KNOWN	CCDS32810	3037	2691	896	28569974	28622707	-1	DSC4	CDHF3, DSC, DSC1, DSC2
18	DSC3	ENSG00000134762	ENST00000584980	protein_coding	PUTATIVE	None	3037	644	213	28574092	28586884	-1	DSC4	CDHF3, DSC, DSC1, DSC2
18	DSC3	ENSG00000134762	ENST00000434452	protein_coding	KNOWN	None	3037	2520	839	28570052	28622781	-1	DSC4	CDHF3, DSC, DSC1, DSC2
19	CATSPERD	ENSG00000174898	ENST00000381624	protein_coding	KNOWN	CCDS12149	28598	2397	798	5720688	5778745	1	TMEM146	MGC39581
19	CATSPERD	ENSG00000174898	ENST00000309164	processed_transcript	KNOWN	None	28598	None	None	5753522	5778745	1	TMEM146	MGC39581
19	CATSPERD	ENSG00000174898	ENST00000448307	processed_transcript	KNOWN	None	28598	None	None	5775253	5778510	1	TMEM146	MGC39581
19	CATSPERD	ENSG00000174898	ENST00000381614	protein_coding	KNOWN	None	28598	1080	359	5720688	5772446	1	TMEM146	MGC39581
16	None	ENSG00000260450	ENST00000562980	lincRNA	KNOWN	None	None	None	None	47999583	48005598	1	None	None
20	ZNF341	ENSG00000131061	ENST00000342427	protein_coding	KNOWN	CCDS13227	15992	2544	847	32319463	32380075	1	None	dJ553F4.3
20	ZNF341	ENSG00000131061	ENST00000497876	nonsense_mediated_decay	KNOWN	None	15992	219	72	32319808	32380075	1	None	dJ553F4.3
20	ZNF341	ENSG00000131061	ENST00000483118	nonsense_mediated_decay	KNOWN	None	15992	1815	604	32319816	32380075	1	None	dJ553F4.3
20	ZNF341	ENSG00000131061	ENST00000493497	retained_intron	KNOWN	None	15992	None	None	32374894	32380075	1	None	dJ553F4.3
20	ZNF341	ENSG00000131061	ENST00000375200	protein_coding	KNOWN	None	15992	2565	854	32319463	32380075	1	None	dJ553F4.3
14	TMEM179	ENSG00000258986	ENST00000415614	protein_coding	PUTATIVE	None	20137	570	189	104941015	105071096	-1	C14orf90	FLJ42486, TMEM179A
14	TMEM179	ENSG00000258986	ENST00000556320	protein_coding	PUTATIVE	None	20137	235	77	105057201	105059898	-1	C14orf90	FLJ42486, TMEM179A
14	TMEM179	ENSG00000258986	ENST00000556573	protein_coding	KNOWN	None	20137	702	233	105059330	105071320	-1	C14orf90	FLJ42486, TMEM179A
14	TMEM179	ENSG00000258986	ENST00000341595	protein_coding	KNOWN	CCDS9988	20137	594	197	105060420	105071984	-1	C14orf90	FLJ42486, TMEM179A
2	CAPN10	ENSG00000142330	ENST00000391984	protein_coding	KNOWN	CCDS42838	1477	2019	672	241526133	241538526	1	None	None
2	CAPN10	ENSG00000142330	ENST00000463653	retained_intron	KNOWN	None	1477	None	None	241526151	241529227	1	None	None
2	CAPN10	ENSG00000142330	ENST00000404753	protein_coding	NOVEL	None	1477	1962	653	241526156	241538521	1	None	None
2	CAPN10	ENSG00000142330	ENST00000270364	protein_coding	KNOWN	None	1477	420	139	241526189	241557122	1	None	None
2	CAPN10	ENSG00000142330	ENST00000352879	protein_coding	KNOWN	None	1477	417	138	241526288	241538501	1	None	None
2	CAPN10	ENSG00000142330	ENST00000357048	nonsense_mediated_decay	KNOWN	None	1477	1542	513	241526288	241538501	1	None	None
2	CAPN10	ENSG00000142330	ENST00000416591	nonsense_mediated_decay	KNOWN	None	1477	1335	444	241526288	241538501	1	None	None
2	CAPN10	ENSG00000142330	ENST00000354082	protein_coding	KNOWN	CCDS33420	1477	1554	517	241526288	241538501	1	None	None
2	CAPN10	ENSG00000142330	ENST00000270361	nonsense_mediated_decay	KNOWN	None	1477	825	274	241526288	241538501	1	None	None
2	CAPN10	ENSG00000142330	ENST00000391983	nonsense_mediated_decay	KNOWN	None	1477	1635	544	241526288	241538526	1	None	None
2	CAPN10	ENSG00000142330	ENST00000494738	retained_intron	KNOWN	None	1477	None	None	241529301	241538520	1	None	None
2	CAPN10	ENSG00000142330	ENST00000432084	protein_coding	PUTATIVE	None	1477	240	79	241530427	241532295	1	None	None
2	CAPN10	ENSG00000142330	ENST00000465943	retained_intron	KNOWN	None	1477	None	None	241533658	241534520	1	None	None
2	CAPN10	ENSG00000142330	ENST00000483602	retained_intron	KNOWN	None	1477	None	None	241534563	241536119	1	None	None
2	CAPN10	ENSG00000142330	ENST00000493058	retained_intron	KNOWN	None	1477	None	None	241534651	241537816	1	None	None
2	CAPN10	ENSG00000142330	ENST00000426297	nonsense_mediated_decay	KNOWN	None	1477	140	45	241537441	241546937	1	None	None
2	CAPN10	ENSG00000142330	ENST00000391982	protein_coding	KNOWN	None	1477	1335	444	241526152	241535407	1	None	None
16	None	ENSG00000261017	ENST00000563813	processed_pseudogene	KNOWN	None	None	None	None	48093582	48093906	-1	None	None
9	RNU7-36P	ENSG00000252406	ENST00000516597	snRNA	KNOWN	None	34132	None	None	34018258	34018319	-1	RNU7-112P	U7.36
9	RN7SKP114	ENSG00000222259	ENST00000410327	misc_RNA	KNOWN	None	45838	None	None	34049964	34050242	1	None	None
9	None	ENSG00000228352	ENST00000448245	antisense	KNOWN	None	None	None	None	34084330	34096223	1	None	None
9	TUBB4BP2	ENSG00000224802	ENST00000454125	processed_pseudogene	KNOWN	None	42183	None	None	34109169	34109966	-1	None	None
X	None	ENSG00000212434	ENST00000391132	snoRNA	NOVEL	None	None	None	None	68912800	68912998	1	None	None
7	ZNF783	ENSG00000204946	ENST00000434415	protein_coding	KNOWN	CCDS56519	27222	1641	546	148959262	148982082	1	None	DKFZp667J212
7	ZNF783	ENSG00000204946	ENST00000378052	nonsense_mediated_decay	KNOWN	None	27222	846	281	148959262	148994392	1	None	DKFZp667J212
7	ZNF783	ENSG00000204946	ENST00000476295	nonsense_mediated_decay	KNOWN	None	27222	846	281	148959306	148992276	1	None	DKFZp667J212
7	ZNF783	ENSG00000204946	ENST00000481519	nonsense_mediated_decay	KNOWN	None	27222	747	248	148975223	148994393	1	None	DKFZp667J212
7	ZNF783	ENSG00000204946	ENST00000489518	processed_transcript	KNOWN	None	27222	None	None	148975229	148990579	1	None	DKFZp667J212
7	ZNF783	ENSG00000204946	ENST00000418158	protein_coding	KNOWN	None	27222	540	179	148982402	148990914	1	None	DKFZp667J212
7	FLNC	ENSG00000128591	ENST00000325888	protein_coding	KNOWN	CCDS43644	3756	8178	2725	128470431	128499326	1	FLN2	ABP-280, ABPL
7	FLNC	ENSG00000128591	ENST00000346177	protein_coding	KNOWN	CCDS47705	3756	8079	2692	128470480	128499328	1	FLN2	ABP-280, ABPL
7	FLNC	ENSG00000128591	ENST00000388853	retained_intron	KNOWN	None	3756	None	None	128481385	128482912	1	FLN2	ABP-280, ABPL
20	None	ENSG00000179253	ENST00000317652	protein_coding	KNOWN	None	None	423	140	60292562	60294804	-1	None	None
2	ABCG8	ENSG00000143921	ENST00000272286	protein_coding	KNOWN	CCDS1815	13887	2022	673	44066103	44105605	1	None	GBD4
3	SOX2-OT	ENSG00000242808	ENST00000487240	sense_overlapping	KNOWN	None	20209	None	None	180707558	180775032	1	SOX2OT	DKFZp761J1324, NCRNA00043
3	SOX2-OT	ENSG00000242808	ENST00000461063	sense_overlapping	KNOWN	None	20209	None	None	180707569	180893607	1	SOX2OT	DKFZp761J1324, NCRNA00043
3	SOX2-OT	ENSG00000242808	ENST00000493521	sense_overlapping	KNOWN	None	20209	None	None	180774468	181457813	1	SOX2OT	DKFZp761J1324, NCRNA00043
3	SOX2-OT	ENSG00000242808	ENST00000460739	sense_overlapping	KNOWN	None	20209	None	None	180774473	181417572	1	SOX2OT	DKFZp761J1324, NCRNA00043
3	SOX2-OT	ENSG00000242808	ENST00000597347	sense_overlapping	KNOWN	None	20209	None	None	180892678	181417832	1	SOX2OT	DKFZp761J1324, NCRNA00043
3	SOX2-OT	ENSG00000242808	ENST00000493116	sense_overlapping	KNOWN	None	20209	None	None	180892813	181281643	1	SOX2OT	DKFZp761J1324, NCRNA00043
3	SOX2-OT	ENSG00000242808	ENST00000469278	sense_overlapping	KNOWN	None	20209	None	None	180892932	181457445	1	SOX2OT	DKFZp761J1324, NCRNA00043
3	SOX2-OT	ENSG00000242808	ENST00000597828	sense_overlapping	KNOWN	None	20209	None	None	181268542	181457475	1	SOX2OT	DKFZp761J1324, NCRNA00043
3	SOX2-OT	ENSG00000242808	ENST00000595313	sense_overlapping	KNOWN	None	20209	None	None	181268543	181348792	1	SOX2OT	DKFZp761J1324, NCRNA00043
3	SOX2-OT	ENSG00000242808	ENST00000594942	sense_overlapping	KNOWN	None	20209	None	None	181268567	181417584	1	SOX2OT	DKFZp761J1324, NCRNA00043
3	SOX2-OT	ENSG00000242808	ENST00000598867	sense_overlapping	KNOWN	None	20209	None	None	181268582	181389400	1	SOX2OT	DKFZp761J1324, NCRNA00043
3	SOX2-OT	ENSG00000242808	ENST00000497122	sense_overlapping	KNOWN	None	20209	None	None	181281244	181348678	1	SOX2OT	DKFZp761J1324, NCRNA00043
3	SOX2-OT	ENSG00000242808	ENST00000472856	sense_overlapping	KNOWN	None	20209	None	None	181281498	181389529	1	SOX2OT	DKFZp761J1324, NCRNA00043
3	SOX2-OT	ENSG00000242808	ENST00000498731	sense_overlapping	KNOWN	None	20209	None	None	181281509	181460261	1	SOX2OT	DKFZp761J1324, NCRNA00043
3	SOX2-OT	ENSG00000242808	ENST00000476964	sense_overlapping	KNOWN	None	20209	None	None	181328122	181457481	1	SOX2OT	DKFZp761J1324, NCRNA00043
3	SOX2-OT	ENSG00000242808	ENST00000492337	sense_overlapping	KNOWN	None	20209	None	None	181328151	181459018	1	SOX2OT	DKFZp761J1324, NCRNA00043
3	SOX2-OT	ENSG00000242808	ENST00000491282	sense_overlapping	KNOWN	None	20209	None	None	181328312	181457661	1	SOX2OT	DKFZp761J1324, NCRNA00043
3	SOX2-OT	ENSG00000242808	ENST00000498226	sense_overlapping	KNOWN	None	20209	None	None	181328317	181508734	1	SOX2OT	DKFZp761J1324, NCRNA00043
3	SOX2-OT	ENSG00000242808	ENST00000485035	sense_overlapping	KNOWN	None	20209	None	None	181328329	181417668	1	SOX2OT	DKFZp761J1324, NCRNA00043
3	SOX2-OT	ENSG00000242808	ENST00000476125	sense_overlapping	KNOWN	None	20209	None	None	181328397	181428083	1	SOX2OT	DKFZp761J1324, NCRNA00043
3	SOX2-OT	ENSG00000242808	ENST00000477928	sense_overlapping	KNOWN	None	20209	None	None	181417281	181457867	1	SOX2OT	DKFZp761J1324, NCRNA00043
3	SOX2-OT	ENSG00000242808	ENST00000466034	sense_overlapping	KNOWN	None	20209	None	None	181417284	181457786	1	SOX2OT	DKFZp761J1324, NCRNA00043
3	SOX2-OT	ENSG00000242808	ENST00000490005	sense_overlapping	KNOWN	None	20209	None	None	181417382	181417888	1	SOX2OT	DKFZp761J1324, NCRNA00043
3	SOX2-OT	ENSG00000242808	ENST00000600962	sense_overlapping	KNOWN	None	20209	None	None	181417383	181427638	1	SOX2OT	DKFZp761J1324, NCRNA00043
3	SOX2-OT	ENSG00000242808	ENST00000600801	sense_overlapping	KNOWN	None	20209	None	None	181417383	181457458	1	SOX2OT	DKFZp761J1324, NCRNA00043
3	SOX2-OT	ENSG00000242808	ENST00000596250	sense_overlapping	KNOWN	None	20209	None	None	181417383	181457509	1	SOX2OT	DKFZp761J1324, NCRNA00043
3	SOX2-OT	ENSG00000242808	ENST00000593549	sense_overlapping	KNOWN	None	20209	None	None	181417383	181457618	1	SOX2OT	DKFZp761J1324, NCRNA00043
3	SOX2-OT	ENSG00000242808	ENST00000599082	sense_overlapping	KNOWN	None	20209	None	None	181417383	181458983	1	SOX2OT	DKFZp761J1324, NCRNA00043
3	SOX2-OT	ENSG00000242808	ENST00000597651	sense_overlapping	KNOWN	None	20209	None	None	181417383	181501624	1	SOX2OT	DKFZp761J1324, NCRNA00043
3	SOX2-OT	ENSG00000242808	ENST00000600386	sense_overlapping	KNOWN	None	20209	None	None	181417383	181508720	1	SOX2OT	DKFZp761J1324, NCRNA00043
3	SOX2-OT	ENSG00000242808	ENST00000598474	sense_overlapping	KNOWN	None	20209	None	None	181417383	181532091	1	SOX2OT	DKFZp761J1324, NCRNA00043
3	SOX2-OT	ENSG00000242808	ENST00000595287	sense_overlapping	KNOWN	None	20209	None	None	181417386	181496449	1	SOX2OT	DKFZp761J1324, NCRNA00043
3	SOX2-OT	ENSG00000242808	ENST00000600778	sense_overlapping	KNOWN	None	20209	None	None	181417387	181554593	1	SOX2OT	DKFZp761J1324, NCRNA00043
3	SOX2-OT	ENSG00000242808	ENST00000593330	sense_overlapping	KNOWN	None	20209	None	None	181417628	181554668	1	SOX2OT	DKFZp761J1324, NCRNA00043
3	SOX2-OT	ENSG00000242808	ENST00000595084	sense_overlapping	KNOWN	None	20209	None	None	181543416	181554667	1	SOX2OT	DKFZp761J1324, NCRNA00043
3	SOX2-OT	ENSG00000242808	ENST00000410534	miRNA	KNOWN	None	20209	None	None	181417493	181417571	1	SOX2OT	DKFZp761J1324, NCRNA00043
11	EHBP1L1	ENSG00000173442	ENST00000309295	protein_coding	KNOWN	CCDS44649	30682	4572	1523	65343509	65360121	1	None	DKFZp762C186, TANGERIN
11	EHBP1L1	ENSG00000173442	ENST00000533237	protein_coding	PUTATIVE	None	30682	2010	669	65343517	65352888	1	None	DKFZp762C186, TANGERIN
11	EHBP1L1	ENSG00000173442	ENST00000531106	processed_transcript	PUTATIVE	None	30682	None	None	65345672	65346851	1	None	DKFZp762C186, TANGERIN
11	EHBP1L1	ENSG00000173442	ENST00000526990	retained_intron	KNOWN	None	30682	None	None	65348995	65352163	1	None	DKFZp762C186, TANGERIN
11	EHBP1L1	ENSG00000173442	ENST00000533465	protein_coding	PUTATIVE	None	30682	793	263	65349370	65352774	1	None	DKFZp762C186, TANGERIN
11	EHBP1L1	ENSG00000173442	ENST00000529099	processed_transcript	KNOWN	None	30682	None	None	65351766	65359933	1	None	DKFZp762C186, TANGERIN
11	EHBP1L1	ENSG00000173442	ENST00000529596	processed_transcript	PUTATIVE	None	30682	None	None	65358666	65359949	1	None	DKFZp762C186, TANGERIN
11	EHBP1L1	ENSG00000173442	ENST00000533364	protein_coding	PUTATIVE	None	30682	387	128	65358860	65359842	1	None	DKFZp762C186, TANGERIN
11	EHBP1L1	ENSG00000173442	ENST00000527214	retained_intron	KNOWN	None	30682	None	None	65359279	65359933	1	None	DKFZp762C186, TANGERIN
11	EHBP1L1	ENSG00000173442	ENST00000529056	processed_transcript	KNOWN	None	30682	None	None	65359293	65359951	1	None	DKFZp762C186, TANGERIN
HSCHR6_MHC_SSTO	PRRC2A	ENSG00000231825	ENST00000430737	protein_coding	KNOWN	None	13918	6474	2157	31578442	31595492	1	BAT2	G2, D6S51E
HSCHR6_MHC_SSTO	PRRC2A	ENSG00000231825	ENST00000484613	processed_transcript	KNOWN	None	13918	None	None	31578446	31584582	1	BAT2	G2, D6S51E
HSCHR6_MHC_SSTO	PRRC2A	ENSG00000231825	ENST00000422962	protein_coding	KNOWN	None	13918	6474	2157	31578447	31595492	1	BAT2	G2, D6S51E
HSCHR6_MHC_SSTO	PRRC2A	ENSG00000231825	ENST00000481993	retained_intron	KNOWN	None	13918	None	None	31582622	31583217	1	BAT2	G2, D6S51E
HSCHR6_MHC_SSTO	PRRC2A	ENSG00000231825	ENST00000484832	retained_intron	KNOWN	None	13918	None	None	31583474	31584794	1	BAT2	G2, D6S51E
HSCHR6_MHC_SSTO	PRRC2A	ENSG00000231825	ENST00000498465	retained_intron	KNOWN	None	13918	None	None	31586360	31587488	1	BAT2	G2, D6S51E
HSCHR6_MHC_SSTO	PRRC2A	ENSG00000231825	ENST00000495151	retained_intron	KNOWN	None	13918	None	None	31591675	31592477	1	BAT2	G2, D6S51E
HSCHR6_MHC_SSTO	PRRC2A	ENSG00000231825	ENST00000474943	retained_intron	KNOWN	None	13918	None	None	31592128	31593037	1	BAT2	G2, D6S51E
HSCHR6_MHC_SSTO	PRRC2A	ENSG00000231825	ENST00000461046	retained_intron	KNOWN	None	13918	None	None	31592963	31593430	1	BAT2	G2, D6S51E
HSCHR6_MHC_SSTO	PRRC2A	ENSG00000231825	ENST00000492384	retained_intron	KNOWN	None	13918	None	None	31593081	31593971	1	BAT2	G2, D6S51E
HSCHR6_MHC_SSTO	PRRC2A	ENSG00000231825	ENST00000498001	retained_intron	KNOWN	None	13918	None	None	31593097	31594532	1	BAT2	G2, D6S51E
HSCHR6_MHC_SSTO	PRRC2A	ENSG00000231825	ENST00000496449	retained_intron	KNOWN	None	13918	None	None	31593968	31595492	1	BAT2	G2, D6S51E
HSCHR6_MHC_SSTO	PRRC2A	ENSG00000231825	ENST00000494331	retained_intron	KNOWN	None	13918	None	None	31594257	31595492	1	BAT2	G2, D6S51E
HSCHR6_MHC_SSTO	PRRC2A	ENSG00000231825	ENST00000468585	retained_intron	KNOWN	None	13918	None	None	31594556	31595492	1	BAT2	G2, D6S51E
HSCHR6_MHC_SSTO	PRRC2A	ENSG00000231825	ENST00000547669	protein_coding	KNOWN	None	13918	6450	2149	31578395	31595481	1	BAT2	G2, D6S51E
HSCHR6_MHC_SSTO	PRRC2A	ENSG00000231825	ENST00000549768	protein_coding	KNOWN	None	13918	6417	2138	31578395	31595481	1	BAT2	G2, D6S51E
10	VCL	ENSG00000035403	ENST00000372755	protein_coding	KNOWN	CCDS7340	12665	3201	1066	75757872	75879918	1	None	None
10	VCL	ENSG00000035403	ENST00000478896	processed_transcript	KNOWN	None	12665	None	None	75757874	75865051	1	None	None
10	VCL	ENSG00000035403	ENST00000461383	processed_transcript	KNOWN	None	12665	None	None	75802849	75823648	1	None	None
10	VCL	ENSG00000035403	ENST00000436396	protein_coding	KNOWN	None	12665	2421	806	75843234	75879918	1	None	None
10	VCL	ENSG00000035403	ENST00000472585	processed_transcript	KNOWN	None	12665	None	None	75864686	75868733	1	None	None
10	VCL	ENSG00000035403	ENST00000211998	protein_coding	KNOWN	CCDS7341	12665	3405	1134	75757872	75879910	1	None	None
10	VCL	ENSG00000035403	ENST00000417648	protein_coding	KNOWN	None	12665	984	327	75757874	75878237	1	None	None
HSCHR6_MHC_COX	C6orf47	ENSG00000235360	ENST00000366431	protein_coding	KNOWN	None	19076	885	294	31613489	31615961	-1	None	D6S53E, G4
13	STARP1	ENSG00000214266	ENST00000397973	processed_pseudogene	KNOWN	None	11360	None	None	65883987	65885085	-1	None	STARD1P1
19	CSNK1G2-AS1	ENSG00000180846	ENST00000586395	antisense	KNOWN	None	28604	None	None	1952588	1954585	-1	C19orf34	MGC39696
19	CSNK1G2-AS1	ENSG00000180846	ENST00000314315	antisense	KNOWN	None	28604	None	None	1952530	1954548	-1	C19orf34	MGC39696
9	DNAJC25	ENSG00000059769	ENST00000313525	protein_coding	KNOWN	CCDS43862	34187	1083	360	114393632	114416631	1	None	bA16L21.2.1
9	DNAJC25	ENSG00000059769	ENST00000463589	nonsense_mediated_decay	KNOWN	None	34187	426	141	114393640	114416625	1	None	bA16L21.2.1
9	DNAJC25	ENSG00000059769	ENST00000447096	nonsense_mediated_decay	KNOWN	None	34187	408	135	114393640	114416631	1	None	bA16L21.2.1
9	DNAJC25	ENSG00000059769	ENST00000556107	protein_coding	KNOWN	None	34187	462	153	114393666	114432508	1	None	bA16L21.2.1
7	TMUB1	ENSG00000164897	ENST00000297533	protein_coding	KNOWN	CCDS5920	21709	741	246	150778167	150780633	-1	C7orf21	SB144
7	TMUB1	ENSG00000164897	ENST00000392818	protein_coding	KNOWN	CCDS5920	21709	741	246	150778172	150780178	-1	C7orf21	SB144
7	TMUB1	ENSG00000164897	ENST00000462940	protein_coding	KNOWN	CCDS5920	21709	741	246	150778173	150779995	-1	C7orf21	SB144
7	TMUB1	ENSG00000164897	ENST00000482202	protein_coding	KNOWN	CCDS5920	21709	741	246	150778571	150780487	-1	C7orf21	SB144
7	TMUB1	ENSG00000164897	ENST00000476627	protein_coding	KNOWN	CCDS5920	21709	741	246	150778583	150780319	-1	C7orf21	SB144
7	TMUB1	ENSG00000164897	ENST00000488752	protein_coding	KNOWN	None	21709	512	169	150778865	150780211	-1	C7orf21	SB144
7	TMUB1	ENSG00000164897	ENST00000492838	protein_coding	KNOWN	None	21709	456	151	150778921	150780068	-1	C7orf21	SB144
15	None	ENSG00000269360	ENST00000599897	protein_coding	KNOWN	None	None	546	181	93749295	93751277	1	None	None
7	SAMD9L	ENSG00000177409	ENST00000318238	protein_coding	KNOWN	CCDS34681	1349	4755	1584	92759368	92777681	-1	C7orf6	KIAA2005, FLJ39885
7	SAMD9L	ENSG00000177409	ENST00000411955	protein_coding	KNOWN	CCDS34681	1349	4755	1584	92760076	92777667	-1	C7orf6	KIAA2005, FLJ39885
7	SAMD9L	ENSG00000177409	ENST00000437805	protein_coding	KNOWN	CCDS34681	1349	4755	1584	92760346	92777658	-1	C7orf6	KIAA2005, FLJ39885
7	SAMD9L	ENSG00000177409	ENST00000446959	protein_coding	KNOWN	None	1349	209	68	92765076	92777658	-1	C7orf6	KIAA2005, FLJ39885
7	SAMD9L	ENSG00000177409	ENST00000439952	protein_coding	KNOWN	None	1349	209	68	92765076	92777658	-1	C7orf6	KIAA2005, FLJ39885
7	SAMD9L	ENSG00000177409	ENST00000414791	protein_coding	KNOWN	None	1349	209	68	92765076	92777658	-1	C7orf6	KIAA2005, FLJ39885
7	SAMD9L	ENSG00000177409	ENST00000446033	protein_coding	KNOWN	None	1349	209	68	92765076	92777658	-1	C7orf6	KIAA2005, FLJ39885
7	SAMD9L	ENSG00000177409	ENST00000477816	processed_transcript	KNOWN	None	1349	None	None	92774919	92777682	-1	C7orf6	KIAA2005, FLJ39885
X	FAM47DP	ENSG00000174678	ENST00000402340	processed_pseudogene	KNOWN	None	34342	None	None	37400330	37404515	-1	None	None
8	HTRA4	ENSG00000169495	ENST00000302495	protein_coding	KNOWN	CCDS6110	26909	1431	476	38831683	38846181	1	None	FLJ90724
19	None	ENSG00000267283	ENST00000587498	antisense	KNOWN	None	None	None	None	1989400	1990202	1	None	None
19	None	ENSG00000267283	ENST00000588480	antisense	KNOWN	None	None	None	None	1989902	1990369	1	None	None
5	None	ENSG00000248240	ENST00000504277	antisense	KNOWN	None	None	None	None	43515376	43525412	1	None	None
6	None	ENSG00000232529	ENST00000453579	lincRNA	KNOWN	None	None	None	None	155701645	155702317	-1	None	None
13	HNRNPA3P5	ENSG00000236565	ENST00000455201	processed_pseudogene	KNOWN	None	39774	None	None	66362064	66362896	-1	None	None
13	HNRNPA3P5	ENSG00000236565	ENST00000434355	processed_pseudogene	KNOWN	None	39774	None	None	66362064	66362255	-1	None	None
19	RN7SL226P	ENSG00000265900	ENST00000577905	misc_RNA	KNOWN	None	46242	None	None	2020329	2020580	1	None	None
19	None	ENSG00000267180	ENST00000589141	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	2030852	2031050	-1	None	None
6	RNU7-152P	ENSG00000238789	ENST00000458982	snRNA	KNOWN	None	45686	None	None	155976097	155976160	-1	None	None
13	None	ENSG00000221685	ENST00000408758	miRNA	NOVEL	None	None	None	None	66438305	66438398	1	None	None
HSCHR6_MHC_MCF	STK19	ENSG00000226033	ENST00000496606	retained_intron	KNOWN	None	11398	None	None	32015399	32023235	1	None	D6S60, G11, RP1
HSCHR6_MHC_MCF	STK19	ENSG00000226033	ENST00000444147	protein_coding	KNOWN	None	11398	1095	364	32016093	32025671	1	None	D6S60, G11, RP1
HSCHR6_MHC_MCF	STK19	ENSG00000226033	ENST00000431383	protein_coding	KNOWN	None	11398	1107	368	32016168	32025671	1	None	D6S60, G11, RP1
HSCHR6_MHC_MCF	STK19	ENSG00000226033	ENST00000481637	retained_intron	KNOWN	None	11398	None	None	32016564	32025671	1	None	D6S60, G11, RP1
HSCHR6_MHC_MCF	STK19	ENSG00000226033	ENST00000478362	processed_transcript	PUTATIVE	None	11398	None	None	32016577	32025671	1	None	D6S60, G11, RP1
HSCHR6_MHC_MCF	STK19	ENSG00000226033	ENST00000523972	nonsense_mediated_decay	KNOWN	None	11398	211	69	32016605	32025413	1	None	D6S60, G11, RP1
HSCHR6_MHC_MCF	STK19	ENSG00000226033	ENST00000472138	processed_transcript	KNOWN	None	11398	None	None	32016612	32025671	1	None	D6S60, G11, RP1
HSCHR6_MHC_MCF	STK19	ENSG00000226033	ENST00000480096	retained_intron	KNOWN	None	11398	None	None	32016615	32017642	1	None	D6S60, G11, RP1
HSCHR6_MHC_MCF	STK19	ENSG00000226033	ENST00000465050	processed_transcript	KNOWN	None	11398	None	None	32016779	32025671	1	None	D6S60, G11, RP1
HSCHR6_MHC_MCF	STK19	ENSG00000226033	ENST00000465734	retained_intron	KNOWN	None	11398	None	None	32016802	32024087	1	None	D6S60, G11, RP1
HSCHR6_MHC_MCF	STK19	ENSG00000226033	ENST00000480672	processed_transcript	KNOWN	None	11398	None	None	32016806	32025026	1	None	D6S60, G11, RP1
HSCHR6_MHC_MCF	STK19	ENSG00000226033	ENST00000463291	retained_intron	KNOWN	None	11398	None	None	32024616	32025671	1	None	D6S60, G11, RP1
HSCHR6_MHC_MCF	STK19	ENSG00000226033	ENST00000549916	protein_coding	KNOWN	None	11398	966	321	32015399	32025670	1	None	D6S60, G11, RP1
1	CREG1	ENSG00000143162	ENST00000466652	processed_transcript	KNOWN	None	2351	None	None	167498914	167515417	-1	CREG	None
1	CREG1	ENSG00000143162	ENST00000370509	protein_coding	KNOWN	CCDS1262	2351	663	220	167510250	167523004	-1	CREG	None
6	MIR1202	ENSG00000221456	ENST00000408529	miRNA	KNOWN	None	35268	None	None	156267931	156268013	1	MIRN1202	hsa-mir-1202
5	None	ENSG00000248092	ENST00000513560	antisense	KNOWN	None	None	None	None	43571696	43603206	-1	None	None
5	None	ENSG00000248092	ENST00000515466	antisense	KNOWN	None	None	None	None	43575880	43603278	-1	None	None
5	None	ENSG00000248092	ENST00000606697	antisense	KNOWN	None	None	None	None	43577744	43603165	-1	None	None
5	None	ENSG00000248092	ENST00000503484	antisense	KNOWN	None	None	None	None	43578439	43603039	-1	None	None
5	None	ENSG00000248092	ENST00000500258	antisense	KNOWN	None	None	None	None	43579232	43603165	-1	None	None
5	None	ENSG00000248092	ENST00000506247	antisense	KNOWN	None	None	None	None	43588743	43603332	-1	None	None
19	SNORD32A	ENSG00000201675	ENST00000364805	snoRNA	KNOWN	None	10159	None	None	49993222	49993305	1	RNU32	U32, U32A
13	None	ENSG00000234767	ENST00000437777	lincRNA	KNOWN	None	None	None	None	66440306	66452351	1	None	None
20	TAF4	ENSG00000130699	ENST00000474089	processed_transcript	KNOWN	None	11537	None	None	60528525	60573243	-1	TAF4A, TAF2C1, TAF2C	TAFII130, TAFII135
20	TAF4	ENSG00000130699	ENST00000436129	protein_coding	KNOWN	None	11537	2850	949	60549852	60640843	-1	TAF4A, TAF2C1, TAF2C	TAFII130, TAFII135
20	TAF4	ENSG00000130699	ENST00000252996	protein_coding	KNOWN	CCDS33500	11537	3258	1085	60549852	60640866	-1	TAF4A, TAF2C1, TAF2C	TAFII130, TAFII135
20	TAF4	ENSG00000130699	ENST00000488539	processed_transcript	KNOWN	None	11537	None	None	60575624	60582617	-1	TAF4A, TAF2C1, TAF2C	TAFII130, TAFII135
20	TAF4	ENSG00000130699	ENST00000486599	processed_transcript	KNOWN	None	11537	None	None	60583907	60585189	-1	TAF4A, TAF2C1, TAF2C	TAFII130, TAFII135
6	None	ENSG00000212295	ENST00000390993	snoRNA	NOVEL	None	None	None	None	156699884	156699958	1	None	None
19	None	ENSG00000267122	ENST00000585593	antisense	KNOWN	None	None	None	None	2212028	2215564	-1	None	None
16	MYLK3	ENSG00000140795	ENST00000394809	protein_coding	KNOWN	CCDS10723	29826	2460	819	46740891	46782221	-1	None	caMLCK, MLCK
16	MYLK3	ENSG00000140795	ENST00000536476	protein_coding	PUTATIVE	None	29826	1437	478	46741578	46797158	-1	None	caMLCK, MLCK
16	MYLK3	ENSG00000140795	ENST00000565182	retained_intron	KNOWN	None	29826	None	None	46741580	46744899	-1	None	caMLCK, MLCK
16	MYLK3	ENSG00000140795	ENST00000562104	processed_transcript	KNOWN	None	29826	None	None	46741604	46745702	-1	None	caMLCK, MLCK
16	MYLK3	ENSG00000140795	ENST00000564731	retained_intron	KNOWN	None	29826	None	None	46759688	46772049	-1	None	caMLCK, MLCK
16	MYLK3	ENSG00000140795	ENST00000569844	retained_intron	KNOWN	None	29826	None	None	46761150	46763849	-1	None	caMLCK, MLCK
16	MYLK3	ENSG00000140795	ENST00000569810	processed_transcript	KNOWN	None	29826	None	None	46771950	46824319	-1	None	caMLCK, MLCK
13	MIR548X2	ENSG00000263581	ENST00000579776	miRNA	KNOWN	None	41734	None	None	66540462	66540561	-1	None	hsa-mir-548x-2
6	None	ENSG00000227360	ENST00000449072	lincRNA	KNOWN	None	None	None	None	156814360	156820905	-1	None	None
6	None	ENSG00000227360	ENST00000433486	lincRNA	KNOWN	None	None	None	None	156818880	156820100	-1	None	None
19	MIR1227	ENSG00000221411	ENST00000408484	miRNA	KNOWN	None	33932	None	None	2234061	2234148	-1	MIRN1227	hsa-mir-1227
13	MIR4704	ENSG00000263561	ENST00000581678	miRNA	KNOWN	None	41602	None	None	66792382	66792456	1	None	hsa-mir-4704
10	RN7SKP238	ENSG00000252292	ENST00000516483	misc_RNA	KNOWN	None	45962	None	None	87409769	87410017	-1	None	None
19	MIR4321	ENSG00000267021	ENST00000592276	lincRNA	KNOWN	None	38244	None	None	2250638	2250717	1	None	hsa-mir-4321
19	SNORD33	ENSG00000199631	ENST00000362761	snoRNA	KNOWN	None	10160	None	None	49993872	49993956	1	RNU33	U33
13	TRIM60P19	ENSG00000235737	ENST00000452879	processed_pseudogene	KNOWN	None	42010	None	None	66843129	66844590	1	None	None
10	None	ENSG00000236606	ENST00000412054	processed_pseudogene	KNOWN	None	None	None	None	87468517	87468924	1	None	None
5	None	ENSG00000249286	ENST00000508874	processed_pseudogene	KNOWN	None	None	None	None	43587020	43588325	-1	None	None
19	None	ENSG00000267621	ENST00000582129	processed_pseudogene	KNOWN	None	None	None	None	2270133	2270945	-1	None	None
HSCHR6_MHC_COX	VARS	ENSG00000226589	ENST00000472262	processed_transcript	PUTATIVE	None	12651	None	None	31732662	31733326	-1	VARS2	None
HSCHR6_MHC_COX	VARS	ENSG00000226589	ENST00000457796	protein_coding	KNOWN	None	12651	3795	1264	31732662	31751095	-1	VARS2	None
HSCHR6_MHC_COX	VARS	ENSG00000226589	ENST00000482263	retained_intron	KNOWN	None	12651	None	None	31734374	31735195	-1	VARS2	None
HSCHR6_MHC_COX	VARS	ENSG00000226589	ENST00000428796	protein_coding	KNOWN	None	12651	863	286	31735599	31737733	-1	VARS2	None
HSCHR6_MHC_COX	VARS	ENSG00000226589	ENST00000469542	processed_transcript	KNOWN	None	12651	None	None	31735695	31737338	-1	VARS2	None
HSCHR6_MHC_COX	VARS	ENSG00000226589	ENST00000466721	retained_intron	KNOWN	None	12651	None	None	31736021	31737069	-1	VARS2	None
HSCHR6_MHC_COX	VARS	ENSG00000226589	ENST00000478549	retained_intron	KNOWN	None	12651	None	None	31736022	31736894	-1	VARS2	None
HSCHR6_MHC_COX	VARS	ENSG00000226589	ENST00000462575	retained_intron	KNOWN	None	12651	None	None	31736502	31737564	-1	VARS2	None
HSCHR6_MHC_COX	VARS	ENSG00000226589	ENST00000488448	retained_intron	KNOWN	None	12651	None	None	31736837	31738383	-1	VARS2	None
HSCHR6_MHC_COX	VARS	ENSG00000226589	ENST00000483266	processed_transcript	KNOWN	None	12651	None	None	31736844	31737573	-1	VARS2	None
HSCHR6_MHC_COX	VARS	ENSG00000226589	ENST00000486768	retained_intron	KNOWN	None	12651	None	None	31737556	31739580	-1	VARS2	None
HSCHR6_MHC_COX	VARS	ENSG00000226589	ENST00000478826	retained_intron	KNOWN	None	12651	None	None	31739743	31748102	-1	VARS2	None
HSCHR6_MHC_COX	VARS	ENSG00000226589	ENST00000495738	retained_intron	KNOWN	None	12651	None	None	31740391	31747420	-1	VARS2	None
HSCHR6_MHC_COX	VARS	ENSG00000226589	ENST00000424984	protein_coding	KNOWN	None	12651	522	173	31748128	31750641	-1	VARS2	None
10	RNA5SP322	ENSG00000200487	ENST00000363617	rRNA	KNOWN	None	43222	None	None	87812205	87812323	1	RN5S322	None
16	COTL1	ENSG00000103187	ENST00000262428	protein_coding	KNOWN	CCDS10947	18304	429	142	84599200	84651683	-1	None	CLP
16	COTL1	ENSG00000103187	ENST00000567278	processed_transcript	KNOWN	None	18304	None	None	84599208	84610702	-1	None	CLP
16	COTL1	ENSG00000103187	ENST00000564057	protein_coding	PUTATIVE	None	18304	222	73	84599265	84651665	-1	None	CLP
16	COTL1	ENSG00000103187	ENST00000561707	retained_intron	KNOWN	None	18304	None	None	84600156	84624085	-1	None	CLP
16	COTL1	ENSG00000103187	ENST00000564662	retained_intron	KNOWN	None	18304	None	None	84623731	84651681	-1	None	CLP
16	COTL1	ENSG00000103187	ENST00000567786	processed_transcript	KNOWN	None	18304	None	None	84649630	84651165	-1	None	CLP
19	None	ENSG00000270079	ENST00000602464	lincRNA	KNOWN	None	None	None	None	2287163	2287942	-1	None	None
10	MIR346	ENSG00000199104	ENST00000362234	miRNA	KNOWN	None	31780	None	None	88024451	88024545	-1	MIRN346	hsa-mir-346
19	SNORD34	ENSG00000202503	ENST00000365633	snoRNA	KNOWN	None	10161	None	None	49994161	49994231	1	RNU34	U34
5	None	ENSG00000224993	ENST00000481681	processed_pseudogene	KNOWN	None	None	None	None	43666868	43667334	-1	None	None
5	None	ENSG00000224993	ENST00000458386	processed_pseudogene	KNOWN	None	None	None	None	43666867	43667334	-1	None	None
10	None	ENSG00000238803	ENST00000459197	miRNA	NOVEL	None	None	None	None	88062583	88062678	-1	None	None
11	RRAS2	ENSG00000133818	ENST00000414023	protein_coding	KNOWN	CCDS44544	17271	384	127	14299510	14317405	-1	None	TC21
11	RRAS2	ENSG00000133818	ENST00000529237	protein_coding	KNOWN	CCDS44544	17271	384	127	14300228	14386052	-1	None	TC21
11	RRAS2	ENSG00000133818	ENST00000256196	protein_coding	KNOWN	CCDS7814	17271	615	204	14300296	14380730	-1	None	TC21
11	RRAS2	ENSG00000133818	ENST00000534746	protein_coding	KNOWN	CCDS44544	17271	384	127	14300485	14376046	-1	None	TC21
11	RRAS2	ENSG00000133818	ENST00000526063	protein_coding	KNOWN	CCDS44544	17271	384	127	14300649	14380031	-1	None	TC21
11	RRAS2	ENSG00000133818	ENST00000532814	protein_coding	KNOWN	CCDS44544	17271	384	127	14300656	14380031	-1	None	TC21
11	RRAS2	ENSG00000133818	ENST00000531807	protein_coding	PUTATIVE	None	17271	498	165	14300943	14363640	-1	None	TC21
11	RRAS2	ENSG00000133818	ENST00000532950	nonsense_mediated_decay	KNOWN	None	17271	144	47	14303148	14380693	-1	None	TC21
11	RRAS2	ENSG00000133818	ENST00000531421	protein_coding	KNOWN	None	17271	208	68	14303236	14358712	-1	None	TC21
11	RRAS2	ENSG00000133818	ENST00000526717	nonsense_mediated_decay	KNOWN	None	17271	159	52	14316006	14380701	-1	None	TC21
11	RRAS2	ENSG00000133818	ENST00000537760	protein_coding	KNOWN	CCDS53603	17271	510	169	14299472	14386052	-1	None	TC21
11	RRAS2	ENSG00000133818	ENST00000545643	protein_coding	KNOWN	None	17271	633	210	14299472	14380730	-1	None	TC21
8	ADAM7	ENSG00000069206	ENST00000441335	protein_coding	NOVEL	None	214	633	210	24298443	24325160	1	None	GP-83, EAPI
8	ADAM7	ENSG00000069206	ENST00000175238	protein_coding	KNOWN	CCDS6045	214	2265	754	24298539	24367078	1	None	GP-83, EAPI
8	ADAM7	ENSG00000069206	ENST00000380789	protein_coding	NOVEL	None	214	2331	776	24298597	24367061	1	None	GP-83, EAPI
8	ADAM7	ENSG00000069206	ENST00000520720	protein_coding	PUTATIVE	None	214	1551	516	24333417	24384483	1	None	GP-83, EAPI
10	RNU6-780P	ENSG00000212332	ENST00000391030	snRNA	KNOWN	None	47743	None	None	88248203	88248306	1	None	None
10	None	ENSG00000227896	ENST00000428940	antisense	KNOWN	None	None	None	None	88281702	88282443	1	None	None
19	ZNF805	ENSG00000204524	ENST00000354309	protein_coding	KNOWN	CCDS46208	23272	1485	494	57752053	57766503	1	None	None
19	ZNF805	ENSG00000204524	ENST00000414468	protein_coding	KNOWN	CCDS46207	23272	1884	627	57752260	57766071	1	None	None
19	ZNF805	ENSG00000204524	ENST00000535550	protein_coding	KNOWN	CCDS46208	23272	1485	494	57751973	57766503	1	None	None
19	SNORD35A	ENSG00000200259	ENST00000363389	snoRNA	KNOWN	None	10162	None	None	49994432	49994517	1	RNU35	U35, RNU35A
5	None	ENSG00000249276	ENST00000508829	lincRNA	KNOWN	None	None	None	None	43874469	43886730	1	None	None
5	DNAH5	ENSG00000039139	ENST00000265104	protein_coding	KNOWN	CCDS3882	2950	13875	4624	13690440	13944652	-1	None	Dnahc5, HL1, PCD, CILD3, KTGNR
5	DNAH5	ENSG00000039139	ENST00000504001	processed_transcript	KNOWN	None	2950	None	None	13762860	13771391	-1	None	Dnahc5, HL1, PCD, CILD3, KTGNR
5	DNAH5	ENSG00000039139	ENST00000512443	retained_intron	KNOWN	None	2950	None	None	13807767	13810632	-1	None	Dnahc5, HL1, PCD, CILD3, KTGNR
5	DNAH5	ENSG00000039139	ENST00000508040	retained_intron	KNOWN	None	2950	None	None	13911466	13932565	-1	None	Dnahc5, HL1, PCD, CILD3, KTGNR
5	RNU6-381P	ENSG00000212561	ENST00000391259	snRNA	KNOWN	None	47344	None	None	44066726	44066833	-1	None	None
10	RPL7AP8	ENSG00000230507	ENST00000481963	processed_pseudogene	KNOWN	None	23738	None	None	88390582	88391385	-1	None	bA141D8.1
10	RPL7AP8	ENSG00000230507	ENST00000540903	processed_pseudogene	KNOWN	None	23738	None	None	88390582	88391367	-1	None	bA141D8.1
3	FBLN2	ENSG00000163520	ENST00000404922	protein_coding	KNOWN	CCDS46761	3601	3696	1231	13590631	13679922	1	None	None
3	FBLN2	ENSG00000163520	ENST00000295760	protein_coding	KNOWN	CCDS46762	3601	3555	1184	13590681	13679922	1	None	None
3	FBLN2	ENSG00000163520	ENST00000465610	protein_coding	KNOWN	None	3601	476	157	13607976	13612331	1	None	None
3	FBLN2	ENSG00000163520	ENST00000492059	protein_coding	KNOWN	CCDS46761	3601	3696	1231	13610240	13679534	1	None	None
3	FBLN2	ENSG00000163520	ENST00000477845	retained_intron	KNOWN	None	3601	None	None	13655398	13660493	1	None	None
3	FBLN2	ENSG00000163520	ENST00000295761	protein_coding	PUTATIVE	None	3601	329	108	13672829	13679880	1	None	None
3	FBLN2	ENSG00000163520	ENST00000421373	protein_coding	PUTATIVE	None	3601	305	100	13677945	13679907	1	None	None
3	FBLN2	ENSG00000163520	ENST00000535798	protein_coding	KNOWN	None	3601	3633	1210	13573824	13679512	1	None	None
10	NPM1P31	ENSG00000214807	ENST00000399021	processed_pseudogene	KNOWN	None	45210	None	None	126556079	126556895	1	None	None
2	MFSD9	ENSG00000135953	ENST00000496253	processed_transcript	PUTATIVE	None	28158	None	None	103332299	103334793	-1	None	MGC11332
2	MFSD9	ENSG00000135953	ENST00000258436	protein_coding	KNOWN	CCDS2063	28158	1425	474	103332299	103353313	-1	None	MGC11332
2	MFSD9	ENSG00000135953	ENST00000438943	nonsense_mediated_decay	KNOWN	None	28158	279	92	103333497	103353337	-1	None	MGC11332
2	MFSD9	ENSG00000135953	ENST00000437075	nonsense_mediated_decay	KNOWN	None	28158	297	98	103334030	103353337	-1	None	MGC11332
2	MFSD9	ENSG00000135953	ENST00000411991	nonsense_mediated_decay	KNOWN	None	28158	279	92	103335273	103353337	-1	None	MGC11332
2	MFSD9	ENSG00000135953	ENST00000428085	nonsense_mediated_decay	KNOWN	None	28158	240	79	103335463	103348799	-1	None	MGC11332
2	MFSD9	ENSG00000135953	ENST00000421966	nonsense_mediated_decay	KNOWN	None	28158	201	66	103343377	103353347	-1	None	MGC11332
2	MFSD9	ENSG00000135953	ENST00000462099	retained_intron	KNOWN	None	28158	None	None	103348745	103353298	-1	None	MGC11332
10	LINC00842	ENSG00000223477	ENST00000503031	lincRNA	KNOWN	None	44989	None	None	47011753	47174018	-1	None	None
10	LINC00842	ENSG00000223477	ENST00000422732	lincRNA	KNOWN	None	44989	None	None	47096454	47151400	-1	None	None
10	LINC00842	ENSG00000223477	ENST00000319426	lincRNA	KNOWN	None	44989	None	None	47151363	47151848	-1	None	None
3	ATG7	ENSG00000197548	ENST00000451513	protein_coding	KNOWN	None	16935	528	175	11313995	11354894	1	APG7L	GSA7, DKFZp434N0735
3	ATG7	ENSG00000197548	ENST00000435760	protein_coding	KNOWN	None	16935	199	65	11314034	11340874	1	APG7L	GSA7, DKFZp434N0735
3	ATG7	ENSG00000197548	ENST00000451830	protein_coding	PUTATIVE	None	16935	456	151	11314034	11356862	1	APG7L	GSA7, DKFZp434N0735
3	ATG7	ENSG00000197548	ENST00000460444	processed_transcript	KNOWN	None	16935	None	None	11314061	11346141	1	APG7L	GSA7, DKFZp434N0735
3	ATG7	ENSG00000197548	ENST00000470474	retained_intron	KNOWN	None	16935	None	None	11314068	11340644	1	APG7L	GSA7, DKFZp434N0735
3	ATG7	ENSG00000197548	ENST00000444619	protein_coding	KNOWN	None	16935	281	92	11314089	11348482	1	APG7L	GSA7, DKFZp434N0735
3	ATG7	ENSG00000197548	ENST00000418682	nonsense_mediated_decay	KNOWN	None	16935	231	76	11314092	11356956	1	APG7L	GSA7, DKFZp434N0735
3	ATG7	ENSG00000197548	ENST00000446450	protein_coding	NOVEL	CCDS46753	16935	1872	623	11314102	11596462	1	APG7L	GSA7, DKFZp434N0735
3	ATG7	ENSG00000197548	ENST00000354956	protein_coding	KNOWN	CCDS46752	16935	2031	676	11314102	11596557	1	APG7L	GSA7, DKFZp434N0735
3	ATG7	ENSG00000197548	ENST00000354449	protein_coding	KNOWN	CCDS2605	16935	2112	703	11314102	11599139	1	APG7L	GSA7, DKFZp434N0735
3	ATG7	ENSG00000197548	ENST00000419112	protein_coding	KNOWN	None	16935	268	88	11314109	11348469	1	APG7L	GSA7, DKFZp434N0735
3	ATG7	ENSG00000197548	ENST00000469654	processed_transcript	KNOWN	None	16935	None	None	11314129	11346023	1	APG7L	GSA7, DKFZp434N0735
3	ATG7	ENSG00000197548	ENST00000423116	protein_coding	KNOWN	None	16935	378	125	11318905	11350502	1	APG7L	GSA7, DKFZp434N0735
3	ATG7	ENSG00000197548	ENST00000488924	processed_transcript	KNOWN	None	16935	None	None	11349916	11372867	1	APG7L	GSA7, DKFZp434N0735
3	ATG7	ENSG00000197548	ENST00000464282	processed_transcript	PUTATIVE	None	16935	None	None	11349949	11354870	1	APG7L	GSA7, DKFZp434N0735
3	ATG7	ENSG00000197548	ENST00000424071	nonsense_mediated_decay	KNOWN	None	16935	233	76	11350483	11400084	1	APG7L	GSA7, DKFZp434N0735
3	ATG7	ENSG00000197548	ENST00000434066	nonsense_mediated_decay	KNOWN	None	16935	318	105	11354817	11383753	1	APG7L	GSA7, DKFZp434N0735
3	ATG7	ENSG00000197548	ENST00000478638	processed_transcript	KNOWN	None	16935	None	None	11372876	11389445	1	APG7L	GSA7, DKFZp434N0735
3	ATG7	ENSG00000197548	ENST00000461278	retained_intron	KNOWN	None	16935	None	None	11374187	11383681	1	APG7L	GSA7, DKFZp434N0735
3	ATG7	ENSG00000197548	ENST00000460291	retained_intron	KNOWN	None	16935	None	None	11383674	11390221	1	APG7L	GSA7, DKFZp434N0735
3	ATG7	ENSG00000197548	ENST00000467121	retained_intron	KNOWN	None	16935	None	None	11402055	11404570	1	APG7L	GSA7, DKFZp434N0735
3	ATG7	ENSG00000197548	ENST00000414717	protein_coding	PUTATIVE	None	16935	288	95	11406131	11488410	1	APG7L	GSA7, DKFZp434N0735
3	ATG7	ENSG00000197548	ENST00000427759	protein_coding	PUTATIVE	None	16935	290	95	11406132	11518781	1	APG7L	GSA7, DKFZp434N0735
3	ATG7	ENSG00000197548	ENST00000446110	protein_coding	PUTATIVE	None	16935	418	138	11406133	11551813	1	APG7L	GSA7, DKFZp434N0735
10	None	ENSG00000249456	ENST00000508096	sense_overlapping	KNOWN	None	None	None	None	126605712	126631450	1	None	None
10	None	ENSG00000252189	ENST00000516380	snoRNA	NOVEL	None	None	None	None	88505597	88505706	-1	None	None
18	CDH7	ENSG00000081138	ENST00000323011	protein_coding	KNOWN	CCDS11993	1766	2358	785	63417488	63548175	1	None	None
18	CDH7	ENSG00000081138	ENST00000536984	protein_coding	PUTATIVE	None	1766	1893	630	63417889	63531361	1	None	None
18	CDH7	ENSG00000081138	ENST00000397968	protein_coding	KNOWN	CCDS11993	1766	2358	785	63418157	63548638	1	None	None
18	CDH7	ENSG00000081138	ENST00000581601	processed_transcript	PUTATIVE	None	1766	None	None	63430244	63471046	1	None	None
X	ZBTB33	ENSG00000177485	ENST00000326624	protein_coding	KNOWN	CCDS14596	16682	2019	672	119384607	119392253	1	None	ZNF-kaiso, kaiso, WUGSC:H_DJ525N14.1, KAISO, ZNF348
X	ZBTB33	ENSG00000177485	ENST00000557385	protein_coding	KNOWN	CCDS14596	16682	2019	672	119384610	119389289	1	None	ZNF-kaiso, kaiso, WUGSC:H_DJ525N14.1, KAISO, ZNF348
10	None	ENSG00000270874	ENST00000603626	processed_pseudogene	KNOWN	None	None	None	None	88614453	88615993	-1	None	None
15	None	ENSG00000259655	ENST00000557959	unprocessed_pseudogene	KNOWN	None	None	None	None	100331332	100333052	1	None	None
10	None	ENSG00000226899	ENST00000449984	antisense	KNOWN	None	None	None	None	126633773	126635001	-1	None	None
16	None	ENSG00000261538	ENST00000563906	3prime_overlapping_ncrna	KNOWN	None	None	None	None	48198863	48201149	-1	None	None
10	MIR4296	ENSG00000264572	ENST00000581038	miRNA	KNOWN	None	38178	None	None	126721352	126721439	-1	None	hsa-mir-4296
3	PRICKLE2	ENSG00000163637	ENST00000295902	protein_coding	KNOWN	CCDS2902	20340	2535	844	64079543	64211131	-1	None	DKFZp686D143
3	PRICKLE2	ENSG00000163637	ENST00000564377	protein_coding	NOVEL	None	20340	2703	900	64083198	64431058	-1	None	DKFZp686D143
3	PRICKLE2	ENSG00000163637	ENST00000498162	protein_coding	KNOWN	None	20340	452	149	64142986	64253655	-1	None	DKFZp686D143
3	PRICKLE2	ENSG00000163637	ENST00000569824	protein_coding	NOVEL	None	20340	420	139	64184460	64431152	-1	None	DKFZp686D143
10	MRPS21P6	ENSG00000214298	ENST00000415184	processed_pseudogene	KNOWN	None	29753	None	None	126855246	126855506	1	None	None
10	RPS27P18	ENSG00000233135	ENST00000431701	unprocessed_pseudogene	KNOWN	None	36296	None	None	127162255	127162501	-1	None	None
17	MRPL10	ENSG00000159111	ENST00000351111	protein_coding	KNOWN	CCDS11516	14055	786	261	45900638	45908883	-1	None	RPML8, MRP-L8, L10MT, MRP-L10, MRPL8, MGC17973
17	MRPL10	ENSG00000159111	ENST00000290208	protein_coding	PUTATIVE	CCDS11517	14055	816	271	45900827	45907039	-1	None	RPML8, MRP-L8, L10MT, MRP-L10, MRPL8, MGC17973
17	MRPL10	ENSG00000159111	ENST00000414011	protein_coding	PUTATIVE	CCDS11517	14055	816	271	45900856	45908900	-1	None	RPML8, MRP-L8, L10MT, MRP-L10, MRPL8, MGC17973
17	MRPL10	ENSG00000159111	ENST00000421763	nonsense_mediated_decay	KNOWN	None	14055	147	48	45900949	45908896	-1	None	RPML8, MRP-L8, L10MT, MRP-L10, MRPL8, MGC17973
17	MRPL10	ENSG00000159111	ENST00000466016	retained_intron	KNOWN	None	14055	None	None	45904261	45908889	-1	None	RPML8, MRP-L8, L10MT, MRP-L10, MRPL8, MGC17973
17	MRPL10	ENSG00000159111	ENST00000423147	nonsense_mediated_decay	KNOWN	None	14055	147	48	45904440	45908889	-1	None	RPML8, MRP-L8, L10MT, MRP-L10, MRPL8, MGC17973
17	MRPL10	ENSG00000159111	ENST00000480901	retained_intron	KNOWN	None	14055	None	None	45905674	45908891	-1	None	RPML8, MRP-L8, L10MT, MRP-L10, MRPL8, MGC17973
5	None	ENSG00000233828	ENST00000445770	protein_coding	KNOWN	None	None	465	154	86512423	86534822	-1	None	None
10	None	ENSG00000237675	ENST00000446081	antisense	KNOWN	None	None	None	None	127262940	127267014	1	None	None
10	None	ENSG00000237675	ENST00000431861	antisense	KNOWN	None	None	None	None	127263014	127266935	1	None	None
6	MED23	ENSG00000112282	ENST00000354577	protein_coding	KNOWN	CCDS5146	2372	4098	1365	131895106	131949345	-1	CRSP3	CRSP130, DRIP130, Sur2
6	MED23	ENSG00000112282	ENST00000368068	protein_coding	KNOWN	CCDS5147	2372	4107	1368	131907873	131949369	-1	CRSP3	CRSP130, DRIP130, Sur2
6	MED23	ENSG00000112282	ENST00000479213	processed_transcript	KNOWN	None	2372	None	None	131907878	131917661	-1	CRSP3	CRSP130, DRIP130, Sur2
6	MED23	ENSG00000112282	ENST00000368060	protein_coding	KNOWN	CCDS59039	2372	4095	1364	131907889	131949369	-1	CRSP3	CRSP130, DRIP130, Sur2
6	MED23	ENSG00000112282	ENST00000368058	protein_coding	KNOWN	None	2372	4125	1374	131908385	131949206	-1	CRSP3	CRSP130, DRIP130, Sur2
6	MED23	ENSG00000112282	ENST00000484885	processed_transcript	KNOWN	None	2372	None	None	131911550	131913124	-1	CRSP3	CRSP130, DRIP130, Sur2
6	MED23	ENSG00000112282	ENST00000368053	protein_coding	KNOWN	None	2372	2661	886	131919391	131949339	-1	CRSP3	CRSP130, DRIP130, Sur2
6	MED23	ENSG00000112282	ENST00000489888	processed_transcript	KNOWN	None	2372	None	None	131948101	131949340	-1	CRSP3	CRSP130, DRIP130, Sur2
6	MED23	ENSG00000112282	ENST00000403834	protein_coding	KNOWN	None	2372	4125	1374	131907873	131949363	-1	CRSP3	CRSP130, DRIP130, Sur2
6	MED23	ENSG00000112282	ENST00000545957	protein_coding	KNOWN	None	2372	3030	1009	131908565	131931335	-1	CRSP3	CRSP130, DRIP130, Sur2
6	MED23	ENSG00000112282	ENST00000540546	protein_coding	KNOWN	None	2372	2661	886	131919391	131949363	-1	CRSP3	CRSP130, DRIP130, Sur2
6	MED23	ENSG00000112282	ENST00000539158	protein_coding	KNOWN	None	2372	1428	475	131923439	131949200	-1	CRSP3	CRSP130, DRIP130, Sur2
17	PHOSPHO1	ENSG00000173868	ENST00000310544	protein_coding	KNOWN	CCDS11547	16815	804	267	47300724	47307890	-1	None	None
17	PHOSPHO1	ENSG00000173868	ENST00000514112	protein_coding	KNOWN	CCDS45726	16815	879	292	47301022	47304123	-1	None	None
17	PHOSPHO1	ENSG00000173868	ENST00000511066	protein_coding	KNOWN	None	16815	611	202	47301801	47308128	-1	None	None
17	PHOSPHO1	ENSG00000173868	ENST00000574638	protein_coding	KNOWN	None	16815	259	85	47302153	47306504	-1	None	None
17	PHOSPHO1	ENSG00000173868	ENST00000512250	protein_coding	KNOWN	None	16815	334	110	47302153	47308109	-1	None	None
17	PHOSPHO1	ENSG00000173868	ENST00000503902	protein_coding	NOVEL	None	16815	499	165	47302162	47308100	-1	None	None
17	PHOSPHO1	ENSG00000173868	ENST00000413580	protein_coding	KNOWN	CCDS45726	16815	879	292	47300732	47308128	-1	None	None
17	KLHL10	ENSG00000161594	ENST00000448203	protein_coding	KNOWN	None	18829	366	121	39991937	39998246	1	None	FLJ32662
17	KLHL10	ENSG00000161594	ENST00000293303	protein_coding	KNOWN	CCDS42340	18829	1827	608	39994032	40004636	1	None	FLJ32662
17	KLHL10	ENSG00000161594	ENST00000438813	protein_coding	NOVEL	None	18829	458	151	39994077	39998356	1	None	FLJ32662
17	KLHL10	ENSG00000161594	ENST00000485613	processed_transcript	KNOWN	None	18829	None	None	39994077	39998403	1	None	FLJ32662
19	KLF16	ENSG00000129911	ENST00000541015	nonsense_mediated_decay	KNOWN	CCDS12075	16857	759	252	1852399	1863496	-1	None	NSLP2, BTEB4, DRRF
19	KLF16	ENSG00000129911	ENST00000250916	protein_coding	KNOWN	CCDS12075	16857	759	252	1852400	1863567	-1	None	NSLP2, BTEB4, DRRF
19	KLF16	ENSG00000129911	ENST00000592313	processed_transcript	KNOWN	None	16857	None	None	1854317	1862857	-1	None	NSLP2, BTEB4, DRRF
1	RCSD1	ENSG00000198771	ENST00000367854	protein_coding	KNOWN	CCDS1263	28310	1251	416	167599330	167675486	1	None	MK2S4, MGC21854
1	RCSD1	ENSG00000198771	ENST00000361496	protein_coding	KNOWN	None	28310	591	196	167599430	167666524	1	None	MK2S4, MGC21854
1	RCSD1	ENSG00000198771	ENST00000475127	processed_transcript	KNOWN	None	28310	None	None	167599486	167611243	1	None	MK2S4, MGC21854
1	RCSD1	ENSG00000198771	ENST00000472038	processed_transcript	KNOWN	None	28310	None	None	167599498	167634277	1	None	MK2S4, MGC21854
1	RCSD1	ENSG00000198771	ENST00000461790	processed_transcript	KNOWN	None	28310	None	None	167599503	167610978	1	None	MK2S4, MGC21854
1	RCSD1	ENSG00000198771	ENST00000537350	protein_coding	KNOWN	None	28310	1161	386	167599637	167674023	1	None	MK2S4, MGC21854
8	TM2D2	ENSG00000169490	ENST00000456845	protein_coding	KNOWN	CCDS43733	24127	516	171	38846327	38854002	-1	None	BLP1
8	TM2D2	ENSG00000169490	ENST00000456397	protein_coding	KNOWN	CCDS6111	24127	645	214	38846327	38854052	-1	None	BLP1
8	TM2D2	ENSG00000169490	ENST00000397070	protein_coding	KNOWN	CCDS43733	24127	516	171	38848324	38854028	-1	None	BLP1
8	TM2D2	ENSG00000169490	ENST00000522434	processed_transcript	KNOWN	None	24127	None	None	38848891	38854028	-1	None	BLP1
8	TM2D2	ENSG00000169490	ENST00000522142	protein_coding	KNOWN	None	24127	362	119	38849005	38854343	-1	None	BLP1
8	TM2D2	ENSG00000169490	ENST00000521060	processed_transcript	KNOWN	None	24127	None	None	38849011	38853143	-1	None	BLP1
8	TM2D2	ENSG00000169490	ENST00000524331	retained_intron	KNOWN	None	24127	None	None	38849013	38851555	-1	None	BLP1
8	TM2D2	ENSG00000169490	ENST00000519186	retained_intron	KNOWN	None	24127	None	None	38852638	38854017	-1	None	BLP1
8	TM2D2	ENSG00000169490	ENST00000517872	protein_coding	KNOWN	None	24127	188	61	38852835	38854028	-1	None	BLP1
8	TM2D2	ENSG00000169490	ENST00000520152	protein_coding	KNOWN	None	24127	135	44	38852888	38854335	-1	None	BLP1
8	TM2D2	ENSG00000169490	ENST00000412303	protein_coding	KNOWN	CCDS43733	24127	516	171	38846327	38854041	-1	None	BLP1
11	CARD16	ENSG00000204397	ENST00000375706	protein_coding	KNOWN	CCDS31661	33701	594	197	104912053	104916042	-1	None	COP1, COP, PSEUDO-ICE
11	CARD16	ENSG00000204397	ENST00000375704	protein_coding	KNOWN	CCDS41705	33701	294	97	104912250	104916103	-1	None	COP1, COP, PSEUDO-ICE
11	CARD16	ENSG00000204397	ENST00000525374	protein_coding	KNOWN	None	33701	294	97	104912298	104972158	-1	None	COP1, COP, PSEUDO-ICE
11	CARD16	ENSG00000204397	ENST00000528513	protein_coding	NOVEL	None	33701	287	94	104912386	104916034	-1	None	COP1, COP, PSEUDO-ICE
11	CARD16	ENSG00000204397	ENST00000527065	retained_intron	KNOWN	None	33701	None	None	104914638	104916047	-1	None	COP1, COP, PSEUDO-ICE
3	CSPG5	ENSG00000114646	ENST00000456150	protein_coding	KNOWN	CCDS56252	2467	1206	401	47603729	47619623	-1	None	NGC
3	CSPG5	ENSG00000114646	ENST00000383738	protein_coding	KNOWN	CCDS56253	2467	1701	566	47603729	47622282	-1	None	NGC
3	CSPG5	ENSG00000114646	ENST00000264723	protein_coding	KNOWN	CCDS2757	2467	1620	539	47603729	47622282	-1	None	NGC
3	CSPG5	ENSG00000114646	ENST00000465441	processed_transcript	KNOWN	None	2467	None	None	47619177	47621730	-1	None	NGC
7	TRPV6	ENSG00000165125	ENST00000359396	protein_coding	KNOWN	CCDS5874	14006	2178	725	142568956	142583507	-1	ECAC2	CaT1
7	TRPV6	ENSG00000165125	ENST00000463646	retained_intron	KNOWN	None	14006	None	None	142568962	142574293	-1	ECAC2	CaT1
7	TRPV6	ENSG00000165125	ENST00000487077	retained_intron	KNOWN	None	14006	None	None	142568966	142583134	-1	ECAC2	CaT1
7	TRPV6	ENSG00000165125	ENST00000485138	retained_intron	KNOWN	None	14006	None	None	142568990	142574197	-1	ECAC2	CaT1
7	TRPV6	ENSG00000165125	ENST00000436401	protein_coding	PUTATIVE	None	14006	366	121	142571851	142583490	-1	ECAC2	CaT1
7	TRPV6	ENSG00000165125	ENST00000474388	retained_intron	KNOWN	None	14006	None	None	142573867	142574561	-1	ECAC2	CaT1
7	TRPV6	ENSG00000165125	ENST00000489123	retained_intron	KNOWN	None	14006	None	None	142574577	142575708	-1	ECAC2	CaT1
7	TRPV6	ENSG00000165125	ENST00000431833	protein_coding	PUTATIVE	None	14006	170	55	142574993	142575732	-1	ECAC2	CaT1
19	DMPK	ENSG00000104936	ENST00000291270	protein_coding	KNOWN	CCDS12674	2933	1890	629	46272975	46285736	-1	None	DM, DM1, DMK, DM1PK, MDPK, MT-PK
19	DMPK	ENSG00000104936	ENST00000588522	nonsense_mediated_decay	KNOWN	None	2933	237	78	46272975	46285810	-1	None	DM, DM1, DMK, DM1PK, MDPK, MT-PK
19	DMPK	ENSG00000104936	ENST00000596686	retained_intron	KNOWN	None	2933	None	None	46272978	46282877	-1	None	DM, DM1, DMK, DM1PK, MDPK, MT-PK
19	DMPK	ENSG00000104936	ENST00000600757	protein_coding	NOVEL	None	2933	1908	635	46272978	46284005	-1	None	DM, DM1, DMK, DM1PK, MDPK, MT-PK
19	DMPK	ENSG00000104936	ENST00000343373	protein_coding	KNOWN	CCDS46119	2933	1920	639	46272983	46283861	-1	None	DM, DM1, DMK, DM1PK, MDPK, MT-PK
19	DMPK	ENSG00000104936	ENST00000447742	protein_coding	KNOWN	CCDS46118	2933	1875	624	46272994	46285737	-1	None	DM, DM1, DMK, DM1PK, MDPK, MT-PK
19	DMPK	ENSG00000104936	ENST00000458663	protein_coding	KNOWN	CCDS46117	2933	1878	625	46273105	46285646	-1	None	DM, DM1, DMK, DM1PK, MDPK, MT-PK
19	DMPK	ENSG00000104936	ENST00000598272	retained_intron	KNOWN	None	2933	None	None	46273214	46274623	-1	None	DM, DM1, DMK, DM1PK, MDPK, MT-PK
19	DMPK	ENSG00000104936	ENST00000354227	protein_coding	KNOWN	None	2933	1593	530	46273639	46285747	-1	None	DM, DM1, DMK, DM1PK, MDPK, MT-PK
19	DMPK	ENSG00000104936	ENST00000593574	protein_coding	NOVEL	None	2933	548	181	46273768	46280705	-1	None	DM, DM1, DMK, DM1PK, MDPK, MT-PK
19	DMPK	ENSG00000104936	ENST00000597660	protein_coding	PUTATIVE	None	2933	567	188	46274180	46275970	-1	None	DM, DM1, DMK, DM1PK, MDPK, MT-PK
19	DMPK	ENSG00000104936	ENST00000600370	retained_intron	KNOWN	None	2933	None	None	46274791	46278526	-1	None	DM, DM1, DMK, DM1PK, MDPK, MT-PK
19	DMPK	ENSG00000104936	ENST00000595361	processed_transcript	KNOWN	None	2933	None	None	46278206	46280295	-1	None	DM, DM1, DMK, DM1PK, MDPK, MT-PK
19	DMPK	ENSG00000104936	ENST00000599002	retained_intron	KNOWN	None	2933	None	None	46280824	46281212	-1	None	DM, DM1, DMK, DM1PK, MDPK, MT-PK
19	DMPK	ENSG00000104936	ENST00000598191	retained_intron	KNOWN	None	2933	None	None	46280952	46282208	-1	None	DM, DM1, DMK, DM1PK, MDPK, MT-PK
19	DMPK	ENSG00000104936	ENST00000596920	processed_transcript	KNOWN	None	2933	None	None	46281028	46282426	-1	None	DM, DM1, DMK, DM1PK, MDPK, MT-PK
19	DMPK	ENSG00000104936	ENST00000598180	retained_intron	KNOWN	None	2933	None	None	46281805	46283764	-1	None	DM, DM1, DMK, DM1PK, MDPK, MT-PK
19	DMPK	ENSG00000104936	ENST00000596067	protein_coding	PUTATIVE	None	2933	376	124	46281893	46283799	-1	None	DM, DM1, DMK, DM1PK, MDPK, MT-PK
19	DMPK	ENSG00000104936	ENST00000599392	retained_intron	KNOWN	None	2933	None	None	46282161	46282827	-1	None	DM, DM1, DMK, DM1PK, MDPK, MT-PK
10	ALDOAP2	ENSG00000214297	ENST00000398050	processed_pseudogene	KNOWN	None	416	None	None	127355444	127356519	-1	None	None
6	VTA1	ENSG00000009844	ENST00000367630	protein_coding	KNOWN	CCDS5197	20954	924	307	142468367	142545826	1	C6orf55	HSPC228, My012
6	VTA1	ENSG00000009844	ENST00000367621	protein_coding	NOVEL	None	20954	750	249	142468394	142540204	1	C6orf55	HSPC228, My012
6	VTA1	ENSG00000009844	ENST00000491881	processed_transcript	KNOWN	None	20954	None	None	142491483	142519918	1	C6orf55	HSPC228, My012
6	VTA1	ENSG00000009844	ENST00000452973	protein_coding	KNOWN	None	20954	669	222	142468398	142540388	1	C6orf55	HSPC228, My012
18	DSC2	ENSG00000134755	ENST00000251081	protein_coding	KNOWN	CCDS11893	3036	2544	847	28645940	28681967	-1	DSC3	CDHF2
18	DSC2	ENSG00000134755	ENST00000280904	protein_coding	KNOWN	CCDS11892	3036	2706	901	28646007	28682378	-1	DSC3	CDHF2
19	SPPL2B	ENSG00000005206	ENST00000585725	processed_transcript	KNOWN	None	30627	None	None	2328617	2338525	1	None	IMP4, PSL1, KIAA1532
19	SPPL2B	ENSG00000005206	ENST00000592845	processed_transcript	KNOWN	None	30627	None	None	2328629	2354799	1	None	IMP4, PSL1, KIAA1532
19	SPPL2B	ENSG00000005206	ENST00000586332	processed_transcript	KNOWN	None	30627	None	None	2328658	2337481	1	None	IMP4, PSL1, KIAA1532
19	SPPL2B	ENSG00000005206	ENST00000590982	processed_transcript	KNOWN	None	30627	None	None	2328672	2343290	1	None	IMP4, PSL1, KIAA1532
19	SPPL2B	ENSG00000005206	ENST00000586377	processed_transcript	KNOWN	None	30627	None	None	2328676	2353888	1	None	IMP4, PSL1, KIAA1532
19	SPPL2B	ENSG00000005206	ENST00000593198	retained_intron	KNOWN	None	30627	None	None	2328683	2341466	1	None	IMP4, PSL1, KIAA1532
19	SPPL2B	ENSG00000005206	ENST00000592738	retained_intron	KNOWN	None	30627	None	None	2328695	2342501	1	None	IMP4, PSL1, KIAA1532
19	SPPL2B	ENSG00000005206	ENST00000586111	retained_intron	KNOWN	None	30627	None	None	2330294	2330758	1	None	IMP4, PSL1, KIAA1532
19	SPPL2B	ENSG00000005206	ENST00000587851	retained_intron	KNOWN	None	30627	None	None	2334628	2337934	1	None	IMP4, PSL1, KIAA1532
19	SPPL2B	ENSG00000005206	ENST00000593243	processed_transcript	KNOWN	None	30627	None	None	2337110	2339876	1	None	IMP4, PSL1, KIAA1532
19	SPPL2B	ENSG00000005206	ENST00000591959	retained_intron	KNOWN	None	30627	None	None	2338576	2339910	1	None	IMP4, PSL1, KIAA1532
19	SPPL2B	ENSG00000005206	ENST00000590295	retained_intron	KNOWN	None	30627	None	None	2339058	2352046	1	None	IMP4, PSL1, KIAA1532
19	SPPL2B	ENSG00000005206	ENST00000590902	retained_intron	KNOWN	None	30627	None	None	2339677	2341954	1	None	IMP4, PSL1, KIAA1532
19	SPPL2B	ENSG00000005206	ENST00000589515	retained_intron	KNOWN	None	30627	None	None	2342720	2353566	1	None	IMP4, PSL1, KIAA1532
19	SPPL2B	ENSG00000005206	ENST00000452401	processed_transcript	KNOWN	None	30627	None	None	2328629	2355099	1	None	IMP4, PSL1, KIAA1532
19	SPPL2B	ENSG00000005206	ENST00000382189	processed_transcript	KNOWN	None	30627	None	None	2328629	2341016	1	None	IMP4, PSL1, KIAA1532
17	DHRS13	ENSG00000167536	ENST00000378895	protein_coding	KNOWN	CCDS11246	28326	1134	377	27224799	27230089	-1	None	MGC23280, SDR7C5
17	DHRS13	ENSG00000167536	ENST00000394901	protein_coding	KNOWN	None	28326	984	327	27224799	27230089	-1	None	MGC23280, SDR7C5
17	DHRS13	ENSG00000167536	ENST00000426464	protein_coding	NOVEL	None	28326	891	296	27224802	27229983	-1	None	MGC23280, SDR7C5
17	DHRS13	ENSG00000167536	ENST00000581974	processed_transcript	KNOWN	None	28326	None	None	27225841	27226541	-1	None	MGC23280, SDR7C5
17	DHRS13	ENSG00000167536	ENST00000581759	retained_intron	KNOWN	None	28326	None	None	27228130	27229144	-1	None	MGC23280, SDR7C5
5	None	ENSG00000248464	ENST00000502457	antisense	KNOWN	None	None	None	None	44388834	44414091	1	None	None
19	C19orf54	ENSG00000188493	ENST00000378313	protein_coding	KNOWN	CCDS12564	24758	1056	351	41246761	41255828	-1	None	FLJ41131
19	C19orf54	ENSG00000188493	ENST00000470681	protein_coding	PUTATIVE	None	24758	174	57	41246761	41256397	-1	None	FLJ41131
19	C19orf54	ENSG00000188493	ENST00000469741	nonsense_mediated_decay	KNOWN	None	24758	513	170	41246761	41256458	-1	None	FLJ41131
19	C19orf54	ENSG00000188493	ENST00000596940	protein_coding	PUTATIVE	None	24758	338	111	41246766	41255458	-1	None	FLJ41131
19	C19orf54	ENSG00000188493	ENST00000594163	processed_transcript	KNOWN	None	24758	None	None	41246767	41247585	-1	None	FLJ41131
19	C19orf54	ENSG00000188493	ENST00000598485	protein_coding	PUTATIVE	None	24758	204	67	41246767	41256207	-1	None	FLJ41131
19	C19orf54	ENSG00000188493	ENST00000596809	nonsense_mediated_decay	KNOWN	None	24758	174	57	41247597	41257458	-1	None	FLJ41131
19	C19orf54	ENSG00000188493	ENST00000597507	nonsense_mediated_decay	KNOWN	None	24758	174	57	41247696	41256353	-1	None	FLJ41131
19	C19orf54	ENSG00000188493	ENST00000598352	protein_coding	NOVEL	None	24758	546	181	41247727	41255510	-1	None	FLJ41131
19	C19orf54	ENSG00000188493	ENST00000600139	protein_coding	PUTATIVE	None	24758	196	64	41250849	41255499	-1	None	FLJ41131
19	C19orf54	ENSG00000188493	ENST00000339153	protein_coding	KNOWN	None	24758	420	139	41248071	41256408	-1	None	FLJ41131
19	C19orf54	ENSG00000188493	ENST00000598729	protein_coding	KNOWN	None	24758	540	179	41248338	41256408	-1	None	FLJ41131
15	MCTP2	ENSG00000140563	ENST00000543482	protein_coding	NOVEL	None	25636	1191	396	94774767	94901835	1	None	FLJ11175, FLJ33303
15	MCTP2	ENSG00000140563	ENST00000561608	processed_transcript	KNOWN	None	25636	None	None	94774801	94857573	1	None	FLJ11175, FLJ33303
15	MCTP2	ENSG00000140563	ENST00000556363	retained_intron	KNOWN	None	25636	None	None	94774801	94887286	1	None	FLJ11175, FLJ33303
15	MCTP2	ENSG00000140563	ENST00000456504	nonsense_mediated_decay	KNOWN	None	25636	600	199	94774951	95023632	1	None	FLJ11175, FLJ33303
15	MCTP2	ENSG00000140563	ENST00000451018	protein_coding	NOVEL	CCDS53975	25636	2472	823	94841495	95022263	1	None	FLJ11175, FLJ33303
15	MCTP2	ENSG00000140563	ENST00000357742	protein_coding	KNOWN	CCDS32338	25636	2637	878	94841495	95023591	1	None	FLJ11175, FLJ33303
15	MCTP2	ENSG00000140563	ENST00000557742	protein_coding	NOVEL	CCDS53976	25636	921	306	94899203	94946493	1	None	FLJ11175, FLJ33303
15	MCTP2	ENSG00000140563	ENST00000557505	retained_intron	KNOWN	None	25636	None	None	94942760	94945248	1	None	FLJ11175, FLJ33303
15	MCTP2	ENSG00000140563	ENST00000449432	processed_transcript	PUTATIVE	None	25636	None	None	95019609	95022812	1	None	FLJ11175, FLJ33303
15	MCTP2	ENSG00000140563	ENST00000331706	protein_coding	KNOWN	CCDS53976	25636	921	306	94841430	94945786	1	None	FLJ11175, FLJ33303
5	None	ENSG00000249203	ENST00000505706	lincRNA	KNOWN	None	None	None	None	44495720	44510342	-1	None	None
5	None	ENSG00000249203	ENST00000510758	lincRNA	KNOWN	None	None	None	None	44500734	44510384	-1	None	None
21	BRWD1	ENSG00000185658	ENST00000333229	protein_coding	KNOWN	CCDS13662	12760	6963	2320	40556102	40685745	-1	C21orf107, WDR9	FLJ11315, N143
21	BRWD1	ENSG00000185658	ENST00000446924	nonsense_mediated_decay	KNOWN	None	12760	1923	640	40559172	40636867	-1	C21orf107, WDR9	FLJ11315, N143
21	BRWD1	ENSG00000185658	ENST00000342449	protein_coding	KNOWN	CCDS13663	12760	6810	2269	40562145	40685496	-1	C21orf107, WDR9	FLJ11315, N143
21	BRWD1	ENSG00000185658	ENST00000380800	protein_coding	PUTATIVE	None	12760	6600	2199	40565743	40685516	-1	C21orf107, WDR9	FLJ11315, N143
21	BRWD1	ENSG00000185658	ENST00000491564	retained_intron	KNOWN	None	12760	None	None	40571345	40572422	-1	C21orf107, WDR9	FLJ11315, N143
21	BRWD1	ENSG00000185658	ENST00000424441	protein_coding	NOVEL	None	12760	1356	451	40574292	40601318	-1	C21orf107, WDR9	FLJ11315, N143
21	BRWD1	ENSG00000185658	ENST00000473813	retained_intron	KNOWN	None	12760	None	None	40581712	40590586	-1	C21orf107, WDR9	FLJ11315, N143
21	BRWD1	ENSG00000185658	ENST00000445668	nonsense_mediated_decay	KNOWN	None	12760	1228	408	40608644	40652139	-1	C21orf107, WDR9	FLJ11315, N143
21	BRWD1	ENSG00000185658	ENST00000430093	nonsense_mediated_decay	KNOWN	None	12760	799	265	40608644	40652139	-1	C21orf107, WDR9	FLJ11315, N143
21	BRWD1	ENSG00000185658	ENST00000445245	nonsense_mediated_decay	KNOWN	None	12760	706	234	40608644	40652139	-1	C21orf107, WDR9	FLJ11315, N143
21	BRWD1	ENSG00000185658	ENST00000455867	protein_coding	NOVEL	None	12760	1644	547	40608645	40652139	-1	C21orf107, WDR9	FLJ11315, N143
21	BRWD1	ENSG00000185658	ENST00000412604	nonsense_mediated_decay	KNOWN	None	12760	1402	466	40608645	40652139	-1	C21orf107, WDR9	FLJ11315, N143
21	BRWD1	ENSG00000185658	ENST00000496759	retained_intron	KNOWN	None	12760	None	None	40650423	40652133	-1	C21orf107, WDR9	FLJ11315, N143
21	BRWD1	ENSG00000185658	ENST00000341322	protein_coding	KNOWN	CCDS33557	12760	363	120	40668363	40685568	-1	C21orf107, WDR9	FLJ11315, N143
21	BRWD1	ENSG00000185658	ENST00000470108	processed_transcript	KNOWN	None	12760	None	None	40670016	40693485	-1	C21orf107, WDR9	FLJ11315, N143
21	BRWD1	ENSG00000185658	ENST00000484090	retained_intron	KNOWN	None	12760	None	None	40684489	40685227	-1	C21orf107, WDR9	FLJ11315, N143
5	RPL29P14	ENSG00000241112	ENST00000495837	processed_pseudogene	KNOWN	None	36687	None	None	148924946	148925373	-1	None	None
5	None	ENSG00000221135	ENST00000408208	miRNA	NOVEL	None	None	None	None	148983839	148983980	-1	None	None
11	None	ENSG00000181908	ENST00000316124	protein_coding	PUTATIVE	None	None	384	127	64216546	64219126	1	None	None
16	RRN3P3	ENSG00000257122	ENST00000551766	processed_transcript	KNOWN	None	37620	None	None	22430090	22449036	-1	None	None
16	RRN3P3	ENSG00000257122	ENST00000549207	transcribed_unprocessed_pseudogene	KNOWN	None	37620	None	None	22441117	22447133	-1	None	None
5	GPX3	ENSG00000211445	ENST00000388825	protein_coding	KNOWN	CCDS43389	4555	681	226	150400124	150408554	1	None	None
5	GPX3	ENSG00000211445	ENST00000521722	processed_transcript	KNOWN	None	4555	None	None	150400153	150406431	1	None	None
5	GPX3	ENSG00000211445	ENST00000521650	protein_coding	NOVEL	None	4555	416	137	150400165	150407022	1	None	None
5	GPX3	ENSG00000211445	ENST00000519214	nonsense_mediated_decay	KNOWN	None	4555	192	63	150400167	150406578	1	None	None
5	GPX3	ENSG00000211445	ENST00000517973	protein_coding	PUTATIVE	None	4555	303	100	150400167	150407727	1	None	None
5	GPX3	ENSG00000211445	ENST00000521632	protein_coding	NOVEL	None	4555	524	173	150404905	150408515	1	None	None
5	GPX3	ENSG00000211445	ENST00000520597	retained_intron	KNOWN	None	4555	None	None	150406006	150407051	1	None	None
5	GPX3	ENSG00000211445	ENST00000520059	protein_coding	PUTATIVE	None	4555	239	78	150406527	150407546	1	None	None
10	SMC3	ENSG00000108055	ENST00000361804	protein_coding	KNOWN	CCDS31285	2468	3654	1217	112327449	112364394	1	CSPG6	HCAP, BAM, SMC3L1, bamacan
10	SMC3	ENSG00000108055	ENST00000462899	processed_transcript	KNOWN	None	2468	None	None	112328085	112341764	1	CSPG6	HCAP, BAM, SMC3L1, bamacan
1	ASAP3	ENSG00000088280	ENST00000495646	protein_coding	KNOWN	None	14987	1224	407	23755056	23763170	-1	DDEFL1	FLJ20199, UPLC1, CENTB6
1	ASAP3	ENSG00000088280	ENST00000484906	processed_transcript	KNOWN	None	14987	None	None	23755056	23765705	-1	DDEFL1	FLJ20199, UPLC1, CENTB6
1	ASAP3	ENSG00000088280	ENST00000336689	protein_coding	KNOWN	CCDS235	14987	2712	903	23755056	23810671	-1	DDEFL1	FLJ20199, UPLC1, CENTB6
1	ASAP3	ENSG00000088280	ENST00000465372	protein_coding	NOVEL	None	14987	612	203	23756025	23760025	-1	DDEFL1	FLJ20199, UPLC1, CENTB6
1	ASAP3	ENSG00000088280	ENST00000492982	nonsense_mediated_decay	KNOWN	None	14987	135	44	23756120	23810677	-1	DDEFL1	FLJ20199, UPLC1, CENTB6
1	ASAP3	ENSG00000088280	ENST00000437606	protein_coding	KNOWN	CCDS44087	14987	2685	894	23756215	23810672	-1	DDEFL1	FLJ20199, UPLC1, CENTB6
1	ASAP3	ENSG00000088280	ENST00000484418	nonsense_mediated_decay	KNOWN	None	14987	373	123	23759696	23763461	-1	DDEFL1	FLJ20199, UPLC1, CENTB6
1	ASAP3	ENSG00000088280	ENST00000475814	nonsense_mediated_decay	KNOWN	None	14987	363	120	23763420	23768764	-1	DDEFL1	FLJ20199, UPLC1, CENTB6
1	ASAP3	ENSG00000088280	ENST00000530874	retained_intron	KNOWN	None	14987	None	None	23763457	23765509	-1	DDEFL1	FLJ20199, UPLC1, CENTB6
1	ASAP3	ENSG00000088280	ENST00000478858	retained_intron	KNOWN	None	14987	None	None	23767843	23810685	-1	DDEFL1	FLJ20199, UPLC1, CENTB6
1	ASAP3	ENSG00000088280	ENST00000449467	processed_transcript	KNOWN	None	14987	None	None	23782484	23806672	-1	DDEFL1	FLJ20199, UPLC1, CENTB6
5	None	ENSG00000250418	ENST00000505050	lincRNA	KNOWN	None	None	None	None	44698533	44700910	-1	None	None
5	RN7SL383P	ENSG00000263556	ENST00000581587	misc_RNA	KNOWN	None	46399	None	None	44716292	44716587	1	None	None
6	NOL7	ENSG00000225921	ENST00000451315	protein_coding	KNOWN	CCDS4528	21040	774	257	13615559	13621437	1	C6orf90, PQBP3	NOP27, RARG-1, dJ223E5.2
6	NOL7	ENSG00000225921	ENST00000420088	protein_coding	KNOWN	None	21040	250	82	13615779	13618449	1	C6orf90, PQBP3	NOP27, RARG-1, dJ223E5.2
6	NOL7	ENSG00000225921	ENST00000474485	processed_transcript	KNOWN	None	21040	None	None	13615821	13632971	1	C6orf90, PQBP3	NOP27, RARG-1, dJ223E5.2
5	RNU6-588P	ENSG00000222213	ENST00000410281	snRNA	KNOWN	None	47551	None	None	148986200	148986304	-1	None	None
5	None	ENSG00000221043	ENST00000408116	snoRNA	NOVEL	None	None	None	None	149075312	149075522	-1	None	None
5	RN7SL868P	ENSG00000242928	ENST00000485915	misc_RNA	KNOWN	None	46884	None	None	149101633	149101933	1	None	None
6	None	ENSG00000220347	ENST00000402808	processed_pseudogene	KNOWN	None	None	None	None	156983184	156983571	1	None	None
5	None	ENSG00000251141	ENST00000503452	antisense	KNOWN	None	None	None	None	44745002	44808879	-1	None	None
5	None	ENSG00000251141	ENST00000514597	antisense	KNOWN	None	None	None	None	44745111	44808844	-1	None	None
5	None	ENSG00000251141	ENST00000505302	antisense	KNOWN	None	None	None	None	44745240	44808843	-1	None	None
5	None	ENSG00000251141	ENST00000508945	antisense	KNOWN	None	None	None	None	44746099	44808861	-1	None	None
5	None	ENSG00000251141	ENST00000508123	antisense	KNOWN	None	None	None	None	44775796	44808768	-1	None	None
5	None	ENSG00000251141	ENST00000503179	antisense	KNOWN	None	None	None	None	44776858	44808861	-1	None	None
5	None	ENSG00000251141	ENST00000505401	antisense	KNOWN	None	None	None	None	44777168	44808828	-1	None	None
5	None	ENSG00000251141	ENST00000505637	antisense	KNOWN	None	None	None	None	44777306	44808838	-1	None	None
6	None	ENSG00000271265	ENST00000604082	lincRNA	KNOWN	None	None	None	None	157095351	157095796	-1	None	None
6	None	ENSG00000271551	ENST00000603191	lincRNA	KNOWN	None	None	None	None	157097494	157098211	-1	None	None
18	KATNAL2	ENSG00000167216	ENST00000592005	protein_coding	PUTATIVE	None	25387	318	105	44497455	44624853	1	None	MGC33211, DKFZP667C165
18	KATNAL2	ENSG00000167216	ENST00000585469	protein_coding	PUTATIVE	None	25387	666	221	44526760	44589732	1	None	MGC33211, DKFZP667C165
18	KATNAL2	ENSG00000167216	ENST00000245121	protein_coding	KNOWN	CCDS32828	25387	1401	466	44526787	44627658	1	None	MGC33211, DKFZP667C165
18	KATNAL2	ENSG00000167216	ENST00000356157	protein_coding	NOVEL	None	25387	1617	538	44526818	44627376	1	None	MGC33211, DKFZP667C165
18	KATNAL2	ENSG00000167216	ENST00000585383	retained_intron	KNOWN	None	25387	None	None	44579264	44580972	1	None	MGC33211, DKFZP667C165
18	KATNAL2	ENSG00000167216	ENST00000588433	protein_coding	NOVEL	None	25387	1023	340	44584605	44626706	1	None	MGC33211, DKFZP667C165
18	KATNAL2	ENSG00000167216	ENST00000586198	protein_coding	PUTATIVE	None	25387	387	128	44595594	44603913	1	None	MGC33211, DKFZP667C165
18	KATNAL2	ENSG00000167216	ENST00000591522	protein_coding	PUTATIVE	None	25387	465	154	44595957	44625319	1	None	MGC33211, DKFZP667C165
6	MIR4466	ENSG00000271899	ENST00000606121	miRNA	KNOWN	None	41726	None	None	157100812	157100865	-1	None	hsa-mir-4466
6	None	ENSG00000228231	ENST00000421465	antisense	KNOWN	None	None	None	None	54230133	54234769	-1	None	None
X	TMEM255A	ENSG00000125355	ENST00000309720	protein_coding	KNOWN	CCDS14597	26086	1050	349	119392505	119445288	-1	FAM70A	FLJ20716
X	TMEM255A	ENSG00000125355	ENST00000371369	protein_coding	KNOWN	CCDS43986	26086	978	325	119392505	119445391	-1	FAM70A	FLJ20716
X	TMEM255A	ENSG00000125355	ENST00000371352	protein_coding	KNOWN	None	26086	558	185	119392506	119419846	-1	FAM70A	FLJ20716
X	TMEM255A	ENSG00000125355	ENST00000519908	protein_coding	KNOWN	None	26086	448	148	119402218	119445411	-1	FAM70A	FLJ20716
X	TMEM255A	ENSG00000125355	ENST00000480821	processed_transcript	KNOWN	None	26086	None	None	119443748	119445257	-1	FAM70A	FLJ20716
X	TMEM255A	ENSG00000125355	ENST00000440464	protein_coding	KNOWN	CCDS48157	26086	726	241	119392506	119445391	-1	FAM70A	FLJ20716
6	None	ENSG00000270487	ENST00000604792	antisense	KNOWN	None	None	None	None	157101461	157101589	-1	None	None
6	CLNS1AP1	ENSG00000213335	ENST00000435954	processed_pseudogene	KNOWN	None	2081	None	None	54349967	54350648	-1	CLNS1B	ICln
9	SAPCD2	ENSG00000186193	ENST00000409687	protein_coding	KNOWN	CCDS7027	28055	1185	394	139956581	139965040	-1	C9orf140	p42.3
16	CCDC79	ENSG00000249961	ENST00000558713	protein_coding	KNOWN	None	26675	2184	727	66788879	66835514	-1	None	FLJ35894
16	CCDC79	ENSG00000249961	ENST00000313294	nonsense_mediated_decay	KNOWN	None	26675	1527	508	66792202	66835523	-1	None	FLJ35894
16	CCDC79	ENSG00000249961	ENST00000559403	protein_coding	PUTATIVE	None	26675	76	24	66792207	66793111	-1	None	FLJ35894
16	CCDC79	ENSG00000249961	ENST00000561333	processed_transcript	KNOWN	None	26675	None	None	66801331	66834929	-1	None	FLJ35894
16	CCDC79	ENSG00000249961	ENST00000559050	protein_coding	KNOWN	None	26675	330	109	66822142	66835487	-1	None	FLJ35894
16	CCDC79	ENSG00000249961	ENST00000433154	protein_coding	KNOWN	None	26675	2184	727	66788879	66835523	-1	None	FLJ35894
16	CCDC79	ENSG00000249961	ENST00000432602	protein_coding	KNOWN	None	26675	2043	680	66788879	66835523	-1	None	FLJ35894
16	CCDC79	ENSG00000249961	ENST00000433574	protein_coding	KNOWN	None	26675	1653	550	66788879	66835523	-1	None	FLJ35894
16	CCDC79	ENSG00000249961	ENST00000415744	protein_coding	KNOWN	None	26675	1527	508	66788879	66835523	-1	None	FLJ35894
15	RN7SL331P	ENSG00000240466	ENST00000461138	misc_RNA	KNOWN	None	46347	None	None	84874184	84874466	-1	None	None
15	None	ENSG00000259633	ENST00000560644	unprocessed_pseudogene	KNOWN	None	None	None	None	84924665	84924766	1	None	None
17	SLC46A1	ENSG00000076351	ENST00000584729	processed_transcript	KNOWN	None	30521	None	None	26721775	26733228	-1	None	HCP1, MGC9564, PCFT
17	SLC46A1	ENSG00000076351	ENST00000583295	processed_transcript	KNOWN	None	30521	None	None	26722695	26733219	-1	None	HCP1, MGC9564, PCFT
17	SLC46A1	ENSG00000076351	ENST00000582735	protein_coding	NOVEL	None	30521	373	123	26726362	26731839	-1	None	HCP1, MGC9564, PCFT
17	SLC46A1	ENSG00000076351	ENST00000582345	retained_intron	KNOWN	None	30521	None	None	26727534	26728063	-1	None	HCP1, MGC9564, PCFT
17	SLC46A1	ENSG00000076351	ENST00000578217	processed_transcript	KNOWN	None	30521	None	None	26731258	26732765	-1	None	HCP1, MGC9564, PCFT
17	SLC46A1	ENSG00000076351	ENST00000582590	retained_intron	KNOWN	None	30521	None	None	26731334	26733186	-1	None	HCP1, MGC9564, PCFT
17	SLC46A1	ENSG00000076351	ENST00000584995	protein_coding	PUTATIVE	None	30521	751	249	26731742	26733648	-1	None	HCP1, MGC9564, PCFT
17	SLC46A1	ENSG00000076351	ENST00000584426	protein_coding	PUTATIVE	None	30521	385	127	26732066	26733617	-1	None	HCP1, MGC9564, PCFT
17	SLC46A1	ENSG00000076351	ENST00000581516	protein_coding	PUTATIVE	None	30521	98	31	26732395	26734215	-1	None	HCP1, MGC9564, PCFT
17	SLC46A1	ENSG00000076351	ENST00000440501	protein_coding	KNOWN	None	30521	1380	459	26721661	26733228	-1	None	HCP1, MGC9564, PCFT
17	SLC46A1	ENSG00000076351	ENST00000321666	protein_coding	KNOWN	None	30521	1293	430	26721661	26733228	-1	None	HCP1, MGC9564, PCFT
16	LCMT1	ENSG00000205629	ENST00000399069	protein_coding	KNOWN	CCDS45445	17557	1005	334	25123050	25189552	1	None	CGI-68, PPMT1
16	LCMT1	ENSG00000205629	ENST00000380962	nonsense_mediated_decay	KNOWN	None	17557	306	101	25123052	25189552	1	None	CGI-68, PPMT1
16	LCMT1	ENSG00000205629	ENST00000380966	protein_coding	KNOWN	CCDS45446	17557	840	279	25123056	25189344	1	None	CGI-68, PPMT1
16	LCMT1	ENSG00000205629	ENST00000564011	nonsense_mediated_decay	KNOWN	None	17557	336	111	25123056	25189519	1	None	CGI-68, PPMT1
16	LCMT1	ENSG00000205629	ENST00000577157	processed_transcript	KNOWN	None	17557	None	None	25123066	25170252	1	None	CGI-68, PPMT1
16	LCMT1	ENSG00000205629	ENST00000570981	protein_coding	PUTATIVE	None	17557	360	119	25123253	25151824	1	None	CGI-68, PPMT1
16	LCMT1	ENSG00000205629	ENST00000576382	retained_intron	KNOWN	None	17557	None	None	25151376	25172489	1	None	CGI-68, PPMT1
16	LCMT1	ENSG00000205629	ENST00000576625	nonsense_mediated_decay	KNOWN	None	17557	475	157	25151497	25189403	1	None	CGI-68, PPMT1
16	LCMT1	ENSG00000205629	ENST00000573435	processed_transcript	KNOWN	None	17557	None	None	25162846	25172527	1	None	CGI-68, PPMT1
16	LCMT1	ENSG00000205629	ENST00000572869	processed_transcript	KNOWN	None	17557	None	None	25162852	25189366	1	None	CGI-68, PPMT1
16	LCMT1	ENSG00000205629	ENST00000572761	protein_coding	PUTATIVE	None	17557	280	92	25175919	25180866	1	None	CGI-68, PPMT1
16	LCMT1	ENSG00000205629	ENST00000575396	protein_coding	PUTATIVE	None	17557	416	137	25176011	25189547	1	None	CGI-68, PPMT1
16	LCMT1	ENSG00000205629	ENST00000574450	retained_intron	KNOWN	None	17557	None	None	25186067	25189549	1	None	CGI-68, PPMT1
19	ZNF460	ENSG00000197714	ENST00000537645	protein_coding	PUTATIVE	None	21628	1566	521	57791419	57803902	1	ZNF272	HZF8
19	ZNF460	ENSG00000197714	ENST00000360338	protein_coding	KNOWN	CCDS12949	21628	1689	562	57791853	57804937	1	ZNF272	HZF8
19	ZNF460	ENSG00000197714	ENST00000599602	protein_coding	PUTATIVE	None	21628	381	126	57793255	57802413	1	ZNF272	HZF8
8	RNU6-756P	ENSG00000206724	ENST00000383997	snRNA	KNOWN	None	47719	None	None	125272887	125272993	1	None	None
19	SNORD35B	ENSG00000200530	ENST00000363660	snoRNA	KNOWN	None	17365	None	None	50000977	50001063	1	RNU35B	U35B
19	MIR150	ENSG00000207782	ENST00000385048	miRNA	KNOWN	None	31537	None	None	50004042	50004125	-1	MIRN150	hsa-mir-150
19	None	ENSG00000268681	ENST00000597056	processed_pseudogene	KNOWN	None	None	None	None	50005689	50005896	-1	None	None
10	RNU1-19P	ENSG00000200176	ENST00000363306	snRNA	KNOWN	None	41945	None	None	88649326	88649490	1	None	None
6	GCNT6	ENSG00000205318	ENST00000379591	protein_coding	KNOWN	None	21623	765	254	10634158	10634922	1	None	bA421M1.3
6	GCNT6	ENSG00000205318	ENST00000417671	protein_coding	KNOWN	None	21623	1176	391	10633993	10647501	1	None	bA421M1.3
1	CCDC18	ENSG00000122483	ENST00000343253	protein_coding	PUTATIVE	None	30370	4365	1454	93645476	93744034	1	None	NY-SAR-41
1	CCDC18	ENSG00000122483	ENST00000528942	processed_transcript	KNOWN	None	30370	None	None	93645487	93651957	1	None	NY-SAR-41
1	CCDC18	ENSG00000122483	ENST00000401026	protein_coding	KNOWN	None	30370	3900	1299	93645920	93744164	1	None	NY-SAR-41
1	CCDC18	ENSG00000122483	ENST00000448243	protein_coding	NOVEL	None	30370	496	164	93646273	93651955	1	None	NY-SAR-41
1	CCDC18	ENSG00000122483	ENST00000370276	protein_coding	NOVEL	None	30370	4526	1507	93646281	93744287	1	None	NY-SAR-41
1	CCDC18	ENSG00000122483	ENST00000479653	nonsense_mediated_decay	KNOWN	None	30370	288	95	93646316	93659217	1	None	NY-SAR-41
1	CCDC18	ENSG00000122483	ENST00000481180	nonsense_mediated_decay	KNOWN	None	30370	1331	442	93646326	93682236	1	None	NY-SAR-41
1	CCDC18	ENSG00000122483	ENST00000455267	protein_coding	NOVEL	None	30370	2161	719	93671112	93712449	1	None	NY-SAR-41
1	CCDC18	ENSG00000122483	ENST00000421014	processed_transcript	KNOWN	None	30370	None	None	93687222	93705030	1	None	NY-SAR-41
1	CCDC18	ENSG00000122483	ENST00000447456	retained_intron	KNOWN	None	30370	None	None	93720074	93730504	1	None	NY-SAR-41
1	CCDC18	ENSG00000122483	ENST00000557479	protein_coding	KNOWN	None	30370	4254	1417	93645920	93744270	1	None	NY-SAR-41
1	CCDC18	ENSG00000122483	ENST00000338949	protein_coding	KNOWN	None	30370	2409	802	93645920	93744270	1	None	NY-SAR-41
1	CCDC18	ENSG00000122483	ENST00000334652	protein_coding	KNOWN	None	30370	852	283	93645920	93744270	1	None	NY-SAR-41
10	None	ENSG00000271880	ENST00000433214	processed_transcript	KNOWN	None	None	None	None	88730498	88769883	1	None	None
7	CD36	ENSG00000135218	ENST00000435819	protein_coding	KNOWN	CCDS34673	1663	1419	472	79998891	80303725	1	None	SCARB3, GPIV, FAT, GP4, GP3B
7	CD36	ENSG00000135218	ENST00000480599	retained_intron	KNOWN	None	1663	None	None	80231466	80276531	1	None	SCARB3, GPIV, FAT, GP4, GP3B
7	CD36	ENSG00000135218	ENST00000309881	protein_coding	KNOWN	CCDS34673	1663	1419	472	80231466	80303725	1	None	SCARB3, GPIV, FAT, GP4, GP3B
7	CD36	ENSG00000135218	ENST00000534394	protein_coding	PUTATIVE	None	1663	1191	396	80231523	80303732	1	None	SCARB3, GPIV, FAT, GP4, GP3B
7	CD36	ENSG00000135218	ENST00000526804	processed_transcript	KNOWN	None	1663	None	None	80231541	80276042	1	None	SCARB3, GPIV, FAT, GP4, GP3B
7	CD36	ENSG00000135218	ENST00000478292	processed_transcript	PUTATIVE	None	1663	None	None	80253211	80262678	1	None	SCARB3, GPIV, FAT, GP4, GP3B
7	CD36	ENSG00000135218	ENST00000438020	protein_coding	KNOWN	None	1663	429	142	80253399	80290526	1	None	SCARB3, GPIV, FAT, GP4, GP3B
7	CD36	ENSG00000135218	ENST00000436384	protein_coding	KNOWN	None	1663	281	92	80254285	80286016	1	None	SCARB3, GPIV, FAT, GP4, GP3B
7	CD36	ENSG00000135218	ENST00000428497	protein_coding	KNOWN	None	1663	281	92	80255472	80286016	1	None	SCARB3, GPIV, FAT, GP4, GP3B
7	CD36	ENSG00000135218	ENST00000441109	processed_transcript	KNOWN	None	1663	None	None	80267959	80285999	1	None	SCARB3, GPIV, FAT, GP4, GP3B
7	CD36	ENSG00000135218	ENST00000482059	protein_coding	KNOWN	None	1663	197	64	80267960	80285932	1	None	SCARB3, GPIV, FAT, GP4, GP3B
7	CD36	ENSG00000135218	ENST00000394788	protein_coding	KNOWN	CCDS34673	1663	1419	472	80267992	80303732	1	None	SCARB3, GPIV, FAT, GP4, GP3B
7	CD36	ENSG00000135218	ENST00000447544	protein_coding	KNOWN	CCDS34673	1663	1419	472	80267992	80306324	1	None	SCARB3, GPIV, FAT, GP4, GP3B
7	CD36	ENSG00000135218	ENST00000426978	protein_coding	KNOWN	None	1663	445	147	80275645	80292321	1	None	SCARB3, GPIV, FAT, GP4, GP3B
7	CD36	ENSG00000135218	ENST00000413265	protein_coding	KNOWN	None	1663	609	202	80275678	80292485	1	None	SCARB3, GPIV, FAT, GP4, GP3B
7	CD36	ENSG00000135218	ENST00000419819	protein_coding	KNOWN	None	1663	1391	462	80275762	80303435	1	None	SCARB3, GPIV, FAT, GP4, GP3B
7	CD36	ENSG00000135218	ENST00000441034	nonsense_mediated_decay	KNOWN	None	1663	300	99	80276025	80293813	1	None	SCARB3, GPIV, FAT, GP4, GP3B
7	CD36	ENSG00000135218	ENST00000464213	retained_intron	KNOWN	None	1663	None	None	80295230	80308593	1	None	SCARB3, GPIV, FAT, GP4, GP3B
7	CD36	ENSG00000135218	ENST00000488048	protein_coding	PUTATIVE	None	1663	199	65	80302692	80305720	1	None	SCARB3, GPIV, FAT, GP4, GP3B
7	CD36	ENSG00000135218	ENST00000432207	protein_coding	KNOWN	CCDS34673	1663	1419	472	80275645	80303732	1	None	SCARB3, GPIV, FAT, GP4, GP3B
7	CD36	ENSG00000135218	ENST00000538969	protein_coding	KNOWN	None	1663	1239	412	80275966	80303497	1	None	SCARB3, GPIV, FAT, GP4, GP3B
7	CD36	ENSG00000135218	ENST00000433696	protein_coding	KNOWN	None	1663	1302	433	80275969	80303494	1	None	SCARB3, GPIV, FAT, GP4, GP3B
7	CD36	ENSG00000135218	ENST00000544133	protein_coding	KNOWN	None	1663	867	288	80275966	80303494	1	None	SCARB3, GPIV, FAT, GP4, GP3B
19	None	ENSG00000207073	ENST00000384345	misc_RNA	NOVEL	None	None	None	None	50069929	50070029	1	None	None
7	PKD1L1	ENSG00000158683	ENST00000289672	protein_coding	KNOWN	CCDS34633	18053	8550	2849	47814250	47988088	-1	None	PRO19563
7	PKD1L1	ENSG00000158683	ENST00000483616	retained_intron	KNOWN	None	18053	None	None	47848715	47867064	-1	None	PRO19563
7	PKD1L1	ENSG00000158683	ENST00000462350	processed_transcript	PUTATIVE	None	18053	None	None	47849008	47849360	-1	None	PRO19563
7	PKD1L1	ENSG00000158683	ENST00000433506	protein_coding	KNOWN	None	18053	493	163	47849008	47852835	-1	None	PRO19563
19	None	ENSG00000268636	ENST00000600665	antisense	KNOWN	None	None	None	None	50129251	50129696	-1	None	None
19	KIR2DL1	ENSG00000125498	ENST00000336077	protein_coding	KNOWN	CCDS12904	6329	1047	348	55281263	55295774	1	None	cl-42, nkat1, 47.11, p58.1, CD158A
19	KIR2DL1	ENSG00000125498	ENST00000291633	protein_coding	NOVEL	None	6329	1125	374	55281277	55295317	1	None	cl-42, nkat1, 47.11, p58.1, CD158A
8	None	ENSG00000253227	ENST00000517482	lincRNA	KNOWN	None	None	None	None	125283924	125289825	1	None	None
22	None	ENSG00000269104	ENST00000598651	protein_coding	NOVEL	None	None	39	12	41685388	41685686	-1	None	None
19	MIR5088	ENSG00000264413	ENST00000581740	miRNA	KNOWN	None	43489	None	None	50185328	50185411	1	None	hsa-mir-5088
22	FOXRED2	ENSG00000100350	ENST00000397224	protein_coding	KNOWN	CCDS13929	26264	2055	684	36883237	36903148	-1	None	FLJ23322
22	FOXRED2	ENSG00000100350	ENST00000216187	protein_coding	KNOWN	CCDS13929	26264	2055	684	36884289	36903069	-1	None	FLJ23322
22	FOXRED2	ENSG00000100350	ENST00000366463	protein_coding	PUTATIVE	None	26264	711	236	36884646	36894444	-1	None	FLJ23322
22	FOXRED2	ENSG00000100350	ENST00000397223	protein_coding	KNOWN	CCDS13929	26264	2055	684	36886034	36902577	-1	None	FLJ23322
22	FOXRED2	ENSG00000100350	ENST00000423980	protein_coding	KNOWN	None	26264	259	85	36902211	36903090	-1	None	FLJ23322
19	None	ENSG00000268677	ENST00000596472	antisense	KNOWN	None	None	None	None	50192110	50193830	-1	None	None
15	None	ENSG00000259683	ENST00000561247	unprocessed_pseudogene	KNOWN	None	None	None	None	84944427	84950601	1	None	None
6	None	ENSG00000218596	ENST00000406202	processed_pseudogene	KNOWN	None	None	None	None	157297428	157298206	1	None	None
2	TMEM182	ENSG00000170417	ENST00000454536	protein_coding	PUTATIVE	None	26391	240	79	103353367	103414359	1	None	FLJ30294
2	TMEM182	ENSG00000170417	ENST00000409528	protein_coding	KNOWN	None	26391	402	133	103353367	103433875	1	None	FLJ30294
2	TMEM182	ENSG00000170417	ENST00000409173	protein_coding	PUTATIVE	None	26391	561	186	103353370	103433879	1	None	FLJ30294
2	TMEM182	ENSG00000170417	ENST00000469971	processed_transcript	KNOWN	None	26391	None	None	103353391	103391977	1	None	FLJ30294
2	TMEM182	ENSG00000170417	ENST00000488134	processed_transcript	KNOWN	None	26391	None	None	103353405	103431563	1	None	FLJ30294
2	TMEM182	ENSG00000170417	ENST00000412401	protein_coding	KNOWN	CCDS2064	26391	690	229	103378472	103434125	1	None	FLJ30294
2	TMEM182	ENSG00000170417	ENST00000486293	processed_transcript	KNOWN	None	26391	None	None	103379058	103460352	1	None	FLJ30294
2	TMEM182	ENSG00000170417	ENST00000484094	retained_intron	KNOWN	None	26391	None	None	103414225	103432775	1	None	FLJ30294
22	None	ENSG00000227005	ENST00000413504	lincRNA	KNOWN	None	None	None	None	20644408	20645991	1	None	None
8	None	ENSG00000237586	ENST00000517740	processed_pseudogene	KNOWN	None	None	None	None	125313556	125314045	1	None	None
14	NOP9	ENSG00000196943	ENST00000267425	protein_coding	KNOWN	CCDS9624	19826	1911	636	24769068	24778330	1	C14orf21	None
14	NOP9	ENSG00000196943	ENST00000396802	protein_coding	NOVEL	None	19826	1608	535	24769085	24774422	1	C14orf21	None
14	NOP9	ENSG00000196943	ENST00000557362	protein_coding	PUTATIVE	None	19826	293	96	24771611	24775861	1	C14orf21	None
22	PPP1R26P3	ENSG00000233938	ENST00000448709	unprocessed_pseudogene	KNOWN	None	42017	None	None	20670709	20674508	-1	KIAA0649P3	None
12	None	ENSG00000269367	ENST00000601185	protein_coding	NOVEL	None	None	135	44	42624050	42628075	1	None	None
22	RNU6-225P	ENSG00000207343	ENST00000384613	snRNA	KNOWN	None	47188	None	None	20771087	20771189	-1	None	None
6	None	ENSG00000233044	ENST00000442936	antisense	KNOWN	None	None	None	None	157428861	157440840	-1	None	None
22	None	ENSG00000215493	ENST00000426448	processed_pseudogene	KNOWN	None	None	None	None	20804409	20806111	1	None	None
12	EP400	ENSG00000183495	ENST00000333577	protein_coding	KNOWN	None	11958	9480	3159	132434508	132565005	1	TNRC12	CAGH32, KIAA1498, P400, KIAA1818, DKFZP434I225
12	EP400	ENSG00000183495	ENST00000389561	protein_coding	KNOWN	CCDS31929	11958	9372	3123	132434508	132565005	1	TNRC12	CAGH32, KIAA1498, P400, KIAA1818, DKFZP434I225
12	EP400	ENSG00000183495	ENST00000389562	protein_coding	KNOWN	None	11958	9369	3122	132434508	132565005	1	TNRC12	CAGH32, KIAA1498, P400, KIAA1818, DKFZP434I225
12	EP400	ENSG00000183495	ENST00000332482	protein_coding	KNOWN	None	11958	9261	3086	132434508	132565005	1	TNRC12	CAGH32, KIAA1498, P400, KIAA1818, DKFZP434I225
12	EP400	ENSG00000183495	ENST00000330386	protein_coding	KNOWN	None	11958	9129	3042	132434508	132565005	1	TNRC12	CAGH32, KIAA1498, P400, KIAA1818, DKFZP434I225
6	None	ENSG00000252609	ENST00000516800	snoRNA	NOVEL	None	None	None	None	157712343	157712431	-1	None	None
6	PKIB	ENSG00000135549	ENST00000392491	protein_coding	KNOWN	CCDS5126	9018	237	78	122793076	123047035	1	PRKACN2	None
6	PKIB	ENSG00000135549	ENST00000607474	processed_transcript	KNOWN	None	9018	None	None	122793079	122814620	1	PRKACN2	None
6	PKIB	ENSG00000135549	ENST00000368452	protein_coding	KNOWN	CCDS5126	9018	237	78	122931377	123047037	1	PRKACN2	None
6	PKIB	ENSG00000135549	ENST00000368448	protein_coding	KNOWN	CCDS5126	9018	237	78	122931377	123047037	1	PRKACN2	None
6	PKIB	ENSG00000135549	ENST00000258014	protein_coding	KNOWN	CCDS59033	9018	258	85	122973877	123047518	1	PRKACN2	None
6	PKIB	ENSG00000135549	ENST00000354275	protein_coding	KNOWN	CCDS5126	9018	237	78	123038706	123047037	1	PRKACN2	None
6	PKIB	ENSG00000135549	ENST00000368446	protein_coding	NOVEL	None	9018	264	87	123038707	123046426	1	PRKACN2	None
6	PKIB	ENSG00000135549	ENST00000392490	protein_coding	KNOWN	CCDS5126	9018	237	78	122931377	123047517	1	PRKACN2	None
22	KLHL22-IT1	ENSG00000255156	ENST00000532431	sense_intronic	KNOWN	None	41481	None	None	20829490	20829598	-1	None	None
22	None	ENSG00000201916	ENST00000365046	misc_RNA	NOVEL	None	None	None	None	20835445	20835555	1	None	None
11	CARD17	ENSG00000255221	ENST00000375707	protein_coding	KNOWN	CCDS31662	33827	333	110	104963196	104972158	-1	None	INCA
22	RN7SL812P	ENSG00000242876	ENST00000493791	misc_RNA	KNOWN	None	46828	None	None	20836224	20836497	-1	None	None
22	KRT18P5	ENSG00000236670	ENST00000436075	processed_pseudogene	KNOWN	None	19259	None	None	20837102	20838392	-1	None	None
22	None	ENSG00000265300	ENST00000578704	miRNA	NOVEL	None	None	None	None	20837512	20837603	-1	None	None
6	C6orf52	ENSG00000137434	ENST00000460742	protein_coding	PUTATIVE	None	20881	192	63	10671651	10694766	-1	None	None
6	C6orf52	ENSG00000137434	ENST00000426700	protein_coding	PUTATIVE	CCDS47371	20881	459	152	10671655	10687783	-1	None	None
6	C6orf52	ENSG00000137434	ENST00000467832	processed_transcript	KNOWN	None	20881	None	None	10671655	10694766	-1	None	None
6	C6orf52	ENSG00000137434	ENST00000379586	protein_coding	KNOWN	None	20881	198	65	10671655	10694842	-1	None	None
6	C6orf52	ENSG00000137434	ENST00000503680	protein_coding	PUTATIVE	None	20881	282	93	10671655	10695030	-1	None	None
6	C6orf52	ENSG00000137434	ENST00000259983	protein_coding	KNOWN	CCDS47371	20881	459	152	10671653	10694839	-1	None	None
15	RN7SL484P	ENSG00000241588	ENST00000462651	misc_RNA	KNOWN	None	46500	None	None	100331397	100331649	1	None	None
22	None	ENSG00000236003	ENST00000420225	antisense	KNOWN	None	None	None	None	20876357	20878157	-1	None	None
15	None	ENSG00000221511	ENST00000408584	miRNA	NOVEL	None	None	None	None	100332502	100332584	1	None	None
9	None	ENSG00000239392	ENST00000435838	processed_pseudogene	KNOWN	None	None	None	None	34133155	34134694	-1	None	None
6	LCA5	ENSG00000135338	ENST00000369846	protein_coding	KNOWN	CCDS4990	31923	2094	697	80194708	80247125	-1	C6orf152	None
6	LCA5	ENSG00000135338	ENST00000392959	protein_coding	KNOWN	CCDS4990	31923	2094	697	80194708	80247147	-1	C6orf152	None
6	LCA5	ENSG00000135338	ENST00000467898	protein_coding	PUTATIVE	None	31923	1293	430	80197545	80228802	-1	C6orf152	None
15	None	ENSG00000254744	ENST00000528696	antisense	KNOWN	None	None	None	None	100510420	100514215	1	None	None
1	MPZL1	ENSG00000197965	ENST00000487858	processed_transcript	PUTATIVE	None	7226	None	None	167690429	167691251	1	None	PZR, FLJ21047
1	MPZL1	ENSG00000197965	ENST00000464954	retained_intron	KNOWN	None	7226	None	None	167691187	167735133	1	None	PZR, FLJ21047
1	MPZL1	ENSG00000197965	ENST00000359523	protein_coding	KNOWN	CCDS1264	7226	810	269	167691187	167761156	1	None	PZR, FLJ21047
1	MPZL1	ENSG00000197965	ENST00000448405	nonsense_mediated_decay	KNOWN	None	7226	288	95	167691221	167757990	1	None	PZR, FLJ21047
1	MPZL1	ENSG00000197965	ENST00000392121	protein_coding	NOVEL	CCDS53425	7226	360	119	167691226	167760056	1	None	PZR, FLJ21047
1	MPZL1	ENSG00000197965	ENST00000465787	retained_intron	KNOWN	None	7226	None	None	167691230	167743146	1	None	PZR, FLJ21047
1	MPZL1	ENSG00000197965	ENST00000474859	protein_coding	KNOWN	CCDS44273	7226	630	209	167691389	167757081	1	None	PZR, FLJ21047
1	MPZL1	ENSG00000197965	ENST00000474729	retained_intron	KNOWN	None	7226	None	None	167734295	167757249	1	None	PZR, FLJ21047
1	MPZL1	ENSG00000197965	ENST00000367853	protein_coding	NOVEL	None	7226	552	183	167734807	167757410	1	None	PZR, FLJ21047
1	MPZL1	ENSG00000197965	ENST00000403379	processed_transcript	PUTATIVE	None	7226	None	None	167743793	167757622	1	None	PZR, FLJ21047
1	MPZL1	ENSG00000197965	ENST00000498279	processed_transcript	PUTATIVE	None	7226	None	None	167756304	167757391	1	None	PZR, FLJ21047
HSCHR6_MHC_QBL	LY6G5C	ENSG00000206404	ENST00000477472	processed_transcript	KNOWN	None	13932	None	None	31634707	31638388	-1	C6orf20	G5c, NG33
HSCHR6_MHC_QBL	LY6G5C	ENSG00000206404	ENST00000464476	retained_intron	KNOWN	None	13932	None	None	31634707	31638388	-1	C6orf20	G5c, NG33
HSCHR6_MHC_QBL	LY6G5C	ENSG00000206404	ENST00000383425	protein_coding	KNOWN	None	13932	453	150	31634707	31638401	-1	C6orf20	G5c, NG33
HSCHR6_MHC_QBL	LY6G5C	ENSG00000206404	ENST00000460737	processed_transcript	KNOWN	None	13932	None	None	31634707	31639499	-1	C6orf20	G5c, NG33
HSCHR6_MHC_QBL	LY6G5C	ENSG00000206404	ENST00000494386	processed_transcript	KNOWN	None	13932	None	None	31634707	31641229	-1	C6orf20	G5c, NG33
HSCHR6_MHC_QBL	LY6G5C	ENSG00000206404	ENST00000486919	processed_transcript	KNOWN	None	13932	None	None	31634707	31642059	-1	C6orf20	G5c, NG33
HSCHR6_MHC_QBL	LY6G5C	ENSG00000206404	ENST00000449562	protein_coding	KNOWN	None	13932	677	224	31634707	31642059	-1	C6orf20	G5c, NG33
HSCHR6_MHC_QBL	LY6G5C	ENSG00000206404	ENST00000494996	processed_transcript	KNOWN	None	13932	None	None	31639371	31639983	-1	C6orf20	G5c, NG33
HSCHR6_MHC_QBL	LY6G5C	ENSG00000206404	ENST00000548957	protein_coding	KNOWN	None	13932	447	148	31634707	31642059	-1	C6orf20	G5c, NG33
6	LDHAL6FP	ENSG00000217783	ENST00000405916	processed_pseudogene	KNOWN	None	44240	None	None	157720077	157721158	-1	None	None
22	None	ENSG00000250261	ENST00000508880	unprocessed_pseudogene	KNOWN	None	None	None	None	20941783	20946505	-1	None	None
16	KLHL36	ENSG00000135686	ENST00000564996	protein_coding	KNOWN	CCDS10948	17844	1851	616	84682131	84695920	1	C16orf44	FLJ12543
16	KLHL36	ENSG00000135686	ENST00000258157	protein_coding	KNOWN	None	17844	1662	553	84682141	84695920	1	C16orf44	FLJ12543
16	KLHL36	ENSG00000135686	ENST00000567410	protein_coding	KNOWN	None	17844	293	96	84682218	84690706	1	C16orf44	FLJ12543
16	KLHL36	ENSG00000135686	ENST00000569472	protein_coding	KNOWN	None	17844	347	114	84682528	84690760	1	C16orf44	FLJ12543
16	KLHL36	ENSG00000135686	ENST00000565743	protein_coding	KNOWN	None	17844	186	61	84682572	84690599	1	C16orf44	FLJ12543
16	KLHL36	ENSG00000135686	ENST00000564159	retained_intron	KNOWN	None	17844	None	None	84691509	84695915	1	C16orf44	FLJ12543
16	KLHL36	ENSG00000135686	ENST00000325279	retained_intron	KNOWN	None	17844	None	None	84693145	84701292	1	C16orf44	FLJ12543
6	None	ENSG00000271040	ENST00000603032	lincRNA	KNOWN	None	None	None	None	157744996	157745509	1	None	None
15	None	ENSG00000259219	ENST00000559400	antisense	KNOWN	None	None	None	None	100516686	100520979	1	None	None
11	CARD18	ENSG00000255501	ENST00000530950	protein_coding	KNOWN	CCDS53705	28861	273	90	105008448	105010453	-1	None	UNQ5804, ICEBERG, pseudo-ICE
11	CARD18	ENSG00000255501	ENST00000526823	protein_coding	PUTATIVE	None	28861	156	51	105008670	105010009	-1	None	UNQ5804, ICEBERG, pseudo-ICE
11	CARD18	ENSG00000255501	ENST00000532895	protein_coding	PUTATIVE	None	28861	156	51	105008755	105010320	-1	None	UNQ5804, ICEBERG, pseudo-ICE
7	RNU6-229P	ENSG00000252423	ENST00000516614	snRNA	KNOWN	None	47192	None	None	68866188	68866289	-1	None	None
5	MIR378A	ENSG00000199047	ENST00000362177	miRNA	KNOWN	None	31871	None	None	149112388	149112453	1	MIRN378, MIR378	hsa-mir-378
HSCHR6_MHC_DBB	COL11A2	ENSG00000230930	ENST00000448717	protein_coding	KNOWN	None	2187	4953	1650	33108368	33138186	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_DBB	COL11A2	ENSG00000230930	ENST00000494246	processed_transcript	KNOWN	None	2187	None	None	33108382	33123580	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_DBB	COL11A2	ENSG00000230930	ENST00000438711	protein_coding	KNOWN	None	2187	1872	623	33123819	33138154	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_DBB	COL11A2	ENSG00000230930	ENST00000452937	protein_coding	KNOWN	None	2187	873	290	33132132	33138141	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_DBB	COL11A2	ENSG00000230930	ENST00000551758	protein_coding	KNOWN	None	2187	5211	1736	33108379	33138155	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_DBB	COL11A2	ENSG00000230930	ENST00000551536	protein_coding	KNOWN	None	2187	5148	1715	33108379	33138155	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_DBB	COL11A2	ENSG00000230930	ENST00000552556	protein_coding	KNOWN	None	2187	5133	1710	33108379	33138155	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_DBB	COL11A2	ENSG00000230930	ENST00000551786	protein_coding	KNOWN	None	2187	5070	1689	33108379	33138155	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_DBB	COL11A2	ENSG00000230930	ENST00000547883	protein_coding	KNOWN	None	2187	5031	1676	33108379	33138155	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_DBB	COL11A2	ENSG00000230930	ENST00000551572	protein_coding	KNOWN	None	2187	4968	1655	33108379	33138155	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_DBB	COL11A2	ENSG00000230930	ENST00000550998	protein_coding	KNOWN	None	2187	4890	1629	33108379	33138155	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_DBB	COL11A2	ENSG00000230930	ENST00000550517	protein_coding	KNOWN	None	2187	921	306	33108379	33123500	-1	DFNA13, DFNB53	HKE5
5	None	ENSG00000251583	ENST00000503102	processed_pseudogene	KNOWN	None	None	None	None	149311577	149312231	-1	None	None
16	RANBP10	ENSG00000141084	ENST00000317506	protein_coding	KNOWN	CCDS32469	29285	1863	620	67757005	67840555	-1	None	KIAA1464
16	RANBP10	ENSG00000141084	ENST00000448631	protein_coding	NOVEL	None	29285	1785	594	67759908	67840463	-1	None	KIAA1464
16	RANBP10	ENSG00000141084	ENST00000602506	nonsense_mediated_decay	KNOWN	None	29285	450	149	67759912	67840460	-1	None	KIAA1464
16	RANBP10	ENSG00000141084	ENST00000602677	protein_coding	NOVEL	None	29285	1953	650	67759934	67840463	-1	None	KIAA1464
16	RANBP10	ENSG00000141084	ENST00000602525	retained_intron	KNOWN	None	29285	None	None	67764932	67840460	-1	None	KIAA1464
16	RANBP10	ENSG00000141084	ENST00000602638	nonsense_mediated_decay	KNOWN	None	29285	381	126	67764987	67840463	-1	None	KIAA1464
16	RANBP10	ENSG00000141084	ENST00000602815	nonsense_mediated_decay	KNOWN	None	29285	249	82	67768872	67840463	-1	None	KIAA1464
16	RANBP10	ENSG00000141084	ENST00000602887	processed_transcript	KNOWN	None	29285	None	None	67769548	67840421	-1	None	KIAA1464
16	RANBP10	ENSG00000141084	ENST00000411657	protein_coding	KNOWN	None	29285	1602	533	67759934	67840463	-1	None	KIAA1464
16	RANBP10	ENSG00000141084	ENST00000536251	protein_coding	KNOWN	None	29285	1176	391	67759912	67840460	-1	None	KIAA1464
16	RANBP10	ENSG00000141084	ENST00000425512	protein_coding	KNOWN	None	29285	540	179	67764987	67840463	-1	None	KIAA1464
22	SMPD4P1	ENSG00000223553	ENST00000416717	transcribed_unprocessed_pseudogene	KNOWN	None	39673	None	None	20956882	20980421	-1	None	None
22	SMPD4P1	ENSG00000223553	ENST00000443839	processed_transcript	KNOWN	None	39673	None	None	20970517	21011201	-1	None	None
22	SMPD4P1	ENSG00000223553	ENST00000433066	processed_transcript	KNOWN	None	39673	None	None	20992648	20993422	-1	None	None
16	UBA52P8	ENSG00000240793	ENST00000498379	processed_pseudogene	KNOWN	None	35625	None	None	48368382	48368765	-1	None	None
7	ELFN1	ENSG00000225968	ENST00000424383	protein_coding	KNOWN	CCDS59046	33154	2487	828	1727755	1787590	1	PPP1R28	None
7	ELFN1	ENSG00000225968	ENST00000561626	protein_coding	KNOWN	CCDS59046	33154	2487	828	1748798	1787590	1	PPP1R28	None
7	ELFN1	ENSG00000225968	ENST00000541472	protein_coding	KNOWN	None	33154	2421	806	1784233	1786719	1	PPP1R28	None
5	SLC4A9	ENSG00000113073	ENST00000506757	protein_coding	KNOWN	CCDS47278	11035	2880	959	139739787	139754728	1	None	AE4
5	SLC4A9	ENSG00000113073	ENST00000506545	protein_coding	NOVEL	CCDS58974	11035	2691	896	139739795	139754429	1	None	AE4
5	SLC4A9	ENSG00000113073	ENST00000432095	protein_coding	KNOWN	CCDS58975	11035	2838	945	139739795	139754587	1	None	AE4
5	SLC4A9	ENSG00000113073	ENST00000507527	protein_coding	KNOWN	CCDS58973	11035	2952	983	139739800	139754593	1	None	AE4
5	SLC4A9	ENSG00000113073	ENST00000514849	retained_intron	KNOWN	None	11035	None	None	139745442	139747313	1	None	AE4
5	SLC4A9	ENSG00000113073	ENST00000504742	retained_intron	KNOWN	None	11035	None	None	139751034	139754514	1	None	AE4
5	SLC4A9	ENSG00000113073	ENST00000230993	protein_coding	KNOWN	CCDS58973	11035	2952	983	139739787	139754722	1	None	AE4
3	USP13	ENSG00000058056	ENST00000263966	protein_coding	KNOWN	CCDS3235	12611	2592	863	179370543	179507189	1	None	IsoT-3
3	USP13	ENSG00000058056	ENST00000482333	processed_transcript	KNOWN	None	12611	None	None	179370838	179474925	1	None	IsoT-3
3	USP13	ENSG00000058056	ENST00000497380	nonsense_mediated_decay	KNOWN	None	12611	228	75	179371086	179426582	1	None	IsoT-3
3	USP13	ENSG00000058056	ENST00000496897	protein_coding	PUTATIVE	None	12611	2397	798	179371481	179502194	1	None	IsoT-3
3	USP13	ENSG00000058056	ENST00000497155	protein_coding	NOVEL	None	12611	899	298	179439352	179478939	1	None	IsoT-3
6	None	ENSG00000213078	ENST00000428694	processed_pseudogene	KNOWN	None	None	None	None	157787022	157787955	-1	None	None
16	RN7SL54P	ENSG00000265077	ENST00000580178	misc_RNA	KNOWN	None	46070	None	None	48448689	48448970	1	None	None
16	None	ENSG00000239138	ENST00000459358	miRNA	NOVEL	None	None	None	None	48455038	48455114	-1	None	None
16	None	ENSG00000261802	ENST00000565812	sense_overlapping	KNOWN	None	None	None	None	48481815	48482309	-1	None	None
16	None	ENSG00000260688	ENST00000561492	processed_pseudogene	KNOWN	None	None	None	None	48504864	48505044	-1	None	None
HSCHR6_MHC_COX	GABBR1	ENSG00000232632	ENST00000438094	protein_coding	KNOWN	None	4070	2535	844	29519995	29592421	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_COX	GABBR1	ENSG00000232632	ENST00000423604	protein_coding	KNOWN	None	4070	2886	961	29566612	29597543	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_COX	GABBR1	ENSG00000232632	ENST00000434660	protein_coding	KNOWN	None	4070	2700	899	29566612	29597518	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_COX	GABBR1	ENSG00000232632	ENST00000460735	processed_transcript	KNOWN	None	4070	None	None	29566612	29573115	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_COX	GABBR1	ENSG00000232632	ENST00000486623	processed_transcript	KNOWN	None	4070	None	None	29566612	29597317	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_COX	GABBR1	ENSG00000232632	ENST00000414980	protein_coding	KNOWN	None	4070	2535	844	29566617	29592396	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_COX	GABBR1	ENSG00000232632	ENST00000483304	processed_transcript	KNOWN	None	4070	None	None	29567696	29569531	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_COX	GABBR1	ENSG00000232632	ENST00000470098	processed_transcript	KNOWN	None	4070	None	None	29569295	29596768	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_COX	GABBR1	ENSG00000232632	ENST00000487021	processed_transcript	KNOWN	None	4070	None	None	29569792	29570971	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_COX	GABBR1	ENSG00000232632	ENST00000474366	processed_transcript	KNOWN	None	4070	None	None	29572836	29576981	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_COX	GABBR1	ENSG00000232632	ENST00000468622	processed_transcript	KNOWN	None	4070	None	None	29586187	29588644	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_COX	GABBR1	ENSG00000232632	ENST00000463819	processed_transcript	KNOWN	None	4070	None	None	29594282	29597450	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_COX	GABBR1	ENSG00000232632	ENST00000548767	protein_coding	KNOWN	None	4070	1737	578	29566611	29597568	-1	None	hGB1a, GPRC3A
9	None	ENSG00000203513	ENST00000366327	pseudogene	NOVEL	None	None	None	None	34169687	34169934	1	None	None
19	ABHD17A	ENSG00000129968	ENST00000292577	protein_coding	KNOWN	CCDS45902	28756	933	310	1876809	1885546	-1	C19orf27, FAM108A1	MGC5244
19	ABHD17A	ENSG00000129968	ENST00000250974	protein_coding	KNOWN	CCDS32867	28756	1086	361	1876975	1885432	-1	C19orf27, FAM108A1	MGC5244
19	ABHD17A	ENSG00000129968	ENST00000588598	retained_intron	KNOWN	None	28756	None	None	1876976	1883799	-1	C19orf27, FAM108A1	MGC5244
19	ABHD17A	ENSG00000129968	ENST00000591351	nonsense_mediated_decay	KNOWN	None	28756	531	176	1876976	1883799	-1	C19orf27, FAM108A1	MGC5244
19	ABHD17A	ENSG00000129968	ENST00000590661	protein_coding	NOVEL	None	28756	678	225	1876978	1881584	-1	C19orf27, FAM108A1	MGC5244
19	ABHD17A	ENSG00000129968	ENST00000592757	nonsense_mediated_decay	KNOWN	None	28756	119	38	1877203	1880016	-1	C19orf27, FAM108A1	MGC5244
X	GPR101	ENSG00000165370	ENST00000298110	protein_coding	KNOWN	CCDS14662	14963	1527	508	136112307	136113833	-1	None	None
19	ZNF543	ENSG00000178229	ENST00000321545	protein_coding	KNOWN	CCDS33130	25281	1803	600	57831877	57842144	1	None	DKFZp434H055
7	None	ENSG00000205971	ENST00000382528	protein_coding	PUTATIVE	None	None	585	194	1732446	1733961	-1	None	None
16	SMG1P1	ENSG00000237296	ENST00000446662	processed_transcript	KNOWN	None	44186	None	None	22448329	22472134	1	None	None
16	SMG1P1	ENSG00000237296	ENST00000309865	transcribed_unprocessed_pseudogene	KNOWN	None	44186	None	None	22448722	22503147	1	None	None
16	SMG1P1	ENSG00000237296	ENST00000308347	processed_transcript	KNOWN	None	44186	None	None	22448906	22478607	1	None	None
16	SMG1P1	ENSG00000237296	ENST00000337787	processed_transcript	KNOWN	None	44186	None	None	22462888	22477939	1	None	None
16	SMG1P1	ENSG00000237296	ENST00000381231	processed_transcript	KNOWN	None	44186	None	None	22482958	22490143	1	None	None
16	SMG1P1	ENSG00000237296	ENST00000431681	processed_transcript	KNOWN	None	44186	None	None	22486358	22503541	1	None	None
16	SMG1P1	ENSG00000237296	ENST00000418592	processed_transcript	KNOWN	None	44186	None	None	22493285	22502712	1	None	None
16	SMG1P1	ENSG00000237296	ENST00000378955	unprocessed_pseudogene	KNOWN	None	44186	None	None	22490412	22503207	1	None	None
17	MPO	ENSG00000005381	ENST00000225275	protein_coding	KNOWN	CCDS11604	7218	2238	745	56347217	56358296	-1	None	None
17	MPO	ENSG00000005381	ENST00000577220	protein_coding	PUTATIVE	None	7218	260	85	56348090	56350853	-1	None	None
17	MPO	ENSG00000005381	ENST00000578493	processed_transcript	KNOWN	None	7218	None	None	56352932	56355480	-1	None	None
17	MPO	ENSG00000005381	ENST00000581022	retained_intron	KNOWN	None	7218	None	None	56356198	56356760	-1	None	None
17	MPO	ENSG00000005381	ENST00000580005	processed_transcript	KNOWN	None	7218	None	None	56357237	56358048	-1	None	None
17	MPO	ENSG00000005381	ENST00000340482	protein_coding	KNOWN	None	7218	2334	777	56347217	56358296	-1	None	None
16	NOMO2	ENSG00000185164	ENST00000330537	protein_coding	KNOWN	CCDS10570	22652	3669	1222	18511182	18573533	-1	None	NOMO, PM5
16	NOMO2	ENSG00000185164	ENST00000381474	protein_coding	KNOWN	CCDS32394	22652	3804	1267	18511187	18573428	-1	None	NOMO, PM5
16	NOMO2	ENSG00000185164	ENST00000564991	nonsense_mediated_decay	KNOWN	None	22652	417	138	18511194	18573396	-1	None	NOMO, PM5
16	NOMO2	ENSG00000185164	ENST00000569526	retained_intron	KNOWN	None	22652	None	None	18512289	18518622	-1	None	NOMO, PM5
16	NOMO2	ENSG00000185164	ENST00000567831	nonsense_mediated_decay	KNOWN	None	22652	242	79	18532142	18540869	-1	None	NOMO, PM5
16	NOMO2	ENSG00000185164	ENST00000569051	nonsense_mediated_decay	KNOWN	None	22652	671	222	18532221	18544424	-1	None	NOMO, PM5
16	NOMO2	ENSG00000185164	ENST00000564355	retained_intron	KNOWN	None	22652	None	None	18549952	18554264	-1	None	NOMO, PM5
16	NOMO2	ENSG00000185164	ENST00000562312	nonsense_mediated_decay	KNOWN	None	22652	186	61	18562795	18573498	-1	None	NOMO, PM5
16	NOMO2	ENSG00000185164	ENST00000543392	protein_coding	KNOWN	None	22652	3303	1100	18511194	18573396	-1	None	NOMO, PM5
15	RN7SL417P	ENSG00000244056	ENST00000459938	misc_RNA	KNOWN	None	46433	None	None	84948770	84949050	1	None	None
9	None	ENSG00000227383	ENST00000439099	processed_pseudogene	KNOWN	None	None	None	None	34191553	34191879	1	None	None
8	None	ENSG00000271975	ENST00000607837	lincRNA	KNOWN	None	None	None	None	125318430	125320617	-1	None	None
X	SH3KBP1	ENSG00000147010	ENST00000397821	protein_coding	KNOWN	CCDS14193	13867	1998	665	19552093	19905719	-1	None	CIN85
X	SH3KBP1	ENSG00000147010	ENST00000379716	protein_coding	KNOWN	CCDS55383	13867	1284	427	19552125	19689116	-1	None	CIN85
X	SH3KBP1	ENSG00000147010	ENST00000379698	protein_coding	KNOWN	CCDS35213	13867	1887	628	19553811	19817869	-1	None	CIN85
X	SH3KBP1	ENSG00000147010	ENST00000379726	protein_coding	KNOWN	None	13867	1938	645	19554532	19764529	-1	None	CIN85
X	SH3KBP1	ENSG00000147010	ENST00000379697	protein_coding	KNOWN	None	13867	1662	553	19606396	19905577	-1	None	CIN85
X	SH3KBP1	ENSG00000147010	ENST00000494961	processed_transcript	KNOWN	None	13867	None	None	19606802	19713819	-1	None	CIN85
X	SH3KBP1	ENSG00000147010	ENST00000477102	processed_transcript	KNOWN	None	13867	None	None	19610186	19682833	-1	None	CIN85
X	SH3KBP1	ENSG00000147010	ENST00000432234	protein_coding	KNOWN	None	13867	626	207	19663535	19765821	-1	None	CIN85
X	SH3KBP1	ENSG00000147010	ENST00000431164	protein_coding	KNOWN	None	13867	449	148	19701942	19758955	-1	None	CIN85
X	SH3KBP1	ENSG00000147010	ENST00000541422	protein_coding	KNOWN	None	13867	1215	404	19554308	19688480	-1	None	CIN85
X	ZIC3	ENSG00000156925	ENST00000287538	protein_coding	KNOWN	CCDS14663	12874	1404	467	136648301	136653744	1	HTX1	HTX, ZNF203
X	ZIC3	ENSG00000156925	ENST00000370606	protein_coding	KNOWN	None	12874	1374	457	136648677	136659850	1	HTX1	HTX, ZNF203
X	ZIC3	ENSG00000156925	ENST00000478471	processed_transcript	KNOWN	None	12874	None	None	136650964	136652154	1	HTX1	HTX, ZNF203
12	NPFF	ENSG00000139574	ENST00000448979	retained_intron	KNOWN	None	7901	None	None	53900472	53902004	-1	None	FMRFAL
12	NPFF	ENSG00000139574	ENST00000267017	protein_coding	KNOWN	CCDS8862	7901	342	113	53900474	53901422	-1	None	FMRFAL
19	PTGIR	ENSG00000160013	ENST00000291294	protein_coding	KNOWN	CCDS12686	9602	1161	386	47123725	47128375	-1	None	IP
19	PTGIR	ENSG00000160013	ENST00000597185	protein_coding	PUTATIVE	None	9602	348	115	47124424	47128329	-1	None	IP
19	PTGIR	ENSG00000160013	ENST00000598865	protein_coding	PUTATIVE	None	9602	525	174	47124424	47128329	-1	None	IP
19	PTGIR	ENSG00000160013	ENST00000594275	protein_coding	PUTATIVE	None	9602	432	143	47124424	47128329	-1	None	IP
19	PTGIR	ENSG00000160013	ENST00000595460	retained_intron	KNOWN	None	9602	None	None	47125979	47128004	-1	None	IP
19	PTGIR	ENSG00000160013	ENST00000596260	protein_coding	PUTATIVE	None	9602	891	296	47126387	47128294	-1	None	IP
15	None	ENSG00000259570	ENST00000560672	unprocessed_pseudogene	KNOWN	None	None	None	None	84949210	84950212	1	None	None
9	None	ENSG00000200141	ENST00000363271	misc_RNA	NOVEL	None	None	None	None	34194810	34194905	-1	None	None
6	None	ENSG00000216347	ENST00000403509	processed_pseudogene	KNOWN	None	None	None	None	54467285	54467948	-1	None	None
8	None	ENSG00000245149	ENST00000499418	lincRNA	KNOWN	None	None	None	None	125474726	125486805	-1	None	None
8	None	ENSG00000245149	ENST00000519861	lincRNA	KNOWN	None	None	None	None	125485049	125486595	-1	None	None
8	None	ENSG00000245149	ENST00000530778	lincRNA	KNOWN	None	None	None	None	125485051	125486817	-1	None	None
6	None	ENSG00000218631	ENST00000407196	processed_pseudogene	KNOWN	None	None	None	None	157793588	157794203	-1	None	None
21	None	ENSG00000267883	ENST00000601068	protein_coding	NOVEL	None	None	354	117	47183565	47190005	-1	None	None
6	MIR3692	ENSG00000266617	ENST00000577768	miRNA	KNOWN	None	38885	None	None	157950164	157950232	1	None	hsa-mir-3692
10	KIAA1598	ENSG00000187164	ENST00000497044	processed_transcript	KNOWN	None	29319	None	None	118644308	118733681	-1	None	shootin1, shootin-1
10	KIAA1598	ENSG00000187164	ENST00000260777	protein_coding	KNOWN	CCDS31293	29319	1371	456	118644308	118764876	-1	None	shootin1, shootin-1
10	KIAA1598	ENSG00000187164	ENST00000490615	processed_transcript	KNOWN	None	29319	None	None	118713560	118719842	-1	None	shootin1, shootin-1
10	KIAA1598	ENSG00000187164	ENST00000392903	protein_coding	KNOWN	None	29319	1950	649	118643742	118765088	-1	None	shootin1, shootin-1
10	KIAA1598	ENSG00000187164	ENST00000355371	protein_coding	KNOWN	CCDS44482	29319	1896	631	118644308	118765088	-1	None	shootin1, shootin-1
10	KIAA1598	ENSG00000187164	ENST00000392901	protein_coding	KNOWN	CCDS58097	29319	1497	498	118659823	118886097	-1	None	shootin1, shootin-1
6	None	ENSG00000219448	ENST00000401486	processed_pseudogene	KNOWN	None	None	None	None	157998119	158003309	-1	None	None
HSCHR6_MHC_COX	C6orf47-AS1	ENSG00000235516	ENST00000422865	processed_transcript	PUTATIVE	None	39767	None	None	31613520	31615911	1	None	None
6	None	ENSG00000234361	ENST00000411838	antisense	KNOWN	None	None	None	None	158250175	158251605	-1	None	None
21	None	ENSG00000268040	ENST00000593412	protein_coding	NOVEL	None	None	351	116	47347679	47352477	-1	None	None
4	FGFBP1	ENSG00000137440	ENST00000382333	protein_coding	KNOWN	CCDS3418	19695	705	234	15937192	15940363	-1	None	HBP17, FGFBP
4	FGFBP1	ENSG00000137440	ENST00000259988	protein_coding	KNOWN	CCDS3418	19695	705	234	15937195	15939971	-1	None	HBP17, FGFBP
21	HSPA13	ENSG00000155304	ENST00000285667	protein_coding	KNOWN	CCDS13567	11375	1416	471	15743436	15755508	-1	STCH	None
21	HSPA13	ENSG00000155304	ENST00000478035	processed_transcript	KNOWN	None	11375	None	None	15750663	15755805	-1	STCH	None
21	HSPA13	ENSG00000155304	ENST00000544452	protein_coding	KNOWN	None	11375	792	263	15745859	15755458	-1	STCH	None
14	IFI27L2	ENSG00000119632	ENST00000555558	retained_intron	KNOWN	None	19753	None	None	94594116	94595738	-1	FAM14A	TLH29
14	IFI27L2	ENSG00000119632	ENST00000554909	retained_intron	KNOWN	None	19753	None	None	94594118	94595314	-1	FAM14A	TLH29
14	IFI27L2	ENSG00000119632	ENST00000238609	protein_coding	KNOWN	CCDS9920	19753	393	130	94594118	94596001	-1	FAM14A	TLH29
14	IFI27L2	ENSG00000119632	ENST00000556727	protein_coding	PUTATIVE	None	19753	318	105	94594126	94596590	-1	FAM14A	TLH29
14	IFI27L2	ENSG00000119632	ENST00000553601	retained_intron	KNOWN	None	19753	None	None	94594186	94595926	-1	FAM14A	TLH29
14	IFI27L2	ENSG00000119632	ENST00000556552	retained_intron	KNOWN	None	19753	None	None	94594714	94595917	-1	FAM14A	TLH29
HSCHR6_MHC_COX	None	ENSG00000266759	ENST00000584606	misc_RNA	NOVEL	None	None	None	None	31618481	31618594	1	None	None
2	POU3F3	ENSG00000198914	ENST00000361360	protein_coding	KNOWN	CCDS33265	9216	1503	500	105471969	105476929	1	None	BRN1, OTF8
22	SRRD	ENSG00000100104	ENST00000215917	protein_coding	KNOWN	CCDS42995	33910	1020	339	26879843	26887899	1	None	HC/HCC, SRR1L
22	SRRD	ENSG00000100104	ENST00000477945	retained_intron	KNOWN	None	33910	None	None	26883948	26887036	1	None	HC/HCC, SRR1L
22	SRRD	ENSG00000100104	ENST00000471799	retained_intron	KNOWN	None	33910	None	None	26886739	26887798	1	None	HC/HCC, SRR1L
15	None	ENSG00000221247	ENST00000408320	miRNA	NOVEL	None	None	None	None	84949877	84949960	1	None	None
11	OR2AT4	ENSG00000171561	ENST00000305159	protein_coding	KNOWN	CCDS31639	19620	963	320	74799758	74800799	-1	None	None
12	None	ENSG00000267281	ENST00000591834	protein_coding	PUTATIVE	None	None	1392	463	53900475	54019763	-1	None	None
HSCHR6_MHC_COX	MIR4646	ENSG00000266384	ENST00000584183	miRNA	KNOWN	None	41543	None	None	31656222	31656284	-1	None	hsa-mir-4646
11	C11orf86	ENSG00000173237	ENST00000308963	protein_coding	KNOWN	CCDS44656	34442	348	115	66742748	66744475	1	None	FLJ22675
11	OR8Q1P	ENSG00000255341	ENST00000526467	processed_pseudogene	KNOWN	None	15317	None	None	124471480	124472134	1	None	None
15	CSPG4P5	ENSG00000235370	ENST00000558801	processed_transcript	KNOWN	None	29403	None	None	84953014	84966399	-1	None	None
15	CSPG4P5	ENSG00000235370	ENST00000558731	transcribed_unprocessed_pseudogene	KNOWN	None	29403	None	None	84956505	84962703	-1	None	None
15	CSPG4P5	ENSG00000235370	ENST00000456932	unprocessed_pseudogene	KNOWN	None	29403	None	None	84953014	84966399	-1	None	None
6	None	ENSG00000220773	ENST00000406712	processed_pseudogene	KNOWN	None	None	None	None	54489403	54490286	1	None	None
10	None	ENSG00000271220	ENST00000603866	processed_transcript	KNOWN	None	None	None	None	29095050	29102387	1	None	None
10	None	ENSG00000271220	ENST00000604686	transcribed_processed_pseudogene	KNOWN	None	None	None	None	29101828	29102068	1	None	None
10	HNRNPA1P33	ENSG00000213412	ENST00000421426	processed_pseudogene	KNOWN	None	44990	None	None	47133338	47133898	-1	None	None
7	AGAP3	ENSG00000133612	ENST00000490097	processed_transcript	KNOWN	None	16923	None	None	150782918	150814863	1	CENTG3	None
7	AGAP3	ENSG00000133612	ENST00000463381	protein_coding	NOVEL	None	16923	1743	580	150782954	150841521	1	CENTG3	None
7	AGAP3	ENSG00000133612	ENST00000473312	protein_coding	KNOWN	CCDS55185	16923	1191	396	150783829	150820722	1	CENTG3	None
7	AGAP3	ENSG00000133612	ENST00000479901	protein_coding	NOVEL	None	16923	1032	343	150783829	150820723	1	CENTG3	None
7	AGAP3	ENSG00000133612	ENST00000397238	protein_coding	KNOWN	CCDS43681	16923	2736	911	150783829	150841519	1	CENTG3	None
7	AGAP3	ENSG00000133612	ENST00000469901	protein_coding	PUTATIVE	None	16923	582	193	150784154	150815365	1	CENTG3	None
7	AGAP3	ENSG00000133612	ENST00000476375	processed_transcript	KNOWN	None	16923	None	None	150786799	150815431	1	CENTG3	None
7	AGAP3	ENSG00000133612	ENST00000492234	processed_transcript	KNOWN	None	16923	None	None	150809271	150815420	1	CENTG3	None
7	AGAP3	ENSG00000133612	ENST00000335367	protein_coding	NOVEL	None	16923	1731	576	150811765	150820725	1	CENTG3	None
7	AGAP3	ENSG00000133612	ENST00000473140	retained_intron	KNOWN	None	16923	None	None	150813394	150814769	1	CENTG3	None
7	AGAP3	ENSG00000133612	ENST00000490839	retained_intron	KNOWN	None	16923	None	None	150814479	150815249	1	CENTG3	None
7	AGAP3	ENSG00000133612	ENST00000467724	nonsense_mediated_decay	KNOWN	None	16923	512	169	150814841	150819965	1	CENTG3	None
7	AGAP3	ENSG00000133612	ENST00000468796	protein_coding	PUTATIVE	None	16923	534	177	150815296	150819880	1	CENTG3	None
7	AGAP3	ENSG00000133612	ENST00000480106	processed_transcript	KNOWN	None	16923	None	None	150815355	150817230	1	CENTG3	None
7	AGAP3	ENSG00000133612	ENST00000498559	retained_intron	KNOWN	None	16923	None	None	150815381	150820963	1	CENTG3	None
7	AGAP3	ENSG00000133612	ENST00000486946	processed_transcript	KNOWN	None	16923	None	None	150816284	150817820	1	CENTG3	None
7	AGAP3	ENSG00000133612	ENST00000475145	processed_transcript	KNOWN	None	16923	None	None	150817103	150820937	1	CENTG3	None
7	AGAP3	ENSG00000133612	ENST00000463179	retained_intron	KNOWN	None	16923	None	None	150817158	150818120	1	CENTG3	None
7	AGAP3	ENSG00000133612	ENST00000485904	processed_transcript	KNOWN	None	16923	None	None	150820709	150835373	1	CENTG3	None
7	AGAP3	ENSG00000133612	ENST00000494808	retained_intron	KNOWN	None	16923	None	None	150825420	150831621	1	CENTG3	None
7	AGAP3	ENSG00000133612	ENST00000478320	processed_transcript	KNOWN	None	16923	None	None	150825664	150835203	1	CENTG3	None
7	AGAP3	ENSG00000133612	ENST00000483971	processed_transcript	KNOWN	None	16923	None	None	150825683	150828373	1	CENTG3	None
7	AGAP3	ENSG00000133612	ENST00000461065	protein_coding	PUTATIVE	None	16923	1214	403	150831512	150841523	1	CENTG3	None
7	AGAP3	ENSG00000133612	ENST00000467250	processed_transcript	KNOWN	None	16923	None	None	150831569	150833647	1	CENTG3	None
7	AGAP3	ENSG00000133612	ENST00000473633	retained_intron	KNOWN	None	16923	None	None	150836655	150841519	1	CENTG3	None
HSCHR6_MHC_COX	RNU6-1030P	ENSG00000265409	ENST00000584993	snRNA	KNOWN	None	47993	None	None	31712110	31712212	-1	None	None
16	None	ENSG00000239013	ENST00000459074	snoRNA	NOVEL	None	None	None	None	48526309	48526412	-1	None	None
HSCHR6_MHC_COX	SAPCD1-AS1	ENSG00000238017	ENST00000426731	processed_transcript	PUTATIVE	None	39824	None	None	31719469	31720748	-1	C6orf26-AS1	None
16	MOCS1P1	ENSG00000260347	ENST00000564020	processed_pseudogene	KNOWN	None	7191	None	None	48530901	48532512	1	MOCS1P2	None
10	None	ENSG00000270369	ENST00000605187	processed_pseudogene	KNOWN	None	None	None	None	47174442	47174739	-1	None	None
16	None	ENSG00000261376	ENST00000566030	lincRNA	KNOWN	None	None	None	None	80213026	80214579	1	None	None
HSCHR6_MHC_COX	None	ENSG00000264955	ENST00000580051	misc_RNA	NOVEL	None	None	None	None	31733961	31734049	-1	None	None
6	KIAA1919	ENSG00000173214	ENST00000368847	protein_coding	KNOWN	CCDS5090	21053	1557	518	111580551	111592370	1	None	MGC33953, MFSD4B
10	None	ENSG00000224919	ENST00000434533	antisense	KNOWN	None	None	None	None	47186203	47192185	1	None	None
16	None	ENSG00000260183	ENST00000568275	antisense	KNOWN	None	None	None	None	80581739	80586411	-1	None	None
8	None	ENSG00000253106	ENST00000518639	antisense	KNOWN	None	None	None	None	125500751	125503884	1	None	None
10	None	ENSG00000232624	ENST00000426922	lincRNA	KNOWN	None	None	None	None	29095876	29097148	1	None	None
15	CTDSPL2	ENSG00000137770	ENST00000260327	protein_coding	KNOWN	CCDS10110	26936	1401	466	44719432	44821236	1	None	HSPC129, FLJ10523
15	CTDSPL2	ENSG00000137770	ENST00000558791	protein_coding	KNOWN	None	26936	496	164	44719820	44783002	1	None	HSPC129, FLJ10523
15	CTDSPL2	ENSG00000137770	ENST00000560834	processed_transcript	KNOWN	None	26936	None	None	44719840	44776545	1	None	HSPC129, FLJ10523
15	CTDSPL2	ENSG00000137770	ENST00000558966	protein_coding	KNOWN	CCDS10110	26936	1401	466	44719991	44816741	1	None	HSPC129, FLJ10523
15	CTDSPL2	ENSG00000137770	ENST00000559793	protein_coding	KNOWN	None	26936	353	116	44720006	44778776	1	None	HSPC129, FLJ10523
15	CTDSPL2	ENSG00000137770	ENST00000558968	protein_coding	KNOWN	None	26936	277	91	44720012	44776512	1	None	HSPC129, FLJ10523
15	CTDSPL2	ENSG00000137770	ENST00000558373	protein_coding	KNOWN	None	26936	1185	394	44751201	44819430	1	None	HSPC129, FLJ10523
15	CTDSPL2	ENSG00000137770	ENST00000561189	processed_transcript	KNOWN	None	26936	None	None	44783190	44796077	1	None	HSPC129, FLJ10523
15	CTDSPL2	ENSG00000137770	ENST00000560620	nonsense_mediated_decay	KNOWN	None	26936	259	85	44789225	44813604	1	None	HSPC129, FLJ10523
15	CTDSPL2	ENSG00000137770	ENST00000559738	processed_transcript	PUTATIVE	None	26936	None	None	44811422	44816634	1	None	HSPC129, FLJ10523
15	CTDSPL2	ENSG00000137770	ENST00000559175	retained_intron	KNOWN	None	26936	None	None	44811835	44818145	1	None	HSPC129, FLJ10523
15	CTDSPL2	ENSG00000137770	ENST00000396780	protein_coding	KNOWN	None	26936	1185	394	44719579	44819430	1	None	HSPC129, FLJ10523
14	None	ENSG00000267901	ENST00000594636	protein_coding	NOVEL	None	None	432	143	71683031	71683462	-1	None	None
12	MIR3652	ENSG00000265072	ENST00000579335	miRNA	KNOWN	None	38894	None	None	104324203	104324333	1	None	hsa-mir-3652
8	None	ENSG00000272486	ENST00000606244	antisense	KNOWN	None	None	None	None	125591872	125592889	1	None	None
20	SGK2	ENSG00000101049	ENST00000373100	protein_coding	KNOWN	CCDS13321	13900	1104	367	42187608	42214317	1	None	None
20	SGK2	ENSG00000101049	ENST00000373092	protein_coding	KNOWN	CCDS13321	13900	1104	367	42187682	42214317	1	None	None
20	SGK2	ENSG00000101049	ENST00000496343	nonsense_mediated_decay	KNOWN	None	13900	858	285	42187682	42216877	1	None	None
20	SGK2	ENSG00000101049	ENST00000373077	protein_coding	KNOWN	None	13900	1101	366	42187694	42214317	1	None	None
20	SGK2	ENSG00000101049	ENST00000412111	protein_coding	KNOWN	None	13900	594	197	42193868	42200777	1	None	None
20	SGK2	ENSG00000101049	ENST00000341458	protein_coding	KNOWN	CCDS13320	13900	1284	427	42194737	42214317	1	None	None
20	SGK2	ENSG00000101049	ENST00000485914	processed_transcript	KNOWN	None	13900	None	None	42198109	42199636	1	None	None
20	SGK2	ENSG00000101049	ENST00000426287	protein_coding	KNOWN	None	13900	1182	393	42194956	42214272	1	None	None
20	SGK2	ENSG00000101049	ENST00000423407	protein_coding	KNOWN	CCDS13321	13900	1104	367	42193875	42214236	1	None	None
10	None	ENSG00000254929	ENST00000605970	processed_transcript	KNOWN	None	None	None	None	47207805	47243471	-1	None	None
10	None	ENSG00000254929	ENST00000431840	processed_transcript	KNOWN	None	None	None	None	47213346	47243502	-1	None	None
8	None	ENSG00000255491	ENST00000533516	lincRNA	KNOWN	None	None	None	None	125823860	125827924	-1	None	None
4	ENAM	ENSG00000132464	ENST00000396073	protein_coding	KNOWN	CCDS3544	3344	3429	1142	71494461	71512541	1	AIH2	None
4	ENAM	ENSG00000132464	ENST00000472597	retained_intron	KNOWN	None	3344	None	None	71503379	71508106	1	AIH2	None
4	ENAM	ENSG00000132464	ENST00000472903	processed_transcript	KNOWN	None	3344	None	None	71503462	71552533	1	AIH2	None
4	ENAM	ENSG00000132464	ENST00000509221	processed_transcript	KNOWN	None	3344	None	None	71520331	71529251	1	AIH2	None
19	None	ENSG00000267623	ENST00000590507	unprocessed_pseudogene	KNOWN	None	None	None	None	28427669	28475651	1	None	None
15	DNM1P51	ENSG00000259297	ENST00000558149	transcribed_unprocessed_pseudogene	KNOWN	None	48500	None	None	84953688	84956429	-1	None	None
4	FGFBP2	ENSG00000137441	ENST00000259989	protein_coding	KNOWN	CCDS3419	29451	672	223	15961866	15964859	-1	None	KSP37
4	FGFBP2	ENSG00000137441	ENST00000509331	processed_transcript	KNOWN	None	29451	None	None	15961871	15970932	-1	None	KSP37
15	NIPA2	ENSG00000140157	ENST00000337451	protein_coding	KNOWN	CCDS10010	17044	1083	360	23004684	23034408	-1	None	None
15	NIPA2	ENSG00000140157	ENST00000398013	protein_coding	KNOWN	CCDS10010	17044	1083	360	23005352	23034381	-1	None	None
15	NIPA2	ENSG00000140157	ENST00000539711	protein_coding	KNOWN	CCDS32174	17044	1026	341	23006152	23034370	-1	None	None
15	NIPA2	ENSG00000140157	ENST00000359727	protein_coding	KNOWN	CCDS32174	17044	1026	341	23006221	23034410	-1	None	None
15	NIPA2	ENSG00000140157	ENST00000560039	protein_coding	KNOWN	None	17044	177	58	23019819	23034378	-1	None	None
15	NIPA2	ENSG00000140157	ENST00000561072	processed_transcript	KNOWN	None	17044	None	None	23021342	23034379	-1	None	None
15	NIPA2	ENSG00000140157	ENST00000559571	processed_transcript	KNOWN	None	17044	None	None	23021392	23034392	-1	None	None
15	NIPA2	ENSG00000140157	ENST00000560205	processed_transcript	KNOWN	None	17044	None	None	23021403	23034424	-1	None	None
15	NIPA2	ENSG00000140157	ENST00000560762	processed_transcript	KNOWN	None	17044	None	None	23021407	23034408	-1	None	None
15	NIPA2	ENSG00000140157	ENST00000398014	protein_coding	KNOWN	CCDS10010	17044	1083	360	23004684	23034427	-1	None	None
11	RNA5SP352	ENSG00000200278	ENST00000363408	rRNA	KNOWN	None	43252	None	None	124506355	124506488	1	RN5S352	None
8	MIR4662B	ENSG00000263735	ENST00000579498	miRNA	KNOWN	None	41607	None	None	125834220	125834300	-1	None	hsa-mir-4662b
8	MIR4662A	ENSG00000263735	ENST00000579498	miRNA	KNOWN	None	41826	None	None	125834220	125834300	-1	None	hsa-mir-4662a
11	SLC22A11	ENSG00000168065	ENST00000301891	protein_coding	KNOWN	CCDS8074	18120	1653	550	64323098	64340347	1	None	OAT4
11	SLC22A11	ENSG00000168065	ENST00000377585	protein_coding	NOVEL	None	18120	1329	442	64323162	64338999	1	None	OAT4
11	SLC22A11	ENSG00000168065	ENST00000377581	protein_coding	NOVEL	None	18120	1446	481	64323428	64338999	1	None	OAT4
11	SLC22A11	ENSG00000168065	ENST00000490834	processed_transcript	KNOWN	None	18120	None	None	64323439	64332837	1	None	OAT4
11	SLC22A11	ENSG00000168065	ENST00000478051	retained_intron	KNOWN	None	18120	None	None	64323439	64333755	1	None	OAT4
11	SLC22A11	ENSG00000168065	ENST00000460745	retained_intron	KNOWN	None	18120	None	None	64329554	64334171	1	None	OAT4
11	SLC22A11	ENSG00000168065	ENST00000428570	nonsense_mediated_decay	KNOWN	None	18120	220	72	64335071	64338999	1	None	OAT4
11	SLC22A11	ENSG00000168065	ENST00000416590	protein_coding	NOVEL	None	18120	462	153	64335072	64338999	1	None	OAT4
8	None	ENSG00000255080	ENST00000533496	lincRNA	KNOWN	None	None	None	None	125847126	125869758	-1	None	None
21	COL6A1	ENSG00000142156	ENST00000361866	protein_coding	KNOWN	CCDS13727	2211	3087	1028	47401651	47424964	1	None	None
21	COL6A1	ENSG00000142156	ENST00000492851	retained_intron	KNOWN	None	2211	None	None	47407023	47407547	1	None	None
21	COL6A1	ENSG00000142156	ENST00000466285	retained_intron	KNOWN	None	2211	None	None	47419314	47420842	1	None	None
21	COL6A1	ENSG00000142156	ENST00000463060	processed_transcript	KNOWN	None	2211	None	None	47420845	47423063	1	None	None
21	COL6A1	ENSG00000142156	ENST00000498614	processed_transcript	KNOWN	None	2211	None	None	47421111	47424964	1	None	None
21	COL6A1	ENSG00000142156	ENST00000486023	processed_transcript	KNOWN	None	2211	None	None	47422403	47424020	1	None	None
11	CNIH2	ENSG00000174871	ENST00000528852	protein_coding	PUTATIVE	None	28744	459	152	66045661	66051664	1	None	MGC50896, Cnil, CNIH-2
11	CNIH2	ENSG00000174871	ENST00000311445	protein_coding	KNOWN	CCDS8131	28744	483	160	66045670	66051683	1	None	MGC50896, Cnil, CNIH-2
11	CNIH2	ENSG00000174871	ENST00000534826	nonsense_mediated_decay	KNOWN	None	28744	120	39	66045707	66050242	1	None	MGC50896, Cnil, CNIH-2
11	CNIH2	ENSG00000174871	ENST00000528063	nonsense_mediated_decay	KNOWN	None	28744	189	62	66045813	66051586	1	None	MGC50896, Cnil, CNIH-2
11	CNIH2	ENSG00000174871	ENST00000530519	processed_transcript	KNOWN	None	28744	None	None	66045933	66052772	1	None	MGC50896, Cnil, CNIH-2
11	CNIH2	ENSG00000174871	ENST00000531936	retained_intron	KNOWN	None	28744	None	None	66050065	66051221	1	None	MGC50896, Cnil, CNIH-2
15	None	ENSG00000259538	ENST00000559691	unprocessed_pseudogene	KNOWN	None	None	None	None	84967471	84976535	-1	None	None
11	None	ENSG00000255045	ENST00000531241	antisense	KNOWN	None	None	None	None	124614530	124616233	-1	None	None
19	FAM71E2	ENSG00000180043	ENST00000585734	nonsense_mediated_decay	KNOWN	None	25278	192	63	55866276	55874620	-1	C19orf16	DKFZp434G1729
19	FAM71E2	ENSG00000180043	ENST00000424985	protein_coding	NOVEL	None	25278	2769	922	55866276	55874628	-1	C19orf16	DKFZp434G1729
3	CCR1	ENSG00000163823	ENST00000296140	protein_coding	KNOWN	CCDS2737	1602	1068	355	46243200	46249887	-1	SCYAR1, CMKBR1	CKR-1, MIP1aR, CD191
20	CHMP4B	ENSG00000101421	ENST00000217402	protein_coding	KNOWN	CCDS13228	16171	675	224	32399110	32442172	1	C20orf178	dJ553F4.4, Shax1, SNF7-2, VPS32B
11	SYT12	ENSG00000173227	ENST00000393946	protein_coding	KNOWN	CCDS8154	18381	1266	421	66774249	66818334	1	None	SRG1
11	SYT12	ENSG00000173227	ENST00000525457	protein_coding	KNOWN	CCDS8154	18381	1266	421	66790190	66816410	1	None	SRG1
11	SYT12	ENSG00000173227	ENST00000527043	protein_coding	KNOWN	CCDS8154	18381	1266	421	66790816	66816484	1	None	SRG1
11	SYT12	ENSG00000173227	ENST00000526281	processed_transcript	PUTATIVE	None	18381	None	None	66790857	66807676	1	None	SRG1
11	SYT12	ENSG00000173227	ENST00000531392	retained_intron	KNOWN	None	18381	None	None	66794093	66800376	1	None	SRG1
11	SYT12	ENSG00000173227	ENST00000533427	protein_coding	PUTATIVE	None	18381	294	97	66795031	66807347	1	None	SRG1
11	SYT12	ENSG00000173227	ENST00000525149	processed_transcript	KNOWN	None	18381	None	None	66797571	66807402	1	None	SRG1
X	None	ENSG00000196987	ENST00000452593	protein_coding	PUTATIVE	None	None	998	331	153146127	153154444	1	None	None
X	None	ENSG00000196987	ENST00000357566	protein_coding	KNOWN	None	None	492	163	153146127	153154425	1	None	None
12	None	ENSG00000215976	ENST00000401157	miRNA	NOVEL	None	None	None	None	104378889	104378982	1	None	None
19	None	ENSG00000266906	ENST00000588399	processed_pseudogene	KNOWN	None	None	None	None	28473940	28474240	-1	None	None
10	RNA5SP312	ENSG00000252877	ENST00000517068	rRNA	KNOWN	None	43212	None	None	47222341	47222456	1	RN5S312	None
13	GGACT	ENSG00000134864	ENST00000376250	protein_coding	KNOWN	CCDS45066	25100	462	153	101183810	101236251	-1	A2LD1	None
13	GGACT	ENSG00000134864	ENST00000467518	protein_coding	KNOWN	None	25100	97	31	101184749	101185923	-1	A2LD1	None
13	GGACT	ENSG00000134864	ENST00000492399	protein_coding	KNOWN	None	25100	97	31	101184749	101241782	-1	A2LD1	None
13	GGACT	ENSG00000134864	ENST00000464500	protein_coding	KNOWN	None	25100	78	25	101184768	101185907	-1	A2LD1	None
13	GGACT	ENSG00000134864	ENST00000471912	protein_coding	KNOWN	None	25100	78	25	101184768	101240985	-1	A2LD1	None
13	GGACT	ENSG00000134864	ENST00000455100	protein_coding	KNOWN	CCDS45066	25100	462	153	101183811	101185997	-1	A2LD1	None
19	None	ENSG00000267509	ENST00000586671	lincRNA	KNOWN	None	None	None	None	28556174	28616301	1	None	None
19	None	ENSG00000267509	ENST00000590229	lincRNA	KNOWN	None	None	None	None	28556174	28616337	1	None	None
10	BMS1P2	ENSG00000251079	ENST00000532854	processed_transcript	KNOWN	None	23650	None	None	47228366	47241942	-1	BMS1LP2	bA144G6.1, OTTHUMG00000018113
10	BMS1P2	ENSG00000251079	ENST00000450360	transcribed_unprocessed_pseudogene	KNOWN	None	23650	None	None	47230066	47241907	-1	BMS1LP2	bA144G6.1, OTTHUMG00000018113
12	None	ENSG00000216285	ENST00000547454	processed_pseudogene	KNOWN	None	None	None	None	104424557	104425321	1	None	None
12	None	ENSG00000216285	ENST00000403137	pseudogene	KNOWN	None	None	None	None	104424771	104425321	1	None	None
19	None	ENSG00000266928	ENST00000587777	lincRNA	KNOWN	None	None	None	None	28785000	28804407	-1	None	None
2	MKI67IP	ENSG00000155438	ENST00000285814	protein_coding	KNOWN	CCDS2135	17838	882	293	122484521	122494499	-1	None	Nopp34, NIFK
2	MKI67IP	ENSG00000155438	ENST00000423105	protein_coding	PUTATIVE	None	17838	309	102	122484923	122488519	-1	None	Nopp34, NIFK
2	MKI67IP	ENSG00000155438	ENST00000481978	retained_intron	KNOWN	None	17838	None	None	122485252	122488765	-1	None	Nopp34, NIFK
2	MKI67IP	ENSG00000155438	ENST00000498570	retained_intron	KNOWN	None	17838	None	None	122485307	122486175	-1	None	Nopp34, NIFK
2	MKI67IP	ENSG00000155438	ENST00000447132	protein_coding	PUTATIVE	None	17838	494	163	122485373	122493381	-1	None	Nopp34, NIFK
2	MKI67IP	ENSG00000155438	ENST00000451734	protein_coding	NOVEL	None	17838	498	165	122486083	122494487	-1	None	Nopp34, NIFK
2	MKI67IP	ENSG00000155438	ENST00000477693	retained_intron	KNOWN	None	17838	None	None	122487959	122494448	-1	None	Nopp34, NIFK
9	ABHD17B	ENSG00000107362	ENST00000377041	protein_coding	KNOWN	CCDS35042	24278	882	293	74477368	74525847	-1	C9orf77, FAM108B1	CGI-67
9	ABHD17B	ENSG00000107362	ENST00000333421	protein_coding	KNOWN	CCDS35043	24278	867	288	74480068	74525658	-1	C9orf77, FAM108B1	CGI-67
19	None	ENSG00000267320	ENST00000592311	lincRNA	KNOWN	None	None	None	None	28807612	28877085	-1	None	None
19	None	ENSG00000267320	ENST00000587140	lincRNA	KNOWN	None	None	None	None	28823704	28877111	-1	None	None
19	None	ENSG00000267320	ENST00000591926	lincRNA	KNOWN	None	None	None	None	28862682	28877078	-1	None	None
9	PALM2	ENSG00000243444	ENST00000374531	protein_coding	KNOWN	CCDS35099	15845	1140	379	112403068	112708983	1	None	None
9	PALM2	ENSG00000243444	ENST00000483909	protein_coding	NOVEL	None	15845	1134	377	112542683	112705903	1	None	None
9	PALM2	ENSG00000243444	ENST00000314527	protein_coding	KNOWN	CCDS48002	15845	1236	411	112542719	112705751	1	None	None
9	PALM2	ENSG00000243444	ENST00000497711	protein_coding	PUTATIVE	None	15845	542	179	112629311	112705053	1	None	None
9	PALM2	ENSG00000243444	ENST00000465091	retained_intron	KNOWN	None	15845	None	None	112629551	112686129	1	None	None
9	PALM2	ENSG00000243444	ENST00000448454	protein_coding	KNOWN	None	15845	1242	413	112403142	112713755	1	None	None
7	None	ENSG00000200857	ENST00000363987	misc_RNA	NOVEL	None	None	None	None	68972496	68972608	-1	None	None
5	None	ENSG00000200334	ENST00000363464	misc_RNA	NOVEL	None	None	None	None	149319593	149319694	-1	None	None
19	None	ENSG00000267238	ENST00000590280	lincRNA	KNOWN	None	None	None	None	28885758	28887335	-1	None	None
7	RN7SL371P	ENSG00000266210	ENST00000578099	misc_RNA	KNOWN	None	46387	None	None	69001035	69001303	-1	None	None
2	GPR35	ENSG00000178623	ENST00000319838	protein_coding	KNOWN	CCDS2541	4492	930	309	241544848	241570676	1	None	None
2	GPR35	ENSG00000178623	ENST00000403859	protein_coding	KNOWN	CCDS2541	4492	930	309	241544862	241570587	1	None	None
2	GPR35	ENSG00000178623	ENST00000407714	protein_coding	KNOWN	CCDS2541	4492	930	309	241564662	241570299	1	None	None
2	GPR35	ENSG00000178623	ENST00000438013	protein_coding	KNOWN	CCDS56174	4492	1023	340	241544862	241570587	1	None	None
2	GPR35	ENSG00000178623	ENST00000430267	protein_coding	KNOWN	CCDS2541	4492	930	309	241568795	241570669	1	None	None
5	None	ENSG00000248696	ENST00000512440	processed_pseudogene	KNOWN	None	None	None	None	149394348	149394717	-1	None	None
19	None	ENSG00000260725	ENST00000567877	lincRNA	KNOWN	None	None	None	None	28909390	28920397	-1	None	None
7	None	ENSG00000234215	ENST00000436600	lincRNA	KNOWN	None	None	None	None	69060944	69062434	-1	None	None
5	None	ENSG00000241907	ENST00000461659	processed_pseudogene	KNOWN	None	None	None	None	149401130	149401484	-1	None	None
11	GRIA4	ENSG00000152578	ENST00000527177	protein_coding	KNOWN	None	4574	247	81	105480721	105483161	1	GLUR4	GluA4, GLURD
11	GRIA4	ENSG00000152578	ENST00000393125	protein_coding	KNOWN	CCDS41707	4574	1302	433	105480756	105783836	1	GLUR4	GluA4, GLURD
11	GRIA4	ENSG00000152578	ENST00000531986	protein_coding	NOVEL	None	4574	252	83	105480789	105483166	1	GLUR4	GluA4, GLURD
11	GRIA4	ENSG00000152578	ENST00000527669	protein_coding	PUTATIVE	None	4574	255	84	105480848	105485163	1	GLUR4	GluA4, GLURD
11	GRIA4	ENSG00000152578	ENST00000525921	protein_coding	KNOWN	None	4574	247	81	105480993	105483161	1	GLUR4	GluA4, GLURD
11	GRIA4	ENSG00000152578	ENST00000525032	retained_intron	KNOWN	None	4574	None	None	105481399	105733375	1	GLUR4	GluA4, GLURD
11	GRIA4	ENSG00000152578	ENST00000428631	protein_coding	KNOWN	CCDS41707	4574	1302	433	105481451	105783836	1	GLUR4	GluA4, GLURD
11	GRIA4	ENSG00000152578	ENST00000531011	protein_coding	NOVEL	None	4574	675	224	105481634	105668639	1	GLUR4	GluA4, GLURD
11	GRIA4	ENSG00000152578	ENST00000525187	protein_coding	KNOWN	CCDS41706	4574	2655	884	105481725	105850466	1	GLUR4	GluA4, GLURD
11	GRIA4	ENSG00000152578	ENST00000530497	protein_coding	KNOWN	CCDS8333	4574	2709	902	105481725	105852816	1	GLUR4	GluA4, GLURD
11	GRIA4	ENSG00000152578	ENST00000527687	processed_transcript	PUTATIVE	None	4574	None	None	105713509	105774709	1	GLUR4	GluA4, GLURD
11	GRIA4	ENSG00000152578	ENST00000525942	nonsense_mediated_decay	KNOWN	None	4574	313	103	105804534	105845157	1	GLUR4	GluA4, GLURD
11	GRIA4	ENSG00000152578	ENST00000533094	processed_transcript	PUTATIVE	None	4574	None	None	105804668	105850988	1	GLUR4	GluA4, GLURD
11	GRIA4	ENSG00000152578	ENST00000282499	protein_coding	KNOWN	CCDS8333	4574	2709	902	105480800	105852819	1	GLUR4	GluA4, GLURD
11	GRIA4	ENSG00000152578	ENST00000393127	protein_coding	KNOWN	CCDS41706	4574	2655	884	105480800	105852819	1	GLUR4	GluA4, GLURD
17	GGA3	ENSG00000125447	ENST00000351904	protein_coding	KNOWN	CCDS11716	17079	2073	690	73232694	73257681	-1	None	KIAA0154
17	GGA3	ENSG00000125447	ENST00000537584	nonsense_mediated_decay	KNOWN	None	17079	210	69	73232694	73257681	-1	None	KIAA0154
17	GGA3	ENSG00000125447	ENST00000584978	nonsense_mediated_decay	KNOWN	None	17079	462	153	73232694	73257702	-1	None	KIAA0154
17	GGA3	ENSG00000125447	ENST00000245541	protein_coding	KNOWN	CCDS11717	17079	2172	723	73232694	73257885	-1	None	KIAA0154
17	GGA3	ENSG00000125447	ENST00000578275	retained_intron	KNOWN	None	17079	None	None	73232695	73236531	-1	None	KIAA0154
17	GGA3	ENSG00000125447	ENST00000582200	retained_intron	KNOWN	None	17079	None	None	73232697	73257704	-1	None	KIAA0154
17	GGA3	ENSG00000125447	ENST00000578348	protein_coding	PUTATIVE	CCDS58597	17079	1779	592	73233379	73258442	-1	None	KIAA0154
17	GGA3	ENSG00000125447	ENST00000582486	protein_coding	PUTATIVE	None	17079	1899	632	73233522	73258442	-1	None	KIAA0154
17	GGA3	ENSG00000125447	ENST00000580646	nonsense_mediated_decay	KNOWN	None	17079	475	157	73233617	73235619	-1	None	KIAA0154
17	GGA3	ENSG00000125447	ENST00000583282	protein_coding	PUTATIVE	None	17079	333	110	73233621	73235162	-1	None	KIAA0154
17	GGA3	ENSG00000125447	ENST00000584550	nonsense_mediated_decay	KNOWN	None	17079	194	63	73234260	73235626	-1	None	KIAA0154
17	GGA3	ENSG00000125447	ENST00000582717	protein_coding	KNOWN	CCDS54164	17079	1956	651	73234319	73258444	-1	None	KIAA0154
17	GGA3	ENSG00000125447	ENST00000578773	nonsense_mediated_decay	KNOWN	None	17079	230	75	73234327	73235632	-1	None	KIAA0154
17	GGA3	ENSG00000125447	ENST00000578208	protein_coding	PUTATIVE	None	17079	324	107	73234438	73235066	-1	None	KIAA0154
17	GGA3	ENSG00000125447	ENST00000583667	retained_intron	KNOWN	None	17079	None	None	73235046	73236518	-1	None	KIAA0154
17	GGA3	ENSG00000125447	ENST00000582232	retained_intron	KNOWN	None	17079	None	None	73236875	73237814	-1	None	KIAA0154
17	GGA3	ENSG00000125447	ENST00000578896	retained_intron	KNOWN	None	17079	None	None	73237030	73238449	-1	None	KIAA0154
17	GGA3	ENSG00000125447	ENST00000580799	protein_coding	PUTATIVE	None	17079	409	135	73237750	73257674	-1	None	KIAA0154
17	GGA3	ENSG00000125447	ENST00000582821	retained_intron	KNOWN	None	17079	None	None	73237946	73257671	-1	None	KIAA0154
17	GGA3	ENSG00000125447	ENST00000584243	nonsense_mediated_decay	KNOWN	None	17079	457	151	73238965	73257666	-1	None	KIAA0154
17	GGA3	ENSG00000125447	ENST00000577435	nonsense_mediated_decay	KNOWN	None	17079	210	69	73238970	73257698	-1	None	KIAA0154
17	GGA3	ENSG00000125447	ENST00000582376	nonsense_mediated_decay	KNOWN	None	17079	321	106	73239216	73257674	-1	None	KIAA0154
17	GGA3	ENSG00000125447	ENST00000579743	processed_transcript	KNOWN	None	17079	None	None	73239598	73258439	-1	None	KIAA0154
17	GGA3	ENSG00000125447	ENST00000538886	protein_coding	KNOWN	None	17079	1806	601	73234311	73257674	-1	None	KIAA0154
17	GGA3	ENSG00000125447	ENST00000537686	protein_coding	KNOWN	None	17079	462	153	73237032	73257695	-1	None	KIAA0154
5	None	ENSG00000238369	ENST00000458810	snoRNA	NOVEL	None	None	None	None	149408912	149409015	-1	None	None
7	MAD1L1	ENSG00000002822	ENST00000481633	processed_transcript	KNOWN	None	6762	None	None	1855429	1912392	-1	None	HsMAD1, TXBP181, MAD1, PIG9, TP53I9
7	MAD1L1	ENSG00000002822	ENST00000402746	protein_coding	NOVEL	None	6762	1881	626	1855430	2272580	-1	None	HsMAD1, TXBP181, MAD1, PIG9, TP53I9
7	MAD1L1	ENSG00000002822	ENST00000399654	protein_coding	KNOWN	CCDS43539	6762	2157	718	1855430	2272609	-1	None	HsMAD1, TXBP181, MAD1, PIG9, TP53I9
7	MAD1L1	ENSG00000002822	ENST00000406869	protein_coding	KNOWN	CCDS43539	6762	2157	718	1855430	2272878	-1	None	HsMAD1, TXBP181, MAD1, PIG9, TP53I9
7	MAD1L1	ENSG00000002822	ENST00000468372	processed_transcript	KNOWN	None	6762	None	None	1855431	1856721	-1	None	HsMAD1, TXBP181, MAD1, PIG9, TP53I9
7	MAD1L1	ENSG00000002822	ENST00000496548	processed_transcript	KNOWN	None	6762	None	None	1855431	1869300	-1	None	HsMAD1, TXBP181, MAD1, PIG9, TP53I9
7	MAD1L1	ENSG00000002822	ENST00000477172	processed_transcript	KNOWN	None	6762	None	None	1855452	1857135	-1	None	HsMAD1, TXBP181, MAD1, PIG9, TP53I9
7	MAD1L1	ENSG00000002822	ENST00000450235	protein_coding	PUTATIVE	None	6762	798	265	1855718	2020426	-1	None	HsMAD1, TXBP181, MAD1, PIG9, TP53I9
7	MAD1L1	ENSG00000002822	ENST00000437877	protein_coding	PUTATIVE	None	6762	366	121	1937836	1980185	-1	None	HsMAD1, TXBP181, MAD1, PIG9, TP53I9
7	MAD1L1	ENSG00000002822	ENST00000438959	protein_coding	PUTATIVE	None	6762	597	198	1997264	2119648	-1	None	HsMAD1, TXBP181, MAD1, PIG9, TP53I9
7	MAD1L1	ENSG00000002822	ENST00000444373	protein_coding	PUTATIVE	None	6762	242	79	2020121	2149236	-1	None	HsMAD1, TXBP181, MAD1, PIG9, TP53I9
7	MAD1L1	ENSG00000002822	ENST00000421113	protein_coding	PUTATIVE	None	6762	125	40	2054141	2147343	-1	None	HsMAD1, TXBP181, MAD1, PIG9, TP53I9
7	MAD1L1	ENSG00000002822	ENST00000483165	processed_transcript	KNOWN	None	6762	None	None	2108829	2128886	-1	None	HsMAD1, TXBP181, MAD1, PIG9, TP53I9
7	MAD1L1	ENSG00000002822	ENST00000491858	processed_transcript	KNOWN	None	6762	None	None	2108829	2215020	-1	None	HsMAD1, TXBP181, MAD1, PIG9, TP53I9
7	MAD1L1	ENSG00000002822	ENST00000464742	processed_transcript	KNOWN	None	6762	None	None	2108829	2233110	-1	None	HsMAD1, TXBP181, MAD1, PIG9, TP53I9
7	MAD1L1	ENSG00000002822	ENST00000459731	processed_transcript	KNOWN	None	6762	None	None	2188009	2252869	-1	None	HsMAD1, TXBP181, MAD1, PIG9, TP53I9
7	MAD1L1	ENSG00000002822	ENST00000486340	processed_transcript	KNOWN	None	6762	None	None	2239900	2255562	-1	None	HsMAD1, TXBP181, MAD1, PIG9, TP53I9
7	MAD1L1	ENSG00000002822	ENST00000469871	processed_transcript	KNOWN	None	6762	None	None	2249583	2257678	-1	None	HsMAD1, TXBP181, MAD1, PIG9, TP53I9
7	MAD1L1	ENSG00000002822	ENST00000445959	protein_coding	PUTATIVE	None	6762	617	204	2252847	2263263	-1	None	HsMAD1, TXBP181, MAD1, PIG9, TP53I9
7	MAD1L1	ENSG00000002822	ENST00000429625	protein_coding	PUTATIVE	None	6762	639	212	2255592	2265233	-1	None	HsMAD1, TXBP181, MAD1, PIG9, TP53I9
7	MAD1L1	ENSG00000002822	ENST00000455998	protein_coding	PUTATIVE	None	6762	434	143	2258988	2270296	-1	None	HsMAD1, TXBP181, MAD1, PIG9, TP53I9
7	MAD1L1	ENSG00000002822	ENST00000429779	protein_coding	KNOWN	None	6762	471	156	2262210	2272580	-1	None	HsMAD1, TXBP181, MAD1, PIG9, TP53I9
7	MAD1L1	ENSG00000002822	ENST00000265854	protein_coding	KNOWN	CCDS43539	6762	2157	718	1855447	2272580	-1	None	HsMAD1, TXBP181, MAD1, PIG9, TP53I9
6	EFHC1	ENSG00000096093	ENST00000480623	nonsense_mediated_decay	KNOWN	None	16406	837	278	52285106	52357298	1	None	None
6	EFHC1	ENSG00000096093	ENST00000371068	protein_coding	KNOWN	CCDS4942	16406	1923	640	52285106	52360583	1	None	None
6	EFHC1	ENSG00000096093	ENST00000491749	processed_transcript	KNOWN	None	16406	None	None	52285160	52303354	1	None	None
6	EFHC1	ENSG00000096093	ENST00000481466	processed_transcript	KNOWN	None	16406	None	None	52353355	52357344	1	None	None
6	EFHC1	ENSG00000096093	ENST00000538167	protein_coding	KNOWN	CCDS55021	16406	1866	621	52288470	52360581	1	None	None
6	EFHC1	ENSG00000096093	ENST00000433625	protein_coding	KNOWN	None	16406	1653	550	52285165	52387892	1	None	None
12	PPHLN1	ENSG00000134283	ENST00000549190	protein_coding	PUTATIVE	None	19369	1158	385	42632249	42835749	1	None	None
12	PPHLN1	ENSG00000134283	ENST00000395580	protein_coding	KNOWN	CCDS41773	19369	1125	374	42719947	42835752	1	None	None
12	PPHLN1	ENSG00000134283	ENST00000337898	protein_coding	PUTATIVE	None	19369	1023	340	42719947	42839248	1	None	None
12	PPHLN1	ENSG00000134283	ENST00000358314	protein_coding	KNOWN	CCDS8741	19369	1104	367	42719959	42835757	1	None	None
12	PPHLN1	ENSG00000134283	ENST00000549774	retained_intron	KNOWN	None	19369	None	None	42719960	42749480	1	None	None
12	PPHLN1	ENSG00000134283	ENST00000551723	nonsense_mediated_decay	KNOWN	None	19369	159	52	42719965	42787442	1	None	None
12	PPHLN1	ENSG00000134283	ENST00000552429	nonsense_mediated_decay	KNOWN	None	19369	324	107	42719967	42768744	1	None	None
12	PPHLN1	ENSG00000134283	ENST00000395568	protein_coding	KNOWN	CCDS31777	19369	1377	458	42719968	42841129	1	None	None
12	PPHLN1	ENSG00000134283	ENST00000256678	protein_coding	PUTATIVE	None	19369	1092	363	42719969	42840967	1	None	None
12	PPHLN1	ENSG00000134283	ENST00000449194	protein_coding	KNOWN	CCDS44861	19369	1047	348	42719970	42835763	1	None	None
12	PPHLN1	ENSG00000134283	ENST00000552761	protein_coding	KNOWN	CCDS55817	19369	960	319	42719973	42835345	1	None	None
12	PPHLN1	ENSG00000134283	ENST00000551406	retained_intron	KNOWN	None	19369	None	None	42719974	42769100	1	None	None
12	PPHLN1	ENSG00000134283	ENST00000317560	protein_coding	PUTATIVE	None	19369	912	303	42719976	42853517	1	None	None
12	PPHLN1	ENSG00000134283	ENST00000552202	retained_intron	KNOWN	None	19369	None	None	42719980	42793227	1	None	None
12	PPHLN1	ENSG00000134283	ENST00000432191	protein_coding	KNOWN	CCDS44860	19369	1305	434	42719980	42842420	1	None	None
12	PPHLN1	ENSG00000134283	ENST00000550535	processed_transcript	KNOWN	None	19369	None	None	42719983	42753460	1	None	None
12	PPHLN1	ENSG00000134283	ENST00000546750	protein_coding	KNOWN	None	19369	484	160	42725589	42768828	1	None	None
12	PPHLN1	ENSG00000134283	ENST00000547847	protein_coding	KNOWN	None	19369	505	167	42725600	42768870	1	None	None
12	PPHLN1	ENSG00000134283	ENST00000551658	protein_coding	PUTATIVE	None	19369	111	36	42737606	42745761	1	None	None
12	PPHLN1	ENSG00000134283	ENST00000552794	processed_transcript	KNOWN	None	19369	None	None	42744005	42781324	1	None	None
12	PPHLN1	ENSG00000134283	ENST00000547696	retained_intron	KNOWN	None	19369	None	None	42780775	42787488	1	None	None
12	PPHLN1	ENSG00000134283	ENST00000547440	retained_intron	KNOWN	None	19369	None	None	42781192	42794287	1	None	None
3	IQCF2	ENSG00000184345	ENST00000429548	processed_transcript	KNOWN	None	31815	None	None	51895645	51897439	1	None	None
3	IQCF2	ENSG00000184345	ENST00000333127	protein_coding	KNOWN	CCDS2835	31815	495	164	51895654	51897440	1	None	None
5	None	ENSG00000214485	ENST00000468161	processed_pseudogene	KNOWN	None	None	None	None	149473865	149474611	1	None	None
5	None	ENSG00000214485	ENST00000398410	processed_pseudogene	KNOWN	None	None	None	None	149473860	149474619	1	None	None
4	None	ENSG00000251223	ENST00000505577	unprocessed_pseudogene	KNOWN	None	None	None	None	156380856	156382389	-1	None	None
7	None	ENSG00000236978	ENST00000433950	processed_pseudogene	KNOWN	None	None	None	None	70302724	70302999	1	None	None
20	PROKR2	ENSG00000101292	ENST00000217270	protein_coding	KNOWN	CCDS13089	15836	1155	384	5282686	5295015	-1	GPR73L1, KAL3	GPR73b, PKR2, GPRg2, dJ680N4.3
20	PROKR2	ENSG00000101292	ENST00000546004	protein_coding	KNOWN	CCDS13089	15836	1155	384	5282317	5297378	-1	GPR73L1, KAL3	GPR73b, PKR2, GPRg2, dJ680N4.3
4	MTND2P33	ENSG00000248907	ENST00000506452	unprocessed_pseudogene	KNOWN	None	42134	None	None	156382785	156383815	-1	None	None
19	None	ENSG00000267243	ENST00000592347	processed_transcript	KNOWN	None	None	None	None	28926295	29218587	-1	None	None
19	None	ENSG00000267243	ENST00000593065	processed_transcript	KNOWN	None	None	None	None	28927967	29026184	-1	None	None
19	None	ENSG00000267243	ENST00000592716	processed_transcript	KNOWN	None	None	None	None	28928548	28959291	-1	None	None
19	None	ENSG00000267243	ENST00000591920	processed_transcript	KNOWN	None	None	None	None	28947918	28957600	-1	None	None
19	None	ENSG00000267243	ENST00000585697	processed_transcript	KNOWN	None	None	None	None	28951246	28957589	-1	None	None
19	None	ENSG00000267243	ENST00000590072	processed_transcript	KNOWN	None	None	None	None	29195156	29215247	-1	None	None
19	None	ENSG00000267243	ENST00000586528	processed_transcript	KNOWN	None	None	None	None	29215183	29218684	-1	None	None
4	MTND1P22	ENSG00000251407	ENST00000510572	unprocessed_pseudogene	KNOWN	None	42093	None	None	156384025	156384975	-1	None	None
5	None	ENSG00000199409	ENST00000362539	misc_RNA	NOVEL	None	None	None	None	149477969	149478069	1	None	None
5	None	ENSG00000257938	ENST00000546429	3prime_overlapping_ncrna	KNOWN	None	None	None	None	149563301	149563916	1	None	None
16	None	ENSG00000261267	ENST00000563994	antisense	KNOWN	None	None	None	None	48593572	48621314	1	None	None
15	RNA5SP402	ENSG00000252957	ENST00000517148	rRNA	KNOWN	None	43302	None	None	100614286	100614395	-1	RN5S402	None
5	None	ENSG00000254333	ENST00000519040	lincRNA	KNOWN	None	None	None	None	149855094	149865531	-1	None	None
11	None	ENSG00000250073	ENST00000504932	antisense	KNOWN	None	None	None	None	124629025	124635832	1	None	None
11	None	ENSG00000250073	ENST00000532579	antisense	KNOWN	None	None	None	None	124632327	124635257	1	None	None
15	None	ENSG00000259356	ENST00000560128	antisense	KNOWN	None	None	None	None	100666311	100669948	1	None	None
14	TRAJ56	ENSG00000211835	ENST00000390483	TR_J_gene	KNOWN	None	12088	62	19	22948510	22948571	1	None	None
3	IQCF5	ENSG00000214681	ENST00000446461	protein_coding	KNOWN	CCDS46838	35159	447	148	51907737	51909600	-1	None	None
12	APAF1	ENSG00000120868	ENST00000551964	protein_coding	KNOWN	CCDS9069	576	3747	1248	99038919	99127305	1	None	CED4, APAF-1
12	APAF1	ENSG00000120868	ENST00000359972	protein_coding	KNOWN	CCDS55863	576	3585	1194	99039078	99129204	1	None	CED4, APAF-1
12	APAF1	ENSG00000120868	ENST00000547743	protein_coding	PUTATIVE	None	576	393	130	99039449	99042710	1	None	CED4, APAF-1
12	APAF1	ENSG00000120868	ENST00000552268	protein_coding	KNOWN	CCDS9071	576	1017	338	99042094	99126341	1	None	CED4, APAF-1
12	APAF1	ENSG00000120868	ENST00000550527	protein_coding	KNOWN	CCDS55862	576	3714	1237	99042131	99129204	1	None	CED4, APAF-1
12	APAF1	ENSG00000120868	ENST00000547045	protein_coding	KNOWN	CCDS9070	576	3618	1205	99042133	99126465	1	None	CED4, APAF-1
12	APAF1	ENSG00000120868	ENST00000549007	protein_coding	KNOWN	None	576	3492	1163	99042138	99126344	1	None	CED4, APAF-1
12	APAF1	ENSG00000120868	ENST00000555047	retained_intron	KNOWN	None	576	None	None	99064639	99065475	1	None	CED4, APAF-1
12	APAF1	ENSG00000120868	ENST00000546491	processed_transcript	KNOWN	None	576	None	None	99093274	99106539	1	None	CED4, APAF-1
12	APAF1	ENSG00000120868	ENST00000552929	processed_transcript	KNOWN	None	576	None	None	99117047	99126837	1	None	CED4, APAF-1
12	APAF1	ENSG00000120868	ENST00000547666	processed_transcript	PUTATIVE	None	576	None	None	99127426	99129196	1	None	CED4, APAF-1
12	APAF1	ENSG00000120868	ENST00000357310	protein_coding	KNOWN	CCDS9070	576	3618	1205	99039078	99129204	1	None	CED4, APAF-1
12	APAF1	ENSG00000120868	ENST00000339433	protein_coding	KNOWN	None	576	3492	1163	99039078	99129204	1	None	CED4, APAF-1
12	APAF1	ENSG00000120868	ENST00000333991	protein_coding	KNOWN	CCDS9071	576	1017	338	99039078	99129204	1	None	CED4, APAF-1
5	None	ENSG00000239191	ENST00000459561	snoRNA	NOVEL	None	None	None	None	149923152	149923251	-1	None	None
11	SLCO2B1	ENSG00000137491	ENST00000526660	processed_transcript	PUTATIVE	None	10962	None	None	74811608	74899278	1	SLC21A9	OATP-B, OATP2B1
11	SLCO2B1	ENSG00000137491	ENST00000531713	protein_coding	KNOWN	None	10962	263	86	74811636	74876875	1	SLC21A9	OATP-B, OATP2B1
11	SLCO2B1	ENSG00000137491	ENST00000289575	protein_coding	KNOWN	CCDS8235	10962	2130	709	74862032	74917594	1	SLC21A9	OATP-B, OATP2B1
11	SLCO2B1	ENSG00000137491	ENST00000532236	protein_coding	NOVEL	None	10962	1782	593	74862106	74916036	1	SLC21A9	OATP-B, OATP2B1
11	SLCO2B1	ENSG00000137491	ENST00000531756	protein_coding	PUTATIVE	None	10962	1098	365	74862115	74914355	1	SLC21A9	OATP-B, OATP2B1
11	SLCO2B1	ENSG00000137491	ENST00000531457	retained_intron	KNOWN	None	10962	None	None	74862124	74873968	1	SLC21A9	OATP-B, OATP2B1
11	SLCO2B1	ENSG00000137491	ENST00000525650	protein_coding	KNOWN	CCDS53679	10962	1698	565	74862160	74915781	1	SLC21A9	OATP-B, OATP2B1
11	SLCO2B1	ENSG00000137491	ENST00000454962	protein_coding	KNOWN	None	10962	1449	482	74862258	74917147	1	SLC21A9	OATP-B, OATP2B1
11	SLCO2B1	ENSG00000137491	ENST00000530556	protein_coding	KNOWN	None	10962	131	42	74862833	74875057	1	SLC21A9	OATP-B, OATP2B1
11	SLCO2B1	ENSG00000137491	ENST00000534004	protein_coding	KNOWN	None	10962	131	42	74863370	74875057	1	SLC21A9	OATP-B, OATP2B1
11	SLCO2B1	ENSG00000137491	ENST00000527180	protein_coding	KNOWN	None	10962	451	149	74868116	74880286	1	SLC21A9	OATP-B, OATP2B1
11	SLCO2B1	ENSG00000137491	ENST00000525845	protein_coding	KNOWN	None	10962	131	42	74870825	74875057	1	SLC21A9	OATP-B, OATP2B1
11	SLCO2B1	ENSG00000137491	ENST00000534186	protein_coding	KNOWN	None	10962	381	126	74870829	74876993	1	SLC21A9	OATP-B, OATP2B1
11	SLCO2B1	ENSG00000137491	ENST00000428359	protein_coding	KNOWN	CCDS44683	10962	2064	687	74870833	74915762	1	SLC21A9	OATP-B, OATP2B1
11	SLCO2B1	ENSG00000137491	ENST00000526839	protein_coding	PUTATIVE	None	10962	444	147	74876919	74881049	1	SLC21A9	OATP-B, OATP2B1
11	SLCO2B1	ENSG00000137491	ENST00000530012	retained_intron	KNOWN	None	10962	None	None	74907299	74914453	1	SLC21A9	OATP-B, OATP2B1
11	SLCO2B1	ENSG00000137491	ENST00000528108	retained_intron	KNOWN	None	10962	None	None	74907320	74911445	1	SLC21A9	OATP-B, OATP2B1
11	SLCO2B1	ENSG00000137491	ENST00000530015	retained_intron	KNOWN	None	10962	None	None	74910599	74917445	1	SLC21A9	OATP-B, OATP2B1
11	SLCO2B1	ENSG00000137491	ENST00000341411	protein_coding	KNOWN	None	10962	1449	482	74862040	74917444	1	SLC21A9	OATP-B, OATP2B1
3	CCR2	ENSG00000121807	ENST00000445132	protein_coding	KNOWN	CCDS46813	1603	1083	360	46395225	46400909	1	CMKBR2	CC-CKR-2, CKR2, MCP-1-R, CD192, FLJ78302
3	CCR2	ENSG00000121807	ENST00000465202	processed_transcript	PUTATIVE	None	1603	None	None	46395355	46400179	1	CMKBR2	CC-CKR-2, CKR2, MCP-1-R, CD192, FLJ78302
3	CCR2	ENSG00000121807	ENST00000421659	protein_coding	KNOWN	None	1603	365	120	46395617	46399383	1	CMKBR2	CC-CKR-2, CKR2, MCP-1-R, CD192, FLJ78302
3	CCR2	ENSG00000121807	ENST00000400888	protein_coding	KNOWN	CCDS43078	1603	1125	374	46398980	46402419	1	CMKBR2	CC-CKR-2, CKR2, MCP-1-R, CD192, FLJ78302
3	CCR2	ENSG00000121807	ENST00000292301	protein_coding	KNOWN	CCDS43078	1603	1125	374	46395235	46402412	1	CMKBR2	CC-CKR-2, CKR2, MCP-1-R, CD192, FLJ78302
5	None	ENSG00000253852	ENST00000517474	antisense	KNOWN	None	None	None	None	149987990	149994916	-1	None	None
15	SPATA41	ENSG00000189419	ENST00000558307	lincRNA	KNOWN	None	48613	None	None	100884662	100889593	-1	None	FLJ42289, HSD47
15	SPATA41	ENSG00000189419	ENST00000560282	lincRNA	KNOWN	None	48613	None	None	100884683	100889860	-1	None	FLJ42289, HSD47
15	SPATA41	ENSG00000189419	ENST00000340644	lincRNA	KNOWN	None	48613	None	None	100884663	100890438	-1	None	FLJ42289, HSD47
20	RNU6-192P	ENSG00000212555	ENST00000391253	snRNA	KNOWN	None	47155	None	None	17884406	17884505	1	None	None
5	None	ENSG00000250309	ENST00000511626	antisense	KNOWN	None	None	None	None	150050220	150051952	-1	None	None
HSCHR6_MHC_SSTO	TAP2	ENSG00000232326	ENST00000426977	protein_coding	KNOWN	None	44	1962	653	32879675	32896417	-1	ABCB3	PSF2, RING11, D6S217E
HSCHR6_MHC_SSTO	TAP2	ENSG00000232326	ENST00000457634	protein_coding	KNOWN	None	44	2112	703	32883276	32896470	-1	ABCB3	PSF2, RING11, D6S217E
HSCHR6_MHC_SSTO	TAP2	ENSG00000232326	ENST00000486525	retained_intron	KNOWN	None	44	None	None	32886638	32888421	-1	ABCB3	PSF2, RING11, D6S217E
HSCHR6_MHC_SSTO	TAP2	ENSG00000232326	ENST00000490573	processed_transcript	PUTATIVE	None	44	None	None	32889989	32890427	-1	ABCB3	PSF2, RING11, D6S217E
5	ZNF300P1	ENSG00000197083	ENST00000520773	processed_transcript	KNOWN	None	27032	None	None	150310207	150324621	-1	None	None
5	ZNF300P1	ENSG00000197083	ENST00000356555	transcribed_unprocessed_pseudogene	KNOWN	None	27032	None	None	150310325	150325851	-1	None	None
20	SNORD17	ENSG00000212232	ENST00000390930	snoRNA	KNOWN	None	32713	None	None	17943353	17943589	-1	None	HBI-43
14	TRAJ54	ENSG00000211836	ENST00000390484	TR_J_gene	KNOWN	None	12086	60	19	22951276	22951335	1	None	None
11	None	ENSG00000254509	ENST00000534607	processed_pseudogene	KNOWN	None	None	None	None	124661124	124661556	1	None	None
5	None	ENSG00000254298	ENST00000523781	lincRNA	KNOWN	None	None	None	None	150537667	150538023	-1	None	None
14	SIPA1L1	ENSG00000197555	ENST00000553453	processed_transcript	KNOWN	None	20284	None	None	71787166	71996087	1	None	KIAA0440, E6TP1
14	SIPA1L1	ENSG00000197555	ENST00000555989	processed_transcript	KNOWN	None	20284	None	None	71787166	72054482	1	None	KIAA0440, E6TP1
14	SIPA1L1	ENSG00000197555	ENST00000556408	processed_transcript	KNOWN	None	20284	None	None	71787190	72040517	1	None	KIAA0440, E6TP1
14	SIPA1L1	ENSG00000197555	ENST00000554126	processed_transcript	KNOWN	None	20284	None	None	71787193	72040230	1	None	KIAA0440, E6TP1
14	SIPA1L1	ENSG00000197555	ENST00000556780	processed_transcript	KNOWN	None	20284	None	None	71787193	72040370	1	None	KIAA0440, E6TP1
14	SIPA1L1	ENSG00000197555	ENST00000554362	processed_transcript	KNOWN	None	20284	None	None	71787193	72054411	1	None	KIAA0440, E6TP1
14	SIPA1L1	ENSG00000197555	ENST00000555652	processed_transcript	KNOWN	None	20284	None	None	71787232	72054339	1	None	KIAA0440, E6TP1
14	SIPA1L1	ENSG00000197555	ENST00000557151	protein_coding	PUTATIVE	None	20284	97	31	71788108	72054686	1	None	KIAA0440, E6TP1
14	SIPA1L1	ENSG00000197555	ENST00000557469	processed_transcript	KNOWN	None	20284	None	None	71880671	71883000	1	None	KIAA0440, E6TP1
14	SIPA1L1	ENSG00000197555	ENST00000557712	processed_transcript	KNOWN	None	20284	None	None	71933902	72041803	1	None	KIAA0440, E6TP1
14	SIPA1L1	ENSG00000197555	ENST00000381232	protein_coding	KNOWN	None	20284	5352	1783	71996042	72206122	1	None	KIAA0440, E6TP1
14	SIPA1L1	ENSG00000197555	ENST00000555818	protein_coding	KNOWN	CCDS9807	20284	5415	1804	71996042	72207946	1	None	KIAA0440, E6TP1
14	SIPA1L1	ENSG00000197555	ENST00000358550	protein_coding	NOVEL	None	20284	5349	1782	72052998	72206118	1	None	KIAA0440, E6TP1
14	SIPA1L1	ENSG00000197555	ENST00000537413	protein_coding	KNOWN	None	20284	3774	1257	72064951	72206058	1	None	KIAA0440, E6TP1
14	SIPA1L1	ENSG00000197555	ENST00000555066	protein_coding	NOVEL	None	20284	785	260	72085473	72128166	1	None	KIAA0440, E6TP1
14	SIPA1L1	ENSG00000197555	ENST00000554960	retained_intron	KNOWN	None	20284	None	None	72152079	72176059	1	None	KIAA0440, E6TP1
14	SIPA1L1	ENSG00000197555	ENST00000554874	processed_transcript	KNOWN	None	20284	None	None	72169029	72206084	1	None	KIAA0440, E6TP1
14	SIPA1L1	ENSG00000197555	ENST00000556959	retained_intron	KNOWN	None	20284	None	None	72196909	72202310	1	None	KIAA0440, E6TP1
5	None	ENSG00000270904	ENST00000604421	processed_pseudogene	KNOWN	None	None	None	None	150698983	150699337	1	None	None
9	DNAJC25-GNG10	ENSG00000244115	ENST00000374294	protein_coding	KNOWN	None	37501	462	153	114393666	114432509	1	None	None
2	AQP12B	ENSG00000185176	ENST00000414322	nonsense_mediated_decay	KNOWN	None	6096	126	41	241615835	241622323	-1	INSSA3	None
2	AQP12B	ENSG00000185176	ENST00000459806	processed_transcript	PUTATIVE	None	6096	None	None	241615836	241618785	-1	INSSA3	None
2	AQP12B	ENSG00000185176	ENST00000407834	protein_coding	KNOWN	CCDS46560	6096	924	307	241615855	241622317	-1	INSSA3	None
2	AQP12B	ENSG00000185176	ENST00000413999	nonsense_mediated_decay	KNOWN	None	6096	126	41	241615872	241622281	-1	INSSA3	None
2	AQP12B	ENSG00000185176	ENST00000452886	nonsense_mediated_decay	KNOWN	None	6096	126	41	241618689	241622297	-1	INSSA3	None
1	CA6	ENSG00000131686	ENST00000549778	protein_coding	PUTATIVE	None	1380	562	186	9005926	9027804	1	None	None
1	CA6	ENSG00000131686	ENST00000476083	processed_transcript	KNOWN	None	1380	None	None	9005927	9034933	1	None	None
1	CA6	ENSG00000131686	ENST00000480186	nonsense_mediated_decay	KNOWN	None	1380	540	179	9005941	9012710	1	None	None
1	CA6	ENSG00000131686	ENST00000377443	protein_coding	KNOWN	CCDS30578	1380	927	308	9005942	9035151	1	None	None
1	CA6	ENSG00000131686	ENST00000377436	protein_coding	PUTATIVE	CCDS57970	1380	942	313	9005946	9034503	1	None	None
1	CA6	ENSG00000131686	ENST00000377442	protein_coding	NOVEL	CCDS57971	1380	747	248	9005946	9034763	1	None	None
1	CA6	ENSG00000131686	ENST00000319474	protein_coding	KNOWN	None	1380	540	179	9005922	9011762	1	None	None
10	SUV39H2	ENSG00000152455	ENST00000378331	nonsense_mediated_decay	KNOWN	None	17287	138	45	14920819	14946314	1	None	FLJ23414, KMT1B
10	SUV39H2	ENSG00000152455	ENST00000433779	protein_coding	PUTATIVE	None	17287	457	151	14920847	14944455	1	None	FLJ23414, KMT1B
10	SUV39H2	ENSG00000152455	ENST00000378325	protein_coding	KNOWN	CCDS53493	17287	693	230	14920862	14945084	1	None	FLJ23414, KMT1B
10	SUV39H2	ENSG00000152455	ENST00000354919	protein_coding	KNOWN	CCDS53494	17287	1233	410	14920888	14944511	1	None	FLJ23414, KMT1B
10	SUV39H2	ENSG00000152455	ENST00000313519	protein_coding	PUTATIVE	CCDS7104	17287	1053	350	14920899	14946314	1	None	FLJ23414, KMT1B
10	SUV39H2	ENSG00000152455	ENST00000420416	protein_coding	PUTATIVE	None	17287	662	219	14920921	14939509	1	None	FLJ23414, KMT1B
10	SUV39H2	ENSG00000152455	ENST00000412254	protein_coding	PUTATIVE	None	17287	287	94	14921815	14939134	1	None	FLJ23414, KMT1B
10	SUV39H2	ENSG00000152455	ENST00000358298	protein_coding	NOVEL	None	17287	530	175	14923499	14945592	1	None	FLJ23414, KMT1B
10	None	ENSG00000228021	ENST00000596068	lincRNA	KNOWN	None	None	None	None	127371798	127395597	1	None	None
10	None	ENSG00000228021	ENST00000415305	lincRNA	KNOWN	None	None	None	None	127371812	127398627	1	None	None
10	None	ENSG00000228021	ENST00000449693	lincRNA	KNOWN	None	None	None	None	127371862	127389178	1	None	None
10	None	ENSG00000228021	ENST00000597502	lincRNA	KNOWN	None	None	None	None	127386292	127395597	1	None	None
12	RNA5SP370	ENSG00000199415	ENST00000362545	rRNA	KNOWN	None	43270	None	None	104519014	104519134	1	RN5S370	None
20	PTMAP3	ENSG00000218902	ENST00000447474	processed_pseudogene	KNOWN	None	9626	None	None	17992599	17992928	1	None	None
12	CCDC92	ENSG00000119242	ENST00000542348	processed_transcript	KNOWN	None	29563	None	None	124403207	124428042	-1	None	FLJ22471
12	CCDC92	ENSG00000119242	ENST00000544798	processed_transcript	KNOWN	None	29563	None	None	124408539	124428916	-1	None	FLJ22471
12	CCDC92	ENSG00000119242	ENST00000238156	protein_coding	KNOWN	CCDS9256	29563	996	331	124420956	124457371	-1	None	FLJ22471
12	CCDC92	ENSG00000119242	ENST00000545135	protein_coding	PUTATIVE	None	29563	945	314	124420964	124431320	-1	None	FLJ22471
12	CCDC92	ENSG00000119242	ENST00000545891	protein_coding	PUTATIVE	None	29563	945	314	124420983	124457281	-1	None	FLJ22471
12	CCDC92	ENSG00000119242	ENST00000539761	protein_coding	KNOWN	None	29563	366	121	124422235	124456598	-1	None	FLJ22471
12	CCDC92	ENSG00000119242	ENST00000535556	protein_coding	PUTATIVE	None	29563	289	95	124422261	124457163	-1	None	FLJ22471
12	CCDC92	ENSG00000119242	ENST00000539551	protein_coding	KNOWN	None	29563	289	95	124422312	124456637	-1	None	FLJ22471
12	CCDC92	ENSG00000119242	ENST00000545037	protein_coding	KNOWN	None	29563	36	11	124428817	124457378	-1	None	FLJ22471
3	CD47	ENSG00000196776	ENST00000471694	processed_transcript	KNOWN	None	1682	None	None	107762145	107773586	-1	MER6	IAP, OA3
3	CD47	ENSG00000196776	ENST00000355354	protein_coding	KNOWN	CCDS43125	1682	918	305	107762146	107809872	-1	MER6	IAP, OA3
3	CD47	ENSG00000196776	ENST00000398258	protein_coding	NOVEL	None	1682	260	85	107765926	107777208	-1	MER6	IAP, OA3
3	CD47	ENSG00000196776	ENST00000517766	protein_coding	NOVEL	None	1682	329	108	107765926	107778379	-1	MER6	IAP, OA3
3	CD47	ENSG00000196776	ENST00000361309	protein_coding	KNOWN	CCDS43126	1682	972	323	107765928	107809861	-1	MER6	IAP, OA3
14	TRAJ53	ENSG00000211837	ENST00000390485	TR_J_gene	KNOWN	None	12085	66	21	22951993	22952058	1	None	None
HSCHR6_MHC_QBL	HLA-E	ENSG00000206493	ENST00000383597	protein_coding	KNOWN	None	4962	1077	358	30446762	30451500	1	None	None
HSCHR6_MHC_QBL	HLA-E	ENSG00000206493	ENST00000495114	retained_intron	KNOWN	None	4962	None	None	30446805	30447660	1	None	None
HSCHR6_MHC_QBL	HLA-E	ENSG00000206493	ENST00000484637	retained_intron	KNOWN	None	4962	None	None	30446807	30448578	1	None	None
19	CD3EAP	ENSG00000117877	ENST00000309424	protein_coding	KNOWN	CCDS12661	24219	1533	510	45909467	45914024	1	None	ASE-1, CAST, PAF49
19	CD3EAP	ENSG00000117877	ENST00000592852	protein_coding	PUTATIVE	None	24219	117	38	45909920	45911877	1	None	ASE-1, CAST, PAF49
19	CD3EAP	ENSG00000117877	ENST00000589804	protein_coding	KNOWN	None	24219	1539	512	45909949	45913044	1	None	ASE-1, CAST, PAF49
19	CD3EAP	ENSG00000117877	ENST00000590794	protein_coding	PUTATIVE	None	24219	202	66	45909957	45911859	1	None	ASE-1, CAST, PAF49
5	HCN1	ENSG00000164588	ENST00000303230	protein_coding	KNOWN	CCDS3952	4845	2673	890	45259349	45696253	-1	BCNG1	BCNG-1, HAC-2
16	None	ENSG00000260737	ENST00000567317	lincRNA	KNOWN	None	None	None	None	80600691	80603584	-1	None	None
16	None	ENSG00000260737	ENST00000561719	lincRNA	KNOWN	None	None	None	None	80601000	80606705	-1	None	None
16	None	ENSG00000260737	ENST00000562002	lincRNA	KNOWN	None	None	None	None	80601452	80602795	-1	None	None
16	None	ENSG00000260737	ENST00000561634	lincRNA	KNOWN	None	None	None	None	80601455	80602810	-1	None	None
16	None	ENSG00000260737	ENST00000565215	lincRNA	KNOWN	None	None	None	None	80601574	80603167	-1	None	None
12	None	ENSG00000257193	ENST00000547554	lincRNA	KNOWN	None	None	None	None	104564173	104571437	1	None	None
11	TRPC6	ENSG00000137672	ENST00000344327	protein_coding	KNOWN	CCDS8311	12338	2796	931	101322295	101454659	-1	None	TRP6
11	TRPC6	ENSG00000137672	ENST00000532133	protein_coding	NOVEL	None	12338	2562	853	101323603	101454237	-1	None	TRP6
11	TRPC6	ENSG00000137672	ENST00000348423	protein_coding	KNOWN	None	12338	2448	815	101323686	101454234	-1	None	TRP6
11	TRPC6	ENSG00000137672	ENST00000360497	protein_coding	KNOWN	None	12338	2631	876	101323686	101454234	-1	None	TRP6
11	TRPC6	ENSG00000137672	ENST00000532184	retained_intron	KNOWN	None	12338	None	None	101324372	101326308	-1	None	TRP6
11	TRPC6	ENSG00000137672	ENST00000527240	retained_intron	KNOWN	None	12338	None	None	101362112	101374821	-1	None	TRP6
11	TRPC6	ENSG00000137672	ENST00000526713	processed_transcript	KNOWN	None	12338	None	None	101375436	101743293	-1	None	TRP6
19	None	ENSG00000243829	ENST00000498085	processed_pseudogene	KNOWN	None	None	None	None	50222755	50223338	-1	None	None
2	TSN	ENSG00000211460	ENST00000455432	protein_coding	PUTATIVE	None	12379	555	184	122494679	122522794	1	None	TRSLN, BCLF-1, REHF-1
2	TSN	ENSG00000211460	ENST00000389682	protein_coding	KNOWN	CCDS33284	12379	687	228	122513109	122525429	1	None	TRSLN, BCLF-1, REHF-1
2	TSN	ENSG00000211460	ENST00000467324	retained_intron	KNOWN	None	12379	None	None	122513235	122524870	1	None	TRSLN, BCLF-1, REHF-1
2	TSN	ENSG00000211460	ENST00000483698	retained_intron	KNOWN	None	12379	None	None	122513236	122515184	1	None	TRSLN, BCLF-1, REHF-1
2	TSN	ENSG00000211460	ENST00000490717	retained_intron	KNOWN	None	12379	None	None	122513236	122520633	1	None	TRSLN, BCLF-1, REHF-1
2	TSN	ENSG00000211460	ENST00000478165	retained_intron	KNOWN	None	12379	None	None	122513236	122522797	1	None	TRSLN, BCLF-1, REHF-1
2	TSN	ENSG00000211460	ENST00000498545	processed_transcript	KNOWN	None	12379	None	None	122513236	122523561	1	None	TRSLN, BCLF-1, REHF-1
2	TSN	ENSG00000211460	ENST00000490104	retained_intron	KNOWN	None	12379	None	None	122513239	122524755	1	None	TRSLN, BCLF-1, REHF-1
2	TSN	ENSG00000211460	ENST00000495112	processed_transcript	KNOWN	None	12379	None	None	122513261	122522860	1	None	TRSLN, BCLF-1, REHF-1
2	TSN	ENSG00000211460	ENST00000481818	retained_intron	KNOWN	None	12379	None	None	122513279	122514985	1	None	TRSLN, BCLF-1, REHF-1
2	TSN	ENSG00000211460	ENST00000409193	protein_coding	PUTATIVE	None	12379	672	223	122513747	122523237	1	None	TRSLN, BCLF-1, REHF-1
2	TSN	ENSG00000211460	ENST00000536142	protein_coding	KNOWN	CCDS58723	12379	447	148	122513257	122523325	1	None	TRSLN, BCLF-1, REHF-1
8	LINC00964	ENSG00000249816	ENST00000525292	lincRNA	KNOWN	None	27226	None	None	125860979	125862459	1	None	None
8	LINC00964	ENSG00000249816	ENST00000528090	lincRNA	KNOWN	None	27226	None	None	125861008	125956854	1	None	None
8	LINC00964	ENSG00000249816	ENST00000529135	lincRNA	KNOWN	None	27226	None	None	125952591	125966570	1	None	None
8	LINC00964	ENSG00000249816	ENST00000510897	lincRNA	KNOWN	None	27226	None	None	125954297	125963339	1	None	None
8	LINC00964	ENSG00000249816	ENST00000533286	lincRNA	KNOWN	None	27226	None	None	125954341	125957988	1	None	None
8	LINC00964	ENSG00000249816	ENST00000504665	lincRNA	KNOWN	None	27226	None	None	125956421	125963337	1	None	None
8	LINC00964	ENSG00000249816	ENST00000532713	lincRNA	KNOWN	None	27226	None	None	125957254	125963338	1	None	None
8	LINC00964	ENSG00000249816	ENST00000529478	lincRNA	KNOWN	None	27226	None	None	125957877	125963419	1	None	None
8	LINC00964	ENSG00000249816	ENST00000530549	lincRNA	KNOWN	None	27226	None	None	125958238	125963336	1	None	None
11	TMEM132A	ENSG00000006118	ENST00000537065	processed_transcript	PUTATIVE	None	31092	None	None	60691935	60694103	1	HSPA5BP1	GBP, FLJ20539
11	TMEM132A	ENSG00000006118	ENST00000544065	protein_coding	PUTATIVE	None	31092	230	75	60691942	60698131	1	HSPA5BP1	GBP, FLJ20539
11	TMEM132A	ENSG00000006118	ENST00000453848	protein_coding	KNOWN	CCDS44618	31092	3072	1023	60691948	60704495	1	HSPA5BP1	GBP, FLJ20539
11	TMEM132A	ENSG00000006118	ENST00000005286	protein_coding	KNOWN	CCDS7997	31092	3075	1024	60691953	60704631	1	HSPA5BP1	GBP, FLJ20539
11	TMEM132A	ENSG00000006118	ENST00000543732	processed_transcript	PUTATIVE	None	31092	None	None	60691964	60693179	1	HSPA5BP1	GBP, FLJ20539
11	TMEM132A	ENSG00000006118	ENST00000540276	processed_transcript	PUTATIVE	None	31092	None	None	60691970	60695330	1	HSPA5BP1	GBP, FLJ20539
11	TMEM132A	ENSG00000006118	ENST00000537110	processed_transcript	PUTATIVE	None	31092	None	None	60693176	60694115	1	HSPA5BP1	GBP, FLJ20539
11	TMEM132A	ENSG00000006118	ENST00000534983	retained_intron	KNOWN	None	31092	None	None	60694521	60702079	1	HSPA5BP1	GBP, FLJ20539
11	TMEM132A	ENSG00000006118	ENST00000544098	retained_intron	KNOWN	None	31092	None	None	60694540	60702089	1	HSPA5BP1	GBP, FLJ20539
11	TMEM132A	ENSG00000006118	ENST00000536409	protein_coding	NOVEL	None	31092	454	150	60699227	60702080	1	HSPA5BP1	GBP, FLJ20539
11	TMEM132A	ENSG00000006118	ENST00000539899	processed_transcript	PUTATIVE	None	31092	None	None	60699476	60701477	1	HSPA5BP1	GBP, FLJ20539
11	TMEM132A	ENSG00000006118	ENST00000536928	processed_transcript	PUTATIVE	None	31092	None	None	60701469	60702819	1	HSPA5BP1	GBP, FLJ20539
11	TMEM132A	ENSG00000006118	ENST00000538090	retained_intron	KNOWN	None	31092	None	None	60701810	60702887	1	HSPA5BP1	GBP, FLJ20539
11	TMEM132A	ENSG00000006118	ENST00000540112	protein_coding	PUTATIVE	None	31092	341	112	60702115	60704614	1	HSPA5BP1	GBP, FLJ20539
11	TMEM132A	ENSG00000006118	ENST00000535480	protein_coding	PUTATIVE	None	31092	312	103	60702790	60704631	1	HSPA5BP1	GBP, FLJ20539
12	ATF7	ENSG00000170653	ENST00000548446	protein_coding	KNOWN	None	792	1485	494	53901640	54020154	-1	None	ATFA
12	ATF7	ENSG00000170653	ENST00000420353	protein_coding	KNOWN	CCDS44906	792	1452	483	53905843	54020191	-1	None	ATFA
12	ATF7	ENSG00000170653	ENST00000456903	protein_coding	KNOWN	CCDS44906	792	1452	483	53907226	54019784	-1	None	ATFA
12	ATF7	ENSG00000170653	ENST00000551087	processed_transcript	KNOWN	None	792	None	None	53909565	53917053	-1	None	ATFA
12	ATF7	ENSG00000170653	ENST00000546661	processed_transcript	KNOWN	None	792	None	None	53910433	53918760	-1	None	ATFA
12	ATF7	ENSG00000170653	ENST00000588232	protein_coding	PUTATIVE	None	792	237	78	53928324	54020147	-1	None	ATFA
12	ATF7	ENSG00000170653	ENST00000551480	protein_coding	PUTATIVE	None	792	235	77	53928326	54019763	-1	None	ATFA
12	ATF7	ENSG00000170653	ENST00000588078	protein_coding	KNOWN	None	792	489	162	53928390	54019755	-1	None	ATFA
12	ATF7	ENSG00000170653	ENST00000548118	protein_coding	KNOWN	CCDS58238	792	354	117	53936671	54019780	-1	None	ATFA
12	ATF7	ENSG00000170653	ENST00000591397	protein_coding	KNOWN	CCDS58238	792	354	117	53936671	54020194	-1	None	ATFA
12	ATF7	ENSG00000170653	ENST00000550373	processed_transcript	KNOWN	None	792	None	None	53936875	53937735	-1	None	ATFA
12	ATF7	ENSG00000170653	ENST00000589726	retained_intron	KNOWN	None	792	None	None	53994536	54020171	-1	None	ATFA
12	ATF7	ENSG00000170653	ENST00000328463	protein_coding	KNOWN	None	792	1485	494	53905845	53994805	-1	None	ATFA
12	ATF7	ENSG00000170653	ENST00000415113	protein_coding	KNOWN	None	792	1389	462	53905845	54020199	-1	None	ATFA
14	TRAJ52	ENSG00000211838	ENST00000390486	TR_J_gene	KNOWN	None	12084	69	22	22955216	22955284	1	None	None
2	None	ENSG00000268822	ENST00000599492	protein_coding	KNOWN	None	None	228	75	241624478	241624705	-1	None	None
11	None	ENSG00000245498	ENST00000499143	antisense	KNOWN	None	None	None	None	124670346	124704383	1	None	None
11	None	ENSG00000245498	ENST00000529392	antisense	KNOWN	None	None	None	None	124670806	124676641	1	None	None
1	DR1	ENSG00000117505	ENST00000370272	protein_coding	KNOWN	CCDS744	3017	531	176	93811445	93828149	1	None	NC2, NC2-BETA
1	DR1	ENSG00000117505	ENST00000370267	protein_coding	KNOWN	CCDS744	3017	531	176	93811492	93826725	1	None	NC2, NC2-BETA
1	DR1	ENSG00000117505	ENST00000481583	processed_transcript	KNOWN	None	3017	None	None	93820532	93826492	1	None	NC2, NC2-BETA
7	ZNF777	ENSG00000196453	ENST00000247930	protein_coding	KNOWN	CCDS43675	22213	2496	831	149128454	149158214	-1	None	KIAA1285
6	C6orf223	ENSG00000181577	ENST00000442114	retained_intron	KNOWN	None	28692	None	None	43968317	43972887	1	None	MGC45491
6	C6orf223	ENSG00000181577	ENST00000336600	protein_coding	KNOWN	CCDS34459	28692	729	242	43968337	43973695	1	None	MGC45491
6	C6orf223	ENSG00000181577	ENST00000439969	protein_coding	KNOWN	CCDS55016	28692	318	105	43968354	43972845	1	None	MGC45491
6	C6orf223	ENSG00000181577	ENST00000448947	processed_transcript	KNOWN	None	28692	None	None	43968369	43971142	1	None	MGC45491
20	None	ENSG00000229262	ENST00000429853	antisense	KNOWN	None	None	None	None	18040137	18051652	1	None	None
13	TMTC4	ENSG00000125247	ENST00000376234	protein_coding	KNOWN	CCDS41904	25904	2226	741	101256181	101327133	-1	None	FLJ14624, FLJ22153
13	TMTC4	ENSG00000125247	ENST00000342624	protein_coding	KNOWN	CCDS9497	25904	2283	760	101256188	101327049	-1	None	FLJ14624, FLJ22153
13	TMTC4	ENSG00000125247	ENST00000328767	protein_coding	NOVEL	None	25904	1893	630	101257125	101327028	-1	None	FLJ14624, FLJ22153
13	TMTC4	ENSG00000125247	ENST00000489713	retained_intron	KNOWN	None	25904	None	None	101277164	101291062	-1	None	FLJ14624, FLJ22153
13	TMTC4	ENSG00000125247	ENST00000462211	processed_transcript	KNOWN	None	25904	None	None	101277707	101294565	-1	None	FLJ14624, FLJ22153
13	TMTC4	ENSG00000125247	ENST00000478272	processed_transcript	KNOWN	None	25904	None	None	101277789	101288862	-1	None	FLJ14624, FLJ22153
13	TMTC4	ENSG00000125247	ENST00000496511	processed_transcript	KNOWN	None	25904	None	None	101287319	101288886	-1	None	FLJ14624, FLJ22153
13	TMTC4	ENSG00000125247	ENST00000440120	nonsense_mediated_decay	KNOWN	None	25904	345	114	101315374	101327049	-1	None	FLJ14624, FLJ22153
13	TMTC4	ENSG00000125247	ENST00000480433	retained_intron	KNOWN	None	25904	None	None	101320616	101322989	-1	None	FLJ14624, FLJ22153
13	TMTC4	ENSG00000125247	ENST00000423847	protein_coding	KNOWN	None	25904	162	53	101320833	101327133	-1	None	FLJ14624, FLJ22153
13	TMTC4	ENSG00000125247	ENST00000475272	protein_coding	KNOWN	None	25904	219	72	101320833	101327347	-1	None	FLJ14624, FLJ22153
19	ZNF181	ENSG00000197841	ENST00000599244	protein_coding	KNOWN	None	12971	225	74	35225060	35230525	1	None	HHZ181, MGC44316
19	ZNF181	ENSG00000197841	ENST00000392232	protein_coding	KNOWN	None	12971	1848	615	35225061	35233777	1	None	HHZ181, MGC44316
19	ZNF181	ENSG00000197841	ENST00000448715	retained_intron	KNOWN	None	12971	None	None	35225099	35233777	1	None	HHZ181, MGC44316
19	ZNF181	ENSG00000197841	ENST00000595708	protein_coding	KNOWN	None	12971	434	143	35225151	35231723	1	None	HHZ181, MGC44316
19	ZNF181	ENSG00000197841	ENST00000593781	protein_coding	PUTATIVE	None	12971	332	109	35225168	35231630	1	None	HHZ181, MGC44316
19	ZNF181	ENSG00000197841	ENST00000492450	protein_coding	KNOWN	CCDS32990	12971	1716	571	35225854	35233091	1	None	HHZ181, MGC44316
19	ZNF181	ENSG00000197841	ENST00000459757	protein_coding	KNOWN	CCDS46043	12971	1713	570	35225854	35233091	1	None	HHZ181, MGC44316
4	None	ENSG00000222333	ENST00000410401	miRNA	NOVEL	None	None	None	None	107336863	107336942	-1	None	None
2	AQP12A	ENSG00000184945	ENST00000337801	protein_coding	KNOWN	None	19941	888	295	241631262	241637900	1	AQP12	None
2	AQP12A	ENSG00000184945	ENST00000460527	processed_transcript	PUTATIVE	None	19941	None	None	241634647	241637900	1	AQP12	None
2	AQP12A	ENSG00000184945	ENST00000471878	processed_transcript	PUTATIVE	None	19941	None	None	241634950	241637899	1	AQP12	None
2	AQP12A	ENSG00000184945	ENST00000474778	processed_transcript	PUTATIVE	None	19941	None	None	241636392	241637895	1	AQP12	None
2	AQP12A	ENSG00000184945	ENST00000429564	protein_coding	KNOWN	None	19941	924	307	241631268	241637896	1	AQP12	None
20	LINC00686	ENSG00000237687	ENST00000435412	lincRNA	KNOWN	None	16221	None	None	61326376	61331832	-1	C20orf90	bA93B14.2
X	CNOT7P1	ENSG00000233229	ENST00000429006	processed_pseudogene	KNOWN	None	44248	None	None	69157016	69157867	-1	None	None
4	None	ENSG00000249613	ENST00000504132	lincRNA	KNOWN	None	None	None	None	107354781	107374605	1	None	None
7	RPL7AP38	ENSG00000213787	ENST00000441433	processed_pseudogene	KNOWN	None	36161	None	None	26961729	26962531	1	None	None
5	None	ENSG00000253897	ENST00000517788	unprocessed_pseudogene	KNOWN	None	None	None	None	150745994	150810913	-1	None	None
12	None	ENSG00000257732	ENST00000549807	antisense	KNOWN	None	None	None	None	104656092	104674500	-1	None	None
8	SLC35G5	ENSG00000177710	ENST00000382435	protein_coding	KNOWN	CCDS5980	15546	1017	338	11188397	11189717	1	AMAC, AMAC1L2	None
9	GNG10	ENSG00000242616	ENST00000374293	protein_coding	KNOWN	CCDS35107	4402	207	68	114423615	114432526	1	None	None
16	NPW	ENSG00000183971	ENST00000567649	protein_coding	PUTATIVE	None	30509	386	127	2059927	2070593	1	None	PPL8
16	NPW	ENSG00000183971	ENST00000566435	protein_coding	KNOWN	None	30509	342	113	2069546	2070756	1	None	PPL8
16	NPW	ENSG00000183971	ENST00000329610	protein_coding	KNOWN	CCDS42102	30509	498	165	2069521	2070755	1	None	PPL8
15	None	ENSG00000259774	ENST00000559866	lincRNA	KNOWN	None	None	None	None	84977316	84980581	1	None	None
14	TRAJ50	ENSG00000211839	ENST00000390487	TR_J_gene	KNOWN	None	12082	60	19	22957581	22957640	1	None	None
7	RN7SKP86	ENSG00000222386	ENST00000410454	misc_RNA	KNOWN	None	45810	None	None	103124655	103124986	-1	None	None
7	EIF4BP6	ENSG00000197258	ENST00000431936	processed_pseudogene	KNOWN	None	37939	None	None	104308196	104310023	1	None	None
12	KCNA6	ENSG00000151079	ENST00000280684	protein_coding	KNOWN	CCDS8534	6225	1590	529	4918342	4922578	1	None	Kv1.6, HBK2
12	KCNA6	ENSG00000151079	ENST00000433855	protein_coding	KNOWN	CCDS8534	6225	1590	529	4918342	4960277	1	None	Kv1.6, HBK2
3	GTPBP8	ENSG00000163607	ENST00000383678	protein_coding	KNOWN	CCDS33820	25007	855	284	112709765	112720189	1	None	HSPC135
3	GTPBP8	ENSG00000163607	ENST00000383677	protein_coding	KNOWN	CCDS33821	25007	756	251	112709832	112720782	1	None	HSPC135
3	GTPBP8	ENSG00000163607	ENST00000295864	nonsense_mediated_decay	KNOWN	None	25007	366	121	112709834	112719807	1	None	HSPC135
3	GTPBP8	ENSG00000163607	ENST00000485330	nonsense_mediated_decay	KNOWN	CCDS33821	25007	756	251	112709838	112733907	1	None	HSPC135
3	GTPBP8	ENSG00000163607	ENST00000488781	nonsense_mediated_decay	KNOWN	None	25007	420	139	112709856	112719766	1	None	HSPC135
3	GTPBP8	ENSG00000163607	ENST00000467752	protein_coding	PUTATIVE	None	25007	522	173	112710265	112719792	1	None	HSPC135
3	GTPBP8	ENSG00000163607	ENST00000473129	protein_coding	PUTATIVE	None	25007	405	134	112710414	112719791	1	None	HSPC135
1	E2F2	ENSG00000007968	ENST00000361729	protein_coding	KNOWN	CCDS236	3114	1314	437	23832922	23857712	-1	None	E2F-2
1	E2F2	ENSG00000007968	ENST00000487237	processed_transcript	KNOWN	None	3114	None	None	23842851	23845888	-1	None	E2F-2
22	SLC9A3P2	ENSG00000238125	ENST00000447821	processed_pseudogene	KNOWN	None	19325	None	None	21007017	21009037	1	None	None
15	WDR73	ENSG00000177082	ENST00000559994	retained_intron	KNOWN	None	25928	None	None	85185999	85197511	-1	None	FLJ14888, HSPC264
15	WDR73	ENSG00000177082	ENST00000434634	protein_coding	KNOWN	CCDS45339	25928	1137	378	85185999	85197566	-1	None	FLJ14888, HSPC264
15	WDR73	ENSG00000177082	ENST00000398528	processed_transcript	KNOWN	None	25928	None	None	85185999	85197574	-1	None	FLJ14888, HSPC264
15	WDR73	ENSG00000177082	ENST00000559015	retained_intron	KNOWN	None	25928	None	None	85186286	85197511	-1	None	FLJ14888, HSPC264
15	WDR73	ENSG00000177082	ENST00000559126	retained_intron	KNOWN	None	25928	None	None	85186313	85197477	-1	None	FLJ14888, HSPC264
15	WDR73	ENSG00000177082	ENST00000558608	retained_intron	KNOWN	None	25928	None	None	85186376	85191817	-1	None	FLJ14888, HSPC264
15	WDR73	ENSG00000177082	ENST00000560966	retained_intron	KNOWN	None	25928	None	None	85188186	85197462	-1	None	FLJ14888, HSPC264
15	WDR73	ENSG00000177082	ENST00000559224	nonsense_mediated_decay	KNOWN	None	25928	256	84	85188700	85197497	-1	None	FLJ14888, HSPC264
15	WDR73	ENSG00000177082	ENST00000558521	nonsense_mediated_decay	KNOWN	None	25928	536	177	85188700	85197504	-1	None	FLJ14888, HSPC264
15	WDR73	ENSG00000177082	ENST00000559452	retained_intron	KNOWN	None	25928	None	None	85188809	85197503	-1	None	FLJ14888, HSPC264
15	WDR73	ENSG00000177082	ENST00000561329	retained_intron	KNOWN	None	25928	None	None	85188925	85197505	-1	None	FLJ14888, HSPC264
15	WDR73	ENSG00000177082	ENST00000559178	nonsense_mediated_decay	KNOWN	None	25928	395	130	85189219	85197489	-1	None	FLJ14888, HSPC264
15	WDR73	ENSG00000177082	ENST00000560835	processed_transcript	KNOWN	None	25928	None	None	85189268	85197514	-1	None	FLJ14888, HSPC264
15	WDR73	ENSG00000177082	ENST00000560088	retained_intron	KNOWN	None	25928	None	None	85189416	85196981	-1	None	FLJ14888, HSPC264
15	WDR73	ENSG00000177082	ENST00000561447	processed_transcript	KNOWN	None	25928	None	None	85189537	85197462	-1	None	FLJ14888, HSPC264
15	WDR73	ENSG00000177082	ENST00000560252	retained_intron	KNOWN	None	25928	None	None	85190317	85197529	-1	None	FLJ14888, HSPC264
15	WDR73	ENSG00000177082	ENST00000558019	retained_intron	KNOWN	None	25928	None	None	85191543	85197514	-1	None	FLJ14888, HSPC264
15	WDR73	ENSG00000177082	ENST00000560182	retained_intron	KNOWN	None	25928	None	None	85191688	85197472	-1	None	FLJ14888, HSPC264
15	WDR73	ENSG00000177082	ENST00000559877	retained_intron	KNOWN	None	25928	None	None	85191696	85197231	-1	None	FLJ14888, HSPC264
15	WDR73	ENSG00000177082	ENST00000558487	retained_intron	KNOWN	None	25928	None	None	85191751	85197231	-1	None	FLJ14888, HSPC264
15	WDR73	ENSG00000177082	ENST00000561434	retained_intron	KNOWN	None	25928	None	None	85196413	85197521	-1	None	FLJ14888, HSPC264
15	None	ENSG00000197627	ENST00000414573	unprocessed_pseudogene	KNOWN	None	None	None	None	85034711	85043830	-1	None	None
X	RNU6-49P	ENSG00000206983	ENST00000384256	snRNA	KNOWN	None	34293	None	None	37729362	37729468	1	RNU6-49	None
5	None	ENSG00000252270	ENST00000516461	miRNA	NOVEL	None	None	None	None	150748005	150748076	-1	None	None
14	CIDEB	ENSG00000136305	ENST00000554411	protein_coding	KNOWN	CCDS32056	1977	660	219	24774302	24777469	-1	None	None
14	CIDEB	ENSG00000136305	ENST00000336557	protein_coding	KNOWN	CCDS32056	1977	660	219	24774393	24780601	-1	None	None
14	CIDEB	ENSG00000136305	ENST00000258807	protein_coding	KNOWN	CCDS32056	1977	660	219	24774393	24780628	-1	None	None
14	CIDEB	ENSG00000136305	ENST00000556756	protein_coding	PUTATIVE	None	1977	87	28	24774812	24775667	-1	None	None
14	CIDEB	ENSG00000136305	ENST00000555471	retained_intron	KNOWN	None	1977	None	None	24779293	24779924	-1	None	None
14	CIDEB	ENSG00000136305	ENST00000555817	processed_transcript	PUTATIVE	None	1977	None	None	24780005	24780636	-1	None	None
12	RPL18AP3	ENSG00000213442	ENST00000462885	processed_pseudogene	KNOWN	None	31387	None	None	104659087	104659614	1	None	bcm182
12	RPL18AP3	ENSG00000213442	ENST00000394214	pseudogene	KNOWN	None	31387	None	None	104659056	104659669	1	None	bcm182
7	HMGB3P20	ENSG00000226059	ENST00000417997	processed_pseudogene	KNOWN	None	39312	None	None	27022387	27022986	-1	None	None
5	None	ENSG00000253472	ENST00000520621	processed_pseudogene	KNOWN	None	None	None	None	150757564	150758201	-1	None	None
5	None	ENSG00000271494	ENST00000603595	processed_pseudogene	KNOWN	None	None	None	None	150759902	150761942	1	None	None
7	LHFPL3-AS1	ENSG00000226869	ENST00000433514	antisense	KNOWN	None	40341	None	None	104379044	104398195	-1	None	None
7	LHFPL3-AS1	ENSG00000226869	ENST00000449764	antisense	KNOWN	None	40341	None	None	104379045	104444535	-1	None	None
7	LHFPL3-AS1	ENSG00000226869	ENST00000411448	antisense	KNOWN	None	40341	None	None	104409116	104444533	-1	None	None
7	LHFPL3-AS1	ENSG00000226869	ENST00000416376	antisense	KNOWN	None	40341	None	None	104425659	104444554	-1	None	None
7	LHFPL3-AS1	ENSG00000226869	ENST00000417290	antisense	KNOWN	None	40341	None	None	104436953	104444531	-1	None	None
7	LHFPL3-AS1	ENSG00000226869	ENST00000434579	antisense	KNOWN	None	40341	None	None	104436963	104444554	-1	None	None
7	LHFPL3-AS1	ENSG00000226869	ENST00000450896	retained_intron	KNOWN	None	40341	None	None	104439840	104443986	-1	None	None
15	None	ENSG00000259551	ENST00000559065	lincRNA	KNOWN	None	None	None	None	85043609	85045612	1	None	None
20	None	ENSG00000223669	ENST00000430184	antisense	KNOWN	None	None	None	None	61363918	61366699	-1	None	None
20	RPL15P1	ENSG00000227343	ENST00000439981	processed_pseudogene	KNOWN	None	16583	None	None	18070760	18071359	-1	None	dJ726N1.3
X	MIR676	ENSG00000211991	ENST00000390702	miRNA	KNOWN	None	38880	None	None	69242707	69242773	1	None	hsa-mir-676
6	KIAA0408	ENSG00000189367	ENST00000368281	retained_intron	KNOWN	None	21636	None	None	127761488	127772361	-1	None	None
6	KIAA0408	ENSG00000189367	ENST00000465254	protein_coding	PUTATIVE	None	21636	267	88	127762193	127768230	-1	None	None
6	KIAA0408	ENSG00000189367	ENST00000483725	protein_coding	NOVEL	CCDS34531	21636	2085	694	127764392	127780536	-1	None	None
6	KIAA0408	ENSG00000189367	ENST00000487331	protein_coding	NOVEL	None	21636	757	251	127768743	127780510	-1	None	None
6	KIAA0408	ENSG00000189367	ENST00000472335	retained_intron	KNOWN	None	21636	None	None	127771191	127775387	-1	None	None
7	None	ENSG00000266055	ENST00000583152	miRNA	NOVEL	None	None	None	None	27062156	27062295	1	None	None
X	None	ENSG00000226579	ENST00000438855	processed_pseudogene	KNOWN	None	None	None	None	69340203	69341324	-1	None	None
8	C8orf12	ENSG00000184608	ENST00000529305	processed_transcript	KNOWN	None	15548	None	None	11247933	11292510	1	None	None
8	C8orf12	ENSG00000184608	ENST00000533578	protein_coding	KNOWN	None	15548	315	104	11291429	11296167	1	None	None
8	C8orf12	ENSG00000184608	ENST00000284481	protein_coding	KNOWN	None	15548	315	104	11225911	11296166	1	None	None
6	PAK1IP1	ENSG00000111845	ENST00000379568	protein_coding	KNOWN	CCDS34339	20882	1179	392	10694928	10710015	1	None	FLJ20624, hPIP1, PIP1, bA421M1.5, MAK11, WDR84
1	SLC2A7	ENSG00000197241	ENST00000400906	protein_coding	KNOWN	CCDS98	13445	1539	512	9063359	9086404	-1	None	GLUT7
19	RNU6-841P	ENSG00000206599	ENST00000383872	snRNA	KNOWN	None	47804	None	None	50267781	50267887	-1	None	None
20	LINC00659	ENSG00000228705	ENST00000412500	antisense	KNOWN	None	44316	None	None	61405480	61406764	-1	None	None
7	TPM3P4	ENSG00000214869	ENST00000425942	processed_pseudogene	KNOWN	None	39167	None	None	27063356	27064526	1	None	None
19	None	ENSG00000269194	ENST00000600669	antisense	KNOWN	None	None	None	None	50312190	50312995	1	None	None
5	SRD5A1	ENSG00000145545	ENST00000274192	protein_coding	KNOWN	CCDS3870	11284	780	259	6633456	6669675	1	None	None
5	SRD5A1	ENSG00000145545	ENST00000510531	nonsense_mediated_decay	KNOWN	None	11284	381	126	6633540	6668962	1	None	None
5	SRD5A1	ENSG00000145545	ENST00000513117	nonsense_mediated_decay	KNOWN	None	11284	408	135	6633540	6669085	1	None	None
5	SRD5A1	ENSG00000145545	ENST00000504286	processed_transcript	KNOWN	None	11284	None	None	6633569	6653640	1	None	None
5	SRD5A1	ENSG00000145545	ENST00000538824	protein_coding	KNOWN	None	11284	639	212	6633581	6668594	1	None	None
5	SRD5A1	ENSG00000145545	ENST00000537411	protein_coding	KNOWN	None	11284	585	194	6633540	6668962	1	None	None
12	TMEM116	ENSG00000198270	ENST00000550831	protein_coding	KNOWN	CCDS9157	25084	738	245	112369086	112450929	-1	None	FLJ90167
12	TMEM116	ENSG00000198270	ENST00000355445	protein_coding	NOVEL	CCDS55886	25084	909	302	112369102	112450943	-1	None	FLJ90167
12	TMEM116	ENSG00000198270	ENST00000547878	nonsense_mediated_decay	KNOWN	None	25084	243	80	112369103	112450935	-1	None	FLJ90167
12	TMEM116	ENSG00000198270	ENST00000552374	protein_coding	KNOWN	CCDS55887	25084	1014	337	112369174	112450915	-1	None	FLJ90167
12	TMEM116	ENSG00000198270	ENST00000549537	protein_coding	PUTATIVE	None	25084	456	151	112369174	112450939	-1	None	FLJ90167
12	TMEM116	ENSG00000198270	ENST00000552801	retained_intron	KNOWN	None	25084	None	None	112369184	112450956	-1	None	FLJ90167
12	TMEM116	ENSG00000198270	ENST00000548283	retained_intron	KNOWN	None	25084	None	None	112370389	112450943	-1	None	FLJ90167
12	TMEM116	ENSG00000198270	ENST00000550800	protein_coding	PUTATIVE	None	25084	312	103	112374496	112443828	-1	None	FLJ90167
12	TMEM116	ENSG00000198270	ENST00000550037	protein_coding	KNOWN	None	25084	525	174	112374559	112443834	-1	None	FLJ90167
12	TMEM116	ENSG00000198270	ENST00000551297	nonsense_mediated_decay	KNOWN	None	25084	243	80	112374979	112450946	-1	None	FLJ90167
12	TMEM116	ENSG00000198270	ENST00000550020	retained_intron	KNOWN	None	25084	None	None	112375851	112450970	-1	None	FLJ90167
12	TMEM116	ENSG00000198270	ENST00000546537	nonsense_mediated_decay	KNOWN	None	25084	258	85	112375988	112450969	-1	None	FLJ90167
12	TMEM116	ENSG00000198270	ENST00000549425	protein_coding	KNOWN	None	25084	319	105	112381065	112443930	-1	None	FLJ90167
12	TMEM116	ENSG00000198270	ENST00000552839	processed_transcript	KNOWN	None	25084	None	None	112403396	112450969	-1	None	FLJ90167
12	TMEM116	ENSG00000198270	ENST00000546962	protein_coding	KNOWN	None	25084	224	73	112429548	112443809	-1	None	FLJ90167
12	TMEM116	ENSG00000198270	ENST00000550233	protein_coding	KNOWN	None	25084	154	50	112429618	112443789	-1	None	FLJ90167
12	TMEM116	ENSG00000198270	ENST00000552800	retained_intron	KNOWN	None	25084	None	None	112441373	112450948	-1	None	FLJ90167
12	TMEM116	ENSG00000198270	ENST00000354825	protein_coding	KNOWN	CCDS9157	25084	738	245	112369103	112450935	-1	None	FLJ90167
12	TMEM116	ENSG00000198270	ENST00000437003	protein_coding	KNOWN	CCDS9157	25084	738	245	112369107	112450915	-1	None	FLJ90167
19	PTOV1-AS1	ENSG00000268006	ENST00000596521	antisense	KNOWN	None	44174	None	None	50341896	50354933	-1	None	None
19	PTOV1-AS1	ENSG00000268006	ENST00000600742	antisense	KNOWN	None	44174	None	None	50342484	50354314	-1	None	None
15	None	ENSG00000259430	ENST00000560718	antisense	KNOWN	None	None	None	None	100913144	100948992	1	None	None
15	None	ENSG00000259430	ENST00000560643	antisense	KNOWN	None	None	None	None	100940080	100978119	1	None	None
19	None	ENSG00000268047	ENST00000601211	antisense	KNOWN	None	None	None	None	50356144	50358224	-1	None	None
14	TRAJ49	ENSG00000211840	ENST00000390488	TR_J_gene	KNOWN	None	12080	56	17	22958476	22958531	1	None	None
11	None	ENSG00000254941	ENST00000533974	processed_pseudogene	KNOWN	None	None	None	None	124677718	124678165	-1	None	None
19	MIR4749	ENSG00000265954	ENST00000578197	miRNA	KNOWN	None	41760	None	None	50357848	50357908	1	None	hsa-mir-4749
15	None	ENSG00000270127	ENST00000602585	lincRNA	KNOWN	None	None	None	None	101087972	101090358	-1	None	None
7	None	ENSG00000237606	ENST00000431233	processed_pseudogene	KNOWN	None	None	None	None	104466783	104467243	1	None	None
1	ID3	ENSG00000117318	ENST00000374561	protein_coding	KNOWN	CCDS237	5362	360	119	23884409	23886285	-1	None	HEIR-1, bHLHb25
1	ID3	ENSG00000117318	ENST00000463312	processed_transcript	KNOWN	None	5362	None	None	23884425	23885566	-1	None	HEIR-1, bHLHb25
1	ID3	ENSG00000117318	ENST00000486541	processed_transcript	KNOWN	None	5362	None	None	23884936	23885934	-1	None	HEIR-1, bHLHb25
15	RNU6-322P	ENSG00000251819	ENST00000516010	snRNA	KNOWN	None	47285	None	None	101092025	101092127	-1	None	None
1	ADCY10	ENSG00000143199	ENST00000367851	protein_coding	KNOWN	CCDS1265	21285	4833	1610	167778882	167883340	-1	None	SAC, Sacy, SACI, HCA2, RP1-313L4.2
1	ADCY10	ENSG00000143199	ENST00000485964	processed_transcript	KNOWN	None	21285	None	None	167778883	167817727	-1	None	SAC, Sacy, SACI, HCA2, RP1-313L4.2
1	ADCY10	ENSG00000143199	ENST00000367848	protein_coding	KNOWN	None	21285	4557	1518	167778915	167883340	-1	None	SAC, Sacy, SACI, HCA2, RP1-313L4.2
1	ADCY10	ENSG00000143199	ENST00000476818	protein_coding	PUTATIVE	None	21285	222	73	167873848	167883327	-1	None	SAC, Sacy, SACI, HCA2, RP1-313L4.2
1	ADCY10	ENSG00000143199	ENST00000545172	protein_coding	KNOWN	CCDS53426	21285	4374	1457	167778625	167883453	-1	None	SAC, Sacy, SACI, HCA2, RP1-313L4.2
19	PRKCSH	ENSG00000130175	ENST00000591462	protein_coding	KNOWN	CCDS45977	9411	1578	525	11546109	11561780	1	G19P1	None
19	PRKCSH	ENSG00000130175	ENST00000591946	protein_coding	KNOWN	None	9411	186	61	11546222	11547316	1	G19P1	None
19	PRKCSH	ENSG00000130175	ENST00000589126	protein_coding	KNOWN	None	9411	505	167	11546440	11553237	1	G19P1	None
19	PRKCSH	ENSG00000130175	ENST00000588269	protein_coding	NOVEL	None	9411	397	131	11546445	11548705	1	G19P1	None
19	PRKCSH	ENSG00000130175	ENST00000587509	protein_coding	KNOWN	None	9411	422	139	11546448	11552126	1	G19P1	None
19	PRKCSH	ENSG00000130175	ENST00000593104	processed_transcript	KNOWN	None	9411	None	None	11546451	11551920	1	G19P1	None
19	PRKCSH	ENSG00000130175	ENST00000593053	processed_transcript	KNOWN	None	9411	None	None	11546453	11552067	1	G19P1	None
19	PRKCSH	ENSG00000130175	ENST00000592741	protein_coding	NOVEL	None	9411	1608	535	11546456	11561783	1	G19P1	None
19	PRKCSH	ENSG00000130175	ENST00000593101	protein_coding	KNOWN	None	9411	432	143	11546561	11552136	1	G19P1	None
19	PRKCSH	ENSG00000130175	ENST00000587327	protein_coding	KNOWN	CCDS45977	9411	1578	525	11546566	11561682	1	G19P1	None
19	PRKCSH	ENSG00000130175	ENST00000589838	protein_coding	KNOWN	CCDS32911	9411	1587	528	11546939	11561755	1	G19P1	None
19	PRKCSH	ENSG00000130175	ENST00000589990	retained_intron	KNOWN	None	9411	None	None	11553222	11556661	1	G19P1	None
19	PRKCSH	ENSG00000130175	ENST00000585325	retained_intron	KNOWN	None	9411	None	None	11557131	11558833	1	G19P1	None
19	PRKCSH	ENSG00000130175	ENST00000592445	retained_intron	KNOWN	None	9411	None	None	11557880	11558755	1	G19P1	None
19	PRKCSH	ENSG00000130175	ENST00000585540	retained_intron	KNOWN	None	9411	None	None	11557936	11559220	1	G19P1	None
19	PRKCSH	ENSG00000130175	ENST00000586486	nonsense_mediated_decay	KNOWN	None	9411	603	200	11558380	11561783	1	G19P1	None
19	PRKCSH	ENSG00000130175	ENST00000587290	retained_intron	KNOWN	None	9411	None	None	11558749	11560237	1	G19P1	None
19	PRKCSH	ENSG00000130175	ENST00000590098	retained_intron	KNOWN	None	9411	None	None	11558813	11559978	1	G19P1	None
19	PRKCSH	ENSG00000130175	ENST00000592435	retained_intron	KNOWN	None	9411	None	None	11559352	11560083	1	G19P1	None
19	PRKCSH	ENSG00000130175	ENST00000591510	processed_transcript	KNOWN	None	9411	None	None	11560594	11561782	1	G19P1	None
19	PRKCSH	ENSG00000130175	ENST00000252455	protein_coding	KNOWN	CCDS32911	9411	1587	528	11546269	11561783	1	G19P1	None
19	PRKCSH	ENSG00000130175	ENST00000412601	protein_coding	KNOWN	CCDS45977	9411	1578	525	11546269	11561783	1	G19P1	None
7	NHP2P2	ENSG00000213786	ENST00000396362	processed_pseudogene	KNOWN	None	22797	None	None	27087788	27088247	1	None	TCAG_30283
15	PRKXP1	ENSG00000259205	ENST00000561423	processed_pseudogene	KNOWN	None	9442	None	None	101093734	101099159	-1	None	None
7	RN7SL8P	ENSG00000243352	ENST00000461771	misc_RNA	KNOWN	None	10043	None	None	104552364	104552644	1	RN7SLP5, RN7SL433P	7L63
7	ZNRF2	ENSG00000180233	ENST00000323037	protein_coding	KNOWN	CCDS5426	22316	729	242	30323923	30407308	1	None	RNF202
7	ZNRF2	ENSG00000180233	ENST00000459998	processed_transcript	KNOWN	None	22316	None	None	30325190	30328609	1	None	RNF202
7	ZNRF2	ENSG00000180233	ENST00000442800	nonsense_mediated_decay	KNOWN	None	22316	35	10	30402016	30452118	1	None	RNF202
7	ZNRF2	ENSG00000180233	ENST00000414621	processed_transcript	PUTATIVE	None	22316	None	None	30430524	30451991	1	None	RNF202
7	None	ENSG00000225329	ENST00000453666	lincRNA	KNOWN	None	None	None	None	104558007	104567077	-1	None	None
19	None	ENSG00000269352	ENST00000593654	antisense	KNOWN	None	None	None	None	50360227	50362546	-1	None	None
19	None	ENSG00000269352	ENST00000601893	antisense	KNOWN	None	None	None	None	50361411	50362544	-1	None	None
19	None	ENSG00000269352	ENST00000599259	antisense	KNOWN	None	None	None	None	50361552	50362283	-1	None	None
22	None	ENSG00000264718	ENST00000582098	miRNA	NOVEL	None	None	None	None	21011322	21011403	1	None	None
15	None	ENSG00000259540	ENST00000559349	antisense	KNOWN	None	None	None	None	101098882	101100003	1	None	None
15	None	ENSG00000259540	ENST00000557839	antisense	KNOWN	None	None	None	None	101098896	101100003	1	None	None
11	None	ENSG00000215942	ENST00000401123	miRNA	NOVEL	None	None	None	None	124712964	124713043	-1	None	None
7	None	ENSG00000237513	ENST00000415513	processed_transcript	PUTATIVE	None	None	None	None	104581510	104602507	1	None	None
7	None	ENSG00000237513	ENST00000417026	processed_transcript	KNOWN	None	None	None	None	104581653	104602781	1	None	None
22	EIF3D	ENSG00000100353	ENST00000216190	protein_coding	KNOWN	CCDS13930	3278	1647	548	36906897	36925483	-1	EIF3S7	eIF3-p66, eIF3-zeta, eIF3d
22	EIF3D	ENSG00000100353	ENST00000478547	processed_transcript	KNOWN	None	3278	None	None	36906903	36907688	-1	EIF3S7	eIF3-p66, eIF3-zeta, eIF3d
22	EIF3D	ENSG00000100353	ENST00000462641	processed_transcript	KNOWN	None	3278	None	None	36906915	36908976	-1	EIF3S7	eIF3-p66, eIF3-zeta, eIF3d
22	EIF3D	ENSG00000100353	ENST00000405442	protein_coding	KNOWN	CCDS13930	3278	1647	548	36906946	36924944	-1	EIF3S7	eIF3-p66, eIF3-zeta, eIF3d
22	EIF3D	ENSG00000100353	ENST00000426531	protein_coding	PUTATIVE	None	3278	518	171	36907624	36912978	-1	EIF3S7	eIF3-p66, eIF3-zeta, eIF3d
22	EIF3D	ENSG00000100353	ENST00000458572	protein_coding	PUTATIVE	None	3278	496	164	36907748	36915548	-1	EIF3S7	eIF3-p66, eIF3-zeta, eIF3d
22	EIF3D	ENSG00000100353	ENST00000462794	processed_transcript	KNOWN	None	3278	None	None	36912110	36912970	-1	EIF3S7	eIF3-p66, eIF3-zeta, eIF3d
22	EIF3D	ENSG00000100353	ENST00000455547	protein_coding	KNOWN	None	3278	809	268	36914860	36925213	-1	EIF3S7	eIF3-p66, eIF3-zeta, eIF3d
22	EIF3D	ENSG00000100353	ENST00000457241	protein_coding	KNOWN	None	3278	521	172	36916680	36925124	-1	EIF3S7	eIF3-p66, eIF3-zeta, eIF3d
22	EIF3D	ENSG00000100353	ENST00000432675	protein_coding	KNOWN	None	3278	559	185	36919162	36925231	-1	EIF3S7	eIF3-p66, eIF3-zeta, eIF3d
22	EIF3D	ENSG00000100353	ENST00000402116	protein_coding	KNOWN	None	3278	371	122	36919963	36924989	-1	EIF3S7	eIF3-p66, eIF3-zeta, eIF3d
22	EIF3D	ENSG00000100353	ENST00000496875	retained_intron	KNOWN	None	3278	None	None	36920742	36925220	-1	EIF3S7	eIF3-p66, eIF3-zeta, eIF3d
22	EIF3D	ENSG00000100353	ENST00000541106	protein_coding	KNOWN	None	3278	1500	499	36906904	36925213	-1	EIF3S7	eIF3-p66, eIF3-zeta, eIF3d
17	None	ENSG00000258472	ENST00000481916	nonsense_mediated_decay	KNOWN	None	None	516	171	26782770	26941201	-1	None	None
17	None	ENSG00000258472	ENST00000580377	retained_intron	KNOWN	None	None	None	None	26904588	26905448	-1	None	None
17	None	ENSG00000258472	ENST00000582175	retained_intron	KNOWN	None	None	None	None	26904588	26905753	-1	None	None
17	None	ENSG00000258472	ENST00000582076	protein_coding	PUTATIVE	None	None	556	184	26904598	26906424	-1	None	None
17	None	ENSG00000258472	ENST00000580676	retained_intron	KNOWN	None	None	None	None	26904621	26906270	-1	None	None
17	None	ENSG00000258472	ENST00000581133	retained_intron	KNOWN	None	None	None	None	26905395	26907104	-1	None	None
17	None	ENSG00000258472	ENST00000580682	retained_intron	KNOWN	None	None	None	None	26906178	26907189	-1	None	None
17	None	ENSG00000258472	ENST00000577259	retained_intron	KNOWN	None	None	None	None	26906227	26910644	-1	None	None
17	None	ENSG00000258472	ENST00000580406	retained_intron	KNOWN	None	None	None	None	26906418	26907790	-1	None	None
17	None	ENSG00000258472	ENST00000578230	nonsense_mediated_decay	KNOWN	None	None	174	57	26906834	26910636	-1	None	None
17	None	ENSG00000258472	ENST00000580083	nonsense_mediated_decay	KNOWN	None	None	390	129	26907027	26913016	-1	None	None
17	None	ENSG00000258472	ENST00000531839	protein_coding	PUTATIVE	None	None	1009	335	26907030	26941203	-1	None	None
17	None	ENSG00000258472	ENST00000584206	protein_coding	NOVEL	None	None	715	237	26911444	26918771	-1	None	None
17	None	ENSG00000258472	ENST00000584196	nonsense_mediated_decay	KNOWN	None	None	516	171	26930488	26941215	-1	None	None
17	None	ENSG00000258472	ENST00000577790	protein_coding	PUTATIVE	None	None	369	122	26932064	26941199	-1	None	None
17	None	ENSG00000258472	ENST00000534850	protein_coding	KNOWN	None	None	516	171	26934982	26941211	-1	None	None
22	ABHD17AP4	ENSG00000229107	ENST00000411545	processed_pseudogene	KNOWN	None	34042	None	None	21022124	21025272	-1	FAM108A5, FAM108A5P	None
20	OGFR-AS1	ENSG00000229873	ENST00000431361	antisense	KNOWN	None	40724	None	None	61431979	61436939	-1	None	None
11	None	ENSG00000254568	ENST00000524453	antisense	KNOWN	None	None	None	None	124753587	124757685	1	None	None
16	CYB5B	ENSG00000103018	ENST00000512062	protein_coding	KNOWN	None	24374	441	146	69458428	69500169	1	None	CYB5-M
16	CYB5B	ENSG00000103018	ENST00000514123	retained_intron	KNOWN	None	24374	None	None	69458522	69484141	1	None	CYB5-M
16	CYB5B	ENSG00000103018	ENST00000515314	protein_coding	NOVEL	None	24374	396	131	69458581	69497681	1	None	CYB5-M
16	CYB5B	ENSG00000103018	ENST00000561792	protein_coding	PUTATIVE	None	24374	423	140	69458583	69496821	1	None	CYB5-M
16	CYB5B	ENSG00000103018	ENST00000568237	protein_coding	PUTATIVE	None	24374	195	64	69458686	69496805	1	None	CYB5-M
16	CYB5B	ENSG00000103018	ENST00000568342	retained_intron	KNOWN	None	24374	None	None	69458752	69493475	1	None	CYB5-M
16	CYB5B	ENSG00000103018	ENST00000307892	protein_coding	KNOWN	CCDS10880	24374	453	150	69458498	69500167	1	None	CYB5-M
7	None	ENSG00000228393	ENST00000450686	antisense	KNOWN	None	None	None	None	104590762	104653491	-1	None	None
7	None	ENSG00000228393	ENST00000445184	antisense	KNOWN	None	None	None	None	104622546	104653471	-1	None	None
5	HMGB1P21	ENSG00000248909	ENST00000502313	processed_pseudogene	KNOWN	None	39106	None	None	77940088	77940668	-1	None	None
7	None	ENSG00000251911	ENST00000516102	snoRNA	NOVEL	None	None	None	None	104611734	104611805	1	None	None
15	None	ENSG00000259302	ENST00000558652	unprocessed_pseudogene	KNOWN	None	None	None	None	85048694	85048726	1	None	None
8	CYHR1	ENSG00000187954	ENST00000528663	retained_intron	KNOWN	None	17806	None	None	145674965	145683024	-1	None	CHRP, KIAA0496, MGC13010
8	CYHR1	ENSG00000187954	ENST00000438911	protein_coding	KNOWN	CCDS47943	17806	1089	362	145674965	145690418	-1	None	CHRP, KIAA0496, MGC13010
8	CYHR1	ENSG00000187954	ENST00000530374	protein_coding	PUTATIVE	None	17806	1215	404	145675314	145688244	-1	None	CHRP, KIAA0496, MGC13010
8	CYHR1	ENSG00000187954	ENST00000526887	protein_coding	PUTATIVE	None	17806	739	245	145675959	145690813	-1	None	CHRP, KIAA0496, MGC13010
8	CYHR1	ENSG00000187954	ENST00000533173	retained_intron	KNOWN	None	17806	None	None	145676503	145683311	-1	None	CHRP, KIAA0496, MGC13010
8	CYHR1	ENSG00000187954	ENST00000528558	retained_intron	KNOWN	None	17806	None	None	145677419	145687798	-1	None	CHRP, KIAA0496, MGC13010
8	CYHR1	ENSG00000187954	ENST00000403000	protein_coding	PUTATIVE	CCDS6426	17806	579	192	145689200	145690872	-1	None	CHRP, KIAA0496, MGC13010
8	CYHR1	ENSG00000187954	ENST00000424149	protein_coding	PUTATIVE	CCDS6426	17806	579	192	145689200	145691031	-1	None	CHRP, KIAA0496, MGC13010
8	CYHR1	ENSG00000187954	ENST00000306145	protein_coding	KNOWN	CCDS6426	17806	579	192	145689200	145691060	-1	None	CHRP, KIAA0496, MGC13010
8	CYHR1	ENSG00000187954	ENST00000533764	protein_coding	PUTATIVE	None	17806	431	142	145689658	145690817	-1	None	CHRP, KIAA0496, MGC13010
8	CYHR1	ENSG00000187954	ENST00000530637	protein_coding	PUTATIVE	None	17806	128	41	145689961	145691050	-1	None	CHRP, KIAA0496, MGC13010
8	CYHR1	ENSG00000187954	ENST00000524623	retained_intron	KNOWN	None	17806	None	None	145689964	145690811	-1	None	CHRP, KIAA0496, MGC13010
7	None	ENSG00000239569	ENST00000453677	antisense	KNOWN	None	None	None	None	104653872	104654768	-1	None	None
7	None	ENSG00000239569	ENST00000585013	miRNA	KNOWN	None	None	None	None	104654599	104654646	-1	None	None
5	None	ENSG00000254170	ENST00000519121	processed_pseudogene	KNOWN	None	None	None	None	78004557	78011905	-1	None	None
1	MDS2	ENSG00000197880	ENST00000477916	processed_transcript	KNOWN	None	29633	None	None	23907985	23967058	1	None	None
1	MDS2	ENSG00000197880	ENST00000374555	protein_coding	KNOWN	None	29633	423	140	23953824	23967058	1	None	None
11	NAT10	ENSG00000135372	ENST00000257829	protein_coding	KNOWN	CCDS7889	29830	3078	1025	34127149	34168457	1	None	hALP, FLJ10774, FLJ12179, NET43, KIAA1709
11	NAT10	ENSG00000135372	ENST00000532503	processed_transcript	PUTATIVE	None	29830	None	None	34127164	34129870	1	None	hALP, FLJ10774, FLJ12179, NET43, KIAA1709
11	NAT10	ENSG00000135372	ENST00000531159	protein_coding	KNOWN	CCDS44568	29830	2862	953	34127164	34168121	1	None	hALP, FLJ10774, FLJ12179, NET43, KIAA1709
11	NAT10	ENSG00000135372	ENST00000531723	processed_transcript	KNOWN	None	29830	None	None	34127576	34130380	1	None	hALP, FLJ10774, FLJ12179, NET43, KIAA1709
11	NAT10	ENSG00000135372	ENST00000529523	protein_coding	PUTATIVE	None	29830	437	144	34127586	34135327	1	None	hALP, FLJ10774, FLJ12179, NET43, KIAA1709
11	NAT10	ENSG00000135372	ENST00000527971	protein_coding	NOVEL	None	29830	867	288	34129756	34168455	1	None	hALP, FLJ10774, FLJ12179, NET43, KIAA1709
11	NAT10	ENSG00000135372	ENST00000530017	processed_transcript	PUTATIVE	None	29830	None	None	34160419	34161058	1	None	hALP, FLJ10774, FLJ12179, NET43, KIAA1709
11	NAT10	ENSG00000135372	ENST00000532555	processed_transcript	KNOWN	None	29830	None	None	34163534	34167799	1	None	hALP, FLJ10774, FLJ12179, NET43, KIAA1709
11	NAT10	ENSG00000135372	ENST00000534509	processed_transcript	PUTATIVE	None	29830	None	None	34168267	34169217	1	None	hALP, FLJ10774, FLJ12179, NET43, KIAA1709
12	None	ENSG00000258111	ENST00000548397	processed_pseudogene	KNOWN	None	None	None	None	104907807	104908217	1	None	None
7	None	ENSG00000270764	ENST00000603744	processed_pseudogene	KNOWN	None	None	None	None	104829637	104830261	1	None	None
HSCHR6_MHC_COX	None	ENSG00000264202	ENST00000577237	snoRNA	KNOWN	None	None	None	None	31790412	31790474	1	None	None
14	TRAJ48	ENSG00000211841	ENST00000390489	TR_J_gene	KNOWN	None	12079	63	20	22959479	22959541	1	None	None
HSCHR6_MHC_COX	None	ENSG00000263362	ENST00000583541	snoRNA	KNOWN	None	None	None	None	31792223	31792289	1	None	None
7	None	ENSG00000271482	ENST00000604391	processed_pseudogene	KNOWN	None	None	None	None	104845047	104845306	1	None	None
15	GOLGA6L5	ENSG00000230373	ENST00000414190	processed_transcript	KNOWN	None	30472	None	None	85051116	85054699	-1	None	FLJ35171, FLJ40113, GOLGA6L8
15	GOLGA6L5	ENSG00000230373	ENST00000515341	transcribed_unprocessed_pseudogene	KNOWN	None	30472	None	None	85053157	85060016	-1	None	FLJ35171, FLJ40113, GOLGA6L8
15	GOLGA6L5	ENSG00000230373	ENST00000559768	processed_transcript	KNOWN	None	30472	None	None	85055949	85060045	-1	None	FLJ35171, FLJ40113, GOLGA6L8
10	RNA5SP308	ENSG00000199402	ENST00000362532	rRNA	KNOWN	None	43208	None	None	29163322	29163436	-1	RN5S308	None
7	None	ENSG00000213361	ENST00000393647	processed_pseudogene	KNOWN	None	None	None	None	104885099	104885417	1	None	None
5	EMB	ENSG00000170571	ENST00000303221	protein_coding	KNOWN	CCDS3953	30465	984	327	49692026	49737201	-1	None	MGC71745
5	EMB	ENSG00000170571	ENST00000505896	retained_intron	KNOWN	None	30465	None	None	49693861	49707832	-1	None	MGC71745
5	EMB	ENSG00000170571	ENST00000508934	protein_coding	NOVEL	None	30465	822	273	49694511	49737184	-1	None	MGC71745
5	EMB	ENSG00000170571	ENST00000514111	protein_coding	PUTATIVE	None	30465	834	277	49694773	49724561	-1	None	MGC71745
5	EMB	ENSG00000170571	ENST00000506190	processed_transcript	KNOWN	None	30465	None	None	49699090	49739082	-1	None	MGC71745
HSCHR6_MHC_COX	None	ENSG00000223557	ENST00000448488	processed_transcript	PUTATIVE	None	None	None	None	31839088	31839381	1	None	None
7	RWDD4P1	ENSG00000244490	ENST00000488019	processed_pseudogene	KNOWN	None	23753	None	None	104941969	104942533	1	FAM28BP	None
10	None	ENSG00000229605	ENST00000480465	processed_pseudogene	KNOWN	None	None	None	None	29187925	29188413	-1	None	None
10	None	ENSG00000229605	ENST00000395291	processed_pseudogene	KNOWN	None	None	None	None	29187931	29188422	-1	None	None
2	CNTNAP5	ENSG00000155052	ENST00000423939	processed_transcript	PUTATIVE	None	18748	None	None	124782864	124892758	1	None	caspr5, FLJ31966
2	CNTNAP5	ENSG00000155052	ENST00000431078	protein_coding	KNOWN	CCDS46401	18748	3921	1306	124782864	125672864	1	None	caspr5, FLJ31966
2	CNTNAP5	ENSG00000155052	ENST00000470921	retained_intron	KNOWN	None	18748	None	None	124979282	125000018	1	None	caspr5, FLJ31966
7	None	ENSG00000242154	ENST00000476569	antisense	KNOWN	None	None	None	None	104944724	104947089	1	None	None
11	None	ENSG00000203306	ENST00000354617	pseudogene	NOVEL	None	None	None	None	124958377	124960411	1	None	None
16	RPS2P44	ENSG00000243609	ENST00000478038	processed_pseudogene	KNOWN	None	35811	None	None	48611435	48612280	-1	None	None
10	INPP5A	ENSG00000068383	ENST00000368594	protein_coding	KNOWN	CCDS7669	6076	1239	412	134351324	134596979	1	None	5PTASE
10	INPP5A	ENSG00000068383	ENST00000368593	protein_coding	KNOWN	None	6076	1164	387	134351353	134591381	1	None	5PTASE
10	INPP5A	ENSG00000068383	ENST00000423490	protein_coding	NOVEL	None	6076	416	137	134351643	134523960	1	None	5PTASE
10	INPP5A	ENSG00000068383	ENST00000342652	protein_coding	KNOWN	None	6076	832	276	134421430	134591286	1	None	5PTASE
10	INPP5A	ENSG00000068383	ENST00000487614	processed_transcript	KNOWN	None	6076	None	None	134503896	134540853	1	None	5PTASE
10	INPP5A	ENSG00000068383	ENST00000498337	processed_transcript	KNOWN	None	6076	None	None	134523852	134567476	1	None	5PTASE
10	INPP5A	ENSG00000068383	ENST00000445580	protein_coding	KNOWN	None	6076	315	104	134579328	134595909	1	None	5PTASE
7	RNU6-1322P	ENSG00000201179	ENST00000364309	snRNA	KNOWN	None	48285	None	None	104973237	104973343	1	None	None
10	None	ENSG00000224023	ENST00000527483	lincRNA	KNOWN	None	None	None	None	127389005	127408029	-1	None	None
10	None	ENSG00000224023	ENST00000419400	lincRNA	KNOWN	None	None	None	None	127389006	127396118	-1	None	None
10	None	ENSG00000224023	ENST00000423178	lincRNA	KNOWN	None	None	None	None	127393859	127408135	-1	None	None
10	None	ENSG00000224023	ENST00000528844	lincRNA	KNOWN	None	None	None	None	127395806	127408115	-1	None	None
10	None	ENSG00000224023	ENST00000525909	lincRNA	KNOWN	None	None	None	None	127395871	127408093	-1	None	None
10	None	ENSG00000224023	ENST00000531977	lincRNA	KNOWN	None	None	None	None	127397575	127408017	-1	None	None
10	None	ENSG00000224023	ENST00000601555	lincRNA	KNOWN	None	None	None	None	127389006	127396253	-1	None	None
7	None	ENSG00000223886	ENST00000493920	processed_pseudogene	KNOWN	None	None	None	None	105170656	105171118	1	None	None
16	None	ENSG00000260033	ENST00000564321	processed_pseudogene	KNOWN	None	None	None	None	48634087	48634555	1	None	None
20	DPH3P1	ENSG00000233838	ENST00000486648	processed_pseudogene	KNOWN	None	16136	None	None	61477016	61477264	1	C20orf143, ZCSL1, DPH3B	dJ885L7.5
20	DPH3P1	ENSG00000233838	ENST00000502378	processed_pseudogene	KNOWN	None	16136	None	None	61476490	61477543	1	C20orf143, ZCSL1, DPH3B	dJ885L7.5
HSCHR6_MHC_COX	C4B-AS1	ENSG00000227884	ENST00000449837	processed_transcript	PUTATIVE	None	39752	None	None	31889778	31897053	-1	None	None
16	NDRG4	ENSG00000103034	ENST00000568999	protein_coding	KNOWN	None	14466	468	155	58496750	58538553	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000564207	protein_coding	KNOWN	None	14466	461	152	58497274	58538546	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000562764	nonsense_mediated_decay	KNOWN	None	14466	123	40	58497535	58538162	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000258187	protein_coding	KNOWN	CCDS10797	14466	1116	371	58497569	58547532	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000569404	protein_coding	NOVEL	None	14466	473	156	58497608	58538301	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000569539	protein_coding	PUTATIVE	None	14466	386	127	58497614	58540850	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000564126	protein_coding	NOVEL	None	14466	597	198	58497617	58540365	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000562725	processed_transcript	KNOWN	None	14466	None	None	58497620	58540860	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000565304	protein_coding	KNOWN	None	14466	435	144	58497627	58538565	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000567667	protein_coding	KNOWN	None	14466	448	148	58497629	58538533	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000394282	protein_coding	KNOWN	CCDS45500	14466	1176	391	58497928	58547523	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000566065	processed_transcript	KNOWN	None	14466	None	None	58498186	58537780	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000564867	nonsense_mediated_decay	KNOWN	None	14466	138	45	58498186	58538158	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000567454	protein_coding	NOVEL	None	14466	461	152	58498186	58538181	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000569578	processed_transcript	KNOWN	None	14466	None	None	58498205	58533302	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000421602	retained_intron	KNOWN	None	14466	None	None	58498205	58547317	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000561779	protein_coding	NOVEL	None	14466	460	152	58498208	58538144	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000565430	protein_coding	KNOWN	None	14466	335	110	58498210	58538169	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000567063	protein_coding	PUTATIVE	None	14466	252	83	58498210	58540335	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000566041	protein_coding	KNOWN	None	14466	117	38	58498217	58528912	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000566061	nonsense_mediated_decay	KNOWN	None	14466	198	65	58498222	58545364	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000565434	protein_coding	KNOWN	None	14466	426	141	58498678	58538511	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000564486	protein_coding	PUTATIVE	None	14466	519	172	58498946	58538565	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000561724	protein_coding	KNOWN	None	14466	452	149	58506091	58538537	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000561720	retained_intron	KNOWN	None	14466	None	None	58529360	58541101	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000566192	protein_coding	KNOWN	CCDS58467	14466	1020	339	58533951	58547523	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000565088	protein_coding	NOVEL	None	14466	431	142	58533994	58538522	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000568640	protein_coding	PUTATIVE	CCDS58465	14466	1074	357	58534011	58545545	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000563317	retained_intron	KNOWN	None	14466	None	None	58534047	58535299	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000568464	nonsense_mediated_decay	KNOWN	None	14466	192	63	58534047	58538158	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000563022	processed_transcript	KNOWN	None	14466	None	None	58534047	58538163	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000562930	nonsense_mediated_decay	KNOWN	None	14466	117	38	58534047	58538289	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000563978	protein_coding	PUTATIVE	None	14466	251	82	58534047	58540313	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000569923	protein_coding	PUTATIVE	None	14466	855	284	58534047	58545574	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000356752	protein_coding	NOVEL	CCDS55999	14466	1110	369	58534047	58545639	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000563799	protein_coding	KNOWN	None	14466	1074	357	58534047	58547314	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000562999	protein_coding	PUTATIVE	None	14466	984	327	58534047	58547321	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000570248	protein_coding	KNOWN	CCDS58466	14466	1059	352	58534047	58547522	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000562731	protein_coding	PUTATIVE	None	14466	106	34	58534049	58538285	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000566585	retained_intron	KNOWN	None	14466	None	None	58534049	58538637	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000564960	retained_intron	KNOWN	None	14466	None	None	58534049	58540339	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000568424	protein_coding	PUTATIVE	None	14466	57	18	58534050	58538096	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000566656	protein_coding	PUTATIVE	None	14466	194	63	58535372	58538540	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000566618	protein_coding	PUTATIVE	None	14466	327	108	58535407	58540494	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000561738	protein_coding	PUTATIVE	None	14466	573	190	58537737	58541723	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000565981	retained_intron	KNOWN	None	14466	None	None	58539893	58547317	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000568005	retained_intron	KNOWN	None	14466	None	None	58540025	58541866	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000569026	protein_coding	PUTATIVE	None	14466	464	153	58540286	58545462	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000561681	retained_intron	KNOWN	None	14466	None	None	58540828	58545462	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000569408	protein_coding	PUTATIVE	None	14466	244	80	58540884	58545836	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000562350	retained_intron	KNOWN	None	14466	None	None	58541403	58543081	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000561730	retained_intron	KNOWN	None	14466	None	None	58541632	58543293	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000566265	retained_intron	KNOWN	None	14466	None	None	58543053	58547319	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000563209	retained_intron	KNOWN	None	14466	None	None	58544615	58547314	1	None	KIAA1180, SMAP-8
16	NDRG4	ENSG00000103034	ENST00000394279	protein_coding	KNOWN	CCDS10797	14466	1116	371	58498765	58547522	1	None	KIAA1180, SMAP-8
4	SLC7A11	ENSG00000151012	ENST00000280612	protein_coding	KNOWN	CCDS3742	11059	1506	501	139085251	139163503	-1	None	xCT
4	SLC7A11	ENSG00000151012	ENST00000509248	nonsense_mediated_decay	KNOWN	None	11059	228	75	139092998	139144398	-1	None	xCT
7	YBX1P2	ENSG00000231167	ENST00000489612	processed_pseudogene	KNOWN	None	22635	None	None	105222705	105223703	-1	None	TCAG_1818537
7	CADPS2	ENSG00000081803	ENST00000462699	protein_coding	KNOWN	None	16018	1472	489	121959453	122078430	-1	None	None
7	CADPS2	ENSG00000081803	ENST00000412584	protein_coding	KNOWN	CCDS47691	16018	3768	1255	121959800	122526512	-1	None	None
7	CADPS2	ENSG00000081803	ENST00000449022	protein_coding	KNOWN	CCDS55158	16018	3891	1296	121960057	122526411	-1	None	None
7	CADPS2	ENSG00000081803	ENST00000397721	protein_coding	KNOWN	None	16018	2698	898	121960091	122261583	-1	None	None
7	CADPS2	ENSG00000081803	ENST00000476131	processed_transcript	KNOWN	None	16018	None	None	122131472	122225815	-1	None	None
7	CADPS2	ENSG00000081803	ENST00000334010	protein_coding	KNOWN	None	16018	3885	1294	121958481	122526813	-1	None	None
7	CADPS2	ENSG00000081803	ENST00000313070	protein_coding	KNOWN	None	16018	3768	1255	121958481	122526813	-1	None	None
HSCHR6_MHC_COX	None	ENSG00000266406	ENST00000581342	miRNA	KNOWN	None	None	None	None	31912168	31912269	-1	None	None
20	RNU7-137P	ENSG00000252597	ENST00000516788	snRNA	KNOWN	None	45671	None	None	18076215	18076276	-1	None	None
1	RPL11	ENSG00000142676	ENST00000374550	protein_coding	KNOWN	CCDS238	10301	537	178	24018269	24022915	1	None	L11
1	RPL11	ENSG00000142676	ENST00000467075	processed_transcript	KNOWN	None	10301	None	None	24018325	24019249	1	None	L11
1	RPL11	ENSG00000142676	ENST00000482370	processed_transcript	KNOWN	None	10301	None	None	24018796	24022908	1	None	L11
1	RPL11	ENSG00000142676	ENST00000443624	protein_coding	KNOWN	None	10301	396	131	24019099	24021885	1	None	L11
1	RPL11	ENSG00000142676	ENST00000458455	protein_coding	KNOWN	None	10301	525	174	24019099	24022618	1	None	L11
7	ZNF746	ENSG00000181220	ENST00000340622	protein_coding	KNOWN	CCDS5897	21948	1935	644	149169885	149194908	-1	None	FLJ31413
7	ZNF746	ENSG00000181220	ENST00000471735	retained_intron	KNOWN	None	21948	None	None	149172469	149174963	-1	None	FLJ31413
7	ZNF746	ENSG00000181220	ENST00000461958	protein_coding	PUTATIVE	None	21948	564	187	149184711	149194824	-1	None	FLJ31413
7	ZNF746	ENSG00000181220	ENST00000458143	protein_coding	KNOWN	CCDS55180	21948	1938	645	149169887	149194898	-1	None	FLJ31413
12	MIR3922	ENSG00000264295	ENST00000585192	miRNA	KNOWN	None	38895	None	None	104985411	104985494	1	None	hsa-mir-3922
HSCHR6_MHC_COX	None	ENSG00000236587	ENST00000424040	processed_transcript	PUTATIVE	None	None	None	None	31948953	31952482	-1	None	None
Y	ZNF839P1	ENSG00000217896	ENST00000403487	processed_pseudogene	KNOWN	None	38455	None	None	21147061	21148284	1	None	None
7	None	ENSG00000226624	ENST00000442083	processed_pseudogene	KNOWN	None	None	None	None	105459938	105460547	1	None	None
7	DCAF13P1	ENSG00000242562	ENST00000495256	processed_pseudogene	KNOWN	None	43866	None	None	105765817	105767146	1	None	None
Y	CD24P4	ENSG00000185275	ENST00000382840	processed_pseudogene	KNOWN	None	1649	None	None	21154353	21154595	-1	CD24L4	None
20	None	ENSG00000207282	ENST00000384552	misc_RNA	NOVEL	None	None	None	None	18094111	18094223	-1	None	None
11	PPP6R3	ENSG00000110075	ENST00000530427	processed_transcript	KNOWN	None	1173	None	None	68228199	68305137	1	C11orf23, SAPS3	SAPLa, DKFZp781E2374, DKFZp781O2362, DKFZp781E17107, SAP190, SAPL, PP6R3, FLJ11058, FLJ43065, KIAA1558, MGC125711, MGC125712
11	PPP6R3	ENSG00000110075	ENST00000393800	protein_coding	KNOWN	CCDS53672	1173	2622	873	68228199	68382802	1	C11orf23, SAPS3	SAPLa, DKFZp781E2374, DKFZp781O2362, DKFZp781E17107, SAP190, SAPL, PP6R3, FLJ11058, FLJ43065, KIAA1558, MGC125711, MGC125712
11	PPP6R3	ENSG00000110075	ENST00000528635	protein_coding	KNOWN	None	1173	25	7	68228206	68305157	1	C11orf23, SAPS3	SAPLa, DKFZp781E2374, DKFZp781O2362, DKFZp781E17107, SAP190, SAPL, PP6R3, FLJ11058, FLJ43065, KIAA1558, MGC125711, MGC125712
11	PPP6R3	ENSG00000110075	ENST00000533127	protein_coding	KNOWN	None	1173	117	38	68228215	68305249	1	C11orf23, SAPS3	SAPLa, DKFZp781E2374, DKFZp781O2362, DKFZp781E17107, SAP190, SAPL, PP6R3, FLJ11058, FLJ43065, KIAA1558, MGC125711, MGC125712
11	PPP6R3	ENSG00000110075	ENST00000529907	protein_coding	PUTATIVE	None	1173	421	139	68228215	68321688	1	C11orf23, SAPS3	SAPLa, DKFZp781E2374, DKFZp781O2362, DKFZp781E17107, SAP190, SAPL, PP6R3, FLJ11058, FLJ43065, KIAA1558, MGC125711, MGC125712
11	PPP6R3	ENSG00000110075	ENST00000529344	protein_coding	KNOWN	None	1173	227	74	68228216	68305359	1	C11orf23, SAPS3	SAPLa, DKFZp781E2374, DKFZp781O2362, DKFZp781E17107, SAP190, SAPL, PP6R3, FLJ11058, FLJ43065, KIAA1558, MGC125711, MGC125712
11	PPP6R3	ENSG00000110075	ENST00000534534	protein_coding	PUTATIVE	None	1173	1926	641	68228216	68381350	1	C11orf23, SAPS3	SAPLa, DKFZp781E2374, DKFZp781O2362, DKFZp781E17107, SAP190, SAPL, PP6R3, FLJ11058, FLJ43065, KIAA1558, MGC125711, MGC125712
11	PPP6R3	ENSG00000110075	ENST00000524845	protein_coding	KNOWN	CCDS53674	1173	2535	844	68228217	68380585	1	C11orf23, SAPS3	SAPLa, DKFZp781E2374, DKFZp781O2362, DKFZp781E17107, SAP190, SAPL, PP6R3, FLJ11058, FLJ43065, KIAA1558, MGC125711, MGC125712
11	PPP6R3	ENSG00000110075	ENST00000265637	protein_coding	NOVEL	None	1173	2484	827	68228220	68382802	1	C11orf23, SAPS3	SAPLa, DKFZp781E2374, DKFZp781O2362, DKFZp781E17107, SAP190, SAPL, PP6R3, FLJ11058, FLJ43065, KIAA1558, MGC125711, MGC125712
11	PPP6R3	ENSG00000110075	ENST00000524904	protein_coding	KNOWN	CCDS53673	1173	2604	867	68228223	68382043	1	C11orf23, SAPS3	SAPLa, DKFZp781E2374, DKFZp781O2362, DKFZp781E17107, SAP190, SAPL, PP6R3, FLJ11058, FLJ43065, KIAA1558, MGC125711, MGC125712
11	PPP6R3	ENSG00000110075	ENST00000393801	protein_coding	KNOWN	CCDS53671	1173	2640	879	68228238	68382799	1	C11orf23, SAPS3	SAPLa, DKFZp781E2374, DKFZp781O2362, DKFZp781E17107, SAP190, SAPL, PP6R3, FLJ11058, FLJ43065, KIAA1558, MGC125711, MGC125712
11	PPP6R3	ENSG00000110075	ENST00000265636	protein_coding	KNOWN	CCDS8182	1173	2382	793	68228281	68382720	1	C11orf23, SAPS3	SAPLa, DKFZp781E2374, DKFZp781O2362, DKFZp781E17107, SAP190, SAPL, PP6R3, FLJ11058, FLJ43065, KIAA1558, MGC125711, MGC125712
11	PPP6R3	ENSG00000110075	ENST00000529710	protein_coding	KNOWN	CCDS53675	1173	2376	791	68228281	68382720	1	C11orf23, SAPS3	SAPLa, DKFZp781E2374, DKFZp781O2362, DKFZp781E17107, SAP190, SAPL, PP6R3, FLJ11058, FLJ43065, KIAA1558, MGC125711, MGC125712
11	PPP6R3	ENSG00000110075	ENST00000527403	protein_coding	NOVEL	None	1173	2517	838	68286974	68382778	1	C11orf23, SAPS3	SAPLa, DKFZp781E2374, DKFZp781O2362, DKFZp781E17107, SAP190, SAPL, PP6R3, FLJ11058, FLJ43065, KIAA1558, MGC125711, MGC125712
11	PPP6R3	ENSG00000110075	ENST00000525050	retained_intron	KNOWN	None	1173	None	None	68287031	68318687	1	C11orf23, SAPS3	SAPLa, DKFZp781E2374, DKFZp781O2362, DKFZp781E17107, SAP190, SAPL, PP6R3, FLJ11058, FLJ43065, KIAA1558, MGC125711, MGC125712
11	PPP6R3	ENSG00000110075	ENST00000527069	retained_intron	KNOWN	None	1173	None	None	68287103	68318688	1	C11orf23, SAPS3	SAPLa, DKFZp781E2374, DKFZp781O2362, DKFZp781E17107, SAP190, SAPL, PP6R3, FLJ11058, FLJ43065, KIAA1558, MGC125711, MGC125712
11	PPP6R3	ENSG00000110075	ENST00000531244	protein_coding	KNOWN	None	1173	559	185	68302879	68318595	1	C11orf23, SAPS3	SAPLa, DKFZp781E2374, DKFZp781O2362, DKFZp781E17107, SAP190, SAPL, PP6R3, FLJ11058, FLJ43065, KIAA1558, MGC125711, MGC125712
11	PPP6R3	ENSG00000110075	ENST00000529172	retained_intron	KNOWN	None	1173	None	None	68305284	68318687	1	C11orf23, SAPS3	SAPLa, DKFZp781E2374, DKFZp781O2362, DKFZp781E17107, SAP190, SAPL, PP6R3, FLJ11058, FLJ43065, KIAA1558, MGC125711, MGC125712
11	PPP6R3	ENSG00000110075	ENST00000531432	retained_intron	KNOWN	None	1173	None	None	68325664	68331875	1	C11orf23, SAPS3	SAPLa, DKFZp781E2374, DKFZp781O2362, DKFZp781E17107, SAP190, SAPL, PP6R3, FLJ11058, FLJ43065, KIAA1558, MGC125711, MGC125712
11	PPP6R3	ENSG00000110075	ENST00000534190	protein_coding	NOVEL	None	1173	1743	580	68326110	68380822	1	C11orf23, SAPS3	SAPLa, DKFZp781E2374, DKFZp781O2362, DKFZp781E17107, SAP190, SAPL, PP6R3, FLJ11058, FLJ43065, KIAA1558, MGC125711, MGC125712
11	PPP6R3	ENSG00000110075	ENST00000526574	retained_intron	KNOWN	None	1173	None	None	68331892	68338684	1	C11orf23, SAPS3	SAPLa, DKFZp781E2374, DKFZp781O2362, DKFZp781E17107, SAP190, SAPL, PP6R3, FLJ11058, FLJ43065, KIAA1558, MGC125711, MGC125712
11	PPP6R3	ENSG00000110075	ENST00000525421	nonsense_mediated_decay	KNOWN	None	1173	337	111	68338567	68363686	1	C11orf23, SAPS3	SAPLa, DKFZp781E2374, DKFZp781O2362, DKFZp781E17107, SAP190, SAPL, PP6R3, FLJ11058, FLJ43065, KIAA1558, MGC125711, MGC125712
11	PPP6R3	ENSG00000110075	ENST00000526307	retained_intron	KNOWN	None	1173	None	None	68353744	68382060	1	C11orf23, SAPS3	SAPLa, DKFZp781E2374, DKFZp781O2362, DKFZp781E17107, SAP190, SAPL, PP6R3, FLJ11058, FLJ43065, KIAA1558, MGC125711, MGC125712
11	PPP6R3	ENSG00000110075	ENST00000526593	nonsense_mediated_decay	KNOWN	None	1173	329	108	68369354	68380592	1	C11orf23, SAPS3	SAPLa, DKFZp781E2374, DKFZp781O2362, DKFZp781E17107, SAP190, SAPL, PP6R3, FLJ11058, FLJ43065, KIAA1558, MGC125711, MGC125712
11	PPP6R3	ENSG00000110075	ENST00000525152	retained_intron	KNOWN	None	1173	None	None	68377243	68380866	1	C11orf23, SAPS3	SAPLa, DKFZp781E2374, DKFZp781O2362, DKFZp781E17107, SAP190, SAPL, PP6R3, FLJ11058, FLJ43065, KIAA1558, MGC125711, MGC125712
11	PPP6R3	ENSG00000110075	ENST00000530734	protein_coding	NOVEL	None	1173	155	50	68377419	68381006	1	C11orf23, SAPS3	SAPLa, DKFZp781E2374, DKFZp781O2362, DKFZp781E17107, SAP190, SAPL, PP6R3, FLJ11058, FLJ43065, KIAA1558, MGC125711, MGC125712
11	PPP6R3	ENSG00000110075	ENST00000393799	protein_coding	KNOWN	None	1173	2640	879	68228186	68382797	1	C11orf23, SAPS3	SAPLa, DKFZp781E2374, DKFZp781O2362, DKFZp781E17107, SAP190, SAPL, PP6R3, FLJ11058, FLJ43065, KIAA1558, MGC125711, MGC125712
17	SLC25A39	ENSG00000013306	ENST00000225308	protein_coding	KNOWN	CCDS11482	24279	1056	351	42396993	42402238	-1	None	FLJ22407, CGI-69
17	SLC25A39	ENSG00000013306	ENST00000591006	retained_intron	KNOWN	None	24279	None	None	42396995	42401515	-1	None	FLJ22407, CGI-69
17	SLC25A39	ENSG00000013306	ENST00000377095	protein_coding	KNOWN	CCDS45700	24279	1080	359	42397004	42402183	-1	None	FLJ22407, CGI-69
17	SLC25A39	ENSG00000013306	ENST00000590194	protein_coding	KNOWN	CCDS11482	24279	1056	351	42397010	42402177	-1	None	FLJ22407, CGI-69
17	SLC25A39	ENSG00000013306	ENST00000586016	protein_coding	PUTATIVE	None	24279	684	227	42397041	42402150	-1	None	FLJ22407, CGI-69
17	SLC25A39	ENSG00000013306	ENST00000592372	retained_intron	KNOWN	None	24279	None	None	42397059	42398515	-1	None	FLJ22407, CGI-69
17	SLC25A39	ENSG00000013306	ENST00000593166	nonsense_mediated_decay	KNOWN	None	24279	186	61	42397188	42398892	-1	None	FLJ22407, CGI-69
17	SLC25A39	ENSG00000013306	ENST00000537904	protein_coding	NOVEL	None	24279	1011	336	42397238	42402195	-1	None	FLJ22407, CGI-69
17	SLC25A39	ENSG00000013306	ENST00000588767	protein_coding	NOVEL	None	24279	801	266	42397363	42399813	-1	None	FLJ22407, CGI-69
17	SLC25A39	ENSG00000013306	ENST00000588315	retained_intron	KNOWN	None	24279	None	None	42397997	42402195	-1	None	FLJ22407, CGI-69
17	SLC25A39	ENSG00000013306	ENST00000585695	retained_intron	KNOWN	None	24279	None	None	42398306	42402195	-1	None	FLJ22407, CGI-69
17	SLC25A39	ENSG00000013306	ENST00000588049	protein_coding	NOVEL	None	24279	493	163	42398802	42402186	-1	None	FLJ22407, CGI-69
17	SLC25A39	ENSG00000013306	ENST00000585636	protein_coding	NOVEL	None	24279	429	142	42398845	42402195	-1	None	FLJ22407, CGI-69
17	SLC25A39	ENSG00000013306	ENST00000586633	protein_coding	KNOWN	None	24279	297	98	42399790	42402190	-1	None	FLJ22407, CGI-69
17	SLC25A39	ENSG00000013306	ENST00000592857	protein_coding	KNOWN	None	24279	280	92	42399807	42402138	-1	None	FLJ22407, CGI-69
17	SLC25A39	ENSG00000013306	ENST00000591151	retained_intron	KNOWN	None	24279	None	None	42399841	42402174	-1	None	FLJ22407, CGI-69
17	SLC25A39	ENSG00000013306	ENST00000585523	protein_coding	KNOWN	None	24279	216	71	42399895	42402198	-1	None	FLJ22407, CGI-69
X	FANCB	ENSG00000181544	ENST00000324138	protein_coding	KNOWN	CCDS14161	3583	2580	859	14861529	14891191	-1	None	FAB, FLJ34064, FAAP95
X	FANCB	ENSG00000181544	ENST00000452869	protein_coding	KNOWN	None	3583	2454	817	14861815	14891174	-1	None	FAB, FLJ34064, FAAP95
X	FANCB	ENSG00000181544	ENST00000489126	retained_intron	KNOWN	None	3583	None	None	14883465	14887365	-1	None	FAB, FLJ34064, FAAP95
X	FANCB	ENSG00000181544	ENST00000398334	protein_coding	KNOWN	CCDS14161	3583	2580	859	14861529	14891184	-1	None	FAB, FLJ34064, FAAP95
7	RNU6-392P	ENSG00000201796	ENST00000364926	snRNA	KNOWN	None	47355	None	None	105848613	105848713	1	None	None
X	None	ENSG00000259977	ENST00000567273	lincRNA	KNOWN	None	None	None	None	37765400	37808658	1	None	None
7	LARP1BP2	ENSG00000243438	ENST00000486594	processed_pseudogene	KNOWN	None	44084	None	None	105955671	105956189	1	None	None
Y	RNU6-255P	ENSG00000252766	ENST00000516957	snRNA	KNOWN	None	47218	None	None	21180869	21180973	-1	None	None
19	ZNF304	ENSG00000131845	ENST00000443917	protein_coding	NOVEL	None	13505	2121	706	57862694	57870148	1	None	None
19	ZNF304	ENSG00000131845	ENST00000598744	protein_coding	PUTATIVE	None	13505	1854	617	57862694	57870148	1	None	None
19	ZNF304	ENSG00000131845	ENST00000282286	protein_coding	KNOWN	CCDS12950	13505	1980	659	57862860	57871266	1	None	None
19	ZNF304	ENSG00000131845	ENST00000391705	protein_coding	KNOWN	CCDS12950	13505	1980	659	57862675	57871266	1	None	None
Y	GAPDHP19	ENSG00000234529	ENST00000431768	processed_pseudogene	KNOWN	None	23947	None	None	21489455	21490459	1	None	None
X	None	ENSG00000224339	ENST00000428051	processed_pseudogene	KNOWN	None	None	None	None	37805137	37806028	1	None	None
16	None	ENSG00000261128	ENST00000570137	lincRNA	KNOWN	None	None	None	None	80631803	80636416	-1	None	None
10	PTCHD3P1	ENSG00000224597	ENST00000430295	antisense	KNOWN	None	44945	None	None	29698331	29747329	1	None	None
10	PTCHD3P1	ENSG00000224597	ENST00000413405	antisense	KNOWN	None	44945	None	None	29698468	29776674	1	None	None
10	PTCHD3P1	ENSG00000224597	ENST00000414457	antisense	KNOWN	None	44945	None	None	29698487	29772847	1	None	None
10	PTCHD3P1	ENSG00000224597	ENST00000427063	antisense	KNOWN	None	44945	None	None	29698501	29711301	1	None	None
10	PTCHD3P1	ENSG00000224597	ENST00000446807	antisense	KNOWN	None	44945	None	None	29698509	29772361	1	None	None
10	PTCHD3P1	ENSG00000224597	ENST00000423223	antisense	KNOWN	None	44945	None	None	29698515	29772114	1	None	None
10	PTCHD3P1	ENSG00000224597	ENST00000445521	antisense	KNOWN	None	44945	None	None	29698520	29756207	1	None	None
10	PTCHD3P1	ENSG00000224597	ENST00000438202	antisense	KNOWN	None	44945	None	None	29698531	29747716	1	None	None
10	PTCHD3P1	ENSG00000224597	ENST00000455774	antisense	KNOWN	None	44945	None	None	29699172	29758051	1	None	None
10	PTCHD3P1	ENSG00000224597	ENST00000537908	antisense	KNOWN	None	44945	None	None	29698486	29711238	1	None	None
7	None	ENSG00000243797	ENST00000490856	processed_transcript	KNOWN	None	None	None	None	106012697	106372895	-1	None	None
7	None	ENSG00000243797	ENST00000475791	processed_transcript	KNOWN	None	None	None	None	106102459	106145285	-1	None	None
7	None	ENSG00000243797	ENST00000485282	processed_transcript	KNOWN	None	None	None	None	106114318	106280354	-1	None	None
7	None	ENSG00000243797	ENST00000592441	processed_transcript	KNOWN	None	None	None	None	106130170	106410653	-1	None	None
14	TRAJ47	ENSG00000211842	ENST00000390490	TR_J_gene	KNOWN	None	12078	57	18	22961838	22961894	1	None	None
20	None	ENSG00000251713	ENST00000515904	miRNA	NOVEL	None	None	None	None	18150549	18150633	-1	None	None
X	FGF13	ENSG00000129682	ENST00000315930	protein_coding	KNOWN	CCDS14665	3670	738	245	137713735	137793827	-1	None	FHF2, FGF2
X	FGF13	ENSG00000129682	ENST00000305414	protein_coding	KNOWN	CCDS14664	3670	579	192	137713735	137821515	-1	None	FHF2, FGF2
X	FGF13	ENSG00000129682	ENST00000436198	protein_coding	KNOWN	None	3670	663	220	137715116	138287168	-1	None	FHF2, FGF2
X	FGF13	ENSG00000129682	ENST00000455663	protein_coding	KNOWN	None	3670	620	205	137717647	138072729	-1	None	FHF2, FGF2
X	FGF13	ENSG00000129682	ENST00000448673	protein_coding	KNOWN	None	3670	294	97	137791014	138304939	-1	None	FHF2, FGF2
X	FGF13	ENSG00000129682	ENST00000421460	protein_coding	KNOWN	None	3670	130	42	137939674	138285687	-1	None	FHF2, FGF2
X	FGF13	ENSG00000129682	ENST00000370603	protein_coding	KNOWN	CCDS55513	3670	768	255	137715011	138286269	-1	None	FHF2, FGF2
X	FGF13	ENSG00000129682	ENST00000541469	protein_coding	KNOWN	CCDS55512	3670	600	199	137715011	138286269	-1	None	FHF2, FGF2
X	FGF13	ENSG00000129682	ENST00000441825	protein_coding	KNOWN	CCDS55511	3670	681	226	137713740	137939841	-1	None	FHF2, FGF2
8	None	ENSG00000250428	ENST00000514059	processed_pseudogene	KNOWN	None	None	None	None	125932670	125934318	1	None	None
1	FNBP1L	ENSG00000137942	ENST00000604705	protein_coding	NOVEL	None	20851	1830	609	93913839	94016682	1	C1orf39	TOCA1, FLJ20275
1	FNBP1L	ENSG00000137942	ENST00000370253	protein_coding	KNOWN	None	20851	1644	547	93913839	94020218	1	C1orf39	TOCA1, FLJ20275
1	FNBP1L	ENSG00000137942	ENST00000424449	protein_coding	PUTATIVE	None	20851	1355	450	93995267	94018136	1	C1orf39	TOCA1, FLJ20275
1	FNBP1L	ENSG00000137942	ENST00000603526	retained_intron	KNOWN	None	20851	None	None	94009383	94014871	1	C1orf39	TOCA1, FLJ20275
1	FNBP1L	ENSG00000137942	ENST00000271234	protein_coding	KNOWN	CCDS53343	20851	1818	605	93913688	94020216	1	C1orf39	TOCA1, FLJ20275
1	FNBP1L	ENSG00000137942	ENST00000370256	protein_coding	KNOWN	None	20851	1803	600	93913688	94020216	1	C1orf39	TOCA1, FLJ20275
1	FNBP1L	ENSG00000137942	ENST00000260506	protein_coding	KNOWN	CCDS53344	20851	1656	551	93913688	94020216	1	C1orf39	TOCA1, FLJ20275
3	IQCF1	ENSG00000173389	ENST00000310914	protein_coding	KNOWN	CCDS2836	28607	618	205	51928892	51937351	-1	None	MGC39725
3	IQCF1	ENSG00000173389	ENST00000314534	nonsense_mediated_decay	KNOWN	None	28607	129	42	51928892	51937351	-1	None	MGC39725
Y	BCORP1	ENSG00000215580	ENST00000441139	processed_transcript	KNOWN	None	23953	None	None	21617317	21665039	-1	BCORL2	FLJ39821
Y	BCORP1	ENSG00000215580	ENST00000400605	processed_transcript	KNOWN	None	23953	None	None	21618198	21665022	-1	BCORL2	FLJ39821
Y	BCORP1	ENSG00000215580	ENST00000513194	transcribed_unprocessed_pseudogene	KNOWN	None	23953	None	None	21618471	21646770	-1	BCORL2	FLJ39821
20	None	ENSG00000232943	ENST00000432363	processed_pseudogene	KNOWN	None	None	None	None	18200757	18201156	1	None	None
16	None	ENSG00000260064	ENST00000563684	sense_intronic	KNOWN	None	None	None	None	80661448	80662276	-1	None	None
16	None	ENSG00000265341	ENST00000578212	miRNA	NOVEL	None	None	None	None	80699358	80699460	-1	None	None
16	None	ENSG00000260594	ENST00000568437	antisense	KNOWN	None	None	None	None	80770257	80776202	1	None	None
16	MRPS34	ENSG00000074071	ENST00000177742	protein_coding	NOVEL	None	16618	678	225	1821891	1823151	-1	None	MRP-S12, MGC2616
16	MRPS34	ENSG00000074071	ENST00000397375	protein_coding	KNOWN	CCDS10444	16618	657	218	1821891	1823156	-1	None	MRP-S12, MGC2616
16	MRPS34	ENSG00000074071	ENST00000569585	retained_intron	KNOWN	None	16618	None	None	1821897	1822699	-1	None	MRP-S12, MGC2616
6	None	ENSG00000229502	ENST00000422776	antisense	KNOWN	None	None	None	None	158293603	158296242	-1	None	None
6	None	ENSG00000229502	ENST00000457427	antisense	KNOWN	None	None	None	None	158295142	158296242	-1	None	None
16	None	ENSG00000260896	ENST00000562231	lincRNA	KNOWN	None	None	None	None	80862632	80926492	-1	None	None
16	None	ENSG00000260896	ENST00000569356	lincRNA	KNOWN	None	None	None	None	80864323	80869686	-1	None	None
16	None	ENSG00000260896	ENST00000561519	lincRNA	KNOWN	None	None	None	None	80864391	80904417	-1	None	None
16	None	ENSG00000260896	ENST00000563626	lincRNA	KNOWN	None	None	None	None	80864428	80926457	-1	None	None
8	ADAM9	ENSG00000168615	ENST00000466936	protein_coding	PUTATIVE	None	216	444	147	38854388	38873535	1	CORD9	MDC9, KIAA0021, MCMP, Mltng
8	ADAM9	ENSG00000168615	ENST00000481513	protein_coding	PUTATIVE	None	216	387	128	38854505	38873538	1	CORD9	MDC9, KIAA0021, MCMP, Mltng
8	ADAM9	ENSG00000168615	ENST00000487273	protein_coding	KNOWN	CCDS6112	216	2460	819	38854505	38962520	1	CORD9	MDC9, KIAA0021, MCMP, Mltng
8	ADAM9	ENSG00000168615	ENST00000481873	nonsense_mediated_decay	KNOWN	None	216	2139	712	38854545	38962656	1	CORD9	MDC9, KIAA0021, MCMP, Mltng
8	ADAM9	ENSG00000168615	ENST00000468065	nonsense_mediated_decay	KNOWN	None	216	1887	628	38854545	38962663	1	CORD9	MDC9, KIAA0021, MCMP, Mltng
8	ADAM9	ENSG00000168615	ENST00000379917	nonsense_mediated_decay	KNOWN	None	216	1968	655	38854545	38962663	1	CORD9	MDC9, KIAA0021, MCMP, Mltng
8	ADAM9	ENSG00000168615	ENST00000481058	retained_intron	KNOWN	None	216	None	None	38874555	38879232	1	CORD9	MDC9, KIAA0021, MCMP, Mltng
8	ADAM9	ENSG00000168615	ENST00000484143	processed_transcript	KNOWN	None	216	None	None	38933407	38940245	1	CORD9	MDC9, KIAA0021, MCMP, Mltng
8	ADAM9	ENSG00000168615	ENST00000463437	retained_intron	KNOWN	None	216	None	None	38947304	38961148	1	CORD9	MDC9, KIAA0021, MCMP, Mltng
6	None	ENSG00000236324	ENST00000446768	antisense	KNOWN	None	None	None	None	158306146	158313818	-1	None	None
17	CA4	ENSG00000167434	ENST00000300900	protein_coding	KNOWN	CCDS11624	1375	939	312	58227297	58236901	1	RP17	CAIV, Car4
17	CA4	ENSG00000167434	ENST00000585705	retained_intron	KNOWN	None	1375	None	None	58227303	58234313	1	RP17	CAIV, Car4
17	CA4	ENSG00000167434	ENST00000591725	protein_coding	PUTATIVE	None	1375	114	37	58227303	58234903	1	RP17	CAIV, Car4
17	CA4	ENSG00000167434	ENST00000586876	nonsense_mediated_decay	KNOWN	None	1375	321	106	58227303	58248260	1	RP17	CAIV, Car4
17	CA4	ENSG00000167434	ENST00000590203	protein_coding	NOVEL	None	1375	555	184	58235093	58236907	1	RP17	CAIV, Car4
17	CA4	ENSG00000167434	ENST00000587265	protein_coding	PUTATIVE	None	1375	298	98	58235469	58236325	1	RP17	CAIV, Car4
6	None	ENSG00000220867	ENST00000405341	processed_pseudogene	KNOWN	None	None	None	None	158345434	158345708	1	None	None
5	RNA5SP197	ENSG00000200227	ENST00000363357	rRNA	KNOWN	None	43097	None	None	150857020	150857138	-1	RN5S197	None
1	SLC2A5	ENSG00000142583	ENST00000377424	protein_coding	KNOWN	CCDS99	11010	1506	501	9095166	9129775	-1	GLUT5	None
1	SLC2A5	ENSG00000142583	ENST00000487492	retained_intron	KNOWN	None	11010	None	None	9098490	9099954	-1	GLUT5	None
1	SLC2A5	ENSG00000142583	ENST00000377414	protein_coding	KNOWN	CCDS44054	11010	735	244	9100139	9129663	-1	GLUT5	None
1	SLC2A5	ENSG00000142583	ENST00000484798	protein_coding	KNOWN	None	11010	571	189	9101844	9131786	-1	GLUT5	None
1	SLC2A5	ENSG00000142583	ENST00000474145	protein_coding	KNOWN	None	11010	571	189	9101844	9132324	-1	GLUT5	None
1	SLC2A5	ENSG00000142583	ENST00000479813	protein_coding	KNOWN	None	11010	571	189	9101844	9133181	-1	GLUT5	None
1	SLC2A5	ENSG00000142583	ENST00000486632	protein_coding	KNOWN	None	11010	571	189	9101844	9148537	-1	GLUT5	None
1	SLC2A5	ENSG00000142583	ENST00000487835	protein_coding	KNOWN	None	11010	498	165	9101917	9148516	-1	GLUT5	None
1	SLC2A5	ENSG00000142583	ENST00000464985	protein_coding	KNOWN	None	11010	417	138	9107670	9148502	-1	GLUT5	None
1	SLC2A5	ENSG00000142583	ENST00000473209	protein_coding	KNOWN	None	11010	243	80	9117557	9129910	-1	GLUT5	None
1	SLC2A5	ENSG00000142583	ENST00000536305	protein_coding	KNOWN	None	11010	1329	442	9097173	9109319	-1	GLUT5	None
1	SLC2A5	ENSG00000142583	ENST00000535586	protein_coding	KNOWN	None	11010	1161	386	9097457	9129604	-1	GLUT5	None
5	None	ENSG00000271795	ENST00000606930	antisense	KNOWN	None	None	None	None	150889014	150892330	1	None	None
5	RASA1	ENSG00000145715	ENST00000274376	protein_coding	KNOWN	CCDS34200	9871	3144	1047	86563705	86686744	1	RASA	GAP, CM-AVM, p120GAP, p120RASGAP
5	RASA1	ENSG00000145715	ENST00000515800	nonsense_mediated_decay	KNOWN	None	9871	1620	539	86563705	86687736	1	RASA	GAP, CM-AVM, p120GAP, p120RASGAP
5	RASA1	ENSG00000145715	ENST00000456692	protein_coding	PUTATIVE	CCDS47243	9871	2613	870	86564750	86687748	1	RASA	GAP, CM-AVM, p120GAP, p120RASGAP
5	RASA1	ENSG00000145715	ENST00000512763	protein_coding	PUTATIVE	None	9871	2643	880	86564761	86686916	1	RASA	GAP, CM-AVM, p120GAP, p120RASGAP
5	RASA1	ENSG00000145715	ENST00000506290	protein_coding	PUTATIVE	None	9871	2646	881	86564761	86686946	1	RASA	GAP, CM-AVM, p120GAP, p120RASGAP
5	RASA1	ENSG00000145715	ENST00000509953	retained_intron	KNOWN	None	9871	None	None	86633789	86665718	1	RASA	GAP, CM-AVM, p120GAP, p120RASGAP
19	IL11	ENSG00000095752	ENST00000264563	protein_coding	KNOWN	CCDS12923	5966	600	199	55875757	55881741	-1	None	IL-11, AGIF
19	IL11	ENSG00000095752	ENST00000590625	protein_coding	PUTATIVE	CCDS59423	5966	363	120	55876927	55881831	-1	None	IL-11, AGIF
19	IL11	ENSG00000095752	ENST00000585513	protein_coding	KNOWN	CCDS12923	5966	600	199	55876927	55881831	-1	None	IL-11, AGIF
19	IL11	ENSG00000095752	ENST00000587093	protein_coding	PUTATIVE	None	5966	120	39	55879650	55880609	-1	None	IL-11, AGIF
6	RNU6-786P	ENSG00000252658	ENST00000516849	snRNA	KNOWN	None	47749	None	None	158355200	158355289	1	None	None
5	ARL10	ENSG00000175414	ENST00000310389	protein_coding	KNOWN	CCDS4400	22042	735	244	175792471	175808912	1	ARL10A	None
5	ARL10	ENSG00000175414	ENST00000507151	retained_intron	KNOWN	None	22042	None	None	175793541	175796130	1	ARL10A	None
5	ARL10	ENSG00000175414	ENST00000514533	protein_coding	PUTATIVE	None	22042	145	47	175795853	175828866	1	ARL10A	None
5	ARL10	ENSG00000175414	ENST00000503175	protein_coding	PUTATIVE	None	22042	240	79	175795950	175815639	1	ARL10A	None
20	RN7SL14P	ENSG00000266720	ENST00000579715	misc_RNA	KNOWN	None	46030	None	None	18239200	18239495	-1	None	None
9	None	ENSG00000203512	ENST00000366326	pseudogene	NOVEL	None	None	None	None	34195642	34195883	1	None	None
5	None	ENSG00000260581	ENST00000564471	antisense	KNOWN	None	None	None	None	151031836	151035010	1	None	None
3	None	ENSG00000229619	ENST00000445466	protein_coding	KNOWN	None	None	393	130	151985973	151987335	-1	None	None
9	None	ENSG00000203511	ENST00000366325	pseudogene	NOVEL	None	None	None	None	34201271	34201513	-1	None	None
16	ADCY9	ENSG00000162104	ENST00000576936	protein_coding	PUTATIVE	None	240	646	214	4003388	4039001	-1	None	AC9
16	ADCY9	ENSG00000162104	ENST00000294016	protein_coding	KNOWN	CCDS32382	240	4062	1353	4012652	4166186	-1	None	AC9
16	ADCY9	ENSG00000162104	ENST00000574721	retained_intron	KNOWN	None	240	None	None	4031774	4034151	-1	None	AC9
16	ADCY9	ENSG00000162104	ENST00000575550	processed_transcript	KNOWN	None	240	None	None	4033393	4065683	-1	None	AC9
16	ADCY9	ENSG00000162104	ENST00000571467	nonsense_mediated_decay	KNOWN	None	240	217	71	4039085	4163926	-1	None	AC9
16	ADCY9	ENSG00000162104	ENST00000571889	processed_transcript	KNOWN	None	240	None	None	4039090	4104191	-1	None	AC9
16	ADCY9	ENSG00000162104	ENST00000572288	protein_coding	NOVEL	None	240	772	256	4042223	4164027	-1	None	AC9
6	SYNJ2-IT1	ENSG00000233496	ENST00000442328	sense_intronic	KNOWN	None	41387	None	None	158422139	158423415	1	None	None
9	RNA5SP282	ENSG00000252164	ENST00000516355	rRNA	KNOWN	None	43182	None	None	34206132	34206239	-1	RN5S282	None
12	PMEL	ENSG00000185664	ENST00000449260	protein_coding	KNOWN	CCDS55834	10880	2007	668	56347889	56359806	-1	SIL, SILV	D12S53E, SI, Pmel17, gp100
12	PMEL	ENSG00000185664	ENST00000552882	protein_coding	KNOWN	CCDS8897	10880	1986	661	56347889	56360446	-1	SIL, SILV	D12S53E, SI, Pmel17, gp100
12	PMEL	ENSG00000185664	ENST00000550464	protein_coding	NOVEL	CCDS55833	10880	1728	575	56347890	56359826	-1	SIL, SILV	D12S53E, SI, Pmel17, gp100
12	PMEL	ENSG00000185664	ENST00000548747	protein_coding	KNOWN	CCDS8897	10880	1986	661	56347890	56360458	-1	SIL, SILV	D12S53E, SI, Pmel17, gp100
12	PMEL	ENSG00000185664	ENST00000548493	protein_coding	KNOWN	CCDS8897	10880	1986	661	56347890	56360520	-1	SIL, SILV	D12S53E, SI, Pmel17, gp100
12	PMEL	ENSG00000185664	ENST00000550447	protein_coding	NOVEL	None	10880	873	290	56347984	56359809	-1	SIL, SILV	D12S53E, SI, Pmel17, gp100
12	PMEL	ENSG00000185664	ENST00000549564	processed_transcript	KNOWN	None	10880	None	None	56348060	56351126	-1	SIL, SILV	D12S53E, SI, Pmel17, gp100
12	PMEL	ENSG00000185664	ENST00000549404	protein_coding	NOVEL	None	10880	1355	450	56349110	56352387	-1	SIL, SILV	D12S53E, SI, Pmel17, gp100
12	PMEL	ENSG00000185664	ENST00000550762	retained_intron	KNOWN	None	10880	None	None	56349580	56350323	-1	SIL, SILV	D12S53E, SI, Pmel17, gp100
12	PMEL	ENSG00000185664	ENST00000548803	protein_coding	NOVEL	None	10880	888	295	56349897	56359802	-1	SIL, SILV	D12S53E, SI, Pmel17, gp100
12	PMEL	ENSG00000185664	ENST00000547137	protein_coding	NOVEL	None	10880	1032	343	56350893	56359810	-1	SIL, SILV	D12S53E, SI, Pmel17, gp100
12	PMEL	ENSG00000185664	ENST00000546543	protein_coding	NOVEL	None	10880	897	298	56351043	56359810	-1	SIL, SILV	D12S53E, SI, Pmel17, gp100
12	PMEL	ENSG00000185664	ENST00000556802	retained_intron	KNOWN	None	10880	None	None	56351069	56352461	-1	SIL, SILV	D12S53E, SI, Pmel17, gp100
12	PMEL	ENSG00000185664	ENST00000548689	processed_transcript	KNOWN	None	10880	None	None	56351718	56360493	-1	SIL, SILV	D12S53E, SI, Pmel17, gp100
12	PMEL	ENSG00000185664	ENST00000550590	retained_intron	KNOWN	None	10880	None	None	56351956	56359826	-1	SIL, SILV	D12S53E, SI, Pmel17, gp100
12	PMEL	ENSG00000185664	ENST00000549430	retained_intron	KNOWN	None	10880	None	None	56352036	56360493	-1	SIL, SILV	D12S53E, SI, Pmel17, gp100
12	PMEL	ENSG00000185664	ENST00000549418	protein_coding	KNOWN	None	10880	453	150	56352273	56360459	-1	SIL, SILV	D12S53E, SI, Pmel17, gp100
12	PMEL	ENSG00000185664	ENST00000549233	protein_coding	PUTATIVE	None	10880	404	133	56352331	56367101	-1	SIL, SILV	D12S53E, SI, Pmel17, gp100
12	PMEL	ENSG00000185664	ENST00000549413	retained_intron	KNOWN	None	10880	None	None	56354984	56359805	-1	SIL, SILV	D12S53E, SI, Pmel17, gp100
12	PMEL	ENSG00000185664	ENST00000360714	protein_coding	KNOWN	None	10880	2007	668	56347890	56360498	-1	SIL, SILV	D12S53E, SI, Pmel17, gp100
12	PMEL	ENSG00000185664	ENST00000536427	protein_coding	KNOWN	None	10880	1881	626	56347890	56360498	-1	SIL, SILV	D12S53E, SI, Pmel17, gp100
12	PMEL	ENSG00000185664	ENST00000539511	protein_coding	KNOWN	CCDS55833	10880	1728	575	56347890	56360498	-1	SIL, SILV	D12S53E, SI, Pmel17, gp100
9	None	ENSG00000233668	ENST00000372214	processed_pseudogene	KNOWN	None	None	None	None	34223982	34224626	-1	None	None
3	TMEM14E	ENSG00000221962	ENST00000408960	protein_coding	KNOWN	CCDS43161	34386	378	125	152057484	152058779	-1	None	None
15	PPP1R14D	ENSG00000166143	ENST00000299174	protein_coding	KNOWN	CCDS10066	14953	438	145	41107650	41120907	-1	None	CPI17-like, FLJ20251, GBPI-1, MGC119014, MGC119016
15	PPP1R14D	ENSG00000166143	ENST00000427255	protein_coding	KNOWN	CCDS45230	14953	603	200	41107769	41120907	-1	None	CPI17-like, FLJ20251, GBPI-1, MGC119014, MGC119016
HSCHR6_MHC_DBB	MRPS18B	ENSG00000233813	ENST00000430402	protein_coding	KNOWN	None	14516	777	258	30575727	30584413	1	None	MRPS18-2, PTD017, C6orf14, HSPC183
HSCHR6_MHC_DBB	MRPS18B	ENSG00000233813	ENST00000483109	retained_intron	KNOWN	None	14516	None	None	30575861	30578142	1	None	MRPS18-2, PTD017, C6orf14, HSPC183
HSCHR6_MHC_DBB	MRPS18B	ENSG00000233813	ENST00000498459	retained_intron	KNOWN	None	14516	None	None	30575870	30584413	1	None	MRPS18-2, PTD017, C6orf14, HSPC183
HSCHR6_MHC_DBB	MRPS18B	ENSG00000233813	ENST00000418070	protein_coding	KNOWN	None	14516	648	215	30575878	30584413	1	None	MRPS18-2, PTD017, C6orf14, HSPC183
HSCHR6_MHC_DBB	MRPS18B	ENSG00000233813	ENST00000489289	processed_transcript	KNOWN	None	14516	None	None	30575878	30584413	1	None	MRPS18-2, PTD017, C6orf14, HSPC183
HSCHR6_MHC_COX	None	ENSG00000265816	ENST00000579807	rRNA	NOVEL	None	None	None	None	31994748	31994868	-1	None	None
7	SHFM1	ENSG00000127922	ENST00000493858	processed_transcript	KNOWN	None	10845	None	None	96110938	96132835	-1	SHFD1	DSS1, Shfdg1, ECD, SEM1, SHSF1
7	SHFM1	ENSG00000127922	ENST00000466986	processed_transcript	KNOWN	None	10845	None	None	96115518	96339124	-1	SHFD1	DSS1, Shfdg1, ECD, SEM1, SHSF1
7	SHFM1	ENSG00000127922	ENST00000417009	protein_coding	PUTATIVE	None	10845	198	65	96251874	96339173	-1	SHFD1	DSS1, Shfdg1, ECD, SEM1, SHSF1
7	SHFM1	ENSG00000127922	ENST00000444799	protein_coding	PUTATIVE	None	10845	189	62	96279527	96339170	-1	SHFD1	DSS1, Shfdg1, ECD, SEM1, SHSF1
7	SHFM1	ENSG00000127922	ENST00000449279	nonsense_mediated_decay	KNOWN	None	10845	270	89	96301876	96339192	-1	SHFD1	DSS1, Shfdg1, ECD, SEM1, SHSF1
7	SHFM1	ENSG00000127922	ENST00000488005	processed_transcript	KNOWN	None	10845	None	None	96302561	96339163	-1	SHFD1	DSS1, Shfdg1, ECD, SEM1, SHSF1
7	SHFM1	ENSG00000127922	ENST00000413065	protein_coding	PUTATIVE	None	10845	270	89	96302769	96339163	-1	SHFD1	DSS1, Shfdg1, ECD, SEM1, SHSF1
7	SHFM1	ENSG00000127922	ENST00000248566	protein_coding	KNOWN	CCDS5646	10845	213	70	96317770	96339203	-1	SHFD1	DSS1, Shfdg1, ECD, SEM1, SHSF1
7	SHFM1	ENSG00000127922	ENST00000482389	retained_intron	KNOWN	None	10845	None	None	96318081	96326684	-1	SHFD1	DSS1, Shfdg1, ECD, SEM1, SHSF1
7	SHFM1	ENSG00000127922	ENST00000476463	processed_transcript	KNOWN	None	10845	None	None	96335534	96339185	-1	SHFD1	DSS1, Shfdg1, ECD, SEM1, SHSF1
HSCHR6_MHC_COX	None	ENSG00000257420	ENST00000550191	pseudogene	NOVEL	None	None	None	None	32231665	32231814	1	None	None
1	TCEB3	ENSG00000011007	ENST00000418390	protein_coding	KNOWN	CCDS239	11620	2397	798	24069645	24088549	1	None	SIII, TCEB3A
1	TCEB3	ENSG00000011007	ENST00000487554	processed_transcript	KNOWN	None	11620	None	None	24070524	24077434	1	None	SIII, TCEB3A
HSCHR6_MHC_COX	HNRNPA1P2	ENSG00000231275	ENST00000431344	processed_pseudogene	KNOWN	None	13958	None	None	32241597	32242556	1	HNRPA1P2	dJ372B18.1
14	RNASE3	ENSG00000169397	ENST00000304639	protein_coding	KNOWN	CCDS9560	10046	483	160	21359558	21360507	1	RNS3	ECP
19	ZNF547	ENSG00000152433	ENST00000595335	nonsense_mediated_decay	KNOWN	None	26432	138	45	57874845	57888579	1	None	FLJ31100
19	ZNF547	ENSG00000152433	ENST00000282282	protein_coding	KNOWN	CCDS33131	26432	1209	402	57874934	57890933	1	None	FLJ31100
19	ZNF547	ENSG00000152433	ENST00000599604	protein_coding	PUTATIVE	None	26432	125	40	57879447	57883250	1	None	FLJ31100
19	ZNF547	ENSG00000152433	ENST00000597567	protein_coding	PUTATIVE	None	26432	444	147	57882997	57888785	1	None	FLJ31100
13	TDRD3	ENSG00000083544	ENST00000484389	nonsense_mediated_decay	KNOWN	None	20612	351	116	60971073	61102971	1	None	FLJ21007
13	TDRD3	ENSG00000083544	ENST00000377894	protein_coding	KNOWN	CCDS9441	20612	1956	651	60971122	61148011	1	None	FLJ21007
13	TDRD3	ENSG00000083544	ENST00000377881	protein_coding	KNOWN	CCDS9441	20612	1956	651	60971468	61148006	1	None	FLJ21007
13	TDRD3	ENSG00000083544	ENST00000377882	protein_coding	KNOWN	None	20612	389	128	61008183	61060033	1	None	FLJ21007
13	TDRD3	ENSG00000083544	ENST00000463109	processed_transcript	KNOWN	None	20612	None	None	61018821	61035134	1	None	FLJ21007
13	TDRD3	ENSG00000083544	ENST00000471710	processed_transcript	KNOWN	None	20612	None	None	61103097	61109560	1	None	FLJ21007
13	TDRD3	ENSG00000083544	ENST00000535286	protein_coding	KNOWN	CCDS53872	20612	2235	744	60971427	61148012	1	None	FLJ21007
13	TDRD3	ENSG00000083544	ENST00000196169	protein_coding	KNOWN	CCDS9441	20612	1956	651	60970591	61148012	1	None	FLJ21007
2	None	ENSG00000218739	ENST00000402297	protein_coding	NOVEL	None	None	243	80	37423631	37431884	1	None	None
2	None	ENSG00000218739	ENST00000397064	protein_coding	NOVEL	None	None	243	80	37423631	37440868	1	None	None
2	None	ENSG00000218739	ENST00000470216	retained_intron	KNOWN	None	None	None	None	37423637	37428847	1	None	None
2	None	ENSG00000218739	ENST00000406711	protein_coding	NOVEL	None	None	243	80	37423648	37430638	1	None	None
2	None	ENSG00000218739	ENST00000392061	protein_coding	NOVEL	None	None	243	80	37423651	37431882	1	None	None
2	None	ENSG00000218739	ENST00000397226	protein_coding	NOVEL	None	None	243	80	37423666	37429835	1	None	None
2	None	ENSG00000218739	ENST00000438935	processed_transcript	KNOWN	None	None	None	None	37440610	37443336	1	None	None
HSCHR6_MHC_COX	RNU6-825P	ENSG00000263869	ENST00000583433	snRNA	KNOWN	None	47788	None	None	32268901	32269007	1	None	None
7	NOD1	ENSG00000106100	ENST00000222823	protein_coding	KNOWN	CCDS5427	16390	2862	953	30464143	30518396	-1	CARD4	NLRC1, CLR7.1
7	NOD1	ENSG00000106100	ENST00000434755	nonsense_mediated_decay	KNOWN	None	16390	2340	779	30464146	30518354	-1	CARD4	NLRC1, CLR7.1
7	NOD1	ENSG00000106100	ENST00000489614	retained_intron	KNOWN	None	16390	None	None	30464150	30487593	-1	CARD4	NLRC1, CLR7.1
7	NOD1	ENSG00000106100	ENST00000467706	retained_intron	KNOWN	None	16390	None	None	30464825	30473030	-1	CARD4	NLRC1, CLR7.1
7	NOD1	ENSG00000106100	ENST00000413433	protein_coding	KNOWN	None	16390	179	58	30496359	30518252	-1	CARD4	NLRC1, CLR7.1
7	NOD1	ENSG00000106100	ENST00000411552	protein_coding	KNOWN	None	16390	179	58	30496359	30518344	-1	CARD4	NLRC1, CLR7.1
7	NOD1	ENSG00000106100	ENST00000419799	protein_coding	KNOWN	None	16390	179	58	30496359	30518358	-1	CARD4	NLRC1, CLR7.1
7	NOD1	ENSG00000106100	ENST00000419601	protein_coding	KNOWN	None	16390	137	44	30496401	30518400	-1	CARD4	NLRC1, CLR7.1
7	NOD1	ENSG00000106100	ENST00000423334	protein_coding	KNOWN	None	16390	750	249	30491752	30518312	-1	CARD4	NLRC1, CLR7.1
19	None	ENSG00000267896	ENST00000596624	antisense	KNOWN	None	None	None	None	50363139	50363771	-1	None	None
22	POM121L4P	ENSG00000217261	ENST00000427789	transcribed_unprocessed_pseudogene	KNOWN	None	19326	None	None	21044217	21053226	1	None	None
22	POM121L4P	ENSG00000217261	ENST00000412250	processed_transcript	KNOWN	None	19326	None	None	21044319	21045605	1	None	None
HSCHR6_MHC_QBL	ABHD16A	ENSG00000206403	ENST00000483475	retained_intron	KNOWN	None	13921	None	None	31644978	31646412	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_QBL	ABHD16A	ENSG00000206403	ENST00000490606	retained_intron	KNOWN	None	13921	None	None	31644978	31648625	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_QBL	ABHD16A	ENSG00000206403	ENST00000482058	processed_transcript	KNOWN	None	13921	None	None	31644979	31661104	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_QBL	ABHD16A	ENSG00000206403	ENST00000481723	processed_transcript	KNOWN	None	13921	None	None	31644979	31661371	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_QBL	ABHD16A	ENSG00000206403	ENST00000446529	protein_coding	KNOWN	None	13921	1677	558	31644979	31661447	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_QBL	ABHD16A	ENSG00000206403	ENST00000489104	retained_intron	KNOWN	None	13921	None	None	31645410	31646344	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_QBL	ABHD16A	ENSG00000206403	ENST00000482022	retained_intron	KNOWN	None	13921	None	None	31645598	31646326	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_QBL	ABHD16A	ENSG00000206403	ENST00000461736	processed_transcript	KNOWN	None	13921	None	None	31645676	31648268	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_QBL	ABHD16A	ENSG00000206403	ENST00000477020	retained_intron	KNOWN	None	13921	None	None	31645796	31649669	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_QBL	ABHD16A	ENSG00000206403	ENST00000483948	processed_transcript	KNOWN	None	13921	None	None	31647038	31661364	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_QBL	ABHD16A	ENSG00000206403	ENST00000446366	protein_coding	KNOWN	None	13921	791	262	31648579	31660897	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_QBL	ABHD16A	ENSG00000206403	ENST00000482977	processed_transcript	KNOWN	None	13921	None	None	31649469	31651079	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_QBL	ABHD16A	ENSG00000206403	ENST00000489747	retained_intron	KNOWN	None	13921	None	None	31649612	31650317	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_QBL	ABHD16A	ENSG00000206403	ENST00000548592	protein_coding	KNOWN	None	13921	1578	525	31644972	31661104	-1	BAT5	NG26, D6S82E
X	MTND4P31	ENSG00000235382	ENST00000425607	processed_pseudogene	KNOWN	None	42218	None	None	69344822	69348921	-1	None	None
2	GYPC	ENSG00000136732	ENST00000259254	protein_coding	KNOWN	CCDS2136	4704	387	128	127413509	127454246	1	None	GPC, GYPD, Ge, CD236, CD236R
2	GYPC	ENSG00000136732	ENST00000484700	processed_transcript	PUTATIVE	None	4704	None	None	127413709	127415768	1	None	GPC, GYPD, Ge, CD236, CD236R
2	GYPC	ENSG00000136732	ENST00000459787	processed_transcript	PUTATIVE	None	4704	None	None	127413718	127436463	1	None	GPC, GYPD, Ge, CD236, CD236R
2	GYPC	ENSG00000136732	ENST00000409836	protein_coding	KNOWN	CCDS46402	4704	330	109	127413760	127454240	1	None	GPC, GYPD, Ge, CD236, CD236R
2	GYPC	ENSG00000136732	ENST00000464053	processed_transcript	KNOWN	None	4704	None	None	127413765	127454243	1	None	GPC, GYPD, Ge, CD236, CD236R
2	GYPC	ENSG00000136732	ENST00000356887	protein_coding	KNOWN	CCDS58724	4704	324	107	127413679	127454242	1	None	GPC, GYPD, Ge, CD236, CD236R
6	NUDT19P3	ENSG00000216723	ENST00000404698	processed_pseudogene	KNOWN	None	43587	None	None	114340785	114341647	-1	None	None
22	ZC3H7B	ENSG00000100403	ENST00000352645	protein_coding	KNOWN	CCDS14013	30869	2934	977	41697526	41756151	1	None	RoXaN, FLJ13787, DKFZp434K0920, KIAA1031
22	ZC3H7B	ENSG00000100403	ENST00000486331	retained_intron	KNOWN	None	30869	None	None	41697719	41732847	1	None	RoXaN, FLJ13787, DKFZp434K0920, KIAA1031
22	ZC3H7B	ENSG00000100403	ENST00000351589	protein_coding	KNOWN	CCDS14013	30869	2934	977	41716665	41756107	1	None	RoXaN, FLJ13787, DKFZp434K0920, KIAA1031
6	RPSAP43	ENSG00000216471	ENST00000402237	processed_pseudogene	KNOWN	None	35501	None	None	114405332	114405956	-1	None	None
17	LRRC46	ENSG00000141294	ENST00000269025	protein_coding	KNOWN	CCDS11518	25047	966	321	45908993	45915079	1	None	MGC16309
17	LRRC46	ENSG00000141294	ENST00000579742	nonsense_mediated_decay	KNOWN	None	25047	144	47	45909000	45913428	1	None	MGC16309
17	LRRC46	ENSG00000141294	ENST00000579971	nonsense_mediated_decay	KNOWN	None	25047	297	98	45909057	45913466	1	None	MGC16309
17	LRRC46	ENSG00000141294	ENST00000584580	nonsense_mediated_decay	KNOWN	None	25047	144	47	45909089	45914594	1	None	MGC16309
17	LRRC46	ENSG00000141294	ENST00000584809	retained_intron	KNOWN	None	25047	None	None	45909537	45912614	1	None	MGC16309
6	RNA5SP213	ENSG00000212333	ENST00000391031	rRNA	KNOWN	None	43113	None	None	114541845	114541950	-1	RN5S213	None
X	None	ENSG00000229674	ENST00000448797	processed_pseudogene	KNOWN	None	None	None	None	37853597	37854043	1	None	None
16	None	ENSG00000259876	ENST00000563116	antisense	KNOWN	None	None	None	None	12650210	12651551	-1	None	None
6	None	ENSG00000221599	ENST00000408672	miRNA	NOVEL	None	None	None	None	114598549	114598642	-1	None	None
8	FAM167A	ENSG00000154319	ENST00000284486	protein_coding	KNOWN	CCDS5981	15549	645	214	11278972	11324276	-1	C8orf13	None
8	FAM167A	ENSG00000154319	ENST00000531564	processed_transcript	KNOWN	None	15549	None	None	11280903	11301210	-1	C8orf13	None
8	FAM167A	ENSG00000154319	ENST00000534308	protein_coding	PUTATIVE	CCDS5981	15549	645	214	11281360	11302395	-1	C8orf13	None
8	FAM167A	ENSG00000154319	ENST00000527445	processed_transcript	KNOWN	None	15549	None	None	11281452	11332224	-1	C8orf13	None
8	FAM167A	ENSG00000154319	ENST00000528897	protein_coding	PUTATIVE	CCDS5981	15549	645	214	11281527	11302878	-1	C8orf13	None
8	FAM167A	ENSG00000154319	ENST00000531804	protein_coding	PUTATIVE	None	15549	274	90	11301647	11325103	-1	C8orf13	None
8	FAM167A	ENSG00000154319	ENST00000528111	processed_transcript	KNOWN	None	15549	None	None	11302086	11324244	-1	C8orf13	None
3	P2RY1	ENSG00000169860	ENST00000305097	protein_coding	KNOWN	CCDS3169	8539	1122	373	152552736	152555841	1	None	P2Y1
2	KIF1A	ENSG00000130294	ENST00000460788	retained_intron	KNOWN	None	888	None	None	241653181	241664266	-1	ATSV, C2orf20, SPG30	UNC104
2	KIF1A	ENSG00000130294	ENST00000320389	protein_coding	KNOWN	CCDS46561	888	5073	1690	241653181	241759637	-1	ATSV, C2orf20, SPG30	UNC104
2	KIF1A	ENSG00000130294	ENST00000492812	retained_intron	KNOWN	None	888	None	None	241656437	241665415	-1	ATSV, C2orf20, SPG30	UNC104
2	KIF1A	ENSG00000130294	ENST00000488776	retained_intron	KNOWN	None	888	None	None	241658566	241659702	-1	ATSV, C2orf20, SPG30	UNC104
2	KIF1A	ENSG00000130294	ENST00000465813	retained_intron	KNOWN	None	888	None	None	241660044	241662075	-1	ATSV, C2orf20, SPG30	UNC104
2	KIF1A	ENSG00000130294	ENST00000431776	protein_coding	NOVEL	None	888	1072	356	241661961	241683410	-1	ATSV, C2orf20, SPG30	UNC104
2	KIF1A	ENSG00000130294	ENST00000404283	protein_coding	NOVEL	None	888	4414	1470	241662904	241737169	-1	ATSV, C2orf20, SPG30	UNC104
2	KIF1A	ENSG00000130294	ENST00000494452	retained_intron	KNOWN	None	888	None	None	241666255	241676959	-1	ATSV, C2orf20, SPG30	UNC104
2	KIF1A	ENSG00000130294	ENST00000415042	protein_coding	NOVEL	None	888	550	182	241683470	241688135	-1	ATSV, C2orf20, SPG30	UNC104
2	KIF1A	ENSG00000130294	ENST00000463388	retained_intron	KNOWN	None	888	None	None	241709089	241710711	-1	ATSV, C2orf20, SPG30	UNC104
2	KIF1A	ENSG00000130294	ENST00000428768	protein_coding	NOVEL	None	888	680	225	241710546	241725781	-1	ATSV, C2orf20, SPG30	UNC104
2	KIF1A	ENSG00000130294	ENST00000448728	protein_coding	KNOWN	None	888	115	37	241728721	241758395	-1	ATSV, C2orf20, SPG30	UNC104
2	KIF1A	ENSG00000130294	ENST00000498729	protein_coding	KNOWN	CCDS58757	888	5376	1791	241653183	241759725	-1	ATSV, C2orf20, SPG30	UNC104
6	DNAJA1P4	ENSG00000218089	ENST00000406473	processed_pseudogene	KNOWN	None	39340	None	None	114670647	114671812	-1	None	None
X	MIR548AJ2	ENSG00000221466	ENST00000408539	miRNA	KNOWN	None	41600	None	None	37883148	37883239	-1	None	hsa-mir-548aj-2
12	MARS	ENSG00000166986	ENST00000549133	processed_transcript	KNOWN	None	6898	None	None	57869228	57881256	1	None	MetRS
12	MARS	ENSG00000166986	ENST00000537638	nonsense_mediated_decay	KNOWN	None	6898	1641	546	57881077	57911352	1	None	MetRS
12	MARS	ENSG00000166986	ENST00000262027	protein_coding	KNOWN	CCDS8942	6898	2703	900	57881740	57910432	1	None	MetRS
12	MARS	ENSG00000166986	ENST00000548674	processed_transcript	KNOWN	None	6898	None	None	57881807	57892024	1	None	MetRS
12	MARS	ENSG00000166986	ENST00000550449	retained_intron	KNOWN	None	6898	None	None	57881839	57884125	1	None	MetRS
12	MARS	ENSG00000166986	ENST00000546481	retained_intron	KNOWN	None	6898	None	None	57881845	57883302	1	None	MetRS
12	MARS	ENSG00000166986	ENST00000545888	nonsense_mediated_decay	KNOWN	None	6898	423	140	57881849	57910438	1	None	MetRS
12	MARS	ENSG00000166986	ENST00000547062	retained_intron	KNOWN	None	6898	None	None	57881851	57883240	1	None	MetRS
12	MARS	ENSG00000166986	ENST00000548714	retained_intron	KNOWN	None	6898	None	None	57881851	57883393	1	None	MetRS
12	MARS	ENSG00000166986	ENST00000551842	retained_intron	KNOWN	None	6898	None	None	57881851	57883566	1	None	MetRS
12	MARS	ENSG00000166986	ENST00000553162	retained_intron	KNOWN	None	6898	None	None	57881851	57883816	1	None	MetRS
12	MARS	ENSG00000166986	ENST00000547501	nonsense_mediated_decay	KNOWN	None	6898	333	110	57881851	57884017	1	None	MetRS
12	MARS	ENSG00000166986	ENST00000551431	nonsense_mediated_decay	KNOWN	None	6898	288	95	57881851	57884404	1	None	MetRS
12	MARS	ENSG00000166986	ENST00000549074	nonsense_mediated_decay	KNOWN	None	6898	345	114	57881851	57891968	1	None	MetRS
12	MARS	ENSG00000166986	ENST00000447721	processed_transcript	KNOWN	None	6898	None	None	57881851	57905937	1	None	MetRS
12	MARS	ENSG00000166986	ENST00000552007	nonsense_mediated_decay	KNOWN	None	6898	216	71	57881868	57884141	1	None	MetRS
12	MARS	ENSG00000166986	ENST00000551892	nonsense_mediated_decay	KNOWN	None	6898	183	60	57881868	57894206	1	None	MetRS
12	MARS	ENSG00000166986	ENST00000548146	processed_transcript	KNOWN	None	6898	None	None	57881995	57883066	1	None	MetRS
12	MARS	ENSG00000166986	ENST00000553123	retained_intron	KNOWN	None	6898	None	None	57882469	57883999	1	None	MetRS
12	MARS	ENSG00000166986	ENST00000552371	protein_coding	NOVEL	None	6898	699	232	57883313	57894213	1	None	MetRS
12	MARS	ENSG00000166986	ENST00000549827	retained_intron	KNOWN	None	6898	None	None	57893897	57898063	1	None	MetRS
12	MARS	ENSG00000166986	ENST00000548944	protein_coding	PUTATIVE	None	6898	177	58	57894141	57910438	1	None	MetRS
12	MARS	ENSG00000166986	ENST00000549603	retained_intron	KNOWN	None	6898	None	None	57897769	57905568	1	None	MetRS
12	MARS	ENSG00000166986	ENST00000546971	retained_intron	KNOWN	None	6898	None	None	57905369	57906747	1	None	MetRS
12	MARS	ENSG00000166986	ENST00000548630	retained_intron	KNOWN	None	6898	None	None	57905552	57906247	1	None	MetRS
12	MARS	ENSG00000166986	ENST00000549048	retained_intron	KNOWN	None	6898	None	None	57905580	57908625	1	None	MetRS
12	MARS	ENSG00000166986	ENST00000548202	retained_intron	KNOWN	None	6898	None	None	57906274	57909017	1	None	MetRS
12	MARS	ENSG00000166986	ENST00000552914	protein_coding	NOVEL	None	6898	660	219	57906713	57910438	1	None	MetRS
12	MARS	ENSG00000166986	ENST00000551805	retained_intron	KNOWN	None	6898	None	None	57908605	57909276	1	None	MetRS
12	MARS	ENSG00000166986	ENST00000547665	protein_coding	PUTATIVE	None	6898	358	118	57908933	57910438	1	None	MetRS
12	MARS	ENSG00000166986	ENST00000552499	nonsense_mediated_decay	KNOWN	None	6898	246	81	57908964	57910431	1	None	MetRS
12	MARS	ENSG00000166986	ENST00000551172	nonsense_mediated_decay	KNOWN	None	6898	373	123	57908966	57910430	1	None	MetRS
12	MARS	ENSG00000166986	ENST00000315473	protein_coding	KNOWN	None	6898	1908	635	57881849	57910064	1	None	MetRS
X	None	ENSG00000226679	ENST00000423919	antisense	KNOWN	None	None	None	None	38080644	38082920	1	None	None
12	MIP	ENSG00000135517	ENST00000257979	protein_coding	KNOWN	CCDS8919	7103	792	263	56843286	56848426	-1	None	MP26, LIM1, AQP0
12	MIP	ENSG00000135517	ENST00000555551	processed_transcript	KNOWN	None	7103	None	None	56846423	56862950	-1	None	MP26, LIM1, AQP0
X	None	ENSG00000252050	ENST00000516241	snoRNA	NOVEL	None	None	None	None	38167365	38167494	-1	None	None
6	None	ENSG00000265803	ENST00000580588	miRNA	NOVEL	None	None	None	None	158596016	158596102	1	None	None
6	None	ENSG00000232395	ENST00000438522	lincRNA	KNOWN	None	None	None	None	114798514	114809845	-1	None	None
6	None	ENSG00000232395	ENST00000446358	lincRNA	KNOWN	None	None	None	None	114802589	114809916	-1	None	None
22	RN7SKP80	ENSG00000202058	ENST00000365188	misc_RNA	KNOWN	None	45804	None	None	42961054	42961336	-1	None	None
X	TDGF1P1	ENSG00000227988	ENST00000445734	processed_pseudogene	KNOWN	None	42350	None	None	38254622	38255148	-1	None	None
4	IGJ	ENSG00000132465	ENST00000254801	protein_coding	KNOWN	CCDS3545	5713	480	159	71521258	71532377	-1	None	IGCJ, JCH
4	IGJ	ENSG00000132465	ENST00000510437	protein_coding	KNOWN	CCDS3545	5713	480	159	71522037	71532692	-1	None	IGCJ, JCH
4	IGJ	ENSG00000132465	ENST00000510614	protein_coding	PUTATIVE	None	5713	473	156	71522080	71532601	-1	None	IGCJ, JCH
4	IGJ	ENSG00000132465	ENST00000391614	protein_coding	PUTATIVE	None	5713	472	156	71522102	71532243	-1	None	IGCJ, JCH
4	IGJ	ENSG00000132465	ENST00000470866	protein_coding	KNOWN	None	5713	211	69	71522986	71547534	-1	None	IGCJ, JCH
4	IGJ	ENSG00000132465	ENST00000543780	protein_coding	KNOWN	None	5713	528	175	71522046	71532207	-1	None	IGCJ, JCH
6	SRP72P2	ENSG00000188451	ENST00000344851	processed_pseudogene	KNOWN	None	31096	None	None	158658368	158663829	-1	None	dJ274L14.2
6	SRP72P2	ENSG00000188451	ENST00000538672	processed_pseudogene	KNOWN	None	31096	None	None	158658368	158658949	-1	None	dJ274L14.2
22	RNU6-513P	ENSG00000251913	ENST00000516104	snRNA	KNOWN	None	47476	None	None	42965153	42965256	-1	None	None
20	RNU2-56P	ENSG00000252635	ENST00000516826	snRNA	KNOWN	None	48549	None	None	18246334	18246523	-1	None	None
16	None	ENSG00000260213	ENST00000562315	antisense	KNOWN	None	None	None	None	81050397	81058149	-1	None	None
16	None	ENSG00000260213	ENST00000566390	antisense	KNOWN	None	None	None	None	81056963	81069364	-1	None	None
16	None	ENSG00000260213	ENST00000561808	antisense	KNOWN	None	None	None	None	81057660	81069339	-1	None	None
X	None	ENSG00000232370	ENST00000317902	processed_pseudogene	KNOWN	None	None	None	None	38338468	38339166	1	None	None
19	None	ENSG00000266893	ENST00000589999	processed_transcript	KNOWN	None	None	None	None	28982771	29123635	-1	None	None
7	AKAP9	ENSG00000127914	ENST00000356239	protein_coding	KNOWN	CCDS5622	379	11724	3907	91570181	91739987	1	None	KIAA0803, AKAP350, AKAP450, CG-NAP, YOTIAO, HYPERION, PRKA9, MU-RMS-40.16A, PPP1R45, LQT11
7	AKAP9	ENSG00000127914	ENST00000493453	retained_intron	KNOWN	None	379	None	None	91570230	91671095	1	None	KIAA0803, AKAP350, AKAP450, CG-NAP, YOTIAO, HYPERION, PRKA9, MU-RMS-40.16A, PPP1R45, LQT11
7	AKAP9	ENSG00000127914	ENST00000394564	protein_coding	PUTATIVE	None	379	945	314	91570240	91625366	1	None	KIAA0803, AKAP350, AKAP450, CG-NAP, YOTIAO, HYPERION, PRKA9, MU-RMS-40.16A, PPP1R45, LQT11
7	AKAP9	ENSG00000127914	ENST00000438114	protein_coding	PUTATIVE	None	379	696	231	91603070	91625027	1	None	KIAA0803, AKAP350, AKAP450, CG-NAP, YOTIAO, HYPERION, PRKA9, MU-RMS-40.16A, PPP1R45, LQT11
7	AKAP9	ENSG00000127914	ENST00000484815	retained_intron	KNOWN	None	379	None	None	91670018	91672457	1	None	KIAA0803, AKAP350, AKAP450, CG-NAP, YOTIAO, HYPERION, PRKA9, MU-RMS-40.16A, PPP1R45, LQT11
7	AKAP9	ENSG00000127914	ENST00000491695	processed_transcript	KNOWN	None	379	None	None	91686940	91694768	1	None	KIAA0803, AKAP350, AKAP450, CG-NAP, YOTIAO, HYPERION, PRKA9, MU-RMS-40.16A, PPP1R45, LQT11
7	AKAP9	ENSG00000127914	ENST00000394534	protein_coding	PUTATIVE	None	379	5310	1769	91699452	91738375	1	None	KIAA0803, AKAP350, AKAP450, CG-NAP, YOTIAO, HYPERION, PRKA9, MU-RMS-40.16A, PPP1R45, LQT11
7	AKAP9	ENSG00000127914	ENST00000435423	protein_coding	PUTATIVE	None	379	956	317	91712890	91719955	1	None	KIAA0803, AKAP350, AKAP450, CG-NAP, YOTIAO, HYPERION, PRKA9, MU-RMS-40.16A, PPP1R45, LQT11
7	AKAP9	ENSG00000127914	ENST00000487258	retained_intron	KNOWN	None	379	None	None	91721303	91739982	1	None	KIAA0803, AKAP350, AKAP450, CG-NAP, YOTIAO, HYPERION, PRKA9, MU-RMS-40.16A, PPP1R45, LQT11
7	AKAP9	ENSG00000127914	ENST00000487692	retained_intron	KNOWN	None	379	None	None	91726474	91729356	1	None	KIAA0803, AKAP350, AKAP450, CG-NAP, YOTIAO, HYPERION, PRKA9, MU-RMS-40.16A, PPP1R45, LQT11
7	AKAP9	ENSG00000127914	ENST00000463118	retained_intron	KNOWN	None	379	None	None	91727468	91736826	1	None	KIAA0803, AKAP350, AKAP450, CG-NAP, YOTIAO, HYPERION, PRKA9, MU-RMS-40.16A, PPP1R45, LQT11
7	AKAP9	ENSG00000127914	ENST00000486313	processed_transcript	PUTATIVE	None	379	None	None	91731903	91739781	1	None	KIAA0803, AKAP350, AKAP450, CG-NAP, YOTIAO, HYPERION, PRKA9, MU-RMS-40.16A, PPP1R45, LQT11
7	AKAP9	ENSG00000127914	ENST00000493976	retained_intron	KNOWN	None	379	None	None	91734991	91737243	1	None	KIAA0803, AKAP350, AKAP450, CG-NAP, YOTIAO, HYPERION, PRKA9, MU-RMS-40.16A, PPP1R45, LQT11
7	AKAP9	ENSG00000127914	ENST00000359028	protein_coding	KNOWN	None	379	11736	3911	91570189	91739987	1	None	KIAA0803, AKAP350, AKAP450, CG-NAP, YOTIAO, HYPERION, PRKA9, MU-RMS-40.16A, PPP1R45, LQT11
7	AKAP9	ENSG00000127914	ENST00000358100	protein_coding	KNOWN	None	379	11574	3857	91570189	91739987	1	None	KIAA0803, AKAP350, AKAP450, CG-NAP, YOTIAO, HYPERION, PRKA9, MU-RMS-40.16A, PPP1R45, LQT11
19	TMEM190	ENSG00000160472	ENST00000291934	protein_coding	KNOWN	CCDS33113	29632	534	177	55888204	55889612	1	None	MDAC1
3	RAP2B	ENSG00000181467	ENST00000323534	protein_coding	KNOWN	CCDS3170	9862	552	183	152880029	152886265	1	None	None
11	B3GAT1	ENSG00000109956	ENST00000531778	retained_intron	KNOWN	None	921	None	None	134248398	134257091	-1	CD57, LEU7	GlcAT-P, HNK-1, NK-1
11	B3GAT1	ENSG00000109956	ENST00000312527	protein_coding	KNOWN	CCDS8500	921	1005	334	134248402	134281812	-1	CD57, LEU7	GlcAT-P, HNK-1, NK-1
11	B3GAT1	ENSG00000109956	ENST00000524765	protein_coding	KNOWN	CCDS8500	921	1005	334	134251539	134262247	-1	CD57, LEU7	GlcAT-P, HNK-1, NK-1
11	B3GAT1	ENSG00000109956	ENST00000531510	processed_transcript	KNOWN	None	921	None	None	134253893	134279775	-1	CD57, LEU7	GlcAT-P, HNK-1, NK-1
11	B3GAT1	ENSG00000109956	ENST00000537389	protein_coding	KNOWN	None	921	1044	347	134251539	134257781	-1	CD57, LEU7	GlcAT-P, HNK-1, NK-1
11	B3GAT1	ENSG00000109956	ENST00000392580	protein_coding	KNOWN	CCDS8500	921	1005	334	134248400	134281812	-1	CD57, LEU7	GlcAT-P, HNK-1, NK-1
16	GOT2	ENSG00000125166	ENST00000245206	protein_coding	KNOWN	CCDS10801	4433	1293	430	58741035	58768261	-1	None	mitAAT, KATIV, KAT4
16	GOT2	ENSG00000125166	ENST00000434819	protein_coding	NOVEL	None	4433	1164	387	58741722	58768230	-1	None	mitAAT, KATIV, KAT4
16	GOT2	ENSG00000125166	ENST00000494627	retained_intron	KNOWN	None	4433	None	None	58742953	58750287	-1	None	mitAAT, KATIV, KAT4
16	GOT2	ENSG00000125166	ENST00000564400	processed_transcript	KNOWN	None	4433	None	None	58749917	58768246	-1	None	mitAAT, KATIV, KAT4
16	GOT2	ENSG00000125166	ENST00000496461	retained_intron	KNOWN	None	4433	None	None	58752121	58768206	-1	None	mitAAT, KATIV, KAT4
16	GOT2	ENSG00000125166	ENST00000568368	nonsense_mediated_decay	KNOWN	None	4433	180	59	58752474	58768220	-1	None	mitAAT, KATIV, KAT4
16	GOT2	ENSG00000125166	ENST00000492378	retained_intron	KNOWN	None	4433	None	None	58755549	58768239	-1	None	mitAAT, KATIV, KAT4
19	None	ENSG00000267423	ENST00000592931	lincRNA	KNOWN	None	None	None	None	29000145	29009635	1	None	None
11	LSP1	ENSG00000130592	ENST00000311604	protein_coding	KNOWN	CCDS31334	6707	1020	339	1874200	1913493	1	None	WP34
11	LSP1	ENSG00000130592	ENST00000421485	protein_coding	KNOWN	None	6707	180	59	1884476	1904658	1	None	WP34
11	LSP1	ENSG00000130592	ENST00000446808	protein_coding	KNOWN	None	6707	378	125	1885402	1905227	1	None	WP34
11	LSP1	ENSG00000130592	ENST00000381775	protein_coding	PUTATIVE	CCDS58110	6707	1404	467	1886395	1913493	1	None	WP34
11	LSP1	ENSG00000130592	ENST00000405957	protein_coding	KNOWN	CCDS31335	6707	834	277	1889903	1913493	1	None	WP34
11	LSP1	ENSG00000130592	ENST00000451814	protein_coding	KNOWN	None	6707	194	63	1890374	1904672	1	None	WP34
11	LSP1	ENSG00000130592	ENST00000457279	protein_coding	PUTATIVE	None	6707	825	274	1890872	1908096	1	None	WP34
11	LSP1	ENSG00000130592	ENST00000429923	protein_coding	PUTATIVE	None	6707	525	174	1891380	1905239	1	None	WP34
11	LSP1	ENSG00000130592	ENST00000418975	protein_coding	PUTATIVE	None	6707	366	121	1891474	1902782	1	None	WP34
11	LSP1	ENSG00000130592	ENST00000406638	protein_coding	KNOWN	CCDS31335	6707	834	277	1891474	1913493	1	None	WP34
11	LSP1	ENSG00000130592	ENST00000417766	protein_coding	KNOWN	None	6707	666	221	1892116	1908096	1	None	WP34
11	LSP1	ENSG00000130592	ENST00000472974	processed_transcript	KNOWN	None	6707	None	None	1892582	1908806	1	None	WP34
11	LSP1	ENSG00000130592	ENST00000432093	protein_coding	KNOWN	None	6707	666	221	1897707	1908096	1	None	WP34
11	LSP1	ENSG00000130592	ENST00000485341	processed_transcript	KNOWN	None	6707	None	None	1901907	1913497	1	None	WP34
11	LSP1	ENSG00000130592	ENST00000484895	retained_intron	KNOWN	None	6707	None	None	1905618	1908732	1	None	WP34
11	LSP1	ENSG00000130592	ENST00000464670	retained_intron	KNOWN	None	6707	None	None	1907962	1908575	1	None	WP34
19	None	ENSG00000267537	ENST00000585394	lincRNA	KNOWN	None	None	None	None	29093286	29139210	-1	None	None
20	RN7SKP74	ENSG00000199719	ENST00000362849	misc_RNA	KNOWN	None	45798	None	None	18275787	18276095	-1	None	None
16	None	ENSG00000261061	ENST00000566639	sense_intronic	KNOWN	None	None	None	None	81064375	81065090	1	None	None
16	None	ENSG00000259899	ENST00000564505	antisense	KNOWN	None	None	None	None	12654613	12704901	-1	None	None
19	None	ENSG00000266976	ENST00000587961	lincRNA	KNOWN	None	None	None	None	29097595	29106136	1	None	None
19	EIF3K	ENSG00000178982	ENST00000593149	protein_coding	PUTATIVE	None	24656	396	131	39109735	39127593	1	EIF3S12	eIF3k, PRO1474, HSPC029, PTD001, PLAC-24, M9, ARG134
19	EIF3K	ENSG00000178982	ENST00000248342	protein_coding	KNOWN	CCDS12517	24656	657	218	39109737	39127595	1	EIF3S12	eIF3k, PRO1474, HSPC029, PTD001, PLAC-24, M9, ARG134
19	EIF3K	ENSG00000178982	ENST00000586932	retained_intron	KNOWN	None	24656	None	None	39109826	39116972	1	EIF3S12	eIF3k, PRO1474, HSPC029, PTD001, PLAC-24, M9, ARG134
19	EIF3K	ENSG00000178982	ENST00000593062	processed_transcript	KNOWN	None	24656	None	None	39109826	39121608	1	EIF3S12	eIF3k, PRO1474, HSPC029, PTD001, PLAC-24, M9, ARG134
19	EIF3K	ENSG00000178982	ENST00000538434	protein_coding	PUTATIVE	None	24656	375	124	39109826	39126125	1	EIF3S12	eIF3k, PRO1474, HSPC029, PTD001, PLAC-24, M9, ARG134
19	EIF3K	ENSG00000178982	ENST00000588934	protein_coding	NOVEL	None	24656	414	137	39109826	39127592	1	EIF3S12	eIF3k, PRO1474, HSPC029, PTD001, PLAC-24, M9, ARG134
19	EIF3K	ENSG00000178982	ENST00000545173	protein_coding	PUTATIVE	None	24656	636	211	39109833	39126384	1	EIF3S12	eIF3k, PRO1474, HSPC029, PTD001, PLAC-24, M9, ARG134
19	EIF3K	ENSG00000178982	ENST00000589307	protein_coding	PUTATIVE	None	24656	212	69	39109834	39121460	1	EIF3S12	eIF3k, PRO1474, HSPC029, PTD001, PLAC-24, M9, ARG134
19	EIF3K	ENSG00000178982	ENST00000588422	retained_intron	KNOWN	None	24656	None	None	39109836	39116832	1	EIF3S12	eIF3k, PRO1474, HSPC029, PTD001, PLAC-24, M9, ARG134
19	EIF3K	ENSG00000178982	ENST00000586513	protein_coding	PUTATIVE	None	24656	420	139	39109836	39119208	1	EIF3S12	eIF3k, PRO1474, HSPC029, PTD001, PLAC-24, M9, ARG134
19	EIF3K	ENSG00000178982	ENST00000591409	protein_coding	NOVEL	None	24656	510	169	39109836	39125742	1	EIF3S12	eIF3k, PRO1474, HSPC029, PTD001, PLAC-24, M9, ARG134
19	EIF3K	ENSG00000178982	ENST00000592558	protein_coding	NOVEL	None	24656	579	192	39109851	39127593	1	EIF3S12	eIF3k, PRO1474, HSPC029, PTD001, PLAC-24, M9, ARG134
19	EIF3K	ENSG00000178982	ENST00000588299	retained_intron	KNOWN	None	24656	None	None	39116690	39123540	1	EIF3S12	eIF3k, PRO1474, HSPC029, PTD001, PLAC-24, M9, ARG134
19	EIF3K	ENSG00000178982	ENST00000590134	retained_intron	KNOWN	None	24656	None	None	39122666	39127564	1	EIF3S12	eIF3k, PRO1474, HSPC029, PTD001, PLAC-24, M9, ARG134
14	C14orf180	ENSG00000184601	ENST00000557649	protein_coding	KNOWN	CCDS32166	33795	483	160	105046021	105056852	1	C14orf77	NRAC
14	C14orf180	ENSG00000184601	ENST00000331952	protein_coding	PUTATIVE	None	33795	534	177	105046101	105055880	1	C14orf77	NRAC
14	C14orf180	ENSG00000184601	ENST00000410013	protein_coding	KNOWN	CCDS32166	33795	483	160	105047478	105056145	1	C14orf77	NRAC
5	RNU6-963P	ENSG00000200347	ENST00000363477	snRNA	KNOWN	None	47926	None	None	125888994	125889094	-1	None	None
6	None	ENSG00000236537	ENST00000432358	lincRNA	KNOWN	None	None	None	None	158703295	158733390	1	None	None
19	None	ENSG00000267799	ENST00000590286	processed_pseudogene	KNOWN	None	None	None	None	29281719	29283778	-1	None	None
18	None	ENSG00000268046	ENST00000594251	protein_coding	NOVEL	None	None	174	57	8336437	8337038	-1	None	None
5	None	ENSG00000230929	ENST00000490423	processed_pseudogene	KNOWN	None	None	None	None	125963711	125964011	-1	None	None
5	None	ENSG00000230929	ENST00000593565	processed_pseudogene	KNOWN	None	None	None	None	125963709	125964011	-1	None	None
16	None	ENSG00000260643	ENST00000564536	processed_transcript	KNOWN	None	None	None	None	81087270	81121256	-1	None	None
17	ZNF652	ENSG00000198740	ENST00000513488	processed_transcript	PUTATIVE	None	29147	None	None	47366568	47367222	-1	None	KIAA0924
17	ZNF652	ENSG00000198740	ENST00000508237	nonsense_mediated_decay	KNOWN	None	29147	1281	426	47366570	47439355	-1	None	KIAA0924
17	ZNF652	ENSG00000198740	ENST00000362063	protein_coding	KNOWN	CCDS32677	29147	1821	606	47371927	47439835	-1	None	KIAA0924
17	ZNF652	ENSG00000198740	ENST00000430262	protein_coding	KNOWN	CCDS32677	29147	1821	606	47373361	47439478	-1	None	KIAA0924
3	C3orf79	ENSG00000237787	ENST00000446603	protein_coding	KNOWN	CCDS46937	37259	303	100	153202284	153220486	1	None	None
16	MIR4718	ENSG00000264733	ENST00000580978	miRNA	KNOWN	None	41900	None	None	12814178	12814228	1	None	hsa-mir-4718
16	None	ENSG00000261141	ENST00000562450	antisense	KNOWN	None	None	None	None	81088906	81090031	1	None	None
15	OTUD7A	ENSG00000169918	ENST00000307050	protein_coding	KNOWN	CCDS10026	20718	2781	926	31775329	31947542	-1	C15orf16, OTUD7	CEZANNE2
15	OTUD7A	ENSG00000169918	ENST00000560536	nonsense_mediated_decay	KNOWN	None	20718	342	113	31848202	32162992	-1	C15orf16, OTUD7	CEZANNE2
15	OTUD7A	ENSG00000169918	ENST00000558371	retained_intron	KNOWN	None	20718	None	None	31850386	32162781	-1	C15orf16, OTUD7	CEZANNE2
15	OTUD7A	ENSG00000169918	ENST00000560598	protein_coding	KNOWN	None	20718	331	109	31862221	32162880	-1	C15orf16, OTUD7	CEZANNE2
15	OTUD7A	ENSG00000169918	ENST00000382902	protein_coding	KNOWN	None	20718	2802	933	31775329	31947542	-1	C15orf16, OTUD7	CEZANNE2
20	None	ENSG00000237259	ENST00000436848	antisense	KNOWN	None	None	None	None	18294409	18295755	-1	None	None
19	None	ENSG00000267617	ENST00000585883	lincRNA	KNOWN	None	None	None	None	29360703	29370077	1	None	None
16	None	ENSG00000260378	ENST00000564016	antisense	KNOWN	None	None	None	None	12839730	12851692	1	None	None
6	None	ENSG00000226079	ENST00000435802	lincRNA	KNOWN	None	None	None	None	114844615	114857039	-1	None	None
18	RAB12	ENSG00000206418	ENST00000329286	protein_coding	KNOWN	CCDS42410	31332	735	244	8609443	8639379	1	None	None
18	RAB12	ENSG00000206418	ENST00000580987	retained_intron	KNOWN	None	31332	None	None	8632857	8635565	1	None	None
19	None	ENSG00000267528	ENST00000591285	lincRNA	KNOWN	None	None	None	None	29374337	29444152	1	None	None
19	None	ENSG00000267683	ENST00000587850	lincRNA	KNOWN	None	None	None	None	29383838	29386856	1	None	None
6	None	ENSG00000238019	ENST00000435116	antisense	KNOWN	None	None	None	None	158818917	158819593	-1	None	None
1	PITHD1	ENSG00000057757	ENST00000246151	protein_coding	KNOWN	CCDS240	25022	636	211	24104895	24114722	1	C1orf128	HT014, TXNL1CL
1	PITHD1	ENSG00000057757	ENST00000415372	protein_coding	KNOWN	None	25022	210	69	24105847	24112868	1	C1orf128	HT014, TXNL1CL
1	PITHD1	ENSG00000057757	ENST00000374524	protein_coding	KNOWN	None	25022	297	98	24111682	24114722	1	C1orf128	HT014, TXNL1CL
X	AVPR2	ENSG00000126895	ENST00000434679	nonsense_mediated_decay	KNOWN	None	897	147	48	153167985	153172619	1	DIR3, DIR	V2R
X	AVPR2	ENSG00000126895	ENST00000358927	protein_coding	KNOWN	CCDS14735	897	1116	371	153170189	153172620	1	DIR3, DIR	V2R
X	AVPR2	ENSG00000126895	ENST00000430697	protein_coding	PUTATIVE	None	897	1116	371	153170455	153172270	1	DIR3, DIR	V2R
X	AVPR2	ENSG00000126895	ENST00000370049	protein_coding	PUTATIVE	CCDS55539	897	930	309	153170568	153172235	1	DIR3, DIR	V2R
X	AVPR2	ENSG00000126895	ENST00000337474	protein_coding	KNOWN	CCDS14735	897	1116	371	153170529	153172617	1	DIR3, DIR	V2R
5	None	ENSG00000213630	ENST00000505182	processed_pseudogene	KNOWN	None	None	None	None	125999029	125999260	-1	None	None
6	RN7SL173P	ENSG00000243373	ENST00000461853	misc_RNA	KNOWN	None	46189	None	None	158858829	158859118	1	None	None
19	None	ENSG00000238514	ENST00000459344	snoRNA	NOVEL	None	None	None	None	29421910	29422012	1	None	None
19	None	ENSG00000267027	ENST00000590167	lincRNA	KNOWN	None	None	None	None	29440344	29441107	-1	None	None
6	VNN2	ENSG00000112303	ENST00000418593	nonsense_mediated_decay	KNOWN	None	12706	660	219	133065009	133079022	-1	None	FOAP-4, GPI-80
6	VNN2	ENSG00000112303	ENST00000326499	protein_coding	KNOWN	CCDS5161	12706	1563	520	133065009	133079147	-1	None	FOAP-4, GPI-80
6	VNN2	ENSG00000112303	ENST00000422400	nonsense_mediated_decay	KNOWN	None	12706	651	216	133065034	133079022	-1	None	FOAP-4, GPI-80
6	VNN2	ENSG00000112303	ENST00000392389	nonsense_mediated_decay	KNOWN	None	12706	873	290	133065165	133079109	-1	None	FOAP-4, GPI-80
6	VNN2	ENSG00000112303	ENST00000525270	protein_coding	KNOWN	CCDS5162	12706	1404	467	133065335	133084586	-1	None	FOAP-4, GPI-80
6	VNN2	ENSG00000112303	ENST00000525674	nonsense_mediated_decay	KNOWN	None	12706	588	195	133065439	133079022	-1	None	FOAP-4, GPI-80
6	VNN2	ENSG00000112303	ENST00000525289	protein_coding	NOVEL	CCDS56451	12706	900	299	133065439	133079022	-1	None	FOAP-4, GPI-80
6	VNN2	ENSG00000112303	ENST00000532053	nonsense_mediated_decay	KNOWN	None	12706	579	192	133065439	133079022	-1	None	FOAP-4, GPI-80
6	VNN2	ENSG00000112303	ENST00000528801	nonsense_mediated_decay	KNOWN	None	12706	360	119	133065439	133079022	-1	None	FOAP-4, GPI-80
6	VNN2	ENSG00000112303	ENST00000533835	nonsense_mediated_decay	KNOWN	None	12706	555	184	133070888	133079043	-1	None	FOAP-4, GPI-80
6	VNN2	ENSG00000112303	ENST00000531279	nonsense_mediated_decay	KNOWN	None	12706	396	131	133073853	133084569	-1	None	FOAP-4, GPI-80
6	VNN2	ENSG00000112303	ENST00000526157	processed_transcript	KNOWN	None	12706	None	None	133073863	133079043	-1	None	FOAP-4, GPI-80
6	VNN2	ENSG00000112303	ENST00000526192	processed_transcript	KNOWN	None	12706	None	None	133074592	133079012	-1	None	FOAP-4, GPI-80
6	VNN2	ENSG00000112303	ENST00000524919	protein_coding	KNOWN	None	12706	498	165	133077021	133084598	-1	None	FOAP-4, GPI-80
6	VNN2	ENSG00000112303	ENST00000530536	protein_coding	KNOWN	None	12706	307	101	133077053	133084594	-1	None	FOAP-4, GPI-80
6	VNN2	ENSG00000112303	ENST00000532012	protein_coding	KNOWN	None	12706	303	100	133078596	133084570	-1	None	FOAP-4, GPI-80
11	RHOD	ENSG00000173156	ENST00000308831	protein_coding	KNOWN	CCDS8155	670	633	210	66824289	66839484	1	ARHD	RhoHP1, RhoD, Rho
11	RHOD	ENSG00000173156	ENST00000533360	protein_coding	PUTATIVE	None	670	357	118	66824331	66837988	1	ARHD	RhoHP1, RhoD, Rho
11	RHOD	ENSG00000173156	ENST00000532559	protein_coding	PUTATIVE	None	670	435	144	66824360	66839162	1	ARHD	RhoHP1, RhoD, Rho
16	USP10	ENSG00000103194	ENST00000219473	protein_coding	KNOWN	CCDS45537	12608	2397	798	84733584	84813187	1	None	UBPO, KIAA0190
16	USP10	ENSG00000103194	ENST00000562743	processed_transcript	KNOWN	None	12608	None	None	84733592	84778817	1	None	UBPO, KIAA0190
16	USP10	ENSG00000103194	ENST00000569511	processed_transcript	KNOWN	None	12608	None	None	84733601	84766667	1	None	UBPO, KIAA0190
16	USP10	ENSG00000103194	ENST00000562092	processed_transcript	KNOWN	None	12608	None	None	84733601	84773918	1	None	UBPO, KIAA0190
16	USP10	ENSG00000103194	ENST00000563892	protein_coding	NOVEL	None	12608	474	157	84733601	84793842	1	None	UBPO, KIAA0190
16	USP10	ENSG00000103194	ENST00000540269	nonsense_mediated_decay	KNOWN	None	12608	189	62	84733601	84813528	1	None	UBPO, KIAA0190
16	USP10	ENSG00000103194	ENST00000564566	processed_transcript	KNOWN	None	12608	None	None	84733608	84742928	1	None	UBPO, KIAA0190
16	USP10	ENSG00000103194	ENST00000562283	protein_coding	PUTATIVE	None	12608	424	140	84733610	84778529	1	None	UBPO, KIAA0190
16	USP10	ENSG00000103194	ENST00000563048	nonsense_mediated_decay	KNOWN	None	12608	108	35	84733610	84812621	1	None	UBPO, KIAA0190
16	USP10	ENSG00000103194	ENST00000570191	protein_coding	KNOWN	None	12608	2409	802	84733610	84812800	1	None	UBPO, KIAA0190
16	USP10	ENSG00000103194	ENST00000563386	nonsense_mediated_decay	KNOWN	None	12608	192	63	84733614	84778472	1	None	UBPO, KIAA0190
16	USP10	ENSG00000103194	ENST00000569038	protein_coding	PUTATIVE	None	12608	624	207	84733635	84801876	1	None	UBPO, KIAA0190
16	USP10	ENSG00000103194	ENST00000570053	protein_coding	NOVEL	None	12608	451	149	84733646	84801881	1	None	UBPO, KIAA0190
16	USP10	ENSG00000103194	ENST00000566512	retained_intron	KNOWN	None	12608	None	None	84766744	84778386	1	None	UBPO, KIAA0190
16	USP10	ENSG00000103194	ENST00000563023	retained_intron	KNOWN	None	12608	None	None	84766815	84778517	1	None	UBPO, KIAA0190
16	USP10	ENSG00000103194	ENST00000563433	retained_intron	KNOWN	None	12608	None	None	84792884	84797776	1	None	UBPO, KIAA0190
16	USP10	ENSG00000103194	ENST00000566378	retained_intron	KNOWN	None	12608	None	None	84793442	84796619	1	None	UBPO, KIAA0190
16	USP10	ENSG00000103194	ENST00000569925	protein_coding	PUTATIVE	None	12608	229	75	84801871	84812912	1	None	UBPO, KIAA0190
16	USP10	ENSG00000103194	ENST00000567526	protein_coding	NOVEL	None	12608	330	109	84801873	84812593	1	None	UBPO, KIAA0190
19	None	ENSG00000267240	ENST00000589198	lincRNA	KNOWN	None	None	None	None	29451413	29455850	-1	None	None
10	TUBB8	ENSG00000173876	ENST00000309812	protein_coding	KNOWN	CCDS7051	20773	1335	444	92832	95241	-1	None	bA631M21.2
10	TUBB8	ENSG00000173876	ENST00000332708	protein_coding	KNOWN	None	20773	228	75	93434	95209	-1	None	bA631M21.2
10	TUBB8	ENSG00000173876	ENST00000413237	processed_transcript	KNOWN	None	20773	None	None	93518	120103	-1	None	bA631M21.2
10	TUBB8	ENSG00000173876	ENST00000482075	retained_intron	KNOWN	None	20773	None	None	93645	95209	-1	None	bA631M21.2
10	TUBB8	ENSG00000173876	ENST00000447903	protein_coding	KNOWN	None	20773	1119	372	92828	95504	-1	None	bA631M21.2
14	TRAJ46	ENSG00000211843	ENST00000390491	TR_J_gene	KNOWN	None	12077	63	20	22962389	22962451	1	None	None
20	GPCPD1	ENSG00000125772	ENST00000418646	protein_coding	KNOWN	None	26957	793	263	5525085	5556154	-1	None	KIAA1434, GDE5, GDPD6
20	GPCPD1	ENSG00000125772	ENST00000481038	processed_transcript	KNOWN	None	26957	None	None	5525085	5566683	-1	None	KIAA1434, GDE5, GDPD6
20	GPCPD1	ENSG00000125772	ENST00000379019	protein_coding	KNOWN	CCDS13090	26957	2019	672	5525085	5591672	-1	None	KIAA1434, GDE5, GDPD6
20	GPCPD1	ENSG00000125772	ENST00000462080	processed_transcript	KNOWN	None	26957	None	None	5527987	5529027	-1	None	KIAA1434, GDE5, GDPD6
20	GPCPD1	ENSG00000125772	ENST00000473797	processed_transcript	KNOWN	None	26957	None	None	5548167	5554769	-1	None	KIAA1434, GDE5, GDPD6
20	GPCPD1	ENSG00000125772	ENST00000481690	processed_transcript	KNOWN	None	26957	None	None	5556546	5591570	-1	None	KIAA1434, GDE5, GDPD6
12	MFAP5	ENSG00000197614	ENST00000535411	protein_coding	PUTATIVE	None	29673	491	162	8789942	8814669	-1	None	MAGP2, MP25
12	MFAP5	ENSG00000197614	ENST00000543467	protein_coding	PUTATIVE	None	29673	240	79	8793842	8803150	-1	None	MAGP2, MP25
12	MFAP5	ENSG00000197614	ENST00000359478	protein_coding	KNOWN	CCDS8595	29673	522	173	8798552	8815408	-1	None	MAGP2, MP25
12	MFAP5	ENSG00000197614	ENST00000433590	protein_coding	NOVEL	None	29673	447	148	8799086	8815480	-1	None	MAGP2, MP25
12	MFAP5	ENSG00000197614	ENST00000396549	protein_coding	NOVEL	None	29673	492	163	8800186	8815422	-1	None	MAGP2, MP25
12	MFAP5	ENSG00000197614	ENST00000543369	protein_coding	NOVEL	None	29673	456	151	8800234	8815283	-1	None	MAGP2, MP25
12	MFAP5	ENSG00000197614	ENST00000544211	nonsense_mediated_decay	KNOWN	None	29673	387	128	8800473	8815285	-1	None	MAGP2, MP25
12	MFAP5	ENSG00000197614	ENST00000535336	protein_coding	NOVEL	None	29673	330	109	8800552	8815321	-1	None	MAGP2, MP25
12	MFAP5	ENSG00000197614	ENST00000538694	processed_transcript	KNOWN	None	29673	None	None	8800698	8811174	-1	None	MAGP2, MP25
12	MFAP5	ENSG00000197614	ENST00000537009	nonsense_mediated_decay	KNOWN	None	29673	417	138	8800736	8815298	-1	None	MAGP2, MP25
12	MFAP5	ENSG00000197614	ENST00000534833	retained_intron	KNOWN	None	29673	None	None	8802974	8815271	-1	None	MAGP2, MP25
12	MFAP5	ENSG00000197614	ENST00000544889	protein_coding	KNOWN	None	29673	273	90	8803160	8815215	-1	None	MAGP2, MP25
12	MFAP5	ENSG00000197614	ENST00000538107	processed_transcript	KNOWN	None	29673	None	None	8804325	8815484	-1	None	MAGP2, MP25
12	MFAP5	ENSG00000197614	ENST00000537128	retained_intron	KNOWN	None	29673	None	None	8806860	8815484	-1	None	MAGP2, MP25
12	MFAP5	ENSG00000197614	ENST00000540087	protein_coding	KNOWN	None	29673	492	163	8800687	8814700	-1	None	MAGP2, MP25
19	LINC00906	ENSG00000267339	ENST00000589921	lincRNA	KNOWN	None	27121	None	None	29456038	29460055	1	None	None
19	LINC00906	ENSG00000267339	ENST00000585813	lincRNA	KNOWN	None	27121	None	None	29459375	29461206	1	None	None
19	LINC00906	ENSG00000267339	ENST00000587998	lincRNA	KNOWN	None	27121	None	None	29459804	29461577	1	None	None
19	LINC00906	ENSG00000267339	ENST00000589466	lincRNA	KNOWN	None	27121	None	None	29460613	29461579	1	None	None
19	LINC00906	ENSG00000267339	ENST00000588609	processed_transcript	KNOWN	None	27121	None	None	29460650	29461579	1	None	None
19	LINC00906	ENSG00000267339	ENST00000589623	lincRNA	KNOWN	None	27121	None	None	29461107	29461781	1	None	None
9	C9orf84	ENSG00000165181	ENST00000394779	protein_coding	KNOWN	CCDS43863	26535	4218	1405	114448453	114521813	-1	None	FLJ32779
9	C9orf84	ENSG00000165181	ENST00000394777	protein_coding	NOVEL	None	26535	4113	1370	114448453	114521813	-1	None	FLJ32779
9	C9orf84	ENSG00000165181	ENST00000318737	protein_coding	KNOWN	CCDS6781	26535	4335	1444	114448853	114545773	-1	None	FLJ32779
9	C9orf84	ENSG00000165181	ENST00000374283	protein_coding	KNOWN	None	26535	1467	488	114500149	114557288	-1	None	FLJ32779
9	C9orf84	ENSG00000165181	ENST00000374287	protein_coding	KNOWN	CCDS6781	26535	4335	1444	114448799	114557212	-1	None	FLJ32779
X	FTLP16	ENSG00000229735	ENST00000446400	processed_pseudogene	KNOWN	None	37966	None	None	38344005	38344517	-1	None	None
8	None	ENSG00000255313	ENST00000531948	lincRNA	KNOWN	None	None	None	None	125948766	125956007	-1	None	None
17	TUBG1	ENSG00000131462	ENST00000251413	protein_coding	KNOWN	CCDS11433	12417	1356	451	40761694	40767252	1	TUBG	TUBGCP1
17	TUBG1	ENSG00000131462	ENST00000588056	retained_intron	KNOWN	None	12417	None	None	40761704	40764284	1	TUBG	TUBGCP1
17	TUBG1	ENSG00000131462	ENST00000591509	protein_coding	NOVEL	None	12417	795	264	40761704	40765929	1	TUBG	TUBGCP1
17	TUBG1	ENSG00000131462	ENST00000589688	nonsense_mediated_decay	KNOWN	None	12417	408	135	40761707	40767239	1	TUBG	TUBGCP1
17	TUBG1	ENSG00000131462	ENST00000589613	retained_intron	KNOWN	None	12417	None	None	40761734	40763285	1	TUBG	TUBGCP1
8	None	ENSG00000253513	ENST00000523030	antisense	KNOWN	None	None	None	None	126009227	126010440	-1	None	None
19	MIR4750	ENSG00000263462	ENST00000584564	miRNA	KNOWN	None	41765	None	None	50391432	50391487	1	None	hsa-mir-4750
4	TDO2	ENSG00000151790	ENST00000503634	processed_transcript	KNOWN	None	11708	None	None	156775890	156826308	1	None	TDO, TPH2
4	TDO2	ENSG00000151790	ENST00000506181	processed_transcript	KNOWN	None	11708	None	None	156775909	156786254	1	None	TDO, TPH2
4	TDO2	ENSG00000151790	ENST00000506072	protein_coding	PUTATIVE	None	11708	196	64	156775914	156831262	1	None	TDO, TPH2
4	TDO2	ENSG00000151790	ENST00000507590	protein_coding	PUTATIVE	None	11708	148	48	156775923	156831214	1	None	TDO, TPH2
4	TDO2	ENSG00000151790	ENST00000509738	retained_intron	KNOWN	None	11708	None	None	156824845	156826946	1	None	TDO, TPH2
4	TDO2	ENSG00000151790	ENST00000536354	protein_coding	KNOWN	CCDS34086	11708	1221	406	156824847	156841558	1	None	TDO, TPH2
4	TDO2	ENSG00000151790	ENST00000512584	retained_intron	KNOWN	None	11708	None	None	156826972	156841550	1	None	TDO, TPH2
4	TDO2	ENSG00000151790	ENST00000510293	processed_transcript	KNOWN	None	11708	None	None	156835493	156840011	1	None	TDO, TPH2
16	SLC9A3R2	ENSG00000065054	ENST00000567504	protein_coding	PUTATIVE	None	11076	453	150	2075357	2086390	1	None	SIP-1, TKA-1, NHERF-2, E3KARP
16	SLC9A3R2	ENSG00000065054	ENST00000424542	protein_coding	KNOWN	CCDS45382	11076	1014	337	2076869	2089027	1	None	SIP-1, TKA-1, NHERF-2, E3KARP
16	SLC9A3R2	ENSG00000065054	ENST00000432365	protein_coding	KNOWN	CCDS45383	11076	981	326	2076929	2088490	1	None	SIP-1, TKA-1, NHERF-2, E3KARP
16	SLC9A3R2	ENSG00000065054	ENST00000563587	protein_coding	PUTATIVE	None	11076	696	231	2079528	2088166	1	None	SIP-1, TKA-1, NHERF-2, E3KARP
16	SLC9A3R2	ENSG00000065054	ENST00000561844	protein_coding	PUTATIVE	None	11076	500	165	2079755	2088025	1	None	SIP-1, TKA-1, NHERF-2, E3KARP
16	SLC9A3R2	ENSG00000065054	ENST00000565086	processed_transcript	KNOWN	None	11076	None	None	2082813	2086824	1	None	SIP-1, TKA-1, NHERF-2, E3KARP
16	SLC9A3R2	ENSG00000065054	ENST00000565855	protein_coding	PUTATIVE	None	11076	671	222	2083265	2087981	1	None	SIP-1, TKA-1, NHERF-2, E3KARP
16	SLC9A3R2	ENSG00000065054	ENST00000566198	protein_coding	PUTATIVE	CCDS58407	11076	681	226	2083272	2088422	1	None	SIP-1, TKA-1, NHERF-2, E3KARP
16	SLC9A3R2	ENSG00000065054	ENST00000564033	retained_intron	KNOWN	None	11076	None	None	2085982	2088129	1	None	SIP-1, TKA-1, NHERF-2, E3KARP
8	KIAA0196-AS1	ENSG00000253167	ENST00000519140	antisense	KNOWN	None	43440	None	None	126052926	126057231	1	None	None
20	None	ENSG00000230010	ENST00000457009	lincRNA	KNOWN	None	None	None	None	18303196	18339944	-1	None	None
20	None	ENSG00000230010	ENST00000412241	lincRNA	KNOWN	None	None	None	None	18304299	18339903	-1	None	None
19	MIR4751	ENSG00000265438	ENST00000578027	miRNA	KNOWN	None	41819	None	None	50436321	50436394	1	None	hsa-mir-4751
19	None	ENSG00000221125	ENST00000408198	snoRNA	NOVEL	None	None	None	None	50452574	50452784	-1	None	None
8	FAM203A	ENSG00000235173	ENST00000347708	protein_coding	KNOWN	CCDS6417	24161	1173	390	145192672	145195746	1	C8orf30A	FLJ40907, LOC51236
8	FAM203A	ENSG00000235173	ENST00000533266	nonsense_mediated_decay	KNOWN	None	24161	258	85	145192707	145195627	1	C8orf30A	FLJ40907, LOC51236
8	FAM203A	ENSG00000235173	ENST00000530074	processed_transcript	KNOWN	None	24161	None	None	145192713	145193700	1	C8orf30A	FLJ40907, LOC51236
8	FAM203A	ENSG00000235173	ENST00000530409	retained_intron	KNOWN	None	24161	None	None	145193369	145194011	1	C8orf30A	FLJ40907, LOC51236
8	FAM203A	ENSG00000235173	ENST00000525101	retained_intron	KNOWN	None	24161	None	None	145193586	145194323	1	C8orf30A	FLJ40907, LOC51236
8	FAM203A	ENSG00000235173	ENST00000534255	retained_intron	KNOWN	None	24161	None	None	145193662	145195616	1	C8orf30A	FLJ40907, LOC51236
20	ARF4P2	ENSG00000236527	ENST00000430209	processed_pseudogene	KNOWN	None	16599	None	None	61503602	61504428	-1	None	dJ885L7.7
22	RNU12	ENSG00000270022	ENST00000602478	lincRNA	KNOWN	None	19380	None	None	43011250	43011913	1	RNU12P	RNU12-1
22	RNU12	ENSG00000270022	ENST00000362512	snRNA	KNOWN	None	19380	None	None	43011250	43011399	1	RNU12P	RNU12-1
9	None	ENSG00000254483	ENST00000532209	unprocessed_pseudogene	KNOWN	None	None	None	None	100000927	100008466	1	None	None
11	KRT18P59	ENSG00000187686	ENST00000534728	processed_transcript	KNOWN	None	48886	None	None	124983057	124996677	1	None	None
11	KRT18P59	ENSG00000187686	ENST00000524879	transcribed_processed_pseudogene	KNOWN	None	48886	None	None	124983465	124984695	1	None	None
19	SIGLEC16	ENSG00000161643	ENST00000602139	processed_transcript	KNOWN	None	24851	None	None	50472930	50479071	1	SIGLECP16	Siglec-P16
19	SIGLEC16	ENSG00000161643	ENST00000599858	transcribed_unprocessed_pseudogene	KNOWN	None	24851	None	None	50472959	50476367	1	SIGLECP16	Siglec-P16
19	SIGLEC16	ENSG00000161643	ENST00000417280	unprocessed_pseudogene	KNOWN	None	24851	None	None	50472857	50478191	1	SIGLECP16	Siglec-P16
19	SIGLEC16	ENSG00000161643	ENST00000456956	unprocessed_pseudogene	KNOWN	None	24851	None	None	50472857	50478191	1	SIGLECP16	Siglec-P16
22	None	ENSG00000200448	ENST00000363578	misc_RNA	NOVEL	None	None	None	None	43158866	43158965	-1	None	None
22	RPL5P34	ENSG00000234009	ENST00000426545	processed_pseudogene	KNOWN	None	36463	None	None	43172412	43173302	-1	None	None
4	None	ENSG00000251244	ENST00000508265	lincRNA	KNOWN	None	None	None	None	156436879	156438611	1	None	None
3	METTL6	ENSG00000206562	ENST00000443029	protein_coding	KNOWN	CCDS43056	28343	855	284	15422782	15469025	-1	None	MGC24132
3	METTL6	ENSG00000206562	ENST00000584799	processed_transcript	KNOWN	None	28343	None	None	15425150	15440998	-1	None	MGC24132
3	METTL6	ENSG00000206562	ENST00000458728	protein_coding	PUTATIVE	None	28343	316	104	15425409	15457414	-1	None	MGC24132
3	METTL6	ENSG00000206562	ENST00000383790	protein_coding	KNOWN	CCDS43056	28343	855	284	15452524	15469025	-1	None	MGC24132
3	METTL6	ENSG00000206562	ENST00000450816	protein_coding	PUTATIVE	None	28343	720	239	15452525	15469047	-1	None	MGC24132
3	METTL6	ENSG00000206562	ENST00000489881	processed_transcript	KNOWN	None	28343	None	None	15452837	15466572	-1	None	MGC24132
3	METTL6	ENSG00000206562	ENST00000485131	processed_transcript	KNOWN	None	28343	None	None	15452843	15457367	-1	None	MGC24132
3	METTL6	ENSG00000206562	ENST00000453819	protein_coding	PUTATIVE	None	28343	477	158	15455178	15466542	-1	None	MGC24132
3	METTL6	ENSG00000206562	ENST00000383789	protein_coding	PUTATIVE	None	28343	723	240	15455881	15469039	-1	None	MGC24132
3	METTL6	ENSG00000206562	ENST00000598878	protein_coding	KNOWN	None	28343	413	136	15457074	15482073	-1	None	MGC24132
6	TMEM14C	ENSG00000111843	ENST00000229563	protein_coding	KNOWN	CCDS4514	20952	339	112	10723208	10731362	1	C6orf53	HSPC194, bA421M1.6, NET26
6	TMEM14C	ENSG00000111843	ENST00000466421	processed_transcript	KNOWN	None	20952	None	None	10723342	10730996	1	C6orf53	HSPC194, bA421M1.6, NET26
6	TMEM14C	ENSG00000111843	ENST00000467415	processed_transcript	KNOWN	None	20952	None	None	10723358	10731362	1	C6orf53	HSPC194, bA421M1.6, NET26
6	TMEM14C	ENSG00000111843	ENST00000495549	processed_transcript	KNOWN	None	20952	None	None	10724655	10728960	1	C6orf53	HSPC194, bA421M1.6, NET26
6	TMEM14C	ENSG00000111843	ENST00000541412	protein_coding	KNOWN	CCDS4514	20952	339	112	10723148	10731352	1	C6orf53	HSPC194, bA421M1.6, NET26
4	None	ENSG00000260244	ENST00000569449	sense_overlapping	KNOWN	None	None	None	None	156655600	156658214	1	None	None
22	GOLGA2P4	ENSG00000229608	ENST00000441462	unprocessed_pseudogene	KNOWN	None	38600	None	None	43180468	43183106	1	None	None
Y	TXLNG2P	ENSG00000131002	ENST00000407724	processed_transcript	KNOWN	None	18473	None	None	21729199	21752133	1	CYorf15A, CYorf15B	None
Y	TXLNG2P	ENSG00000131002	ENST00000459719	retained_intron	KNOWN	None	18473	None	None	21729236	21752304	1	CYorf15A, CYorf15B	None
Y	TXLNG2P	ENSG00000131002	ENST00000447520	processed_transcript	KNOWN	None	18473	None	None	21729268	21752309	1	CYorf15A, CYorf15B	None
Y	TXLNG2P	ENSG00000131002	ENST00000445715	transcribed_unprocessed_pseudogene	KNOWN	None	18473	None	None	21729268	21766006	1	CYorf15A, CYorf15B	None
Y	TXLNG2P	ENSG00000131002	ENST00000538014	retained_intron	KNOWN	None	18473	None	None	21729673	21751735	1	CYorf15A, CYorf15B	None
Y	TXLNG2P	ENSG00000131002	ENST00000447202	retained_intron	KNOWN	None	18473	None	None	21729715	21751733	1	CYorf15A, CYorf15B	None
Y	TXLNG2P	ENSG00000131002	ENST00000588613	processed_transcript	KNOWN	None	18473	None	None	21750429	21755603	1	CYorf15A, CYorf15B	None
Y	TXLNG2P	ENSG00000131002	ENST00000589075	processed_transcript	KNOWN	None	18473	None	None	21750456	21752305	1	CYorf15A, CYorf15B	None
Y	TXLNG2P	ENSG00000131002	ENST00000585549	processed_transcript	KNOWN	None	18473	None	None	21750495	21755488	1	CYorf15A, CYorf15B	None
Y	TXLNG2P	ENSG00000131002	ENST00000587095	processed_transcript	KNOWN	None	18473	None	None	21750497	21755488	1	CYorf15A, CYorf15B	None
Y	TXLNG2P	ENSG00000131002	ENST00000488280	processed_transcript	KNOWN	None	18473	None	None	21752639	21755537	1	CYorf15A, CYorf15B	None
Y	TXLNG2P	ENSG00000131002	ENST00000253320	processed_transcript	KNOWN	None	18473	None	None	21754336	21768160	1	CYorf15A, CYorf15B	None
Y	TXLNG2P	ENSG00000131002	ENST00000593000	retained_intron	KNOWN	None	18473	None	None	21754974	21756047	1	CYorf15A, CYorf15B	None
Y	TXLNG2P	ENSG00000131002	ENST00000592697	processed_transcript	KNOWN	None	18473	None	None	21759243	21765937	1	CYorf15A, CYorf15B	None
Y	TXLNG2P	ENSG00000131002	ENST00000251749	unprocessed_pseudogene	KNOWN	None	18473	None	None	21729235	21752308	1	CYorf15A, CYorf15B	None
Y	TXLNG2P	ENSG00000131002	ENST00000382832	unprocessed_pseudogene	KNOWN	None	18473	None	None	21758442	21767698	1	CYorf15A, CYorf15B	None
17	None	ENSG00000262039	ENST00000576461	protein_coding	PUTATIVE	None	None	237	78	47448102	47554350	1	None	None
7	PODXL	ENSG00000128567	ENST00000446198	nonsense_mediated_decay	KNOWN	None	9171	975	324	131185021	131241322	-1	None	PCLP, Gp200, PC
7	PODXL	ENSG00000128567	ENST00000484346	retained_intron	KNOWN	None	9171	None	None	131188709	131190864	-1	None	PCLP, Gp200, PC
7	PODXL	ENSG00000128567	ENST00000378555	protein_coding	KNOWN	CCDS34755	9171	1677	558	131188890	131241366	-1	None	PCLP, Gp200, PC
7	PODXL	ENSG00000128567	ENST00000322985	protein_coding	KNOWN	CCDS47714	9171	1581	526	131188890	131241368	-1	None	PCLP, Gp200, PC
7	PODXL	ENSG00000128567	ENST00000490761	retained_intron	KNOWN	None	9171	None	None	131190635	131191686	-1	None	PCLP, Gp200, PC
7	PODXL	ENSG00000128567	ENST00000487965	retained_intron	KNOWN	None	9171	None	None	131190648	131194161	-1	None	PCLP, Gp200, PC
7	PODXL	ENSG00000128567	ENST00000482581	retained_intron	KNOWN	None	9171	None	None	131193828	131195657	-1	None	PCLP, Gp200, PC
7	PODXL	ENSG00000128567	ENST00000465001	processed_transcript	KNOWN	None	9171	None	None	131195954	131242976	-1	None	PCLP, Gp200, PC
7	PODXL	ENSG00000128567	ENST00000541194	protein_coding	KNOWN	None	9171	1683	560	131185023	131241376	-1	None	PCLP, Gp200, PC
7	PODXL	ENSG00000128567	ENST00000537928	protein_coding	KNOWN	None	9171	1581	526	131185023	131241376	-1	None	PCLP, Gp200, PC
22	None	ENSG00000226989	ENST00000423154	processed_pseudogene	KNOWN	None	None	None	None	43249409	43249805	-1	None	None
22	None	ENSG00000230319	ENST00000443063	antisense	KNOWN	None	None	None	None	43434591	43448372	1	None	None
16	None	ENSG00000261838	ENST00000568362	antisense	KNOWN	None	None	None	None	81103459	81110203	1	None	None
16	None	ENSG00000261838	ENST00000563072	antisense	KNOWN	None	None	None	None	81105603	81110203	1	None	None
7	None	ENSG00000267052	ENST00000591803	lincRNA	KNOWN	None	None	None	None	106211393	106239354	-1	None	None
12	None	ENSG00000222579	ENST00000410647	misc_RNA	NOVEL	None	None	None	None	105245602	105245696	1	None	None
22	None	ENSG00000234735	ENST00000446663	processed_pseudogene	KNOWN	None	None	None	None	43488173	43488530	1	None	None
5	IL17B	ENSG00000127743	ENST00000518814	processed_transcript	PUTATIVE	None	5982	None	None	148750887	148753905	-1	None	IL-17B, ZCYTO7, IL-20, MGC138900, MGC138901, NIRF
5	IL17B	ENSG00000127743	ENST00000261796	protein_coding	KNOWN	CCDS4297	5982	543	180	148753830	148758839	-1	None	IL-17B, ZCYTO7, IL-20, MGC138900, MGC138901, NIRF
5	IL17B	ENSG00000127743	ENST00000505432	processed_transcript	KNOWN	None	5982	None	None	148753920	148783765	-1	None	IL-17B, ZCYTO7, IL-20, MGC138900, MGC138901, NIRF
4	PROM1	ENSG00000007062	ENST00000503884	nonsense_mediated_decay	KNOWN	None	9454	197	64	15964699	15985926	-1	PROML1, MCDR2, STGD4	AC133, CD133, RP41, CORD12
4	PROM1	ENSG00000007062	ENST00000505450	protein_coding	NOVEL	CCDS54746	9454	2571	856	15969851	16086001	-1	PROML1, MCDR2, STGD4	AC133, CD133, RP41, CORD12
4	PROM1	ENSG00000007062	ENST00000513448	retained_intron	KNOWN	None	9454	None	None	15969853	15973568	-1	PROML1, MCDR2, STGD4	AC133, CD133, RP41, CORD12
4	PROM1	ENSG00000007062	ENST00000508167	protein_coding	NOVEL	CCDS54746	9454	2571	856	15969853	16085355	-1	PROML1, MCDR2, STGD4	AC133, CD133, RP41, CORD12
4	PROM1	ENSG00000007062	ENST00000510224	protein_coding	KNOWN	CCDS47029	9454	2598	865	15969857	16085324	-1	PROML1, MCDR2, STGD4	AC133, CD133, RP41, CORD12
4	PROM1	ENSG00000007062	ENST00000513946	protein_coding	NOVEL	None	9454	280	92	15970715	15987413	-1	PROML1, MCDR2, STGD4	AC133, CD133, RP41, CORD12
4	PROM1	ENSG00000007062	ENST00000511270	processed_transcript	KNOWN	None	9454	None	None	15987134	15987660	-1	PROML1, MCDR2, STGD4	AC133, CD133, RP41, CORD12
4	PROM1	ENSG00000007062	ENST00000511153	nonsense_mediated_decay	KNOWN	None	9454	163	53	16004890	16077401	-1	PROML1, MCDR2, STGD4	AC133, CD133, RP41, CORD12
4	PROM1	ENSG00000007062	ENST00000502943	processed_transcript	KNOWN	None	9454	None	None	16019924	16039637	-1	PROML1, MCDR2, STGD4	AC133, CD133, RP41, CORD12
4	PROM1	ENSG00000007062	ENST00000508322	protein_coding	KNOWN	None	9454	173	56	16077357	16085088	-1	PROML1, MCDR2, STGD4	AC133, CD133, RP41, CORD12
4	PROM1	ENSG00000007062	ENST00000508940	protein_coding	KNOWN	None	9454	121	39	16077409	16085088	-1	PROML1, MCDR2, STGD4	AC133, CD133, RP41, CORD12
4	PROM1	ENSG00000007062	ENST00000514967	protein_coding	KNOWN	None	9454	43	13	16077487	16084231	-1	PROML1, MCDR2, STGD4	AC133, CD133, RP41, CORD12
4	PROM1	ENSG00000007062	ENST00000504842	processed_transcript	KNOWN	None	9454	None	None	16077598	16082323	-1	PROML1, MCDR2, STGD4	AC133, CD133, RP41, CORD12
4	PROM1	ENSG00000007062	ENST00000513108	processed_transcript	KNOWN	None	9454	None	None	16077622	16082311	-1	PROML1, MCDR2, STGD4	AC133, CD133, RP41, CORD12
4	PROM1	ENSG00000007062	ENST00000502501	processed_transcript	KNOWN	None	9454	None	None	16077682	16085281	-1	PROML1, MCDR2, STGD4	AC133, CD133, RP41, CORD12
4	PROM1	ENSG00000007062	ENST00000514693	processed_transcript	PUTATIVE	None	9454	None	None	16078064	16082300	-1	PROML1, MCDR2, STGD4	AC133, CD133, RP41, CORD12
4	PROM1	ENSG00000007062	ENST00000512304	processed_transcript	KNOWN	None	9454	None	None	16078189	16082323	-1	PROML1, MCDR2, STGD4	AC133, CD133, RP41, CORD12
4	PROM1	ENSG00000007062	ENST00000447510	protein_coding	KNOWN	CCDS47029	9454	2598	865	15969849	16077741	-1	PROML1, MCDR2, STGD4	AC133, CD133, RP41, CORD12
4	PROM1	ENSG00000007062	ENST00000540805	protein_coding	KNOWN	CCDS54748	9454	2529	842	15969849	16077741	-1	PROML1, MCDR2, STGD4	AC133, CD133, RP41, CORD12
4	PROM1	ENSG00000007062	ENST00000539194	protein_coding	KNOWN	CCDS54747	9454	2505	834	15969849	16077741	-1	PROML1, MCDR2, STGD4	AC133, CD133, RP41, CORD12
4	PROM1	ENSG00000007062	ENST00000543373	protein_coding	KNOWN	None	9454	2493	830	15977813	16085668	-1	PROML1, MCDR2, STGD4	AC133, CD133, RP41, CORD12
16	None	ENSG00000245059	ENST00000501068	lincRNA	KNOWN	None	None	None	None	81110924	81112466	1	None	None
2	None	ENSG00000237524	ENST00000454927	protein_coding	PUTATIVE	None	None	364	120	127656472	127657188	1	None	None
2	None	ENSG00000237524	ENST00000458326	nonsense_mediated_decay	KNOWN	None	None	357	118	127656484	127659673	1	None	None
2	None	ENSG00000237524	ENST00000568484	protein_coding	PUTATIVE	None	None	501	166	127656491	127659671	1	None	None
2	None	ENSG00000237524	ENST00000450035	protein_coding	PUTATIVE	None	None	501	166	127656491	127659673	1	None	None
2	None	ENSG00000237524	ENST00000437793	retained_intron	KNOWN	None	None	None	None	127656510	127657003	1	None	None
2	None	ENSG00000237524	ENST00000436605	protein_coding	PUTATIVE	None	None	399	132	127656795	127659673	1	None	None
2	None	ENSG00000237524	ENST00000441412	protein_coding	PUTATIVE	None	None	255	84	127657098	127659673	1	None	None
7	None	ENSG00000177820	ENST00000315965	pseudogene	NOVEL	None	None	None	None	106300345	106301342	-1	None	None
7	TRPV5	ENSG00000127412	ENST00000265310	protein_coding	KNOWN	CCDS5875	3145	2190	729	142605267	142630905	-1	ECAC1	CaT2
7	TRPV5	ENSG00000127412	ENST00000439304	protein_coding	NOVEL	None	3145	2025	674	142605680	142630538	-1	ECAC1	CaT2
7	TRPV5	ENSG00000127412	ENST00000442623	protein_coding	NOVEL	None	3145	1146	381	142621890	142630820	-1	ECAC1	CaT2
22	None	ENSG00000236272	ENST00000420269	antisense	KNOWN	None	None	None	None	43608680	43609667	1	None	None
6	PPP2R5D	ENSG00000112640	ENST00000485511	protein_coding	KNOWN	CCDS4878	9312	1809	602	42952237	42980080	1	None	B56D
6	PPP2R5D	ENSG00000112640	ENST00000394110	protein_coding	KNOWN	CCDS55002	9312	1713	570	42952291	42980080	1	None	B56D
6	PPP2R5D	ENSG00000112640	ENST00000472118	protein_coding	NOVEL	None	9312	1785	594	42952292	42980078	1	None	B56D
6	PPP2R5D	ENSG00000112640	ENST00000230402	nonsense_mediated_decay	KNOWN	None	9312	336	111	42952338	42980078	1	None	B56D
6	PPP2R5D	ENSG00000112640	ENST00000461010	protein_coding	KNOWN	CCDS43464	9312	1491	496	42952390	42979065	1	None	B56D
6	PPP2R5D	ENSG00000112640	ENST00000470467	protein_coding	NOVEL	None	9312	1513	503	42974338	42980078	1	None	B56D
6	PPP2R5D	ENSG00000112640	ENST00000467447	retained_intron	KNOWN	None	9312	None	None	42974750	42975957	1	None	B56D
6	PPP2R5D	ENSG00000112640	ENST00000482315	retained_intron	KNOWN	None	9312	None	None	42976017	42978238	1	None	B56D
6	PPP2R5D	ENSG00000112640	ENST00000486843	protein_coding	NOVEL	None	9312	462	153	42976851	42978632	1	None	B56D
16	RNU6-1191P	ENSG00000252608	ENST00000516799	snRNA	KNOWN	None	48154	None	None	81140138	81140244	-1	None	None
7	None	ENSG00000228742	ENST00000490162	lincRNA	KNOWN	None	None	None	None	106415457	106436010	1	None	None
7	None	ENSG00000228742	ENST00000470135	lincRNA	KNOWN	None	None	None	None	106415522	106421388	1	None	None
7	None	ENSG00000228742	ENST00000602761	lincRNA	KNOWN	None	None	None	None	106417988	106423298	1	None	None
22	None	ENSG00000234892	ENST00000419643	antisense	KNOWN	None	None	None	None	43628147	43635016	1	None	None
12	None	ENSG00000265054	ENST00000583581	miRNA	NOVEL	None	None	None	None	105345538	105345624	1	None	None
22	None	ENSG00000203527	ENST00000458463	antisense	KNOWN	None	None	None	None	43671961	43679836	1	None	None
3	ARL13B	ENSG00000169379	ENST00000478400	protein_coding	PUTATIVE	None	25419	177	58	93698986	93715528	1	ARL2L1	DKFZp761H079, JBTS8
3	ARL13B	ENSG00000169379	ENST00000303097	protein_coding	KNOWN	CCDS2924	25419	966	321	93698986	93774123	1	ARL2L1	DKFZp761H079, JBTS8
3	ARL13B	ENSG00000169379	ENST00000394222	protein_coding	KNOWN	CCDS2925	25419	1287	428	93698993	93772998	1	ARL2L1	DKFZp761H079, JBTS8
3	ARL13B	ENSG00000169379	ENST00000471138	protein_coding	KNOWN	CCDS2925	25419	1287	428	93698999	93772913	1	ARL2L1	DKFZp761H079, JBTS8
3	ARL13B	ENSG00000169379	ENST00000460371	nonsense_mediated_decay	KNOWN	None	25419	171	56	93699014	93774125	1	ARL2L1	DKFZp761H079, JBTS8
3	ARL13B	ENSG00000169379	ENST00000335438	nonsense_mediated_decay	KNOWN	None	25419	270	89	93699034	93774123	1	ARL2L1	DKFZp761H079, JBTS8
3	ARL13B	ENSG00000169379	ENST00000486562	processed_transcript	KNOWN	None	25419	None	None	93699058	93758759	1	ARL2L1	DKFZp761H079, JBTS8
3	ARL13B	ENSG00000169379	ENST00000475206	nonsense_mediated_decay	KNOWN	None	25419	285	94	93699114	93722746	1	ARL2L1	DKFZp761H079, JBTS8
3	ARL13B	ENSG00000169379	ENST00000492165	processed_transcript	KNOWN	None	25419	None	None	93699132	93722753	1	ARL2L1	DKFZp761H079, JBTS8
3	ARL13B	ENSG00000169379	ENST00000535334	protein_coding	KNOWN	CCDS54615	25419	978	325	93698983	93774512	1	ARL2L1	DKFZp761H079, JBTS8
3	ARL13B	ENSG00000169379	ENST00000539730	protein_coding	KNOWN	None	25419	450	149	93698999	93772411	1	ARL2L1	DKFZp761H079, JBTS8
X	None	ENSG00000233007	ENST00000428234	processed_pseudogene	KNOWN	None	None	None	None	38391176	38393427	-1	None	None
7	RNA5SP236	ENSG00000251978	ENST00000516169	rRNA	KNOWN	None	43136	None	None	106422046	106422161	-1	RN5S236	None
20	LSM14B	ENSG00000149657	ENST00000370915	protein_coding	KNOWN	None	15887	666	221	60697517	60703086	1	C20orf40, FAM61B	FT005, bA11M20.3, FLJ25473, LSM13, RAP55B
20	LSM14B	ENSG00000149657	ENST00000400318	protein_coding	KNOWN	None	15887	888	295	60697538	60705722	1	C20orf40, FAM61B	FT005, bA11M20.3, FLJ25473, LSM13, RAP55B
20	LSM14B	ENSG00000149657	ENST00000279068	protein_coding	KNOWN	CCDS46626	15887	1158	385	60697563	60710434	1	C20orf40, FAM61B	FT005, bA11M20.3, FLJ25473, LSM13, RAP55B
20	LSM14B	ENSG00000149657	ENST00000279069	protein_coding	KNOWN	None	15887	671	222	60697583	60705661	1	C20orf40, FAM61B	FT005, bA11M20.3, FLJ25473, LSM13, RAP55B
20	LSM14B	ENSG00000149657	ENST00000361670	protein_coding	KNOWN	None	15887	746	247	60698208	60706562	1	C20orf40, FAM61B	FT005, bA11M20.3, FLJ25473, LSM13, RAP55B
20	LSM14B	ENSG00000149657	ENST00000253001	protein_coding	KNOWN	None	15887	1158	385	60697517	60710434	1	C20orf40, FAM61B	FT005, bA11M20.3, FLJ25473, LSM13, RAP55B
X	RNU7-7P	ENSG00000238606	ENST00000458919	snRNA	KNOWN	None	34103	None	None	38467468	38467529	1	None	U7.7
14	TSHR	ENSG00000165409	ENST00000557096	processed_transcript	PUTATIVE	None	12373	None	None	81421333	81422281	1	None	LGR3
14	TSHR	ENSG00000165409	ENST00000541158	protein_coding	KNOWN	CCDS9872	12373	2295	764	81421387	81612646	1	None	LGR3
14	TSHR	ENSG00000165409	ENST00000342443	protein_coding	KNOWN	CCDS32131	12373	762	253	81421775	81575294	1	None	LGR3
14	TSHR	ENSG00000165409	ENST00000553763	retained_intron	KNOWN	None	12373	None	None	81421925	81534817	1	None	LGR3
14	TSHR	ENSG00000165409	ENST00000555326	nonsense_mediated_decay	KNOWN	None	12373	339	112	81421973	81557476	1	None	LGR3
14	TSHR	ENSG00000165409	ENST00000554263	protein_coding	PUTATIVE	None	12373	696	231	81421999	81575262	1	None	LGR3
14	TSHR	ENSG00000165409	ENST00000554435	protein_coding	KNOWN	CCDS55935	12373	825	274	81421999	81575263	1	None	LGR3
14	TSHR	ENSG00000165409	ENST00000556031	retained_intron	KNOWN	None	12373	None	None	81574693	81575184	1	None	LGR3
14	TSHR	ENSG00000165409	ENST00000298171	protein_coding	KNOWN	CCDS9872	12373	2295	764	81421869	81612646	1	None	LGR3
7	None	ENSG00000243193	ENST00000494849	antisense	KNOWN	None	None	None	None	106717671	106774178	-1	None	None
7	None	ENSG00000243193	ENST00000589433	antisense	KNOWN	None	None	None	None	106717762	106718683	-1	None	None
6	RNU6-475P	ENSG00000251882	ENST00000516073	snRNA	KNOWN	None	47438	None	None	115188037	115188140	-1	None	None
22	None	ENSG00000236117	ENST00000450750	lincRNA	KNOWN	None	None	None	None	43796337	43805687	1	None	None
X	None	ENSG00000235806	ENST00000432359	lincRNA	KNOWN	None	None	None	None	38629584	38658911	1	None	None
6	None	ENSG00000219619	ENST00000404881	processed_pseudogene	KNOWN	None	None	None	None	115679662	115679916	-1	None	None
7	None	ENSG00000272072	ENST00000607036	antisense	KNOWN	None	None	None	None	106833004	106833745	-1	None	None
12	KRT18P20	ENSG00000257758	ENST00000548986	processed_pseudogene	KNOWN	None	33388	None	None	105370527	105371805	-1	None	None
6	None	ENSG00000228777	ENST00000446525	lincRNA	KNOWN	None	None	None	None	115954706	115955355	-1	None	None
7	None	ENSG00000221356	ENST00000408429	miRNA	NOVEL	None	None	None	None	106935330	106935396	1	None	None
1	BCAR3	ENSG00000137936	ENST00000370247	protein_coding	KNOWN	CCDS58010	973	2205	734	94027347	94079654	-1	None	NSP2, SH2D3B
1	BCAR3	ENSG00000137936	ENST00000260502	protein_coding	KNOWN	CCDS745	973	2478	825	94027348	94147385	-1	None	NSP2, SH2D3B
1	BCAR3	ENSG00000137936	ENST00000370244	protein_coding	NOVEL	CCDS745	973	2478	825	94027348	94312706	-1	None	NSP2, SH2D3B
1	BCAR3	ENSG00000137936	ENST00000370243	protein_coding	KNOWN	CCDS745	973	2478	825	94027351	94146926	-1	None	NSP2, SH2D3B
1	BCAR3	ENSG00000137936	ENST00000538653	retained_intron	KNOWN	None	973	None	None	94027678	94033684	-1	None	NSP2, SH2D3B
1	BCAR3	ENSG00000137936	ENST00000466632	processed_transcript	KNOWN	None	973	None	None	94047858	94050658	-1	None	NSP2, SH2D3B
1	BCAR3	ENSG00000137936	ENST00000490377	processed_transcript	KNOWN	None	973	None	None	94054640	94055935	-1	None	NSP2, SH2D3B
1	BCAR3	ENSG00000137936	ENST00000479503	processed_transcript	KNOWN	None	973	None	None	94057863	94114378	-1	None	NSP2, SH2D3B
1	BCAR3	ENSG00000137936	ENST00000469315	processed_transcript	KNOWN	None	973	None	None	94185745	94311268	-1	None	NSP2, SH2D3B
1	BCAR3	ENSG00000137936	ENST00000539242	protein_coding	KNOWN	None	973	1506	501	94027351	94050692	-1	None	NSP2, SH2D3B
X	MID1IP1-AS1	ENSG00000238123	ENST00000436893	antisense	KNOWN	None	40932	None	None	38660821	38663136	-1	None	None
HSCHR6_MHC_COX	HCG23	ENSG00000225834	ENST00000416528	processed_transcript	KNOWN	None	19713	None	None	32306512	32309680	1	None	dJ1077I5.3
X	RNU6-591P	ENSG00000207122	ENST00000384394	snRNA	KNOWN	None	47554	None	None	38940433	38940538	-1	None	None
19	TMEM238	ENSG00000233493	ENST00000444469	protein_coding	KNOWN	CCDS54323	40042	531	176	55890613	55895966	-1	None	None
X	None	ENSG00000224610	ENST00000438026	lincRNA	KNOWN	None	None	None	None	39085356	39159040	-1	None	None
11	HINFP	ENSG00000172273	ENST00000350777	protein_coding	KNOWN	CCDS8414	17850	1554	517	118992297	119006752	1	MIZF	DKFZP434F162, HiNF-P, ZNF743
11	HINFP	ENSG00000172273	ENST00000527206	retained_intron	KNOWN	None	17850	None	None	118992301	118998168	1	MIZF	DKFZP434F162, HiNF-P, ZNF743
11	HINFP	ENSG00000172273	ENST00000529354	retained_intron	KNOWN	None	17850	None	None	118992302	119002246	1	MIZF	DKFZP434F162, HiNF-P, ZNF743
11	HINFP	ENSG00000172273	ENST00000529988	protein_coding	PUTATIVE	None	17850	300	99	118992319	119001553	1	MIZF	DKFZP434F162, HiNF-P, ZNF743
11	HINFP	ENSG00000172273	ENST00000531360	retained_intron	KNOWN	None	17850	None	None	118992319	119002310	1	MIZF	DKFZP434F162, HiNF-P, ZNF743
11	HINFP	ENSG00000172273	ENST00000527354	processed_transcript	KNOWN	None	17850	None	None	118992320	119002707	1	MIZF	DKFZP434F162, HiNF-P, ZNF743
11	HINFP	ENSG00000172273	ENST00000527410	protein_coding	PUTATIVE	CCDS58188	17850	1260	419	118992326	119005024	1	MIZF	DKFZP434F162, HiNF-P, ZNF743
11	HINFP	ENSG00000172273	ENST00000530678	protein_coding	PUTATIVE	None	17850	162	53	118994443	118997816	1	MIZF	DKFZP434F162, HiNF-P, ZNF743
11	HINFP	ENSG00000172273	ENST00000532312	protein_coding	PUTATIVE	None	17850	529	175	118994698	119001941	1	MIZF	DKFZP434F162, HiNF-P, ZNF743
11	HINFP	ENSG00000172273	ENST00000531022	retained_intron	KNOWN	None	17850	None	None	119000570	119003883	1	MIZF	DKFZP434F162, HiNF-P, ZNF743
11	HINFP	ENSG00000172273	ENST00000529610	retained_intron	KNOWN	None	17850	None	None	119001920	119002637	1	MIZF	DKFZP434F162, HiNF-P, ZNF743
11	HINFP	ENSG00000172273	ENST00000527755	retained_intron	KNOWN	None	17850	None	None	119002149	119005764	1	MIZF	DKFZP434F162, HiNF-P, ZNF743
11	HINFP	ENSG00000172273	ENST00000529808	retained_intron	KNOWN	None	17850	None	None	119002275	119005003	1	MIZF	DKFZP434F162, HiNF-P, ZNF743
11	HINFP	ENSG00000172273	ENST00000532860	retained_intron	KNOWN	None	17850	None	None	119003549	119004608	1	MIZF	DKFZP434F162, HiNF-P, ZNF743
HSCHR6_MHC_COX	HLA-DRB9	ENSG00000227526	ENST00000421007	unprocessed_pseudogene	KNOWN	None	4957	None	None	32375803	32389501	-1	HLA-DRB1L, HLA-DR1BL	D6S206, D6S206E
3	MITF	ENSG00000187098	ENST00000352241	protein_coding	KNOWN	CCDS43106	7105	1563	520	69788586	70017487	1	WS2A, WS2	MI, bHLHe32
3	MITF	ENSG00000187098	ENST00000448226	protein_coding	KNOWN	None	7105	1581	526	69788622	70015180	1	WS2A, WS2	MI, bHLHe32
3	MITF	ENSG00000187098	ENST00000461511	processed_transcript	KNOWN	None	7105	None	None	69788625	69801536	1	WS2A, WS2	MI, bHLHe32
3	MITF	ENSG00000187098	ENST00000495741	processed_transcript	KNOWN	None	7105	None	None	69788633	69928498	1	WS2A, WS2	MI, bHLHe32
3	MITF	ENSG00000187098	ENST00000429090	protein_coding	PUTATIVE	None	7105	212	69	69807855	69986986	1	WS2A, WS2	MI, bHLHe32
3	MITF	ENSG00000187098	ENST00000433517	protein_coding	PUTATIVE	None	7105	471	156	69811875	69998234	1	WS2A, WS2	MI, bHLHe32
3	MITF	ENSG00000187098	ENST00000472437	protein_coding	NOVEL	CCDS54607	7105	1407	468	69812707	70014798	1	WS2A, WS2	MI, bHLHe32
3	MITF	ENSG00000187098	ENST00000457080	protein_coding	KNOWN	None	7105	351	116	69812962	69928534	1	WS2A, WS2	MI, bHLHe32
3	MITF	ENSG00000187098	ENST00000451708	protein_coding	KNOWN	None	7105	1084	360	69915363	70008524	1	WS2A, WS2	MI, bHLHe32
3	MITF	ENSG00000187098	ENST00000314589	protein_coding	KNOWN	CCDS46865	7105	1515	504	69915430	70014798	1	WS2A, WS2	MI, bHLHe32
3	MITF	ENSG00000187098	ENST00000314557	protein_coding	KNOWN	CCDS43107	7105	1242	413	69985738	70014819	1	WS2A, WS2	MI, bHLHe32
3	MITF	ENSG00000187098	ENST00000394351	protein_coding	KNOWN	CCDS2913	7105	1260	419	69985754	70014975	1	WS2A, WS2	MI, bHLHe32
3	MITF	ENSG00000187098	ENST00000478490	nonsense_mediated_decay	KNOWN	None	7105	318	105	69985779	70014721	1	WS2A, WS2	MI, bHLHe32
3	MITF	ENSG00000187098	ENST00000394348	processed_transcript	KNOWN	None	7105	None	None	69985780	69988216	1	WS2A, WS2	MI, bHLHe32
3	MITF	ENSG00000187098	ENST00000531774	protein_coding	KNOWN	CCDS46866	7105	1074	357	69985874	70014399	1	WS2A, WS2	MI, bHLHe32
3	MITF	ENSG00000187098	ENST00000461014	processed_transcript	KNOWN	None	7105	None	None	69985980	69990482	1	WS2A, WS2	MI, bHLHe32
3	MITF	ENSG00000187098	ENST00000328528	protein_coding	KNOWN	None	7105	1560	519	69812962	70017488	1	WS2A, WS2	MI, bHLHe32
3	MITF	ENSG00000187098	ENST00000394355	protein_coding	KNOWN	None	7105	1488	495	69928256	70017484	1	WS2A, WS2	MI, bHLHe32
14	TRAJ45	ENSG00000211844	ENST00000390492	TR_J_gene	KNOWN	None	12076	66	21	22962911	22962976	1	None	None
X	None	ENSG00000235304	ENST00000448597	lincRNA	KNOWN	None	None	None	None	39164210	39186616	-1	None	None
X	None	ENSG00000235304	ENST00000429281	lincRNA	KNOWN	None	None	None	None	39164888	39186615	-1	None	None
HSCHR6_MHC_COX	RNU1-79P	ENSG00000265223	ENST00000579167	snRNA	KNOWN	None	48421	None	None	32409334	32409482	-1	None	None
3	OPA1	ENSG00000198836	ENST00000361908	protein_coding	KNOWN	CCDS33917	8140	2994	997	193310933	193415600	1	None	NTG, KIAA0567, FLJ12460, NPG, MGM1
3	OPA1	ENSG00000198836	ENST00000392438	protein_coding	KNOWN	CCDS43186	8140	2883	960	193310933	193415612	1	None	NTG, KIAA0567, FLJ12460, NPG, MGM1
3	OPA1	ENSG00000198836	ENST00000392437	protein_coding	KNOWN	None	8140	500	165	193311036	193336709	1	None	NTG, KIAA0567, FLJ12460, NPG, MGM1
3	OPA1	ENSG00000198836	ENST00000419435	protein_coding	PUTATIVE	None	8140	253	83	193311070	193336726	1	None	NTG, KIAA0567, FLJ12460, NPG, MGM1
3	OPA1	ENSG00000198836	ENST00000392436	protein_coding	NOVEL	None	8140	731	242	193311141	193343933	1	None	NTG, KIAA0567, FLJ12460, NPG, MGM1
3	OPA1	ENSG00000198836	ENST00000487986	processed_transcript	KNOWN	None	8140	None	None	193332577	193346333	1	None	NTG, KIAA0567, FLJ12460, NPG, MGM1
3	OPA1	ENSG00000198836	ENST00000434811	protein_coding	KNOWN	None	8140	554	183	193332781	193355001	1	None	NTG, KIAA0567, FLJ12460, NPG, MGM1
3	OPA1	ENSG00000198836	ENST00000497189	retained_intron	KNOWN	None	8140	None	None	193336616	193360774	1	None	NTG, KIAA0567, FLJ12460, NPG, MGM1
3	OPA1	ENSG00000198836	ENST00000495476	retained_intron	KNOWN	None	8140	None	None	193343847	193355837	1	None	NTG, KIAA0567, FLJ12460, NPG, MGM1
3	OPA1	ENSG00000198836	ENST00000475899	retained_intron	KNOWN	None	8140	None	None	193355005	193361940	1	None	NTG, KIAA0567, FLJ12460, NPG, MGM1
3	OPA1	ENSG00000198836	ENST00000483516	retained_intron	KNOWN	None	8140	None	None	193363401	193366249	1	None	NTG, KIAA0567, FLJ12460, NPG, MGM1
3	OPA1	ENSG00000198836	ENST00000482865	retained_intron	KNOWN	None	8140	None	None	193366555	193377303	1	None	NTG, KIAA0567, FLJ12460, NPG, MGM1
3	OPA1	ENSG00000198836	ENST00000445863	protein_coding	PUTATIVE	None	8140	552	183	193380680	193386720	1	None	NTG, KIAA0567, FLJ12460, NPG, MGM1
3	OPA1	ENSG00000198836	ENST00000429164	protein_coding	PUTATIVE	None	8140	393	130	193384965	193386410	1	None	NTG, KIAA0567, FLJ12460, NPG, MGM1
3	OPA1	ENSG00000198836	ENST00000495261	retained_intron	KNOWN	None	8140	None	None	193409183	193415315	1	None	NTG, KIAA0567, FLJ12460, NPG, MGM1
3	OPA1	ENSG00000198836	ENST00000361510	protein_coding	KNOWN	None	8140	3048	1015	193310933	193415599	1	None	NTG, KIAA0567, FLJ12460, NPG, MGM1
3	OPA1	ENSG00000198836	ENST00000361715	protein_coding	KNOWN	None	8140	2940	979	193310933	193415599	1	None	NTG, KIAA0567, FLJ12460, NPG, MGM1
3	OPA1	ENSG00000198836	ENST00000361828	protein_coding	KNOWN	None	8140	2937	978	193310933	193415599	1	None	NTG, KIAA0567, FLJ12460, NPG, MGM1
3	OPA1	ENSG00000198836	ENST00000361150	protein_coding	KNOWN	None	8140	2886	961	193310933	193415599	1	None	NTG, KIAA0567, FLJ12460, NPG, MGM1
HSCHR6_MHC_COX	RNU1-144P	ENSG00000264909	ENST00000583936	snRNA	KNOWN	None	48486	None	None	32447524	32447670	-1	None	None
17	SCARF1	ENSG00000074660	ENST00000263071	protein_coding	KNOWN	CCDS11007	16820	2493	830	1537152	1549041	-1	None	SREC, KIAA0149
17	SCARF1	ENSG00000074660	ENST00000434376	nonsense_mediated_decay	KNOWN	None	16820	1029	342	1537159	1549017	-1	None	SREC, KIAA0149
17	SCARF1	ENSG00000074660	ENST00000576012	retained_intron	KNOWN	None	16820	None	None	1537684	1549015	-1	None	SREC, KIAA0149
17	SCARF1	ENSG00000074660	ENST00000571272	protein_coding	KNOWN	CCDS45564	16820	1710	569	1537684	1549038	-1	None	SREC, KIAA0149
17	SCARF1	ENSG00000074660	ENST00000573852	nonsense_mediated_decay	KNOWN	None	16820	150	49	1537899	1549006	-1	None	SREC, KIAA0149
17	SCARF1	ENSG00000074660	ENST00000570902	retained_intron	KNOWN	None	16820	None	None	1541434	1543851	-1	None	SREC, KIAA0149
17	SCARF1	ENSG00000074660	ENST00000574545	processed_transcript	KNOWN	None	16820	None	None	1543875	1547813	-1	None	SREC, KIAA0149
17	SCARF1	ENSG00000074660	ENST00000573867	retained_intron	KNOWN	None	16820	None	None	1546614	1549017	-1	None	SREC, KIAA0149
17	SCARF1	ENSG00000074660	ENST00000348987	protein_coding	KNOWN	None	16820	2235	744	1537152	1549041	-1	None	SREC, KIAA0149
20	TBC1D20	ENSG00000125875	ENST00000461188	processed_transcript	KNOWN	None	16133	None	None	416124	422536	-1	C20orf140	dJ852M4.2
20	TBC1D20	ENSG00000125875	ENST00000461304	nonsense_mediated_decay	KNOWN	CCDS13002	16133	1212	403	416124	443175	-1	C20orf140	dJ852M4.2
20	TBC1D20	ENSG00000125875	ENST00000354200	protein_coding	KNOWN	CCDS13002	16133	1212	403	416124	443197	-1	C20orf140	dJ852M4.2
20	TBC1D20	ENSG00000125875	ENST00000494633	processed_transcript	KNOWN	None	16133	None	None	416927	443187	-1	C20orf140	dJ852M4.2
6	TPI1P3	ENSG00000186743	ENST00000335020	processed_pseudogene	KNOWN	None	38070	None	None	116359919	116360658	1	None	None
5	EPB41L4A	ENSG00000129595	ENST00000507810	processed_transcript	KNOWN	None	13278	None	None	111478138	111564475	-1	None	NBL4
5	EPB41L4A	ENSG00000129595	ENST00000261486	protein_coding	KNOWN	CCDS43350	13278	2061	686	111498318	111755013	-1	None	NBL4
5	EPB41L4A	ENSG00000129595	ENST00000509342	processed_transcript	KNOWN	None	13278	None	None	111500698	111519084	-1	None	NBL4
5	EPB41L4A	ENSG00000129595	ENST00000515047	retained_intron	KNOWN	None	13278	None	None	111505706	111541199	-1	None	NBL4
5	EPB41L4A	ENSG00000129595	ENST00000513333	processed_transcript	KNOWN	None	13278	None	None	111531358	111541759	-1	None	NBL4
5	EPB41L4A	ENSG00000129595	ENST00000511790	processed_transcript	KNOWN	None	13278	None	None	111570331	111584887	-1	None	NBL4
5	EPB41L4A	ENSG00000129595	ENST00000511405	retained_intron	KNOWN	None	13278	None	None	111575297	111600684	-1	None	NBL4
5	EPB41L4A	ENSG00000129595	ENST00000512395	processed_transcript	KNOWN	None	13278	None	None	111598250	111728481	-1	None	NBL4
5	EPB41L4A	ENSG00000129595	ENST00000305368	retained_intron	KNOWN	None	13278	None	None	111599105	111755010	-1	None	NBL4
5	EPB41L4A	ENSG00000129595	ENST00000514203	retained_intron	KNOWN	None	13278	None	None	111610936	111643099	-1	None	NBL4
HSCHR6_MHC_COX	HLA-DRB2	ENSG00000232156	ENST00000452263	unprocessed_pseudogene	KNOWN	None	4950	None	None	32450947	32465488	-1	HLA-DR2B	None
11	None	ENSG00000255475	ENST00000525429	lincRNA	KNOWN	None	None	None	None	125002743	125009483	-1	None	None
8	LRRC6	ENSG00000129295	ENST00000519595	protein_coding	KNOWN	None	16725	1401	466	133584320	133687838	-1	None	TSLRP, LRTP, CILD19
8	LRRC6	ENSG00000129295	ENST00000522789	protein_coding	NOVEL	None	16725	621	206	133584447	133637633	-1	None	TSLRP, LRTP, CILD19
8	LRRC6	ENSG00000129295	ENST00000518642	protein_coding	PUTATIVE	None	16725	1236	411	133584447	133687805	-1	None	TSLRP, LRTP, CILD19
8	LRRC6	ENSG00000129295	ENST00000522597	retained_intron	KNOWN	None	16725	None	None	133584673	133635039	-1	None	TSLRP, LRTP, CILD19
8	LRRC6	ENSG00000129295	ENST00000519085	protein_coding	PUTATIVE	None	16725	421	139	133620653	133634934	-1	None	TSLRP, LRTP, CILD19
8	LRRC6	ENSG00000129295	ENST00000520446	processed_transcript	KNOWN	None	16725	None	None	133637518	133687838	-1	None	TSLRP, LRTP, CILD19
8	LRRC6	ENSG00000129295	ENST00000523503	processed_transcript	KNOWN	None	16725	None	None	133637558	133687805	-1	None	TSLRP, LRTP, CILD19
8	LRRC6	ENSG00000129295	ENST00000522584	nonsense_mediated_decay	KNOWN	None	16725	270	89	133650231	133687804	-1	None	TSLRP, LRTP, CILD19
8	LRRC6	ENSG00000129295	ENST00000521430	processed_transcript	KNOWN	None	16725	None	None	133650298	133687771	-1	None	TSLRP, LRTP, CILD19
8	LRRC6	ENSG00000129295	ENST00000518101	processed_transcript	KNOWN	None	16725	None	None	133655626	133687826	-1	None	TSLRP, LRTP, CILD19
8	LRRC6	ENSG00000129295	ENST00000250173	protein_coding	KNOWN	CCDS6365	16725	1401	466	133584449	133687813	-1	None	TSLRP, LRTP, CILD19
12	AVIL	ENSG00000135407	ENST00000546952	retained_intron	KNOWN	None	14188	None	None	58191159	58194436	-1	None	p92, FLJ12386, ADVIL, DOC6
12	AVIL	ENSG00000135407	ENST00000549851	nonsense_mediated_decay	KNOWN	None	14188	231	76	58191523	58209841	-1	None	p92, FLJ12386, ADVIL, DOC6
12	AVIL	ENSG00000135407	ENST00000551248	retained_intron	KNOWN	None	14188	None	None	58191561	58195200	-1	None	p92, FLJ12386, ADVIL, DOC6
12	AVIL	ENSG00000135407	ENST00000257861	protein_coding	KNOWN	CCDS8959	14188	2460	819	58191665	58210254	-1	None	p92, FLJ12386, ADVIL, DOC6
12	AVIL	ENSG00000135407	ENST00000550537	retained_intron	KNOWN	None	14188	None	None	58195966	58202475	-1	None	p92, FLJ12386, ADVIL, DOC6
12	AVIL	ENSG00000135407	ENST00000550083	processed_transcript	KNOWN	None	14188	None	None	58197079	58200272	-1	None	p92, FLJ12386, ADVIL, DOC6
12	AVIL	ENSG00000135407	ENST00000549548	retained_intron	KNOWN	None	14188	None	None	58199639	58202962	-1	None	p92, FLJ12386, ADVIL, DOC6
12	AVIL	ENSG00000135407	ENST00000549753	retained_intron	KNOWN	None	14188	None	None	58199915	58201424	-1	None	p92, FLJ12386, ADVIL, DOC6
12	AVIL	ENSG00000135407	ENST00000548843	retained_intron	KNOWN	None	14188	None	None	58199921	58208009	-1	None	p92, FLJ12386, ADVIL, DOC6
12	AVIL	ENSG00000135407	ENST00000549994	protein_coding	KNOWN	None	14188	473	156	58204684	58212487	-1	None	p92, FLJ12386, ADVIL, DOC6
12	AVIL	ENSG00000135407	ENST00000537081	protein_coding	KNOWN	None	14188	2439	812	58191165	58209405	-1	None	p92, FLJ12386, ADVIL, DOC6
HSCHR6_MHC_COX	RNU1-116P	ENSG00000264259	ENST00000585125	snRNA	KNOWN	None	48458	None	None	32473484	32473630	-1	None	None
HSCHR6_MHC_COX	HLA-DQB1-AS1	ENSG00000231677	ENST00000440290	processed_transcript	PUTATIVE	None	39762	None	None	32550723	32551572	1	None	None
14	TRAJ44	ENSG00000211845	ENST00000390493	TR_J_gene	KNOWN	None	12075	63	20	22963806	22963868	1	None	None
22	TEF	ENSG00000167074	ENST00000406644	protein_coding	PUTATIVE	CCDS46716	11722	822	273	41763337	41795328	1	None	KIAA1655
22	TEF	ENSG00000167074	ENST00000266304	protein_coding	KNOWN	CCDS14014	11722	912	303	41777933	41795330	1	None	KIAA1655
22	TEF	ENSG00000167074	ENST00000413942	protein_coding	KNOWN	None	11722	551	182	41778939	41790278	1	None	KIAA1655
9	HSPA5	ENSG00000044574	ENST00000324460	protein_coding	KNOWN	CCDS6863	5238	1965	654	127997132	128003609	-1	GRP78	BiP
16	EME2	ENSG00000197774	ENST00000568449	protein_coding	NOVEL	CCDS58404	27289	1140	379	1823208	1826312	1	None	FLJ00151, SLX2B
16	EME2	ENSG00000197774	ENST00000570069	retained_intron	KNOWN	None	27289	None	None	1823327	1830628	1	None	FLJ00151, SLX2B
16	EME2	ENSG00000197774	ENST00000561564	retained_intron	KNOWN	None	27289	None	None	1824946	1825879	1	None	FLJ00151, SLX2B
16	EME2	ENSG00000197774	ENST00000565326	retained_intron	KNOWN	None	27289	None	None	1825210	1825915	1	None	FLJ00151, SLX2B
16	EME2	ENSG00000197774	ENST00000561903	nonsense_mediated_decay	KNOWN	None	27289	571	189	1825316	1831709	1	None	FLJ00151, SLX2B
16	EME2	ENSG00000197774	ENST00000564182	nonsense_mediated_decay	KNOWN	None	27289	346	114	1825813	1826963	1	None	FLJ00151, SLX2B
16	EME2	ENSG00000197774	ENST00000307394	protein_coding	KNOWN	None	27289	1335	444	1823229	1826239	1	None	FLJ00151, SLX2B
11	None	ENSG00000254880	ENST00000532316	antisense	KNOWN	None	None	None	None	125028357	125034505	-1	None	None
HSCHR6_MHC_COX	None	ENSG00000243252	ENST00000446630	processed_transcript	PUTATIVE	None	None	None	None	32550729	32553324	-1	None	None
18	SOGA2	ENSG00000168502	ENST00000306329	protein_coding	PUTATIVE	None	29121	5718	1905	8705659	8828944	1	KIAA0802, CCDC165	None
18	SOGA2	ENSG00000168502	ENST00000517570	protein_coding	KNOWN	None	29121	4638	1545	8707409	8832775	1	KIAA0802, CCDC165	None
18	SOGA2	ENSG00000168502	ENST00000359865	protein_coding	KNOWN	CCDS11841	29121	4761	1586	8717369	8832776	1	KIAA0802, CCDC165	None
18	SOGA2	ENSG00000168502	ENST00000522146	retained_intron	KNOWN	None	29121	None	None	8717374	8777975	1	KIAA0802, CCDC165	None
18	SOGA2	ENSG00000168502	ENST00000523122	protein_coding	KNOWN	None	29121	142	46	8717757	8718590	1	KIAA0802, CCDC165	None
18	SOGA2	ENSG00000168502	ENST00000520495	nonsense_mediated_decay	KNOWN	None	29121	1530	509	8782086	8810000	1	KIAA0802, CCDC165	None
18	SOGA2	ENSG00000168502	ENST00000523811	processed_transcript	KNOWN	None	29121	None	None	8784539	8785858	1	KIAA0802, CCDC165	None
18	SOGA2	ENSG00000168502	ENST00000517554	retained_intron	KNOWN	None	29121	None	None	8784656	8787301	1	KIAA0802, CCDC165	None
18	SOGA2	ENSG00000168502	ENST00000521018	processed_transcript	KNOWN	None	29121	None	None	8784672	8787342	1	KIAA0802, CCDC165	None
18	SOGA2	ENSG00000168502	ENST00000518815	protein_coding	KNOWN	None	29121	2931	976	8789672	8832776	1	KIAA0802, CCDC165	None
18	SOGA2	ENSG00000168502	ENST00000522592	processed_transcript	KNOWN	None	29121	None	None	8800440	8813042	1	KIAA0802, CCDC165	None
18	SOGA2	ENSG00000168502	ENST00000518226	processed_transcript	KNOWN	None	29121	None	None	8809816	8813155	1	KIAA0802, CCDC165	None
18	SOGA2	ENSG00000168502	ENST00000519823	processed_transcript	PUTATIVE	None	29121	None	None	8811129	8819243	1	KIAA0802, CCDC165	None
18	SOGA2	ENSG00000168502	ENST00000520926	retained_intron	KNOWN	None	29121	None	None	8812843	8819169	1	KIAA0802, CCDC165	None
18	SOGA2	ENSG00000168502	ENST00000581670	processed_transcript	KNOWN	None	29121	None	None	8829921	8832776	1	KIAA0802, CCDC165	None
18	SOGA2	ENSG00000168502	ENST00000400050	protein_coding	KNOWN	None	29121	4638	1545	8717369	8832775	1	KIAA0802, CCDC165	None
18	SOGA2	ENSG00000168502	ENST00000306285	protein_coding	KNOWN	None	29121	2931	976	8717369	8832775	1	KIAA0802, CCDC165	None
1	GPR157	ENSG00000180758	ENST00000377411	protein_coding	KNOWN	CCDS100	23687	1008	335	9160364	9189229	-1	None	FLJ12132
1	GPR157	ENSG00000180758	ENST00000465853	protein_coding	NOVEL	None	23687	198	65	9164591	9171429	-1	None	FLJ12132
1	GPR157	ENSG00000180758	ENST00000466131	retained_intron	KNOWN	None	23687	None	None	9171228	9188840	-1	None	FLJ12132
1	GPR157	ENSG00000180758	ENST00000414642	protein_coding	KNOWN	None	23687	813	270	9164390	9189183	-1	None	FLJ12132
15	CHRNA7	ENSG00000175344	ENST00000454250	protein_coding	KNOWN	CCDS53924	1960	1596	531	32322691	32461049	1	None	None
15	CHRNA7	ENSG00000175344	ENST00000306901	protein_coding	KNOWN	CCDS10027	1960	1509	502	32322701	32464722	1	None	None
15	CHRNA7	ENSG00000175344	ENST00000437966	nonsense_mediated_decay	KNOWN	None	1960	309	102	32322759	32461089	1	None	None
15	CHRNA7	ENSG00000175344	ENST00000455693	protein_coding	KNOWN	None	1960	966	321	32322759	32461086	1	None	None
1	LYPLA2	ENSG00000011009	ENST00000374514	protein_coding	KNOWN	CCDS241	6738	696	231	24117460	24122029	1	None	APT-2
1	LYPLA2	ENSG00000011009	ENST00000420982	protein_coding	KNOWN	None	6738	487	161	24117677	24121001	1	None	APT-2
1	LYPLA2	ENSG00000011009	ENST00000374505	protein_coding	KNOWN	None	6738	414	137	24117677	24121235	1	None	APT-2
1	LYPLA2	ENSG00000011009	ENST00000495365	processed_transcript	KNOWN	None	6738	None	None	24117693	24121365	1	None	APT-2
1	LYPLA2	ENSG00000011009	ENST00000374503	protein_coding	KNOWN	None	6738	549	182	24117693	24121445	1	None	APT-2
1	LYPLA2	ENSG00000011009	ENST00000374502	protein_coding	KNOWN	None	6738	543	180	24117711	24121360	1	None	APT-2
1	LYPLA2	ENSG00000011009	ENST00000492577	processed_transcript	KNOWN	None	6738	None	None	24118461	24121202	1	None	APT-2
1	LYPLA2	ENSG00000011009	ENST00000421070	protein_coding	KNOWN	None	6738	272	89	24118482	24120397	1	None	APT-2
1	LYPLA2	ENSG00000011009	ENST00000374501	protein_coding	KNOWN	None	6738	495	164	24120143	24121767	1	None	APT-2
1	LYPLA2	ENSG00000011009	ENST00000472213	processed_transcript	KNOWN	None	6738	None	None	24120582	24121571	1	None	APT-2
1	LYPLA2	ENSG00000011009	ENST00000400061	protein_coding	KNOWN	None	6738	405	134	24117646	24122027	1	None	APT-2
HSCHR6_MHC_COX	MTCO3P1	ENSG00000228845	ENST00000427564	unprocessed_pseudogene	KNOWN	None	31342	None	None	32597337	32598168	-1	None	U92032.1
10	MIR604	ENSG00000207612	ENST00000384880	miRNA	KNOWN	None	32860	None	None	29833933	29834026	-1	MIRN604	hsa-mir-604
10	None	ENSG00000212411	ENST00000391109	snoRNA	NOVEL	None	None	None	None	29864235	29864310	1	None	None
17	INCA1	ENSG00000196388	ENST00000355025	protein_coding	KNOWN	CCDS11064	32224	666	221	4891425	4900905	-1	None	None
17	INCA1	ENSG00000196388	ENST00000575780	protein_coding	KNOWN	CCDS11064	32224	666	221	4891425	4900905	-1	None	None
17	INCA1	ENSG00000196388	ENST00000576820	protein_coding	KNOWN	CCDS54074	32224	711	236	4891507	4900328	-1	None	None
17	INCA1	ENSG00000196388	ENST00000574617	protein_coding	KNOWN	CCDS54074	32224	711	236	4891507	4900328	-1	None	None
17	INCA1	ENSG00000196388	ENST00000396829	protein_coding	KNOWN	CCDS54074	32224	711	236	4891426	4900905	-1	None	None
HSCHR6_MHC_COX	None	ENSG00000232026	ENST00000450647	processed_transcript	KNOWN	None	None	None	None	32609187	32610009	1	None	None
HSCHR6_MHC_COX	None	ENSG00000232026	ENST00000444894	processed_transcript	PUTATIVE	None	None	None	None	32609212	32610014	1	None	None
HSCHR6_MHC_COX	None	ENSG00000232026	ENST00000411810	processed_transcript	PUTATIVE	None	None	None	None	32609567	32610017	1	None	None
HSCHR6_MHC_QBL	HLA-DQB2	ENSG00000196610	ENST00000399658	protein_coding	KNOWN	None	4945	696	231	32652598	32659993	-1	HLA-DXB	None
HSCHR6_MHC_QBL	HLA-DQB2	ENSG00000196610	ENST00000323109	protein_coding	KNOWN	None	4945	840	279	32652598	32660035	-1	HLA-DXB	None
HSCHR6_MHC_QBL	HLA-DQB2	ENSG00000196610	ENST00000399661	protein_coding	KNOWN	None	4945	807	268	32652598	32660037	-1	HLA-DXB	None
HSCHR6_MHC_QBL	HLA-DQB2	ENSG00000196610	ENST00000416131	protein_coding	KNOWN	None	4945	656	217	32652888	32659969	-1	HLA-DXB	None
HSCHR6_MHC_QBL	HLA-DQB2	ENSG00000196610	ENST00000549204	protein_coding	KNOWN	None	4945	627	208	32652598	32660056	-1	HLA-DXB	None
12	None	ENSG00000257886	ENST00000547750	antisense	KNOWN	None	None	None	None	105466264	105467799	1	None	None
14	TRAJ43	ENSG00000211846	ENST00000390494	TR_J_gene	KNOWN	None	12074	54	17	22964896	22964949	1	None	None
2	ASXL2	ENSG00000143970	ENST00000435504	protein_coding	KNOWN	None	23805	4308	1435	25956622	26101385	-1	None	ASXH2, FLJ10898, KIAA1685
2	ASXL2	ENSG00000143970	ENST00000404843	protein_coding	KNOWN	None	23805	2757	918	25964794	26003178	-1	None	ASXH2, FLJ10898, KIAA1685
2	ASXL2	ENSG00000143970	ENST00000497092	processed_transcript	KNOWN	None	23805	None	None	25991631	26053760	-1	None	ASXH2, FLJ10898, KIAA1685
2	ASXL2	ENSG00000143970	ENST00000336112	protein_coding	KNOWN	None	23805	4224	1407	25960561	26101335	-1	None	ASXH2, FLJ10898, KIAA1685
2	ASXL2	ENSG00000143970	ENST00000272341	protein_coding	KNOWN	None	23805	2757	918	25964898	26101335	-1	None	ASXH2, FLJ10898, KIAA1685
19	RNA5SP470	ENSG00000252272	ENST00000516463	rRNA	KNOWN	None	43370	None	None	29492577	29492682	1	RN5S470	None
8	RN7SL329P	ENSG00000242170	ENST00000467740	misc_RNA	KNOWN	None	46345	None	None	126282846	126283142	1	None	None
19	None	ENSG00000267014	ENST00000591143	lincRNA	KNOWN	None	None	None	None	29493462	29504862	1	None	None
19	None	ENSG00000267014	ENST00000592653	lincRNA	KNOWN	None	None	None	None	29493463	29501924	1	None	None
19	None	ENSG00000267014	ENST00000589821	lincRNA	KNOWN	None	None	None	None	29493499	29503521	1	None	None
8	None	ENSG00000254431	ENST00000526947	antisense	KNOWN	None	None	None	None	126360438	126363658	-1	None	None
8	RN7SL590P	ENSG00000266452	ENST00000584113	misc_RNA	KNOWN	None	46606	None	None	126456807	126457060	1	None	None
11	None	ENSG00000259290	ENST00000560744	sense_intronic	KNOWN	None	None	None	None	125058011	125061300	1	None	None
11	None	ENSG00000259290	ENST00000557847	sense_intronic	KNOWN	None	None	None	None	125059866	125061296	1	None	None
8	None	ENSG00000253111	ENST00000522815	lincRNA	KNOWN	None	None	None	None	126479181	126553615	1	None	None
8	None	ENSG00000253111	ENST00000521991	lincRNA	KNOWN	None	None	None	None	126535017	126542728	1	None	None
6	SH3BGRL2	ENSG00000198478	ENST00000369838	protein_coding	KNOWN	CCDS4991	15567	324	107	80341000	80413372	1	None	None
3	RRP9	ENSG00000114767	ENST00000232888	protein_coding	KNOWN	CCDS2837	16829	1428	475	51967446	51975957	-1	RNU3IP2	U3-55K
10	GLUD1P8	ENSG00000232567	ENST00000458324	unprocessed_pseudogene	KNOWN	None	23637	None	None	47253595	47259683	1	GLUDP8	bA144G6.5
15	None	ENSG00000259244	ENST00000560239	processed_transcript	KNOWN	None	None	None	None	85056472	85070180	-1	None	None
19	RPL28	ENSG00000108107	ENST00000344063	protein_coding	KNOWN	CCDS12924	10330	414	137	55896713	55903453	1	None	FLJ43307, L28
19	RPL28	ENSG00000108107	ENST00000431533	protein_coding	KNOWN	CCDS46192	10330	264	87	55897300	55898404	1	None	FLJ43307, L28
19	RPL28	ENSG00000108107	ENST00000428193	protein_coding	KNOWN	CCDS46191	10330	210	69	55897300	55898978	1	None	FLJ43307, L28
19	RPL28	ENSG00000108107	ENST00000558815	protein_coding	KNOWN	CCDS46189	10330	510	169	55897300	55903171	1	None	FLJ43307, L28
19	RPL28	ENSG00000108107	ENST00000560583	protein_coding	KNOWN	CCDS46190	10330	492	163	55897302	55900256	1	None	FLJ43307, L28
19	RPL28	ENSG00000108107	ENST00000560055	protein_coding	PUTATIVE	None	10330	513	170	55897304	55914612	1	None	FLJ43307, L28
19	RPL28	ENSG00000108107	ENST00000560881	retained_intron	KNOWN	None	10330	None	None	55897311	55899711	1	None	FLJ43307, L28
19	RPL28	ENSG00000108107	ENST00000559463	protein_coding	KNOWN	CCDS12924	10330	414	137	55897329	55899741	1	None	FLJ43307, L28
19	RPL28	ENSG00000108107	ENST00000558131	protein_coding	PUTATIVE	None	10330	270	89	55897718	55899741	1	None	FLJ43307, L28
19	RPL28	ENSG00000108107	ENST00000426763	retained_intron	KNOWN	None	10330	None	None	55897718	55903468	1	None	FLJ43307, L28
19	RPL28	ENSG00000108107	ENST00000558752	protein_coding	PUTATIVE	None	10330	339	112	55897725	55898599	1	None	FLJ43307, L28
19	RPL28	ENSG00000108107	ENST00000458349	protein_coding	KNOWN	CCDS46189	10330	510	169	55897726	55903107	1	None	FLJ43307, L28
20	None	ENSG00000272259	ENST00000606208	lincRNA	KNOWN	None	None	None	None	61640735	61715485	1	None	None
20	None	ENSG00000272259	ENST00000607802	lincRNA	KNOWN	None	None	None	None	61640735	61716423	1	None	None
19	None	ENSG00000267498	ENST00000587859	lincRNA	KNOWN	None	None	None	None	29704142	29706722	1	None	None
19	None	ENSG00000267498	ENST00000590607	lincRNA	KNOWN	None	None	None	None	29704190	29706396	1	None	None
4	CORIN	ENSG00000145244	ENST00000273857	protein_coding	KNOWN	CCDS3477	19012	3129	1042	47596015	47839966	-1	None	PRSC, CRN, ATC2, Lrp4, TMPRSS10
4	CORIN	ENSG00000145244	ENST00000508498	protein_coding	NOVEL	None	19012	2712	903	47597499	47792277	-1	None	PRSC, CRN, ATC2, Lrp4, TMPRSS10
4	CORIN	ENSG00000145244	ENST00000502252	protein_coding	NOVEL	None	19012	2928	975	47597677	47840089	-1	None	PRSC, CRN, ATC2, Lrp4, TMPRSS10
4	CORIN	ENSG00000145244	ENST00000505909	protein_coding	NOVEL	None	19012	3018	1005	47597738	47839966	-1	None	PRSC, CRN, ATC2, Lrp4, TMPRSS10
4	CORIN	ENSG00000145244	ENST00000515827	processed_transcript	KNOWN	None	19012	None	None	47625601	47634469	-1	None	PRSC, CRN, ATC2, Lrp4, TMPRSS10
4	CORIN	ENSG00000145244	ENST00000505754	retained_intron	KNOWN	None	19012	None	None	47644858	47663877	-1	None	PRSC, CRN, ATC2, Lrp4, TMPRSS10
4	CORIN	ENSG00000145244	ENST00000504584	protein_coding	NOVEL	None	19012	2205	734	47644860	47840123	-1	None	PRSC, CRN, ATC2, Lrp4, TMPRSS10
4	CORIN	ENSG00000145244	ENST00000503821	retained_intron	KNOWN	None	19012	None	None	47663505	47840084	-1	None	PRSC, CRN, ATC2, Lrp4, TMPRSS10
4	CORIN	ENSG00000145244	ENST00000502726	retained_intron	KNOWN	None	19012	None	None	47681548	47840123	-1	None	PRSC, CRN, ATC2, Lrp4, TMPRSS10
4	CORIN	ENSG00000145244	ENST00000510974	processed_transcript	KNOWN	None	19012	None	None	47788741	47839524	-1	None	PRSC, CRN, ATC2, Lrp4, TMPRSS10
22	TOB2	ENSG00000183864	ENST00000327492	protein_coding	KNOWN	CCDS14015	11980	1035	344	41829496	41843027	-1	TROB2	TOBL, TOB4, bK223H9
22	TOB2	ENSG00000183864	ENST00000434408	protein_coding	KNOWN	None	11980	304	100	41833046	41842789	-1	TROB2	TOBL, TOB4, bK223H9
8	None	ENSG00000253470	ENST00000518339	lincRNA	KNOWN	None	None	None	None	126761299	126762485	-1	None	None
10	DUSP8P4	ENSG00000215065	ENST00000399538	processed_pseudogene	KNOWN	None	45002	None	None	47254247	47256007	1	None	None
1	H6PD	ENSG00000049239	ENST00000377403	protein_coding	KNOWN	CCDS101	4795	2376	791	9294834	9331396	1	GDH	None
1	H6PD	ENSG00000049239	ENST00000602477	protein_coding	PUTATIVE	None	4795	2409	802	9299903	9327957	1	GDH	None
1	H6PD	ENSG00000049239	ENST00000495451	processed_transcript	KNOWN	None	4795	None	None	9325589	9331396	1	GDH	None
19	RN7SL340P	ENSG00000241604	ENST00000470792	misc_RNA	KNOWN	None	46356	None	None	29723999	29724292	-1	None	None
7	RELN	ENSG00000189056	ENST00000428762	protein_coding	KNOWN	CCDS47680	9957	10383	3460	103112231	103629963	-1	None	RL, PRO1598
7	RELN	ENSG00000189056	ENST00000343529	protein_coding	KNOWN	CCDS34722	9957	10377	3458	103112231	103629963	-1	None	RL, PRO1598
7	RELN	ENSG00000189056	ENST00000429186	protein_coding	PUTATIVE	None	9957	206	67	103112677	103123395	-1	None	RL, PRO1598
7	RELN	ENSG00000189056	ENST00000473945	processed_transcript	KNOWN	None	9957	None	None	103122388	103126704	-1	None	RL, PRO1598
7	RELN	ENSG00000189056	ENST00000478148	retained_intron	KNOWN	None	9957	None	None	103163947	103179935	-1	None	RL, PRO1598
7	RELN	ENSG00000189056	ENST00000473457	processed_transcript	PUTATIVE	None	9957	None	None	103268356	103270583	-1	None	RL, PRO1598
7	RELN	ENSG00000189056	ENST00000424685	protein_coding	KNOWN	None	9957	10383	3460	103112231	103629963	-1	None	RL, PRO1598
3	SENP2	ENSG00000163904	ENST00000430355	protein_coding	PUTATIVE	None	23116	819	272	185300284	185327073	1	None	SMT3IP2, KIAA1331, DKFZp762A2316, AXAM2
3	SENP2	ENSG00000163904	ENST00000465201	processed_transcript	KNOWN	None	23116	None	None	185300572	185324278	1	None	SMT3IP2, KIAA1331, DKFZp762A2316, AXAM2
3	SENP2	ENSG00000163904	ENST00000296257	protein_coding	KNOWN	CCDS33902	23116	1770	589	185303962	185351339	1	None	SMT3IP2, KIAA1331, DKFZp762A2316, AXAM2
3	SENP2	ENSG00000163904	ENST00000453532	nonsense_mediated_decay	KNOWN	None	23116	318	105	185304029	185327106	1	None	SMT3IP2, KIAA1331, DKFZp762A2316, AXAM2
3	SENP2	ENSG00000163904	ENST00000439684	nonsense_mediated_decay	KNOWN	None	23116	183	60	185304083	185324279	1	None	SMT3IP2, KIAA1331, DKFZp762A2316, AXAM2
3	SENP2	ENSG00000163904	ENST00000413407	nonsense_mediated_decay	KNOWN	None	23116	315	104	185304083	185348193	1	None	SMT3IP2, KIAA1331, DKFZp762A2316, AXAM2
3	SENP2	ENSG00000163904	ENST00000458551	nonsense_mediated_decay	KNOWN	None	23116	165	54	185304086	185318613	1	None	SMT3IP2, KIAA1331, DKFZp762A2316, AXAM2
3	SENP2	ENSG00000163904	ENST00000473760	retained_intron	KNOWN	None	23116	None	None	185316753	185331299	1	None	SMT3IP2, KIAA1331, DKFZp762A2316, AXAM2
3	SENP2	ENSG00000163904	ENST00000459883	retained_intron	KNOWN	None	23116	None	None	185326791	185331162	1	None	SMT3IP2, KIAA1331, DKFZp762A2316, AXAM2
3	SENP2	ENSG00000163904	ENST00000478001	retained_intron	KNOWN	None	23116	None	None	185329316	185335297	1	None	SMT3IP2, KIAA1331, DKFZp762A2316, AXAM2
3	SENP2	ENSG00000163904	ENST00000476011	retained_intron	KNOWN	None	23116	None	None	185330010	185331432	1	None	SMT3IP2, KIAA1331, DKFZp762A2316, AXAM2
3	SENP2	ENSG00000163904	ENST00000444509	protein_coding	NOVEL	None	23116	610	202	185331143	185344095	1	None	SMT3IP2, KIAA1331, DKFZp762A2316, AXAM2
3	SENP2	ENSG00000163904	ENST00000483005	retained_intron	KNOWN	None	23116	None	None	185332291	185337307	1	None	SMT3IP2, KIAA1331, DKFZp762A2316, AXAM2
3	SENP2	ENSG00000163904	ENST00000545472	protein_coding	KNOWN	None	23116	1740	579	185300507	185347972	1	None	SMT3IP2, KIAA1331, DKFZp762A2316, AXAM2
3	SENP2	ENSG00000163904	ENST00000427465	protein_coding	KNOWN	None	23116	1242	413	185304083	185348193	1	None	SMT3IP2, KIAA1331, DKFZp762A2316, AXAM2
7	KRBA1	ENSG00000133619	ENST00000486744	protein_coding	NOVEL	None	22228	106	34	149411872	149417215	1	None	KIAA1862
7	KRBA1	ENSG00000133619	ENST00000466546	processed_transcript	KNOWN	None	22228	None	None	149412102	149431660	1	None	KIAA1862
7	KRBA1	ENSG00000133619	ENST00000479560	processed_transcript	KNOWN	None	22228	None	None	149412148	149431664	1	None	KIAA1862
7	KRBA1	ENSG00000133619	ENST00000497895	protein_coding	KNOWN	None	22228	310	102	149416513	149418081	1	None	KIAA1862
7	KRBA1	ENSG00000133619	ENST00000485033	protein_coding	PUTATIVE	None	22228	2910	969	149416730	149431660	1	None	KIAA1862
7	KRBA1	ENSG00000133619	ENST00000496259	nonsense_mediated_decay	KNOWN	None	22228	1853	616	149417192	149431660	1	None	KIAA1862
7	KRBA1	ENSG00000133619	ENST00000467333	protein_coding	PUTATIVE	None	22228	502	166	149418041	149419131	1	None	KIAA1862
7	KRBA1	ENSG00000133619	ENST00000496080	retained_intron	KNOWN	None	22228	None	None	149420652	149422532	1	None	KIAA1862
7	KRBA1	ENSG00000133619	ENST00000489951	retained_intron	KNOWN	None	22228	None	None	149427130	149427787	1	None	KIAA1862
7	KRBA1	ENSG00000133619	ENST00000255992	protein_coding	KNOWN	None	22228	3090	1029	149412148	149431664	1	None	KIAA1862
7	KRBA1	ENSG00000133619	ENST00000319551	protein_coding	KNOWN	None	22228	2910	969	149412148	149431664	1	None	KIAA1862
19	MEF2BNB-MEF2B	ENSG00000064489	ENST00000444486	protein_coding	KNOWN	CCDS12394	39979	1098	365	19256376	19302940	-1	None	None
19	MEF2BNB-MEF2B	ENSG00000064489	ENST00000354191	nonsense_mediated_decay	KNOWN	CCDS46025	39979	360	119	19256378	19302967	-1	None	None
19	MEF2BNB-MEF2B	ENSG00000064489	ENST00000602804	nonsense_mediated_decay	KNOWN	CCDS46025	39979	360	119	19256381	19302967	-1	None	None
19	MEF2BNB-MEF2B	ENSG00000064489	ENST00000514819	protein_coding	PUTATIVE	None	39979	1149	382	19256393	19302947	-1	None	None
19	MEF2BNB-MEF2B	ENSG00000064489	ENST00000602276	processed_transcript	KNOWN	None	39979	None	None	19257677	19293156	-1	None	None
19	MEF2BNB-MEF2B	ENSG00000064489	ENST00000602438	processed_transcript	KNOWN	None	39979	None	None	19260102	19302956	-1	None	None
19	MEF2BNB-MEF2B	ENSG00000064489	ENST00000602689	nonsense_mediated_decay	KNOWN	CCDS46025	39979	360	119	19261495	19302931	-1	None	None
19	None	ENSG00000264515	ENST00000582581	lincRNA	KNOWN	None	None	None	None	29777918	30016659	-1	None	None
19	None	ENSG00000264515	ENST00000577849	retained_intron	KNOWN	None	None	None	None	29903138	30016641	-1	None	None
12	None	ENSG00000257999	ENST00000550088	antisense	KNOWN	None	None	None	None	105496250	105500957	-1	None	None
6	CACYBPP3	ENSG00000219188	ENST00000406011	processed_pseudogene	KNOWN	None	45124	None	None	158936637	158937261	-1	None	None
15	UBE2Q2P1	ENSG00000189136	ENST00000354771	transcribed_unprocessed_pseudogene	KNOWN	None	37439	None	None	85070012	85113931	-1	UBE2QP1	FLJ43276
15	UBE2Q2P1	ENSG00000189136	ENST00000339094	processed_transcript	KNOWN	None	37439	None	None	85070427	85114026	-1	UBE2QP1	FLJ43276
15	UBE2Q2P1	ENSG00000189136	ENST00000559958	processed_transcript	KNOWN	None	37439	None	None	85070863	85085460	-1	UBE2QP1	FLJ43276
15	UBE2Q2P1	ENSG00000189136	ENST00000559010	retained_intron	KNOWN	None	37439	None	None	85081794	85085828	-1	UBE2QP1	FLJ43276
15	UBE2Q2P1	ENSG00000189136	ENST00000558251	processed_transcript	KNOWN	None	37439	None	None	85085376	85113943	-1	UBE2QP1	FLJ43276
15	UBE2Q2P1	ENSG00000189136	ENST00000561403	processed_transcript	KNOWN	None	37439	None	None	85089456	85113744	-1	UBE2QP1	FLJ43276
15	UBE2Q2P1	ENSG00000189136	ENST00000559871	processed_transcript	KNOWN	None	37439	None	None	85106645	85114447	-1	UBE2QP1	FLJ43276
21	TMEM50B	ENSG00000142188	ENST00000484377	processed_transcript	KNOWN	None	1280	None	None	34804792	34821271	-1	C21orf4	None
21	TMEM50B	ENSG00000142188	ENST00000420455	nonsense_mediated_decay	KNOWN	CCDS13625	1280	477	158	34804792	34852250	-1	C21orf4	None
21	TMEM50B	ENSG00000142188	ENST00000470682	processed_transcript	KNOWN	None	1280	None	None	34805105	34821717	-1	C21orf4	None
21	TMEM50B	ENSG00000142188	ENST00000468874	processed_transcript	KNOWN	None	1280	None	None	34809191	34821496	-1	C21orf4	None
21	TMEM50B	ENSG00000142188	ENST00000542230	protein_coding	KNOWN	CCDS13625	1280	477	158	34821442	34852318	-1	C21orf4	None
21	TMEM50B	ENSG00000142188	ENST00000441128	nonsense_mediated_decay	KNOWN	None	1280	135	44	34822828	34841233	-1	C21orf4	None
21	TMEM50B	ENSG00000142188	ENST00000442441	nonsense_mediated_decay	KNOWN	None	1280	456	151	34822854	34852243	-1	C21orf4	None
21	TMEM50B	ENSG00000142188	ENST00000474272	retained_intron	KNOWN	None	1280	None	None	34837325	34839442	-1	C21orf4	None
21	TMEM50B	ENSG00000142188	ENST00000432504	protein_coding	KNOWN	None	1280	244	80	34837685	34851596	-1	C21orf4	None
21	TMEM50B	ENSG00000142188	ENST00000459909	retained_intron	KNOWN	None	1280	None	None	34840727	34852255	-1	C21orf4	None
7	PAPOLB	ENSG00000218823	ENST00000404991	protein_coding	KNOWN	None	15970	1911	636	4897364	4901625	-1	None	PAPT
19	None	ENSG00000267574	ENST00000587520	lincRNA	KNOWN	None	None	None	None	29938945	29939287	1	None	None
X	MAGED4	ENSG00000154545	ENST00000471932	processed_transcript	KNOWN	None	23793	None	None	51927943	51935364	1	None	MAGE1, MGC3210, KIAA1859, MAGE-E1
X	MAGED4	ENSG00000154545	ENST00000459685	processed_transcript	KNOWN	None	23793	None	None	51927972	51935364	1	None	MAGE1, MGC3210, KIAA1859, MAGE-E1
X	MAGED4	ENSG00000154545	ENST00000488430	processed_transcript	KNOWN	None	23793	None	None	51927983	51935364	1	None	MAGE1, MGC3210, KIAA1859, MAGE-E1
X	MAGED4	ENSG00000154545	ENST00000375626	protein_coding	KNOWN	CCDS48116	23793	2220	739	51928008	51935364	1	None	MAGE1, MGC3210, KIAA1859, MAGE-E1
X	MAGED4	ENSG00000154545	ENST00000477634	processed_transcript	KNOWN	None	23793	None	None	51928008	51935364	1	None	MAGE1, MGC3210, KIAA1859, MAGE-E1
X	MAGED4	ENSG00000154545	ENST00000498483	processed_transcript	KNOWN	None	23793	None	None	51928008	51935364	1	None	MAGE1, MGC3210, KIAA1859, MAGE-E1
X	MAGED4	ENSG00000154545	ENST00000467526	processed_transcript	KNOWN	None	23793	None	None	51928019	51930190	1	None	MAGE1, MGC3210, KIAA1859, MAGE-E1
X	MAGED4	ENSG00000154545	ENST00000474812	processed_transcript	KNOWN	None	23793	None	None	51929586	51930176	1	None	MAGE1, MGC3210, KIAA1859, MAGE-E1
X	MAGED4	ENSG00000154545	ENST00000479281	processed_transcript	KNOWN	None	23793	None	None	51930729	51935364	1	None	MAGE1, MGC3210, KIAA1859, MAGE-E1
X	MAGED4	ENSG00000154545	ENST00000497416	processed_transcript	KNOWN	None	23793	None	None	51933114	51935352	1	None	MAGE1, MGC3210, KIAA1859, MAGE-E1
X	MAGED4	ENSG00000154545	ENST00000497348	processed_transcript	KNOWN	None	23793	None	None	51934138	51935280	1	None	MAGE1, MGC3210, KIAA1859, MAGE-E1
X	MAGED4	ENSG00000154545	ENST00000416960	protein_coding	KNOWN	None	23793	2274	757	51927919	51935364	1	None	MAGE1, MGC3210, KIAA1859, MAGE-E1
X	IGBP1-AS2	ENSG00000220925	ENST00000403371	antisense	KNOWN	None	40294	None	None	69368432	69369504	-1	None	None
22	BCRP5	ENSG00000235062	ENST00000514371	unprocessed_pseudogene	KNOWN	None	1018	None	None	21052250	21053222	-1	BCRL5	None
12	None	ENSG00000257642	ENST00000549251	antisense	KNOWN	None	None	None	None	105698645	105720795	-1	None	None
3	CCR5	ENSG00000160791	ENST00000292303	protein_coding	KNOWN	CCDS2739	1606	1059	352	46412345	46417697	1	CMKBR5	CKR-5, CC-CKR-5, CKR5, CD195, IDDM22
3	CCR5	ENSG00000160791	ENST00000445772	protein_coding	KNOWN	CCDS2739	1606	1059	352	46414161	46415452	1	CMKBR5	CKR-5, CC-CKR-5, CKR5, CD195, IDDM22
3	CCR5	ENSG00000160791	ENST00000343801	protein_coding	KNOWN	CCDS2739	1606	1059	352	46411633	46417673	1	CMKBR5	CKR-5, CC-CKR-5, CKR5, CD195, IDDM22
1	MPC2	ENSG00000143158	ENST00000367846	protein_coding	KNOWN	CCDS1266	24515	384	127	167885967	167905278	-1	BRP44	DKFZP564B167
1	MPC2	ENSG00000143158	ENST00000271373	protein_coding	KNOWN	CCDS1266	24515	384	127	167887306	167906278	-1	BRP44	DKFZP564B167
1	MPC2	ENSG00000143158	ENST00000458574	protein_coding	KNOWN	None	24515	315	104	167889249	167906043	-1	BRP44	DKFZP564B167
22	PHF5A	ENSG00000100410	ENST00000216252	protein_coding	KNOWN	CCDS14016	18000	333	110	41855721	41864729	-1	None	MGC1346, SF3b14b, INI, bK223H9.2, Rds3, SAP14b
22	PHF5A	ENSG00000100410	ENST00000459687	retained_intron	KNOWN	None	18000	None	None	41856307	41864629	-1	None	MGC1346, SF3b14b, INI, bK223H9.2, Rds3, SAP14b
22	PHF5A	ENSG00000100410	ENST00000491254	processed_transcript	KNOWN	None	18000	None	None	41856436	41864503	-1	None	MGC1346, SF3b14b, INI, bK223H9.2, Rds3, SAP14b
14	TRAJ42	ENSG00000211847	ENST00000390495	TR_J_gene	KNOWN	None	12073	66	21	22965872	22965937	1	None	None
X	IGBP1-AS1	ENSG00000203588	ENST00000366397	antisense	KNOWN	None	40295	None	None	69383692	69385056	-1	None	None
17	SPPL2C	ENSG00000185294	ENST00000329196	protein_coding	KNOWN	CCDS32673	28902	2055	684	43922256	43924438	1	None	IMP5
X	RN7SL581P	ENSG00000242657	ENST00000477181	misc_RNA	KNOWN	None	46597	None	None	69441858	69442164	-1	None	None
X	RNA5SP507	ENSG00000200473	ENST00000363603	rRNA	KNOWN	None	43407	None	None	69472892	69473012	1	RN5S507	None
11	None	ENSG00000254932	ENST00000526796	antisense	KNOWN	None	None	None	None	125128522	125136694	-1	None	None
19	None	ENSG00000266248	ENST00000579268	antisense	KNOWN	None	None	None	None	29980682	30017855	-1	None	None
11	RRM1	ENSG00000167325	ENST00000532710	processed_transcript	KNOWN	None	10451	None	None	4115937	4128710	1	None	None
11	RRM1	ENSG00000167325	ENST00000532170	nonsense_mediated_decay	KNOWN	None	10451	210	69	4116029	4160100	1	None	None
11	RRM1	ENSG00000167325	ENST00000526865	processed_transcript	KNOWN	None	10451	None	None	4116035	4127377	1	None	None
11	RRM1	ENSG00000167325	ENST00000300738	protein_coding	KNOWN	CCDS7750	10451	2379	792	4116039	4160106	1	None	None
11	RRM1	ENSG00000167325	ENST00000533349	nonsense_mediated_decay	KNOWN	None	10451	114	37	4116073	4160105	1	None	None
11	RRM1	ENSG00000167325	ENST00000526350	retained_intron	KNOWN	None	10451	None	None	4116082	4128800	1	None	None
11	RRM1	ENSG00000167325	ENST00000530368	retained_intron	KNOWN	None	10451	None	None	4123158	4127453	1	None	None
11	RRM1	ENSG00000167325	ENST00000528442	nonsense_mediated_decay	KNOWN	None	10451	392	129	4133205	4144615	1	None	None
11	RRM1	ENSG00000167325	ENST00000534285	protein_coding	PUTATIVE	None	10451	1713	570	4137308	4159676	1	None	None
11	RRM1	ENSG00000167325	ENST00000533495	nonsense_mediated_decay	KNOWN	None	10451	228	75	4137473	4160105	1	None	None
11	RRM1	ENSG00000167325	ENST00000526304	processed_transcript	KNOWN	None	10451	None	None	4140292	4144500	1	None	None
11	RRM1	ENSG00000167325	ENST00000528470	processed_transcript	KNOWN	None	10451	None	None	4140299	4144501	1	None	None
11	RRM1	ENSG00000167325	ENST00000531591	retained_intron	KNOWN	None	10451	None	None	4142905	4148179	1	None	None
11	RRM1	ENSG00000167325	ENST00000529109	retained_intron	KNOWN	None	10451	None	None	4143339	4148047	1	None	None
11	RRM1	ENSG00000167325	ENST00000423050	protein_coding	KNOWN	None	10451	2088	695	4116073	4160105	1	None	None
11	RRM1	ENSG00000167325	ENST00000537197	protein_coding	KNOWN	None	10451	1365	454	4137473	4160105	1	None	None
1	SPSB1	ENSG00000171621	ENST00000328089	protein_coding	KNOWN	CCDS102	30628	822	273	9352939	9429591	1	None	SSB-1
1	SPSB1	ENSG00000171621	ENST00000450402	protein_coding	KNOWN	None	30628	606	201	9354587	9416556	1	None	SSB-1
1	SPSB1	ENSG00000171621	ENST00000357898	protein_coding	KNOWN	CCDS102	30628	822	273	9411490	9427922	1	None	SSB-1
1	SPSB1	ENSG00000171621	ENST00000377399	protein_coding	KNOWN	CCDS102	30628	822	273	9415766	9427634	1	None	SSB-1
19	None	ENSG00000267433	ENST00000586584	processed_pseudogene	KNOWN	None	None	None	None	30392603	30392776	-1	None	None
7	MMD2	ENSG00000136297	ENST00000406755	protein_coding	PUTATIVE	CCDS59047	30133	582	193	4945620	4998822	-1	None	PAQR10
7	MMD2	ENSG00000136297	ENST00000404774	protein_coding	KNOWN	CCDS47529	30133	813	270	4945620	4998843	-1	None	PAQR10
7	MMD2	ENSG00000136297	ENST00000401401	protein_coding	KNOWN	CCDS47530	30133	741	246	4945629	4998844	-1	None	PAQR10
10	AGAP7	ENSG00000204169	ENST00000374095	protein_coding	KNOWN	CCDS41524	23465	1992	663	51464162	51486327	-1	CTGLF4	bA109G10.1
10	BMS1P3	ENSG00000240089	ENST00000372011	transcribed_unprocessed_pseudogene	KNOWN	None	23651	None	None	88752010	88760192	1	BMS1LP3	bA96C23.1, OTTHUMG00000018662
18	DSC1	ENSG00000134765	ENST00000257197	protein_coding	KNOWN	CCDS11895	3035	2523	840	28709199	28742819	-1	None	CDHF1
18	DSC1	ENSG00000134765	ENST00000257198	protein_coding	KNOWN	CCDS11894	3035	2685	894	28709199	28742819	-1	None	CDHF1
12	None	ENSG00000264749	ENST00000584487	miRNA	NOVEL	None	None	None	None	105721684	105721770	-1	None	None
14	TRAJ41	ENSG00000211848	ENST00000390496	TR_J_gene	KNOWN	None	12072	62	19	22966642	22966703	1	None	None
3	ARHGEF26	ENSG00000114790	ENST00000356448	protein_coding	KNOWN	CCDS46938	24490	2616	871	153838792	153975616	1	None	DKFZP434D146, SGEF
3	ARHGEF26	ENSG00000114790	ENST00000465093	protein_coding	KNOWN	CCDS46938	24490	2616	871	153839149	153974364	1	None	DKFZP434D146, SGEF
3	ARHGEF26	ENSG00000114790	ENST00000496710	nonsense_mediated_decay	KNOWN	CCDS58858	24490	2376	791	153839205	153974337	1	None	DKFZP434D146, SGEF
3	ARHGEF26	ENSG00000114790	ENST00000465817	protein_coding	KNOWN	None	24490	1341	446	153839229	153975614	1	None	DKFZP434D146, SGEF
3	ARHGEF26	ENSG00000114790	ENST00000483068	processed_transcript	KNOWN	None	24490	None	None	153943574	153975616	1	None	DKFZP434D146, SGEF
10	AGAP11	ENSG00000151303	ENST00000444431	processed_transcript	KNOWN	None	29421	None	None	88752163	88769960	1	None	KIAA1975
22	TMEM191A	ENSG00000226287	ENST00000450925	processed_transcript	KNOWN	None	25317	None	None	21055402	21058894	1	None	DKFZp434N035, TMEM191AP
22	TMEM191A	ENSG00000226287	ENST00000436618	retained_intron	KNOWN	None	25317	None	None	21056600	21058628	1	None	DKFZp434N035, TMEM191AP
22	TMEM191A	ENSG00000226287	ENST00000442222	processed_transcript	KNOWN	None	25317	None	None	21056965	21058890	1	None	DKFZp434N035, TMEM191AP
22	TMEM191A	ENSG00000226287	ENST00000445836	processed_transcript	KNOWN	None	25317	None	None	21057129	21058793	1	None	DKFZp434N035, TMEM191AP
22	TMEM191A	ENSG00000226287	ENST00000452055	retained_intron	KNOWN	None	25317	None	None	21057209	21058894	1	None	DKFZp434N035, TMEM191AP
22	TMEM191A	ENSG00000226287	ENST00000414022	retained_intron	KNOWN	None	25317	None	None	21057261	21058542	1	None	DKFZp434N035, TMEM191AP
22	TMEM191A	ENSG00000226287	ENST00000454833	retained_intron	KNOWN	None	25317	None	None	21057263	21058407	1	None	DKFZp434N035, TMEM191AP
22	TMEM191A	ENSG00000226287	ENST00000419950	processed_transcript	KNOWN	None	25317	None	None	21057340	21058894	1	None	DKFZp434N035, TMEM191AP
22	TMEM191A	ENSG00000226287	ENST00000422715	retained_intron	KNOWN	None	25317	None	None	21057383	21058522	1	None	DKFZp434N035, TMEM191AP
22	TMEM191A	ENSG00000226287	ENST00000428752	retained_intron	KNOWN	None	25317	None	None	21058004	21058846	1	None	DKFZp434N035, TMEM191AP
22	TMEM191A	ENSG00000226287	ENST00000359859	processed_transcript	KNOWN	None	25317	None	None	21055220	21055955	1	None	DKFZp434N035, TMEM191AP
20	RALY	ENSG00000125970	ENST00000375114	protein_coding	KNOWN	CCDS13229	15921	873	290	32581452	32668077	1	None	P542, HNRPCL2
20	RALY	ENSG00000125970	ENST00000448364	protein_coding	KNOWN	None	15921	543	180	32581486	32663845	1	None	P542, HNRPCL2
20	RALY	ENSG00000125970	ENST00000246194	protein_coding	KNOWN	CCDS13230	15921	921	306	32581528	32668077	1	None	P542, HNRPCL2
20	RALY	ENSG00000125970	ENST00000413297	protein_coding	KNOWN	None	15921	268	88	32581608	32661380	1	None	P542, HNRPCL2
20	RALY	ENSG00000125970	ENST00000333552	protein_coding	PUTATIVE	None	15921	515	170	32581759	32664888	1	None	P542, HNRPCL2
20	RALY	ENSG00000125970	ENST00000442805	protein_coding	KNOWN	None	15921	712	236	32617667	32664935	1	None	P542, HNRPCL2
20	RALY	ENSG00000125970	ENST00000493399	processed_transcript	KNOWN	None	15921	None	None	32659872	32664852	1	None	P542, HNRPCL2
20	RALY	ENSG00000125970	ENST00000488227	processed_transcript	PUTATIVE	None	15921	None	None	32661416	32664035	1	None	P542, HNRPCL2
20	RALY	ENSG00000125970	ENST00000481580	retained_intron	KNOWN	None	15921	None	None	32664502	32665486	1	None	P542, HNRPCL2
20	RALY	ENSG00000125970	ENST00000489384	processed_transcript	KNOWN	None	15921	None	None	32665019	32696114	1	None	P542, HNRPCL2
15	RNU6-181P	ENSG00000200095	ENST00000363225	snRNA	KNOWN	None	47144	None	None	101100891	101100997	-1	None	None
10	None	ENSG00000272508	ENST00000444180	processed_transcript	KNOWN	None	None	None	None	88753189	88784489	1	None	None
15	None	ENSG00000212306	ENST00000391004	misc_RNA	NOVEL	None	None	None	None	101178568	101178662	1	None	None
12	None	ENSG00000257859	ENST00000548557	lincRNA	KNOWN	None	None	None	None	106097981	106137840	1	None	None
12	None	ENSG00000257859	ENST00000547465	lincRNA	KNOWN	None	None	None	None	106100552	106136007	1	None	None
1	DNTTIP2	ENSG00000067334	ENST00000436063	protein_coding	KNOWN	CCDS44174	24013	2271	756	94333373	94344762	-1	None	HSU15552, ERBP, TdIF2
1	DNTTIP2	ENSG00000067334	ENST00000462746	retained_intron	KNOWN	None	24013	None	None	94335336	94336553	-1	None	HSU15552, ERBP, TdIF2
1	DNTTIP2	ENSG00000067334	ENST00000496535	processed_transcript	KNOWN	None	24013	None	None	94335336	94338925	-1	None	HSU15552, ERBP, TdIF2
1	DNTTIP2	ENSG00000067334	ENST00000359208	nonsense_mediated_decay	KNOWN	None	24013	1806	601	94335354	94344718	-1	None	HSU15552, ERBP, TdIF2
1	DNTTIP2	ENSG00000067334	ENST00000460191	processed_transcript	KNOWN	None	24013	None	None	94341222	94345474	-1	None	HSU15552, ERBP, TdIF2
1	DNTTIP2	ENSG00000067334	ENST00000496672	processed_transcript	KNOWN	None	24013	None	None	94342315	94344712	-1	None	HSU15552, ERBP, TdIF2
1	DNTTIP2	ENSG00000067334	ENST00000528680	protein_coding	NOVEL	None	24013	483	160	94343029	94344720	-1	None	HSU15552, ERBP, TdIF2
14	PPP4R4	ENSG00000119698	ENST00000556884	protein_coding	PUTATIVE	None	23788	188	61	94612465	94696956	1	KIAA1622	PP4R4
14	PPP4R4	ENSG00000119698	ENST00000555690	processed_transcript	KNOWN	None	23788	None	None	94640649	94697051	1	KIAA1622	PP4R4
14	PPP4R4	ENSG00000119698	ENST00000304338	protein_coding	KNOWN	CCDS9921	23788	2622	873	94640649	94746072	1	KIAA1622	PP4R4
14	PPP4R4	ENSG00000119698	ENST00000328839	protein_coding	KNOWN	CCDS9922	23788	363	120	94640675	94694183	1	KIAA1622	PP4R4
14	PPP4R4	ENSG00000119698	ENST00000553661	protein_coding	PUTATIVE	None	23788	171	56	94641798	94697043	1	KIAA1622	PP4R4
14	PPP4R4	ENSG00000119698	ENST00000556470	protein_coding	PUTATIVE	None	23788	339	112	94642117	94700055	1	KIAA1622	PP4R4
16	None	ENSG00000260495	ENST00000570148	antisense	KNOWN	None	None	None	None	81344336	81347028	-1	None	None
9	None	ENSG00000254633	ENST00000531758	unitary_pseudogene	KNOWN	None	None	None	None	100038848	100058041	1	None	None
HSCHR6_MHC_COX	PPP1R10	ENSG00000230995	ENST00000420949	protein_coding	KNOWN	None	9284	2823	940	30558026	30574870	-1	None	PNUTS, FB19, CAT53, p99
HSCHR6_MHC_COX	PPP1R10	ENSG00000230995	ENST00000488552	retained_intron	KNOWN	None	9284	None	None	30561199	30561838	-1	None	PNUTS, FB19, CAT53, p99
HSCHR6_MHC_COX	PPP1R10	ENSG00000230995	ENST00000472771	retained_intron	KNOWN	None	9284	None	None	30562238	30563624	-1	None	PNUTS, FB19, CAT53, p99
HSCHR6_MHC_COX	PPP1R10	ENSG00000230995	ENST00000490256	retained_intron	KNOWN	None	9284	None	None	30562644	30564363	-1	None	PNUTS, FB19, CAT53, p99
HSCHR6_MHC_COX	PPP1R10	ENSG00000230995	ENST00000469365	retained_intron	KNOWN	None	9284	None	None	30563435	30563869	-1	None	PNUTS, FB19, CAT53, p99
HSCHR6_MHC_COX	PPP1R10	ENSG00000230995	ENST00000468706	processed_transcript	KNOWN	None	9284	None	None	30567573	30574870	-1	None	PNUTS, FB19, CAT53, p99
HSCHR6_MHC_COX	PPP1R10	ENSG00000230995	ENST00000461975	processed_transcript	KNOWN	None	9284	None	None	30574210	30576238	-1	None	PNUTS, FB19, CAT53, p99
HSCHR6_MHC_COX	PPP1R10	ENSG00000230995	ENST00000549281	protein_coding	KNOWN	None	9284	936	311	30562562	30574869	-1	None	PNUTS, FB19, CAT53, p99
6	KRASP1	ENSG00000220635	ENST00000407852	processed_pseudogene	KNOWN	None	6406	None	None	54635381	54635932	1	KRAS1P	None
16	MIR4720	ENSG00000261609	ENST00000568107	lincRNA	KNOWN	None	41705	None	None	81416874	81424489	1	None	hsa-mir-4720
16	MIR4720	ENSG00000261609	ENST00000563750	lincRNA	KNOWN	None	41705	None	None	81419068	81421165	1	None	hsa-mir-4720
16	MIR4720	ENSG00000261609	ENST00000581455	miRNA	KNOWN	None	41705	None	None	81418623	81418698	1	None	hsa-mir-4720
14	INF2	ENSG00000203485	ENST00000330634	protein_coding	KNOWN	CCDS45173	23791	3723	1240	105155943	105185942	1	C14orf151, C14orf173	MGC13251
14	INF2	ENSG00000203485	ENST00000398337	protein_coding	KNOWN	CCDS41999	23791	705	234	105155958	105171146	1	C14orf151, C14orf173	MGC13251
14	INF2	ENSG00000203485	ENST00000392634	protein_coding	KNOWN	CCDS9989	23791	3750	1249	105155974	105185940	1	C14orf151, C14orf173	MGC13251
14	INF2	ENSG00000203485	ENST00000252527	protein_coding	KNOWN	None	23791	2154	717	105174201	105185942	1	C14orf151, C14orf173	MGC13251
14	INF2	ENSG00000203485	ENST00000474229	retained_intron	KNOWN	None	23791	None	None	105174628	105178001	1	C14orf151, C14orf173	MGC13251
14	INF2	ENSG00000203485	ENST00000480763	retained_intron	KNOWN	None	23791	None	None	105177062	105179270	1	C14orf151, C14orf173	MGC13251
14	INF2	ENSG00000203485	ENST00000477497	retained_intron	KNOWN	None	23791	None	None	105179050	105179943	1	C14orf151, C14orf173	MGC13251
14	INF2	ENSG00000203485	ENST00000481338	processed_transcript	KNOWN	None	23791	None	None	105182062	105185940	1	C14orf151, C14orf173	MGC13251
8	None	ENSG00000253320	ENST00000522939	protein_coding	PUTATIVE	None	None	261	86	103876528	103892442	1	None	None
8	None	ENSG00000253320	ENST00000524007	protein_coding	PUTATIVE	None	None	261	86	103876565	103877547	1	None	None
8	None	ENSG00000253320	ENST00000520750	processed_transcript	KNOWN	None	None	None	None	103876646	103954193	1	None	None
8	None	ENSG00000253320	ENST00000522850	processed_transcript	PUTATIVE	None	None	None	None	103876669	103877536	1	None	None
8	None	ENSG00000253320	ENST00000518978	processed_transcript	PUTATIVE	None	None	None	None	103876686	103894715	1	None	None
8	None	ENSG00000253320	ENST00000520538	processed_transcript	KNOWN	None	None	None	None	103876712	103989909	1	None	None
8	None	ENSG00000253320	ENST00000519257	processed_transcript	PUTATIVE	None	None	None	None	103892126	103897817	1	None	None
8	None	ENSG00000253320	ENST00000519979	retained_intron	KNOWN	None	None	None	None	103892144	103916730	1	None	None
8	None	ENSG00000253320	ENST00000517999	processed_transcript	PUTATIVE	None	None	None	None	103892144	103917356	1	None	None
8	None	ENSG00000253320	ENST00000520455	processed_transcript	PUTATIVE	None	None	None	None	103916020	103917523	1	None	None
8	None	ENSG00000253320	ENST00000519181	processed_transcript	PUTATIVE	None	None	None	None	103916503	103990104	1	None	None
8	None	ENSG00000253320	ENST00000517389	processed_transcript	KNOWN	None	None	None	None	103937260	103990014	1	None	None
8	None	ENSG00000253320	ENST00000517996	processed_transcript	KNOWN	None	None	None	None	103942410	103989966	1	None	None
8	None	ENSG00000253320	ENST00000517512	processed_transcript	PUTATIVE	None	None	None	None	103948223	103949946	1	None	None
8	None	ENSG00000253320	ENST00000518518	processed_transcript	PUTATIVE	None	None	None	None	103949910	103984599	1	None	None
8	None	ENSG00000253320	ENST00000519648	processed_transcript	PUTATIVE	None	None	None	None	103953851	103990104	1	None	None
1	SLC25A33	ENSG00000171612	ENST00000302692	protein_coding	KNOWN	CCDS103	29681	966	321	9599541	9645237	1	None	MGC4399, BMSC-MCP, PNC1
20	LINC00029	ENSG00000125514	ENST00000414668	lincRNA	KNOWN	None	16184	None	None	61665569	61667748	-1	C20orf51, NCRNA00029	bA305P22.4
20	LINC00029	ENSG00000125514	ENST00000370341	lincRNA	KNOWN	None	16184	None	None	61665569	61668380	-1	C20orf51, NCRNA00029	bA305P22.4
20	LINC00029	ENSG00000125514	ENST00000456634	lincRNA	KNOWN	None	16184	None	None	61665735	61667705	-1	C20orf51, NCRNA00029	bA305P22.4
10	CTSLP7	ENSG00000232438	ENST00000423775	unprocessed_pseudogene	KNOWN	None	23635	None	None	47271222	47272342	-1	CTSLL7, CTSL1P7	bA144G6.6
9	PALM2-AKAP2	ENSG00000157654	ENST00000374530	protein_coding	KNOWN	CCDS35100	33529	3312	1103	112542589	112934792	1	None	None
9	PALM2-AKAP2	ENSG00000157654	ENST00000413420	protein_coding	NOVEL	None	33529	1301	432	112542719	112898429	1	None	None
9	PALM2-AKAP2	ENSG00000157654	ENST00000302798	protein_coding	KNOWN	CCDS35101	33529	3273	1090	112542736	112932189	1	None	None
11	RNU6-321P	ENSG00000222844	ENST00000410912	snRNA	KNOWN	None	47284	None	None	125147448	125147553	1	None	None
17	KLHL11	ENSG00000178502	ENST00000319121	protein_coding	KNOWN	CCDS11411	19008	2127	708	40009797	40021684	-1	None	FLJ10572
7	C7orf76	ENSG00000197851	ENST00000356686	protein_coding	KNOWN	CCDS56495	33815	387	128	96110938	96132835	-1	None	FLJ42280
16	None	ENSG00000259912	ENST00000565055	lincRNA	KNOWN	None	None	None	None	48654230	48655944	1	None	None
X	TAB3	ENSG00000157625	ENST00000378933	protein_coding	KNOWN	CCDS14226	30681	2139	712	30845559	30885319	-1	MAP3K7IP3	None
X	TAB3	ENSG00000157625	ENST00000467136	nonsense_mediated_decay	KNOWN	None	30681	1827	608	30852738	30889919	-1	MAP3K7IP3	None
X	TAB3	ENSG00000157625	ENST00000378928	protein_coding	KNOWN	None	30681	252	83	30861105	30871004	-1	MAP3K7IP3	None
X	TAB3	ENSG00000157625	ENST00000378930	protein_coding	KNOWN	CCDS14226	30681	2139	712	30845560	30877837	-1	MAP3K7IP3	None
X	TAB3	ENSG00000157625	ENST00000288422	protein_coding	KNOWN	CCDS14226	30681	2139	712	30848454	30993201	-1	MAP3K7IP3	None
X	TAB3	ENSG00000157625	ENST00000378932	protein_coding	KNOWN	None	30681	2055	684	30848454	30993201	-1	MAP3K7IP3	None
16	None	ENSG00000260086	ENST00000568150	lincRNA	KNOWN	None	None	None	None	48657347	48778553	1	None	None
16	None	ENSG00000260086	ENST00000564212	lincRNA	KNOWN	None	None	None	None	48657358	48707389	1	None	None
16	None	ENSG00000260086	ENST00000565072	lincRNA	KNOWN	None	None	None	None	48657373	48710663	1	None	None
10	None	ENSG00000227310	ENST00000439776	lincRNA	KNOWN	None	None	None	None	47279073	47289833	-1	None	None
10	None	ENSG00000227310	ENST00000456034	lincRNA	KNOWN	None	None	None	None	47279192	47280335	-1	None	None
20	IFT52	ENSG00000101052	ENST00000373030	protein_coding	KNOWN	CCDS33470	15901	1314	437	42219571	42275936	1	C20orf9	CGI-53, NGD5, dJ1028D15.1, NGD2
20	IFT52	ENSG00000101052	ENST00000373039	protein_coding	KNOWN	CCDS33470	15901	1314	437	42219630	42275862	1	C20orf9	CGI-53, NGD5, dJ1028D15.1, NGD2
20	IFT52	ENSG00000101052	ENST00000486243	processed_transcript	KNOWN	None	15901	None	None	42223362	42233713	1	C20orf9	CGI-53, NGD5, dJ1028D15.1, NGD2
20	IFT52	ENSG00000101052	ENST00000476986	processed_transcript	KNOWN	None	15901	None	None	42232514	42233856	1	C20orf9	CGI-53, NGD5, dJ1028D15.1, NGD2
20	IFT52	ENSG00000101052	ENST00000467024	processed_transcript	KNOWN	None	15901	None	None	42242490	42252762	1	C20orf9	CGI-53, NGD5, dJ1028D15.1, NGD2
20	IFT52	ENSG00000101052	ENST00000468420	processed_transcript	KNOWN	None	15901	None	None	42242539	42265844	1	C20orf9	CGI-53, NGD5, dJ1028D15.1, NGD2
20	IFT52	ENSG00000101052	ENST00000460014	processed_transcript	KNOWN	None	15901	None	None	42242606	42249698	1	C20orf9	CGI-53, NGD5, dJ1028D15.1, NGD2
20	IFT52	ENSG00000101052	ENST00000461012	processed_transcript	KNOWN	None	15901	None	None	42265787	42275867	1	C20orf9	CGI-53, NGD5, dJ1028D15.1, NGD2
20	IFT52	ENSG00000101052	ENST00000471199	processed_transcript	KNOWN	None	15901	None	None	42270798	42275857	1	C20orf9	CGI-53, NGD5, dJ1028D15.1, NGD2
X	None	ENSG00000231053	ENST00000412817	processed_pseudogene	KNOWN	None	None	None	None	69581336	69582224	-1	None	None
11	STT3A-AS1	ENSG00000254671	ENST00000530526	antisense	KNOWN	None	44585	None	None	125440180	125462463	-1	None	None
11	STT3A-AS1	ENSG00000254671	ENST00000532714	antisense	KNOWN	None	44585	None	None	125443352	125462473	-1	None	None
7	None	ENSG00000228341	ENST00000447049	processed_pseudogene	KNOWN	None	None	None	None	107090528	107090807	1	None	None
7	None	ENSG00000238832	ENST00000459477	snoRNA	NOVEL	None	None	None	None	107243808	107243952	1	None	None
X	RNY4P23	ENSG00000201377	ENST00000364507	misc_RNA	KNOWN	None	42473	None	None	69616129	69616225	1	None	None
5	None	ENSG00000249035	ENST00000510576	antisense	KNOWN	None	None	None	None	151056506	151067471	1	None	None
5	None	ENSG00000249035	ENST00000518905	antisense	KNOWN	None	None	None	None	151056534	151104343	1	None	None
X	RNU4-81P	ENSG00000200431	ENST00000363561	snRNA	KNOWN	None	47017	None	None	69670729	69670872	1	None	None
5	BDP1	ENSG00000145734	ENST00000358731	protein_coding	KNOWN	CCDS43328	13652	7875	2624	70751442	70863647	1	TFNR, TAF3B1	TFIIIB150, TFC5, TFIIIB90, KIAA1689, HSA238520, KIAA1241
5	BDP1	ENSG00000145734	ENST00000508917	retained_intron	KNOWN	None	13652	None	None	70751513	70841304	1	TFNR, TAF3B1	TFIIIB150, TFC5, TFIIIB90, KIAA1689, HSA238520, KIAA1241
5	BDP1	ENSG00000145734	ENST00000508157	retained_intron	KNOWN	None	13652	None	None	70790292	70807177	1	TFNR, TAF3B1	TFIIIB150, TFC5, TFIIIB90, KIAA1689, HSA238520, KIAA1241
5	BDP1	ENSG00000145734	ENST00000514903	nonsense_mediated_decay	KNOWN	None	13652	1751	582	70818620	70863647	1	TFNR, TAF3B1	TFIIIB150, TFC5, TFIIIB90, KIAA1689, HSA238520, KIAA1241
5	BDP1	ENSG00000145734	ENST00000525844	nonsense_mediated_decay	KNOWN	None	13652	1821	606	70828201	70863647	1	TFNR, TAF3B1	TFIIIB150, TFC5, TFIIIB90, KIAA1689, HSA238520, KIAA1241
5	BDP1	ENSG00000145734	ENST00000380675	protein_coding	KNOWN	None	13652	1392	463	70751442	70863649	1	TFNR, TAF3B1	TFIIIB150, TFC5, TFIIIB90, KIAA1689, HSA238520, KIAA1241
7	WBP1LP2	ENSG00000250474	ENST00000515260	processed_pseudogene	KNOWN	None	43949	None	None	107268998	107269943	1	None	None
9	UAP1L1	ENSG00000197355	ENST00000409858	protein_coding	KNOWN	CCDS7028	28082	1524	507	139971953	139978990	1	None	None
9	UAP1L1	ENSG00000197355	ENST00000476184	processed_transcript	KNOWN	None	28082	None	None	139971978	139973600	1	None	None
9	UAP1L1	ENSG00000197355	ENST00000360271	protein_coding	KNOWN	None	28082	1155	384	139972593	139978991	1	None	None
9	UAP1L1	ENSG00000197355	ENST00000474787	retained_intron	KNOWN	None	28082	None	None	139973051	139978990	1	None	None
6	RNU6-1023P	ENSG00000251946	ENST00000516137	snRNA	KNOWN	None	47986	None	None	54651185	54651290	1	None	None
X	DLG3-AS1	ENSG00000231651	ENST00000424211	antisense	KNOWN	None	40182	None	None	69672808	69675676	-1	None	None
X	DLG3-AS1	ENSG00000231651	ENST00000431103	antisense	KNOWN	None	40182	None	None	69672812	69675844	-1	None	None
7	DLX6	ENSG00000006377	ENST00000518156	protein_coding	KNOWN	CCDS47647	2919	882	293	96634860	96640351	1	None	None
7	DLX6	ENSG00000006377	ENST00000493273	processed_transcript	KNOWN	None	2919	None	None	96635805	96639488	1	None	None
7	DLX6	ENSG00000006377	ENST00000555308	protein_coding	PUTATIVE	None	2919	498	165	96636737	96639366	1	None	None
7	DLX6	ENSG00000006377	ENST00000007660	protein_coding	KNOWN	None	2919	798	265	96635290	96640351	1	None	None
19	GNG8	ENSG00000167414	ENST00000300873	protein_coding	KNOWN	CCDS12687	19664	213	70	47137333	47137942	-1	None	None
6	None	ENSG00000224984	ENST00000425089	antisense	KNOWN	None	None	None	None	54704916	54705653	-1	None	None
7	RAC1	ENSG00000136238	ENST00000348035	protein_coding	KNOWN	CCDS5348	9801	579	192	6414154	6443608	1	None	TC-25, p21-Rac1, Rac-1
7	RAC1	ENSG00000136238	ENST00000356142	protein_coding	KNOWN	CCDS5349	9801	636	211	6414170	6442151	1	None	TC-25, p21-Rac1, Rac-1
7	RAC1	ENSG00000136238	ENST00000488373	processed_transcript	KNOWN	None	9801	None	None	6414194	6442112	1	None	TC-25, p21-Rac1, Rac-1
7	RAC1	ENSG00000136238	ENST00000497741	processed_transcript	KNOWN	None	9801	None	None	6431089	6442133	1	None	TC-25, p21-Rac1, Rac-1
7	RAC1	ENSG00000136238	ENST00000473564	retained_intron	KNOWN	None	9801	None	None	6439454	6441996	1	None	TC-25, p21-Rac1, Rac-1
7	RAC1	ENSG00000136238	ENST00000495499	retained_intron	KNOWN	None	9801	None	None	6441249	6442151	1	None	TC-25, p21-Rac1, Rac-1
7	BANF1P5	ENSG00000225935	ENST00000445285	processed_pseudogene	KNOWN	None	43885	None	None	107283210	107283468	-1	None	None
6	None	ENSG00000261116	ENST00000562834	sense_overlapping	KNOWN	None	None	None	None	54807965	54809897	1	None	None
X	None	ENSG00000230187	ENST00000455491	processed_pseudogene	KNOWN	None	None	None	None	69892745	69893365	-1	None	None
16	CDIP1	ENSG00000089486	ENST00000563332	protein_coding	KNOWN	CCDS42114	13234	627	208	4560676	4588471	-1	C16orf5	CDIP, LITAFL
16	CDIP1	ENSG00000089486	ENST00000399599	protein_coding	KNOWN	CCDS42114	13234	627	208	4560740	4565110	-1	C16orf5	CDIP, LITAFL
16	CDIP1	ENSG00000089486	ENST00000567695	protein_coding	KNOWN	CCDS42114	13234	627	208	4561325	4588785	-1	C16orf5	CDIP, LITAFL
16	CDIP1	ENSG00000089486	ENST00000564828	protein_coding	PUTATIVE	None	13234	159	52	4561422	4588829	-1	C16orf5	CDIP, LITAFL
16	CDIP1	ENSG00000089486	ENST00000563507	protein_coding	NOVEL	CCDS58419	13234	510	169	4561807	4588785	-1	C16orf5	CDIP, LITAFL
16	CDIP1	ENSG00000089486	ENST00000562334	protein_coding	NOVEL	CCDS58420	13234	390	129	4561934	4588774	-1	C16orf5	CDIP, LITAFL
16	CDIP1	ENSG00000089486	ENST00000589159	nonsense_mediated_decay	KNOWN	None	13234	268	88	4562400	4564665	-1	C16orf5	CDIP, LITAFL
16	CDIP1	ENSG00000089486	ENST00000562579	protein_coding	PUTATIVE	None	13234	399	132	4562455	4588776	-1	C16orf5	CDIP, LITAFL
16	CDIP1	ENSG00000089486	ENST00000589890	protein_coding	PUTATIVE	None	13234	457	151	4562799	4564150	-1	C16orf5	CDIP, LITAFL
16	CDIP1	ENSG00000089486	ENST00000563186	protein_coding	PUTATIVE	None	13234	334	110	4562868	4564665	-1	C16orf5	CDIP, LITAFL
16	CDIP1	ENSG00000089486	ENST00000588381	protein_coding	PUTATIVE	None	13234	285	94	4562917	4588470	-1	C16orf5	CDIP, LITAFL
16	CDIP1	ENSG00000089486	ENST00000586728	protein_coding	PUTATIVE	None	13234	243	80	4563695	4588405	-1	C16orf5	CDIP, LITAFL
16	CDIP1	ENSG00000089486	ENST00000566234	protein_coding	PUTATIVE	None	13234	86	27	4564046	4572526	-1	C16orf5	CDIP, LITAFL
16	CDIP1	ENSG00000089486	ENST00000586768	processed_transcript	KNOWN	None	13234	None	None	4573828	4588774	-1	C16orf5	CDIP, LITAFL
22	TFIP11	ENSG00000100109	ENST00000407690	protein_coding	KNOWN	CCDS13838	17165	2514	837	26887191	26908471	-1	None	TIP39, DKFZP434B194, Spp382
22	TFIP11	ENSG00000100109	ENST00000492137	retained_intron	KNOWN	None	17165	None	None	26887893	26890585	-1	None	TIP39, DKFZP434B194, Spp382
22	TFIP11	ENSG00000100109	ENST00000407431	protein_coding	KNOWN	CCDS13838	17165	2514	837	26887893	26908343	-1	None	TIP39, DKFZP434B194, Spp382
22	TFIP11	ENSG00000100109	ENST00000407148	protein_coding	KNOWN	CCDS13838	17165	2514	837	26887893	26908462	-1	None	TIP39, DKFZP434B194, Spp382
22	TFIP11	ENSG00000100109	ENST00000405938	protein_coding	KNOWN	CCDS13838	17165	2514	837	26887952	26908465	-1	None	TIP39, DKFZP434B194, Spp382
22	TFIP11	ENSG00000100109	ENST00000481357	retained_intron	KNOWN	None	17165	None	None	26894669	26895357	-1	None	TIP39, DKFZP434B194, Spp382
22	TFIP11	ENSG00000100109	ENST00000450493	protein_coding	PUTATIVE	None	17165	571	189	26895380	26902298	-1	None	TIP39, DKFZP434B194, Spp382
22	TFIP11	ENSG00000100109	ENST00000496523	processed_transcript	KNOWN	None	17165	None	None	26895503	26902071	-1	None	TIP39, DKFZP434B194, Spp382
22	TFIP11	ENSG00000100109	ENST00000493698	retained_intron	KNOWN	None	17165	None	None	26898002	26902678	-1	None	TIP39, DKFZP434B194, Spp382
22	TFIP11	ENSG00000100109	ENST00000479489	retained_intron	KNOWN	None	17165	None	None	26902639	26908471	-1	None	TIP39, DKFZP434B194, Spp382
22	TFIP11	ENSG00000100109	ENST00000472918	retained_intron	KNOWN	None	17165	None	None	26902704	26908444	-1	None	TIP39, DKFZP434B194, Spp382
22	TFIP11	ENSG00000100109	ENST00000455080	protein_coding	KNOWN	None	17165	364	120	26902740	26908426	-1	None	TIP39, DKFZP434B194, Spp382
22	TFIP11	ENSG00000100109	ENST00000418876	protein_coding	KNOWN	None	17165	264	87	26902840	26908444	-1	None	TIP39, DKFZP434B194, Spp382
22	TFIP11	ENSG00000100109	ENST00000420242	protein_coding	KNOWN	None	17165	260	85	26902844	26908462	-1	None	TIP39, DKFZP434B194, Spp382
22	TFIP11	ENSG00000100109	ENST00000440258	protein_coding	KNOWN	None	17165	128	41	26906111	26908455	-1	None	TIP39, DKFZP434B194, Spp382
22	TFIP11	ENSG00000100109	ENST00000464449	retained_intron	KNOWN	None	17165	None	None	26907655	26908461	-1	None	TIP39, DKFZP434B194, Spp382
12	ST13P3	ENSG00000257773	ENST00000546640	processed_pseudogene	KNOWN	None	18552	None	None	106409675	106410784	1	FAM10A3	FAM10A3P
5	NOP16	ENSG00000048162	ENST00000510123	protein_coding	PUTATIVE	CCDS58991	26934	711	236	175810949	175815763	-1	None	HSPC111, HSPC185, LOC51491
5	NOP16	ENSG00000048162	ENST00000389158	protein_coding	KNOWN	CCDS43403	26934	537	178	175810949	175815976	-1	None	HSPC111, HSPC185, LOC51491
5	NOP16	ENSG00000048162	ENST00000507413	protein_coding	PUTATIVE	None	26934	213	70	175810961	175815576	-1	None	HSPC111, HSPC185, LOC51491
5	NOP16	ENSG00000048162	ENST00000502663	nonsense_mediated_decay	KNOWN	None	26934	288	95	175811209	175815588	-1	None	HSPC111, HSPC185, LOC51491
5	NOP16	ENSG00000048162	ENST00000503849	retained_intron	KNOWN	None	26934	None	None	175811335	175815599	-1	None	HSPC111, HSPC185, LOC51491
5	NOP16	ENSG00000048162	ENST00000504821	retained_intron	KNOWN	None	26934	None	None	175811363	175815572	-1	None	HSPC111, HSPC185, LOC51491
5	NOP16	ENSG00000048162	ENST00000509257	protein_coding	PUTATIVE	None	26934	453	150	175811644	175815569	-1	None	HSPC111, HSPC185, LOC51491
5	NOP16	ENSG00000048162	ENST00000502577	retained_intron	KNOWN	None	26934	None	None	175812942	175815599	-1	None	HSPC111, HSPC185, LOC51491
5	NOP16	ENSG00000048162	ENST00000510608	retained_intron	KNOWN	None	26934	None	None	175813025	175815599	-1	None	HSPC111, HSPC185, LOC51491
8	RNU6-442P	ENSG00000206695	ENST00000383968	snRNA	KNOWN	None	47405	None	None	126913195	126913298	1	None	None
X	None	ENSG00000199769	ENST00000362899	snoRNA	NOVEL	None	None	None	None	70065931	70066145	-1	None	None
14	TRAJ40	ENSG00000211849	ENST00000390497	TR_J_gene	KNOWN	None	12071	61	19	22968672	22968732	1	None	None
X	None	ENSG00000213747	ENST00000396055	processed_pseudogene	KNOWN	None	None	None	None	70077013	70077352	1	None	None
8	LINC00861	ENSG00000245164	ENST00000522865	lincRNA	KNOWN	None	45133	None	None	126934552	126963394	-1	None	None
8	LINC00861	ENSG00000245164	ENST00000518964	lincRNA	KNOWN	None	45133	None	None	126934615	126963493	-1	None	None
8	LINC00861	ENSG00000245164	ENST00000517869	lincRNA	KNOWN	None	45133	None	None	126934767	126963394	-1	None	None
8	LINC00861	ENSG00000245164	ENST00000500989	lincRNA	KNOWN	None	45133	None	None	126953373	126963433	-1	None	None
6	BMP5	ENSG00000112175	ENST00000370830	protein_coding	KNOWN	CCDS4958	1072	1365	454	55618443	55740362	-1	None	None
6	BMP5	ENSG00000112175	ENST00000446683	protein_coding	KNOWN	None	1072	1254	417	55619725	55739677	-1	None	None
22	EFCAB6-AS1	ENSG00000223843	ENST00000431327	antisense	KNOWN	None	39999	None	None	43912134	43932747	1	None	CITF22-123F2.1
6	NIP7P3	ENSG00000218428	ENST00000404319	processed_pseudogene	KNOWN	None	45182	None	None	116458221	116458735	-1	None	None
9	None	ENSG00000263754	ENST00000580239	miRNA	NOVEL	None	None	None	None	68512346	68512422	1	None	None
X	RPS23P8	ENSG00000230629	ENST00000429775	processed_pseudogene	KNOWN	None	35982	None	None	70182814	70183143	1	None	None
5	CSNK1A1	ENSG00000113712	ENST00000261798	protein_coding	KNOWN	None	2451	978	325	148871760	148930960	-1	None	CK1, CK1a, CK1alpha, CKIa, CKIalpha
5	CSNK1A1	ENSG00000113712	ENST00000504676	protein_coding	PUTATIVE	None	2451	711	236	148875617	148929862	-1	None	CK1, CK1a, CK1alpha, CKIa, CKIalpha
5	CSNK1A1	ENSG00000113712	ENST00000515435	protein_coding	PUTATIVE	None	2451	795	264	148875617	148929862	-1	None	CK1, CK1a, CK1alpha, CKIa, CKIalpha
5	CSNK1A1	ENSG00000113712	ENST00000606719	protein_coding	PUTATIVE	None	2451	405	134	148876151	148892784	-1	None	CK1, CK1a, CK1alpha, CKIa, CKIalpha
5	CSNK1A1	ENSG00000113712	ENST00000515768	protein_coding	KNOWN	CCDS47304	2451	1098	365	148876416	148930527	-1	None	CK1, CK1a, CK1alpha, CKIa, CKIalpha
5	CSNK1A1	ENSG00000113712	ENST00000606826	nonsense_mediated_decay	KNOWN	None	2451	553	183	148878726	148892683	-1	None	CK1, CK1a, CK1alpha, CKIa, CKIalpha
5	CSNK1A1	ENSG00000113712	ENST00000503350	protein_coding	PUTATIVE	None	2451	503	166	148884409	148892720	-1	None	CK1, CK1a, CK1alpha, CKIa, CKIalpha
5	CSNK1A1	ENSG00000113712	ENST00000606299	protein_coding	PUTATIVE	None	2451	291	96	148884409	148892775	-1	None	CK1, CK1a, CK1alpha, CKIa, CKIalpha
5	CSNK1A1	ENSG00000113712	ENST00000523203	nonsense_mediated_decay	KNOWN	None	2451	237	78	148904698	148930919	-1	None	CK1, CK1a, CK1alpha, CKIa, CKIalpha
5	CSNK1A1	ENSG00000113712	ENST00000515748	protein_coding	PUTATIVE	None	2451	270	89	148928891	148930731	-1	None	CK1, CK1a, CK1alpha, CKIa, CKIalpha
5	CSNK1A1	ENSG00000113712	ENST00000377843	protein_coding	KNOWN	CCDS47303	2451	1014	337	148874845	148931007	-1	None	CK1, CK1a, CK1alpha, CKIa, CKIalpha
Y	None	ENSG00000269291	ENST00000595988	protein_coding	NOVEL	None	None	267	88	15418467	15429181	1	None	None
6	None	ENSG00000236326	ENST00000457319	antisense	KNOWN	None	None	None	None	116565350	116565891	-1	None	None
9	None	ENSG00000263614	ENST00000578094	miRNA	NOVEL	None	None	None	None	68513105	68513187	1	None	None
11	RNU6-1156P	ENSG00000222297	ENST00000410365	snRNA	KNOWN	None	48119	None	None	125444615	125444714	1	None	None
22	None	ENSG00000233157	ENST00000419730	processed_pseudogene	KNOWN	None	None	None	None	44155079	44155790	-1	None	None
7	TMEM213	ENSG00000214128	ENST00000397602	protein_coding	NOVEL	None	27220	321	106	138482697	138488493	1	None	None
7	TMEM213	ENSG00000214128	ENST00000442682	protein_coding	KNOWN	CCDS47722	27220	324	107	138482697	138491504	1	None	None
7	TMEM213	ENSG00000214128	ENST00000458494	protein_coding	PUTATIVE	None	27220	252	83	138482752	138488036	1	None	None
7	TMEM213	ENSG00000214128	ENST00000413208	protein_coding	PUTATIVE	None	27220	318	105	138482757	138522846	1	None	None
7	TMEM213	ENSG00000214128	ENST00000472775	retained_intron	KNOWN	None	27220	None	None	138482774	138486556	1	None	None
7	TMEM213	ENSG00000214128	ENST00000422794	protein_coding	KNOWN	None	27220	474	157	138482695	138488493	1	None	None
9	None	ENSG00000229789	ENST00000427066	unprocessed_pseudogene	KNOWN	None	None	None	None	68726629	68745997	1	None	None
6	None	ENSG00000237021	ENST00000448740	lincRNA	KNOWN	None	None	None	None	116575370	116577906	1	None	None
22	HMGN2P9	ENSG00000180150	ENST00000476875	processed_pseudogene	KNOWN	None	4987	None	None	44198424	44198652	1	HMG17L1, HMGN2L9	dJ388M5.2
11	RNU2-35P	ENSG00000252255	ENST00000516446	snRNA	KNOWN	None	48528	None	None	125519641	125519782	1	None	None
10	MIR938	ENSG00000216035	ENST00000401216	miRNA	KNOWN	None	33681	None	None	29891193	29891275	-1	MIRN938	hsa-mir-938
21	SAMSN1	ENSG00000155307	ENST00000400564	protein_coding	KNOWN	None	10528	618	205	15857549	15918662	-1	None	NASH1, SASH2, SH3D6B, HACS1, SLy2
21	SAMSN1	ENSG00000155307	ENST00000400566	protein_coding	KNOWN	CCDS42906	10528	1122	373	15857549	15918664	-1	None	NASH1, SASH2, SH3D6B, HACS1, SLy2
21	SAMSN1	ENSG00000155307	ENST00000285670	protein_coding	NOVEL	CCDS58786	10528	1326	441	15857549	15955723	-1	None	NASH1, SASH2, SH3D6B, HACS1, SLy2
21	SAMSN1	ENSG00000155307	ENST00000463807	processed_transcript	KNOWN	None	10528	None	None	15868021	15872927	-1	None	NASH1, SASH2, SH3D6B, HACS1, SLy2
21	SAMSN1	ENSG00000155307	ENST00000493640	processed_transcript	KNOWN	None	10528	None	None	15893494	15918634	-1	None	NASH1, SASH2, SH3D6B, HACS1, SLy2
3	ADAMTS9	ENSG00000163638	ENST00000477180	retained_intron	KNOWN	None	13202	None	None	64501333	64508187	-1	None	KIAA1312
3	ADAMTS9	ENSG00000163638	ENST00000295903	protein_coding	NOVEL	None	13202	5724	1907	64501489	64673355	-1	None	KIAA1312
3	ADAMTS9	ENSG00000163638	ENST00000498707	protein_coding	KNOWN	CCDS2903	13202	5808	1935	64501490	64673676	-1	None	KIAA1312
3	ADAMTS9	ENSG00000163638	ENST00000467257	processed_transcript	KNOWN	None	13202	None	None	64502591	64518962	-1	None	KIAA1312
3	ADAMTS9	ENSG00000163638	ENST00000481060	protein_coding	KNOWN	None	13202	2975	990	64507157	64601826	-1	None	KIAA1312
3	ADAMTS9	ENSG00000163638	ENST00000482490	retained_intron	KNOWN	None	13202	None	None	64535825	64672286	-1	None	KIAA1312
3	ADAMTS9	ENSG00000163638	ENST00000475557	retained_intron	KNOWN	None	13202	None	None	64600534	64673343	-1	None	KIAA1312
3	ADAMTS9	ENSG00000163638	ENST00000459780	protein_coding	NOVEL	None	13202	1467	488	64635618	64673666	-1	None	KIAA1312
3	ADAMTS9	ENSG00000163638	ENST00000467119	retained_intron	KNOWN	None	13202	None	None	64636578	64640355	-1	None	KIAA1312
3	ADAMTS9	ENSG00000163638	ENST00000494004	retained_intron	KNOWN	None	13202	None	None	64640066	64641720	-1	None	KIAA1312
1	GCLM	ENSG00000023909	ENST00000370238	protein_coding	KNOWN	CCDS746	4312	825	274	94350761	94374966	-1	GLCLR	None
1	GCLM	ENSG00000023909	ENST00000467772	processed_transcript	KNOWN	None	4312	None	None	94360200	94374346	-1	GLCLR	None
1	GCLM	ENSG00000023909	ENST00000462183	processed_transcript	KNOWN	None	4312	None	None	94369822	94374480	-1	GLCLR	None
22	None	ENSG00000261251	ENST00000563715	antisense	KNOWN	None	None	None	None	44208336	44213274	1	None	None
22	None	ENSG00000261251	ENST00000564696	antisense	KNOWN	None	None	None	None	44208373	44209835	1	None	None
6	None	ENSG00000233558	ENST00000435100	processed_pseudogene	KNOWN	None	None	None	None	116579656	116580278	-1	None	None
10	None	ENSG00000225976	ENST00000497342	processed_pseudogene	KNOWN	None	None	None	None	29986864	29987103	1	None	None
10	None	ENSG00000225976	ENST00000540788	processed_pseudogene	KNOWN	None	None	None	None	29986832	29987157	1	None	None
12	None	ENSG00000257890	ENST00000546699	lincRNA	KNOWN	None	None	None	None	106444739	106452032	-1	None	None
22	None	ENSG00000266837	ENST00000581142	miRNA	NOVEL	None	None	None	None	44300476	44300561	-1	None	None
22	None	ENSG00000224856	ENST00000430869	processed_pseudogene	KNOWN	None	None	None	None	44352907	44353228	1	None	None
2	LRPPRC	ENSG00000138095	ENST00000260665	protein_coding	KNOWN	CCDS33189	15714	4185	1394	44113647	44223144	-1	LSFC	GP130, LRP130
2	LRPPRC	ENSG00000138095	ENST00000419884	protein_coding	PUTATIVE	None	15714	234	77	44115417	44126423	-1	LSFC	GP130, LRP130
2	LRPPRC	ENSG00000138095	ENST00000463456	retained_intron	KNOWN	None	15714	None	None	44115418	44131070	-1	LSFC	GP130, LRP130
2	LRPPRC	ENSG00000138095	ENST00000472420	retained_intron	KNOWN	None	15714	None	None	44123376	44126710	-1	LSFC	GP130, LRP130
2	LRPPRC	ENSG00000138095	ENST00000483489	retained_intron	KNOWN	None	15714	None	None	44123583	44126787	-1	LSFC	GP130, LRP130
2	LRPPRC	ENSG00000138095	ENST00000467058	retained_intron	KNOWN	None	15714	None	None	44175565	44190943	-1	LSFC	GP130, LRP130
2	LRPPRC	ENSG00000138095	ENST00000409946	protein_coding	PUTATIVE	None	15714	1596	531	44186125	44223117	-1	LSFC	GP130, LRP130
2	LRPPRC	ENSG00000138095	ENST00000409659	protein_coding	PUTATIVE	None	15714	1515	504	44190647	44223128	-1	LSFC	GP130, LRP130
2	LRPPRC	ENSG00000138095	ENST00000447246	protein_coding	PUTATIVE	None	15714	1077	358	44201289	44223115	-1	LSFC	GP130, LRP130
1	TMEM201	ENSG00000188807	ENST00000340305	protein_coding	KNOWN	CCDS30579	33719	1179	392	9648980	9665012	1	None	RP13-15M17.2, NET5
1	TMEM201	ENSG00000188807	ENST00000340381	protein_coding	KNOWN	CCDS44055	33719	2001	666	9648980	9674907	1	None	RP13-15M17.2, NET5
1	TMEM201	ENSG00000188807	ENST00000416541	protein_coding	NOVEL	None	33719	1657	551	9656955	9674931	1	None	RP13-15M17.2, NET5
1	TMEM201	ENSG00000188807	ENST00000510900	processed_transcript	PUTATIVE	None	33719	None	None	9666272	9667743	1	None	RP13-15M17.2, NET5
1	TMEM201	ENSG00000188807	ENST00000508400	nonsense_mediated_decay	KNOWN	None	33719	499	165	9667786	9673305	1	None	RP13-15M17.2, NET5
1	TMEM201	ENSG00000188807	ENST00000377376	protein_coding	KNOWN	None	33719	1929	642	9648932	9674935	1	None	RP13-15M17.2, NET5
9	PGM5P1	ENSG00000204794	ENST00000510760	unprocessed_pseudogene	KNOWN	None	28452	None	None	68741234	68809898	-1	None	None
9	PGM5P1	ENSG00000204794	ENST00000377476	unprocessed_pseudogene	KNOWN	None	28452	None	None	68774632	68809906	-1	None	None
22	None	ENSG00000236079	ENST00000434327	processed_pseudogene	KNOWN	None	None	None	None	44809365	44810694	-1	None	None
9	BICD2	ENSG00000185963	ENST00000356884	protein_coding	KNOWN	CCDS35064	17208	2568	855	95473645	95527094	-1	None	KIAA0699
9	BICD2	ENSG00000185963	ENST00000375512	protein_coding	KNOWN	CCDS6700	17208	2475	824	95473645	95527094	-1	None	KIAA0699
7	HEPACAM2	ENSG00000188175	ENST00000440868	protein_coding	NOVEL	None	27364	1368	455	92817899	92848858	-1	None	FLJ38683
7	HEPACAM2	ENSG00000188175	ENST00000341723	protein_coding	KNOWN	CCDS5629	27364	1353	450	92817899	92848895	-1	None	FLJ38683
7	HEPACAM2	ENSG00000188175	ENST00000394468	protein_coding	KNOWN	CCDS43616	27364	1389	462	92817899	92855837	-1	None	FLJ38683
7	HEPACAM2	ENSG00000188175	ENST00000453812	protein_coding	NOVEL	None	27364	1458	485	92818192	92855782	-1	None	FLJ38683
7	HEPACAM2	ENSG00000188175	ENST00000492616	processed_transcript	KNOWN	None	27364	None	None	92818280	92834960	-1	None	FLJ38683
11	None	ENSG00000260209	ENST00000564354	lincRNA	KNOWN	None	None	None	None	125742926	125744293	-1	None	None
11	None	ENSG00000260209	ENST00000569238	lincRNA	KNOWN	None	None	None	None	125743344	125744423	-1	None	None
22	None	ENSG00000232655	ENST00000415702	lincRNA	KNOWN	None	None	None	None	44839207	44840668	1	None	None
17	PHB	ENSG00000167085	ENST00000300408	protein_coding	KNOWN	CCDS11548	8912	819	272	47481414	47492242	-1	None	PHB1
17	PHB	ENSG00000167085	ENST00000511933	retained_intron	KNOWN	None	8912	None	None	47482430	47484835	-1	None	PHB1
17	PHB	ENSG00000167085	ENST00000419140	protein_coding	KNOWN	None	8912	738	245	47482435	47492246	-1	None	PHB1
17	PHB	ENSG00000167085	ENST00000504124	protein_coding	KNOWN	None	8912	642	213	47482523	47492220	-1	None	PHB1
17	PHB	ENSG00000167085	ENST00000508009	processed_transcript	KNOWN	None	8912	None	None	47482549	47490615	-1	None	PHB1
17	PHB	ENSG00000167085	ENST00000512041	protein_coding	KNOWN	None	8912	606	201	47484121	47492164	-1	None	PHB1
17	PHB	ENSG00000167085	ENST00000446735	protein_coding	KNOWN	None	8912	604	200	47484123	47492210	-1	None	PHB1
17	PHB	ENSG00000167085	ENST00000393345	retained_intron	KNOWN	None	8912	None	None	47486118	47492220	-1	None	PHB1
17	PHB	ENSG00000167085	ENST00000506273	processed_transcript	KNOWN	None	8912	None	None	47486438	47492239	-1	None	PHB1
17	PHB	ENSG00000167085	ENST00000434917	protein_coding	KNOWN	None	8912	374	123	47486712	47492238	-1	None	PHB1
17	PHB	ENSG00000167085	ENST00000507748	retained_intron	KNOWN	None	8912	None	None	47486811	47489596	-1	None	PHB1
17	PHB	ENSG00000167085	ENST00000513412	retained_intron	KNOWN	None	8912	None	None	47490048	47492240	-1	None	PHB1
17	PHB	ENSG00000167085	ENST00000511832	protein_coding	KNOWN	None	8912	468	155	47482005	47492242	-1	None	PHB1
5	None	ENSG00000249768	ENST00000508631	processed_pseudogene	KNOWN	None	None	None	None	126073130	126073687	-1	None	None
HSCHR6_MHC_COX	HLA-DQB3	ENSG00000224793	ENST00000438853	unprocessed_pseudogene	KNOWN	None	4946	None	None	32621915	32622852	-1	HLA-DVB	D6S205, D6S205E, DVB, DQB3
16	None	ENSG00000261158	ENST00000569407	antisense	KNOWN	None	None	None	None	12853139	12855019	1	None	None
4	ACTR6P1	ENSG00000248915	ENST00000514311	processed_pseudogene	KNOWN	None	44210	None	None	107757655	107758758	-1	None	None
22	MRPS18CP6	ENSG00000228807	ENST00000423587	processed_pseudogene	KNOWN	None	29747	None	None	44879375	44879597	-1	None	None
5	None	ENSG00000251072	ENST00000509185	lincRNA	KNOWN	None	None	None	None	126087655	126112178	-1	None	None
HSCHR6_MHC_QBL	TAP2	ENSG00000206299	ENST00000383240	protein_coding	KNOWN	None	44	1962	653	32718320	32735215	-1	ABCB3	PSF2, RING11, D6S217E
HSCHR6_MHC_QBL	TAP2	ENSG00000206299	ENST00000383239	protein_coding	KNOWN	None	44	2061	686	32721901	32735268	-1	ABCB3	PSF2, RING11, D6S217E
HSCHR6_MHC_QBL	TAP2	ENSG00000206299	ENST00000485516	retained_intron	KNOWN	None	44	None	None	32725430	32727213	-1	ABCB3	PSF2, RING11, D6S217E
HSCHR6_MHC_QBL	TAP2	ENSG00000206299	ENST00000469427	processed_transcript	PUTATIVE	None	44	None	None	32728781	32729219	-1	ABCB3	PSF2, RING11, D6S217E
10	RNU6-908P	ENSG00000222092	ENST00000410160	snRNA	KNOWN	None	47871	None	None	30000844	30000937	1	None	None
22	KRT18P23	ENSG00000215333	ENST00000435622	processed_pseudogene	KNOWN	None	33392	None	None	44962845	44964127	1	None	None
16	None	ENSG00000199474	ENST00000362604	snoRNA	NOVEL	None	None	None	None	12936344	12936467	-1	None	None
X	MOSPD2	ENSG00000130150	ENST00000380492	protein_coding	KNOWN	CCDS14162	28381	1557	518	14891563	14940449	1	None	MGC26706
X	MOSPD2	ENSG00000130150	ENST00000482354	protein_coding	PUTATIVE	None	28381	1461	486	14891577	14939878	1	None	MGC26706
X	MOSPD2	ENSG00000130150	ENST00000461777	retained_intron	KNOWN	None	28381	None	None	14891613	14911475	1	None	MGC26706
X	MOSPD2	ENSG00000130150	ENST00000497603	protein_coding	PUTATIVE	None	28381	120	39	14891651	14892576	1	None	MGC26706
X	MOSPD2	ENSG00000130150	ENST00000495110	processed_transcript	KNOWN	None	28381	None	None	14903413	14938124	1	None	MGC26706
X	MOSPD2	ENSG00000130150	ENST00000460386	protein_coding	PUTATIVE	None	28381	474	157	14927044	14933710	1	None	MGC26706
12	None	ENSG00000257438	ENST00000548901	antisense	KNOWN	None	None	None	None	106496941	106499943	1	None	None
12	KCNA1	ENSG00000111262	ENST00000382545	protein_coding	KNOWN	CCDS8535	6218	1488	495	5019071	5027413	1	AEMK	Kv1.1, RBK1, HUK1, MBK1
12	KCNA1	ENSG00000111262	ENST00000541095	processed_transcript	KNOWN	None	6218	None	None	5019534	5040527	1	AEMK	Kv1.1, RBK1, HUK1, MBK1
12	KCNA1	ENSG00000111262	ENST00000543874	processed_transcript	KNOWN	None	6218	None	None	5019543	5027422	1	AEMK	Kv1.1, RBK1, HUK1, MBK1
12	SPRYD4	ENSG00000176422	ENST00000338146	protein_coding	KNOWN	CCDS8920	27468	624	207	56862301	56864763	1	None	DKFZp686N0877
10	None	ENSG00000237936	ENST00000441292	processed_pseudogene	KNOWN	None	None	None	None	30179961	30180396	-1	None	None
6	TATDN2P2	ENSG00000218226	ENST00000403590	processed_pseudogene	KNOWN	None	39255	None	None	159030738	159042668	-1	None	None
22	LINC00207	ENSG00000187012	ENST00000334566	lincRNA	KNOWN	None	37255	None	None	44965219	44968090	1	NCRNA00207	None
22	LINC00207	ENSG00000187012	ENST00000603530	lincRNA	KNOWN	None	37255	None	None	44965232	44968221	1	NCRNA00207	None
22	LINC00207	ENSG00000187012	ENST00000605505	lincRNA	KNOWN	None	37255	None	None	44965232	44968221	1	NCRNA00207	None
22	LINC00207	ENSG00000187012	ENST00000460077	lincRNA	KNOWN	None	37255	None	None	44965931	44966908	1	NCRNA00207	None
6	AMZ2P2	ENSG00000219249	ENST00000406819	processed_pseudogene	KNOWN	None	38072	None	None	159146779	159147835	-1	None	None
4	FTH1P21	ENSG00000249013	ENST00000512179	processed_pseudogene	KNOWN	None	3997	None	None	156927630	156928140	1	FTHP2, FTHL21	None
16	None	ENSG00000241932	ENST00000468671	processed_pseudogene	KNOWN	None	None	None	None	12975027	12975350	1	None	None
11	PIH1D2	ENSG00000150773	ENST00000528775	protein_coding	KNOWN	CCDS44730	25210	867	288	111934734	111943898	-1	None	None
11	PIH1D2	ENSG00000150773	ENST00000532211	protein_coding	KNOWN	CCDS8355	25210	948	315	111938522	111944704	-1	None	None
11	PIH1D2	ENSG00000150773	ENST00000525072	protein_coding	NOVEL	None	25210	755	250	111938654	111943815	-1	None	None
11	PIH1D2	ENSG00000150773	ENST00000530641	protein_coding	PUTATIVE	None	25210	822	273	111940461	111944998	-1	None	None
11	PIH1D2	ENSG00000150773	ENST00000525744	non_stop_decay	KNOWN	None	25210	487	161	111941717	111943793	-1	None	None
11	PIH1D2	ENSG00000150773	ENST00000521853	processed_transcript	PUTATIVE	None	25210	None	None	111941856	111943818	-1	None	None
11	PIH1D2	ENSG00000150773	ENST00000431456	protein_coding	KNOWN	CCDS44730	25210	867	288	111934737	111944895	-1	None	None
11	PIH1D2	ENSG00000150773	ENST00000280350	protein_coding	KNOWN	CCDS8355	25210	948	315	111938525	111944895	-1	None	None
19	TRAPPC2P1	ENSG00000256060	ENST00000543226	protein_coding	PUTATIVE	None	10710	423	140	57874879	57876721	1	SEDLP	SEDLP1
19	TRAPPC2P1	ENSG00000256060	ENST00000596755	protein_coding	PUTATIVE	None	10710	423	140	57874935	57876677	1	SEDLP	SEDLP1
5	C6	ENSG00000039537	ENST00000337836	protein_coding	KNOWN	CCDS3936	1339	2805	934	41142336	41213612	-1	None	None
5	C6	ENSG00000039537	ENST00000263413	protein_coding	KNOWN	CCDS3936	1339	2805	934	41142336	41261540	-1	None	None
5	C6	ENSG00000039537	ENST00000461473	processed_transcript	PUTATIVE	None	1339	None	None	41152849	41155206	-1	None	None
5	C6	ENSG00000039537	ENST00000511470	retained_intron	KNOWN	None	1339	None	None	41155161	41160471	-1	None	None
5	C6	ENSG00000039537	ENST00000475349	processed_transcript	KNOWN	None	1339	None	None	41160312	41186493	-1	None	None
5	C6	ENSG00000039537	ENST00000473450	processed_transcript	KNOWN	None	1339	None	None	41160406	41172781	-1	None	None
5	C6	ENSG00000039537	ENST00000417809	protein_coding	PUTATIVE	None	1339	400	132	41199915	41213123	-1	None	None
5	C6	ENSG00000039537	ENST00000433294	protein_coding	KNOWN	None	1339	93	30	41203240	41213697	-1	None	None
5	RNU6-752P	ENSG00000252185	ENST00000516376	snRNA	KNOWN	None	47715	None	None	126091008	126091109	-1	None	None
11	None	ENSG00000255027	ENST00000533033	antisense	KNOWN	None	None	None	None	125773142	125808811	-1	None	None
11	None	ENSG00000255027	ENST00000526211	antisense	KNOWN	None	None	None	None	125795064	125801298	-1	None	None
5	MRPS5P3	ENSG00000214743	ENST00000515577	processed_pseudogene	KNOWN	None	29778	None	None	126478774	126478939	-1	None	None
HSCHR6_MHC_SSTO	GNL1	ENSG00000226882	ENST00000417834	protein_coding	KNOWN	None	4413	1824	607	30500573	30516369	-1	None	HSR1
HSCHR6_MHC_SSTO	GNL1	ENSG00000226882	ENST00000489631	retained_intron	KNOWN	None	4413	None	None	30505681	30511743	-1	None	HSR1
HSCHR6_MHC_SSTO	GNL1	ENSG00000226882	ENST00000467550	retained_intron	KNOWN	None	4413	None	None	30506392	30507013	-1	None	HSR1
HSCHR6_MHC_SSTO	GNL1	ENSG00000226882	ENST00000486264	retained_intron	KNOWN	None	4413	None	None	30511374	30512317	-1	None	HSR1
HSCHR6_MHC_SSTO	GNL1	ENSG00000226882	ENST00000430236	protein_coding	KNOWN	None	4413	792	263	30512555	30515283	-1	None	HSR1
HSCHR6_MHC_SSTO	GNL1	ENSG00000226882	ENST00000551903	protein_coding	KNOWN	None	4413	1290	429	30500581	30513839	-1	None	HSR1
22	LINC00229	ENSG00000234300	ENST00000443783	lincRNA	KNOWN	None	13240	None	None	45002819	45021299	-1	C22orf10, NCRNA00229	dJ474I12.C22.2
16	None	ENSG00000263984	ENST00000580895	miRNA	NOVEL	None	None	None	None	13137329	13137433	1	None	None
HSCHR6_MHC_COX	MIR3135B	ENSG00000264412	ENST00000578425	miRNA	KNOWN	None	41783	None	None	32641388	32641455	-1	None	hsa-mir-3135b
4	None	ENSG00000252566	ENST00000516757	snoRNA	NOVEL	None	None	None	None	108038489	108038561	-1	None	None
5	None	ENSG00000250080	ENST00000514947	processed_pseudogene	KNOWN	None	None	None	None	126506227	126507958	-1	None	None
4	RAC1P5	ENSG00000213522	ENST00000512182	processed_pseudogene	KNOWN	None	30593	None	None	108124506	108125081	-1	None	Psi1Rac1
16	None	ENSG00000262116	ENST00000571939	antisense	KNOWN	None	None	None	None	13291463	13298764	-1	None	None
6	MIR3918	ENSG00000265558	ENST00000581555	miRNA	KNOWN	None	38919	None	None	159185693	159185785	-1	None	hsa-mir-3918
22	ANP32BP2	ENSG00000231801	ENST00000454525	processed_pseudogene	KNOWN	None	38552	None	None	45047715	45048259	1	None	None
17	USP32	ENSG00000170832	ENST00000300896	protein_coding	KNOWN	CCDS32697	19143	4815	1604	58256455	58469495	-1	None	NY-REN-60, USP10
17	USP32	ENSG00000170832	ENST00000592339	protein_coding	PUTATIVE	None	19143	3825	1274	58256466	58334061	-1	None	NY-REN-60, USP10
17	USP32	ENSG00000170832	ENST00000593071	protein_coding	NOVEL	None	19143	524	173	58256472	58259034	-1	None	NY-REN-60, USP10
17	USP32	ENSG00000170832	ENST00000586238	retained_intron	KNOWN	None	19143	None	None	58260547	58263294	-1	None	NY-REN-60, USP10
17	USP32	ENSG00000170832	ENST00000585720	retained_intron	KNOWN	None	19143	None	None	58285090	58286174	-1	None	NY-REN-60, USP10
17	USP32	ENSG00000170832	ENST00000590133	protein_coding	PUTATIVE	None	19143	2542	846	58286778	58469769	-1	None	NY-REN-60, USP10
17	USP32	ENSG00000170832	ENST00000591768	protein_coding	NOVEL	None	19143	739	245	58290942	58303424	-1	None	NY-REN-60, USP10
17	USP32	ENSG00000170832	ENST00000587651	retained_intron	KNOWN	None	19143	None	None	58296932	58303510	-1	None	NY-REN-60, USP10
17	USP32	ENSG00000170832	ENST00000589552	nonsense_mediated_decay	KNOWN	None	19143	264	87	58296997	58303592	-1	None	NY-REN-60, USP10
17	USP32	ENSG00000170832	ENST00000589335	protein_coding	NOVEL	None	19143	400	132	58303544	58469591	-1	None	NY-REN-60, USP10
17	USP32	ENSG00000170832	ENST00000393003	protein_coding	PUTATIVE	None	19143	1173	390	58326419	58469336	-1	None	NY-REN-60, USP10
17	USP32	ENSG00000170832	ENST00000588898	protein_coding	PUTATIVE	None	19143	459	152	58372044	58499831	-1	None	NY-REN-60, USP10
17	USP32	ENSG00000170832	ENST00000589761	retained_intron	KNOWN	None	19143	None	None	58378811	58469289	-1	None	NY-REN-60, USP10
17	USP32	ENSG00000170832	ENST00000586881	processed_transcript	KNOWN	None	19143	None	None	58378960	58382589	-1	None	NY-REN-60, USP10
17	USP32	ENSG00000170832	ENST00000590297	protein_coding	PUTATIVE	None	19143	262	86	58498569	58499698	-1	None	NY-REN-60, USP10
6	EZR-AS1	ENSG00000233893	ENST00000451712	antisense	KNOWN	None	40609	None	None	159239043	159241625	1	None	None
6	OSTCP1	ENSG00000243775	ENST00000522287	processed_transcript	KNOWN	None	30530	None	None	159262149	159278664	-1	OSTCL	DC2L
6	OSTCP1	ENSG00000243775	ENST00000455507	transcribed_processed_pseudogene	KNOWN	None	30530	None	None	159262753	159263202	-1	OSTCL	DC2L
5	IL3	ENSG00000164399	ENST00000296870	protein_coding	KNOWN	CCDS4149	6011	459	152	131396222	131398897	1	None	IL-3, MULTI-CSF, MCGF, MGC79398, MGC79399
19	ERCC1	ENSG00000012061	ENST00000300853	protein_coding	KNOWN	CCDS12662	3433	894	297	45910591	45927623	-1	None	RAD10
19	ERCC1	ENSG00000012061	ENST00000423698	protein_coding	NOVEL	None	3433	678	225	45910592	45982086	-1	None	RAD10
19	ERCC1	ENSG00000012061	ENST00000588738	processed_transcript	KNOWN	None	3433	None	None	45912804	45917874	-1	None	RAD10
19	ERCC1	ENSG00000012061	ENST00000340192	protein_coding	KNOWN	CCDS54279	3433	822	273	45912872	45927097	-1	None	RAD10
19	ERCC1	ENSG00000012061	ENST00000590701	protein_coding	NOVEL	None	3433	275	90	45912874	45922444	-1	None	RAD10
19	ERCC1	ENSG00000012061	ENST00000591636	protein_coding	NOVEL	None	3433	642	213	45912877	45926759	-1	None	RAD10
19	ERCC1	ENSG00000012061	ENST00000589165	protein_coding	KNOWN	CCDS12662	3433	894	297	45912926	45927625	-1	None	RAD10
19	ERCC1	ENSG00000012061	ENST00000013807	protein_coding	KNOWN	CCDS12663	3433	972	323	45916692	45926824	-1	None	RAD10
19	ERCC1	ENSG00000012061	ENST00000592410	processed_transcript	KNOWN	None	3433	None	None	45916694	45917735	-1	None	RAD10
19	ERCC1	ENSG00000012061	ENST00000592444	protein_coding	NOVEL	None	3433	337	111	45916694	45920117	-1	None	RAD10
19	ERCC1	ENSG00000012061	ENST00000587888	nonsense_mediated_decay	KNOWN	None	3433	138	45	45916935	45923640	-1	None	RAD10
19	ERCC1	ENSG00000012061	ENST00000589381	protein_coding	NOVEL	None	3433	627	208	45916935	45926743	-1	None	RAD10
19	ERCC1	ENSG00000012061	ENST00000592083	protein_coding	KNOWN	None	3433	774	257	45917221	45953983	-1	None	RAD10
19	ERCC1	ENSG00000012061	ENST00000592905	retained_intron	KNOWN	None	3433	None	None	45917996	45927130	-1	None	RAD10
19	ERCC1	ENSG00000012061	ENST00000592023	protein_coding	KNOWN	None	3433	702	233	45918119	45926863	-1	None	RAD10
19	ERCC1	ENSG00000012061	ENST00000588300	retained_intron	KNOWN	None	3433	None	None	45919749	45927196	-1	None	RAD10
19	ERCC1	ENSG00000012061	ENST00000589214	protein_coding	KNOWN	None	3433	425	140	45923582	45932468	-1	None	RAD10
4	None	ENSG00000251081	ENST00000508555	lincRNA	KNOWN	None	None	None	None	108179857	108223027	1	None	None
22	None	ENSG00000223730	ENST00000431036	processed_transcript	KNOWN	None	None	None	None	45297427	45298351	1	None	None
22	None	ENSG00000223730	ENST00000456225	transcribed_processed_pseudogene	KNOWN	None	None	None	None	45297472	45298310	1	None	None
4	RNU6-551P	ENSG00000252470	ENST00000516661	snRNA	KNOWN	None	47514	None	None	108356275	108356377	1	None	None
22	None	ENSG00000230922	ENST00000424580	sense_intronic	KNOWN	None	None	None	None	45396446	45399500	-1	None	None
5	TNIP1	ENSG00000145901	ENST00000520931	protein_coding	PUTATIVE	CCDS58982	16903	1752	583	150409506	150460577	-1	None	NAF1, KIAA0113, ABIN-1, VAN
5	TNIP1	ENSG00000145901	ENST00000517504	protein_coding	PUTATIVE	None	16903	441	146	150409510	150418759	-1	None	NAF1, KIAA0113, ABIN-1, VAN
5	TNIP1	ENSG00000145901	ENST00000315050	protein_coding	KNOWN	CCDS34280	16903	1911	636	150409510	150466719	-1	None	NAF1, KIAA0113, ABIN-1, VAN
5	TNIP1	ENSG00000145901	ENST00000523338	protein_coding	KNOWN	CCDS58985	16903	1908	635	150409510	150466719	-1	None	NAF1, KIAA0113, ABIN-1, VAN
5	TNIP1	ENSG00000145901	ENST00000522574	retained_intron	KNOWN	None	16903	None	None	150410045	150416999	-1	None	NAF1, KIAA0113, ABIN-1, VAN
5	TNIP1	ENSG00000145901	ENST00000522226	protein_coding	KNOWN	CCDS34280	16903	1911	636	150410053	150467221	-1	None	NAF1, KIAA0113, ABIN-1, VAN
5	TNIP1	ENSG00000145901	ENST00000519339	nonsense_mediated_decay	KNOWN	None	16903	1479	492	150410142	150443308	-1	None	NAF1, KIAA0113, ABIN-1, VAN
5	TNIP1	ENSG00000145901	ENST00000521591	protein_coding	KNOWN	CCDS34280	16903	1911	636	150410142	150460635	-1	None	NAF1, KIAA0113, ABIN-1, VAN
5	TNIP1	ENSG00000145901	ENST00000518977	protein_coding	KNOWN	CCDS58985	16903	1908	635	150410142	150460635	-1	None	NAF1, KIAA0113, ABIN-1, VAN
5	TNIP1	ENSG00000145901	ENST00000524280	protein_coding	PUTATIVE	CCDS58983	16903	1671	556	150410180	150444656	-1	None	NAF1, KIAA0113, ABIN-1, VAN
5	TNIP1	ENSG00000145901	ENST00000523200	protein_coding	NOVEL	CCDS58984	16903	1719	572	150410250	150444656	-1	None	NAF1, KIAA0113, ABIN-1, VAN
5	TNIP1	ENSG00000145901	ENST00000521423	processed_transcript	KNOWN	None	16903	None	None	150411611	150429464	-1	None	NAF1, KIAA0113, ABIN-1, VAN
5	TNIP1	ENSG00000145901	ENST00000517329	retained_intron	KNOWN	None	16903	None	None	150414057	150415215	-1	None	NAF1, KIAA0113, ABIN-1, VAN
5	TNIP1	ENSG00000145901	ENST00000521782	retained_intron	KNOWN	None	16903	None	None	150422459	150425922	-1	None	NAF1, KIAA0113, ABIN-1, VAN
5	TNIP1	ENSG00000145901	ENST00000522100	protein_coding	PUTATIVE	None	16903	772	256	150425427	150466727	-1	None	NAF1, KIAA0113, ABIN-1, VAN
5	TNIP1	ENSG00000145901	ENST00000520695	protein_coding	KNOWN	None	16903	431	142	150439883	150460595	-1	None	NAF1, KIAA0113, ABIN-1, VAN
5	TNIP1	ENSG00000145901	ENST00000521001	protein_coding	KNOWN	None	16903	399	132	150439915	150473138	-1	None	NAF1, KIAA0113, ABIN-1, VAN
5	TNIP1	ENSG00000145901	ENST00000522926	processed_transcript	KNOWN	None	16903	None	None	150457964	150460576	-1	None	NAF1, KIAA0113, ABIN-1, VAN
5	TNIP1	ENSG00000145901	ENST00000389378	protein_coding	KNOWN	CCDS34280	16903	1911	636	150409506	150460997	-1	None	NAF1, KIAA0113, ABIN-1, VAN
19	None	ENSG00000268133	ENST00000597658	protein_coding	PUTATIVE	None	None	306	101	57874934	57909952	1	None	None
2	AGXT	ENSG00000172482	ENST00000307503	protein_coding	KNOWN	CCDS2543	341	1179	392	241807896	241818537	1	SPAT	AGXT1, PH1, AGT, SPT, AGT1
2	AGXT	ENSG00000172482	ENST00000472436	retained_intron	KNOWN	None	341	None	None	241808263	241812885	1	SPAT	AGXT1, PH1, AGT, SPT, AGT1
2	AGXT	ENSG00000172482	ENST00000476698	retained_intron	KNOWN	None	341	None	None	241810606	241815430	1	SPAT	AGXT1, PH1, AGT, SPT, AGT1
2	AGXT	ENSG00000172482	ENST00000470255	retained_intron	KNOWN	None	341	None	None	241816330	241819919	1	SPAT	AGXT1, PH1, AGT, SPT, AGT1
22	None	ENSG00000226328	ENST00000426282	processed_transcript	KNOWN	None	None	None	None	45529710	45559662	-1	None	None
22	None	ENSG00000226328	ENST00000432502	processed_transcript	KNOWN	None	None	None	None	45530171	45559540	-1	None	None
X	None	ENSG00000229324	ENST00000453086	processed_pseudogene	KNOWN	None	None	None	None	70236381	70236755	-1	None	None
HSCHR6_MHC_COX	None	ENSG00000235540	ENST00000421458	processed_transcript	KNOWN	None	None	None	None	32734187	32736596	1	None	None
HSCHR6_MHC_COX	None	ENSG00000235540	ENST00000441916	processed_transcript	KNOWN	None	None	None	None	32734209	32735920	1	None	None
HSCHR6_MHC_COX	None	ENSG00000235540	ENST00000434564	processed_transcript	KNOWN	None	None	None	None	32734234	32736087	1	None	None
HSCHR6_MHC_COX	None	ENSG00000235540	ENST00000428475	processed_transcript	KNOWN	None	None	None	None	32734234	32736311	1	None	None
HSCHR6_MHC_COX	None	ENSG00000235540	ENST00000413429	processed_transcript	KNOWN	None	None	None	None	32734235	32735796	1	None	None
HSCHR6_MHC_COX	None	ENSG00000235540	ENST00000444909	processed_transcript	KNOWN	None	None	None	None	32734239	32736179	1	None	None
1	DCAF6	ENSG00000143164	ENST00000450548	processed_transcript	KNOWN	None	30002	None	None	167905021	167956785	1	IQWD1	PC326
1	DCAF6	ENSG00000143164	ENST00000470919	processed_transcript	KNOWN	None	30002	None	None	167905512	167960577	1	IQWD1	PC326
1	DCAF6	ENSG00000143164	ENST00000367843	protein_coding	KNOWN	CCDS1267	30002	2643	880	167905899	168045081	1	IQWD1	PC326
1	DCAF6	ENSG00000143164	ENST00000470721	nonsense_mediated_decay	KNOWN	None	30002	1419	472	167905911	167993288	1	IQWD1	PC326
1	DCAF6	ENSG00000143164	ENST00000312263	protein_coding	KNOWN	CCDS30933	30002	2583	860	167905946	168045072	1	IQWD1	PC326
1	DCAF6	ENSG00000143164	ENST00000367840	protein_coding	KNOWN	CCDS55657	30002	2856	951	167906056	168045072	1	IQWD1	PC326
1	DCAF6	ENSG00000143164	ENST00000455334	processed_transcript	KNOWN	None	30002	None	None	167906391	167962568	1	IQWD1	PC326
1	DCAF6	ENSG00000143164	ENST00000491067	processed_transcript	KNOWN	None	30002	None	None	167937728	167960577	1	IQWD1	PC326
1	DCAF6	ENSG00000143164	ENST00000460432	processed_transcript	KNOWN	None	30002	None	None	167985125	167989199	1	IQWD1	PC326
1	DCAF6	ENSG00000143164	ENST00000489398	retained_intron	KNOWN	None	30002	None	None	168011968	168045024	1	IQWD1	PC326
1	DCAF6	ENSG00000143164	ENST00000478668	retained_intron	KNOWN	None	30002	None	None	168014319	168033205	1	IQWD1	PC326
1	DCAF6	ENSG00000143164	ENST00000432587	protein_coding	KNOWN	CCDS55658	30002	2763	920	167905937	168044869	1	IQWD1	PC326
X	ATP1B4	ENSG00000101892	ENST00000218008	protein_coding	KNOWN	CCDS48158	808	1074	357	119495967	119516226	1	None	None
X	ATP1B4	ENSG00000101892	ENST00000361319	protein_coding	KNOWN	CCDS14598	808	1062	353	119495967	119516226	1	None	None
X	ATP1B4	ENSG00000101892	ENST00000539306	protein_coding	KNOWN	None	808	945	314	119495997	119513514	1	None	None
10	MSMB	ENSG00000138294	ENST00000358559	protein_coding	KNOWN	CCDS7235	7372	345	114	51549498	51562517	1	None	PSP-94, PSP57, PSP94, IGBF, MSP, MSPB, PN44, PRPS, PSP
10	MSMB	ENSG00000138294	ENST00000487536	processed_transcript	KNOWN	None	7372	None	None	51549553	51556409	1	None	PSP-94, PSP57, PSP94, IGBF, MSP, MSPB, PN44, PRPS, PSP
10	MSMB	ENSG00000138294	ENST00000474170	processed_transcript	KNOWN	None	7372	None	None	51549553	51557360	1	None	PSP-94, PSP57, PSP94, IGBF, MSP, MSPB, PN44, PRPS, PSP
10	MSMB	ENSG00000138294	ENST00000478719	processed_transcript	KNOWN	None	7372	None	None	51549553	51562451	1	None	PSP-94, PSP57, PSP94, IGBF, MSP, MSPB, PN44, PRPS, PSP
10	MSMB	ENSG00000138294	ENST00000466268	processed_transcript	KNOWN	None	7372	None	None	51549553	51562493	1	None	PSP-94, PSP57, PSP94, IGBF, MSP, MSPB, PN44, PRPS, PSP
10	MSMB	ENSG00000138294	ENST00000298239	protein_coding	KNOWN	CCDS7236	7372	234	77	51549553	51562511	1	None	PSP-94, PSP57, PSP94, IGBF, MSP, MSPB, PN44, PRPS, PSP
17	MAPT	ENSG00000186868	ENST00000571311	nonsense_mediated_decay	KNOWN	None	6893	180	59	43971932	44055791	1	DDPAC, MAPTL	MTBT1, tau, PPND, FTDP-17, TAU, MSTD, MTBT2, FLJ31424, MGC138549
17	MAPT	ENSG00000186868	ENST00000570299	processed_transcript	KNOWN	None	6893	None	None	43971942	44096096	1	DDPAC, MAPTL	MTBT1, tau, PPND, FTDP-17, TAU, MSTD, MTBT2, FLJ31424, MGC138549
17	MAPT	ENSG00000186868	ENST00000334239	protein_coding	KNOWN	CCDS11502	6893	1059	352	43972034	44101549	1	DDPAC, MAPTL	MTBT1, tau, PPND, FTDP-17, TAU, MSTD, MTBT2, FLJ31424, MGC138549
17	MAPT	ENSG00000186868	ENST00000446361	protein_coding	KNOWN	CCDS11500	6893	1152	383	43972040	44105700	1	DDPAC, MAPTL	MTBT1, tau, PPND, FTDP-17, TAU, MSTD, MTBT2, FLJ31424, MGC138549
17	MAPT	ENSG00000186868	ENST00000420682	protein_coding	KNOWN	CCDS45716	6893	1239	412	44039704	44101537	1	DDPAC, MAPTL	MTBT1, tau, PPND, FTDP-17, TAU, MSTD, MTBT2, FLJ31424, MGC138549
17	MAPT	ENSG00000186868	ENST00000415613	protein_coding	KNOWN	CCDS45715	6893	2331	776	44039704	44101537	1	DDPAC, MAPTL	MTBT1, tau, PPND, FTDP-17, TAU, MSTD, MTBT2, FLJ31424, MGC138549
17	MAPT	ENSG00000186868	ENST00000571987	protein_coding	NOVEL	CCDS11501	6893	2277	758	44039704	44101537	1	DDPAC, MAPTL	MTBT1, tau, PPND, FTDP-17, TAU, MSTD, MTBT2, FLJ31424, MGC138549
17	MAPT	ENSG00000186868	ENST00000574436	protein_coding	NOVEL	CCDS11499	6893	1326	441	44039704	44101537	1	DDPAC, MAPTL	MTBT1, tau, PPND, FTDP-17, TAU, MSTD, MTBT2, FLJ31424, MGC138549
17	MAPT	ENSG00000186868	ENST00000431008	protein_coding	NOVEL	CCDS56033	6893	1233	410	44039704	44101537	1	DDPAC, MAPTL	MTBT1, tau, PPND, FTDP-17, TAU, MSTD, MTBT2, FLJ31424, MGC138549
17	MAPT	ENSG00000186868	ENST00000576518	protein_coding	PUTATIVE	None	6893	1026	341	44050149	44101797	1	DDPAC, MAPTL	MTBT1, tau, PPND, FTDP-17, TAU, MSTD, MTBT2, FLJ31424, MGC138549
17	MAPT	ENSG00000186868	ENST00000572440	retained_intron	KNOWN	None	6893	None	None	44052858	44057872	1	DDPAC, MAPTL	MTBT1, tau, PPND, FTDP-17, TAU, MSTD, MTBT2, FLJ31424, MGC138549
17	MAPT	ENSG00000186868	ENST00000576238	retained_intron	KNOWN	None	6893	None	None	44060232	44061296	1	DDPAC, MAPTL	MTBT1, tau, PPND, FTDP-17, TAU, MSTD, MTBT2, FLJ31424, MGC138549
17	MAPT	ENSG00000186868	ENST00000577017	processed_transcript	KNOWN	None	6893	None	None	44063025	44064461	1	DDPAC, MAPTL	MTBT1, tau, PPND, FTDP-17, TAU, MSTD, MTBT2, FLJ31424, MGC138549
17	MAPT	ENSG00000186868	ENST00000344290	protein_coding	KNOWN	CCDS45715	6893	2331	776	43971748	44105700	1	DDPAC, MAPTL	MTBT1, tau, PPND, FTDP-17, TAU, MSTD, MTBT2, FLJ31424, MGC138549
17	MAPT	ENSG00000186868	ENST00000262410	protein_coding	KNOWN	CCDS11501	6893	2277	758	43971748	44105700	1	DDPAC, MAPTL	MTBT1, tau, PPND, FTDP-17, TAU, MSTD, MTBT2, FLJ31424, MGC138549
17	MAPT	ENSG00000186868	ENST00000351559	protein_coding	KNOWN	CCDS11499	6893	1326	441	43971748	44105700	1	DDPAC, MAPTL	MTBT1, tau, PPND, FTDP-17, TAU, MSTD, MTBT2, FLJ31424, MGC138549
17	MAPT	ENSG00000186868	ENST00000340799	protein_coding	KNOWN	CCDS45716	6893	1239	412	43971748	44105700	1	DDPAC, MAPTL	MTBT1, tau, PPND, FTDP-17, TAU, MSTD, MTBT2, FLJ31424, MGC138549
17	MAPT	ENSG00000186868	ENST00000535772	protein_coding	KNOWN	CCDS56033	6893	1233	410	43971748	44105700	1	DDPAC, MAPTL	MTBT1, tau, PPND, FTDP-17, TAU, MSTD, MTBT2, FLJ31424, MGC138549
17	MAPT	ENSG00000186868	ENST00000347967	protein_coding	KNOWN	None	6893	951	316	43971748	44105700	1	DDPAC, MAPTL	MTBT1, tau, PPND, FTDP-17, TAU, MSTD, MTBT2, FLJ31424, MGC138549
9	C9orf85	ENSG00000155621	ENST00000479413	nonsense_mediated_decay	KNOWN	None	28784	108	35	74526426	74588068	1	None	MGC61599
9	C9orf85	ENSG00000155621	ENST00000334731	protein_coding	KNOWN	CCDS6639	28784	474	157	74526461	74588373	1	None	MGC61599
9	C9orf85	ENSG00000155621	ENST00000377031	protein_coding	KNOWN	None	28784	540	179	74526461	74598166	1	None	MGC61599
9	C9orf85	ENSG00000155621	ENST00000473252	nonsense_mediated_decay	KNOWN	None	28784	135	44	74526557	74586534	1	None	MGC61599
9	C9orf85	ENSG00000155621	ENST00000486911	protein_coding	PUTATIVE	None	28784	210	69	74526577	74600970	1	None	MGC61599
9	C9orf85	ENSG00000155621	ENST00000377027	nonsense_mediated_decay	KNOWN	None	28784	68	21	74526718	74587759	1	None	MGC61599
19	None	ENSG00000269091	ENST00000599914	antisense	KNOWN	None	None	None	None	50546453	50554319	-1	None	None
19	None	ENSG00000269091	ENST00000599410	antisense	KNOWN	None	None	None	None	50546575	50554292	-1	None	None
15	None	ENSG00000259381	ENST00000561269	processed_pseudogene	KNOWN	None	None	None	None	101185639	101186860	-1	None	None
7	CROT	ENSG00000005469	ENST00000419147	protein_coding	NOVEL	CCDS47634	2366	1923	640	86974997	87028797	1	None	COT
7	CROT	ENSG00000005469	ENST00000412227	protein_coding	PUTATIVE	CCDS59062	2366	264	87	86975009	86989432	1	None	COT
7	CROT	ENSG00000005469	ENST00000331536	protein_coding	KNOWN	CCDS5604	2366	1839	612	86975011	87029111	1	None	COT
7	CROT	ENSG00000005469	ENST00000442291	protein_coding	NOVEL	None	2366	1725	574	86975651	87027790	1	None	COT
7	CROT	ENSG00000005469	ENST00000488850	retained_intron	KNOWN	None	2366	None	None	86990759	86999012	1	None	COT
7	CROT	ENSG00000005469	ENST00000469785	retained_intron	KNOWN	None	2366	None	None	87004551	87005205	1	None	COT
7	CROT	ENSG00000005469	ENST00000479014	retained_intron	KNOWN	None	2366	None	None	87005189	87011645	1	None	COT
6	None	ENSG00000268059	ENST00000600057	protein_coding	NOVEL	None	None	324	107	13615728	13621126	-1	None	None
5	CCNJL	ENSG00000135083	ENST00000393977	protein_coding	KNOWN	CCDS4350	25876	1308	435	159678659	159739607	-1	None	FLJ14166
5	CCNJL	ENSG00000135083	ENST00000377503	processed_transcript	KNOWN	None	25876	None	None	159678660	159766657	-1	None	FLJ14166
5	CCNJL	ENSG00000135083	ENST00000257536	protein_coding	NOVEL	None	25876	1164	387	159679987	159739607	-1	None	FLJ14166
5	CCNJL	ENSG00000135083	ENST00000519673	protein_coding	PUTATIVE	None	25876	759	252	159681308	159739483	-1	None	FLJ14166
5	CCNJL	ENSG00000135083	ENST00000520748	protein_coding	PUTATIVE	None	25876	567	188	159686597	159739563	-1	None	FLJ14166
5	CCNJL	ENSG00000135083	ENST00000518764	processed_transcript	PUTATIVE	None	25876	None	None	159707638	159769723	-1	None	FLJ14166
5	CCNJL	ENSG00000135083	ENST00000521643	processed_transcript	PUTATIVE	None	25876	None	None	159769223	159772403	-1	None	FLJ14166
5	CCNJL	ENSG00000135083	ENST00000541762	protein_coding	KNOWN	None	25876	756	251	159681308	159739483	-1	None	FLJ14166
5	CCNJL	ENSG00000135083	ENST00000505287	protein_coding	KNOWN	None	25876	501	166	159696466	159766528	-1	None	FLJ14166
14	RNASE2	ENSG00000169385	ENST00000304625	protein_coding	KNOWN	CCDS9561	10045	486	161	21423611	21424595	1	RNS2	EDN
19	ZNF548	ENSG00000188785	ENST00000366197	protein_coding	KNOWN	CCDS46209	26561	1602	533	57901218	57912786	1	None	FLJ32932
19	ZNF548	ENSG00000188785	ENST00000596282	protein_coding	PUTATIVE	None	26561	172	56	57901243	57909818	1	None	FLJ32932
19	ZNF548	ENSG00000188785	ENST00000597400	protein_coding	PUTATIVE	None	26561	192	63	57901243	57909966	1	None	FLJ32932
19	ZNF548	ENSG00000188785	ENST00000598895	protein_coding	PUTATIVE	None	26561	264	87	57901252	57908719	1	None	FLJ32932
19	ZNF548	ENSG00000188785	ENST00000336128	protein_coding	KNOWN	CCDS54324	26561	1638	545	57901265	57911531	1	None	FLJ32932
19	ZNF548	ENSG00000188785	ENST00000602086	nonsense_mediated_decay	KNOWN	None	26561	144	47	57901333	57909903	1	None	FLJ32932
19	ZNF548	ENSG00000188785	ENST00000600442	nonsense_mediated_decay	KNOWN	None	26561	171	56	57901373	57908532	1	None	FLJ32932
19	ZNF548	ENSG00000188785	ENST00000597047	nonsense_mediated_decay	KNOWN	None	26561	192	63	57901373	57910082	1	None	FLJ32932
19	ZNF548	ENSG00000188785	ENST00000594693	protein_coding	PUTATIVE	None	26561	134	43	57901651	57908525	1	None	FLJ32932
19	ZNF548	ENSG00000188785	ENST00000594668	protein_coding	PUTATIVE	None	26561	227	74	57901821	57909804	1	None	FLJ32932
19	ZNF548	ENSG00000188785	ENST00000600927	protein_coding	PUTATIVE	None	26561	343	113	57902114	57909989	1	None	FLJ32932
19	ZNF548	ENSG00000188785	ENST00000597576	retained_intron	KNOWN	None	26561	None	None	57908273	57910186	1	None	FLJ32932
20	GMEB2	ENSG00000101216	ENST00000370069	protein_coding	KNOWN	None	4371	1440	479	62218955	62236255	-1	None	P79PIF, KIAA1269, PIF79
20	GMEB2	ENSG00000101216	ENST00000266068	protein_coding	KNOWN	CCDS13528	4371	1593	530	62218955	62251229	-1	None	P79PIF, KIAA1269, PIF79
20	GMEB2	ENSG00000101216	ENST00000370077	protein_coding	KNOWN	CCDS13528	4371	1593	530	62218955	62258394	-1	None	P79PIF, KIAA1269, PIF79
17	USP43	ENSG00000154914	ENST00000570827	protein_coding	KNOWN	None	20072	2439	812	9548015	9632418	1	None	FLJ30626
17	USP43	ENSG00000154914	ENST00000285199	protein_coding	KNOWN	CCDS45610	20072	3372	1123	9548854	9632350	1	None	FLJ30626
17	USP43	ENSG00000154914	ENST00000570475	protein_coding	NOVEL	CCDS58516	20072	3357	1118	9548854	9632354	1	None	FLJ30626
17	USP43	ENSG00000154914	ENST00000574408	nonsense_mediated_decay	KNOWN	None	20072	147	48	9559753	9633001	1	None	FLJ30626
17	USP43	ENSG00000154914	ENST00000575346	processed_transcript	KNOWN	None	20072	None	None	9573023	9590180	1	None	FLJ30626
17	USP43	ENSG00000154914	ENST00000573955	retained_intron	KNOWN	None	20072	None	None	9604432	9633001	1	None	FLJ30626
1	GALE	ENSG00000117308	ENST00000481736	processed_transcript	KNOWN	None	4116	None	None	24122089	24127271	-1	None	SDR1E1
1	GALE	ENSG00000117308	ENST00000374497	protein_coding	KNOWN	CCDS242	4116	1047	348	24122090	24126892	-1	None	SDR1E1
1	GALE	ENSG00000117308	ENST00000456977	protein_coding	KNOWN	None	4116	327	108	24122094	24123432	-1	None	SDR1E1
1	GALE	ENSG00000117308	ENST00000459934	processed_transcript	KNOWN	None	4116	None	None	24122151	24127243	-1	None	SDR1E1
1	GALE	ENSG00000117308	ENST00000469556	processed_transcript	KNOWN	None	4116	None	None	24122494	24123559	-1	None	SDR1E1
1	GALE	ENSG00000117308	ENST00000429356	protein_coding	KNOWN	None	4116	718	238	24122641	24126023	-1	None	SDR1E1
1	GALE	ENSG00000117308	ENST00000418277	protein_coding	KNOWN	None	4116	681	226	24122999	24127260	-1	None	SDR1E1
1	GALE	ENSG00000117308	ENST00000470949	processed_transcript	KNOWN	None	4116	None	None	24123564	24125926	-1	None	SDR1E1
1	GALE	ENSG00000117308	ENST00000425913	protein_coding	KNOWN	None	4116	584	193	24123582	24127013	-1	None	SDR1E1
1	GALE	ENSG00000117308	ENST00000445705	protein_coding	KNOWN	None	4116	582	193	24123584	24126060	-1	None	SDR1E1
1	GALE	ENSG00000117308	ENST00000467493	processed_transcript	KNOWN	None	4116	None	None	24124186	24125926	-1	None	SDR1E1
1	GALE	ENSG00000117308	ENST00000486382	processed_transcript	KNOWN	None	4116	None	None	24124610	24125603	-1	None	SDR1E1
1	GALE	ENSG00000117308	ENST00000470383	processed_transcript	KNOWN	None	4116	None	None	24124817	24127242	-1	None	SDR1E1
1	GALE	ENSG00000117308	ENST00000466250	processed_transcript	KNOWN	None	4116	None	None	24124870	24127251	-1	None	SDR1E1
1	GALE	ENSG00000117308	ENST00000467070	processed_transcript	KNOWN	None	4116	None	None	24125184	24127263	-1	None	SDR1E1
15	None	ENSG00000259579	ENST00000559755	lincRNA	KNOWN	None	None	None	None	101256454	101368702	1	None	None
HSCHR6_MHC_COX	STK19	ENSG00000234947	ENST00000459769	retained_intron	KNOWN	None	11398	None	None	31926504	31934339	1	None	D6S60, G11, RP1
HSCHR6_MHC_COX	STK19	ENSG00000234947	ENST00000425138	protein_coding	KNOWN	None	11398	1095	364	31927198	31936775	1	None	D6S60, G11, RP1
HSCHR6_MHC_COX	STK19	ENSG00000234947	ENST00000433397	protein_coding	KNOWN	None	11398	1107	368	31927273	31936775	1	None	D6S60, G11, RP1
HSCHR6_MHC_COX	STK19	ENSG00000234947	ENST00000483467	retained_intron	KNOWN	None	11398	None	None	31927669	31936775	1	None	D6S60, G11, RP1
HSCHR6_MHC_COX	STK19	ENSG00000234947	ENST00000487912	processed_transcript	PUTATIVE	None	11398	None	None	31927682	31936775	1	None	D6S60, G11, RP1
HSCHR6_MHC_COX	STK19	ENSG00000234947	ENST00000461093	processed_transcript	KNOWN	None	11398	None	None	31927717	31936775	1	None	D6S60, G11, RP1
HSCHR6_MHC_COX	STK19	ENSG00000234947	ENST00000462407	retained_intron	KNOWN	None	11398	None	None	31927720	31928747	1	None	D6S60, G11, RP1
HSCHR6_MHC_COX	STK19	ENSG00000234947	ENST00000490195	processed_transcript	KNOWN	None	11398	None	None	31927884	31936775	1	None	D6S60, G11, RP1
HSCHR6_MHC_COX	STK19	ENSG00000234947	ENST00000490429	retained_intron	KNOWN	None	11398	None	None	31927907	31935191	1	None	D6S60, G11, RP1
HSCHR6_MHC_COX	STK19	ENSG00000234947	ENST00000479148	processed_transcript	KNOWN	None	11398	None	None	31927911	31936130	1	None	D6S60, G11, RP1
HSCHR6_MHC_COX	STK19	ENSG00000234947	ENST00000474087	retained_intron	KNOWN	None	11398	None	None	31935720	31936775	1	None	D6S60, G11, RP1
HSCHR6_MHC_COX	STK19	ENSG00000234947	ENST00000551718	protein_coding	KNOWN	None	11398	966	321	31926504	31936774	1	None	D6S60, G11, RP1
9	MIR1302-8	ENSG00000221269	ENST00000408342	miRNA	KNOWN	None	35300	None	None	100125836	100125963	-1	MIRN1302-8	hsa-mir-1302-8
2	CEBPZ	ENSG00000115816	ENST00000234170	protein_coding	KNOWN	CCDS1787	24218	3165	1054	37428755	37458856	-1	None	CBF2, CTF2
2	CEBPZ	ENSG00000115816	ENST00000489306	retained_intron	KNOWN	None	24218	None	None	37428927	37439251	-1	None	CBF2, CTF2
2	CEBPZ	ENSG00000115816	ENST00000446769	protein_coding	PUTATIVE	None	24218	438	145	37455751	37458512	-1	None	CBF2, CTF2
9	None	ENSG00000228957	ENST00000430691	unprocessed_pseudogene	KNOWN	None	None	None	None	100148522	100158394	-1	None	None
4	DUX4L7	ENSG00000258755	ENST00000554906	protein_coding	PUTATIVE	None	37266	492	163	190992387	190993897	1	None	None
4	DUX4L7	ENSG00000258755	ENST00000553820	protein_coding	KNOWN	None	37266	1275	424	190992387	190993897	1	None	None
4	DUX4L7	ENSG00000258755	ENST00000553598	protein_coding	KNOWN	CCDS59483	37266	1458	485	190992087	190993703	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000258286	ENST00000548272	protein_coding	NOVEL	None	None	279	92	30460511	30464409	1	None	None
1	ABCA4	ENSG00000198691	ENST00000370225	protein_coding	KNOWN	CCDS747	34	6822	2273	94458393	94586688	-1	STGD1, ABCR, RP19, STGD	FFM, ARMD2, CORD3
1	ABCA4	ENSG00000198691	ENST00000465352	processed_transcript	KNOWN	None	34	None	None	94467064	94476485	-1	STGD1, ABCR, RP19, STGD	FFM, ARMD2, CORD3
1	ABCA4	ENSG00000198691	ENST00000484388	processed_transcript	KNOWN	None	34	None	None	94470931	94473308	-1	STGD1, ABCR, RP19, STGD	FFM, ARMD2, CORD3
1	ABCA4	ENSG00000198691	ENST00000470771	processed_transcript	KNOWN	None	34	None	None	94484956	94486923	-1	STGD1, ABCR, RP19, STGD	FFM, ARMD2, CORD3
1	ABCA4	ENSG00000198691	ENST00000460514	processed_transcript	KNOWN	None	34	None	None	94485138	94491151	-1	STGD1, ABCR, RP19, STGD	FFM, ARMD2, CORD3
1	ABCA4	ENSG00000198691	ENST00000472033	processed_transcript	KNOWN	None	34	None	None	94525025	94526995	-1	STGD1, ABCR, RP19, STGD	FFM, ARMD2, CORD3
1	ABCA4	ENSG00000198691	ENST00000536513	protein_coding	KNOWN	None	34	1632	543	94458738	94484228	-1	STGD1, ABCR, RP19, STGD	FFM, ARMD2, CORD3
1	ABCA4	ENSG00000198691	ENST00000535881	protein_coding	KNOWN	None	34	1179	392	94458738	94477181	-1	STGD1, ABCR, RP19, STGD	FFM, ARMD2, CORD3
1	ABCA4	ENSG00000198691	ENST00000535735	protein_coding	KNOWN	None	34	2940	979	94511193	94586681	-1	STGD1, ABCR, RP19, STGD	FFM, ARMD2, CORD3
20	CSNK2A1	ENSG00000101266	ENST00000349736	protein_coding	KNOWN	CCDS13003	2457	1176	391	461741	524465	-1	None	None
20	CSNK2A1	ENSG00000101266	ENST00000217244	protein_coding	KNOWN	CCDS13003	2457	1176	391	461741	524465	-1	None	None
20	CSNK2A1	ENSG00000101266	ENST00000460062	processed_transcript	KNOWN	None	2457	None	None	469393	524431	-1	None	None
20	CSNK2A1	ENSG00000101266	ENST00000400227	protein_coding	KNOWN	None	2457	1158	385	459116	524340	-1	None	None
20	CSNK2A1	ENSG00000101266	ENST00000400217	protein_coding	KNOWN	CCDS13004	2457	768	255	463340	524482	-1	None	None
6	MRPL14	ENSG00000180992	ENST00000372014	protein_coding	KNOWN	CCDS34460	14279	438	145	44081194	44095194	-1	None	RPML32, MRP-L32
12	KIAA1033	ENSG00000136051	ENST00000548195	protein_coding	PUTATIVE	None	29174	125	40	105501102	105512294	1	None	None
12	KIAA1033	ENSG00000136051	ENST00000311317	retained_intron	KNOWN	None	29174	None	None	105501492	105541683	1	None	None
12	KIAA1033	ENSG00000136051	ENST00000332180	protein_coding	KNOWN	CCDS41826	29174	3522	1173	105501492	105562912	1	None	None
12	KIAA1033	ENSG00000136051	ENST00000550053	nonsense_mediated_decay	KNOWN	None	29174	570	189	105501493	105562908	1	None	None
12	KIAA1033	ENSG00000136051	ENST00000547404	nonsense_mediated_decay	KNOWN	None	29174	189	62	105501564	105519827	1	None	None
12	KIAA1033	ENSG00000136051	ENST00000550613	retained_intron	KNOWN	None	29174	None	None	105538227	105540272	1	None	None
12	KIAA1033	ENSG00000136051	ENST00000548534	retained_intron	KNOWN	None	29174	None	None	105538496	105541321	1	None	None
12	KIAA1033	ENSG00000136051	ENST00000550786	retained_intron	KNOWN	None	29174	None	None	105543252	105553872	1	None	None
12	KIAA1033	ENSG00000136051	ENST00000552203	protein_coding	PUTATIVE	None	29174	146	47	105546124	105551100	1	None	None
12	KIAA1033	ENSG00000136051	ENST00000551224	protein_coding	PUTATIVE	None	29174	348	115	105550285	105556580	1	None	None
12	KIAA1033	ENSG00000136051	ENST00000551290	processed_transcript	KNOWN	None	29174	None	None	105550393	105556568	1	None	None
12	KIAA1033	ENSG00000136051	ENST00000547171	processed_transcript	KNOWN	None	29174	None	None	105556527	105558507	1	None	None
12	KIAA1033	ENSG00000136051	ENST00000550036	retained_intron	KNOWN	None	29174	None	None	105556569	105558411	1	None	None
X	RNU1-56P	ENSG00000212605	ENST00000391303	snRNA	KNOWN	None	48398	None	None	70240125	70240288	-1	None	None
6	RANBP9	ENSG00000010017	ENST00000011619	protein_coding	KNOWN	CCDS4529	13727	2190	729	13621730	13711796	-1	None	RanBPM
6	RANBP9	ENSG00000010017	ENST00000469916	processed_transcript	KNOWN	None	13727	None	None	13622565	13632987	-1	None	RanBPM
6	RANBP9	ENSG00000010017	ENST00000539980	protein_coding	KNOWN	None	13727	1503	500	13622594	13687180	-1	None	RanBPM
X	SOCS5P4	ENSG00000227536	ENST00000454743	processed_pseudogene	KNOWN	None	44600	None	None	70263064	70265320	-1	None	None
10	RNU6-598P	ENSG00000200887	ENST00000364017	snRNA	KNOWN	None	47561	None	None	30588498	30588602	-1	None	None
X	RN7SL746P	ENSG00000265502	ENST00000579421	misc_RNA	KNOWN	None	46762	None	None	70304339	70304637	1	None	None
9	None	ENSG00000228174	ENST00000451595	antisense	KNOWN	None	None	None	None	100274988	100278740	-1	None	None
X	None	ENSG00000265597	ENST00000579622	miRNA	NOVEL	None	None	None	None	70361035	70361156	1	None	None
19	DACT3	ENSG00000197380	ENST00000300875	protein_coding	PUTATIVE	None	30745	1215	404	47150869	47157914	-1	RRR1	MGC15476, DAPPER3
19	DACT3	ENSG00000197380	ENST00000391916	protein_coding	KNOWN	CCDS12688	30745	1890	629	47150869	47164395	-1	RRR1	MGC15476, DAPPER3
19	DACT3	ENSG00000197380	ENST00000410105	protein_coding	NOVEL	None	30745	546	181	47153405	47164395	-1	RRR1	MGC15476, DAPPER3
X	None	ENSG00000228427	ENST00000450860	antisense	KNOWN	None	None	None	None	70403409	70418025	-1	None	None
20	RNY4P11	ENSG00000252403	ENST00000516594	misc_RNA	KNOWN	None	34061	None	None	18309650	18309746	1	None	None
7	KIAA1549	ENSG00000122778	ENST00000440172	protein_coding	KNOWN	CCDS47723	22219	5805	1934	138516126	138666064	-1	None	None
7	KIAA1549	ENSG00000122778	ENST00000422774	protein_coding	KNOWN	CCDS56513	22219	5853	1950	138522270	138666064	-1	None	None
7	KIAA1549	ENSG00000122778	ENST00000242365	protein_coding	KNOWN	None	22219	5655	1884	138516126	138604221	-1	None	None
X	None	ENSG00000255591	ENST00000536900	pseudogene	NOVEL	None	None	None	None	70520580	70520897	1	None	None
10	None	ENSG00000261011	ENST00000437689	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	88761393	88769662	1	None	None
10	EEF1A1P39	ENSG00000230125	ENST00000440791	processed_pseudogene	KNOWN	None	37917	None	None	30590752	30591001	-1	None	None
17	SCRN2	ENSG00000141295	ENST00000407215	protein_coding	KNOWN	CCDS45723	30381	1137	378	45915058	45918655	-1	None	None
17	SCRN2	ENSG00000141295	ENST00000290216	protein_coding	KNOWN	CCDS11519	30381	1278	425	45915066	45918699	-1	None	None
17	SCRN2	ENSG00000141295	ENST00000584123	protein_coding	PUTATIVE	None	30381	1302	433	45915073	45918539	-1	None	None
17	SCRN2	ENSG00000141295	ENST00000581645	nonsense_mediated_decay	KNOWN	None	30381	816	271	45915074	45918613	-1	None	None
17	SCRN2	ENSG00000141295	ENST00000584567	protein_coding	NOVEL	None	30381	808	268	45915086	45916961	-1	None	None
17	SCRN2	ENSG00000141295	ENST00000582459	nonsense_mediated_decay	KNOWN	None	30381	384	127	45915086	45918216	-1	None	None
17	SCRN2	ENSG00000141295	ENST00000579856	nonsense_mediated_decay	KNOWN	None	30381	294	97	45915679	45918631	-1	None	None
17	SCRN2	ENSG00000141295	ENST00000583090	nonsense_mediated_decay	KNOWN	None	30381	294	97	45916325	45918470	-1	None	None
17	SCRN2	ENSG00000141295	ENST00000582656	retained_intron	KNOWN	None	30381	None	None	45916327	45917313	-1	None	None
17	SCRN2	ENSG00000141295	ENST00000578323	protein_coding	KNOWN	None	30381	541	179	45916825	45918633	-1	None	None
17	SCRN2	ENSG00000141295	ENST00000581546	retained_intron	KNOWN	None	30381	None	None	45917027	45918627	-1	None	None
17	SCRN2	ENSG00000141295	ENST00000578840	retained_intron	KNOWN	None	30381	None	None	45917040	45918589	-1	None	None
17	SCRN2	ENSG00000141295	ENST00000580428	retained_intron	KNOWN	None	30381	None	None	45917268	45918645	-1	None	None
10	None	ENSG00000229969	ENST00000451760	antisense	KNOWN	None	None	None	None	88769542	88775539	-1	None	None
4	None	ENSG00000254531	ENST00000527564	protein_coding	PUTATIVE	None	None	393	130	102268937	102270040	1	None	None
4	None	ENSG00000254531	ENST00000529296	protein_coding	PUTATIVE	None	None	341	112	102268949	102269878	1	None	None
20	LINC00851	ENSG00000237282	ENST00000423033	antisense	KNOWN	None	43424	None	None	18359693	18362128	1	DZANK1-AS1	None
20	LINC00851	ENSG00000237282	ENST00000594642	antisense	KNOWN	None	43424	None	None	18361416	18362125	1	DZANK1-AS1	None
10	None	ENSG00000271573	ENST00000605222	processed_pseudogene	KNOWN	None	None	None	None	88786941	88787234	1	None	None
6	None	ENSG00000213076	ENST00000434104	processed_pseudogene	KNOWN	None	None	None	None	159342303	159343182	-1	None	None
HSCHR6_MHC_QBL	GNL1	ENSG00000206492	ENST00000383596	protein_coding	KNOWN	None	4413	1824	607	30498660	30514458	-1	None	HSR1
HSCHR6_MHC_QBL	GNL1	ENSG00000206492	ENST00000469494	retained_intron	KNOWN	None	4413	None	None	30503768	30509830	-1	None	HSR1
HSCHR6_MHC_QBL	GNL1	ENSG00000206492	ENST00000495838	retained_intron	KNOWN	None	4413	None	None	30504479	30505100	-1	None	HSR1
HSCHR6_MHC_QBL	GNL1	ENSG00000206492	ENST00000488456	retained_intron	KNOWN	None	4413	None	None	30509461	30510404	-1	None	HSR1
HSCHR6_MHC_QBL	GNL1	ENSG00000206492	ENST00000458592	protein_coding	KNOWN	None	4413	793	263	30510643	30513372	-1	None	HSR1
HSCHR6_MHC_QBL	GNL1	ENSG00000206492	ENST00000550942	protein_coding	KNOWN	None	4413	1290	429	30498668	30511928	-1	None	HSR1
18	TCEB3CL2	ENSG00000266996	ENST00000591973	protein_coding	KNOWN	CCDS59316	33511	1641	546	44542731	44544607	-1	None	None
6	RNU6-293P	ENSG00000223191	ENST00000411259	snRNA	KNOWN	None	47256	None	None	159347498	159347603	-1	None	None
16	None	ENSG00000261731	ENST00000569175	antisense	KNOWN	None	None	None	None	31720434	31723305	-1	None	None
X	None	ENSG00000224208	ENST00000436372	processed_pseudogene	KNOWN	None	None	None	None	70534762	70535729	-1	None	None
16	None	ENSG00000259810	ENST00000570073	3prime_overlapping_ncrna	KNOWN	None	None	None	None	31799523	31801961	1	None	None
6	None	ENSG00000271913	ENST00000607391	antisense	KNOWN	None	None	None	None	159409210	159464088	1	None	None
6	None	ENSG00000271913	ENST00000607796	antisense	KNOWN	None	None	None	None	159420914	159463255	1	None	None
6	None	ENSG00000271913	ENST00000606470	antisense	KNOWN	None	None	None	None	159420914	159485957	1	None	None
6	None	ENSG00000271913	ENST00000606466	antisense	KNOWN	None	None	None	None	159446978	159463525	1	None	None
18	TCEB3CL	ENSG00000234298	ENST00000451265	protein_coding	KNOWN	CCDS42433	31007	1641	546	44548658	44550534	-1	None	HsT828
16	None	ENSG00000261922	ENST00000574845	sense_intronic	KNOWN	None	None	None	None	31799523	31800928	1	None	None
X	None	ENSG00000213706	ENST00000395798	processed_pseudogene	KNOWN	None	None	None	None	70572268	70572838	1	None	None
3	RAD18	ENSG00000070950	ENST00000427329	protein_coding	PUTATIVE	None	18278	394	130	8817088	8944140	-1	None	RNF73
3	RAD18	ENSG00000070950	ENST00000264926	protein_coding	KNOWN	CCDS2571	18278	1488	495	8918760	9005186	-1	None	RNF73
3	RAD18	ENSG00000070950	ENST00000415439	nonsense_mediated_decay	KNOWN	None	18278	933	310	8922948	9005115	-1	None	RNF73
3	RAD18	ENSG00000070950	ENST00000473069	retained_intron	KNOWN	None	18278	None	None	8923104	8954153	-1	None	RNF73
3	RAD18	ENSG00000070950	ENST00000429790	protein_coding	PUTATIVE	None	18278	240	79	8931793	8944082	-1	None	RNF73
3	RAD18	ENSG00000070950	ENST00000495087	processed_transcript	KNOWN	None	18278	None	None	8983197	9005186	-1	None	RNF73
3	RAD18	ENSG00000070950	ENST00000418463	nonsense_mediated_decay	KNOWN	None	18278	162	53	8983215	9005154	-1	None	RNF73
3	RAD18	ENSG00000070950	ENST00000421052	nonsense_mediated_decay	KNOWN	None	18278	381	126	8983235	9005154	-1	None	RNF73
3	RAD18	ENSG00000070950	ENST00000413832	protein_coding	KNOWN	None	18278	275	90	8983480	9005457	-1	None	RNF73
3	RAD18	ENSG00000070950	ENST00000469793	retained_intron	KNOWN	None	18278	None	None	8988636	9005127	-1	None	RNF73
X	None	ENSG00000236747	ENST00000431646	lincRNA	KNOWN	None	None	None	None	39226539	39251028	-1	None	None
16	None	ENSG00000260052	ENST00000561876	lincRNA	KNOWN	None	None	None	None	48671054	48672630	1	None	None
16	None	ENSG00000272545	ENST00000607580	lincRNA	KNOWN	None	None	None	None	48674384	48674963	1	None	None
22	ACO2	ENSG00000100412	ENST00000216254	protein_coding	KNOWN	CCDS14017	118	2343	780	41865129	41924993	1	None	ACONM
22	ACO2	ENSG00000100412	ENST00000396512	protein_coding	NOVEL	None	118	2418	805	41865134	41924993	1	None	ACONM
22	ACO2	ENSG00000100412	ENST00000471094	processed_transcript	PUTATIVE	None	118	None	None	41865164	41907970	1	None	ACONM
22	ACO2	ENSG00000100412	ENST00000482208	retained_intron	KNOWN	None	118	None	None	41903842	41908291	1	None	ACONM
22	ACO2	ENSG00000100412	ENST00000478010	retained_intron	KNOWN	None	118	None	None	41904019	41912127	1	None	ACONM
22	ACO2	ENSG00000100412	ENST00000481310	processed_transcript	PUTATIVE	None	118	None	None	41911517	41913456	1	None	ACONM
22	ACO2	ENSG00000100412	ENST00000466237	processed_transcript	KNOWN	None	118	None	None	41911770	41917594	1	None	ACONM
6	None	ENSG00000226032	ENST00000446887	lincRNA	KNOWN	None	None	None	None	159485760	159486305	-1	None	None
18	TCEB3C	ENSG00000183791	ENST00000330682	protein_coding	KNOWN	CCDS11931	24617	1641	546	44554573	44556449	-1	None	HsT829, TCEB3L2
22	MIR1249	ENSG00000221598	ENST00000408671	miRNA	KNOWN	None	35315	None	None	45596835	45596900	-1	MIRN1249	hsa-mir-1249
20	GCNT1P1	ENSG00000236474	ENST00000416567	processed_pseudogene	KNOWN	None	16532	None	None	18400804	18402098	-1	GCNT1P	bA189K21.2
16	None	ENSG00000220993	ENST00000408066	miRNA	NOVEL	None	None	None	None	48685242	48685334	1	None	None
6	None	ENSG00000224478	ENST00000421161	lincRNA	KNOWN	None	None	None	None	159528823	159537085	1	None	None
22	None	ENSG00000213752	ENST00000445867	processed_pseudogene	KNOWN	None	None	None	None	45671480	45671966	1	None	None
16	None	ENSG00000239038	ENST00000458973	snoRNA	NOVEL	None	None	None	None	48692292	48692396	-1	None	None
16	KLF8P1	ENSG00000260726	ENST00000566880	processed_pseudogene	KNOWN	None	41520	None	None	48751994	48753054	1	None	None
22	None	ENSG00000232363	ENST00000454439	antisense	KNOWN	None	None	None	None	45831744	45844624	-1	None	None
18	None	ENSG00000269679	ENST00000597412	protein_coding	KNOWN	None	None	246	81	77275812	77276057	-1	None	None
6	None	ENSG00000233682	ENST00000419064	lincRNA	KNOWN	None	None	None	None	159586941	159588385	1	None	None
6	OR2I1P	ENSG00000237988	ENST00000453522	unprocessed_pseudogene	KNOWN	None	8258	None	None	29520996	29521943	1	OR2I1, OR2I3P, OR2I4P, OR2I2	HS6M1-14
6	OR2I1P	ENSG00000237988	ENST00000449341	unprocessed_pseudogene	KNOWN	None	8258	None	None	29521002	29521928	1	OR2I1, OR2I3P, OR2I4P, OR2I2	HS6M1-14
18	TCEB3B	ENSG00000206181	ENST00000332567	protein_coding	KNOWN	CCDS11932	30771	2262	753	44558943	44561988	-1	None	HsT832, TCEB3L
22	None	ENSG00000238120	ENST00000422971	antisense	KNOWN	None	None	None	None	46000312	46001501	-1	None	None
6	FNDC1-IT1	ENSG00000235086	ENST00000419703	sense_intronic	KNOWN	None	41460	None	None	159661818	159664361	1	None	None
9	GADD45G	ENSG00000130222	ENST00000252506	protein_coding	KNOWN	CCDS6686	4097	480	159	92219928	92221470	1	None	DDIT2, GADD45gamma, GRP17, CR6
9	GADD45G	ENSG00000130222	ENST00000375769	protein_coding	PUTATIVE	None	4097	426	141	92219953	92221150	1	None	DDIT2, GADD45gamma, GRP17, CR6
9	GADD45G	ENSG00000130222	ENST00000494726	processed_transcript	KNOWN	None	4097	None	None	92220007	92221013	1	None	DDIT2, GADD45gamma, GRP17, CR6
16	RNU6-257P	ENSG00000222170	ENST00000410238	snRNA	KNOWN	None	47220	None	None	48765615	48765712	-1	None	None
6	None	ENSG00000231178	ENST00000427460	lincRNA	KNOWN	None	None	None	None	159774954	159775705	-1	None	None
22	RNU6-1161P	ENSG00000251985	ENST00000516176	snRNA	KNOWN	None	48124	None	None	46020411	46020512	-1	None	None
6	None	ENSG00000234777	ENST00000429657	lincRNA	KNOWN	None	None	None	None	159804563	159817475	1	None	None
22	MIR4762	ENSG00000264160	ENST00000585261	miRNA	KNOWN	None	41603	None	None	46156404	46156478	1	None	hsa-mir-4762
22	None	ENSG00000235347	ENST00000438230	processed_pseudogene	KNOWN	None	None	None	None	46188298	46189516	-1	None	None
9	RNU2-50P	ENSG00000222426	ENST00000410494	snRNA	KNOWN	None	48543	None	None	34282526	34282668	-1	None	None
6	None	ENSG00000216480	ENST00000404609	processed_pseudogene	KNOWN	None	None	None	None	159947094	159947559	-1	None	None
9	None	ENSG00000266881	ENST00000577522	miRNA	NOVEL	None	None	None	None	34296377	34296428	1	None	None
9	SERPINH1P1	ENSG00000229207	ENST00000419794	processed_pseudogene	KNOWN	None	19917	None	None	34318405	34319653	1	SERPINHP1	bA571F15.6, pshsp47
22	None	ENSG00000235091	ENST00000451118	lincRNA	KNOWN	None	None	None	None	46271879	46283628	-1	None	None
6	ALDH8A1	ENSG00000118514	ENST00000265605	protein_coding	KNOWN	CCDS5171	15471	1464	487	135238528	135271260	-1	None	ALDH12
6	ALDH8A1	ENSG00000118514	ENST00000367845	protein_coding	KNOWN	CCDS5172	15471	1302	433	135238534	135271253	-1	None	ALDH12
6	ALDH8A1	ENSG00000118514	ENST00000349305	nonsense_mediated_decay	KNOWN	None	15471	483	160	135239298	135271227	-1	None	ALDH12
6	ALDH8A1	ENSG00000118514	ENST00000367847	protein_coding	NOVEL	CCDS55057	15471	1314	437	135239311	135271222	-1	None	ALDH12
6	ALDH8A1	ENSG00000118514	ENST00000460753	protein_coding	NOVEL	None	15471	404	133	135239668	135250299	-1	None	ALDH12
6	ALDH8A1	ENSG00000118514	ENST00000534012	protein_coding	PUTATIVE	None	15471	46	14	135263631	135265373	-1	None	ALDH12
6	GPR126	ENSG00000112414	ENST00000230173	protein_coding	KNOWN	CCDS47490	13841	3666	1221	142622991	142767403	1	None	FLJ14937
6	GPR126	ENSG00000112414	ENST00000367608	protein_coding	KNOWN	CCDS55064	13841	3669	1222	142622996	142767391	1	None	FLJ14937
6	GPR126	ENSG00000112414	ENST00000296932	protein_coding	KNOWN	CCDS47491	13841	3582	1193	142623066	142767385	1	None	FLJ14937
6	GPR126	ENSG00000112414	ENST00000367609	protein_coding	KNOWN	CCDS47489	13841	3753	1250	142623066	142767385	1	None	FLJ14937
6	GPR126	ENSG00000112414	ENST00000415128	retained_intron	KNOWN	None	13841	None	None	142623087	142692091	1	None	FLJ14937
6	GPR126	ENSG00000112414	ENST00000541199	protein_coding	PUTATIVE	None	13841	724	240	142623758	142691588	1	None	FLJ14937
6	GPR126	ENSG00000112414	ENST00000435011	protein_coding	PUTATIVE	None	13841	425	140	142623763	142689027	1	None	FLJ14937
6	GPR126	ENSG00000112414	ENST00000545477	processed_transcript	KNOWN	None	13841	None	None	142623763	142703128	1	None	FLJ14937
6	GPR126	ENSG00000112414	ENST00000508295	protein_coding	PUTATIVE	None	13841	407	134	142711449	142721913	1	None	FLJ14937
6	GPR126	ENSG00000112414	ENST00000540208	nonsense_mediated_decay	KNOWN	None	13841	311	102	142723889	142732486	1	None	FLJ14937
6	GPR126	ENSG00000112414	ENST00000463637	retained_intron	KNOWN	None	13841	None	None	142723915	142725383	1	None	FLJ14937
6	GPR126	ENSG00000112414	ENST00000538281	retained_intron	KNOWN	None	13841	None	None	142726446	142729357	1	None	FLJ14937
6	GPR126	ENSG00000112414	ENST00000472054	retained_intron	KNOWN	None	13841	None	None	142738246	142764920	1	None	FLJ14937
6	GPR126	ENSG00000112414	ENST00000497898	retained_intron	KNOWN	None	13841	None	None	142759181	142764867	1	None	FLJ14937
6	None	ENSG00000237927	ENST00000430078	lincRNA	KNOWN	None	None	None	None	160007987	160010201	-1	None	None
9	None	ENSG00000207032	ENST00000384305	misc_RNA	NOVEL	None	None	None	None	34389941	34390049	-1	None	None
14	LTB4R2	ENSG00000213906	ENST00000527924	protein_coding	KNOWN	None	19260	481	159	24774940	24780351	1	None	BLTR2, BLT2, JULF2, NOP9
14	LTB4R2	ENSG00000213906	ENST00000528054	protein_coding	KNOWN	None	19260	1170	389	24778161	24781252	1	None	BLTR2, BLT2, JULF2, NOP9
14	LTB4R2	ENSG00000213906	ENST00000533293	protein_coding	KNOWN	CCDS9625	19260	1077	358	24779346	24781259	1	None	BLTR2, BLT2, JULF2, NOP9
14	LTB4R2	ENSG00000213906	ENST00000530080	protein_coding	KNOWN	None	19260	957	318	24779377	24780827	1	None	BLTR2, BLT2, JULF2, NOP9
14	LTB4R2	ENSG00000213906	ENST00000543919	protein_coding	KNOWN	CCDS9625	19260	1077	358	24779357	24781259	1	None	BLTR2, BLT2, JULF2, NOP9
7	MIR3914-1	ENSG00000265878	ENST00000584357	miRNA	KNOWN	None	38993	None	None	70772658	70772742	-1	None	hsa-mir-3914-1
10	ANAPC16	ENSG00000166295	ENST00000478193	processed_transcript	KNOWN	None	26976	None	None	73975787	73993373	1	C10orf104	bA570G20.3, FLJ33728, APC16, CENP-27
10	ANAPC16	ENSG00000166295	ENST00000299381	protein_coding	KNOWN	CCDS7314	26976	333	110	73975806	73995618	1	C10orf104	bA570G20.3, FLJ33728, APC16, CENP-27
10	ANAPC16	ENSG00000166295	ENST00000470481	processed_transcript	KNOWN	None	26976	None	None	73982891	73993587	1	C10orf104	bA570G20.3, FLJ33728, APC16, CENP-27
7	None	ENSG00000266688	ENST00000581603	miRNA	NOVEL	None	None	None	None	70775445	70775537	-1	None	None
7	RN7SKP75	ENSG00000199940	ENST00000363070	misc_RNA	KNOWN	None	45799	None	None	71150437	71150732	-1	None	None
7	RNA5SP232	ENSG00000201014	ENST00000364144	rRNA	KNOWN	None	43132	None	None	71378723	71378841	-1	RN5S232	None
7	None	ENSG00000235581	ENST00000455206	processed_pseudogene	KNOWN	None	None	None	None	71407244	71407453	1	None	None
15	GOLGA8K	ENSG00000249931	ENST00000512626	protein_coding	NOVEL	None	38652	1893	630	32684983	32695396	-1	None	None
7	ABCF2P2	ENSG00000228769	ENST00000450549	unprocessed_pseudogene	KNOWN	None	48842	None	None	71568166	71569194	1	None	None
6	REV3L	ENSG00000009413	ENST00000462119	processed_transcript	KNOWN	None	9968	None	None	111620234	111636840	-1	None	POLZ, REV3
6	REV3L	ENSG00000009413	ENST00000434009	nonsense_mediated_decay	KNOWN	None	9968	144	47	111620234	111804122	-1	None	POLZ, REV3
6	REV3L	ENSG00000009413	ENST00000368802	protein_coding	KNOWN	CCDS5091	9968	9393	3130	111620234	111804414	-1	None	POLZ, REV3
6	REV3L	ENSG00000009413	ENST00000368805	protein_coding	KNOWN	CCDS5091	9968	9393	3130	111620234	111804432	-1	None	POLZ, REV3
6	REV3L	ENSG00000009413	ENST00000422377	nonsense_mediated_decay	KNOWN	None	9968	144	47	111620234	111804918	-1	None	POLZ, REV3
6	REV3L	ENSG00000009413	ENST00000413831	nonsense_mediated_decay	KNOWN	None	9968	555	184	111665153	111688561	-1	None	POLZ, REV3
6	REV3L	ENSG00000009413	ENST00000492520	retained_intron	KNOWN	None	9968	None	None	111670156	111672936	-1	None	POLZ, REV3
6	REV3L	ENSG00000009413	ENST00000467500	retained_intron	KNOWN	None	9968	None	None	111677871	111680104	-1	None	POLZ, REV3
6	REV3L	ENSG00000009413	ENST00000470871	retained_intron	KNOWN	None	9968	None	None	111708949	111711316	-1	None	POLZ, REV3
6	REV3L	ENSG00000009413	ENST00000460981	retained_intron	KNOWN	None	9968	None	None	111713898	111726835	-1	None	POLZ, REV3
6	REV3L	ENSG00000009413	ENST00000494858	retained_intron	KNOWN	None	9968	None	None	111726630	111732759	-1	None	POLZ, REV3
6	REV3L	ENSG00000009413	ENST00000358835	protein_coding	KNOWN	CCDS5091	9968	9393	3130	111620278	111804915	-1	None	POLZ, REV3
6	REV3L	ENSG00000009413	ENST00000435970	protein_coding	KNOWN	None	9968	9159	3052	111620278	111804915	-1	None	POLZ, REV3
6	TMEM63B	ENSG00000137216	ENST00000259746	protein_coding	KNOWN	CCDS34461	17735	2499	832	44094651	44123256	1	C6orf110	DKFZp434P0531, dJ421H19.2
6	TMEM63B	ENSG00000137216	ENST00000532634	protein_coding	KNOWN	None	17735	679	225	44095291	44108065	1	C6orf110	DKFZp434P0531, dJ421H19.2
6	TMEM63B	ENSG00000137216	ENST00000534326	retained_intron	KNOWN	None	17735	None	None	44095376	44116998	1	C6orf110	DKFZp434P0531, dJ421H19.2
6	TMEM63B	ENSG00000137216	ENST00000525294	retained_intron	KNOWN	None	17735	None	None	44095457	44108250	1	C6orf110	DKFZp434P0531, dJ421H19.2
6	TMEM63B	ENSG00000137216	ENST00000371893	protein_coding	NOVEL	None	17735	2285	760	44102770	44123256	1	C6orf110	DKFZp434P0531, dJ421H19.2
6	TMEM63B	ENSG00000137216	ENST00000497371	nonsense_mediated_decay	KNOWN	None	17735	83	26	44104136	44116376	1	C6orf110	DKFZp434P0531, dJ421H19.2
6	TMEM63B	ENSG00000137216	ENST00000525873	retained_intron	KNOWN	None	17735	None	None	44106111	44116071	1	C6orf110	DKFZp434P0531, dJ421H19.2
6	TMEM63B	ENSG00000137216	ENST00000527188	processed_transcript	KNOWN	None	17735	None	None	44106550	44108819	1	C6orf110	DKFZp434P0531, dJ421H19.2
6	TMEM63B	ENSG00000137216	ENST00000533121	nonsense_mediated_decay	KNOWN	None	17735	1561	519	44107449	44123256	1	C6orf110	DKFZp434P0531, dJ421H19.2
6	TMEM63B	ENSG00000137216	ENST00000323267	protein_coding	KNOWN	CCDS34461	17735	2499	832	44095376	44123255	1	C6orf110	DKFZp434P0531, dJ421H19.2
8	SOD1P3	ENSG00000253651	ENST00000518682	processed_pseudogene	KNOWN	None	45136	None	None	126964105	126964558	-1	None	None
19	WDR83OS	ENSG00000105583	ENST00000596731	protein_coding	KNOWN	CCDS12274	30203	321	106	12778885	12782170	-1	C19orf56	PTD008
19	WDR83OS	ENSG00000105583	ENST00000222190	protein_coding	NOVEL	None	30203	315	104	12778889	12780217	-1	C19orf56	PTD008
19	WDR83OS	ENSG00000105583	ENST00000598732	protein_coding	PUTATIVE	None	30203	256	84	12778959	12780215	-1	C19orf56	PTD008
19	WDR83OS	ENSG00000105583	ENST00000600694	processed_transcript	KNOWN	None	30203	None	None	12780893	12781837	-1	C19orf56	PTD008
19	ATP13A1	ENSG00000105726	ENST00000467160	retained_intron	KNOWN	None	24215	None	None	19756007	19758520	-1	ATP13A	KIAA1825, FLJ31858, CGI-152
19	ATP13A1	ENSG00000105726	ENST00000291503	protein_coding	KNOWN	None	24215	3261	1086	19756009	19772925	-1	ATP13A	KIAA1825, FLJ31858, CGI-152
19	ATP13A1	ENSG00000105726	ENST00000469641	retained_intron	KNOWN	None	24215	None	None	19756012	19764205	-1	ATP13A	KIAA1825, FLJ31858, CGI-152
19	ATP13A1	ENSG00000105726	ENST00000497556	retained_intron	KNOWN	None	24215	None	None	19756012	19766260	-1	ATP13A	KIAA1825, FLJ31858, CGI-152
19	ATP13A1	ENSG00000105726	ENST00000473243	retained_intron	KNOWN	None	24215	None	None	19756012	19767541	-1	ATP13A	KIAA1825, FLJ31858, CGI-152
19	ATP13A1	ENSG00000105726	ENST00000357324	protein_coding	KNOWN	CCDS32970	24215	3615	1204	19756012	19774502	-1	ATP13A	KIAA1825, FLJ31858, CGI-152
19	ATP13A1	ENSG00000105726	ENST00000491221	retained_intron	KNOWN	None	24215	None	None	19761949	19764745	-1	ATP13A	KIAA1825, FLJ31858, CGI-152
19	ATP13A1	ENSG00000105726	ENST00000471063	retained_intron	KNOWN	None	24215	None	None	19764527	19765371	-1	ATP13A	KIAA1825, FLJ31858, CGI-152
19	ATP13A1	ENSG00000105726	ENST00000497156	retained_intron	KNOWN	None	24215	None	None	19764586	19766260	-1	ATP13A	KIAA1825, FLJ31858, CGI-152
19	ATP13A1	ENSG00000105726	ENST00000496082	processed_transcript	KNOWN	None	24215	None	None	19764586	19766393	-1	ATP13A	KIAA1825, FLJ31858, CGI-152
19	ATP13A1	ENSG00000105726	ENST00000497762	retained_intron	KNOWN	None	24215	None	None	19765352	19766494	-1	ATP13A	KIAA1825, FLJ31858, CGI-152
19	ATP13A1	ENSG00000105726	ENST00000474955	retained_intron	KNOWN	None	24215	None	None	19766353	19770553	-1	ATP13A	KIAA1825, FLJ31858, CGI-152
19	ATP13A1	ENSG00000105726	ENST00000492774	retained_intron	KNOWN	None	24215	None	None	19767695	19770554	-1	ATP13A	KIAA1825, FLJ31858, CGI-152
19	ATP13A1	ENSG00000105726	ENST00000455627	protein_coding	PUTATIVE	None	24215	554	183	19767911	19774041	-1	ATP13A	KIAA1825, FLJ31858, CGI-152
19	ATP13A1	ENSG00000105726	ENST00000487364	processed_transcript	KNOWN	None	24215	None	None	19770750	19774482	-1	ATP13A	KIAA1825, FLJ31858, CGI-152
7	TES	ENSG00000135269	ENST00000358204	protein_coding	KNOWN	CCDS5763	14620	1266	421	115850547	115898837	1	None	DKFZP586B2022, TESS-2, TESTIN
7	TES	ENSG00000135269	ENST00000461440	retained_intron	KNOWN	None	14620	None	None	115850560	115889631	1	None	DKFZP586B2022, TESS-2, TESTIN
7	TES	ENSG00000135269	ENST00000455989	protein_coding	PUTATIVE	None	14620	239	78	115850593	115890342	1	None	DKFZP586B2022, TESS-2, TESTIN
7	TES	ENSG00000135269	ENST00000492891	nonsense_mediated_decay	KNOWN	None	14620	135	44	115850603	115897722	1	None	DKFZP586B2022, TESS-2, TESTIN
7	TES	ENSG00000135269	ENST00000496871	processed_transcript	PUTATIVE	None	14620	None	None	115850615	115889860	1	None	DKFZP586B2022, TESS-2, TESTIN
7	TES	ENSG00000135269	ENST00000393481	protein_coding	KNOWN	CCDS5764	14620	1239	412	115862858	115898837	1	None	DKFZP586B2022, TESS-2, TESTIN
7	TES	ENSG00000135269	ENST00000485009	processed_transcript	PUTATIVE	None	14620	None	None	115863005	115890086	1	None	DKFZP586B2022, TESS-2, TESTIN
7	TES	ENSG00000135269	ENST00000393484	protein_coding	PUTATIVE	None	14620	578	191	115890489	115892792	1	None	DKFZP586B2022, TESS-2, TESTIN
7	TES	ENSG00000135269	ENST00000494384	processed_transcript	PUTATIVE	None	14620	None	None	115890503	115892654	1	None	DKFZP586B2022, TESS-2, TESTIN
7	TES	ENSG00000135269	ENST00000496912	retained_intron	KNOWN	None	14620	None	None	115891561	115897630	1	None	DKFZP586B2022, TESS-2, TESTIN
7	TES	ENSG00000135269	ENST00000463746	processed_transcript	KNOWN	None	14620	None	None	115891805	115892634	1	None	DKFZP586B2022, TESS-2, TESTIN
7	TES	ENSG00000135269	ENST00000537767	protein_coding	KNOWN	None	14620	540	179	115850603	115897722	1	None	DKFZP586B2022, TESS-2, TESTIN
18	CTDP1	ENSG00000060069	ENST00000299543	protein_coding	KNOWN	CCDS12017	2498	2886	961	77439801	77514510	1	None	FCP1
18	CTDP1	ENSG00000060069	ENST00000075430	protein_coding	KNOWN	CCDS12018	2498	2604	867	77439846	77514503	1	None	FCP1
18	CTDP1	ENSG00000060069	ENST00000591598	protein_coding	NOVEL	None	2498	2400	799	77440152	77514503	1	None	FCP1
18	CTDP1	ENSG00000060069	ENST00000590635	protein_coding	KNOWN	None	2498	236	77	77440849	77457960	1	None	FCP1
18	CTDP1	ENSG00000060069	ENST00000587623	processed_transcript	PUTATIVE	None	2498	None	None	77441459	77445591	1	None	FCP1
18	CTDP1	ENSG00000060069	ENST00000590599	retained_intron	KNOWN	None	2498	None	None	77495610	77514501	1	None	FCP1
18	CTDP1	ENSG00000060069	ENST00000585951	processed_transcript	PUTATIVE	None	2498	None	None	77496353	77509997	1	None	FCP1
8	CPNE3	ENSG00000085719	ENST00000521271	protein_coding	KNOWN	CCDS6243	2316	1614	537	87526656	87573726	1	None	None
8	CPNE3	ENSG00000085719	ENST00000523072	protein_coding	KNOWN	None	2316	702	233	87526666	87557036	1	None	None
8	CPNE3	ENSG00000085719	ENST00000523001	protein_coding	KNOWN	None	2316	407	134	87526667	87544756	1	None	None
8	CPNE3	ENSG00000085719	ENST00000520814	protein_coding	KNOWN	None	2316	26	7	87526672	87540799	1	None	None
8	CPNE3	ENSG00000085719	ENST00000523489	retained_intron	KNOWN	None	2316	None	None	87526675	87527429	1	None	None
8	CPNE3	ENSG00000085719	ENST00000517771	protein_coding	KNOWN	None	2316	418	138	87526688	87544767	1	None	None
8	CPNE3	ENSG00000085719	ENST00000523469	protein_coding	KNOWN	None	2316	459	152	87526732	87544808	1	None	None
8	CPNE3	ENSG00000085719	ENST00000522240	protein_coding	KNOWN	None	2316	237	78	87526790	87541277	1	None	None
8	CPNE3	ENSG00000085719	ENST00000517391	protein_coding	NOVEL	None	2316	785	260	87541291	87563461	1	None	None
8	CPNE3	ENSG00000085719	ENST00000517862	retained_intron	KNOWN	None	2316	None	None	87552503	87557561	1	None	None
8	CPNE3	ENSG00000085719	ENST00000517354	retained_intron	KNOWN	None	2316	None	None	87558856	87567207	1	None	None
8	CPNE3	ENSG00000085719	ENST00000517490	retained_intron	KNOWN	None	2316	None	None	87559534	87573639	1	None	None
8	CPNE3	ENSG00000085719	ENST00000523588	retained_intron	KNOWN	None	2316	None	None	87563233	87563740	1	None	None
8	CPNE3	ENSG00000085719	ENST00000198765	protein_coding	KNOWN	CCDS6243	2316	1614	537	87497059	87573726	1	None	None
8	None	ENSG00000254227	ENST00000523525	lincRNA	KNOWN	None	None	None	None	127011238	127013245	-1	None	None
18	HDHD2	ENSG00000167220	ENST00000300605	protein_coding	KNOWN	CCDS32829	25364	780	259	44633774	44676891	-1	None	DKFZP564D1378
18	HDHD2	ENSG00000167220	ENST00000588183	nonsense_mediated_decay	KNOWN	None	25364	165	54	44633779	44676871	-1	None	DKFZP564D1378
18	HDHD2	ENSG00000167220	ENST00000588861	retained_intron	KNOWN	None	25364	None	None	44633999	44637227	-1	None	DKFZP564D1378
18	HDHD2	ENSG00000167220	ENST00000587841	processed_transcript	KNOWN	None	25364	None	None	44634749	44676847	-1	None	DKFZP564D1378
18	HDHD2	ENSG00000167220	ENST00000590815	protein_coding	KNOWN	None	25364	613	203	44641502	44676830	-1	None	DKFZP564D1378
18	HDHD2	ENSG00000167220	ENST00000591480	protein_coding	NOVEL	None	25364	438	145	44641650	44676869	-1	None	DKFZP564D1378
18	HDHD2	ENSG00000167220	ENST00000586546	nonsense_mediated_decay	KNOWN	None	25364	165	54	44641687	44676864	-1	None	DKFZP564D1378
18	HDHD2	ENSG00000167220	ENST00000590481	protein_coding	KNOWN	None	25364	397	131	44656613	44676850	-1	None	DKFZP564D1378
18	HDHD2	ENSG00000167220	ENST00000588940	protein_coding	KNOWN	None	25364	396	131	44656614	44676572	-1	None	DKFZP564D1378
18	HDHD2	ENSG00000167220	ENST00000591268	nonsense_mediated_decay	KNOWN	None	25364	165	54	44656615	44676566	-1	None	DKFZP564D1378
18	HDHD2	ENSG00000167220	ENST00000587388	protein_coding	KNOWN	None	25364	395	130	44656615	44676847	-1	None	DKFZP564D1378
18	HDHD2	ENSG00000167220	ENST00000592591	protein_coding	NOVEL	None	25364	366	121	44656617	44676869	-1	None	DKFZP564D1378
18	HDHD2	ENSG00000167220	ENST00000591671	processed_transcript	KNOWN	None	25364	None	None	44660790	44676871	-1	None	DKFZP564D1378
8	BLK	ENSG00000136573	ENST00000259089	protein_coding	KNOWN	CCDS5982	1057	1518	505	11351510	11422113	1	None	MGC10442
8	BLK	ENSG00000136573	ENST00000525389	processed_transcript	PUTATIVE	None	1057	None	None	11351678	11367400	1	None	MGC10442
8	BLK	ENSG00000136573	ENST00000529894	protein_coding	PUTATIVE	None	1057	1305	434	11351899	11422037	1	None	MGC10442
8	BLK	ENSG00000136573	ENST00000533828	retained_intron	KNOWN	None	1057	None	None	11403240	11406612	1	None	MGC10442
8	BLK	ENSG00000136573	ENST00000526778	retained_intron	KNOWN	None	1057	None	None	11407503	11414297	1	None	MGC10442
8	BLK	ENSG00000136573	ENST00000526097	retained_intron	KNOWN	None	1057	None	None	11417842	11422108	1	None	MGC10442
HSCHR6_MHC_MCF	C4A	ENSG00000227746	ENST00000421274	protein_coding	KNOWN	None	1323	5235	1744	32058986	32079643	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
HSCHR6_MHC_MCF	C4A	ENSG00000227746	ENST00000494500	retained_intron	KNOWN	None	1323	None	None	32059805	32060521	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
HSCHR6_MHC_MCF	C4A	ENSG00000227746	ENST00000465824	processed_transcript	KNOWN	None	1323	None	None	32059843	32061360	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
HSCHR6_MHC_MCF	C4A	ENSG00000227746	ENST00000471317	retained_intron	KNOWN	None	1323	None	None	32069139	32070938	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
HSCHR6_MHC_MCF	C4A	ENSG00000227746	ENST00000488063	retained_intron	KNOWN	None	1323	None	None	32072071	32072582	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
HSCHR6_MHC_MCF	C4A	ENSG00000227746	ENST00000483562	processed_transcript	PUTATIVE	None	1323	None	None	32072917	32075798	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
HSCHR6_MHC_MCF	C4A	ENSG00000227746	ENST00000488091	retained_intron	KNOWN	None	1323	None	None	32074704	32076681	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
HSCHR6_MHC_MCF	C4A	ENSG00000227746	ENST00000492958	retained_intron	KNOWN	None	1323	None	None	32075813	32076492	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
HSCHR6_MHC_MCF	C4A	ENSG00000227746	ENST00000477131	retained_intron	KNOWN	None	1323	None	None	32076117	32079643	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
HSCHR6_MHC_MCF	C4A	ENSG00000227746	ENST00000494477	retained_intron	KNOWN	None	1323	None	None	32076162	32079643	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
HSCHR6_MHC_MCF	C4A	ENSG00000227746	ENST00000495158	processed_transcript	KNOWN	None	1323	None	None	32077960	32079643	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
HSCHR6_MHC_MCF	C4A	ENSG00000227746	ENST00000459921	retained_intron	KNOWN	None	1323	None	None	32078089	32079227	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
HSCHR6_MHC_MCF	C4A	ENSG00000227746	ENST00000467328	retained_intron	KNOWN	None	1323	None	None	32078222	32078830	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
HSCHR6_MHC_MCF	C4A	ENSG00000227746	ENST00000550297	protein_coding	KNOWN	None	1323	5097	1698	32059030	32079633	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
7	TYW1B	ENSG00000254184	ENST00000438125	processed_transcript	KNOWN	None	33908	None	None	72023729	72298753	-1	None	RSAFD2, MGC87315, NCRNA00069, LINC00069
7	TYW1B	ENSG00000254184	ENST00000435769	transcribed_unprocessed_pseudogene	KNOWN	None	33908	None	None	72040483	72298654	-1	None	RSAFD2, MGC87315, NCRNA00069, LINC00069
7	TYW1B	ENSG00000254184	ENST00000437915	processed_transcript	KNOWN	None	33908	None	None	72193812	72298765	-1	None	RSAFD2, MGC87315, NCRNA00069, LINC00069
7	TYW1B	ENSG00000254184	ENST00000343721	unprocessed_pseudogene	KNOWN	None	33908	None	None	72040372	72209725	-1	None	RSAFD2, MGC87315, NCRNA00069, LINC00069
7	TYW1B	ENSG00000254184	ENST00000438904	unprocessed_pseudogene	KNOWN	None	33908	None	None	72193846	72298753	-1	None	RSAFD2, MGC87315, NCRNA00069, LINC00069
3	SMARCC1	ENSG00000173473	ENST00000254480	protein_coding	KNOWN	CCDS2758	11104	3318	1105	47626762	47823407	-1	None	BAF155, SRG3, Rsc8, CRACC1
3	SMARCC1	ENSG00000173473	ENST00000425518	processed_transcript	KNOWN	None	11104	None	None	47629080	47823596	-1	None	BAF155, SRG3, Rsc8, CRACC1
3	SMARCC1	ENSG00000173473	ENST00000492896	processed_transcript	KNOWN	None	11104	None	None	47632296	47652288	-1	None	BAF155, SRG3, Rsc8, CRACC1
3	SMARCC1	ENSG00000173473	ENST00000483847	retained_intron	KNOWN	None	11104	None	None	47711840	47719855	-1	None	BAF155, SRG3, Rsc8, CRACC1
3	SMARCC1	ENSG00000173473	ENST00000462198	processed_transcript	KNOWN	None	11104	None	None	47719686	47743144	-1	None	BAF155, SRG3, Rsc8, CRACC1
3	SMARCC1	ENSG00000173473	ENST00000485737	retained_intron	KNOWN	None	11104	None	None	47721713	47742892	-1	None	BAF155, SRG3, Rsc8, CRACC1
3	SMARCC1	ENSG00000173473	ENST00000485833	processed_transcript	KNOWN	None	11104	None	None	47770515	47787895	-1	None	BAF155, SRG3, Rsc8, CRACC1
3	SMARCC1	ENSG00000173473	ENST00000454240	nonsense_mediated_decay	KNOWN	None	11104	402	133	47770527	47823371	-1	None	BAF155, SRG3, Rsc8, CRACC1
11	YIF1A	ENSG00000174851	ENST00000496746	protein_coding	PUTATIVE	None	16688	240	79	66052051	66052806	-1	YIF1	YIF1P, 54TM, FinGER7
11	YIF1A	ENSG00000174851	ENST00000485820	retained_intron	KNOWN	None	16688	None	None	66052051	66053117	-1	YIF1	YIF1P, 54TM, FinGER7
11	YIF1A	ENSG00000174851	ENST00000526497	processed_transcript	KNOWN	None	16688	None	None	66052051	66053229	-1	YIF1	YIF1P, 54TM, FinGER7
11	YIF1A	ENSG00000174851	ENST00000471387	protein_coding	PUTATIVE	None	16688	477	158	66052051	66056599	-1	YIF1	YIF1P, 54TM, FinGER7
11	YIF1A	ENSG00000174851	ENST00000359461	protein_coding	NOVEL	None	16688	726	241	66052051	66056616	-1	YIF1	YIF1P, 54TM, FinGER7
11	YIF1A	ENSG00000174851	ENST00000376901	protein_coding	KNOWN	CCDS8132	16688	882	293	66052051	66056641	-1	YIF1	YIF1P, 54TM, FinGER7
11	YIF1A	ENSG00000174851	ENST00000494836	retained_intron	KNOWN	None	16688	None	None	66052052	66053094	-1	YIF1	YIF1P, 54TM, FinGER7
11	YIF1A	ENSG00000174851	ENST00000484814	nonsense_mediated_decay	KNOWN	None	16688	162	53	66052387	66056599	-1	YIF1	YIF1P, 54TM, FinGER7
11	YIF1A	ENSG00000174851	ENST00000431556	protein_coding	NOVEL	None	16688	597	198	66052932	66056478	-1	YIF1	YIF1P, 54TM, FinGER7
11	YIF1A	ENSG00000174851	ENST00000528575	protein_coding	NOVEL	None	16688	480	159	66052955	66056508	-1	YIF1	YIF1P, 54TM, FinGER7
11	YIF1A	ENSG00000174851	ENST00000376899	retained_intron	KNOWN	None	16688	None	None	66054612	66056614	-1	YIF1	YIF1P, 54TM, FinGER7
11	YIF1A	ENSG00000174851	ENST00000474986	retained_intron	KNOWN	None	16688	None	None	66054683	66056608	-1	YIF1	YIF1P, 54TM, FinGER7
11	YIF1A	ENSG00000174851	ENST00000534374	retained_intron	KNOWN	None	16688	None	None	66055405	66056606	-1	YIF1	YIF1P, 54TM, FinGER7
3	RBMS3	ENSG00000144642	ENST00000434693	protein_coding	KNOWN	None	13427	1311	436	29322473	30051882	1	None	None
3	RBMS3	ENSG00000144642	ENST00000471426	retained_intron	KNOWN	None	13427	None	None	29322564	29476500	1	None	None
3	RBMS3	ENSG00000144642	ENST00000383767	protein_coding	KNOWN	CCDS33724	13427	1314	437	29322837	30045567	1	None	None
3	RBMS3	ENSG00000144642	ENST00000445033	protein_coding	NOVEL	None	13427	795	264	29322864	29925717	1	None	None
3	RBMS3	ENSG00000144642	ENST00000273139	protein_coding	KNOWN	CCDS33726	13427	1263	420	29322943	30032809	1	None	None
3	RBMS3	ENSG00000144642	ENST00000383766	protein_coding	KNOWN	CCDS33725	13427	1260	419	29322943	30046620	1	None	None
3	RBMS3	ENSG00000144642	ENST00000452462	protein_coding	NOVEL	CCDS54558	13427	1266	421	29323043	30045504	1	None	None
3	RBMS3	ENSG00000144642	ENST00000456853	protein_coding	KNOWN	CCDS54557	13427	1302	433	29323107	30032730	1	None	None
3	RBMS3	ENSG00000144642	ENST00000497205	retained_intron	KNOWN	None	13427	None	None	29476348	29781413	1	None	None
3	RBMS3	ENSG00000144642	ENST00000478716	processed_transcript	PUTATIVE	None	13427	None	None	29739684	29781340	1	None	None
3	RBMS3	ENSG00000144642	ENST00000497319	processed_transcript	KNOWN	None	13427	None	None	29804414	29944729	1	None	None
3	RBMS3	ENSG00000144642	ENST00000473799	processed_transcript	KNOWN	None	13427	None	None	29966242	30032688	1	None	None
3	RBMS3	ENSG00000144642	ENST00000497274	processed_transcript	PUTATIVE	None	13427	None	None	30029564	30033206	1	None	None
3	RBMS3	ENSG00000144642	ENST00000396583	protein_coding	KNOWN	None	13427	1305	434	29322803	30051886	1	None	None
17	ACLY	ENSG00000131473	ENST00000352035	protein_coding	KNOWN	CCDS11412	115	3306	1101	40023161	40075240	-1	None	ATPCL, CLATP, ACL
17	ACLY	ENSG00000131473	ENST00000590151	protein_coding	KNOWN	CCDS11412	115	3306	1101	40023170	40075215	-1	None	ATPCL, CLATP, ACL
17	ACLY	ENSG00000131473	ENST00000537919	protein_coding	NOVEL	None	115	2493	830	40023709	40075236	-1	None	ATPCL, CLATP, ACL
17	ACLY	ENSG00000131473	ENST00000393896	protein_coding	KNOWN	CCDS11413	115	3276	1091	40023827	40075275	-1	None	ATPCL, CLATP, ACL
17	ACLY	ENSG00000131473	ENST00000588779	processed_transcript	KNOWN	None	115	None	None	40024014	40026972	-1	None	ATPCL, CLATP, ACL
17	ACLY	ENSG00000131473	ENST00000590770	protein_coding	PUTATIVE	None	115	399	132	40054054	40075204	-1	None	ATPCL, CLATP, ACL
17	ACLY	ENSG00000131473	ENST00000588547	retained_intron	KNOWN	None	115	None	None	40060693	40061894	-1	None	ATPCL, CLATP, ACL
17	ACLY	ENSG00000131473	ENST00000590735	processed_transcript	KNOWN	None	115	None	None	40062851	40075204	-1	None	ATPCL, CLATP, ACL
17	ACLY	ENSG00000131473	ENST00000592970	protein_coding	KNOWN	None	115	328	108	40066492	40086795	-1	None	ATPCL, CLATP, ACL
17	ACLY	ENSG00000131473	ENST00000353196	protein_coding	KNOWN	CCDS11413	115	3276	1091	40023184	40075272	-1	None	ATPCL, CLATP, ACL
14	LTB4R	ENSG00000213903	ENST00000553481	protein_coding	KNOWN	None	6713	307	101	24780656	24785164	1	P2RY7, GPR16, CMKRL1	BLTR, P2Y7, LTB4R1
14	LTB4R	ENSG00000213903	ENST00000345363	protein_coding	KNOWN	CCDS9626	6713	1059	352	24780705	24786152	1	P2RY7, GPR16, CMKRL1	BLTR, P2Y7, LTB4R1
14	LTB4R	ENSG00000213903	ENST00000396789	protein_coding	KNOWN	CCDS9626	6713	1059	352	24782517	24787242	1	P2RY7, GPR16, CMKRL1	BLTR, P2Y7, LTB4R1
14	LTB4R	ENSG00000213903	ENST00000556141	protein_coding	PUTATIVE	None	6713	696	231	24783120	24785853	1	P2RY7, GPR16, CMKRL1	BLTR, P2Y7, LTB4R1
14	LTB4R	ENSG00000213903	ENST00000396782	protein_coding	KNOWN	CCDS9626	6713	1059	352	24783906	24786152	1	P2RY7, GPR16, CMKRL1	BLTR, P2Y7, LTB4R1
11	None	ENSG00000269018	ENST00000597463	protein_coding	NOVEL	None	None	783	260	65358665	65359947	-1	None	None
11	USH1C	ENSG00000006611	ENST00000526313	nonsense_mediated_decay	KNOWN	None	12597	1212	403	17515442	17565949	-1	DFNB18	PDZ73, harmonin, NY-CO-37, NY-CO-38, PDZ-73, AIE-75, PDZD7C
11	USH1C	ENSG00000006611	ENST00000318024	protein_coding	KNOWN	CCDS31438	12597	1659	552	17515442	17565963	-1	DFNB18	PDZ73, harmonin, NY-CO-37, NY-CO-38, PDZ-73, AIE-75, PDZD7C
11	USH1C	ENSG00000006611	ENST00000527720	protein_coding	KNOWN	None	12597	1566	521	17515444	17555057	-1	DFNB18	PDZ73, harmonin, NY-CO-37, NY-CO-38, PDZ-73, AIE-75, PDZD7C
11	USH1C	ENSG00000006611	ENST00000527020	protein_coding	KNOWN	None	12597	1602	533	17515447	17565947	-1	DFNB18	PDZ73, harmonin, NY-CO-37, NY-CO-38, PDZ-73, AIE-75, PDZD7C
11	USH1C	ENSG00000006611	ENST00000529563	processed_transcript	KNOWN	None	12597	None	None	17515512	17538169	-1	DFNB18	PDZ73, harmonin, NY-CO-37, NY-CO-38, PDZ-73, AIE-75, PDZD7C
11	USH1C	ENSG00000006611	ENST00000527551	retained_intron	KNOWN	None	12597	None	None	17515709	17518460	-1	DFNB18	PDZ73, harmonin, NY-CO-37, NY-CO-38, PDZ-73, AIE-75, PDZD7C
11	USH1C	ENSG00000006611	ENST00000005226	protein_coding	KNOWN	CCDS7825	12597	2700	899	17515879	17565854	-1	DFNB18	PDZ73, harmonin, NY-CO-37, NY-CO-38, PDZ-73, AIE-75, PDZD7C
11	USH1C	ENSG00000006611	ENST00000534556	retained_intron	KNOWN	None	12597	None	None	17522619	17523596	-1	DFNB18	PDZ73, harmonin, NY-CO-37, NY-CO-38, PDZ-73, AIE-75, PDZD7C
11	USH1C	ENSG00000006611	ENST00000530700	processed_transcript	KNOWN	None	12597	None	None	17535988	17542509	-1	DFNB18	PDZ73, harmonin, NY-CO-37, NY-CO-38, PDZ-73, AIE-75, PDZD7C
11	USH1C	ENSG00000006611	ENST00000526181	protein_coding	PUTATIVE	None	12597	953	316	17544430	17555421	-1	DFNB18	PDZ73, harmonin, NY-CO-37, NY-CO-38, PDZ-73, AIE-75, PDZD7C
19	FTL	ENSG00000087086	ENST00000331825	protein_coding	KNOWN	CCDS33070	3999	528	175	49468558	49470135	1	None	MGC71996, NBIA3
13	CENPJ	ENSG00000151849	ENST00000381884	protein_coding	KNOWN	CCDS9310	17272	4017	1338	25457171	25497018	-1	MCPH6	CPAP, BM032, LAP, LIP1, Sas-4, SASS4, SCKL4
13	CENPJ	ENSG00000151849	ENST00000471870	processed_transcript	KNOWN	None	17272	None	None	25458468	25463493	-1	MCPH6	CPAP, BM032, LAP, LIP1, Sas-4, SASS4, SCKL4
13	CENPJ	ENSG00000151849	ENST00000493190	processed_transcript	KNOWN	None	17272	None	None	25459428	25460217	-1	MCPH6	CPAP, BM032, LAP, LIP1, Sas-4, SASS4, SCKL4
13	CENPJ	ENSG00000151849	ENST00000418179	protein_coding	PUTATIVE	None	17272	589	195	25463308	25478132	-1	MCPH6	CPAP, BM032, LAP, LIP1, Sas-4, SASS4, SCKL4
13	CENPJ	ENSG00000151849	ENST00000545981	protein_coding	KNOWN	None	17272	3261	1086	25457178	25496974	-1	MCPH6	CPAP, BM032, LAP, LIP1, Sas-4, SASS4, SCKL4
12	PTMS	ENSG00000159335	ENST00000540667	processed_transcript	KNOWN	None	9629	None	None	6874682	6880041	1	None	ParaT
12	PTMS	ENSG00000159335	ENST00000389462	protein_coding	KNOWN	None	9629	315	104	6875541	6879664	1	None	ParaT
12	PTMS	ENSG00000159335	ENST00000540874	protein_coding	PUTATIVE	None	9629	171	56	6875542	6879063	1	None	ParaT
12	PTMS	ENSG00000159335	ENST00000309083	protein_coding	KNOWN	CCDS8560	9629	309	102	6875543	6880109	1	None	ParaT
12	PTMS	ENSG00000159335	ENST00000540828	processed_transcript	KNOWN	None	9629	None	None	6875897	6879968	1	None	ParaT
12	PTMS	ENSG00000159335	ENST00000538057	processed_transcript	KNOWN	None	9629	None	None	6878219	6880116	1	None	ParaT
2	C2orf54	ENSG00000172478	ENST00000402775	protein_coding	KNOWN	CCDS42840	26216	840	279	241825465	241831452	-1	None	FLJ22671
2	C2orf54	ENSG00000172478	ENST00000307486	protein_coding	KNOWN	None	26216	897	298	241825466	241831455	-1	None	FLJ22671
2	C2orf54	ENSG00000172478	ENST00000388934	protein_coding	KNOWN	CCDS42839	26216	1344	447	241826079	241835573	-1	None	FLJ22671
2	C2orf54	ENSG00000172478	ENST00000414499	protein_coding	KNOWN	None	26216	398	131	241835017	241836306	-1	None	FLJ22671
2	C2orf54	ENSG00000172478	ENST00000454476	protein_coding	PUTATIVE	None	26216	325	107	241835060	241836269	-1	None	FLJ22671
4	None	ENSG00000245293	ENST00000499098	antisense	KNOWN	None	None	None	None	108784635	108853275	-1	None	None
4	None	ENSG00000245293	ENST00000513071	antisense	KNOWN	None	None	None	None	108807873	108899955	-1	None	None
15	None	ENSG00000259586	ENST00000559380	processed_pseudogene	KNOWN	None	None	None	None	101386809	101386972	-1	None	None
5	PKD2L2	ENSG00000078795	ENST00000503015	protein_coding	PUTATIVE	None	9012	548	181	137223657	137241966	1	None	TRPP5
5	PKD2L2	ENSG00000078795	ENST00000508638	protein_coding	NOVEL	CCDS58971	9012	1572	523	137225126	137276173	1	None	TRPP5
5	PKD2L2	ENSG00000078795	ENST00000414094	nonsense_mediated_decay	KNOWN	None	9012	174	57	137225147	137242088	1	None	TRPP5
5	PKD2L2	ENSG00000078795	ENST00000502810	protein_coding	NOVEL	CCDS58972	9012	1809	602	137225150	137276106	1	None	TRPP5
5	PKD2L2	ENSG00000078795	ENST00000508883	protein_coding	KNOWN	None	9012	1875	624	137225155	137278436	1	None	TRPP5
5	PKD2L2	ENSG00000078795	ENST00000290431	protein_coding	KNOWN	CCDS43367	9012	1842	613	137225158	137276173	1	None	TRPP5
5	PKD2L2	ENSG00000078795	ENST00000511176	protein_coding	PUTATIVE	None	9012	252	83	137225653	137230296	1	None	TRPP5
5	PKD2L2	ENSG00000078795	ENST00000350250	protein_coding	KNOWN	None	9012	1773	590	137225125	137272099	1	None	TRPP5
3	HTR3D	ENSG00000186090	ENST00000334128	protein_coding	KNOWN	CCDS3249	24004	840	279	183749332	183757157	1	None	None
3	HTR3D	ENSG00000186090	ENST00000428798	protein_coding	KNOWN	CCDS46966	24004	1215	404	183749530	183756763	1	None	None
3	HTR3D	ENSG00000186090	ENST00000382489	protein_coding	KNOWN	CCDS54685	24004	1365	454	183750619	183757072	1	None	None
3	HTR3D	ENSG00000186090	ENST00000453435	protein_coding	KNOWN	None	24004	702	233	183752892	183756988	1	None	None
1	PIK3CD	ENSG00000171608	ENST00000377346	protein_coding	KNOWN	CCDS104	8977	3135	1044	9711803	9788977	1	None	p110D
1	PIK3CD	ENSG00000171608	ENST00000484851	processed_transcript	KNOWN	None	8977	None	None	9748234	9752004	1	None	p110D
1	PIK3CD	ENSG00000171608	ENST00000361110	protein_coding	NOVEL	None	8977	3207	1068	9770256	9787290	1	None	p110D
1	PIK3CD	ENSG00000171608	ENST00000481137	retained_intron	KNOWN	None	8977	None	None	9775757	9776221	1	None	p110D
1	PIK3CD	ENSG00000171608	ENST00000479223	retained_intron	KNOWN	None	8977	None	None	9776334	9777639	1	None	p110D
1	PIK3CD	ENSG00000171608	ENST00000536656	protein_coding	KNOWN	None	8977	3207	1068	9711790	9789172	1	None	p110D
1	PIK3CD	ENSG00000171608	ENST00000543390	protein_coding	KNOWN	None	8977	960	319	9778127	9782192	1	None	p110D
10	DDIT4	ENSG00000168209	ENST00000307365	protein_coding	KNOWN	CCDS7315	24944	699	232	74033678	74035794	1	None	RTP801, FLJ20500, REDD-1, REDD1, Dig2
10	DDIT4	ENSG00000168209	ENST00000473155	retained_intron	KNOWN	None	24944	None	None	74033683	74034708	1	None	RTP801, FLJ20500, REDD-1, REDD1, Dig2
10	DDIT4	ENSG00000168209	ENST00000471240	retained_intron	KNOWN	None	24944	None	None	74033777	74034393	1	None	RTP801, FLJ20500, REDD-1, REDD1, Dig2
11	KCNK7	ENSG00000173338	ENST00000342202	protein_coding	KNOWN	CCDS8106	6282	759	252	65360326	65363279	-1	None	K2p7.1
11	KCNK7	ENSG00000173338	ENST00000394217	protein_coding	KNOWN	CCDS8106	6282	759	252	65360326	65363467	-1	None	K2p7.1
11	KCNK7	ENSG00000173338	ENST00000394216	protein_coding	KNOWN	CCDS41673	6282	774	257	65360326	65363467	-1	None	K2p7.1
11	KCNK7	ENSG00000173338	ENST00000340313	protein_coding	KNOWN	CCDS31608	6282	924	307	65360326	65363467	-1	None	K2p7.1
11	KCNK7	ENSG00000173338	ENST00000530380	protein_coding	NOVEL	None	6282	217	71	65360337	65360972	-1	None	K2p7.1
11	KCNK7	ENSG00000173338	ENST00000525254	protein_coding	KNOWN	None	6282	85	27	65360340	65360990	-1	None	K2p7.1
7	SLC26A4-AS1	ENSG00000233705	ENST00000591896	antisense	KNOWN	None	22385	None	None	107294421	107302510	-1	None	None
7	SLC26A4-AS1	ENSG00000233705	ENST00000587899	antisense	KNOWN	None	22385	None	None	107294421	107302510	-1	None	None
7	SLC26A4-AS1	ENSG00000233705	ENST00000440512	antisense	KNOWN	None	22385	None	None	107297075	107302156	-1	None	None
7	SLC26A4-AS1	ENSG00000233705	ENST00000449741	antisense	KNOWN	None	22385	None	None	107301746	107302596	-1	None	None
19	None	ENSG00000204666	ENST00000527209	sense_overlapping	KNOWN	None	None	None	None	50553846	50570050	1	None	None
22	None	ENSG00000265610	ENST00000578136	miRNA	NOVEL	None	None	None	None	46372758	46372834	-1	None	None
5	PAPD7	ENSG00000112941	ENST00000230859	protein_coding	KNOWN	CCDS3871	16705	1629	542	6714718	6757161	1	POLS	POLK, TRF4, LAK-1, TRF4-1
5	PAPD7	ENSG00000112941	ENST00000515721	protein_coding	KNOWN	None	16705	81	26	6714745	6737737	1	POLS	POLK, TRF4, LAK-1, TRF4-1
5	PAPD7	ENSG00000112941	ENST00000511764	retained_intron	KNOWN	None	16705	None	None	6746028	6749770	1	POLS	POLK, TRF4, LAK-1, TRF4-1
5	PAPD7	ENSG00000112941	ENST00000514697	retained_intron	KNOWN	None	16705	None	None	6746101	6755599	1	POLS	POLK, TRF4, LAK-1, TRF4-1
5	PAPD7	ENSG00000112941	ENST00000505457	retained_intron	KNOWN	None	16705	None	None	6749668	6750929	1	POLS	POLK, TRF4, LAK-1, TRF4-1
5	PAPD7	ENSG00000112941	ENST00000514410	retained_intron	KNOWN	None	16705	None	None	6750493	6751602	1	POLS	POLK, TRF4, LAK-1, TRF4-1
12	KCNA5	ENSG00000130037	ENST00000252321	protein_coding	KNOWN	CCDS8536	6224	1842	613	5153085	5155949	1	None	Kv1.5, HK2, HPCN1
22	LINC00899	ENSG00000231711	ENST00000421538	processed_transcript	KNOWN	None	48583	None	None	46436146	46440490	-1	None	None
22	LINC00899	ENSG00000231711	ENST00000444890	processed_transcript	KNOWN	None	48583	None	None	46436889	46440733	-1	None	None
4	IL2	ENSG00000109471	ENST00000226730	protein_coding	KNOWN	CCDS3726	6001	462	153	123372625	123377880	-1	None	IL-2, TCGF
4	IL2	ENSG00000109471	ENST00000477645	retained_intron	KNOWN	None	6001	None	None	123372873	123377595	-1	None	IL-2, TCGF
19	None	ENSG00000269540	ENST00000597606	processed_pseudogene	KNOWN	None	None	None	None	50562139	50563489	-1	None	None
11	None	ENSG00000268936	ENST00000597621	protein_coding	KNOWN	None	None	1251	416	134855246	134856693	1	None	None
11	None	ENSG00000253826	ENST00000519787	processed_pseudogene	KNOWN	None	None	None	None	75780	76143	1	None	None
Y	TMSB4Y	ENSG00000154620	ENST00000284856	protein_coding	KNOWN	CCDS14786	11882	135	44	15815447	15817904	1	None	TB4Y
7	None	ENSG00000241764	ENST00000457510	lincRNA	KNOWN	None	None	None	None	107383262	107384573	-1	None	None
7	None	ENSG00000241764	ENST00000440971	processed_transcript	KNOWN	None	None	None	None	107383407	107385026	-1	None	None
8	KNOP1P5	ENSG00000250563	ENST00000358374	processed_pseudogene	KNOWN	None	48923	None	None	127084831	127086475	1	None	None
5	None	ENSG00000254310	ENST00000521306	processed_pseudogene	KNOWN	None	None	None	None	78049419	78049696	1	None	None
22	None	ENSG00000241990	ENST00000416202	processed_transcript	KNOWN	None	None	None	None	46449585	46453090	1	None	None
22	None	ENSG00000241990	ENST00000451166	processed_transcript	KNOWN	None	None	None	None	46450340	46453090	1	None	None
22	None	ENSG00000241990	ENST00000445441	processed_transcript	KNOWN	None	None	None	None	46450795	46453090	1	None	None
10	DCLRE1C	ENSG00000152457	ENST00000378289	protein_coding	PUTATIVE	None	17642	1305	434	14939358	14996431	-1	SCIDA	ARTEMIS, FLJ11360, SNM1C, A-SCID
10	DCLRE1C	ENSG00000152457	ENST00000378246	protein_coding	KNOWN	CCDS7105	17642	1734	577	14949878	14996094	-1	SCIDA	ARTEMIS, FLJ11360, SNM1C, A-SCID
10	DCLRE1C	ENSG00000152457	ENST00000357717	protein_coding	KNOWN	CCDS7105	17642	1734	577	14950165	14996057	-1	SCIDA	ARTEMIS, FLJ11360, SNM1C, A-SCID
10	DCLRE1C	ENSG00000152457	ENST00000378249	protein_coding	KNOWN	CCDS7105	17642	1734	577	14950170	14996047	-1	SCIDA	ARTEMIS, FLJ11360, SNM1C, A-SCID
10	DCLRE1C	ENSG00000152457	ENST00000396817	protein_coding	KNOWN	CCDS31150	17642	1719	572	14950170	14996047	-1	SCIDA	ARTEMIS, FLJ11360, SNM1C, A-SCID
10	DCLRE1C	ENSG00000152457	ENST00000378255	protein_coding	KNOWN	CCDS31150	17642	1719	572	14950170	14996047	-1	SCIDA	ARTEMIS, FLJ11360, SNM1C, A-SCID
10	DCLRE1C	ENSG00000152457	ENST00000378254	protein_coding	KNOWN	CCDS31150	17642	1719	572	14950170	14996047	-1	SCIDA	ARTEMIS, FLJ11360, SNM1C, A-SCID
10	DCLRE1C	ENSG00000152457	ENST00000378278	protein_coding	KNOWN	CCDS31149	17642	2079	692	14950170	14996047	-1	SCIDA	ARTEMIS, FLJ11360, SNM1C, A-SCID
10	DCLRE1C	ENSG00000152457	ENST00000378258	protein_coding	KNOWN	CCDS31150	17642	1719	572	14950170	14996071	-1	SCIDA	ARTEMIS, FLJ11360, SNM1C, A-SCID
10	DCLRE1C	ENSG00000152457	ENST00000378242	protein_coding	KNOWN	None	17642	1038	345	14950187	14965674	-1	SCIDA	ARTEMIS, FLJ11360, SNM1C, A-SCID
10	DCLRE1C	ENSG00000152457	ENST00000492201	processed_transcript	KNOWN	None	17642	None	None	14950741	14970081	-1	SCIDA	ARTEMIS, FLJ11360, SNM1C, A-SCID
10	DCLRE1C	ENSG00000152457	ENST00000489845	processed_transcript	KNOWN	None	17642	None	None	14951169	14953321	-1	SCIDA	ARTEMIS, FLJ11360, SNM1C, A-SCID
10	DCLRE1C	ENSG00000152457	ENST00000489161	processed_transcript	KNOWN	None	17642	None	None	14961795	14970061	-1	SCIDA	ARTEMIS, FLJ11360, SNM1C, A-SCID
10	DCLRE1C	ENSG00000152457	ENST00000418843	protein_coding	KNOWN	None	17642	352	116	14970142	14996030	-1	SCIDA	ARTEMIS, FLJ11360, SNM1C, A-SCID
10	DCLRE1C	ENSG00000152457	ENST00000378241	protein_coding	KNOWN	None	17642	253	83	14976444	14996017	-1	SCIDA	ARTEMIS, FLJ11360, SNM1C, A-SCID
10	DCLRE1C	ENSG00000152457	ENST00000456122	protein_coding	KNOWN	None	17642	172	56	14976722	14996018	-1	SCIDA	ARTEMIS, FLJ11360, SNM1C, A-SCID
10	DCLRE1C	ENSG00000152457	ENST00000453695	protein_coding	KNOWN	CCDS31150	17642	1719	572	14948897	14996094	-1	SCIDA	ARTEMIS, FLJ11360, SNM1C, A-SCID
5	None	ENSG00000214890	ENST00000519677	processed_pseudogene	KNOWN	None	None	None	None	78295935	78296947	-1	None	None
15	SPINT1	ENSG00000166145	ENST00000562057	protein_coding	KNOWN	CCDS45231	11246	1542	513	41136216	41149853	1	None	HAI, MANSC2
15	SPINT1	ENSG00000166145	ENST00000344051	protein_coding	KNOWN	CCDS10067	11246	1590	529	41136216	41150405	1	None	HAI, MANSC2
15	SPINT1	ENSG00000166145	ENST00000568823	protein_coding	NOVEL	None	11246	940	312	41136265	41145981	1	None	HAI, MANSC2
15	SPINT1	ENSG00000166145	ENST00000563656	protein_coding	KNOWN	None	11246	905	300	41136375	41146071	1	None	HAI, MANSC2
15	SPINT1	ENSG00000166145	ENST00000568580	protein_coding	NOVEL	None	11246	1417	471	41136873	41149147	1	None	HAI, MANSC2
15	SPINT1	ENSG00000166145	ENST00000566928	protein_coding	NOVEL	None	11246	720	239	41145394	41149024	1	None	HAI, MANSC2
15	SPINT1	ENSG00000166145	ENST00000564375	protein_coding	NOVEL	None	11246	883	293	41145708	41149165	1	None	HAI, MANSC2
15	SPINT1	ENSG00000166145	ENST00000569589	protein_coding	NOVEL	None	11246	611	202	41146014	41149167	1	None	HAI, MANSC2
15	SPINT1	ENSG00000166145	ENST00000563135	retained_intron	KNOWN	None	11246	None	None	41146408	41149321	1	None	HAI, MANSC2
15	SPINT1	ENSG00000166145	ENST00000566642	retained_intron	KNOWN	None	11246	None	None	41146576	41148219	1	None	HAI, MANSC2
15	SPINT1	ENSG00000166145	ENST00000568200	retained_intron	KNOWN	None	11246	None	None	41147999	41149097	1	None	HAI, MANSC2
15	SPINT1	ENSG00000166145	ENST00000431806	protein_coding	KNOWN	CCDS45231	11246	1542	513	41136643	41149852	1	None	HAI, MANSC2
13	SUPT20H	ENSG00000102710	ENST00000484078	retained_intron	KNOWN	None	20596	None	None	37583449	37599084	-1	C13orf19, FAM48A	SPT20, bA421P11.4, P38IP
13	SUPT20H	ENSG00000102710	ENST00000490716	nonsense_mediated_decay	KNOWN	None	20596	1569	522	37583449	37633588	-1	C13orf19, FAM48A	SPT20, bA421P11.4, P38IP
13	SUPT20H	ENSG00000102710	ENST00000495071	nonsense_mediated_decay	KNOWN	None	20596	1497	498	37583453	37633823	-1	C13orf19, FAM48A	SPT20, bA421P11.4, P38IP
13	SUPT20H	ENSG00000102710	ENST00000360252	protein_coding	KNOWN	CCDS9362	20596	2202	733	37583453	37633850	-1	C13orf19, FAM48A	SPT20, bA421P11.4, P38IP
13	SUPT20H	ENSG00000102710	ENST00000475892	protein_coding	NOVEL	None	20596	2436	811	37583630	37633786	-1	C13orf19, FAM48A	SPT20, bA421P11.4, P38IP
13	SUPT20H	ENSG00000102710	ENST00000472948	retained_intron	KNOWN	None	20596	None	None	37583631	37584989	-1	C13orf19, FAM48A	SPT20, bA421P11.4, P38IP
13	SUPT20H	ENSG00000102710	ENST00000469488	protein_coding	PUTATIVE	None	20596	1135	377	37583631	37600935	-1	C13orf19, FAM48A	SPT20, bA421P11.4, P38IP
13	SUPT20H	ENSG00000102710	ENST00000356185	protein_coding	KNOWN	CCDS9362	20596	2202	733	37583631	37633787	-1	C13orf19, FAM48A	SPT20, bA421P11.4, P38IP
13	SUPT20H	ENSG00000102710	ENST00000350612	protein_coding	KNOWN	CCDS31959	20596	2340	779	37583631	37633823	-1	C13orf19, FAM48A	SPT20, bA421P11.4, P38IP
13	SUPT20H	ENSG00000102710	ENST00000473871	retained_intron	KNOWN	None	20596	None	None	37583634	37588043	-1	C13orf19, FAM48A	SPT20, bA421P11.4, P38IP
13	SUPT20H	ENSG00000102710	ENST00000464744	protein_coding	KNOWN	CCDS9362	20596	2202	733	37583754	37633569	-1	C13orf19, FAM48A	SPT20, bA421P11.4, P38IP
13	SUPT20H	ENSG00000102710	ENST00000466563	processed_transcript	KNOWN	None	20596	None	None	37596360	37602368	-1	C13orf19, FAM48A	SPT20, bA421P11.4, P38IP
13	SUPT20H	ENSG00000102710	ENST00000493537	retained_intron	KNOWN	None	20596	None	None	37597686	37625696	-1	C13orf19, FAM48A	SPT20, bA421P11.4, P38IP
13	SUPT20H	ENSG00000102710	ENST00000476539	processed_transcript	KNOWN	None	20596	None	None	37598271	37602445	-1	C13orf19, FAM48A	SPT20, bA421P11.4, P38IP
13	SUPT20H	ENSG00000102710	ENST00000490602	processed_transcript	KNOWN	None	20596	None	None	37598288	37607616	-1	C13orf19, FAM48A	SPT20, bA421P11.4, P38IP
13	SUPT20H	ENSG00000102710	ENST00000478911	retained_intron	KNOWN	None	20596	None	None	37599967	37602441	-1	C13orf19, FAM48A	SPT20, bA421P11.4, P38IP
13	SUPT20H	ENSG00000102710	ENST00000464572	retained_intron	KNOWN	None	20596	None	None	37612172	37633776	-1	C13orf19, FAM48A	SPT20, bA421P11.4, P38IP
13	SUPT20H	ENSG00000102710	ENST00000483241	processed_transcript	KNOWN	None	20596	None	None	37614541	37622737	-1	C13orf19, FAM48A	SPT20, bA421P11.4, P38IP
13	SUPT20H	ENSG00000102710	ENST00000476109	processed_transcript	KNOWN	None	20596	None	None	37614541	37633776	-1	C13orf19, FAM48A	SPT20, bA421P11.4, P38IP
13	SUPT20H	ENSG00000102710	ENST00000497318	protein_coding	PUTATIVE	None	20596	570	189	37614542	37633766	-1	C13orf19, FAM48A	SPT20, bA421P11.4, P38IP
13	SUPT20H	ENSG00000102710	ENST00000470359	processed_transcript	KNOWN	None	20596	None	None	37614554	37633776	-1	C13orf19, FAM48A	SPT20, bA421P11.4, P38IP
13	SUPT20H	ENSG00000102710	ENST00000471868	retained_intron	KNOWN	None	20596	None	None	37621001	37622074	-1	C13orf19, FAM48A	SPT20, bA421P11.4, P38IP
13	SUPT20H	ENSG00000102710	ENST00000488590	processed_transcript	KNOWN	None	20596	None	None	37625679	37633605	-1	C13orf19, FAM48A	SPT20, bA421P11.4, P38IP
13	SUPT20H	ENSG00000102710	ENST00000542180	protein_coding	KNOWN	None	20596	1497	498	37596826	37633825	-1	C13orf19, FAM48A	SPT20, bA421P11.4, P38IP
Y	VCY	ENSG00000129864	ENST00000250825	protein_coding	KNOWN	CCDS56617	12668	378	125	16097652	16098393	-1	None	BPY1, VCY1A, VCY1
6	EPHA7	ENSG00000135333	ENST00000369303	protein_coding	KNOWN	CCDS5031	3390	2997	998	93949738	94129244	-1	None	Hek11
6	EPHA7	ENSG00000135333	ENST00000369297	protein_coding	KNOWN	None	3390	840	279	94119372	94129265	-1	None	Hek11
22	None	ENSG00000231010	ENST00000439423	lincRNA	KNOWN	None	None	None	None	46451620	46454040	-1	None	None
12	None	ENSG00000257611	ENST00000548943	processed_pseudogene	KNOWN	None	None	None	None	106563782	106566215	1	None	None
12	GLS2	ENSG00000135423	ENST00000390288	retained_intron	KNOWN	None	29570	None	None	56864736	56866256	-1	None	GA, GLS, LGA, hLGA
12	GLS2	ENSG00000135423	ENST00000424141	nonsense_mediated_decay	KNOWN	None	29570	534	177	56864736	56881913	-1	None	GA, GLS, LGA, hLGA
12	GLS2	ENSG00000135423	ENST00000479952	nonsense_mediated_decay	KNOWN	None	29570	474	157	56864736	56881936	-1	None	GA, GLS, LGA, hLGA
12	GLS2	ENSG00000135423	ENST00000311966	protein_coding	KNOWN	CCDS8921	29570	1809	602	56864736	56882181	-1	None	GA, GLS, LGA, hLGA
12	GLS2	ENSG00000135423	ENST00000486433	nonsense_mediated_decay	KNOWN	None	29570	984	327	56864738	56882181	-1	None	GA, GLS, LGA, hLGA
12	GLS2	ENSG00000135423	ENST00000476991	processed_transcript	KNOWN	None	29570	None	None	56867349	56870777	-1	None	GA, GLS, LGA, hLGA
12	GLS2	ENSG00000135423	ENST00000496006	retained_intron	KNOWN	None	29570	None	None	56868190	56871484	-1	None	GA, GLS, LGA, hLGA
12	GLS2	ENSG00000135423	ENST00000486896	nonsense_mediated_decay	KNOWN	None	29570	630	209	56868475	56882033	-1	None	GA, GLS, LGA, hLGA
12	GLS2	ENSG00000135423	ENST00000494474	nonsense_mediated_decay	KNOWN	None	29570	312	103	56868639	56882152	-1	None	GA, GLS, LGA, hLGA
12	GLS2	ENSG00000135423	ENST00000461077	protein_coding	NOVEL	None	29570	553	183	56868838	56881916	-1	None	GA, GLS, LGA, hLGA
12	GLS2	ENSG00000135423	ENST00000494345	retained_intron	KNOWN	None	29570	None	None	56869606	56882143	-1	None	GA, GLS, LGA, hLGA
12	GLS2	ENSG00000135423	ENST00000483347	nonsense_mediated_decay	KNOWN	None	29570	189	62	56871979	56882198	-1	None	GA, GLS, LGA, hLGA
12	GLS2	ENSG00000135423	ENST00000471282	retained_intron	KNOWN	None	29570	None	None	56873353	56882146	-1	None	GA, GLS, LGA, hLGA
12	GLS2	ENSG00000135423	ENST00000491880	retained_intron	KNOWN	None	29570	None	None	56873377	56881383	-1	None	GA, GLS, LGA, hLGA
12	GLS2	ENSG00000135423	ENST00000539272	protein_coding	KNOWN	None	29570	534	177	56871742	56881902	-1	None	GA, GLS, LGA, hLGA
4	BANK1	ENSG00000153064	ENST00000502990	processed_transcript	KNOWN	None	18233	None	None	102332443	102348797	1	None	BANK, FLJ20706
4	BANK1	ENSG00000153064	ENST00000504592	protein_coding	KNOWN	None	18233	2313	770	102341118	102995969	1	None	BANK, FLJ20706
4	BANK1	ENSG00000153064	ENST00000322953	protein_coding	KNOWN	CCDS34038	18233	2358	785	102711764	102995896	1	None	BANK, FLJ20706
4	BANK1	ENSG00000153064	ENST00000508653	protein_coding	KNOWN	CCDS47115	18233	1959	652	102711887	102994905	1	None	BANK, FLJ20706
4	BANK1	ENSG00000153064	ENST00000444316	protein_coding	KNOWN	CCDS47116	18233	2268	755	102734983	102995896	1	None	BANK, FLJ20706
4	BANK1	ENSG00000153064	ENST00000510950	processed_transcript	KNOWN	None	18233	None	None	102903020	102951232	1	None	BANK, FLJ20706
4	BANK1	ENSG00000153064	ENST00000504403	retained_intron	KNOWN	None	18233	None	None	102982573	102995377	1	None	BANK, FLJ20706
4	BANK1	ENSG00000153064	ENST00000428908	protein_coding	KNOWN	CCDS47115	18233	1959	652	102711764	102995967	1	None	BANK, FLJ20706
16	VN1R67P	ENSG00000260722	ENST00000568379	unitary_pseudogene	KNOWN	None	37387	None	None	31812906	31813818	-1	None	None
19	KLK14	ENSG00000129437	ENST00000156499	protein_coding	KNOWN	CCDS12823	6362	804	267	51580752	51587502	-1	None	KLK-L6
19	KLK14	ENSG00000129437	ENST00000391802	protein_coding	KNOWN	CCDS12823	6362	804	267	51581154	51587502	-1	None	KLK-L6
12	None	ENSG00000258355	ENST00000552486	processed_transcript	PUTATIVE	None	None	None	None	106639391	106640734	-1	None	None
6	HLA-DQA1	ENSG00000196735	ENST00000422863	protein_coding	KNOWN	None	4942	73	23	32595956	32605308	1	HLA-DQA	CELIAC1
6	HLA-DQA1	ENSG00000196735	ENST00000343139	protein_coding	KNOWN	CCDS4752	4942	768	255	32605134	32611429	1	HLA-DQA	CELIAC1
6	HLA-DQA1	ENSG00000196735	ENST00000395363	protein_coding	KNOWN	CCDS4752	4942	768	255	32605178	32611429	1	HLA-DQA	CELIAC1
6	HLA-DQA1	ENSG00000196735	ENST00000496318	protein_coding	PUTATIVE	None	4942	643	213	32605183	32610758	1	HLA-DQA	CELIAC1
6	HLA-DQA1	ENSG00000196735	ENST00000374949	protein_coding	KNOWN	CCDS4752	4942	768	255	32605197	32610794	1	HLA-DQA	CELIAC1
6	HLA-DQA1	ENSG00000196735	ENST00000482745	nonsense_mediated_decay	KNOWN	None	4942	162	53	32605204	32611049	1	HLA-DQA	CELIAC1
6	HLA-DQA1	ENSG00000196735	ENST00000460633	retained_intron	KNOWN	None	4942	None	None	32605208	32614839	1	HLA-DQA	CELIAC1
16	None	ENSG00000261457	ENST00000563575	processed_transcript	KNOWN	None	None	None	None	31814268	31819294	1	None	None
16	None	ENSG00000261457	ENST00000569756	processed_transcript	KNOWN	None	None	None	None	31814284	31817242	1	None	None
16	None	ENSG00000261457	ENST00000567043	transcribed_processed_pseudogene	KNOWN	None	None	None	None	31817187	31818023	1	None	None
16	None	ENSG00000261457	ENST00000537023	processed_pseudogene	KNOWN	None	None	None	None	31817282	31817353	1	None	None
Y	VCY1B	ENSG00000129862	ENST00000250823	protein_coding	KNOWN	CCDS56618	31751	378	125	16168097	16168838	1	None	BPY1B
20	STMN3	ENSG00000197457	ENST00000370053	protein_coding	KNOWN	CCDS13529	15926	543	180	62271061	62284780	-1	None	SCLIP
20	STMN3	ENSG00000197457	ENST00000540534	protein_coding	KNOWN	None	15926	510	169	62272439	62284119	-1	None	SCLIP
3	EAF1	ENSG00000144597	ENST00000396842	protein_coding	KNOWN	CCDS2626	20907	807	268	15468862	15484120	1	None	None
3	EAF1	ENSG00000144597	ENST00000449565	nonsense_mediated_decay	KNOWN	None	20907	204	67	15469105	15480847	1	None	None
3	EAF1	ENSG00000144597	ENST00000432764	protein_coding	KNOWN	None	20907	504	167	15469105	15480847	1	None	None
19	RPS15	ENSG00000115268	ENST00000233609	protein_coding	PUTATIVE	None	10388	357	118	1438358	1440493	1	None	RIG, MGC111130, S15
19	RPS15	ENSG00000115268	ENST00000586686	protein_coding	KNOWN	CCDS12067	10388	438	145	1438386	1440583	1	None	RIG, MGC111130, S15
19	RPS15	ENSG00000115268	ENST00000591032	protein_coding	PUTATIVE	None	10388	339	112	1438399	1440489	1	None	RIG, MGC111130, S15
19	RPS15	ENSG00000115268	ENST00000592623	nonsense_mediated_decay	KNOWN	None	10388	237	78	1438400	1440492	1	None	RIG, MGC111130, S15
19	RPS15	ENSG00000115268	ENST00000586656	protein_coding	PUTATIVE	None	10388	205	67	1438404	1440232	1	None	RIG, MGC111130, S15
19	RPS15	ENSG00000115268	ENST00000589656	protein_coding	NOVEL	None	10388	426	141	1438404	1440482	1	None	RIG, MGC111130, S15
19	RPS15	ENSG00000115268	ENST00000593052	protein_coding	PUTATIVE	None	10388	459	152	1438418	1440493	1	None	RIG, MGC111130, S15
19	RPS15	ENSG00000115268	ENST00000586096	protein_coding	PUTATIVE	None	10388	390	129	1438419	1440493	1	None	RIG, MGC111130, S15
19	RPS15	ENSG00000115268	ENST00000591804	protein_coding	PUTATIVE	None	10388	339	112	1438419	1440493	1	None	RIG, MGC111130, S15
19	RPS15	ENSG00000115268	ENST00000592700	retained_intron	KNOWN	None	10388	None	None	1438789	1440493	1	None	RIG, MGC111130, S15
19	RPS15	ENSG00000115268	ENST00000585665	protein_coding	PUTATIVE	None	10388	339	112	1438806	1440493	1	None	RIG, MGC111130, S15
19	RPS15	ENSG00000115268	ENST00000592588	nonsense_mediated_decay	KNOWN	None	10388	87	28	1438806	1440493	1	None	RIG, MGC111130, S15
11	None	ENSG00000263906	ENST00000583165	lincRNA	KNOWN	None	None	None	None	125797011	125798724	1	None	None
4	DUX4L6	ENSG00000258697	ENST00000605381	protein_coding	PUTATIVE	None	37265	492	163	190995680	190997190	1	None	None
4	DUX4L6	ENSG00000258697	ENST00000553722	protein_coding	KNOWN	None	37265	1275	424	190995680	190997190	1	None	None
4	DUX4L6	ENSG00000258697	ENST00000555191	protein_coding	KNOWN	None	37265	1458	485	190995380	190996996	1	None	None
5	RN7SKP232	ENSG00000222102	ENST00000410170	misc_RNA	KNOWN	None	45956	None	None	151083850	151084139	-1	None	None
14	None	ENSG00000259133	ENST00000554597	protein_coding	PUTATIVE	None	None	123	40	57115683	57197224	-1	None	None
14	None	ENSG00000259133	ENST00000556696	protein_coding	PUTATIVE	None	None	123	40	57189855	57197253	-1	None	None
5	None	ENSG00000272112	ENST00000607135	lincRNA	KNOWN	None	None	None	None	151104392	151104917	-1	None	None
10	WAC	ENSG00000095787	ENST00000375664	protein_coding	KNOWN	None	17327	1809	602	28821422	28909928	1	None	Wwp4, FLJ31290, PRO1741, BM-016, MGC10753
10	WAC	ENSG00000095787	ENST00000526722	protein_coding	KNOWN	None	17327	108	35	28821702	28824655	1	None	Wwp4, FLJ31290, PRO1741, BM-016, MGC10753
10	WAC	ENSG00000095787	ENST00000528491	processed_transcript	KNOWN	None	17327	None	None	28821705	28824889	1	None	Wwp4, FLJ31290, PRO1741, BM-016, MGC10753
10	WAC	ENSG00000095787	ENST00000532233	processed_transcript	KNOWN	None	17327	None	None	28821708	28826593	1	None	Wwp4, FLJ31290, PRO1741, BM-016, MGC10753
10	WAC	ENSG00000095787	ENST00000375646	protein_coding	KNOWN	None	17327	1488	495	28821713	28908905	1	None	Wwp4, FLJ31290, PRO1741, BM-016, MGC10753
10	WAC	ENSG00000095787	ENST00000347934	protein_coding	KNOWN	CCDS7160	17327	1635	544	28822242	28909472	1	None	Wwp4, FLJ31290, PRO1741, BM-016, MGC10753
10	WAC	ENSG00000095787	ENST00000354911	protein_coding	KNOWN	CCDS7159	17327	1944	647	28822348	28909472	1	None	Wwp4, FLJ31290, PRO1741, BM-016, MGC10753
10	WAC	ENSG00000095787	ENST00000420266	protein_coding	KNOWN	None	17327	613	203	28822435	28884799	1	None	Wwp4, FLJ31290, PRO1741, BM-016, MGC10753
10	WAC	ENSG00000095787	ENST00000424454	nonsense_mediated_decay	KNOWN	None	17327	105	34	28822469	28899639	1	None	Wwp4, FLJ31290, PRO1741, BM-016, MGC10753
10	WAC	ENSG00000095787	ENST00000530865	retained_intron	KNOWN	None	17327	None	None	28822526	28824897	1	None	Wwp4, FLJ31290, PRO1741, BM-016, MGC10753
10	WAC	ENSG00000095787	ENST00000442148	protein_coding	KNOWN	None	17327	520	172	28822678	28884706	1	None	Wwp4, FLJ31290, PRO1741, BM-016, MGC10753
10	WAC	ENSG00000095787	ENST00000448193	protein_coding	KNOWN	None	17327	177	58	28822692	28872365	1	None	Wwp4, FLJ31290, PRO1741, BM-016, MGC10753
10	WAC	ENSG00000095787	ENST00000414108	protein_coding	KNOWN	None	17327	699	232	28823052	28884885	1	None	Wwp4, FLJ31290, PRO1741, BM-016, MGC10753
10	WAC	ENSG00000095787	ENST00000439676	nonsense_mediated_decay	KNOWN	None	17327	1311	436	28824195	28908908	1	None	Wwp4, FLJ31290, PRO1741, BM-016, MGC10753
10	WAC	ENSG00000095787	ENST00000345541	retained_intron	KNOWN	None	17327	None	None	28824615	28908889	1	None	Wwp4, FLJ31290, PRO1741, BM-016, MGC10753
10	WAC	ENSG00000095787	ENST00000472862	retained_intron	KNOWN	None	17327	None	None	28877666	28880762	1	None	Wwp4, FLJ31290, PRO1741, BM-016, MGC10753
10	WAC	ENSG00000095787	ENST00000476046	retained_intron	KNOWN	None	17327	None	None	28884856	28897522	1	None	Wwp4, FLJ31290, PRO1741, BM-016, MGC10753
10	WAC	ENSG00000095787	ENST00000495268	retained_intron	KNOWN	None	17327	None	None	28897275	28900520	1	None	Wwp4, FLJ31290, PRO1741, BM-016, MGC10753
10	WAC	ENSG00000095787	ENST00000480474	retained_intron	KNOWN	None	17327	None	None	28903928	28906970	1	None	Wwp4, FLJ31290, PRO1741, BM-016, MGC10753
10	WAC	ENSG00000095787	ENST00000428935	protein_coding	KNOWN	None	17327	1311	436	28822424	28900341	1	None	Wwp4, FLJ31290, PRO1741, BM-016, MGC10753
5	None	ENSG00000253921	ENST00000518182	antisense	KNOWN	None	None	None	None	151133553	151146808	1	None	None
12	EP400NL	ENSG00000185684	ENST00000446190	nonsense_mediated_decay	KNOWN	None	26602	1467	488	132568828	132608125	1	None	FLJ33915
12	EP400NL	ENSG00000185684	ENST00000537558	processed_transcript	KNOWN	None	26602	None	None	132568830	132570039	1	None	FLJ33915
12	EP400NL	ENSG00000185684	ENST00000539351	processed_transcript	KNOWN	None	26602	None	None	132568835	132570054	1	None	FLJ33915
12	EP400NL	ENSG00000185684	ENST00000454179	protein_coding	KNOWN	None	26602	670	222	132568858	132589442	1	None	FLJ33915
12	EP400NL	ENSG00000185684	ENST00000488030	processed_transcript	KNOWN	None	26602	None	None	132568858	132610742	1	None	FLJ33915
12	EP400NL	ENSG00000185684	ENST00000389560	protein_coding	KNOWN	None	26602	1260	419	132568865	132593444	1	None	FLJ33915
12	EP400NL	ENSG00000185684	ENST00000443539	protein_coding	KNOWN	None	26602	1071	356	132568876	132593443	1	None	FLJ33915
12	EP400NL	ENSG00000185684	ENST00000392352	protein_coding	KNOWN	None	26602	1071	356	132569025	132593444	1	None	FLJ33915
12	EP400NL	ENSG00000185684	ENST00000407361	protein_coding	KNOWN	None	26602	653	216	132569594	132589614	1	None	FLJ33915
12	EP400NL	ENSG00000185684	ENST00000539205	protein_coding	KNOWN	None	26602	468	155	132569771	132589240	1	None	FLJ33915
12	EP400NL	ENSG00000185684	ENST00000332441	nonsense_mediated_decay	KNOWN	None	26602	1293	430	132575196	132610885	1	None	FLJ33915
12	EP400NL	ENSG00000185684	ENST00000475841	processed_transcript	KNOWN	None	26602	None	None	132602691	132613029	1	None	FLJ33915
12	EP400NL	ENSG00000185684	ENST00000376625	protein_coding	KNOWN	None	26602	1467	488	132588540	132608125	1	None	FLJ33915
12	EP400NL	ENSG00000185684	ENST00000361109	protein_coding	KNOWN	None	26602	1038	345	132575196	132610885	1	None	FLJ33915
12	RNU7-94P	ENSG00000238609	ENST00000459576	snRNA	KNOWN	None	45628	None	None	106676705	106676767	-1	None	None
17	SDF2	ENSG00000132581	ENST00000247020	protein_coding	KNOWN	CCDS11238	10675	636	211	26975374	26989193	-1	None	None
17	SDF2	ENSG00000132581	ENST00000585749	processed_transcript	KNOWN	None	10675	None	None	26975607	26989198	-1	None	None
17	SDF2	ENSG00000132581	ENST00000592250	processed_transcript	KNOWN	None	10675	None	None	26975607	26989203	-1	None	None
17	SDF2	ENSG00000132581	ENST00000587788	protein_coding	PUTATIVE	None	10675	151	49	26975761	26982353	-1	None	None
17	SDF2	ENSG00000132581	ENST00000588472	processed_transcript	KNOWN	None	10675	None	None	26975761	26989150	-1	None	None
17	SDF2	ENSG00000132581	ENST00000587629	processed_transcript	KNOWN	None	10675	None	None	26975860	26984857	-1	None	None
17	SDF2	ENSG00000132581	ENST00000591903	nonsense_mediated_decay	KNOWN	None	10675	315	104	26975943	26988837	-1	None	None
17	SDF2	ENSG00000132581	ENST00000589788	retained_intron	KNOWN	None	10675	None	None	26975989	26983340	-1	None	None
17	SDF2	ENSG00000132581	ENST00000587338	processed_transcript	KNOWN	None	10675	None	None	26976145	26989207	-1	None	None
17	SDF2	ENSG00000132581	ENST00000585428	processed_transcript	KNOWN	None	10675	None	None	26987506	26988934	-1	None	None
16	None	ENSG00000239172	ENST00000459269	snoRNA	NOVEL	None	None	None	None	22492795	22492898	1	None	None
7	GJC3	ENSG00000176402	ENST00000312891	protein_coding	KNOWN	CCDS34697	17495	840	279	99520892	99527243	-1	GJE1	CX30.2
20	C20orf196	ENSG00000171984	ENST00000378979	protein_coding	KNOWN	None	26318	189	62	5731039	5754093	1	None	FLJ25067
20	C20orf196	ENSG00000171984	ENST00000303142	protein_coding	KNOWN	CCDS13091	26318	618	205	5731043	5844558	1	None	FLJ25067
20	C20orf196	ENSG00000171984	ENST00000445603	protein_coding	KNOWN	None	26318	363	120	5731083	5843854	1	None	FLJ25067
20	C20orf196	ENSG00000171984	ENST00000442185	protein_coding	KNOWN	None	26318	600	199	5731099	5843950	1	None	FLJ25067
3	DHX36	ENSG00000174953	ENST00000496811	protein_coding	KNOWN	CCDS3171	14410	3027	1008	153990335	154042286	-1	DDX36	MLEL1, KIAA1488
3	DHX36	ENSG00000174953	ENST00000308361	protein_coding	KNOWN	None	14410	2940	979	153993457	154042249	-1	DDX36	MLEL1, KIAA1488
3	DHX36	ENSG00000174953	ENST00000495598	retained_intron	KNOWN	None	14410	None	None	153993818	153995624	-1	DDX36	MLEL1, KIAA1488
3	DHX36	ENSG00000174953	ENST00000329463	protein_coding	KNOWN	CCDS54657	14410	2985	994	153993960	154042205	-1	DDX36	MLEL1, KIAA1488
3	DHX36	ENSG00000174953	ENST00000477549	retained_intron	KNOWN	None	14410	None	None	153994342	153995683	-1	DDX36	MLEL1, KIAA1488
3	DHX36	ENSG00000174953	ENST00000479934	nonsense_mediated_decay	KNOWN	None	14410	360	119	153995414	154002776	-1	DDX36	MLEL1, KIAA1488
3	DHX36	ENSG00000174953	ENST00000481941	protein_coding	PUTATIVE	None	14410	2393	796	153995424	154037073	-1	DDX36	MLEL1, KIAA1488
3	DHX36	ENSG00000174953	ENST00000460695	retained_intron	KNOWN	None	14410	None	None	153996284	154001007	-1	DDX36	MLEL1, KIAA1488
3	DHX36	ENSG00000174953	ENST00000469977	protein_coding	NOVEL	None	14410	562	186	154002442	154013116	-1	DDX36	MLEL1, KIAA1488
3	DHX36	ENSG00000174953	ENST00000481332	retained_intron	KNOWN	None	14410	None	None	154002570	154010367	-1	DDX36	MLEL1, KIAA1488
3	DHX36	ENSG00000174953	ENST00000460875	retained_intron	KNOWN	None	14410	None	None	154021133	154023126	-1	DDX36	MLEL1, KIAA1488
3	DHX36	ENSG00000174953	ENST00000462464	retained_intron	KNOWN	None	14410	None	None	154027585	154030037	-1	DDX36	MLEL1, KIAA1488
3	DHX36	ENSG00000174953	ENST00000491011	retained_intron	KNOWN	None	14410	None	None	154032440	154042040	-1	DDX36	MLEL1, KIAA1488
3	DHX36	ENSG00000174953	ENST00000544526	protein_coding	KNOWN	None	14410	2985	994	153993458	154042286	-1	DDX36	MLEL1, KIAA1488
12	None	ENSG00000257711	ENST00000547531	processed_transcript	KNOWN	None	None	None	None	107074536	107078478	-1	None	None
15	None	ENSG00000232386	ENST00000557962	lincRNA	KNOWN	None	None	None	None	101389766	101400242	1	None	None
15	None	ENSG00000232386	ENST00000561231	lincRNA	KNOWN	None	None	None	None	101389979	101401961	1	None	None
15	None	ENSG00000232386	ENST00000559331	lincRNA	KNOWN	None	None	None	None	101389980	101400459	1	None	None
15	None	ENSG00000232386	ENST00000558254	lincRNA	KNOWN	None	None	None	None	101389988	101396267	1	None	None
15	None	ENSG00000232386	ENST00000431060	lincRNA	KNOWN	None	None	None	None	101390036	101404501	1	None	None
15	None	ENSG00000232386	ENST00000558427	lincRNA	KNOWN	None	None	None	None	101390469	101400221	1	None	None
15	None	ENSG00000232386	ENST00000593314	lincRNA	KNOWN	None	None	None	None	101401776	101402376	1	None	None
16	None	ENSG00000257838	ENST00000550753	processed_transcript	KNOWN	None	None	None	None	22557019	22588186	1	None	None
16	None	ENSG00000257838	ENST00000548889	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	22558285	22588003	1	None	None
17	ULK2	ENSG00000083290	ENST00000570983	retained_intron	KNOWN	None	13480	None	None	19674142	19677237	-1	None	KIAA0623, Unc51.2, ATG1B
17	ULK2	ENSG00000083290	ENST00000361658	protein_coding	KNOWN	CCDS11213	13480	3111	1036	19674143	19771249	-1	None	KIAA0623, Unc51.2, ATG1B
17	ULK2	ENSG00000083290	ENST00000395544	protein_coding	KNOWN	CCDS11213	13480	3111	1036	19677263	19771230	-1	None	KIAA0623, Unc51.2, ATG1B
17	ULK2	ENSG00000083290	ENST00000571454	retained_intron	KNOWN	None	13480	None	None	19684399	19687373	-1	None	KIAA0623, Unc51.2, ATG1B
17	ULK2	ENSG00000083290	ENST00000575432	protein_coding	NOVEL	None	13480	594	197	19685202	19699440	-1	None	KIAA0623, Unc51.2, ATG1B
17	ULK2	ENSG00000083290	ENST00000571137	retained_intron	KNOWN	None	13480	None	None	19685274	19699602	-1	None	KIAA0623, Unc51.2, ATG1B
17	ULK2	ENSG00000083290	ENST00000580130	processed_transcript	KNOWN	None	13480	None	None	19700888	19741817	-1	None	KIAA0623, Unc51.2, ATG1B
17	ULK2	ENSG00000083290	ENST00000574854	processed_transcript	KNOWN	None	13480	None	None	19708040	19714550	-1	None	KIAA0623, Unc51.2, ATG1B
17	ULK2	ENSG00000083290	ENST00000571177	processed_transcript	KNOWN	None	13480	None	None	19719779	19746451	-1	None	KIAA0623, Unc51.2, ATG1B
17	ULK2	ENSG00000083290	ENST00000574732	nonsense_mediated_decay	KNOWN	None	13480	64	20	19741843	19752692	-1	None	KIAA0623, Unc51.2, ATG1B
17	ULK2	ENSG00000083290	ENST00000580118	nonsense_mediated_decay	KNOWN	None	13480	148	48	19744853	19768149	-1	None	KIAA0623, Unc51.2, ATG1B
5	None	ENSG00000248779	ENST00000511712	lincRNA	KNOWN	None	None	None	None	44753051	44765846	1	None	None
2	None	ENSG00000226321	ENST00000427156	protein_coding	PUTATIVE	None	None	810	269	241858202	241870545	1	None	None
2	None	ENSG00000226321	ENST00000545144	protein_coding	PUTATIVE	None	None	803	266	241871735	241873851	1	None	None
2	None	ENSG00000226321	ENST00000477311	retained_intron	KNOWN	None	None	None	None	241871936	241872734	1	None	None
2	None	ENSG00000226321	ENST00000440780	protein_coding	PUTATIVE	None	None	559	185	241873864	241885628	1	None	None
2	None	ENSG00000226321	ENST00000420530	protein_coding	PUTATIVE	None	None	486	161	241885626	241889902	1	None	None
2	None	ENSG00000226321	ENST00000480779	retained_intron	KNOWN	None	None	None	None	241889072	241890346	1	None	None
2	None	ENSG00000226321	ENST00000442811	protein_coding	PUTATIVE	None	None	747	248	241898798	241905219	1	None	None
2	None	ENSG00000226321	ENST00000443866	protein_coding	PUTATIVE	None	None	729	242	241906849	241932728	1	None	None
2	None	ENSG00000226321	ENST00000430980	protein_coding	KNOWN	None	None	3060	1019	241861986	241904043	1	None	None
12	TSPAN19	ENSG00000231738	ENST00000525452	protein_coding	NOVEL	None	31886	209	68	85408094	85411374	-1	None	None
12	TSPAN19	ENSG00000231738	ENST00000529820	retained_intron	KNOWN	None	31886	None	None	85408096	85410080	-1	None	None
12	TSPAN19	ENSG00000231738	ENST00000532498	protein_coding	KNOWN	CCDS44949	31886	747	248	85408096	85430035	-1	None	None
12	TSPAN19	ENSG00000231738	ENST00000532628	retained_intron	KNOWN	None	31886	None	None	85408097	85430055	-1	None	None
12	TSPAN19	ENSG00000231738	ENST00000433494	nonsense_mediated_decay	KNOWN	None	31886	162	53	85411269	85430055	-1	None	None
12	TSPAN19	ENSG00000231738	ENST00000547403	processed_transcript	KNOWN	None	31886	None	None	85411288	85430031	-1	None	None
12	TSPAN19	ENSG00000231738	ENST00000552392	nonsense_mediated_decay	KNOWN	None	31886	480	159	85411339	85430030	-1	None	None
12	TSPAN19	ENSG00000231738	ENST00000547836	protein_coding	KNOWN	None	31886	264	87	85421677	85430029	-1	None	None
14	OTX2	ENSG00000165588	ENST00000339475	protein_coding	KNOWN	CCDS9728	8522	894	297	57267425	57277187	-1	None	None
14	OTX2	ENSG00000165588	ENST00000408990	protein_coding	KNOWN	CCDS41960	8522	870	289	57268448	57272381	-1	None	None
14	OTX2	ENSG00000165588	ENST00000555006	protein_coding	KNOWN	CCDS41960	8522	870	289	57268453	57277166	-1	None	None
14	OTX2	ENSG00000165588	ENST00000554788	protein_coding	NOVEL	None	8522	108	35	57268528	57272366	-1	None	None
14	OTX2	ENSG00000165588	ENST00000554845	protein_coding	KNOWN	None	8522	716	237	57268631	57272366	-1	None	None
14	OTX2	ENSG00000165588	ENST00000554559	protein_coding	NOVEL	None	8522	108	35	57268743	57277197	-1	None	None
14	OTX2	ENSG00000165588	ENST00000555804	protein_coding	KNOWN	None	8522	490	162	57268833	57277197	-1	None	None
HSCHR6_MHC_MCF	ZNRD1	ENSG00000236808	ENST00000466296	retained_intron	KNOWN	None	13182	None	None	30105180	30111187	1	None	hZR14, HTEX-6, tctex-6, RPA12
HSCHR6_MHC_MCF	ZNRD1	ENSG00000236808	ENST00000432904	protein_coding	KNOWN	None	13182	381	126	30107535	30111187	1	None	hZR14, HTEX-6, tctex-6, RPA12
HSCHR6_MHC_MCF	ZNRD1	ENSG00000236808	ENST00000420100	protein_coding	KNOWN	None	13182	381	126	30107538	30111187	1	None	hZR14, HTEX-6, tctex-6, RPA12
HSCHR6_MHC_MCF	ZNRD1	ENSG00000236808	ENST00000432227	protein_coding	KNOWN	None	13182	381	126	30107540	30111187	1	None	hZR14, HTEX-6, tctex-6, RPA12
HSCHR6_MHC_MCF	ZNRD1	ENSG00000236808	ENST00000444027	protein_coding	KNOWN	None	13182	381	126	30107544	30111187	1	None	hZR14, HTEX-6, tctex-6, RPA12
HSCHR6_MHC_MCF	ZNRD1	ENSG00000236808	ENST00000476397	processed_transcript	KNOWN	None	13182	None	None	30107611	30111187	1	None	hZR14, HTEX-6, tctex-6, RPA12
7	C7orf34	ENSG00000165131	ENST00000458732	protein_coding	PUTATIVE	None	21750	460	152	142636440	142637931	1	None	CTM-1
7	C7orf34	ENSG00000165131	ENST00000409607	protein_coding	KNOWN	CCDS5876	21750	444	147	142636603	142637955	1	None	CTM-1
16	None	ENSG00000260184	ENST00000569247	processed_pseudogene	KNOWN	None	None	None	None	48883830	48883926	-1	None	None
15	None	ENSG00000259604	ENST00000558475	lincRNA	KNOWN	None	None	None	None	101402048	101414067	1	None	None
15	None	ENSG00000259604	ENST00000558641	lincRNA	KNOWN	None	None	None	None	101402048	101414195	1	None	None
15	None	ENSG00000259604	ENST00000559673	lincRNA	KNOWN	None	None	None	None	101402054	101407698	1	None	None
9	RN7SKP24	ENSG00000251697	ENST00000515888	misc_RNA	KNOWN	None	45748	None	None	34478620	34478903	1	None	None
18	KCNG2	ENSG00000178342	ENST00000316249	protein_coding	KNOWN	CCDS12019	6249	1401	466	77623668	77659816	1	None	Kv6.2, KCNF2
18	KCNG2	ENSG00000178342	ENST00000590307	processed_transcript	PUTATIVE	None	6249	None	None	77635884	77660184	1	None	Kv6.2, KCNF2
16	None	ENSG00000260067	ENST00000570218	processed_pseudogene	KNOWN	None	None	None	None	49100478	49100640	-1	None	None
9	None	ENSG00000230729	ENST00000439960	antisense	KNOWN	None	None	None	None	34521525	34524239	1	None	None
12	WNT5B	ENSG00000111186	ENST00000539198	protein_coding	PUTATIVE	None	16265	354	117	1639057	1748875	1	None	None
12	WNT5B	ENSG00000111186	ENST00000545811	protein_coding	PUTATIVE	None	16265	472	156	1639985	1748993	1	None	None
12	WNT5B	ENSG00000111186	ENST00000537031	protein_coding	KNOWN	CCDS8510	16265	1080	359	1683823	1755533	1	None	None
12	WNT5B	ENSG00000111186	ENST00000538854	processed_transcript	PUTATIVE	None	16265	None	None	1725826	1740489	1	None	None
12	WNT5B	ENSG00000111186	ENST00000310594	protein_coding	KNOWN	CCDS8510	16265	1080	359	1726222	1756377	1	None	None
12	WNT5B	ENSG00000111186	ENST00000397196	protein_coding	KNOWN	CCDS8510	16265	1080	359	1738363	1756409	1	None	None
12	WNT5B	ENSG00000111186	ENST00000543563	processed_transcript	PUTATIVE	None	16265	None	None	1739063	1742072	1	None	None
12	WNT5B	ENSG00000111186	ENST00000543071	protein_coding	NOVEL	None	16265	761	252	1739978	1755099	1	None	None
12	WNT5B	ENSG00000111186	ENST00000542408	protein_coding	PUTATIVE	None	16265	339	112	1740481	1755099	1	None	None
12	WNT5B	ENSG00000111186	ENST00000545747	processed_transcript	PUTATIVE	None	16265	None	None	1753963	1755699	1	None	None
11	None	ENSG00000255124	ENST00000530834	lincRNA	KNOWN	None	None	None	None	125809107	125813597	1	None	None
9	None	ENSG00000232983	ENST00000441226	processed_pseudogene	KNOWN	None	None	None	None	34546522	34546994	-1	None	None
17	BZRAP1	ENSG00000005379	ENST00000581692	retained_intron	KNOWN	None	16831	None	None	56378592	56382749	-1	None	PRAX-1, KIAA0612, RIM-BP1, RIMBP1
17	BZRAP1	ENSG00000005379	ENST00000581675	protein_coding	PUTATIVE	None	16831	516	171	56378592	56383718	-1	None	PRAX-1, KIAA0612, RIM-BP1, RIMBP1
17	BZRAP1	ENSG00000005379	ENST00000268893	protein_coding	KNOWN	CCDS45742	16831	5394	1797	56378592	56406121	-1	None	PRAX-1, KIAA0612, RIM-BP1, RIMBP1
17	BZRAP1	ENSG00000005379	ENST00000578511	retained_intron	KNOWN	None	16831	None	None	56379213	56384228	-1	None	PRAX-1, KIAA0612, RIM-BP1, RIMBP1
17	BZRAP1	ENSG00000005379	ENST00000343736	protein_coding	KNOWN	CCDS11605	16831	5574	1857	56379632	56405445	-1	None	PRAX-1, KIAA0612, RIM-BP1, RIMBP1
17	BZRAP1	ENSG00000005379	ENST00000577871	retained_intron	KNOWN	None	16831	None	None	56379646	56383790	-1	None	PRAX-1, KIAA0612, RIM-BP1, RIMBP1
17	BZRAP1	ENSG00000005379	ENST00000580669	protein_coding	NOVEL	None	16831	809	268	56382422	56385924	-1	None	PRAX-1, KIAA0612, RIM-BP1, RIMBP1
17	BZRAP1	ENSG00000005379	ENST00000582679	protein_coding	NOVEL	None	16831	887	294	56383703	56388101	-1	None	PRAX-1, KIAA0612, RIM-BP1, RIMBP1
17	BZRAP1	ENSG00000005379	ENST00000578486	retained_intron	KNOWN	None	16831	None	None	56384804	56385952	-1	None	PRAX-1, KIAA0612, RIM-BP1, RIMBP1
17	BZRAP1	ENSG00000005379	ENST00000585149	retained_intron	KNOWN	None	16831	None	None	56388800	56389349	-1	None	PRAX-1, KIAA0612, RIM-BP1, RIMBP1
17	BZRAP1	ENSG00000005379	ENST00000583624	retained_intron	KNOWN	None	16831	None	None	56399433	56400082	-1	None	PRAX-1, KIAA0612, RIM-BP1, RIMBP1
17	BZRAP1	ENSG00000005379	ENST00000355701	protein_coding	KNOWN	None	16831	5724	1907	56378598	56406152	-1	None	PRAX-1, KIAA0612, RIM-BP1, RIMBP1
5	None	ENSG00000213433	ENST00000518134	processed_transcript	KNOWN	None	None	None	None	151145420	151145939	-1	None	None
5	None	ENSG00000213433	ENST00000473923	transcribed_processed_pseudogene	KNOWN	None	None	None	None	151145458	151145800	-1	None	None
11	ABCG4	ENSG00000172350	ENST00000307417	protein_coding	KNOWN	CCDS8415	13884	1941	646	119019722	119033360	1	None	WHITE2
11	ABCG4	ENSG00000172350	ENST00000524604	protein_coding	PUTATIVE	None	13884	456	151	119019963	119025069	1	None	WHITE2
11	ABCG4	ENSG00000172350	ENST00000449422	protein_coding	PUTATIVE	CCDS8415	13884	1941	646	119020223	119032145	1	None	WHITE2
11	ABCG4	ENSG00000172350	ENST00000531739	protein_coding	PUTATIVE	CCDS8415	13884	1941	646	119020606	119032357	1	None	WHITE2
11	ABCG4	ENSG00000172350	ENST00000533694	retained_intron	KNOWN	None	13884	None	None	119023585	119031081	1	None	WHITE2
11	ABCG4	ENSG00000172350	ENST00000534402	protein_coding	PUTATIVE	None	13884	364	120	119026340	119029205	1	None	WHITE2
9	CNTFR-AS1	ENSG00000237159	ENST00000436360	antisense	KNOWN	None	48712	None	None	34568013	34582647	1	None	None
9	CNTFR-AS1	ENSG00000237159	ENST00000453642	antisense	KNOWN	None	48712	None	None	34568013	34582807	1	None	None
9	CNTFR-AS1	ENSG00000237159	ENST00000438244	antisense	KNOWN	None	48712	None	None	34568013	34582827	1	None	None
9	CNTFR-AS1	ENSG00000237159	ENST00000454187	antisense	KNOWN	None	48712	None	None	34569589	34570123	1	None	None
3	GSK3B	ENSG00000082701	ENST00000264235	protein_coding	KNOWN	CCDS54628	4617	1263	420	119540170	119813264	-1	None	None
3	GSK3B	ENSG00000082701	ENST00000316626	protein_coding	KNOWN	CCDS2996	4617	1302	433	119545533	119812513	-1	None	None
3	GSK3B	ENSG00000082701	ENST00000474830	retained_intron	KNOWN	None	4617	None	None	119545540	119562456	-1	None	None
3	GSK3B	ENSG00000082701	ENST00000473886	processed_transcript	KNOWN	None	4617	None	None	119545548	119595355	-1	None	None
5	None	ENSG00000270978	ENST00000603996	processed_pseudogene	KNOWN	None	None	None	None	151228447	151230352	1	None	None
19	None	ENSG00000267258	ENST00000585753	processed_pseudogene	KNOWN	None	None	None	None	30412089	30412560	1	None	None
6	OR2H5P	ENSG00000232173	ENST00000430565	unprocessed_pseudogene	KNOWN	None	8256	None	None	29541686	29542613	1	None	OR2H5, hs6M1-13, HS271M21
22	None	ENSG00000235159	ENST00000412643	antisense	KNOWN	None	None	None	None	46463236	46465771	-1	None	None
7	HOTAIRM1	ENSG00000233429	ENST00000495032	antisense	KNOWN	None	37117	None	None	27135266	27135946	1	None	HOXA-AS1, NCRNA00179, HOXA1-AS1
7	HOTAIRM1	ENSG00000233429	ENST00000434063	antisense	KNOWN	None	37117	None	None	27135713	27139773	1	None	HOXA-AS1, NCRNA00179, HOXA1-AS1
7	HOTAIRM1	ENSG00000233429	ENST00000429611	antisense	KNOWN	None	37117	None	None	27135743	27139585	1	None	HOXA-AS1, NCRNA00179, HOXA1-AS1
7	HOTAIRM1	ENSG00000233429	ENST00000425358	antisense	KNOWN	None	37117	None	None	27135852	27139585	1	None	HOXA-AS1, NCRNA00179, HOXA1-AS1
7	HOTAIRM1	ENSG00000233429	ENST00000428939	antisense	KNOWN	None	37117	None	None	27138458	27139758	1	None	HOXA-AS1, NCRNA00179, HOXA1-AS1
7	HOTAIRM1	ENSG00000233429	ENST00000593300	antisense	KNOWN	None	37117	None	None	27139238	27139884	1	None	HOXA-AS1, NCRNA00179, HOXA1-AS1
6	MRPS18B	ENSG00000204568	ENST00000259873	protein_coding	KNOWN	CCDS4682	14516	777	258	30585486	30594172	1	None	MRPS18-2, PTD017, C6orf14, HSPC183
6	MRPS18B	ENSG00000204568	ENST00000492316	retained_intron	KNOWN	None	14516	None	None	30585620	30587901	1	None	MRPS18-2, PTD017, C6orf14, HSPC183
6	MRPS18B	ENSG00000204568	ENST00000472267	retained_intron	KNOWN	None	14516	None	None	30585629	30594172	1	None	MRPS18-2, PTD017, C6orf14, HSPC183
6	MRPS18B	ENSG00000204568	ENST00000472229	processed_transcript	KNOWN	None	14516	None	None	30585637	30594172	1	None	MRPS18-2, PTD017, C6orf14, HSPC183
6	MRPS18B	ENSG00000204568	ENST00000506373	protein_coding	KNOWN	None	14516	366	121	30585624	30594058	1	None	MRPS18-2, PTD017, C6orf14, HSPC183
5	RNA5SP198	ENSG00000222308	ENST00000410376	rRNA	KNOWN	None	43098	None	None	151255127	151255253	-1	RN5S198	None
1	HMGCL	ENSG00000117305	ENST00000374490	protein_coding	KNOWN	CCDS243	5005	978	325	24128375	24151949	-1	None	HL
1	HMGCL	ENSG00000117305	ENST00000436439	protein_coding	KNOWN	CCDS53279	5005	765	254	24128377	24151918	-1	None	HL
1	HMGCL	ENSG00000117305	ENST00000374487	nonsense_mediated_decay	KNOWN	None	5005	234	77	24128377	24165110	-1	None	HL
1	HMGCL	ENSG00000117305	ENST00000235958	protein_coding	PUTATIVE	None	5005	548	181	24128400	24151892	-1	None	HL
1	HMGCL	ENSG00000117305	ENST00000509389	processed_transcript	KNOWN	None	5005	None	None	24130078	24151917	-1	None	HL
1	HMGCL	ENSG00000117305	ENST00000496907	processed_transcript	KNOWN	None	5005	None	None	24133190	24140811	-1	None	HL
1	HMGCL	ENSG00000117305	ENST00000513148	retained_intron	KNOWN	None	5005	None	None	24135777	24151906	-1	None	HL
1	HMGCL	ENSG00000117305	ENST00000479458	processed_transcript	KNOWN	None	5005	None	None	24140322	24143251	-1	None	HL
1	HMGCL	ENSG00000117305	ENST00000498698	processed_transcript	KNOWN	None	5005	None	None	24142856	24144023	-1	None	HL
1	HMGCL	ENSG00000117305	ENST00000374483	protein_coding	KNOWN	None	5005	903	300	24128377	24165110	-1	None	HL
7	SRRM3	ENSG00000177679	ENST00000326382	protein_coding	KNOWN	None	26729	1794	597	75831218	75916603	1	None	FLJ37078
7	SRRM3	ENSG00000177679	ENST00000479294	retained_intron	KNOWN	None	26729	None	None	75864300	75889355	1	None	FLJ37078
7	SRRM3	ENSG00000177679	ENST00000464752	processed_transcript	PUTATIVE	None	26729	None	None	75894725	75899310	1	None	FLJ37078
7	SRRM3	ENSG00000177679	ENST00000479284	processed_transcript	PUTATIVE	None	26729	None	None	75902371	75910804	1	None	FLJ37078
7	SRRM3	ENSG00000177679	ENST00000413003	protein_coding	PUTATIVE	None	26729	704	233	75911932	75916605	1	None	FLJ37078
7	SRRM3	ENSG00000177679	ENST00000388802	protein_coding	KNOWN	None	26729	1962	653	75831216	75916603	1	None	FLJ37078
22	MIR3619	ENSG00000266533	ENST00000579667	miRNA	KNOWN	None	38998	None	None	46486924	46487006	1	None	hsa-mir-3619
2	PPM1B	ENSG00000138032	ENST00000419807	protein_coding	KNOWN	None	9276	1134	377	44395108	44445676	1	None	PPC2BETAX, PP2CB, PP2CBETA
2	PPM1B	ENSG00000138032	ENST00000409486	retained_intron	KNOWN	None	9276	None	None	44396016	44436571	1	None	PPC2BETAX, PP2CB, PP2CBETA
2	PPM1B	ENSG00000138032	ENST00000409432	protein_coding	KNOWN	CCDS46271	9276	1143	380	44396016	44458610	1	None	PPC2BETAX, PP2CB, PP2CBETA
2	PPM1B	ENSG00000138032	ENST00000282412	protein_coding	KNOWN	CCDS1817	9276	1440	479	44396016	44458611	1	None	PPC2BETAX, PP2CB, PP2CBETA
2	PPM1B	ENSG00000138032	ENST00000378551	protein_coding	KNOWN	CCDS1816	9276	1164	387	44396016	44461785	1	None	PPC2BETAX, PP2CB, PP2CBETA
2	PPM1B	ENSG00000138032	ENST00000378540	processed_transcript	KNOWN	None	9276	None	None	44396016	44471523	1	None	PPC2BETAX, PP2CB, PP2CBETA
2	PPM1B	ENSG00000138032	ENST00000345249	protein_coding	KNOWN	CCDS1818	9276	579	192	44396049	44458611	1	None	PPC2BETAX, PP2CB, PP2CBETA
2	PPM1B	ENSG00000138032	ENST00000409473	protein_coding	NOVEL	None	9276	909	302	44428325	44445676	1	None	PPC2BETAX, PP2CB, PP2CBETA
2	PPM1B	ENSG00000138032	ENST00000459690	processed_transcript	KNOWN	None	9276	None	None	44429085	44459860	1	None	PPC2BETAX, PP2CB, PP2CBETA
2	PPM1B	ENSG00000138032	ENST00000487286	processed_transcript	KNOWN	None	9276	None	None	44429156	44471522	1	None	PPC2BETAX, PP2CB, PP2CBETA
2	PPM1B	ENSG00000138032	ENST00000488866	retained_intron	KNOWN	None	9276	None	None	44444961	44446342	1	None	PPC2BETAX, PP2CB, PP2CBETA
2	PPM1B	ENSG00000138032	ENST00000409895	protein_coding	KNOWN	CCDS46272	9276	984	327	44396000	44436571	1	None	PPC2BETAX, PP2CB, PP2CBETA
19	RPL9P32	ENSG00000242100	ENST00000464118	processed_pseudogene	KNOWN	None	36418	None	None	30447276	30447895	-1	None	None
22	MIRLET7A3	ENSG00000198986	ENST00000362116	miRNA	KNOWN	None	31478	None	None	46508629	46508702	1	MIRNLET7A3	hsa-let-7a-3
12	None	ENSG00000257918	ENST00000552415	processed_transcript	KNOWN	None	None	None	None	107108702	107126844	-1	None	None
22	MIR4763	ENSG00000264147	ENST00000581461	miRNA	KNOWN	None	41677	None	None	46509446	46509537	1	None	hsa-mir-4763
5	None	ENSG00000254226	ENST00000524295	lincRNA	KNOWN	None	None	None	None	151329132	151650009	1	None	None
5	None	ENSG00000254226	ENST00000524034	lincRNA	KNOWN	None	None	None	None	151338459	151650006	1	None	None
5	None	ENSG00000254226	ENST00000518431	lincRNA	KNOWN	None	None	None	None	151575009	151650006	1	None	None
5	None	ENSG00000254226	ENST00000523605	lincRNA	KNOWN	None	None	None	None	151596635	151649993	1	None	None
19	None	ENSG00000267006	ENST00000588402	lincRNA	KNOWN	None	None	None	None	30519648	30520823	-1	None	None
15	None	ENSG00000233812	ENST00000435655	protein_coding	KNOWN	None	None	528	175	32694108	32695493	-1	None	None
1	GPR161	ENSG00000143147	ENST00000367838	protein_coding	KNOWN	CCDS1268	23694	1590	529	168053997	168105624	-1	None	RE2
1	GPR161	ENSG00000143147	ENST00000478868	retained_intron	KNOWN	None	23694	None	None	168054504	168058803	-1	None	RE2
1	GPR161	ENSG00000143147	ENST00000367836	protein_coding	NOVEL	CCDS58042	23694	1194	397	168054507	168105621	-1	None	RE2
1	GPR161	ENSG00000143147	ENST00000367835	protein_coding	KNOWN	CCDS1268	23694	1590	529	168054516	168106821	-1	None	RE2
1	GPR161	ENSG00000143147	ENST00000493800	retained_intron	KNOWN	None	23694	None	None	168059684	168074147	-1	None	RE2
1	GPR161	ENSG00000143147	ENST00000485232	processed_transcript	PUTATIVE	None	23694	None	None	168087839	168104275	-1	None	RE2
1	GPR161	ENSG00000143147	ENST00000546300	protein_coding	KNOWN	CCDS58045	23694	1248	415	168054516	168106811	-1	None	RE2
1	GPR161	ENSG00000143147	ENST00000539777	protein_coding	KNOWN	CCDS58044	23694	1356	451	168054516	168105903	-1	None	RE2
1	GPR161	ENSG00000143147	ENST00000537209	protein_coding	KNOWN	CCDS58043	23694	1650	549	168054516	168106536	-1	None	RE2
1	GPR161	ENSG00000143147	ENST00000271357	protein_coding	KNOWN	CCDS1268	23694	1590	529	168054016	168074167	-1	None	RE2
1	GPR161	ENSG00000143147	ENST00000361697	protein_coding	KNOWN	CCDS1268	23694	1590	529	168054516	168106536	-1	None	RE2
11	None	ENSG00000229387	ENST00000428556	protein_coding	NOVEL	None	None	63	20	22646860	22647369	1	None	None
5	OR1X5P	ENSG00000214351	ENST00000510464	unprocessed_pseudogene	KNOWN	None	31245	None	None	177263435	177264647	-1	None	None
22	MIRLET7B	ENSG00000207875	ENST00000385140	miRNA	KNOWN	None	31479	None	None	46509566	46509648	1	MIRNLET7B	hsa-let-7b
11	C11orf57	ENSG00000150776	ENST00000420986	protein_coding	KNOWN	CCDS41715	25569	879	292	111944810	111954858	1	None	FLJ10726
11	C11orf57	ENSG00000150776	ENST00000532163	protein_coding	KNOWN	None	25569	795	264	111945011	111955874	1	None	FLJ10726
11	C11orf57	ENSG00000150776	ENST00000280352	protein_coding	KNOWN	CCDS41715	25569	879	292	111945013	111955874	1	None	FLJ10726
11	C11orf57	ENSG00000150776	ENST00000530104	protein_coding	PUTATIVE	None	25569	348	115	111945034	111953151	1	None	FLJ10726
11	C11orf57	ENSG00000150776	ENST00000526879	protein_coding	KNOWN	None	25569	274	90	111945040	111951236	1	None	FLJ10726
11	C11orf57	ENSG00000150776	ENST00000524989	nonsense_mediated_decay	KNOWN	None	25569	192	63	111945040	111953669	1	None	FLJ10726
11	C11orf57	ENSG00000150776	ENST00000393047	protein_coding	KNOWN	CCDS8356	25569	882	293	111945040	111955874	1	None	FLJ10726
11	C11orf57	ENSG00000150776	ENST00000525785	protein_coding	KNOWN	None	25569	645	214	111945055	111953546	1	None	FLJ10726
11	C11orf57	ENSG00000150776	ENST00000531378	protein_coding	PUTATIVE	None	25569	340	112	111945509	111953292	1	None	FLJ10726
9	MIR4479	ENSG00000266507	ENST00000579420	miRNA	KNOWN	None	41767	None	None	139781185	139781255	1	None	hsa-mir-4479
16	VN1R3	ENSG00000180663	ENST00000418822	unitary_pseudogene	KNOWN	None	19867	None	None	31819247	31820165	-1	None	V1RL3, FKSG46
16	VN1R3	ENSG00000180663	ENST00000316512	pseudogene	KNOWN	None	19867	None	None	31819247	31820165	-1	None	V1RL3, FKSG46
11	None	ENSG00000254790	ENST00000524467	lincRNA	KNOWN	None	None	None	None	125810391	125811088	-1	None	None
10	FAM24B	ENSG00000213185	ENST00000368898	protein_coding	KNOWN	CCDS31303	23475	285	94	124608594	124639114	-1	None	MGC45962, AC073585.2
10	FAM24B	ENSG00000213185	ENST00000462859	processed_transcript	KNOWN	None	23475	None	None	124608610	124639157	-1	None	MGC45962, AC073585.2
10	FAM24B	ENSG00000213185	ENST00000368896	protein_coding	KNOWN	CCDS31303	23475	285	94	124608612	124639121	-1	None	MGC45962, AC073585.2
10	FAM24B	ENSG00000213185	ENST00000489000	processed_transcript	KNOWN	None	23475	None	None	124614772	124639097	-1	None	MGC45962, AC073585.2
9	None	ENSG00000231521	ENST00000437864	antisense	KNOWN	None	None	None	None	100396797	100398333	-1	None	None
14	ADCY4	ENSG00000129467	ENST00000310677	protein_coding	KNOWN	CCDS9627	235	3234	1077	24787555	24804277	-1	None	AC4
14	ADCY4	ENSG00000129467	ENST00000557056	nonsense_mediated_decay	KNOWN	None	235	651	216	24787555	24804277	-1	None	AC4
14	ADCY4	ENSG00000129467	ENST00000555684	retained_intron	KNOWN	None	235	None	None	24787570	24788415	-1	None	AC4
14	ADCY4	ENSG00000129467	ENST00000554577	retained_intron	KNOWN	None	235	None	None	24787570	24801690	-1	None	AC4
14	ADCY4	ENSG00000129467	ENST00000554068	protein_coding	KNOWN	CCDS9627	235	3234	1077	24787570	24804277	-1	None	AC4
14	ADCY4	ENSG00000129467	ENST00000545213	retained_intron	KNOWN	None	235	None	None	24787571	24799814	-1	None	AC4
14	ADCY4	ENSG00000129467	ENST00000554781	nonsense_mediated_decay	KNOWN	None	235	1350	449	24787598	24803953	-1	None	AC4
14	ADCY4	ENSG00000129467	ENST00000418030	protein_coding	KNOWN	CCDS9627	235	3234	1077	24787598	24803953	-1	None	AC4
14	ADCY4	ENSG00000129467	ENST00000561200	retained_intron	KNOWN	None	235	None	None	24788131	24788985	-1	None	AC4
14	ADCY4	ENSG00000129467	ENST00000560635	retained_intron	KNOWN	None	235	None	None	24788512	24791569	-1	None	AC4
14	ADCY4	ENSG00000129467	ENST00000554936	retained_intron	KNOWN	None	235	None	None	24791602	24792769	-1	None	AC4
14	ADCY4	ENSG00000129467	ENST00000554959	retained_intron	KNOWN	None	235	None	None	24794613	24795721	-1	None	AC4
14	ADCY4	ENSG00000129467	ENST00000556932	protein_coding	PUTATIVE	None	235	411	136	24795030	24798674	-1	None	AC4
14	ADCY4	ENSG00000129467	ENST00000554674	retained_intron	KNOWN	None	235	None	None	24799788	24801777	-1	None	AC4
14	ADCY4	ENSG00000129467	ENST00000557099	retained_intron	KNOWN	None	235	None	None	24801444	24804299	-1	None	AC4
14	ADCY4	ENSG00000129467	ENST00000559167	protein_coding	PUTATIVE	None	235	108	35	24801743	24804277	-1	None	AC4
14	ADCY4	ENSG00000129467	ENST00000558563	processed_transcript	KNOWN	None	235	None	None	24801865	24804277	-1	None	AC4
14	ADCY4	ENSG00000129467	ENST00000558125	processed_transcript	KNOWN	None	235	None	None	24801914	24804277	-1	None	AC4
14	ADCY4	ENSG00000129467	ENST00000561138	protein_coding	KNOWN	None	235	346	114	24802008	24804277	-1	None	AC4
14	ADCY4	ENSG00000129467	ENST00000396747	protein_coding	KNOWN	None	235	1260	419	24792526	24803953	-1	None	AC4
17	TNS4	ENSG00000131746	ENST00000394072	retained_intron	KNOWN	None	24352	None	None	38632080	38637127	-1	None	CTEN
17	TNS4	ENSG00000131746	ENST00000254051	protein_coding	KNOWN	CCDS11368	24352	2148	715	38632080	38657849	-1	None	CTEN
17	TNS4	ENSG00000131746	ENST00000582747	protein_coding	PUTATIVE	None	24352	100	32	38634056	38634900	-1	None	CTEN
17	TNS4	ENSG00000131746	ENST00000497303	retained_intron	KNOWN	None	24352	None	None	38634484	38636264	-1	None	CTEN
15	NIPA1	ENSG00000170113	ENST00000337435	protein_coding	KNOWN	CCDS10011	17043	990	329	23043277	23086436	-1	SPG6	MGC35570
15	NIPA1	ENSG00000170113	ENST00000437912	protein_coding	KNOWN	CCDS45190	17043	765	254	23043279	23100005	-1	SPG6	MGC35570
15	NIPA1	ENSG00000170113	ENST00000559448	nonsense_mediated_decay	KNOWN	None	17043	271	89	23046992	23086301	-1	SPG6	MGC35570
15	NIPA1	ENSG00000170113	ENST00000561183	protein_coding	KNOWN	CCDS45190	17043	765	254	23048316	23087169	-1	SPG6	MGC35570
15	NIPA1	ENSG00000170113	ENST00000557930	nonsense_mediated_decay	KNOWN	None	17043	177	58	23049152	23086255	-1	SPG6	MGC35570
15	NIPA1	ENSG00000170113	ENST00000560069	nonsense_mediated_decay	KNOWN	None	17043	108	35	23049297	23086850	-1	SPG6	MGC35570
15	NIPA1	ENSG00000170113	ENST00000560105	retained_intron	KNOWN	None	17043	None	None	23062022	23086310	-1	SPG6	MGC35570
15	NIPA1	ENSG00000170113	ENST00000538684	protein_coding	KNOWN	None	17043	480	159	23046994	23086301	-1	SPG6	MGC35570
9	KRT18P13	ENSG00000214417	ENST00000400056	processed_pseudogene	KNOWN	None	6432	None	None	100461204	100463016	1	KRT18L3	None
8	None	ENSG00000253841	ENST00000521917	processed_pseudogene	KNOWN	None	None	None	None	127085290	127085776	-1	None	None
16	None	ENSG00000260973	ENST00000567401	lincRNA	KNOWN	None	None	None	None	22621852	22623517	-1	None	None
8	None	ENSG00000221706	ENST00000408779	miRNA	NOVEL	None	None	None	None	127153920	127154003	-1	None	None
19	SCAMP4	ENSG00000227500	ENST00000316097	protein_coding	KNOWN	CCDS45903	30385	690	229	1905213	1926016	1	None	FLJ33847
19	SCAMP4	ENSG00000227500	ENST00000452128	retained_intron	KNOWN	None	30385	None	None	1905371	1919203	1	None	FLJ33847
19	SCAMP4	ENSG00000227500	ENST00000414057	processed_transcript	KNOWN	None	30385	None	None	1905377	1924147	1	None	FLJ33847
19	SCAMP4	ENSG00000227500	ENST00000460767	processed_transcript	KNOWN	None	30385	None	None	1905390	1918960	1	None	FLJ33847
19	SCAMP4	ENSG00000227500	ENST00000489554	processed_transcript	KNOWN	None	30385	None	None	1905398	1920742	1	None	FLJ33847
19	SCAMP4	ENSG00000227500	ENST00000588555	retained_intron	KNOWN	None	30385	None	None	1905399	1907183	1	None	FLJ33847
19	SCAMP4	ENSG00000227500	ENST00000409472	protein_coding	KNOWN	None	30385	588	195	1905403	1926011	1	None	FLJ33847
19	SCAMP4	ENSG00000227500	ENST00000411971	protein_coding	KNOWN	None	30385	370	122	1908263	1918964	1	None	FLJ33847
19	SCAMP4	ENSG00000227500	ENST00000588907	processed_transcript	KNOWN	None	30385	None	None	1908280	1918188	1	None	FLJ33847
19	SCAMP4	ENSG00000227500	ENST00000590266	protein_coding	KNOWN	None	30385	136	44	1913089	1917821	1	None	FLJ33847
19	SCAMP4	ENSG00000227500	ENST00000585335	processed_transcript	KNOWN	None	30385	None	None	1918643	1922155	1	None	FLJ33847
19	SCAMP4	ENSG00000227500	ENST00000472442	retained_intron	KNOWN	None	30385	None	None	1922132	1926005	1	None	FLJ33847
19	CTU1	ENSG00000142544	ENST00000421832	protein_coding	KNOWN	CCDS12824	29590	1047	348	51600863	51611627	-1	ATPBD3	MGC17332, NCS6
9	None	ENSG00000266608	ENST00000582499	miRNA	NOVEL	None	None	None	None	100462516	100462607	1	None	None
12	EEF1B2P4	ENSG00000257119	ENST00000551398	processed_pseudogene	KNOWN	None	32475	None	None	107295061	107295762	-1	None	None
9	None	ENSG00000260677	ENST00000562653	lincRNA	KNOWN	None	None	None	None	100505490	100507217	1	None	None
22	TPST2	ENSG00000128294	ENST00000338754	protein_coding	KNOWN	CCDS13839	12021	1134	377	26921458	26986127	-1	None	TANGO13B
22	TPST2	ENSG00000128294	ENST00000398110	protein_coding	KNOWN	CCDS13839	12021	1134	377	26921712	26961334	-1	None	TANGO13B
22	TPST2	ENSG00000128294	ENST00000403880	protein_coding	KNOWN	CCDS13839	12021	1134	377	26921712	26992681	-1	None	TANGO13B
22	TPST2	ENSG00000128294	ENST00000445720	protein_coding	PUTATIVE	None	12021	507	168	26931861	26936837	-1	None	TANGO13B
22	TPST2	ENSG00000128294	ENST00000442495	protein_coding	KNOWN	None	12021	425	140	26937172	26986089	-1	None	TANGO13B
22	TPST2	ENSG00000128294	ENST00000454778	protein_coding	KNOWN	None	12021	360	119	26937237	26946619	-1	None	TANGO13B
22	TPST2	ENSG00000128294	ENST00000440953	protein_coding	KNOWN	None	12021	192	63	26937405	26986089	-1	None	TANGO13B
22	TPST2	ENSG00000128294	ENST00000453117	protein_coding	KNOWN	None	12021	146	47	26937451	26961692	-1	None	TANGO13B
22	TPST2	ENSG00000128294	ENST00000450022	protein_coding	KNOWN	None	12021	141	46	26937456	26986089	-1	None	TANGO13B
X	None	ENSG00000234191	ENST00000438867	lincRNA	KNOWN	None	None	None	None	39260506	39294078	-1	None	None
9	None	ENSG00000236130	ENST00000430058	lincRNA	KNOWN	None	None	None	None	100568217	100572290	-1	None	None
15	GOLGA8O	ENSG00000206127	ENST00000509311	protein_coding	NOVEL	CCDS59252	44406	1899	632	32737307	32747835	-1	None	None
15	GOLGA8O	ENSG00000206127	ENST00000562377	protein_coding	PUTATIVE	None	44406	395	130	32743366	32747103	-1	None	None
15	GOLGA8O	ENSG00000206127	ENST00000414865	protein_coding	KNOWN	None	44406	888	295	32740354	32747835	-1	None	None
18	PQLC1	ENSG00000122490	ENST00000357575	protein_coding	KNOWN	CCDS54193	26188	762	253	77662420	77711638	-1	None	FLJ22378
18	PQLC1	ENSG00000122490	ENST00000397778	protein_coding	KNOWN	CCDS12020	26188	816	271	77662420	77711664	-1	None	FLJ22378
18	PQLC1	ENSG00000122490	ENST00000351365	nonsense_mediated_decay	KNOWN	None	26188	224	73	77662421	77710817	-1	None	FLJ22378
18	PQLC1	ENSG00000122490	ENST00000466449	retained_intron	KNOWN	None	26188	None	None	77662466	77704324	-1	None	FLJ22378
18	PQLC1	ENSG00000122490	ENST00000474967	nonsense_mediated_decay	KNOWN	None	26188	204	67	77662515	77711657	-1	None	FLJ22378
18	PQLC1	ENSG00000122490	ENST00000590381	protein_coding	KNOWN	CCDS54192	26188	399	132	77663446	77711653	-1	None	FLJ22378
18	PQLC1	ENSG00000122490	ENST00000590895	processed_transcript	PUTATIVE	None	26188	None	None	77663894	77675961	-1	None	FLJ22378
18	PQLC1	ENSG00000122490	ENST00000469369	processed_transcript	KNOWN	None	26188	None	None	77664052	77701750	-1	None	FLJ22378
18	PQLC1	ENSG00000122490	ENST00000589000	processed_transcript	KNOWN	None	26188	None	None	77664141	77695479	-1	None	FLJ22378
18	PQLC1	ENSG00000122490	ENST00000494607	processed_transcript	KNOWN	None	26188	None	None	77679228	77705232	-1	None	FLJ22378
18	PQLC1	ENSG00000122490	ENST00000591964	nonsense_mediated_decay	KNOWN	None	26188	246	81	77679232	77711629	-1	None	FLJ22378
18	PQLC1	ENSG00000122490	ENST00000478144	protein_coding	NOVEL	None	26188	409	135	77679344	77710866	-1	None	FLJ22378
18	PQLC1	ENSG00000122490	ENST00000593030	nonsense_mediated_decay	KNOWN	None	26188	399	132	77684887	77711603	-1	None	FLJ22378
18	PQLC1	ENSG00000122490	ENST00000589452	nonsense_mediated_decay	KNOWN	None	26188	204	67	77693969	77711657	-1	None	FLJ22378
18	PQLC1	ENSG00000122490	ENST00000409073	protein_coding	KNOWN	None	26188	567	188	77662421	77710817	-1	None	FLJ22378
9	None	ENSG00000201830	ENST00000364960	misc_RNA	NOVEL	None	None	None	None	100677972	100678078	1	None	None
9	None	ENSG00000236896	ENST00000411981	antisense	KNOWN	None	None	None	None	100748833	100749938	-1	None	None
9	RNU6-918P	ENSG00000212521	ENST00000391219	snRNA	KNOWN	None	47881	None	None	100794512	100794617	1	None	None
4	QRFPR	ENSG00000186867	ENST00000507331	nonsense_mediated_decay	KNOWN	None	15565	573	190	122250467	122301802	-1	GPR103	None
4	QRFPR	ENSG00000186867	ENST00000334383	protein_coding	PUTATIVE	None	15565	777	258	122250469	122301834	-1	GPR103	None
4	QRFPR	ENSG00000186867	ENST00000394427	protein_coding	KNOWN	CCDS3719	15565	1296	431	122250469	122302214	-1	GPR103	None
4	QRFPR	ENSG00000186867	ENST00000512235	retained_intron	KNOWN	None	15565	None	None	122261288	122302214	-1	GPR103	None
9	None	ENSG00000224001	ENST00000428299	processed_pseudogene	KNOWN	None	None	None	None	100996991	100997849	1	None	None
2	BIN1	ENSG00000136717	ENST00000376113	protein_coding	NOVEL	None	1052	1275	424	127805603	127864577	-1	AMPHL	SH3P9, AMPH2
2	BIN1	ENSG00000136717	ENST00000357970	protein_coding	KNOWN	CCDS2139	1052	1653	550	127805603	127864864	-1	AMPHL	SH3P9, AMPH2
2	BIN1	ENSG00000136717	ENST00000393040	protein_coding	KNOWN	CCDS42744	1052	1449	482	127805603	127864864	-1	AMPHL	SH3P9, AMPH2
2	BIN1	ENSG00000136717	ENST00000348750	protein_coding	KNOWN	CCDS2143	1052	1230	409	127805603	127864864	-1	AMPHL	SH3P9, AMPH2
2	BIN1	ENSG00000136717	ENST00000259238	protein_coding	KNOWN	CCDS2141	1052	1494	497	127805603	127864864	-1	AMPHL	SH3P9, AMPH2
2	BIN1	ENSG00000136717	ENST00000346226	protein_coding	KNOWN	CCDS2142	1052	1557	518	127805603	127864864	-1	AMPHL	SH3P9, AMPH2
2	BIN1	ENSG00000136717	ENST00000393041	protein_coding	KNOWN	CCDS42743	1052	1428	475	127805603	127864864	-1	AMPHL	SH3P9, AMPH2
2	BIN1	ENSG00000136717	ENST00000351659	protein_coding	KNOWN	CCDS2140	1052	1521	506	127805603	127864864	-1	AMPHL	SH3P9, AMPH2
2	BIN1	ENSG00000136717	ENST00000352848	protein_coding	KNOWN	CCDS2137	1052	1365	454	127805603	127864864	-1	AMPHL	SH3P9, AMPH2
2	BIN1	ENSG00000136717	ENST00000316724	protein_coding	KNOWN	CCDS2138	1052	1782	593	127805603	127864931	-1	AMPHL	SH3P9, AMPH2
2	BIN1	ENSG00000136717	ENST00000462958	retained_intron	KNOWN	None	1052	None	None	127805609	127814067	-1	AMPHL	SH3P9, AMPH2
2	BIN1	ENSG00000136717	ENST00000409400	protein_coding	NOVEL	CCDS46403	1052	1320	439	127805614	127864854	-1	AMPHL	SH3P9, AMPH2
2	BIN1	ENSG00000136717	ENST00000466111	processed_transcript	KNOWN	None	1052	None	None	127807958	127822504	-1	AMPHL	SH3P9, AMPH2
2	BIN1	ENSG00000136717	ENST00000484253	processed_transcript	KNOWN	None	1052	None	None	127807984	127822386	-1	AMPHL	SH3P9, AMPH2
11	None	ENSG00000254967	ENST00000529072	antisense	KNOWN	None	None	None	None	125820011	125823427	1	None	None
11	None	ENSG00000254967	ENST00000531193	antisense	KNOWN	None	None	None	None	125821687	125826214	1	None	None
11	None	ENSG00000254967	ENST00000524962	antisense	KNOWN	None	None	None	None	125821761	125825832	1	None	None
12	NTF3	ENSG00000185652	ENST00000535299	processed_transcript	KNOWN	None	8023	None	None	5541278	5630702	1	None	NGF2
12	NTF3	ENSG00000185652	ENST00000423158	protein_coding	KNOWN	CCDS44806	8023	813	270	5541279	5604465	1	None	NGF2
12	NTF3	ENSG00000185652	ENST00000543548	processed_transcript	PUTATIVE	None	8023	None	None	5542291	5603667	1	None	NGF2
12	NTF3	ENSG00000185652	ENST00000544836	processed_transcript	PUTATIVE	None	8023	None	None	5620775	5622242	1	None	NGF2
12	NTF3	ENSG00000185652	ENST00000541234	processed_transcript	PUTATIVE	None	8023	None	None	5620823	5622559	1	None	NGF2
12	NTF3	ENSG00000185652	ENST00000331010	protein_coding	KNOWN	CCDS8538	8023	774	257	5603298	5604464	1	None	NGF2
19	SIGLEC9	ENSG00000129450	ENST00000250360	protein_coding	KNOWN	CCDS12825	10878	1392	463	51628165	51633567	1	None	CD329
19	SIGLEC9	ENSG00000129450	ENST00000440804	protein_coding	KNOWN	CCDS56100	10878	1440	479	51628165	51639908	1	None	CD329
19	SIGLEC9	ENSG00000129450	ENST00000599948	protein_coding	PUTATIVE	None	10878	614	203	51630287	51632215	1	None	CD329
9	SEPT7P7	ENSG00000229897	ENST00000420492	processed_pseudogene	KNOWN	None	38043	None	None	101369115	101370415	1	None	None
9	None	ENSG00000261215	ENST00000564224	retained_intron	KNOWN	None	None	None	None	34661900	34666026	-1	None	None
7	KEL	ENSG00000197993	ENST00000355265	protein_coding	KNOWN	CCDS34766	6308	2199	732	142638201	142659768	-1	None	ECE3, CD238
7	KEL	ENSG00000197993	ENST00000470850	retained_intron	KNOWN	None	6308	None	None	142639153	142640926	-1	None	ECE3, CD238
7	KEL	ENSG00000197993	ENST00000478969	retained_intron	KNOWN	None	6308	None	None	142639546	142640241	-1	None	ECE3, CD238
7	KEL	ENSG00000197993	ENST00000465697	retained_intron	KNOWN	None	6308	None	None	142640636	142642003	-1	None	ECE3, CD238
7	KEL	ENSG00000197993	ENST00000479768	processed_transcript	KNOWN	None	6308	None	None	142643161	142659411	-1	None	ECE3, CD238
7	KEL	ENSG00000197993	ENST00000494148	processed_transcript	KNOWN	None	6308	None	None	142651373	142655514	-1	None	ECE3, CD238
7	KEL	ENSG00000197993	ENST00000476829	protein_coding	NOVEL	None	6308	554	183	142651431	142659388	-1	None	ECE3, CD238
7	KEL	ENSG00000197993	ENST00000467543	protein_coding	PUTATIVE	None	6308	612	203	142654917	142659414	-1	None	ECE3, CD238
7	KEL	ENSG00000197993	ENST00000460479	protein_coding	NOVEL	None	6308	556	184	142655391	142659235	-1	None	ECE3, CD238
11	GAS2	ENSG00000148935	ENST00000528582	protein_coding	KNOWN	None	4167	544	180	22647188	22770736	1	None	None
11	GAS2	ENSG00000148935	ENST00000533092	processed_transcript	KNOWN	None	4167	None	None	22688129	22724176	1	None	None
11	GAS2	ENSG00000148935	ENST00000454584	protein_coding	KNOWN	CCDS7858	4167	942	313	22688161	22834601	1	None	None
11	GAS2	ENSG00000148935	ENST00000533363	protein_coding	KNOWN	None	4167	408	135	22688622	22747978	1	None	None
11	GAS2	ENSG00000148935	ENST00000278187	protein_coding	KNOWN	CCDS7858	4167	942	313	22689654	22834542	1	None	None
11	GAS2	ENSG00000148935	ENST00000524701	nonsense_mediated_decay	KNOWN	None	4167	426	141	22689654	22834547	1	None	None
11	GAS2	ENSG00000148935	ENST00000534801	protein_coding	KNOWN	None	4167	465	154	22694123	22759306	1	None	None
11	GAS2	ENSG00000148935	ENST00000532398	protein_coding	KNOWN	None	4167	615	204	22696319	22770807	1	None	None
11	GAS2	ENSG00000148935	ENST00000526665	processed_transcript	PUTATIVE	None	4167	None	None	22777194	22777499	1	None	None
11	GAS2	ENSG00000148935	ENST00000433790	protein_coding	KNOWN	CCDS7858	4167	942	313	22696319	22834537	1	None	None
9	None	ENSG00000230074	ENST00000434627	antisense	KNOWN	None	None	None	None	34665662	34681295	1	None	None
3	DCBLD2	ENSG00000057019	ENST00000326840	protein_coding	KNOWN	CCDS46878	24627	2328	775	98514785	98620533	-1	None	CLCP1, ESDN
3	DCBLD2	ENSG00000057019	ENST00000326857	protein_coding	KNOWN	None	24627	2370	789	98516627	98620170	-1	None	CLCP1, ESDN
3	DCBLD2	ENSG00000057019	ENST00000496736	retained_intron	KNOWN	None	24627	None	None	98518680	98520815	-1	None	CLCP1, ESDN
3	DCBLD2	ENSG00000057019	ENST00000494614	retained_intron	KNOWN	None	24627	None	None	98520227	98531328	-1	None	CLCP1, ESDN
3	DCBLD2	ENSG00000057019	ENST00000479144	retained_intron	KNOWN	None	24627	None	None	98526751	98536672	-1	None	CLCP1, ESDN
3	DCBLD2	ENSG00000057019	ENST00000470393	retained_intron	KNOWN	None	24627	None	None	98526755	98535133	-1	None	CLCP1, ESDN
3	DCBLD2	ENSG00000057019	ENST00000460008	retained_intron	KNOWN	None	24627	None	None	98531175	98538186	-1	None	CLCP1, ESDN
3	DCBLD2	ENSG00000057019	ENST00000469648	processed_transcript	KNOWN	None	24627	None	None	98541153	98619833	-1	None	CLCP1, ESDN
3	DCBLD2	ENSG00000057019	ENST00000486004	processed_transcript	KNOWN	None	24627	None	None	98544178	98614256	-1	None	CLCP1, ESDN
3	DCBLD2	ENSG00000057019	ENST00000449482	protein_coding	PUTATIVE	None	24627	326	107	98568232	98620015	-1	None	CLCP1, ESDN
1	ARHGAP29	ENSG00000137962	ENST00000546444	retained_intron	KNOWN	None	30207	None	None	94614544	94620385	-1	None	PARG1
1	ARHGAP29	ENSG00000137962	ENST00000552844	nonsense_mediated_decay	KNOWN	None	30207	3108	1035	94615403	94740624	-1	None	PARG1
1	ARHGAP29	ENSG00000137962	ENST00000260526	protein_coding	KNOWN	CCDS748	30207	3786	1261	94637307	94703121	-1	None	PARG1
1	ARHGAP29	ENSG00000137962	ENST00000482481	processed_transcript	KNOWN	None	30207	None	None	94642169	94661496	-1	None	PARG1
1	ARHGAP29	ENSG00000137962	ENST00000370217	protein_coding	KNOWN	None	30207	1182	393	94667451	94703189	-1	None	PARG1
19	DHPS	ENSG00000095059	ENST00000598246	protein_coding	PUTATIVE	None	2869	478	158	12786531	12790334	-1	None	MIG13
19	DHPS	ENSG00000095059	ENST00000600639	protein_coding	PUTATIVE	None	2869	83	26	12786535	12786886	-1	None	MIG13
19	DHPS	ENSG00000095059	ENST00000210060	protein_coding	KNOWN	CCDS12276	2869	1110	369	12786535	12792716	-1	None	MIG13
19	DHPS	ENSG00000095059	ENST00000600864	protein_coding	NOVEL	None	2869	348	115	12786536	12790354	-1	None	MIG13
19	DHPS	ENSG00000095059	ENST00000351660	protein_coding	KNOWN	CCDS12277	2869	969	322	12786536	12792585	-1	None	MIG13
19	DHPS	ENSG00000095059	ENST00000601639	nonsense_mediated_decay	KNOWN	None	2869	399	132	12786548	12792621	-1	None	MIG13
19	DHPS	ENSG00000095059	ENST00000594424	protein_coding	PUTATIVE	CCDS59354	2869	984	327	12786557	12792020	-1	None	MIG13
19	DHPS	ENSG00000095059	ENST00000600510	retained_intron	KNOWN	None	2869	None	None	12786565	12787732	-1	None	MIG13
19	DHPS	ENSG00000095059	ENST00000601537	nonsense_mediated_decay	KNOWN	None	2869	834	277	12786576	12792674	-1	None	MIG13
19	DHPS	ENSG00000095059	ENST00000595844	retained_intron	KNOWN	None	2869	None	None	12787589	12791034	-1	None	MIG13
19	DHPS	ENSG00000095059	ENST00000593400	retained_intron	KNOWN	None	2869	None	None	12787904	12790728	-1	None	MIG13
19	DHPS	ENSG00000095059	ENST00000596847	retained_intron	KNOWN	None	2869	None	None	12787979	12790844	-1	None	MIG13
19	DHPS	ENSG00000095059	ENST00000595912	nonsense_mediated_decay	KNOWN	None	2869	420	139	12787982	12792682	-1	None	MIG13
19	DHPS	ENSG00000095059	ENST00000600451	nonsense_mediated_decay	KNOWN	None	2869	169	55	12788085	12791095	-1	None	MIG13
19	DHPS	ENSG00000095059	ENST00000597152	protein_coding	PUTATIVE	None	2869	415	137	12788105	12792146	-1	None	MIG13
19	DHPS	ENSG00000095059	ENST00000598850	nonsense_mediated_decay	KNOWN	None	2869	205	67	12788117	12792377	-1	None	MIG13
19	DHPS	ENSG00000095059	ENST00000596162	protein_coding	PUTATIVE	None	2869	546	181	12788142	12792227	-1	None	MIG13
19	DHPS	ENSG00000095059	ENST00000593432	retained_intron	KNOWN	None	2869	None	None	12790276	12790991	-1	None	MIG13
19	DHPS	ENSG00000095059	ENST00000599481	processed_transcript	KNOWN	None	2869	None	None	12790439	12791975	-1	None	MIG13
19	DHPS	ENSG00000095059	ENST00000593423	nonsense_mediated_decay	KNOWN	None	2869	273	90	12790471	12792025	-1	None	MIG13
19	DHPS	ENSG00000095059	ENST00000595100	nonsense_mediated_decay	KNOWN	None	2869	399	132	12790508	12792652	-1	None	MIG13
19	DHPS	ENSG00000095059	ENST00000593473	retained_intron	KNOWN	None	2869	None	None	12790758	12792667	-1	None	MIG13
5	ARAP3	ENSG00000120318	ENST00000508305	protein_coding	NOVEL	None	24097	4128	1375	141032968	141061770	-1	CENTD3	FLJ21065, DRAG1
5	ARAP3	ENSG00000120318	ENST00000239440	protein_coding	KNOWN	CCDS4266	24097	4635	1544	141032968	141061788	-1	CENTD3	FLJ21065, DRAG1
5	ARAP3	ENSG00000120318	ENST00000512390	processed_transcript	KNOWN	None	24097	None	None	141032975	141046311	-1	CENTD3	FLJ21065, DRAG1
5	ARAP3	ENSG00000120318	ENST00000513878	protein_coding	NOVEL	None	24097	3582	1193	141033358	141052727	-1	CENTD3	FLJ21065, DRAG1
5	ARAP3	ENSG00000120318	ENST00000504448	protein_coding	NOVEL	None	24097	1420	472	141051834	141060398	-1	CENTD3	FLJ21065, DRAG1
5	ARAP3	ENSG00000120318	ENST00000524066	processed_transcript	PUTATIVE	None	24097	None	None	141052335	141052954	-1	CENTD3	FLJ21065, DRAG1
10	ERLIN1	ENSG00000107566	ENST00000421367	protein_coding	KNOWN	CCDS7487	16947	1047	348	101909851	101948091	-1	C10orf69, SPFH1	KE04, Erlin-1
10	ERLIN1	ENSG00000107566	ENST00000407654	protein_coding	KNOWN	CCDS7487	16947	1047	348	101911565	101945790	-1	C10orf69, SPFH1	KE04, Erlin-1
10	ERLIN1	ENSG00000107566	ENST00000370408	protein_coding	KNOWN	None	16947	825	274	101914617	101945786	-1	C10orf69, SPFH1	KE04, Erlin-1
13	PCDH20	ENSG00000197991	ENST00000409204	protein_coding	KNOWN	CCDS9442	14257	2856	951	61983818	61989655	-1	None	PCDH13, FLJ22218
13	PCDH20	ENSG00000197991	ENST00000409186	protein_coding	KNOWN	CCDS9442	14257	2856	951	61983991	62001982	-1	None	PCDH13, FLJ22218
13	PCDH20	ENSG00000197991	ENST00000472649	processed_transcript	PUTATIVE	None	14257	None	None	61998853	62002220	-1	None	PCDH13, FLJ22218
3	PEX5L	ENSG00000114757	ENST00000467460	protein_coding	KNOWN	CCDS3236	30024	1881	626	179512746	179754718	-1	None	PEX5R, PXR2
3	PEX5L	ENSG00000114757	ENST00000263962	protein_coding	KNOWN	CCDS58866	30024	1875	624	179518844	179754558	-1	None	PEX5R, PXR2
3	PEX5L	ENSG00000114757	ENST00000485199	protein_coding	KNOWN	CCDS58867	30024	1776	591	179518854	179754841	-1	None	PEX5R, PXR2
3	PEX5L	ENSG00000114757	ENST00000468741	protein_coding	PUTATIVE	CCDS58861	30024	1305	434	179519306	179692047	-1	None	PEX5R, PXR2
3	PEX5L	ENSG00000114757	ENST00000476138	protein_coding	PUTATIVE	CCDS58863	30024	1752	583	179519311	179691999	-1	None	PEX5R, PXR2
3	PEX5L	ENSG00000114757	ENST00000467440	processed_transcript	KNOWN	None	30024	None	None	179519437	179605979	-1	None	PEX5R, PXR2
3	PEX5L	ENSG00000114757	ENST00000472994	protein_coding	NOVEL	CCDS58864	30024	1704	567	179519445	179754747	-1	None	PEX5R, PXR2
3	PEX5L	ENSG00000114757	ENST00000464614	protein_coding	PUTATIVE	CCDS58862	30024	1557	518	179519527	179691866	-1	None	PEX5R, PXR2
3	PEX5L	ENSG00000114757	ENST00000465751	protein_coding	NOVEL	CCDS58865	30024	1809	602	179519605	179754714	-1	None	PEX5R, PXR2
3	PEX5L	ENSG00000114757	ENST00000477829	retained_intron	KNOWN	None	30024	None	None	179527361	179537879	-1	None	PEX5R, PXR2
3	PEX5L	ENSG00000114757	ENST00000461537	processed_transcript	KNOWN	None	30024	None	None	179527382	179538343	-1	None	PEX5R, PXR2
3	PEX5L	ENSG00000114757	ENST00000496721	protein_coding	PUTATIVE	None	30024	211	69	179576885	179613962	-1	None	PEX5R, PXR2
3	PEX5L	ENSG00000114757	ENST00000491640	protein_coding	PUTATIVE	None	30024	104	33	179592161	179613468	-1	None	PEX5R, PXR2
3	PEX5L	ENSG00000114757	ENST00000469198	protein_coding	PUTATIVE	None	30024	583	193	179593155	179691040	-1	None	PEX5R, PXR2
3	PEX5L	ENSG00000114757	ENST00000463761	protein_coding	PUTATIVE	None	30024	611	202	179593232	179691999	-1	None	PEX5R, PXR2
3	PEX5L	ENSG00000114757	ENST00000487198	processed_transcript	KNOWN	None	30024	None	None	179597754	179691907	-1	None	PEX5R, PXR2
3	PEX5L	ENSG00000114757	ENST00000474909	processed_transcript	KNOWN	None	30024	None	None	179618461	179754823	-1	None	PEX5R, PXR2
3	PEX5L	ENSG00000114757	ENST00000392649	protein_coding	KNOWN	CCDS58862	30024	1557	518	179518854	179615998	-1	None	PEX5R, PXR2
9	None	ENSG00000267026	ENST00000433997	antisense	KNOWN	None	None	None	None	101609511	101634560	-1	None	None
9	None	ENSG00000267026	ENST00000589257	antisense	KNOWN	None	None	None	None	101609675	101611895	-1	None	None
9	None	ENSG00000267026	ENST00000590015	antisense	KNOWN	None	None	None	None	101624521	101634545	-1	None	None
9	None	ENSG00000267026	ENST00000591184	antisense	KNOWN	None	None	None	None	101631273	101634545	-1	None	None
9	None	ENSG00000267026	ENST00000590660	antisense	KNOWN	None	None	None	None	101631273	101634545	-1	None	None
9	None	ENSG00000267026	ENST00000585610	antisense	KNOWN	None	None	None	None	101631273	101634545	-1	None	None
9	None	ENSG00000267026	ENST00000589976	antisense	KNOWN	None	None	None	None	101631273	101634697	-1	None	None
9	None	ENSG00000267026	ENST00000585704	antisense	KNOWN	None	None	None	None	101631277	101634697	-1	None	None
9	None	ENSG00000267026	ENST00000587726	antisense	KNOWN	None	None	None	None	101631284	101634697	-1	None	None
9	None	ENSG00000267026	ENST00000586750	antisense	KNOWN	None	None	None	None	101631344	101634545	-1	None	None
9	None	ENSG00000267026	ENST00000586979	antisense	KNOWN	None	None	None	None	101631349	101634545	-1	None	None
9	None	ENSG00000267026	ENST00000589059	antisense	KNOWN	None	None	None	None	101631397	101634545	-1	None	None
9	None	ENSG00000267026	ENST00000592309	antisense	KNOWN	None	None	None	None	101631447	101634545	-1	None	None
9	None	ENSG00000267026	ENST00000590999	antisense	KNOWN	None	None	None	None	101631523	101634545	-1	None	None
9	None	ENSG00000267026	ENST00000592627	antisense	KNOWN	None	None	None	None	101631619	101634542	-1	None	None
9	None	ENSG00000267026	ENST00000588535	antisense	KNOWN	None	None	None	None	101631664	101634544	-1	None	None
9	None	ENSG00000267026	ENST00000589105	antisense	KNOWN	None	None	None	None	101632396	101634697	-1	None	None
9	None	ENSG00000267026	ENST00000589430	antisense	KNOWN	None	None	None	None	101632631	101634545	-1	None	None
8	RFPL4AP5	ENSG00000248720	ENST00000514977	processed_pseudogene	KNOWN	None	45144	None	None	127186430	127187258	-1	None	None
11	OR4F2P	ENSG00000224777	ENST00000424047	unprocessed_pseudogene	KNOWN	None	8299	None	None	86649	87586	-1	None	OR4F2, hs6M1-11, S191N21
7	PIGCP2	ENSG00000229626	ENST00000433617	processed_pseudogene	KNOWN	None	45149	None	None	107449179	107450013	1	None	None
11	None	ENSG00000254468	ENST00000529266	lincRNA	KNOWN	None	None	None	None	121279	125784	-1	None	None
19	C19orf38	ENSG00000214212	ENST00000592854	protein_coding	KNOWN	CCDS45970	34073	693	230	10947251	10980146	1	None	HIDE1
19	C19orf38	ENSG00000214212	ENST00000397820	protein_coding	KNOWN	CCDS45970	34073	693	230	10959078	10980466	1	None	HIDE1
19	C19orf38	ENSG00000214212	ENST00000587494	retained_intron	KNOWN	None	34073	None	None	10959171	10970780	1	None	HIDE1
1	FUCA1	ENSG00000179163	ENST00000374479	protein_coding	KNOWN	CCDS244	4006	1401	466	24171567	24194784	-1	None	None
3	C3orf35	ENSG00000198590	ENST00000425932	protein_coding	KNOWN	CCDS46792	24082	360	119	37427760	37459592	1	None	APRG1
3	C3orf35	ENSG00000198590	ENST00000328376	protein_coding	KNOWN	CCDS43065	24082	513	170	37440653	37476988	1	None	APRG1
3	C3orf35	ENSG00000198590	ENST00000332506	nonsense_mediated_decay	KNOWN	None	24082	237	78	37440653	37476988	1	None	APRG1
3	C3orf35	ENSG00000198590	ENST00000481400	processed_transcript	KNOWN	None	24082	None	None	37440653	37476988	1	None	APRG1
3	C3orf35	ENSG00000198590	ENST00000466204	processed_transcript	KNOWN	None	24082	None	None	37440653	37476988	1	None	APRG1
3	C3orf35	ENSG00000198590	ENST00000426078	protein_coding	KNOWN	CCDS46792	24082	360	119	37441062	37459865	1	None	APRG1
3	C3orf35	ENSG00000198590	ENST00000425564	protein_coding	KNOWN	CCDS46792	24082	360	119	37452700	37459592	1	None	APRG1
3	C3orf35	ENSG00000198590	ENST00000452017	protein_coding	KNOWN	None	24082	237	78	37440653	37459168	1	None	APRG1
14	EXOC5	ENSG00000070367	ENST00000413566	protein_coding	KNOWN	CCDS45111	10696	2127	708	57670518	57735726	-1	SEC10L1	SEC10, SEC10P
14	EXOC5	ENSG00000070367	ENST00000554011	retained_intron	KNOWN	None	10696	None	None	57673512	57699090	-1	SEC10L1	SEC10, SEC10P
14	EXOC5	ENSG00000070367	ENST00000340918	protein_coding	NOVEL	None	10696	1932	643	57674878	57735617	-1	SEC10L1	SEC10, SEC10P
14	EXOC5	ENSG00000070367	ENST00000555148	nonsense_mediated_decay	KNOWN	None	10696	135	44	57675263	57735555	-1	SEC10L1	SEC10, SEC10P
14	EXOC5	ENSG00000070367	ENST00000556629	retained_intron	KNOWN	None	10696	None	None	57698289	57704224	-1	SEC10L1	SEC10, SEC10P
14	EXOC5	ENSG00000070367	ENST00000554934	processed_transcript	PUTATIVE	None	10696	None	None	57698858	57699941	-1	SEC10L1	SEC10, SEC10P
14	EXOC5	ENSG00000070367	ENST00000554598	retained_intron	KNOWN	None	10696	None	None	57706246	57735541	-1	SEC10L1	SEC10, SEC10P
14	EXOC5	ENSG00000070367	ENST00000556911	processed_transcript	KNOWN	None	10696	None	None	57709966	57714361	-1	SEC10L1	SEC10, SEC10P
14	EXOC5	ENSG00000070367	ENST00000555749	retained_intron	KNOWN	None	10696	None	None	57710831	57735443	-1	SEC10L1	SEC10, SEC10P
14	EXOC5	ENSG00000070367	ENST00000556318	protein_coding	PUTATIVE	None	10696	186	61	57710997	57735158	-1	SEC10L1	SEC10, SEC10P
7	None	ENSG00000238297	ENST00000458938	snoRNA	NOVEL	None	None	None	None	107640237	107640427	-1	None	None
7	None	ENSG00000216085	ENST00000401266	miRNA	NOVEL	None	None	None	None	107677291	107677381	-1	None	None
12	RPL30P12	ENSG00000240631	ENST00000474666	processed_pseudogene	KNOWN	None	36909	None	None	107304535	107304887	1	None	None
5	None	ENSG00000272335	ENST00000607056	lincRNA	KNOWN	None	None	None	None	44826178	44828694	1	None	None
11	CICP23	ENSG00000270921	ENST00000605013	processed_pseudogene	KNOWN	None	48833	None	None	123312	126123	1	None	None
7	None	ENSG00000266112	ENST00000582403	miRNA	NOVEL	None	None	None	None	107998751	107998849	1	None	None
1	TIPRL	ENSG00000143155	ENST00000367833	protein_coding	KNOWN	CCDS1270	30231	819	272	168148171	168169950	1	None	MGC3794, dJ69E11.3, TIP41
1	TIPRL	ENSG00000143155	ENST00000367830	protein_coding	KNOWN	CCDS30935	30231	537	178	168148293	168161633	1	None	MGC3794, dJ69E11.3, TIP41
7	None	ENSG00000231006	ENST00000457119	processed_pseudogene	KNOWN	None	None	None	None	108150677	108151420	1	None	None
4	CTSO	ENSG00000256043	ENST00000433477	protein_coding	KNOWN	CCDS3794	2542	966	321	156845270	156875069	-1	CTSO1	None
5	None	ENSG00000248148	ENST00000506656	lincRNA	KNOWN	None	None	None	None	45035301	45098749	1	None	None
5	None	ENSG00000250422	ENST00000512159	processed_pseudogene	KNOWN	None	None	None	None	45558021	45560088	1	None	None
20	MYBL2	ENSG00000101057	ENST00000217026	protein_coding	KNOWN	CCDS13322	7548	2103	700	42295797	42345136	1	None	BMYB, B-MYB
20	MYBL2	ENSG00000101057	ENST00000396863	protein_coding	KNOWN	None	7548	2031	676	42295754	42344958	1	None	BMYB, B-MYB
5	None	ENSG00000250017	ENST00000505789	processed_pseudogene	KNOWN	None	None	None	None	45574692	45576714	1	None	None
5	None	ENSG00000250122	ENST00000510987	lincRNA	KNOWN	None	None	None	None	45890318	45896072	1	None	None
11	None	ENSG00000230724	ENST00000526704	lincRNA	KNOWN	None	None	None	None	127204	138998	-1	None	None
11	None	ENSG00000230724	ENST00000607448	lincRNA	KNOWN	None	None	None	None	133573	139612	-1	None	None
11	None	ENSG00000230724	ENST00000527683	lincRNA	KNOWN	None	None	None	None	133614	139117	-1	None	None
11	None	ENSG00000230724	ENST00000540375	lincRNA	KNOWN	None	None	None	None	127115	131056	-1	None	None
13	None	ENSG00000226974	ENST00000453638	protein_coding	KNOWN	None	None	390	129	64320934	64321323	1	None	None
5	None	ENSG00000271455	ENST00000604345	processed_pseudogene	KNOWN	None	None	None	None	49899063	49899345	1	None	None
5	None	ENSG00000213956	ENST00000455837	processed_pseudogene	KNOWN	None	None	None	None	49928958	49929436	1	None	None
5	None	ENSG00000271752	ENST00000607844	lincRNA	KNOWN	None	None	None	None	49958693	49959100	-1	None	None
3	None	ENSG00000242140	ENST00000487828	processed_pseudogene	KNOWN	None	None	None	None	180864021	180864251	1	None	None
5	None	ENSG00000249405	ENST00000512599	lincRNA	KNOWN	None	None	None	None	50154594	50155854	-1	None	None
5	None	ENSG00000270830	ENST00000605737	processed_pseudogene	KNOWN	None	None	None	None	50199442	50199577	1	None	None
5	None	ENSG00000251601	ENST00000514113	lincRNA	KNOWN	None	None	None	None	50225318	50230355	-1	None	None
12	LRP1	ENSG00000123384	ENST00000553277	protein_coding	PUTATIVE	None	6692	891	296	57522276	57543842	1	APR, A2MR	LRP, CD91, LRP1A, APOER
12	LRP1	ENSG00000123384	ENST00000243077	protein_coding	KNOWN	CCDS8932	6692	13635	4544	57522282	57607134	1	APR, A2MR	LRP, CD91, LRP1A, APOER
12	LRP1	ENSG00000123384	ENST00000338962	protein_coding	PUTATIVE	None	6692	879	292	57522499	57543842	1	APR, A2MR	LRP, CD91, LRP1A, APOER
12	LRP1	ENSG00000123384	ENST00000554174	protein_coding	PUTATIVE	None	6692	1320	439	57522692	57549376	1	APR, A2MR	LRP, CD91, LRP1A, APOER
12	LRP1	ENSG00000123384	ENST00000556830	retained_intron	KNOWN	None	6692	None	None	57558211	57560195	1	APR, A2MR	LRP, CD91, LRP1A, APOER
12	LRP1	ENSG00000123384	ENST00000553446	processed_transcript	KNOWN	None	6692	None	None	57561228	57563083	1	APR, A2MR	LRP, CD91, LRP1A, APOER
12	LRP1	ENSG00000123384	ENST00000554118	protein_coding	PUTATIVE	None	6692	418	138	57581152	57586752	1	APR, A2MR	LRP, CD91, LRP1A, APOER
12	LRP1	ENSG00000123384	ENST00000555941	retained_intron	KNOWN	None	6692	None	None	57594057	57594936	1	APR, A2MR	LRP, CD91, LRP1A, APOER
12	LRP1	ENSG00000123384	ENST00000555124	protein_coding	PUTATIVE	None	6692	550	182	57594891	57597059	1	APR, A2MR	LRP, CD91, LRP1A, APOER
12	LRP1	ENSG00000123384	ENST00000556247	retained_intron	KNOWN	None	6692	None	None	57596603	57597314	1	APR, A2MR	LRP, CD91, LRP1A, APOER
12	LRP1	ENSG00000123384	ENST00000451724	retained_intron	KNOWN	None	6692	None	None	57597026	57599568	1	APR, A2MR	LRP, CD91, LRP1A, APOER
12	LRP1	ENSG00000123384	ENST00000556356	retained_intron	KNOWN	None	6692	None	None	57597401	57607123	1	APR, A2MR	LRP, CD91, LRP1A, APOER
4	RNU6-733P	ENSG00000222691	ENST00000410759	snRNA	KNOWN	None	47696	None	None	108788963	108789066	-1	None	None
6	PACRG	ENSG00000112530	ENST00000337019	protein_coding	KNOWN	CCDS5284	19152	891	296	163148164	163736523	1	None	PARK2CRG, FLJ32724, Glup, HAK005771
6	PACRG	ENSG00000112530	ENST00000366889	protein_coding	KNOWN	CCDS43524	19152	774	257	163148164	163736524	1	None	PARK2CRG, FLJ32724, Glup, HAK005771
6	PACRG	ENSG00000112530	ENST00000366888	protein_coding	KNOWN	CCDS43524	19152	774	257	163148993	163736343	1	None	PARK2CRG, FLJ32724, Glup, HAK005771
6	PACRG	ENSG00000112530	ENST00000542669	processed_transcript	KNOWN	None	19152	None	None	163149009	163313053	1	None	PARK2CRG, FLJ32724, Glup, HAK005771
6	PACRG	ENSG00000112530	ENST00000544266	retained_intron	KNOWN	None	19152	None	None	163149032	163235367	1	None	PARK2CRG, FLJ32724, Glup, HAK005771
6	PACRG	ENSG00000112530	ENST00000541974	nonsense_mediated_decay	KNOWN	None	19152	187	61	163235184	163736174	1	None	PARK2CRG, FLJ32724, Glup, HAK005771
6	PACRG	ENSG00000112530	ENST00000534958	protein_coding	PUTATIVE	None	19152	376	124	163235277	163600433	1	None	PARK2CRG, FLJ32724, Glup, HAK005771
6	PACRG	ENSG00000112530	ENST00000545186	processed_transcript	KNOWN	None	19152	None	None	163437241	163516461	1	None	PARK2CRG, FLJ32724, Glup, HAK005771
6	PACRG	ENSG00000112530	ENST00000542936	protein_coding	PUTATIVE	None	19152	383	126	163483318	163666200	1	None	PARK2CRG, FLJ32724, Glup, HAK005771
4	None	ENSG00000249604	ENST00000512428	antisense	KNOWN	None	None	None	None	108857187	108862411	-1	None	None
3	RNU6-4P	ENSG00000206932	ENST00000384205	snRNA	KNOWN	None	34253	None	None	180949525	180949631	1	RNU6-4	U6-4
7	None	ENSG00000225647	ENST00000440208	lincRNA	KNOWN	None	None	None	None	108238819	108254711	1	None	None
19	PRKD2	ENSG00000105287	ENST00000601806	protein_coding	PUTATIVE	CCDS59401	17293	2166	721	47177532	47220339	-1	None	PKD2, HSPC187, DKFZP586E0820
19	PRKD2	ENSG00000105287	ENST00000597390	nonsense_mediated_decay	KNOWN	None	17293	461	152	47177571	47195242	-1	None	PKD2, HSPC187, DKFZP586E0820
19	PRKD2	ENSG00000105287	ENST00000291281	protein_coding	KNOWN	CCDS12689	17293	2637	878	47177573	47219853	-1	None	PKD2, HSPC187, DKFZP586E0820
19	PRKD2	ENSG00000105287	ENST00000602155	retained_intron	KNOWN	None	17293	None	None	47177576	47192966	-1	None	PKD2, HSPC187, DKFZP586E0820
19	PRKD2	ENSG00000105287	ENST00000600194	protein_coding	PUTATIVE	CCDS59401	17293	2166	721	47177577	47217581	-1	None	PKD2, HSPC187, DKFZP586E0820
19	PRKD2	ENSG00000105287	ENST00000599019	retained_intron	KNOWN	None	17293	None	None	47177596	47200582	-1	None	PKD2, HSPC187, DKFZP586E0820
19	PRKD2	ENSG00000105287	ENST00000597589	retained_intron	KNOWN	None	17293	None	None	47177603	47200598	-1	None	PKD2, HSPC187, DKFZP586E0820
19	PRKD2	ENSG00000105287	ENST00000595515	protein_coding	NOVEL	None	17293	2667	888	47177765	47220372	-1	None	PKD2, HSPC187, DKFZP586E0820
19	PRKD2	ENSG00000105287	ENST00000593492	processed_transcript	KNOWN	None	17293	None	None	47181786	47189437	-1	None	PKD2, HSPC187, DKFZP586E0820
19	PRKD2	ENSG00000105287	ENST00000599464	retained_intron	KNOWN	None	17293	None	None	47184940	47195108	-1	None	PKD2, HSPC187, DKFZP586E0820
19	PRKD2	ENSG00000105287	ENST00000601605	protein_coding	PUTATIVE	None	17293	283	93	47201097	47217280	-1	None	PKD2, HSPC187, DKFZP586E0820
19	PRKD2	ENSG00000105287	ENST00000597641	nonsense_mediated_decay	KNOWN	None	17293	222	73	47207594	47219501	-1	None	PKD2, HSPC187, DKFZP586E0820
19	PRKD2	ENSG00000105287	ENST00000595132	protein_coding	PUTATIVE	None	17293	203	66	47207744	47217856	-1	None	PKD2, HSPC187, DKFZP586E0820
19	PRKD2	ENSG00000105287	ENST00000598633	protein_coding	PUTATIVE	None	17293	56	17	47207891	47220371	-1	None	PKD2, HSPC187, DKFZP586E0820
19	PRKD2	ENSG00000105287	ENST00000597088	retained_intron	KNOWN	None	17293	None	None	47213611	47217289	-1	None	PKD2, HSPC187, DKFZP586E0820
19	PRKD2	ENSG00000105287	ENST00000593363	protein_coding	KNOWN	None	17293	206	67	47219422	47220369	-1	None	PKD2, HSPC187, DKFZP586E0820
19	PRKD2	ENSG00000105287	ENST00000433867	protein_coding	KNOWN	CCDS12689	17293	2637	878	47177574	47220384	-1	None	PKD2, HSPC187, DKFZP586E0820
Y	NLGN4Y	ENSG00000165246	ENST00000471252	processed_transcript	KNOWN	None	15529	None	None	16634518	16734377	1	None	KIAA0951
Y	NLGN4Y	ENSG00000165246	ENST00000382872	protein_coding	KNOWN	CCDS56619	15529	1947	648	16634632	16957530	1	None	KIAA0951
Y	NLGN4Y	ENSG00000165246	ENST00000355905	protein_coding	KNOWN	CCDS14788	15529	2451	816	16635626	16955606	1	None	KIAA0951
Y	NLGN4Y	ENSG00000165246	ENST00000382868	protein_coding	KNOWN	None	15529	2622	873	16635626	16955606	1	None	KIAA0951
Y	NLGN4Y	ENSG00000165246	ENST00000476359	processed_transcript	KNOWN	None	15529	None	None	16635626	16955606	1	None	KIAA0951
Y	NLGN4Y	ENSG00000165246	ENST00000481089	processed_transcript	KNOWN	None	15529	None	None	16636409	16734248	1	None	KIAA0951
Y	NLGN4Y	ENSG00000165246	ENST00000339174	protein_coding	KNOWN	CCDS14788	15529	2451	816	16636454	16955527	1	None	KIAA0951
Y	NLGN4Y	ENSG00000165246	ENST00000413217	protein_coding	KNOWN	None	15529	710	235	16734061	16845429	1	None	KIAA0951
Y	NLGN4Y	ENSG00000165246	ENST00000297967	protein_coding	KNOWN	CCDS55553	15529	771	256	16733901	16845429	1	None	KIAA0951
7	None	ENSG00000270425	ENST00000604565	processed_pseudogene	KNOWN	None	None	None	None	108361052	108362045	-1	None	None
6	TMEM183AP1	ENSG00000227609	ENST00000432739	processed_pseudogene	KNOWN	None	33458	None	None	29545236	29545525	1	None	BPG126D10.10, OTTHUMG00000086663
HSCHR6_MHC_MCF	None	ENSG00000257593	ENST00000553150	protein_coding	NOVEL	None	None	288	95	33465695	33468861	-1	None	None
6	FABP7	ENSG00000164434	ENST00000368444	protein_coding	KNOWN	CCDS5127	3562	399	132	123100620	123105219	1	None	B-FABP, BLBP
6	FABP7	ENSG00000164434	ENST00000356535	protein_coding	KNOWN	None	3562	501	166	123100904	123104041	1	None	B-FABP, BLBP
7	None	ENSG00000229603	ENST00000413406	lincRNA	KNOWN	None	None	None	None	108549510	108592723	1	None	None
7	None	ENSG00000227968	ENST00000458451	processed_pseudogene	KNOWN	None	None	None	None	108634088	108635086	-1	None	None
22	None	ENSG00000234252	ENST00000430719	antisense	KNOWN	None	None	None	None	21077335	21080208	1	None	None
HSCHR6_MHC_COX	PSMB8	ENSG00000235715	ENST00000457261	protein_coding	KNOWN	None	9545	831	276	32730817	32734148	-1	LMP7	RING10, D6S216E, PSMB5i, beta5i
HSCHR6_MHC_COX	PSMB8	ENSG00000235715	ENST00000482779	retained_intron	KNOWN	None	9545	None	None	32730818	32732135	-1	LMP7	RING10, D6S216E, PSMB5i, beta5i
HSCHR6_MHC_COX	PSMB8	ENSG00000235715	ENST00000447073	protein_coding	KNOWN	None	9545	759	252	32730818	32734121	-1	LMP7	RING10, D6S216E, PSMB5i, beta5i
HSCHR6_MHC_COX	PSMB8	ENSG00000235715	ENST00000416134	protein_coding	KNOWN	None	9545	819	272	32730818	32734804	-1	LMP7	RING10, D6S216E, PSMB5i, beta5i
HSCHR6_MHC_COX	PSMB8	ENSG00000235715	ENST00000498341	retained_intron	KNOWN	None	9545	None	None	32731122	32734752	-1	LMP7	RING10, D6S216E, PSMB5i, beta5i
6	SNORD32B	ENSG00000201330	ENST00000364460	snoRNA	KNOWN	None	32719	None	None	29550026	29550109	1	None	U32B
4	LEF1-AS1	ENSG00000232021	ENST00000436413	antisense	KNOWN	None	40339	None	None	109088681	109097582	1	None	None
4	LEF1-AS1	ENSG00000232021	ENST00000508266	antisense	KNOWN	None	40339	None	None	109092927	109094924	1	None	None
4	LEF1-AS1	ENSG00000232021	ENST00000512637	antisense	KNOWN	None	40339	None	None	109093276	109097582	1	None	None
4	LEF1-AS1	ENSG00000232021	ENST00000507799	antisense	KNOWN	None	40339	None	None	109093855	109121076	1	None	None
4	LEF1-AS1	ENSG00000232021	ENST00000506314	retained_intron	KNOWN	None	40339	None	None	109093865	109097584	1	None	None
4	LEF1-AS1	ENSG00000232021	ENST00000508286	antisense	KNOWN	None	40339	None	None	109094575	109097586	1	None	None
4	LEF1-AS1	ENSG00000232021	ENST00000512129	antisense	KNOWN	None	40339	None	None	109097444	109177992	1	None	None
6	RPL13AP	ENSG00000231301	ENST00000441979	processed_pseudogene	KNOWN	None	13977	None	None	29550285	29550802	1	None	RPL13Ap, dJ271M21.3
22	RN7SL389P	ENSG00000266366	ENST00000582413	misc_RNA	KNOWN	None	46405	None	None	21309449	21309714	1	None	None
12	None	ENSG00000260329	ENST00000570282	antisense	KNOWN	None	None	None	None	107347807	107349275	-1	None	None
7	None	ENSG00000230941	ENST00000436714	lincRNA	KNOWN	None	None	None	None	108962377	108966372	-1	None	None
22	None	ENSG00000237476	ENST00000444039	lincRNA	KNOWN	None	None	None	None	21311380	21318967	1	None	None
6	SUMO2P1	ENSG00000235238	ENST00000445436	processed_pseudogene	KNOWN	None	13985	None	None	29603837	29604120	-1	SMT3H2P, SUMO2P	SMT3Bp, dJ271M21
7	AZGP1	ENSG00000160862	ENST00000483612	processed_transcript	KNOWN	None	910	None	None	99564343	99565216	-1	None	ZA2G, ZAG
7	AZGP1	ENSG00000160862	ENST00000292401	protein_coding	KNOWN	CCDS5680	910	897	298	99564353	99573780	-1	None	ZA2G, ZAG
7	AZGP1	ENSG00000160862	ENST00000419575	protein_coding	PUTATIVE	None	910	257	84	99564354	99569617	-1	None	ZA2G, ZAG
7	AZGP1	ENSG00000160862	ENST00000411734	protein_coding	PUTATIVE	None	910	684	227	99564361	99573640	-1	None	ZA2G, ZAG
7	AZGP1	ENSG00000160862	ENST00000477251	retained_intron	KNOWN	None	910	None	None	99564732	99566386	-1	None	ZA2G, ZAG
7	AZGP1	ENSG00000160862	ENST00000495765	retained_intron	KNOWN	None	910	None	None	99569188	99573665	-1	None	ZA2G, ZAG
9	AKAP2	ENSG00000241978	ENST00000434623	protein_coding	NOVEL	CCDS56581	372	2886	961	112810878	112932189	1	PRKA2	AKAP-KL, KIAA0920, DKFZp564L0716
9	AKAP2	ENSG00000241978	ENST00000374525	protein_coding	KNOWN	CCDS43861	372	2847	948	112810976	112934792	1	PRKA2	AKAP-KL, KIAA0920, DKFZp564L0716
9	AKAP2	ENSG00000241978	ENST00000495980	nonsense_mediated_decay	KNOWN	None	372	165	54	112810978	112930913	1	PRKA2	AKAP-KL, KIAA0920, DKFZp564L0716
9	AKAP2	ENSG00000241978	ENST00000480388	protein_coding	PUTATIVE	None	372	2336	777	112852477	112900706	1	PRKA2	AKAP-KL, KIAA0920, DKFZp564L0716
9	AKAP2	ENSG00000241978	ENST00000259318	protein_coding	KNOWN	CCDS48003	372	2580	859	112887781	112931091	1	PRKA2	AKAP-KL, KIAA0920, DKFZp564L0716
9	AKAP2	ENSG00000241978	ENST00000471798	processed_transcript	KNOWN	None	372	None	None	112889926	112898614	1	PRKA2	AKAP-KL, KIAA0920, DKFZp564L0716
9	AKAP2	ENSG00000241978	ENST00000482335	processed_transcript	KNOWN	None	372	None	None	112900451	112931169	1	PRKA2	AKAP-KL, KIAA0920, DKFZp564L0716
9	AKAP2	ENSG00000241978	ENST00000485762	processed_transcript	KNOWN	None	372	None	None	112910808	112930686	1	PRKA2	AKAP-KL, KIAA0920, DKFZp564L0716
9	AKAP2	ENSG00000241978	ENST00000555236	protein_coding	KNOWN	CCDS35100	372	3312	1103	112542769	112930777	1	PRKA2	AKAP-KL, KIAA0920, DKFZp564L0716
9	AKAP2	ENSG00000241978	ENST00000510514	protein_coding	KNOWN	CCDS35101	372	3273	1090	112542769	112930777	1	PRKA2	AKAP-KL, KIAA0920, DKFZp564L0716
11	None	ENSG00000255229	ENST00000527297	antisense	KNOWN	None	None	None	None	129279	186136	1	None	None
13	NALCN	ENSG00000102452	ENST00000251127	protein_coding	KNOWN	CCDS9498	19082	5217	1738	101706130	102068706	-1	VGCNL1	bA430M15.1, CanIon
13	NALCN	ENSG00000102452	ENST00000467264	processed_transcript	KNOWN	None	19082	None	None	101768791	101795572	-1	VGCNL1	bA430M15.1, CanIon
13	NALCN	ENSG00000102452	ENST00000497170	retained_intron	KNOWN	None	19082	None	None	101795094	102068813	-1	VGCNL1	bA430M15.1, CanIon
13	NALCN	ENSG00000102452	ENST00000470333	processed_transcript	KNOWN	None	19082	None	None	101832724	102068843	-1	VGCNL1	bA430M15.1, CanIon
13	NALCN	ENSG00000102452	ENST00000376196	protein_coding	KNOWN	None	19082	2007	668	101832749	102068784	-1	VGCNL1	bA430M15.1, CanIon
13	NALCN	ENSG00000102452	ENST00000376200	protein_coding	KNOWN	None	19082	657	218	102020896	102051505	-1	VGCNL1	bA430M15.1, CanIon
21	DNAJC28	ENSG00000177692	ENST00000381947	protein_coding	KNOWN	CCDS13626	1297	1167	388	34860497	34864027	-1	C21orf55	C21orf78
21	DNAJC28	ENSG00000177692	ENST00000314399	protein_coding	KNOWN	CCDS13626	1297	1167	388	34860515	34863780	-1	C21orf55	C21orf78
21	DNAJC28	ENSG00000177692	ENST00000402202	protein_coding	KNOWN	CCDS13626	1297	1167	388	34860526	34863998	-1	C21orf55	C21orf78
6	ZDHHC20P1	ENSG00000233916	ENST00000435787	processed_pseudogene	KNOWN	None	33456	None	None	29675902	29676324	-1	None	OTTHUMG00000086707
15	None	ENSG00000259583	ENST00000560351	antisense	KNOWN	None	None	None	None	101433945	101459488	-1	None	None
15	None	ENSG00000259583	ENST00000560068	antisense	KNOWN	None	None	None	None	101453408	101459443	-1	None	None
15	None	ENSG00000259583	ENST00000560461	antisense	KNOWN	None	None	None	None	101455862	101459046	-1	None	None
7	None	ENSG00000234273	ENST00000412410	lincRNA	KNOWN	None	None	None	None	109162038	109237223	-1	None	None
11	RPL27A	ENSG00000166441	ENST00000314138	protein_coding	KNOWN	CCDS7790	10329	447	148	8703958	8711419	1	None	L27A
11	RPL27A	ENSG00000166441	ENST00000529227	retained_intron	KNOWN	None	10329	None	None	8704335	8705326	1	None	L27A
11	RPL27A	ENSG00000166441	ENST00000530585	retained_intron	KNOWN	None	10329	None	None	8704335	8706036	1	None	L27A
11	RPL27A	ENSG00000166441	ENST00000531978	protein_coding	PUTATIVE	None	10329	327	108	8704335	8706962	1	None	L27A
11	RPL27A	ENSG00000166441	ENST00000524496	protein_coding	PUTATIVE	None	10329	276	91	8704336	8707394	1	None	L27A
11	RPL27A	ENSG00000166441	ENST00000534599	nonsense_mediated_decay	KNOWN	None	10329	126	41	8704339	8707392	1	None	L27A
11	RPL27A	ENSG00000166441	ENST00000532359	protein_coding	NOVEL	None	10329	342	113	8704339	8707395	1	None	L27A
11	RPL27A	ENSG00000166441	ENST00000530022	protein_coding	PUTATIVE	None	10329	276	91	8704357	8707395	1	None	L27A
11	RPL27A	ENSG00000166441	ENST00000526562	protein_coding	PUTATIVE	None	10329	276	91	8704748	8707395	1	None	L27A
11	RPL27A	ENSG00000166441	ENST00000525981	protein_coding	PUTATIVE	None	10329	128	41	8704762	8707394	1	None	L27A
11	RPL27A	ENSG00000166441	ENST00000530913	protein_coding	PUTATIVE	None	10329	276	91	8705806	8707395	1	None	L27A
11	RPL27A	ENSG00000166441	ENST00000531102	processed_transcript	PUTATIVE	None	10329	None	None	8710677	8736306	1	None	L27A
6	HCG4P11	ENSG00000225864	ENST00000427340	unprocessed_pseudogene	KNOWN	None	22930	None	None	29690758	29691748	-1	None	HCGIV-11, HCGIV.10
22	THAP7-AS1	ENSG00000230513	ENST00000436079	antisense	KNOWN	None	41013	None	None	21356175	21364414	1	None	None
22	THAP7-AS1	ENSG00000230513	ENST00000429962	antisense	KNOWN	None	41013	None	None	21356211	21357561	1	None	None
22	THAP7-AS1	ENSG00000230513	ENST00000452284	antisense	KNOWN	None	41013	None	None	21356497	21364631	1	None	None
8	NAT1	ENSG00000171428	ENST00000517441	processed_transcript	KNOWN	None	7645	None	None	18027986	18080263	1	AAC1	None
8	NAT1	ENSG00000171428	ENST00000307719	protein_coding	KNOWN	CCDS6007	7645	873	290	18067602	18081198	1	AAC1	None
8	NAT1	ENSG00000171428	ENST00000518029	protein_coding	KNOWN	CCDS6007	7645	873	290	18067639	18081198	1	AAC1	None
8	NAT1	ENSG00000171428	ENST00000517574	processed_transcript	KNOWN	None	7645	None	None	18067643	18079607	1	AAC1	None
8	NAT1	ENSG00000171428	ENST00000519006	processed_transcript	KNOWN	None	7645	None	None	18068794	18079833	1	AAC1	None
8	NAT1	ENSG00000171428	ENST00000517837	processed_transcript	KNOWN	None	7645	None	None	18068794	18079833	1	AAC1	None
8	NAT1	ENSG00000171428	ENST00000517492	protein_coding	KNOWN	CCDS6007	7645	873	290	18069731	18081198	1	AAC1	None
8	NAT1	ENSG00000171428	ENST00000520546	protein_coding	KNOWN	CCDS6007	7645	873	290	18079286	18080731	1	AAC1	None
8	NAT1	ENSG00000171428	ENST00000545197	protein_coding	KNOWN	CCDS55205	7645	1059	352	18067618	18081197	1	AAC1	None
8	NAT1	ENSG00000171428	ENST00000535084	protein_coding	KNOWN	CCDS6007	7645	873	290	18028183	18081197	1	AAC1	None
8	NAT1	ENSG00000171428	ENST00000539092	protein_coding	KNOWN	CCDS6007	7645	873	290	18067618	18081197	1	AAC1	None
8	NAT1	ENSG00000171428	ENST00000541942	protein_coding	KNOWN	CCDS6007	7645	873	290	18067618	18081197	1	AAC1	None
11	RNU6-447P	ENSG00000222225	ENST00000410293	snRNA	KNOWN	None	47410	None	None	152999	153102	-1	None	None
11	None	ENSG00000232495	ENST00000433234	pseudogene	NOVEL	None	None	None	None	203485	204363	-1	None	None
3	None	ENSG00000237806	ENST00000394301	processed_pseudogene	KNOWN	None	None	None	None	180960133	180960689	-1	None	None
9	FAM205B	ENSG00000257198	ENST00000399773	transcribed_unprocessed_pseudogene	KNOWN	None	24504	None	None	34832292	34838490	-1	C9orf144	DKFZp434J193, C9orf144A
9	FAM205B	ENSG00000257198	ENST00000455647	processed_transcript	KNOWN	None	24504	None	None	34832642	34838583	-1	C9orf144	DKFZp434J193, C9orf144A
9	FAM205B	ENSG00000257198	ENST00000378786	processed_transcript	KNOWN	None	24504	None	None	34837439	34838494	-1	C9orf144	DKFZp434J193, C9orf144A
1	CNR2	ENSG00000188822	ENST00000374472	protein_coding	KNOWN	CCDS245	2160	1083	360	24197016	24239852	-1	None	CB2
1	CNR2	ENSG00000188822	ENST00000536471	protein_coding	KNOWN	CCDS245	2160	1083	360	24197017	24285549	-1	None	CB2
13	PCDH9	ENSG00000184226	ENST00000377865	protein_coding	KNOWN	CCDS9444	8661	3714	1237	66876969	67802707	-1	None	None
13	PCDH9	ENSG00000184226	ENST00000456367	protein_coding	KNOWN	CCDS9443	8661	3612	1203	66877252	67804463	-1	None	None
13	PCDH9	ENSG00000184226	ENST00000377861	protein_coding	KNOWN	None	8661	3099	1032	67798863	67804463	-1	None	None
13	PCDH9	ENSG00000184226	ENST00000544246	protein_coding	KNOWN	CCDS9444	8661	3714	1237	66876967	67804468	-1	None	None
13	PCDH9	ENSG00000184226	ENST00000328454	protein_coding	KNOWN	CCDS9443	8661	3612	1203	66878736	67802572	-1	None	None
3	HTR3C	ENSG00000178084	ENST00000318351	protein_coding	KNOWN	CCDS3250	24003	1344	447	183770835	183778459	1	None	None
6	HLA-F-AS1	ENSG00000214922	ENST00000399247	processed_transcript	KNOWN	None	26645	None	None	29694378	29716826	-1	None	None
6	HLA-F-AS1	ENSG00000214922	ENST00000458236	processed_transcript	KNOWN	None	26645	None	None	29702805	29716770	-1	None	None
6	HLA-F-AS1	ENSG00000214922	ENST00000434086	processed_transcript	KNOWN	None	26645	None	None	29705536	29706221	-1	None	None
6	HLA-F-AS1	ENSG00000214922	ENST00000510438	transcribed_unprocessed_pseudogene	KNOWN	None	26645	None	None	29709508	29716746	-1	None	None
7	None	ENSG00000230192	ENST00000453261	processed_pseudogene	KNOWN	None	None	None	None	109300151	109300859	1	None	None
20	EIF2S2	ENSG00000125977	ENST00000374980	protein_coding	KNOWN	CCDS13231	3266	1002	333	32676104	32700138	-1	EIF2	EIF2beta, PPP1R67
7	None	ENSG00000271368	ENST00000604797	processed_pseudogene	KNOWN	None	None	None	None	109403631	109404414	1	None	None
4	IL21	ENSG00000138684	ENST00000264497	protein_coding	KNOWN	CCDS3727	6005	489	162	123533783	123542224	-1	None	Za11, IL-21
4	DUX4L5	ENSG00000259063	ENST00000605696	protein_coding	PUTATIVE	None	38689	492	163	190998973	191000483	1	None	None
4	DUX4L5	ENSG00000259063	ENST00000557283	protein_coding	KNOWN	None	38689	1275	424	190998973	191000532	1	None	None
4	DUX4L5	ENSG00000259063	ENST00000554668	protein_coding	KNOWN	None	38689	1458	485	190998673	191000289	1	None	None
11	None	ENSG00000254559	ENST00000526963	antisense	KNOWN	None	None	None	None	203623	205470	1	None	None
8	MROH1	ENSG00000179832	ENST00000532255	retained_intron	KNOWN	None	26958	None	None	145202919	145305656	1	HEATR7A	KIAA1833
8	MROH1	ENSG00000179832	ENST00000525287	retained_intron	KNOWN	None	26958	None	None	145202920	145248185	1	HEATR7A	KIAA1833
8	MROH1	ENSG00000179832	ENST00000423230	protein_coding	KNOWN	CCDS47939	26958	1269	422	145202939	145268370	1	HEATR7A	KIAA1833
8	MROH1	ENSG00000179832	ENST00000534366	protein_coding	NOVEL	None	26958	4899	1632	145203548	145316712	1	HEATR7A	KIAA1833
8	MROH1	ENSG00000179832	ENST00000527552	retained_intron	KNOWN	None	26958	None	None	145203713	145307571	1	HEATR7A	KIAA1833
8	MROH1	ENSG00000179832	ENST00000528919	protein_coding	KNOWN	CCDS47938	26958	4926	1641	145215928	145316830	1	HEATR7A	KIAA1833
8	MROH1	ENSG00000179832	ENST00000534508	retained_intron	KNOWN	None	26958	None	None	145234358	145256082	1	HEATR7A	KIAA1833
8	MROH1	ENSG00000179832	ENST00000527071	processed_transcript	PUTATIVE	None	26958	None	None	145254022	145269392	1	HEATR7A	KIAA1833
8	MROH1	ENSG00000179832	ENST00000528664	retained_intron	KNOWN	None	26958	None	None	145309325	145310540	1	HEATR7A	KIAA1833
8	MROH1	ENSG00000179832	ENST00000398656	protein_coding	KNOWN	CCDS47938	26958	4926	1641	145202939	145316643	1	HEATR7A	KIAA1833
8	MROH1	ENSG00000179832	ENST00000326134	protein_coding	KNOWN	CCDS47938	26958	4926	1641	145218673	145316843	1	HEATR7A	KIAA1833
8	MROH1	ENSG00000179832	ENST00000544576	protein_coding	KNOWN	None	26958	1848	615	145294015	145316828	1	HEATR7A	KIAA1833
7	EIF3IP1	ENSG00000237064	ENST00000433048	processed_pseudogene	KNOWN	None	13277	None	None	109599275	109600241	-1	None	RG208K23
1	SFT2D2	ENSG00000213064	ENST00000471981	processed_transcript	KNOWN	None	25140	None	None	168195176	168206008	1	None	UNQ512, dJ747L4.C1.2
1	SFT2D2	ENSG00000213064	ENST00000367829	protein_coding	KNOWN	None	25140	327	108	168195188	168208398	1	None	UNQ512, dJ747L4.C1.2
1	SFT2D2	ENSG00000213064	ENST00000271375	protein_coding	KNOWN	CCDS1271	25140	483	160	168195246	168212378	1	None	UNQ512, dJ747L4.C1.2
1	SFT2D2	ENSG00000213064	ENST00000367825	protein_coding	KNOWN	None	25140	327	108	168195255	168212087	1	None	UNQ512, dJ747L4.C1.2
11	None	ENSG00000255026	ENST00000533924	antisense	KNOWN	None	None	None	None	287305	288298	1	None	None
11	None	ENSG00000255026	ENST00000534742	antisense	KNOWN	None	None	None	None	288038	288987	1	None	None
11	None	ENSG00000255026	ENST00000525217	antisense	KNOWN	None	None	None	None	288086	288978	1	None	None
12	None	ENSG00000257548	ENST00000547679	processed_transcript	KNOWN	None	None	None	None	107487076	107517092	1	None	None
9	None	ENSG00000213590	ENST00000395082	processed_pseudogene	KNOWN	None	None	None	None	139830292	139831613	1	None	None
17	None	ENSG00000269402	ENST00000600034	protein_coding	KNOWN	None	None	507	168	30506379	30506885	-1	None	None
HSCHR6_MHC_MCF	None	ENSG00000272251	ENST00000607798	miRNA	NOVEL	None	None	None	None	28743697	28743804	1	None	None
HSCHR6_MHC_DBB	ATAT1	ENSG00000229061	ENST00000443114	protein_coding	KNOWN	None	21186	903	300	30584860	30602696	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_DBB	ATAT1	ENSG00000229061	ENST00000454794	protein_coding	KNOWN	None	21186	1266	421	30584874	30604840	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_DBB	ATAT1	ENSG00000229061	ENST00000443391	protein_coding	KNOWN	None	21186	933	310	30584893	30602696	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_DBB	ATAT1	ENSG00000229061	ENST00000446100	protein_coding	KNOWN	None	21186	972	323	30584894	30602696	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_DBB	ATAT1	ENSG00000229061	ENST00000456704	protein_coding	KNOWN	None	21186	1002	333	30584904	30602696	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_DBB	ATAT1	ENSG00000229061	ENST00000448670	protein_coding	KNOWN	None	21186	1230	409	30584904	30604840	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_DBB	ATAT1	ENSG00000229061	ENST00000481303	processed_transcript	KNOWN	None	21186	None	None	30584911	30604840	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_DBB	ATAT1	ENSG00000229061	ENST00000494952	retained_intron	KNOWN	None	21186	None	None	30584933	30598715	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_DBB	ATAT1	ENSG00000229061	ENST00000481270	retained_intron	KNOWN	None	21186	None	None	30584938	30604840	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_DBB	ATAT1	ENSG00000229061	ENST00000478297	processed_transcript	KNOWN	None	21186	None	None	30586418	30604419	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_DBB	ATAT1	ENSG00000229061	ENST00000471933	retained_intron	KNOWN	None	21186	None	None	30599839	30604840	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_DBB	ATAT1	ENSG00000229061	ENST00000494199	retained_intron	KNOWN	None	21186	None	None	30600936	30604840	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_DBB	ATAT1	ENSG00000229061	ENST00000553018	protein_coding	KNOWN	None	21186	1197	398	30584874	30604819	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
12	C12orf71	ENSG00000214700	ENST00000429849	protein_coding	KNOWN	CCDS44851	34452	810	269	27233991	27235447	-1	None	LOC728858
7	RPL3P8	ENSG00000232199	ENST00000432928	processed_pseudogene	KNOWN	None	35498	None	None	109638491	109639681	-1	None	None
HSCHR6_MHC_MCF	None	ENSG00000272422	ENST00000606046	miRNA	NOVEL	None	None	None	None	28763753	28763816	-1	None	None
1	PNRC2	ENSG00000189266	ENST00000471915	protein_coding	KNOWN	None	23158	8	1	24285599	24287955	1	None	None
1	PNRC2	ENSG00000189266	ENST00000334351	protein_coding	KNOWN	CCDS246	23158	420	139	24286302	24289952	1	None	None
1	PNRC2	ENSG00000189266	ENST00000374468	protein_coding	KNOWN	CCDS246	23158	420	139	24286318	24288370	1	None	None
1	PNRC2	ENSG00000189266	ENST00000579103	protein_coding	PUTATIVE	None	23158	171	56	24287458	24287933	1	None	None
7	None	ENSG00000226965	ENST00000435466	lincRNA	KNOWN	None	None	None	None	110072296	110174811	-1	None	None
HSCHR6_MHC_MCF	None	ENSG00000235668	ENST00000436208	processed_transcript	PUTATIVE	None	None	None	None	28805655	28806792	-1	None	None
5	CAST	ENSG00000153113	ENST00000509602	processed_transcript	KNOWN	None	1515	None	None	95860971	95882222	1	None	None
5	CAST	ENSG00000153113	ENST00000505143	protein_coding	PUTATIVE	None	1515	864	287	95865525	96075822	1	None	None
5	CAST	ENSG00000153113	ENST00000338252	protein_coding	KNOWN	CCDS54883	1515	2088	695	95997777	96108937	1	None	None
5	CAST	ENSG00000153113	ENST00000508830	protein_coding	PUTATIVE	None	1515	2376	791	95997778	96107383	1	None	None
5	CAST	ENSG00000153113	ENST00000511097	protein_coding	NOVEL	None	1515	1179	392	95997907	96082129	1	None	None
5	CAST	ENSG00000153113	ENST00000395812	protein_coding	PUTATIVE	CCDS54882	1515	2253	750	95997941	96110387	1	None	None
5	CAST	ENSG00000153113	ENST00000515160	retained_intron	KNOWN	None	1515	None	None	95998107	96031998	1	None	None
5	CAST	ENSG00000153113	ENST00000507487	processed_transcript	KNOWN	None	1515	None	None	95998107	96062563	1	None	None
5	CAST	ENSG00000153113	ENST00000421689	protein_coding	NOVEL	None	1515	913	303	95998127	96077021	1	None	None
5	CAST	ENSG00000153113	ENST00000510756	protein_coding	PUTATIVE	None	1515	2310	769	95998127	96107383	1	None	None
5	CAST	ENSG00000153113	ENST00000507836	processed_transcript	KNOWN	None	1515	None	None	95998132	96015336	1	None	None
5	CAST	ENSG00000153113	ENST00000512620	protein_coding	NOVEL	None	1515	904	300	95998179	96077289	1	None	None
5	CAST	ENSG00000153113	ENST00000514845	protein_coding	PUTATIVE	None	1515	451	149	95998704	96066553	1	None	None
5	CAST	ENSG00000153113	ENST00000510245	retained_intron	KNOWN	None	1515	None	None	95998725	96011657	1	None	None
5	CAST	ENSG00000153113	ENST00000506811	protein_coding	PUTATIVE	None	1515	470	155	95998729	96065395	1	None	None
5	CAST	ENSG00000153113	ENST00000514055	protein_coding	NOVEL	None	1515	447	148	95998729	96065429	1	None	None
5	CAST	ENSG00000153113	ENST00000508608	protein_coding	PUTATIVE	None	1515	2265	754	95998757	96108396	1	None	None
5	CAST	ENSG00000153113	ENST00000341926	protein_coding	KNOWN	None	1515	2127	708	96031489	96108518	1	None	None
5	CAST	ENSG00000153113	ENST00000505402	processed_transcript	PUTATIVE	None	1515	None	None	96031581	96050675	1	None	None
5	CAST	ENSG00000153113	ENST00000511049	protein_coding	PUTATIVE	None	1515	2082	693	96038504	96109274	1	None	None
5	CAST	ENSG00000153113	ENST00000309190	protein_coding	KNOWN	CCDS4082	1515	2061	686	96038505	96110387	1	None	None
5	CAST	ENSG00000153113	ENST00000510156	protein_coding	KNOWN	None	1515	1926	641	96038506	96103186	1	None	None
5	CAST	ENSG00000153113	ENST00000508117	nonsense_mediated_decay	KNOWN	None	1515	249	82	96038507	96071891	1	None	None
5	CAST	ENSG00000153113	ENST00000504221	processed_transcript	PUTATIVE	None	1515	None	None	96038510	96050812	1	None	None
5	CAST	ENSG00000153113	ENST00000509903	protein_coding	NOVEL	None	1515	2022	673	96038510	96107383	1	None	None
5	CAST	ENSG00000153113	ENST00000511782	protein_coding	PUTATIVE	None	1515	2085	694	96038510	96108490	1	None	None
5	CAST	ENSG00000153113	ENST00000504465	protein_coding	NOVEL	None	1515	1911	636	96038510	96108596	1	None	None
5	CAST	ENSG00000153113	ENST00000513666	retained_intron	KNOWN	None	1515	None	None	96038547	96090900	1	None	None
5	CAST	ENSG00000153113	ENST00000508197	protein_coding	NOVEL	None	1515	469	155	96038561	96075808	1	None	None
5	CAST	ENSG00000153113	ENST00000348386	processed_transcript	KNOWN	None	1515	None	None	96064013	96108523	1	None	None
5	CAST	ENSG00000153113	ENST00000504532	retained_intron	KNOWN	None	1515	None	None	96064292	96065407	1	None	None
5	CAST	ENSG00000153113	ENST00000515063	retained_intron	KNOWN	None	1515	None	None	96071880	96077513	1	None	None
5	CAST	ENSG00000153113	ENST00000510500	protein_coding	NOVEL	None	1515	1396	464	96077029	96108759	1	None	None
5	CAST	ENSG00000153113	ENST00000437034	protein_coding	NOVEL	None	1515	1310	435	96077046	96110387	1	None	None
5	CAST	ENSG00000153113	ENST00000508579	protein_coding	PUTATIVE	None	1515	1272	423	96077578	96108517	1	None	None
5	CAST	ENSG00000153113	ENST00000509259	protein_coding	PUTATIVE	None	1515	275	90	96077899	96086325	1	None	None
5	CAST	ENSG00000153113	ENST00000503828	protein_coding	PUTATIVE	None	1515	235	77	96077925	96083103	1	None	None
5	CAST	ENSG00000153113	ENST00000515663	protein_coding	NOVEL	None	1515	1296	431	96079244	96108410	1	None	None
5	CAST	ENSG00000153113	ENST00000484552	nonsense_mediated_decay	KNOWN	None	1515	1351	449	96079273	96109116	1	None	None
5	CAST	ENSG00000153113	ENST00000512191	retained_intron	KNOWN	None	1515	None	None	96079377	96084421	1	None	None
5	CAST	ENSG00000153113	ENST00000510098	nonsense_mediated_decay	KNOWN	None	1515	612	203	96093290	96115299	1	None	None
5	CAST	ENSG00000153113	ENST00000509529	retained_intron	KNOWN	None	1515	None	None	96104652	96108758	1	None	None
5	CAST	ENSG00000153113	ENST00000395813	protein_coding	KNOWN	None	1515	2376	791	95997941	96110387	1	None	None
5	CAST	ENSG00000153113	ENST00000359176	protein_coding	KNOWN	None	1515	2319	772	95997941	96110387	1	None	None
5	CAST	ENSG00000153113	ENST00000325674	protein_coding	KNOWN	None	1515	2271	756	95997941	96110387	1	None	None
19	F2RL3	ENSG00000127533	ENST00000248076	protein_coding	KNOWN	CCDS12350	3540	1158	385	16999671	17003417	1	None	PAR4
19	F2RL3	ENSG00000127533	ENST00000599210	protein_coding	PUTATIVE	None	3540	342	113	17000001	17000891	1	None	PAR4
5	None	ENSG00000250360	ENST00000510349	lincRNA	KNOWN	None	None	None	None	50261521	50262842	-1	None	None
HSCHR6_MHC_MCF	None	ENSG00000234966	ENST00000423184	processed_transcript	KNOWN	None	None	None	None	28827410	28831132	-1	None	None
6	None	ENSG00000240050	ENST00000449314	lincRNA	KNOWN	None	None	None	None	116601362	116691436	1	None	None
6	None	ENSG00000240050	ENST00000453463	lincRNA	KNOWN	None	None	None	None	116601381	116691436	1	None	None
3	PARP3	ENSG00000041880	ENST00000417220	protein_coding	KNOWN	CCDS43097	273	1602	533	51976361	51982878	1	ADPRTL3	ADPRT3, IRT1, hPARP-3, pADPRT-3
3	PARP3	ENSG00000041880	ENST00000398755	protein_coding	KNOWN	CCDS46839	273	1623	540	51976375	51982878	1	ADPRTL3	ADPRT3, IRT1, hPARP-3, pADPRT-3
3	PARP3	ENSG00000041880	ENST00000471971	nonsense_mediated_decay	KNOWN	None	273	162	53	51976387	51982619	1	ADPRTL3	ADPRT3, IRT1, hPARP-3, pADPRT-3
3	PARP3	ENSG00000041880	ENST00000470601	retained_intron	KNOWN	None	273	None	None	51976953	51978916	1	ADPRTL3	ADPRT3, IRT1, hPARP-3, pADPRT-3
3	PARP3	ENSG00000041880	ENST00000470749	retained_intron	KNOWN	None	273	None	None	51977315	51978733	1	ADPRTL3	ADPRT3, IRT1, hPARP-3, pADPRT-3
3	PARP3	ENSG00000041880	ENST00000498510	protein_coding	KNOWN	None	273	995	330	51977327	51979644	1	ADPRTL3	ADPRT3, IRT1, hPARP-3, pADPRT-3
3	PARP3	ENSG00000041880	ENST00000475782	retained_intron	KNOWN	None	273	None	None	51978803	51980277	1	ADPRTL3	ADPRT3, IRT1, hPARP-3, pADPRT-3
3	PARP3	ENSG00000041880	ENST00000486510	processed_transcript	KNOWN	None	273	None	None	51981641	51982498	1	ADPRTL3	ADPRT3, IRT1, hPARP-3, pADPRT-3
3	PARP3	ENSG00000041880	ENST00000431474	protein_coding	KNOWN	CCDS43097	273	1602	533	51976361	51982883	1	ADPRTL3	ADPRT3, IRT1, hPARP-3, pADPRT-3
HSCHR6_MHC_MCF	RPL13P	ENSG00000234904	ENST00000427418	processed_pseudogene	KNOWN	None	13978	None	None	28829201	28829832	1	None	BBC1p, dJ111M5.1
9	None	ENSG00000260190	ENST00000569497	sense_overlapping	KNOWN	None	None	None	None	139831621	139832440	-1	None	None
3	None	ENSG00000241231	ENST00000460993	lincRNA	KNOWN	None	None	None	None	181138846	181160274	-1	None	None
11	None	ENSG00000255533	ENST00000533113	processed_pseudogene	KNOWN	None	None	None	None	303856	304144	-1	None	None
11	None	ENSG00000215504	ENST00000544076	protein_coding	KNOWN	None	None	597	198	85563600	85565986	-1	None	None
HSCHR6_MHC_MCF	ZNF90P2	ENSG00000232017	ENST00000442156	processed_pseudogene	KNOWN	None	21687	None	None	28856780	28857854	-1	ZNF463P	dJ111M5.3
9	None	ENSG00000238268	ENST00000413913	processed_transcript	KNOWN	None	None	None	None	139869546	139871433	1	None	None
7	IMMP2L-IT1	ENSG00000228540	ENST00000451832	sense_intronic	KNOWN	None	41402	None	None	110364215	110365881	-1	None	None
16	SULT1A4	ENSG00000213648	ENST00000360423	protein_coding	KNOWN	CCDS32427	30004	888	295	29471210	29476297	1	None	None
16	SULT1A4	ENSG00000213648	ENST00000569544	nonsense_mediated_decay	KNOWN	None	30004	264	87	29472703	29475647	1	None	None
16	SULT1A4	ENSG00000213648	ENST00000565290	protein_coding	KNOWN	None	30004	906	301	29472707	29475896	1	None	None
16	SULT1A4	ENSG00000213648	ENST00000563944	nonsense_mediated_decay	KNOWN	None	30004	152	49	29473046	29476008	1	None	None
16	SULT1A4	ENSG00000213648	ENST00000562941	retained_intron	KNOWN	None	30004	None	None	29473050	29475276	1	None	None
16	SULT1A4	ENSG00000213648	ENST00000344620	protein_coding	KNOWN	CCDS32427	30004	888	295	29467127	29476300	1	None	None
16	SULT1A4	ENSG00000213648	ENST00000395400	protein_coding	KNOWN	CCDS32427	30004	888	295	29467780	29475984	1	None	None
6	None	ENSG00000272403	ENST00000606179	lincRNA	KNOWN	None	None	None	None	116765323	116766023	1	None	None
HSCHR6_MHC_MCF	HCG14	ENSG00000236835	ENST00000420516	processed_transcript	KNOWN	None	18323	None	None	28864474	28865264	1	None	dJ111M5.4
9	None	ENSG00000235117	ENST00000457302	lincRNA	KNOWN	None	None	None	None	139931492	139932407	1	None	None
7	None	ENSG00000221279	ENST00000408352	miRNA	NOVEL	None	None	None	None	110568374	110568453	1	None	None
2	SNED1	ENSG00000162804	ENST00000401884	protein_coding	KNOWN	None	24696	3975	1324	241938255	242013401	1	None	FLJ00133, SST3, Snep
2	SNED1	ENSG00000162804	ENST00000405547	protein_coding	KNOWN	None	24696	4059	1352	241938255	242034978	1	None	FLJ00133, SST3, Snep
2	SNED1	ENSG00000162804	ENST00000310397	protein_coding	KNOWN	CCDS46562	24696	4242	1413	241938255	242034983	1	None	FLJ00133, SST3, Snep
2	SNED1	ENSG00000162804	ENST00000493358	processed_transcript	KNOWN	None	24696	None	None	241974951	241979798	1	None	FLJ00133, SST3, Snep
2	SNED1	ENSG00000162804	ENST00000401644	protein_coding	NOVEL	None	24696	900	299	241976637	241991236	1	None	FLJ00133, SST3, Snep
2	SNED1	ENSG00000162804	ENST00000431690	protein_coding	NOVEL	None	24696	816	271	241976753	241989458	1	None	FLJ00133, SST3, Snep
2	SNED1	ENSG00000162804	ENST00000420591	protein_coding	PUTATIVE	None	24696	201	66	241979533	241980779	1	None	FLJ00133, SST3, Snep
2	SNED1	ENSG00000162804	ENST00000469006	processed_transcript	KNOWN	None	24696	None	None	241987748	241992743	1	None	FLJ00133, SST3, Snep
2	SNED1	ENSG00000162804	ENST00000483962	retained_intron	KNOWN	None	24696	None	None	241990694	241991811	1	None	FLJ00133, SST3, Snep
2	SNED1	ENSG00000162804	ENST00000466618	retained_intron	KNOWN	None	24696	None	None	242002795	242031268	1	None	FLJ00133, SST3, Snep
2	SNED1	ENSG00000162804	ENST00000491761	retained_intron	KNOWN	None	24696	None	None	242010821	242015020	1	None	FLJ00133, SST3, Snep
2	SNED1	ENSG00000162804	ENST00000342631	protein_coding	KNOWN	None	24696	4143	1380	241938255	242032483	1	None	FLJ00133, SST3, Snep
2	YWHAQ	ENSG00000134308	ENST00000381844	protein_coding	KNOWN	CCDS1666	12854	738	245	9724101	9770745	-1	None	HS1, 14-3-3
2	YWHAQ	ENSG00000134308	ENST00000238081	protein_coding	KNOWN	CCDS1666	12854	738	245	9724101	9771143	-1	None	HS1, 14-3-3
2	YWHAQ	ENSG00000134308	ENST00000474715	processed_transcript	KNOWN	None	12854	None	None	9725210	9760830	-1	None	HS1, 14-3-3
2	YWHAQ	ENSG00000134308	ENST00000446619	protein_coding	KNOWN	None	12854	449	148	9728427	9771075	-1	None	HS1, 14-3-3
2	YWHAQ	ENSG00000134308	ENST00000460093	processed_transcript	PUTATIVE	None	12854	None	None	9768832	9770397	-1	None	HS1, 14-3-3
11	None	ENSG00000254910	ENST00000526612	antisense	KNOWN	None	None	None	None	310139	311141	-1	None	None
10	None	ENSG00000234134	ENST00000430970	sense_intronic	KNOWN	None	None	None	None	127407340	127407934	-1	None	None
7	None	ENSG00000238922	ENST00000459130	snoRNA	NOVEL	None	None	None	None	110749324	110749413	-1	None	None
9	FAM205CP	ENSG00000187791	ENST00000340783	processed_transcript	KNOWN	None	42673	None	None	34889061	34895775	-1	None	None
9	FAM205CP	ENSG00000187791	ENST00000603640	transcribed_unprocessed_pseudogene	KNOWN	None	42673	None	None	34889253	34895719	-1	None	None
9	FAM205CP	ENSG00000187791	ENST00000603592	processed_transcript	KNOWN	None	42673	None	None	34889558	34895758	-1	None	None
9	FAM205CP	ENSG00000187791	ENST00000604781	unprocessed_pseudogene	KNOWN	None	42673	None	None	34889391	34895775	-1	None	None
17	TUBG2	ENSG00000037042	ENST00000251412	protein_coding	KNOWN	CCDS32658	12419	1356	451	40811323	40819024	1	None	None
17	TUBG2	ENSG00000037042	ENST00000588870	retained_intron	KNOWN	None	12419	None	None	40811325	40818840	1	None	None
17	TUBG2	ENSG00000037042	ENST00000590396	retained_intron	KNOWN	None	12419	None	None	40812278	40813409	1	None	None
20	PSMA7	ENSG00000101182	ENST00000442551	protein_coding	KNOWN	None	9536	563	186	60711791	60714961	-1	None	XAPC7, C6, HSPC, RC6-1
20	PSMA7	ENSG00000101182	ENST00000370873	protein_coding	KNOWN	CCDS13489	9536	747	248	60711791	60718486	-1	None	XAPC7, C6, HSPC, RC6-1
20	PSMA7	ENSG00000101182	ENST00000484488	processed_transcript	KNOWN	None	9536	None	None	60711859	60718496	-1	None	XAPC7, C6, HSPC, RC6-1
20	PSMA7	ENSG00000101182	ENST00000370861	protein_coding	KNOWN	None	9536	537	178	60711913	60717652	-1	None	XAPC7, C6, HSPC, RC6-1
20	PSMA7	ENSG00000101182	ENST00000486193	processed_transcript	KNOWN	None	9536	None	None	60711963	60714452	-1	None	XAPC7, C6, HSPC, RC6-1
20	PSMA7	ENSG00000101182	ENST00000370858	protein_coding	KNOWN	None	9536	450	149	60714387	60718486	-1	None	XAPC7, C6, HSPC, RC6-1
17	FAM83G	ENSG00000188522	ENST00000388995	protein_coding	KNOWN	CCDS42276	32554	2472	823	18872102	18908117	-1	None	FLJ41564
17	FAM83G	ENSG00000188522	ENST00000399096	retained_intron	KNOWN	None	32554	None	None	18879023	18907093	-1	None	FLJ41564
17	FAM83G	ENSG00000188522	ENST00000580115	protein_coding	PUTATIVE	None	32554	426	141	18880244	18881201	-1	None	FLJ41564
17	FAM83G	ENSG00000188522	ENST00000345041	protein_coding	KNOWN	CCDS42276	32554	2472	823	18874381	18907551	-1	None	FLJ41564
17	FAM83G	ENSG00000188522	ENST00000585154	protein_coding	KNOWN	CCDS42276	32554	2472	823	18874381	18907489	-1	None	FLJ41564
11	None	ENSG00000264299	ENST00000582823	antisense	KNOWN	None	None	None	None	125827795	125828547	1	None	None
10	None	ENSG00000236991	ENST00000449436	antisense	KNOWN	None	None	None	None	127433296	127439035	-1	None	None
10	None	ENSG00000236991	ENST00000600784	antisense	KNOWN	None	None	None	None	127433298	127439051	-1	None	None
10	None	ENSG00000236991	ENST00000594025	antisense	KNOWN	None	None	None	None	127433365	127440679	-1	None	None
10	None	ENSG00000236991	ENST00000602030	antisense	KNOWN	None	None	None	None	127433370	127440670	-1	None	None
10	None	ENSG00000236991	ENST00000593871	antisense	KNOWN	None	None	None	None	127433799	127440634	-1	None	None
10	None	ENSG00000236991	ENST00000601363	antisense	KNOWN	None	None	None	None	127437384	127440643	-1	None	None
19	ZNF559-ZNF177	ENSG00000188629	ENST00000343499	protein_coding	KNOWN	CCDS12212	42964	966	321	9473696	9492866	1	None	None
19	ZNF559-ZNF177	ENSG00000188629	ENST00000592912	protein_coding	KNOWN	None	42964	51	16	9473707	9489655	1	None	None
19	ZNF559-ZNF177	ENSG00000188629	ENST00000589262	protein_coding	KNOWN	CCDS54214	42964	1446	481	9487087	9492861	1	None	None
19	ZNF559-ZNF177	ENSG00000188629	ENST00000590616	protein_coding	PUTATIVE	None	42964	381	126	9488945	9493293	1	None	None
19	ZNF559-ZNF177	ENSG00000188629	ENST00000602738	protein_coding	KNOWN	CCDS12212	42964	966	321	9435021	9493291	1	None	None
19	ZNF559-ZNF177	ENSG00000188629	ENST00000434737	protein_coding	KNOWN	CCDS54214	42964	1446	481	9488932	9493291	1	None	None
19	ZNF559-ZNF177	ENSG00000188629	ENST00000602856	protein_coding	KNOWN	CCDS56081	42964	363	120	9435401	9492864	1	None	None
19	ZNF177	ENSG00000188629	ENST00000343499	protein_coding	KNOWN	CCDS12212	12966	966	321	9473696	9492866	1	None	None
19	ZNF177	ENSG00000188629	ENST00000592912	protein_coding	KNOWN	None	12966	51	16	9473707	9489655	1	None	None
19	ZNF177	ENSG00000188629	ENST00000589262	protein_coding	KNOWN	CCDS54214	12966	1446	481	9487087	9492861	1	None	None
19	ZNF177	ENSG00000188629	ENST00000590616	protein_coding	PUTATIVE	None	12966	381	126	9488945	9493293	1	None	None
19	ZNF177	ENSG00000188629	ENST00000602738	protein_coding	KNOWN	CCDS12212	12966	966	321	9435021	9493291	1	None	None
19	ZNF177	ENSG00000188629	ENST00000434737	protein_coding	KNOWN	CCDS54214	12966	1446	481	9488932	9493291	1	None	None
19	ZNF177	ENSG00000188629	ENST00000602856	protein_coding	KNOWN	CCDS56081	12966	363	120	9435401	9492864	1	None	None
18	DSG1	ENSG00000134760	ENST00000257192	protein_coding	KNOWN	CCDS11896	3048	3150	1049	28898052	28936992	1	DSG	CDHF4
18	DSG1	ENSG00000134760	ENST00000462981	protein_coding	PUTATIVE	None	3048	1227	408	28923594	28935630	1	DSG	CDHF4
16	ALDOA	ENSG00000149925	ENST00000338110	protein_coding	KNOWN	CCDS10668	414	1095	364	30064411	30081735	1	None	None
16	ALDOA	ENSG00000149925	ENST00000395248	protein_coding	NOVEL	CCDS58450	414	1257	418	30064444	30081741	1	None	None
16	ALDOA	ENSG00000149925	ENST00000575627	processed_transcript	KNOWN	None	414	None	None	30064448	30075249	1	None	None
16	ALDOA	ENSG00000149925	ENST00000566897	protein_coding	KNOWN	CCDS10668	414	1095	364	30064448	30081734	1	None	None
16	ALDOA	ENSG00000149925	ENST00000568435	protein_coding	KNOWN	None	414	36	11	30064455	30078611	1	None	None
16	ALDOA	ENSG00000149925	ENST00000562240	processed_transcript	KNOWN	None	414	None	None	30064481	30075359	1	None	None
16	ALDOA	ENSG00000149925	ENST00000566280	retained_intron	KNOWN	None	414	None	None	30064659	30066528	1	None	None
16	ALDOA	ENSG00000149925	ENST00000567249	retained_intron	KNOWN	None	414	None	None	30065896	30066649	1	None	None
16	ALDOA	ENSG00000149925	ENST00000562302	retained_intron	KNOWN	None	414	None	None	30075485	30076161	1	None	None
16	ALDOA	ENSG00000149925	ENST00000562168	protein_coding	NOVEL	None	414	486	161	30075493	30080278	1	None	None
16	ALDOA	ENSG00000149925	ENST00000569545	protein_coding	KNOWN	CCDS10668	414	1095	364	30075506	30081578	1	None	None
16	ALDOA	ENSG00000149925	ENST00000563060	protein_coding	KNOWN	CCDS10668	414	1095	364	30075595	30081735	1	None	None
16	ALDOA	ENSG00000149925	ENST00000564521	retained_intron	KNOWN	None	414	None	None	30075755	30081778	1	None	None
16	ALDOA	ENSG00000149925	ENST00000412304	protein_coding	KNOWN	CCDS10668	414	1095	364	30075818	30081732	1	None	None
16	ALDOA	ENSG00000149925	ENST00000563987	protein_coding	KNOWN	None	414	467	154	30076060	30080226	1	None	None
16	ALDOA	ENSG00000149925	ENST00000564546	protein_coding	KNOWN	CCDS10668	414	1095	364	30076469	30081741	1	None	None
16	ALDOA	ENSG00000149925	ENST00000564595	protein_coding	NOVEL	CCDS58450	414	1257	418	30077055	30081732	1	None	None
16	ALDOA	ENSG00000149925	ENST00000567555	retained_intron	KNOWN	None	414	None	None	30077083	30078942	1	None	None
16	ALDOA	ENSG00000149925	ENST00000569798	protein_coding	NOVEL	None	414	1086	361	30077093	30081673	1	None	None
16	ALDOA	ENSG00000149925	ENST00000395240	protein_coding	NOVEL	None	414	1107	368	30077098	30081701	1	None	None
16	ALDOA	ENSG00000149925	ENST00000566012	processed_transcript	KNOWN	None	414	None	None	30077112	30079573	1	None	None
16	ALDOA	ENSG00000149925	ENST00000566846	protein_coding	NOVEL	None	414	421	139	30077179	30080213	1	None	None
16	ALDOA	ENSG00000149925	ENST00000562679	protein_coding	NOVEL	None	414	835	277	30077508	30080868	1	None	None
16	ALDOA	ENSG00000149925	ENST00000564688	protein_coding	NOVEL	None	414	613	203	30078824	30081213	1	None	None
16	ALDOA	ENSG00000149925	ENST00000566146	retained_intron	KNOWN	None	414	None	None	30080158	30080849	1	None	None
16	ALDOA	ENSG00000149925	ENST00000566130	retained_intron	KNOWN	None	414	None	None	30080583	30081735	1	None	None
16	ALDOA	ENSG00000149925	ENST00000565355	protein_coding	PUTATIVE	None	414	392	129	30080899	30081738	1	None	None
5	RNY3P1	ENSG00000201955	ENST00000365085	misc_RNA	KNOWN	None	42477	None	None	78466057	78466158	-1	None	None
17	RHBDL3	ENSG00000141314	ENST00000578006	nonsense_mediated_decay	KNOWN	None	16502	156	51	30593195	30648381	1	RHBDL4	VRHO
17	RHBDL3	ENSG00000141314	ENST00000431505	protein_coding	PUTATIVE	None	16502	1248	415	30593195	30648382	1	RHBDL4	VRHO
17	RHBDL3	ENSG00000141314	ENST00000269051	protein_coding	KNOWN	CCDS32613	16502	1215	404	30593195	30651680	1	RHBDL4	VRHO
17	RHBDL3	ENSG00000141314	ENST00000538145	protein_coding	NOVEL	None	16502	1191	396	30593196	30648382	1	RHBDL4	VRHO
17	RHBDL3	ENSG00000141314	ENST00000536287	protein_coding	PUTATIVE	None	16502	921	306	30594823	30651675	1	RHBDL4	VRHO
17	RHBDL3	ENSG00000141314	ENST00000582967	retained_intron	KNOWN	None	16502	None	None	30611171	30643293	1	RHBDL4	VRHO
11	CCDC83	ENSG00000150676	ENST00000280245	protein_coding	KNOWN	CCDS8271	28535	1335	444	85566144	85631064	1	None	MGC34732, FLJ42119
11	CCDC83	ENSG00000150676	ENST00000342404	protein_coding	KNOWN	None	28535	1242	413	85566440	85631064	1	None	MGC34732, FLJ42119
11	CCDC83	ENSG00000150676	ENST00000529676	processed_transcript	KNOWN	None	28535	None	None	85584253	85626485	1	None	MGC34732, FLJ42119
11	CCDC83	ENSG00000150676	ENST00000526729	protein_coding	NOVEL	None	28535	956	317	85584274	85630626	1	None	MGC34732, FLJ42119
11	CCDC83	ENSG00000150676	ENST00000376067	protein_coding	KNOWN	None	28535	942	313	85566144	85631051	1	None	MGC34732, FLJ42119
5	None	ENSG00000271585	ENST00000603971	processed_pseudogene	KNOWN	None	None	None	None	126512388	126512742	-1	None	None
12	SETP7	ENSG00000257444	ENST00000552169	processed_pseudogene	KNOWN	None	42926	None	None	107665171	107665623	1	None	None
16	None	ENSG00000262801	ENST00000571619	lincRNA	KNOWN	None	None	None	None	13340173	13656775	1	None	None
16	None	ENSG00000262801	ENST00000574540	lincRNA	KNOWN	None	None	None	None	13444412	13656769	1	None	None
7	None	ENSG00000266772	ENST00000579884	miRNA	NOVEL	None	None	None	None	72138047	72138146	1	None	None
7	MIR4650-2	ENSG00000264494	ENST00000581927	miRNA	KNOWN	None	41810	None	None	72162874	72162949	1	None	hsa-mir-4650-2
12	LRRIQ1	ENSG00000133640	ENST00000525971	retained_intron	KNOWN	None	25708	None	None	85430092	85518636	1	None	FLJ12303, KIAA1801
12	LRRIQ1	ENSG00000133640	ENST00000529408	retained_intron	KNOWN	None	25708	None	None	85430118	85442365	1	None	FLJ12303, KIAA1801
12	LRRIQ1	ENSG00000133640	ENST00000393212	protein_coding	KNOWN	None	25708	494	163	85430129	85441064	1	None	FLJ12303, KIAA1801
12	LRRIQ1	ENSG00000133640	ENST00000393217	protein_coding	KNOWN	CCDS41816	25708	5169	1722	85430149	85638883	1	None	FLJ12303, KIAA1801
12	LRRIQ1	ENSG00000133640	ENST00000533414	protein_coding	NOVEL	None	25708	432	143	85438559	85449385	1	None	FLJ12303, KIAA1801
12	LRRIQ1	ENSG00000133640	ENST00000528777	processed_transcript	KNOWN	None	25708	None	None	85553293	85657002	1	None	FLJ12303, KIAA1801
12	LRRIQ1	ENSG00000133640	ENST00000526363	protein_coding	PUTATIVE	None	25708	323	106	85554409	85626815	1	None	FLJ12303, KIAA1801
2	SLC3A1	ENSG00000138079	ENST00000260649	protein_coding	KNOWN	CCDS1819	11025	2058	685	44502599	44548633	1	None	CSNU1, D2H, RBAT, ATR1, NBAT
2	SLC3A1	ENSG00000138079	ENST00000409387	protein_coding	NOVEL	None	11025	1695	564	44502603	44545894	1	None	CSNU1, D2H, RBAT, ATR1, NBAT
2	SLC3A1	ENSG00000138079	ENST00000410056	protein_coding	NOVEL	None	11025	1176	391	44502675	44528556	1	None	CSNU1, D2H, RBAT, ATR1, NBAT
2	SLC3A1	ENSG00000138079	ENST00000409741	protein_coding	NOVEL	None	11025	1509	502	44502675	44539929	1	None	CSNU1, D2H, RBAT, ATR1, NBAT
2	SLC3A1	ENSG00000138079	ENST00000409229	protein_coding	NOVEL	None	11025	1695	564	44502675	44542382	1	None	CSNU1, D2H, RBAT, ATR1, NBAT
2	SLC3A1	ENSG00000138079	ENST00000409380	protein_coding	NOVEL	None	11025	1224	407	44512222	44547960	1	None	CSNU1, D2H, RBAT, ATR1, NBAT
2	SLC3A1	ENSG00000138079	ENST00000427285	protein_coding	PUTATIVE	None	11025	429	142	44512634	44528225	1	None	CSNU1, D2H, RBAT, ATR1, NBAT
2	SLC3A1	ENSG00000138079	ENST00000409294	protein_coding	PUTATIVE	None	11025	555	184	44527166	44541337	1	None	CSNU1, D2H, RBAT, ATR1, NBAT
2	SLC3A1	ENSG00000138079	ENST00000409740	protein_coding	PUTATIVE	None	11025	951	316	44530945	44547937	1	None	CSNU1, D2H, RBAT, ATR1, NBAT
5	None	ENSG00000250956	ENST00000509908	processed_pseudogene	KNOWN	None	None	None	None	126515448	126515592	-1	None	None
19	ZNF599	ENSG00000153896	ENST00000329285	protein_coding	KNOWN	CCDS32991	26408	1767	588	35248979	35264120	-1	None	FLJ30663
19	ZNF599	ENSG00000153896	ENST00000587354	protein_coding	KNOWN	None	26408	288	95	35253779	35264134	-1	None	FLJ30663
19	ZNF599	ENSG00000153896	ENST00000588760	protein_coding	PUTATIVE	None	26408	249	82	35257873	35264105	-1	None	FLJ30663
19	ZNF599	ENSG00000153896	ENST00000588788	retained_intron	KNOWN	None	26408	None	None	35257928	35264110	-1	None	FLJ30663
12	DNAH10OS	ENSG00000250091	ENST00000514254	protein_coding	NOVEL	None	37121	492	163	124410971	124419531	-1	None	FLJ45278
5	None	ENSG00000242080	ENST00000467232	processed_pseudogene	KNOWN	None	None	None	None	151875279	151875578	-1	None	None
5	None	ENSG00000265104	ENST00000578945	miRNA	NOVEL	None	None	None	None	126596628	126596690	1	None	None
12	STK38L	ENSG00000211455	ENST00000541191	protein_coding	KNOWN	None	17848	393	130	27396901	27462130	1	None	KIAA0965, NDR2
12	STK38L	ENSG00000211455	ENST00000389032	protein_coding	KNOWN	CCDS31761	17848	1395	464	27397108	27478892	1	None	KIAA0965, NDR2
12	STK38L	ENSG00000211455	ENST00000545470	protein_coding	NOVEL	None	17848	641	212	27397166	27468039	1	None	KIAA0965, NDR2
12	STK38L	ENSG00000211455	ENST00000544367	nonsense_mediated_decay	KNOWN	None	17848	195	64	27397188	27465596	1	None	KIAA0965, NDR2
12	STK38L	ENSG00000211455	ENST00000539863	retained_intron	KNOWN	None	17848	None	None	27397200	27455439	1	None	KIAA0965, NDR2
12	STK38L	ENSG00000211455	ENST00000434385	retained_intron	KNOWN	None	17848	None	None	27397219	27451352	1	None	KIAA0965, NDR2
12	STK38L	ENSG00000211455	ENST00000540996	protein_coding	KNOWN	None	17848	283	93	27397226	27461368	1	None	KIAA0965, NDR2
12	STK38L	ENSG00000211455	ENST00000546286	nonsense_mediated_decay	KNOWN	None	17848	171	56	27397241	27462130	1	None	KIAA0965, NDR2
12	STK38L	ENSG00000211455	ENST00000543246	protein_coding	KNOWN	None	17848	393	130	27398590	27462130	1	None	KIAA0965, NDR2
12	STK38L	ENSG00000211455	ENST00000544969	protein_coding	KNOWN	None	17848	393	130	27446561	27462130	1	None	KIAA0965, NDR2
12	STK38L	ENSG00000211455	ENST00000407753	nonsense_mediated_decay	KNOWN	None	17848	269	88	27455069	27468283	1	None	KIAA0965, NDR2
12	STK38L	ENSG00000211455	ENST00000536093	nonsense_mediated_decay	KNOWN	None	17848	264	87	27467496	27475867	1	None	KIAA0965, NDR2
12	STK38L	ENSG00000211455	ENST00000543992	retained_intron	KNOWN	None	17848	None	None	27470515	27475616	1	None	KIAA0965, NDR2
12	STK38L	ENSG00000211455	ENST00000539577	protein_coding	KNOWN	None	17848	1116	371	27397226	27475634	1	None	KIAA0965, NDR2
5	None	ENSG00000249577	ENST00000506336	processed_pseudogene	KNOWN	None	None	None	None	126801514	126801810	1	None	None
16	None	ENSG00000260905	ENST00000566098	lincRNA	KNOWN	None	None	None	None	22623864	22624804	-1	None	None
7	None	ENSG00000270694	ENST00000605461	processed_pseudogene	KNOWN	None	None	None	None	72187850	72188054	1	None	None
16	None	ENSG00000262011	ENST00000571611	antisense	KNOWN	None	None	None	None	13425225	13426440	-1	None	None
11	NAP1L1P1	ENSG00000254759	ENST00000524793	processed_pseudogene	KNOWN	None	38004	None	None	125937434	125938496	1	None	None
7	None	ENSG00000270555	ENST00000604263	processed_pseudogene	KNOWN	None	None	None	None	72233812	72234205	1	None	None
6	CBX3P9	ENSG00000217241	ENST00000402326	processed_pseudogene	KNOWN	None	42881	None	None	116774177	116774728	-1	None	None
HSCHR6_MHC_APD	GPSM3	ENSG00000237052	ENST00000472817	protein_coding	PUTATIVE	None	13945	474	157	32169884	32171986	-1	C6orf9	NG1, G18, G18.1a, G18.1b, G18.2, AGS4
HSCHR6_MHC_APD	GPSM3	ENSG00000237052	ENST00000478656	nonsense_mediated_decay	KNOWN	None	13945	150	49	32169884	32172003	-1	C6orf9	NG1, G18, G18.1a, G18.1b, G18.2, AGS4
HSCHR6_MHC_APD	GPSM3	ENSG00000237052	ENST00000424520	protein_coding	KNOWN	None	13945	483	160	32169884	32172024	-1	C6orf9	NG1, G18, G18.1a, G18.1b, G18.2, AGS4
HSCHR6_MHC_APD	GPSM3	ENSG00000237052	ENST00000457070	protein_coding	KNOWN	None	13945	483	160	32169884	32174641	-1	C6orf9	NG1, G18, G18.1a, G18.1b, G18.2, AGS4
5	None	ENSG00000271766	ENST00000607594	lincRNA	KNOWN	None	None	None	None	126813987	126814429	1	None	None
5	None	ENSG00000249484	ENST00000506723	lincRNA	KNOWN	None	None	None	None	151998525	152069089	-1	None	None
5	None	ENSG00000249484	ENST00000522300	lincRNA	KNOWN	None	None	None	None	151998594	152351909	-1	None	None
5	None	ENSG00000249484	ENST00000503048	lincRNA	KNOWN	None	None	None	None	152000065	152603103	-1	None	None
5	None	ENSG00000249484	ENST00000511419	lincRNA	KNOWN	None	None	None	None	152264987	152351343	-1	None	None
5	None	ENSG00000249484	ENST00000584829	lincRNA	KNOWN	None	None	None	None	152318398	152352763	-1	None	None
20	GTSF1L	ENSG00000124196	ENST00000373005	protein_coding	KNOWN	CCDS33471	16198	372	123	42354804	42355337	-1	C20orf65, FAM112A	dJ1028D15.4
20	GTSF1L	ENSG00000124196	ENST00000373003	protein_coding	KNOWN	CCDS13323	16198	447	148	42354804	42355638	-1	C20orf65, FAM112A	dJ1028D15.4
16	None	ENSG00000262235	ENST00000576058	processed_pseudogene	KNOWN	None	None	None	None	13552183	13552555	1	None	None
6	KRT18P22	ENSG00000218153	ENST00000402024	processed_pseudogene	KNOWN	None	33390	None	None	116778486	116779832	-1	None	None
20	ASIP	ENSG00000101440	ENST00000568305	protein_coding	KNOWN	CCDS13232	745	399	132	32782375	32856982	1	AGTIL	ASP
20	ASIP	ENSG00000101440	ENST00000374954	protein_coding	KNOWN	CCDS13232	745	399	132	32848171	32857150	1	AGTIL	ASP
2	KIF3C	ENSG00000084731	ENST00000264712	protein_coding	KNOWN	CCDS1719	6321	2382	793	26149471	26205366	-1	None	None
2	KIF3C	ENSG00000084731	ENST00000417737	nonsense_mediated_decay	KNOWN	None	6321	2058	685	26149471	26205366	-1	None	None
2	KIF3C	ENSG00000084731	ENST00000455394	nonsense_mediated_decay	KNOWN	None	6321	2019	672	26149471	26205366	-1	None	None
2	KIF3C	ENSG00000084731	ENST00000405914	protein_coding	KNOWN	CCDS1719	6321	2382	793	26151622	26205618	-1	None	None
2	KIF3C	ENSG00000084731	ENST00000496378	processed_transcript	PUTATIVE	None	6321	None	None	26152288	26174788	-1	None	None
2	KIF3C	ENSG00000084731	ENST00000488341	retained_intron	KNOWN	None	6321	None	None	26174239	26179308	-1	None	None
2	KIF3C	ENSG00000084731	ENST00000475453	retained_intron	KNOWN	None	6321	None	None	26177000	26203491	-1	None	None
5	HNRNPKP1	ENSG00000250859	ENST00000510896	processed_pseudogene	KNOWN	None	42374	None	None	126847156	126848534	-1	None	None
10	FAM35DP	ENSG00000189014	ENST00000323387	unprocessed_pseudogene	KNOWN	None	34038	None	None	47379727	47420456	1	FAM35B2	None
10	FAM35DP	ENSG00000189014	ENST00000540459	unprocessed_pseudogene	KNOWN	None	34038	None	None	47396659	47420712	1	FAM35B2	None
8	None	ENSG00000244791	ENST00000500180	lincRNA	KNOWN	None	None	None	None	127337740	127341780	1	None	None
6	None	ENSG00000265516	ENST00000584665	miRNA	NOVEL	None	None	None	None	116778895	116778985	-1	None	None
6	None	ENSG00000244158	ENST00000476099	antisense	KNOWN	None	None	None	None	116781902	116784855	-1	None	None
16	None	ENSG00000262267	ENST00000573369	lincRNA	KNOWN	None	None	None	None	13823994	13873605	-1	None	None
16	None	ENSG00000262267	ENST00000576944	lincRNA	KNOWN	None	None	None	None	13824111	13873617	-1	None	None
5	None	ENSG00000251573	ENST00000513880	lincRNA	KNOWN	None	None	None	None	50265051	50265801	-1	None	None
5	None	ENSG00000251573	ENST00000506534	lincRNA	KNOWN	None	None	None	None	50265051	50266001	-1	None	None
22	None	ENSG00000230634	ENST00000447383	processed_pseudogene	KNOWN	None	None	None	None	46877226	46877657	-1	None	None
6	None	ENSG00000234117	ENST00000420595	antisense	KNOWN	None	None	None	None	116813460	116818255	1	None	None
5	None	ENSG00000248799	ENST00000512352	antisense	KNOWN	None	None	None	None	126987385	126999721	-1	None	None
22	None	ENSG00000234869	ENST00000426112	antisense	KNOWN	None	None	None	None	46937392	46944093	1	None	None
1	TBX19	ENSG00000143178	ENST00000367821	protein_coding	KNOWN	CCDS1272	11596	1347	448	168250278	168283664	1	None	dj747L4.1, TPIT
1	TBX19	ENSG00000143178	ENST00000431969	protein_coding	KNOWN	None	11596	955	317	168260398	168283662	1	None	dj747L4.1, TPIT
1	TBX19	ENSG00000143178	ENST00000441464	protein_coding	KNOWN	None	11596	844	280	168266862	168283153	1	None	dj747L4.1, TPIT
1	TBX19	ENSG00000143178	ENST00000465440	processed_transcript	KNOWN	None	11596	None	None	168277255	168283662	1	None	dj747L4.1, TPIT
6	None	ENSG00000217089	ENST00000402041	processed_pseudogene	KNOWN	None	None	None	None	117369833	117370001	-1	None	None
10	RNU6-529P	ENSG00000200253	ENST00000363383	snRNA	KNOWN	None	47492	None	None	88800995	88801098	-1	None	None
3	SMC4	ENSG00000113810	ENST00000497311	protein_coding	KNOWN	None	14013	519	172	160117062	160122124	1	SMC4L1	hCAP-C, CAP-C
3	SMC4	ENSG00000113810	ENST00000357388	protein_coding	KNOWN	CCDS3189	14013	3867	1288	160117092	160152750	1	SMC4L1	hCAP-C, CAP-C
3	SMC4	ENSG00000113810	ENST00000465903	protein_coding	KNOWN	None	14013	510	169	160117426	160120655	1	SMC4L1	hCAP-C, CAP-C
3	SMC4	ENSG00000113810	ENST00000485645	protein_coding	KNOWN	None	14013	519	172	160117427	160122124	1	SMC4L1	hCAP-C, CAP-C
3	SMC4	ENSG00000113810	ENST00000472991	protein_coding	PUTATIVE	None	14013	418	138	160117431	160129813	1	SMC4L1	hCAP-C, CAP-C
3	SMC4	ENSG00000113810	ENST00000472282	processed_transcript	KNOWN	None	14013	None	None	160117431	160130241	1	SMC4L1	hCAP-C, CAP-C
3	SMC4	ENSG00000113810	ENST00000467468	protein_coding	PUTATIVE	None	14013	357	118	160117438	160129752	1	SMC4L1	hCAP-C, CAP-C
3	SMC4	ENSG00000113810	ENST00000468653	retained_intron	KNOWN	None	14013	None	None	160117438	160132288	1	SMC4L1	hCAP-C, CAP-C
3	SMC4	ENSG00000113810	ENST00000469762	protein_coding	NOVEL	None	14013	3792	1263	160117438	160151698	1	SMC4L1	hCAP-C, CAP-C
3	SMC4	ENSG00000113810	ENST00000469858	nonsense_mediated_decay	KNOWN	None	14013	153	50	160117439	160142735	1	SMC4L1	hCAP-C, CAP-C
3	SMC4	ENSG00000113810	ENST00000489573	protein_coding	KNOWN	None	14013	1270	422	160117454	160132303	1	SMC4L1	hCAP-C, CAP-C
3	SMC4	ENSG00000113810	ENST00000462787	protein_coding	KNOWN	None	14013	3693	1230	160117456	160151778	1	SMC4L1	hCAP-C, CAP-C
3	SMC4	ENSG00000113810	ENST00000490207	protein_coding	KNOWN	None	14013	541	179	160117457	160122146	1	SMC4L1	hCAP-C, CAP-C
3	SMC4	ENSG00000113810	ENST00000485867	protein_coding	PUTATIVE	None	14013	471	156	160117457	160122292	1	SMC4L1	hCAP-C, CAP-C
3	SMC4	ENSG00000113810	ENST00000344722	protein_coding	KNOWN	CCDS3189	14013	3867	1288	160118270	160152741	1	SMC4L1	hCAP-C, CAP-C
3	SMC4	ENSG00000113810	ENST00000470240	processed_transcript	KNOWN	None	14013	None	None	160120597	160130640	1	SMC4L1	hCAP-C, CAP-C
3	SMC4	ENSG00000113810	ENST00000497984	processed_transcript	KNOWN	None	14013	None	None	160121779	160131272	1	SMC4L1	hCAP-C, CAP-C
3	SMC4	ENSG00000113810	ENST00000487747	processed_transcript	KNOWN	None	14013	None	None	160122287	160134191	1	SMC4L1	hCAP-C, CAP-C
3	SMC4	ENSG00000113810	ENST00000465563	retained_intron	KNOWN	None	14013	None	None	160129546	160132305	1	SMC4L1	hCAP-C, CAP-C
3	SMC4	ENSG00000113810	ENST00000494612	processed_transcript	KNOWN	None	14013	None	None	160129810	160131371	1	SMC4L1	hCAP-C, CAP-C
3	SMC4	ENSG00000113810	ENST00000467263	retained_intron	KNOWN	None	14013	None	None	160130123	160131542	1	SMC4L1	hCAP-C, CAP-C
3	SMC4	ENSG00000113810	ENST00000462668	retained_intron	KNOWN	None	14013	None	None	160131811	160152742	1	SMC4L1	hCAP-C, CAP-C
3	SMC4	ENSG00000113810	ENST00000493695	retained_intron	KNOWN	None	14013	None	None	160132226	160134415	1	SMC4L1	hCAP-C, CAP-C
3	SMC4	ENSG00000113810	ENST00000484799	retained_intron	KNOWN	None	14013	None	None	160135412	160137290	1	SMC4L1	hCAP-C, CAP-C
3	SMC4	ENSG00000113810	ENST00000497203	retained_intron	KNOWN	None	14013	None	None	160138370	160141382	1	SMC4L1	hCAP-C, CAP-C
3	SMC4	ENSG00000113810	ENST00000488017	retained_intron	KNOWN	None	14013	None	None	160146584	160148831	1	SMC4L1	hCAP-C, CAP-C
3	SMC4	ENSG00000113810	ENST00000486711	retained_intron	KNOWN	None	14013	None	None	160148717	160150231	1	SMC4L1	hCAP-C, CAP-C
3	SMC4	ENSG00000113810	ENST00000360111	protein_coding	KNOWN	None	14013	3693	1230	160117430	160152739	1	SMC4L1	hCAP-C, CAP-C
22	None	ENSG00000260708	ENST00000564152	antisense	KNOWN	None	None	None	None	47157791	47158460	-1	None	None
1	SRSF10	ENSG00000188529	ENST00000344989	protein_coding	KNOWN	CCDS30629	16713	552	183	24291294	24306821	-1	FUSIP2, FUSIP1, SFRS13A	TASR1, TASR2, SRp38, SRrp40, SFRS13, NSSR
1	SRSF10	ENSG00000188529	ENST00000453840	protein_coding	KNOWN	CCDS53281	16713	549	182	24292935	24306786	-1	FUSIP2, FUSIP1, SFRS13A	TASR1, TASR2, SRp38, SRrp40, SFRS13, NSSR
1	SRSF10	ENSG00000188529	ENST00000341154	processed_transcript	KNOWN	None	16713	None	None	24292935	24307417	-1	FUSIP2, FUSIP1, SFRS13A	TASR1, TASR2, SRp38, SRrp40, SFRS13, NSSR
1	SRSF10	ENSG00000188529	ENST00000484146	protein_coding	KNOWN	CCDS53280	16713	498	165	24293663	24306846	-1	FUSIP2, FUSIP1, SFRS13A	TASR1, TASR2, SRp38, SRrp40, SFRS13, NSSR
1	SRSF10	ENSG00000188529	ENST00000473858	nonsense_mediated_decay	KNOWN	None	16713	123	40	24293791	24306821	-1	FUSIP2, FUSIP1, SFRS13A	TASR1, TASR2, SRp38, SRrp40, SFRS13, NSSR
1	SRSF10	ENSG00000188529	ENST00000374452	protein_coding	KNOWN	CCDS53283	16713	522	173	24293797	24306798	-1	FUSIP2, FUSIP1, SFRS13A	TASR1, TASR2, SRp38, SRrp40, SFRS13, NSSR
1	SRSF10	ENSG00000188529	ENST00000374453	protein_coding	NOVEL	None	16713	519	172	24294108	24306784	-1	FUSIP2, FUSIP1, SFRS13A	TASR1, TASR2, SRp38, SRrp40, SFRS13, NSSR
1	SRSF10	ENSG00000188529	ENST00000343255	protein_coding	KNOWN	CCDS53282	16713	786	261	24295573	24306817	-1	FUSIP2, FUSIP1, SFRS13A	TASR1, TASR2, SRp38, SRrp40, SFRS13, NSSR
1	SRSF10	ENSG00000188529	ENST00000492112	protein_coding	KNOWN	CCDS30630	16713	789	262	24296854	24306809	-1	FUSIP2, FUSIP1, SFRS13A	TASR1, TASR2, SRp38, SRrp40, SFRS13, NSSR
1	SRSF10	ENSG00000188529	ENST00000485841	retained_intron	KNOWN	None	16713	None	None	24296869	24304142	-1	FUSIP2, FUSIP1, SFRS13A	TASR1, TASR2, SRp38, SRrp40, SFRS13, NSSR
1	SRSF10	ENSG00000188529	ENST00000338597	processed_transcript	KNOWN	None	16713	None	None	24297465	24304427	-1	FUSIP2, FUSIP1, SFRS13A	TASR1, TASR2, SRp38, SRrp40, SFRS13, NSSR
1	SRSF10	ENSG00000188529	ENST00000495785	nonsense_mediated_decay	KNOWN	None	16713	210	69	24297829	24306761	-1	FUSIP2, FUSIP1, SFRS13A	TASR1, TASR2, SRp38, SRrp40, SFRS13, NSSR
1	SRSF10	ENSG00000188529	ENST00000473754	processed_transcript	KNOWN	None	16713	None	None	24297859	24301542	-1	FUSIP2, FUSIP1, SFRS13A	TASR1, TASR2, SRp38, SRrp40, SFRS13, NSSR
1	SRSF10	ENSG00000188529	ENST00000497214	processed_transcript	KNOWN	None	16713	None	None	24303760	24304742	-1	FUSIP2, FUSIP1, SFRS13A	TASR1, TASR2, SRp38, SRrp40, SFRS13, NSSR
1	SRSF10	ENSG00000188529	ENST00000485292	processed_transcript	KNOWN	None	16713	None	None	24304280	24306821	-1	FUSIP2, FUSIP1, SFRS13A	TASR1, TASR2, SRp38, SRrp40, SFRS13, NSSR
1	SRSF10	ENSG00000188529	ENST00000469303	retained_intron	KNOWN	None	16713	None	None	24304645	24305436	-1	FUSIP2, FUSIP1, SFRS13A	TASR1, TASR2, SRp38, SRrp40, SFRS13, NSSR
16	RN7SL245P	ENSG00000265058	ENST00000583924	misc_RNA	KNOWN	None	46261	None	None	22647776	22648065	-1	None	None
10	None	ENSG00000237280	ENST00000454709	sense_intronic	KNOWN	None	None	None	None	88873711	88875280	1	None	None
5	None	ENSG00000230561	ENST00000514853	lincRNA	KNOWN	None	None	None	None	127039082	127277326	1	None	None
5	None	ENSG00000230561	ENST00000506670	lincRNA	KNOWN	None	None	None	None	127075230	127075979	1	None	None
5	None	ENSG00000230561	ENST00000513708	lincRNA	KNOWN	None	None	None	None	127270935	127277199	1	None	None
3	HTR3E	ENSG00000186038	ENST00000415389	protein_coding	KNOWN	CCDS58868	24005	1371	456	183814852	183824783	1	None	None
3	HTR3E	ENSG00000186038	ENST00000425359	protein_coding	KNOWN	CCDS58869	24005	1326	441	183815318	183824481	1	None	None
3	HTR3E	ENSG00000186038	ENST00000335304	protein_coding	KNOWN	CCDS3251	24005	1416	471	183817967	183824783	1	None	None
3	HTR3E	ENSG00000186038	ENST00000431041	protein_coding	PUTATIVE	None	24005	474	157	183818020	183823182	1	None	None
3	HTR3E	ENSG00000186038	ENST00000436361	protein_coding	KNOWN	CCDS58870	24005	1371	456	183818161	183824481	1	None	None
3	HTR3E	ENSG00000186038	ENST00000440596	protein_coding	NOVEL	CCDS58871	24005	1449	482	183818161	183824481	1	None	None
16	None	ENSG00000261090	ENST00000567395	lincRNA	KNOWN	None	None	None	None	23031658	23034932	1	None	None
10	RN7SL733P	ENSG00000266323	ENST00000582253	misc_RNA	KNOWN	None	46749	None	None	88913843	88914126	-1	None	None
12	None	ENSG00000200897	ENST00000364027	snoRNA	NOVEL	None	None	None	None	107768524	107768604	1	None	None
22	None	ENSG00000221672	ENST00000408745	miRNA	NOVEL	None	None	None	None	47243803	47243875	1	None	None
X	RPA4	ENSG00000204086	ENST00000373040	protein_coding	KNOWN	CCDS35345	30305	786	261	96138907	96140446	1	None	HSU24186
16	C16orf87	ENSG00000155330	ENST00000394806	protein_coding	KNOWN	None	33754	282	93	46830519	46865074	-1	None	None
16	C16orf87	ENSG00000155330	ENST00000285697	protein_coding	KNOWN	CCDS10724	33754	465	154	46836006	46865323	-1	None	None
16	C16orf87	ENSG00000155330	ENST00000565112	protein_coding	PUTATIVE	None	33754	485	160	46836630	46864980	-1	None	None
16	C16orf87	ENSG00000155330	ENST00000564250	processed_transcript	KNOWN	None	33754	None	None	46836915	46864671	-1	None	None
6	RNA5SP214	ENSG00000200248	ENST00000363378	rRNA	KNOWN	None	43114	None	None	117381845	117381962	1	RN5S214	None
22	CACNG2	ENSG00000166862	ENST00000300105	protein_coding	KNOWN	CCDS13931	1406	972	323	36959968	37099603	-1	None	stargazin, MGC138502, MGC138504
22	CACNG2	ENSG00000166862	ENST00000480002	processed_transcript	KNOWN	None	1406	None	None	36980536	36981501	-1	None	stargazin, MGC138502, MGC138504
16	None	ENSG00000260566	ENST00000563129	3prime_overlapping_ncrna	KNOWN	None	None	None	None	23073706	23075494	-1	None	None
22	None	ENSG00000224715	ENST00000434707	lincRNA	KNOWN	None	None	None	None	47741319	47769291	1	None	None
6	RN7SKP18	ENSG00000251814	ENST00000516005	misc_RNA	KNOWN	None	45742	None	None	117620527	117620801	1	None	None
16	None	ENSG00000260741	ENST00000563471	antisense	KNOWN	None	None	None	None	23206199	23224425	-1	None	None
6	RN7SKP51	ENSG00000222713	ENST00000410781	misc_RNA	KNOWN	None	45775	None	None	117622618	117622921	1	None	None
10	ZMYND11	ENSG00000015171	ENST00000439456	protein_coding	NOVEL	None	16966	421	139	180405	283591	1	None	BS69
10	ZMYND11	ENSG00000015171	ENST00000509513	protein_coding	KNOWN	CCDS7053	16966	1704	567	180643	295201	1	None	BS69
10	ZMYND11	ENSG00000015171	ENST00000381591	protein_coding	KNOWN	CCDS7052	16966	1809	602	181009	300577	1	None	BS69
10	ZMYND11	ENSG00000015171	ENST00000403354	protein_coding	NOVEL	None	16966	1569	522	181424	298410	1	None	BS69
10	ZMYND11	ENSG00000015171	ENST00000402736	protein_coding	NOVEL	None	16966	1716	571	181449	300574	1	None	BS69
10	ZMYND11	ENSG00000015171	ENST00000602682	protein_coding	KNOWN	CCDS55697	16966	1554	517	225930	298520	1	None	BS69
10	ZMYND11	ENSG00000015171	ENST00000397955	protein_coding	PUTATIVE	None	16966	640	212	225934	283603	1	None	BS69
10	ZMYND11	ENSG00000015171	ENST00000381584	protein_coding	NOVEL	None	16966	1758	585	225934	299196	1	None	BS69
10	ZMYND11	ENSG00000015171	ENST00000558098	protein_coding	KNOWN	CCDS55696	16966	1707	568	225953	295201	1	None	BS69
10	ZMYND11	ENSG00000015171	ENST00000488275	retained_intron	KNOWN	None	16966	None	None	285902	292939	1	None	BS69
10	ZMYND11	ENSG00000015171	ENST00000473115	processed_transcript	KNOWN	None	16966	None	None	290411	294471	1	None	BS69
10	ZMYND11	ENSG00000015171	ENST00000397962	protein_coding	KNOWN	CCDS7052	16966	1809	602	180424	300566	1	None	BS69
10	ZMYND11	ENSG00000015171	ENST00000397959	protein_coding	KNOWN	CCDS55697	16966	1554	517	180742	298520	1	None	BS69
10	ZMYND11	ENSG00000015171	ENST00000309776	protein_coding	KNOWN	None	16966	1689	562	180424	300566	1	None	BS69
10	ZMYND11	ENSG00000015171	ENST00000381607	protein_coding	KNOWN	None	16966	1527	508	181424	300566	1	None	BS69
10	ZMYND11	ENSG00000015171	ENST00000381604	protein_coding	KNOWN	None	16966	1689	562	225933	299169	1	None	BS69
10	ZMYND11	ENSG00000015171	ENST00000545619	protein_coding	KNOWN	None	16966	1449	482	255833	298410	1	None	BS69
10	ZMYND11	ENSG00000015171	ENST00000381602	protein_coding	KNOWN	None	16966	1587	528	180424	295199	1	None	BS69
10	ZMYND11	ENSG00000015171	ENST00000535374	protein_coding	KNOWN	None	16966	1194	397	255891	298512	1	None	BS69
3	None	ENSG00000235294	ENST00000423357	processed_pseudogene	KNOWN	None	None	None	None	181222863	181223667	-1	None	None
16	RN7SKP23	ENSG00000252838	ENST00000517029	misc_RNA	KNOWN	None	45747	None	None	23424905	23425197	-1	None	None
12	ZNF664	ENSG00000179195	ENST00000537532	processed_transcript	KNOWN	None	25406	None	None	124456392	124496355	1	ZNF176	ZFOC1, DKFZp761B128
12	ZNF664	ENSG00000179195	ENST00000539644	protein_coding	KNOWN	CCDS9257	25406	786	261	124457670	124499969	1	ZNF176	ZFOC1, DKFZp761B128
12	ZNF664	ENSG00000179195	ENST00000392404	protein_coding	KNOWN	CCDS9257	25406	786	261	124457759	124499973	1	ZNF176	ZFOC1, DKFZp761B128
12	ZNF664	ENSG00000179195	ENST00000541448	processed_transcript	KNOWN	None	25406	None	None	124457762	124496325	1	ZNF176	ZFOC1, DKFZp761B128
12	ZNF664	ENSG00000179195	ENST00000538932	protein_coding	KNOWN	CCDS9257	25406	786	261	124457762	124499986	1	ZNF176	ZFOC1, DKFZp761B128
12	ZNF664	ENSG00000179195	ENST00000542820	retained_intron	KNOWN	None	25406	None	None	124457766	124459100	1	ZNF176	ZFOC1, DKFZp761B128
12	ZNF664	ENSG00000179195	ENST00000540009	retained_intron	KNOWN	None	25406	None	None	124457766	124459100	1	ZNF176	ZFOC1, DKFZp761B128
12	ZNF664	ENSG00000179195	ENST00000542493	processed_transcript	KNOWN	None	25406	None	None	124457788	124496197	1	ZNF176	ZFOC1, DKFZp761B128
12	ZNF664	ENSG00000179195	ENST00000543017	processed_transcript	KNOWN	None	25406	None	None	124457820	124496320	1	ZNF176	ZFOC1, DKFZp761B128
12	ZNF664	ENSG00000179195	ENST00000539257	processed_transcript	KNOWN	None	25406	None	None	124457822	124472699	1	ZNF176	ZFOC1, DKFZp761B128
12	ZNF664	ENSG00000179195	ENST00000337815	protein_coding	KNOWN	CCDS9257	25406	786	261	124457842	124499969	1	ZNF176	ZFOC1, DKFZp761B128
12	ZNF664	ENSG00000179195	ENST00000546098	processed_transcript	KNOWN	None	25406	None	None	124458032	124496250	1	ZNF176	ZFOC1, DKFZp761B128
12	ZNF664	ENSG00000179195	ENST00000539501	processed_transcript	KNOWN	None	25406	None	None	124482253	124496371	1	ZNF176	ZFOC1, DKFZp761B128
12	ZNF664	ENSG00000179195	ENST00000540498	processed_transcript	KNOWN	None	25406	None	None	124482325	124483300	1	ZNF176	ZFOC1, DKFZp761B128
6	None	ENSG00000219703	ENST00000407180	processed_pseudogene	KNOWN	None	None	None	None	117752754	117753605	1	None	None
22	LINC00898	ENSG00000205634	ENST00000380990	processed_transcript	KNOWN	None	48581	None	None	48016792	48027318	-1	None	None
10	DNAJB12	ENSG00000148719	ENST00000444643	protein_coding	KNOWN	None	14891	1128	375	74092589	74114988	-1	None	DJ10, FLJ20027
10	DNAJB12	ENSG00000148719	ENST00000461919	processed_transcript	KNOWN	None	14891	None	None	74093839	74114138	-1	None	DJ10, FLJ20027
10	DNAJB12	ENSG00000148719	ENST00000463786	processed_transcript	KNOWN	None	14891	None	None	74094281	74103271	-1	None	DJ10, FLJ20027
10	DNAJB12	ENSG00000148719	ENST00000473051	retained_intron	KNOWN	None	14891	None	None	74095315	74096623	-1	None	DJ10, FLJ20027
10	DNAJB12	ENSG00000148719	ENST00000338820	protein_coding	KNOWN	CCDS7316	14891	1230	409	74092588	74114907	-1	None	DJ10, FLJ20027
10	DNAJB12	ENSG00000148719	ENST00000394903	protein_coding	KNOWN	CCDS7316	14891	1230	409	74092588	74114907	-1	None	DJ10, FLJ20027
16	None	ENSG00000212593	ENST00000391291	snoRNA	NOVEL	None	None	None	None	23453162	23453242	1	None	None
16	RPS26P52	ENSG00000242307	ENST00000463867	processed_pseudogene	KNOWN	None	36863	None	None	14016189	14016536	-1	None	None
10	MIR4484	ENSG00000265092	ENST00000582855	miRNA	KNOWN	None	41799	None	None	127508309	127508391	1	None	hsa-mir-4484
16	None	ENSG00000262732	ENST00000575137	antisense	KNOWN	None	None	None	None	14024534	14029467	-1	None	None
16	None	ENSG00000262732	ENST00000570663	antisense	KNOWN	None	None	None	None	14024534	14029492	-1	None	None
10	None	ENSG00000215972	ENST00000401153	miRNA	NOVEL	None	None	None	None	127531513	127531598	1	None	None
1	C1orf200	ENSG00000179840	ENST00000377320	protein_coding	KNOWN	None	32346	504	167	9712668	9714644	-1	None	None
10	NUTM2A-AS1	ENSG00000223482	ENST00000451940	antisense	KNOWN	None	45161	None	None	88963632	89102299	-1	FAM22A-AS1	None
10	NUTM2A-AS1	ENSG00000223482	ENST00000456104	antisense	KNOWN	None	45161	None	None	88995384	89086431	-1	FAM22A-AS1	None
10	NUTM2A-AS1	ENSG00000223482	ENST00000433530	antisense	KNOWN	None	45161	None	None	88998424	89096565	-1	FAM22A-AS1	None
10	NUTM2A-AS1	ENSG00000223482	ENST00000447424	antisense	KNOWN	None	45161	None	None	88998424	89096631	-1	FAM22A-AS1	None
10	NUTM2A-AS1	ENSG00000223482	ENST00000433920	antisense	KNOWN	None	45161	None	None	88998424	89102369	-1	FAM22A-AS1	None
10	NUTM2A-AS1	ENSG00000223482	ENST00000446751	antisense	KNOWN	None	45161	None	None	89003889	89102369	-1	FAM22A-AS1	None
10	NUTM2A-AS1	ENSG00000223482	ENST00000420424	antisense	KNOWN	None	45161	None	None	89046655	89068341	-1	FAM22A-AS1	None
10	NUTM2A-AS1	ENSG00000223482	ENST00000413722	antisense	KNOWN	None	45161	None	None	89047714	89102044	-1	FAM22A-AS1	None
10	NUTM2A-AS1	ENSG00000223482	ENST00000417860	antisense	KNOWN	None	45161	None	None	89079613	89090709	-1	FAM22A-AS1	None
10	NUTM2A-AS1	ENSG00000223482	ENST00000413961	antisense	KNOWN	None	45161	None	None	89080310	89102087	-1	FAM22A-AS1	None
10	NUTM2A-AS1	ENSG00000223482	ENST00000458739	antisense	KNOWN	None	45161	None	None	89084801	89102242	-1	FAM22A-AS1	None
10	NUTM2A-AS1	ENSG00000223482	ENST00000366446	antisense	KNOWN	None	45161	None	None	89093797	89096586	-1	FAM22A-AS1	None
16	None	ENSG00000263234	ENST00000576600	lincRNA	KNOWN	None	None	None	None	14047012	14048682	1	None	None
12	RNA5SP371	ENSG00000222302	ENST00000410370	rRNA	KNOWN	None	43271	None	None	107880288	107880412	-1	RN5S371	None
10	RNU2-42P	ENSG00000222629	ENST00000410697	snRNA	KNOWN	None	48535	None	None	127579135	127579247	-1	None	None
10	NCOA4	ENSG00000138293	ENST00000498586	processed_transcript	KNOWN	None	7671	None	None	51565205	51584817	1	None	ARA70, RFG, ELE1, PTC3, DKFZp762E1112
10	NCOA4	ENSG00000138293	ENST00000374087	protein_coding	KNOWN	CCDS7237	7671	1845	614	51565227	51590732	1	None	ARA70, RFG, ELE1, PTC3, DKFZp762E1112
10	NCOA4	ENSG00000138293	ENST00000344348	protein_coding	KNOWN	CCDS7237	7671	1845	614	51572367	51590732	1	None	ARA70, RFG, ELE1, PTC3, DKFZp762E1112
10	NCOA4	ENSG00000138293	ENST00000374082	protein_coding	NOVEL	None	7671	1728	575	51572427	51590734	1	None	ARA70, RFG, ELE1, PTC3, DKFZp762E1112
10	NCOA4	ENSG00000138293	ENST00000431200	protein_coding	KNOWN	None	7671	792	263	51573300	51584947	1	None	ARA70, RFG, ELE1, PTC3, DKFZp762E1112
10	NCOA4	ENSG00000138293	ENST00000438493	protein_coding	KNOWN	CCDS44393	7671	1893	630	51565108	51590731	1	None	ARA70, RFG, ELE1, PTC3, DKFZp762E1112
10	NCOA4	ENSG00000138293	ENST00000452682	protein_coding	KNOWN	CCDS44394	7671	1953	650	51565108	51590731	1	None	ARA70, RFG, ELE1, PTC3, DKFZp762E1112
10	NCOA4	ENSG00000138293	ENST00000443446	protein_coding	KNOWN	CCDS7237	7671	1845	614	51576285	51590731	1	None	ARA70, RFG, ELE1, PTC3, DKFZp762E1112
10	NCOA4	ENSG00000138293	ENST00000430396	protein_coding	KNOWN	None	7671	1545	514	51565207	51589649	1	None	ARA70, RFG, ELE1, PTC3, DKFZp762E1112
10	NCOA4	ENSG00000138293	ENST00000414907	protein_coding	KNOWN	None	7671	1347	448	51565230	51589444	1	None	ARA70, RFG, ELE1, PTC3, DKFZp762E1112
5	None	ENSG00000251032	ENST00000509510	processed_pseudogene	KNOWN	None	None	None	None	127120310	127122734	-1	None	None
10	None	ENSG00000234016	ENST00000452289	processed_pseudogene	KNOWN	None	None	None	None	127648777	127648975	-1	None	None
6	None	ENSG00000220725	ENST00000405336	processed_pseudogene	KNOWN	None	None	None	None	55545440	55545819	-1	None	None
10	FANK1-AS1	ENSG00000233409	ENST00000445458	antisense	KNOWN	None	43915	None	None	127660757	127661695	-1	None	None
11	ANGPTL5	ENSG00000187151	ENST00000334289	protein_coding	KNOWN	CCDS8312	19705	1167	388	101761405	101787253	-1	None	None
11	ANGPTL5	ENSG00000187151	ENST00000534527	protein_coding	NOVEL	None	19705	576	191	101765686	101778665	-1	None	None
5	HIGD2A	ENSG00000146066	ENST00000274787	protein_coding	KNOWN	CCDS4401	28311	321	106	175815748	175816772	1	None	MGC2198
16	None	ENSG00000262097	ENST00000575424	lincRNA	KNOWN	None	None	None	None	14103137	14109873	-1	None	None
16	None	ENSG00000262097	ENST00000576797	lincRNA	KNOWN	None	None	None	None	14106888	14109858	-1	None	None
9	BRD3	ENSG00000169925	ENST00000303407	protein_coding	KNOWN	CCDS6980	1104	2181	726	136895427	136933139	-1	None	RING3L, ORFX, KIAA0043
9	BRD3	ENSG00000169925	ENST00000473349	processed_transcript	KNOWN	None	1104	None	None	136898524	136906916	-1	None	RING3L, ORFX, KIAA0043
9	BRD3	ENSG00000169925	ENST00000371834	protein_coding	KNOWN	None	1104	1671	556	136901150	136933657	-1	None	RING3L, ORFX, KIAA0043
9	BRD3	ENSG00000169925	ENST00000494743	retained_intron	KNOWN	None	1104	None	None	136913124	136915549	-1	None	RING3L, ORFX, KIAA0043
9	BRD3	ENSG00000169925	ENST00000371842	protein_coding	KNOWN	None	1104	224	73	136917555	136921134	-1	None	RING3L, ORFX, KIAA0043
9	BRD3	ENSG00000169925	ENST00000433041	protein_coding	KNOWN	None	1104	60	19	136918540	136919262	-1	None	RING3L, ORFX, KIAA0043
9	BRD3	ENSG00000169925	ENST00000357885	protein_coding	KNOWN	None	1104	1671	556	136901686	136933092	-1	None	RING3L, ORFX, KIAA0043
6	NPM1P36	ENSG00000214604	ENST00000415681	processed_pseudogene	KNOWN	None	45215	None	None	55804588	55805422	-1	None	None
19	TAF9P3	ENSG00000267692	ENST00000585464	processed_pseudogene	KNOWN	None	30678	None	None	30528192	30528318	1	None	TAF2GL
10	RNA5SP328	ENSG00000222740	ENST00000410808	rRNA	KNOWN	None	43228	None	None	127834043	127834151	-1	RN5S328	None
20	TOX2	ENSG00000124191	ENST00000442881	protein_coding	KNOWN	None	16095	533	176	42543504	42682946	1	C20orf100	dJ1108D11.2, GCX-1
20	TOX2	ENSG00000124191	ENST00000372999	protein_coding	KNOWN	CCDS13324	16095	1395	464	42544807	42698256	1	C20orf100	dJ1108D11.2, GCX-1
20	TOX2	ENSG00000124191	ENST00000358131	protein_coding	KNOWN	CCDS42875	16095	1467	488	42574345	42698256	1	C20orf100	dJ1108D11.2, GCX-1
20	TOX2	ENSG00000124191	ENST00000413823	protein_coding	KNOWN	None	16095	591	196	42682991	42698256	1	C20orf100	dJ1108D11.2, GCX-1
20	TOX2	ENSG00000124191	ENST00000341197	protein_coding	KNOWN	CCDS46603	16095	1521	506	42543492	42698252	1	C20orf100	dJ1108D11.2, GCX-1
20	TOX2	ENSG00000124191	ENST00000423191	protein_coding	KNOWN	CCDS13324	16095	1395	464	42544782	42698252	1	C20orf100	dJ1108D11.2, GCX-1
20	TOX2	ENSG00000124191	ENST00000435864	protein_coding	KNOWN	None	16095	1155	384	42667644	42698252	1	C20orf100	dJ1108D11.2, GCX-1
10	None	ENSG00000213170	ENST00000392696	processed_pseudogene	KNOWN	None	None	None	None	127961387	127961980	1	None	None
5	None	ENSG00000250603	ENST00000507509	lincRNA	KNOWN	None	None	None	None	127174178	127193496	-1	None	None
3	None	ENSG00000239381	ENST00000481234	lincRNA	KNOWN	None	None	None	None	181251965	181253662	-1	None	None
3	None	ENSG00000239381	ENST00000470817	lincRNA	KNOWN	None	None	None	None	181252400	181253662	-1	None	None
3	None	ENSG00000239381	ENST00000482559	lincRNA	KNOWN	None	None	None	None	181252403	181253669	-1	None	None
X	PCDH19	ENSG00000165194	ENST00000420881	protein_coding	KNOWN	CCDS48141	14270	3303	1100	99546642	99663595	-1	EFMR	KIAA1313, EIEE9
X	PCDH19	ENSG00000165194	ENST00000373034	protein_coding	KNOWN	CCDS55462	14270	3447	1148	99546642	99665271	-1	EFMR	KIAA1313, EIEE9
X	PCDH19	ENSG00000165194	ENST00000255531	protein_coding	KNOWN	CCDS43976	14270	3306	1101	99546644	99665271	-1	EFMR	KIAA1313, EIEE9
X	PCDH19	ENSG00000165194	ENST00000464981	processed_transcript	KNOWN	None	14270	None	None	99546645	99551298	-1	EFMR	KIAA1313, EIEE9
19	None	ENSG00000266910	ENST00000587506	processed_pseudogene	KNOWN	None	None	None	None	30528330	30529063	1	None	None
13	KLHL1	ENSG00000150361	ENST00000377844	protein_coding	KNOWN	CCDS9445	6352	2247	748	70274726	70682591	-1	None	KIAA1490, MRP2, FLJ30047
13	KLHL1	ENSG00000150361	ENST00000545028	protein_coding	KNOWN	None	6352	1668	555	70275744	70681814	-1	None	KIAA1490, MRP2, FLJ30047
6	None	ENSG00000219095	ENST00000401776	processed_pseudogene	KNOWN	None	None	None	None	56141327	56141594	-1	None	None
16	None	ENSG00000261856	ENST00000575767	lincRNA	KNOWN	None	None	None	None	14112737	14114934	-1	None	None
16	RPL13	ENSG00000167526	ENST00000311528	protein_coding	KNOWN	CCDS10979	10303	636	211	89627065	89630949	1	None	D16S444E, BBC1, L13
16	RPL13	ENSG00000167526	ENST00000491523	retained_intron	KNOWN	None	10303	None	None	89627085	89628801	1	None	D16S444E, BBC1, L13
16	RPL13	ENSG00000167526	ENST00000563749	retained_intron	KNOWN	None	10303	None	None	89627085	89629451	1	None	D16S444E, BBC1, L13
16	RPL13	ENSG00000167526	ENST00000484610	retained_intron	KNOWN	None	10303	None	None	89627087	89629475	1	None	D16S444E, BBC1, L13
16	RPL13	ENSG00000167526	ENST00000563270	protein_coding	PUTATIVE	None	10303	164	53	89627089	89629440	1	None	D16S444E, BBC1, L13
16	RPL13	ENSG00000167526	ENST00000567815	protein_coding	KNOWN	CCDS10979	10303	636	211	89627089	89629488	1	None	D16S444E, BBC1, L13
16	RPL13	ENSG00000167526	ENST00000487034	retained_intron	KNOWN	None	10303	None	None	89627090	89627931	1	None	D16S444E, BBC1, L13
16	RPL13	ENSG00000167526	ENST00000562879	nonsense_mediated_decay	KNOWN	None	10303	192	63	89627090	89629881	1	None	D16S444E, BBC1, L13
16	RPL13	ENSG00000167526	ENST00000565571	retained_intron	KNOWN	None	10303	None	None	89627091	89628257	1	None	D16S444E, BBC1, L13
16	RPL13	ENSG00000167526	ENST00000452368	protein_coding	PUTATIVE	CCDS58492	10303	495	164	89627091	89630360	1	None	D16S444E, BBC1, L13
16	RPL13	ENSG00000167526	ENST00000467736	protein_coding	KNOWN	None	10303	379	125	89627119	89628118	1	None	D16S444E, BBC1, L13
16	RPL13	ENSG00000167526	ENST00000393099	protein_coding	KNOWN	CCDS10979	10303	636	211	89627119	89630950	1	None	D16S444E, BBC1, L13
16	RPL13	ENSG00000167526	ENST00000399461	retained_intron	KNOWN	None	10303	None	None	89627312	89629474	1	None	D16S444E, BBC1, L13
16	RPL13	ENSG00000167526	ENST00000570149	retained_intron	KNOWN	None	10303	None	None	89628548	89629474	1	None	D16S444E, BBC1, L13
16	RPL13	ENSG00000167526	ENST00000472354	protein_coding	PUTATIVE	None	10303	235	77	89628778	89629846	1	None	D16S444E, BBC1, L13
10	LINC00601	ENSG00000235180	ENST00000456514	lincRNA	KNOWN	None	43916	None	None	128102438	128110448	-1	None	None
HSCHR6_MHC_APD	NOTCH4	ENSG00000238196	ENST00000487071	retained_intron	KNOWN	None	7884	None	None	32173961	32176095	-1	INT3	None
HSCHR6_MHC_APD	NOTCH4	ENSG00000238196	ENST00000466682	retained_intron	KNOWN	None	7884	None	None	32173961	32183299	-1	INT3	None
HSCHR6_MHC_APD	NOTCH4	ENSG00000238196	ENST00000425600	protein_coding	KNOWN	None	7884	3147	1048	32173961	32183518	-1	INT3	None
19	None	ENSG00000267223	ENST00000588092	lincRNA	KNOWN	None	None	None	None	30710573	30719622	-1	None	None
6	RPL23AP1	ENSG00000239257	ENST00000428990	processed_pseudogene	KNOWN	None	10318	None	None	29694446	29694916	-1	None	None
6	None	ENSG00000227602	ENST00000415663	sense_intronic	KNOWN	None	None	None	None	56196586	56196915	-1	None	None
19	None	ENSG00000223148	ENST00000411216	miRNA	NOVEL	None	None	None	None	31105127	31105227	1	None	None
19	CPAMD8	ENSG00000160111	ENST00000443236	protein_coding	KNOWN	CCDS42519	23228	5799	1932	17003758	17137625	-1	None	KIAA1283, VIP, K-CAP
19	CPAMD8	ENSG00000160111	ENST00000594249	protein_coding	PUTATIVE	None	23228	1016	337	17003762	17014408	-1	None	KIAA1283, VIP, K-CAP
19	CPAMD8	ENSG00000160111	ENST00000600235	retained_intron	KNOWN	None	23228	None	None	17003765	17007784	-1	None	KIAA1283, VIP, K-CAP
19	CPAMD8	ENSG00000160111	ENST00000596224	retained_intron	KNOWN	None	23228	None	None	17003769	17007752	-1	None	KIAA1283, VIP, K-CAP
19	CPAMD8	ENSG00000160111	ENST00000597335	processed_transcript	KNOWN	None	23228	None	None	17004550	17007784	-1	None	KIAA1283, VIP, K-CAP
19	CPAMD8	ENSG00000160111	ENST00000602132	processed_transcript	PUTATIVE	None	23228	None	None	17004619	17007784	-1	None	KIAA1283, VIP, K-CAP
19	CPAMD8	ENSG00000160111	ENST00000598547	processed_transcript	KNOWN	None	23228	None	None	17004655	17007734	-1	None	KIAA1283, VIP, K-CAP
19	CPAMD8	ENSG00000160111	ENST00000598792	protein_coding	PUTATIVE	None	23228	171	56	17004819	17007026	-1	None	KIAA1283, VIP, K-CAP
19	CPAMD8	ENSG00000160111	ENST00000601782	retained_intron	KNOWN	None	23228	None	None	17004894	17008700	-1	None	KIAA1283, VIP, K-CAP
19	CPAMD8	ENSG00000160111	ENST00000597709	retained_intron	KNOWN	None	23228	None	None	17005164	17008919	-1	None	KIAA1283, VIP, K-CAP
19	CPAMD8	ENSG00000160111	ENST00000598104	retained_intron	KNOWN	None	23228	None	None	17006676	17007784	-1	None	KIAA1283, VIP, K-CAP
19	CPAMD8	ENSG00000160111	ENST00000596572	retained_intron	KNOWN	None	23228	None	None	17006850	17007755	-1	None	KIAA1283, VIP, K-CAP
19	CPAMD8	ENSG00000160111	ENST00000593739	retained_intron	KNOWN	None	23228	None	None	17007007	17007704	-1	None	KIAA1283, VIP, K-CAP
19	CPAMD8	ENSG00000160111	ENST00000599287	protein_coding	PUTATIVE	None	23228	526	174	17007040	17010360	-1	None	KIAA1283, VIP, K-CAP
19	CPAMD8	ENSG00000160111	ENST00000595323	processed_transcript	PUTATIVE	None	23228	None	None	17007284	17008203	-1	None	KIAA1283, VIP, K-CAP
19	CPAMD8	ENSG00000160111	ENST00000593420	processed_transcript	KNOWN	None	23228	None	None	17057892	17086878	-1	None	KIAA1283, VIP, K-CAP
19	CPAMD8	ENSG00000160111	ENST00000602159	retained_intron	KNOWN	None	23228	None	None	17062799	17081935	-1	None	KIAA1283, VIP, K-CAP
19	CPAMD8	ENSG00000160111	ENST00000291440	nonsense_mediated_decay	KNOWN	None	23228	1653	550	17068357	17137625	-1	None	KIAA1283, VIP, K-CAP
19	CPAMD8	ENSG00000160111	ENST00000601637	retained_intron	KNOWN	None	23228	None	None	17111016	17113340	-1	None	KIAA1283, VIP, K-CAP
19	CPAMD8	ENSG00000160111	ENST00000388925	protein_coding	KNOWN	None	23228	1512	503	17068360	17137625	-1	None	KIAA1283, VIP, K-CAP
6	HCG9P5	ENSG00000227758	ENST00000435408	unprocessed_pseudogene	KNOWN	None	30983	None	None	29716066	29716290	1	None	HCGIX-5, dJ377H14.6
19	None	ENSG00000267760	ENST00000593140	lincRNA	KNOWN	None	None	None	None	31156181	31159554	-1	None	None
6	None	ENSG00000199290	ENST00000362420	misc_RNA	NOVEL	None	None	None	None	29718148	29718249	1	None	None
1	XCL2	ENSG00000143185	ENST00000367819	protein_coding	KNOWN	CCDS1273	10646	345	114	168510003	168513235	-1	SCYC2	SCM-1b
19	None	ENSG00000267081	ENST00000585364	lincRNA	KNOWN	None	None	None	None	31341882	31363414	1	None	None
5	CSF2	ENSG00000164400	ENST00000296871	protein_coding	KNOWN	CCDS4150	2434	435	144	131409483	131411859	1	None	GM-CSF, GMCSF
6	None	ENSG00000224073	ENST00000427974	lincRNA	KNOWN	None	None	None	None	160060339	160061133	-1	None	None
HSCHR6_MHC_DBB	MSH5-SAPCD1	ENSG00000266027	ENST00000583103	nonsense_mediated_decay	KNOWN	None	41994	2556	851	31689974	31714813	1	MSH5-C6orf26	None
HSCHR6_MHC_DBB	MSH5-SAPCD1	ENSG00000266027	ENST00000476578	nonsense_mediated_decay	KNOWN	None	41994	793	263	31709407	31714813	1	MSH5-C6orf26	None
HSCHR6_MHC_DBB	MSH5-SAPCD1	ENSG00000266027	ENST00000496211	nonsense_mediated_decay	KNOWN	None	41994	88	28	31712406	31714813	1	MSH5-C6orf26	None
11	MAP3K11	ENSG00000173327	ENST00000309100	protein_coding	KNOWN	CCDS8107	6850	2544	847	65365226	65381713	-1	MLK3, PTK1	SPRK, MEKK11
11	MAP3K11	ENSG00000173327	ENST00000532507	protein_coding	PUTATIVE	None	6850	792	263	65365227	65374497	-1	MLK3, PTK1	SPRK, MEKK11
11	MAP3K11	ENSG00000173327	ENST00000530153	protein_coding	PUTATIVE	None	6850	1773	590	65365227	65378772	-1	MLK3, PTK1	SPRK, MEKK11
11	MAP3K11	ENSG00000173327	ENST00000524848	nonsense_mediated_decay	KNOWN	None	6850	648	215	65365229	65375893	-1	MLK3, PTK1	SPRK, MEKK11
11	MAP3K11	ENSG00000173327	ENST00000534432	processed_transcript	KNOWN	None	6850	None	None	65366922	65374229	-1	MLK3, PTK1	SPRK, MEKK11
11	MAP3K11	ENSG00000173327	ENST00000526647	retained_intron	KNOWN	None	6850	None	None	65373193	65373867	-1	MLK3, PTK1	SPRK, MEKK11
11	MAP3K11	ENSG00000173327	ENST00000524856	retained_intron	KNOWN	None	6850	None	None	65373906	65382853	-1	MLK3, PTK1	SPRK, MEKK11
11	MAP3K11	ENSG00000173327	ENST00000533032	retained_intron	KNOWN	None	6850	None	None	65374636	65375341	-1	MLK3, PTK1	SPRK, MEKK11
11	MAP3K11	ENSG00000173327	ENST00000530949	retained_intron	KNOWN	None	6850	None	None	65375177	65375919	-1	MLK3, PTK1	SPRK, MEKK11
11	MAP3K11	ENSG00000173327	ENST00000526293	protein_coding	PUTATIVE	None	6850	334	110	65375273	65381720	-1	MLK3, PTK1	SPRK, MEKK11
11	MAP3K11	ENSG00000173327	ENST00000529839	protein_coding	PUTATIVE	None	6850	290	95	65375401	65381719	-1	MLK3, PTK1	SPRK, MEKK11
11	MAP3K11	ENSG00000173327	ENST00000534110	retained_intron	KNOWN	None	6850	None	None	65375495	65376276	-1	MLK3, PTK1	SPRK, MEKK11
11	MAP3K11	ENSG00000173327	ENST00000527304	retained_intron	KNOWN	None	6850	None	None	65376103	65381707	-1	MLK3, PTK1	SPRK, MEKK11
6	IFITM4P	ENSG00000235821	ENST00000441380	processed_pseudogene	KNOWN	None	21669	None	None	29718506	29718925	-1	None	dJ377H14.5
19	None	ENSG00000261316	ENST00000567374	lincRNA	KNOWN	None	None	None	None	31398106	31400062	1	None	None
6	HNRNPH1P1	ENSG00000220305	ENST00000403291	processed_pseudogene	KNOWN	None	48751	None	None	160133833	160135017	-1	None	None
12	MYL6	ENSG00000092841	ENST00000550697	protein_coding	KNOWN	CCDS8906	7587	456	151	56551945	56555358	1	None	ESMLC, MLC3NM, MLC1SM
12	MYL6	ENSG00000092841	ENST00000548580	protein_coding	NOVEL	None	7587	312	103	56552130	56555359	1	None	ESMLC, MLC3NM, MLC1SM
12	MYL6	ENSG00000092841	ENST00000550184	retained_intron	KNOWN	None	7587	None	None	56552133	56555334	1	None	ESMLC, MLC3NM, MLC1SM
12	MYL6	ENSG00000092841	ENST00000552297	processed_transcript	KNOWN	None	7587	None	None	56552140	56554104	1	None	ESMLC, MLC3NM, MLC1SM
12	MYL6	ENSG00000092841	ENST00000293422	protein_coding	NOVEL	None	7587	459	152	56552140	56555358	1	None	ESMLC, MLC3NM, MLC1SM
12	MYL6	ENSG00000092841	ENST00000348108	protein_coding	NOVEL	None	7587	459	152	56552140	56555371	1	None	ESMLC, MLC3NM, MLC1SM
12	MYL6	ENSG00000092841	ENST00000549017	protein_coding	PUTATIVE	None	7587	144	47	56552141	56555358	1	None	ESMLC, MLC3NM, MLC1SM
12	MYL6	ENSG00000092841	ENST00000547703	retained_intron	KNOWN	None	7587	None	None	56552142	56554064	1	None	ESMLC, MLC3NM, MLC1SM
12	MYL6	ENSG00000092841	ENST00000549566	protein_coding	PUTATIVE	None	7587	591	196	56552142	56555249	1	None	ESMLC, MLC3NM, MLC1SM
12	MYL6	ENSG00000092841	ENST00000536128	protein_coding	PUTATIVE	None	7587	717	238	56552146	56554579	1	None	ESMLC, MLC3NM, MLC1SM
12	MYL6	ENSG00000092841	ENST00000547649	protein_coding	KNOWN	CCDS31834	7587	456	151	56552146	56555358	1	None	ESMLC, MLC3NM, MLC1SM
12	MYL6	ENSG00000092841	ENST00000548725	retained_intron	KNOWN	None	7587	None	None	56552148	56554127	1	None	ESMLC, MLC3NM, MLC1SM
12	MYL6	ENSG00000092841	ENST00000547408	protein_coding	PUTATIVE	None	7587	486	161	56552152	56556792	1	None	ESMLC, MLC3NM, MLC1SM
12	MYL6	ENSG00000092841	ENST00000551589	protein_coding	PUTATIVE	None	7587	438	145	56552153	56555082	1	None	ESMLC, MLC3NM, MLC1SM
12	MYL6	ENSG00000092841	ENST00000550639	processed_transcript	KNOWN	None	7587	None	None	56552155	56553932	1	None	ESMLC, MLC3NM, MLC1SM
12	MYL6	ENSG00000092841	ENST00000546630	retained_intron	KNOWN	None	7587	None	None	56552157	56553575	1	None	ESMLC, MLC3NM, MLC1SM
12	MYL6	ENSG00000092841	ENST00000549392	protein_coding	NOVEL	None	7587	391	129	56552166	56554104	1	None	ESMLC, MLC3NM, MLC1SM
12	MYL6	ENSG00000092841	ENST00000548400	protein_coding	NOVEL	None	7587	348	115	56552166	56555359	1	None	ESMLC, MLC3NM, MLC1SM
12	MYL6	ENSG00000092841	ENST00000548293	protein_coding	KNOWN	CCDS8906	7587	456	151	56552180	56554729	1	None	ESMLC, MLC3NM, MLC1SM
12	MYL6	ENSG00000092841	ENST00000546845	nonsense_mediated_decay	KNOWN	None	7587	250	82	56553820	56556754	1	None	ESMLC, MLC3NM, MLC1SM
12	MYL6	ENSG00000092841	ENST00000551954	processed_transcript	KNOWN	None	7587	None	None	56555565	56557280	1	None	ESMLC, MLC3NM, MLC1SM
6	None	ENSG00000272236	ENST00000606834	lincRNA	KNOWN	None	None	None	None	29719742	29719984	-1	None	None
19	None	ENSG00000267378	ENST00000587702	lincRNA	KNOWN	None	None	None	None	31437488	31448098	1	None	None
19	KIR2DS4	ENSG00000221957	ENST00000339924	polymorphic_pseudogene	KNOWN	None	6336	893	296	55344131	55360024	1	None	cl-39, KKA3, nkat8, CD158i
19	KIR2DS4	ENSG00000221957	ENST00000391729	polymorphic_pseudogene	KNOWN	None	6336	677	224	55344220	55358673	1	None	cl-39, KKA3, nkat8, CD158i
3	C3orf17	ENSG00000163608	ENST00000314400	protein_coding	KNOWN	CCDS33824	24496	1704	567	112721287	112738686	-1	None	DKFZP434F2021, NET17
3	C3orf17	ENSG00000163608	ENST00000383675	protein_coding	KNOWN	None	24496	1494	497	112721291	112738580	-1	None	DKFZP434F2021, NET17
3	C3orf17	ENSG00000163608	ENST00000472637	nonsense_mediated_decay	KNOWN	None	24496	111	36	112723764	112738501	-1	None	DKFZP434F2021, NET17
3	C3orf17	ENSG00000163608	ENST00000486271	retained_intron	KNOWN	None	24496	None	None	112723764	112738553	-1	None	DKFZP434F2021, NET17
3	C3orf17	ENSG00000163608	ENST00000469809	nonsense_mediated_decay	KNOWN	None	24496	111	36	112723801	112738505	-1	None	DKFZP434F2021, NET17
3	C3orf17	ENSG00000163608	ENST00000474311	retained_intron	KNOWN	None	24496	None	None	112723811	112727647	-1	None	DKFZP434F2021, NET17
3	C3orf17	ENSG00000163608	ENST00000472705	nonsense_mediated_decay	KNOWN	None	24496	120	39	112724023	112738511	-1	None	DKFZP434F2021, NET17
3	C3orf17	ENSG00000163608	ENST00000469169	nonsense_mediated_decay	KNOWN	None	24496	111	36	112724090	112738511	-1	None	DKFZP434F2021, NET17
3	C3orf17	ENSG00000163608	ENST00000473284	nonsense_mediated_decay	KNOWN	None	24496	111	36	112724090	112738708	-1	None	DKFZP434F2021, NET17
3	C3orf17	ENSG00000163608	ENST00000489848	nonsense_mediated_decay	KNOWN	None	24496	111	36	112724169	112738517	-1	None	DKFZP434F2021, NET17
3	C3orf17	ENSG00000163608	ENST00000462295	nonsense_mediated_decay	KNOWN	None	24496	111	36	112724328	112738513	-1	None	DKFZP434F2021, NET17
3	C3orf17	ENSG00000163608	ENST00000461381	nonsense_mediated_decay	KNOWN	None	24496	717	238	112724791	112738518	-1	None	DKFZP434F2021, NET17
3	C3orf17	ENSG00000163608	ENST00000472762	processed_transcript	KNOWN	None	24496	None	None	112727018	112730152	-1	None	DKFZP434F2021, NET17
3	C3orf17	ENSG00000163608	ENST00000482229	retained_intron	KNOWN	None	24496	None	None	112727018	112730383	-1	None	DKFZP434F2021, NET17
3	C3orf17	ENSG00000163608	ENST00000464816	retained_intron	KNOWN	None	24496	None	None	112729351	112730122	-1	None	DKFZP434F2021, NET17
3	C3orf17	ENSG00000163608	ENST00000496206	nonsense_mediated_decay	KNOWN	None	24496	342	113	112729505	112738491	-1	None	DKFZP434F2021, NET17
3	C3orf17	ENSG00000163608	ENST00000460410	nonsense_mediated_decay	KNOWN	None	24496	111	36	112729892	112738679	-1	None	DKFZP434F2021, NET17
3	C3orf17	ENSG00000163608	ENST00000494164	nonsense_mediated_decay	KNOWN	None	24496	111	36	112729903	112738698	-1	None	DKFZP434F2021, NET17
3	C3orf17	ENSG00000163608	ENST00000491121	nonsense_mediated_decay	KNOWN	None	24496	111	36	112729940	112738568	-1	None	DKFZP434F2021, NET17
3	C3orf17	ENSG00000163608	ENST00000494575	processed_transcript	KNOWN	None	24496	None	None	112730109	112738518	-1	None	DKFZP434F2021, NET17
3	C3orf17	ENSG00000163608	ENST00000494891	retained_intron	KNOWN	None	24496	None	None	112731386	112738450	-1	None	DKFZP434F2021, NET17
3	C3orf17	ENSG00000163608	ENST00000470663	nonsense_mediated_decay	KNOWN	None	24496	111	36	112731424	112738528	-1	None	DKFZP434F2021, NET17
3	C3orf17	ENSG00000163608	ENST00000496340	nonsense_mediated_decay	KNOWN	None	24496	345	114	112731640	112738518	-1	None	DKFZP434F2021, NET17
3	C3orf17	ENSG00000163608	ENST00000472166	protein_coding	PUTATIVE	None	24496	245	80	112732122	112738007	-1	None	DKFZP434F2021, NET17
3	C3orf17	ENSG00000163608	ENST00000393857	protein_coding	KNOWN	None	24496	1296	431	112723768	112738494	-1	None	DKFZP434F2021, NET17
5	None	ENSG00000245937	ENST00000499346	lincRNA	KNOWN	None	None	None	None	127276118	127418792	-1	None	None
5	None	ENSG00000245937	ENST00000514409	lincRNA	KNOWN	None	None	None	None	127276697	127418720	-1	None	None
5	None	ENSG00000245937	ENST00000501652	lincRNA	KNOWN	None	None	None	None	127301580	127418666	-1	None	None
5	None	ENSG00000245937	ENST00000501173	lincRNA	KNOWN	None	None	None	None	127302241	127418767	-1	None	None
5	None	ENSG00000245937	ENST00000514573	lincRNA	KNOWN	None	None	None	None	127302365	127418782	-1	None	None
5	None	ENSG00000245937	ENST00000508353	lincRNA	KNOWN	None	None	None	None	127302427	127418573	-1	None	None
5	None	ENSG00000245937	ENST00000606855	lincRNA	KNOWN	None	None	None	None	127338221	127359852	-1	None	None
5	None	ENSG00000245937	ENST00000512185	lincRNA	KNOWN	None	None	None	None	127338387	127339680	-1	None	None
5	None	ENSG00000245937	ENST00000501702	lincRNA	KNOWN	None	None	None	None	127357220	127418766	-1	None	None
5	None	ENSG00000245937	ENST00000508878	lincRNA	KNOWN	None	None	None	None	127359719	127418652	-1	None	None
5	None	ENSG00000245937	ENST00000606251	lincRNA	KNOWN	None	None	None	None	127396276	127418864	-1	None	None
20	AHCY	ENSG00000101444	ENST00000217426	protein_coding	KNOWN	CCDS13233	343	1299	432	32868074	32891154	-1	None	SAHH
20	AHCY	ENSG00000101444	ENST00000480653	retained_intron	KNOWN	None	343	None	None	32868076	32891123	-1	None	SAHH
20	AHCY	ENSG00000101444	ENST00000538132	protein_coding	KNOWN	CCDS54457	343	1215	404	32868076	32899608	-1	None	SAHH
20	AHCY	ENSG00000101444	ENST00000468908	processed_transcript	KNOWN	None	343	None	None	32879271	32889754	-1	None	SAHH
20	AHCY	ENSG00000101444	ENST00000606061	retained_intron	KNOWN	None	343	None	None	32881272	32891163	-1	None	SAHH
20	AHCY	ENSG00000101444	ENST00000473516	processed_transcript	KNOWN	None	343	None	None	32883235	32890481	-1	None	SAHH
6	None	ENSG00000270896	ENST00000604495	processed_pseudogene	KNOWN	None	None	None	None	29731035	29731169	-1	None	None
19	None	ENSG00000267777	ENST00000589511	lincRNA	KNOWN	None	None	None	None	31658422	31698569	1	None	None
6	HLA-V	ENSG00000181126	ENST00000446817	processed_transcript	KNOWN	None	23482	None	None	29758731	29760878	1	HLA-75	dJ377H14.4
6	HLA-V	ENSG00000181126	ENST00000476601	processed_transcript	KNOWN	None	23482	None	None	29759683	29765588	1	HLA-75	dJ377H14.4
6	HLA-V	ENSG00000181126	ENST00000457107	processed_transcript	KNOWN	None	23482	None	None	29760000	29765588	1	HLA-75	dJ377H14.4
6	HLA-V	ENSG00000181126	ENST00000429037	transcribed_unprocessed_pseudogene	KNOWN	None	23482	None	None	29760011	29760913	1	HLA-75	dJ377H14.4
19	None	ENSG00000267662	ENST00000585336	antisense	KNOWN	None	None	None	None	31839787	31908700	1	None	None
19	None	ENSG00000269533	ENST00000596617	protein_coding	PUTATIVE	None	None	320	105	57901252	57929380	1	None	None
19	None	ENSG00000269533	ENST00000600421	processed_transcript	KNOWN	None	None	None	None	57901355	57922535	1	None	None
19	None	ENSG00000269533	ENST00000596400	protein_coding	PUTATIVE	None	None	538	178	57901376	57931362	1	None	None
12	None	ENSG00000257579	ENST00000548473	antisense	KNOWN	None	None	None	None	108003811	108011498	-1	None	None
5	CLTB	ENSG00000175416	ENST00000310418	protein_coding	KNOWN	CCDS4403	2091	690	229	175819456	175843570	-1	None	Lcb
5	CLTB	ENSG00000175416	ENST00000345807	protein_coding	KNOWN	CCDS4402	2091	636	211	175819456	175843570	-1	None	Lcb
5	CLTB	ENSG00000175416	ENST00000508425	protein_coding	PUTATIVE	None	2091	246	81	175819643	175843262	-1	None	Lcb
5	CLTB	ENSG00000175416	ENST00000510734	nonsense_mediated_decay	KNOWN	None	2091	405	134	175819650	175843540	-1	None	Lcb
5	CLTB	ENSG00000175416	ENST00000502877	protein_coding	NOVEL	None	2091	377	124	175819794	175843539	-1	None	Lcb
5	CLTB	ENSG00000175416	ENST00000507821	processed_transcript	KNOWN	None	2091	None	None	175832591	175833341	-1	None	Lcb
5	CLTB	ENSG00000175416	ENST00000509319	processed_transcript	KNOWN	None	2091	None	None	175833168	175834592	-1	None	Lcb
1	XCL1	ENSG00000143184	ENST00000367818	protein_coding	KNOWN	CCDS1274	10645	345	114	168545711	168551315	1	LTN, SCYC1	LPTN, ATAC, SCM-1a, SCM-1, lymphotactin
9	None	ENSG00000236394	ENST00000439076	antisense	KNOWN	None	None	None	None	139947226	139947826	1	None	None
19	CARM1	ENSG00000142453	ENST00000327064	protein_coding	KNOWN	CCDS12250	23393	1827	608	10982189	11033448	1	None	PRMT4
19	CARM1	ENSG00000142453	ENST00000588947	protein_coding	NOVEL	None	23393	361	119	10982272	11019812	1	None	PRMT4
19	CARM1	ENSG00000142453	ENST00000590699	nonsense_mediated_decay	KNOWN	None	23393	486	161	10982349	11032447	1	None	PRMT4
19	CARM1	ENSG00000142453	ENST00000344150	protein_coding	NOVEL	None	23393	1758	585	10982379	11033397	1	None	PRMT4
19	CARM1	ENSG00000142453	ENST00000586221	nonsense_mediated_decay	KNOWN	None	23393	1030	342	10982504	11033453	1	None	PRMT4
19	CARM1	ENSG00000142453	ENST00000590039	nonsense_mediated_decay	KNOWN	None	23393	336	111	10982529	11022928	1	None	PRMT4
19	CARM1	ENSG00000142453	ENST00000589693	nonsense_mediated_decay	KNOWN	None	23393	279	92	10982586	11024607	1	None	PRMT4
19	CARM1	ENSG00000142453	ENST00000586508	retained_intron	KNOWN	None	23393	None	None	11029662	11031546	1	None	PRMT4
19	CARM1	ENSG00000142453	ENST00000586298	protein_coding	NOVEL	None	23393	531	176	11030605	11032576	1	None	PRMT4
19	CARM1	ENSG00000142453	ENST00000592516	retained_intron	KNOWN	None	23393	None	None	11031343	11032610	1	None	PRMT4
6	RNU4ATAC18P	ENSG00000251988	ENST00000516179	snRNA	KNOWN	None	46904	None	None	160141447	160141572	-1	None	None
9	None	ENSG00000229257	ENST00000435463	antisense	KNOWN	None	None	None	None	139952115	139956913	1	None	None
6	SNORA20	ENSG00000207392	ENST00000384662	snoRNA	KNOWN	None	32610	None	None	160201282	160201413	-1	None	ACA20
9	None	ENSG00000231864	ENST00000456356	antisense	KNOWN	None	None	None	None	139957987	139959033	1	None	None
6	SNORA29	ENSG00000206910	ENST00000384183	snoRNA	KNOWN	None	32619	None	None	160206626	160206765	-1	None	ACA29
19	ZNF30	ENSG00000168661	ENST00000303586	protein_coding	KNOWN	CCDS46044	13090	1875	624	35417807	35436068	1	None	KOX28, DKFZp686N19164, FLJ20562
19	ZNF30	ENSG00000168661	ENST00000601540	processed_transcript	KNOWN	None	13090	None	None	35417814	35424627	1	None	KOX28, DKFZp686N19164, FLJ20562
19	ZNF30	ENSG00000168661	ENST00000601957	protein_coding	KNOWN	None	13090	261	86	35417884	35436069	1	None	KOX28, DKFZp686N19164, FLJ20562
19	ZNF30	ENSG00000168661	ENST00000601142	protein_coding	KNOWN	CCDS46045	13090	1872	623	35417948	35435913	1	None	KOX28, DKFZp686N19164, FLJ20562
19	ZNF30	ENSG00000168661	ENST00000595818	processed_transcript	PUTATIVE	None	13090	None	None	35424515	35434330	1	None	KOX28, DKFZp686N19164, FLJ20562
19	ZNF30	ENSG00000168661	ENST00000439785	protein_coding	KNOWN	CCDS46044	13090	1875	624	35417807	35436074	1	None	KOX28, DKFZp686N19164, FLJ20562
19	ZNF30	ENSG00000168661	ENST00000426813	protein_coding	KNOWN	None	13090	1629	542	35417952	35436069	1	None	KOX28, DKFZp686N19164, FLJ20562
9	None	ENSG00000199411	ENST00000362541	snoRNA	NOVEL	None	None	None	None	139988797	139988882	1	None	None
9	None	ENSG00000238824	ENST00000459401	snoRNA	NOVEL	None	None	None	None	140017961	140018060	-1	None	None
6	RCC2P7	ENSG00000220666	ENST00000405832	processed_pseudogene	KNOWN	None	42383	None	None	56296748	56298011	-1	None	None
9	None	ENSG00000261793	ENST00000568665	processed_transcript	KNOWN	None	None	None	None	140063306	140066436	-1	None	None
7	RN7SL377P	ENSG00000266569	ENST00000585039	misc_RNA	KNOWN	None	46393	None	None	72293477	72293750	-1	None	None
12	ERP29	ENSG00000089248	ENST00000261735	protein_coding	KNOWN	CCDS9158	13799	786	261	112451120	112461255	1	C12orf8	ERp28, ERp31, ERp29, PDI-DB, PDIA9
12	ERP29	ENSG00000089248	ENST00000455836	protein_coding	KNOWN	CCDS44977	13799	162	53	112451152	112461024	1	C12orf8	ERp28, ERp31, ERp29, PDI-DB, PDIA9
12	ERP29	ENSG00000089248	ENST00000553161	retained_intron	KNOWN	None	13799	None	None	112451233	112453129	1	C12orf8	ERp28, ERp31, ERp29, PDI-DB, PDIA9
12	ERP29	ENSG00000089248	ENST00000552052	protein_coding	NOVEL	None	13799	284	93	112451284	112457640	1	C12orf8	ERp28, ERp31, ERp29, PDI-DB, PDIA9
12	ERP29	ENSG00000089248	ENST00000546477	protein_coding	PUTATIVE	None	13799	483	160	112456608	112460972	1	C12orf8	ERp28, ERp31, ERp29, PDI-DB, PDIA9
6	None	ENSG00000266793	ENST00000578149	miRNA	NOVEL	None	None	None	None	56297177	56297240	-1	None	None
7	CBX3	ENSG00000122565	ENST00000337620	protein_coding	KNOWN	CCDS5398	1553	552	183	26240782	26252976	1	None	HP1Hs-gamma
7	CBX3	ENSG00000122565	ENST00000396386	protein_coding	KNOWN	CCDS5398	1553	552	183	26241313	26252971	1	None	HP1Hs-gamma
7	CBX3	ENSG00000122565	ENST00000456948	protein_coding	KNOWN	None	1553	187	61	26241377	26248032	1	None	HP1Hs-gamma
7	CBX3	ENSG00000122565	ENST00000409747	protein_coding	NOVEL	None	1553	306	101	26241385	26252976	1	None	HP1Hs-gamma
7	CBX3	ENSG00000122565	ENST00000497498	processed_transcript	KNOWN	None	1553	None	None	26242083	26251337	1	None	HP1Hs-gamma
7	CBX3	ENSG00000122565	ENST00000481300	retained_intron	KNOWN	None	1553	None	None	26245656	26248096	1	None	HP1Hs-gamma
7	CBX3	ENSG00000122565	ENST00000462165	protein_coding	PUTATIVE	None	1553	324	107	26245988	26250202	1	None	HP1Hs-gamma
7	CBX3	ENSG00000122565	ENST00000481057	retained_intron	KNOWN	None	1553	None	None	26247753	26252043	1	None	HP1Hs-gamma
X	F9	ENSG00000101981	ENST00000479617	processed_transcript	KNOWN	None	3551	None	None	138612917	138630551	1	None	FIX
X	F9	ENSG00000101981	ENST00000218099	protein_coding	KNOWN	CCDS14666	3551	1386	461	138612917	138645617	1	None	FIX
X	F9	ENSG00000101981	ENST00000394090	protein_coding	KNOWN	None	3551	1272	423	138612924	138644230	1	None	FIX
9	MIR3621	ENSG00000263697	ENST00000580529	miRNA	KNOWN	None	38930	None	None	140063638	140063722	-1	None	hsa-mir-3621
6	None	ENSG00000231441	ENST00000426453	antisense	KNOWN	None	None	None	None	56708800	56728876	1	None	None
11	MSANTD4	ENSG00000170903	ENST00000529805	processed_transcript	PUTATIVE	None	29383	None	None	105866350	105880475	-1	KIAA1826	None
11	MSANTD4	ENSG00000170903	ENST00000301919	protein_coding	KNOWN	CCDS31663	29383	1038	345	105878629	105892954	-1	KIAA1826	None
11	MSANTD4	ENSG00000170903	ENST00000530788	protein_coding	KNOWN	None	29383	589	195	105880711	105893130	-1	KIAA1826	None
11	MSANTD4	ENSG00000170903	ENST00000534458	protein_coding	KNOWN	None	29383	333	110	105881312	105892977	-1	KIAA1826	None
11	MSANTD4	ENSG00000170903	ENST00000530108	protein_coding	KNOWN	None	29383	215	70	105881430	105892977	-1	KIAA1826	None
9	None	ENSG00000270259	ENST00000605600	processed_pseudogene	KNOWN	None	None	None	None	140180557	140180848	1	None	None
4	DUX4L4	ENSG00000258834	ENST00000604656	protein_coding	PUTATIVE	None	38686	483	160	191002273	191003777	1	None	None
4	DUX4L4	ENSG00000258834	ENST00000554637	protein_coding	KNOWN	None	38686	1269	422	191002273	191003777	1	None	None
4	DUX4L4	ENSG00000258834	ENST00000538692	protein_coding	KNOWN	CCDS59484	38686	1452	483	191001979	191003583	1	None	None
7	SBDSP1	ENSG00000225648	ENST00000423945	transcribed_unprocessed_pseudogene	KNOWN	None	21646	None	None	72300004	72307217	1	SBDSP	None
7	SBDSP1	ENSG00000225648	ENST00000415772	transcribed_unprocessed_pseudogene	KNOWN	None	21646	None	None	72300069	72304585	1	SBDSP	None
7	SBDSP1	ENSG00000225648	ENST00000456312	transcribed_unprocessed_pseudogene	KNOWN	None	21646	None	None	72300080	72307909	1	SBDSP	None
7	SBDSP1	ENSG00000225648	ENST00000437201	transcribed_unprocessed_pseudogene	KNOWN	None	21646	None	None	72300086	72304586	1	SBDSP	None
7	SBDSP1	ENSG00000225648	ENST00000453858	transcribed_unprocessed_pseudogene	KNOWN	None	21646	None	None	72300235	72307280	1	SBDSP	None
17	CCR7	ENSG00000126353	ENST00000246657	protein_coding	KNOWN	CCDS11369	1608	1137	378	38710021	38721724	-1	CMKBR7, EBI1	BLR2, CDw197, CD197
17	CCR7	ENSG00000126353	ENST00000579344	protein_coding	PUTATIVE	None	1608	1119	372	38710582	38717265	-1	CMKBR7, EBI1	BLR2, CDw197, CD197
17	CCR7	ENSG00000126353	ENST00000578085	protein_coding	PUTATIVE	None	1608	598	198	38711344	38721711	-1	CMKBR7, EBI1	BLR2, CDw197, CD197
6	RPL17P26	ENSG00000216854	ENST00000407033	processed_pseudogene	KNOWN	None	35597	None	None	56735989	56736541	1	None	None
9	None	ENSG00000268996	ENST00000596585	protein_coding	KNOWN	None	None	315	104	139980807	139981121	-1	None	None
1	DPT	ENSG00000143196	ENST00000367817	protein_coding	KNOWN	CCDS1275	3011	606	201	168664697	168698502	-1	None	None
7	None	ENSG00000243621	ENST00000440224	processed_pseudogene	KNOWN	None	None	None	None	111034931	111035099	1	None	None
9	None	ENSG00000260996	ENST00000566954	sense_overlapping	KNOWN	None	None	None	None	140188320	140190173	-1	None	None
8	None	ENSG00000253427	ENST00000520171	lincRNA	KNOWN	None	None	None	None	127486434	127504841	1	None	None
6	RNU6-626P	ENSG00000200224	ENST00000363354	snRNA	KNOWN	None	47589	None	None	56810528	56810635	1	None	None
11	None	ENSG00000251661	ENST00000508004	antisense	KNOWN	None	None	None	None	318640	319615	1	None	None
11	None	ENSG00000251661	ENST00000602429	antisense	KNOWN	None	None	None	None	318653	325631	1	None	None
11	None	ENSG00000251661	ENST00000602756	antisense	KNOWN	None	None	None	None	318672	325069	1	None	None
9	None	ENSG00000272272	ENST00000606918	snoRNA	NOVEL	None	None	None	None	140315596	140315690	1	None	None
6	OSTCP6	ENSG00000219790	ENST00000407493	processed_pseudogene	KNOWN	None	42868	None	None	56840404	56840860	-1	None	None
8	None	ENSG00000253220	ENST00000521428	lincRNA	KNOWN	None	None	None	None	127510394	127512548	1	None	None
9	None	ENSG00000263933	ENST00000580317	miRNA	NOVEL	None	None	None	None	140440200	140440285	1	None	None
12	CAND1	ENSG00000111530	ENST00000545606	protein_coding	KNOWN	CCDS8977	30688	3693	1230	67663061	67713731	1	None	TIP120A, DKFZp434M1414, KIAA0829, TIP120
12	CAND1	ENSG00000111530	ENST00000541058	retained_intron	KNOWN	None	30688	None	None	67663170	67675956	1	None	TIP120A, DKFZp434M1414, KIAA0829, TIP120
12	CAND1	ENSG00000111530	ENST00000539109	processed_transcript	PUTATIVE	None	30688	None	None	67663498	67664575	1	None	TIP120A, DKFZp434M1414, KIAA0829, TIP120
12	CAND1	ENSG00000111530	ENST00000539434	retained_intron	KNOWN	None	30688	None	None	67663506	67686969	1	None	TIP120A, DKFZp434M1414, KIAA0829, TIP120
12	CAND1	ENSG00000111530	ENST00000540525	protein_coding	PUTATIVE	None	30688	163	53	67663681	67686424	1	None	TIP120A, DKFZp434M1414, KIAA0829, TIP120
12	CAND1	ENSG00000111530	ENST00000535146	retained_intron	KNOWN	None	30688	None	None	67688735	67691628	1	None	TIP120A, DKFZp434M1414, KIAA0829, TIP120
12	CAND1	ENSG00000111530	ENST00000540319	nonsense_mediated_decay	KNOWN	None	30688	1329	442	67688800	67705161	1	None	TIP120A, DKFZp434M1414, KIAA0829, TIP120
12	CAND1	ENSG00000111530	ENST00000544619	protein_coding	NOVEL	None	30688	2313	770	67692752	67708388	1	None	TIP120A, DKFZp434M1414, KIAA0829, TIP120
9	SETP5	ENSG00000233998	ENST00000437270	processed_pseudogene	KNOWN	None	42924	None	None	140535438	140535999	-1	None	None
7	None	ENSG00000227948	ENST00000434569	processed_pseudogene	KNOWN	None	None	None	None	111051375	111051939	1	None	None
7	None	ENSG00000227948	ENST00000416393	processed_pseudogene	KNOWN	None	None	None	None	111051433	111051939	1	None	None
21	None	ENSG00000243440	ENST00000435732	protein_coding	PUTATIVE	None	None	459	152	15964251	16015454	-1	None	None
21	None	ENSG00000243440	ENST00000400562	protein_coding	PUTATIVE	None	None	498	165	15966041	16031142	-1	None	None
21	None	ENSG00000243440	ENST00000469393	processed_transcript	KNOWN	None	None	None	None	15984826	15988337	-1	None	None
21	None	ENSG00000243440	ENST00000467280	retained_intron	KNOWN	None	None	None	None	15984826	15988337	-1	None	None
9	None	ENSG00000255585	ENST00000421194	processed_pseudogene	KNOWN	None	None	None	None	140682117	140683139	-1	None	None
7	None	ENSG00000225572	ENST00000452714	antisense	KNOWN	None	None	None	None	111448572	111461829	1	None	None
HSCHR6_MHC_MCF	PPP1R11	ENSG00000237403	ENST00000455350	protein_coding	KNOWN	None	9285	225	74	30112987	30116611	1	TCTE5	HCGV, Tctex5, HCG-V
HSCHR6_MHC_MCF	PPP1R11	ENSG00000237403	ENST00000448378	protein_coding	KNOWN	None	9285	381	126	30113366	30116611	1	TCTE5	HCGV, Tctex5, HCG-V
HSCHR6_MHC_MCF	PPP1R11	ENSG00000237403	ENST00000429382	protein_coding	KNOWN	None	9285	225	74	30113483	30116611	1	TCTE5	HCGV, Tctex5, HCG-V
HSCHR6_MHC_MCF	PPP1R11	ENSG00000237403	ENST00000418211	protein_coding	KNOWN	None	9285	225	74	30113821	30116611	1	TCTE5	HCGV, Tctex5, HCG-V
HSCHR6_MHC_MCF	PPP1R11	ENSG00000237403	ENST00000444101	protein_coding	KNOWN	None	9285	225	74	30113854	30116611	1	TCTE5	HCGV, Tctex5, HCG-V
HSCHR6_MHC_MCF	PPP1R11	ENSG00000237403	ENST00000430959	protein_coding	KNOWN	None	9285	225	74	30114484	30116611	1	TCTE5	HCGV, Tctex5, HCG-V
15	LINC00933	ENSG00000259728	ENST00000560917	processed_transcript	KNOWN	None	48625	None	None	85113880	85116485	1	None	None
15	LINC00933	ENSG00000259728	ENST00000559812	transcribed_unprocessed_pseudogene	KNOWN	None	48625	None	None	85114155	85121355	1	None	None
15	LINC00933	ENSG00000259728	ENST00000558345	processed_transcript	KNOWN	None	48625	None	None	85114202	85116429	1	None	None
15	LINC00933	ENSG00000259728	ENST00000560306	processed_transcript	KNOWN	None	48625	None	None	85114365	85121624	1	None	None
15	LINC00933	ENSG00000259728	ENST00000557887	processed_transcript	KNOWN	None	48625	None	None	85115423	85123406	1	None	None
22	TUBA3FP	ENSG00000161149	ENST00000442739	transcribed_unprocessed_pseudogene	KNOWN	None	24067	None	None	21357184	21363742	-1	None	None
22	TUBA3FP	ENSG00000161149	ENST00000422086	processed_transcript	KNOWN	None	24067	None	None	21362482	21368576	-1	None	None
22	TUBA3FP	ENSG00000161149	ENST00000292748	processed_transcript	KNOWN	None	24067	None	None	21362926	21368581	-1	None	None
18	NDUFV2	ENSG00000178127	ENST00000577703	nonsense_mediated_decay	KNOWN	None	7717	120	39	9102628	9117885	1	None	CI-24k
18	NDUFV2	ENSG00000178127	ENST00000318388	protein_coding	KNOWN	CCDS11842	7717	750	249	9102628	9134343	1	None	CI-24k
18	NDUFV2	ENSG00000178127	ENST00000497577	protein_coding	PUTATIVE	None	7717	66	21	9102693	9103854	1	None	CI-24k
18	NDUFV2	ENSG00000178127	ENST00000583375	processed_transcript	KNOWN	None	7717	None	None	9102816	9117901	1	None	CI-24k
18	NDUFV2	ENSG00000178127	ENST00000400033	protein_coding	PUTATIVE	None	7717	759	252	9104080	9134343	1	None	CI-24k
18	NDUFV2	ENSG00000178127	ENST00000474350	retained_intron	KNOWN	None	7717	None	None	9117385	9119523	1	None	CI-24k
18	NDUFV2	ENSG00000178127	ENST00000483511	processed_transcript	KNOWN	None	7717	None	None	9117524	9119564	1	None	CI-24k
18	NDUFV2	ENSG00000178127	ENST00000465096	processed_transcript	KNOWN	None	7717	None	None	9119471	9134339	1	None	CI-24k
18	NDUFV2	ENSG00000178127	ENST00000474740	processed_transcript	PUTATIVE	None	7717	None	None	9126625	9134293	1	None	CI-24k
9	MIR602	ENSG00000207693	ENST00000384960	miRNA	KNOWN	None	32858	None	None	140732871	140732968	1	MIRN602	hsa-mir-602
14	None	ENSG00000212928	ENST00000391612	protein_coding	NOVEL	None	None	171	56	57671888	57673291	1	None	None
9	None	ENSG00000203987	ENST00000371390	antisense	KNOWN	None	None	None	None	140762377	140787022	-1	None	None
9	None	ENSG00000203987	ENST00000587008	antisense	KNOWN	None	None	None	None	140762379	140768666	-1	None	None
11	None	ENSG00000255089	ENST00000534271	antisense	KNOWN	None	None	None	None	321991	322426	1	None	None
7	RN7SL625P	ENSG00000266135	ENST00000488637	misc_RNA	KNOWN	None	46641	None	None	72312017	72312305	-1	None	None
7	RNA5SP237	ENSG00000222346	ENST00000410414	rRNA	KNOWN	None	43137	None	None	111593708	111593820	-1	RN5S237	None
7	None	ENSG00000179994	ENST00000355920	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	72333321	72339656	-1	None	None
7	None	ENSG00000179994	ENST00000420373	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	72334467	72341076	-1	None	None
21	GART	ENSG00000159131	ENST00000381815	protein_coding	KNOWN	CCDS13627	4163	3033	1010	34876238	34914444	-1	PRGS, PGFT	None
21	GART	ENSG00000159131	ENST00000381831	protein_coding	KNOWN	CCDS13627	4163	3033	1010	34876238	34915148	-1	PRGS, PGFT	None
21	GART	ENSG00000159131	ENST00000381839	protein_coding	KNOWN	CCDS13627	4163	3033	1010	34876238	34915167	-1	PRGS, PGFT	None
21	GART	ENSG00000159131	ENST00000424203	nonsense_mediated_decay	KNOWN	None	4163	921	306	34876240	34915198	-1	PRGS, PGFT	None
21	GART	ENSG00000159131	ENST00000482663	retained_intron	KNOWN	None	4163	None	None	34878347	34882640	-1	PRGS, PGFT	None
21	GART	ENSG00000159131	ENST00000487155	retained_intron	KNOWN	None	4163	None	None	34881495	34883611	-1	PRGS, PGFT	None
21	GART	ENSG00000159131	ENST00000460305	processed_transcript	KNOWN	None	4163	None	None	34892829	34897135	-1	PRGS, PGFT	None
21	GART	ENSG00000159131	ENST00000467575	retained_intron	KNOWN	None	4163	None	None	34894498	34901070	-1	PRGS, PGFT	None
21	GART	ENSG00000159131	ENST00000361093	protein_coding	KNOWN	CCDS13628	4163	1302	433	34896316	34914420	-1	PRGS, PGFT	None
21	GART	ENSG00000159131	ENST00000366093	nonsense_mediated_decay	KNOWN	None	4163	437	144	34900572	34906936	-1	PRGS, PGFT	None
21	GART	ENSG00000159131	ENST00000466882	retained_intron	KNOWN	None	4163	None	None	34900869	34903588	-1	PRGS, PGFT	None
21	GART	ENSG00000159131	ENST00000497313	processed_transcript	PUTATIVE	None	4163	None	None	34903016	34906985	-1	PRGS, PGFT	None
21	GART	ENSG00000159131	ENST00000430874	protein_coding	KNOWN	None	4163	723	240	34903065	34915797	-1	PRGS, PGFT	None
21	GART	ENSG00000159131	ENST00000426819	protein_coding	KNOWN	None	4163	695	230	34903093	34915099	-1	PRGS, PGFT	None
21	GART	ENSG00000159131	ENST00000476524	retained_intron	KNOWN	None	4163	None	None	34903642	34914385	-1	PRGS, PGFT	None
21	GART	ENSG00000159131	ENST00000488791	retained_intron	KNOWN	None	4163	None	None	34904079	34906978	-1	PRGS, PGFT	None
21	GART	ENSG00000159131	ENST00000438059	protein_coding	KNOWN	None	4163	416	137	34906885	34915126	-1	PRGS, PGFT	None
21	GART	ENSG00000159131	ENST00000441403	protein_coding	KNOWN	None	4163	408	135	34906893	34914669	-1	PRGS, PGFT	None
21	GART	ENSG00000159131	ENST00000543717	protein_coding	KNOWN	None	4163	1689	562	34876399	34895411	-1	PRGS, PGFT	None
22	None	ENSG00000226872	ENST00000450652	antisense	KNOWN	None	None	None	None	21385646	21398258	1	None	None
7	None	ENSG00000234358	ENST00000413552	processed_pseudogene	KNOWN	None	None	None	None	111611277	111612043	-1	None	None
9	None	ENSG00000229926	ENST00000442569	unprocessed_pseudogene	KNOWN	None	None	None	None	141031547	141038316	1	None	None
7	DAGLB	ENSG00000164535	ENST00000462934	retained_intron	KNOWN	None	28923	None	None	6448757	6462434	-1	None	KCCR13L, DAGLBETA
7	DAGLB	ENSG00000164535	ENST00000297056	protein_coding	KNOWN	CCDS5350	28923	2019	672	6448760	6487643	-1	None	KCCR13L, DAGLBETA
7	DAGLB	ENSG00000164535	ENST00000482149	retained_intron	KNOWN	None	28923	None	None	6448761	6457422	-1	None	KCCR13L, DAGLBETA
7	DAGLB	ENSG00000164535	ENST00000425398	protein_coding	NOVEL	CCDS47536	28923	1632	543	6449148	6487565	-1	None	KCCR13L, DAGLBETA
7	DAGLB	ENSG00000164535	ENST00000436575	protein_coding	PUTATIVE	None	28923	1896	631	6449231	6523821	-1	None	KCCR13L, DAGLBETA
7	DAGLB	ENSG00000164535	ENST00000497308	retained_intron	KNOWN	None	28923	None	None	6452241	6456342	-1	None	KCCR13L, DAGLBETA
7	DAGLB	ENSG00000164535	ENST00000454738	nonsense_mediated_decay	KNOWN	None	28923	519	172	6452618	6487563	-1	None	KCCR13L, DAGLBETA
7	DAGLB	ENSG00000164535	ENST00000432248	protein_coding	PUTATIVE	None	28923	448	148	6465717	6487583	-1	None	KCCR13L, DAGLBETA
7	DAGLB	ENSG00000164535	ENST00000479922	processed_transcript	KNOWN	None	28923	None	None	6475067	6487563	-1	None	KCCR13L, DAGLBETA
7	DAGLB	ENSG00000164535	ENST00000483716	processed_transcript	KNOWN	None	28923	None	None	6485332	6487602	-1	None	KCCR13L, DAGLBETA
7	DAGLB	ENSG00000164535	ENST00000428902	protein_coding	KNOWN	None	28923	1140	379	6449635	6487563	-1	None	KCCR13L, DAGLBETA
7	DAGLB	ENSG00000164535	ENST00000421761	protein_coding	KNOWN	None	28923	663	220	6452618	6487563	-1	None	KCCR13L, DAGLBETA
8	RNU6-869P	ENSG00000207138	ENST00000384409	snRNA	KNOWN	None	47832	None	None	127517008	127517114	1	None	None
11	None	ENSG00000270105	ENST00000602809	lincRNA	KNOWN	None	None	None	None	322186	322727	-1	None	None
22	MIR649	ENSG00000207575	ENST00000384843	miRNA	KNOWN	None	32905	None	None	21388465	21388561	-1	MIRN649	hsa-mir-649
8	None	ENSG00000253530	ENST00000519123	lincRNA	KNOWN	None	None	None	None	127530943	127534596	1	None	None
19	None	ENSG00000268533	ENST00000597410	protein_coding	PUTATIVE	None	None	218	71	57905551	57949825	1	None	None
17	MRPS7	ENSG00000125445	ENST00000579761	protein_coding	PUTATIVE	None	14499	552	183	73257755	73260571	1	None	MRP-S, RP-S7, RPMS7
17	MRPS7	ENSG00000125445	ENST00000245539	protein_coding	KNOWN	CCDS11718	14499	729	242	73257755	73262454	1	None	MRP-S, RP-S7, RPMS7
17	MRPS7	ENSG00000125445	ENST00000579002	protein_coding	PUTATIVE	None	14499	816	271	73257993	73262411	1	None	MRP-S, RP-S7, RPMS7
17	MRPS7	ENSG00000125445	ENST00000583407	nonsense_mediated_decay	KNOWN	None	14499	87	28	73258042	73262165	1	None	MRP-S, RP-S7, RPMS7
17	MRPS7	ENSG00000125445	ENST00000577767	retained_intron	KNOWN	None	14499	None	None	73258690	73259370	1	None	MRP-S, RP-S7, RPMS7
17	MRPS7	ENSG00000125445	ENST00000581993	protein_coding	PUTATIVE	None	14499	517	171	73258707	73262444	1	None	MRP-S, RP-S7, RPMS7
17	MRPS7	ENSG00000125445	ENST00000584678	protein_coding	PUTATIVE	None	14499	470	155	73258754	73262454	1	None	MRP-S, RP-S7, RPMS7
22	SERPIND1	ENSG00000099937	ENST00000215727	protein_coding	KNOWN	CCDS13783	4838	1500	499	21128167	21142008	1	HCF2	HC-II, HLS2, HC2, D22S673
22	SERPIND1	ENSG00000099937	ENST00000406799	protein_coding	KNOWN	CCDS13783	4838	1500	499	21133469	21141520	1	HCF2	HC-II, HLS2, HC2, D22S673
19	RELB	ENSG00000104856	ENST00000221452	protein_coding	KNOWN	CCDS46110	9956	1740	579	45504688	45541452	1	None	REL-B
19	RELB	ENSG00000104856	ENST00000509480	nonsense_mediated_decay	KNOWN	None	9956	177	58	45504719	45515487	1	None	REL-B
19	RELB	ENSG00000104856	ENST00000505236	protein_coding	NOVEL	None	9956	1731	576	45504719	45541417	1	None	REL-B
19	RELB	ENSG00000104856	ENST00000510184	retained_intron	KNOWN	None	9956	None	None	45525088	45528936	1	None	REL-B
19	RELB	ENSG00000104856	ENST00000509229	retained_intron	KNOWN	None	9956	None	None	45535682	45540826	1	None	REL-B
19	RELB	ENSG00000104856	ENST00000589972	protein_coding	NOVEL	None	9956	428	141	45535966	45541380	1	None	REL-B
19	RELB	ENSG00000104856	ENST00000540120	protein_coding	KNOWN	None	9956	1740	579	45504712	45541452	1	None	REL-B
20	CHGB	ENSG00000089199	ENST00000378961	protein_coding	KNOWN	CCDS13092	1930	2034	677	5892076	5906007	1	SCG1	None
20	CHGB	ENSG00000089199	ENST00000455042	protein_coding	KNOWN	None	1930	869	288	5892176	5903719	1	SCG1	None
20	CHGB	ENSG00000089199	ENST00000488832	processed_transcript	KNOWN	None	1930	None	None	5896144	5898626	1	SCG1	None
7	RN7SKP187	ENSG00000202406	ENST00000365536	misc_RNA	KNOWN	None	45911	None	None	111928678	111929007	1	None	None
8	None	ENSG00000254010	ENST00000524320	antisense	KNOWN	None	None	None	None	127569141	127569678	1	None	None
7	None	ENSG00000226851	ENST00000431064	processed_transcript	KNOWN	None	None	None	None	111968244	112049678	-1	None	None
7	None	ENSG00000226851	ENST00000411413	processed_transcript	KNOWN	None	None	None	None	111968312	111990596	-1	None	None
22	P2RX6P	ENSG00000206145	ENST00000439119	processed_transcript	KNOWN	None	34076	None	None	21389532	21399301	-1	None	None
22	P2RX6P	ENSG00000206145	ENST00000450626	transcribed_unprocessed_pseudogene	KNOWN	None	34076	None	None	21396632	21399306	-1	None	None
22	P2RX6P	ENSG00000206145	ENST00000382931	unprocessed_pseudogene	KNOWN	None	34076	None	None	21396680	21398538	-1	None	None
1	CLSTN1	ENSG00000171603	ENST00000377298	protein_coding	KNOWN	CCDS30580	17447	2946	981	9789084	9884584	-1	None	CSTN1, KIAA0911, CDHR12
1	CLSTN1	ENSG00000171603	ENST00000477264	processed_transcript	KNOWN	None	17447	None	None	9789086	9793544	-1	None	CSTN1, KIAA0911, CDHR12
1	CLSTN1	ENSG00000171603	ENST00000435891	protein_coding	PUTATIVE	None	17447	2349	782	9789086	9811639	-1	None	CSTN1, KIAA0911, CDHR12
1	CLSTN1	ENSG00000171603	ENST00000361311	protein_coding	KNOWN	CCDS105	17447	2916	971	9789086	9884042	-1	None	CSTN1, KIAA0911, CDHR12
1	CLSTN1	ENSG00000171603	ENST00000464286	processed_transcript	KNOWN	None	17447	None	None	9809546	9810225	-1	None	CSTN1, KIAA0911, CDHR12
1	CLSTN1	ENSG00000171603	ENST00000377288	protein_coding	KNOWN	None	17447	2889	962	9789086	9884584	-1	None	CSTN1, KIAA0911, CDHR12
12	None	ENSG00000255692	ENST00000535109	protein_coding	PUTATIVE	None	None	195	64	120137573	120138816	1	None	None
8	None	ENSG00000254286	ENST00000519880	antisense	KNOWN	None	None	None	None	127570120	127725660	1	None	None
8	None	ENSG00000254286	ENST00000517773	antisense	KNOWN	None	None	None	None	127570131	127629986	1	None	None
8	None	ENSG00000254286	ENST00000520512	antisense	KNOWN	None	None	None	None	127570140	127688658	1	None	None
8	None	ENSG00000254286	ENST00000517915	antisense	KNOWN	None	None	None	None	127601459	127647029	1	None	None
22	POLR3H	ENSG00000100413	ENST00000355209	protein_coding	KNOWN	CCDS14018	30349	615	204	41921830	41940449	-1	None	RPC8, KIAA1665
22	POLR3H	ENSG00000100413	ENST00000337566	protein_coding	KNOWN	CCDS33651	30349	528	175	41924846	41940466	-1	None	RPC8, KIAA1665
22	POLR3H	ENSG00000100413	ENST00000431534	nonsense_mediated_decay	KNOWN	None	30349	372	123	41924847	41940459	-1	None	RPC8, KIAA1665
22	POLR3H	ENSG00000100413	ENST00000432789	nonsense_mediated_decay	KNOWN	None	30349	483	160	41924869	41940431	-1	None	RPC8, KIAA1665
22	POLR3H	ENSG00000100413	ENST00000407461	protein_coding	KNOWN	CCDS14018	30349	615	204	41925216	41940610	-1	None	RPC8, KIAA1665
22	POLR3H	ENSG00000100413	ENST00000442616	nonsense_mediated_decay	KNOWN	None	30349	213	70	41928123	41940464	-1	None	RPC8, KIAA1665
22	POLR3H	ENSG00000100413	ENST00000420561	processed_transcript	KNOWN	None	30349	None	None	41928629	41940390	-1	None	RPC8, KIAA1665
22	POLR3H	ENSG00000100413	ENST00000483837	retained_intron	KNOWN	None	30349	None	None	41935147	41940476	-1	None	RPC8, KIAA1665
22	POLR3H	ENSG00000100413	ENST00000396504	protein_coding	KNOWN	CCDS14018	30349	615	204	41921808	41940476	-1	None	RPC8, KIAA1665
9	GAPVD1	ENSG00000165219	ENST00000497580	nonsense_mediated_decay	KNOWN	None	23375	2271	756	128024073	128104143	1	None	DKFZP434C212, KIAA1521
9	GAPVD1	ENSG00000165219	ENST00000461379	protein_coding	KNOWN	None	23375	351	116	128024089	128064427	1	None	DKFZP434C212, KIAA1521
9	GAPVD1	ENSG00000165219	ENST00000394084	protein_coding	PUTATIVE	None	23375	1494	497	128024108	128071579	1	None	DKFZP434C212, KIAA1521
9	GAPVD1	ENSG00000165219	ENST00000469528	processed_transcript	KNOWN	None	23375	None	None	128024110	128057801	1	None	DKFZP434C212, KIAA1521
9	GAPVD1	ENSG00000165219	ENST00000394105	protein_coding	KNOWN	CCDS35138	23375	4464	1487	128024111	128125608	1	None	DKFZP434C212, KIAA1521
9	GAPVD1	ENSG00000165219	ENST00000470056	protein_coding	NOVEL	None	23375	4302	1433	128024111	128129486	1	None	DKFZP434C212, KIAA1521
9	GAPVD1	ENSG00000165219	ENST00000394083	protein_coding	NOVEL	None	23375	4239	1412	128024122	128125384	1	None	DKFZP434C212, KIAA1521
9	GAPVD1	ENSG00000165219	ENST00000495955	protein_coding	KNOWN	None	23375	4437	1478	128024147	128125607	1	None	DKFZP434C212, KIAA1521
9	GAPVD1	ENSG00000165219	ENST00000467750	protein_coding	KNOWN	None	23375	2965	987	128024190	128103543	1	None	DKFZP434C212, KIAA1521
9	GAPVD1	ENSG00000165219	ENST00000297933	protein_coding	NOVEL	None	23375	4383	1460	128024190	128126398	1	None	DKFZP434C212, KIAA1521
9	GAPVD1	ENSG00000165219	ENST00000495588	processed_transcript	KNOWN	None	23375	None	None	128024234	128031333	1	None	DKFZP434C212, KIAA1521
9	GAPVD1	ENSG00000165219	ENST00000312123	protein_coding	NOVEL	None	23375	4320	1439	128061201	128125025	1	None	DKFZP434C212, KIAA1521
9	GAPVD1	ENSG00000165219	ENST00000431329	protein_coding	PUTATIVE	None	23375	2512	836	128064489	128104534	1	None	DKFZP434C212, KIAA1521
9	GAPVD1	ENSG00000165219	ENST00000436712	protein_coding	PUTATIVE	None	23375	2490	829	128064586	128104513	1	None	DKFZP434C212, KIAA1521
9	GAPVD1	ENSG00000165219	ENST00000479511	retained_intron	KNOWN	None	23375	None	None	128098988	128099687	1	None	DKFZP434C212, KIAA1521
9	GAPVD1	ENSG00000165219	ENST00000469498	processed_transcript	KNOWN	None	23375	None	None	128103514	128104385	1	None	DKFZP434C212, KIAA1521
9	GAPVD1	ENSG00000165219	ENST00000474637	retained_intron	KNOWN	None	23375	None	None	128108169	128125304	1	None	DKFZP434C212, KIAA1521
9	GAPVD1	ENSG00000165219	ENST00000467707	retained_intron	KNOWN	None	23375	None	None	128116976	128122126	1	None	DKFZP434C212, KIAA1521
9	GAPVD1	ENSG00000165219	ENST00000394104	protein_coding	KNOWN	None	23375	4437	1478	128024111	128127289	1	None	DKFZP434C212, KIAA1521
9	GAPVD1	ENSG00000165219	ENST00000265956	protein_coding	KNOWN	None	23375	4359	1452	128024111	128127289	1	None	DKFZP434C212, KIAA1521
11	None	ENSG00000270030	ENST00000602949	lincRNA	KNOWN	None	None	None	None	325703	326294	-1	None	None
11	None	ENSG00000255328	ENST00000534483	lincRNA	KNOWN	None	None	None	None	327171	329453	1	None	None
11	None	ENSG00000255328	ENST00000524824	lincRNA	KNOWN	None	None	None	None	327310	330122	1	None	None
11	None	ENSG00000255328	ENST00000531076	lincRNA	KNOWN	None	None	None	None	327400	327957	1	None	None
14	AP5M1	ENSG00000053770	ENST00000261558	protein_coding	KNOWN	CCDS9729	20192	1473	490	57735627	57756797	1	C14orf108, MUDENG	FLJ10813, MuD, mu5
14	AP5M1	ENSG00000053770	ENST00000554931	retained_intron	KNOWN	None	20192	None	None	57735642	57742187	1	C14orf108, MUDENG	FLJ10813, MuD, mu5
14	AP5M1	ENSG00000053770	ENST00000556995	protein_coding	PUTATIVE	None	20192	245	80	57735658	57741441	1	C14orf108, MUDENG	FLJ10813, MuD, mu5
14	AP5M1	ENSG00000053770	ENST00000555448	nonsense_mediated_decay	KNOWN	None	20192	117	38	57735744	57749737	1	C14orf108, MUDENG	FLJ10813, MuD, mu5
14	AP5M1	ENSG00000053770	ENST00000431972	protein_coding	NOVEL	None	20192	1515	504	57735774	57755643	1	C14orf108, MUDENG	FLJ10813, MuD, mu5
14	AP5M1	ENSG00000053770	ENST00000554213	processed_transcript	PUTATIVE	None	20192	None	None	57735812	57738083	1	C14orf108, MUDENG	FLJ10813, MuD, mu5
14	AP5M1	ENSG00000053770	ENST00000556723	processed_transcript	KNOWN	None	20192	None	None	57745140	57749961	1	C14orf108, MUDENG	FLJ10813, MuD, mu5
14	AP5M1	ENSG00000053770	ENST00000554863	protein_coding	PUTATIVE	None	20192	280	92	57749703	57753282	1	C14orf108, MUDENG	FLJ10813, MuD, mu5
14	AP5M1	ENSG00000053770	ENST00000556377	nonsense_mediated_decay	KNOWN	None	20192	180	59	57752941	57756792	1	C14orf108, MUDENG	FLJ10813, MuD, mu5
7	NSUN5P2	ENSG00000106133	ENST00000602348	processed_transcript	KNOWN	None	16609	None	None	72418120	72425245	-1	NSUN5C	WBSCR20C, MGC15057, FLJ11626, DKFZp434K058, NOL1R2, WBSCR20B
7	NSUN5P2	ENSG00000106133	ENST00000444583	processed_transcript	KNOWN	None	16609	None	None	72418832	72425252	-1	NSUN5C	WBSCR20C, MGC15057, FLJ11626, DKFZp434K058, NOL1R2, WBSCR20B
7	NSUN5P2	ENSG00000106133	ENST00000485741	processed_transcript	KNOWN	None	16609	None	None	72418837	72425259	-1	NSUN5C	WBSCR20C, MGC15057, FLJ11626, DKFZp434K058, NOL1R2, WBSCR20B
7	NSUN5P2	ENSG00000106133	ENST00000388955	processed_transcript	KNOWN	None	16609	None	None	72418837	72425329	-1	NSUN5C	WBSCR20C, MGC15057, FLJ11626, DKFZp434K058, NOL1R2, WBSCR20B
7	NSUN5P2	ENSG00000106133	ENST00000457352	transcribed_unprocessed_pseudogene	KNOWN	None	16609	None	None	72419024	72425256	-1	NSUN5C	WBSCR20C, MGC15057, FLJ11626, DKFZp434K058, NOL1R2, WBSCR20B
22	TUBA3GP	ENSG00000249680	ENST00000410028	unprocessed_pseudogene	KNOWN	None	44096	None	None	21419749	21424386	1	None	None
14	TRAJ39	ENSG00000211850	ENST00000390498	TR_J_gene	KNOWN	None	12069	63	20	22970585	22970647	1	None	None
19	KIR3DL2	ENSG00000240403	ENST00000326321	protein_coding	KNOWN	CCDS12906	6339	1368	455	55361898	55378662	1	None	cl-5, nkat4, nkat4a, nkat4b, CD158K
19	KIR3DL2	ENSG00000240403	ENST00000270442	protein_coding	NOVEL	CCDS58677	6339	1317	438	55361931	55378415	1	None	cl-5, nkat4, nkat4a, nkat4b, CD158K
17	NGFR	ENSG00000064300	ENST00000172229	protein_coding	KNOWN	CCDS11549	7809	1284	427	47572655	47592379	1	None	TNFRSF16, CD271, p75NTR
17	NGFR	ENSG00000064300	ENST00000509200	protein_coding	PUTATIVE	None	7809	13	3	47573986	47583747	1	None	TNFRSF16, CD271, p75NTR
17	NGFR	ENSG00000064300	ENST00000504201	protein_coding	PUTATIVE	None	7809	1002	333	47574753	47590734	1	None	TNFRSF16, CD271, p75NTR
7	MTND5P8	ENSG00000230999	ENST00000449817	unprocessed_pseudogene	KNOWN	None	42270	None	None	112012702	112013784	1	None	None
17	PLEKHH3	ENSG00000068137	ENST00000591476	retained_intron	KNOWN	None	26105	None	None	40819932	40821716	-1	None	FLJ21019
17	PLEKHH3	ENSG00000068137	ENST00000591196	nonsense_mediated_decay	KNOWN	None	26105	2118	705	40819932	40828651	-1	None	FLJ21019
17	PLEKHH3	ENSG00000068137	ENST00000591022	protein_coding	KNOWN	CCDS11434	26105	2382	793	40819932	40828969	-1	None	FLJ21019
17	PLEKHH3	ENSG00000068137	ENST00000456950	processed_transcript	KNOWN	None	26105	None	None	40819935	40828108	-1	None	FLJ21019
17	PLEKHH3	ENSG00000068137	ENST00000591490	retained_intron	KNOWN	None	26105	None	None	40819935	40828915	-1	None	FLJ21019
17	PLEKHH3	ENSG00000068137	ENST00000293349	protein_coding	NOVEL	None	26105	2373	790	40819962	40829012	-1	None	FLJ21019
17	PLEKHH3	ENSG00000068137	ENST00000592974	processed_transcript	KNOWN	None	26105	None	None	40825188	40826418	-1	None	FLJ21019
17	PLEKHH3	ENSG00000068137	ENST00000591544	processed_transcript	KNOWN	None	26105	None	None	40825417	40828079	-1	None	FLJ21019
17	PLEKHH3	ENSG00000068137	ENST00000587627	protein_coding	NOVEL	None	26105	618	205	40825668	40829010	-1	None	FLJ21019
17	PLEKHH3	ENSG00000068137	ENST00000412503	protein_coding	KNOWN	None	26105	1851	616	40819937	40829048	-1	None	FLJ21019
7	None	ENSG00000232922	ENST00000440466	unprocessed_pseudogene	KNOWN	None	None	None	None	112013788	112014305	-1	None	None
22	BCRP2	ENSG00000169668	ENST00000461808	processed_transcript	KNOWN	None	1015	None	None	21457305	21476073	1	BCR2, BCRL2	BCR-2
22	BCRP2	ENSG00000169668	ENST00000447763	transcribed_unprocessed_pseudogene	KNOWN	None	1015	None	None	21470218	21474047	1	BCR2, BCRL2	BCR-2
22	BCRP2	ENSG00000169668	ENST00000398241	retained_intron	KNOWN	None	1015	None	None	21472879	21476574	1	BCR2, BCRL2	BCR-2
15	EIF3J	ENSG00000104131	ENST00000261868	protein_coding	KNOWN	CCDS10111	3270	777	258	44829255	44855001	1	EIF3S1	eIF3-p35, eIF3-alpha, eIF3j
15	EIF3J	ENSG00000104131	ENST00000424492	protein_coding	NOVEL	None	3270	630	209	44829323	44854197	1	EIF3S1	eIF3-p35, eIF3-alpha, eIF3j
15	EIF3J	ENSG00000104131	ENST00000535391	protein_coding	NOVEL	None	3270	615	204	44829381	44853645	1	EIF3S1	eIF3-p35, eIF3-alpha, eIF3j
15	EIF3J	ENSG00000104131	ENST00000558227	retained_intron	KNOWN	None	3270	None	None	44842881	44846772	1	EIF3S1	eIF3-p35, eIF3-alpha, eIF3j
15	EIF3J	ENSG00000104131	ENST00000558053	retained_intron	KNOWN	None	3270	None	None	44843636	44849949	1	EIF3S1	eIF3-p35, eIF3-alpha, eIF3j
15	EIF3J	ENSG00000104131	ENST00000536248	protein_coding	PUTATIVE	None	3270	319	105	44846822	44852773	1	EIF3S1	eIF3-p35, eIF3-alpha, eIF3j
15	EIF3J	ENSG00000104131	ENST00000558353	nonsense_mediated_decay	KNOWN	None	3270	352	116	44849703	44855227	1	EIF3S1	eIF3-p35, eIF3-alpha, eIF3j
7	None	ENSG00000236232	ENST00000420387	unprocessed_pseudogene	KNOWN	None	None	None	None	112014379	112015484	1	None	None
11	None	ENSG00000270972	ENST00000605240	lincRNA	KNOWN	None	None	None	None	333192	333688	1	None	None
7	None	ENSG00000180019	ENST00000321498	processed_pseudogene	KNOWN	None	None	None	None	112086219	112086430	-1	None	None
19	None	ENSG00000267890	ENST00000600998	lincRNA	KNOWN	None	None	None	None	50578380	50579159	1	None	None
HSCHR6_MHC_SSTO	PSMB8	ENSG00000231631	ENST00000435978	protein_coding	KNOWN	None	9545	819	272	32898409	32902343	-1	LMP7	RING10, D6S216E, PSMB5i, beta5i
HSCHR6_MHC_SSTO	PSMB8	ENSG00000231631	ENST00000438442	protein_coding	KNOWN	None	9545	831	276	32898409	32901739	-1	LMP7	RING10, D6S216E, PSMB5i, beta5i
HSCHR6_MHC_SSTO	PSMB8	ENSG00000231631	ENST00000458543	protein_coding	KNOWN	None	9545	759	252	32898409	32901712	-1	LMP7	RING10, D6S216E, PSMB5i, beta5i
HSCHR6_MHC_SSTO	PSMB8	ENSG00000231631	ENST00000462167	retained_intron	KNOWN	None	9545	None	None	32898409	32899726	-1	LMP7	RING10, D6S216E, PSMB5i, beta5i
HSCHR6_MHC_SSTO	PSMB8	ENSG00000231631	ENST00000496351	retained_intron	KNOWN	None	9545	None	None	32898713	32902343	-1	LMP7	RING10, D6S216E, PSMB5i, beta5i
11	RN7SL838P	ENSG00000243562	ENST00000481676	misc_RNA	KNOWN	None	46854	None	None	440406	440693	-1	None	None
1	ABCD3	ENSG00000117528	ENST00000370214	protein_coding	KNOWN	CCDS749	67	1980	659	94884011	94984219	1	PXMP1	PMP70, ZWS2
1	ABCD3	ENSG00000117528	ENST00000315713	protein_coding	KNOWN	CCDS44175	67	711	236	94884035	94944279	1	PXMP1	PMP70, ZWS2
1	ABCD3	ENSG00000117528	ENST00000468860	processed_transcript	KNOWN	None	67	None	None	94884387	94941250	1	PXMP1	PMP70, ZWS2
1	ABCD3	ENSG00000117528	ENST00000493416	processed_transcript	KNOWN	None	67	None	None	94945778	94953347	1	PXMP1	PMP70, ZWS2
1	ABCD3	ENSG00000117528	ENST00000484213	processed_transcript	KNOWN	None	67	None	None	94947049	94984222	1	PXMP1	PMP70, ZWS2
1	ABCD3	ENSG00000117528	ENST00000464165	processed_transcript	KNOWN	None	67	None	None	94979030	94984052	1	PXMP1	PMP70, ZWS2
1	ABCD3	ENSG00000117528	ENST00000394233	protein_coding	KNOWN	None	67	1650	549	94883933	94984219	1	PXMP1	PMP70, ZWS2
1	ABCD3	ENSG00000117528	ENST00000454898	protein_coding	KNOWN	None	67	2052	683	94883969	94982836	1	PXMP1	PMP70, ZWS2
1	ABCD3	ENSG00000117528	ENST00000536817	protein_coding	KNOWN	None	67	1761	586	94883971	94983158	1	PXMP1	PMP70, ZWS2
7	NPM1P14	ENSG00000182965	ENST00000343743	processed_pseudogene	KNOWN	None	7916	None	None	112160543	112161725	1	None	None
1	ATP1B1	ENSG00000143153	ENST00000367816	protein_coding	KNOWN	CCDS1276	804	912	303	169074935	169101960	1	ATP1B	None
1	ATP1B1	ENSG00000143153	ENST00000367815	protein_coding	KNOWN	CCDS1276	804	912	303	169075558	169101960	1	ATP1B	None
1	ATP1B1	ENSG00000143153	ENST00000494797	processed_transcript	KNOWN	None	804	None	None	169077145	169096637	1	ATP1B	None
1	ATP1B1	ENSG00000143153	ENST00000367813	protein_coding	KNOWN	None	804	888	295	169079836	169101254	1	ATP1B	None
1	ATP1B1	ENSG00000143153	ENST00000499679	protein_coding	KNOWN	None	804	744	247	169077186	169101553	1	ATP1B	None
19	None	ENSG00000267815	ENST00000595563	antisense	KNOWN	None	None	None	None	50813279	50813796	-1	None	None
11	None	ENSG00000255237	ENST00000525893	antisense	KNOWN	None	None	None	None	462930	463899	-1	None	None
Y	CDY2B	ENSG00000129873	ENST00000382867	protein_coding	KNOWN	CCDS35473	23921	1626	541	19990147	19992100	-1	None	CDY
Y	CDY2B	ENSG00000129873	ENST00000544303	protein_coding	KNOWN	None	23921	1668	555	19989290	19992098	-1	None	CDY
14	TRAJ38	ENSG00000211851	ENST00000390499	TR_J_gene	KNOWN	None	12068	62	19	22971215	22971276	1	None	None
7	None	ENSG00000223646	ENST00000453459	lincRNA	KNOWN	None	None	None	None	112262433	112348135	1	None	None
5	CTNNA1	ENSG00000044115	ENST00000517980	protein_coding	KNOWN	None	2509	353	116	137946656	138145778	1	None	CAP102
5	CTNNA1	ENSG00000044115	ENST00000522227	protein_coding	KNOWN	None	2509	369	122	137946667	138145794	1	None	CAP102
5	CTNNA1	ENSG00000044115	ENST00000524127	protein_coding	KNOWN	None	2509	282	93	137999526	138119042	1	None	CAP102
5	CTNNA1	ENSG00000044115	ENST00000523912	protein_coding	KNOWN	None	2509	468	155	138088786	138145893	1	None	CAP102
5	CTNNA1	ENSG00000044115	ENST00000520339	protein_coding	KNOWN	None	2509	303	100	138089107	138119063	1	None	CAP102
5	CTNNA1	ENSG00000044115	ENST00000521724	nonsense_mediated_decay	KNOWN	None	2509	114	37	138089110	138269902	1	None	CAP102
5	CTNNA1	ENSG00000044115	ENST00000302763	protein_coding	KNOWN	CCDS34243	2509	2721	906	138089112	138270723	1	None	CAP102
5	CTNNA1	ENSG00000044115	ENST00000518910	protein_coding	PUTATIVE	None	2509	484	160	138089120	138160423	1	None	CAP102
5	CTNNA1	ENSG00000044115	ENST00000521941	processed_transcript	PUTATIVE	None	2509	None	None	138089134	138097787	1	None	CAP102
5	CTNNA1	ENSG00000044115	ENST00000519309	nonsense_mediated_decay	KNOWN	None	2509	168	55	138089135	138160318	1	None	CAP102
5	CTNNA1	ENSG00000044115	ENST00000518245	protein_coding	NOVEL	None	2509	548	181	138089141	138160268	1	None	CAP102
5	CTNNA1	ENSG00000044115	ENST00000519113	protein_coding	KNOWN	None	2509	419	138	138089350	138145844	1	None	CAP102
5	CTNNA1	ENSG00000044115	ENST00000520158	protein_coding	KNOWN	None	2509	647	214	138090058	138160277	1	None	CAP102
5	CTNNA1	ENSG00000044115	ENST00000518825	protein_coding	PUTATIVE	None	2509	2526	841	138117612	138270520	1	None	CAP102
5	CTNNA1	ENSG00000044115	ENST00000518585	processed_transcript	KNOWN	None	2509	None	None	138126615	138160381	1	None	CAP102
5	CTNNA1	ENSG00000044115	ENST00000518919	retained_intron	KNOWN	None	2509	None	None	138147648	138160372	1	None	CAP102
5	CTNNA1	ENSG00000044115	ENST00000523275	nonsense_mediated_decay	KNOWN	None	2509	390	129	138160366	138223210	1	None	CAP102
5	CTNNA1	ENSG00000044115	ENST00000522730	retained_intron	KNOWN	None	2509	None	None	138160457	138163921	1	None	CAP102
5	CTNNA1	ENSG00000044115	ENST00000517534	retained_intron	KNOWN	None	2509	None	None	138163316	138223421	1	None	CAP102
5	CTNNA1	ENSG00000044115	ENST00000520400	processed_transcript	KNOWN	None	2509	None	None	138205964	138253507	1	None	CAP102
5	CTNNA1	ENSG00000044115	ENST00000518381	protein_coding	PUTATIVE	None	2509	225	74	138209727	138240076	1	None	CAP102
5	CTNNA1	ENSG00000044115	ENST00000522013	protein_coding	PUTATIVE	None	2509	317	104	138210919	138253468	1	None	CAP102
5	CTNNA1	ENSG00000044115	ENST00000520260	protein_coding	PUTATIVE	None	2509	96	31	138210955	138223241	1	None	CAP102
5	CTNNA1	ENSG00000044115	ENST00000524292	processed_transcript	KNOWN	None	2509	None	None	138211088	138216795	1	None	CAP102
5	CTNNA1	ENSG00000044115	ENST00000523298	protein_coding	PUTATIVE	None	2509	331	109	138211089	138253482	1	None	CAP102
5	CTNNA1	ENSG00000044115	ENST00000520865	protein_coding	PUTATIVE	None	2509	110	35	138211121	138223255	1	None	CAP102
5	CTNNA1	ENSG00000044115	ENST00000519634	protein_coding	PUTATIVE	None	2509	152	49	138211122	138223297	1	None	CAP102
5	CTNNA1	ENSG00000044115	ENST00000517533	protein_coding	PUTATIVE	None	2509	357	118	138211122	138253508	1	None	CAP102
5	CTNNA1	ENSG00000044115	ENST00000523685	protein_coding	PUTATIVE	None	2509	385	127	138211122	138253536	1	None	CAP102
5	CTNNA1	ENSG00000044115	ENST00000518263	processed_transcript	KNOWN	None	2509	None	None	138211124	138216827	1	None	CAP102
5	CTNNA1	ENSG00000044115	ENST00000519768	protein_coding	PUTATIVE	None	2509	61	19	138211126	138223206	1	None	CAP102
5	CTNNA1	ENSG00000044115	ENST00000517656	protein_coding	PUTATIVE	None	2509	118	38	138211129	138223263	1	None	CAP102
5	CTNNA1	ENSG00000044115	ENST00000521683	protein_coding	PUTATIVE	None	2509	213	70	138211129	138240064	1	None	CAP102
5	CTNNA1	ENSG00000044115	ENST00000521640	protein_coding	PUTATIVE	None	2509	122	39	138211132	138223267	1	None	CAP102
5	CTNNA1	ENSG00000044115	ENST00000519116	protein_coding	PUTATIVE	None	2509	275	90	138211153	138240126	1	None	CAP102
5	CTNNA1	ENSG00000044115	ENST00000522052	processed_transcript	KNOWN	None	2509	None	None	138211177	138253543	1	None	CAP102
5	CTNNA1	ENSG00000044115	ENST00000520522	protein_coding	PUTATIVE	None	2509	152	49	138215884	138223297	1	None	CAP102
5	CTNNA1	ENSG00000044115	ENST00000517904	retained_intron	KNOWN	None	2509	None	None	138221918	138240481	1	None	CAP102
5	CTNNA1	ENSG00000044115	ENST00000521368	nonsense_mediated_decay	KNOWN	None	2509	67	21	138240088	138266198	1	None	CAP102
5	CTNNA1	ENSG00000044115	ENST00000521387	retained_intron	KNOWN	None	2509	None	None	138260219	138266763	1	None	CAP102
5	CTNNA1	ENSG00000044115	ENST00000519489	retained_intron	KNOWN	None	2509	None	None	138260278	138261180	1	None	CAP102
5	CTNNA1	ENSG00000044115	ENST00000520520	protein_coding	NOVEL	None	2509	411	136	138266327	138269851	1	None	CAP102
5	CTNNA1	ENSG00000044115	ENST00000522792	retained_intron	KNOWN	None	2509	None	None	138267590	138270722	1	None	CAP102
5	CTNNA1	ENSG00000044115	ENST00000355078	protein_coding	KNOWN	None	2509	2412	803	138089110	138269902	1	None	CAP102
5	CTNNA1	ENSG00000044115	ENST00000540387	protein_coding	KNOWN	None	2509	1611	536	138211342	138270717	1	None	CAP102
9	MAN1B1	ENSG00000177239	ENST00000371589	protein_coding	KNOWN	CCDS7029	6823	2100	699	139981379	140003635	1	None	MANA-ER
9	MAN1B1	ENSG00000177239	ENST00000544448	nonsense_mediated_decay	KNOWN	None	6823	1668	555	139981437	140003043	1	None	MANA-ER
9	MAN1B1	ENSG00000177239	ENST00000535144	protein_coding	PUTATIVE	None	6823	2116	704	139981532	140002594	1	None	MANA-ER
9	MAN1B1	ENSG00000177239	ENST00000545539	nonsense_mediated_decay	KNOWN	None	6823	159	52	139981533	139990732	1	None	MANA-ER
9	MAN1B1	ENSG00000177239	ENST00000371587	retained_intron	KNOWN	None	6823	None	None	139981533	139996305	1	None	MANA-ER
9	MAN1B1	ENSG00000177239	ENST00000542372	protein_coding	NOVEL	None	6823	545	180	139981535	139992371	1	None	MANA-ER
9	MAN1B1	ENSG00000177239	ENST00000545096	retained_intron	KNOWN	None	6823	None	None	139981536	139983012	1	None	MANA-ER
9	MAN1B1	ENSG00000177239	ENST00000540346	protein_coding	PUTATIVE	None	6823	570	189	139981810	139990803	1	None	MANA-ER
9	MAN1B1	ENSG00000177239	ENST00000474902	protein_coding	PUTATIVE	None	6823	1209	402	139983633	140003633	1	None	MANA-ER
9	MAN1B1	ENSG00000177239	ENST00000536349	retained_intron	KNOWN	None	6823	None	None	139996965	140003633	1	None	MANA-ER
9	MAN1B1	ENSG00000177239	ENST00000540391	processed_transcript	KNOWN	None	6823	None	None	139997800	140003633	1	None	MANA-ER
9	MAN1B1	ENSG00000177239	ENST00000535028	retained_intron	KNOWN	None	6823	None	None	139998102	140003633	1	None	MANA-ER
9	MAN1B1	ENSG00000177239	ENST00000480100	retained_intron	KNOWN	None	6823	None	None	139998878	140003633	1	None	MANA-ER
9	MAN1B1	ENSG00000177239	ENST00000536268	retained_intron	KNOWN	None	6823	None	None	140001622	140002258	1	None	MANA-ER
9	MAN1B1	ENSG00000177239	ENST00000475449	protein_coding	PUTATIVE	None	6823	811	269	140001716	140003571	1	None	MANA-ER
9	MAN1B1	ENSG00000177239	ENST00000550113	protein_coding	NOVEL	None	6823	373	123	140001824	140003444	1	None	MANA-ER
10	None	ENSG00000221717	ENST00000408790	miRNA	NOVEL	None	None	None	None	128245532	128245633	-1	None	None
11	SLC15A3	ENSG00000110446	ENST00000536784	protein_coding	PUTATIVE	None	18068	132	43	60704556	60705456	-1	None	PHT2, hPTR3
11	SLC15A3	ENSG00000110446	ENST00000541505	nonsense_mediated_decay	KNOWN	None	18068	1371	456	60704556	60719118	-1	None	PHT2, hPTR3
11	SLC15A3	ENSG00000110446	ENST00000227880	protein_coding	KNOWN	CCDS7998	18068	1746	581	60704556	60719257	-1	None	PHT2, hPTR3
11	SLC15A3	ENSG00000110446	ENST00000544101	retained_intron	KNOWN	None	18068	None	None	60704560	60705604	-1	None	PHT2, hPTR3
11	SLC15A3	ENSG00000110446	ENST00000543406	retained_intron	KNOWN	None	18068	None	None	60704563	60711091	-1	None	PHT2, hPTR3
11	SLC15A3	ENSG00000110446	ENST00000537307	protein_coding	NOVEL	None	18068	743	246	60704633	60711264	-1	None	PHT2, hPTR3
11	SLC15A3	ENSG00000110446	ENST00000536491	protein_coding	PUTATIVE	None	18068	628	208	60708681	60715291	-1	None	PHT2, hPTR3
11	SLC15A3	ENSG00000110446	ENST00000540272	retained_intron	KNOWN	None	18068	None	None	60710978	60714238	-1	None	PHT2, hPTR3
11	SLC15A3	ENSG00000110446	ENST00000538739	protein_coding	PUTATIVE	None	18068	447	148	60714006	60720002	-1	None	PHT2, hPTR3
10	None	ENSG00000199321	ENST00000362451	snoRNA	NOVEL	None	None	None	None	128468271	128468343	-1	None	None
18	HSBP1L1	ENSG00000226742	ENST00000451882	protein_coding	KNOWN	CCDS45886	37243	225	74	77724561	77730822	1	None	FLJ10967, MGC189743
18	HSBP1L1	ENSG00000226742	ENST00000592352	retained_intron	KNOWN	None	37243	None	None	77724582	77726970	1	None	FLJ10967, MGC189743
18	HSBP1L1	ENSG00000226742	ENST00000589516	nonsense_mediated_decay	KNOWN	None	37243	138	45	77724630	77730735	1	None	FLJ10967, MGC189743
18	HSBP1L1	ENSG00000226742	ENST00000587347	retained_intron	KNOWN	None	37243	None	None	77727493	77730805	1	None	FLJ10967, MGC189743
18	HSBP1L1	ENSG00000226742	ENST00000590571	retained_intron	KNOWN	None	37243	None	None	77730043	77730817	1	None	FLJ10967, MGC189743
19	LILRB5	ENSG00000105609	ENST00000316219	protein_coding	KNOWN	CCDS12885	6609	1773	590	54754263	54761164	-1	None	LIR-8, LIR8, CD85c
19	LILRB5	ENSG00000105609	ENST00000466581	retained_intron	KNOWN	None	6609	None	None	54754289	54761155	-1	None	LIR-8, LIR8, CD85c
19	LILRB5	ENSG00000105609	ENST00000345866	protein_coding	NOVEL	CCDS42611	6609	1476	491	54754331	54761125	-1	None	LIR-8, LIR8, CD85c
19	LILRB5	ENSG00000105609	ENST00000449561	protein_coding	KNOWN	CCDS46176	6609	1776	591	54754360	54761127	-1	None	LIR-8, LIR8, CD85c
19	LILRB5	ENSG00000105609	ENST00000463460	retained_intron	KNOWN	None	6609	None	None	54754410	54761108	-1	None	LIR-8, LIR8, CD85c
19	LILRB5	ENSG00000105609	ENST00000450632	protein_coding	KNOWN	None	6609	1869	622	54754269	54761134	-1	None	LIR-8, LIR8, CD85c
16	None	ENSG00000261421	ENST00000565146	lincRNA	KNOWN	None	None	None	None	49193419	49195934	1	None	None
10	None	ENSG00000202487	ENST00000365617	misc_RNA	NOVEL	None	None	None	None	128609376	128609472	1	None	None
11	None	ENSG00000254739	ENST00000526431	antisense	KNOWN	None	None	None	None	528907	529659	1	None	None
18	None	ENSG00000267228	ENST00000602459	nonsense_mediated_decay	KNOWN	None	None	123	40	44661027	44702651	-1	None	None
18	None	ENSG00000267228	ENST00000602926	nonsense_mediated_decay	KNOWN	None	None	123	40	44661027	44702651	-1	None	None
18	None	ENSG00000267228	ENST00000588705	nonsense_mediated_decay	KNOWN	CCDS11933	None	249	82	44661027	44702652	-1	None	None
16	None	ENSG00000261815	ENST00000564222	lincRNA	KNOWN	None	None	None	None	49204463	49205697	1	None	None
7	PLXNA4	ENSG00000221866	ENST00000359827	protein_coding	KNOWN	CCDS43646	9102	5685	1894	131808100	132262060	-1	PLXNA4A, PLXNA4B	KIAA1550, DKFZp434G0625PRO34003, FAYV2820
7	PLXNA4	ENSG00000221866	ENST00000496550	retained_intron	KNOWN	None	9102	None	None	131825363	131830266	-1	PLXNA4A, PLXNA4B	KIAA1550, DKFZp434G0625PRO34003, FAYV2820
7	PLXNA4	ENSG00000221866	ENST00000423507	protein_coding	KNOWN	CCDS43647	9102	1479	492	132068247	132261229	-1	PLXNA4A, PLXNA4B	KIAA1550, DKFZp434G0625PRO34003, FAYV2820
7	PLXNA4	ENSG00000221866	ENST00000378539	protein_coding	KNOWN	CCDS5826	9102	1569	522	132169517	132333447	-1	PLXNA4A, PLXNA4B	KIAA1550, DKFZp434G0625PRO34003, FAYV2820
7	PLXNA4	ENSG00000221866	ENST00000321063	protein_coding	KNOWN	CCDS43646	9102	5685	1894	131808091	132261323	-1	PLXNA4A, PLXNA4B	KIAA1550, DKFZp434G0625PRO34003, FAYV2820
10	None	ENSG00000223528	ENST00000601242	antisense	KNOWN	None	None	None	None	128798541	128824686	-1	None	None
10	None	ENSG00000223528	ENST00000594614	antisense	KNOWN	None	None	None	None	128798837	128824687	-1	None	None
10	None	ENSG00000223528	ENST00000595456	antisense	KNOWN	None	None	None	None	128798971	128824687	-1	None	None
10	None	ENSG00000223528	ENST00000594559	antisense	KNOWN	None	None	None	None	128799618	128824687	-1	None	None
10	None	ENSG00000223528	ENST00000601826	antisense	KNOWN	None	None	None	None	128799637	128824687	-1	None	None
10	None	ENSG00000223528	ENST00000599979	antisense	KNOWN	None	None	None	None	128811731	128824687	-1	None	None
10	None	ENSG00000223528	ENST00000432554	antisense	KNOWN	None	None	None	None	128823205	128824771	-1	None	None
16	None	ENSG00000260614	ENST00000564875	antisense	KNOWN	None	None	None	None	49321341	49324138	1	None	None
Y	CDY2A	ENSG00000182415	ENST00000426790	protein_coding	KNOWN	None	1810	1668	555	20137669	20140477	1	CDY2	None
Y	CDY2A	ENSG00000182415	ENST00000250838	protein_coding	KNOWN	CCDS14789	1810	1626	541	20137667	20139626	1	CDY2	None
11	None	ENSG00000254815	ENST00000527620	antisense	KNOWN	None	None	None	None	557595	560106	1	None	None
11	None	ENSG00000254815	ENST00000527113	antisense	KNOWN	None	None	None	None	558892	560106	1	None	None
11	None	ENSG00000254815	ENST00000533844	antisense	KNOWN	None	None	None	None	559476	560107	1	None	None
16	None	ENSG00000259782	ENST00000561624	sense_intronic	KNOWN	None	None	None	None	23457767	23458603	-1	None	None
16	None	ENSG00000260136	ENST00000570080	lincRNA	KNOWN	None	None	None	None	23464079	23468909	1	None	None
16	None	ENSG00000260136	ENST00000565747	lincRNA	KNOWN	None	None	None	None	23464328	23467110	1	None	None
16	None	ENSG00000260136	ENST00000562842	lincRNA	KNOWN	None	None	None	None	23464328	23468927	1	None	None
16	None	ENSG00000259957	ENST00000569877	lincRNA	KNOWN	None	None	None	None	49328797	49330647	1	None	None
20	RTEL1	ENSG00000258366	ENST00000370018	protein_coding	KNOWN	CCDS13531	15888	3660	1219	62289163	62327606	1	C20orf41	bK3184A7.3, NHL, DKFZP434C013, KIAA1088, RTEL
20	RTEL1	ENSG00000258366	ENST00000508582	protein_coding	KNOWN	CCDS13530	15888	3732	1243	62289644	62327333	1	C20orf41	bK3184A7.3, NHL, DKFZP434C013, KIAA1088, RTEL
20	RTEL1	ENSG00000258366	ENST00000469728	processed_transcript	KNOWN	None	15888	None	None	62289647	62292685	1	C20orf41	bK3184A7.3, NHL, DKFZP434C013, KIAA1088, RTEL
20	RTEL1	ENSG00000258366	ENST00000360203	protein_coding	NOVEL	None	15888	3903	1300	62289665	62327606	1	C20orf41	bK3184A7.3, NHL, DKFZP434C013, KIAA1088, RTEL
20	RTEL1	ENSG00000258366	ENST00000356810	protein_coding	PUTATIVE	None	15888	1069	355	62289713	62305446	1	C20orf41	bK3184A7.3, NHL, DKFZP434C013, KIAA1088, RTEL
20	RTEL1	ENSG00000258366	ENST00000488316	processed_transcript	KNOWN	None	15888	None	None	62289983	62293210	1	C20orf41	bK3184A7.3, NHL, DKFZP434C013, KIAA1088, RTEL
20	RTEL1	ENSG00000258366	ENST00000463361	processed_transcript	KNOWN	None	15888	None	None	62296419	62305405	1	C20orf41	bK3184A7.3, NHL, DKFZP434C013, KIAA1088, RTEL
20	RTEL1	ENSG00000258366	ENST00000425905	protein_coding	PUTATIVE	None	15888	664	220	62319692	62322229	1	C20orf41	bK3184A7.3, NHL, DKFZP434C013, KIAA1088, RTEL
20	RTEL1	ENSG00000258366	ENST00000496816	nonsense_mediated_decay	KNOWN	None	15888	951	316	62321199	62327598	1	C20orf41	bK3184A7.3, NHL, DKFZP434C013, KIAA1088, RTEL
20	RTEL1	ENSG00000258366	ENST00000370003	protein_coding	KNOWN	None	15888	1638	545	62321319	62327601	1	C20orf41	bK3184A7.3, NHL, DKFZP434C013, KIAA1088, RTEL
20	RTEL1	ENSG00000258366	ENST00000318100	protein_coding	KNOWN	None	15888	4203	1400	62289163	62328416	1	C20orf41	bK3184A7.3, NHL, DKFZP434C013, KIAA1088, RTEL
11	AGBL2	ENSG00000165923	ENST00000528609	nonsense_mediated_decay	KNOWN	None	26296	380	125	47681143	47711922	-1	None	FLJ23598
11	AGBL2	ENSG00000165923	ENST00000525123	protein_coding	KNOWN	CCDS7944	26296	2709	902	47681143	47736912	-1	None	FLJ23598
11	AGBL2	ENSG00000165923	ENST00000528244	protein_coding	NOVEL	None	26296	2475	824	47688167	47736921	-1	None	FLJ23598
11	AGBL2	ENSG00000165923	ENST00000529712	processed_transcript	KNOWN	None	26296	None	None	47690393	47736904	-1	None	FLJ23598
11	AGBL2	ENSG00000165923	ENST00000532595	protein_coding	NOVEL	None	26296	993	330	47712098	47736921	-1	None	FLJ23598
11	AGBL2	ENSG00000165923	ENST00000526331	processed_transcript	KNOWN	None	26296	None	None	47713718	47731864	-1	None	FLJ23598
11	AGBL2	ENSG00000165923	ENST00000530577	protein_coding	PUTATIVE	None	26296	445	147	47721073	47735979	-1	None	FLJ23598
11	AGBL2	ENSG00000165923	ENST00000532835	retained_intron	KNOWN	None	26296	None	None	47726652	47732011	-1	None	FLJ23598
11	AGBL2	ENSG00000165923	ENST00000528632	nonsense_mediated_decay	KNOWN	None	26296	186	61	47727416	47736261	-1	None	FLJ23598
11	AGBL2	ENSG00000165923	ENST00000529154	protein_coding	PUTATIVE	None	26296	286	94	47727416	47736934	-1	None	FLJ23598
11	AGBL2	ENSG00000165923	ENST00000531835	processed_transcript	KNOWN	None	26296	None	None	47731936	47736921	-1	None	FLJ23598
11	AGBL2	ENSG00000165923	ENST00000530969	protein_coding	PUTATIVE	None	26296	97	31	47735836	47736941	-1	None	FLJ23598
11	AGBL2	ENSG00000165923	ENST00000425363	processed_transcript	PUTATIVE	None	26296	None	None	47735865	47736439	-1	None	FLJ23598
11	AGBL2	ENSG00000165923	ENST00000357610	protein_coding	KNOWN	None	26296	2715	904	47681145	47736302	-1	None	FLJ23598
11	AGBL2	ENSG00000165923	ENST00000298861	protein_coding	KNOWN	CCDS7944	26296	2709	902	47681145	47736302	-1	None	FLJ23598
20	None	ENSG00000237119	ENST00000455711	lincRNA	KNOWN	None	None	None	None	61669363	61685215	1	None	None
19	NAPSB	ENSG00000131401	ENST00000531692	retained_intron	KNOWN	None	13396	None	None	50837053	50837818	-1	None	NAP1L, NAP2, NAPB, NAPSBP
19	NAPSB	ENSG00000131401	ENST00000527780	processed_transcript	KNOWN	None	13396	None	None	50837057	50848018	-1	None	NAP1L, NAP2, NAPB, NAPSBP
19	NAPSB	ENSG00000131401	ENST00000562112	transcribed_unprocessed_pseudogene	KNOWN	None	13396	None	None	50837134	50848018	-1	None	NAP1L, NAP2, NAPB, NAPSBP
19	NAPSB	ENSG00000131401	ENST00000534096	retained_intron	KNOWN	None	13396	None	None	50837878	50848023	-1	None	NAP1L, NAP2, NAPB, NAPSBP
19	NAPSB	ENSG00000131401	ENST00000534789	retained_intron	KNOWN	None	13396	None	None	50837891	50848020	-1	None	NAP1L, NAP2, NAPB, NAPSBP
19	NAPSB	ENSG00000131401	ENST00000525179	retained_intron	KNOWN	None	13396	None	None	50840265	50848024	-1	None	NAP1L, NAP2, NAPB, NAPSBP
X	MIR3937	ENSG00000263730	ENST00000580135	miRNA	KNOWN	None	38970	None	None	39520470	39520575	1	None	hsa-mir-3937
5	RN7SL177P	ENSG00000242976	ENST00000476596	misc_RNA	KNOWN	None	46193	None	None	153134942	153135238	1	None	None
19	None	ENSG00000267553	ENST00000591828	lincRNA	KNOWN	None	None	None	None	31910835	31912101	1	None	None
X	RN7SL732P	ENSG00000264618	ENST00000581157	misc_RNA	KNOWN	None	46748	None	None	39645780	39646077	-1	None	None
5	None	ENSG00000251183	ENST00000509568	lincRNA	KNOWN	None	None	None	None	153266988	153278547	-1	None	None
16	None	ENSG00000262529	ENST00000570581	antisense	KNOWN	None	None	None	None	14285677	14294134	-1	None	None
16	None	ENSG00000259839	ENST00000566607	lincRNA	KNOWN	None	None	None	None	49370594	49371256	1	None	None
X	GAPDHP1	ENSG00000228232	ENST00000452570	processed_pseudogene	KNOWN	None	4159	None	None	39646386	39647390	-1	GAPDP1, GAPDHL2, GAPDL2	None
19	None	ENSG00000267636	ENST00000591132	lincRNA	KNOWN	None	None	None	None	31912903	31918208	1	None	None
7	SCIN	ENSG00000006747	ENST00000341757	nonsense_mediated_decay	KNOWN	None	21695	1743	580	12610203	12692729	1	None	adseverin, KIAA1905
7	SCIN	ENSG00000006747	ENST00000297029	protein_coding	KNOWN	CCDS47545	21695	2148	715	12610312	12693228	1	None	adseverin, KIAA1905
7	SCIN	ENSG00000006747	ENST00000417018	protein_coding	NOVEL	None	21695	481	159	12610345	12620730	1	None	adseverin, KIAA1905
7	SCIN	ENSG00000006747	ENST00000436854	nonsense_mediated_decay	KNOWN	None	21695	309	102	12610347	12617775	1	None	adseverin, KIAA1905
7	SCIN	ENSG00000006747	ENST00000523729	protein_coding	PUTATIVE	None	21695	325	107	12628553	12664677	1	None	adseverin, KIAA1905
7	SCIN	ENSG00000006747	ENST00000518849	protein_coding	PUTATIVE	None	21695	273	90	12629054	12662509	1	None	adseverin, KIAA1905
7	SCIN	ENSG00000006747	ENST00000519209	protein_coding	KNOWN	CCDS47546	21695	1407	468	12629058	12693227	1	None	adseverin, KIAA1905
7	SCIN	ENSG00000006747	ENST00000486980	processed_transcript	KNOWN	None	21695	None	None	12635174	12664696	1	None	adseverin, KIAA1905
7	SCIN	ENSG00000006747	ENST00000473722	processed_transcript	KNOWN	None	21695	None	None	12650656	12668736	1	None	adseverin, KIAA1905
7	SCIN	ENSG00000006747	ENST00000476649	retained_intron	KNOWN	None	21695	None	None	12662463	12666166	1	None	adseverin, KIAA1905
7	SCIN	ENSG00000006747	ENST00000445618	protein_coding	KNOWN	CCDS47546	21695	1407	468	12644138	12693225	1	None	adseverin, KIAA1905
5	None	ENSG00000261382	ENST00000561496	lincRNA	KNOWN	None	None	None	None	153281019	153282783	1	None	None
4	UTP3	ENSG00000132467	ENST00000254803	protein_coding	KNOWN	CCDS3546	24477	1440	479	71554196	71556267	1	None	FLJ23256, DKFZp761F222, SAS10, CRLZ1
X	None	ENSG00000270759	ENST00000603131	processed_pseudogene	KNOWN	None	None	None	None	39650834	39651158	-1	None	None
16	None	ENSG00000261284	ENST00000569805	processed_pseudogene	KNOWN	None	None	None	None	31874954	31876197	1	None	None
16	TVP23CP2	ENSG00000262470	ENST00000571473	transcribed_processed_pseudogene	KNOWN	None	44647	None	None	14294214	14294836	1	None	None
X	MIR1587	ENSG00000261435	ENST00000562814	lincRNA	KNOWN	None	41596	None	None	39696790	39707612	-1	None	hsa-mir-1587
7	MIPEPP1	ENSG00000225358	ENST00000413533	processed_pseudogene	KNOWN	None	39456	None	None	112375221	112378748	-1	None	None
19	None	ENSG00000267599	ENST00000587779	lincRNA	KNOWN	None	None	None	None	31956559	31957337	1	None	None
8	GATA4	ENSG00000136574	ENST00000528712	protein_coding	PUTATIVE	None	4173	711	236	11534468	11617509	1	None	None
8	GATA4	ENSG00000136574	ENST00000532977	protein_coding	KNOWN	None	4173	48	15	11534469	11565869	1	None	None
8	GATA4	ENSG00000136574	ENST00000526974	protein_coding	KNOWN	None	4173	69	22	11550135	11565890	1	None	None
8	GATA4	ENSG00000136574	ENST00000526716	protein_coding	PUTATIVE	None	4173	527	174	11561660	11614591	1	None	None
8	GATA4	ENSG00000136574	ENST00000335135	protein_coding	KNOWN	CCDS5983	4173	1329	442	11561713	11617511	1	None	None
8	GATA4	ENSG00000136574	ENST00000528027	protein_coding	PUTATIVE	None	4173	350	115	11561731	11566171	1	None	None
8	GATA4	ENSG00000136574	ENST00000532059	protein_coding	PUTATIVE	None	4173	1332	443	11565742	11616031	1	None	None
8	GATA4	ENSG00000136574	ENST00000526021	retained_intron	KNOWN	None	4173	None	None	11614002	11616274	1	None	None
16	None	ENSG00000260208	ENST00000568163	3prime_overlapping_ncrna	KNOWN	None	None	None	None	23474937	23476658	-1	None	None
4	HNRNPD	ENSG00000138668	ENST00000313899	protein_coding	KNOWN	CCDS3592	5036	1068	355	83273651	83295109	-1	AUF1, HNRPD	None
4	HNRNPD	ENSG00000138668	ENST00000514325	retained_intron	KNOWN	None	5036	None	None	83274982	83279995	-1	AUF1, HNRPD	None
4	HNRNPD	ENSG00000138668	ENST00000353341	protein_coding	KNOWN	CCDS3590	5036	921	306	83274982	83295139	-1	AUF1, HNRPD	None
4	HNRNPD	ENSG00000138668	ENST00000514671	protein_coding	KNOWN	None	5036	631	209	83274987	83280792	-1	AUF1, HNRPD	None
4	HNRNPD	ENSG00000138668	ENST00000352301	protein_coding	KNOWN	CCDS3591	5036	1011	336	83274987	83295136	-1	AUF1, HNRPD	None
4	HNRNPD	ENSG00000138668	ENST00000508119	processed_transcript	KNOWN	None	5036	None	None	83276000	83278545	-1	AUF1, HNRPD	None
4	HNRNPD	ENSG00000138668	ENST00000513584	nonsense_mediated_decay	KNOWN	None	5036	261	86	83276402	83295144	-1	AUF1, HNRPD	None
4	HNRNPD	ENSG00000138668	ENST00000509263	protein_coding	PUTATIVE	None	5036	782	259	83277707	83294303	-1	AUF1, HNRPD	None
4	HNRNPD	ENSG00000138668	ENST00000507010	protein_coding	KNOWN	None	5036	663	220	83278556	83295297	-1	AUF1, HNRPD	None
4	HNRNPD	ENSG00000138668	ENST00000515432	protein_coding	PUTATIVE	None	5036	335	110	83278590	83295656	-1	AUF1, HNRPD	None
4	HNRNPD	ENSG00000138668	ENST00000503822	protein_coding	KNOWN	None	5036	465	154	83279911	83295314	-1	AUF1, HNRPD	None
4	HNRNPD	ENSG00000138668	ENST00000509107	protein_coding	PUTATIVE	None	5036	276	91	83280669	83295138	-1	AUF1, HNRPD	None
4	HNRNPD	ENSG00000138668	ENST00000543098	protein_coding	KNOWN	None	5036	912	303	83274987	83294831	-1	AUF1, HNRPD	None
4	HNRNPD	ENSG00000138668	ENST00000541060	protein_coding	KNOWN	None	5036	606	201	83276231	83295144	-1	AUF1, HNRPD	None
16	None	ENSG00000257026	ENST00000546067	pseudogene	NOVEL	None	None	None	None	14359347	14360629	1	None	None
17	SRCIN1	ENSG00000017373	ENST00000264659	protein_coding	KNOWN	CCDS45660	29506	3552	1183	36686251	36762183	-1	None	SNIP, p140Cap, KIAA1684
17	SRCIN1	ENSG00000017373	ENST00000578925	protein_coding	NOVEL	None	29506	3654	1217	36688679	36762095	-1	None	SNIP, p140Cap, KIAA1684
17	SRCIN1	ENSG00000017373	ENST00000542707	protein_coding	PUTATIVE	None	29506	2785	927	36697516	36719660	-1	None	SNIP, p140Cap, KIAA1684
17	SRCIN1	ENSG00000017373	ENST00000577193	retained_intron	KNOWN	None	29506	None	None	36697519	36720232	-1	None	SNIP, p140Cap, KIAA1684
17	SRCIN1	ENSG00000017373	ENST00000398579	processed_transcript	KNOWN	None	29506	None	None	36697519	36729067	-1	None	SNIP, p140Cap, KIAA1684
17	SRCIN1	ENSG00000017373	ENST00000584491	processed_transcript	KNOWN	None	29506	None	None	36701446	36704937	-1	None	SNIP, p140Cap, KIAA1684
17	SRCIN1	ENSG00000017373	ENST00000581656	processed_transcript	PUTATIVE	None	29506	None	None	36701503	36702956	-1	None	SNIP, p140Cap, KIAA1684
17	SRCIN1	ENSG00000017373	ENST00000578160	processed_transcript	KNOWN	None	29506	None	None	36707915	36715709	-1	None	SNIP, p140Cap, KIAA1684
17	SRCIN1	ENSG00000017373	ENST00000584266	protein_coding	PUTATIVE	None	29506	1421	472	36718158	36760865	-1	None	SNIP, p140Cap, KIAA1684
HSCHR6_MHC_APD	C6orf10	ENSG00000236672	ENST00000423858	protein_coding	KNOWN	None	13922	577	191	32295497	32350672	-1	None	TSBP
HSCHR6_MHC_APD	C6orf10	ENSG00000236672	ENST00000425722	protein_coding	KNOWN	None	13922	580	192	32301588	32350644	-1	None	TSBP
5	None	ENSG00000249186	ENST00000505248	antisense	KNOWN	None	None	None	None	177284946	177298191	-1	None	None
5	None	ENSG00000249186	ENST00000504362	antisense	KNOWN	None	None	None	None	177291394	177298195	-1	None	None
5	None	ENSG00000249186	ENST00000504214	antisense	KNOWN	None	None	None	None	177291566	177298184	-1	None	None
16	None	ENSG00000261528	ENST00000569310	processed_pseudogene	KNOWN	None	None	None	None	23512226	23512951	1	None	None
19	None	ENSG00000267407	ENST00000593063	lincRNA	KNOWN	None	None	None	None	32032945	32045703	1	None	None
7	None	ENSG00000234520	ENST00000451962	lincRNA	KNOWN	None	None	None	None	112594701	112635689	-1	None	None
7	None	ENSG00000234520	ENST00000447785	lincRNA	KNOWN	None	None	None	None	112613674	112635682	-1	None	None
X	MIR1587	ENSG00000263972	ENST00000583319	miRNA	KNOWN	None	41596	None	None	39696815	39696867	1	None	hsa-mir-1587
5	None	ENSG00000251710	ENST00000515901	miRNA	NOVEL	None	None	None	None	153472864	153472939	-1	None	None
19	None	ENSG00000261400	ENST00000562167	lincRNA	KNOWN	None	None	None	None	32078946	32086626	-1	None	None
X	RPS11P7	ENSG00000214047	ENST00000442125	processed_pseudogene	KNOWN	None	36724	None	None	39724678	39725142	1	None	None
16	None	ENSG00000259874	ENST00000561866	processed_pseudogene	KNOWN	None	None	None	None	31882208	31882445	-1	None	None
5	SAP30L-AS1	ENSG00000245275	ENST00000519727	antisense	KNOWN	None	26760	None	None	153708997	153825379	-1	None	FLJ38109, GALNT10-AS1
5	SAP30L-AS1	ENSG00000245275	ENST00000524264	antisense	KNOWN	None	26760	None	None	153771731	153825373	-1	None	FLJ38109, GALNT10-AS1
5	SAP30L-AS1	ENSG00000245275	ENST00000501280	antisense	KNOWN	None	26760	None	None	153815561	153825410	-1	None	FLJ38109, GALNT10-AS1
5	SAP30L-AS1	ENSG00000245275	ENST00000522312	antisense	KNOWN	None	26760	None	None	153822557	153825382	-1	None	FLJ38109, GALNT10-AS1
16	None	ENSG00000259950	ENST00000565294	processed_pseudogene	KNOWN	None	None	None	None	31905863	31906304	-1	None	None
19	None	ENSG00000267465	ENST00000592788	lincRNA	KNOWN	None	None	None	None	32079102	32083669	1	None	None
19	None	ENSG00000267465	ENST00000590611	lincRNA	KNOWN	None	None	None	None	32079161	32084456	1	None	None
19	None	ENSG00000267465	ENST00000592644	lincRNA	KNOWN	None	None	None	None	32083187	32083945	1	None	None
22	CRYBB1	ENSG00000100122	ENST00000215939	protein_coding	KNOWN	CCDS13840	2397	759	252	26995242	27014052	-1	None	None
X	None	ENSG00000223486	ENST00000447651	processed_transcript	KNOWN	None	None	None	None	39868529	39871435	1	None	None
5	None	ENSG00000221204	ENST00000408277	miRNA	NOVEL	None	None	None	None	177335466	177335558	1	None	None
12	FAM101A	ENSG00000178882	ENST00000324038	protein_coding	KNOWN	CCDS9258	27051	408	135	124773710	124800568	1	None	FLJ44614
12	FAM101A	ENSG00000178882	ENST00000546355	protein_coding	KNOWN	CCDS9258	27051	408	135	124780069	124800570	1	None	FLJ44614
12	FAM101A	ENSG00000178882	ENST00000338359	protein_coding	KNOWN	CCDS9258	27051	408	135	124796254	124799169	1	None	FLJ44614
12	FAM101A	ENSG00000178882	ENST00000389727	protein_coding	KNOWN	None	27051	651	216	124779976	124800568	1	None	FLJ44614
14	TRAJ37	ENSG00000211852	ENST00000390500	TR_J_gene	KNOWN	None	12067	63	20	22972735	22972797	1	None	None
5	None	ENSG00000250101	ENST00000511650	antisense	KNOWN	None	None	None	None	177366623	177410055	1	None	None
19	SNRPA	ENSG00000077312	ENST00000601545	protein_coding	PUTATIVE	None	11151	553	183	41256542	41270926	1	None	U1A, U1-A, Mud1
19	SNRPA	ENSG00000077312	ENST00000243563	protein_coding	KNOWN	CCDS12565	11151	849	282	41256764	41271294	1	None	U1A, U1-A, Mud1
19	SNRPA	ENSG00000077312	ENST00000601253	protein_coding	NOVEL	None	11151	386	127	41256772	41265484	1	None	U1A, U1-A, Mud1
19	SNRPA	ENSG00000077312	ENST00000597353	protein_coding	KNOWN	None	11151	446	147	41256773	41268825	1	None	U1A, U1-A, Mud1
19	SNRPA	ENSG00000077312	ENST00000599362	protein_coding	KNOWN	None	11151	426	141	41256776	41265515	1	None	U1A, U1-A, Mud1
19	SNRPA	ENSG00000077312	ENST00000599570	processed_transcript	KNOWN	None	11151	None	None	41256780	41265515	1	None	U1A, U1-A, Mud1
19	SNRPA	ENSG00000077312	ENST00000601393	protein_coding	NOVEL	None	11151	769	255	41257114	41271055	1	None	U1A, U1-A, Mud1
19	SNRPA	ENSG00000077312	ENST00000598923	retained_intron	KNOWN	None	11151	None	None	41257179	41269196	1	None	U1A, U1-A, Mud1
19	SNRPA	ENSG00000077312	ENST00000600456	nonsense_mediated_decay	KNOWN	None	11151	264	87	41257203	41265484	1	None	U1A, U1-A, Mud1
19	SNRPA	ENSG00000077312	ENST00000598452	retained_intron	KNOWN	None	11151	None	None	41262941	41265545	1	None	U1A, U1-A, Mud1
19	SNRPA	ENSG00000077312	ENST00000596860	retained_intron	KNOWN	None	11151	None	None	41269446	41271113	1	None	U1A, U1-A, Mud1
5	None	ENSG00000248918	ENST00000508923	lincRNA	KNOWN	None	None	None	None	50265494	50266021	1	None	None
16	None	ENSG00000262657	ENST00000575471	3prime_overlapping_ncrna	KNOWN	None	None	None	None	31923175	31928172	1	None	None
X	None	ENSG00000236393	ENST00000452690	lincRNA	KNOWN	None	None	None	None	40122170	40146973	1	None	None
X	None	ENSG00000236393	ENST00000447570	lincRNA	KNOWN	None	None	None	None	40122219	40126475	1	None	None
12	CCDC64	ENSG00000135127	ENST00000397558	protein_coding	NOVEL	CCDS41845	28095	1722	573	120427673	120532298	1	None	FLJ26450
12	CCDC64	ENSG00000135127	ENST00000546420	nonsense_mediated_decay	KNOWN	None	28095	685	227	120427684	120531702	1	None	FLJ26450
12	CCDC64	ENSG00000135127	ENST00000546861	processed_transcript	PUTATIVE	None	28095	None	None	120427957	120430522	1	None	FLJ26450
12	CCDC64	ENSG00000135127	ENST00000550245	processed_transcript	PUTATIVE	None	28095	None	None	120437657	120438358	1	None	FLJ26450
12	CCDC64	ENSG00000135127	ENST00000546790	retained_intron	KNOWN	None	28095	None	None	120502441	120518822	1	None	FLJ26450
12	CCDC64	ENSG00000135127	ENST00000548673	protein_coding	PUTATIVE	None	28095	876	291	120509507	120531198	1	None	FLJ26450
12	CCDC64	ENSG00000135127	ENST00000550197	retained_intron	KNOWN	None	28095	None	None	120512248	120527994	1	None	FLJ26450
12	CCDC64	ENSG00000135127	ENST00000546460	retained_intron	KNOWN	None	28095	None	None	120518485	120527831	1	None	FLJ26450
12	CCDC64	ENSG00000135127	ENST00000547841	nonsense_mediated_decay	KNOWN	None	28095	232	76	120518762	120531260	1	None	FLJ26450
12	CCDC64	ENSG00000135127	ENST00000546502	retained_intron	KNOWN	None	28095	None	None	120528559	120531145	1	None	FLJ26450
12	CCDC64	ENSG00000135127	ENST00000546857	processed_transcript	PUTATIVE	None	28095	None	None	120530823	120532295	1	None	FLJ26450
12	CCDC64	ENSG00000135127	ENST00000446727	protein_coding	KNOWN	None	28095	735	244	120502441	120531451	1	None	FLJ26450
12	CCDC64	ENSG00000135127	ENST00000257583	protein_coding	KNOWN	None	28095	813	270	120509507	120531298	1	None	FLJ26450
5	None	ENSG00000249684	ENST00000502514	antisense	KNOWN	None	None	None	None	177377336	177384751	1	None	None
5	None	ENSG00000249684	ENST00000507072	antisense	KNOWN	None	None	None	None	177378414	177390961	1	None	None
5	None	ENSG00000249684	ENST00000366189	antisense	KNOWN	None	None	None	None	177378949	177387150	1	None	None
5	None	ENSG00000249684	ENST00000503263	antisense	KNOWN	None	None	None	None	177380166	177384760	1	None	None
X	TNMD	ENSG00000000005	ENST00000373031	protein_coding	KNOWN	CCDS14469	17757	954	317	99839799	99854882	1	None	myodulin, ChM1L, tendin, TEM, BRICD4
X	TNMD	ENSG00000000005	ENST00000485971	processed_transcript	KNOWN	None	17757	None	None	99848621	99852528	1	None	myodulin, ChM1L, tendin, TEM, BRICD4
X	None	ENSG00000238920	ENST00000459471	snoRNA	NOVEL	None	None	None	None	40144349	40144452	1	None	None
X	None	ENSG00000214045	ENST00000418838	processed_pseudogene	KNOWN	None	None	None	None	40218436	40219979	-1	None	None
9	ZNF484	ENSG00000127081	ENST00000375495	protein_coding	KNOWN	CCDS35066	23385	2559	852	95608351	95640290	-1	None	BA526D8.4, FLJ33884
9	ZNF484	ENSG00000127081	ENST00000332591	protein_coding	KNOWN	CCDS35067	23385	2451	816	95608351	95640304	-1	None	BA526D8.4, FLJ33884
9	ZNF484	ENSG00000127081	ENST00000395506	protein_coding	KNOWN	CCDS59136	23385	2565	854	95608324	95640218	-1	None	BA526D8.4, FLJ33884
9	ZNF484	ENSG00000127081	ENST00000395505	protein_coding	KNOWN	CCDS35067	23385	2451	816	95607874	95618600	-1	None	BA526D8.4, FLJ33884
19	CEACAM8	ENSG00000124469	ENST00000244336	protein_coding	KNOWN	CCDS12610	1820	1050	349	43084393	43099082	-1	CGM6	CD66b
19	CEACAM8	ENSG00000124469	ENST00000599005	protein_coding	PUTATIVE	None	1820	156	51	43087237	43099207	-1	CGM6	CD66b
20	HAR1B	ENSG00000231133	ENST00000447910	processed_transcript	KNOWN	None	33118	None	None	61727150	61733631	-1	None	HAR1R, NCRNA00065, LINC00065
Y	HSFY1	ENSG00000172468	ENST00000307393	protein_coding	KNOWN	CCDS35475	18568	1206	401	20708557	20710478	1	HSFY	HSF2L
Y	HSFY1	ENSG00000172468	ENST00000309834	protein_coding	KNOWN	CCDS14790	18568	612	203	20708577	20750849	1	HSFY	HSF2L
Y	HSFY1	ENSG00000172468	ENST00000338876	nonsense_mediated_decay	KNOWN	None	18568	645	214	20708577	20750849	1	HSFY	HSF2L
Y	HSFY1	ENSG00000172468	ENST00000382856	protein_coding	KNOWN	None	18568	645	214	20708606	20713351	1	HSFY	HSF2L
1	MYOM3	ENSG00000142661	ENST00000338909	protein_coding	NOVEL	None	26679	993	330	24382525	24393069	-1	None	FLJ35961
1	MYOM3	ENSG00000142661	ENST00000374434	protein_coding	NOVEL	CCDS41281	26679	4314	1437	24382527	24438665	-1	None	FLJ35961
1	MYOM3	ENSG00000142661	ENST00000448831	processed_transcript	KNOWN	None	26679	None	None	24382586	24410622	-1	None	FLJ35961
1	MYOM3	ENSG00000142661	ENST00000475306	processed_transcript	KNOWN	None	26679	None	None	24408039	24434929	-1	None	FLJ35961
1	MYOM3	ENSG00000142661	ENST00000330966	protein_coding	KNOWN	None	26679	4323	1440	24382531	24438665	-1	None	FLJ35961
1	MYOM3	ENSG00000142661	ENST00000329601	protein_coding	KNOWN	None	26679	3645	1214	24392276	24438665	-1	None	FLJ35961
12	DDX51	ENSG00000185163	ENST00000397333	protein_coding	KNOWN	CCDS41865	20082	2001	666	132621139	132628880	-1	None	None
12	DDX51	ENSG00000185163	ENST00000462829	retained_intron	KNOWN	None	20082	None	None	132621980	132624518	-1	None	None
12	DDX51	ENSG00000185163	ENST00000541489	retained_intron	KNOWN	None	20082	None	None	132623658	132625366	-1	None	None
12	DDX51	ENSG00000185163	ENST00000329073	retained_intron	KNOWN	None	20082	None	None	132624400	132628184	-1	None	None
12	DDX51	ENSG00000185163	ENST00000545991	retained_intron	KNOWN	None	20082	None	None	132624967	132627425	-1	None	None
12	DDX51	ENSG00000185163	ENST00000546058	retained_intron	KNOWN	None	20082	None	None	132625551	132626918	-1	None	None
22	IFT27	ENSG00000100360	ENST00000340630	protein_coding	KNOWN	CCDS13932	18626	558	185	37154246	37172197	-1	RABL4	RAYL
22	IFT27	ENSG00000100360	ENST00000495987	processed_transcript	KNOWN	None	18626	None	None	37154255	37156951	-1	RABL4	RAYL
22	IFT27	ENSG00000100360	ENST00000474616	processed_transcript	KNOWN	None	18626	None	None	37154255	37157146	-1	RABL4	RAYL
22	IFT27	ENSG00000100360	ENST00000495555	retained_intron	KNOWN	None	18626	None	None	37154255	37162498	-1	RABL4	RAYL
22	IFT27	ENSG00000100360	ENST00000415653	nonsense_mediated_decay	KNOWN	None	18626	388	128	37154255	37163863	-1	RABL4	RAYL
22	IFT27	ENSG00000100360	ENST00000471809	retained_intron	KNOWN	None	18626	None	None	37154255	37172169	-1	RABL4	RAYL
22	IFT27	ENSG00000100360	ENST00000417951	protein_coding	NOVEL	None	18626	550	182	37158977	37172147	-1	RABL4	RAYL
22	IFT27	ENSG00000100360	ENST00000430701	protein_coding	KNOWN	None	18626	349	115	37159963	37172169	-1	RABL4	RAYL
22	IFT27	ENSG00000100360	ENST00000440696	protein_coding	KNOWN	None	18626	152	49	37160040	37164598	-1	RABL4	RAYL
22	IFT27	ENSG00000100360	ENST00000465023	retained_intron	KNOWN	None	18626	None	None	37163107	37171743	-1	RABL4	RAYL
22	IFT27	ENSG00000100360	ENST00000476548	processed_transcript	KNOWN	None	18626	None	None	37168447	37172300	-1	RABL4	RAYL
22	IFT27	ENSG00000100360	ENST00000433985	protein_coding	KNOWN	CCDS54523	18626	561	186	37154247	37172172	-1	RABL4	RAYL
22	IFT27	ENSG00000100360	ENST00000453009	protein_coding	KNOWN	None	18626	438	145	37154247	37164074	-1	RABL4	RAYL
5	PARP8	ENSG00000151883	ENST00000503790	processed_transcript	KNOWN	None	26124	None	None	49961733	50073960	1	None	FLJ21308, pART16
5	PARP8	ENSG00000151883	ENST00000505697	protein_coding	NOVEL	CCDS3954	26124	2565	854	49961733	50137902	1	None	FLJ21308, pART16
5	PARP8	ENSG00000151883	ENST00000511363	processed_transcript	KNOWN	None	26124	None	None	49961733	50138176	1	None	FLJ21308, pART16
5	PARP8	ENSG00000151883	ENST00000507812	nonsense_mediated_decay	KNOWN	None	26124	150	49	49961735	50057721	1	None	FLJ21308, pART16
5	PARP8	ENSG00000151883	ENST00000503888	nonsense_mediated_decay	KNOWN	None	26124	138	45	49961807	50057736	1	None	FLJ21308, pART16
5	PARP8	ENSG00000151883	ENST00000510303	nonsense_mediated_decay	KNOWN	None	26124	276	91	49961824	50057736	1	None	FLJ21308, pART16
5	PARP8	ENSG00000151883	ENST00000502524	protein_coding	NOVEL	None	26124	232	76	49962208	50055524	1	None	FLJ21308, pART16
5	PARP8	ENSG00000151883	ENST00000515175	protein_coding	NOVEL	None	26124	192	63	49962522	50073948	1	None	FLJ21308, pART16
5	PARP8	ENSG00000151883	ENST00000513414	processed_transcript	PUTATIVE	None	26124	None	None	49962595	49963962	1	None	FLJ21308, pART16
5	PARP8	ENSG00000151883	ENST00000510040	retained_intron	KNOWN	None	26124	None	None	49962653	49965351	1	None	FLJ21308, pART16
5	PARP8	ENSG00000151883	ENST00000281631	protein_coding	KNOWN	CCDS3954	26124	2565	854	49962772	50142356	1	None	FLJ21308, pART16
5	PARP8	ENSG00000151883	ENST00000513738	protein_coding	NOVEL	None	26124	402	133	49962801	50040662	1	None	FLJ21308, pART16
5	PARP8	ENSG00000151883	ENST00000503665	protein_coding	KNOWN	None	26124	174	57	49962801	50040866	1	None	FLJ21308, pART16
5	PARP8	ENSG00000151883	ENST00000503707	nonsense_mediated_decay	KNOWN	None	26124	291	96	49962801	50059076	1	None	FLJ21308, pART16
5	PARP8	ENSG00000151883	ENST00000514067	protein_coding	KNOWN	CCDS54849	26124	2439	812	49962813	50138175	1	None	FLJ21308, pART16
5	PARP8	ENSG00000151883	ENST00000503046	protein_coding	NOVEL	None	26124	349	115	49962815	50056200	1	None	FLJ21308, pART16
5	PARP8	ENSG00000151883	ENST00000503193	nonsense_mediated_decay	KNOWN	None	26124	174	57	49962838	50059095	1	None	FLJ21308, pART16
5	PARP8	ENSG00000151883	ENST00000515166	nonsense_mediated_decay	KNOWN	None	26124	762	253	49962923	50138127	1	None	FLJ21308, pART16
5	PARP8	ENSG00000151883	ENST00000505554	protein_coding	KNOWN	None	26124	2502	833	49963391	50139208	1	None	FLJ21308, pART16
5	PARP8	ENSG00000151883	ENST00000505180	processed_transcript	KNOWN	None	26124	None	None	49963718	50057734	1	None	FLJ21308, pART16
5	PARP8	ENSG00000151883	ENST00000503561	processed_transcript	KNOWN	None	26124	None	None	49963727	50138176	1	None	FLJ21308, pART16
5	PARP8	ENSG00000151883	ENST00000503750	protein_coding	KNOWN	CCDS54849	26124	2439	812	49961733	50142356	1	None	FLJ21308, pART16
5	PARP8	ENSG00000151883	ENST00000514342	protein_coding	KNOWN	None	26124	1485	494	49961733	50129856	1	None	FLJ21308, pART16
12	ANO2	ENSG00000047617	ENST00000536751	processed_transcript	PUTATIVE	None	1183	None	None	5641035	5672503	-1	C12orf3, TMEM16B	None
12	ANO2	ENSG00000047617	ENST00000356134	protein_coding	KNOWN	None	1183	3000	999	5671820	6055398	-1	C12orf3, TMEM16B	None
12	ANO2	ENSG00000047617	ENST00000541874	processed_transcript	KNOWN	None	1183	None	None	5717895	5724461	-1	C12orf3, TMEM16B	None
12	ANO2	ENSG00000047617	ENST00000545860	protein_coding	PUTATIVE	None	1183	610	202	5724350	5849134	-1	C12orf3, TMEM16B	None
12	ANO2	ENSG00000047617	ENST00000542326	processed_transcript	PUTATIVE	None	1183	None	None	5744443	5842346	-1	C12orf3, TMEM16B	None
12	ANO2	ENSG00000047617	ENST00000538154	processed_transcript	KNOWN	None	1183	None	None	5744479	5850289	-1	C12orf3, TMEM16B	None
12	ANO2	ENSG00000047617	ENST00000540543	processed_transcript	PUTATIVE	None	1183	None	None	5841680	5850277	-1	C12orf3, TMEM16B	None
12	ANO2	ENSG00000047617	ENST00000544988	processed_transcript	KNOWN	None	1183	None	None	5936971	5979602	-1	C12orf3, TMEM16B	None
12	ANO2	ENSG00000047617	ENST00000541487	processed_transcript	KNOWN	None	1183	None	None	5963214	5990972	-1	C12orf3, TMEM16B	None
12	ANO2	ENSG00000047617	ENST00000327087	protein_coding	KNOWN	CCDS44807	1183	2997	998	5671817	6055398	-1	C12orf3, TMEM16B	None
12	ANO2	ENSG00000047617	ENST00000546188	protein_coding	KNOWN	None	1183	3000	999	5671820	6055398	-1	C12orf3, TMEM16B	None
16	SLC9A5	ENSG00000135740	ENST00000564704	retained_intron	KNOWN	None	11078	None	None	67271586	67306093	1	None	NHE5
16	SLC9A5	ENSG00000135740	ENST00000566345	protein_coding	PUTATIVE	None	11078	515	170	67280818	67293845	1	None	NHE5
16	SLC9A5	ENSG00000135740	ENST00000564812	nonsense_mediated_decay	KNOWN	None	11078	528	175	67282775	67305961	1	None	NHE5
16	SLC9A5	ENSG00000135740	ENST00000299798	protein_coding	KNOWN	CCDS42178	11078	2691	896	67282853	67306093	1	None	NHE5
16	SLC9A5	ENSG00000135740	ENST00000563723	retained_intron	KNOWN	None	11078	None	None	67282880	67306093	1	None	NHE5
16	SLC9A5	ENSG00000135740	ENST00000561472	processed_transcript	KNOWN	None	11078	None	None	67282882	67290381	1	None	NHE5
16	SLC9A5	ENSG00000135740	ENST00000566638	retained_intron	KNOWN	None	11078	None	None	67282981	67299051	1	None	NHE5
16	SLC9A5	ENSG00000135740	ENST00000567247	protein_coding	NOVEL	None	11078	535	177	67286639	67299009	1	None	NHE5
16	SLC9A5	ENSG00000135740	ENST00000566626	protein_coding	PUTATIVE	None	11078	819	272	67286712	67304883	1	None	NHE5
7	C7orf69	ENSG00000136275	ENST00000258776	protein_coding	NOVEL	CCDS43581	21911	369	122	47834889	47859428	1	None	FLJ21075
7	C7orf69	ENSG00000136275	ENST00000418326	protein_coding	PUTATIVE	None	21911	312	103	47835022	47859445	1	None	FLJ21075
17	MIF4GD	ENSG00000125457	ENST00000325102	protein_coding	KNOWN	CCDS56044	24030	669	222	73262309	73267299	-1	MIFD	AD023, MGC45027
17	MIF4GD	ENSG00000125457	ENST00000245551	protein_coding	KNOWN	CCDS11719	24030	771	256	73262314	73267254	-1	MIFD	AD023, MGC45027
17	MIF4GD	ENSG00000125457	ENST00000579297	protein_coding	KNOWN	CCDS58598	24030	792	263	73262328	73267308	-1	MIFD	AD023, MGC45027
17	MIF4GD	ENSG00000125457	ENST00000577542	protein_coding	KNOWN	CCDS58598	24030	792	263	73262345	73267236	-1	MIFD	AD023, MGC45027
17	MIF4GD	ENSG00000125457	ENST00000580571	protein_coding	NOVEL	None	24030	513	170	73262516	73267308	-1	MIFD	AD023, MGC45027
17	MIF4GD	ENSG00000125457	ENST00000579119	protein_coding	NOVEL	None	24030	756	251	73262753	73266308	-1	MIFD	AD023, MGC45027
17	MIF4GD	ENSG00000125457	ENST00000578305	protein_coding	PUTATIVE	None	24030	126	41	73262762	73267281	-1	MIFD	AD023, MGC45027
17	MIF4GD	ENSG00000125457	ENST00000580717	protein_coding	KNOWN	None	24030	614	203	73262876	73267214	-1	MIFD	AD023, MGC45027
17	MIF4GD	ENSG00000125457	ENST00000579612	protein_coding	NOVEL	None	24030	509	168	73263014	73267251	-1	MIFD	AD023, MGC45027
17	MIF4GD	ENSG00000125457	ENST00000577240	retained_intron	KNOWN	None	24030	None	None	73263671	73266326	-1	MIFD	AD023, MGC45027
17	MIF4GD	ENSG00000125457	ENST00000579194	protein_coding	KNOWN	None	24030	466	154	73263832	73266700	-1	MIFD	AD023, MGC45027
17	MIF4GD	ENSG00000125457	ENST00000581777	protein_coding	KNOWN	None	24030	270	89	73263905	73266702	-1	MIFD	AD023, MGC45027
17	MIF4GD	ENSG00000125457	ENST00000580099	retained_intron	KNOWN	None	24030	None	None	73264019	73266258	-1	MIFD	AD023, MGC45027
11	RNH1	ENSG00000023191	ENST00000534797	protein_coding	KNOWN	CCDS7697	10074	1386	461	494512	503570	-1	RNH	RAI
11	RNH1	ENSG00000023191	ENST00000397615	protein_coding	KNOWN	CCDS7697	10074	1386	461	494515	506800	-1	RNH	RAI
11	RNH1	ENSG00000023191	ENST00000397604	protein_coding	KNOWN	CCDS7697	10074	1386	461	494515	507253	-1	RNH	RAI
11	RNH1	ENSG00000023191	ENST00000525522	retained_intron	KNOWN	None	10074	None	None	494516	505881	-1	RNH	RAI
11	RNH1	ENSG00000023191	ENST00000525701	nonsense_mediated_decay	KNOWN	None	10074	108	35	494523	507257	-1	RNH	RAI
11	RNH1	ENSG00000023191	ENST00000529768	protein_coding	NOVEL	None	10074	858	285	494544	498929	-1	RNH	RAI
11	RNH1	ENSG00000023191	ENST00000533410	protein_coding	KNOWN	CCDS7697	10074	1386	461	494546	507218	-1	RNH	RAI
11	RNH1	ENSG00000023191	ENST00000438658	protein_coding	KNOWN	CCDS7697	10074	1386	461	494548	506785	-1	RNH	RAI
11	RNH1	ENSG00000023191	ENST00000354420	protein_coding	KNOWN	CCDS7697	10074	1386	461	494552	507221	-1	RNH	RAI
11	RNH1	ENSG00000023191	ENST00000356187	protein_coding	KNOWN	CCDS7697	10074	1386	461	494561	507300	-1	RNH	RAI
11	RNH1	ENSG00000023191	ENST00000524464	nonsense_mediated_decay	KNOWN	None	10074	234	77	495008	507227	-1	RNH	RAI
11	RNH1	ENSG00000023191	ENST00000529115	nonsense_mediated_decay	KNOWN	None	10074	507	168	498788	507264	-1	RNH	RAI
11	RNH1	ENSG00000023191	ENST00000527485	protein_coding	KNOWN	None	10074	598	198	499031	506796	-1	RNH	RAI
11	RNH1	ENSG00000023191	ENST00000529368	protein_coding	KNOWN	None	10074	582	193	499047	504552	-1	RNH	RAI
11	RNH1	ENSG00000023191	ENST00000529306	protein_coding	KNOWN	None	10074	567	188	499062	506759	-1	RNH	RAI
11	RNH1	ENSG00000023191	ENST00000524780	retained_intron	KNOWN	None	10074	None	None	499400	507212	-1	RNH	RAI
11	RNH1	ENSG00000023191	ENST00000531149	protein_coding	PUTATIVE	None	10074	543	180	499501	507259	-1	RNH	RAI
11	RNH1	ENSG00000023191	ENST00000531223	retained_intron	KNOWN	None	10074	None	None	499677	502215	-1	RNH	RAI
11	RNH1	ENSG00000023191	ENST00000528713	retained_intron	KNOWN	None	10074	None	None	499897	507195	-1	RNH	RAI
11	RNH1	ENSG00000023191	ENST00000532055	protein_coding	KNOWN	None	10074	121	39	500635	506316	-1	RNH	RAI
11	RNH1	ENSG00000023191	ENST00000533592	processed_transcript	KNOWN	None	10074	None	None	500847	503183	-1	RNH	RAI
11	RNH1	ENSG00000023191	ENST00000531540	protein_coding	KNOWN	None	10074	26	7	502137	506339	-1	RNH	RAI
11	RNH1	ENSG00000023191	ENST00000526295	processed_transcript	KNOWN	None	10074	None	None	502214	506356	-1	RNH	RAI
11	RNH1	ENSG00000023191	ENST00000397614	protein_coding	KNOWN	CCDS7697	10074	1386	461	494513	506821	-1	RNH	RAI
11	BARX2	ENSG00000043039	ENST00000281437	protein_coding	KNOWN	CCDS8481	956	840	279	129245835	129322171	1	None	None
11	BARX2	ENSG00000043039	ENST00000605151	retained_intron	KNOWN	None	956	None	None	129306069	129308216	1	None	None
11	BARX2	ENSG00000043039	ENST00000526127	protein_coding	PUTATIVE	None	956	405	134	129306069	129321683	1	None	None
11	BARX2	ENSG00000043039	ENST00000531946	protein_coding	PUTATIVE	None	956	474	157	129311976	129321549	1	None	None
20	JPH2	ENSG00000149596	ENST00000372980	protein_coding	KNOWN	CCDS13325	14202	2091	696	42740335	42816218	-1	None	JP-2
20	JPH2	ENSG00000149596	ENST00000342272	protein_coding	KNOWN	CCDS13326	14202	390	129	42805457	42815733	-1	None	JP-2
7	HOXA-AS2	ENSG00000253552	ENST00000518088	antisense	KNOWN	None	43745	None	None	27147396	27161792	1	None	None
7	HOXA-AS2	ENSG00000253552	ENST00000522193	antisense	KNOWN	None	43745	None	None	27153555	27161818	1	None	None
7	HOXA-AS2	ENSG00000253552	ENST00000517635	antisense	KNOWN	None	43745	None	None	27154967	27162996	1	None	None
7	HOXA-AS2	ENSG00000253552	ENST00000518046	antisense	KNOWN	None	43745	None	None	27155024	27161792	1	None	None
7	HOXA-AS2	ENSG00000253552	ENST00000593438	antisense	KNOWN	None	43745	None	None	27155655	27156283	1	None	None
7	HOXA-AS2	ENSG00000253552	ENST00000523364	antisense	KNOWN	None	43745	None	None	27160556	27162269	1	None	None
7	HOXA-AS2	ENSG00000253552	ENST00000517550	antisense	KNOWN	None	43745	None	None	27161536	27168379	1	None	None
7	HOXA-AS2	ENSG00000253552	ENST00000517641	antisense	KNOWN	None	43745	None	None	27162062	27163437	1	None	None
7	HOXA-AS2	ENSG00000253552	ENST00000521159	antisense	KNOWN	None	43745	None	None	27162167	27173921	1	None	None
7	HOXA-AS2	ENSG00000253552	ENST00000521687	antisense	KNOWN	None	43745	None	None	27162195	27168312	1	None	None
7	HOXA-AS2	ENSG00000253552	ENST00000524048	antisense	KNOWN	None	43745	None	None	27162787	27163886	1	None	None
5	RNU6-480P	ENSG00000207060	ENST00000384332	snRNA	KNOWN	None	47443	None	None	50351187	50351293	-1	None	None
5	None	ENSG00000222945	ENST00000411013	miRNA	NOVEL	None	None	None	None	50357303	50357391	-1	None	None
5	RNU6-1296P	ENSG00000206606	ENST00000383879	snRNA	KNOWN	None	48259	None	None	50463375	50463481	-1	None	None
11	TAGLN	ENSG00000149591	ENST00000392951	protein_coding	KNOWN	CCDS8381	11553	606	201	117070037	117075273	1	None	SM22, WS3-10, TAGLN1, SMCC, DKFZp686P11128
11	TAGLN	ENSG00000149591	ENST00000525531	protein_coding	PUTATIVE	CCDS8381	11553	606	201	117070098	117075257	1	None	SM22, WS3-10, TAGLN1, SMCC, DKFZp686P11128
11	TAGLN	ENSG00000149591	ENST00000278968	protein_coding	PUTATIVE	CCDS8381	11553	606	201	117070110	117075498	1	None	SM22, WS3-10, TAGLN1, SMCC, DKFZp686P11128
11	TAGLN	ENSG00000149591	ENST00000529792	protein_coding	KNOWN	None	11553	275	90	117070971	117074117	1	None	SM22, WS3-10, TAGLN1, SMCC, DKFZp686P11128
11	TAGLN	ENSG00000149591	ENST00000533863	retained_intron	KNOWN	None	11553	None	None	117071882	117075476	1	None	SM22, WS3-10, TAGLN1, SMCC, DKFZp686P11128
11	TAGLN	ENSG00000149591	ENST00000530649	protein_coding	KNOWN	CCDS8381	11553	606	201	117072466	117075492	1	None	SM22, WS3-10, TAGLN1, SMCC, DKFZp686P11128
11	TAGLN	ENSG00000149591	ENST00000532870	protein_coding	KNOWN	CCDS8381	11553	606	201	117072589	117075494	1	None	SM22, WS3-10, TAGLN1, SMCC, DKFZp686P11128
11	TAGLN	ENSG00000149591	ENST00000529622	protein_coding	PUTATIVE	None	11553	455	150	117073860	117075121	1	None	SM22, WS3-10, TAGLN1, SMCC, DKFZp686P11128
5	None	ENSG00000249829	ENST00000511420	processed_pseudogene	KNOWN	None	None	None	None	78487372	78487570	1	None	None
7	SRI	ENSG00000075142	ENST00000265729	protein_coding	KNOWN	CCDS5612	11292	597	198	87834433	87849394	-1	None	None
7	SRI	ENSG00000075142	ENST00000419179	protein_coding	NOVEL	None	11292	477	158	87834973	87849351	-1	None	None
7	SRI	ENSG00000075142	ENST00000472930	retained_intron	KNOWN	None	11292	None	None	87835601	87839808	-1	None	None
7	SRI	ENSG00000075142	ENST00000490437	protein_coding	PUTATIVE	None	11292	468	155	87835753	87856291	-1	None	None
7	SRI	ENSG00000075142	ENST00000394641	protein_coding	KNOWN	CCDS47638	11292	552	183	87835771	87856308	-1	None	None
7	SRI	ENSG00000075142	ENST00000431660	protein_coding	PUTATIVE	CCDS59063	11292	543	180	87836991	87856291	-1	None	None
7	SRI	ENSG00000075142	ENST00000457606	nonsense_mediated_decay	KNOWN	None	11292	219	72	87837804	87849380	-1	None	None
7	SRI	ENSG00000075142	ENST00000486860	retained_intron	KNOWN	None	11292	None	None	87838175	87849375	-1	None	None
7	SRI	ENSG00000075142	ENST00000488015	retained_intron	KNOWN	None	11292	None	None	87839870	87849353	-1	None	None
7	SRI	ENSG00000075142	ENST00000489079	retained_intron	KNOWN	None	11292	None	None	87839883	87856268	-1	None	None
5	None	ENSG00000240627	ENST00000468490	processed_pseudogene	KNOWN	None	None	None	None	50571087	50571568	1	None	None
5	None	ENSG00000206592	ENST00000383865	snoRNA	NOVEL	None	None	None	None	78516765	78516896	1	None	None
5	None	ENSG00000238702	ENST00000459537	snoRNA	NOVEL	None	None	None	None	50617817	50617919	1	None	None
X	NDP	ENSG00000124479	ENST00000378062	protein_coding	KNOWN	CCDS14262	7678	402	133	43808022	43832750	-1	EVR2	norrin
X	NDP	ENSG00000124479	ENST00000470584	processed_transcript	KNOWN	None	7678	None	None	43808928	43832632	-1	EVR2	norrin
5	None	ENSG00000250330	ENST00000510759	processed_pseudogene	KNOWN	None	None	None	None	78525727	78526411	1	None	None
2	MTERFD2	ENSG00000122085	ENST00000496878	retained_intron	KNOWN	None	28785	None	None	242014469	242035088	-1	None	MGC61716
2	MTERFD2	ENSG00000122085	ENST00000464344	processed_transcript	KNOWN	None	28785	None	None	242014715	242041747	-1	None	MGC61716
2	MTERFD2	ENSG00000122085	ENST00000241527	nonsense_mediated_decay	KNOWN	CCDS2544	28785	1146	381	242026509	242041710	-1	None	MGC61716
2	MTERFD2	ENSG00000122085	ENST00000488567	processed_transcript	KNOWN	None	28785	None	None	242026619	242035485	-1	None	MGC61716
2	MTERFD2	ENSG00000122085	ENST00000455202	processed_transcript	KNOWN	None	28785	None	None	242026640	242041746	-1	None	MGC61716
2	MTERFD2	ENSG00000122085	ENST00000480298	processed_transcript	KNOWN	None	28785	None	None	242028320	242041726	-1	None	MGC61716
2	MTERFD2	ENSG00000122085	ENST00000476564	retained_intron	KNOWN	None	28785	None	None	242028456	242041735	-1	None	MGC61716
2	MTERFD2	ENSG00000122085	ENST00000449133	protein_coding	PUTATIVE	None	28785	324	107	242028584	242033791	-1	None	MGC61716
2	MTERFD2	ENSG00000122085	ENST00000495694	protein_coding	PUTATIVE	None	28785	750	249	242028640	242041724	-1	None	MGC61716
2	MTERFD2	ENSG00000122085	ENST00000479205	processed_transcript	KNOWN	None	28785	None	None	242028682	242033847	-1	None	MGC61716
2	MTERFD2	ENSG00000122085	ENST00000493169	processed_transcript	KNOWN	None	28785	None	None	242028688	242041747	-1	None	MGC61716
2	MTERFD2	ENSG00000122085	ENST00000414146	protein_coding	PUTATIVE	None	28785	457	151	242029421	242038841	-1	None	MGC61716
2	MTERFD2	ENSG00000122085	ENST00000401626	protein_coding	PUTATIVE	None	28785	547	181	242033821	242041702	-1	None	MGC61716
2	MTERFD2	ENSG00000122085	ENST00000391980	protein_coding	KNOWN	CCDS2544	28785	1146	381	242034981	242041747	-1	None	MGC61716
2	MTERFD2	ENSG00000122085	ENST00000406593	protein_coding	PUTATIVE	None	28785	582	193	242035284	242041714	-1	None	MGC61716
2	MTERFD2	ENSG00000122085	ENST00000439144	protein_coding	NOVEL	None	28785	563	186	242035555	242041708	-1	None	MGC61716
2	MTERFD2	ENSG00000122085	ENST00000424798	protein_coding	PUTATIVE	None	28785	774	257	242036016	242039309	-1	None	MGC61716
2	MTERFD2	ENSG00000122085	ENST00000460915	retained_intron	KNOWN	None	28785	None	None	242036341	242041736	-1	None	MGC61716
2	MTERFD2	ENSG00000122085	ENST00000407095	protein_coding	PUTATIVE	None	28785	759	252	242036602	242041726	-1	None	MGC61716
2	MTERFD2	ENSG00000122085	ENST00000475860	retained_intron	KNOWN	None	28785	None	None	242038583	242041729	-1	None	MGC61716
2	MTERFD2	ENSG00000122085	ENST00000434791	protein_coding	PUTATIVE	None	28785	454	150	242038814	242041607	-1	None	MGC61716
5	None	ENSG00000259663	ENST00000601500	antisense	KNOWN	None	None	None	None	50668570	50675331	-1	None	None
5	None	ENSG00000259663	ENST00000559112	antisense	KNOWN	None	None	None	None	50672902	50679166	-1	None	None
5	None	ENSG00000259663	ENST00000558403	antisense	KNOWN	None	None	None	None	50674409	50675509	-1	None	None
20	TRMT6	ENSG00000089195	ENST00000473131	processed_transcript	KNOWN	None	20900	None	None	5917881	5931161	-1	None	GCD10, MGC5029, Gcd10p, CGI-09
20	TRMT6	ENSG00000089195	ENST00000466974	processed_transcript	KNOWN	None	20900	None	None	5918479	5931123	-1	None	GCD10, MGC5029, Gcd10p, CGI-09
20	TRMT6	ENSG00000089195	ENST00000203001	protein_coding	KNOWN	CCDS13093	20900	1494	497	5918479	5931182	-1	None	GCD10, MGC5029, Gcd10p, CGI-09
20	TRMT6	ENSG00000089195	ENST00000493972	processed_transcript	KNOWN	None	20900	None	None	5923321	5931160	-1	None	GCD10, MGC5029, Gcd10p, CGI-09
20	TRMT6	ENSG00000089195	ENST00000453074	protein_coding	KNOWN	None	20900	984	327	5919091	5931051	-1	None	GCD10, MGC5029, Gcd10p, CGI-09
5	None	ENSG00000213757	ENST00000474167	processed_pseudogene	KNOWN	None	None	None	None	78579955	78580741	-1	None	None
6	TMEM14B	ENSG00000137210	ENST00000379542	protein_coding	KNOWN	CCDS4515	21384	345	114	10747992	10757214	1	None	MGC1223
6	TMEM14B	ENSG00000137210	ENST00000473166	nonsense_mediated_decay	KNOWN	None	21384	108	35	10747992	10829419	1	None	MGC1223
6	TMEM14B	ENSG00000137210	ENST00000463448	nonsense_mediated_decay	KNOWN	None	21384	108	35	10747992	10852986	1	None	MGC1223
6	TMEM14B	ENSG00000137210	ENST00000460341	nonsense_mediated_decay	KNOWN	None	21384	108	35	10747994	10838850	1	None	MGC1223
6	TMEM14B	ENSG00000137210	ENST00000480194	processed_transcript	KNOWN	None	21384	None	None	10748006	10756848	1	None	MGC1223
6	TMEM14B	ENSG00000137210	ENST00000491103	processed_transcript	KNOWN	None	21384	None	None	10748006	10757191	1	None	MGC1223
6	TMEM14B	ENSG00000137210	ENST00000473807	nonsense_mediated_decay	KNOWN	None	21384	108	35	10748034	10802769	1	None	MGC1223
6	TMEM14B	ENSG00000137210	ENST00000492297	processed_transcript	KNOWN	None	21384	None	None	10748038	10750269	1	None	MGC1223
6	TMEM14B	ENSG00000137210	ENST00000461342	protein_coding	PUTATIVE	None	21384	306	101	10748038	10755712	1	None	MGC1223
6	TMEM14B	ENSG00000137210	ENST00000475942	protein_coding	PUTATIVE	None	21384	408	135	10748038	10756043	1	None	MGC1223
6	TMEM14B	ENSG00000137210	ENST00000379530	protein_coding	NOVEL	CCDS47372	21384	243	80	10748044	10757180	1	None	MGC1223
6	TMEM14B	ENSG00000137210	ENST00000463100	nonsense_mediated_decay	KNOWN	None	21384	108	35	10748044	10829398	1	None	MGC1223
6	TMEM14B	ENSG00000137210	ENST00000473276	protein_coding	PUTATIVE	None	21384	162	53	10748050	10757206	1	None	MGC1223
6	TMEM14B	ENSG00000137210	ENST00000481240	protein_coding	PUTATIVE	None	21384	354	117	10748064	10759917	1	None	MGC1223
6	TMEM14B	ENSG00000137210	ENST00000467317	protein_coding	PUTATIVE	None	21384	456	151	10748064	10760007	1	None	MGC1223
6	TMEM14B	ENSG00000137210	ENST00000478732	nonsense_mediated_decay	KNOWN	None	21384	144	47	10749898	10802643	1	None	MGC1223
6	TMEM14B	ENSG00000137210	ENST00000486421	processed_transcript	KNOWN	None	21384	None	None	10750197	10756930	1	None	MGC1223
6	TMEM14B	ENSG00000137210	ENST00000467229	nonsense_mediated_decay	KNOWN	None	21384	178	58	10751403	10829438	1	None	MGC1223
6	TMEM14B	ENSG00000137210	ENST00000489137	processed_transcript	KNOWN	None	21384	None	None	10770310	10829436	1	None	MGC1223
X	TSPAN6	ENSG00000000003	ENST00000373020	protein_coding	KNOWN	CCDS14470	11858	738	245	99883667	99891803	-1	TM4SF6	T245, TSPAN-6
X	TSPAN6	ENSG00000000003	ENST00000496771	processed_transcript	KNOWN	None	11858	None	None	99887538	99891686	-1	TM4SF6	T245, TSPAN-6
X	TSPAN6	ENSG00000000003	ENST00000494424	processed_transcript	KNOWN	None	11858	None	None	99888439	99894988	-1	TM4SF6	T245, TSPAN-6
21	COL6A2	ENSG00000142173	ENST00000300527	protein_coding	KNOWN	CCDS13728	2212	3060	1019	47518011	47552763	1	None	None
21	COL6A2	ENSG00000142173	ENST00000436769	protein_coding	KNOWN	None	2212	541	179	47518711	47532318	1	None	None
21	COL6A2	ENSG00000142173	ENST00000409416	protein_coding	KNOWN	CCDS13730	2212	2487	828	47531328	47549722	1	None	None
21	COL6A2	ENSG00000142173	ENST00000397763	protein_coding	KNOWN	CCDS13729	2212	2757	918	47531364	47549722	1	None	None
21	COL6A2	ENSG00000142173	ENST00000460886	processed_transcript	PUTATIVE	None	2212	None	None	47532332	47532863	1	None	None
21	COL6A2	ENSG00000142173	ENST00000485591	retained_intron	KNOWN	None	2212	None	None	47533531	47537435	1	None	None
21	COL6A2	ENSG00000142173	ENST00000413758	protein_coding	NOVEL	None	2212	750	249	47540474	47545808	1	None	None
21	COL6A2	ENSG00000142173	ENST00000357838	protein_coding	KNOWN	CCDS13729	2212	2757	918	47518033	47549719	1	None	None
21	COL6A2	ENSG00000142173	ENST00000310645	protein_coding	KNOWN	CCDS13730	2212	2487	828	47518033	47549719	1	None	None
16	SPSB3	ENSG00000162032	ENST00000566339	protein_coding	KNOWN	CCDS32365	30629	1068	355	1826713	1832821	-1	C16orf31	SSB-3
16	SPSB3	ENSG00000162032	ENST00000564709	retained_intron	KNOWN	None	30629	None	None	1826715	1832506	-1	C16orf31	SSB-3
16	SPSB3	ENSG00000162032	ENST00000569380	retained_intron	KNOWN	None	30629	None	None	1826719	1832553	-1	C16orf31	SSB-3
16	SPSB3	ENSG00000162032	ENST00000567868	retained_intron	KNOWN	None	30629	None	None	1826719	1832558	-1	C16orf31	SSB-3
16	SPSB3	ENSG00000162032	ENST00000563741	retained_intron	KNOWN	None	30629	None	None	1826723	1832595	-1	C16orf31	SSB-3
16	SPSB3	ENSG00000162032	ENST00000301717	protein_coding	KNOWN	CCDS32365	30629	1068	355	1826750	1831517	-1	C16orf31	SSB-3
16	SPSB3	ENSG00000162032	ENST00000563668	retained_intron	KNOWN	None	30629	None	None	1826796	1831510	-1	C16orf31	SSB-3
16	SPSB3	ENSG00000162032	ENST00000563705	retained_intron	KNOWN	None	30629	None	None	1827858	1831906	-1	C16orf31	SSB-3
16	SPSB3	ENSG00000162032	ENST00000569769	protein_coding	NOVEL	None	30629	504	167	1828038	1843701	-1	C16orf31	SSB-3
16	SPSB3	ENSG00000162032	ENST00000565550	retained_intron	KNOWN	None	30629	None	None	1828065	1832548	-1	C16orf31	SSB-3
16	SPSB3	ENSG00000162032	ENST00000564070	retained_intron	KNOWN	None	30629	None	None	1828171	1832755	-1	C16orf31	SSB-3
16	SPSB3	ENSG00000162032	ENST00000568416	retained_intron	KNOWN	None	30629	None	None	1831043	1832568	-1	C16orf31	SSB-3
18	ANKRD12	ENSG00000101745	ENST00000585234	protein_coding	KNOWN	None	29135	134	43	9136226	9195595	1	None	KIAA0874, FLJ20053, GAC-1
18	ANKRD12	ENSG00000101745	ENST00000262126	protein_coding	KNOWN	CCDS11843	29135	6189	2062	9136775	9283764	1	None	KIAA0874, FLJ20053, GAC-1
18	ANKRD12	ENSG00000101745	ENST00000577992	protein_coding	KNOWN	None	29135	38	11	9136794	9182468	1	None	KIAA0874, FLJ20053, GAC-1
18	ANKRD12	ENSG00000101745	ENST00000540578	processed_transcript	KNOWN	None	29135	None	None	9136803	9235818	1	None	KIAA0874, FLJ20053, GAC-1
18	ANKRD12	ENSG00000101745	ENST00000581635	nonsense_mediated_decay	KNOWN	None	29135	249	82	9136837	9208741	1	None	KIAA0874, FLJ20053, GAC-1
18	ANKRD12	ENSG00000101745	ENST00000400020	protein_coding	KNOWN	CCDS42411	29135	6120	2039	9137561	9283757	1	None	KIAA0874, FLJ20053, GAC-1
18	ANKRD12	ENSG00000101745	ENST00000581758	processed_transcript	KNOWN	None	29135	None	None	9182380	9211619	1	None	KIAA0874, FLJ20053, GAC-1
18	ANKRD12	ENSG00000101745	ENST00000546007	protein_coding	NOVEL	None	29135	931	309	9182384	9254271	1	None	KIAA0874, FLJ20053, GAC-1
18	ANKRD12	ENSG00000101745	ENST00000359158	nonsense_mediated_decay	KNOWN	None	29135	292	96	9216778	9256109	1	None	KIAA0874, FLJ20053, GAC-1
18	ANKRD12	ENSG00000101745	ENST00000383440	protein_coding	KNOWN	CCDS42411	29135	6120	2039	9136758	9285206	1	None	KIAA0874, FLJ20053, GAC-1
HSCHR6_MHC_DBB	SAPCD1	ENSG00000227074	ENST00000427166	protein_coding	KNOWN	None	13938	444	147	31712761	31714813	1	C6orf26	NG23
HSCHR6_MHC_DBB	SAPCD1	ENSG00000227074	ENST00000443153	protein_coding	KNOWN	None	13938	537	178	31712958	31714813	1	C6orf26	NG23
HSCHR6_MHC_DBB	SAPCD1	ENSG00000227074	ENST00000469460	retained_intron	KNOWN	None	13938	None	None	31713582	31714261	1	C6orf26	NG23
HSCHR6_MHC_DBB	SAPCD1	ENSG00000227074	ENST00000548987	protein_coding	KNOWN	None	13938	447	148	31712958	31714807	1	C6orf26	NG23
6	C6orf58	ENSG00000184530	ENST00000498112	processed_transcript	KNOWN	None	20960	None	None	127840600	127899852	1	None	None
6	C6orf58	ENSG00000184530	ENST00000329722	protein_coding	KNOWN	CCDS34533	20960	993	330	127898319	127912962	1	None	None
5	HMGB1P47	ENSG00000249338	ENST00000511281	processed_pseudogene	KNOWN	None	39280	None	None	50705451	50706039	-1	None	None
7	CLDN3	ENSG00000165215	ENST00000395145	protein_coding	KNOWN	CCDS5559	2045	663	220	73183328	73184600	-1	C7orf1, CPETR2	RVP1, CPE-R2, HRVP1
3	COLQ	ENSG00000206561	ENST00000383788	protein_coding	KNOWN	CCDS33709	2226	1368	455	15491654	15563258	-1	None	EAD
3	COLQ	ENSG00000206561	ENST00000603752	processed_transcript	PUTATIVE	None	2226	None	None	15491673	15492386	-1	None	EAD
3	COLQ	ENSG00000206561	ENST00000383781	protein_coding	KNOWN	CCDS46768	2226	1338	445	15491990	15540379	-1	None	EAD
3	COLQ	ENSG00000206561	ENST00000603808	protein_coding	NOVEL	None	2226	1371	456	15492980	15563258	-1	None	EAD
3	COLQ	ENSG00000206561	ENST00000383786	protein_coding	KNOWN	CCDS43057	2226	1266	421	15493046	15563243	-1	None	EAD
3	COLQ	ENSG00000206561	ENST00000605797	protein_coding	KNOWN	None	2226	582	193	15507909	15540055	-1	None	EAD
3	COLQ	ENSG00000206561	ENST00000604401	retained_intron	KNOWN	None	2226	None	None	15516735	15519093	-1	None	EAD
3	COLQ	ENSG00000206561	ENST00000603469	processed_transcript	PUTATIVE	None	2226	None	None	15520097	15520881	-1	None	EAD
3	COLQ	ENSG00000206561	ENST00000383787	protein_coding	KNOWN	None	2226	1341	446	15491640	15563258	-1	None	EAD
3	COLQ	ENSG00000206561	ENST00000435459	protein_coding	KNOWN	None	2226	1338	445	15491640	15540094	-1	None	EAD
3	COLQ	ENSG00000206561	ENST00000383785	protein_coding	KNOWN	None	2226	876	291	15491640	15563258	-1	None	EAD
1	NME7	ENSG00000143156	ENST00000530739	processed_transcript	KNOWN	None	20461	None	None	169101769	169159948	-1	None	FLJ37194, NM23-H7
1	NME7	ENSG00000143156	ENST00000493481	processed_transcript	KNOWN	None	20461	None	None	169101769	169199970	-1	None	FLJ37194, NM23-H7
1	NME7	ENSG00000143156	ENST00000472647	protein_coding	KNOWN	CCDS44274	20461	1023	340	169101769	169337184	-1	None	FLJ37194, NM23-H7
1	NME7	ENSG00000143156	ENST00000367811	protein_coding	KNOWN	CCDS1277	20461	1131	376	169101769	169337205	-1	None	FLJ37194, NM23-H7
1	NME7	ENSG00000143156	ENST00000525440	nonsense_mediated_decay	KNOWN	None	20461	1020	339	169101775	169337184	-1	None	FLJ37194, NM23-H7
1	NME7	ENSG00000143156	ENST00000483228	processed_transcript	KNOWN	None	20461	None	None	169138759	169279309	-1	None	FLJ37194, NM23-H7
1	NME7	ENSG00000143156	ENST00000528517	nonsense_mediated_decay	KNOWN	None	20461	771	256	169199952	169336968	-1	None	FLJ37194, NM23-H7
1	NME7	ENSG00000143156	ENST00000480478	processed_transcript	KNOWN	None	20461	None	None	169199990	169337035	-1	None	FLJ37194, NM23-H7
1	NME7	ENSG00000143156	ENST00000524967	retained_intron	KNOWN	None	20461	None	None	169253059	169337010	-1	None	FLJ37194, NM23-H7
1	NME7	ENSG00000143156	ENST00000469474	processed_transcript	KNOWN	None	20461	None	None	169256443	169293688	-1	None	FLJ37194, NM23-H7
1	NME7	ENSG00000143156	ENST00000485609	processed_transcript	KNOWN	None	20461	None	None	169267794	169337186	-1	None	FLJ37194, NM23-H7
1	NME7	ENSG00000143156	ENST00000472984	retained_intron	KNOWN	None	20461	None	None	169267816	169272690	-1	None	FLJ37194, NM23-H7
1	NME7	ENSG00000143156	ENST00000491225	processed_transcript	KNOWN	None	20461	None	None	169267843	169337035	-1	None	FLJ37194, NM23-H7
1	NME7	ENSG00000143156	ENST00000527460	retained_intron	KNOWN	None	20461	None	None	169272338	169337020	-1	None	FLJ37194, NM23-H7
6	None	ENSG00000236823	ENST00000434562	lincRNA	KNOWN	None	None	None	None	160320218	160323542	1	None	None
8	KIFC2	ENSG00000167702	ENST00000301332	protein_coding	KNOWN	CCDS6427	29530	2517	838	145691426	145699585	1	None	None
8	KIFC2	ENSG00000167702	ENST00000529644	retained_intron	KNOWN	None	29530	None	None	145692644	145693822	1	None	None
8	KIFC2	ENSG00000167702	ENST00000533114	retained_intron	KNOWN	None	29530	None	None	145692862	145693809	1	None	None
8	KIFC2	ENSG00000167702	ENST00000529864	retained_intron	KNOWN	None	29530	None	None	145694008	145694763	1	None	None
8	KIFC2	ENSG00000167702	ENST00000531425	retained_intron	KNOWN	None	29530	None	None	145694929	145698559	1	None	None
8	KIFC2	ENSG00000167702	ENST00000531423	processed_transcript	KNOWN	None	29530	None	None	145695965	145698191	1	None	None
8	KIFC2	ENSG00000167702	ENST00000301331	protein_coding	KNOWN	None	29530	900	299	145692938	145699498	1	None	None
6	SMPDL3A	ENSG00000172594	ENST00000368440	protein_coding	KNOWN	CCDS5128	17389	1362	453	123110315	123130865	1	None	FLJ20177, ASM3A, ASML3a, yR36GH4.1
6	SMPDL3A	ENSG00000172594	ENST00000487215	processed_transcript	KNOWN	None	17389	None	None	123110437	123118490	1	None	FLJ20177, ASM3A, ASML3a, yR36GH4.1
6	SMPDL3A	ENSG00000172594	ENST00000539041	protein_coding	KNOWN	None	17389	969	322	123110471	123130862	1	None	FLJ20177, ASM3A, ASML3a, yR36GH4.1
17	PHF12	ENSG00000109118	ENST00000332830	protein_coding	KNOWN	CCDS32598	20816	3015	1004	27232268	27278789	-1	None	PF1, KIAA1523
17	PHF12	ENSG00000109118	ENST00000577226	protein_coding	PUTATIVE	None	20816	2550	849	27232271	27278325	-1	None	PF1, KIAA1523
17	PHF12	ENSG00000109118	ENST00000589176	nonsense_mediated_decay	KNOWN	None	20816	241	79	27233123	27244426	-1	None	PF1, KIAA1523
17	PHF12	ENSG00000109118	ENST00000582436	retained_intron	KNOWN	None	20816	None	None	27236588	27277972	-1	None	PF1, KIAA1523
17	PHF12	ENSG00000109118	ENST00000582655	processed_transcript	KNOWN	None	20816	None	None	27237073	27253218	-1	None	PF1, KIAA1523
17	PHF12	ENSG00000109118	ENST00000378879	nonsense_mediated_decay	KNOWN	None	20816	2118	705	27237092	27278375	-1	None	PF1, KIAA1523
17	PHF12	ENSG00000109118	ENST00000579036	protein_coding	NOVEL	None	20816	820	272	27237244	27240112	-1	None	PF1, KIAA1523
17	PHF12	ENSG00000109118	ENST00000579563	processed_transcript	KNOWN	None	20816	None	None	27238151	27239804	-1	None	PF1, KIAA1523
17	PHF12	ENSG00000109118	ENST00000268756	protein_coding	KNOWN	CCDS11247	20816	2115	704	27239162	27278508	-1	None	PF1, KIAA1523
17	PHF12	ENSG00000109118	ENST00000583524	nonsense_mediated_decay	KNOWN	None	20816	390	129	27240131	27278789	-1	None	PF1, KIAA1523
17	PHF12	ENSG00000109118	ENST00000584822	nonsense_mediated_decay	KNOWN	None	20816	164	53	27240220	27250965	-1	None	PF1, KIAA1523
17	PHF12	ENSG00000109118	ENST00000578900	protein_coding	PUTATIVE	None	20816	459	152	27248813	27255308	-1	None	PF1, KIAA1523
17	PHF12	ENSG00000109118	ENST00000483934	processed_transcript	KNOWN	None	20816	None	None	27250927	27277922	-1	None	PF1, KIAA1523
17	PHF12	ENSG00000109118	ENST00000584685	protein_coding	PUTATIVE	None	20816	647	214	27251067	27278624	-1	None	PF1, KIAA1523
17	PHF12	ENSG00000109118	ENST00000582853	protein_coding	PUTATIVE	None	20816	276	91	27251096	27276875	-1	None	PF1, KIAA1523
17	PHF12	ENSG00000109118	ENST00000584236	protein_coding	PUTATIVE	None	20816	90	29	27251282	27277700	-1	None	PF1, KIAA1523
17	PHF12	ENSG00000109118	ENST00000583747	protein_coding	PUTATIVE	None	20816	352	116	27254032	27277680	-1	None	PF1, KIAA1523
HSCHR6_MHC_COX	GPANK1	ENSG00000236011	ENST00000211377	protein_coding	KNOWN	None	13920	1071	356	31616421	31621476	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_COX	GPANK1	ENSG00000236011	ENST00000447705	protein_coding	KNOWN	None	13920	1071	356	31617268	31620583	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_COX	GPANK1	ENSG00000236011	ENST00000427527	protein_coding	KNOWN	None	13920	1071	356	31617268	31620823	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_COX	GPANK1	ENSG00000236011	ENST00000456191	protein_coding	KNOWN	None	13920	1071	356	31617268	31621043	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_COX	GPANK1	ENSG00000236011	ENST00000433857	protein_coding	KNOWN	None	13920	1071	356	31617268	31621054	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_COX	GPANK1	ENSG00000236011	ENST00000426953	protein_coding	KNOWN	None	13920	596	197	31619076	31620990	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_COX	GPANK1	ENSG00000236011	ENST00000450924	protein_coding	KNOWN	None	13920	494	163	31619178	31620635	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_COX	GPANK1	ENSG00000236011	ENST00000424399	protein_coding	KNOWN	None	13920	456	151	31619216	31620383	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_COX	GPANK1	ENSG00000236011	ENST00000440952	protein_coding	KNOWN	None	13920	321	106	31619351	31621027	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_COX	GPANK1	ENSG00000236011	ENST00000440374	protein_coding	KNOWN	None	13920	269	88	31619403	31620378	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_APD	BTNL2	ENSG00000226127	ENST00000452747	protein_coding	KNOWN	None	1142	636	211	32371619	32375053	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_APD	BTNL2	ENSG00000226127	ENST00000445928	protein_coding	KNOWN	None	1142	777	258	32380486	32385878	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_APD	BTNL2	ENSG00000226127	ENST00000425482	protein_coding	KNOWN	None	1142	326	107	32383785	32385878	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_APD	BTNL2	ENSG00000226127	ENST00000546948	protein_coding	KNOWN	None	1142	1167	388	32372719	32385871	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_APD	BTNL2	ENSG00000226127	ENST00000550327	protein_coding	KNOWN	None	1142	1368	455	32373486	32385871	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_APD	BTNL2	ENSG00000226127	ENST00000549560	protein_coding	KNOWN	None	1142	738	245	32373486	32385871	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_APD	BTNL2	ENSG00000226127	ENST00000549631	protein_coding	KNOWN	None	1142	816	271	32373486	32385871	-1	None	HSBLMHC1, BTL-II
22	None	ENSG00000197210	ENST00000420508	processed_transcript	KNOWN	None	None	None	None	21468896	21478740	-1	None	None
7	CLDN4	ENSG00000189143	ENST00000466411	processed_transcript	KNOWN	None	2046	None	None	73213872	73243696	1	CPETR, CPETR1	CPE-R, WBSCR8, hCPE-R
7	CLDN4	ENSG00000189143	ENST00000435050	protein_coding	KNOWN	CCDS5560	2046	630	209	73242074	73247014	1	CPETR, CPETR1	CPE-R, WBSCR8, hCPE-R
7	CLDN4	ENSG00000189143	ENST00000476494	processed_transcript	PUTATIVE	None	2046	None	None	73242075	73243280	1	CPETR, CPETR1	CPE-R, WBSCR8, hCPE-R
7	CLDN4	ENSG00000189143	ENST00000431918	protein_coding	KNOWN	CCDS5560	2046	630	209	73242504	73247013	1	CPETR, CPETR1	CPE-R, WBSCR8, hCPE-R
7	CLDN4	ENSG00000189143	ENST00000340958	protein_coding	KNOWN	CCDS5560	2046	630	209	73245193	73247014	1	CPETR, CPETR1	CPE-R, WBSCR8, hCPE-R
7	None	ENSG00000205584	ENST00000503899	unprocessed_pseudogene	KNOWN	None	None	None	None	72440345	72442258	1	None	None
19	ZNF17	ENSG00000186272	ENST00000599867	processed_transcript	KNOWN	None	12958	None	None	57922531	57931191	1	None	HPF3, KOX10, KIAA1947, FLJ40864, FLJ46058, FLJ46615
19	ZNF17	ENSG00000186272	ENST00000307658	protein_coding	PUTATIVE	None	12958	1995	664	57922532	57933307	1	None	HPF3, KOX10, KIAA1947, FLJ40864, FLJ46058, FLJ46615
19	ZNF17	ENSG00000186272	ENST00000595162	nonsense_mediated_decay	KNOWN	None	12958	156	51	57922542	57931113	1	None	HPF3, KOX10, KIAA1947, FLJ40864, FLJ46058, FLJ46615
19	ZNF17	ENSG00000186272	ENST00000601808	protein_coding	KNOWN	CCDS42636	12958	1989	662	57922547	57933171	1	None	HPF3, KOX10, KIAA1947, FLJ40864, FLJ46058, FLJ46615
19	ZNF17	ENSG00000186272	ENST00000595206	processed_transcript	KNOWN	None	12958	None	None	57922549	57931268	1	None	HPF3, KOX10, KIAA1947, FLJ40864, FLJ46058, FLJ46615
19	ZNF17	ENSG00000186272	ENST00000597350	protein_coding	PUTATIVE	None	12958	148	48	57924741	57929406	1	None	HPF3, KOX10, KIAA1947, FLJ40864, FLJ46058, FLJ46615
19	ZNF17	ENSG00000186272	ENST00000602050	retained_intron	KNOWN	None	12958	None	None	57930426	57933175	1	None	HPF3, KOX10, KIAA1947, FLJ40864, FLJ46058, FLJ46615
7	None	ENSG00000201862	ENST00000364992	misc_RNA	KNOWN	None	None	None	None	72453891	72453991	-1	None	None
7	SUN3	ENSG00000164744	ENST00000461953	retained_intron	KNOWN	None	22429	None	None	48026745	48028560	-1	SUNC1	MGC33329
7	SUN3	ENSG00000164744	ENST00000473723	processed_transcript	KNOWN	None	22429	None	None	48026745	48039778	-1	SUNC1	MGC33329
7	SUN3	ENSG00000164744	ENST00000453071	protein_coding	NOVEL	None	22429	845	280	48026745	48056905	-1	SUNC1	MGC33329
7	SUN3	ENSG00000164744	ENST00000297325	protein_coding	KNOWN	CCDS34636	22429	1074	357	48026745	48068695	-1	SUNC1	MGC33329
7	SUN3	ENSG00000164744	ENST00000412371	protein_coding	PUTATIVE	None	22429	513	170	48026748	48045608	-1	SUNC1	MGC33329
7	SUN3	ENSG00000164744	ENST00000395572	protein_coding	KNOWN	CCDS34636	22429	1074	357	48026750	48068716	-1	SUNC1	MGC33329
7	SUN3	ENSG00000164744	ENST00000449896	nonsense_mediated_decay	KNOWN	None	22429	270	89	48026753	48068645	-1	SUNC1	MGC33329
7	SUN3	ENSG00000164744	ENST00000438771	protein_coding	KNOWN	None	22429	810	269	48026927	48048660	-1	SUNC1	MGC33329
7	SUN3	ENSG00000164744	ENST00000453192	protein_coding	KNOWN	None	22429	1038	345	48026753	48068645	-1	SUNC1	MGC33329
7	SUN3	ENSG00000164744	ENST00000412142	protein_coding	KNOWN	None	22429	810	269	48026748	48068716	-1	SUNC1	MGC33329
22	None	ENSG00000224688	ENST00000420708	processed_pseudogene	KNOWN	None	None	None	None	21495913	21496660	-1	None	None
6	None	ENSG00000221434	ENST00000408507	miRNA	NOVEL	None	None	None	None	117766553	117766604	1	None	None
6	None	ENSG00000226181	ENST00000415736	antisense	KNOWN	None	None	None	None	117772293	117774688	-1	None	None
6	RNU6-253P	ENSG00000207461	ENST00000384730	snRNA	KNOWN	None	47216	None	None	117778897	117779001	-1	None	None
6	NEPNP	ENSG00000218233	ENST00000404786	unitary_pseudogene	KNOWN	None	33184	None	None	117954869	117966250	1	None	NPN, NEPN
11	TIMM8B	ENSG00000150779	ENST00000504148	protein_coding	KNOWN	None	11818	252	83	111955524	111957519	-1	None	TIM8B, DDP2, FLJ21744, MGC102866, MGC117373
11	TIMM8B	ENSG00000150779	ENST00000509359	nonsense_mediated_decay	KNOWN	None	11818	99	32	111955524	111957522	-1	None	TIM8B, DDP2, FLJ21744, MGC102866, MGC117373
11	TIMM8B	ENSG00000150779	ENST00000507614	processed_transcript	KNOWN	None	11818	None	None	111955873	111957446	-1	None	TIM8B, DDP2, FLJ21744, MGC102866, MGC117373
11	TIMM8B	ENSG00000150779	ENST00000541231	protein_coding	KNOWN	CCDS8357	11818	297	98	111955541	111957522	-1	None	TIM8B, DDP2, FLJ21744, MGC102866, MGC117373
6	None	ENSG00000230202	ENST00000443998	processed_pseudogene	KNOWN	None	None	None	None	118320138	118320611	1	None	None
6	FTH1P15	ENSG00000218980	ENST00000406984	processed_pseudogene	KNOWN	None	3985	None	None	56869318	56869597	1	FTHL15	None
16	None	ENSG00000260229	ENST00000567149	processed_pseudogene	KNOWN	None	None	None	None	81509628	81510124	-1	None	None
20	OSER1	ENSG00000132823	ENST00000372970	protein_coding	KNOWN	CCDS13327	16105	879	292	42825136	42838716	-1	C20orf111	dJ1183I21.1, HSPC207, Perit1, Osr1
20	OSER1	ENSG00000132823	ENST00000255174	protein_coding	KNOWN	CCDS13327	16105	879	292	42825136	42839431	-1	C20orf111	dJ1183I21.1, HSPC207, Perit1, Osr1
15	GOLGA8I	ENSG00000153666	ENST00000339078	retained_intron	KNOWN	None	26660	None	None	23255242	23262743	1	GOLGA9P, GOLGA8IP	FLJ35785
15	GOLGA8I	ENSG00000153666	ENST00000450802	protein_coding	KNOWN	None	26660	1899	632	23255242	23268823	1	GOLGA9P, GOLGA8IP	FLJ35785
17	NXPH3	ENSG00000182575	ENST00000328741	protein_coding	KNOWN	CCDS11550	8077	759	252	47653220	47657720	1	None	NPH3
17	NXPH3	ENSG00000182575	ENST00000513748	protein_coding	PUTATIVE	None	8077	1065	354	47653484	47659652	1	None	NPH3
17	NXPH3	ENSG00000182575	ENST00000570453	retained_intron	KNOWN	None	8077	None	None	47655996	47661189	1	None	NPH3
7	ZKSCAN1	ENSG00000106261	ENST00000324306	protein_coding	KNOWN	CCDS34698	13101	1692	563	99613204	99639312	1	ZNF139, ZNF36	KOX18, PHZ-37, ZSCAN33
7	ZKSCAN1	ENSG00000106261	ENST00000482979	retained_intron	KNOWN	None	13101	None	None	99613222	99622583	1	ZNF139, ZNF36	KOX18, PHZ-37, ZSCAN33
7	ZKSCAN1	ENSG00000106261	ENST00000426572	protein_coding	PUTATIVE	None	13101	1584	527	99613222	99631894	1	ZNF139, ZNF36	KOX18, PHZ-37, ZSCAN33
7	ZKSCAN1	ENSG00000106261	ENST00000432317	protein_coding	KNOWN	None	13101	376	124	99614445	99621505	1	ZNF139, ZNF36	KOX18, PHZ-37, ZSCAN33
7	ZKSCAN1	ENSG00000106261	ENST00000535170	protein_coding	KNOWN	None	13101	1053	350	99613226	99634338	1	ZNF139, ZNF36	KOX18, PHZ-37, ZSCAN33
6	HCG4	ENSG00000176998	ENST00000418983	unprocessed_pseudogene	KNOWN	None	21241	None	None	29759530	29760527	-1	HCG4P10	HCGIV-10, HCGIV.9
6	HCG4	ENSG00000176998	ENST00000320533	pseudogene	KNOWN	None	21241	None	None	29758816	29760850	-1	HCG4P10	HCGIV-10, HCGIV.9
7	None	ENSG00000229018	ENST00000506558	unprocessed_pseudogene	KNOWN	None	None	None	None	72476064	72491629	1	None	None
7	None	ENSG00000229018	ENST00000412694	unprocessed_pseudogene	KNOWN	None	None	None	None	72476682	72483812	1	None	None
7	None	ENSG00000229018	ENST00000541319	unprocessed_pseudogene	KNOWN	None	None	None	None	72476670	72555749	1	None	None
7	None	ENSG00000229018	ENST00000425039	unprocessed_pseudogene	KNOWN	None	None	None	None	72476626	72491632	1	None	None
7	None	ENSG00000229018	ENST00000436017	unprocessed_pseudogene	KNOWN	None	None	None	None	72510018	72520245	1	None	None
16	None	ENSG00000261218	ENST00000565674	lincRNA	KNOWN	None	None	None	None	81771853	81772886	1	None	None
16	None	ENSG00000261218	ENST00000566191	lincRNA	KNOWN	None	None	None	None	81772679	81774192	1	None	None
16	None	ENSG00000261218	ENST00000565272	lincRNA	KNOWN	None	None	None	None	81772687	81800567	1	None	None
16	None	ENSG00000261218	ENST00000563954	lincRNA	KNOWN	None	None	None	None	81772708	81800377	1	None	None
16	None	ENSG00000261218	ENST00000562180	lincRNA	KNOWN	None	None	None	None	81772908	81774192	1	None	None
16	None	ENSG00000261218	ENST00000568131	lincRNA	KNOWN	None	None	None	None	81772942	81800492	1	None	None
16	None	ENSG00000261218	ENST00000569731	lincRNA	KNOWN	None	None	None	None	81773231	81801311	1	None	None
6	AIRN	ENSG00000268257	ENST00000601203	antisense	KNOWN	None	34515	None	None	160424323	160428696	-1	None	AIR, NCRNA00088, IGF2RAS, IGF2R-AS1
6	None	ENSG00000226803	ENST00000592500	antisense	KNOWN	None	None	None	None	56979692	57035847	-1	None	None
6	None	ENSG00000226803	ENST00000585792	antisense	KNOWN	None	None	None	None	56979699	57035847	-1	None	None
6	None	ENSG00000226803	ENST00000586432	antisense	KNOWN	None	None	None	None	56979699	57035847	-1	None	None
6	None	ENSG00000226803	ENST00000586668	antisense	KNOWN	None	None	None	None	56979699	57035847	-1	None	None
6	None	ENSG00000226803	ENST00000587815	antisense	KNOWN	None	None	None	None	56979709	57035847	-1	None	None
6	None	ENSG00000226803	ENST00000416069	antisense	KNOWN	None	None	None	None	56979709	57037220	-1	None	None
6	None	ENSG00000226803	ENST00000591553	antisense	KNOWN	None	None	None	None	56979714	57035847	-1	None	None
6	None	ENSG00000226803	ENST00000588811	antisense	KNOWN	None	None	None	None	56979722	57035847	-1	None	None
6	None	ENSG00000226803	ENST00000586053	antisense	KNOWN	None	None	None	None	56979724	57035847	-1	None	None
6	None	ENSG00000226803	ENST00000592038	antisense	KNOWN	None	None	None	None	56979975	57035847	-1	None	None
6	None	ENSG00000226803	ENST00000589549	antisense	KNOWN	None	None	None	None	57012630	57035847	-1	None	None
6	None	ENSG00000226803	ENST00000589263	antisense	KNOWN	None	None	None	None	57015312	57035847	-1	None	None
6	None	ENSG00000226803	ENST00000586466	antisense	KNOWN	None	None	None	None	57015603	57035847	-1	None	None
6	None	ENSG00000226803	ENST00000592785	antisense	KNOWN	None	None	None	None	57029679	57035847	-1	None	None
6	None	ENSG00000226803	ENST00000588819	antisense	KNOWN	None	None	None	None	57029679	57035847	-1	None	None
6	None	ENSG00000226803	ENST00000590164	antisense	KNOWN	None	None	None	None	57029804	57035847	-1	None	None
6	None	ENSG00000226803	ENST00000589312	antisense	KNOWN	None	None	None	None	57029975	57035847	-1	None	None
6	None	ENSG00000226803	ENST00000589394	antisense	KNOWN	None	None	None	None	57030017	57035847	-1	None	None
6	None	ENSG00000226803	ENST00000586234	antisense	KNOWN	None	None	None	None	57034991	57035847	-1	None	None
6	None	ENSG00000226803	ENST00000585414	antisense	KNOWN	None	None	None	None	57035803	57039034	-1	None	None
6	None	ENSG00000213073	ENST00000569097	processed_transcript	KNOWN	None	None	None	None	160514114	160517244	1	None	None
6	None	ENSG00000213073	ENST00000366273	transcribed_processed_pseudogene	KNOWN	None	None	None	None	160514455	160515025	1	None	None
10	FAM24A	ENSG00000203795	ENST00000368894	protein_coding	KNOWN	CCDS31304	23470	318	105	124670217	124672627	1	None	AC073585.4
5	None	ENSG00000213755	ENST00000482584	processed_pseudogene	KNOWN	None	None	None	None	78806257	78806742	1	None	None
5	None	ENSG00000243160	ENST00000486157	processed_pseudogene	KNOWN	None	None	None	None	78825125	78825916	1	None	None
5	None	ENSG00000207391	ENST00000384661	misc_RNA	NOVEL	None	None	None	None	78830676	78830777	1	None	None
3	PFKFB4	ENSG00000114268	ENST00000232375	protein_coding	KNOWN	CCDS2771	8875	1410	469	48555117	48594323	-1	None	None
3	PFKFB4	ENSG00000114268	ENST00000416568	protein_coding	NOVEL	None	8875	1389	462	48557107	48594323	-1	None	None
3	PFKFB4	ENSG00000114268	ENST00000417753	nonsense_mediated_decay	KNOWN	None	8875	117	38	48557107	48594323	-1	None	None
3	PFKFB4	ENSG00000114268	ENST00000445633	nonsense_mediated_decay	KNOWN	None	8875	243	80	48557107	48594323	-1	None	None
3	PFKFB4	ENSG00000114268	ENST00000383734	protein_coding	NOVEL	None	8875	1305	434	48557107	48594323	-1	None	None
3	PFKFB4	ENSG00000114268	ENST00000490115	processed_transcript	KNOWN	None	8875	None	None	48557107	48594356	-1	None	None
3	PFKFB4	ENSG00000114268	ENST00000478516	retained_intron	KNOWN	None	8875	None	None	48561193	48563505	-1	None	None
3	PFKFB4	ENSG00000114268	ENST00000452531	protein_coding	PUTATIVE	None	8875	954	317	48572945	48598605	-1	None	None
3	PFKFB4	ENSG00000114268	ENST00000468162	processed_transcript	KNOWN	None	8875	None	None	48573878	48587328	-1	None	None
3	PFKFB4	ENSG00000114268	ENST00000412035	protein_coding	KNOWN	None	8875	527	174	48575934	48594450	-1	None	None
3	PFKFB4	ENSG00000114268	ENST00000471890	retained_intron	KNOWN	None	8875	None	None	48576844	48587578	-1	None	None
3	PFKFB4	ENSG00000114268	ENST00000496767	processed_transcript	KNOWN	None	8875	None	None	48577130	48599405	-1	None	None
3	PFKFB4	ENSG00000114268	ENST00000422701	protein_coding	PUTATIVE	None	8875	387	128	48581013	48597287	-1	None	None
3	PFKFB4	ENSG00000114268	ENST00000490404	processed_transcript	KNOWN	None	8875	None	None	48585312	48587668	-1	None	None
3	PFKFB4	ENSG00000114268	ENST00000467176	processed_transcript	KNOWN	None	8875	None	None	48587297	48599448	-1	None	None
3	PFKFB4	ENSG00000114268	ENST00000536104	protein_coding	KNOWN	None	8875	1377	458	48556928	48598562	-1	None	None
3	PFKFB4	ENSG00000114268	ENST00000541519	protein_coding	KNOWN	None	8875	1308	435	48557107	48594323	-1	None	None
3	PFKFB4	ENSG00000114268	ENST00000545984	protein_coding	KNOWN	None	8875	429	142	48562408	48594256	-1	None	None
6	None	ENSG00000270949	ENST00000604521	lincRNA	KNOWN	None	None	None	None	160529406	160532536	1	None	None
5	None	ENSG00000250258	ENST00000421252	antisense	KNOWN	None	None	None	None	79070171	79112013	-1	None	None
6	None	ENSG00000216516	ENST00000402250	processed_pseudogene	KNOWN	None	None	None	None	160584571	160584787	-1	None	None
21	NRIP1	ENSG00000180530	ENST00000400199	protein_coding	KNOWN	CCDS13568	8001	3477	1158	16333556	16437255	-1	None	RIP140
21	NRIP1	ENSG00000180530	ENST00000400202	protein_coding	KNOWN	CCDS13568	8001	3477	1158	16333556	16437321	-1	None	RIP140
21	NRIP1	ENSG00000180530	ENST00000411932	protein_coding	KNOWN	None	8001	197	64	16340317	16374689	-1	None	RIP140
21	NRIP1	ENSG00000180530	ENST00000318948	protein_coding	KNOWN	CCDS13568	8001	3477	1158	16333556	16437126	-1	None	RIP140
4	RUFY3	ENSG00000018189	ENST00000514898	protein_coding	KNOWN	None	30285	294	97	71569921	71570947	1	None	RIPx, KIAA0871, Singar1
4	RUFY3	ENSG00000018189	ENST00000503876	protein_coding	PUTATIVE	None	30285	465	154	71570141	71634339	1	None	RIPx, KIAA0871, Singar1
4	RUFY3	ENSG00000018189	ENST00000417478	protein_coding	KNOWN	CCDS47068	30285	1521	506	71570518	71655799	1	None	RIPx, KIAA0871, Singar1
4	RUFY3	ENSG00000018189	ENST00000381006	protein_coding	NOVEL	CCDS34001	30285	1863	620	71587712	71673032	1	None	RIPx, KIAA0871, Singar1
4	RUFY3	ENSG00000018189	ENST00000226328	protein_coding	KNOWN	CCDS3547	30285	1410	469	71587728	71659274	1	None	RIPx, KIAA0871, Singar1
4	RUFY3	ENSG00000018189	ENST00000513597	protein_coding	PUTATIVE	None	30285	605	200	71600063	71640923	1	None	RIPx, KIAA0871, Singar1
4	RUFY3	ENSG00000018189	ENST00000502653	protein_coding	NOVEL	None	30285	1704	567	71600151	71672819	1	None	RIPx, KIAA0871, Singar1
4	RUFY3	ENSG00000018189	ENST00000504805	nonsense_mediated_decay	KNOWN	None	30285	437	144	71650583	71665899	1	None	RIPx, KIAA0871, Singar1
4	RUFY3	ENSG00000018189	ENST00000512103	nonsense_mediated_decay	KNOWN	None	30285	173	56	71654656	71672588	1	None	RIPx, KIAA0871, Singar1
4	RUFY3	ENSG00000018189	ENST00000507333	processed_transcript	KNOWN	None	30285	None	None	71659593	71672533	1	None	RIPx, KIAA0871, Singar1
4	RUFY3	ENSG00000018189	ENST00000503025	retained_intron	KNOWN	None	30285	None	None	71660390	71672284	1	None	RIPx, KIAA0871, Singar1
4	RUFY3	ENSG00000018189	ENST00000512331	processed_transcript	KNOWN	None	30285	None	None	71665122	71672465	1	None	RIPx, KIAA0871, Singar1
4	RUFY3	ENSG00000018189	ENST00000515479	retained_intron	KNOWN	None	30285	None	None	71665165	71672270	1	None	RIPx, KIAA0871, Singar1
4	RUFY3	ENSG00000018189	ENST00000515442	processed_transcript	KNOWN	None	30285	None	None	71668588	71672313	1	None	RIPx, KIAA0871, Singar1
4	RUFY3	ENSG00000018189	ENST00000513593	processed_transcript	KNOWN	None	30285	None	None	71668700	71672511	1	None	RIPx, KIAA0871, Singar1
4	RUFY3	ENSG00000018189	ENST00000536664	protein_coding	KNOWN	None	30285	1362	453	71588372	71657052	1	None	RIPx, KIAA0871, Singar1
X	LAMP2	ENSG00000005893	ENST00000434600	protein_coding	KNOWN	CCDS48159	6501	1236	411	119561682	119603220	-1	None	CD107b
X	LAMP2	ENSG00000005893	ENST00000200639	protein_coding	KNOWN	CCDS14599	6501	1233	410	119564681	119603161	-1	None	CD107b
X	LAMP2	ENSG00000005893	ENST00000486593	nonsense_mediated_decay	KNOWN	None	6501	776	257	119565103	119582923	-1	None	CD107b
X	LAMP2	ENSG00000005893	ENST00000371335	protein_coding	KNOWN	CCDS14600	6501	1233	410	119570349	119603161	-1	None	CD107b
X	LAMP2	ENSG00000005893	ENST00000538785	protein_coding	KNOWN	None	6501	903	300	119561969	119603184	-1	None	CD107b
X	LAMP2	ENSG00000005893	ENST00000540603	protein_coding	KNOWN	None	6501	1092	363	119572644	119602847	-1	None	CD107b
6	None	ENSG00000230234	ENST00000419196	lincRNA	KNOWN	None	None	None	None	160693649	160697162	1	None	None
5	None	ENSG00000238254	ENST00000509131	processed_pseudogene	KNOWN	None	None	None	None	79145375	79145669	-1	None	None
11	MIR210HG	ENSG00000247095	ENST00000500447	lincRNA	KNOWN	None	39524	None	None	565660	568420	-1	None	None
11	MIR210HG	ENSG00000247095	ENST00000528245	lincRNA	KNOWN	None	39524	None	None	567083	568408	-1	None	None
11	MIR210HG	ENSG00000247095	ENST00000533920	lincRNA	KNOWN	None	39524	None	None	567144	568457	-1	None	None
11	MIR210HG	ENSG00000247095	ENST00000534540	lincRNA	KNOWN	None	39524	None	None	567526	568369	-1	None	None
5	None	ENSG00000250888	ENST00000503167	antisense	KNOWN	None	None	None	None	79232402	79263449	1	None	None
HSCHR6_MHC_MCF	RNF39	ENSG00000230332	ENST00000451425	protein_coding	KNOWN	None	18064	1065	354	30116544	30122127	-1	None	HZFw1, LIRF
HSCHR6_MHC_MCF	RNF39	ENSG00000230332	ENST00000432647	protein_coding	KNOWN	None	18064	1263	420	30116544	30122165	-1	None	HZFw1, LIRF
HSCHR6_MHC_MCF	RNF39	ENSG00000230332	ENST00000549473	protein_coding	KNOWN	None	18064	756	251	30117062	30122067	-1	None	HZFw1, LIRF
14	TRAJ36	ENSG00000211853	ENST00000390501	TR_J_gene	KNOWN	None	12066	60	19	22974096	22974155	1	None	None
5	None	ENSG00000251050	ENST00000505179	processed_pseudogene	KNOWN	None	None	None	None	79315432	79315743	1	None	None
22	CSDC2	ENSG00000172346	ENST00000306149	protein_coding	KNOWN	CCDS14019	30359	462	153	41956767	41972670	1	None	PIPPin
22	CSDC2	ENSG00000172346	ENST00000460790	protein_coding	PUTATIVE	None	30359	456	151	41968021	41973745	1	None	PIPPin
11	EFEMP2	ENSG00000172638	ENST00000527277	nonsense_mediated_decay	KNOWN	None	3219	163	53	65633912	65634551	-1	None	FBLN4, UPH1
11	EFEMP2	ENSG00000172638	ENST00000531972	nonsense_mediated_decay	KNOWN	CCDS8116	3219	1332	443	65633912	65640282	-1	None	FBLN4, UPH1
11	EFEMP2	ENSG00000172638	ENST00000526628	retained_intron	KNOWN	None	3219	None	None	65633913	65637393	-1	None	FBLN4, UPH1
11	EFEMP2	ENSG00000172638	ENST00000526911	protein_coding	PUTATIVE	None	3219	225	74	65633918	65635478	-1	None	FBLN4, UPH1
11	EFEMP2	ENSG00000172638	ENST00000531645	protein_coding	PUTATIVE	None	3219	549	182	65633918	65635887	-1	None	FBLN4, UPH1
11	EFEMP2	ENSG00000172638	ENST00000528176	protein_coding	PUTATIVE	None	3219	1311	436	65633918	65640214	-1	None	FBLN4, UPH1
11	EFEMP2	ENSG00000172638	ENST00000307998	protein_coding	KNOWN	CCDS8116	3219	1332	443	65633918	65640377	-1	None	FBLN4, UPH1
11	EFEMP2	ENSG00000172638	ENST00000524408	nonsense_mediated_decay	KNOWN	None	3219	208	68	65633919	65635377	-1	None	FBLN4, UPH1
11	EFEMP2	ENSG00000172638	ENST00000532648	processed_transcript	PUTATIVE	None	3219	None	None	65634036	65635138	-1	None	FBLN4, UPH1
11	EFEMP2	ENSG00000172638	ENST00000528409	retained_intron	KNOWN	None	3219	None	None	65634296	65635983	-1	None	FBLN4, UPH1
11	EFEMP2	ENSG00000172638	ENST00000530806	protein_coding	PUTATIVE	None	3219	230	75	65634450	65636007	-1	None	FBLN4, UPH1
11	EFEMP2	ENSG00000172638	ENST00000525392	retained_intron	KNOWN	None	3219	None	None	65635144	65635900	-1	None	FBLN4, UPH1
11	EFEMP2	ENSG00000172638	ENST00000532084	retained_intron	KNOWN	None	3219	None	None	65635357	65636983	-1	None	FBLN4, UPH1
11	EFEMP2	ENSG00000172638	ENST00000531005	retained_intron	KNOWN	None	3219	None	None	65635361	65639490	-1	None	FBLN4, UPH1
11	EFEMP2	ENSG00000172638	ENST00000527969	retained_intron	KNOWN	None	3219	None	None	65635951	65638673	-1	None	FBLN4, UPH1
11	EFEMP2	ENSG00000172638	ENST00000533347	nonsense_mediated_decay	KNOWN	None	3219	234	77	65637328	65640413	-1	None	FBLN4, UPH1
11	EFEMP2	ENSG00000172638	ENST00000526624	protein_coding	KNOWN	None	3219	607	201	65637592	65640125	-1	None	FBLN4, UPH1
11	EFEMP2	ENSG00000172638	ENST00000527378	protein_coding	KNOWN	None	3219	549	182	65637650	65641063	-1	None	FBLN4, UPH1
11	EFEMP2	ENSG00000172638	ENST00000530850	nonsense_mediated_decay	KNOWN	None	3219	177	58	65637687	65640211	-1	None	FBLN4, UPH1
11	EFEMP2	ENSG00000172638	ENST00000529870	retained_intron	KNOWN	None	3219	None	None	65638887	65640243	-1	None	FBLN4, UPH1
5	TRMT112P2	ENSG00000249778	ENST00000512910	processed_pseudogene	KNOWN	None	44021	None	None	79328994	79329125	-1	None	None
10	C10orf88	ENSG00000119965	ENST00000368891	processed_transcript	KNOWN	None	25822	None	None	124690419	124713827	-1	None	FLJ13490, Em:AC073585.5
10	C10orf88	ENSG00000119965	ENST00000481909	protein_coding	KNOWN	CCDS7632	25822	1338	445	124691024	124713919	-1	None	FLJ13490, Em:AC073585.5
10	C10orf88	ENSG00000119965	ENST00000462191	processed_transcript	KNOWN	None	25822	None	None	124691925	124692975	-1	None	FLJ13490, Em:AC073585.5
10	C10orf88	ENSG00000119965	ENST00000470158	processed_transcript	KNOWN	None	25822	None	None	124692119	124711523	-1	None	FLJ13490, Em:AC073585.5
5	None	ENSG00000249825	ENST00000503007	antisense	KNOWN	None	None	None	None	79348197	79378227	-1	None	None
5	None	ENSG00000249825	ENST00000514042	antisense	KNOWN	None	None	None	None	79362172	79379477	-1	None	None
7	None	ENSG00000225457	ENST00000441928	antisense	KNOWN	None	None	None	None	112740718	112786095	1	None	None
7	None	ENSG00000225457	ENST00000430610	antisense	KNOWN	None	None	None	None	112785071	112786385	1	None	None
19	None	ENSG00000267331	ENST00000590001	antisense	KNOWN	None	None	None	None	2329111	2355778	-1	None	None
19	None	ENSG00000267201	ENST00000587826	lincRNA	KNOWN	None	None	None	None	2458933	2462183	-1	None	None
7	None	ENSG00000270997	ENST00000605636	processed_pseudogene	KNOWN	None	None	None	None	113055744	113056377	1	None	None
19	RNU6-993P	ENSG00000252962	ENST00000517153	snRNA	KNOWN	None	47956	None	None	2503045	2503139	-1	None	None
4	None	ENSG00000239939	ENST00000476193	processed_pseudogene	KNOWN	None	None	None	None	109328999	109329734	-1	None	None
7	None	ENSG00000236580	ENST00000449443	processed_pseudogene	KNOWN	None	None	None	None	113937169	113937484	-1	None	None
3	HPS3	ENSG00000163755	ENST00000296051	protein_coding	KNOWN	CCDS3140	15597	3015	1004	148847371	148891519	1	None	SUTAL
3	HPS3	ENSG00000163755	ENST00000462030	retained_intron	KNOWN	None	15597	None	None	148847425	148871922	1	None	SUTAL
3	HPS3	ENSG00000163755	ENST00000460120	protein_coding	NOVEL	None	15597	2520	839	148847425	148890148	1	None	SUTAL
3	HPS3	ENSG00000163755	ENST00000494327	processed_transcript	PUTATIVE	None	15597	None	None	148847426	148848238	1	None	SUTAL
3	HPS3	ENSG00000163755	ENST00000486530	retained_intron	KNOWN	None	15597	None	None	148847478	148871896	1	None	SUTAL
3	HPS3	ENSG00000163755	ENST00000460822	nonsense_mediated_decay	KNOWN	None	15597	801	266	148877833	148890748	1	None	SUTAL
3	HPS3	ENSG00000163755	ENST00000478525	retained_intron	KNOWN	None	15597	None	None	148885002	148886254	1	None	SUTAL
4	EXOC7P1	ENSG00000250485	ENST00000509881	processed_pseudogene	KNOWN	None	43871	None	None	109338861	109340919	-1	None	None
12	SLC24A6	ENSG00000089060	ENST00000552014	protein_coding	KNOWN	CCDS31909	26175	1755	584	113736564	113772835	-1	SLC24A6	FLJ22233, NCKX6, NCLX
12	SLC24A6	ENSG00000089060	ENST00000552565	retained_intron	KNOWN	None	26175	None	None	113736578	113757130	-1	SLC24A6	FLJ22233, NCKX6, NCLX
12	SLC24A6	ENSG00000089060	ENST00000550672	nonsense_mediated_decay	KNOWN	None	26175	1214	403	113736582	113758683	-1	SLC24A6	FLJ22233, NCKX6, NCLX
12	SLC24A6	ENSG00000089060	ENST00000550047	protein_coding	PUTATIVE	None	26175	300	99	113736586	113746648	-1	SLC24A6	FLJ22233, NCKX6, NCLX
12	SLC24A6	ENSG00000089060	ENST00000549069	protein_coding	PUTATIVE	None	26175	432	143	113737137	113744649	-1	SLC24A6	FLJ22233, NCKX6, NCLX
12	SLC24A6	ENSG00000089060	ENST00000546737	protein_coding	KNOWN	None	26175	1587	528	113737582	113770752	-1	SLC24A6	FLJ22233, NCKX6, NCLX
12	SLC24A6	ENSG00000089060	ENST00000553238	processed_transcript	KNOWN	None	26175	None	None	113745605	113772638	-1	SLC24A6	FLJ22233, NCKX6, NCLX
12	SLC24A6	ENSG00000089060	ENST00000551230	processed_transcript	KNOWN	None	26175	None	None	113753147	113772912	-1	SLC24A6	FLJ22233, NCKX6, NCLX
12	SLC24A6	ENSG00000089060	ENST00000548477	retained_intron	KNOWN	None	26175	None	None	113757779	113772948	-1	SLC24A6	FLJ22233, NCKX6, NCLX
12	SLC24A6	ENSG00000089060	ENST00000549181	protein_coding	KNOWN	None	26175	694	230	113758136	113772946	-1	SLC24A6	FLJ22233, NCKX6, NCLX
12	SLC24A6	ENSG00000089060	ENST00000549605	nonsense_mediated_decay	KNOWN	None	26175	162	53	113758166	113772927	-1	SLC24A6	FLJ22233, NCKX6, NCLX
12	SLC24A6	ENSG00000089060	ENST00000552613	nonsense_mediated_decay	KNOWN	None	26175	162	53	113758655	113772418	-1	SLC24A6	FLJ22233, NCKX6, NCLX
12	SLC24A6	ENSG00000089060	ENST00000548186	protein_coding	KNOWN	None	26175	394	130	113758681	113772924	-1	SLC24A6	FLJ22233, NCKX6, NCLX
12	SLC24A6	ENSG00000089060	ENST00000549372	protein_coding	KNOWN	None	26175	309	102	113759001	113797298	-1	SLC24A6	FLJ22233, NCKX6, NCLX
12	SLC24A6	ENSG00000089060	ENST00000548518	processed_transcript	KNOWN	None	26175	None	None	113772477	113797271	-1	SLC24A6	FLJ22233, NCKX6, NCLX
12	SLC24A6	ENSG00000089060	ENST00000202831	protein_coding	KNOWN	CCDS31909	26175	1755	584	113736572	113772925	-1	SLC24A6	FLJ22233, NCKX6, NCLX
20	HAR1A	ENSG00000225978	ENST00000433161	processed_transcript	KNOWN	None	33117	None	None	61733557	61735738	1	None	HAR1F, NCRNA00064, LINC00064
20	HAR1A	ENSG00000225978	ENST00000459583	misc_RNA	KNOWN	None	33117	None	None	61733483	61733614	1	None	HAR1F, NCRNA00064, LINC00064
19	None	ENSG00000105694	ENST00000590044	processed_pseudogene	KNOWN	None	None	None	None	2538110	2538752	1	None	None
19	None	ENSG00000105694	ENST00000222301	processed_pseudogene	KNOWN	None	None	None	None	2538108	2538786	1	None	None
1	F3	ENSG00000117525	ENST00000334047	protein_coding	KNOWN	CCDS750	3541	888	295	94994781	95007356	-1	None	CD142
1	F3	ENSG00000117525	ENST00000370207	protein_coding	KNOWN	CCDS53345	3541	717	238	94994866	95007193	-1	None	CD142
1	F3	ENSG00000117525	ENST00000478217	processed_transcript	KNOWN	None	3541	None	None	94998553	95001720	-1	None	CD142
1	F3	ENSG00000117525	ENST00000480356	processed_transcript	KNOWN	None	3541	None	None	94998662	95007315	-1	None	CD142
9	TUBBP5	ENSG00000159247	ENST00000503395	processed_transcript	KNOWN	None	23674	None	None	141044565	141070960	1	None	None
9	TUBBP5	ENSG00000159247	ENST00000290377	processed_transcript	KNOWN	None	23674	None	None	141069437	141071716	1	None	None
9	TUBBP5	ENSG00000159247	ENST00000508529	transcribed_unprocessed_pseudogene	KNOWN	None	23674	None	None	141069497	141071821	1	None	None
19	NDUFB7	ENSG00000099795	ENST00000593353	nonsense_mediated_decay	KNOWN	None	7702	213	70	14676890	14682874	-1	None	B18, CI-B18, MGC2480
19	NDUFB7	ENSG00000099795	ENST00000215565	protein_coding	KNOWN	CCDS12314	7702	414	137	14676890	14682874	-1	None	B18, CI-B18, MGC2480
18	TXNL4A	ENSG00000141759	ENST00000269601	protein_coding	KNOWN	CCDS32852	30551	429	142	77732867	77748593	-1	TXNL4	U5-15kD, DIM1, HsT161, DIB1, SNRNP15
18	TXNL4A	ENSG00000141759	ENST00000585474	protein_coding	PUTATIVE	None	30551	216	71	77732875	77793949	-1	TXNL4	U5-15kD, DIM1, HsT161, DIB1, SNRNP15
18	TXNL4A	ENSG00000141759	ENST00000588162	protein_coding	PUTATIVE	None	30551	174	57	77733407	77748541	-1	TXNL4	U5-15kD, DIM1, HsT161, DIB1, SNRNP15
18	TXNL4A	ENSG00000141759	ENST00000592957	protein_coding	PUTATIVE	None	30551	216	71	77733513	77793891	-1	TXNL4	U5-15kD, DIM1, HsT161, DIB1, SNRNP15
18	TXNL4A	ENSG00000141759	ENST00000355491	nonsense_mediated_decay	KNOWN	None	30551	276	91	77733525	77748536	-1	TXNL4	U5-15kD, DIM1, HsT161, DIB1, SNRNP15
18	TXNL4A	ENSG00000141759	ENST00000585769	nonsense_mediated_decay	KNOWN	None	30551	165	54	77733534	77748581	-1	TXNL4	U5-15kD, DIM1, HsT161, DIB1, SNRNP15
18	TXNL4A	ENSG00000141759	ENST00000586612	processed_transcript	PUTATIVE	None	30551	None	None	77733542	77746734	-1	TXNL4	U5-15kD, DIM1, HsT161, DIB1, SNRNP15
18	TXNL4A	ENSG00000141759	ENST00000592837	protein_coding	PUTATIVE	None	30551	216	71	77733566	77737917	-1	TXNL4	U5-15kD, DIM1, HsT161, DIB1, SNRNP15
18	TXNL4A	ENSG00000141759	ENST00000591711	protein_coding	PUTATIVE	None	30551	312	103	77737331	77748537	-1	TXNL4	U5-15kD, DIM1, HsT161, DIB1, SNRNP15
18	TXNL4A	ENSG00000141759	ENST00000586825	nonsense_mediated_decay	KNOWN	None	30551	165	54	77737598	77748502	-1	TXNL4	U5-15kD, DIM1, HsT161, DIB1, SNRNP15
18	TXNL4A	ENSG00000141759	ENST00000586295	nonsense_mediated_decay	KNOWN	None	30551	261	86	77737602	77748537	-1	TXNL4	U5-15kD, DIM1, HsT161, DIB1, SNRNP15
18	TXNL4A	ENSG00000141759	ENST00000589926	processed_transcript	PUTATIVE	None	30551	None	None	77754943	77793894	-1	TXNL4	U5-15kD, DIM1, HsT161, DIB1, SNRNP15
19	RNA5SP471	ENSG00000252780	ENST00000516971	rRNA	KNOWN	None	43371	None	None	32146262	32146367	-1	RN5S471	None
6	PRIM2	ENSG00000146143	ENST00000370687	processed_transcript	KNOWN	None	9370	None	None	57179603	57191168	1	PRIM2A	None
6	PRIM2	ENSG00000146143	ENST00000274891	processed_transcript	KNOWN	None	9370	None	None	57182422	57191161	1	PRIM2A	None
6	PRIM2	ENSG00000146143	ENST00000389488	processed_transcript	KNOWN	None	9370	None	None	57182422	57513375	1	PRIM2A	None
6	PRIM2	ENSG00000146143	ENST00000419977	retained_intron	KNOWN	None	9370	None	None	57182426	57248387	1	PRIM2A	None
6	PRIM2	ENSG00000146143	ENST00000490313	processed_transcript	KNOWN	None	9370	None	None	57244745	57299990	1	PRIM2A	None
6	PRIM2	ENSG00000146143	ENST00000470638	processed_transcript	KNOWN	None	9370	None	None	57370072	57398317	1	PRIM2A	None
6	PRIM2	ENSG00000146143	ENST00000550475	processed_transcript	KNOWN	None	9370	None	None	57393096	57453414	1	PRIM2A	None
6	PRIM2	ENSG00000146143	ENST00000607273	protein_coding	KNOWN	None	9370	1041	346	57182422	57513375	1	PRIM2A	None
11	MIR210	ENSG00000199038	ENST00000362168	miRNA	KNOWN	None	31587	None	None	568089	568198	-1	MIRN210	hsa-mir-210
19	RNU6-967P	ENSG00000201894	ENST00000365024	snRNA	KNOWN	None	47930	None	None	32278054	32278161	-1	None	None
4	RPL34-AS1	ENSG00000234492	ENST00000507248	lincRNA	KNOWN	None	26749	None	None	109459346	109541553	-1	None	FLJ37673
4	RPL34-AS1	ENSG00000234492	ENST00000506795	lincRNA	KNOWN	None	26749	None	None	109461324	109541585	-1	None	FLJ37673
4	RPL34-AS1	ENSG00000234492	ENST00000509984	lincRNA	KNOWN	None	26749	None	None	109477257	109541551	-1	None	FLJ37673
4	RPL34-AS1	ENSG00000234492	ENST00000510212	lincRNA	KNOWN	None	26749	None	None	109511519	109541616	-1	None	FLJ37673
19	None	ENSG00000267412	ENST00000590491	sense_intronic	KNOWN	None	None	None	None	2610153	2611860	-1	None	None
11	SLC22A12	ENSG00000197891	ENST00000377567	protein_coding	NOVEL	None	17989	1338	445	64358113	64369820	1	None	OAT4L, RST, URAT1
11	SLC22A12	ENSG00000197891	ENST00000377574	protein_coding	KNOWN	CCDS8075	17989	1662	553	64358282	64369820	1	None	OAT4L, RST, URAT1
11	SLC22A12	ENSG00000197891	ENST00000473690	protein_coding	PUTATIVE	None	17989	999	332	64358700	64369820	1	None	OAT4L, RST, URAT1
11	SLC22A12	ENSG00000197891	ENST00000336464	protein_coding	NOVEL	None	17989	1560	519	64358735	64369023	1	None	OAT4L, RST, URAT1
11	SLC22A12	ENSG00000197891	ENST00000377572	protein_coding	KNOWN	None	17989	1338	445	64358282	64369820	1	None	OAT4L, RST, URAT1
7	None	ENSG00000224595	ENST00000415146	antisense	KNOWN	None	None	None	None	114054299	114059930	-1	None	None
19	None	ENSG00000267012	ENST00000592270	lincRNA	KNOWN	None	None	None	None	32377610	32399190	-1	None	None
11	None	ENSG00000255158	ENST00000527799	antisense	KNOWN	None	None	None	None	665910	678391	1	None	None
19	None	ENSG00000267094	ENST00000593211	lincRNA	KNOWN	None	None	None	None	32413790	32436304	-1	None	None
7	RNA5SP238	ENSG00000202334	ENST00000365464	rRNA	KNOWN	None	43138	None	None	114253842	114253961	-1	RN5S238	None
12	ISCU	ENSG00000136003	ENST00000545932	retained_intron	KNOWN	None	29882	None	None	108956358	108963117	1	NIFUN	ISU2, hnifU, IscU
12	ISCU	ENSG00000136003	ENST00000552072	retained_intron	KNOWN	None	29882	None	None	108956377	108961342	1	NIFUN	ISU2, hnifU, IscU
12	ISCU	ENSG00000136003	ENST00000535729	protein_coding	PUTATIVE	None	29882	465	154	108956377	108962323	1	NIFUN	ISU2, hnifU, IscU
12	ISCU	ENSG00000136003	ENST00000431221	protein_coding	PUTATIVE	None	29882	471	156	108956377	108962868	1	NIFUN	ISU2, hnifU, IscU
12	ISCU	ENSG00000136003	ENST00000547005	protein_coding	PUTATIVE	None	29882	465	154	108956377	108962875	1	NIFUN	ISU2, hnifU, IscU
12	ISCU	ENSG00000136003	ENST00000311893	protein_coding	KNOWN	CCDS44966	29882	504	167	108956377	108963160	1	NIFUN	ISU2, hnifU, IscU
12	ISCU	ENSG00000136003	ENST00000539580	nonsense_mediated_decay	KNOWN	None	29882	141	46	108956382	108963144	1	NIFUN	ISU2, hnifU, IscU
12	ISCU	ENSG00000136003	ENST00000392807	protein_coding	KNOWN	CCDS9118	29882	429	142	108956382	108963144	1	NIFUN	ISU2, hnifU, IscU
12	ISCU	ENSG00000136003	ENST00000539593	protein_coding	PUTATIVE	None	29882	465	154	108956386	108961684	1	NIFUN	ISU2, hnifU, IscU
12	ISCU	ENSG00000136003	ENST00000535405	retained_intron	KNOWN	None	29882	None	None	108956393	108961220	1	NIFUN	ISU2, hnifU, IscU
12	ISCU	ENSG00000136003	ENST00000544493	retained_intron	KNOWN	None	29882	None	None	108958775	108961075	1	NIFUN	ISU2, hnifU, IscU
12	ISCU	ENSG00000136003	ENST00000540154	processed_transcript	PUTATIVE	None	29882	None	None	108961510	108962870	1	NIFUN	ISU2, hnifU, IscU
12	ISCU	ENSG00000136003	ENST00000538193	retained_intron	KNOWN	None	29882	None	None	108961634	108962870	1	NIFUN	ISU2, hnifU, IscU
12	ISCU	ENSG00000136003	ENST00000338291	protein_coding	KNOWN	None	29882	390	129	108956382	108963143	1	NIFUN	ISU2, hnifU, IscU
7	None	ENSG00000266229	ENST00000580664	miRNA	NOVEL	None	None	None	None	114269910	114270011	1	None	None
19	None	ENSG00000221504	ENST00000408577	miRNA	NOVEL	None	None	None	None	32417479	32417594	1	None	None
HSCHR6_MHC_MANN	FLOT1	ENSG00000236271	ENST00000427701	protein_coding	KNOWN	None	3757	561	186	30740183	30743574	-1	None	None
HSCHR6_MHC_MANN	FLOT1	ENSG00000236271	ENST00000464837	retained_intron	KNOWN	None	3757	None	None	30740183	30743574	-1	None	None
HSCHR6_MHC_MANN	FLOT1	ENSG00000236271	ENST00000487549	retained_intron	KNOWN	None	3757	None	None	30740183	30743574	-1	None	None
HSCHR6_MHC_MANN	FLOT1	ENSG00000236271	ENST00000445395	protein_coding	KNOWN	None	3757	182	59	30743393	30743574	-1	None	None
HSCHR6_MHC_MANN	FLOT1	ENSG00000236271	ENST00000446416	protein_coding	KNOWN	None	3757	34	10	30743541	30743574	-1	None	None
HSCHR6_MHC_MANN	FLOT1	ENSG00000236271	ENST00000430843	protein_coding	KNOWN	None	3757	630	209	30752725	30755207	-1	None	None
HSCHR6_MHC_MANN	FLOT1	ENSG00000236271	ENST00000490802	processed_transcript	KNOWN	None	3757	None	None	30752725	30755206	-1	None	None
HSCHR6_MHC_MANN	FLOT1	ENSG00000236271	ENST00000457733	protein_coding	KNOWN	None	3757	630	209	30752725	30754974	-1	None	None
HSCHR6_MHC_MANN	FLOT1	ENSG00000236271	ENST00000426417	protein_coding	KNOWN	None	3757	345	114	30752725	30754831	-1	None	None
HSCHR6_MHC_MANN	FLOT1	ENSG00000236271	ENST00000431966	protein_coding	KNOWN	None	3757	441	146	30752725	30754781	-1	None	None
HSCHR6_MHC_MANN	FLOT1	ENSG00000236271	ENST00000430384	protein_coding	KNOWN	None	3757	630	209	30752725	30754750	-1	None	None
HSCHR6_MHC_MANN	FLOT1	ENSG00000236271	ENST00000475936	retained_intron	KNOWN	None	3757	None	None	30752725	30753327	-1	None	None
HSCHR6_MHC_MANN	FLOT1	ENSG00000236271	ENST00000474138	retained_intron	KNOWN	None	3757	None	None	30752725	30753268	-1	None	None
HSCHR6_MHC_MANN	FLOT1	ENSG00000236271	ENST00000482675	retained_intron	KNOWN	None	3757	None	None	30752728	30755180	-1	None	None
HSCHR6_MHC_MANN	FLOT1	ENSG00000236271	ENST00000411848	protein_coding	KNOWN	None	3757	578	191	30752729	30754677	-1	None	None
HSCHR6_MHC_MANN	FLOT1	ENSG00000236271	ENST00000444068	protein_coding	KNOWN	None	3757	557	184	30752983	30754998	-1	None	None
HSCHR6_MHC_MANN	FLOT1	ENSG00000236271	ENST00000462145	retained_intron	KNOWN	None	3757	None	None	30753828	30755151	-1	None	None
19	None	ENSG00000267684	ENST00000590021	lincRNA	KNOWN	None	None	None	None	32456548	32457875	-1	None	None
2	None	ENSG00000268412	ENST00000599234	protein_coding	NOVEL	None	None	408	135	26251074	26251481	-1	None	None
16	SUB1P4	ENSG00000260247	ENST00000566062	processed_pseudogene	KNOWN	None	43994	None	None	23548382	23548877	1	None	None
19	None	ENSG00000267489	ENST00000590053	lincRNA	KNOWN	None	None	None	None	32458005	32516697	-1	None	None
19	None	ENSG00000267489	ENST00000593082	lincRNA	KNOWN	None	None	None	None	32491511	32516683	-1	None	None
16	None	ENSG00000260751	ENST00000568262	sense_intronic	KNOWN	None	None	None	None	23579994	23581017	1	None	None
11	None	ENSG00000269915	ENST00000527021	antisense	KNOWN	None	None	None	None	708564	727047	-1	None	None
16	None	ENSG00000261723	ENST00000561764	antisense	KNOWN	None	None	None	None	23617162	23635428	1	None	None
22	FAM230B	ENSG00000215498	ENST00000451257	lincRNA	KNOWN	None	32943	None	None	21522047	21546445	1	None	FLJ46366
22	FAM230B	ENSG00000215498	ENST00000415376	lincRNA	KNOWN	None	32943	None	None	21522118	21546438	1	None	FLJ46366
22	FAM230B	ENSG00000215498	ENST00000420583	retained_intron	KNOWN	None	32943	None	None	21522142	21525141	1	None	FLJ46366
22	FAM230B	ENSG00000215498	ENST00000415704	lincRNA	KNOWN	None	32943	None	None	21522142	21527819	1	None	FLJ46366
22	FAM230B	ENSG00000215498	ENST00000421576	lincRNA	KNOWN	None	32943	None	None	21522174	21537611	1	None	FLJ46366
22	FAM230B	ENSG00000215498	ENST00000446717	retained_intron	KNOWN	None	32943	None	None	21524102	21535345	1	None	FLJ46366
22	FAM230B	ENSG00000215498	ENST00000430463	retained_intron	KNOWN	None	32943	None	None	21524154	21524944	1	None	FLJ46366
22	FAM230B	ENSG00000215498	ENST00000424410	lincRNA	KNOWN	None	32943	None	None	21524235	21537263	1	None	FLJ46366
7	MIR3666	ENSG00000272230	ENST00000607845	miRNA	KNOWN	None	38940	None	None	114293400	114293510	1	None	hsa-mir-3666
17	KIF1C	ENSG00000129250	ENST00000320785	protein_coding	KNOWN	CCDS11065	6317	3312	1103	4901243	4931696	1	None	None
17	KIF1C	ENSG00000129250	ENST00000574165	protein_coding	KNOWN	None	6317	414	137	4901249	4905404	1	None	None
17	KIF1C	ENSG00000129250	ENST00000572959	retained_intron	KNOWN	None	6317	None	None	4910760	4915369	1	None	None
17	KIF1C	ENSG00000129250	ENST00000573815	processed_transcript	KNOWN	None	6317	None	None	4917489	4925560	1	None	None
11	None	ENSG00000177236	ENST00000319941	pseudogene	KNOWN	None	None	None	None	780117	780755	1	None	None
2	MATN3	ENSG00000132031	ENST00000407540	protein_coding	KNOWN	CCDS46226	6909	1461	486	20191872	20212455	-1	None	EDM5, HOA
2	MATN3	ENSG00000132031	ENST00000478482	retained_intron	KNOWN	None	6909	None	None	20194098	20197614	-1	None	EDM5, HOA
2	MATN3	ENSG00000132031	ENST00000421259	protein_coding	KNOWN	None	6909	1335	444	20192798	20212426	-1	None	EDM5, HOA
HSCHR6_MHC_SSTO	PRR3	ENSG00000229202	ENST00000453232	protein_coding	KNOWN	None	21149	567	188	30516081	30522918	1	None	CAT56, Em:AB014077.1, Em:AB023052.2
HSCHR6_MHC_SSTO	PRR3	ENSG00000229202	ENST00000422639	protein_coding	KNOWN	None	21149	504	167	30516475	30522918	1	None	CAT56, Em:AB014077.1, Em:AB023052.2
HSCHR6_MHC_SSTO	PRR3	ENSG00000229202	ENST00000464701	processed_transcript	KNOWN	None	21149	None	None	30516509	30522918	1	None	CAT56, Em:AB014077.1, Em:AB023052.2
HSCHR6_MHC_SSTO	PRR3	ENSG00000229202	ENST00000498679	processed_transcript	KNOWN	None	21149	None	None	30516511	30522918	1	None	CAT56, Em:AB014077.1, Em:AB023052.2
HSCHR6_MHC_SSTO	PRR3	ENSG00000229202	ENST00000477408	retained_intron	KNOWN	None	21149	None	None	30516542	30517631	1	None	CAT56, Em:AB014077.1, Em:AB023052.2
HSCHR6_MHC_SSTO	PRR3	ENSG00000229202	ENST00000480241	retained_intron	KNOWN	None	21149	None	None	30519226	30522918	1	None	CAT56, Em:AB014077.1, Em:AB023052.2
14	TRAJ35	ENSG00000211854	ENST00000390502	TR_J_gene	KNOWN	None	12065	59	18	22975629	22975687	1	None	None
18	IER3IP1	ENSG00000134049	ENST00000256433	protein_coding	KNOWN	CCDS11933	18550	249	82	44681413	44702745	-1	None	None
19	None	ENSG00000267779	ENST00000593056	lincRNA	KNOWN	None	None	None	None	32516768	32530549	1	None	None
19	None	ENSG00000267779	ENST00000588694	lincRNA	KNOWN	None	None	None	None	32516801	32530763	1	None	None
19	None	ENSG00000267779	ENST00000585739	lincRNA	KNOWN	None	None	None	None	32516888	32539789	1	None	None
19	None	ENSG00000267779	ENST00000590719	lincRNA	KNOWN	None	None	None	None	32531392	32539805	1	None	None
19	None	ENSG00000267779	ENST00000589110	lincRNA	KNOWN	None	None	None	None	32539528	32547771	1	None	None
11	EHD1	ENSG00000110047	ENST00000320631	protein_coding	KNOWN	CCDS8084	3242	1605	534	64619114	64646191	-1	PAST1	H-PAST, HPAST1, FLJ42622, FLJ44618
11	EHD1	ENSG00000110047	ENST00000484846	retained_intron	KNOWN	None	3242	None	None	64620203	64624135	-1	PAST1	H-PAST, HPAST1, FLJ42622, FLJ44618
11	EHD1	ENSG00000110047	ENST00000359393	protein_coding	KNOWN	CCDS8084	3242	1605	534	64620203	64647149	-1	PAST1	H-PAST, HPAST1, FLJ42622, FLJ44618
11	EHD1	ENSG00000110047	ENST00000488711	processed_transcript	KNOWN	None	3242	None	None	64621764	64622567	-1	PAST1	H-PAST, HPAST1, FLJ42622, FLJ44618
11	EHD1	ENSG00000110047	ENST00000421510	protein_coding	PUTATIVE	None	3242	918	305	64622084	64645389	-1	PAST1	H-PAST, HPAST1, FLJ42622, FLJ44618
11	EHD1	ENSG00000110047	ENST00000498472	retained_intron	KNOWN	None	3242	None	None	64622524	64627517	-1	PAST1	H-PAST, HPAST1, FLJ42622, FLJ44618
11	EHD1	ENSG00000110047	ENST00000433803	protein_coding	PUTATIVE	None	3242	1122	373	64622794	64647171	-1	PAST1	H-PAST, HPAST1, FLJ42622, FLJ44618
11	EHD1	ENSG00000110047	ENST00000466015	retained_intron	KNOWN	None	3242	None	None	64627098	64646013	-1	PAST1	H-PAST, HPAST1, FLJ42622, FLJ44618
11	EHD1	ENSG00000110047	ENST00000455148	protein_coding	PUTATIVE	None	3242	486	161	64627417	64643138	-1	PAST1	H-PAST, HPAST1, FLJ42622, FLJ44618
11	EHD1	ENSG00000110047	ENST00000457202	protein_coding	KNOWN	None	3242	445	147	64641950	64655768	-1	PAST1	H-PAST, HPAST1, FLJ42622, FLJ44618
11	EHD1	ENSG00000110047	ENST00000411683	protein_coding	KNOWN	None	3242	435	144	64641960	64647172	-1	PAST1	H-PAST, HPAST1, FLJ42622, FLJ44618
11	EHD1	ENSG00000110047	ENST00000489379	retained_intron	KNOWN	None	3242	None	None	64646111	64647153	-1	PAST1	H-PAST, HPAST1, FLJ42622, FLJ44618
11	STX5	ENSG00000162236	ENST00000377897	protein_coding	KNOWN	CCDS58140	11440	966	321	62574369	62599513	-1	STX5A	SED5
11	STX5	ENSG00000162236	ENST00000294179	protein_coding	KNOWN	CCDS8038	11440	1068	355	62574369	62599560	-1	STX5A	SED5
11	STX5	ENSG00000162236	ENST00000394690	protein_coding	NOVEL	None	11440	906	301	62574397	62599514	-1	STX5A	SED5
11	STX5	ENSG00000162236	ENST00000492066	nonsense_mediated_decay	KNOWN	None	11440	246	81	62574408	62599503	-1	STX5A	SED5
11	STX5	ENSG00000162236	ENST00000491231	nonsense_mediated_decay	KNOWN	None	11440	753	250	62574409	62599514	-1	STX5A	SED5
11	STX5	ENSG00000162236	ENST00000431400	protein_coding	PUTATIVE	None	11440	476	157	62591387	62592998	-1	STX5A	SED5
11	STX5	ENSG00000162236	ENST00000488303	nonsense_mediated_decay	KNOWN	None	11440	202	66	62592959	62599523	-1	STX5A	SED5
11	STX5	ENSG00000162236	ENST00000486437	nonsense_mediated_decay	KNOWN	None	11440	237	78	62595049	62599523	-1	STX5A	SED5
11	STX5	ENSG00000162236	ENST00000541317	protein_coding	KNOWN	None	11440	780	259	62574891	62599523	-1	STX5A	SED5
11	SDHD	ENSG00000204370	ENST00000375549	protein_coding	KNOWN	CCDS31678	10683	480	159	111957497	111966518	1	PGL, PGL1	None
11	SDHD	ENSG00000204370	ENST00000528182	protein_coding	PUTATIVE	None	10683	396	131	111957596	111965939	1	PGL, PGL1	None
11	SDHD	ENSG00000204370	ENST00000528048	protein_coding	PUTATIVE	None	10683	258	85	111957597	111966229	1	PGL, PGL1	None
11	SDHD	ENSG00000204370	ENST00000528021	protein_coding	PUTATIVE	None	10683	315	104	111957597	111990353	1	PGL, PGL1	None
11	SDHD	ENSG00000204370	ENST00000526592	protein_coding	NOVEL	None	10683	432	143	111957623	111965936	1	PGL, PGL1	None
11	SDHD	ENSG00000204370	ENST00000525291	protein_coding	NOVEL	None	10683	363	120	111957623	111966112	1	PGL, PGL1	None
11	SDHD	ENSG00000204370	ENST00000530923	nonsense_mediated_decay	KNOWN	None	10683	305	100	111957642	111965887	1	PGL, PGL1	None
11	SDHD	ENSG00000204370	ENST00000534010	nonsense_mediated_decay	KNOWN	None	10683	167	54	111959591	111990165	1	PGL, PGL1	None
20	GDAP1L1	ENSG00000124194	ENST00000342560	protein_coding	KNOWN	CCDS13328	4213	1104	367	42875887	42909013	1	None	None
20	GDAP1L1	ENSG00000124194	ENST00000438466	protein_coding	KNOWN	None	4213	865	287	42875960	42907875	1	None	None
20	GDAP1L1	ENSG00000124194	ENST00000372952	protein_coding	KNOWN	None	4213	444	147	42875973	42887175	1	None	None
20	GDAP1L1	ENSG00000124194	ENST00000445952	protein_coding	KNOWN	None	4213	754	250	42876136	42893426	1	None	None
20	GDAP1L1	ENSG00000124194	ENST00000447658	protein_coding	KNOWN	None	4213	372	123	42893094	42908573	1	None	None
20	GDAP1L1	ENSG00000124194	ENST00000537864	protein_coding	KNOWN	None	4213	528	175	42875996	42908176	1	None	None
16	SRL	ENSG00000185739	ENST00000572111	nonsense_mediated_decay	KNOWN	None	11295	1461	486	4239375	4292076	-1	None	None
16	SRL	ENSG00000185739	ENST00000399609	protein_coding	KNOWN	CCDS42113	11295	1422	473	4239375	4292081	-1	None	None
16	SRL	ENSG00000185739	ENST00000537996	protein_coding	PUTATIVE	None	11295	1296	431	4241811	4289744	-1	None	None
2	RAB10	ENSG00000084733	ENST00000495146	retained_intron	KNOWN	None	9759	None	None	26256976	26358216	1	None	None
2	RAB10	ENSG00000084733	ENST00000264710	protein_coding	KNOWN	CCDS1720	9759	603	200	26256979	26360323	1	None	None
2	RAB10	ENSG00000084733	ENST00000462003	processed_transcript	KNOWN	None	9759	None	None	26321399	26357905	1	None	None
2	RAB10	ENSG00000084733	ENST00000473035	processed_transcript	KNOWN	None	9759	None	None	26321399	26357937	1	None	None
19	SIGLEC7	ENSG00000168995	ENST00000601682	protein_coding	NOVEL	None	10876	556	184	51645556	51648177	1	SIGLEC19P, SIGLECP2	SIGLEC-7, p75/AIRM1, QA79, CD328
19	SIGLEC7	ENSG00000168995	ENST00000317643	protein_coding	KNOWN	CCDS12826	10876	1404	467	51645558	51656783	1	SIGLEC19P, SIGLECP2	SIGLEC-7, p75/AIRM1, QA79, CD328
19	SIGLEC7	ENSG00000168995	ENST00000305628	protein_coding	KNOWN	CCDS42601	10876	1125	374	51645564	51656783	1	SIGLEC19P, SIGLECP2	SIGLEC-7, p75/AIRM1, QA79, CD328
19	SIGLEC7	ENSG00000168995	ENST00000536156	nonsense_mediated_decay	KNOWN	None	10876	438	145	51645627	51656502	1	SIGLEC19P, SIGLECP2	SIGLEC-7, p75/AIRM1, QA79, CD328
19	SIGLEC7	ENSG00000168995	ENST00000600577	protein_coding	KNOWN	None	10876	438	145	51645627	51656502	1	SIGLEC19P, SIGLECP2	SIGLEC-7, p75/AIRM1, QA79, CD328
19	SIGLEC7	ENSG00000168995	ENST00000599250	retained_intron	KNOWN	None	10876	None	None	51650214	51656485	1	SIGLEC19P, SIGLECP2	SIGLEC-7, p75/AIRM1, QA79, CD328
14	TRAJ34	ENSG00000211855	ENST00000390503	TR_J_gene	KNOWN	None	12064	58	18	22976651	22976708	1	None	None
6	FGD2	ENSG00000146192	ENST00000489356	retained_intron	KNOWN	None	3664	None	None	36973422	36977807	1	None	ZFYVE4
6	FGD2	ENSG00000146192	ENST00000274963	protein_coding	KNOWN	CCDS4829	3664	1968	655	36973423	36996846	1	None	ZFYVE4
6	FGD2	ENSG00000146192	ENST00000497659	nonsense_mediated_decay	KNOWN	None	3664	315	104	36973431	36978810	1	None	ZFYVE4
6	FGD2	ENSG00000146192	ENST00000373535	nonsense_mediated_decay	KNOWN	None	3664	309	102	36973431	36996264	1	None	ZFYVE4
6	FGD2	ENSG00000146192	ENST00000459781	retained_intron	KNOWN	None	3664	None	None	36973434	36979809	1	None	ZFYVE4
6	FGD2	ENSG00000146192	ENST00000487975	retained_intron	KNOWN	None	3664	None	None	36973475	36979339	1	None	ZFYVE4
6	FGD2	ENSG00000146192	ENST00000464083	retained_intron	KNOWN	None	3664	None	None	36973475	36996314	1	None	ZFYVE4
6	FGD2	ENSG00000146192	ENST00000494343	retained_intron	KNOWN	None	3664	None	None	36980801	36996845	1	None	ZFYVE4
6	FGD2	ENSG00000146192	ENST00000470273	retained_intron	KNOWN	None	3664	None	None	36981010	36988493	1	None	ZFYVE4
6	FGD2	ENSG00000146192	ENST00000493635	retained_intron	KNOWN	None	3664	None	None	36981278	36996322	1	None	ZFYVE4
6	FGD2	ENSG00000146192	ENST00000487920	retained_intron	KNOWN	None	3664	None	None	36989318	36996845	1	None	ZFYVE4
11	KDM2A	ENSG00000173120	ENST00000398645	protein_coding	KNOWN	None	13606	2349	782	66886740	67025136	1	FBXL11	KIAA1004, FBL11, LILINA, DKFZP434M1735, FBL7, FLJ00115, CXXC8, JHDM1A
11	KDM2A	ENSG00000173120	ENST00000529006	protein_coding	KNOWN	CCDS44657	13606	3489	1162	66887158	67025558	1	FBXL11	KIAA1004, FBL11, LILINA, DKFZP434M1735, FBL7, FLJ00115, CXXC8, JHDM1A
11	KDM2A	ENSG00000173120	ENST00000532436	processed_transcript	KNOWN	None	13606	None	None	66887362	66916678	1	FBXL11	KIAA1004, FBL11, LILINA, DKFZP434M1735, FBL7, FLJ00115, CXXC8, JHDM1A
11	KDM2A	ENSG00000173120	ENST00000527157	processed_transcript	PUTATIVE	None	13606	None	None	66887447	66947924	1	FBXL11	KIAA1004, FBL11, LILINA, DKFZP434M1735, FBL7, FLJ00115, CXXC8, JHDM1A
11	KDM2A	ENSG00000173120	ENST00000528380	processed_transcript	PUTATIVE	None	13606	None	None	66975039	66983144	1	FBXL11	KIAA1004, FBL11, LILINA, DKFZP434M1735, FBL7, FLJ00115, CXXC8, JHDM1A
11	KDM2A	ENSG00000173120	ENST00000526258	processed_transcript	KNOWN	None	13606	None	None	66975073	67025132	1	FBXL11	KIAA1004, FBL11, LILINA, DKFZP434M1735, FBL7, FLJ00115, CXXC8, JHDM1A
11	KDM2A	ENSG00000173120	ENST00000531696	processed_transcript	KNOWN	None	13606	None	None	66983382	67023845	1	FBXL11	KIAA1004, FBL11, LILINA, DKFZP434M1735, FBL7, FLJ00115, CXXC8, JHDM1A
11	KDM2A	ENSG00000173120	ENST00000525379	processed_transcript	PUTATIVE	None	13606	None	None	66985014	66987159	1	FBXL11	KIAA1004, FBL11, LILINA, DKFZP434M1735, FBL7, FLJ00115, CXXC8, JHDM1A
11	KDM2A	ENSG00000173120	ENST00000525041	processed_transcript	KNOWN	None	13606	None	None	66999236	67015850	1	FBXL11	KIAA1004, FBL11, LILINA, DKFZP434M1735, FBL7, FLJ00115, CXXC8, JHDM1A
11	KDM2A	ENSG00000173120	ENST00000530342	protein_coding	NOVEL	CCDS58148	13606	2172	723	67007518	67023844	1	FBXL11	KIAA1004, FBL11, LILINA, DKFZP434M1735, FBL7, FLJ00115, CXXC8, JHDM1A
11	KDM2A	ENSG00000173120	ENST00000517637	processed_transcript	PUTATIVE	None	13606	None	None	67007772	67011287	1	FBXL11	KIAA1004, FBL11, LILINA, DKFZP434M1735, FBL7, FLJ00115, CXXC8, JHDM1A
11	KDM2A	ENSG00000173120	ENST00000529124	processed_transcript	KNOWN	None	13606	None	None	67012549	67016076	1	FBXL11	KIAA1004, FBL11, LILINA, DKFZP434M1735, FBL7, FLJ00115, CXXC8, JHDM1A
11	KDM2A	ENSG00000173120	ENST00000534486	processed_transcript	PUTATIVE	None	13606	None	None	67013010	67015839	1	FBXL11	KIAA1004, FBL11, LILINA, DKFZP434M1735, FBL7, FLJ00115, CXXC8, JHDM1A
11	KDM2A	ENSG00000173120	ENST00000524657	processed_transcript	KNOWN	None	13606	None	None	67019809	67025141	1	FBXL11	KIAA1004, FBL11, LILINA, DKFZP434M1735, FBL7, FLJ00115, CXXC8, JHDM1A
11	KDM2A	ENSG00000173120	ENST00000308783	protein_coding	KNOWN	None	13606	1863	620	67007518	67023822	1	FBXL11	KIAA1004, FBL11, LILINA, DKFZP434M1735, FBL7, FLJ00115, CXXC8, JHDM1A
9	UCK1	ENSG00000130717	ENST00000372210	protein_coding	KNOWN	CCDS59151	14859	807	268	134399188	134406566	-1	None	URK1, FLJ12255
9	UCK1	ENSG00000130717	ENST00000372211	protein_coding	KNOWN	CCDS59152	14859	849	282	134399188	134406587	-1	None	URK1, FLJ12255
9	UCK1	ENSG00000130717	ENST00000491309	nonsense_mediated_decay	KNOWN	None	14859	657	218	134399188	134406624	-1	None	URK1, FLJ12255
9	UCK1	ENSG00000130717	ENST00000372208	protein_coding	KNOWN	CCDS48046	14859	606	201	134399188	134406646	-1	None	URK1, FLJ12255
9	UCK1	ENSG00000130717	ENST00000372215	protein_coding	KNOWN	CCDS6944	14859	834	277	134399188	134406655	-1	None	URK1, FLJ12255
9	UCK1	ENSG00000130717	ENST00000484876	processed_transcript	KNOWN	None	14859	None	None	134400125	134401546	-1	None	URK1, FLJ12255
9	UCK1	ENSG00000130717	ENST00000494584	processed_transcript	KNOWN	None	14859	None	None	134400535	134406651	-1	None	URK1, FLJ12255
9	UCK1	ENSG00000130717	ENST00000459858	processed_transcript	KNOWN	None	14859	None	None	134401332	134406631	-1	None	URK1, FLJ12255
9	UCK1	ENSG00000130717	ENST00000482398	processed_transcript	KNOWN	None	14859	None	None	134404182	134404544	-1	None	URK1, FLJ12255
1	CTNNBIP1	ENSG00000178585	ENST00000377263	protein_coding	KNOWN	CCDS106	16913	246	81	9908334	9970321	-1	None	ICAT, MGC15093
1	CTNNBIP1	ENSG00000178585	ENST00000400904	protein_coding	KNOWN	CCDS106	16913	246	81	9910167	9970394	-1	None	ICAT, MGC15093
1	CTNNBIP1	ENSG00000178585	ENST00000377258	protein_coding	KNOWN	CCDS106	16913	246	81	9910508	9953295	-1	None	ICAT, MGC15093
1	CTNNBIP1	ENSG00000178585	ENST00000377256	protein_coding	KNOWN	CCDS106	16913	246	81	9910717	9938234	-1	None	ICAT, MGC15093
1	CTNNBIP1	ENSG00000178585	ENST00000537447	protein_coding	KNOWN	CCDS106	16913	246	81	9909597	9932150	-1	None	ICAT, MGC15093
18	SKOR2	ENSG00000215474	ENST00000425639	protein_coding	NOVEL	None	32695	3006	1001	44746293	44775554	-1	None	CORL2, FUSSEL18, Fussel-18
18	SKOR2	ENSG00000215474	ENST00000400404	protein_coding	KNOWN	None	32695	891	296	44757494	44775554	-1	None	CORL2, FUSSEL18, Fussel-18
1	BLZF1	ENSG00000117475	ENST00000367807	protein_coding	KNOWN	None	1065	525	174	169337208	169346621	1	None	JEM-1
1	BLZF1	ENSG00000117475	ENST00000367808	protein_coding	KNOWN	CCDS1278	1065	1203	400	169337208	169357543	1	None	JEM-1
1	BLZF1	ENSG00000117475	ENST00000329281	protein_coding	KNOWN	CCDS1278	1065	1203	400	169337208	169365778	1	None	JEM-1
1	BLZF1	ENSG00000117475	ENST00000420531	protein_coding	KNOWN	None	1065	383	126	169337210	169346132	1	None	JEM-1
1	BLZF1	ENSG00000117475	ENST00000426663	protein_coding	KNOWN	None	1065	750	249	169337475	169349800	1	None	JEM-1
20	None	ENSG00000260416	ENST00000567259	lincRNA	KNOWN	None	None	None	None	61758847	61760811	-1	None	None
X	None	ENSG00000229601	ENST00000425885	processed_pseudogene	KNOWN	None	None	None	None	70633684	70633936	-1	None	None
12	PLBD1	ENSG00000121316	ENST00000240617	protein_coding	KNOWN	CCDS31751	26215	1662	553	14656595	14721283	-1	None	FLJ22662
12	PLBD1	ENSG00000121316	ENST00000541800	retained_intron	KNOWN	None	26215	None	None	14664194	14689059	-1	None	FLJ22662
12	PLBD1	ENSG00000121316	ENST00000541618	nonsense_mediated_decay	KNOWN	None	26215	123	40	14664445	14720662	-1	None	FLJ22662
12	PLBD1	ENSG00000121316	ENST00000540572	protein_coding	PUTATIVE	None	26215	434	143	14689628	14707180	-1	None	FLJ22662
X	None	ENSG00000213018	ENST00000391782	processed_pseudogene	KNOWN	None	None	None	None	70639933	70640364	-1	None	None
17	SLC13A2	ENSG00000007216	ENST00000444914	protein_coding	KNOWN	CCDS54098	10917	1926	641	26800311	26824796	1	None	NaDC-1
17	SLC13A2	ENSG00000007216	ENST00000314669	protein_coding	KNOWN	CCDS11231	10917	1779	592	26800311	26824799	1	None	NaDC-1
17	SLC13A2	ENSG00000007216	ENST00000577903	nonsense_mediated_decay	KNOWN	None	10917	108	35	26800710	26824336	1	None	NaDC-1
17	SLC13A2	ENSG00000007216	ENST00000541739	retained_intron	KNOWN	None	10917	None	None	26800756	26821094	1	None	NaDC-1
17	SLC13A2	ENSG00000007216	ENST00000579281	nonsense_mediated_decay	KNOWN	None	10917	83	26	26800756	26824712	1	None	NaDC-1
17	SLC13A2	ENSG00000007216	ENST00000459818	nonsense_mediated_decay	KNOWN	None	10917	83	26	26800756	26824796	1	None	NaDC-1
17	SLC13A2	ENSG00000007216	ENST00000545060	protein_coding	KNOWN	None	10917	1650	549	26800664	26824796	1	None	NaDC-1
17	SLC13A2	ENSG00000007216	ENST00000537681	protein_coding	KNOWN	None	10917	1566	521	26800756	26824796	1	None	NaDC-1
X	None	ENSG00000252525	ENST00000516716	snoRNA	NOVEL	None	None	None	None	70660367	70660477	-1	None	None
21	USP25	ENSG00000155313	ENST00000285679	protein_coding	KNOWN	CCDS33515	12624	3168	1055	17102344	17251230	1	None	USP21
21	USP25	ENSG00000155313	ENST00000351097	protein_coding	NOVEL	None	12624	1353	450	17102344	17251230	1	None	USP21
21	USP25	ENSG00000155313	ENST00000285681	protein_coding	KNOWN	None	12624	3264	1087	17102344	17252377	1	None	USP21
21	USP25	ENSG00000155313	ENST00000547201	processed_transcript	KNOWN	None	12624	None	None	17145575	17191048	1	None	USP21
21	USP25	ENSG00000155313	ENST00000549362	processed_transcript	KNOWN	None	12624	None	None	17145575	17191048	1	None	USP21
21	USP25	ENSG00000155313	ENST00000464435	retained_intron	KNOWN	None	12624	None	None	17171853	17177974	1	None	USP21
21	USP25	ENSG00000155313	ENST00000453553	protein_coding	PUTATIVE	None	12624	611	202	17197329	17205698	1	None	USP21
21	USP25	ENSG00000155313	ENST00000449491	protein_coding	PUTATIVE	None	12624	687	228	17214837	17246837	1	None	USP21
21	USP25	ENSG00000155313	ENST00000478932	retained_intron	KNOWN	None	12624	None	None	17248315	17251230	1	None	USP21
21	USP25	ENSG00000155313	ENST00000400183	protein_coding	KNOWN	None	12624	3378	1125	17102496	17252377	1	None	USP21
X	None	ENSG00000199751	ENST00000362881	misc_RNA	NOVEL	None	None	None	None	70710916	70711017	-1	None	None
X	INGX	ENSG00000243468	ENST00000489074	processed_transcript	KNOWN	None	6064	None	None	70711532	70712299	-1	ING2	ING1-like
X	INGX	ENSG00000243468	ENST00000359239	transcribed_processed_pseudogene	KNOWN	None	6064	None	None	70711933	70712778	-1	ING2	ING1-like
X	INGX	ENSG00000243468	ENST00000510256	processed_pseudogene	KNOWN	None	6064	None	None	70711529	70712299	-1	ING2	ING1-like
20	None	ENSG00000231977	ENST00000423020	lincRNA	KNOWN	None	None	None	None	61798149	61812255	-1	None	None
6	GPR111	ENSG00000164393	ENST00000507065	protein_coding	NOVEL	None	18991	1923	640	47624172	47651264	1	None	hGPCR35, PGR20
6	GPR111	ENSG00000164393	ENST00000296862	protein_coding	KNOWN	None	18991	2127	708	47624223	47650422	1	None	hGPCR35, PGR20
6	GPR111	ENSG00000164393	ENST00000467205	nonsense_mediated_decay	KNOWN	None	18991	1929	642	47624326	47665533	1	None	hGPCR35, PGR20
6	GPR111	ENSG00000164393	ENST00000398742	protein_coding	KNOWN	None	18991	1929	642	47641107	47665529	1	None	hGPCR35, PGR20
5	None	ENSG00000248891	ENST00000505723	processed_pseudogene	KNOWN	None	None	None	None	50723830	50724261	-1	None	None
22	CRYBA4	ENSG00000196431	ENST00000354760	protein_coding	KNOWN	CCDS13841	2396	591	196	27017928	27026636	1	None	None
22	CRYBA4	ENSG00000196431	ENST00000466315	processed_transcript	KNOWN	None	2396	None	None	27017947	27026605	1	None	None
12	DNM1L	ENSG00000087470	ENST00000452533	protein_coding	KNOWN	CCDS8730	2973	2133	710	32832134	32898486	1	None	DRP1, DVLP, HDYNIV, DYMPLE, VPS1
12	DNM1L	ENSG00000087470	ENST00000553257	protein_coding	KNOWN	None	2973	2250	749	32832221	32896716	1	None	DRP1, DVLP, HDYNIV, DYMPLE, VPS1
12	DNM1L	ENSG00000087470	ENST00000549701	protein_coding	KNOWN	CCDS8729	2973	2211	736	32832224	32896546	1	None	DRP1, DVLP, HDYNIV, DYMPLE, VPS1
12	DNM1L	ENSG00000087470	ENST00000358214	protein_coding	NOVEL	None	2973	2139	712	32832226	32897362	1	None	DRP1, DVLP, HDYNIV, DYMPLE, VPS1
12	DNM1L	ENSG00000087470	ENST00000548671	processed_transcript	KNOWN	None	2973	None	None	32832235	32866280	1	None	DRP1, DVLP, HDYNIV, DYMPLE, VPS1
12	DNM1L	ENSG00000087470	ENST00000266481	protein_coding	KNOWN	CCDS8728	2973	2100	699	32832237	32897284	1	None	DRP1, DVLP, HDYNIV, DYMPLE, VPS1
12	DNM1L	ENSG00000087470	ENST00000550011	retained_intron	KNOWN	None	2973	None	None	32832250	32859036	1	None	DRP1, DVLP, HDYNIV, DYMPLE, VPS1
12	DNM1L	ENSG00000087470	ENST00000551076	processed_transcript	KNOWN	None	2973	None	None	32832250	32863937	1	None	DRP1, DVLP, HDYNIV, DYMPLE, VPS1
12	DNM1L	ENSG00000087470	ENST00000551643	nonsense_mediated_decay	KNOWN	None	2973	294	97	32832254	32861158	1	None	DRP1, DVLP, HDYNIV, DYMPLE, VPS1
12	DNM1L	ENSG00000087470	ENST00000551476	protein_coding	NOVEL	None	2973	516	171	32832254	32866253	1	None	DRP1, DVLP, HDYNIV, DYMPLE, VPS1
12	DNM1L	ENSG00000087470	ENST00000550154	protein_coding	NOVEL	None	2973	506	167	32832254	32866264	1	None	DRP1, DVLP, HDYNIV, DYMPLE, VPS1
12	DNM1L	ENSG00000087470	ENST00000547932	processed_transcript	KNOWN	None	2973	None	None	32832254	32871652	1	None	DRP1, DVLP, HDYNIV, DYMPLE, VPS1
12	DNM1L	ENSG00000087470	ENST00000434676	nonsense_mediated_decay	KNOWN	None	2973	471	156	32832254	32883995	1	None	DRP1, DVLP, HDYNIV, DYMPLE, VPS1
12	DNM1L	ENSG00000087470	ENST00000413295	nonsense_mediated_decay	KNOWN	None	2973	543	180	32832254	32884317	1	None	DRP1, DVLP, HDYNIV, DYMPLE, VPS1
12	DNM1L	ENSG00000087470	ENST00000547312	protein_coding	KNOWN	None	2973	2178	725	32832254	32896515	1	None	DRP1, DVLP, HDYNIV, DYMPLE, VPS1
12	DNM1L	ENSG00000087470	ENST00000546649	nonsense_mediated_decay	KNOWN	None	2973	354	117	32832254	32896590	1	None	DRP1, DVLP, HDYNIV, DYMPLE, VPS1
12	DNM1L	ENSG00000087470	ENST00000381000	protein_coding	NOVEL	None	2973	2217	738	32832257	32898483	1	None	DRP1, DVLP, HDYNIV, DYMPLE, VPS1
12	DNM1L	ENSG00000087470	ENST00000548750	protein_coding	NOVEL	None	2973	785	260	32832270	32873729	1	None	DRP1, DVLP, HDYNIV, DYMPLE, VPS1
12	DNM1L	ENSG00000087470	ENST00000549926	processed_transcript	KNOWN	None	2973	None	None	32832642	32866258	1	None	DRP1, DVLP, HDYNIV, DYMPLE, VPS1
12	DNM1L	ENSG00000087470	ENST00000546757	nonsense_mediated_decay	KNOWN	None	2973	165	54	32854349	32897021	1	None	DRP1, DVLP, HDYNIV, DYMPLE, VPS1
12	DNM1L	ENSG00000087470	ENST00000547719	retained_intron	KNOWN	None	2973	None	None	32859801	32861140	1	None	DRP1, DVLP, HDYNIV, DYMPLE, VPS1
12	DNM1L	ENSG00000087470	ENST00000547548	retained_intron	KNOWN	None	2973	None	None	32866181	32875706	1	None	DRP1, DVLP, HDYNIV, DYMPLE, VPS1
12	DNM1L	ENSG00000087470	ENST00000550093	retained_intron	KNOWN	None	2973	None	None	32884403	32891085	1	None	DRP1, DVLP, HDYNIV, DYMPLE, VPS1
12	DNM1L	ENSG00000087470	ENST00000547078	nonsense_mediated_decay	KNOWN	None	2973	146	47	32884420	32891230	1	None	DRP1, DVLP, HDYNIV, DYMPLE, VPS1
12	DNM1L	ENSG00000087470	ENST00000548151	retained_intron	KNOWN	None	2973	None	None	32886387	32890240	1	None	DRP1, DVLP, HDYNIV, DYMPLE, VPS1
12	DNM1L	ENSG00000087470	ENST00000552743	retained_intron	KNOWN	None	2973	None	None	32886500	32891105	1	None	DRP1, DVLP, HDYNIV, DYMPLE, VPS1
12	DNM1L	ENSG00000087470	ENST00000549157	retained_intron	KNOWN	None	2973	None	None	32890911	32893401	1	None	DRP1, DVLP, HDYNIV, DYMPLE, VPS1
12	DNM1L	ENSG00000087470	ENST00000547640	retained_intron	KNOWN	None	2973	None	None	32892779	32895618	1	None	DRP1, DVLP, HDYNIV, DYMPLE, VPS1
12	DNM1L	ENSG00000087470	ENST00000553031	retained_intron	KNOWN	None	2973	None	None	32893088	32896517	1	None	DRP1, DVLP, HDYNIV, DYMPLE, VPS1
12	DNM1L	ENSG00000087470	ENST00000414834	protein_coding	KNOWN	None	2973	1602	533	32832254	32896590	1	None	DRP1, DVLP, HDYNIV, DYMPLE, VPS1
X	None	ENSG00000215120	ENST00000398297	processed_pseudogene	KNOWN	None	None	None	None	70747664	70750075	-1	None	None
19	GYS1	ENSG00000104812	ENST00000323798	protein_coding	KNOWN	CCDS12747	4706	2214	737	49471382	49496566	-1	GYS	GSY
19	GYS1	ENSG00000104812	ENST00000263276	protein_coding	NOVEL	CCDS54292	4706	2022	673	49471387	49496567	-1	GYS	GSY
19	GYS1	ENSG00000104812	ENST00000594220	protein_coding	PUTATIVE	None	4706	341	112	49473540	49473966	-1	GYS	GSY
19	GYS1	ENSG00000104812	ENST00000472004	retained_intron	KNOWN	None	4706	None	None	49474007	49481243	-1	GYS	GSY
19	GYS1	ENSG00000104812	ENST00000496048	retained_intron	KNOWN	None	4706	None	None	49474201	49481490	-1	GYS	GSY
19	GYS1	ENSG00000104812	ENST00000484289	retained_intron	KNOWN	None	4706	None	None	49484688	49488731	-1	GYS	GSY
19	GYS1	ENSG00000104812	ENST00000457974	processed_transcript	KNOWN	None	4706	None	None	49490451	49496540	-1	GYS	GSY
19	GYS1	ENSG00000104812	ENST00000541188	protein_coding	KNOWN	None	4706	1974	657	49472213	49496566	-1	GYS	GSY
19	GYS1	ENSG00000104812	ENST00000544287	protein_coding	KNOWN	None	4706	1113	370	49472413	49496566	-1	GYS	GSY
19	GYS1	ENSG00000104812	ENST00000540532	protein_coding	KNOWN	None	4706	708	235	49477920	49496566	-1	GYS	GSY
14	TRAJ33	ENSG00000211856	ENST00000390504	TR_J_gene	KNOWN	None	12063	57	18	22977587	22977643	1	None	None
7	HSPB1	ENSG00000106211	ENST00000248553	protein_coding	KNOWN	CCDS5583	5246	618	205	75931861	75933612	1	None	HSP27, HSP28, Hs.76067, Hsp25
7	HSPB1	ENSG00000106211	ENST00000447574	nonsense_mediated_decay	KNOWN	None	5246	561	186	75932005	75933577	1	None	HSP27, HSP28, Hs.76067, Hsp25
7	HSPB1	ENSG00000106211	ENST00000429938	protein_coding	PUTATIVE	None	5246	114	37	75932894	75933612	1	None	HSP27, HSP28, Hs.76067, Hsp25
15	None	ENSG00000256278	ENST00000542197	antisense	KNOWN	None	None	None	None	85154920	85158200	-1	None	None
19	PRR22	ENSG00000212123	ENST00000390672	protein_coding	PUTATIVE	None	28354	248	81	5782971	5784610	-1	None	MGC24975
19	PRR22	ENSG00000212123	ENST00000419421	protein_coding	KNOWN	CCDS45933	28354	1269	422	5782971	5784776	-1	None	MGC24975
7	ZC3HAV1L	ENSG00000146858	ENST00000275766	protein_coding	KNOWN	CCDS5850	22423	903	300	138710452	138720775	-1	C7orf39	MGC14289
19	ACTN4	ENSG00000130402	ENST00000588618	retained_intron	KNOWN	None	166	None	None	39138289	39212518	1	FSGS1	None
19	ACTN4	ENSG00000130402	ENST00000252699	protein_coding	KNOWN	CCDS12518	166	2736	911	39138310	39222223	1	FSGS1	None
19	ACTN4	ENSG00000130402	ENST00000390009	protein_coding	NOVEL	None	166	2079	692	39138378	39220087	1	FSGS1	None
19	ACTN4	ENSG00000130402	ENST00000589528	protein_coding	PUTATIVE	None	166	317	104	39138378	39220784	1	FSGS1	None
19	ACTN4	ENSG00000130402	ENST00000495553	processed_transcript	KNOWN	None	166	None	None	39138833	39200063	1	FSGS1	None
19	ACTN4	ENSG00000130402	ENST00000586538	protein_coding	NOVEL	None	166	546	181	39198782	39207956	1	FSGS1	None
19	ACTN4	ENSG00000130402	ENST00000489451	processed_transcript	PUTATIVE	None	166	None	None	39201473	39207757	1	FSGS1	None
19	ACTN4	ENSG00000130402	ENST00000440400	protein_coding	PUTATIVE	None	166	1029	342	39214797	39222223	1	FSGS1	None
19	ACTN4	ENSG00000130402	ENST00000497637	processed_transcript	PUTATIVE	None	166	None	None	39218496	39220460	1	FSGS1	None
19	ACTN4	ENSG00000130402	ENST00000477174	processed_transcript	PUTATIVE	None	166	None	None	39218785	39220061	1	FSGS1	None
19	ACTN4	ENSG00000130402	ENST00000424234	protein_coding	KNOWN	None	166	1566	521	39138327	39220072	1	FSGS1	None
X	None	ENSG00000206677	ENST00000383950	misc_RNA	NOVEL	None	None	None	None	40352092	40352192	1	None	None
Y	HSFY2	ENSG00000169953	ENST00000344884	protein_coding	KNOWN	CCDS35476	23950	612	203	20893326	20935601	-1	None	FLJ25453
Y	HSFY2	ENSG00000169953	ENST00000491902	processed_transcript	KNOWN	None	23950	None	None	20893326	20935601	-1	None	FLJ25453
Y	HSFY2	ENSG00000169953	ENST00000382852	protein_coding	KNOWN	None	23950	645	214	20930807	20935572	-1	None	FLJ25453
Y	HSFY2	ENSG00000169953	ENST00000304790	protein_coding	KNOWN	CCDS14791	23950	1206	401	20933700	20935621	-1	None	FLJ25453
17	SPOP	ENSG00000121067	ENST00000393328	protein_coding	KNOWN	CCDS11551	11254	1125	374	47676246	47755472	-1	None	TEF2, BTBD32
17	SPOP	ENSG00000121067	ENST00000572686	retained_intron	KNOWN	None	11254	None	None	47676859	47678993	-1	None	TEF2, BTBD32
17	SPOP	ENSG00000121067	ENST00000504102	protein_coding	KNOWN	CCDS11551	11254	1125	374	47677368	47755596	-1	None	TEF2, BTBD32
17	SPOP	ENSG00000121067	ENST00000503676	protein_coding	KNOWN	CCDS11551	11254	1125	374	47677565	47723992	-1	None	TEF2, BTBD32
17	SPOP	ENSG00000121067	ENST00000577134	retained_intron	KNOWN	None	11254	None	None	47677641	47679403	-1	None	TEF2, BTBD32
17	SPOP	ENSG00000121067	ENST00000507551	retained_intron	KNOWN	None	11254	None	None	47677671	47679760	-1	None	TEF2, BTBD32
17	SPOP	ENSG00000121067	ENST00000504889	retained_intron	KNOWN	None	11254	None	None	47684430	47688680	-1	None	TEF2, BTBD32
17	SPOP	ENSG00000121067	ENST00000509869	nonsense_mediated_decay	KNOWN	None	11254	217	71	47684612	47696666	-1	None	TEF2, BTBD32
17	SPOP	ENSG00000121067	ENST00000509079	protein_coding	KNOWN	None	11254	787	261	47684662	47755472	-1	None	TEF2, BTBD32
17	SPOP	ENSG00000121067	ENST00000505581	protein_coding	KNOWN	None	11254	714	237	47685236	47755447	-1	None	TEF2, BTBD32
17	SPOP	ENSG00000121067	ENST00000506399	nonsense_mediated_decay	KNOWN	None	11254	135	44	47688700	47755468	-1	None	TEF2, BTBD32
17	SPOP	ENSG00000121067	ENST00000507970	protein_coding	KNOWN	None	11254	557	184	47688743	47755417	-1	None	TEF2, BTBD32
17	SPOP	ENSG00000121067	ENST00000514121	protein_coding	KNOWN	None	11254	415	137	47696408	47755461	-1	None	TEF2, BTBD32
17	SPOP	ENSG00000121067	ENST00000515508	protein_coding	KNOWN	None	11254	352	116	47696596	47755387	-1	None	TEF2, BTBD32
17	SPOP	ENSG00000121067	ENST00000513080	processed_transcript	KNOWN	None	11254	None	None	47696670	47755475	-1	None	TEF2, BTBD32
17	SPOP	ENSG00000121067	ENST00000504212	nonsense_mediated_decay	KNOWN	None	11254	135	44	47696681	47755365	-1	None	TEF2, BTBD32
17	SPOP	ENSG00000121067	ENST00000510476	protein_coding	KNOWN	None	11254	200	65	47699308	47723984	-1	None	TEF2, BTBD32
17	SPOP	ENSG00000121067	ENST00000508805	protein_coding	KNOWN	None	11254	121	39	47699387	47755367	-1	None	TEF2, BTBD32
17	SPOP	ENSG00000121067	ENST00000451526	protein_coding	KNOWN	None	11254	96	31	47699412	47755408	-1	None	TEF2, BTBD32
17	SPOP	ENSG00000121067	ENST00000502385	processed_transcript	KNOWN	None	11254	None	None	47699568	47755472	-1	None	TEF2, BTBD32
17	SPOP	ENSG00000121067	ENST00000509765	retained_intron	KNOWN	None	11254	None	None	47699776	47755444	-1	None	TEF2, BTBD32
17	SPOP	ENSG00000121067	ENST00000393331	protein_coding	KNOWN	CCDS11551	11254	1125	374	47676248	47755525	-1	None	TEF2, BTBD32
17	SPOP	ENSG00000121067	ENST00000347630	protein_coding	KNOWN	CCDS11551	11254	1125	374	47676248	47755525	-1	None	TEF2, BTBD32
X	None	ENSG00000235685	ENST00000441098	processed_pseudogene	KNOWN	None	None	None	None	40374147	40374760	1	None	None
X	ASB9	ENSG00000102048	ENST00000477346	protein_coding	PUTATIVE	None	17184	633	210	15253410	15272887	-1	None	DKFZP564L0862, MGC4954, FLJ20636
X	ASB9	ENSG00000102048	ENST00000380483	protein_coding	KNOWN	CCDS55372	17184	759	252	15262109	15288173	-1	None	DKFZP564L0862, MGC4954, FLJ20636
X	ASB9	ENSG00000102048	ENST00000380485	protein_coding	KNOWN	CCDS14163	17184	789	262	15262109	15288183	-1	None	DKFZP564L0862, MGC4954, FLJ20636
X	ASB9	ENSG00000102048	ENST00000380488	protein_coding	KNOWN	CCDS35208	17184	885	294	15262109	15288270	-1	None	DKFZP564L0862, MGC4954, FLJ20636
X	ASB9	ENSG00000102048	ENST00000473862	processed_transcript	KNOWN	None	17184	None	None	15262412	15288135	-1	None	DKFZP564L0862, MGC4954, FLJ20636
X	ASB9	ENSG00000102048	ENST00000481384	processed_transcript	KNOWN	None	17184	None	None	15268588	15277246	-1	None	DKFZP564L0862, MGC4954, FLJ20636
X	ASB9	ENSG00000102048	ENST00000484017	processed_transcript	KNOWN	None	17184	None	None	15268592	15277096	-1	None	DKFZP564L0862, MGC4954, FLJ20636
X	ASB9	ENSG00000102048	ENST00000470015	processed_transcript	KNOWN	None	17184	None	None	15268652	15288281	-1	None	DKFZP564L0862, MGC4954, FLJ20636
X	ASB9	ENSG00000102048	ENST00000546332	protein_coding	KNOWN	CCDS14163	17184	789	262	15262111	15288589	-1	None	DKFZP564L0862, MGC4954, FLJ20636
12	NAA25	ENSG00000111300	ENST00000261745	protein_coding	KNOWN	CCDS9159	25783	2919	972	112464500	112546826	-1	C12orf30	FLJ13089
12	NAA25	ENSG00000111300	ENST00000552527	retained_intron	KNOWN	None	25783	None	None	112465592	112546589	-1	C12orf30	FLJ13089
12	NAA25	ENSG00000111300	ENST00000548181	retained_intron	KNOWN	None	25783	None	None	112467191	112473209	-1	C12orf30	FLJ13089
12	NAA25	ENSG00000111300	ENST00000549711	nonsense_mediated_decay	KNOWN	None	25783	303	100	112467354	112546600	-1	C12orf30	FLJ13089
12	NAA25	ENSG00000111300	ENST00000550701	retained_intron	KNOWN	None	25783	None	None	112477066	112480115	-1	C12orf30	FLJ13089
12	NAA25	ENSG00000111300	ENST00000551858	nonsense_mediated_decay	KNOWN	None	25783	114	37	112477074	112546583	-1	C12orf30	FLJ13089
12	NAA25	ENSG00000111300	ENST00000547133	protein_coding	PUTATIVE	None	25783	421	139	112516486	112546547	-1	C12orf30	FLJ13089
12	NAA25	ENSG00000111300	ENST00000548627	retained_intron	KNOWN	None	25783	None	None	112528116	112546574	-1	C12orf30	FLJ13089
X	RNU7-164P	ENSG00000238730	ENST00000459221	snRNA	KNOWN	None	45698	None	None	40394754	40394815	-1	None	None
4	DUX4	ENSG00000258389	ENST00000605758	protein_coding	PUTATIVE	None	3082	492	163	191005567	191007077	1	None	None
4	DUX4	ENSG00000258389	ENST00000554285	protein_coding	KNOWN	None	3082	1275	424	191005567	191007077	1	None	None
4	DUX4	ENSG00000258389	ENST00000556625	protein_coding	KNOWN	CCDS54828	3082	1458	485	191005267	191006883	1	None	None
X	MPC1L	ENSG00000238205	ENST00000423387	processed_pseudogene	KNOWN	None	44205	None	None	40482836	40483112	1	None	None
20	MIR124-3	ENSG00000207598	ENST00000384866	miRNA	KNOWN	None	31504	None	None	61809852	61809938	1	MIRN124A3, MIRN124-3	hsa-mir-124a-3, hsa-mir-124-3
17	SMARCE1	ENSG00000073584	ENST00000348513	protein_coding	KNOWN	CCDS11370	11109	1236	411	38781214	38804760	-1	None	BAF57
17	SMARCE1	ENSG00000073584	ENST00000578112	nonsense_mediated_decay	KNOWN	None	11109	159	52	38783959	38804093	-1	None	BAF57
17	SMARCE1	ENSG00000073584	ENST00000431889	protein_coding	PUTATIVE	None	11109	1182	393	38784720	38804091	-1	None	BAF57
17	SMARCE1	ENSG00000073584	ENST00000469334	retained_intron	KNOWN	None	11109	None	None	38784732	38804065	-1	None	BAF57
17	SMARCE1	ENSG00000073584	ENST00000377808	protein_coding	PUTATIVE	None	11109	987	328	38785031	38804070	-1	None	BAF57
17	SMARCE1	ENSG00000073584	ENST00000578044	protein_coding	PUTATIVE	None	11109	1026	341	38785031	38804070	-1	None	BAF57
17	SMARCE1	ENSG00000073584	ENST00000580419	protein_coding	NOVEL	None	11109	1131	376	38785031	38804070	-1	None	BAF57
17	SMARCE1	ENSG00000073584	ENST00000400122	protein_coding	PUTATIVE	None	11109	882	293	38785031	38804070	-1	None	BAF57
17	SMARCE1	ENSG00000073584	ENST00000264640	protein_coding	PUTATIVE	None	11109	532	176	38785736	38788600	-1	None	BAF57
17	SMARCE1	ENSG00000073584	ENST00000447024	protein_coding	PUTATIVE	None	11109	474	157	38786412	38788542	-1	None	BAF57
17	SMARCE1	ENSG00000073584	ENST00000478349	protein_coding	PUTATIVE	None	11109	866	287	38787079	38804080	-1	None	BAF57
17	SMARCE1	ENSG00000073584	ENST00000493660	retained_intron	KNOWN	None	11109	None	None	38790421	38804065	-1	None	BAF57
17	SMARCE1	ENSG00000073584	ENST00000578995	retained_intron	KNOWN	None	11109	None	None	38792193	38793983	-1	None	BAF57
17	SMARCE1	ENSG00000073584	ENST00000580654	protein_coding	PUTATIVE	None	11109	461	152	38792209	38804070	-1	None	BAF57
17	SMARCE1	ENSG00000073584	ENST00000577721	protein_coding	PUTATIVE	None	11109	305	100	38792209	38804070	-1	None	BAF57
17	SMARCE1	ENSG00000073584	ENST00000481231	nonsense_mediated_decay	KNOWN	None	11109	168	55	38792231	38804083	-1	None	BAF57
17	SMARCE1	ENSG00000073584	ENST00000583294	retained_intron	KNOWN	None	11109	None	None	38792316	38793083	-1	None	BAF57
17	SMARCE1	ENSG00000073584	ENST00000582955	protein_coding	KNOWN	None	11109	387	128	38792337	38803893	-1	None	BAF57
17	SMARCE1	ENSG00000073584	ENST00000474246	protein_coding	PUTATIVE	None	11109	234	77	38796826	38804066	-1	None	BAF57
17	SMARCE1	ENSG00000073584	ENST00000544009	protein_coding	KNOWN	None	11109	1026	341	38784526	38802100	-1	None	BAF57
19	None	ENSG00000267214	ENST00000592525	antisense	KNOWN	None	None	None	None	2631952	2632847	1	None	None
X	MED14-AS1	ENSG00000234636	ENST00000456333	antisense	KNOWN	None	40162	None	None	40594652	40597950	1	None	None
4	None	ENSG00000251283	ENST00000511399	protein_coding	PUTATIVE	None	None	246	81	157555646	157563606	-1	None	None
4	None	ENSG00000251283	ENST00000504237	protein_coding	PUTATIVE	None	None	192	63	157555650	157563459	-1	None	None
19	None	ENSG00000267749	ENST00000587894	sense_intronic	KNOWN	None	None	None	None	2641836	2643851	-1	None	None
1	IL22RA1	ENSG00000142677	ENST00000270800	protein_coding	NOVEL	CCDS247	13700	1725	574	24446261	24469611	-1	IL22R	CRF2-9
19	None	ENSG00000261342	ENST00000567905	sense_intronic	KNOWN	None	None	None	None	2727741	2729325	-1	None	None
19	None	ENSG00000267063	ENST00000589365	antisense	KNOWN	None	None	None	None	2847225	2858714	-1	None	None
9	DIRAS2	ENSG00000165023	ENST00000375765	protein_coding	KNOWN	CCDS6687	19323	600	199	93372114	93405386	-1	None	Di-Ras2, DKFZp761C07121
20	ITCH	ENSG00000078747	ENST00000374864	protein_coding	KNOWN	CCDS13234	13890	2589	862	32951041	33099198	1	None	AIP4
20	ITCH	ENSG00000078747	ENST00000486883	processed_transcript	KNOWN	None	13890	None	None	32951047	33001685	1	None	AIP4
20	ITCH	ENSG00000078747	ENST00000479215	processed_transcript	PUTATIVE	None	13890	None	None	32951101	32957349	1	None	AIP4
20	ITCH	ENSG00000078747	ENST00000262650	protein_coding	KNOWN	CCDS58768	13890	2712	903	32951118	33095840	1	None	AIP4
20	ITCH	ENSG00000078747	ENST00000483727	processed_transcript	KNOWN	None	13890	None	None	33033166	33068981	1	None	AIP4
20	ITCH	ENSG00000078747	ENST00000461661	processed_transcript	KNOWN	None	13890	None	None	33059306	33068987	1	None	AIP4
20	ITCH	ENSG00000078747	ENST00000535650	protein_coding	KNOWN	CCDS58769	13890	2259	752	32951082	33095920	1	None	AIP4
7	None	ENSG00000233607	ENST00000419883	processed_transcript	KNOWN	None	None	None	None	114701591	114871409	-1	None	None
3	MYRIP	ENSG00000170011	ENST00000444716	protein_coding	KNOWN	CCDS2689	19156	2580	859	39850405	40299657	1	None	DKFZp586F1018, exophilin-8, MyRIP, SLAC2-C, SLAC2C
3	MYRIP	ENSG00000170011	ENST00000302541	protein_coding	KNOWN	CCDS2689	19156	2580	859	39851096	40301812	1	None	DKFZp586F1018, exophilin-8, MyRIP, SLAC2-C, SLAC2C
3	MYRIP	ENSG00000170011	ENST00000425621	protein_coding	NOVEL	None	19156	2385	794	39851197	40300012	1	None	DKFZp586F1018, exophilin-8, MyRIP, SLAC2-C, SLAC2C
3	MYRIP	ENSG00000170011	ENST00000458441	nonsense_mediated_decay	KNOWN	None	19156	348	115	39851323	40300243	1	None	DKFZp586F1018, exophilin-8, MyRIP, SLAC2-C, SLAC2C
3	MYRIP	ENSG00000170011	ENST00000458292	nonsense_mediated_decay	KNOWN	None	19156	1914	637	39851323	40300243	1	None	DKFZp586F1018, exophilin-8, MyRIP, SLAC2-C, SLAC2C
3	MYRIP	ENSG00000170011	ENST00000475082	processed_transcript	KNOWN	None	19156	None	None	39851978	40204453	1	None	DKFZp586F1018, exophilin-8, MyRIP, SLAC2-C, SLAC2C
3	MYRIP	ENSG00000170011	ENST00000459828	processed_transcript	KNOWN	None	19156	None	None	40112607	40301456	1	None	DKFZp586F1018, exophilin-8, MyRIP, SLAC2-C, SLAC2C
3	MYRIP	ENSG00000170011	ENST00000482033	processed_transcript	KNOWN	None	19156	None	None	40141502	40208715	1	None	DKFZp586F1018, exophilin-8, MyRIP, SLAC2-C, SLAC2C
3	MYRIP	ENSG00000170011	ENST00000396217	protein_coding	KNOWN	None	19156	2313	770	39851323	40300243	1	None	DKFZp586F1018, exophilin-8, MyRIP, SLAC2-C, SLAC2C
3	MYRIP	ENSG00000170011	ENST00000539167	protein_coding	KNOWN	None	19156	2019	672	40141502	40299833	1	None	DKFZp586F1018, exophilin-8, MyRIP, SLAC2-C, SLAC2C
11	None	ENSG00000255142	ENST00000533938	antisense	KNOWN	None	None	None	None	781645	782105	1	None	None
14	TRAJ32	ENSG00000211857	ENST00000390505	TR_J_gene	KNOWN	None	12062	66	21	22978325	22978390	1	None	None
6	None	ENSG00000225683	ENST00000419182	protein_coding	KNOWN	None	None	495	164	163586446	163612840	-1	None	None
11	KBTBD3	ENSG00000182359	ENST00000534815	protein_coding	PUTATIVE	None	22934	1602	533	105921825	105948076	-1	BKLHD3	None
11	KBTBD3	ENSG00000182359	ENST00000526793	protein_coding	KNOWN	CCDS8334	22934	1839	612	105921825	105948186	-1	BKLHD3	None
11	KBTBD3	ENSG00000182359	ENST00000531837	protein_coding	KNOWN	CCDS8334	22934	1839	612	105923401	105948492	-1	BKLHD3	None
11	KBTBD3	ENSG00000182359	ENST00000532662	protein_coding	PUTATIVE	None	22934	99	32	105925080	105947427	-1	BKLHD3	None
11	KBTBD3	ENSG00000182359	ENST00000531482	protein_coding	PUTATIVE	None	22934	276	91	105928153	105929838	-1	BKLHD3	None
11	KBTBD3	ENSG00000182359	ENST00000528483	retained_intron	KNOWN	None	22934	None	None	105929466	105947366	-1	BKLHD3	None
11	KBTBD3	ENSG00000182359	ENST00000526805	retained_intron	KNOWN	None	22934	None	None	105946731	105948075	-1	BKLHD3	None
5	None	ENSG00000251675	ENST00000511484	antisense	KNOWN	None	None	None	None	79424184	79439706	1	None	None
3	HIGD1A	ENSG00000181061	ENST00000431549	nonsense_mediated_decay	KNOWN	None	29527	252	83	42798669	42846010	-1	None	HIG1, DKFZP564K247
3	HIGD1A	ENSG00000181061	ENST00000321331	protein_coding	KNOWN	CCDS43073	29527	282	93	42825790	42846023	-1	None	HIG1, DKFZP564K247
3	HIGD1A	ENSG00000181061	ENST00000418900	protein_coding	KNOWN	CCDS43073	29527	282	93	42825822	42845980	-1	None	HIG1, DKFZP564K247
3	HIGD1A	ENSG00000181061	ENST00000470543	processed_transcript	KNOWN	None	29527	None	None	42826018	42845980	-1	None	HIG1, DKFZP564K247
3	HIGD1A	ENSG00000181061	ENST00000430190	protein_coding	NOVEL	None	29527	291	96	42826397	42845982	-1	None	HIG1, DKFZP564K247
3	HIGD1A	ENSG00000181061	ENST00000452906	protein_coding	KNOWN	CCDS46806	29527	324	107	42826744	42845925	-1	None	HIG1, DKFZP564K247
4	DUX4L3	ENSG00000259034	ENST00000605191	protein_coding	PUTATIVE	None	38688	492	163	191008860	191010370	1	None	None
4	DUX4L3	ENSG00000259034	ENST00000557656	protein_coding	KNOWN	None	38688	1275	424	191008860	191010370	1	None	None
4	DUX4L3	ENSG00000259034	ENST00000554690	protein_coding	KNOWN	CCDS59485	38688	1458	485	191008560	191010176	1	None	None
15	THAP10	ENSG00000129028	ENST00000249861	protein_coding	KNOWN	CCDS10237	23193	774	257	71173681	71185124	-1	None	None
15	THAP10	ENSG00000129028	ENST00000560604	protein_coding	PUTATIVE	None	23193	383	126	71174639	71184749	-1	None	None
Y	None	ENSG00000267793	ENST00000586015	transcribed_processed_pseudogene	KNOWN	None	None	None	None	21760074	21760643	1	None	None
19	RGS9BP	ENSG00000186326	ENST00000334176	protein_coding	KNOWN	CCDS12424	30304	708	235	33166313	33169206	1	None	FLJ45744, PERRS, R9AP, RGS9
5	None	ENSG00000239159	ENST00000459419	snoRNA	KNOWN	None	None	None	None	79535306	79535408	-1	None	None
7	None	ENSG00000225535	ENST00000435981	lincRNA	KNOWN	None	None	None	None	114719012	114766368	1	None	None
7	None	ENSG00000225535	ENST00000419905	lincRNA	KNOWN	None	None	None	None	114719052	114765845	1	None	None
7	None	ENSG00000225535	ENST00000467677	lincRNA	KNOWN	None	None	None	None	114719073	114765997	1	None	None
7	None	ENSG00000225535	ENST00000460471	lincRNA	KNOWN	None	None	None	None	114758266	114762279	1	None	None
X	DPRXP6	ENSG00000270791	ENST00000603022	processed_pseudogene	KNOWN	None	32172	None	None	40617736	40618303	1	None	None
Y	None	ENSG00000260197	ENST00000566193	lincRNA	KNOWN	None	None	None	None	21853827	21856492	-1	None	None
21	HMGN1	ENSG00000205581	ENST00000288344	nonsense_mediated_decay	KNOWN	None	4984	147	48	40714241	40720917	-1	HMG14	FLJ27265, FLJ31471, MGC104230, MGC117425
21	HMGN1	ENSG00000205581	ENST00000486741	retained_intron	KNOWN	None	4984	None	None	40714241	40721025	-1	HMG14	FLJ27265, FLJ31471, MGC104230, MGC117425
21	HMGN1	ENSG00000205581	ENST00000431390	nonsense_mediated_decay	KNOWN	None	4984	138	45	40714241	40721066	-1	HMG14	FLJ27265, FLJ31471, MGC104230, MGC117425
21	HMGN1	ENSG00000205581	ENST00000380749	protein_coding	KNOWN	CCDS33559	4984	303	100	40714241	40721126	-1	HMG14	FLJ27265, FLJ31471, MGC104230, MGC117425
21	HMGN1	ENSG00000205581	ENST00000492280	retained_intron	KNOWN	None	4984	None	None	40714241	40721270	-1	HMG14	FLJ27265, FLJ31471, MGC104230, MGC117425
21	HMGN1	ENSG00000205581	ENST00000436324	nonsense_mediated_decay	KNOWN	None	4984	135	44	40714572	40721014	-1	HMG14	FLJ27265, FLJ31471, MGC104230, MGC117425
21	HMGN1	ENSG00000205581	ENST00000380748	protein_coding	NOVEL	None	4984	273	90	40714618	40720979	-1	HMG14	FLJ27265, FLJ31471, MGC104230, MGC117425
21	HMGN1	ENSG00000205581	ENST00000419378	nonsense_mediated_decay	KNOWN	None	4984	138	45	40714714	40720966	-1	HMG14	FLJ27265, FLJ31471, MGC104230, MGC117425
21	HMGN1	ENSG00000205581	ENST00000489072	processed_transcript	KNOWN	None	4984	None	None	40714726	40720788	-1	HMG14	FLJ27265, FLJ31471, MGC104230, MGC117425
21	HMGN1	ENSG00000205581	ENST00000482192	processed_transcript	KNOWN	None	4984	None	None	40714730	40720549	-1	HMG14	FLJ27265, FLJ31471, MGC104230, MGC117425
21	HMGN1	ENSG00000205581	ENST00000380747	protein_coding	PUTATIVE	None	4984	351	116	40714805	40721573	-1	HMG14	FLJ27265, FLJ31471, MGC104230, MGC117425
21	HMGN1	ENSG00000205581	ENST00000485550	processed_transcript	KNOWN	None	4984	None	None	40714835	40720523	-1	HMG14	FLJ27265, FLJ31471, MGC104230, MGC117425
21	HMGN1	ENSG00000205581	ENST00000490032	processed_transcript	KNOWN	None	4984	None	None	40714904	40720265	-1	HMG14	FLJ27265, FLJ31471, MGC104230, MGC117425
21	HMGN1	ENSG00000205581	ENST00000443046	nonsense_mediated_decay	KNOWN	None	4984	135	44	40714935	40720980	-1	HMG14	FLJ27265, FLJ31471, MGC104230, MGC117425
21	HMGN1	ENSG00000205581	ENST00000464078	retained_intron	KNOWN	None	4984	None	None	40715063	40720980	-1	HMG14	FLJ27265, FLJ31471, MGC104230, MGC117425
21	HMGN1	ENSG00000205581	ENST00000491183	processed_transcript	PUTATIVE	None	4984	None	None	40719073	40720993	-1	HMG14	FLJ27265, FLJ31471, MGC104230, MGC117425
21	HMGN1	ENSG00000205581	ENST00000479586	processed_transcript	PUTATIVE	None	4984	None	None	40719262	40720941	-1	HMG14	FLJ27265, FLJ31471, MGC104230, MGC117425
21	HMGN1	ENSG00000205581	ENST00000471260	processed_transcript	KNOWN	None	4984	None	None	40719418	40720546	-1	HMG14	FLJ27265, FLJ31471, MGC104230, MGC117425
21	HMGN1	ENSG00000205581	ENST00000482733	retained_intron	KNOWN	None	4984	None	None	40719921	40720946	-1	HMG14	FLJ27265, FLJ31471, MGC104230, MGC117425
21	HMGN1	ENSG00000205581	ENST00000463631	retained_intron	KNOWN	None	4984	None	None	40719991	40720980	-1	HMG14	FLJ27265, FLJ31471, MGC104230, MGC117425
21	HMGN1	ENSG00000205581	ENST00000361263	protein_coding	KNOWN	None	4984	507	168	40714242	40718454	-1	HMG14	FLJ27265, FLJ31471, MGC104230, MGC117425
X	None	ENSG00000214031	ENST00000416158	processed_pseudogene	KNOWN	None	None	None	None	40619357	40620523	-1	None	None
Y	RCC2P2	ENSG00000237997	ENST00000422174	processed_pseudogene	KNOWN	None	38419	None	None	22148461	22149738	-1	None	None
22	SNAP29	ENSG00000099940	ENST00000215730	protein_coding	KNOWN	CCDS13784	11133	777	258	21213271	21245502	1	None	SNAP-29, CEDNIK
22	SNAP29	ENSG00000099940	ENST00000490458	retained_intron	KNOWN	None	11133	None	None	21213369	21225329	1	None	SNAP-29, CEDNIK
22	SNAP29	ENSG00000099940	ENST00000439214	protein_coding	PUTATIVE	None	11133	481	159	21213771	21242107	1	None	SNAP-29, CEDNIK
19	NUDT19	ENSG00000213965	ENST00000397061	protein_coding	NOVEL	CCDS42543	32036	1128	375	33182867	33204702	1	None	RP2
X	None	ENSG00000237661	ENST00000424288	processed_pseudogene	KNOWN	None	None	None	None	40691097	40691815	-1	None	None
Y	ZNF886P	ENSG00000232522	ENST00000450781	unprocessed_pseudogene	KNOWN	None	38420	None	None	22163071	22174090	-1	None	None
20	MIR3196	ENSG00000266463	ENST00000579556	miRNA	KNOWN	None	38198	None	None	61870131	61870194	1	None	hsa-mir-3196
11	SNORA52	ENSG00000199785	ENST00000362915	snoRNA	KNOWN	None	32645	None	None	811681	811814	1	None	ACA52
Y	ZNF885P	ENSG00000228764	ENST00000420174	processed_pseudogene	KNOWN	None	38456	None	None	22551937	22558682	1	None	None
11	None	ENSG00000255108	ENST00000532946	antisense	KNOWN	None	None	None	None	823634	832883	-1	None	None
11	None	ENSG00000255108	ENST00000528982	antisense	KNOWN	None	None	None	None	823656	824645	-1	None	None
4	None	ENSG00000221189	ENST00000408262	miRNA	NOVEL	None	None	None	None	157217713	157217798	-1	None	None
2	CYP27C1	ENSG00000186684	ENST00000335247	protein_coding	KNOWN	CCDS33285	33480	1119	372	127941696	127963343	-1	None	FLJ16008
2	CYP27C1	ENSG00000186684	ENST00000409327	protein_coding	KNOWN	CCDS33285	33480	1119	372	127943986	127977654	-1	None	FLJ16008
4	None	ENSG00000251511	ENST00000510753	lincRNA	KNOWN	None	None	None	None	157507131	157511191	1	None	None
4	DUX4L2	ENSG00000259128	ENST00000553702	protein_coding	KNOWN	None	37267	1275	424	191012160	191013670	1	None	None
4	DUX4L2	ENSG00000259128	ENST00000554376	protein_coding	PUTATIVE	None	37267	492	163	191012160	191013719	1	None	None
4	DUX4L2	ENSG00000259128	ENST00000440426	protein_coding	KNOWN	None	37267	1458	485	191011860	191013476	1	None	None
4	None	ENSG00000249479	ENST00000507972	antisense	KNOWN	None	None	None	None	157563732	157564721	1	None	None
4	ANXA5	ENSG00000164111	ENST00000296511	protein_coding	KNOWN	CCDS3720	543	963	320	122589110	122618268	-1	ENX2, ANX5	None
4	ANXA5	ENSG00000164111	ENST00000501272	protein_coding	NOVEL	None	543	783	260	122589182	122618121	-1	ENX2, ANX5	None
4	ANXA5	ENSG00000164111	ENST00000506395	nonsense_mediated_decay	KNOWN	None	543	492	163	122589182	122618121	-1	ENX2, ANX5	None
4	ANXA5	ENSG00000164111	ENST00000515017	protein_coding	NOVEL	None	543	663	220	122589231	122618117	-1	ENX2, ANX5	None
4	ANXA5	ENSG00000164111	ENST00000509648	retained_intron	KNOWN	None	543	None	None	122589401	122599477	-1	ENX2, ANX5	None
4	ANXA5	ENSG00000164111	ENST00000515717	retained_intron	KNOWN	None	543	None	None	122590467	122593713	-1	ENX2, ANX5	None
4	ANXA5	ENSG00000164111	ENST00000511552	retained_intron	KNOWN	None	543	None	None	122592773	122618130	-1	ENX2, ANX5	None
4	ANXA5	ENSG00000164111	ENST00000509016	processed_transcript	KNOWN	None	543	None	None	122599609	122618147	-1	ENX2, ANX5	None
4	ANXA5	ENSG00000164111	ENST00000513428	retained_intron	KNOWN	None	543	None	None	122602517	122618147	-1	ENX2, ANX5	None
4	ANXA5	ENSG00000164111	ENST00000513523	retained_intron	KNOWN	None	543	None	None	122602711	122618150	-1	ENX2, ANX5	None
4	ANXA5	ENSG00000164111	ENST00000513728	nonsense_mediated_decay	KNOWN	None	543	108	35	122602826	122618130	-1	ENX2, ANX5	None
4	PDGFC	ENSG00000145431	ENST00000502773	protein_coding	KNOWN	CCDS3795	8801	1038	345	157681606	157892546	-1	None	SCDGF, fallotein
4	PDGFC	ENSG00000145431	ENST00000274071	nonsense_mediated_decay	KNOWN	None	8801	153	50	157682766	157892467	-1	None	SCDGF, fallotein
4	PDGFC	ENSG00000145431	ENST00000504672	processed_transcript	KNOWN	None	8801	None	None	157683955	157694869	-1	None	SCDGF, fallotein
4	PDGFC	ENSG00000145431	ENST00000506880	nonsense_mediated_decay	KNOWN	None	8801	161	52	157684100	157771424	-1	None	SCDGF, fallotein
4	PDGFC	ENSG00000145431	ENST00000422544	protein_coding	PUTATIVE	None	8801	849	282	157684242	157892055	-1	None	SCDGF, fallotein
4	PDGFC	ENSG00000145431	ENST00000510982	processed_transcript	KNOWN	None	8801	None	None	157688934	157695630	-1	None	SCDGF, fallotein
4	PDGFC	ENSG00000145431	ENST00000511985	processed_transcript	KNOWN	None	8801	None	None	157691334	157732043	-1	None	SCDGF, fallotein
4	PDGFC	ENSG00000145431	ENST00000512711	processed_transcript	KNOWN	None	8801	None	None	157693941	157795124	-1	None	SCDGF, fallotein
4	PDGFC	ENSG00000145431	ENST00000513664	processed_transcript	KNOWN	None	8801	None	None	157888481	157892117	-1	None	SCDGF, fallotein
4	PDGFC	ENSG00000145431	ENST00000541126	protein_coding	KNOWN	None	8801	549	182	157683903	157892228	-1	None	SCDGF, fallotein
4	PDGFC	ENSG00000145431	ENST00000542208	protein_coding	KNOWN	None	8801	573	190	157684100	157771424	-1	None	SCDGF, fallotein
16	None	ENSG00000260769	ENST00000564048	lincRNA	KNOWN	None	None	None	None	49371078	49372904	1	None	None
HSCHR6_MHC_APD	HLA-DRB3	ENSG00000230463	ENST00000426847	protein_coding	KNOWN	None	4951	801	266	32470408	32484153	-1	HLA-DR3B	None
15	NARG2	ENSG00000128915	ENST00000261520	protein_coding	KNOWN	CCDS10176	29885	2949	982	60711808	60771344	-1	None	FLJ11896, BRCC1
15	NARG2	ENSG00000128915	ENST00000558181	nonsense_mediated_decay	KNOWN	None	29885	222	73	60711812	60771359	-1	None	FLJ11896, BRCC1
15	NARG2	ENSG00000128915	ENST00000558121	retained_intron	KNOWN	None	29885	None	None	60713675	60735270	-1	None	FLJ11896, BRCC1
15	NARG2	ENSG00000128915	ENST00000561124	processed_transcript	KNOWN	None	29885	None	None	60715851	60732867	-1	None	FLJ11896, BRCC1
15	NARG2	ENSG00000128915	ENST00000561328	retained_intron	KNOWN	None	29885	None	None	60730019	60745982	-1	None	FLJ11896, BRCC1
15	NARG2	ENSG00000128915	ENST00000561144	retained_intron	KNOWN	None	29885	None	None	60739690	60741150	-1	None	FLJ11896, BRCC1
15	NARG2	ENSG00000128915	ENST00000561114	protein_coding	PUTATIVE	None	29885	1152	383	60743294	60771272	-1	None	FLJ11896, BRCC1
15	NARG2	ENSG00000128915	ENST00000558512	protein_coding	KNOWN	None	29885	1016	337	60745911	60771128	-1	None	FLJ11896, BRCC1
15	NARG2	ENSG00000128915	ENST00000558451	retained_intron	KNOWN	None	29885	None	None	60746887	60747641	-1	None	FLJ11896, BRCC1
15	NARG2	ENSG00000128915	ENST00000560895	nonsense_mediated_decay	KNOWN	None	29885	156	51	60747555	60771309	-1	None	FLJ11896, BRCC1
15	NARG2	ENSG00000128915	ENST00000561446	nonsense_mediated_decay	KNOWN	None	29885	186	61	60748865	60771309	-1	None	FLJ11896, BRCC1
15	NARG2	ENSG00000128915	ENST00000560668	nonsense_mediated_decay	KNOWN	None	29885	222	73	60748960	60771331	-1	None	FLJ11896, BRCC1
15	NARG2	ENSG00000128915	ENST00000561087	processed_transcript	KNOWN	None	29885	None	None	60748964	60771306	-1	None	FLJ11896, BRCC1
15	NARG2	ENSG00000128915	ENST00000558654	processed_transcript	KNOWN	None	29885	None	None	60758872	60771311	-1	None	FLJ11896, BRCC1
15	NARG2	ENSG00000128915	ENST00000560072	protein_coding	KNOWN	None	29885	435	144	60758886	60771302	-1	None	FLJ11896, BRCC1
15	NARG2	ENSG00000128915	ENST00000560406	protein_coding	KNOWN	None	29885	298	98	60760370	60771302	-1	None	FLJ11896, BRCC1
15	NARG2	ENSG00000128915	ENST00000560520	protein_coding	KNOWN	None	29885	282	93	60760386	60771312	-1	None	FLJ11896, BRCC1
15	NARG2	ENSG00000128915	ENST00000439632	protein_coding	KNOWN	None	29885	2538	845	60711808	60771344	-1	None	FLJ11896, BRCC1
16	None	ENSG00000262950	ENST00000576671	lincRNA	KNOWN	None	None	None	None	49476821	49487989	-1	None	None
9	FGD3	ENSG00000127084	ENST00000375482	protein_coding	KNOWN	CCDS43849	16027	2178	725	95709733	95798518	1	None	FLJ00004, ZFYVE5
9	FGD3	ENSG00000127084	ENST00000468206	processed_transcript	KNOWN	None	16027	None	None	95726388	95738991	1	None	FLJ00004, ZFYVE5
9	FGD3	ENSG00000127084	ENST00000494669	processed_transcript	KNOWN	None	16027	None	None	95736782	95738989	1	None	FLJ00004, ZFYVE5
9	FGD3	ENSG00000127084	ENST00000467786	nonsense_mediated_decay	KNOWN	None	16027	1905	634	95737532	95798518	1	None	FLJ00004, ZFYVE5
9	FGD3	ENSG00000127084	ENST00000494553	processed_transcript	KNOWN	None	16027	None	None	95777933	95780482	1	None	FLJ00004, ZFYVE5
9	FGD3	ENSG00000127084	ENST00000488407	processed_transcript	KNOWN	None	16027	None	None	95792156	95796901	1	None	FLJ00004, ZFYVE5
9	FGD3	ENSG00000127084	ENST00000416701	protein_coding	KNOWN	None	16027	2175	724	95726243	95798307	1	None	FLJ00004, ZFYVE5
9	FGD3	ENSG00000127084	ENST00000337352	protein_coding	KNOWN	CCDS43849	16027	2178	725	95736764	95798514	1	None	FLJ00004, ZFYVE5
9	FGD3	ENSG00000127084	ENST00000538555	protein_coding	KNOWN	None	16027	987	328	95777342	95798052	1	None	FLJ00004, ZFYVE5
6	THEMIS	ENSG00000172673	ENST00000368250	protein_coding	KNOWN	None	21569	1689	562	128029217	128239685	-1	C6orf207, C6orf190, TSEPA	bA325O24.4, FLJ40584, bA325O24.3
6	THEMIS	ENSG00000172673	ENST00000434358	protein_coding	KNOWN	None	21569	368	121	128134722	128222103	-1	C6orf207, C6orf190, TSEPA	bA325O24.4, FLJ40584, bA325O24.3
6	THEMIS	ENSG00000172673	ENST00000543064	protein_coding	KNOWN	CCDS55056	21569	2043	680	128029339	128222226	-1	C6orf207, C6orf190, TSEPA	bA325O24.4, FLJ40584, bA325O24.3
6	THEMIS	ENSG00000172673	ENST00000368248	protein_coding	KNOWN	CCDS34534	21569	1926	641	128029339	128222226	-1	C6orf207, C6orf190, TSEPA	bA325O24.4, FLJ40584, bA325O24.3
6	THEMIS	ENSG00000172673	ENST00000537166	protein_coding	KNOWN	CCDS55055	21569	1821	606	128029339	128239776	-1	C6orf207, C6orf190, TSEPA	bA325O24.4, FLJ40584, bA325O24.3
9	None	ENSG00000266021	ENST00000583495	miRNA	NOVEL	None	None	None	None	68997409	68997484	-1	None	None
Y	TTTY10	ENSG00000229236	ENST00000455084	lincRNA	KNOWN	None	18491	None	None	22627554	22681114	-1	None	NCRNA00133
Y	TTTY10	ENSG00000229236	ENST00000439472	lincRNA	KNOWN	None	18491	None	None	22669140	22680293	-1	None	NCRNA00133
16	None	ENSG00000263110	ENST00000573819	lincRNA	KNOWN	None	None	None	None	49488140	49491180	1	None	None
22	None	ENSG00000224271	ENST00000423737	processed_transcript	KNOWN	None	None	None	None	48027423	48251349	1	None	None
22	None	ENSG00000224271	ENST00000426452	retained_intron	KNOWN	None	None	None	None	48027439	48031373	1	None	None
22	None	ENSG00000224271	ENST00000438810	processed_transcript	KNOWN	None	None	None	None	48081990	48086596	1	None	None
9	None	ENSG00000238919	ENST00000459317	miRNA	NOVEL	None	None	None	None	69001999	69002081	-1	None	None
9	MIR1299	ENSG00000239070	ENST00000459575	miRNA	KNOWN	None	35290	None	None	69002239	69002321	-1	MIRN1299	hsa-mir-1299
16	None	ENSG00000261623	ENST00000561523	lincRNA	KNOWN	None	None	None	None	49500017	49503786	1	None	None
9	None	ENSG00000233961	ENST00000424707	unprocessed_pseudogene	KNOWN	None	None	None	None	69065655	69084989	1	None	None
19	PSG3	ENSG00000221826	ENST00000594378	nonsense_mediated_decay	KNOWN	None	9520	276	91	43225790	43243524	-1	None	None
19	PSG3	ENSG00000221826	ENST00000327495	protein_coding	KNOWN	CCDS12611	9520	1287	428	43225794	43244721	-1	None	None
19	PSG3	ENSG00000221826	ENST00000595140	protein_coding	PUTATIVE	None	9520	1428	475	43225855	43244629	-1	None	None
19	PSG3	ENSG00000221826	ENST00000597009	retained_intron	KNOWN	None	9520	None	None	43236060	43244626	-1	None	None
19	PSG3	ENSG00000221826	ENST00000490592	processed_transcript	KNOWN	None	9520	None	None	43237741	43243628	-1	None	None
16	ADAM3B	ENSG00000260089	ENST00000569937	processed_pseudogene	KNOWN	None	210	None	None	49551673	49552512	-1	CYRN2	None
1	CCDC181	ENSG00000117477	ENST00000367806	protein_coding	KNOWN	None	28051	1530	509	169364108	169396655	-1	C1orf114	FLJ25846
1	CCDC181	ENSG00000117477	ENST00000367805	protein_coding	KNOWN	CCDS1279	28051	1527	508	169364108	169396712	-1	C1orf114	FLJ25846
1	CCDC181	ENSG00000117477	ENST00000491570	processed_transcript	KNOWN	None	28051	None	None	169388024	169396712	-1	C1orf114	FLJ25846
1	CCDC181	ENSG00000117477	ENST00000456107	protein_coding	KNOWN	None	28051	1068	355	169390601	169396700	-1	C1orf114	FLJ25846
1	CCDC181	ENSG00000117477	ENST00000545005	protein_coding	KNOWN	CCDS1279	28051	1527	508	169364285	169429907	-1	C1orf114	FLJ25846
6	None	ENSG00000256731	ENST00000541740	pseudogene	KNOWN	None	None	None	None	160824666	160825898	1	None	None
2	PASK	ENSG00000115687	ENST00000234040	protein_coding	KNOWN	CCDS2545	17270	3972	1323	242045514	242088919	-1	None	PASKIN, KIAA0135, STK37
2	PASK	ENSG00000115687	ENST00000472072	retained_intron	KNOWN	None	17270	None	None	242045710	242049195	-1	None	PASKIN, KIAA0135, STK37
2	PASK	ENSG00000115687	ENST00000405260	protein_coding	KNOWN	CCDS2545	17270	3972	1323	242045710	242089679	-1	None	PASKIN, KIAA0135, STK37
2	PASK	ENSG00000115687	ENST00000358649	protein_coding	KNOWN	CCDS58759	17270	3993	1330	242045712	242088850	-1	None	PASKIN, KIAA0135, STK37
2	PASK	ENSG00000115687	ENST00000489256	retained_intron	KNOWN	None	17270	None	None	242046875	242052201	-1	None	PASKIN, KIAA0135, STK37
2	PASK	ENSG00000115687	ENST00000475666	processed_transcript	KNOWN	None	17270	None	None	242046880	242051840	-1	None	PASKIN, KIAA0135, STK37
2	PASK	ENSG00000115687	ENST00000403638	protein_coding	PUTATIVE	CCDS58758	17270	3432	1143	242052722	242088878	-1	None	PASKIN, KIAA0135, STK37
2	PASK	ENSG00000115687	ENST00000493544	retained_intron	KNOWN	None	17270	None	None	242053050	242074184	-1	None	PASKIN, KIAA0135, STK37
2	PASK	ENSG00000115687	ENST00000459710	processed_transcript	PUTATIVE	None	17270	None	None	242066401	242067174	-1	None	PASKIN, KIAA0135, STK37
2	PASK	ENSG00000115687	ENST00000437780	nonsense_mediated_decay	KNOWN	None	17270	216	71	242075291	242088898	-1	None	PASKIN, KIAA0135, STK37
2	PASK	ENSG00000115687	ENST00000433589	protein_coding	NOVEL	None	17270	578	191	242076422	242079010	-1	None	PASKIN, KIAA0135, STK37
2	PASK	ENSG00000115687	ENST00000415234	protein_coding	PUTATIVE	None	17270	422	139	242076486	242088896	-1	None	PASKIN, KIAA0135, STK37
2	PASK	ENSG00000115687	ENST00000485940	retained_intron	KNOWN	None	17270	None	None	242078167	242080282	-1	None	PASKIN, KIAA0135, STK37
2	PASK	ENSG00000115687	ENST00000452907	protein_coding	KNOWN	None	17270	376	124	242079989	242088864	-1	None	PASKIN, KIAA0135, STK37
2	PASK	ENSG00000115687	ENST00000544142	protein_coding	KNOWN	None	17270	3414	1137	242045590	242082488	-1	None	PASKIN, KIAA0135, STK37
2	PASK	ENSG00000115687	ENST00000539818	protein_coding	KNOWN	None	17270	3324	1107	242045769	242088896	-1	None	PASKIN, KIAA0135, STK37
16	None	ENSG00000221134	ENST00000408207	miRNA	NOVEL	None	None	None	None	49713131	49713212	1	None	None
7	ZC3HAV1	ENSG00000105939	ENST00000242351	protein_coding	KNOWN	CCDS5851	23721	2709	902	138728266	138794394	-1	None	ZAP, FLB6421, FLJ13288, MGC48898, ZC3HDC2, ZC3H2, PARP13
7	ZC3HAV1	ENSG00000105939	ENST00000464606	protein_coding	NOVEL	None	23721	3075	1024	138730662	138794100	-1	None	ZAP, FLB6421, FLJ13288, MGC48898, ZC3HDC2, ZC3H2, PARP13
7	ZC3HAV1	ENSG00000105939	ENST00000460845	protein_coding	NOVEL	None	23721	793	263	138745084	138764013	-1	None	ZAP, FLB6421, FLJ13288, MGC48898, ZC3HDC2, ZC3H2, PARP13
7	ZC3HAV1	ENSG00000105939	ENST00000471652	protein_coding	KNOWN	CCDS55171	23721	2100	699	138745084	138794465	-1	None	ZAP, FLB6421, FLJ13288, MGC48898, ZC3HDC2, ZC3H2, PARP13
22	PMM1	ENSG00000100417	ENST00000216259	protein_coding	KNOWN	CCDS14020	9114	789	262	41972898	41985894	-1	None	Sec53
22	PMM1	ENSG00000100417	ENST00000463617	retained_intron	KNOWN	None	9114	None	None	41972907	41976693	-1	None	Sec53
22	PMM1	ENSG00000100417	ENST00000482178	retained_intron	KNOWN	None	9114	None	None	41972907	41981406	-1	None	Sec53
22	PMM1	ENSG00000100417	ENST00000472620	retained_intron	KNOWN	None	9114	None	None	41972935	41985875	-1	None	Sec53
22	PMM1	ENSG00000100417	ENST00000485648	retained_intron	KNOWN	None	9114	None	None	41972941	41985822	-1	None	Sec53
22	PMM1	ENSG00000100417	ENST00000466645	processed_transcript	KNOWN	None	9114	None	None	41979987	41985800	-1	None	Sec53
22	PMM1	ENSG00000100417	ENST00000478337	retained_intron	KNOWN	None	9114	None	None	41980010	41985829	-1	None	Sec53
22	PMM1	ENSG00000100417	ENST00000414636	nonsense_mediated_decay	KNOWN	None	9114	207	68	41980024	41985851	-1	None	Sec53
22	PMM1	ENSG00000100417	ENST00000493389	retained_intron	KNOWN	None	9114	None	None	41982110	41985833	-1	None	Sec53
16	MRPS21P7	ENSG00000260024	ENST00000566937	processed_pseudogene	KNOWN	None	29754	None	None	49741917	49742154	1	None	None
HSCHR6_MHC_MANN	IER3	ENSG00000230128	ENST00000450236	protein_coding	KNOWN	None	5392	471	156	30755673	30757028	-1	None	IEX-1, DIF-2, PRG1, IEX-1L
HSCHR6_MHC_MANN	IER3	ENSG00000230128	ENST00000436988	protein_coding	KNOWN	None	5392	417	138	30755673	30757022	-1	None	IEX-1, DIF-2, PRG1, IEX-1L
11	HSD17B12	ENSG00000149084	ENST00000526615	processed_transcript	KNOWN	None	18646	None	None	43577986	43694812	1	None	KAR, SDR12C1
11	HSD17B12	ENSG00000149084	ENST00000532864	processed_transcript	KNOWN	None	18646	None	None	43600439	43859948	1	None	KAR, SDR12C1
11	HSD17B12	ENSG00000149084	ENST00000533358	processed_transcript	KNOWN	None	18646	None	None	43601045	43694793	1	None	KAR, SDR12C1
11	HSD17B12	ENSG00000149084	ENST00000529261	processed_transcript	KNOWN	None	18646	None	None	43665816	43852555	1	None	KAR, SDR12C1
11	HSD17B12	ENSG00000149084	ENST00000532989	processed_transcript	PUTATIVE	None	18646	None	None	43691836	43694832	1	None	KAR, SDR12C1
11	HSD17B12	ENSG00000149084	ENST00000527433	processed_transcript	PUTATIVE	None	18646	None	None	43702230	43775671	1	None	KAR, SDR12C1
11	HSD17B12	ENSG00000149084	ENST00000531185	protein_coding	NOVEL	None	18646	492	163	43702259	43859945	1	None	KAR, SDR12C1
11	HSD17B12	ENSG00000149084	ENST00000278353	protein_coding	KNOWN	CCDS7905	18646	939	312	43702259	43878160	1	None	KAR, SDR12C1
11	HSD17B12	ENSG00000149084	ENST00000395700	protein_coding	PUTATIVE	None	18646	297	98	43702331	43777086	1	None	KAR, SDR12C1
11	HSD17B12	ENSG00000149084	ENST00000527213	processed_transcript	KNOWN	None	18646	None	None	43745589	43861583	1	None	KAR, SDR12C1
11	HSD17B12	ENSG00000149084	ENST00000532178	processed_transcript	PUTATIVE	None	18646	None	None	43775594	43828011	1	None	KAR, SDR12C1
11	HSD17B12	ENSG00000149084	ENST00000533090	retained_intron	KNOWN	None	18646	None	None	43851613	43877448	1	None	KAR, SDR12C1
11	HSD17B12	ENSG00000149084	ENST00000533802	processed_transcript	KNOWN	None	18646	None	None	43855624	43876855	1	None	KAR, SDR12C1
11	HSD17B12	ENSG00000149084	ENST00000534053	retained_intron	KNOWN	None	18646	None	None	43859499	43876331	1	None	KAR, SDR12C1
11	HSD17B12	ENSG00000149084	ENST00000525736	retained_intron	KNOWN	None	18646	None	None	43873597	43878167	1	None	KAR, SDR12C1
16	MRPS21P8	ENSG00000259978	ENST00000569196	processed_pseudogene	KNOWN	None	29755	None	None	49798365	49798599	1	None	None
9	PGM5P2	ENSG00000227558	ENST00000591037	processed_transcript	KNOWN	None	18965	None	None	69080240	69147846	-1	None	None
9	PGM5P2	ENSG00000227558	ENST00000591207	processed_transcript	KNOWN	None	18965	None	None	69100243	69120833	-1	None	None
9	PGM5P2	ENSG00000227558	ENST00000426020	transcribed_unprocessed_pseudogene	KNOWN	None	18965	None	None	69112841	69147494	-1	None	None
9	PGM5P2	ENSG00000227558	ENST00000272546	unprocessed_pseudogene	KNOWN	None	18965	None	None	69113553	69147854	-1	None	None
11	TTC36	ENSG00000172425	ENST00000302783	protein_coding	KNOWN	CCDS31687	33708	570	189	118398187	118401912	1	None	HBP21
11	TTC36	ENSG00000172425	ENST00000533501	nonsense_mediated_decay	KNOWN	None	33708	147	48	118398187	118401912	1	None	HBP21
11	TTC36	ENSG00000172425	ENST00000528570	nonsense_mediated_decay	KNOWN	None	33708	147	48	118398187	118401912	1	None	HBP21
11	TTC36	ENSG00000172425	ENST00000539546	protein_coding	KNOWN	None	33708	393	130	118398187	118401912	1	None	HBP21
HSCHR6_MHC_MCF	None	ENSG00000263598	ENST00000580668	snRNA	NOVEL	None	None	None	None	28883588	28883687	1	None	None
22	None	ENSG00000232897	ENST00000413815	processed_pseudogene	KNOWN	None	None	None	None	48058308	48059352	-1	None	None
15	THSD4	ENSG00000187720	ENST00000355327	protein_coding	KNOWN	CCDS10238	25835	3057	1018	71389291	72075722	1	None	FVSY9334, PRO34005, FLJ13710, ADAMTSL6
15	THSD4	ENSG00000187720	ENST00000567745	retained_intron	KNOWN	None	25835	None	None	71839567	72030556	1	None	FVSY9334, PRO34005, FLJ13710, ADAMTSL6
15	THSD4	ENSG00000187720	ENST00000357769	protein_coding	PUTATIVE	None	25835	1977	658	71839575	72070965	1	None	FVSY9334, PRO34005, FLJ13710, ADAMTSL6
15	THSD4	ENSG00000187720	ENST00000567838	processed_transcript	KNOWN	None	25835	None	None	71952794	72059990	1	None	FVSY9334, PRO34005, FLJ13710, ADAMTSL6
15	THSD4	ENSG00000187720	ENST00000567776	retained_intron	KNOWN	None	25835	None	None	71952864	72026271	1	None	FVSY9334, PRO34005, FLJ13710, ADAMTSL6
15	THSD4	ENSG00000187720	ENST00000261862	protein_coding	KNOWN	CCDS10238	25835	3057	1018	71433788	72075722	1	None	FVSY9334, PRO34005, FLJ13710, ADAMTSL6
HSCHR6_MHC_MCF	None	ENSG00000264597	ENST00000577318	misc_RNA	NOVEL	None	None	None	None	28894881	28895162	1	None	None
18	SMAD2	ENSG00000175387	ENST00000262160	protein_coding	KNOWN	CCDS11934	6768	1404	467	45357922	45456930	-1	MADH2	MADR2, JV18-1
18	SMAD2	ENSG00000175387	ENST00000402690	protein_coding	KNOWN	CCDS11934	6768	1404	467	45357922	45457512	-1	MADH2	MADR2, JV18-1
18	SMAD2	ENSG00000175387	ENST00000586040	protein_coding	NOVEL	None	6768	1314	437	45367596	45423182	-1	MADH2	MADR2, JV18-1
18	SMAD2	ENSG00000175387	ENST00000591214	protein_coding	KNOWN	None	6768	1296	431	45371283	45457213	-1	MADH2	MADR2, JV18-1
18	SMAD2	ENSG00000175387	ENST00000587353	processed_transcript	KNOWN	None	6768	None	None	45394634	45413294	-1	MADH2	MADR2, JV18-1
18	SMAD2	ENSG00000175387	ENST00000587269	protein_coding	KNOWN	None	6768	652	216	45394697	45456970	-1	MADH2	MADR2, JV18-1
18	SMAD2	ENSG00000175387	ENST00000586514	protein_coding	KNOWN	None	6768	651	216	45394698	45457208	-1	MADH2	MADR2, JV18-1
18	SMAD2	ENSG00000175387	ENST00000587421	protein_coding	KNOWN	None	6768	411	136	45395723	45456733	-1	MADH2	MADR2, JV18-1
18	SMAD2	ENSG00000175387	ENST00000586487	processed_transcript	PUTATIVE	None	6768	None	None	45396844	45422096	-1	MADH2	MADR2, JV18-1
18	SMAD2	ENSG00000175387	ENST00000589877	protein_coding	KNOWN	None	6768	328	108	45396844	45457226	-1	MADH2	MADR2, JV18-1
18	SMAD2	ENSG00000175387	ENST00000585978	protein_coding	KNOWN	None	6768	326	107	45396846	45450013	-1	MADH2	MADR2, JV18-1
18	SMAD2	ENSG00000175387	ENST00000356825	protein_coding	KNOWN	None	6768	1314	437	45359466	45457515	-1	MADH2	MADR2, JV18-1
11	FAT3	ENSG00000165323	ENST00000525166	protein_coding	NOVEL	None	23112	13320	4439	92085707	92629411	1	None	KIAA1989, CDHF15, CDHR10
11	FAT3	ENSG00000165323	ENST00000528921	processed_transcript	KNOWN	None	23112	None	None	92088352	92258115	1	None	KIAA1989, CDHF15, CDHR10
11	FAT3	ENSG00000165323	ENST00000533797	protein_coding	PUTATIVE	None	23112	2679	892	92577506	92629471	1	None	KIAA1989, CDHF15, CDHR10
11	FAT3	ENSG00000165323	ENST00000489716	processed_transcript	KNOWN	None	23112	None	None	92616465	92624028	1	None	KIAA1989, CDHF15, CDHR10
11	FAT3	ENSG00000165323	ENST00000469900	retained_intron	KNOWN	None	23112	None	None	92620031	92623792	1	None	KIAA1989, CDHF15, CDHR10
11	FAT3	ENSG00000165323	ENST00000298047	protein_coding	KNOWN	None	23112	13770	4589	92085262	92629618	1	None	KIAA1989, CDHF15, CDHR10
11	FAT3	ENSG00000165323	ENST00000409404	protein_coding	KNOWN	None	23112	13674	4557	92085262	92629618	1	None	KIAA1989, CDHF15, CDHR10
11	FAT3	ENSG00000165323	ENST00000541502	protein_coding	KNOWN	None	23112	3765	1254	92085262	92292733	1	None	KIAA1989, CDHF15, CDHR10
9	GLULP4	ENSG00000178723	ENST00000324731	processed_pseudogene	KNOWN	None	4345	None	None	34917172	34918293	1	GLULP	None
16	None	ENSG00000261289	ENST00000564017	processed_pseudogene	KNOWN	None	None	None	None	31963481	31963794	1	None	None
HSCHR6_MHC_MCF	OR2AD1P	ENSG00000225567	ENST00000439100	unprocessed_pseudogene	KNOWN	None	14749	None	None	28994615	28995542	-1	None	OR2AD1, hs6M1-8P
22	None	ENSG00000230345	ENST00000449941	lincRNA	KNOWN	None	None	None	None	48256420	48257811	1	None	None
12	LAG3	ENSG00000089692	ENST00000538079	retained_intron	KNOWN	None	6476	None	None	6881678	6887621	1	None	CD223
12	LAG3	ENSG00000089692	ENST00000441671	protein_coding	NOVEL	None	6476	1083	360	6881685	6884899	1	None	CD223
12	LAG3	ENSG00000089692	ENST00000203629	protein_coding	KNOWN	CCDS8561	6476	1578	525	6881686	6887619	1	None	CD223
12	LAG3	ENSG00000089692	ENST00000541049	retained_intron	KNOWN	None	6476	None	None	6886616	6887621	1	None	CD223
1	IFNLR1	ENSG00000185436	ENST00000327535	protein_coding	KNOWN	CCDS248	18584	1563	520	24480647	24513751	-1	IL28RA	CRF2/12, IFNLR, IL-28R1
1	IFNLR1	ENSG00000185436	ENST00000327575	protein_coding	NOVEL	CCDS250	18584	735	244	24483589	24513751	-1	IL28RA	CRF2/12, IFNLR, IL-28R1
1	IFNLR1	ENSG00000185436	ENST00000374421	protein_coding	KNOWN	CCDS249	18584	1476	491	24483620	24513738	-1	IL28RA	CRF2/12, IFNLR, IL-28R1
1	IFNLR1	ENSG00000185436	ENST00000374419	protein_coding	PUTATIVE	None	18584	558	185	24485490	24514449	-1	IL28RA	CRF2/12, IFNLR, IL-28R1
1	IFNLR1	ENSG00000185436	ENST00000374418	protein_coding	KNOWN	None	18584	636	211	24487868	24513738	-1	IL28RA	CRF2/12, IFNLR, IL-28R1
15	None	ENSG00000268759	ENST00000593303	protein_coding	NOVEL	None	None	561	186	32774822	32780287	1	None	None
4	None	ENSG00000266046	ENST00000581081	miRNA	NOVEL	None	None	None	None	109498228	109498296	-1	None	None
10	CHUK	ENSG00000213341	ENST00000370397	protein_coding	KNOWN	CCDS7488	1974	2238	745	101948055	101989376	-1	TCF16	IKK1, IKK-alpha, IkBKA, NFKBIKA, IKKA
10	CHUK	ENSG00000213341	ENST00000590930	processed_transcript	KNOWN	None	1974	None	None	101948124	101955699	-1	TCF16	IKK1, IKK-alpha, IkBKA, NFKBIKA, IKKA
10	CHUK	ENSG00000213341	ENST00000588656	processed_transcript	KNOWN	None	1974	None	None	101948949	101953836	-1	TCF16	IKK1, IKK-alpha, IkBKA, NFKBIKA, IKKA
10	CHUK	ENSG00000213341	ENST00000585551	processed_transcript	KNOWN	None	1974	None	None	101950428	101953180	-1	TCF16	IKK1, IKK-alpha, IkBKA, NFKBIKA, IKKA
6	None	ENSG00000216809	ENST00000407450	processed_pseudogene	KNOWN	None	None	None	None	118773632	118776155	-1	None	None
22	None	ENSG00000235154	ENST00000457518	lincRNA	KNOWN	None	None	None	None	48440527	48444366	-1	None	None
9	YWHAZP6	ENSG00000215199	ENST00000399764	processed_pseudogene	KNOWN	None	30849	None	None	34922181	34922918	-1	None	None
1	LZIC	ENSG00000162441	ENST00000488540	protein_coding	PUTATIVE	None	17497	510	169	9982173	9995678	-1	None	MGC15436
1	LZIC	ENSG00000162441	ENST00000377223	protein_coding	KNOWN	CCDS107	17497	573	190	9988997	10003387	-1	None	MGC15436
1	LZIC	ENSG00000162441	ENST00000377213	protein_coding	KNOWN	CCDS107	17497	573	190	9990311	10003465	-1	None	MGC15436
1	LZIC	ENSG00000162441	ENST00000471853	retained_intron	KNOWN	None	17497	None	None	9990319	9992238	-1	None	MGC15436
1	LZIC	ENSG00000162441	ENST00000541052	protein_coding	KNOWN	None	17497	636	211	9990195	10003422	-1	None	MGC15436
1	LZIC	ENSG00000162441	ENST00000400903	protein_coding	KNOWN	CCDS107	17497	573	190	9989778	10002826	-1	None	MGC15436
6	BRD7P3	ENSG00000169075	ENST00000469424	processed_pseudogene	KNOWN	None	24171	None	None	118822593	118824069	1	None	None
16	None	ENSG00000197476	ENST00000563488	processed_pseudogene	KNOWN	None	None	None	None	31973384	31973702	1	None	None
16	None	ENSG00000197476	ENST00000356559	processed_pseudogene	KNOWN	None	None	None	None	31973409	31985682	1	None	None
3	IFT57	ENSG00000114446	ENST00000264538	protein_coding	KNOWN	CCDS2951	17367	1290	429	107879659	107941417	-1	ESRRBL1	FLJ10147, HIPPI, MHS4R2
3	IFT57	ENSG00000114446	ENST00000468021	processed_transcript	KNOWN	None	17367	None	None	107884282	107886023	-1	ESRRBL1	FLJ10147, HIPPI, MHS4R2
3	IFT57	ENSG00000114446	ENST00000478157	nonsense_mediated_decay	KNOWN	None	17367	246	81	107885701	107941282	-1	ESRRBL1	FLJ10147, HIPPI, MHS4R2
3	IFT57	ENSG00000114446	ENST00000465024	retained_intron	KNOWN	None	17367	None	None	107932646	107941207	-1	ESRRBL1	FLJ10147, HIPPI, MHS4R2
3	IFT57	ENSG00000114446	ENST00000485979	retained_intron	KNOWN	None	17367	None	None	107937240	107938391	-1	ESRRBL1	FLJ10147, HIPPI, MHS4R2
3	IFT57	ENSG00000114446	ENST00000492106	protein_coding	PUTATIVE	None	17367	473	156	107938252	107941222	-1	ESRRBL1	FLJ10147, HIPPI, MHS4R2
X	EFHC2	ENSG00000183690	ENST00000343571	processed_transcript	KNOWN	None	26233	None	None	44007128	44085002	-1	None	FLJ22843
X	EFHC2	ENSG00000183690	ENST00000420999	protein_coding	KNOWN	CCDS55405	26233	2250	749	44007911	44202918	-1	None	FLJ22843
18	DSG4	ENSG00000175065	ENST00000308128	protein_coding	KNOWN	CCDS11897	21307	3123	1040	28956740	28993879	1	None	CDHF13, LAH
18	DSG4	ENSG00000175065	ENST00000359747	protein_coding	KNOWN	CCDS45845	21307	3180	1059	28956846	28994875	1	None	CDHF13, LAH
6	SSXP10	ENSG00000217330	ENST00000402595	processed_pseudogene	KNOWN	None	30638	None	None	118910233	118910797	1	None	psiSSX10
5	SUDS3P1	ENSG00000249129	ENST00000505831	processed_pseudogene	KNOWN	None	44000	None	None	177398317	177399282	1	None	None
9	SYK	ENSG00000165025	ENST00000375754	protein_coding	KNOWN	CCDS6688	11491	1908	635	93564069	93660831	1	None	None
9	SYK	ENSG00000165025	ENST00000375751	protein_coding	KNOWN	CCDS47992	11491	1839	612	93564069	93660831	1	None	None
9	SYK	ENSG00000165025	ENST00000375747	protein_coding	KNOWN	CCDS47992	11491	1839	612	93564209	93660831	1	None	None
9	SYK	ENSG00000165025	ENST00000476708	processed_transcript	KNOWN	None	11491	None	None	93564244	93606528	1	None	None
9	SYK	ENSG00000165025	ENST00000375746	protein_coding	KNOWN	CCDS6688	11491	1908	635	93589770	93660831	1	None	None
3	BDH1	ENSG00000161267	ENST00000392378	protein_coding	KNOWN	CCDS3328	1027	1032	343	197236654	197282919	-1	BDH	SDR9C1
3	BDH1	ENSG00000161267	ENST00000441275	protein_coding	PUTATIVE	None	1027	771	256	197238465	197282858	-1	BDH	SDR9C1
3	BDH1	ENSG00000161267	ENST00000479425	retained_intron	KNOWN	None	1027	None	None	197238866	197250131	-1	BDH	SDR9C1
3	BDH1	ENSG00000161267	ENST00000446746	protein_coding	PUTATIVE	None	1027	498	165	197239039	197282843	-1	BDH	SDR9C1
3	BDH1	ENSG00000161267	ENST00000455876	protein_coding	NOVEL	None	1027	386	127	197239093	197241266	-1	BDH	SDR9C1
3	BDH1	ENSG00000161267	ENST00000477015	retained_intron	KNOWN	None	1027	None	None	197239199	197260511	-1	BDH	SDR9C1
3	BDH1	ENSG00000161267	ENST00000483920	processed_transcript	PUTATIVE	None	1027	None	None	197241134	197242732	-1	BDH	SDR9C1
3	BDH1	ENSG00000161267	ENST00000434143	protein_coding	PUTATIVE	None	1027	506	167	197241134	197265355	-1	BDH	SDR9C1
3	BDH1	ENSG00000161267	ENST00000432819	protein_coding	PUTATIVE	None	1027	560	185	197241137	197282851	-1	BDH	SDR9C1
3	BDH1	ENSG00000161267	ENST00000495285	retained_intron	KNOWN	None	1027	None	None	197255181	197261027	-1	BDH	SDR9C1
3	BDH1	ENSG00000161267	ENST00000431056	protein_coding	KNOWN	None	1027	267	88	197259283	197300194	-1	BDH	SDR9C1
3	BDH1	ENSG00000161267	ENST00000445160	protein_coding	KNOWN	None	1027	152	49	197260364	197282829	-1	BDH	SDR9C1
3	BDH1	ENSG00000161267	ENST00000468710	processed_transcript	PUTATIVE	None	1027	None	None	197265538	197282848	-1	BDH	SDR9C1
3	BDH1	ENSG00000161267	ENST00000492681	retained_intron	KNOWN	None	1027	None	None	197272990	197282827	-1	BDH	SDR9C1
3	BDH1	ENSG00000161267	ENST00000476764	processed_transcript	PUTATIVE	None	1027	None	None	197281242	197282547	-1	BDH	SDR9C1
3	BDH1	ENSG00000161267	ENST00000358186	protein_coding	KNOWN	CCDS3328	1027	1032	343	197236654	197300194	-1	BDH	SDR9C1
3	BDH1	ENSG00000161267	ENST00000392379	protein_coding	KNOWN	CCDS3328	1027	1032	343	197236654	197282858	-1	BDH	SDR9C1
Y	TBL1YP1	ENSG00000225624	ENST00000440297	unprocessed_pseudogene	KNOWN	None	23979	None	None	22889140	22904786	1	None	None
16	None	ENSG00000260218	ENST00000568304	processed_pseudogene	KNOWN	None	None	None	None	31975124	31975400	1	None	None
5	KRT18P45	ENSG00000249438	ENST00000515347	processed_pseudogene	KNOWN	None	33415	None	None	79584268	79585600	1	None	None
6	None	ENSG00000225549	ENST00000429807	processed_transcript	KNOWN	None	None	None	None	119078681	119104583	1	None	None
6	None	ENSG00000225549	ENST00000404721	transcribed_processed_pseudogene	KNOWN	None	None	None	None	119104011	119104294	1	None	None
HSCHR6_MHC_COX	PFDN6	ENSG00000237335	ENST00000445559	protein_coding	KNOWN	None	4926	390	129	33178689	33180320	1	HKE2	KE-2, H2-KE2, PFD6
HSCHR6_MHC_COX	PFDN6	ENSG00000237335	ENST00000452658	protein_coding	KNOWN	None	4926	390	129	33178982	33180320	1	HKE2	KE-2, H2-KE2, PFD6
HSCHR6_MHC_COX	PFDN6	ENSG00000237335	ENST00000458186	retained_intron	KNOWN	None	4926	None	None	33178983	33180262	1	HKE2	KE-2, H2-KE2, PFD6
HSCHR6_MHC_COX	PFDN6	ENSG00000237335	ENST00000448594	protein_coding	KNOWN	None	4926	390	129	33178984	33180249	1	HKE2	KE-2, H2-KE2, PFD6
HSCHR6_MHC_COX	PFDN6	ENSG00000237335	ENST00000462204	retained_intron	KNOWN	None	4926	None	None	33179014	33180255	1	HKE2	KE-2, H2-KE2, PFD6
HSCHR6_MHC_COX	PFDN6	ENSG00000237335	ENST00000491095	protein_coding	KNOWN	None	4926	312	103	33179162	33187788	1	HKE2	KE-2, H2-KE2, PFD6
HSCHR6_MHC_COX	PFDN6	ENSG00000237335	ENST00000547952	protein_coding	KNOWN	None	4926	390	129	33178988	33180308	1	HKE2	KE-2, H2-KE2, PFD6
5	None	ENSG00000218227	ENST00000477964	processed_pseudogene	KNOWN	None	None	None	None	177482605	177483195	1	None	None
5	None	ENSG00000184188	ENST00000507366	processed_pseudogene	KNOWN	None	None	None	None	79595497	79598666	-1	None	None
Y	HSFY4P	ENSG00000224482	ENST00000415994	unprocessed_pseudogene	KNOWN	None	37721	None	None	22970662	22973695	-1	None	None
15	GOLGA8N	ENSG00000232653	ENST00000567075	retained_intron	KNOWN	None	44405	None	None	32885661	32888981	1	None	None
15	GOLGA8N	ENSG00000232653	ENST00000569659	protein_coding	NOVEL	None	44405	1791	596	32885755	32896179	1	None	None
15	GOLGA8N	ENSG00000232653	ENST00000569536	retained_intron	KNOWN	None	44405	None	None	32888449	32889841	1	None	None
15	GOLGA8N	ENSG00000232653	ENST00000605665	processed_transcript	KNOWN	None	44405	None	None	32894213	32895488	1	None	None
15	GOLGA8N	ENSG00000232653	ENST00000448387	protein_coding	KNOWN	None	44405	1899	632	32885657	32896179	1	None	None
15	GOLGA8N	ENSG00000232653	ENST00000426622	protein_coding	KNOWN	None	44405	720	239	32888449	32893133	1	None	None
Y	None	ENSG00000216844	ENST00000406090	processed_pseudogene	KNOWN	None	None	None	None	23005142	23005596	-1	None	None
HSCHR6_MHC_QBL	PSMB8	ENSG00000206298	ENST00000477407	retained_intron	KNOWN	None	9545	None	None	32737204	32738521	-1	LMP7	RING10, D6S216E, PSMB5i, beta5i
HSCHR6_MHC_QBL	PSMB8	ENSG00000206298	ENST00000399630	protein_coding	KNOWN	None	9545	759	252	32737204	32740507	-1	LMP7	RING10, D6S216E, PSMB5i, beta5i
HSCHR6_MHC_QBL	PSMB8	ENSG00000206298	ENST00000383236	protein_coding	KNOWN	None	9545	831	276	32737204	32740534	-1	LMP7	RING10, D6S216E, PSMB5i, beta5i
HSCHR6_MHC_QBL	PSMB8	ENSG00000206298	ENST00000383238	protein_coding	KNOWN	None	9545	819	272	32737204	32741190	-1	LMP7	RING10, D6S216E, PSMB5i, beta5i
HSCHR6_MHC_QBL	PSMB8	ENSG00000206298	ENST00000461590	retained_intron	KNOWN	None	9545	None	None	32737508	32741138	-1	LMP7	RING10, D6S216E, PSMB5i, beta5i
1	SLC44A3	ENSG00000143036	ENST00000446120	protein_coding	KNOWN	CCDS58013	28689	1854	617	95285898	95360608	1	None	MGC45474, CTL3
1	SLC44A3	ENSG00000143036	ENST00000271227	protein_coding	KNOWN	CCDS44176	28689	1962	653	95285906	95360802	1	None	MGC45474, CTL3
1	SLC44A3	ENSG00000143036	ENST00000527077	protein_coding	NOVEL	CCDS58012	28689	1758	585	95285953	95360608	1	None	MGC45474, CTL3
1	SLC44A3	ENSG00000143036	ENST00000529450	protein_coding	NOVEL	CCDS58011	28689	1863	620	95285957	95360609	1	None	MGC45474, CTL3
1	SLC44A3	ENSG00000143036	ENST00000467909	protein_coding	KNOWN	CCDS751	28689	1818	605	95286177	95360609	1	None	MGC45474, CTL3
1	SLC44A3	ENSG00000143036	ENST00000422520	protein_coding	KNOWN	None	28689	489	162	95286202	95303390	1	None	MGC45474, CTL3
1	SLC44A3	ENSG00000143036	ENST00000532427	protein_coding	NOVEL	None	28689	1722	573	95286206	95360585	1	None	MGC45474, CTL3
1	SLC44A3	ENSG00000143036	ENST00000475883	nonsense_mediated_decay	KNOWN	None	28689	251	82	95290050	95360609	1	None	MGC45474, CTL3
1	SLC44A3	ENSG00000143036	ENST00000530397	processed_transcript	KNOWN	None	28689	None	None	95292995	95356760	1	None	MGC45474, CTL3
1	SLC44A3	ENSG00000143036	ENST00000532670	protein_coding	NOVEL	None	28689	330	109	95332887	95360608	1	None	MGC45474, CTL3
14	METTL17	ENSG00000165792	ENST00000339374	protein_coding	KNOWN	CCDS9562	19280	1371	456	21457929	21465189	1	METT11D1	FLJ20859
14	METTL17	ENSG00000165792	ENST00000554949	retained_intron	KNOWN	None	19280	None	None	21458132	21460352	1	METT11D1	FLJ20859
14	METTL17	ENSG00000165792	ENST00000555177	processed_transcript	KNOWN	None	19280	None	None	21458139	21460435	1	METT11D1	FLJ20859
14	METTL17	ENSG00000165792	ENST00000554985	retained_intron	KNOWN	None	19280	None	None	21458139	21460826	1	METT11D1	FLJ20859
14	METTL17	ENSG00000165792	ENST00000554588	retained_intron	KNOWN	None	19280	None	None	21458139	21461275	1	METT11D1	FLJ20859
14	METTL17	ENSG00000165792	ENST00000382985	protein_coding	KNOWN	CCDS41913	19280	1437	478	21458139	21465168	1	METT11D1	FLJ20859
14	METTL17	ENSG00000165792	ENST00000556670	protein_coding	PUTATIVE	None	19280	1344	447	21458146	21465189	1	METT11D1	FLJ20859
14	METTL17	ENSG00000165792	ENST00000555640	nonsense_mediated_decay	KNOWN	None	19280	477	158	21458153	21465154	1	METT11D1	FLJ20859
14	METTL17	ENSG00000165792	ENST00000555533	nonsense_mediated_decay	KNOWN	None	19280	477	158	21458153	21465169	1	METT11D1	FLJ20859
14	METTL17	ENSG00000165792	ENST00000557701	retained_intron	KNOWN	None	19280	None	None	21458155	21460463	1	METT11D1	FLJ20859
14	METTL17	ENSG00000165792	ENST00000556442	retained_intron	KNOWN	None	19280	None	None	21458158	21458891	1	METT11D1	FLJ20859
14	METTL17	ENSG00000165792	ENST00000553564	protein_coding	PUTATIVE	None	19280	421	139	21458161	21462192	1	METT11D1	FLJ20859
14	METTL17	ENSG00000165792	ENST00000557550	nonsense_mediated_decay	KNOWN	None	19280	477	158	21458162	21465175	1	METT11D1	FLJ20859
14	METTL17	ENSG00000165792	ENST00000554751	protein_coding	PUTATIVE	None	19280	306	101	21458189	21461300	1	METT11D1	FLJ20859
14	METTL17	ENSG00000165792	ENST00000554283	protein_coding	PUTATIVE	None	19280	559	185	21458191	21460363	1	METT11D1	FLJ20859
14	METTL17	ENSG00000165792	ENST00000553441	retained_intron	KNOWN	None	19280	None	None	21458195	21461416	1	METT11D1	FLJ20859
14	METTL17	ENSG00000165792	ENST00000553536	retained_intron	KNOWN	None	19280	None	None	21458202	21461117	1	METT11D1	FLJ20859
14	METTL17	ENSG00000165792	ENST00000555670	protein_coding	PUTATIVE	None	19280	522	173	21458207	21462772	1	METT11D1	FLJ20859
14	METTL17	ENSG00000165792	ENST00000555902	retained_intron	KNOWN	None	19280	None	None	21458706	21463364	1	METT11D1	FLJ20859
14	METTL17	ENSG00000165792	ENST00000555390	retained_intron	KNOWN	None	19280	None	None	21458728	21461601	1	METT11D1	FLJ20859
14	METTL17	ENSG00000165792	ENST00000554354	processed_transcript	PUTATIVE	None	19280	None	None	21458735	21465187	1	METT11D1	FLJ20859
14	METTL17	ENSG00000165792	ENST00000557279	retained_intron	KNOWN	None	19280	None	None	21459912	21461471	1	METT11D1	FLJ20859
14	METTL17	ENSG00000165792	ENST00000553389	retained_intron	KNOWN	None	19280	None	None	21463007	21465189	1	METT11D1	FLJ20859
14	METTL17	ENSG00000165792	ENST00000554849	retained_intron	KNOWN	None	19280	None	None	21463276	21465164	1	METT11D1	FLJ20859
14	METTL17	ENSG00000165792	ENST00000556733	protein_coding	NOVEL	None	19280	370	122	21464089	21465189	1	METT11D1	FLJ20859
5	None	ENSG00000251828	ENST00000516019	snoRNA	NOVEL	None	None	None	None	79602054	79602187	-1	None	None
6	LPAL2	ENSG00000213071	ENST00000454031	transcribed_unprocessed_pseudogene	KNOWN	None	21210	None	None	160874460	160932039	-1	APOAL	APOARGC
6	LPAL2	ENSG00000213071	ENST00000606083	processed_transcript	KNOWN	None	21210	None	None	160887587	160898227	-1	APOAL	APOARGC
6	LPAL2	ENSG00000213071	ENST00000435757	processed_transcript	KNOWN	None	21210	None	None	160887841	160932156	-1	APOAL	APOARGC
6	LPAL2	ENSG00000213071	ENST00000335388	processed_transcript	KNOWN	None	21210	None	None	160888216	160932156	-1	APOAL	APOARGC
Y	GAPDHP17	ENSG00000229551	ENST00000449858	processed_pseudogene	KNOWN	None	37765	None	None	23023223	23024223	1	GAPDHP18	None
5	None	ENSG00000244076	ENST00000460281	processed_pseudogene	KNOWN	None	None	None	None	79611490	79611645	1	None	None
5	HNRNPA3P7	ENSG00000253119	ENST00000521638	processed_pseudogene	KNOWN	None	48496	None	None	153717031	153718012	-1	None	None
16	None	ENSG00000260628	ENST00000568208	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	31987124	32015049	1	None	None
16	None	ENSG00000260628	ENST00000569157	processed_transcript	KNOWN	None	None	None	None	31993191	31997709	1	None	None
16	None	ENSG00000260628	ENST00000568570	processed_transcript	KNOWN	None	None	None	None	31993191	32005806	1	None	None
16	None	ENSG00000260628	ENST00000568978	retained_intron	KNOWN	None	None	None	None	32006142	32007397	1	None	None
5	RBMX2P5	ENSG00000227087	ENST00000424312	processed_pseudogene	KNOWN	None	39927	None	None	79627392	79628360	-1	None	None
5	RBMX2P5	ENSG00000227087	ENST00000598089	processed_pseudogene	KNOWN	None	39927	None	None	79627428	79628360	-1	None	None
16	None	ENSG00000260482	ENST00000566996	lincRNA	KNOWN	None	None	None	None	23681332	23684448	1	None	None
5	None	ENSG00000221070	ENST00000408143	miRNA	NOVEL	None	None	None	None	153719592	153719686	-1	None	None
10	SUFU	ENSG00000107882	ENST00000369902	protein_coding	KNOWN	CCDS7537	16466	1455	484	104263744	104393292	1	None	SUFUH, SUFUXL, PRO1280
10	SUFU	ENSG00000107882	ENST00000369899	protein_coding	KNOWN	CCDS53571	16466	1302	433	104263764	104379219	1	None	SUFUH, SUFUXL, PRO1280
10	SUFU	ENSG00000107882	ENST00000423559	protein_coding	PUTATIVE	None	16466	1446	481	104263836	104378416	1	None	SUFUH, SUFUXL, PRO1280
10	SUFU	ENSG00000107882	ENST00000471000	processed_transcript	KNOWN	None	16466	None	None	104350566	104359300	1	None	SUFUH, SUFUXL, PRO1280
5	None	ENSG00000248569	ENST00000514280	processed_pseudogene	KNOWN	None	None	None	None	79646840	79647775	-1	None	None
16	None	ENSG00000259806	ENST00000565266	lincRNA	KNOWN	None	None	None	None	23683453	23686820	1	None	None
5	None	ENSG00000251125	ENST00000509423	lincRNA	KNOWN	None	None	None	None	50746992	50757923	1	None	None
5	MIR1294	ENSG00000221430	ENST00000408503	miRNA	KNOWN	None	35287	None	None	153726666	153726807	1	MIRN1294	hsa-mir-1294
5	HNRNPA1P12	ENSG00000220157	ENST00000515379	processed_pseudogene	KNOWN	None	39130	None	None	79654899	79655859	-1	None	None
HSCHR6_MHC_MCF	TRIM31	ENSG00000223531	ENST00000449412	protein_coding	KNOWN	None	16289	1278	425	30149160	30159367	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_MCF	TRIM31	ENSG00000223531	ENST00000476528	processed_transcript	KNOWN	None	16289	None	None	30149160	30159151	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_MCF	TRIM31	ENSG00000223531	ENST00000489367	retained_intron	KNOWN	None	16289	None	None	30149160	30151920	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_MCF	TRIM31	ENSG00000223531	ENST00000475332	processed_transcript	KNOWN	None	16289	None	None	30149625	30156783	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_MCF	TRIM31	ENSG00000223531	ENST00000476945	retained_intron	KNOWN	None	16289	None	None	30150136	30154463	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_MCF	TRIM31	ENSG00000223531	ENST00000492282	retained_intron	KNOWN	None	16289	None	None	30150194	30151703	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_MCF	TRIM31	ENSG00000223531	ENST00000481056	processed_transcript	KNOWN	None	16289	None	None	30151459	30158447	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_MCF	TRIM31	ENSG00000223531	ENST00000461978	retained_intron	KNOWN	None	16289	None	None	30155006	30157967	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_MCF	TRIM31	ENSG00000223531	ENST00000468297	retained_intron	KNOWN	None	16289	None	None	30157479	30158736	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_MCF	TRIM31	ENSG00000223531	ENST00000550119	protein_coding	KNOWN	None	16289	1278	425	30149162	30159351	-1	None	RNF, HCGI, C6orf13, HCG1
16	None	ENSG00000261266	ENST00000566143	antisense	KNOWN	None	None	None	None	23698370	23699665	-1	None	None
HSCHR6_MHC_MCF	None	ENSG00000257396	ENST00000547322	protein_coding	NOVEL	None	None	39	12	31197072	31197189	1	None	None
5	RN7SL655P	ENSG00000241963	ENST00000486087	misc_RNA	KNOWN	None	46671	None	None	153728988	153729283	1	None	None
5	None	ENSG00000254293	ENST00000518984	lincRNA	KNOWN	None	None	None	None	153863477	153865489	-1	None	None
5	None	ENSG00000254293	ENST00000522134	lincRNA	KNOWN	None	None	None	None	153864833	153865710	-1	None	None
6	VPS52	ENSG00000223501	ENST00000482399	protein_coding	PUTATIVE	None	10518	267	88	33218049	33239653	-1	SACM2L	ARE1
6	VPS52	ENSG00000223501	ENST00000445902	protein_coding	KNOWN	CCDS4770	10518	2172	723	33218049	33239671	-1	SACM2L	ARE1
6	VPS52	ENSG00000223501	ENST00000478934	processed_transcript	KNOWN	None	10518	None	None	33218049	33239824	-1	SACM2L	ARE1
6	VPS52	ENSG00000223501	ENST00000495981	processed_transcript	PUTATIVE	None	10518	None	None	33218383	33231390	-1	SACM2L	ARE1
6	VPS52	ENSG00000223501	ENST00000493674	processed_transcript	PUTATIVE	None	10518	None	None	33218588	33232080	-1	SACM2L	ARE1
6	VPS52	ENSG00000223501	ENST00000471309	processed_transcript	PUTATIVE	None	10518	None	None	33219694	33232341	-1	SACM2L	ARE1
6	VPS52	ENSG00000223501	ENST00000461743	retained_intron	KNOWN	None	10518	None	None	33231325	33231999	-1	SACM2L	ARE1
6	VPS52	ENSG00000223501	ENST00000493379	retained_intron	KNOWN	None	10518	None	None	33231856	33235042	-1	SACM2L	ARE1
6	VPS52	ENSG00000223501	ENST00000495755	retained_intron	KNOWN	None	10518	None	None	33235243	33235930	-1	SACM2L	ARE1
6	VPS52	ENSG00000223501	ENST00000463486	processed_transcript	KNOWN	None	10518	None	None	33235647	33239554	-1	SACM2L	ARE1
6	VPS52	ENSG00000223501	ENST00000464425	processed_transcript	KNOWN	None	10518	None	None	33235648	33239661	-1	SACM2L	ARE1
6	VPS52	ENSG00000223501	ENST00000436044	protein_coding	KNOWN	None	10518	1797	598	33218381	33239717	-1	SACM2L	ARE1
16	None	ENSG00000261583	ENST00000563611	antisense	KNOWN	None	None	None	None	23723311	23724114	1	None	None
1	SLC19A2	ENSG00000117479	ENST00000367802	protein_coding	KNOWN	None	10938	1380	459	169433147	169455146	-1	TRMA	THTR1
1	SLC19A2	ENSG00000117479	ENST00000236137	protein_coding	KNOWN	CCDS1280	10938	1494	497	169433147	169455241	-1	TRMA	THTR1
1	SLC19A2	ENSG00000117479	ENST00000367804	protein_coding	KNOWN	None	10938	891	296	169433147	169455241	-1	TRMA	THTR1
2	PREPL	ENSG00000138078	ENST00000425263	nonsense_mediated_decay	KNOWN	CCDS33190	30228	2184	727	44543420	44587813	-1	None	KIAA0436
2	PREPL	ENSG00000138078	ENST00000426481	nonsense_mediated_decay	KNOWN	CCDS33190	30228	2184	727	44544749	44587813	-1	None	KIAA0436
2	PREPL	ENSG00000138078	ENST00000409411	protein_coding	NOVEL	CCDS54353	30228	1917	638	44545902	44588685	-1	None	KIAA0436
2	PREPL	ENSG00000138078	ENST00000409957	protein_coding	NOVEL	CCDS54353	30228	1917	638	44545902	44588700	-1	None	KIAA0436
2	PREPL	ENSG00000138078	ENST00000409936	protein_coding	KNOWN	CCDS33190	30228	2184	727	44545905	44588633	-1	None	KIAA0436
2	PREPL	ENSG00000138078	ENST00000444696	protein_coding	NOVEL	None	30228	213	70	44547405	44550481	-1	None	KIAA0436
2	PREPL	ENSG00000138078	ENST00000260648	protein_coding	KNOWN	CCDS33190	30228	2184	727	44547966	44587813	-1	None	KIAA0436
2	PREPL	ENSG00000138078	ENST00000409272	protein_coding	KNOWN	CCDS33190	30228	2184	727	44547966	44588944	-1	None	KIAA0436
2	PREPL	ENSG00000138078	ENST00000410081	protein_coding	KNOWN	CCDS33190	30228	2184	727	44548061	44588945	-1	None	KIAA0436
2	PREPL	ENSG00000138078	ENST00000378520	protein_coding	KNOWN	CCDS42676	30228	1986	661	44548207	44586888	-1	None	KIAA0436
2	PREPL	ENSG00000138078	ENST00000378511	protein_coding	KNOWN	CCDS42675	30228	1998	665	44548212	44586888	-1	None	KIAA0436
2	PREPL	ENSG00000138078	ENST00000420756	protein_coding	NOVEL	None	30228	362	119	44548603	44550441	-1	None	KIAA0436
2	PREPL	ENSG00000138078	ENST00000540817	processed_transcript	KNOWN	None	30228	None	None	44570944	44588952	-1	None	KIAA0436
2	PREPL	ENSG00000138078	ENST00000438314	protein_coding	KNOWN	None	30228	453	150	44571047	44588632	-1	None	KIAA0436
2	PREPL	ENSG00000138078	ENST00000477410	processed_transcript	KNOWN	None	30228	None	None	44573438	44588685	-1	None	KIAA0436
2	PREPL	ENSG00000138078	ENST00000541738	protein_coding	KNOWN	CCDS54353	30228	1917	638	44544750	44589001	-1	None	KIAA0436
HSCHR6_MHC_MCF	TCF19	ENSG00000224472	ENST00000442190	protein_coding	KNOWN	None	11629	1038	345	31204889	31210518	1	None	SC1
HSCHR6_MHC_MCF	TCF19	ENSG00000224472	ENST00000449558	protein_coding	KNOWN	None	11629	1038	345	31204931	31210518	1	None	SC1
HSCHR6_MHC_MCF	TCF19	ENSG00000224472	ENST00000498207	processed_transcript	PUTATIVE	None	11629	None	None	31207786	31209309	1	None	SC1
16	None	ENSG00000260264	ENST00000567127	lincRNA	KNOWN	None	None	None	None	24247425	24264184	1	None	None
16	None	ENSG00000260264	ENST00000567624	lincRNA	KNOWN	None	None	None	None	24249303	24258866	1	None	None
10	DHX32	ENSG00000089876	ENST00000368721	protein_coding	KNOWN	None	16717	1104	367	127524906	127543428	-1	DDX32	FLJ10889, FLJ10694, DHLP1
10	DHX32	ENSG00000089876	ENST00000284690	protein_coding	KNOWN	CCDS7652	16717	2232	743	127524909	127569884	-1	DDX32	FLJ10889, FLJ10694, DHLP1
10	DHX32	ENSG00000089876	ENST00000415732	protein_coding	KNOWN	None	16717	337	111	127555698	127585005	-1	DDX32	FLJ10889, FLJ10694, DHLP1
10	DHX32	ENSG00000089876	ENST00000284688	protein_coding	KNOWN	None	16717	1989	662	127524909	127569884	-1	DDX32	FLJ10889, FLJ10694, DHLP1
11	KIAA1377	ENSG00000110318	ENST00000263468	protein_coding	KNOWN	CCDS31658	29264	3354	1117	101785746	101871789	1	None	None
11	KIAA1377	ENSG00000110318	ENST00000532529	nonsense_mediated_decay	KNOWN	None	29264	1298	431	101815106	101868759	1	None	None
11	KIAA1377	ENSG00000110318	ENST00000532077	protein_coding	NOVEL	None	29264	244	80	101849133	101868761	1	None	None
11	KIAA1377	ENSG00000110318	ENST00000537689	protein_coding	KNOWN	None	29264	2757	918	101827158	101868759	1	None	None
6	QKI	ENSG00000112531	ENST00000361758	nonsense_mediated_decay	KNOWN	CCDS5286	21100	960	319	163835032	163994832	1	None	QK3
6	QKI	ENSG00000112531	ENST00000453779	protein_coding	KNOWN	CCDS5286	21100	960	319	163835675	163991177	1	None	QK3
6	QKI	ENSG00000112531	ENST00000275262	protein_coding	KNOWN	CCDS5287	21100	978	325	163835675	163991177	1	None	QK3
6	QKI	ENSG00000112531	ENST00000392127	protein_coding	KNOWN	CCDS43525	21100	960	319	163835675	163991177	1	None	QK3
6	QKI	ENSG00000112531	ENST00000361752	protein_coding	KNOWN	CCDS5285	21100	1026	341	163835675	163999628	1	None	QK3
6	QKI	ENSG00000112531	ENST00000361195	protein_coding	KNOWN	None	21100	1002	333	163836202	163991779	1	None	QK3
6	QKI	ENSG00000112531	ENST00000424802	protein_coding	NOVEL	None	21100	954	317	163836226	163985742	1	None	QK3
6	QKI	ENSG00000112531	ENST00000545607	nonsense_mediated_decay	KNOWN	None	21100	103	33	163836270	163991773	1	None	QK3
6	QKI	ENSG00000112531	ENST00000544436	protein_coding	PUTATIVE	None	21100	300	99	163837347	163956076	1	None	QK3
6	QKI	ENSG00000112531	ENST00000537041	protein_coding	PUTATIVE	None	21100	480	159	163844166	163984486	1	None	QK3
6	QKI	ENSG00000112531	ENST00000537124	protein_coding	PUTATIVE	None	21100	143	46	163844240	163899834	1	None	QK3
6	QKI	ENSG00000112531	ENST00000545346	nonsense_mediated_decay	KNOWN	None	21100	126	41	163850027	163956016	1	None	QK3
6	QKI	ENSG00000112531	ENST00000544823	protein_coding	PUTATIVE	None	21100	511	169	163876248	163984493	1	None	QK3
6	QKI	ENSG00000112531	ENST00000537883	protein_coding	NOVEL	None	21100	715	237	163876363	163992133	1	None	QK3
6	QKI	ENSG00000112531	ENST00000540719	retained_intron	KNOWN	None	21100	None	None	163955991	163985731	1	None	QK3
6	QKI	ENSG00000112531	ENST00000544361	protein_coding	PUTATIVE	None	21100	556	184	163956112	163990573	1	None	QK3
6	QKI	ENSG00000112531	ENST00000541696	retained_intron	KNOWN	None	21100	None	None	163987490	163992484	1	None	QK3
7	WBSCR27	ENSG00000165171	ENST00000297873	protein_coding	KNOWN	CCDS5561	19068	738	245	73248920	73256865	-1	None	None
7	WBSCR27	ENSG00000165171	ENST00000458679	nonsense_mediated_decay	KNOWN	None	19068	273	90	73249245	73256846	-1	None	None
7	WBSCR27	ENSG00000165171	ENST00000493174	retained_intron	KNOWN	None	19068	None	None	73253911	73256846	-1	None	None
2	ERCC3	ENSG00000163161	ENST00000426778	nonsense_mediated_decay	KNOWN	None	3435	216	71	128014866	128051721	-1	None	XPB, BTF2, RAD25, TFIIH, GTF2H
2	ERCC3	ENSG00000163161	ENST00000285398	protein_coding	KNOWN	CCDS2144	3435	2349	782	128014866	128051752	-1	None	XPB, BTF2, RAD25, TFIIH, GTF2H
2	ERCC3	ENSG00000163161	ENST00000491292	retained_intron	KNOWN	None	3435	None	None	128014873	128020458	-1	None	XPB, BTF2, RAD25, TFIIH, GTF2H
2	ERCC3	ENSG00000163161	ENST00000445889	nonsense_mediated_decay	KNOWN	None	3435	216	71	128014873	128051670	-1	None	XPB, BTF2, RAD25, TFIIH, GTF2H
2	ERCC3	ENSG00000163161	ENST00000494464	retained_intron	KNOWN	None	3435	None	None	128044325	128051683	-1	None	XPB, BTF2, RAD25, TFIIH, GTF2H
2	ERCC3	ENSG00000163161	ENST00000456257	protein_coding	NOVEL	None	3435	563	186	128046249	128047851	-1	None	XPB, BTF2, RAD25, TFIIH, GTF2H
2	ERCC3	ENSG00000163161	ENST00000460485	retained_intron	KNOWN	None	3435	None	None	128046952	128048165	-1	None	XPB, BTF2, RAD25, TFIIH, GTF2H
2	ERCC3	ENSG00000163161	ENST00000462306	retained_intron	KNOWN	None	3435	None	None	128047272	128051713	-1	None	XPB, BTF2, RAD25, TFIIH, GTF2H
2	ERCC3	ENSG00000163161	ENST00000490062	retained_intron	KNOWN	None	3435	None	None	128050011	128051729	-1	None	XPB, BTF2, RAD25, TFIIH, GTF2H
2	ERCC3	ENSG00000163161	ENST00000493187	protein_coding	KNOWN	None	3435	2157	718	128014873	128051670	-1	None	XPB, BTF2, RAD25, TFIIH, GTF2H
5	FAM13B	ENSG00000031003	ENST00000033079	protein_coding	KNOWN	CCDS4195	1335	2748	915	137273649	137368720	-1	C5orf5, FAM13B1	N61, KHCHP, ARHGAP49
5	FAM13B	ENSG00000031003	ENST00000425075	protein_coding	KNOWN	CCDS47270	1335	2376	791	137275861	137368775	-1	C5orf5, FAM13B1	N61, KHCHP, ARHGAP49
5	FAM13B	ENSG00000031003	ENST00000420893	protein_coding	KNOWN	CCDS47269	1335	2664	887	137275870	137368774	-1	C5orf5, FAM13B1	N61, KHCHP, ARHGAP49
5	FAM13B	ENSG00000031003	ENST00000513640	retained_intron	KNOWN	None	1335	None	None	137278884	137282084	-1	C5orf5, FAM13B1	N61, KHCHP, ARHGAP49
5	FAM13B	ENSG00000031003	ENST00000505281	retained_intron	KNOWN	None	1335	None	None	137289035	137290313	-1	C5orf5, FAM13B1	N61, KHCHP, ARHGAP49
5	FAM13B	ENSG00000031003	ENST00000514310	protein_coding	KNOWN	None	1335	426	141	137347579	137374295	-1	C5orf5, FAM13B1	N61, KHCHP, ARHGAP49
5	FAM13B	ENSG00000031003	ENST00000502471	protein_coding	KNOWN	None	1335	286	94	137354075	137387650	-1	C5orf5, FAM13B1	N61, KHCHP, ARHGAP49
5	FAM13B	ENSG00000031003	ENST00000509596	protein_coding	KNOWN	None	1335	263	86	137354098	137369717	-1	C5orf5, FAM13B1	N61, KHCHP, ARHGAP49
5	FAM13B	ENSG00000031003	ENST00000508403	protein_coding	KNOWN	None	1335	193	63	137354168	137387604	-1	C5orf5, FAM13B1	N61, KHCHP, ARHGAP49
5	FAM13B	ENSG00000031003	ENST00000505961	protein_coding	KNOWN	None	1335	157	51	137354644	137369762	-1	C5orf5, FAM13B1	N61, KHCHP, ARHGAP49
5	FAM13B	ENSG00000031003	ENST00000510804	retained_intron	KNOWN	None	1335	None	None	137356452	137368617	-1	C5orf5, FAM13B1	N61, KHCHP, ARHGAP49
10	LINC00863	ENSG00000224914	ENST00000439559	lincRNA	KNOWN	None	45162	None	None	89102493	89117639	1	None	None
16	None	ENSG00000265708	ENST00000578350	miRNA	NOVEL	None	None	None	None	49850596	49850695	1	None	None
20	SS18L1	ENSG00000184402	ENST00000450482	protein_coding	KNOWN	None	15592	385	127	60718851	60736636	1	None	KIAA0693
20	SS18L1	ENSG00000184402	ENST00000331758	protein_coding	KNOWN	CCDS13491	15592	1191	396	60718851	60757540	1	None	KIAA0693
20	SS18L1	ENSG00000184402	ENST00000491916	processed_transcript	KNOWN	None	15592	None	None	60737604	60738585	1	None	KIAA0693
20	SS18L1	ENSG00000184402	ENST00000492466	nonsense_mediated_decay	KNOWN	None	15592	635	210	60738514	60755340	1	None	KIAA0693
20	SS18L1	ENSG00000184402	ENST00000421564	protein_coding	KNOWN	CCDS13491	15592	1191	396	60718822	60757533	1	None	KIAA0693
20	SS18L1	ENSG00000184402	ENST00000370848	protein_coding	KNOWN	None	15592	1200	399	60733844	60757533	1	None	KIAA0693
17	GRAP	ENSG00000154016	ENST00000284154	protein_coding	KNOWN	CCDS11202	4562	654	217	18923986	18950950	-1	None	None
17	GRAP	ENSG00000154016	ENST00000573099	protein_coding	NOVEL	None	4562	618	205	18924982	18950310	-1	None	None
17	GRAP	ENSG00000154016	ENST00000395635	protein_coding	PUTATIVE	None	4562	567	188	18925176	18945798	-1	None	None
17	GRAP	ENSG00000154016	ENST00000583020	nonsense_mediated_decay	KNOWN	None	4562	312	103	18925252	18950273	-1	None	None
17	GRAP	ENSG00000154016	ENST00000571380	retained_intron	KNOWN	None	4562	None	None	18939045	18950324	-1	None	None
16	None	ENSG00000261751	ENST00000563124	lincRNA	KNOWN	None	None	None	None	49954641	49958065	-1	None	None
8	ATP6V1C1	ENSG00000155097	ENST00000518857	protein_coding	PUTATIVE	None	856	924	307	104033291	104081407	1	ATP6D, ATP6C	VATC, Vma5
8	ATP6V1C1	ENSG00000155097	ENST00000395862	protein_coding	KNOWN	CCDS6296	856	1149	382	104033291	104085279	1	ATP6D, ATP6C	VATC, Vma5
8	ATP6V1C1	ENSG00000155097	ENST00000521514	protein_coding	PUTATIVE	None	856	924	307	104033316	104081304	1	ATP6D, ATP6C	VATC, Vma5
8	ATP6V1C1	ENSG00000155097	ENST00000518738	protein_coding	KNOWN	CCDS6296	856	1149	382	104033330	104081793	1	ATP6D, ATP6C	VATC, Vma5
8	ATP6V1C1	ENSG00000155097	ENST00000521671	retained_intron	KNOWN	None	856	None	None	104063345	104075498	1	ATP6D, ATP6C	VATC, Vma5
8	ATP6V1C1	ENSG00000155097	ENST00000518959	retained_intron	KNOWN	None	856	None	None	104076788	104081053	1	ATP6D, ATP6C	VATC, Vma5
22	None	ENSG00000238192	ENST00000414483	lincRNA	KNOWN	None	None	None	None	48535278	48536818	-1	None	None
X	ARHGAP4	ENSG00000089820	ENST00000393721	protein_coding	NOVEL	None	674	2307	768	153172821	153191708	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
X	ARHGAP4	ENSG00000089820	ENST00000370028	protein_coding	NOVEL	CCDS55540	674	2961	986	153172830	153191714	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
X	ARHGAP4	ENSG00000089820	ENST00000420383	nonsense_mediated_decay	KNOWN	None	674	1878	625	153172831	153191698	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
X	ARHGAP4	ENSG00000089820	ENST00000350060	protein_coding	KNOWN	CCDS14736	674	2841	946	153172831	153191698	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
X	ARHGAP4	ENSG00000089820	ENST00000494397	retained_intron	KNOWN	None	674	None	None	153172869	153178191	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
X	ARHGAP4	ENSG00000089820	ENST00000466928	retained_intron	KNOWN	None	674	None	None	153172893	153175112	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
X	ARHGAP4	ENSG00000089820	ENST00000370016	protein_coding	NOVEL	None	674	2778	925	153172908	153191698	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
X	ARHGAP4	ENSG00000089820	ENST00000470209	retained_intron	KNOWN	None	674	None	None	153172908	153191698	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
X	ARHGAP4	ENSG00000089820	ENST00000494302	retained_intron	KNOWN	None	674	None	None	153172908	153191698	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
X	ARHGAP4	ENSG00000089820	ENST00000404127	nonsense_mediated_decay	KNOWN	None	674	654	217	153172923	153191759	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
X	ARHGAP4	ENSG00000089820	ENST00000454164	protein_coding	NOVEL	None	674	747	248	153174922	153176555	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
X	ARHGAP4	ENSG00000089820	ENST00000467421	processed_transcript	KNOWN	None	674	None	None	153174962	153176325	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
X	ARHGAP4	ENSG00000089820	ENST00000442172	protein_coding	NOVEL	None	674	880	292	153175195	153178239	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
X	ARHGAP4	ENSG00000089820	ENST00000461739	retained_intron	KNOWN	None	674	None	None	153175273	153175973	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
X	ARHGAP4	ENSG00000089820	ENST00000494813	retained_intron	KNOWN	None	674	None	None	153178664	153200452	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
X	ARHGAP4	ENSG00000089820	ENST00000422918	protein_coding	NOVEL	None	674	642	213	153178682	153186085	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
X	ARHGAP4	ENSG00000089820	ENST00000463905	retained_intron	KNOWN	None	674	None	None	153178978	153179707	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
X	ARHGAP4	ENSG00000089820	ENST00000461052	protein_coding	PUTATIVE	None	674	953	316	153184296	153192211	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
X	ARHGAP4	ENSG00000089820	ENST00000418750	protein_coding	NOVEL	None	674	586	194	153184394	153186857	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
X	ARHGAP4	ENSG00000089820	ENST00000488269	protein_coding	PUTATIVE	None	674	833	276	153184416	153187701	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
X	ARHGAP4	ENSG00000089820	ENST00000460782	retained_intron	KNOWN	None	674	None	None	153185866	153186853	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
X	ARHGAP4	ENSG00000089820	ENST00000442262	protein_coding	PUTATIVE	None	674	530	175	153186162	153193873	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
X	ARHGAP4	ENSG00000089820	ENST00000422091	protein_coding	PUTATIVE	None	674	523	173	153186169	153192314	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
X	ARHGAP4	ENSG00000089820	ENST00000470979	processed_transcript	KNOWN	None	674	None	None	153186193	153193808	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
X	ARHGAP4	ENSG00000089820	ENST00000537206	protein_coding	KNOWN	None	674	2772	923	153173020	153187626	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
10	None	ENSG00000237740	ENST00000432327	processed_pseudogene	KNOWN	None	None	None	None	89136653	89138238	1	None	None
11	SVIP	ENSG00000198168	ENST00000525670	processed_transcript	KNOWN	None	25238	None	None	22835345	22849423	-1	None	DKFZp313A2432
11	SVIP	ENSG00000198168	ENST00000354193	protein_coding	KNOWN	CCDS41627	25238	234	77	22840475	22851411	-1	None	DKFZp313A2432
11	SVIP	ENSG00000198168	ENST00000533774	processed_transcript	KNOWN	None	25238	None	None	22844293	22851117	-1	None	DKFZp313A2432
11	SVIP	ENSG00000198168	ENST00000530199	processed_transcript	KNOWN	None	25238	None	None	22844413	22850919	-1	None	DKFZp313A2432
11	SVIP	ENSG00000198168	ENST00000529848	processed_transcript	KNOWN	None	25238	None	None	22848791	22851845	-1	None	DKFZp313A2432
16	RPL34P29	ENSG00000244551	ENST00000491411	processed_pseudogene	KNOWN	None	35631	None	None	49968939	49969263	1	None	None
22	None	ENSG00000229275	ENST00000446364	lincRNA	KNOWN	None	None	None	None	48537359	48539046	1	None	None
16	None	ENSG00000259843	ENST00000568130	antisense	KNOWN	None	None	None	None	50080340	50100135	-1	None	None
5	None	ENSG00000251211	ENST00000512891	processed_pseudogene	KNOWN	None	None	None	None	177592703	177593563	1	None	None
22	MIR3201	ENSG00000266508	ENST00000578320	miRNA	KNOWN	None	38235	None	None	48670176	48670227	1	None	hsa-mir-3201
19	KCNN4	ENSG00000104783	ENST00000600909	protein_coding	KNOWN	None	6293	180	59	44270685	44273129	-1	None	KCa3.1, hSK4, hKCa4, hIKCa1
19	KCNN4	ENSG00000104783	ENST00000262888	protein_coding	KNOWN	CCDS12630	6293	1284	427	44270685	44285409	-1	None	KCa3.1, hSK4, hKCa4, hIKCa1
19	KCNN4	ENSG00000104783	ENST00000598836	protein_coding	PUTATIVE	None	6293	496	164	44270738	44273979	-1	None	KCa3.1, hSK4, hKCa4, hIKCa1
19	KCNN4	ENSG00000104783	ENST00000597184	retained_intron	KNOWN	None	6293	None	None	44270974	44273309	-1	None	KCa3.1, hSK4, hKCa4, hIKCa1
19	KCNN4	ENSG00000104783	ENST00000599720	nonsense_mediated_decay	KNOWN	None	6293	174	57	44271105	44285128	-1	None	KCa3.1, hSK4, hKCa4, hIKCa1
19	KCNN4	ENSG00000104783	ENST00000601549	retained_intron	KNOWN	None	6293	None	None	44271604	44276279	-1	None	KCa3.1, hSK4, hKCa4, hIKCa1
19	KCNN4	ENSG00000104783	ENST00000600408	nonsense_mediated_decay	KNOWN	None	6293	342	113	44271729	44276259	-1	None	KCa3.1, hSK4, hKCa4, hIKCa1
19	KCNN4	ENSG00000104783	ENST00000599107	retained_intron	KNOWN	None	6293	None	None	44278371	44280978	-1	None	KCa3.1, hSK4, hKCa4, hIKCa1
16	None	ENSG00000261835	ENST00000566879	unprocessed_pseudogene	KNOWN	None	None	None	None	50080407	50081709	1	None	None
12	CD4	ENSG00000010610	ENST00000535707	processed_transcript	KNOWN	None	1678	None	None	6896024	6909611	1	None	None
12	CD4	ENSG00000010610	ENST00000011653	protein_coding	KNOWN	CCDS8562	1678	1377	458	6898638	6929974	1	None	None
12	CD4	ENSG00000010610	ENST00000536610	processed_transcript	KNOWN	None	1678	None	None	6898680	6923399	1	None	None
12	CD4	ENSG00000010610	ENST00000544344	retained_intron	KNOWN	None	1678	None	None	6898702	6924236	1	None	None
12	CD4	ENSG00000010610	ENST00000541982	protein_coding	NOVEL	None	1678	447	148	6898702	6925447	1	None	None
12	CD4	ENSG00000010610	ENST00000538827	processed_transcript	KNOWN	None	1678	None	None	6898702	6925523	1	None	None
12	CD4	ENSG00000010610	ENST00000437800	retained_intron	KNOWN	None	1678	None	None	6898702	6928997	1	None	None
12	CD4	ENSG00000010610	ENST00000535466	processed_transcript	KNOWN	None	1678	None	None	6898703	6909623	1	None	None
12	CD4	ENSG00000010610	ENST00000536590	processed_transcript	KNOWN	None	1678	None	None	6898706	6923424	1	None	None
12	CD4	ENSG00000010610	ENST00000539492	protein_coding	PUTATIVE	None	1678	136	44	6898734	6909559	1	None	None
12	CD4	ENSG00000010610	ENST00000536563	processed_transcript	KNOWN	None	1678	None	None	6922718	6925370	1	None	None
12	CD4	ENSG00000010610	ENST00000543755	retained_intron	KNOWN	None	1678	None	None	6923220	6924008	1	None	None
20	FITM2	ENSG00000197296	ENST00000396825	protein_coding	KNOWN	CCDS33473	16135	789	262	42931478	42939809	-1	C20orf142	dJ881L22.2, FIT2
16	None	ENSG00000260298	ENST00000564713	transcribed_processed_pseudogene	KNOWN	None	None	None	None	50092061	50093142	-1	None	None
5	GMCL1P1	ENSG00000244234	ENST00000463439	processed_pseudogene	KNOWN	None	19717	None	None	177612720	177614300	-1	GMCL1L	GMCL2, GCL
7	DLX5	ENSG00000105880	ENST00000222598	protein_coding	KNOWN	CCDS5647	2918	870	289	96649704	96654409	-1	None	None
7	DLX5	ENSG00000105880	ENST00000493764	processed_transcript	KNOWN	None	2918	None	None	96649978	96654139	-1	None	None
7	DLX5	ENSG00000105880	ENST00000486603	protein_coding	PUTATIVE	None	2918	576	191	96651290	96654262	-1	None	None
12	PRIM1	ENSG00000198056	ENST00000552590	nonsense_mediated_decay	KNOWN	None	9369	558	185	57125380	57146157	-1	None	None
12	PRIM1	ENSG00000198056	ENST00000338193	protein_coding	KNOWN	CCDS44926	9369	1263	420	57125406	57146119	-1	None	None
12	PRIM1	ENSG00000198056	ENST00000549549	protein_coding	PUTATIVE	None	9369	456	151	57132249	57136882	-1	None	None
12	PRIM1	ENSG00000198056	ENST00000550770	protein_coding	PUTATIVE	None	9369	983	326	57135227	57146107	-1	None	None
12	PRIM1	ENSG00000198056	ENST00000550224	retained_intron	KNOWN	None	9369	None	None	57137298	57146097	-1	None	None
12	PRIM1	ENSG00000198056	ENST00000546761	processed_transcript	PUTATIVE	None	9369	None	None	57139817	57146053	-1	None	None
12	PRIM1	ENSG00000198056	ENST00000548173	retained_intron	KNOWN	None	9369	None	None	57139930	57146123	-1	None	None
12	PRIM1	ENSG00000198056	ENST00000552408	processed_transcript	KNOWN	None	9369	None	None	57140740	57145599	-1	None	None
19	None	ENSG00000267157	ENST00000586012	protein_coding	PUTATIVE	None	None	234	77	5784016	5785630	-1	None	None
10	None	ENSG00000232935	ENST00000420941	antisense	KNOWN	None	None	None	None	128811765	128824739	-1	None	None
19	MIA-RAB4B	ENSG00000268975	ENST00000600729	nonsense_mediated_decay	KNOWN	None	48352	396	131	41277553	41292590	1	None	None
20	R3HDML	ENSG00000101074	ENST00000217043	protein_coding	KNOWN	CCDS13329	16249	762	253	42965626	42979875	1	None	dJ881L22.3
9	PTPLAD2	ENSG00000188921	ENST00000495827	protein_coding	KNOWN	CCDS43791	20920	699	232	21003620	21031635	-1	None	Em:AL662879.1, OTTHUMG00000021016
9	PTPLAD2	ENSG00000188921	ENST00000488436	processed_transcript	KNOWN	None	20920	None	None	21015136	21026744	-1	None	Em:AL662879.1, OTTHUMG00000021016
9	PTPLAD2	ENSG00000188921	ENST00000513293	protein_coding	KNOWN	CCDS43791	20920	699	232	20995306	21031608	-1	None	Em:AL662879.1, OTTHUMG00000021016
19	TDRD12	ENSG00000173809	ENST00000444215	protein_coding	KNOWN	None	25044	3534	1177	33210659	33312169	1	None	ECAT8, FLJ13072
19	TDRD12	ENSG00000173809	ENST00000421545	protein_coding	KNOWN	CCDS46038	25044	1188	395	33210979	33281714	1	None	ECAT8, FLJ13072
19	TDRD12	ENSG00000173809	ENST00000564769	nonsense_mediated_decay	KNOWN	None	25044	338	111	33306469	33320483	1	None	ECAT8, FLJ13072
15	SPG11	ENSG00000104133	ENST00000261866	protein_coding	KNOWN	CCDS10112	11226	7332	2443	44854894	44955862	-1	KIAA1840	FLJ21439
15	SPG11	ENSG00000104133	ENST00000559511	protein_coding	NOVEL	None	11226	1703	566	44854895	44876725	-1	KIAA1840	FLJ21439
15	SPG11	ENSG00000104133	ENST00000535302	protein_coding	KNOWN	CCDS53939	11226	6993	2330	44855052	44955873	-1	KIAA1840	FLJ21439
15	SPG11	ENSG00000104133	ENST00000427534	protein_coding	PUTATIVE	None	11226	6798	2265	44855319	44955845	-1	KIAA1840	FLJ21439
15	SPG11	ENSG00000104133	ENST00000560299	retained_intron	KNOWN	None	11226	None	None	44856751	44858342	-1	KIAA1840	FLJ21439
15	SPG11	ENSG00000104133	ENST00000558138	protein_coding	NOVEL	None	11226	750	249	44856837	44865022	-1	KIAA1840	FLJ21439
15	SPG11	ENSG00000104133	ENST00000559347	processed_transcript	KNOWN	None	11226	None	None	44858164	44864838	-1	KIAA1840	FLJ21439
15	SPG11	ENSG00000104133	ENST00000561268	retained_intron	KNOWN	None	11226	None	None	44859536	44865881	-1	KIAA1840	FLJ21439
15	SPG11	ENSG00000104133	ENST00000559933	retained_intron	KNOWN	None	11226	None	None	44862751	44866018	-1	KIAA1840	FLJ21439
15	SPG11	ENSG00000104133	ENST00000558319	protein_coding	KNOWN	None	11226	6240	2079	44865555	44955876	-1	KIAA1840	FLJ21439
15	SPG11	ENSG00000104133	ENST00000558080	retained_intron	KNOWN	None	11226	None	None	44865556	44867470	-1	KIAA1840	FLJ21439
15	SPG11	ENSG00000104133	ENST00000559822	nonsense_mediated_decay	KNOWN	None	11226	394	130	44865932	44876649	-1	KIAA1840	FLJ21439
15	SPG11	ENSG00000104133	ENST00000558790	processed_transcript	KNOWN	None	11226	None	None	44876457	44882726	-1	KIAA1840	FLJ21439
15	SPG11	ENSG00000104133	ENST00000558253	processed_transcript	PUTATIVE	None	11226	None	None	44877850	44883135	-1	KIAA1840	FLJ21439
15	SPG11	ENSG00000104133	ENST00000560858	nonsense_mediated_decay	KNOWN	None	11226	300	99	44877960	44887471	-1	KIAA1840	FLJ21439
15	SPG11	ENSG00000104133	ENST00000558155	nonsense_mediated_decay	KNOWN	None	11226	309	102	44878036	44888544	-1	KIAA1840	FLJ21439
15	SPG11	ENSG00000104133	ENST00000561391	retained_intron	KNOWN	None	11226	None	None	44888314	44889370	-1	KIAA1840	FLJ21439
15	SPG11	ENSG00000104133	ENST00000558561	retained_intron	KNOWN	None	11226	None	None	44889002	44890877	-1	KIAA1840	FLJ21439
15	SPG11	ENSG00000104133	ENST00000558093	retained_intron	KNOWN	None	11226	None	None	44890552	44898356	-1	KIAA1840	FLJ21439
15	SPG11	ENSG00000104133	ENST00000558988	protein_coding	PUTATIVE	None	11226	417	138	44892458	44903055	-1	KIAA1840	FLJ21439
15	SPG11	ENSG00000104133	ENST00000559754	protein_coding	PUTATIVE	None	11226	323	106	44892762	44903057	-1	KIAA1840	FLJ21439
15	SPG11	ENSG00000104133	ENST00000560435	nonsense_mediated_decay	KNOWN	None	11226	132	43	44905707	44912503	-1	KIAA1840	FLJ21439
15	SPG11	ENSG00000104133	ENST00000558989	retained_intron	KNOWN	None	11226	None	None	44907626	44914064	-1	KIAA1840	FLJ21439
15	SPG11	ENSG00000104133	ENST00000559193	protein_coding	PUTATIVE	None	11226	2340	779	44914674	44955856	-1	KIAA1840	FLJ21439
15	SPG11	ENSG00000104133	ENST00000557866	non_stop_decay	KNOWN	None	11226	468	155	44925668	44943842	-1	KIAA1840	FLJ21439
11	None	ENSG00000250397	ENST00000506172	antisense	KNOWN	None	None	None	None	856880	859795	-1	None	None
5	FAF2	ENSG00000113194	ENST00000510730	protein_coding	PUTATIVE	None	24666	145	47	175874629	175913428	1	UBXD8	ETEA, KIAA0887, UBXN3B
5	FAF2	ENSG00000113194	ENST00000261942	protein_coding	KNOWN	CCDS34296	24666	1338	445	175875356	175937075	1	UBXD8	ETEA, KIAA0887, UBXN3B
5	FAF2	ENSG00000113194	ENST00000506061	processed_transcript	KNOWN	None	24666	None	None	175875430	175880560	1	UBXD8	ETEA, KIAA0887, UBXN3B
5	FAF2	ENSG00000113194	ENST00000510446	processed_transcript	KNOWN	None	24666	None	None	175880140	175916028	1	UBXD8	ETEA, KIAA0887, UBXN3B
5	FAF2	ENSG00000113194	ENST00000504983	retained_intron	KNOWN	None	24666	None	None	175919240	175925978	1	UBXD8	ETEA, KIAA0887, UBXN3B
5	FAF2	ENSG00000113194	ENST00000513627	retained_intron	KNOWN	None	24666	None	None	175921023	175923987	1	UBXD8	ETEA, KIAA0887, UBXN3B
X	CXorf23	ENSG00000173681	ENST00000379687	protein_coding	KNOWN	CCDS14194	27413	2049	682	19930978	19988416	-1	None	None
X	CXorf23	ENSG00000173681	ENST00000472158	nonsense_mediated_decay	KNOWN	None	27413	723	240	19934373	19983413	-1	None	None
X	CXorf23	ENSG00000173681	ENST00000379682	protein_coding	NOVEL	None	27413	2136	711	19934376	19988416	-1	None	None
X	CXorf23	ENSG00000173681	ENST00000466702	processed_transcript	KNOWN	None	27413	None	None	19934858	19948016	-1	None	None
X	CXorf23	ENSG00000173681	ENST00000471203	processed_transcript	KNOWN	None	27413	None	None	19935289	19953694	-1	None	None
X	CXorf23	ENSG00000173681	ENST00000340625	protein_coding	KNOWN	None	27413	703	233	19947099	19983260	-1	None	None
X	CXorf23	ENSG00000173681	ENST00000356980	protein_coding	KNOWN	None	27413	1878	625	19947099	19988382	-1	None	None
11	PKNOX2	ENSG00000165495	ENST00000530517	processed_transcript	KNOWN	None	16714	None	None	125034583	125301397	1	None	None
11	PKNOX2	ENSG00000165495	ENST00000531116	processed_transcript	KNOWN	None	16714	None	None	125034591	125301440	1	None	None
11	PKNOX2	ENSG00000165495	ENST00000298282	protein_coding	KNOWN	CCDS41730	16714	1419	472	125034602	125303285	1	None	None
11	PKNOX2	ENSG00000165495	ENST00000559662	processed_transcript	KNOWN	None	16714	None	None	125034622	125267879	1	None	None
11	PKNOX2	ENSG00000165495	ENST00000557814	processed_transcript	KNOWN	None	16714	None	None	125034624	125267959	1	None	None
11	PKNOX2	ENSG00000165495	ENST00000527238	protein_coding	KNOWN	None	16714	117	38	125034631	125237771	1	None	None
11	PKNOX2	ENSG00000165495	ENST00000561399	processed_transcript	KNOWN	None	16714	None	None	125034648	125158046	1	None	None
11	PKNOX2	ENSG00000165495	ENST00000532623	nonsense_mediated_decay	KNOWN	None	16714	123	40	125034650	125301440	1	None	None
11	PKNOX2	ENSG00000165495	ENST00000531212	protein_coding	KNOWN	None	16714	122	39	125054083	125237776	1	None	None
11	PKNOX2	ENSG00000165495	ENST00000558729	processed_transcript	KNOWN	None	16714	None	None	125109959	125267811	1	None	None
11	PKNOX2	ENSG00000165495	ENST00000561115	processed_transcript	KNOWN	None	16714	None	None	125109969	125237778	1	None	None
11	PKNOX2	ENSG00000165495	ENST00000558705	protein_coding	KNOWN	None	16714	295	97	125200155	125255514	1	None	None
11	PKNOX2	ENSG00000165495	ENST00000561298	retained_intron	KNOWN	None	16714	None	None	125201509	125255584	1	None	None
11	PKNOX2	ENSG00000165495	ENST00000526955	retained_intron	KNOWN	None	16714	None	None	125255584	125303285	1	None	None
11	PKNOX2	ENSG00000165495	ENST00000542175	protein_coding	KNOWN	None	16714	1227	408	125034650	125301656	1	None	None
9	None	ENSG00000229338	ENST00000449172	processed_pseudogene	KNOWN	None	None	None	None	101652872	101654219	1	None	None
7	RAC1P6	ENSG00000226962	ENST00000423911	processed_pseudogene	KNOWN	None	42006	None	None	114776529	114777274	-1	None	None
11	RNU6-1025P	ENSG00000222561	ENST00000410629	snRNA	KNOWN	None	47988	None	None	948421	948524	1	None	None
11	None	ENSG00000264671	ENST00000584406	miRNA	NOVEL	None	None	None	None	951295	951364	-1	None	None
7	None	ENSG00000199764	ENST00000362894	misc_RNA	NOVEL	None	None	None	None	114847948	114848050	-1	None	None
5	P4HA2	ENSG00000072682	ENST00000401867	protein_coding	KNOWN	CCDS4151	8547	1608	535	131527531	131563508	-1	None	C-P4Halpha(II)
5	P4HA2	ENSG00000072682	ENST00000379086	protein_coding	KNOWN	CCDS34230	8547	1602	533	131528303	131563512	-1	None	C-P4Halpha(II)
5	P4HA2	ENSG00000072682	ENST00000166534	protein_coding	KNOWN	CCDS4151	8547	1608	535	131528303	131563550	-1	None	C-P4Halpha(II)
5	P4HA2	ENSG00000072682	ENST00000360568	protein_coding	KNOWN	CCDS34230	8547	1602	533	131528303	131563775	-1	None	C-P4Halpha(II)
5	P4HA2	ENSG00000072682	ENST00000474628	retained_intron	KNOWN	None	8547	None	None	131528364	131530951	-1	None	C-P4Halpha(II)
5	P4HA2	ENSG00000072682	ENST00000506807	processed_transcript	KNOWN	None	8547	None	None	131528679	131529261	-1	None	C-P4Halpha(II)
5	P4HA2	ENSG00000072682	ENST00000467587	retained_intron	KNOWN	None	8547	None	None	131528734	131531423	-1	None	C-P4Halpha(II)
5	P4HA2	ENSG00000072682	ENST00000417528	protein_coding	KNOWN	None	8547	613	203	131546073	131563487	-1	None	C-P4Halpha(II)
5	P4HA2	ENSG00000072682	ENST00000431054	protein_coding	PUTATIVE	None	8547	708	235	131546074	131630964	-1	None	C-P4Halpha(II)
5	P4HA2	ENSG00000072682	ENST00000439698	protein_coding	KNOWN	None	8547	552	183	131546134	131613548	-1	None	C-P4Halpha(II)
5	P4HA2	ENSG00000072682	ENST00000395164	protein_coding	KNOWN	None	8547	503	166	131546183	131557784	-1	None	C-P4Halpha(II)
5	P4HA2	ENSG00000072682	ENST00000453286	protein_coding	KNOWN	None	8547	461	152	131549617	131563532	-1	None	C-P4Halpha(II)
5	P4HA2	ENSG00000072682	ENST00000428369	protein_coding	KNOWN	None	8547	440	145	131549638	131563071	-1	None	C-P4Halpha(II)
5	P4HA2	ENSG00000072682	ENST00000418055	protein_coding	KNOWN	None	8547	344	113	131549734	131563528	-1	None	C-P4Halpha(II)
5	P4HA2	ENSG00000072682	ENST00000478055	retained_intron	KNOWN	None	8547	None	None	131552890	131562955	-1	None	C-P4Halpha(II)
5	P4HA2	ENSG00000072682	ENST00000416053	protein_coding	KNOWN	None	8547	305	100	131552916	131613293	-1	None	C-P4Halpha(II)
5	P4HA2	ENSG00000072682	ENST00000428841	protein_coding	KNOWN	None	8547	152	49	131553472	131563951	-1	None	C-P4Halpha(II)
5	P4HA2	ENSG00000072682	ENST00000471826	processed_transcript	KNOWN	None	8547	None	None	131584600	131631008	-1	None	C-P4Halpha(II)
5	P4HA2	ENSG00000072682	ENST00000481636	processed_transcript	PUTATIVE	None	8547	None	None	131612902	131613615	-1	None	C-P4Halpha(II)
5	P4HA2	ENSG00000072682	ENST00000379104	protein_coding	KNOWN	CCDS4151	8547	1608	535	131528306	131562935	-1	None	C-P4Halpha(II)
5	P4HA2	ENSG00000072682	ENST00000379100	protein_coding	KNOWN	CCDS34230	8547	1602	533	131528306	131562935	-1	None	C-P4Halpha(II)
11	None	ENSG00000254872	ENST00000534584	lincRNA	KNOWN	None	None	None	None	1049880	1055284	1	None	None
19	None	ENSG00000263997	ENST00000579582	miRNA	NOVEL	None	None	None	None	2872343	2872428	-1	None	None
16	None	ENSG00000260682	ENST00000564138	lincRNA	KNOWN	None	None	None	None	81993524	81996298	1	None	None
16	None	ENSG00000260682	ENST00000363673	misc_RNA	KNOWN	None	None	None	None	81995531	81995848	1	None	None
HSCHR6_MHC_MCF	OR2P1P	ENSG00000228635	ENST00000444153	unprocessed_pseudogene	KNOWN	None	8272	None	None	29039754	29040529	-1	None	hs6M1-26
22	DESI1	ENSG00000100418	ENST00000263256	protein_coding	KNOWN	CCDS33652	24577	507	168	41994032	42017100	-1	FAM152B, PPPDE2	D15Wsu75e
22	DESI1	ENSG00000100418	ENST00000468151	processed_transcript	KNOWN	None	24577	None	None	41996897	41998527	-1	FAM152B, PPPDE2	D15Wsu75e
22	DESI1	ENSG00000100418	ENST00000463886	processed_transcript	KNOWN	None	24577	None	None	41998005	42000229	-1	FAM152B, PPPDE2	D15Wsu75e
22	DESI1	ENSG00000100418	ENST00000482612	retained_intron	KNOWN	None	24577	None	None	41998979	42000091	-1	FAM152B, PPPDE2	D15Wsu75e
19	None	ENSG00000267398	ENST00000586202	processed_pseudogene	KNOWN	None	None	None	None	2874948	2875590	-1	None	None
1	NMNAT1	ENSG00000173614	ENST00000403197	protein_coding	KNOWN	None	17877	483	160	10003486	10041824	1	None	NMNAT, PNAT1
1	NMNAT1	ENSG00000173614	ENST00000377205	protein_coding	KNOWN	CCDS108	17877	840	279	10003486	10045556	1	None	NMNAT, PNAT1
1	NMNAT1	ENSG00000173614	ENST00000462686	nonsense_mediated_decay	KNOWN	CCDS108	17877	840	279	10003487	10043727	1	None	NMNAT, PNAT1
1	NMNAT1	ENSG00000173614	ENST00000492735	processed_transcript	KNOWN	None	17877	None	None	10003546	10032561	1	None	NMNAT, PNAT1
1	NMNAT1	ENSG00000173614	ENST00000496751	protein_coding	PUTATIVE	None	17877	127	41	10041110	10045559	1	None	NMNAT, PNAT1
7	None	ENSG00000244565	ENST00000462471	processed_pseudogene	KNOWN	None	None	None	None	115143421	115144135	1	None	None
HSCHR6_MHC_MCF	None	ENSG00000238070	ENST00000416048	processed_pseudogene	NOVEL	None	None	None	None	29044503	29045098	-1	None	None
19	None	ENSG00000266938	ENST00000590960	processed_pseudogene	KNOWN	None	None	None	None	2896623	2897220	-1	None	None
16	None	ENSG00000261235	ENST00000561826	antisense	KNOWN	None	None	None	None	82077941	82096827	-1	None	None
16	None	ENSG00000261235	ENST00000567021	antisense	KNOWN	None	None	None	None	82077976	82173236	-1	None	None
HSCHR6_MHC_MCF	OR2N1P	ENSG00000228698	ENST00000430268	unprocessed_pseudogene	KNOWN	None	8271	None	None	29105804	29106740	-1	None	OR6-7
19	None	ENSG00000253392	ENST00000520090	antisense	KNOWN	None	None	None	None	2915144	2926805	-1	None	None
22	MN1	ENSG00000169184	ENST00000302326	protein_coding	KNOWN	CCDS42998	7180	3963	1320	28144265	28197486	-1	MGCR	MGCR1-PEN, MGCR1
22	MN1	ENSG00000169184	ENST00000424656	nonsense_mediated_decay	KNOWN	None	7180	316	104	28146052	28192884	-1	MGCR	MGCR1-PEN, MGCR1
22	MN1	ENSG00000169184	ENST00000497225	processed_transcript	PUTATIVE	None	7180	None	None	28146666	28187871	-1	MGCR	MGCR1-PEN, MGCR1
19	DUS3L	ENSG00000141994	ENST00000590343	protein_coding	PUTATIVE	None	26920	508	168	5784843	5785766	-1	None	DUS3, FLJ13896
19	DUS3L	ENSG00000141994	ENST00000320699	protein_coding	KNOWN	CCDS54202	26920	1227	408	5785151	5791217	-1	None	DUS3, FLJ13896
19	DUS3L	ENSG00000141994	ENST00000589085	retained_intron	KNOWN	None	26920	None	None	5785151	5791221	-1	None	DUS3, FLJ13896
19	DUS3L	ENSG00000141994	ENST00000309061	protein_coding	KNOWN	CCDS32880	26920	1953	650	5785151	5791249	-1	None	DUS3, FLJ13896
19	DUS3L	ENSG00000141994	ENST00000589841	retained_intron	KNOWN	None	26920	None	None	5785467	5786010	-1	None	DUS3, FLJ13896
19	DUS3L	ENSG00000141994	ENST00000592468	nonsense_mediated_decay	KNOWN	None	26920	419	138	5785467	5788045	-1	None	DUS3, FLJ13896
19	DUS3L	ENSG00000141994	ENST00000591560	nonsense_mediated_decay	KNOWN	None	26920	516	171	5785467	5788187	-1	None	DUS3, FLJ13896
19	DUS3L	ENSG00000141994	ENST00000592673	retained_intron	KNOWN	None	26920	None	None	5785475	5786941	-1	None	DUS3, FLJ13896
19	DUS3L	ENSG00000141994	ENST00000590087	retained_intron	KNOWN	None	26920	None	None	5787258	5788181	-1	None	DUS3, FLJ13896
19	DUS3L	ENSG00000141994	ENST00000593229	retained_intron	KNOWN	None	26920	None	None	5787567	5788133	-1	None	DUS3, FLJ13896
19	DUS3L	ENSG00000141994	ENST00000590110	nonsense_mediated_decay	KNOWN	None	26920	654	217	5787714	5791236	-1	None	DUS3, FLJ13896
19	DUS3L	ENSG00000141994	ENST00000592491	protein_coding	PUTATIVE	None	26920	234	77	5789145	5790276	-1	None	DUS3, FLJ13896
19	DUS3L	ENSG00000141994	ENST00000585587	nonsense_mediated_decay	KNOWN	None	26920	114	37	5789262	5790965	-1	None	DUS3, FLJ13896
19	DUS3L	ENSG00000141994	ENST00000590681	processed_transcript	KNOWN	None	26920	None	None	5789305	5791049	-1	None	DUS3, FLJ13896
19	DUS3L	ENSG00000141994	ENST00000589854	retained_intron	KNOWN	None	26920	None	None	5789948	5791221	-1	None	DUS3, FLJ13896
HSCHR6_MHC_MCF	OR2J4P	ENSG00000220379	ENST00000433657	unprocessed_pseudogene	KNOWN	None	8262	None	None	29149439	29150374	1	None	OR6-9, hs6M1-5, dJ80I19.5
1	GRHL3	ENSG00000158055	ENST00000361548	protein_coding	KNOWN	CCDS44088	25839	1809	602	24645812	24681808	1	TFCP2L4	SOM
1	GRHL3	ENSG00000158055	ENST00000350501	protein_coding	KNOWN	CCDS252	25839	1881	626	24645915	24690972	1	TFCP2L4	SOM
1	GRHL3	ENSG00000158055	ENST00000530984	processed_transcript	KNOWN	None	25839	None	None	24645946	24663232	1	TFCP2L4	SOM
1	GRHL3	ENSG00000158055	ENST00000356046	protein_coding	PUTATIVE	CCDS53284	25839	1671	556	24646056	24681808	1	TFCP2L4	SOM
1	GRHL3	ENSG00000158055	ENST00000524724	protein_coding	PUTATIVE	None	25839	245	80	24646304	24663088	1	TFCP2L4	SOM
1	GRHL3	ENSG00000158055	ENST00000528064	nonsense_mediated_decay	KNOWN	None	25839	159	52	24649530	24680978	1	TFCP2L4	SOM
1	GRHL3	ENSG00000158055	ENST00000236255	protein_coding	KNOWN	CCDS251	25839	1824	607	24649530	24680978	1	TFCP2L4	SOM
1	GRHL3	ENSG00000158055	ENST00000528181	retained_intron	KNOWN	None	25839	None	None	24663988	24668685	1	TFCP2L4	SOM
1	GRHL3	ENSG00000158055	ENST00000461318	retained_intron	KNOWN	None	25839	None	None	24668650	24669765	1	TFCP2L4	SOM
1	GRHL3	ENSG00000158055	ENST00000342072	protein_coding	KNOWN	None	25839	1530	509	24645881	24681807	1	TFCP2L4	SOM
19	None	ENSG00000267469	ENST00000592758	antisense	KNOWN	None	None	None	None	3052908	3053722	1	None	None
17	RILP	ENSG00000167705	ENST00000574810	protein_coding	NOVEL	None	30266	681	226	1549444	1552326	-1	None	FLJ31193
17	RILP	ENSG00000167705	ENST00000301336	protein_coding	KNOWN	CCDS11009	30266	1206	401	1549444	1553371	-1	None	FLJ31193
17	RILP	ENSG00000167705	ENST00000570858	retained_intron	KNOWN	None	30266	None	None	1549487	1552140	-1	None	FLJ31193
17	RILP	ENSG00000167705	ENST00000573398	retained_intron	KNOWN	None	30266	None	None	1549794	1552362	-1	None	FLJ31193
18	RBFADN	ENSG00000267127	ENST00000569722	nonsense_mediated_decay	KNOWN	None	48591	174	57	77794346	77854968	1	None	None
18	RBFADN	ENSG00000267127	ENST00000562771	nonsense_mediated_decay	KNOWN	None	48591	174	57	77794385	77853401	1	None	None
18	RBFADN	ENSG00000267127	ENST00000591514	nonsense_mediated_decay	KNOWN	None	48591	174	57	77797387	77838211	1	None	None
18	RBFADN	ENSG00000267127	ENST00000589713	processed_transcript	KNOWN	None	48591	None	None	77805943	77811545	1	None	None
18	RBFADN	ENSG00000267127	ENST00000562391	processed_transcript	KNOWN	None	48591	None	None	77806900	77839195	1	None	None
5	RNA5SP182	ENSG00000251873	ENST00000516064	rRNA	KNOWN	None	43082	None	None	51182522	51182603	1	RN5S182	None
5	None	ENSG00000249270	ENST00000503545	processed_pseudogene	KNOWN	None	None	None	None	51226642	51227870	1	None	None
16	None	ENSG00000263636	ENST00000577313	miRNA	NOVEL	None	None	None	None	82144658	82144758	1	None	None
HSCHR6_MHC_MCF	None	ENSG00000265947	ENST00000578155	miRNA	NOVEL	None	None	None	None	29169703	29169769	1	None	None
19	None	ENSG00000267139	ENST00000587701	antisense	KNOWN	None	None	None	None	3118663	3119302	-1	None	None
4	RNU6-431P	ENSG00000206601	ENST00000383874	snRNA	KNOWN	None	47394	None	None	109573306	109573412	1	None	None
16	None	ENSG00000260161	ENST00000566728	processed_pseudogene	KNOWN	None	None	None	None	82154243	82155374	-1	None	None
HSCHR6_MHC_DBB	VWA7	ENSG00000230048	ENST00000438415	protein_coding	KNOWN	None	13939	2676	891	31715552	31727256	-1	C6orf27	G7c, NG37
HSCHR6_MHC_DBB	VWA7	ENSG00000230048	ENST00000461618	retained_intron	KNOWN	None	13939	None	None	31715999	31717649	-1	C6orf27	G7c, NG37
HSCHR6_MHC_DBB	VWA7	ENSG00000230048	ENST00000495138	processed_transcript	KNOWN	None	13939	None	None	31716251	31727234	-1	C6orf27	G7c, NG37
HSCHR6_MHC_DBB	VWA7	ENSG00000230048	ENST00000469319	processed_transcript	KNOWN	None	13939	None	None	31721232	31722969	-1	C6orf27	G7c, NG37
HSCHR6_MHC_DBB	VWA7	ENSG00000230048	ENST00000479247	processed_transcript	PUTATIVE	None	13939	None	None	31726021	31726881	-1	C6orf27	G7c, NG37
HSCHR6_MHC_DBB	VWA7	ENSG00000230048	ENST00000546928	protein_coding	KNOWN	None	13939	2559	852	31715556	31727293	-1	C6orf27	G7c, NG37
HSCHR6_MHC_DBB	VWA7	ENSG00000230048	ENST00000551633	protein_coding	KNOWN	None	13939	2067	688	31716522	31727293	-1	C6orf27	G7c, NG37
HSCHR6_MHC_MCF	OR2H4P	ENSG00000233182	ENST00000417544	unprocessed_pseudogene	KNOWN	None	8255	None	None	29183173	29184116	1	None	OR6-3, OR2H4, hs6M1-7, dJ80I19.6
4	None	ENSG00000249257	ENST00000508142	processed_pseudogene	KNOWN	None	None	None	None	109694769	109695176	1	None	None
5	None	ENSG00000244621	ENST00000474297	processed_pseudogene	KNOWN	None	None	None	None	51578401	51578693	1	None	None
17	C17orf64	ENSG00000141371	ENST00000461535	protein_coding	PUTATIVE	None	26990	29	8	58469790	58503232	1	None	None
17	C17orf64	ENSG00000141371	ENST00000474834	protein_coding	PUTATIVE	None	26990	295	97	58499103	58504155	1	None	None
17	C17orf64	ENSG00000141371	ENST00000269127	protein_coding	KNOWN	CCDS32698	26990	711	236	58499870	58508782	1	None	None
17	C17orf64	ENSG00000141371	ENST00000464714	retained_intron	KNOWN	None	26990	None	None	58499896	58503769	1	None	None
19	None	ENSG00000267688	ENST00000585980	antisense	KNOWN	None	None	None	None	3121114	3122126	-1	None	None
4	RCC2P8	ENSG00000250185	ENST00000502779	processed_pseudogene	KNOWN	None	42384	None	None	109709901	109710935	-1	None	None
5	None	ENSG00000250827	ENST00000513330	processed_pseudogene	KNOWN	None	None	None	None	51875389	51876940	-1	None	None
14	GTF2A1	ENSG00000165417	ENST00000553612	protein_coding	KNOWN	CCDS9873	4646	1131	376	81641796	81687266	-1	None	TFIIA
14	GTF2A1	ENSG00000165417	ENST00000298173	nonsense_mediated_decay	KNOWN	None	4646	180	59	81646522	81687296	-1	None	TFIIA
14	GTF2A1	ENSG00000165417	ENST00000434192	protein_coding	KNOWN	CCDS9874	4646	1014	337	81646553	81687575	-1	None	TFIIA
14	GTF2A1	ENSG00000165417	ENST00000556268	retained_intron	KNOWN	None	4646	None	None	81663571	81687721	-1	None	TFIIA
16	None	ENSG00000261029	ENST00000563841	lincRNA	KNOWN	None	None	None	None	82203901	82209408	1	None	None
HSCHR6_MHC_MCF	OR2B4P	ENSG00000224633	ENST00000417163	unprocessed_pseudogene	KNOWN	None	8239	None	None	29258648	29259590	1	None	hs6M1-22
19	None	ENSG00000266944	ENST00000588562	processed_pseudogene	KNOWN	None	None	None	None	3130715	3131396	1	None	None
4	None	ENSG00000265522	ENST00000581341	miRNA	NOVEL	None	None	None	None	109710356	109710418	-1	None	None
16	RN7SKP190	ENSG00000251888	ENST00000516079	misc_RNA	KNOWN	None	45914	None	None	82226110	82226395	-1	None	None
5	None	ENSG00000248898	ENST00000502995	antisense	KNOWN	None	None	None	None	51971027	52083860	-1	None	None
18	TWSG1	ENSG00000128791	ENST00000583147	nonsense_mediated_decay	KNOWN	None	12429	228	75	9334765	9400815	1	None	TSG
18	TWSG1	ENSG00000128791	ENST00000262120	protein_coding	KNOWN	CCDS11844	12429	672	223	9334765	9402418	1	None	TSG
18	TWSG1	ENSG00000128791	ENST00000581641	protein_coding	PUTATIVE	None	12429	555	184	9334848	9397065	1	None	TSG
4	None	ENSG00000246774	ENST00000500526	lincRNA	KNOWN	None	None	None	None	110224191	110237291	1	None	None
16	None	ENSG00000264502	ENST00000583568	miRNA	NOVEL	None	None	None	None	82381112	82381184	-1	None	None
5	None	ENSG00000251237	ENST00000509174	processed_pseudogene	KNOWN	None	None	None	None	52185498	52185786	1	None	None
4	RBMXP4	ENSG00000249465	ENST00000507797	processed_pseudogene	KNOWN	None	34028	None	None	110267482	110268615	-1	None	None
HSCHR6_MHC_MCF	None	ENSG00000257571	ENST00000549640	pseudogene	NOVEL	None	None	None	None	29267209	29267748	1	None	None
7	ATP6V1F	ENSG00000128524	ENST00000249289	protein_coding	KNOWN	CCDS5807	16832	360	119	128502880	128505897	1	None	ATP6S14, VATF, Vma7
7	ATP6V1F	ENSG00000128524	ENST00000492758	protein_coding	NOVEL	CCDS56511	16832	444	147	128502958	128505898	1	None	ATP6S14, VATF, Vma7
19	None	ENSG00000267551	ENST00000587587	antisense	KNOWN	None	None	None	None	3141574	3155173	-1	None	None
HSCHR6_MHC_MCF	DDX6P1	ENSG00000232435	ENST00000428340	processed_pseudogene	KNOWN	None	13948	None	None	29297638	29299073	-1	DDX6P	DDX6-Lp, bA150A6.3
7	YWHAG	ENSG00000170027	ENST00000307630	protein_coding	KNOWN	CCDS5584	12852	744	247	75956116	75988348	-1	None	None
19	COMP	ENSG00000105664	ENST00000542601	protein_coding	PUTATIVE	None	2227	2175	724	18893583	18902114	-1	PSACH, EDM1, EPD1	MED, THBS5
19	COMP	ENSG00000105664	ENST00000222271	protein_coding	KNOWN	CCDS12385	2227	2274	757	18893583	18902123	-1	PSACH, EDM1, EPD1	MED, THBS5
19	COMP	ENSG00000105664	ENST00000425807	protein_coding	NOVEL	None	2227	2115	704	18893584	18902114	-1	PSACH, EDM1, EPD1	MED, THBS5
19	COMP	ENSG00000105664	ENST00000546510	retained_intron	KNOWN	None	2227	None	None	18896928	18897844	-1	PSACH, EDM1, EPD1	MED, THBS5
HSCHR6_MHC_MCF	OR12D1P	ENSG00000249571	ENST00000509836	unprocessed_pseudogene	KNOWN	None	8177	None	None	29384836	29385782	1	OR12D1P	hs6M1-19
19	None	ENSG00000267448	ENST00000587592	antisense	KNOWN	None	None	None	None	3296763	3302919	-1	None	None
19	None	ENSG00000267448	ENST00000590698	antisense	KNOWN	None	None	None	None	3296763	3302968	-1	None	None
19	None	ENSG00000267448	ENST00000592230	antisense	KNOWN	None	None	None	None	3296763	3303001	-1	None	None
7	ACN9	ENSG00000196636	ENST00000432641	protein_coding	KNOWN	CCDS5648	21752	378	125	96745902	96811075	1	None	DC11
7	ACN9	ENSG00000196636	ENST00000489852	processed_transcript	KNOWN	None	21752	None	None	96747013	96772147	1	None	DC11
7	ACN9	ENSG00000196636	ENST00000360382	protein_coding	PUTATIVE	None	21752	207	68	96747035	96810799	1	None	DC11
7	ACN9	ENSG00000196636	ENST00000479853	processed_transcript	KNOWN	None	21752	None	None	96771993	96810959	1	None	DC11
12	FBXL14	ENSG00000171823	ENST00000339235	protein_coding	KNOWN	CCDS8509	28624	1257	418	1675159	1703331	-1	None	MGC40195, Fbl14
12	FBXL14	ENSG00000171823	ENST00000543278	processed_transcript	PUTATIVE	None	28624	None	None	1696527	1702204	-1	None	MGC40195, Fbl14
19	RN7SL866P	ENSG00000264159	ENST00000578785	misc_RNA	KNOWN	None	46882	None	None	3501316	3501587	1	None	None
4	SEC24B-AS1	ENSG00000247950	ENST00000499713	antisense	KNOWN	None	44003	None	None	110268631	110335566	-1	None	1/2-SBSRNA4
4	SEC24B-AS1	ENSG00000247950	ENST00000505895	antisense	KNOWN	None	44003	None	None	110278435	110354939	-1	None	1/2-SBSRNA4
4	SEC24B-AS1	ENSG00000247950	ENST00000510971	antisense	KNOWN	None	44003	None	None	110303551	110354920	-1	None	1/2-SBSRNA4
4	SEC24B-AS1	ENSG00000247950	ENST00000499359	antisense	KNOWN	None	44003	None	None	110351119	110354973	-1	None	1/2-SBSRNA4
HSCHR6_MHC_MCF	UBDP1	ENSG00000234856	ENST00000440648	unprocessed_pseudogene	KNOWN	None	18796	None	None	29432158	29437368	-1	None	dJ994E9.3
17	SUPT6H	ENSG00000109111	ENST00000314616	protein_coding	KNOWN	CCDS32596	11470	5181	1726	26989109	27029697	1	None	KIAA0162, SPT6H
17	SUPT6H	ENSG00000109111	ENST00000347486	protein_coding	KNOWN	CCDS32596	11470	5181	1726	26989216	27028753	1	None	KIAA0162, SPT6H
17	SUPT6H	ENSG00000109111	ENST00000577713	protein_coding	KNOWN	None	11470	150	49	26997926	27001341	1	None	KIAA0162, SPT6H
17	SUPT6H	ENSG00000109111	ENST00000584312	nonsense_mediated_decay	KNOWN	None	11470	162	53	27000420	27002017	1	None	KIAA0162, SPT6H
17	SUPT6H	ENSG00000109111	ENST00000584285	retained_intron	KNOWN	None	11470	None	None	27001767	27002450	1	None	KIAA0162, SPT6H
17	SUPT6H	ENSG00000109111	ENST00000577939	retained_intron	KNOWN	None	11470	None	None	27008147	27009206	1	None	KIAA0162, SPT6H
17	SUPT6H	ENSG00000109111	ENST00000581908	retained_intron	KNOWN	None	11470	None	None	27013935	27016445	1	None	KIAA0162, SPT6H
17	SUPT6H	ENSG00000109111	ENST00000585230	retained_intron	KNOWN	None	11470	None	None	27014368	27015553	1	None	KIAA0162, SPT6H
17	SUPT6H	ENSG00000109111	ENST00000583972	retained_intron	KNOWN	None	11470	None	None	27015688	27018867	1	None	KIAA0162, SPT6H
17	SUPT6H	ENSG00000109111	ENST00000580471	retained_intron	KNOWN	None	11470	None	None	27022028	27023901	1	None	KIAA0162, SPT6H
17	SUPT6H	ENSG00000109111	ENST00000581510	retained_intron	KNOWN	None	11470	None	None	27024930	27028557	1	None	KIAA0162, SPT6H
17	SUPT6H	ENSG00000109111	ENST00000583340	retained_intron	KNOWN	None	11470	None	None	27026807	27027482	1	None	KIAA0162, SPT6H
18	RBFA	ENSG00000101546	ENST00000306735	protein_coding	KNOWN	CCDS12021	26120	1032	343	77794358	77806392	1	C18orf22	FLJ21172, HsT169
18	RBFA	ENSG00000101546	ENST00000586847	processed_transcript	PUTATIVE	None	26120	None	None	77794389	77797504	1	C18orf22	FLJ21172, HsT169
18	RBFA	ENSG00000101546	ENST00000591612	retained_intron	KNOWN	None	26120	None	None	77794461	77796047	1	C18orf22	FLJ21172, HsT169
18	RBFA	ENSG00000101546	ENST00000262197	protein_coding	KNOWN	CCDS54194	26120	729	242	77794466	77806397	1	C18orf22	FLJ21172, HsT169
18	RBFA	ENSG00000101546	ENST00000593019	retained_intron	KNOWN	None	26120	None	None	77801302	77806332	1	C18orf22	FLJ21172, HsT169
5	None	ENSG00000241809	ENST00000490961	processed_pseudogene	KNOWN	None	None	None	None	52199738	52200308	1	None	None
7	None	ENSG00000202377	ENST00000365507	snoRNA	NOVEL	None	None	None	None	115221369	115221496	-1	None	None
HSCHR6_MHC_MCF	MAS1LP1	ENSG00000227668	ENST00000421428	unprocessed_pseudogene	KNOWN	None	33448	None	None	29442587	29443633	-1	MAS1LP	OTTHUMG00000086553
3	GPR62	ENSG00000180929	ENST00000322241	protein_coding	KNOWN	CCDS2838	13301	1107	368	51989330	51991509	1	None	None
11	None	ENSG00000255292	ENST00000531744	nonsense_mediated_decay	KNOWN	None	None	423	140	111957627	112050083	1	None	None
11	None	ENSG00000255292	ENST00000532699	nonsense_mediated_decay	KNOWN	None	None	423	140	111957627	112064284	1	None	None
11	None	ENSG00000255292	ENST00000525987	retained_intron	KNOWN	None	None	None	None	111957627	112064528	1	None	None
11	None	ENSG00000255292	ENST00000525468	processed_transcript	KNOWN	None	None	None	None	112038047	112064349	1	None	None
11	None	ENSG00000255292	ENST00000532612	processed_transcript	PUTATIVE	None	None	None	None	112041253	112071394	1	None	None
16	None	ENSG00000259873	ENST00000563948	processed_pseudogene	KNOWN	None	None	None	None	82468433	82468986	1	None	None
11	None	ENSG00000268192	ENST00000599663	protein_coding	NOVEL	None	None	48	15	119027590	119027930	-1	None	None
11	None	ENSG00000255177	ENST00000532061	antisense	KNOWN	None	None	None	None	1263491	1270906	-1	None	None
4	None	ENSG00000248302	ENST00000596885	processed_transcript	KNOWN	None	None	None	None	48991	49850	-1	None	None
4	None	ENSG00000248302	ENST00000503774	transcribed_processed_pseudogene	KNOWN	None	None	None	None	49448	50018	-1	None	None
HSCHR6_MHC_MCF	RPS17P1	ENSG00000223376	ENST00000418859	processed_pseudogene	KNOWN	None	13982	None	None	29456833	29457238	-1	None	RPS17p, dJ994E9.1
HSCHR6_MHC_MCF	RPS17P1	ENSG00000223376	ENST00000547038	pseudogene	KNOWN	None	13982	None	None	29456833	29457196	-1	None	RPS17p, dJ994E9.1
15	SCAND2P	ENSG00000176700	ENST00000348993	processed_transcript	KNOWN	None	10567	None	None	85174682	85185695	1	SCAND2	None
15	SCAND2P	ENSG00000176700	ENST00000427525	processed_transcript	KNOWN	None	10567	None	None	85174710	85178652	1	SCAND2	None
15	SCAND2P	ENSG00000176700	ENST00000558612	processed_transcript	KNOWN	None	10567	None	None	85174774	85177270	1	SCAND2	None
15	SCAND2P	ENSG00000176700	ENST00000530891	processed_transcript	KNOWN	None	10567	None	None	85175058	85180652	1	SCAND2	None
15	SCAND2P	ENSG00000176700	ENST00000560416	processed_transcript	KNOWN	None	10567	None	None	85175058	85181644	1	SCAND2	None
15	SCAND2P	ENSG00000176700	ENST00000541103	transcribed_unprocessed_pseudogene	KNOWN	None	10567	None	None	85175194	85185297	1	SCAND2	None
15	SCAND2P	ENSG00000176700	ENST00000560678	processed_transcript	KNOWN	None	10567	None	None	85177461	85183790	1	SCAND2	None
15	SCAND2P	ENSG00000176700	ENST00000560543	processed_transcript	KNOWN	None	10567	None	None	85177493	85182871	1	SCAND2	None
15	SCAND2P	ENSG00000176700	ENST00000558508	processed_transcript	KNOWN	None	10567	None	None	85177512	85182793	1	SCAND2	None
15	SCAND2P	ENSG00000176700	ENST00000541482	unprocessed_pseudogene	KNOWN	None	10567	None	None	85175058	85181644	1	SCAND2	None
7	None	ENSG00000242072	ENST00000471672	lincRNA	KNOWN	None	None	None	None	115287515	115316383	-1	None	None
5	None	ENSG00000249899	ENST00000505701	antisense	KNOWN	None	None	None	None	52228249	52286108	-1	None	None
5	None	ENSG00000249899	ENST00000503559	antisense	KNOWN	None	None	None	None	52228306	52286108	-1	None	None
X	MKRN4P	ENSG00000238222	ENST00000444706	processed_pseudogene	KNOWN	None	7115	None	None	40693738	40695258	1	ZNF127L1, MKRN4, MKRNP5	ZNF-Xp, RNF64
15	None	ENSG00000259376	ENST00000558979	antisense	KNOWN	None	None	None	None	101583921	101589661	-1	None	None
16	NTHL1	ENSG00000065057	ENST00000219066	protein_coding	KNOWN	CCDS10457	8028	939	312	2089816	2097867	-1	None	NTH1, OCTS3
16	NTHL1	ENSG00000065057	ENST00000561862	retained_intron	KNOWN	None	8028	None	None	2089821	2090469	-1	None	NTH1, OCTS3
16	NTHL1	ENSG00000065057	ENST00000565406	retained_intron	KNOWN	None	8028	None	None	2089821	2094827	-1	None	NTH1, OCTS3
16	NTHL1	ENSG00000065057	ENST00000566380	protein_coding	NOVEL	None	8028	710	235	2089821	2097787	-1	None	NTH1, OCTS3
16	NTHL1	ENSG00000065057	ENST00000562951	processed_transcript	KNOWN	None	8028	None	None	2089822	2094080	-1	None	NTH1, OCTS3
16	NTHL1	ENSG00000065057	ENST00000568513	nonsense_mediated_decay	KNOWN	None	8028	301	99	2089822	2097795	-1	None	NTH1, OCTS3
16	NTHL1	ENSG00000065057	ENST00000567727	retained_intron	KNOWN	None	8028	None	None	2089824	2093804	-1	None	NTH1, OCTS3
16	NTHL1	ENSG00000065057	ENST00000561841	nonsense_mediated_decay	KNOWN	None	8028	655	217	2089853	2097744	-1	None	NTH1, OCTS3
16	NTHL1	ENSG00000065057	ENST00000562120	retained_intron	KNOWN	None	8028	None	None	2093485	2096215	-1	None	NTH1, OCTS3
19	UBE2S	ENSG00000108106	ENST00000264552	protein_coding	KNOWN	CCDS33114	17895	669	222	55912652	55919145	-1	None	E2-EPF
19	UBE2S	ENSG00000108106	ENST00000587845	protein_coding	NOVEL	None	17895	613	203	55912947	55919087	-1	None	E2-EPF
19	UBE2S	ENSG00000108106	ENST00000589978	protein_coding	PUTATIVE	None	17895	240	79	55913082	55919139	-1	None	E2-EPF
19	UBE2S	ENSG00000108106	ENST00000592570	processed_transcript	KNOWN	None	17895	None	None	55915276	55915512	-1	None	E2-EPF
X	SDCBPP3	ENSG00000232801	ENST00000419629	processed_pseudogene	KNOWN	None	44687	None	None	40749900	40750790	-1	None	None
15	None	ENSG00000259755	ENST00000559857	antisense	KNOWN	None	None	None	None	101590937	101626271	-1	None	None
HSCHR6_MHC_MCF	None	ENSG00000227886	ENST00000416126	processed_transcript	KNOWN	None	None	None	None	29465072	29478119	1	None	None
11	TOLLIP-AS1	ENSG00000255153	ENST00000530897	antisense	KNOWN	None	27403	None	None	1330999	1331937	1	None	None
1	F5	ENSG00000198734	ENST00000495481	processed_transcript	PUTATIVE	None	3542	None	None	169483404	169484983	-1	None	None
1	F5	ENSG00000198734	ENST00000367797	protein_coding	KNOWN	CCDS1281	3542	6675	2224	169483404	169555826	-1	None	None
1	F5	ENSG00000198734	ENST00000367796	protein_coding	KNOWN	None	3542	6690	2229	169483404	169555826	-1	None	None
1	F5	ENSG00000198734	ENST00000546081	protein_coding	KNOWN	None	3542	999	332	169515727	169555719	-1	None	None
11	TMEM25	ENSG00000149582	ENST00000411589	protein_coding	KNOWN	CCDS44747	25890	969	322	118401756	118406550	1	None	FLJ14399
11	TMEM25	ENSG00000149582	ENST00000442938	protein_coding	KNOWN	CCDS44746	25890	921	306	118401803	118417995	1	None	FLJ14399
11	TMEM25	ENSG00000149582	ENST00000526941	retained_intron	KNOWN	None	25890	None	None	118401890	118403085	1	None	FLJ14399
11	TMEM25	ENSG00000149582	ENST00000527785	retained_intron	KNOWN	None	25890	None	None	118401907	118403025	1	None	FLJ14399
11	TMEM25	ENSG00000149582	ENST00000525118	nonsense_mediated_decay	KNOWN	None	25890	150	49	118401907	118403722	1	None	FLJ14399
11	TMEM25	ENSG00000149582	ENST00000534181	nonsense_mediated_decay	KNOWN	None	25890	114	37	118401907	118404240	1	None	FLJ14399
11	TMEM25	ENSG00000149582	ENST00000528373	protein_coding	PUTATIVE	None	25890	503	166	118401907	118404255	1	None	FLJ14399
11	TMEM25	ENSG00000149582	ENST00000354284	protein_coding	KNOWN	CCDS44745	25890	1056	351	118401914	118417199	1	None	FLJ14399
11	TMEM25	ENSG00000149582	ENST00000529176	retained_intron	KNOWN	None	25890	None	None	118401917	118403146	1	None	FLJ14399
11	TMEM25	ENSG00000149582	ENST00000530423	processed_transcript	KNOWN	None	25890	None	None	118401917	118403420	1	None	FLJ14399
11	TMEM25	ENSG00000149582	ENST00000533137	protein_coding	PUTATIVE	None	25890	510	169	118401917	118403855	1	None	FLJ14399
11	TMEM25	ENSG00000149582	ENST00000533587	processed_transcript	KNOWN	None	25890	None	None	118401917	118403923	1	None	FLJ14399
11	TMEM25	ENSG00000149582	ENST00000529001	processed_transcript	KNOWN	None	25890	None	None	118401917	118404337	1	None	FLJ14399
11	TMEM25	ENSG00000149582	ENST00000532762	protein_coding	PUTATIVE	None	25890	505	167	118401917	118404835	1	None	FLJ14399
11	TMEM25	ENSG00000149582	ENST00000526973	protein_coding	PUTATIVE	None	25890	583	193	118401917	118405258	1	None	FLJ14399
11	TMEM25	ENSG00000149582	ENST00000354064	protein_coding	KNOWN	CCDS44748	25890	657	218	118401917	118406543	1	None	FLJ14399
11	TMEM25	ENSG00000149582	ENST00000533627	retained_intron	KNOWN	None	25890	None	None	118401917	118406543	1	None	FLJ14399
11	TMEM25	ENSG00000149582	ENST00000533102	protein_coding	KNOWN	None	25890	1146	381	118401917	118406548	1	None	FLJ14399
11	TMEM25	ENSG00000149582	ENST00000524522	retained_intron	KNOWN	None	25890	None	None	118401917	118406549	1	None	FLJ14399
11	TMEM25	ENSG00000149582	ENST00000525298	retained_intron	KNOWN	None	25890	None	None	118401918	118403574	1	None	FLJ14399
11	TMEM25	ENSG00000149582	ENST00000528934	processed_transcript	KNOWN	None	25890	None	None	118401918	118404192	1	None	FLJ14399
11	TMEM25	ENSG00000149582	ENST00000313236	protein_coding	KNOWN	CCDS8398	25890	1101	366	118401924	118406550	1	None	FLJ14399
11	TMEM25	ENSG00000149582	ENST00000527267	protein_coding	PUTATIVE	None	25890	121	39	118402073	118403011	1	None	FLJ14399
11	TMEM25	ENSG00000149582	ENST00000524725	protein_coding	PUTATIVE	CCDS44747	25890	969	322	118402105	118406544	1	None	FLJ14399
11	TMEM25	ENSG00000149582	ENST00000532749	processed_transcript	KNOWN	None	25890	None	None	118402186	118403748	1	None	FLJ14399
11	TMEM25	ENSG00000149582	ENST00000533689	protein_coding	PUTATIVE	None	25890	415	137	118402211	118403664	1	None	FLJ14399
11	TMEM25	ENSG00000149582	ENST00000525129	processed_transcript	KNOWN	None	25890	None	None	118402241	118402700	1	None	FLJ14399
11	TMEM25	ENSG00000149582	ENST00000531494	retained_intron	KNOWN	None	25890	None	None	118402288	118404234	1	None	FLJ14399
11	TMEM25	ENSG00000149582	ENST00000526853	protein_coding	PUTATIVE	None	25890	601	199	118403747	118405441	1	None	FLJ14399
11	TMEM25	ENSG00000149582	ENST00000359862	protein_coding	KNOWN	CCDS44747	25890	969	322	118401803	118406547	1	None	FLJ14399
11	TMEM25	ENSG00000149582	ENST00000544878	protein_coding	KNOWN	None	25890	810	269	118401907	118405350	1	None	FLJ14399
15	None	ENSG00000259365	ENST00000560938	lincRNA	KNOWN	None	None	None	None	101656808	101657751	1	None	None
13	DACH1	ENSG00000165659	ENST00000305425	protein_coding	KNOWN	CCDS41899	2663	2127	708	72012098	72441330	-1	DACH	None
13	DACH1	ENSG00000165659	ENST00000359684	protein_coding	KNOWN	None	2663	2283	760	72014078	72440907	-1	DACH	None
13	DACH1	ENSG00000165659	ENST00000313174	protein_coding	KNOWN	CCDS53874	2663	1683	560	72012098	72441330	-1	DACH	None
13	DACH1	ENSG00000165659	ENST00000354591	protein_coding	KNOWN	CCDS53873	2663	1521	506	72012098	72441330	-1	DACH	None
7	None	ENSG00000240973	ENST00000470532	lincRNA	KNOWN	None	None	None	None	115319399	115322672	-1	None	None
19	None	ENSG00000267300	ENST00000586412	lincRNA	KNOWN	None	None	None	None	32563577	32564688	1	None	None
10	FAM25C	ENSG00000188279	ENST00000479781	processed_transcript	KNOWN	None	23586	None	None	49199649	49205776	-1	None	bA164N7.4
10	FAM25C	ENSG00000188279	ENST00000342763	protein_coding	KNOWN	CCDS44383	23586	270	89	49203399	49207818	-1	None	bA164N7.4
19	None	ENSG00000252408	ENST00000516599	snoRNA	NOVEL	None	None	None	None	3521246	3521318	-1	None	None
16	None	ENSG00000258150	ENST00000549950	protein_coding	PUTATIVE	None	None	1320	439	29476288	29479154	-1	None	None
16	None	ENSG00000258150	ENST00000551411	protein_coding	PUTATIVE	None	None	432	143	29476673	29478134	-1	None	None
16	None	ENSG00000258150	ENST00000549858	protein_coding	PUTATIVE	None	None	397	131	29476716	29478016	-1	None	None
HSCHR6_MHC_MCF	None	ENSG00000233857	ENST00000448853	processed_transcript	KNOWN	None	None	None	None	29496990	29501138	1	None	None
HSCHR6_MHC_MCF	None	ENSG00000233857	ENST00000425928	processed_transcript	KNOWN	None	None	None	None	29497046	29499727	1	None	None
19	None	ENSG00000267204	ENST00000591212	lincRNA	KNOWN	None	None	None	None	32592994	32596822	-1	None	None
19	None	ENSG00000267436	ENST00000589360	antisense	KNOWN	None	None	None	None	3544197	3557567	1	None	None
3	GK5	ENSG00000175066	ENST00000492097	nonsense_mediated_decay	KNOWN	None	28635	906	301	141882414	141944409	-1	None	MGC40579
3	GK5	ENSG00000175066	ENST00000480757	nonsense_mediated_decay	KNOWN	None	28635	906	301	141882751	141944390	-1	None	MGC40579
3	GK5	ENSG00000175066	ENST00000460515	retained_intron	KNOWN	None	28635	None	None	141882761	141901908	-1	None	MGC40579
3	GK5	ENSG00000175066	ENST00000392993	protein_coding	KNOWN	CCDS33871	28635	1590	529	141882784	141944449	-1	None	MGC40579
3	GK5	ENSG00000175066	ENST00000463349	nonsense_mediated_decay	KNOWN	None	28635	52	16	141884541	141896351	-1	None	MGC40579
3	GK5	ENSG00000175066	ENST00000486459	protein_coding	PUTATIVE	None	28635	519	172	141889025	141900312	-1	None	MGC40579
3	GK5	ENSG00000175066	ENST00000460630	retained_intron	KNOWN	None	28635	None	None	141900304	141902330	-1	None	MGC40579
3	GK5	ENSG00000175066	ENST00000460544	retained_intron	KNOWN	None	28635	None	None	141905008	141944258	-1	None	MGC40579
3	GK5	ENSG00000175066	ENST00000487672	nonsense_mediated_decay	KNOWN	None	28635	462	153	141917699	141944434	-1	None	MGC40579
3	GK5	ENSG00000175066	ENST00000466685	processed_transcript	KNOWN	None	28635	None	None	141923115	141944357	-1	None	MGC40579
3	GK5	ENSG00000175066	ENST00000472759	processed_transcript	KNOWN	None	28635	None	None	141923139	141944417	-1	None	MGC40579
3	GK5	ENSG00000175066	ENST00000489085	retained_intron	KNOWN	None	28635	None	None	141923517	141944434	-1	None	MGC40579
3	GK5	ENSG00000175066	ENST00000544571	protein_coding	KNOWN	None	28635	906	301	141904546	141944428	-1	None	MGC40579
15	None	ENSG00000259182	ENST00000557903	lincRNA	KNOWN	None	None	None	None	101708735	101711026	1	None	None
15	None	ENSG00000259182	ENST00000558515	lincRNA	KNOWN	None	None	None	None	101709774	101711026	1	None	None
22	PITPNB	ENSG00000180957	ENST00000335272	protein_coding	KNOWN	CCDS13842	9002	816	271	28247657	28315256	-1	None	VIB1B
22	PITPNB	ENSG00000180957	ENST00000320996	protein_coding	KNOWN	None	9002	819	272	28247658	28315243	-1	None	VIB1B
22	PITPNB	ENSG00000180957	ENST00000477861	retained_intron	KNOWN	None	9002	None	None	28250894	28294061	-1	None	VIB1B
22	PITPNB	ENSG00000180957	ENST00000493007	retained_intron	KNOWN	None	9002	None	None	28254419	28256603	-1	None	VIB1B
22	PITPNB	ENSG00000180957	ENST00000415296	protein_coding	PUTATIVE	None	9002	361	119	28256184	28316122	-1	None	VIB1B
22	PITPNB	ENSG00000180957	ENST00000436663	protein_coding	PUTATIVE	None	9002	503	166	28269763	28315202	-1	None	VIB1B
22	PITPNB	ENSG00000180957	ENST00000465179	retained_intron	KNOWN	None	9002	None	None	28290149	28292690	-1	None	VIB1B
22	PITPNB	ENSG00000180957	ENST00000460566	retained_intron	KNOWN	None	9002	None	None	28292888	28315244	-1	None	VIB1B
22	PITPNB	ENSG00000180957	ENST00000471825	retained_intron	KNOWN	None	9002	None	None	28306436	28315232	-1	None	VIB1B
22	PITPNB	ENSG00000180957	ENST00000455418	protein_coding	KNOWN	None	9002	822	273	28247660	28315115	-1	None	VIB1B
13	CSNK1A1L	ENSG00000180138	ENST00000379800	protein_coding	KNOWN	CCDS9363	20289	1014	337	37677398	37679803	-1	None	MGC33182
6	CLVS2	ENSG00000146352	ENST00000275162	protein_coding	KNOWN	CCDS34525	23046	984	327	123317116	123385612	1	C6orf212, C6orf213, RLBP1L2	bA160A10.4
6	CLVS2	ENSG00000146352	ENST00000368438	protein_coding	KNOWN	None	23046	546	181	123317834	123385612	1	C6orf212, C6orf213, RLBP1L2	bA160A10.4
19	None	ENSG00000267231	ENST00000592368	lincRNA	KNOWN	None	None	None	None	3558013	3558484	1	None	None
11	KRTAP5-AS1	ENSG00000233930	ENST00000524947	antisense	KNOWN	None	27877	None	None	1592583	1618813	1	None	None
11	KRTAP5-AS1	ENSG00000233930	ENST00000424148	antisense	KNOWN	None	27877	None	None	1593971	1620414	1	None	None
11	KRTAP5-AS1	ENSG00000233930	ENST00000532922	antisense	KNOWN	None	27877	None	None	1594487	1618779	1	None	None
11	KRTAP5-AS1	ENSG00000233930	ENST00000534077	antisense	KNOWN	None	27877	None	None	1594879	1618671	1	None	None
1	RBP7	ENSG00000162444	ENST00000315901	nonsense_mediated_decay	KNOWN	None	30316	180	59	10057264	10076078	1	None	CRBPIV
1	RBP7	ENSG00000162444	ENST00000294435	protein_coding	KNOWN	CCDS109	30316	405	134	10057274	10076078	1	None	CRBPIV
15	None	ENSG00000259172	ENST00000558838	antisense	KNOWN	None	None	None	None	101835624	101845942	1	None	None
19	None	ENSG00000266959	ENST00000588553	processed_pseudogene	KNOWN	None	None	None	None	3568118	3568271	-1	None	None
19	None	ENSG00000267133	ENST00000593038	lincRNA	KNOWN	None	None	None	None	32594489	32595630	1	None	None
19	None	ENSG00000267133	ENST00000592668	lincRNA	KNOWN	None	None	None	None	32595443	32596069	1	None	None
19	None	ENSG00000267133	ENST00000591232	lincRNA	KNOWN	None	None	None	None	32595886	32597443	1	None	None
5	RNU6-211P	ENSG00000206774	ENST00000384047	snRNA	KNOWN	None	47174	None	None	79661545	79661651	-1	None	None
15	None	ENSG00000259764	ENST00000558696	antisense	KNOWN	None	None	None	None	101874642	101877633	1	None	None
22	None	ENSG00000233179	ENST00000453866	lincRNA	KNOWN	None	None	None	None	48844702	48847029	1	None	None
HSCHR6_MHC_MCF	GPR53P	ENSG00000228993	ENST00000440489	unprocessed_pseudogene	KNOWN	None	4509	None	None	29505274	29506357	-1	None	PsiGPR53, dJ271M21.8
19	CACTIN-AS1	ENSG00000226800	ENST00000592274	antisense	KNOWN	None	31391	None	None	3607245	3613928	1	C19orf29OS, C19orf29-AS1	None
5	None	ENSG00000249042	ENST00000508000	antisense	KNOWN	None	None	None	None	79778112	79783772	-1	None	None
5	None	ENSG00000249042	ENST00000504300	antisense	KNOWN	None	None	None	None	79778531	79783882	-1	None	None
X	None	ENSG00000189145	ENST00000342691	processed_pseudogene	KNOWN	None	None	None	None	40767240	40767644	1	None	None
X	None	ENSG00000189145	ENST00000396647	processed_pseudogene	KNOWN	None	None	None	None	40767237	40767644	1	None	None
6	PCMT1	ENSG00000120265	ENST00000367384	protein_coding	KNOWN	CCDS59041	8728	861	286	150070579	150132556	1	None	None
6	PCMT1	ENSG00000120265	ENST00000484601	nonsense_mediated_decay	KNOWN	None	8728	375	124	150070580	150117569	1	None	None
6	PCMT1	ENSG00000120265	ENST00000367378	protein_coding	KNOWN	CCDS5219	8728	858	285	150070580	150123666	1	None	None
6	PCMT1	ENSG00000120265	ENST00000464889	protein_coding	KNOWN	CCDS5219	8728	858	285	150070580	150132556	1	None	None
6	PCMT1	ENSG00000120265	ENST00000460828	nonsense_mediated_decay	KNOWN	None	8728	363	120	150070863	150094286	1	None	None
6	PCMT1	ENSG00000120265	ENST00000494411	nonsense_mediated_decay	KNOWN	None	8728	393	130	150070863	150111192	1	None	None
6	PCMT1	ENSG00000120265	ENST00000486585	nonsense_mediated_decay	KNOWN	None	8728	203	66	150070952	150114805	1	None	None
6	PCMT1	ENSG00000120265	ENST00000495487	protein_coding	PUTATIVE	None	8728	288	95	150071180	150114768	1	None	None
6	PCMT1	ENSG00000120265	ENST00000480010	processed_transcript	KNOWN	None	8728	None	None	150131176	150132044	1	None	None
6	PCMT1	ENSG00000120265	ENST00000367380	protein_coding	KNOWN	None	8728	684	227	150070831	150132556	1	None	None
6	PCMT1	ENSG00000120265	ENST00000544496	protein_coding	KNOWN	None	8728	579	192	150070910	150131937	1	None	None
HSCHR6_MHC_MCF	OR2I1P	ENSG00000232049	ENST00000447604	unprocessed_pseudogene	KNOWN	None	8258	None	None	29520811	29521758	1	OR2I1, OR2I3P, OR2I4P, OR2I2	HS6M1-14
15	None	ENSG00000259464	ENST00000560619	processed_pseudogene	KNOWN	None	None	None	None	102102739	102103177	1	None	None
10	CTSLP1	ENSG00000236417	ENST00000457530	unprocessed_pseudogene	KNOWN	None	2539	None	None	89146442	89149960	-1	CTSLL, CTSLL1, CTSL1P1	None
7	None	ENSG00000243345	ENST00000489626	lincRNA	KNOWN	None	None	None	None	115429783	115431103	1	None	None
22	MIR4535	ENSG00000266887	ENST00000580946	miRNA	KNOWN	None	41629	None	None	49176107	49176165	1	None	hsa-mir-4535
X	CUL4B	ENSG00000158290	ENST00000371322	protein_coding	KNOWN	CCDS43987	2555	2688	895	119658464	119694555	-1	None	None
X	CUL4B	ENSG00000158290	ENST00000336592	protein_coding	PUTATIVE	None	2555	2703	900	119660251	119695295	-1	None	None
X	CUL4B	ENSG00000158290	ENST00000404115	protein_coding	KNOWN	CCDS35379	2555	2742	913	119660496	119709649	-1	None	None
X	CUL4B	ENSG00000158290	ENST00000497616	processed_transcript	KNOWN	None	2555	None	None	119666191	119672402	-1	None	None
X	CUL4B	ENSG00000158290	ENST00000371323	protein_coding	KNOWN	None	2555	703	233	119677601	119693798	-1	None	None
X	CUL4B	ENSG00000158290	ENST00000467641	processed_transcript	KNOWN	None	2555	None	None	119691772	119695157	-1	None	None
X	CUL4B	ENSG00000158290	ENST00000486604	processed_transcript	KNOWN	None	2555	None	None	119705031	119709379	-1	None	None
19	RNA5SP472	ENSG00000200738	ENST00000363868	rRNA	KNOWN	None	43372	None	None	32734871	32734989	-1	RN5S472	None
6	KCNQ5	ENSG00000185760	ENST00000342056	protein_coding	NOVEL	CCDS55034	6299	2856	951	73331520	73908571	1	None	Kv7.5
6	KCNQ5	ENSG00000185760	ENST00000370398	protein_coding	KNOWN	CCDS4976	6299	2799	932	73331809	73908574	1	None	Kv7.5
6	KCNQ5	ENSG00000185760	ENST00000370392	protein_coding	KNOWN	None	6299	1284	427	73331834	73834373	1	None	Kv7.5
6	KCNQ5	ENSG00000185760	ENST00000443915	protein_coding	PUTATIVE	None	6299	207	68	73713719	73751910	1	None	Kv7.5
6	KCNQ5	ENSG00000185760	ENST00000441538	protein_coding	PUTATIVE	None	6299	273	90	73751659	73752984	1	None	Kv7.5
6	KCNQ5	ENSG00000185760	ENST00000427928	protein_coding	PUTATIVE	None	6299	292	96	73830280	73844050	1	None	Kv7.5
6	KCNQ5	ENSG00000185760	ENST00000355194	protein_coding	KNOWN	None	6299	2799	932	73331571	73908557	1	None	Kv7.5
6	KCNQ5	ENSG00000185760	ENST00000402622	protein_coding	KNOWN	CCDS55036	6299	2829	942	73331918	73905137	1	None	Kv7.5
6	KCNQ5	ENSG00000185760	ENST00000355635	protein_coding	KNOWN	None	6299	2802	933	73331918	73905137	1	None	Kv7.5
6	KCNQ5	ENSG00000185760	ENST00000403813	protein_coding	KNOWN	CCDS55037	6299	2772	923	73331918	73905137	1	None	Kv7.5
6	KCNQ5	ENSG00000185760	ENST00000414165	protein_coding	KNOWN	CCDS55035	6299	2469	822	73331918	73905137	1	None	Kv7.5
15	None	ENSG00000259695	ENST00000560214	processed_pseudogene	KNOWN	None	None	None	None	102121096	102121759	-1	None	None
20	MIR4326	ENSG00000266104	ENST00000582203	miRNA	KNOWN	None	38314	None	None	61918160	61918218	1	None	hsa-mir-4326
22	None	ENSG00000251912	ENST00000516103	miRNA	NOVEL	None	None	None	None	49210132	49210216	-1	None	None
7	None	ENSG00000199224	ENST00000362354	misc_RNA	NOVEL	None	None	None	None	115473327	115473427	-1	None	None
19	None	ENSG00000263960	ENST00000581176	miRNA	NOVEL	None	None	None	None	32868188	32868273	-1	None	None
HSCHR6_MHC_MCF	OR2H5P	ENSG00000223853	ENST00000422192	unprocessed_pseudogene	KNOWN	None	8256	None	None	29541490	29542417	1	None	OR2H5, hs6M1-13, HS271M21
22	None	ENSG00000205632	ENST00000380981	lincRNA	KNOWN	None	None	None	None	49288729	49294198	1	None	None
19	None	ENSG00000267213	ENST00000592680	lincRNA	KNOWN	None	None	None	None	32880956	32896445	-1	None	None
19	None	ENSG00000267213	ENST00000595727	lincRNA	KNOWN	None	None	None	None	32896370	32896444	-1	None	None
4	RN7SL55P	ENSG00000243227	ENST00000464534	misc_RNA	KNOWN	None	46071	None	None	110371931	110372224	-1	None	None
X	RPS2P55	ENSG00000216866	ENST00000397318	processed_pseudogene	KNOWN	None	36140	None	None	40794235	40795117	-1	None	None
X	RPS2P55	ENSG00000216866	ENST00000406190	processed_pseudogene	KNOWN	None	36140	None	None	40794198	40794930	-1	None	None
5	None	ENSG00000253886	ENST00000520639	processed_pseudogene	KNOWN	None	None	None	None	153873136	153874303	1	None	None
7	None	ENSG00000243243	ENST00000456289	antisense	KNOWN	None	None	None	None	115877983	115879305	-1	None	None
7	None	ENSG00000243243	ENST00000444244	antisense	KNOWN	None	None	None	None	115878058	115967950	-1	None	None
4	MIR576	ENSG00000207988	ENST00000385253	miRNA	KNOWN	None	32832	None	None	110409854	110409951	1	MIRN576	hsa-mir-576
6	None	ENSG00000253194	ENST00000518570	antisense	KNOWN	None	None	None	None	119255950	119352706	1	None	None
5	CIR1P1	ENSG00000253146	ENST00000524055	processed_pseudogene	KNOWN	None	44011	None	None	153938868	153940000	-1	None	None
19	None	ENSG00000263780	ENST00000580268	miRNA	NOVEL	None	None	None	None	32991762	32991847	-1	None	None
HSCHR6_MHC_MCF	TMEM183AP1	ENSG00000224293	ENST00000438004	processed_pseudogene	KNOWN	None	33458	None	None	29545041	29545330	1	None	BPG126D10.10, OTTHUMG00000086663
19	None	ENSG00000201388	ENST00000364518	snoRNA	KNOWN	None	None	None	None	33099243	33099375	-1	None	None
6	None	ENSG00000222649	ENST00000410717	misc_RNA	NOVEL	None	None	None	None	119379045	119379139	1	None	None
5	None	ENSG00000242706	ENST00000477681	processed_pseudogene	KNOWN	None	None	None	None	79794353	79794790	-1	None	None
16	None	ENSG00000201541	ENST00000364671	snoRNA	NOVEL	None	None	None	None	24344736	24344868	-1	None	None
6	MIR548B	ENSG00000207982	ENST00000385247	miRNA	KNOWN	None	32799	None	None	119390212	119390308	-1	MIRN548B	hsa-mir-548b
17	ABCA10	ENSG00000154263	ENST00000522787	protein_coding	PUTATIVE	None	30	138	45	67143355	67146203	-1	None	EST698739
17	ABCA10	ENSG00000154263	ENST00000521538	protein_coding	PUTATIVE	None	30	229	75	67143360	67146204	-1	None	EST698739
17	ABCA10	ENSG00000154263	ENST00000269081	protein_coding	KNOWN	CCDS11684	30	4632	1543	67144148	67240987	-1	None	EST698739
17	ABCA10	ENSG00000154263	ENST00000522406	nonsense_mediated_decay	KNOWN	None	30	1359	452	67144149	67224796	-1	None	EST698739
17	ABCA10	ENSG00000154263	ENST00000524231	retained_intron	KNOWN	None	30	None	None	67144321	67146593	-1	None	EST698739
17	ABCA10	ENSG00000154263	ENST00000519732	processed_transcript	KNOWN	None	30	None	None	67144640	67171922	-1	None	EST698739
17	ABCA10	ENSG00000154263	ENST00000518929	nonsense_mediated_decay	KNOWN	None	30	1023	340	67144733	67221583	-1	None	EST698739
17	ABCA10	ENSG00000154263	ENST00000523419	nonsense_mediated_decay	KNOWN	None	30	3981	1326	67144733	67221583	-1	None	EST698739
17	ABCA10	ENSG00000154263	ENST00000588514	retained_intron	KNOWN	None	30	None	None	67144886	67145464	-1	None	EST698739
17	ABCA10	ENSG00000154263	ENST00000523512	nonsense_mediated_decay	KNOWN	None	30	279	92	67210845	67224818	-1	None	EST698739
17	ABCA10	ENSG00000154263	ENST00000524273	nonsense_mediated_decay	KNOWN	None	30	413	136	67210913	67218754	-1	None	EST698739
17	ABCA10	ENSG00000154263	ENST00000521526	processed_transcript	KNOWN	None	30	None	None	67218819	67224841	-1	None	EST698739
17	ABCA10	ENSG00000154263	ENST00000416101	protein_coding	KNOWN	None	30	1401	466	67144148	67240956	-1	None	EST698739
17	ABCA10	ENSG00000154263	ENST00000432313	protein_coding	KNOWN	None	30	1359	452	67192500	67240956	-1	None	EST698739
17	ABCA10	ENSG00000154263	ENST00000423818	protein_coding	KNOWN	None	30	279	92	67215833	67224818	-1	None	EST698739
19	RPS12P31	ENSG00000242325	ENST00000491419	processed_pseudogene	KNOWN	None	35578	None	None	33126984	33127381	1	None	None
16	RNU7-24P	ENSG00000239081	ENST00000458867	snRNA	KNOWN	None	34120	None	None	24411377	24411438	-1	RNU7P3	U7.24, HSU7.25
9	CREB3	ENSG00000107175	ENST00000353704	protein_coding	KNOWN	CCDS6588	2347	1116	371	35732332	35737001	1	None	LZIP, Luman
9	CREB3	ENSG00000107175	ENST00000486056	processed_transcript	KNOWN	None	2347	None	None	35732595	35736857	1	None	LZIP, Luman
3	ARHGEF3	ENSG00000163947	ENST00000296315	protein_coding	KNOWN	CCDS2878	683	1581	526	56761446	56835995	-1	None	STA3, XPLN, GEF3, DKFZP434F2429
3	ARHGEF3	ENSG00000163947	ENST00000338458	protein_coding	KNOWN	CCDS46854	683	1677	558	56761446	57113336	-1	None	STA3, XPLN, GEF3, DKFZP434F2429
3	ARHGEF3	ENSG00000163947	ENST00000413728	protein_coding	KNOWN	CCDS46855	683	1599	532	56761449	56809685	-1	None	STA3, XPLN, GEF3, DKFZP434F2429
3	ARHGEF3	ENSG00000163947	ENST00000465659	nonsense_mediated_decay	KNOWN	None	683	709	235	56762260	56835977	-1	None	STA3, XPLN, GEF3, DKFZP434F2429
3	ARHGEF3	ENSG00000163947	ENST00000496106	protein_coding	NOVEL	None	683	1599	532	56763015	56950499	-1	None	STA3, XPLN, GEF3, DKFZP434F2429
3	ARHGEF3	ENSG00000163947	ENST00000497267	protein_coding	NOVEL	None	683	1494	497	56763049	56809595	-1	None	STA3, XPLN, GEF3, DKFZP434F2429
3	ARHGEF3	ENSG00000163947	ENST00000495373	protein_coding	PUTATIVE	None	683	1251	416	56765621	56835977	-1	None	STA3, XPLN, GEF3, DKFZP434F2429
3	ARHGEF3	ENSG00000163947	ENST00000468727	protein_coding	PUTATIVE	None	683	553	183	56785146	57113336	-1	None	STA3, XPLN, GEF3, DKFZP434F2429
3	ARHGEF3	ENSG00000163947	ENST00000473779	protein_coding	PUTATIVE	None	683	589	195	56785328	57011403	-1	None	STA3, XPLN, GEF3, DKFZP434F2429
3	ARHGEF3	ENSG00000163947	ENST00000481422	processed_transcript	KNOWN	None	683	None	None	56785377	56973937	-1	None	STA3, XPLN, GEF3, DKFZP434F2429
3	ARHGEF3	ENSG00000163947	ENST00000498517	processed_transcript	KNOWN	None	683	None	None	56787522	56973935	-1	None	STA3, XPLN, GEF3, DKFZP434F2429
3	ARHGEF3	ENSG00000163947	ENST00000477833	nonsense_mediated_decay	KNOWN	None	683	153	50	56789009	57113357	-1	None	STA3, XPLN, GEF3, DKFZP434F2429
3	ARHGEF3	ENSG00000163947	ENST00000477440	processed_transcript	KNOWN	None	683	None	None	56789100	57112843	-1	None	STA3, XPLN, GEF3, DKFZP434F2429
3	ARHGEF3	ENSG00000163947	ENST00000468466	protein_coding	PUTATIVE	None	683	300	99	56807737	57113293	-1	None	STA3, XPLN, GEF3, DKFZP434F2429
3	ARHGEF3	ENSG00000163947	ENST00000486829	nonsense_mediated_decay	KNOWN	None	683	213	70	56807795	57011403	-1	None	STA3, XPLN, GEF3, DKFZP434F2429
5	None	ENSG00000272123	ENST00000606157	antisense	KNOWN	None	None	None	None	52384846	52385298	-1	None	None
6	None	ENSG00000220139	ENST00000402519	processed_pseudogene	KNOWN	None	None	None	None	119480462	119480641	1	None	None
8	NAT2	ENSG00000156006	ENST00000286479	protein_coding	KNOWN	CCDS6008	7646	873	290	18248755	18258728	1	AAC2	None
8	NAT2	ENSG00000156006	ENST00000520116	protein_coding	PUTATIVE	None	7646	483	160	18248797	18258503	1	AAC2	None
5	MIR3141	ENSG00000264760	ENST00000585290	miRNA	KNOWN	None	38326	None	None	153975572	153975632	-1	None	hsa-mir-3141
HSCHR6_MHC_MCF	None	ENSG00000265013	ENST00000581848	snoRNA	KNOWN	None	None	None	None	29549832	29549915	1	None	None
16	None	ENSG00000264465	ENST00000579240	miRNA	NOVEL	None	None	None	None	24450309	24450408	1	None	None
4	BBS12	ENSG00000181004	ENST00000314218	protein_coding	KNOWN	CCDS3728	26648	2133	710	123653857	123666098	1	C4orf24	FLJ35630, FLJ41559
4	BBS12	ENSG00000181004	ENST00000433287	protein_coding	KNOWN	None	26648	573	190	123653952	123663620	1	C4orf24	FLJ35630, FLJ41559
4	BBS12	ENSG00000181004	ENST00000542236	protein_coding	KNOWN	CCDS3728	26648	2133	710	123653857	123666097	1	C4orf24	FLJ35630, FLJ41559
HSCHR6_MHC_MCF	RPL13AP	ENSG00000231190	ENST00000417611	processed_pseudogene	KNOWN	None	13977	None	None	29550091	29550608	1	None	RPL13Ap, dJ271M21.3
19	ZNF749	ENSG00000186230	ENST00000334181	protein_coding	KNOWN	CCDS33132	32783	2337	778	57946697	57956853	1	None	FLJ16360
19	ZNF749	ENSG00000186230	ENST00000415248	protein_coding	PUTATIVE	None	32783	198	65	57946711	57954975	1	None	FLJ16360
19	ZNF749	ENSG00000186230	ENST00000597296	processed_transcript	KNOWN	None	32783	None	None	57946715	57949825	1	None	FLJ16360
19	ZNF749	ENSG00000186230	ENST00000600697	processed_transcript	KNOWN	None	32783	None	None	57946788	57949824	1	None	FLJ16360
5	MIR1303	ENSG00000221552	ENST00000408625	miRNA	KNOWN	None	35301	None	None	154065336	154065421	1	MIRN1303	hsa-mir-1303
19	RN7SL789P	ENSG00000242436	ENST00000478944	misc_RNA	KNOWN	None	46805	None	None	33145920	33146214	-1	None	None
16	None	ENSG00000260072	ENST00000566929	lincRNA	KNOWN	None	None	None	None	24484119	24506498	-1	None	None
8	None	ENSG00000253543	ENST00000523708	processed_pseudogene	KNOWN	None	None	None	None	127594876	127595251	-1	None	None
19	ZNF266	ENSG00000174652	ENST00000588933	protein_coding	KNOWN	CCDS12213	13059	1650	549	9523274	9545980	-1	None	HZF1
19	ZNF266	ENSG00000174652	ENST00000588221	protein_coding	KNOWN	CCDS12213	13059	1650	549	9523274	9546202	-1	None	HZF1
19	ZNF266	ENSG00000174652	ENST00000592904	protein_coding	KNOWN	CCDS12213	13059	1650	549	9523277	9531421	-1	None	HZF1
19	ZNF266	ENSG00000174652	ENST00000590306	protein_coding	KNOWN	CCDS12213	13059	1650	549	9523280	9545869	-1	None	HZF1
19	ZNF266	ENSG00000174652	ENST00000592292	protein_coding	KNOWN	CCDS12213	13059	1650	549	9523304	9546180	-1	None	HZF1
19	ZNF266	ENSG00000174652	ENST00000591213	protein_coding	KNOWN	None	13059	217	71	9525384	9529757	-1	None	HZF1
19	ZNF266	ENSG00000174652	ENST00000588013	processed_transcript	KNOWN	None	13059	None	None	9544450	9546254	-1	None	HZF1
19	ZNF266	ENSG00000174652	ENST00000361451	protein_coding	KNOWN	CCDS12213	13059	1650	549	9523272	9546234	-1	None	HZF1
19	ZNF266	ENSG00000174652	ENST00000361151	protein_coding	KNOWN	CCDS12213	13059	1650	549	9523272	9546234	-1	None	HZF1
11	IL18	ENSG00000150782	ENST00000280357	protein_coding	KNOWN	CCDS44731	5986	582	193	112013974	112034840	-1	None	IGIF, IL1F4, IL-1g, IL-18
11	IL18	ENSG00000150782	ENST00000524595	protein_coding	NOVEL	CCDS58180	5986	570	189	112013976	112034797	-1	None	IGIF, IL1F4, IL-1g, IL-18
11	IL18	ENSG00000150782	ENST00000525547	retained_intron	KNOWN	None	5986	None	None	112013980	112021796	-1	None	IGIF, IL1F4, IL-1g, IL-18
11	IL18	ENSG00000150782	ENST00000528832	protein_coding	KNOWN	CCDS44731	5986	582	193	112014319	112034812	-1	None	IGIF, IL1F4, IL-1g, IL-18
11	IL18	ENSG00000150782	ENST00000533858	processed_transcript	PUTATIVE	None	5986	None	None	112014406	112034819	-1	None	IGIF, IL1F4, IL-1g, IL-18
11	IL18	ENSG00000150782	ENST00000534225	retained_intron	KNOWN	None	5986	None	None	112023722	112034816	-1	None	IGIF, IL1F4, IL-1g, IL-18
5	RN7SL439P	ENSG00000263478	ENST00000580877	misc_RNA	KNOWN	None	46455	None	None	154083077	154083344	-1	None	None
15	None	ENSG00000259455	ENST00000558241	protein_coding	NOVEL	None	None	2565	854	23405069	23414193	-1	None	None
16	None	ENSG00000259888	ENST00000566108	lincRNA	KNOWN	None	None	None	None	24621587	24652278	1	None	None
7	SRCRB4D	ENSG00000146700	ENST00000492979	processed_transcript	KNOWN	None	14461	None	None	76018651	76022807	-1	None	SRCRB-S4D, S4D-SRCRB, SSC4D
7	SRCRB4D	ENSG00000146700	ENST00000275560	protein_coding	KNOWN	CCDS5585	14461	1728	575	76018651	76039012	-1	None	SRCRB-S4D, S4D-SRCRB, SSC4D
8	RNU11-4P	ENSG00000212451	ENST00000391149	snRNA	KNOWN	None	46944	None	None	127683767	127683899	1	None	None
5	None	ENSG00000272197	ENST00000607433	misc_RNA	NOVEL	None	None	None	None	154097945	154098249	-1	None	None
8	None	ENSG00000253573	ENST00000520224	lincRNA	KNOWN	None	None	None	None	127779121	127802882	-1	None	None
5	None	ENSG00000241187	ENST00000463655	processed_pseudogene	KNOWN	None	None	None	None	154108791	154109254	1	None	None
5	DTWD2	ENSG00000169570	ENST00000304058	protein_coding	PUTATIVE	None	19334	699	232	118173017	118323915	-1	None	FLJ33977
5	DTWD2	ENSG00000169570	ENST00000510708	protein_coding	KNOWN	CCDS34216	19334	897	298	118175236	118324240	-1	None	FLJ33977
5	DTWD2	ENSG00000169570	ENST00000515439	protein_coding	NOVEL	None	19334	609	202	118175974	118324234	-1	None	FLJ33977
5	DTWD2	ENSG00000169570	ENST00000506980	nonsense_mediated_decay	KNOWN	None	19334	414	137	118175974	118324234	-1	None	FLJ33977
7	CCDC132	ENSG00000004766	ENST00000251739	protein_coding	KNOWN	CCDS5630	25956	984	327	92861653	92905740	1	None	KIAA1861, FLJ20097, DKFZp313I2429
7	CCDC132	ENSG00000004766	ENST00000305866	protein_coding	KNOWN	CCDS43617	25956	2895	964	92861653	92988338	1	None	KIAA1861, FLJ20097, DKFZp313I2429
7	CCDC132	ENSG00000004766	ENST00000438395	nonsense_mediated_decay	KNOWN	None	25956	114	37	92861679	92886762	1	None	KIAA1861, FLJ20097, DKFZp313I2429
7	CCDC132	ENSG00000004766	ENST00000441602	nonsense_mediated_decay	KNOWN	None	25956	120	39	92861679	92988336	1	None	KIAA1861, FLJ20097, DKFZp313I2429
7	CCDC132	ENSG00000004766	ENST00000458530	protein_coding	NOVEL	None	25956	568	188	92861682	92887699	1	None	KIAA1861, FLJ20097, DKFZp313I2429
7	CCDC132	ENSG00000004766	ENST00000485994	retained_intron	KNOWN	None	25956	None	None	92861688	92886834	1	None	KIAA1861, FLJ20097, DKFZp313I2429
7	CCDC132	ENSG00000004766	ENST00000436177	nonsense_mediated_decay	KNOWN	None	25956	120	39	92861689	92887543	1	None	KIAA1861, FLJ20097, DKFZp313I2429
7	CCDC132	ENSG00000004766	ENST00000477935	retained_intron	KNOWN	None	25956	None	None	92861741	92887077	1	None	KIAA1861, FLJ20097, DKFZp313I2429
7	CCDC132	ENSG00000004766	ENST00000476413	retained_intron	KNOWN	None	25956	None	None	92885742	92888884	1	None	KIAA1861, FLJ20097, DKFZp313I2429
7	CCDC132	ENSG00000004766	ENST00000471188	retained_intron	KNOWN	None	25956	None	None	92887421	92988333	1	None	KIAA1861, FLJ20097, DKFZp313I2429
7	CCDC132	ENSG00000004766	ENST00000495039	retained_intron	KNOWN	None	25956	None	None	92888727	92902800	1	None	KIAA1861, FLJ20097, DKFZp313I2429
7	CCDC132	ENSG00000004766	ENST00000458707	protein_coding	PUTATIVE	None	25956	1409	468	92888926	92950370	1	None	KIAA1861, FLJ20097, DKFZp313I2429
7	CCDC132	ENSG00000004766	ENST00000484954	retained_intron	KNOWN	None	25956	None	None	92900378	92923880	1	None	KIAA1861, FLJ20097, DKFZp313I2429
7	CCDC132	ENSG00000004766	ENST00000485140	retained_intron	KNOWN	None	25956	None	None	92905154	92921108	1	None	KIAA1861, FLJ20097, DKFZp313I2429
7	CCDC132	ENSG00000004766	ENST00000477572	processed_transcript	KNOWN	None	25956	None	None	92924727	92935218	1	None	KIAA1861, FLJ20097, DKFZp313I2429
7	CCDC132	ENSG00000004766	ENST00000467326	processed_transcript	KNOWN	None	25956	None	None	92950165	92970791	1	None	KIAA1861, FLJ20097, DKFZp313I2429
7	CCDC132	ENSG00000004766	ENST00000480943	retained_intron	KNOWN	None	25956	None	None	92952562	92978110	1	None	KIAA1861, FLJ20097, DKFZp313I2429
7	CCDC132	ENSG00000004766	ENST00000474412	processed_transcript	KNOWN	None	25956	None	None	92963211	92985390	1	None	KIAA1861, FLJ20097, DKFZp313I2429
7	CCDC132	ENSG00000004766	ENST00000443443	protein_coding	PUTATIVE	None	25956	466	154	92979210	92985498	1	None	KIAA1861, FLJ20097, DKFZp313I2429
7	CCDC132	ENSG00000004766	ENST00000535481	protein_coding	KNOWN	None	25956	2055	684	92861692	92988089	1	None	KIAA1861, FLJ20097, DKFZp313I2429
7	CCDC132	ENSG00000004766	ENST00000544910	protein_coding	KNOWN	CCDS59065	25956	2805	934	92861679	92988337	1	None	KIAA1861, FLJ20097, DKFZp313I2429
7	CCDC132	ENSG00000004766	ENST00000541136	protein_coding	KNOWN	None	25956	1782	593	92861679	92988336	1	None	KIAA1861, FLJ20097, DKFZp313I2429
7	CCDC132	ENSG00000004766	ENST00000317751	protein_coding	KNOWN	None	25956	1242	413	92861696	92949881	1	None	KIAA1861, FLJ20097, DKFZp313I2429
12	NOC4L	ENSG00000184967	ENST00000330579	protein_coding	KNOWN	CCDS9277	28461	1551	516	132628993	132636986	1	None	MGC3162, NET49, UTP19
12	NOC4L	ENSG00000184967	ENST00000541954	protein_coding	NOVEL	None	28461	811	269	132629309	132633449	1	None	MGC3162, NET49, UTP19
12	NOC4L	ENSG00000184967	ENST00000535343	processed_transcript	KNOWN	None	28461	None	None	132632202	132636162	1	None	MGC3162, NET49, UTP19
12	NOC4L	ENSG00000184967	ENST00000538784	protein_coding	PUTATIVE	None	28461	396	131	132635386	132637013	1	None	MGC3162, NET49, UTP19
17	NSRP1	ENSG00000126653	ENST00000540900	processed_transcript	KNOWN	None	25305	None	None	28442539	28512865	1	CCDC55	DKFZP434K1421, NSrp70
17	NSRP1	ENSG00000126653	ENST00000584423	protein_coding	PUTATIVE	None	25305	279	92	28443799	28455181	1	CCDC55	DKFZP434K1421, NSrp70
17	NSRP1	ENSG00000126653	ENST00000247026	protein_coding	KNOWN	CCDS11255	25305	1677	558	28443799	28513493	1	CCDC55	DKFZP434K1421, NSrp70
17	NSRP1	ENSG00000126653	ENST00000584154	nonsense_mediated_decay	KNOWN	None	25305	129	42	28443837	28506253	1	CCDC55	DKFZP434K1421, NSrp70
17	NSRP1	ENSG00000126653	ENST00000577289	processed_transcript	KNOWN	None	25305	None	None	28443837	28507952	1	CCDC55	DKFZP434K1421, NSrp70
17	NSRP1	ENSG00000126653	ENST00000394826	nonsense_mediated_decay	KNOWN	None	25305	153	50	28443838	28512762	1	CCDC55	DKFZP434K1421, NSrp70
17	NSRP1	ENSG00000126653	ENST00000479218	protein_coding	PUTATIVE	None	25305	126	41	28443845	28455254	1	CCDC55	DKFZP434K1421, NSrp70
17	NSRP1	ENSG00000126653	ENST00000475652	nonsense_mediated_decay	KNOWN	None	25305	126	41	28443847	28512211	1	CCDC55	DKFZP434K1421, NSrp70
17	NSRP1	ENSG00000126653	ENST00000584317	nonsense_mediated_decay	KNOWN	None	25305	225	74	28443848	28506138	1	CCDC55	DKFZP434K1421, NSrp70
17	NSRP1	ENSG00000126653	ENST00000583301	processed_transcript	KNOWN	None	25305	None	None	28443857	28477684	1	CCDC55	DKFZP434K1421, NSrp70
17	NSRP1	ENSG00000126653	ENST00000585881	protein_coding	PUTATIVE	None	25305	193	63	28444010	28506162	1	CCDC55	DKFZP434K1421, NSrp70
17	NSRP1	ENSG00000126653	ENST00000467446	retained_intron	KNOWN	None	25305	None	None	28444172	28499610	1	CCDC55	DKFZP434K1421, NSrp70
17	NSRP1	ENSG00000126653	ENST00000580103	protein_coding	PUTATIVE	None	25305	471	156	28444190	28511648	1	CCDC55	DKFZP434K1421, NSrp70
17	NSRP1	ENSG00000126653	ENST00000581048	processed_transcript	KNOWN	None	25305	None	None	28444984	28506210	1	CCDC55	DKFZP434K1421, NSrp70
17	NSRP1	ENSG00000126653	ENST00000588614	protein_coding	PUTATIVE	None	25305	313	103	28445056	28506282	1	CCDC55	DKFZP434K1421, NSrp70
17	NSRP1	ENSG00000126653	ENST00000589608	nonsense_mediated_decay	KNOWN	None	25305	205	67	28445098	28505182	1	CCDC55	DKFZP434K1421, NSrp70
6	HLA-P	ENSG00000261548	ENST00000568192	unprocessed_pseudogene	KNOWN	None	21196	None	None	29768192	29770202	1	C6orf101, HLA-90	dJ377H14.3
16	None	ENSG00000224310	ENST00000414816	lincRNA	KNOWN	None	None	None	None	24672743	24682383	-1	None	None
8	PCAT1	ENSG00000253438	ENST00000519319	lincRNA	KNOWN	None	43022	None	None	127859300	128025958	1	None	PCAT-1, PCA1
8	PCAT1	ENSG00000253438	ENST00000561978	lincRNA	KNOWN	None	43022	None	None	128025399	128033259	1	None	PCAT-1, PCA1
9	SYF2P2	ENSG00000233148	ENST00000417620	processed_pseudogene	KNOWN	None	38139	None	None	35010700	35011282	1	None	None
22	RPL35P8	ENSG00000226142	ENST00000433284	processed_pseudogene	KNOWN	None	36158	None	None	49609837	49610173	-1	None	None
7	RBAK	ENSG00000146587	ENST00000407184	protein_coding	PUTATIVE	None	17680	732	243	5023349	5112852	1	None	ZNF769
7	RBAK	ENSG00000146587	ENST00000353796	protein_coding	KNOWN	CCDS5337	17680	2145	714	5085452	5106888	1	None	ZNF769
7	RBAK	ENSG00000146587	ENST00000396904	protein_coding	PUTATIVE	CCDS56463	17680	342	113	5085542	5112852	1	None	ZNF769
7	RBAK	ENSG00000146587	ENST00000476992	retained_intron	KNOWN	None	17680	None	None	5096618	5103506	1	None	ZNF769
7	RBAK	ENSG00000146587	ENST00000498308	processed_transcript	KNOWN	None	17680	None	None	5111756	5112854	1	None	ZNF769
7	RBAK	ENSG00000146587	ENST00000396912	protein_coding	KNOWN	CCDS5337	17680	2145	714	5085553	5109119	1	None	ZNF769
8	PCAT2	ENSG00000253264	ENST00000523510	lincRNA	KNOWN	None	45089	None	None	128084939	128094466	-1	None	PCA2, TCONS_00015167
5	MIR378H	ENSG00000263361	ENST00000579966	miRNA	KNOWN	None	41744	None	None	154209018	154209100	1	None	hsa-mir-378h
19	None	ENSG00000268163	ENST00000596831	protein_coding	PUTATIVE	None	None	399	132	57949338	57988871	-1	None	None
19	None	ENSG00000268163	ENST00000601945	processed_transcript	KNOWN	None	None	None	None	57966747	57967607	-1	None	None
19	None	ENSG00000268163	ENST00000415705	processed_transcript	KNOWN	None	None	None	None	57966816	57988904	-1	None	None
22	None	ENSG00000234503	ENST00000417463	lincRNA	KNOWN	None	None	None	None	21532181	21534164	-1	None	None
15	RNU6-807P	ENSG00000252614	ENST00000516805	snRNA	KNOWN	None	47770	None	None	102188409	102188515	-1	None	None
HSCHR6_MHC_SSTO	ABCF1	ENSG00000225989	ENST00000423247	protein_coding	KNOWN	None	70	2538	845	30530573	30550627	1	ABC50	EST123147
HSCHR6_MHC_SSTO	ABCF1	ENSG00000225989	ENST00000420257	protein_coding	KNOWN	None	70	2424	807	30530590	30550627	1	ABC50	EST123147
HSCHR6_MHC_SSTO	ABCF1	ENSG00000225989	ENST00000441688	protein_coding	KNOWN	None	70	1019	338	30530630	30542909	1	ABC50	EST123147
HSCHR6_MHC_SSTO	ABCF1	ENSG00000225989	ENST00000473708	processed_transcript	KNOWN	None	70	None	None	30530639	30539648	1	ABC50	EST123147
HSCHR6_MHC_SSTO	ABCF1	ENSG00000225989	ENST00000456791	protein_coding	KNOWN	None	70	717	238	30530649	30550627	1	ABC50	EST123147
HSCHR6_MHC_SSTO	ABCF1	ENSG00000225989	ENST00000495194	processed_transcript	KNOWN	None	70	None	None	30541666	30556377	1	ABC50	EST123147
HSCHR6_MHC_SSTO	ABCF1	ENSG00000225989	ENST00000490343	retained_intron	KNOWN	None	70	None	None	30548624	30549939	1	ABC50	EST123147
22	MIR3667	ENSG00000264139	ENST00000581025	miRNA	KNOWN	None	38990	None	None	49937041	49937114	-1	None	hsa-mir-3667
15	None	ENSG00000238502	ENST00000458877	snoRNA	NOVEL	None	None	None	None	102223718	102223819	1	None	None
5	None	ENSG00000253261	ENST00000483777	processed_pseudogene	KNOWN	None	None	None	None	154373158	154374005	1	None	None
14	NAA30	ENSG00000139977	ENST00000555166	protein_coding	PUTATIVE	None	19844	315	104	57857262	57877048	1	C14orf35, NAT12	FLJ35355, MAK3, Mak3p
14	NAA30	ENSG00000139977	ENST00000556492	protein_coding	KNOWN	CCDS32088	19844	1089	362	57857271	57882635	1	C14orf35, NAT12	FLJ35355, MAK3, Mak3p
14	NAA30	ENSG00000139977	ENST00000554703	protein_coding	PUTATIVE	None	19844	150	49	57857306	57876649	1	C14orf35, NAT12	FLJ35355, MAK3, Mak3p
14	NAA30	ENSG00000139977	ENST00000298406	protein_coding	NOVEL	None	19844	524	173	57858019	57879464	1	C14orf35, NAT12	FLJ35355, MAK3, Mak3p
8	None	ENSG00000224722	ENST00000519282	processed_pseudogene	KNOWN	None	None	None	None	128098508	128099755	-1	None	None
10	LINC00864	ENSG00000228055	ENST00000429129	lincRNA	KNOWN	None	45163	None	None	89156780	89167457	-1	None	None
10	LINC00864	ENSG00000228055	ENST00000447936	lincRNA	KNOWN	None	45163	None	None	89156819	89184549	-1	None	None
22	None	ENSG00000212939	ENST00000391625	antisense	KNOWN	None	None	None	None	49942329	49950121	1	None	None
22	None	ENSG00000226885	ENST00000441743	processed_pseudogene	KNOWN	None	None	None	None	21622450	21623192	1	None	None
15	DNM1P47	ENSG00000259660	ENST00000561463	processed_transcript	KNOWN	None	35200	None	None	102291235	102313675	1	DNM1DN14@	DNM1DN14-3
15	DNM1P47	ENSG00000259660	ENST00000571780	transcribed_unprocessed_pseudogene	KNOWN	None	35200	None	None	102291756	102305164	1	DNM1DN14@	DNM1DN14-3
15	DNM1P47	ENSG00000259660	ENST00000560757	processed_transcript	KNOWN	None	35200	None	None	102313010	102334505	1	DNM1DN14@	DNM1DN14-3
20	HNF4A	ENSG00000101076	ENST00000316673	protein_coding	KNOWN	CCDS42876	5024	1359	452	42984340	43058311	1	TCF14, MODY, MODY1	NR2A1, HNF4
20	HNF4A	ENSG00000101076	ENST00000372920	nonsense_mediated_decay	KNOWN	None	5024	324	107	43029910	43060026	1	TCF14, MODY, MODY1	NR2A1, HNF4
20	HNF4A	ENSG00000101076	ENST00000443598	protein_coding	KNOWN	CCDS13331	5024	1254	417	43029924	43053279	1	TCF14, MODY, MODY1	NR2A1, HNF4
20	HNF4A	ENSG00000101076	ENST00000316099	protein_coding	KNOWN	CCDS13330	5024	1425	474	43029924	43060026	1	TCF14, MODY, MODY1	NR2A1, HNF4
20	HNF4A	ENSG00000101076	ENST00000457232	protein_coding	KNOWN	CCDS46604	5024	1329	442	42984441	43058311	1	TCF14, MODY, MODY1	NR2A1, HNF4
20	HNF4A	ENSG00000101076	ENST00000415691	protein_coding	KNOWN	CCDS46605	5024	1395	464	43029924	43060030	1	TCF14, MODY, MODY1	NR2A1, HNF4
8	None	ENSG00000254166	ENST00000521815	lincRNA	KNOWN	None	None	None	None	128197880	128215467	-1	None	None
16	None	ENSG00000261669	ENST00000568895	antisense	KNOWN	None	None	None	None	24814772	24831060	-1	None	None
22	None	ENSG00000213279	ENST00000393264	sense_intronic	KNOWN	None	None	None	None	49965912	49969074	-1	None	None
HSCHR6_MHC_QBL	PSMB9	ENSG00000243594	ENST00000399607	protein_coding	KNOWN	None	9546	591	196	32740623	32756073	1	LMP2	RING12, beta1i, PSMB6i
HSCHR6_MHC_QBL	PSMB9	ENSG00000243594	ENST00000434587	protein_coding	KNOWN	None	9546	395	130	32741323	32754925	1	LMP2	RING12, beta1i, PSMB6i
HSCHR6_MHC_QBL	PSMB9	ENSG00000243594	ENST00000473852	retained_intron	KNOWN	None	9546	None	None	32750635	32755388	1	LMP2	RING12, beta1i, PSMB6i
HSCHR6_MHC_QBL	PSMB9	ENSG00000243594	ENST00000383234	protein_coding	KNOWN	None	9546	660	219	32750648	32756073	1	LMP2	RING12, beta1i, PSMB6i
HSCHR6_MHC_QBL	PSMB9	ENSG00000243594	ENST00000399619	protein_coding	KNOWN	None	9546	537	178	32750715	32776073	1	LMP2	RING12, beta1i, PSMB6i
HSCHR6_MHC_QBL	PSMB9	ENSG00000243594	ENST00000461032	retained_intron	KNOWN	None	9546	None	None	32752584	32755210	1	LMP2	RING12, beta1i, PSMB6i
HSCHR6_MHC_QBL	PSMB9	ENSG00000243594	ENST00000552166	protein_coding	KNOWN	None	9546	465	154	32750648	32755058	1	LMP2	RING12, beta1i, PSMB6i
22	POM121L8P	ENSG00000229266	ENST00000417732	processed_pseudogene	KNOWN	None	35446	None	None	21637170	21638450	1	None	None
8	CCAT1	ENSG00000247844	ENST00000500112	lincRNA	KNOWN	None	45128	None	None	128220111	128231333	-1	None	None
5	None	ENSG00000221131	ENST00000408204	miRNA	NOVEL	None	None	None	None	154404274	154404360	-1	None	None
22	None	ENSG00000235111	ENST00000420902	sense_intronic	KNOWN	None	None	None	None	50006305	50009364	-1	None	None
16	None	ENSG00000256439	ENST00000537417	pseudogene	NOVEL	None	None	None	None	24930714	24932325	-1	None	None
19	VN1R1	ENSG00000178201	ENST00000321039	protein_coding	KNOWN	CCDS12951	13548	1062	353	57966542	57967854	-1	VNR19I1	V1RL1, ZVNR1, ZVNH1
22	BCRP6	ENSG00000169662	ENST00000510112	unprocessed_pseudogene	KNOWN	None	39074	None	None	21645049	21648875	-1	None	None
5	None	ENSG00000253646	ENST00000519111	processed_pseudogene	KNOWN	None	None	None	None	154490744	154491884	-1	None	None
8	CASC8	ENSG00000246228	ENST00000501396	antisense	KNOWN	None	45129	None	None	128302062	128433619	-1	None	LINC00860
8	CASC8	ENSG00000246228	ENST00000502082	antisense	KNOWN	None	45129	None	None	128302062	128494384	-1	None	LINC00860
8	CASC8	ENSG00000246228	ENST00000523825	antisense	KNOWN	None	45129	None	None	128302063	128433619	-1	None	LINC00860
8	CASC8	ENSG00000246228	ENST00000502056	antisense	KNOWN	None	45129	None	None	128455595	128494384	-1	None	LINC00860
6	HLA-DQB1	ENSG00000179344	ENST00000487676	retained_intron	KNOWN	None	4944	None	None	32627244	32634415	-1	HLA-DQB	IDDM1, CELIAC1
6	HLA-DQB1	ENSG00000179344	ENST00000399082	protein_coding	NOVEL	None	4944	405	134	32627244	32634429	-1	HLA-DQB	IDDM1, CELIAC1
6	HLA-DQB1	ENSG00000179344	ENST00000399079	protein_coding	NOVEL	None	4944	675	224	32627244	32634441	-1	HLA-DQB	IDDM1, CELIAC1
6	HLA-DQB1	ENSG00000179344	ENST00000374943	protein_coding	KNOWN	CCDS59006	4944	810	269	32627244	32634461	-1	HLA-DQB	IDDM1, CELIAC1
6	HLA-DQB1	ENSG00000179344	ENST00000434651	protein_coding	KNOWN	CCDS43451	4944	786	261	32627244	32634471	-1	HLA-DQB	IDDM1, CELIAC1
6	HLA-DQB1	ENSG00000179344	ENST00000399084	protein_coding	KNOWN	CCDS43451	4944	786	261	32627244	32636160	-1	HLA-DQB	IDDM1, CELIAC1
6	HLA-DQB1	ENSG00000179344	ENST00000460185	processed_transcript	KNOWN	None	4944	None	None	32627663	32628217	-1	HLA-DQB	IDDM1, CELIAC1
6	HLA-DQB1	ENSG00000179344	ENST00000484729	nonsense_mediated_decay	KNOWN	None	4944	411	136	32627884	32634415	-1	HLA-DQB	IDDM1, CELIAC1
22	PVALB	ENSG00000100362	ENST00000417718	protein_coding	KNOWN	CCDS13933	9704	333	110	37196728	37213079	-1	None	D22S749
22	PVALB	ENSG00000100362	ENST00000216200	protein_coding	KNOWN	CCDS13933	9704	333	110	37196728	37215523	-1	None	D22S749
22	PVALB	ENSG00000100362	ENST00000406910	protein_coding	NOVEL	None	9704	320	105	37196745	37213045	-1	None	D22S749
22	PVALB	ENSG00000100362	ENST00000404171	protein_coding	KNOWN	None	9704	237	78	37196811	37211435	-1	None	D22S749
22	PVALB	ENSG00000100362	ENST00000467935	retained_intron	KNOWN	None	9704	None	None	37209494	37213079	-1	None	D22S749
22	PVALB	ENSG00000100362	ENST00000443735	protein_coding	KNOWN	None	9704	304	100	37209690	37213558	-1	None	D22S749
11	PCSK7	ENSG00000160613	ENST00000320934	protein_coding	KNOWN	CCDS8382	8748	2358	785	117075053	117103241	-1	None	PC7, PC8, LPC, SPC7
11	PCSK7	ENSG00000160613	ENST00000534529	retained_intron	KNOWN	None	8748	None	None	117075790	117097592	-1	None	PC7, PC8, LPC, SPC7
11	PCSK7	ENSG00000160613	ENST00000529458	processed_transcript	KNOWN	None	8748	None	None	117076663	117078852	-1	None	PC7, PC8, LPC, SPC7
11	PCSK7	ENSG00000160613	ENST00000527037	retained_intron	KNOWN	None	8748	None	None	117076864	117090854	-1	None	PC7, PC8, LPC, SPC7
11	PCSK7	ENSG00000160613	ENST00000527861	retained_intron	KNOWN	None	8748	None	None	117077396	117079397	-1	None	PC7, PC8, LPC, SPC7
11	PCSK7	ENSG00000160613	ENST00000532810	retained_intron	KNOWN	None	8748	None	None	117077490	117080081	-1	None	PC7, PC8, LPC, SPC7
11	PCSK7	ENSG00000160613	ENST00000531573	retained_intron	KNOWN	None	8748	None	None	117078409	117079204	-1	None	PC7, PC8, LPC, SPC7
11	PCSK7	ENSG00000160613	ENST00000533135	processed_transcript	KNOWN	None	8748	None	None	117078491	117089881	-1	None	PC7, PC8, LPC, SPC7
11	PCSK7	ENSG00000160613	ENST00000528973	retained_intron	KNOWN	None	8748	None	None	117079389	117089180	-1	None	PC7, PC8, LPC, SPC7
11	PCSK7	ENSG00000160613	ENST00000528217	retained_intron	KNOWN	None	8748	None	None	117089840	117093779	-1	None	PC7, PC8, LPC, SPC7
11	PCSK7	ENSG00000160613	ENST00000525027	protein_coding	PUTATIVE	None	8748	916	304	117095416	117100956	-1	None	PC7, PC8, LPC, SPC7
11	PCSK7	ENSG00000160613	ENST00000524507	protein_coding	KNOWN	None	8748	339	112	117100222	117102584	-1	None	PC7, PC8, LPC, SPC7
11	PCSK7	ENSG00000160613	ENST00000532301	protein_coding	KNOWN	None	8748	278	91	117100283	117102790	-1	None	PC7, PC8, LPC, SPC7
11	PCSK7	ENSG00000160613	ENST00000530269	protein_coding	KNOWN	None	8748	275	90	117100286	117103241	-1	None	PC7, PC8, LPC, SPC7
11	PCSK7	ENSG00000160613	ENST00000540028	protein_coding	KNOWN	None	8748	714	237	117075790	117094884	-1	None	PC7, PC8, LPC, SPC7
5	ARHGEF37	ENSG00000183111	ENST00000505810	protein_coding	KNOWN	None	34430	310	102	148931510	148980794	1	None	FLJ41603
5	ARHGEF37	ENSG00000183111	ENST00000333677	protein_coding	KNOWN	CCDS43385	34430	2028	675	148961036	149014531	1	None	FLJ41603
5	ARHGEF37	ENSG00000183111	ENST00000509831	retained_intron	KNOWN	None	34430	None	None	149006460	149011599	1	None	FLJ41603
16	None	ENSG00000260714	ENST00000569988	processed_pseudogene	KNOWN	None	None	None	None	25027299	25032344	1	None	None
5	None	ENSG00000247796	ENST00000502171	antisense	KNOWN	None	None	None	None	52405672	52410953	1	None	None
5	None	ENSG00000247796	ENST00000512301	antisense	KNOWN	None	None	None	None	52405707	52410027	1	None	None
5	None	ENSG00000247796	ENST00000499459	antisense	KNOWN	None	None	None	None	52405729	52410956	1	None	None
11	AASDHPPT	ENSG00000149313	ENST00000533423	protein_coding	PUTATIVE	None	14235	480	159	105946228	105962186	1	None	LYS5, CGI-80, AASD-PPT
11	AASDHPPT	ENSG00000149313	ENST00000524411	protein_coding	PUTATIVE	None	14235	570	189	105946969	105965381	1	None	LYS5, CGI-80, AASD-PPT
11	AASDHPPT	ENSG00000149313	ENST00000278618	protein_coding	KNOWN	CCDS31664	14235	930	309	105948216	105969437	1	None	LYS5, CGI-80, AASD-PPT
11	AASDHPPT	ENSG00000149313	ENST00000525660	nonsense_mediated_decay	KNOWN	None	14235	417	138	105948385	105968025	1	None	LYS5, CGI-80, AASD-PPT
11	AASDHPPT	ENSG00000149313	ENST00000534152	retained_intron	KNOWN	None	14235	None	None	105962194	105969426	1	None	LYS5, CGI-80, AASD-PPT
X	None	ENSG00000264855	ENST00000577652	miRNA	NOVEL	None	None	None	None	70845603	70845705	-1	None	None
11	NLRX1	ENSG00000160703	ENST00000482180	processed_transcript	KNOWN	None	29890	None	None	119037277	119044414	1	None	NOD9, CLR11.3
11	NLRX1	ENSG00000160703	ENST00000454811	protein_coding	PUTATIVE	None	29890	454	150	119038897	119044412	1	None	NOD9, CLR11.3
11	NLRX1	ENSG00000160703	ENST00000449394	protein_coding	PUTATIVE	None	29890	413	136	119039046	119044371	1	None	NOD9, CLR11.3
11	NLRX1	ENSG00000160703	ENST00000422249	protein_coding	PUTATIVE	None	29890	381	126	119039117	119044339	1	None	NOD9, CLR11.3
11	NLRX1	ENSG00000160703	ENST00000474751	processed_transcript	KNOWN	None	29890	None	None	119039422	119044371	1	None	NOD9, CLR11.3
11	NLRX1	ENSG00000160703	ENST00000409991	protein_coding	PUTATIVE	CCDS8416	29890	2928	975	119039437	119054721	1	None	NOD9, CLR11.3
11	NLRX1	ENSG00000160703	ENST00000292199	protein_coding	KNOWN	CCDS8416	29890	2928	975	119039438	119054723	1	None	NOD9, CLR11.3
11	NLRX1	ENSG00000160703	ENST00000481860	retained_intron	KNOWN	None	29890	None	None	119039451	119052066	1	None	NOD9, CLR11.3
11	NLRX1	ENSG00000160703	ENST00000409109	protein_coding	PUTATIVE	CCDS8416	29890	2928	975	119039473	119054725	1	None	NOD9, CLR11.3
11	NLRX1	ENSG00000160703	ENST00000468765	processed_transcript	KNOWN	None	29890	None	None	119039856	119044401	1	None	NOD9, CLR11.3
11	NLRX1	ENSG00000160703	ENST00000525863	protein_coding	KNOWN	CCDS44752	29890	2766	921	119042065	119054725	1	None	NOD9, CLR11.3
11	NLRX1	ENSG00000160703	ENST00000524562	retained_intron	KNOWN	None	29890	None	None	119043725	119045749	1	None	NOD9, CLR11.3
11	NLRX1	ENSG00000160703	ENST00000469103	processed_transcript	KNOWN	None	29890	None	None	119048207	119054214	1	None	NOD9, CLR11.3
11	NLRX1	ENSG00000160703	ENST00000409265	protein_coding	KNOWN	CCDS44752	29890	2766	921	119039440	119054723	1	None	NOD9, CLR11.3
16	None	ENSG00000262587	ENST00000575694	unprocessed_pseudogene	KNOWN	None	None	None	None	25043202	25069430	1	None	None
15	GOLGA8S	ENSG00000261739	ENST00000604046	retained_intron	KNOWN	None	44409	None	None	23599895	23612378	1	None	None
15	GOLGA8S	ENSG00000261739	ENST00000562295	protein_coding	NOVEL	None	44409	1878	625	23599993	23610281	1	None	None
9	WDR5	ENSG00000196363	ENST00000358625	protein_coding	KNOWN	CCDS6981	12757	1005	334	137001210	137025090	1	None	SWD3
9	WDR5	ENSG00000196363	ENST00000425041	protein_coding	KNOWN	CCDS6981	12757	1005	334	137004914	137025093	1	None	SWD3
X	None	ENSG00000237265	ENST00000422194	lincRNA	KNOWN	None	None	None	None	70882845	70885603	-1	None	None
X	None	ENSG00000237265	ENST00000433410	retained_intron	KNOWN	None	None	None	None	70882848	70884121	-1	None	None
HSCHR6_MHC_SSTO	PSMB9	ENSG00000243958	ENST00000439630	protein_coding	KNOWN	None	9546	591	196	32901828	32917277	1	LMP2	RING12, beta1i, PSMB6i
HSCHR6_MHC_SSTO	PSMB9	ENSG00000243958	ENST00000438515	protein_coding	KNOWN	None	9546	395	130	32902528	32916129	1	LMP2	RING12, beta1i, PSMB6i
HSCHR6_MHC_SSTO	PSMB9	ENSG00000243958	ENST00000488916	retained_intron	KNOWN	None	9546	None	None	32911840	32916592	1	LMP2	RING12, beta1i, PSMB6i
HSCHR6_MHC_SSTO	PSMB9	ENSG00000243958	ENST00000434471	protein_coding	KNOWN	None	9546	660	219	32911853	32917277	1	LMP2	RING12, beta1i, PSMB6i
HSCHR6_MHC_SSTO	PSMB9	ENSG00000243958	ENST00000423563	protein_coding	KNOWN	None	9546	537	178	32911898	32937246	1	LMP2	RING12, beta1i, PSMB6i
HSCHR6_MHC_SSTO	PSMB9	ENSG00000243958	ENST00000478114	retained_intron	KNOWN	None	9546	None	None	32913789	32916414	1	LMP2	RING12, beta1i, PSMB6i
3	ITGA9	ENSG00000144668	ENST00000422441	protein_coding	PUTATIVE	None	6145	1899	632	37493606	37671010	1	None	RLC, ITGA4L, ALPHA-RLC
3	ITGA9	ENSG00000144668	ENST00000264741	protein_coding	KNOWN	CCDS2669	6145	3108	1035	37493610	37865005	1	None	RLC, ITGA4L, ALPHA-RLC
3	ITGA9	ENSG00000144668	ENST00000461533	retained_intron	KNOWN	None	6145	None	None	37725367	37774490	1	None	RLC, ITGA4L, ALPHA-RLC
3	ITGA9	ENSG00000144668	ENST00000411817	protein_coding	NOVEL	None	6145	208	68	37821506	37860881	1	None	RLC, ITGA4L, ALPHA-RLC
5	None	ENSG00000271477	ENST00000603941	processed_pseudogene	KNOWN	None	None	None	None	154776851	154777913	1	None	None
16	None	ENSG00000262155	ENST00000571219	lincRNA	KNOWN	None	None	None	None	25078258	25080264	1	None	None
7	CAV2	ENSG00000105971	ENST00000490906	processed_transcript	KNOWN	None	1528	None	None	115927434	115971830	1	None	CAV
7	CAV2	ENSG00000105971	ENST00000460222	processed_transcript	KNOWN	None	1528	None	None	115927918	115962877	1	None	CAV
7	CAV2	ENSG00000105971	ENST00000477018	processed_transcript	KNOWN	None	1528	None	None	115928127	116146154	1	None	CAV
7	CAV2	ENSG00000105971	ENST00000484156	processed_transcript	PUTATIVE	None	1528	None	None	115928127	116146157	1	None	CAV
7	CAV2	ENSG00000105971	ENST00000467035	processed_transcript	KNOWN	None	1528	None	None	115928127	116146159	1	None	CAV
7	CAV2	ENSG00000105971	ENST00000489776	processed_transcript	PUTATIVE	None	1528	None	None	115928127	116146159	1	None	CAV
7	CAV2	ENSG00000105971	ENST00000484871	processed_transcript	KNOWN	None	1528	None	None	115928127	116146162	1	None	CAV
7	CAV2	ENSG00000105971	ENST00000485561	processed_transcript	KNOWN	None	1528	None	None	115928127	116146162	1	None	CAV
7	CAV2	ENSG00000105971	ENST00000472470	processed_transcript	KNOWN	None	1528	None	None	115928127	116146162	1	None	CAV
7	CAV2	ENSG00000105971	ENST00000495046	processed_transcript	PUTATIVE	None	1528	None	None	115928127	116146162	1	None	CAV
7	CAV2	ENSG00000105971	ENST00000497046	processed_transcript	PUTATIVE	None	1528	None	None	115928129	116146151	1	None	CAV
7	CAV2	ENSG00000105971	ENST00000491643	processed_transcript	PUTATIVE	None	1528	None	None	115928144	116146159	1	None	CAV
7	CAV2	ENSG00000105971	ENST00000498493	processed_transcript	KNOWN	None	1528	None	None	115929931	116146147	1	None	CAV
7	CAV2	ENSG00000105971	ENST00000478226	processed_transcript	KNOWN	None	1528	None	None	115929932	116146083	1	None	CAV
7	CAV2	ENSG00000105971	ENST00000462876	processed_transcript	KNOWN	None	1528	None	None	115929932	116146162	1	None	CAV
7	CAV2	ENSG00000105971	ENST00000476156	processed_transcript	PUTATIVE	None	1528	None	None	115929932	116146163	1	None	CAV
7	CAV2	ENSG00000105971	ENST00000465451	processed_transcript	PUTATIVE	None	1528	None	None	115929967	115977295	1	None	CAV
7	CAV2	ENSG00000105971	ENST00000222693	protein_coding	KNOWN	CCDS5766	1528	489	162	116139444	116148595	1	None	CAV
7	CAV2	ENSG00000105971	ENST00000343213	protein_coding	KNOWN	CCDS5765	1528	339	112	116139794	116146608	1	None	CAV
7	CAV2	ENSG00000105971	ENST00000393480	protein_coding	PUTATIVE	None	1528	342	113	116139834	116141054	1	None	CAV
7	CAV2	ENSG00000105971	ENST00000495841	processed_transcript	KNOWN	None	1528	None	None	116140098	116146407	1	None	CAV
4	None	ENSG00000207643	ENST00000384911	miRNA	NOVEL	None	None	None	None	65017	65125	1	None	None
5	None	ENSG00000270442	ENST00000605123	processed_pseudogene	KNOWN	None	None	None	None	154870896	154873158	1	None	None
5	RNA5SP199	ENSG00000200275	ENST00000363405	rRNA	KNOWN	None	43099	None	None	155272447	155272538	1	RN5S199	None
8	NEFM	ENSG00000104722	ENST00000221166	protein_coding	KNOWN	CCDS6046	7734	2751	916	24770525	24776606	1	NEF3	NFM, NF-M
8	NEFM	ENSG00000104722	ENST00000523467	processed_transcript	PUTATIVE	None	7734	None	None	24771271	24773205	1	NEF3	NFM, NF-M
8	NEFM	ENSG00000104722	ENST00000518131	protein_coding	NOVEL	None	7734	2097	698	24771274	24776489	1	NEF3	NFM, NF-M
8	NEFM	ENSG00000104722	ENST00000521540	processed_transcript	KNOWN	None	7734	None	None	24771277	24776128	1	NEF3	NFM, NF-M
8	NEFM	ENSG00000104722	ENST00000433454	protein_coding	KNOWN	CCDS47831	7734	1623	540	24772455	24776607	1	NEF3	NFM, NF-M
8	NEFM	ENSG00000104722	ENST00000437366	protein_coding	KNOWN	None	7734	2634	877	24771277	24776603	1	NEF3	NFM, NF-M
4	None	ENSG00000255436	ENST00000380882	pseudogene	NOVEL	None	None	None	None	85621	87340	1	None	None
16	SCML2P2	ENSG00000271105	ENST00000604266	processed_pseudogene	KNOWN	None	44330	None	None	25080891	25081430	1	None	None
5	None	ENSG00000253370	ENST00000517993	unprocessed_pseudogene	KNOWN	None	None	None	None	155885408	155885517	-1	None	None
7	IRF5	ENSG00000128604	ENST00000489702	protein_coding	KNOWN	None	6120	455	150	128577666	128586624	1	None	None
7	IRF5	ENSG00000128604	ENST00000488569	retained_intron	KNOWN	None	6120	None	None	128577991	128586996	1	None	None
7	IRF5	ENSG00000128604	ENST00000357234	protein_coding	KNOWN	CCDS43645	6120	1545	514	128577994	128588886	1	None	None
7	IRF5	ENSG00000128604	ENST00000477535	protein_coding	NOVEL	CCDS56512	6120	1239	412	128577994	128588886	1	None	None
7	IRF5	ENSG00000128604	ENST00000479582	protein_coding	KNOWN	None	6120	425	140	128578016	128586594	1	None	None
7	IRF5	ENSG00000128604	ENST00000464557	protein_coding	KNOWN	None	6120	318	105	128578026	128586021	1	None	None
7	IRF5	ENSG00000128604	ENST00000461416	retained_intron	KNOWN	None	6120	None	None	128578035	128587799	1	None	None
7	IRF5	ENSG00000128604	ENST00000402030	protein_coding	KNOWN	CCDS5808	6120	1497	498	128578043	128590089	1	None	None
7	IRF5	ENSG00000128604	ENST00000473787	nonsense_mediated_decay	KNOWN	None	6120	315	104	128578045	128586610	1	None	None
7	IRF5	ENSG00000128604	ENST00000467002	protein_coding	KNOWN	None	6120	178	58	128580260	128582313	1	None	None
7	IRF5	ENSG00000128604	ENST00000473745	protein_coding	KNOWN	CCDS5808	6120	1497	498	128580726	128589442	1	None	None
7	IRF5	ENSG00000128604	ENST00000465603	nonsense_mediated_decay	KNOWN	None	6120	444	147	128580892	128589442	1	None	None
7	IRF5	ENSG00000128604	ENST00000249375	protein_coding	KNOWN	CCDS5808	6120	1497	498	128578271	128590084	1	None	None
X	None	ENSG00000230934	ENST00000452056	processed_pseudogene	KNOWN	None	None	None	None	70911782	70912029	1	None	None
16	None	ENSG00000263326	ENST00000576103	unprocessed_pseudogene	KNOWN	None	None	None	None	25082811	25084048	-1	None	None
19	None	ENSG00000267304	ENST00000586675	antisense	KNOWN	None	None	None	None	3672580	3674293	1	None	None
X	CXorf49	ENSG00000215115	ENST00000452468	lincRNA	KNOWN	None	30891	None	None	70934221	70936237	-1	None	None
X	CXorf49	ENSG00000215115	ENST00000535490	lincRNA	KNOWN	None	30891	None	None	70934224	70938135	-1	None	None
5	None	ENSG00000254163	ENST00000520705	antisense	KNOWN	None	None	None	None	156131069	156166823	-1	None	None
19	None	ENSG00000267205	ENST00000586503	antisense	KNOWN	None	None	None	None	3753838	3756515	1	None	None
2	MAP3K2	ENSG00000169967	ENST00000409947	protein_coding	KNOWN	CCDS46404	6854	1860	619	128056306	128146041	-1	MEKK2	MEKK2B
2	MAP3K2	ENSG00000169967	ENST00000344908	protein_coding	KNOWN	CCDS46404	6854	1860	619	128064980	128100805	-1	MEKK2	MEKK2B
2	MAP3K2	ENSG00000169967	ENST00000409179	protein_coding	KNOWN	None	6854	143	46	128095335	128145508	-1	MEKK2	MEKK2B
16	None	ENSG00000260448	ENST00000566507	lincRNA	KNOWN	None	None	None	None	25096913	25114879	-1	None	None
16	None	ENSG00000260448	ENST00000563962	lincRNA	KNOWN	None	None	None	None	25097654	25122800	-1	None	None
16	None	ENSG00000260448	ENST00000563176	lincRNA	KNOWN	None	None	None	None	25111885	25122735	-1	None	None
16	None	ENSG00000260448	ENST00000569920	lincRNA	KNOWN	None	None	None	None	25114649	25122876	-1	None	None
19	None	ENSG00000267138	ENST00000591962	sense_intronic	KNOWN	None	None	None	None	3754618	3756657	-1	None	None
19	None	ENSG00000267148	ENST00000588332	unprocessed_pseudogene	KNOWN	None	None	None	None	3775994	3776180	-1	None	None
19	FTLP5	ENSG00000266989	ENST00000586853	processed_pseudogene	KNOWN	None	37953	None	None	3870989	3872105	1	None	None
19	PSG8	ENSG00000124467	ENST00000404209	protein_coding	KNOWN	CCDS46091	9525	1260	419	43256838	43269830	-1	None	None
19	PSG8	ENSG00000124467	ENST00000466163	retained_intron	KNOWN	None	9525	None	None	43256843	43260276	-1	None	None
19	PSG8	ENSG00000124467	ENST00000600709	processed_transcript	KNOWN	None	9525	None	None	43256844	43263047	-1	None	None
19	PSG8	ENSG00000124467	ENST00000406636	protein_coding	KNOWN	CCDS46090	9525	894	297	43256877	43269814	-1	None	None
19	PSG8	ENSG00000124467	ENST00000401467	protein_coding	PUTATIVE	None	9525	981	326	43256879	43359843	-1	None	None
19	PSG8	ENSG00000124467	ENST00000306511	protein_coding	KNOWN	CCDS33037	9525	1281	426	43258385	43269831	-1	None	None
19	PSG8	ENSG00000124467	ENST00000469260	processed_transcript	KNOWN	None	9525	None	None	43259140	43269819	-1	None	None
19	PSG8	ENSG00000124467	ENST00000478387	nonsense_mediated_decay	KNOWN	None	9525	123	40	43259144	43269821	-1	None	None
19	PSG8	ENSG00000124467	ENST00000593692	retained_intron	KNOWN	None	9525	None	None	43267844	43269815	-1	None	None
5	RNU6-556P	ENSG00000199468	ENST00000362598	snRNA	KNOWN	None	47519	None	None	156241141	156241245	1	None	None
10	FRMPD2	ENSG00000170324	ENST00000474573	protein_coding	PUTATIVE	None	28572	786	261	49364601	49384255	-1	PDZD5C, PDZK5C	MGC35285
10	FRMPD2	ENSG00000170324	ENST00000374201	protein_coding	KNOWN	CCDS31195	28572	3930	1309	49364601	49482913	-1	PDZD5C, PDZK5C	MGC35285
10	FRMPD2	ENSG00000170324	ENST00000305531	protein_coding	KNOWN	None	28572	3855	1284	49364602	49459800	-1	PDZD5C, PDZK5C	MGC35285
10	FRMPD2	ENSG00000170324	ENST00000491130	retained_intron	KNOWN	None	28572	None	None	49364810	49383186	-1	PDZD5C, PDZK5C	MGC35285
10	FRMPD2	ENSG00000170324	ENST00000463706	processed_transcript	KNOWN	None	28572	None	None	49366936	49386933	-1	PDZD5C, PDZK5C	MGC35285
10	FRMPD2	ENSG00000170324	ENST00000477710	retained_intron	KNOWN	None	28572	None	None	49382938	49384388	-1	PDZD5C, PDZK5C	MGC35285
10	FRMPD2	ENSG00000170324	ENST00000486151	retained_intron	KNOWN	None	28572	None	None	49385336	49482717	-1	PDZD5C, PDZK5C	MGC35285
10	FRMPD2	ENSG00000170324	ENST00000494505	processed_transcript	PUTATIVE	None	28572	None	None	49395237	49409491	-1	PDZD5C, PDZK5C	MGC35285
10	FRMPD2	ENSG00000170324	ENST00000505547	retained_intron	KNOWN	None	28572	None	None	49407711	49409697	-1	PDZD5C, PDZK5C	MGC35285
10	FRMPD2	ENSG00000170324	ENST00000468556	retained_intron	KNOWN	None	28572	None	None	49450089	49459696	-1	PDZD5C, PDZK5C	MGC35285
10	FRMPD2	ENSG00000170324	ENST00000492045	retained_intron	KNOWN	None	28572	None	None	49456586	49459654	-1	PDZD5C, PDZK5C	MGC35285
10	FRMPD2	ENSG00000170324	ENST00000407470	protein_coding	KNOWN	None	28572	3834	1277	49364602	49482941	-1	PDZD5C, PDZK5C	MGC35285
5	PPP1R2P3	ENSG00000231989	ENST00000522232	processed_pseudogene	KNOWN	None	16318	None	None	156277574	156278185	1	None	MGC87149
5	PPP1R2P3	ENSG00000231989	ENST00000420481	processed_pseudogene	KNOWN	None	16318	None	None	156277549	156279539	1	None	MGC87149
11	None	ENSG00000231487	ENST00000415865	lincRNA	KNOWN	None	None	None	None	1683814	1684573	-1	None	None
12	ADIPOR2	ENSG00000006831	ENST00000537545	processed_transcript	KNOWN	None	24041	None	None	1797740	1882090	1	None	PAQR2, ACDCR2
12	ADIPOR2	ENSG00000006831	ENST00000357103	protein_coding	KNOWN	CCDS8511	24041	1161	386	1800193	1897844	1	None	PAQR2, ACDCR2
12	ADIPOR2	ENSG00000006831	ENST00000540974	processed_transcript	PUTATIVE	None	24041	None	None	1800329	1840222	1	None	PAQR2, ACDCR2
12	ADIPOR2	ENSG00000006831	ENST00000543456	processed_transcript	PUTATIVE	None	24041	None	None	1869895	1887081	1	None	PAQR2, ACDCR2
12	ADIPOR2	ENSG00000006831	ENST00000535774	processed_transcript	PUTATIVE	None	24041	None	None	1881880	1889684	1	None	PAQR2, ACDCR2
12	ADIPOR2	ENSG00000006831	ENST00000544470	processed_transcript	PUTATIVE	None	24041	None	None	1882089	1887773	1	None	PAQR2, ACDCR2
12	ADIPOR2	ENSG00000006831	ENST00000537190	processed_transcript	KNOWN	None	24041	None	None	1889314	1890133	1	None	PAQR2, ACDCR2
19	RN7SL202P	ENSG00000266627	ENST00000584410	misc_RNA	KNOWN	None	46218	None	None	3920247	3920504	-1	None	None
HSCHR6_MHC_MCF	SUMO2P1	ENSG00000230888	ENST00000443604	processed_pseudogene	KNOWN	None	13985	None	None	29603636	29603919	-1	SMT3H2P, SUMO2P	SMT3Bp, dJ271M21
HSCHR6_MHC_MCF	SUMO2P1	ENSG00000230888	ENST00000546675	pseudogene	KNOWN	None	13985	None	None	29603636	29603919	-1	SMT3H2P, SUMO2P	SMT3Bp, dJ271M21
6	ZNF318	ENSG00000171467	ENST00000607252	processed_transcript	KNOWN	None	13578	None	None	43274872	43299594	-1	None	HRIHFB2436, ZFP318
6	ZNF318	ENSG00000171467	ENST00000605935	nonsense_mediated_decay	KNOWN	None	13578	3354	1117	43278871	43337216	-1	None	HRIHFB2436, ZFP318
6	ZNF318	ENSG00000171467	ENST00000606599	protein_coding	PUTATIVE	None	13578	239	78	43299227	43310574	-1	None	HRIHFB2436, ZFP318
6	ZNF318	ENSG00000171467	ENST00000361428	protein_coding	KNOWN	CCDS4895	13578	6840	2279	43303808	43337181	-1	None	HRIHFB2436, ZFP318
6	ZNF318	ENSG00000171467	ENST00000318149	protein_coding	KNOWN	None	13578	3354	1117	43299513	43337181	-1	None	HRIHFB2436, ZFP318
19	MIR637	ENSG00000207733	ENST00000385000	miRNA	KNOWN	None	32893	None	None	3961412	3961510	-1	MIRN637	hsa-mir-637
7	None	ENSG00000237813	ENST00000446355	antisense	KNOWN	None	None	None	None	115878314	116139519	-1	None	None
7	None	ENSG00000237813	ENST00000439070	antisense	KNOWN	None	None	None	None	116056171	116105330	-1	None	None
19	SNORD37	ENSG00000206775	ENST00000384048	snoRNA	KNOWN	None	10166	None	None	3982505	3982570	-1	RNU37	U37
1	STPG1	ENSG00000001460	ENST00000374409	protein_coding	KNOWN	CCDS55581	28070	1005	334	24683489	24741587	-1	C1orf201	FLJ33340, MAPO2
1	STPG1	ENSG00000001460	ENST00000003583	protein_coding	KNOWN	CCDS253	28070	864	287	24683495	24740215	-1	C1orf201	FLJ33340, MAPO2
1	STPG1	ENSG00000001460	ENST00000468303	processed_transcript	KNOWN	None	28070	None	None	24683495	24743424	-1	C1orf201	FLJ33340, MAPO2
1	STPG1	ENSG00000001460	ENST00000497384	processed_transcript	KNOWN	None	28070	None	None	24695194	24727821	-1	C1orf201	FLJ33340, MAPO2
1	STPG1	ENSG00000001460	ENST00000438866	protein_coding	KNOWN	None	28070	507	168	24695533	24706313	-1	C1orf201	FLJ33340, MAPO2
1	STPG1	ENSG00000001460	ENST00000435187	protein_coding	KNOWN	None	28070	434	143	24705763	24718169	-1	C1orf201	FLJ33340, MAPO2
1	STPG1	ENSG00000001460	ENST00000483261	processed_transcript	KNOWN	None	28070	None	None	24717693	24718561	-1	C1orf201	FLJ33340, MAPO2
1	STPG1	ENSG00000001460	ENST00000498488	processed_transcript	KNOWN	None	28070	None	None	24717748	24742643	-1	C1orf201	FLJ33340, MAPO2
1	STPG1	ENSG00000001460	ENST00000483528	processed_transcript	KNOWN	None	28070	None	None	24718052	24738517	-1	C1orf201	FLJ33340, MAPO2
1	STPG1	ENSG00000001460	ENST00000475760	processed_transcript	KNOWN	None	28070	None	None	24727569	24737269	-1	C1orf201	FLJ33340, MAPO2
1	STPG1	ENSG00000001460	ENST00000492753	processed_transcript	KNOWN	None	28070	None	None	24741401	24743085	-1	C1orf201	FLJ33340, MAPO2
1	STPG1	ENSG00000001460	ENST00000337248	protein_coding	KNOWN	CCDS55581	28070	1005	334	24683527	24740230	-1	C1orf201	FLJ33340, MAPO2
1	STPG1	ENSG00000001460	ENST00000440416	protein_coding	KNOWN	CCDS253	28070	864	287	24683490	24727949	-1	C1orf201	FLJ33340, MAPO2
5	APOOP1	ENSG00000270560	ENST00000604695	processed_pseudogene	KNOWN	None	48739	None	None	156351130	156351721	1	None	None
19	None	ENSG00000268670	ENST00000600056	sense_intronic	KNOWN	None	None	None	None	4061613	4062747	-1	None	None
HSCHR6_MHC_MANN	DDR1	ENSG00000234078	ENST00000490403	processed_transcript	KNOWN	None	2730	None	None	30893440	30904656	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_MANN	DDR1	ENSG00000234078	ENST00000430933	protein_coding	KNOWN	None	2730	2742	913	30893493	30912617	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_MANN	DDR1	ENSG00000234078	ENST00000465879	processed_transcript	KNOWN	None	2730	None	None	30893760	30897172	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_MANN	DDR1	ENSG00000234078	ENST00000448651	protein_coding	KNOWN	None	2730	500	165	30895411	30903520	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_MANN	DDR1	ENSG00000234078	ENST00000453391	protein_coding	KNOWN	None	2730	443	146	30895556	30903463	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_MANN	DDR1	ENSG00000234078	ENST00000429699	protein_coding	KNOWN	None	2730	2742	913	30896244	30912617	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_MANN	DDR1	ENSG00000234078	ENST00000421229	protein_coding	KNOWN	None	2730	2631	876	30896528	30912617	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_MANN	DDR1	ENSG00000234078	ENST00000451632	protein_coding	KNOWN	None	2730	417	138	30896818	30901895	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_MANN	DDR1	ENSG00000234078	ENST00000448263	protein_coding	KNOWN	None	2730	190	62	30896923	30901477	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_MANN	DDR1	ENSG00000234078	ENST00000487780	processed_transcript	KNOWN	None	2730	None	None	30897021	30912617	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_MANN	DDR1	ENSG00000234078	ENST00000454774	protein_coding	KNOWN	None	2730	2631	876	30897031	30912617	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_MANN	DDR1	ENSG00000234078	ENST00000434134	protein_coding	KNOWN	None	2730	628	208	30897691	30903907	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_MANN	DDR1	ENSG00000234078	ENST00000419412	protein_coding	KNOWN	None	2730	2631	876	30900854	30912617	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_MANN	DDR1	ENSG00000234078	ENST00000460152	retained_intron	KNOWN	None	2730	None	None	30903607	30904639	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_MANN	DDR1	ENSG00000234078	ENST00000442268	protein_coding	KNOWN	None	2730	1479	492	30903892	30910600	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_MANN	DDR1	ENSG00000234078	ENST00000492995	processed_transcript	KNOWN	None	2730	None	None	30905816	30909507	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_MANN	DDR1	ENSG00000234078	ENST00000446697	protein_coding	KNOWN	None	2730	1136	377	30909082	30912617	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_MANN	DDR1	ENSG00000234078	ENST00000468055	retained_intron	KNOWN	None	2730	None	None	30909536	30911865	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_MANN	DDR1	ENSG00000234078	ENST00000552068	protein_coding	KNOWN	None	2730	2760	919	30896549	30912613	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_MANN	DDR1	ENSG00000234078	ENST00000550384	protein_coding	KNOWN	None	2730	732	243	30896549	30912613	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_MANN	DDR1	ENSG00000234078	ENST00000548693	protein_coding	KNOWN	None	2730	513	170	30903892	30912615	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
16	None	ENSG00000262700	ENST00000572236	processed_pseudogene	KNOWN	None	None	None	None	25104708	25106576	1	None	None
11	FAM99A	ENSG00000205866	ENST00000382167	processed_transcript	KNOWN	None	32368	None	None	1686827	1689086	1	None	FLJ42833
3	TCTA	ENSG00000145022	ENST00000273590	protein_coding	KNOWN	CCDS2796	11692	312	103	49449639	49453908	1	None	None
3	TCTA	ENSG00000145022	ENST00000488385	processed_transcript	KNOWN	None	11692	None	None	49449645	49450859	1	None	None
3	TCTA	ENSG00000145022	ENST00000487432	processed_transcript	KNOWN	None	11692	None	None	49449798	49452698	1	None	None
3	TCTA	ENSG00000145022	ENST00000482193	processed_transcript	KNOWN	None	11692	None	None	49449824	49450705	1	None	None
3	TCTA	ENSG00000145022	ENST00000493381	processed_transcript	KNOWN	None	11692	None	None	49449833	49452875	1	None	None
3	TCTA	ENSG00000145022	ENST00000497786	processed_transcript	KNOWN	None	11692	None	None	49449850	49450566	1	None	None
5	None	ENSG00000254246	ENST00000517708	antisense	KNOWN	None	None	None	None	156531799	156541911	1	None	None
19	CD33	ENSG00000105383	ENST00000436584	protein_coding	PUTATIVE	None	1659	639	212	51728320	51739827	1	None	SIGLEC3, SIGLEC-3, p67, FLJ00391
19	CD33	ENSG00000105383	ENST00000421133	protein_coding	KNOWN	CCDS46157	1659	714	237	51728320	51743197	1	None	SIGLEC3, SIGLEC-3, p67, FLJ00391
19	CD33	ENSG00000105383	ENST00000391796	protein_coding	KNOWN	CCDS54299	1659	933	310	51728354	51739221	1	None	SIGLEC3, SIGLEC-3, p67, FLJ00391
19	CD33	ENSG00000105383	ENST00000262262	protein_coding	KNOWN	CCDS33084	1659	1095	364	51728354	51743271	1	None	SIGLEC3, SIGLEC-3, p67, FLJ00391
19	CD33	ENSG00000105383	ENST00000601785	retained_intron	KNOWN	None	1659	None	None	51728387	51743243	1	None	SIGLEC3, SIGLEC-3, p67, FLJ00391
19	CD33	ENSG00000105383	ENST00000598473	retained_intron	KNOWN	None	1659	None	None	51729222	51747115	1	None	SIGLEC3, SIGLEC-3, p67, FLJ00391
19	CD33	ENSG00000105383	ENST00000600557	processed_transcript	KNOWN	None	1659	None	None	51742522	51743270	1	None	SIGLEC3, SIGLEC-3, p67, FLJ00391
HSCHR6_MHC_MCF	ZDHHC20P1	ENSG00000236926	ENST00000447218	processed_pseudogene	KNOWN	None	33456	None	None	29675658	29676080	-1	None	OTTHUMG00000086707
16	None	ENSG00000260034	ENST00000562280	antisense	KNOWN	None	None	None	None	25151898	25160353	-1	None	None
16	None	ENSG00000260034	ENST00000565214	antisense	KNOWN	None	None	None	None	25151904	25157569	-1	None	None
HSCHR6_MHC_MCF	HCG4P11	ENSG00000249663	ENST00000423188	unprocessed_pseudogene	KNOWN	None	22930	None	None	29687895	29688885	-1	None	HCGIV-11, HCGIV.10
13	None	ENSG00000269099	ENST00000599825	protein_coding	NOVEL	None	None	135	44	25591541	25591675	1	None	None
16	GPT2	ENSG00000166123	ENST00000340124	protein_coding	KNOWN	CCDS10725	18062	1572	523	46918290	46965209	1	None	ALT2
16	GPT2	ENSG00000166123	ENST00000562132	protein_coding	PUTATIVE	None	18062	533	176	46918607	46943786	1	None	ALT2
16	GPT2	ENSG00000166123	ENST00000440783	protein_coding	KNOWN	CCDS45478	18062	1272	423	46918747	46965200	1	None	ALT2
16	GPT2	ENSG00000166123	ENST00000562801	retained_intron	KNOWN	None	18062	None	None	46949210	46962919	1	None	ALT2
16	GPT2	ENSG00000166123	ENST00000569193	retained_intron	KNOWN	None	18062	None	None	46957745	46965198	1	None	ALT2
19	ZNF772	ENSG00000197128	ENST00000600175	protein_coding	PUTATIVE	None	33106	117	38	57978031	57988919	-1	None	DKFZp686I1569
19	ZNF772	ENSG00000197128	ENST00000601768	protein_coding	PUTATIVE	None	33106	78	25	57978200	57988872	-1	None	DKFZp686I1569
19	ZNF772	ENSG00000197128	ENST00000343280	protein_coding	KNOWN	CCDS33133	33106	1470	489	57980954	57988938	-1	None	DKFZp686I1569
19	ZNF772	ENSG00000197128	ENST00000427512	protein_coding	KNOWN	None	33106	1134	377	57980954	57988938	-1	None	DKFZp686I1569
19	ZNF772	ENSG00000197128	ENST00000356584	protein_coding	KNOWN	CCDS46210	33106	1347	448	57984413	57988900	-1	None	DKFZp686I1569
19	ZNF772	ENSG00000197128	ENST00000425074	protein_coding	PUTATIVE	None	33106	129	42	57984518	57988934	-1	None	DKFZp686I1569
19	ZNF772	ENSG00000197128	ENST00000450712	nonsense_mediated_decay	KNOWN	None	33106	219	72	57987105	57988888	-1	None	DKFZp686I1569
HSCHR6_MHC_MCF	HLA-F-AS1	ENSG00000228491	ENST00000420534	unprocessed_pseudogene	KNOWN	None	26645	None	None	29706644	29713883	-1	None	None
22	NCF4	ENSG00000100365	ENST00000447071	protein_coding	KNOWN	None	7662	498	165	37257030	37271874	1	None	p40phox, SH3PXD4
22	NCF4	ENSG00000100365	ENST00000248899	protein_coding	KNOWN	CCDS13934	7662	1020	339	37257030	37274057	1	None	p40phox, SH3PXD4
22	NCF4	ENSG00000100365	ENST00000397147	protein_coding	KNOWN	CCDS13935	7662	1047	348	37257030	37274057	1	None	p40phox, SH3PXD4
22	NCF4	ENSG00000100365	ENST00000415063	protein_coding	NOVEL	None	7662	637	211	37268179	37273806	1	None	p40phox, SH3PXD4
17	APPBP2	ENSG00000062725	ENST00000083182	protein_coding	KNOWN	CCDS32699	622	1758	585	58520520	58603580	-1	None	KIAA0228, Hs.84084, PAT1
17	APPBP2	ENSG00000062725	ENST00000589341	nonsense_mediated_decay	KNOWN	None	622	186	61	58525107	58603493	-1	None	KIAA0228, Hs.84084, PAT1
17	APPBP2	ENSG00000062725	ENST00000592995	processed_transcript	KNOWN	None	622	None	None	58536868	58542522	-1	None	KIAA0228, Hs.84084, PAT1
17	APPBP2	ENSG00000062725	ENST00000590244	processed_transcript	KNOWN	None	622	None	None	58543712	58603459	-1	None	KIAA0228, Hs.84084, PAT1
17	APPBP2	ENSG00000062725	ENST00000588668	nonsense_mediated_decay	KNOWN	None	622	288	95	58556523	58603299	-1	None	KIAA0228, Hs.84084, PAT1
17	APPBP2	ENSG00000062725	ENST00000585368	protein_coding	KNOWN	None	622	371	122	58571835	58603484	-1	None	KIAA0228, Hs.84084, PAT1
8	PSD3	ENSG00000156011	ENST00000327040	protein_coding	KNOWN	CCDS43720	19093	3144	1047	18384811	18871196	-1	None	KIAA0942, HCA67, EFA6R, DKFZp761K1423
8	PSD3	ENSG00000156011	ENST00000286485	protein_coding	KNOWN	CCDS34854	19093	1542	513	18388220	18666386	-1	None	KIAA0942, HCA67, EFA6R, DKFZp761K1423
8	PSD3	ENSG00000156011	ENST00000428502	protein_coding	NOVEL	None	19093	1131	376	18388221	18541609	-1	None	KIAA0942, HCA67, EFA6R, DKFZp761K1423
8	PSD3	ENSG00000156011	ENST00000523619	protein_coding	PUTATIVE	None	19093	2949	982	18388221	18744544	-1	None	KIAA0942, HCA67, EFA6R, DKFZp761K1423
8	PSD3	ENSG00000156011	ENST00000518315	nonsense_mediated_decay	KNOWN	None	19093	504	167	18393147	18666342	-1	None	KIAA0942, HCA67, EFA6R, DKFZp761K1423
8	PSD3	ENSG00000156011	ENST00000521878	processed_transcript	KNOWN	None	19093	None	None	18393230	18541631	-1	None	KIAA0942, HCA67, EFA6R, DKFZp761K1423
8	PSD3	ENSG00000156011	ENST00000520858	protein_coding	PUTATIVE	None	19093	496	164	18620395	18662339	-1	None	KIAA0942, HCA67, EFA6R, DKFZp761K1423
8	PSD3	ENSG00000156011	ENST00000519851	protein_coding	PUTATIVE	None	19093	495	164	18622959	18711884	-1	None	KIAA0942, HCA67, EFA6R, DKFZp761K1423
8	PSD3	ENSG00000156011	ENST00000519653	processed_transcript	KNOWN	None	19093	None	None	18644286	18666373	-1	None	KIAA0942, HCA67, EFA6R, DKFZp761K1423
8	PSD3	ENSG00000156011	ENST00000518963	retained_intron	KNOWN	None	19093	None	None	18656658	18662377	-1	None	KIAA0942, HCA67, EFA6R, DKFZp761K1423
8	PSD3	ENSG00000156011	ENST00000517971	nonsense_mediated_decay	KNOWN	None	19093	342	113	18656808	18666377	-1	None	KIAA0942, HCA67, EFA6R, DKFZp761K1423
8	PSD3	ENSG00000156011	ENST00000518303	retained_intron	KNOWN	None	19093	None	None	18658507	18711846	-1	None	KIAA0942, HCA67, EFA6R, DKFZp761K1423
8	PSD3	ENSG00000156011	ENST00000521027	protein_coding	PUTATIVE	None	19093	358	118	18659786	18662384	-1	None	KIAA0942, HCA67, EFA6R, DKFZp761K1423
8	PSD3	ENSG00000156011	ENST00000519633	retained_intron	KNOWN	None	19093	None	None	18661870	18666405	-1	None	KIAA0942, HCA67, EFA6R, DKFZp761K1423
8	PSD3	ENSG00000156011	ENST00000520789	processed_transcript	KNOWN	None	19093	None	None	18782043	18797962	-1	None	KIAA0942, HCA67, EFA6R, DKFZp761K1423
8	PSD3	ENSG00000156011	ENST00000521475	protein_coding	PUTATIVE	None	19093	426	141	18793551	18942240	-1	None	KIAA0942, HCA67, EFA6R, DKFZp761K1423
8	PSD3	ENSG00000156011	ENST00000521841	processed_transcript	KNOWN	None	19093	None	None	18793563	18871970	-1	None	KIAA0942, HCA67, EFA6R, DKFZp761K1423
8	PSD3	ENSG00000156011	ENST00000440756	protein_coding	KNOWN	None	19093	3150	1049	18384813	18871196	-1	None	KIAA0942, HCA67, EFA6R, DKFZp761K1423
3	PCBP4	ENSG00000090097	ENST00000355852	protein_coding	KNOWN	CCDS2839	8652	1212	403	51991470	52001473	-1	None	MCG10, LIP4
3	PCBP4	ENSG00000090097	ENST00000492809	retained_intron	KNOWN	None	8652	None	None	51991474	51995652	-1	None	MCG10, LIP4
3	PCBP4	ENSG00000090097	ENST00000497390	retained_intron	KNOWN	None	8652	None	None	51991474	51995652	-1	None	MCG10, LIP4
3	PCBP4	ENSG00000090097	ENST00000461554	protein_coding	KNOWN	CCDS2839	8652	1212	403	51991474	52001461	-1	None	MCG10, LIP4
3	PCBP4	ENSG00000090097	ENST00000484633	protein_coding	KNOWN	CCDS2840	8652	1083	360	51991474	52002426	-1	None	MCG10, LIP4
3	PCBP4	ENSG00000090097	ENST00000471308	nonsense_mediated_decay	KNOWN	None	8652	174	57	51991475	52001464	-1	None	MCG10, LIP4
3	PCBP4	ENSG00000090097	ENST00000498822	retained_intron	KNOWN	None	8652	None	None	51991476	51997272	-1	None	MCG10, LIP4
3	PCBP4	ENSG00000090097	ENST00000471622	protein_coding	PUTATIVE	None	8652	972	323	51991511	51996095	-1	None	MCG10, LIP4
3	PCBP4	ENSG00000090097	ENST00000468324	protein_coding	KNOWN	None	8652	505	167	51993922	52002419	-1	None	MCG10, LIP4
3	PCBP4	ENSG00000090097	ENST00000466412	protein_coding	KNOWN	None	8652	374	123	51994218	52002200	-1	None	MCG10, LIP4
3	PCBP4	ENSG00000090097	ENST00000497653	protein_coding	KNOWN	None	8652	320	105	51994272	52002425	-1	None	MCG10, LIP4
3	PCBP4	ENSG00000090097	ENST00000489595	protein_coding	KNOWN	None	8652	275	90	51994317	52008032	-1	None	MCG10, LIP4
3	PCBP4	ENSG00000090097	ENST00000490063	protein_coding	KNOWN	None	8652	259	85	51994538	52002403	-1	None	MCG10, LIP4
3	PCBP4	ENSG00000090097	ENST00000483411	protein_coding	KNOWN	None	8652	224	73	51994573	52001470	-1	None	MCG10, LIP4
3	PCBP4	ENSG00000090097	ENST00000471358	retained_intron	KNOWN	None	8652	None	None	51994645	52001461	-1	None	MCG10, LIP4
3	PCBP4	ENSG00000090097	ENST00000461544	protein_coding	KNOWN	None	8652	138	45	51994882	52001470	-1	None	MCG10, LIP4
3	PCBP4	ENSG00000090097	ENST00000322099	protein_coding	KNOWN	CCDS2839	8652	1212	403	51991472	51996908	-1	None	MCG10, LIP4
3	PCBP4	ENSG00000090097	ENST00000428823	protein_coding	KNOWN	CCDS2840	8652	1083	360	51991476	52001469	-1	None	MCG10, LIP4
3	PCBP4	ENSG00000090097	ENST00000395014	protein_coding	KNOWN	None	8652	1275	424	51991476	51994694	-1	None	MCG10, LIP4
3	PCBP4	ENSG00000090097	ENST00000395013	protein_coding	KNOWN	None	8652	732	243	51991475	52001464	-1	None	MCG10, LIP4
8	C8orf49	ENSG00000255394	ENST00000525043	protein_coding	KNOWN	None	32200	693	230	11618896	11620309	1	None	FLJ30972
22	CRKL	ENSG00000099942	ENST00000354336	protein_coding	KNOWN	CCDS13785	2363	912	303	21271714	21308037	1	None	None
22	CRKL	ENSG00000099942	ENST00000411769	nonsense_mediated_decay	KNOWN	CCDS13785	2363	912	303	21271722	21308035	1	None	None
12	ANKRD13A	ENSG00000076513	ENST00000553025	nonsense_mediated_decay	KNOWN	None	21268	522	173	110436991	110468505	1	ANKRD13	NY-REN-25
12	ANKRD13A	ENSG00000076513	ENST00000550404	processed_transcript	KNOWN	None	21268	None	None	110437235	110460269	1	ANKRD13	NY-REN-25
12	ANKRD13A	ENSG00000076513	ENST00000261739	protein_coding	KNOWN	CCDS9140	21268	1773	590	110437328	110477568	1	ANKRD13	NY-REN-25
12	ANKRD13A	ENSG00000076513	ENST00000547639	protein_coding	PUTATIVE	None	21268	904	300	110456189	110468561	1	ANKRD13	NY-REN-25
12	ANKRD13A	ENSG00000076513	ENST00000546476	retained_intron	KNOWN	None	21268	None	None	110461424	110467409	1	ANKRD13	NY-REN-25
12	ANKRD13A	ENSG00000076513	ENST00000553251	retained_intron	KNOWN	None	21268	None	None	110465704	110477233	1	ANKRD13	NY-REN-25
12	ANKRD13A	ENSG00000076513	ENST00000547419	protein_coding	PUTATIVE	None	21268	521	172	110466363	110475478	1	ANKRD13	NY-REN-25
12	ANKRD13A	ENSG00000076513	ENST00000549826	retained_intron	KNOWN	None	21268	None	None	110466752	110474134	1	ANKRD13	NY-REN-25
12	ANKRD13A	ENSG00000076513	ENST00000551491	protein_coding	PUTATIVE	None	21268	252	83	110467356	110475457	1	ANKRD13	NY-REN-25
12	ANKRD13A	ENSG00000076513	ENST00000553246	retained_intron	KNOWN	None	21268	None	None	110474020	110475811	1	ANKRD13	NY-REN-25
10	MICU1	ENSG00000107745	ENST00000476605	nonsense_mediated_decay	KNOWN	None	1530	739	245	74127098	74310956	-1	CBARA1	CALC, EFHA3, FLJ12684
10	MICU1	ENSG00000107745	ENST00000361114	protein_coding	KNOWN	CCDS55715	1530	1431	476	74127098	74385863	-1	CBARA1	CALC, EFHA3, FLJ12684
10	MICU1	ENSG00000107745	ENST00000418483	protein_coding	PUTATIVE	CCDS55714	1530	837	278	74127672	74283711	-1	CBARA1	CALC, EFHA3, FLJ12684
10	MICU1	ENSG00000107745	ENST00000398763	protein_coding	NOVEL	None	1530	837	278	74127869	74283694	-1	CBARA1	CALC, EFHA3, FLJ12684
10	MICU1	ENSG00000107745	ENST00000489666	protein_coding	PUTATIVE	None	1530	463	153	74183006	74283733	-1	CBARA1	CALC, EFHA3, FLJ12684
10	MICU1	ENSG00000107745	ENST00000605385	processed_transcript	KNOWN	None	1530	None	None	74227507	74233062	-1	CBARA1	CALC, EFHA3, FLJ12684
10	MICU1	ENSG00000107745	ENST00000603173	processed_transcript	KNOWN	None	1530	None	None	74235025	74292856	-1	CBARA1	CALC, EFHA3, FLJ12684
10	MICU1	ENSG00000107745	ENST00000603011	protein_coding	NOVEL	None	1530	637	211	74236928	74385836	-1	CBARA1	CALC, EFHA3, FLJ12684
10	MICU1	ENSG00000107745	ENST00000604529	processed_transcript	KNOWN	None	1530	None	None	74236932	74268383	-1	CBARA1	CALC, EFHA3, FLJ12684
10	MICU1	ENSG00000107745	ENST00000604238	protein_coding	PUTATIVE	None	1530	638	211	74292820	74385869	-1	CBARA1	CALC, EFHA3, FLJ12684
10	MICU1	ENSG00000107745	ENST00000604025	processed_transcript	KNOWN	None	1530	None	None	74322469	74385832	-1	CBARA1	CALC, EFHA3, FLJ12684
10	MICU1	ENSG00000107745	ENST00000398761	protein_coding	KNOWN	None	1530	1437	478	74127098	74385899	-1	CBARA1	CALC, EFHA3, FLJ12684
10	MICU1	ENSG00000107745	ENST00000401998	protein_coding	KNOWN	None	1530	1431	476	74127098	74385837	-1	CBARA1	CALC, EFHA3, FLJ12684
13	PABPC3	ENSG00000151846	ENST00000281589	protein_coding	KNOWN	CCDS9311	8556	1896	631	25670300	25673389	1	PABPL3	PABP3, tPABP
7	SNX10	ENSG00000086300	ENST00000416246	protein_coding	NOVEL	None	14974	591	196	26331541	26411642	1	None	None
7	SNX10	ENSG00000086300	ENST00000338523	protein_coding	KNOWN	CCDS5399	14974	606	201	26331543	26413945	1	None	None
7	SNX10	ENSG00000086300	ENST00000412416	protein_coding	NOVEL	None	14974	159	52	26331631	26400651	1	None	None
7	SNX10	ENSG00000086300	ENST00000396376	protein_coding	KNOWN	CCDS5399	14974	606	201	26332674	26413949	1	None	None
7	SNX10	ENSG00000086300	ENST00000409367	protein_coding	PUTATIVE	None	14974	486	161	26393677	26412228	1	None	None
7	SNX10	ENSG00000086300	ENST00000409838	protein_coding	PUTATIVE	CCDS56470	14974	354	117	26403945	26412564	1	None	None
7	SNX10	ENSG00000086300	ENST00000462993	processed_transcript	KNOWN	None	14974	None	None	26410008	26412366	1	None	None
7	SNX10	ENSG00000086300	ENST00000446848	protein_coding	KNOWN	None	14974	684	227	26331685	26412300	1	None	None
11	PCNXL3	ENSG00000197136	ENST00000355703	protein_coding	KNOWN	CCDS44650	18760	6105	2034	65383244	65404910	1	None	FLJ22427
11	PCNXL3	ENSG00000197136	ENST00000531045	processed_transcript	PUTATIVE	None	18760	None	None	65387329	65389770	1	None	FLJ22427
11	PCNXL3	ENSG00000197136	ENST00000530174	retained_intron	KNOWN	None	18760	None	None	65392598	65394250	1	None	FLJ22427
11	PCNXL3	ENSG00000197136	ENST00000439247	retained_intron	KNOWN	None	18760	None	None	65394324	65404776	1	None	FLJ22427
11	PCNXL3	ENSG00000197136	ENST00000531280	processed_transcript	PUTATIVE	None	18760	None	None	65397882	65401827	1	None	FLJ22427
4	None	ENSG00000248912	ENST00000512609	lincRNA	KNOWN	None	None	None	None	157607816	157613788	1	None	None
9	None	ENSG00000215428	ENST00000277491	protein_coding	NOVEL	None	None	990	329	133274029	133282639	1	None	None
4	None	ENSG00000248629	ENST00000503505	antisense	KNOWN	None	None	None	None	157762511	157763388	1	None	None
4	RNU6-95P	ENSG00000207428	ENST00000384697	snRNA	KNOWN	None	47058	None	None	68869613	68869719	1	None	None
4	None	ENSG00000250622	ENST00000508378	processed_pseudogene	KNOWN	None	None	None	None	157893783	157894108	1	None	None
14	CRIP2	ENSG00000182809	ENST00000483017	protein_coding	PUTATIVE	CCDS59246	2361	849	282	105939299	105946031	1	None	CRP2, ESP1
14	CRIP2	ENSG00000182809	ENST00000329146	protein_coding	KNOWN	CCDS10003	2361	627	208	105940487	105946499	1	None	CRP2, ESP1
14	CRIP2	ENSG00000182809	ENST00000550577	protein_coding	NOVEL	None	2361	313	103	105941151	105946494	1	None	CRP2, ESP1
14	CRIP2	ENSG00000182809	ENST00000538259	protein_coding	NOVEL	None	2361	577	191	105941155	105946404	1	None	CRP2, ESP1
14	CRIP2	ENSG00000182809	ENST00000551836	retained_intron	KNOWN	None	2361	None	None	105941160	105945553	1	None	CRP2, ESP1
14	CRIP2	ENSG00000182809	ENST00000547643	retained_intron	KNOWN	None	2361	None	None	105941169	105946489	1	None	CRP2, ESP1
14	CRIP2	ENSG00000182809	ENST00000552643	retained_intron	KNOWN	None	2361	None	None	105941174	105946497	1	None	CRP2, ESP1
14	CRIP2	ENSG00000182809	ENST00000548923	processed_transcript	KNOWN	None	2361	None	None	105941648	105945113	1	None	CRP2, ESP1
14	CRIP2	ENSG00000182809	ENST00000548989	processed_transcript	KNOWN	None	2361	None	None	105942196	105946498	1	None	CRP2, ESP1
14	CRIP2	ENSG00000182809	ENST00000548309	processed_transcript	KNOWN	None	2361	None	None	105943101	105946461	1	None	CRP2, ESP1
14	CRIP2	ENSG00000182809	ENST00000551738	retained_intron	KNOWN	None	2361	None	None	105944929	105945630	1	None	CRP2, ESP1
1	UBE4B	ENSG00000130939	ENST00000253251	protein_coding	KNOWN	CCDS110	12500	3522	1173	10092890	10240425	1	None	UBOX3, E4, UFD2, KIAA0684
1	UBE4B	ENSG00000130939	ENST00000377153	protein_coding	KNOWN	None	12500	303	100	10093332	10133176	1	None	UBOX3, E4, UFD2, KIAA0684
1	UBE4B	ENSG00000130939	ENST00000343090	protein_coding	KNOWN	CCDS41245	12500	3909	1302	10093654	10241297	1	None	UBOX3, E4, UFD2, KIAA0684
1	UBE4B	ENSG00000130939	ENST00000462658	retained_intron	KNOWN	None	12500	None	None	10160919	10163243	1	None	UBOX3, E4, UFD2, KIAA0684
1	UBE4B	ENSG00000130939	ENST00000475795	processed_transcript	KNOWN	None	12500	None	None	10167389	10192538	1	None	UBOX3, E4, UFD2, KIAA0684
1	UBE4B	ENSG00000130939	ENST00000470736	protein_coding	NOVEL	None	12500	827	274	10182100	10205097	1	None	UBOX3, E4, UFD2, KIAA0684
1	UBE4B	ENSG00000130939	ENST00000466379	retained_intron	KNOWN	None	12500	None	None	10188397	10205657	1	None	UBOX3, E4, UFD2, KIAA0684
1	UBE4B	ENSG00000130939	ENST00000488228	nonsense_mediated_decay	KNOWN	None	12500	295	97	10218412	10231247	1	None	UBOX3, E4, UFD2, KIAA0684
1	UBE4B	ENSG00000130939	ENST00000487244	retained_intron	KNOWN	None	12500	None	None	10231014	10240074	1	None	UBOX3, E4, UFD2, KIAA0684
1	UBE4B	ENSG00000130939	ENST00000465408	processed_transcript	KNOWN	None	12500	None	None	10239074	10240008	1	None	UBOX3, E4, UFD2, KIAA0684
1	UBE4B	ENSG00000130939	ENST00000377157	protein_coding	KNOWN	None	12500	3186	1061	10093016	10241289	1	None	UBOX3, E4, UFD2, KIAA0684
13	AMER2	ENSG00000165566	ENST00000357816	protein_coding	KNOWN	CCDS9312	26360	1659	552	25735822	25746426	-1	FAM123A	FLJ25477
13	AMER2	ENSG00000165566	ENST00000515384	protein_coding	KNOWN	CCDS53859	26360	2016	671	25743229	25746425	-1	FAM123A	FLJ25477
13	AMER2	ENSG00000165566	ENST00000381853	protein_coding	KNOWN	CCDS9312	26360	1659	552	25742674	25745857	-1	FAM123A	FLJ25477
9	RGS3	ENSG00000138835	ENST00000374140	protein_coding	KNOWN	CCDS43869	9999	3597	1198	116207011	116360018	1	None	C2PA, FLJ20370, PDZ-RGS3
9	RGS3	ENSG00000138835	ENST00000478599	retained_intron	KNOWN	None	9999	None	None	116226009	116360003	1	None	C2PA, FLJ20370, PDZ-RGS3
9	RGS3	ENSG00000138835	ENST00000317613	protein_coding	KNOWN	CCDS35113	9999	1809	602	116226012	116304369	1	None	C2PA, FLJ20370, PDZ-RGS3
9	RGS3	ENSG00000138835	ENST00000466735	retained_intron	KNOWN	None	9999	None	None	116241151	116247971	1	None	C2PA, FLJ20370, PDZ-RGS3
9	RGS3	ENSG00000138835	ENST00000488259	processed_transcript	KNOWN	None	9999	None	None	116241585	116258118	1	None	C2PA, FLJ20370, PDZ-RGS3
9	RGS3	ENSG00000138835	ENST00000466314	processed_transcript	KNOWN	None	9999	None	None	116263651	116269789	1	None	C2PA, FLJ20370, PDZ-RGS3
9	RGS3	ENSG00000138835	ENST00000343817	protein_coding	KNOWN	CCDS6797	9999	2754	917	116263707	116360018	1	None	C2PA, FLJ20370, PDZ-RGS3
9	RGS3	ENSG00000138835	ENST00000464306	processed_transcript	KNOWN	None	9999	None	None	116265635	116269804	1	None	C2PA, FLJ20370, PDZ-RGS3
9	RGS3	ENSG00000138835	ENST00000374136	protein_coding	PUTATIVE	None	9999	1023	340	116267542	116304371	1	None	C2PA, FLJ20370, PDZ-RGS3
9	RGS3	ENSG00000138835	ENST00000496113	protein_coding	PUTATIVE	None	9999	641	212	116279550	116345970	1	None	C2PA, FLJ20370, PDZ-RGS3
9	RGS3	ENSG00000138835	ENST00000460000	retained_intron	KNOWN	None	9999	None	None	116279648	116299198	1	None	C2PA, FLJ20370, PDZ-RGS3
9	RGS3	ENSG00000138835	ENST00000470775	processed_transcript	KNOWN	None	9999	None	None	116284536	116299198	1	None	C2PA, FLJ20370, PDZ-RGS3
9	RGS3	ENSG00000138835	ENST00000496264	processed_transcript	KNOWN	None	9999	None	None	116284763	116299198	1	None	C2PA, FLJ20370, PDZ-RGS3
9	RGS3	ENSG00000138835	ENST00000462143	protein_coding	KNOWN	CCDS6798	9999	1560	519	116298784	116360017	1	None	C2PA, FLJ20370, PDZ-RGS3
9	RGS3	ENSG00000138835	ENST00000492676	processed_transcript	KNOWN	None	9999	None	None	116298891	116303874	1	None	C2PA, FLJ20370, PDZ-RGS3
9	RGS3	ENSG00000138835	ENST00000463806	processed_transcript	KNOWN	None	9999	None	None	116327337	116344502	1	None	C2PA, FLJ20370, PDZ-RGS3
9	RGS3	ENSG00000138835	ENST00000489082	processed_transcript	KNOWN	None	9999	None	None	116327337	116344522	1	None	C2PA, FLJ20370, PDZ-RGS3
9	RGS3	ENSG00000138835	ENST00000496275	processed_transcript	KNOWN	None	9999	None	None	116327353	116358025	1	None	C2PA, FLJ20370, PDZ-RGS3
9	RGS3	ENSG00000138835	ENST00000488620	retained_intron	KNOWN	None	9999	None	None	116327356	116354074	1	None	C2PA, FLJ20370, PDZ-RGS3
9	RGS3	ENSG00000138835	ENST00000374134	protein_coding	KNOWN	CCDS6798	9999	1560	519	116342940	116360018	1	None	C2PA, FLJ20370, PDZ-RGS3
9	RGS3	ENSG00000138835	ENST00000485822	retained_intron	KNOWN	None	9999	None	None	116343173	116355283	1	None	C2PA, FLJ20370, PDZ-RGS3
9	RGS3	ENSG00000138835	ENST00000471324	protein_coding	PUTATIVE	None	9999	222	73	116343208	116345951	1	None	C2PA, FLJ20370, PDZ-RGS3
9	RGS3	ENSG00000138835	ENST00000487344	retained_intron	KNOWN	None	9999	None	None	116343916	116360017	1	None	C2PA, FLJ20370, PDZ-RGS3
9	RGS3	ENSG00000138835	ENST00000467805	protein_coding	PUTATIVE	None	9999	742	246	116344352	116357260	1	None	C2PA, FLJ20370, PDZ-RGS3
9	RGS3	ENSG00000138835	ENST00000462403	protein_coding	KNOWN	CCDS35114	9999	936	311	116355766	116360018	1	None	C2PA, FLJ20370, PDZ-RGS3
9	RGS3	ENSG00000138835	ENST00000497435	retained_intron	KNOWN	None	9999	None	None	116356424	116357374	1	None	C2PA, FLJ20370, PDZ-RGS3
9	RGS3	ENSG00000138835	ENST00000490241	retained_intron	KNOWN	None	9999	None	None	116357752	116360018	1	None	C2PA, FLJ20370, PDZ-RGS3
9	RGS3	ENSG00000138835	ENST00000350696	protein_coding	KNOWN	CCDS43869	9999	3597	1198	116222520	116360017	1	None	C2PA, FLJ20370, PDZ-RGS3
9	RGS3	ENSG00000138835	ENST00000394646	protein_coding	KNOWN	None	9999	1776	591	116263787	116360010	1	None	C2PA, FLJ20370, PDZ-RGS3
9	RGS3	ENSG00000138835	ENST00000342620	protein_coding	KNOWN	None	9999	507	168	116327361	116360018	1	None	C2PA, FLJ20370, PDZ-RGS3
6	RPL7AP7	ENSG00000213880	ENST00000453429	processed_pseudogene	KNOWN	None	21395	None	None	29770972	29771768	-1	None	RPL7B, dJ377H14.2
9	ENDOG	ENSG00000167136	ENST00000372642	protein_coding	KNOWN	CCDS6912	3346	894	297	131580753	131584956	1	None	None
1	CNN3	ENSG00000117519	ENST00000370206	protein_coding	KNOWN	CCDS30775	2157	990	329	95362507	95392834	-1	None	None
1	CNN3	ENSG00000117519	ENST00000461018	processed_transcript	KNOWN	None	2157	None	None	95363424	95367429	-1	None	None
1	CNN3	ENSG00000117519	ENST00000487539	processed_transcript	KNOWN	None	2157	None	None	95363503	95368877	-1	None	None
1	CNN3	ENSG00000117519	ENST00000415017	protein_coding	KNOWN	None	2157	557	184	95363608	95391357	-1	None	None
1	CNN3	ENSG00000117519	ENST00000474409	processed_transcript	KNOWN	None	2157	None	None	95367734	95390003	-1	None	None
1	CNN3	ENSG00000117519	ENST00000538964	protein_coding	KNOWN	CCDS30775	2157	990	329	95362766	95392638	-1	None	None
1	CNN3	ENSG00000117519	ENST00000394202	protein_coding	KNOWN	None	2157	852	283	95362901	95392699	-1	None	None
1	CNN3	ENSG00000117519	ENST00000545882	protein_coding	KNOWN	None	2157	867	288	95362979	95391337	-1	None	None
16	None	ENSG00000238321	ENST00000459272	snoRNA	NOVEL	None	None	None	None	82487925	82488023	1	None	None
13	POSTN	ENSG00000133110	ENST00000379749	protein_coding	KNOWN	None	16953	2427	808	38136722	38172898	-1	None	OSF-2, PN, periostin
13	POSTN	ENSG00000133110	ENST00000379747	protein_coding	KNOWN	CCDS9364	16953	2511	836	38136726	38172981	-1	None	OSF-2, PN, periostin
13	POSTN	ENSG00000133110	ENST00000379743	protein_coding	KNOWN	None	16953	2430	809	38136728	38172887	-1	None	OSF-2, PN, periostin
13	POSTN	ENSG00000133110	ENST00000379742	protein_coding	KNOWN	CCDS45034	16953	2340	779	38136771	38172895	-1	None	OSF-2, PN, periostin
13	POSTN	ENSG00000133110	ENST00000478947	processed_transcript	KNOWN	None	16953	None	None	38136834	38139140	-1	None	OSF-2, PN, periostin
13	POSTN	ENSG00000133110	ENST00000473823	processed_transcript	KNOWN	None	16953	None	None	38137358	38144948	-1	None	OSF-2, PN, periostin
13	POSTN	ENSG00000133110	ENST00000474646	processed_transcript	KNOWN	None	16953	None	None	38139385	38143927	-1	None	OSF-2, PN, periostin
13	POSTN	ENSG00000133110	ENST00000497145	processed_transcript	KNOWN	None	16953	None	None	38142820	38145672	-1	None	OSF-2, PN, periostin
13	POSTN	ENSG00000133110	ENST00000541179	protein_coding	KNOWN	CCDS53864	16953	2346	781	38136720	38172981	-1	None	OSF-2, PN, periostin
13	POSTN	ENSG00000133110	ENST00000541481	protein_coding	KNOWN	None	16953	2250	749	38137470	38172863	-1	None	OSF-2, PN, periostin
15	PTPN9	ENSG00000169410	ENST00000306726	protein_coding	KNOWN	CCDS10280	9661	1782	593	75759462	75871630	-1	None	MEG2
15	PTPN9	ENSG00000169410	ENST00000568108	retained_intron	KNOWN	None	9661	None	None	75761202	75763250	-1	None	MEG2
15	PTPN9	ENSG00000169410	ENST00000563835	processed_transcript	KNOWN	None	9661	None	None	75762151	75772257	-1	None	MEG2
15	PTPN9	ENSG00000169410	ENST00000564970	processed_transcript	KNOWN	None	9661	None	None	75779629	75798157	-1	None	MEG2
15	PTPN9	ENSG00000169410	ENST00000561731	protein_coding	PUTATIVE	None	9661	525	174	75805532	75816615	-1	None	MEG2
5	None	ENSG00000213940	ENST00000439391	processed_pseudogene	KNOWN	None	None	None	None	52502391	52503006	1	None	None
16	None	ENSG00000261285	ENST00000568136	lincRNA	KNOWN	None	None	None	None	82529598	82544501	-1	None	None
16	None	ENSG00000261285	ENST00000563825	lincRNA	KNOWN	None	None	None	None	82543713	82544524	-1	None	None
12	NCOR2	ENSG00000196498	ENST00000405201	protein_coding	KNOWN	CCDS41858	7673	7545	2514	124808961	124979798	-1	None	SMRT, SMRTE, TRAC-1, CTG26, TNRC14
12	NCOR2	ENSG00000196498	ENST00000404621	protein_coding	KNOWN	CCDS41857	7673	7377	2458	124808961	125020149	-1	None	SMRT, SMRTE, TRAC-1, CTG26, TNRC14
12	NCOR2	ENSG00000196498	ENST00000429285	protein_coding	KNOWN	CCDS55892	7673	7515	2504	124809144	125020149	-1	None	SMRT, SMRTE, TRAC-1, CTG26, TNRC14
12	NCOR2	ENSG00000196498	ENST00000418829	protein_coding	PUTATIVE	None	7673	389	128	124809926	124816891	-1	None	SMRT, SMRTE, TRAC-1, CTG26, TNRC14
12	NCOR2	ENSG00000196498	ENST00000443451	protein_coding	NOVEL	None	7673	935	310	124809932	124819192	-1	None	SMRT, SMRTE, TRAC-1, CTG26, TNRC14
12	NCOR2	ENSG00000196498	ENST00000413172	protein_coding	PUTATIVE	None	7673	398	131	124809966	124812131	-1	None	SMRT, SMRTE, TRAC-1, CTG26, TNRC14
12	NCOR2	ENSG00000196498	ENST00000464377	retained_intron	KNOWN	None	7673	None	None	124810669	124812205	-1	None	SMRT, SMRTE, TRAC-1, CTG26, TNRC14
12	NCOR2	ENSG00000196498	ENST00000440337	protein_coding	PUTATIVE	None	7673	404	133	124813078	124817802	-1	None	SMRT, SMRTE, TRAC-1, CTG26, TNRC14
12	NCOR2	ENSG00000196498	ENST00000461081	retained_intron	KNOWN	None	7673	None	None	124816021	124820938	-1	None	SMRT, SMRTE, TRAC-1, CTG26, TNRC14
12	NCOR2	ENSG00000196498	ENST00000474079	retained_intron	KNOWN	None	7673	None	None	124818890	124819727	-1	None	SMRT, SMRTE, TRAC-1, CTG26, TNRC14
12	NCOR2	ENSG00000196498	ENST00000440187	protein_coding	NOVEL	None	7673	467	154	124821650	124826409	-1	None	SMRT, SMRTE, TRAC-1, CTG26, TNRC14
12	NCOR2	ENSG00000196498	ENST00000453428	protein_coding	NOVEL	None	7673	674	223	124824553	124826601	-1	None	SMRT, SMRTE, TRAC-1, CTG26, TNRC14
12	NCOR2	ENSG00000196498	ENST00000458234	protein_coding	NOVEL	None	7673	4354	1450	124831139	125052010	-1	None	SMRT, SMRTE, TRAC-1, CTG26, TNRC14
12	NCOR2	ENSG00000196498	ENST00000473999	retained_intron	KNOWN	None	7673	None	None	124831948	124833486	-1	None	SMRT, SMRTE, TRAC-1, CTG26, TNRC14
12	NCOR2	ENSG00000196498	ENST00000536195	retained_intron	KNOWN	None	7673	None	None	124839383	124841396	-1	None	SMRT, SMRTE, TRAC-1, CTG26, TNRC14
12	NCOR2	ENSG00000196498	ENST00000493859	retained_intron	KNOWN	None	7673	None	None	124839605	124841231	-1	None	SMRT, SMRTE, TRAC-1, CTG26, TNRC14
12	NCOR2	ENSG00000196498	ENST00000448614	protein_coding	PUTATIVE	None	7673	488	161	124857006	124873370	-1	None	SMRT, SMRTE, TRAC-1, CTG26, TNRC14
12	NCOR2	ENSG00000196498	ENST00000420698	protein_coding	PUTATIVE	None	7673	1480	492	124904505	125002840	-1	None	SMRT, SMRTE, TRAC-1, CTG26, TNRC14
12	NCOR2	ENSG00000196498	ENST00000494460	retained_intron	KNOWN	None	7673	None	None	124913941	124915187	-1	None	SMRT, SMRTE, TRAC-1, CTG26, TNRC14
12	NCOR2	ENSG00000196498	ENST00000542927	protein_coding	PUTATIVE	None	7673	827	274	124915156	124968320	-1	None	SMRT, SMRTE, TRAC-1, CTG26, TNRC14
12	NCOR2	ENSG00000196498	ENST00000448008	protein_coding	PUTATIVE	None	7673	735	244	124915187	124968315	-1	None	SMRT, SMRTE, TRAC-1, CTG26, TNRC14
12	NCOR2	ENSG00000196498	ENST00000542565	retained_intron	KNOWN	None	7673	None	None	124970920	125052135	-1	None	SMRT, SMRTE, TRAC-1, CTG26, TNRC14
12	NCOR2	ENSG00000196498	ENST00000356219	protein_coding	KNOWN	None	7673	7566	2521	124808962	125020149	-1	None	SMRT, SMRTE, TRAC-1, CTG26, TNRC14
12	NCOR2	ENSG00000196498	ENST00000397355	protein_coding	KNOWN	None	7673	7380	2459	124808962	125020149	-1	None	SMRT, SMRTE, TRAC-1, CTG26, TNRC14
12	NCOR2	ENSG00000196498	ENST00000404121	protein_coding	KNOWN	None	7673	6228	2075	124808962	125020149	-1	None	SMRT, SMRTE, TRAC-1, CTG26, TNRC14
8	NEIL2	ENSG00000154328	ENST00000436750	protein_coding	PUTATIVE	CCDS5984	18956	999	332	11627148	11644854	1	None	NEH2, FLJ31644, MGC2832, MGC4505
8	NEIL2	ENSG00000154328	ENST00000455213	protein_coding	PUTATIVE	CCDS5984	18956	999	332	11627208	11644849	1	None	NEH2, FLJ31644, MGC2832, MGC4505
8	NEIL2	ENSG00000154328	ENST00000403422	protein_coding	KNOWN	CCDS47803	18956	816	271	11627218	11644854	1	None	NEH2, FLJ31644, MGC2832, MGC4505
8	NEIL2	ENSG00000154328	ENST00000528113	nonsense_mediated_decay	KNOWN	None	18956	183	60	11627219	11643606	1	None	NEH2, FLJ31644, MGC2832, MGC4505
8	NEIL2	ENSG00000154328	ENST00000528323	protein_coding	KNOWN	CCDS47802	18956	651	216	11627219	11643883	1	None	NEH2, FLJ31644, MGC2832, MGC4505
8	NEIL2	ENSG00000154328	ENST00000284503	protein_coding	KNOWN	CCDS5984	18956	999	332	11627248	11644855	1	None	NEH2, FLJ31644, MGC2832, MGC4505
8	NEIL2	ENSG00000154328	ENST00000524741	retained_intron	KNOWN	None	18956	None	None	11640121	11644165	1	None	NEH2, FLJ31644, MGC2832, MGC4505
HSCHR6_MHC_MCF	None	ENSG00000243430	ENST00000414808	processed_transcript	KNOWN	None	None	None	None	29710385	29713907	-1	None	None
HSCHR6_MHC_MCF	None	ENSG00000243430	ENST00000449091	processed_transcript	KNOWN	None	None	None	None	29712075	29713963	-1	None	None
11	TPBGL	ENSG00000261594	ENST00000562197	protein_coding	NOVEL	None	44159	1149	382	74951950	74954742	1	None	None
2	PPP1R7	ENSG00000115685	ENST00000438799	protein_coding	PUTATIVE	None	9295	847	281	242088991	242109271	1	None	sds22
2	PPP1R7	ENSG00000115685	ENST00000402734	protein_coding	PUTATIVE	None	9295	666	221	242089007	242106587	1	None	sds22
2	PPP1R7	ENSG00000115685	ENST00000423280	protein_coding	PUTATIVE	None	9295	867	288	242089028	242122199	1	None	sds22
2	PPP1R7	ENSG00000115685	ENST00000407025	protein_coding	KNOWN	CCDS2546	9295	1083	360	242089053	242122439	1	None	sds22
2	PPP1R7	ENSG00000115685	ENST00000272983	protein_coding	KNOWN	None	9295	954	317	242089073	242122400	1	None	sds22
2	PPP1R7	ENSG00000115685	ENST00000234038	protein_coding	KNOWN	CCDS2546	9295	1083	360	242089437	242123067	1	None	sds22
2	PPP1R7	ENSG00000115685	ENST00000404405	protein_coding	NOVEL	None	9295	825	274	242089833	242106589	1	None	sds22
2	PPP1R7	ENSG00000115685	ENST00000473017	retained_intron	KNOWN	None	9295	None	None	242089882	242098222	1	None	sds22
2	PPP1R7	ENSG00000115685	ENST00000439916	protein_coding	NOVEL	None	9295	554	183	242089882	242099848	1	None	sds22
2	PPP1R7	ENSG00000115685	ENST00000406106	protein_coding	KNOWN	None	9295	843	280	242089895	242106589	1	None	sds22
2	PPP1R7	ENSG00000115685	ENST00000498170	retained_intron	KNOWN	None	9295	None	None	242089898	242098209	1	None	sds22
2	PPP1R7	ENSG00000115685	ENST00000493374	retained_intron	KNOWN	None	9295	None	None	242089899	242098338	1	None	sds22
2	PPP1R7	ENSG00000115685	ENST00000401987	protein_coding	KNOWN	None	9295	714	237	242089911	242106589	1	None	sds22
2	PPP1R7	ENSG00000115685	ENST00000427172	protein_coding	NOVEL	None	9295	421	139	242090889	242098718	1	None	sds22
2	PPP1R7	ENSG00000115685	ENST00000450367	protein_coding	NOVEL	None	9295	1007	334	242092897	242122261	1	None	sds22
2	PPP1R7	ENSG00000115685	ENST00000467159	processed_transcript	KNOWN	None	9295	None	None	242094433	242099836	1	None	sds22
2	PPP1R7	ENSG00000115685	ENST00000485630	processed_transcript	KNOWN	None	9295	None	None	242094488	242105854	1	None	sds22
2	PPP1R7	ENSG00000115685	ENST00000491715	retained_intron	KNOWN	None	9295	None	None	242098552	242122155	1	None	sds22
2	PPP1R7	ENSG00000115685	ENST00000479821	retained_intron	KNOWN	None	9295	None	None	242105756	242109307	1	None	sds22
2	PPP1R7	ENSG00000115685	ENST00000415769	protein_coding	PUTATIVE	None	9295	325	107	242109213	242123067	1	None	sds22
16	None	ENSG00000261176	ENST00000565374	lincRNA	KNOWN	None	None	None	None	82587654	82608815	-1	None	None
HSCHR6_MHC_MANN	PBX2	ENSG00000232005	ENST00000431537	protein_coding	KNOWN	None	8633	1293	430	32191945	32197387	-1	None	G17, HOX12, PBX2MHC
HSCHR6_MHC_MANN	PBX2	ENSG00000232005	ENST00000491147	retained_intron	KNOWN	None	8633	None	None	32193457	32194716	-1	None	G17, HOX12, PBX2MHC
HSCHR6_MHC_MANN	PBX2	ENSG00000232005	ENST00000480293	retained_intron	KNOWN	None	8633	None	None	32194174	32197143	-1	None	G17, HOX12, PBX2MHC
HSCHR6_MHC_MANN	PBX2	ENSG00000232005	ENST00000473198	retained_intron	KNOWN	None	8633	None	None	32194434	32196017	-1	None	G17, HOX12, PBX2MHC
HSCHR6_MHC_MANN	PBX2	ENSG00000232005	ENST00000460888	retained_intron	KNOWN	None	8633	None	None	32195481	32196278	-1	None	G17, HOX12, PBX2MHC
HSCHR6_MHC_MANN	PBX2	ENSG00000232005	ENST00000549894	protein_coding	KNOWN	None	8633	1332	443	32192903	32197157	-1	None	G17, HOX12, PBX2MHC
HSCHR6_MHC_MANN	PBX2	ENSG00000232005	ENST00000546976	protein_coding	KNOWN	None	8633	1392	463	32192903	32197377	-1	None	G17, HOX12, PBX2MHC
HSCHR6_MHC_MANN	PBX2	ENSG00000232005	ENST00000548572	protein_coding	KNOWN	None	8633	1317	438	32192903	32197377	-1	None	G17, HOX12, PBX2MHC
4	SETP20	ENSG00000225094	ENST00000457046	processed_pseudogene	KNOWN	None	42939	None	None	110474399	110475250	-1	None	None
9	None	ENSG00000231242	ENST00000412376	lincRNA	KNOWN	None	None	None	None	69082536	69108793	-1	None	None
10	None	ENSG00000238840	ENST00000459095	snoRNA	NOVEL	None	None	None	None	5004628	5004760	-1	None	None
HSCHR6_MHC_MCF	HCG9P5	ENSG00000228202	ENST00000458664	unprocessed_pseudogene	KNOWN	None	30983	None	None	29713203	29713427	1	None	HCGIX-5, dJ377H14.6
17	SLC25A19	ENSG00000125454	ENST00000582822	protein_coding	PUTATIVE	None	14409	202	66	73269073	73282804	-1	MCPHA	DNC, MUP1, TPC
17	SLC25A19	ENSG00000125454	ENST00000416858	protein_coding	KNOWN	CCDS11720	14409	963	320	73269073	73285471	-1	MCPHA	DNC, MUP1, TPC
17	SLC25A19	ENSG00000125454	ENST00000402418	protein_coding	KNOWN	CCDS11720	14409	963	320	73269074	73283755	-1	MCPHA	DNC, MUP1, TPC
17	SLC25A19	ENSG00000125454	ENST00000442286	protein_coding	KNOWN	CCDS11720	14409	963	320	73269074	73285471	-1	MCPHA	DNC, MUP1, TPC
17	SLC25A19	ENSG00000125454	ENST00000320362	protein_coding	KNOWN	CCDS11720	14409	963	320	73269074	73285514	-1	MCPHA	DNC, MUP1, TPC
17	SLC25A19	ENSG00000125454	ENST00000580994	protein_coding	KNOWN	CCDS11720	14409	963	320	73269111	73285492	-1	MCPHA	DNC, MUP1, TPC
17	SLC25A19	ENSG00000125454	ENST00000583332	protein_coding	PUTATIVE	None	14409	548	181	73269632	73285467	-1	MCPHA	DNC, MUP1, TPC
17	SLC25A19	ENSG00000125454	ENST00000580273	protein_coding	PUTATIVE	None	14409	254	83	73274319	73285591	-1	MCPHA	DNC, MUP1, TPC
17	SLC25A19	ENSG00000125454	ENST00000579207	protein_coding	KNOWN	None	14409	459	152	73279504	73285453	-1	MCPHA	DNC, MUP1, TPC
17	SLC25A19	ENSG00000125454	ENST00000580151	protein_coding	KNOWN	None	14409	453	150	73279510	73285487	-1	MCPHA	DNC, MUP1, TPC
17	SLC25A19	ENSG00000125454	ENST00000581988	protein_coding	KNOWN	None	14409	317	104	73279646	73285441	-1	MCPHA	DNC, MUP1, TPC
17	SLC25A19	ENSG00000125454	ENST00000582778	protein_coding	KNOWN	None	14409	257	84	73282416	73285293	-1	MCPHA	DNC, MUP1, TPC
17	SLC25A19	ENSG00000125454	ENST00000584438	protein_coding	KNOWN	None	14409	118	38	73282728	73285503	-1	MCPHA	DNC, MUP1, TPC
17	SLC25A19	ENSG00000125454	ENST00000579228	retained_intron	KNOWN	None	14409	None	None	73284201	73285530	-1	MCPHA	DNC, MUP1, TPC
17	SLC25A19	ENSG00000125454	ENST00000375261	protein_coding	KNOWN	None	14409	792	263	73269532	73282845	-1	MCPHA	DNC, MUP1, TPC
7	None	ENSG00000183470	ENST00000332558	protein_coding	PUTATIVE	None	None	453	150	132333553	132413528	1	None	None
7	None	ENSG00000183470	ENST00000573229	processed_transcript	PUTATIVE	None	None	None	None	132344290	132357053	1	None	None
10	USP54	ENSG00000166348	ENST00000418501	nonsense_mediated_decay	KNOWN	None	23513	1075	357	75257296	75290589	-1	C10orf29	FLJ37318, bA137L10.3, bA137L10.4
10	USP54	ENSG00000166348	ENST00000466048	nonsense_mediated_decay	KNOWN	None	23513	1238	411	75257296	75294528	-1	C10orf29	FLJ37318, bA137L10.3, bA137L10.4
10	USP54	ENSG00000166348	ENST00000424265	nonsense_mediated_decay	KNOWN	None	23513	1906	634	75257296	75301460	-1	C10orf29	FLJ37318, bA137L10.3, bA137L10.4
10	USP54	ENSG00000166348	ENST00000339859	protein_coding	KNOWN	CCDS7329	23513	5055	1684	75257296	75385408	-1	C10orf29	FLJ37318, bA137L10.3, bA137L10.4
10	USP54	ENSG00000166348	ENST00000497106	processed_transcript	KNOWN	None	23513	None	None	75258053	75313098	-1	C10orf29	FLJ37318, bA137L10.3, bA137L10.4
10	USP54	ENSG00000166348	ENST00000464635	retained_intron	KNOWN	None	23513	None	None	75260413	75264954	-1	C10orf29	FLJ37318, bA137L10.3, bA137L10.4
10	USP54	ENSG00000166348	ENST00000498143	retained_intron	KNOWN	None	23513	None	None	75278480	75336095	-1	C10orf29	FLJ37318, bA137L10.3, bA137L10.4
10	USP54	ENSG00000166348	ENST00000480210	processed_transcript	PUTATIVE	None	23513	None	None	75289299	75290169	-1	C10orf29	FLJ37318, bA137L10.3, bA137L10.4
10	USP54	ENSG00000166348	ENST00000461520	processed_transcript	PUTATIVE	None	23513	None	None	75295959	75335416	-1	C10orf29	FLJ37318, bA137L10.3, bA137L10.4
10	USP54	ENSG00000166348	ENST00000451492	protein_coding	NOVEL	None	23513	431	142	75299296	75351096	-1	C10orf29	FLJ37318, bA137L10.3, bA137L10.4
10	USP54	ENSG00000166348	ENST00000492357	processed_transcript	PUTATIVE	None	23513	None	None	75301187	75301650	-1	C10orf29	FLJ37318, bA137L10.3, bA137L10.4
10	USP54	ENSG00000166348	ENST00000481991	processed_transcript	KNOWN	None	23513	None	None	75302593	75306394	-1	C10orf29	FLJ37318, bA137L10.3, bA137L10.4
10	USP54	ENSG00000166348	ENST00000413442	protein_coding	KNOWN	None	23513	461	152	75302804	75351100	-1	C10orf29	FLJ37318, bA137L10.3, bA137L10.4
10	USP54	ENSG00000166348	ENST00000433394	protein_coding	KNOWN	None	23513	240	79	75331179	75385711	-1	C10orf29	FLJ37318, bA137L10.3, bA137L10.4
10	USP54	ENSG00000166348	ENST00000498213	processed_transcript	KNOWN	None	23513	None	None	75335568	75351298	-1	C10orf29	FLJ37318, bA137L10.3, bA137L10.4
10	USP54	ENSG00000166348	ENST00000474929	processed_transcript	KNOWN	None	23513	None	None	75335963	75385686	-1	C10orf29	FLJ37318, bA137L10.3, bA137L10.4
10	USP54	ENSG00000166348	ENST00000408019	protein_coding	KNOWN	CCDS7329	23513	5055	1684	75257298	75335433	-1	C10orf29	FLJ37318, bA137L10.3, bA137L10.4
10	USP54	ENSG00000166348	ENST00000428547	protein_coding	KNOWN	None	23513	4605	1534	75257298	75335433	-1	C10orf29	FLJ37318, bA137L10.3, bA137L10.4
10	USP54	ENSG00000166348	ENST00000422491	protein_coding	KNOWN	None	23513	2460	819	75258136	75283432	-1	C10orf29	FLJ37318, bA137L10.3, bA137L10.4
10	USP54	ENSG00000166348	ENST00000394811	protein_coding	KNOWN	None	23513	2178	725	75257298	75335433	-1	C10orf29	FLJ37318, bA137L10.3, bA137L10.4
10	USP54	ENSG00000166348	ENST00000319786	protein_coding	KNOWN	None	23513	2235	744	75288947	75351298	-1	C10orf29	FLJ37318, bA137L10.3, bA137L10.4
9	None	ENSG00000237543	ENST00000416700	lincRNA	KNOWN	None	None	None	None	69146939	69149621	1	None	None
9	None	ENSG00000237543	ENST00000421142	lincRNA	KNOWN	None	None	None	None	69146964	69149621	1	None	None
4	None	ENSG00000250238	ENST00000511645	processed_pseudogene	KNOWN	None	None	None	None	105845	107000	-1	None	None
4	CDC42P4	ENSG00000249965	ENST00000510507	processed_pseudogene	KNOWN	None	44428	None	None	110476326	110476888	1	None	None
5	DMXL1	ENSG00000172869	ENST00000509902	processed_transcript	KNOWN	None	2937	None	None	118373467	118439975	1	None	None
5	DMXL1	ENSG00000172869	ENST00000503802	protein_coding	KNOWN	None	2937	1767	588	118406900	118469386	1	None	None
5	DMXL1	ENSG00000172869	ENST00000311085	protein_coding	KNOWN	CCDS4125	2937	9084	3027	118407185	118584822	1	None	None
5	DMXL1	ENSG00000172869	ENST00000510924	processed_transcript	KNOWN	None	2937	None	None	118407224	118440954	1	None	None
5	DMXL1	ENSG00000172869	ENST00000515335	processed_transcript	PUTATIVE	None	2937	None	None	118436296	118437905	1	None	None
5	DMXL1	ENSG00000172869	ENST00000514151	processed_transcript	KNOWN	None	2937	None	None	118440918	118465027	1	None	None
5	DMXL1	ENSG00000172869	ENST00000504031	retained_intron	KNOWN	None	2937	None	None	118464904	118469180	1	None	None
5	DMXL1	ENSG00000172869	ENST00000512281	retained_intron	KNOWN	None	2937	None	None	118469921	118483277	1	None	None
5	DMXL1	ENSG00000172869	ENST00000504497	processed_transcript	PUTATIVE	None	2937	None	None	118503324	118506230	1	None	None
5	DMXL1	ENSG00000172869	ENST00000507552	processed_transcript	PUTATIVE	None	2937	None	None	118506411	118507602	1	None	None
5	DMXL1	ENSG00000172869	ENST00000502516	processed_transcript	KNOWN	None	2937	None	None	118533453	118542587	1	None	None
5	DMXL1	ENSG00000172869	ENST00000511622	processed_transcript	KNOWN	None	2937	None	None	118533514	118573109	1	None	None
5	DMXL1	ENSG00000172869	ENST00000505312	processed_transcript	KNOWN	None	2937	None	None	118542192	118584833	1	None	None
5	DMXL1	ENSG00000172869	ENST00000514595	retained_intron	KNOWN	None	2937	None	None	118572009	118584815	1	None	None
5	DMXL1	ENSG00000172869	ENST00000539542	protein_coding	KNOWN	None	2937	9147	3048	118407239	118583060	1	None	None
4	HIGD1AP14	ENSG00000248785	ENST00000507617	processed_pseudogene	KNOWN	None	43009	None	None	110594999	110595280	1	None	None
19	None	ENSG00000267557	ENST00000589127	antisense	KNOWN	None	None	None	None	33157204	33164116	1	None	None
4	None	ENSG00000256143	ENST00000414523	pseudogene	NOVEL	None	None	None	None	123966	125423	-1	None	None
5	ZMAT2	ENSG00000146007	ENST00000519913	protein_coding	PUTATIVE	None	26433	159	52	140078265	140084087	1	None	FLJ31121, hSNU23, Snu23
5	ZMAT2	ENSG00000146007	ENST00000274712	protein_coding	KNOWN	CCDS4239	26433	600	199	140079919	140086248	1	None	FLJ31121, hSNU23, Snu23
5	ZMAT2	ENSG00000146007	ENST00000506644	nonsense_mediated_decay	KNOWN	None	26433	390	129	140080049	140085466	1	None	FLJ31121, hSNU23, Snu23
4	KRT19P3	ENSG00000249681	ENST00000507547	processed_pseudogene	KNOWN	None	33424	None	None	110800226	110801053	-1	None	None
4	RNU6-35P	ENSG00000207260	ENST00000384530	snRNA	KNOWN	None	34279	None	None	110913481	110913587	1	RNU6-35	None
7	ZSCAN21	ENSG00000166529	ENST00000292450	protein_coding	KNOWN	CCDS5681	13104	1422	473	99647397	99662659	1	ZNF38	DKFZp434L134, NY-REN-21, Zipro1
7	ZSCAN21	ENSG00000166529	ENST00000456748	protein_coding	NOVEL	None	13104	1353	450	99647397	99662661	1	ZNF38	DKFZp434L134, NY-REN-21, Zipro1
7	ZSCAN21	ENSG00000166529	ENST00000438937	protein_coding	KNOWN	None	13104	543	180	99647417	99655464	1	ZNF38	DKFZp434L134, NY-REN-21, Zipro1
7	ZSCAN21	ENSG00000166529	ENST00000477297	processed_transcript	KNOWN	None	13104	None	None	99654534	99661878	1	ZNF38	DKFZp434L134, NY-REN-21, Zipro1
7	ZSCAN21	ENSG00000166529	ENST00000543588	protein_coding	KNOWN	None	13104	1353	450	99647390	99662661	1	ZNF38	DKFZp434L134, NY-REN-21, Zipro1
4	ZNF718	ENSG00000250312	ENST00000511079	lincRNA	KNOWN	None	26889	None	None	124386	156177	1	None	FLJ90036
4	ZNF718	ENSG00000250312	ENST00000513304	lincRNA	KNOWN	None	26889	None	None	124404	127532	1	None	FLJ90036
4	ZNF718	ENSG00000250312	ENST00000513889	lincRNA	KNOWN	None	26889	None	None	124420	125178	1	None	FLJ90036
4	ZNF718	ENSG00000250312	ENST00000510175	lincRNA	KNOWN	None	26889	None	None	124420	157779	1	None	FLJ90036
4	ZNF718	ENSG00000250312	ENST00000502662	lincRNA	KNOWN	None	26889	None	None	154702	156491	1	None	FLJ90036
4	ZNF718	ENSG00000250312	ENST00000400172	lincRNA	KNOWN	None	26889	None	None	154872	156324	1	None	FLJ90036
20	MCM8	ENSG00000125885	ENST00000378896	protein_coding	KNOWN	CCDS13094	16147	2523	840	5931298	5975852	1	C20orf154	MGC4816, MGC12866, MGC119522, MGC119523, dJ967N21.5, REC
20	MCM8	ENSG00000125885	ENST00000265187	protein_coding	KNOWN	CCDS13095	16147	2475	824	5931577	5975852	1	C20orf154	MGC4816, MGC12866, MGC119522, MGC119523, dJ967N21.5, REC
20	MCM8	ENSG00000125885	ENST00000378883	protein_coding	KNOWN	None	16147	2382	793	5931298	5975827	1	C20orf154	MGC4816, MGC12866, MGC119522, MGC119523, dJ967N21.5, REC
20	MCM8	ENSG00000125885	ENST00000378886	protein_coding	KNOWN	None	16147	2643	880	5931497	5975075	1	C20orf154	MGC4816, MGC12866, MGC119522, MGC119523, dJ967N21.5, REC
2	GAREML	ENSG00000157833	ENST00000401533	protein_coding	KNOWN	CCDS54336	27172	2625	874	26395960	26412532	1	FAM59B	KIAA2038, FLJ00375
2	GAREML	ENSG00000157833	ENST00000407684	protein_coding	NOVEL	CCDS54337	27172	1995	664	26403585	26412513	1	FAM59B	KIAA2038, FLJ00375
2	GAREML	ENSG00000157833	ENST00000496070	processed_transcript	KNOWN	None	27172	None	None	26408101	26410327	1	FAM59B	KIAA2038, FLJ00375
7	TAC1	ENSG00000006128	ENST00000319273	protein_coding	KNOWN	CCDS5649	11517	390	129	97361220	97369784	1	TAC2, NKNA	NPK
7	TAC1	ENSG00000006128	ENST00000350485	protein_coding	KNOWN	CCDS5650	11517	336	111	97361396	97369750	1	TAC2, NKNA	NPK
7	TAC1	ENSG00000006128	ENST00000346867	protein_coding	KNOWN	CCDS5651	11517	345	114	97361396	97369777	1	TAC2, NKNA	NPK
7	TAC1	ENSG00000006128	ENST00000495916	retained_intron	KNOWN	None	11517	None	None	97361473	97362402	1	TAC2, NKNA	NPK
7	TAC1	ENSG00000006128	ENST00000491437	retained_intron	KNOWN	None	11517	None	None	97363266	97369375	1	TAC2, NKNA	NPK
10	None	ENSG00000231569	ENST00000417713	processed_pseudogene	KNOWN	None	None	None	None	89167801	89168015	-1	None	None
13	MTMR6	ENSG00000139505	ENST00000381801	protein_coding	KNOWN	CCDS9313	7453	1866	621	25820339	25862147	-1	None	None
13	MTMR6	ENSG00000139505	ENST00000482345	processed_transcript	KNOWN	None	7453	None	None	25832759	25835946	-1	None	None
13	MTMR6	ENSG00000139505	ENST00000540661	protein_coding	KNOWN	None	7453	1647	548	25802307	25861704	-1	None	None
10	None	ENSG00000222192	ENST00000410260	misc_RNA	NOVEL	None	None	None	None	89322845	89322943	-1	None	None
19	FCAR	ENSG00000186431	ENST00000391726	protein_coding	KNOWN	CCDS42624	3608	540	179	55385704	55401256	1	None	CD89
19	FCAR	ENSG00000186431	ENST00000469767	protein_coding	KNOWN	CCDS46180	3608	720	239	55385736	55400434	1	None	CD89
19	FCAR	ENSG00000186431	ENST00000488066	nonsense_mediated_decay	KNOWN	None	3608	684	227	55385736	55400434	1	None	CD89
19	FCAR	ENSG00000186431	ENST00000472634	processed_transcript	KNOWN	None	3608	None	None	55385736	55401229	1	None	CD89
19	FCAR	ENSG00000186431	ENST00000355524	protein_coding	KNOWN	CCDS12907	3608	864	287	55385736	55401838	1	None	CD89
19	FCAR	ENSG00000186431	ENST00000391725	protein_coding	KNOWN	CCDS42622	3608	798	265	55385741	55401256	1	None	CD89
19	FCAR	ENSG00000186431	ENST00000345937	protein_coding	KNOWN	CCDS12908	3608	576	191	55385741	55401256	1	None	CD89
19	FCAR	ENSG00000186431	ENST00000353758	protein_coding	KNOWN	CCDS12910	3608	537	178	55385746	55401229	1	None	CD89
19	FCAR	ENSG00000186431	ENST00000359272	protein_coding	KNOWN	CCDS12909	3608	828	275	55385746	55401229	1	None	CD89
19	FCAR	ENSG00000186431	ENST00000391723	protein_coding	KNOWN	CCDS42625	3608	630	209	55385746	55401229	1	None	CD89
19	FCAR	ENSG00000186431	ENST00000391724	protein_coding	KNOWN	CCDS42623	3608	762	253	55385746	55401229	1	None	CD89
19	FCAR	ENSG00000186431	ENST00000482092	processed_transcript	KNOWN	None	3608	None	None	55385746	55401229	1	None	CD89
19	FCAR	ENSG00000186431	ENST00000471750	processed_transcript	KNOWN	None	3608	None	None	55385746	55401229	1	None	CD89
10	None	ENSG00000223761	ENST00000446794	lincRNA	KNOWN	None	None	None	None	89351364	89365781	-1	None	None
10	None	ENSG00000225913	ENST00000438082	lincRNA	KNOWN	None	None	None	None	89367742	89419036	1	None	None
10	None	ENSG00000196566	ENST00000354527	antisense	KNOWN	None	None	None	None	89369920	89419760	-1	None	None
16	None	ENSG00000169203	ENST00000550665	protein_coding	PUTATIVE	None	None	1786	594	29496011	29517141	-1	None	None
16	None	ENSG00000169203	ENST00000549733	nonsense_mediated_decay	KNOWN	None	None	207	68	29496954	29506865	-1	None	None
16	None	ENSG00000169203	ENST00000551448	nonsense_mediated_decay	KNOWN	None	None	123	40	29497034	29517137	-1	None	None
16	None	ENSG00000169203	ENST00000552123	nonsense_mediated_decay	KNOWN	None	None	236	77	29497053	29502983	-1	None	None
16	None	ENSG00000169203	ENST00000547235	nonsense_mediated_decay	KNOWN	None	None	74	23	29502824	29516837	-1	None	None
16	None	ENSG00000169203	ENST00000548346	retained_intron	KNOWN	None	None	None	None	29502894	29507220	-1	None	None
16	None	ENSG00000169203	ENST00000550690	nonsense_mediated_decay	KNOWN	None	None	150	49	29503146	29517320	-1	None	None
16	None	ENSG00000169203	ENST00000354563	protein_coding	KNOWN	None	None	2265	754	29495010	29499154	-1	None	None
7	CHCHD3	ENSG00000106554	ENST00000262570	protein_coding	KNOWN	CCDS5828	21906	684	227	132469629	132766842	-1	None	FLJ20420, MINOS3, PPP1R22
7	CHCHD3	ENSG00000106554	ENST00000448878	protein_coding	NOVEL	None	21906	699	232	132469644	132766814	-1	None	FLJ20420, MINOS3, PPP1R22
7	CHCHD3	ENSG00000106554	ENST00000476546	processed_transcript	KNOWN	None	21906	None	None	132469666	132766828	-1	None	FLJ20420, MINOS3, PPP1R22
7	CHCHD3	ENSG00000106554	ENST00000496427	processed_transcript	KNOWN	None	21906	None	None	132470271	132736822	-1	None	FLJ20420, MINOS3, PPP1R22
7	CHCHD3	ENSG00000106554	ENST00000423635	nonsense_mediated_decay	KNOWN	None	21906	726	241	132470286	132766830	-1	None	FLJ20420, MINOS3, PPP1R22
7	CHCHD3	ENSG00000106554	ENST00000466644	retained_intron	KNOWN	None	21906	None	None	132522361	132766817	-1	None	FLJ20420, MINOS3, PPP1R22
7	CHCHD3	ENSG00000106554	ENST00000481152	processed_transcript	KNOWN	None	21906	None	None	132658188	132754994	-1	None	FLJ20420, MINOS3, PPP1R22
7	CHCHD3	ENSG00000106554	ENST00000457942	nonsense_mediated_decay	KNOWN	None	21906	192	63	132720509	132766848	-1	None	FLJ20420, MINOS3, PPP1R22
7	CHCHD3	ENSG00000106554	ENST00000542753	protein_coding	KNOWN	None	21906	417	138	132658359	132766800	-1	None	FLJ20420, MINOS3, PPP1R22
10	None	ENSG00000224251	ENST00000451575	antisense	KNOWN	None	None	None	None	5037680	5039566	1	None	None
10	None	ENSG00000224251	ENST00000440414	antisense	KNOWN	None	None	None	None	5038074	5039572	1	None	None
9	C9orf57	ENSG00000204669	ENST00000377024	protein_coding	KNOWN	CCDS47980	27037	486	161	74666292	74675521	-1	None	None
9	C9orf57	ENSG00000204669	ENST00000424431	protein_coding	KNOWN	None	27037	384	127	74666692	74687733	-1	None	None
17	KIAA0753	ENSG00000198920	ENST00000576281	protein_coding	PUTATIVE	None	29110	390	129	6481468	6498319	-1	None	None
17	KIAA0753	ENSG00000198920	ENST00000361413	protein_coding	KNOWN	CCDS42247	29110	2904	967	6481471	6544247	-1	None	None
17	KIAA0753	ENSG00000198920	ENST00000570790	nonsense_mediated_decay	KNOWN	None	29110	747	248	6482531	6538493	-1	None	None
17	KIAA0753	ENSG00000198920	ENST00000572370	protein_coding	KNOWN	None	29110	2007	668	6482709	6544031	-1	None	None
17	KIAA0753	ENSG00000198920	ENST00000542826	nonsense_mediated_decay	KNOWN	None	29110	137	44	6482974	6524227	-1	None	None
17	KIAA0753	ENSG00000198920	ENST00000575027	processed_transcript	KNOWN	None	29110	None	None	6493127	6510248	-1	None	None
17	KIAA0753	ENSG00000198920	ENST00000572235	nonsense_mediated_decay	KNOWN	None	29110	210	69	6524250	6531602	-1	None	None
17	KIAA0753	ENSG00000198920	ENST00000576823	processed_transcript	PUTATIVE	None	29110	None	None	6527257	6531807	-1	None	None
17	KIAA0753	ENSG00000198920	ENST00000571642	protein_coding	KNOWN	None	29110	262	86	6531893	6543982	-1	None	None
17	KIAA0753	ENSG00000198920	ENST00000573033	protein_coding	KNOWN	None	29110	216	71	6531939	6539748	-1	None	None
17	KIAA0753	ENSG00000198920	ENST00000570455	retained_intron	KNOWN	None	29110	None	None	6538061	6543972	-1	None	None
17	KIAA0753	ENSG00000198920	ENST00000542606	protein_coding	KNOWN	None	29110	2007	668	6482531	6538493	-1	None	None
17	KIAA0753	ENSG00000198920	ENST00000589033	protein_coding	KNOWN	None	29110	1272	423	6482974	6524159	-1	None	None
5	None	ENSG00000271681	ENST00000604356	processed_pseudogene	KNOWN	None	None	None	None	177771844	177772317	1	None	None
9	ASS1	ENSG00000130707	ENST00000352480	protein_coding	KNOWN	CCDS6933	758	1239	412	133320316	133376661	1	ASS	CTLN1
9	ASS1	ENSG00000130707	ENST00000372394	protein_coding	KNOWN	CCDS6933	758	1239	412	133320349	133376661	1	ASS	CTLN1
9	ASS1	ENSG00000130707	ENST00000372393	protein_coding	KNOWN	CCDS6933	758	1239	412	133320375	133376642	1	ASS	CTLN1
9	ASS1	ENSG00000130707	ENST00000422569	protein_coding	KNOWN	None	758	595	197	133320379	133346900	1	ASS	CTLN1
9	ASS1	ENSG00000130707	ENST00000443588	protein_coding	KNOWN	None	758	539	178	133327610	133346901	1	ASS	CTLN1
9	ASS1	ENSG00000130707	ENST00000467695	processed_transcript	KNOWN	None	758	None	None	133333905	133355285	1	ASS	CTLN1
9	ASS1	ENSG00000130707	ENST00000493984	processed_transcript	KNOWN	None	758	None	None	133341861	133364791	1	ASS	CTLN1
9	ASS1	ENSG00000130707	ENST00000492400	processed_transcript	KNOWN	None	758	None	None	133351671	133364816	1	ASS	CTLN1
9	ASS1	ENSG00000130707	ENST00000470849	processed_transcript	KNOWN	None	758	None	None	133351936	133364808	1	ASS	CTLN1
9	ASS1	ENSG00000130707	ENST00000372386	protein_coding	KNOWN	None	758	510	169	133355243	133376565	1	ASS	CTLN1
5	None	ENSG00000253698	ENST00000521803	antisense	KNOWN	None	None	None	None	177777868	177779251	1	None	None
5	RN7SL646P	ENSG00000242341	ENST00000492969	misc_RNA	KNOWN	None	46662	None	None	177804925	177805219	1	None	None
14	TRAJ31	ENSG00000211858	ENST00000390506	TR_J_gene	KNOWN	None	12061	57	18	22979951	22980007	1	None	None
5	None	ENSG00000245688	ENST00000501834	sense_intronic	KNOWN	None	None	None	None	177865682	177870095	-1	None	None
3	TMCC1	ENSG00000172765	ENST00000432054	protein_coding	PUTATIVE	None	29116	990	329	129366635	129407575	-1	None	KIAA0779
3	TMCC1	ENSG00000172765	ENST00000393238	protein_coding	KNOWN	CCDS33855	29116	1962	653	129366635	129599309	-1	None	KIAA0779
3	TMCC1	ENSG00000172765	ENST00000510323	protein_coding	PUTATIVE	None	29116	52	16	129373810	129375569	-1	None	KIAA0779
3	TMCC1	ENSG00000172765	ENST00000505616	protein_coding	PUTATIVE	None	29116	250	82	129390092	129612394	-1	None	KIAA0779
3	TMCC1	ENSG00000172765	ENST00000505924	retained_intron	KNOWN	None	29116	None	None	129546599	129612375	-1	None	KIAA0779
3	TMCC1	ENSG00000172765	ENST00000513411	protein_coding	PUTATIVE	None	29116	18	5	129546862	129585943	-1	None	KIAA0779
3	TMCC1	ENSG00000172765	ENST00000512902	processed_transcript	PUTATIVE	None	29116	None	None	129547294	129612418	-1	None	KIAA0779
3	TMCC1	ENSG00000172765	ENST00000508869	retained_intron	KNOWN	None	29116	None	None	129551601	129612394	-1	None	KIAA0779
3	TMCC1	ENSG00000172765	ENST00000503256	processed_transcript	PUTATIVE	None	29116	None	None	129567186	129587943	-1	None	KIAA0779
3	TMCC1	ENSG00000172765	ENST00000515024	processed_transcript	PUTATIVE	None	29116	None	None	129567189	129612419	-1	None	KIAA0779
3	TMCC1	ENSG00000172765	ENST00000508729	processed_transcript	PUTATIVE	None	29116	None	None	129576091	129612164	-1	None	KIAA0779
3	TMCC1	ENSG00000172765	ENST00000509440	processed_transcript	PUTATIVE	None	29116	None	None	129576203	129611588	-1	None	KIAA0779
3	TMCC1	ENSG00000172765	ENST00000510521	processed_transcript	PUTATIVE	None	29116	None	None	129599152	129612262	-1	None	KIAA0779
3	TMCC1	ENSG00000172765	ENST00000426664	protein_coding	KNOWN	None	29116	1620	539	129366637	129612419	-1	None	KIAA0779
3	TMCC1	ENSG00000172765	ENST00000329333	protein_coding	KNOWN	None	29116	1425	474	129370018	129513259	-1	None	KIAA0779
6	None	ENSG00000216316	ENST00000406333	processed_pseudogene	KNOWN	None	None	None	None	119590298	119590879	-1	None	None
1	NIPAL3	ENSG00000001461	ENST00000374399	protein_coding	KNOWN	CCDS30631	25233	1221	406	24742284	24795797	1	NPAL3	DJ462O23.2
1	NIPAL3	ENSG00000001461	ENST00000003912	protein_coding	KNOWN	None	25233	975	324	24742293	24799466	1	NPAL3	DJ462O23.2
1	NIPAL3	ENSG00000001461	ENST00000488155	processed_transcript	KNOWN	None	25233	None	None	24742302	24746618	1	NPAL3	DJ462O23.2
1	NIPAL3	ENSG00000001461	ENST00000358028	protein_coding	KNOWN	None	25233	681	226	24742303	24781314	1	NPAL3	DJ462O23.2
1	NIPAL3	ENSG00000001461	ENST00000339255	protein_coding	KNOWN	None	25233	1107	368	24742304	24792800	1	NPAL3	DJ462O23.2
1	NIPAL3	ENSG00000001461	ENST00000475663	processed_transcript	KNOWN	None	25233	None	None	24742348	24748600	1	NPAL3	DJ462O23.2
1	NIPAL3	ENSG00000001461	ENST00000432012	protein_coding	KNOWN	None	25233	403	133	24782656	24792868	1	NPAL3	DJ462O23.2
1	NIPAL3	ENSG00000001461	ENST00000428131	protein_coding	KNOWN	None	25233	681	226	24746038	24780587	1	NPAL3	DJ462O23.2
5	RN7SKP70	ENSG00000252464	ENST00000516655	misc_RNA	KNOWN	None	45794	None	None	178046729	178046999	-1	None	None
7	None	ENSG00000237870	ENST00000457033	lincRNA	KNOWN	None	None	None	None	115915660	115926718	-1	None	None
7	None	ENSG00000237870	ENST00000454897	lincRNA	KNOWN	None	None	None	None	115917057	115926705	-1	None	None
7	None	ENSG00000237870	ENST00000420594	lincRNA	KNOWN	None	None	None	None	115917186	115926788	-1	None	None
7	None	ENSG00000237870	ENST00000415502	retained_intron	KNOWN	None	None	None	None	115923895	115926249	-1	None	None
1	ALG14	ENSG00000172339	ENST00000370205	protein_coding	KNOWN	CCDS752	28287	651	216	95448297	95538501	-1	None	MGC19780
1	ALG14	ENSG00000172339	ENST00000507727	processed_transcript	KNOWN	None	28287	None	None	95449106	95492759	-1	None	MGC19780
1	ALG14	ENSG00000172339	ENST00000495856	processed_transcript	KNOWN	None	28287	None	None	95501377	95538430	-1	None	MGC19780
12	CAPRIN2	ENSG00000110888	ENST00000537553	nonsense_mediated_decay	KNOWN	None	21259	523	173	30862486	30906593	-1	C1QDC1	EEG1, FLJ22569, FLJ11391, caprin-2, RNG140
12	CAPRIN2	ENSG00000110888	ENST00000433722	protein_coding	NOVEL	None	21259	2121	706	30862487	30887948	-1	C1QDC1	EEG1, FLJ22569, FLJ11391, caprin-2, RNG140
12	CAPRIN2	ENSG00000110888	ENST00000548676	nonsense_mediated_decay	KNOWN	None	21259	408	135	30862487	30904058	-1	C1QDC1	EEG1, FLJ22569, FLJ11391, caprin-2, RNG140
12	CAPRIN2	ENSG00000110888	ENST00000298892	protein_coding	KNOWN	CCDS8720	21259	3234	1077	30862487	30907448	-1	C1QDC1	EEG1, FLJ22569, FLJ11391, caprin-2, RNG140
12	CAPRIN2	ENSG00000110888	ENST00000454014	nonsense_mediated_decay	KNOWN	None	21259	837	278	30862487	30907448	-1	C1QDC1	EEG1, FLJ22569, FLJ11391, caprin-2, RNG140
12	CAPRIN2	ENSG00000110888	ENST00000395805	protein_coding	PUTATIVE	CCDS55816	21259	2718	905	30862488	30907245	-1	C1QDC1	EEG1, FLJ22569, FLJ11391, caprin-2, RNG140
12	CAPRIN2	ENSG00000110888	ENST00000417045	protein_coding	KNOWN	CCDS41766	21259	2883	960	30863274	30907245	-1	C1QDC1	EEG1, FLJ22569, FLJ11391, caprin-2, RNG140
12	CAPRIN2	ENSG00000110888	ENST00000537108	protein_coding	PUTATIVE	None	21259	2106	701	30869557	30907885	-1	C1QDC1	EEG1, FLJ22569, FLJ11391, caprin-2, RNG140
12	CAPRIN2	ENSG00000110888	ENST00000553026	retained_intron	KNOWN	None	21259	None	None	30881313	30884382	-1	C1QDC1	EEG1, FLJ22569, FLJ11391, caprin-2, RNG140
12	CAPRIN2	ENSG00000110888	ENST00000538387	processed_transcript	KNOWN	None	21259	None	None	30881602	30888081	-1	C1QDC1	EEG1, FLJ22569, FLJ11391, caprin-2, RNG140
12	CAPRIN2	ENSG00000110888	ENST00000534897	processed_transcript	KNOWN	None	21259	None	None	30884404	30907564	-1	C1QDC1	EEG1, FLJ22569, FLJ11391, caprin-2, RNG140
12	CAPRIN2	ENSG00000110888	ENST00000541765	protein_coding	PUTATIVE	None	21259	252	83	30886594	30907873	-1	C1QDC1	EEG1, FLJ22569, FLJ11391, caprin-2, RNG140
12	CAPRIN2	ENSG00000110888	ENST00000543380	protein_coding	PUTATIVE	None	21259	205	67	30886641	30904589	-1	C1QDC1	EEG1, FLJ22569, FLJ11391, caprin-2, RNG140
12	CAPRIN2	ENSG00000110888	ENST00000546129	processed_transcript	KNOWN	None	21259	None	None	30887889	30907758	-1	C1QDC1	EEG1, FLJ22569, FLJ11391, caprin-2, RNG140
12	CAPRIN2	ENSG00000110888	ENST00000542550	protein_coding	PUTATIVE	None	21259	558	185	30887910	30907787	-1	C1QDC1	EEG1, FLJ22569, FLJ11391, caprin-2, RNG140
12	CAPRIN2	ENSG00000110888	ENST00000540436	protein_coding	PUTATIVE	None	21259	380	125	30888088	30907822	-1	C1QDC1	EEG1, FLJ22569, FLJ11391, caprin-2, RNG140
12	CAPRIN2	ENSG00000110888	ENST00000540584	protein_coding	PUTATIVE	None	21259	358	118	30888110	30907794	-1	C1QDC1	EEG1, FLJ22569, FLJ11391, caprin-2, RNG140
12	CAPRIN2	ENSG00000110888	ENST00000251071	protein_coding	KNOWN	None	21259	3384	1127	30862488	30907448	-1	C1QDC1	EEG1, FLJ22569, FLJ11391, caprin-2, RNG140
12	CAPRIN2	ENSG00000110888	ENST00000308433	protein_coding	KNOWN	None	21259	2382	793	30862488	30907448	-1	C1QDC1	EEG1, FLJ22569, FLJ11391, caprin-2, RNG140
6	RNU6-194P	ENSG00000200732	ENST00000363862	snRNA	KNOWN	None	47157	None	None	119648446	119648550	1	None	None
12	IFFO1	ENSG00000010295	ENST00000472558	retained_intron	KNOWN	None	24970	None	None	6648127	6658431	-1	IFFO	HOM-TES-103
12	IFFO1	ENSG00000010295	ENST00000471408	retained_intron	KNOWN	None	24970	None	None	6648127	6659633	-1	IFFO	HOM-TES-103
12	IFFO1	ENSG00000010295	ENST00000465801	protein_coding	PUTATIVE	None	24970	768	255	6648127	6661066	-1	IFFO	HOM-TES-103
12	IFFO1	ENSG00000010295	ENST00000336604	protein_coding	KNOWN	CCDS8550	24970	1689	562	6648694	6665237	-1	IFFO	HOM-TES-103
12	IFFO1	ENSG00000010295	ENST00000487279	nonsense_mediated_decay	KNOWN	None	24970	795	264	6648694	6665237	-1	IFFO	HOM-TES-103
12	IFFO1	ENSG00000010295	ENST00000396840	protein_coding	KNOWN	None	24970	1680	559	6648694	6665237	-1	IFFO	HOM-TES-103
12	IFFO1	ENSG00000010295	ENST00000356896	protein_coding	KNOWN	CCDS41741	24970	1692	563	6648705	6665239	-1	IFFO	HOM-TES-103
12	IFFO1	ENSG00000010295	ENST00000488007	retained_intron	KNOWN	None	24970	None	None	6648743	6665237	-1	IFFO	HOM-TES-103
12	IFFO1	ENSG00000010295	ENST00000396830	retained_intron	KNOWN	None	24970	None	None	6648773	6658279	-1	IFFO	HOM-TES-103
12	IFFO1	ENSG00000010295	ENST00000436152	protein_coding	KNOWN	None	24970	771	256	6647541	6661066	-1	IFFO	HOM-TES-103
8	CNGB3	ENSG00000170289	ENST00000517327	protein_coding	PUTATIVE	None	2153	336	111	87566205	87591434	-1	ACHM3, ACHM1, RMCH	None
8	CNGB3	ENSG00000170289	ENST00000320005	protein_coding	KNOWN	CCDS6244	2153	2430	809	87586163	87755903	-1	ACHM3, ACHM1, RMCH	None
8	CNGB3	ENSG00000170289	ENST00000519777	processed_transcript	KNOWN	None	2153	None	None	87716177	87755837	-1	ACHM3, ACHM1, RMCH	None
6	MIR3144	ENSG00000265725	ENST00000579460	miRNA	KNOWN	None	38331	None	None	120336325	120336403	1	None	hsa-mir-3144
6	RNU6-214P	ENSG00000206857	ENST00000384130	snRNA	KNOWN	None	47177	None	None	120847440	120847546	-1	None	None
11	None	ENSG00000256528	ENST00000538190	pseudogene	KNOWN	None	None	None	None	1687097	1689085	1	None	None
6	GPR115	ENSG00000153294	ENST00000371220	protein_coding	KNOWN	None	19011	2259	752	47653600	47689757	1	None	FLJ38076, PGR18
6	GPR115	ENSG00000153294	ENST00000327753	protein_coding	KNOWN	CCDS4922	19011	2088	695	47666289	47689757	1	None	FLJ38076, PGR18
6	GPR115	ENSG00000153294	ENST00000283303	protein_coding	KNOWN	CCDS4922	19011	2088	695	47666289	47689757	1	None	FLJ38076, PGR18
20	RNU6-994P	ENSG00000222439	ENST00000410507	snRNA	KNOWN	None	47957	None	None	61968691	61968801	1	None	None
19	CLEC17A	ENSG00000187912	ENST00000547437	protein_coding	KNOWN	CCDS46002	34520	921	306	14693896	14721969	1	None	FLJ45910
19	CLEC17A	ENSG00000187912	ENST00000417570	protein_coding	KNOWN	CCDS56087	34520	1137	378	14693935	14721232	1	None	FLJ45910
19	CLEC17A	ENSG00000187912	ENST00000339847	nonsense_mediated_decay	KNOWN	None	34520	798	265	14693935	14721232	1	None	FLJ45910
19	CLEC17A	ENSG00000187912	ENST00000551730	nonsense_mediated_decay	KNOWN	None	34520	684	227	14693935	14721232	1	None	FLJ45910
19	CLEC17A	ENSG00000187912	ENST00000397439	protein_coding	KNOWN	None	34520	870	289	14693896	14721951	1	None	FLJ45910
4	RN7SL275P	ENSG00000263940	ENST00000582762	misc_RNA	KNOWN	None	46291	None	None	111038892	111039203	1	None	None
11	FAM99B	ENSG00000205865	ENST00000382166	antisense	KNOWN	None	32369	None	None	1704499	1706859	-1	None	DKFZp781M09150
4	None	ENSG00000248200	ENST00000511559	processed_pseudogene	KNOWN	None	None	None	None	111067530	111068404	1	None	None
19	SHISA7	ENSG00000187902	ENST00000376325	protein_coding	KNOWN	CCDS46193	35409	1617	538	55940107	55954230	-1	None	None
19	SHISA7	ENSG00000187902	ENST00000416792	protein_coding	NOVEL	None	35409	461	152	55943343	55953704	-1	None	None
19	RN7SL84P	ENSG00000266223	ENST00000578969	misc_RNA	KNOWN	None	46100	None	None	4208220	4208530	1	None	None
11	None	ENSG00000227306	ENST00000436539	lincRNA	KNOWN	None	None	None	None	1709527	1710286	1	None	None
10	RN7SL453P	ENSG00000264710	ENST00000582987	misc_RNA	KNOWN	None	46469	None	None	47382464	47382747	-1	None	None
3	IMPG2	ENSG00000081148	ENST00000193391	protein_coding	KNOWN	CCDS2940	18362	3726	1241	100941390	101039404	-1	None	IPM200
6	TRDN	ENSG00000186439	ENST00000334268	protein_coding	KNOWN	None	12261	2166	721	123537484	123958238	-1	None	None
6	TRDN	ENSG00000186439	ENST00000361029	protein_coding	KNOWN	None	12261	455	150	123819334	123837351	-1	None	None
6	TRDN	ENSG00000186439	ENST00000359698	protein_coding	KNOWN	None	12261	80	25	123849733	123851710	-1	None	None
6	TRDN	ENSG00000186439	ENST00000422596	protein_coding	KNOWN	None	12261	134	43	123849859	123851710	-1	None	None
6	TRDN	ENSG00000186439	ENST00000398178	protein_coding	KNOWN	CCDS55053	12261	2190	729	123537483	123957942	-1	None	None
6	TRDN	ENSG00000186439	ENST00000546248	protein_coding	KNOWN	CCDS59034	12261	894	297	123785398	123958054	-1	None	None
6	TRDN	ENSG00000186439	ENST00000542443	protein_coding	KNOWN	CCDS59035	12261	504	167	123849828	123958117	-1	None	None
4	HSBP1P2	ENSG00000166530	ENST00000299671	processed_pseudogene	KNOWN	None	37300	None	None	111173027	111173255	-1	None	None
4	HSBP1P2	ENSG00000166530	ENST00000597019	processed_pseudogene	KNOWN	None	37300	None	None	111173028	111173255	-1	None	None
19	None	ENSG00000269425	ENST00000598582	antisense	KNOWN	None	None	None	None	4339574	4343488	1	None	None
19	None	ENSG00000269392	ENST00000597049	antisense	KNOWN	None	None	None	None	50869137	50872588	-1	None	None
8	C8orf56	ENSG00000236939	ENST00000436771	protein_coding	KNOWN	None	28595	318	105	104145191	104153570	-1	None	MGC39526
8	C8orf56	ENSG00000236939	ENST00000521246	protein_coding	KNOWN	None	28595	318	105	104145194	104153703	-1	None	MGC39526
7	None	ENSG00000216076	ENST00000401257	miRNA	NOVEL	None	None	None	None	115985909	115985998	-1	None	None
10	RHEBP2	ENSG00000226964	ENST00000450289	processed_pseudogene	KNOWN	None	44991	None	None	47396223	47396822	1	None	None
6	ATAT1	ENSG00000137343	ENST00000318999	protein_coding	KNOWN	None	21186	903	300	30594619	30612456	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
6	ATAT1	ENSG00000137343	ENST00000376485	protein_coding	KNOWN	None	21186	1266	421	30594633	30614600	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
6	ATAT1	ENSG00000137343	ENST00000319027	protein_coding	KNOWN	CCDS59002	21186	933	310	30594652	30612456	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
6	ATAT1	ENSG00000137343	ENST00000376483	protein_coding	KNOWN	None	21186	972	323	30594653	30612456	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
6	ATAT1	ENSG00000137343	ENST00000329992	protein_coding	KNOWN	CCDS4683	21186	1002	333	30594663	30612456	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
6	ATAT1	ENSG00000137343	ENST00000330083	protein_coding	KNOWN	CCDS54978	21186	1230	409	30594663	30614600	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
6	ATAT1	ENSG00000137343	ENST00000468713	processed_transcript	KNOWN	None	21186	None	None	30594670	30614600	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
6	ATAT1	ENSG00000137343	ENST00000493388	retained_intron	KNOWN	None	21186	None	None	30594692	30608475	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
6	ATAT1	ENSG00000137343	ENST00000471782	retained_intron	KNOWN	None	21186	None	None	30594697	30614600	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
6	ATAT1	ENSG00000137343	ENST00000462304	processed_transcript	KNOWN	None	21186	None	None	30596177	30614179	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
6	ATAT1	ENSG00000137343	ENST00000479562	retained_intron	KNOWN	None	21186	None	None	30609599	30614600	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
6	ATAT1	ENSG00000137343	ENST00000376478	protein_coding	KNOWN	None	21186	1197	398	30594633	30614579	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
11	None	ENSG00000235027	ENST00000449248	antisense	KNOWN	None	None	None	None	1781578	1783716	1	None	None
4	None	ENSG00000250594	ENST00000503770	processed_pseudogene	KNOWN	None	None	None	None	111186021	111186173	-1	None	None
14	TRAJ30	ENSG00000211859	ENST00000390507	TR_J_gene	KNOWN	None	12060	57	18	22981834	22981890	1	None	None
4	RNU6-205P	ENSG00000212160	ENST00000390858	snRNA	KNOWN	None	47168	None	None	111199341	111199447	1	None	None
7	None	ENSG00000252672	ENST00000516863	snoRNA	NOVEL	None	None	None	None	116073268	116073354	1	None	None
10	None	ENSG00000226667	ENST00000418196	lincRNA	KNOWN	None	None	None	None	47570513	47573872	-1	None	None
4	ZBED1P1	ENSG00000250304	ENST00000502364	processed_pseudogene	KNOWN	None	44004	None	None	111212800	111214729	1	None	None
7	None	ENSG00000235427	ENST00000452009	antisense	KNOWN	None	None	None	None	116182772	116192023	-1	None	None
19	MIA	ENSG00000261857	ENST00000597600	protein_coding	KNOWN	None	7076	137	44	41277553	41281666	1	None	CD-RAP
19	MIA	ENSG00000261857	ENST00000594436	protein_coding	KNOWN	CCDS12566	7076	396	131	41281082	41283395	1	None	CD-RAP
19	MIA	ENSG00000261857	ENST00000597784	protein_coding	KNOWN	CCDS12566	7076	396	131	41281169	41283332	1	None	CD-RAP
19	MIA	ENSG00000261857	ENST00000263369	protein_coding	KNOWN	CCDS12566	7076	396	131	41281282	41283395	1	None	CD-RAP
19	MIA	ENSG00000261857	ENST00000597140	protein_coding	PUTATIVE	None	7076	287	94	41281452	41283395	1	None	CD-RAP
19	MIA	ENSG00000261857	ENST00000601159	nonsense_mediated_decay	KNOWN	None	7076	176	57	41281455	41283395	1	None	CD-RAP
19	MIA	ENSG00000261857	ENST00000593317	retained_intron	KNOWN	None	7076	None	None	41282699	41283395	1	None	CD-RAP
4	RPL7L1P13	ENSG00000251464	ENST00000511702	processed_pseudogene	KNOWN	None	44212	None	None	111320929	111321667	-1	None	None
11	COPB1	ENSG00000129083	ENST00000532088	processed_transcript	PUTATIVE	None	2231	None	None	14464986	14479432	-1	COPB	None
11	COPB1	ENSG00000129083	ENST00000525214	processed_transcript	KNOWN	None	2231	None	None	14473381	14482768	-1	COPB	None
11	COPB1	ENSG00000129083	ENST00000249923	protein_coding	KNOWN	CCDS7815	2231	2862	953	14479052	14521398	-1	COPB	None
11	COPB1	ENSG00000129083	ENST00000439561	protein_coding	KNOWN	CCDS7815	2231	2862	953	14479096	14521441	-1	COPB	None
11	COPB1	ENSG00000129083	ENST00000526527	processed_transcript	PUTATIVE	None	2231	None	None	14481562	14482887	-1	COPB	None
11	COPB1	ENSG00000129083	ENST00000526191	processed_transcript	PUTATIVE	None	2231	None	None	14495556	14497421	-1	COPB	None
11	COPB1	ENSG00000129083	ENST00000534234	protein_coding	NOVEL	None	2231	1457	484	14498463	14521357	-1	COPB	None
11	COPB1	ENSG00000129083	ENST00000529866	protein_coding	PUTATIVE	None	2231	412	136	14515267	14521408	-1	COPB	None
11	COPB1	ENSG00000129083	ENST00000534771	protein_coding	NOVEL	None	2231	396	131	14515283	14521573	-1	COPB	None
11	COPB1	ENSG00000129083	ENST00000533096	processed_transcript	KNOWN	None	2231	None	None	14515806	14521212	-1	COPB	None
11	COPB1	ENSG00000129083	ENST00000533533	processed_transcript	KNOWN	None	2231	None	None	14515856	14521356	-1	COPB	None
11	COPB1	ENSG00000129083	ENST00000529210	processed_transcript	KNOWN	None	2231	None	None	14515863	14521392	-1	COPB	None
17	SP6	ENSG00000189120	ENST00000342234	protein_coding	KNOWN	CCDS11520	14530	1131	376	45922279	45933240	-1	None	KLF14, Epfn
17	SP6	ENSG00000189120	ENST00000536300	protein_coding	KNOWN	CCDS11520	14530	1131	376	45922280	45928559	-1	None	KLF14, Epfn
11	None	ENSG00000229512	ENST00000446489	sense_intronic	KNOWN	None	None	None	None	1784239	1784979	-1	None	None
4	ZNF969P	ENSG00000251046	ENST00000510345	processed_pseudogene	KNOWN	None	44211	None	None	111337054	111339660	1	None	None
6	BAI3	ENSG00000135298	ENST00000370598	protein_coding	KNOWN	CCDS4968	945	4569	1522	69345259	70099403	1	None	KIAA0550
6	BAI3	ENSG00000135298	ENST00000238918	protein_coding	PUTATIVE	None	945	2187	728	69942298	70099397	1	None	KIAA0550
6	BAI3	ENSG00000135298	ENST00000604969	protein_coding	PUTATIVE	None	945	204	67	69942926	69949118	1	None	KIAA0550
6	BAI3	ENSG00000135298	ENST00000603207	protein_coding	PUTATIVE	None	945	437	144	69942926	70034834	1	None	KIAA0550
6	BAI3	ENSG00000135298	ENST00000546190	protein_coding	KNOWN	None	945	1461	486	70041760	70099109	1	None	KIAA0550
18	ADNP2	ENSG00000101544	ENST00000262198	protein_coding	KNOWN	CCDS32853	23803	3396	1131	77866915	77898234	1	ZNF508	KIAA0863
18	ADNP2	ENSG00000101544	ENST00000560752	protein_coding	NOVEL	None	23803	687	228	77867177	77894049	1	ZNF508	KIAA0863
18	ADNP2	ENSG00000101544	ENST00000559951	protein_coding	KNOWN	None	23803	514	170	77867610	77893810	1	ZNF508	KIAA0863
18	ADNP2	ENSG00000101544	ENST00000560561	protein_coding	PUTATIVE	None	23803	247	81	77875491	77893893	1	ZNF508	KIAA0863
18	ADNP2	ENSG00000101544	ENST00000561195	protein_coding	PUTATIVE	None	23803	80	25	77875499	77905406	1	ZNF508	KIAA0863
5	None	ENSG00000253980	ENST00000519375	antisense	KNOWN	None	None	None	None	156626253	156651390	-1	None	None
7	None	ENSG00000243220	ENST00000421965	antisense	KNOWN	None	None	None	None	116203648	116211288	-1	None	None
4	None	ENSG00000199894	ENST00000363024	snoRNA	NOVEL	None	None	None	None	111354265	111354344	-1	None	None
3	GPR156	ENSG00000175697	ENST00000495912	nonsense_mediated_decay	KNOWN	None	20844	237	78	119883492	119962967	-1	None	PGR28, GABABL
3	GPR156	ENSG00000175697	ENST00000464295	protein_coding	KNOWN	CCDS2997	20844	2445	814	119884328	120003941	-1	None	PGR28, GABABL
3	GPR156	ENSG00000175697	ENST00000461057	protein_coding	NOVEL	CCDS54629	20844	2433	810	119885805	119962963	-1	None	PGR28, GABABL
3	GPR156	ENSG00000175697	ENST00000481907	retained_intron	KNOWN	None	20844	None	None	119961707	120003921	-1	None	PGR28, GABABL
3	GPR156	ENSG00000175697	ENST00000315843	protein_coding	KNOWN	CCDS2997	20844	2445	814	119884328	119963142	-1	None	PGR28, GABABL
1	TMEM56	ENSG00000152078	ENST00000370203	protein_coding	NOVEL	CCDS753	26477	792	263	95582894	95663163	1	None	FLJ31842
1	TMEM56	ENSG00000152078	ENST00000456991	protein_coding	KNOWN	None	26477	462	153	95582995	95639434	1	None	FLJ31842
1	TMEM56	ENSG00000152078	ENST00000455656	protein_coding	KNOWN	None	26477	429	142	95583479	95639401	1	None	FLJ31842
1	TMEM56	ENSG00000152078	ENST00000463375	processed_transcript	KNOWN	None	26477	None	None	95606228	95615785	1	None	FLJ31842
7	GBX1	ENSG00000164900	ENST00000297537	protein_coding	KNOWN	CCDS43682	4185	1092	363	150845676	150864635	-1	None	None
7	GBX1	ENSG00000164900	ENST00000475831	processed_transcript	KNOWN	None	4185	None	None	150846864	150871832	-1	None	None
11	None	ENSG00000265587	ENST00000580120	miRNA	NOVEL	None	None	None	None	1785161	1785255	1	None	None
7	WIPI2	ENSG00000157954	ENST00000288828	protein_coding	KNOWN	CCDS5339	32225	1365	454	5229819	5273457	1	None	Atg21, CGI-50, FLJ12979, FLJ14217, FLJ42984, DKFZP434J154, DKFZp686P02188, ATG18B
7	WIPI2	ENSG00000157954	ENST00000401525	protein_coding	KNOWN	CCDS34593	32225	1311	436	5229827	5271155	1	None	Atg21, CGI-50, FLJ12979, FLJ14217, FLJ42984, DKFZP434J154, DKFZp686P02188, ATG18B
7	WIPI2	ENSG00000157954	ENST00000404704	protein_coding	KNOWN	CCDS47531	32225	1332	443	5229877	5270735	1	None	Atg21, CGI-50, FLJ12979, FLJ14217, FLJ42984, DKFZP434J154, DKFZp686P02188, ATG18B
7	WIPI2	ENSG00000157954	ENST00000466014	retained_intron	KNOWN	None	32225	None	None	5229890	5270578	1	None	Atg21, CGI-50, FLJ12979, FLJ14217, FLJ42984, DKFZP434J154, DKFZp686P02188, ATG18B
7	WIPI2	ENSG00000157954	ENST00000485854	processed_transcript	KNOWN	None	32225	None	None	5229896	5254333	1	None	Atg21, CGI-50, FLJ12979, FLJ14217, FLJ42984, DKFZP434J154, DKFZp686P02188, ATG18B
7	WIPI2	ENSG00000157954	ENST00000382384	protein_coding	KNOWN	CCDS47532	32225	1278	425	5229904	5271101	1	None	Atg21, CGI-50, FLJ12979, FLJ14217, FLJ42984, DKFZP434J154, DKFZp686P02188, ATG18B
7	WIPI2	ENSG00000157954	ENST00000496867	processed_transcript	KNOWN	None	32225	None	None	5230324	5257644	1	None	Atg21, CGI-50, FLJ12979, FLJ14217, FLJ42984, DKFZP434J154, DKFZp686P02188, ATG18B
7	WIPI2	ENSG00000157954	ENST00000475309	retained_intron	KNOWN	None	32225	None	None	5253817	5258662	1	None	Atg21, CGI-50, FLJ12979, FLJ14217, FLJ42984, DKFZP434J154, DKFZp686P02188, ATG18B
7	WIPI2	ENSG00000157954	ENST00000484262	protein_coding	KNOWN	CCDS47533	32225	1155	384	5253900	5270695	1	None	Atg21, CGI-50, FLJ12979, FLJ14217, FLJ42984, DKFZP434J154, DKFZp686P02188, ATG18B
7	WIPI2	ENSG00000157954	ENST00000465102	retained_intron	KNOWN	None	32225	None	None	5254192	5262443	1	None	Atg21, CGI-50, FLJ12979, FLJ14217, FLJ42984, DKFZP434J154, DKFZp686P02188, ATG18B
7	WIPI2	ENSG00000157954	ENST00000480238	processed_transcript	KNOWN	None	32225	None	None	5255803	5265485	1	None	Atg21, CGI-50, FLJ12979, FLJ14217, FLJ42984, DKFZP434J154, DKFZp686P02188, ATG18B
7	WIPI2	ENSG00000157954	ENST00000488359	processed_transcript	KNOWN	None	32225	None	None	5256222	5265609	1	None	Atg21, CGI-50, FLJ12979, FLJ14217, FLJ42984, DKFZP434J154, DKFZp686P02188, ATG18B
7	WIPI2	ENSG00000157954	ENST00000471851	retained_intron	KNOWN	None	32225	None	None	5265581	5271354	1	None	Atg21, CGI-50, FLJ12979, FLJ14217, FLJ42984, DKFZP434J154, DKFZp686P02188, ATG18B
7	WIPI2	ENSG00000157954	ENST00000479690	retained_intron	KNOWN	None	32225	None	None	5269039	5270958	1	None	Atg21, CGI-50, FLJ12979, FLJ14217, FLJ42984, DKFZP434J154, DKFZp686P02188, ATG18B
3	SRGAP3	ENSG00000196220	ENST00000383836	protein_coding	KNOWN	CCDS2572	19744	3300	1099	9022275	9291063	-1	SRGAP2	KIAA0411, MEGAP, WRP, ARHGAP14
3	SRGAP3	ENSG00000196220	ENST00000360413	protein_coding	KNOWN	CCDS33689	19744	3228	1075	9022278	9290897	-1	SRGAP2	KIAA0411, MEGAP, WRP, ARHGAP14
3	SRGAP3	ENSG00000196220	ENST00000491467	retained_intron	KNOWN	None	19744	None	None	9034312	9036138	-1	SRGAP2	KIAA0411, MEGAP, WRP, ARHGAP14
3	SRGAP3	ENSG00000196220	ENST00000520860	processed_transcript	KNOWN	None	19744	None	None	9035643	9052058	-1	SRGAP2	KIAA0411, MEGAP, WRP, ARHGAP14
3	SRGAP3	ENSG00000196220	ENST00000518265	processed_transcript	KNOWN	None	19744	None	None	9048647	9055526	-1	SRGAP2	KIAA0411, MEGAP, WRP, ARHGAP14
3	SRGAP3	ENSG00000196220	ENST00000475560	processed_transcript	KNOWN	None	19744	None	None	9055104	9091038	-1	SRGAP2	KIAA0411, MEGAP, WRP, ARHGAP14
3	SRGAP3	ENSG00000196220	ENST00000433332	processed_transcript	KNOWN	None	19744	None	None	9056426	9258444	-1	SRGAP2	KIAA0411, MEGAP, WRP, ARHGAP14
3	SRGAP3	ENSG00000196220	ENST00000485983	retained_intron	KNOWN	None	19744	None	None	9075115	9122971	-1	SRGAP2	KIAA0411, MEGAP, WRP, ARHGAP14
3	SRGAP3	ENSG00000196220	ENST00000470951	retained_intron	KNOWN	None	19744	None	None	9100422	9290675	-1	SRGAP2	KIAA0411, MEGAP, WRP, ARHGAP14
3	SRGAP3	ENSG00000196220	ENST00000480750	processed_transcript	KNOWN	None	19744	None	None	9101915	9107214	-1	SRGAP2	KIAA0411, MEGAP, WRP, ARHGAP14
3	SRGAP3	ENSG00000196220	ENST00000490889	processed_transcript	KNOWN	None	19744	None	None	9166422	9404737	-1	SRGAP2	KIAA0411, MEGAP, WRP, ARHGAP14
3	SRGAP3	ENSG00000196220	ENST00000490348	processed_transcript	KNOWN	None	19744	None	None	9277206	9291369	-1	SRGAP2	KIAA0411, MEGAP, WRP, ARHGAP14
6	RNA5SP215	ENSG00000200310	ENST00000363440	rRNA	KNOWN	None	43115	None	None	121007767	121007888	1	RN5S215	None
11	None	ENSG00000230834	ENST00000449749	lincRNA	KNOWN	None	None	None	None	1798160	1799618	-1	None	None
22	AIFM3	ENSG00000183773	ENST00000399167	protein_coding	KNOWN	CCDS13786	26398	1818	605	21319396	21335649	1	None	AIFL, FLJ30473
22	AIFM3	ENSG00000183773	ENST00000399163	protein_coding	KNOWN	CCDS33605	26398	1797	598	21319451	21335647	1	None	AIFL, FLJ30473
22	AIFM3	ENSG00000183773	ENST00000417515	nonsense_mediated_decay	KNOWN	None	26398	366	121	21319455	21329103	1	None	AIFL, FLJ30473
22	AIFM3	ENSG00000183773	ENST00000467926	retained_intron	KNOWN	None	26398	None	None	21319460	21327934	1	None	AIFL, FLJ30473
22	AIFM3	ENSG00000183773	ENST00000441376	protein_coding	KNOWN	None	26398	389	128	21319460	21328385	1	None	AIFL, FLJ30473
22	AIFM3	ENSG00000183773	ENST00000479523	retained_intron	KNOWN	None	26398	None	None	21319465	21321324	1	None	AIFL, FLJ30473
22	AIFM3	ENSG00000183773	ENST00000472575	retained_intron	KNOWN	None	26398	None	None	21319465	21327908	1	None	AIFL, FLJ30473
22	AIFM3	ENSG00000183773	ENST00000495869	retained_intron	KNOWN	None	26398	None	None	21319556	21321086	1	None	AIFL, FLJ30473
22	AIFM3	ENSG00000183773	ENST00000434714	protein_coding	KNOWN	None	26398	809	268	21321447	21330505	1	None	AIFL, FLJ30473
22	AIFM3	ENSG00000183773	ENST00000426113	nonsense_mediated_decay	KNOWN	None	26398	225	74	21321536	21328385	1	None	AIFL, FLJ30473
22	AIFM3	ENSG00000183773	ENST00000468124	processed_transcript	KNOWN	None	26398	None	None	21321537	21328586	1	None	AIFL, FLJ30473
22	AIFM3	ENSG00000183773	ENST00000484206	retained_intron	KNOWN	None	26398	None	None	21321543	21327967	1	None	AIFL, FLJ30473
22	AIFM3	ENSG00000183773	ENST00000405089	protein_coding	KNOWN	CCDS54503	26398	1815	604	21321543	21335649	1	None	AIFL, FLJ30473
22	AIFM3	ENSG00000183773	ENST00000496097	processed_transcript	KNOWN	None	26398	None	None	21321551	21328556	1	None	AIFL, FLJ30473
22	AIFM3	ENSG00000183773	ENST00000465606	processed_transcript	KNOWN	None	26398	None	None	21328802	21335637	1	None	AIFL, FLJ30473
22	AIFM3	ENSG00000183773	ENST00000483107	processed_transcript	KNOWN	None	26398	None	None	21329981	21335645	1	None	AIFL, FLJ30473
22	AIFM3	ENSG00000183773	ENST00000486003	retained_intron	KNOWN	None	26398	None	None	21331162	21335644	1	None	AIFL, FLJ30473
22	AIFM3	ENSG00000183773	ENST00000335375	protein_coding	KNOWN	None	26398	1761	586	21321551	21335609	1	None	AIFL, FLJ30473
22	AIFM3	ENSG00000183773	ENST00000440238	protein_coding	KNOWN	CCDS13786	26398	1818	605	21322090	21335610	1	None	AIFL, FLJ30473
22	AIFM3	ENSG00000183773	ENST00000333607	protein_coding	KNOWN	CCDS33605	26398	1797	598	21322090	21335610	1	None	AIFL, FLJ30473
6	COX6A1P3	ENSG00000216710	ENST00000404167	processed_pseudogene	KNOWN	None	37633	None	None	121102366	121102658	1	None	None
6	RNU6-1286P	ENSG00000206598	ENST00000383871	snRNA	KNOWN	None	48249	None	None	121675500	121675606	1	None	None
19	RN7SL324P	ENSG00000264213	ENST00000577945	misc_RNA	KNOWN	None	46340	None	None	50900510	50900775	1	None	None
1	SELP	ENSG00000174175	ENST00000426706	protein_coding	NOVEL	None	10721	2370	789	169558087	169588457	-1	GRMP	CD62, PSEL, PADGEM, GMP140, CD62P
1	SELP	ENSG00000174175	ENST00000263686	protein_coding	KNOWN	CCDS1282	10721	2493	830	169558090	169599350	-1	GRMP	CD62, PSEL, PADGEM, GMP140, CD62P
1	SELP	ENSG00000174175	ENST00000466167	retained_intron	KNOWN	None	10721	None	None	169558315	169560808	-1	GRMP	CD62, PSEL, PADGEM, GMP140, CD62P
1	SELP	ENSG00000174175	ENST00000367786	protein_coding	PUTATIVE	None	10721	2307	768	169558752	169599314	-1	GRMP	CD62, PSEL, PADGEM, GMP140, CD62P
1	SELP	ENSG00000174175	ENST00000458599	protein_coding	NOVEL	None	10721	1941	646	169559385	169599315	-1	GRMP	CD62, PSEL, PADGEM, GMP140, CD62P
1	SELP	ENSG00000174175	ENST00000367788	protein_coding	NOVEL	None	10721	2307	768	169559385	169599431	-1	GRMP	CD62, PSEL, PADGEM, GMP140, CD62P
1	SELP	ENSG00000174175	ENST00000367795	protein_coding	NOVEL	None	10721	1333	443	169572264	169599324	-1	GRMP	CD62, PSEL, PADGEM, GMP140, CD62P
1	SELP	ENSG00000174175	ENST00000367793	protein_coding	KNOWN	None	10721	2307	768	169558090	169599377	-1	GRMP	CD62, PSEL, PADGEM, GMP140, CD62P
1	SELP	ENSG00000174175	ENST00000367794	protein_coding	KNOWN	None	10721	2307	768	169558090	169599377	-1	GRMP	CD62, PSEL, PADGEM, GMP140, CD62P
1	SELP	ENSG00000174175	ENST00000367792	protein_coding	KNOWN	None	10721	1941	646	169558090	169599377	-1	GRMP	CD62, PSEL, PADGEM, GMP140, CD62P
1	SELP	ENSG00000174175	ENST00000367791	protein_coding	KNOWN	None	10721	1935	644	169558090	169599377	-1	GRMP	CD62, PSEL, PADGEM, GMP140, CD62P
6	None	ENSG00000207403	ENST00000384672	misc_RNA	NOVEL	None	None	None	None	121699943	121700044	-1	None	None
19	None	ENSG00000268854	ENST00000598194	antisense	KNOWN	None	None	None	None	50983376	50986608	-1	None	None
6	None	ENSG00000220447	ENST00000407291	processed_pseudogene	KNOWN	None	None	None	None	121702618	121703006	1	None	None
16	None	ENSG00000260862	ENST00000567359	sense_intronic	KNOWN	None	None	None	None	82806924	82863243	1	None	None
19	None	ENSG00000268518	ENST00000595005	lincRNA	KNOWN	None	None	None	None	50990067	50990895	-1	None	None
7	None	ENSG00000231210	ENST00000450063	lincRNA	KNOWN	None	None	None	None	116211014	116213798	-1	None	None
7	None	ENSG00000231210	ENST00000441991	lincRNA	KNOWN	None	None	None	None	116211206	116254737	-1	None	None
7	None	ENSG00000231210	ENST00000458082	lincRNA	KNOWN	None	None	None	None	116213539	116254874	-1	None	None
8	BAALC	ENSG00000164929	ENST00000309982	protein_coding	KNOWN	CCDS6297	14333	438	145	104152938	104242532	1	None	None
8	BAALC	ENSG00000164929	ENST00000438105	protein_coding	KNOWN	CCDS47906	14333	165	54	104152941	104242533	1	None	None
8	BAALC	ENSG00000164929	ENST00000297574	protein_coding	KNOWN	None	14333	543	180	104152987	104240446	1	None	None
8	BAALC	ENSG00000164929	ENST00000306391	protein_coding	PUTATIVE	None	14333	243	80	104153126	104195677	1	None	None
8	BAALC	ENSG00000164929	ENST00000330955	protein_coding	PUTATIVE	None	14333	222	73	104153126	104210388	1	None	None
8	BAALC	ENSG00000164929	ENST00000519507	processed_transcript	KNOWN	None	14333	None	None	104165367	104240360	1	None	None
8	BAALC	ENSG00000164929	ENST00000517863	processed_transcript	KNOWN	None	14333	None	None	104220420	104227231	1	None	None
8	BAALC	ENSG00000164929	ENST00000523754	processed_transcript	KNOWN	None	14333	None	None	104225559	104241373	1	None	None
8	BAALC	ENSG00000164929	ENST00000521926	processed_transcript	KNOWN	None	14333	None	None	104225639	104240394	1	None	None
6	None	ENSG00000234024	ENST00000450059	lincRNA	KNOWN	None	None	None	None	121711036	121712027	1	None	None
20	None	ENSG00000203900	ENST00000370257	processed_transcript	KNOWN	None	None	None	None	61991340	62002529	1	None	None
20	None	ENSG00000203900	ENST00000428531	processed_transcript	KNOWN	None	None	None	None	62000234	62002524	1	None	None
6	RNU4-35P	ENSG00000199458	ENST00000362588	snRNA	KNOWN	None	46971	None	None	121775127	121775267	-1	None	None
19	None	ENSG00000268231	ENST00000596350	sense_intronic	KNOWN	None	None	None	None	51058627	51061226	-1	None	None
3	ACKR5	ENSG00000121797	ENST00000399036	protein_coding	KNOWN	CCDS43079	1612	1035	344	46448654	46451014	1	None	HCR, CRAM-B, CKRX, CRAM-A, ACKR5
3	ACKR5	ENSG00000121797	ENST00000495870	processed_transcript	PUTATIVE	None	1612	None	None	46448657	46449453	1	None	HCR, CRAM-B, CKRX, CRAM-A, ACKR5
3	ACKR5	ENSG00000121797	ENST00000357392	protein_coding	KNOWN	CCDS46814	1612	1071	356	46449049	46451014	1	None	HCR, CRAM-B, CKRX, CRAM-A, ACKR5
3	ACKR5	ENSG00000121797	ENST00000400880	protein_coding	KNOWN	CCDS43079	1612	1035	344	46449074	46450605	1	None	HCR, CRAM-B, CKRX, CRAM-A, ACKR5
3	ACKR5	ENSG00000121797	ENST00000433848	protein_coding	KNOWN	None	1612	652	216	46449110	46450222	1	None	HCR, CRAM-B, CKRX, CRAM-A, ACKR5
3	ACKR5	ENSG00000121797	ENST00000400882	protein_coding	KNOWN	CCDS43079	1612	1035	344	46449372	46451013	1	None	HCR, CRAM-B, CKRX, CRAM-A, ACKR5
3	ACKR5	ENSG00000121797	ENST00000441909	processed_transcript	KNOWN	None	1612	None	None	46451005	46454488	1	None	HCR, CRAM-B, CKRX, CRAM-A, ACKR5
8	TMEM71	ENSG00000165071	ENST00000524079	processed_transcript	KNOWN	None	26572	None	None	133697253	133714485	-1	None	FLJ33069
8	TMEM71	ENSG00000165071	ENST00000522780	protein_coding	PUTATIVE	None	26572	302	99	133697253	133740232	-1	None	FLJ33069
8	TMEM71	ENSG00000165071	ENST00000523829	protein_coding	PUTATIVE	None	26572	942	313	133722194	133772807	-1	None	FLJ33069
8	TMEM71	ENSG00000165071	ENST00000356838	protein_coding	KNOWN	CCDS6366	26572	831	276	133722194	133772828	-1	None	FLJ33069
8	TMEM71	ENSG00000165071	ENST00000377901	protein_coding	KNOWN	CCDS47921	26572	699	232	133722194	133772828	-1	None	FLJ33069
8	TMEM71	ENSG00000165071	ENST00000522334	protein_coding	PUTATIVE	None	26572	190	62	133759194	133772876	-1	None	FLJ33069
8	TMEM71	ENSG00000165071	ENST00000519016	protein_coding	PUTATIVE	None	26572	124	40	133759260	133772876	-1	None	FLJ33069
8	TMEM71	ENSG00000165071	ENST00000517538	processed_transcript	KNOWN	None	26572	None	None	133759290	133772822	-1	None	FLJ33069
8	TMEM71	ENSG00000165071	ENST00000519187	protein_coding	KNOWN	None	26572	297	98	133764048	133772794	-1	None	FLJ33069
8	TMEM71	ENSG00000165071	ENST00000519304	protein_coding	KNOWN	None	26572	275	90	133764070	133772828	-1	None	FLJ33069
8	TMEM71	ENSG00000165071	ENST00000522594	retained_intron	KNOWN	None	26572	None	None	133770620	133772958	-1	None	FLJ33069
11	None	ENSG00000230980	ENST00000445859	processed_pseudogene	KNOWN	None	None	None	None	1813783	1814100	1	None	None
14	C14orf105	ENSG00000100557	ENST00000216445	protein_coding	KNOWN	CCDS9730	20189	891	296	57936019	57960570	-1	None	FLJ10650
14	C14orf105	ENSG00000100557	ENST00000534126	protein_coding	NOVEL	None	20189	888	295	57937973	57960475	-1	None	FLJ10650
14	C14orf105	ENSG00000100557	ENST00000534528	nonsense_mediated_decay	KNOWN	None	20189	225	74	57937973	57960475	-1	None	FLJ10650
14	C14orf105	ENSG00000100557	ENST00000422976	protein_coding	NOVEL	None	20189	1011	336	57937973	57960475	-1	None	FLJ10650
14	C14orf105	ENSG00000100557	ENST00000530417	nonsense_mediated_decay	KNOWN	None	20189	315	104	57937973	57960585	-1	None	FLJ10650
14	C14orf105	ENSG00000100557	ENST00000524996	protein_coding	PUTATIVE	None	20189	410	135	57942032	57948308	-1	None	FLJ10650
14	C14orf105	ENSG00000100557	ENST00000526745	nonsense_mediated_decay	KNOWN	None	20189	315	104	57945321	57960564	-1	None	FLJ10650
14	C14orf105	ENSG00000100557	ENST00000529860	nonsense_mediated_decay	KNOWN	None	20189	225	74	57945497	57960576	-1	None	FLJ10650
14	C14orf105	ENSG00000100557	ENST00000527032	retained_intron	KNOWN	None	20189	None	None	57945635	57949912	-1	None	FLJ10650
14	C14orf105	ENSG00000100557	ENST00000532286	retained_intron	KNOWN	None	20189	None	None	57947441	57950018	-1	None	FLJ10650
14	C14orf105	ENSG00000100557	ENST00000526336	protein_coding	PUTATIVE	None	20189	315	104	57949789	57960564	-1	None	FLJ10650
6	ELOVL4	ENSG00000118402	ENST00000369816	protein_coding	KNOWN	CCDS4992	14415	945	314	80624529	80657297	-1	STGD2, STGD3	CT118
17	SP2	ENSG00000167182	ENST00000376741	protein_coding	KNOWN	CCDS11521	11207	1842	613	45973516	46006323	1	None	KIAA0048
7	WBSCR28	ENSG00000175877	ENST00000320531	protein_coding	KNOWN	CCDS43597	23018	798	265	73275489	73280223	1	None	MGC26719
7	WBSCR28	ENSG00000175877	ENST00000426490	nonsense_mediated_decay	KNOWN	None	23018	183	60	73275502	73280220	1	None	MGC26719
3	PLD1	ENSG00000075651	ENST00000463281	processed_transcript	PUTATIVE	None	9067	None	None	171318195	171320128	-1	None	None
3	PLD1	ENSG00000075651	ENST00000356327	protein_coding	KNOWN	CCDS46957	9067	3111	1036	171318195	171528228	-1	None	None
3	PLD1	ENSG00000075651	ENST00000351298	protein_coding	KNOWN	CCDS3216	9067	3225	1074	171318616	171528284	-1	None	None
3	PLD1	ENSG00000075651	ENST00000446289	protein_coding	PUTATIVE	None	9067	704	233	171329256	171392306	-1	None	None
3	PLD1	ENSG00000075651	ENST00000465816	processed_transcript	KNOWN	None	9067	None	None	171330069	171384095	-1	None	None
3	PLD1	ENSG00000075651	ENST00000467432	retained_intron	KNOWN	None	9067	None	None	171330097	171360944	-1	None	None
3	PLD1	ENSG00000075651	ENST00000471075	retained_intron	KNOWN	None	9067	None	None	171371032	171395643	-1	None	None
3	PLD1	ENSG00000075651	ENST00000481505	retained_intron	KNOWN	None	9067	None	None	171406485	171426660	-1	None	None
3	PLD1	ENSG00000075651	ENST00000498278	retained_intron	KNOWN	None	9067	None	None	171431668	171528227	-1	None	None
3	PLD1	ENSG00000075651	ENST00000475273	processed_transcript	KNOWN	None	9067	None	None	171439144	171455722	-1	None	None
3	PLD1	ENSG00000075651	ENST00000440204	nonsense_mediated_decay	KNOWN	None	9067	174	57	171443794	171528252	-1	None	None
3	PLD1	ENSG00000075651	ENST00000418087	protein_coding	KNOWN	None	9067	425	140	171453291	171489149	-1	None	None
3	PLD1	ENSG00000075651	ENST00000489995	processed_transcript	KNOWN	None	9067	None	None	171482919	171489175	-1	None	None
3	PLD1	ENSG00000075651	ENST00000460926	processed_transcript	KNOWN	None	9067	None	None	171506357	171528231	-1	None	None
3	PLD1	ENSG00000075651	ENST00000497307	processed_transcript	KNOWN	None	9067	None	None	171506371	171528740	-1	None	None
3	PLD1	ENSG00000075651	ENST00000340989	protein_coding	KNOWN	None	9067	2916	971	171329391	171528273	-1	None	None
3	PLD1	ENSG00000075651	ENST00000342215	protein_coding	KNOWN	None	9067	1794	597	171318620	171528273	-1	None	None
5	AACSP1	ENSG00000250420	ENST00000503486	processed_transcript	KNOWN	None	18226	None	None	178191862	178245436	-1	AACSL	None
5	AACSP1	ENSG00000250420	ENST00000521412	transcribed_unprocessed_pseudogene	KNOWN	None	18226	None	None	178194205	178224612	-1	AACSL	None
5	AACSP1	ENSG00000250420	ENST00000536654	unprocessed_pseudogene	KNOWN	None	18226	None	None	178193085	178245387	-1	AACSL	None
2	PROC	ENSG00000115718	ENST00000474030	retained_intron	KNOWN	None	9451	None	None	128176003	128180673	1	None	None
2	PROC	ENSG00000115718	ENST00000419985	nonsense_mediated_decay	KNOWN	None	9451	159	52	128176003	128180799	1	None	None
2	PROC	ENSG00000115718	ENST00000234071	protein_coding	KNOWN	CCDS2145	9451	1386	461	128176003	128186822	1	None	None
2	PROC	ENSG00000115718	ENST00000429925	protein_coding	KNOWN	None	9451	379	125	128176004	128180726	1	None	None
2	PROC	ENSG00000115718	ENST00000442644	protein_coding	NOVEL	None	9451	525	174	128176015	128183707	1	None	None
2	PROC	ENSG00000115718	ENST00000427769	protein_coding	KNOWN	None	9451	348	115	128177269	128180695	1	None	None
2	PROC	ENSG00000115718	ENST00000431364	nonsense_mediated_decay	KNOWN	None	9451	159	52	128177273	128180702	1	None	None
2	PROC	ENSG00000115718	ENST00000409048	protein_coding	NOVEL	None	9451	1488	495	128177458	128186559	1	None	None
2	PROC	ENSG00000115718	ENST00000464089	retained_intron	KNOWN	None	9451	None	None	128180864	128184102	1	None	None
2	PROC	ENSG00000115718	ENST00000402125	protein_coding	NOVEL	None	9451	710	235	128180865	128186591	1	None	None
2	PROC	ENSG00000115718	ENST00000453608	protein_coding	KNOWN	None	9451	1551	516	128176015	128186816	1	None	None
2	PROC	ENSG00000115718	ENST00000422777	protein_coding	KNOWN	CCDS2145	9451	1386	461	128177519	128186522	1	None	None
19	FOSB	ENSG00000125740	ENST00000585836	protein_coding	NOVEL	None	3797	792	263	45971253	45978436	1	None	G0S3, GOSB, GOS3, AP-1, MGC42291, DKFZp686C0818
19	FOSB	ENSG00000125740	ENST00000417353	protein_coding	KNOWN	CCDS46113	3797	909	302	45971253	45978436	1	None	G0S3, GOSB, GOS3, AP-1, MGC42291, DKFZp686C0818
19	FOSB	ENSG00000125740	ENST00000353609	protein_coding	KNOWN	CCDS12664	3797	1017	338	45971253	45978436	1	None	G0S3, GOSB, GOS3, AP-1, MGC42291, DKFZp686C0818
19	FOSB	ENSG00000125740	ENST00000591858	protein_coding	NOVEL	None	3797	900	299	45971253	45978436	1	None	G0S3, GOSB, GOS3, AP-1, MGC42291, DKFZp686C0818
19	FOSB	ENSG00000125740	ENST00000443841	protein_coding	NOVEL	None	3797	588	195	45971253	45978436	1	None	G0S3, GOSB, GOS3, AP-1, MGC42291, DKFZp686C0818
19	FOSB	ENSG00000125740	ENST00000590335	protein_coding	PUTATIVE	None	3797	534	177	45971254	45975339	1	None	G0S3, GOSB, GOS3, AP-1, MGC42291, DKFZp686C0818
19	FOSB	ENSG00000125740	ENST00000592436	protein_coding	PUTATIVE	None	3797	714	237	45971693	45976298	1	None	G0S3, GOSB, GOS3, AP-1, MGC42291, DKFZp686C0818
19	FOSB	ENSG00000125740	ENST00000592811	protein_coding	PUTATIVE	None	3797	567	188	45973134	45977855	1	None	G0S3, GOSB, GOS3, AP-1, MGC42291, DKFZp686C0818
19	FOSB	ENSG00000125740	ENST00000586113	retained_intron	KNOWN	None	3797	None	None	45973144	45975325	1	None	G0S3, GOSB, GOS3, AP-1, MGC42291, DKFZp686C0818
19	FOSB	ENSG00000125740	ENST00000586615	protein_coding	PUTATIVE	None	3797	870	289	45973171	45978437	1	None	G0S3, GOSB, GOS3, AP-1, MGC42291, DKFZp686C0818
19	FOSB	ENSG00000125740	ENST00000589593	protein_coding	PUTATIVE	None	3797	411	136	45973523	45975811	1	None	G0S3, GOSB, GOS3, AP-1, MGC42291, DKFZp686C0818
19	FOSB	ENSG00000125740	ENST00000587358	retained_intron	KNOWN	None	3797	None	None	45974337	45976325	1	None	G0S3, GOSB, GOS3, AP-1, MGC42291, DKFZp686C0818
22	FAM230C	ENSG00000206142	ENST00000447720	lincRNA	KNOWN	None	24482	None	None	21655279	21679331	-1	NCRNA00281, LINC00281	DKFZP434B061
22	FAM230C	ENSG00000206142	ENST00000436681	lincRNA	KNOWN	None	24482	None	None	21655280	21664170	-1	NCRNA00281, LINC00281	DKFZP434B061
22	FAM230C	ENSG00000206142	ENST00000416615	lincRNA	KNOWN	None	24482	None	None	21655286	21679331	-1	NCRNA00281, LINC00281	DKFZP434B061
22	FAM230C	ENSG00000206142	ENST00000416405	lincRNA	KNOWN	None	24482	None	None	21664110	21677143	-1	NCRNA00281, LINC00281	DKFZP434B061
22	FAM230C	ENSG00000206142	ENST00000453273	lincRNA	KNOWN	None	24482	None	None	21666029	21679226	-1	NCRNA00281, LINC00281	DKFZP434B061
22	FAM230C	ENSG00000206142	ENST00000431488	lincRNA	KNOWN	None	24482	None	None	21666029	21679331	-1	NCRNA00281, LINC00281	DKFZP434B061
22	FAM230C	ENSG00000206142	ENST00000451574	lincRNA	KNOWN	None	24482	None	None	21673559	21679256	-1	NCRNA00281, LINC00281	DKFZP434B061
22	FAM230C	ENSG00000206142	ENST00000452952	lincRNA	KNOWN	None	24482	None	None	21676237	21679256	-1	NCRNA00281, LINC00281	DKFZP434B061
22	FAM230C	ENSG00000206142	ENST00000411581	lincRNA	KNOWN	None	24482	None	None	21676430	21677224	-1	NCRNA00281, LINC00281	DKFZP434B061
22	FAM230C	ENSG00000206142	ENST00000440315	lincRNA	KNOWN	None	24482	None	None	21663055	21663732	-1	NCRNA00281, LINC00281	DKFZP434B061
18	None	ENSG00000267270	ENST00000587254	protein_coding	PUTATIVE	None	None	303	100	77905807	77927065	1	None	None
18	None	ENSG00000267270	ENST00000586421	protein_coding	PUTATIVE	None	None	303	100	77905808	77929616	1	None	None
18	None	ENSG00000267270	ENST00000589574	protein_coding	PUTATIVE	None	None	195	64	77905894	77936315	1	None	None
18	None	ENSG00000267270	ENST00000588226	protein_coding	PUTATIVE	None	None	219	72	77905932	77907156	1	None	None
18	None	ENSG00000267270	ENST00000585422	protein_coding	PUTATIVE	None	None	105	34	77905932	77927020	1	None	None
19	YIPF2	ENSG00000130733	ENST00000586748	protein_coding	KNOWN	CCDS12251	28476	951	316	11033444	11039329	-1	None	MGC3262, FinGER2
19	YIPF2	ENSG00000130733	ENST00000253031	protein_coding	KNOWN	CCDS12251	28476	951	316	11033444	11039357	-1	None	MGC3262, FinGER2
19	YIPF2	ENSG00000130733	ENST00000592646	protein_coding	KNOWN	None	28476	509	168	11033446	11034793	-1	None	MGC3262, FinGER2
19	YIPF2	ENSG00000130733	ENST00000589971	protein_coding	PUTATIVE	None	28476	620	205	11033511	11034823	-1	None	MGC3262, FinGER2
19	YIPF2	ENSG00000130733	ENST00000591872	protein_coding	KNOWN	None	28476	240	79	11033777	11034293	-1	None	MGC3262, FinGER2
19	YIPF2	ENSG00000130733	ENST00000590329	protein_coding	NOVEL	None	28476	834	277	11033948	11039261	-1	None	MGC3262, FinGER2
19	YIPF2	ENSG00000130733	ENST00000586575	protein_coding	PUTATIVE	None	28476	311	102	11034028	11039333	-1	None	MGC3262, FinGER2
19	YIPF2	ENSG00000130733	ENST00000587943	protein_coding	PUTATIVE	None	28476	254	83	11034172	11039301	-1	None	MGC3262, FinGER2
19	YIPF2	ENSG00000130733	ENST00000588347	protein_coding	KNOWN	None	28476	651	216	11034509	11039188	-1	None	MGC3262, FinGER2
19	YIPF2	ENSG00000130733	ENST00000585858	protein_coding	NOVEL	None	28476	560	185	11034513	11039326	-1	None	MGC3262, FinGER2
19	YIPF2	ENSG00000130733	ENST00000588962	retained_intron	KNOWN	None	28476	None	None	11034518	11039226	-1	None	MGC3262, FinGER2
19	YIPF2	ENSG00000130733	ENST00000592505	retained_intron	KNOWN	None	28476	None	None	11038274	11039223	-1	None	MGC3262, FinGER2
HSCHR6_MHC_MCF	None	ENSG00000264646	ENST00000465921	misc_RNA	NOVEL	None	None	None	None	29715285	29715386	1	None	None
11	GUCY1A2	ENSG00000152402	ENST00000526355	protein_coding	KNOWN	CCDS8335	4684	2199	732	106555148	106889250	-1	GUC1A2	GC-SA2
11	GUCY1A2	ENSG00000152402	ENST00000282249	protein_coding	KNOWN	CCDS58170	4684	2292	763	106557910	106889171	-1	GUC1A2	GC-SA2
11	GUCY1A2	ENSG00000152402	ENST00000347596	protein_coding	NOVEL	None	4684	2262	753	106558101	106888877	-1	GUC1A2	GC-SA2
HSCHR6_MHC_MCF	IFITM4P	ENSG00000233298	ENST00000456851	processed_pseudogene	KNOWN	None	21669	None	None	29715643	29716062	-1	None	dJ377H14.5
1	None	ENSG00000271092	ENST00000604534	protein_coding	NOVEL	None	None	606	201	95583479	95710511	1	None	None
1	None	ENSG00000271092	ENST00000604203	protein_coding	NOVEL	None	None	325	107	95616933	95712781	1	None	None
19	ISOC2	ENSG00000063241	ENST00000438389	protein_coding	KNOWN	CCDS46194	26278	408	135	55964352	55973710	-1	None	FLJ23469
19	ISOC2	ENSG00000063241	ENST00000590921	retained_intron	KNOWN	None	26278	None	None	55964356	55966952	-1	None	FLJ23469
19	ISOC2	ENSG00000063241	ENST00000425675	protein_coding	KNOWN	CCDS46195	26278	618	205	55964356	55972936	-1	None	FLJ23469
19	ISOC2	ENSG00000063241	ENST00000085068	protein_coding	KNOWN	CCDS12925	26278	666	221	55964356	55973012	-1	None	FLJ23469
19	ISOC2	ENSG00000063241	ENST00000587226	protein_coding	KNOWN	None	26278	536	177	55966357	55971398	-1	None	FLJ23469
19	ISOC2	ENSG00000063241	ENST00000589080	protein_coding	KNOWN	None	26278	524	173	55966369	55972993	-1	None	FLJ23469
19	ISOC2	ENSG00000063241	ENST00000591718	retained_intron	KNOWN	None	26278	None	None	55966699	55973009	-1	None	FLJ23469
19	ISOC2	ENSG00000063241	ENST00000589108	retained_intron	KNOWN	None	26278	None	None	55967264	55972991	-1	None	FLJ23469
HSCHR6_MHC_MCF	HLA-V	ENSG00000229194	ENST00000434664	processed_transcript	KNOWN	None	23482	None	None	29755699	29757609	1	HLA-75	dJ377H14.4
HSCHR6_MHC_MCF	HLA-V	ENSG00000229194	ENST00000432778	processed_transcript	KNOWN	None	23482	None	None	29755793	29757940	1	HLA-75	dJ377H14.4
HSCHR6_MHC_MCF	HLA-V	ENSG00000229194	ENST00000432225	processed_transcript	KNOWN	None	23482	None	None	29756191	29762471	1	HLA-75	dJ377H14.4
HSCHR6_MHC_MCF	HLA-V	ENSG00000229194	ENST00000480593	processed_transcript	KNOWN	None	23482	None	None	29756745	29762471	1	HLA-75	dJ377H14.4
HSCHR6_MHC_MCF	HLA-V	ENSG00000229194	ENST00000429733	processed_transcript	KNOWN	None	23482	None	None	29757062	29762471	1	HLA-75	dJ377H14.4
HSCHR6_MHC_MCF	HLA-V	ENSG00000229194	ENST00000452558	transcribed_unprocessed_pseudogene	KNOWN	None	23482	None	None	29757073	29757975	1	HLA-75	dJ377H14.4
19	SEPW1	ENSG00000178980	ENST00000601048	protein_coding	KNOWN	CCDS59402	10752	264	87	48281829	48287938	1	None	selW
19	SEPW1	ENSG00000178980	ENST00000593892	protein_coding	KNOWN	CCDS59402	10752	264	87	48281934	48287821	1	None	selW
19	SEPW1	ENSG00000178980	ENST00000599874	nonsense_mediated_decay	KNOWN	None	10752	138	45	48281940	48287714	1	None	selW
19	SEPW1	ENSG00000178980	ENST00000601419	processed_transcript	KNOWN	None	10752	None	None	48281948	48287911	1	None	selW
19	SEPW1	ENSG00000178980	ENST00000595615	protein_coding	KNOWN	CCDS59402	10752	264	87	48281958	48284813	1	None	selW
19	SEPW1	ENSG00000178980	ENST00000599590	processed_transcript	KNOWN	None	10752	None	None	48281966	48283219	1	None	selW
19	SEPW1	ENSG00000178980	ENST00000599302	processed_transcript	KNOWN	None	10752	None	None	48281966	48283434	1	None	selW
19	SEPW1	ENSG00000178980	ENST00000598273	retained_intron	KNOWN	None	10752	None	None	48282190	48287938	1	None	selW
19	SEPW1	ENSG00000178980	ENST00000595509	processed_transcript	KNOWN	None	10752	None	None	48282496	48284152	1	None	selW
19	SEPW1	ENSG00000178980	ENST00000598956	retained_intron	KNOWN	None	10752	None	None	48283645	48287905	1	None	selW
19	SEPW1	ENSG00000178980	ENST00000598083	retained_intron	KNOWN	None	10752	None	None	48284013	48284665	1	None	selW
19	SEPW1	ENSG00000178980	ENST00000601937	retained_intron	KNOWN	None	10752	None	None	48284072	48287943	1	None	selW
19	SEPW1	ENSG00000178980	ENST00000599627	retained_intron	KNOWN	None	10752	None	None	48284337	48287656	1	None	selW
19	SEPW1	ENSG00000178980	ENST00000602163	retained_intron	KNOWN	None	10752	None	None	48285437	48287939	1	None	selW
19	SEPW1	ENSG00000178980	ENST00000509570	protein_coding	KNOWN	None	10752	267	88	48281842	48287941	1	None	selW
14	TRAJ29	ENSG00000211860	ENST00000390508	TR_J_gene	KNOWN	None	12058	60	19	22982921	22982980	1	None	None
HSCHR6_MHC_APD	None	ENSG00000257233	ENST00000552580	protein_coding	NOVEL	None	None	24	7	32679935	32683691	-1	None	None
22	None	ENSG00000226954	ENST00000447372	processed_transcript	KNOWN	None	None	None	None	50111701	50118154	-1	None	None
2	HADHA	ENSG00000084754	ENST00000380649	protein_coding	KNOWN	CCDS1721	4801	2292	763	26413504	26467594	-1	None	GBP, LCEH, LCHAD, MTPA
2	HADHA	ENSG00000084754	ENST00000492433	protein_coding	PUTATIVE	None	4801	752	249	26414204	26418038	-1	None	GBP, LCEH, LCHAD, MTPA
2	HADHA	ENSG00000084754	ENST00000471743	retained_intron	KNOWN	None	4801	None	None	26434966	26437962	-1	None	GBP, LCEH, LCHAD, MTPA
2	HADHA	ENSG00000084754	ENST00000461025	processed_transcript	KNOWN	None	4801	None	None	26455070	26458172	-1	None	GBP, LCEH, LCHAD, MTPA
2	HADHA	ENSG00000084754	ENST00000457468	protein_coding	KNOWN	None	4801	783	260	26434806	26467475	-1	None	GBP, LCEH, LCHAD, MTPA
22	RN7SKP252	ENSG00000223142	ENST00000411210	misc_RNA	KNOWN	None	45976	None	None	50132325	50132651	1	None	None
22	RPL5P35	ENSG00000214727	ENST00000398869	unprocessed_pseudogene	KNOWN	None	36967	None	None	50151275	50152628	-1	None	None
19	GPR32P1	ENSG00000269565	ENST00000601788	unprocessed_pseudogene	KNOWN	None	4488	None	None	51261639	51262449	1	GPR32P	None
11	PICALM	ENSG00000073921	ENST00000532317	protein_coding	KNOWN	CCDS31653	15514	1833	610	85668727	85780101	-1	None	CALM, CLTH
11	PICALM	ENSG00000073921	ENST00000526033	protein_coding	NOVEL	CCDS55784	15514	1938	645	85668731	85780139	-1	None	CALM, CLTH
11	PICALM	ENSG00000073921	ENST00000530692	protein_coding	PUTATIVE	None	15514	647	214	85669798	85701301	-1	None	CALM, CLTH
11	PICALM	ENSG00000073921	ENST00000526548	retained_intron	KNOWN	None	15514	None	None	85669854	85688048	-1	None	CALM, CLTH
11	PICALM	ENSG00000073921	ENST00000393346	protein_coding	KNOWN	CCDS8272	15514	1959	652	85669857	85779971	-1	None	CALM, CLTH
11	PICALM	ENSG00000073921	ENST00000529760	protein_coding	NOVEL	None	15514	925	307	85669861	85712201	-1	None	CALM, CLTH
11	PICALM	ENSG00000073921	ENST00000528398	protein_coding	PUTATIVE	CCDS55783	15514	1656	551	85669882	85780924	-1	None	CALM, CLTH
11	PICALM	ENSG00000073921	ENST00000532603	protein_coding	NOVEL	None	15514	403	133	85669926	85694943	-1	None	CALM, CLTH
11	PICALM	ENSG00000073921	ENST00000356360	protein_coding	NOVEL	None	15514	1899	632	85670030	85779822	-1	None	CALM, CLTH
11	PICALM	ENSG00000073921	ENST00000529016	protein_coding	NOVEL	None	15514	734	243	85670066	85712184	-1	None	CALM, CLTH
11	PICALM	ENSG00000073921	ENST00000526961	protein_coding	NOVEL	None	15514	793	263	85670080	85707972	-1	None	CALM, CLTH
11	PICALM	ENSG00000073921	ENST00000526907	retained_intron	KNOWN	None	15514	None	None	85685825	85689758	-1	None	CALM, CLTH
11	PICALM	ENSG00000073921	ENST00000530542	protein_coding	NOVEL	None	15514	905	300	85687692	85712201	-1	None	CALM, CLTH
11	PICALM	ENSG00000073921	ENST00000534375	retained_intron	KNOWN	None	15514	None	None	85692227	85693228	-1	None	CALM, CLTH
11	PICALM	ENSG00000073921	ENST00000534412	nonsense_mediated_decay	KNOWN	None	15514	147	48	85711724	85779839	-1	None	CALM, CLTH
11	PICALM	ENSG00000073921	ENST00000533350	retained_intron	KNOWN	None	15514	None	None	85712074	85714821	-1	None	CALM, CLTH
11	PICALM	ENSG00000073921	ENST00000531771	retained_intron	KNOWN	None	15514	None	None	85718412	85733512	-1	None	CALM, CLTH
11	PICALM	ENSG00000073921	ENST00000531558	nonsense_mediated_decay	KNOWN	None	15514	147	48	85722155	85780026	-1	None	CALM, CLTH
11	PICALM	ENSG00000073921	ENST00000531930	protein_coding	PUTATIVE	None	15514	556	184	85723324	85780853	-1	None	CALM, CLTH
11	PICALM	ENSG00000073921	ENST00000532041	nonsense_mediated_decay	KNOWN	None	15514	318	105	85723372	85779987	-1	None	CALM, CLTH
11	PICALM	ENSG00000073921	ENST00000525162	protein_coding	PUTATIVE	None	15514	443	146	85723386	85780581	-1	None	CALM, CLTH
11	PICALM	ENSG00000073921	ENST00000528256	protein_coding	PUTATIVE	None	15514	444	147	85725913	85780123	-1	None	CALM, CLTH
11	PICALM	ENSG00000073921	ENST00000528411	processed_transcript	KNOWN	None	15514	None	None	85733421	85780353	-1	None	CALM, CLTH
HSCHR6_MHC_APD	HLA-DQA2	ENSG00000233192	ENST00000449560	protein_coding	KNOWN	None	4943	768	255	32694039	32699870	1	HLA-DXA	None
HSCHR6_MHC_APD	HLA-DQA2	ENSG00000233192	ENST00000546801	protein_coding	KNOWN	None	4943	768	255	32694043	32700103	1	HLA-DXA	None
1	RWDD3	ENSG00000122481	ENST00000370202	protein_coding	KNOWN	CCDS41357	21393	804	267	95699711	95712781	1	None	DKFZP566K023
1	RWDD3	ENSG00000122481	ENST00000263893	protein_coding	KNOWN	CCDS44177	21393	588	195	95699767	95712779	1	None	DKFZP566K023
1	RWDD3	ENSG00000122481	ENST00000492639	processed_transcript	KNOWN	None	21393	None	None	95699770	95709967	1	None	DKFZP566K023
1	RWDD3	ENSG00000122481	ENST00000495272	processed_transcript	KNOWN	None	21393	None	None	95699777	95712773	1	None	DKFZP566K023
1	RWDD3	ENSG00000122481	ENST00000497058	processed_transcript	KNOWN	None	21393	None	None	95699781	95712779	1	None	DKFZP566K023
1	RWDD3	ENSG00000122481	ENST00000473397	processed_transcript	KNOWN	None	21393	None	None	95699824	95712776	1	None	DKFZP566K023
1	RWDD3	ENSG00000122481	ENST00000460571	processed_transcript	KNOWN	None	21393	None	None	95711614	95712779	1	None	DKFZP566K023
1	RWDD3	ENSG00000122481	ENST00000429514	protein_coding	KNOWN	None	21393	543	180	95699759	95711058	1	None	DKFZP566K023
19	None	ENSG00000261341	ENST00000563228	lincRNA	KNOWN	None	None	None	None	51279398	51289374	-1	None	None
19	None	ENSG00000261341	ENST00000562076	lincRNA	KNOWN	None	None	None	None	51288983	51289467	-1	None	None
14	TRAJ28	ENSG00000211861	ENST00000390509	TR_J_gene	KNOWN	None	12057	66	21	22984601	22984666	1	None	None
16	None	ENSG00000261727	ENST00000566806	processed_transcript	KNOWN	None	None	None	None	32019759	32096106	-1	None	None
16	None	ENSG00000261727	ENST00000563973	transcribed_processed_pseudogene	KNOWN	None	None	None	None	32095595	32095823	-1	None	None
20	DYNLRB1	ENSG00000125971	ENST00000357156	protein_coding	KNOWN	CCDS13235	15468	291	96	33104214	33128762	1	DNCL2A	DNLC2A, ROBLD1
20	DYNLRB1	ENSG00000125971	ENST00000480759	processed_transcript	KNOWN	None	15468	None	None	33104219	33128762	1	DNCL2A	DNLC2A, ROBLD1
20	DYNLRB1	ENSG00000125971	ENST00000300469	protein_coding	KNOWN	None	15468	144	47	33104249	33119025	1	DNCL2A	DNLC2A, ROBLD1
20	DYNLRB1	ENSG00000125971	ENST00000374846	protein_coding	NOVEL	None	15468	447	148	33104260	33128762	1	DNCL2A	DNLC2A, ROBLD1
20	DYNLRB1	ENSG00000125971	ENST00000417166	protein_coding	KNOWN	None	15468	366	121	33104231	33123391	1	DNCL2A	DNLC2A, ROBLD1
HSCHR6_MHC_QBL	LY6G6D	ENSG00000206402	ENST00000400084	protein_coding	KNOWN	None	13935	1149	382	31664920	31675931	1	C6orf23	MEGT1, Ly6-D, G6D, LY6-D, NG25
HSCHR6_MHC_QBL	LY6G6D	ENSG00000206402	ENST00000400080	protein_coding	KNOWN	None	13935	402	133	31673375	31675817	1	C6orf23	MEGT1, Ly6-D, G6D, LY6-D, NG25
HSCHR6_MHC_QBL	LY6G6D	ENSG00000206402	ENST00000498587	retained_intron	KNOWN	None	13935	None	None	31673375	31675817	1	C6orf23	MEGT1, Ly6-D, G6D, LY6-D, NG25
HSCHR6_MHC_QBL	LY6G6D	ENSG00000206402	ENST00000383415	protein_coding	KNOWN	None	13935	523	173	31673375	31675817	1	C6orf23	MEGT1, Ly6-D, G6D, LY6-D, NG25
7	HOXA-AS3	ENSG00000254369	ENST00000518848	antisense	KNOWN	None	43748	None	None	27169596	27192195	1	None	None
7	HOXA-AS3	ENSG00000254369	ENST00000521197	antisense	KNOWN	None	43748	None	None	27179983	27192316	1	None	None
7	HOXA-AS3	ENSG00000254369	ENST00000518947	antisense	KNOWN	None	43748	None	None	27186782	27195542	1	None	None
7	HOXA-AS3	ENSG00000254369	ENST00000521231	antisense	KNOWN	None	43748	None	None	27187102	27192322	1	None	None
7	HOXA-AS3	ENSG00000254369	ENST00000524304	antisense	KNOWN	None	43748	None	None	27189671	27192345	1	None	None
17	GRB2	ENSG00000177885	ENST00000581959	protein_coding	PUTATIVE	None	4566	128	41	73314157	73317834	-1	None	NCKAP2
17	GRB2	ENSG00000177885	ENST00000392563	protein_coding	KNOWN	CCDS11722	4566	531	176	73314157	73389737	-1	None	NCKAP2
17	GRB2	ENSG00000177885	ENST00000392564	protein_coding	KNOWN	CCDS11721	4566	654	217	73314157	73389945	-1	None	NCKAP2
17	GRB2	ENSG00000177885	ENST00000392562	protein_coding	KNOWN	CCDS11721	4566	654	217	73314157	73401567	-1	None	NCKAP2
17	GRB2	ENSG00000177885	ENST00000316804	protein_coding	KNOWN	CCDS11721	4566	654	217	73314157	73401734	-1	None	NCKAP2
17	GRB2	ENSG00000177885	ENST00000578961	protein_coding	PUTATIVE	None	4566	471	156	73316422	73389884	-1	None	NCKAP2
17	GRB2	ENSG00000177885	ENST00000462266	processed_transcript	KNOWN	None	4566	None	None	73316426	73322419	-1	None	NCKAP2
17	GRB2	ENSG00000177885	ENST00000582582	protein_coding	KNOWN	None	4566	332	109	73317876	73390114	-1	None	NCKAP2
17	GRB2	ENSG00000177885	ENST00000583912	processed_transcript	KNOWN	None	4566	None	None	73383571	73389887	-1	None	NCKAP2
17	GRB2	ENSG00000177885	ENST00000577711	retained_intron	KNOWN	None	4566	None	None	73389485	73401762	-1	None	NCKAP2
17	GRB2	ENSG00000177885	ENST00000316615	protein_coding	KNOWN	CCDS11722	4566	531	176	73314157	73401790	-1	None	NCKAP2
22	XRCC6	ENSG00000196419	ENST00000360079	protein_coding	KNOWN	CCDS14021	4055	1830	609	42017123	42060043	1	G22P1	D22S731, D22S671, KU70, ML8
22	XRCC6	ENSG00000196419	ENST00000464116	retained_intron	KNOWN	None	4055	None	None	42017289	42024322	1	G22P1	D22S731, D22S671, KU70, ML8
22	XRCC6	ENSG00000196419	ENST00000402580	protein_coding	NOVEL	None	4055	1707	568	42017299	42060044	1	G22P1	D22S731, D22S671, KU70, ML8
22	XRCC6	ENSG00000196419	ENST00000359308	protein_coding	KNOWN	CCDS14021	4055	1830	609	42017354	42060043	1	G22P1	D22S731, D22S671, KU70, ML8
22	XRCC6	ENSG00000196419	ENST00000405878	protein_coding	KNOWN	CCDS14021	4055	1830	609	42017465	42060043	1	G22P1	D22S731, D22S671, KU70, ML8
22	XRCC6	ENSG00000196419	ENST00000405506	protein_coding	PUTATIVE	None	4055	1680	559	42017987	42060038	1	G22P1	D22S731, D22S671, KU70, ML8
22	XRCC6	ENSG00000196419	ENST00000478914	retained_intron	KNOWN	None	4055	None	None	42052957	42057703	1	G22P1	D22S731, D22S671, KU70, ML8
22	XRCC6	ENSG00000196419	ENST00000428575	protein_coding	KNOWN	None	4055	1431	476	42017310	42060042	1	G22P1	D22S731, D22S671, KU70, ML8
7	ZNF467	ENSG00000181444	ENST00000484747	protein_coding	PUTATIVE	None	23154	441	146	149461271	149470308	-1	None	EZI, Zfp467
7	ZNF467	ENSG00000181444	ENST00000302017	protein_coding	KNOWN	CCDS5899	23154	1788	595	149461452	149470568	-1	None	EZI, Zfp467
19	None	ENSG00000268798	ENST00000594262	protein_coding	KNOWN	None	None	438	145	1440838	1441937	1	None	None
5	RNF130	ENSG00000113269	ENST00000522208	protein_coding	PUTATIVE	None	18280	1260	419	179338651	179498721	-1	None	GP, G1RZFP, GOLIATH
5	RNF130	ENSG00000113269	ENST00000521389	protein_coding	KNOWN	CCDS4451	18280	1260	419	179382067	179499118	-1	None	GP, G1RZFP, GOLIATH
5	RNF130	ENSG00000113269	ENST00000261947	protein_coding	PUTATIVE	None	18280	1155	384	179382453	179499101	-1	None	GP, G1RZFP, GOLIATH
5	RNF130	ENSG00000113269	ENST00000520564	processed_transcript	PUTATIVE	None	18280	None	None	179382480	179383516	-1	None	GP, G1RZFP, GOLIATH
5	RNF130	ENSG00000113269	ENST00000521901	retained_intron	KNOWN	None	18280	None	None	179382480	179390943	-1	None	GP, G1RZFP, GOLIATH
5	RNF130	ENSG00000113269	ENST00000520911	nonsense_mediated_decay	KNOWN	None	18280	426	141	179382480	179499113	-1	None	GP, G1RZFP, GOLIATH
5	RNF130	ENSG00000113269	ENST00000522885	nonsense_mediated_decay	KNOWN	None	18280	228	75	179382485	179440192	-1	None	GP, G1RZFP, GOLIATH
5	RNF130	ENSG00000113269	ENST00000519708	retained_intron	KNOWN	None	18280	None	None	179393983	179407518	-1	None	GP, G1RZFP, GOLIATH
5	RNF130	ENSG00000113269	ENST00000523487	retained_intron	KNOWN	None	18280	None	None	179403774	179405287	-1	None	GP, G1RZFP, GOLIATH
16	RNY4P3	ENSG00000202124	ENST00000365254	misc_RNA	KNOWN	None	10247	None	None	50132175	50132269	1	None	hY4.F2
20	None	ENSG00000226390	ENST00000436263	antisense	KNOWN	None	None	None	None	62079404	62080682	1	None	None
16	None	ENSG00000260381	ENST00000566770	antisense	KNOWN	None	None	None	None	50134250	50155854	-1	None	None
X	None	ENSG00000179028	ENST00000375625	protein_coding	KNOWN	None	None	372	123	51942963	51946358	1	None	None
5	ANKHD1	ENSG00000131503	ENST00000360839	protein_coding	KNOWN	CCDS4225	24714	7629	2542	139781399	139919441	1	None	MASK, FLJ20288, FLJ11979, FLJ10042, FLJ14127, KIAA1085
5	ANKHD1	ENSG00000131503	ENST00000421134	protein_coding	NOVEL	None	24714	4696	1564	139781435	139905727	1	None	MASK, FLJ20288, FLJ11979, FLJ10042, FLJ14127, KIAA1085
5	ANKHD1	ENSG00000131503	ENST00000394723	protein_coding	KNOWN	CCDS43371	24714	1884	627	139781439	139852062	1	None	MASK, FLJ20288, FLJ11979, FLJ10042, FLJ14127, KIAA1085
5	ANKHD1	ENSG00000131503	ENST00000511151	protein_coding	PUTATIVE	None	24714	1104	367	139781441	139825559	1	None	MASK, FLJ20288, FLJ11979, FLJ10042, FLJ14127, KIAA1085
5	ANKHD1	ENSG00000131503	ENST00000394722	protein_coding	KNOWN	CCDS43372	24714	1851	616	139781506	139852062	1	None	MASK, FLJ20288, FLJ11979, FLJ10042, FLJ14127, KIAA1085
5	ANKHD1	ENSG00000131503	ENST00000490185	retained_intron	KNOWN	None	24714	None	None	139838318	139844758	1	None	MASK, FLJ20288, FLJ11979, FLJ10042, FLJ14127, KIAA1085
5	ANKHD1	ENSG00000131503	ENST00000246149	protein_coding	NOVEL	None	24714	2062	686	139838842	139903718	1	None	MASK, FLJ20288, FLJ11979, FLJ10042, FLJ14127, KIAA1085
5	ANKHD1	ENSG00000131503	ENST00000412116	protein_coding	NOVEL	None	24714	1826	607	139862165	139903700	1	None	MASK, FLJ20288, FLJ11979, FLJ10042, FLJ14127, KIAA1085
5	ANKHD1	ENSG00000131503	ENST00000465435	retained_intron	KNOWN	None	24714	None	None	139864345	139865661	1	None	MASK, FLJ20288, FLJ11979, FLJ10042, FLJ14127, KIAA1085
5	ANKHD1	ENSG00000131503	ENST00000506755	retained_intron	KNOWN	None	24714	None	None	139866152	139876132	1	None	MASK, FLJ20288, FLJ11979, FLJ10042, FLJ14127, KIAA1085
5	ANKHD1	ENSG00000131503	ENST00000462121	processed_transcript	PUTATIVE	None	24714	None	None	139876235	139877775	1	None	MASK, FLJ20288, FLJ11979, FLJ10042, FLJ14127, KIAA1085
5	ANKHD1	ENSG00000131503	ENST00000506930	retained_intron	KNOWN	None	24714	None	None	139884354	139889254	1	None	MASK, FLJ20288, FLJ11979, FLJ10042, FLJ14127, KIAA1085
5	ANKHD1	ENSG00000131503	ENST00000431508	protein_coding	NOVEL	None	24714	3648	1215	139889695	139919434	1	None	MASK, FLJ20288, FLJ11979, FLJ10042, FLJ14127, KIAA1085
5	ANKHD1	ENSG00000131503	ENST00000433049	protein_coding	NOVEL	None	24714	3219	1072	139903768	139919433	1	None	MASK, FLJ20288, FLJ11979, FLJ10042, FLJ14127, KIAA1085
5	ANKHD1	ENSG00000131503	ENST00000435794	protein_coding	NOVEL	None	24714	3073	1023	139905618	139919441	1	None	MASK, FLJ20288, FLJ11979, FLJ10042, FLJ14127, KIAA1085
5	ANKHD1	ENSG00000131503	ENST00000432301	protein_coding	NOVEL	None	24714	2803	933	139905738	139919434	1	None	MASK, FLJ20288, FLJ11979, FLJ10042, FLJ14127, KIAA1085
5	ANKHD1	ENSG00000131503	ENST00000475148	retained_intron	KNOWN	None	24714	None	None	139909215	139915489	1	None	MASK, FLJ20288, FLJ11979, FLJ10042, FLJ14127, KIAA1085
5	ANKHD1	ENSG00000131503	ENST00000495578	retained_intron	KNOWN	None	24714	None	None	139916634	139917847	1	None	MASK, FLJ20288, FLJ11979, FLJ10042, FLJ14127, KIAA1085
5	ANKHD1	ENSG00000131503	ENST00000421706	protein_coding	PUTATIVE	None	24714	557	184	139916974	139918927	1	None	MASK, FLJ20288, FLJ11979, FLJ10042, FLJ14127, KIAA1085
5	ANKHD1	ENSG00000131503	ENST00000297183	protein_coding	KNOWN	CCDS4224	24714	7854	2617	139781429	139929163	1	None	MASK, FLJ20288, FLJ11979, FLJ10042, FLJ14127, KIAA1085
5	ANKHD1	ENSG00000131503	ENST00000544120	protein_coding	KNOWN	None	24714	2601	866	139905738	139919434	1	None	MASK, FLJ20288, FLJ11979, FLJ10042, FLJ14127, KIAA1085
16	RPL10P14	ENSG00000260031	ENST00000565265	processed_pseudogene	KNOWN	None	43897	None	None	50185191	50185488	-1	None	None
X	None	ENSG00000237931	ENST00000422221	processed_pseudogene	KNOWN	None	None	None	None	40936252	40937003	1	None	None
17	C17orf75	ENSG00000108666	ENST00000583104	protein_coding	PUTATIVE	None	30173	292	96	30651584	30662381	-1	None	NJMU-R1
17	C17orf75	ENSG00000108666	ENST00000577809	protein_coding	KNOWN	CCDS58537	30173	1191	396	30658381	30669208	-1	None	NJMU-R1
17	C17orf75	ENSG00000108666	ENST00000582961	protein_coding	PUTATIVE	None	30173	146	47	30658615	30661562	-1	None	NJMU-R1
17	C17orf75	ENSG00000108666	ENST00000580558	protein_coding	PUTATIVE	None	30173	397	131	30660477	30668971	-1	None	NJMU-R1
17	C17orf75	ENSG00000108666	ENST00000583774	protein_coding	PUTATIVE	None	30173	825	274	30661510	30677042	-1	None	NJMU-R1
17	C17orf75	ENSG00000108666	ENST00000581747	protein_coding	PUTATIVE	None	30173	265	87	30661557	30668890	-1	None	NJMU-R1
17	C17orf75	ENSG00000108666	ENST00000578215	retained_intron	KNOWN	None	30173	None	None	30661670	30664960	-1	None	NJMU-R1
17	C17orf75	ENSG00000108666	ENST00000583221	nonsense_mediated_decay	KNOWN	None	30173	228	75	30661808	30669228	-1	None	NJMU-R1
17	C17orf75	ENSG00000108666	ENST00000583334	protein_coding	PUTATIVE	None	30173	113	36	30662361	30668920	-1	None	NJMU-R1
17	C17orf75	ENSG00000108666	ENST00000582073	retained_intron	KNOWN	None	30173	None	None	30665026	30669288	-1	None	NJMU-R1
17	C17orf75	ENSG00000108666	ENST00000580485	retained_intron	KNOWN	None	30173	None	None	30665038	30669189	-1	None	NJMU-R1
17	C17orf75	ENSG00000108666	ENST00000580294	retained_intron	KNOWN	None	30173	None	None	30667888	30669186	-1	None	NJMU-R1
17	C17orf75	ENSG00000108666	ENST00000225805	protein_coding	KNOWN	None	30173	1191	396	30658392	30669189	-1	None	NJMU-R1
X	XAGE2B	ENSG00000155622	ENST00000286049	protein_coding	KNOWN	CCDS59525	30680	336	111	52112173	52118823	1	None	None
16	None	ENSG00000252526	ENST00000516717	snoRNA	NOVEL	None	None	None	None	50185553	50185642	-1	None	None
X	None	ENSG00000269941	ENST00000602481	sense_intronic	KNOWN	None	None	None	None	41092886	41093536	1	None	None
16	None	ENSG00000238544	ENST00000459559	snoRNA	NOVEL	None	None	None	None	50386100	50386203	-1	None	None
1	RCAN3	ENSG00000117602	ENST00000374395	protein_coding	KNOWN	CCDS254	3042	726	241	24829387	24867530	1	DSCR1L2	None
1	RCAN3	ENSG00000117602	ENST00000425530	protein_coding	KNOWN	None	3042	195	64	24834057	24841057	1	DSCR1L2	None
1	RCAN3	ENSG00000117602	ENST00000482807	nonsense_mediated_decay	KNOWN	None	3042	326	107	24859604	24862351	1	DSCR1L2	None
1	RCAN3	ENSG00000117602	ENST00000436717	protein_coding	KNOWN	CCDS57979	3042	696	231	24829387	24863504	1	DSCR1L2	None
1	RCAN3	ENSG00000117602	ENST00000538532	protein_coding	KNOWN	CCDS57981	3042	552	183	24840837	24861847	1	DSCR1L2	None
1	RCAN3	ENSG00000117602	ENST00000412742	protein_coding	KNOWN	CCDS57980	3042	522	173	24840810	24861827	1	DSCR1L2	None
1	RCAN3	ENSG00000117602	ENST00000374393	protein_coding	KNOWN	CCDS57982	3042	348	115	24840863	24861769	1	DSCR1L2	None
Y	None	ENSG00000269084	ENST00000599485	protein_coding	NOVEL	None	None	99	32	21737895	21738068	-1	None	None
16	None	ENSG00000261393	ENST00000568427	antisense	KNOWN	None	None	None	None	50402491	50405391	1	None	None
X	ASB11	ENSG00000165192	ENST00000380470	protein_coding	NOVEL	CCDS56596	17186	921	306	15299819	15333746	-1	None	DKFZp779E2460
X	ASB11	ENSG00000165192	ENST00000344384	protein_coding	KNOWN	CCDS35209	17186	909	302	15300441	15332681	-1	None	DKFZp779E2460
X	ASB11	ENSG00000165192	ENST00000480796	protein_coding	KNOWN	CCDS14164	17186	972	323	15301166	15333778	-1	None	DKFZp779E2460
X	ASB11	ENSG00000165192	ENST00000485437	nonsense_mediated_decay	KNOWN	None	17186	675	224	15301628	15333727	-1	None	DKFZp779E2460
X	ASB11	ENSG00000165192	ENST00000537676	protein_coding	KNOWN	CCDS35209	17186	909	302	15298053	15332681	-1	None	DKFZp779E2460
17	GRN	ENSG00000030582	ENST00000588170	retained_intron	KNOWN	None	4601	None	None	42422614	42427262	1	None	PCDGF, PGRN, CLN11
17	GRN	ENSG00000030582	ENST00000589536	protein_coding	KNOWN	None	4601	334	110	42422630	42427104	1	None	PCDGF, PGRN, CLN11
17	GRN	ENSG00000030582	ENST00000587109	protein_coding	KNOWN	None	4601	187	61	42422633	42426842	1	None	PCDGF, PGRN, CLN11
17	GRN	ENSG00000030582	ENST00000587518	protein_coding	KNOWN	None	4601	409	135	42422633	42427655	1	None	PCDGF, PGRN, CLN11
17	GRN	ENSG00000030582	ENST00000053867	protein_coding	KNOWN	CCDS11483	4601	1782	593	42422648	42430470	1	None	PCDGF, PGRN, CLN11
17	GRN	ENSG00000030582	ENST00000588143	protein_coding	KNOWN	None	4601	490	162	42422650	42427837	1	None	PCDGF, PGRN, CLN11
17	GRN	ENSG00000030582	ENST00000593167	protein_coding	KNOWN	None	4601	447	148	42422666	42427693	1	None	PCDGF, PGRN, CLN11
17	GRN	ENSG00000030582	ENST00000585512	protein_coding	KNOWN	None	4601	111	36	42422670	42426643	1	None	PCDGF, PGRN, CLN11
17	GRN	ENSG00000030582	ENST00000592323	retained_intron	KNOWN	None	4601	None	None	42422670	42427157	1	None	PCDGF, PGRN, CLN11
17	GRN	ENSG00000030582	ENST00000591740	protein_coding	KNOWN	None	4601	405	134	42422670	42427651	1	None	PCDGF, PGRN, CLN11
17	GRN	ENSG00000030582	ENST00000592783	protein_coding	KNOWN	None	4601	426	141	42422670	42427672	1	None	PCDGF, PGRN, CLN11
17	GRN	ENSG00000030582	ENST00000587387	protein_coding	NOVEL	None	4601	574	190	42422670	42427879	1	None	PCDGF, PGRN, CLN11
17	GRN	ENSG00000030582	ENST00000588237	protein_coding	NOVEL	None	4601	518	171	42422670	42428412	1	None	PCDGF, PGRN, CLN11
17	GRN	ENSG00000030582	ENST00000589265	protein_coding	NOVEL	None	4601	1311	436	42422673	42430450	1	None	PCDGF, PGRN, CLN11
17	GRN	ENSG00000030582	ENST00000587958	retained_intron	KNOWN	None	4601	None	None	42422674	42427179	1	None	PCDGF, PGRN, CLN11
17	GRN	ENSG00000030582	ENST00000586782	nonsense_mediated_decay	KNOWN	None	4601	570	189	42422682	42428531	1	None	PCDGF, PGRN, CLN11
17	GRN	ENSG00000030582	ENST00000590984	retained_intron	KNOWN	None	4601	None	None	42427657	42428668	1	None	PCDGF, PGRN, CLN11
17	GRN	ENSG00000030582	ENST00000586443	protein_coding	PUTATIVE	None	4601	1166	387	42427907	42430411	1	None	PCDGF, PGRN, CLN11
17	GRN	ENSG00000030582	ENST00000589923	processed_transcript	KNOWN	None	4601	None	None	42428140	42429163	1	None	PCDGF, PGRN, CLN11
17	GRN	ENSG00000030582	ENST00000585348	retained_intron	KNOWN	None	4601	None	None	42428279	42428967	1	None	PCDGF, PGRN, CLN11
17	GRN	ENSG00000030582	ENST00000586242	protein_coding	PUTATIVE	None	4601	332	109	42429570	42430470	1	None	PCDGF, PGRN, CLN11
X	None	ENSG00000270155	ENST00000602639	lincRNA	KNOWN	None	None	None	None	41095109	41095832	1	None	None
16	None	ENSG00000261092	ENST00000566876	lincRNA	KNOWN	None	None	None	None	50424827	50429044	-1	None	None
6	MIR548U	ENSG00000212017	ENST00000390728	miRNA	KNOWN	None	38316	None	None	57254930	57255010	1	None	hsa-mir-548u
6	None	ENSG00000266579	ENST00000421261	lincRNA	KNOWN	None	None	None	None	57358736	57362565	1	None	None
X	None	ENSG00000223714	ENST00000452501	lincRNA	KNOWN	None	None	None	None	41134992	41136031	1	None	None
16	None	ENSG00000260573	ENST00000567899	lincRNA	KNOWN	None	None	None	None	50441612	50442424	1	None	None
14	TRAJ27	ENSG00000211862	ENST00000390510	TR_J_gene	KNOWN	None	12056	59	18	22985251	22985309	1	None	None
HSCHR6_MHC_QBL	TAP1	ENSG00000206297	ENST00000493421	retained_intron	KNOWN	None	43	None	None	32741696	32746629	-1	ABCB2	PSF1, RING4, D6S114E
HSCHR6_MHC_QBL	TAP1	ENSG00000206297	ENST00000383235	protein_coding	KNOWN	None	43	2427	808	32741696	32750465	-1	ABCB2	PSF1, RING4, D6S114E
HSCHR6_MHC_QBL	TAP1	ENSG00000206297	ENST00000490601	retained_intron	KNOWN	None	43	None	None	32742162	32744717	-1	ABCB2	PSF1, RING4, D6S114E
6	GAPDHP41	ENSG00000214566	ENST00000429582	processed_pseudogene	KNOWN	None	37798	None	None	57686969	57687949	-1	None	None
16	None	ENSG00000252077	ENST00000516268	snoRNA	NOVEL	None	None	None	None	50532072	50532141	-1	None	None
12	TMEM119	ENSG00000183160	ENST00000392806	protein_coding	KNOWN	CCDS9119	27884	852	283	108983622	108991900	-1	None	None
12	TMEM119	ENSG00000183160	ENST00000549031	protein_coding	KNOWN	None	27884	421	139	108985739	108992096	-1	None	None
12	TMEM119	ENSG00000183160	ENST00000549447	protein_coding	KNOWN	None	27884	132	43	108986028	108991784	-1	None	None
12	TMEM119	ENSG00000183160	ENST00000547567	protein_coding	KNOWN	None	27884	84	27	108986076	108991924	-1	None	None
16	None	ENSG00000260029	ENST00000569940	antisense	KNOWN	None	None	None	None	50585735	50587851	-1	None	None
19	None	ENSG00000268375	ENST00000594114	antisense	KNOWN	None	None	None	None	51295942	51296841	-1	None	None
6	None	ENSG00000231273	ENST00000456887	lincRNA	KNOWN	None	None	None	None	57690895	57691645	1	None	None
19	SNORD88B	ENSG00000221381	ENST00000408454	snoRNA	KNOWN	None	32748	None	None	51302289	51302379	-1	None	HBII-180B
15	ARHGAP11A	ENSG00000198826	ENST00000565905	protein_coding	PUTATIVE	None	15783	2505	834	32907345	32930311	1	None	KIAA0013
15	ARHGAP11A	ENSG00000198826	ENST00000563330	processed_transcript	PUTATIVE	None	15783	None	None	32907353	32908451	1	None	KIAA0013
15	ARHGAP11A	ENSG00000198826	ENST00000361627	protein_coding	KNOWN	CCDS10028	15783	3072	1023	32907691	32932150	1	None	KIAA0013
15	ARHGAP11A	ENSG00000198826	ENST00000567348	protein_coding	PUTATIVE	CCDS58349	15783	1506	501	32907740	32928382	1	None	KIAA0013
15	ARHGAP11A	ENSG00000198826	ENST00000563864	protein_coding	PUTATIVE	None	15783	1422	473	32907766	32928349	1	None	KIAA0013
15	ARHGAP11A	ENSG00000198826	ENST00000543522	protein_coding	PUTATIVE	None	15783	2505	834	32907772	32930104	1	None	KIAA0013
15	ARHGAP11A	ENSG00000198826	ENST00000562481	protein_coding	NOVEL	None	15783	620	205	32920929	32928543	1	None	KIAA0013
15	ARHGAP11A	ENSG00000198826	ENST00000564918	retained_intron	KNOWN	None	15783	None	None	32925026	32928497	1	None	KIAA0013
19	SNORD88A	ENSG00000221241	ENST00000408314	snoRNA	KNOWN	None	32747	None	None	51302699	51302789	-1	None	HBII-180A
6	None	ENSG00000262828	ENST00000576904	processed_pseudogene	KNOWN	None	None	None	None	57793932	57794280	-1	None	None
11	TMEM151A	ENSG00000179292	ENST00000327259	protein_coding	KNOWN	CCDS8133	28497	1407	468	66059341	66064135	1	TMEM151	MGC33486
18	PARD6G	ENSG00000178184	ENST00000353265	protein_coding	KNOWN	CCDS12022	16076	1131	376	77915115	78005429	-1	None	PAR-6G, PAR6gamma
18	PARD6G	ENSG00000178184	ENST00000470488	protein_coding	PUTATIVE	None	16076	324	107	77940733	78005231	-1	None	PAR-6G, PAR6gamma
18	PARD6G	ENSG00000178184	ENST00000463384	protein_coding	PUTATIVE	None	16076	186	61	77940739	77960764	-1	None	PAR-6G, PAR6gamma
19	SNORD88C	ENSG00000220988	ENST00000408061	snoRNA	KNOWN	None	32749	None	None	51305585	51305675	-1	None	HBII-180C
6	RBBP4P3	ENSG00000215307	ENST00000399980	processed_pseudogene	KNOWN	None	42370	None	None	57841107	57842388	-1	None	None
X	None	ENSG00000226870	ENST00000417668	pseudogene	NOVEL	None	None	None	None	70938992	70939460	1	None	None
19	None	ENSG00000180279	ENST00000326989	lincRNA	KNOWN	None	None	None	None	51320937	51322134	1	None	None
19	None	ENSG00000180279	ENST00000593632	lincRNA	KNOWN	None	None	None	None	51321184	51321924	1	None	None
20	None	ENSG00000230226	ENST00000458368	antisense	KNOWN	None	None	None	None	62133640	62136464	1	None	None
4	NFXL1	ENSG00000170448	ENST00000502448	retained_intron	KNOWN	None	18726	None	None	47849257	47880721	-1	None	HOZFP
4	NFXL1	ENSG00000170448	ENST00000381538	protein_coding	KNOWN	CCDS3478	18726	2736	911	47849257	47916633	-1	None	HOZFP
4	NFXL1	ENSG00000170448	ENST00000464756	nonsense_mediated_decay	KNOWN	None	18726	2202	733	47849257	47916653	-1	None	HOZFP
4	NFXL1	ENSG00000170448	ENST00000507489	protein_coding	NOVEL	CCDS3478	18726	2736	911	47849260	47916556	-1	None	HOZFP
4	NFXL1	ENSG00000170448	ENST00000507131	retained_intron	KNOWN	None	18726	None	None	47850321	47916633	-1	None	HOZFP
4	NFXL1	ENSG00000170448	ENST00000508115	retained_intron	KNOWN	None	18726	None	None	47853074	47879161	-1	None	HOZFP
4	NFXL1	ENSG00000170448	ENST00000511452	retained_intron	KNOWN	None	18726	None	None	47853100	47854225	-1	None	HOZFP
4	NFXL1	ENSG00000170448	ENST00000329043	protein_coding	KNOWN	None	18726	2202	733	47879086	47916633	-1	None	HOZFP
16	None	ENSG00000221395	ENST00000408468	miRNA	NOVEL	None	None	None	None	82875691	82875805	1	None	None
16	RN7SL134P	ENSG00000263360	ENST00000579756	misc_RNA	KNOWN	None	46150	None	None	82878060	82878358	1	None	None
9	RXRA	ENSG00000186350	ENST00000484822	processed_transcript	KNOWN	None	10477	None	None	137208944	137298240	1	None	NR2B1
9	RXRA	ENSG00000186350	ENST00000481739	protein_coding	KNOWN	CCDS35172	10477	1389	462	137218426	137328865	1	None	NR2B1
9	RXRA	ENSG00000186350	ENST00000356384	processed_transcript	KNOWN	None	10477	None	None	137263817	137332431	1	None	NR2B1
9	RXRA	ENSG00000186350	ENST00000540193	protein_coding	KNOWN	None	10477	1098	365	137298428	137328860	1	None	NR2B1
16	None	ENSG00000260832	ENST00000565238	antisense	KNOWN	None	None	None	None	82986835	83023903	-1	None	None
6	None	ENSG00000219784	ENST00000406666	processed_pseudogene	KNOWN	None	None	None	None	121799419	121801054	-1	None	None
19	None	ENSG00000267968	ENST00000598079	antisense	KNOWN	None	None	None	None	51333786	51354345	1	None	None
1	None	ENSG00000237435	ENST00000442558	processed_transcript	KNOWN	None	None	None	None	96403457	96488422	1	None	None
1	None	ENSG00000237435	ENST00000593954	processed_transcript	KNOWN	None	None	None	None	96457542	96488337	1	None	None
1	None	ENSG00000237435	ENST00000413825	protein_coding	PUTATIVE	None	None	315	104	96457545	96488436	1	None	None
1	None	ENSG00000237435	ENST00000595613	processed_transcript	KNOWN	None	None	None	None	96457582	96488335	1	None	None
1	None	ENSG00000237435	ENST00000595188	processed_transcript	KNOWN	None	None	None	None	96457588	96471821	1	None	None
1	None	ENSG00000237435	ENST00000451675	processed_transcript	KNOWN	None	None	None	None	96457624	96488422	1	None	None
1	None	ENSG00000237435	ENST00000598129	processed_transcript	KNOWN	None	None	None	None	96457997	96488335	1	None	None
1	None	ENSG00000237435	ENST00000598612	processed_transcript	PUTATIVE	None	None	None	None	96460791	96488337	1	None	None
1	None	ENSG00000237435	ENST00000412513	processed_transcript	KNOWN	None	None	None	None	96461677	96488422	1	None	None
6	None	ENSG00000270213	ENST00000605295	processed_pseudogene	KNOWN	None	None	None	None	58028201	58028363	-1	None	None
16	None	ENSG00000261410	ENST00000564635	antisense	KNOWN	None	None	None	None	83416612	83431592	-1	None	None
16	None	ENSG00000261410	ENST00000562565	antisense	KNOWN	None	None	None	None	83416621	83431775	-1	None	None
11	ARRB1	ENSG00000137486	ENST00000420843	protein_coding	KNOWN	CCDS44684	711	1257	418	74975226	75062749	-1	ARR1	None
11	ARRB1	ENSG00000137486	ENST00000360025	protein_coding	KNOWN	CCDS31640	711	1233	410	74976643	75062749	-1	ARR1	None
11	ARRB1	ENSG00000137486	ENST00000532447	protein_coding	PUTATIVE	None	711	586	194	74977160	74989743	-1	ARR1	None
11	ARRB1	ENSG00000137486	ENST00000531012	retained_intron	KNOWN	None	711	None	None	74981974	74985982	-1	ARR1	None
11	ARRB1	ENSG00000137486	ENST00000529741	retained_intron	KNOWN	None	711	None	None	74983830	74987955	-1	ARR1	None
11	ARRB1	ENSG00000137486	ENST00000532525	protein_coding	PUTATIVE	None	711	773	256	74985244	75017753	-1	ARR1	None
11	ARRB1	ENSG00000137486	ENST00000524400	nonsense_mediated_decay	KNOWN	None	711	209	68	74989721	75023199	-1	ARR1	None
11	ARRB1	ENSG00000137486	ENST00000533609	nonsense_mediated_decay	KNOWN	None	711	180	59	74989755	75023168	-1	ARR1	None
11	ARRB1	ENSG00000137486	ENST00000527385	nonsense_mediated_decay	KNOWN	None	711	218	71	74989760	75014714	-1	ARR1	None
11	ARRB1	ENSG00000137486	ENST00000530086	retained_intron	KNOWN	None	711	None	None	74992050	74993176	-1	ARR1	None
11	ARRB1	ENSG00000137486	ENST00000529280	retained_intron	KNOWN	None	711	None	None	74992658	74995357	-1	ARR1	None
11	ARRB1	ENSG00000137486	ENST00000533255	retained_intron	KNOWN	None	711	None	None	74992922	75062704	-1	ARR1	None
11	ARRB1	ENSG00000137486	ENST00000393505	protein_coding	KNOWN	None	711	1257	418	74976482	75062873	-1	ARR1	None
6	RNU4-76P	ENSG00000201379	ENST00000364509	snRNA	KNOWN	None	47012	None	None	121863632	121863772	-1	None	None
4	None	ENSG00000250511	ENST00000503998	antisense	KNOWN	None	None	None	None	111433644	111440661	-1	None	None
6	None	ENSG00000272541	ENST00000607119	lincRNA	KNOWN	None	None	None	None	58182169	58182746	-1	None	None
15	CHSY1	ENSG00000131873	ENST00000254190	protein_coding	KNOWN	CCDS10390	17198	2409	802	101715928	101792137	-1	None	KIAA0990, CSS1
15	CHSY1	ENSG00000131873	ENST00000543813	processed_transcript	KNOWN	None	17198	None	None	101717306	101728266	-1	None	KIAA0990, CSS1
15	CHSY1	ENSG00000131873	ENST00000560766	processed_transcript	PUTATIVE	None	17198	None	None	101718782	101728230	-1	None	KIAA0990, CSS1
15	CHSY1	ENSG00000131873	ENST00000561414	processed_transcript	PUTATIVE	None	17198	None	None	101718807	101728075	-1	None	KIAA0990, CSS1
15	CHSY1	ENSG00000131873	ENST00000561143	processed_transcript	PUTATIVE	None	17198	None	None	101727746	101729772	-1	None	KIAA0990, CSS1
15	CHSY1	ENSG00000131873	ENST00000559384	processed_transcript	PUTATIVE	None	17198	None	None	101775714	101782822	-1	None	KIAA0990, CSS1
6	RNU2-8P	ENSG00000222659	ENST00000410727	snRNA	KNOWN	None	48501	None	None	121901478	121901667	-1	None	None
14	TRAJ26	ENSG00000211863	ENST00000390511	TR_J_gene	KNOWN	None	12055	60	19	22987424	22987483	1	None	None
16	None	ENSG00000222299	ENST00000410367	miRNA	NOVEL	None	None	None	None	83434148	83434220	-1	None	None
16	MIR3182	ENSG00000263785	ENST00000580839	miRNA	KNOWN	None	38317	None	None	83541951	83542013	1	None	hsa-mir-3182
6	None	ENSG00000271761	ENST00000607490	lincRNA	KNOWN	None	None	None	None	58228887	58229426	-1	None	None
6	None	ENSG00000220326	ENST00000401679	processed_pseudogene	KNOWN	None	None	None	None	121962155	121962367	-1	None	None
X	XAGE1B	ENSG00000204382	ENST00000518075	protein_coding	KNOWN	CCDS48117	25400	246	81	52235228	52243951	1	None	CT12.1b
X	XAGE1B	ENSG00000204382	ENST00000375616	protein_coding	KNOWN	CCDS48117	25400	246	81	52238818	52243954	1	None	CT12.1b
X	XAGE1B	ENSG00000204382	ENST00000519579	retained_intron	KNOWN	None	25400	None	None	52238925	52240863	1	None	CT12.1b
X	XAGE1B	ENSG00000204382	ENST00000375613	protein_coding	KNOWN	CCDS48119	25400	210	69	52238974	52243954	1	None	CT12.1b
X	XAGE1B	ENSG00000204382	ENST00000375612	processed_transcript	KNOWN	None	25400	None	None	52239019	52243954	1	None	CT12.1b
X	XAGE1B	ENSG00000204382	ENST00000494039	retained_intron	KNOWN	None	25400	None	None	52241006	52243954	1	None	CT12.1b
X	XAGE1B	ENSG00000204382	ENST00000437949	protein_coding	KNOWN	None	25400	441	146	52238810	52243954	1	None	CT12.1b
X	XAGE1B	ENSG00000204382	ENST00000399805	protein_coding	KNOWN	CCDS48119	25400	210	69	52240504	52243954	1	None	CT12.1b
6	None	ENSG00000272316	ENST00000606125	lincRNA	KNOWN	None	None	None	None	58234838	58240189	-1	None	None
3	EIF2B5	ENSG00000145191	ENST00000491144	retained_intron	KNOWN	None	3261	None	None	183852826	183863099	1	None	EIF2Bepsilon, EIF-2B
3	EIF2B5	ENSG00000145191	ENST00000273783	protein_coding	KNOWN	CCDS3252	3261	2166	721	183853052	183863098	1	None	EIF2Bepsilon, EIF-2B
3	EIF2B5	ENSG00000145191	ENST00000432569	protein_coding	PUTATIVE	None	3261	324	107	183853153	183855167	1	None	EIF2Bepsilon, EIF-2B
3	EIF2B5	ENSG00000145191	ENST00000444495	protein_coding	PUTATIVE	None	3261	2118	705	183853164	184402546	1	None	EIF2Bepsilon, EIF-2B
3	EIF2B5	ENSG00000145191	ENST00000481054	retained_intron	KNOWN	None	3261	None	None	183853173	183863099	1	None	EIF2Bepsilon, EIF-2B
3	EIF2B5	ENSG00000145191	ENST00000432982	nonsense_mediated_decay	KNOWN	None	3261	277	91	183853188	183860674	1	None	EIF2Bepsilon, EIF-2B
3	EIF2B5	ENSG00000145191	ENST00000471832	processed_transcript	PUTATIVE	None	3261	None	None	183853579	183854767	1	None	EIF2Bepsilon, EIF-2B
3	EIF2B5	ENSG00000145191	ENST00000498831	processed_transcript	KNOWN	None	3261	None	None	183853689	183855821	1	None	EIF2Bepsilon, EIF-2B
3	EIF2B5	ENSG00000145191	ENST00000491008	retained_intron	KNOWN	None	3261	None	None	183855124	183857942	1	None	EIF2Bepsilon, EIF-2B
3	EIF2B5	ENSG00000145191	ENST00000468748	retained_intron	KNOWN	None	3261	None	None	183855727	183858322	1	None	EIF2Bepsilon, EIF-2B
3	EIF2B5	ENSG00000145191	ENST00000479833	processed_transcript	KNOWN	None	3261	None	None	183855954	183859831	1	None	EIF2Bepsilon, EIF-2B
3	EIF2B5	ENSG00000145191	ENST00000493740	retained_intron	KNOWN	None	3261	None	None	183857937	183858696	1	None	EIF2Bepsilon, EIF-2B
3	EIF2B5	ENSG00000145191	ENST00000492773	processed_transcript	KNOWN	None	3261	None	None	183858480	183860674	1	None	EIF2Bepsilon, EIF-2B
3	EIF2B5	ENSG00000145191	ENST00000479250	retained_intron	KNOWN	None	3261	None	None	183859896	183860659	1	None	EIF2Bepsilon, EIF-2B
3	EIF2B5	ENSG00000145191	ENST00000465218	retained_intron	KNOWN	None	3261	None	None	183860363	183863093	1	None	EIF2Bepsilon, EIF-2B
3	EIF2B5	ENSG00000145191	ENST00000484154	retained_intron	KNOWN	None	3261	None	None	183860585	183861497	1	None	EIF2Bepsilon, EIF-2B
3	EIF2B5	ENSG00000145191	ENST00000492226	retained_intron	KNOWN	None	3261	None	None	183861842	183862688	1	None	EIF2Bepsilon, EIF-2B
4	None	ENSG00000250103	ENST00000513690	lincRNA	KNOWN	None	None	None	None	111516671	111536614	-1	None	None
4	None	ENSG00000250103	ENST00000503456	lincRNA	KNOWN	None	None	None	None	111524517	111536571	-1	None	None
1	NCMAP	ENSG00000184454	ENST00000374392	protein_coding	KNOWN	CCDS30632	29332	309	102	24882602	24935816	1	C1orf130	FLJ42528, MP11
1	NCMAP	ENSG00000184454	ENST00000486262	processed_transcript	KNOWN	None	29332	None	None	24915955	24935819	1	C1orf130	FLJ42528, MP11
6	GUSBP4	ENSG00000239650	ENST00000423899	unprocessed_pseudogene	KNOWN	None	18220	None	None	58246062	58256569	-1	C6orf216, SMAC3L, GUSBL2	SMA3-L, FLJ13549
6	GUSBP4	ENSG00000239650	ENST00000429624	unprocessed_pseudogene	KNOWN	None	18220	None	None	58246051	58250736	-1	C6orf216, SMAC3L, GUSBL2	SMA3-L, FLJ13549
4	GCOM2	ENSG00000227725	ENST00000509133	processed_pseudogene	KNOWN	None	15712	None	None	68904262	68905365	1	GRINL1B	GLURR2
4	GCOM2	ENSG00000227725	ENST00000440470	processed_pseudogene	KNOWN	None	15712	None	None	68904262	68905368	1	GRINL1B	GLURR2
6	SLC25A5P7	ENSG00000218180	ENST00000406156	processed_pseudogene	KNOWN	None	513	None	None	121974941	121975836	1	ANTP7	None
4	None	ENSG00000249519	ENST00000512794	lincRNA	KNOWN	None	None	None	None	111715559	111718500	1	None	None
20	None	ENSG00000241624	ENST00000454223	processed_transcript	PUTATIVE	None	None	None	None	62198794	62199958	-1	None	None
4	None	ENSG00000251808	ENST00000515999	miRNA	NOVEL	None	None	None	None	111774532	111774626	-1	None	None
19	APC2	ENSG00000115266	ENST00000587869	protein_coding	KNOWN	None	24036	522	173	1446300	1455256	1	None	APCL
19	APC2	ENSG00000115266	ENST00000590469	protein_coding	KNOWN	None	24036	2108	701	1450148	1465408	1	None	APCL
19	APC2	ENSG00000115266	ENST00000590877	protein_coding	KNOWN	None	24036	416	137	1450155	1453613	1	None	APCL
19	APC2	ENSG00000115266	ENST00000593146	retained_intron	KNOWN	None	24036	None	None	1450294	1465417	1	None	APCL
19	APC2	ENSG00000115266	ENST00000535453	protein_coding	KNOWN	CCDS12068	24036	6912	2303	1451288	1473237	1	None	APCL
19	APC2	ENSG00000115266	ENST00000587149	protein_coding	KNOWN	None	24036	416	137	1452197	1453613	1	None	APCL
19	APC2	ENSG00000115266	ENST00000233607	protein_coding	KNOWN	CCDS12068	24036	6912	2303	1450148	1473243	1	None	APCL
19	APC2	ENSG00000115266	ENST00000238483	protein_coding	KNOWN	None	24036	6090	2029	1450148	1473243	1	None	APCL
X	SRPX2	ENSG00000102359	ENST00000373004	protein_coding	KNOWN	CCDS14471	30668	1398	465	99899215	99926296	1	None	SRPUL
X	SRPX2	ENSG00000102359	ENST00000481988	processed_transcript	KNOWN	None	30668	None	None	99899218	99906092	1	None	SRPUL
6	None	ENSG00000219135	ENST00000406913	processed_pseudogene	KNOWN	None	None	None	None	122001118	122001605	-1	None	None
4	None	ENSG00000215127	ENST00000600441	processed_transcript	KNOWN	None	None	None	None	68927540	68928987	-1	None	None
4	None	ENSG00000215127	ENST00000481459	transcribed_processed_pseudogene	KNOWN	None	None	None	None	68928266	68928986	-1	None	None
4	None	ENSG00000215127	ENST00000419424	processed_pseudogene	KNOWN	None	None	None	None	68926312	68929015	-1	None	None
20	MAP1LC3A	ENSG00000101460	ENST00000374837	protein_coding	NOVEL	CCDS13237	6838	378	125	33134658	33148149	1	None	MAP1BLC3, MAP1ALC3, LC3, LC3A, ATG8E
20	MAP1LC3A	ENSG00000101460	ENST00000360668	protein_coding	KNOWN	CCDS13238	6838	366	121	33145912	33148149	1	None	MAP1BLC3, MAP1ALC3, LC3, LC3A, ATG8E
20	MAP1LC3A	ENSG00000101460	ENST00000397709	protein_coding	KNOWN	CCDS13238	6838	366	121	33146522	33148149	1	None	MAP1BLC3, MAP1ALC3, LC3, LC3A, ATG8E
20	MAP1LC3A	ENSG00000101460	ENST00000476428	processed_transcript	KNOWN	None	6838	None	None	33146579	33148149	1	None	MAP1BLC3, MAP1ALC3, LC3, LC3A, ATG8E
7	ZNF862	ENSG00000106479	ENST00000223210	protein_coding	KNOWN	CCDS47741	34519	3510	1169	149535456	149564568	1	None	None
7	ZNF862	ENSG00000106479	ENST00000489820	retained_intron	KNOWN	None	34519	None	None	149535464	149542180	1	None	None
7	ZNF862	ENSG00000106479	ENST00000460379	protein_coding	PUTATIVE	None	34519	279	92	149535464	149545113	1	None	None
7	ZNF862	ENSG00000106479	ENST00000488265	retained_intron	KNOWN	None	34519	None	None	149545216	149547976	1	None	None
7	ZNF862	ENSG00000106479	ENST00000466435	processed_transcript	PUTATIVE	None	34519	None	None	149547283	149549831	1	None	None
7	ZNF862	ENSG00000106479	ENST00000478024	processed_transcript	KNOWN	None	34519	None	None	149553063	149557539	1	None	None
12	ARNTL2	ENSG00000029153	ENST00000544915	protein_coding	KNOWN	None	18984	1809	602	27485787	27576241	1	None	BMAL2, MOP9, CLIF, PASD9, bHLHe6
12	ARNTL2	ENSG00000029153	ENST00000395901	protein_coding	KNOWN	CCDS58221	18984	1800	599	27485853	27573466	1	None	BMAL2, MOP9, CLIF, PASD9, bHLHe6
12	ARNTL2	ENSG00000029153	ENST00000546179	protein_coding	PUTATIVE	CCDS58222	18984	1623	540	27485853	27573482	1	None	BMAL2, MOP9, CLIF, PASD9, bHLHe6
12	ARNTL2	ENSG00000029153	ENST00000311001	protein_coding	KNOWN	CCDS58219	18984	1869	622	27485988	27573466	1	None	BMAL2, MOP9, CLIF, PASD9, bHLHe6
12	ARNTL2	ENSG00000029153	ENST00000261178	protein_coding	KNOWN	CCDS58220	18984	1767	588	27485988	27573523	1	None	BMAL2, MOP9, CLIF, PASD9, bHLHe6
12	ARNTL2	ENSG00000029153	ENST00000266503	protein_coding	KNOWN	CCDS8712	18984	1911	636	27485988	27573827	1	None	BMAL2, MOP9, CLIF, PASD9, bHLHe6
12	ARNTL2	ENSG00000029153	ENST00000457040	protein_coding	PUTATIVE	None	18984	1766	587	27521228	27573658	1	None	BMAL2, MOP9, CLIF, PASD9, bHLHe6
12	ARNTL2	ENSG00000029153	ENST00000539558	processed_transcript	KNOWN	None	18984	None	None	27521250	27530436	1	None	BMAL2, MOP9, CLIF, PASD9, bHLHe6
12	ARNTL2	ENSG00000029153	ENST00000542388	protein_coding	KNOWN	None	18984	1656	551	27521269	27573523	1	None	BMAL2, MOP9, CLIF, PASD9, bHLHe6
6	None	ENSG00000217139	ENST00000403062	processed_pseudogene	KNOWN	None	None	None	None	122004071	122005418	1	None	None
6	POM121L14P	ENSG00000218189	ENST00000406100	processed_pseudogene	KNOWN	None	44414	None	None	58263736	58265293	1	None	None
4	FTLP10	ENSG00000250426	ENST00000503647	processed_transcript	KNOWN	None	37959	None	None	69048010	69078188	1	None	None
4	FTLP10	ENSG00000250426	ENST00000505798	transcribed_processed_pseudogene	KNOWN	None	37959	None	None	69048031	69048501	1	None	None
5	ADCY2	ENSG00000078295	ENST00000338316	protein_coding	KNOWN	CCDS3872	233	3276	1091	7396321	7830194	1	None	HBAC2, KIAA1060, AC2
5	ADCY2	ENSG00000078295	ENST00000484965	processed_transcript	KNOWN	None	233	None	None	7414742	7522735	1	None	HBAC2, KIAA1060, AC2
5	ADCY2	ENSG00000078295	ENST00000498598	processed_transcript	KNOWN	None	233	None	None	7414777	7658319	1	None	HBAC2, KIAA1060, AC2
5	ADCY2	ENSG00000078295	ENST00000515681	protein_coding	PUTATIVE	None	233	301	99	7611222	7695929	1	None	HBAC2, KIAA1060, AC2
5	ADCY2	ENSG00000078295	ENST00000513693	processed_transcript	PUTATIVE	None	233	None	None	7685204	7692384	1	None	HBAC2, KIAA1060, AC2
5	ADCY2	ENSG00000078295	ENST00000493243	nonsense_mediated_decay	KNOWN	None	233	230	75	7773181	7820802	1	None	HBAC2, KIAA1060, AC2
5	ADCY2	ENSG00000078295	ENST00000382531	processed_transcript	KNOWN	None	233	None	None	7782286	7816987	1	None	HBAC2, KIAA1060, AC2
5	ADCY2	ENSG00000078295	ENST00000489501	retained_intron	KNOWN	None	233	None	None	7793732	7827645	1	None	HBAC2, KIAA1060, AC2
5	ADCY2	ENSG00000078295	ENST00000537121	protein_coding	KNOWN	None	233	2736	911	7654064	7827152	1	None	HBAC2, KIAA1060, AC2
7	RNF133	ENSG00000188050	ENST00000340112	protein_coding	KNOWN	CCDS5784	21154	1131	376	122337766	122339210	-1	None	None
HSCHR6_MHC_DBB	VARS	ENSG00000096171	ENST00000469502	processed_transcript	PUTATIVE	None	12651	None	None	31727480	31728144	-1	VARS2	None
HSCHR6_MHC_DBB	VARS	ENSG00000096171	ENST00000211402	protein_coding	KNOWN	None	12651	3795	1264	31727480	31745915	-1	VARS2	None
HSCHR6_MHC_DBB	VARS	ENSG00000096171	ENST00000479323	retained_intron	KNOWN	None	12651	None	None	31729192	31730013	-1	VARS2	None
HSCHR6_MHC_DBB	VARS	ENSG00000096171	ENST00000420919	protein_coding	KNOWN	None	12651	863	286	31730417	31732551	-1	VARS2	None
HSCHR6_MHC_DBB	VARS	ENSG00000096171	ENST00000462946	processed_transcript	KNOWN	None	12651	None	None	31730513	31732156	-1	VARS2	None
HSCHR6_MHC_DBB	VARS	ENSG00000096171	ENST00000466837	retained_intron	KNOWN	None	12651	None	None	31730839	31731887	-1	VARS2	None
HSCHR6_MHC_DBB	VARS	ENSG00000096171	ENST00000471313	retained_intron	KNOWN	None	12651	None	None	31730840	31731712	-1	VARS2	None
HSCHR6_MHC_DBB	VARS	ENSG00000096171	ENST00000486789	retained_intron	KNOWN	None	12651	None	None	31731320	31732382	-1	VARS2	None
HSCHR6_MHC_DBB	VARS	ENSG00000096171	ENST00000494362	retained_intron	KNOWN	None	12651	None	None	31731655	31733201	-1	VARS2	None
HSCHR6_MHC_DBB	VARS	ENSG00000096171	ENST00000475799	processed_transcript	KNOWN	None	12651	None	None	31731662	31732391	-1	VARS2	None
HSCHR6_MHC_DBB	VARS	ENSG00000096171	ENST00000476915	retained_intron	KNOWN	None	12651	None	None	31732374	31734397	-1	VARS2	None
HSCHR6_MHC_DBB	VARS	ENSG00000096171	ENST00000489382	retained_intron	KNOWN	None	12651	None	None	31734560	31742922	-1	VARS2	None
HSCHR6_MHC_DBB	VARS	ENSG00000096171	ENST00000470081	retained_intron	KNOWN	None	12651	None	None	31735208	31742240	-1	VARS2	None
HSCHR6_MHC_DBB	VARS	ENSG00000096171	ENST00000425864	protein_coding	KNOWN	None	12651	522	173	31742948	31745461	-1	VARS2	None
14	TRAJ25	ENSG00000211864	ENST00000390512	TR_J_gene	KNOWN	None	12054	60	19	22987790	22987849	1	None	None
6	HMGB3P18	ENSG00000220184	ENST00000406327	processed_pseudogene	KNOWN	None	39310	None	None	122179325	122179914	-1	None	None
7	GGCT	ENSG00000006625	ENST00000440082	nonsense_mediated_decay	KNOWN	None	21705	156	51	30536237	30544445	-1	C7orf24, GCTG	MGC3077, CRF21, Ggc
7	GGCT	ENSG00000006625	ENST00000275428	protein_coding	KNOWN	CCDS5428	21705	567	188	30536237	30544460	-1	C7orf24, GCTG	MGC3077, CRF21, Ggc
7	GGCT	ENSG00000006625	ENST00000409144	protein_coding	NOVEL	CCDS56474	21705	285	94	30536249	30544417	-1	C7orf24, GCTG	MGC3077, CRF21, Ggc
7	GGCT	ENSG00000006625	ENST00000426081	nonsense_mediated_decay	KNOWN	None	21705	359	118	30536400	30540296	-1	C7orf24, GCTG	MGC3077, CRF21, Ggc
7	GGCT	ENSG00000006625	ENST00000447901	nonsense_mediated_decay	KNOWN	None	21705	156	51	30536593	30544417	-1	C7orf24, GCTG	MGC3077, CRF21, Ggc
7	GGCT	ENSG00000006625	ENST00000409390	protein_coding	PUTATIVE	CCDS56476	21705	501	166	30536618	30544415	-1	C7orf24, GCTG	MGC3077, CRF21, Ggc
7	GGCT	ENSG00000006625	ENST00000598361	protein_coding	KNOWN	None	21705	312	103	30536693	30591095	-1	C7orf24, GCTG	MGC3077, CRF21, Ggc
7	GGCT	ENSG00000006625	ENST00000409436	protein_coding	PUTATIVE	None	21705	501	166	30537089	30544432	-1	C7orf24, GCTG	MGC3077, CRF21, Ggc
7	GGCT	ENSG00000006625	ENST00000005374	protein_coding	KNOWN	CCDS56475	21705	345	114	30536239	30544418	-1	C7orf24, GCTG	MGC3077, CRF21, Ggc
22	None	ENSG00000237407	ENST00000434730	lincRNA	KNOWN	None	None	None	None	21667209	21669193	1	None	None
12	CTDSP2	ENSG00000175215	ENST00000398073	protein_coding	KNOWN	CCDS41801	17077	816	271	58213710	58240522	-1	None	OS4, SCP2, PSR2
12	CTDSP2	ENSG00000175215	ENST00000548823	protein_coding	NOVEL	None	17077	297	98	58216583	58240487	-1	None	OS4, SCP2, PSR2
12	CTDSP2	ENSG00000175215	ENST00000547169	retained_intron	KNOWN	None	17077	None	None	58216674	58218326	-1	None	OS4, SCP2, PSR2
12	CTDSP2	ENSG00000175215	ENST00000549039	protein_coding	NOVEL	None	17077	378	125	58216966	58220185	-1	None	OS4, SCP2, PSR2
12	CTDSP2	ENSG00000175215	ENST00000547701	protein_coding	PUTATIVE	None	17077	360	119	58217244	58239317	-1	None	OS4, SCP2, PSR2
12	CTDSP2	ENSG00000175215	ENST00000551594	nonsense_mediated_decay	KNOWN	None	17077	309	102	58217436	58240327	-1	None	OS4, SCP2, PSR2
12	CTDSP2	ENSG00000175215	ENST00000550144	protein_coding	NOVEL	None	17077	544	180	58217741	58223333	-1	None	OS4, SCP2, PSR2
12	CTDSP2	ENSG00000175215	ENST00000552294	retained_intron	KNOWN	None	17077	None	None	58220162	58221190	-1	None	OS4, SCP2, PSR2
10	None	ENSG00000234192	ENST00000414476	processed_pseudogene	KNOWN	None	None	None	None	89402364	89402711	1	None	None
X	None	ENSG00000238106	ENST00000457716	lincRNA	KNOWN	None	None	None	None	70939766	70940650	1	None	None
2	ANO7	ENSG00000146205	ENST00000402530	protein_coding	KNOWN	CCDS46563	31677	540	179	242127924	242135583	1	PCANAP5, TMEM16G	NGEP, PCANAP5L, IPCA-5
2	ANO7	ENSG00000146205	ENST00000274979	protein_coding	KNOWN	CCDS33423	31677	2802	933	242127924	242164791	1	PCANAP5, TMEM16G	NGEP, PCANAP5L, IPCA-5
2	ANO7	ENSG00000146205	ENST00000402430	protein_coding	KNOWN	None	31677	2652	883	242128027	242162772	1	PCANAP5, TMEM16G	NGEP, PCANAP5L, IPCA-5
2	ANO7	ENSG00000146205	ENST00000475532	retained_intron	KNOWN	None	31677	None	None	242138512	242139593	1	PCANAP5, TMEM16G	NGEP, PCANAP5L, IPCA-5
2	ANO7	ENSG00000146205	ENST00000471606	retained_intron	KNOWN	None	31677	None	None	242151563	242152291	1	PCANAP5, TMEM16G	NGEP, PCANAP5L, IPCA-5
2	ANO7	ENSG00000146205	ENST00000451047	protein_coding	PUTATIVE	None	31677	555	184	242157030	242163120	1	PCANAP5, TMEM16G	NGEP, PCANAP5L, IPCA-5
2	ANO7	ENSG00000146205	ENST00000487192	retained_intron	KNOWN	None	31677	None	None	242157600	242164599	1	PCANAP5, TMEM16G	NGEP, PCANAP5L, IPCA-5
2	ANO7	ENSG00000146205	ENST00000481071	retained_intron	KNOWN	None	31677	None	None	242157688	242164660	1	PCANAP5, TMEM16G	NGEP, PCANAP5L, IPCA-5
2	ANO7	ENSG00000146205	ENST00000459928	retained_intron	KNOWN	None	31677	None	None	242157709	242164792	1	PCANAP5, TMEM16G	NGEP, PCANAP5L, IPCA-5
X	None	ENSG00000237182	ENST00000430476	processed_pseudogene	KNOWN	None	None	None	None	70956304	70956553	-1	None	None
22	PPP1R26P5	ENSG00000232771	ENST00000416640	processed_pseudogene	KNOWN	None	42019	None	None	21695884	21699547	1	KIAA0649P5	None
9	RN7SL338P	ENSG00000241568	ENST00000481467	misc_RNA	KNOWN	None	46354	None	None	35049268	35049558	1	None	None
13	ITGBL1	ENSG00000198542	ENST00000376180	protein_coding	KNOWN	CCDS9499	6164	1485	494	102104966	102368794	1	None	TIED, OSCP
13	ITGBL1	ENSG00000198542	ENST00000545560	protein_coding	PUTATIVE	None	6164	1062	353	102105018	102370694	1	None	TIED, OSCP
13	ITGBL1	ENSG00000198542	ENST00000490242	protein_coding	PUTATIVE	None	6164	625	207	102250495	102370694	1	None	TIED, OSCP
13	ITGBL1	ENSG00000198542	ENST00000474233	retained_intron	KNOWN	None	6164	None	None	102250496	102345294	1	None	TIED, OSCP
13	ITGBL1	ENSG00000198542	ENST00000415285	processed_transcript	KNOWN	None	6164	None	None	102369914	102375456	1	None	TIED, OSCP
13	ITGBL1	ENSG00000198542	ENST00000376162	protein_coding	KNOWN	None	6164	1206	401	102142303	102368309	1	None	TIED, OSCP
22	None	ENSG00000226534	ENST00000422450	processed_pseudogene	KNOWN	None	None	None	None	21724353	21726234	1	None	None
X	None	ENSG00000237717	ENST00000455722	processed_pseudogene	KNOWN	None	None	None	None	70964678	70964927	1	None	None
9	None	ENSG00000234181	ENST00000431804	antisense	KNOWN	None	None	None	None	35096375	35098138	1	None	None
10	CFL1P1	ENSG00000223820	ENST00000456375	processed_transcript	KNOWN	None	28560	None	None	89577685	89579020	1	CFLP1	MGC35136
10	CFL1P1	ENSG00000223820	ENST00000438248	processed_transcript	KNOWN	None	28560	None	None	89578070	89605369	1	CFLP1	MGC35136
10	CFL1P1	ENSG00000223820	ENST00000415212	processed_transcript	KNOWN	None	28560	None	None	89578182	89578838	1	CFLP1	MGC35136
10	CFL1P1	ENSG00000223820	ENST00000432948	transcribed_unprocessed_pseudogene	KNOWN	None	28560	None	None	89603627	89604037	1	CFLP1	MGC35136
3	HHLA2	ENSG00000114455	ENST00000467282	protein_coding	PUTATIVE	None	4905	384	127	108015376	108074026	1	None	B7H7
3	HHLA2	ENSG00000114455	ENST00000463019	protein_coding	KNOWN	None	4905	434	143	108015391	108073977	1	None	B7H7
3	HHLA2	ENSG00000114455	ENST00000491820	protein_coding	NOVEL	None	4905	1194	397	108015393	108096125	1	None	B7H7
3	HHLA2	ENSG00000114455	ENST00000467562	protein_coding	PUTATIVE	None	4905	1053	350	108015394	108096355	1	None	B7H7
3	HHLA2	ENSG00000114455	ENST00000482430	protein_coding	KNOWN	None	4905	408	135	108015395	108072617	1	None	B7H7
3	HHLA2	ENSG00000114455	ENST00000462629	protein_coding	KNOWN	None	4905	291	96	108015396	108072500	1	None	B7H7
3	HHLA2	ENSG00000114455	ENST00000357759	protein_coding	KNOWN	CCDS46883	4905	1245	414	108021332	108097132	1	None	B7H7
3	HHLA2	ENSG00000114455	ENST00000467761	protein_coding	KNOWN	CCDS46883	4905	1245	414	108029488	108097132	1	None	B7H7
3	HHLA2	ENSG00000114455	ENST00000489514	protein_coding	KNOWN	CCDS46883	4905	1245	414	108030632	108097132	1	None	B7H7
3	HHLA2	ENSG00000114455	ENST00000482099	protein_coding	PUTATIVE	None	4905	985	327	108072503	108097132	1	None	B7H7
6	LINC00680	ENSG00000215190	ENST00000450081	processed_transcript	KNOWN	None	44417	None	None	58272352	58287779	-1	None	None
6	LINC00680	ENSG00000215190	ENST00000418765	processed_transcript	KNOWN	None	44417	None	None	58272352	58287779	-1	None	None
6	LINC00680	ENSG00000215190	ENST00000399751	processed_transcript	KNOWN	None	44417	None	None	58272356	58287658	-1	None	None
6	LINC00680	ENSG00000215190	ENST00000418368	processed_transcript	KNOWN	None	44417	None	None	58272356	58287658	-1	None	None
6	LINC00680	ENSG00000215190	ENST00000422882	processed_transcript	KNOWN	None	44417	None	None	58272361	58276677	-1	None	None
9	None	ENSG00000215198	ENST00000439134	processed_pseudogene	KNOWN	None	None	None	None	35147407	35149181	-1	None	None
X	None	ENSG00000221684	ENST00000408757	miRNA	NOVEL	None	None	None	None	70979235	70979305	-1	None	None
X	None	ENSG00000231774	ENST00000439926	lincRNA	KNOWN	None	None	None	None	70980625	70981509	-1	None	None
6	PTPRK	ENSG00000152894	ENST00000368226	protein_coding	KNOWN	CCDS5137	9674	4323	1440	128289924	128841819	-1	None	R-PTP-kappa
6	PTPRK	ENSG00000152894	ENST00000532331	protein_coding	NOVEL	None	9674	4389	1462	128290122	128841621	-1	None	R-PTP-kappa
6	PTPRK	ENSG00000152894	ENST00000368213	protein_coding	KNOWN	CCDS47473	9674	4341	1446	128290122	128841728	-1	None	R-PTP-kappa
6	PTPRK	ENSG00000152894	ENST00000368210	protein_coding	NOVEL	None	9674	4377	1458	128290982	128841761	-1	None	R-PTP-kappa
6	PTPRK	ENSG00000152894	ENST00000368215	protein_coding	KNOWN	None	9674	4320	1439	128291041	128841503	-1	None	R-PTP-kappa
6	PTPRK	ENSG00000152894	ENST00000368207	protein_coding	NOVEL	None	9674	4419	1472	128291258	128841728	-1	None	R-PTP-kappa
6	PTPRK	ENSG00000152894	ENST00000415046	protein_coding	NOVEL	None	9674	1029	342	128306966	128385908	-1	None	R-PTP-kappa
6	PTPRK	ENSG00000152894	ENST00000415055	protein_coding	NOVEL	None	9674	782	259	128312005	128329222	-1	None	R-PTP-kappa
6	PTPRK	ENSG00000152894	ENST00000531050	nonsense_mediated_decay	KNOWN	None	9674	63	20	128321132	128718762	-1	None	R-PTP-kappa
6	PTPRK	ENSG00000152894	ENST00000524481	processed_transcript	KNOWN	None	9674	None	None	128321132	128841744	-1	None	R-PTP-kappa
6	PTPRK	ENSG00000152894	ENST00000531466	retained_intron	KNOWN	None	9674	None	None	128326122	128330317	-1	None	R-PTP-kappa
6	PTPRK	ENSG00000152894	ENST00000434424	processed_transcript	KNOWN	None	9674	None	None	128383211	128388822	-1	None	R-PTP-kappa
6	PTPRK	ENSG00000152894	ENST00000524534	processed_transcript	KNOWN	None	9674	None	None	128384581	128841660	-1	None	R-PTP-kappa
6	PTPRK	ENSG00000152894	ENST00000368205	processed_transcript	KNOWN	None	9674	None	None	128505577	128562444	-1	None	R-PTP-kappa
6	PTPRK	ENSG00000152894	ENST00000490332	protein_coding	NOVEL	None	9674	612	203	128505577	128643326	-1	None	R-PTP-kappa
6	PTPRK	ENSG00000152894	ENST00000498284	processed_transcript	KNOWN	None	9674	None	None	128505718	128553296	-1	None	R-PTP-kappa
6	PTPRK	ENSG00000152894	ENST00000495748	processed_transcript	KNOWN	None	9674	None	None	128540215	128813002	-1	None	R-PTP-kappa
6	PTPRK	ENSG00000152894	ENST00000429595	processed_transcript	KNOWN	None	9674	None	None	128556525	128643318	-1	None	R-PTP-kappa
6	PTPRK	ENSG00000152894	ENST00000525459	protein_coding	PUTATIVE	None	9674	747	248	128642186	128841732	-1	None	R-PTP-kappa
6	PTPRK	ENSG00000152894	ENST00000392449	nonsense_mediated_decay	KNOWN	None	9674	234	77	128642548	128841710	-1	None	R-PTP-kappa
6	PTPRK	ENSG00000152894	ENST00000532751	nonsense_mediated_decay	KNOWN	None	9674	120	39	128643396	128841744	-1	None	R-PTP-kappa
6	PTPRK	ENSG00000152894	ENST00000368202	processed_transcript	KNOWN	None	9674	None	None	128840073	128841715	-1	None	R-PTP-kappa
6	PTPRK	ENSG00000152894	ENST00000368227	protein_coding	KNOWN	None	9674	4374	1457	128289925	128841870	-1	None	R-PTP-kappa
X	None	ENSG00000234442	ENST00000456199	pseudogene	NOVEL	None	None	None	None	70981815	70982283	-1	None	None
20	None	ENSG00000232442	ENST00000449500	antisense	KNOWN	None	None	None	None	62258580	62260177	1	None	None
20	None	ENSG00000232442	ENST00000411579	antisense	KNOWN	None	None	None	None	62258603	62260060	1	None	None
19	ZNF419	ENSG00000105136	ENST00000426954	protein_coding	KNOWN	CCDS54327	20648	1497	498	57999079	58006040	1	ZNF419A	None
19	ZNF419	ENSG00000105136	ENST00000523882	protein_coding	PUTATIVE	None	20648	344	113	57999086	58003107	1	ZNF419A	None
19	ZNF419	ENSG00000105136	ENST00000520540	protein_coding	PUTATIVE	None	20648	294	97	57999086	58003652	1	ZNF419A	None
19	ZNF419	ENSG00000105136	ENST00000519310	protein_coding	PUTATIVE	None	20648	150	49	57999086	58004339	1	ZNF419A	None
19	ZNF419	ENSG00000105136	ENST00000442920	protein_coding	KNOWN	CCDS54328	20648	1494	497	57999086	58005588	1	ZNF419A	None
19	ZNF419	ENSG00000105136	ENST00000523312	protein_coding	PUTATIVE	None	20648	341	112	57999088	58003146	1	ZNF419A	None
19	ZNF419	ENSG00000105136	ENST00000523439	retained_intron	KNOWN	None	20648	None	None	57999088	58005621	1	ZNF419A	None
19	ZNF419	ENSG00000105136	ENST00000424930	protein_coding	KNOWN	CCDS54325	20648	1536	511	57999090	58006016	1	ZNF419A	None
19	ZNF419	ENSG00000105136	ENST00000347466	protein_coding	KNOWN	CCDS42637	20648	1437	478	57999109	58006032	1	ZNF419A	None
19	ZNF419	ENSG00000105136	ENST00000523138	protein_coding	PUTATIVE	None	20648	261	86	57999118	58003027	1	ZNF419A	None
19	ZNF419	ENSG00000105136	ENST00000415379	protein_coding	KNOWN	CCDS46211	20648	1395	464	57999118	58006048	1	ZNF419A	None
19	ZNF419	ENSG00000105136	ENST00000521754	protein_coding	KNOWN	None	20648	363	120	57999121	58004423	1	ZNF419A	None
19	ZNF419	ENSG00000105136	ENST00000221735	protein_coding	KNOWN	CCDS54326	20648	1533	510	57999133	58006048	1	ZNF419A	None
19	ZNF419	ENSG00000105136	ENST00000518999	protein_coding	PUTATIVE	None	20648	333	110	57999139	58003844	1	ZNF419A	None
19	ZNF419	ENSG00000105136	ENST00000521137	protein_coding	NOVEL	None	20648	520	172	57999149	58004544	1	ZNF419A	None
19	ZNF419	ENSG00000105136	ENST00000522346	retained_intron	KNOWN	None	20648	None	None	57999333	58006033	1	ZNF419A	None
19	ZNF419	ENSG00000105136	ENST00000354197	protein_coding	KNOWN	None	20648	1329	442	57999079	58005458	1	ZNF419A	None
15	None	ENSG00000259236	ENST00000559009	unprocessed_pseudogene	KNOWN	None	None	None	None	102311961	102322192	-1	None	None
8	FOXH1	ENSG00000160973	ENST00000377317	protein_coding	KNOWN	CCDS6428	3814	1098	365	145698795	145701718	-1	None	FAST1
8	FOXH1	ENSG00000160973	ENST00000525197	processed_transcript	KNOWN	None	3814	None	None	145700256	145701206	-1	None	FAST1
9	GDA	ENSG00000119125	ENST00000376986	protein_coding	KNOWN	None	4212	1182	393	74764369	74868476	1	None	None
9	GDA	ENSG00000119125	ENST00000358399	protein_coding	KNOWN	CCDS6641	4212	1365	454	74764383	74867140	1	None	None
9	GDA	ENSG00000119125	ENST00000475764	nonsense_mediated_decay	KNOWN	CCDS6641	4212	1365	454	74764391	74867140	1	None	None
9	GDA	ENSG00000119125	ENST00000477618	processed_transcript	KNOWN	None	4212	None	None	74808738	74844087	1	None	None
9	GDA	ENSG00000119125	ENST00000414671	protein_coding	KNOWN	None	4212	586	194	74825631	74846097	1	None	None
9	GDA	ENSG00000119125	ENST00000489618	nonsense_mediated_decay	KNOWN	None	4212	530	175	74842872	74872109	1	None	None
9	GDA	ENSG00000119125	ENST00000436438	protein_coding	KNOWN	None	4212	540	179	74842913	74867140	1	None	None
9	GDA	ENSG00000119125	ENST00000238018	protein_coding	KNOWN	CCDS56576	4212	1416	471	74764293	74865720	1	None	None
9	GDA	ENSG00000119125	ENST00000376989	protein_coding	KNOWN	None	4212	1233	410	74764293	74865720	1	None	None
9	GDA	ENSG00000119125	ENST00000545168	protein_coding	KNOWN	CCDS56577	4212	1143	380	74729511	74863309	1	None	None
11	C11orf70	ENSG00000137691	ENST00000434758	protein_coding	KNOWN	CCDS8313	28188	804	267	101918174	101955291	1	None	MGC13040
11	C11orf70	ENSG00000137691	ENST00000526781	protein_coding	PUTATIVE	None	28188	726	241	101918186	101952166	1	None	MGC13040
11	C11orf70	ENSG00000137691	ENST00000534360	protein_coding	PUTATIVE	CCDS53698	28188	300	99	101918189	101946842	1	None	MGC13040
11	C11orf70	ENSG00000137691	ENST00000530659	retained_intron	KNOWN	None	28188	None	None	101918199	101954150	1	None	MGC13040
11	C11orf70	ENSG00000137691	ENST00000529204	protein_coding	PUTATIVE	None	28188	287	94	101937273	101946842	1	None	MGC13040
17	SLC52A1	ENSG00000132517	ENST00000254853	protein_coding	KNOWN	CCDS11066	30225	1347	448	4935895	4938721	-1	GPR172B	FLJ10060, GPCR42, PAR2, hRFT1, RFVT1
17	SLC52A1	ENSG00000132517	ENST00000573674	retained_intron	KNOWN	None	30225	None	None	4935898	4938719	-1	GPR172B	FLJ10060, GPCR42, PAR2, hRFT1, RFVT1
17	SLC52A1	ENSG00000132517	ENST00000512825	protein_coding	NOVEL	None	30225	1053	350	4935898	4955304	-1	GPR172B	FLJ10060, GPCR42, PAR2, hRFT1, RFVT1
17	SLC52A1	ENSG00000132517	ENST00000575919	retained_intron	KNOWN	None	30225	None	None	4936011	4938717	-1	GPR172B	FLJ10060, GPCR42, PAR2, hRFT1, RFVT1
17	SLC52A1	ENSG00000132517	ENST00000424747	protein_coding	KNOWN	CCDS11066	30225	1347	448	4935900	4938727	-1	GPR172B	FLJ10060, GPCR42, PAR2, hRFT1, RFVT1
9	ATP8B5P	ENSG00000179766	ENST00000430846	processed_transcript	KNOWN	None	27245	None	None	35406752	35451112	1	None	FetA
9	ATP8B5P	ENSG00000179766	ENST00000439972	processed_transcript	KNOWN	None	27245	None	None	35406752	35451112	1	None	FetA
9	ATP8B5P	ENSG00000179766	ENST00000329395	processed_transcript	KNOWN	None	27245	None	None	35406752	35483026	1	None	FetA
9	ATP8B5P	ENSG00000179766	ENST00000423138	transcribed_unprocessed_pseudogene	KNOWN	None	27245	None	None	35433704	35482207	1	None	FetA
9	ATP8B5P	ENSG00000179766	ENST00000417941	unprocessed_pseudogene	KNOWN	None	27245	None	None	35406765	35483026	1	None	FetA
18	None	ENSG00000262352	ENST00000575820	lincRNA	KNOWN	None	None	None	None	11103	15822	1	None	None
18	None	ENSG00000262352	ENST00000572573	lincRNA	KNOWN	None	None	None	None	11191	15928	1	None	None
12	VWF	ENSG00000110799	ENST00000261405	protein_coding	KNOWN	CCDS8539	12726	8442	2813	6058040	6233841	-1	F8VWF	None
12	VWF	ENSG00000110799	ENST00000538635	processed_transcript	KNOWN	None	12726	None	None	6103046	6233936	-1	F8VWF	None
12	VWF	ENSG00000110799	ENST00000539641	processed_transcript	PUTATIVE	None	12726	None	None	6128694	6131092	-1	F8VWF	None
12	VWF	ENSG00000110799	ENST00000321023	nonsense_mediated_decay	KNOWN	None	12726	183	60	6204449	6233836	-1	F8VWF	None
12	VWF	ENSG00000110799	ENST00000538563	nonsense_mediated_decay	KNOWN	None	12726	183	60	6230343	6233836	-1	F8VWF	None
12	VWF	ENSG00000110799	ENST00000545906	processed_transcript	PUTATIVE	None	12726	None	None	6231872	6233840	-1	F8VWF	None
12	VWF	ENSG00000110799	ENST00000540192	processed_transcript	KNOWN	None	12726	None	None	6231890	6233831	-1	F8VWF	None
12	VWF	ENSG00000110799	ENST00000572068	protein_coding	KNOWN	None	12726	822	273	6204449	6233836	-1	F8VWF	None
11	None	ENSG00000230080	ENST00000441772	processed_pseudogene	KNOWN	None	None	None	None	1824119	1825325	-1	None	None
15	GOLGA6L2	ENSG00000174450	ENST00000566571	nonsense_mediated_decay	KNOWN	None	26695	627	208	23684645	23692381	-1	None	CT105, FLJ36144
15	GOLGA6L2	ENSG00000174450	ENST00000567107	protein_coding	PUTATIVE	None	26695	2730	909	23684645	23692381	-1	None	CT105, FLJ36144
15	GOLGA6L2	ENSG00000174450	ENST00000312015	protein_coding	KNOWN	None	26695	1953	650	23684690	23692381	-1	None	CT105, FLJ36144
15	GOLGA6L2	ENSG00000174450	ENST00000345070	protein_coding	KNOWN	None	26695	945	314	23684645	23692381	-1	None	CT105, FLJ36144
7	RNF148	ENSG00000235631	ENST00000434824	protein_coding	KNOWN	CCDS47692	22411	918	305	122341718	122343021	-1	None	MGC35222
7	RNF148	ENSG00000235631	ENST00000447240	protein_coding	PUTATIVE	None	22411	306	101	122341724	122342966	-1	None	MGC35222
Y	KDM5D	ENSG00000012817	ENST00000469599	retained_intron	KNOWN	None	11115	None	None	21865751	21878581	-1	HYA, HY, SMCY, JARID1D	KIAA0234
Y	KDM5D	ENSG00000012817	ENST00000317961	protein_coding	KNOWN	CCDS14794	11115	4620	1539	21867301	21906809	-1	HYA, HY, SMCY, JARID1D	KIAA0234
Y	KDM5D	ENSG00000012817	ENST00000382806	protein_coding	KNOWN	CCDS55554	11115	4449	1482	21867306	21906647	-1	HYA, HY, SMCY, JARID1D	KIAA0234
Y	KDM5D	ENSG00000012817	ENST00000492117	retained_intron	KNOWN	None	11115	None	None	21867311	21884353	-1	HYA, HY, SMCY, JARID1D	KIAA0234
Y	KDM5D	ENSG00000012817	ENST00000440077	protein_coding	KNOWN	None	11115	4429	1475	21867949	21906809	-1	HYA, HY, SMCY, JARID1D	KIAA0234
Y	KDM5D	ENSG00000012817	ENST00000415360	protein_coding	KNOWN	None	11115	880	292	21869068	21870835	-1	HYA, HY, SMCY, JARID1D	KIAA0234
Y	KDM5D	ENSG00000012817	ENST00000485154	retained_intron	KNOWN	None	11115	None	None	21871586	21872492	-1	HYA, HY, SMCY, JARID1D	KIAA0234
Y	KDM5D	ENSG00000012817	ENST00000478891	retained_intron	KNOWN	None	11115	None	None	21877022	21878234	-1	HYA, HY, SMCY, JARID1D	KIAA0234
Y	KDM5D	ENSG00000012817	ENST00000447300	protein_coding	KNOWN	None	11115	1276	424	21883158	21906597	-1	HYA, HY, SMCY, JARID1D	KIAA0234
Y	KDM5D	ENSG00000012817	ENST00000541639	protein_coding	KNOWN	CCDS55555	11115	4713	1570	21867303	21906825	-1	HYA, HY, SMCY, JARID1D	KIAA0234
10	None	ENSG00000188722	ENST00000341742	pseudogene	KNOWN	None	None	None	None	129534323	129534969	-1	None	None
X	CXorf49B	ENSG00000215113	ENST00000440412	lincRNA	KNOWN	None	34229	None	None	70985038	70987054	1	None	None
X	CXorf49B	ENSG00000215113	ENST00000542739	lincRNA	KNOWN	None	34229	None	None	70983140	70987051	1	None	None
10	None	ENSG00000270778	ENST00000603541	processed_pseudogene	KNOWN	None	None	None	None	129666145	129666751	1	None	None
16	NAE1	ENSG00000159593	ENST00000562428	protein_coding	PUTATIVE	None	621	339	112	66836778	66842451	-1	APPBP1	ula-1
16	NAE1	ENSG00000159593	ENST00000359087	protein_coding	NOVEL	None	621	1614	537	66836778	66864879	-1	APPBP1	ula-1
16	NAE1	ENSG00000159593	ENST00000290810	protein_coding	KNOWN	CCDS10820	621	1605	534	66836778	66864900	-1	APPBP1	ula-1
16	NAE1	ENSG00000159593	ENST00000566663	protein_coding	PUTATIVE	None	621	393	130	66836781	66844602	-1	APPBP1	ula-1
16	NAE1	ENSG00000159593	ENST00000563221	retained_intron	KNOWN	None	621	None	None	66836783	66839972	-1	APPBP1	ula-1
16	NAE1	ENSG00000159593	ENST00000568672	retained_intron	KNOWN	None	621	None	None	66836783	66840048	-1	APPBP1	ula-1
16	NAE1	ENSG00000159593	ENST00000379463	protein_coding	NOVEL	CCDS42171	621	1587	528	66836783	66864879	-1	APPBP1	ula-1
16	NAE1	ENSG00000159593	ENST00000394074	protein_coding	NOVEL	CCDS42172	621	1338	445	66836815	66864858	-1	APPBP1	ula-1
16	NAE1	ENSG00000159593	ENST00000562074	retained_intron	KNOWN	None	621	None	None	66839533	66842597	-1	APPBP1	ula-1
16	NAE1	ENSG00000159593	ENST00000567521	retained_intron	KNOWN	None	621	None	None	66847032	66850619	-1	APPBP1	ula-1
16	NAE1	ENSG00000159593	ENST00000567743	nonsense_mediated_decay	KNOWN	None	621	78	25	66850517	66864871	-1	APPBP1	ula-1
16	NAE1	ENSG00000159593	ENST00000563253	nonsense_mediated_decay	KNOWN	None	621	72	23	66850550	66864862	-1	APPBP1	ula-1
16	NAE1	ENSG00000159593	ENST00000563185	protein_coding	PUTATIVE	None	621	327	108	66851337	66864876	-1	APPBP1	ula-1
16	NAE1	ENSG00000159593	ENST00000561579	protein_coding	PUTATIVE	None	621	372	123	66851373	66907159	-1	APPBP1	ula-1
16	NAE1	ENSG00000159593	ENST00000564040	processed_transcript	KNOWN	None	621	None	None	66852536	66864866	-1	APPBP1	ula-1
16	NAE1	ENSG00000159593	ENST00000569388	nonsense_mediated_decay	KNOWN	None	621	258	85	66855349	66864880	-1	APPBP1	ula-1
16	NAE1	ENSG00000159593	ENST00000566336	protein_coding	PUTATIVE	None	621	487	161	66855359	66864820	-1	APPBP1	ula-1
16	NAE1	ENSG00000159593	ENST00000565535	protein_coding	PUTATIVE	None	621	503	166	66857133	66864879	-1	APPBP1	ula-1
16	NAE1	ENSG00000159593	ENST00000569348	nonsense_mediated_decay	KNOWN	None	621	195	64	66857184	66864879	-1	APPBP1	ula-1
16	NAE1	ENSG00000159593	ENST00000562757	retained_intron	KNOWN	None	621	None	None	66857245	66864879	-1	APPBP1	ula-1
16	NAE1	ENSG00000159593	ENST00000563419	retained_intron	KNOWN	None	621	None	None	66858419	66864863	-1	APPBP1	ula-1
16	NAE1	ENSG00000159593	ENST00000569963	retained_intron	KNOWN	None	621	None	None	66860002	66864879	-1	APPBP1	ula-1
10	None	ENSG00000232259	ENST00000420845	lincRNA	KNOWN	None	None	None	None	129727640	129732781	-1	None	None
7	None	ENSG00000235945	ENST00000299783	processed_pseudogene	KNOWN	None	None	None	None	116513508	116516430	-1	None	None
6	MCUR1	ENSG00000050393	ENST00000379170	protein_coding	KNOWN	CCDS35495	21097	1080	359	13786789	13814800	-1	C6orf79, CCDC90A	FLJ20958
6	MCUR1	ENSG00000050393	ENST00000607303	protein_coding	PUTATIVE	None	21097	373	123	13787366	13801577	-1	C6orf79, CCDC90A	FLJ20958
6	MCUR1	ENSG00000050393	ENST00000488770	nonsense_mediated_decay	KNOWN	None	21097	774	257	13791020	13814800	-1	C6orf79, CCDC90A	FLJ20958
6	MCUR1	ENSG00000050393	ENST00000359495	protein_coding	KNOWN	None	21097	774	257	13804309	13814789	-1	C6orf79, CCDC90A	FLJ20958
10	None	ENSG00000227076	ENST00000433110	sense_intronic	KNOWN	None	None	None	None	129732962	129734431	1	None	None
14	TRAJ24	ENSG00000211865	ENST00000390513	TR_J_gene	KNOWN	None	12053	63	20	22988947	22989009	1	None	None
9	C9orf114	ENSG00000198917	ENST00000361256	protein_coding	KNOWN	CCDS6913	26933	1131	376	131581930	131592100	-1	None	HSPC109, CENP-32
9	C9orf114	ENSG00000198917	ENST00000467582	protein_coding	PUTATIVE	None	26933	264	87	131584370	131587101	-1	None	HSPC109, CENP-32
9	C9orf114	ENSG00000198917	ENST00000480366	retained_intron	KNOWN	None	26933	None	None	131585077	131588502	-1	None	HSPC109, CENP-32
9	C9orf114	ENSG00000198917	ENST00000466556	retained_intron	KNOWN	None	26933	None	None	131588261	131592058	-1	None	HSPC109, CENP-32
9	C9orf114	ENSG00000198917	ENST00000467396	retained_intron	KNOWN	None	26933	None	None	131588300	131589489	-1	None	HSPC109, CENP-32
7	TAS2R16	ENSG00000128519	ENST00000249284	protein_coding	KNOWN	CCDS5785	14921	876	291	122634759	122635754	-1	None	T2R16
10	None	ENSG00000234640	ENST00000454492	lincRNA	KNOWN	None	None	None	None	130114546	130118478	-1	None	None
14	SLC35F4	ENSG00000151812	ENST00000556826	protein_coding	NOVEL	None	19845	1458	485	58030640	58332780	-1	C14orf36	FLJ37712
14	SLC35F4	ENSG00000151812	ENST00000554729	protein_coding	PUTATIVE	None	19845	1089	362	58030696	58063615	-1	C14orf36	FLJ37712
14	SLC35F4	ENSG00000151812	ENST00000557254	nonsense_mediated_decay	KNOWN	None	19845	456	151	58030857	58063615	-1	C14orf36	FLJ37712
14	SLC35F4	ENSG00000151812	ENST00000556306	nonsense_mediated_decay	KNOWN	None	19845	140	45	58036581	58048053	-1	C14orf36	FLJ37712
14	SLC35F4	ENSG00000151812	ENST00000557430	processed_transcript	KNOWN	None	19845	None	None	58060763	58266225	-1	C14orf36	FLJ37712
14	SLC35F4	ENSG00000151812	ENST00000556568	processed_transcript	PUTATIVE	None	19845	None	None	58070726	58448912	-1	C14orf36	FLJ37712
14	SLC35F4	ENSG00000151812	ENST00000554648	processed_transcript	PUTATIVE	None	19845	None	None	58443469	58448781	-1	C14orf36	FLJ37712
14	SLC35F4	ENSG00000151812	ENST00000339762	protein_coding	KNOWN	None	19845	1566	521	58030640	58063615	-1	C14orf36	FLJ37712
5	None	ENSG00000240052	ENST00000477321	processed_pseudogene	KNOWN	None	None	None	None	52709334	52710090	1	None	None
10	None	ENSG00000224190	ENST00000446589	lincRNA	KNOWN	None	None	None	None	130711143	130714535	1	None	None
5	None	ENSG00000238508	ENST00000458939	miRNA	NOVEL	None	None	None	None	52905417	52905488	1	None	None
2	IWS1	ENSG00000163166	ENST00000412979	nonsense_mediated_decay	KNOWN	None	25467	102	33	128193783	128244194	-1	None	DKFZp761G0123, FLJ10006, FLJ14655, FLJ32319
2	IWS1	ENSG00000163166	ENST00000295321	protein_coding	KNOWN	CCDS2146	25467	2460	819	128238382	128284044	-1	None	DKFZp761G0123, FLJ10006, FLJ14655, FLJ32319
2	IWS1	ENSG00000163166	ENST00000497888	retained_intron	KNOWN	None	25467	None	None	128260155	128262367	-1	None	DKFZp761G0123, FLJ10006, FLJ14655, FLJ32319
2	IWS1	ENSG00000163166	ENST00000495369	processed_transcript	PUTATIVE	None	25467	None	None	128262574	128284042	-1	None	DKFZp761G0123, FLJ10006, FLJ14655, FLJ32319
2	IWS1	ENSG00000163166	ENST00000409725	protein_coding	PUTATIVE	None	25467	878	291	128262616	128284462	-1	None	DKFZp761G0123, FLJ10006, FLJ14655, FLJ32319
2	IWS1	ENSG00000163166	ENST00000486662	processed_transcript	PUTATIVE	None	25467	None	None	128262767	128284058	-1	None	DKFZp761G0123, FLJ10006, FLJ14655, FLJ32319
2	IWS1	ENSG00000163166	ENST00000479083	processed_transcript	PUTATIVE	None	25467	None	None	128262818	128284057	-1	None	DKFZp761G0123, FLJ10006, FLJ14655, FLJ32319
2	IWS1	ENSG00000163166	ENST00000478949	processed_transcript	PUTATIVE	None	25467	None	None	128262883	128272513	-1	None	DKFZp761G0123, FLJ10006, FLJ14655, FLJ32319
2	IWS1	ENSG00000163166	ENST00000460511	processed_transcript	PUTATIVE	None	25467	None	None	128262926	128284065	-1	None	DKFZp761G0123, FLJ10006, FLJ14655, FLJ32319
2	IWS1	ENSG00000163166	ENST00000483889	processed_transcript	PUTATIVE	None	25467	None	None	128262964	128284065	-1	None	DKFZp761G0123, FLJ10006, FLJ14655, FLJ32319
2	IWS1	ENSG00000163166	ENST00000436740	processed_transcript	KNOWN	None	25467	None	None	128263131	128284016	-1	None	DKFZp761G0123, FLJ10006, FLJ14655, FLJ32319
2	IWS1	ENSG00000163166	ENST00000455721	protein_coding	KNOWN	None	25467	1512	503	128249564	128284058	-1	None	DKFZp761G0123, FLJ10006, FLJ14655, FLJ32319
1	SRRM1	ENSG00000133226	ENST00000471693	processed_transcript	KNOWN	None	16638	None	None	24958207	24962368	1	None	SRM160, POP101, MGC39488
1	SRRM1	ENSG00000133226	ENST00000478890	processed_transcript	KNOWN	None	16638	None	None	24959557	24976523	1	None	SRM160, POP101, MGC39488
1	SRRM1	ENSG00000133226	ENST00000593639	protein_coding	PUTATIVE	None	16638	305	100	24967722	24976478	1	None	SRM160, POP101, MGC39488
1	SRRM1	ENSG00000133226	ENST00000323848	protein_coding	KNOWN	CCDS255	16638	2715	904	24969503	24999758	1	None	SRM160, POP101, MGC39488
1	SRRM1	ENSG00000133226	ENST00000466910	processed_transcript	KNOWN	None	16638	None	None	24969763	24974079	1	None	SRM160, POP101, MGC39488
1	SRRM1	ENSG00000133226	ENST00000468822	processed_transcript	KNOWN	None	16638	None	None	24969766	24979005	1	None	SRM160, POP101, MGC39488
1	SRRM1	ENSG00000133226	ENST00000600523	nonsense_mediated_decay	KNOWN	None	16638	240	79	24969779	24975378	1	None	SRM160, POP101, MGC39488
1	SRRM1	ENSG00000133226	ENST00000462710	retained_intron	KNOWN	None	16638	None	None	24969784	24976577	1	None	SRM160, POP101, MGC39488
1	SRRM1	ENSG00000133226	ENST00000374389	protein_coding	NOVEL	None	16638	2742	913	24969790	24999117	1	None	SRM160, POP101, MGC39488
1	SRRM1	ENSG00000133226	ENST00000490543	processed_transcript	KNOWN	None	16638	None	None	24969796	24976577	1	None	SRM160, POP101, MGC39488
1	SRRM1	ENSG00000133226	ENST00000479034	processed_transcript	KNOWN	None	16638	None	None	24969799	24998086	1	None	SRM160, POP101, MGC39488
1	SRRM1	ENSG00000133226	ENST00000596378	protein_coding	PUTATIVE	None	16638	2044	680	24970050	24995999	1	None	SRM160, POP101, MGC39488
1	SRRM1	ENSG00000133226	ENST00000494934	retained_intron	KNOWN	None	16638	None	None	24975025	24979000	1	None	SRM160, POP101, MGC39488
1	SRRM1	ENSG00000133226	ENST00000495561	processed_transcript	KNOWN	None	16638	None	None	24975109	24978024	1	None	SRM160, POP101, MGC39488
1	SRRM1	ENSG00000133226	ENST00000485441	processed_transcript	KNOWN	None	16638	None	None	24976479	24979119	1	None	SRM160, POP101, MGC39488
1	SRRM1	ENSG00000133226	ENST00000470243	processed_transcript	KNOWN	None	16638	None	None	24978011	24981620	1	None	SRM160, POP101, MGC39488
1	SRRM1	ENSG00000133226	ENST00000496882	processed_transcript	KNOWN	None	16638	None	None	24978988	24989295	1	None	SRM160, POP101, MGC39488
1	SRRM1	ENSG00000133226	ENST00000461768	processed_transcript	KNOWN	None	16638	None	None	24981502	24993336	1	None	SRM160, POP101, MGC39488
1	SRRM1	ENSG00000133226	ENST00000485541	processed_transcript	KNOWN	None	16638	None	None	24981513	24989559	1	None	SRM160, POP101, MGC39488
1	SRRM1	ENSG00000133226	ENST00000488317	retained_intron	KNOWN	None	16638	None	None	24981545	24987466	1	None	SRM160, POP101, MGC39488
1	SRRM1	ENSG00000133226	ENST00000489130	retained_intron	KNOWN	None	16638	None	None	24993046	24995755	1	None	SRM160, POP101, MGC39488
1	SRRM1	ENSG00000133226	ENST00000474843	retained_intron	KNOWN	None	16638	None	None	24996074	24997960	1	None	SRM160, POP101, MGC39488
1	SRRM1	ENSG00000133226	ENST00000447431	protein_coding	KNOWN	None	16638	2751	916	24969775	24999158	1	None	SRM160, POP101, MGC39488
1	SRRM1	ENSG00000133226	ENST00000537199	protein_coding	KNOWN	None	16638	957	318	24975417	24993388	1	None	SRM160, POP101, MGC39488
5	None	ENSG00000250447	ENST00000504552	lincRNA	KNOWN	None	None	None	None	53072474	53115516	-1	None	None
5	None	ENSG00000250447	ENST00000511953	lincRNA	KNOWN	None	None	None	None	53072844	53115506	-1	None	None
10	None	ENSG00000232985	ENST00000453367	lincRNA	KNOWN	None	None	None	None	130757036	130758326	-1	None	None
1	C1orf112	ENSG00000000460	ENST00000498289	processed_transcript	KNOWN	None	25565	None	None	169631245	169822226	1	None	FLJ10706
1	C1orf112	ENSG00000000460	ENST00000472795	processed_transcript	KNOWN	None	25565	None	None	169763871	169773521	1	None	FLJ10706
1	C1orf112	ENSG00000000460	ENST00000496973	processed_transcript	KNOWN	None	25565	None	None	169764184	169773488	1	None	FLJ10706
1	C1orf112	ENSG00000000460	ENST00000481744	processed_transcript	KNOWN	None	25565	None	None	169764184	169776978	1	None	FLJ10706
1	C1orf112	ENSG00000000460	ENST00000359326	protein_coding	KNOWN	CCDS1285	25565	2562	853	169764190	169823221	1	None	FLJ10706
1	C1orf112	ENSG00000000460	ENST00000466580	processed_transcript	KNOWN	None	25565	None	None	169764220	169790860	1	None	FLJ10706
1	C1orf112	ENSG00000000460	ENST00000459772	processed_transcript	KNOWN	None	25565	None	None	169764220	169823221	1	None	FLJ10706
1	C1orf112	ENSG00000000460	ENST00000286031	protein_coding	KNOWN	CCDS1285	25565	2562	853	169764550	169823221	1	None	FLJ10706
1	C1orf112	ENSG00000000460	ENST00000456684	protein_coding	KNOWN	None	25565	1047	348	169764220	169795258	1	None	FLJ10706
1	C1orf112	ENSG00000000460	ENST00000413811	protein_coding	KNOWN	None	25565	993	330	169764181	169798955	1	None	FLJ10706
16	None	ENSG00000261103	ENST00000565904	antisense	KNOWN	None	None	None	None	83743784	83751503	-1	None	None
11	MIR4298	ENSG00000264493	ENST00000584380	miRNA	KNOWN	None	38313	None	None	1880694	1880766	-1	None	hsa-mir-4298
10	RN7SL78P	ENSG00000243782	ENST00000495193	misc_RNA	KNOWN	None	46094	None	None	89592578	89592855	-1	None	None
17	PNPO	ENSG00000108439	ENST00000583599	protein_coding	PUTATIVE	None	30260	361	119	46018872	46023743	1	None	PDXPO
17	PNPO	ENSG00000108439	ENST00000584061	nonsense_mediated_decay	KNOWN	None	30260	141	46	46018937	46023278	1	None	PDXPO
17	PNPO	ENSG00000108439	ENST00000583245	nonsense_mediated_decay	KNOWN	None	30260	219	72	46018937	46023353	1	None	PDXPO
17	PNPO	ENSG00000108439	ENST00000434554	protein_coding	NOVEL	None	30260	657	218	46018937	46024596	1	None	PDXPO
17	PNPO	ENSG00000108439	ENST00000225573	protein_coding	KNOWN	CCDS11522	30260	786	261	46018937	46025654	1	None	PDXPO
17	PNPO	ENSG00000108439	ENST00000585320	nonsense_mediated_decay	KNOWN	None	30260	210	69	46018984	46024115	1	None	PDXPO
17	PNPO	ENSG00000108439	ENST00000582171	nonsense_mediated_decay	KNOWN	None	30260	210	69	46018991	46024588	1	None	PDXPO
17	PNPO	ENSG00000108439	ENST00000584806	retained_intron	KNOWN	None	30260	None	None	46022764	46024242	1	None	PDXPO
17	PNPO	ENSG00000108439	ENST00000544840	protein_coding	KNOWN	None	30260	732	243	46018937	46024507	1	None	PDXPO
17	PNPO	ENSG00000108439	ENST00000534893	protein_coding	KNOWN	None	30260	501	166	46018991	46024588	1	None	PDXPO
10	MGEA5	ENSG00000198408	ENST00000361464	protein_coding	KNOWN	CCDS7520	7056	2751	916	103544209	103578175	-1	None	MEA5, NCOAT, OGA
10	MGEA5	ENSG00000198408	ENST00000462994	processed_transcript	KNOWN	None	7056	None	None	103545859	103547722	-1	None	MEA5, NCOAT, OGA
10	MGEA5	ENSG00000198408	ENST00000482611	processed_transcript	KNOWN	None	7056	None	None	103545891	103559089	-1	None	MEA5, NCOAT, OGA
10	MGEA5	ENSG00000198408	ENST00000357797	protein_coding	KNOWN	None	7056	2550	849	103545891	103578175	-1	None	MEA5, NCOAT, OGA
10	MGEA5	ENSG00000198408	ENST00000494347	processed_transcript	KNOWN	None	7056	None	None	103545901	103552703	-1	None	MEA5, NCOAT, OGA
10	MGEA5	ENSG00000198408	ENST00000479811	processed_transcript	KNOWN	None	7056	None	None	103546291	103557774	-1	None	MEA5, NCOAT, OGA
10	MGEA5	ENSG00000198408	ENST00000461645	processed_transcript	KNOWN	None	7056	None	None	103546320	103551210	-1	None	MEA5, NCOAT, OGA
10	MGEA5	ENSG00000198408	ENST00000492204	processed_transcript	KNOWN	None	7056	None	None	103552365	103553852	-1	None	MEA5, NCOAT, OGA
10	MGEA5	ENSG00000198408	ENST00000370094	protein_coding	PUTATIVE	None	7056	2034	677	103556803	103578175	-1	None	MEA5, NCOAT, OGA
10	MGEA5	ENSG00000198408	ENST00000429860	protein_coding	NOVEL	None	7056	769	255	103563504	103577623	-1	None	MEA5, NCOAT, OGA
10	MGEA5	ENSG00000198408	ENST00000439817	protein_coding	KNOWN	CCDS44471	7056	2592	863	103544200	103578222	-1	None	MEA5, NCOAT, OGA
10	MGEA5	ENSG00000198408	ENST00000419011	protein_coding	KNOWN	None	7056	456	151	103565800	103578696	-1	None	MEA5, NCOAT, OGA
10	None	ENSG00000224745	ENST00000416679	sense_intronic	KNOWN	None	None	None	None	89638449	89640184	1	None	None
16	None	ENSG00000260788	ENST00000563981	antisense	KNOWN	None	None	None	None	83754724	83806541	-1	None	None
16	None	ENSG00000260788	ENST00000570056	antisense	KNOWN	None	None	None	None	83755215	83806488	-1	None	None
16	None	ENSG00000260788	ENST00000567860	antisense	KNOWN	None	None	None	None	83768883	83773626	-1	None	None
16	None	ENSG00000260788	ENST00000569165	antisense	KNOWN	None	None	None	None	83768947	83806522	-1	None	None
11	None	ENSG00000249086	ENST00000509204	sense_overlapping	KNOWN	None	None	None	None	1885407	1887897	1	None	None
14	TRAJ23	ENSG00000211866	ENST00000390514	TR_J_gene	KNOWN	None	12052	63	20	22989394	22989456	1	None	None
22	CSF2RB	ENSG00000100368	ENST00000403662	protein_coding	KNOWN	CCDS13936	2436	2694	897	37309670	37336491	1	IL3RB	IL5RB, CD131
22	CSF2RB	ENSG00000100368	ENST00000406230	protein_coding	NOVEL	None	2436	2712	903	37318176	37334653	1	IL3RB	IL5RB, CD131
22	CSF2RB	ENSG00000100368	ENST00000421539	protein_coding	KNOWN	None	2436	686	227	37318654	37326786	1	IL3RB	IL5RB, CD131
22	CSF2RB	ENSG00000100368	ENST00000262825	protein_coding	KNOWN	None	2436	2712	903	37309675	37336481	1	IL3RB	IL5RB, CD131
22	CSF2RB	ENSG00000100368	ENST00000536485	protein_coding	KNOWN	None	2436	2535	844	37319799	37334736	1	IL3RB	IL5RB, CD131
22	None	ENSG00000236867	ENST00000444011	processed_pseudogene	KNOWN	None	None	None	None	50210896	50211360	1	None	None
11	None	ENSG00000229671	ENST00000455671	lincRNA	KNOWN	None	None	None	None	1923877	1929145	1	None	None
10	None	ENSG00000213613	ENST00000395256	processed_pseudogene	KNOWN	None	None	None	None	89705259	89705781	1	None	None
22	None	ENSG00000260613	ENST00000565177	lincRNA	KNOWN	None	None	None	None	50226264	50231434	-1	None	None
11	None	ENSG00000252187	ENST00000516378	miRNA	NOVEL	None	None	None	None	1941339	1941488	-1	None	None
16	None	ENSG00000205414	ENST00000379963	antisense	KNOWN	None	None	None	None	50639987	50647595	-1	None	None
1	PTBP2	ENSG00000117569	ENST00000482253	processed_transcript	KNOWN	None	17662	None	None	97187221	97279267	1	None	brPTB, nPTB, PTB, PTBLP
1	PTBP2	ENSG00000117569	ENST00000236228	protein_coding	KNOWN	None	17662	1599	532	97187339	97280349	1	None	brPTB, nPTB, PTB, PTBLP
1	PTBP2	ENSG00000117569	ENST00000460706	processed_transcript	KNOWN	None	17662	None	None	97187348	97237031	1	None	brPTB, nPTB, PTB, PTBLP
1	PTBP2	ENSG00000117569	ENST00000370198	protein_coding	KNOWN	None	17662	1611	536	97187366	97280349	1	None	brPTB, nPTB, PTB, PTBLP
1	PTBP2	ENSG00000117569	ENST00000370197	protein_coding	KNOWN	None	17662	1614	537	97187366	97280349	1	None	brPTB, nPTB, PTB, PTBLP
1	PTBP2	ENSG00000117569	ENST00000476419	processed_transcript	KNOWN	None	17662	None	None	97187378	97279044	1	None	brPTB, nPTB, PTB, PTBLP
1	PTBP2	ENSG00000117569	ENST00000426398	protein_coding	KNOWN	CCDS754	17662	1596	531	97187378	97280349	1	None	brPTB, nPTB, PTB, PTBLP
1	PTBP2	ENSG00000117569	ENST00000459735	processed_transcript	KNOWN	None	17662	None	None	97250504	97278484	1	None	brPTB, nPTB, PTB, PTBLP
1	PTBP2	ENSG00000117569	ENST00000476783	processed_transcript	KNOWN	None	17662	None	None	97250750	97279003	1	None	brPTB, nPTB, PTB, PTBLP
1	PTBP2	ENSG00000117569	ENST00000492905	processed_transcript	KNOWN	None	17662	None	None	97250750	97279003	1	None	brPTB, nPTB, PTB, PTBLP
1	PTBP2	ENSG00000117569	ENST00000462433	processed_transcript	KNOWN	None	17662	None	None	97272367	97278484	1	None	brPTB, nPTB, PTB, PTBLP
1	PTBP2	ENSG00000117569	ENST00000394184	protein_coding	KNOWN	None	17662	1647	548	97187380	97279115	1	None	brPTB, nPTB, PTB, PTBLP
1	PTBP2	ENSG00000117569	ENST00000541987	protein_coding	KNOWN	None	17662	978	325	97188273	97279026	1	None	brPTB, nPTB, PTB, PTBLP
22	None	ENSG00000229409	ENST00000422315	processed_pseudogene	KNOWN	None	None	None	None	50239577	50239738	1	None	None
10	None	ENSG00000200891	ENST00000364021	snoRNA	NOVEL	None	None	None	None	89754375	89754452	-1	None	None
14	None	ENSG00000258973	ENST00000555591	protein_coding	PUTATIVE	None	None	771	256	24801516	24806588	-1	None	None
22	None	ENSG00000227484	ENST00000453835	antisense	KNOWN	None	None	None	None	50753060	50754437	1	None	None
4	RPPH1-3P	ENSG00000252350	ENST00000516541	misc_RNA	KNOWN	None	47030	None	None	157907524	157907845	-1	None	None
16	None	ENSG00000261685	ENST00000563424	lincRNA	KNOWN	None	None	None	None	50679720	50683160	1	None	None
16	None	ENSG00000259914	ENST00000563342	antisense	KNOWN	None	None	None	None	83759281	83759982	-1	None	None
16	ZNF768	ENSG00000169957	ENST00000380412	protein_coding	KNOWN	CCDS10681	26273	1623	540	30535325	30537910	-1	None	FLJ23436
16	ZNF768	ENSG00000169957	ENST00000562803	protein_coding	PUTATIVE	None	26273	1530	509	30535454	30538142	-1	None	FLJ23436
22	RN7SL500P	ENSG00000242463	ENST00000470627	misc_RNA	KNOWN	None	46516	None	None	50809639	50809923	1	None	None
4	None	ENSG00000252524	ENST00000516715	misc_RNA	NOVEL	None	None	None	None	157985709	157985815	1	None	None
9	None	ENSG00000240907	ENST00000423390	lincRNA	KNOWN	None	None	None	None	69174213	69179458	-1	None	None
22	None	ENSG00000238604	ENST00000459259	misc_RNA	NOVEL	None	None	None	None	50837249	50837349	1	None	None
4	RNU6-582P	ENSG00000199859	ENST00000362989	snRNA	KNOWN	None	47545	None	None	158122714	158122820	-1	None	None
7	INHBA	ENSG00000122641	ENST00000242208	protein_coding	KNOWN	CCDS5464	6066	1281	426	41724712	41742706	-1	None	None
7	INHBA	ENSG00000122641	ENST00000464515	processed_transcript	KNOWN	None	6066	None	None	41729114	41732162	-1	None	None
7	INHBA	ENSG00000122641	ENST00000442711	protein_coding	KNOWN	CCDS5464	6066	1281	426	41729132	41740207	-1	None	None
16	None	ENSG00000260228	ENST00000565714	antisense	KNOWN	None	None	None	None	83823572	83837133	-1	None	None
16	None	ENSG00000260228	ENST00000567342	antisense	KNOWN	None	None	None	None	83830841	83837581	-1	None	None
16	None	ENSG00000260228	ENST00000565064	antisense	KNOWN	None	None	None	None	83837062	83839732	-1	None	None
16	None	ENSG00000260228	ENST00000561599	antisense	KNOWN	None	None	None	None	83839358	83841439	-1	None	None
22	None	ENSG00000226738	ENST00000434237	antisense	KNOWN	None	None	None	None	50984844	50986081	1	None	None
4	None	ENSG00000249819	ENST00000511007	processed_pseudogene	KNOWN	None	None	None	None	158125614	158126007	-1	None	None
18	DSG3	ENSG00000134757	ENST00000257189	protein_coding	KNOWN	CCDS11898	3050	3000	999	29027758	29058665	1	None	CDHF6
4	None	ENSG00000263738	ENST00000578227	miRNA	NOVEL	None	None	None	None	158281267	158281378	1	None	None
22	CHKB-AS1	ENSG00000205559	ENST00000380711	antisense	KNOWN	None	40146	None	None	51021455	51022306	1	None	None
22	RN7SKP63	ENSG00000200057	ENST00000363187	misc_RNA	KNOWN	None	45787	None	None	21743480	21743780	1	None	None
22	None	ENSG00000252314	ENST00000516505	snoRNA	NOVEL	None	None	None	None	21743917	21743999	-1	None	None
7	SLC13A1	ENSG00000081800	ENST00000194130	protein_coding	KNOWN	CCDS5786	10916	1788	595	122753585	122840040	-1	None	NaSi-1, NAS1
7	SLC13A1	ENSG00000081800	ENST00000427975	nonsense_mediated_decay	KNOWN	None	10916	111	36	122754579	122840026	-1	None	NaSi-1, NAS1
7	SLC13A1	ENSG00000081800	ENST00000439260	nonsense_mediated_decay	KNOWN	None	10916	123	40	122755429	122840025	-1	None	NaSi-1, NAS1
7	SLC13A1	ENSG00000081800	ENST00000539873	protein_coding	KNOWN	None	10916	486	161	122755429	122821200	-1	None	NaSi-1, NAS1
14	TRAJ22	ENSG00000211867	ENST00000390515	TR_J_gene	KNOWN	None	12051	63	20	22991016	22991078	1	None	None
4	None	ENSG00000234111	ENST00000507108	lincRNA	KNOWN	None	None	None	None	158493642	158497306	1	None	None
4	None	ENSG00000234111	ENST00000455598	lincRNA	KNOWN	None	None	None	None	158493688	158496976	1	None	None
4	None	ENSG00000234111	ENST00000509450	lincRNA	KNOWN	None	None	None	None	158493688	158496976	1	None	None
15	VIMP	ENSG00000131871	ENST00000398226	protein_coding	KNOWN	CCDS53979	30396	570	189	101811022	101817655	-1	None	SELS, MGC2553, SBBI8, AD-015, SEPS1
15	VIMP	ENSG00000131871	ENST00000531964	protein_coding	PUTATIVE	None	30396	501	166	101811622	101817519	-1	None	SELS, MGC2553, SBBI8, AD-015, SEPS1
15	VIMP	ENSG00000131871	ENST00000526049	protein_coding	KNOWN	CCDS53979	30396	570	189	101812387	101817651	-1	None	SELS, MGC2553, SBBI8, AD-015, SEPS1
15	VIMP	ENSG00000131871	ENST00000526043	retained_intron	KNOWN	None	30396	None	None	101812395	101817676	-1	None	SELS, MGC2553, SBBI8, AD-015, SEPS1
15	VIMP	ENSG00000131871	ENST00000528346	protein_coding	PUTATIVE	None	30396	655	217	101813011	101817492	-1	None	SELS, MGC2553, SBBI8, AD-015, SEPS1
15	VIMP	ENSG00000131871	ENST00000527833	retained_intron	KNOWN	None	30396	None	None	101814373	101817646	-1	None	SELS, MGC2553, SBBI8, AD-015, SEPS1
15	VIMP	ENSG00000131871	ENST00000529968	retained_intron	KNOWN	None	30396	None	None	101815305	101817705	-1	None	SELS, MGC2553, SBBI8, AD-015, SEPS1
15	VIMP	ENSG00000131871	ENST00000534014	retained_intron	KNOWN	None	30396	None	None	101816638	101817658	-1	None	SELS, MGC2553, SBBI8, AD-015, SEPS1
15	VIMP	ENSG00000131871	ENST00000537379	protein_coding	KNOWN	None	30396	564	187	101811214	101817700	-1	None	SELS, MGC2553, SBBI8, AD-015, SEPS1
22	None	ENSG00000252020	ENST00000516211	snoRNA	NOVEL	None	None	None	None	21744085	21744227	-1	None	None
16	None	ENSG00000260523	ENST00000567109	lincRNA	KNOWN	None	None	None	None	83831266	83834245	1	None	None
11	CD6	ENSG00000013725	ENST00000313421	protein_coding	KNOWN	CCDS7999	1691	2007	668	60739152	60787849	1	None	Tp120
11	CD6	ENSG00000013725	ENST00000542254	nonsense_mediated_decay	KNOWN	None	1691	117	38	60739208	60775184	1	None	Tp120
11	CD6	ENSG00000013725	ENST00000545105	processed_transcript	KNOWN	None	1691	None	None	60739210	60781483	1	None	Tp120
11	CD6	ENSG00000013725	ENST00000344931	nonsense_mediated_decay	KNOWN	None	1691	1407	468	60739218	60787810	1	None	Tp120
11	CD6	ENSG00000013725	ENST00000545320	processed_transcript	KNOWN	None	1691	None	None	60739222	60756864	1	None	Tp120
11	CD6	ENSG00000013725	ENST00000542157	protein_coding	NOVEL	None	1691	835	277	60739338	60780948	1	None	Tp120
11	CD6	ENSG00000013725	ENST00000433107	protein_coding	NOVEL	None	1691	1268	421	60739338	60785315	1	None	Tp120
11	CD6	ENSG00000013725	ENST00000452451	protein_coding	KNOWN	CCDS58137	1691	1779	592	60739338	60786793	1	None	Tp120
11	CD6	ENSG00000013725	ENST00000352009	protein_coding	KNOWN	CCDS58138	1691	1806	601	60739338	60786793	1	None	Tp120
11	CD6	ENSG00000013725	ENST00000538288	processed_transcript	KNOWN	None	1691	None	None	60771883	60775185	1	None	Tp120
11	CD6	ENSG00000013725	ENST00000541964	retained_intron	KNOWN	None	1691	None	None	60775823	60777108	1	None	Tp120
11	CD6	ENSG00000013725	ENST00000538611	protein_coding	NOVEL	None	1691	556	184	60776006	60781427	1	None	Tp120
11	CD6	ENSG00000013725	ENST00000419282	retained_intron	KNOWN	None	1691	None	None	60782893	60785021	1	None	Tp120
11	CD6	ENSG00000013725	ENST00000505761	retained_intron	KNOWN	None	1691	None	None	60784375	60787846	1	None	Tp120
11	CD6	ENSG00000013725	ENST00000344028	protein_coding	KNOWN	None	1691	1911	636	60739115	60787846	1	None	Tp120
11	CD6	ENSG00000013725	ENST00000346437	protein_coding	KNOWN	None	1691	1788	595	60739115	60787846	1	None	Tp120
11	CD248	ENSG00000174807	ENST00000311330	protein_coding	KNOWN	CCDS8134	18219	2274	757	66081958	66084515	-1	CD164L1	TEM1
22	None	ENSG00000212569	ENST00000391267	misc_RNA	NOVEL	None	None	None	None	51108232	51108329	1	None	None
22	None	ENSG00000252402	ENST00000516593	snoRNA	NOVEL	None	None	None	None	21765339	21765415	1	None	None
22	RNU6-409P	ENSG00000206841	ENST00000384114	snRNA	KNOWN	None	47372	None	None	51129688	51129791	-1	None	None
Y	TMEM167AP1	ENSG00000226504	ENST00000423409	processed_pseudogene	KNOWN	None	23956	None	None	23069230	23069448	-1	None	None
22	None	ENSG00000225929	ENST00000449652	antisense	KNOWN	None	None	None	None	51174253	51176567	-1	None	None
Y	None	ENSG00000254488	ENST00000527562	lincRNA	KNOWN	None	None	None	None	23200175	23206610	-1	None	None
16	None	ENSG00000260300	ENST00000561562	processed_transcript	KNOWN	None	None	None	None	83941738	83985058	1	None	None
16	None	ENSG00000260300	ENST00000563312	processed_transcript	KNOWN	None	None	None	None	83941780	83984757	1	None	None
16	None	ENSG00000260300	ENST00000566309	processed_transcript	KNOWN	None	None	None	None	83941780	83984760	1	None	None
16	None	ENSG00000260300	ENST00000566667	processed_transcript	KNOWN	None	None	None	None	83964916	83982719	1	None	None
16	None	ENSG00000260300	ENST00000563248	processed_transcript	KNOWN	None	None	None	None	83964951	83966309	1	None	None
16	None	ENSG00000260249	ENST00000570167	antisense	KNOWN	None	None	None	None	50700122	50705489	1	None	None
16	None	ENSG00000260249	ENST00000570241	antisense	KNOWN	None	None	None	None	50702766	50705550	1	None	None
18	RALBP1	ENSG00000017797	ENST00000019317	protein_coding	KNOWN	CCDS11845	9841	1968	655	9475007	9538112	1	None	RLIP76, RIP1, RIP
18	RALBP1	ENSG00000017797	ENST00000585015	protein_coding	KNOWN	None	9841	558	185	9475620	9517156	1	None	RLIP76, RIP1, RIP
18	RALBP1	ENSG00000017797	ENST00000383432	protein_coding	KNOWN	CCDS11845	9841	1968	655	9475668	9538114	1	None	RLIP76, RIP1, RIP
18	RALBP1	ENSG00000017797	ENST00000458039	protein_coding	KNOWN	None	9841	621	206	9476125	9517219	1	None	RLIP76, RIP1, RIP
18	RALBP1	ENSG00000017797	ENST00000577221	protein_coding	KNOWN	None	9841	11	2	9476133	9513054	1	None	RLIP76, RIP1, RIP
19	PLVAP	ENSG00000130300	ENST00000252590	protein_coding	KNOWN	CCDS32952	13635	1329	442	17462257	17488159	-1	None	gp68, PV-1, PV1, FELS
19	PLVAP	ENSG00000130300	ENST00000595816	protein_coding	PUTATIVE	None	13635	160	52	17462259	17476960	-1	None	gp68, PV-1, PV1, FELS
19	PLVAP	ENSG00000130300	ENST00000599426	protein_coding	NOVEL	None	13635	566	187	17476225	17488151	-1	None	gp68, PV-1, PV1, FELS
17	KIAA0195	ENSG00000177728	ENST00000577380	protein_coding	KNOWN	None	28983	363	120	73437240	73482461	1	None	TMEM94
17	KIAA0195	ENSG00000177728	ENST00000314256	protein_coding	KNOWN	CCDS32732	28983	4071	1356	73452545	73496163	1	None	TMEM94
17	KIAA0195	ENSG00000177728	ENST00000582186	protein_coding	PUTATIVE	None	28983	106	34	73452722	73482420	1	None	TMEM94
17	KIAA0195	ENSG00000177728	ENST00000580416	processed_transcript	KNOWN	None	28983	None	None	73452722	73485742	1	None	TMEM94
17	KIAA0195	ENSG00000177728	ENST00000581085	retained_intron	KNOWN	None	28983	None	None	73452722	73496171	1	None	TMEM94
17	KIAA0195	ENSG00000177728	ENST00000582455	protein_coding	KNOWN	None	28983	172	56	73452731	73481979	1	None	TMEM94
17	KIAA0195	ENSG00000177728	ENST00000581252	protein_coding	PUTATIVE	None	28983	266	87	73452731	73487460	1	None	TMEM94
17	KIAA0195	ENSG00000177728	ENST00000579208	protein_coding	NOVEL	None	28983	3024	1007	73452731	73495726	1	None	TMEM94
17	KIAA0195	ENSG00000177728	ENST00000585277	retained_intron	KNOWN	None	28983	None	None	73452735	73481861	1	None	TMEM94
17	KIAA0195	ENSG00000177728	ENST00000581834	retained_intron	KNOWN	None	28983	None	None	73452741	73453766	1	None	TMEM94
17	KIAA0195	ENSG00000177728	ENST00000581519	protein_coding	KNOWN	None	28983	375	124	73455788	73482473	1	None	TMEM94
17	KIAA0195	ENSG00000177728	ENST00000375248	protein_coding	PUTATIVE	None	28983	4101	1366	73472579	73495825	1	None	TMEM94
17	KIAA0195	ENSG00000177728	ENST00000585105	retained_intron	KNOWN	None	28983	None	None	73472628	73496171	1	None	TMEM94
17	KIAA0195	ENSG00000177728	ENST00000579707	nonsense_mediated_decay	KNOWN	None	28983	489	162	73472771	73484036	1	None	TMEM94
17	KIAA0195	ENSG00000177728	ENST00000584383	retained_intron	KNOWN	None	28983	None	None	73481477	73484095	1	None	TMEM94
17	KIAA0195	ENSG00000177728	ENST00000580441	nonsense_mediated_decay	KNOWN	None	28983	169	55	73482413	73487183	1	None	TMEM94
17	KIAA0195	ENSG00000177728	ENST00000583795	processed_transcript	KNOWN	None	28983	None	None	73482426	73485898	1	None	TMEM94
17	KIAA0195	ENSG00000177728	ENST00000580849	retained_intron	KNOWN	None	28983	None	None	73486139	73487160	1	None	TMEM94
17	KIAA0195	ENSG00000177728	ENST00000579241	retained_intron	KNOWN	None	28983	None	None	73486361	73488359	1	None	TMEM94
17	KIAA0195	ENSG00000177728	ENST00000580918	protein_coding	NOVEL	None	28983	769	255	73487130	73488843	1	None	TMEM94
17	KIAA0195	ENSG00000177728	ENST00000578853	protein_coding	NOVEL	None	28983	905	300	73487458	73489850	1	None	TMEM94
17	KIAA0195	ENSG00000177728	ENST00000582843	nonsense_mediated_decay	KNOWN	None	28983	220	72	73487780	73488823	1	None	TMEM94
17	KIAA0195	ENSG00000177728	ENST00000583071	retained_intron	KNOWN	None	28983	None	None	73488285	73489001	1	None	TMEM94
17	KIAA0195	ENSG00000177728	ENST00000583296	retained_intron	KNOWN	None	28983	None	None	73488357	73489064	1	None	TMEM94
17	KIAA0195	ENSG00000177728	ENST00000578624	retained_intron	KNOWN	None	28983	None	None	73488641	73489611	1	None	TMEM94
17	KIAA0195	ENSG00000177728	ENST00000581723	retained_intron	KNOWN	None	28983	None	None	73490969	73492472	1	None	TMEM94
17	KIAA0195	ENSG00000177728	ENST00000581867	retained_intron	KNOWN	None	28983	None	None	73491368	73492482	1	None	TMEM94
17	KIAA0195	ENSG00000177728	ENST00000579898	retained_intron	KNOWN	None	28983	None	None	73491623	73496163	1	None	TMEM94
17	KIAA0195	ENSG00000177728	ENST00000577247	protein_coding	NOVEL	None	28983	888	295	73492415	73495449	1	None	TMEM94
17	KIAA0195	ENSG00000177728	ENST00000581453	retained_intron	KNOWN	None	28983	None	None	73492809	73495024	1	None	TMEM94
17	KIAA0195	ENSG00000177728	ENST00000584694	protein_coding	NOVEL	None	28983	528	175	73493247	73495154	1	None	TMEM94
17	KIAA0195	ENSG00000177728	ENST00000577245	protein_coding	NOVEL	None	28983	384	127	73493884	73494801	1	None	TMEM94
17	KIAA0195	ENSG00000177728	ENST00000577194	retained_intron	KNOWN	None	28983	None	None	73494298	73494895	1	None	TMEM94
9	SURF6	ENSG00000148296	ENST00000372022	protein_coding	KNOWN	CCDS6962	11478	1086	361	136197552	136203235	-1	None	FLJ30322, RRP14
9	SURF6	ENSG00000148296	ENST00000468290	processed_transcript	KNOWN	None	11478	None	None	136198642	136199775	-1	None	FLJ30322, RRP14
14	RIPK3	ENSG00000129465	ENST00000216274	protein_coding	KNOWN	CCDS9628	10021	1557	518	24805227	24809251	-1	None	RIP3
14	RIPK3	ENSG00000129465	ENST00000554756	nonsense_mediated_decay	KNOWN	None	10021	696	231	24805381	24809195	-1	None	RIP3
14	RIPK3	ENSG00000129465	ENST00000554569	protein_coding	PUTATIVE	None	10021	488	161	24805882	24806608	-1	None	RIP3
14	RIPK3	ENSG00000129465	ENST00000557624	retained_intron	KNOWN	None	10021	None	None	24807252	24809221	-1	None	RIP3
14	RIPK3	ENSG00000129465	ENST00000557253	retained_intron	KNOWN	None	10021	None	None	24808363	24809228	-1	None	RIP3
14	RIPK3	ENSG00000129465	ENST00000554338	processed_transcript	KNOWN	None	10021	None	None	24808398	24809195	-1	None	RIP3
14	RIPK3	ENSG00000129465	ENST00000557662	retained_intron	KNOWN	None	10021	None	None	24808506	24809206	-1	None	RIP3
6	HBS1L	ENSG00000112339	ENST00000367837	protein_coding	KNOWN	CCDS5173	4834	2055	684	135281516	135376036	-1	None	ERFS, HBS1, HSPC276, KIAA1038, DKFZp434g247, EF-1a
6	HBS1L	ENSG00000112339	ENST00000527005	retained_intron	KNOWN	None	4834	None	None	135285767	135304711	-1	None	ERFS, HBS1, HSPC276, KIAA1038, DKFZp434g247, EF-1a
6	HBS1L	ENSG00000112339	ENST00000527578	protein_coding	PUTATIVE	None	4834	1563	520	135285767	135348334	-1	None	ERFS, HBS1, HSPC276, KIAA1038, DKFZp434g247, EF-1a
6	HBS1L	ENSG00000112339	ENST00000415177	protein_coding	NOVEL	None	4834	1860	619	135285769	135375957	-1	None	ERFS, HBS1, HSPC276, KIAA1038, DKFZp434g247, EF-1a
6	HBS1L	ENSG00000112339	ENST00000367826	protein_coding	KNOWN	CCDS47479	4834	1929	642	135285771	135375957	-1	None	ERFS, HBS1, HSPC276, KIAA1038, DKFZp434g247, EF-1a
6	HBS1L	ENSG00000112339	ENST00000533274	protein_coding	NOVEL	None	4834	1665	554	135285980	135371759	-1	None	ERFS, HBS1, HSPC276, KIAA1038, DKFZp434g247, EF-1a
6	HBS1L	ENSG00000112339	ENST00000526100	nonsense_mediated_decay	KNOWN	None	4834	224	73	135286287	135371782	-1	None	ERFS, HBS1, HSPC276, KIAA1038, DKFZp434g247, EF-1a
6	HBS1L	ENSG00000112339	ENST00000529169	protein_coding	PUTATIVE	None	4834	512	169	135303431	135308883	-1	None	ERFS, HBS1, HSPC276, KIAA1038, DKFZp434g247, EF-1a
6	HBS1L	ENSG00000112339	ENST00000529641	protein_coding	PUTATIVE	None	4834	729	242	135308792	135348294	-1	None	ERFS, HBS1, HSPC276, KIAA1038, DKFZp434g247, EF-1a
6	HBS1L	ENSG00000112339	ENST00000527507	protein_coding	PUTATIVE	None	4834	428	141	135317960	135348333	-1	None	ERFS, HBS1, HSPC276, KIAA1038, DKFZp434g247, EF-1a
6	HBS1L	ENSG00000112339	ENST00000314674	protein_coding	NOVEL	None	4834	648	215	135323759	135375941	-1	None	ERFS, HBS1, HSPC276, KIAA1038, DKFZp434g247, EF-1a
6	HBS1L	ENSG00000112339	ENST00000524715	protein_coding	NOVEL	None	4834	425	140	135323920	135375955	-1	None	ERFS, HBS1, HSPC276, KIAA1038, DKFZp434g247, EF-1a
6	HBS1L	ENSG00000112339	ENST00000529882	protein_coding	PUTATIVE	None	4834	503	166	135323953	135424194	-1	None	ERFS, HBS1, HSPC276, KIAA1038, DKFZp434g247, EF-1a
6	HBS1L	ENSG00000112339	ENST00000367822	protein_coding	KNOWN	CCDS47480	4834	1899	632	135356995	135376022	-1	None	ERFS, HBS1, HSPC276, KIAA1038, DKFZp434g247, EF-1a
6	HBS1L	ENSG00000112339	ENST00000367820	protein_coding	PUTATIVE	None	4834	444	147	135357834	135375938	-1	None	ERFS, HBS1, HSPC276, KIAA1038, DKFZp434g247, EF-1a
6	HBS1L	ENSG00000112339	ENST00000525067	protein_coding	PUTATIVE	None	4834	357	118	135358987	135375990	-1	None	ERFS, HBS1, HSPC276, KIAA1038, DKFZp434g247, EF-1a
6	HBS1L	ENSG00000112339	ENST00000367824	protein_coding	KNOWN	None	4834	1563	520	135285980	135371759	-1	None	ERFS, HBS1, HSPC276, KIAA1038, DKFZp434g247, EF-1a
6	HBS1L	ENSG00000112339	ENST00000445176	protein_coding	KNOWN	None	4834	1227	408	135286302	135371782	-1	None	ERFS, HBS1, HSPC276, KIAA1038, DKFZp434g247, EF-1a
4	FGF2	ENSG00000138685	ENST00000264498	protein_coding	KNOWN	CCDS34059	3676	867	288	123747863	123819391	1	FGFB	None
20	None	ENSG00000229299	ENST00000447343	antisense	KNOWN	None	None	None	None	62376042	62377304	1	None	None
20	None	ENSG00000229299	ENST00000433905	antisense	KNOWN	None	None	None	None	62376899	62377311	1	None	None
16	TFAP4	ENSG00000090447	ENST00000575672	retained_intron	KNOWN	None	11745	None	None	4307187	4308799	-1	None	AP-4, bHLHc41
16	TFAP4	ENSG00000090447	ENST00000204517	protein_coding	KNOWN	CCDS10510	11745	1017	338	4307187	4323076	-1	None	AP-4, bHLHc41
16	TFAP4	ENSG00000090447	ENST00000575320	retained_intron	KNOWN	None	11745	None	None	4307188	4317188	-1	None	AP-4, bHLHc41
16	TFAP4	ENSG00000090447	ENST00000574639	nonsense_mediated_decay	KNOWN	None	11745	135	44	4308190	4322895	-1	None	AP-4, bHLHc41
16	TFAP4	ENSG00000090447	ENST00000573476	nonsense_mediated_decay	KNOWN	None	11745	504	167	4310456	4322832	-1	None	AP-4, bHLHc41
16	TFAP4	ENSG00000090447	ENST00000575300	retained_intron	KNOWN	None	11745	None	None	4310499	4323076	-1	None	AP-4, bHLHc41
16	TFAP4	ENSG00000090447	ENST00000572393	protein_coding	PUTATIVE	None	11745	345	114	4311780	4313738	-1	None	AP-4, bHLHc41
HSCHR6_MHC_QBL	PRR3	ENSG00000206491	ENST00000383592	protein_coding	KNOWN	None	21149	567	188	30514170	30521007	1	None	CAT56, Em:AB014077.1, Em:AB023052.2
HSCHR6_MHC_QBL	PRR3	ENSG00000206491	ENST00000418065	protein_coding	KNOWN	None	21149	504	167	30514564	30521007	1	None	CAT56, Em:AB014077.1, Em:AB023052.2
HSCHR6_MHC_QBL	PRR3	ENSG00000206491	ENST00000497633	processed_transcript	KNOWN	None	21149	None	None	30514598	30521007	1	None	CAT56, Em:AB014077.1, Em:AB023052.2
HSCHR6_MHC_QBL	PRR3	ENSG00000206491	ENST00000484225	processed_transcript	KNOWN	None	21149	None	None	30514600	30521007	1	None	CAT56, Em:AB014077.1, Em:AB023052.2
HSCHR6_MHC_QBL	PRR3	ENSG00000206491	ENST00000493718	retained_intron	KNOWN	None	21149	None	None	30514631	30515720	1	None	CAT56, Em:AB014077.1, Em:AB023052.2
HSCHR6_MHC_QBL	PRR3	ENSG00000206491	ENST00000491452	retained_intron	KNOWN	None	21149	None	None	30517315	30521007	1	None	CAT56, Em:AB014077.1, Em:AB023052.2
HSCHR6_MHC_MCF	HCG4	ENSG00000224564	ENST00000455365	unprocessed_pseudogene	KNOWN	None	21241	None	None	29756592	29757589	-1	HCG4P10	HCGIV-10, HCGIV.9
HSCHR6_MHC_MCF	HCG4	ENSG00000224564	ENST00000551646	pseudogene	KNOWN	None	21241	None	None	29755878	29757912	-1	HCG4P10	HCGIV-10, HCGIV.9
22	TMEM191C	ENSG00000206140	ENST00000456303	processed_transcript	KNOWN	None	33601	None	None	21820712	21824224	1	None	None
22	TMEM191C	ENSG00000206140	ENST00000415764	processed_transcript	KNOWN	None	33601	None	None	21821551	21824222	1	None	None
22	TMEM191C	ENSG00000206140	ENST00000449424	processed_transcript	KNOWN	None	33601	None	None	21821680	21825558	1	None	None
22	TMEM191C	ENSG00000206140	ENST00000456153	processed_transcript	KNOWN	None	33601	None	None	21821681	21824222	1	None	None
22	TMEM191C	ENSG00000206140	ENST00000453397	processed_transcript	KNOWN	None	33601	None	None	21821754	21824214	1	None	None
22	TMEM191C	ENSG00000206140	ENST00000413877	processed_transcript	KNOWN	None	33601	None	None	21821909	21823556	1	None	None
22	TMEM191C	ENSG00000206140	ENST00000432134	processed_transcript	KNOWN	None	33601	None	None	21822205	21823461	1	None	None
22	TMEM191C	ENSG00000206140	ENST00000417708	processed_transcript	KNOWN	None	33601	None	None	21822387	21824214	1	None	None
22	TMEM191C	ENSG00000206140	ENST00000427147	processed_transcript	KNOWN	None	33601	None	None	21822577	21824208	1	None	None
22	TMEM191C	ENSG00000206140	ENST00000425458	processed_transcript	KNOWN	None	33601	None	None	21823036	21824224	1	None	None
22	TMEM191C	ENSG00000206140	ENST00000446867	processed_transcript	KNOWN	None	33601	None	None	21823045	21824006	1	None	None
22	TMEM191C	ENSG00000206140	ENST00000545656	processed_transcript	KNOWN	None	33601	None	None	21820783	21821265	1	None	None
22	TMEM191C	ENSG00000206140	ENST00000536718	processed_transcript	KNOWN	None	33601	None	None	21823437	21825558	1	None	None
HSCHR6_MHC_MCF	HLA-P	ENSG00000259930	ENST00000567256	unprocessed_pseudogene	KNOWN	None	21196	None	None	29765075	29767083	1	C6orf101, HLA-90	dJ377H14.3
7	ZNF3	ENSG00000166526	ENST00000413658	protein_coding	KNOWN	CCDS43618	13089	396	131	99661656	99679350	-1	None	A8-51, KOX25, PP838, FLJ20216, HF.12, Zfp113
7	ZNF3	ENSG00000166526	ENST00000299667	protein_coding	KNOWN	CCDS43619	13089	1341	446	99667611	99679363	-1	None	A8-51, KOX25, PP838, FLJ20216, HF.12, Zfp113
7	ZNF3	ENSG00000166526	ENST00000487620	retained_intron	KNOWN	None	13089	None	None	99667800	99679385	-1	None	A8-51, KOX25, PP838, FLJ20216, HF.12, Zfp113
7	ZNF3	ENSG00000166526	ENST00000412947	protein_coding	PUTATIVE	None	13089	446	147	99669553	99679353	-1	None	A8-51, KOX25, PP838, FLJ20216, HF.12, Zfp113
7	ZNF3	ENSG00000166526	ENST00000449785	protein_coding	KNOWN	None	13089	554	183	99669553	99679362	-1	None	A8-51, KOX25, PP838, FLJ20216, HF.12, Zfp113
7	ZNF3	ENSG00000166526	ENST00000428683	protein_coding	KNOWN	None	13089	554	183	99669553	99680171	-1	None	A8-51, KOX25, PP838, FLJ20216, HF.12, Zfp113
7	ZNF3	ENSG00000166526	ENST00000441298	protein_coding	PUTATIVE	None	13089	296	97	99669703	99679361	-1	None	A8-51, KOX25, PP838, FLJ20216, HF.12, Zfp113
7	ZNF3	ENSG00000166526	ENST00000415068	protein_coding	KNOWN	None	13089	313	103	99669794	99675210	-1	None	A8-51, KOX25, PP838, FLJ20216, HF.12, Zfp113
7	ZNF3	ENSG00000166526	ENST00000485892	retained_intron	KNOWN	None	13089	None	None	99672853	99679326	-1	None	A8-51, KOX25, PP838, FLJ20216, HF.12, Zfp113
7	ZNF3	ENSG00000166526	ENST00000292393	protein_coding	PUTATIVE	None	13089	62	19	99672859	99679328	-1	None	A8-51, KOX25, PP838, FLJ20216, HF.12, Zfp113
7	ZNF3	ENSG00000166526	ENST00000460331	retained_intron	KNOWN	None	13089	None	None	99672935	99679332	-1	None	A8-51, KOX25, PP838, FLJ20216, HF.12, Zfp113
7	ZNF3	ENSG00000166526	ENST00000466121	retained_intron	KNOWN	None	13089	None	None	99672940	99679334	-1	None	A8-51, KOX25, PP838, FLJ20216, HF.12, Zfp113
7	ZNF3	ENSG00000166526	ENST00000479192	retained_intron	KNOWN	None	13089	None	None	99674641	99679360	-1	None	A8-51, KOX25, PP838, FLJ20216, HF.12, Zfp113
7	ZNF3	ENSG00000166526	ENST00000424697	protein_coding	KNOWN	CCDS43619	13089	1341	446	99667597	99679371	-1	None	A8-51, KOX25, PP838, FLJ20216, HF.12, Zfp113
7	ZNF3	ENSG00000166526	ENST00000303915	protein_coding	KNOWN	CCDS43619	13089	1341	446	99667602	99676790	-1	None	A8-51, KOX25, PP838, FLJ20216, HF.12, Zfp113
HSCHR6_MHC_MCF	RPL7AP7	ENSG00000233982	ENST00000451600	processed_pseudogene	KNOWN	None	21395	None	None	29767855	29768651	-1	None	RPL7B, dJ377H14.2
14	TRAJ21	ENSG00000211868	ENST00000390516	TR_J_gene	KNOWN	None	12050	55	17	22992573	22992627	1	None	None
HSCHR6_MHC_MCF	MICG	ENSG00000233592	ENST00000439560	unprocessed_pseudogene	KNOWN	None	16802	None	None	29777227	29777358	-1	None	None
HSCHR6_MHC_MCF	HCG4P8	ENSG00000232122	ENST00000429297	unprocessed_pseudogene	KNOWN	None	22927	None	None	29792044	29793023	-1	None	HCGIV-08, HCGIV.7, HCGIV-8
20	TCF15	ENSG00000125878	ENST00000246080	protein_coding	KNOWN	CCDS33432	11627	600	199	584441	591042	-1	None	EC2, PARAXIS, bHLHa40
11	RIN1	ENSG00000174791	ENST00000526246	retained_intron	KNOWN	None	18749	None	None	66097713	66103479	-1	None	None
11	RIN1	ENSG00000174791	ENST00000311320	protein_coding	KNOWN	CCDS31614	18749	2352	783	66099533	66104000	-1	None	None
11	RIN1	ENSG00000174791	ENST00000534824	nonsense_mediated_decay	KNOWN	None	18749	221	72	66099681	66103162	-1	None	None
11	RIN1	ENSG00000174791	ENST00000530056	protein_coding	PUTATIVE	None	18749	1854	617	66099694	66104311	-1	None	None
11	RIN1	ENSG00000174791	ENST00000524804	processed_transcript	PUTATIVE	None	18749	None	None	66100061	66101024	-1	None	None
11	RIN1	ENSG00000174791	ENST00000530745	nonsense_mediated_decay	KNOWN	None	18749	243	80	66100080	66103907	-1	None	None
11	RIN1	ENSG00000174791	ENST00000528006	retained_intron	KNOWN	None	18749	None	None	66102470	66103171	-1	None	None
11	RIN1	ENSG00000174791	ENST00000424433	protein_coding	KNOWN	None	18749	1818	605	66099555	66103877	-1	None	None
16	CES5A	ENSG00000159398	ENST00000521228	nonsense_mediated_decay	KNOWN	None	26459	237	78	55880066	55959338	-1	CES7	FLJ31547, CES4C1, CES5, CAUXIN
16	CES5A	ENSG00000159398	ENST00000521992	protein_coding	KNOWN	CCDS54012	26459	1815	604	55880066	55989943	-1	CES7	FLJ31547, CES4C1, CES5, CAUXIN
16	CES5A	ENSG00000159398	ENST00000319165	protein_coding	KNOWN	CCDS10755	26459	1578	525	55880074	55909282	-1	CES7	FLJ31547, CES4C1, CES5, CAUXIN
16	CES5A	ENSG00000159398	ENST00000518005	protein_coding	KNOWN	None	26459	1410	469	55880074	55959372	-1	CES7	FLJ31547, CES4C1, CES5, CAUXIN
16	CES5A	ENSG00000159398	ENST00000290567	protein_coding	KNOWN	CCDS45490	26459	1728	575	55880129	55909255	-1	CES7	FLJ31547, CES4C1, CES5, CAUXIN
16	CES5A	ENSG00000159398	ENST00000520435	protein_coding	NOVEL	None	26459	1638	545	55880131	55909211	-1	CES7	FLJ31547, CES4C1, CES5, CAUXIN
16	CES5A	ENSG00000159398	ENST00000541580	processed_transcript	KNOWN	None	26459	None	None	55880131	55978376	-1	CES7	FLJ31547, CES4C1, CES5, CAUXIN
16	CES5A	ENSG00000159398	ENST00000544479	nonsense_mediated_decay	KNOWN	None	26459	142	46	55880306	55905753	-1	CES7	FLJ31547, CES4C1, CES5, CAUXIN
16	CES5A	ENSG00000159398	ENST00000536025	protein_coding	KNOWN	None	26459	225	74	55903531	55959338	-1	CES7	FLJ31547, CES4C1, CES5, CAUXIN
19	FBXW9	ENSG00000132004	ENST00000587296	nonsense_mediated_decay	KNOWN	None	28136	519	172	12798867	12807433	-1	None	MGC10870, Fbw9
19	FBXW9	ENSG00000132004	ENST00000393261	protein_coding	KNOWN	CCDS12278	28136	1377	458	12799731	12807457	-1	None	MGC10870, Fbw9
19	FBXW9	ENSG00000132004	ENST00000587955	protein_coding	NOVEL	None	28136	1437	478	12800030	12807395	-1	None	MGC10870, Fbw9
19	FBXW9	ENSG00000132004	ENST00000380339	protein_coding	KNOWN	None	28136	1467	488	12799731	12807432	-1	None	MGC10870, Fbw9
19	FBXW9	ENSG00000132004	ENST00000544494	protein_coding	KNOWN	None	28136	591	196	12799121	12807433	-1	None	MGC10870, Fbw9
2	TAF1B	ENSG00000115750	ENST00000263663	protein_coding	KNOWN	CCDS33143	11533	1767	588	9983483	10074545	1	None	TAFI63, SL1, RAF1B, RAFI63
2	TAF1B	ENSG00000115750	ENST00000402170	processed_transcript	KNOWN	None	11533	None	None	9983611	10008893	1	None	TAFI63, SL1, RAF1B, RAFI63
2	TAF1B	ENSG00000115750	ENST00000404869	processed_transcript	KNOWN	None	11533	None	None	9983626	9992253	1	None	TAFI63, SL1, RAF1B, RAFI63
2	TAF1B	ENSG00000115750	ENST00000497182	retained_intron	KNOWN	None	11533	None	None	9983648	9985949	1	None	TAFI63, SL1, RAF1B, RAFI63
2	TAF1B	ENSG00000115750	ENST00000434858	nonsense_mediated_decay	KNOWN	None	11533	585	194	9983654	10074075	1	None	TAFI63, SL1, RAF1B, RAFI63
2	TAF1B	ENSG00000115750	ENST00000416181	nonsense_mediated_decay	KNOWN	None	11533	174	57	9983656	9989536	1	None	TAFI63, SL1, RAF1B, RAFI63
2	TAF1B	ENSG00000115750	ENST00000469895	processed_transcript	KNOWN	None	11533	None	None	9983714	10008545	1	None	TAFI63, SL1, RAF1B, RAFI63
2	TAF1B	ENSG00000115750	ENST00000480197	processed_transcript	KNOWN	None	11533	None	None	9983832	10008505	1	None	TAFI63, SL1, RAF1B, RAFI63
2	TAF1B	ENSG00000115750	ENST00000490432	processed_transcript	KNOWN	None	11533	None	None	9983852	9992243	1	None	TAFI63, SL1, RAF1B, RAFI63
2	TAF1B	ENSG00000115750	ENST00000492648	protein_coding	PUTATIVE	None	11533	649	215	10016127	10053838	1	None	TAFI63, SL1, RAF1B, RAFI63
2	TAF1B	ENSG00000115750	ENST00000396242	protein_coding	KNOWN	None	11533	1002	333	9983652	10074282	1	None	TAFI63, SL1, RAF1B, RAFI63
16	TSNAXIP1	ENSG00000102904	ENST00000415766	protein_coding	NOVEL	None	18586	1932	643	67840668	67861917	1	None	TXI1
16	TSNAXIP1	ENSG00000102904	ENST00000466164	nonsense_mediated_decay	KNOWN	None	18586	186	61	67840781	67861967	1	None	TXI1
16	TSNAXIP1	ENSG00000102904	ENST00000568990	nonsense_mediated_decay	KNOWN	None	18586	426	141	67840811	67861971	1	None	TXI1
16	TSNAXIP1	ENSG00000102904	ENST00000487120	retained_intron	KNOWN	None	18586	None	None	67840977	67861967	1	None	TXI1
16	TSNAXIP1	ENSG00000102904	ENST00000565339	retained_intron	KNOWN	None	18586	None	None	67840994	67861967	1	None	TXI1
16	TSNAXIP1	ENSG00000102904	ENST00000563363	nonsense_mediated_decay	KNOWN	None	18586	294	97	67841003	67858686	1	None	TXI1
16	TSNAXIP1	ENSG00000102904	ENST00000561639	protein_coding	NOVEL	None	18586	2139	712	67841008	67861970	1	None	TXI1
16	TSNAXIP1	ENSG00000102904	ENST00000567852	protein_coding	PUTATIVE	None	18586	239	78	67841010	67859170	1	None	TXI1
16	TSNAXIP1	ENSG00000102904	ENST00000565148	protein_coding	NOVEL	None	18586	513	170	67841011	67859165	1	None	TXI1
16	TSNAXIP1	ENSG00000102904	ENST00000388833	protein_coding	KNOWN	CCDS10846	18586	1977	658	67841027	67861971	1	None	TXI1
16	TSNAXIP1	ENSG00000102904	ENST00000562633	retained_intron	KNOWN	None	18586	None	None	67841030	67848304	1	None	TXI1
16	TSNAXIP1	ENSG00000102904	ENST00000561654	protein_coding	PUTATIVE	None	18586	100	32	67841031	67858674	1	None	TXI1
16	TSNAXIP1	ENSG00000102904	ENST00000569504	retained_intron	KNOWN	None	18586	None	None	67841051	67861967	1	None	TXI1
16	TSNAXIP1	ENSG00000102904	ENST00000431934	protein_coding	NOVEL	None	18586	1284	427	67841071	67861417	1	None	TXI1
16	TSNAXIP1	ENSG00000102904	ENST00000562321	processed_transcript	KNOWN	None	18586	None	None	67841198	67859196	1	None	TXI1
16	TSNAXIP1	ENSG00000102904	ENST00000565558	nonsense_mediated_decay	KNOWN	None	18586	370	122	67861453	67866051	1	None	TXI1
12	SELPLG	ENSG00000110876	ENST00000550948	protein_coding	KNOWN	CCDS31895	10722	1239	412	109016053	109027735	-1	None	PSGL-1, CD162
12	SELPLG	ENSG00000110876	ENST00000228463	protein_coding	PUTATIVE	CCDS55881	10722	1287	428	109016605	109025854	-1	None	PSGL-1, CD162
12	SELPLG	ENSG00000110876	ENST00000388962	protein_coding	KNOWN	None	10722	1209	402	109015686	109027670	-1	None	PSGL-1, CD162
20	None	ENSG00000231208	ENST00000435912	antisense	KNOWN	None	None	None	None	62439429	62447874	1	None	None
19	KLKP1	ENSG00000197588	ENST00000600104	processed_transcript	KNOWN	None	21260	None	None	51385352	51391917	-1	None	YKLK1, PsiKLK1, KLK31P
19	KLKP1	ENSG00000197588	ENST00000597246	processed_transcript	KNOWN	None	21260	None	None	51385352	51399654	-1	None	YKLK1, PsiKLK1, KLK31P
19	KLKP1	ENSG00000197588	ENST00000595979	transcribed_unprocessed_pseudogene	KNOWN	None	21260	None	None	51391122	51391524	-1	None	YKLK1, PsiKLK1, KLK31P
19	KLKP1	ENSG00000197588	ENST00000358534	pseudogene	KNOWN	None	21260	None	None	51390980	51391116	-1	None	YKLK1, PsiKLK1, KLK31P
9	RNU6-1193P	ENSG00000238551	ENST00000459461	snRNA	KNOWN	None	48156	None	None	69392612	69392718	1	None	None
18	None	ENSG00000263305	ENST00000572608	lincRNA	KNOWN	None	None	None	None	14195	14958	-1	None	None
18	None	ENSG00000263305	ENST00000572062	lincRNA	KNOWN	None	None	None	None	14490	16898	-1	None	None
9	SNX18P9	ENSG00000224185	ENST00000440580	processed_pseudogene	KNOWN	None	39617	None	None	69451764	69452598	1	None	None
18	None	ENSG00000262181	ENST00000575066	processed_pseudogene	KNOWN	None	None	None	None	45004	45556	1	None	None
9	None	ENSG00000229156	ENST00000445057	processed_pseudogene	KNOWN	None	None	None	None	69475237	69475614	1	None	None
19	None	ENSG00000267475	ENST00000592431	lincRNA	KNOWN	None	None	None	None	33177995	33182656	-1	None	None
4	None	ENSG00000221618	ENST00000408691	miRNA	NOVEL	None	None	None	None	158509300	158509387	-1	None	None
9	CYP4F25P	ENSG00000224106	ENST00000446871	unprocessed_pseudogene	KNOWN	None	39949	None	None	69477881	69478916	1	None	CYP4F-se1[6:8]
6	RNU1-18P	ENSG00000199932	ENST00000363062	snRNA	KNOWN	None	41944	None	None	122532794	122532957	1	None	None
4	None	ENSG00000249275	ENST00000507296	lincRNA	KNOWN	None	None	None	None	158558839	158588196	1	None	None
19	None	ENSG00000267567	ENST00000587554	lincRNA	KNOWN	None	None	None	None	33209204	33210501	-1	None	None
18	IL9RP4	ENSG00000262081	ENST00000571755	unprocessed_pseudogene	KNOWN	None	6034	None	None	80140	88570	-1	None	None
19	None	ENSG00000228674	ENST00000596021	processed_pseudogene	KNOWN	None	None	None	None	51430335	51430827	-1	None	None
19	None	ENSG00000228674	ENST00000427643	processed_pseudogene	KNOWN	None	None	None	None	51430334	51430831	-1	None	None
6	None	ENSG00000272472	ENST00000606756	lincRNA	KNOWN	None	None	None	None	122964533	122965916	1	None	None
19	None	ENSG00000267245	ENST00000590892	processed_pseudogene	KNOWN	None	None	None	None	33315048	33315411	-1	None	None
13	MZT1	ENSG00000204899	ENST00000377818	protein_coding	KNOWN	CCDS31990	33830	249	82	73282495	73301825	-1	C13orf37	LOC440145, FLJ21869, MGC150539, RP11-11C5.2, MOZART1
4	None	ENSG00000200521	ENST00000363651	misc_RNA	NOVEL	None	None	None	None	158689165	158689265	-1	None	None
6	RN7SL564P	ENSG00000240606	ENST00000496309	misc_RNA	KNOWN	None	46580	None	None	123066419	123066693	1	None	None
18	ZBTB7C	ENSG00000184828	ENST00000535628	protein_coding	KNOWN	CCDS32830	31700	1860	619	45553044	45663732	-1	ZBTB36	ZNF857C
18	ZBTB7C	ENSG00000184828	ENST00000588982	protein_coding	KNOWN	CCDS32830	31700	1860	619	45553044	45691937	-1	ZBTB36	ZNF857C
18	ZBTB7C	ENSG00000184828	ENST00000586438	protein_coding	KNOWN	CCDS32830	31700	1860	619	45553044	45691937	-1	ZBTB36	ZNF857C
18	ZBTB7C	ENSG00000184828	ENST00000590800	protein_coding	KNOWN	CCDS32830	31700	1860	619	45553044	45935793	-1	ZBTB36	ZNF857C
18	ZBTB7C	ENSG00000184828	ENST00000590437	protein_coding	KNOWN	None	31700	200	65	45567279	45691702	-1	ZBTB36	ZNF857C
18	ZBTB7C	ENSG00000184828	ENST00000585404	protein_coding	KNOWN	None	31700	75	24	45567404	45864762	-1	ZBTB36	ZNF857C
18	ZBTB7C	ENSG00000184828	ENST00000589619	protein_coding	KNOWN	None	31700	75	24	45567404	45864762	-1	ZBTB36	ZNF857C
18	ZBTB7C	ENSG00000184828	ENST00000586743	protein_coding	KNOWN	None	31700	75	24	45567404	45864762	-1	ZBTB36	ZNF857C
18	ZBTB7C	ENSG00000184828	ENST00000589077	protein_coding	KNOWN	None	31700	75	24	45567404	45864762	-1	ZBTB36	ZNF857C
18	ZBTB7C	ENSG00000184828	ENST00000592656	protein_coding	KNOWN	None	31700	75	24	45567404	45864762	-1	ZBTB36	ZNF857C
18	ZBTB7C	ENSG00000184828	ENST00000589194	protein_coding	KNOWN	None	31700	75	24	45567404	45935663	-1	ZBTB36	ZNF857C
18	ZBTB7C	ENSG00000184828	ENST00000591279	protein_coding	KNOWN	None	31700	75	24	45567404	45935663	-1	ZBTB36	ZNF857C
18	ZBTB7C	ENSG00000184828	ENST00000590855	protein_coding	KNOWN	None	31700	75	24	45567404	45935663	-1	ZBTB36	ZNF857C
18	ZBTB7C	ENSG00000184828	ENST00000587107	protein_coding	KNOWN	None	31700	75	24	45567404	45935663	-1	ZBTB36	ZNF857C
18	ZBTB7C	ENSG00000184828	ENST00000588970	protein_coding	KNOWN	None	31700	75	24	45567404	45935663	-1	ZBTB36	ZNF857C
18	ZBTB7C	ENSG00000184828	ENST00000586525	protein_coding	KNOWN	None	31700	75	24	45567404	45935663	-1	ZBTB36	ZNF857C
18	ZBTB7C	ENSG00000184828	ENST00000592387	protein_coding	KNOWN	None	31700	75	24	45567404	45935663	-1	ZBTB36	ZNF857C
18	ZBTB7C	ENSG00000184828	ENST00000586047	protein_coding	KNOWN	None	31700	56	17	45567423	45729972	-1	ZBTB36	ZNF857C
18	ZBTB7C	ENSG00000184828	ENST00000588053	protein_coding	KNOWN	None	31700	56	17	45567423	45901957	-1	ZBTB36	ZNF857C
18	ZBTB7C	ENSG00000184828	ENST00000591405	protein_coding	KNOWN	None	31700	56	17	45567423	45901979	-1	ZBTB36	ZNF857C
18	ZBTB7C	ENSG00000184828	ENST00000590178	protein_coding	KNOWN	None	31700	56	17	45567423	45901996	-1	ZBTB36	ZNF857C
18	ZBTB7C	ENSG00000184828	ENST00000588149	protein_coding	KNOWN	None	31700	56	17	45567423	45937123	-1	ZBTB36	ZNF857C
18	ZBTB7C	ENSG00000184828	ENST00000588566	protein_coding	KNOWN	None	31700	45	14	45567434	45901935	-1	ZBTB36	ZNF857C
18	ZBTB7C	ENSG00000184828	ENST00000593159	protein_coding	KNOWN	None	31700	45	14	45567434	45901935	-1	ZBTB36	ZNF857C
18	ZBTB7C	ENSG00000184828	ENST00000591526	protein_coding	KNOWN	None	31700	45	14	45567434	45901935	-1	ZBTB36	ZNF857C
18	ZBTB7C	ENSG00000184828	ENST00000590374	protein_coding	KNOWN	None	31700	45	14	45567434	45901935	-1	ZBTB36	ZNF857C
18	ZBTB7C	ENSG00000184828	ENST00000589170	protein_coding	KNOWN	None	31700	45	14	45567434	45901935	-1	ZBTB36	ZNF857C
18	ZBTB7C	ENSG00000184828	ENST00000588028	protein_coding	KNOWN	None	31700	45	14	45567434	45901935	-1	ZBTB36	ZNF857C
18	ZBTB7C	ENSG00000184828	ENST00000332053	protein_coding	KNOWN	CCDS32830	31700	1860	619	45553748	45567494	-1	ZBTB36	ZNF857C
4	None	ENSG00000249627	ENST00000508460	processed_pseudogene	KNOWN	None	None	None	None	158736162	158736632	1	None	None
19	None	ENSG00000267555	ENST00000590069	antisense	KNOWN	None	None	None	None	33322201	33324074	1	None	None
6	ATP5LP2	ENSG00000232362	ENST00000440646	processed_pseudogene	KNOWN	None	13215	None	None	123180823	123181133	-1	ATP5KP2	None
16	C16orf96	ENSG00000205832	ENST00000444310	protein_coding	KNOWN	CCDS53986	40031	3426	1141	4606491	4650715	1	None	None
9	None	ENSG00000224762	ENST00000441254	processed_pseudogene	KNOWN	None	None	None	None	69485458	69486244	-1	None	None
19	None	ENSG00000269495	ENST00000601506	antisense	KNOWN	None	None	None	None	51453441	51466905	1	None	None
19	None	ENSG00000269495	ENST00000594939	antisense	KNOWN	None	None	None	None	51453443	51462045	1	None	None
19	RN7SKP22	ENSG00000201967	ENST00000365097	misc_RNA	KNOWN	None	45746	None	None	33353706	33353998	-1	None	None
X	SYTL4	ENSG00000102362	ENST00000372989	protein_coding	KNOWN	CCDS14472	15588	2016	671	99929488	99986498	-1	None	None
X	SYTL4	ENSG00000102362	ENST00000491602	processed_transcript	KNOWN	None	15588	None	None	99929491	99933780	-1	None	None
X	SYTL4	ENSG00000102362	ENST00000263033	protein_coding	KNOWN	CCDS14472	15588	2016	671	99930894	99987108	-1	None	None
X	SYTL4	ENSG00000102362	ENST00000372981	protein_coding	KNOWN	None	15588	1050	349	99939693	99987107	-1	None	None
X	SYTL4	ENSG00000102362	ENST00000491326	processed_transcript	KNOWN	None	15588	None	None	99986402	99987110	-1	None	None
X	SYTL4	ENSG00000102362	ENST00000455616	protein_coding	KNOWN	CCDS14472	15588	2016	671	99929491	99986522	-1	None	None
X	SYTL4	ENSG00000102362	ENST00000454200	protein_coding	KNOWN	None	15588	2022	673	99929491	99986522	-1	None	None
X	SYTL4	ENSG00000102362	ENST00000276141	protein_coding	KNOWN	CCDS14472	15588	2016	671	99929491	99986522	-1	None	None
11	None	ENSG00000183562	ENST00000332881	protein_coding	KNOWN	None	None	180	59	3011093	3012563	1	None	None
3	KIAA0226	ENSG00000145016	ENST00000273582	protein_coding	PUTATIVE	CCDS46987	28991	2784	927	197398264	197476570	-1	None	rubicon, rundataxin
3	KIAA0226	ENSG00000145016	ENST00000413360	protein_coding	NOVEL	None	28991	2803	933	197400891	197445001	-1	None	rubicon, rundataxin
3	KIAA0226	ENSG00000145016	ENST00000296343	protein_coding	KNOWN	CCDS43195	28991	2919	972	197401889	197463590	-1	None	rubicon, rundataxin
3	KIAA0226	ENSG00000145016	ENST00000415452	protein_coding	PUTATIVE	None	28991	2042	679	197403088	197428581	-1	None	rubicon, rundataxin
3	KIAA0226	ENSG00000145016	ENST00000471364	retained_intron	KNOWN	None	28991	None	None	197410178	197420825	-1	None	rubicon, rundataxin
3	KIAA0226	ENSG00000145016	ENST00000447048	protein_coding	NOVEL	None	28991	442	146	197421288	197427640	-1	None	rubicon, rundataxin
3	KIAA0226	ENSG00000145016	ENST00000449205	protein_coding	PUTATIVE	None	28991	1308	435	197427331	197463779	-1	None	rubicon, rundataxin
3	KIAA0226	ENSG00000145016	ENST00000467303	processed_transcript	KNOWN	None	28991	None	None	197428607	197476598	-1	None	rubicon, rundataxin
3	KIAA0226	ENSG00000145016	ENST00000474214	processed_transcript	KNOWN	None	28991	None	None	197428731	197463784	-1	None	rubicon, rundataxin
3	KIAA0226	ENSG00000145016	ENST00000472149	processed_transcript	PUTATIVE	None	28991	None	None	197474980	197476218	-1	None	rubicon, rundataxin
3	KIAA0226	ENSG00000145016	ENST00000389665	protein_coding	KNOWN	None	28991	2766	921	197403711	197463773	-1	None	rubicon, rundataxin
14	TRAJ20	ENSG00000211869	ENST00000390517	TR_J_gene	KNOWN	None	12049	57	18	22993296	22993352	1	None	None
9	CNN2P3	ENSG00000235832	ENST00000450201	processed_pseudogene	KNOWN	None	39528	None	None	69498582	69499487	-1	None	None
19	None	ENSG00000266930	ENST00000586628	lincRNA	KNOWN	None	None	None	None	33366831	33369327	-1	None	None
6	None	ENSG00000225504	ENST00000426074	lincRNA	KNOWN	None	None	None	None	123391444	123394072	1	None	None
6	None	ENSG00000225504	ENST00000451729	lincRNA	KNOWN	None	None	None	None	123392316	123393064	1	None	None
Y	TOMM22P1	ENSG00000237427	ENST00000418578	processed_pseudogene	KNOWN	None	38736	None	None	23292756	23293067	1	None	None
11	NRXN2	ENSG00000110076	ENST00000464307	retained_intron	KNOWN	None	8009	None	None	64373646	64391468	-1	None	None
11	NRXN2	ENSG00000110076	ENST00000301894	protein_coding	NOVEL	CCDS8078	8009	2001	666	64373646	64410787	-1	None	None
11	NRXN2	ENSG00000110076	ENST00000377551	protein_coding	KNOWN	CCDS8077	8009	5139	1712	64373646	64481383	-1	None	None
11	NRXN2	ENSG00000110076	ENST00000377559	protein_coding	KNOWN	CCDS31597	8009	4929	1642	64373646	64490660	-1	None	None
11	NRXN2	ENSG00000110076	ENST00000409571	protein_coding	NOVEL	None	8009	5118	1705	64373649	64481415	-1	None	None
11	NRXN2	ENSG00000110076	ENST00000475737	processed_transcript	KNOWN	None	8009	None	None	64374516	64390268	-1	None	None
11	NRXN2	ENSG00000110076	ENST00000423049	protein_coding	PUTATIVE	None	8009	828	275	64390225	64410158	-1	None	None
11	NRXN2	ENSG00000110076	ENST00000467055	processed_transcript	PUTATIVE	None	8009	None	None	64397877	64404917	-1	None	None
11	NRXN2	ENSG00000110076	ENST00000487484	processed_transcript	KNOWN	None	8009	None	None	64397958	64410958	-1	None	None
11	NRXN2	ENSG00000110076	ENST00000486057	processed_transcript	KNOWN	None	8009	None	None	64418751	64423592	-1	None	None
11	NRXN2	ENSG00000110076	ENST00000496291	processed_transcript	KNOWN	None	8009	None	None	64427942	64428850	-1	None	None
11	NRXN2	ENSG00000110076	ENST00000442300	protein_coding	NOVEL	None	8009	878	291	64434910	64480217	-1	None	None
11	NRXN2	ENSG00000110076	ENST00000417749	protein_coding	NOVEL	None	8009	618	205	64435139	64480453	-1	None	None
11	NRXN2	ENSG00000110076	ENST00000437746	protein_coding	NOVEL	None	8009	643	213	64435954	64480569	-1	None	None
11	NRXN2	ENSG00000110076	ENST00000466324	retained_intron	KNOWN	None	8009	None	None	64442649	64481415	-1	None	None
11	NRXN2	ENSG00000110076	ENST00000265459	protein_coding	KNOWN	CCDS8077	8009	5139	1712	64373648	64490660	-1	None	None
18	ROCK1P1	ENSG00000263006	ENST00000576266	processed_transcript	KNOWN	None	37832	None	None	112367	118327	1	None	None
18	ROCK1P1	ENSG00000263006	ENST00000573767	transcribed_unprocessed_pseudogene	KNOWN	None	37832	None	None	116842	118504	1	None	None
9	None	ENSG00000235310	ENST00000456472	processed_pseudogene	KNOWN	None	None	None	None	69501018	69502204	1	None	None
Y	NEFLP1	ENSG00000232634	ENST00000436364	processed_pseudogene	KNOWN	None	37662	None	None	23382992	23383975	-1	None	None
19	None	ENSG00000267879	ENST00000594512	antisense	KNOWN	None	None	None	None	51471466	51515385	1	None	None
19	RPL31P60	ENSG00000239988	ENST00000478450	processed_pseudogene	KNOWN	None	36123	None	None	33454405	33454771	1	None	None
19	None	ENSG00000269807	ENST00000594776	antisense	KNOWN	None	None	None	None	4347241	4354054	-1	None	None
19	None	ENSG00000268739	ENST00000596286	antisense	KNOWN	None	None	None	None	51517630	51517990	1	None	None
8	None	ENSG00000271509	ENST00000605028	processed_pseudogene	KNOWN	None	None	None	None	128304478	128304685	1	None	None
19	None	ENSG00000267938	ENST00000600054	unprocessed_pseudogene	KNOWN	None	None	None	None	4347777	4349058	-1	None	None
Y	None	ENSG00000226918	ENST00000437359	unprocessed_pseudogene	KNOWN	None	None	None	None	23473154	23480781	1	None	None
9	None	ENSG00000264681	ENST00000580681	miRNA	NOVEL	None	None	None	None	69587378	69587444	-1	None	None
8	None	ENSG00000253929	ENST00000521586	lincRNA	KNOWN	None	None	None	None	128351519	128404876	1	None	None
X	MAP7D2	ENSG00000184368	ENST00000379651	protein_coding	KNOWN	CCDS14195	25899	2199	732	20024831	20135016	-1	None	FLJ14503
X	MAP7D2	ENSG00000184368	ENST00000379643	protein_coding	KNOWN	CCDS55386	25899	2322	773	20024985	20135035	-1	None	FLJ14503
X	MAP7D2	ENSG00000184368	ENST00000485173	nonsense_mediated_decay	KNOWN	None	25899	508	168	20025227	20082856	-1	None	FLJ14503
X	MAP7D2	ENSG00000184368	ENST00000443379	protein_coding	KNOWN	CCDS55385	25899	2064	687	20026156	20135022	-1	None	FLJ14503
X	MAP7D2	ENSG00000184368	ENST00000452324	protein_coding	KNOWN	CCDS55384	25899	2043	680	20026457	20134750	-1	None	FLJ14503
X	MAP7D2	ENSG00000184368	ENST00000466145	processed_transcript	KNOWN	None	25899	None	None	20039466	20044061	-1	None	FLJ14503
X	MAP7D2	ENSG00000184368	ENST00000543767	protein_coding	KNOWN	None	25899	1854	617	20024989	20074895	-1	None	FLJ14503
15	None	ENSG00000254414	ENST00000527801	antisense	KNOWN	None	None	None	None	85175129	85177218	-1	None	None
9	AQP7P2	ENSG00000181997	ENST00000453967	unprocessed_pseudogene	KNOWN	None	32049	None	None	69633978	69650004	-1	None	None
20	RNU1-134P	ENSG00000199805	ENST00000362935	snRNA	KNOWN	None	48476	None	None	62540308	62540472	1	None	None
11	MTNR1B	ENSG00000134640	ENST00000257068	protein_coding	KNOWN	CCDS8290	7464	1089	362	92702886	92715948	1	None	None
11	MTNR1B	ENSG00000134640	ENST00000532482	nonsense_mediated_decay	KNOWN	None	7464	240	79	92702892	92715478	1	None	None
11	MTNR1B	ENSG00000134640	ENST00000528076	protein_coding	PUTATIVE	None	7464	340	112	92702950	92718232	1	None	None
11	ST5	ENSG00000166444	ENST00000526757	protein_coding	KNOWN	CCDS7792	11350	2154	717	8714898	8832888	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000534127	protein_coding	KNOWN	CCDS7791	11350	3414	1137	8714898	8932498	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000313726	protein_coding	KNOWN	CCDS7791	11350	3414	1137	8714899	8832387	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000530991	protein_coding	KNOWN	None	11350	1830	609	8714900	8740690	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000526099	protein_coding	PUTATIVE	None	11350	1953	650	8715295	8740024	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000527540	protein_coding	NOVEL	None	11350	144	47	8715420	8716202	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000532162	retained_intron	KNOWN	None	11350	None	None	8715436	8720567	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000534278	protein_coding	PUTATIVE	None	11350	987	328	8715446	8729628	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000524513	retained_intron	KNOWN	None	11350	None	None	8715609	8717542	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000530438	protein_coding	KNOWN	CCDS7792	11350	2154	717	8715643	8832563	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000532738	retained_intron	KNOWN	None	11350	None	None	8717983	8719320	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000526062	nonsense_mediated_decay	KNOWN	None	11350	334	110	8718012	8724204	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000532871	retained_intron	KNOWN	None	11350	None	None	8719123	8728813	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000533081	protein_coding	NOVEL	None	11350	551	182	8719471	8728772	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000526701	retained_intron	KNOWN	None	11350	None	None	8721513	8732732	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000530922	processed_transcript	PUTATIVE	None	11350	None	None	8724117	8724403	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000530559	retained_intron	KNOWN	None	11350	None	None	8724119	8737377	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000533020	protein_coding	KNOWN	None	11350	1034	343	8724221	8739607	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000526837	processed_transcript	KNOWN	None	11350	None	None	8724946	8732732	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000530338	nonsense_mediated_decay	KNOWN	None	11350	296	97	8728650	8734267	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000532734	nonsense_mediated_decay	KNOWN	None	11350	1071	356	8728753	8788251	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000530593	protein_coding	NOVEL	None	11350	653	216	8732669	8747721	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000528527	protein_coding	KNOWN	None	11350	539	178	8734147	8832220	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000531060	protein_coding	PUTATIVE	None	11350	438	145	8737010	8739383	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000533425	processed_transcript	KNOWN	None	11350	None	None	8737191	8832232	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000526057	protein_coding	KNOWN	None	11350	141	46	8737270	8892626	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000528196	protein_coding	NOVEL	None	11350	446	147	8737289	8795792	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000527510	protein_coding	NOVEL	None	11350	413	136	8737302	8832196	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000530580	protein_coding	KNOWN	None	11350	407	134	8737328	8816389	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000532651	processed_transcript	KNOWN	None	11350	None	None	8739341	8892963	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000527870	retained_intron	KNOWN	None	11350	None	None	8739379	8747866	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000531093	protein_coding	KNOWN	None	11350	231	76	8739426	8793466	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000533225	protein_coding	KNOWN	None	11350	228	75	8739429	8857258	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000526126	protein_coding	KNOWN	None	11350	217	71	8747620	8892554	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000526221	processed_transcript	KNOWN	None	11350	None	None	8751852	8788217	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000529940	processed_transcript	PUTATIVE	None	11350	None	None	8752355	8857214	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000528523	protein_coding	KNOWN	None	11350	462	153	8752375	8832232	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000527930	protein_coding	PUTATIVE	None	11350	549	182	8752378	8788259	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000534783	processed_transcript	PUTATIVE	None	11350	None	None	8752389	8832294	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000533681	protein_coding	KNOWN	None	11350	433	143	8752404	8795848	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000526241	protein_coding	KNOWN	None	11350	426	141	8752411	8892531	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000530959	protein_coding	KNOWN	None	11350	419	138	8752418	8857255	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000533580	protein_coding	PUTATIVE	None	11350	466	154	8752422	8778699	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000526155	protein_coding	KNOWN	None	11350	373	123	8752464	8892900	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000534248	protein_coding	KNOWN	None	11350	368	121	8752469	8857252	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000527347	protein_coding	KNOWN	None	11350	335	110	8752502	8892464	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000533016	protein_coding	PUTATIVE	None	11350	369	122	8752528	8798226	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000527516	protein_coding	KNOWN	None	11350	285	94	8752552	8892936	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000527473	protein_coding	KNOWN	None	11350	250	82	8752587	8833113	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000530938	protein_coding	KNOWN	None	11350	222	73	8752615	8892613	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000533471	protein_coding	KNOWN	None	11350	222	73	8752615	8892965	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000524757	protein_coding	KNOWN	None	11350	172	56	8752665	8892914	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000527392	protein_coding	KNOWN	None	11350	160	52	8752677	8892914	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000526828	protein_coding	KNOWN	None	11350	157	51	8752680	8853486	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000525169	protein_coding	KNOWN	None	11350	120	39	8752717	8892917	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000534665	protein_coding	KNOWN	None	11350	90	29	8752747	8892914	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000531578	protein_coding	KNOWN	None	11350	80	25	8772168	8857255	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000531237	processed_transcript	KNOWN	None	11350	None	None	8829373	8833127	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000531640	processed_transcript	KNOWN	None	11350	None	None	8832830	8931458	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000528452	processed_transcript	PUTATIVE	None	11350	None	None	8852248	8854134	-1	None	HTS1, DENND2B, p126
11	ST5	ENSG00000166444	ENST00000357665	protein_coding	KNOWN	CCDS7791	11350	3414	1137	8714902	8860902	-1	None	HTS1, DENND2B, p126
16	PLEKHG4	ENSG00000196155	ENST00000563969	nonsense_mediated_decay	KNOWN	None	24501	582	193	67311413	67323382	1	SCA4	DKFZP434I216, ARHGEF44
16	PLEKHG4	ENSG00000196155	ENST00000360461	protein_coding	KNOWN	CCDS32466	24501	3576	1191	67311413	67323382	1	SCA4	DKFZP434I216, ARHGEF44
16	PLEKHG4	ENSG00000196155	ENST00000562144	protein_coding	KNOWN	None	24501	229	75	67311723	67314176	1	SCA4	DKFZP434I216, ARHGEF44
16	PLEKHG4	ENSG00000196155	ENST00000565899	protein_coding	KNOWN	None	24501	221	72	67312060	67314168	1	SCA4	DKFZP434I216, ARHGEF44
16	PLEKHG4	ENSG00000196155	ENST00000565773	protein_coding	PUTATIVE	None	24501	324	107	67312737	67314271	1	SCA4	DKFZP434I216, ARHGEF44
16	PLEKHG4	ENSG00000196155	ENST00000562744	protein_coding	PUTATIVE	None	24501	192	63	67313050	67314837	1	SCA4	DKFZP434I216, ARHGEF44
16	PLEKHG4	ENSG00000196155	ENST00000427155	protein_coding	KNOWN	CCDS32466	24501	3576	1191	67313141	67323382	1	SCA4	DKFZP434I216, ARHGEF44
16	PLEKHG4	ENSG00000196155	ENST00000379344	protein_coding	KNOWN	CCDS32466	24501	3576	1191	67313427	67323376	1	SCA4	DKFZP434I216, ARHGEF44
16	PLEKHG4	ENSG00000196155	ENST00000568621	protein_coding	KNOWN	None	24501	108	35	67313456	67314055	1	SCA4	DKFZP434I216, ARHGEF44
16	PLEKHG4	ENSG00000196155	ENST00000450733	protein_coding	KNOWN	CCDS45512	24501	3333	1110	67313492	67323402	1	SCA4	DKFZP434I216, ARHGEF44
16	PLEKHG4	ENSG00000196155	ENST00000567938	protein_coding	PUTATIVE	None	24501	231	76	67313499	67314178	1	SCA4	DKFZP434I216, ARHGEF44
16	PLEKHG4	ENSG00000196155	ENST00000393966	nonsense_mediated_decay	KNOWN	None	24501	582	193	67313799	67322958	1	SCA4	DKFZP434I216, ARHGEF44
16	PLEKHG4	ENSG00000196155	ENST00000562289	retained_intron	KNOWN	None	24501	None	None	67321475	67323210	1	SCA4	DKFZP434I216, ARHGEF44
16	PLEKHG4	ENSG00000196155	ENST00000569875	protein_coding	PUTATIVE	None	24501	378	125	67321803	67322845	1	SCA4	DKFZP434I216, ARHGEF44
16	PLEKHG4	ENSG00000196155	ENST00000567136	nonsense_mediated_decay	KNOWN	None	24501	319	105	67321853	67322975	1	SCA4	DKFZP434I216, ARHGEF44
8	None	ENSG00000249375	ENST00000502463	lincRNA	KNOWN	None	None	None	None	128698588	128746213	-1	None	None
8	None	ENSG00000249375	ENST00000519071	lincRNA	KNOWN	None	None	None	None	128712853	128746213	-1	None	None
8	None	ENSG00000249375	ENST00000518376	lincRNA	KNOWN	None	None	None	None	128742440	128746213	-1	None	None
9	None	ENSG00000225883	ENST00000442351	unprocessed_pseudogene	KNOWN	None	None	None	None	69718152	69721729	-1	None	None
19	None	ENSG00000269318	ENST00000593524	antisense	KNOWN	None	None	None	None	4356634	4358445	-1	None	None
X	RNA5SP502	ENSG00000199564	ENST00000362694	rRNA	KNOWN	None	43402	None	None	41152051	41152169	1	RN5S502	None
7	OR9A2	ENSG00000179468	ENST00000350513	protein_coding	KNOWN	CCDS34767	15093	933	310	142723245	142724282	-1	None	None
X	None	ENSG00000238426	ENST00000459189	misc_RNA	NOVEL	None	None	None	None	41175741	41175842	1	None	None
14	TRAJ19	ENSG00000211870	ENST00000390518	TR_J_gene	KNOWN	None	12047	60	19	22994233	22994292	1	None	None
15	EGLN1P1	ENSG00000254779	ENST00000531623	transcribed_processed_pseudogene	KNOWN	None	44481	None	None	85177105	85177866	1	None	None
X	None	ENSG00000226641	ENST00000395664	processed_pseudogene	KNOWN	None	None	None	None	41181854	41182364	-1	None	None
7	OR6V1	ENSG00000225781	ENST00000418316	protein_coding	KNOWN	CCDS47728	15090	942	313	142749417	142750444	1	None	GPR138
13	NUPL1	ENSG00000139496	ENST00000381736	protein_coding	KNOWN	CCDS9314	20261	1800	599	25875662	25916544	1	None	KIAA0410
13	NUPL1	ENSG00000139496	ENST00000481980	nonsense_mediated_decay	KNOWN	None	20261	189	62	25875694	25882087	1	None	KIAA0410
13	NUPL1	ENSG00000139496	ENST00000480187	retained_intron	KNOWN	None	20261	None	None	25875763	25882275	1	None	KIAA0410
13	NUPL1	ENSG00000139496	ENST00000460326	retained_intron	KNOWN	None	20261	None	None	25875763	25883567	1	None	KIAA0410
13	NUPL1	ENSG00000139496	ENST00000465068	nonsense_mediated_decay	KNOWN	None	20261	387	128	25875763	25887080	1	None	KIAA0410
13	NUPL1	ENSG00000139496	ENST00000490231	nonsense_mediated_decay	KNOWN	None	20261	111	36	25875763	25887094	1	None	KIAA0410
13	NUPL1	ENSG00000139496	ENST00000463407	protein_coding	KNOWN	None	20261	1458	485	25875769	25910478	1	None	KIAA0410
13	NUPL1	ENSG00000139496	ENST00000466694	processed_transcript	PUTATIVE	None	20261	None	None	25875769	25913016	1	None	KIAA0410
13	NUPL1	ENSG00000139496	ENST00000381718	protein_coding	KNOWN	CCDS31949	20261	1764	587	25875771	25914856	1	None	KIAA0410
13	NUPL1	ENSG00000139496	ENST00000495460	processed_transcript	KNOWN	None	20261	None	None	25875783	25891961	1	None	KIAA0410
13	NUPL1	ENSG00000139496	ENST00000381747	protein_coding	PUTATIVE	None	20261	1532	509	25875785	25910447	1	None	KIAA0410
13	NUPL1	ENSG00000139496	ENST00000394327	protein_coding	PUTATIVE	None	20261	1392	463	25881960	25910482	1	None	KIAA0410
13	NUPL1	ENSG00000139496	ENST00000476553	retained_intron	KNOWN	None	20261	None	None	25894411	25899192	1	None	KIAA0410
13	NUPL1	ENSG00000139496	ENST00000477876	processed_transcript	KNOWN	None	20261	None	None	25905571	25923938	1	None	KIAA0410
15	None	ENSG00000259654	ENST00000558044	antisense	KNOWN	None	None	None	None	85229115	85230177	1	None	None
X	RN7SL15P	ENSG00000264573	ENST00000582825	misc_RNA	KNOWN	None	46031	None	None	41204835	41205129	-1	None	None
X	None	ENSG00000225238	ENST00000451718	processed_pseudogene	KNOWN	None	None	None	None	41331517	41331906	-1	None	None
6	MICG	ENSG00000237042	ENST00000416822	unprocessed_pseudogene	KNOWN	None	16802	None	None	29780342	29780473	-1	None	None
6	None	ENSG00000225096	ENST00000420759	lincRNA	KNOWN	None	None	None	None	58291908	58298496	1	None	None
7	ASNS	ENSG00000070669	ENST00000394309	protein_coding	KNOWN	CCDS5652	753	1686	561	97481440	97501443	-1	None	None
7	ASNS	ENSG00000070669	ENST00000454046	nonsense_mediated_decay	KNOWN	None	753	1206	401	97481443	97499125	-1	None	None
7	ASNS	ENSG00000070669	ENST00000437628	protein_coding	NOVEL	CCDS55131	753	1437	478	97481443	97501425	-1	None	None
7	ASNS	ENSG00000070669	ENST00000394308	protein_coding	KNOWN	CCDS5652	753	1686	561	97481443	97501783	-1	None	None
7	ASNS	ENSG00000070669	ENST00000422745	protein_coding	NOVEL	CCDS55132	753	1623	540	97481458	97501779	-1	None	None
7	ASNS	ENSG00000070669	ENST00000455086	protein_coding	NOVEL	CCDS55131	753	1437	478	97481464	97501706	-1	None	None
7	ASNS	ENSG00000070669	ENST00000444334	protein_coding	NOVEL	CCDS55132	753	1623	540	97481516	97501748	-1	None	None
7	ASNS	ENSG00000070669	ENST00000487714	retained_intron	KNOWN	None	753	None	None	97481626	97484187	-1	None	None
7	ASNS	ENSG00000070669	ENST00000462436	retained_intron	KNOWN	None	753	None	None	97484303	97487691	-1	None	None
7	ASNS	ENSG00000070669	ENST00000442734	protein_coding	KNOWN	None	753	644	213	97488554	97501477	-1	None	None
7	ASNS	ENSG00000070669	ENST00000495255	retained_intron	KNOWN	None	753	None	None	97492408	97498496	-1	None	None
7	ASNS	ENSG00000070669	ENST00000437657	protein_coding	KNOWN	None	753	487	161	97493571	97501191	-1	None	None
7	ASNS	ENSG00000070669	ENST00000448127	protein_coding	KNOWN	None	753	356	117	97493702	97499289	-1	None	None
7	ASNS	ENSG00000070669	ENST00000453600	protein_coding	KNOWN	None	753	189	62	97498217	97501720	-1	None	None
7	ASNS	ENSG00000070669	ENST00000451771	protein_coding	KNOWN	None	753	98	31	97498371	97501789	-1	None	None
7	ASNS	ENSG00000070669	ENST00000414884	protein_coding	KNOWN	None	753	85	27	97498384	97501470	-1	None	None
7	ASNS	ENSG00000070669	ENST00000175506	protein_coding	KNOWN	CCDS5652	753	1686	561	97481430	97501854	-1	None	None
6	HCG4P8	ENSG00000229142	ENST00000443049	unprocessed_pseudogene	KNOWN	None	22927	None	None	29795162	29796141	-1	None	HCGIV-08, HCGIV.7, HCGIV-8
X	CASK-AS1	ENSG00000233033	ENST00000451126	antisense	KNOWN	None	40126	None	None	41379289	41381589	1	None	None
7	PIP	ENSG00000159763	ENST00000291009	protein_coding	KNOWN	CCDS34768	8993	441	146	142829170	142836839	1	None	GCDFP-15, GCDFP15, GPIP4
14	SERPINA10	ENSG00000140093	ENST00000554723	protein_coding	PUTATIVE	None	15996	1455	484	94749650	94759434	-1	None	PZI, ZPI
14	SERPINA10	ENSG00000140093	ENST00000261994	protein_coding	KNOWN	CCDS9923	15996	1335	444	94749654	94759608	-1	None	PZI, ZPI
14	SERPINA10	ENSG00000140093	ENST00000554173	protein_coding	KNOWN	CCDS9923	15996	1335	444	94749692	94756985	-1	None	PZI, ZPI
14	SERPINA10	ENSG00000140093	ENST00000393096	protein_coding	KNOWN	CCDS9923	15996	1335	444	94749652	94759361	-1	None	PZI, ZPI
HSCHR6_MHC_SSTO	TAP1	ENSG00000224748	ENST00000489513	retained_intron	KNOWN	None	43	None	None	32902901	32907832	-1	ABCB2	PSF1, RING4, D6S114E
HSCHR6_MHC_SSTO	TAP1	ENSG00000224748	ENST00000428324	protein_coding	KNOWN	None	43	2427	808	32902901	32911670	-1	ABCB2	PSF1, RING4, D6S114E
HSCHR6_MHC_SSTO	TAP1	ENSG00000224748	ENST00000470021	retained_intron	KNOWN	None	43	None	None	32903367	32905922	-1	ABCB2	PSF1, RING4, D6S114E
6	MICF	ENSG00000233265	ENST00000432679	unprocessed_pseudogene	KNOWN	None	16801	None	None	29820140	29820268	-1	None	None
20	MIR941-2	ENSG00000216141	ENST00000401322	miRNA	KNOWN	None	33685	None	None	62550834	62550950	1	MIRN941-2	hsa-mir-941-2
6	GAPDHP15	ENSG00000214563	ENST00000398586	processed_pseudogene	KNOWN	None	13950	None	None	58293965	58294939	-1	GAPDP15	GAPDH-Lp, b55C20.4
X	RNU6-1321P	ENSG00000212207	ENST00000390905	snRNA	KNOWN	None	48284	None	None	41430176	41430282	-1	None	None
6	HCG4P7	ENSG00000230521	ENST00000420084	unprocessed_pseudogene	KNOWN	None	22926	None	None	29855071	29856045	-1	None	HCGIV-07, HCGIV.C, HCGIV-7
X	RN7SL406P	ENSG00000265741	ENST00000582021	misc_RNA	KNOWN	None	46422	None	None	41496727	41497012	1	None	None
13	BORA	ENSG00000136122	ENST00000377814	protein_coding	PUTATIVE	None	24724	642	213	73302061	73319317	1	C13orf34	FLJ22624
13	BORA	ENSG00000136122	ENST00000471712	processed_transcript	KNOWN	None	24724	None	None	73302063	73319183	1	C13orf34	FLJ22624
13	BORA	ENSG00000136122	ENST00000390667	protein_coding	KNOWN	CCDS9446	24724	1680	559	73302064	73330336	1	C13orf34	FLJ22624
13	BORA	ENSG00000136122	ENST00000464754	processed_transcript	KNOWN	None	24724	None	None	73302066	73319274	1	C13orf34	FLJ22624
13	BORA	ENSG00000136122	ENST00000377815	protein_coding	KNOWN	None	24724	1470	489	73302061	73329466	1	C13orf34	FLJ22624
X	None	ENSG00000217624	ENST00000405276	processed_pseudogene	KNOWN	None	None	None	None	41535013	41535747	-1	None	None
20	C20orf62	ENSG00000168746	ENST00000306731	protein_coding	PUTATIVE	None	16195	237	78	43080624	43093968	-1	None	dJ1013A22.3
20	C20orf62	ENSG00000168746	ENST00000372910	protein_coding	PUTATIVE	None	16195	513	170	43090403	43093984	-1	None	dJ1013A22.3
19	BST2	ENSG00000130303	ENST00000252593	protein_coding	KNOWN	CCDS12358	1119	543	180	17513748	17516457	-1	None	CD317, tetherin
19	BST2	ENSG00000130303	ENST00000533098	retained_intron	KNOWN	None	1119	None	None	17514050	17515346	-1	None	CD317, tetherin
19	BST2	ENSG00000130303	ENST00000527220	processed_transcript	KNOWN	None	1119	None	None	17514600	17516339	-1	None	CD317, tetherin
6	HLA-H	ENSG00000206341	ENST00000383620	unprocessed_pseudogene	KNOWN	None	4965	None	None	29855529	29858259	1	None	None
6	HLA-H	ENSG00000206341	ENST00000383326	unprocessed_pseudogene	KNOWN	None	4965	None	None	29855350	29857081	1	None	None
7	ATP6V0E2	ENSG00000171130	ENST00000421974	protein_coding	KNOWN	CCDS47742	21723	642	213	149570057	149577778	1	C7orf32, ATP6V0E2L	None
7	ATP6V0E2	ENSG00000171130	ENST00000456496	protein_coding	KNOWN	CCDS55181	21723	393	130	149570057	149577782	1	C7orf32, ATP6V0E2L	None
7	ATP6V0E2	ENSG00000171130	ENST00000464683	nonsense_mediated_decay	KNOWN	None	21723	240	79	149571065	149576446	1	C7orf32, ATP6V0E2L	None
7	ATP6V0E2	ENSG00000171130	ENST00000479613	protein_coding	KNOWN	None	21723	564	187	149571065	149577778	1	C7orf32, ATP6V0E2L	None
7	ATP6V0E2	ENSG00000171130	ENST00000606024	protein_coding	KNOWN	None	21723	495	164	149571076	149577085	1	C7orf32, ATP6V0E2L	None
7	ATP6V0E2	ENSG00000171130	ENST00000471877	nonsense_mediated_decay	KNOWN	None	21723	246	81	149571076	149577783	1	C7orf32, ATP6V0E2L	None
7	ATP6V0E2	ENSG00000171130	ENST00000464662	protein_coding	KNOWN	None	21723	246	81	149571082	149576054	1	C7orf32, ATP6V0E2L	None
7	ATP6V0E2	ENSG00000171130	ENST00000425642	protein_coding	KNOWN	None	21723	246	81	149571132	149577784	1	C7orf32, ATP6V0E2L	None
7	ATP6V0E2	ENSG00000171130	ENST00000483478	processed_transcript	KNOWN	None	21723	None	None	149571685	149576711	1	C7orf32, ATP6V0E2L	None
7	ATP6V0E2	ENSG00000171130	ENST00000495408	processed_transcript	KNOWN	None	21723	None	None	149571893	149576601	1	C7orf32, ATP6V0E2L	None
7	ATP6V0E2	ENSG00000171130	ENST00000490092	processed_transcript	KNOWN	None	21723	None	None	149571893	149576631	1	C7orf32, ATP6V0E2L	None
4	NUDT6	ENSG00000170917	ENST00000512116	nonsense_mediated_decay	KNOWN	None	8053	315	104	123813730	123843737	-1	None	gfg-1, gfg, FGF2AS, FGF-AS
4	NUDT6	ENSG00000170917	ENST00000304430	protein_coding	KNOWN	CCDS43268	8053	951	316	123813799	123843761	-1	None	gfg-1, gfg, FGF2AS, FGF-AS
4	NUDT6	ENSG00000170917	ENST00000339154	protein_coding	KNOWN	CCDS3729	8053	444	147	123813799	123844123	-1	None	gfg-1, gfg, FGF2AS, FGF-AS
4	NUDT6	ENSG00000170917	ENST00000503370	nonsense_mediated_decay	KNOWN	None	8053	315	104	123813801	123843729	-1	None	gfg-1, gfg, FGF2AS, FGF-AS
4	NUDT6	ENSG00000170917	ENST00000510735	protein_coding	PUTATIVE	None	8053	152	49	123813805	123843597	-1	None	gfg-1, gfg, FGF2AS, FGF-AS
4	NUDT6	ENSG00000170917	ENST00000502270	protein_coding	KNOWN	CCDS3729	8053	444	147	123813896	123834443	-1	None	gfg-1, gfg, FGF2AS, FGF-AS
4	NUDT6	ENSG00000170917	ENST00000513517	retained_intron	KNOWN	None	8053	None	None	123818681	123843752	-1	None	gfg-1, gfg, FGF2AS, FGF-AS
20	MIR941-3	ENSG00000216195	ENST00000401376	miRNA	KNOWN	None	33686	None	None	62551085	62551201	1	MIRN941-3	hsa-mir-941-3
8	PVT1	ENSG00000249859	ENST00000504719	lincRNA	KNOWN	None	9709	None	None	128806779	128903221	1	None	NCRNA00079, LINC00079
8	PVT1	ENSG00000249859	ENST00000524165	lincRNA	KNOWN	None	9709	None	None	128806803	128867565	1	None	NCRNA00079, LINC00079
8	PVT1	ENSG00000249859	ENST00000523328	processed_transcript	KNOWN	None	9709	None	None	128806803	128867565	1	None	NCRNA00079, LINC00079
8	PVT1	ENSG00000249859	ENST00000521951	lincRNA	KNOWN	None	9709	None	None	128806803	128952700	1	None	NCRNA00079, LINC00079
8	PVT1	ENSG00000249859	ENST00000517525	lincRNA	KNOWN	None	9709	None	None	128806806	128951855	1	None	NCRNA00079, LINC00079
8	PVT1	ENSG00000249859	ENST00000523427	lincRNA	KNOWN	None	9709	None	None	128806821	128903198	1	None	NCRNA00079, LINC00079
8	PVT1	ENSG00000249859	ENST00000517790	lincRNA	KNOWN	None	9709	None	None	128808000	128903178	1	None	NCRNA00079, LINC00079
8	PVT1	ENSG00000249859	ENST00000522963	lincRNA	KNOWN	None	9709	None	None	128808059	128903041	1	None	NCRNA00079, LINC00079
8	PVT1	ENSG00000249859	ENST00000518528	lincRNA	KNOWN	None	9709	None	None	128808066	128903206	1	None	NCRNA00079, LINC00079
8	PVT1	ENSG00000249859	ENST00000523068	lincRNA	KNOWN	None	9709	None	None	128808279	128903229	1	None	NCRNA00079, LINC00079
8	PVT1	ENSG00000249859	ENST00000521122	lincRNA	KNOWN	None	9709	None	None	128866974	128902987	1	None	NCRNA00079, LINC00079
8	PVT1	ENSG00000249859	ENST00000513868	lincRNA	KNOWN	None	9709	None	None	128902874	129113499	1	None	NCRNA00079, LINC00079
8	PVT1	ENSG00000249859	ENST00000520913	lincRNA	KNOWN	None	9709	None	None	128902892	128944941	1	None	NCRNA00079, LINC00079
8	PVT1	ENSG00000249859	ENST00000519481	lincRNA	KNOWN	None	9709	None	None	128902923	129008896	1	None	NCRNA00079, LINC00079
8	PVT1	ENSG00000249859	ENST00000517838	processed_transcript	KNOWN	None	9709	None	None	128903116	129008896	1	None	NCRNA00079, LINC00079
8	PVT1	ENSG00000249859	ENST00000512617	lincRNA	KNOWN	None	9709	None	None	129001430	129082518	1	None	NCRNA00079, LINC00079
8	PVT1	ENSG00000249859	ENST00000521600	lincRNA	KNOWN	None	9709	None	None	129001463	129108824	1	None	NCRNA00079, LINC00079
8	PVT1	ENSG00000249859	ENST00000522875	lincRNA	KNOWN	None	9709	None	None	129001507	129108902	1	None	NCRNA00079, LINC00079
8	PVT1	ENSG00000249859	ENST00000523190	lincRNA	KNOWN	None	9709	None	None	129021904	129113343	1	None	NCRNA00079, LINC00079
8	PVT1	ENSG00000249859	ENST00000522414	lincRNA	KNOWN	None	9709	None	None	129108765	129112133	1	None	NCRNA00079, LINC00079
8	PVT1	ENSG00000249859	ENST00000408388	miRNA	KNOWN	None	9709	None	None	128808208	128808274	1	None	NCRNA00079, LINC00079
X	RN7SL144P	ENSG00000242559	ENST00000475761	misc_RNA	KNOWN	None	46160	None	None	41542424	41542719	-1	None	None
4	MIR297	ENSG00000215961	ENST00000401142	miRNA	KNOWN	None	33691	None	None	111781738	111781803	-1	MIRN297	hsa-mir-297
20	PIGU	ENSG00000101464	ENST00000217446	protein_coding	KNOWN	CCDS13239	15791	1308	435	33148346	33264889	-1	CDC91L1	bA346K17.2, GAB1
20	PIGU	ENSG00000101464	ENST00000438215	protein_coding	PUTATIVE	None	15791	509	168	33148707	33203897	-1	CDC91L1	bA346K17.2, GAB1
20	PIGU	ENSG00000101464	ENST00000480175	processed_transcript	KNOWN	None	15791	None	None	33166823	33222507	-1	CDC91L1	bA346K17.2, GAB1
20	PIGU	ENSG00000101464	ENST00000462389	retained_intron	KNOWN	None	15791	None	None	33231371	33264894	-1	CDC91L1	bA346K17.2, GAB1
20	PIGU	ENSG00000101464	ENST00000374820	protein_coding	KNOWN	None	15791	1248	415	33148347	33264910	-1	CDC91L1	bA346K17.2, GAB1
20	PIGU	ENSG00000101464	ENST00000452740	protein_coding	KNOWN	None	15791	1272	423	33148639	33264889	-1	CDC91L1	bA346K17.2, GAB1
4	LYPLA1P2	ENSG00000251483	ENST00000513113	processed_pseudogene	KNOWN	None	44006	None	None	111866265	111866955	-1	None	None
6	HLA-T	ENSG00000231130	ENST00000429813	unprocessed_pseudogene	KNOWN	None	23478	None	None	29864431	29865563	1	HLA-16	None
14	TRAJ18	ENSG00000211871	ENST00000390519	TR_J_gene	KNOWN	None	12046	66	21	22994620	22994685	1	None	None
6	DDX39BP1	ENSG00000233677	ENST00000422507	unprocessed_pseudogene	KNOWN	None	33450	None	None	29874320	29874686	1	BAT1P1	None
4	GLRB	ENSG00000109738	ENST00000264428	protein_coding	KNOWN	CCDS3796	4329	1494	497	157997209	158093242	1	None	None
4	GLRB	ENSG00000109738	ENST00000515642	nonsense_mediated_decay	KNOWN	None	4329	141	46	157997318	158057663	1	None	None
4	GLRB	ENSG00000109738	ENST00000512619	protein_coding	PUTATIVE	None	4329	171	56	157997347	158092057	1	None	None
4	GLRB	ENSG00000109738	ENST00000506411	nonsense_mediated_decay	KNOWN	None	4329	141	46	157997356	158060024	1	None	None
4	GLRB	ENSG00000109738	ENST00000509282	protein_coding	KNOWN	CCDS3796	4329	1494	497	157997555	158091958	1	None	None
4	GLRB	ENSG00000109738	ENST00000510970	retained_intron	KNOWN	None	4329	None	None	158057517	158060052	1	None	None
4	GLRB	ENSG00000109738	ENST00000541722	protein_coding	KNOWN	CCDS54813	4329	912	303	157997277	158093242	1	None	None
20	TTPAL	ENSG00000124120	ENST00000262605	protein_coding	KNOWN	CCDS13332	16114	1029	342	43104526	43123244	1	C20orf121	dJ179M20.3
20	TTPAL	ENSG00000124120	ENST00000372904	protein_coding	KNOWN	CCDS13332	16114	1029	342	43104528	43123244	1	C20orf121	dJ179M20.3
20	TTPAL	ENSG00000124120	ENST00000372906	protein_coding	PUTATIVE	None	16114	465	154	43104544	43118477	1	C20orf121	dJ179M20.3
20	TTPAL	ENSG00000124120	ENST00000456317	protein_coding	NOVEL	None	16114	839	278	43104560	43118094	1	C20orf121	dJ179M20.3
20	TTPAL	ENSG00000124120	ENST00000461134	retained_intron	KNOWN	None	16114	None	None	43114445	43120456	1	C20orf121	dJ179M20.3
16	SPN	ENSG00000197471	ENST00000395389	protein_coding	KNOWN	CCDS10650	11249	1203	400	29674300	29676848	1	None	LSN, CD43, GPL115
16	SPN	ENSG00000197471	ENST00000436527	protein_coding	KNOWN	None	11249	1065	354	29674540	29676114	1	None	LSN, CD43, GPL115
16	SPN	ENSG00000197471	ENST00000563039	nonsense_mediated_decay	KNOWN	CCDS10650	11249	1203	400	29674576	29682187	1	None	LSN, CD43, GPL115
16	SPN	ENSG00000197471	ENST00000360121	protein_coding	KNOWN	CCDS10650	11249	1203	400	29674580	29681811	1	None	LSN, CD43, GPL115
19	None	ENSG00000267611	ENST00000587471	processed_pseudogene	KNOWN	None	None	None	None	33542421	33542607	1	None	None
11	CWF19L2	ENSG00000152404	ENST00000282251	protein_coding	KNOWN	CCDS8336	26508	2685	894	107197071	107328570	-1	None	FLJ32343
11	CWF19L2	ENSG00000152404	ENST00000431778	nonsense_mediated_decay	KNOWN	None	26508	1872	623	107197086	107313757	-1	None	FLJ32343
11	CWF19L2	ENSG00000152404	ENST00000532251	nonsense_mediated_decay	KNOWN	None	26508	1662	553	107197523	107313757	-1	None	FLJ32343
11	CWF19L2	ENSG00000152404	ENST00000462890	retained_intron	KNOWN	None	26508	None	None	107219437	107224456	-1	None	FLJ32343
11	CWF19L2	ENSG00000152404	ENST00000433523	protein_coding	KNOWN	None	26508	2229	742	107216190	107328572	-1	None	FLJ32343
19	None	ENSG00000267725	ENST00000591021	processed_pseudogene	KNOWN	None	None	None	None	33558081	33558339	1	None	None
19	None	ENSG00000264355	ENST00000577275	miRNA	NOVEL	None	None	None	None	33667978	33668061	1	None	None
19	None	ENSG00000267054	ENST00000590117	lincRNA	KNOWN	None	None	None	None	33668962	33669557	1	None	None
11	SLC36A4	ENSG00000180773	ENST00000326402	protein_coding	KNOWN	CCDS8291	19660	1515	504	92877341	92931129	-1	None	PAT4, FLJ38932
11	SLC36A4	ENSG00000180773	ENST00000527503	retained_intron	KNOWN	None	19660	None	None	92881314	92888654	-1	None	PAT4, FLJ38932
11	SLC36A4	ENSG00000180773	ENST00000529184	protein_coding	PUTATIVE	None	19660	1110	369	92881481	92930621	-1	None	PAT4, FLJ38932
11	SLC36A4	ENSG00000180773	ENST00000526735	retained_intron	KNOWN	None	19660	None	None	92887130	92900696	-1	None	PAT4, FLJ38932
11	SLC36A4	ENSG00000180773	ENST00000534116	protein_coding	PUTATIVE	None	19660	840	279	92887323	92916060	-1	None	PAT4, FLJ38932
11	SLC36A4	ENSG00000180773	ENST00000524875	nonsense_mediated_decay	KNOWN	None	19660	336	111	92903320	92931130	-1	None	PAT4, FLJ38932
11	SLC36A4	ENSG00000180773	ENST00000527743	retained_intron	KNOWN	None	19660	None	None	92918386	92931095	-1	None	PAT4, FLJ38932
18	PPP4R1	ENSG00000154845	ENST00000400556	protein_coding	KNOWN	CCDS42412	9320	2853	950	9546789	9614556	-1	None	PP4R1
18	PPP4R1	ENSG00000154845	ENST00000400555	protein_coding	KNOWN	CCDS42413	9320	2802	933	9546789	9614567	-1	None	PP4R1
18	PPP4R1	ENSG00000154845	ENST00000582594	retained_intron	KNOWN	None	9320	None	None	9546908	9551937	-1	None	PP4R1
18	PPP4R1	ENSG00000154845	ENST00000285124	nonsense_mediated_decay	KNOWN	None	9320	255	84	9547711	9614503	-1	None	PP4R1
18	PPP4R1	ENSG00000154845	ENST00000579609	processed_transcript	KNOWN	None	9320	None	None	9547802	9553420	-1	None	PP4R1
18	PPP4R1	ENSG00000154845	ENST00000578329	retained_intron	KNOWN	None	9320	None	None	9549236	9550298	-1	None	PP4R1
18	PPP4R1	ENSG00000154845	ENST00000578010	retained_intron	KNOWN	None	9320	None	None	9549832	9550480	-1	None	PP4R1
18	PPP4R1	ENSG00000154845	ENST00000584754	processed_transcript	KNOWN	None	9320	None	None	9550367	9562070	-1	None	PP4R1
18	PPP4R1	ENSG00000154845	ENST00000577667	retained_intron	KNOWN	None	9320	None	None	9556979	9559574	-1	None	PP4R1
18	PPP4R1	ENSG00000154845	ENST00000583438	retained_intron	KNOWN	None	9320	None	None	9557324	9563144	-1	None	PP4R1
18	PPP4R1	ENSG00000154845	ENST00000583988	retained_intron	KNOWN	None	9320	None	None	9561981	9563864	-1	None	PP4R1
18	PPP4R1	ENSG00000154845	ENST00000578557	processed_transcript	KNOWN	None	9320	None	None	9562921	9570464	-1	None	PP4R1
18	PPP4R1	ENSG00000154845	ENST00000580583	processed_transcript	KNOWN	None	9320	None	None	9577062	9595059	-1	None	PP4R1
18	PPP4R1	ENSG00000154845	ENST00000578875	nonsense_mediated_decay	KNOWN	None	9320	306	101	9584774	9614531	-1	None	PP4R1
18	PPP4R1	ENSG00000154845	ENST00000578178	processed_transcript	KNOWN	None	9320	None	None	9588077	9614513	-1	None	PP4R1
18	PPP4R1	ENSG00000154845	ENST00000579638	processed_transcript	KNOWN	None	9320	None	None	9588083	9599710	-1	None	PP4R1
18	PPP4R1	ENSG00000154845	ENST00000583903	processed_transcript	KNOWN	None	9320	None	None	9588083	9613587	-1	None	PP4R1
18	PPP4R1	ENSG00000154845	ENST00000584074	protein_coding	PUTATIVE	None	9320	454	150	9588089	9614893	-1	None	PP4R1
18	PPP4R1	ENSG00000154845	ENST00000579415	processed_transcript	KNOWN	None	9320	None	None	9588107	9613574	-1	None	PP4R1
18	PPP4R1	ENSG00000154845	ENST00000581250	protein_coding	PUTATIVE	None	9320	431	142	9588112	9614293	-1	None	PP4R1
18	PPP4R1	ENSG00000154845	ENST00000580745	protein_coding	PUTATIVE	None	9320	407	134	9588136	9615238	-1	None	PP4R1
18	PPP4R1	ENSG00000154845	ENST00000582933	processed_transcript	KNOWN	None	9320	None	None	9588150	9599739	-1	None	PP4R1
18	PPP4R1	ENSG00000154845	ENST00000580182	nonsense_mediated_decay	KNOWN	None	9320	228	75	9588170	9614557	-1	None	PP4R1
18	PPP4R1	ENSG00000154845	ENST00000582240	protein_coding	PUTATIVE	None	9320	570	189	9588207	9615187	-1	None	PP4R1
18	PPP4R1	ENSG00000154845	ENST00000581835	protein_coding	PUTATIVE	None	9320	291	96	9588727	9614285	-1	None	PP4R1
18	PPP4R1	ENSG00000154845	ENST00000583092	nonsense_mediated_decay	KNOWN	None	9320	54	17	9588825	9614531	-1	None	PP4R1
18	PPP4R1	ENSG00000154845	ENST00000577779	retained_intron	KNOWN	None	9320	None	None	9594701	9614511	-1	None	PP4R1
18	PPP4R1	ENSG00000154845	ENST00000580283	retained_intron	KNOWN	None	9320	None	None	9594823	9614272	-1	None	PP4R1
18	PPP4R1	ENSG00000154845	ENST00000577393	retained_intron	KNOWN	None	9320	None	None	9613794	9614531	-1	None	PP4R1
16	None	ENSG00000270120	ENST00000602304	sense_intronic	KNOWN	None	None	None	None	50746755	50747500	1	None	None
19	None	ENSG00000267714	ENST00000590492	antisense	KNOWN	None	None	None	None	33708723	33712076	1	None	None
16	None	ENSG00000261644	ENST00000567728	antisense	KNOWN	None	None	None	None	50769624	50774627	-1	None	None
10	None	ENSG00000239148	ENST00000459141	snoRNA	NOVEL	None	None	None	None	5046902	5047034	1	None	None
19	None	ENSG00000270212	ENST00000604605	lincRNA	KNOWN	None	None	None	None	33774884	33776645	-1	None	None
10	None	ENSG00000251740	ENST00000515931	snoRNA	NOVEL	None	None	None	None	5090055	5090173	-1	None	None
10	None	ENSG00000237831	ENST00000451627	unprocessed_pseudogene	KNOWN	None	None	None	None	5091004	5093862	1	None	None
19	None	ENSG00000267580	ENST00000589932	antisense	KNOWN	None	None	None	None	33790840	33792074	1	None	None
12	ALX1	ENSG00000180318	ENST00000316824	protein_coding	KNOWN	CCDS9028	1494	981	326	85673885	85695562	1	CART1	None
4	None	ENSG00000251312	ENST00000509926	processed_pseudogene	KNOWN	None	None	None	None	111984739	111985383	1	None	None
10	None	ENSG00000239142	ENST00000459536	snoRNA	NOVEL	None	None	None	None	5135600	5135735	-1	None	None
16	None	ENSG00000260929	ENST00000563315	antisense	KNOWN	None	None	None	None	50774821	50776726	-1	None	None
9	None	ENSG00000235932	ENST00000445380	processed_pseudogene	KNOWN	None	None	None	None	69749821	69750173	-1	None	None
4	TSPAN5	ENSG00000168785	ENST00000508798	nonsense_mediated_decay	KNOWN	None	17753	582	193	99391518	99579721	-1	TM4SF9	Tspan-5, NET-4
4	TSPAN5	ENSG00000168785	ENST00000305798	protein_coding	KNOWN	CCDS3646	17753	807	268	99391518	99579780	-1	TM4SF9	Tspan-5, NET-4
4	TSPAN5	ENSG00000168785	ENST00000505184	protein_coding	NOVEL	None	17753	594	197	99393361	99578843	-1	TM4SF9	Tspan-5, NET-4
4	TSPAN5	ENSG00000168785	ENST00000511753	retained_intron	KNOWN	None	17753	None	None	99393496	99406683	-1	TM4SF9	Tspan-5, NET-4
4	TSPAN5	ENSG00000168785	ENST00000515440	nonsense_mediated_decay	KNOWN	None	17753	263	86	99399836	99579349	-1	TM4SF9	Tspan-5, NET-4
4	TSPAN5	ENSG00000168785	ENST00000509168	processed_transcript	KNOWN	None	17753	None	None	99399851	99481384	-1	TM4SF9	Tspan-5, NET-4
4	TSPAN5	ENSG00000168785	ENST00000515287	protein_coding	NOVEL	None	17753	331	109	99399868	99578786	-1	TM4SF9	Tspan-5, NET-4
4	TSPAN5	ENSG00000168785	ENST00000511651	protein_coding	NOVEL	None	17753	180	59	99403213	99578800	-1	TM4SF9	Tspan-5, NET-4
4	TSPAN5	ENSG00000168785	ENST00000511800	nonsense_mediated_decay	KNOWN	None	17753	117	38	99403252	99578798	-1	TM4SF9	Tspan-5, NET-4
4	TSPAN5	ENSG00000168785	ENST00000507167	retained_intron	KNOWN	None	17753	None	None	99407696	99579445	-1	TM4SF9	Tspan-5, NET-4
4	RNU6-289P	ENSG00000200963	ENST00000364093	snRNA	KNOWN	None	47252	None	None	112252568	112252674	1	None	None
7	TAS2R39	ENSG00000236398	ENST00000446620	protein_coding	KNOWN	CCDS47729	18886	1017	338	142880512	142881528	1	None	None
HSCHR6_MHC_MCF	POU5F1	ENSG00000235068	ENST00000433063	protein_coding	KNOWN	None	9221	1083	360	31210640	31217015	-1	OTF3	OCT3, Oct4, MGC22487
HSCHR6_MHC_MCF	POU5F1	ENSG00000235068	ENST00000419095	protein_coding	KNOWN	None	9221	798	265	31210640	31212581	-1	OTF3	OCT3, Oct4, MGC22487
HSCHR6_MHC_MCF	POU5F1	ENSG00000235068	ENST00000483880	processed_transcript	KNOWN	None	9221	None	None	31210640	31211597	-1	OTF3	OCT3, Oct4, MGC22487
HSCHR6_MHC_MCF	POU5F1	ENSG00000235068	ENST00000498800	retained_intron	KNOWN	None	9221	None	None	31212005	31216980	-1	OTF3	OCT3, Oct4, MGC22487
HSCHR6_MHC_MCF	POU5F1	ENSG00000235068	ENST00000550059	protein_coding	KNOWN	None	9221	369	122	31205745	31216942	-1	OTF3	OCT3, Oct4, MGC22487
HSCHR6_MHC_MCF	POU5F1	ENSG00000235068	ENST00000548682	protein_coding	KNOWN	None	9221	558	185	31210641	31216996	-1	OTF3	OCT3, Oct4, MGC22487
16	None	ENSG00000264947	ENST00000578512	miRNA	KNOWN	None	None	None	None	50776216	50776288	1	None	None
1	KIF1B	ENSG00000054523	ENST00000377093	protein_coding	KNOWN	CCDS112	16636	3462	1153	10270863	10368655	1	CMT2A, CMT2	KIAA0591, KLP, HMSNII
1	KIF1B	ENSG00000054523	ENST00000263934	protein_coding	KNOWN	CCDS111	16636	5313	1770	10270863	10437995	1	CMT2A, CMT2	KIAA0591, KLP, HMSNII
1	KIF1B	ENSG00000054523	ENST00000377086	protein_coding	NOVEL	None	16636	5451	1816	10271674	10441661	1	CMT2A, CMT2	KIAA0591, KLP, HMSNII
1	KIF1B	ENSG00000054523	ENST00000377083	protein_coding	KNOWN	CCDS112	16636	3462	1153	10290822	10366815	1	CMT2A, CMT2	KIAA0591, KLP, HMSNII
1	KIF1B	ENSG00000054523	ENST00000377081	protein_coding	PUTATIVE	None	16636	5472	1823	10292308	10441655	1	CMT2A, CMT2	KIAA0591, KLP, HMSNII
1	KIF1B	ENSG00000054523	ENST00000495136	retained_intron	KNOWN	None	16636	None	None	10338616	10342441	1	CMT2A, CMT2	KIAA0591, KLP, HMSNII
1	KIF1B	ENSG00000054523	ENST00000497835	retained_intron	KNOWN	None	16636	None	None	10342508	10352392	1	CMT2A, CMT2	KIAA0591, KLP, HMSNII
1	KIF1B	ENSG00000054523	ENST00000465635	processed_transcript	KNOWN	None	16636	None	None	10404833	10421883	1	CMT2A, CMT2	KIAA0591, KLP, HMSNII
1	KIF1B	ENSG00000054523	ENST00000483340	retained_intron	KNOWN	None	16636	None	None	10405679	10421882	1	CMT2A, CMT2	KIAA0591, KLP, HMSNII
1	KIF1B	ENSG00000054523	ENST00000470616	retained_intron	KNOWN	None	16636	None	None	10425224	10428560	1	CMT2A, CMT2	KIAA0591, KLP, HMSNII
3	CP	ENSG00000047457	ENST00000481169	nonsense_mediated_decay	KNOWN	None	2295	2841	946	148880197	148939614	-1	None	None
3	CP	ENSG00000047457	ENST00000479771	protein_coding	PUTATIVE	None	2295	678	225	148880204	148897408	-1	None	None
3	CP	ENSG00000047457	ENST00000460674	retained_intron	KNOWN	None	2295	None	None	148890286	148897920	-1	None	None
3	CP	ENSG00000047457	ENST00000264613	protein_coding	KNOWN	CCDS3141	2295	3198	1065	148890286	148939842	-1	None	None
3	CP	ENSG00000047457	ENST00000494544	protein_coding	NOVEL	None	2295	2559	852	148891254	148927127	-1	None	None
3	CP	ENSG00000047457	ENST00000474204	retained_intron	KNOWN	None	2295	None	None	148891271	148894501	-1	None	None
3	CP	ENSG00000047457	ENST00000473296	retained_intron	KNOWN	None	2295	None	None	148893772	148895694	-1	None	None
3	CP	ENSG00000047457	ENST00000463556	retained_intron	KNOWN	None	2295	None	None	148894150	148897525	-1	None	None
3	CP	ENSG00000047457	ENST00000490639	retained_intron	KNOWN	None	2295	None	None	148895572	148939611	-1	None	None
3	CP	ENSG00000047457	ENST00000497902	retained_intron	KNOWN	None	2295	None	None	148902950	148905883	-1	None	None
3	CP	ENSG00000047457	ENST00000462336	processed_transcript	KNOWN	None	2295	None	None	148903036	148916240	-1	None	None
3	CP	ENSG00000047457	ENST00000489736	retained_intron	KNOWN	None	2295	None	None	148903853	148925410	-1	None	None
3	CP	ENSG00000047457	ENST00000497797	retained_intron	KNOWN	None	2295	None	None	148905706	148917608	-1	None	None
3	CP	ENSG00000047457	ENST00000471356	retained_intron	KNOWN	None	2295	None	None	148905851	148917818	-1	None	None
3	CP	ENSG00000047457	ENST00000455472	protein_coding	NOVEL	None	2295	536	177	148928145	148939614	-1	None	None
16	None	ENSG00000260616	ENST00000575917	antisense	KNOWN	None	None	None	None	50817770	50832153	-1	None	None
16	None	ENSG00000260616	ENST00000564510	antisense	KNOWN	None	None	None	None	50817770	50837249	-1	None	None
16	ZNF747	ENSG00000169955	ENST00000395094	protein_coding	KNOWN	None	28350	573	190	30541688	30546239	-1	None	MGC2474
16	ZNF747	ENSG00000169955	ENST00000252799	protein_coding	KNOWN	CCDS10682	28350	576	191	30541688	30546668	-1	None	MGC2474
16	ZNF747	ENSG00000169955	ENST00000568028	protein_coding	PUTATIVE	None	28350	993	330	30543627	30546325	-1	None	MGC2474
16	ZNF747	ENSG00000169955	ENST00000535210	protein_coding	KNOWN	None	28350	993	330	30537244	30546173	-1	None	MGC2474
10	AKR1C5P	ENSG00000225418	ENST00000427165	unprocessed_pseudogene	KNOWN	None	44679	None	None	5164279	5177418	-1	None	None
7	TTC26	ENSG00000105948	ENST00000495038	protein_coding	NOVEL	None	21882	1272	423	138818510	138874411	1	None	FLJ12571, dyf-13, DYF13
7	TTC26	ENSG00000105948	ENST00000479132	processed_transcript	KNOWN	None	21882	None	None	138818522	138831900	1	None	FLJ12571, dyf-13, DYF13
7	TTC26	ENSG00000105948	ENST00000474035	protein_coding	NOVEL	None	21882	816	271	138818524	138846089	1	None	FLJ12571, dyf-13, DYF13
7	TTC26	ENSG00000105948	ENST00000478836	protein_coding	PUTATIVE	None	21882	1344	447	138818524	138874548	1	None	FLJ12571, dyf-13, DYF13
7	TTC26	ENSG00000105948	ENST00000464848	protein_coding	KNOWN	CCDS5852	21882	1665	554	138818524	138876732	1	None	FLJ12571, dyf-13, DYF13
7	TTC26	ENSG00000105948	ENST00000481482	processed_transcript	KNOWN	None	21882	None	None	138818526	138853327	1	None	FLJ12571, dyf-13, DYF13
7	TTC26	ENSG00000105948	ENST00000343187	protein_coding	NOVEL	CCDS55173	21882	1572	523	138818529	138874546	1	None	FLJ12571, dyf-13, DYF13
7	TTC26	ENSG00000105948	ENST00000476296	nonsense_mediated_decay	KNOWN	None	21882	408	135	138818534	138875038	1	None	FLJ12571, dyf-13, DYF13
7	TTC26	ENSG00000105948	ENST00000468866	processed_transcript	KNOWN	None	21882	None	None	138818568	138832994	1	None	FLJ12571, dyf-13, DYF13
7	TTC26	ENSG00000105948	ENST00000430935	protein_coding	KNOWN	CCDS55172	21882	1464	487	138818490	138874550	1	None	FLJ12571, dyf-13, DYF13
15	RN7SL209P	ENSG00000240927	ENST00000488309	misc_RNA	KNOWN	None	46225	None	None	102313442	102313716	-1	None	None
15	OR4F14P	ENSG00000232459	ENST00000355745	unprocessed_pseudogene	KNOWN	None	15077	None	None	102368944	102369882	1	OR4F14	None
16	None	ENSG00000261703	ENST00000565327	lincRNA	KNOWN	None	None	None	None	50840579	50841540	1	None	None
19	None	ENSG00000230259	ENST00000425420	pseudogene	NOVEL	None	None	None	None	33790853	33793430	-1	None	None
10	TRIM8	ENSG00000171206	ENST00000302424	protein_coding	KNOWN	CCDS31274	15579	1656	551	104404253	104418075	1	RNF27	GERP
10	TRIM8	ENSG00000171206	ENST00000462202	protein_coding	PUTATIVE	None	15579	891	296	104404644	104416711	1	RNF27	GERP
10	TRIM8	ENSG00000171206	ENST00000487927	processed_transcript	KNOWN	None	15579	None	None	104408976	104416726	1	RNF27	GERP
10	TRIM8	ENSG00000171206	ENST00000479004	processed_transcript	KNOWN	None	15579	None	None	104415038	104416844	1	RNF27	GERP
15	OR4F13P	ENSG00000214344	ENST00000560066	processed_transcript	KNOWN	None	15076	None	None	102382322	102390527	1	None	None
15	OR4F13P	ENSG00000214344	ENST00000428478	transcribed_unprocessed_pseudogene	KNOWN	None	15076	None	None	102388848	102389778	1	None	None
19	None	ENSG00000267727	ENST00000587312	antisense	KNOWN	None	None	None	None	33792185	33792846	1	None	None
16	None	ENSG00000260042	ENST00000569986	lincRNA	KNOWN	None	None	None	None	50890525	50913189	-1	None	None
5	PLCXD3	ENSG00000182836	ENST00000377801	protein_coding	KNOWN	CCDS34150	31822	966	321	41307056	41510703	-1	None	None
5	PLCXD3	ENSG00000182836	ENST00000328457	protein_coding	KNOWN	CCDS34150	31822	966	321	41307059	41510730	-1	None	None
16	RNA5SP426	ENSG00000199771	ENST00000362901	rRNA	KNOWN	None	43326	None	None	50903366	50903486	-1	RN5S426	None
7	TAS2R40	ENSG00000221937	ENST00000408947	protein_coding	KNOWN	CCDS43662	18885	972	323	142919130	142920162	1	GPR60	None
16	None	ENSG00000263082	ENST00000576842	lincRNA	KNOWN	None	None	None	None	50914120	50918012	1	None	None
13	FGF14	ENSG00000102466	ENST00000376131	protein_coding	KNOWN	CCDS9500	3671	759	252	102372134	103054124	-1	None	FHF4, SCA27
13	FGF14	ENSG00000102466	ENST00000376143	protein_coding	KNOWN	CCDS9501	3671	744	247	102375181	102568995	-1	None	FHF4, SCA27
13	FGF14	ENSG00000102466	ENST00000468052	processed_transcript	KNOWN	None	3671	None	None	102520722	102527644	-1	None	FHF4, SCA27
3	LRRC58	ENSG00000163428	ENST00000295628	protein_coding	KNOWN	CCDS46892	26968	1116	371	120043356	120068186	-1	None	None
16	None	ENSG00000261241	ENST00000570245	lincRNA	KNOWN	None	None	None	None	50918120	50934601	1	None	None
16	None	ENSG00000261241	ENST00000567534	lincRNA	KNOWN	None	None	None	None	50918120	50934962	1	None	None
X	MCF2	ENSG00000101977	ENST00000520602	protein_coding	KNOWN	CCDS48175	6940	2958	985	138663929	138774315	-1	None	DBL, ARHGEF21
X	MCF2	ENSG00000101977	ENST00000437564	protein_coding	KNOWN	None	6940	1288	428	138663930	138687938	-1	None	DBL, ARHGEF21
X	MCF2	ENSG00000101977	ENST00000370576	protein_coding	KNOWN	CCDS14667	6940	2778	925	138663930	138724887	-1	None	DBL, ARHGEF21
X	MCF2	ENSG00000101977	ENST00000446225	protein_coding	KNOWN	None	6940	1587	528	138664301	138697211	-1	None	DBL, ARHGEF21
X	MCF2	ENSG00000101977	ENST00000519895	protein_coding	KNOWN	CCDS55517	6940	3006	1001	138664456	138790386	-1	None	DBL, ARHGEF21
X	MCF2	ENSG00000101977	ENST00000370573	protein_coding	KNOWN	CCDS55515	6940	2583	860	138664602	138724677	-1	None	DBL, ARHGEF21
X	MCF2	ENSG00000101977	ENST00000338585	protein_coding	KNOWN	CCDS55516	6940	2826	941	138664630	138724677	-1	None	DBL, ARHGEF21
X	MCF2	ENSG00000101977	ENST00000483690	processed_transcript	KNOWN	None	6940	None	None	138689343	138697109	-1	None	DBL, ARHGEF21
X	MCF2	ENSG00000101977	ENST00000536274	protein_coding	KNOWN	CCDS55514	6940	2466	821	138663930	138725000	-1	None	DBL, ARHGEF21
X	MCF2	ENSG00000101977	ENST00000370578	protein_coding	KNOWN	None	6940	3213	1070	138663930	138774284	-1	None	DBL, ARHGEF21
X	MCF2	ENSG00000101977	ENST00000414978	protein_coding	KNOWN	CCDS48175	6940	2958	985	138663930	138790375	-1	None	DBL, ARHGEF21
19	None	ENSG00000267296	ENST00000592982	antisense	KNOWN	None	None	None	None	33793763	33795960	1	None	None
3	NME9	ENSG00000181322	ENST00000383180	protein_coding	KNOWN	CCDS3099	21343	792	263	137980279	138048728	-1	TXNDC6	TXL-2, NM23-H9
3	NME9	ENSG00000181322	ENST00000492993	nonsense_mediated_decay	KNOWN	None	21343	525	174	137980933	138043771	-1	TXNDC6	TXL-2, NM23-H9
3	NME9	ENSG00000181322	ENST00000484930	protein_coding	KNOWN	None	21343	786	261	137981382	138048631	-1	TXNDC6	TXL-2, NM23-H9
3	NME9	ENSG00000181322	ENST00000333911	protein_coding	KNOWN	None	21343	993	330	138020222	138048205	-1	TXNDC6	TXL-2, NM23-H9
3	NME9	ENSG00000181322	ENST00000474690	protein_coding	PUTATIVE	None	21343	499	165	138022113	138038422	-1	TXNDC6	TXL-2, NM23-H9
3	NME9	ENSG00000181322	ENST00000478220	retained_intron	KNOWN	None	21343	None	None	138024818	138048686	-1	TXNDC6	TXL-2, NM23-H9
3	NME9	ENSG00000181322	ENST00000475751	protein_coding	KNOWN	None	21343	606	201	138024876	138048646	-1	TXNDC6	TXL-2, NM23-H9
3	NME9	ENSG00000181322	ENST00000488716	nonsense_mediated_decay	KNOWN	None	21343	270	89	138038320	138048665	-1	TXNDC6	TXL-2, NM23-H9
3	NME9	ENSG00000181322	ENST00000460099	protein_coding	KNOWN	None	21343	91	29	138043715	138048665	-1	TXNDC6	TXL-2, NM23-H9
3	NME9	ENSG00000181322	ENST00000341790	protein_coding	KNOWN	None	21343	786	261	137981382	138048205	-1	TXNDC6	TXL-2, NM23-H9
3	NME9	ENSG00000181322	ENST00000317876	protein_coding	KNOWN	CCDS3099	21343	792	263	137980279	138043774	-1	TXNDC6	TXL-2, NM23-H9
3	NME9	ENSG00000181322	ENST00000536478	protein_coding	KNOWN	CCDS3099	21343	792	263	137981382	138048205	-1	TXNDC6	TXL-2, NM23-H9
19	None	ENSG00000268906	ENST00000594910	antisense	KNOWN	None	None	None	None	51533332	51537591	1	None	None
19	SIGLECL1	ENSG00000179213	ENST00000597610	protein_coding	KNOWN	None	26856	421	139	51749603	51770637	1	C19orf75, SIGLEC23P, SIGLECP7	FLJ40235
19	SIGLECL1	ENSG00000179213	ENST00000601727	protein_coding	KNOWN	None	26856	254	83	51754332	51768853	1	C19orf75, SIGLEC23P, SIGLECP7	FLJ40235
19	SIGLECL1	ENSG00000179213	ENST00000593968	processed_transcript	KNOWN	None	26856	None	None	51754332	51771871	1	C19orf75, SIGLEC23P, SIGLECP7	FLJ40235
19	SIGLECL1	ENSG00000179213	ENST00000599553	processed_transcript	KNOWN	None	26856	None	None	51754503	51767303	1	C19orf75, SIGLEC23P, SIGLECP7	FLJ40235
19	SIGLECL1	ENSG00000179213	ENST00000596117	protein_coding	PUTATIVE	None	26856	39	12	51754526	51767693	1	C19orf75, SIGLEC23P, SIGLECP7	FLJ40235
19	SIGLECL1	ENSG00000179213	ENST00000316401	protein_coding	KNOWN	CCDS12827	26856	594	197	51760964	51772584	1	C19orf75, SIGLEC23P, SIGLECP7	FLJ40235
19	SIGLECL1	ENSG00000179213	ENST00000597824	protein_coding	NOVEL	None	26856	312	103	51767165	51772247	1	C19orf75, SIGLEC23P, SIGLECP7	FLJ40235
16	None	ENSG00000261459	ENST00000569360	nonsense_mediated_decay	KNOWN	None	None	993	330	30537244	30546173	-1	None	None
19	CEBPA-AS1	ENSG00000178863	ENST00000320232	pseudogene	KNOWN	None	25710	None	None	33793976	33795656	1	None	None
19	None	ENSG00000268390	ENST00000601280	lincRNA	KNOWN	None	None	None	None	51547063	51555334	1	None	None
16	None	ENSG00000260869	ENST00000568114	protein_coding	PUTATIVE	None	None	280	92	30545548	30569600	-1	None	None
16	None	ENSG00000261637	ENST00000563826	lincRNA	KNOWN	None	None	None	None	51051669	51069688	1	None	None
16	None	ENSG00000261637	ENST00000568607	lincRNA	KNOWN	None	None	None	None	51058808	51069682	1	None	None
7	None	ENSG00000268170	ENST00000595842	protein_coding	KNOWN	None	None	198	65	142919163	142919360	-1	None	None
15	None	ENSG00000259415	ENST00000559666	sense_intronic	KNOWN	None	None	None	None	85296353	85297733	1	None	None
16	UBALD1	ENSG00000153443	ENST00000590891	protein_coding	KNOWN	None	29576	639	212	4658884	4661524	-1	FAM100A	None
16	UBALD1	ENSG00000153443	ENST00000590965	protein_coding	PUTATIVE	None	29576	285	94	4658884	4664875	-1	FAM100A	None
16	UBALD1	ENSG00000153443	ENST00000591401	protein_coding	NOVEL	None	29576	471	156	4658884	4664882	-1	FAM100A	None
16	UBALD1	ENSG00000153443	ENST00000283474	protein_coding	KNOWN	CCDS10518	29576	534	177	4658884	4664927	-1	FAM100A	None
16	UBALD1	ENSG00000153443	ENST00000591897	protein_coding	NOVEL	None	29576	354	117	4658884	4665028	-1	FAM100A	None
16	UBALD1	ENSG00000153443	ENST00000588691	non_stop_decay	KNOWN	None	29576	202	66	4658885	4664877	-1	FAM100A	None
16	UBALD1	ENSG00000153443	ENST00000587615	protein_coding	PUTATIVE	None	29576	459	152	4659369	4664873	-1	FAM100A	None
16	UBALD1	ENSG00000153443	ENST00000587649	protein_coding	PUTATIVE	None	29576	369	122	4659722	4664874	-1	FAM100A	None
16	UBALD1	ENSG00000153443	ENST00000591113	protein_coding	PUTATIVE	None	29576	156	51	4659832	4664403	-1	FAM100A	None
11	MRPL23-AS1	ENSG00000226416	ENST00000419080	antisense	KNOWN	None	42812	None	None	2004467	2011150	-1	None	None
15	None	ENSG00000200991	ENST00000364121	snoRNA	NOVEL	None	None	None	None	85395729	85395846	-1	None	None
11	TMEM45B	ENSG00000151715	ENST00000281441	protein_coding	KNOWN	CCDS8482	25194	828	275	129685714	129729898	1	None	BC016153, FLJ40787
11	TMEM45B	ENSG00000151715	ENST00000525709	processed_transcript	KNOWN	None	25194	None	None	129685745	129698148	1	None	BC016153, FLJ40787
11	TMEM45B	ENSG00000151715	ENST00000527754	retained_intron	KNOWN	None	25194	None	None	129685758	129727374	1	None	BC016153, FLJ40787
11	TMEM45B	ENSG00000151715	ENST00000529381	retained_intron	KNOWN	None	25194	None	None	129685766	129722856	1	None	BC016153, FLJ40787
11	TMEM45B	ENSG00000151715	ENST00000524567	protein_coding	PUTATIVE	CCDS8482	25194	828	275	129720227	129729110	1	None	BC016153, FLJ40787
6	ABCC10	ENSG00000124574	ENST00000372515	protein_coding	PUTATIVE	None	52	831	276	43395104	43409635	1	None	EST182763, MRP7, SIMRP7
6	ABCC10	ENSG00000124574	ENST00000502549	processed_transcript	KNOWN	None	52	None	None	43395286	43399914	1	None	EST182763, MRP7, SIMRP7
6	ABCC10	ENSG00000124574	ENST00000372530	protein_coding	KNOWN	CCDS56430	52	4479	1492	43395292	43418168	1	None	EST182763, MRP7, SIMRP7
6	ABCC10	ENSG00000124574	ENST00000443426	processed_transcript	KNOWN	None	52	None	None	43395594	43402894	1	None	EST182763, MRP7, SIMRP7
6	ABCC10	ENSG00000124574	ENST00000244533	protein_coding	KNOWN	CCDS4896	52	4395	1464	43399489	43418163	1	None	EST182763, MRP7, SIMRP7
6	ABCC10	ENSG00000124574	ENST00000463024	retained_intron	KNOWN	None	52	None	None	43403536	43418164	1	None	EST182763, MRP7, SIMRP7
6	ABCC10	ENSG00000124574	ENST00000469856	retained_intron	KNOWN	None	52	None	None	43406449	43409799	1	None	EST182763, MRP7, SIMRP7
6	ABCC10	ENSG00000124574	ENST00000372512	retained_intron	KNOWN	None	52	None	None	43412838	43415175	1	None	EST182763, MRP7, SIMRP7
6	ABCC10	ENSG00000124574	ENST00000437104	retained_intron	KNOWN	None	52	None	None	43414593	43415600	1	None	EST182763, MRP7, SIMRP7
6	ABCC10	ENSG00000124574	ENST00000505344	protein_coding	NOVEL	None	52	390	129	43415731	43418160	1	None	EST182763, MRP7, SIMRP7
16	None	ENSG00000260605	ENST00000568471	lincRNA	KNOWN	None	None	None	None	51069029	51072675	-1	None	None
9	C9orf152	ENSG00000188959	ENST00000473442	processed_transcript	KNOWN	None	31455	None	None	112952328	112969760	-1	None	bA470J20.2
9	C9orf152	ENSG00000188959	ENST00000400613	protein_coding	KNOWN	CCDS35102	31455	720	239	112961841	112970469	-1	None	bA470J20.2
16	ZNF764	ENSG00000169951	ENST00000252797	protein_coding	KNOWN	CCDS10683	28200	1227	408	30565085	30569584	-1	None	MGC13138
16	ZNF764	ENSG00000169951	ENST00000395091	protein_coding	KNOWN	CCDS54001	28200	1224	407	30565085	30569819	-1	None	MGC13138
16	ZNF764	ENSG00000169951	ENST00000568333	retained_intron	KNOWN	None	28200	None	None	30566959	30569532	-1	None	MGC13138
16	None	ENSG00000260620	ENST00000569009	lincRNA	KNOWN	None	None	None	None	51088639	51090310	-1	None	None
12	PLBD2	ENSG00000151176	ENST00000545182	protein_coding	NOVEL	CCDS53834	27283	1674	557	113796371	113827043	1	None	p76
12	PLBD2	ENSG00000151176	ENST00000280800	protein_coding	KNOWN	CCDS9168	27283	1770	589	113796375	113827203	1	None	p76
12	PLBD2	ENSG00000151176	ENST00000548997	nonsense_mediated_decay	KNOWN	None	27283	159	52	113796559	113812665	1	None	p76
12	PLBD2	ENSG00000151176	ENST00000547163	processed_transcript	PUTATIVE	None	27283	None	None	113812671	113814891	1	None	p76
14	C14orf37	ENSG00000139971	ENST00000556788	processed_transcript	PUTATIVE	None	19846	None	None	58466453	58470742	-1	None	None
14	C14orf37	ENSG00000139971	ENST00000267485	protein_coding	KNOWN	CCDS32089	19846	2325	774	58467479	58618931	-1	None	None
14	C14orf37	ENSG00000139971	ENST00000557175	processed_transcript	KNOWN	None	19846	None	None	58582834	58605959	-1	None	None
14	C14orf37	ENSG00000139971	ENST00000334342	processed_transcript	KNOWN	None	19846	None	None	58582842	58618901	-1	None	None
14	C14orf37	ENSG00000139971	ENST00000555101	retained_intron	KNOWN	None	19846	None	None	58597925	58599849	-1	None	None
14	C14orf37	ENSG00000139971	ENST00000554218	processed_transcript	KNOWN	None	19846	None	None	58605819	58764857	-1	None	None
4	None	ENSG00000250026	ENST00000514295	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	69049802	69093787	-1	None	None
4	None	ENSG00000250026	ENST00000513714	processed_transcript	KNOWN	None	None	None	None	69049847	69051871	-1	None	None
4	None	ENSG00000250026	ENST00000514420	processed_transcript	KNOWN	None	None	None	None	69049896	69051921	-1	None	None
4	None	ENSG00000250026	ENST00000511720	processed_transcript	KNOWN	None	None	None	None	69054121	69083722	-1	None	None
4	None	ENSG00000250026	ENST00000510782	processed_transcript	KNOWN	None	None	None	None	69054242	69083798	-1	None	None
4	None	ENSG00000250026	ENST00000504453	processed_transcript	KNOWN	None	None	None	None	69056739	69083721	-1	None	None
4	None	ENSG00000241722	ENST00000491760	processed_pseudogene	KNOWN	None	None	None	None	112473010	112473329	1	None	None
17	DHRS7C	ENSG00000184544	ENST00000571771	protein_coding	PUTATIVE	None	32423	399	132	9674751	9683238	-1	None	SDR32C2
17	DHRS7C	ENSG00000184544	ENST00000571134	protein_coding	NOVEL	CCDS58517	32423	936	311	9674770	9694614	-1	None	SDR32C2
17	DHRS7C	ENSG00000184544	ENST00000330255	protein_coding	KNOWN	CCDS56020	32423	939	312	9674770	9694614	-1	None	SDR32C2
8	FDFT1	ENSG00000079459	ENST00000530337	protein_coding	PUTATIVE	None	3629	450	149	11659748	11679327	1	None	None
8	FDFT1	ENSG00000079459	ENST00000220584	protein_coding	KNOWN	CCDS5985	3629	1254	417	11660120	11696818	1	None	None
8	FDFT1	ENSG00000079459	ENST00000446331	processed_transcript	KNOWN	None	3629	None	None	11660152	11696719	1	None	None
8	FDFT1	ENSG00000079459	ENST00000443614	protein_coding	NOVEL	None	3629	1125	374	11660248	11696292	1	None	None
8	FDFT1	ENSG00000079459	ENST00000525283	nonsense_mediated_decay	KNOWN	None	3629	204	67	11660250	11689176	1	None	None
8	FDFT1	ENSG00000079459	ENST00000525607	nonsense_mediated_decay	KNOWN	None	3629	138	45	11660250	11696348	1	None	None
8	FDFT1	ENSG00000079459	ENST00000529464	nonsense_mediated_decay	KNOWN	None	3629	156	51	11660255	11689090	1	None	None
8	FDFT1	ENSG00000079459	ENST00000525900	protein_coding	PUTATIVE	None	3629	1233	410	11660275	11696414	1	None	None
8	FDFT1	ENSG00000079459	ENST00000525571	processed_transcript	KNOWN	None	3629	None	None	11660277	11661341	1	None	None
8	FDFT1	ENSG00000079459	ENST00000527045	retained_intron	KNOWN	None	3629	None	None	11660293	11661324	1	None	None
8	FDFT1	ENSG00000079459	ENST00000528812	protein_coding	PUTATIVE	None	3629	1062	353	11660521	11696469	1	None	None
8	FDFT1	ENSG00000079459	ENST00000525551	processed_transcript	PUTATIVE	None	3629	None	None	11660604	11661009	1	None	None
8	FDFT1	ENSG00000079459	ENST00000530664	protein_coding	PUTATIVE	None	3629	1062	353	11665452	11696349	1	None	None
8	FDFT1	ENSG00000079459	ENST00000525954	retained_intron	KNOWN	None	3629	None	None	11665926	11696476	1	None	None
8	FDFT1	ENSG00000079459	ENST00000531733	retained_intron	KNOWN	None	3629	None	None	11665999	11667485	1	None	None
8	FDFT1	ENSG00000079459	ENST00000531249	retained_intron	KNOWN	None	3629	None	None	11666019	11683605	1	None	None
8	FDFT1	ENSG00000079459	ENST00000532266	nonsense_mediated_decay	KNOWN	None	3629	342	113	11666300	11687784	1	None	None
8	FDFT1	ENSG00000079459	ENST00000528643	protein_coding	PUTATIVE	None	3629	999	332	11666653	11696623	1	None	None
8	FDFT1	ENSG00000079459	ENST00000525777	protein_coding	PUTATIVE	None	3629	999	332	11666765	11696122	1	None	None
8	FDFT1	ENSG00000079459	ENST00000528729	retained_intron	KNOWN	None	3629	None	None	11679290	11689105	1	None	None
8	FDFT1	ENSG00000079459	ENST00000529521	retained_intron	KNOWN	None	3629	None	None	11687789	11689303	1	None	None
8	FDFT1	ENSG00000079459	ENST00000538689	protein_coding	KNOWN	None	3629	921	306	11653082	11696476	1	None	None
15	RNU6-339P	ENSG00000207037	ENST00000384310	snRNA	KNOWN	None	47302	None	None	85481647	85481753	-1	None	None
15	RNU6-796P	ENSG00000212388	ENST00000391086	snRNA	KNOWN	None	47759	None	None	85482848	85482954	-1	None	None
10	CEP55	ENSG00000138180	ENST00000371485	protein_coding	KNOWN	CCDS7428	1161	1395	464	95256389	95288849	1	C10orf3	FLJ10540, CT111
10	CEP55	ENSG00000138180	ENST00000445435	protein_coding	KNOWN	None	1161	626	207	95266767	95278868	1	C10orf3	FLJ10540, CT111
10	CEP55	ENSG00000138180	ENST00000496302	processed_transcript	KNOWN	None	1161	None	None	95276964	95280034	1	C10orf3	FLJ10540, CT111
20	SRXN1	ENSG00000271303	ENST00000381962	protein_coding	KNOWN	CCDS13005	16132	414	137	627259	634014	-1	C20orf139	Npn3, SRX1, YKL086W, dJ850E9.2
15	None	ENSG00000271044	ENST00000604365	processed_pseudogene	KNOWN	None	None	None	None	85483735	85484364	-1	None	None
20	SERINC3	ENSG00000132824	ENST00000411544	protein_coding	KNOWN	None	11699	639	212	43124862	43133532	-1	TDE1	DIFF33, TDE, SBBI99, TMS-1, AIGP1
20	SERINC3	ENSG00000132824	ENST00000342374	protein_coding	KNOWN	CCDS13333	11699	1422	473	43126072	43150750	-1	TDE1	DIFF33, TDE, SBBI99, TMS-1, AIGP1
20	SERINC3	ENSG00000132824	ENST00000468234	processed_transcript	KNOWN	None	11699	None	None	43142534	43150695	-1	TDE1	DIFF33, TDE, SBBI99, TMS-1, AIGP1
20	SERINC3	ENSG00000132824	ENST00000255175	protein_coding	KNOWN	CCDS13333	11699	1422	473	43124865	43150726	-1	TDE1	DIFF33, TDE, SBBI99, TMS-1, AIGP1
20	SERINC3	ENSG00000132824	ENST00000541235	protein_coding	KNOWN	None	11699	1257	418	43128813	43150651	-1	TDE1	DIFF33, TDE, SBBI99, TMS-1, AIGP1
15	None	ENSG00000259270	ENST00000561005	processed_pseudogene	KNOWN	None	None	None	None	85721859	85722037	-1	None	None
15	MKI67IPP8	ENSG00000259449	ENST00000560500	processed_pseudogene	KNOWN	None	44956	None	None	85724441	85725314	-1	None	None
HSCHR6_MHC_APD	HLA-DQB2	ENSG00000230675	ENST00000419685	protein_coding	KNOWN	None	4945	795	264	32708756	32716193	-1	HLA-DXB	None
HSCHR6_MHC_APD	HLA-DQB2	ENSG00000230675	ENST00000455520	protein_coding	KNOWN	None	4945	828	275	32708756	32716191	-1	HLA-DXB	None
HSCHR6_MHC_APD	HLA-DQB2	ENSG00000230675	ENST00000456529	protein_coding	KNOWN	None	4945	684	227	32708756	32716149	-1	HLA-DXB	None
HSCHR6_MHC_APD	HLA-DQB2	ENSG00000230675	ENST00000418419	protein_coding	KNOWN	None	4945	656	217	32709046	32716125	-1	HLA-DXB	None
HSCHR6_MHC_APD	HLA-DQB2	ENSG00000230675	ENST00000549642	protein_coding	KNOWN	None	4945	627	208	32708756	32716212	-1	HLA-DXB	None
12	RASSF9	ENSG00000198774	ENST00000361228	protein_coding	KNOWN	CCDS44950	15739	1308	435	86198331	86230348	-1	PAMCI	P-CIP1
3	FSTL1	ENSG00000163430	ENST00000295633	protein_coding	KNOWN	CCDS2998	3972	927	308	120111140	120170100	-1	None	FRP, FSL1
3	FSTL1	ENSG00000163430	ENST00000480823	protein_coding	PUTATIVE	None	3972	61	19	120115070	120122144	-1	None	FRP, FSL1
3	FSTL1	ENSG00000163430	ENST00000424703	protein_coding	NOVEL	None	3972	822	273	120115320	120169838	-1	None	FRP, FSL1
3	FSTL1	ENSG00000163430	ENST00000488318	retained_intron	KNOWN	None	3972	None	None	120115738	120118936	-1	None	FRP, FSL1
3	FSTL1	ENSG00000163430	ENST00000468098	retained_intron	KNOWN	None	3972	None	None	120123742	120130173	-1	None	FRP, FSL1
3	FSTL1	ENSG00000163430	ENST00000469005	protein_coding	KNOWN	None	3972	419	138	120128422	120169838	-1	None	FRP, FSL1
3	FSTL1	ENSG00000163430	ENST00000464690	retained_intron	KNOWN	None	3972	None	None	120128804	120169840	-1	None	FRP, FSL1
3	FSTL1	ENSG00000163430	ENST00000472536	processed_transcript	PUTATIVE	None	3972	None	None	120140019	120169839	-1	None	FRP, FSL1
3	FSTL1	ENSG00000163430	ENST00000485968	processed_transcript	PUTATIVE	None	3972	None	None	120142374	120169807	-1	None	FRP, FSL1
3	FSTL1	ENSG00000163430	ENST00000467994	processed_transcript	KNOWN	None	3972	None	None	120157108	120169827	-1	None	FRP, FSL1
3	MYH15	ENSG00000144821	ENST00000273353	protein_coding	KNOWN	CCDS43127	31073	5841	1946	108099216	108248169	-1	None	KIAA1000
3	MYH15	ENSG00000144821	ENST00000478998	retained_intron	KNOWN	None	31073	None	None	108123766	108178280	-1	None	KIAA1000
3	MYH15	ENSG00000144821	ENST00000495753	processed_transcript	KNOWN	None	31073	None	None	108174654	108180759	-1	None	KIAA1000
9	None	ENSG00000237419	ENST00000428088	lincRNA	KNOWN	None	None	None	None	141090383	141093775	-1	None	None
14	RGS6	ENSG00000182732	ENST00000553525	protein_coding	KNOWN	CCDS55924	10002	1473	490	72399156	73029184	1	None	None
14	RGS6	ENSG00000182732	ENST00000555571	protein_coding	NOVEL	CCDS9808	10002	1419	472	72399334	73029175	1	None	None
14	RGS6	ENSG00000182732	ENST00000553530	protein_coding	NOVEL	CCDS9808	10002	1419	472	72399833	73030654	1	None	None
14	RGS6	ENSG00000182732	ENST00000554474	nonsense_mediated_decay	KNOWN	None	10002	1398	465	72399862	73029572	1	None	None
14	RGS6	ENSG00000182732	ENST00000556437	protein_coding	NOVEL	CCDS55924	10002	1473	490	72399949	73029300	1	None	None
14	RGS6	ENSG00000182732	ENST00000355512	protein_coding	NOVEL	None	10002	1383	460	72431509	73004421	1	None	None
14	RGS6	ENSG00000182732	ENST00000404301	protein_coding	NOVEL	None	10002	1443	480	72431509	73007032	1	None	None
14	RGS6	ENSG00000182732	ENST00000406236	protein_coding	NOVEL	None	10002	1428	475	72431509	73007032	1	None	None
14	RGS6	ENSG00000182732	ENST00000407322	protein_coding	NOVEL	None	10002	1434	477	72431509	73007041	1	None	None
14	RGS6	ENSG00000182732	ENST00000553690	processed_transcript	KNOWN	None	10002	None	None	72887687	72940777	1	None	None
14	RGS6	ENSG00000182732	ENST00000555368	processed_transcript	KNOWN	None	10002	None	None	72921228	72945039	1	None	None
14	RGS6	ENSG00000182732	ENST00000434263	protein_coding	NOVEL	None	10002	1620	539	72921228	73017382	1	None	None
14	RGS6	ENSG00000182732	ENST00000554782	protein_coding	KNOWN	None	10002	1041	346	72926377	73029462	1	None	None
14	RGS6	ENSG00000182732	ENST00000554734	retained_intron	KNOWN	None	10002	None	None	72940695	72943968	1	None	None
14	RGS6	ENSG00000182732	ENST00000553519	processed_transcript	PUTATIVE	None	10002	None	None	72978315	72982555	1	None	None
14	RGS6	ENSG00000182732	ENST00000554300	processed_transcript	PUTATIVE	None	10002	None	None	73006770	73029545	1	None	None
14	RGS6	ENSG00000182732	ENST00000402788	protein_coding	KNOWN	CCDS9808	10002	1419	472	72431509	73029175	1	None	None
14	RGS6	ENSG00000182732	ENST00000343854	protein_coding	KNOWN	CCDS55925	10002	1362	453	72431509	73029175	1	None	None
9	FAM157B	ENSG00000233013	ENST00000446912	lincRNA	KNOWN	None	34080	None	None	141107518	141143444	1	None	None
9	FAM157B	ENSG00000233013	ENST00000540522	lincRNA	KNOWN	None	34080	None	None	141106637	141134172	1	None	None
10	PSTK	ENSG00000179988	ENST00000465232	processed_transcript	KNOWN	None	28578	None	None	124713897	124749906	1	C10orf89	MGC35392
10	PSTK	ENSG00000179988	ENST00000368887	protein_coding	KNOWN	CCDS7633	28578	1047	348	124739556	124749906	1	C10orf89	MGC35392
10	PSTK	ENSG00000179988	ENST00000406217	protein_coding	KNOWN	None	28578	1079	358	124739994	124749908	1	C10orf89	MGC35392
10	PSTK	ENSG00000179988	ENST00000483455	processed_transcript	KNOWN	None	28578	None	None	124740047	124749851	1	C10orf89	MGC35392
10	PSTK	ENSG00000179988	ENST00000497219	processed_transcript	KNOWN	None	28578	None	None	124741500	124757029	1	C10orf89	MGC35392
10	PSTK	ENSG00000179988	ENST00000493461	retained_intron	KNOWN	None	28578	None	None	124741979	124745763	1	C10orf89	MGC35392
10	PSTK	ENSG00000179988	ENST00000483755	processed_transcript	KNOWN	None	28578	None	None	124742433	124749908	1	C10orf89	MGC35392
10	PSTK	ENSG00000179988	ENST00000496079	processed_transcript	KNOWN	None	28578	None	None	124742806	124754445	1	C10orf89	MGC35392
10	PSTK	ENSG00000179988	ENST00000405485	protein_coding	KNOWN	None	28578	870	289	124739930	124749908	1	C10orf89	MGC35392
11	OR52B4	ENSG00000221996	ENST00000408920	protein_coding	KNOWN	CCDS41609	15209	945	314	4388493	4389616	-1	None	None
HSCHR6_MHC_MCF	MICF	ENSG00000234364	ENST00000422397	unprocessed_pseudogene	KNOWN	None	16801	None	None	29816995	29817123	-1	None	None
1	DPYD	ENSG00000188641	ENST00000370192	protein_coding	KNOWN	CCDS30777	3012	3078	1025	97543299	98386579	-1	None	DPD
1	DPYD	ENSG00000188641	ENST00000474241	processed_transcript	KNOWN	None	3012	None	None	98156763	98187210	-1	None	DPD
1	DPYD	ENSG00000188641	ENST00000306031	protein_coding	KNOWN	CCDS53346	3012	522	173	98185314	98386605	-1	None	DPD
1	DPYD	ENSG00000188641	ENST00000460019	processed_transcript	KNOWN	None	3012	None	None	98320586	98386553	-1	None	DPD
1	DPYD	ENSG00000188641	ENST00000423006	protein_coding	KNOWN	None	3012	471	156	98157277	98386553	-1	None	DPD
12	NTS	ENSG00000133636	ENST00000551529	protein_coding	NOVEL	None	8038	288	95	86268073	86276557	1	None	None
12	NTS	ENSG00000133636	ENST00000256010	protein_coding	KNOWN	CCDS9029	8038	513	170	86268075	86276770	1	None	None
12	NTS	ENSG00000133636	ENST00000550879	retained_intron	KNOWN	None	8038	None	None	86271807	86276577	1	None	None
7	GSTK1	ENSG00000197448	ENST00000436038	protein_coding	PUTATIVE	None	16906	354	117	142941186	142962185	1	None	GST13
7	GSTK1	ENSG00000197448	ENST00000409500	protein_coding	KNOWN	CCDS47731	16906	645	214	142960522	142966088	1	None	GST13
7	GSTK1	ENSG00000197448	ENST00000443571	protein_coding	KNOWN	CCDS47732	16906	552	183	142960534	142966155	1	None	GST13
7	GSTK1	ENSG00000197448	ENST00000358406	protein_coding	KNOWN	CCDS5877	16906	681	226	142960536	142966222	1	None	GST13
7	GSTK1	ENSG00000197448	ENST00000442394	nonsense_mediated_decay	KNOWN	None	16906	573	190	142960544	142967847	1	None	GST13
7	GSTK1	ENSG00000197448	ENST00000479303	protein_coding	KNOWN	CCDS47730	16906	849	282	142960549	142966208	1	None	GST13
7	GSTK1	ENSG00000197448	ENST00000494735	processed_transcript	KNOWN	None	16906	None	None	142960564	142961775	1	None	GST13
7	GSTK1	ENSG00000197448	ENST00000473649	retained_intron	KNOWN	None	16906	None	None	142960580	142967947	1	None	GST13
7	GSTK1	ENSG00000197448	ENST00000489654	retained_intron	KNOWN	None	16906	None	None	142960589	142961963	1	None	GST13
HSCHR6_MHC_MCF	HCG4P7	ENSG00000225120	ENST00000419005	unprocessed_pseudogene	KNOWN	None	22926	None	None	29846327	29847295	-1	None	HCGIV-07, HCGIV.C, HCGIV-7
16	NPIPB9	ENSG00000196993	ENST00000357796	protein_coding	PUTATIVE	None	41987	945	314	28763108	28784128	1	None	None
16	NPIPB9	ENSG00000196993	ENST00000550983	protein_coding	NOVEL	None	41987	1290	429	28763108	28784128	1	None	None
16	NPIPB9	ENSG00000196993	ENST00000435324	protein_coding	KNOWN	None	41987	1062	353	28770025	28784123	1	None	None
18	None	ENSG00000263884	ENST00000581677	lincRNA	KNOWN	None	None	None	None	268148	270278	1	None	None
HSCHR6_MHC_MCF	HLA-H	ENSG00000247700	ENST00000499304	unprocessed_pseudogene	KNOWN	None	4965	None	None	29846785	29849507	1	None	None
2	LAPTM4A	ENSG00000068697	ENST00000175091	protein_coding	KNOWN	CCDS1696	6924	702	233	20232411	20251789	-1	MBNT	HUMORF13, KIAA0108, Mtrp, LAPTM4
2	LAPTM4A	ENSG00000068697	ENST00000483117	retained_intron	KNOWN	None	6924	None	None	20232930	20235004	-1	MBNT	HUMORF13, KIAA0108, Mtrp, LAPTM4
18	DSG2	ENSG00000046604	ENST00000261590	protein_coding	KNOWN	CCDS42423	3049	3357	1118	29078006	29128971	1	None	CDHF5
18	DSG2	ENSG00000046604	ENST00000585206	protein_coding	PUTATIVE	None	3049	699	232	29078183	29102571	1	None	CDHF5
17	None	ENSG00000214978	ENST00000399363	protein_coding	NOVEL	None	None	882	293	9705703	9725388	-1	None	None
18	None	ENSG00000264514	ENST00000580756	lincRNA	KNOWN	None	None	None	None	316737	319165	1	None	None
12	GALNT9	ENSG00000182870	ENST00000397325	protein_coding	KNOWN	CCDS41866	4131	714	237	132680924	132690573	-1	None	GALNAC-T9
12	GALNT9	ENSG00000182870	ENST00000411988	protein_coding	NOVEL	None	4131	1129	375	132681054	132834281	-1	None	GALNAC-T9
12	GALNT9	ENSG00000182870	ENST00000328957	protein_coding	KNOWN	None	4131	1812	603	132681054	132905789	-1	None	GALNAC-T9
12	GALNT9	ENSG00000182870	ENST00000541995	protein_coding	KNOWN	CCDS41866	4131	714	237	132681618	132690337	-1	None	GALNAC-T9
12	GALNT9	ENSG00000182870	ENST00000538356	protein_coding	KNOWN	None	4131	290	95	132685682	132690704	-1	None	GALNAC-T9
12	GALNT9	ENSG00000182870	ENST00000542942	protein_coding	KNOWN	None	4131	163	53	132688052	132690347	-1	None	GALNAC-T9
12	GALNT9	ENSG00000182870	ENST00000424720	retained_intron	KNOWN	None	4131	None	None	132823993	132905935	-1	None	GALNAC-T9
12	GALNT9	ENSG00000182870	ENST00000535208	processed_transcript	KNOWN	None	4131	None	None	132834390	132851804	-1	None	GALNAC-T9
12	GALNT9	ENSG00000182870	ENST00000540493	retained_intron	KNOWN	None	4131	None	None	132859750	132863057	-1	None	GALNAC-T9
12	GALNT9	ENSG00000182870	ENST00000535228	protein_coding	KNOWN	None	4131	1065	354	132681054	132834281	-1	None	GALNAC-T9
11	CCDC179	ENSG00000255359	ENST00000532798	protein_coding	PUTATIVE	CCDS58127	44653	207	68	22868477	22881972	-1	None	None
11	CCDC179	ENSG00000255359	ENST00000529466	retained_intron	KNOWN	None	44653	None	None	22868925	22879698	-1	None	None
22	TTC28	ENSG00000100154	ENST00000397906	protein_coding	NOVEL	CCDS46678	29179	7446	2481	28374004	29075853	-1	None	KIAA1043
22	TTC28	ENSG00000100154	ENST00000431039	protein_coding	NOVEL	None	29179	905	300	28379587	28392227	-1	None	KIAA1043
22	TTC28	ENSG00000100154	ENST00000480563	retained_intron	KNOWN	None	29179	None	None	28379740	28386064	-1	None	KIAA1043
22	TTC28	ENSG00000100154	ENST00000469670	retained_intron	KNOWN	None	29179	None	None	28388600	28392412	-1	None	KIAA1043
22	TTC28	ENSG00000100154	ENST00000442232	protein_coding	PUTATIVE	None	29179	327	108	28424803	28490123	-1	None	KIAA1043
22	TTC28	ENSG00000100154	ENST00000490475	processed_transcript	KNOWN	None	29179	None	None	28692202	28839061	-1	None	KIAA1043
22	TTC28	ENSG00000100154	ENST00000468807	retained_intron	KNOWN	None	29179	None	None	29025416	29075800	-1	None	KIAA1043
18	None	ENSG00000264433	ENST00000580242	lincRNA	KNOWN	None	None	None	None	316740	317366	-1	None	None
HSCHR6_MHC_MCF	HLA-T	ENSG00000237098	ENST00000437927	unprocessed_pseudogene	KNOWN	None	23478	None	None	29855591	29856722	1	HLA-16	None
10	None	ENSG00000225424	ENST00000414581	lincRNA	KNOWN	None	None	None	None	131076515	131089986	1	None	None
18	None	ENSG00000265477	ENST00000582120	sense_intronic	KNOWN	None	None	None	None	423744	424416	-1	None	None
HSCHR6_MHC_MCF	DDX39BP1	ENSG00000236265	ENST00000427782	unprocessed_pseudogene	KNOWN	None	33450	None	None	29865562	29865928	1	BAT1P1	None
1	CLIC4	ENSG00000169504	ENST00000374379	protein_coding	KNOWN	CCDS256	13518	762	253	25071848	25170815	1	None	DKFZP566G223, CLIC4L, P64H1, H1, huH1, p64H1
1	CLIC4	ENSG00000169504	ENST00000497755	processed_transcript	KNOWN	None	13518	None	None	25071873	25166398	1	None	DKFZP566G223, CLIC4L, P64H1, H1, huH1, p64H1
1	CLIC4	ENSG00000169504	ENST00000488683	nonsense_mediated_decay	KNOWN	CCDS256	13518	762	253	25071873	25170758	1	None	DKFZP566G223, CLIC4L, P64H1, H1, huH1, p64H1
1	CLIC4	ENSG00000169504	ENST00000489758	processed_transcript	KNOWN	None	13518	None	None	25071900	25124454	1	None	DKFZP566G223, CLIC4L, P64H1, H1, huH1, p64H1
10	None	ENSG00000266061	ENST00000585165	miRNA	NOVEL	None	None	None	None	131286133	131286246	1	None	None
18	None	ENSG00000264265	ENST00000579492	lincRNA	KNOWN	None	None	None	None	508568	515294	-1	None	None
HSCHR6_MHC_MCF	MCCD1P1	ENSG00000232649	ENST00000422331	unprocessed_pseudogene	KNOWN	None	33449	None	None	29866801	29867663	-1	None	OTTHUMG00000130506
11	TRIM21	ENSG00000132109	ENST00000533692	protein_coding	NOVEL	None	11312	271	89	4406127	4407418	-1	SSA1	RNF81, RO52
11	TRIM21	ENSG00000132109	ENST00000254436	protein_coding	KNOWN	CCDS44525	11312	1428	475	4406132	4414926	-1	SSA1	RNF81, RO52
11	TRIM21	ENSG00000132109	ENST00000543625	protein_coding	KNOWN	None	11312	1428	475	4406158	4414926	-1	SSA1	RNF81, RO52
9	UGCG	ENSG00000148154	ENST00000374279	protein_coding	KNOWN	CCDS6782	12524	1185	394	114659046	114697649	1	None	GCS
9	UGCG	ENSG00000148154	ENST00000489355	processed_transcript	KNOWN	None	12524	None	None	114659457	114677273	1	None	GCS
9	UGCG	ENSG00000148154	ENST00000490110	processed_transcript	KNOWN	None	12524	None	None	114659481	114688706	1	None	GCS
9	UGCG	ENSG00000148154	ENST00000495085	processed_transcript	KNOWN	None	12524	None	None	114659481	114691946	1	None	GCS
9	UGCG	ENSG00000148154	ENST00000474306	processed_transcript	KNOWN	None	12524	None	None	114691529	114693588	1	None	GCS
16	ITFG3	ENSG00000167930	ENST00000399932	protein_coding	KNOWN	CCDS10402	14163	1659	552	284545	316124	1	C16orf9	DKFZP761D0211, FLJ32603
16	ITFG3	ENSG00000167930	ENST00000301679	protein_coding	PUTATIVE	None	14163	1623	540	284801	318970	1	C16orf9	DKFZP761D0211, FLJ32603
16	ITFG3	ENSG00000167930	ENST00000419173	protein_coding	KNOWN	None	14163	307	101	284817	309520	1	C16orf9	DKFZP761D0211, FLJ32603
16	ITFG3	ENSG00000167930	ENST00000426695	protein_coding	KNOWN	None	14163	152	49	284826	304564	1	C16orf9	DKFZP761D0211, FLJ32603
16	ITFG3	ENSG00000167930	ENST00000438220	protein_coding	NOVEL	None	14163	393	130	284828	310002	1	C16orf9	DKFZP761D0211, FLJ32603
16	ITFG3	ENSG00000167930	ENST00000447499	protein_coding	KNOWN	None	14163	261	86	284829	304673	1	C16orf9	DKFZP761D0211, FLJ32603
16	ITFG3	ENSG00000167930	ENST00000453430	protein_coding	KNOWN	None	14163	708	235	284833	311513	1	C16orf9	DKFZP761D0211, FLJ32603
16	ITFG3	ENSG00000167930	ENST00000449945	protein_coding	NOVEL	None	14163	728	241	284837	312138	1	C16orf9	DKFZP761D0211, FLJ32603
16	ITFG3	ENSG00000167930	ENST00000420046	protein_coding	KNOWN	None	14163	699	232	284843	311504	1	C16orf9	DKFZP761D0211, FLJ32603
16	ITFG3	ENSG00000167930	ENST00000301678	protein_coding	KNOWN	CCDS10402	14163	1659	552	284845	316119	1	C16orf9	DKFZP761D0211, FLJ32603
16	ITFG3	ENSG00000167930	ENST00000420500	protein_coding	NOVEL	None	14163	309	102	284846	310008	1	C16orf9	DKFZP761D0211, FLJ32603
16	ITFG3	ENSG00000167930	ENST00000417499	protein_coding	KNOWN	None	14163	206	67	290187	304618	1	C16orf9	DKFZP761D0211, FLJ32603
16	ITFG3	ENSG00000167930	ENST00000496874	retained_intron	KNOWN	None	14163	None	None	304121	309519	1	C16orf9	DKFZP761D0211, FLJ32603
16	ITFG3	ENSG00000167930	ENST00000421000	protein_coding	PUTATIVE	None	14163	704	233	304627	310787	1	C16orf9	DKFZP761D0211, FLJ32603
16	ITFG3	ENSG00000167930	ENST00000468354	retained_intron	KNOWN	None	14163	None	None	311204	312243	1	C16orf9	DKFZP761D0211, FLJ32603
16	ITFG3	ENSG00000167930	ENST00000424016	protein_coding	NOVEL	None	14163	578	191	312507	315089	1	C16orf9	DKFZP761D0211, FLJ32603
16	ITFG3	ENSG00000167930	ENST00000442458	protein_coding	KNOWN	None	14163	1596	531	284834	319942	1	C16orf9	DKFZP761D0211, FLJ32603
16	ITFG3	ENSG00000167930	ENST00000450082	protein_coding	KNOWN	None	14163	1623	540	284845	318852	1	C16orf9	DKFZP761D0211, FLJ32603
18	RN7SKP146	ENSG00000222174	ENST00000410242	misc_RNA	KNOWN	None	45870	None	None	586517	586850	-1	None	None
HSCHR6_MHC_MCF	HCG4P5	ENSG00000228921	ENST00000445820	unprocessed_pseudogene	KNOWN	None	22925	None	None	29988824	29989335	-1	None	HCGIV-05, HCGIV.4, HCGIV-5
10	None	ENSG00000237224	ENST00000593883	antisense	KNOWN	None	None	None	None	131498729	131499526	-1	None	None
10	None	ENSG00000237224	ENST00000597245	antisense	KNOWN	None	None	None	None	131498733	131499526	-1	None	None
10	None	ENSG00000237224	ENST00000597465	antisense	KNOWN	None	None	None	None	131498735	131499526	-1	None	None
10	None	ENSG00000237224	ENST00000428178	antisense	KNOWN	None	None	None	None	131498980	131499526	-1	None	None
10	None	ENSG00000237224	ENST00000598332	antisense	KNOWN	None	None	None	None	131499151	131499821	-1	None	None
18	None	ENSG00000239158	ENST00000459288	miRNA	NOVEL	None	None	None	None	603166	603258	-1	None	None
6	None	ENSG00000216687	ENST00000404226	processed_pseudogene	KNOWN	None	None	None	None	58397998	58399412	-1	None	None
HSCHR6_MHC_APD	HLA-DOB	ENSG00000243612	ENST00000463161	nonsense_mediated_decay	KNOWN	None	4937	117	38	32764306	32768519	-1	None	None
HSCHR6_MHC_APD	HLA-DOB	ENSG00000243612	ENST00000426644	protein_coding	KNOWN	None	4937	822	273	32764306	32768591	-1	None	None
HSCHR6_MHC_APD	HLA-DOB	ENSG00000243612	ENST00000483576	retained_intron	KNOWN	None	4937	None	None	32764590	32768531	-1	None	None
HSCHR6_MHC_APD	HLA-DOB	ENSG00000243612	ENST00000453971	protein_coding	KNOWN	None	4937	543	180	32765913	32768453	-1	None	None
HSCHR6_MHC_MCF	HLA-W	ENSG00000236746	ENST00000446351	unprocessed_pseudogene	KNOWN	None	23425	None	None	30002851	30004812	1	HLA-80	None
18	None	ENSG00000266456	ENST00000585150	antisense	KNOWN	None	None	None	None	650229	652843	1	None	None
18	None	ENSG00000263727	ENST00000584679	sense_intronic	KNOWN	None	None	None	None	653985	657259	-1	None	None
6	RBBP4P4	ENSG00000214561	ENST00000398588	processed_pseudogene	KNOWN	None	42371	None	None	58446019	58447307	-1	None	None
HSCHR6_MHC_MCF	MICD	ENSG00000235600	ENST00000435746	unprocessed_pseudogene	KNOWN	None	7093	None	None	30017032	30018695	-1	None	PERB11.4
18	None	ENSG00000265490	ENST00000580007	antisense	KNOWN	None	None	None	None	706523	707648	1	None	None
19	SIGLEC18P	ENSG00000268581	ENST00000602271	unprocessed_pseudogene	KNOWN	None	15491	None	None	51623244	51626222	1	SIGLECP1	None
18	None	ENSG00000266171	ENST00000583314	antisense	KNOWN	None	None	None	None	735746	737459	1	None	None
5	OXCT1	ENSG00000083720	ENST00000196371	protein_coding	KNOWN	CCDS3937	8527	1563	520	41730167	41870621	-1	OXCT	SCOT
5	OXCT1	ENSG00000083720	ENST00000512084	protein_coding	PUTATIVE	None	8527	372	123	41730843	41794482	-1	OXCT	SCOT
5	OXCT1	ENSG00000083720	ENST00000510634	protein_coding	PUTATIVE	None	8527	372	123	41730943	41794685	-1	OXCT	SCOT
5	OXCT1	ENSG00000083720	ENST00000509987	protein_coding	PUTATIVE	None	8527	1005	334	41731472	41843759	-1	OXCT	SCOT
5	OXCT1	ENSG00000083720	ENST00000508557	retained_intron	KNOWN	None	8527	None	None	41731683	41794237	-1	OXCT	SCOT
5	OXCT1	ENSG00000083720	ENST00000503374	retained_intron	KNOWN	None	8527	None	None	41731841	41739823	-1	OXCT	SCOT
5	OXCT1	ENSG00000083720	ENST00000513081	processed_transcript	KNOWN	None	8527	None	None	41749629	41794745	-1	OXCT	SCOT
5	OXCT1	ENSG00000083720	ENST00000514723	processed_transcript	KNOWN	None	8527	None	None	41749703	41842859	-1	OXCT	SCOT
18	None	ENSG00000264635	ENST00000581712	sense_intronic	KNOWN	None	None	None	None	738058	739662	-1	None	None
3	TRH	ENSG00000170893	ENST00000302649	protein_coding	KNOWN	CCDS3066	12298	729	242	129693148	129696781	1	None	None
3	TRH	ENSG00000170893	ENST00000507066	protein_coding	NOVEL	None	12298	717	238	129693531	129696778	1	None	None
HSCHR6_MHC_MCF	HCG9	ENSG00000234599	ENST00000416207	processed_transcript	KNOWN	None	21243	None	None	30021353	30024652	1	None	PERB11, HCGIX, HCGIX4, HCGIX-4
16	None	ENSG00000260932	ENST00000562835	antisense	KNOWN	None	None	None	None	83963401	83964715	-1	None	None
16	None	ENSG00000260932	ENST00000566773	antisense	KNOWN	None	None	None	None	83964284	83964828	-1	None	None
18	None	ENSG00000264339	ENST00000579595	antisense	KNOWN	None	None	None	None	738058	739444	1	None	None
X	None	ENSG00000229822	ENST00000451332	processed_pseudogene	KNOWN	None	None	None	None	41607475	41607861	1	None	None
9	RAPGEF1	ENSG00000107263	ENST00000372189	protein_coding	KNOWN	CCDS48047	4568	3234	1077	134452157	134612925	-1	GRF2	C3G
9	RAPGEF1	ENSG00000107263	ENST00000372195	protein_coding	PUTATIVE	None	4568	3285	1094	134452157	134615461	-1	GRF2	C3G
9	RAPGEF1	ENSG00000107263	ENST00000414781	protein_coding	PUTATIVE	None	4568	957	318	134463123	134497225	-1	GRF2	C3G
9	RAPGEF1	ENSG00000107263	ENST00000419442	protein_coding	KNOWN	None	4568	683	226	134477501	134501335	-1	GRF2	C3G
9	RAPGEF1	ENSG00000107263	ENST00000481260	processed_transcript	KNOWN	None	4568	None	None	134501547	134518778	-1	GRF2	C3G
9	RAPGEF1	ENSG00000107263	ENST00000438647	protein_coding	KNOWN	None	4568	474	157	134514085	134615331	-1	GRF2	C3G
9	RAPGEF1	ENSG00000107263	ENST00000427994	protein_coding	KNOWN	None	4568	580	192	134514096	134585229	-1	GRF2	C3G
9	RAPGEF1	ENSG00000107263	ENST00000372190	protein_coding	KNOWN	CCDS48048	4568	3288	1095	134452158	134585229	-1	GRF2	C3G
18	RNU1-109P	ENSG00000206687	ENST00000383960	snRNA	KNOWN	None	48451	None	None	797990	798136	-1	None	None
5	RNF44	ENSG00000146083	ENST00000274811	protein_coding	KNOWN	CCDS4404	19180	1299	432	175953698	175964421	-1	None	KIAA1100
5	RNF44	ENSG00000146083	ENST00000506378	protein_coding	PUTATIVE	None	19180	679	225	175955940	175957646	-1	None	KIAA1100
5	RNF44	ENSG00000146083	ENST00000513029	nonsense_mediated_decay	KNOWN	None	19180	141	46	175955959	175965026	-1	None	KIAA1100
5	RNF44	ENSG00000146083	ENST00000515051	retained_intron	KNOWN	None	19180	None	None	175956079	175956809	-1	None	KIAA1100
5	RNF44	ENSG00000146083	ENST00000508478	retained_intron	KNOWN	None	19180	None	None	175956489	175957611	-1	None	KIAA1100
5	RNF44	ENSG00000146083	ENST00000504160	nonsense_mediated_decay	KNOWN	None	19180	138	45	175957938	175964297	-1	None	KIAA1100
5	RNF44	ENSG00000146083	ENST00000504434	retained_intron	KNOWN	None	19180	None	None	175958883	175964881	-1	None	KIAA1100
5	RNF44	ENSG00000146083	ENST00000509404	processed_transcript	KNOWN	None	19180	None	None	175959481	175963331	-1	None	KIAA1100
5	RNF44	ENSG00000146083	ENST00000537487	protein_coding	KNOWN	None	19180	1056	351	175955959	175965026	-1	None	KIAA1100
6	None	ENSG00000223633	ENST00000457561	lincRNA	KNOWN	None	None	None	None	58488888	58513860	1	None	None
18	None	ENSG00000266575	ENST00000584794	processed_pseudogene	KNOWN	None	None	None	None	832239	832470	1	None	None
19	NRTN	ENSG00000171119	ENST00000303212	protein_coding	KNOWN	CCDS12151	8007	594	197	5823813	5828335	1	None	NTN
HSCHR6_MHC_MCF	DDX39BP2	ENSG00000227389	ENST00000425367	unprocessed_pseudogene	KNOWN	None	33461	None	None	30039453	30039849	1	BAT1P2	BPG309N1.15
19	None	ENSG00000267990	ENST00000601996	unprocessed_pseudogene	KNOWN	None	None	None	None	51641227	51641891	1	None	None
6	None	ENSG00000220030	ENST00000405826	processed_pseudogene	KNOWN	None	None	None	None	61996403	61996816	-1	None	None
11	None	ENSG00000261257	ENST00000567082	lincRNA	KNOWN	None	None	None	None	125970400	125972308	-1	None	None
HSCHR6_MHC_MCF	MCCD1P2	ENSG00000236113	ENST00000415135	unprocessed_pseudogene	KNOWN	None	33462	None	None	30040681	30041558	-1	None	BPG309N1.16
6	None	ENSG00000221606	ENST00000408679	miRNA	NOVEL	None	None	None	None	62056770	62056882	1	None	None
X	None	ENSG00000237875	ENST00000443795	processed_pseudogene	KNOWN	None	None	None	None	41649445	41649503	-1	None	None
5	PCDHA1	ENSG00000204970	ENST00000504120	protein_coding	KNOWN	CCDS54913	8663	2853	950	140165876	140391929	1	None	None
5	PCDHA1	ENSG00000204970	ENST00000394633	protein_coding	KNOWN	CCDS54912	8663	2061	686	140165876	140391929	1	None	None
5	PCDHA1	ENSG00000204970	ENST00000378133	protein_coding	KNOWN	None	8663	2424	807	140165876	140168446	1	None	None
19	None	ENSG00000267895	ENST00000600623	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	51647083	51647453	1	None	None
X	RNU6-202P	ENSG00000251807	ENST00000515998	snRNA	KNOWN	None	47165	None	None	41778507	41778602	-1	None	None
X	None	ENSG00000233103	ENST00000437466	lincRNA	KNOWN	None	None	None	None	41907136	41914089	-1	None	None
19	TPRX1	ENSG00000178928	ENST00000322175	protein_coding	KNOWN	CCDS33066	32174	1236	411	48304500	48306946	-1	None	FLJ40321
19	TPRX1	ENSG00000178928	ENST00000535759	protein_coding	KNOWN	None	32174	1527	508	48304500	48322308	-1	None	FLJ40321
19	TPRX1	ENSG00000178928	ENST00000543508	protein_coding	KNOWN	None	32174	1206	401	48304737	48306815	-1	None	FLJ40321
X	ATP5G2P4	ENSG00000228847	ENST00000442175	processed_pseudogene	KNOWN	None	42188	None	None	41958007	41958426	-1	None	None
19	None	ENSG00000269072	ENST00000600074	antisense	KNOWN	None	None	None	None	51656180	51685222	-1	None	None
11	CARS	ENSG00000110619	ENST00000380525	protein_coding	KNOWN	CCDS41600	1493	2496	831	3022152	3078667	-1	None	CARS1
11	CARS	ENSG00000110619	ENST00000531387	nonsense_mediated_decay	KNOWN	None	1493	387	128	3022152	3078667	-1	None	CARS1
11	CARS	ENSG00000110619	ENST00000397111	protein_coding	KNOWN	CCDS7742	1493	2247	748	3022152	3078843	-1	None	CARS1
11	CARS	ENSG00000110619	ENST00000484484	retained_intron	KNOWN	None	1493	None	None	3022159	3028240	-1	None	CARS1
11	CARS	ENSG00000110619	ENST00000278224	protein_coding	KNOWN	CCDS41602	1493	2181	726	3022159	3078648	-1	None	CARS1
11	CARS	ENSG00000110619	ENST00000466442	retained_intron	KNOWN	None	1493	None	None	3022160	3030127	-1	None	CARS1
11	CARS	ENSG00000110619	ENST00000470221	processed_transcript	KNOWN	None	1493	None	None	3022160	3030763	-1	None	CARS1
11	CARS	ENSG00000110619	ENST00000526890	retained_intron	KNOWN	None	1493	None	None	3022160	3078610	-1	None	CARS1
11	CARS	ENSG00000110619	ENST00000529772	nonsense_mediated_decay	KNOWN	None	1493	252	83	3022160	3078632	-1	None	CARS1
11	CARS	ENSG00000110619	ENST00000465240	processed_transcript	KNOWN	None	1493	None	None	3040420	3050287	-1	None	CARS1
11	CARS	ENSG00000110619	ENST00000439280	nonsense_mediated_decay	KNOWN	None	1493	138	45	3050314	3078659	-1	None	CARS1
11	CARS	ENSG00000110619	ENST00000465207	retained_intron	KNOWN	None	1493	None	None	3059361	3061318	-1	None	CARS1
11	CARS	ENSG00000110619	ENST00000524825	processed_transcript	KNOWN	None	1493	None	None	3060424	3078671	-1	None	CARS1
11	CARS	ENSG00000110619	ENST00000527330	nonsense_mediated_decay	KNOWN	None	1493	231	76	3060445	3078646	-1	None	CARS1
11	CARS	ENSG00000110619	ENST00000465331	processed_transcript	KNOWN	None	1493	None	None	3061754	3078667	-1	None	CARS1
11	CARS	ENSG00000110619	ENST00000397114	protein_coding	KNOWN	None	1493	2217	738	3022160	3078648	-1	None	CARS1
11	CARS	ENSG00000110619	ENST00000401769	protein_coding	KNOWN	None	1493	2220	739	3022160	3078632	-1	None	CARS1
10	AHCYP1	ENSG00000215044	ENST00000399501	processed_pseudogene	KNOWN	None	44993	None	None	47594379	47595651	1	None	None
6	MCCD1P1	ENSG00000235963	ENST00000445732	unprocessed_pseudogene	KNOWN	None	33449	None	None	29875560	29876422	-1	None	OTTHUMG00000130506
12	None	ENSG00000222160	ENST00000410228	misc_RNA	NOVEL	None	None	None	None	108044566	108044669	1	None	None
6	HCG4B	ENSG00000227262	ENST00000450128	unprocessed_pseudogene	KNOWN	None	22919	None	None	29893760	29894750	-1	HCG4P6	HCGIV-6, HCGIV.5, HCGIV-06, bCX67J3.3, Em:AB023056.16, bPG309N1.1, bQB90C11.3
X	RNU6-630P	ENSG00000212560	ENST00000391258	snRNA	KNOWN	None	47593	None	None	41998678	41998783	-1	None	None
19	None	ENSG00000269681	ENST00000594454	processed_pseudogene	KNOWN	None	None	None	None	51658545	51658881	-1	None	None
HSCHR6_MHC_QBL	LY6G6F	ENSG00000243804	ENST00000383420	protein_coding	KNOWN	None	13933	894	297	31664901	31668612	1	LY6G6D, C6orf21	G6f, NG32
HSCHR6_MHC_MCF	None	ENSG00000232691	ENST00000412430	processed_transcript	KNOWN	None	None	None	None	30047255	30107209	-1	None	None
HSCHR6_MHC_MCF	None	ENSG00000232691	ENST00000451129	processed_transcript	KNOWN	None	None	None	None	30047255	30107424	-1	None	None
HSCHR6_MHC_MCF	None	ENSG00000232691	ENST00000425397	processed_transcript	KNOWN	None	None	None	None	30047255	30107425	-1	None	None
HSCHR6_MHC_MCF	None	ENSG00000232691	ENST00000424661	processed_transcript	KNOWN	None	None	None	None	30047255	30107465	-1	None	None
HSCHR6_MHC_MCF	None	ENSG00000232691	ENST00000455169	processed_transcript	KNOWN	None	None	None	None	30058343	30081277	-1	None	None
HSCHR6_MHC_MCF	None	ENSG00000232691	ENST00000427705	processed_transcript	KNOWN	None	None	None	None	30066032	30107921	-1	None	None
HSCHR6_MHC_MCF	None	ENSG00000232691	ENST00000447603	processed_transcript	KNOWN	None	None	None	None	30081197	30105028	-1	None	None
HSCHR6_MHC_MCF	None	ENSG00000232691	ENST00000413799	processed_transcript	KNOWN	None	None	None	None	30081692	30107470	-1	None	None
HSCHR6_MHC_MCF	None	ENSG00000232691	ENST00000436009	processed_transcript	KNOWN	None	None	None	None	30100882	30107460	-1	None	None
HSCHR6_MHC_MCF	None	ENSG00000232691	ENST00000457821	processed_transcript	KNOWN	None	None	None	None	30103034	30107260	-1	None	None
17	C17orf96	ENSG00000179294	ENST00000325814	protein_coding	KNOWN	CCDS45661	34493	1140	379	36827961	36831187	-1	None	LOC100170841
X	None	ENSG00000228780	ENST00000411782	processed_pseudogene	KNOWN	None	None	None	None	42009764	42009997	-1	None	None
6	HLA-K	ENSG00000230795	ENST00000430151	unprocessed_pseudogene	KNOWN	None	4969	None	None	29894236	29897009	1	HLAK, HLA70	HLA-70
22	TEX33	ENSG00000185264	ENST00000442538	protein_coding	PUTATIVE	None	28568	418	138	37387163	37398297	-1	C22orf33	MGC35206, EAN57
22	TEX33	ENSG00000185264	ENST00000402860	protein_coding	KNOWN	CCDS13937	28568	588	195	37387166	37403839	-1	C22orf33	MGC35206, EAN57
22	TEX33	ENSG00000185264	ENST00000405091	protein_coding	KNOWN	CCDS54524	28568	843	280	37387166	37403882	-1	C22orf33	MGC35206, EAN57
22	TEX33	ENSG00000185264	ENST00000381821	protein_coding	KNOWN	CCDS54524	28568	843	280	37387197	37403843	-1	C22orf33	MGC35206, EAN57
12	None	ENSG00000240441	ENST00000488371	processed_pseudogene	KNOWN	None	None	None	None	108113376	108113910	1	None	None
6	C2	ENSG00000166278	ENST00000469372	protein_coding	PUTATIVE	None	1248	1521	506	31865562	31913298	1	None	None
6	C2	ENSG00000166278	ENST00000497706	protein_coding	PUTATIVE	None	1248	1390	462	31865564	31912630	1	None	None
6	C2	ENSG00000166278	ENST00000452323	protein_coding	PUTATIVE	CCDS56416	1248	1617	538	31868776	31913448	1	None	None
6	C2	ENSG00000166278	ENST00000452202	protein_coding	PUTATIVE	None	1248	476	157	31868781	31902072	1	None	None
6	C2	ENSG00000166278	ENST00000411571	nonsense_mediated_decay	KNOWN	None	1248	255	84	31887718	31905236	1	None	None
6	C2	ENSG00000166278	ENST00000413154	protein_coding	KNOWN	None	1248	419	138	31887761	31896671	1	None	None
6	C2	ENSG00000166278	ENST00000484636	nonsense_mediated_decay	KNOWN	None	1248	255	84	31887873	31903767	1	None	None
6	C2	ENSG00000166278	ENST00000299367	protein_coding	KNOWN	CCDS4728	1248	2259	752	31895254	31913449	1	None	None
6	C2	ENSG00000166278	ENST00000442278	protein_coding	NOVEL	CCDS54991	1248	1863	620	31895273	31913448	1	None	None
6	C2	ENSG00000166278	ENST00000447952	protein_coding	NOVEL	None	1248	609	202	31895302	31902022	1	None	None
6	C2	ENSG00000166278	ENST00000418949	protein_coding	PUTATIVE	None	1248	987	328	31895480	31902835	1	None	None
6	C2	ENSG00000166278	ENST00000482060	nonsense_mediated_decay	KNOWN	None	1248	315	104	31895516	31913168	1	None	None
6	C2	ENSG00000166278	ENST00000383177	protein_coding	NOVEL	None	1248	1580	525	31895540	31913401	1	None	None
6	C2	ENSG00000166278	ENST00000494905	protein_coding	PUTATIVE	None	1248	409	135	31900125	31902059	1	None	None
6	C2	ENSG00000166278	ENST00000485690	nonsense_mediated_decay	KNOWN	None	1248	482	159	31902060	31911535	1	None	None
6	C2	ENSG00000166278	ENST00000486124	retained_intron	KNOWN	None	1248	None	None	31903832	31913449	1	None	None
6	C2	ENSG00000166278	ENST00000468407	processed_transcript	KNOWN	None	1248	None	None	31911450	31913449	1	None	None
6	HLA-U	ENSG00000228078	ENST00000418981	unprocessed_pseudogene	KNOWN	None	23477	None	None	29901878	29902063	1	HLA-21	Em:AB023056.13
6	HCG4P5	ENSG00000227766	ENST00000429656	unprocessed_pseudogene	KNOWN	None	22925	None	None	29909852	29910844	-1	None	HCGIV-05, HCGIV.4, HCGIV-5
17	None	ENSG00000228157	ENST00000399091	protein_coding	NOVEL	None	None	456	151	18996287	18997620	1	None	None
17	None	ENSG00000228157	ENST00000399093	protein_coding	NOVEL	None	None	345	114	18996524	18999674	1	None	None
17	None	ENSG00000228157	ENST00000574724	retained_intron	KNOWN	None	None	None	None	18998230	19000150	1	None	None
17	None	ENSG00000228157	ENST00000443876	protein_coding	KNOWN	None	None	393	130	18996287	18999511	1	None	None
17	None	ENSG00000228157	ENST00000428928	protein_coding	KNOWN	None	None	504	167	18996287	18997619	1	None	None
6	HLA-W	ENSG00000235290	ENST00000439514	unprocessed_pseudogene	KNOWN	None	23425	None	None	29924373	29926347	1	HLA-80	None
11	None	ENSG00000254833	ENST00000532357	lincRNA	KNOWN	None	None	None	None	126030609	126045930	1	None	None
10	None	ENSG00000259994	ENST00000561542	sense_overlapping	KNOWN	None	None	None	None	30591755	30594995	-1	None	None
6	MICD	ENSG00000229390	ENST00000413248	unprocessed_pseudogene	KNOWN	None	7093	None	None	29938578	29940241	-1	None	PERB11.4
12	SLC38A2	ENSG00000134294	ENST00000256689	protein_coding	KNOWN	CCDS8749	13448	1521	506	46751972	46766650	-1	None	SAT2, ATA2, KIAA1382, SNAT2
12	SLC38A2	ENSG00000134294	ENST00000549258	nonsense_mediated_decay	KNOWN	None	13448	267	88	46752264	46766554	-1	None	SAT2, ATA2, KIAA1382, SNAT2
12	SLC38A2	ENSG00000134294	ENST00000551374	protein_coding	NOVEL	None	13448	1035	344	46753168	46759090	-1	None	SAT2, ATA2, KIAA1382, SNAT2
12	SLC38A2	ENSG00000134294	ENST00000552703	retained_intron	KNOWN	None	13448	None	None	46754743	46756344	-1	None	SAT2, ATA2, KIAA1382, SNAT2
12	SLC38A2	ENSG00000134294	ENST00000546520	retained_intron	KNOWN	None	13448	None	None	46754901	46756687	-1	None	SAT2, ATA2, KIAA1382, SNAT2
12	SLC38A2	ENSG00000134294	ENST00000548785	retained_intron	KNOWN	None	13448	None	None	46755636	46756325	-1	None	SAT2, ATA2, KIAA1382, SNAT2
12	SLC38A2	ENSG00000134294	ENST00000548111	processed_transcript	KNOWN	None	13448	None	None	46756073	46758336	-1	None	SAT2, ATA2, KIAA1382, SNAT2
12	SLC38A2	ENSG00000134294	ENST00000548236	retained_intron	KNOWN	None	13448	None	None	46756108	46758615	-1	None	SAT2, ATA2, KIAA1382, SNAT2
12	SLC38A2	ENSG00000134294	ENST00000552414	retained_intron	KNOWN	None	13448	None	None	46756898	46758525	-1	None	SAT2, ATA2, KIAA1382, SNAT2
12	SLC38A2	ENSG00000134294	ENST00000548870	processed_transcript	KNOWN	None	13448	None	None	46758225	46761193	-1	None	SAT2, ATA2, KIAA1382, SNAT2
12	SLC38A2	ENSG00000134294	ENST00000547252	processed_transcript	KNOWN	None	13448	None	None	46758425	46765216	-1	None	SAT2, ATA2, KIAA1382, SNAT2
12	SLC38A2	ENSG00000134294	ENST00000551405	processed_transcript	KNOWN	None	13448	None	None	46764295	46766229	-1	None	SAT2, ATA2, KIAA1382, SNAT2
12	SLC38A2	ENSG00000134294	ENST00000553252	retained_intron	KNOWN	None	13448	None	None	46764582	46766556	-1	None	SAT2, ATA2, KIAA1382, SNAT2
19	SIGLEC17P	ENSG00000171101	ENST00000598286	processed_transcript	KNOWN	None	15604	None	None	51670585	51676780	1	SIGLECP3	None
19	SIGLEC17P	ENSG00000171101	ENST00000597135	processed_transcript	KNOWN	None	15604	None	None	51670587	51676756	1	SIGLECP3	None
19	SIGLEC17P	ENSG00000171101	ENST00000593736	transcribed_unprocessed_pseudogene	KNOWN	None	15604	None	None	51670595	51671140	1	SIGLECP3	None
19	SIGLEC17P	ENSG00000171101	ENST00000594781	retained_intron	KNOWN	None	15604	None	None	51670654	51676778	1	SIGLECP3	None
19	SIGLEC17P	ENSG00000171101	ENST00000341811	processed_transcript	KNOWN	None	15604	None	None	51670655	51676685	1	SIGLECP3	None
19	SIGLEC17P	ENSG00000171101	ENST00000305812	unprocessed_pseudogene	KNOWN	None	15604	None	None	51670654	51676685	1	SIGLECP3	None
16	RNA5SP432	ENSG00000199350	ENST00000362480	rRNA	KNOWN	None	43332	None	None	84073523	84073638	-1	RN5S432	None
16	None	ENSG00000260018	ENST00000565382	antisense	KNOWN	None	None	None	None	84150656	84151176	1	None	None
6	HCG9	ENSG00000204625	ENST00000376800	lincRNA	KNOWN	None	21243	None	None	29942889	29946183	1	None	PERB11, HCGIX, HCGIX4, HCGIX-4
6	HCG9	ENSG00000204625	ENST00000463275	lincRNA	KNOWN	None	21243	None	None	29945244	29945494	1	None	PERB11, HCGIX, HCGIX4, HCGIX-4
16	None	ENSG00000260410	ENST00000563242	processed_pseudogene	KNOWN	None	None	None	None	84152898	84154758	1	None	None
20	None	ENSG00000270299	ENST00000488788	protein_coding	PUTATIVE	None	None	285	94	627270	656444	-1	None	None
HSCHR6_MHC_QBL	LY6G6E	ENSG00000206401	ENST00000495959	processed_transcript	KNOWN	None	13934	None	None	31670355	31671831	-1	C6orf22	G6e
HSCHR6_MHC_QBL	LY6G6E	ENSG00000206401	ENST00000443544	protein_coding	KNOWN	None	13934	201	66	31670360	31671831	-1	C6orf22	G6e
HSCHR6_MHC_QBL	LY6G6E	ENSG00000206401	ENST00000383417	protein_coding	KNOWN	None	13934	303	100	31670360	31671831	-1	C6orf22	G6e
HSCHR6_MHC_QBL	LY6G6E	ENSG00000206401	ENST00000548716	protein_coding	KNOWN	None	13934	378	125	31670355	31671831	-1	C6orf22	G6e
7	STEAP1B	ENSG00000105889	ENST00000406890	protein_coding	KNOWN	CCDS55094	41907	738	245	22459063	22539796	-1	None	None
7	STEAP1B	ENSG00000105889	ENST00000404369	protein_coding	PUTATIVE	CCDS56469	41907	1029	342	22478038	22540117	-1	None	None
7	STEAP1B	ENSG00000105889	ENST00000483679	retained_intron	KNOWN	None	41907	None	None	22532011	22539820	-1	None	None
7	STEAP1B	ENSG00000105889	ENST00000424363	protein_coding	PUTATIVE	None	41907	762	253	22532184	22539824	-1	None	None
7	STEAP1B	ENSG00000105889	ENST00000439708	protein_coding	PUTATIVE	None	41907	650	215	22532296	22672544	-1	None	None
HSCHR6_MHC_MCF	TRIM40	ENSG00000236399	ENST00000425845	protein_coding	KNOWN	None	18736	777	258	30182385	30195005	1	None	RNF35
HSCHR6_MHC_MCF	TRIM40	ENSG00000236399	ENST00000488232	processed_transcript	KNOWN	None	18736	None	None	30182401	30183475	1	None	RNF35
HSCHR6_MHC_MCF	TRIM40	ENSG00000236399	ENST00000418267	protein_coding	KNOWN	None	18736	690	229	30183287	30195005	1	None	RNF35
10	DNM1P17	ENSG00000250833	ENST00000512082	unprocessed_pseudogene	KNOWN	None	21134	None	None	30642635	30646294	1	DNM1DN17	DNM1DN17@
6	DDX39BP2	ENSG00000238024	ENST00000453923	unprocessed_pseudogene	KNOWN	None	33461	None	None	29960986	29961382	1	BAT1P2	BPG309N1.15
12	None	ENSG00000258136	ENST00000546829	processed_transcript	KNOWN	None	None	None	None	108130332	108132225	1	None	None
12	None	ENSG00000258136	ENST00000546714	processed_transcript	KNOWN	None	None	None	None	108130366	108153745	1	None	None
12	XRCC6BP1	ENSG00000166896	ENST00000551997	processed_transcript	KNOWN	None	29452	None	None	58335324	58345667	1	None	KUB3
12	XRCC6BP1	ENSG00000166896	ENST00000300145	protein_coding	KNOWN	CCDS41802	29452	741	246	58335360	58351052	1	None	KUB3
12	XRCC6BP1	ENSG00000166896	ENST00000549257	nonsense_mediated_decay	KNOWN	None	29452	113	36	58335579	58350673	1	None	KUB3
12	XRCC6BP1	ENSG00000166896	ENST00000546709	processed_transcript	KNOWN	None	29452	None	None	58343524	58350723	1	None	KUB3
6	MCCD1P2	ENSG00000224312	ENST00000423228	unprocessed_pseudogene	KNOWN	None	33462	None	None	29962214	29963091	-1	None	BPG309N1.16
9	IGKV1OR-2	ENSG00000156755	ENST00000457995	IG_V_pseudogene	KNOWN	None	5761	None	None	69777472	69777953	-1	IGKVPZ2	IGKV1/OR-2
9	IGKV1OR-2	ENSG00000156755	ENST00000377423	IG_V_pseudogene	KNOWN	None	5761	None	None	69777099	69777764	-1	IGKVPZ2	IGKV1/OR-2
17	MLLT6	ENSG00000108292	ENST00000378137	protein_coding	PUTATIVE	None	7138	978	325	36861795	36871009	1	None	AF17, FLJ23480
17	MLLT6	ENSG00000108292	ENST00000325718	protein_coding	KNOWN	CCDS11327	7138	3282	1093	36861795	36886056	1	None	AF17, FLJ23480
17	MLLT6	ENSG00000108292	ENST00000578946	retained_intron	KNOWN	None	7138	None	None	36861873	36872588	1	None	AF17, FLJ23480
17	MLLT6	ENSG00000108292	ENST00000579179	processed_transcript	PUTATIVE	None	7138	None	None	36862892	36864052	1	None	AF17, FLJ23480
17	MLLT6	ENSG00000108292	ENST00000464666	retained_intron	KNOWN	None	7138	None	None	36863204	36864538	1	None	AF17, FLJ23480
17	MLLT6	ENSG00000108292	ENST00000466997	retained_intron	KNOWN	None	7138	None	None	36865333	36871930	1	None	AF17, FLJ23480
17	MLLT6	ENSG00000108292	ENST00000471200	protein_coding	PUTATIVE	None	7138	907	301	36873677	36877409	1	None	AF17, FLJ23480
17	MLLT6	ENSG00000108292	ENST00000433891	retained_intron	KNOWN	None	7138	None	None	36873763	36874520	1	None	AF17, FLJ23480
17	MLLT6	ENSG00000108292	ENST00000494578	retained_intron	KNOWN	None	7138	None	None	36874836	36883445	1	None	AF17, FLJ23480
17	MLLT6	ENSG00000108292	ENST00000484263	retained_intron	KNOWN	None	7138	None	None	36880509	36883445	1	None	AF17, FLJ23480
17	MLLT6	ENSG00000108292	ENST00000582830	processed_transcript	PUTATIVE	None	7138	None	None	36882010	36883424	1	None	AF17, FLJ23480
9	None	ENSG00000239028	ENST00000458761	miRNA	NOVEL	None	None	None	None	69821760	69821841	-1	None	None
19	None	ENSG00000267980	ENST00000594444	antisense	KNOWN	None	None	None	None	4363786	4364637	1	None	None
9	None	ENSG00000271225	ENST00000604946	processed_pseudogene	KNOWN	None	None	None	None	69823283	69823847	-1	None	None
2	CAMKMT	ENSG00000143919	ENST00000402247	protein_coding	PUTATIVE	None	26276	420	139	44589089	44776924	1	C2orf34	CLNMT
2	CAMKMT	ENSG00000143919	ENST00000407131	protein_coding	PUTATIVE	None	26276	411	136	44589095	44858853	1	C2orf34	CLNMT
2	CAMKMT	ENSG00000143919	ENST00000403853	protein_coding	PUTATIVE	None	26276	399	132	44589103	44684400	1	C2orf34	CLNMT
2	CAMKMT	ENSG00000143919	ENST00000378494	protein_coding	KNOWN	CCDS1820	26276	972	323	44589103	44999731	1	C2orf34	CLNMT
2	CAMKMT	ENSG00000143919	ENST00000454433	nonsense_mediated_decay	KNOWN	None	26276	281	92	44589244	44628284	1	C2orf34	CLNMT
2	CAMKMT	ENSG00000143919	ENST00000477623	processed_transcript	KNOWN	None	26276	None	None	44596850	44619139	1	C2orf34	CLNMT
2	CAMKMT	ENSG00000143919	ENST00000428929	protein_coding	PUTATIVE	None	26276	214	70	44599881	44619212	1	C2orf34	CLNMT
2	CAMKMT	ENSG00000143919	ENST00000428993	nonsense_mediated_decay	KNOWN	None	26276	250	82	44599887	44777929	1	C2orf34	CLNMT
2	CAMKMT	ENSG00000143919	ENST00000477830	processed_transcript	KNOWN	None	26276	None	None	44903733	44970796	1	C2orf34	CLNMT
19	None	ENSG00000267255	ENST00000590159	antisense	KNOWN	None	None	None	None	4429686	4430931	-1	None	None
14	ADSSL1	ENSG00000185100	ENST00000330877	protein_coding	KNOWN	CCDS9990	20093	1374	457	105190523	105213647	1	None	FLJ38602
14	ADSSL1	ENSG00000185100	ENST00000555486	nonsense_mediated_decay	KNOWN	None	20093	546	181	105196071	105208338	1	None	FLJ38602
14	ADSSL1	ENSG00000185100	ENST00000332972	protein_coding	KNOWN	CCDS9991	20093	1503	500	105196071	105213647	1	None	FLJ38602
14	ADSSL1	ENSG00000185100	ENST00000553540	nonsense_mediated_decay	KNOWN	None	20093	681	226	105196230	105213645	1	None	FLJ38602
14	ADSSL1	ENSG00000185100	ENST00000557582	retained_intron	KNOWN	None	20093	None	None	105203480	105213645	1	None	FLJ38602
14	ADSSL1	ENSG00000185100	ENST00000554281	retained_intron	KNOWN	None	20093	None	None	105208257	105209887	1	None	FLJ38602
14	ADSSL1	ENSG00000185100	ENST00000553580	retained_intron	KNOWN	None	20093	None	None	105208280	105211300	1	None	FLJ38602
14	ADSSL1	ENSG00000185100	ENST00000555884	retained_intron	KNOWN	None	20093	None	None	105210681	105213662	1	None	FLJ38602
14	ADSSL1	ENSG00000185100	ENST00000557271	retained_intron	KNOWN	None	20093	None	None	105211056	105213645	1	None	FLJ38602
14	ADSSL1	ENSG00000185100	ENST00000554657	processed_transcript	KNOWN	None	20093	None	None	105211137	105213645	1	None	FLJ38602
14	ADSSL1	ENSG00000185100	ENST00000556623	protein_coding	PUTATIVE	None	20093	192	63	105212330	105213647	1	None	FLJ38602
14	ADSSL1	ENSG00000185100	ENST00000555674	protein_coding	PUTATIVE	None	20093	225	74	105212393	105213444	1	None	FLJ38602
19	MIR4746	ENSG00000266437	ENST00000579802	miRNA	KNOWN	None	41904	None	None	4445975	4446045	1	None	hsa-mir-4746
16	None	ENSG00000250685	ENST00000536986	antisense	KNOWN	None	None	None	None	84226164	84230659	-1	None	None
16	None	ENSG00000250685	ENST00000565643	antisense	KNOWN	None	None	None	None	84226164	84230659	-1	None	None
16	None	ENSG00000250685	ENST00000561900	antisense	KNOWN	None	None	None	None	84227783	84228320	-1	None	None
16	None	ENSG00000250685	ENST00000569834	antisense	KNOWN	None	None	None	None	84228540	84230658	-1	None	None
19	None	ENSG00000267030	ENST00000588798	antisense	KNOWN	None	None	None	None	4447301	4448214	1	None	None
18	None	ENSG00000264179	ENST00000584430	processed_pseudogene	KNOWN	None	None	None	None	856527	857046	1	None	None
16	SOD1P2	ENSG00000261282	ENST00000563903	processed_pseudogene	KNOWN	None	45135	None	None	51141482	51141932	1	None	None
9	None	ENSG00000197550	ENST00000455242	unprocessed_pseudogene	KNOWN	None	None	None	None	69830288	69848759	1	None	None
19	None	ENSG00000267769	ENST00000592034	antisense	KNOWN	None	None	None	None	4454011	4455283	1	None	None
17	SENP3	ENSG00000161956	ENST00000578868	processed_transcript	KNOWN	None	17862	None	None	7465192	7475287	1	None	DKFZP586K0919, SSP3, DKFZp762A152, SMT3IP1, Ulp1
17	SENP3	ENSG00000161956	ENST00000583277	retained_intron	KNOWN	None	17862	None	None	7467679	7469350	1	None	DKFZP586K0919, SSP3, DKFZp762A152, SMT3IP1, Ulp1
17	SENP3	ENSG00000161956	ENST00000580997	retained_intron	KNOWN	None	17862	None	None	7468098	7469368	1	None	DKFZP586K0919, SSP3, DKFZp762A152, SMT3IP1, Ulp1
17	SENP3	ENSG00000161956	ENST00000580231	protein_coding	NOVEL	None	17862	714	237	7468160	7474988	1	None	DKFZP586K0919, SSP3, DKFZp762A152, SMT3IP1, Ulp1
17	SENP3	ENSG00000161956	ENST00000580042	processed_transcript	KNOWN	None	17862	None	None	7468781	7474779	1	None	DKFZP586K0919, SSP3, DKFZp762A152, SMT3IP1, Ulp1
17	SENP3	ENSG00000161956	ENST00000578813	processed_transcript	KNOWN	None	17862	None	None	7470265	7475198	1	None	DKFZP586K0919, SSP3, DKFZp762A152, SMT3IP1, Ulp1
17	SENP3	ENSG00000161956	ENST00000582789	protein_coding	PUTATIVE	None	17862	333	110	7473674	7475004	1	None	DKFZP586K0919, SSP3, DKFZp762A152, SMT3IP1, Ulp1
17	SENP3	ENSG00000161956	ENST00000581093	protein_coding	PUTATIVE	None	17862	249	82	7473674	7475045	1	None	DKFZP586K0919, SSP3, DKFZp762A152, SMT3IP1, Ulp1
17	SENP3	ENSG00000161956	ENST00000581010	retained_intron	KNOWN	None	17862	None	None	7474682	7475208	1	None	DKFZP586K0919, SSP3, DKFZp762A152, SMT3IP1, Ulp1
17	SENP3	ENSG00000161956	ENST00000321337	protein_coding	KNOWN	None	17862	1722	573	7465272	7475188	1	None	DKFZP586K0919, SSP3, DKFZp762A152, SMT3IP1, Ulp1
17	SENP3	ENSG00000161956	ENST00000429205	protein_coding	KNOWN	None	17862	1725	574	7465543	7475287	1	None	DKFZP586K0919, SSP3, DKFZp762A152, SMT3IP1, Ulp1
9	ZFAND6P1	ENSG00000244213	ENST00000434138	processed_pseudogene	KNOWN	None	42978	None	None	35449745	35450349	1	None	None
18	None	ENSG00000265671	ENST00000582554	antisense	KNOWN	None	None	None	None	894436	907681	-1	None	None
22	None	ENSG00000254499	ENST00000532913	antisense	KNOWN	None	None	None	None	51179021	51181948	-1	None	None
16	None	ENSG00000261238	ENST00000570060	antisense	KNOWN	None	None	None	None	51183150	51183730	1	None	None
11	None	ENSG00000254771	ENST00000526949	processed_pseudogene	KNOWN	None	None	None	None	126049392	126049593	-1	None	None
9	None	ENSG00000235619	ENST00000450395	processed_pseudogene	KNOWN	None	None	None	None	35507561	35507870	1	None	None
4	TAPT1	ENSG00000169762	ENST00000405303	protein_coding	KNOWN	CCDS47030	26887	1704	567	16162128	16228164	-1	None	FLJ90013
4	TAPT1	ENSG00000169762	ENST00000503858	retained_intron	KNOWN	None	26887	None	None	16164875	16168495	-1	None	FLJ90013
4	TAPT1	ENSG00000169762	ENST00000505603	nonsense_mediated_decay	KNOWN	None	26887	354	117	16164884	16228094	-1	None	FLJ90013
4	TAPT1	ENSG00000169762	ENST00000513782	nonsense_mediated_decay	KNOWN	None	26887	637	211	16164919	16193107	-1	None	FLJ90013
4	TAPT1	ENSG00000169762	ENST00000508886	retained_intron	KNOWN	None	26887	None	None	16164991	16176171	-1	None	FLJ90013
4	TAPT1	ENSG00000169762	ENST00000507728	retained_intron	KNOWN	None	26887	None	None	16168296	16176664	-1	None	FLJ90013
4	TAPT1	ENSG00000169762	ENST00000488714	processed_transcript	KNOWN	None	26887	None	None	16177774	16178413	-1	None	FLJ90013
4	TAPT1	ENSG00000169762	ENST00000507425	retained_intron	KNOWN	None	26887	None	None	16181016	16193071	-1	None	FLJ90013
4	TAPT1	ENSG00000169762	ENST00000504281	retained_intron	KNOWN	None	26887	None	None	16181113	16188437	-1	None	FLJ90013
4	TAPT1	ENSG00000169762	ENST00000508888	processed_transcript	KNOWN	None	26887	None	None	16188404	16217793	-1	None	FLJ90013
4	TAPT1	ENSG00000169762	ENST00000513359	processed_transcript	KNOWN	None	26887	None	None	16188404	16229033	-1	None	FLJ90013
4	TAPT1	ENSG00000169762	ENST00000510868	processed_transcript	KNOWN	None	26887	None	None	16189840	16227653	-1	None	FLJ90013
4	TAPT1	ENSG00000169762	ENST00000505152	processed_transcript	KNOWN	None	26887	None	None	16189846	16216256	-1	None	FLJ90013
4	TAPT1	ENSG00000169762	ENST00000511866	processed_transcript	KNOWN	None	26887	None	None	16189855	16198346	-1	None	FLJ90013
4	TAPT1	ENSG00000169762	ENST00000513833	nonsense_mediated_decay	KNOWN	None	26887	155	50	16189898	16204205	-1	None	FLJ90013
4	TAPT1	ENSG00000169762	ENST00000505317	retained_intron	KNOWN	None	26887	None	None	16191962	16228072	-1	None	FLJ90013
4	TAPT1	ENSG00000169762	ENST00000511156	processed_transcript	KNOWN	None	26887	None	None	16204162	16227683	-1	None	FLJ90013
4	TAPT1	ENSG00000169762	ENST00000399920	protein_coding	KNOWN	None	26887	1371	456	16164884	16228094	-1	None	FLJ90013
4	TAPT1	ENSG00000169762	ENST00000304584	protein_coding	KNOWN	None	26887	603	200	16164919	16193107	-1	None	FLJ90013
22	None	ENSG00000213683	ENST00000395613	processed_pseudogene	KNOWN	None	None	None	None	51193103	51193862	-1	None	None
22	None	ENSG00000213683	ENST00000514936	pseudogene	KNOWN	None	None	None	None	51193096	51193861	-1	None	None
18	None	ENSG00000265179	ENST00000581719	antisense	KNOWN	None	None	None	None	903145	906668	-1	None	None
18	None	ENSG00000265179	ENST00000582921	lincRNA	KNOWN	None	None	None	None	903986	904482	-1	None	None
18	None	ENSG00000265179	ENST00000580612	antisense	KNOWN	None	None	None	None	903986	905041	-1	None	None
18	None	ENSG00000265179	ENST00000577358	antisense	KNOWN	None	None	None	None	904853	905750	-1	None	None
16	None	ENSG00000261047	ENST00000570155	processed_pseudogene	KNOWN	None	None	None	None	51277965	51278034	1	None	None
15	None	ENSG00000257109	ENST00000559128	unprocessed_pseudogene	KNOWN	None	None	None	None	102416167	102417104	1	None	None
15	None	ENSG00000257109	ENST00000536946	pseudogene	KNOWN	None	None	None	None	102416167	102417104	1	None	None
9	None	ENSG00000227852	ENST00000430795	processed_pseudogene	KNOWN	None	None	None	None	35592783	35592948	1	None	None
11	TEX12	ENSG00000150783	ENST00000530752	protein_coding	KNOWN	CCDS31679	11734	372	123	112038095	112042987	1	None	None
11	TEX12	ENSG00000150783	ENST00000280358	protein_coding	KNOWN	CCDS31679	11734	372	123	112038095	112043282	1	None	None
6	ZNRD1-AS1	ENSG00000204623	ENST00000425604	antisense	KNOWN	None	13924	None	None	29968788	30028705	-1	C6orf12, NCRNA00171, ZNRD1AS, ZNRD1-AS	HTEX4, Em:AB023056.3
6	ZNRD1-AS1	ENSG00000204623	ENST00000448093	antisense	KNOWN	None	13924	None	None	29968788	30028920	-1	C6orf12, NCRNA00171, ZNRD1AS, ZNRD1-AS	HTEX4, Em:AB023056.3
6	ZNRD1-AS1	ENSG00000204623	ENST00000376797	antisense	KNOWN	None	13924	None	None	29968788	30028921	-1	C6orf12, NCRNA00171, ZNRD1AS, ZNRD1-AS	HTEX4, Em:AB023056.3
6	ZNRD1-AS1	ENSG00000204623	ENST00000420251	antisense	KNOWN	None	13924	None	None	29968788	30028961	-1	C6orf12, NCRNA00171, ZNRD1AS, ZNRD1-AS	HTEX4, Em:AB023056.3
6	ZNRD1-AS1	ENSG00000204623	ENST00000444051	antisense	KNOWN	None	13924	None	None	29979876	30002792	-1	C6orf12, NCRNA00171, ZNRD1AS, ZNRD1-AS	HTEX4, Em:AB023056.3
6	ZNRD1-AS1	ENSG00000204623	ENST00000437417	antisense	KNOWN	None	13924	None	None	29987547	30029417	-1	C6orf12, NCRNA00171, ZNRD1AS, ZNRD1-AS	HTEX4, Em:AB023056.3
6	ZNRD1-AS1	ENSG00000204623	ENST00000422224	antisense	KNOWN	None	13924	None	None	30002712	30026524	-1	C6orf12, NCRNA00171, ZNRD1AS, ZNRD1-AS	HTEX4, Em:AB023056.3
6	ZNRD1-AS1	ENSG00000204623	ENST00000421692	antisense	KNOWN	None	13924	None	None	30003207	30028966	-1	C6orf12, NCRNA00171, ZNRD1AS, ZNRD1-AS	HTEX4, Em:AB023056.3
6	ZNRD1-AS1	ENSG00000204623	ENST00000431012	antisense	KNOWN	None	13924	None	None	30022378	30028956	-1	C6orf12, NCRNA00171, ZNRD1AS, ZNRD1-AS	HTEX4, Em:AB023056.3
6	ZNRD1-AS1	ENSG00000204623	ENST00000452229	antisense	KNOWN	None	13924	None	None	30024530	30028756	-1	C6orf12, NCRNA00171, ZNRD1AS, ZNRD1-AS	HTEX4, Em:AB023056.3
9	MIR4667	ENSG00000263892	ENST00000578933	miRNA	KNOWN	None	41723	None	None	35608091	35608156	1	None	hsa-mir-4667
7	ZP3	ENSG00000188372	ENST00000336517	protein_coding	KNOWN	CCDS5586	13189	1122	373	76026835	76071388	1	ZP3A, ZP3B	ZP3-424, ZP3-372
7	ZP3	ENSG00000188372	ENST00000394857	protein_coding	KNOWN	CCDS47618	13189	1275	424	76054224	76071388	1	ZP3A, ZP3B	ZP3-424, ZP3-372
7	ZP3	ENSG00000188372	ENST00000416245	protein_coding	PUTATIVE	None	13189	747	248	76057955	76071379	1	ZP3A, ZP3B	ZP3-424, ZP3-372
7	ZP3	ENSG00000188372	ENST00000394860	protein_coding	NOVEL	None	13189	776	257	76062787	76071380	1	ZP3A, ZP3B	ZP3-424, ZP3-372
7	ZP3	ENSG00000188372	ENST00000466960	retained_intron	KNOWN	None	13189	None	None	76063273	76071388	1	ZP3A, ZP3B	ZP3-424, ZP3-372
7	ZP3	ENSG00000188372	ENST00000479793	processed_transcript	PUTATIVE	None	13189	None	None	76063352	76071388	1	ZP3A, ZP3B	ZP3-424, ZP3-372
7	ZP3	ENSG00000188372	ENST00000467555	processed_transcript	KNOWN	None	13189	None	None	76069215	76071388	1	ZP3A, ZP3B	ZP3-424, ZP3-372
HSCHR6_MHC_COX	PPP1R2P1	ENSG00000236093	ENST00000438271	processed_transcript	KNOWN	None	9289	None	None	32769272	32769949	-1	PPP1R2P	IPP-2P
HSCHR6_MHC_COX	PPP1R2P1	ENSG00000236093	ENST00000445775	transcribed_processed_pseudogene	KNOWN	None	9289	None	None	32769317	32769934	-1	PPP1R2P	IPP-2P
16	UNGP1	ENSG00000260818	ENST00000565839	processed_pseudogene	KNOWN	None	18579	None	None	51311763	51313023	1	None	None
17	PRR15L	ENSG00000167183	ENST00000300557	protein_coding	KNOWN	CCDS11523	28149	312	103	46029333	46035244	-1	ATAD4	MGC11242
9	None	ENSG00000270412	ENST00000605631	antisense	KNOWN	None	None	None	None	101705619	101706057	-1	None	None
1	SELL	ENSG00000188404	ENST00000236147	protein_coding	KNOWN	CCDS53427	10720	1158	385	169659808	169680839	-1	LYAM1, LNHR	LSEL, LAM1, LAM-1, hLHRc, Leu-8, Lyam-1, PLNHR, CD62L
1	SELL	ENSG00000188404	ENST00000497295	processed_transcript	KNOWN	None	10720	None	None	169660822	169672470	-1	LYAM1, LNHR	LSEL, LAM1, LAM-1, hLHRc, Leu-8, Lyam-1, PLNHR, CD62L
1	SELL	ENSG00000188404	ENST00000463108	processed_transcript	KNOWN	None	10720	None	None	169670636	169680839	-1	LYAM1, LNHR	LSEL, LAM1, LAM-1, hLHRc, Leu-8, Lyam-1, PLNHR, CD62L
1	SELL	ENSG00000188404	ENST00000460650	processed_transcript	PUTATIVE	None	10720	None	None	169672246	169673894	-1	LYAM1, LNHR	LSEL, LAM1, LAM-1, hLHRc, Leu-8, Lyam-1, PLNHR, CD62L
1	SELL	ENSG00000188404	ENST00000479657	processed_transcript	KNOWN	None	10720	None	None	169672458	169677781	-1	LYAM1, LNHR	LSEL, LAM1, LAM-1, hLHRc, Leu-8, Lyam-1, PLNHR, CD62L
1	SELL	ENSG00000188404	ENST00000466340	processed_transcript	KNOWN	None	10720	None	None	169673868	169679673	-1	LYAM1, LNHR	LSEL, LAM1, LAM-1, hLHRc, Leu-8, Lyam-1, PLNHR, CD62L
22	NHP2L1	ENSG00000100138	ENST00000355257	protein_coding	KNOWN	CCDS33653	7819	387	128	42069934	42084913	-1	SSFA1	SNU13, FA-1, SPAG12, SNRNP15-5, 15.5K
22	NHP2L1	ENSG00000100138	ENST00000215956	protein_coding	KNOWN	CCDS14022	7819	387	128	42069958	42078626	-1	SSFA1	SNU13, FA-1, SPAG12, SNRNP15-5, 15.5K
22	NHP2L1	ENSG00000100138	ENST00000401959	protein_coding	KNOWN	CCDS14022	7819	387	128	42069971	42084885	-1	SSFA1	SNU13, FA-1, SPAG12, SNRNP15-5, 15.5K
22	NHP2L1	ENSG00000100138	ENST00000463675	processed_transcript	KNOWN	None	7819	None	None	42070795	42084808	-1	SSFA1	SNU13, FA-1, SPAG12, SNRNP15-5, 15.5K
22	NHP2L1	ENSG00000100138	ENST00000402458	protein_coding	PUTATIVE	None	7819	399	132	42070929	42086508	-1	SSFA1	SNU13, FA-1, SPAG12, SNRNP15-5, 15.5K
22	NHP2L1	ENSG00000100138	ENST00000488571	processed_transcript	KNOWN	None	7819	None	None	42076248	42078460	-1	SSFA1	SNU13, FA-1, SPAG12, SNRNP15-5, 15.5K
22	NHP2L1	ENSG00000100138	ENST00000469028	processed_transcript	KNOWN	None	7819	None	None	42076250	42084808	-1	SSFA1	SNU13, FA-1, SPAG12, SNRNP15-5, 15.5K
22	NHP2L1	ENSG00000100138	ENST00000469522	retained_intron	KNOWN	None	7819	None	None	42083746	42084851	-1	SSFA1	SNU13, FA-1, SPAG12, SNRNP15-5, 15.5K
18	None	ENSG00000259837	ENST00000564872	lincRNA	KNOWN	None	None	None	None	926084	927994	-1	None	None
9	RNA5SP290	ENSG00000252942	ENST00000517133	rRNA	KNOWN	None	43190	None	None	101908122	101908248	-1	RN5S290	None
3	RN7SL703P	ENSG00000266317	ENST00000578485	misc_RNA	KNOWN	None	46719	None	None	181531189	181531488	1	None	None
HSCHR6_MHC_QBL	C6orf25	ENSG00000206396	ENST00000488047	retained_intron	KNOWN	None	13937	None	None	31676607	31684720	1	None	G6b, NG31
HSCHR6_MHC_QBL	C6orf25	ENSG00000206396	ENST00000383412	protein_coding	KNOWN	None	13937	714	237	31681383	31684720	1	None	G6b, NG31
HSCHR6_MHC_QBL	C6orf25	ENSG00000206396	ENST00000400071	protein_coding	KNOWN	None	13937	726	241	31681394	31684720	1	None	G6b, NG31
HSCHR6_MHC_QBL	C6orf25	ENSG00000206396	ENST00000383411	protein_coding	KNOWN	None	13937	654	217	31681394	31684720	1	None	G6b, NG31
HSCHR6_MHC_QBL	C6orf25	ENSG00000206396	ENST00000400067	protein_coding	KNOWN	None	13937	582	193	31681394	31684720	1	None	G6b, NG31
HSCHR6_MHC_QBL	C6orf25	ENSG00000206396	ENST00000383410	protein_coding	KNOWN	None	13937	594	197	31681394	31684720	1	None	G6b, NG31
HSCHR6_MHC_QBL	C6orf25	ENSG00000206396	ENST00000487474	retained_intron	KNOWN	None	13937	None	None	31681394	31684720	1	None	G6b, NG31
HSCHR6_MHC_QBL	C6orf25	ENSG00000206396	ENST00000493554	retained_intron	KNOWN	None	13937	None	None	31681394	31684720	1	None	G6b, NG31
9	None	ENSG00000227269	ENST00000450399	lincRNA	KNOWN	None	None	None	None	101945655	101947173	1	None	None
18	None	ENSG00000272461	ENST00000606879	lincRNA	KNOWN	None	None	None	None	962593	976884	-1	None	None
10	ANTXRLP1	ENSG00000243536	ENST00000605038	transcribed_unprocessed_pseudogene	KNOWN	None	45004	None	None	47605211	47644791	-1	None	None
10	ANTXRLP1	ENSG00000243536	ENST00000454837	processed_transcript	KNOWN	None	45004	None	None	47620145	47640809	-1	None	None
10	ANTXRLP1	ENSG00000243536	ENST00000543148	unprocessed_pseudogene	KNOWN	None	45004	None	None	47639863	47644793	-1	None	None
19	ADAT3	ENSG00000213638	ENST00000329478	protein_coding	KNOWN	CCDS12076	25151	1104	367	1905377	1913444	1	None	TAD3
19	ADAT3	ENSG00000213638	ENST00000454697	protein_coding	KNOWN	None	25151	208	68	1908018	1912254	1	None	TAD3
19	ADAT3	ENSG00000213638	ENST00000602400	protein_coding	KNOWN	None	25151	1056	351	1905417	1913444	1	None	TAD3
22	None	ENSG00000184319	ENST00000496652	processed_transcript	KNOWN	None	None	None	None	51195376	51227614	1	None	None
22	None	ENSG00000184319	ENST00000467796	processed_transcript	PUTATIVE	None	None	None	None	51221682	51237733	1	None	None
22	None	ENSG00000184319	ENST00000462238	processed_transcript	KNOWN	None	None	None	None	51222185	51237862	1	None	None
22	None	ENSG00000184319	ENST00000463325	processed_transcript	PUTATIVE	None	None	None	None	51222203	51227382	1	None	None
22	None	ENSG00000184319	ENST00000494075	processed_transcript	KNOWN	None	None	None	None	51222225	51227781	1	None	None
22	None	ENSG00000184319	ENST00000423888	processed_transcript	KNOWN	None	None	None	None	51222240	51227600	1	None	None
22	None	ENSG00000184319	ENST00000480246	processed_transcript	KNOWN	None	None	None	None	51222290	51239737	1	None	None
22	None	ENSG00000184319	ENST00000427528	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	51237083	51237551	1	None	None
9	RN7SL794P	ENSG00000240235	ENST00000469816	misc_RNA	KNOWN	None	46810	None	None	101947868	101948148	-1	None	None
9	RN7SKP225	ENSG00000222337	ENST00000410405	misc_RNA	KNOWN	None	45949	None	None	102046304	102046655	1	None	None
18	None	ENSG00000263551	ENST00000577719	lincRNA	KNOWN	None	None	None	None	976590	1159392	1	None	None
18	None	ENSG00000263551	ENST00000580781	lincRNA	KNOWN	None	None	None	None	976591	1174805	1	None	None
18	None	ENSG00000263551	ENST00000579835	lincRNA	KNOWN	None	None	None	None	976698	1159312	1	None	None
18	None	ENSG00000263551	ENST00000581556	lincRNA	KNOWN	None	None	None	None	1099009	1159336	1	None	None
18	None	ENSG00000263551	ENST00000583497	lincRNA	KNOWN	None	None	None	None	1159142	1174824	1	None	None
3	RNA5SP150	ENSG00000199839	ENST00000362969	rRNA	KNOWN	None	43050	None	None	181540660	181540778	-1	RN5S150	None
9	KRT8P11	ENSG00000255815	ENST00000409686	processed_pseudogene	KNOWN	None	31058	None	None	102067458	102068893	1	KRT8L1	RP11-13B9.3
9	KRT8P11	ENSG00000255815	ENST00000539942	processed_pseudogene	KNOWN	None	31058	None	None	102067394	102068893	1	KRT8L1	RP11-13B9.3
7	None	ENSG00000201282	ENST00000364412	misc_RNA	NOVEL	None	None	None	None	72481665	72481766	1	None	None
2	MYO7B	ENSG00000169994	ENST00000409816	protein_coding	KNOWN	CCDS46405	7607	6351	2116	128317266	128395303	1	None	None
2	MYO7B	ENSG00000169994	ENST00000563538	protein_coding	PUTATIVE	None	7607	270	89	128367429	128370079	1	None	None
2	MYO7B	ENSG00000169994	ENST00000437387	protein_coding	PUTATIVE	None	7607	528	175	128377557	128381895	1	None	None
2	MYO7B	ENSG00000169994	ENST00000496841	retained_intron	KNOWN	None	7607	None	None	128377573	128395304	1	None	None
2	MYO7B	ENSG00000169994	ENST00000409090	protein_coding	PUTATIVE	None	7607	2910	969	128377601	128395301	1	None	None
2	MYO7B	ENSG00000169994	ENST00000491278	retained_intron	KNOWN	None	7607	None	None	128377610	128395300	1	None	None
2	MYO7B	ENSG00000169994	ENST00000494959	retained_intron	KNOWN	None	7607	None	None	128391801	128395271	1	None	None
2	MYO7B	ENSG00000169994	ENST00000389524	protein_coding	KNOWN	None	7607	6354	2117	128293378	128395303	1	None	None
2	MYO7B	ENSG00000169994	ENST00000428314	protein_coding	KNOWN	CCDS46405	7607	6351	2116	128293378	128395303	1	None	None
HSCHR6_MHC_MCF	TRIM10	ENSG00000229381	ENST00000456988	protein_coding	KNOWN	None	10072	1446	481	30198208	30207199	-1	RNF9	RFB30, HERF1
HSCHR6_MHC_MCF	TRIM10	ENSG00000229381	ENST00000416714	protein_coding	KNOWN	None	10072	1188	395	30198208	30207198	-1	RNF9	RFB30, HERF1
HSCHR6_MHC_MCF	TRIM10	ENSG00000229381	ENST00000546716	protein_coding	KNOWN	None	10072	1446	481	30200235	30207199	-1	RNF9	RFB30, HERF1
15	WBP1LP5	ENSG00000259454	ENST00000560907	processed_pseudogene	KNOWN	None	43957	None	None	102427557	102427970	-1	None	None
19	CRX	ENSG00000105392	ENST00000566686	protein_coding	KNOWN	None	2383	165	54	48322703	48339564	1	CORD2	CRD, LCA7, OTX3
19	CRX	ENSG00000105392	ENST00000604324	retained_intron	KNOWN	None	2383	None	None	48323801	48325267	1	CORD2	CRD, LCA7, OTX3
19	CRX	ENSG00000105392	ENST00000221996	protein_coding	KNOWN	CCDS12706	2383	900	299	48325097	48346587	1	CORD2	CRD, LCA7, OTX3
19	CRX	ENSG00000105392	ENST00000556527	processed_transcript	KNOWN	None	2383	None	None	48325191	48339586	1	CORD2	CRD, LCA7, OTX3
19	CRX	ENSG00000105392	ENST00000602001	processed_transcript	KNOWN	None	2383	None	None	48343967	48346366	1	CORD2	CRD, LCA7, OTX3
19	CRX	ENSG00000105392	ENST00000539067	protein_coding	KNOWN	CCDS12706	2383	900	299	48325164	48346580	1	CORD2	CRD, LCA7, OTX3
12	GUCY2C	ENSG00000070019	ENST00000261170	protein_coding	KNOWN	CCDS8664	4688	3222	1073	14765576	14849519	-1	GUC2C	STAR
12	GUCY2C	ENSG00000070019	ENST00000535803	retained_intron	KNOWN	None	4688	None	None	14827226	14849509	-1	GUC2C	STAR
11	None	ENSG00000254694	ENST00000532866	antisense	KNOWN	None	None	None	None	126078506	126078922	-1	None	None
19	None	ENSG00000267011	ENST00000591414	lincRNA	KNOWN	None	None	None	None	4457959	4458756	-1	None	None
19	None	ENSG00000267011	ENST00000590989	lincRNA	KNOWN	None	None	None	None	4457959	4471276	-1	None	None
19	None	ENSG00000267011	ENST00000589066	lincRNA	KNOWN	None	None	None	None	4470498	4471490	-1	None	None
7	None	ENSG00000252115	ENST00000516306	misc_RNA	NOVEL	None	None	None	None	116549931	116550018	-1	None	None
15	None	ENSG00000259646	ENST00000559612	unprocessed_pseudogene	KNOWN	None	None	None	None	102443357	102443407	1	None	None
7	SPDYE8P	ENSG00000198305	ENST00000411562	transcribed_unprocessed_pseudogene	KNOWN	None	33771	None	None	72490441	72496372	-1	None	None
7	SPDYE8P	ENSG00000198305	ENST00000359797	transcribed_unprocessed_pseudogene	KNOWN	None	33771	None	None	72490873	72500313	-1	None	None
7	SPDYE8P	ENSG00000198305	ENST00000416643	transcribed_unprocessed_pseudogene	KNOWN	None	33771	None	None	72492628	72497423	-1	None	None
7	SPDYE8P	ENSG00000198305	ENST00000446266	unprocessed_pseudogene	KNOWN	None	33771	None	None	72490260	72500309	-1	None	None
7	SPDYE8P	ENSG00000198305	ENST00000448019	unprocessed_pseudogene	KNOWN	None	33771	None	None	72490260	72500309	-1	None	None
18	None	ENSG00000263505	ENST00000584914	processed_pseudogene	KNOWN	None	None	None	None	1159199	1160405	-1	None	None
11	None	ENSG00000232987	ENST00000418612	lincRNA	KNOWN	None	None	None	None	2012326	2014699	1	None	None
3	HACL1	ENSG00000131373	ENST00000321169	protein_coding	KNOWN	CCDS2627	17856	1737	578	15602211	15643338	-1	HPCL	2-HPCL, PHYH2
3	HACL1	ENSG00000131373	ENST00000435217	protein_coding	NOVEL	None	17856	1014	337	15602223	15643076	-1	HPCL	2-HPCL, PHYH2
3	HACL1	ENSG00000131373	ENST00000383779	nonsense_mediated_decay	KNOWN	None	17856	360	119	15602253	15643064	-1	HPCL	2-HPCL, PHYH2
3	HACL1	ENSG00000131373	ENST00000451445	protein_coding	NOVEL	None	17856	1491	496	15602253	15643094	-1	HPCL	2-HPCL, PHYH2
3	HACL1	ENSG00000131373	ENST00000456194	protein_coding	NOVEL	None	17856	1656	551	15602254	15643076	-1	HPCL	2-HPCL, PHYH2
3	HACL1	ENSG00000131373	ENST00000457447	protein_coding	NOVEL	None	17856	1557	518	15602314	15643076	-1	HPCL	2-HPCL, PHYH2
3	HACL1	ENSG00000131373	ENST00000422591	nonsense_mediated_decay	KNOWN	None	17856	414	137	15604865	15643076	-1	HPCL	2-HPCL, PHYH2
3	HACL1	ENSG00000131373	ENST00000421993	protein_coding	PUTATIVE	None	17856	732	243	15621407	15643099	-1	HPCL	2-HPCL, PHYH2
3	HACL1	ENSG00000131373	ENST00000414979	protein_coding	PUTATIVE	None	17856	471	156	15624385	15643068	-1	HPCL	2-HPCL, PHYH2
3	HACL1	ENSG00000131373	ENST00000469454	retained_intron	KNOWN	None	17856	None	None	15637422	15642692	-1	HPCL	2-HPCL, PHYH2
3	HACL1	ENSG00000131373	ENST00000460907	retained_intron	KNOWN	None	17856	None	None	15637659	15643076	-1	HPCL	2-HPCL, PHYH2
3	HACL1	ENSG00000131373	ENST00000472857	retained_intron	KNOWN	None	17856	None	None	15642308	15643053	-1	HPCL	2-HPCL, PHYH2
19	RN7SL528P	ENSG00000264407	ENST00000580715	misc_RNA	KNOWN	None	46544	None	None	4466463	4466736	1	None	None
12	DYRK2	ENSG00000127334	ENST00000543747	protein_coding	KNOWN	None	3093	470	155	68042118	68051376	1	None	None
12	DYRK2	ENSG00000127334	ENST00000344096	protein_coding	KNOWN	CCDS8978	3093	1806	601	68042501	68059186	1	None	None
12	DYRK2	ENSG00000127334	ENST00000393555	protein_coding	KNOWN	CCDS8979	3093	1587	528	68042558	68052689	1	None	None
12	DYRK2	ENSG00000127334	ENST00000537632	processed_transcript	PUTATIVE	None	3093	None	None	68042901	68046480	1	None	None
12	DYRK2	ENSG00000127334	ENST00000319833	protein_coding	KNOWN	None	3093	281	92	68043462	68051187	1	None	None
12	DYRK2	ENSG00000127334	ENST00000542503	protein_coding	PUTATIVE	None	3093	502	166	68045249	68051255	1	None	None
19	None	ENSG00000220693	ENST00000403568	pseudogene	NOVEL	None	None	None	None	4477048	4479576	1	None	None
7	RNA5SP239	ENSG00000222150	ENST00000410218	rRNA	KNOWN	None	43139	None	None	116584340	116584468	-1	RN5S239	None
17	FAM57A	ENSG00000167695	ENST00000574327	nonsense_mediated_decay	KNOWN	None	29646	450	149	635652	643826	1	None	CT120, FLJ22282
17	FAM57A	ENSG00000167695	ENST00000308278	protein_coding	KNOWN	CCDS10996	29646	774	257	635652	646206	1	None	CT120, FLJ22282
17	FAM57A	ENSG00000167695	ENST00000572018	protein_coding	PUTATIVE	None	29646	210	69	635786	644605	1	None	CT120, FLJ22282
17	FAM57A	ENSG00000167695	ENST00000301324	protein_coding	NOVEL	None	29646	678	225	635824	646081	1	None	CT120, FLJ22282
17	FAM57A	ENSG00000167695	ENST00000570699	nonsense_mediated_decay	KNOWN	None	29646	342	113	635917	646123	1	None	CT120, FLJ22282
17	FAM57A	ENSG00000167695	ENST00000577008	protein_coding	PUTATIVE	None	29646	115	37	636365	645254	1	None	CT120, FLJ22282
17	FAM57A	ENSG00000167695	ENST00000570892	processed_transcript	KNOWN	None	29646	None	None	644904	646124	1	None	CT120, FLJ22282
17	GSG2	ENSG00000177602	ENST00000325418	protein_coding	KNOWN	CCDS11036	19682	2397	798	3627211	3630067	1	None	haspin
19	RN7SL121P	ENSG00000263974	ENST00000584223	misc_RNA	KNOWN	None	46137	None	None	4545207	4545463	1	None	None
3	None	ENSG00000239805	ENST00000468802	processed_pseudogene	KNOWN	None	None	None	None	181565314	181565673	-1	None	None
17	None	ENSG00000267772	ENST00000592917	protein_coding	PUTATIVE	None	None	276	91	58641908	58663984	1	None	None
19	MAST3	ENSG00000099308	ENST00000262811	protein_coding	KNOWN	CCDS46014	19036	3930	1309	18208603	18262494	1	None	KIAA0561
19	MAST3	ENSG00000099308	ENST00000601226	retained_intron	KNOWN	None	19036	None	None	18234208	18234942	1	None	KIAA0561
19	None	ENSG00000267408	ENST00000592027	unprocessed_pseudogene	KNOWN	None	None	None	None	4621206	4622319	1	None	None
7	ST7-AS1	ENSG00000227199	ENST00000456775	antisense	KNOWN	None	16000	None	None	116592500	116594388	-1	ST7OT1	ST7AS1
22	TST	ENSG00000128311	ENST00000403892	protein_coding	KNOWN	CCDS13938	12388	894	297	37406900	37415508	-1	None	RDS
22	TST	ENSG00000128311	ENST00000249042	protein_coding	KNOWN	CCDS13938	12388	894	297	37406900	37415568	-1	None	RDS
22	TST	ENSG00000128311	ENST00000438203	protein_coding	KNOWN	None	12388	372	123	37414402	37415681	-1	None	RDS
17	GLP2R	ENSG00000065325	ENST00000574745	protein_coding	PUTATIVE	None	4325	1122	373	9725523	9793351	1	None	None
17	GLP2R	ENSG00000065325	ENST00000262441	protein_coding	KNOWN	CCDS11150	4325	1662	553	9728868	9795419	1	None	None
17	GLP2R	ENSG00000065325	ENST00000574361	nonsense_mediated_decay	KNOWN	None	4325	282	93	9729221	9745928	1	None	None
17	GLP2R	ENSG00000065325	ENST00000304773	protein_coding	PUTATIVE	None	4325	355	117	9745802	9763388	1	None	None
17	GLP2R	ENSG00000065325	ENST00000458005	protein_coding	PUTATIVE	None	4325	686	227	9745872	9770294	1	None	None
3	ACKR2	ENSG00000144648	ENST00000565749	processed_transcript	KNOWN	None	1565	None	None	42846244	42877265	1	CMKBR9, CCBP2	CCR10, D6, CCR9
3	ACKR2	ENSG00000144648	ENST00000496604	processed_transcript	KNOWN	None	1565	None	None	42850906	42938816	1	CMKBR9, CCBP2	CCR10, D6, CCR9
3	ACKR2	ENSG00000144648	ENST00000463699	processed_transcript	KNOWN	None	1565	None	None	42850922	42906026	1	CMKBR9, CCBP2	CCR10, D6, CCR9
3	ACKR2	ENSG00000144648	ENST00000487368	processed_transcript	KNOWN	None	1565	None	None	42850937	42949597	1	CMKBR9, CCBP2	CCR10, D6, CCR9
3	ACKR2	ENSG00000144648	ENST00000460855	processed_transcript	KNOWN	None	1565	None	None	42850948	42929132	1	CMKBR9, CCBP2	CCR10, D6, CCR9
3	ACKR2	ENSG00000144648	ENST00000498111	processed_transcript	KNOWN	None	1565	None	None	42850954	42929466	1	CMKBR9, CCBP2	CCR10, D6, CCR9
3	ACKR2	ENSG00000144648	ENST00000442925	protein_coding	KNOWN	CCDS2706	1565	1155	384	42850964	42908775	1	CMKBR9, CCBP2	CCR10, D6, CCR9
3	ACKR2	ENSG00000144648	ENST00000471537	processed_transcript	KNOWN	None	1565	None	None	42850964	42941828	1	CMKBR9, CCBP2	CCR10, D6, CCR9
3	ACKR2	ENSG00000144648	ENST00000480215	processed_transcript	KNOWN	None	1565	None	None	42850968	42885479	1	CMKBR9, CCBP2	CCR10, D6, CCR9
3	ACKR2	ENSG00000144648	ENST00000422265	protein_coding	KNOWN	CCDS2706	1565	1155	384	42850968	42908775	1	CMKBR9, CCBP2	CCR10, D6, CCR9
3	ACKR2	ENSG00000144648	ENST00000497921	processed_transcript	KNOWN	None	1565	None	None	42850984	42906368	1	CMKBR9, CCBP2	CCR10, D6, CCR9
3	ACKR2	ENSG00000144648	ENST00000492609	processed_transcript	KNOWN	None	1565	None	None	42885456	42906422	1	CMKBR9, CCBP2	CCR10, D6, CCR9
3	ACKR2	ENSG00000144648	ENST00000494619	processed_transcript	KNOWN	None	1565	None	None	42892458	42906505	1	CMKBR9, CCBP2	CCR10, D6, CCR9
3	ACKR2	ENSG00000144648	ENST00000493193	processed_transcript	KNOWN	None	1565	None	None	42897529	42906693	1	CMKBR9, CCBP2	CCR10, D6, CCR9
3	ACKR2	ENSG00000144648	ENST00000273145	protein_coding	KNOWN	CCDS2706	1565	1155	384	42861111	42908774	1	CMKBR9, CCBP2	CCR10, D6, CCR9
4	GRIA2	ENSG00000120251	ENST00000504801	processed_transcript	PUTATIVE	None	4572	None	None	158125334	158224857	1	GLUR2	GluA2, GLURB
4	GRIA2	ENSG00000120251	ENST00000512774	protein_coding	KNOWN	None	4572	145	47	158141055	158142875	1	GLUR2	GluA2, GLURB
4	GRIA2	ENSG00000120251	ENST00000507898	protein_coding	KNOWN	CCDS43275	4572	2511	836	158141295	158284836	1	GLUR2	GluA2, GLURB
4	GRIA2	ENSG00000120251	ENST00000393815	protein_coding	NOVEL	CCDS43275	4572	2511	836	158141820	158287221	1	GLUR2	GluA2, GLURB
4	GRIA2	ENSG00000120251	ENST00000509417	protein_coding	KNOWN	None	4572	374	123	158141843	158224848	1	GLUR2	GluA2, GLURB
4	GRIA2	ENSG00000120251	ENST00000296526	protein_coding	KNOWN	CCDS3797	4572	2652	883	158141870	158287227	1	GLUR2	GluA2, GLURB
4	GRIA2	ENSG00000120251	ENST00000471736	retained_intron	KNOWN	None	4572	None	None	158141876	158285439	1	GLUR2	GluA2, GLURB
4	GRIA2	ENSG00000120251	ENST00000264426	protein_coding	KNOWN	CCDS43274	4572	2652	883	158141916	158285097	1	GLUR2	GluA2, GLURB
4	GRIA2	ENSG00000120251	ENST00000506284	protein_coding	KNOWN	None	4572	171	56	158141959	158224786	1	GLUR2	GluA2, GLURB
4	GRIA2	ENSG00000120251	ENST00000323661	nonsense_mediated_decay	KNOWN	None	4572	2193	730	158142394	158283973	1	GLUR2	GluA2, GLURB
4	GRIA2	ENSG00000120251	ENST00000505888	protein_coding	KNOWN	None	4572	436	144	158142750	158233938	1	GLUR2	GluA2, GLURB
4	GRIA2	ENSG00000120251	ENST00000503437	protein_coding	PUTATIVE	None	4572	314	103	158170616	158238838	1	GLUR2	GluA2, GLURB
4	GRIA2	ENSG00000120251	ENST00000510854	protein_coding	PUTATIVE	None	4572	643	213	158262581	158284316	1	GLUR2	GluA2, GLURB
4	GRIA2	ENSG00000120251	ENST00000503980	retained_intron	KNOWN	None	4572	None	None	158281852	158284086	1	GLUR2	GluA2, GLURB
4	GRIA2	ENSG00000120251	ENST00000449365	protein_coding	KNOWN	CCDS43275	4572	2511	836	158142818	158287227	1	GLUR2	GluA2, GLURB
2	HDLBP	ENSG00000115677	ENST00000391975	protein_coding	KNOWN	CCDS2547	4857	3807	1268	242166679	242212301	-1	VGL	HBP
2	HDLBP	ENSG00000115677	ENST00000391976	protein_coding	KNOWN	CCDS2547	4857	3807	1268	242168627	242254707	-1	VGL	HBP
2	HDLBP	ENSG00000115677	ENST00000310931	protein_coding	KNOWN	CCDS2547	4857	3807	1268	242168627	242255257	-1	VGL	HBP
2	HDLBP	ENSG00000115677	ENST00000487169	retained_intron	KNOWN	None	4857	None	None	242168639	242190352	-1	VGL	HBP
2	HDLBP	ENSG00000115677	ENST00000373292	protein_coding	NOVEL	None	4857	2920	972	242168639	242202207	-1	VGL	HBP
2	HDLBP	ENSG00000115677	ENST00000484412	processed_transcript	PUTATIVE	None	4857	None	None	242168854	242170263	-1	VGL	HBP
2	HDLBP	ENSG00000115677	ENST00000442730	protein_coding	PUTATIVE	None	4857	381	126	242168877	242170239	-1	VGL	HBP
2	HDLBP	ENSG00000115677	ENST00000494862	retained_intron	KNOWN	None	4857	None	None	242168898	242169398	-1	VGL	HBP
2	HDLBP	ENSG00000115677	ENST00000488013	retained_intron	KNOWN	None	4857	None	None	242169619	242170758	-1	VGL	HBP
2	HDLBP	ENSG00000115677	ENST00000470482	processed_transcript	KNOWN	None	4857	None	None	242170190	242176079	-1	VGL	HBP
2	HDLBP	ENSG00000115677	ENST00000479894	retained_intron	KNOWN	None	4857	None	None	242174600	242176186	-1	VGL	HBP
2	HDLBP	ENSG00000115677	ENST00000483086	processed_transcript	KNOWN	None	4857	None	None	242174620	242179151	-1	VGL	HBP
2	HDLBP	ENSG00000115677	ENST00000479169	retained_intron	KNOWN	None	4857	None	None	242177708	242181955	-1	VGL	HBP
2	HDLBP	ENSG00000115677	ENST00000427487	protein_coding	NOVEL	None	4857	924	307	242178094	242186279	-1	VGL	HBP
2	HDLBP	ENSG00000115677	ENST00000459788	retained_intron	KNOWN	None	4857	None	None	242179226	242182205	-1	VGL	HBP
2	HDLBP	ENSG00000115677	ENST00000471294	processed_transcript	PUTATIVE	None	4857	None	None	242179407	242183103	-1	VGL	HBP
2	HDLBP	ENSG00000115677	ENST00000452931	protein_coding	NOVEL	None	4857	801	266	242179433	242188811	-1	VGL	HBP
2	HDLBP	ENSG00000115677	ENST00000460826	retained_intron	KNOWN	None	4857	None	None	242185985	242187458	-1	VGL	HBP
2	HDLBP	ENSG00000115677	ENST00000488923	retained_intron	KNOWN	None	4857	None	None	242186079	242186832	-1	VGL	HBP
2	HDLBP	ENSG00000115677	ENST00000498595	retained_intron	KNOWN	None	4857	None	None	242187659	242194815	-1	VGL	HBP
2	HDLBP	ENSG00000115677	ENST00000476807	processed_transcript	PUTATIVE	None	4857	None	None	242187664	242190411	-1	VGL	HBP
2	HDLBP	ENSG00000115677	ENST00000477477	processed_transcript	KNOWN	None	4857	None	None	242187744	242194860	-1	VGL	HBP
2	HDLBP	ENSG00000115677	ENST00000453141	protein_coding	NOVEL	None	4857	997	331	242192380	242202277	-1	VGL	HBP
2	HDLBP	ENSG00000115677	ENST00000467435	retained_intron	KNOWN	None	4857	None	None	242192415	242194963	-1	VGL	HBP
2	HDLBP	ENSG00000115677	ENST00000470710	retained_intron	KNOWN	None	4857	None	None	242194743	242196123	-1	VGL	HBP
2	HDLBP	ENSG00000115677	ENST00000422933	protein_coding	KNOWN	None	4857	674	223	242195798	242208109	-1	VGL	HBP
2	HDLBP	ENSG00000115677	ENST00000428482	protein_coding	KNOWN	None	4857	663	220	242195809	242255090	-1	VGL	HBP
2	HDLBP	ENSG00000115677	ENST00000442714	protein_coding	NOVEL	None	4857	385	127	242196129	242212532	-1	VGL	HBP
2	HDLBP	ENSG00000115677	ENST00000452065	protein_coding	KNOWN	None	4857	492	163	242196180	242212235	-1	VGL	HBP
2	HDLBP	ENSG00000115677	ENST00000444092	protein_coding	KNOWN	None	4857	441	146	242202135	242211386	-1	VGL	HBP
2	HDLBP	ENSG00000115677	ENST00000430918	protein_coding	KNOWN	None	4857	425	140	242202151	242242139	-1	VGL	HBP
2	HDLBP	ENSG00000115677	ENST00000441124	protein_coding	KNOWN	None	4857	379	125	242202197	242254618	-1	VGL	HBP
2	HDLBP	ENSG00000115677	ENST00000426343	protein_coding	KNOWN	None	4857	290	95	242202286	242212246	-1	VGL	HBP
2	HDLBP	ENSG00000115677	ENST00000413241	protein_coding	KNOWN	None	4857	245	80	242202331	242255087	-1	VGL	HBP
2	HDLBP	ENSG00000115677	ENST00000423693	protein_coding	KNOWN	None	4857	244	80	242202332	242255087	-1	VGL	HBP
2	HDLBP	ENSG00000115677	ENST00000425989	protein_coding	KNOWN	None	4857	237	78	242202339	242256476	-1	VGL	HBP
2	HDLBP	ENSG00000115677	ENST00000449864	protein_coding	PUTATIVE	None	4857	109	35	242203864	242212278	-1	VGL	HBP
2	HDLBP	ENSG00000115677	ENST00000420451	protein_coding	KNOWN	None	4857	207	68	242203890	242255117	-1	VGL	HBP
2	HDLBP	ENSG00000115677	ENST00000422080	protein_coding	KNOWN	None	4857	161	52	242203936	242212248	-1	VGL	HBP
2	HDLBP	ENSG00000115677	ENST00000458564	protein_coding	KNOWN	None	4857	140	45	242203957	242212228	-1	VGL	HBP
2	HDLBP	ENSG00000115677	ENST00000427007	protein_coding	KNOWN	None	4857	58	18	242206227	242212227	-1	VGL	HBP
2	HDLBP	ENSG00000115677	ENST00000449504	protein_coding	KNOWN	None	4857	52	16	242206233	242212249	-1	VGL	HBP
2	HDLBP	ENSG00000115677	ENST00000417540	protein_coding	KNOWN	None	4857	43	13	242206242	242255117	-1	VGL	HBP
2	HDLBP	ENSG00000115677	ENST00000462130	processed_transcript	KNOWN	None	4857	None	None	242206281	242255141	-1	VGL	HBP
2	HDLBP	ENSG00000115677	ENST00000490697	processed_transcript	PUTATIVE	None	4857	None	None	242207914	242212246	-1	VGL	HBP
2	HDLBP	ENSG00000115677	ENST00000496569	processed_transcript	PUTATIVE	None	4857	None	None	242208588	242255235	-1	VGL	HBP
2	HDLBP	ENSG00000115677	ENST00000427183	protein_coding	KNOWN	CCDS58760	4857	3708	1235	242168637	242212246	-1	VGL	HBP
3	None	ENSG00000213155	ENST00000462177	processed_pseudogene	KNOWN	None	None	None	None	181584139	181584942	-1	None	None
19	CSNK1G2	ENSG00000133275	ENST00000255641	protein_coding	KNOWN	CCDS12077	2455	1248	415	1941188	1981337	1	None	CK1g2
19	CSNK1G2	ENSG00000133275	ENST00000587123	processed_transcript	KNOWN	None	2455	None	None	1941203	1950025	1	None	CK1g2
19	CSNK1G2	ENSG00000133275	ENST00000591752	protein_coding	KNOWN	None	2455	231	76	1942464	1978347	1	None	CK1g2
19	CSNK1G2	ENSG00000133275	ENST00000589350	protein_coding	NOVEL	None	2455	252	83	1954632	1974751	1	None	CK1g2
19	CSNK1G2	ENSG00000133275	ENST00000589385	protein_coding	NOVEL	None	2455	896	297	1969825	1979402	1	None	CK1g2
19	CSNK1G2	ENSG00000133275	ENST00000591002	retained_intron	KNOWN	None	2455	None	None	1978452	1979401	1	None	CK1g2
19	CSNK1G2	ENSG00000133275	ENST00000585959	retained_intron	KNOWN	None	2455	None	None	1978452	1979402	1	None	CK1g2
19	CSNK1G2	ENSG00000133275	ENST00000590106	retained_intron	KNOWN	None	2455	None	None	1978474	1979946	1	None	CK1g2
19	CSNK1G2	ENSG00000133275	ENST00000585957	retained_intron	KNOWN	None	2455	None	None	1979258	1979642	1	None	CK1g2
19	CSNK1G2	ENSG00000133275	ENST00000589861	processed_transcript	KNOWN	None	2455	None	None	1979375	1980016	1	None	CK1g2
7	None	ENSG00000270182	ENST00000602610	lincRNA	KNOWN	None	None	None	None	27197963	27198595	1	None	None
HSCHR6_MHC_DBB	RXRB	ENSG00000228333	ENST00000455462	protein_coding	KNOWN	None	10478	1614	537	33139275	33146301	-1	None	NR2B2, H-2RIIBP, RCoR-1
HSCHR6_MHC_DBB	RXRB	ENSG00000228333	ENST00000415157	protein_coding	KNOWN	None	10478	1602	533	33139275	33146375	-1	None	NR2B2, H-2RIIBP, RCoR-1
HSCHR6_MHC_DBB	RXRB	ENSG00000228333	ENST00000462174	nonsense_mediated_decay	KNOWN	None	10478	240	79	33139907	33146324	-1	None	NR2B2, H-2RIIBP, RCoR-1
HSCHR6_MHC_DBB	RXRB	ENSG00000228333	ENST00000462452	retained_intron	KNOWN	None	10478	None	None	33140351	33141047	-1	None	NR2B2, H-2RIIBP, RCoR-1
HSCHR6_MHC_DBB	RXRB	ENSG00000228333	ENST00000451068	protein_coding	KNOWN	None	10478	287	94	33140736	33142125	-1	None	NR2B2, H-2RIIBP, RCoR-1
HSCHR6_MHC_DBB	RXRB	ENSG00000228333	ENST00000494616	retained_intron	KNOWN	None	10478	None	None	33141472	33144322	-1	None	NR2B2, H-2RIIBP, RCoR-1
HSCHR6_MHC_DBB	RXRB	ENSG00000228333	ENST00000547763	protein_coding	KNOWN	None	10478	1179	392	33139276	33146342	-1	None	NR2B2, H-2RIIBP, RCoR-1
HSCHR6_MHC_DBB	RXRB	ENSG00000228333	ENST00000546472	protein_coding	KNOWN	None	10478	1170	389	33139276	33146342	-1	None	NR2B2, H-2RIIBP, RCoR-1
17	GGT6	ENSG00000167741	ENST00000301395	protein_coding	KNOWN	CCDS11047	26891	1386	461	4460222	4463876	-1	None	FLJ90165
17	GGT6	ENSG00000167741	ENST00000574154	protein_coding	KNOWN	CCDS45582	26891	1482	493	4460607	4464113	-1	None	FLJ90165
17	GGT6	ENSG00000167741	ENST00000381550	protein_coding	NOVEL	None	26891	1500	499	4460720	4463871	-1	None	FLJ90165
17	GGT6	ENSG00000167741	ENST00000573591	protein_coding	PUTATIVE	None	26891	1038	345	4461115	4463230	-1	None	FLJ90165
17	GGT6	ENSG00000167741	ENST00000574584	protein_coding	PUTATIVE	None	26891	540	179	4461662	4463859	-1	None	FLJ90165
17	GGT6	ENSG00000167741	ENST00000575573	retained_intron	KNOWN	None	26891	None	None	4462683	4463859	-1	None	FLJ90165
1	SNX7	ENSG00000162627	ENST00000529992	protein_coding	KNOWN	CCDS756	14971	1191	396	99127257	99226054	1	None	None
1	SNX7	ENSG00000162627	ENST00000306121	protein_coding	KNOWN	CCDS755	14971	1356	451	99127279	99226056	1	None	None
1	SNX7	ENSG00000162627	ENST00000473868	processed_transcript	KNOWN	None	14971	None	None	99127366	99142887	1	None	None
1	SNX7	ENSG00000162627	ENST00000528824	nonsense_mediated_decay	KNOWN	None	14971	111	36	99127418	99226056	1	None	None
1	SNX7	ENSG00000162627	ENST00000454199	protein_coding	PUTATIVE	None	14971	325	107	99127779	99157133	1	None	None
1	SNX7	ENSG00000162627	ENST00000370189	protein_coding	KNOWN	None	14971	1011	336	99127236	99226054	1	None	None
21	FTCD	ENSG00000160282	ENST00000483568	processed_transcript	KNOWN	None	3974	None	None	47556176	47557248	-1	None	None
21	FTCD	ENSG00000160282	ENST00000460011	processed_transcript	KNOWN	None	3974	None	None	47556176	47562655	-1	None	None
21	FTCD	ENSG00000160282	ENST00000498355	processed_transcript	KNOWN	None	3974	None	None	47556176	47575481	-1	None	None
21	FTCD	ENSG00000160282	ENST00000291670	protein_coding	KNOWN	CCDS13731	3974	1626	541	47556176	47575481	-1	None	None
21	FTCD	ENSG00000160282	ENST00000397748	protein_coding	KNOWN	None	3974	1719	572	47556176	47575481	-1	None	None
21	FTCD	ENSG00000160282	ENST00000446405	protein_coding	PUTATIVE	None	3974	401	132	47556693	47558486	-1	None	None
21	FTCD	ENSG00000160282	ENST00000397746	protein_coding	KNOWN	CCDS13731	3974	1626	541	47556693	47575481	-1	None	None
21	FTCD	ENSG00000160282	ENST00000397743	protein_coding	KNOWN	None	3974	1488	495	47556693	47575481	-1	None	None
21	FTCD	ENSG00000160282	ENST00000494498	processed_transcript	KNOWN	None	3974	None	None	47557153	47562583	-1	None	None
21	FTCD	ENSG00000160282	ENST00000488577	processed_transcript	KNOWN	None	3974	None	None	47558444	47565487	-1	None	None
21	FTCD	ENSG00000160282	ENST00000480950	processed_transcript	KNOWN	None	3974	None	None	47565742	47566840	-1	None	None
21	FTCD	ENSG00000160282	ENST00000469240	retained_intron	KNOWN	None	3974	None	None	47565743	47566518	-1	None	None
21	FTCD	ENSG00000160282	ENST00000359679	protein_coding	KNOWN	None	3974	1719	572	47556177	47575481	-1	None	None
21	FTCD	ENSG00000160282	ENST00000355384	protein_coding	KNOWN	None	3974	1488	495	47556177	47575481	-1	None	None
11	CHID1	ENSG00000177830	ENST00000532909	nonsense_mediated_decay	KNOWN	None	28474	210	69	868395	870486	-1	None	MGC3234, FLJ42707
11	CHID1	ENSG00000177830	ENST00000529539	protein_coding	KNOWN	None	28474	325	107	868395	883249	-1	None	MGC3234, FLJ42707
11	CHID1	ENSG00000177830	ENST00000323578	protein_coding	KNOWN	CCDS7722	28474	1182	393	868396	911461	-1	None	MGC3234, FLJ42707
11	CHID1	ENSG00000177830	ENST00000534207	nonsense_mediated_decay	KNOWN	None	28474	254	83	868399	883178	-1	None	MGC3234, FLJ42707
11	CHID1	ENSG00000177830	ENST00000429789	protein_coding	KNOWN	CCDS44510	28474	1089	362	869762	910835	-1	None	MGC3234, FLJ42707
11	CHID1	ENSG00000177830	ENST00000528581	protein_coding	KNOWN	CCDS44511	28474	1257	418	869763	910810	-1	None	MGC3234, FLJ42707
11	CHID1	ENSG00000177830	ENST00000436108	protein_coding	KNOWN	CCDS7722	28474	1182	393	869767	910831	-1	None	MGC3234, FLJ42707
11	CHID1	ENSG00000177830	ENST00000524538	retained_intron	KNOWN	None	28474	None	None	869780	870751	-1	None	MGC3234, FLJ42707
11	CHID1	ENSG00000177830	ENST00000528521	nonsense_mediated_decay	KNOWN	None	28474	217	71	870122	884163	-1	None	MGC3234, FLJ42707
11	CHID1	ENSG00000177830	ENST00000526714	processed_transcript	KNOWN	None	28474	None	None	870419	904864	-1	None	MGC3234, FLJ42707
11	CHID1	ENSG00000177830	ENST00000528534	processed_transcript	PUTATIVE	None	28474	None	None	874722	883279	-1	None	MGC3234, FLJ42707
11	CHID1	ENSG00000177830	ENST00000524832	processed_transcript	KNOWN	None	28474	None	None	882328	902322	-1	None	MGC3234, FLJ42707
11	CHID1	ENSG00000177830	ENST00000531010	retained_intron	KNOWN	None	28474	None	None	882980	884151	-1	None	MGC3234, FLJ42707
11	CHID1	ENSG00000177830	ENST00000531859	protein_coding	NOVEL	None	28474	673	223	883146	908659	-1	None	MGC3234, FLJ42707
11	CHID1	ENSG00000177830	ENST00000534254	nonsense_mediated_decay	KNOWN	None	28474	489	162	884068	908664	-1	None	MGC3234, FLJ42707
11	CHID1	ENSG00000177830	ENST00000528426	nonsense_mediated_decay	KNOWN	None	28474	255	84	899353	910791	-1	None	MGC3234, FLJ42707
11	CHID1	ENSG00000177830	ENST00000533056	protein_coding	KNOWN	None	28474	395	130	902197	915058	-1	None	MGC3234, FLJ42707
11	CHID1	ENSG00000177830	ENST00000533059	protein_coding	KNOWN	None	28474	357	118	902235	914820	-1	None	MGC3234, FLJ42707
11	CHID1	ENSG00000177830	ENST00000530939	protein_coding	KNOWN	None	28474	347	114	902245	910821	-1	None	MGC3234, FLJ42707
11	CHID1	ENSG00000177830	ENST00000525225	protein_coding	KNOWN	None	28474	252	83	902971	910816	-1	None	MGC3234, FLJ42707
11	CHID1	ENSG00000177830	ENST00000525840	protein_coding	KNOWN	None	28474	116	37	904701	914801	-1	None	MGC3234, FLJ42707
11	CHID1	ENSG00000177830	ENST00000528154	protein_coding	KNOWN	None	28474	80	25	904737	914774	-1	None	MGC3234, FLJ42707
11	CHID1	ENSG00000177830	ENST00000323541	protein_coding	KNOWN	None	28474	1272	423	867357	914682	-1	None	MGC3234, FLJ42707
11	CHID1	ENSG00000177830	ENST00000449825	protein_coding	KNOWN	CCDS7722	28474	1182	393	867860	915058	-1	None	MGC3234, FLJ42707
11	CHID1	ENSG00000177830	ENST00000454838	protein_coding	KNOWN	CCDS44511	28474	1257	418	867860	904923	-1	None	MGC3234, FLJ42707
11	CHID1	ENSG00000177830	ENST00000336845	protein_coding	KNOWN	CCDS44511	28474	1257	418	869763	910808	-1	None	MGC3234, FLJ42707
12	None	ENSG00000263632	ENST00000581506	miRNA	NOVEL	None	None	None	None	108193412	108193497	-1	None	None
16	None	ENSG00000260240	ENST00000565921	processed_transcript	KNOWN	None	None	None	None	59743897	59788752	-1	None	None
16	None	ENSG00000260240	ENST00000564533	protein_coding	PUTATIVE	None	None	216	71	59771830	59788718	-1	None	None
15	SCG5	ENSG00000166922	ENST00000300175	protein_coding	KNOWN	CCDS45207	10816	639	212	32933877	32989299	1	SGNE1	7B2, SgV
15	SCG5	ENSG00000166922	ENST00000413748	protein_coding	KNOWN	CCDS45208	10816	636	211	32933877	32989299	1	SGNE1	7B2, SgV
15	SCG5	ENSG00000166922	ENST00000494364	protein_coding	NOVEL	None	10816	582	193	32933900	32989289	1	SGNE1	7B2, SgV
15	SCG5	ENSG00000166922	ENST00000497208	protein_coding	NOVEL	None	10816	585	194	32933903	32989090	1	SGNE1	7B2, SgV
15	SCG5	ENSG00000166922	ENST00000471027	protein_coding	NOVEL	None	10816	651	216	32935824	32984110	1	SGNE1	7B2, SgV
15	SCG5	ENSG00000166922	ENST00000470349	processed_transcript	PUTATIVE	None	10816	None	None	32965256	32983964	1	SGNE1	7B2, SgV
15	SCG5	ENSG00000166922	ENST00000498069	processed_transcript	KNOWN	None	10816	None	None	32969761	32988827	1	SGNE1	7B2, SgV
15	SCG5	ENSG00000166922	ENST00000498607	retained_intron	KNOWN	None	10816	None	None	32976617	32984505	1	SGNE1	7B2, SgV
15	SCG5	ENSG00000166922	ENST00000475752	retained_intron	KNOWN	None	10816	None	None	32976641	32989297	1	SGNE1	7B2, SgV
6	None	ENSG00000235535	ENST00000587106	antisense	KNOWN	None	None	None	None	123760749	123792904	1	None	None
6	None	ENSG00000235535	ENST00000434768	antisense	KNOWN	None	None	None	None	123760787	123790075	1	None	None
6	None	ENSG00000235535	ENST00000427828	antisense	KNOWN	None	None	None	None	123760787	123790075	1	None	None
6	None	ENSG00000235535	ENST00000587049	antisense	KNOWN	None	None	None	None	123760823	123784217	1	None	None
6	None	ENSG00000235535	ENST00000589182	antisense	KNOWN	None	None	None	None	123760823	123791095	1	None	None
6	None	ENSG00000235535	ENST00000418467	antisense	KNOWN	None	None	None	None	123760823	123791224	1	None	None
19	None	ENSG00000267130	ENST00000593041	lincRNA	KNOWN	None	None	None	None	33795942	33800293	1	None	None
19	RPS3AP50	ENSG00000243864	ENST00000487064	processed_pseudogene	KNOWN	None	37018	None	None	33831592	33832890	1	None	None
13	TPP2	ENSG00000134900	ENST00000376065	protein_coding	KNOWN	CCDS9502	12016	3750	1249	103249353	103330811	1	None	None
13	TPP2	ENSG00000134900	ENST00000376052	protein_coding	NOVEL	None	12016	3789	1262	103249373	103331521	1	None	None
13	TPP2	ENSG00000134900	ENST00000490010	processed_transcript	KNOWN	None	12016	None	None	103249383	103260372	1	None	None
13	TPP2	ENSG00000134900	ENST00000496126	processed_transcript	KNOWN	None	12016	None	None	103279250	103280262	1	None	None
13	TPP2	ENSG00000134900	ENST00000493770	processed_transcript	KNOWN	None	12016	None	None	103279496	103283878	1	None	None
13	TPP2	ENSG00000134900	ENST00000490420	processed_transcript	KNOWN	None	12016	None	None	103301405	103309475	1	None	None
13	TPP2	ENSG00000134900	ENST00000466153	processed_transcript	KNOWN	None	12016	None	None	103307292	103330713	1	None	None
13	TPP2	ENSG00000134900	ENST00000482393	processed_transcript	KNOWN	None	12016	None	None	103309332	103326761	1	None	None
11	RNU4-86P	ENSG00000222067	ENST00000410135	snRNA	KNOWN	None	47022	None	None	126084155	126084373	-1	None	None
12	None	ENSG00000258231	ENST00000546977	protein_coding	PUTATIVE	None	None	372	123	58937907	59206842	1	None	None
12	None	ENSG00000258231	ENST00000548576	processed_transcript	PUTATIVE	None	None	None	None	58985484	59206449	1	None	None
12	None	ENSG00000258231	ENST00000548969	protein_coding	PUTATIVE	None	None	294	97	59194154	59206441	1	None	None
12	None	ENSG00000258231	ENST00000552519	nonsense_mediated_decay	KNOWN	None	None	117	38	59194443	59206441	1	None	None
16	IGHV1OR16-1	ENSG00000261704	ENST00000568055	IG_V_pseudogene	KNOWN	None	5570	None	None	32046174	32046647	1	None	IGHV1/OR16-1
7	HOXA-AS4	ENSG00000253187	ENST00000519694	antisense	KNOWN	None	40281	None	None	27208238	27210992	1	None	None
7	HOXA-AS4	ENSG00000253187	ENST00000519935	antisense	KNOWN	None	40281	None	None	27208518	27211534	1	None	None
7	HOXA-AS4	ENSG00000253187	ENST00000523790	antisense	KNOWN	None	40281	None	None	27208713	27211384	1	None	None
11	BRMS1	ENSG00000174744	ENST00000425825	protein_coding	KNOWN	CCDS44654	17262	873	290	66104804	66112590	-1	None	DKFZP564A063
11	BRMS1	ENSG00000174744	ENST00000524699	protein_coding	NOVEL	None	17262	802	266	66104810	66109592	-1	None	DKFZP564A063
11	BRMS1	ENSG00000174744	ENST00000359957	protein_coding	KNOWN	CCDS8135	17262	741	246	66104810	66112596	-1	None	DKFZP564A063
11	BRMS1	ENSG00000174744	ENST00000530238	retained_intron	KNOWN	None	17262	None	None	66104840	66112560	-1	None	DKFZP564A063
11	BRMS1	ENSG00000174744	ENST00000527375	nonsense_mediated_decay	KNOWN	None	17262	381	126	66105249	66112550	-1	None	DKFZP564A063
11	BRMS1	ENSG00000174744	ENST00000530756	protein_coding	KNOWN	None	17262	733	243	66105714	66112283	-1	None	DKFZP564A063
11	BRMS1	ENSG00000174744	ENST00000534617	retained_intron	KNOWN	None	17262	None	None	66108245	66112550	-1	None	DKFZP564A063
11	BRMS1	ENSG00000174744	ENST00000525127	retained_intron	KNOWN	None	17262	None	None	66108245	66112554	-1	None	DKFZP564A063
11	BRMS1	ENSG00000174744	ENST00000529544	retained_intron	KNOWN	None	17262	None	None	66109420	66112596	-1	None	DKFZP564A063
16	IGHV1OR16-3	ENSG00000260048	ENST00000568138	IG_V_pseudogene	KNOWN	None	5572	None	None	32070405	32070693	1	None	IGHV1/OR16-3
18	COX6CP3	ENSG00000266251	ENST00000580869	processed_pseudogene	KNOWN	None	31721	None	None	1176791	1177013	-1	None	None
11	H19	ENSG00000130600	ENST00000442037	lincRNA	KNOWN	None	4713	None	None	2016406	2017421	-1	None	D11S813E, ASM, ASM1, NCRNA00008, LINC00008
11	H19	ENSG00000130600	ENST00000411861	retained_intron	KNOWN	None	4713	None	None	2016406	2018447	-1	None	D11S813E, ASM, ASM1, NCRNA00008, LINC00008
11	H19	ENSG00000130600	ENST00000439725	lincRNA	KNOWN	None	4713	None	None	2016406	2018690	-1	None	D11S813E, ASM, ASM1, NCRNA00008, LINC00008
11	H19	ENSG00000130600	ENST00000412788	lincRNA	KNOWN	None	4713	None	None	2016406	2019044	-1	None	D11S813E, ASM, ASM1, NCRNA00008, LINC00008
11	H19	ENSG00000130600	ENST00000414790	lincRNA	KNOWN	None	4713	None	None	2016406	2019105	-1	None	D11S813E, ASM, ASM1, NCRNA00008, LINC00008
11	H19	ENSG00000130600	ENST00000422826	lincRNA	KNOWN	None	4713	None	None	2016440	2019027	-1	None	D11S813E, ASM, ASM1, NCRNA00008, LINC00008
11	H19	ENSG00000130600	ENST00000446406	lincRNA	KNOWN	None	4713	None	None	2016446	2019057	-1	None	D11S813E, ASM, ASM1, NCRNA00008, LINC00008
11	H19	ENSG00000130600	ENST00000417089	lincRNA	KNOWN	None	4713	None	None	2016464	2018255	-1	None	D11S813E, ASM, ASM1, NCRNA00008, LINC00008
11	H19	ENSG00000130600	ENST00000411754	lincRNA	KNOWN	None	4713	None	None	2016467	2019027	-1	None	D11S813E, ASM, ASM1, NCRNA00008, LINC00008
11	H19	ENSG00000130600	ENST00000431095	lincRNA	KNOWN	None	4713	None	None	2016467	2019045	-1	None	D11S813E, ASM, ASM1, NCRNA00008, LINC00008
11	H19	ENSG00000130600	ENST00000436715	retained_intron	KNOWN	None	4713	None	None	2016669	2017801	-1	None	D11S813E, ASM, ASM1, NCRNA00008, LINC00008
11	H19	ENSG00000130600	ENST00000428066	lincRNA	KNOWN	None	4713	None	None	2016913	2022700	-1	None	D11S813E, ASM, ASM1, NCRNA00008, LINC00008
11	H19	ENSG00000130600	ENST00000447298	lincRNA	KNOWN	None	4713	None	None	2016918	2017697	-1	None	D11S813E, ASM, ASM1, NCRNA00008, LINC00008
11	H19	ENSG00000130600	ENST00000390168	miRNA	KNOWN	None	4713	None	None	2017980	2018074	-1	None	D11S813E, ASM, ASM1, NCRNA00008, LINC00008
19	AKR1B1P7	ENSG00000266899	ENST00000587229	processed_pseudogene	KNOWN	None	33497	None	None	33851406	33852354	-1	None	None
17	CCR10	ENSG00000184451	ENST00000332438	protein_coding	KNOWN	CCDS11435	4474	1089	362	40830907	40833861	-1	GPR2	None
17	CCR10	ENSG00000184451	ENST00000591765	protein_coding	PUTATIVE	None	4474	423	140	40831438	40835082	-1	GPR2	None
17	CCR10	ENSG00000184451	ENST00000591568	protein_coding	PUTATIVE	None	4474	250	82	40831744	40835935	-1	GPR2	None
2	SIX3	ENSG00000138083	ENST00000260653	protein_coding	KNOWN	CCDS1821	10889	999	332	45168902	45173216	1	HPE2	None
16	None	ENSG00000261483	ENST00000564145	3prime_overlapping_ncrna	KNOWN	None	None	None	None	32114566	32163834	-1	None	None
19	None	ENSG00000266985	ENST00000589967	lincRNA	KNOWN	None	None	None	None	34046474	34048376	1	None	None
12	IFNG	ENSG00000111537	ENST00000229135	protein_coding	KNOWN	CCDS8980	5438	501	166	68548548	68553527	-1	None	None
10	MED6P1	ENSG00000227905	ENST00000439659	processed_pseudogene	KNOWN	None	45164	None	None	89807892	89809580	-1	None	None
16	None	ENSG00000260584	ENST00000566120	processed_pseudogene	KNOWN	None	None	None	None	32128021	32128318	1	None	None
17	STH	ENSG00000256762	ENST00000537309	protein_coding	KNOWN	CCDS54136	18839	387	128	44076616	44077060	1	None	MAPTIT
4	None	ENSG00000248656	ENST00000510034	lincRNA	KNOWN	None	None	None	None	112561651	112569964	1	None	None
5	None	ENSG00000253725	ENST00000522847	processed_pseudogene	KNOWN	None	None	None	None	178267098	178268135	1	None	None
9	RNU6-785P	ENSG00000223256	ENST00000411324	snRNA	KNOWN	None	47748	None	None	141150045	141150148	1	None	None
3	TTC14	ENSG00000163728	ENST00000296015	protein_coding	KNOWN	CCDS3237	24697	2313	770	180319918	180328766	1	None	FLJ00166, KIAA1980
3	TTC14	ENSG00000163728	ENST00000491380	protein_coding	NOVEL	None	24697	528	175	180319977	180321948	1	None	FLJ00166, KIAA1980
3	TTC14	ENSG00000163728	ENST00000412756	protein_coding	PUTATIVE	CCDS46963	24697	1320	439	180319981	180328762	1	None	FLJ00166, KIAA1980
3	TTC14	ENSG00000163728	ENST00000465065	nonsense_mediated_decay	KNOWN	None	24697	528	175	180319983	180328762	1	None	FLJ00166, KIAA1980
3	TTC14	ENSG00000163728	ENST00000470669	nonsense_mediated_decay	KNOWN	CCDS46963	24697	1320	439	180319999	180327791	1	None	FLJ00166, KIAA1980
3	TTC14	ENSG00000163728	ENST00000382584	protein_coding	KNOWN	None	24697	1962	653	180319999	180335616	1	None	FLJ00166, KIAA1980
3	TTC14	ENSG00000163728	ENST00000462895	nonsense_mediated_decay	KNOWN	None	24697	579	192	180320005	180322700	1	None	FLJ00166, KIAA1980
3	TTC14	ENSG00000163728	ENST00000492617	protein_coding	PUTATIVE	None	24697	557	184	180320294	180322795	1	None	FLJ00166, KIAA1980
3	TTC14	ENSG00000163728	ENST00000495660	protein_coding	PUTATIVE	None	24697	401	132	180320350	180322395	1	None	FLJ00166, KIAA1980
3	TTC14	ENSG00000163728	ENST00000465625	processed_transcript	PUTATIVE	None	24697	None	None	180325951	180327956	1	None	FLJ00166, KIAA1980
3	TTC14	ENSG00000163728	ENST00000487397	processed_transcript	PUTATIVE	None	24697	None	None	180327659	180328768	1	None	FLJ00166, KIAA1980
19	RPL21P131	ENSG00000232429	ENST00000497298	processed_pseudogene	KNOWN	None	36428	None	None	34080112	34080594	-1	None	None
4	None	ENSG00000250855	ENST00000506068	lincRNA	KNOWN	None	None	None	None	112723957	112761042	1	None	None
6	None	ENSG00000216015	ENST00000401196	miRNA	NOVEL	None	None	None	None	124061579	124061677	-1	None	None
8	DOCK5	ENSG00000147459	ENST00000410074	protein_coding	PUTATIVE	None	23476	252	83	25042238	25128737	1	None	FLJ21034
8	DOCK5	ENSG00000147459	ENST00000481100	protein_coding	KNOWN	None	23476	1053	350	25042287	25162823	1	None	FLJ21034
8	DOCK5	ENSG00000147459	ENST00000276440	protein_coding	KNOWN	CCDS6047	23476	5613	1870	25042380	25273232	1	None	FLJ21034
8	DOCK5	ENSG00000147459	ENST00000495236	retained_intron	KNOWN	None	23476	None	None	25154098	25156986	1	None	FLJ21034
8	DOCK5	ENSG00000147459	ENST00000444569	protein_coding	NOVEL	None	23476	3271	1089	25156458	25234375	1	None	FLJ21034
8	DOCK5	ENSG00000147459	ENST00000478099	retained_intron	KNOWN	None	23476	None	None	25166255	25168023	1	None	FLJ21034
8	DOCK5	ENSG00000147459	ENST00000487948	retained_intron	KNOWN	None	23476	None	None	25167984	25174886	1	None	FLJ21034
8	DOCK5	ENSG00000147459	ENST00000467709	nonsense_mediated_decay	KNOWN	None	23476	415	137	25182942	25269772	1	None	FLJ21034
8	DOCK5	ENSG00000147459	ENST00000481728	retained_intron	KNOWN	None	23476	None	None	25208909	25222293	1	None	FLJ21034
8	DOCK5	ENSG00000147459	ENST00000463457	retained_intron	KNOWN	None	23476	None	None	25249405	25253338	1	None	FLJ21034
8	DOCK5	ENSG00000147459	ENST00000521405	retained_intron	KNOWN	None	23476	None	None	25266948	25269774	1	None	FLJ21034
8	DOCK5	ENSG00000147459	ENST00000479547	retained_intron	KNOWN	None	23476	None	None	25267513	25275598	1	None	FLJ21034
6	None	ENSG00000237321	ENST00000441521	sense_intronic	KNOWN	None	None	None	None	124144385	124150430	1	None	None
4	None	ENSG00000248432	ENST00000508010	lincRNA	KNOWN	None	None	None	None	112725574	112730850	-1	None	None
20	PKIG	ENSG00000168734	ENST00000372894	protein_coding	KNOWN	CCDS13334	9019	231	76	43160426	43247678	1	None	None
20	PKIG	ENSG00000168734	ENST00000372892	protein_coding	KNOWN	CCDS13334	9019	231	76	43160426	43247678	1	None	None
20	PKIG	ENSG00000168734	ENST00000372891	protein_coding	KNOWN	CCDS13334	9019	231	76	43160426	43247678	1	None	None
20	PKIG	ENSG00000168734	ENST00000372889	protein_coding	KNOWN	CCDS13334	9019	231	76	43160550	43247678	1	None	None
20	PKIG	ENSG00000168734	ENST00000372887	protein_coding	PUTATIVE	None	9019	195	64	43160557	43252888	1	None	None
20	PKIG	ENSG00000168734	ENST00000477390	processed_transcript	KNOWN	None	9019	None	None	43192842	43243409	1	None	None
20	PKIG	ENSG00000168734	ENST00000372886	protein_coding	KNOWN	CCDS13334	9019	231	76	43211190	43247678	1	None	None
20	PKIG	ENSG00000168734	ENST00000349959	protein_coding	KNOWN	CCDS13334	9019	231	76	43242949	43247678	1	None	None
20	PKIG	ENSG00000168734	ENST00000372882	protein_coding	KNOWN	None	9019	195	64	43160570	43252617	1	None	None
11	None	ENSG00000179038	ENST00000444002	protein_coding	KNOWN	None	None	276	91	66963391	66964638	-1	None	None
21	C21orf37	ENSG00000232560	ENST00000440664	protein_coding	KNOWN	None	1277	225	74	18811208	18821503	1	None	None
4	None	ENSG00000249815	ENST00000511219	lincRNA	KNOWN	None	None	None	None	112748037	112993854	-1	None	None
16	None	ENSG00000260858	ENST00000563772	lincRNA	KNOWN	None	None	None	None	84288876	84294655	-1	None	None
18	LINC00470	ENSG00000132204	ENST00000584090	lincRNA	KNOWN	None	1225	None	None	1254384	1359440	-1	C18orf2	None
18	LINC00470	ENSG00000132204	ENST00000412816	lincRNA	KNOWN	None	1225	None	None	1268312	1407181	-1	C18orf2	None
18	LINC00470	ENSG00000132204	ENST00000577867	lincRNA	KNOWN	None	1225	None	None	1269012	1359651	-1	C18orf2	None
18	LINC00470	ENSG00000132204	ENST00000584492	lincRNA	KNOWN	None	1225	None	None	1269177	1359591	-1	C18orf2	None
18	LINC00470	ENSG00000132204	ENST00000578835	lincRNA	KNOWN	None	1225	None	None	1269568	1359558	-1	C18orf2	None
18	LINC00470	ENSG00000132204	ENST00000581430	lincRNA	KNOWN	None	1225	None	None	1269673	1407179	-1	C18orf2	None
18	LINC00470	ENSG00000132204	ENST00000582862	lincRNA	KNOWN	None	1225	None	None	1269822	1358763	-1	C18orf2	None
18	LINC00470	ENSG00000132204	ENST00000577403	lincRNA	KNOWN	None	1225	None	None	1269822	1358763	-1	C18orf2	None
18	LINC00470	ENSG00000132204	ENST00000581212	lincRNA	KNOWN	None	1225	None	None	1269822	1359630	-1	C18orf2	None
18	LINC00470	ENSG00000132204	ENST00000582570	lincRNA	KNOWN	None	1225	None	None	1368090	1408345	-1	C18orf2	None
18	LINC00470	ENSG00000132204	ENST00000580336	lincRNA	KNOWN	None	1225	None	None	1368291	1392186	-1	C18orf2	None
18	LINC00470	ENSG00000132204	ENST00000334697	lincRNA	KNOWN	None	1225	None	None	1269822	1359630	-1	C18orf2	None
18	LINC00470	ENSG00000132204	ENST00000269201	lincRNA	KNOWN	None	1225	None	None	1272319	1359440	-1	C18orf2	None
21	WRB	ENSG00000182093	ENST00000333781	protein_coding	KNOWN	CCDS13664	12790	525	174	40752170	40769815	1	None	CHD5
21	WRB	ENSG00000182093	ENST00000487869	retained_intron	KNOWN	None	12790	None	None	40752320	40763972	1	None	CHD5
21	WRB	ENSG00000182093	ENST00000471468	retained_intron	KNOWN	None	12790	None	None	40752340	40763131	1	None	CHD5
21	WRB	ENSG00000182093	ENST00000398753	protein_coding	PUTATIVE	CCDS54485	12790	423	140	40752384	40769042	1	None	CHD5
21	WRB	ENSG00000182093	ENST00000442773	protein_coding	PUTATIVE	None	12790	106	34	40752413	40762729	1	None	CHD5
21	WRB	ENSG00000182093	ENST00000380713	protein_coding	PUTATIVE	None	12790	349	115	40758019	40765206	1	None	CHD5
21	WRB	ENSG00000182093	ENST00000380708	protein_coding	PUTATIVE	CCDS54485	12790	423	140	40759691	40769815	1	None	CHD5
21	WRB	ENSG00000182093	ENST00000466787	processed_transcript	KNOWN	None	12790	None	None	40759717	40769180	1	None	CHD5
21	WRB	ENSG00000182093	ENST00000490860	retained_intron	KNOWN	None	12790	None	None	40764822	40769030	1	None	CHD5
21	WRB	ENSG00000182093	ENST00000415847	protein_coding	PUTATIVE	None	12790	129	42	40765149	40778372	1	None	CHD5
21	WRB	ENSG00000182093	ENST00000478273	processed_transcript	KNOWN	None	12790	None	None	40782795	40800454	1	None	CHD5
21	WRB	ENSG00000182093	ENST00000476914	processed_transcript	KNOWN	None	12790	None	None	40797797	40800454	1	None	CHD5
21	WRB	ENSG00000182093	ENST00000480690	processed_transcript	KNOWN	None	12790	None	None	40797845	40800454	1	None	CHD5
21	WRB	ENSG00000182093	ENST00000541890	protein_coding	KNOWN	None	12790	519	172	40752280	40786214	1	None	CHD5
16	None	ENSG00000262323	ENST00000449759	protein_coding	PUTATIVE	None	None	610	202	29674600	29706465	1	None	None
7	ASB10	ENSG00000146926	ENST00000275838	protein_coding	KNOWN	CCDS47749	17185	1290	429	150872785	150884478	-1	None	None
7	ASB10	ENSG00000146926	ENST00000377867	protein_coding	KNOWN	CCDS5921	17185	1359	452	150872785	150884919	-1	None	None
7	ASB10	ENSG00000146926	ENST00000420175	protein_coding	KNOWN	CCDS47750	17185	1404	467	150872789	150884242	-1	None	None
7	ASB10	ENSG00000146926	ENST00000415615	nonsense_mediated_decay	KNOWN	None	17185	348	115	150883732	150884865	-1	None	None
7	ASB10	ENSG00000146926	ENST00000422024	protein_coding	KNOWN	None	17185	1539	512	150872785	150884478	-1	None	None
7	ASB10	ENSG00000146926	ENST00000434669	protein_coding	KNOWN	None	17185	1425	474	150872785	150884478	-1	None	None
4	CCDC34P1	ENSG00000250556	ENST00000507441	processed_pseudogene	KNOWN	None	44008	None	None	112989166	112989682	1	None	None
19	IGLON5	ENSG00000142549	ENST00000270642	protein_coding	KNOWN	CCDS46158	34550	1011	336	51815102	51833608	1	None	LOC402665
16	HERC2P4	ENSG00000230267	ENST00000563904	processed_transcript	KNOWN	None	4872	None	None	32163040	32164308	-1	None	D16F37S5
16	HERC2P4	ENSG00000230267	ENST00000566902	transcribed_unprocessed_pseudogene	KNOWN	None	4872	None	None	32163432	32198391	-1	None	D16F37S5
16	HERC2P4	ENSG00000230267	ENST00000570151	processed_transcript	KNOWN	None	4872	None	None	32163435	32164315	-1	None	D16F37S5
16	HERC2P4	ENSG00000230267	ENST00000564730	processed_transcript	KNOWN	None	4872	None	None	32181305	32182888	-1	None	D16F37S5
16	HERC2P4	ENSG00000230267	ENST00000566591	processed_transcript	KNOWN	None	4872	None	None	32182455	32191996	-1	None	D16F37S5
16	HERC2P4	ENSG00000230267	ENST00000568097	processed_transcript	KNOWN	None	4872	None	None	32190721	32199428	-1	None	D16F37S5
16	HERC2P4	ENSG00000230267	ENST00000433784	unprocessed_pseudogene	KNOWN	None	4872	None	None	32187411	32199434	-1	None	D16F37S5
2	SIX2	ENSG00000170577	ENST00000303077	protein_coding	KNOWN	CCDS1822	10888	876	291	45232300	45236569	-1	None	None
9	None	ENSG00000231393	ENST00000457044	antisense	KNOWN	None	None	None	None	35642511	35643514	1	None	None
15	CT62	ENSG00000225362	ENST00000566432	protein_coding	PUTATIVE	None	27286	234	77	71402583	71407806	-1	None	None
15	CT62	ENSG00000225362	ENST00000449977	protein_coding	KNOWN	CCDS45295	27286	411	136	71402583	71407833	-1	None	None
15	CT62	ENSG00000225362	ENST00000567117	protein_coding	KNOWN	None	27286	291	96	71403610	71407812	-1	None	None
9	None	ENSG00000227933	ENST00000428948	antisense	KNOWN	None	None	None	None	35646267	35647096	1	None	None
9	None	ENSG00000271086	ENST00000603491	lincRNA	KNOWN	None	None	None	None	102117619	102118546	-1	None	None
9	None	ENSG00000271086	ENST00000605377	lincRNA	KNOWN	None	None	None	None	102117619	102131196	-1	None	None
9	None	ENSG00000271086	ENST00000604237	lincRNA	KNOWN	None	None	None	None	102117626	102128754	-1	None	None
9	None	ENSG00000271086	ENST00000604258	lincRNA	KNOWN	None	None	None	None	102117692	102137509	-1	None	None
9	None	ENSG00000271086	ENST00000605707	lincRNA	KNOWN	None	None	None	None	102128699	102134794	-1	None	None
9	None	ENSG00000271086	ENST00000604009	lincRNA	KNOWN	None	None	None	None	102136636	102138066	-1	None	None
9	None	ENSG00000271086	ENST00000605043	lincRNA	KNOWN	None	None	None	None	102136636	102139522	-1	None	None
11	LUZP2	ENSG00000187398	ENST00000531187	processed_transcript	KNOWN	None	23206	None	None	24518516	24914883	1	None	None
11	LUZP2	ENSG00000187398	ENST00000449567	processed_transcript	KNOWN	None	23206	None	None	24518605	24808241	1	None	None
11	LUZP2	ENSG00000187398	ENST00000405855	processed_transcript	KNOWN	None	23206	None	None	24518685	24853595	1	None	None
11	LUZP2	ENSG00000187398	ENST00000336930	protein_coding	KNOWN	CCDS31446	23206	1041	346	24518724	25102650	1	None	None
11	LUZP2	ENSG00000187398	ENST00000529015	protein_coding	NOVEL	None	23206	528	175	24518741	25004728	1	None	None
11	LUZP2	ENSG00000187398	ENST00000533227	protein_coding	PUTATIVE	CCDS58128	23206	783	260	24518757	25104150	1	None	None
11	LUZP2	ENSG00000187398	ENST00000528970	processed_transcript	KNOWN	None	23206	None	None	24913311	24914067	1	None	None
16	QPRT	ENSG00000103485	ENST00000219771	processed_transcript	KNOWN	None	9755	None	None	29690329	29709097	1	None	QPRTase
16	QPRT	ENSG00000103485	ENST00000395384	protein_coding	KNOWN	CCDS10651	9755	894	297	29690358	29710020	1	None	QPRTase
16	QPRT	ENSG00000103485	ENST00000562473	protein_coding	NOVEL	None	9755	450	149	29690503	29708845	1	None	QPRTase
16	QPRT	ENSG00000103485	ENST00000564967	retained_intron	KNOWN	None	9755	None	None	29707118	29709316	1	None	QPRTase
10	GOLGA2P6	ENSG00000241621	ENST00000340929	unprocessed_pseudogene	KNOWN	None	44948	None	None	30653339	30663315	-1	None	None
7	EXOC4	ENSG00000131558	ENST00000393161	protein_coding	KNOWN	CCDS43648	30389	1422	473	132937829	133168951	1	SEC8L1	KIAA1699, MGC27170, SEC8, Sec8p
7	EXOC4	ENSG00000131558	ENST00000486013	retained_intron	KNOWN	None	30389	None	None	132937829	133314951	1	SEC8L1	KIAA1699, MGC27170, SEC8, Sec8p
7	EXOC4	ENSG00000131558	ENST00000253861	protein_coding	KNOWN	CCDS5829	30389	2925	974	132937829	133750512	1	SEC8L1	KIAA1699, MGC27170, SEC8, Sec8p
7	EXOC4	ENSG00000131558	ENST00000462055	retained_intron	KNOWN	None	30389	None	None	132937851	133165832	1	SEC8L1	KIAA1699, MGC27170, SEC8, Sec8p
7	EXOC4	ENSG00000131558	ENST00000481074	processed_transcript	KNOWN	None	30389	None	None	132937855	132938774	1	SEC8L1	KIAA1699, MGC27170, SEC8, Sec8p
7	EXOC4	ENSG00000131558	ENST00000492326	processed_transcript	KNOWN	None	30389	None	None	132938121	132990665	1	SEC8L1	KIAA1699, MGC27170, SEC8, Sec8p
7	EXOC4	ENSG00000131558	ENST00000480840	retained_intron	KNOWN	None	30389	None	None	133041141	133059782	1	SEC8L1	KIAA1699, MGC27170, SEC8, Sec8p
7	EXOC4	ENSG00000131558	ENST00000486409	processed_transcript	KNOWN	None	30389	None	None	133080893	133314891	1	SEC8L1	KIAA1699, MGC27170, SEC8, Sec8p
7	EXOC4	ENSG00000131558	ENST00000479839	processed_transcript	KNOWN	None	30389	None	None	133132054	133502218	1	SEC8L1	KIAA1699, MGC27170, SEC8, Sec8p
7	EXOC4	ENSG00000131558	ENST00000494685	processed_transcript	KNOWN	None	30389	None	None	133163669	133164893	1	SEC8L1	KIAA1699, MGC27170, SEC8, Sec8p
7	EXOC4	ENSG00000131558	ENST00000498024	processed_transcript	KNOWN	None	30389	None	None	133164201	133164893	1	SEC8L1	KIAA1699, MGC27170, SEC8, Sec8p
7	EXOC4	ENSG00000131558	ENST00000483800	processed_transcript	KNOWN	None	30389	None	None	133236353	133580439	1	SEC8L1	KIAA1699, MGC27170, SEC8, Sec8p
7	EXOC4	ENSG00000131558	ENST00000469115	processed_transcript	KNOWN	None	30389	None	None	133261216	133580489	1	SEC8L1	KIAA1699, MGC27170, SEC8, Sec8p
7	EXOC4	ENSG00000131558	ENST00000489931	processed_transcript	KNOWN	None	30389	None	None	133261386	133580439	1	SEC8L1	KIAA1699, MGC27170, SEC8, Sec8p
7	EXOC4	ENSG00000131558	ENST00000482089	processed_transcript	KNOWN	None	30389	None	None	133261454	133580489	1	SEC8L1	KIAA1699, MGC27170, SEC8, Sec8p
7	EXOC4	ENSG00000131558	ENST00000460346	processed_transcript	KNOWN	None	30389	None	None	133286592	133602470	1	SEC8L1	KIAA1699, MGC27170, SEC8, Sec8p
7	EXOC4	ENSG00000131558	ENST00000463150	processed_transcript	KNOWN	None	30389	None	None	133452850	133456240	1	SEC8L1	KIAA1699, MGC27170, SEC8, Sec8p
7	EXOC4	ENSG00000131558	ENST00000472020	processed_transcript	KNOWN	None	30389	None	None	133579816	133622709	1	SEC8L1	KIAA1699, MGC27170, SEC8, Sec8p
7	EXOC4	ENSG00000131558	ENST00000478265	processed_transcript	KNOWN	None	30389	None	None	133615194	133682387	1	SEC8L1	KIAA1699, MGC27170, SEC8, Sec8p
7	EXOC4	ENSG00000131558	ENST00000484397	retained_intron	KNOWN	None	30389	None	None	133682328	133692692	1	SEC8L1	KIAA1699, MGC27170, SEC8, Sec8p
7	EXOC4	ENSG00000131558	ENST00000480337	retained_intron	KNOWN	None	30389	None	None	133682330	133692621	1	SEC8L1	KIAA1699, MGC27170, SEC8, Sec8p
7	EXOC4	ENSG00000131558	ENST00000459626	processed_transcript	KNOWN	None	30389	None	None	133694621	133749211	1	SEC8L1	KIAA1699, MGC27170, SEC8, Sec8p
7	EXOC4	ENSG00000131558	ENST00000466000	processed_transcript	KNOWN	None	30389	None	None	133694722	133749363	1	SEC8L1	KIAA1699, MGC27170, SEC8, Sec8p
7	EXOC4	ENSG00000131558	ENST00000468932	processed_transcript	KNOWN	None	30389	None	None	133749071	133751342	1	SEC8L1	KIAA1699, MGC27170, SEC8, Sec8p
7	EXOC4	ENSG00000131558	ENST00000539845	protein_coding	KNOWN	None	30389	2622	873	132938128	133749340	1	SEC8L1	KIAA1699, MGC27170, SEC8, Sec8p
7	EXOC4	ENSG00000131558	ENST00000545148	protein_coding	KNOWN	None	30389	1755	584	133261216	133750511	1	SEC8L1	KIAA1699, MGC27170, SEC8, Sec8p
7	EXOC4	ENSG00000131558	ENST00000541309	protein_coding	KNOWN	None	30389	789	262	133615222	133749471	1	SEC8L1	KIAA1699, MGC27170, SEC8, Sec8p
9	RMRP	ENSG00000269900	ENST00000602361	lincRNA	KNOWN	None	10031	None	None	35657748	35658015	-1	CHH	RMRPR, RRP2, NME1
9	RMRP	ENSG00000269900	ENST00000363046	misc_RNA	KNOWN	None	10031	None	None	35657751	35658014	-1	CHH	RMRPR, RRP2, NME1
5	None	ENSG00000263710	ENST00000578253	miRNA	NOVEL	None	None	None	None	53078528	53078604	1	None	None
5	ASS1P9	ENSG00000217791	ENST00000513426	processed_pseudogene	KNOWN	None	772	None	None	53154996	53156231	1	ASSP9	None
5	None	ENSG00000240003	ENST00000493052	processed_pseudogene	KNOWN	None	None	None	None	79796151	79797219	1	None	None
20	RNA5SP476	ENSG00000252422	ENST00000516613	rRNA	KNOWN	None	43376	None	None	18414486	18414588	1	RN5S476	None
17	CNTNAP1	ENSG00000108797	ENST00000264638	protein_coding	KNOWN	CCDS11436	8011	4155	1384	40834631	40851832	1	NRXN4	p190, Caspr, CNTNAP
17	CNTNAP1	ENSG00000108797	ENST00000591662	nonsense_mediated_decay	KNOWN	None	8011	2223	740	40834717	40851157	1	NRXN4	p190, Caspr, CNTNAP
17	CNTNAP1	ENSG00000108797	ENST00000586801	retained_intron	KNOWN	None	8011	None	None	40839279	40840596	1	NRXN4	p190, Caspr, CNTNAP
17	CNTNAP1	ENSG00000108797	ENST00000585534	retained_intron	KNOWN	None	8011	None	None	40841796	40842939	1	NRXN4	p190, Caspr, CNTNAP
5	None	ENSG00000272416	ENST00000606482	lincRNA	KNOWN	None	None	None	None	53176123	53176881	-1	None	None
5	DBIP2	ENSG00000251366	ENST00000419076	processed_pseudogene	KNOWN	None	2691	None	None	79899202	79899463	-1	DBIL1	None
5	RNU6-272P	ENSG00000222960	ENST00000411028	snRNA	KNOWN	None	47235	None	None	53207850	53207953	-1	None	None
5	MIR581	ENSG00000207627	ENST00000384895	miRNA	KNOWN	None	32837	None	None	53247334	53247429	-1	MIRN581	hsa-mir-581
7	None	ENSG00000176349	ENST00000402221	protein_coding	PUTATIVE	None	None	663	220	1878222	1889567	1	None	None
7	None	ENSG00000176349	ENST00000480694	processed_transcript	KNOWN	None	None	None	None	1884936	1889567	1	None	None
7	None	ENSG00000176349	ENST00000318959	protein_coding	KNOWN	None	None	660	219	1878222	1889567	1	None	None
15	CSPG4P12	ENSG00000259295	ENST00000558282	transcribed_unprocessed_pseudogene	KNOWN	None	48362	None	None	85734669	85745240	1	None	None
15	CSPG4P12	ENSG00000259295	ENST00000559989	processed_transcript	KNOWN	None	48362	None	None	85739675	85757136	1	None	None
15	CSPG4P12	ENSG00000259295	ENST00000599725	unprocessed_pseudogene	KNOWN	None	48362	None	None	85734711	85736602	1	None	None
15	CSPG4P12	ENSG00000259295	ENST00000599677	unprocessed_pseudogene	KNOWN	None	48362	None	None	85741686	85744848	1	None	None
20	MIR3192	ENSG00000265137	ENST00000584920	miRNA	KNOWN	None	38202	None	None	18451259	18451335	1	None	hsa-mir-3192
5	None	ENSG00000251221	ENST00000515871	lincRNA	KNOWN	None	None	None	None	79904442	79918343	-1	None	None
5	RN7SL801P	ENSG00000241230	ENST00000479462	misc_RNA	KNOWN	None	46817	None	None	53343839	53344138	-1	None	None
5	None	ENSG00000249655	ENST00000514201	antisense	KNOWN	None	None	None	None	79926132	79927409	-1	None	None
5	None	ENSG00000248967	ENST00000506122	processed_pseudogene	KNOWN	None	None	None	None	80042158	80042638	-1	None	None
9	RN7SL22P	ENSG00000243136	ENST00000471800	misc_RNA	KNOWN	None	46038	None	None	35671773	35672039	1	None	None
3	XRN1	ENSG00000114127	ENST00000264951	protein_coding	KNOWN	CCDS3123	30654	5121	1706	142025449	142166904	-1	None	SEP1
3	XRN1	ENSG00000114127	ENST00000498077	nonsense_mediated_decay	KNOWN	None	30654	3481	1159	142028234	142131497	-1	None	SEP1
3	XRN1	ENSG00000114127	ENST00000392981	protein_coding	KNOWN	None	30654	5085	1694	142030103	142166834	-1	None	SEP1
3	XRN1	ENSG00000114127	ENST00000489241	nonsense_mediated_decay	KNOWN	None	30654	190	62	142037489	142054347	-1	None	SEP1
3	XRN1	ENSG00000114127	ENST00000468894	processed_transcript	KNOWN	None	30654	None	None	142048326	142051732	-1	None	SEP1
3	XRN1	ENSG00000114127	ENST00000467077	retained_intron	KNOWN	None	30654	None	None	142074166	142089430	-1	None	SEP1
3	XRN1	ENSG00000114127	ENST00000472625	retained_intron	KNOWN	None	30654	None	None	142089327	142094833	-1	None	SEP1
3	XRN1	ENSG00000114127	ENST00000472697	retained_intron	KNOWN	None	30654	None	None	142095091	142144377	-1	None	SEP1
3	XRN1	ENSG00000114127	ENST00000465507	retained_intron	KNOWN	None	30654	None	None	142131390	142133182	-1	None	SEP1
3	XRN1	ENSG00000114127	ENST00000463916	protein_coding	PUTATIVE	None	30654	1380	459	142136683	142166852	-1	None	SEP1
3	XRN1	ENSG00000114127	ENST00000486211	nonsense_mediated_decay	KNOWN	None	30654	324	107	142137261	142166854	-1	None	SEP1
3	XRN1	ENSG00000114127	ENST00000477237	protein_coding	PUTATIVE	None	30654	497	164	142141477	142148616	-1	None	SEP1
3	XRN1	ENSG00000114127	ENST00000470537	retained_intron	KNOWN	None	30654	None	None	142145406	142166869	-1	None	SEP1
3	XRN1	ENSG00000114127	ENST00000465074	processed_transcript	PUTATIVE	None	30654	None	None	142153855	142166870	-1	None	SEP1
3	XRN1	ENSG00000114127	ENST00000544157	protein_coding	KNOWN	None	30654	750	249	142137261	142166854	-1	None	SEP1
9	None	ENSG00000228843	ENST00000425499	antisense	KNOWN	None	None	None	None	35756709	35757937	-1	None	None
9	IFNB1	ENSG00000171855	ENST00000380232	protein_coding	KNOWN	CCDS6495	5434	564	187	21077104	21077943	-1	IFNB	IFB, IFF
5	None	ENSG00000244630	ENST00000492984	processed_pseudogene	KNOWN	None	None	None	None	80151326	80151662	-1	None	None
10	NKX6-2	ENSG00000148826	ENST00000368592	protein_coding	KNOWN	CCDS7670	19321	834	277	134598297	134599556	-1	None	NKX6B, GTX, NKX6.1
11	ADRBK1	ENSG00000173020	ENST00000308595	protein_coding	KNOWN	CCDS8156	289	2070	689	67033881	67054027	1	None	GRK2, BARK1
11	ADRBK1	ENSG00000173020	ENST00000526285	protein_coding	NOVEL	None	289	1227	408	67033952	67054007	1	None	GRK2, BARK1
11	ADRBK1	ENSG00000173020	ENST00000530291	processed_transcript	KNOWN	None	289	None	None	67038409	67046990	1	None	GRK2, BARK1
11	ADRBK1	ENSG00000173020	ENST00000416281	retained_intron	KNOWN	None	289	None	None	67044008	67054026	1	None	GRK2, BARK1
11	ADRBK1	ENSG00000173020	ENST00000529738	processed_transcript	KNOWN	None	289	None	None	67046945	67053843	1	None	GRK2, BARK1
11	ADRBK1	ENSG00000173020	ENST00000533077	retained_intron	KNOWN	None	289	None	None	67047665	67052093	1	None	GRK2, BARK1
11	ADRBK1	ENSG00000173020	ENST00000534651	processed_transcript	PUTATIVE	None	289	None	None	67048930	67049537	1	None	GRK2, BARK1
11	ADRBK1	ENSG00000173020	ENST00000532099	processed_transcript	KNOWN	None	289	None	None	67048980	67051840	1	None	GRK2, BARK1
11	ADRBK1	ENSG00000173020	ENST00000526572	retained_intron	KNOWN	None	289	None	None	67049155	67051430	1	None	GRK2, BARK1
11	ADRBK1	ENSG00000173020	ENST00000527176	processed_transcript	KNOWN	None	289	None	None	67049347	67052608	1	None	GRK2, BARK1
11	ADRBK1	ENSG00000173020	ENST00000529815	retained_intron	KNOWN	None	289	None	None	67049596	67050702	1	None	GRK2, BARK1
11	ADRBK1	ENSG00000173020	ENST00000531390	processed_transcript	KNOWN	None	289	None	None	67050252	67051642	1	None	GRK2, BARK1
11	ADRBK1	ENSG00000173020	ENST00000532611	processed_transcript	KNOWN	None	289	None	None	67050646	67051794	1	None	GRK2, BARK1
11	ADRBK1	ENSG00000173020	ENST00000524899	processed_transcript	PUTATIVE	None	289	None	None	67051742	67053062	1	None	GRK2, BARK1
15	OR4G2P	ENSG00000183909	ENST00000328113	unprocessed_pseudogene	KNOWN	None	8303	None	None	102467008	102467910	-1	OR4G7P	None
17	GRAPL	ENSG00000189152	ENST00000344415	protein_coding	KNOWN	CCDS45627	37240	357	118	19030782	19062489	1	None	None
17	GRAPL	ENSG00000189152	ENST00000577213	protein_coding	PUTATIVE	None	37240	303	100	19030848	19042383	1	None	None
17	GRAPL	ENSG00000189152	ENST00000437957	protein_coding	PUTATIVE	None	37240	212	69	19035366	19041901	1	None	None
17	GRAPL	ENSG00000189152	ENST00000574324	protein_coding	PUTATIVE	None	37240	196	64	19036032	19062313	1	None	None
17	GRAPL	ENSG00000189152	ENST00000583540	nonsense_mediated_decay	KNOWN	None	37240	53	16	19041862	19062096	1	None	None
X	RNU6-1124P	ENSG00000206896	ENST00000384169	snRNA	KNOWN	None	48087	None	None	42033532	42033638	-1	None	None
5	None	ENSG00000251450	ENST00000505694	antisense	KNOWN	None	None	None	None	80243516	80256726	-1	None	None
5	None	ENSG00000251450	ENST00000505107	antisense	KNOWN	None	None	None	None	80246948	80248799	-1	None	None
X	None	ENSG00000231772	ENST00000411879	processed_transcript	KNOWN	None	None	None	None	42111712	42558542	1	None	None
X	None	ENSG00000231772	ENST00000440002	processed_transcript	KNOWN	None	None	None	None	42315830	42558636	1	None	None
21	CXADR	ENSG00000154639	ENST00000284878	protein_coding	KNOWN	CCDS33519	2559	1098	365	18884700	18942418	1	None	CAR
21	CXADR	ENSG00000154639	ENST00000400166	protein_coding	KNOWN	CCDS56205	2559	759	252	18885364	18938170	1	None	CAR
21	CXADR	ENSG00000154639	ENST00000356275	protein_coding	NOVEL	CCDS56207	2559	270	89	18885448	18937805	1	None	CAR
21	CXADR	ENSG00000154639	ENST00000400165	protein_coding	KNOWN	CCDS56206	2559	603	200	18885448	18937933	1	None	CAR
21	CXADR	ENSG00000154639	ENST00000400169	protein_coding	KNOWN	CCDS56204	2559	1059	352	18885448	18965897	1	None	CAR
21	CXADR	ENSG00000154639	ENST00000306618	protein_coding	KNOWN	None	2559	975	324	18885448	18938010	1	None	CAR
11	BCO2	ENSG00000197580	ENST00000357685	protein_coding	KNOWN	CCDS8358	18503	1740	579	112046190	112089652	1	BCDO2	FLJ34464, B-DIOX-II
11	BCO2	ENSG00000197580	ENST00000460924	retained_intron	KNOWN	None	18503	None	None	112046233	112088864	1	BCDO2	FLJ34464, B-DIOX-II
11	BCO2	ENSG00000197580	ENST00000461480	retained_intron	KNOWN	None	18503	None	None	112046235	112050568	1	BCDO2	FLJ34464, B-DIOX-II
11	BCO2	ENSG00000197580	ENST00000534550	nonsense_mediated_decay	KNOWN	None	18503	153	50	112046239	112071377	1	BCDO2	FLJ34464, B-DIOX-II
11	BCO2	ENSG00000197580	ENST00000361053	protein_coding	NOVEL	CCDS58181	18503	1521	506	112046245	112088864	1	BCDO2	FLJ34464, B-DIOX-II
11	BCO2	ENSG00000197580	ENST00000531003	nonsense_mediated_decay	KNOWN	None	18503	297	98	112046255	112064240	1	BCDO2	FLJ34464, B-DIOX-II
11	BCO2	ENSG00000197580	ENST00000494860	retained_intron	KNOWN	None	18503	None	None	112046268	112086460	1	BCDO2	FLJ34464, B-DIOX-II
11	BCO2	ENSG00000197580	ENST00000527939	nonsense_mediated_decay	KNOWN	None	18503	153	50	112046269	112071496	1	BCDO2	FLJ34464, B-DIOX-II
11	BCO2	ENSG00000197580	ENST00000534122	retained_intron	KNOWN	None	18503	None	None	112046479	112064509	1	BCDO2	FLJ34464, B-DIOX-II
11	BCO2	ENSG00000197580	ENST00000438022	protein_coding	KNOWN	CCDS41716	18503	1638	545	112046479	112088840	1	BCDO2	FLJ34464, B-DIOX-II
11	BCO2	ENSG00000197580	ENST00000526088	protein_coding	KNOWN	CCDS58182	18503	1620	539	112047094	112088858	1	BCDO2	FLJ34464, B-DIOX-II
11	BCO2	ENSG00000197580	ENST00000532593	protein_coding	PUTATIVE	CCDS58183	18503	1425	474	112047098	112088713	1	BCDO2	FLJ34464, B-DIOX-II
11	BCO2	ENSG00000197580	ENST00000531169	protein_coding	KNOWN	CCDS41716	18503	1638	545	112047123	112095422	1	BCDO2	FLJ34464, B-DIOX-II
11	BCO2	ENSG00000197580	ENST00000530677	protein_coding	NOVEL	None	18503	817	271	112064197	112085667	1	BCDO2	FLJ34464, B-DIOX-II
11	BCO2	ENSG00000197580	ENST00000527198	retained_intron	KNOWN	None	18503	None	None	112071098	112072887	1	BCDO2	FLJ34464, B-DIOX-II
11	BCO2	ENSG00000197580	ENST00000525175	protein_coding	PUTATIVE	None	18503	215	70	112084565	112088842	1	BCDO2	FLJ34464, B-DIOX-II
11	BCO2	ENSG00000197580	ENST00000532716	retained_intron	KNOWN	None	18503	None	None	112085440	112088855	1	BCDO2	FLJ34464, B-DIOX-II
11	BCO2	ENSG00000197580	ENST00000532673	retained_intron	KNOWN	None	18503	None	None	112086832	112088880	1	BCDO2	FLJ34464, B-DIOX-II
11	BCO2	ENSG00000197580	ENST00000393032	protein_coding	KNOWN	CCDS41716	18503	1638	545	112046208	112089643	1	BCDO2	FLJ34464, B-DIOX-II
15	FAM138E	ENSG00000248893	ENST00000507796	lincRNA	KNOWN	None	32335	None	None	102495088	102496615	1	None	F379
15	FAM138E	ENSG00000248893	ENST00000559252	lincRNA	KNOWN	None	32335	None	None	102495096	102495924	1	None	F379
11	ALKBH3	ENSG00000166199	ENST00000532962	nonsense_mediated_decay	KNOWN	None	30141	516	171	43902361	43941560	1	None	DEPC-1
11	ALKBH3	ENSG00000166199	ENST00000527029	retained_intron	KNOWN	None	30141	None	None	43902381	43904352	1	None	DEPC-1
11	ALKBH3	ENSG00000166199	ENST00000302708	protein_coding	KNOWN	CCDS7906	30141	861	286	43902389	43941762	1	None	DEPC-1
11	ALKBH3	ENSG00000166199	ENST00000534171	nonsense_mediated_decay	KNOWN	None	30141	201	66	43902400	43923094	1	None	DEPC-1
11	ALKBH3	ENSG00000166199	ENST00000524742	protein_coding	KNOWN	None	30141	180	59	43902405	43904735	1	None	DEPC-1
11	ALKBH3	ENSG00000166199	ENST00000530803	nonsense_mediated_decay	KNOWN	None	30141	513	170	43902424	43941816	1	None	DEPC-1
11	ALKBH3	ENSG00000166199	ENST00000529366	protein_coding	NOVEL	None	30141	671	222	43904127	43940592	1	None	DEPC-1
11	ALKBH3	ENSG00000166199	ENST00000533200	processed_transcript	KNOWN	None	30141	None	None	43904131	43919250	1	None	DEPC-1
11	ALKBH3	ENSG00000166199	ENST00000530754	retained_intron	KNOWN	None	30141	None	None	43904632	43923264	1	None	DEPC-1
11	ALKBH3	ENSG00000166199	ENST00000532410	processed_transcript	KNOWN	None	30141	None	None	43904633	43941723	1	None	DEPC-1
11	ALKBH3	ENSG00000166199	ENST00000532129	protein_coding	NOVEL	None	30141	469	155	43911312	43941816	1	None	DEPC-1
11	ALKBH3	ENSG00000166199	ENST00000529434	retained_intron	KNOWN	None	30141	None	None	43940354	43941816	1	None	DEPC-1
11	ALKBH3	ENSG00000166199	ENST00000378840	protein_coding	KNOWN	None	30141	513	170	43902395	43918890	1	None	DEPC-1
9	IFNW1	ENSG00000177047	ENST00000380229	protein_coding	KNOWN	CCDS6496	5448	588	195	21140631	21142144	-1	None	None
19	MVB12A	ENSG00000141971	ENST00000528911	protein_coding	PUTATIVE	None	25153	364	120	17516531	17534608	1	FAM125A	FLJ32495
19	MVB12A	ENSG00000141971	ENST00000528604	protein_coding	PUTATIVE	None	25153	401	132	17516550	17535798	1	FAM125A	FLJ32495
19	MVB12A	ENSG00000141971	ENST00000529490	processed_transcript	PUTATIVE	None	25153	None	None	17516918	17530939	1	FAM125A	FLJ32495
19	MVB12A	ENSG00000141971	ENST00000600514	protein_coding	PUTATIVE	None	25153	364	120	17516954	17534608	1	FAM125A	FLJ32495
19	MVB12A	ENSG00000141971	ENST00000317040	protein_coding	KNOWN	CCDS12359	25153	822	273	17529890	17536141	1	FAM125A	FLJ32495
19	MVB12A	ENSG00000141971	ENST00000528659	protein_coding	PUTATIVE	None	25153	422	139	17530856	17531905	1	FAM125A	FLJ32495
19	MVB12A	ENSG00000141971	ENST00000528997	retained_intron	KNOWN	None	25153	None	None	17530857	17531855	1	FAM125A	FLJ32495
19	MVB12A	ENSG00000141971	ENST00000528732	retained_intron	KNOWN	None	25153	None	None	17530873	17531529	1	FAM125A	FLJ32495
19	MVB12A	ENSG00000141971	ENST00000529939	protein_coding	PUTATIVE	None	25153	822	273	17530881	17544533	1	FAM125A	FLJ32495
19	MVB12A	ENSG00000141971	ENST00000528515	protein_coding	PUTATIVE	None	25153	600	199	17530891	17535486	1	FAM125A	FLJ32495
19	MVB12A	ENSG00000141971	ENST00000526234	retained_intron	KNOWN	None	25153	None	None	17530931	17533774	1	FAM125A	FLJ32495
19	MVB12A	ENSG00000141971	ENST00000524382	retained_intron	KNOWN	None	25153	None	None	17533094	17536127	1	FAM125A	FLJ32495
19	MVB12A	ENSG00000141971	ENST00000594784	protein_coding	NOVEL	None	25153	367	121	17533253	17536140	1	FAM125A	FLJ32495
19	MVB12A	ENSG00000141971	ENST00000392702	protein_coding	KNOWN	None	25153	702	233	17530856	17536140	1	FAM125A	FLJ32495
19	MVB12A	ENSG00000141971	ENST00000543795	protein_coding	KNOWN	CCDS12359	25153	822	273	17530920	17536141	1	FAM125A	FLJ32495
5	RBM27	ENSG00000091009	ENST00000506502	protein_coding	PUTATIVE	None	29243	3084	1027	145583113	145718814	1	None	KIAA1311, ARRS1, Psc1, ZC3H18
5	RBM27	ENSG00000091009	ENST00000265271	protein_coding	KNOWN	CCDS43378	29243	3183	1060	145583163	145668695	1	None	KIAA1311, ARRS1, Psc1, ZC3H18
5	RBM27	ENSG00000091009	ENST00000508019	retained_intron	KNOWN	None	29243	None	None	145640946	145643082	1	None	KIAA1311, ARRS1, Psc1, ZC3H18
7	FTSJ2	ENSG00000122687	ENST00000467199	processed_transcript	KNOWN	None	16352	None	None	2273866	2281804	-1	None	FJH1, MRM2
7	FTSJ2	ENSG00000122687	ENST00000242257	protein_coding	KNOWN	CCDS5328	16352	741	246	2273926	2281833	-1	None	FJH1, MRM2
7	FTSJ2	ENSG00000122687	ENST00000486040	processed_transcript	KNOWN	None	16352	None	None	2273930	2281824	-1	None	FJH1, MRM2
7	FTSJ2	ENSG00000122687	ENST00000407040	protein_coding	PUTATIVE	None	16352	459	152	2274682	2278879	-1	None	FJH1, MRM2
7	FTSJ2	ENSG00000122687	ENST00000440306	protein_coding	KNOWN	None	16352	438	145	2274010	2281840	-1	None	FJH1, MRM2
20	RPL21P3	ENSG00000225419	ENST00000395517	processed_pseudogene	KNOWN	None	16533	None	None	18465909	18466696	1	None	bA189K21.4
9	IFNA21	ENSG00000137080	ENST00000380225	protein_coding	KNOWN	CCDS6497	5424	570	189	21165636	21166659	-1	None	IFN-alphaI
HSCHR6_MHC_APD	TAP2	ENSG00000225967	ENST00000439425	protein_coding	KNOWN	None	44	1962	653	32773366	32790109	-1	ABCB3	PSF2, RING11, D6S217E
HSCHR6_MHC_APD	TAP2	ENSG00000225967	ENST00000455842	protein_coding	KNOWN	None	44	2112	703	32776973	32790162	-1	ABCB3	PSF2, RING11, D6S217E
HSCHR6_MHC_APD	TAP2	ENSG00000225967	ENST00000495854	retained_intron	KNOWN	None	44	None	None	32780329	32782112	-1	ABCB3	PSF2, RING11, D6S217E
HSCHR6_MHC_APD	TAP2	ENSG00000225967	ENST00000490587	processed_transcript	PUTATIVE	None	44	None	None	32783680	32784118	-1	ABCB3	PSF2, RING11, D6S217E
X	PPP1R2P9	ENSG00000102055	ENST00000378131	processed_pseudogene	KNOWN	None	16324	None	None	42636722	42637330	-1	None	I-4
4	TUBB8P3	ENSG00000250307	ENST00000510182	processed_pseudogene	KNOWN	None	42338	None	None	112998754	112999556	1	None	None
X	None	ENSG00000270280	ENST00000605596	processed_pseudogene	KNOWN	None	None	None	None	42859423	42859645	1	None	None
9	IFNA4	ENSG00000236637	ENST00000421715	protein_coding	KNOWN	CCDS6498	5425	570	189	21186617	21187598	-1	None	MGC142200, IFN-alpha4a
9	TXN	ENSG00000136810	ENST00000374515	protein_coding	KNOWN	CCDS59139	12435	258	85	113006091	113018746	-1	None	TRX
9	TXN	ENSG00000136810	ENST00000374517	protein_coding	KNOWN	CCDS35103	12435	318	105	113006091	113018920	-1	None	TRX
9	TXN	ENSG00000136810	ENST00000487892	processed_transcript	KNOWN	None	12435	None	None	113006299	113007396	-1	None	TRX
X	None	ENSG00000224294	ENST00000440955	lincRNA	KNOWN	None	None	None	None	43036243	43085847	1	None	None
12	RAB35	ENSG00000111737	ENST00000229340	protein_coding	KNOWN	CCDS41846	9774	606	201	120532899	120554643	-1	None	H-ray
12	RAB35	ENSG00000111737	ENST00000544304	nonsense_mediated_decay	KNOWN	None	9774	444	147	120534170	120555306	-1	None	H-ray
12	RAB35	ENSG00000111737	ENST00000534951	protein_coding	NOVEL	CCDS53836	9774	459	152	120534708	120554571	-1	None	H-ray
12	RAB35	ENSG00000111737	ENST00000538903	protein_coding	NOVEL	None	9774	557	184	120535050	120554540	-1	None	H-ray
12	RAB35	ENSG00000111737	ENST00000543364	processed_transcript	KNOWN	None	9774	None	None	120535070	120537266	-1	None	H-ray
12	RAB35	ENSG00000111737	ENST00000540803	retained_intron	KNOWN	None	9774	None	None	120536752	120554571	-1	None	H-ray
12	RAB35	ENSG00000111737	ENST00000432953	protein_coding	KNOWN	None	9774	831	276	120533927	120536894	-1	None	H-ray
14	SERPINA6	ENSG00000170099	ENST00000555056	nonsense_mediated_decay	KNOWN	None	1540	837	278	94770585	94789656	-1	CBG	None
14	SERPINA6	ENSG00000170099	ENST00000341584	protein_coding	KNOWN	CCDS9924	1540	1218	405	94770586	94789731	-1	CBG	None
14	SERPINA6	ENSG00000170099	ENST00000557225	protein_coding	KNOWN	None	1540	409	135	94780577	94789726	-1	CBG	None
20	MTG2	ENSG00000101181	ENST00000466933	processed_transcript	KNOWN	None	16239	None	None	60758085	60769109	1	GTPBP5	FLJ10741, dJ1005F21.2, ObgH1
20	MTG2	ENSG00000101181	ENST00000471352	processed_transcript	KNOWN	None	16239	None	None	60758098	60773319	1	GTPBP5	FLJ10741, dJ1005F21.2, ObgH1
20	MTG2	ENSG00000101181	ENST00000467101	nonsense_mediated_decay	KNOWN	None	16239	420	139	60758100	60777823	1	GTPBP5	FLJ10741, dJ1005F21.2, ObgH1
20	MTG2	ENSG00000101181	ENST00000370823	protein_coding	KNOWN	CCDS13492	16239	1221	406	60758101	60777823	1	GTPBP5	FLJ10741, dJ1005F21.2, ObgH1
20	MTG2	ENSG00000101181	ENST00000448254	protein_coding	KNOWN	None	16239	699	232	60758107	60774186	1	GTPBP5	FLJ10741, dJ1005F21.2, ObgH1
20	MTG2	ENSG00000101181	ENST00000472005	processed_transcript	KNOWN	None	16239	None	None	60768587	60775807	1	GTPBP5	FLJ10741, dJ1005F21.2, ObgH1
20	MTG2	ENSG00000101181	ENST00000466099	processed_transcript	KNOWN	None	16239	None	None	60768654	60775260	1	GTPBP5	FLJ10741, dJ1005F21.2, ObgH1
20	MTG2	ENSG00000101181	ENST00000461411	processed_transcript	KNOWN	None	16239	None	None	60772271	60773909	1	GTPBP5	FLJ10741, dJ1005F21.2, ObgH1
20	MTG2	ENSG00000101181	ENST00000471962	processed_transcript	KNOWN	None	16239	None	None	60773734	60775322	1	GTPBP5	FLJ10741, dJ1005F21.2, ObgH1
20	MTG2	ENSG00000101181	ENST00000488748	processed_transcript	KNOWN	None	16239	None	None	60777795	60778624	1	GTPBP5	FLJ10741, dJ1005F21.2, ObgH1
20	MTG2	ENSG00000101181	ENST00000436421	protein_coding	KNOWN	None	16239	747	248	60758098	60776912	1	GTPBP5	FLJ10741, dJ1005F21.2, ObgH1
20	MTG2	ENSG00000101181	ENST00000536470	protein_coding	KNOWN	None	16239	537	178	60758093	60776522	1	GTPBP5	FLJ10741, dJ1005F21.2, ObgH1
4	None	ENSG00000240459	ENST00000497190	processed_pseudogene	KNOWN	None	None	None	None	113037666	113038059	-1	None	None
X	IMPDH1P4	ENSG00000237206	ENST00000445028	processed_pseudogene	KNOWN	None	33959	None	None	43137374	43138907	-1	None	None
12	MGAT4C	ENSG00000182050	ENST00000604798	protein_coding	KNOWN	CCDS9030	30871	1437	478	86372516	86650045	-1	None	HGNT-IV-H
12	MGAT4C	ENSG00000182050	ENST00000549405	protein_coding	KNOWN	CCDS9030	30871	1437	478	86372524	87232662	-1	None	HGNT-IV-H
12	MGAT4C	ENSG00000182050	ENST00000552808	protein_coding	KNOWN	CCDS9030	30871	1437	478	86372791	86650083	-1	None	HGNT-IV-H
12	MGAT4C	ENSG00000182050	ENST00000548651	protein_coding	KNOWN	CCDS9030	30871	1437	478	86373037	86443501	-1	None	HGNT-IV-H
12	MGAT4C	ENSG00000182050	ENST00000547225	protein_coding	KNOWN	None	30871	1193	396	86373311	86650094	-1	None	HGNT-IV-H
12	MGAT4C	ENSG00000182050	ENST00000552435	protein_coding	PUTATIVE	None	30871	336	111	86373514	86650158	-1	None	HGNT-IV-H
12	MGAT4C	ENSG00000182050	ENST00000602941	processed_transcript	KNOWN	None	30871	None	None	86396130	86995081	-1	None	HGNT-IV-H
12	MGAT4C	ENSG00000182050	ENST00000550365	processed_transcript	KNOWN	None	30871	None	None	86405578	86650192	-1	None	HGNT-IV-H
12	MGAT4C	ENSG00000182050	ENST00000551921	processed_transcript	KNOWN	None	30871	None	None	86443453	87232681	-1	None	HGNT-IV-H
12	MGAT4C	ENSG00000182050	ENST00000551751	processed_transcript	KNOWN	None	30871	None	None	86461869	86650101	-1	None	HGNT-IV-H
12	MGAT4C	ENSG00000182050	ENST00000393205	protein_coding	KNOWN	None	30871	1524	507	86372516	86421962	-1	None	HGNT-IV-H
12	MGAT4C	ENSG00000182050	ENST00000332156	protein_coding	KNOWN	CCDS9030	30871	1437	478	86372516	86443515	-1	None	HGNT-IV-H
5	MIR4459	ENSG00000265421	ENST00000581837	miRNA	KNOWN	None	41551	None	None	53371348	53371413	-1	None	hsa-mir-4459
X	NANOGP10	ENSG00000231750	ENST00000453325	processed_pseudogene	KNOWN	None	23108	None	None	43266914	43267808	-1	None	None
4	None	ENSG00000243280	ENST00000484625	processed_pseudogene	KNOWN	None	None	None	None	113092371	113092683	1	None	None
22	C22orf46	ENSG00000184208	ENST00000472110	processed_transcript	KNOWN	None	26294	None	None	42084943	42089855	1	None	FLJ23584, CTA-216E10.6
22	C22orf46	ENSG00000184208	ENST00000402966	protein_coding	KNOWN	CCDS46717	26294	732	243	42086547	42094140	1	None	FLJ23584, CTA-216E10.6
5	None	ENSG00000249069	ENST00000523194	lincRNA	KNOWN	None	None	None	None	53616774	53710955	1	None	None
5	None	ENSG00000249069	ENST00000517934	lincRNA	KNOWN	None	None	None	None	53618711	53697735	1	None	None
5	None	ENSG00000249069	ENST00000512618	lincRNA	KNOWN	None	None	None	None	53686668	53697659	1	None	None
5	None	ENSG00000249069	ENST00000504609	lincRNA	KNOWN	None	None	None	None	53691181	53710929	1	None	None
19	LILRB2	ENSG00000131042	ENST00000391748	protein_coding	NOVEL	CCDS42612	6606	1794	597	54777675	54784738	-1	None	LIR-2, ILT4, MIR-10, LIR2, CD85d, MIR10
19	LILRB2	ENSG00000131042	ENST00000314446	protein_coding	NOVEL	CCDS42612	6606	1794	597	54778206	54785039	-1	None	LIR-2, ILT4, MIR-10, LIR2, CD85d, MIR10
19	LILRB2	ENSG00000131042	ENST00000455108	nonsense_mediated_decay	KNOWN	None	6606	632	209	54778320	54782398	-1	None	LIR-2, ILT4, MIR-10, LIR2, CD85d, MIR10
19	LILRB2	ENSG00000131042	ENST00000391746	protein_coding	PUTATIVE	None	6606	1533	510	54778320	54784353	-1	None	LIR-2, ILT4, MIR-10, LIR2, CD85d, MIR10
19	LILRB2	ENSG00000131042	ENST00000493242	retained_intron	KNOWN	None	6606	None	None	54778320	54784952	-1	None	LIR-2, ILT4, MIR-10, LIR2, CD85d, MIR10
19	LILRB2	ENSG00000131042	ENST00000391749	protein_coding	KNOWN	CCDS12886	6606	1797	598	54778320	54785039	-1	None	LIR-2, ILT4, MIR-10, LIR2, CD85d, MIR10
19	LILRB2	ENSG00000131042	ENST00000471216	processed_transcript	PUTATIVE	None	6606	None	None	54783705	54784316	-1	None	LIR-2, ILT4, MIR-10, LIR2, CD85d, MIR10
19	LILRB2	ENSG00000131042	ENST00000434421	protein_coding	KNOWN	None	6606	1449	482	54778322	54785011	-1	None	LIR-2, ILT4, MIR-10, LIR2, CD85d, MIR10
X	NDP-AS1	ENSG00000236276	ENST00000435093	antisense	KNOWN	None	40395	None	None	43808978	43828866	1	None	None
17	KANSL1	ENSG00000120071	ENST00000572218	retained_intron	KNOWN	None	24565	None	None	44107282	44123487	-1	KIAA1267	DKFZP727C091, MSL1v1, CENP-36, NSL1
17	KANSL1	ENSG00000120071	ENST00000574590	protein_coding	KNOWN	CCDS11503	24565	3318	1105	44107282	44301174	-1	KIAA1267	DKFZP727C091, MSL1v1, CENP-36, NSL1
17	KANSL1	ENSG00000120071	ENST00000576870	retained_intron	KNOWN	None	24565	None	None	44107284	44117431	-1	KIAA1267	DKFZP727C091, MSL1v1, CENP-36, NSL1
17	KANSL1	ENSG00000120071	ENST00000575318	protein_coding	NOVEL	None	24565	3126	1041	44107291	44249543	-1	KIAA1267	DKFZP727C091, MSL1v1, CENP-36, NSL1
17	KANSL1	ENSG00000120071	ENST00000572904	protein_coding	KNOWN	CCDS11503	24565	3318	1105	44107319	44270272	-1	KIAA1267	DKFZP727C091, MSL1v1, CENP-36, NSL1
17	KANSL1	ENSG00000120071	ENST00000262419	protein_coding	KNOWN	CCDS11503	24565	3318	1105	44107322	44270166	-1	KIAA1267	DKFZP727C091, MSL1v1, CENP-36, NSL1
17	KANSL1	ENSG00000120071	ENST00000574963	retained_intron	KNOWN	None	24565	None	None	44108440	44109932	-1	KIAA1267	DKFZP727C091, MSL1v1, CENP-36, NSL1
17	KANSL1	ENSG00000120071	ENST00000573682	retained_intron	KNOWN	None	24565	None	None	44109531	44110878	-1	KIAA1267	DKFZP727C091, MSL1v1, CENP-36, NSL1
17	KANSL1	ENSG00000120071	ENST00000576137	retained_intron	KNOWN	None	24565	None	None	44110465	44116083	-1	KIAA1267	DKFZP727C091, MSL1v1, CENP-36, NSL1
17	KANSL1	ENSG00000120071	ENST00000573286	retained_intron	KNOWN	None	24565	None	None	44115389	44116640	-1	KIAA1267	DKFZP727C091, MSL1v1, CENP-36, NSL1
17	KANSL1	ENSG00000120071	ENST00000572679	retained_intron	KNOWN	None	24565	None	None	44116025	44116916	-1	KIAA1267	DKFZP727C091, MSL1v1, CENP-36, NSL1
17	KANSL1	ENSG00000120071	ENST00000577114	retained_intron	KNOWN	None	24565	None	None	44127703	44248306	-1	KIAA1267	DKFZP727C091, MSL1v1, CENP-36, NSL1
17	KANSL1	ENSG00000120071	ENST00000576248	processed_transcript	KNOWN	None	24565	None	None	44230270	44248485	-1	KIAA1267	DKFZP727C091, MSL1v1, CENP-36, NSL1
17	KANSL1	ENSG00000120071	ENST00000574655	protein_coding	KNOWN	None	24565	417	138	44249093	44302733	-1	KIAA1267	DKFZP727C091, MSL1v1, CENP-36, NSL1
17	KANSL1	ENSG00000120071	ENST00000571698	protein_coding	KNOWN	None	24565	367	121	44249143	44271245	-1	KIAA1267	DKFZP727C091, MSL1v1, CENP-36, NSL1
17	KANSL1	ENSG00000120071	ENST00000576739	protein_coding	KNOWN	None	24565	27	8	44249483	44302080	-1	KIAA1267	DKFZP727C091, MSL1v1, CENP-36, NSL1
17	KANSL1	ENSG00000120071	ENST00000432791	protein_coding	KNOWN	CCDS11503	24565	3318	1105	44107334	44249594	-1	KIAA1267	DKFZP727C091, MSL1v1, CENP-36, NSL1
17	KANSL1	ENSG00000120071	ENST00000393476	protein_coding	KNOWN	None	24565	1200	399	44107334	44270166	-1	KIAA1267	DKFZP727C091, MSL1v1, CENP-36, NSL1
6	None	ENSG00000236548	ENST00000439075	antisense	KNOWN	None	None	None	None	125230239	125284185	-1	None	None
2	SRBD1	ENSG00000068784	ENST00000263736	protein_coding	KNOWN	CCDS1823	25521	2988	995	45615819	45838420	-1	None	FLJ10379
2	SRBD1	ENSG00000068784	ENST00000490133	processed_transcript	KNOWN	None	25521	None	None	45615915	45675234	-1	None	FLJ10379
2	SRBD1	ENSG00000068784	ENST00000475073	processed_transcript	KNOWN	None	25521	None	None	45645594	45776211	-1	None	FLJ10379
2	SRBD1	ENSG00000068784	ENST00000493649	processed_transcript	KNOWN	None	25521	None	None	45773871	45795160	-1	None	FLJ10379
2	SRBD1	ENSG00000068784	ENST00000461805	processed_transcript	KNOWN	None	25521	None	None	45829061	45839304	-1	None	FLJ10379
2	SRBD1	ENSG00000068784	ENST00000535761	protein_coding	KNOWN	None	25521	1545	514	45616232	45795154	-1	None	FLJ10379
5	None	ENSG00000251597	ENST00000507308	processed_pseudogene	KNOWN	None	None	None	None	53695269	53695863	1	None	None
15	None	ENSG00000205148	ENST00000378936	protein_coding	KNOWN	None	None	381	126	96831280	96831660	-1	None	None
10	ARL3	ENSG00000138175	ENST00000260746	protein_coding	KNOWN	CCDS7538	694	549	182	104433488	104474164	-1	None	ARFL3
9	None	ENSG00000227388	ENST00000574939	lincRNA	KNOWN	None	None	None	None	35772160	35780595	1	None	None
9	None	ENSG00000227388	ENST00000431981	lincRNA	KNOWN	None	None	None	None	35772308	35790429	1	None	None
5	None	ENSG00000232517	ENST00000426589	unitary_pseudogene	KNOWN	None	None	None	None	54104038	54168379	-1	None	None
17	PPM1D	ENSG00000170836	ENST00000305921	protein_coding	KNOWN	CCDS11625	9277	1818	605	58677544	58741849	1	None	Wip1, PP2C-DELTA
17	PPM1D	ENSG00000170836	ENST00000392995	nonsense_mediated_decay	KNOWN	None	9277	1293	430	58677630	58741834	1	None	Wip1, PP2C-DELTA
17	PPM1D	ENSG00000170836	ENST00000590418	protein_coding	PUTATIVE	None	9277	377	124	58681955	58711318	1	None	Wip1, PP2C-DELTA
9	None	ENSG00000263448	ENST00000582432	miRNA	NOVEL	None	None	None	None	35811473	35811547	-1	None	None
11	NFRKB	ENSG00000170322	ENST00000446488	protein_coding	KNOWN	CCDS44770	7802	3900	1299	129733531	129764336	-1	None	DKFZp547B2013, INO80G
11	NFRKB	ENSG00000170322	ENST00000524794	protein_coding	KNOWN	CCDS8483	7802	3975	1324	129734365	129762904	-1	None	DKFZp547B2013, INO80G
11	NFRKB	ENSG00000170322	ENST00000524746	protein_coding	PUTATIVE	CCDS44770	7802	3900	1299	129734599	129764336	-1	None	DKFZp547B2013, INO80G
11	NFRKB	ENSG00000170322	ENST00000531755	protein_coding	PUTATIVE	None	7802	2962	986	129739988	129764336	-1	None	DKFZp547B2013, INO80G
11	NFRKB	ENSG00000170322	ENST00000532147	retained_intron	KNOWN	None	7802	None	None	129742484	129743712	-1	None	DKFZp547B2013, INO80G
11	NFRKB	ENSG00000170322	ENST00000530278	nonsense_mediated_decay	KNOWN	None	7802	443	146	129754639	129765485	-1	None	DKFZp547B2013, INO80G
11	NFRKB	ENSG00000170322	ENST00000532225	protein_coding	PUTATIVE	None	7802	564	187	129755406	129765479	-1	None	DKFZp547B2013, INO80G
11	NFRKB	ENSG00000170322	ENST00000529319	protein_coding	PUTATIVE	None	7802	564	187	129755406	129765479	-1	None	DKFZp547B2013, INO80G
11	NFRKB	ENSG00000170322	ENST00000526940	protein_coding	PUTATIVE	None	7802	369	122	129758208	129762771	-1	None	DKFZp547B2013, INO80G
11	NFRKB	ENSG00000170322	ENST00000526884	protein_coding	PUTATIVE	None	7802	276	91	129758550	129765452	-1	None	DKFZp547B2013, INO80G
11	NFRKB	ENSG00000170322	ENST00000531318	protein_coding	PUTATIVE	None	7802	140	45	129762605	129764170	-1	None	DKFZp547B2013, INO80G
11	NFRKB	ENSG00000170322	ENST00000304521	protein_coding	KNOWN	CCDS44770	7802	3900	1299	129733671	129762904	-1	None	DKFZp547B2013, INO80G
20	RTEL1-TNFRSF6B	ENSG00000026036	ENST00000492259	nonsense_mediated_decay	KNOWN	None	44095	2358	785	62290653	62330037	1	None	None
20	RTEL1-TNFRSF6B	ENSG00000026036	ENST00000482936	nonsense_mediated_decay	KNOWN	None	44095	4203	1400	62290756	62330037	1	None	None
20	RTEL1-TNFRSF6B	ENSG00000026036	ENST00000480273	retained_intron	KNOWN	None	44095	None	None	62317724	62330037	1	None	None
20	RTEL1-TNFRSF6B	ENSG00000026036	ENST00000496281	retained_intron	KNOWN	None	44095	None	None	62320314	62330033	1	None	None
9	OR13E1P	ENSG00000236083	ENST00000417104	processed_pseudogene	KNOWN	None	15107	None	None	35859059	35859980	-1	OR13E2	OST741
20	NCOA6	ENSG00000198646	ENST00000434040	processed_transcript	KNOWN	None	15936	None	None	33284722	33302432	-1	None	KIAA0181, RAP250, ASC2, AIB3, PRIP, TRBP, NRC
20	NCOA6	ENSG00000198646	ENST00000593786	processed_transcript	KNOWN	None	15936	None	None	33284945	33302960	-1	None	KIAA0181, RAP250, ASC2, AIB3, PRIP, TRBP, NRC
20	NCOA6	ENSG00000198646	ENST00000374796	protein_coding	KNOWN	CCDS13241	15936	6192	2063	33302578	33409442	-1	None	KIAA0181, RAP250, ASC2, AIB3, PRIP, TRBP, NRC
20	NCOA6	ENSG00000198646	ENST00000359003	protein_coding	KNOWN	CCDS13241	15936	6192	2063	33302578	33413452	-1	None	KIAA0181, RAP250, ASC2, AIB3, PRIP, TRBP, NRC
20	NCOA6	ENSG00000198646	ENST00000471897	retained_intron	KNOWN	None	15936	None	None	33302871	33320772	-1	None	KIAA0181, RAP250, ASC2, AIB3, PRIP, TRBP, NRC
1	None	ENSG00000117598	ENST00000370188	protein_coding	KNOWN	CCDS30779	None	951	316	99355806	99470588	-1	None	None
1	None	ENSG00000117598	ENST00000263177	protein_coding	KNOWN	CCDS30778	None	966	321	99356528	99470449	-1	None	None
1	None	ENSG00000117598	ENST00000534652	processed_transcript	PUTATIVE	None	None	None	None	99456412	99470040	-1	None	None
19	ZNF628	ENSG00000197483	ENST00000598519	protein_coding	KNOWN	CCDS33116	28054	3180	1059	55987699	55995854	1	None	ZEC, Zfp628
19	ZNF628	ENSG00000197483	ENST00000591164	protein_coding	NOVEL	None	28054	305	100	55988013	55992877	1	None	ZEC, Zfp628
19	ZNF628	ENSG00000197483	ENST00000391718	protein_coding	KNOWN	None	28054	3168	1055	55987699	55995854	1	None	ZEC, Zfp628
1	SELE	ENSG00000007908	ENST00000367775	protein_coding	KNOWN	None	10718	1458	485	169691782	169702800	-1	ELAM1, ELAM	ESEL, CD62E
1	SELE	ENSG00000007908	ENST00000367777	protein_coding	KNOWN	None	10718	1644	547	169691782	169702801	-1	ELAM1, ELAM	ESEL, CD62E
1	SELE	ENSG00000007908	ENST00000367776	protein_coding	KNOWN	None	10718	1644	547	169691782	169702801	-1	ELAM1, ELAM	ESEL, CD62E
1	SELE	ENSG00000007908	ENST00000333360	protein_coding	KNOWN	CCDS1283	10718	1833	610	169691782	169703203	-1	ELAM1, ELAM	ESEL, CD62E
1	SELE	ENSG00000007908	ENST00000367774	protein_coding	KNOWN	None	10718	1455	484	169694870	169702801	-1	ELAM1, ELAM	ESEL, CD62E
1	SELE	ENSG00000007908	ENST00000461085	processed_transcript	PUTATIVE	None	10718	None	None	169700632	169701859	-1	ELAM1, ELAM	ESEL, CD62E
1	SELE	ENSG00000007908	ENST00000367781	protein_coding	KNOWN	None	10718	1644	547	169691781	169703220	-1	ELAM1, ELAM	ESEL, CD62E
1	SELE	ENSG00000007908	ENST00000367782	protein_coding	KNOWN	None	10718	1644	547	169691781	169703220	-1	ELAM1, ELAM	ESEL, CD62E
1	SELE	ENSG00000007908	ENST00000367780	protein_coding	KNOWN	None	10718	1458	485	169691781	169703220	-1	ELAM1, ELAM	ESEL, CD62E
1	SELE	ENSG00000007908	ENST00000367779	protein_coding	KNOWN	None	10718	1455	484	169691781	169703220	-1	ELAM1, ELAM	ESEL, CD62E
9	NDUFA5P4	ENSG00000233659	ENST00000436704	processed_pseudogene	KNOWN	None	48846	None	None	35874807	35875191	-1	None	None
6	RNF182	ENSG00000180537	ENST00000488763	protein_coding	KNOWN	None	28522	153	50	13924677	13977503	1	None	MGC33993
6	RNF182	ENSG00000180537	ENST00000488300	protein_coding	KNOWN	CCDS4531	28522	744	247	13925098	13980533	1	None	MGC33993
6	RNF182	ENSG00000180537	ENST00000420478	protein_coding	KNOWN	None	28522	487	161	13925127	13977837	1	None	MGC33993
6	RNF182	ENSG00000180537	ENST00000471906	protein_coding	KNOWN	None	28522	39	12	13925186	13977389	1	None	MGC33993
6	RNF182	ENSG00000180537	ENST00000423553	protein_coding	KNOWN	None	28522	248	81	13925424	13977598	1	None	MGC33993
6	RNF182	ENSG00000180537	ENST00000537663	protein_coding	KNOWN	CCDS4531	28522	744	247	13924677	13980239	1	None	MGC33993
6	RNF182	ENSG00000180537	ENST00000544682	protein_coding	KNOWN	CCDS4531	28522	744	247	13925098	13980239	1	None	MGC33993
6	RNF182	ENSG00000180537	ENST00000537388	protein_coding	KNOWN	CCDS4531	28522	744	247	13925424	13980239	1	None	MGC33993
HSCHR6_MHC_COX	HLA-Z	ENSG00000228785	ENST00000458618	unprocessed_pseudogene	KNOWN	None	19394	None	None	32786513	32786587	1	None	HLA-Z1
15	NR2F2	ENSG00000185551	ENST00000421109	protein_coding	KNOWN	CCDS45358	7976	846	281	96869167	96881847	1	ARP1, TFCOUP2	COUP-TFII, COUPTFB, SVP40, NF-E3
15	NR2F2	ENSG00000185551	ENST00000394166	protein_coding	KNOWN	CCDS10375	7976	1245	414	96873946	96883492	1	ARP1, TFCOUP2	COUP-TFII, COUPTFB, SVP40, NF-E3
15	NR2F2	ENSG00000185551	ENST00000559679	protein_coding	KNOWN	None	7976	280	92	96875766	96877601	1	ARP1, TFCOUP2	COUP-TFII, COUPTFB, SVP40, NF-E3
15	NR2F2	ENSG00000185551	ENST00000453270	protein_coding	KNOWN	CCDS45359	7976	786	261	96876392	96881065	1	ARP1, TFCOUP2	COUP-TFII, COUPTFB, SVP40, NF-E3
15	NR2F2	ENSG00000185551	ENST00000394171	protein_coding	KNOWN	CCDS45359	7976	786	261	96875794	96883492	1	ARP1, TFCOUP2	COUP-TFII, COUPTFB, SVP40, NF-E3
9	LINC00961	ENSG00000235387	ENST00000443779	lincRNA	KNOWN	None	27244	None	None	35909480	35911683	1	None	None
15	NMB	ENSG00000197696	ENST00000360476	protein_coding	KNOWN	CCDS10332	7842	366	121	85198360	85201779	-1	None	MGC2277, MGC3936, MGC17211
15	NMB	ENSG00000197696	ENST00000394588	protein_coding	KNOWN	CCDS42076	7842	465	154	85198360	85201794	-1	None	MGC2277, MGC3936, MGC17211
4	None	ENSG00000260526	ENST00000562919	antisense	KNOWN	None	None	None	None	113150717	113152752	-1	None	None
9	None	ENSG00000231518	ENST00000433838	antisense	KNOWN	None	None	None	None	35930009	35937148	1	None	None
16	None	ENSG00000260850	ENST00000569751	lincRNA	KNOWN	None	None	None	None	51388367	51390443	-1	None	None
6	None	ENSG00000229819	ENST00000431104	antisense	KNOWN	None	None	None	None	125329901	125330635	-1	None	None
9	PGAM1P2	ENSG00000225639	ENST00000436071	processed_pseudogene	KNOWN	None	42449	None	None	35943207	35943931	-1	None	None
19	EMR3	ENSG00000131355	ENST00000443157	protein_coding	NOVEL	None	23647	1581	526	14729929	14785656	-1	None	None
19	EMR3	ENSG00000131355	ENST00000599900	protein_coding	PUTATIVE	None	23647	1314	437	14730048	14800839	-1	None	None
19	EMR3	ENSG00000131355	ENST00000253673	protein_coding	KNOWN	CCDS12315	23647	1959	652	14730051	14785683	-1	None	None
19	EMR3	ENSG00000131355	ENST00000595472	protein_coding	PUTATIVE	None	23647	174	57	14779432	14785810	-1	None	None
19	EMR3	ENSG00000131355	ENST00000344373	protein_coding	KNOWN	None	23647	1803	600	14730052	14785730	-1	None	None
6	None	ENSG00000226409	ENST00000422227	antisense	KNOWN	None	None	None	None	125691357	125695470	-1	None	None
20	RPS19P1	ENSG00000214612	ENST00000415286	processed_pseudogene	KNOWN	None	16534	None	None	18485277	18485710	1	None	bA189K21.7
4	None	ENSG00000222306	ENST00000410374	misc_RNA	NOVEL	None	None	None	None	113195228	113195309	1	None	None
16	HNRNPA1P48	ENSG00000224578	ENST00000562726	processed_transcript	KNOWN	None	48778	None	None	51679667	51681043	1	None	None
16	HNRNPA1P48	ENSG00000224578	ENST00000565308	transcribed_processed_pseudogene	KNOWN	None	48778	None	None	51679731	51680691	1	None	None
16	HNRNPA1P48	ENSG00000224578	ENST00000403195	pseudogene	KNOWN	None	48778	None	None	51679669	51680723	1	None	None
4	RTEL1P1	ENSG00000251441	ENST00000504490	processed_pseudogene	KNOWN	None	44213	None	None	113277291	113280975	1	None	None
6	None	ENSG00000228704	ENST00000430672	lincRNA	KNOWN	None	None	None	None	125746773	125766329	-1	None	None
19	ZNF792	ENSG00000180884	ENST00000404801	protein_coding	KNOWN	CCDS12440	24751	1899	632	35447258	35454953	-1	None	FLJ38451
19	ZNF792	ENSG00000180884	ENST00000605484	protein_coding	KNOWN	None	24751	1698	565	35448378	35451607	-1	None	FLJ38451
6	None	ENSG00000237742	ENST00000606334	antisense	KNOWN	None	None	None	None	125899704	126066756	-1	None	None
6	None	ENSG00000237742	ENST00000427852	antisense	KNOWN	None	None	None	None	125899713	126066174	-1	None	None
6	None	ENSG00000237742	ENST00000451660	antisense	KNOWN	None	None	None	None	125899713	126070332	-1	None	None
6	None	ENSG00000237742	ENST00000606001	antisense	KNOWN	None	None	None	None	126039382	126070336	-1	None	None
6	None	ENSG00000237742	ENST00000432121	antisense	KNOWN	None	None	None	None	126041489	126070332	-1	None	None
7	C7orf57	ENSG00000164746	ENST00000420324	protein_coding	PUTATIVE	None	22247	975	324	48075108	48100850	1	None	None
7	C7orf57	ENSG00000164746	ENST00000435376	protein_coding	PUTATIVE	CCDS59054	22247	462	153	48075108	48100901	1	None	None
7	C7orf57	ENSG00000164746	ENST00000430738	protein_coding	PUTATIVE	None	22247	1023	340	48075108	48100901	1	None	None
7	C7orf57	ENSG00000164746	ENST00000348904	protein_coding	KNOWN	CCDS47583	22247	888	295	48075117	48100894	1	None	None
7	C7orf57	ENSG00000164746	ENST00000461741	retained_intron	KNOWN	None	22247	None	None	48075127	48081250	1	None	None
7	C7orf57	ENSG00000164746	ENST00000539619	protein_coding	KNOWN	None	22247	888	295	48075117	48100891	1	None	None
11	ATG2A	ENSG00000110046	ENST00000418259	protein_coding	NOVEL	None	29028	5227	1741	64662018	64680867	-1	None	KIAA0404
11	ATG2A	ENSG00000110046	ENST00000377264	protein_coding	KNOWN	CCDS31602	29028	5817	1938	64662018	64684720	-1	None	KIAA0404
11	ATG2A	ENSG00000110046	ENST00000472525	retained_intron	KNOWN	None	29028	None	None	64664512	64665202	-1	None	KIAA0404
11	ATG2A	ENSG00000110046	ENST00000461701	retained_intron	KNOWN	None	29028	None	None	64680083	64684678	-1	None	KIAA0404
11	ATG2A	ENSG00000110046	ENST00000461955	retained_intron	KNOWN	None	29028	None	None	64681668	64684678	-1	None	KIAA0404
11	ATG2A	ENSG00000110046	ENST00000421419	protein_coding	KNOWN	None	29028	5823	1940	64662007	64684722	-1	None	KIAA0404
6	HLA-DQA2	ENSG00000237541	ENST00000374940	protein_coding	KNOWN	CCDS4753	4943	768	255	32709119	32714992	1	HLA-DXA	None
16	CPNE7	ENSG00000178773	ENST00000268720	protein_coding	KNOWN	CCDS10980	2320	1902	633	89642176	89663654	1	None	None
16	CPNE7	ENSG00000178773	ENST00000525982	nonsense_mediated_decay	KNOWN	None	2320	363	120	89642190	89650122	1	None	None
16	CPNE7	ENSG00000178773	ENST00000319518	protein_coding	KNOWN	CCDS10981	2320	1677	558	89642199	89663654	1	None	None
16	CPNE7	ENSG00000178773	ENST00000532500	retained_intron	KNOWN	None	2320	None	None	89651229	89654140	1	None	None
16	CPNE7	ENSG00000178773	ENST00000529800	protein_coding	NOVEL	None	2320	519	172	89653451	89661831	1	None	None
16	CPNE7	ENSG00000178773	ENST00000568977	nonsense_mediated_decay	KNOWN	None	2320	297	98	89655212	89663224	1	None	None
16	CPNE7	ENSG00000178773	ENST00000566398	processed_transcript	KNOWN	None	2320	None	None	89660508	89663267	1	None	None
16	CPNE7	ENSG00000178773	ENST00000526232	protein_coding	PUTATIVE	None	2320	277	91	89661984	89663257	1	None	None
16	CPNE7	ENSG00000178773	ENST00000564421	processed_transcript	KNOWN	None	2320	None	None	89662178	89663253	1	None	None
15	RORA	ENSG00000069667	ENST00000335670	protein_coding	KNOWN	CCDS10177	10258	1572	523	60780483	61521518	-1	None	RZRA, ROR1, ROR2, ROR3, NR1F1
15	RORA	ENSG00000069667	ENST00000309157	protein_coding	KNOWN	CCDS10178	10258	1647	548	60789463	60919643	-1	None	RZRA, ROR1, ROR2, ROR3, NR1F1
15	RORA	ENSG00000069667	ENST00000261523	protein_coding	KNOWN	CCDS10179	10258	1671	556	60789463	60919662	-1	None	RZRA, ROR1, ROR2, ROR3, NR1F1
15	RORA	ENSG00000069667	ENST00000449337	protein_coding	KNOWN	CCDS45271	10258	1407	468	60789484	60884740	-1	None	RZRA, ROR1, ROR2, ROR3, NR1F1
15	RORA	ENSG00000069667	ENST00000559587	processed_transcript	PUTATIVE	None	10258	None	None	60797805	60804296	-1	None	RZRA, ROR1, ROR2, ROR3, NR1F1
15	RORA	ENSG00000069667	ENST00000551975	nonsense_mediated_decay	KNOWN	None	10258	188	61	60803493	61521332	-1	None	RZRA, ROR1, ROR2, ROR3, NR1F1
15	RORA	ENSG00000069667	ENST00000560004	processed_transcript	KNOWN	None	10258	None	None	60803656	60998551	-1	None	RZRA, ROR1, ROR2, ROR3, NR1F1
15	RORA	ENSG00000069667	ENST00000559343	protein_coding	PUTATIVE	None	10258	460	152	60803791	60885325	-1	None	RZRA, ROR1, ROR2, ROR3, NR1F1
15	RORA	ENSG00000069667	ENST00000558234	retained_intron	KNOWN	None	10258	None	None	60820272	60884716	-1	None	RZRA, ROR1, ROR2, ROR3, NR1F1
15	RORA	ENSG00000069667	ENST00000557822	retained_intron	KNOWN	None	10258	None	None	60823727	61521442	-1	None	RZRA, ROR1, ROR2, ROR3, NR1F1
15	RORA	ENSG00000069667	ENST00000559145	processed_transcript	KNOWN	None	10258	None	None	60942820	61521424	-1	None	RZRA, ROR1, ROR2, ROR3, NR1F1
15	RORA	ENSG00000069667	ENST00000561093	retained_intron	KNOWN	None	10258	None	None	60970423	61521430	-1	None	RZRA, ROR1, ROR2, ROR3, NR1F1
15	RORA	ENSG00000069667	ENST00000560300	processed_transcript	KNOWN	None	10258	None	None	61331025	61521432	-1	None	RZRA, ROR1, ROR2, ROR3, NR1F1
15	RORA	ENSG00000069667	ENST00000558904	processed_transcript	PUTATIVE	None	10258	None	None	61468274	61521354	-1	None	RZRA, ROR1, ROR2, ROR3, NR1F1
20	None	ENSG00000264134	ENST00000578930	miRNA	NOVEL	None	None	None	None	18526352	18526428	-1	None	None
19	NAT14	ENSG00000090971	ENST00000205194	protein_coding	KNOWN	CCDS12926	28918	621	206	55996371	55998935	1	None	KLP1
19	NAT14	ENSG00000090971	ENST00000591590	protein_coding	PUTATIVE	None	28918	159	52	55996562	55997974	1	None	KLP1
19	NAT14	ENSG00000090971	ENST00000592719	processed_transcript	KNOWN	None	28918	None	None	55996590	55998935	1	None	KLP1
19	NAT14	ENSG00000090971	ENST00000587400	protein_coding	PUTATIVE	None	28918	135	44	55996601	55998933	1	None	KLP1
19	NAT14	ENSG00000090971	ENST00000588985	protein_coding	PUTATIVE	None	28918	520	172	55997789	55998935	1	None	KLP1
HSCHR6_MHC_QBL	HLA-DMB	ENSG00000241674	ENST00000475801	retained_intron	KNOWN	None	4935	None	None	32831136	32833393	-1	None	D6S221E, RING7
HSCHR6_MHC_QBL	HLA-DMB	ENSG00000241674	ENST00000473335	retained_intron	KNOWN	None	4935	None	None	32831136	32833408	-1	None	D6S221E, RING7
HSCHR6_MHC_QBL	HLA-DMB	ENSG00000241674	ENST00000430115	protein_coding	KNOWN	None	4935	321	106	32831136	32833946	-1	None	D6S221E, RING7
HSCHR6_MHC_QBL	HLA-DMB	ENSG00000241674	ENST00000438310	protein_coding	KNOWN	None	4935	424	140	32831136	32835195	-1	None	D6S221E, RING7
HSCHR6_MHC_QBL	HLA-DMB	ENSG00000241674	ENST00000463532	retained_intron	KNOWN	None	4935	None	None	32831136	32837490	-1	None	D6S221E, RING7
HSCHR6_MHC_QBL	HLA-DMB	ENSG00000241674	ENST00000428864	protein_coding	KNOWN	None	4935	774	257	32831136	32837527	-1	None	D6S221E, RING7
HSCHR6_MHC_QBL	HLA-DMB	ENSG00000241674	ENST00000383231	protein_coding	KNOWN	None	4935	792	263	32831136	32837576	-1	None	D6S221E, RING7
HSCHR6_MHC_QBL	HLA-DMB	ENSG00000241674	ENST00000415090	protein_coding	KNOWN	None	4935	526	174	32833871	32849631	-1	None	D6S221E, RING7
HSCHR6_MHC_QBL	HLA-DMB	ENSG00000241674	ENST00000549152	protein_coding	KNOWN	None	4935	207	68	32831145	32837546	-1	None	D6S221E, RING7
HSCHR6_MHC_QBL	HLA-DMB	ENSG00000241674	ENST00000552389	protein_coding	KNOWN	None	4935	288	95	32831145	32837546	-1	None	D6S221E, RING7
HSCHR6_MHC_QBL	HLA-DMB	ENSG00000241674	ENST00000546855	protein_coding	KNOWN	None	4935	171	56	32831478	32837313	-1	None	D6S221E, RING7
10	TTC40	ENSG00000171811	ENST00000368586	protein_coding	PUTATIVE	CCDS58101	25247	8148	2715	134621896	134756089	-1	C10orf123, C10orf124, C10orf93, C10orf92	DKFZp434A1721, bA288G11.4, bA288G11.5, bB137A17.2, FLJ25954, bB137A17.3
10	TTC40	ENSG00000171811	ENST00000448925	protein_coding	PUTATIVE	None	25247	461	152	134646120	134648857	-1	C10orf123, C10orf124, C10orf93, C10orf92	DKFZp434A1721, bA288G11.4, bA288G11.5, bB137A17.2, FLJ25954, bB137A17.3
10	TTC40	ENSG00000171811	ENST00000476633	retained_intron	KNOWN	None	25247	None	None	134648186	134650581	-1	C10orf123, C10orf124, C10orf93, C10orf92	DKFZp434A1721, bA288G11.4, bA288G11.5, bB137A17.2, FLJ25954, bB137A17.3
10	TTC40	ENSG00000171811	ENST00000417862	retained_intron	KNOWN	None	25247	None	None	134686032	134690412	-1	C10orf123, C10orf124, C10orf93, C10orf92	DKFZp434A1721, bA288G11.4, bA288G11.5, bB137A17.2, FLJ25954, bB137A17.3
10	TTC40	ENSG00000171811	ENST00000486104	retained_intron	KNOWN	None	25247	None	None	134712021	134730186	-1	C10orf123, C10orf124, C10orf93, C10orf92	DKFZp434A1721, bA288G11.4, bA288G11.5, bB137A17.2, FLJ25954, bB137A17.3
10	TTC40	ENSG00000171811	ENST00000466834	retained_intron	KNOWN	None	25247	None	None	134721852	134723600	-1	C10orf123, C10orf124, C10orf93, C10orf92	DKFZp434A1721, bA288G11.4, bA288G11.5, bB137A17.2, FLJ25954, bB137A17.3
10	TTC40	ENSG00000171811	ENST00000368585	protein_coding	KNOWN	None	25247	1218	405	134742689	134756327	-1	C10orf123, C10orf124, C10orf93, C10orf92	DKFZp434A1721, bA288G11.4, bA288G11.5, bB137A17.2, FLJ25954, bB137A17.3
10	TTC40	ENSG00000171811	ENST00000475340	retained_intron	KNOWN	None	25247	None	None	134750619	134756047	-1	C10orf123, C10orf124, C10orf93, C10orf92	DKFZp434A1721, bA288G11.4, bA288G11.5, bB137A17.2, FLJ25954, bB137A17.3
10	TTC40	ENSG00000171811	ENST00000263170	protein_coding	KNOWN	None	25247	2631	876	134621897	134671236	-1	C10orf123, C10orf124, C10orf93, C10orf92	DKFZp434A1721, bA288G11.4, bA288G11.5, bB137A17.2, FLJ25954, bB137A17.3
10	TTC40	ENSG00000171811	ENST00000368582	protein_coding	KNOWN	None	25247	4593	1530	134686098	134756089	-1	C10orf123, C10orf124, C10orf93, C10orf92	DKFZp434A1721, bA288G11.4, bA288G11.5, bB137A17.2, FLJ25954, bB137A17.3
10	None	ENSG00000227374	ENST00000428273	lincRNA	KNOWN	None	None	None	None	131567108	131567699	1	None	None
15	None	ENSG00000229212	ENST00000560756	processed_transcript	KNOWN	None	None	None	None	85748671	85778016	-1	None	None
15	None	ENSG00000229212	ENST00000559481	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	85751708	85753102	-1	None	None
15	None	ENSG00000229212	ENST00000560811	processed_transcript	KNOWN	None	None	None	None	85752006	85778026	-1	None	None
15	None	ENSG00000229212	ENST00000560405	processed_transcript	KNOWN	None	None	None	None	85752296	85778016	-1	None	None
15	None	ENSG00000229212	ENST00000558470	processed_transcript	KNOWN	None	None	None	None	85752484	85777941	-1	None	None
15	None	ENSG00000229212	ENST00000357253	unprocessed_pseudogene	KNOWN	None	None	None	None	85747141	85777994	-1	None	None
15	None	ENSG00000229212	ENST00000442755	unprocessed_pseudogene	KNOWN	None	None	None	None	85749009	85753102	-1	None	None
10	MIR4297	ENSG00000266676	ENST00000579857	miRNA	KNOWN	None	38393	None	None	131641563	131641638	-1	None	hsa-mir-4297
X	None	ENSG00000214019	ENST00000397254	processed_pseudogene	KNOWN	None	None	None	None	43888578	43890167	1	None	None
10	LINC00959	ENSG00000237489	ENST00000456581	lincRNA	KNOWN	None	48677	None	None	131864638	131909081	-1	None	None
7	TPM3P1	ENSG00000213050	ENST00000413233	processed_pseudogene	KNOWN	None	16350	None	None	116612219	116612965	-1	TPM3L2	None
7	TPM3P1	ENSG00000213050	ENST00000599541	processed_pseudogene	KNOWN	None	16350	None	None	116612219	116612965	-1	TPM3L2	None
12	GPR162	ENSG00000250510	ENST00000311268	protein_coding	KNOWN	CCDS8563	16693	1767	588	6930711	6936583	1	None	A-2, GRCA
12	GPR162	ENSG00000250510	ENST00000535220	retained_intron	KNOWN	None	16693	None	None	6930790	6934338	1	None	A-2, GRCA
12	GPR162	ENSG00000250510	ENST00000428545	protein_coding	NOVEL	CCDS44819	16693	915	304	6930870	6936586	1	None	A-2, GRCA
12	GPR162	ENSG00000250510	ENST00000541431	processed_transcript	PUTATIVE	None	16693	None	None	6930995	6933582	1	None	A-2, GRCA
12	GPR162	ENSG00000250510	ENST00000382315	protein_coding	NOVEL	None	16693	855	284	6931034	6936586	1	None	A-2, GRCA
12	GPR162	ENSG00000250510	ENST00000545321	protein_coding	PUTATIVE	None	16693	683	226	6933660	6939136	1	None	A-2, GRCA
12	GPR162	ENSG00000250510	ENST00000542330	processed_transcript	PUTATIVE	None	16693	None	None	6935815	6936586	1	None	A-2, GRCA
15	MIR1302-2	ENSG00000259553	ENST00000559045	lincRNA	KNOWN	None	35294	None	None	102500051	102500785	-1	MIRN1302-2	hsa-mir-1302-2
15	MIR1302-2	ENSG00000259553	ENST00000561145	lincRNA	KNOWN	None	35294	None	None	102500064	102501611	-1	MIRN1302-2	hsa-mir-1302-2
15	MIR1302-2	ENSG00000259553	ENST00000408734	miRNA	KNOWN	None	35294	None	None	102500662	102500799	-1	MIRN1302-2	hsa-mir-1302-2
15	MIR1302-9	ENSG00000259553	ENST00000559045	lincRNA	KNOWN	None	38218	None	None	102500051	102500785	-1	None	hsa-mir-1302-9
15	MIR1302-9	ENSG00000259553	ENST00000561145	lincRNA	KNOWN	None	38218	None	None	102500064	102501611	-1	None	hsa-mir-1302-9
15	MIR1302-9	ENSG00000259553	ENST00000408734	miRNA	KNOWN	None	38218	None	None	102500662	102500799	-1	None	hsa-mir-1302-9
15	MIR1302-10	ENSG00000259553	ENST00000559045	lincRNA	KNOWN	None	38233	None	None	102500051	102500785	-1	None	hsa-mir-1302-10
15	MIR1302-10	ENSG00000259553	ENST00000561145	lincRNA	KNOWN	None	38233	None	None	102500064	102501611	-1	None	hsa-mir-1302-10
15	MIR1302-10	ENSG00000259553	ENST00000408734	miRNA	KNOWN	None	38233	None	None	102500662	102500799	-1	None	hsa-mir-1302-10
15	MIR1302-11	ENSG00000259553	ENST00000559045	lincRNA	KNOWN	None	38246	None	None	102500051	102500785	-1	None	hsa-mir-1302-11
15	MIR1302-11	ENSG00000259553	ENST00000561145	lincRNA	KNOWN	None	38246	None	None	102500064	102501611	-1	None	hsa-mir-1302-11
15	MIR1302-11	ENSG00000259553	ENST00000408734	miRNA	KNOWN	None	38246	None	None	102500662	102500799	-1	None	hsa-mir-1302-11
7	NUDT1	ENSG00000106268	ENST00000356714	protein_coding	KNOWN	CCDS5330	8048	471	156	2281857	2290780	1	MTH1	None
7	NUDT1	ENSG00000106268	ENST00000397046	protein_coding	KNOWN	CCDS5330	8048	471	156	2281894	2290780	1	MTH1	None
7	NUDT1	ENSG00000106268	ENST00000397048	protein_coding	KNOWN	CCDS5329	8048	540	179	2281896	2290780	1	MTH1	None
7	NUDT1	ENSG00000106268	ENST00000454650	protein_coding	KNOWN	None	8048	111	36	2281912	2284320	1	MTH1	None
7	NUDT1	ENSG00000106268	ENST00000343985	protein_coding	KNOWN	CCDS5329	8048	540	179	2282540	2290780	1	MTH1	None
7	NUDT1	ENSG00000106268	ENST00000339737	protein_coding	KNOWN	CCDS5330	8048	471	156	2282540	2290780	1	MTH1	None
7	NUDT1	ENSG00000106268	ENST00000471348	processed_transcript	KNOWN	None	8048	None	None	2284244	2287804	1	MTH1	None
7	NUDT1	ENSG00000106268	ENST00000487426	processed_transcript	KNOWN	None	8048	None	None	2288920	2290781	1	MTH1	None
7	NUDT1	ENSG00000106268	ENST00000397049	protein_coding	KNOWN	CCDS5329	8048	540	179	2281857	2290780	1	MTH1	None
X	TATDN2P1	ENSG00000198414	ENST00000443767	processed_pseudogene	KNOWN	None	39254	None	None	44143162	44145492	1	None	None
16	C16orf54	ENSG00000185905	ENST00000329410	protein_coding	KNOWN	CCDS10652	26649	675	224	29753784	29757327	-1	None	FLJ35681
6	PDE7B	ENSG00000171408	ENST00000308191	protein_coding	KNOWN	CCDS5175	8792	1353	450	136172834	136516712	1	None	None
6	PDE7B	ENSG00000171408	ENST00000446774	protein_coding	KNOWN	None	8792	601	199	136470224	136477213	1	None	None
10	CTAGE7P	ENSG00000233122	ENST00000435712	processed_pseudogene	KNOWN	None	25111	None	None	131904310	131906745	1	CTAGEP, CTAGE7	bA500G10.2, MGC33437, rcCTAGE5
10	CTAGE7P	ENSG00000233122	ENST00000417351	processed_pseudogene	KNOWN	None	25111	None	None	131904273	131907095	1	CTAGEP, CTAGE7	bA500G10.2, MGC33437, rcCTAGE5
X	RRM2P3	ENSG00000214018	ENST00000426279	processed_pseudogene	KNOWN	None	10455	None	None	44168560	44169722	-1	None	None
HSCHR6_MHC_COX	RGL2	ENSG00000224841	ENST00000476107	processed_transcript	KNOWN	None	9769	None	None	33181041	33186490	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_COX	RGL2	ENSG00000224841	ENST00000462344	retained_intron	KNOWN	None	9769	None	None	33181041	33187908	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_COX	RGL2	ENSG00000224841	ENST00000492205	processed_transcript	KNOWN	None	9769	None	None	33181041	33188317	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_COX	RGL2	ENSG00000224841	ENST00000494749	processed_transcript	PUTATIVE	None	9769	None	None	33181041	33188362	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_COX	RGL2	ENSG00000224841	ENST00000413136	protein_coding	KNOWN	None	9769	2334	777	33181041	33188711	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_COX	RGL2	ENSG00000224841	ENST00000488189	processed_transcript	PUTATIVE	None	9769	None	None	33181493	33183317	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_COX	RGL2	ENSG00000224841	ENST00000472279	processed_transcript	KNOWN	None	9769	None	None	33182482	33185010	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_COX	RGL2	ENSG00000224841	ENST00000486294	retained_intron	KNOWN	None	9769	None	None	33185074	33187373	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_COX	RGL2	ENSG00000224841	ENST00000494807	retained_intron	KNOWN	None	9769	None	None	33185193	33187380	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_COX	RGL2	ENSG00000224841	ENST00000467836	processed_transcript	KNOWN	None	9769	None	None	33185486	33187079	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_COX	RGL2	ENSG00000224841	ENST00000495238	retained_intron	KNOWN	None	9769	None	None	33185544	33186773	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_COX	RGL2	ENSG00000224841	ENST00000446570	protein_coding	KNOWN	None	9769	440	145	33185831	33188197	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_COX	RGL2	ENSG00000224841	ENST00000549377	protein_coding	KNOWN	None	9769	1977	658	33181434	33188786	-1	RAB2L	KE1.5, HKE1.5
14	STON2	ENSG00000140022	ENST00000555447	protein_coding	PUTATIVE	CCDS58332	30652	2763	920	81727000	81893748	-1	None	STNB2, STN2
14	STON2	ENSG00000140022	ENST00000553821	protein_coding	PUTATIVE	None	30652	320	105	81734392	81743277	-1	None	STNB2, STN2
14	STON2	ENSG00000140022	ENST00000555284	retained_intron	KNOWN	None	30652	None	None	81736773	81745162	-1	None	STNB2, STN2
14	STON2	ENSG00000140022	ENST00000267540	protein_coding	KNOWN	CCDS9875	30652	2718	905	81736851	81864927	-1	None	STNB2, STN2
14	STON2	ENSG00000140022	ENST00000556280	processed_transcript	PUTATIVE	None	30652	None	None	81744820	81790027	-1	None	STNB2, STN2
14	STON2	ENSG00000140022	ENST00000555226	retained_intron	KNOWN	None	30652	None	None	81861294	81884597	-1	None	STNB2, STN2
14	STON2	ENSG00000140022	ENST00000557055	protein_coding	KNOWN	None	30652	149	48	81862462	81902809	-1	None	STNB2, STN2
14	STON2	ENSG00000140022	ENST00000554710	protein_coding	KNOWN	None	30652	10	2	81864717	81902551	-1	None	STNB2, STN2
20	LINC00493	ENSG00000232388	ENST00000435844	lincRNA	KNOWN	None	43430	None	None	18548064	18550207	1	None	None
20	LINC00493	ENSG00000232388	ENST00000411646	lincRNA	KNOWN	None	43430	None	None	18548064	18550207	1	None	None
7	ABCF2	ENSG00000033050	ENST00000222388	protein_coding	KNOWN	CCDS5922	71	1905	634	150904923	150924252	-1	None	EST133090, ABC28, M-ABC1, HUSSY-18
7	ABCF2	ENSG00000033050	ENST00000287844	protein_coding	KNOWN	CCDS5923	71	1872	623	150909576	150924316	-1	None	EST133090, ABC28, M-ABC1, HUSSY-18
7	ABCF2	ENSG00000033050	ENST00000473874	processed_transcript	KNOWN	None	71	None	None	150915246	150919070	-1	None	EST133090, ABC28, M-ABC1, HUSSY-18
7	ABCF2	ENSG00000033050	ENST00000468073	protein_coding	KNOWN	None	71	863	286	150918722	150923712	-1	None	EST133090, ABC28, M-ABC1, HUSSY-18
7	ABCF2	ENSG00000033050	ENST00000441774	protein_coding	KNOWN	None	71	720	239	150920766	150924121	-1	None	EST133090, ABC28, M-ABC1, HUSSY-18
7	ABCF2	ENSG00000033050	ENST00000477252	processed_transcript	PUTATIVE	None	71	None	None	150923559	150924044	-1	None	EST133090, ABC28, M-ABC1, HUSSY-18
7	ST7-AS2	ENSG00000226367	ENST00000446784	antisense	KNOWN	None	16044	None	None	116712126	116714778	-1	ST7OT2	ST7AS2
7	ST7-AS2	ENSG00000226367	ENST00000456577	antisense	KNOWN	None	16044	None	None	116712126	116730834	-1	ST7OT2	ST7AS2
7	ST7-AS2	ENSG00000226367	ENST00000432541	antisense	KNOWN	None	16044	None	None	116712481	116785612	-1	ST7OT2	ST7AS2
7	ST7-AS2	ENSG00000226367	ENST00000434993	antisense	KNOWN	None	16044	None	None	116752346	116785614	-1	ST7OT2	ST7AS2
7	ST7-AS2	ENSG00000226367	ENST00000442719	antisense	KNOWN	None	16044	None	None	116752346	116785646	-1	ST7OT2	ST7AS2
7	ST7-AS2	ENSG00000226367	ENST00000433969	antisense	KNOWN	None	16044	None	None	116785419	116786534	-1	ST7OT2	ST7AS2
4	TOX4P1	ENSG00000248697	ENST00000514955	processed_pseudogene	KNOWN	None	44009	None	None	113377080	113378941	1	None	None
1	PGD	ENSG00000142657	ENST00000491493	protein_coding	PUTATIVE	None	8891	615	204	10458649	10471609	1	None	None
1	PGD	ENSG00000142657	ENST00000487775	retained_intron	KNOWN	None	8891	None	None	10459101	10460065	1	None	None
1	PGD	ENSG00000142657	ENST00000477958	nonsense_mediated_decay	KNOWN	None	8891	192	63	10459130	10464333	1	None	None
1	PGD	ENSG00000142657	ENST00000270776	protein_coding	KNOWN	CCDS113	8891	1452	483	10459137	10480201	1	None	None
1	PGD	ENSG00000142657	ENST00000483936	protein_coding	NOVEL	None	8891	674	223	10459169	10477566	1	None	None
1	PGD	ENSG00000142657	ENST00000465632	protein_coding	PUTATIVE	None	8891	480	159	10459555	10468197	1	None	None
1	PGD	ENSG00000142657	ENST00000460189	protein_coding	NOVEL	None	8891	767	254	10459689	10473308	1	None	None
1	PGD	ENSG00000142657	ENST00000493288	retained_intron	KNOWN	None	8891	None	None	10472891	10477101	1	None	None
1	PGD	ENSG00000142657	ENST00000498356	processed_transcript	KNOWN	None	8891	None	None	10475349	10479887	1	None	None
1	PGD	ENSG00000142657	ENST00000496718	retained_intron	KNOWN	None	8891	None	None	10478869	10479865	1	None	None
1	PGD	ENSG00000142657	ENST00000541529	protein_coding	KNOWN	None	8891	1386	461	10459126	10479845	1	None	None
1	PGD	ENSG00000142657	ENST00000538557	protein_coding	KNOWN	None	8891	1413	470	10459175	10480108	1	None	None
3	SENP7	ENSG00000138468	ENST00000394095	protein_coding	KNOWN	CCDS2941	30402	3153	1050	101043049	101232028	-1	None	None
3	SENP7	ENSG00000138468	ENST00000394091	protein_coding	NOVEL	None	30402	2661	886	101043117	101232028	-1	None	None
3	SENP7	ENSG00000138468	ENST00000394094	protein_coding	KNOWN	CCDS43121	30402	2958	985	101043117	101232049	-1	None	None
3	SENP7	ENSG00000138468	ENST00000314261	protein_coding	KNOWN	None	30402	2955	984	101043117	101232085	-1	None	None
3	SENP7	ENSG00000138468	ENST00000394085	protein_coding	KNOWN	None	30402	717	238	101044384	101052113	-1	None	None
3	SENP7	ENSG00000138468	ENST00000348610	protein_coding	KNOWN	None	30402	3054	1017	101044711	101232067	-1	None	None
3	SENP7	ENSG00000138468	ENST00000460107	retained_intron	KNOWN	None	30402	None	None	101055973	101059269	-1	None	None
3	SENP7	ENSG00000138468	ENST00000366089	protein_coding	PUTATIVE	None	30402	152	49	101066170	101066757	-1	None	None
3	SENP7	ENSG00000138468	ENST00000358203	protein_coding	KNOWN	None	30402	2661	886	101043117	101232057	-1	None	None
10	None	ENSG00000259942	ENST00000563046	lincRNA	KNOWN	None	None	None	None	47656084	47657233	1	None	None
7	GARS	ENSG00000106105	ENST00000389266	protein_coding	KNOWN	CCDS43564	4162	2220	739	30634297	30673649	1	CMT2D	GlyRS, DSMAV, SMAD1
7	GARS	ENSG00000106105	ENST00000454308	nonsense_mediated_decay	KNOWN	None	4162	240	79	30634457	30642703	1	CMT2D	GlyRS, DSMAV, SMAD1
7	GARS	ENSG00000106105	ENST00000478124	retained_intron	KNOWN	None	4162	None	None	30634500	30662304	1	CMT2D	GlyRS, DSMAV, SMAD1
7	GARS	ENSG00000106105	ENST00000484093	retained_intron	KNOWN	None	4162	None	None	30653872	30661294	1	CMT2D	GlyRS, DSMAV, SMAD1
7	GARS	ENSG00000106105	ENST00000470392	retained_intron	KNOWN	None	4162	None	None	30661744	30668223	1	CMT2D	GlyRS, DSMAV, SMAD1
7	GARS	ENSG00000106105	ENST00000444666	nonsense_mediated_decay	KNOWN	None	4162	234	77	30661945	30671923	1	CMT2D	GlyRS, DSMAV, SMAD1
7	GARS	ENSG00000106105	ENST00000465748	retained_intron	KNOWN	None	4162	None	None	30668106	30672035	1	CMT2D	GlyRS, DSMAV, SMAD1
7	GARS	ENSG00000106105	ENST00000485784	retained_intron	KNOWN	None	4162	None	None	30670765	30673527	1	CMT2D	GlyRS, DSMAV, SMAD1
7	GARS	ENSG00000106105	ENST00000496643	retained_intron	KNOWN	None	4162	None	None	30671581	30673649	1	CMT2D	GlyRS, DSMAV, SMAD1
10	CTGLF11P	ENSG00000204150	ENST00000280961	unprocessed_pseudogene	KNOWN	None	23660	None	None	47708327	47730235	1	None	bA145E20.1
10	CTGLF11P	ENSG00000204150	ENST00000399470	unprocessed_pseudogene	KNOWN	None	23660	None	None	47708307	47729933	1	None	bA145E20.1
7	None	ENSG00000227532	ENST00000440683	processed_pseudogene	KNOWN	None	None	None	None	116827602	116827794	-1	None	None
6	MANEA	ENSG00000172469	ENST00000369293	protein_coding	KNOWN	None	21072	597	198	96025419	96035257	1	None	FLJ12838, mandaselin
6	MANEA	ENSG00000172469	ENST00000358812	protein_coding	KNOWN	CCDS5032	21072	1389	462	96025419	96057333	1	None	FLJ12838, mandaselin
6	MANEA	ENSG00000172469	ENST00000474553	processed_transcript	KNOWN	None	21072	None	None	96036098	96053899	1	None	FLJ12838, mandaselin
16	RNA5SP433	ENSG00000201361	ENST00000364491	rRNA	KNOWN	None	43333	None	None	84296421	84296534	-1	RN5S433	None
16	None	ENSG00000260530	ENST00000569200	antisense	KNOWN	None	None	None	None	84329104	84330591	-1	None	None
22	MEI1	ENSG00000167077	ENST00000401548	protein_coding	KNOWN	CCDS46718	28613	3825	1274	42095503	42195458	1	None	MGC40042, SPATA38
22	MEI1	ENSG00000167077	ENST00000492484	processed_transcript	KNOWN	None	28613	None	None	42148464	42159253	1	None	MGC40042, SPATA38
22	MEI1	ENSG00000167077	ENST00000482055	processed_transcript	KNOWN	None	28613	None	None	42148508	42166813	1	None	MGC40042, SPATA38
22	MEI1	ENSG00000167077	ENST00000476614	processed_transcript	KNOWN	None	28613	None	None	42148521	42166710	1	None	MGC40042, SPATA38
22	MEI1	ENSG00000167077	ENST00000460702	retained_intron	KNOWN	None	28613	None	None	42149587	42154482	1	None	MGC40042, SPATA38
22	MEI1	ENSG00000167077	ENST00000462246	processed_transcript	KNOWN	None	28613	None	None	42170184	42177741	1	None	MGC40042, SPATA38
22	MEI1	ENSG00000167077	ENST00000473736	retained_intron	KNOWN	None	28613	None	None	42172051	42177367	1	None	MGC40042, SPATA38
22	MEI1	ENSG00000167077	ENST00000462450	retained_intron	KNOWN	None	28613	None	None	42172053	42177828	1	None	MGC40042, SPATA38
22	MEI1	ENSG00000167077	ENST00000498456	processed_transcript	KNOWN	None	28613	None	None	42172115	42180364	1	None	MGC40042, SPATA38
22	MEI1	ENSG00000167077	ENST00000487535	processed_transcript	KNOWN	None	28613	None	None	42177355	42195344	1	None	MGC40042, SPATA38
22	MEI1	ENSG00000167077	ENST00000476893	processed_transcript	KNOWN	None	28613	None	None	42177403	42195309	1	None	MGC40042, SPATA38
22	MEI1	ENSG00000167077	ENST00000484966	processed_transcript	KNOWN	None	28613	None	None	42177450	42191777	1	None	MGC40042, SPATA38
22	MEI1	ENSG00000167077	ENST00000403492	protein_coding	NOVEL	None	28613	717	238	42177739	42195460	1	None	MGC40042, SPATA38
22	MEI1	ENSG00000167077	ENST00000423900	protein_coding	NOVEL	None	28613	190	62	42191426	42195459	1	None	MGC40042, SPATA38
22	MEI1	ENSG00000167077	ENST00000540833	protein_coding	KNOWN	None	28613	1521	506	42095518	42163612	1	None	MGC40042, SPATA38
22	MEI1	ENSG00000167077	ENST00000400107	protein_coding	KNOWN	None	28613	1824	607	42095518	42195459	1	None	MGC40042, SPATA38
22	MEI1	ENSG00000167077	ENST00000540880	protein_coding	KNOWN	None	28613	810	269	42148518	42177849	1	None	MGC40042, SPATA38
22	MEI1	ENSG00000167077	ENST00000300398	protein_coding	KNOWN	None	28613	717	238	42095518	42195459	1	None	MGC40042, SPATA38
20	SCRT2	ENSG00000215397	ENST00000246104	protein_coding	KNOWN	CCDS13006	15952	924	307	642240	656823	-1	None	ZNF898B
7	None	ENSG00000230785	ENST00000445465	processed_pseudogene	KNOWN	None	None	None	None	116902972	116904942	-1	None	None
16	None	ENSG00000260504	ENST00000568458	lincRNA	KNOWN	None	None	None	None	84376070	84377013	-1	None	None
16	None	ENSG00000261286	ENST00000565700	antisense	KNOWN	None	None	None	None	84492865	84500967	-1	None	None
12	SDS	ENSG00000135094	ENST00000257549	protein_coding	KNOWN	CCDS9169	10691	987	328	113830250	113841693	-1	None	SDH
12	SDS	ENSG00000135094	ENST00000553112	retained_intron	KNOWN	None	10691	None	None	113834445	113841691	-1	None	SDH
12	SDS	ENSG00000135094	ENST00000552280	protein_coding	NOVEL	None	10691	291	96	113835060	113841691	-1	None	SDH
12	SDS	ENSG00000135094	ENST00000547342	protein_coding	PUTATIVE	None	10691	707	234	113836320	113864106	-1	None	SDH
12	SDS	ENSG00000135094	ENST00000546639	retained_intron	KNOWN	None	10691	None	None	113836642	113841691	-1	None	SDH
12	SDS	ENSG00000135094	ENST00000546785	retained_intron	KNOWN	None	10691	None	None	113837060	113841692	-1	None	SDH
17	ZNF207	ENSG00000010244	ENST00000394670	protein_coding	KNOWN	CCDS42294	12998	1485	494	30677136	30708905	1	None	None
17	ZNF207	ENSG00000010244	ENST00000321233	protein_coding	KNOWN	CCDS11271	12998	1437	478	30677151	30697470	1	None	None
17	ZNF207	ENSG00000010244	ENST00000394673	protein_coding	KNOWN	CCDS32614	12998	1392	463	30677157	30697362	1	None	None
17	ZNF207	ENSG00000010244	ENST00000579634	protein_coding	PUTATIVE	None	12998	223	73	30677183	30687694	1	None	None
17	ZNF207	ENSG00000010244	ENST00000580759	protein_coding	PUTATIVE	None	12998	279	92	30677184	30687750	1	None	None
17	ZNF207	ENSG00000010244	ENST00000342555	protein_coding	PUTATIVE	None	12998	1494	497	30677194	30696879	1	None	None
17	ZNF207	ENSG00000010244	ENST00000577908	protein_coding	PUTATIVE	None	12998	1482	493	30677199	30707975	1	None	None
17	ZNF207	ENSG00000010244	ENST00000394679	protein_coding	PUTATIVE	None	12998	595	197	30677203	30692435	1	None	None
17	ZNF207	ENSG00000010244	ENST00000582165	protein_coding	PUTATIVE	None	12998	287	94	30677205	30687758	1	None	None
17	ZNF207	ENSG00000010244	ENST00000577324	retained_intron	KNOWN	None	12998	None	None	30677217	30688352	1	None	None
17	ZNF207	ENSG00000010244	ENST00000578918	protein_coding	PUTATIVE	None	12998	138	45	30677927	30685653	1	None	None
17	ZNF207	ENSG00000010244	ENST00000581531	nonsense_mediated_decay	KNOWN	None	12998	1025	340	30687770	30707392	1	None	None
17	ZNF207	ENSG00000010244	ENST00000579416	retained_intron	KNOWN	None	12998	None	None	30689744	30692484	1	None	None
17	ZNF207	ENSG00000010244	ENST00000582705	retained_intron	KNOWN	None	12998	None	None	30689933	30692610	1	None	None
17	ZNF207	ENSG00000010244	ENST00000584696	retained_intron	KNOWN	None	12998	None	None	30693696	30695452	1	None	None
17	ZNF207	ENSG00000010244	ENST00000579810	retained_intron	KNOWN	None	12998	None	None	30695851	30705052	1	None	None
17	ZNF207	ENSG00000010244	ENST00000584416	processed_transcript	PUTATIVE	None	12998	None	None	30699914	30705465	1	None	None
17	ZNF207	ENSG00000010244	ENST00000341711	protein_coding	KNOWN	None	12998	1188	395	30677157	30697467	1	None	None
21	LCA5L	ENSG00000157578	ENST00000288350	protein_coding	KNOWN	CCDS13665	1255	2013	670	40777770	40817703	-1	C21orf13	MGC33295
21	LCA5L	ENSG00000157578	ENST00000358268	protein_coding	KNOWN	CCDS13665	1255	2013	670	40777786	40817659	-1	C21orf13	MGC33295
21	LCA5L	ENSG00000157578	ENST00000495240	processed_transcript	KNOWN	None	1255	None	None	40777904	40783073	-1	C21orf13	MGC33295
21	LCA5L	ENSG00000157578	ENST00000484878	processed_transcript	KNOWN	None	1255	None	None	40783644	40817678	-1	C21orf13	MGC33295
21	LCA5L	ENSG00000157578	ENST00000485895	protein_coding	PUTATIVE	None	1255	867	288	40793486	40817703	-1	C21orf13	MGC33295
21	LCA5L	ENSG00000157578	ENST00000491625	retained_intron	KNOWN	None	1255	None	None	40794338	40817731	-1	C21orf13	MGC33295
21	LCA5L	ENSG00000157578	ENST00000459939	processed_transcript	KNOWN	None	1255	None	None	40794914	40817687	-1	C21orf13	MGC33295
21	LCA5L	ENSG00000157578	ENST00000490184	processed_transcript	KNOWN	None	1255	None	None	40795166	40817701	-1	C21orf13	MGC33295
21	LCA5L	ENSG00000157578	ENST00000418018	protein_coding	KNOWN	None	1255	568	188	40795171	40817686	-1	C21orf13	MGC33295
21	LCA5L	ENSG00000157578	ENST00000466954	processed_transcript	KNOWN	None	1255	None	None	40795346	40817659	-1	C21orf13	MGC33295
21	LCA5L	ENSG00000157578	ENST00000448288	protein_coding	KNOWN	None	1255	322	106	40800098	40817704	-1	C21orf13	MGC33295
21	LCA5L	ENSG00000157578	ENST00000434281	protein_coding	KNOWN	None	1255	286	94	40800134	40817729	-1	C21orf13	MGC33295
21	LCA5L	ENSG00000157578	ENST00000438404	protein_coding	KNOWN	None	1255	284	93	40800136	40817645	-1	C21orf13	MGC33295
21	LCA5L	ENSG00000157578	ENST00000411566	protein_coding	KNOWN	None	1255	279	92	40800141	40817659	-1	C21orf13	MGC33295
21	LCA5L	ENSG00000157578	ENST00000468009	processed_transcript	KNOWN	None	1255	None	None	40800148	40810862	-1	C21orf13	MGC33295
21	LCA5L	ENSG00000157578	ENST00000415863	protein_coding	KNOWN	None	1255	209	68	40800211	40817695	-1	C21orf13	MGC33295
21	LCA5L	ENSG00000157578	ENST00000426783	protein_coding	KNOWN	None	1255	189	62	40800231	40817695	-1	C21orf13	MGC33295
21	LCA5L	ENSG00000157578	ENST00000456017	protein_coding	KNOWN	None	1255	92	29	40800328	40817706	-1	C21orf13	MGC33295
21	LCA5L	ENSG00000157578	ENST00000451131	protein_coding	KNOWN	None	1255	32	9	40800388	40817678	-1	C21orf13	MGC33295
21	LCA5L	ENSG00000157578	ENST00000480612	retained_intron	KNOWN	None	1255	None	None	40815385	40817679	-1	C21orf13	MGC33295
21	LCA5L	ENSG00000157578	ENST00000380671	protein_coding	KNOWN	CCDS13665	1255	2013	670	40777770	40816128	-1	C21orf13	MGC33295
1	None	ENSG00000117600	ENST00000370185	protein_coding	KNOWN	CCDS757	None	2292	763	99729509	99775146	1	None	None
1	None	ENSG00000117600	ENST00000370184	protein_coding	KNOWN	None	None	1818	605	99764420	99775146	1	None	None
1	None	ENSG00000117600	ENST00000457765	protein_coding	KNOWN	CCDS53347	None	2118	705	99729848	99775136	1	None	None
16	None	ENSG00000261243	ENST00000568771	antisense	KNOWN	None	None	None	None	84529205	84531101	1	None	None
17	C17orf85	ENSG00000074356	ENST00000574911	nonsense_mediated_decay	KNOWN	None	24612	109	35	3714817	3728315	-1	None	HSA277841, ELG
17	C17orf85	ENSG00000074356	ENST00000575815	retained_intron	KNOWN	None	24612	None	None	3714822	3732585	-1	None	HSA277841, ELG
17	C17orf85	ENSG00000074356	ENST00000389005	protein_coding	KNOWN	CCDS45578	24612	1863	620	3715441	3749545	-1	None	HSA277841, ELG
17	C17orf85	ENSG00000074356	ENST00000576523	protein_coding	PUTATIVE	None	24612	243	80	3715834	3716544	-1	None	HSA277841, ELG
17	C17orf85	ENSG00000074356	ENST00000574379	retained_intron	KNOWN	None	24612	None	None	3721557	3725750	-1	None	HSA277841, ELG
17	C17orf85	ENSG00000074356	ENST00000577169	processed_transcript	KNOWN	None	24612	None	None	3725798	3729411	-1	None	HSA277841, ELG
17	C17orf85	ENSG00000074356	ENST00000158149	protein_coding	KNOWN	None	24612	1023	340	3714460	3749540	-1	None	HSA277841, ELG
HSCHR6_MHC_MANN	UBD	ENSG00000224654	ENST00000429935	protein_coding	KNOWN	None	18795	498	165	29522994	29527308	-1	None	FAT10
20	SLC52A3	ENSG00000101276	ENST00000217254	protein_coding	KNOWN	CCDS13007	16187	1410	469	740724	749131	-1	C20orf54	bA371L19.1, hRFT2, RFVT3
20	SLC52A3	ENSG00000101276	ENST00000381944	protein_coding	KNOWN	None	16187	1248	415	740724	749131	-1	C20orf54	bA371L19.1, hRFT2, RFVT3
20	SLC52A3	ENSG00000101276	ENST00000473664	processed_transcript	KNOWN	None	16187	None	None	741668	746469	-1	C20orf54	bA371L19.1, hRFT2, RFVT3
20	SLC52A3	ENSG00000101276	ENST00000488495	processed_transcript	PUTATIVE	None	16187	None	None	746594	749126	-1	C20orf54	bA371L19.1, hRFT2, RFVT3
9	None	ENSG00000223602	ENST00000438758	unprocessed_pseudogene	KNOWN	None	None	None	None	69891208	69901481	-1	None	None
19	FUT6	ENSG00000156413	ENST00000524754	protein_coding	KNOWN	CCDS12152	4017	1080	359	5830621	5839703	-1	None	FT1A, FCT3A, FucT-VI, FLJ40754
19	FUT6	ENSG00000156413	ENST00000527106	protein_coding	KNOWN	CCDS12152	4017	1080	359	5830637	5838771	-1	None	FT1A, FCT3A, FucT-VI, FLJ40754
19	FUT6	ENSG00000156413	ENST00000286955	protein_coding	KNOWN	CCDS12152	4017	1080	359	5830785	5839728	-1	None	FT1A, FCT3A, FucT-VI, FLJ40754
19	FUT6	ENSG00000156413	ENST00000592563	protein_coding	KNOWN	None	4017	1095	364	5831389	5832578	-1	None	FT1A, FCT3A, FucT-VI, FLJ40754
19	FUT6	ENSG00000156413	ENST00000529165	protein_coding	KNOWN	None	4017	411	136	5832168	5838836	-1	None	FT1A, FCT3A, FucT-VI, FLJ40754
19	FUT6	ENSG00000156413	ENST00000531085	protein_coding	KNOWN	None	4017	207	68	5832372	5835088	-1	None	FT1A, FCT3A, FucT-VI, FLJ40754
19	FUT6	ENSG00000156413	ENST00000531199	protein_coding	KNOWN	None	4017	200	65	5832379	5838801	-1	None	FT1A, FCT3A, FucT-VI, FLJ40754
19	FUT6	ENSG00000156413	ENST00000532464	protein_coding	KNOWN	None	4017	134	43	5832445	5838743	-1	None	FT1A, FCT3A, FucT-VI, FLJ40754
19	FUT6	ENSG00000156413	ENST00000528505	protein_coding	KNOWN	None	4017	91	29	5832488	5838757	-1	None	FT1A, FCT3A, FucT-VI, FLJ40754
19	FUT6	ENSG00000156413	ENST00000526499	retained_intron	KNOWN	None	4017	None	None	5834783	5838741	-1	None	FT1A, FCT3A, FucT-VI, FLJ40754
19	FUT6	ENSG00000156413	ENST00000591079	retained_intron	KNOWN	None	4017	None	None	5837895	5839733	-1	None	FT1A, FCT3A, FucT-VI, FLJ40754
19	FUT6	ENSG00000156413	ENST00000318336	protein_coding	KNOWN	CCDS12152	4017	1080	359	5830637	5839742	-1	None	FT1A, FCT3A, FucT-VI, FLJ40754
10	SFXN2	ENSG00000156398	ENST00000602831	protein_coding	KNOWN	None	16086	503	166	104474295	104489147	1	None	None
10	SFXN2	ENSG00000156398	ENST00000369893	protein_coding	KNOWN	CCDS7539	16086	969	322	104474297	104498951	1	None	None
10	SFXN2	ENSG00000156398	ENST00000602287	retained_intron	KNOWN	None	16086	None	None	104474358	104488333	1	None	None
10	SFXN2	ENSG00000156398	ENST00000480358	nonsense_mediated_decay	KNOWN	None	16086	462	153	104474384	104498952	1	None	None
10	SFXN2	ENSG00000156398	ENST00000602544	nonsense_mediated_decay	KNOWN	None	16086	339	112	104474388	104488268	1	None	None
10	SFXN2	ENSG00000156398	ENST00000602647	protein_coding	PUTATIVE	None	16086	57	18	104474392	104486414	1	None	None
10	SFXN2	ENSG00000156398	ENST00000602785	processed_transcript	KNOWN	None	16086	None	None	104474393	104487459	1	None	None
10	SFXN2	ENSG00000156398	ENST00000602439	protein_coding	PUTATIVE	None	16086	414	137	104474393	104488242	1	None	None
10	SFXN2	ENSG00000156398	ENST00000602764	protein_coding	KNOWN	None	16086	405	134	104474393	104488260	1	None	None
10	SFXN2	ENSG00000156398	ENST00000459894	nonsense_mediated_decay	KNOWN	None	16086	561	186	104474393	104498946	1	None	None
10	SFXN2	ENSG00000156398	ENST00000602670	nonsense_mediated_decay	KNOWN	None	16086	204	67	104474395	104487526	1	None	None
10	SFXN2	ENSG00000156398	ENST00000602660	retained_intron	KNOWN	None	16086	None	None	104474416	104489263	1	None	None
10	SFXN2	ENSG00000156398	ENST00000602868	protein_coding	KNOWN	None	16086	505	167	104486257	104489149	1	None	None
8	SH2D4A	ENSG00000104611	ENST00000265807	protein_coding	KNOWN	CCDS6009	26102	1365	454	19171128	19253729	1	None	FLJ20967, SH2A, PPP1R38
8	SH2D4A	ENSG00000104611	ENST00000518040	protein_coding	PUTATIVE	CCDS55206	26102	1230	409	19171207	19252538	1	None	FLJ20967, SH2A, PPP1R38
8	SH2D4A	ENSG00000104611	ENST00000519207	protein_coding	KNOWN	CCDS6009	26102	1365	454	19171487	19252464	1	None	FLJ20967, SH2A, PPP1R38
8	SH2D4A	ENSG00000104611	ENST00000523736	protein_coding	NOVEL	None	26102	567	188	19177101	19218809	1	None	FLJ20967, SH2A, PPP1R38
8	SH2D4A	ENSG00000104611	ENST00000518093	retained_intron	KNOWN	None	26102	None	None	19218299	19221610	1	None	FLJ20967, SH2A, PPP1R38
8	SH2D4A	ENSG00000104611	ENST00000522328	retained_intron	KNOWN	None	26102	None	None	19221320	19231128	1	None	FLJ20967, SH2A, PPP1R38
X	PIGA	ENSG00000165195	ENST00000333590	protein_coding	KNOWN	CCDS14165	8957	1455	484	15337578	15353645	-1	None	GPI3
X	PIGA	ENSG00000165195	ENST00000482148	processed_transcript	KNOWN	None	8957	None	None	15339549	15350114	-1	None	GPI3
X	PIGA	ENSG00000165195	ENST00000475746	processed_transcript	KNOWN	None	8957	None	None	15339823	15343222	-1	None	GPI3
X	PIGA	ENSG00000165195	ENST00000463173	retained_intron	KNOWN	None	8957	None	None	15339835	15343394	-1	None	GPI3
X	PIGA	ENSG00000165195	ENST00000474662	processed_transcript	KNOWN	None	8957	None	None	15343151	15353647	-1	None	GPI3
X	PIGA	ENSG00000165195	ENST00000542278	protein_coding	KNOWN	CCDS48086	8957	753	250	15337573	15353676	-1	None	GPI3
X	PIGA	ENSG00000165195	ENST00000428964	protein_coding	KNOWN	None	8957	510	169	15337582	15353660	-1	None	GPI3
16	NUBP2	ENSG00000095906	ENST00000262302	protein_coding	KNOWN	CCDS10445	8042	816	271	1832902	1839192	1	None	CFD1
16	NUBP2	ENSG00000095906	ENST00000566447	retained_intron	KNOWN	None	8042	None	None	1832933	1837025	1	None	CFD1
16	NUBP2	ENSG00000095906	ENST00000568834	nonsense_mediated_decay	KNOWN	None	8042	141	46	1832933	1839182	1	None	CFD1
16	NUBP2	ENSG00000095906	ENST00000567700	retained_intron	KNOWN	None	8042	None	None	1832933	1839184	1	None	CFD1
16	NUBP2	ENSG00000095906	ENST00000566090	retained_intron	KNOWN	None	8042	None	None	1832957	1837265	1	None	CFD1
16	NUBP2	ENSG00000095906	ENST00000563136	protein_coding	NOVEL	None	8042	417	138	1832969	1837741	1	None	CFD1
16	NUBP2	ENSG00000095906	ENST00000565987	protein_coding	PUTATIVE	None	8042	636	211	1832991	1838727	1	None	CFD1
16	NUBP2	ENSG00000095906	ENST00000568287	protein_coding	NOVEL	None	8042	813	270	1832996	1838001	1	None	CFD1
16	NUBP2	ENSG00000095906	ENST00000565603	retained_intron	KNOWN	None	8042	None	None	1832997	1838768	1	None	CFD1
16	NUBP2	ENSG00000095906	ENST00000569898	nonsense_mediated_decay	KNOWN	None	8042	141	46	1833000	1838681	1	None	CFD1
16	NUBP2	ENSG00000095906	ENST00000565134	protein_coding	PUTATIVE	None	8042	756	251	1833008	1838614	1	None	CFD1
16	NUBP2	ENSG00000095906	ENST00000564227	nonsense_mediated_decay	KNOWN	None	8042	175	57	1833024	1837778	1	None	CFD1
16	NUBP2	ENSG00000095906	ENST00000562263	protein_coding	PUTATIVE	None	8042	433	143	1833854	1838151	1	None	CFD1
16	NUBP2	ENSG00000095906	ENST00000568706	protein_coding	PUTATIVE	None	8042	393	130	1834011	1838970	1	None	CFD1
16	NUBP2	ENSG00000095906	ENST00000568610	processed_transcript	PUTATIVE	None	8042	None	None	1834461	1836131	1	None	CFD1
16	NUBP2	ENSG00000095906	ENST00000563821	retained_intron	KNOWN	None	8042	None	None	1834712	1836946	1	None	CFD1
16	NUBP2	ENSG00000095906	ENST00000543305	protein_coding	KNOWN	None	8042	393	130	1832991	1839083	1	None	CFD1
HSCHR6_MHC_MANN	OR2H2	ENSG00000227044	ENST00000454628	protein_coding	KNOWN	None	8253	939	312	29555313	29556375	1	None	hs6M1-12
HSCHR6_MHC_COX	MDC1	ENSG00000224587	ENST00000420019	protein_coding	KNOWN	None	21163	6270	2089	30657449	30675531	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_COX	MDC1	ENSG00000224587	ENST00000484660	retained_intron	KNOWN	None	21163	None	None	30657957	30661724	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_COX	MDC1	ENSG00000224587	ENST00000445130	protein_coding	KNOWN	None	21163	916	304	30663091	30669556	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_COX	MDC1	ENSG00000224587	ENST00000477705	retained_intron	KNOWN	None	21163	None	None	30663225	30665327	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_COX	MDC1	ENSG00000224587	ENST00000473187	processed_transcript	KNOWN	None	21163	None	None	30669114	30669573	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_COX	MDC1	ENSG00000224587	ENST00000441397	protein_coding	KNOWN	None	21163	487	161	30671475	30674817	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_COX	MDC1	ENSG00000224587	ENST00000424437	protein_coding	KNOWN	None	21163	380	125	30671582	30675089	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_COX	MDC1	ENSG00000224587	ENST00000413973	protein_coding	KNOWN	None	21163	340	112	30671622	30674763	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_COX	MDC1	ENSG00000224587	ENST00000550004	protein_coding	KNOWN	None	21163	5478	1825	30657450	30675323	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_COX	MDC1	ENSG00000224587	ENST00000548112	protein_coding	KNOWN	None	21163	5409	1802	30657450	30675323	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_COX	MDC1	ENSG00000224587	ENST00000548103	protein_coding	KNOWN	None	21163	735	244	30658037	30675323	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_COX	MDC1	ENSG00000224587	ENST00000552474	protein_coding	KNOWN	None	21163	732	243	30670850	30675323	-1	None	NFBD1, KIAA0170, Em:AB023051.5
X	FTHL17	ENSG00000132446	ENST00000359202	protein_coding	KNOWN	CCDS14227	3987	552	183	31089360	31090170	-1	None	CT38
16	GLIS2	ENSG00000126603	ENST00000262366	protein_coding	KNOWN	CCDS10511	29450	1575	524	4364762	4389598	1	None	NPHP7
16	GLIS2	ENSG00000126603	ENST00000433375	protein_coding	KNOWN	CCDS10511	29450	1575	524	4382225	4389598	1	None	NPHP7
22	MPST	ENSG00000128309	ENST00000401419	protein_coding	KNOWN	CCDS13939	7223	894	297	37415676	37425842	1	None	MST, TST2
22	MPST	ENSG00000128309	ENST00000404802	protein_coding	KNOWN	CCDS13939	7223	894	297	37415737	37425835	1	None	MST, TST2
22	MPST	ENSG00000128309	ENST00000341116	protein_coding	KNOWN	CCDS13939	7223	894	297	37415809	37425860	1	None	MST, TST2
22	MPST	ENSG00000128309	ENST00000429360	protein_coding	KNOWN	CCDS13939	7223	894	297	37415809	37425863	1	None	MST, TST2
22	MPST	ENSG00000128309	ENST00000404393	protein_coding	NOVEL	None	7223	675	224	37415813	37425837	1	None	MST, TST2
22	MPST	ENSG00000128309	ENST00000485587	retained_intron	KNOWN	None	7223	None	None	37415839	37425853	1	None	MST, TST2
22	MPST	ENSG00000128309	ENST00000397225	protein_coding	KNOWN	CCDS13939	7223	894	297	37419078	37425862	1	None	MST, TST2
22	MPST	ENSG00000128309	ENST00000397129	protein_coding	KNOWN	CCDS46703	7223	954	317	37415702	37425862	1	None	MST, TST2
5	None	ENSG00000221073	ENST00000408146	miRNA	NOVEL	None	None	None	None	54148674	54148776	-1	None	None
17	SLC6A4	ENSG00000108576	ENST00000401766	protein_coding	KNOWN	CCDS11256	11050	1893	630	28521337	28563020	-1	HTT	5-HTT, SERT1
17	SLC6A4	ENSG00000108576	ENST00000579221	nonsense_mediated_decay	KNOWN	None	11050	217	71	28524939	28538387	-1	HTT	5-HTT, SERT1
17	SLC6A4	ENSG00000108576	ENST00000578609	retained_intron	KNOWN	None	11050	None	None	28525494	28530700	-1	HTT	5-HTT, SERT1
17	SLC6A4	ENSG00000108576	ENST00000394821	protein_coding	KNOWN	None	11050	1854	617	28525513	28562716	-1	HTT	5-HTT, SERT1
17	SLC6A4	ENSG00000108576	ENST00000261707	protein_coding	KNOWN	CCDS11256	11050	1893	630	28523395	28562954	-1	HTT	5-HTT, SERT1
19	None	ENSG00000268565	ENST00000598070	antisense	KNOWN	None	None	None	None	4654976	4655536	-1	None	None
HSCHR6_MHC_MCF	HCG4P3	ENSG00000223892	ENST00000413460	unprocessed_pseudogene	KNOWN	None	22922	None	None	30052365	30053360	-1	None	HCGIV-03, HCGIV.2, HCGIV-3
5	None	ENSG00000226810	ENST00000505369	processed_pseudogene	KNOWN	None	None	None	None	54153100	54154319	1	None	None
19	RN7SL150P	ENSG00000240626	ENST00000462298	misc_RNA	KNOWN	None	46166	None	None	34418268	34418530	-1	None	None
19	None	ENSG00000205790	ENST00000381796	processed_transcript	KNOWN	None	None	None	None	4679294	4685960	1	None	None
19	RPS4XP23	ENSG00000239253	ENST00000487801	processed_pseudogene	KNOWN	None	48367	None	None	34512564	34512800	1	None	None
5	None	ENSG00000249843	ENST00000515450	processed_pseudogene	KNOWN	None	None	None	None	54174066	54174416	1	None	None
19	None	ENSG00000266209	ENST00000579411	miRNA	NOVEL	None	None	None	None	4726303	4726391	-1	None	None
20	CRLS1	ENSG00000088766	ENST00000378863	protein_coding	KNOWN	CCDS13096	16148	906	301	5986736	6020699	1	C20orf155	dJ967N21.6, CLS1, GCD10
20	CRLS1	ENSG00000088766	ENST00000489345	processed_transcript	KNOWN	None	16148	None	None	5990425	6015169	1	C20orf155	dJ967N21.6, CLS1, GCD10
20	CRLS1	ENSG00000088766	ENST00000464921	processed_transcript	KNOWN	None	16148	None	None	6008917	6015201	1	C20orf155	dJ967N21.6, CLS1, GCD10
20	CRLS1	ENSG00000088766	ENST00000478846	processed_transcript	KNOWN	None	16148	None	None	6011809	6018037	1	C20orf155	dJ967N21.6, CLS1, GCD10
20	CRLS1	ENSG00000088766	ENST00000452938	protein_coding	KNOWN	None	16148	618	205	5986796	6018037	1	C20orf155	dJ967N21.6, CLS1, GCD10
20	CRLS1	ENSG00000088766	ENST00000378868	protein_coding	KNOWN	CCDS46578	16148	609	202	5987898	6020695	1	C20orf155	dJ967N21.6, CLS1, GCD10
5	PPARGC1B	ENSG00000155846	ENST00000360453	protein_coding	NOVEL	CCDS54933	30022	2955	984	149109861	149227125	1	None	PERC, PGC1B
5	PPARGC1B	ENSG00000155846	ENST00000394320	protein_coding	KNOWN	None	30022	3054	1017	149109864	149227267	1	None	PERC, PGC1B
5	PPARGC1B	ENSG00000155846	ENST00000461780	processed_transcript	KNOWN	None	30022	None	None	149109866	149197309	1	None	PERC, PGC1B
5	PPARGC1B	ENSG00000155846	ENST00000309241	protein_coding	KNOWN	CCDS4298	30022	3072	1023	149109874	149234585	1	None	PERC, PGC1B
5	PPARGC1B	ENSG00000155846	ENST00000403750	protein_coding	NOVEL	CCDS54934	30022	2880	959	149151503	149227190	1	None	PERC, PGC1B
5	PPARGC1B	ENSG00000155846	ENST00000434684	protein_coding	PUTATIVE	None	30022	2245	747	149212578	149227281	1	None	PERC, PGC1B
5	PPARGC1B	ENSG00000155846	ENST00000492495	retained_intron	KNOWN	None	30022	None	None	149225206	149227320	1	None	PERC, PGC1B
HSCHR6_MHC_MCF	HLA-J	ENSG00000226586	ENST00000460029	processed_transcript	KNOWN	None	4967	None	None	30052827	30056200	1	HLA-CDA12, D6S203	CDA12, HLA-59
HSCHR6_MHC_MCF	HLA-J	ENSG00000226586	ENST00000473052	processed_transcript	KNOWN	None	4967	None	None	30052831	30056200	1	HLA-CDA12, D6S203	CDA12, HLA-59
HSCHR6_MHC_MCF	HLA-J	ENSG00000226586	ENST00000495086	processed_transcript	KNOWN	None	4967	None	None	30052840	30056200	1	HLA-CDA12, D6S203	CDA12, HLA-59
HSCHR6_MHC_MCF	HLA-J	ENSG00000226586	ENST00000463360	transcribed_unprocessed_pseudogene	KNOWN	None	4967	None	None	30052850	30055783	1	HLA-CDA12, D6S203	CDA12, HLA-59
20	RN7SL638P	ENSG00000243702	ENST00000494527	misc_RNA	KNOWN	None	46654	None	None	18572974	18573261	1	None	None
4	None	ENSG00000211553	ENST00000390127	miRNA	KNOWN	None	None	None	None	130242	130349	1	None	None
17	None	ENSG00000214844	ENST00000415171	protein_coding	NOVEL	None	None	96	31	19041448	19041895	-1	None	None
7	TNPO3	ENSG00000064419	ENST00000265388	protein_coding	KNOWN	CCDS5809	17103	2772	923	128595142	128694968	-1	None	TRN-SR, MTR10A, TRN-SR2, IPO12
7	TNPO3	ENSG00000064419	ENST00000482320	protein_coding	PUTATIVE	None	17103	2574	857	128595142	128695147	-1	None	TRN-SR, MTR10A, TRN-SR2, IPO12
7	TNPO3	ENSG00000064419	ENST00000471234	protein_coding	NOVEL	CCDS55162	17103	2580	859	128595142	128695198	-1	None	TRN-SR, MTR10A, TRN-SR2, IPO12
7	TNPO3	ENSG00000064419	ENST00000471166	protein_coding	KNOWN	None	17103	2874	957	128597277	128694937	-1	None	TRN-SR, MTR10A, TRN-SR2, IPO12
7	TNPO3	ENSG00000064419	ENST00000393245	protein_coding	KNOWN	None	17103	2874	957	128594948	128695198	-1	None	TRN-SR, MTR10A, TRN-SR2, IPO12
20	FAM110A	ENSG00000125898	ENST00000381941	protein_coding	KNOWN	CCDS13008	16188	888	295	814358	826922	1	C20orf55	bA371L19.3
20	FAM110A	ENSG00000125898	ENST00000304189	protein_coding	KNOWN	CCDS13008	16188	888	295	814420	826922	1	C20orf55	bA371L19.3
20	FAM110A	ENSG00000125898	ENST00000381939	protein_coding	KNOWN	CCDS13008	16188	888	295	814427	826922	1	C20orf55	bA371L19.3
20	FAM110A	ENSG00000125898	ENST00000246100	protein_coding	KNOWN	CCDS13008	16188	888	295	816711	826922	1	C20orf55	bA371L19.3
20	FAM110A	ENSG00000125898	ENST00000541082	protein_coding	KNOWN	CCDS13008	16188	888	295	825285	826922	1	C20orf55	bA371L19.3
1	METTL18	ENSG00000171806	ENST00000303469	protein_coding	KNOWN	CCDS1284	28793	1119	372	169761670	169763830	-1	C1orf156	MGC9084, AsTP2, HPM1
1	METTL18	ENSG00000171806	ENST00000310392	protein_coding	KNOWN	CCDS1284	28793	1119	372	169761670	169764107	-1	C1orf156	MGC9084, AsTP2, HPM1
1	METTL18	ENSG00000171806	ENST00000454472	protein_coding	KNOWN	None	28793	554	183	169762283	169764104	-1	C1orf156	MGC9084, AsTP2, HPM1
4	None	ENSG00000250892	ENST00000507880	unprocessed_pseudogene	KNOWN	None	None	None	None	195198	198798	-1	None	None
4	None	ENSG00000250642	ENST00000506095	unprocessed_pseudogene	KNOWN	None	None	None	None	69148179	69151677	-1	None	None
5	None	ENSG00000240535	ENST00000371487	antisense	KNOWN	None	None	None	None	54317127	54319997	-1	None	None
5	None	ENSG00000240535	ENST00000595218	antisense	KNOWN	None	None	None	None	54317177	54330098	-1	None	None
5	None	ENSG00000240535	ENST00000596909	antisense	KNOWN	None	None	None	None	54317187	54320940	-1	None	None
5	None	ENSG00000240535	ENST00000596137	antisense	KNOWN	None	None	None	None	54318457	54328394	-1	None	None
19	RPS4XP20	ENSG00000249987	ENST00000505751	processed_pseudogene	KNOWN	None	36437	None	None	34513561	34514332	-1	RPS4P20	None
16	TSC2	ENSG00000103197	ENST00000219476	protein_coding	KNOWN	CCDS10458	12363	5424	1807	2097466	2138713	1	TSC4	tuberin, LAM
16	TSC2	ENSG00000103197	ENST00000382538	protein_coding	PUTATIVE	None	12363	5079	1692	2097981	2138701	1	TSC4	tuberin, LAM
16	TSC2	ENSG00000103197	ENST00000401874	protein_coding	KNOWN	CCDS58408	12363	5223	1740	2097990	2138703	1	TSC4	tuberin, LAM
16	TSC2	ENSG00000103197	ENST00000461648	retained_intron	KNOWN	None	12363	None	None	2097991	2104083	1	TSC4	tuberin, LAM
16	TSC2	ENSG00000103197	ENST00000439673	protein_coding	KNOWN	None	12363	5115	1704	2098015	2138702	1	TSC4	tuberin, LAM
16	TSC2	ENSG00000103197	ENST00000350773	protein_coding	KNOWN	CCDS45384	12363	5355	1784	2098021	2138713	1	TSC4	tuberin, LAM
16	TSC2	ENSG00000103197	ENST00000439117	nonsense_mediated_decay	KNOWN	None	12363	327	108	2098034	2138704	1	TSC4	tuberin, LAM
16	TSC2	ENSG00000103197	ENST00000568454	protein_coding	PUTATIVE	None	12363	5256	1751	2098203	2138716	1	TSC4	tuberin, LAM
16	TSC2	ENSG00000103197	ENST00000432909	protein_coding	NOVEL	None	12363	374	123	2103434	2105521	1	TSC4	tuberin, LAM
16	TSC2	ENSG00000103197	ENST00000568692	retained_intron	KNOWN	None	12363	None	None	2104297	2105893	1	TSC4	tuberin, LAM
16	TSC2	ENSG00000103197	ENST00000467949	protein_coding	NOVEL	None	12363	590	195	2106162	2113047	1	TSC4	tuberin, LAM
16	TSC2	ENSG00000103197	ENST00000463601	retained_intron	KNOWN	None	12363	None	None	2111590	2113048	1	TSC4	tuberin, LAM
16	TSC2	ENSG00000103197	ENST00000568566	nonsense_mediated_decay	KNOWN	None	12363	93	30	2112519	2121573	1	TSC4	tuberin, LAM
16	TSC2	ENSG00000103197	ENST00000490108	retained_intron	KNOWN	None	12363	None	None	2112839	2115629	1	TSC4	tuberin, LAM
16	TSC2	ENSG00000103197	ENST00000568238	retained_intron	KNOWN	None	12363	None	None	2114072	2115584	1	TSC4	tuberin, LAM
16	TSC2	ENSG00000103197	ENST00000488675	retained_intron	KNOWN	None	12363	None	None	2115414	2121898	1	TSC4	tuberin, LAM
16	TSC2	ENSG00000103197	ENST00000562474	processed_transcript	KNOWN	None	12363	None	None	2116230	2121535	1	TSC4	tuberin, LAM
16	TSC2	ENSG00000103197	ENST00000563346	retained_intron	KNOWN	None	12363	None	None	2121770	2124329	1	TSC4	tuberin, LAM
16	TSC2	ENSG00000103197	ENST00000463808	retained_intron	KNOWN	None	12363	None	None	2122596	2124653	1	TSC4	tuberin, LAM
16	TSC2	ENSG00000103197	ENST00000483020	nonsense_mediated_decay	KNOWN	None	12363	108	35	2126148	2129596	1	TSC4	tuberin, LAM
16	TSC2	ENSG00000103197	ENST00000471143	nonsense_mediated_decay	KNOWN	None	12363	97	31	2126159	2129624	1	TSC4	tuberin, LAM
16	TSC2	ENSG00000103197	ENST00000568366	processed_transcript	KNOWN	None	12363	None	None	2127405	2130178	1	TSC4	tuberin, LAM
16	TSC2	ENSG00000103197	ENST00000497886	retained_intron	KNOWN	None	12363	None	None	2128240	2138712	1	TSC4	tuberin, LAM
16	TSC2	ENSG00000103197	ENST00000561695	retained_intron	KNOWN	None	12363	None	None	2128921	2129603	1	TSC4	tuberin, LAM
16	TSC2	ENSG00000103197	ENST00000569930	retained_intron	KNOWN	None	12363	None	None	2132698	2138693	1	TSC4	tuberin, LAM
16	TSC2	ENSG00000103197	ENST00000569110	protein_coding	NOVEL	None	12363	1606	534	2133191	2138692	1	TSC4	tuberin, LAM
16	TSC2	ENSG00000103197	ENST00000353929	protein_coding	KNOWN	None	12363	5295	1764	2097990	2138712	1	TSC4	tuberin, LAM
3	COL6A5	ENSG00000172752	ENST00000312481	nonsense_mediated_decay	KNOWN	None	26674	7848	2615	130064359	130203688	1	COL29A1	FLJ35880, VWA4
3	COL6A5	ENSG00000172752	ENST00000512836	protein_coding	PUTATIVE	None	26674	2335	777	130150307	130203688	1	COL29A1	FLJ35880, VWA4
3	COL6A5	ENSG00000172752	ENST00000373157	protein_coding	KNOWN	None	26674	1674	557	130159354	130203000	1	COL29A1	FLJ35880, VWA4
3	COL6A5	ENSG00000172752	ENST00000512482	protein_coding	KNOWN	None	26674	1332	443	130162328	130196182	1	COL29A1	FLJ35880, VWA4
3	COL6A5	ENSG00000172752	ENST00000432398	protein_coding	KNOWN	None	26674	7581	2526	130064359	130203688	1	COL29A1	FLJ35880, VWA4
3	COL6A5	ENSG00000172752	ENST00000265379	protein_coding	KNOWN	None	26674	7848	2615	130064359	130203688	1	COL29A1	FLJ35880, VWA4
16	ZNF688	ENSG00000229809	ENST00000223459	protein_coding	KNOWN	CCDS10684	30489	831	276	30580667	30584055	-1	None	None
16	ZNF688	ENSG00000229809	ENST00000563276	protein_coding	KNOWN	None	30489	762	253	30581264	30584055	-1	None	None
16	ZNF688	ENSG00000229809	ENST00000563665	retained_intron	KNOWN	None	30489	None	None	30581396	30582993	-1	None	None
16	ZNF688	ENSG00000229809	ENST00000562455	retained_intron	KNOWN	None	30489	None	None	30581499	30582848	-1	None	None
16	ZNF688	ENSG00000229809	ENST00000566632	protein_coding	NOVEL	None	30489	427	141	30581541	30582641	-1	None	None
16	ZNF688	ENSG00000229809	ENST00000567855	protein_coding	PUTATIVE	None	30489	333	110	30582055	30582973	-1	None	None
16	ZNF688	ENSG00000229809	ENST00000563707	protein_coding	PUTATIVE	None	30489	219	72	30582220	30582956	-1	None	None
16	ZNF688	ENSG00000229809	ENST00000395219	protein_coding	KNOWN	CCDS42151	30489	789	262	30581028	30583728	-1	None	None
4	ZNF876P	ENSG00000198155	ENST00000356347	processed_transcript	KNOWN	None	32472	None	None	206399	249774	1	None	None
4	ZNF876P	ENSG00000198155	ENST00000398732	transcribed_unprocessed_pseudogene	KNOWN	None	32472	None	None	212439	248630	1	None	None
19	MIR7-3HG	ENSG00000176840	ENST00000317292	lincRNA	KNOWN	None	30049	None	None	4769152	4772545	1	C19orf30, NCRNA00306, LINC00306	PGSF1, PGSF1a, PGSF1b
19	MIR7-3HG	ENSG00000176840	ENST00000586721	lincRNA	KNOWN	None	30049	None	None	4769152	4772545	1	C19orf30, NCRNA00306, LINC00306	PGSF1, PGSF1a, PGSF1b
19	MIR7-3HG	ENSG00000176840	ENST00000592709	lincRNA	KNOWN	None	30049	None	None	4769153	4772529	1	C19orf30, NCRNA00306, LINC00306	PGSF1, PGSF1a, PGSF1b
19	MIR7-3HG	ENSG00000176840	ENST00000588711	lincRNA	KNOWN	None	30049	None	None	4769154	4772511	1	C19orf30, NCRNA00306, LINC00306	PGSF1, PGSF1a, PGSF1b
19	MIR7-3HG	ENSG00000176840	ENST00000589639	lincRNA	KNOWN	None	30049	None	None	4769179	4772426	1	C19orf30, NCRNA00306, LINC00306	PGSF1, PGSF1a, PGSF1b
19	MIR7-3HG	ENSG00000176840	ENST00000591008	lincRNA	KNOWN	None	30049	None	None	4769198	4770412	1	C19orf30, NCRNA00306, LINC00306	PGSF1, PGSF1a, PGSF1b
19	MIR7-3HG	ENSG00000176840	ENST00000592663	lincRNA	KNOWN	None	30049	None	None	4769293	4772374	1	C19orf30, NCRNA00306, LINC00306	PGSF1, PGSF1a, PGSF1b
19	MIR7-3HG	ENSG00000176840	ENST00000588758	lincRNA	KNOWN	None	30049	None	None	4769293	4772529	1	C19orf30, NCRNA00306, LINC00306	PGSF1, PGSF1a, PGSF1b
19	MIR7-3HG	ENSG00000176840	ENST00000588923	lincRNA	KNOWN	None	30049	None	None	4770161	4772545	1	C19orf30, NCRNA00306, LINC00306	PGSF1, PGSF1a, PGSF1b
19	MIR7-3HG	ENSG00000176840	ENST00000589368	lincRNA	KNOWN	None	30049	None	None	4770385	4772526	1	C19orf30, NCRNA00306, LINC00306	PGSF1, PGSF1a, PGSF1b
19	MIR7-3HG	ENSG00000176840	ENST00000540211	lincRNA	KNOWN	None	30049	None	None	4769117	4770196	1	C19orf30, NCRNA00306, LINC00306	PGSF1, PGSF1a, PGSF1b
HSCHR6_MHC_COX	C2	ENSG00000235017	ENST00000498138	processed_transcript	PUTATIVE	None	1248	None	None	31853114	31901001	1	None	None
HSCHR6_MHC_COX	C2	ENSG00000235017	ENST00000418584	protein_coding	KNOWN	None	1248	508	168	31856326	31894580	1	None	None
HSCHR6_MHC_COX	C2	ENSG00000235017	ENST00000431247	protein_coding	KNOWN	None	1248	476	157	31856331	31889624	1	None	None
HSCHR6_MHC_COX	C2	ENSG00000235017	ENST00000488666	processed_transcript	KNOWN	None	1248	None	None	31875270	31892788	1	None	None
HSCHR6_MHC_COX	C2	ENSG00000235017	ENST00000458410	protein_coding	KNOWN	None	1248	419	138	31875313	31884223	1	None	None
HSCHR6_MHC_COX	C2	ENSG00000235017	ENST00000462325	processed_transcript	KNOWN	None	1248	None	None	31875425	31891319	1	None	None
HSCHR6_MHC_COX	C2	ENSG00000235017	ENST00000416252	protein_coding	KNOWN	None	1248	2259	752	31882821	31901001	1	None	None
HSCHR6_MHC_COX	C2	ENSG00000235017	ENST00000445056	protein_coding	KNOWN	None	1248	377	124	31882854	31889059	1	None	None
HSCHR6_MHC_COX	C2	ENSG00000235017	ENST00000421932	protein_coding	KNOWN	None	1248	1059	352	31882860	31898648	1	None	None
HSCHR6_MHC_COX	C2	ENSG00000235017	ENST00000473998	retained_intron	KNOWN	None	1248	None	None	31883032	31890387	1	None	None
HSCHR6_MHC_COX	C2	ENSG00000235017	ENST00000419062	protein_coding	KNOWN	None	1248	1578	525	31883092	31901001	1	None	None
HSCHR6_MHC_COX	C2	ENSG00000235017	ENST00000479997	processed_transcript	PUTATIVE	None	1248	None	None	31887677	31889611	1	None	None
HSCHR6_MHC_COX	C2	ENSG00000235017	ENST00000461900	processed_transcript	KNOWN	None	1248	None	None	31889612	31899087	1	None	None
HSCHR6_MHC_COX	C2	ENSG00000235017	ENST00000482418	retained_intron	KNOWN	None	1248	None	None	31891384	31901001	1	None	None
HSCHR6_MHC_COX	C2	ENSG00000235017	ENST00000469807	processed_transcript	KNOWN	None	1248	None	None	31899002	31901001	1	None	None
HSCHR6_MHC_COX	C2	ENSG00000235017	ENST00000551081	protein_coding	KNOWN	None	1248	1863	620	31882818	31900998	1	None	None
HSCHR6_MHC_COX	C2	ENSG00000235017	ENST00000550363	protein_coding	KNOWN	None	1248	1134	377	31882818	31900998	1	None	None
10	FANK1	ENSG00000203780	ENST00000368695	protein_coding	KNOWN	None	23527	1020	339	127585108	127698161	1	None	None
10	FANK1	ENSG00000203780	ENST00000417114	protein_coding	KNOWN	None	23527	371	122	127661942	127684058	1	None	None
10	FANK1	ENSG00000203780	ENST00000494896	processed_transcript	KNOWN	None	23527	None	None	127661999	127669465	1	None	None
10	FANK1	ENSG00000203780	ENST00000445510	protein_coding	KNOWN	None	23527	398	131	127662068	127684067	1	None	None
10	FANK1	ENSG00000203780	ENST00000368691	protein_coding	KNOWN	None	23527	849	282	127662084	127698023	1	None	None
10	FANK1	ENSG00000203780	ENST00000368689	protein_coding	KNOWN	None	23527	402	133	127663464	127684127	1	None	None
10	FANK1	ENSG00000203780	ENST00000492670	processed_transcript	KNOWN	None	23527	None	None	127677120	127698161	1	None	None
10	FANK1	ENSG00000203780	ENST00000456942	protein_coding	KNOWN	None	23527	599	198	127683986	127698161	1	None	None
10	FANK1	ENSG00000203780	ENST00000464130	processed_transcript	KNOWN	None	23527	None	None	127684008	127698161	1	None	None
10	FANK1	ENSG00000203780	ENST00000477963	processed_transcript	KNOWN	None	23527	None	None	127692717	127698159	1	None	None
10	FANK1	ENSG00000203780	ENST00000368693	protein_coding	KNOWN	CCDS31309	23527	1038	345	127585108	127698159	1	None	None
10	FANK1	ENSG00000203780	ENST00000449042	protein_coding	KNOWN	None	23527	441	146	127585180	127678056	1	None	None
4	None	ENSG00000250475	ENST00000513850	unprocessed_pseudogene	KNOWN	None	None	None	None	158889564	158890767	-1	None	None
10	FFAR4	ENSG00000186188	ENST00000371481	protein_coding	KNOWN	CCDS55720	19061	1086	361	95326422	95349829	1	GPR129, GPR120, O3FAR1	PGR4
10	FFAR4	ENSG00000186188	ENST00000371483	protein_coding	KNOWN	CCDS31248	19061	1134	377	95326422	95349829	1	GPR129, GPR120, O3FAR1	PGR4
10	FFAR4	ENSG00000186188	ENST00000604414	protein_coding	PUTATIVE	None	19061	711	236	95326439	95364237	1	GPR129, GPR120, O3FAR1	PGR4
8	PHF20L1	ENSG00000129292	ENST00000395383	protein_coding	NOVEL	None	24280	1665	554	133787618	133837579	1	None	CGI-72, FLJ13649, MGC64923, FLJ21615, TDRD20B
8	PHF20L1	ENSG00000129292	ENST00000395379	protein_coding	NOVEL	None	24280	936	311	133787621	133824133	1	None	CGI-72, FLJ13649, MGC64923, FLJ21615, TDRD20B
8	PHF20L1	ENSG00000129292	ENST00000361997	protein_coding	NOVEL	None	24280	1542	513	133787621	133831215	1	None	CGI-72, FLJ13649, MGC64923, FLJ21615, TDRD20B
8	PHF20L1	ENSG00000129292	ENST00000395386	protein_coding	PUTATIVE	CCDS6367	24280	3054	1017	133787630	133861052	1	None	CGI-72, FLJ13649, MGC64923, FLJ21615, TDRD20B
8	PHF20L1	ENSG00000129292	ENST00000485595	retained_intron	KNOWN	None	24280	None	None	133787644	133812175	1	None	CGI-72, FLJ13649, MGC64923, FLJ21615, TDRD20B
8	PHF20L1	ENSG00000129292	ENST00000315808	protein_coding	KNOWN	None	24280	1722	573	133787646	133837586	1	None	CGI-72, FLJ13649, MGC64923, FLJ21615, TDRD20B
8	PHF20L1	ENSG00000129292	ENST00000337920	protein_coding	NOVEL	CCDS6368	24280	858	285	133787654	133824561	1	None	CGI-72, FLJ13649, MGC64923, FLJ21615, TDRD20B
8	PHF20L1	ENSG00000129292	ENST00000395376	protein_coding	NOVEL	None	24280	951	316	133787826	133824561	1	None	CGI-72, FLJ13649, MGC64923, FLJ21615, TDRD20B
8	PHF20L1	ENSG00000129292	ENST00000522580	protein_coding	PUTATIVE	None	24280	259	85	133790035	133811062	1	None	CGI-72, FLJ13649, MGC64923, FLJ21615, TDRD20B
8	PHF20L1	ENSG00000129292	ENST00000395390	protein_coding	PUTATIVE	None	24280	2979	992	133790038	133861052	1	None	CGI-72, FLJ13649, MGC64923, FLJ21615, TDRD20B
8	PHF20L1	ENSG00000129292	ENST00000486199	nonsense_mediated_decay	KNOWN	None	24280	795	264	133790069	133837582	1	None	CGI-72, FLJ13649, MGC64923, FLJ21615, TDRD20B
8	PHF20L1	ENSG00000129292	ENST00000521038	nonsense_mediated_decay	KNOWN	None	24280	338	111	133811405	133823329	1	None	CGI-72, FLJ13649, MGC64923, FLJ21615, TDRD20B
8	PHF20L1	ENSG00000129292	ENST00000395374	protein_coding	PUTATIVE	None	24280	453	150	133815786	133825433	1	None	CGI-72, FLJ13649, MGC64923, FLJ21615, TDRD20B
8	PHF20L1	ENSG00000129292	ENST00000469979	retained_intron	KNOWN	None	24280	None	None	133818626	133837603	1	None	CGI-72, FLJ13649, MGC64923, FLJ21615, TDRD20B
8	PHF20L1	ENSG00000129292	ENST00000522253	retained_intron	KNOWN	None	24280	None	None	133829029	133836302	1	None	CGI-72, FLJ13649, MGC64923, FLJ21615, TDRD20B
8	PHF20L1	ENSG00000129292	ENST00000521698	retained_intron	KNOWN	None	24280	None	None	133829488	133837616	1	None	CGI-72, FLJ13649, MGC64923, FLJ21615, TDRD20B
8	PHF20L1	ENSG00000129292	ENST00000460236	nonsense_mediated_decay	KNOWN	None	24280	281	92	133829653	133859825	1	None	CGI-72, FLJ13649, MGC64923, FLJ21615, TDRD20B
8	PHF20L1	ENSG00000129292	ENST00000493126	retained_intron	KNOWN	None	24280	None	None	133848590	133850061	1	None	CGI-72, FLJ13649, MGC64923, FLJ21615, TDRD20B
8	PHF20L1	ENSG00000129292	ENST00000477051	retained_intron	KNOWN	None	24280	None	None	133853798	133859832	1	None	CGI-72, FLJ13649, MGC64923, FLJ21615, TDRD20B
8	PHF20L1	ENSG00000129292	ENST00000395382	protein_coding	KNOWN	None	24280	1332	443	133787875	133837365	1	None	CGI-72, FLJ13649, MGC64923, FLJ21615, TDRD20B
8	PHF20L1	ENSG00000129292	ENST00000220847	protein_coding	KNOWN	None	24280	1215	404	133787875	133858872	1	None	CGI-72, FLJ13649, MGC64923, FLJ21615, TDRD20B
HSCHR6_MHC_MCF	ETF1P1	ENSG00000228765	ENST00000458260	processed_pseudogene	KNOWN	None	3478	None	None	30077975	30079265	1	SUP45L2	HCGVII
16	RN7SKP142	ENSG00000223168	ENST00000411236	misc_RNA	KNOWN	None	45866	None	None	51705147	51705474	-1	None	None
16	DNAJA2	ENSG00000069345	ENST00000317089	protein_coding	KNOWN	CCDS10726	14884	1239	412	46989299	47007699	-1	None	HIRIP4, DNAJ, CPR3, DNJ3
16	DNAJA2	ENSG00000069345	ENST00000563158	nonsense_mediated_decay	KNOWN	None	14884	144	47	46990534	47007575	-1	None	HIRIP4, DNAJ, CPR3, DNJ3
16	DNAJA2	ENSG00000069345	ENST00000569553	retained_intron	KNOWN	None	14884	None	None	46992475	46993523	-1	None	HIRIP4, DNAJ, CPR3, DNJ3
16	DNAJA2	ENSG00000069345	ENST00000566791	protein_coding	PUTATIVE	None	14884	403	133	46998645	47006854	-1	None	HIRIP4, DNAJ, CPR3, DNJ3
4	None	ENSG00000248429	ENST00000503611	antisense	KNOWN	None	None	None	None	159091904	159124029	1	None	None
4	None	ENSG00000248429	ENST00000509463	antisense	KNOWN	None	None	None	None	159092380	159120603	1	None	None
4	None	ENSG00000248429	ENST00000505532	antisense	KNOWN	None	None	None	None	159092525	159122065	1	None	None
4	None	ENSG00000248429	ENST00000514381	antisense	KNOWN	None	None	None	None	159093729	159101078	1	None	None
4	None	ENSG00000248429	ENST00000508752	antisense	KNOWN	None	None	None	None	159097459	159122065	1	None	None
18	TTR	ENSG00000118271	ENST00000237014	protein_coding	KNOWN	CCDS11899	12405	444	147	29171689	29178974	1	PALB	HsT2651
18	TTR	ENSG00000118271	ENST00000432547	retained_intron	KNOWN	None	12405	None	None	29171840	29173508	1	PALB	HsT2651
18	TTR	ENSG00000118271	ENST00000541025	retained_intron	KNOWN	None	12405	None	None	29171840	29175812	1	PALB	HsT2651
19	ZNF560	ENSG00000198028	ENST00000301480	protein_coding	KNOWN	CCDS12214	26484	2373	790	9577183	9609283	-1	None	FLJ31986
19	ZNF560	ENSG00000198028	ENST00000585974	retained_intron	KNOWN	None	26484	None	None	9578841	9580568	-1	None	FLJ31986
3	CTDSPL	ENSG00000144677	ENST00000443503	protein_coding	KNOWN	CCDS33735	16890	798	265	37903451	38025960	1	C3orf8	HYA22, SCP3, PSR1, RBSP3
3	CTDSPL	ENSG00000144677	ENST00000273179	protein_coding	KNOWN	CCDS33734	16890	831	276	37903665	38025960	1	C3orf8	HYA22, SCP3, PSR1, RBSP3
3	CTDSPL	ENSG00000144677	ENST00000435525	nonsense_mediated_decay	KNOWN	None	16890	168	55	37903669	37988662	1	C3orf8	HYA22, SCP3, PSR1, RBSP3
3	CTDSPL	ENSG00000144677	ENST00000486978	processed_transcript	KNOWN	None	16890	None	None	37986205	38017277	1	C3orf8	HYA22, SCP3, PSR1, RBSP3
3	CTDSPL	ENSG00000144677	ENST00000310189	processed_transcript	KNOWN	None	16890	None	None	37995908	38022616	1	C3orf8	HYA22, SCP3, PSR1, RBSP3
3	CTDSPL	ENSG00000144677	ENST00000416688	protein_coding	PUTATIVE	None	16890	280	92	38006070	38009923	1	C3orf8	HYA22, SCP3, PSR1, RBSP3
3	CTDSPL	ENSG00000144677	ENST00000447745	protein_coding	PUTATIVE	None	16890	591	196	38006128	38025959	1	C3orf8	HYA22, SCP3, PSR1, RBSP3
3	CTDSPL	ENSG00000144677	ENST00000436654	protein_coding	PUTATIVE	None	16890	311	102	38017264	38023875	1	C3orf8	HYA22, SCP3, PSR1, RBSP3
12	DDIT3	ENSG00000175197	ENST00000547303	protein_coding	KNOWN	CCDS8943	2726	510	169	57910371	57914275	-1	None	CHOP10, GADD153, CHOP
12	DDIT3	ENSG00000175197	ENST00000551116	protein_coding	KNOWN	CCDS55838	2726	579	192	57910372	57914300	-1	None	CHOP10, GADD153, CHOP
12	DDIT3	ENSG00000175197	ENST00000346473	protein_coding	KNOWN	CCDS8943	2726	510	169	57910376	57914300	-1	None	CHOP10, GADD153, CHOP
12	DDIT3	ENSG00000175197	ENST00000552740	protein_coding	KNOWN	CCDS55838	2726	579	192	57910592	57914294	-1	None	CHOP10, GADD153, CHOP
12	DDIT3	ENSG00000175197	ENST00000547526	protein_coding	KNOWN	None	2726	435	144	57910736	57914294	-1	None	CHOP10, GADD153, CHOP
15	SNUPN	ENSG00000169371	ENST00000567134	protein_coding	KNOWN	CCDS10281	14245	1083	360	75890424	75918135	-1	RNUT1	SNURPORTIN-1, Snurportin1
15	SNUPN	ENSG00000169371	ENST00000308588	protein_coding	KNOWN	CCDS10281	14245	1083	360	75890424	75918156	-1	RNUT1	SNURPORTIN-1, Snurportin1
15	SNUPN	ENSG00000169371	ENST00000564644	protein_coding	KNOWN	CCDS10281	14245	1083	360	75890430	75918029	-1	RNUT1	SNURPORTIN-1, Snurportin1
15	SNUPN	ENSG00000169371	ENST00000564675	protein_coding	KNOWN	CCDS10281	14245	1083	360	75890463	75918034	-1	RNUT1	SNURPORTIN-1, Snurportin1
15	SNUPN	ENSG00000169371	ENST00000567437	retained_intron	KNOWN	None	14245	None	None	75890849	75897705	-1	RNUT1	SNURPORTIN-1, Snurportin1
15	SNUPN	ENSG00000169371	ENST00000568078	protein_coding	PUTATIVE	None	14245	603	200	75893132	75909865	-1	RNUT1	SNURPORTIN-1, Snurportin1
15	SNUPN	ENSG00000169371	ENST00000569817	protein_coding	KNOWN	None	14245	629	208	75897540	75918500	-1	RNUT1	SNURPORTIN-1, Snurportin1
15	SNUPN	ENSG00000169371	ENST00000564086	protein_coding	KNOWN	None	14245	408	135	75902231	75918810	-1	RNUT1	SNURPORTIN-1, Snurportin1
15	SNUPN	ENSG00000169371	ENST00000568162	protein_coding	KNOWN	None	14245	302	99	75909750	75917979	-1	RNUT1	SNURPORTIN-1, Snurportin1
15	SNUPN	ENSG00000169371	ENST00000563793	protein_coding	KNOWN	None	14245	191	62	75909861	75917520	-1	RNUT1	SNURPORTIN-1, Snurportin1
15	SNUPN	ENSG00000169371	ENST00000563875	protein_coding	KNOWN	None	14245	6	1	75913387	75918004	-1	RNUT1	SNURPORTIN-1, Snurportin1
15	SNUPN	ENSG00000169371	ENST00000371091	protein_coding	KNOWN	None	14245	1209	402	75890430	75918029	-1	RNUT1	SNURPORTIN-1, Snurportin1
12	GCN1L1	ENSG00000089154	ENST00000300648	protein_coding	KNOWN	CCDS41847	4199	8016	2671	120565007	120632513	-1	None	KIAA0219, GCN1, GCN1L
12	GCN1L1	ENSG00000089154	ENST00000549815	retained_intron	KNOWN	None	4199	None	None	120572404	120575194	-1	None	KIAA0219, GCN1, GCN1L
12	GCN1L1	ENSG00000089154	ENST00000547263	retained_intron	KNOWN	None	4199	None	None	120575820	120576742	-1	None	KIAA0219, GCN1, GCN1L
12	GCN1L1	ENSG00000089154	ENST00000548132	retained_intron	KNOWN	None	4199	None	None	120592833	120593491	-1	None	KIAA0219, GCN1, GCN1L
12	GCN1L1	ENSG00000089154	ENST00000551920	retained_intron	KNOWN	None	4199	None	None	120593152	120594918	-1	None	KIAA0219, GCN1, GCN1L
12	GCN1L1	ENSG00000089154	ENST00000547369	retained_intron	KNOWN	None	4199	None	None	120595757	120598107	-1	None	KIAA0219, GCN1, GCN1L
12	GCN1L1	ENSG00000089154	ENST00000550471	retained_intron	KNOWN	None	4199	None	None	120596264	120600038	-1	None	KIAA0219, GCN1, GCN1L
12	GCN1L1	ENSG00000089154	ENST00000551549	retained_intron	KNOWN	None	4199	None	None	120602475	120606218	-1	None	KIAA0219, GCN1, GCN1L
12	GCN1L1	ENSG00000089154	ENST00000548821	retained_intron	KNOWN	None	4199	None	None	120613593	120615593	-1	None	KIAA0219, GCN1, GCN1L
1	APITD1	ENSG00000175279	ENST00000309048	protein_coding	KNOWN	CCDS115	23163	417	138	10490500	10502866	1	None	CENPS, CENP-S, MHF1, FAAP16
1	APITD1	ENSG00000175279	ENST00000602486	processed_transcript	KNOWN	None	23163	None	None	10490569	10491187	1	None	CENPS, CENP-S, MHF1, FAAP16
1	APITD1	ENSG00000175279	ENST00000477755	protein_coding	PUTATIVE	None	23163	229	75	10490840	10502391	1	None	CENPS, CENP-S, MHF1, FAAP16
1	APITD1	ENSG00000175279	ENST00000462462	processed_transcript	KNOWN	None	23163	None	None	10491180	10502559	1	None	CENPS, CENP-S, MHF1, FAAP16
1	APITD1	ENSG00000175279	ENST00000464507	retained_intron	KNOWN	None	23163	None	None	10500180	10502714	1	None	CENPS, CENP-S, MHF1, FAAP16
1	APITD1	ENSG00000175279	ENST00000602787	protein_coding	KNOWN	CCDS114	23163	495	164	10490159	10512210	1	None	CENPS, CENP-S, MHF1, FAAP16
1	APITD1	ENSG00000175279	ENST00000602296	protein_coding	KNOWN	CCDS53266	23163	234	77	10490159	10512210	1	None	CENPS, CENP-S, MHF1, FAAP16
1	PALMD	ENSG00000099260	ENST00000263174	protein_coding	KNOWN	CCDS758	15846	1656	551	100111499	100160097	1	C1orf11	FLJ20271, PALML
1	PALMD	ENSG00000099260	ENST00000605497	protein_coding	PUTATIVE	None	15846	1656	551	100111749	100155633	1	C1orf11	FLJ20271, PALML
1	PALMD	ENSG00000099260	ENST00000605613	retained_intron	KNOWN	None	15846	None	None	100133136	100135379	1	C1orf11	FLJ20271, PALML
1	PALMD	ENSG00000099260	ENST00000496843	retained_intron	KNOWN	None	15846	None	None	100148822	100160097	1	C1orf11	FLJ20271, PALML
2	PRKCE	ENSG00000171132	ENST00000421201	protein_coding	KNOWN	None	9401	383	126	45878484	46070173	1	None	None
2	PRKCE	ENSG00000171132	ENST00000306156	protein_coding	KNOWN	CCDS1824	9401	2214	737	45878913	46415129	1	None	None
2	PRKCE	ENSG00000171132	ENST00000462720	processed_transcript	PUTATIVE	None	9401	None	None	45879499	45928630	1	None	None
2	PRKCE	ENSG00000171132	ENST00000480453	processed_transcript	KNOWN	None	9401	None	None	45879540	46211706	1	None	None
2	PRKCE	ENSG00000171132	ENST00000476675	processed_transcript	KNOWN	None	9401	None	None	45902758	46207495	1	None	None
2	PRKCE	ENSG00000171132	ENST00000467135	processed_transcript	KNOWN	None	9401	None	None	45903873	46072897	1	None	None
2	PRKCE	ENSG00000171132	ENST00000472021	processed_transcript	PUTATIVE	None	9401	None	None	45904164	45913486	1	None	None
2	PRKCE	ENSG00000171132	ENST00000497602	processed_transcript	KNOWN	None	9401	None	None	45925111	46079165	1	None	None
2	PRKCE	ENSG00000171132	ENST00000485176	processed_transcript	KNOWN	None	9401	None	None	45925121	45997999	1	None	None
2	PRKCE	ENSG00000171132	ENST00000489067	processed_transcript	KNOWN	None	9401	None	None	46205234	46211820	1	None	None
2	PRKCE	ENSG00000171132	ENST00000394874	protein_coding	PUTATIVE	None	9401	660	219	46228041	46238103	1	None	None
2	PRKCE	ENSG00000171132	ENST00000469753	processed_transcript	KNOWN	None	9401	None	None	46300576	46378340	1	None	None
2	PRKCE	ENSG00000171132	ENST00000480633	processed_transcript	KNOWN	None	9401	None	None	46300935	46378303	1	None	None
2	PRKCE	ENSG00000171132	ENST00000498388	processed_transcript	PUTATIVE	None	9401	None	None	46378192	46392034	1	None	None
2	PRKCE	ENSG00000171132	ENST00000494472	processed_transcript	PUTATIVE	None	9401	None	None	46378241	46387199	1	None	None
16	PMFBP1	ENSG00000118557	ENST00000537792	protein_coding	PUTATIVE	None	17728	351	116	72146056	72158752	-1	None	None
16	PMFBP1	ENSG00000118557	ENST00000537465	protein_coding	KNOWN	None	17728	3069	1022	72152996	72206051	-1	None	None
16	PMFBP1	ENSG00000118557	ENST00000237353	protein_coding	KNOWN	CCDS32483	17728	3024	1007	72152996	72206154	-1	None	None
16	PMFBP1	ENSG00000118557	ENST00000379073	nonsense_mediated_decay	KNOWN	None	17728	306	101	72153000	72206349	-1	None	None
16	PMFBP1	ENSG00000118557	ENST00000537392	nonsense_mediated_decay	KNOWN	None	17728	1509	502	72158819	72184551	-1	None	None
16	PMFBP1	ENSG00000118557	ENST00000535461	protein_coding	KNOWN	None	17728	470	155	72184673	72205334	-1	None	None
16	PMFBP1	ENSG00000118557	ENST00000539172	protein_coding	KNOWN	None	17728	331	109	72188193	72205796	-1	None	None
16	PMFBP1	ENSG00000118557	ENST00000543746	processed_transcript	KNOWN	None	17728	None	None	72188206	72206002	-1	None	None
16	PMFBP1	ENSG00000118557	ENST00000536211	protein_coding	KNOWN	None	17728	204	67	72188320	72206369	-1	None	None
16	PMFBP1	ENSG00000118557	ENST00000540440	protein_coding	KNOWN	None	17728	143	46	72198685	72210777	-1	None	None
16	PMFBP1	ENSG00000118557	ENST00000355636	protein_coding	KNOWN	None	17728	2649	882	72152999	72205170	-1	None	None
1	SCYL3	ENSG00000000457	ENST00000367770	protein_coding	KNOWN	CCDS1287	19285	2229	742	169822215	169858029	-1	None	PACE-1, PACE1
1	SCYL3	ENSG00000000457	ENST00000367771	protein_coding	KNOWN	CCDS1286	19285	2067	688	169822215	169863093	-1	None	PACE-1, PACE1
1	SCYL3	ENSG00000000457	ENST00000423670	protein_coding	KNOWN	None	19285	1766	587	169823652	169863408	-1	None	PACE-1, PACE1
1	SCYL3	ENSG00000000457	ENST00000470238	processed_transcript	KNOWN	None	19285	None	None	169828260	169863093	-1	None	PACE-1, PACE1
1	SCYL3	ENSG00000000457	ENST00000367772	protein_coding	KNOWN	CCDS1287	19285	2229	742	169821804	169863076	-1	None	PACE-1, PACE1
18	RN7SKP72	ENSG00000199197	ENST00000362327	misc_RNA	KNOWN	None	45796	None	None	1323795	1324086	-1	None	None
18	None	ENSG00000263396	ENST00000580956	processed_pseudogene	KNOWN	None	None	None	None	1357652	1357943	1	None	None
1	RUNX3	ENSG00000020633	ENST00000308873	protein_coding	KNOWN	CCDS257	10473	1248	415	25226009	25256368	-1	CBFA3	AML2, PEBP2A3
1	RUNX3	ENSG00000020633	ENST00000338888	protein_coding	KNOWN	CCDS30633	10473	1290	429	25227520	25291475	-1	CBFA3	AML2, PEBP2A3
1	RUNX3	ENSG00000020633	ENST00000496967	processed_transcript	KNOWN	None	10473	None	None	25229063	25255289	-1	CBFA3	AML2, PEBP2A3
1	RUNX3	ENSG00000020633	ENST00000479341	processed_transcript	KNOWN	None	10473	None	None	25256228	25291612	-1	CBFA3	AML2, PEBP2A3
1	RUNX3	ENSG00000020633	ENST00000399916	protein_coding	KNOWN	CCDS30633	10473	1290	429	25226002	25291501	-1	CBFA3	AML2, PEBP2A3
1	RUNX3	ENSG00000020633	ENST00000540420	protein_coding	KNOWN	None	10473	969	322	25228269	25255612	-1	CBFA3	AML2, PEBP2A3
15	MYO9A	ENSG00000066933	ENST00000356056	protein_coding	KNOWN	CCDS10239	7608	7647	2548	72114632	72410422	-1	None	FLJ11061, FLJ13244, MGC71859
15	MYO9A	ENSG00000066933	ENST00000561618	protein_coding	PUTATIVE	None	7608	4196	1397	72118333	72191179	-1	None	FLJ11061, FLJ13244, MGC71859
15	MYO9A	ENSG00000066933	ENST00000568042	protein_coding	PUTATIVE	None	7608	1391	462	72118390	72146753	-1	None	FLJ11061, FLJ13244, MGC71859
15	MYO9A	ENSG00000066933	ENST00000564571	protein_coding	PUTATIVE	None	7608	7191	2396	72118613	72410109	-1	None	FLJ11061, FLJ13244, MGC71859
15	MYO9A	ENSG00000066933	ENST00000568481	protein_coding	NOVEL	None	7608	582	193	72120275	72144528	-1	None	FLJ11061, FLJ13244, MGC71859
15	MYO9A	ENSG00000066933	ENST00000564699	retained_intron	KNOWN	None	7608	None	None	72122547	72144697	-1	None	FLJ11061, FLJ13244, MGC71859
15	MYO9A	ENSG00000066933	ENST00000563071	retained_intron	KNOWN	None	7608	None	None	72176042	72180948	-1	None	FLJ11061, FLJ13244, MGC71859
15	MYO9A	ENSG00000066933	ENST00000563542	processed_transcript	KNOWN	None	7608	None	None	72181813	72338977	-1	None	FLJ11061, FLJ13244, MGC71859
15	MYO9A	ENSG00000066933	ENST00000568781	retained_intron	KNOWN	None	7608	None	None	72185803	72190154	-1	None	FLJ11061, FLJ13244, MGC71859
15	MYO9A	ENSG00000066933	ENST00000566885	protein_coding	PUTATIVE	None	7608	3906	1301	72189231	72410340	-1	None	FLJ11061, FLJ13244, MGC71859
15	MYO9A	ENSG00000066933	ENST00000566744	processed_transcript	KNOWN	None	7608	None	None	72196352	72246033	-1	None	FLJ11061, FLJ13244, MGC71859
15	MYO9A	ENSG00000066933	ENST00000563648	retained_intron	KNOWN	None	7608	None	None	72227481	72252296	-1	None	FLJ11061, FLJ13244, MGC71859
15	MYO9A	ENSG00000066933	ENST00000565528	retained_intron	KNOWN	None	7608	None	None	72227784	72231352	-1	None	FLJ11061, FLJ13244, MGC71859
15	MYO9A	ENSG00000066933	ENST00000567095	retained_intron	KNOWN	None	7608	None	None	72231104	72260419	-1	None	FLJ11061, FLJ13244, MGC71859
15	MYO9A	ENSG00000066933	ENST00000563925	retained_intron	KNOWN	None	7608	None	None	72244073	72252744	-1	None	FLJ11061, FLJ13244, MGC71859
15	MYO9A	ENSG00000066933	ENST00000567560	retained_intron	KNOWN	None	7608	None	None	72250841	72410422	-1	None	FLJ11061, FLJ13244, MGC71859
15	MYO9A	ENSG00000066933	ENST00000568438	nonsense_mediated_decay	KNOWN	None	7608	271	89	72302719	72338323	-1	None	FLJ11061, FLJ13244, MGC71859
15	MYO9A	ENSG00000066933	ENST00000569314	protein_coding	KNOWN	None	7608	422	139	72338483	72410564	-1	None	FLJ11061, FLJ13244, MGC71859
15	MYO9A	ENSG00000066933	ENST00000564931	protein_coding	KNOWN	None	7608	220	72	72338685	72410918	-1	None	FLJ11061, FLJ13244, MGC71859
15	MYO9A	ENSG00000066933	ENST00000424560	protein_coding	KNOWN	None	7608	7860	2619	72118369	72410422	-1	None	FLJ11061, FLJ13244, MGC71859
15	MYO9A	ENSG00000066933	ENST00000444904	protein_coding	KNOWN	None	7608	7590	2529	72118369	72410422	-1	None	FLJ11061, FLJ13244, MGC71859
18	None	ENSG00000265417	ENST00000579735	processed_pseudogene	KNOWN	None	None	None	None	1362446	1363874	-1	None	None
7	None	ENSG00000174384	ENST00000333674	unprocessed_pseudogene	KNOWN	None	None	None	None	72507941	72515008	1	None	None
4	None	ENSG00000252616	ENST00000516807	miRNA	NOVEL	None	None	None	None	218004	218112	1	None	None
19	PSG1	ENSG00000231924	ENST00000436291	protein_coding	KNOWN	CCDS54275	9514	1260	419	43370616	43383850	-1	PSBG1	PSGGA, CD66f, PBG1
19	PSG1	ENSG00000231924	ENST00000602039	retained_intron	KNOWN	None	9514	None	None	43370618	43374797	-1	PSBG1	PSGGA, CD66f, PBG1
19	PSG1	ENSG00000231924	ENST00000595124	protein_coding	PUTATIVE	None	9514	975	324	43370618	43383862	-1	PSBG1	PSGGA, CD66f, PBG1
19	PSG1	ENSG00000231924	ENST00000595356	protein_coding	KNOWN	CCDS59392	9514	1254	417	43370623	43383799	-1	PSBG1	PSGGA, CD66f, PBG1
19	PSG1	ENSG00000231924	ENST00000403380	protein_coding	NOVEL	None	9514	981	326	43370635	43383823	-1	PSBG1	PSGGA, CD66f, PBG1
19	PSG1	ENSG00000231924	ENST00000312439	protein_coding	KNOWN	None	9514	1287	428	43371345	43383819	-1	PSBG1	PSGGA, CD66f, PBG1
19	PSG1	ENSG00000231924	ENST00000244296	protein_coding	KNOWN	CCDS12612	9514	1281	426	43371358	43383871	-1	PSBG1	PSGGA, CD66f, PBG1
19	PSG1	ENSG00000231924	ENST00000597058	protein_coding	PUTATIVE	None	9514	725	240	43372253	43382255	-1	PSBG1	PSGGA, CD66f, PBG1
19	PSG1	ENSG00000231924	ENST00000595930	protein_coding	PUTATIVE	None	9514	462	153	43375953	43382576	-1	PSBG1	PSGGA, CD66f, PBG1
19	PSG1	ENSG00000231924	ENST00000601456	processed_transcript	KNOWN	None	9514	None	None	43378254	43383832	-1	PSBG1	PSGGA, CD66f, PBG1
19	PSG1	ENSG00000231924	ENST00000601073	processed_transcript	KNOWN	None	9514	None	None	43380891	43383974	-1	PSBG1	PSGGA, CD66f, PBG1
4	None	ENSG00000251188	ENST00000511111	processed_pseudogene	KNOWN	None	None	None	None	262771	263320	-1	None	None
15	GREM1	ENSG00000166923	ENST00000300177	protein_coding	KNOWN	CCDS10029	2001	555	184	33010175	33026870	1	CKTSF1B1	DRM, gremlin, DAND2
15	GREM1	ENSG00000166923	ENST00000560677	protein_coding	PUTATIVE	None	2001	129	42	33010205	33023476	1	CKTSF1B1	DRM, gremlin, DAND2
15	GREM1	ENSG00000166923	ENST00000560830	protein_coding	KNOWN	CCDS53927	2001	432	143	33010205	33025503	1	CKTSF1B1	DRM, gremlin, DAND2
15	GREM1	ENSG00000166923	ENST00000322805	protein_coding	KNOWN	CCDS53927	2001	432	143	33022892	33026040	1	CKTSF1B1	DRM, gremlin, DAND2
7	None	ENSG00000199913	ENST00000363043	misc_RNA	NOVEL	None	None	None	None	72509641	72509742	1	None	None
4	None	ENSG00000249509	ENST00000506057	antisense	KNOWN	None	None	None	None	113436541	113439392	1	None	None
4	None	ENSG00000249509	ENST00000504009	antisense	KNOWN	None	None	None	None	113436587	113468037	1	None	None
6	SYCP2L	ENSG00000153157	ENST00000341041	nonsense_mediated_decay	KNOWN	None	21537	876	291	10887064	10974427	1	C6orf177	dJ62D2.1, NO145
6	SYCP2L	ENSG00000153157	ENST00000283141	protein_coding	KNOWN	CCDS43423	21537	2439	812	10887064	10974542	1	C6orf177	dJ62D2.1, NO145
6	SYCP2L	ENSG00000153157	ENST00000487561	nonsense_mediated_decay	KNOWN	None	21537	330	109	10898247	10924817	1	C6orf177	dJ62D2.1, NO145
6	SYCP2L	ENSG00000153157	ENST00000474197	retained_intron	KNOWN	None	21537	None	None	10930187	10935407	1	C6orf177	dJ62D2.1, NO145
6	SYCP2L	ENSG00000153157	ENST00000465872	processed_transcript	KNOWN	None	21537	None	None	10963540	10974387	1	C6orf177	dJ62D2.1, NO145
6	SYCP2L	ENSG00000153157	ENST00000488191	processed_transcript	KNOWN	None	21537	None	None	10964035	10979553	1	C6orf177	dJ62D2.1, NO145
6	SYCP2L	ENSG00000153157	ENST00000543878	protein_coding	KNOWN	None	21537	867	288	10748027	10930656	1	C6orf177	dJ62D2.1, NO145
3	TRIM59	ENSG00000213186	ENST00000309784	protein_coding	KNOWN	CCDS3190	30834	1212	403	160153291	160167617	-1	TRIM57	TSBF1, Mrf1, RNF104
3	TRIM59	ENSG00000213186	ENST00000479460	protein_coding	KNOWN	None	30834	533	176	160156439	160167513	-1	TRIM57	TSBF1, Mrf1, RNF104
3	TRIM59	ENSG00000213186	ENST00000471396	protein_coding	KNOWN	None	30834	465	154	160156507	160167551	-1	TRIM57	TSBF1, Mrf1, RNF104
3	TRIM59	ENSG00000213186	ENST00000496222	protein_coding	PUTATIVE	None	30834	537	178	160156519	160167548	-1	TRIM57	TSBF1, Mrf1, RNF104
3	TRIM59	ENSG00000213186	ENST00000471155	protein_coding	KNOWN	None	30834	343	113	160156629	160167553	-1	TRIM57	TSBF1, Mrf1, RNF104
3	TRIM59	ENSG00000213186	ENST00000494486	protein_coding	KNOWN	None	30834	335	110	160156637	160167401	-1	TRIM57	TSBF1, Mrf1, RNF104
3	TRIM59	ENSG00000213186	ENST00000468542	protein_coding	PUTATIVE	None	30834	204	67	160156789	160203561	-1	TRIM57	TSBF1, Mrf1, RNF104
3	TRIM59	ENSG00000213186	ENST00000543469	protein_coding	KNOWN	None	30834	972	323	160150233	160166725	-1	TRIM57	TSBF1, Mrf1, RNF104
7	None	ENSG00000205580	ENST00000426970	processed_transcript	KNOWN	None	None	None	None	72518503	72524434	-1	None	None
7	None	ENSG00000205580	ENST00000418669	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	72520690	72525485	-1	None	None
7	None	ENSG00000205580	ENST00000380411	unprocessed_pseudogene	KNOWN	None	None	None	None	72518506	72525296	-1	None	None
3	LTF	ENSG00000012223	ENST00000231751	protein_coding	KNOWN	CCDS33747	6720	2133	710	46477136	46506653	-1	None	HLF2
3	LTF	ENSG00000012223	ENST00000417439	protein_coding	NOVEL	None	6720	2127	708	46477684	46506358	-1	None	HLF2
3	LTF	ENSG00000012223	ENST00000443496	protein_coding	NOVEL	None	6720	2088	695	46477692	46526724	-1	None	HLF2
3	LTF	ENSG00000012223	ENST00000493056	processed_transcript	KNOWN	None	6720	None	None	46479525	46483396	-1	None	HLF2
3	LTF	ENSG00000012223	ENST00000478874	processed_transcript	KNOWN	None	6720	None	None	46479586	46505134	-1	None	HLF2
3	LTF	ENSG00000012223	ENST00000462667	retained_intron	KNOWN	None	6720	None	None	46495504	46497313	-1	None	HLF2
3	LTF	ENSG00000012223	ENST00000431944	protein_coding	NOVEL	None	6720	546	181	46496919	46506395	-1	None	HLF2
3	LTF	ENSG00000012223	ENST00000415180	protein_coding	PUTATIVE	None	6720	367	121	46497286	46505161	-1	None	HLF2
3	LTF	ENSG00000012223	ENST00000498301	processed_transcript	PUTATIVE	None	6720	None	None	46501147	46526713	-1	None	HLF2
3	LTF	ENSG00000012223	ENST00000426532	protein_coding	KNOWN	CCDS56251	6720	2001	666	46477510	46505161	-1	None	HLF2
12	ITFG2	ENSG00000111203	ENST00000228799	protein_coding	KNOWN	CCDS8513	30879	1344	447	2921788	2934237	1	None	MDS028
12	ITFG2	ENSG00000111203	ENST00000543029	retained_intron	KNOWN	None	30879	None	None	2921847	2927826	1	None	MDS028
12	ITFG2	ENSG00000111203	ENST00000537851	nonsense_mediated_decay	KNOWN	None	30879	171	56	2921851	2933668	1	None	MDS028
12	ITFG2	ENSG00000111203	ENST00000540929	nonsense_mediated_decay	KNOWN	None	30879	444	147	2921859	2939770	1	None	MDS028
12	ITFG2	ENSG00000111203	ENST00000541659	retained_intron	KNOWN	None	30879	None	None	2921927	2927624	1	None	MDS028
12	ITFG2	ENSG00000111203	ENST00000535564	protein_coding	PUTATIVE	None	30879	53	16	2926396	2933838	1	None	MDS028
12	ITFG2	ENSG00000111203	ENST00000537183	retained_intron	KNOWN	None	30879	None	None	2928824	2932077	1	None	MDS028
12	ITFG2	ENSG00000111203	ENST00000534935	nonsense_mediated_decay	KNOWN	None	30879	396	131	2931960	2934107	1	None	MDS028
12	ITFG2	ENSG00000111203	ENST00000540662	protein_coding	PUTATIVE	None	30879	179	58	2933008	2933642	1	None	MDS028
12	ITFG2	ENSG00000111203	ENST00000538822	nonsense_mediated_decay	KNOWN	None	30879	172	56	2933042	2940060	1	None	MDS028
12	ITFG2	ENSG00000111203	ENST00000552005	processed_transcript	KNOWN	None	30879	None	None	2939591	2946158	1	None	MDS028
12	ITFG2	ENSG00000111203	ENST00000537710	processed_transcript	KNOWN	None	30879	None	None	2945977	2968957	1	None	MDS028
12	ITFG2	ENSG00000111203	ENST00000540300	processed_transcript	KNOWN	None	30879	None	None	2966418	2966848	1	None	MDS028
12	ITFG2	ENSG00000111203	ENST00000545509	processed_transcript	KNOWN	None	30879	None	None	2966454	2968948	1	None	MDS028
12	ITFG2	ENSG00000111203	ENST00000542548	protein_coding	KNOWN	None	30879	1008	335	2921859	2939770	1	None	MDS028
12	ITFG2	ENSG00000111203	ENST00000419778	protein_coding	KNOWN	None	30879	813	270	2921851	2933668	1	None	MDS028
9	MED22	ENSG00000148297	ENST00000491289	protein_coding	KNOWN	CCDS6963	11477	603	200	136205160	136214558	-1	SURF5	Med24
9	MED22	ENSG00000148297	ENST00000486395	protein_coding	KNOWN	CCDS6964	11477	423	140	136207755	136214972	-1	SURF5	Med24
9	MED22	ENSG00000148297	ENST00000343730	protein_coding	KNOWN	CCDS6963	11477	603	200	136207755	136214972	-1	SURF5	Med24
9	MED22	ENSG00000148297	ENST00000344469	protein_coding	KNOWN	CCDS6964	11477	423	140	136207755	136214972	-1	SURF5	Med24
9	MED22	ENSG00000148297	ENST00000476080	protein_coding	KNOWN	CCDS6964	11477	423	140	136207756	136214634	-1	SURF5	Med24
9	MED22	ENSG00000148297	ENST00000471524	processed_transcript	KNOWN	None	11477	None	None	136210545	136214930	-1	SURF5	Med24
9	MED22	ENSG00000148297	ENST00000371999	protein_coding	NOVEL	None	11477	405	134	136210602	136214972	-1	SURF5	Med24
9	MED22	ENSG00000148297	ENST00000446777	protein_coding	KNOWN	None	11477	413	136	136210980	136214877	-1	SURF5	Med24
9	MED22	ENSG00000148297	ENST00000494177	protein_coding	KNOWN	None	11477	405	134	136210988	136214978	-1	SURF5	Med24
9	MED22	ENSG00000148297	ENST00000457204	protein_coding	KNOWN	None	11477	333	110	136211060	136214986	-1	SURF5	Med24
9	MED22	ENSG00000148297	ENST00000482295	retained_intron	KNOWN	None	11477	None	None	136213262	136214973	-1	SURF5	Med24
11	C11orf89	ENSG00000184682	ENST00000391480	protein_coding	KNOWN	None	35118	1440	479	1910375	1912084	-1	None	LOC728008
20	TP53INP2	ENSG00000078804	ENST00000374810	protein_coding	KNOWN	CCDS13240	16104	663	220	33292094	33301243	1	C20orf110	FLJ21759, FLJ23500, DKFZp434B2411, DKFZp434O0827, dJ1181N3.1, PINH, DOR
20	TP53INP2	ENSG00000078804	ENST00000374809	protein_coding	KNOWN	CCDS13240	16104	663	220	33292143	33301243	1	C20orf110	FLJ21759, FLJ23500, DKFZp434B2411, DKFZp434O0827, dJ1181N3.1, PINH, DOR
20	TP53INP2	ENSG00000078804	ENST00000451665	protein_coding	KNOWN	None	16104	265	87	33292154	33297300	1	C20orf110	FLJ21759, FLJ23500, DKFZp434B2411, DKFZp434O0827, dJ1181N3.1, PINH, DOR
20	TP53INP2	ENSG00000078804	ENST00000414082	protein_coding	KNOWN	None	16104	232	76	33292539	33297147	1	C20orf110	FLJ21759, FLJ23500, DKFZp434B2411, DKFZp434O0827, dJ1181N3.1, PINH, DOR
11	RNF214	ENSG00000167257	ENST00000534428	protein_coding	KNOWN	None	25335	440	145	117103341	117109649	1	None	DKFZp547C195
11	RNF214	ENSG00000167257	ENST00000529869	retained_intron	KNOWN	None	25335	None	None	117103419	117117556	1	None	DKFZp547C195
11	RNF214	ENSG00000167257	ENST00000531287	protein_coding	NOVEL	None	25335	1647	548	117103452	117155880	1	None	DKFZp547C195
11	RNF214	ENSG00000167257	ENST00000531452	protein_coding	KNOWN	CCDS41720	25335	2112	703	117103452	117156404	1	None	DKFZp547C195
11	RNF214	ENSG00000167257	ENST00000530849	protein_coding	NOVEL	None	25335	1542	513	117104979	117157161	1	None	DKFZp547C195
11	RNF214	ENSG00000167257	ENST00000524917	processed_transcript	KNOWN	None	25335	None	None	117152144	117153920	1	None	DKFZp547C195
11	RNF214	ENSG00000167257	ENST00000534709	retained_intron	KNOWN	None	25335	None	None	117152504	117155962	1	None	DKFZp547C195
11	RNF214	ENSG00000167257	ENST00000300650	protein_coding	KNOWN	CCDS41720	25335	2112	703	117104980	117156392	1	None	DKFZp547C195
16	RPS15A	ENSG00000134419	ENST00000322989	protein_coding	KNOWN	CCDS10571	10389	393	130	18792617	18801656	-1	None	S15A
16	RPS15A	ENSG00000134419	ENST00000572008	nonsense_mediated_decay	KNOWN	CCDS10571	10389	393	130	18793313	18801656	-1	None	S15A
16	RPS15A	ENSG00000134419	ENST00000563390	protein_coding	KNOWN	CCDS10571	10389	393	130	18794278	18801705	-1	None	S15A
16	RPS15A	ENSG00000134419	ENST00000574723	nonsense_mediated_decay	KNOWN	None	10389	159	52	18794284	18801684	-1	None	S15A
16	RPS15A	ENSG00000134419	ENST00000575669	processed_transcript	KNOWN	None	10389	None	None	18794290	18798117	-1	None	S15A
16	RPS15A	ENSG00000134419	ENST00000576436	protein_coding	NOVEL	None	10389	336	111	18794290	18800459	-1	None	S15A
16	RPS15A	ENSG00000134419	ENST00000562935	nonsense_mediated_decay	KNOWN	None	10389	153	50	18794290	18801656	-1	None	S15A
16	RPS15A	ENSG00000134419	ENST00000569365	nonsense_mediated_decay	KNOWN	None	10389	150	49	18794290	18801656	-1	None	S15A
16	RPS15A	ENSG00000134419	ENST00000576008	nonsense_mediated_decay	KNOWN	None	10389	336	111	18794290	18801684	-1	None	S15A
16	RPS15A	ENSG00000134419	ENST00000565420	protein_coding	KNOWN	CCDS10571	10389	393	130	18794291	18801582	-1	None	S15A
16	RPS15A	ENSG00000134419	ENST00000563579	protein_coding	NOVEL	None	10389	176	57	18794303	18796147	-1	None	S15A
16	RPS15A	ENSG00000134419	ENST00000569083	protein_coding	PUTATIVE	None	10389	303	100	18795343	18800441	-1	None	S15A
16	RPS15A	ENSG00000134419	ENST00000573554	processed_transcript	KNOWN	None	10389	None	None	18799866	18801662	-1	None	S15A
20	ANGPT4	ENSG00000101280	ENST00000381922	protein_coding	KNOWN	CCDS13009	487	1512	503	853296	896960	-1	None	None
20	ANGPT4	ENSG00000101280	ENST00000546022	protein_coding	KNOWN	None	487	1233	410	853402	896977	-1	None	None
16	ZG16	ENSG00000174992	ENST00000400752	protein_coding	KNOWN	CCDS54000	30961	504	167	29789561	29793096	1	JCLN	hZG16, JCLN1, ZG16A
HSCHR6_MHC_MANN	MOG	ENSG00000230885	ENST00000427289	protein_coding	KNOWN	None	7197	744	247	29624339	29639709	1	None	None
HSCHR6_MHC_MANN	MOG	ENSG00000230885	ENST00000482220	processed_transcript	KNOWN	None	7197	None	None	29624388	29633596	1	None	None
HSCHR6_MHC_MANN	MOG	ENSG00000230885	ENST00000423895	protein_coding	KNOWN	None	7197	888	295	29624432	29639709	1	None	None
HSCHR6_MHC_MANN	MOG	ENSG00000230885	ENST00000472743	processed_transcript	KNOWN	None	7197	None	None	29624470	29627263	1	None	None
HSCHR6_MHC_MANN	MOG	ENSG00000230885	ENST00000426782	protein_coding	KNOWN	None	7197	396	131	29624550	29639709	1	None	None
HSCHR6_MHC_MANN	MOG	ENSG00000230885	ENST00000421125	protein_coding	KNOWN	None	7197	759	252	29624550	29639709	1	None	None
HSCHR6_MHC_MANN	MOG	ENSG00000230885	ENST00000440561	protein_coding	KNOWN	None	7197	642	213	29624550	29639709	1	None	None
HSCHR6_MHC_MANN	MOG	ENSG00000230885	ENST00000457626	protein_coding	KNOWN	None	7197	690	229	29624550	29639709	1	None	None
HSCHR6_MHC_MANN	MOG	ENSG00000230885	ENST00000444674	protein_coding	KNOWN	None	7197	675	224	29624550	29639709	1	None	None
HSCHR6_MHC_MANN	MOG	ENSG00000230885	ENST00000458179	protein_coding	KNOWN	None	7197	615	204	29624556	29639709	1	None	None
HSCHR6_MHC_MANN	MOG	ENSG00000230885	ENST00000440073	protein_coding	KNOWN	None	7197	539	178	29626658	29639709	1	None	None
HSCHR6_MHC_MANN	MOG	ENSG00000230885	ENST00000493966	processed_transcript	KNOWN	None	7197	None	None	29626658	29639709	1	None	None
HSCHR6_MHC_MANN	MOG	ENSG00000230885	ENST00000478704	processed_transcript	KNOWN	None	7197	None	None	29626658	29639709	1	None	None
HSCHR6_MHC_MANN	MOG	ENSG00000230885	ENST00000548521	protein_coding	KNOWN	None	7197	621	206	29624321	29639707	1	None	None
HSCHR6_MHC_MANN	MOG	ENSG00000230885	ENST00000551993	protein_coding	KNOWN	None	7197	627	208	29624321	29639707	1	None	None
HSCHR6_MHC_MANN	MOG	ENSG00000230885	ENST00000551326	protein_coding	KNOWN	None	7197	174	57	29624402	29632071	1	None	None
HSCHR6_MHC_MANN	MOG	ENSG00000230885	ENST00000547293	protein_coding	KNOWN	None	7197	516	171	29624321	29639707	1	None	None
12	KNTC1	ENSG00000184445	ENST00000535410	processed_transcript	KNOWN	None	17255	None	None	123011793	123012227	1	None	KIAA0166, ROD
12	KNTC1	ENSG00000184445	ENST00000450485	protein_coding	NOVEL	None	17255	3405	1134	123011795	123110879	1	None	KIAA0166, ROD
12	KNTC1	ENSG00000184445	ENST00000333479	protein_coding	KNOWN	CCDS45002	17255	6630	2209	123011795	123110943	1	None	KIAA0166, ROD
12	KNTC1	ENSG00000184445	ENST00000535186	processed_transcript	PUTATIVE	None	17255	None	None	123077365	123087191	1	None	KIAA0166, ROD
12	KNTC1	ENSG00000184445	ENST00000423927	protein_coding	PUTATIVE	None	17255	312	103	123077963	123086154	1	None	KIAA0166, ROD
12	KNTC1	ENSG00000184445	ENST00000545065	processed_transcript	KNOWN	None	17255	None	None	123078460	123086498	1	None	KIAA0166, ROD
12	KNTC1	ENSG00000184445	ENST00000377192	retained_intron	KNOWN	None	17255	None	None	123081790	123089634	1	None	KIAA0166, ROD
12	KNTC1	ENSG00000184445	ENST00000436959	protein_coding	PUTATIVE	None	17255	393	130	123086944	123110943	1	None	KIAA0166, ROD
12	KNTC1	ENSG00000184445	ENST00000541466	retained_intron	KNOWN	None	17255	None	None	123087370	123089544	1	None	KIAA0166, ROD
12	KNTC1	ENSG00000184445	ENST00000546125	protein_coding	NOVEL	None	17255	624	207	123089906	123103084	1	None	KIAA0166, ROD
12	KNTC1	ENSG00000184445	ENST00000536625	retained_intron	KNOWN	None	17255	None	None	123093744	123096312	1	None	KIAA0166, ROD
12	KNTC1	ENSG00000184445	ENST00000542727	processed_transcript	KNOWN	None	17255	None	None	123095408	123098216	1	None	KIAA0166, ROD
12	KNTC1	ENSG00000184445	ENST00000539013	retained_intron	KNOWN	None	17255	None	None	123097429	123102944	1	None	KIAA0166, ROD
12	KNTC1	ENSG00000184445	ENST00000541427	retained_intron	KNOWN	None	17255	None	None	123097997	123105082	1	None	KIAA0166, ROD
12	KNTC1	ENSG00000184445	ENST00000534995	protein_coding	PUTATIVE	None	17255	393	130	123104589	123110922	1	None	KIAA0166, ROD
12	KNTC1	ENSG00000184445	ENST00000537348	protein_coding	KNOWN	None	17255	1332	443	123086944	123110926	1	None	KIAA0166, ROD
15	MKRN3	ENSG00000179455	ENST00000570112	nonsense_mediated_decay	KNOWN	None	7114	87	28	23810825	23820629	1	ZNF127, D15S9	RNF63, ZFP127, MGC88288
15	MKRN3	ENSG00000179455	ENST00000568252	protein_coding	PUTATIVE	None	7114	318	105	23810864	23856711	1	ZNF127, D15S9	RNF63, ZFP127, MGC88288
15	MKRN3	ENSG00000179455	ENST00000564592	protein_coding	PUTATIVE	None	7114	549	182	23810920	23820629	1	ZNF127, D15S9	RNF63, ZFP127, MGC88288
15	MKRN3	ENSG00000179455	ENST00000568945	processed_transcript	PUTATIVE	None	7114	None	None	23811604	23873064	1	ZNF127, D15S9	RNF63, ZFP127, MGC88288
15	MKRN3	ENSG00000179455	ENST00000314520	protein_coding	KNOWN	CCDS10013	7114	1524	507	23810454	23813164	1	ZNF127, D15S9	RNF63, ZFP127, MGC88288
9	None	ENSG00000234860	ENST00000413271	lincRNA	KNOWN	None	None	None	None	102293978	102299206	1	None	None
9	None	ENSG00000237461	ENST00000427039	lincRNA	KNOWN	None	None	None	None	102348068	102582171	-1	None	None
1	APITD1-CORT	ENSG00000251503	ENST00000400900	protein_coding	KNOWN	CCDS114	38843	495	164	10490159	10512210	1	None	None
1	APITD1-CORT	ENSG00000251503	ENST00000470413	protein_coding	KNOWN	CCDS53266	38843	234	77	10490441	10511716	1	None	None
1	APITD1-CORT	ENSG00000251503	ENST00000465026	processed_transcript	KNOWN	None	38843	None	None	10491315	10511716	1	None	None
1	APITD1-CORT	ENSG00000251503	ENST00000602446	protein_coding	KNOWN	None	38843	232	76	10494724	10512014	1	None	None
5	None	ENSG00000251001	ENST00000506228	processed_pseudogene	KNOWN	None	None	None	None	80293002	80293866	-1	None	None
9	COL5A1	ENSG00000130635	ENST00000371817	protein_coding	KNOWN	CCDS6982	2209	5517	1838	137533620	137736686	1	None	None
9	COL5A1	ENSG00000130635	ENST00000464187	processed_transcript	KNOWN	None	2209	None	None	137545031	137601073	1	None	None
9	COL5A1	ENSG00000130635	ENST00000469093	processed_transcript	PUTATIVE	None	2209	None	None	137623439	137624515	1	None	None
9	COL5A1	ENSG00000130635	ENST00000463925	processed_transcript	PUTATIVE	None	2209	None	None	137700807	137702303	1	None	None
9	COL5A1	ENSG00000130635	ENST00000460264	retained_intron	KNOWN	None	2209	None	None	137714768	137722199	1	None	None
9	COL5A1	ENSG00000130635	ENST00000371820	protein_coding	NOVEL	None	2209	628	208	137716490	137727050	1	None	None
9	COL5A1	ENSG00000130635	ENST00000465877	retained_intron	KNOWN	None	2209	None	None	137716568	137724722	1	None	None
9	None	ENSG00000255145	ENST00000529965	antisense	KNOWN	None	None	None	None	102648608	102668883	-1	None	None
5	None	ENSG00000249772	ENST00000508993	antisense	KNOWN	None	None	None	None	80409204	80410671	-1	None	None
9	None	ENSG00000254571	ENST00000524512	antisense	KNOWN	None	None	None	None	102677359	102692178	-1	None	None
2	LIMS2	ENSG00000072163	ENST00000426981	protein_coding	PUTATIVE	None	16084	509	168	128395956	128399706	-1	None	None
2	LIMS2	ENSG00000072163	ENST00000469300	retained_intron	KNOWN	None	16084	None	None	128396000	128413659	-1	None	None
2	LIMS2	ENSG00000072163	ENST00000494613	processed_transcript	KNOWN	None	16084	None	None	128396001	128397978	-1	None	None
2	LIMS2	ENSG00000072163	ENST00000409286	protein_coding	PUTATIVE	CCDS58725	16084	570	189	128396001	128400803	-1	None	None
2	LIMS2	ENSG00000072163	ENST00000409754	protein_coding	PUTATIVE	CCDS58725	16084	570	189	128396001	128401685	-1	None	None
2	LIMS2	ENSG00000072163	ENST00000476932	retained_intron	KNOWN	None	16084	None	None	128396001	128421993	-1	None	None
2	LIMS2	ENSG00000072163	ENST00000324938	protein_coding	KNOWN	CCDS2147	16084	1098	365	128396001	128422120	-1	None	None
2	LIMS2	ENSG00000072163	ENST00000484252	retained_intron	KNOWN	None	16084	None	None	128396003	128399926	-1	None	None
2	LIMS2	ENSG00000072163	ENST00000466410	retained_intron	KNOWN	None	16084	None	None	128396003	128422026	-1	None	None
2	LIMS2	ENSG00000072163	ENST00000409455	protein_coding	KNOWN	CCDS54394	16084	1011	336	128396003	128431883	-1	None	None
2	LIMS2	ENSG00000072163	ENST00000355119	protein_coding	KNOWN	CCDS54395	16084	1026	341	128396003	128432764	-1	None	None
2	LIMS2	ENSG00000072163	ENST00000409808	protein_coding	KNOWN	CCDS54394	16084	1011	336	128396003	128432860	-1	None	None
2	LIMS2	ENSG00000072163	ENST00000410011	protein_coding	KNOWN	CCDS54394	16084	1011	336	128396003	128439360	-1	None	None
2	LIMS2	ENSG00000072163	ENST00000410038	protein_coding	PUTATIVE	CCDS58725	16084	570	189	128396045	128405828	-1	None	None
2	LIMS2	ENSG00000072163	ENST00000545738	protein_coding	NOVEL	CCDS54396	16084	1092	363	128396296	128432676	-1	None	None
2	LIMS2	ENSG00000072163	ENST00000413578	nonsense_mediated_decay	KNOWN	None	16084	183	60	128396558	128408113	-1	None	None
2	LIMS2	ENSG00000072163	ENST00000409254	protein_coding	PUTATIVE	CCDS58725	16084	570	189	128396772	128408113	-1	None	None
2	LIMS2	ENSG00000072163	ENST00000582671	processed_transcript	KNOWN	None	16084	None	None	128399700	128404253	-1	None	None
17	SUPT4H1	ENSG00000213246	ENST00000581166	nonsense_mediated_decay	KNOWN	None	11467	180	59	56422539	56429528	-1	SUPT4H	SPT4H
17	SUPT4H1	ENSG00000213246	ENST00000225504	protein_coding	KNOWN	CCDS11606	11467	354	117	56422539	56429563	-1	SUPT4H	SPT4H
17	SUPT4H1	ENSG00000213246	ENST00000577396	protein_coding	PUTATIVE	None	11467	231	76	56422608	56429784	-1	SUPT4H	SPT4H
17	SUPT4H1	ENSG00000213246	ENST00000581204	retained_intron	KNOWN	None	11467	None	None	56423273	56424972	-1	SUPT4H	SPT4H
17	SUPT4H1	ENSG00000213246	ENST00000581540	protein_coding	PUTATIVE	None	11467	327	108	56423377	56429022	-1	SUPT4H	SPT4H
17	SUPT4H1	ENSG00000213246	ENST00000580947	protein_coding	KNOWN	CCDS11606	11467	354	117	56423573	56430454	-1	SUPT4H	SPT4H
17	SUPT4H1	ENSG00000213246	ENST00000579289	nonsense_mediated_decay	KNOWN	None	11467	129	42	56424561	56429497	-1	SUPT4H	SPT4H
15	MAGEL2	ENSG00000254585	ENST00000532292	protein_coding	KNOWN	None	6814	1941	646	23888691	23891175	-1	NDNL1	nM15
5	None	ENSG00000247572	ENST00000503483	antisense	KNOWN	None	None	None	None	80499903	80597304	-1	None	None
5	None	ENSG00000247572	ENST00000511495	antisense	KNOWN	None	None	None	None	80505920	80597316	-1	None	None
5	None	ENSG00000247572	ENST00000512287	antisense	KNOWN	None	None	None	None	80531578	80597342	-1	None	None
5	None	ENSG00000247572	ENST00000500148	antisense	KNOWN	None	None	None	None	80533384	80597363	-1	None	None
5	None	ENSG00000247572	ENST00000502041	antisense	KNOWN	None	None	None	None	80533384	80597378	-1	None	None
5	None	ENSG00000247572	ENST00000501927	antisense	KNOWN	None	None	None	None	80533647	80597374	-1	None	None
5	None	ENSG00000247572	ENST00000505295	antisense	KNOWN	None	None	None	None	80540677	80597379	-1	None	None
14	ACTR10	ENSG00000131966	ENST00000545307	nonsense_mediated_decay	KNOWN	None	17372	558	185	58666798	58701478	1	None	HARP11, ACTR11, Arp11
14	ACTR10	ENSG00000131966	ENST00000254286	protein_coding	KNOWN	CCDS32090	17372	1254	417	58666856	58701750	1	None	HARP11, ACTR11, Arp11
14	ACTR10	ENSG00000131966	ENST00000555229	nonsense_mediated_decay	KNOWN	None	17372	540	179	58666860	58701473	1	None	HARP11, ACTR11, Arp11
14	ACTR10	ENSG00000131966	ENST00000555337	nonsense_mediated_decay	KNOWN	None	17372	381	126	58666867	58698879	1	None	HARP11, ACTR11, Arp11
14	ACTR10	ENSG00000131966	ENST00000556748	nonsense_mediated_decay	KNOWN	None	17372	132	43	58666872	58690574	1	None	HARP11, ACTR11, Arp11
14	ACTR10	ENSG00000131966	ENST00000556312	retained_intron	KNOWN	None	17372	None	None	58666888	58675975	1	None	HARP11, ACTR11, Arp11
14	ACTR10	ENSG00000131966	ENST00000556243	nonsense_mediated_decay	KNOWN	None	17372	273	90	58666929	58675825	1	None	HARP11, ACTR11, Arp11
14	ACTR10	ENSG00000131966	ENST00000556694	retained_intron	KNOWN	None	17372	None	None	58677802	58690545	1	None	HARP11, ACTR11, Arp11
14	ACTR10	ENSG00000131966	ENST00000557711	retained_intron	KNOWN	None	17372	None	None	58679752	58701452	1	None	HARP11, ACTR11, Arp11
14	ACTR10	ENSG00000131966	ENST00000557583	retained_intron	KNOWN	None	17372	None	None	58686236	58697194	1	None	HARP11, ACTR11, Arp11
14	ACTR10	ENSG00000131966	ENST00000554790	retained_intron	KNOWN	None	17372	None	None	58686388	58698986	1	None	HARP11, ACTR11, Arp11
14	ACTR10	ENSG00000131966	ENST00000556449	retained_intron	KNOWN	None	17372	None	None	58690211	58698826	1	None	HARP11, ACTR11, Arp11
14	ACTR10	ENSG00000131966	ENST00000555965	retained_intron	KNOWN	None	17372	None	None	58690317	58698986	1	None	HARP11, ACTR11, Arp11
14	ACTR10	ENSG00000131966	ENST00000553907	nonsense_mediated_decay	KNOWN	None	17372	106	34	58690341	58701504	1	None	HARP11, ACTR11, Arp11
14	ACTR10	ENSG00000131966	ENST00000554642	protein_coding	NOVEL	None	17372	448	148	58690356	58701508	1	None	HARP11, ACTR11, Arp11
14	ACTR10	ENSG00000131966	ENST00000554402	processed_transcript	KNOWN	None	17372	None	None	58697802	58701508	1	None	HARP11, ACTR11, Arp11
18	None	ENSG00000266602	ENST00000583163	lincRNA	KNOWN	None	None	None	None	1509184	1647098	1	None	None
18	None	ENSG00000266450	ENST00000580524	lincRNA	KNOWN	None	None	None	None	1655178	1779956	1	None	None
1	CORT	ENSG00000241563	ENST00000377049	protein_coding	KNOWN	CCDS117	2257	318	105	10509776	10511959	1	None	MGC32686
1	CORT	ENSG00000241563	ENST00000320498	protein_coding	KNOWN	None	2257	468	155	10509971	10511955	1	None	MGC32686
15	NDN	ENSG00000182636	ENST00000331837	protein_coding	KNOWN	CCDS10014	7675	966	321	23930565	23932450	-1	None	HsT16328, PWCR
18	None	ENSG00000264080	ENST00000583827	lincRNA	KNOWN	None	None	None	None	1780330	1782065	1	None	None
12	ETNK1	ENSG00000139163	ENST00000266517	protein_coding	KNOWN	CCDS8698	24649	1359	452	22778009	22843599	1	None	EKI1, EKI
12	ETNK1	ENSG00000139163	ENST00000335148	protein_coding	KNOWN	CCDS41760	24649	777	258	22778075	22797521	1	None	EKI1, EKI
12	ETNK1	ENSG00000139163	ENST00000538218	protein_coding	PUTATIVE	None	24649	1277	424	22778126	22838157	1	None	EKI1, EKI
12	ETNK1	ENSG00000139163	ENST00000545979	protein_coding	PUTATIVE	None	24649	248	81	22778291	22779134	1	None	EKI1, EKI
12	ETNK1	ENSG00000139163	ENST00000539974	retained_intron	KNOWN	None	24649	None	None	22796823	22814162	1	None	EKI1, EKI
12	ETNK1	ENSG00000139163	ENST00000544191	retained_intron	KNOWN	None	24649	None	None	22824020	22837485	1	None	EKI1, EKI
7	CAV1	ENSG00000105974	ENST00000341049	protein_coding	KNOWN	CCDS5767	1527	537	178	116164839	116201230	1	CAV	None
7	CAV1	ENSG00000105974	ENST00000393470	protein_coding	NOVEL	None	1527	504	167	116165055	116199373	1	CAV	None
7	CAV1	ENSG00000105974	ENST00000451122	nonsense_mediated_decay	KNOWN	None	1527	261	86	116165063	116199690	1	CAV	None
7	CAV1	ENSG00000105974	ENST00000489856	retained_intron	KNOWN	None	1527	None	None	116165066	116167072	1	CAV	None
7	CAV1	ENSG00000105974	ENST00000405348	protein_coding	PUTATIVE	CCDS55156	1527	444	147	116165794	116201233	1	CAV	None
7	CAV1	ENSG00000105974	ENST00000456473	protein_coding	PUTATIVE	None	1527	414	137	116166036	116199311	1	CAV	None
7	CAV1	ENSG00000105974	ENST00000393468	protein_coding	PUTATIVE	CCDS55156	1527	444	147	116166331	116199567	1	CAV	None
7	CAV1	ENSG00000105974	ENST00000393467	protein_coding	PUTATIVE	CCDS55156	1527	444	147	116166347	116201230	1	CAV	None
12	C12orf76	ENSG00000174456	ENST00000546651	protein_coding	PUTATIVE	None	33790	150	49	110465872	110486360	-1	None	FLJ40142
12	C12orf76	ENSG00000174456	ENST00000309050	protein_coding	KNOWN	CCDS9141	33790	408	135	110478965	110505500	-1	None	FLJ40142
12	C12orf76	ENSG00000174456	ENST00000549724	protein_coding	PUTATIVE	None	33790	219	72	110479700	110487090	-1	None	FLJ40142
12	C12orf76	ENSG00000174456	ENST00000548936	processed_transcript	KNOWN	None	33790	None	None	110479916	110511439	-1	None	FLJ40142
12	C12orf76	ENSG00000174456	ENST00000551185	protein_coding	PUTATIVE	None	33790	231	76	110480086	110486370	-1	None	FLJ40142
12	C12orf76	ENSG00000174456	ENST00000546627	protein_coding	PUTATIVE	None	33790	186	61	110480117	110486327	-1	None	FLJ40142
12	C12orf76	ENSG00000174456	ENST00000547573	protein_coding	PUTATIVE	None	33790	231	76	110481922	110486357	-1	None	FLJ40142
12	C12orf76	ENSG00000174456	ENST00000548191	protein_coding	PUTATIVE	None	33790	324	107	110487165	110511491	-1	None	FLJ40142
X	None	ENSG00000200702	ENST00000363832	misc_RNA	NOVEL	None	None	None	None	44260849	44260950	1	None	None
HSCHR6_MHC_COX	None	ENSG00000266331	ENST00000583424	miRNA	NOVEL	None	None	None	None	32827013	32827107	-1	None	None
9	RNU6-1293P	ENSG00000206804	ENST00000384077	snRNA	KNOWN	None	48256	None	None	69892787	69892893	-1	None	None
12	CORO1C	ENSG00000110880	ENST00000261401	protein_coding	KNOWN	CCDS9120	2254	1425	474	109038885	109125372	-1	None	coronin-3, HCRNN4
12	CORO1C	ENSG00000110880	ENST00000541050	protein_coding	KNOWN	CCDS9120	2254	1425	474	109040343	109124619	-1	None	coronin-3, HCRNN4
12	CORO1C	ENSG00000110880	ENST00000546705	protein_coding	KNOWN	None	2254	498	165	109040345	109046121	-1	None	coronin-3, HCRNN4
12	CORO1C	ENSG00000110880	ENST00000549384	processed_transcript	KNOWN	None	2254	None	None	109040765	109125294	-1	None	coronin-3, HCRNN4
12	CORO1C	ENSG00000110880	ENST00000421578	protein_coding	PUTATIVE	None	2254	1110	369	109041156	109090178	-1	None	coronin-3, HCRNN4
12	CORO1C	ENSG00000110880	ENST00000550542	nonsense_mediated_decay	KNOWN	None	2254	480	159	109041160	109125302	-1	None	coronin-3, HCRNN4
12	CORO1C	ENSG00000110880	ENST00000549772	protein_coding	PUTATIVE	None	2254	1443	480	109041179	109096851	-1	None	coronin-3, HCRNN4
12	CORO1C	ENSG00000110880	ENST00000549387	retained_intron	KNOWN	None	2254	None	None	109042463	109043447	-1	None	coronin-3, HCRNN4
12	CORO1C	ENSG00000110880	ENST00000552030	processed_transcript	KNOWN	None	2254	None	None	109042739	109052608	-1	None	coronin-3, HCRNN4
12	CORO1C	ENSG00000110880	ENST00000547361	retained_intron	KNOWN	None	2254	None	None	109045821	109052598	-1	None	coronin-3, HCRNN4
12	CORO1C	ENSG00000110880	ENST00000552871	protein_coding	PUTATIVE	None	2254	377	124	109051138	109125294	-1	None	coronin-3, HCRNN4
12	CORO1C	ENSG00000110880	ENST00000547294	protein_coding	KNOWN	None	2254	545	180	109052599	109095757	-1	None	coronin-3, HCRNN4
12	CORO1C	ENSG00000110880	ENST00000550032	protein_coding	KNOWN	None	2254	509	168	109052635	109095132	-1	None	coronin-3, HCRNN4
12	CORO1C	ENSG00000110880	ENST00000551550	protein_coding	KNOWN	None	2254	490	162	109052654	109124929	-1	None	coronin-3, HCRNN4
12	CORO1C	ENSG00000110880	ENST00000546571	protein_coding	KNOWN	None	2254	487	161	109052657	109124327	-1	None	coronin-3, HCRNN4
12	CORO1C	ENSG00000110880	ENST00000551044	protein_coding	KNOWN	None	2254	454	150	109055799	109124445	-1	None	coronin-3, HCRNN4
12	CORO1C	ENSG00000110880	ENST00000547170	retained_intron	KNOWN	None	2254	None	None	109055890	109095700	-1	None	coronin-3, HCRNN4
12	CORO1C	ENSG00000110880	ENST00000551059	retained_intron	KNOWN	None	2254	None	None	109094716	109125294	-1	None	coronin-3, HCRNN4
12	CORO1C	ENSG00000110880	ENST00000420959	protein_coding	KNOWN	None	2254	1584	527	109041179	109096774	-1	None	coronin-3, HCRNN4
X	None	ENSG00000224054	ENST00000430261	processed_pseudogene	KNOWN	None	None	None	None	44325937	44328201	1	None	None
19	GRAMD1A	ENSG00000089351	ENST00000599564	protein_coding	NOVEL	None	29305	2424	807	35485688	35517375	1	KIAA1533	FLJ90346
19	GRAMD1A	ENSG00000089351	ENST00000594597	processed_transcript	KNOWN	None	29305	None	None	35490291	35501283	1	KIAA1533	FLJ90346
19	GRAMD1A	ENSG00000089351	ENST00000317991	protein_coding	KNOWN	CCDS42546	29305	2175	724	35491191	35517373	1	KIAA1533	FLJ90346
19	GRAMD1A	ENSG00000089351	ENST00000600231	nonsense_mediated_decay	KNOWN	None	29305	669	222	35491227	35517373	1	KIAA1533	FLJ90346
19	GRAMD1A	ENSG00000089351	ENST00000603669	processed_transcript	KNOWN	None	29305	None	None	35491276	35500349	1	KIAA1533	FLJ90346
19	GRAMD1A	ENSG00000089351	ENST00000411896	protein_coding	KNOWN	CCDS46046	29305	2142	713	35491330	35517373	1	KIAA1533	FLJ90346
19	GRAMD1A	ENSG00000089351	ENST00000424536	protein_coding	PUTATIVE	None	29305	618	205	35491360	35501543	1	KIAA1533	FLJ90346
19	GRAMD1A	ENSG00000089351	ENST00000598073	processed_transcript	KNOWN	None	29305	None	None	35492044	35501243	1	KIAA1533	FLJ90346
19	GRAMD1A	ENSG00000089351	ENST00000599476	retained_intron	KNOWN	None	29305	None	None	35500577	35501382	1	KIAA1533	FLJ90346
19	GRAMD1A	ENSG00000089351	ENST00000598580	retained_intron	KNOWN	None	29305	None	None	35502388	35504488	1	KIAA1533	FLJ90346
19	GRAMD1A	ENSG00000089351	ENST00000595596	retained_intron	KNOWN	None	29305	None	None	35503892	35505269	1	KIAA1533	FLJ90346
19	GRAMD1A	ENSG00000089351	ENST00000598362	retained_intron	KNOWN	None	29305	None	None	35504511	35505783	1	KIAA1533	FLJ90346
19	GRAMD1A	ENSG00000089351	ENST00000598118	retained_intron	KNOWN	None	29305	None	None	35505873	35517373	1	KIAA1533	FLJ90346
19	GRAMD1A	ENSG00000089351	ENST00000603907	retained_intron	KNOWN	None	29305	None	None	35514202	35514734	1	KIAA1533	FLJ90346
19	GRAMD1A	ENSG00000089351	ENST00000504615	protein_coding	KNOWN	None	29305	1461	486	35491227	35517373	1	KIAA1533	FLJ90346
18	None	ENSG00000263745	ENST00000585072	lincRNA	KNOWN	None	None	None	None	1883525	1906651	-1	None	None
18	None	ENSG00000263745	ENST00000584867	lincRNA	KNOWN	None	None	None	None	1883705	2240847	-1	None	None
18	None	ENSG00000263745	ENST00000579097	lincRNA	KNOWN	None	None	None	None	2034680	2239880	-1	None	None
18	None	ENSG00000263745	ENST00000582086	lincRNA	KNOWN	None	None	None	None	2034824	2111737	-1	None	None
10	None	ENSG00000201548	ENST00000364678	misc_RNA	NOVEL	None	None	None	None	90345395	90345490	-1	None	None
9	None	ENSG00000224599	ENST00000428213	unprocessed_pseudogene	KNOWN	None	None	None	None	70083601	70087216	-1	None	None
10	None	ENSG00000237205	ENST00000433316	processed_pseudogene	KNOWN	None	None	None	None	90377980	90378691	-1	None	None
X	FDPSP5	ENSG00000215035	ENST00000399474	processed_pseudogene	KNOWN	None	3636	None	None	44335273	44336668	-1	FPSL5, CHR39C, FDPSL5	None
10	None	ENSG00000271408	ENST00000603818	processed_pseudogene	KNOWN	None	None	None	None	90459440	90460158	1	None	None
HSCHR6_MHC_COX	BRD2-IT1	ENSG00000234673	ENST00000429353	processed_transcript	PUTATIVE	None	41311	None	None	32860414	32860928	1	None	None
15	FMN1	ENSG00000248905	ENST00000334528	protein_coding	KNOWN	CCDS45209	3768	3591	1196	33057747	33360085	-1	LD, FMN	DKFZP686C2281, FLJ45135, MGC125288, MGC125289
15	FMN1	ENSG00000248905	ENST00000561249	protein_coding	NOVEL	None	3768	3966	1321	33066352	33447241	-1	LD, FMN	DKFZP686C2281, FLJ45135, MGC125288, MGC125289
15	FMN1	ENSG00000248905	ENST00000559047	protein_coding	NOVEL	None	3768	4260	1419	33066511	33447115	-1	LD, FMN	DKFZP686C2281, FLJ45135, MGC125288, MGC125289
15	FMN1	ENSG00000248905	ENST00000558882	processed_transcript	KNOWN	None	3768	None	None	33066524	33153038	-1	LD, FMN	DKFZP686C2281, FLJ45135, MGC125288, MGC125289
15	FMN1	ENSG00000248905	ENST00000559610	protein_coding	PUTATIVE	None	3768	343	113	33103096	33180455	-1	LD, FMN	DKFZP686C2281, FLJ45135, MGC125288, MGC125289
15	FMN1	ENSG00000248905	ENST00000560317	protein_coding	PUTATIVE	None	3768	545	180	33191996	33218461	-1	LD, FMN	DKFZP686C2281, FLJ45135, MGC125288, MGC125289
15	FMN1	ENSG00000248905	ENST00000558711	protein_coding	PUTATIVE	None	3768	175	57	33192008	33194241	-1	LD, FMN	DKFZP686C2281, FLJ45135, MGC125288, MGC125289
15	FMN1	ENSG00000248905	ENST00000558628	retained_intron	KNOWN	None	3768	None	None	33200360	33218462	-1	LD, FMN	DKFZP686C2281, FLJ45135, MGC125288, MGC125289
15	FMN1	ENSG00000248905	ENST00000558197	protein_coding	KNOWN	None	3768	1512	503	33354868	33360363	-1	LD, FMN	DKFZP686C2281, FLJ45135, MGC125288, MGC125289
15	FMN1	ENSG00000248905	ENST00000559150	processed_transcript	KNOWN	None	3768	None	None	33356627	33360233	-1	LD, FMN	DKFZP686C2281, FLJ45135, MGC125288, MGC125289
15	FMN1	ENSG00000248905	ENST00000320930	protein_coding	KNOWN	None	3768	1989	662	33441985	33486897	-1	LD, FMN	DKFZP686C2281, FLJ45135, MGC125288, MGC125289
1	FRRS1	ENSG00000156869	ENST00000287474	protein_coding	KNOWN	CCDS30780	27622	1881	626	100174259	100231349	-1	SDFR2	SDR2
1	FRRS1	ENSG00000156869	ENST00000489209	processed_transcript	KNOWN	None	27622	None	None	100176381	100178064	-1	SDFR2	SDR2
1	FRRS1	ENSG00000156869	ENST00000492943	processed_transcript	KNOWN	None	27622	None	None	100176475	100181215	-1	SDFR2	SDR2
1	FRRS1	ENSG00000156869	ENST00000370176	retained_intron	KNOWN	None	27622	None	None	100213151	100232187	-1	SDFR2	SDR2
1	FRRS1	ENSG00000156869	ENST00000414213	protein_coding	KNOWN	None	27622	1779	592	100174259	100231349	-1	SDFR2	SDR2
15	NPAP1	ENSG00000185823	ENST00000329468	protein_coding	KNOWN	CCDS10015	1190	3471	1156	24920541	24928593	1	C15orf2	None
X	None	ENSG00000252120	ENST00000516311	miRNA	NOVEL	None	None	None	None	44436600	44436684	-1	None	None
12	RIMKLB	ENSG00000166532	ENST00000538758	retained_intron	KNOWN	None	29228	None	None	8834196	8866757	1	FAM80B	KIAA1238, NAAGS, NAAGS-I
12	RIMKLB	ENSG00000166532	ENST00000544257	nonsense_mediated_decay	KNOWN	None	29228	924	307	8834287	8935691	1	FAM80B	KIAA1238, NAAGS, NAAGS-I
12	RIMKLB	ENSG00000166532	ENST00000541044	protein_coding	KNOWN	None	29228	343	113	8849773	8902625	1	FAM80B	KIAA1238, NAAGS, NAAGS-I
12	RIMKLB	ENSG00000166532	ENST00000539923	protein_coding	KNOWN	None	29228	285	94	8850277	8902567	1	FAM80B	KIAA1238, NAAGS, NAAGS-I
12	RIMKLB	ENSG00000166532	ENST00000537189	protein_coding	PUTATIVE	None	29228	510	169	8850278	8902609	1	FAM80B	KIAA1238, NAAGS, NAAGS-I
12	RIMKLB	ENSG00000166532	ENST00000535829	protein_coding	KNOWN	CCDS41748	29228	1161	386	8850496	8927001	1	FAM80B	KIAA1238, NAAGS, NAAGS-I
12	RIMKLB	ENSG00000166532	ENST00000299673	processed_transcript	KNOWN	None	29228	None	None	8850633	8930228	1	FAM80B	KIAA1238, NAAGS, NAAGS-I
12	RIMKLB	ENSG00000166532	ENST00000538135	protein_coding	KNOWN	CCDS41748	29228	1161	386	8852442	8929786	1	FAM80B	KIAA1238, NAAGS, NAAGS-I
12	RIMKLB	ENSG00000166532	ENST00000542232	processed_transcript	KNOWN	None	29228	None	None	8930186	8935691	1	FAM80B	KIAA1238, NAAGS, NAAGS-I
12	RIMKLB	ENSG00000166532	ENST00000504495	processed_transcript	KNOWN	None	29228	None	None	8931627	8935691	1	FAM80B	KIAA1238, NAAGS, NAAGS-I
12	RIMKLB	ENSG00000166532	ENST00000510357	processed_transcript	KNOWN	None	29228	None	None	8932408	8935691	1	FAM80B	KIAA1238, NAAGS, NAAGS-I
12	RIMKLB	ENSG00000166532	ENST00000357529	protein_coding	KNOWN	CCDS41748	29228	1161	386	8850518	8929787	1	FAM80B	KIAA1238, NAAGS, NAAGS-I
9	None	ENSG00000236252	ENST00000588215	processed_transcript	KNOWN	None	None	None	None	70113593	70124467	-1	None	None
9	None	ENSG00000236252	ENST00000441919	transcribed_processed_pseudogene	KNOWN	None	None	None	None	70116486	70116866	-1	None	None
7	None	ENSG00000233369	ENST00000453092	unprocessed_pseudogene	KNOWN	None	None	None	None	72589455	72619481	1	None	None
7	None	ENSG00000233369	ENST00000544802	unprocessed_pseudogene	KNOWN	None	None	None	None	72569033	72619657	1	None	None
5	RNU1-39P	ENSG00000206624	ENST00000383897	snRNA	KNOWN	None	48381	None	None	178311716	178311880	1	None	None
9	None	ENSG00000267085	ENST00000592972	processed_pseudogene	KNOWN	None	None	None	None	70116128	70116383	-1	None	None
8	None	ENSG00000204775	ENST00000377412	protein_coding	KNOWN	None	None	1905	634	145317003	145331153	-1	None	None
5	None	ENSG00000213328	ENST00000517817	processed_pseudogene	KNOWN	None	None	None	None	178336711	178337610	-1	None	None
9	None	ENSG00000204780	ENST00000424370	IG_V_pseudogene	KNOWN	None	None	None	None	70144149	70144432	-1	None	None
9	None	ENSG00000204780	ENST00000377421	IG_V_pseudogene	KNOWN	None	None	None	None	70143769	70144419	-1	None	None
1	DFFA	ENSG00000160049	ENST00000377038	protein_coding	KNOWN	CCDS118	2772	996	331	10516579	10532583	-1	None	DFF-45, DFF45, ICAD, DFF1
1	DFFA	ENSG00000160049	ENST00000476658	nonsense_mediated_decay	KNOWN	None	2772	480	159	10521700	10532536	-1	None	DFF-45, DFF45, ICAD, DFF1
1	DFFA	ENSG00000160049	ENST00000377036	protein_coding	KNOWN	CCDS119	2772	807	268	10522525	10532545	-1	None	DFF-45, DFF45, ICAD, DFF1
5	PIGFP1	ENSG00000253869	ENST00000519180	processed_pseudogene	KNOWN	None	8963	None	None	178349065	178349717	1	None	None
5	None	ENSG00000272431	ENST00000606195	lincRNA	KNOWN	None	None	None	None	178365678	178366224	-1	None	None
9	None	ENSG00000204778	ENST00000445695	unprocessed_pseudogene	KNOWN	None	None	None	None	70181520	70216621	-1	None	None
5	None	ENSG00000254035	ENST00000519491	antisense	KNOWN	None	None	None	None	178396391	178417117	1	None	None
5	None	ENSG00000254158	ENST00000521486	processed_pseudogene	KNOWN	None	None	None	None	178424970	178425816	-1	None	None
4	NUDT19P5	ENSG00000251073	ENST00000505620	processed_pseudogene	KNOWN	None	43589	None	None	159103977	159104545	1	None	None
19	MIR7-3	ENSG00000207630	ENST00000384898	miRNA	KNOWN	None	31640	None	None	4770682	4770791	1	MIRN7-3	hsa-mir-7-3
5	None	ENSG00000253144	ENST00000523735	processed_pseudogene	KNOWN	None	None	None	None	178509681	178510195	-1	None	None
HSCHR6_MHC_MANN	GPSM3	ENSG00000236697	ENST00000479498	protein_coding	PUTATIVE	None	13945	474	157	32197967	32200069	-1	C6orf9	NG1, G18, G18.1a, G18.1b, G18.2, AGS4
HSCHR6_MHC_MANN	GPSM3	ENSG00000236697	ENST00000472993	nonsense_mediated_decay	KNOWN	None	13945	150	49	32197967	32200086	-1	C6orf9	NG1, G18, G18.1a, G18.1b, G18.2, AGS4
HSCHR6_MHC_MANN	GPSM3	ENSG00000236697	ENST00000414839	protein_coding	KNOWN	None	13945	483	160	32197967	32200107	-1	C6orf9	NG1, G18, G18.1a, G18.1b, G18.2, AGS4
HSCHR6_MHC_MANN	GPSM3	ENSG00000236697	ENST00000448684	protein_coding	KNOWN	None	13945	483	160	32197967	32202724	-1	C6orf9	NG1, G18, G18.1a, G18.1b, G18.2, AGS4
22	KCTD17	ENSG00000100379	ENST00000402077	protein_coding	KNOWN	CCDS13940	25705	894	297	37447779	37459430	1	None	FLJ12242
22	KCTD17	ENSG00000100379	ENST00000403888	protein_coding	KNOWN	None	25705	966	321	37447779	37459430	1	None	FLJ12242
22	KCTD17	ENSG00000100379	ENST00000421900	nonsense_mediated_decay	KNOWN	None	25705	314	103	37447892	37455378	1	None	FLJ12242
22	KCTD17	ENSG00000100379	ENST00000456470	protein_coding	NOVEL	None	25705	542	179	37447916	37459414	1	None	FLJ12242
22	KCTD17	ENSG00000100379	ENST00000483389	retained_intron	KNOWN	None	25705	None	None	37447945	37455556	1	None	FLJ12242
22	KCTD17	ENSG00000100379	ENST00000431531	protein_coding	PUTATIVE	None	25705	189	62	37448210	37449235	1	None	FLJ12242
22	KCTD17	ENSG00000100379	ENST00000478231	retained_intron	KNOWN	None	25705	None	None	37449105	37457604	1	None	FLJ12242
22	KCTD17	ENSG00000100379	ENST00000462640	retained_intron	KNOWN	None	25705	None	None	37453438	37457448	1	None	FLJ12242
4	None	ENSG00000250604	ENST00000513067	antisense	KNOWN	None	None	None	None	159120257	159121594	-1	None	None
5	None	ENSG00000253979	ENST00000520163	lincRNA	KNOWN	None	None	None	None	178804506	178805866	1	None	None
19	SLC7A9	ENSG00000021488	ENST00000590341	protein_coding	KNOWN	CCDS12425	11067	1464	487	33321415	33360648	-1	CSNU3	None
19	SLC7A9	ENSG00000021488	ENST00000590465	nonsense_mediated_decay	KNOWN	None	11067	120	39	33321421	33360642	-1	CSNU3	None
19	SLC7A9	ENSG00000021488	ENST00000023064	protein_coding	KNOWN	CCDS12425	11067	1464	487	33321421	33360672	-1	CSNU3	None
19	SLC7A9	ENSG00000021488	ENST00000592232	nonsense_mediated_decay	KNOWN	None	11067	120	39	33321494	33359445	-1	CSNU3	None
19	SLC7A9	ENSG00000021488	ENST00000587772	protein_coding	KNOWN	CCDS12425	11067	1464	487	33321526	33360670	-1	CSNU3	None
19	SLC7A9	ENSG00000021488	ENST00000589659	protein_coding	PUTATIVE	None	11067	677	224	33349382	33355424	-1	CSNU3	None
17	CDK5RAP3	ENSG00000108465	ENST00000579632	protein_coding	PUTATIVE	None	18673	588	195	46045176	46052703	1	None	MST016, FLJ13660, C53, IC53, HSF-27, OK/SW-cl.114, LZAP
17	CDK5RAP3	ENSG00000108465	ENST00000536708	protein_coding	PUTATIVE	None	18673	1596	531	46047900	46059138	1	None	MST016, FLJ13660, C53, IC53, HSF-27, OK/SW-cl.114, LZAP
17	CDK5RAP3	ENSG00000108465	ENST00000579853	retained_intron	KNOWN	None	18673	None	None	46048374	46051775	1	None	MST016, FLJ13660, C53, IC53, HSF-27, OK/SW-cl.114, LZAP
17	CDK5RAP3	ENSG00000108465	ENST00000577442	retained_intron	KNOWN	None	18673	None	None	46048384	46051922	1	None	MST016, FLJ13660, C53, IC53, HSF-27, OK/SW-cl.114, LZAP
17	CDK5RAP3	ENSG00000108465	ENST00000338399	protein_coding	KNOWN	CCDS42356	18673	1521	506	46048407	46059107	1	None	MST016, FLJ13660, C53, IC53, HSF-27, OK/SW-cl.114, LZAP
17	CDK5RAP3	ENSG00000108465	ENST00000584991	nonsense_mediated_decay	KNOWN	None	18673	318	105	46048415	46059107	1	None	MST016, FLJ13660, C53, IC53, HSF-27, OK/SW-cl.114, LZAP
17	CDK5RAP3	ENSG00000108465	ENST00000584525	retained_intron	KNOWN	None	18673	None	None	46048416	46051502	1	None	MST016, FLJ13660, C53, IC53, HSF-27, OK/SW-cl.114, LZAP
17	CDK5RAP3	ENSG00000108465	ENST00000581708	processed_transcript	KNOWN	None	18673	None	None	46048442	46052632	1	None	MST016, FLJ13660, C53, IC53, HSF-27, OK/SW-cl.114, LZAP
17	CDK5RAP3	ENSG00000108465	ENST00000579605	nonsense_mediated_decay	KNOWN	None	18673	357	118	46048444	46052632	1	None	MST016, FLJ13660, C53, IC53, HSF-27, OK/SW-cl.114, LZAP
17	CDK5RAP3	ENSG00000108465	ENST00000584063	retained_intron	KNOWN	None	18673	None	None	46048470	46059138	1	None	MST016, FLJ13660, C53, IC53, HSF-27, OK/SW-cl.114, LZAP
17	CDK5RAP3	ENSG00000108465	ENST00000581160	processed_transcript	KNOWN	None	18673	None	None	46048479	46052464	1	None	MST016, FLJ13660, C53, IC53, HSF-27, OK/SW-cl.114, LZAP
17	CDK5RAP3	ENSG00000108465	ENST00000578733	retained_intron	KNOWN	None	18673	None	None	46048488	46051176	1	None	MST016, FLJ13660, C53, IC53, HSF-27, OK/SW-cl.114, LZAP
17	CDK5RAP3	ENSG00000108465	ENST00000584592	processed_transcript	KNOWN	None	18673	None	None	46048488	46051397	1	None	MST016, FLJ13660, C53, IC53, HSF-27, OK/SW-cl.114, LZAP
17	CDK5RAP3	ENSG00000108465	ENST00000578018	protein_coding	PUTATIVE	None	18673	192	63	46048488	46051813	1	None	MST016, FLJ13660, C53, IC53, HSF-27, OK/SW-cl.114, LZAP
17	CDK5RAP3	ENSG00000108465	ENST00000582275	retained_intron	KNOWN	None	18673	None	None	46048488	46051907	1	None	MST016, FLJ13660, C53, IC53, HSF-27, OK/SW-cl.114, LZAP
17	CDK5RAP3	ENSG00000108465	ENST00000577664	nonsense_mediated_decay	KNOWN	None	18673	333	110	46048488	46052890	1	None	MST016, FLJ13660, C53, IC53, HSF-27, OK/SW-cl.114, LZAP
17	CDK5RAP3	ENSG00000108465	ENST00000578525	nonsense_mediated_decay	KNOWN	None	18673	375	124	46048488	46052918	1	None	MST016, FLJ13660, C53, IC53, HSF-27, OK/SW-cl.114, LZAP
17	CDK5RAP3	ENSG00000108465	ENST00000579175	protein_coding	NOVEL	None	18673	843	280	46048489	46054137	1	None	MST016, FLJ13660, C53, IC53, HSF-27, OK/SW-cl.114, LZAP
17	CDK5RAP3	ENSG00000108465	ENST00000585163	retained_intron	KNOWN	None	18673	None	None	46048491	46059134	1	None	MST016, FLJ13660, C53, IC53, HSF-27, OK/SW-cl.114, LZAP
17	CDK5RAP3	ENSG00000108465	ENST00000580287	retained_intron	KNOWN	None	18673	None	None	46048493	46059138	1	None	MST016, FLJ13660, C53, IC53, HSF-27, OK/SW-cl.114, LZAP
17	CDK5RAP3	ENSG00000108465	ENST00000583182	retained_intron	KNOWN	None	18673	None	None	46048498	46052155	1	None	MST016, FLJ13660, C53, IC53, HSF-27, OK/SW-cl.114, LZAP
17	CDK5RAP3	ENSG00000108465	ENST00000583363	nonsense_mediated_decay	KNOWN	None	18673	147	48	46048501	46052047	1	None	MST016, FLJ13660, C53, IC53, HSF-27, OK/SW-cl.114, LZAP
17	CDK5RAP3	ENSG00000108465	ENST00000578134	processed_transcript	KNOWN	None	18673	None	None	46048509	46052997	1	None	MST016, FLJ13660, C53, IC53, HSF-27, OK/SW-cl.114, LZAP
17	CDK5RAP3	ENSG00000108465	ENST00000579780	retained_intron	KNOWN	None	18673	None	None	46048517	46051941	1	None	MST016, FLJ13660, C53, IC53, HSF-27, OK/SW-cl.114, LZAP
17	CDK5RAP3	ENSG00000108465	ENST00000583352	protein_coding	PUTATIVE	None	18673	371	122	46048517	46053016	1	None	MST016, FLJ13660, C53, IC53, HSF-27, OK/SW-cl.114, LZAP
17	CDK5RAP3	ENSG00000108465	ENST00000580391	nonsense_mediated_decay	KNOWN	None	18673	177	58	46048522	46059100	1	None	MST016, FLJ13660, C53, IC53, HSF-27, OK/SW-cl.114, LZAP
17	CDK5RAP3	ENSG00000108465	ENST00000584186	retained_intron	KNOWN	None	18673	None	None	46048531	46051221	1	None	MST016, FLJ13660, C53, IC53, HSF-27, OK/SW-cl.114, LZAP
17	CDK5RAP3	ENSG00000108465	ENST00000584042	retained_intron	KNOWN	None	18673	None	None	46048577	46051927	1	None	MST016, FLJ13660, C53, IC53, HSF-27, OK/SW-cl.114, LZAP
17	CDK5RAP3	ENSG00000108465	ENST00000584168	retained_intron	KNOWN	None	18673	None	None	46048728	46059108	1	None	MST016, FLJ13660, C53, IC53, HSF-27, OK/SW-cl.114, LZAP
17	CDK5RAP3	ENSG00000108465	ENST00000580670	nonsense_mediated_decay	KNOWN	None	18673	312	103	46048728	46059123	1	None	MST016, FLJ13660, C53, IC53, HSF-27, OK/SW-cl.114, LZAP
17	CDK5RAP3	ENSG00000108465	ENST00000581662	retained_intron	KNOWN	None	18673	None	None	46051025	46051949	1	None	MST016, FLJ13660, C53, IC53, HSF-27, OK/SW-cl.114, LZAP
17	CDK5RAP3	ENSG00000108465	ENST00000582114	retained_intron	KNOWN	None	18673	None	None	46053827	46058075	1	None	MST016, FLJ13660, C53, IC53, HSF-27, OK/SW-cl.114, LZAP
17	CDK5RAP3	ENSG00000108465	ENST00000577802	retained_intron	KNOWN	None	18673	None	None	46053994	46055417	1	None	MST016, FLJ13660, C53, IC53, HSF-27, OK/SW-cl.114, LZAP
17	CDK5RAP3	ENSG00000108465	ENST00000583697	protein_coding	PUTATIVE	None	18673	818	271	46054088	46059134	1	None	MST016, FLJ13660, C53, IC53, HSF-27, OK/SW-cl.114, LZAP
17	CDK5RAP3	ENSG00000108465	ENST00000578663	processed_transcript	KNOWN	None	18673	None	None	46055916	46059107	1	None	MST016, FLJ13660, C53, IC53, HSF-27, OK/SW-cl.114, LZAP
17	CDK5RAP3	ENSG00000108465	ENST00000582482	retained_intron	KNOWN	None	18673	None	None	46056583	46059139	1	None	MST016, FLJ13660, C53, IC53, HSF-27, OK/SW-cl.114, LZAP
17	CDK5RAP3	ENSG00000108465	ENST00000578996	retained_intron	KNOWN	None	18673	None	None	46058473	46059140	1	None	MST016, FLJ13660, C53, IC53, HSF-27, OK/SW-cl.114, LZAP
5	None	ENSG00000253163	ENST00000519603	lincRNA	KNOWN	None	None	None	None	178804532	178805762	-1	None	None
9	YBX1P10	ENSG00000213866	ENST00000444752	processed_pseudogene	KNOWN	None	42432	None	None	35971341	35972315	-1	None	None
6	OPN5	ENSG00000124818	ENST00000489301	protein_coding	NOVEL	None	19992	1149	382	47749718	47800516	1	TMEM13	neuropsin, dJ402H5.1
6	OPN5	ENSG00000124818	ENST00000371211	protein_coding	KNOWN	CCDS4923	19992	1065	354	47749775	47792435	1	TMEM13	neuropsin, dJ402H5.1
6	OPN5	ENSG00000124818	ENST00000393699	protein_coding	NOVEL	None	19992	1062	353	47749803	47779553	1	TMEM13	neuropsin, dJ402H5.1
6	OPN5	ENSG00000124818	ENST00000244799	processed_transcript	KNOWN	None	19992	None	None	47754804	47794117	1	TMEM13	neuropsin, dJ402H5.1
6	OPN5	ENSG00000124818	ENST00000510695	processed_transcript	KNOWN	None	19992	None	None	47762485	47763298	1	TMEM13	neuropsin, dJ402H5.1
4	None	ENSG00000251429	ENST00000512016	processed_transcript	KNOWN	None	None	None	None	159191530	159199753	1	None	None
4	None	ENSG00000251429	ENST00000513994	processed_transcript	KNOWN	None	None	None	None	159192795	159198425	1	None	None
4	None	ENSG00000251429	ENST00000514881	transcribed_processed_pseudogene	KNOWN	None	None	None	None	159198910	159199828	1	None	None
6	HCG4P3	ENSG00000237669	ENST00000458060	unprocessed_pseudogene	KNOWN	None	22922	None	None	29973898	29974893	-1	None	HCGIV-03, HCGIV.2, HCGIV-3
5	None	ENSG00000253617	ENST00000517842	processed_pseudogene	KNOWN	None	None	None	None	178812820	178812993	-1	None	None
19	STRN4	ENSG00000090372	ENST00000263280	protein_coding	KNOWN	CCDS12690	15721	2262	753	47222764	47249737	-1	None	zinedin, ZIN
19	STRN4	ENSG00000090372	ENST00000391910	protein_coding	KNOWN	CCDS42581	15721	2283	760	47222768	47250138	-1	None	zinedin, ZIN
19	STRN4	ENSG00000090372	ENST00000601869	retained_intron	KNOWN	None	15721	None	None	47222770	47225009	-1	None	zinedin, ZIN
19	STRN4	ENSG00000090372	ENST00000594581	retained_intron	KNOWN	None	15721	None	None	47222770	47229522	-1	None	zinedin, ZIN
19	STRN4	ENSG00000090372	ENST00000539396	protein_coding	PUTATIVE	None	15721	1905	634	47223328	47250251	-1	None	zinedin, ZIN
19	STRN4	ENSG00000090372	ENST00000600615	protein_coding	KNOWN	None	15721	595	197	47223666	47226468	-1	None	zinedin, ZIN
19	STRN4	ENSG00000090372	ENST00000595357	retained_intron	KNOWN	None	15721	None	None	47223956	47234114	-1	None	zinedin, ZIN
19	STRN4	ENSG00000090372	ENST00000594287	protein_coding	NOVEL	None	15721	951	316	47225595	47231216	-1	None	zinedin, ZIN
19	STRN4	ENSG00000090372	ENST00000601631	retained_intron	KNOWN	None	15721	None	None	47226117	47231572	-1	None	zinedin, ZIN
19	STRN4	ENSG00000090372	ENST00000598074	retained_intron	KNOWN	None	15721	None	None	47226180	47228149	-1	None	zinedin, ZIN
19	STRN4	ENSG00000090372	ENST00000594357	processed_transcript	KNOWN	None	15721	None	None	47226191	47231663	-1	None	zinedin, ZIN
19	STRN4	ENSG00000090372	ENST00000600358	nonsense_mediated_decay	KNOWN	None	15721	950	315	47228085	47241429	-1	None	zinedin, ZIN
19	STRN4	ENSG00000090372	ENST00000435164	nonsense_mediated_decay	KNOWN	None	15721	774	257	47228590	47250120	-1	None	zinedin, ZIN
19	STRN4	ENSG00000090372	ENST00000602223	processed_transcript	KNOWN	None	15721	None	None	47228738	47231588	-1	None	zinedin, ZIN
19	STRN4	ENSG00000090372	ENST00000599231	retained_intron	KNOWN	None	15721	None	None	47230710	47234188	-1	None	zinedin, ZIN
19	STRN4	ENSG00000090372	ENST00000594847	retained_intron	KNOWN	None	15721	None	None	47231164	47236706	-1	None	zinedin, ZIN
19	STRN4	ENSG00000090372	ENST00000596016	processed_transcript	KNOWN	None	15721	None	None	47231942	47235045	-1	None	zinedin, ZIN
19	STRN4	ENSG00000090372	ENST00000602397	processed_transcript	KNOWN	None	15721	None	None	47231944	47239606	-1	None	zinedin, ZIN
19	STRN4	ENSG00000090372	ENST00000594704	nonsense_mediated_decay	KNOWN	None	15721	542	179	47233990	47249662	-1	None	zinedin, ZIN
19	STRN4	ENSG00000090372	ENST00000593979	protein_coding	PUTATIVE	None	15721	418	138	47234093	47250202	-1	None	zinedin, ZIN
19	STRN4	ENSG00000090372	ENST00000597063	protein_coding	PUTATIVE	None	15721	344	113	47236332	47249087	-1	None	zinedin, ZIN
19	STRN4	ENSG00000090372	ENST00000597021	protein_coding	PUTATIVE	None	15721	309	102	47236367	47242764	-1	None	zinedin, ZIN
19	STRN4	ENSG00000090372	ENST00000596012	protein_coding	PUTATIVE	None	15721	219	72	47236457	47250202	-1	None	zinedin, ZIN
19	STRN4	ENSG00000090372	ENST00000600710	processed_transcript	KNOWN	None	15721	None	None	47239462	47250201	-1	None	zinedin, ZIN
5	None	ENSG00000250674	ENST00000503218	lincRNA	KNOWN	None	None	None	None	178882416	178883096	1	None	None
X	CHTF8P1	ENSG00000233543	ENST00000414660	processed_pseudogene	KNOWN	None	35443	None	None	44492938	44494478	1	CHTF8P	None
8	FZD6	ENSG00000164930	ENST00000522566	protein_coding	KNOWN	CCDS6298	4044	2121	706	104310661	104345045	1	None	Hfz6
8	FZD6	ENSG00000164930	ENST00000522484	nonsense_mediated_decay	KNOWN	None	4044	1404	467	104311059	104345094	1	None	Hfz6
8	FZD6	ENSG00000164930	ENST00000523933	nonsense_mediated_decay	KNOWN	None	4044	303	100	104311093	104342199	1	None	Hfz6
8	FZD6	ENSG00000164930	ENST00000523739	protein_coding	PUTATIVE	CCDS55268	4044	2025	674	104311093	104344222	1	None	Hfz6
8	FZD6	ENSG00000164930	ENST00000519011	nonsense_mediated_decay	KNOWN	None	4044	183	60	104311104	104344120	1	None	Hfz6
8	FZD6	ENSG00000164930	ENST00000521195	nonsense_mediated_decay	KNOWN	None	4044	195	64	104312182	104344014	1	None	Hfz6
8	FZD6	ENSG00000164930	ENST00000358755	protein_coding	KNOWN	CCDS6298	4044	2121	706	104311059	104345087	1	None	Hfz6
8	FZD6	ENSG00000164930	ENST00000540287	protein_coding	KNOWN	None	4044	1206	401	104311104	104344120	1	None	Hfz6
5	RN7SL71P	ENSG00000264205	ENST00000579616	misc_RNA	KNOWN	None	46087	None	None	178893834	178894126	-1	None	None
5	None	ENSG00000253652	ENST00000520758	lincRNA	KNOWN	None	None	None	None	178930323	178942580	-1	None	None
6	HLA-J	ENSG00000204622	ENST00000469281	processed_transcript	KNOWN	None	4967	None	None	29974360	29977733	1	HLA-CDA12, D6S203	CDA12, HLA-59
6	HLA-J	ENSG00000204622	ENST00000462773	processed_transcript	KNOWN	None	4967	None	None	29974364	29977733	1	HLA-CDA12, D6S203	CDA12, HLA-59
6	HLA-J	ENSG00000204622	ENST00000495278	processed_transcript	KNOWN	None	4967	None	None	29974373	29977733	1	HLA-CDA12, D6S203	CDA12, HLA-59
6	HLA-J	ENSG00000204622	ENST00000494367	transcribed_unprocessed_pseudogene	KNOWN	None	4967	None	None	29974383	29977316	1	HLA-CDA12, D6S203	CDA12, HLA-59
3	KPNA4	ENSG00000186432	ENST00000334256	protein_coding	KNOWN	CCDS3191	6397	1566	521	160212783	160283376	-1	None	QIP1, SRP3, IPOA3, MGC12217, MGC26703
3	KPNA4	ENSG00000186432	ENST00000483437	protein_coding	NOVEL	None	6397	510	169	160222746	160239584	-1	None	QIP1, SRP3, IPOA3, MGC12217, MGC26703
3	KPNA4	ENSG00000186432	ENST00000469804	processed_transcript	PUTATIVE	None	6397	None	None	160281997	160283359	-1	None	QIP1, SRP3, IPOA3, MGC12217, MGC26703
4	RNU4-79P	ENSG00000199634	ENST00000362764	snRNA	KNOWN	None	47015	None	None	159316546	159316686	1	None	None
13	DIS3	ENSG00000083520	ENST00000377767	protein_coding	KNOWN	CCDS9447	20604	2877	958	73329540	73356071	-1	KIAA1008	dis3p, RRP44, EXOSC11
13	DIS3	ENSG00000083520	ENST00000377780	protein_coding	NOVEL	CCDS45057	20604	2787	928	73331581	73356063	-1	KIAA1008	dis3p, RRP44, EXOSC11
13	DIS3	ENSG00000083520	ENST00000469339	processed_transcript	KNOWN	None	20604	None	None	73333179	73347908	-1	KIAA1008	dis3p, RRP44, EXOSC11
13	DIS3	ENSG00000083520	ENST00000490646	nonsense_mediated_decay	KNOWN	None	20604	1680	559	73333813	73355992	-1	KIAA1008	dis3p, RRP44, EXOSC11
13	DIS3	ENSG00000083520	ENST00000475871	processed_transcript	KNOWN	None	20604	None	None	73354984	73356232	-1	KIAA1008	dis3p, RRP44, EXOSC11
13	DIS3	ENSG00000083520	ENST00000545453	protein_coding	KNOWN	None	20604	2391	796	73333182	73356234	-1	KIAA1008	dis3p, RRP44, EXOSC11
5	None	ENSG00000251545	ENST00000505650	unprocessed_pseudogene	KNOWN	None	None	None	None	178949458	178952075	1	None	None
4	None	ENSG00000248387	ENST00000510606	processed_pseudogene	KNOWN	None	None	None	None	159390738	159391854	1	None	None
6	None	ENSG00000224506	ENST00000423208	lincRNA	KNOWN	None	None	None	None	125995499	126041364	1	None	None
4	None	ENSG00000249901	ENST00000502566	antisense	KNOWN	None	None	None	None	159411918	159431060	-1	None	None
10	IKZF5	ENSG00000095574	ENST00000368886	protein_coding	KNOWN	CCDS41574	14283	1260	419	124750322	124768333	-1	ZNFN1A5	Pegasus, FLJ22973
10	IKZF5	ENSG00000095574	ENST00000496605	processed_transcript	KNOWN	None	14283	None	None	124755510	124768323	-1	ZNFN1A5	Pegasus, FLJ22973
10	IKZF5	ENSG00000095574	ENST00000469821	processed_transcript	KNOWN	None	14283	None	None	124755663	124768289	-1	ZNFN1A5	Pegasus, FLJ22973
10	IKZF5	ENSG00000095574	ENST00000479103	processed_transcript	KNOWN	None	14283	None	None	124757743	124768328	-1	ZNFN1A5	Pegasus, FLJ22973
17	GEMIN4	ENSG00000179409	ENST00000319004	protein_coding	KNOWN	CCDS45559	15717	3177	1058	647654	655501	-1	None	HHRF-1, DKFZP434B131, p97, DKFZP434D174, HC56, HCAP1
17	GEMIN4	ENSG00000179409	ENST00000576778	protein_coding	PUTATIVE	None	15717	3144	1047	647863	652591	-1	None	HHRF-1, DKFZP434B131, p97, DKFZP434D174, HC56, HCAP1
17	GEMIN4	ENSG00000179409	ENST00000437269	protein_coding	PUTATIVE	None	15717	555	184	649871	655414	-1	None	HHRF-1, DKFZP434B131, p97, DKFZP434D174, HC56, HCAP1
17	GEMIN4	ENSG00000179409	ENST00000573482	protein_coding	PUTATIVE	None	15717	888	295	650407	655425	-1	None	HHRF-1, DKFZP434B131, p97, DKFZP434D174, HC56, HCAP1
17	GEMIN4	ENSG00000179409	ENST00000570364	protein_coding	PUTATIVE	None	15717	815	270	650480	656016	-1	None	HHRF-1, DKFZP434B131, p97, DKFZP434D174, HC56, HCAP1
17	GEMIN4	ENSG00000179409	ENST00000576383	protein_coding	PUTATIVE	None	15717	569	188	650681	657239	-1	None	HHRF-1, DKFZP434B131, p97, DKFZP434D174, HC56, HCAP1
17	GEMIN4	ENSG00000179409	ENST00000574958	protein_coding	PUTATIVE	None	15717	211	69	651084	655278	-1	None	HHRF-1, DKFZP434B131, p97, DKFZP434D174, HC56, HCAP1
4	None	ENSG00000271817	ENST00000607547	snoRNA	NOVEL	None	None	None	None	159621843	159622060	1	None	None
6	NCOA7-AS1	ENSG00000232131	ENST00000429007	antisense	KNOWN	None	40954	None	None	126119002	126140004	-1	None	None
21	SON	ENSG00000159140	ENST00000356577	protein_coding	KNOWN	CCDS13629	11183	7281	2426	34914924	34949787	1	C21orf50	DBP-5, NREBP, KIAA1019, BASS1, FLJ21099, FLJ33914
21	SON	ENSG00000159140	ENST00000475072	retained_intron	KNOWN	None	11183	None	None	34915358	34919058	1	C21orf50	DBP-5, NREBP, KIAA1019, BASS1, FLJ21099, FLJ33914
21	SON	ENSG00000159140	ENST00000381692	protein_coding	PUTATIVE	None	11183	1365	454	34915358	34949787	1	C21orf50	DBP-5, NREBP, KIAA1019, BASS1, FLJ21099, FLJ33914
21	SON	ENSG00000159140	ENST00000300278	protein_coding	KNOWN	CCDS13631	11183	6912	2303	34915370	34932973	1	C21orf50	DBP-5, NREBP, KIAA1019, BASS1, FLJ21099, FLJ33914
21	SON	ENSG00000159140	ENST00000455528	nonsense_mediated_decay	KNOWN	None	11183	6978	2325	34915370	34949787	1	C21orf50	DBP-5, NREBP, KIAA1019, BASS1, FLJ21099, FLJ33914
21	SON	ENSG00000159140	ENST00000381679	protein_coding	PUTATIVE	None	11183	6327	2108	34915371	34931362	1	C21orf50	DBP-5, NREBP, KIAA1019, BASS1, FLJ21099, FLJ33914
21	SON	ENSG00000159140	ENST00000492229	processed_transcript	PUTATIVE	None	11183	None	None	34915376	34919345	1	C21orf50	DBP-5, NREBP, KIAA1019, BASS1, FLJ21099, FLJ33914
21	SON	ENSG00000159140	ENST00000436227	protein_coding	NOVEL	None	11183	4364	1453	34924554	34949787	1	C21orf50	DBP-5, NREBP, KIAA1019, BASS1, FLJ21099, FLJ33914
21	SON	ENSG00000159140	ENST00000421541	protein_coding	PUTATIVE	None	11183	1032	343	34927355	34939773	1	C21orf50	DBP-5, NREBP, KIAA1019, BASS1, FLJ21099, FLJ33914
21	SON	ENSG00000159140	ENST00000429093	nonsense_mediated_decay	KNOWN	None	11183	279	92	34939466	34942504	1	C21orf50	DBP-5, NREBP, KIAA1019, BASS1, FLJ21099, FLJ33914
21	SON	ENSG00000159140	ENST00000474355	retained_intron	KNOWN	None	11183	None	None	34939485	34941589	1	C21orf50	DBP-5, NREBP, KIAA1019, BASS1, FLJ21099, FLJ33914
21	SON	ENSG00000159140	ENST00000457208	nonsense_mediated_decay	KNOWN	None	11183	293	96	34939491	34948819	1	C21orf50	DBP-5, NREBP, KIAA1019, BASS1, FLJ21099, FLJ33914
21	SON	ENSG00000159140	ENST00000467616	processed_transcript	KNOWN	None	11183	None	None	34942082	34948790	1	C21orf50	DBP-5, NREBP, KIAA1019, BASS1, FLJ21099, FLJ33914
21	SON	ENSG00000159140	ENST00000484294	processed_transcript	PUTATIVE	None	11183	None	None	34944041	34948753	1	C21orf50	DBP-5, NREBP, KIAA1019, BASS1, FLJ21099, FLJ33914
21	SON	ENSG00000159140	ENST00000473102	processed_transcript	PUTATIVE	None	11183	None	None	34944041	34948775	1	C21orf50	DBP-5, NREBP, KIAA1019, BASS1, FLJ21099, FLJ33914
21	SON	ENSG00000159140	ENST00000470533	processed_transcript	KNOWN	None	11183	None	None	34944175	34949070	1	C21orf50	DBP-5, NREBP, KIAA1019, BASS1, FLJ21099, FLJ33914
21	SON	ENSG00000159140	ENST00000478183	retained_intron	KNOWN	None	11183	None	None	34944519	34949787	1	C21orf50	DBP-5, NREBP, KIAA1019, BASS1, FLJ21099, FLJ33914
21	SON	ENSG00000159140	ENST00000465834	retained_intron	KNOWN	None	11183	None	None	34944833	34949187	1	C21orf50	DBP-5, NREBP, KIAA1019, BASS1, FLJ21099, FLJ33914
21	SON	ENSG00000159140	ENST00000477419	retained_intron	KNOWN	None	11183	None	None	34945331	34948822	1	C21orf50	DBP-5, NREBP, KIAA1019, BASS1, FLJ21099, FLJ33914
21	SON	ENSG00000159140	ENST00000491794	retained_intron	KNOWN	None	11183	None	None	34945520	34949288	1	C21orf50	DBP-5, NREBP, KIAA1019, BASS1, FLJ21099, FLJ33914
21	SON	ENSG00000159140	ENST00000290239	protein_coding	KNOWN	None	11183	6978	2325	34915350	34949812	1	C21orf50	DBP-5, NREBP, KIAA1019, BASS1, FLJ21099, FLJ33914
4	RNU6-128P	ENSG00000206703	ENST00000383976	snRNA	KNOWN	None	47091	None	None	159715742	159715848	-1	None	None
3	BOC	ENSG00000144857	ENST00000464546	protein_coding	KNOWN	None	17173	254	83	112929850	112969558	1	None	CDON2
3	BOC	ENSG00000144857	ENST00000495514	protein_coding	KNOWN	CCDS2971	17173	3345	1114	112930329	113006298	1	None	CDON2
3	BOC	ENSG00000144857	ENST00000498710	protein_coding	PUTATIVE	None	17173	195	64	112930381	112987273	1	None	CDON2
3	BOC	ENSG00000144857	ENST00000485230	protein_coding	PUTATIVE	None	17173	474	157	112930412	112970852	1	None	CDON2
3	BOC	ENSG00000144857	ENST00000462425	protein_coding	KNOWN	None	17173	65	20	112931042	112968714	1	None	CDON2
3	BOC	ENSG00000144857	ENST00000273395	protein_coding	KNOWN	None	17173	3348	1115	112931375	113006298	1	None	CDON2
3	BOC	ENSG00000144857	ENST00000494687	protein_coding	KNOWN	None	17173	97	31	112931409	112968746	1	None	CDON2
3	BOC	ENSG00000144857	ENST00000471963	retained_intron	KNOWN	None	17173	None	None	112931426	112990452	1	None	CDON2
3	BOC	ENSG00000144857	ENST00000484034	protein_coding	PUTATIVE	None	17173	474	157	112935198	112970439	1	None	CDON2
3	BOC	ENSG00000144857	ENST00000477178	processed_transcript	KNOWN	None	17173	None	None	112980545	112989791	1	None	CDON2
3	BOC	ENSG00000144857	ENST00000466059	retained_intron	KNOWN	None	17173	None	None	112988229	113005753	1	None	CDON2
3	BOC	ENSG00000144857	ENST00000479182	retained_intron	KNOWN	None	17173	None	None	112989859	113006298	1	None	CDON2
3	BOC	ENSG00000144857	ENST00000497495	processed_transcript	KNOWN	None	17173	None	None	112993317	112998185	1	None	CDON2
3	BOC	ENSG00000144857	ENST00000463971	retained_intron	KNOWN	None	17173	None	None	112998413	112999904	1	None	CDON2
3	BOC	ENSG00000144857	ENST00000488486	nonsense_mediated_decay	KNOWN	None	17173	253	83	113003309	113005775	1	None	CDON2
3	BOC	ENSG00000144857	ENST00000473008	protein_coding	PUTATIVE	None	17173	119	38	113003407	113005753	1	None	CDON2
3	BOC	ENSG00000144857	ENST00000355385	protein_coding	KNOWN	CCDS2971	17173	3345	1114	112931375	113006303	1	None	CDON2
4	None	ENSG00000221314	ENST00000408387	miRNA	NOVEL	None	None	None	None	159921298	159921442	-1	None	None
6	RN7SKP56	ENSG00000222445	ENST00000410513	misc_RNA	KNOWN	None	45780	None	None	126196314	126196644	1	None	None
6	RNA5SP216	ENSG00000251920	ENST00000516111	rRNA	KNOWN	None	43116	None	None	126300958	126301080	-1	RN5S216	None
4	None	ENSG00000248988	ENST00000503348	processed_pseudogene	KNOWN	None	None	None	None	159928271	159928987	1	None	None
6	None	ENSG00000231842	ENST00000444229	lincRNA	KNOWN	None	None	None	None	126498339	126523385	1	None	None
4	FABP5P12	ENSG00000249367	ENST00000515543	processed_pseudogene	KNOWN	None	31067	None	None	159947291	159947679	1	FABP5L12	None
9	AUH	ENSG00000148090	ENST00000375731	protein_coding	KNOWN	CCDS6689	890	1020	339	93976097	94124195	-1	None	None
9	AUH	ENSG00000148090	ENST00000303617	protein_coding	KNOWN	None	890	933	310	93976097	94124195	-1	None	None
9	AUH	ENSG00000148090	ENST00000473695	processed_transcript	KNOWN	None	890	None	None	93976242	93983201	-1	None	None
9	AUH	ENSG00000148090	ENST00000478465	processed_transcript	KNOWN	None	890	None	None	94060273	94124169	-1	None	None
9	AUH	ENSG00000148090	ENST00000475023	processed_transcript	KNOWN	None	890	None	None	94104997	94118403	-1	None	None
9	AUH	ENSG00000148090	ENST00000422391	protein_coding	KNOWN	None	890	768	255	94056665	94124177	-1	None	None
HSCHR6_MHC_COX	PSMB9	ENSG00000243067	ENST00000451862	protein_coding	KNOWN	None	9546	591	196	32734237	32749686	1	LMP2	RING12, beta1i, PSMB6i
HSCHR6_MHC_COX	PSMB9	ENSG00000243067	ENST00000417566	protein_coding	KNOWN	None	9546	395	130	32734937	32748538	1	LMP2	RING12, beta1i, PSMB6i
HSCHR6_MHC_COX	PSMB9	ENSG00000243067	ENST00000493704	retained_intron	KNOWN	None	9546	None	None	32744249	32749001	1	LMP2	RING12, beta1i, PSMB6i
HSCHR6_MHC_COX	PSMB9	ENSG00000243067	ENST00000422729	protein_coding	KNOWN	None	9546	660	219	32744262	32749686	1	LMP2	RING12, beta1i, PSMB6i
HSCHR6_MHC_COX	PSMB9	ENSG00000243067	ENST00000445315	protein_coding	KNOWN	None	9546	537	178	32744329	32769688	1	LMP2	RING12, beta1i, PSMB6i
HSCHR6_MHC_COX	PSMB9	ENSG00000243067	ENST00000487731	retained_intron	KNOWN	None	9546	None	None	32746198	32748823	1	LMP2	RING12, beta1i, PSMB6i
HSCHR6_MHC_COX	PSMB9	ENSG00000243067	ENST00000548085	protein_coding	KNOWN	None	9546	465	154	32744262	32748671	1	LMP2	RING12, beta1i, PSMB6i
16	None	ENSG00000260847	ENST00000563407	lincRNA	KNOWN	None	None	None	None	32199654	32204851	1	None	None
10	VAX1	ENSG00000148704	ENST00000277905	protein_coding	KNOWN	CCDS7597	12660	561	186	118888032	118897812	-1	None	None
10	VAX1	ENSG00000148704	ENST00000369206	protein_coding	KNOWN	CCDS44483	12660	1005	334	118892801	118897567	-1	None	None
4	None	ENSG00000206978	ENST00000384251	misc_RNA	NOVEL	None	None	None	None	159985449	159985550	-1	None	None
4	None	ENSG00000248639	ENST00000504752	processed_pseudogene	KNOWN	None	None	None	None	69158845	69160082	1	None	None
4	None	ENSG00000266377	ENST00000577188	miRNA	NOVEL	None	None	None	None	160044785	160044836	-1	None	None
5	None	ENSG00000253520	ENST00000521868	processed_pseudogene	KNOWN	None	None	None	None	178954225	178954514	-1	None	None
4	MIR3688-1	ENSG00000264105	ENST00000583455	miRNA	KNOWN	None	38986	None	None	160049954	160050046	-1	MIR3688	hsa-mir-3688, hsa-mir-3688-1
4	MIR3688-2	ENSG00000264105	ENST00000583455	miRNA	KNOWN	None	41735	None	None	160049954	160050046	-1	None	hsa-mir-3688-2
4	None	ENSG00000216089	ENST00000401270	miRNA	NOVEL	None	None	None	None	160216866	160216935	1	None	None
8	MIR1205	ENSG00000221771	ENST00000408844	miRNA	KNOWN	None	35271	None	None	128972879	128972941	1	MIRN1205	hsa-mir-1205
16	None	ENSG00000260649	ENST00000561835	transcribed_processed_pseudogene	KNOWN	None	None	None	None	32200583	32200802	1	None	None
HSCHR6_MHC_QBL	LY6G6C	ENSG00000206398	ENST00000470946	processed_transcript	KNOWN	None	13936	None	None	31676661	31679719	-1	C6orf24	G6c, NG24
HSCHR6_MHC_QBL	LY6G6C	ENSG00000206398	ENST00000383413	protein_coding	KNOWN	None	13936	378	125	31676661	31679858	-1	C6orf24	G6c, NG24
4	None	ENSG00000248552	ENST00000512823	processed_pseudogene	KNOWN	None	None	None	None	160296251	160296474	-1	None	None
13	TRPC4	ENSG00000133107	ENST00000379705	protein_coding	KNOWN	CCDS9365	12336	2934	977	38210773	38444562	-1	None	HTRP4, TRP4
13	TRPC4	ENSG00000133107	ENST00000379679	protein_coding	KNOWN	CCDS45035	12336	2415	804	38210980	38357470	-1	None	HTRP4, TRP4
13	TRPC4	ENSG00000133107	ENST00000488717	nonsense_mediated_decay	KNOWN	None	12336	972	323	38210980	38357470	-1	None	HTRP4, TRP4
13	TRPC4	ENSG00000133107	ENST00000355779	protein_coding	KNOWN	CCDS45039	12336	2511	836	38211002	38443939	-1	None	HTRP4, TRP4
13	TRPC4	ENSG00000133107	ENST00000358477	protein_coding	KNOWN	CCDS45038	12336	2682	893	38211002	38443939	-1	None	HTRP4, TRP4
13	TRPC4	ENSG00000133107	ENST00000379673	protein_coding	KNOWN	CCDS45036	12336	2487	828	38211002	38443939	-1	None	HTRP4, TRP4
13	TRPC4	ENSG00000133107	ENST00000494529	processed_transcript	KNOWN	None	12336	None	None	38237565	38248507	-1	None	HTRP4, TRP4
13	TRPC4	ENSG00000133107	ENST00000379681	protein_coding	KNOWN	CCDS45037	12336	2949	982	38210778	38443939	-1	None	HTRP4, TRP4
13	TRPC4	ENSG00000133107	ENST00000338947	protein_coding	KNOWN	CCDS45035	12336	2415	804	38210778	38443939	-1	None	HTRP4, TRP4
13	TRPC4	ENSG00000133107	ENST00000447043	protein_coding	KNOWN	None	12336	2511	836	38211040	38444562	-1	None	HTRP4, TRP4
13	TRPC4	ENSG00000133107	ENST00000426868	protein_coding	KNOWN	None	12336	1383	460	38210980	38443860	-1	None	HTRP4, TRP4
4	None	ENSG00000250180	ENST00000502846	lincRNA	KNOWN	None	None	None	None	160319685	160322398	1	None	None
2	SDC1	ENSG00000115884	ENST00000254351	protein_coding	KNOWN	CCDS1697	10658	933	310	20400558	20424873	-1	SDC	CD138, syndecan, SYND1
2	SDC1	ENSG00000115884	ENST00000403076	protein_coding	PUTATIVE	None	10658	510	169	20401247	20424857	-1	SDC	CD138, syndecan, SYND1
2	SDC1	ENSG00000115884	ENST00000482879	processed_transcript	KNOWN	None	10658	None	None	20402018	20423149	-1	SDC	CD138, syndecan, SYND1
2	SDC1	ENSG00000115884	ENST00000429035	protein_coding	PUTATIVE	None	10658	646	214	20403579	20424041	-1	SDC	CD138, syndecan, SYND1
2	SDC1	ENSG00000115884	ENST00000447124	nonsense_mediated_decay	KNOWN	None	10658	87	28	20403913	20424855	-1	SDC	CD138, syndecan, SYND1
2	SDC1	ENSG00000115884	ENST00000381150	protein_coding	KNOWN	CCDS1697	10658	933	310	20400560	20425194	-1	SDC	CD138, syndecan, SYND1
4	None	ENSG00000251979	ENST00000516170	snoRNA	NOVEL	None	None	None	None	160428047	160428180	-1	None	None
4	None	ENSG00000250488	ENST00000513718	lincRNA	KNOWN	None	None	None	None	160587655	160698936	-1	None	None
1	KIFAP3	ENSG00000075945	ENST00000361580	protein_coding	KNOWN	CCDS1288	17060	2379	792	169890467	170043836	-1	None	SMAP, KAP3, FLA3, KAP-1
1	KIFAP3	ENSG00000075945	ENST00000367765	protein_coding	KNOWN	CCDS55660	17060	2259	752	169890467	170038058	-1	None	SMAP, KAP3, FLA3, KAP-1
1	KIFAP3	ENSG00000075945	ENST00000367767	protein_coding	KNOWN	CCDS55661	17060	2247	748	169890467	170043729	-1	None	SMAP, KAP3, FLA3, KAP-1
1	KIFAP3	ENSG00000075945	ENST00000474292	processed_transcript	PUTATIVE	None	17060	None	None	169993609	170001351	-1	None	SMAP, KAP3, FLA3, KAP-1
1	KIFAP3	ENSG00000075945	ENST00000490550	processed_transcript	KNOWN	None	17060	None	None	170004650	170054349	-1	None	SMAP, KAP3, FLA3, KAP-1
1	KIFAP3	ENSG00000075945	ENST00000538366	protein_coding	KNOWN	CCDS55659	17060	2145	714	169890573	170043836	-1	None	SMAP, KAP3, FLA3, KAP-1
1	KIFAP3	ENSG00000075945	ENST00000540905	protein_coding	KNOWN	None	17060	1485	494	169890478	169995042	-1	None	SMAP, KAP3, FLA3, KAP-1
4	None	ENSG00000250997	ENST00000515689	processed_pseudogene	KNOWN	None	None	None	None	161442981	161443463	-1	None	None
4	None	ENSG00000249425	ENST00000512652	lincRNA	KNOWN	None	None	None	None	161460406	161507969	1	None	None
X	EIF1AX	ENSG00000173674	ENST00000379607	protein_coding	KNOWN	CCDS14196	3250	435	144	20142636	20159962	-1	EIF4C, EIF1A	eIF-1A, eIF-4C
X	EIF1AX	ENSG00000173674	ENST00000379593	protein_coding	KNOWN	None	3250	351	116	20146196	20159944	-1	EIF4C, EIF1A	eIF-1A, eIF-4C
3	MRAS	ENSG00000158186	ENST00000289104	protein_coding	KNOWN	CCDS3100	7227	627	208	138066539	138124375	1	None	M-RAs, R-RAS3, RRAS3
3	MRAS	ENSG00000158186	ENST00000423968	protein_coding	KNOWN	CCDS3100	7227	627	208	138067314	138121973	1	None	M-RAs, R-RAS3, RRAS3
3	MRAS	ENSG00000158186	ENST00000494949	protein_coding	PUTATIVE	None	7227	322	106	138067536	138121034	1	None	M-RAs, R-RAS3, RRAS3
3	MRAS	ENSG00000158186	ENST00000475711	protein_coding	KNOWN	None	7227	70	22	138067692	138091795	1	None	M-RAs, R-RAS3, RRAS3
3	MRAS	ENSG00000158186	ENST00000464896	protein_coding	PUTATIVE	CCDS58855	7227	399	132	138067692	138122028	1	None	M-RAs, R-RAS3, RRAS3
3	MRAS	ENSG00000158186	ENST00000477784	processed_transcript	PUTATIVE	None	7227	None	None	138067749	138068793	1	None	M-RAs, R-RAS3, RRAS3
3	MRAS	ENSG00000158186	ENST00000461114	processed_transcript	PUTATIVE	None	7227	None	None	138067988	138069264	1	None	M-RAs, R-RAS3, RRAS3
3	MRAS	ENSG00000158186	ENST00000474559	protein_coding	KNOWN	CCDS3100	7227	627	208	138068104	138121204	1	None	M-RAs, R-RAS3, RRAS3
3	MRAS	ENSG00000158186	ENST00000478647	retained_intron	KNOWN	None	7227	None	None	138119051	138121035	1	None	M-RAs, R-RAS3, RRAS3
19	RPS4XP21	ENSG00000186008	ENST00000603814	processed_pseudogene	KNOWN	None	36228	None	None	34583466	34584215	-1	RPS4P21	None
19	RPS4XP21	ENSG00000186008	ENST00000469064	processed_pseudogene	KNOWN	None	36228	None	None	34583445	34584215	-1	RPS4P21	None
9	TXNDC8	ENSG00000204193	ENST00000374510	protein_coding	KNOWN	CCDS35104	31454	348	115	113065869	113100088	-1	None	bA427L11.2, TRX6, SPTRX-3
9	TXNDC8	ENSG00000204193	ENST00000423740	protein_coding	NOVEL	None	31454	288	95	113065906	113100088	-1	None	bA427L11.2, TRX6, SPTRX-3
9	TXNDC8	ENSG00000204193	ENST00000374507	protein_coding	PUTATIVE	None	31454	327	108	113084741	113100127	-1	None	bA427L11.2, TRX6, SPTRX-3
9	TXNDC8	ENSG00000204193	ENST00000374511	protein_coding	KNOWN	None	31454	384	127	113065801	113100125	-1	None	bA427L11.2, TRX6, SPTRX-3
4	RPS14P7	ENSG00000242635	ENST00000473701	processed_pseudogene	KNOWN	None	36961	None	None	161739574	161740021	1	None	None
4	None	ENSG00000221362	ENST00000408435	miRNA	NOVEL	None	None	None	None	161925029	161925110	-1	None	None
10	None	ENSG00000251909	ENST00000516100	snoRNA	NOVEL	None	None	None	None	5237847	5237936	-1	None	None
11	CTSW	ENSG00000172543	ENST00000307886	protein_coding	KNOWN	CCDS8117	2546	1131	376	65647280	65651212	1	None	None
11	CTSW	ENSG00000172543	ENST00000524681	retained_intron	KNOWN	None	2546	None	None	65647313	65648093	1	None	None
11	CTSW	ENSG00000172543	ENST00000528419	protein_coding	PUTATIVE	None	2546	1095	364	65647322	65651212	1	None	None
11	CTSW	ENSG00000172543	ENST00000526034	protein_coding	NOVEL	None	2546	634	210	65647329	65650348	1	None	None
1	SYF2	ENSG00000117614	ENST00000236273	protein_coding	KNOWN	CCDS259	19824	732	243	25549170	25558984	-1	CBPIN	p29, DKFZp564O2082, NTC31, fSAP29
1	SYF2	ENSG00000117614	ENST00000354361	protein_coding	KNOWN	CCDS258	19824	606	201	25549456	25558977	-1	CBPIN	p29, DKFZp564O2082, NTC31, fSAP29
1	SYF2	ENSG00000117614	ENST00000474160	processed_transcript	KNOWN	None	19824	None	None	25555506	25558923	-1	CBPIN	p29, DKFZp564O2082, NTC31, fSAP29
1	SYF2	ENSG00000117614	ENST00000476231	processed_transcript	KNOWN	None	19824	None	None	25556800	25558993	-1	CBPIN	p29, DKFZp564O2082, NTC31, fSAP29
19	SSC5D	ENSG00000179954	ENST00000594321	protein_coding	KNOWN	None	26641	271	89	55999771	56000939	1	None	FLJ35258
19	SSC5D	ENSG00000179954	ENST00000588254	retained_intron	KNOWN	None	26641	None	None	55999864	56004223	1	None	FLJ35258
19	SSC5D	ENSG00000179954	ENST00000587166	protein_coding	KNOWN	CCDS59424	26641	2856	951	55999934	56015691	1	None	FLJ35258
19	SSC5D	ENSG00000179954	ENST00000389623	protein_coding	KNOWN	CCDS46196	26641	4722	1573	55999934	56030465	1	None	FLJ35258
19	SSC5D	ENSG00000179954	ENST00000589020	protein_coding	PUTATIVE	None	26641	354	117	56005258	56011340	1	None	FLJ35258
4	None	ENSG00000249568	ENST00000508189	antisense	KNOWN	None	None	None	None	162300105	162309569	1	None	None
10	None	ENSG00000228291	ENST00000441452	processed_pseudogene	KNOWN	None	None	None	None	5249132	5249705	1	None	None
6	COX6A1P2	ENSG00000226976	ENST00000423336	protein_coding	KNOWN	None	35239	330	109	37012607	37013177	1	None	None
5	MCCC2	ENSG00000131844	ENST00000512218	nonsense_mediated_decay	KNOWN	None	6937	990	329	70883115	70953042	1	None	MCCB
5	MCCC2	ENSG00000131844	ENST00000340941	protein_coding	KNOWN	CCDS34184	6937	1692	563	70883124	70954531	1	None	MCCB
5	MCCC2	ENSG00000131844	ENST00000509358	protein_coding	NOVEL	None	6937	1092	363	70883157	70936948	1	None	MCCB
5	MCCC2	ENSG00000131844	ENST00000507169	processed_transcript	KNOWN	None	6937	None	None	70888698	70898892	1	None	MCCB
5	MCCC2	ENSG00000131844	ENST00000505787	processed_transcript	KNOWN	None	6937	None	None	70892097	70930926	1	None	MCCB
5	MCCC2	ENSG00000131844	ENST00000510895	processed_transcript	KNOWN	None	6937	None	None	70898336	70932538	1	None	MCCB
5	MCCC2	ENSG00000131844	ENST00000505435	processed_transcript	KNOWN	None	6937	None	None	70900207	70937195	1	None	MCCB
5	MCCC2	ENSG00000131844	ENST00000509539	protein_coding	PUTATIVE	None	6937	858	285	70922481	70948549	1	None	MCCB
5	MCCC2	ENSG00000131844	ENST00000323375	protein_coding	KNOWN	None	6937	1578	525	70883195	70953039	1	None	MCCB
10	None	ENSG00000231039	ENST00000428920	lincRNA	KNOWN	None	None	None	None	5276321	5305371	1	None	None
4	None	ENSG00000249419	ENST00000513093	antisense	KNOWN	None	None	None	None	162943885	162968719	1	None	None
17	None	ENSG00000197665	ENST00000399087	protein_coding	NOVEL	None	None	342	113	19059040	19062187	-1	None	None
17	None	ENSG00000197665	ENST00000399083	protein_coding	NOVEL	None	None	453	150	19061094	19062424	-1	None	None
17	None	ENSG00000197665	ENST00000436381	protein_coding	KNOWN	None	None	390	129	19059041	19062206	-1	None	None
2	None	ENSG00000268485	ENST00000601871	protein_coding	NOVEL	None	None	231	76	242167319	242168850	1	None	None
HSCHR6_MHC_SSTO	BAG6	ENSG00000233348	ENST00000490233	processed_transcript	PUTATIVE	None	13919	None	None	31596744	31597509	-1	BAT3	G3, D6S52E
HSCHR6_MHC_SSTO	BAG6	ENSG00000233348	ENST00000497467	processed_transcript	PUTATIVE	None	13919	None	None	31596744	31598260	-1	BAT3	G3, D6S52E
HSCHR6_MHC_SSTO	BAG6	ENSG00000233348	ENST00000443182	protein_coding	KNOWN	None	13919	3381	1126	31596744	31610111	-1	BAT3	G3, D6S52E
HSCHR6_MHC_SSTO	BAG6	ENSG00000233348	ENST00000451932	protein_coding	KNOWN	None	13919	3399	1132	31596744	31610353	-1	BAT3	G3, D6S52E
HSCHR6_MHC_SSTO	BAG6	ENSG00000233348	ENST00000419847	protein_coding	KNOWN	None	13919	3381	1126	31596744	31610423	-1	BAT3	G3, D6S52E
HSCHR6_MHC_SSTO	BAG6	ENSG00000233348	ENST00000415721	protein_coding	KNOWN	None	13919	410	135	31596851	31598658	-1	BAT3	G3, D6S52E
HSCHR6_MHC_SSTO	BAG6	ENSG00000233348	ENST00000419496	protein_coding	KNOWN	None	13919	680	225	31596851	31598949	-1	BAT3	G3, D6S52E
HSCHR6_MHC_SSTO	BAG6	ENSG00000233348	ENST00000468634	retained_intron	KNOWN	None	13919	None	None	31598546	31599866	-1	BAT3	G3, D6S52E
HSCHR6_MHC_SSTO	BAG6	ENSG00000233348	ENST00000460429	processed_transcript	PUTATIVE	None	13919	None	None	31599569	31602040	-1	BAT3	G3, D6S52E
HSCHR6_MHC_SSTO	BAG6	ENSG00000233348	ENST00000436569	protein_coding	KNOWN	None	13919	2228	741	31599940	31610396	-1	BAT3	G3, D6S52E
HSCHR6_MHC_SSTO	BAG6	ENSG00000233348	ENST00000496240	processed_transcript	PUTATIVE	None	13919	None	None	31600405	31601924	-1	BAT3	G3, D6S52E
HSCHR6_MHC_SSTO	BAG6	ENSG00000233348	ENST00000429830	protein_coding	KNOWN	None	13919	714	237	31600553	31602793	-1	BAT3	G3, D6S52E
HSCHR6_MHC_SSTO	BAG6	ENSG00000233348	ENST00000411914	protein_coding	KNOWN	None	13919	736	244	31600591	31603214	-1	BAT3	G3, D6S52E
HSCHR6_MHC_SSTO	BAG6	ENSG00000233348	ENST00000485152	processed_transcript	KNOWN	None	13919	None	None	31600680	31603285	-1	BAT3	G3, D6S52E
HSCHR6_MHC_SSTO	BAG6	ENSG00000233348	ENST00000423612	protein_coding	KNOWN	None	13919	554	183	31600834	31603227	-1	BAT3	G3, D6S52E
HSCHR6_MHC_SSTO	BAG6	ENSG00000233348	ENST00000428037	protein_coding	KNOWN	None	13919	1545	514	31602041	31610104	-1	BAT3	G3, D6S52E
HSCHR6_MHC_SSTO	BAG6	ENSG00000233348	ENST00000469288	processed_transcript	KNOWN	None	13919	None	None	31602218	31602909	-1	BAT3	G3, D6S52E
HSCHR6_MHC_SSTO	BAG6	ENSG00000233348	ENST00000442427	protein_coding	KNOWN	None	13919	734	243	31605314	31609634	-1	BAT3	G3, D6S52E
HSCHR6_MHC_SSTO	BAG6	ENSG00000233348	ENST00000439612	protein_coding	KNOWN	None	13919	788	261	31605314	31609872	-1	BAT3	G3, D6S52E
HSCHR6_MHC_SSTO	BAG6	ENSG00000233348	ENST00000417824	protein_coding	KNOWN	None	13919	734	243	31605314	31610072	-1	BAT3	G3, D6S52E
HSCHR6_MHC_SSTO	BAG6	ENSG00000233348	ENST00000436497	protein_coding	KNOWN	None	13919	786	261	31605316	31609867	-1	BAT3	G3, D6S52E
HSCHR6_MHC_SSTO	BAG6	ENSG00000233348	ENST00000449173	protein_coding	KNOWN	None	13919	731	242	31605317	31610366	-1	BAT3	G3, D6S52E
HSCHR6_MHC_SSTO	BAG6	ENSG00000233348	ENST00000437054	protein_coding	KNOWN	None	13919	779	258	31605323	31609689	-1	BAT3	G3, D6S52E
HSCHR6_MHC_SSTO	BAG6	ENSG00000233348	ENST00000458287	protein_coding	KNOWN	None	13919	775	257	31605327	31610385	-1	BAT3	G3, D6S52E
HSCHR6_MHC_SSTO	BAG6	ENSG00000233348	ENST00000434880	protein_coding	KNOWN	None	13919	645	214	31605403	31610037	-1	BAT3	G3, D6S52E
HSCHR6_MHC_SSTO	BAG6	ENSG00000233348	ENST00000433726	protein_coding	KNOWN	None	13919	698	231	31605422	31610363	-1	BAT3	G3, D6S52E
HSCHR6_MHC_SSTO	BAG6	ENSG00000233348	ENST00000437735	protein_coding	KNOWN	None	13919	619	205	31605429	31610163	-1	BAT3	G3, D6S52E
HSCHR6_MHC_SSTO	BAG6	ENSG00000233348	ENST00000426331	protein_coding	KNOWN	None	13919	591	196	31605511	31609693	-1	BAT3	G3, D6S52E
HSCHR6_MHC_SSTO	BAG6	ENSG00000233348	ENST00000462709	processed_transcript	PUTATIVE	None	13919	None	None	31606452	31610036	-1	BAT3	G3, D6S52E
HSCHR6_MHC_SSTO	BAG6	ENSG00000233348	ENST00000437731	protein_coding	KNOWN	None	13919	476	157	31606636	31609829	-1	BAT3	G3, D6S52E
HSCHR6_MHC_SSTO	BAG6	ENSG00000233348	ENST00000471124	processed_transcript	PUTATIVE	None	13919	None	None	31606954	31610356	-1	BAT3	G3, D6S52E
HSCHR6_MHC_SSTO	BAG6	ENSG00000233348	ENST00000552116	protein_coding	KNOWN	None	13919	3489	1162	31596745	31610418	-1	BAT3	G3, D6S52E
6	LRP11	ENSG00000120256	ENST00000239367	protein_coding	KNOWN	CCDS5220	16936	1503	500	150139934	150185162	-1	None	bA350J20.3, MANSC3
6	LRP11	ENSG00000120256	ENST00000463728	processed_transcript	KNOWN	None	16936	None	None	150147247	150157335	-1	None	bA350J20.3, MANSC3
6	LRP11	ENSG00000120256	ENST00000367368	protein_coding	KNOWN	None	16936	978	325	150163690	150185162	-1	None	bA350J20.3, MANSC3
6	LRP11	ENSG00000120256	ENST00000472053	processed_transcript	KNOWN	None	16936	None	None	150173598	150174328	-1	None	bA350J20.3, MANSC3
6	LRP11	ENSG00000120256	ENST00000546019	protein_coding	KNOWN	None	16936	738	245	150141076	150186199	-1	None	bA350J20.3, MANSC3
10	None	ENSG00000224034	ENST00000449457	lincRNA	KNOWN	None	None	None	None	5307996	5313199	-1	None	None
19	CHCHD2P3	ENSG00000270849	ENST00000603038	processed_pseudogene	KNOWN	None	39587	None	None	34617878	34618328	1	None	None
20	None	ENSG00000269605	ENST00000597250	protein_coding	NOVEL	None	None	72	23	43234346	43248126	-1	None	None
19	VSIG10L	ENSG00000186806	ENST00000600663	nonsense_mediated_decay	KNOWN	None	27111	591	196	51834790	51843009	-1	None	None
19	VSIG10L	ENSG00000186806	ENST00000335624	protein_coding	NOVEL	CCDS54300	27111	2604	867	51835072	51845378	-1	None	None
19	RPL29P33	ENSG00000257074	ENST00000587474	processed_pseudogene	KNOWN	None	36923	None	None	34787182	34787497	-1	None	None
19	RPL29P33	ENSG00000257074	ENST00000431093	processed_pseudogene	KNOWN	None	36923	None	None	34787181	34787645	-1	None	None
3	ACVR2B	ENSG00000114739	ENST00000352511	protein_coding	KNOWN	CCDS2679	174	1539	512	38495342	38524948	1	None	ActR-IIB
3	ACVR2B	ENSG00000114739	ENST00000465020	retained_intron	KNOWN	None	174	None	None	38495810	38524864	1	None	ActR-IIB
3	ACVR2B	ENSG00000114739	ENST00000461232	retained_intron	KNOWN	None	174	None	None	38514937	38524865	1	None	ActR-IIB
15	SNRPN	ENSG00000128739	ENST00000400100	protein_coding	KNOWN	CCDS10017	11164	723	240	25068794	25223729	1	PWCR	SMN, SM-D, HCERN3, SNRNP-N, SNURF-SNRPN, RT-LI
15	SNRPN	ENSG00000128739	ENST00000400097	protein_coding	KNOWN	CCDS10017	11164	723	240	25101698	25223729	1	PWCR	SMN, SM-D, HCERN3, SNRNP-N, SNURF-SNRPN, RT-LI
15	SNRPN	ENSG00000128739	ENST00000553597	processed_transcript	KNOWN	None	11164	None	None	25101748	25219581	1	PWCR	SMN, SM-D, HCERN3, SNRNP-N, SNURF-SNRPN, RT-LI
15	SNRPN	ENSG00000128739	ENST00000390687	protein_coding	KNOWN	CCDS10017	11164	723	240	25200074	25223870	1	PWCR	SMN, SM-D, HCERN3, SNRNP-N, SNURF-SNRPN, RT-LI
15	SNRPN	ENSG00000128739	ENST00000584968	protein_coding	KNOWN	None	11164	178	58	25200082	25221474	1	PWCR	SMN, SM-D, HCERN3, SNRNP-N, SNURF-SNRPN, RT-LI
15	SNRPN	ENSG00000128739	ENST00000346403	protein_coding	KNOWN	CCDS10017	11164	723	240	25200082	25223730	1	PWCR	SMN, SM-D, HCERN3, SNRNP-N, SNURF-SNRPN, RT-LI
15	SNRPN	ENSG00000128739	ENST00000554227	protein_coding	PUTATIVE	None	11164	735	244	25200095	25223686	1	PWCR	SMN, SM-D, HCERN3, SNRNP-N, SNURF-SNRPN, RT-LI
15	SNRPN	ENSG00000128739	ENST00000579070	protein_coding	KNOWN	None	11164	508	168	25200150	25223012	1	PWCR	SMN, SM-D, HCERN3, SNRNP-N, SNURF-SNRPN, RT-LI
15	SNRPN	ENSG00000128739	ENST00000577565	protein_coding	KNOWN	CCDS10017	11164	723	240	25200152	25223695	1	PWCR	SMN, SM-D, HCERN3, SNRNP-N, SNURF-SNRPN, RT-LI
15	SNRPN	ENSG00000128739	ENST00000400098	protein_coding	KNOWN	CCDS10017	11164	723	240	25068794	25223729	1	PWCR	SMN, SM-D, HCERN3, SNRNP-N, SNURF-SNRPN, RT-LI
15	SNRPN	ENSG00000128739	ENST00000444203	protein_coding	KNOWN	None	11164	735	244	25218866	25223721	1	PWCR	SMN, SM-D, HCERN3, SNRNP-N, SNURF-SNRPN, RT-LI
19	None	ENSG00000267219	ENST00000591311	antisense	KNOWN	None	None	None	None	34839261	34850317	-1	None	None
1	PEX14	ENSG00000142655	ENST00000472851	retained_intron	KNOWN	None	8856	None	None	10532345	10596629	1	None	None
1	PEX14	ENSG00000142655	ENST00000356607	protein_coding	KNOWN	CCDS30582	8856	1134	377	10534944	10690815	1	None	None
1	PEX14	ENSG00000142655	ENST00000491661	protein_coding	PUTATIVE	None	8856	483	160	10535039	10683343	1	None	None
1	PEX14	ENSG00000142655	ENST00000492696	processed_transcript	KNOWN	None	8856	None	None	10595945	10596346	1	None	None
1	PEX14	ENSG00000142655	ENST00000538836	protein_coding	KNOWN	None	8856	942	313	10535008	10690372	1	None	None
19	RN7SL154P	ENSG00000264317	ENST00000578043	misc_RNA	KNOWN	None	46170	None	None	34912921	34913216	-1	None	None
20	GGT7	ENSG00000131067	ENST00000336431	protein_coding	NOVEL	CCDS13242	4259	1989	662	33432523	33460663	-1	GGTL5, GGTL3	D20S101, dJ18C9.2
20	GGT7	ENSG00000131067	ENST00000469018	processed_transcript	KNOWN	None	4259	None	None	33432816	33440284	-1	GGTL5, GGTL3	D20S101, dJ18C9.2
20	GGT7	ENSG00000131067	ENST00000470952	processed_transcript	KNOWN	None	4259	None	None	33437830	33440075	-1	GGTL5, GGTL3	D20S101, dJ18C9.2
20	GGT7	ENSG00000131067	ENST00000427420	protein_coding	PUTATIVE	None	4259	608	201	33450617	33460625	-1	GGTL5, GGTL3	D20S101, dJ18C9.2
HSCHR6_MHC_SSTO	HLA-DMB	ENSG00000241296	ENST00000490338	retained_intron	KNOWN	None	4935	None	None	32992302	32994559	-1	None	D6S221E, RING7
HSCHR6_MHC_SSTO	HLA-DMB	ENSG00000241296	ENST00000488059	retained_intron	KNOWN	None	4935	None	None	32992302	32994574	-1	None	D6S221E, RING7
HSCHR6_MHC_SSTO	HLA-DMB	ENSG00000241296	ENST00000440269	protein_coding	KNOWN	None	4935	321	106	32992302	32995112	-1	None	D6S221E, RING7
HSCHR6_MHC_SSTO	HLA-DMB	ENSG00000241296	ENST00000424874	protein_coding	KNOWN	None	4935	424	140	32992302	32996361	-1	None	D6S221E, RING7
HSCHR6_MHC_SSTO	HLA-DMB	ENSG00000241296	ENST00000476119	retained_intron	KNOWN	None	4935	None	None	32992302	32998657	-1	None	D6S221E, RING7
HSCHR6_MHC_SSTO	HLA-DMB	ENSG00000241296	ENST00000439344	protein_coding	KNOWN	None	4935	774	257	32992302	32998694	-1	None	D6S221E, RING7
HSCHR6_MHC_SSTO	HLA-DMB	ENSG00000241296	ENST00000412948	protein_coding	KNOWN	None	4935	792	263	32992302	32998743	-1	None	D6S221E, RING7
HSCHR6_MHC_SSTO	HLA-DMB	ENSG00000241296	ENST00000449417	protein_coding	KNOWN	None	4935	526	174	32995037	33010800	-1	None	D6S221E, RING7
19	None	ENSG00000267024	ENST00000592220	antisense	KNOWN	None	None	None	None	34917017	34919178	-1	None	None
6	None	ENSG00000250686	ENST00000511849	3prime_overlapping_ncrna	KNOWN	None	None	None	None	62340138	62390954	-1	None	None
19	RPS26P55	ENSG00000239210	ENST00000471178	processed_pseudogene	KNOWN	None	36500	None	None	35024332	35024989	-1	None	None
6	None	ENSG00000216859	ENST00000406944	processed_pseudogene	KNOWN	None	None	None	None	63170845	63171408	-1	None	None
3	TGFBR2	ENSG00000163513	ENST00000295754	protein_coding	KNOWN	CCDS2648	11773	1704	567	30647994	30735626	1	MFS2	None
3	TGFBR2	ENSG00000163513	ENST00000359013	protein_coding	KNOWN	CCDS33727	11773	1779	592	30648093	30735634	1	MFS2	None
17	CASKIN2	ENSG00000177303	ENST00000321617	protein_coding	KNOWN	CCDS11723	18200	3609	1202	73496342	73511664	-1	None	KIAA1139, FLJ21609, ANKS5B
17	CASKIN2	ENSG00000177303	ENST00000433559	protein_coding	KNOWN	CCDS45775	18200	3363	1120	73496890	73505969	-1	None	KIAA1139, FLJ21609, ANKS5B
17	CASKIN2	ENSG00000177303	ENST00000580021	retained_intron	KNOWN	None	18200	None	None	73499171	73500021	-1	None	KIAA1139, FLJ21609, ANKS5B
17	CASKIN2	ENSG00000177303	ENST00000581870	protein_coding	PUTATIVE	None	18200	972	323	73501400	73511521	-1	None	KIAA1139, FLJ21609, ANKS5B
17	CASKIN2	ENSG00000177303	ENST00000583258	retained_intron	KNOWN	None	18200	None	None	73502748	73503932	-1	None	KIAA1139, FLJ21609, ANKS5B
17	CASKIN2	ENSG00000177303	ENST00000583246	retained_intron	KNOWN	None	18200	None	None	73502824	73503716	-1	None	KIAA1139, FLJ21609, ANKS5B
17	CASKIN2	ENSG00000177303	ENST00000580075	protein_coding	KNOWN	None	18200	77	24	73509809	73511341	-1	None	KIAA1139, FLJ21609, ANKS5B
5	WNT8A	ENSG00000061492	ENST00000506684	protein_coding	PUTATIVE	None	12788	1110	369	137419581	137426959	1	None	WNT8D
5	WNT8A	ENSG00000061492	ENST00000361560	nonsense_mediated_decay	KNOWN	None	12788	1068	355	137419679	137428054	1	None	WNT8D
5	WNT8A	ENSG00000061492	ENST00000504809	protein_coding	PUTATIVE	None	12788	1080	359	137419704	137427148	1	None	WNT8D
5	WNT8A	ENSG00000061492	ENST00000398754	protein_coding	KNOWN	CCDS43368	12788	1056	351	137419774	137427199	1	None	WNT8D
8	RNU1-106P	ENSG00000207110	ENST00000384382	snRNA	KNOWN	None	48448	None	None	129011377	129011540	1	None	None
19	ZNF807	ENSG00000248830	ENST00000328088	unprocessed_pseudogene	KNOWN	None	33229	None	None	35033367	35036300	-1	ZNF807P	ZNF181P1
9	UPF3AP3	ENSG00000234709	ENST00000420996	transcribed_processed_pseudogene	KNOWN	None	38395	None	None	102760583	102761351	-1	None	None
6	None	ENSG00000217067	ENST00000405686	unprocessed_pseudogene	KNOWN	None	None	None	None	63257332	63258177	1	None	None
16	DEF8	ENSG00000140995	ENST00000563594	protein_coding	KNOWN	CCDS58493	25969	1356	451	90014333	90034468	1	None	FLJ20186
16	DEF8	ENSG00000140995	ENST00000567999	protein_coding	KNOWN	None	25969	450	149	90015105	90025499	1	None	FLJ20186
16	DEF8	ENSG00000140995	ENST00000566079	protein_coding	NOVEL	None	25969	410	135	90015163	90025447	1	None	FLJ20186
16	DEF8	ENSG00000140995	ENST00000561784	nonsense_mediated_decay	KNOWN	None	25969	324	107	90015163	90025456	1	None	FLJ20186
16	DEF8	ENSG00000140995	ENST00000566820	protein_coding	NOVEL	None	25969	382	126	90015163	90025458	1	None	FLJ20186
16	DEF8	ENSG00000140995	ENST00000562578	protein_coding	PUTATIVE	None	25969	531	176	90015163	90027373	1	None	FLJ20186
16	DEF8	ENSG00000140995	ENST00000561741	protein_coding	PUTATIVE	None	25969	558	185	90015183	90025505	1	None	FLJ20186
16	DEF8	ENSG00000140995	ENST00000268676	protein_coding	KNOWN	CCDS10989	25969	1539	512	90015183	90034468	1	None	FLJ20186
16	DEF8	ENSG00000140995	ENST00000562986	protein_coding	KNOWN	None	25969	376	124	90015187	90027380	1	None	FLJ20186
16	DEF8	ENSG00000140995	ENST00000569453	protein_coding	KNOWN	CCDS58493	25969	1356	451	90015199	90032474	1	None	FLJ20186
16	DEF8	ENSG00000140995	ENST00000568096	processed_transcript	KNOWN	None	25969	None	None	90015203	90023295	1	None	FLJ20186
16	DEF8	ENSG00000140995	ENST00000567243	processed_transcript	KNOWN	None	25969	None	None	90015203	90024000	1	None	FLJ20186
16	DEF8	ENSG00000140995	ENST00000567884	protein_coding	KNOWN	None	25969	320	105	90015203	90024016	1	None	FLJ20186
16	DEF8	ENSG00000140995	ENST00000569803	processed_transcript	KNOWN	None	25969	None	None	90015203	90024449	1	None	FLJ20186
16	DEF8	ENSG00000140995	ENST00000569061	protein_coding	KNOWN	None	25969	403	133	90015203	90025452	1	None	FLJ20186
16	DEF8	ENSG00000140995	ENST00000418391	protein_coding	KNOWN	CCDS45555	25969	594	197	90015203	90025774	1	None	FLJ20186
16	DEF8	ENSG00000140995	ENST00000561959	protein_coding	NOVEL	None	25969	528	175	90015203	90032314	1	None	FLJ20186
16	DEF8	ENSG00000140995	ENST00000567874	protein_coding	KNOWN	CCDS58496	25969	1176	391	90015203	90032576	1	None	FLJ20186
16	DEF8	ENSG00000140995	ENST00000570182	protein_coding	KNOWN	CCDS58495	25969	1326	441	90015203	90034467	1	None	FLJ20186
16	DEF8	ENSG00000140995	ENST00000563795	protein_coding	KNOWN	CCDS58494	25969	1305	434	90015211	90032714	1	None	FLJ20186
16	DEF8	ENSG00000140995	ENST00000564836	protein_coding	KNOWN	None	25969	198	65	90020580	90021650	1	None	FLJ20186
16	DEF8	ENSG00000140995	ENST00000568760	retained_intron	KNOWN	None	25969	None	None	90023661	90027367	1	None	FLJ20186
16	DEF8	ENSG00000140995	ENST00000562044	processed_transcript	KNOWN	None	25969	None	None	90024759	90025773	1	None	FLJ20186
16	DEF8	ENSG00000140995	ENST00000563848	processed_transcript	KNOWN	None	25969	None	None	90024840	90028531	1	None	FLJ20186
16	DEF8	ENSG00000140995	ENST00000563805	retained_intron	KNOWN	None	25969	None	None	90028461	90032751	1	None	FLJ20186
16	DEF8	ENSG00000140995	ENST00000562163	processed_transcript	KNOWN	None	25969	None	None	90030206	90032452	1	None	FLJ20186
16	DEF8	ENSG00000140995	ENST00000564379	retained_intron	KNOWN	None	25969	None	None	90030248	90034041	1	None	FLJ20186
8	RNU4-25P	ENSG00000222501	ENST00000410569	snRNA	KNOWN	None	46961	None	None	129022628	129022857	-1	None	None
8	MIR1207	ENSG00000221176	ENST00000408249	miRNA	KNOWN	None	35273	None	None	129061398	129061484	1	MIRN1207	hsa-mir-1207
10	GSTO1	ENSG00000148834	ENST00000470554	processed_transcript	KNOWN	None	13312	None	None	105995114	106019556	1	None	GSTTLp28, P28
10	GSTO1	ENSG00000148834	ENST00000493946	processed_transcript	KNOWN	None	13312	None	None	106013922	106025948	1	None	GSTTLp28, P28
10	GSTO1	ENSG00000148834	ENST00000369713	protein_coding	KNOWN	CCDS7555	13312	726	241	106014493	106027215	1	None	GSTTLp28, P28
10	GSTO1	ENSG00000148834	ENST00000445155	protein_coding	KNOWN	None	13312	602	199	106014744	106027123	1	None	GSTTLp28, P28
10	GSTO1	ENSG00000148834	ENST00000432659	protein_coding	KNOWN	None	13312	542	179	106014921	106027162	1	None	GSTTLp28, P28
10	GSTO1	ENSG00000148834	ENST00000369710	protein_coding	KNOWN	CCDS53572	13312	627	208	106014468	106027217	1	None	GSTTLp28, P28
10	GSTO1	ENSG00000148834	ENST00000539281	protein_coding	KNOWN	CCDS53573	13312	642	213	106013952	106027217	1	None	GSTTLp28, P28
8	MIR1208	ENSG00000221261	ENST00000408334	miRNA	KNOWN	None	35274	None	None	129162362	129162434	1	MIRN1208	hsa-mir-1208
X	RPL19P20	ENSG00000229168	ENST00000415648	processed_pseudogene	KNOWN	None	35713	None	None	44508375	44508965	1	None	None
X	RPL19P20	ENSG00000229168	ENST00000393839	processed_pseudogene	KNOWN	None	35713	None	None	44508639	44508965	1	None	None
19	None	ENSG00000268536	ENST00000598782	lincRNA	KNOWN	None	None	None	None	4785132	4791219	-1	None	None
19	None	ENSG00000221584	ENST00000408657	miRNA	NOVEL	None	None	None	None	35051691	35051801	1	None	None
20	ADA	ENSG00000196839	ENST00000464097	processed_transcript	KNOWN	None	186	None	None	43248163	43255132	-1	None	None
20	ADA	ENSG00000196839	ENST00000372874	protein_coding	KNOWN	CCDS13335	186	1092	363	43248163	43280383	-1	None	None
20	ADA	ENSG00000196839	ENST00000536532	nonsense_mediated_decay	KNOWN	None	186	792	263	43248220	43280322	-1	None	None
20	ADA	ENSG00000196839	ENST00000492931	processed_transcript	KNOWN	None	186	None	None	43248451	43280332	-1	None	None
20	ADA	ENSG00000196839	ENST00000539235	nonsense_mediated_decay	KNOWN	None	186	228	75	43248451	43280332	-1	None	None
20	ADA	ENSG00000196839	ENST00000537820	protein_coding	NOVEL	None	186	1020	339	43248451	43280332	-1	None	None
20	ADA	ENSG00000196839	ENST00000545776	retained_intron	KNOWN	None	186	None	None	43254964	43280302	-1	None	None
20	ADA	ENSG00000196839	ENST00000536076	processed_transcript	KNOWN	None	186	None	None	43255158	43280755	-1	None	None
20	ADA	ENSG00000196839	ENST00000535573	processed_transcript	KNOWN	None	186	None	None	43264712	43280874	-1	None	None
17	BCAS3	ENSG00000141376	ENST00000588168	protein_coding	KNOWN	None	14347	406	134	58754814	58824643	1	None	FLJ20128
17	BCAS3	ENSG00000141376	ENST00000591147	nonsense_mediated_decay	KNOWN	None	14347	171	56	58755209	58824640	1	None	FLJ20128
17	BCAS3	ENSG00000141376	ENST00000589222	protein_coding	KNOWN	None	14347	2787	928	58755213	59470192	1	None	FLJ20128
17	BCAS3	ENSG00000141376	ENST00000591371	processed_transcript	KNOWN	None	14347	None	None	58755218	58824583	1	None	FLJ20128
17	BCAS3	ENSG00000141376	ENST00000593004	processed_transcript	KNOWN	None	14347	None	None	58755227	58797717	1	None	FLJ20128
17	BCAS3	ENSG00000141376	ENST00000589916	retained_intron	KNOWN	None	14347	None	None	58755229	58885455	1	None	FLJ20128
17	BCAS3	ENSG00000141376	ENST00000407086	protein_coding	KNOWN	CCDS11626	14347	2742	913	58755233	59470192	1	None	FLJ20128
17	BCAS3	ENSG00000141376	ENST00000588532	nonsense_mediated_decay	KNOWN	None	14347	162	53	58755240	58786627	1	None	FLJ20128
17	BCAS3	ENSG00000141376	ENST00000592848	nonsense_mediated_decay	KNOWN	None	14347	162	53	58755248	58967103	1	None	FLJ20128
17	BCAS3	ENSG00000141376	ENST00000390652	protein_coding	KNOWN	CCDS45749	14347	2787	928	58755250	59470199	1	None	FLJ20128
17	BCAS3	ENSG00000141376	ENST00000592393	processed_transcript	KNOWN	None	14347	None	None	58755253	58899136	1	None	FLJ20128
17	BCAS3	ENSG00000141376	ENST00000586241	nonsense_mediated_decay	KNOWN	None	14347	111	36	58755253	58952099	1	None	FLJ20128
17	BCAS3	ENSG00000141376	ENST00000588462	protein_coding	NOVEL	None	14347	2853	950	58756819	59470192	1	None	FLJ20128
17	BCAS3	ENSG00000141376	ENST00000408905	protein_coding	NOVEL	None	14347	2808	935	58756819	59470192	1	None	FLJ20128
17	BCAS3	ENSG00000141376	ENST00000586705	protein_coding	KNOWN	None	14347	435	144	58963744	59024614	1	None	FLJ20128
17	BCAS3	ENSG00000141376	ENST00000585744	protein_coding	NOVEL	None	14347	2100	699	58964411	59469486	1	None	FLJ20128
17	BCAS3	ENSG00000141376	ENST00000588874	protein_coding	KNOWN	None	14347	2055	684	58964411	59470191	1	None	FLJ20128
17	BCAS3	ENSG00000141376	ENST00000590128	protein_coding	KNOWN	None	14347	534	177	58964600	59024713	1	None	FLJ20128
17	BCAS3	ENSG00000141376	ENST00000586484	protein_coding	KNOWN	None	14347	552	183	58964640	59067349	1	None	FLJ20128
17	BCAS3	ENSG00000141376	ENST00000586041	processed_transcript	KNOWN	None	14347	None	None	58967122	59057966	1	None	FLJ20128
17	BCAS3	ENSG00000141376	ENST00000590352	processed_transcript	KNOWN	None	14347	None	None	59064218	59093146	1	None	FLJ20128
17	BCAS3	ENSG00000141376	ENST00000587037	processed_transcript	KNOWN	None	14347	None	None	59079918	59115264	1	None	FLJ20128
17	BCAS3	ENSG00000141376	ENST00000585979	processed_transcript	KNOWN	None	14347	None	None	59094323	59445703	1	None	FLJ20128
17	BCAS3	ENSG00000141376	ENST00000592827	processed_transcript	KNOWN	None	14347	None	None	59094325	59152349	1	None	FLJ20128
17	BCAS3	ENSG00000141376	ENST00000587002	protein_coding	NOVEL	None	14347	550	182	59155802	59445771	1	None	FLJ20128
17	BCAS3	ENSG00000141376	ENST00000588008	processed_transcript	KNOWN	None	14347	None	None	59161866	59164859	1	None	FLJ20128
17	BCAS3	ENSG00000141376	ENST00000585812	processed_transcript	KNOWN	None	14347	None	None	59234817	59470192	1	None	FLJ20128
17	BCAS3	ENSG00000141376	ENST00000587294	processed_transcript	KNOWN	None	14347	None	None	59236723	59469543	1	None	FLJ20128
17	BCAS3	ENSG00000141376	ENST00000592702	processed_transcript	KNOWN	None	14347	None	None	59322577	59470192	1	None	FLJ20128
17	BCAS3	ENSG00000141376	ENST00000588569	processed_transcript	KNOWN	None	14347	None	None	59322621	59469634	1	None	FLJ20128
17	BCAS3	ENSG00000141376	ENST00000587872	retained_intron	KNOWN	None	14347	None	None	59455191	59457933	1	None	FLJ20128
17	BCAS3	ENSG00000141376	ENST00000588720	retained_intron	KNOWN	None	14347	None	None	59465637	59470192	1	None	FLJ20128
6	None	ENSG00000262566	ENST00000574825	processed_pseudogene	KNOWN	None	None	None	None	63321058	63321232	-1	None	None
19	SCGB1B2P	ENSG00000268751	ENST00000597830	lincRNA	KNOWN	None	20741	None	None	35067638	35068365	-1	None	SCGB4A1P
19	SCGB1B2P	ENSG00000268751	ENST00000595013	lincRNA	KNOWN	None	20741	None	None	35067638	35068606	-1	None	SCGB4A1P
19	None	ENSG00000269604	ENST00000601192	antisense	KNOWN	None	None	None	None	4791757	4795567	-1	None	None
19	None	ENSG00000269604	ENST00000596170	antisense	KNOWN	None	None	None	None	4794994	4795571	-1	None	None
6	None	ENSG00000216072	ENST00000401253	miRNA	NOVEL	None	None	None	None	63393083	63393173	-1	None	None
10	KRT8P38	ENSG00000226358	ENST00000441370	processed_pseudogene	KNOWN	None	39872	None	None	90487242	90488671	1	None	None
X	None	ENSG00000214016	ENST00000412542	processed_pseudogene	KNOWN	None	None	None	None	44600333	44601210	1	None	None
6	None	ENSG00000264410	ENST00000577815	miRNA	NOVEL	None	None	None	None	63436740	63436829	-1	None	None
6	None	ENSG00000266682	ENST00000411011	miRNA	NOVEL	None	None	None	None	63692989	63693075	-1	None	None
12	CDK2	ENSG00000123374	ENST00000266970	protein_coding	KNOWN	CCDS8898	1771	897	298	56360553	56366568	1	None	None
12	CDK2	ENSG00000123374	ENST00000556464	processed_transcript	KNOWN	None	1771	None	None	56360565	56364883	1	None	None
12	CDK2	ENSG00000123374	ENST00000555408	nonsense_mediated_decay	KNOWN	None	1771	120	39	56360584	56366169	1	None	None
12	CDK2	ENSG00000123374	ENST00000553376	protein_coding	NOVEL	None	1771	1041	346	56360605	56365905	1	None	None
12	CDK2	ENSG00000123374	ENST00000440311	protein_coding	NOVEL	None	1771	717	238	56360614	56365544	1	None	None
12	CDK2	ENSG00000123374	ENST00000555357	nonsense_mediated_decay	KNOWN	None	1771	120	39	56360615	56362095	1	None	None
12	CDK2	ENSG00000123374	ENST00000354056	protein_coding	KNOWN	CCDS8899	1771	795	264	56360615	56365696	1	None	None
12	CDK2	ENSG00000123374	ENST00000554619	retained_intron	KNOWN	None	1771	None	None	56360618	56363667	1	None	None
12	CDK2	ENSG00000123374	ENST00000556276	processed_transcript	KNOWN	None	1771	None	None	56361064	56364883	1	None	None
12	CDK2	ENSG00000123374	ENST00000556656	processed_transcript	KNOWN	None	1771	None	None	56361105	56365409	1	None	None
12	CDK2	ENSG00000123374	ENST00000556146	processed_transcript	KNOWN	None	1771	None	None	56361246	56364871	1	None	None
12	CDK2	ENSG00000123374	ENST00000554545	processed_transcript	KNOWN	None	1771	None	None	56364904	56365621	1	None	None
5	PRDX2P3	ENSG00000249140	ENST00000515779	processed_pseudogene	KNOWN	None	44968	None	None	178999157	178999742	1	None	None
3	HES1	ENSG00000114315	ENST00000232424	protein_coding	KNOWN	CCDS3305	5192	843	280	193853934	193856521	1	HRY	FLJ20408, HES-1, Hes1, bHLHb39
3	HES1	ENSG00000114315	ENST00000476918	retained_intron	KNOWN	None	5192	None	None	193853937	193855073	1	HRY	FLJ20408, HES-1, Hes1, bHLHb39
6	None	ENSG00000217477	ENST00000403497	processed_pseudogene	KNOWN	None	None	None	None	63902977	63903535	-1	None	None
19	None	ENSG00000267484	ENST00000591657	antisense	KNOWN	None	None	None	None	4838344	4838919	1	None	None
15	None	ENSG00000268484	ENST00000600790	protein_coding	NOVEL	None	None	414	137	96904487	96904900	1	None	None
16	None	ENSG00000260540	ENST00000569698	unprocessed_pseudogene	KNOWN	None	None	None	None	32211223	32214143	1	None	None
7	CHPF2	ENSG00000033100	ENST00000482173	protein_coding	NOVEL	None	29270	272	89	150929575	150932355	1	None	KIAA1402, ChSy-3, CSGlcA-T
7	CHPF2	ENSG00000033100	ENST00000495645	protein_coding	NOVEL	None	29270	2295	764	150929575	150935905	1	None	KIAA1402, ChSy-3, CSGlcA-T
7	CHPF2	ENSG00000033100	ENST00000035307	protein_coding	KNOWN	CCDS34779	29270	2319	772	150929585	150935908	1	None	KIAA1402, ChSy-3, CSGlcA-T
7	CHPF2	ENSG00000033100	ENST00000465601	nonsense_mediated_decay	KNOWN	None	29270	372	123	150932537	150934679	1	None	KIAA1402, ChSy-3, CSGlcA-T
19	None	ENSG00000264899	ENST00000584366	miRNA	NOVEL	None	None	None	None	4876724	4876810	1	None	None
6	SPTLC1P3	ENSG00000219940	ENST00000403408	processed_pseudogene	KNOWN	None	39670	None	None	63937390	63937648	1	None	None
19	None	ENSG00000221535	ENST00000408608	miRNA	NOVEL	None	None	None	None	4889215	4889310	-1	None	None
10	RCBTB2P1	ENSG00000235150	ENST00000453021	processed_pseudogene	KNOWN	None	45167	None	None	90545357	90546818	-1	None	None
15	SPATA8	ENSG00000185594	ENST00000328504	protein_coding	KNOWN	CCDS10376	28676	318	105	97326619	97328845	1	None	MGC44294
15	SPATA8	ENSG00000185594	ENST00000561002	retained_intron	KNOWN	None	28676	None	None	97326679	97328305	1	None	MGC44294
15	SPATA8	ENSG00000185594	ENST00000558553	protein_coding	PUTATIVE	None	28676	207	68	97326704	97328408	1	None	MGC44294
15	SPATA8	ENSG00000185594	ENST00000560327	retained_intron	KNOWN	None	28676	None	None	97326717	97328838	1	None	MGC44294
10	PTCD2P2	ENSG00000234256	ENST00000415579	processed_pseudogene	KNOWN	None	45168	None	None	90636207	90637301	1	None	None
6	ETF1P1	ENSG00000232757	ENST00000427296	processed_pseudogene	KNOWN	None	3478	None	None	29999490	30000780	1	SUP45L2	HCGVII
6	PPP1R14BP5	ENSG00000213133	ENST00000440334	processed_pseudogene	KNOWN	None	16332	None	None	126579067	126579501	-1	None	None
5	None	ENSG00000244945	ENST00000500262	antisense	KNOWN	None	None	None	None	179022905	179030742	-1	None	None
10	ACTA2-AS1	ENSG00000180139	ENST00000437930	antisense	KNOWN	None	45169	None	None	90692428	90700097	1	None	None
10	ACTA2-AS1	ENSG00000180139	ENST00000594470	antisense	KNOWN	None	45169	None	None	90692780	90693638	1	None	None
10	ACTA2-AS1	ENSG00000180139	ENST00000596007	antisense	KNOWN	None	45169	None	None	90699232	90700368	1	None	None
5	CDHR2	ENSG00000074276	ENST00000510636	protein_coding	KNOWN	CCDS34297	18231	3933	1310	175969512	176022975	1	PCDH24	PC-LKC, FLJ20124, FLJ20383, PCLKC
5	CDHR2	ENSG00000074276	ENST00000510124	nonsense_mediated_decay	KNOWN	None	18231	189	62	175970542	175995768	1	PCDH24	PC-LKC, FLJ20124, FLJ20383, PCLKC
5	CDHR2	ENSG00000074276	ENST00000261944	protein_coding	KNOWN	CCDS34297	18231	3933	1310	175976392	176022769	1	PCDH24	PC-LKC, FLJ20124, FLJ20383, PCLKC
5	CDHR2	ENSG00000074276	ENST00000506348	protein_coding	KNOWN	CCDS34297	18231	3933	1310	175992307	176022698	1	PCDH24	PC-LKC, FLJ20124, FLJ20383, PCLKC
5	CDHR2	ENSG00000074276	ENST00000513031	retained_intron	KNOWN	None	18231	None	None	176013652	176017662	1	PCDH24	PC-LKC, FLJ20124, FLJ20383, PCLKC
5	CDHR2	ENSG00000074276	ENST00000508085	retained_intron	KNOWN	None	18231	None	None	176013660	176016571	1	PCDH24	PC-LKC, FLJ20124, FLJ20383, PCLKC
5	CDHR2	ENSG00000074276	ENST00000416365	retained_intron	KNOWN	None	18231	None	None	176017602	176018691	1	PCDH24	PC-LKC, FLJ20124, FLJ20383, PCLKC
17	RAP1GAP2	ENSG00000132359	ENST00000540393	protein_coding	NOVEL	None	29176	2136	711	2680350	2937501	1	GARNL4	KIAA1039
17	RAP1GAP2	ENSG00000132359	ENST00000254695	protein_coding	NOVEL	CCDS45573	29176	2193	730	2699732	2941033	1	GARNL4	KIAA1039
17	RAP1GAP2	ENSG00000132359	ENST00000366401	protein_coding	NOVEL	CCDS45574	29176	2148	715	2699732	2941033	1	GARNL4	KIAA1039
17	RAP1GAP2	ENSG00000132359	ENST00000574515	processed_transcript	KNOWN	None	29176	None	None	2894639	2911384	1	GARNL4	KIAA1039
17	RAP1GAP2	ENSG00000132359	ENST00000575979	retained_intron	KNOWN	None	29176	None	None	2911395	2929542	1	GARNL4	KIAA1039
17	RAP1GAP2	ENSG00000132359	ENST00000571555	retained_intron	KNOWN	None	29176	None	None	2936375	2941032	1	GARNL4	KIAA1039
17	RAP1GAP2	ENSG00000132359	ENST00000574709	processed_transcript	PUTATIVE	None	29176	None	None	2937524	2938474	1	GARNL4	KIAA1039
17	RAP1GAP2	ENSG00000132359	ENST00000542807	protein_coding	KNOWN	CCDS45573	29176	2193	730	2699776	2938065	1	GARNL4	KIAA1039
12	C12orf50	ENSG00000165805	ENST00000298699	protein_coding	KNOWN	CCDS9031	26665	1245	414	88373816	88423189	-1	None	FLJ35821
12	C12orf50	ENSG00000165805	ENST00000550553	protein_coding	NOVEL	None	26665	1128	375	88373899	88423196	-1	None	FLJ35821
12	C12orf50	ENSG00000165805	ENST00000551944	retained_intron	KNOWN	None	26665	None	None	88377158	88423146	-1	None	FLJ35821
12	C12orf50	ENSG00000165805	ENST00000551163	protein_coding	KNOWN	None	26665	289	95	88391812	88421740	-1	None	FLJ35821
12	C12orf50	ENSG00000165805	ENST00000546547	processed_transcript	KNOWN	None	26665	None	None	88420798	88427814	-1	None	FLJ35821
16	None	ENSG00000260344	ENST00000567176	processed_pseudogene	KNOWN	None	None	None	None	32224701	32224824	-1	None	None
20	TNFRSF6B	ENSG00000243509	ENST00000369996	protein_coding	KNOWN	CCDS13532	11921	903	300	62328021	62330037	1	None	DcR3, DCR3, TR6, M68
9	None	ENSG00000179443	ENST00000433495	unprocessed_pseudogene	KNOWN	None	None	None	None	35991333	35992282	-1	None	None
5	None	ENSG00000250999	ENST00000508188	antisense	KNOWN	None	None	None	None	179084763	179085482	1	None	None
5	None	ENSG00000250999	ENST00000514793	antisense	KNOWN	None	None	None	None	179085237	179091433	1	None	None
5	None	ENSG00000250999	ENST00000503428	antisense	KNOWN	None	None	None	None	179085266	179091431	1	None	None
16	PAM16	ENSG00000217930	ENST00000577031	protein_coding	PUTATIVE	None	29679	390	129	4381550	4401266	-1	None	Magmas, Tim16, TIMM16
16	PAM16	ENSG00000217930	ENST00000318059	protein_coding	KNOWN	CCDS10512	29679	378	125	4390249	4401373	-1	None	Magmas, Tim16, TIMM16
16	PAM16	ENSG00000217930	ENST00000573236	retained_intron	KNOWN	None	29679	None	None	4390250	4393551	-1	None	Magmas, Tim16, TIMM16
16	PAM16	ENSG00000217930	ENST00000573450	processed_transcript	KNOWN	None	29679	None	None	4390252	4393625	-1	None	Magmas, Tim16, TIMM16
16	PAM16	ENSG00000217930	ENST00000573553	protein_coding	PUTATIVE	None	29679	438	145	4390252	4393762	-1	None	Magmas, Tim16, TIMM16
16	PAM16	ENSG00000217930	ENST00000575848	protein_coding	PUTATIVE	None	29679	414	137	4390252	4394134	-1	None	Magmas, Tim16, TIMM16
16	PAM16	ENSG00000217930	ENST00000571941	protein_coding	PUTATIVE	None	29679	438	145	4390252	4395905	-1	None	Magmas, Tim16, TIMM16
16	PAM16	ENSG00000217930	ENST00000575636	nonsense_mediated_decay	KNOWN	None	29679	285	94	4390252	4401056	-1	None	Magmas, Tim16, TIMM16
16	PAM16	ENSG00000217930	ENST00000573614	processed_transcript	KNOWN	None	29679	None	None	4390252	4401271	-1	None	Magmas, Tim16, TIMM16
16	PAM16	ENSG00000217930	ENST00000571986	nonsense_mediated_decay	KNOWN	None	29679	186	61	4390252	4401316	-1	None	Magmas, Tim16, TIMM16
16	PAM16	ENSG00000217930	ENST00000576217	protein_coding	KNOWN	CCDS10512	29679	378	125	4390252	4405608	-1	None	Magmas, Tim16, TIMM16
16	PAM16	ENSG00000217930	ENST00000571178	nonsense_mediated_decay	KNOWN	None	29679	179	58	4390319	4401294	-1	None	Magmas, Tim16, TIMM16
16	PAM16	ENSG00000217930	ENST00000571819	processed_transcript	PUTATIVE	None	29679	None	None	4391653	4393694	-1	None	Magmas, Tim16, TIMM16
16	PAM16	ENSG00000217930	ENST00000575884	processed_transcript	PUTATIVE	None	29679	None	None	4395291	4395979	-1	None	Magmas, Tim16, TIMM16
16	PAM16	ENSG00000217930	ENST00000575942	processed_transcript	KNOWN	None	29679	None	None	4395291	4401321	-1	None	Magmas, Tim16, TIMM16
7	KIAA0087	ENSG00000122548	ENST00000242109	protein_coding	KNOWN	None	22191	417	138	26572740	26578407	-1	None	None
14	SEL1L	ENSG00000071537	ENST00000336735	protein_coding	KNOWN	CCDS9876	10717	2385	794	81937893	82000205	-1	None	IBD2, SEL1L1
14	SEL1L	ENSG00000071537	ENST00000554293	retained_intron	KNOWN	None	10717	None	None	81945622	81950872	-1	None	IBD2, SEL1L1
14	SEL1L	ENSG00000071537	ENST00000555923	retained_intron	KNOWN	None	10717	None	None	81955141	81956817	-1	None	IBD2, SEL1L1
14	SEL1L	ENSG00000071537	ENST00000554744	retained_intron	KNOWN	None	10717	None	None	81964702	81972499	-1	None	IBD2, SEL1L1
14	SEL1L	ENSG00000071537	ENST00000555824	protein_coding	KNOWN	CCDS58333	10717	906	301	81965152	82000177	-1	None	IBD2, SEL1L1
14	SEL1L	ENSG00000071537	ENST00000557372	protein_coding	NOVEL	None	10717	489	162	81970607	82000193	-1	None	IBD2, SEL1L1
9	None	ENSG00000243641	ENST00000424348	unprocessed_pseudogene	KNOWN	None	None	None	None	36002906	36003864	-1	None	None
9	None	ENSG00000243641	ENST00000320491	pseudogene	KNOWN	None	None	None	None	36002993	36003660	-1	None	None
16	None	ENSG00000260575	ENST00000562604	antisense	KNOWN	None	None	None	None	32261941	32265743	-1	None	None
X	RN7SL291P	ENSG00000242065	ENST00000487916	misc_RNA	KNOWN	None	46307	None	None	44632021	44632307	-1	None	None
X	RNU6-523P	ENSG00000252113	ENST00000516304	snRNA	KNOWN	None	47486	None	None	44744751	44744811	1	None	None
16	None	ENSG00000260402	ENST00000566232	lincRNA	KNOWN	None	None	None	None	32274148	32276835	-1	None	None
16	None	ENSG00000260402	ENST00000568730	lincRNA	KNOWN	None	None	None	None	32274229	32275108	-1	None	None
19	UHRF1	ENSG00000034063	ENST00000592666	processed_transcript	KNOWN	None	12556	None	None	4903092	4962165	1	None	ICBP90, Np95, FLJ21925, RNF106
19	UHRF1	ENSG00000034063	ENST00000591733	processed_transcript	KNOWN	None	12556	None	None	4909442	4962161	1	None	ICBP90, Np95, FLJ21925, RNF106
19	UHRF1	ENSG00000034063	ENST00000587870	processed_transcript	KNOWN	None	12556	None	None	4909510	4961182	1	None	ICBP90, Np95, FLJ21925, RNF106
19	UHRF1	ENSG00000034063	ENST00000587187	processed_transcript	KNOWN	None	12556	None	None	4910158	4960972	1	None	ICBP90, Np95, FLJ21925, RNF106
19	UHRF1	ENSG00000034063	ENST00000591699	processed_transcript	KNOWN	None	12556	None	None	4910379	4961143	1	None	ICBP90, Np95, FLJ21925, RNF106
19	UHRF1	ENSG00000034063	ENST00000592200	processed_transcript	KNOWN	None	12556	None	None	4910387	4960963	1	None	ICBP90, Np95, FLJ21925, RNF106
19	UHRF1	ENSG00000034063	ENST00000398240	processed_transcript	KNOWN	None	12556	None	None	4910566	4962162	1	None	ICBP90, Np95, FLJ21925, RNF106
19	UHRF1	ENSG00000034063	ENST00000262952	processed_transcript	KNOWN	None	12556	None	None	4909510	4962162	1	None	ICBP90, Np95, FLJ21925, RNF106
19	UHRF1	ENSG00000034063	ENST00000543616	processed_transcript	KNOWN	None	12556	None	None	4910387	4960965	1	None	ICBP90, Np95, FLJ21925, RNF106
HSCHR6_MHC_DBB	LSM2	ENSG00000231502	ENST00000467102	processed_transcript	KNOWN	None	13940	None	None	31747358	31756622	-1	C6orf28	G7b, YBL026W
HSCHR6_MHC_DBB	LSM2	ENSG00000231502	ENST00000480165	processed_transcript	KNOWN	None	13940	None	None	31747358	31756623	-1	C6orf28	G7b, YBL026W
HSCHR6_MHC_DBB	LSM2	ENSG00000231502	ENST00000462178	processed_transcript	KNOWN	None	13940	None	None	31747358	31756780	-1	C6orf28	G7b, YBL026W
HSCHR6_MHC_DBB	LSM2	ENSG00000231502	ENST00000467450	processed_transcript	KNOWN	None	13940	None	None	31747358	31756815	-1	C6orf28	G7b, YBL026W
HSCHR6_MHC_DBB	LSM2	ENSG00000231502	ENST00000497077	processed_transcript	KNOWN	None	13940	None	None	31747358	31756929	-1	C6orf28	G7b, YBL026W
HSCHR6_MHC_DBB	LSM2	ENSG00000231502	ENST00000424975	protein_coding	KNOWN	None	13940	288	95	31747358	31756947	-1	C6orf28	G7b, YBL026W
HSCHR6_MHC_DBB	LSM2	ENSG00000231502	ENST00000474755	processed_transcript	KNOWN	None	13940	None	None	31752715	31756565	-1	C6orf28	G7b, YBL026W
17	ZFP3	ENSG00000180787	ENST00000318833	protein_coding	KNOWN	CCDS11067	12861	1509	502	4981543	4999669	1	None	FLJ30726, ZNF752
X	None	ENSG00000229491	ENST00000438181	antisense	KNOWN	None	None	None	None	45042496	45192802	1	None	None
X	None	ENSG00000229491	ENST00000450527	antisense	KNOWN	None	None	None	None	45042496	45193162	1	None	None
X	None	ENSG00000229491	ENST00000450246	antisense	KNOWN	None	None	None	None	45179703	45184825	1	None	None
11	TNNT3	ENSG00000130595	ENST00000278317	protein_coding	KNOWN	CCDS7727	11950	777	258	1940792	1959936	1	None	AMCD2B, DA2B, FSSV, DKFZp779M2348
11	TNNT3	ENSG00000130595	ENST00000453458	protein_coding	NOVEL	None	11950	624	207	1940936	1956149	1	None	AMCD2B, DA2B, FSSV, DKFZp779M2348
11	TNNT3	ENSG00000130595	ENST00000381557	protein_coding	NOVEL	None	11950	735	244	1940936	1959931	1	None	AMCD2B, DA2B, FSSV, DKFZp779M2348
11	TNNT3	ENSG00000130595	ENST00000381589	protein_coding	NOVEL	CCDS41594	11950	771	256	1940936	1959936	1	None	AMCD2B, DA2B, FSSV, DKFZp779M2348
11	TNNT3	ENSG00000130595	ENST00000381579	protein_coding	KNOWN	CCDS41595	11950	753	250	1940936	1959936	1	None	AMCD2B, DA2B, FSSV, DKFZp779M2348
11	TNNT3	ENSG00000130595	ENST00000381563	protein_coding	KNOWN	None	11950	786	261	1940953	1959722	1	None	AMCD2B, DA2B, FSSV, DKFZp779M2348
11	TNNT3	ENSG00000130595	ENST00000344578	protein_coding	KNOWN	None	11950	738	245	1940955	1959722	1	None	AMCD2B, DA2B, FSSV, DKFZp779M2348
11	TNNT3	ENSG00000130595	ENST00000381558	protein_coding	NOVEL	CCDS41596	11950	753	250	1942589	1959936	1	None	AMCD2B, DA2B, FSSV, DKFZp779M2348
11	TNNT3	ENSG00000130595	ENST00000397301	protein_coding	KNOWN	None	11950	810	269	1944097	1959722	1	None	AMCD2B, DA2B, FSSV, DKFZp779M2348
11	TNNT3	ENSG00000130595	ENST00000397304	protein_coding	NOVEL	None	11950	720	239	1944105	1959722	1	None	AMCD2B, DA2B, FSSV, DKFZp779M2348
11	TNNT3	ENSG00000130595	ENST00000446240	protein_coding	NOVEL	None	11950	720	239	1944105	1959722	1	None	AMCD2B, DA2B, FSSV, DKFZp779M2348
11	TNNT3	ENSG00000130595	ENST00000492075	processed_transcript	KNOWN	None	11950	None	None	1946148	1955885	1	None	AMCD2B, DA2B, FSSV, DKFZp779M2348
11	TNNT3	ENSG00000130595	ENST00000493234	processed_transcript	KNOWN	None	11950	None	None	1955103	1956811	1	None	AMCD2B, DA2B, FSSV, DKFZp779M2348
11	TNNT3	ENSG00000130595	ENST00000473100	processed_transcript	PUTATIVE	None	11950	None	None	1959430	1959932	1	None	AMCD2B, DA2B, FSSV, DKFZp779M2348
11	TNNT3	ENSG00000130595	ENST00000381561	protein_coding	KNOWN	None	11950	786	261	1940799	1959935	1	None	AMCD2B, DA2B, FSSV, DKFZp779M2348
11	TNNT3	ENSG00000130595	ENST00000381548	protein_coding	KNOWN	None	11950	783	260	1940799	1959935	1	None	AMCD2B, DA2B, FSSV, DKFZp779M2348
11	TNNT3	ENSG00000130595	ENST00000360603	protein_coding	KNOWN	None	11950	759	252	1940799	1959935	1	None	AMCD2B, DA2B, FSSV, DKFZp779M2348
11	TNNT3	ENSG00000130595	ENST00000381549	protein_coding	KNOWN	CCDS41596	11950	753	250	1940799	1959935	1	None	AMCD2B, DA2B, FSSV, DKFZp779M2348
19	NCR1	ENSG00000189430	ENST00000291890	protein_coding	KNOWN	CCDS12911	6731	915	304	55417508	55424441	1	LY94	NK-p46, NKP46, CD335
19	NCR1	ENSG00000189430	ENST00000601903	retained_intron	KNOWN	None	6731	None	None	55417513	55418136	1	LY94	NK-p46, NKP46, CD335
19	NCR1	ENSG00000189430	ENST00000601137	retained_intron	KNOWN	None	6731	None	None	55417513	55420706	1	LY94	NK-p46, NKP46, CD335
19	NCR1	ENSG00000189430	ENST00000598576	protein_coding	NOVEL	None	6731	876	291	55417514	55424327	1	LY94	NK-p46, NKP46, CD335
19	NCR1	ENSG00000189430	ENST00000594765	protein_coding	KNOWN	CCDS46181	6731	912	303	55417521	55427508	1	LY94	NK-p46, NKP46, CD335
19	NCR1	ENSG00000189430	ENST00000350790	protein_coding	KNOWN	CCDS56103	6731	630	209	55417539	55424341	1	LY94	NK-p46, NKP46, CD335
19	NCR1	ENSG00000189430	ENST00000338835	protein_coding	KNOWN	CCDS46182	6731	864	287	55417539	55424341	1	LY94	NK-p46, NKP46, CD335
19	NCR1	ENSG00000189430	ENST00000357397	protein_coding	NOVEL	None	6731	594	197	55417546	55424239	1	LY94	NK-p46, NKP46, CD335
19	NCR1	ENSG00000189430	ENST00000447255	protein_coding	KNOWN	CCDS46181	6731	912	303	55417508	55424439	1	LY94	NK-p46, NKP46, CD335
4	SPATA5	ENSG00000145375	ENST00000274008	protein_coding	KNOWN	CCDS3730	18119	2682	893	123844229	124235809	1	None	SPAF, AFG2
4	SPATA5	ENSG00000145375	ENST00000422835	processed_transcript	KNOWN	None	18119	None	None	123844256	124023448	1	None	SPAF, AFG2
5	HMGB3P22	ENSG00000225051	ENST00000442010	processed_transcript	KNOWN	None	39314	None	None	179106033	179121650	1	None	None
5	HMGB3P22	ENSG00000225051	ENST00000451823	transcribed_processed_pseudogene	KNOWN	None	39314	None	None	179121198	179121769	1	None	None
5	HMGB3P22	ENSG00000225051	ENST00000440910	processed_pseudogene	KNOWN	None	39314	None	None	179121198	179121782	1	None	None
12	TRAFD1	ENSG00000135148	ENST00000412615	protein_coding	KNOWN	CCDS9160	24808	1749	582	112563305	112591403	1	None	FLN29
12	TRAFD1	ENSG00000135148	ENST00000550051	retained_intron	KNOWN	None	24808	None	None	112563342	112579295	1	None	FLN29
12	TRAFD1	ENSG00000135148	ENST00000549358	protein_coding	KNOWN	None	24808	405	134	112563349	112578790	1	None	FLN29
12	TRAFD1	ENSG00000135148	ENST00000547063	nonsense_mediated_decay	KNOWN	None	24808	285	94	112563358	112579952	1	None	FLN29
12	TRAFD1	ENSG00000135148	ENST00000548092	protein_coding	PUTATIVE	None	24808	218	71	112563361	112578714	1	None	FLN29
12	TRAFD1	ENSG00000135148	ENST00000552890	nonsense_mediated_decay	KNOWN	None	24808	495	164	112563364	112587612	1	None	FLN29
12	TRAFD1	ENSG00000135148	ENST00000552896	protein_coding	KNOWN	None	24808	850	282	112563367	112580099	1	None	FLN29
12	TRAFD1	ENSG00000135148	ENST00000548277	retained_intron	KNOWN	None	24808	None	None	112579757	112586017	1	None	FLN29
12	TRAFD1	ENSG00000135148	ENST00000257604	protein_coding	KNOWN	CCDS9160	24808	1749	582	112563349	112591407	1	None	FLN29
7	C7orf71	ENSG00000222004	ENST00000409974	protein_coding	KNOWN	CCDS47565	22364	510	169	26677490	26686889	1	None	None
16	None	ENSG00000259822	ENST00000565277	processed_pseudogene	KNOWN	None	None	None	None	32290187	32290436	1	None	None
16	None	ENSG00000261127	ENST00000568567	processed_transcript	KNOWN	None	None	None	None	32300868	32321876	-1	None	None
16	None	ENSG00000261127	ENST00000562267	transcribed_processed_pseudogene	KNOWN	None	None	None	None	32301012	32301159	-1	None	None
2	GPR17	ENSG00000144230	ENST00000496086	processed_transcript	KNOWN	None	4471	None	None	128403569	128409050	1	None	None
2	GPR17	ENSG00000144230	ENST00000486700	processed_transcript	KNOWN	None	4471	None	None	128403569	128410213	1	None	None
2	GPR17	ENSG00000144230	ENST00000272644	protein_coding	KNOWN	CCDS2148	4471	1104	367	128403747	128410213	1	None	None
2	GPR17	ENSG00000144230	ENST00000423019	protein_coding	KNOWN	None	4471	410	135	128405692	128408635	1	None	None
2	GPR17	ENSG00000144230	ENST00000393018	protein_coding	KNOWN	CCDS2148	4471	1104	367	128407514	128409329	1	None	None
2	GPR17	ENSG00000144230	ENST00000544369	protein_coding	KNOWN	CCDS2148	4471	1104	367	128403439	128410212	1	None	None
5	MIR1229	ENSG00000221394	ENST00000408467	miRNA	KNOWN	None	33924	None	None	179225278	179225346	-1	MIRN1229	hsa-mir-1229
5	RN7SKP150	ENSG00000222448	ENST00000410516	misc_RNA	KNOWN	None	45874	None	None	179272832	179273152	1	None	None
10	None	ENSG00000233319	ENST00000449940	processed_pseudogene	KNOWN	None	None	None	None	131930034	131930505	-1	None	None
14	SERPINA1	ENSG00000197249	ENST00000440909	protein_coding	KNOWN	CCDS9925	8941	1257	418	94843084	94856974	-1	PI	AAT, A1A, PI1, alpha-1-antitrypsin, A1AT, alpha1AT
14	SERPINA1	ENSG00000197249	ENST00000393087	protein_coding	KNOWN	CCDS9925	8941	1257	418	94844686	94855157	-1	PI	AAT, A1A, PI1, alpha-1-antitrypsin, A1AT, alpha1AT
14	SERPINA1	ENSG00000197249	ENST00000489769	nonsense_mediated_decay	KNOWN	None	8941	921	306	94844710	94849583	-1	PI	AAT, A1A, PI1, alpha-1-antitrypsin, A1AT, alpha1AT
14	SERPINA1	ENSG00000197249	ENST00000393088	protein_coding	KNOWN	CCDS9925	8941	1257	418	94844713	94857030	-1	PI	AAT, A1A, PI1, alpha-1-antitrypsin, A1AT, alpha1AT
14	SERPINA1	ENSG00000197249	ENST00000404814	protein_coding	KNOWN	CCDS9925	8941	1257	418	94844726	94856999	-1	PI	AAT, A1A, PI1, alpha-1-antitrypsin, A1AT, alpha1AT
14	SERPINA1	ENSG00000197249	ENST00000449399	protein_coding	KNOWN	CCDS9925	8941	1257	418	94844786	94856987	-1	PI	AAT, A1A, PI1, alpha-1-antitrypsin, A1AT, alpha1AT
14	SERPINA1	ENSG00000197249	ENST00000402629	protein_coding	KNOWN	None	8941	1080	359	94845450	94854926	-1	PI	AAT, A1A, PI1, alpha-1-antitrypsin, A1AT, alpha1AT
14	SERPINA1	ENSG00000197249	ENST00000554720	protein_coding	PUTATIVE	None	8941	317	104	94849000	94855002	-1	PI	AAT, A1A, PI1, alpha-1-antitrypsin, A1AT, alpha1AT
14	SERPINA1	ENSG00000197249	ENST00000556091	protein_coding	KNOWN	None	8941	469	155	94849106	94854928	-1	PI	AAT, A1A, PI1, alpha-1-antitrypsin, A1AT, alpha1AT
14	SERPINA1	ENSG00000197249	ENST00000557492	protein_coding	KNOWN	None	8941	434	143	94849141	94857013	-1	PI	AAT, A1A, PI1, alpha-1-antitrypsin, A1AT, alpha1AT
14	SERPINA1	ENSG00000197249	ENST00000556955	protein_coding	KNOWN	None	8941	351	116	94849224	94856972	-1	PI	AAT, A1A, PI1, alpha-1-antitrypsin, A1AT, alpha1AT
14	SERPINA1	ENSG00000197249	ENST00000553327	protein_coding	KNOWN	None	8941	278	91	94849297	94856951	-1	PI	AAT, A1A, PI1, alpha-1-antitrypsin, A1AT, alpha1AT
14	SERPINA1	ENSG00000197249	ENST00000557118	protein_coding	KNOWN	None	8941	67	21	94849508	94856972	-1	PI	AAT, A1A, PI1, alpha-1-antitrypsin, A1AT, alpha1AT
14	SERPINA1	ENSG00000197249	ENST00000555289	processed_transcript	KNOWN	None	8941	None	None	94849966	94856972	-1	PI	AAT, A1A, PI1, alpha-1-antitrypsin, A1AT, alpha1AT
14	SERPINA1	ENSG00000197249	ENST00000557361	retained_intron	KNOWN	None	8941	None	None	94854947	94856972	-1	PI	AAT, A1A, PI1, alpha-1-antitrypsin, A1AT, alpha1AT
14	SERPINA1	ENSG00000197249	ENST00000557093	processed_transcript	PUTATIVE	None	8941	None	None	94855894	94856972	-1	PI	AAT, A1A, PI1, alpha-1-antitrypsin, A1AT, alpha1AT
14	SERPINA1	ENSG00000197249	ENST00000448921	protein_coding	KNOWN	CCDS9925	8941	1257	418	94843084	94857029	-1	PI	AAT, A1A, PI1, alpha-1-antitrypsin, A1AT, alpha1AT
14	SERPINA1	ENSG00000197249	ENST00000437397	protein_coding	KNOWN	CCDS9925	8941	1257	418	94843084	94857029	-1	PI	AAT, A1A, PI1, alpha-1-antitrypsin, A1AT, alpha1AT
14	SERPINA1	ENSG00000197249	ENST00000355814	protein_coding	KNOWN	CCDS9925	8941	1257	418	94843084	94857029	-1	PI	AAT, A1A, PI1, alpha-1-antitrypsin, A1AT, alpha1AT
6	None	ENSG00000243831	ENST00000452651	unprocessed_pseudogene	KNOWN	None	None	None	None	161087260	161097555	-1	None	None
16	None	ENSG00000260516	ENST00000562853	unprocessed_pseudogene	KNOWN	None	None	None	None	32368302	32375016	-1	None	None
10	None	ENSG00000236303	ENST00000439421	lincRNA	KNOWN	None	None	None	None	132237331	132281418	1	None	None
10	None	ENSG00000261438	ENST00000562983	sense_overlapping	KNOWN	None	None	None	None	90775593	90776816	1	None	None
10	None	ENSG00000222997	ENST00000411065	misc_RNA	NOVEL	None	None	None	None	132303370	132303465	1	None	None
7	IL6	ENSG00000136244	ENST00000404625	protein_coding	KNOWN	CCDS5375	6018	639	212	22765503	22771621	1	IFNB2	IL-6, BSF2, HGF, HSF
7	IL6	ENSG00000136244	ENST00000426291	protein_coding	KNOWN	None	6018	458	151	22766766	22769266	1	IFNB2	IL-6, BSF2, HGF, HSF
7	IL6	ENSG00000136244	ENST00000401651	protein_coding	NOVEL	None	6018	369	122	22766766	22769422	1	IFNB2	IL-6, BSF2, HGF, HSF
7	IL6	ENSG00000136244	ENST00000485300	retained_intron	KNOWN	None	6018	None	None	22766819	22771313	1	IFNB2	IL-6, BSF2, HGF, HSF
7	IL6	ENSG00000136244	ENST00000407492	protein_coding	PUTATIVE	None	6018	411	136	22766833	22771621	1	IFNB2	IL-6, BSF2, HGF, HSF
7	IL6	ENSG00000136244	ENST00000401630	protein_coding	NOVEL	None	6018	570	189	22766843	22771348	1	IFNB2	IL-6, BSF2, HGF, HSF
7	IL6	ENSG00000136244	ENST00000406575	protein_coding	NOVEL	None	6018	597	198	22766859	22769434	1	IFNB2	IL-6, BSF2, HGF, HSF
7	IL6	ENSG00000136244	ENST00000464710	retained_intron	KNOWN	None	6018	None	None	22768119	22769407	1	IFNB2	IL-6, BSF2, HGF, HSF
7	IL6	ENSG00000136244	ENST00000258743	protein_coding	KNOWN	CCDS5375	6018	639	212	22766766	22771607	1	IFNB2	IL-6, BSF2, HGF, HSF
7	IL6	ENSG00000136244	ENST00000420258	protein_coding	KNOWN	None	6018	759	252	22766819	22770076	1	IFNB2	IL-6, BSF2, HGF, HSF
10	MIR378C	ENSG00000264803	ENST00000578683	miRNA	KNOWN	None	38374	None	None	132760851	132760931	-1	None	hsa-mir-378c
10	None	ENSG00000266057	ENST00000579579	miRNA	NOVEL	None	None	None	None	132793569	132793650	-1	None	None
19	RUVBL2	ENSG00000183207	ENST00000595090	protein_coding	KNOWN	CCDS42588	10475	1392	463	49496705	49519252	1	None	RVB2, TIP48, TIP49b, Reptin52, ECP51, TIH2, INO80J, Rvb2
19	RUVBL2	ENSG00000183207	ENST00000601968	protein_coding	PUTATIVE	None	10475	1065	354	49496819	49519149	1	None	RVB2, TIP48, TIP49b, Reptin52, ECP51, TIH2, INO80J, Rvb2
19	RUVBL2	ENSG00000183207	ENST00000596837	protein_coding	PUTATIVE	None	10475	327	108	49496873	49510625	1	None	RVB2, TIP48, TIP49b, Reptin52, ECP51, TIH2, INO80J, Rvb2
19	RUVBL2	ENSG00000183207	ENST00000595811	nonsense_mediated_decay	KNOWN	None	10475	135	44	49497146	49507639	1	None	RVB2, TIP48, TIP49b, Reptin52, ECP51, TIH2, INO80J, Rvb2
19	RUVBL2	ENSG00000183207	ENST00000594017	retained_intron	KNOWN	None	10475	None	None	49497147	49513597	1	None	RVB2, TIP48, TIP49b, Reptin52, ECP51, TIH2, INO80J, Rvb2
19	RUVBL2	ENSG00000183207	ENST00000598768	processed_transcript	KNOWN	None	10475	None	None	49497155	49502621	1	None	RVB2, TIP48, TIP49b, Reptin52, ECP51, TIH2, INO80J, Rvb2
19	RUVBL2	ENSG00000183207	ENST00000596247	nonsense_mediated_decay	KNOWN	None	10475	153	50	49497155	49519186	1	None	RVB2, TIP48, TIP49b, Reptin52, ECP51, TIH2, INO80J, Rvb2
19	RUVBL2	ENSG00000183207	ENST00000221413	nonsense_mediated_decay	KNOWN	None	10475	780	259	49497156	49519183	1	None	RVB2, TIP48, TIP49b, Reptin52, ECP51, TIH2, INO80J, Rvb2
19	RUVBL2	ENSG00000183207	ENST00000593570	nonsense_mediated_decay	KNOWN	None	10475	120	39	49497167	49513139	1	None	RVB2, TIP48, TIP49b, Reptin52, ECP51, TIH2, INO80J, Rvb2
19	RUVBL2	ENSG00000183207	ENST00000594338	retained_intron	KNOWN	None	10475	None	None	49502576	49519151	1	None	RVB2, TIP48, TIP49b, Reptin52, ECP51, TIH2, INO80J, Rvb2
19	RUVBL2	ENSG00000183207	ENST00000595002	retained_intron	KNOWN	None	10475	None	None	49518508	49519183	1	None	RVB2, TIP48, TIP49b, Reptin52, ECP51, TIH2, INO80J, Rvb2
19	RUVBL2	ENSG00000183207	ENST00000413176	protein_coding	KNOWN	None	10475	1257	418	49497166	49519182	1	None	RVB2, TIP48, TIP49b, Reptin52, ECP51, TIH2, INO80J, Rvb2
5	None	ENSG00000252202	ENST00000516393	misc_RNA	NOVEL	None	None	None	None	179274035	179274130	-1	None	None
10	None	ENSG00000230098	ENST00000436942	antisense	KNOWN	None	None	None	None	132893481	132894040	1	None	None
HSCHR6_MHC_MCF	TRIM15	ENSG00000235905	ENST00000429524	protein_coding	KNOWN	None	16284	1398	465	30209477	30218957	1	ZNF178	ZNFB7, RNF93
HSCHR6_MHC_MCF	TRIM15	ENSG00000235905	ENST00000424597	protein_coding	KNOWN	None	16284	491	162	30214574	30218216	1	ZNF178	ZNFB7, RNF93
HSCHR6_MHC_MCF	TRIM15	ENSG00000235905	ENST00000493180	processed_transcript	KNOWN	None	16284	None	None	30214618	30218957	1	ZNF178	ZNFB7, RNF93
HSCHR6_MHC_MCF	TRIM15	ENSG00000235905	ENST00000496657	retained_intron	KNOWN	None	16284	None	None	30216574	30217358	1	ZNF178	ZNFB7, RNF93
HSCHR6_MHC_MCF	TRIM15	ENSG00000235905	ENST00000552676	protein_coding	KNOWN	None	16284	348	115	30209946	30218868	1	ZNF178	ZNFB7, RNF93
HSCHR6_MHC_MCF	TRIM15	ENSG00000235905	ENST00000550702	protein_coding	KNOWN	None	16284	1191	396	30209467	30218950	1	ZNF178	ZNFB7, RNF93
17	RNF43	ENSG00000108375	ENST00000407977	protein_coding	KNOWN	CCDS11607	18505	2352	783	56429861	56494713	-1	None	FLJ20315, DKFZp781H0392, URCC
17	RNF43	ENSG00000108375	ENST00000583753	protein_coding	KNOWN	None	18505	2229	742	56431037	56493002	-1	None	FLJ20315, DKFZp781H0392, URCC
17	RNF43	ENSG00000108375	ENST00000584437	protein_coding	KNOWN	CCDS11607	18505	2352	783	56431037	56494894	-1	None	FLJ20315, DKFZp781H0392, URCC
17	RNF43	ENSG00000108375	ENST00000577716	protein_coding	KNOWN	CCDS11607	18505	2352	783	56431037	56494943	-1	None	FLJ20315, DKFZp781H0392, URCC
17	RNF43	ENSG00000108375	ENST00000577625	protein_coding	KNOWN	None	18505	1971	656	56432288	56480082	-1	None	FLJ20315, DKFZp781H0392, URCC
17	RNF43	ENSG00000108375	ENST00000581868	protein_coding	PUTATIVE	None	18505	2229	742	56434344	56494446	-1	None	FLJ20315, DKFZp781H0392, URCC
17	RNF43	ENSG00000108375	ENST00000582293	retained_intron	KNOWN	None	18505	None	None	56440511	56440953	-1	None	FLJ20315, DKFZp781H0392, URCC
17	RNF43	ENSG00000108375	ENST00000580014	processed_transcript	KNOWN	None	18505	None	None	56494374	56494956	-1	None	FLJ20315, DKFZp781H0392, URCC
17	RNF43	ENSG00000108375	ENST00000500597	protein_coding	KNOWN	None	18505	2229	742	56429861	56494480	-1	None	FLJ20315, DKFZp781H0392, URCC
10	None	ENSG00000265977	ENST00000579404	miRNA	NOVEL	None	None	None	None	133489515	133489584	1	None	None
10	None	ENSG00000235010	ENST00000414106	antisense	KNOWN	None	None	None	None	133994729	133998503	-1	None	None
10	None	ENSG00000235010	ENST00000443922	antisense	KNOWN	None	None	None	None	133997578	133999466	-1	None	None
3	GPR149	ENSG00000174948	ENST00000389740	protein_coding	KNOWN	CCDS43162	23627	2196	731	154055461	154147504	-1	None	PGR10, IEDA
16	CDH8	ENSG00000150394	ENST00000577730	protein_coding	NOVEL	None	1767	2235	744	61681146	62055506	-1	None	None
16	CDH8	ENSG00000150394	ENST00000585315	nonsense_mediated_decay	KNOWN	None	1767	1431	476	61681146	62070216	-1	None	None
16	CDH8	ENSG00000150394	ENST00000577390	protein_coding	KNOWN	CCDS10802	1767	2400	799	61681146	62070739	-1	None	None
16	CDH8	ENSG00000150394	ENST00000299345	protein_coding	NOVEL	None	1767	2238	745	61681146	62070739	-1	None	None
16	CDH8	ENSG00000150394	ENST00000583483	processed_transcript	PUTATIVE	None	1767	None	None	61689464	61747962	-1	None	None
16	CDH8	ENSG00000150394	ENST00000580044	processed_transcript	KNOWN	None	1767	None	None	61701083	61748188	-1	None	None
16	CDH8	ENSG00000150394	ENST00000577536	processed_transcript	KNOWN	None	1767	None	None	61744653	61748175	-1	None	None
16	CDH8	ENSG00000150394	ENST00000584337	protein_coding	NOVEL	None	1767	1599	532	61759070	62070306	-1	None	None
16	CDH8	ENSG00000150394	ENST00000582242	retained_intron	KNOWN	None	1767	None	None	61823380	61851947	-1	None	None
16	CDH8	ENSG00000150394	ENST00000583382	protein_coding	KNOWN	None	1767	1277	424	61851383	62069038	-1	None	None
16	CDH8	ENSG00000150394	ENST00000584966	retained_intron	KNOWN	None	1767	None	None	61935034	62055283	-1	None	None
16	CDH8	ENSG00000150394	ENST00000577228	processed_transcript	PUTATIVE	None	1767	None	None	61935296	61952618	-1	None	None
16	CDH8	ENSG00000150394	ENST00000584506	protein_coding	KNOWN	None	1767	244	80	62055064	62070939	-1	None	None
16	CDH8	ENSG00000150394	ENST00000582980	processed_transcript	PUTATIVE	None	1767	None	None	62065895	62070336	-1	None	None
19	None	ENSG00000268434	ENST00000593999	nonsense_mediated_decay	KNOWN	None	None	398	131	46282695	46289231	-1	None	None
19	None	ENSG00000268434	ENST00000596586	protein_coding	PUTATIVE	None	None	397	131	46282729	46288971	-1	None	None
19	None	ENSG00000268434	ENST00000597712	nonsense_mediated_decay	KNOWN	None	None	171	56	46282729	46288971	-1	None	None
19	None	ENSG00000268434	ENST00000595946	protein_coding	PUTATIVE	None	None	321	106	46282730	46288971	-1	None	None
4	MTHFD2P4	ENSG00000251253	ENST00000515074	processed_pseudogene	KNOWN	None	48862	None	None	163243340	163245059	1	None	None
10	None	ENSG00000231705	ENST00000428814	lincRNA	KNOWN	None	None	None	None	134232587	134234457	1	None	None
10	KCNK18	ENSG00000186795	ENST00000334549	protein_coding	KNOWN	CCDS7598	19439	1155	384	118957000	118969810	1	None	K2p18.1, TRESK-2, TRESK2, TRESK, TRIK
11	OR52K2	ENSG00000181963	ENST00000325719	protein_coding	KNOWN	CCDS31351	15223	945	314	4470525	4471591	1	None	None
7	MET	ENSG00000105976	ENST00000456159	protein_coding	PUTATIVE	None	7029	572	189	116312444	116339653	1	None	HGFR, RCCP2
7	MET	ENSG00000105976	ENST00000397752	protein_coding	KNOWN	CCDS43636	7029	4173	1390	116312446	116438440	1	None	HGFR, RCCP2
7	MET	ENSG00000105976	ENST00000318493	protein_coding	KNOWN	CCDS47689	7029	4227	1408	116312459	116436396	1	None	HGFR, RCCP2
7	MET	ENSG00000105976	ENST00000495962	processed_transcript	KNOWN	None	7029	None	None	116364200	116395468	1	None	HGFR, RCCP2
7	MET	ENSG00000105976	ENST00000422097	protein_coding	PUTATIVE	None	7029	645	214	116398571	116409963	1	None	HGFR, RCCP2
7	MET	ENSG00000105976	ENST00000454623	protein_coding	NOVEL	None	7029	475	157	116409720	116415126	1	None	HGFR, RCCP2
7	MET	ENSG00000105976	ENST00000436117	protein_coding	KNOWN	None	7029	2295	764	116339139	116403134	1	None	HGFR, RCCP2
7	MET	ENSG00000105976	ENST00000539704	protein_coding	KNOWN	None	7029	783	260	116417229	116436654	1	None	HGFR, RCCP2
10	None	ENSG00000234311	ENST00000450206	antisense	KNOWN	None	None	None	None	134247237	134254988	-1	None	None
5	None	ENSG00000268358	ENST00000600409	protein_coding	KNOWN	None	None	822	273	111755280	111756310	1	None	None
4	TOMM22P4	ENSG00000248396	ENST00000511318	processed_pseudogene	KNOWN	None	38740	None	None	163442834	163443193	1	None	None
10	None	ENSG00000226900	ENST00000455414	lincRNA	KNOWN	None	None	None	None	134325130	134331695	-1	None	None
4	EIF4E	ENSG00000151247	ENST00000450253	protein_coding	KNOWN	CCDS34031	3287	654	217	99792835	99851788	-1	EIF4EL1, EIF4F	EIF4E1
4	EIF4E	ENSG00000151247	ENST00000280892	protein_coding	KNOWN	CCDS47109	3287	714	237	99801916	99850243	-1	EIF4EL1, EIF4F	EIF4E1
4	EIF4E	ENSG00000151247	ENST00000515638	nonsense_mediated_decay	KNOWN	None	3287	129	42	99801923	99850276	-1	EIF4EL1, EIF4F	EIF4E1
4	EIF4E	ENSG00000151247	ENST00000511644	protein_coding	NOVEL	None	3287	466	154	99801996	99850252	-1	EIF4EL1, EIF4F	EIF4E1
4	EIF4E	ENSG00000151247	ENST00000504432	protein_coding	PUTATIVE	None	3287	738	245	99801996	99850276	-1	EIF4EL1, EIF4F	EIF4E1
4	EIF4E	ENSG00000151247	ENST00000505992	protein_coding	NOVEL	CCDS54779	3287	747	248	99802049	99850284	-1	EIF4EL1, EIF4F	EIF4E1
4	EIF4E	ENSG00000151247	ENST00000505194	processed_transcript	KNOWN	None	3287	None	None	99802161	99812049	-1	EIF4EL1, EIF4F	EIF4E1
4	EIF4E	ENSG00000151247	ENST00000507665	retained_intron	KNOWN	None	3287	None	None	99807502	99850279	-1	EIF4EL1, EIF4F	EIF4E1
4	EIF4E	ENSG00000151247	ENST00000505829	retained_intron	KNOWN	None	3287	None	None	99808314	99812722	-1	EIF4EL1, EIF4F	EIF4E1
4	EIF4E	ENSG00000151247	ENST00000504472	processed_transcript	PUTATIVE	None	3287	None	None	99816273	99850284	-1	EIF4EL1, EIF4F	EIF4E1
4	EIF4E	ENSG00000151247	ENST00000418385	processed_transcript	KNOWN	None	3287	None	None	99847123	99850276	-1	EIF4EL1, EIF4F	EIF4E1
17	ZNF232	ENSG00000167840	ENST00000575898	protein_coding	KNOWN	None	13026	1308	435	5008836	5015136	-1	None	ZSCAN11
17	ZNF232	ENSG00000167840	ENST00000250076	protein_coding	KNOWN	CCDS11068	13026	1335	444	5008930	5026397	-1	None	ZSCAN11
17	ZNF232	ENSG00000167840	ENST00000574735	retained_intron	KNOWN	None	13026	None	None	5009030	5015359	-1	None	ZSCAN11
17	ZNF232	ENSG00000167840	ENST00000573015	nonsense_mediated_decay	KNOWN	None	13026	153	50	5009068	5015140	-1	None	ZSCAN11
17	ZNF232	ENSG00000167840	ENST00000570486	nonsense_mediated_decay	KNOWN	None	13026	153	50	5009224	5026411	-1	None	ZSCAN11
17	ZNF232	ENSG00000167840	ENST00000572468	retained_intron	KNOWN	None	13026	None	None	5009527	5012620	-1	None	ZSCAN11
17	ZNF232	ENSG00000167840	ENST00000575538	processed_transcript	KNOWN	None	13026	None	None	5009700	5015110	-1	None	ZSCAN11
17	ZNF232	ENSG00000167840	ENST00000571076	nonsense_mediated_decay	KNOWN	None	13026	153	50	5012328	5015136	-1	None	ZSCAN11
17	ZNF232	ENSG00000167840	ENST00000416429	protein_coding	KNOWN	None	13026	579	192	5009224	5015171	-1	None	ZSCAN11
10	None	ENSG00000229081	ENST00000445190	antisense	KNOWN	None	None	None	None	134334331	134335953	-1	None	None
6	None	ENSG00000224477	ENST00000448126	lincRNA	KNOWN	None	None	None	None	161119320	161121664	1	None	None
6	None	ENSG00000224477	ENST00000447702	lincRNA	KNOWN	None	None	None	None	161119525	161121664	1	None	None
9	None	ENSG00000231701	ENST00000417301	unprocessed_pseudogene	KNOWN	None	None	None	None	70334349	70337925	-1	None	None
10	None	ENSG00000234531	ENST00000441365	lincRNA	KNOWN	None	None	None	None	134596683	134598269	-1	None	None
10	None	ENSG00000232903	ENST00000443633	lincRNA	KNOWN	None	None	None	None	134757471	134778793	-1	None	None
7	SMARCD3	ENSG00000082014	ENST00000496530	processed_transcript	PUTATIVE	None	11108	None	None	150935850	150936556	-1	None	BAF60C, Rsc6p, CRACD3
7	SMARCD3	ENSG00000082014	ENST00000262188	protein_coding	KNOWN	CCDS34780	11108	1452	483	150936059	150946059	-1	None	BAF60C, Rsc6p, CRACD3
7	SMARCD3	ENSG00000082014	ENST00000392811	protein_coding	KNOWN	CCDS5924	11108	1413	470	150936059	150974538	-1	None	BAF60C, Rsc6p, CRACD3
7	SMARCD3	ENSG00000082014	ENST00000469154	nonsense_mediated_decay	KNOWN	None	11108	222	73	150936060	150972338	-1	None	BAF60C, Rsc6p, CRACD3
7	SMARCD3	ENSG00000082014	ENST00000472789	retained_intron	KNOWN	None	11108	None	None	150936067	150937294	-1	None	BAF60C, Rsc6p, CRACD3
7	SMARCD3	ENSG00000082014	ENST00000470588	retained_intron	KNOWN	None	11108	None	None	150936094	150938578	-1	None	BAF60C, Rsc6p, CRACD3
7	SMARCD3	ENSG00000082014	ENST00000485592	nonsense_mediated_decay	KNOWN	None	11108	206	67	150937508	150942599	-1	None	BAF60C, Rsc6p, CRACD3
7	SMARCD3	ENSG00000082014	ENST00000472988	retained_intron	KNOWN	None	11108	None	None	150937986	150945771	-1	None	BAF60C, Rsc6p, CRACD3
7	SMARCD3	ENSG00000082014	ENST00000485610	retained_intron	KNOWN	None	11108	None	None	150938344	150945732	-1	None	BAF60C, Rsc6p, CRACD3
7	SMARCD3	ENSG00000082014	ENST00000472103	retained_intron	KNOWN	None	11108	None	None	150938885	150940772	-1	None	BAF60C, Rsc6p, CRACD3
7	SMARCD3	ENSG00000082014	ENST00000489503	processed_transcript	KNOWN	None	11108	None	None	150938994	150939878	-1	None	BAF60C, Rsc6p, CRACD3
7	SMARCD3	ENSG00000082014	ENST00000477169	processed_transcript	KNOWN	None	11108	None	None	150939044	150951564	-1	None	BAF60C, Rsc6p, CRACD3
7	SMARCD3	ENSG00000082014	ENST00000460431	processed_transcript	KNOWN	None	11108	None	None	150939567	150943235	-1	None	BAF60C, Rsc6p, CRACD3
7	SMARCD3	ENSG00000082014	ENST00000491651	protein_coding	KNOWN	None	11108	417	138	150939807	150974982	-1	None	BAF60C, Rsc6p, CRACD3
7	SMARCD3	ENSG00000082014	ENST00000356800	protein_coding	KNOWN	CCDS5924	11108	1413	470	150936062	150973820	-1	None	BAF60C, Rsc6p, CRACD3
10	None	ENSG00000224758	ENST00000423232	lincRNA	KNOWN	None	None	None	None	134774844	134775741	-1	None	None
6	PIM1	ENSG00000137193	ENST00000373509	protein_coding	KNOWN	CCDS4830	8986	942	313	37137979	37143202	1	PIM	None
6	PIM1	ENSG00000137193	ENST00000468243	processed_transcript	KNOWN	None	8986	None	None	37140244	37142023	1	PIM	None
6	PIM1	ENSG00000137193	ENST00000479509	processed_transcript	KNOWN	None	8986	None	None	37140270	37142088	1	PIM	None
10	None	ENSG00000240707	ENST00000461291	lincRNA	KNOWN	None	None	None	None	134779038	134789858	1	None	None
10	RBP4	ENSG00000138207	ENST00000371464	protein_coding	KNOWN	CCDS31249	9922	606	201	95351444	95360983	-1	None	None
10	RBP4	ENSG00000138207	ENST00000371467	protein_coding	KNOWN	CCDS31249	9922	606	201	95351444	95361420	-1	None	None
10	RBP4	ENSG00000138207	ENST00000371469	protein_coding	PUTATIVE	None	9922	600	199	95351646	95361501	-1	None	None
10	None	ENSG00000256925	ENST00000444433	antisense	KNOWN	None	None	None	None	134898748	134900201	-1	None	None
9	None	ENSG00000235893	ENST00000478218	processed_pseudogene	KNOWN	None	None	None	None	70348573	70349113	1	None	None
5	RPS15AP18	ENSG00000242979	ENST00000470580	processed_pseudogene	KNOWN	None	36524	None	None	179360805	179361196	-1	None	None
8	CSGALNACT1	ENSG00000147408	ENST00000454498	protein_coding	KNOWN	CCDS6010	24290	1599	532	19261672	19460006	-1	None	CSGalNAcT-1, FLJ11264, ChGn
8	CSGALNACT1	ENSG00000147408	ENST00000332246	protein_coding	KNOWN	CCDS6010	24290	1599	532	19261672	19540094	-1	None	CSGalNAcT-1, FLJ11264, ChGn
8	CSGALNACT1	ENSG00000147408	ENST00000397998	nonsense_mediated_decay	KNOWN	None	24290	894	297	19261672	19540272	-1	None	CSGalNAcT-1, FLJ11264, ChGn
8	CSGALNACT1	ENSG00000147408	ENST00000522854	protein_coding	KNOWN	CCDS6010	24290	1599	532	19263291	19459376	-1	None	CSGalNAcT-1, FLJ11264, ChGn
8	CSGALNACT1	ENSG00000147408	ENST00000518542	processed_transcript	KNOWN	None	24290	None	None	19277894	19352702	-1	None	CSGalNAcT-1, FLJ11264, ChGn
8	CSGALNACT1	ENSG00000147408	ENST00000519222	nonsense_mediated_decay	KNOWN	None	24290	894	297	19297388	19460270	-1	None	CSGalNAcT-1, FLJ11264, ChGn
8	CSGALNACT1	ENSG00000147408	ENST00000523262	protein_coding	KNOWN	None	24290	312	103	19363034	19615449	-1	None	CSGalNAcT-1, FLJ11264, ChGn
8	CSGALNACT1	ENSG00000147408	ENST00000517494	protein_coding	KNOWN	None	24290	290	95	19363056	19615540	-1	None	CSGalNAcT-1, FLJ11264, ChGn
8	CSGALNACT1	ENSG00000147408	ENST00000520003	protein_coding	KNOWN	None	24290	161	52	19363185	19460006	-1	None	CSGalNAcT-1, FLJ11264, ChGn
8	CSGALNACT1	ENSG00000147408	ENST00000524213	protein_coding	KNOWN	None	24290	43	13	19363303	19614816	-1	None	CSGalNAcT-1, FLJ11264, ChGn
8	CSGALNACT1	ENSG00000147408	ENST00000517651	processed_transcript	KNOWN	None	24290	None	None	19363391	19499533	-1	None	CSGalNAcT-1, FLJ11264, ChGn
8	CSGALNACT1	ENSG00000147408	ENST00000523227	processed_transcript	KNOWN	None	24290	None	None	19363417	19540751	-1	None	CSGalNAcT-1, FLJ11264, ChGn
8	CSGALNACT1	ENSG00000147408	ENST00000522732	processed_transcript	PUTATIVE	None	24290	None	None	19363548	19389531	-1	None	CSGalNAcT-1, FLJ11264, ChGn
8	CSGALNACT1	ENSG00000147408	ENST00000522573	processed_transcript	KNOWN	None	24290	None	None	19363627	19614728	-1	None	CSGalNAcT-1, FLJ11264, ChGn
8	CSGALNACT1	ENSG00000147408	ENST00000523919	processed_transcript	KNOWN	None	24290	None	None	19442797	19459735	-1	None	CSGalNAcT-1, FLJ11264, ChGn
8	CSGALNACT1	ENSG00000147408	ENST00000524112	processed_transcript	KNOWN	None	24290	None	None	19445385	19459735	-1	None	CSGalNAcT-1, FLJ11264, ChGn
8	CSGALNACT1	ENSG00000147408	ENST00000311540	protein_coding	KNOWN	CCDS6010	24290	1599	532	19261673	19540272	-1	None	CSGalNAcT-1, FLJ11264, ChGn
8	CSGALNACT1	ENSG00000147408	ENST00000544602	protein_coding	KNOWN	CCDS6010	24290	1599	532	19263291	19615382	-1	None	CSGalNAcT-1, FLJ11264, ChGn
16	None	ENSG00000261471	ENST00000564809	antisense	KNOWN	None	None	None	None	84627999	84630432	1	None	None
1	CASZ1	ENSG00000130940	ENST00000377022	protein_coding	KNOWN	CCDS41246	26002	5280	1759	10696661	10856705	-1	None	FLJ20321, ZNF693, castor, cst, SRG
1	CASZ1	ENSG00000130940	ENST00000478524	processed_transcript	KNOWN	None	26002	None	None	10697178	10698820	-1	None	FLJ20321, ZNF693, castor, cst, SRG
1	CASZ1	ENSG00000130940	ENST00000447850	protein_coding	PUTATIVE	None	26002	695	230	10702139	10705133	-1	None	FLJ20321, ZNF693, castor, cst, SRG
1	CASZ1	ENSG00000130940	ENST00000344008	protein_coding	KNOWN	CCDS120	26002	3501	1166	10707270	10856707	-1	None	FLJ20321, ZNF693, castor, cst, SRG
1	CASZ1	ENSG00000130940	ENST00000490176	retained_intron	KNOWN	None	26002	None	None	10710541	10711157	-1	None	FLJ20321, ZNF693, castor, cst, SRG
1	CASZ1	ENSG00000130940	ENST00000496432	retained_intron	KNOWN	None	26002	None	None	10713041	10754536	-1	None	FLJ20321, ZNF693, castor, cst, SRG
1	CASZ1	ENSG00000130940	ENST00000492173	retained_intron	KNOWN	None	26002	None	None	10718064	10721455	-1	None	FLJ20321, ZNF693, castor, cst, SRG
1	CASZ1	ENSG00000130940	ENST00000478728	processed_transcript	KNOWN	None	26002	None	None	10720794	10753969	-1	None	FLJ20321, ZNF693, castor, cst, SRG
1	CASZ1	ENSG00000130940	ENST00000472814	processed_transcript	KNOWN	None	26002	None	None	10764253	10765632	-1	None	FLJ20321, ZNF693, castor, cst, SRG
5	None	ENSG00000249876	ENST00000511668	processed_pseudogene	KNOWN	None	None	None	None	179366457	179367132	-1	None	None
17	PRPF8	ENSG00000174231	ENST00000571958	protein_coding	PUTATIVE	None	17340	350	115	1553923	1554563	-1	RP13	PRPC8, Prp8, hPrp8, SNRNP220
17	PRPF8	ENSG00000174231	ENST00000304992	protein_coding	KNOWN	CCDS11010	17340	7008	2335	1553923	1588176	-1	RP13	PRPC8, Prp8, hPrp8, SNRNP220
17	PRPF8	ENSG00000174231	ENST00000572621	protein_coding	NOVEL	CCDS11010	17340	7008	2335	1553925	1588131	-1	RP13	PRPC8, Prp8, hPrp8, SNRNP220
17	PRPF8	ENSG00000174231	ENST00000572723	retained_intron	KNOWN	None	17340	None	None	1554134	1555440	-1	RP13	PRPC8, Prp8, hPrp8, SNRNP220
17	PRPF8	ENSG00000174231	ENST00000575116	processed_transcript	KNOWN	None	17340	None	None	1554957	1557205	-1	RP13	PRPC8, Prp8, hPrp8, SNRNP220
17	PRPF8	ENSG00000174231	ENST00000576585	retained_intron	KNOWN	None	17340	None	None	1556025	1558274	-1	RP13	PRPC8, Prp8, hPrp8, SNRNP220
17	PRPF8	ENSG00000174231	ENST00000573681	retained_intron	KNOWN	None	17340	None	None	1562758	1564623	-1	RP13	PRPC8, Prp8, hPrp8, SNRNP220
17	PRPF8	ENSG00000174231	ENST00000573725	protein_coding	PUTATIVE	None	17340	749	248	1563263	1565332	-1	RP13	PRPC8, Prp8, hPrp8, SNRNP220
17	PRPF8	ENSG00000174231	ENST00000572445	retained_intron	KNOWN	None	17340	None	None	1564221	1565072	-1	RP13	PRPC8, Prp8, hPrp8, SNRNP220
17	PRPF8	ENSG00000174231	ENST00000574217	retained_intron	KNOWN	None	17340	None	None	1576235	1576703	-1	RP13	PRPC8, Prp8, hPrp8, SNRNP220
17	PRPF8	ENSG00000174231	ENST00000577001	protein_coding	NOVEL	None	17340	3038	1011	1577832	1588101	-1	RP13	PRPC8, Prp8, hPrp8, SNRNP220
17	PRPF8	ENSG00000174231	ENST00000576958	retained_intron	KNOWN	None	17340	None	None	1577938	1578824	-1	RP13	PRPC8, Prp8, hPrp8, SNRNP220
17	PRPF8	ENSG00000174231	ENST00000576407	retained_intron	KNOWN	None	17340	None	None	1579602	1580565	-1	RP13	PRPC8, Prp8, hPrp8, SNRNP220
17	PRPF8	ENSG00000174231	ENST00000573716	retained_intron	KNOWN	None	17340	None	None	1581735	1582604	-1	RP13	PRPC8, Prp8, hPrp8, SNRNP220
17	PRPF8	ENSG00000174231	ENST00000574728	retained_intron	KNOWN	None	17340	None	None	1583775	1584337	-1	RP13	PRPC8, Prp8, hPrp8, SNRNP220
17	PRPF8	ENSG00000174231	ENST00000571346	retained_intron	KNOWN	None	17340	None	None	1586315	1588146	-1	RP13	PRPC8, Prp8, hPrp8, SNRNP220
9	None	ENSG00000237904	ENST00000421091	processed_pseudogene	KNOWN	None	None	None	None	70366921	70367319	-1	None	None
16	None	ENSG00000260859	ENST00000562393	sense_intronic	KNOWN	None	None	None	None	84861869	84862848	1	None	None
10	None	ENSG00000203268	ENST00000366099	pseudogene	KNOWN	None	None	None	None	134899473	134900137	-1	None	None
5	None	ENSG00000249412	ENST00000510240	antisense	KNOWN	None	None	None	None	179390615	179391419	1	None	None
9	IGKV1OR-3	ENSG00000204776	ENST00000446944	IG_V_pseudogene	KNOWN	None	5762	None	None	70394611	70395090	-1	IGKVPZ3	IGKV1/OR-3
9	IGKV1OR-3	ENSG00000204776	ENST00000377415	IG_V_pseudogene	KNOWN	None	5762	None	None	70394238	70394903	-1	IGKVPZ3	IGKV1/OR-3
10	RPL5P28	ENSG00000235264	ENST00000418634	processed_pseudogene	KNOWN	None	36827	None	None	134958116	134958808	-1	None	None
16	ACTR3BP3	ENSG00000260327	ENST00000565577	processed_pseudogene	KNOWN	None	38678	None	None	32390392	32391370	-1	None	None
20	WISP2	ENSG00000064205	ENST00000372868	protein_coding	KNOWN	CCDS13336	12770	753	250	43343485	43356452	1	None	CT58, CTGF-L, CCN5
20	WISP2	ENSG00000064205	ENST00000372865	protein_coding	KNOWN	None	12770	657	218	43343524	43356452	1	None	CT58, CTGF-L, CCN5
20	WISP2	ENSG00000064205	ENST00000497421	processed_transcript	KNOWN	None	12770	None	None	43343563	43350152	1	None	CT58, CTGF-L, CCN5
20	WISP2	ENSG00000064205	ENST00000190983	protein_coding	KNOWN	CCDS13336	12770	753	250	43343886	43356452	1	None	CT58, CTGF-L, CCN5
20	WISP2	ENSG00000064205	ENST00000465000	processed_transcript	KNOWN	None	12770	None	None	43348628	43356122	1	None	CT58, CTGF-L, CCN5
20	WISP2	ENSG00000064205	ENST00000471629	processed_transcript	KNOWN	None	12770	None	None	43352298	43357150	1	None	CT58, CTGF-L, CCN5
9	None	ENSG00000233765	ENST00000417001	unprocessed_pseudogene	KNOWN	None	None	None	None	70662044	70663084	1	None	None
X	CSTF2	ENSG00000101811	ENST00000372972	protein_coding	KNOWN	CCDS14473	2484	1734	577	100075390	100095907	1	None	None
X	CSTF2	ENSG00000101811	ENST00000486615	processed_transcript	KNOWN	None	2484	None	None	100075392	100095921	1	None	None
X	CSTF2	ENSG00000101811	ENST00000475126	nonsense_mediated_decay	KNOWN	None	2484	1317	438	100075406	100095912	1	None	None
X	CSTF2	ENSG00000101811	ENST00000413437	protein_coding	KNOWN	None	2484	675	224	100075525	100079246	1	None	None
X	CSTF2	ENSG00000101811	ENST00000415585	protein_coding	KNOWN	None	2484	1794	597	100075384	100095921	1	None	None
1	METTL11B	ENSG00000203740	ENST00000439373	protein_coding	KNOWN	CCDS44275	31932	852	283	170115142	170136931	1	C1orf184	HOMT1B
1	METTL11B	ENSG00000203740	ENST00000367764	processed_transcript	KNOWN	None	31932	None	None	170127110	170136704	1	C1orf184	HOMT1B
18	B4GALT6	ENSG00000118276	ENST00000578114	retained_intron	KNOWN	None	929	None	None	29202210	29238427	-1	None	beta4GalT-VI
18	B4GALT6	ENSG00000118276	ENST00000306851	protein_coding	KNOWN	CCDS11900	929	1149	382	29203132	29264686	-1	None	beta4GalT-VI
18	B4GALT6	ENSG00000118276	ENST00000237019	protein_coding	NOVEL	None	929	1032	343	29204626	29264534	-1	None	beta4GalT-VI
18	B4GALT6	ENSG00000118276	ENST00000383131	protein_coding	NOVEL	None	929	1032	343	29205448	29264467	-1	None	beta4GalT-VI
18	B4GALT6	ENSG00000118276	ENST00000579372	protein_coding	PUTATIVE	None	929	215	70	29237938	29265799	-1	None	beta4GalT-VI
11	PSMA1	ENSG00000129084	ENST00000524606	processed_transcript	PUTATIVE	None	9530	None	None	14526420	14532577	-1	None	HC2, NU, PROS30, MGC14542, MGC14575, MGC14751, MGC1667, MGC21459, MGC22853, MGC23915
11	PSMA1	ENSG00000129084	ENST00000396394	protein_coding	KNOWN	CCDS7816	9530	792	263	14526422	14542242	-1	None	HC2, NU, PROS30, MGC14542, MGC14575, MGC14751, MGC1667, MGC21459, MGC22853, MGC23915
11	PSMA1	ENSG00000129084	ENST00000530457	protein_coding	PUTATIVE	None	9530	717	238	14526459	14541909	-1	None	HC2, NU, PROS30, MGC14542, MGC14575, MGC14751, MGC1667, MGC21459, MGC22853, MGC23915
11	PSMA1	ENSG00000129084	ENST00000528307	retained_intron	KNOWN	None	9530	None	None	14526470	14541905	-1	None	HC2, NU, PROS30, MGC14542, MGC14575, MGC14751, MGC1667, MGC21459, MGC22853, MGC23915
11	PSMA1	ENSG00000129084	ENST00000418988	protein_coding	KNOWN	CCDS31431	9530	810	269	14526610	14665163	-1	None	HC2, NU, PROS30, MGC14542, MGC14575, MGC14751, MGC1667, MGC21459, MGC22853, MGC23915
11	PSMA1	ENSG00000129084	ENST00000527632	retained_intron	KNOWN	None	9530	None	None	14529133	14535548	-1	None	HC2, NU, PROS30, MGC14542, MGC14575, MGC14751, MGC1667, MGC21459, MGC22853, MGC23915
11	PSMA1	ENSG00000129084	ENST00000531023	retained_intron	KNOWN	None	9530	None	None	14532460	14535839	-1	None	HC2, NU, PROS30, MGC14542, MGC14575, MGC14751, MGC1667, MGC21459, MGC22853, MGC23915
11	PSMA1	ENSG00000129084	ENST00000533331	retained_intron	KNOWN	None	9530	None	None	14535006	14541926	-1	None	HC2, NU, PROS30, MGC14542, MGC14575, MGC14751, MGC1667, MGC21459, MGC22853, MGC23915
11	PSMA1	ENSG00000129084	ENST00000529524	retained_intron	KNOWN	None	9530	None	None	14535210	14539219	-1	None	HC2, NU, PROS30, MGC14542, MGC14575, MGC14751, MGC1667, MGC21459, MGC22853, MGC23915
11	PSMA1	ENSG00000129084	ENST00000531156	retained_intron	KNOWN	None	9530	None	None	14535861	14541884	-1	None	HC2, NU, PROS30, MGC14542, MGC14575, MGC14751, MGC1667, MGC21459, MGC22853, MGC23915
11	PSMA1	ENSG00000129084	ENST00000526443	retained_intron	KNOWN	None	9530	None	None	14535888	14541618	-1	None	HC2, NU, PROS30, MGC14542, MGC14575, MGC14751, MGC1667, MGC21459, MGC22853, MGC23915
11	PSMA1	ENSG00000129084	ENST00000533068	protein_coding	PUTATIVE	None	9530	43	13	14539458	14541991	-1	None	HC2, NU, PROS30, MGC14542, MGC14575, MGC14751, MGC1667, MGC21459, MGC22853, MGC23915
11	PSMA1	ENSG00000129084	ENST00000532256	protein_coding	PUTATIVE	None	9530	6	1	14539495	14541928	-1	None	HC2, NU, PROS30, MGC14542, MGC14575, MGC14751, MGC1667, MGC21459, MGC22853, MGC23915
11	PSMA1	ENSG00000129084	ENST00000528018	processed_transcript	PUTATIVE	None	9530	None	None	14632400	14665181	-1	None	HC2, NU, PROS30, MGC14542, MGC14575, MGC14751, MGC1667, MGC21459, MGC22853, MGC23915
11	PSMA1	ENSG00000129084	ENST00000396393	protein_coding	KNOWN	None	9530	792	263	14526423	14540761	-1	None	HC2, NU, PROS30, MGC14542, MGC14575, MGC14751, MGC1667, MGC21459, MGC22853, MGC23915
11	PSMA1	ENSG00000129084	ENST00000419365	protein_coding	KNOWN	None	9530	495	164	14515329	14541890	-1	None	HC2, NU, PROS30, MGC14542, MGC14575, MGC14751, MGC1667, MGC21459, MGC22853, MGC23915
10	MIR202	ENSG00000166917	ENST00000553459	antisense	KNOWN	None	32080	None	None	135059982	135061395	-1	MIRN202	hsa-mir-202
10	MIR202	ENSG00000166917	ENST00000300167	antisense	KNOWN	None	32080	None	None	135060414	135061389	-1	MIRN202	hsa-mir-202
10	MIR202	ENSG00000166917	ENST00000362219	miRNA	KNOWN	None	32080	None	None	135061015	135061124	-1	MIRN202	hsa-mir-202
9	MEP1AP2	ENSG00000223780	ENST00000445953	unprocessed_pseudogene	KNOWN	None	7017	None	None	70727365	70734146	-1	MEP1AL2	None
9	MEP1AP2	ENSG00000223780	ENST00000546349	unprocessed_pseudogene	KNOWN	None	7017	None	None	70733798	70734076	-1	MEP1AL2	None
5	MIR340	ENSG00000198995	ENST00000362125	miRNA	KNOWN	None	31777	None	None	179442303	179442397	-1	MIRN340	hsa-mir-340
18	None	ENSG00000264189	ENST00000582646	processed_pseudogene	KNOWN	None	None	None	None	1927728	1929095	-1	None	None
8	RN7SKP226	ENSG00000201782	ENST00000364912	misc_RNA	KNOWN	None	45950	None	None	129232750	129233049	1	None	None
9	None	ENSG00000226904	ENST00000425587	antisense	KNOWN	None	None	None	None	70843567	70844228	1	None	None
10	FAM25HP	ENSG00000239492	ENST00000399377	unprocessed_pseudogene	KNOWN	None	23591	None	None	47740330	47744825	1	C10orf43	bA145E20.4, bA145E20.5
10	None	ENSG00000235245	ENST00000424450	antisense	KNOWN	None	None	None	None	135108691	135109481	-1	None	None
18	None	ENSG00000238575	ENST00000459316	snoRNA	NOVEL	None	None	None	None	2555357	2555491	1	None	None
10	None	ENSG00000244599	ENST00000445847	processed_transcript	KNOWN	None	None	None	None	47742393	47747200	1	None	None
18	None	ENSG00000266783	ENST00000583253	sense_intronic	KNOWN	None	None	None	None	2561171	2562219	-1	None	None
HSCHR6_MHC_QBL	DDAH2	ENSG00000206395	ENST00000444893	protein_coding	KNOWN	None	2716	565	187	31685048	31686887	-1	None	None
HSCHR6_MHC_QBL	DDAH2	ENSG00000206395	ENST00000471801	retained_intron	KNOWN	None	2716	None	None	31685048	31687517	-1	None	None
HSCHR6_MHC_QBL	DDAH2	ENSG00000206395	ENST00000400062	protein_coding	KNOWN	None	2716	858	285	31685048	31687802	-1	None	None
HSCHR6_MHC_QBL	DDAH2	ENSG00000206395	ENST00000466207	processed_transcript	KNOWN	None	2716	None	None	31685048	31688237	-1	None	None
HSCHR6_MHC_QBL	DDAH2	ENSG00000206395	ENST00000486346	processed_transcript	KNOWN	None	2716	None	None	31685048	31688272	-1	None	None
HSCHR6_MHC_QBL	DDAH2	ENSG00000206395	ENST00000383409	protein_coding	KNOWN	None	2716	858	285	31685048	31688273	-1	None	None
HSCHR6_MHC_QBL	DDAH2	ENSG00000206395	ENST00000400063	protein_coding	KNOWN	None	2716	858	285	31685048	31688627	-1	None	None
HSCHR6_MHC_QBL	DDAH2	ENSG00000206395	ENST00000439767	protein_coding	KNOWN	None	2716	709	235	31685585	31687806	-1	None	None
HSCHR6_MHC_QBL	DDAH2	ENSG00000206395	ENST00000444060	protein_coding	KNOWN	None	2716	676	224	31685618	31687511	-1	None	None
HSCHR6_MHC_QBL	DDAH2	ENSG00000206395	ENST00000483514	retained_intron	KNOWN	None	2716	None	None	31686191	31688255	-1	None	None
10	None	ENSG00000270235	ENST00000605518	lincRNA	KNOWN	None	None	None	None	135137576	135138249	-1	None	None
8	None	ENSG00000254275	ENST00000520206	lincRNA	KNOWN	None	None	None	None	129417515	129440162	-1	None	None
8	None	ENSG00000254275	ENST00000517583	lincRNA	KNOWN	None	None	None	None	129418507	129427627	-1	None	None
8	None	ENSG00000254275	ENST00000520766	lincRNA	KNOWN	None	None	None	None	129432958	129573372	-1	None	None
8	None	ENSG00000254275	ENST00000523173	lincRNA	KNOWN	None	None	None	None	129571269	129573372	-1	None	None
8	None	ENSG00000254275	ENST00000520824	retained_intron	KNOWN	None	None	None	None	129571960	129573372	-1	None	None
8	None	ENSG00000254275	ENST00000518044	lincRNA	KNOWN	None	None	None	None	129573252	129576925	-1	None	None
10	SLC9A3P4	ENSG00000237393	ENST00000379351	processed_pseudogene	KNOWN	None	33493	None	None	47965760	47967323	1	None	None
18	None	ENSG00000264150	ENST00000579765	processed_pseudogene	KNOWN	None	None	None	None	2568391	2569121	1	None	None
10	BANF1P2	ENSG00000230306	ENST00000430526	processed_pseudogene	KNOWN	None	23426	None	None	135158147	135158410	-1	BANF1L1	bA122K13.8
9	IFNA7	ENSG00000214042	ENST00000239347	protein_coding	KNOWN	CCDS34995	5428	570	189	21201468	21202204	-1	None	IFNA-J, IFN-alphaJ
7	ORC5	ENSG00000164815	ENST00000297431	protein_coding	KNOWN	CCDS5734	8491	1308	435	103766788	103848495	-1	ORC5L	Orc5p, ORC5T
7	ORC5	ENSG00000164815	ENST00000422497	nonsense_mediated_decay	KNOWN	None	8491	201	66	103766790	103848448	-1	ORC5L	Orc5p, ORC5T
7	ORC5	ENSG00000164815	ENST00000477223	retained_intron	KNOWN	None	8491	None	None	103767285	103806182	-1	ORC5L	Orc5p, ORC5T
7	ORC5	ENSG00000164815	ENST00000447452	protein_coding	PUTATIVE	CCDS47681	8491	975	324	103808442	103848405	-1	ORC5L	Orc5p, ORC5T
7	ORC5	ENSG00000164815	ENST00000463152	processed_transcript	KNOWN	None	8491	None	None	103824668	103838215	-1	ORC5L	Orc5p, ORC5T
7	ORC5	ENSG00000164815	ENST00000485726	processed_transcript	KNOWN	None	8491	None	None	103827991	103848457	-1	ORC5L	Orc5p, ORC5T
7	ORC5	ENSG00000164815	ENST00000448563	nonsense_mediated_decay	KNOWN	None	8491	201	66	103841269	103848448	-1	ORC5L	Orc5p, ORC5T
7	ORC5	ENSG00000164815	ENST00000545943	protein_coding	KNOWN	None	8491	912	303	103766790	103848448	-1	ORC5L	Orc5p, ORC5T
6	None	ENSG00000243501	ENST00000423730	nonsense_mediated_decay	KNOWN	None	None	516	171	73919469	73972919	-1	None	None
18	None	ENSG00000235422	ENST00000443475	processed_pseudogene	KNOWN	None	None	None	None	2593673	2594912	-1	None	None
17	TSEN54	ENSG00000182173	ENST00000434205	protein_coding	PUTATIVE	None	27561	218	71	73512141	73515128	1	None	SEN54, SEN54L
17	TSEN54	ENSG00000182173	ENST00000333213	protein_coding	KNOWN	CCDS11724	27561	1581	526	73512606	73520820	1	None	SEN54, SEN54L
17	TSEN54	ENSG00000182173	ENST00000583454	retained_intron	KNOWN	None	27561	None	None	73512607	73513556	1	None	SEN54, SEN54L
17	TSEN54	ENSG00000182173	ENST00000580013	processed_transcript	KNOWN	None	27561	None	None	73512617	73517519	1	None	SEN54, SEN54L
17	TSEN54	ENSG00000182173	ENST00000583173	nonsense_mediated_decay	KNOWN	None	27561	537	178	73512642	73519368	1	None	SEN54, SEN54L
17	TSEN54	ENSG00000182173	ENST00000583818	nonsense_mediated_decay	KNOWN	None	27561	429	142	73512876	73517978	1	None	SEN54, SEN54L
17	TSEN54	ENSG00000182173	ENST00000578415	nonsense_mediated_decay	KNOWN	None	27561	502	166	73512893	73518196	1	None	SEN54, SEN54L
17	TSEN54	ENSG00000182173	ENST00000583634	retained_intron	KNOWN	None	27561	None	None	73513051	73513732	1	None	SEN54, SEN54L
17	TSEN54	ENSG00000182173	ENST00000545228	protein_coding	PUTATIVE	None	27561	778	258	73518074	73520774	1	None	SEN54, SEN54L
17	TSEN54	ENSG00000182173	ENST00000579449	retained_intron	KNOWN	None	27561	None	None	73518907	73520501	1	None	SEN54, SEN54L
17	TSEN54	ENSG00000182173	ENST00000577197	retained_intron	KNOWN	None	27561	None	None	73519683	73520814	1	None	SEN54, SEN54L
1	GORAB	ENSG00000120370	ENST00000367763	protein_coding	KNOWN	CCDS1289	25676	1185	394	170501270	170522587	1	SCYL1BP1	FLJ11752, NTKL-BP1, GO
1	GORAB	ENSG00000120370	ENST00000367762	protein_coding	KNOWN	CCDS53428	25676	741	246	170501272	170514930	1	SCYL1BP1	FLJ11752, NTKL-BP1, GO
1	GORAB	ENSG00000120370	ENST00000498166	nonsense_mediated_decay	KNOWN	None	25676	379	125	170501292	170522587	1	SCYL1BP1	FLJ11752, NTKL-BP1, GO
1	GORAB	ENSG00000120370	ENST00000465717	processed_transcript	KNOWN	None	25676	None	None	170505416	170508800	1	SCYL1BP1	FLJ11752, NTKL-BP1, GO
1	GORAB	ENSG00000120370	ENST00000498600	retained_intron	KNOWN	None	25676	None	None	170508203	170522587	1	SCYL1BP1	FLJ11752, NTKL-BP1, GO
1	GORAB	ENSG00000120370	ENST00000475113	retained_intron	KNOWN	None	25676	None	None	170513781	170521417	1	SCYL1BP1	FLJ11752, NTKL-BP1, GO
18	None	ENSG00000202224	ENST00000365354	misc_RNA	NOVEL	None	None	None	None	2621089	2621200	1	None	None
10	None	ENSG00000226699	ENST00000452591	antisense	KNOWN	None	None	None	None	135159258	135164230	-1	None	None
18	RNU6-340P	ENSG00000200875	ENST00000364005	snRNA	KNOWN	None	47303	None	None	2649760	2649866	-1	None	None
9	IFNA10	ENSG00000186803	ENST00000357374	protein_coding	KNOWN	CCDS6499	5418	570	189	21206180	21207142	-1	None	IFN-alphaC
10	MIR3944	ENSG00000265395	ENST00000581277	miRNA	KNOWN	None	38898	None	None	135185060	135185167	-1	None	hsa-mir-3944
19	KIRREL2	ENSG00000126259	ENST00000586102	protein_coding	KNOWN	None	18816	2067	688	36346763	36358048	1	None	NLG1, NEPH3, FILTRIN, DKFZp564A1164, MGC15718
19	KIRREL2	ENSG00000126259	ENST00000592409	protein_coding	NOVEL	None	18816	2022	673	36347489	36357402	1	None	NLG1, NEPH3, FILTRIN, DKFZp564A1164, MGC15718
19	KIRREL2	ENSG00000126259	ENST00000347900	protein_coding	KNOWN	CCDS12480	18816	1752	583	36347812	36357491	1	None	NLG1, NEPH3, FILTRIN, DKFZp564A1164, MGC15718
19	KIRREL2	ENSG00000126259	ENST00000360202	protein_coding	KNOWN	CCDS12481	18816	2127	708	36347824	36358011	1	None	NLG1, NEPH3, FILTRIN, DKFZp564A1164, MGC15718
19	KIRREL2	ENSG00000126259	ENST00000262625	protein_coding	KNOWN	CCDS12479	18816	1902	633	36348008	36357491	1	None	NLG1, NEPH3, FILTRIN, DKFZp564A1164, MGC15718
18	CBX3P2	ENSG00000266405	ENST00000579647	processed_transcript	KNOWN	None	42874	None	None	2652169	2655394	-1	None	None
18	CBX3P2	ENSG00000266405	ENST00000583365	transcribed_processed_pseudogene	KNOWN	None	42874	None	None	2652724	2653258	-1	None	None
18	CBX3P2	ENSG00000266405	ENST00000597101	processed_pseudogene	KNOWN	None	42874	None	None	2653094	2653183	-1	None	None
2	WDR33	ENSG00000136709	ENST00000322313	protein_coding	KNOWN	CCDS2150	25651	4011	1336	128458596	128568721	-1	None	FLJ11294, WDC146, NET14
2	WDR33	ENSG00000136709	ENST00000436787	protein_coding	PUTATIVE	None	25651	616	204	128484226	128568761	-1	None	FLJ11294, WDC146, NET14
2	WDR33	ENSG00000136709	ENST00000393006	protein_coding	KNOWN	CCDS42746	25651	774	257	128492962	128568745	-1	None	FLJ11294, WDC146, NET14
2	WDR33	ENSG00000136709	ENST00000409658	protein_coding	KNOWN	CCDS46407	25651	981	326	128520107	128568745	-1	None	FLJ11294, WDC146, NET14
2	WDR33	ENSG00000136709	ENST00000408998	protein_coding	KNOWN	None	25651	355	117	128525786	128568527	-1	None	FLJ11294, WDC146, NET14
10	None	ENSG00000238991	ENST00000458840	snoRNA	NOVEL	None	None	None	None	90820788	90820888	-1	None	None
9	IFNA16	ENSG00000147885	ENST00000380216	protein_coding	KNOWN	CCDS34996	5421	570	189	21216372	21217310	-1	None	IFN-alphaO
10	MIR4679-1	ENSG00000265375	ENST00000578358	miRNA	KNOWN	None	41612	None	None	90823092	90823168	-1	None	hsa-mir-4679-1
10	MIR4679-2	ENSG00000265375	ENST00000578358	miRNA	KNOWN	None	41890	None	None	90823092	90823168	-1	None	hsa-mir-4679-2
18	None	ENSG00000266049	ENST00000583546	antisense	KNOWN	None	None	None	None	2688562	2832921	-1	None	None
18	None	ENSG00000266049	ENST00000581172	processed_transcript	PUTATIVE	None	None	None	None	2822353	2833063	-1	None	None
10	None	ENSG00000233292	ENST00000453728	processed_pseudogene	KNOWN	None	None	None	None	90898801	90899215	1	None	None
18	None	ENSG00000238425	ENST00000459147	snoRNA	NOVEL	None	None	None	None	2774872	2774961	1	None	None
6	DLK2	ENSG00000171462	ENST00000430324	protein_coding	KNOWN	None	21113	869	288	43418090	43420823	-1	EGFL9	MGC2487
6	DLK2	ENSG00000171462	ENST00000372485	protein_coding	KNOWN	None	21113	1134	377	43418090	43423328	-1	EGFL9	MGC2487
6	DLK2	ENSG00000171462	ENST00000372488	protein_coding	KNOWN	CCDS4897	21113	1152	383	43418090	43423328	-1	EGFL9	MGC2487
6	DLK2	ENSG00000171462	ENST00000357338	protein_coding	KNOWN	CCDS4897	21113	1152	383	43418092	43424370	-1	EGFL9	MGC2487
6	DLK2	ENSG00000171462	ENST00000414245	protein_coding	KNOWN	None	21113	1134	377	43418092	43424370	-1	EGFL9	MGC2487
19	FUT3	ENSG00000171124	ENST00000458379	protein_coding	KNOWN	CCDS12153	4014	1086	361	5842899	5851460	-1	LE	CD174
19	FUT3	ENSG00000171124	ENST00000589918	protein_coding	KNOWN	CCDS12153	4014	1086	361	5842902	5851482	-1	LE	CD174
19	FUT3	ENSG00000171124	ENST00000303225	protein_coding	KNOWN	CCDS12153	4014	1086	361	5842902	5851482	-1	LE	CD174
19	FUT3	ENSG00000171124	ENST00000589620	protein_coding	KNOWN	CCDS12153	4014	1086	361	5842902	5851485	-1	LE	CD174
19	FUT3	ENSG00000171124	ENST00000589714	protein_coding	KNOWN	None	4014	321	106	5844530	5851460	-1	LE	CD174
19	FUT3	ENSG00000171124	ENST00000587048	protein_coding	KNOWN	None	4014	300	99	5844551	5848916	-1	LE	CD174
19	FUT3	ENSG00000171124	ENST00000585715	protein_coding	KNOWN	None	4014	133	43	5844718	5847045	-1	LE	CD174
19	FUT3	ENSG00000171124	ENST00000587183	protein_coding	KNOWN	None	4014	14	3	5844837	5848782	-1	LE	CD174
19	FUT3	ENSG00000171124	ENST00000593144	processed_transcript	KNOWN	None	4014	None	None	5846576	5848912	-1	LE	CD174
19	FUT3	ENSG00000171124	ENST00000588539	processed_transcript	KNOWN	None	4014	None	None	5846818	5850330	-1	LE	CD174
20	KCNK15	ENSG00000124249	ENST00000372861	protein_coding	KNOWN	CCDS13337	13814	993	330	43374421	43379675	1	KCNK11, KCNK14	K2p15.1, dJ781B1.1, KT3.3, KIAA0237, TASK5, TASK-5
18	None	ENSG00000207034	ENST00000384307	misc_RNA	NOVEL	None	None	None	None	2778939	2779055	1	None	None
10	None	ENSG00000214279	ENST00000482993	retained_intron	KNOWN	None	None	None	None	135267432	135281953	1	None	None
10	None	ENSG00000214279	ENST00000463137	retained_intron	KNOWN	None	None	None	None	135267450	135282687	1	None	None
10	None	ENSG00000214279	ENST00000438496	unitary_pseudogene	KNOWN	None	None	None	None	135267502	135271096	1	None	None
10	None	ENSG00000214279	ENST00000488261	retained_intron	KNOWN	None	None	None	None	135269741	135337062	1	None	None
10	None	ENSG00000214279	ENST00000462252	retained_intron	KNOWN	None	None	None	None	135277736	135282495	1	None	None
10	None	ENSG00000214279	ENST00000475114	retained_intron	KNOWN	None	None	None	None	135280478	135281916	1	None	None
10	None	ENSG00000214279	ENST00000356567	unitary_pseudogene	KNOWN	None	None	None	None	135269739	135337062	1	None	None
9	IFNA17	ENSG00000234829	ENST00000413767	protein_coding	KNOWN	CCDS6500	5422	570	189	21227242	21228221	-1	None	LEIF2C1, IFN-alphaI
18	None	ENSG00000263606	ENST00000582850	transcribed_processed_pseudogene	KNOWN	None	None	None	None	2945548	2946532	-1	None	None
18	None	ENSG00000263606	ENST00000581139	processed_transcript	KNOWN	None	None	None	None	2945625	2946888	-1	None	None
12	LRIG3	ENSG00000139263	ENST00000379141	protein_coding	KNOWN	CCDS44933	30991	3180	1059	59265931	59313327	-1	None	FLJ90440, KIAA3016
12	LRIG3	ENSG00000139263	ENST00000320743	protein_coding	KNOWN	CCDS8960	30991	3360	1119	59265931	59314303	-1	None	FLJ90440, KIAA3016
12	LRIG3	ENSG00000139263	ENST00000433272	nonsense_mediated_decay	KNOWN	None	30991	1872	623	59266330	59314215	-1	None	FLJ90440, KIAA3016
12	LRIG3	ENSG00000139263	ENST00000550825	protein_coding	PUTATIVE	None	30991	490	162	59267333	59268354	-1	None	FLJ90440, KIAA3016
12	LRIG3	ENSG00000139263	ENST00000552646	retained_intron	KNOWN	None	30991	None	None	59267835	59271276	-1	None	FLJ90440, KIAA3016
12	LRIG3	ENSG00000139263	ENST00000547329	retained_intron	KNOWN	None	30991	None	None	59274142	59276668	-1	None	FLJ90440, KIAA3016
12	LRIG3	ENSG00000139263	ENST00000550304	retained_intron	KNOWN	None	30991	None	None	59279662	59280817	-1	None	FLJ90440, KIAA3016
12	LRIG3	ENSG00000139263	ENST00000552267	protein_coding	PUTATIVE	None	30991	469	155	59282656	59308364	-1	None	FLJ90440, KIAA3016
12	LRIG3	ENSG00000139263	ENST00000548968	retained_intron	KNOWN	None	30991	None	None	59307276	59313937	-1	None	FLJ90440, KIAA3016
3	CPN2	ENSG00000178772	ENST00000323830	protein_coding	KNOWN	CCDS33920	2313	1638	545	194060494	194072057	-1	ACBP	None
3	CPN2	ENSG00000178772	ENST00000429275	protein_coding	KNOWN	CCDS33920	2313	1638	545	194061501	194072047	-1	ACBP	None
18	None	ENSG00000265907	ENST00000581488	antisense	KNOWN	None	None	None	None	2948236	2950676	1	None	None
18	None	ENSG00000265907	ENST00000584431	antisense	KNOWN	None	None	None	None	2948339	2960754	1	None	None
19	C19orf25	ENSG00000119559	ENST00000588427	protein_coding	PUTATIVE	None	26711	216	71	1461142	1479200	-1	None	FLJ36666
19	C19orf25	ENSG00000119559	ENST00000436106	protein_coding	KNOWN	CCDS45898	26711	357	118	1473200	1479555	-1	None	FLJ36666
19	C19orf25	ENSG00000119559	ENST00000588871	protein_coding	PUTATIVE	None	26711	483	160	1473203	1479193	-1	None	FLJ36666
19	C19orf25	ENSG00000119559	ENST00000427685	protein_coding	NOVEL	None	26711	477	158	1474154	1479215	-1	None	FLJ36666
19	C19orf25	ENSG00000119559	ENST00000592486	retained_intron	KNOWN	None	26711	None	None	1474171	1476484	-1	None	FLJ36666
19	C19orf25	ENSG00000119559	ENST00000588849	protein_coding	PUTATIVE	None	26711	261	86	1474185	1478915	-1	None	FLJ36666
19	C19orf25	ENSG00000119559	ENST00000586564	protein_coding	KNOWN	CCDS45898	26711	357	118	1474195	1479117	-1	None	FLJ36666
19	C19orf25	ENSG00000119559	ENST00000590621	protein_coding	NOVEL	None	26711	332	109	1474478	1478896	-1	None	FLJ36666
19	C19orf25	ENSG00000119559	ENST00000592872	protein_coding	KNOWN	CCDS45898	26711	357	118	1474883	1479182	-1	None	FLJ36666
19	C19orf25	ENSG00000119559	ENST00000585675	protein_coding	KNOWN	CCDS45898	26711	357	118	1474884	1479180	-1	None	FLJ36666
19	C19orf25	ENSG00000119559	ENST00000591027	processed_transcript	KNOWN	None	26711	None	None	1475903	1479212	-1	None	FLJ36666
19	C19orf25	ENSG00000119559	ENST00000592605	processed_transcript	KNOWN	None	26711	None	None	1478412	1479218	-1	None	FLJ36666
19	C19orf25	ENSG00000119559	ENST00000589421	retained_intron	KNOWN	None	26711	None	None	1478434	1479133	-1	None	FLJ36666
19	C19orf25	ENSG00000119559	ENST00000589529	protein_coding	KNOWN	None	26711	130	42	1478773	1479176	-1	None	FLJ36666
9	IFNA14	ENSG00000228083	ENST00000380222	protein_coding	KNOWN	CCDS6501	5420	570	189	21239201	21239978	-1	None	LEIF2H, IFN-alphaH
14	NFATC4	ENSG00000100968	ENST00000440487	processed_transcript	KNOWN	None	7778	None	None	24834879	24841022	1	None	NFAT3
14	NFATC4	ENSG00000100968	ENST00000413692	protein_coding	KNOWN	CCDS45089	7778	2895	964	24836117	24848810	1	None	NFAT3
14	NFATC4	ENSG00000100968	ENST00000554591	protein_coding	KNOWN	CCDS55909	7778	2574	857	24836145	24847114	1	None	NFAT3
14	NFATC4	ENSG00000100968	ENST00000556957	retained_intron	KNOWN	None	7778	None	None	24836466	24843351	1	None	NFAT3
14	NFATC4	ENSG00000100968	ENST00000555590	protein_coding	KNOWN	None	7778	2748	915	24836466	24846911	1	None	NFAT3
14	NFATC4	ENSG00000100968	ENST00000554966	protein_coding	KNOWN	None	7778	2424	807	24836466	24846911	1	None	NFAT3
14	NFATC4	ENSG00000100968	ENST00000424781	protein_coding	KNOWN	None	7778	2745	914	24836466	24848810	1	None	NFAT3
14	NFATC4	ENSG00000100968	ENST00000539237	protein_coding	KNOWN	None	7778	2802	933	24836570	24848810	1	None	NFAT3
14	NFATC4	ENSG00000100968	ENST00000556279	protein_coding	KNOWN	None	7778	2805	934	24836674	24846911	1	None	NFAT3
14	NFATC4	ENSG00000100968	ENST00000553469	protein_coding	KNOWN	None	7778	2481	826	24836708	24846911	1	None	NFAT3
14	NFATC4	ENSG00000100968	ENST00000554050	protein_coding	KNOWN	CCDS55910	7778	2385	794	24837226	24847262	1	None	NFAT3
14	NFATC4	ENSG00000100968	ENST00000554655	retained_intron	KNOWN	None	7778	None	None	24837254	24846923	1	None	NFAT3
14	NFATC4	ENSG00000100968	ENST00000554903	protein_coding	KNOWN	None	7778	430	142	24837276	24839034	1	None	NFAT3
14	NFATC4	ENSG00000100968	ENST00000554779	protein_coding	PUTATIVE	None	7778	418	138	24837392	24841792	1	None	NFAT3
14	NFATC4	ENSG00000100968	ENST00000557028	retained_intron	KNOWN	None	7778	None	None	24837392	24843913	1	None	NFAT3
14	NFATC4	ENSG00000100968	ENST00000250373	protein_coding	KNOWN	CCDS9629	7778	2709	902	24837406	24848810	1	None	NFAT3
14	NFATC4	ENSG00000100968	ENST00000553708	protein_coding	KNOWN	None	7778	2706	901	24837547	24848810	1	None	NFAT3
14	NFATC4	ENSG00000100968	ENST00000557674	protein_coding	PUTATIVE	None	7778	590	195	24838205	24839263	1	None	NFAT3
14	NFATC4	ENSG00000100968	ENST00000553879	protein_coding	KNOWN	CCDS55911	7778	2499	832	24838288	24846934	1	None	NFAT3
14	NFATC4	ENSG00000100968	ENST00000554344	protein_coding	KNOWN	CCDS55911	7778	2499	832	24838359	24846911	1	None	NFAT3
14	NFATC4	ENSG00000100968	ENST00000554661	protein_coding	KNOWN	None	7778	2175	724	24838359	24846911	1	None	NFAT3
14	NFATC4	ENSG00000100968	ENST00000556169	protein_coding	KNOWN	None	7778	2349	782	24838359	24846911	1	None	NFAT3
14	NFATC4	ENSG00000100968	ENST00000557451	protein_coding	KNOWN	None	7778	2496	831	24838359	24848810	1	None	NFAT3
14	NFATC4	ENSG00000100968	ENST00000422617	protein_coding	KNOWN	None	7778	2670	889	24838359	24848810	1	None	NFAT3
14	NFATC4	ENSG00000100968	ENST00000555453	protein_coding	KNOWN	None	7778	2673	890	24838373	24847261	1	None	NFAT3
14	NFATC4	ENSG00000100968	ENST00000556302	retained_intron	KNOWN	None	7778	None	None	24838451	24845214	1	None	NFAT3
14	NFATC4	ENSG00000100968	ENST00000554473	protein_coding	KNOWN	None	7778	990	329	24842021	24846911	1	None	NFAT3
14	NFATC4	ENSG00000100968	ENST00000556759	protein_coding	KNOWN	None	7778	1314	437	24842021	24847230	1	None	NFAT3
14	NFATC4	ENSG00000100968	ENST00000555167	protein_coding	KNOWN	None	7778	1311	436	24842021	24848810	1	None	NFAT3
14	NFATC4	ENSG00000100968	ENST00000557767	protein_coding	KNOWN	None	7778	249	82	24843329	24846911	1	None	NFAT3
14	NFATC4	ENSG00000100968	ENST00000555393	protein_coding	KNOWN	None	7778	570	189	24843329	24847207	1	None	NFAT3
14	NFATC4	ENSG00000100968	ENST00000555802	protein_coding	KNOWN	None	7778	573	190	24843329	24847207	1	None	NFAT3
14	NFATC4	ENSG00000100968	ENST00000555821	processed_transcript	PUTATIVE	None	7778	None	None	24845280	24847262	1	None	NFAT3
18	None	ENSG00000266397	ENST00000582591	antisense	KNOWN	None	None	None	None	2967016	2985408	1	None	None
9	IFNA5	ENSG00000147873	ENST00000259555	protein_coding	KNOWN	CCDS6502	5426	570	189	21304613	21305312	-1	None	IFN-alphaG
HSCHR6_MHC_APD	PSMB8	ENSG00000230669	ENST00000492195	retained_intron	KNOWN	None	9545	None	None	32792101	32793418	-1	LMP7	RING10, D6S216E, PSMB5i, beta5i
HSCHR6_MHC_APD	PSMB8	ENSG00000230669	ENST00000446855	protein_coding	KNOWN	None	9545	759	252	32792101	32795404	-1	LMP7	RING10, D6S216E, PSMB5i, beta5i
HSCHR6_MHC_APD	PSMB8	ENSG00000230669	ENST00000455660	protein_coding	KNOWN	None	9545	831	276	32792101	32795431	-1	LMP7	RING10, D6S216E, PSMB5i, beta5i
HSCHR6_MHC_APD	PSMB8	ENSG00000230669	ENST00000436627	protein_coding	KNOWN	None	9545	819	272	32792101	32796087	-1	LMP7	RING10, D6S216E, PSMB5i, beta5i
HSCHR6_MHC_APD	PSMB8	ENSG00000230669	ENST00000474687	retained_intron	KNOWN	None	9545	None	None	32792405	32796035	-1	LMP7	RING10, D6S216E, PSMB5i, beta5i
7	PHBP5	ENSG00000233523	ENST00000449310	processed_pseudogene	KNOWN	None	39284	None	None	72602009	72602776	-1	None	None
11	FIBP	ENSG00000172500	ENST00000534032	retained_intron	KNOWN	None	3705	None	None	65651212	65653043	-1	None	FGFIBP
11	FIBP	ENSG00000172500	ENST00000338369	protein_coding	KNOWN	CCDS8119	3705	1095	364	65651392	65656002	-1	None	FGFIBP
11	FIBP	ENSG00000172500	ENST00000357519	protein_coding	KNOWN	CCDS8118	3705	1074	357	65651392	65656010	-1	None	FGFIBP
11	FIBP	ENSG00000172500	ENST00000525765	retained_intron	KNOWN	None	3705	None	None	65651394	65653100	-1	None	FGFIBP
11	FIBP	ENSG00000172500	ENST00000531115	nonsense_mediated_decay	KNOWN	None	3705	413	136	65651396	65653051	-1	None	FGFIBP
11	FIBP	ENSG00000172500	ENST00000533045	protein_coding	PUTATIVE	None	3705	1047	348	65651419	65655985	-1	None	FGFIBP
11	FIBP	ENSG00000172500	ENST00000533037	nonsense_mediated_decay	KNOWN	None	3705	441	146	65651480	65655961	-1	None	FGFIBP
11	FIBP	ENSG00000172500	ENST00000532934	retained_intron	KNOWN	None	3705	None	None	65652383	65653181	-1	None	FGFIBP
11	FIBP	ENSG00000172500	ENST00000532229	nonsense_mediated_decay	KNOWN	None	3705	441	146	65652406	65655907	-1	None	FGFIBP
11	FIBP	ENSG00000172500	ENST00000532679	retained_intron	KNOWN	None	3705	None	None	65652802	65655932	-1	None	FGFIBP
11	FIBP	ENSG00000172500	ENST00000426652	processed_transcript	KNOWN	None	3705	None	None	65653578	65655932	-1	None	FGFIBP
11	FIBP	ENSG00000172500	ENST00000528937	retained_intron	KNOWN	None	3705	None	None	65654199	65655984	-1	None	FGFIBP
11	FIBP	ENSG00000172500	ENST00000442885	retained_intron	KNOWN	None	3705	None	None	65654801	65655981	-1	None	FGFIBP
19	None	ENSG00000271049	ENST00000603701	processed_pseudogene	KNOWN	None	None	None	None	35125749	35126622	1	None	None
20	MIR941-1	ENSG00000215946	ENST00000401127	miRNA	KNOWN	None	33684	None	None	62551365	62551481	1	MIRN941-1	hsa-mir-941-1
18	None	ENSG00000264186	ENST00000583992	processed_pseudogene	KNOWN	None	None	None	None	2990650	2991076	1	None	None
19	None	ENSG00000252230	ENST00000516421	snoRNA	NOVEL	None	None	None	None	35128601	35128686	-1	None	None
19	None	ENSG00000268683	ENST00000599404	sense_intronic	KNOWN	None	None	None	None	35129027	35131594	-1	None	None
18	None	ENSG00000252258	ENST00000516449	snoRNA	NOVEL	None	None	None	None	3025432	3025564	-1	None	None
20	RSPO4	ENSG00000101282	ENST00000217260	protein_coding	KNOWN	CCDS42846	16175	705	234	939095	982904	-1	C20orf182	dJ824F16.3
20	RSPO4	ENSG00000101282	ENST00000400634	protein_coding	KNOWN	CCDS42845	16175	519	172	940897	982907	-1	C20orf182	dJ824F16.3
19	SCGB2B3P	ENSG00000269811	ENST00000599388	processed_pseudogene	KNOWN	None	31895	None	None	35136567	35136975	1	None	C2B, SCGB4A3P
9	KLHL9	ENSG00000198642	ENST00000359039	protein_coding	KNOWN	CCDS6503	18732	1854	617	21329670	21335379	-1	None	KIAA1354, FLJ13568
9	KLHL9	ENSG00000198642	ENST00000537938	protein_coding	KNOWN	None	18732	1650	549	21331545	21335240	-1	None	KIAA1354, FLJ13568
20	RIMS4	ENSG00000101098	ENST00000372851	protein_coding	KNOWN	CCDS13338	16183	810	269	43380449	43438979	-1	C20orf190	dJ781B1.3
20	RIMS4	ENSG00000101098	ENST00000541604	protein_coding	KNOWN	CCDS56191	16183	813	270	43384552	43438912	-1	C20orf190	dJ781B1.3
19	None	ENSG00000256383	ENST00000536682	pseudogene	KNOWN	None	None	None	None	35166998	35168486	-1	None	None
14	TRAJ17	ENSG00000211872	ENST00000390520	TR_J_gene	KNOWN	None	12045	63	20	22995812	22995874	1	None	None
19	None	ENSG00000221115	ENST00000408188	miRNA	NOVEL	None	None	None	None	35213329	35213429	-1	None	None
19	None	ENSG00000270281	ENST00000603635	processed_pseudogene	KNOWN	None	None	None	None	35270316	35270925	-1	None	None
HSCHR6_MHC_MCF	None	ENSG00000264003	ENST00000579825	miRNA	NOVEL	None	None	None	None	30135099	30135231	-1	None	None
8	SCXB	ENSG00000187786	ENST00000340210	protein_coding	KNOWN	CCDS43779	32322	606	201	145321517	145323045	1	None	bHLHa48
HSCHR6_MHC_MCF	TRIM31-AS1	ENSG00000225038	ENST00000458115	processed_transcript	KNOWN	None	39761	None	None	30151503	30160985	1	None	None
22	PI4KAP2	ENSG00000183506	ENST00000486209	retained_intron	KNOWN	None	33577	None	None	21827289	21838423	-1	None	None
22	PI4KAP2	ENSG00000183506	ENST00000470274	retained_intron	KNOWN	None	33577	None	None	21827298	21831432	-1	None	None
22	PI4KAP2	ENSG00000183506	ENST00000477296	retained_intron	KNOWN	None	33577	None	None	21827298	21831506	-1	None	None
22	PI4KAP2	ENSG00000183506	ENST00000463608	retained_intron	KNOWN	None	33577	None	None	21827300	21838423	-1	None	None
22	PI4KAP2	ENSG00000183506	ENST00000462560	retained_intron	KNOWN	None	33577	None	None	21827312	21842671	-1	None	None
22	PI4KAP2	ENSG00000183506	ENST00000450651	processed_transcript	KNOWN	None	33577	None	None	21827324	21871822	-1	None	None
22	PI4KAP2	ENSG00000183506	ENST00000360806	transcribed_unprocessed_pseudogene	KNOWN	None	33577	None	None	21827348	21871822	-1	None	None
22	PI4KAP2	ENSG00000183506	ENST00000494740	retained_intron	KNOWN	None	33577	None	None	21827365	21842196	-1	None	None
22	PI4KAP2	ENSG00000183506	ENST00000480319	retained_intron	KNOWN	None	33577	None	None	21831669	21844900	-1	None	None
22	PI4KAP2	ENSG00000183506	ENST00000467443	retained_intron	KNOWN	None	33577	None	None	21831669	21868544	-1	None	None
22	PI4KAP2	ENSG00000183506	ENST00000479693	retained_intron	KNOWN	None	33577	None	None	21831702	21871809	-1	None	None
22	PI4KAP2	ENSG00000183506	ENST00000491562	retained_intron	KNOWN	None	33577	None	None	21846265	21868512	-1	None	None
22	PI4KAP2	ENSG00000183506	ENST00000476537	retained_intron	KNOWN	None	33577	None	None	21846265	21871770	-1	None	None
22	PI4KAP2	ENSG00000183506	ENST00000546263	unprocessed_pseudogene	KNOWN	None	33577	None	None	21827643	21842649	-1	None	None
16	None	ENSG00000260057	ENST00000569993	lincRNA	KNOWN	None	None	None	None	51796430	51806557	1	None	None
16	None	ENSG00000260057	ENST00000563603	lincRNA	KNOWN	None	None	None	None	51805474	51807084	1	None	None
19	None	ENSG00000267767	ENST00000587150	lincRNA	KNOWN	None	None	None	None	35282724	35307804	-1	None	None
19	None	ENSG00000267767	ENST00000590963	lincRNA	KNOWN	None	None	None	None	35307061	35323773	-1	None	None
3	MME	ENSG00000196549	ENST00000492661	protein_coding	KNOWN	CCDS3172	7154	2253	750	154741913	154898638	1	None	CALLA, CD10, NEP
3	MME	ENSG00000196549	ENST00000491597	retained_intron	KNOWN	None	7154	None	None	154797436	154803518	1	None	CALLA, CD10, NEP
3	MME	ENSG00000196549	ENST00000460393	protein_coding	KNOWN	CCDS3172	7154	2253	750	154797436	154901497	1	None	CALLA, CD10, NEP
3	MME	ENSG00000196549	ENST00000481828	protein_coding	KNOWN	None	7154	700	232	154797645	154836580	1	None	CALLA, CD10, NEP
3	MME	ENSG00000196549	ENST00000382989	protein_coding	PUTATIVE	None	7154	243	80	154797810	154808289	1	None	CALLA, CD10, NEP
3	MME	ENSG00000196549	ENST00000462745	protein_coding	KNOWN	CCDS3172	7154	2253	750	154797883	154899373	1	None	CALLA, CD10, NEP
3	MME	ENSG00000196549	ENST00000493237	protein_coding	KNOWN	CCDS3172	7154	2253	750	154797900	154898417	1	None	CALLA, CD10, NEP
3	MME	ENSG00000196549	ENST00000360490	protein_coding	KNOWN	CCDS3172	7154	2253	750	154798188	154898277	1	None	CALLA, CD10, NEP
3	MME	ENSG00000196549	ENST00000491026	protein_coding	KNOWN	None	7154	358	118	154798753	154832944	1	None	CALLA, CD10, NEP
3	MME	ENSG00000196549	ENST00000473730	protein_coding	KNOWN	None	7154	280	92	154799133	154832866	1	None	CALLA, CD10, NEP
3	MME	ENSG00000196549	ENST00000497890	protein_coding	KNOWN	None	7154	46	14	154801314	154802002	1	None	CALLA, CD10, NEP
3	MME	ENSG00000196549	ENST00000462837	protein_coding	KNOWN	None	7154	484	160	154801733	154834497	1	None	CALLA, CD10, NEP
3	MME	ENSG00000196549	ENST00000477669	processed_transcript	PUTATIVE	None	7154	None	None	154830083	154832936	1	None	CALLA, CD10, NEP
3	MME	ENSG00000196549	ENST00000495577	retained_intron	KNOWN	None	7154	None	None	154878179	154886672	1	None	CALLA, CD10, NEP
3	MME	ENSG00000196549	ENST00000493888	retained_intron	KNOWN	None	7154	None	None	154889893	154898527	1	None	CALLA, CD10, NEP
7	IQUB	ENSG00000164675	ENST00000466202	protein_coding	KNOWN	CCDS5787	21995	2376	791	123092454	123173002	-1	None	FLJ35834
7	IQUB	ENSG00000164675	ENST00000324698	protein_coding	KNOWN	CCDS5787	21995	2376	791	123092459	123174718	-1	None	FLJ35834
7	IQUB	ENSG00000164675	ENST00000484508	nonsense_mediated_decay	KNOWN	None	21995	1791	596	123092509	123173002	-1	None	FLJ35834
7	IQUB	ENSG00000164675	ENST00000469057	nonsense_mediated_decay	KNOWN	None	21995	1266	421	123092752	123174617	-1	None	FLJ35834
7	IQUB	ENSG00000164675	ENST00000483567	retained_intron	KNOWN	None	21995	None	None	123141112	123175131	-1	None	FLJ35834
7	IQUB	ENSG00000164675	ENST00000488987	processed_transcript	KNOWN	None	21995	None	None	123142651	123174632	-1	None	FLJ35834
7	IQUB	ENSG00000164675	ENST00000434450	protein_coding	KNOWN	None	21995	1791	596	123102854	123174718	-1	None	FLJ35834
9	IFNA6	ENSG00000120235	ENST00000380210	protein_coding	KNOWN	CCDS6504	5427	570	189	21349834	21351377	-1	None	IFN-alphaK
7	NCF1B	ENSG00000182487	ENST00000432102	processed_transcript	KNOWN	None	32522	None	None	72634659	72644059	1	None	SH3PXD1B
7	NCF1B	ENSG00000182487	ENST00000423083	processed_transcript	KNOWN	None	32522	None	None	72634674	72649979	1	None	SH3PXD1B
7	NCF1B	ENSG00000182487	ENST00000435988	transcribed_unprocessed_pseudogene	KNOWN	None	32522	None	None	72634681	72649821	1	None	SH3PXD1B
7	NCF1B	ENSG00000182487	ENST00000338578	unprocessed_pseudogene	KNOWN	None	32522	None	None	72634611	72649978	1	None	SH3PXD1B
7	NCF1B	ENSG00000182487	ENST00000543901	unprocessed_pseudogene	KNOWN	None	32522	None	None	72634660	72644245	1	None	SH3PXD1B
7	NCF1B	ENSG00000182487	ENST00000541521	unprocessed_pseudogene	KNOWN	None	32522	None	None	72634659	72645880	1	None	SH3PXD1B
HSCHR6_MHC_MCF	None	ENSG00000263517	ENST00000584213	snoRNA	NOVEL	None	None	None	None	30179082	30179244	-1	None	None
1	AGL	ENSG00000162688	ENST00000361915	protein_coding	KNOWN	CCDS759	321	4599	1532	100315640	100389576	1	None	None
1	AGL	ENSG00000162688	ENST00000370165	protein_coding	KNOWN	CCDS759	321	4599	1532	100316045	100389576	1	None	None
1	AGL	ENSG00000162688	ENST00000370163	protein_coding	KNOWN	CCDS759	321	4599	1532	100316045	100389576	1	None	None
1	AGL	ENSG00000162688	ENST00000294724	protein_coding	KNOWN	CCDS759	321	4599	1532	100316045	100389576	1	None	None
1	AGL	ENSG00000162688	ENST00000361302	protein_coding	KNOWN	CCDS760	321	4551	1516	100316531	100389576	1	None	None
1	AGL	ENSG00000162688	ENST00000361522	protein_coding	KNOWN	CCDS761	321	4548	1515	100326766	100389576	1	None	None
1	AGL	ENSG00000162688	ENST00000477753	processed_transcript	KNOWN	None	321	None	None	100340026	100342153	1	None	None
1	AGL	ENSG00000162688	ENST00000370161	protein_coding	KNOWN	CCDS760	321	4551	1516	100318226	100389579	1	None	None
20	MIR1914	ENSG00000272045	ENST00000607800	miRNA	KNOWN	None	35398	None	None	62572818	62572897	-1	MIRN1914	hsa-mir-1914
9	IFNA13	ENSG00000233816	ENST00000449498	protein_coding	KNOWN	CCDS6505	5419	573	190	21367371	21368075	-1	None	None
3	NDUFB4	ENSG00000065518	ENST00000184266	protein_coding	KNOWN	CCDS2999	7699	390	129	120315156	120321347	1	None	B15
3	NDUFB4	ENSG00000065518	ENST00000485064	protein_coding	PUTATIVE	CCDS54630	7699	363	120	120315175	120321171	1	None	B15
3	NDUFB4	ENSG00000065518	ENST00000492739	protein_coding	NOVEL	None	7699	243	80	120315194	120321170	1	None	B15
3	NDUFB4	ENSG00000065518	ENST00000461682	nonsense_mediated_decay	KNOWN	None	7699	210	69	120315202	120320486	1	None	B15
3	NDUFB4	ENSG00000065518	ENST00000491335	nonsense_mediated_decay	KNOWN	None	7699	210	69	120315204	120321175	1	None	B15
3	NDUFB4	ENSG00000065518	ENST00000496588	retained_intron	KNOWN	None	7699	None	None	120319797	120321171	1	None	B15
7	SKAP2	ENSG00000005020	ENST00000345317	protein_coding	KNOWN	CCDS5400	15687	1080	359	26706681	26904362	-1	SCAP2	RA70, SKAP-HOM, SKAP55R, SAPS
7	SKAP2	ENSG00000005020	ENST00000489977	processed_transcript	KNOWN	None	15687	None	None	26729926	26782094	-1	SCAP2	RA70, SKAP-HOM, SKAP55R, SAPS
7	SKAP2	ENSG00000005020	ENST00000468712	retained_intron	KNOWN	None	15687	None	None	26766301	26897297	-1	SCAP2	RA70, SKAP-HOM, SKAP55R, SAPS
7	SKAP2	ENSG00000005020	ENST00000495802	processed_transcript	KNOWN	None	15687	None	None	26766508	26894770	-1	SCAP2	RA70, SKAP-HOM, SKAP55R, SAPS
7	SKAP2	ENSG00000005020	ENST00000432747	protein_coding	KNOWN	None	15687	379	125	26778459	27034858	-1	SCAP2	RA70, SKAP-HOM, SKAP55R, SAPS
7	SKAP2	ENSG00000005020	ENST00000490456	processed_transcript	KNOWN	None	15687	None	None	26779506	26897778	-1	SCAP2	RA70, SKAP-HOM, SKAP55R, SAPS
7	SKAP2	ENSG00000005020	ENST00000497511	processed_transcript	KNOWN	None	15687	None	None	26786186	26904206	-1	SCAP2	RA70, SKAP-HOM, SKAP55R, SAPS
7	SKAP2	ENSG00000005020	ENST00000481204	processed_transcript	KNOWN	None	15687	None	None	26883648	26904732	-1	SCAP2	RA70, SKAP-HOM, SKAP55R, SAPS
7	SKAP2	ENSG00000005020	ENST00000487720	processed_transcript	KNOWN	None	15687	None	None	26883649	26904204	-1	SCAP2	RA70, SKAP-HOM, SKAP55R, SAPS
7	SKAP2	ENSG00000005020	ENST00000539623	protein_coding	KNOWN	None	15687	564	187	26709048	26897239	-1	SCAP2	RA70, SKAP-HOM, SKAP55R, SAPS
15	WASH3P	ENSG00000185596	ENST00000559884	processed_transcript	KNOWN	None	24362	None	None	102501806	102506958	1	FAM39DP	FLJ25222
15	WASH3P	ENSG00000185596	ENST00000558686	processed_transcript	KNOWN	None	24362	None	None	102501807	102513428	1	FAM39DP	FLJ25222
15	WASH3P	ENSG00000185596	ENST00000559163	processed_transcript	KNOWN	None	24362	None	None	102501821	102513489	1	FAM39DP	FLJ25222
15	WASH3P	ENSG00000185596	ENST00000354296	processed_transcript	KNOWN	None	24362	None	None	102501821	102514142	1	FAM39DP	FLJ25222
15	WASH3P	ENSG00000185596	ENST00000557932	processed_transcript	KNOWN	None	24362	None	None	102506255	102516731	1	FAM39DP	FLJ25222
15	WASH3P	ENSG00000185596	ENST00000558784	processed_transcript	KNOWN	None	24362	None	None	102506270	102516746	1	FAM39DP	FLJ25222
15	WASH3P	ENSG00000185596	ENST00000560956	transcribed_unprocessed_pseudogene	KNOWN	None	24362	None	None	102506278	102516469	1	FAM39DP	FLJ25222
15	WASH3P	ENSG00000185596	ENST00000338304	unprocessed_pseudogene	KNOWN	None	24362	None	None	102501356	102516759	1	FAM39DP	FLJ25222
15	WASH3P	ENSG00000185596	ENST00000398121	unprocessed_pseudogene	KNOWN	None	24362	None	None	102501820	102516768	1	FAM39DP	FLJ25222
15	WASH3P	ENSG00000185596	ENST00000378819	unprocessed_pseudogene	KNOWN	None	24362	None	None	102506278	102516768	1	FAM39DP	FLJ25222
1	PRRX1	ENSG00000116132	ENST00000553786	processed_transcript	KNOWN	None	9142	None	None	170631869	170689044	1	PMX1	PHOX1
1	PRRX1	ENSG00000116132	ENST00000367760	protein_coding	KNOWN	CCDS1291	9142	654	217	170632275	170705649	1	PMX1	PHOX1
1	PRRX1	ENSG00000116132	ENST00000239461	protein_coding	KNOWN	CCDS1290	9142	738	245	170633047	170708560	1	PMX1	PHOX1
1	PRRX1	ENSG00000116132	ENST00000497230	protein_coding	PUTATIVE	None	9142	603	200	170633078	170698162	1	PMX1	PHOX1
1	PRRX1	ENSG00000116132	ENST00000476867	processed_transcript	KNOWN	None	9142	None	None	170691758	170705540	1	PMX1	PHOX1
1	PRRX1	ENSG00000116132	ENST00000495280	processed_transcript	KNOWN	None	9142	None	None	170691786	170705374	1	PMX1	PHOX1
1	PRRX1	ENSG00000116132	ENST00000485529	processed_transcript	PUTATIVE	None	9142	None	None	170699347	170705374	1	PMX1	PHOX1
1	PRRX1	ENSG00000116132	ENST00000496573	processed_transcript	PUTATIVE	None	9142	None	None	170699587	170705374	1	PMX1	PHOX1
9	DPP7	ENSG00000176978	ENST00000371579	protein_coding	KNOWN	CCDS7030	14892	1479	492	140004994	140009170	-1	None	DPPII
9	DPP7	ENSG00000176978	ENST00000470766	nonsense_mediated_decay	KNOWN	None	14892	185	60	140004998	140006667	-1	None	DPPII
9	DPP7	ENSG00000176978	ENST00000473532	nonsense_mediated_decay	KNOWN	None	14892	467	154	140004998	140008944	-1	None	DPPII
9	DPP7	ENSG00000176978	ENST00000463619	protein_coding	PUTATIVE	None	14892	733	243	140005058	140007564	-1	None	DPPII
9	DPP7	ENSG00000176978	ENST00000483783	retained_intron	KNOWN	None	14892	None	None	140005064	140007056	-1	None	DPPII
9	DPP7	ENSG00000176978	ENST00000472306	nonsense_mediated_decay	KNOWN	None	14892	362	119	140006451	140009143	-1	None	DPPII
9	DPP7	ENSG00000176978	ENST00000485456	retained_intron	KNOWN	None	14892	None	None	140006585	140009170	-1	None	DPPII
9	DPP7	ENSG00000176978	ENST00000460830	retained_intron	KNOWN	None	14892	None	None	140006830	140007701	-1	None	DPPII
9	DPP7	ENSG00000176978	ENST00000482088	retained_intron	KNOWN	None	14892	None	None	140007269	140007867	-1	None	DPPII
9	DPP7	ENSG00000176978	ENST00000478597	retained_intron	KNOWN	None	14892	None	None	140007415	140009178	-1	None	DPPII
9	DPP7	ENSG00000176978	ENST00000497375	protein_coding	PUTATIVE	None	14892	817	271	140007827	140009156	-1	None	DPPII
9	DPP7	ENSG00000176978	ENST00000491807	retained_intron	KNOWN	None	14892	None	None	140007886	140009155	-1	None	DPPII
9	DPP7	ENSG00000176978	ENST00000473703	protein_coding	PUTATIVE	None	14892	53	16	140007886	140009629	-1	None	DPPII
20	MIR647	ENSG00000207554	ENST00000384823	miRNA	KNOWN	None	32903	None	None	62573984	62574079	-1	MIRN647	hsa-mir-647
5	None	ENSG00000248794	ENST00000510537	processed_pseudogene	KNOWN	None	None	None	None	80538149	80538418	-1	None	None
10	AKR1C7P	ENSG00000215267	ENST00000305623	transcribed_unprocessed_pseudogene	KNOWN	None	44681	None	None	5317136	5330433	-1	None	None
10	AKR1C7P	ENSG00000215267	ENST00000432689	processed_transcript	KNOWN	None	44681	None	None	5317169	5327888	-1	None	None
5	APC	ENSG00000134982	ENST00000509732	protein_coding	KNOWN	None	583	354	117	112043195	112103019	1	None	DP2, DP3, DP2.5, PPP1R46
5	APC	ENSG00000134982	ENST00000505350	processed_transcript	PUTATIVE	None	583	None	None	112043218	112102080	1	None	DP2, DP3, DP2.5, PPP1R46
5	APC	ENSG00000134982	ENST00000507379	protein_coding	PUTATIVE	None	583	3406	1134	112043219	112174751	1	None	DP2, DP3, DP2.5, PPP1R46
5	APC	ENSG00000134982	ENST00000508624	nonsense_mediated_decay	KNOWN	None	583	864	287	112073582	112178452	1	None	DP2, DP3, DP2.5, PPP1R46
5	APC	ENSG00000134982	ENST00000257430	protein_coding	KNOWN	CCDS4107	583	8532	2843	112073585	112181936	1	None	DP2, DP3, DP2.5, PPP1R46
5	APC	ENSG00000134982	ENST00000508376	protein_coding	KNOWN	CCDS4107	583	8532	2843	112073592	112181753	1	None	DP2, DP3, DP2.5, PPP1R46
5	APC	ENSG00000134982	ENST00000512211	protein_coding	KNOWN	None	583	3914	1303	112074029	112175205	1	None	DP2, DP3, DP2.5, PPP1R46
5	APC	ENSG00000134982	ENST00000506342	retained_intron	KNOWN	None	583	None	None	112154650	112157689	1	None	DP2, DP3, DP2.5, PPP1R46
5	APC	ENSG00000134982	ENST00000502371	retained_intron	KNOWN	None	583	None	None	112157593	112175568	1	None	DP2, DP3, DP2.5, PPP1R46
5	APC	ENSG00000134982	ENST00000504915	protein_coding	NOVEL	None	583	817	271	112157646	112173419	1	None	DP2, DP3, DP2.5, PPP1R46
5	APC	ENSG00000134982	ENST00000505084	retained_intron	KNOWN	None	583	None	None	112162910	112165651	1	None	DP2, DP3, DP2.5, PPP1R46
5	APC	ENSG00000134982	ENST00000514164	retained_intron	KNOWN	None	583	None	None	112164532	112173541	1	None	DP2, DP3, DP2.5, PPP1R46
5	APC	ENSG00000134982	ENST00000457016	protein_coding	KNOWN	CCDS4107	583	8532	2843	112043218	112181936	1	None	DP2, DP3, DP2.5, PPP1R46
X	NOX1	ENSG00000007952	ENST00000372966	protein_coding	KNOWN	CCDS14474	7889	1695	564	100098313	100129334	-1	None	NOH1, NOH-1, MOX1, GP91-2
X	NOX1	ENSG00000007952	ENST00000372964	protein_coding	KNOWN	None	7889	579	192	100098322	100129198	-1	None	NOH1, NOH-1, MOX1, GP91-2
X	NOX1	ENSG00000007952	ENST00000427768	protein_coding	KNOWN	None	7889	526	174	100098772	100105325	-1	None	NOH1, NOH-1, MOX1, GP91-2
X	NOX1	ENSG00000007952	ENST00000217885	protein_coding	KNOWN	CCDS14475	7889	1548	515	100098825	100129198	-1	None	NOH1, NOH-1, MOX1, GP91-2
X	NOX1	ENSG00000007952	ENST00000372960	protein_coding	KNOWN	None	7889	1584	527	100098941	100129128	-1	None	NOH1, NOH-1, MOX1, GP91-2
5	None	ENSG00000249483	ENST00000512859	lincRNA	KNOWN	None	None	None	None	81147420	81148020	1	None	None
8	FAM203B	ENSG00000230567	ENST00000377406	protein_coding	KNOWN	None	32323	1173	390	145437880	145440828	1	C8orf30B	None
8	FAM203B	ENSG00000230567	ENST00000527236	nonsense_mediated_decay	KNOWN	None	32323	258	85	145437915	145440835	1	C8orf30B	None
8	FAM203B	ENSG00000230567	ENST00000528360	processed_transcript	KNOWN	None	32323	None	None	145437921	145438908	1	C8orf30B	None
8	FAM203B	ENSG00000230567	ENST00000524697	retained_intron	KNOWN	None	32323	None	None	145438577	145439219	1	C8orf30B	None
8	FAM203B	ENSG00000230567	ENST00000527694	processed_transcript	KNOWN	None	32323	None	None	145438589	145439420	1	C8orf30B	None
8	FAM203B	ENSG00000230567	ENST00000532046	processed_transcript	KNOWN	None	32323	None	None	145438610	145440108	1	C8orf30B	None
8	FAM203B	ENSG00000230567	ENST00000527666	retained_intron	KNOWN	None	32323	None	None	145438794	145439531	1	C8orf30B	None
8	FAM203B	ENSG00000230567	ENST00000527928	processed_transcript	KNOWN	None	32323	None	None	145438808	145439935	1	C8orf30B	None
8	FAM203B	ENSG00000230567	ENST00000527931	protein_coding	NOVEL	None	32323	312	103	145438870	145440824	1	C8orf30B	None
7	TMEM139	ENSG00000178826	ENST00000409102	protein_coding	KNOWN	CCDS5878	22058	651	216	142977050	142984389	1	None	FLJ90586
7	TMEM139	ENSG00000178826	ENST00000487419	processed_transcript	KNOWN	None	22058	None	None	142982040	142984163	1	None	FLJ90586
7	TMEM139	ENSG00000178826	ENST00000359333	protein_coding	KNOWN	CCDS5878	22058	651	216	142982043	142985141	1	None	FLJ90586
7	TMEM139	ENSG00000178826	ENST00000480421	processed_transcript	KNOWN	None	22058	None	None	142982044	142983955	1	None	FLJ90586
7	TMEM139	ENSG00000178826	ENST00000409244	protein_coding	KNOWN	CCDS5878	22058	651	216	142982044	142984389	1	None	FLJ90586
7	TMEM139	ENSG00000178826	ENST00000409541	protein_coding	KNOWN	CCDS5878	22058	651	216	142982047	142985140	1	None	FLJ90586
7	TMEM139	ENSG00000178826	ENST00000410004	protein_coding	KNOWN	CCDS5878	22058	651	216	142982050	142985141	1	None	FLJ90586
7	TMEM139	ENSG00000178826	ENST00000482420	processed_transcript	KNOWN	None	22058	None	None	142982062	142983549	1	None	FLJ90586
7	TMEM139	ENSG00000178826	ENST00000471161	processed_transcript	KNOWN	None	22058	None	None	142982440	142985141	1	None	FLJ90586
5	SHFM1P1	ENSG00000214857	ENST00000506694	processed_pseudogene	KNOWN	None	24454	None	None	81188309	81188540	1	SHFM1P	DSS1P1
5	None	ENSG00000264142	ENST00000578712	miRNA	NOVEL	None	None	None	None	81274069	81274138	1	None	None
10	PDE6C	ENSG00000095464	ENST00000371447	protein_coding	KNOWN	CCDS7429	8787	2577	858	95372345	95425767	1	None	PDEA2, ACHM5, COD4
10	PDE6C	ENSG00000095464	ENST00000475427	processed_transcript	KNOWN	None	8787	None	None	95421813	95425430	1	None	PDEA2, ACHM5, COD4
5	ATG10-IT1	ENSG00000236447	ENST00000396880	sense_intronic	KNOWN	None	41455	None	None	81287814	81288300	1	None	None
12	IFT81	ENSG00000122970	ENST00000361948	protein_coding	KNOWN	CCDS9142	14313	1296	431	110562140	110606987	1	CDV1	CDV-1R, MGC4027
12	IFT81	ENSG00000122970	ENST00000552912	protein_coding	KNOWN	CCDS41831	14313	2031	676	110562140	110656580	1	CDV1	CDV-1R, MGC4027
12	IFT81	ENSG00000122970	ENST00000242591	protein_coding	KNOWN	CCDS41831	14313	2031	676	110562182	110656602	1	CDV1	CDV-1R, MGC4027
12	IFT81	ENSG00000122970	ENST00000546374	protein_coding	PUTATIVE	None	14313	1098	365	110562197	110600870	1	CDV1	CDV-1R, MGC4027
12	IFT81	ENSG00000122970	ENST00000550156	nonsense_mediated_decay	KNOWN	None	14313	1873	623	110565278	110656591	1	CDV1	CDV-1R, MGC4027
12	IFT81	ENSG00000122970	ENST00000551273	nonsense_mediated_decay	KNOWN	None	14313	314	103	110570398	110600870	1	CDV1	CDV-1R, MGC4027
12	IFT81	ENSG00000122970	ENST00000549009	processed_transcript	KNOWN	None	14313	None	None	110574612	110600845	1	CDV1	CDV-1R, MGC4027
12	IFT81	ENSG00000122970	ENST00000551055	processed_transcript	KNOWN	None	14313	None	None	110609700	110628866	1	CDV1	CDV-1R, MGC4027
12	IFT81	ENSG00000122970	ENST00000550748	retained_intron	KNOWN	None	14313	None	None	110641140	110656365	1	CDV1	CDV-1R, MGC4027
8	CNBD1	ENSG00000176571	ENST00000517748	retained_intron	KNOWN	None	26663	None	None	87878670	87952044	1	None	FLJ35802
8	CNBD1	ENSG00000176571	ENST00000518476	protein_coding	KNOWN	CCDS55259	26663	1311	436	87878673	88395087	1	None	FLJ35802
8	CNBD1	ENSG00000176571	ENST00000522427	processed_transcript	KNOWN	None	26663	None	None	88056720	88296950	1	None	FLJ35802
8	CNBD1	ENSG00000176571	ENST00000522105	retained_intron	KNOWN	None	26663	None	None	88218276	88249495	1	None	FLJ35802
8	CNBD1	ENSG00000176571	ENST00000523299	protein_coding	PUTATIVE	None	26663	623	206	88298783	88499968	1	None	FLJ35802
8	CNBD1	ENSG00000176571	ENST00000521593	protein_coding	PUTATIVE	None	26663	485	160	88363961	88627447	1	None	FLJ35802
17	PIPOX	ENSG00000179761	ENST00000580241	processed_transcript	KNOWN	None	17804	None	None	27277531	27383701	1	None	LPIPOX
17	PIPOX	ENSG00000179761	ENST00000580383	processed_transcript	KNOWN	None	17804	None	None	27277638	27380464	1	None	LPIPOX
17	PIPOX	ENSG00000179761	ENST00000583215	processed_transcript	KNOWN	None	17804	None	None	27277661	27383701	1	None	LPIPOX
17	PIPOX	ENSG00000179761	ENST00000578748	processed_transcript	KNOWN	None	17804	None	None	27278878	27372025	1	None	LPIPOX
17	PIPOX	ENSG00000179761	ENST00000577182	processed_transcript	KNOWN	None	17804	None	None	27279457	27380151	1	None	LPIPOX
17	PIPOX	ENSG00000179761	ENST00000323372	protein_coding	KNOWN	CCDS11248	17804	1173	390	27369918	27384234	1	None	LPIPOX
17	PIPOX	ENSG00000179761	ENST00000466889	protein_coding	PUTATIVE	None	17804	459	152	27371236	27380610	1	None	LPIPOX
17	PIPOX	ENSG00000179761	ENST00000469082	protein_coding	PUTATIVE	None	17804	614	203	27371269	27382085	1	None	LPIPOX
17	PIPOX	ENSG00000179761	ENST00000484308	processed_transcript	KNOWN	None	17804	None	None	27373658	27383243	1	None	LPIPOX
17	PIPOX	ENSG00000179761	ENST00000419875	processed_transcript	KNOWN	None	17804	None	None	27378974	27380678	1	None	LPIPOX
5	PPIAP11	ENSG00000251495	ENST00000510729	processed_pseudogene	KNOWN	None	9263	None	None	81305421	81305913	-1	PPIP1	None
6	FUT9	ENSG00000172461	ENST00000483933	processed_transcript	KNOWN	None	4020	None	None	96463860	96485315	1	None	Fuc-TIX
6	FUT9	ENSG00000172461	ENST00000302103	protein_coding	KNOWN	CCDS5033	4020	1080	359	96463860	96663488	1	None	Fuc-TIX
5	ATG10-AS1	ENSG00000248192	ENST00000504846	antisense	KNOWN	None	40914	None	None	81368874	81369521	-1	None	None
5	RN7SL378P	ENSG00000265684	ENST00000582657	misc_RNA	KNOWN	None	46394	None	None	81374246	81374541	1	None	None
5	None	ENSG00000251374	ENST00000510378	processed_pseudogene	KNOWN	None	None	None	None	81560976	81561078	-1	None	None
5	None	ENSG00000248393	ENST00000512952	lincRNA	KNOWN	None	None	None	None	81841681	81842129	-1	None	None
9	None	ENSG00000234394	ENST00000603050	lincRNA	KNOWN	None	None	None	None	70921444	70945352	1	None	None
9	None	ENSG00000234394	ENST00000429953	lincRNA	KNOWN	None	None	None	None	70937327	70945369	1	None	None
9	None	ENSG00000234394	ENST00000414223	lincRNA	KNOWN	None	None	None	None	70938523	70945542	1	None	None
17	EZH1	ENSG00000108799	ENST00000428826	protein_coding	KNOWN	CCDS32659	3526	2244	747	40852293	40897048	-1	None	KIAA0388, KMT6B
17	EZH1	ENSG00000108799	ENST00000415827	protein_coding	NOVEL	None	3526	2217	738	40852293	40897060	-1	None	KIAA0388, KMT6B
17	EZH1	ENSG00000108799	ENST00000586714	retained_intron	KNOWN	None	3526	None	None	40854310	40855187	-1	None	KIAA0388, KMT6B
17	EZH1	ENSG00000108799	ENST00000592743	protein_coding	KNOWN	CCDS32659	3526	2244	747	40854343	40897067	-1	None	KIAA0388, KMT6B
17	EZH1	ENSG00000108799	ENST00000588897	nonsense_mediated_decay	KNOWN	None	3526	252	83	40854399	40897055	-1	None	KIAA0388, KMT6B
17	EZH1	ENSG00000108799	ENST00000585893	protein_coding	NOVEL	None	3526	2124	707	40854403	40897049	-1	None	KIAA0388, KMT6B
17	EZH1	ENSG00000108799	ENST00000590078	protein_coding	PUTATIVE	None	3526	2034	677	40854403	40897055	-1	None	KIAA0388, KMT6B
17	EZH1	ENSG00000108799	ENST00000586103	retained_intron	KNOWN	None	3526	None	None	40855211	40897033	-1	None	KIAA0388, KMT6B
17	EZH1	ENSG00000108799	ENST00000585912	retained_intron	KNOWN	None	3526	None	None	40855441	40897055	-1	None	KIAA0388, KMT6B
17	EZH1	ENSG00000108799	ENST00000585550	retained_intron	KNOWN	None	3526	None	None	40855445	40874890	-1	None	KIAA0388, KMT6B
17	EZH1	ENSG00000108799	ENST00000591330	retained_intron	KNOWN	None	3526	None	None	40855477	40897055	-1	None	KIAA0388, KMT6B
17	EZH1	ENSG00000108799	ENST00000590783	processed_transcript	KNOWN	None	3526	None	None	40855809	40861674	-1	None	KIAA0388, KMT6B
17	EZH1	ENSG00000108799	ENST00000589846	retained_intron	KNOWN	None	3526	None	None	40857601	40860937	-1	None	KIAA0388, KMT6B
17	EZH1	ENSG00000108799	ENST00000588239	nonsense_mediated_decay	KNOWN	None	3526	154	50	40860021	40872322	-1	None	KIAA0388, KMT6B
17	EZH1	ENSG00000108799	ENST00000585455	retained_intron	KNOWN	None	3526	None	None	40860063	40861200	-1	None	KIAA0388, KMT6B
17	EZH1	ENSG00000108799	ENST00000586935	nonsense_mediated_decay	KNOWN	None	3526	377	124	40864360	40874890	-1	None	KIAA0388, KMT6B
17	EZH1	ENSG00000108799	ENST00000586382	protein_coding	NOVEL	None	3526	890	295	40865394	40897058	-1	None	KIAA0388, KMT6B
17	EZH1	ENSG00000108799	ENST00000586867	nonsense_mediated_decay	KNOWN	None	3526	372	123	40869994	40897055	-1	None	KIAA0388, KMT6B
17	EZH1	ENSG00000108799	ENST00000587179	retained_intron	KNOWN	None	3526	None	None	40870024	40874827	-1	None	KIAA0388, KMT6B
17	EZH1	ENSG00000108799	ENST00000593148	retained_intron	KNOWN	None	3526	None	None	40870119	40871196	-1	None	KIAA0388, KMT6B
17	EZH1	ENSG00000108799	ENST00000586089	protein_coding	NOVEL	None	3526	509	168	40872326	40897067	-1	None	KIAA0388, KMT6B
17	EZH1	ENSG00000108799	ENST00000593214	protein_coding	KNOWN	None	3526	499	165	40872456	40897053	-1	None	KIAA0388, KMT6B
17	EZH1	ENSG00000108799	ENST00000592492	protein_coding	KNOWN	None	3526	320	105	40876369	40897048	-1	None	KIAA0388, KMT6B
17	EZH1	ENSG00000108799	ENST00000590082	processed_transcript	KNOWN	None	3526	None	None	40876443	40897055	-1	None	KIAA0388, KMT6B
17	EZH1	ENSG00000108799	ENST00000435174	protein_coding	KNOWN	None	3526	1827	608	40852294	40897071	-1	None	KIAA0388, KMT6B
15	None	ENSG00000221266	ENST00000408339	miRNA	NOVEL	None	None	None	None	85752346	85752429	-1	None	None
11	MDK	ENSG00000110492	ENST00000405308	protein_coding	KNOWN	CCDS7919	6972	432	143	46402306	46405349	1	NEGF2	MK, FLJ27379
11	MDK	ENSG00000110492	ENST00000441869	protein_coding	KNOWN	None	6972	147	48	46402487	46403914	1	NEGF2	MK, FLJ27379
11	MDK	ENSG00000110492	ENST00000490240	retained_intron	KNOWN	None	6972	None	None	46402611	46404371	1	NEGF2	MK, FLJ27379
11	MDK	ENSG00000110492	ENST00000359803	protein_coding	KNOWN	CCDS7919	6972	432	143	46402618	46405375	1	NEGF2	MK, FLJ27379
11	MDK	ENSG00000110492	ENST00000533952	protein_coding	KNOWN	None	6972	394	130	46402757	46404286	1	NEGF2	MK, FLJ27379
11	MDK	ENSG00000110492	ENST00000395569	protein_coding	NOVEL	CCDS59226	6972	264	87	46403219	46405375	1	NEGF2	MK, FLJ27379
11	MDK	ENSG00000110492	ENST00000395566	protein_coding	KNOWN	CCDS7919	6972	432	143	46403226	46405356	1	NEGF2	MK, FLJ27379
11	MDK	ENSG00000110492	ENST00000533283	processed_transcript	KNOWN	None	6972	None	None	46403243	46405120	1	NEGF2	MK, FLJ27379
11	MDK	ENSG00000110492	ENST00000481047	retained_intron	KNOWN	None	6972	None	None	46403261	46404320	1	NEGF2	MK, FLJ27379
11	MDK	ENSG00000110492	ENST00000489525	nonsense_mediated_decay	KNOWN	None	6972	471	156	46403287	46405356	1	NEGF2	MK, FLJ27379
11	MDK	ENSG00000110492	ENST00000407067	protein_coding	KNOWN	CCDS7919	6972	432	143	46403303	46405333	1	NEGF2	MK, FLJ27379
11	MDK	ENSG00000110492	ENST00000395565	protein_coding	KNOWN	CCDS7919	6972	432	143	46403303	46405372	1	NEGF2	MK, FLJ27379
8	None	ENSG00000221351	ENST00000408424	miRNA	NOVEL	None	None	None	None	129832040	129832124	1	None	None
15	RN7SL428P	ENSG00000242188	ENST00000473245	misc_RNA	KNOWN	None	46444	None	None	85753262	85753544	-1	None	None
8	LINC00977	ENSG00000250400	ENST00000509893	lincRNA	KNOWN	None	48902	None	None	130228713	130253496	-1	None	None
X	FUNDC1	ENSG00000069509	ENST00000378045	protein_coding	KNOWN	CCDS14263	28746	468	155	44382885	44402247	-1	None	MGC51029
X	FUNDC1	ENSG00000069509	ENST00000483115	processed_transcript	KNOWN	None	28746	None	None	44383018	44401550	-1	None	MGC51029
20	PSMF1	ENSG00000125818	ENST00000381899	protein_coding	KNOWN	None	9571	551	182	1093921	1115949	1	None	PI31
20	PSMF1	ENSG00000125818	ENST00000479715	processed_transcript	KNOWN	None	9571	None	None	1093949	1145041	1	None	PI31
20	PSMF1	ENSG00000125818	ENST00000246015	protein_coding	KNOWN	None	9571	792	263	1099241	1147972	1	None	PI31
20	PSMF1	ENSG00000125818	ENST00000335877	protein_coding	KNOWN	CCDS13010	9571	816	271	1099241	1149022	1	None	PI31
20	PSMF1	ENSG00000125818	ENST00000478004	processed_transcript	KNOWN	None	9571	None	None	1099253	1115949	1	None	PI31
20	PSMF1	ENSG00000125818	ENST00000484891	processed_transcript	KNOWN	None	9571	None	None	1115483	1149022	1	None	PI31
20	PSMF1	ENSG00000125818	ENST00000435720	protein_coding	KNOWN	None	9571	319	105	1115821	1145703	1	None	PI31
20	PSMF1	ENSG00000125818	ENST00000438768	protein_coding	KNOWN	None	9571	606	201	1099280	1147334	1	None	PI31
20	PSMF1	ENSG00000125818	ENST00000333082	protein_coding	KNOWN	CCDS13010	9571	816	271	1093906	1148426	1	None	PI31
20	PSMF1	ENSG00000125818	ENST00000381898	protein_coding	KNOWN	None	9571	528	175	1093906	1147009	1	None	PI31
7	ELN	ENSG00000049540	ENST00000445912	protein_coding	NOVEL	None	3327	2121	706	73442119	73483093	1	None	WBS, WS, SVAS
7	ELN	ENSG00000049540	ENST00000252034	protein_coding	KNOWN	CCDS5562	3327	2175	724	73442119	73484237	1	None	WBS, WS, SVAS
7	ELN	ENSG00000049540	ENST00000431562	protein_coding	NOVEL	None	3327	455	150	73442431	73459603	1	None	WBS, WS, SVAS
7	ELN	ENSG00000049540	ENST00000320492	protein_coding	NOVEL	None	3327	1932	643	73442436	73484007	1	None	WBS, WS, SVAS
7	ELN	ENSG00000049540	ENST00000438906	protein_coding	NOVEL	None	3327	883	293	73442439	73466313	1	None	WBS, WS, SVAS
7	ELN	ENSG00000049540	ENST00000494160	retained_intron	KNOWN	None	3327	None	None	73442444	73452381	1	None	WBS, WS, SVAS
7	ELN	ENSG00000049540	ENST00000492003	retained_intron	KNOWN	None	3327	None	None	73442454	73457171	1	None	WBS, WS, SVAS
7	ELN	ENSG00000049540	ENST00000468517	retained_intron	KNOWN	None	3327	None	None	73442456	73457553	1	None	WBS, WS, SVAS
7	ELN	ENSG00000049540	ENST00000438880	protein_coding	NOVEL	None	3327	504	167	73442459	73466285	1	None	WBS, WS, SVAS
7	ELN	ENSG00000049540	ENST00000414324	protein_coding	NOVEL	None	3327	2103	700	73442459	73484007	1	None	WBS, WS, SVAS
7	ELN	ENSG00000049540	ENST00000380562	protein_coding	NOVEL	None	3327	2193	730	73442471	73483030	1	None	WBS, WS, SVAS
7	ELN	ENSG00000049540	ENST00000480728	retained_intron	KNOWN	None	3327	None	None	73442474	73457519	1	None	WBS, WS, SVAS
7	ELN	ENSG00000049540	ENST00000380575	protein_coding	KNOWN	CCDS43599	3327	2034	677	73442487	73484008	1	None	WBS, WS, SVAS
7	ELN	ENSG00000049540	ENST00000380584	protein_coding	NOVEL	None	3327	1977	658	73442488	73484237	1	None	WBS, WS, SVAS
7	ELN	ENSG00000049540	ENST00000458204	protein_coding	NOVEL	None	3327	2145	714	73442493	73484007	1	None	WBS, WS, SVAS
7	ELN	ENSG00000049540	ENST00000357036	protein_coding	KNOWN	CCDS43598	3327	2136	711	73442500	73484237	1	None	WBS, WS, SVAS
7	ELN	ENSG00000049540	ENST00000462506	retained_intron	KNOWN	None	3327	None	None	73442503	73457614	1	None	WBS, WS, SVAS
7	ELN	ENSG00000049540	ENST00000479432	retained_intron	KNOWN	None	3327	None	None	73442503	73459645	1	None	WBS, WS, SVAS
7	ELN	ENSG00000049540	ENST00000417091	protein_coding	NOVEL	None	3327	643	213	73442503	73462531	1	None	WBS, WS, SVAS
7	ELN	ENSG00000049540	ENST00000429192	protein_coding	KNOWN	CCDS47611	3327	2079	692	73442503	73484234	1	None	WBS, WS, SVAS
7	ELN	ENSG00000049540	ENST00000416107	nonsense_mediated_decay	KNOWN	None	3327	207	68	73442505	73457498	1	None	WBS, WS, SVAS
7	ELN	ENSG00000049540	ENST00000442310	protein_coding	NOVEL	None	3327	529	175	73442505	73461097	1	None	WBS, WS, SVAS
7	ELN	ENSG00000049540	ENST00000380553	protein_coding	NOVEL	None	3327	1713	570	73442505	73484007	1	None	WBS, WS, SVAS
7	ELN	ENSG00000049540	ENST00000380576	protein_coding	KNOWN	CCDS47612	3327	2118	705	73442505	73484008	1	None	WBS, WS, SVAS
7	ELN	ENSG00000049540	ENST00000473323	retained_intron	KNOWN	None	3327	None	None	73442506	73457569	1	None	WBS, WS, SVAS
7	ELN	ENSG00000049540	ENST00000428787	protein_coding	NOVEL	None	3327	500	165	73442506	73462532	1	None	WBS, WS, SVAS
7	ELN	ENSG00000049540	ENST00000320399	protein_coding	KNOWN	None	3327	2274	757	73442518	73483030	1	None	WBS, WS, SVAS
7	ELN	ENSG00000049540	ENST00000419398	nonsense_mediated_decay	KNOWN	None	3327	183	60	73456964	73459589	1	None	WBS, WS, SVAS
7	ELN	ENSG00000049540	ENST00000477397	retained_intron	KNOWN	None	3327	None	None	73460093	73462047	1	None	WBS, WS, SVAS
7	ELN	ENSG00000049540	ENST00000493839	retained_intron	KNOWN	None	3327	None	None	73460989	73466566	1	None	WBS, WS, SVAS
7	ELN	ENSG00000049540	ENST00000466878	processed_transcript	KNOWN	None	3327	None	None	73466624	73470695	1	None	WBS, WS, SVAS
7	ELN	ENSG00000049540	ENST00000492210	retained_intron	KNOWN	None	3327	None	None	73467181	73470677	1	None	WBS, WS, SVAS
7	ELN	ENSG00000049540	ENST00000358929	protein_coding	KNOWN	None	3327	2379	792	73442427	73484234	1	None	WBS, WS, SVAS
20	ARFRP1	ENSG00000101246	ENST00000485858	processed_transcript	KNOWN	None	662	None	None	62330809	62332129	-1	None	ARP, Arp1, ARL18
20	ARFRP1	ENSG00000101246	ENST00000217224	protein_coding	KNOWN	None	662	388	128	62330809	62332740	-1	None	ARP, Arp1, ARL18
20	ARFRP1	ENSG00000101246	ENST00000324228	protein_coding	KNOWN	CCDS13533	662	606	201	62330809	62339190	-1	None	ARP, Arp1, ARL18
20	ARFRP1	ENSG00000101246	ENST00000424545	processed_transcript	KNOWN	None	662	None	None	62336931	62338090	-1	None	ARP, Arp1, ARL18
20	ARFRP1	ENSG00000101246	ENST00000359715	protein_coding	KNOWN	CCDS13533	662	606	201	62330003	62339010	-1	None	ARP, Arp1, ARL18
20	ARFRP1	ENSG00000101246	ENST00000440854	protein_coding	KNOWN	CCDS46630	662	522	173	62329996	62339355	-1	None	ARP, Arp1, ARL18
2	EPAS1	ENSG00000116016	ENST00000460015	processed_transcript	PUTATIVE	None	3374	None	None	46520806	46574137	1	None	MOP2, PASD2, HIF2A, HLF, bHLHe73
2	EPAS1	ENSG00000116016	ENST00000449347	protein_coding	KNOWN	None	3374	779	258	46523747	46588229	1	None	MOP2, PASD2, HIF2A, HLF, bHLHe73
2	EPAS1	ENSG00000116016	ENST00000263734	protein_coding	KNOWN	CCDS1825	3374	2613	870	46524541	46613836	1	None	MOP2, PASD2, HIF2A, HLF, bHLHe73
2	EPAS1	ENSG00000116016	ENST00000467888	processed_transcript	PUTATIVE	None	3374	None	None	46524903	46574676	1	None	MOP2, PASD2, HIF2A, HLF, bHLHe73
2	EPAS1	ENSG00000116016	ENST00000475822	processed_transcript	PUTATIVE	None	3374	None	None	46562829	46583432	1	None	MOP2, PASD2, HIF2A, HLF, bHLHe73
2	EPAS1	ENSG00000116016	ENST00000463191	retained_intron	KNOWN	None	3374	None	None	46583254	46588190	1	None	MOP2, PASD2, HIF2A, HLF, bHLHe73
2	EPAS1	ENSG00000116016	ENST00000483692	retained_intron	KNOWN	None	3374	None	None	46602775	46605841	1	None	MOP2, PASD2, HIF2A, HLF, bHLHe73
2	EPAS1	ENSG00000116016	ENST00000466465	retained_intron	KNOWN	None	3374	None	None	46606839	46613835	1	None	MOP2, PASD2, HIF2A, HLF, bHLHe73
2	EPAS1	ENSG00000116016	ENST00000465318	retained_intron	KNOWN	None	3374	None	None	46608316	46609643	1	None	MOP2, PASD2, HIF2A, HLF, bHLHe73
2	EPAS1	ENSG00000116016	ENST00000468530	processed_transcript	PUTATIVE	None	3374	None	None	46608774	46611689	1	None	MOP2, PASD2, HIF2A, HLF, bHLHe73
19	None	ENSG00000261754	ENST00000561778	lincRNA	KNOWN	None	None	None	None	35302493	35305249	-1	None	None
22	TMPRSS6	ENSG00000187045	ENST00000346753	protein_coding	NOVEL	CCDS13941	16517	2436	811	37461479	37499696	-1	None	FLJ30744
22	TMPRSS6	ENSG00000187045	ENST00000406725	protein_coding	KNOWN	None	16517	2409	802	37461479	37505449	-1	None	FLJ30744
22	TMPRSS6	ENSG00000187045	ENST00000406856	protein_coding	NOVEL	None	16517	2475	824	37461479	37505603	-1	None	FLJ30744
22	TMPRSS6	ENSG00000187045	ENST00000429068	protein_coding	PUTATIVE	None	16517	216	71	37478890	37480865	-1	None	FLJ30744
22	TMPRSS6	ENSG00000187045	ENST00000442782	protein_coding	KNOWN	None	16517	1386	461	37479980	37499696	-1	None	FLJ30744
22	TMPRSS6	ENSG00000187045	ENST00000423761	protein_coding	KNOWN	None	16517	425	140	37492110	37499558	-1	None	FLJ30744
22	TMPRSS6	ENSG00000187045	ENST00000381792	protein_coding	KNOWN	None	16517	2475	824	37461476	37499693	-1	None	FLJ30744
19	None	ENSG00000271666	ENST00000605008	processed_pseudogene	KNOWN	None	None	None	None	35316318	35316900	1	None	None
19	LYPD5	ENSG00000159871	ENST00000377950	protein_coding	KNOWN	CCDS46096	26397	756	251	44300081	44306613	-1	None	FLJ30469
19	LYPD5	ENSG00000159871	ENST00000414615	protein_coding	KNOWN	CCDS12631	26397	627	208	44300393	44324786	-1	None	FLJ30469
19	LYPD5	ENSG00000159871	ENST00000594013	protein_coding	KNOWN	CCDS12631	26397	627	208	44301111	44304181	-1	None	FLJ30469
19	LYPD5	ENSG00000159871	ENST00000595666	retained_intron	KNOWN	None	26397	None	None	44301648	44302848	-1	None	FLJ30469
19	LYPD5	ENSG00000159871	ENST00000601224	retained_intron	KNOWN	None	26397	None	None	44301834	44303219	-1	None	FLJ30469
19	LYPD5	ENSG00000159871	ENST00000594049	protein_coding	KNOWN	None	26397	383	126	44302612	44324750	-1	None	FLJ30469
19	LYPD5	ENSG00000159871	ENST00000602179	protein_coding	KNOWN	None	26397	341	112	44302654	44331351	-1	None	FLJ30469
19	LYPD5	ENSG00000159871	ENST00000599397	processed_transcript	KNOWN	None	26397	None	None	44326209	44331358	-1	None	FLJ30469
HSCHR6_MHC_MANN	NOTCH4	ENSG00000232339	ENST00000474325	retained_intron	KNOWN	None	7884	None	None	32202044	32204178	-1	INT3	None
HSCHR6_MHC_MANN	NOTCH4	ENSG00000232339	ENST00000471956	retained_intron	KNOWN	None	7884	None	None	32202044	32211376	-1	INT3	None
HSCHR6_MHC_MANN	NOTCH4	ENSG00000232339	ENST00000454571	protein_coding	KNOWN	None	7884	6009	2002	32202044	32231292	-1	INT3	None
HSCHR6_MHC_MANN	NOTCH4	ENSG00000232339	ENST00000487528	processed_transcript	KNOWN	None	7884	None	None	32218132	32221444	-1	INT3	None
HSCHR6_MHC_MANN	NOTCH4	ENSG00000232339	ENST00000464745	retained_intron	KNOWN	None	7884	None	None	32223093	32231282	-1	INT3	None
20	YWHAB	ENSG00000166913	ENST00000353703	protein_coding	KNOWN	CCDS13339	12849	741	246	43514317	43537173	1	YWHAA	None
20	YWHAB	ENSG00000166913	ENST00000479421	processed_transcript	KNOWN	None	12849	None	None	43514343	43535161	1	YWHAA	None
20	YWHAB	ENSG00000166913	ENST00000372839	protein_coding	KNOWN	CCDS13339	12849	741	246	43514352	43537173	1	YWHAA	None
20	YWHAB	ENSG00000166913	ENST00000428262	protein_coding	KNOWN	None	12849	300	99	43514381	43530474	1	YWHAA	None
20	YWHAB	ENSG00000166913	ENST00000445830	protein_coding	KNOWN	None	12849	223	73	43514393	43530397	1	YWHAA	None
20	YWHAB	ENSG00000166913	ENST00000477896	processed_transcript	PUTATIVE	None	12849	None	None	43532460	43533720	1	YWHAA	None
20	YWHAB	ENSG00000166913	ENST00000479758	processed_transcript	PUTATIVE	None	12849	None	None	43534232	43535161	1	YWHAA	None
19	None	ENSG00000269086	ENST00000600348	lincRNA	KNOWN	None	None	None	None	35328793	35332585	1	None	None
19	None	ENSG00000269086	ENST00000601776	lincRNA	KNOWN	None	None	None	None	35330086	35346208	1	None	None
4	TMEM155	ENSG00000164112	ENST00000394396	protein_coding	KNOWN	CCDS3721	26418	393	130	122680088	122685449	-1	None	FLJ30834
4	TMEM155	ENSG00000164112	ENST00000461198	retained_intron	KNOWN	None	26418	None	None	122680088	122686282	-1	None	FLJ30834
4	TMEM155	ENSG00000164112	ENST00000337677	protein_coding	KNOWN	CCDS3721	26418	393	130	122680088	122686340	-1	None	FLJ30834
4	TMEM155	ENSG00000164112	ENST00000394394	protein_coding	KNOWN	CCDS3721	26418	393	130	122680519	122686582	-1	None	FLJ30834
4	TMEM155	ENSG00000164112	ENST00000513254	retained_intron	KNOWN	None	26418	None	None	122681404	122686582	-1	None	FLJ30834
4	TMEM155	ENSG00000164112	ENST00000514885	protein_coding	KNOWN	None	26418	212	69	122682693	122686516	-1	None	FLJ30834
4	TMEM155	ENSG00000164112	ENST00000505198	retained_intron	KNOWN	None	26418	None	None	122682711	122685915	-1	None	FLJ30834
4	TMEM155	ENSG00000164112	ENST00000506551	retained_intron	KNOWN	None	26418	None	None	122683777	122685462	-1	None	FLJ30834
3	HGD	ENSG00000113924	ENST00000283871	protein_coding	KNOWN	CCDS3000	4892	1338	445	120347020	120401418	-1	AKU	HGO
3	HGD	ENSG00000113924	ENST00000492108	nonsense_mediated_decay	KNOWN	None	4892	297	98	120347213	120369685	-1	AKU	HGO
3	HGD	ENSG00000113924	ENST00000470321	retained_intron	KNOWN	None	4892	None	None	120351994	120360654	-1	AKU	HGO
3	HGD	ENSG00000113924	ENST00000475447	protein_coding	PUTATIVE	None	4892	266	87	120352180	120365899	-1	AKU	HGO
3	HGD	ENSG00000113924	ENST00000494453	protein_coding	PUTATIVE	None	4892	437	144	120352181	120365182	-1	AKU	HGO
3	HGD	ENSG00000113924	ENST00000476082	protein_coding	PUTATIVE	None	4892	426	141	120365820	120400960	-1	AKU	HGO
3	HGD	ENSG00000113924	ENST00000485313	processed_transcript	KNOWN	None	4892	None	None	120369635	120400978	-1	AKU	HGO
3	HGD	ENSG00000113924	ENST00000488183	processed_transcript	KNOWN	None	4892	None	None	120371462	120401090	-1	AKU	HGO
3	HGD	ENSG00000113924	ENST00000466528	retained_intron	KNOWN	None	4892	None	None	120389138	120400984	-1	AKU	HGO
3	HGD	ENSG00000113924	ENST00000480862	retained_intron	KNOWN	None	4892	None	None	120393426	120401116	-1	AKU	HGO
9	IFNA2	ENSG00000188379	ENST00000380206	protein_coding	KNOWN	CCDS6506	5423	567	188	21384254	21385396	-1	None	IFNA, IFN-alphaA
9	GBA2	ENSG00000070610	ENST00000378103	protein_coding	KNOWN	CCDS6589	18986	2784	927	35736863	35749225	-1	SPG46	KIAA1605, AD035, DKFZp762K054
9	GBA2	ENSG00000070610	ENST00000378088	protein_coding	KNOWN	None	18986	519	172	35736864	35738632	-1	SPG46	KIAA1605, AD035, DKFZp762K054
9	GBA2	ENSG00000070610	ENST00000378094	protein_coding	KNOWN	None	18986	2634	877	35736864	35749215	-1	SPG46	KIAA1605, AD035, DKFZp762K054
9	GBA2	ENSG00000070610	ENST00000467252	processed_transcript	KNOWN	None	18986	None	None	35737909	35742026	-1	SPG46	KIAA1605, AD035, DKFZp762K054
9	GBA2	ENSG00000070610	ENST00000486797	processed_transcript	KNOWN	None	18986	None	None	35738050	35739038	-1	SPG46	KIAA1605, AD035, DKFZp762K054
9	GBA2	ENSG00000070610	ENST00000488292	processed_transcript	KNOWN	None	18986	None	None	35738364	35739107	-1	SPG46	KIAA1605, AD035, DKFZp762K054
9	GBA2	ENSG00000070610	ENST00000485259	processed_transcript	KNOWN	None	18986	None	None	35741317	35744388	-1	SPG46	KIAA1605, AD035, DKFZp762K054
9	GBA2	ENSG00000070610	ENST00000489025	processed_transcript	KNOWN	None	18986	None	None	35744294	35748970	-1	SPG46	KIAA1605, AD035, DKFZp762K054
9	GBA2	ENSG00000070610	ENST00000545786	protein_coding	KNOWN	None	18986	2802	933	35736940	35749983	-1	SPG46	KIAA1605, AD035, DKFZp762K054
13	ATP8A2	ENSG00000132932	ENST00000381655	protein_coding	KNOWN	CCDS41873	13533	3567	1188	25946209	26599989	1	None	ATPIB, ML-1
13	ATP8A2	ENSG00000132932	ENST00000381648	processed_transcript	KNOWN	None	13533	None	None	26043115	26108363	1	None	ATPIB, ML-1
13	ATP8A2	ENSG00000132932	ENST00000281620	nonsense_mediated_decay	KNOWN	None	13533	1932	643	26043117	26594344	1	None	ATPIB, ML-1
13	ATP8A2	ENSG00000132932	ENST00000491840	processed_transcript	KNOWN	None	13533	None	None	26141271	26501421	1	None	ATPIB, ML-1
13	ATP8A2	ENSG00000132932	ENST00000255283	protein_coding	KNOWN	None	13533	3372	1123	26043113	26594379	1	None	ATPIB, ML-1
7	ACTR3C	ENSG00000106526	ENST00000478393	protein_coding	PUTATIVE	None	37282	627	208	149941005	150020662	-1	None	ARP11
7	ACTR3C	ENSG00000106526	ENST00000252071	protein_coding	KNOWN	CCDS47744	37282	633	210	149944302	150000069	-1	None	ARP11
7	ACTR3C	ENSG00000106526	ENST00000477871	protein_coding	PUTATIVE	None	37282	667	221	149983557	150020814	-1	None	ARP11
7	ACTR3C	ENSG00000106526	ENST00000477367	protein_coding	KNOWN	None	37282	153	50	149990401	150020252	-1	None	ARP11
7	ACTR3C	ENSG00000106526	ENST00000539352	protein_coding	KNOWN	CCDS47744	37282	633	210	149944302	150020758	-1	None	ARP11
19	None	ENSG00000203442	ENST00000366260	pseudogene	NOVEL	None	None	None	None	35331917	35332118	-1	None	None
3	LRRC15	ENSG00000172061	ENST00000347624	protein_coding	KNOWN	CCDS3306	20818	1746	581	194075976	194090472	-1	None	LIB
3	LRRC15	ENSG00000172061	ENST00000428839	protein_coding	PUTATIVE	CCDS46984	20818	1764	587	194078656	194090460	-1	None	LIB
3	LRRC15	ENSG00000172061	ENST00000439944	protein_coding	KNOWN	CCDS46984	20818	1764	587	194075976	194084099	-1	None	LIB
15	SEC11A	ENSG00000140612	ENST00000559376	retained_intron	KNOWN	None	17718	None	None	85212775	85214978	-1	SEC11L1	SPC18, sid2895, SPCS4A
15	SEC11A	ENSG00000140612	ENST00000558134	protein_coding	PUTATIVE	None	17718	558	185	85212775	85259320	-1	SEC11L1	SPC18, sid2895, SPCS4A
15	SEC11A	ENSG00000140612	ENST00000560266	protein_coding	PUTATIVE	None	17718	495	164	85212775	85259342	-1	SEC11L1	SPC18, sid2895, SPCS4A
15	SEC11A	ENSG00000140612	ENST00000268220	protein_coding	KNOWN	CCDS45340	17718	540	179	85212775	85259947	-1	SEC11L1	SPC18, sid2895, SPCS4A
15	SEC11A	ENSG00000140612	ENST00000558217	protein_coding	PUTATIVE	None	17718	408	135	85212776	85259294	-1	SEC11L1	SPC18, sid2895, SPCS4A
15	SEC11A	ENSG00000140612	ENST00000558924	retained_intron	KNOWN	None	17718	None	None	85212777	85217057	-1	SEC11L1	SPC18, sid2895, SPCS4A
15	SEC11A	ENSG00000140612	ENST00000455959	protein_coding	PUTATIVE	None	17718	462	153	85212791	85259394	-1	SEC11L1	SPC18, sid2895, SPCS4A
15	SEC11A	ENSG00000140612	ENST00000560409	nonsense_mediated_decay	KNOWN	None	17718	492	163	85213085	85259358	-1	SEC11L1	SPC18, sid2895, SPCS4A
15	SEC11A	ENSG00000140612	ENST00000559729	protein_coding	NOVEL	None	17718	387	128	85213253	85259370	-1	SEC11L1	SPC18, sid2895, SPCS4A
15	SEC11A	ENSG00000140612	ENST00000558196	protein_coding	PUTATIVE	None	17718	319	105	85223978	85259298	-1	SEC11L1	SPC18, sid2895, SPCS4A
9	IFNA8	ENSG00000120242	ENST00000380205	protein_coding	KNOWN	CCDS6507	5429	570	189	21409146	21410184	1	None	IFN-alphaB
Y	EIF1AY	ENSG00000198692	ENST00000361365	protein_coding	KNOWN	CCDS14795	3252	435	144	22737611	22755040	1	None	None
Y	EIF1AY	ENSG00000198692	ENST00000465253	processed_transcript	KNOWN	None	3252	None	None	22737664	22750415	1	None	None
Y	EIF1AY	ENSG00000198692	ENST00000382772	protein_coding	KNOWN	None	3252	384	127	22737680	22754516	1	None	None
Y	EIF1AY	ENSG00000198692	ENST00000464196	processed_transcript	KNOWN	None	3252	None	None	22748604	22754516	1	None	None
Y	EIF1AY	ENSG00000198692	ENST00000485584	processed_transcript	KNOWN	None	3252	None	None	22749733	22754516	1	None	None
2	SEPT2	ENSG00000168385	ENST00000391973	protein_coding	KNOWN	CCDS2548	7729	1086	361	242254515	242293439	1	DIFF6, NEDD5	KIAA0158, hNedd5, Pnutl3
2	SEPT2	ENSG00000168385	ENST00000492978	processed_transcript	KNOWN	None	7729	None	None	242254685	242277149	1	DIFF6, NEDD5	KIAA0158, hNedd5, Pnutl3
2	SEPT2	ENSG00000168385	ENST00000428282	protein_coding	PUTATIVE	None	7729	553	183	242254685	242282485	1	DIFF6, NEDD5	KIAA0158, hNedd5, Pnutl3
2	SEPT2	ENSG00000168385	ENST00000360051	protein_coding	KNOWN	CCDS2548	7729	1086	361	242254704	242293439	1	DIFF6, NEDD5	KIAA0158, hNedd5, Pnutl3
2	SEPT2	ENSG00000168385	ENST00000428524	protein_coding	KNOWN	None	7729	151	49	242254770	242274561	1	DIFF6, NEDD5	KIAA0158, hNedd5, Pnutl3
2	SEPT2	ENSG00000168385	ENST00000445030	protein_coding	KNOWN	None	7729	217	71	242254770	242274627	1	DIFF6, NEDD5	KIAA0158, hNedd5, Pnutl3
2	SEPT2	ENSG00000168385	ENST00000407017	protein_coding	PUTATIVE	None	7729	283	93	242254770	242275575	1	DIFF6, NEDD5	KIAA0158, hNedd5, Pnutl3
2	SEPT2	ENSG00000168385	ENST00000469434	retained_intron	KNOWN	None	7729	None	None	242254862	242276867	1	DIFF6, NEDD5	KIAA0158, hNedd5, Pnutl3
2	SEPT2	ENSG00000168385	ENST00000495463	processed_transcript	KNOWN	None	7729	None	None	242255276	242276341	1	DIFF6, NEDD5	KIAA0158, hNedd5, Pnutl3
2	SEPT2	ENSG00000168385	ENST00000391971	protein_coding	KNOWN	CCDS2548	7729	1086	361	242255276	242293442	1	DIFF6, NEDD5	KIAA0158, hNedd5, Pnutl3
2	SEPT2	ENSG00000168385	ENST00000482304	retained_intron	KNOWN	None	7729	None	None	242255279	242275014	1	DIFF6, NEDD5	KIAA0158, hNedd5, Pnutl3
2	SEPT2	ENSG00000168385	ENST00000475474	retained_intron	KNOWN	None	7729	None	None	242255290	242275796	1	DIFF6, NEDD5	KIAA0158, hNedd5, Pnutl3
2	SEPT2	ENSG00000168385	ENST00000469175	processed_transcript	KNOWN	None	7729	None	None	242255297	242277126	1	DIFF6, NEDD5	KIAA0158, hNedd5, Pnutl3
2	SEPT2	ENSG00000168385	ENST00000401990	protein_coding	NOVEL	None	7729	1116	371	242255297	242291524	1	DIFF6, NEDD5	KIAA0158, hNedd5, Pnutl3
2	SEPT2	ENSG00000168385	ENST00000407971	protein_coding	PUTATIVE	None	7729	966	321	242255298	242293442	1	DIFF6, NEDD5	KIAA0158, hNedd5, Pnutl3
2	SEPT2	ENSG00000168385	ENST00000461048	processed_transcript	KNOWN	None	7729	None	None	242255309	242264659	1	DIFF6, NEDD5	KIAA0158, hNedd5, Pnutl3
2	SEPT2	ENSG00000168385	ENST00000457335	nonsense_mediated_decay	KNOWN	None	7729	243	80	242255316	242276910	1	DIFF6, NEDD5	KIAA0158, hNedd5, Pnutl3
2	SEPT2	ENSG00000168385	ENST00000436795	protein_coding	KNOWN	None	7729	445	147	242255320	242276900	1	DIFF6, NEDD5	KIAA0158, hNedd5, Pnutl3
2	SEPT2	ENSG00000168385	ENST00000411484	protein_coding	PUTATIVE	None	7729	441	146	242255321	242276863	1	DIFF6, NEDD5	KIAA0158, hNedd5, Pnutl3
2	SEPT2	ENSG00000168385	ENST00000494824	processed_transcript	KNOWN	None	7729	None	None	242255321	242282414	1	DIFF6, NEDD5	KIAA0158, hNedd5, Pnutl3
2	SEPT2	ENSG00000168385	ENST00000462147	processed_transcript	KNOWN	None	7729	None	None	242255328	242277205	1	DIFF6, NEDD5	KIAA0158, hNedd5, Pnutl3
2	SEPT2	ENSG00000168385	ENST00000434955	protein_coding	NOVEL	None	7729	316	104	242255336	242275488	1	DIFF6, NEDD5	KIAA0158, hNedd5, Pnutl3
2	SEPT2	ENSG00000168385	ENST00000466211	processed_transcript	KNOWN	None	7729	None	None	242255339	242282441	1	DIFF6, NEDD5	KIAA0158, hNedd5, Pnutl3
2	SEPT2	ENSG00000168385	ENST00000402092	protein_coding	KNOWN	CCDS2548	7729	1086	361	242255343	242293442	1	DIFF6, NEDD5	KIAA0158, hNedd5, Pnutl3
2	SEPT2	ENSG00000168385	ENST00000484740	retained_intron	KNOWN	None	7729	None	None	242255350	242275055	1	DIFF6, NEDD5	KIAA0158, hNedd5, Pnutl3
2	SEPT2	ENSG00000168385	ENST00000473479	retained_intron	KNOWN	None	7729	None	None	242255351	242275751	1	DIFF6, NEDD5	KIAA0158, hNedd5, Pnutl3
2	SEPT2	ENSG00000168385	ENST00000441533	protein_coding	KNOWN	None	7729	215	70	242255359	242274625	1	DIFF6, NEDD5	KIAA0158, hNedd5, Pnutl3
2	SEPT2	ENSG00000168385	ENST00000464128	processed_transcript	KNOWN	None	7729	None	None	242255359	242283224	1	DIFF6, NEDD5	KIAA0158, hNedd5, Pnutl3
2	SEPT2	ENSG00000168385	ENST00000425899	nonsense_mediated_decay	KNOWN	None	7729	225	74	242255361	242275485	1	DIFF6, NEDD5	KIAA0158, hNedd5, Pnutl3
2	SEPT2	ENSG00000168385	ENST00000467971	retained_intron	KNOWN	None	7729	None	None	242255361	242276972	1	DIFF6, NEDD5	KIAA0158, hNedd5, Pnutl3
2	SEPT2	ENSG00000168385	ENST00000443492	protein_coding	PUTATIVE	None	7729	363	120	242255366	242277094	1	DIFF6, NEDD5	KIAA0158, hNedd5, Pnutl3
2	SEPT2	ENSG00000168385	ENST00000437066	protein_coding	KNOWN	None	7729	393	130	242255368	242276848	1	DIFF6, NEDD5	KIAA0158, hNedd5, Pnutl3
2	SEPT2	ENSG00000168385	ENST00000484648	processed_transcript	PUTATIVE	None	7729	None	None	242255374	242256953	1	DIFF6, NEDD5	KIAA0158, hNedd5, Pnutl3
2	SEPT2	ENSG00000168385	ENST00000429791	protein_coding	KNOWN	None	7729	68	21	242255418	242265466	1	DIFF6, NEDD5	KIAA0158, hNedd5, Pnutl3
2	SEPT2	ENSG00000168385	ENST00000420786	protein_coding	KNOWN	None	7729	156	51	242255585	242274566	1	DIFF6, NEDD5	KIAA0158, hNedd5, Pnutl3
2	SEPT2	ENSG00000168385	ENST00000475823	processed_transcript	KNOWN	None	7729	None	None	242255898	242276862	1	DIFF6, NEDD5	KIAA0158, hNedd5, Pnutl3
2	SEPT2	ENSG00000168385	ENST00000449239	protein_coding	KNOWN	None	7729	520	172	242263569	242277131	1	DIFF6, NEDD5	KIAA0158, hNedd5, Pnutl3
2	SEPT2	ENSG00000168385	ENST00000366210	processed_transcript	KNOWN	None	7729	None	None	242263631	242276513	1	DIFF6, NEDD5	KIAA0158, hNedd5, Pnutl3
2	SEPT2	ENSG00000168385	ENST00000457874	protein_coding	NOVEL	None	7729	484	160	242275258	242277180	1	DIFF6, NEDD5	KIAA0158, hNedd5, Pnutl3
2	SEPT2	ENSG00000168385	ENST00000476841	retained_intron	KNOWN	None	7729	None	None	242275361	242276947	1	DIFF6, NEDD5	KIAA0158, hNedd5, Pnutl3
2	SEPT2	ENSG00000168385	ENST00000484167	retained_intron	KNOWN	None	7729	None	None	242276726	242283252	1	DIFF6, NEDD5	KIAA0158, hNedd5, Pnutl3
2	SEPT2	ENSG00000168385	ENST00000421717	protein_coding	NOVEL	None	7729	567	188	242276891	242291603	1	DIFF6, NEDD5	KIAA0158, hNedd5, Pnutl3
2	SEPT2	ENSG00000168385	ENST00000481500	retained_intron	KNOWN	None	7729	None	None	242277135	242286017	1	DIFF6, NEDD5	KIAA0158, hNedd5, Pnutl3
2	SEPT2	ENSG00000168385	ENST00000451310	protein_coding	KNOWN	None	7729	88	28	242289502	242292041	1	DIFF6, NEDD5	KIAA0158, hNedd5, Pnutl3
1	C1orf63	ENSG00000117616	ENST00000243189	protein_coding	KNOWN	CCDS260	25234	873	290	25568728	25574010	-1	None	DJ465N24.2.1
1	C1orf63	ENSG00000117616	ENST00000569495	processed_transcript	KNOWN	None	25234	None	None	25568740	25570596	-1	None	DJ465N24.2.1
1	C1orf63	ENSG00000117616	ENST00000498238	retained_intron	KNOWN	None	25234	None	None	25568740	25573945	-1	None	DJ465N24.2.1
1	C1orf63	ENSG00000117616	ENST00000566395	nonsense_mediated_decay	KNOWN	None	25234	253	83	25568746	25573026	-1	None	DJ465N24.2.1
1	C1orf63	ENSG00000117616	ENST00000565733	nonsense_mediated_decay	KNOWN	None	25234	550	182	25568746	25573131	-1	None	DJ465N24.2.1
1	C1orf63	ENSG00000117616	ENST00000568254	nonsense_mediated_decay	KNOWN	None	25234	681	226	25568746	25573948	-1	None	DJ465N24.2.1
1	C1orf63	ENSG00000117616	ENST00000473314	nonsense_mediated_decay	KNOWN	None	25234	681	226	25568747	25664656	-1	None	DJ465N24.2.1
1	C1orf63	ENSG00000117616	ENST00000570063	retained_intron	KNOWN	None	25234	None	None	25568769	25573118	-1	None	DJ465N24.2.1
1	C1orf63	ENSG00000117616	ENST00000564223	processed_transcript	KNOWN	None	25234	None	None	25568782	25570145	-1	None	DJ465N24.2.1
1	C1orf63	ENSG00000117616	ENST00000475766	processed_transcript	KNOWN	None	25234	None	None	25568854	25572507	-1	None	DJ465N24.2.1
1	C1orf63	ENSG00000117616	ENST00000491378	retained_intron	KNOWN	None	25234	None	None	25570562	25571699	-1	None	DJ465N24.2.1
1	C1orf63	ENSG00000117616	ENST00000568212	retained_intron	KNOWN	None	25234	None	None	25571490	25573945	-1	None	DJ465N24.2.1
1	C1orf63	ENSG00000117616	ENST00000568701	protein_coding	KNOWN	None	25234	387	128	25573068	25594406	-1	None	DJ465N24.2.1
1	C1orf63	ENSG00000117616	ENST00000561867	protein_coding	KNOWN	None	25234	288	95	25573167	25664591	-1	None	DJ465N24.2.1
1	C1orf63	ENSG00000117616	ENST00000568996	protein_coding	KNOWN	None	25234	269	88	25573186	25664704	-1	None	DJ465N24.2.1
1	C1orf63	ENSG00000117616	ENST00000450820	processed_transcript	KNOWN	None	25234	None	None	25579605	25594376	-1	None	DJ465N24.2.1
1	C1orf63	ENSG00000117616	ENST00000568399	processed_transcript	KNOWN	None	25234	None	None	25630878	25663724	-1	None	DJ465N24.2.1
1	C1orf63	ENSG00000117616	ENST00000562018	processed_transcript	KNOWN	None	25234	None	None	25631174	25663902	-1	None	DJ465N24.2.1
1	C1orf63	ENSG00000117616	ENST00000567741	processed_transcript	KNOWN	None	25234	None	None	25631287	25663892	-1	None	DJ465N24.2.1
1	C1orf63	ENSG00000117616	ENST00000566599	processed_transcript	KNOWN	None	25234	None	None	25661859	25664681	-1	None	DJ465N24.2.1
1	C1orf63	ENSG00000117616	ENST00000564413	processed_transcript	KNOWN	None	25234	None	None	25662337	25663709	-1	None	DJ465N24.2.1
1	C1orf63	ENSG00000117616	ENST00000417642	protein_coding	KNOWN	None	25234	876	291	25568747	25573945	-1	None	DJ465N24.2.1
1	C1orf63	ENSG00000117616	ENST00000431849	protein_coding	KNOWN	None	25234	681	226	25570981	25573945	-1	None	DJ465N24.2.1
7	UPP1	ENSG00000183696	ENST00000416681	protein_coding	KNOWN	None	12576	432	143	48128225	48143004	1	UP	UPASE, UPP, UDRPASE
7	UPP1	ENSG00000183696	ENST00000331803	protein_coding	KNOWN	CCDS5507	12576	933	310	48128241	48148330	1	UP	UPASE, UPP, UDRPASE
7	UPP1	ENSG00000183696	ENST00000432131	protein_coding	KNOWN	None	12576	89	28	48128258	48139311	1	UP	UPASE, UPP, UDRPASE
7	UPP1	ENSG00000183696	ENST00000457596	nonsense_mediated_decay	KNOWN	None	12576	111	36	48128324	48147899	1	UP	UPASE, UPP, UDRPASE
7	UPP1	ENSG00000183696	ENST00000421046	nonsense_mediated_decay	KNOWN	None	12576	516	171	48128824	48143588	1	UP	UPASE, UPP, UDRPASE
7	UPP1	ENSG00000183696	ENST00000395564	protein_coding	KNOWN	CCDS5507	12576	933	310	48128834	48148016	1	UP	UPASE, UPP, UDRPASE
7	UPP1	ENSG00000183696	ENST00000436673	protein_coding	KNOWN	None	12576	438	145	48128862	48143010	1	UP	UPASE, UPP, UDRPASE
7	UPP1	ENSG00000183696	ENST00000395560	nonsense_mediated_decay	KNOWN	None	12576	111	36	48128862	48148016	1	UP	UPASE, UPP, UDRPASE
7	UPP1	ENSG00000183696	ENST00000444999	nonsense_mediated_decay	KNOWN	None	12576	258	85	48128879	48146679	1	UP	UPASE, UPP, UDRPASE
7	UPP1	ENSG00000183696	ENST00000482015	processed_transcript	KNOWN	None	12576	None	None	48128941	48148016	1	UP	UPASE, UPP, UDRPASE
7	UPP1	ENSG00000183696	ENST00000417464	nonsense_mediated_decay	KNOWN	None	12576	111	36	48128973	48148016	1	UP	UPASE, UPP, UDRPASE
7	UPP1	ENSG00000183696	ENST00000495446	retained_intron	KNOWN	None	12576	None	None	48144243	48148012	1	UP	UPASE, UPP, UDRPASE
7	UPP1	ENSG00000183696	ENST00000341253	protein_coding	KNOWN	CCDS5507	12576	933	310	48128355	48148314	1	UP	UPASE, UPP, UDRPASE
7	UPP1	ENSG00000183696	ENST00000429491	protein_coding	KNOWN	None	12576	522	173	48128973	48148012	1	UP	UPASE, UPP, UDRPASE
X	None	ENSG00000237782	ENST00000422979	processed_pseudogene	KNOWN	None	None	None	None	45240772	45241240	-1	None	None
X	None	ENSG00000237782	ENST00000534915	processed_pseudogene	KNOWN	None	None	None	None	45240813	45241325	-1	None	None
16	ATXN2L	ENSG00000168488	ENST00000563314	retained_intron	KNOWN	None	31326	None	None	28834356	28848558	1	None	A2lp, A2D
16	ATXN2L	ENSG00000168488	ENST00000340394	protein_coding	KNOWN	CCDS10639	31326	3135	1044	28834369	28848558	1	None	A2lp, A2D
16	ATXN2L	ENSG00000168488	ENST00000325215	protein_coding	KNOWN	CCDS32423	31326	3189	1062	28834414	28848553	1	None	A2lp, A2D
16	ATXN2L	ENSG00000168488	ENST00000395547	protein_coding	KNOWN	CCDS10640	31326	3294	1097	28834414	28848558	1	None	A2lp, A2D
16	ATXN2L	ENSG00000168488	ENST00000336783	protein_coding	KNOWN	CCDS10641	31326	3228	1075	28834414	28848558	1	None	A2lp, A2D
16	ATXN2L	ENSG00000168488	ENST00000382686	protein_coding	KNOWN	CCDS45451	31326	3135	1044	28834414	28848558	1	None	A2lp, A2D
16	ATXN2L	ENSG00000168488	ENST00000564304	protein_coding	NOVEL	None	31326	3207	1068	28834416	28848240	1	None	A2lp, A2D
16	ATXN2L	ENSG00000168488	ENST00000570200	protein_coding	NOVEL	CCDS58443	31326	3189	1062	28834573	28848536	1	None	A2lp, A2D
16	ATXN2L	ENSG00000168488	ENST00000562867	retained_intron	KNOWN	None	31326	None	None	28834803	28837926	1	None	A2lp, A2D
16	ATXN2L	ENSG00000168488	ENST00000568266	protein_coding	PUTATIVE	None	31326	1008	335	28835459	28842089	1	None	A2lp, A2D
16	ATXN2L	ENSG00000168488	ENST00000564656	protein_coding	PUTATIVE	None	31326	274	90	28835772	28838206	1	None	A2lp, A2D
16	ATXN2L	ENSG00000168488	ENST00000561539	retained_intron	KNOWN	None	31326	None	None	28836687	28837505	1	None	A2lp, A2D
16	ATXN2L	ENSG00000168488	ENST00000566080	retained_intron	KNOWN	None	31326	None	None	28836692	28837241	1	None	A2lp, A2D
16	ATXN2L	ENSG00000168488	ENST00000565971	nonsense_mediated_decay	KNOWN	None	31326	654	217	28837091	28848558	1	None	A2lp, A2D
16	ATXN2L	ENSG00000168488	ENST00000570284	processed_transcript	KNOWN	None	31326	None	None	28840722	28843669	1	None	A2lp, A2D
16	ATXN2L	ENSG00000168488	ENST00000564284	retained_intron	KNOWN	None	31326	None	None	28841099	28842257	1	None	A2lp, A2D
16	ATXN2L	ENSG00000168488	ENST00000565845	processed_transcript	KNOWN	None	31326	None	None	28844517	28846508	1	None	A2lp, A2D
16	ATXN2L	ENSG00000168488	ENST00000562583	nonsense_mediated_decay	KNOWN	None	31326	1206	401	28844827	28848558	1	None	A2lp, A2D
16	ATXN2L	ENSG00000168488	ENST00000564035	retained_intron	KNOWN	None	31326	None	None	28845177	28846637	1	None	A2lp, A2D
16	ATXN2L	ENSG00000168488	ENST00000566946	protein_coding	NOVEL	None	31326	1206	401	28845386	28848542	1	None	A2lp, A2D
16	ATXN2L	ENSG00000168488	ENST00000561732	retained_intron	KNOWN	None	31326	None	None	28845650	28846746	1	None	A2lp, A2D
16	ATXN2L	ENSG00000168488	ENST00000562686	retained_intron	KNOWN	None	31326	None	None	28846173	28846751	1	None	A2lp, A2D
16	ATXN2L	ENSG00000168488	ENST00000569318	protein_coding	NOVEL	None	31326	559	185	28846420	28847397	1	None	A2lp, A2D
16	ATXN2L	ENSG00000168488	ENST00000566007	protein_coding	PUTATIVE	None	31326	386	127	28846916	28848250	1	None	A2lp, A2D
16	ATXN2L	ENSG00000168488	ENST00000564162	protein_coding	NOVEL	None	31326	333	110	28846990	28848558	1	None	A2lp, A2D
16	ATXN2L	ENSG00000168488	ENST00000567024	protein_coding	KNOWN	None	31326	35	10	28847767	28848553	1	None	A2lp, A2D
16	None	ENSG00000261470	ENST00000568711	antisense	KNOWN	None	None	None	None	52112534	52114401	1	None	None
1	MROH9	ENSG00000117501	ENST00000367758	protein_coding	KNOWN	CCDS41436	26287	1722	573	170904667	170967947	1	C1orf129	FLJ23550, ARMC11
1	MROH9	ENSG00000117501	ENST00000426136	protein_coding	KNOWN	None	26287	562	186	170961458	170984284	1	C1orf129	FLJ23550, ARMC11
1	MROH9	ENSG00000117501	ENST00000367759	protein_coding	KNOWN	CCDS53429	26287	2586	861	170904612	171033906	1	C1orf129	FLJ23550, ARMC11
X	None	ENSG00000229563	ENST00000435394	processed_transcript	KNOWN	None	None	None	None	45364633	45382889	1	None	None
X	None	ENSG00000229563	ENST00000422047	processed_transcript	KNOWN	None	None	None	None	45369729	45489447	1	None	None
16	LINC00919	ENSG00000260268	ENST00000561513	lincRNA	KNOWN	None	48610	None	None	52116977	52119021	-1	None	None
16	LINC00919	ENSG00000260268	ENST00000565742	lincRNA	KNOWN	None	48610	None	None	52116977	52119021	-1	None	None
6	KHDC1L	ENSG00000256980	ENST00000370388	protein_coding	KNOWN	CCDS47450	37274	387	128	73933267	73935175	-1	None	RP11-257K9.7
6	KHDC1L	ENSG00000256980	ENST00000471312	processed_transcript	KNOWN	None	37274	None	None	73933979	73935493	-1	None	RP11-257K9.7
17	GLOD4	ENSG00000167699	ENST00000575800	processed_transcript	PUTATIVE	None	14111	None	None	660337	663401	-1	C17orf25	CGI-150, HC71
17	GLOD4	ENSG00000167699	ENST00000301329	protein_coding	KNOWN	CCDS32520	14111	897	298	662337	685581	-1	C17orf25	CGI-150, HC71
17	GLOD4	ENSG00000167699	ENST00000571073	retained_intron	KNOWN	None	14111	None	None	662563	680932	-1	C17orf25	CGI-150, HC71
17	GLOD4	ENSG00000167699	ENST00000301328	protein_coding	KNOWN	None	14111	942	313	662570	685519	-1	C17orf25	CGI-150, HC71
17	GLOD4	ENSG00000167699	ENST00000576239	retained_intron	KNOWN	None	14111	None	None	662692	685534	-1	C17orf25	CGI-150, HC71
17	GLOD4	ENSG00000167699	ENST00000574554	nonsense_mediated_decay	KNOWN	None	14111	231	76	663262	685507	-1	C17orf25	CGI-150, HC71
17	GLOD4	ENSG00000167699	ENST00000575528	nonsense_mediated_decay	KNOWN	None	14111	176	57	663304	674619	-1	C17orf25	CGI-150, HC71
17	GLOD4	ENSG00000167699	ENST00000573137	protein_coding	NOVEL	None	14111	347	114	663313	674644	-1	C17orf25	CGI-150, HC71
17	GLOD4	ENSG00000167699	ENST00000575851	nonsense_mediated_decay	KNOWN	None	14111	111	36	663338	685520	-1	C17orf25	CGI-150, HC71
17	GLOD4	ENSG00000167699	ENST00000576419	protein_coding	NOVEL	None	14111	681	226	663428	685519	-1	C17orf25	CGI-150, HC71
17	GLOD4	ENSG00000167699	ENST00000575790	nonsense_mediated_decay	KNOWN	None	14111	180	59	673284	685531	-1	C17orf25	CGI-150, HC71
17	GLOD4	ENSG00000167699	ENST00000574581	nonsense_mediated_decay	KNOWN	None	14111	159	52	673669	685495	-1	C17orf25	CGI-150, HC71
17	GLOD4	ENSG00000167699	ENST00000572220	nonsense_mediated_decay	KNOWN	None	14111	111	36	674691	685516	-1	C17orf25	CGI-150, HC71
17	GLOD4	ENSG00000167699	ENST00000576670	nonsense_mediated_decay	KNOWN	None	14111	205	67	680121	685433	-1	C17orf25	CGI-150, HC71
17	GLOD4	ENSG00000167699	ENST00000574354	retained_intron	KNOWN	None	14111	None	None	681542	685520	-1	C17orf25	CGI-150, HC71
17	GLOD4	ENSG00000167699	ENST00000576750	retained_intron	KNOWN	None	14111	None	None	681663	685520	-1	C17orf25	CGI-150, HC71
17	GLOD4	ENSG00000167699	ENST00000536578	protein_coding	KNOWN	None	14111	870	289	663262	685507	-1	C17orf25	CGI-150, HC71
3	KRBOX1	ENSG00000240747	ENST00000451200	processed_transcript	KNOWN	None	38708	None	None	42850938	43073827	1	None	None
3	KRBOX1	ENSG00000240747	ENST00000426937	protein_coding	PUTATIVE	CCDS54572	38708	387	128	42850975	42984284	1	None	None
3	KRBOX1	ENSG00000240747	ENST00000418093	processed_transcript	KNOWN	None	38708	None	None	42977834	43074039	1	None	None
3	KRBOX1	ENSG00000240747	ENST00000383748	protein_coding	NOVEL	CCDS54572	38708	387	128	42977852	42984284	1	None	None
3	KRBOX1	ENSG00000240747	ENST00000443313	nonsense_mediated_decay	KNOWN	None	38708	321	106	42977884	43097363	1	None	None
3	KRBOX1	ENSG00000240747	ENST00000446977	processed_transcript	KNOWN	None	38708	None	None	42978351	43073784	1	None	None
3	KRBOX1	ENSG00000240747	ENST00000418176	protein_coding	NOVEL	CCDS54572	38708	387	128	42978354	42984284	1	None	None
3	KRBOX1	ENSG00000240747	ENST00000463888	retained_intron	KNOWN	None	38708	None	None	42982685	42984281	1	None	None
3	MAGI1	ENSG00000151276	ENST00000330909	protein_coding	KNOWN	CCDS33781	946	3864	1287	65339200	66023983	-1	BAIAP1	BAP1, MAGI-1, TNRC19, AIP3, WWP3
3	MAGI1	ENSG00000151276	ENST00000402939	protein_coding	KNOWN	CCDS33780	946	4389	1462	65342053	66023983	-1	BAIAP1	BAP1, MAGI-1, TNRC19, AIP3, WWP3
3	MAGI1	ENSG00000151276	ENST00000463103	protein_coding	PUTATIVE	None	946	3396	1131	65346027	65583410	-1	BAIAP1	BAP1, MAGI-1, TNRC19, AIP3, WWP3
3	MAGI1	ENSG00000151276	ENST00000483466	protein_coding	KNOWN	CCDS2904	946	3771	1256	65346046	66024225	-1	BAIAP1	BAP1, MAGI-1, TNRC19, AIP3, WWP3
3	MAGI1	ENSG00000151276	ENST00000460329	protein_coding	PUTATIVE	None	946	3410	1135	65346540	65583561	-1	BAIAP1	BAP1, MAGI-1, TNRC19, AIP3, WWP3
3	MAGI1	ENSG00000151276	ENST00000497477	protein_coding	NOVEL	None	946	3483	1160	65346752	66023983	-1	BAIAP1	BAP1, MAGI-1, TNRC19, AIP3, WWP3
3	MAGI1	ENSG00000151276	ENST00000472257	protein_coding	NOVEL	None	946	3045	1014	65346824	65464381	-1	BAIAP1	BAP1, MAGI-1, TNRC19, AIP3, WWP3
3	MAGI1	ENSG00000151276	ENST00000480729	processed_transcript	KNOWN	None	946	None	None	65361440	65366506	-1	BAIAP1	BAP1, MAGI-1, TNRC19, AIP3, WWP3
3	MAGI1	ENSG00000151276	ENST00000468159	retained_intron	KNOWN	None	946	None	None	65365019	65387379	-1	BAIAP1	BAP1, MAGI-1, TNRC19, AIP3, WWP3
3	MAGI1	ENSG00000151276	ENST00000470990	processed_transcript	KNOWN	None	946	None	None	65415751	65893350	-1	BAIAP1	BAP1, MAGI-1, TNRC19, AIP3, WWP3
3	MAGI1	ENSG00000151276	ENST00000494271	retained_intron	KNOWN	None	946	None	None	65416470	65433912	-1	BAIAP1	BAP1, MAGI-1, TNRC19, AIP3, WWP3
3	MAGI1	ENSG00000151276	ENST00000479287	protein_coding	NOVEL	None	946	556	184	65422887	65464309	-1	BAIAP1	BAP1, MAGI-1, TNRC19, AIP3, WWP3
3	MAGI1	ENSG00000151276	ENST00000464060	retained_intron	KNOWN	None	946	None	None	65438257	66024509	-1	BAIAP1	BAP1, MAGI-1, TNRC19, AIP3, WWP3
3	MAGI1	ENSG00000151276	ENST00000476703	retained_intron	KNOWN	None	946	None	None	65455427	65464367	-1	BAIAP1	BAP1, MAGI-1, TNRC19, AIP3, WWP3
3	MAGI1	ENSG00000151276	ENST00000476403	processed_transcript	KNOWN	None	946	None	None	65455958	65535175	-1	BAIAP1	BAP1, MAGI-1, TNRC19, AIP3, WWP3
3	MAGI1	ENSG00000151276	ENST00000496734	processed_transcript	KNOWN	None	946	None	None	65456042	65518570	-1	BAIAP1	BAP1, MAGI-1, TNRC19, AIP3, WWP3
3	MAGI1	ENSG00000151276	ENST00000460754	retained_intron	KNOWN	None	946	None	None	65858490	65940233	-1	BAIAP1	BAP1, MAGI-1, TNRC19, AIP3, WWP3
3	GP5	ENSG00000178732	ENST00000401815	protein_coding	KNOWN	CCDS3307	4443	1683	560	194115550	194119083	-1	None	CD42d
3	GP5	ENSG00000178732	ENST00000323007	protein_coding	KNOWN	CCDS3307	4443	1683	560	194115550	194119995	-1	None	CD42d
6	None	ENSG00000252901	ENST00000517092	miRNA	NOVEL	None	None	None	None	30056598	30056730	-1	None	None
19	SIGLEC20P	ENSG00000268336	ENST00000595243	unprocessed_pseudogene	KNOWN	None	15609	None	None	51688161	51694065	1	SIGLECP4	None
6	TRIM31-AS1	ENSG00000231226	ENST00000440874	antisense	KNOWN	None	39761	None	None	30073017	30082501	1	None	None
16	None	ENSG00000261749	ENST00000566439	lincRNA	KNOWN	None	None	None	None	52119192	52132979	1	None	None
15	LINC00923	ENSG00000251209	ENST00000503768	nonsense_mediated_decay	KNOWN	None	28088	345	114	98285448	98417780	-1	None	None
15	LINC00923	ENSG00000251209	ENST00000503874	protein_coding	PUTATIVE	None	28088	363	120	98285852	98417780	-1	None	None
15	LINC00923	ENSG00000251209	ENST00000558179	processed_transcript	KNOWN	None	28088	None	None	98382044	98417235	-1	None	None
6	None	ENSG00000252228	ENST00000516419	snoRNA	NOVEL	None	None	None	None	30100582	30100743	-1	None	None
6	PAIP1P1	ENSG00000233892	ENST00000446875	processed_pseudogene	KNOWN	None	18240	None	None	30154575	30156391	-1	None	bQB44E15.5, bPG254M11.3, bCX300M20.3
19	None	ENSG00000268652	ENST00000595913	processed_pseudogene	KNOWN	None	None	None	None	51697374	51698796	-1	None	None
16	None	ENSG00000260975	ENST00000569998	lincRNA	KNOWN	None	None	None	None	52231924	52261868	-1	None	None
4	None	ENSG00000248439	ENST00000512518	processed_pseudogene	KNOWN	None	None	None	None	113451527	113451828	-1	None	None
6	HCG17	ENSG00000270604	ENST00000455957	lincRNA	KNOWN	None	31339	None	None	30201816	30202254	-1	None	NCRNA00046, LINC00046
6	HCG17	ENSG00000270604	ENST00000453558	lincRNA	KNOWN	None	31339	None	None	30201816	30293911	-1	None	NCRNA00046, LINC00046
19	SIGLEC21P	ENSG00000269253	ENST00000598990	unprocessed_pseudogene	KNOWN	None	15610	None	None	51702111	51704705	1	SIGLECP5	None
22	CHEK2	ENSG00000183765	ENST00000434810	protein_coding	NOVEL	None	16627	830	275	29083731	29107919	-1	RAD53	CDS1, CHK2, HuCds1, PP1425, bA444G7
22	CHEK2	ENSG00000183765	ENST00000456369	protein_coding	NOVEL	None	16627	434	143	29083731	29107943	-1	RAD53	CDS1, CHK2, HuCds1, PP1425, bA444G7
22	CHEK2	ENSG00000183765	ENST00000416671	nonsense_mediated_decay	KNOWN	None	16627	624	207	29083731	29138410	-1	RAD53	CDS1, CHK2, HuCds1, PP1425, bA444G7
22	CHEK2	ENSG00000183765	ENST00000404276	protein_coding	KNOWN	CCDS13843	16627	1632	543	29083732	29130709	-1	RAD53	CDS1, CHK2, HuCds1, PP1425, bA444G7
22	CHEK2	ENSG00000183765	ENST00000328354	protein_coding	KNOWN	CCDS13843	16627	1632	543	29083732	29137832	-1	RAD53	CDS1, CHK2, HuCds1, PP1425, bA444G7
22	CHEK2	ENSG00000183765	ENST00000472807	retained_intron	KNOWN	None	16627	None	None	29083737	29085398	-1	RAD53	CDS1, CHK2, HuCds1, PP1425, bA444G7
22	CHEK2	ENSG00000183765	ENST00000405598	protein_coding	KNOWN	CCDS13843	16627	1632	543	29083750	29137788	-1	RAD53	CDS1, CHK2, HuCds1, PP1425, bA444G7
22	CHEK2	ENSG00000183765	ENST00000382580	protein_coding	KNOWN	CCDS33629	16627	1761	586	29083751	29137826	-1	RAD53	CDS1, CHK2, HuCds1, PP1425, bA444G7
22	CHEK2	ENSG00000183765	ENST00000448511	nonsense_mediated_decay	KNOWN	None	16627	498	165	29083875	29130709	-1	RAD53	CDS1, CHK2, HuCds1, PP1425, bA444G7
22	CHEK2	ENSG00000183765	ENST00000417588	nonsense_mediated_decay	KNOWN	None	16627	612	203	29083875	29130709	-1	RAD53	CDS1, CHK2, HuCds1, PP1425, bA444G7
22	CHEK2	ENSG00000183765	ENST00000433728	nonsense_mediated_decay	KNOWN	None	16627	870	289	29083875	29130709	-1	RAD53	CDS1, CHK2, HuCds1, PP1425, bA444G7
22	CHEK2	ENSG00000183765	ENST00000403642	protein_coding	KNOWN	None	16627	1359	452	29083885	29130709	-1	RAD53	CDS1, CHK2, HuCds1, PP1425, bA444G7
22	CHEK2	ENSG00000183765	ENST00000402731	protein_coding	KNOWN	CCDS13844	16627	1545	514	29083885	29130709	-1	RAD53	CDS1, CHK2, HuCds1, PP1425, bA444G7
22	CHEK2	ENSG00000183765	ENST00000447421	protein_coding	NOVEL	None	16627	897	298	29092886	29130715	-1	RAD53	CDS1, CHK2, HuCds1, PP1425, bA444G7
22	CHEK2	ENSG00000183765	ENST00000433028	nonsense_mediated_decay	KNOWN	None	16627	486	161	29092890	29137794	-1	RAD53	CDS1, CHK2, HuCds1, PP1425, bA444G7
22	CHEK2	ENSG00000183765	ENST00000464581	processed_transcript	KNOWN	None	16627	None	None	29092911	29108134	-1	RAD53	CDS1, CHK2, HuCds1, PP1425, bA444G7
22	CHEK2	ENSG00000183765	ENST00000491919	retained_intron	KNOWN	None	16627	None	None	29092932	29108245	-1	RAD53	CDS1, CHK2, HuCds1, PP1425, bA444G7
22	CHEK2	ENSG00000183765	ENST00000425190	protein_coding	PUTATIVE	None	16627	365	120	29092956	29137799	-1	RAD53	CDS1, CHK2, HuCds1, PP1425, bA444G7
22	CHEK2	ENSG00000183765	ENST00000439346	nonsense_mediated_decay	KNOWN	None	16627	174	57	29095752	29121236	-1	RAD53	CDS1, CHK2, HuCds1, PP1425, bA444G7
22	CHEK2	ENSG00000183765	ENST00000439200	protein_coding	NOVEL	None	16627	885	294	29107897	29137771	-1	RAD53	CDS1, CHK2, HuCds1, PP1425, bA444G7
22	CHEK2	ENSG00000183765	ENST00000454252	nonsense_mediated_decay	KNOWN	None	16627	138	45	29120953	29126489	-1	RAD53	CDS1, CHK2, HuCds1, PP1425, bA444G7
22	CHEK2	ENSG00000183765	ENST00000398017	protein_coding	PUTATIVE	None	16627	516	171	29121071	29137790	-1	RAD53	CDS1, CHK2, HuCds1, PP1425, bA444G7
22	CHEK2	ENSG00000183765	ENST00000348295	protein_coding	KNOWN	CCDS13844	16627	1545	514	29083731	29137822	-1	RAD53	CDS1, CHK2, HuCds1, PP1425, bA444G7
22	CHEK2	ENSG00000183765	ENST00000382578	protein_coding	KNOWN	None	16627	1359	452	29083731	29137822	-1	RAD53	CDS1, CHK2, HuCds1, PP1425, bA444G7
22	CHEK2	ENSG00000183765	ENST00000382565	protein_coding	KNOWN	None	16627	492	163	29083731	29137822	-1	RAD53	CDS1, CHK2, HuCds1, PP1425, bA444G7
22	CHEK2	ENSG00000183765	ENST00000544772	protein_coding	KNOWN	CCDS58798	16627	969	322	29083731	29138410	-1	RAD53	CDS1, CHK2, HuCds1, PP1425, bA444G7
22	CHEK2	ENSG00000183765	ENST00000382566	protein_coding	KNOWN	None	16627	870	289	29083731	29137822	-1	RAD53	CDS1, CHK2, HuCds1, PP1425, bA444G7
19	ETFB	ENSG00000105379	ENST00000354232	protein_coding	KNOWN	CCDS33085	3482	1041	346	51848423	51860360	-1	None	None
19	ETFB	ENSG00000105379	ENST00000309244	protein_coding	KNOWN	CCDS12828	3482	768	255	51848425	51869672	-1	None	None
19	ETFB	ENSG00000105379	ENST00000596253	protein_coding	NOVEL	None	3482	535	177	51848539	51869620	-1	None	None
19	ETFB	ENSG00000105379	ENST00000594361	retained_intron	KNOWN	None	3482	None	None	51848942	51851784	-1	None	None
19	ETFB	ENSG00000105379	ENST00000593992	retained_intron	KNOWN	None	3482	None	None	51853441	51869603	-1	None	None
19	TNPO2	ENSG00000105576	ENST00000356861	protein_coding	KNOWN	CCDS45992	19998	2664	887	12810015	12833169	-1	None	IPO3, KPNB2B, FLJ12155, TRN2
19	TNPO2	ENSG00000105576	ENST00000450764	protein_coding	KNOWN	CCDS45992	19998	2664	887	12810487	12832529	-1	None	IPO3, KPNB2B, FLJ12155, TRN2
19	TNPO2	ENSG00000105576	ENST00000589149	protein_coding	PUTATIVE	None	19998	354	117	12811868	12813659	-1	None	IPO3, KPNB2B, FLJ12155, TRN2
19	TNPO2	ENSG00000105576	ENST00000592287	protein_coding	KNOWN	CCDS45991	19998	2694	897	12811967	12833386	-1	None	IPO3, KPNB2B, FLJ12155, TRN2
19	TNPO2	ENSG00000105576	ENST00000588216	protein_coding	KNOWN	CCDS45992	19998	2664	887	12812141	12834825	-1	None	IPO3, KPNB2B, FLJ12155, TRN2
19	TNPO2	ENSG00000105576	ENST00000587155	retained_intron	KNOWN	None	19998	None	None	12812413	12813864	-1	None	IPO3, KPNB2B, FLJ12155, TRN2
19	TNPO2	ENSG00000105576	ENST00000585886	non_stop_decay	KNOWN	None	19998	2300	765	12813642	12833339	-1	None	IPO3, KPNB2B, FLJ12155, TRN2
19	TNPO2	ENSG00000105576	ENST00000587068	retained_intron	KNOWN	None	19998	None	None	12814490	12816304	-1	None	IPO3, KPNB2B, FLJ12155, TRN2
19	TNPO2	ENSG00000105576	ENST00000589572	nonsense_mediated_decay	KNOWN	None	19998	156	51	12814571	12817096	-1	None	IPO3, KPNB2B, FLJ12155, TRN2
19	TNPO2	ENSG00000105576	ENST00000588491	nonsense_mediated_decay	KNOWN	None	19998	358	118	12814572	12817488	-1	None	IPO3, KPNB2B, FLJ12155, TRN2
19	TNPO2	ENSG00000105576	ENST00000589956	processed_transcript	KNOWN	None	19998	None	None	12821557	12833354	-1	None	IPO3, KPNB2B, FLJ12155, TRN2
19	TNPO2	ENSG00000105576	ENST00000588151	retained_intron	KNOWN	None	19998	None	None	12822057	12826080	-1	None	IPO3, KPNB2B, FLJ12155, TRN2
19	TNPO2	ENSG00000105576	ENST00000586775	nonsense_mediated_decay	KNOWN	None	19998	330	109	12825718	12833101	-1	None	IPO3, KPNB2B, FLJ12155, TRN2
19	TNPO2	ENSG00000105576	ENST00000588484	retained_intron	KNOWN	None	19998	None	None	12826012	12830101	-1	None	IPO3, KPNB2B, FLJ12155, TRN2
19	TNPO2	ENSG00000105576	ENST00000587654	nonsense_mediated_decay	KNOWN	None	19998	330	109	12826255	12833351	-1	None	IPO3, KPNB2B, FLJ12155, TRN2
19	TNPO2	ENSG00000105576	ENST00000589337	protein_coding	KNOWN	None	19998	256	84	12829912	12834746	-1	None	IPO3, KPNB2B, FLJ12155, TRN2
19	TNPO2	ENSG00000105576	ENST00000590781	protein_coding	KNOWN	None	19998	169	55	12830081	12834427	-1	None	IPO3, KPNB2B, FLJ12155, TRN2
19	TNPO2	ENSG00000105576	ENST00000425528	protein_coding	KNOWN	CCDS45991	19998	2694	897	12810008	12834810	-1	None	IPO3, KPNB2B, FLJ12155, TRN2
19	TNPO2	ENSG00000105576	ENST00000441499	protein_coding	KNOWN	CCDS45992	19998	2664	887	12810008	12834810	-1	None	IPO3, KPNB2B, FLJ12155, TRN2
X	KRT8P14	ENSG00000214282	ENST00000414254	processed_pseudogene	KNOWN	None	33366	None	None	45491537	45492978	-1	None	None
18	RAB31	ENSG00000168461	ENST00000578921	protein_coding	KNOWN	CCDS45826	9771	588	195	9708162	9862548	1	None	Rab22B
18	RAB31	ENSG00000168461	ENST00000578734	nonsense_mediated_decay	KNOWN	None	9771	78	25	9708272	9859466	1	None	Rab22B
18	RAB31	ENSG00000168461	ENST00000581109	nonsense_mediated_decay	KNOWN	None	9771	225	74	9708304	9859283	1	None	Rab22B
18	RAB31	ENSG00000168461	ENST00000583137	nonsense_mediated_decay	KNOWN	None	9771	180	59	9708320	9758148	1	None	Rab22B
18	RAB31	ENSG00000168461	ENST00000435762	processed_transcript	KNOWN	None	9771	None	None	9775284	9859589	1	None	Rab22B
18	RAB31	ENSG00000168461	ENST00000578737	processed_transcript	KNOWN	None	9771	None	None	9792150	9816155	1	None	Rab22B
18	RAB31	ENSG00000168461	ENST00000583921	processed_transcript	KNOWN	None	9771	None	None	9797356	9859369	1	None	Rab22B
18	RAB31	ENSG00000168461	ENST00000580361	retained_intron	KNOWN	None	9771	None	None	9814045	9815435	1	None	Rab22B
18	RAB31	ENSG00000168461	ENST00000577796	processed_transcript	KNOWN	None	9771	None	None	9814651	9845689	1	None	Rab22B
18	RAB31	ENSG00000168461	ENST00000577371	processed_transcript	KNOWN	None	9771	None	None	9814718	9845676	1	None	Rab22B
18	RAB31	ENSG00000168461	ENST00000580795	processed_transcript	KNOWN	None	9771	None	None	9849593	9859505	1	None	Rab22B
18	RAB31	ENSG00000168461	ENST00000577284	processed_transcript	KNOWN	None	9771	None	None	9856041	9859517	1	None	Rab22B
19	C19orf52	ENSG00000142444	ENST00000270502	protein_coding	KNOWN	CCDS12252	25152	783	260	11039409	11040930	1	None	None
19	C19orf52	ENSG00000142444	ENST00000588807	nonsense_mediated_decay	KNOWN	None	25152	82	26	11040297	11044191	1	None	None
19	C19orf52	ENSG00000142444	ENST00000593162	processed_transcript	KNOWN	None	25152	None	None	11042744	11044211	1	None	None
5	None	ENSG00000248870	ENST00000510845	lincRNA	KNOWN	None	None	None	None	81882595	81883230	-1	None	None
1	C1orf127	ENSG00000175262	ENST00000476357	retained_intron	KNOWN	None	26730	None	None	11006528	11009808	-1	None	FLJ37118
1	C1orf127	ENSG00000175262	ENST00000418570	protein_coding	PUTATIVE	None	26730	1976	657	11006530	11024258	-1	None	FLJ37118
1	C1orf127	ENSG00000175262	ENST00000468348	protein_coding	PUTATIVE	None	26730	208	68	11006532	11007927	-1	None	FLJ37118
1	C1orf127	ENSG00000175262	ENST00000520253	protein_coding	PUTATIVE	None	26730	2327	774	11006787	11036272	-1	None	FLJ37118
1	C1orf127	ENSG00000175262	ENST00000377004	protein_coding	KNOWN	CCDS53267	26730	2472	823	11006530	11042094	-1	None	FLJ37118
1	C1orf127	ENSG00000175262	ENST00000377008	protein_coding	KNOWN	None	26730	1971	656	11006530	11042094	-1	None	FLJ37118
19	SIGLEC22P	ENSG00000268849	ENST00000602065	processed_transcript	KNOWN	None	15611	None	None	51714336	51715144	1	SIGLECP6	None
19	SIGLEC22P	ENSG00000268849	ENST00000599104	transcribed_unprocessed_pseudogene	KNOWN	None	15611	None	None	51714366	51715344	1	SIGLECP6	None
X	FIGF	ENSG00000165197	ENST00000297904	protein_coding	KNOWN	CCDS14166	3708	1065	354	15363713	15402498	-1	VEGFD	VEGF-D
X	FIGF	ENSG00000165197	ENST00000488351	processed_transcript	KNOWN	None	3708	None	None	15364094	15365597	-1	VEGFD	VEGF-D
15	GOLGA6L3	ENSG00000188388	ENST00000507199	unprocessed_pseudogene	KNOWN	None	37441	None	None	85783703	85790401	1	None	None
15	GOLGA6L3	ENSG00000188388	ENST00000539445	unprocessed_pseudogene	KNOWN	None	37441	None	None	85787786	85790410	1	None	None
X	None	ENSG00000204915	ENST00000377927	processed_pseudogene	KNOWN	None	None	None	None	45590241	45591177	1	None	None
5	None	ENSG00000249100	ENST00000509506	lincRNA	KNOWN	None	None	None	None	82061223	82062152	1	None	None
6	TRIM26BP	ENSG00000236475	ENST00000427723	unprocessed_pseudogene	KNOWN	None	31338	None	None	30206078	30210056	1	TRIM26P	Em:AB023053.1, TRIM26P1
12	CACNA2D4	ENSG00000151062	ENST00000382722	protein_coding	KNOWN	CCDS44785	20202	3414	1137	1901123	2028002	-1	None	None
12	CACNA2D4	ENSG00000151062	ENST00000537784	nonsense_mediated_decay	KNOWN	None	20202	577	191	1901129	1963203	-1	None	None
12	CACNA2D4	ENSG00000151062	ENST00000280663	retained_intron	KNOWN	None	20202	None	None	1901129	2027832	-1	None	None
12	CACNA2D4	ENSG00000151062	ENST00000444595	nonsense_mediated_decay	KNOWN	None	20202	1806	601	1901939	2027803	-1	None	None
12	CACNA2D4	ENSG00000151062	ENST00000545595	nonsense_mediated_decay	KNOWN	None	20202	126	41	1901968	1920904	-1	None	None
12	CACNA2D4	ENSG00000151062	ENST00000538450	protein_coding	PUTATIVE	None	20202	804	267	1902209	1920957	-1	None	None
12	CACNA2D4	ENSG00000151062	ENST00000587995	protein_coding	NOVEL	None	20202	3339	1112	1902335	2027697	-1	None	None
12	CACNA2D4	ENSG00000151062	ENST00000585385	nonsense_mediated_decay	KNOWN	None	20202	171	56	1902674	1920926	-1	None	None
12	CACNA2D4	ENSG00000151062	ENST00000541444	retained_intron	KNOWN	None	20202	None	None	1902689	1906826	-1	None	None
12	CACNA2D4	ENSG00000151062	ENST00000588077	protein_coding	PUTATIVE	None	20202	3222	1073	1902732	2024393	-1	None	None
12	CACNA2D4	ENSG00000151062	ENST00000538027	protein_coding	PUTATIVE	None	20202	849	282	1902769	1920926	-1	None	None
12	CACNA2D4	ENSG00000151062	ENST00000536846	protein_coding	NOVEL	None	20202	854	283	1902780	1920886	-1	None	None
12	CACNA2D4	ENSG00000151062	ENST00000543405	retained_intron	KNOWN	None	20202	None	None	1904226	1906723	-1	None	None
12	CACNA2D4	ENSG00000151062	ENST00000586184	protein_coding	NOVEL	None	20202	3465	1154	1904275	2027639	-1	None	None
12	CACNA2D4	ENSG00000151062	ENST00000588896	retained_intron	KNOWN	None	20202	None	None	1904280	1905115	-1	None	None
12	CACNA2D4	ENSG00000151062	ENST00000585708	protein_coding	PUTATIVE	None	20202	3273	1090	1904309	2024393	-1	None	None
12	CACNA2D4	ENSG00000151062	ENST00000536818	retained_intron	KNOWN	None	20202	None	None	1904502	1906690	-1	None	None
12	CACNA2D4	ENSG00000151062	ENST00000537923	nonsense_mediated_decay	KNOWN	None	20202	171	56	1904839	1920906	-1	None	None
12	CACNA2D4	ENSG00000151062	ENST00000589502	retained_intron	KNOWN	None	20202	None	None	1908842	1920893	-1	None	None
12	CACNA2D4	ENSG00000151062	ENST00000541616	retained_intron	KNOWN	None	20202	None	None	1909173	1909922	-1	None	None
12	CACNA2D4	ENSG00000151062	ENST00000541331	retained_intron	KNOWN	None	20202	None	None	1909346	1920927	-1	None	None
12	CACNA2D4	ENSG00000151062	ENST00000540728	retained_intron	KNOWN	None	20202	None	None	1909373	1920936	-1	None	None
12	CACNA2D4	ENSG00000151062	ENST00000542340	retained_intron	KNOWN	None	20202	None	None	1909394	1920964	-1	None	None
12	CACNA2D4	ENSG00000151062	ENST00000585732	protein_coding	PUTATIVE	None	20202	2343	780	1918545	2027712	-1	None	None
12	CACNA2D4	ENSG00000151062	ENST00000539048	processed_transcript	KNOWN	None	20202	None	None	1953591	1983793	-1	None	None
12	CACNA2D4	ENSG00000151062	ENST00000590880	retained_intron	KNOWN	None	20202	None	None	1993196	1994045	-1	None	None
19	None	ENSG00000268595	ENST00000597569	antisense	KNOWN	None	None	None	None	51754485	51774433	-1	None	None
5	C5orf49	ENSG00000215217	ENST00000399810	protein_coding	KNOWN	CCDS43300	27028	444	147	7830491	7851603	-1	None	LOC134121
5	C5orf49	ENSG00000215217	ENST00000509627	protein_coding	NOVEL	None	27028	438	145	7831511	7851264	-1	None	LOC134121
10	DIP2C	ENSG00000151240	ENST00000280886	protein_coding	KNOWN	CCDS7054	29150	4671	1556	320130	735606	-1	KIAA0934	None
10	DIP2C	ENSG00000151240	ENST00000434695	protein_coding	PUTATIVE	None	29150	391	129	370579	375466	-1	KIAA0934	None
10	DIP2C	ENSG00000151240	ENST00000421992	protein_coding	PUTATIVE	None	29150	695	230	410902	433749	-1	KIAA0934	None
10	DIP2C	ENSG00000151240	ENST00000423550	protein_coding	KNOWN	None	29150	562	186	486811	735683	-1	KIAA0934	None
10	DIP2C	ENSG00000151240	ENST00000540204	protein_coding	KNOWN	None	29150	1116	371	402180	419130	-1	KIAA0934	None
10	DIP2C	ENSG00000151240	ENST00000381496	protein_coding	KNOWN	None	29150	1971	656	401488	629900	-1	KIAA0934	None
6	HLA-L	ENSG00000243753	ENST00000482052	processed_transcript	KNOWN	None	4970	None	None	30227361	30260791	1	HLA92, HLAL	HLA-92
6	HLA-L	ENSG00000243753	ENST00000463348	processed_transcript	KNOWN	None	4970	None	None	30227374	30234728	1	HLA92, HLAL	HLA-92
6	HLA-L	ENSG00000243753	ENST00000420110	transcribed_unprocessed_pseudogene	KNOWN	None	4970	None	None	30227402	30229480	1	HLA92, HLAL	HLA-92
6	None	ENSG00000218520	ENST00000495602	processed_pseudogene	KNOWN	None	None	None	None	63938992	63940015	-1	None	None
6	None	ENSG00000218617	ENST00000406684	processed_pseudogene	KNOWN	None	None	None	None	64102127	64102511	1	None	None
14	TRAJ16	ENSG00000211873	ENST00000390521	TR_J_gene	KNOWN	None	12044	60	19	22997487	22997546	1	None	None
11	PDZD3	ENSG00000172367	ENST00000527308	retained_intron	KNOWN	None	19891	None	None	119056166	119057266	1	PDZK2	FLJ22756, IKEPP
11	PDZD3	ENSG00000172367	ENST00000526279	retained_intron	KNOWN	None	19891	None	None	119056184	119057319	1	PDZK2	FLJ22756, IKEPP
11	PDZD3	ENSG00000172367	ENST00000527951	retained_intron	KNOWN	None	19891	None	None	119056184	119058367	1	PDZK2	FLJ22756, IKEPP
11	PDZD3	ENSG00000172367	ENST00000525131	protein_coding	PUTATIVE	None	19891	1479	492	119056184	119060469	1	PDZK2	FLJ22756, IKEPP
11	PDZD3	ENSG00000172367	ENST00000534790	retained_intron	KNOWN	None	19891	None	None	119056184	119060655	1	PDZK2	FLJ22756, IKEPP
11	PDZD3	ENSG00000172367	ENST00000529098	retained_intron	KNOWN	None	19891	None	None	119056184	119060658	1	PDZK2	FLJ22756, IKEPP
11	PDZD3	ENSG00000172367	ENST00000527028	retained_intron	KNOWN	None	19891	None	None	119056184	119060899	1	PDZK2	FLJ22756, IKEPP
11	PDZD3	ENSG00000172367	ENST00000531114	protein_coding	KNOWN	None	19891	1716	571	119056184	119060932	1	PDZK2	FLJ22756, IKEPP
11	PDZD3	ENSG00000172367	ENST00000533688	nonsense_mediated_decay	KNOWN	None	19891	360	119	119056189	119058739	1	PDZK2	FLJ22756, IKEPP
11	PDZD3	ENSG00000172367	ENST00000355547	protein_coding	KNOWN	CCDS53719	19891	1518	505	119056189	119060920	1	PDZK2	FLJ22756, IKEPP
11	PDZD3	ENSG00000172367	ENST00000526836	retained_intron	KNOWN	None	19891	None	None	119056192	119057123	1	PDZK2	FLJ22756, IKEPP
11	PDZD3	ENSG00000172367	ENST00000528730	retained_intron	KNOWN	None	19891	None	None	119056195	119058846	1	PDZK2	FLJ22756, IKEPP
11	PDZD3	ENSG00000172367	ENST00000322712	protein_coding	KNOWN	CCDS8417	19891	1476	491	119056195	119060920	1	PDZK2	FLJ22756, IKEPP
11	PDZD3	ENSG00000172367	ENST00000529573	retained_intron	KNOWN	None	19891	None	None	119056196	119057175	1	PDZK2	FLJ22756, IKEPP
11	PDZD3	ENSG00000172367	ENST00000392817	protein_coding	KNOWN	None	19891	1716	571	119056872	119060932	1	PDZK2	FLJ22756, IKEPP
8	None	ENSG00000253225	ENST00000517442	processed_pseudogene	KNOWN	None	None	None	None	130263213	130263384	1	None	None
8	RN7SKP206	ENSG00000222755	ENST00000410823	misc_RNA	KNOWN	None	45930	None	None	130303229	130303521	1	None	None
7	LRRC61	ENSG00000127399	ENST00000471872	processed_transcript	KNOWN	None	21704	None	None	150019728	150023008	1	None	MGC3036, FLJ31392, HSPC295
7	LRRC61	ENSG00000127399	ENST00000463441	processed_transcript	KNOWN	None	21704	None	None	150020305	150025875	1	None	MGC3036, FLJ31392, HSPC295
7	LRRC61	ENSG00000127399	ENST00000323078	protein_coding	KNOWN	CCDS5901	21704	780	259	150020352	150035192	1	None	MGC3036, FLJ31392, HSPC295
7	LRRC61	ENSG00000127399	ENST00000359623	protein_coding	KNOWN	CCDS5901	21704	780	259	150020376	150035239	1	None	MGC3036, FLJ31392, HSPC295
7	LRRC61	ENSG00000127399	ENST00000493307	protein_coding	KNOWN	CCDS5901	21704	780	259	150020380	150034761	1	None	MGC3036, FLJ31392, HSPC295
10	None	ENSG00000266769	ENST00000584824	miRNA	NOVEL	None	None	None	None	91024097	91024163	-1	None	None
6	HLA-DQB2	ENSG00000232629	ENST00000411527	protein_coding	KNOWN	CCDS56419	4945	684	227	32723875	32731267	-1	HLA-DXB	None
6	HLA-DQB2	ENSG00000232629	ENST00000435145	protein_coding	KNOWN	None	4945	828	275	32723875	32731309	-1	HLA-DXB	None
6	HLA-DQB2	ENSG00000232629	ENST00000437316	protein_coding	KNOWN	None	4945	795	264	32723875	32731311	-1	HLA-DXB	None
6	HLA-DQB2	ENSG00000232629	ENST00000427449	protein_coding	KNOWN	None	4945	656	217	32724165	32731243	-1	HLA-DXB	None
22	CCDC134	ENSG00000100147	ENST00000402061	protein_coding	NOVEL	None	26185	351	116	42196683	42221897	1	None	FLJ22349
22	CCDC134	ENSG00000100147	ENST00000255784	protein_coding	KNOWN	CCDS33654	26185	690	229	42196683	42222303	1	None	FLJ22349
X	None	ENSG00000270069	ENST00000602461	lincRNA	KNOWN	None	None	None	None	45604639	45629677	-1	None	None
X	None	ENSG00000270069	ENST00000602507	lincRNA	KNOWN	None	None	None	None	45627783	45629672	-1	None	None
6	COL21A1	ENSG00000124749	ENST00000488912	nonsense_mediated_decay	KNOWN	None	17025	240	79	55921388	55990406	-1	None	None
6	COL21A1	ENSG00000124749	ENST00000244728	protein_coding	KNOWN	CCDS55025	17025	2874	957	55921388	56112544	-1	None	None
6	COL21A1	ENSG00000124749	ENST00000370819	protein_coding	KNOWN	None	17025	2865	954	55921388	56258892	-1	None	None
6	COL21A1	ENSG00000124749	ENST00000467045	processed_transcript	KNOWN	None	17025	None	None	55921389	55956459	-1	None	None
6	COL21A1	ENSG00000124749	ENST00000482933	retained_intron	KNOWN	None	17025	None	None	55922468	55925975	-1	None	None
6	COL21A1	ENSG00000124749	ENST00000467216	processed_transcript	KNOWN	None	17025	None	None	55924869	55929407	-1	None	None
6	COL21A1	ENSG00000124749	ENST00000461489	retained_intron	KNOWN	None	17025	None	None	55933568	55942371	-1	None	None
6	COL21A1	ENSG00000124749	ENST00000484987	processed_transcript	PUTATIVE	None	17025	None	None	55940307	55942900	-1	None	None
6	COL21A1	ENSG00000124749	ENST00000469682	processed_transcript	PUTATIVE	None	17025	None	None	55990189	55991441	-1	None	None
6	COL21A1	ENSG00000124749	ENST00000456983	protein_coding	PUTATIVE	None	17025	377	124	55990226	56031735	-1	None	None
6	COL21A1	ENSG00000124749	ENST00000370817	protein_coding	KNOWN	None	17025	409	135	56044607	56112235	-1	None	None
6	COL21A1	ENSG00000124749	ENST00000535941	protein_coding	KNOWN	None	17025	2874	957	55921389	56112378	-1	None	None
6	COL21A1	ENSG00000124749	ENST00000370808	protein_coding	KNOWN	None	17025	972	323	55921389	55942902	-1	None	None
10	None	ENSG00000232110	ENST00000354541	antisense	KNOWN	None	None	None	None	91043522	91051882	1	None	None
10	None	ENSG00000232110	ENST00000448897	antisense	KNOWN	None	None	None	None	91043556	91051882	1	None	None
10	None	ENSG00000232110	ENST00000437032	antisense	KNOWN	None	None	None	None	91043563	91044311	1	None	None
3	ATP13A3	ENSG00000133657	ENST00000439040	protein_coding	KNOWN	CCDS43187	24113	3681	1226	194123401	194219093	-1	None	AFURS1
3	ATP13A3	ENSG00000133657	ENST00000429136	protein_coding	NOVEL	None	24113	487	161	194123406	194146099	-1	None	AFURS1
3	ATP13A3	ENSG00000133657	ENST00000461660	retained_intron	KNOWN	None	24113	None	None	194124194	194133792	-1	None	AFURS1
3	ATP13A3	ENSG00000133657	ENST00000497567	retained_intron	KNOWN	None	24113	None	None	194134543	194141113	-1	None	AFURS1
3	ATP13A3	ENSG00000133657	ENST00000484023	retained_intron	KNOWN	None	24113	None	None	194151659	194152751	-1	None	AFURS1
3	ATP13A3	ENSG00000133657	ENST00000485194	retained_intron	KNOWN	None	24113	None	None	194167825	194174530	-1	None	AFURS1
3	ATP13A3	ENSG00000133657	ENST00000492983	retained_intron	KNOWN	None	24113	None	None	194179761	194180601	-1	None	AFURS1
3	ATP13A3	ENSG00000133657	ENST00000457986	protein_coding	KNOWN	None	24113	308	101	194180618	194207388	-1	None	AFURS1
3	ATP13A3	ENSG00000133657	ENST00000446356	protein_coding	KNOWN	None	24113	140	45	194181472	194188968	-1	None	AFURS1
3	ATP13A3	ENSG00000133657	ENST00000256031	protein_coding	KNOWN	CCDS43187	24113	3681	1226	194123409	194188968	-1	None	AFURS1
10	IFIT6P	ENSG00000224289	ENST00000418257	unprocessed_pseudogene	KNOWN	None	38020	None	None	91122051	91123244	1	None	None
7	CRHR2	ENSG00000106113	ENST00000471646	protein_coding	KNOWN	CCDS5429	2358	1236	411	30692200	30722314	-1	None	CRF2, CRF-RB, HM-CRF
7	CRHR2	ENSG00000106113	ENST00000452278	nonsense_mediated_decay	KNOWN	None	2358	195	64	30692863	30739679	-1	None	CRF2, CRF-RB, HM-CRF
7	CRHR2	ENSG00000106113	ENST00000348438	protein_coding	KNOWN	CCDS56478	2358	1317	438	30692863	30739719	-1	None	CRF2, CRF-RB, HM-CRF
7	CRHR2	ENSG00000106113	ENST00000445981	protein_coding	PUTATIVE	None	2358	297	98	30721836	30739661	-1	None	CRF2, CRF-RB, HM-CRF
7	CRHR2	ENSG00000106113	ENST00000423776	nonsense_mediated_decay	KNOWN	None	2358	195	64	30721836	30739661	-1	None	CRF2, CRF-RB, HM-CRF
7	CRHR2	ENSG00000106113	ENST00000462882	processed_transcript	KNOWN	None	2358	None	None	30726024	30739745	-1	None	CRF2, CRF-RB, HM-CRF
7	CRHR2	ENSG00000106113	ENST00000341843	protein_coding	KNOWN	CCDS56477	2358	1194	397	30692863	30726065	-1	None	CRF2, CRF-RB, HM-CRF
7	CRHR2	ENSG00000106113	ENST00000506074	protein_coding	KNOWN	None	2358	1113	370	30693076	30721896	-1	None	CRF2, CRF-RB, HM-CRF
2	SFT2D3	ENSG00000173349	ENST00000310981	protein_coding	KNOWN	CCDS2149	28767	648	215	128458597	128461385	1	None	MGC5391
7	MTND4P6	ENSG00000224042	ENST00000438297	processed_pseudogene	KNOWN	None	42193	None	None	116903971	116904442	1	None	None
16	None	ENSG00000265249	ENST00000584136	miRNA	NOVEL	None	None	None	None	84886574	84886673	1	None	None
17	CNP	ENSG00000173786	ENST00000393892	protein_coding	KNOWN	CCDS11414	2158	1266	421	40118759	40127192	1	None	None
17	CNP	ENSG00000173786	ENST00000472031	protein_coding	PUTATIVE	None	2158	150	49	40118781	40126246	1	None	None
17	CNP	ENSG00000173786	ENST00000591945	processed_transcript	KNOWN	None	2158	None	None	40118813	40120193	1	None	None
17	CNP	ENSG00000173786	ENST00000592446	processed_transcript	KNOWN	None	2158	None	None	40118816	40120521	1	None	None
17	CNP	ENSG00000173786	ENST00000587679	protein_coding	NOVEL	None	2158	494	163	40118816	40120687	1	None	None
17	CNP	ENSG00000173786	ENST00000393888	protein_coding	PUTATIVE	None	2158	1206	401	40118833	40127194	1	None	None
17	CNP	ENSG00000173786	ENST00000441615	protein_coding	PUTATIVE	None	2158	433	143	40118900	40120575	1	None	None
17	CNP	ENSG00000173786	ENST00000589772	protein_coding	PUTATIVE	None	2158	362	119	40119351	40120504	1	None	None
17	CNP	ENSG00000173786	ENST00000585452	protein_coding	PUTATIVE	None	2158	461	152	40119801	40120603	1	None	None
17	CNP	ENSG00000173786	ENST00000592861	retained_intron	KNOWN	None	2158	None	None	40122299	40123815	1	None	None
17	CNP	ENSG00000173786	ENST00000592105	processed_transcript	KNOWN	None	2158	None	None	40123306	40125835	1	None	None
17	CNP	ENSG00000173786	ENST00000486438	retained_intron	KNOWN	None	2158	None	None	40123627	40125980	1	None	None
17	CNP	ENSG00000173786	ENST00000591072	protein_coding	KNOWN	None	2158	561	186	40118813	40126289	1	None	None
15	ARRDC4	ENSG00000140450	ENST00000268042	protein_coding	KNOWN	CCDS10377	28087	1257	418	98503928	98517068	1	None	FLJ36045
15	ARRDC4	ENSG00000140450	ENST00000538249	protein_coding	KNOWN	None	28087	996	331	98462784	98515305	1	None	FLJ36045
16	None	ENSG00000260340	ENST00000569104	lincRNA	KNOWN	None	None	None	None	84961959	84973209	1	None	None
10	SLC18A2	ENSG00000165646	ENST00000298472	protein_coding	KNOWN	CCDS7599	10935	1545	514	119000604	119038941	1	VMAT2	SVMT, SVAT
10	SLC18A2	ENSG00000165646	ENST00000497497	processed_transcript	KNOWN	None	10935	None	None	119000604	119038941	1	VMAT2	SVMT, SVAT
10	None	ENSG00000234452	ENST00000454270	antisense	KNOWN	None	None	None	None	91215821	91227897	1	None	None
10	None	ENSG00000234452	ENST00000423474	antisense	KNOWN	None	None	None	None	91222372	91227897	1	None	None
16	None	ENSG00000270313	ENST00000603667	processed_pseudogene	KNOWN	None	None	None	None	85312426	85312641	-1	None	None
7	None	ENSG00000230605	ENST00000441810	processed_pseudogene	KNOWN	None	None	None	None	116904447	116904584	-1	None	None
HSCHR6_MHC_SSTO	PPP1R10	ENSG00000238104	ENST00000429597	protein_coding	KNOWN	None	9284	2823	940	30559598	30576442	-1	None	PNUTS, FB19, CAT53, p99
HSCHR6_MHC_SSTO	PPP1R10	ENSG00000238104	ENST00000496697	retained_intron	KNOWN	None	9284	None	None	30562771	30563410	-1	None	PNUTS, FB19, CAT53, p99
HSCHR6_MHC_SSTO	PPP1R10	ENSG00000238104	ENST00000483433	retained_intron	KNOWN	None	9284	None	None	30563810	30565196	-1	None	PNUTS, FB19, CAT53, p99
HSCHR6_MHC_SSTO	PPP1R10	ENSG00000238104	ENST00000459761	retained_intron	KNOWN	None	9284	None	None	30564216	30565935	-1	None	PNUTS, FB19, CAT53, p99
HSCHR6_MHC_SSTO	PPP1R10	ENSG00000238104	ENST00000478529	retained_intron	KNOWN	None	9284	None	None	30565007	30565441	-1	None	PNUTS, FB19, CAT53, p99
HSCHR6_MHC_SSTO	PPP1R10	ENSG00000238104	ENST00000482076	processed_transcript	KNOWN	None	9284	None	None	30569145	30576442	-1	None	PNUTS, FB19, CAT53, p99
HSCHR6_MHC_SSTO	PPP1R10	ENSG00000238104	ENST00000492904	processed_transcript	KNOWN	None	9284	None	None	30575782	30577810	-1	None	PNUTS, FB19, CAT53, p99
HSCHR6_MHC_SSTO	PPP1R10	ENSG00000238104	ENST00000549865	protein_coding	KNOWN	None	9284	936	311	30564134	30576441	-1	None	PNUTS, FB19, CAT53, p99
17	AKAP10	ENSG00000108599	ENST00000225737	protein_coding	KNOWN	CCDS11214	368	1989	662	19807615	19881150	-1	None	D-AKAP2, PRKA10, MGC9414
17	AKAP10	ENSG00000108599	ENST00000578898	nonsense_mediated_decay	KNOWN	None	368	94	30	19809481	19835190	-1	None	D-AKAP2, PRKA10, MGC9414
17	AKAP10	ENSG00000108599	ENST00000395536	protein_coding	NOVEL	None	368	1815	604	19809540	19880992	-1	None	D-AKAP2, PRKA10, MGC9414
17	AKAP10	ENSG00000108599	ENST00000583951	protein_coding	NOVEL	None	368	236	77	19812552	19835179	-1	None	D-AKAP2, PRKA10, MGC9414
17	AKAP10	ENSG00000108599	ENST00000460046	nonsense_mediated_decay	KNOWN	None	368	179	58	19839315	19850788	-1	None	D-AKAP2, PRKA10, MGC9414
17	AKAP10	ENSG00000108599	ENST00000582611	nonsense_mediated_decay	KNOWN	None	368	453	150	19844211	19881141	-1	None	D-AKAP2, PRKA10, MGC9414
17	AKAP10	ENSG00000108599	ENST00000474245	retained_intron	KNOWN	None	368	None	None	19850454	19861437	-1	None	D-AKAP2, PRKA10, MGC9414
17	AKAP10	ENSG00000108599	ENST00000572155	processed_transcript	KNOWN	None	368	None	None	19861648	19881656	-1	None	D-AKAP2, PRKA10, MGC9414
17	AKAP10	ENSG00000108599	ENST00000572341	nonsense_mediated_decay	KNOWN	None	368	201	66	19861738	19881141	-1	None	D-AKAP2, PRKA10, MGC9414
17	AKAP10	ENSG00000108599	ENST00000576896	protein_coding	NOVEL	None	368	416	137	19861757	19881141	-1	None	D-AKAP2, PRKA10, MGC9414
17	AKAP10	ENSG00000108599	ENST00000571858	nonsense_mediated_decay	KNOWN	None	368	192	63	19866173	19881141	-1	None	D-AKAP2, PRKA10, MGC9414
7	None	ENSG00000238202	ENST00000436097	antisense	KNOWN	None	None	None	None	116940915	116962290	1	None	None
19	TPRX2P	ENSG00000259009	ENST00000535362	protein_coding	KNOWN	None	32175	981	326	48337701	48364769	1	None	TPRX2P1
10	MIR107	ENSG00000198997	ENST00000362127	miRNA	KNOWN	None	31496	None	None	91352500	91352586	-1	MIRN107	hsa-mir-107
20	LINC00176	ENSG00000196421	ENST00000444463	lincRNA	KNOWN	None	27655	None	None	62665697	62670354	1	PRR17, NCRNA00176	DKFZp434G015, FLJ27267
20	LINC00176	ENSG00000196421	ENST00000431158	lincRNA	KNOWN	None	27655	None	None	62667016	62670354	1	PRR17, NCRNA00176	DKFZp434G015, FLJ27267
20	LINC00176	ENSG00000196421	ENST00000463337	lincRNA	KNOWN	None	27655	None	None	62669485	62671315	1	PRR17, NCRNA00176	DKFZp434G015, FLJ27267
20	LINC00176	ENSG00000196421	ENST00000358393	lincRNA	KNOWN	None	27655	None	None	62669493	62671131	1	PRR17, NCRNA00176	DKFZp434G015, FLJ27267
4	None	ENSG00000250966	ENST00000321285	processed_pseudogene	KNOWN	None	None	None	None	113486144	113486554	1	None	None
19	None	ENSG00000268318	ENST00000595566	lincRNA	KNOWN	None	None	None	None	51774520	51781888	1	None	None
19	None	ENSG00000268318	ENST00000594261	lincRNA	KNOWN	None	None	None	None	51774534	51784488	1	None	None
19	None	ENSG00000268318	ENST00000600813	lincRNA	KNOWN	None	None	None	None	51774653	51784385	1	None	None
10	None	ENSG00000249962	ENST00000507624	processed_pseudogene	KNOWN	None	None	None	None	91404360	91404980	-1	None	None
12	MBD6	ENSG00000166987	ENST00000548887	protein_coding	KNOWN	None	20445	446	147	57914493	57919197	1	None	KIAA1887
12	MBD6	ENSG00000166987	ENST00000551351	protein_coding	KNOWN	None	20445	159	52	57914748	57918548	1	None	KIAA1887
12	MBD6	ENSG00000166987	ENST00000549231	processed_transcript	KNOWN	None	20445	None	None	57914831	57918547	1	None	KIAA1887
12	MBD6	ENSG00000166987	ENST00000546805	protein_coding	KNOWN	None	20445	220	72	57915463	57918739	1	None	KIAA1887
12	MBD6	ENSG00000166987	ENST00000355673	protein_coding	KNOWN	CCDS8944	20445	3012	1003	57916527	57923931	1	None	KIAA1887
12	MBD6	ENSG00000166987	ENST00000546632	protein_coding	KNOWN	None	20445	160	52	57916623	57918549	1	None	KIAA1887
12	MBD6	ENSG00000166987	ENST00000549623	protein_coding	PUTATIVE	None	20445	199	65	57916625	57919238	1	None	KIAA1887
12	MBD6	ENSG00000166987	ENST00000552255	protein_coding	KNOWN	None	20445	136	44	57916846	57918525	1	None	KIAA1887
12	MBD6	ENSG00000166987	ENST00000549042	nonsense_mediated_decay	KNOWN	None	20445	144	47	57917812	57918874	1	None	KIAA1887
12	MBD6	ENSG00000166987	ENST00000552659	protein_coding	NOVEL	None	20445	530	175	57918102	57920436	1	None	KIAA1887
12	MBD6	ENSG00000166987	ENST00000547545	nonsense_mediated_decay	KNOWN	None	20445	1515	504	57920426	57923926	1	None	KIAA1887
12	MBD6	ENSG00000166987	ENST00000548550	retained_intron	KNOWN	None	20445	None	None	57921285	57921973	1	None	KIAA1887
12	MBD6	ENSG00000166987	ENST00000552163	protein_coding	NOVEL	None	20445	570	189	57921695	57922495	1	None	KIAA1887
12	MBD6	ENSG00000166987	ENST00000547844	nonsense_mediated_decay	KNOWN	None	20445	83	26	57922785	57923929	1	None	KIAA1887
12	MBD6	ENSG00000166987	ENST00000431731	protein_coding	KNOWN	CCDS8944	20445	3012	1003	57916625	57923931	1	None	KIAA1887
16	LINC00311	ENSG00000179219	ENST00000366314	lincRNA	KNOWN	None	28312	None	None	85316564	85319569	1	TMEM148, NCRNA00311	MGC22001
X	RPS6KA3	ENSG00000177189	ENST00000379565	protein_coding	KNOWN	CCDS14197	10432	2223	740	20168029	20284958	-1	MRX19, CLS	RSK, RSK2, HU-3
X	RPS6KA3	ENSG00000177189	ENST00000479809	processed_transcript	KNOWN	None	10432	None	None	20173559	20190982	-1	MRX19, CLS	RSK, RSK2, HU-3
X	RPS6KA3	ENSG00000177189	ENST00000457145	protein_coding	PUTATIVE	None	10432	683	226	20205950	20237077	-1	MRX19, CLS	RSK, RSK2, HU-3
X	RPS6KA3	ENSG00000177189	ENST00000492128	processed_transcript	KNOWN	None	10432	None	None	20211638	20285218	-1	MRX19, CLS	RSK, RSK2, HU-3
X	RPS6KA3	ENSG00000177189	ENST00000438357	protein_coding	PUTATIVE	None	10432	399	132	20212310	20284760	-1	MRX19, CLS	RSK, RSK2, HU-3
X	RPS6KA3	ENSG00000177189	ENST00000474266	retained_intron	KNOWN	None	10432	None	None	20221480	20236988	-1	MRX19, CLS	RSK, RSK2, HU-3
X	RPS6KA3	ENSG00000177189	ENST00000544447	protein_coding	KNOWN	None	10432	2139	712	20173084	20285523	-1	MRX19, CLS	RSK, RSK2, HU-3
X	RPS6KA3	ENSG00000177189	ENST00000540702	protein_coding	KNOWN	None	10432	2136	711	20173375	20259806	-1	MRX19, CLS	RSK, RSK2, HU-3
X	RPS6KA3	ENSG00000177189	ENST00000379548	protein_coding	KNOWN	None	10432	2133	710	20173262	20236979	-1	MRX19, CLS	RSK, RSK2, HU-3
10	None	ENSG00000232936	ENST00000454174	antisense	KNOWN	None	None	None	None	91405039	91410424	1	None	None
10	None	ENSG00000232936	ENST00000451733	antisense	KNOWN	None	None	None	None	91405199	91410424	1	None	None
16	MIR5093	ENSG00000266307	ENST00000583199	miRNA	KNOWN	None	43474	None	None	85339832	85339931	-1	None	hsa-mir-5093
4	MIR302B	ENSG00000249532	ENST00000510655	antisense	KNOWN	None	31763	None	None	113567632	113571207	-1	MIRN302B	hsa-mir-302b
4	MIR302B	ENSG00000249532	ENST00000509938	antisense	KNOWN	None	31763	None	None	113567879	113569855	-1	MIRN302B	hsa-mir-302b
4	MIR302B	ENSG00000249532	ENST00000505215	antisense	KNOWN	None	31763	None	None	113567881	113569859	-1	MIRN302B	hsa-mir-302b
4	MIR302B	ENSG00000249532	ENST00000362188	miRNA	KNOWN	None	31763	None	None	113569641	113569713	-1	MIRN302B	hsa-mir-302b
12	IL26	ENSG00000111536	ENST00000229134	protein_coding	KNOWN	CCDS8981	17119	516	171	68595131	68619601	-1	None	AK155, IL-26
2	POLR2D	ENSG00000144231	ENST00000272645	protein_coding	KNOWN	CCDS2151	9191	429	142	128603840	128615731	-1	None	RBP4
2	POLR2D	ENSG00000144231	ENST00000409955	protein_coding	NOVEL	None	9191	333	110	128604273	128615691	-1	None	RBP4
2	POLR2D	ENSG00000144231	ENST00000487079	processed_transcript	KNOWN	None	9191	None	None	128604815	128615693	-1	None	RBP4
2	POLR2D	ENSG00000144231	ENST00000409698	protein_coding	PUTATIVE	None	9191	315	104	128605415	128615523	-1	None	RBP4
19	SULT2A1	ENSG00000105398	ENST00000222002	protein_coding	KNOWN	CCDS12707	11458	858	285	48373723	48389654	-1	STD	DHEA-ST
1	FMO3	ENSG00000007933	ENST00000367755	protein_coding	KNOWN	CCDS1292	3771	1599	532	171060018	171086959	1	None	None
1	FMO3	ENSG00000007933	ENST00000530212	processed_transcript	KNOWN	None	3771	None	None	171060042	171069554	1	None	None
1	FMO3	ENSG00000007933	ENST00000534514	processed_transcript	KNOWN	None	3771	None	None	171060046	171069876	1	None	None
1	FMO3	ENSG00000007933	ENST00000472784	processed_transcript	KNOWN	None	3771	None	None	171060058	171076878	1	None	None
1	FMO3	ENSG00000007933	ENST00000479749	processed_transcript	KNOWN	None	3771	None	None	171060060	171080019	1	None	None
1	FMO3	ENSG00000007933	ENST00000478457	processed_transcript	KNOWN	None	3771	None	None	171069903	171076894	1	None	None
1	FMO3	ENSG00000007933	ENST00000392085	protein_coding	KNOWN	CCDS1292	3771	1599	532	171060018	171086955	1	None	None
1	FMO3	ENSG00000007933	ENST00000538429	protein_coding	KNOWN	None	3771	1410	469	171060046	171086597	1	None	None
1	FMO3	ENSG00000007933	ENST00000542847	protein_coding	KNOWN	None	3771	1539	512	171060041	171086607	1	None	None
10	None	ENSG00000225836	ENST00000428166	lincRNA	KNOWN	None	None	None	None	91406046	91410579	-1	None	None
5	PCDHA2	ENSG00000204969	ENST00000520672	protein_coding	PUTATIVE	None	8668	2427	808	140174444	140185206	1	None	None
5	PCDHA2	ENSG00000204969	ENST00000526136	protein_coding	KNOWN	CCDS54914	8668	2847	948	140174550	140391929	1	None	None
5	PCDHA2	ENSG00000204969	ENST00000378132	protein_coding	KNOWN	None	8668	2475	824	140174444	140177062	1	None	None
20	HRH3	ENSG00000101180	ENST00000340177	protein_coding	KNOWN	CCDS13493	5184	1338	445	60790026	60795311	-1	None	GPCR97
20	HRH3	ENSG00000101180	ENST00000317393	protein_coding	KNOWN	None	5184	1362	453	60790435	60795323	-1	None	GPCR97
10	None	ENSG00000235100	ENST00000449882	lincRNA	KNOWN	None	None	None	None	91426938	91459428	-1	None	None
6	C6orf118	ENSG00000112539	ENST00000494696	processed_transcript	KNOWN	None	21233	None	None	165693153	165695184	-1	None	MGC23884, bA85G2.1
6	C6orf118	ENSG00000112539	ENST00000230301	protein_coding	KNOWN	CCDS5288	21233	1410	469	165693165	165723096	-1	None	MGC23884, bA85G2.1
6	C6orf118	ENSG00000112539	ENST00000491176	processed_transcript	KNOWN	None	21233	None	None	165693522	165695511	-1	None	MGC23884, bA85G2.1
6	C6orf118	ENSG00000112539	ENST00000543069	protein_coding	KNOWN	None	21233	912	303	165695138	165722342	-1	None	MGC23884, bA85G2.1
10	None	ENSG00000240996	ENST00000455699	lincRNA	KNOWN	None	None	None	None	91454052	91457685	-1	None	None
HSCHR6_MHC_COX	RPL32P1	ENSG00000228579	ENST00000436201	processed_pseudogene	KNOWN	None	10339	None	None	32969203	32969612	1	RPL32P	RPL32-L
9	RN7SL75P	ENSG00000239908	ENST00000461926	misc_RNA	KNOWN	None	46091	None	None	102864841	102865119	1	None	None
22	LZTR1	ENSG00000099949	ENST00000479606	processed_transcript	KNOWN	None	6742	None	None	21333751	21352410	1	None	LZTR-1, BTBD29
22	LZTR1	ENSG00000099949	ENST00000215739	protein_coding	KNOWN	CCDS33606	6742	2523	840	21336302	21353327	1	None	LZTR-1, BTBD29
22	LZTR1	ENSG00000099949	ENST00000414985	nonsense_mediated_decay	KNOWN	None	6742	354	117	21336558	21345974	1	None	LZTR-1, BTBD29
22	LZTR1	ENSG00000099949	ENST00000493460	retained_intron	KNOWN	None	6742	None	None	21336586	21340203	1	None	LZTR-1, BTBD29
22	LZTR1	ENSG00000099949	ENST00000443265	nonsense_mediated_decay	KNOWN	None	6742	306	101	21336612	21343964	1	None	LZTR-1, BTBD29
22	LZTR1	ENSG00000099949	ENST00000480895	processed_transcript	KNOWN	None	6742	None	None	21340368	21345968	1	None	LZTR-1, BTBD29
22	LZTR1	ENSG00000099949	ENST00000497716	processed_transcript	KNOWN	None	6742	None	None	21343938	21347137	1	None	LZTR-1, BTBD29
22	LZTR1	ENSG00000099949	ENST00000461510	retained_intron	KNOWN	None	6742	None	None	21346025	21346821	1	None	LZTR-1, BTBD29
22	LZTR1	ENSG00000099949	ENST00000492480	retained_intron	KNOWN	None	6742	None	None	21346070	21348589	1	None	LZTR-1, BTBD29
22	LZTR1	ENSG00000099949	ENST00000415354	nonsense_mediated_decay	KNOWN	None	6742	294	97	21348516	21350401	1	None	LZTR-1, BTBD29
22	LZTR1	ENSG00000099949	ENST00000495142	retained_intron	KNOWN	None	6742	None	None	21348616	21350286	1	None	LZTR-1, BTBD29
22	LZTR1	ENSG00000099949	ENST00000491432	retained_intron	KNOWN	None	6742	None	None	21348766	21350288	1	None	LZTR-1, BTBD29
22	LZTR1	ENSG00000099949	ENST00000439171	nonsense_mediated_decay	KNOWN	None	6742	334	110	21348950	21351001	1	None	LZTR-1, BTBD29
22	LZTR1	ENSG00000099949	ENST00000464807	retained_intron	KNOWN	None	6742	None	None	21348971	21349678	1	None	LZTR-1, BTBD29
22	LZTR1	ENSG00000099949	ENST00000452988	nonsense_mediated_decay	KNOWN	None	6742	165	54	21349195	21351830	1	None	LZTR-1, BTBD29
22	LZTR1	ENSG00000099949	ENST00000463909	retained_intron	KNOWN	None	6742	None	None	21349378	21353321	1	None	LZTR-1, BTBD29
22	LZTR1	ENSG00000099949	ENST00000498649	retained_intron	KNOWN	None	6742	None	None	21350077	21352058	1	None	LZTR-1, BTBD29
22	LZTR1	ENSG00000099949	ENST00000415817	protein_coding	PUTATIVE	None	6742	475	157	21350285	21353274	1	None	LZTR-1, BTBD29
22	LZTR1	ENSG00000099949	ENST00000389355	protein_coding	KNOWN	None	6742	2466	821	21336620	21351755	1	None	LZTR-1, BTBD29
10	LINC00865	ENSG00000232229	ENST00000448963	lincRNA	KNOWN	None	45170	None	None	91589267	91600618	1	None	None
10	LINC00865	ENSG00000232229	ENST00000448490	lincRNA	KNOWN	None	45170	None	None	91589313	91600618	1	None	None
12	SDSL	ENSG00000139410	ENST00000403593	protein_coding	KNOWN	CCDS9170	30404	990	329	113860042	113876081	1	None	SDS-RS1
12	SDSL	ENSG00000139410	ENST00000553248	protein_coding	PUTATIVE	None	30404	516	171	113860210	113874574	1	None	SDS-RS1
12	SDSL	ENSG00000139410	ENST00000345635	protein_coding	KNOWN	CCDS9170	30404	990	329	113860216	113876081	1	None	SDS-RS1
12	SDSL	ENSG00000139410	ENST00000547802	protein_coding	KNOWN	None	30404	88	28	113860258	113865875	1	None	SDS-RS1
12	SDSL	ENSG00000139410	ENST00000546672	protein_coding	NOVEL	None	30404	677	224	113866224	113876046	1	None	SDS-RS1
12	SDSL	ENSG00000139410	ENST00000551760	protein_coding	PUTATIVE	None	30404	183	60	113873312	113874914	1	None	SDS-RS1
5	None	ENSG00000253480	ENST00000518368	processed_pseudogene	KNOWN	None	None	None	None	179512717	179514038	-1	None	None
3	ESYT3	ENSG00000158220	ENST00000486831	retained_intron	KNOWN	None	24295	None	None	138153428	138195902	1	FAM62C	CHR3SYT
3	ESYT3	ENSG00000158220	ENST00000389567	protein_coding	KNOWN	CCDS3101	24295	2661	886	138153455	138197256	1	FAM62C	CHR3SYT
3	ESYT3	ENSG00000158220	ENST00000490835	nonsense_mediated_decay	KNOWN	None	24295	1506	501	138153458	138191675	1	FAM62C	CHR3SYT
3	ESYT3	ENSG00000158220	ENST00000289135	protein_coding	NOVEL	None	24295	933	310	138153467	138181315	1	FAM62C	CHR3SYT
3	ESYT3	ENSG00000158220	ENST00000468103	retained_intron	KNOWN	None	24295	None	None	138188085	138189101	1	FAM62C	CHR3SYT
3	ESYT3	ENSG00000158220	ENST00000460133	processed_transcript	KNOWN	None	24295	None	None	138191996	138200528	1	FAM62C	CHR3SYT
3	ESYT3	ENSG00000158220	ENST00000460325	retained_intron	KNOWN	None	24295	None	None	138192378	138193494	1	FAM62C	CHR3SYT
6	PTCHD4	ENSG00000244694	ENST00000339488	protein_coding	KNOWN	CCDS34473	21345	2541	846	47845764	48036425	-1	C6orf138	dJ402H5.2, FLJ41841
6	PTCHD4	ENSG00000244694	ENST00000398738	protein_coding	PUTATIVE	None	21345	934	310	47867345	48036389	-1	C6orf138	dJ402H5.2, FLJ41841
6	PTCHD4	ENSG00000244694	ENST00000543600	protein_coding	KNOWN	None	21345	885	294	47867515	48036380	-1	C6orf138	dJ402H5.2, FLJ41841
6	None	ENSG00000218274	ENST00000403446	unprocessed_pseudogene	KNOWN	None	None	None	None	64104912	64107011	-1	None	None
5	None	ENSG00000229721	ENST00000484005	processed_pseudogene	KNOWN	None	None	None	None	179653378	179654000	-1	None	None
9	MAPKAP1	ENSG00000119487	ENST00000373511	protein_coding	KNOWN	CCDS35139	18752	1428	475	128199672	128469510	-1	None	MGC2745, SIN1, MIP1
9	MAPKAP1	ENSG00000119487	ENST00000373498	protein_coding	KNOWN	CCDS35140	18752	1569	522	128199673	128434922	-1	None	MGC2745, SIN1, MIP1
9	MAPKAP1	ENSG00000119487	ENST00000350766	protein_coding	KNOWN	CCDS6864	18752	1461	486	128199673	128469482	-1	None	MGC2745, SIN1, MIP1
9	MAPKAP1	ENSG00000119487	ENST00000373503	protein_coding	KNOWN	CCDS35141	18752	993	330	128199673	128469491	-1	None	MGC2745, SIN1, MIP1
9	MAPKAP1	ENSG00000119487	ENST00000483937	processed_transcript	KNOWN	None	18752	None	None	128200748	128234184	-1	None	MGC2745, SIN1, MIP1
9	MAPKAP1	ENSG00000119487	ENST00000444226	protein_coding	KNOWN	None	18752	283	93	128200748	128246780	-1	None	MGC2745, SIN1, MIP1
9	MAPKAP1	ENSG00000119487	ENST00000497932	nonsense_mediated_decay	KNOWN	None	18752	738	245	128200934	128357925	-1	None	MGC2745, SIN1, MIP1
9	MAPKAP1	ENSG00000119487	ENST00000496658	processed_transcript	KNOWN	None	18752	None	None	128200986	128213380	-1	None	MGC2745, SIN1, MIP1
9	MAPKAP1	ENSG00000119487	ENST00000496063	processed_transcript	KNOWN	None	18752	None	None	128201092	128268645	-1	None	MGC2745, SIN1, MIP1
9	MAPKAP1	ENSG00000119487	ENST00000420643	protein_coding	PUTATIVE	None	18752	759	252	128206780	128412696	-1	None	MGC2745, SIN1, MIP1
9	MAPKAP1	ENSG00000119487	ENST00000473837	retained_intron	KNOWN	None	18752	None	None	128268223	128412740	-1	None	MGC2745, SIN1, MIP1
9	MAPKAP1	ENSG00000119487	ENST00000394060	protein_coding	PUTATIVE	CCDS48020	18752	972	323	128283747	128469510	-1	None	MGC2745, SIN1, MIP1
9	MAPKAP1	ENSG00000119487	ENST00000427078	protein_coding	PUTATIVE	None	18752	382	126	128305338	128469456	-1	None	MGC2745, SIN1, MIP1
9	MAPKAP1	ENSG00000119487	ENST00000437973	processed_transcript	KNOWN	None	18752	None	None	128321393	128347906	-1	None	MGC2745, SIN1, MIP1
9	MAPKAP1	ENSG00000119487	ENST00000468896	protein_coding	PUTATIVE	None	18752	401	132	128322062	128419989	-1	None	MGC2745, SIN1, MIP1
9	MAPKAP1	ENSG00000119487	ENST00000448439	processed_transcript	KNOWN	None	18752	None	None	128327645	128432124	-1	None	MGC2745, SIN1, MIP1
9	MAPKAP1	ENSG00000119487	ENST00000373496	protein_coding	KNOWN	None	18752	396	131	128419948	128469477	-1	None	MGC2745, SIN1, MIP1
9	MAPKAP1	ENSG00000119487	ENST00000433483	protein_coding	KNOWN	None	18752	280	92	128432166	128469481	-1	None	MGC2745, SIN1, MIP1
9	MAPKAP1	ENSG00000119487	ENST00000265960	protein_coding	KNOWN	CCDS35140	18752	1569	522	128199673	128469513	-1	None	MGC2745, SIN1, MIP1
9	MAPKAP1	ENSG00000119487	ENST00000394063	protein_coding	KNOWN	CCDS35141	18752	993	330	128199673	128469513	-1	None	MGC2745, SIN1, MIP1
9	MAPKAP1	ENSG00000119487	ENST00000373497	protein_coding	KNOWN	None	18752	708	235	128200812	128420011	-1	None	MGC2745, SIN1, MIP1
16	None	ENSG00000264203	ENST00000582003	miRNA	NOVEL	None	None	None	None	85475029	85475098	-1	None	None
18	RNU7-25P	ENSG00000252353	ENST00000516544	snRNA	KNOWN	None	34121	None	None	3093566	3093627	1	None	U7.25
16	None	ENSG00000270124	ENST00000602862	lincRNA	KNOWN	None	None	None	None	85613615	85617177	-1	None	None
11	BACE1	ENSG00000186318	ENST00000313005	protein_coding	KNOWN	CCDS8383	933	1506	501	117156402	117186972	-1	BACE	None
11	BACE1	ENSG00000186318	ENST00000392937	protein_coding	KNOWN	CCDS55787	933	1206	401	117156422	117166352	-1	BACE	None
11	BACE1	ENSG00000186318	ENST00000528053	protein_coding	NOVEL	None	933	1404	467	117158067	117186975	-1	BACE	None
11	BACE1	ENSG00000186318	ENST00000510630	protein_coding	KNOWN	CCDS55786	933	1131	376	117160203	117166289	-1	BACE	None
11	BACE1	ENSG00000186318	ENST00000428381	protein_coding	KNOWN	CCDS44741	933	1299	432	117160251	117186514	-1	BACE	None
11	BACE1	ENSG00000186318	ENST00000513780	protein_coding	KNOWN	CCDS44739	933	1431	476	117160251	117186514	-1	BACE	None
11	BACE1	ENSG00000186318	ENST00000445823	protein_coding	KNOWN	CCDS44740	933	1374	457	117160251	117186514	-1	BACE	None
11	BACE1	ENSG00000186318	ENST00000509916	retained_intron	KNOWN	None	933	None	None	117161219	117162713	-1	BACE	None
11	BACE1	ENSG00000186318	ENST00000530824	retained_intron	KNOWN	None	933	None	None	117161350	117165157	-1	BACE	None
11	BACE1	ENSG00000186318	ENST00000510915	protein_coding	PUTATIVE	None	933	153	50	117162515	117166201	-1	BACE	None
11	BACE1	ENSG00000186318	ENST00000504995	protein_coding	PUTATIVE	None	933	121	39	117163787	117170412	-1	BACE	None
11	BACE1	ENSG00000186318	ENST00000514464	processed_transcript	KNOWN	None	933	None	None	117164587	117186511	-1	BACE	None
16	None	ENSG00000260866	ENST00000562908	unprocessed_pseudogene	KNOWN	None	None	None	None	32399456	32447521	1	None	None
18	None	ENSG00000265399	ENST00000580139	processed_transcript	KNOWN	None	None	None	None	3190395	3247275	1	None	None
6	None	ENSG00000218048	ENST00000402043	unprocessed_pseudogene	KNOWN	None	None	None	None	64150671	64153485	1	None	None
Y	None	ENSG00000223637	ENST00000456360	unprocessed_pseudogene	KNOWN	None	None	None	None	23556877	23563471	-1	None	None
16	None	ENSG00000260417	ENST00000567093	lincRNA	KNOWN	None	None	None	None	85625872	85629326	1	None	None
21	SH3BGR	ENSG00000185437	ENST00000380637	protein_coding	KNOWN	CCDS33560	10822	387	128	40817781	40887433	1	None	21-GARP
21	SH3BGR	ENSG00000185437	ENST00000380634	protein_coding	KNOWN	CCDS33560	10822	387	128	40817791	40887282	1	None	21-GARP
21	SH3BGR	ENSG00000185437	ENST00000458295	protein_coding	NOVEL	None	10822	294	97	40817801	40887197	1	None	21-GARP
21	SH3BGR	ENSG00000185437	ENST00000440288	protein_coding	KNOWN	None	10822	318	105	40817857	40883633	1	None	21-GARP
21	SH3BGR	ENSG00000185437	ENST00000380631	protein_coding	KNOWN	CCDS33560	10822	387	128	40817868	40887134	1	None	21-GARP
21	SH3BGR	ENSG00000185437	ENST00000333634	protein_coding	KNOWN	CCDS13666	10822	720	239	40823756	40887433	1	None	21-GARP
21	SH3BGR	ENSG00000185437	ENST00000452550	protein_coding	NOVEL	None	10822	412	136	40824049	40887433	1	None	21-GARP
21	SH3BGR	ENSG00000185437	ENST00000423596	protein_coding	NOVEL	None	10822	246	81	40834460	40883702	1	None	21-GARP
21	SH3BGR	ENSG00000185437	ENST00000447939	protein_coding	PUTATIVE	None	10822	165	54	40871749	40887433	1	None	21-GARP
6	None	ENSG00000223627	ENST00000454317	lincRNA	KNOWN	None	None	None	None	161236582	161238383	-1	None	None
16	RN7SL381P	ENSG00000263968	ENST00000577658	misc_RNA	KNOWN	None	46397	None	None	85692984	85693279	1	None	None
16	MIR1910	ENSG00000222190	ENST00000410258	miRNA	KNOWN	None	35394	None	None	85775227	85775306	-1	MIRN1910	hsa-mir-1910
18	None	ENSG00000264235	ENST00000578800	antisense	KNOWN	None	None	None	None	3255434	3261820	-1	None	None
18	None	ENSG00000264235	ENST00000581905	antisense	KNOWN	None	None	None	None	3255436	3261848	-1	None	None
6	EEF1B2P5	ENSG00000225121	ENST00000444820	unprocessed_pseudogene	KNOWN	None	32476	None	None	64190039	64191781	1	None	None
16	None	ENSG00000269898	ENST00000602789	antisense	KNOWN	None	None	None	None	85776893	85777831	1	None	None
12	HIST4H4	ENSG00000197837	ENST00000358064	nonsense_mediated_decay	KNOWN	CCDS8665	20510	312	103	14920933	14924065	-1	None	MGC24116
12	HIST4H4	ENSG00000197837	ENST00000537096	processed_transcript	PUTATIVE	None	20510	None	None	14921092	14922556	-1	None	MGC24116
12	HIST4H4	ENSG00000197837	ENST00000541592	processed_transcript	PUTATIVE	None	20510	None	None	14921859	14923104	-1	None	MGC24116
12	HIST4H4	ENSG00000197837	ENST00000537853	processed_transcript	PUTATIVE	None	20510	None	None	14921873	14923210	-1	None	MGC24116
12	HIST4H4	ENSG00000197837	ENST00000540565	processed_transcript	PUTATIVE	None	20510	None	None	14921930	14923727	-1	None	MGC24116
12	HIST4H4	ENSG00000197837	ENST00000539745	protein_coding	KNOWN	CCDS8665	20510	312	103	14923489	14924065	-1	None	MGC24116
6	None	ENSG00000224371	ENST00000437861	lincRNA	KNOWN	None	None	None	None	161293920	161301426	-1	None	None
6	None	ENSG00000224371	ENST00000454826	lincRNA	KNOWN	None	None	None	None	161293926	161339561	-1	None	None
6	None	ENSG00000224371	ENST00000443380	lincRNA	KNOWN	None	None	None	None	161294048	161339481	-1	None	None
6	None	ENSG00000224371	ENST00000413062	lincRNA	KNOWN	None	None	None	None	161294118	161339681	-1	None	None
9	ZFAND5	ENSG00000107372	ENST00000488164	processed_transcript	KNOWN	None	13008	None	None	74969374	74979262	-1	ZNF216, ZA20D2	ZFAND5A
9	ZFAND5	ENSG00000107372	ENST00000376962	protein_coding	KNOWN	CCDS6642	13008	642	213	74969374	74980113	-1	ZNF216, ZA20D2	ZFAND5A
9	ZFAND5	ENSG00000107372	ENST00000376960	protein_coding	KNOWN	CCDS6642	13008	642	213	74969374	74980151	-1	ZNF216, ZA20D2	ZFAND5A
9	ZFAND5	ENSG00000107372	ENST00000343431	protein_coding	KNOWN	CCDS6642	13008	642	213	74970749	74979542	-1	ZNF216, ZA20D2	ZFAND5A
9	ZFAND5	ENSG00000107372	ENST00000471197	processed_transcript	KNOWN	None	13008	None	None	74970871	74975201	-1	ZNF216, ZA20D2	ZFAND5A
9	ZFAND5	ENSG00000107372	ENST00000376956	protein_coding	KNOWN	None	13008	634	210	74971862	74979580	-1	ZNF216, ZA20D2	ZFAND5A
9	ZFAND5	ENSG00000107372	ENST00000487330	processed_transcript	KNOWN	None	13008	None	None	74975354	74979892	-1	ZNF216, ZA20D2	ZFAND5A
9	ZFAND5	ENSG00000107372	ENST00000237937	protein_coding	KNOWN	CCDS6642	13008	642	213	74966341	74980163	-1	ZNF216, ZA20D2	ZFAND5A
14	SIVA1	ENSG00000184990	ENST00000329967	protein_coding	KNOWN	CCDS9992	17712	528	175	105219437	105225994	1	None	SIVA, Siva-1, Siva-2, CD27BP
14	SIVA1	ENSG00000184990	ENST00000535554	retained_intron	KNOWN	None	17712	None	None	105219484	105223816	1	None	SIVA, Siva-1, Siva-2, CD27BP
14	SIVA1	ENSG00000184990	ENST00000347067	protein_coding	KNOWN	CCDS9993	17712	333	110	105219496	105225996	1	None	SIVA, Siva-1, Siva-2, CD27BP
14	SIVA1	ENSG00000184990	ENST00000553810	protein_coding	NOVEL	None	17712	508	168	105219497	105223649	1	None	SIVA, Siva-1, Siva-2, CD27BP
14	SIVA1	ENSG00000184990	ENST00000553819	nonsense_mediated_decay	KNOWN	None	17712	510	169	105219508	105234831	1	None	SIVA, Siva-1, Siva-2, CD27BP
14	SIVA1	ENSG00000184990	ENST00000554013	retained_intron	KNOWN	None	17712	None	None	105219518	105223262	1	None	SIVA, Siva-1, Siva-2, CD27BP
14	SIVA1	ENSG00000184990	ENST00000556431	retained_intron	KNOWN	None	17712	None	None	105219539	105225990	1	None	SIVA, Siva-1, Siva-2, CD27BP
14	SIVA1	ENSG00000184990	ENST00000556195	protein_coding	NOVEL	None	17712	581	192	105220055	105225915	1	None	SIVA, Siva-1, Siva-2, CD27BP
16	RNU1-103P	ENSG00000252311	ENST00000516502	snRNA	KNOWN	None	48445	None	None	85815381	85815505	-1	None	None
5	None	ENSG00000253908	ENST00000523026	processed_pseudogene	KNOWN	None	None	None	None	179684680	179685366	1	None	None
4	None	ENSG00000248431	ENST00000512831	lincRNA	KNOWN	None	None	None	None	163661820	163663200	1	None	None
18	None	ENSG00000266578	ENST00000578787	lincRNA	KNOWN	None	None	None	None	3284143	3327290	1	None	None
Y	RBMY2EP	ENSG00000242300	ENST00000444169	processed_transcript	KNOWN	None	23890	None	None	23557034	23563448	-1	None	None
5	None	ENSG00000248367	ENST00000504573	antisense	KNOWN	None	None	None	None	179720245	179722253	1	None	None
2	AMMECR1L	ENSG00000144233	ENST00000272647	protein_coding	KNOWN	CCDS2152	28658	933	310	128619204	128643496	-1	None	MGC4268
2	AMMECR1L	ENSG00000144233	ENST00000393001	protein_coding	KNOWN	CCDS2152	28658	933	310	128619211	128642434	-1	None	MGC4268
19	BSPH1	ENSG00000188334	ENST00000344839	protein_coding	KNOWN	CCDS46135	33906	399	132	48471303	48495427	-1	None	ELSPBP2, BSP1
6	RPL7AP34	ENSG00000213312	ENST00000416120	processed_pseudogene	KNOWN	None	36778	None	None	64258613	64259413	-1	None	None
4	None	ENSG00000251123	ENST00000509766	processed_pseudogene	KNOWN	None	None	None	None	163905947	163906568	1	None	None
18	None	ENSG00000259256	ENST00000558690	lincRNA	KNOWN	None	None	None	None	3347774	3350557	-1	None	None
14	TRAJ14	ENSG00000211875	ENST00000390523	TR_J_gene	KNOWN	None	12042	52	16	22999278	22999329	1	None	None
5	None	ENSG00000250509	ENST00000507681	lincRNA	KNOWN	None	None	None	None	179868559	179870238	1	None	None
6	None	ENSG00000220913	ENST00000405580	unprocessed_pseudogene	KNOWN	None	None	None	None	161326802	161334670	1	None	None
Y	None	ENSG00000236615	ENST00000428616	unprocessed_pseudogene	KNOWN	None	None	None	None	23567656	23567881	1	None	None
4	None	ENSG00000250027	ENST00000503478	antisense	KNOWN	None	None	None	None	164029937	164041117	1	None	None
4	None	ENSG00000250027	ENST00000504628	antisense	KNOWN	None	None	None	None	164038603	164040932	1	None	None
6	None	ENSG00000266680	ENST00000584934	antisense	KNOWN	None	None	None	None	64280910	64282313	-1	None	None
18	RPL31P59	ENSG00000240364	ENST00000486139	processed_pseudogene	KNOWN	None	36975	None	None	3377914	3378245	-1	None	None
6	None	ENSG00000262651	ENST00000573941	processed_pseudogene	KNOWN	None	None	None	None	64322666	64322808	-1	None	None
Y	RBMY2TP	ENSG00000237269	ENST00000451162	unprocessed_pseudogene	KNOWN	None	23897	None	None	23592583	23599131	-1	None	None
1	TARDBP	ENSG00000120948	ENST00000473118	protein_coding	KNOWN	None	11571	604	200	11072414	11080546	1	None	TDP-43, ALS10
1	TARDBP	ENSG00000120948	ENST00000240185	protein_coding	KNOWN	CCDS122	11571	1245	414	11072699	11084100	1	None	TDP-43, ALS10
1	TARDBP	ENSG00000120948	ENST00000476201	protein_coding	NOVEL	None	11571	666	221	11072712	11078930	1	None	TDP-43, ALS10
1	TARDBP	ENSG00000120948	ENST00000472476	nonsense_mediated_decay	KNOWN	None	11571	243	80	11072729	11080655	1	None	TDP-43, ALS10
1	TARDBP	ENSG00000120948	ENST00000315091	protein_coding	PUTATIVE	None	11571	888	295	11073773	11084240	1	None	TDP-43, ALS10
1	TARDBP	ENSG00000120948	ENST00000473869	nonsense_mediated_decay	KNOWN	None	11571	897	298	11073773	11085076	1	None	TDP-43, ALS10
1	TARDBP	ENSG00000120948	ENST00000477447	nonsense_mediated_decay	KNOWN	None	11571	196	64	11080644	11084392	1	None	TDP-43, ALS10
1	TARDBP	ENSG00000120948	ENST00000496840	nonsense_mediated_decay	KNOWN	None	11571	51	16	11083255	11085796	1	None	TDP-43, ALS10
1	TARDBP	ENSG00000120948	ENST00000480464	processed_transcript	KNOWN	None	11571	None	None	11084284	11085548	1	None	TDP-43, ALS10
1	TARDBP	ENSG00000120948	ENST00000439080	protein_coding	KNOWN	None	11571	897	298	11072741	11082915	1	None	TDP-43, ALS10
6	RPL9P18	ENSG00000213309	ENST00000439124	processed_pseudogene	KNOWN	None	36954	None	None	64325732	64326266	-1	None	None
16	None	ENSG00000270184	ENST00000602706	antisense	KNOWN	None	None	None	None	85817988	85821223	1	None	None
6	RAET1E	ENSG00000164520	ENST00000532335	protein_coding	KNOWN	CCDS59043	16793	639	212	150204511	150217195	-1	None	LETAL, bA350J20.7, ULBP4
6	RAET1E	ENSG00000164520	ENST00000357183	protein_coding	KNOWN	CCDS5221	16793	792	263	150209601	150212170	-1	None	LETAL, bA350J20.7, ULBP4
6	RAET1E	ENSG00000164520	ENST00000392270	nonsense_mediated_decay	KNOWN	None	16793	354	117	150209608	150212068	-1	None	LETAL, bA350J20.7, ULBP4
6	RAET1E	ENSG00000164520	ENST00000367363	protein_coding	KNOWN	CCDS59044	16793	684	227	150209634	150212170	-1	None	LETAL, bA350J20.7, ULBP4
6	RAET1E	ENSG00000164520	ENST00000529948	protein_coding	PUTATIVE	CCDS59042	16793	630	209	150210231	150212037	-1	None	LETAL, bA350J20.7, ULBP4
6	RAET1E	ENSG00000164520	ENST00000531073	protein_coding	KNOWN	None	16793	241	79	150211126	150219238	-1	None	LETAL, bA350J20.7, ULBP4
6	RAET1E	ENSG00000164520	ENST00000524905	processed_transcript	KNOWN	None	16793	None	None	150216615	150219213	-1	None	LETAL, bA350J20.7, ULBP4
16	PABPC1P13	ENSG00000260307	ENST00000565427	processed_pseudogene	KNOWN	None	37995	None	None	32450390	32452480	-1	None	None
16	None	ENSG00000270159	ENST00000602617	antisense	KNOWN	None	None	None	None	85826021	85826539	1	None	None
18	None	ENSG00000265243	ENST00000584002	IG_C_pseudogene	KNOWN	None	None	None	None	3394887	3395310	1	None	None
6	None	ENSG00000218813	ENST00000406535	processed_pseudogene	KNOWN	None	None	None	None	64507082	64507924	1	None	None
6	CAPN11	ENSG00000137225	ENST00000532171	protein_coding	NOVEL	None	1478	547	181	44126548	44140086	1	None	None
6	CAPN11	ENSG00000137225	ENST00000398776	protein_coding	KNOWN	CCDS47436	1478	2220	739	44126548	44152139	1	None	None
6	CAPN11	ENSG00000137225	ENST00000526118	nonsense_mediated_decay	KNOWN	None	1478	123	40	44126557	44137704	1	None	None
6	CAPN11	ENSG00000137225	ENST00000524554	retained_intron	KNOWN	None	1478	None	None	44144288	44149058	1	None	None
6	CAPN11	ENSG00000137225	ENST00000533604	retained_intron	KNOWN	None	1478	None	None	44144353	44151004	1	None	None
6	CAPN11	ENSG00000137225	ENST00000542245	protein_coding	KNOWN	None	1478	2220	739	44126548	44152139	1	None	None
6	None	ENSG00000233342	ENST00000420601	lincRNA	KNOWN	None	None	None	None	161347401	161348194	1	None	None
9	None	ENSG00000228307	ENST00000447226	unprocessed_pseudogene	KNOWN	None	None	None	None	36013181	36014130	1	None	None
6	TRAM2	ENSG00000065308	ENST00000182527	protein_coding	KNOWN	CCDS34477	16855	1113	370	52362200	52441713	-1	None	KIAA0057
16	None	ENSG00000270698	ENST00000605872	processed_pseudogene	KNOWN	None	None	None	None	85848031	85848668	-1	None	None
17	None	ENSG00000269094	ENST00000595377	protein_coding	KNOWN	None	None	366	121	36884086	36884451	-1	None	None
18	RPL21P127	ENSG00000243720	ENST00000490908	processed_pseudogene	KNOWN	None	36099	None	None	3406340	3406816	-1	None	None
Y	None	ENSG00000235719	ENST00000425318	unprocessed_pseudogene	KNOWN	None	None	None	None	23627270	23629049	-1	None	None
HSCHR6_MHC_MCF	CYP21A2	ENSG00000235134	ENST00000436607	protein_coding	KNOWN	None	2600	1485	494	32082523	32085863	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_MCF	CYP21A2	ENSG00000235134	ENST00000496685	processed_transcript	PUTATIVE	None	2600	None	None	32082541	32083668	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_MCF	CYP21A2	ENSG00000235134	ENST00000489576	retained_intron	KNOWN	None	2600	None	None	32082590	32085863	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_MCF	CYP21A2	ENSG00000235134	ENST00000464272	retained_intron	KNOWN	None	2600	None	None	32082590	32085863	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_MCF	CYP21A2	ENSG00000235134	ENST00000460263	retained_intron	KNOWN	None	2600	None	None	32082590	32085863	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_MCF	CYP21A2	ENSG00000235134	ENST00000493848	retained_intron	KNOWN	None	2600	None	None	32082595	32085863	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_MCF	CYP21A2	ENSG00000235134	ENST00000497396	retained_intron	KNOWN	None	2600	None	None	32082640	32083336	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_MCF	CYP21A2	ENSG00000235134	ENST00000462292	processed_transcript	KNOWN	None	2600	None	None	32082640	32083704	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_MCF	CYP21A2	ENSG00000235134	ENST00000494716	processed_transcript	KNOWN	None	2600	None	None	32082640	32083772	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_MCF	CYP21A2	ENSG00000235134	ENST00000448877	protein_coding	KNOWN	None	2600	1395	464	32082640	32085891	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
19	CAPN12	ENSG00000182472	ENST00000594552	nonsense_mediated_decay	KNOWN	None	13249	110	35	39220827	39226050	-1	None	None
19	CAPN12	ENSG00000182472	ENST00000597987	protein_coding	NOVEL	None	13249	318	105	39220914	39226045	-1	None	None
19	CAPN12	ENSG00000182472	ENST00000601953	protein_coding	PUTATIVE	None	13249	1713	570	39221071	39260544	-1	None	None
19	CAPN12	ENSG00000182472	ENST00000593700	retained_intron	KNOWN	None	13249	None	None	39221098	39226317	-1	None	None
19	CAPN12	ENSG00000182472	ENST00000597716	retained_intron	KNOWN	None	13249	None	None	39221174	39227631	-1	None	None
19	CAPN12	ENSG00000182472	ENST00000328867	protein_coding	KNOWN	CCDS12519	13249	2160	719	39221199	39235114	-1	None	None
19	CAPN12	ENSG00000182472	ENST00000595177	protein_coding	NOVEL	None	13249	314	103	39221318	39226062	-1	None	None
19	CAPN12	ENSG00000182472	ENST00000597354	retained_intron	KNOWN	None	13249	None	None	39221808	39226264	-1	None	None
19	CAPN12	ENSG00000182472	ENST00000601685	retained_intron	KNOWN	None	13249	None	None	39223761	39226312	-1	None	None
19	CAPN12	ENSG00000182472	ENST00000594497	retained_intron	KNOWN	None	13249	None	None	39225206	39226302	-1	None	None
19	CAPN12	ENSG00000182472	ENST00000598684	protein_coding	NOVEL	None	13249	539	178	39232417	39234812	-1	None	None
19	CAPN12	ENSG00000182472	ENST00000597740	nonsense_mediated_decay	KNOWN	None	13249	282	93	39232883	39234812	-1	None	None
9	None	ENSG00000236110	ENST00000422137	unprocessed_pseudogene	KNOWN	None	None	None	None	36021689	36022110	1	None	None
19	None	ENSG00000268107	ENST00000601674	nonsense_mediated_decay	KNOWN	None	None	180	59	57999086	58016728	1	None	None
19	None	ENSG00000268107	ENST00000599674	nonsense_mediated_decay	KNOWN	None	None	177	58	57999121	58016749	1	None	None
18	None	ENSG00000263460	ENST00000584421	transcribed_processed_pseudogene	KNOWN	None	None	None	None	3415143	3415578	1	None	None
17	CISD3	ENSG00000230055	ENST00000439660	protein_coding	KNOWN	CCDS45662	27578	384	127	36886488	36891274	1	None	Miner2
17	CISD3	ENSG00000230055	ENST00000578573	processed_transcript	KNOWN	None	27578	None	None	36886612	36891297	1	None	Miner2
17	CISD3	ENSG00000230055	ENST00000581668	retained_intron	KNOWN	None	27578	None	None	36887360	36889968	1	None	Miner2
14	TRAJ13	ENSG00000211876	ENST00000390524	TR_J_gene	KNOWN	None	12041	63	20	23000026	23000088	1	None	None
5	RNU6-525P	ENSG00000200555	ENST00000363685	snRNA	KNOWN	None	47488	None	None	179871509	179871612	1	None	None
9	RNU4-53P	ENSG00000222760	ENST00000410828	snRNA	KNOWN	None	46989	None	None	36267780	36267919	1	None	None
9	HMGB3P24	ENSG00000215283	ENST00000433260	processed_pseudogene	KNOWN	None	39316	None	None	36303496	36304921	-1	None	None
20	PABPC1L	ENSG00000101104	ENST00000217074	protein_coding	KNOWN	None	15797	993	330	43538703	43559367	1	C20orf119	dJ1069P2.3, PABPC1L1, ePAB
20	PABPC1L	ENSG00000101104	ENST00000217073	protein_coding	KNOWN	CCDS42878	15797	1845	614	43538785	43567389	1	C20orf119	dJ1069P2.3, PABPC1L1, ePAB
20	PABPC1L	ENSG00000101104	ENST00000481196	processed_transcript	KNOWN	None	15797	None	None	43547635	43559367	1	C20orf119	dJ1069P2.3, PABPC1L1, ePAB
20	PABPC1L	ENSG00000101104	ENST00000490798	processed_transcript	KNOWN	None	15797	None	None	43550252	43587676	1	C20orf119	dJ1069P2.3, PABPC1L1, ePAB
20	PABPC1L	ENSG00000101104	ENST00000476056	processed_transcript	KNOWN	None	15797	None	None	43550266	43567958	1	C20orf119	dJ1069P2.3, PABPC1L1, ePAB
20	PABPC1L	ENSG00000101104	ENST00000372824	protein_coding	KNOWN	None	15797	507	168	43560203	43567958	1	C20orf119	dJ1069P2.3, PABPC1L1, ePAB
20	PABPC1L	ENSG00000101104	ENST00000372819	protein_coding	KNOWN	None	15797	450	149	43560820	43587676	1	C20orf119	dJ1069P2.3, PABPC1L1, ePAB
20	PABPC1L	ENSG00000101104	ENST00000217075	protein_coding	KNOWN	None	15797	516	171	43561323	43567958	1	C20orf119	dJ1069P2.3, PABPC1L1, ePAB
20	PABPC1L	ENSG00000101104	ENST00000479873	nonsense_mediated_decay	KNOWN	None	15797	525	174	43561331	43567958	1	C20orf119	dJ1069P2.3, PABPC1L1, ePAB
20	PABPC1L	ENSG00000101104	ENST00000465761	processed_transcript	KNOWN	None	15797	None	None	43561684	43565828	1	C20orf119	dJ1069P2.3, PABPC1L1, ePAB
20	PABPC1L	ENSG00000101104	ENST00000372826	protein_coding	KNOWN	None	15797	458	151	43561776	43587448	1	C20orf119	dJ1069P2.3, PABPC1L1, ePAB
20	PABPC1L	ENSG00000101104	ENST00000474208	processed_transcript	KNOWN	None	15797	None	None	43564038	43567337	1	C20orf119	dJ1069P2.3, PABPC1L1, ePAB
20	PABPC1L	ENSG00000101104	ENST00000489068	processed_transcript	KNOWN	None	15797	None	None	43564072	43567825	1	C20orf119	dJ1069P2.3, PABPC1L1, ePAB
20	PABPC1L	ENSG00000101104	ENST00000372822	protein_coding	KNOWN	None	15797	405	134	43564103	43567958	1	C20orf119	dJ1069P2.3, PABPC1L1, ePAB
20	PABPC1L	ENSG00000101104	ENST00000482486	processed_transcript	PUTATIVE	None	15797	None	None	43566484	43567958	1	C20orf119	dJ1069P2.3, PABPC1L1, ePAB
20	PABPC1L	ENSG00000101104	ENST00000255136	protein_coding	KNOWN	CCDS42878	15797	1845	614	43538703	43567962	1	C20orf119	dJ1069P2.3, PABPC1L1, ePAB
20	PABPC1L	ENSG00000101104	ENST00000537323	protein_coding	KNOWN	None	15797	993	330	43538765	43567954	1	C20orf119	dJ1069P2.3, PABPC1L1, ePAB
6	None	ENSG00000231863	ENST00000417479	antisense	KNOWN	None	None	None	None	161352112	161390803	1	None	None
3	VGLL4	ENSG00000144560	ENST00000273038	protein_coding	KNOWN	CCDS2606	28966	873	290	11597544	11762220	-1	None	KIAA0121
3	VGLL4	ENSG00000144560	ENST00000413604	protein_coding	PUTATIVE	None	28966	696	231	11599543	11646055	-1	None	KIAA0121
3	VGLL4	ENSG00000144560	ENST00000451674	protein_coding	PUTATIVE	CCDS46755	28966	633	210	11599817	11623865	-1	None	KIAA0121
3	VGLL4	ENSG00000144560	ENST00000424529	protein_coding	PUTATIVE	CCDS46756	28966	621	206	11599944	11610398	-1	None	KIAA0121
3	VGLL4	ENSG00000144560	ENST00000430365	protein_coding	KNOWN	CCDS46754	28966	891	296	11599950	11685398	-1	None	KIAA0121
3	VGLL4	ENSG00000144560	ENST00000426568	nonsense_mediated_decay	KNOWN	None	28966	126	41	11599950	11762196	-1	None	KIAA0121
3	VGLL4	ENSG00000144560	ENST00000445411	protein_coding	KNOWN	None	28966	671	222	11600232	11762203	-1	None	KIAA0121
3	VGLL4	ENSG00000144560	ENST00000418000	protein_coding	KNOWN	None	28966	601	199	11600806	11761068	-1	None	KIAA0121
3	VGLL4	ENSG00000144560	ENST00000458499	protein_coding	PUTATIVE	None	28966	570	189	11600825	11668880	-1	None	KIAA0121
3	VGLL4	ENSG00000144560	ENST00000417206	protein_coding	KNOWN	None	28966	508	168	11606240	11761112	-1	None	KIAA0121
3	VGLL4	ENSG00000144560	ENST00000417466	nonsense_mediated_decay	KNOWN	None	28966	96	31	11606322	11761093	-1	None	KIAA0121
3	VGLL4	ENSG00000144560	ENST00000424709	protein_coding	PUTATIVE	None	28966	245	80	11606326	11654141	-1	None	KIAA0121
3	VGLL4	ENSG00000144560	ENST00000419541	protein_coding	KNOWN	None	28966	382	126	11606366	11752011	-1	None	KIAA0121
3	VGLL4	ENSG00000144560	ENST00000437722	protein_coding	PUTATIVE	None	28966	182	59	11606389	11651978	-1	None	KIAA0121
3	VGLL4	ENSG00000144560	ENST00000480288	processed_transcript	PUTATIVE	None	28966	None	None	11643466	11675145	-1	None	KIAA0121
3	VGLL4	ENSG00000144560	ENST00000463387	processed_transcript	KNOWN	None	28966	None	None	11741020	11761934	-1	None	KIAA0121
3	VGLL4	ENSG00000144560	ENST00000404339	protein_coding	KNOWN	None	28966	888	295	11599963	11762205	-1	None	KIAA0121
9	MIR4475	ENSG00000266255	ENST00000580479	miRNA	KNOWN	None	41697	None	None	36823536	36823596	-1	None	hsa-mir-4475
19	ELSPBP1	ENSG00000169393	ENST00000339841	protein_coding	KNOWN	CCDS12708	14417	672	223	48497908	48528403	1	None	HE12, E12, EDDM12
19	ELSPBP1	ENSG00000169393	ENST00000596043	protein_coding	NOVEL	None	14417	450	149	48497962	48525500	1	None	HE12, E12, EDDM12
19	ELSPBP1	ENSG00000169393	ENST00000597519	protein_coding	NOVEL	None	14417	228	75	48497966	48528410	1	None	HE12, E12, EDDM12
19	ELSPBP1	ENSG00000169393	ENST00000593782	protein_coding	KNOWN	None	14417	464	153	48519150	48528391	1	None	HE12, E12, EDDM12
19	ELSPBP1	ENSG00000169393	ENST00000593413	protein_coding	KNOWN	None	14417	231	76	48523062	48528405	1	None	HE12, E12, EDDM12
9	None	ENSG00000258885	ENST00000557174	antisense	KNOWN	None	None	None	None	36856552	36861372	1	None	None
6	None	ENSG00000221021	ENST00000408094	miRNA	NOVEL	None	None	None	None	162036098	162036191	1	None	None
19	None	ENSG00000269021	ENST00000601044	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	51784116	51786276	1	None	None
6	KRT8P44	ENSG00000227913	ENST00000441609	processed_pseudogene	KNOWN	None	39878	None	None	162989411	162990760	1	None	None
7	MIR196B	ENSG00000207584	ENST00000384852	miRNA	KNOWN	None	31790	None	None	27209099	27209183	-1	MIRN196B	hsa-mir-196b
19	None	ENSG00000267905	ENST00000601148	antisense	KNOWN	None	None	None	None	51843949	51847370	1	None	None
19	None	ENSG00000267905	ENST00000594311	antisense	KNOWN	None	None	None	None	51843949	51847371	1	None	None
5	NME5	ENSG00000112981	ENST00000265191	protein_coding	KNOWN	CCDS4197	7853	639	212	137450866	137475104	-1	None	nm23-H5, RSPH23
5	NME5	ENSG00000112981	ENST00000506657	retained_intron	KNOWN	None	7853	None	None	137451096	137464332	-1	None	nm23-H5, RSPH23
5	NME5	ENSG00000112981	ENST00000514481	processed_transcript	KNOWN	None	7853	None	None	137451242	137452070	-1	None	nm23-H5, RSPH23
5	NME5	ENSG00000112981	ENST00000508252	processed_transcript	KNOWN	None	7853	None	None	137463122	137465124	-1	None	nm23-H5, RSPH23
5	NME5	ENSG00000112981	ENST00000511353	retained_intron	KNOWN	None	7853	None	None	137465110	137474856	-1	None	nm23-H5, RSPH23
5	NME5	ENSG00000112981	ENST00000512954	retained_intron	KNOWN	None	7853	None	None	137474030	137475132	-1	None	nm23-H5, RSPH23
5	PDLIM4	ENSG00000131435	ENST00000253754	protein_coding	KNOWN	CCDS4152	16501	993	330	131593364	131609147	1	None	RIL
5	PDLIM4	ENSG00000131435	ENST00000463615	retained_intron	KNOWN	None	16501	None	None	131593389	131602454	1	None	RIL
5	PDLIM4	ENSG00000131435	ENST00000474421	retained_intron	KNOWN	None	16501	None	None	131593396	131607566	1	None	RIL
5	PDLIM4	ENSG00000131435	ENST00000379018	protein_coding	KNOWN	CCDS47261	16501	741	246	131593400	131608025	1	None	RIL
5	PDLIM4	ENSG00000131435	ENST00000418373	protein_coding	PUTATIVE	None	16501	363	120	131597142	131607029	1	None	RIL
5	PDLIM4	ENSG00000131435	ENST00000484620	processed_transcript	KNOWN	None	16501	None	None	131606125	131607526	1	None	RIL
5	PDLIM4	ENSG00000131435	ENST00000462597	retained_intron	KNOWN	None	16501	None	None	131606665	131607756	1	None	RIL
19	DMWD	ENSG00000185800	ENST00000377735	protein_coding	NOVEL	None	2936	1950	649	46286205	46296060	-1	None	DMR-N9, gene59, D19S593E
19	DMWD	ENSG00000185800	ENST00000270223	protein_coding	KNOWN	CCDS33054	2936	2025	674	46286267	46296060	-1	None	DMR-N9, gene59, D19S593E
19	DMWD	ENSG00000185800	ENST00000537879	protein_coding	PUTATIVE	None	2936	195	64	46287197	46288917	-1	None	DMR-N9, gene59, D19S593E
19	DMWD	ENSG00000185800	ENST00000602829	protein_coding	PUTATIVE	None	2936	485	160	46288514	46289168	-1	None	DMR-N9, gene59, D19S593E
19	DMWD	ENSG00000185800	ENST00000601370	processed_transcript	KNOWN	None	2936	None	None	46290108	46296031	-1	None	DMR-N9, gene59, D19S593E
19	DMWD	ENSG00000185800	ENST00000597053	protein_coding	PUTATIVE	None	2936	309	102	46292517	46294303	-1	None	DMR-N9, gene59, D19S593E
19	DMWD	ENSG00000185800	ENST00000602469	retained_intron	KNOWN	None	2936	None	None	46292653	46293434	-1	None	DMR-N9, gene59, D19S593E
19	DMWD	ENSG00000185800	ENST00000598237	protein_coding	PUTATIVE	None	2936	449	148	46293825	46295695	-1	None	DMR-N9, gene59, D19S593E
2	HADHB	ENSG00000138029	ENST00000448743	protein_coding	KNOWN	None	4803	449	148	26466038	26501488	1	None	MTPB
2	HADHB	ENSG00000138029	ENST00000317799	protein_coding	KNOWN	CCDS1722	4803	1425	474	26467763	26513336	1	None	MTPB
2	HADHB	ENSG00000138029	ENST00000479347	retained_intron	KNOWN	None	4803	None	None	26467788	26477824	1	None	MTPB
2	HADHB	ENSG00000138029	ENST00000405867	protein_coding	NOVEL	None	4803	1056	351	26467794	26513280	1	None	MTPB
2	HADHB	ENSG00000138029	ENST00000425035	protein_coding	KNOWN	None	4803	527	174	26467847	26501566	1	None	MTPB
2	HADHB	ENSG00000138029	ENST00000412805	protein_coding	KNOWN	None	4803	254	83	26467998	26492865	1	None	MTPB
2	HADHB	ENSG00000138029	ENST00000494615	processed_transcript	KNOWN	None	4803	None	None	26483406	26513332	1	None	MTPB
2	HADHB	ENSG00000138029	ENST00000537713	protein_coding	KNOWN	None	4803	1380	459	26467817	26512910	1	None	MTPB
2	HADHB	ENSG00000138029	ENST00000545822	protein_coding	KNOWN	None	4803	1359	452	26467830	26513171	1	None	MTPB
19	None	ENSG00000267984	ENST00000600974	antisense	KNOWN	None	None	None	None	51848423	51856547	1	None	None
14	TRAJ12	ENSG00000211877	ENST00000390525	TR_J_gene	KNOWN	None	12040	60	19	23000889	23000948	1	None	None
5	RPL5P16	ENSG00000240411	ENST00000471467	processed_pseudogene	KNOWN	None	36009	None	None	82073616	82074405	1	None	None
19	None	ENSG00000268520	ENST00000595500	sense_intronic	KNOWN	None	None	None	None	51864966	51868798	-1	None	None
5	None	ENSG00000248105	ENST00000514930	processed_pseudogene	KNOWN	None	None	None	None	82120703	82121003	1	None	None
19	TIMM13	ENSG00000099800	ENST00000215570	protein_coding	KNOWN	CCDS12089	11816	288	95	2425622	2427892	-1	TIMM13B	Tim13
19	TIMM13	ENSG00000099800	ENST00000591871	protein_coding	PUTATIVE	None	11816	243	80	2426563	2427536	-1	TIMM13B	Tim13
19	None	ENSG00000268889	ENST00000600765	lincRNA	KNOWN	None	None	None	None	51897742	51906904	1	None	None
19	None	ENSG00000269403	ENST00000600067	nonsense_mediated_decay	KNOWN	None	None	132	43	51853627	51871353	-1	None	None
7	UBN2	ENSG00000157741	ENST00000486663	protein_coding	PUTATIVE	None	21931	413	136	138915102	138946036	1	None	FLJ25778, KIAA2030
7	UBN2	ENSG00000157741	ENST00000473989	protein_coding	KNOWN	CCDS43655	21931	4044	1347	138916231	138984602	1	None	FLJ25778, KIAA2030
7	UBN2	ENSG00000157741	ENST00000483726	protein_coding	PUTATIVE	None	21931	1334	443	138943265	138962460	1	None	FLJ25778, KIAA2030
7	UBN2	ENSG00000157741	ENST00000288561	protein_coding	KNOWN	None	21931	3795	1264	138916231	138992981	1	None	FLJ25778, KIAA2030
18	TXNDC2	ENSG00000168454	ENST00000536353	protein_coding	PUTATIVE	None	16470	333	110	9885763	9888377	1	None	SPTRX1
18	TXNDC2	ENSG00000168454	ENST00000584255	protein_coding	PUTATIVE	None	16470	177	58	9885775	9886927	1	None	SPTRX1
18	TXNDC2	ENSG00000168454	ENST00000357775	protein_coding	KNOWN	CCDS11846	16470	1461	486	9885935	9888156	1	None	SPTRX1
18	TXNDC2	ENSG00000168454	ENST00000306084	protein_coding	KNOWN	CCDS42414	16470	1662	553	9885973	9888150	1	None	SPTRX1
18	TXNDC2	ENSG00000168454	ENST00000426718	protein_coding	PUTATIVE	None	16470	114	37	9886011	9886927	1	None	SPTRX1
18	TXNDC2	ENSG00000168454	ENST00000577697	processed_transcript	KNOWN	None	16470	None	None	9887652	9889272	1	None	SPTRX1
19	ZNF773	ENSG00000152439	ENST00000593916	protein_coding	PUTATIVE	None	30487	306	101	58011283	58024512	1	ZNF419B	MGC4728
19	ZNF773	ENSG00000152439	ENST00000598770	protein_coding	KNOWN	None	30487	1326	441	58011303	58019339	1	ZNF419B	MGC4728
19	ZNF773	ENSG00000152439	ENST00000599847	protein_coding	PUTATIVE	None	30487	354	117	58011307	58029772	1	ZNF419B	MGC4728
19	ZNF773	ENSG00000152439	ENST00000282292	protein_coding	KNOWN	CCDS33134	30487	1329	442	58011309	58019529	1	ZNF419B	MGC4728
19	ZNF773	ENSG00000152439	ENST00000597061	nonsense_mediated_decay	KNOWN	None	30487	354	117	58011325	58027789	1	ZNF419B	MGC4728
19	ZNF773	ENSG00000152439	ENST00000601958	retained_intron	KNOWN	None	30487	None	None	58016257	58017750	1	ZNF419B	MGC4728
7	ZBED6CL	ENSG00000188707	ENST00000343855	protein_coding	KNOWN	CCDS5900	21720	711	236	150026938	150029808	1	C7orf29	None
X	MIR221	ENSG00000207870	ENST00000385135	miRNA	KNOWN	None	31601	None	None	45605585	45605694	-1	MIRN221	hsa-mir-221
X	MIR222	ENSG00000207725	ENST00000384992	miRNA	KNOWN	None	31602	None	None	45606421	45606530	-1	MIRN222	hsa-mir-222
9	RPL7A	ENSG00000148303	ENST00000323345	protein_coding	KNOWN	CCDS6965	10364	801	266	136215069	136218281	1	None	SURF3, TRUP, L7A
9	RPL7A	ENSG00000148303	ENST00000496554	processed_transcript	KNOWN	None	10364	None	None	136215073	136217550	1	None	SURF3, TRUP, L7A
9	RPL7A	ENSG00000148303	ENST00000463740	processed_transcript	KNOWN	None	10364	None	None	136215073	136218281	1	None	SURF3, TRUP, L7A
9	RPL7A	ENSG00000148303	ENST00000426651	protein_coding	KNOWN	None	10364	575	190	136215107	136217173	1	None	SURF3, TRUP, L7A
9	RPL7A	ENSG00000148303	ENST00000468019	processed_transcript	KNOWN	None	10364	None	None	136215107	136218227	1	None	SURF3, TRUP, L7A
9	RPL7A	ENSG00000148303	ENST00000485706	processed_transcript	KNOWN	None	10364	None	None	136215777	136217238	1	None	SURF3, TRUP, L7A
9	RPL7A	ENSG00000148303	ENST00000315731	protein_coding	KNOWN	None	10364	456	151	136215777	136218281	1	None	SURF3, TRUP, L7A
9	RPL7A	ENSG00000148303	ENST00000489392	processed_transcript	KNOWN	None	10364	None	None	136215792	136218240	1	None	SURF3, TRUP, L7A
9	RPL7A	ENSG00000148303	ENST00000492798	processed_transcript	KNOWN	None	10364	None	None	136217705	136218268	1	None	SURF3, TRUP, L7A
1	FMO6P	ENSG00000117507	ENST00000367754	nonsense_mediated_decay	KNOWN	None	24024	195	64	171106879	171130707	1	FMO6	None
1	FMO6P	ENSG00000117507	ENST00000236166	protein_coding	NOVEL	None	24024	1257	418	171107241	171130535	1	FMO6	None
16	None	ENSG00000260478	ENST00000568286	lincRNA	KNOWN	None	None	None	None	52271994	52303352	1	None	None
X	PIR	ENSG00000087842	ENST00000492432	processed_transcript	KNOWN	None	30048	None	None	15402921	15425775	-1	None	None
X	PIR	ENSG00000087842	ENST00000380420	protein_coding	KNOWN	CCDS14167	30048	873	290	15402921	15511464	-1	None	None
X	PIR	ENSG00000087842	ENST00000380421	protein_coding	KNOWN	CCDS14167	30048	873	290	15402921	15511687	-1	None	None
X	PIR	ENSG00000087842	ENST00000484433	processed_transcript	KNOWN	None	30048	None	None	15408085	15425672	-1	None	None
X	PIR	ENSG00000087842	ENST00000476381	processed_transcript	KNOWN	None	30048	None	None	15447498	15509330	-1	None	None
X	PIR	ENSG00000087842	ENST00000471725	processed_transcript	KNOWN	None	30048	None	None	15496539	15511411	-1	None	None
11	ANO3	ENSG00000134343	ENST00000525139	protein_coding	PUTATIVE	None	14004	2898	965	26331146	26682227	1	C11orf25, TMEM16C	GENX-3947, DYT23
11	ANO3	ENSG00000134343	ENST00000256737	protein_coding	KNOWN	CCDS31447	14004	2946	981	26352971	26684835	1	C11orf25, TMEM16C	GENX-3947, DYT23
11	ANO3	ENSG00000134343	ENST00000531646	protein_coding	PUTATIVE	None	14004	621	206	26353668	26530327	1	C11orf25, TMEM16C	GENX-3947, DYT23
11	ANO3	ENSG00000134343	ENST00000531568	protein_coding	PUTATIVE	None	14004	2508	835	26495449	26682367	1	C11orf25, TMEM16C	GENX-3947, DYT23
11	ANO3	ENSG00000134343	ENST00000529242	processed_transcript	KNOWN	None	14004	None	None	26563492	26584776	1	C11orf25, TMEM16C	GENX-3947, DYT23
11	ANO3	ENSG00000134343	ENST00000537978	protein_coding	KNOWN	None	14004	2898	965	26210829	26682227	1	C11orf25, TMEM16C	GENX-3947, DYT23
9	NFIL3	ENSG00000165030	ENST00000297689	protein_coding	KNOWN	CCDS6690	7787	1389	462	94171327	94186144	-1	IL3BP1	E4BP4, NFIL3A, NF-IL3A
16	None	ENSG00000221515	ENST00000408588	miRNA	NOVEL	None	None	None	None	52289363	52289461	-1	None	None
16	None	ENSG00000260887	ENST00000569713	lincRNA	KNOWN	None	None	None	None	52292476	52314211	1	None	None
14	TRAJ11	ENSG00000211878	ENST00000390526	TR_J_gene	KNOWN	None	12039	60	19	23001452	23001511	1	None	None
9	SVEP1	ENSG00000165124	ENST00000297826	protein_coding	KNOWN	None	15985	4494	1497	113127536	113190038	-1	C9orf13	bA427L11.3, POLYDOM, FLJ13529
9	SVEP1	ENSG00000165124	ENST00000374469	protein_coding	KNOWN	None	15985	10647	3548	113127536	113342018	-1	C9orf13	bA427L11.3, POLYDOM, FLJ13529
9	SVEP1	ENSG00000165124	ENST00000476205	processed_transcript	KNOWN	None	15985	None	None	113139091	113141658	-1	C9orf13	bA427L11.3, POLYDOM, FLJ13529
9	SVEP1	ENSG00000165124	ENST00000467821	processed_transcript	KNOWN	None	15985	None	None	113204759	113312334	-1	C9orf13	bA427L11.3, POLYDOM, FLJ13529
9	SVEP1	ENSG00000165124	ENST00000374461	protein_coding	KNOWN	None	15985	2538	845	113238163	113342160	-1	C9orf13	bA427L11.3, POLYDOM, FLJ13529
9	SVEP1	ENSG00000165124	ENST00000401783	protein_coding	KNOWN	CCDS48004	15985	10716	3571	113127531	113342160	-1	C9orf13	bA427L11.3, POLYDOM, FLJ13529
9	SVEP1	ENSG00000165124	ENST00000302728	protein_coding	KNOWN	None	15985	4650	1549	113204759	113341823	-1	C9orf13	bA427L11.3, POLYDOM, FLJ13529
7	HOXA11-AS	ENSG00000240990	ENST00000520360	antisense	KNOWN	None	24957	None	None	27224137	27228786	1	HOXA11AS	HOXA11-AS1, HOXA11S, HOXA-AS5, NCRNA00076
7	HOXA11-AS	ENSG00000240990	ENST00000522863	antisense	KNOWN	None	24957	None	None	27224290	27228786	1	HOXA11AS	HOXA11-AS1, HOXA11S, HOXA-AS5, NCRNA00076
7	HOXA11-AS	ENSG00000240990	ENST00000522674	antisense	KNOWN	None	24957	None	None	27225027	27228912	1	HOXA11AS	HOXA11-AS1, HOXA11S, HOXA-AS5, NCRNA00076
7	HOXA11-AS	ENSG00000240990	ENST00000520395	antisense	KNOWN	None	24957	None	None	27225153	27226740	1	HOXA11AS	HOXA11-AS1, HOXA11S, HOXA-AS5, NCRNA00076
7	HOXA11-AS	ENSG00000240990	ENST00000479766	antisense	KNOWN	None	24957	None	None	27227438	27228839	1	HOXA11AS	HOXA11-AS1, HOXA11S, HOXA-AS5, NCRNA00076
17	LLGL2	ENSG00000073350	ENST00000580578	protein_coding	KNOWN	None	6629	452	149	73521161	73555413	1	None	HGL
17	LLGL2	ENSG00000073350	ENST00000167462	protein_coding	KNOWN	CCDS11725	6629	3048	1015	73521807	73571289	1	None	HGL
17	LLGL2	ENSG00000073350	ENST00000375227	protein_coding	KNOWN	CCDS45776	6629	1071	356	73521813	73560802	1	None	HGL
17	LLGL2	ENSG00000073350	ENST00000392550	protein_coding	KNOWN	CCDS32733	6629	3063	1020	73521820	73571288	1	None	HGL
17	LLGL2	ENSG00000073350	ENST00000578363	protein_coding	KNOWN	CCDS45776	6629	1071	356	73521860	73560804	1	None	HGL
17	LLGL2	ENSG00000073350	ENST00000579392	protein_coding	KNOWN	None	6629	310	102	73521870	73554647	1	None	HGL
17	LLGL2	ENSG00000073350	ENST00000577200	protein_coding	NOVEL	None	6629	3060	1019	73528574	73570987	1	None	HGL
17	LLGL2	ENSG00000073350	ENST00000578536	protein_coding	KNOWN	None	6629	316	104	73538716	73554653	1	None	HGL
17	LLGL2	ENSG00000073350	ENST00000580925	protein_coding	KNOWN	None	6629	119	38	73539235	73552170	1	None	HGL
17	LLGL2	ENSG00000073350	ENST00000581713	protein_coding	KNOWN	None	6629	419	138	73539342	73555380	1	None	HGL
17	LLGL2	ENSG00000073350	ENST00000583658	protein_coding	PUTATIVE	None	6629	468	155	73542229	73555426	1	None	HGL
17	LLGL2	ENSG00000073350	ENST00000545227	retained_intron	KNOWN	None	6629	None	None	73553886	73571289	1	None	HGL
17	LLGL2	ENSG00000073350	ENST00000582860	retained_intron	KNOWN	None	6629	None	None	73555056	73559450	1	None	HGL
17	LLGL2	ENSG00000073350	ENST00000580027	retained_intron	KNOWN	None	6629	None	None	73558361	73560781	1	None	HGL
17	LLGL2	ENSG00000073350	ENST00000578638	nonsense_mediated_decay	KNOWN	None	6629	259	85	73559855	73571275	1	None	HGL
17	LLGL2	ENSG00000073350	ENST00000577500	retained_intron	KNOWN	None	6629	None	None	73564001	73571288	1	None	HGL
17	LLGL2	ENSG00000073350	ENST00000578719	nonsense_mediated_decay	KNOWN	None	6629	317	104	73564899	73566517	1	None	HGL
17	LLGL2	ENSG00000073350	ENST00000579092	retained_intron	KNOWN	None	6629	None	None	73567506	73569334	1	None	HGL
17	LLGL2	ENSG00000073350	ENST00000583514	nonsense_mediated_decay	KNOWN	None	6629	189	62	73569636	73571002	1	None	HGL
17	LLGL2	ENSG00000073350	ENST00000582393	retained_intron	KNOWN	None	6629	None	None	73569658	73571202	1	None	HGL
17	LLGL2	ENSG00000073350	ENST00000578034	retained_intron	KNOWN	None	6629	None	None	73570033	73570749	1	None	HGL
17	LLGL2	ENSG00000073350	ENST00000577211	retained_intron	KNOWN	None	6629	None	None	73570235	73571288	1	None	HGL
19	CLDND2	ENSG00000160318	ENST00000291715	protein_coding	KNOWN	CCDS12829	28511	504	167	51870352	51872257	-1	None	MGC33839
19	CLDND2	ENSG00000160318	ENST00000593841	protein_coding	NOVEL	None	28511	328	108	51870354	51871231	-1	None	MGC33839
19	CLDND2	ENSG00000160318	ENST00000601435	protein_coding	KNOWN	CCDS12829	28511	504	167	51870354	51872233	-1	None	MGC33839
11	CCDC67	ENSG00000165325	ENST00000534747	protein_coding	KNOWN	None	26344	1812	603	93063137	93171634	1	None	FLJ25393
11	CCDC67	ENSG00000165325	ENST00000530862	nonsense_mediated_decay	KNOWN	None	26344	1045	347	93063156	93148366	1	None	FLJ25393
11	CCDC67	ENSG00000165325	ENST00000531792	nonsense_mediated_decay	KNOWN	None	26344	1045	347	93063164	93129533	1	None	FLJ25393
11	CCDC67	ENSG00000165325	ENST00000530053	processed_transcript	KNOWN	None	26344	None	None	93063165	93088693	1	None	FLJ25393
11	CCDC67	ENSG00000165325	ENST00000531448	nonsense_mediated_decay	KNOWN	None	26344	1509	502	93063768	93171653	1	None	FLJ25393
11	CCDC67	ENSG00000165325	ENST00000530273	protein_coding	PUTATIVE	None	26344	162	53	93063811	93085677	1	None	FLJ25393
11	CCDC67	ENSG00000165325	ENST00000532819	protein_coding	KNOWN	None	26344	987	328	93065382	93122237	1	None	FLJ25393
11	CCDC67	ENSG00000165325	ENST00000527307	protein_coding	PUTATIVE	None	26344	321	106	93065388	93090641	1	None	FLJ25393
11	CCDC67	ENSG00000165325	ENST00000525646	protein_coding	PUTATIVE	None	26344	1041	346	93116634	93171636	1	None	FLJ25393
11	CCDC67	ENSG00000165325	ENST00000529909	protein_coding	PUTATIVE	None	26344	241	79	93144225	93170868	1	None	FLJ25393
11	CCDC67	ENSG00000165325	ENST00000298050	protein_coding	KNOWN	CCDS44707	26344	1815	604	93063883	93171634	1	None	FLJ25393
16	None	ENSG00000214259	ENST00000484096	processed_pseudogene	KNOWN	None	None	None	None	85849479	85850142	-1	None	None
5	None	ENSG00000250749	ENST00000502510	processed_pseudogene	KNOWN	None	None	None	None	179961184	179961642	-1	None	None
16	None	ENSG00000268804	ENST00000598933	lincRNA	KNOWN	None	None	None	None	85968887	85969829	-1	None	None
17	TXNDC17	ENSG00000129235	ENST00000250101	protein_coding	KNOWN	CCDS11077	28218	372	123	6544078	6547861	1	TXNL5	MGC14353, TRP14
17	TXNDC17	ENSG00000129235	ENST00000576020	processed_transcript	KNOWN	None	28218	None	None	6544305	6546387	1	TXNL5	MGC14353, TRP14
17	TXNDC17	ENSG00000129235	ENST00000570330	protein_coding	PUTATIVE	None	28218	297	98	6544336	6546434	1	TXNL5	MGC14353, TRP14
17	TXNDC17	ENSG00000129235	ENST00000574429	retained_intron	KNOWN	None	28218	None	None	6544344	6546443	1	TXNL5	MGC14353, TRP14
17	TXNDC17	ENSG00000129235	ENST00000571957	processed_transcript	KNOWN	None	28218	None	None	6544347	6545677	1	TXNL5	MGC14353, TRP14
17	TXNDC17	ENSG00000129235	ENST00000574734	nonsense_mediated_decay	KNOWN	None	28218	228	75	6544354	6546436	1	TXNL5	MGC14353, TRP14
17	TXNDC17	ENSG00000129235	ENST00000574838	protein_coding	PUTATIVE	None	28218	243	80	6544363	6546749	1	TXNL5	MGC14353, TRP14
17	TXNDC17	ENSG00000129235	ENST00000577146	processed_transcript	KNOWN	None	28218	None	None	6544628	6546439	1	TXNL5	MGC14353, TRP14
17	TXNDC17	ENSG00000129235	ENST00000573792	processed_transcript	KNOWN	None	28218	None	None	6544786	6546440	1	TXNL5	MGC14353, TRP14
17	TXNDC17	ENSG00000129235	ENST00000571029	processed_transcript	KNOWN	None	28218	None	None	6544978	6546437	1	TXNL5	MGC14353, TRP14
5	None	ENSG00000263759	ENST00000583726	miRNA	NOVEL	None	None	None	None	180009445	180009530	1	None	None
X	None	ENSG00000269902	ENST00000602277	lincRNA	KNOWN	None	None	None	None	45624175	45624702	-1	None	None
9	MIR4540	ENSG00000264922	ENST00000583532	miRNA	KNOWN	None	41670	None	None	36864251	36864305	-1	None	hsa-mir-4540
5	None	ENSG00000251352	ENST00000502787	processed_pseudogene	KNOWN	None	None	None	None	180098892	180099598	-1	None	None
16	None	ENSG00000269667	ENST00000599411	lincRNA	KNOWN	None	None	None	None	86015356	86018329	1	None	None
9	IFNA1	ENSG00000197919	ENST00000276927	protein_coding	KNOWN	CCDS6508	5417	570	189	21440440	21441315	1	None	IFNA@, IFL, IFN, IFN-ALPHA, IFNA13, IFN-alphaD
16	None	ENSG00000261177	ENST00000563931	lincRNA	KNOWN	None	None	None	None	86115015	86123132	-1	None	None
X	None	ENSG00000231566	ENST00000414772	processed_transcript	KNOWN	None	None	None	None	45707328	45710447	-1	None	None
X	None	ENSG00000231566	ENST00000456532	processed_transcript	KNOWN	None	None	None	None	45707509	45710920	-1	None	None
17	USP6	ENSG00000129204	ENST00000574788	protein_coding	KNOWN	CCDS11069	12629	4221	1406	5019733	5078286	1	HRP1	Tre-2, TRE17, Tre2
17	USP6	ENSG00000129204	ENST00000575709	nonsense_mediated_decay	KNOWN	None	12629	1131	376	5031687	5078327	1	HRP1	Tre-2, TRE17, Tre2
17	USP6	ENSG00000129204	ENST00000572949	nonsense_mediated_decay	KNOWN	None	12629	2361	786	5031687	5078327	1	HRP1	Tre-2, TRE17, Tre2
17	USP6	ENSG00000129204	ENST00000250066	protein_coding	KNOWN	CCDS11069	12629	4221	1406	5031687	5078329	1	HRP1	Tre-2, TRE17, Tre2
17	USP6	ENSG00000129204	ENST00000572429	processed_transcript	KNOWN	None	12629	None	None	5032061	5036845	1	HRP1	Tre-2, TRE17, Tre2
17	USP6	ENSG00000129204	ENST00000357482	retained_intron	KNOWN	None	12629	None	None	5032110	5038298	1	HRP1	Tre-2, TRE17, Tre2
17	USP6	ENSG00000129204	ENST00000332776	protein_coding	KNOWN	None	12629	2361	786	5019733	5078285	1	HRP1	Tre-2, TRE17, Tre2
17	USP6	ENSG00000129204	ENST00000304328	protein_coding	KNOWN	None	12629	3270	1089	5031687	5078324	1	HRP1	Tre-2, TRE17, Tre2
5	None	ENSG00000248717	ENST00000513535	lincRNA	KNOWN	None	None	None	None	180111766	180113546	1	None	None
16	None	ENSG00000268078	ENST00000600234	lincRNA	KNOWN	None	None	None	None	86191812	86192404	-1	None	None
20	None	ENSG00000237371	ENST00000455524	antisense	KNOWN	None	None	None	None	62688156	62688437	1	None	None
6	None	ENSG00000217557	ENST00000404178	processed_pseudogene	KNOWN	None	None	None	None	163378290	163378580	-1	None	None
9	IFNE	ENSG00000184995	ENST00000448696	protein_coding	KNOWN	CCDS34997	18163	627	208	21480841	21482312	-1	None	IFNE1
HSCHR6_MHC_QBL	ABCF1	ENSG00000206490	ENST00000383588	protein_coding	KNOWN	None	70	2538	845	30528662	30548713	1	ABC50	EST123147
HSCHR6_MHC_QBL	ABCF1	ENSG00000206490	ENST00000383587	protein_coding	KNOWN	None	70	2424	807	30528679	30548713	1	ABC50	EST123147
HSCHR6_MHC_QBL	ABCF1	ENSG00000206490	ENST00000424994	protein_coding	KNOWN	None	70	1019	338	30528719	30540996	1	ABC50	EST123147
HSCHR6_MHC_QBL	ABCF1	ENSG00000206490	ENST00000465731	processed_transcript	KNOWN	None	70	None	None	30528728	30537735	1	ABC50	EST123147
HSCHR6_MHC_QBL	ABCF1	ENSG00000206490	ENST00000400609	protein_coding	KNOWN	None	70	717	238	30528738	30548713	1	ABC50	EST123147
HSCHR6_MHC_QBL	ABCF1	ENSG00000206490	ENST00000485585	processed_transcript	KNOWN	None	70	None	None	30539753	30554466	1	ABC50	EST123147
HSCHR6_MHC_QBL	ABCF1	ENSG00000206490	ENST00000494321	retained_intron	KNOWN	None	70	None	None	30546710	30548025	1	ABC50	EST123147
16	None	ENSG00000261541	ENST00000565549	lincRNA	KNOWN	None	None	None	None	32465933	32470079	-1	None	None
15	IMP3	ENSG00000177971	ENST00000314852	protein_coding	KNOWN	CCDS10282	14497	555	184	75931426	75941047	-1	MRPS4, C15orf12	FLJ10968, BRMS2
15	IMP3	ENSG00000177971	ENST00000565349	processed_transcript	KNOWN	None	14497	None	None	75933383	75940592	-1	MRPS4, C15orf12	FLJ10968, BRMS2
15	IMP3	ENSG00000177971	ENST00000403490	protein_coding	KNOWN	CCDS10282	14497	555	184	75931439	75932552	-1	MRPS4, C15orf12	FLJ10968, BRMS2
6	None	ENSG00000225437	ENST00000440924	antisense	KNOWN	None	None	None	None	163463589	163467717	-1	None	None
6	None	ENSG00000225437	ENST00000433489	antisense	KNOWN	None	None	None	None	163464011	163472446	-1	None	None
6	None	ENSG00000225437	ENST00000418665	antisense	KNOWN	None	None	None	None	163464012	163475193	-1	None	None
5	OR2AI1P	ENSG00000236791	ENST00000448534	unprocessed_pseudogene	KNOWN	None	15063	None	None	180119832	180120763	-1	None	None
7	COPS6	ENSG00000168090	ENST00000303904	protein_coding	KNOWN	CCDS5682	21749	984	327	99686577	99689823	1	None	MOV34-34KD, CSN6
7	COPS6	ENSG00000168090	ENST00000465027	retained_intron	KNOWN	None	21749	None	None	99686592	99687985	1	None	MOV34-34KD, CSN6
7	COPS6	ENSG00000168090	ENST00000419210	protein_coding	PUTATIVE	None	21749	125	40	99686598	99687250	1	None	MOV34-34KD, CSN6
7	COPS6	ENSG00000168090	ENST00000418625	protein_coding	NOVEL	None	21749	981	326	99686604	99689528	1	None	MOV34-34KD, CSN6
7	COPS6	ENSG00000168090	ENST00000472107	retained_intron	KNOWN	None	21749	None	None	99686605	99687861	1	None	MOV34-34KD, CSN6
7	COPS6	ENSG00000168090	ENST00000468499	retained_intron	KNOWN	None	21749	None	None	99686613	99688871	1	None	MOV34-34KD, CSN6
7	COPS6	ENSG00000168090	ENST00000496358	retained_intron	KNOWN	None	21749	None	None	99686616	99688403	1	None	MOV34-34KD, CSN6
7	COPS6	ENSG00000168090	ENST00000474823	retained_intron	KNOWN	None	21749	None	None	99687985	99689373	1	None	MOV34-34KD, CSN6
7	COPS6	ENSG00000168090	ENST00000426712	nonsense_mediated_decay	KNOWN	None	21749	372	123	99688051	99689530	1	None	MOV34-34KD, CSN6
7	COPS6	ENSG00000168090	ENST00000483891	retained_intron	KNOWN	None	21749	None	None	99688060	99689071	1	None	MOV34-34KD, CSN6
14	TRAJ10	ENSG00000211879	ENST00000390527	TR_J_gene	KNOWN	None	12038	64	20	23002445	23002508	1	None	None
21	B3GALT5	ENSG00000183778	ENST00000380620	protein_coding	KNOWN	CCDS13667	920	933	310	40928369	41034816	1	None	beta3Gal-T5, B3GalT-V, GLCT5, B3T5
21	B3GALT5	ENSG00000183778	ENST00000475838	processed_transcript	KNOWN	None	920	None	None	40928411	40935511	1	None	beta3Gal-T5, B3GalT-V, GLCT5, B3T5
21	B3GALT5	ENSG00000183778	ENST00000380618	protein_coding	KNOWN	CCDS13667	920	933	310	41029254	41034816	1	None	beta3Gal-T5, B3GalT-V, GLCT5, B3T5
21	B3GALT5	ENSG00000183778	ENST00000343118	protein_coding	KNOWN	CCDS13667	920	933	310	41029704	41034815	1	None	beta3Gal-T5, B3GalT-V, GLCT5, B3T5
21	B3GALT5	ENSG00000183778	ENST00000398714	protein_coding	KNOWN	CCDS13667	920	933	310	41029704	41034815	1	None	beta3Gal-T5, B3GalT-V, GLCT5, B3T5
6	None	ENSG00000239136	ENST00000459251	snoRNA	NOVEL	None	None	None	None	163647942	163648037	1	None	None
5	RNU1-17P	ENSG00000199892	ENST00000363022	snRNA	KNOWN	None	41943	None	None	180156586	180156737	1	None	None
6	None	ENSG00000217514	ENST00000406553	processed_pseudogene	KNOWN	None	None	None	None	163784242	163784495	1	None	None
16	None	ENSG00000260662	ENST00000569776	processed_pseudogene	KNOWN	None	None	None	None	32471587	32471683	-1	None	None
9	None	ENSG00000225337	ENST00000419576	lincRNA	KNOWN	None	None	None	None	70922309	70923361	1	None	None
6	CAHM	ENSG00000270419	ENST00000604200	lincRNA	KNOWN	None	42860	None	None	163834097	163834992	-1	None	LINC00468
16	GNAO1	ENSG00000087258	ENST00000262493	protein_coding	KNOWN	CCDS10756	4389	1065	354	56225302	56391356	1	None	G-ALPHA-o
16	GNAO1	ENSG00000087258	ENST00000570235	retained_intron	KNOWN	None	4389	None	None	56225887	56226606	1	None	G-ALPHA-o
16	GNAO1	ENSG00000087258	ENST00000262494	protein_coding	KNOWN	CCDS10757	4389	1065	354	56225888	56382111	1	None	G-ALPHA-o
16	GNAO1	ENSG00000087258	ENST00000569295	processed_transcript	PUTATIVE	None	4389	None	None	56225926	56247319	1	None	G-ALPHA-o
16	GNAO1	ENSG00000087258	ENST00000563661	retained_intron	KNOWN	None	4389	None	None	56226151	56310340	1	None	G-ALPHA-o
16	GNAO1	ENSG00000087258	ENST00000565363	protein_coding	PUTATIVE	None	4389	386	127	56226405	56368688	1	None	G-ALPHA-o
16	GNAO1	ENSG00000087258	ENST00000562316	protein_coding	PUTATIVE	None	4389	332	109	56227565	56368769	1	None	G-ALPHA-o
16	GNAO1	ENSG00000087258	ENST00000563440	protein_coding	PUTATIVE	None	4389	250	82	56260291	56368687	1	None	G-ALPHA-o
16	GNAO1	ENSG00000087258	ENST00000568375	processed_transcript	PUTATIVE	None	4389	None	None	56370658	56389033	1	None	G-ALPHA-o
16	GNAO1	ENSG00000087258	ENST00000564798	retained_intron	KNOWN	None	4389	None	None	56374208	56382047	1	None	G-ALPHA-o
16	GNAO1	ENSG00000087258	ENST00000564727	protein_coding	PUTATIVE	None	4389	285	94	56385353	56389120	1	None	G-ALPHA-o
5	None	ENSG00000260841	ENST00000562870	sense_overlapping	KNOWN	None	None	None	None	180211782	180214869	-1	None	None
9	PGM5-AS1	ENSG00000224958	ENST00000420855	antisense	KNOWN	None	44181	None	None	70970105	70972736	-1	None	None
9	PGM5-AS1	ENSG00000224958	ENST00000417887	antisense	KNOWN	None	44181	None	None	70970105	70972768	-1	None	None
1	FMO2	ENSG00000094963	ENST00000209929	protein_coding	KNOWN	CCDS1293	3770	1416	471	171154347	171180369	1	None	None
1	FMO2	ENSG00000094963	ENST00000462643	processed_transcript	KNOWN	None	3770	None	None	171154388	171162649	1	None	None
1	FMO2	ENSG00000094963	ENST00000489354	processed_transcript	KNOWN	None	3770	None	None	171154439	171173128	1	None	None
1	FMO2	ENSG00000094963	ENST00000529935	processed_transcript	KNOWN	None	3770	None	None	171154439	171178335	1	None	None
1	FMO2	ENSG00000094963	ENST00000493513	retained_intron	KNOWN	None	3770	None	None	171154441	171155505	1	None	None
1	FMO2	ENSG00000094963	ENST00000483192	processed_transcript	PUTATIVE	None	3770	None	None	171154663	171165859	1	None	None
1	FMO2	ENSG00000094963	ENST00000488431	processed_transcript	PUTATIVE	None	3770	None	None	171176682	171178346	1	None	None
1	FMO2	ENSG00000094963	ENST00000441535	protein_coding	KNOWN	CCDS1293	3770	1416	471	171154388	171181822	1	None	None
6	None	ENSG00000228692	ENST00000446476	lincRNA	KNOWN	None	None	None	None	164007615	164009197	1	None	None
9	None	ENSG00000233178	ENST00000590767	antisense	KNOWN	None	None	None	None	71010609	71014187	-1	None	None
9	None	ENSG00000233178	ENST00000446984	antisense	KNOWN	None	None	None	None	71012849	71021370	-1	None	None
9	None	ENSG00000233178	ENST00000592778	antisense	KNOWN	None	None	None	None	71013008	71021416	-1	None	None
20	CICP4	ENSG00000232852	ENST00000447359	processed_pseudogene	KNOWN	None	37753	None	None	62921540	62924351	-1	None	None
1	SLC35A3	ENSG00000117620	ENST00000370155	protein_coding	KNOWN	CCDS762	11023	978	325	100435345	100489009	1	None	None
1	SLC35A3	ENSG00000117620	ENST00000465289	protein_coding	PUTATIVE	None	11023	663	220	100435345	100492448	1	None	None
1	SLC35A3	ENSG00000117620	ENST00000427993	protein_coding	KNOWN	CCDS762	11023	978	325	100435535	100488512	1	None	None
1	SLC35A3	ENSG00000117620	ENST00000533028	nonsense_mediated_decay	KNOWN	CCDS762	11023	978	325	100435992	100492535	1	None	None
1	SLC35A3	ENSG00000117620	ENST00000532693	protein_coding	KNOWN	None	11023	254	83	100436009	100464883	1	None	None
1	SLC35A3	ENSG00000117620	ENST00000422078	protein_coding	KNOWN	None	11023	674	223	100458599	100480897	1	None	None
1	SLC35A3	ENSG00000117620	ENST00000370156	processed_transcript	KNOWN	None	11023	None	None	100459158	100489011	1	None	None
1	SLC35A3	ENSG00000117620	ENST00000370153	protein_coding	KNOWN	None	11023	1104	367	100436093	100489006	1	None	None
HSCHR6_MHC_MCF	PAIP1P1	ENSG00000234574	ENST00000424607	processed_pseudogene	KNOWN	None	18240	None	None	30233017	30234826	-1	None	bQB44E15.5, bPG254M11.3, bCX300M20.3
16	MGRN1	ENSG00000102858	ENST00000591895	protein_coding	PUTATIVE	None	20254	447	148	4666494	4707364	1	None	KIAA0544, RNF156
16	MGRN1	ENSG00000102858	ENST00000262370	protein_coding	KNOWN	CCDS42115	20254	1731	576	4674791	4740973	1	None	KIAA0544, RNF156
16	MGRN1	ENSG00000102858	ENST00000536343	nonsense_mediated_decay	KNOWN	None	20254	963	320	4674843	4738810	1	None	KIAA0544, RNF156
16	MGRN1	ENSG00000102858	ENST00000587747	protein_coding	NOVEL	None	20254	1783	593	4674847	4738844	1	None	KIAA0544, RNF156
16	MGRN1	ENSG00000102858	ENST00000399577	protein_coding	KNOWN	CCDS45402	20254	1659	552	4674869	4740973	1	None	KIAA0544, RNF156
16	MGRN1	ENSG00000102858	ENST00000588994	protein_coding	KNOWN	CCDS59256	20254	1665	554	4674962	4738909	1	None	KIAA0544, RNF156
16	MGRN1	ENSG00000102858	ENST00000586183	protein_coding	KNOWN	CCDS45401	20254	1593	530	4674962	4739040	1	None	KIAA0544, RNF156
16	MGRN1	ENSG00000102858	ENST00000590790	protein_coding	NOVEL	None	20254	994	330	4700388	4730068	1	None	KIAA0544, RNF156
16	MGRN1	ENSG00000102858	ENST00000593224	protein_coding	NOVEL	None	20254	498	165	4700401	4723555	1	None	KIAA0544, RNF156
16	MGRN1	ENSG00000102858	ENST00000587145	processed_transcript	KNOWN	None	20254	None	None	4714070	4723623	1	None	KIAA0544, RNF156
16	MGRN1	ENSG00000102858	ENST00000590457	retained_intron	KNOWN	None	20254	None	None	4714417	4723523	1	None	KIAA0544, RNF156
16	MGRN1	ENSG00000102858	ENST00000588015	processed_transcript	KNOWN	None	20254	None	None	4718298	4727327	1	None	KIAA0544, RNF156
16	MGRN1	ENSG00000102858	ENST00000591673	processed_transcript	KNOWN	None	20254	None	None	4719122	4731581	1	None	KIAA0544, RNF156
16	MGRN1	ENSG00000102858	ENST00000592256	processed_transcript	KNOWN	None	20254	None	None	4730174	4733933	1	None	KIAA0544, RNF156
16	MGRN1	ENSG00000102858	ENST00000588111	processed_transcript	KNOWN	None	20254	None	None	4730429	4732908	1	None	KIAA0544, RNF156
16	MGRN1	ENSG00000102858	ENST00000585676	retained_intron	KNOWN	None	20254	None	None	4731349	4733873	1	None	KIAA0544, RNF156
16	MGRN1	ENSG00000102858	ENST00000415496	protein_coding	KNOWN	None	20254	1596	531	4674826	4740975	1	None	KIAA0544, RNF156
3	KIAA1524	ENSG00000163507	ENST00000295746	protein_coding	KNOWN	CCDS33812	29302	2718	905	108268716	108308299	-1	None	None
3	KIAA1524	ENSG00000163507	ENST00000491772	protein_coding	KNOWN	None	29302	2241	746	108268833	108304610	-1	None	None
3	KIAA1524	ENSG00000163507	ENST00000481530	nonsense_mediated_decay	KNOWN	None	29302	366	121	108269963	108308299	-1	None	None
3	KIAA1524	ENSG00000163507	ENST00000487834	processed_transcript	KNOWN	None	29302	None	None	108279582	108308491	-1	None	None
3	KIAA1524	ENSG00000163507	ENST00000468953	nonsense_mediated_decay	KNOWN	None	29302	147	48	108300322	108308303	-1	None	None
3	KIAA1524	ENSG00000163507	ENST00000461666	retained_intron	KNOWN	None	29302	None	None	108303707	108308278	-1	None	None
HSCHR6_MHC_MCF	MICC	ENSG00000230887	ENST00000416423	unprocessed_pseudogene	KNOWN	None	7092	None	None	30460941	30465545	1	None	PERB11.3
12	C12orf29	ENSG00000133641	ENST00000548757	processed_transcript	KNOWN	None	25322	None	None	88427623	88440753	1	None	DKFZp434N2030
12	C12orf29	ENSG00000133641	ENST00000549345	processed_transcript	KNOWN	None	25322	None	None	88427909	88439379	1	None	DKFZp434N2030
12	C12orf29	ENSG00000133641	ENST00000356891	protein_coding	KNOWN	CCDS31866	25322	978	325	88429223	88443937	1	None	DKFZp434N2030
12	C12orf29	ENSG00000133641	ENST00000550333	nonsense_mediated_decay	KNOWN	None	25322	117	38	88429282	88443935	1	None	DKFZp434N2030
12	C12orf29	ENSG00000133641	ENST00000552121	nonsense_mediated_decay	KNOWN	None	25322	117	38	88429313	88443002	1	None	DKFZp434N2030
12	C12orf29	ENSG00000133641	ENST00000552847	nonsense_mediated_decay	KNOWN	None	25322	153	50	88429315	88439564	1	None	DKFZp434N2030
12	C12orf29	ENSG00000133641	ENST00000453037	nonsense_mediated_decay	KNOWN	None	25322	117	38	88429339	88440726	1	None	DKFZp434N2030
12	C12orf29	ENSG00000133641	ENST00000552803	retained_intron	KNOWN	None	25322	None	None	88429387	88437615	1	None	DKFZp434N2030
12	C12orf29	ENSG00000133641	ENST00000548511	retained_intron	KNOWN	None	25322	None	None	88429529	88442234	1	None	DKFZp434N2030
12	C12orf29	ENSG00000133641	ENST00000547468	retained_intron	KNOWN	None	25322	None	None	88435485	88442200	1	None	DKFZp434N2030
11	IFT46	ENSG00000118096	ENST00000264021	protein_coding	KNOWN	CCDS53718	26146	915	304	118415243	118436791	-1	C11orf60	C11orf2, FLJ21827
11	IFT46	ENSG00000118096	ENST00000264020	protein_coding	KNOWN	CCDS8399	26146	1068	355	118415258	118436750	-1	C11orf60	C11orf2, FLJ21827
11	IFT46	ENSG00000118096	ENST00000530872	protein_coding	PUTATIVE	None	26146	894	297	118415307	118436632	-1	C11orf60	C11orf2, FLJ21827
11	IFT46	ENSG00000118096	ENST00000531201	retained_intron	KNOWN	None	26146	None	None	118415616	118428371	-1	C11orf60	C11orf2, FLJ21827
11	IFT46	ENSG00000118096	ENST00000525060	retained_intron	KNOWN	None	26146	None	None	118416540	118426342	-1	C11orf60	C11orf2, FLJ21827
11	IFT46	ENSG00000118096	ENST00000531939	protein_coding	PUTATIVE	None	26146	589	195	118422945	118431137	-1	C11orf60	C11orf2, FLJ21827
11	IFT46	ENSG00000118096	ENST00000534156	protein_coding	PUTATIVE	None	26146	584	193	118422950	118436361	-1	C11orf60	C11orf2, FLJ21827
11	IFT46	ENSG00000118096	ENST00000534114	protein_coding	PUTATIVE	None	26146	477	158	118425735	118443475	-1	C11orf60	C11orf2, FLJ21827
11	IFT46	ENSG00000118096	ENST00000528378	protein_coding	PUTATIVE	None	26146	323	106	118425736	118443685	-1	C11orf60	C11orf2, FLJ21827
11	IFT46	ENSG00000118096	ENST00000533918	protein_coding	PUTATIVE	None	26146	185	60	118427621	118443418	-1	C11orf60	C11orf2, FLJ21827
11	IFT46	ENSG00000118096	ENST00000530185	retained_intron	KNOWN	None	26146	None	None	118427709	118436726	-1	C11orf60	C11orf2, FLJ21827
11	IFT46	ENSG00000118096	ENST00000527868	processed_transcript	KNOWN	None	26146	None	None	118430780	118436643	-1	C11orf60	C11orf2, FLJ21827
19	ZNF549	ENSG00000121406	ENST00000240719	protein_coding	KNOWN	CCDS12952	26632	1884	627	58038693	58052131	1	None	FLJ34917
19	ZNF549	ENSG00000121406	ENST00000376233	protein_coding	KNOWN	CCDS56106	26632	1923	640	58038761	58052244	1	None	FLJ34917
19	ZNF549	ENSG00000121406	ENST00000594943	protein_coding	PUTATIVE	None	26632	42	13	58038789	58064122	1	None	FLJ34917
19	ZNF549	ENSG00000121406	ENST00000602149	protein_coding	PUTATIVE	None	26632	315	104	58038794	58068910	1	None	FLJ34917
6	MIR588	ENSG00000207632	ENST00000384900	miRNA	KNOWN	None	32844	None	None	126805777	126805859	1	MIRN588	hsa-mir-588
9	MTAP	ENSG00000099810	ENST00000380172	protein_coding	KNOWN	CCDS6509	7413	852	283	21802542	21867077	1	None	MSAP, c86fus
9	MTAP	ENSG00000099810	ENST00000460874	protein_coding	PUTATIVE	None	7413	903	300	21802641	21862319	1	None	MSAP, c86fus
9	MTAP	ENSG00000099810	ENST00000580675	retained_intron	KNOWN	None	7413	None	None	21802646	21815606	1	None	MSAP, c86fus
9	MTAP	ENSG00000099810	ENST00000580900	protein_coding	PUTATIVE	None	7413	1005	334	21802648	21931646	1	None	MSAP, c86fus
9	MTAP	ENSG00000099810	ENST00000419385	nonsense_mediated_decay	KNOWN	None	7413	153	50	21802656	21863285	1	None	MSAP, c86fus
9	MTAP	ENSG00000099810	ENST00000580718	nonsense_mediated_decay	KNOWN	None	7413	729	242	21802661	21862366	1	None	MSAP, c86fus
9	MTAP	ENSG00000099810	ENST00000579422	processed_transcript	KNOWN	None	7413	None	None	21802960	21818044	1	None	MSAP, c86fus
9	MTAP	ENSG00000099810	ENST00000427788	processed_transcript	KNOWN	None	7413	None	None	21803277	21837926	1	None	MSAP, c86fus
9	MTAP	ENSG00000099810	ENST00000577563	protein_coding	PUTATIVE	None	7413	339	112	21854723	21931198	1	None	MSAP, c86fus
9	MTAP	ENSG00000099810	ENST00000584988	processed_transcript	PUTATIVE	None	7413	None	None	21856117	21862356	1	None	MSAP, c86fus
9	MTAP	ENSG00000099810	ENST00000581962	retained_intron	KNOWN	None	7413	None	None	21859219	21862091	1	None	MSAP, c86fus
9	MTAP	ENSG00000099810	ENST00000484957	processed_transcript	PUTATIVE	None	7413	None	None	21859322	21862219	1	None	MSAP, c86fus
6	RNU6-200P	ENSG00000201613	ENST00000364743	snRNA	KNOWN	None	47163	None	None	126911433	126911539	-1	None	None
7	None	ENSG00000253508	ENST00000523331	lincRNA	KNOWN	None	None	None	None	27226192	27233067	-1	None	None
14	TRAJ9	ENSG00000211880	ENST00000390528	TR_J_gene	KNOWN	None	12097	61	19	23004502	23004562	1	None	None
6	VIMP1	ENSG00000220548	ENST00000402383	processed_pseudogene	KNOWN	None	43891	None	None	126923502	126924795	-1	None	None
1	MASP2	ENSG00000009724	ENST00000400897	protein_coding	KNOWN	CCDS123	6902	2061	686	11086580	11107280	-1	MASP1P1	None
1	MASP2	ENSG00000009724	ENST00000478645	retained_intron	KNOWN	None	6902	None	None	11097750	11103255	-1	MASP1P1	None
1	MASP2	ENSG00000009724	ENST00000480221	retained_intron	KNOWN	None	6902	None	None	11104855	11107284	-1	MASP1P1	None
1	MASP2	ENSG00000009724	ENST00000400898	protein_coding	KNOWN	CCDS124	6902	558	185	11104855	11107290	-1	MASP1P1	None
HSCHR6_MHC_MCF	TRIM26	ENSG00000231641	ENST00000425831	protein_coding	KNOWN	None	12962	1620	539	30230672	30259555	-1	ZNF173	RNF95
HSCHR6_MHC_MCF	TRIM26	ENSG00000231641	ENST00000432326	protein_coding	KNOWN	None	12962	1620	539	30230672	30259555	-1	ZNF173	RNF95
HSCHR6_MHC_MCF	TRIM26	ENSG00000231641	ENST00000438384	protein_coding	KNOWN	None	12962	1620	539	30230672	30250981	-1	ZNF173	RNF95
HSCHR6_MHC_MCF	TRIM26	ENSG00000231641	ENST00000464955	retained_intron	KNOWN	None	12962	None	None	30230672	30236607	-1	ZNF173	RNF95
HSCHR6_MHC_MCF	TRIM26	ENSG00000231641	ENST00000449136	protein_coding	KNOWN	None	12962	745	247	30242751	30259555	-1	ZNF173	RNF95
HSCHR6_MHC_MCF	TRIM26	ENSG00000231641	ENST00000424124	protein_coding	KNOWN	None	12962	477	158	30242794	30250937	-1	ZNF173	RNF95
HSCHR6_MHC_MCF	TRIM26	ENSG00000231641	ENST00000419401	protein_coding	KNOWN	None	12962	472	156	30244706	30259555	-1	ZNF173	RNF95
HSCHR6_MHC_MCF	TRIM26	ENSG00000231641	ENST00000445457	protein_coding	KNOWN	None	12962	366	121	30244953	30259555	-1	ZNF173	RNF95
HSCHR6_MHC_MCF	TRIM26	ENSG00000231641	ENST00000481596	processed_transcript	KNOWN	None	12962	None	None	30244979	30259555	-1	ZNF173	RNF95
9	RPS2P35	ENSG00000238172	ENST00000443417	processed_pseudogene	KNOWN	None	36757	None	None	102879037	102879933	-1	None	None
9	RPS2P35	ENSG00000238172	ENST00000453076	processed_pseudogene	KNOWN	None	36757	None	None	102879037	102879933	-1	None	None
17	PROCA1	ENSG00000167525	ENST00000301039	protein_coding	KNOWN	CCDS11239	28600	1011	336	27030215	27038872	-1	None	MGC39650
17	PROCA1	ENSG00000167525	ENST00000581289	protein_coding	NOVEL	None	28600	126	41	27030643	27038765	-1	None	MGC39650
17	PROCA1	ENSG00000167525	ENST00000415329	protein_coding	PUTATIVE	None	28600	330	109	27030732	27034902	-1	None	MGC39650
17	PROCA1	ENSG00000167525	ENST00000495203	retained_intron	KNOWN	None	28600	None	None	27030934	27034467	-1	None	MGC39650
17	PROCA1	ENSG00000167525	ENST00000473751	nonsense_mediated_decay	KNOWN	None	28600	459	152	27031026	27038700	-1	None	MGC39650
17	PROCA1	ENSG00000167525	ENST00000579650	processed_transcript	KNOWN	None	28600	None	None	27031099	27038317	-1	None	MGC39650
17	PROCA1	ENSG00000167525	ENST00000584073	processed_transcript	KNOWN	None	28600	None	None	27031102	27033182	-1	None	MGC39650
17	PROCA1	ENSG00000167525	ENST00000422880	processed_transcript	KNOWN	None	28600	None	None	27031325	27038104	-1	None	MGC39650
17	PROCA1	ENSG00000167525	ENST00000578097	processed_transcript	KNOWN	None	28600	None	None	27031549	27038109	-1	None	MGC39650
17	PROCA1	ENSG00000167525	ENST00000439862	protein_coding	KNOWN	None	28600	1017	338	27030357	27038104	-1	None	MGC39650
HSCHR6_MHC_COX	HLA-DPA2	ENSG00000223990	ENST00000421989	unprocessed_pseudogene	KNOWN	None	4939	None	None	32981428	32987014	-1	HLA-DP2A	None
3	ARL14	ENSG00000179674	ENST00000320767	protein_coding	KNOWN	CCDS3192	22974	579	192	160394948	160396233	1	ARF7	FLJ22595
9	None	ENSG00000270995	ENST00000603444	processed_pseudogene	KNOWN	None	None	None	None	102882717	102883182	-1	None	None
HSCHR6_MHC_MCF	None	ENSG00000234057	ENST00000430035	processed_transcript	PUTATIVE	None	None	None	None	30562497	30565448	1	None	None
2	SAP130	ENSG00000136715	ENST00000259235	protein_coding	KNOWN	CCDS2153	29813	3147	1048	128698792	128784867	-1	None	FLJ12761
2	SAP130	ENSG00000136715	ENST00000259234	protein_coding	KNOWN	None	29813	3171	1056	128698798	128785694	-1	None	FLJ12761
2	SAP130	ENSG00000136715	ENST00000424298	protein_coding	KNOWN	None	29813	787	261	128767925	128784887	-1	None	FLJ12761
2	SAP130	ENSG00000136715	ENST00000450957	protein_coding	NOVEL	None	29813	433	143	128773962	128785633	-1	None	FLJ12761
2	SAP130	ENSG00000136715	ENST00000357702	protein_coding	KNOWN	CCDS54397	29813	3252	1083	128698791	128784869	-1	None	FLJ12761
6	PRELID1P1	ENSG00000217325	ENST00000567272	processed_transcript	KNOWN	None	43886	None	None	126964634	126965536	1	None	None
6	PRELID1P1	ENSG00000217325	ENST00000403549	transcribed_processed_pseudogene	KNOWN	None	43886	None	None	126964786	126965445	1	None	None
HSCHR6_MHC_MCF	None	ENSG00000266871	ENST00000578184	miRNA	KNOWN	None	None	None	None	30630566	30630651	1	None	None
6	HIVEP2	ENSG00000010818	ENST00000367604	protein_coding	KNOWN	CCDS43510	4921	7341	2446	143072604	143158184	-1	None	MBP-2, HIV-EP2, MIBP1, ZAS2, Schnurri-2, ZNF40B
6	HIVEP2	ENSG00000010818	ENST00000012134	protein_coding	KNOWN	CCDS43510	4921	7341	2446	143072606	143158184	-1	None	MBP-2, HIV-EP2, MIBP1, ZAS2, Schnurri-2, ZNF40B
6	HIVEP2	ENSG00000010818	ENST00000474532	processed_transcript	KNOWN	None	4921	None	None	143100680	143158184	-1	None	MBP-2, HIV-EP2, MIBP1, ZAS2, Schnurri-2, ZNF40B
6	HIVEP2	ENSG00000010818	ENST00000367603	protein_coding	KNOWN	CCDS43510	4921	7341	2446	143072605	143266338	-1	None	MBP-2, HIV-EP2, MIBP1, ZAS2, Schnurri-2, ZNF40B
6	KHDC1	ENSG00000135314	ENST00000257765	protein_coding	KNOWN	CCDS43480	21366	495	164	73951037	73972907	-1	C6orf148	MGC10818, bA257K9.4, NDG1
6	KHDC1	ENSG00000135314	ENST00000370384	protein_coding	PUTATIVE	CCDS59027	21366	714	237	73951037	74019938	-1	C6orf148	MGC10818, bA257K9.4, NDG1
6	KHDC1	ENSG00000135314	ENST00000433730	protein_coding	KNOWN	None	21366	295	97	73951778	73972895	-1	C6orf148	MGC10818, bA257K9.4, NDG1
6	KHDC1	ENSG00000135314	ENST00000484801	processed_transcript	KNOWN	None	21366	None	None	73983862	74019866	-1	C6orf148	MGC10818, bA257K9.4, NDG1
6	KHDC1	ENSG00000135314	ENST00000474593	processed_transcript	KNOWN	None	21366	None	None	73984769	74020088	-1	C6orf148	MGC10818, bA257K9.4, NDG1
HSCHR6_MHC_MCF	None	ENSG00000265446	ENST00000578355	miRNA	KNOWN	None	None	None	None	30662465	30662541	-1	None	None
17	SLC35B1	ENSG00000121073	ENST00000240333	protein_coding	KNOWN	CCDS11552	20798	969	322	47778305	47785317	-1	None	UGTREL1
17	SLC35B1	ENSG00000121073	ENST00000504260	retained_intron	KNOWN	None	20798	None	None	47778649	47785133	-1	None	UGTREL1
17	SLC35B1	ENSG00000121073	ENST00000502406	retained_intron	KNOWN	None	20798	None	None	47778683	47785528	-1	None	UGTREL1
17	SLC35B1	ENSG00000121073	ENST00000508749	retained_intron	KNOWN	None	20798	None	None	47778690	47780500	-1	None	UGTREL1
17	SLC35B1	ENSG00000121073	ENST00000507477	retained_intron	KNOWN	None	20798	None	None	47778690	47781352	-1	None	UGTREL1
17	SLC35B1	ENSG00000121073	ENST00000507773	nonsense_mediated_decay	KNOWN	None	20798	363	120	47778701	47785452	-1	None	UGTREL1
17	SLC35B1	ENSG00000121073	ENST00000503334	protein_coding	PUTATIVE	None	20798	681	226	47780254	47785525	-1	None	UGTREL1
17	SLC35B1	ENSG00000121073	ENST00000508520	protein_coding	PUTATIVE	None	20798	762	253	47780559	47785531	-1	None	UGTREL1
17	SLC35B1	ENSG00000121073	ENST00000502268	nonsense_mediated_decay	KNOWN	None	20798	114	37	47780595	47784429	-1	None	UGTREL1
17	SLC35B1	ENSG00000121073	ENST00000513508	retained_intron	KNOWN	None	20798	None	None	47781200	47782727	-1	None	UGTREL1
17	SLC35B1	ENSG00000121073	ENST00000435059	retained_intron	KNOWN	None	20798	None	None	47781294	47785282	-1	None	UGTREL1
17	SLC35B1	ENSG00000121073	ENST00000514907	protein_coding	PUTATIVE	None	20798	562	186	47781462	47785519	-1	None	UGTREL1
17	SLC35B1	ENSG00000121073	ENST00000515850	protein_coding	NOVEL	None	20798	746	247	47781473	47785311	-1	None	UGTREL1
17	SLC35B1	ENSG00000121073	ENST00000511763	protein_coding	NOVEL	None	20798	474	157	47781514	47785302	-1	None	UGTREL1
17	SLC35B1	ENSG00000121073	ENST00000508926	retained_intron	KNOWN	None	20798	None	None	47782434	47783717	-1	None	UGTREL1
17	SLC35B1	ENSG00000121073	ENST00000511657	protein_coding	PUTATIVE	None	20798	229	75	47782584	47786376	-1	None	UGTREL1
17	SLC35B1	ENSG00000121073	ENST00000509781	retained_intron	KNOWN	None	20798	None	None	47783230	47785326	-1	None	UGTREL1
17	SLC35B1	ENSG00000121073	ENST00000505765	retained_intron	KNOWN	None	20798	None	None	47783247	47784622	-1	None	UGTREL1
17	SLC35B1	ENSG00000121073	ENST00000508607	retained_intron	KNOWN	None	20798	None	None	47783438	47785282	-1	None	UGTREL1
17	SLC35B1	ENSG00000121073	ENST00000415270	protein_coding	KNOWN	None	20798	1080	359	47778320	47785313	-1	None	UGTREL1
18	SLC25A52	ENSG00000141437	ENST00000269205	protein_coding	KNOWN	CCDS32812	23324	924	307	29339525	29340843	-1	MCART2	None
18	SLC25A52	ENSG00000141437	ENST00000579441	protein_coding	KNOWN	None	23324	894	297	29339731	29340624	-1	MCART2	None
HSCHR6_MHC_MCF	PTMAP1	ENSG00000227655	ENST00000456700	processed_pseudogene	KNOWN	None	9624	None	None	30679868	30680134	1	None	Em:AB023049.6
HSCHR6_MHC_MCF	PTMAP1	ENSG00000227655	ENST00000548064	pseudogene	KNOWN	None	9624	None	None	30679868	30680112	1	None	Em:AB023049.6
6	None	ENSG00000235538	ENST00000452944	lincRNA	KNOWN	None	None	None	None	164124936	164180873	1	None	None
HSCHR6_MHC_MCF	None	ENSG00000265290	ENST00000583491	miRNA	NOVEL	None	None	None	None	30694904	30694997	1	None	None
6	RN7SL366P	ENSG00000266128	ENST00000577957	misc_RNA	KNOWN	None	46382	None	None	164261593	164261882	1	None	None
18	VAPA	ENSG00000101558	ENST00000400000	protein_coding	KNOWN	CCDS11848	12648	750	249	9913999	9960018	1	None	hVAP-33, VAP-A
18	VAPA	ENSG00000101558	ENST00000577901	retained_intron	KNOWN	None	12648	None	None	9914049	9936586	1	None	hVAP-33, VAP-A
18	VAPA	ENSG00000101558	ENST00000340541	protein_coding	KNOWN	CCDS11847	12648	885	294	9914059	9954355	1	None	hVAP-33, VAP-A
18	VAPA	ENSG00000101558	ENST00000585042	nonsense_mediated_decay	KNOWN	None	12648	90	29	9914060	9936154	1	None	hVAP-33, VAP-A
18	VAPA	ENSG00000101558	ENST00000578314	processed_transcript	KNOWN	None	12648	None	None	9914610	9925071	1	None	hVAP-33, VAP-A
18	VAPA	ENSG00000101558	ENST00000584796	processed_transcript	KNOWN	None	12648	None	None	9915767	9954140	1	None	hVAP-33, VAP-A
18	VAPA	ENSG00000101558	ENST00000583879	retained_intron	KNOWN	None	12648	None	None	9931774	9954223	1	None	hVAP-33, VAP-A
18	VAPA	ENSG00000101558	ENST00000583475	retained_intron	KNOWN	None	12648	None	None	9936724	9954474	1	None	hVAP-33, VAP-A
18	VAPA	ENSG00000101558	ENST00000577539	retained_intron	KNOWN	None	12648	None	None	9947591	9951350	1	None	hVAP-33, VAP-A
HSCHR6_MHC_MCF	RPL7P4	ENSG00000229575	ENST00000453240	processed_pseudogene	KNOWN	None	21634	None	None	30743070	30743799	-1	None	Em:AB023049.2
7	HOTTIP	ENSG00000243766	ENST00000421733	antisense	KNOWN	None	37461	None	None	27238194	27240855	1	NCRNA00213	HOXA-AS6, RP1-170O19.3, HOXA13-AS1
7	HOTTIP	ENSG00000243766	ENST00000521028	antisense	KNOWN	None	37461	None	None	27240040	27246878	1	NCRNA00213	HOXA-AS6, RP1-170O19.3, HOXA13-AS1
7	HOTTIP	ENSG00000243766	ENST00000605136	antisense	KNOWN	None	37461	None	None	27240056	27241442	1	NCRNA00213	HOXA-AS6, RP1-170O19.3, HOXA13-AS1
7	HOTTIP	ENSG00000243766	ENST00000472494	antisense	KNOWN	None	37461	None	None	27240056	27242441	1	NCRNA00213	HOXA-AS6, RP1-170O19.3, HOXA13-AS1
6	None	ENSG00000260422	ENST00000564697	lincRNA	KNOWN	None	None	None	None	164505055	164506693	-1	None	None
HSCHR6_MHC_COX	COL11A2P1	ENSG00000230816	ENST00000433955	unprocessed_pseudogene	KNOWN	None	13947	None	None	32993451	32997006	-1	COL11A2P	cD0826Q1.1
6	None	ENSG00000230627	ENST00000451328	lincRNA	KNOWN	None	None	None	None	164529652	164530726	-1	None	None
HSCHR6_MHC_MCF	MDC1-AS1	ENSG00000233883	ENST00000455165	processed_transcript	KNOWN	None	39764	None	None	30749331	30759447	1	None	None
3	PPM1L	ENSG00000163590	ENST00000497343	protein_coding	KNOWN	None	16381	585	194	160473390	160740250	1	None	PP2CE
3	PPM1L	ENSG00000163590	ENST00000498165	protein_coding	KNOWN	CCDS33886	16381	1083	360	160473996	160796695	1	None	PP2CE
3	PPM1L	ENSG00000163590	ENST00000464260	protein_coding	PUTATIVE	None	16381	546	181	160560001	160788816	1	None	PP2CE
3	PPM1L	ENSG00000163590	ENST00000295839	protein_coding	PUTATIVE	None	16381	702	233	160560015	160787644	1	None	PP2CE
3	PPM1L	ENSG00000163590	ENST00000480117	processed_transcript	KNOWN	None	16381	None	None	160588386	160787632	1	None	PP2CE
20	LINC00266-1	ENSG00000149656	ENST00000279067	processed_transcript	KNOWN	None	16202	None	None	62921738	62934912	1	C20orf69, NCRNA00266, NCRNA00266-1	bA476I15.3
20	LINC00266-1	ENSG00000149656	ENST00000445252	processed_transcript	KNOWN	None	16202	None	None	62926250	62942724	1	C20orf69, NCRNA00266, NCRNA00266-1	bA476I15.3
20	LINC00266-1	ENSG00000149656	ENST00000425473	processed_transcript	KNOWN	None	16202	None	None	62926294	62944485	1	C20orf69, NCRNA00266, NCRNA00266-1	bA476I15.3
HSCHR6_MHC_MCF	None	ENSG00000266523	ENST00000581902	misc_RNA	NOVEL	None	None	None	None	30782567	30782677	-1	None	None
4	HNRNPDL	ENSG00000152795	ENST00000295470	protein_coding	KNOWN	CCDS3593	5037	1263	420	83343717	83351019	-1	HNRPDL	JKTBP, laAUF1
4	HNRNPDL	ENSG00000152795	ENST00000602300	protein_coding	PUTATIVE	None	5037	906	301	83345782	83350600	-1	HNRPDL	JKTBP, laAUF1
4	HNRNPDL	ENSG00000152795	ENST00000502762	protein_coding	KNOWN	CCDS3593	5037	1263	420	83345782	83351294	-1	HNRPDL	JKTBP, laAUF1
4	HNRNPDL	ENSG00000152795	ENST00000507721	retained_intron	KNOWN	None	5037	None	None	83345784	83348344	-1	HNRPDL	JKTBP, laAUF1
4	HNRNPDL	ENSG00000152795	ENST00000514511	processed_transcript	KNOWN	None	5037	None	None	83346736	83350578	-1	HNRPDL	JKTBP, laAUF1
4	HNRNPDL	ENSG00000152795	ENST00000349655	protein_coding	KNOWN	None	5037	735	244	83345782	83350594	-1	HNRPDL	JKTBP, laAUF1
6	None	ENSG00000226739	ENST00000434356	lincRNA	KNOWN	None	None	None	None	164767522	164769677	-1	None	None
5	None	ENSG00000207229	ENST00000384500	misc_RNA	NOVEL	None	None	None	None	54336675	54336773	1	None	None
HSCHR6_MHC_MCF	None	ENSG00000224862	ENST00000432236	processed_transcript	KNOWN	None	None	None	None	30885789	30894426	-1	None	None
5	None	ENSG00000251376	ENST00000512349	lincRNA	KNOWN	None	None	None	None	54350256	54350968	1	None	None
6	HCG18	ENSG00000231074	ENST00000602591	antisense	KNOWN	None	31337	None	None	30255174	30257149	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
6	HCG18	ENSG00000231074	ENST00000602550	antisense	KNOWN	None	31337	None	None	30257073	30294181	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
6	HCG18	ENSG00000231074	ENST00000438412	antisense	KNOWN	None	31337	None	None	30258571	30294164	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
6	HCG18	ENSG00000231074	ENST00000444126	antisense	KNOWN	None	31337	None	None	30258783	30294111	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
6	HCG18	ENSG00000231074	ENST00000449544	antisense	KNOWN	None	31337	None	None	30258783	30294124	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
6	HCG18	ENSG00000231074	ENST00000454129	antisense	KNOWN	None	31337	None	None	30258783	30294153	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
6	HCG18	ENSG00000231074	ENST00000454269	antisense	KNOWN	None	31337	None	None	30258783	30294163	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
6	HCG18	ENSG00000231074	ENST00000426882	antisense	KNOWN	None	31337	None	None	30258783	30294927	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
6	HCG18	ENSG00000231074	ENST00000412685	antisense	KNOWN	None	31337	None	None	30259152	30294643	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
6	HCG18	ENSG00000231074	ENST00000602698	antisense	KNOWN	None	31337	None	None	30260022	30264014	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
6	HCG18	ENSG00000231074	ENST00000602861	antisense	KNOWN	None	31337	None	None	30260111	30264014	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
6	HCG18	ENSG00000231074	ENST00000413358	antisense	KNOWN	None	31337	None	None	30262184	30294674	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
6	HCG18	ENSG00000231074	ENST00000602290	antisense	KNOWN	None	31337	None	None	30262454	30294140	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
6	HCG18	ENSG00000231074	ENST00000602319	antisense	KNOWN	None	31337	None	None	30268551	30271892	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
6	HCG18	ENSG00000231074	ENST00000602516	antisense	KNOWN	None	31337	None	None	30271848	30274737	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
6	HCG18	ENSG00000231074	ENST00000602498	antisense	KNOWN	None	31337	None	None	30271852	30293914	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
4	CCRN4L	ENSG00000151014	ENST00000280614	protein_coding	KNOWN	CCDS3743	14254	1296	431	139936943	139966906	1	None	CCR4L, CCR4
4	CCRN4L	ENSG00000151014	ENST00000515616	retained_intron	KNOWN	None	14254	None	None	139964226	139966259	1	None	CCR4L, CCR4
21	BTG3	ENSG00000154640	ENST00000339775	protein_coding	KNOWN	CCDS46636	1132	891	296	18965971	18985162	-1	None	ANA, tob55
21	BTG3	ENSG00000154640	ENST00000348354	protein_coding	KNOWN	CCDS13569	1132	759	252	18965971	18985265	-1	None	ANA, tob55
21	BTG3	ENSG00000154640	ENST00000471860	retained_intron	KNOWN	None	1132	None	None	18966408	18971409	-1	None	ANA, tob55
21	BTG3	ENSG00000154640	ENST00000496601	processed_transcript	PUTATIVE	None	1132	None	None	18971039	18977451	-1	None	ANA, tob55
21	BTG3	ENSG00000154640	ENST00000464058	processed_transcript	PUTATIVE	None	1132	None	None	18981093	18985169	-1	None	ANA, tob55
21	BTG3	ENSG00000154640	ENST00000457956	protein_coding	KNOWN	None	1132	138	45	18981325	18985263	-1	None	ANA, tob55
20	ZGPAT	ENSG00000197114	ENST00000355969	protein_coding	KNOWN	CCDS13535	15948	1536	511	62339387	62367494	1	KIAA1847	dJ583P15.3, MGC44880, FLJ14972, ZC3HDC9, ZC3H9, GPATC6, GPATCH6, ZIP
20	ZGPAT	ENSG00000197114	ENST00000477340	retained_intron	KNOWN	None	15948	None	None	62339391	62367493	1	KIAA1847	dJ583P15.3, MGC44880, FLJ14972, ZC3HDC9, ZC3H9, GPATC6, GPATCH6, ZIP
20	ZGPAT	ENSG00000197114	ENST00000490623	processed_transcript	KNOWN	None	15948	None	None	62339391	62370456	1	KIAA1847	dJ583P15.3, MGC44880, FLJ14972, ZC3HDC9, ZC3H9, GPATC6, GPATCH6, ZIP
20	ZGPAT	ENSG00000197114	ENST00000357119	protein_coding	KNOWN	CCDS56203	15948	1509	502	62339405	62367494	1	KIAA1847	dJ583P15.3, MGC44880, FLJ14972, ZC3HDC9, ZC3H9, GPATC6, GPATCH6, ZIP
20	ZGPAT	ENSG00000197114	ENST00000431125	protein_coding	KNOWN	None	15948	291	96	62339414	62340223	1	KIAA1847	dJ583P15.3, MGC44880, FLJ14972, ZC3HDC9, ZC3H9, GPATC6, GPATCH6, ZIP
20	ZGPAT	ENSG00000197114	ENST00000369967	protein_coding	KNOWN	CCDS13535	15948	1536	511	62339438	62367494	1	KIAA1847	dJ583P15.3, MGC44880, FLJ14972, ZC3HDC9, ZC3H9, GPATC6, GPATCH6, ZIP
20	ZGPAT	ENSG00000197114	ENST00000328969	protein_coding	KNOWN	CCDS13534	15948	1596	531	62339442	62367493	1	KIAA1847	dJ583P15.3, MGC44880, FLJ14972, ZC3HDC9, ZC3H9, GPATC6, GPATCH6, ZIP
20	ZGPAT	ENSG00000197114	ENST00000486025	retained_intron	KNOWN	None	15948	None	None	62339959	62370456	1	KIAA1847	dJ583P15.3, MGC44880, FLJ14972, ZC3HDC9, ZC3H9, GPATC6, GPATCH6, ZIP
20	ZGPAT	ENSG00000197114	ENST00000472711	processed_transcript	KNOWN	None	15948	None	None	62340233	62366176	1	KIAA1847	dJ583P15.3, MGC44880, FLJ14972, ZC3HDC9, ZC3H9, GPATC6, GPATCH6, ZIP
20	ZGPAT	ENSG00000197114	ENST00000478385	processed_transcript	KNOWN	None	15948	None	None	62340350	62366537	1	KIAA1847	dJ583P15.3, MGC44880, FLJ14972, ZC3HDC9, ZC3H9, GPATC6, GPATCH6, ZIP
20	ZGPAT	ENSG00000197114	ENST00000468235	processed_transcript	KNOWN	None	15948	None	None	62340441	62365322	1	KIAA1847	dJ583P15.3, MGC44880, FLJ14972, ZC3HDC9, ZC3H9, GPATC6, GPATCH6, ZIP
20	ZGPAT	ENSG00000197114	ENST00000484569	processed_transcript	KNOWN	None	15948	None	None	62365506	62366588	1	KIAA1847	dJ583P15.3, MGC44880, FLJ14972, ZC3HDC9, ZC3H9, GPATC6, GPATCH6, ZIP
20	ZGPAT	ENSG00000197114	ENST00000448100	protein_coding	KNOWN	CCDS13535	15948	1536	511	62338794	62367493	1	KIAA1847	dJ583P15.3, MGC44880, FLJ14972, ZC3HDC9, ZC3H9, GPATC6, GPATCH6, ZIP
19	PIK3R2	ENSG00000105647	ENST00000222254	protein_coding	KNOWN	CCDS12371	8980	2187	728	18263626	18281350	1	None	P85B, p85
19	PIK3R2	ENSG00000105647	ENST00000473973	protein_coding	KNOWN	None	8980	119	38	18264092	18266808	1	None	P85B, p85
19	PIK3R2	ENSG00000105647	ENST00000426902	nonsense_mediated_decay	KNOWN	None	8980	1446	481	18266432	18280883	1	None	P85B, p85
19	PIK3R2	ENSG00000105647	ENST00000474310	retained_intron	KNOWN	None	8980	None	None	18271677	18272278	1	None	P85B, p85
19	PIK3R2	ENSG00000105647	ENST00000600533	retained_intron	KNOWN	None	8980	None	None	18273004	18273527	1	None	P85B, p85
19	PIK3R2	ENSG00000105647	ENST00000464016	retained_intron	KNOWN	None	8980	None	None	18276966	18279962	1	None	P85B, p85
19	PIK3R2	ENSG00000105647	ENST00000459743	retained_intron	KNOWN	None	8980	None	None	18279228	18279560	1	None	P85B, p85
HSCHR6_MHC_MCF	None	ENSG00000265633	ENST00000581402	misc_RNA	NOVEL	None	None	None	None	30910596	30910898	1	None	None
HSCHR6_MHC_MCF	DDR1-AS1	ENSG00000227422	ENST00000453209	processed_transcript	KNOWN	None	28694	None	None	30913330	30922258	-1	TIGD1L	bPG70P20.2, bCX111D4.7, bQB10J12.1
HSCHR6_MHC_MCF	MIR4640	ENSG00000263559	ENST00000584719	miRNA	KNOWN	None	41561	None	None	30937220	30937309	1	None	hsa-mir-4640
6	None	ENSG00000236345	ENST00000429530	antisense	KNOWN	None	None	None	None	64516729	64532535	1	None	None
5	MTRR	ENSG00000124275	ENST00000507837	processed_transcript	KNOWN	None	7473	None	None	7851299	7862131	1	None	cblE
5	MTRR	ENSG00000124275	ENST00000502509	processed_transcript	KNOWN	None	7473	None	None	7851308	7878151	1	None	cblE
5	MTRR	ENSG00000124275	ENST00000511639	processed_transcript	KNOWN	None	7473	None	None	7851313	7861795	1	None	cblE
5	MTRR	ENSG00000124275	ENST00000513439	nonsense_mediated_decay	KNOWN	None	7473	279	92	7869217	7900392	1	None	cblE
5	MTRR	ENSG00000124275	ENST00000264668	protein_coding	KNOWN	CCDS3874	7473	2178	725	7869217	7901237	1	None	cblE
5	MTRR	ENSG00000124275	ENST00000508047	nonsense_mediated_decay	KNOWN	None	7473	346	114	7869261	7878137	1	None	cblE
5	MTRR	ENSG00000124275	ENST00000510279	nonsense_mediated_decay	KNOWN	None	7473	177	58	7869261	7878262	1	None	cblE
5	MTRR	ENSG00000124275	ENST00000514220	protein_coding	NOVEL	None	7473	478	158	7869261	7878348	1	None	cblE
5	MTRR	ENSG00000124275	ENST00000511461	nonsense_mediated_decay	KNOWN	None	7473	244	80	7869261	7901237	1	None	cblE
5	MTRR	ENSG00000124275	ENST00000503550	nonsense_mediated_decay	KNOWN	None	7473	141	46	7869297	7878078	1	None	cblE
5	MTRR	ENSG00000124275	ENST00000440940	protein_coding	KNOWN	CCDS47190	7473	2097	698	7869302	7901237	1	None	cblE
5	MTRR	ENSG00000124275	ENST00000514369	nonsense_mediated_decay	KNOWN	None	7473	177	58	7869307	7883378	1	None	cblE
5	MTRR	ENSG00000124275	ENST00000502550	protein_coding	KNOWN	None	7473	470	155	7869340	7878125	1	None	cblE
5	MTRR	ENSG00000124275	ENST00000506877	protein_coding	KNOWN	None	7473	123	40	7869352	7871030	1	None	cblE
5	MTRR	ENSG00000124275	ENST00000512217	protein_coding	KNOWN	None	7473	336	111	7870374	7875423	1	None	cblE
5	MTRR	ENSG00000124275	ENST00000510525	nonsense_mediated_decay	KNOWN	None	7473	1117	371	7870883	7901229	1	None	cblE
5	MTRR	ENSG00000124275	ENST00000508890	retained_intron	KNOWN	None	7473	None	None	7875275	7878188	1	None	cblE
5	MTRR	ENSG00000124275	ENST00000508101	processed_transcript	KNOWN	None	7473	None	None	7885229	7891501	1	None	cblE
5	MTRR	ENSG00000124275	ENST00000509961	processed_transcript	KNOWN	None	7473	None	None	7885898	7890525	1	None	cblE
5	MTRR	ENSG00000124275	ENST00000512311	retained_intron	KNOWN	None	7473	None	None	7886692	7892876	1	None	cblE
5	MTRR	ENSG00000124275	ENST00000507414	processed_transcript	KNOWN	None	7473	None	None	7890459	7893763	1	None	cblE
5	MTRR	ENSG00000124275	ENST00000507202	retained_intron	KNOWN	None	7473	None	None	7891482	7893288	1	None	cblE
5	MTRR	ENSG00000124275	ENST00000508354	retained_intron	KNOWN	None	7473	None	None	7896550	7897213	1	None	cblE
5	MTRR	ENSG00000124275	ENST00000506115	processed_transcript	PUTATIVE	None	7473	None	None	7900028	7901232	1	None	cblE
5	MTRR	ENSG00000124275	ENST00000509379	processed_transcript	KNOWN	None	7473	None	None	7901180	7906138	1	None	cblE
5	MTRR	ENSG00000124275	ENST00000341013	protein_coding	KNOWN	None	7473	177	58	7869261	7889276	1	None	cblE
6	GCNT1P4	ENSG00000219653	ENST00000404096	processed_pseudogene	KNOWN	None	37974	None	None	64567334	64567662	1	None	None
20	ACSS2	ENSG00000131069	ENST00000490046	processed_transcript	KNOWN	None	15814	None	None	33459949	33470793	1	ACAS2	ACS, ACSA, AceCS, dJ1161H23.1
20	ACSS2	ENSG00000131069	ENST00000481971	processed_transcript	KNOWN	None	15814	None	None	33460685	33501613	1	ACAS2	ACS, ACSA, AceCS, dJ1161H23.1
20	ACSS2	ENSG00000131069	ENST00000497927	processed_transcript	KNOWN	None	15814	None	None	33462745	33496706	1	ACAS2	ACS, ACSA, AceCS, dJ1161H23.1
20	ACSS2	ENSG00000131069	ENST00000488172	protein_coding	PUTATIVE	None	15814	490	162	33462745	33501625	1	ACAS2	ACS, ACSA, AceCS, dJ1161H23.1
20	ACSS2	ENSG00000131069	ENST00000481284	nonsense_mediated_decay	KNOWN	None	15814	114	37	33462766	33515765	1	ACAS2	ACS, ACSA, AceCS, dJ1161H23.1
20	ACSS2	ENSG00000131069	ENST00000475459	nonsense_mediated_decay	KNOWN	None	15814	225	74	33462782	33508416	1	ACAS2	ACS, ACSA, AceCS, dJ1161H23.1
20	ACSS2	ENSG00000131069	ENST00000461051	processed_transcript	KNOWN	None	15814	None	None	33462820	33470799	1	ACAS2	ACS, ACSA, AceCS, dJ1161H23.1
20	ACSS2	ENSG00000131069	ENST00000360596	protein_coding	KNOWN	CCDS13243	15814	2106	701	33464238	33515765	1	ACAS2	ACS, ACSA, AceCS, dJ1161H23.1
20	ACSS2	ENSG00000131069	ENST00000484354	protein_coding	PUTATIVE	None	15814	443	146	33464375	33500991	1	ACAS2	ACS, ACSA, AceCS, dJ1161H23.1
20	ACSS2	ENSG00000131069	ENST00000480274	nonsense_mediated_decay	KNOWN	None	15814	183	60	33464383	33501306	1	ACAS2	ACS, ACSA, AceCS, dJ1161H23.1
20	ACSS2	ENSG00000131069	ENST00000493805	protein_coding	PUTATIVE	None	15814	547	181	33464393	33501222	1	ACAS2	ACS, ACSA, AceCS, dJ1161H23.1
20	ACSS2	ENSG00000131069	ENST00000473172	protein_coding	PUTATIVE	None	15814	609	202	33464393	33501299	1	ACAS2	ACS, ACSA, AceCS, dJ1161H23.1
20	ACSS2	ENSG00000131069	ENST00000477932	nonsense_mediated_decay	KNOWN	None	15814	375	124	33464393	33515765	1	ACAS2	ACS, ACSA, AceCS, dJ1161H23.1
20	ACSS2	ENSG00000131069	ENST00000480978	nonsense_mediated_decay	KNOWN	None	15814	564	187	33464396	33514741	1	ACAS2	ACS, ACSA, AceCS, dJ1161H23.1
20	ACSS2	ENSG00000131069	ENST00000467019	processed_transcript	KNOWN	None	15814	None	None	33464415	33501752	1	ACAS2	ACS, ACSA, AceCS, dJ1161H23.1
20	ACSS2	ENSG00000131069	ENST00000253382	protein_coding	NOVEL	CCDS42868	15814	2145	714	33464417	33515765	1	ACAS2	ACS, ACSA, AceCS, dJ1161H23.1
20	ACSS2	ENSG00000131069	ENST00000476922	processed_transcript	KNOWN	None	15814	None	None	33464425	33515765	1	ACAS2	ACS, ACSA, AceCS, dJ1161H23.1
20	ACSS2	ENSG00000131069	ENST00000464399	processed_transcript	KNOWN	None	15814	None	None	33470630	33501608	1	ACAS2	ACS, ACSA, AceCS, dJ1161H23.1
20	ACSS2	ENSG00000131069	ENST00000468550	processed_transcript	KNOWN	None	15814	None	None	33500896	33507375	1	ACAS2	ACS, ACSA, AceCS, dJ1161H23.1
20	ACSS2	ENSG00000131069	ENST00000493250	processed_transcript	KNOWN	None	15814	None	None	33501706	33508512	1	ACAS2	ACS, ACSA, AceCS, dJ1161H23.1
20	ACSS2	ENSG00000131069	ENST00000491533	retained_intron	KNOWN	None	15814	None	None	33508335	33514079	1	ACAS2	ACS, ACSA, AceCS, dJ1161H23.1
20	ACSS2	ENSG00000131069	ENST00000490464	retained_intron	KNOWN	None	15814	None	None	33508752	33509221	1	ACAS2	ACS, ACSA, AceCS, dJ1161H23.1
20	ACSS2	ENSG00000131069	ENST00000470315	retained_intron	KNOWN	None	15814	None	None	33509451	33510169	1	ACAS2	ACS, ACSA, AceCS, dJ1161H23.1
20	ACSS2	ENSG00000131069	ENST00000494727	retained_intron	KNOWN	None	15814	None	None	33510645	33515008	1	ACAS2	ACS, ACSA, AceCS, dJ1161H23.1
20	ACSS2	ENSG00000131069	ENST00000336325	protein_coding	KNOWN	None	15814	1956	651	33462903	33515769	1	ACAS2	ACS, ACSA, AceCS, dJ1161H23.1
9	MIR4476	ENSG00000265368	ENST00000577752	miRNA	KNOWN	None	41793	None	None	36893459	36893528	-1	None	hsa-mir-4476
6	None	ENSG00000232120	ENST00000424274	antisense	KNOWN	None	None	None	None	65087688	65122672	1	None	None
11	OTOG	ENSG00000188162	ENST00000399397	protein_coding	PUTATIVE	None	8516	8559	2852	17569375	17668697	1	None	mlemp, OTGN, FLJ46346
11	OTOG	ENSG00000188162	ENST00000498332	retained_intron	KNOWN	None	8516	None	None	17569474	17592151	1	None	mlemp, OTGN, FLJ46346
11	OTOG	ENSG00000188162	ENST00000428619	protein_coding	NOVEL	None	8516	279	92	17569724	17574991	1	None	mlemp, OTGN, FLJ46346
11	OTOG	ENSG00000188162	ENST00000485669	retained_intron	KNOWN	None	8516	None	None	17577247	17580149	1	None	mlemp, OTGN, FLJ46346
11	OTOG	ENSG00000188162	ENST00000342528	protein_coding	KNOWN	None	8516	4527	1508	17599811	17660481	1	None	mlemp, OTGN, FLJ46346
11	OTOG	ENSG00000188162	ENST00000399391	protein_coding	KNOWN	CCDS59225	8516	8778	2925	17568920	17667491	1	None	mlemp, OTGN, FLJ46346
6	HNRNPDP2	ENSG00000217811	ENST00000406475	processed_pseudogene	KNOWN	None	48749	None	None	65341098	65341575	-1	None	None
10	None	ENSG00000266547	ENST00000582662	miRNA	NOVEL	None	None	None	None	135311055	135311140	-1	None	None
12	H2AFJ	ENSG00000246705	ENST00000389078	nonsense_mediated_decay	KNOWN	CCDS31752	14456	390	129	14927353	14928515	1	None	FLJ10903, MGC921
12	H2AFJ	ENSG00000246705	ENST00000501744	nonsense_mediated_decay	KNOWN	None	14456	279	92	14927516	14930936	1	None	FLJ10903, MGC921
12	H2AFJ	ENSG00000246705	ENST00000544848	protein_coding	KNOWN	CCDS31752	14456	390	129	14927270	14930934	1	None	FLJ10903, MGC921
10	None	ENSG00000233685	ENST00000441446	processed_pseudogene	KNOWN	None	None	None	None	135388626	135389535	-1	None	None
16	ABCD1P3	ENSG00000261233	ENST00000562927	unprocessed_pseudogene	KNOWN	None	64	None	None	32486372	32489571	-1	None	None
6	None	ENSG00000243828	ENST00000433531	processed_transcript	KNOWN	None	None	None	None	65438730	65443460	-1	None	None
6	None	ENSG00000243828	ENST00000421170	processed_transcript	KNOWN	None	None	None	None	65440706	65443438	-1	None	None
6	None	ENSG00000243828	ENST00000402154	transcribed_processed_pseudogene	KNOWN	None	None	None	None	65443092	65443730	-1	None	None
10	RARRES2P2	ENSG00000213543	ENST00000394842	processed_pseudogene	KNOWN	None	48701	None	None	135450912	135451396	-1	None	None
10	AGGF1P2	ENSG00000233435	ENST00000426656	processed_pseudogene	KNOWN	None	38052	None	None	135455590	135456398	1	None	None
1	RHD	ENSG00000187010	ENST00000564398	retained_intron	KNOWN	None	10009	None	None	25598884	25633433	1	RH	Rh30a, Rh4, RhPI, RhII, DIIIc, CD240D
1	RHD	ENSG00000187010	ENST00000328664	protein_coding	KNOWN	CCDS262	10009	1254	417	25598884	25656936	1	RH	Rh30a, Rh4, RhPI, RhII, DIIIc, CD240D
1	RHD	ENSG00000187010	ENST00000454452	protein_coding	KNOWN	CCDS53285	10009	966	321	25598989	25655702	1	RH	Rh30a, Rh4, RhPI, RhII, DIIIc, CD240D
1	RHD	ENSG00000187010	ENST00000423253	processed_transcript	KNOWN	None	10009	None	None	25599039	25648391	1	RH	Rh30a, Rh4, RhPI, RhII, DIIIc, CD240D
1	RHD	ENSG00000187010	ENST00000417538	protein_coding	PUTATIVE	None	10009	1137	378	25599039	25655702	1	RH	Rh30a, Rh4, RhPI, RhII, DIIIc, CD240D
1	RHD	ENSG00000187010	ENST00000357542	protein_coding	PUTATIVE	None	10009	1191	396	25599039	25655702	1	RH	Rh30a, Rh4, RhPI, RhII, DIIIc, CD240D
1	RHD	ENSG00000187010	ENST00000568195	protein_coding	PUTATIVE	None	10009	1392	463	25599039	25655702	1	RH	Rh30a, Rh4, RhPI, RhII, DIIIc, CD240D
1	RHD	ENSG00000187010	ENST00000342055	protein_coding	PUTATIVE	None	10009	1482	493	25599039	25655702	1	RH	Rh30a, Rh4, RhPI, RhII, DIIIc, CD240D
1	RHD	ENSG00000187010	ENST00000423810	protein_coding	PUTATIVE	None	10009	1296	431	25599039	25655702	1	RH	Rh30a, Rh4, RhPI, RhII, DIIIc, CD240D
9	None	ENSG00000250850	ENST00000509911	antisense	KNOWN	None	None	None	None	37002694	37008037	1	None	None
10	CLUHP5	ENSG00000230468	ENST00000438421	unprocessed_pseudogene	KNOWN	None	38471	None	None	135470739	135474139	-1	KIAA0664P5	KIAA0664L5
HSCHR6_MHC_QBL	HLA-DMA	ENSG00000242685	ENST00000469049	retained_intron	KNOWN	None	4934	None	None	32845119	32846180	-1	None	D6S222E, RING6
HSCHR6_MHC_QBL	HLA-DMA	ENSG00000242685	ENST00000435503	protein_coding	KNOWN	None	4934	501	166	32845119	32849570	-1	None	D6S222E, RING6
HSCHR6_MHC_QBL	HLA-DMA	ENSG00000242685	ENST00000452434	protein_coding	KNOWN	None	4934	684	227	32845119	32849617	-1	None	D6S222E, RING6
HSCHR6_MHC_QBL	HLA-DMA	ENSG00000242685	ENST00000472934	retained_intron	KNOWN	None	4934	None	None	32845119	32849617	-1	None	D6S222E, RING6
HSCHR6_MHC_QBL	HLA-DMA	ENSG00000242685	ENST00000450601	protein_coding	KNOWN	None	4934	786	261	32845119	32849631	-1	None	D6S222E, RING6
HSCHR6_MHC_QBL	HLA-DMA	ENSG00000242685	ENST00000491978	processed_transcript	KNOWN	None	4934	None	None	32845247	32867240	-1	None	D6S222E, RING6
HSCHR6_MHC_QBL	HLA-DMA	ENSG00000242685	ENST00000479292	processed_transcript	KNOWN	None	4934	None	None	32845280	32864968	-1	None	D6S222E, RING6
HSCHR6_MHC_QBL	HLA-DMA	ENSG00000242685	ENST00000454298	protein_coding	KNOWN	None	4934	871	289	32845780	32848970	-1	None	D6S222E, RING6
HSCHR6_MHC_QBL	HLA-DMA	ENSG00000242685	ENST00000458066	protein_coding	KNOWN	None	4934	507	168	32846166	32865618	-1	None	D6S222E, RING6
HSCHR6_MHC_QBL	HLA-DMA	ENSG00000242685	ENST00000466043	retained_intron	KNOWN	None	4934	None	None	32846593	32849543	-1	None	D6S222E, RING6
11	OR52K1	ENSG00000196778	ENST00000307632	protein_coding	KNOWN	CCDS31352	15222	945	314	4510109	4511138	1	None	None
9	None	ENSG00000125385	ENST00000354277	processed_pseudogene	KNOWN	None	None	None	None	37046832	37047234	1	None	None
2	PUM2	ENSG00000055917	ENST00000338086	protein_coding	KNOWN	CCDS1698	14958	3195	1064	20448452	20527144	-1	None	PUMH2, KIAA0235
2	PUM2	ENSG00000055917	ENST00000440577	protein_coding	NOVEL	None	14958	2631	876	20449625	20512017	-1	None	PUMH2, KIAA0235
2	PUM2	ENSG00000055917	ENST00000403432	protein_coding	KNOWN	CCDS1698	14958	3195	1064	20451071	20550463	-1	None	PUMH2, KIAA0235
2	PUM2	ENSG00000055917	ENST00000442400	protein_coding	KNOWN	None	14958	880	292	20507742	20551983	-1	None	PUMH2, KIAA0235
2	PUM2	ENSG00000055917	ENST00000420234	processed_transcript	KNOWN	None	14958	None	None	20508175	20550595	-1	None	PUMH2, KIAA0235
2	PUM2	ENSG00000055917	ENST00000429419	nonsense_mediated_decay	KNOWN	None	14958	123	40	20508251	20550382	-1	None	PUMH2, KIAA0235
2	PUM2	ENSG00000055917	ENST00000432105	nonsense_mediated_decay	KNOWN	None	14958	108	35	20511401	20551995	-1	None	PUMH2, KIAA0235
2	PUM2	ENSG00000055917	ENST00000446940	nonsense_mediated_decay	KNOWN	None	14958	108	35	20512060	20550062	-1	None	PUMH2, KIAA0235
2	PUM2	ENSG00000055917	ENST00000424110	protein_coding	KNOWN	None	14958	104	33	20518354	20550463	-1	None	PUMH2, KIAA0235
2	PUM2	ENSG00000055917	ENST00000361078	protein_coding	KNOWN	None	14958	3201	1066	20448453	20527144	-1	None	PUMH2, KIAA0235
2	PUM2	ENSG00000055917	ENST00000319801	protein_coding	KNOWN	None	14958	2964	987	20448453	20527144	-1	None	PUMH2, KIAA0235
2	PUM2	ENSG00000055917	ENST00000536417	protein_coding	KNOWN	None	14958	3027	1008	20451071	20550382	-1	None	PUMH2, KIAA0235
5	LINC00847	ENSG00000245060	ENST00000501855	lincRNA	KNOWN	None	45050	None	None	180257957	180262726	1	None	None
5	LINC00847	ENSG00000245060	ENST00000502162	lincRNA	KNOWN	None	45050	None	None	180258024	180262726	1	None	None
5	LINC00847	ENSG00000245060	ENST00000508309	lincRNA	KNOWN	None	45050	None	None	180258027	180261779	1	None	None
5	LINC00847	ENSG00000245060	ENST00000509921	lincRNA	KNOWN	None	45050	None	None	180258039	180261871	1	None	None
5	LINC00847	ENSG00000245060	ENST00000501937	lincRNA	KNOWN	None	45050	None	None	180258365	180262678	1	None	None
11	YAP1	ENSG00000137693	ENST00000526343	protein_coding	NOVEL	CCDS8314	16262	1353	450	101981192	102101323	1	None	YAP65
11	YAP1	ENSG00000137693	ENST00000282441	protein_coding	KNOWN	CCDS44716	16262	1515	504	101981192	102104154	1	None	YAP65
11	YAP1	ENSG00000137693	ENST00000531439	protein_coding	KNOWN	CCDS53699	16262	1467	488	101981580	102100694	1	None	YAP65
11	YAP1	ENSG00000137693	ENST00000524575	protein_coding	PUTATIVE	CCDS53700	16262	981	326	101983245	102100883	1	None	YAP65
11	YAP1	ENSG00000137693	ENST00000526594	retained_intron	KNOWN	None	16262	None	None	102033187	102057417	1	None	YAP65
11	YAP1	ENSG00000137693	ENST00000529029	protein_coding	NOVEL	None	16262	776	257	102056812	102101310	1	None	YAP65
11	YAP1	ENSG00000137693	ENST00000528834	processed_transcript	KNOWN	None	16262	None	None	102097704	102101233	1	None	YAP65
11	YAP1	ENSG00000137693	ENST00000537274	protein_coding	KNOWN	None	16262	1479	492	101981210	102104154	1	None	YAP65
11	YAP1	ENSG00000137693	ENST00000345877	protein_coding	KNOWN	None	16262	1365	454	101981210	102104154	1	None	YAP65
9	None	ENSG00000232920	ENST00000426358	lincRNA	KNOWN	None	None	None	None	37073528	37075789	-1	None	None
4	GRSF1	ENSG00000132463	ENST00000254799	protein_coding	KNOWN	CCDS47069	4610	1443	480	71681499	71705662	-1	None	None
4	GRSF1	ENSG00000132463	ENST00000505068	retained_intron	KNOWN	None	4610	None	None	71685248	71705614	-1	None	None
4	GRSF1	ENSG00000132463	ENST00000499044	protein_coding	PUTATIVE	None	4610	1362	453	71685475	71705220	-1	None	None
4	GRSF1	ENSG00000132463	ENST00000502323	protein_coding	NOVEL	CCDS47070	4610	957	318	71686029	71704718	-1	None	None
4	GRSF1	ENSG00000132463	ENST00000514161	protein_coding	PUTATIVE	None	4610	1253	416	71686092	71705060	-1	None	None
4	GRSF1	ENSG00000132463	ENST00000506453	nonsense_mediated_decay	KNOWN	None	4610	345	114	71686416	71698934	-1	None	None
4	GRSF1	ENSG00000132463	ENST00000508091	processed_transcript	KNOWN	None	4610	None	None	71686463	71705090	-1	None	None
4	GRSF1	ENSG00000132463	ENST00000545193	protein_coding	KNOWN	None	4610	1089	362	71686092	71705033	-1	None	None
4	GRSF1	ENSG00000132463	ENST00000439371	protein_coding	KNOWN	CCDS47070	4610	957	318	71681504	71705220	-1	None	None
11	OR52M1	ENSG00000197790	ENST00000360213	protein_coding	KNOWN	CCDS31353	15225	954	317	4566421	4567374	1	OR52M1P	None
7	None	ENSG00000253308	ENST00000523608	lincRNA	KNOWN	None	None	None	None	27278862	27280847	-1	None	None
11	ALKBH8	ENSG00000137760	ENST00000428149	protein_coding	KNOWN	CCDS8337	25189	1995	664	107373452	107436472	-1	None	MGC10235
11	ALKBH8	ENSG00000137760	ENST00000429370	protein_coding	KNOWN	None	25189	675	224	107373755	107436461	-1	None	MGC10235
11	ALKBH8	ENSG00000137760	ENST00000389568	protein_coding	NOVEL	CCDS8337	25189	1995	664	107375321	107436244	-1	None	MGC10235
11	ALKBH8	ENSG00000137760	ENST00000260318	nonsense_mediated_decay	KNOWN	None	25189	717	238	107375324	107436427	-1	None	MGC10235
11	ALKBH8	ENSG00000137760	ENST00000417449	protein_coding	KNOWN	None	25189	2004	667	107375384	107436468	-1	None	MGC10235
11	ALKBH8	ENSG00000137760	ENST00000393100	nonsense_mediated_decay	KNOWN	None	25189	435	144	107403040	107436460	-1	None	MGC10235
11	ALKBH8	ENSG00000137760	ENST00000530933	processed_transcript	PUTATIVE	None	25189	None	None	107424583	107436459	-1	None	MGC10235
6	DPPA5	ENSG00000203909	ENST00000370370	protein_coding	KNOWN	CCDS34483	19201	351	116	74062785	74064018	-1	None	Esg1
1	SRM	ENSG00000116649	ENST00000475189	retained_intron	KNOWN	None	11296	None	None	11114641	11115261	-1	SRML1	SPS1
1	SRM	ENSG00000116649	ENST00000376957	protein_coding	KNOWN	CCDS125	11296	909	302	11114646	11120081	-1	SRML1	SPS1
1	SRM	ENSG00000116649	ENST00000490101	protein_coding	PUTATIVE	None	11296	250	82	11114721	11115877	-1	SRML1	SPS1
1	SRM	ENSG00000116649	ENST00000465788	protein_coding	PUTATIVE	None	11296	402	133	11116068	11118930	-1	SRML1	SPS1
1	SRM	ENSG00000116649	ENST00000459997	nonsense_mediated_decay	KNOWN	None	11296	282	93	11116068	11120077	-1	SRML1	SPS1
1	SRM	ENSG00000116649	ENST00000487300	protein_coding	PUTATIVE	None	11296	359	118	11116759	11119743	-1	SRML1	SPS1
14	TRAJ8	ENSG00000211881	ENST00000390529	TR_J_gene	KNOWN	None	12096	60	19	23005092	23005151	1	None	None
11	C11orf40	ENSG00000171987	ENST00000307616	protein_coding	KNOWN	CCDS31354	23986	654	217	4592653	4599050	-1	None	NOV1
Y	RPS4Y2	ENSG00000157828	ENST00000288666	protein_coding	KNOWN	CCDS44028	18501	792	263	22918050	22942918	1	RPS4Y2P	None
12	A2ML1	ENSG00000166535	ENST00000299698	protein_coding	KNOWN	CCDS8596	23336	4365	1454	8975068	9029381	1	CPAMD9	FLJ25179
12	A2ML1	ENSG00000166535	ENST00000537546	retained_intron	KNOWN	None	23336	None	None	8976109	8987531	1	CPAMD9	FLJ25179
12	A2ML1	ENSG00000166535	ENST00000541459	protein_coding	KNOWN	None	23336	3015	1004	8995832	9028410	1	CPAMD9	FLJ25179
12	A2ML1	ENSG00000166535	ENST00000536789	protein_coding	PUTATIVE	None	23336	244	80	8997550	8998720	1	CPAMD9	FLJ25179
12	A2ML1	ENSG00000166535	ENST00000539547	protein_coding	PUTATIVE	None	23336	2892	963	8997600	9029052	1	CPAMD9	FLJ25179
12	A2ML1	ENSG00000166535	ENST00000545692	protein_coding	PUTATIVE	None	23336	551	182	8997877	9001497	1	CPAMD9	FLJ25179
12	A2ML1	ENSG00000166535	ENST00000540049	processed_transcript	KNOWN	None	23336	None	None	8997879	9001391	1	CPAMD9	FLJ25179
12	A2ML1	ENSG00000166535	ENST00000545850	retained_intron	KNOWN	None	23336	None	None	9009831	9010460	1	CPAMD9	FLJ25179
12	A2ML1	ENSG00000166535	ENST00000537475	nonsense_mediated_decay	KNOWN	None	23336	547	181	9020539	9039597	1	CPAMD9	FLJ25179
5	PCDHA3	ENSG00000255408	ENST00000522353	protein_coding	KNOWN	CCDS54915	8669	2853	950	140180783	140391929	1	None	PCDH-ALPHA3
5	PCDHA3	ENSG00000255408	ENST00000532566	protein_coding	KNOWN	None	8669	2475	824	140180783	140183257	1	None	PCDH-ALPHA3
10	None	ENSG00000221108	ENST00000408181	miRNA	NOVEL	None	None	None	None	135473084	135473179	-1	None	None
16	None	ENSG00000259966	ENST00000562976	processed_transcript	KNOWN	None	None	None	None	32611620	32619547	1	None	None
16	None	ENSG00000259966	ENST00000562098	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	32613896	32626960	1	None	None
16	None	ENSG00000259966	ENST00000566952	processed_transcript	KNOWN	None	None	None	None	32617141	32626892	1	None	None
1	FMO1	ENSG00000010932	ENST00000433267	protein_coding	KNOWN	None	3769	626	207	171217638	171248009	1	None	None
1	FMO1	ENSG00000010932	ENST00000367750	protein_coding	KNOWN	CCDS1294	3769	1599	532	171217638	171255117	1	None	None
1	FMO1	ENSG00000010932	ENST00000469112	processed_transcript	KNOWN	None	3769	None	None	171226877	171255116	1	None	None
1	FMO1	ENSG00000010932	ENST00000354841	protein_coding	KNOWN	CCDS1294	3769	1599	532	171227096	171255113	1	None	None
1	FMO1	ENSG00000010932	ENST00000459868	processed_transcript	KNOWN	None	3769	None	None	171227229	171240760	1	None	None
1	FMO1	ENSG00000010932	ENST00000472893	processed_transcript	KNOWN	None	3769	None	None	171244485	171252335	1	None	None
1	FMO1	ENSG00000010932	ENST00000469711	processed_transcript	KNOWN	None	3769	None	None	171251397	171254660	1	None	None
1	FMO1	ENSG00000010932	ENST00000402921	protein_coding	KNOWN	None	3769	1410	469	171217690	171254766	1	None	None
20	OSBPL2	ENSG00000130703	ENST00000358053	protein_coding	KNOWN	CCDS13494	15761	1407	468	60813580	60871268	1	None	KIAA0772, ORP-2
20	OSBPL2	ENSG00000130703	ENST00000313733	protein_coding	KNOWN	CCDS13495	15761	1443	480	60813580	60871268	1	None	KIAA0772, ORP-2
20	OSBPL2	ENSG00000130703	ENST00000448156	protein_coding	KNOWN	None	15761	285	94	60848365	60855277	1	None	KIAA0772, ORP-2
20	OSBPL2	ENSG00000130703	ENST00000471817	processed_transcript	KNOWN	None	15761	None	None	60866618	60871268	1	None	KIAA0772, ORP-2
20	OSBPL2	ENSG00000130703	ENST00000439951	protein_coding	KNOWN	None	15761	1113	370	60813580	60869257	1	None	KIAA0772, ORP-2
1	HIAT1	ENSG00000156875	ENST00000370152	protein_coding	KNOWN	CCDS763	23363	1473	490	100503653	100548933	1	None	DKFZP564L0864
1	HIAT1	ENSG00000156875	ENST00000421661	protein_coding	KNOWN	None	23363	361	119	100524227	100527671	1	None	DKFZP564L0864
10	None	ENSG00000237635	ENST00000425409	unprocessed_pseudogene	KNOWN	None	None	None	None	135477931	135478609	1	None	None
8	PPP1R16A	ENSG00000160972	ENST00000526183	retained_intron	KNOWN	None	14941	None	None	145703352	145727503	1	None	MGC14333, MYPT3
8	PPP1R16A	ENSG00000160972	ENST00000529283	processed_transcript	KNOWN	None	14941	None	None	145703366	145722058	1	None	MGC14333, MYPT3
8	PPP1R16A	ENSG00000160972	ENST00000526643	retained_intron	KNOWN	None	14941	None	None	145703481	145704601	1	None	MGC14333, MYPT3
8	PPP1R16A	ENSG00000160972	ENST00000533088	processed_transcript	KNOWN	None	14941	None	None	145703734	145722069	1	None	MGC14333, MYPT3
8	PPP1R16A	ENSG00000160972	ENST00000292539	protein_coding	KNOWN	CCDS6429	14941	1587	528	145715413	145727504	1	None	MGC14333, MYPT3
8	PPP1R16A	ENSG00000160972	ENST00000529009	processed_transcript	KNOWN	None	14941	None	None	145715424	145722773	1	None	MGC14333, MYPT3
8	PPP1R16A	ENSG00000160972	ENST00000533829	processed_transcript	KNOWN	None	14941	None	None	145715477	145722145	1	None	MGC14333, MYPT3
8	PPP1R16A	ENSG00000160972	ENST00000532806	retained_intron	KNOWN	None	14941	None	None	145722729	145725995	1	None	MGC14333, MYPT3
8	PPP1R16A	ENSG00000160972	ENST00000526564	nonsense_mediated_decay	KNOWN	None	14941	269	88	145724409	145726337	1	None	MGC14333, MYPT3
8	PPP1R16A	ENSG00000160972	ENST00000528430	protein_coding	PUTATIVE	None	14941	590	195	145726472	145727503	1	None	MGC14333, MYPT3
8	PPP1R16A	ENSG00000160972	ENST00000435887	protein_coding	KNOWN	CCDS6429	14941	1587	528	145722109	145727503	1	None	MGC14333, MYPT3
11	OR52I2	ENSG00000226288	ENST00000312614	protein_coding	KNOWN	CCDS31355	15221	1053	350	4608021	4609135	1	None	None
12	SCN8A	ENSG00000196876	ENST00000546961	processed_transcript	PUTATIVE	None	10596	None	None	51984050	52056604	1	MED	Nav1.6, NaCh6, PN4, CerIII
12	SCN8A	ENSG00000196876	ENST00000550891	protein_coding	NOVEL	None	10596	2919	972	51984710	52160035	1	MED	Nav1.6, NaCh6, PN4, CerIII
12	SCN8A	ENSG00000196876	ENST00000354534	protein_coding	KNOWN	CCDS44891	10596	5943	1980	51985020	52203558	1	MED	Nav1.6, NaCh6, PN4, CerIII
12	SCN8A	ENSG00000196876	ENST00000355133	protein_coding	NOVEL	None	10596	4672	1556	52056602	52201213	1	MED	Nav1.6, NaCh6, PN4, CerIII
12	SCN8A	ENSG00000196876	ENST00000551216	protein_coding	NOVEL	None	10596	1425	474	52080207	52139732	1	MED	Nav1.6, NaCh6, PN4, CerIII
12	SCN8A	ENSG00000196876	ENST00000548086	processed_transcript	PUTATIVE	None	10596	None	None	52168024	52180555	1	MED	Nav1.6, NaCh6, PN4, CerIII
12	SCN8A	ENSG00000196876	ENST00000545061	protein_coding	KNOWN	CCDS53794	10596	5820	1939	52056548	52202297	1	MED	Nav1.6, NaCh6, PN4, CerIII
10	ACADSB	ENSG00000196177	ENST00000368869	protein_coding	PUTATIVE	None	91	993	330	124768495	124813635	1	None	SBCAD, ACAD7
10	ACADSB	ENSG00000196177	ENST00000358776	protein_coding	KNOWN	CCDS7634	91	1299	432	124768532	124817827	1	None	SBCAD, ACAD7
10	ACADSB	ENSG00000196177	ENST00000411816	protein_coding	PUTATIVE	None	91	512	169	124787050	124800173	1	None	SBCAD, ACAD7
10	ACADSB	ENSG00000196177	ENST00000496730	processed_transcript	KNOWN	None	91	None	None	124793871	124806765	1	None	SBCAD, ACAD7
10	ACADSB	ENSG00000196177	ENST00000541070	retained_intron	KNOWN	None	91	None	None	124812277	124813394	1	None	SBCAD, ACAD7
7	EVX1-AS	ENSG00000253405	ENST00000517726	antisense	KNOWN	None	40223	None	None	27281048	27286848	-1	None	EVX1-AS1
7	EVX1-AS	ENSG00000253405	ENST00000519050	antisense	KNOWN	None	40223	None	None	27281549	27282581	-1	None	EVX1-AS1
7	EVX1-AS	ENSG00000253405	ENST00000519218	antisense	KNOWN	None	40223	None	None	27281569	27283578	-1	None	EVX1-AS1
5	None	ENSG00000222852	ENST00000410920	misc_RNA	NOVEL	None	None	None	None	180336838	180336927	1	None	None
17	MED31	ENSG00000108590	ENST00000225728	protein_coding	KNOWN	CCDS11078	24260	396	131	6546635	6554954	-1	None	CGI-125, Soh1
17	MED31	ENSG00000108590	ENST00000575197	protein_coding	PUTATIVE	None	24260	132	43	6547599	6554954	-1	None	CGI-125, Soh1
17	MED31	ENSG00000108590	ENST00000574128	protein_coding	PUTATIVE	None	24260	174	57	6547615	6554747	-1	None	CGI-125, Soh1
17	MED31	ENSG00000108590	ENST00000575519	retained_intron	KNOWN	None	24260	None	None	6553209	6554895	-1	None	CGI-125, Soh1
5	RPS29P12	ENSG00000243664	ENST00000460178	processed_pseudogene	KNOWN	None	36458	None	None	180372756	180372907	1	None	None
11	OR52I1	ENSG00000232268	ENST00000530443	protein_coding	PUTATIVE	CCDS59223	15220	975	324	4615269	4616243	1	None	None
11	OR52I1	ENSG00000232268	ENST00000450052	protein_coding	KNOWN	None	15220	1047	348	4615037	4616243	1	None	None
14	TRAJ7	ENSG00000211882	ENST00000390530	TR_J_gene	KNOWN	None	12095	59	18	23006567	23006625	1	None	None
12	SMARCC2	ENSG00000139613	ENST00000394023	protein_coding	KNOWN	CCDS55835	11105	3459	1152	56556767	56583351	-1	None	BAF170, Rsc8, CRACC2
12	SMARCC2	ENSG00000139613	ENST00000550164	protein_coding	NOVEL	None	11105	3738	1245	56557112	56583260	-1	None	BAF170, Rsc8, CRACC2
12	SMARCC2	ENSG00000139613	ENST00000347471	protein_coding	KNOWN	CCDS8908	11105	3393	1130	56557114	56583332	-1	None	BAF170, Rsc8, CRACC2
12	SMARCC2	ENSG00000139613	ENST00000552674	nonsense_mediated_decay	KNOWN	None	11105	318	105	56557129	56583257	-1	None	BAF170, Rsc8, CRACC2
12	SMARCC2	ENSG00000139613	ENST00000267064	protein_coding	KNOWN	CCDS8907	11105	3645	1214	56557129	56583332	-1	None	BAF170, Rsc8, CRACC2
12	SMARCC2	ENSG00000139613	ENST00000549209	processed_transcript	KNOWN	None	11105	None	None	56565178	56568497	-1	None	BAF170, Rsc8, CRACC2
12	SMARCC2	ENSG00000139613	ENST00000548130	retained_intron	KNOWN	None	11105	None	None	56565661	56574910	-1	None	BAF170, Rsc8, CRACC2
12	SMARCC2	ENSG00000139613	ENST00000552931	retained_intron	KNOWN	None	11105	None	None	56566023	56568516	-1	None	BAF170, Rsc8, CRACC2
12	SMARCC2	ENSG00000139613	ENST00000552566	retained_intron	KNOWN	None	11105	None	None	56568315	56572415	-1	None	BAF170, Rsc8, CRACC2
12	SMARCC2	ENSG00000139613	ENST00000549757	retained_intron	KNOWN	None	11105	None	None	56572603	56578032	-1	None	BAF170, Rsc8, CRACC2
12	SMARCC2	ENSG00000139613	ENST00000550859	processed_transcript	KNOWN	None	11105	None	None	56575532	56583175	-1	None	BAF170, Rsc8, CRACC2
12	SMARCC2	ENSG00000139613	ENST00000550519	nonsense_mediated_decay	KNOWN	None	11105	318	105	56575532	56583327	-1	None	BAF170, Rsc8, CRACC2
12	SMARCC2	ENSG00000139613	ENST00000550150	retained_intron	KNOWN	None	11105	None	None	56577108	56583267	-1	None	BAF170, Rsc8, CRACC2
12	SMARCC2	ENSG00000139613	ENST00000552627	retained_intron	KNOWN	None	11105	None	None	56577663	56579007	-1	None	BAF170, Rsc8, CRACC2
12	SMARCC2	ENSG00000139613	ENST00000547356	retained_intron	KNOWN	None	11105	None	None	56579574	56583304	-1	None	BAF170, Rsc8, CRACC2
HSCHR6_MHC_COX	UBD	ENSG00000228913	ENST00000432676	protein_coding	KNOWN	None	18795	498	165	29519995	29524308	-1	None	FAT10
8	DCAF4L2	ENSG00000176566	ENST00000319675	protein_coding	KNOWN	CCDS6245	26657	1188	395	88882973	88886296	-1	WDR21C	None
5	PCDHA4	ENSG00000204967	ENST00000512229	protein_coding	PUTATIVE	None	8670	2706	901	140186659	140391164	1	None	CNR1, CRNR1, PCDH-ALPHA4, CNRN1
5	PCDHA4	ENSG00000204967	ENST00000530339	protein_coding	KNOWN	CCDS54916	8670	2844	947	140186773	140391929	1	None	CNR1, CRNR1, PCDH-ALPHA4, CNRN1
5	PCDHA4	ENSG00000204967	ENST00000356878	protein_coding	KNOWN	None	8670	2397	798	140186672	140189169	1	None	CNR1, CRNR1, PCDH-ALPHA4, CNRN1
16	None	ENSG00000268505	ENST00000599841	lincRNA	KNOWN	None	None	None	None	86226399	86232519	-1	None	None
11	RCN1	ENSG00000049449	ENST00000530348	protein_coding	PUTATIVE	None	9934	176	57	31833939	32122140	1	RCN	Rcal, PIG20, FLJ37041
11	RCN1	ENSG00000049449	ENST00000532942	protein_coding	PUTATIVE	None	9934	843	280	31837932	32126211	1	RCN	Rcal, PIG20, FLJ37041
11	RCN1	ENSG00000049449	ENST00000506388	processed_transcript	KNOWN	None	9934	None	None	31838114	31908589	1	RCN	Rcal, PIG20, FLJ37041
11	RCN1	ENSG00000049449	ENST00000530146	processed_transcript	KNOWN	None	9934	None	None	31907320	31939487	1	RCN	Rcal, PIG20, FLJ37041
11	RCN1	ENSG00000049449	ENST00000054950	protein_coding	KNOWN	CCDS7876	9934	996	331	32112450	32127301	1	RCN	Rcal, PIG20, FLJ37041
11	RCN1	ENSG00000049449	ENST00000532721	protein_coding	PUTATIVE	None	9934	59	18	32113156	32120004	1	RCN	Rcal, PIG20, FLJ37041
11	RCN1	ENSG00000049449	ENST00000533898	retained_intron	KNOWN	None	9934	None	None	32118080	32127082	1	RCN	Rcal, PIG20, FLJ37041
11	RCN1	ENSG00000049449	ENST00000532474	processed_transcript	KNOWN	None	9934	None	None	32122078	32126148	1	RCN	Rcal, PIG20, FLJ37041
11	RCN1	ENSG00000049449	ENST00000527337	nonsense_mediated_decay	KNOWN	None	9934	172	56	32122093	32126230	1	RCN	Rcal, PIG20, FLJ37041
11	RCN1	ENSG00000049449	ENST00000531345	retained_intron	KNOWN	None	9934	None	None	32123541	32127077	1	RCN	Rcal, PIG20, FLJ37041
11	RCN1	ENSG00000049449	ENST00000528630	protein_coding	KNOWN	None	9934	87	28	32125932	32127078	1	RCN	Rcal, PIG20, FLJ37041
16	None	ENSG00000269186	ENST00000601250	lincRNA	KNOWN	None	None	None	None	86229787	86233326	1	None	None
9	NANOGP5	ENSG00000231697	ENST00000424456	transcribed_processed_pseudogene	KNOWN	None	23103	None	None	102937460	102938336	1	None	None
22	SREBF2	ENSG00000198911	ENST00000361204	protein_coding	KNOWN	CCDS14023	11290	3426	1141	42229109	42303312	1	None	SREBP2, bHLHd2
22	SREBF2	ENSG00000198911	ENST00000424354	nonsense_mediated_decay	KNOWN	None	11290	2055	684	42229168	42303310	1	None	SREBP2, bHLHd2
22	SREBF2	ENSG00000198911	ENST00000462539	retained_intron	KNOWN	None	11290	None	None	42269693	42273400	1	None	SREBP2, bHLHd2
22	SREBF2	ENSG00000198911	ENST00000464119	retained_intron	KNOWN	None	11290	None	None	42271435	42273370	1	None	SREBP2, bHLHd2
22	SREBF2	ENSG00000198911	ENST00000491541	processed_transcript	KNOWN	None	11290	None	None	42281600	42303310	1	None	SREBP2, bHLHd2
22	SREBF2	ENSG00000198911	ENST00000463741	retained_intron	KNOWN	None	11290	None	None	42293072	42295192	1	None	SREBP2, bHLHd2
22	SREBF2	ENSG00000198911	ENST00000435061	protein_coding	NOVEL	None	11290	770	255	42294680	42300977	1	None	SREBP2, bHLHd2
22	SREBF2	ENSG00000198911	ENST00000490262	retained_intron	KNOWN	None	11290	None	None	42296087	42299007	1	None	SREBP2, bHLHd2
19	RSPH6A	ENSG00000104941	ENST00000221538	protein_coding	KNOWN	CCDS12675	14241	2154	717	46298968	46318577	-1	RSHL1	RSP4, RSP6, RSPH4B
19	RSPH6A	ENSG00000104941	ENST00000600188	protein_coding	PUTATIVE	None	14241	1362	453	46298971	46314189	-1	RSHL1	RSP4, RSP6, RSPH4B
19	RSPH6A	ENSG00000104941	ENST00000597055	protein_coding	PUTATIVE	None	14241	2031	676	46299023	46318486	-1	RSHL1	RSP4, RSP6, RSPH4B
16	None	ENSG00000270058	ENST00000602425	lincRNA	KNOWN	None	None	None	None	86255029	86256335	-1	None	None
17	None	ENSG00000264058	ENST00000476049	nonsense_mediated_decay	KNOWN	CCDS11371	None	888	295	38785049	38821393	-1	None	None
9	None	ENSG00000263475	ENST00000584776	miRNA	NOVEL	None	None	None	None	103157934	103158007	1	None	None
11	TRIM68	ENSG00000167333	ENST00000300747	protein_coding	KNOWN	CCDS31356	21161	1458	485	4619902	4629489	-1	RNF137	SS-56, FLJ10369
11	TRIM68	ENSG00000167333	ENST00000531101	nonsense_mediated_decay	KNOWN	None	21161	564	187	4620010	4629434	-1	RNF137	SS-56, FLJ10369
11	TRIM68	ENSG00000167333	ENST00000526337	protein_coding	PUTATIVE	None	21161	426	141	4621869	4629461	-1	RNF137	SS-56, FLJ10369
11	TRIM68	ENSG00000167333	ENST00000531717	retained_intron	KNOWN	None	21161	None	None	4622030	4622795	-1	RNF137	SS-56, FLJ10369
11	TRIM68	ENSG00000167333	ENST00000531644	retained_intron	KNOWN	None	21161	None	None	4622871	4629406	-1	RNF137	SS-56, FLJ10369
11	TRIM68	ENSG00000167333	ENST00000532108	retained_intron	KNOWN	None	21161	None	None	4622902	4629398	-1	RNF137	SS-56, FLJ10369
11	TRIM68	ENSG00000167333	ENST00000533021	protein_coding	NOVEL	None	21161	595	197	4623474	4629368	-1	RNF137	SS-56, FLJ10369
12	IL22	ENSG00000127318	ENST00000538666	protein_coding	KNOWN	CCDS8982	14900	540	179	68642022	68647387	-1	None	ILTIF, IL-21, zcyto18, IL-TIF, IL-D110, TIFa, TIFIL-23, IL-22, MGC79382, MGC79384
12	IL22	ENSG00000127318	ENST00000328087	protein_coding	KNOWN	CCDS8982	14900	540	179	68642025	68647281	-1	None	ILTIF, IL-21, zcyto18, IL-TIF, IL-D110, TIFa, TIFIL-23, IL-22, MGC79382, MGC79384
9	RN7SKP87	ENSG00000200966	ENST00000364096	misc_RNA	KNOWN	None	45811	None	None	103343361	103343661	-1	None	None
16	None	ENSG00000268754	ENST00000597373	lincRNA	KNOWN	None	None	None	None	86259186	86309351	-1	None	None
9	None	ENSG00000237999	ENST00000418987	processed_pseudogene	KNOWN	None	None	None	None	103493522	103494637	1	None	None
X	DUSP21	ENSG00000189037	ENST00000339042	protein_coding	KNOWN	CCDS14264	20476	573	190	44703249	44704130	1	None	None
7	ARL4A	ENSG00000122644	ENST00000396662	protein_coding	KNOWN	CCDS5359	695	603	200	12726481	12728804	1	ARL4	None
7	ARL4A	ENSG00000122644	ENST00000356797	protein_coding	KNOWN	CCDS5359	695	603	200	12726533	12728801	1	ARL4	None
7	ARL4A	ENSG00000122644	ENST00000396664	protein_coding	KNOWN	CCDS5359	695	603	200	12726533	12728801	1	ARL4	None
7	ARL4A	ENSG00000122644	ENST00000439721	protein_coding	KNOWN	None	695	152	49	12726750	12728031	1	ARL4	None
7	ARL4A	ENSG00000122644	ENST00000404894	protein_coding	KNOWN	CCDS5359	695	603	200	12727260	12728539	1	ARL4	None
7	ARL4A	ENSG00000122644	ENST00000396663	protein_coding	KNOWN	CCDS5359	695	603	200	12726961	12730559	1	ARL4	None
19	CABP5	ENSG00000105507	ENST00000293255	protein_coding	KNOWN	CCDS12709	13714	522	173	48533210	48547310	-1	CABP3	CaBP3
19	CABP5	ENSG00000105507	ENST00000602032	retained_intron	KNOWN	None	13714	None	None	48544586	48547138	-1	CABP3	CaBP3
8	MMP16	ENSG00000156103	ENST00000286614	protein_coding	KNOWN	CCDS6246	7162	1824	607	89044237	89339717	-1	C8orf57	MT3-MMP, DKFZp761D112
8	MMP16	ENSG00000156103	ENST00000544227	processed_transcript	KNOWN	None	7162	None	None	89081461	89339435	-1	C8orf57	MT3-MMP, DKFZp761D112
8	MMP16	ENSG00000156103	ENST00000522726	protein_coding	PUTATIVE	None	7162	506	167	89180152	89340254	-1	C8orf57	MT3-MMP, DKFZp761D112
8	MMP16	ENSG00000156103	ENST00000520568	retained_intron	KNOWN	None	7162	None	None	89198554	89339485	-1	C8orf57	MT3-MMP, DKFZp761D112
HSCHR6_MHC_APD	PSMB9	ENSG00000242711	ENST00000434083	protein_coding	KNOWN	None	9546	591	196	32795520	32810969	1	LMP2	RING12, beta1i, PSMB6i
HSCHR6_MHC_APD	PSMB9	ENSG00000242711	ENST00000455846	protein_coding	KNOWN	None	9546	395	130	32796220	32809821	1	LMP2	RING12, beta1i, PSMB6i
HSCHR6_MHC_APD	PSMB9	ENSG00000242711	ENST00000490282	retained_intron	KNOWN	None	9546	None	None	32805532	32810284	1	LMP2	RING12, beta1i, PSMB6i
HSCHR6_MHC_APD	PSMB9	ENSG00000242711	ENST00000427870	protein_coding	KNOWN	None	9546	660	219	32805545	32810969	1	LMP2	RING12, beta1i, PSMB6i
HSCHR6_MHC_APD	PSMB9	ENSG00000242711	ENST00000425855	protein_coding	KNOWN	None	9546	537	178	32805590	32830948	1	LMP2	RING12, beta1i, PSMB6i
HSCHR6_MHC_APD	PSMB9	ENSG00000242711	ENST00000468188	retained_intron	KNOWN	None	9546	None	None	32807481	32810106	1	LMP2	RING12, beta1i, PSMB6i
HSCHR6_MHC_SSTO	HLA-DMA	ENSG00000243215	ENST00000477208	retained_intron	KNOWN	None	4934	None	None	33006288	33007349	-1	None	D6S222E, RING6
HSCHR6_MHC_SSTO	HLA-DMA	ENSG00000243215	ENST00000383228	protein_coding	KNOWN	None	4934	501	166	33006288	33010739	-1	None	D6S222E, RING6
HSCHR6_MHC_SSTO	HLA-DMA	ENSG00000243215	ENST00000383227	protein_coding	KNOWN	None	4934	684	227	33006288	33010786	-1	None	D6S222E, RING6
HSCHR6_MHC_SSTO	HLA-DMA	ENSG00000243215	ENST00000498081	retained_intron	KNOWN	None	4934	None	None	33006288	33010786	-1	None	D6S222E, RING6
HSCHR6_MHC_SSTO	HLA-DMA	ENSG00000243215	ENST00000383230	protein_coding	KNOWN	None	4934	786	261	33006288	33010800	-1	None	D6S222E, RING6
HSCHR6_MHC_SSTO	HLA-DMA	ENSG00000243215	ENST00000466370	processed_transcript	KNOWN	None	4934	None	None	33006416	33028403	-1	None	D6S222E, RING6
HSCHR6_MHC_SSTO	HLA-DMA	ENSG00000243215	ENST00000486785	processed_transcript	KNOWN	None	4934	None	None	33006449	33026131	-1	None	D6S222E, RING6
HSCHR6_MHC_SSTO	HLA-DMA	ENSG00000243215	ENST00000412394	protein_coding	KNOWN	None	4934	724	240	33006949	33010139	-1	None	D6S222E, RING6
HSCHR6_MHC_SSTO	HLA-DMA	ENSG00000243215	ENST00000418042	protein_coding	KNOWN	None	4934	507	168	33007335	33026781	-1	None	D6S222E, RING6
HSCHR6_MHC_SSTO	HLA-DMA	ENSG00000243215	ENST00000461059	retained_intron	KNOWN	None	4934	None	None	33007762	33010712	-1	None	D6S222E, RING6
11	SPTY2D1	ENSG00000179119	ENST00000336349	protein_coding	KNOWN	CCDS31441	26818	2058	685	18627948	18656040	-1	None	FLJ39441, DKFZp686I068
11	SPTY2D1	ENSG00000179119	ENST00000536336	retained_intron	KNOWN	None	26818	None	None	18633712	18655936	-1	None	FLJ39441, DKFZp686I068
11	SPTY2D1	ENSG00000179119	ENST00000543776	processed_transcript	KNOWN	None	26818	None	None	18637320	18656338	-1	None	FLJ39441, DKFZp686I068
10	DUX4L10	ENSG00000258911	ENST00000556872	unprocessed_pseudogene	KNOWN	None	31354	None	None	135480654	135481921	1	None	DUX10
17	KRT222	ENSG00000213424	ENST00000394049	nonsense_mediated_decay	KNOWN	None	28695	177	58	38810917	38821408	-1	KRT222P	KA21, MGC45562
17	KRT222	ENSG00000213424	ENST00000394052	protein_coding	KNOWN	CCDS11371	28695	888	295	38812482	38821393	-1	KRT222P	KA21, MGC45562
17	KRT222	ENSG00000213424	ENST00000581564	nonsense_mediated_decay	KNOWN	None	28695	177	58	38813461	38821397	-1	KRT222P	KA21, MGC45562
17	KRT222	ENSG00000213424	ENST00000580719	nonsense_mediated_decay	KNOWN	None	28695	177	58	38816410	38821433	-1	KRT222P	KA21, MGC45562
HSCHR6_MHC_MCF	None	ENSG00000264847	ENST00000582577	misc_RNA	NOVEL	None	None	None	None	30978938	30979029	-1	None	None
6	KHDC3L	ENSG00000203908	ENST00000370367	protein_coding	KNOWN	CCDS34484	33699	654	217	74072400	74073894	1	C6orf221	ECAT1
HSCHR6_MHC_MCF	HCG21	ENSG00000228448	ENST00000441652	processed_transcript	KNOWN	None	31335	None	None	30992301	30992681	-1	None	AB023048.2, NCRNA00150
16	None	ENSG00000199949	ENST00000363079	misc_RNA	NOVEL	None	None	None	None	86309036	86309129	-1	None	None
16	None	ENSG00000268532	ENST00000599486	lincRNA	KNOWN	None	None	None	None	86320033	86326995	1	None	None
HSCHR6_MHC_MCF	None	ENSG00000257255	ENST00000550953	pseudogene	NOVEL	None	None	None	None	31044059	31044360	-1	None	None
3	B3GALNT1	ENSG00000169255	ENST00000320474	protein_coding	KNOWN	CCDS3193	918	996	331	160801671	160823112	-1	B3GALT3	beta3Gal-T3, galT3, P1, GLOB
3	B3GALNT1	ENSG00000169255	ENST00000392779	protein_coding	KNOWN	CCDS3193	918	996	331	160801671	160823158	-1	B3GALT3	beta3Gal-T3, galT3, P1, GLOB
3	B3GALNT1	ENSG00000169255	ENST00000392781	protein_coding	KNOWN	CCDS3193	918	996	331	160801685	160823139	-1	B3GALT3	beta3Gal-T3, galT3, P1, GLOB
3	B3GALNT1	ENSG00000169255	ENST00000473285	protein_coding	KNOWN	CCDS3193	918	996	331	160802771	160822337	-1	B3GALT3	beta3Gal-T3, galT3, P1, GLOB
3	B3GALNT1	ENSG00000169255	ENST00000417187	protein_coding	NOVEL	None	918	276	91	160802779	160818955	-1	B3GALT3	beta3Gal-T3, galT3, P1, GLOB
3	B3GALNT1	ENSG00000169255	ENST00000488170	protein_coding	KNOWN	CCDS3193	918	996	331	160803547	160822928	-1	B3GALT3	beta3Gal-T3, galT3, P1, GLOB
3	B3GALNT1	ENSG00000169255	ENST00000468268	protein_coding	KNOWN	None	918	333	110	160804210	160823091	-1	B3GALT3	beta3Gal-T3, galT3, P1, GLOB
3	B3GALNT1	ENSG00000169255	ENST00000492353	protein_coding	KNOWN	None	918	196	64	160804347	160823077	-1	B3GALT3	beta3Gal-T3, galT3, P1, GLOB
3	B3GALNT1	ENSG00000169255	ENST00000473142	protein_coding	KNOWN	None	918	176	57	160804367	160823086	-1	B3GALT3	beta3Gal-T3, galT3, P1, GLOB
3	B3GALNT1	ENSG00000169255	ENST00000498216	protein_coding	KNOWN	None	918	162	53	160804381	160822738	-1	B3GALT3	beta3Gal-T3, galT3, P1, GLOB
3	B3GALNT1	ENSG00000169255	ENST00000484127	protein_coding	KNOWN	None	918	124	40	160804419	160823049	-1	B3GALT3	beta3Gal-T3, galT3, P1, GLOB
3	B3GALNT1	ENSG00000169255	ENST00000460353	protein_coding	PUTATIVE	None	918	451	149	160804452	160823091	-1	B3GALT3	beta3Gal-T3, galT3, P1, GLOB
3	B3GALNT1	ENSG00000169255	ENST00000494173	protein_coding	KNOWN	None	918	89	28	160804454	160823172	-1	B3GALT3	beta3Gal-T3, galT3, P1, GLOB
3	B3GALNT1	ENSG00000169255	ENST00000496295	processed_transcript	KNOWN	None	918	None	None	160804558	160823172	-1	B3GALT3	beta3Gal-T3, galT3, P1, GLOB
3	B3GALNT1	ENSG00000169255	ENST00000476999	processed_transcript	KNOWN	None	918	None	None	160807793	160823172	-1	B3GALT3	beta3Gal-T3, galT3, P1, GLOB
3	B3GALNT1	ENSG00000169255	ENST00000478383	processed_transcript	KNOWN	None	918	None	None	160807827	160823055	-1	B3GALT3	beta3Gal-T3, galT3, P1, GLOB
3	B3GALNT1	ENSG00000169255	ENST00000494818	processed_transcript	KNOWN	None	918	None	None	160818952	160823093	-1	B3GALT3	beta3Gal-T3, galT3, P1, GLOB
3	B3GALNT1	ENSG00000169255	ENST00000497487	processed_transcript	KNOWN	None	918	None	None	160820930	160823033	-1	B3GALT3	beta3Gal-T3, galT3, P1, GLOB
3	B3GALNT1	ENSG00000169255	ENST00000392780	protein_coding	KNOWN	CCDS3193	918	996	331	160801671	160823160	-1	B3GALT3	beta3Gal-T3, galT3, P1, GLOB
HSCHR6_MHC_MCF	None	ENSG00000227132	ENST00000431875	processed_transcript	PUTATIVE	None	None	None	None	31076239	31081035	1	None	None
17	DNAJC7	ENSG00000168259	ENST00000457167	protein_coding	KNOWN	CCDS45677	12392	1485	494	40128451	40169671	-1	TTC2	TPR2
17	DNAJC7	ENSG00000168259	ENST00000587727	protein_coding	NOVEL	None	12392	168	55	40128470	40134339	-1	TTC2	TPR2
17	DNAJC7	ENSG00000168259	ENST00000426588	protein_coding	KNOWN	CCDS45678	12392	1317	438	40128497	40169169	-1	TTC2	TPR2
17	DNAJC7	ENSG00000168259	ENST00000588814	nonsense_mediated_decay	KNOWN	None	12392	414	137	40128559	40169437	-1	TTC2	TPR2
17	DNAJC7	ENSG00000168259	ENST00000316603	protein_coding	KNOWN	CCDS45678	12392	1317	438	40128682	40169437	-1	TTC2	TPR2
17	DNAJC7	ENSG00000168259	ENST00000585693	retained_intron	KNOWN	None	12392	None	None	40133613	40134421	-1	TTC2	TPR2
17	DNAJC7	ENSG00000168259	ENST00000586335	nonsense_mediated_decay	KNOWN	None	12392	268	88	40134002	40140891	-1	TTC2	TPR2
17	DNAJC7	ENSG00000168259	ENST00000590197	retained_intron	KNOWN	None	12392	None	None	40136324	40138085	-1	TTC2	TPR2
17	DNAJC7	ENSG00000168259	ENST00000590847	retained_intron	KNOWN	None	12392	None	None	40139455	40140840	-1	TTC2	TPR2
17	DNAJC7	ENSG00000168259	ENST00000589810	nonsense_mediated_decay	KNOWN	None	12392	762	253	40139695	40169169	-1	TTC2	TPR2
17	DNAJC7	ENSG00000168259	ENST00000588641	protein_coding	NOVEL	None	12392	775	257	40140779	40169441	-1	TTC2	TPR2
17	DNAJC7	ENSG00000168259	ENST00000590348	protein_coding	PUTATIVE	None	12392	785	260	40140844	40170540	-1	TTC2	TPR2
17	DNAJC7	ENSG00000168259	ENST00000591153	processed_transcript	KNOWN	None	12392	None	None	40141439	40144800	-1	TTC2	TPR2
17	DNAJC7	ENSG00000168259	ENST00000589576	protein_coding	KNOWN	None	12392	384	127	40142329	40169180	-1	TTC2	TPR2
17	DNAJC7	ENSG00000168259	ENST00000590774	protein_coding	KNOWN	None	12392	341	112	40142372	40168716	-1	TTC2	TPR2
17	DNAJC7	ENSG00000168259	ENST00000589586	protein_coding	KNOWN	None	12392	312	103	40146888	40169163	-1	TTC2	TPR2
17	DNAJC7	ENSG00000168259	ENST00000585866	nonsense_mediated_decay	KNOWN	None	12392	120	39	40146888	40169441	-1	TTC2	TPR2
17	DNAJC7	ENSG00000168259	ENST00000589773	protein_coding	KNOWN	None	12392	307	101	40146893	40170536	-1	TTC2	TPR2
17	DNAJC7	ENSG00000168259	ENST00000590886	protein_coding	KNOWN	None	12392	227	74	40148339	40163293	-1	TTC2	TPR2
17	DNAJC7	ENSG00000168259	ENST00000591787	protein_coding	KNOWN	None	12392	222	73	40148344	40173394	-1	TTC2	TPR2
17	DNAJC7	ENSG00000168259	ENST00000589547	processed_transcript	KNOWN	None	12392	None	None	40152575	40169020	-1	TTC2	TPR2
17	DNAJC7	ENSG00000168259	ENST00000587380	retained_intron	KNOWN	None	12392	None	None	40165000	40166955	-1	TTC2	TPR2
17	DNAJC7	ENSG00000168259	ENST00000586240	retained_intron	KNOWN	None	12392	None	None	40166608	40169171	-1	TTC2	TPR2
HSCHR6_MHC_MCF	HCG22	ENSG00000225629	ENST00000425531	processed_transcript	KNOWN	None	27780	None	None	31100520	31106180	1	None	FLJ37114, PBMUCL2
18	TRAPPC8	ENSG00000153339	ENST00000283351	protein_coding	KNOWN	CCDS11901	29169	4308	1435	29409136	29523063	-1	KIAA1012	HsT2706, TRS85, GSG1
18	TRAPPC8	ENSG00000153339	ENST00000580104	nonsense_mediated_decay	KNOWN	None	29169	2781	926	29409901	29523099	-1	KIAA1012	HsT2706, TRS85, GSG1
18	TRAPPC8	ENSG00000153339	ENST00000582509	processed_transcript	KNOWN	None	29169	None	None	29410461	29413369	-1	KIAA1012	HsT2706, TRS85, GSG1
18	TRAPPC8	ENSG00000153339	ENST00000582539	protein_coding	PUTATIVE	None	29169	4146	1381	29410553	29522989	-1	KIAA1012	HsT2706, TRS85, GSG1
18	TRAPPC8	ENSG00000153339	ENST00000581057	protein_coding	PUTATIVE	None	29169	291	96	29410561	29419423	-1	KIAA1012	HsT2706, TRS85, GSG1
18	TRAPPC8	ENSG00000153339	ENST00000584604	retained_intron	KNOWN	None	29169	None	None	29410884	29412558	-1	KIAA1012	HsT2706, TRS85, GSG1
18	TRAPPC8	ENSG00000153339	ENST00000578886	retained_intron	KNOWN	None	29169	None	None	29426714	29432835	-1	KIAA1012	HsT2706, TRS85, GSG1
18	TRAPPC8	ENSG00000153339	ENST00000578252	retained_intron	KNOWN	None	29169	None	None	29449977	29450986	-1	KIAA1012	HsT2706, TRS85, GSG1
18	TRAPPC8	ENSG00000153339	ENST00000577474	protein_coding	PUTATIVE	None	29169	464	153	29451029	29471170	-1	KIAA1012	HsT2706, TRS85, GSG1
18	TRAPPC8	ENSG00000153339	ENST00000582513	protein_coding	PUTATIVE	None	29169	2001	666	29453533	29523069	-1	KIAA1012	HsT2706, TRS85, GSG1
18	TRAPPC8	ENSG00000153339	ENST00000578658	protein_coding	PUTATIVE	None	29169	563	186	29493465	29519425	-1	KIAA1012	HsT2706, TRS85, GSG1
18	TRAPPC8	ENSG00000153339	ENST00000584876	processed_transcript	KNOWN	None	29169	None	None	29506431	29522952	-1	KIAA1012	HsT2706, TRS85, GSG1
18	TRAPPC8	ENSG00000153339	ENST00000577426	processed_transcript	KNOWN	None	29169	None	None	29519358	29533099	-1	KIAA1012	HsT2706, TRS85, GSG1
21	C21orf88	ENSG00000184809	ENST00000489821	processed_transcript	KNOWN	None	16424	None	None	40969074	40971583	-1	None	None
21	C21orf88	ENSG00000184809	ENST00000380612	protein_coding	PUTATIVE	None	16424	438	145	40969074	40984368	-1	None	None
21	C21orf88	ENSG00000184809	ENST00000380604	protein_coding	PUTATIVE	None	16424	195	64	40977526	40984368	-1	None	None
21	C21orf88	ENSG00000184809	ENST00000329618	protein_coding	PUTATIVE	None	16424	270	89	40977526	40984748	-1	None	None
9	None	ENSG00000229019	ENST00000434656	sense_intronic	KNOWN	None	None	None	None	71041759	71044285	1	None	None
7	OCM2	ENSG00000135175	ENST00000257627	protein_coding	KNOWN	CCDS5653	34396	330	109	97613996	97619508	-1	None	None
7	OCM2	ENSG00000135175	ENST00000473987	processed_transcript	KNOWN	None	34396	None	None	97616359	97620481	-1	None	None
9	None	ENSG00000226337	ENST00000413269	lincRNA	KNOWN	None	None	None	None	71155952	71248176	1	None	None
1	FMO4	ENSG00000076258	ENST00000497228	processed_transcript	KNOWN	None	3772	None	None	171283347	171292331	1	FMO2	None
1	FMO4	ENSG00000076258	ENST00000475780	processed_transcript	KNOWN	None	3772	None	None	171283373	171306562	1	FMO2	None
1	FMO4	ENSG00000076258	ENST00000367749	protein_coding	KNOWN	CCDS1295	3772	1677	558	171283373	171311223	1	FMO2	None
1	FMO4	ENSG00000076258	ENST00000462992	processed_transcript	KNOWN	None	3772	None	None	171292245	171302286	1	FMO2	None
1	FMO4	ENSG00000076258	ENST00000480136	processed_transcript	KNOWN	None	3772	None	None	171303665	171311223	1	FMO2	None
14	TRAJ6	ENSG00000211883	ENST00000390531	TR_J_gene	KNOWN	None	12092	62	19	23008016	23008077	1	None	None
5	None	ENSG00000249287	ENST00000512672	processed_pseudogene	KNOWN	None	None	None	None	180394189	180397762	-1	None	None
HSCHR6_MHC_MCF	None	ENSG00000263474	ENST00000585053	snRNA	NOVEL	None	None	None	None	31129315	31129414	1	None	None
5	None	ENSG00000248761	ENST00000505889	processed_pseudogene	KNOWN	None	None	None	None	180394848	180395567	1	None	None
19	None	ENSG00000268144	ENST00000598115	processed_pseudogene	KNOWN	None	None	None	None	51900009	51906780	-1	None	None
HSCHR6_MHC_MCF	None	ENSG00000257326	ENST00000552518	pseudogene	NOVEL	None	None	None	None	31168918	31169087	-1	None	None
16	None	ENSG00000262187	ENST00000574375	unprocessed_pseudogene	KNOWN	None	None	None	None	32630054	32630173	1	None	None
HSCHR6_MHC_MCF	None	ENSG00000257263	ENST00000546646	pseudogene	NOVEL	None	None	None	None	31176745	31177007	1	None	None
17	EPN2	ENSG00000072134	ENST00000582015	protein_coding	KNOWN	None	18639	98	31	19118928	19186530	1	None	KIAA1065, EHB21
17	EPN2	ENSG00000072134	ENST00000399085	retained_intron	KNOWN	None	18639	None	None	19119114	19125840	1	None	KIAA1065, EHB21
17	EPN2	ENSG00000072134	ENST00000399086	retained_intron	KNOWN	None	18639	None	None	19122455	19123786	1	None	KIAA1065, EHB21
17	EPN2	ENSG00000072134	ENST00000584707	protein_coding	KNOWN	None	18639	119	38	19124761	19186551	1	None	KIAA1065, EHB21
17	EPN2	ENSG00000072134	ENST00000584633	protein_coding	KNOWN	None	18639	227	74	19140389	19186659	1	None	KIAA1065, EHB21
17	EPN2	ENSG00000072134	ENST00000441293	processed_transcript	KNOWN	None	18639	None	None	19140401	19177701	1	None	KIAA1065, EHB21
17	EPN2	ENSG00000072134	ENST00000314728	protein_coding	KNOWN	CCDS11203	18639	1926	641	19140654	19240028	1	None	KIAA1065, EHB21
17	EPN2	ENSG00000072134	ENST00000582659	processed_transcript	KNOWN	None	18639	None	None	19140709	19177631	1	None	KIAA1065, EHB21
17	EPN2	ENSG00000072134	ENST00000583197	protein_coding	KNOWN	None	18639	66	21	19140709	19186498	1	None	KIAA1065, EHB21
17	EPN2	ENSG00000072134	ENST00000577692	protein_coding	KNOWN	None	18639	285	94	19140709	19186717	1	None	KIAA1065, EHB21
17	EPN2	ENSG00000072134	ENST00000580579	nonsense_mediated_decay	KNOWN	None	18639	111	36	19140709	19232075	1	None	KIAA1065, EHB21
17	EPN2	ENSG00000072134	ENST00000395618	protein_coding	KNOWN	CCDS42277	18639	1071	356	19140709	19238487	1	None	KIAA1065, EHB21
17	EPN2	ENSG00000072134	ENST00000395628	protein_coding	NOVEL	None	18639	1229	408	19140710	19232949	1	None	KIAA1065, EHB21
17	EPN2	ENSG00000072134	ENST00000582234	processed_transcript	KNOWN	None	18639	None	None	19140729	19186404	1	None	KIAA1065, EHB21
17	EPN2	ENSG00000072134	ENST00000494192	protein_coding	NOVEL	None	18639	754	250	19140729	19235381	1	None	KIAA1065, EHB21
17	EPN2	ENSG00000072134	ENST00000575595	protein_coding	NOVEL	None	18639	1050	349	19140729	19237803	1	None	KIAA1065, EHB21
17	EPN2	ENSG00000072134	ENST00000581024	protein_coding	KNOWN	None	18639	114	37	19140732	19186546	1	None	KIAA1065, EHB21
17	EPN2	ENSG00000072134	ENST00000577244	processed_transcript	KNOWN	None	18639	None	None	19140742	19186318	1	None	KIAA1065, EHB21
17	EPN2	ENSG00000072134	ENST00000582969	processed_transcript	KNOWN	None	18639	None	None	19140810	19186413	1	None	KIAA1065, EHB21
17	EPN2	ENSG00000072134	ENST00000584150	protein_coding	KNOWN	None	18639	61	19	19151707	19186493	1	None	KIAA1065, EHB21
17	EPN2	ENSG00000072134	ENST00000577195	protein_coding	KNOWN	None	18639	187	61	19161233	19186619	1	None	KIAA1065, EHB21
17	EPN2	ENSG00000072134	ENST00000495155	retained_intron	KNOWN	None	18639	None	None	19185268	19217047	1	None	KIAA1065, EHB21
17	EPN2	ENSG00000072134	ENST00000395620	protein_coding	KNOWN	CCDS11204	18639	1755	584	19185268	19238507	1	None	KIAA1065, EHB21
17	EPN2	ENSG00000072134	ENST00000395626	protein_coding	PUTATIVE	None	18639	1455	484	19186292	19240028	1	None	KIAA1065, EHB21
17	EPN2	ENSG00000072134	ENST00000571254	protein_coding	NOVEL	None	18639	1734	577	19186360	19237643	1	None	KIAA1065, EHB21
17	EPN2	ENSG00000072134	ENST00000572627	processed_transcript	KNOWN	None	18639	None	None	19213287	19233989	1	None	KIAA1065, EHB21
17	EPN2	ENSG00000072134	ENST00000585097	processed_transcript	KNOWN	None	18639	None	None	19216225	19235286	1	None	KIAA1065, EHB21
17	EPN2	ENSG00000072134	ENST00000584954	retained_intron	KNOWN	None	18639	None	None	19232395	19232929	1	None	KIAA1065, EHB21
17	EPN2	ENSG00000072134	ENST00000347697	protein_coding	KNOWN	CCDS11204	18639	1755	584	19140690	19240028	1	None	KIAA1065, EHB21
6	RNF144B	ENSG00000137393	ENST00000259939	protein_coding	KNOWN	CCDS34345	21578	912	303	18387581	18469105	1	IBRDC2	bA528A10.3
6	RNF144B	ENSG00000137393	ENST00000486622	processed_transcript	KNOWN	None	21578	None	None	18387745	18402326	1	IBRDC2	bA528A10.3
6	RNF144B	ENSG00000137393	ENST00000429054	protein_coding	KNOWN	None	21578	645	214	18368779	18465445	1	IBRDC2	bA528A10.3
7	None	ENSG00000214684	ENST00000398779	processed_pseudogene	KNOWN	None	None	None	None	117080036	117080834	-1	None	None
5	None	ENSG00000231228	ENST00000511402	processed_pseudogene	KNOWN	None	None	None	None	180409273	180409611	1	None	None
5	None	ENSG00000231228	ENST00000543298	processed_pseudogene	KNOWN	None	None	None	None	180409243	180409611	1	None	None
4	None	ENSG00000249531	ENST00000509466	processed_pseudogene	KNOWN	None	None	None	None	69166043	69168177	1	None	None
16	CASC16	ENSG00000249231	ENST00000565755	lincRNA	KNOWN	None	48608	None	None	52586002	52588091	-1	LINC00918	None
16	CASC16	ENSG00000249231	ENST00000510238	lincRNA	KNOWN	None	48608	None	None	52586005	52640847	-1	LINC00918	None
16	CASC16	ENSG00000249231	ENST00000563844	lincRNA	KNOWN	None	48608	None	None	52607091	52686017	-1	LINC00918	None
7	None	ENSG00000237974	ENST00000433478	processed_pseudogene	KNOWN	None	None	None	None	117127791	117127983	1	None	None
10	FRA10AC1	ENSG00000148690	ENST00000359204	protein_coding	KNOWN	CCDS7430	1162	948	315	95427640	95462329	-1	C10orf4	None
10	FRA10AC1	ENSG00000148690	ENST00000460752	processed_transcript	KNOWN	None	1162	None	None	95429381	95435061	-1	C10orf4	None
10	FRA10AC1	ENSG00000148690	ENST00000483229	processed_transcript	KNOWN	None	1162	None	None	95429436	95431848	-1	C10orf4	None
10	FRA10AC1	ENSG00000148690	ENST00000462771	processed_transcript	KNOWN	None	1162	None	None	95430532	95432788	-1	C10orf4	None
10	FRA10AC1	ENSG00000148690	ENST00000472153	processed_transcript	KNOWN	None	1162	None	None	95443812	95445220	-1	C10orf4	None
10	FRA10AC1	ENSG00000148690	ENST00000482719	processed_transcript	KNOWN	None	1162	None	None	95445010	95447698	-1	C10orf4	None
10	FRA10AC1	ENSG00000148690	ENST00000371430	protein_coding	KNOWN	None	1162	942	313	95431811	95462329	-1	C10orf4	None
10	FRA10AC1	ENSG00000148690	ENST00000536233	protein_coding	KNOWN	None	1162	831	276	95429381	95462325	-1	C10orf4	None
10	FRA10AC1	ENSG00000148690	ENST00000394100	protein_coding	KNOWN	None	1162	879	292	95433514	95462329	-1	C10orf4	None
7	None	ENSG00000232661	ENST00000441019	antisense	KNOWN	None	None	None	None	117200787	117204730	-1	None	None
4	None	ENSG00000250547	ENST00000509840	processed_pseudogene	KNOWN	None	None	None	None	164186727	164187735	-1	None	None
4	APOOP4	ENSG00000248122	ENST00000513530	processed_pseudogene	KNOWN	None	48742	None	None	69170061	69170657	-1	None	None
7	None	ENSG00000234001	ENST00000448200	processed_pseudogene	KNOWN	None	None	None	None	117226261	117226470	-1	None	None
4	RPL35AP12	ENSG00000227283	ENST00000425362	processed_pseudogene	KNOWN	None	36068	None	None	164303331	164303668	1	None	None
7	None	ENSG00000083622	ENST00000456270	antisense	KNOWN	None	None	None	None	117244845	117287469	-1	None	None
4	MT2P1	ENSG00000162840	ENST00000262499	processed_pseudogene	KNOWN	None	7407	None	None	69242041	69242223	1	None	None
4	MT2P1	ENSG00000162840	ENST00000294916	processed_pseudogene	KNOWN	None	7407	None	None	69242041	69242226	1	None	None
4	None	ENSG00000264535	ENST00000577895	miRNA	NOVEL	None	None	None	None	164444444	164444538	1	None	None
12	NXPH4	ENSG00000182379	ENST00000349394	protein_coding	KNOWN	CCDS8933	8078	927	308	57610578	57620232	1	None	NPH4
12	NXPH4	ENSG00000182379	ENST00000556415	nonsense_mediated_decay	KNOWN	None	8078	111	36	57610612	57620231	1	None	NPH4
12	NXPH4	ENSG00000182379	ENST00000555154	processed_transcript	PUTATIVE	None	8078	None	None	57613652	57619202	1	None	NPH4
4	UGT2B29P	ENSG00000250566	ENST00000509021	unprocessed_pseudogene	KNOWN	None	12552	None	None	69375159	69383365	-1	None	None
16	None	ENSG00000260963	ENST00000565153	lincRNA	KNOWN	None	None	None	None	52641261	52647806	1	None	None
16	None	ENSG00000260963	ENST00000564361	lincRNA	KNOWN	None	None	None	None	52641385	52644971	1	None	None
16	None	ENSG00000260963	ENST00000566645	lincRNA	KNOWN	None	None	None	None	52646367	52647820	1	None	None
6	MUT	ENSG00000146085	ENST00000274813	protein_coding	KNOWN	CCDS4924	7526	2253	750	49398073	49430904	-1	None	None
21	IGSF5	ENSG00000183067	ENST00000380588	protein_coding	NOVEL	CCDS33562	5952	1224	407	41117334	41174023	1	None	JAM4
21	IGSF5	ENSG00000183067	ENST00000479378	processed_transcript	KNOWN	None	5952	None	None	41123099	41160115	1	None	JAM4
21	IGSF5	ENSG00000183067	ENST00000459922	retained_intron	KNOWN	None	5952	None	None	41163557	41173362	1	None	JAM4
7	RARRES2	ENSG00000106538	ENST00000478771	retained_intron	KNOWN	None	9868	None	None	150035408	150038749	-1	None	TIG2, HP10433
7	RARRES2	ENSG00000106538	ENST00000223271	protein_coding	KNOWN	CCDS5902	9868	492	163	150035408	150038763	-1	None	TIG2, HP10433
7	RARRES2	ENSG00000106538	ENST00000467793	protein_coding	PUTATIVE	None	9868	478	158	150035426	150038751	-1	None	TIG2, HP10433
7	RARRES2	ENSG00000106538	ENST00000466675	protein_coding	KNOWN	CCDS5902	9868	492	163	150035447	150038732	-1	None	TIG2, HP10433
7	RARRES2	ENSG00000106538	ENST00000482669	protein_coding	KNOWN	CCDS5902	9868	492	163	150035714	150038749	-1	None	TIG2, HP10433
4	None	ENSG00000249472	ENST00000513659	processed_pseudogene	KNOWN	None	None	None	None	69480137	69480731	1	None	None
19	None	ENSG00000271109	ENST00000603718	lincRNA	KNOWN	None	None	None	None	35340182	35351194	-1	None	None
19	None	ENSG00000271109	ENST00000604749	lincRNA	KNOWN	None	None	None	None	35341532	35351480	-1	None	None
6	None	ENSG00000227455	ENST00000456118	lincRNA	KNOWN	None	None	None	None	165241239	165243106	1	None	None
6	None	ENSG00000227455	ENST00000605741	lincRNA	KNOWN	None	None	None	None	165241239	165245119	1	None	None
3	WNT7A	ENSG00000154764	ENST00000285018	protein_coding	KNOWN	CCDS2616	12786	1050	349	13857755	13921618	-1	None	None
3	WNT7A	ENSG00000154764	ENST00000489346	processed_transcript	PUTATIVE	None	12786	None	None	13905165	13916610	-1	None	None
3	WNT7A	ENSG00000154764	ENST00000497808	processed_transcript	PUTATIVE	None	12786	None	None	13916443	13918717	-1	None	None
1	SASS6	ENSG00000156876	ENST00000287482	protein_coding	KNOWN	CCDS764	25403	1974	657	100549119	100598511	-1	None	DKFZp761A078, SAS-6, FLJ22097, SAS6
1	SASS6	ENSG00000156876	ENST00000462159	processed_transcript	KNOWN	None	25403	None	None	100549119	100598511	-1	None	DKFZp761A078, SAS-6, FLJ22097, SAS6
1	SASS6	ENSG00000156876	ENST00000535161	protein_coding	KNOWN	None	25403	1473	490	100550677	100598444	-1	None	DKFZp761A078, SAS-6, FLJ22097, SAS6
19	None	ENSG00000213084	ENST00000392228	pseudogene	NOVEL	None	None	None	None	35343055	35343524	1	None	None
6	None	ENSG00000217878	ENST00000407696	processed_pseudogene	KNOWN	None	None	None	None	165530684	165531013	-1	None	None
16	LINC00917	ENSG00000168367	ENST00000600892	lincRNA	KNOWN	None	48607	None	None	86365450	86371162	-1	None	None
16	LINC00917	ENSG00000168367	ENST00000594203	lincRNA	KNOWN	None	48607	None	None	86365450	86379250	-1	None	None
16	LINC00917	ENSG00000168367	ENST00000601556	lincRNA	KNOWN	None	48607	None	None	86365456	86379285	-1	None	None
16	LINC00917	ENSG00000168367	ENST00000595169	lincRNA	KNOWN	None	48607	None	None	86371601	86383245	-1	None	None
16	LINC00917	ENSG00000168367	ENST00000599619	lincRNA	KNOWN	None	48607	None	None	86371740	86383289	-1	None	None
16	LINC00917	ENSG00000168367	ENST00000599664	lincRNA	KNOWN	None	48607	None	None	86371855	86383289	-1	None	None
16	LINC00917	ENSG00000168367	ENST00000598994	lincRNA	KNOWN	None	48607	None	None	86372056	86383286	-1	None	None
16	LINC00917	ENSG00000168367	ENST00000304488	lincRNA	KNOWN	None	48607	None	None	86369374	86379285	-1	None	None
HSCHR6_MHC_DBB	SLC39A7	ENSG00000229802	ENST00000454420	protein_coding	KNOWN	None	4927	662	219	33146132	33148379	1	HKE4	H2-KE4, D6S2244E, KE4, RING5, ZIP7
HSCHR6_MHC_DBB	SLC39A7	ENSG00000229802	ENST00000416369	protein_coding	KNOWN	None	4927	1410	469	33146513	33150126	1	HKE4	H2-KE4, D6S2244E, KE4, RING5, ZIP7
HSCHR6_MHC_DBB	SLC39A7	ENSG00000229802	ENST00000441854	protein_coding	KNOWN	None	4927	1410	469	33146560	33150126	1	HKE4	H2-KE4, D6S2244E, KE4, RING5, ZIP7
HSCHR6_MHC_DBB	SLC39A7	ENSG00000229802	ENST00000477713	processed_transcript	PUTATIVE	None	4927	None	None	33146612	33150126	1	HKE4	H2-KE4, D6S2244E, KE4, RING5, ZIP7
HSCHR6_MHC_DBB	SLC39A7	ENSG00000229802	ENST00000497713	processed_transcript	PUTATIVE	None	4927	None	None	33146933	33150126	1	HKE4	H2-KE4, D6S2244E, KE4, RING5, ZIP7
HSCHR6_MHC_DBB	SLC39A7	ENSG00000229802	ENST00000486222	processed_transcript	PUTATIVE	None	4927	None	None	33147942	33150126	1	HKE4	H2-KE4, D6S2244E, KE4, RING5, ZIP7
6	RNA5SP226	ENSG00000199523	ENST00000362653	rRNA	KNOWN	None	43126	None	None	165823051	165823165	1	RN5S226	None
16	None	ENSG00000261111	ENST00000564327	processed_pseudogene	KNOWN	None	None	None	None	32646994	32647366	-1	None	None
3	None	ENSG00000183657	ENST00000331659	protein_coding	KNOWN	None	None	459	152	171509580	171527714	-1	None	None
6	RNU6-730P	ENSG00000206681	ENST00000383954	snRNA	KNOWN	None	47693	None	None	166131723	166131826	-1	None	None
19	None	ENSG00000270624	ENST00000605481	processed_pseudogene	KNOWN	None	None	None	None	35357256	35357823	1	None	None
16	None	ENSG00000260393	ENST00000565771	lincRNA	KNOWN	None	None	None	None	52641674	52642070	-1	None	None
HSCHR6_MHC_COX	OR2H2	ENSG00000229185	ENST00000439874	protein_coding	KNOWN	None	8253	939	312	29552288	29553350	1	None	hs6M1-12
5	RNU6-1036P	ENSG00000206686	ENST00000383959	snRNA	KNOWN	None	47999	None	None	180434281	180434384	1	None	None
5	None	ENSG00000241870	ENST00000468453	processed_pseudogene	KNOWN	None	None	None	None	180492086	180492677	1	None	None
6	RAET1G	ENSG00000203722	ENST00000367360	protein_coding	KNOWN	CCDS43514	16795	1005	334	150238014	150244214	-1	None	ULBP5
6	RAET1G	ENSG00000203722	ENST00000367361	nonsense_mediated_decay	KNOWN	None	16795	642	213	150238049	150244146	-1	None	ULBP5
6	RAET1G	ENSG00000203722	ENST00000479265	protein_coding	PUTATIVE	None	16795	666	221	150239843	150244257	-1	None	ULBP5
16	None	ENSG00000261261	ENST00000565229	lincRNA	KNOWN	None	None	None	None	52656027	52663270	1	None	None
16	None	ENSG00000261261	ENST00000564331	lincRNA	KNOWN	None	None	None	None	52656754	52665000	1	None	None
16	None	ENSG00000261569	ENST00000568972	lincRNA	KNOWN	None	None	None	None	32660514	32661722	1	None	None
16	None	ENSG00000261569	ENST00000565347	lincRNA	KNOWN	None	None	None	None	32661463	32675277	1	None	None
1	EXOSC10	ENSG00000171824	ENST00000304457	protein_coding	KNOWN	CCDS126	9138	2583	860	11126675	11159926	-1	PMSCL2	PM-Scl, PM/Scl-100, Rrp6p, RRP6, p2, p3, p4
1	EXOSC10	ENSG00000171824	ENST00000376936	protein_coding	KNOWN	CCDS30584	9138	2658	885	11126675	11159938	-1	PMSCL2	PM-Scl, PM/Scl-100, Rrp6p, RRP6, p2, p3, p4
1	EXOSC10	ENSG00000171824	ENST00000474216	retained_intron	KNOWN	None	9138	None	None	11126678	11141274	-1	PMSCL2	PM-Scl, PM/Scl-100, Rrp6p, RRP6, p2, p3, p4
1	EXOSC10	ENSG00000171824	ENST00000490565	retained_intron	KNOWN	None	9138	None	None	11126742	11128981	-1	PMSCL2	PM-Scl, PM/Scl-100, Rrp6p, RRP6, p2, p3, p4
1	EXOSC10	ENSG00000171824	ENST00000469634	retained_intron	KNOWN	None	9138	None	None	11128702	11133083	-1	PMSCL2	PM-Scl, PM/Scl-100, Rrp6p, RRP6, p2, p3, p4
1	EXOSC10	ENSG00000171824	ENST00000478271	retained_intron	KNOWN	None	9138	None	None	11128711	11132452	-1	PMSCL2	PM-Scl, PM/Scl-100, Rrp6p, RRP6, p2, p3, p4
1	EXOSC10	ENSG00000171824	ENST00000470611	processed_transcript	KNOWN	None	9138	None	None	11134345	11139857	-1	PMSCL2	PM-Scl, PM/Scl-100, Rrp6p, RRP6, p2, p3, p4
1	EXOSC10	ENSG00000171824	ENST00000498576	retained_intron	KNOWN	None	9138	None	None	11137066	11137708	-1	PMSCL2	PM-Scl, PM/Scl-100, Rrp6p, RRP6, p2, p3, p4
1	EXOSC10	ENSG00000171824	ENST00000472078	retained_intron	KNOWN	None	9138	None	None	11139827	11140914	-1	PMSCL2	PM-Scl, PM/Scl-100, Rrp6p, RRP6, p2, p3, p4
1	EXOSC10	ENSG00000171824	ENST00000485606	processed_transcript	KNOWN	None	9138	None	None	11140758	11142680	-1	PMSCL2	PM-Scl, PM/Scl-100, Rrp6p, RRP6, p2, p3, p4
1	EXOSC10	ENSG00000171824	ENST00000460196	nonsense_mediated_decay	KNOWN	None	9138	375	124	11151560	11159911	-1	PMSCL2	PM-Scl, PM/Scl-100, Rrp6p, RRP6, p2, p3, p4
1	EXOSC10	ENSG00000171824	ENST00000544779	protein_coding	KNOWN	None	9138	2040	679	11126678	11159894	-1	PMSCL2	PM-Scl, PM/Scl-100, Rrp6p, RRP6, p2, p3, p4
6	RPS4XP9	ENSG00000217404	ENST00000405151	processed_pseudogene	KNOWN	None	35792	None	None	127004181	127004992	1	RPS4P9	None
HSCHR6_MHC_COX	ATF6B	ENSG00000234539	ENST00000427136	protein_coding	KNOWN	None	2349	2112	703	32031499	32044473	-1	CREBL1	G13
HSCHR6_MHC_COX	ATF6B	ENSG00000234539	ENST00000439240	protein_coding	KNOWN	None	2349	2103	700	32031499	32044486	-1	CREBL1	G13
HSCHR6_MHC_COX	ATF6B	ENSG00000234539	ENST00000417614	protein_coding	KNOWN	None	2349	425	140	32032943	32034126	-1	CREBL1	G13
HSCHR6_MHC_COX	ATF6B	ENSG00000234539	ENST00000477445	retained_intron	KNOWN	None	2349	None	None	32035012	32036254	-1	CREBL1	G13
HSCHR6_MHC_COX	ATF6B	ENSG00000234539	ENST00000465605	retained_intron	KNOWN	None	2349	None	None	32035066	32036655	-1	CREBL1	G13
HSCHR6_MHC_COX	ATF6B	ENSG00000234539	ENST00000498564	retained_intron	KNOWN	None	2349	None	None	32036677	32044455	-1	CREBL1	G13
HSCHR6_MHC_COX	ATF6B	ENSG00000234539	ENST00000477295	retained_intron	KNOWN	None	2349	None	None	32036744	32044000	-1	CREBL1	G13
HSCHR6_MHC_COX	ATF6B	ENSG00000234539	ENST00000475964	processed_transcript	KNOWN	None	2349	None	None	32042275	32044451	-1	CREBL1	G13
HSCHR6_MHC_COX	ATF6B	ENSG00000234539	ENST00000549095	protein_coding	KNOWN	None	2349	669	222	32014365	32044444	-1	CREBL1	G13
11	RPS3	ENSG00000149273	ENST00000531188	protein_coding	KNOWN	CCDS8236	10420	732	243	75110530	75117957	1	None	FLJ26283, FLJ27450, MGC87870, S3
11	RPS3	ENSG00000149273	ENST00000529173	retained_intron	KNOWN	None	10420	None	None	75110559	75115899	1	None	FLJ26283, FLJ27450, MGC87870, S3
11	RPS3	ENSG00000149273	ENST00000528439	nonsense_mediated_decay	KNOWN	None	10420	276	91	75110562	75116736	1	None	FLJ26283, FLJ27450, MGC87870, S3
11	RPS3	ENSG00000149273	ENST00000530164	protein_coding	PUTATIVE	None	10420	354	117	75110563	75114989	1	None	FLJ26283, FLJ27450, MGC87870, S3
11	RPS3	ENSG00000149273	ENST00000530721	nonsense_mediated_decay	KNOWN	None	10420	135	44	75110563	75116736	1	None	FLJ26283, FLJ27450, MGC87870, S3
11	RPS3	ENSG00000149273	ENST00000422465	protein_coding	PUTATIVE	None	10420	311	102	75110564	75116928	1	None	FLJ26283, FLJ27450, MGC87870, S3
11	RPS3	ENSG00000149273	ENST00000278572	protein_coding	NOVEL	CCDS58161	10420	780	259	75110574	75116732	1	None	FLJ26283, FLJ27450, MGC87870, S3
11	RPS3	ENSG00000149273	ENST00000532872	nonsense_mediated_decay	KNOWN	None	10420	348	115	75110574	75116736	1	None	FLJ26283, FLJ27450, MGC87870, S3
11	RPS3	ENSG00000149273	ENST00000534440	protein_coding	NOVEL	None	10420	477	158	75110575	75116724	1	None	FLJ26283, FLJ27450, MGC87870, S3
11	RPS3	ENSG00000149273	ENST00000527446	protein_coding	KNOWN	CCDS8236	10420	732	243	75110575	75133324	1	None	FLJ26283, FLJ27450, MGC87870, S3
11	RPS3	ENSG00000149273	ENST00000526608	protein_coding	NOVEL	None	10420	696	231	75110581	75115912	1	None	FLJ26283, FLJ27450, MGC87870, S3
11	RPS3	ENSG00000149273	ENST00000527273	protein_coding	NOVEL	None	10420	384	127	75110586	75115153	1	None	FLJ26283, FLJ27450, MGC87870, S3
11	RPS3	ENSG00000149273	ENST00000524851	protein_coding	NOVEL	CCDS8236	10420	732	243	75110587	75116038	1	None	FLJ26283, FLJ27450, MGC87870, S3
11	RPS3	ENSG00000149273	ENST00000526248	nonsense_mediated_decay	KNOWN	None	10420	408	135	75110601	75116736	1	None	FLJ26283, FLJ27450, MGC87870, S3
11	RPS3	ENSG00000149273	ENST00000529285	processed_transcript	KNOWN	None	10420	None	None	75110714	75115774	1	None	FLJ26283, FLJ27450, MGC87870, S3
11	RPS3	ENSG00000149273	ENST00000534555	processed_transcript	PUTATIVE	None	10420	None	None	75110743	75112771	1	None	FLJ26283, FLJ27450, MGC87870, S3
11	RPS3	ENSG00000149273	ENST00000528847	protein_coding	PUTATIVE	None	10420	109	35	75111448	75115200	1	None	FLJ26283, FLJ27450, MGC87870, S3
11	RPS3	ENSG00000149273	ENST00000525933	protein_coding	NOVEL	None	10420	515	170	75111736	75116701	1	None	FLJ26283, FLJ27450, MGC87870, S3
11	RPS3	ENSG00000149273	ENST00000525690	nonsense_mediated_decay	KNOWN	None	10420	101	32	75111736	75116736	1	None	FLJ26283, FLJ27450, MGC87870, S3
11	RPS3	ENSG00000149273	ENST00000530170	nonsense_mediated_decay	KNOWN	None	10420	371	122	75111739	75116672	1	None	FLJ26283, FLJ27450, MGC87870, S3
9	None	ENSG00000230161	ENST00000457882	processed_pseudogene	KNOWN	None	None	None	None	103674602	103675023	1	None	None
3	TMEM212	ENSG00000186329	ENST00000334567	protein_coding	KNOWN	CCDS46958	34295	585	194	171561139	171577108	1	None	FLJ23172
3	TMEM212	ENSG00000186329	ENST00000420375	nonsense_mediated_decay	KNOWN	None	34295	568	188	171561191	171656505	1	None	FLJ23172
3	TMEM212	ENSG00000186329	ENST00000450693	protein_coding	KNOWN	None	34295	453	150	171561306	171574764	1	None	FLJ23172
3	TMEM212	ENSG00000186329	ENST00000469981	processed_transcript	KNOWN	None	34295	None	None	171618301	171655852	1	None	FLJ23172
Y	CYorf17	ENSG00000183146	ENST00000382764	protein_coding	KNOWN	None	38732	549	182	23544840	23548246	-1	None	None
5	FOXO1B	ENSG00000214295	ENST00000504678	processed_pseudogene	KNOWN	None	3820	None	None	180526140	180527666	-1	FKHRP1	None
9	GAPDHP26	ENSG00000229541	ENST00000436818	processed_pseudogene	KNOWN	None	37778	None	None	103737950	103738964	1	None	None
15	VPS13C	ENSG00000129003	ENST00000249837	protein_coding	KNOWN	CCDS10180	23594	11133	3710	62144588	62352672	-1	None	FLJ20136, FLJ10381, KIAA1421
15	VPS13C	ENSG00000129003	ENST00000261517	protein_coding	KNOWN	CCDS32257	23594	11262	3753	62144592	62352647	-1	None	FLJ20136, FLJ10381, KIAA1421
15	VPS13C	ENSG00000129003	ENST00000560637	retained_intron	KNOWN	None	23594	None	None	62144603	62156959	-1	None	FLJ20136, FLJ10381, KIAA1421
15	VPS13C	ENSG00000129003	ENST00000559119	retained_intron	KNOWN	None	23594	None	None	62146612	62148992	-1	None	FLJ20136, FLJ10381, KIAA1421
15	VPS13C	ENSG00000129003	ENST00000395896	protein_coding	KNOWN	CCDS45272	23594	10887	3628	62159161	62352647	-1	None	FLJ20136, FLJ10381, KIAA1421
15	VPS13C	ENSG00000129003	ENST00000395898	protein_coding	KNOWN	CCDS58367	23594	10758	3585	62159943	62352647	-1	None	FLJ20136, FLJ10381, KIAA1421
15	VPS13C	ENSG00000129003	ENST00000558919	processed_transcript	KNOWN	None	23594	None	None	62167986	62173788	-1	None	FLJ20136, FLJ10381, KIAA1421
15	VPS13C	ENSG00000129003	ENST00000558338	retained_intron	KNOWN	None	23594	None	None	62198842	62209731	-1	None	FLJ20136, FLJ10381, KIAA1421
15	VPS13C	ENSG00000129003	ENST00000558088	processed_transcript	KNOWN	None	23594	None	None	62244059	62253870	-1	None	FLJ20136, FLJ10381, KIAA1421
15	VPS13C	ENSG00000129003	ENST00000561258	retained_intron	KNOWN	None	23594	None	None	62275912	62283947	-1	None	FLJ20136, FLJ10381, KIAA1421
10	RBM20	ENSG00000203867	ENST00000369519	protein_coding	KNOWN	CCDS44477	27424	3684	1227	112404155	112599227	1	None	None
10	RBM20	ENSG00000203867	ENST00000471172	processed_transcript	KNOWN	None	27424	None	None	112583346	112591271	1	None	None
10	RBM20	ENSG00000203867	ENST00000480343	processed_transcript	KNOWN	None	27424	None	None	112587529	112595992	1	None	None
10	RBM20	ENSG00000203867	ENST00000465774	retained_intron	KNOWN	None	27424	None	None	112594936	112596016	1	None	None
5	None	ENSG00000248560	ENST00000510294	processed_pseudogene	KNOWN	None	None	None	None	180541106	180542674	1	None	None
9	None	ENSG00000238143	ENST00000417933	processed_pseudogene	KNOWN	None	None	None	None	103887718	103888203	-1	None	None
6	RNA5SP217	ENSG00000251768	ENST00000515959	rRNA	KNOWN	None	43117	None	None	127639028	127639118	-1	RN5S217	None
9	None	ENSG00000253041	ENST00000517232	snoRNA	NOVEL	None	None	None	None	104084759	104084815	1	None	None
9	BAATP1	ENSG00000227411	ENST00000412284	unitary_pseudogene	KNOWN	None	34504	None	None	104096366	104101629	-1	None	ACNATP
6	YWHAZP4	ENSG00000213131	ENST00000392459	processed_pseudogene	KNOWN	None	30851	None	None	127676901	127677934	1	None	None
3	TRMT10C	ENSG00000174173	ENST00000309922	protein_coding	KNOWN	CCDS43122	26022	1212	403	101280706	101285290	1	RG9MTD1	FLJ20432, MRPP1
3	TRMT10C	ENSG00000174173	ENST00000495642	protein_coding	KNOWN	None	26022	936	311	101280885	101284561	1	RG9MTD1	FLJ20432, MRPP1
9	TRMT112P4	ENSG00000236763	ENST00000429016	processed_pseudogene	KNOWN	None	44023	None	None	104118748	104119126	-1	None	None
19	ZNF550	ENSG00000251369	ENST00000601415	protein_coding	PUTATIVE	None	28643	378	125	58046625	58071180	-1	None	MGC41917
19	ZNF550	ENSG00000251369	ENST00000457177	protein_coding	KNOWN	None	28643	1269	422	58053208	58071231	-1	None	MGC41917
19	ZNF550	ENSG00000251369	ENST00000376230	nonsense_mediated_decay	KNOWN	None	28643	1269	422	58053208	58071231	-1	None	MGC41917
19	ZNF550	ENSG00000251369	ENST00000447310	nonsense_mediated_decay	KNOWN	None	28643	1269	422	58053208	58071231	-1	None	MGC41917
19	ZNF550	ENSG00000251369	ENST00000344222	protein_coding	KNOWN	None	28643	1019	338	58054004	58059361	-1	None	MGC41917
19	ZNF550	ENSG00000251369	ENST00000506609	protein_coding	PUTATIVE	CCDS35500	28643	1146	381	58058131	58067728	-1	None	MGC41917
19	ZNF550	ENSG00000251369	ENST00000595560	retained_intron	KNOWN	None	28643	None	None	58067366	58071228	-1	None	MGC41917
19	ZNF550	ENSG00000251369	ENST00000325134	protein_coding	KNOWN	None	28643	1173	390	58053208	58071207	-1	None	MGC41917
HSCHR6_MHC_DBB	HSPA1L	ENSG00000234258	ENST00000417601	protein_coding	KNOWN	None	5234	1926	641	31759586	31765032	-1	None	HSP70-HOM, hum70t
Y	TSPY14P	ENSG00000169849	ENST00000303979	unprocessed_pseudogene	KNOWN	None	23906	None	None	23630044	23632569	1	TSPYP4	None
9	None	ENSG00000230328	ENST00000447628	processed_pseudogene	KNOWN	None	None	None	None	104121214	104123524	1	None	None
6	MTFR2	ENSG00000146410	ENST00000451457	protein_coding	KNOWN	CCDS5176	21115	1158	385	136552162	136571462	-1	DUFD1, FAM54A	None
6	MTFR2	ENSG00000146410	ENST00000367784	nonsense_mediated_decay	KNOWN	None	21115	135	44	136552168	136571430	-1	DUFD1, FAM54A	None
6	MTFR2	ENSG00000146410	ENST00000420702	protein_coding	KNOWN	CCDS5176	21115	1158	385	136552168	136571449	-1	DUFD1, FAM54A	None
6	MTFR2	ENSG00000146410	ENST00000532958	protein_coding	PUTATIVE	None	21115	346	114	136554282	136560684	-1	DUFD1, FAM54A	None
6	MTFR2	ENSG00000146410	ENST00000418509	protein_coding	PUTATIVE	None	21115	736	244	136560608	136571432	-1	DUFD1, FAM54A	None
6	MTFR2	ENSG00000146410	ENST00000445767	processed_transcript	KNOWN	None	21115	None	None	136568600	136571437	-1	DUFD1, FAM54A	None
6	MTFR2	ENSG00000146410	ENST00000527338	retained_intron	KNOWN	None	21115	None	None	136569829	136571473	-1	DUFD1, FAM54A	None
19	LINC00904	ENSG00000271649	ENST00000604453	lincRNA	KNOWN	None	44325	None	None	35382933	35389847	-1	None	None
19	None	ENSG00000254760	ENST00000532473	antisense	KNOWN	None	None	None	None	51917552	51918219	1	None	None
10	CTSLP2	ENSG00000224036	ENST00000428057	unprocessed_pseudogene	KNOWN	None	2540	None	None	48157041	48158148	1	CTSLL2, CTSL1P2	None
9	FYTTD1P1	ENSG00000234502	ENST00000424250	processed_pseudogene	KNOWN	None	38035	None	None	104137626	104138885	-1	None	None
3	FYTTD1	ENSG00000122068	ENST00000428738	protein_coding	PUTATIVE	None	25407	530	175	197464050	197503872	1	None	DKFZp761B1514, UIF
3	FYTTD1	ENSG00000122068	ENST00000494309	nonsense_mediated_decay	KNOWN	None	25407	381	126	197476404	197500307	1	None	DKFZp761B1514, UIF
3	FYTTD1	ENSG00000122068	ENST00000415708	protein_coding	PUTATIVE	CCDS43196	25407	879	292	197476424	197509005	1	None	DKFZp761B1514, UIF
3	FYTTD1	ENSG00000122068	ENST00000241502	protein_coding	KNOWN	CCDS3329	25407	957	318	197476621	197511187	1	None	DKFZp761B1514, UIF
3	FYTTD1	ENSG00000122068	ENST00000412924	nonsense_mediated_decay	KNOWN	None	25407	366	121	197476749	197503872	1	None	DKFZp761B1514, UIF
3	FYTTD1	ENSG00000122068	ENST00000418169	nonsense_mediated_decay	KNOWN	None	25407	390	129	197476809	197503813	1	None	DKFZp761B1514, UIF
3	FYTTD1	ENSG00000122068	ENST00000426031	protein_coding	PUTATIVE	None	25407	213	70	197477038	197497032	1	None	DKFZp761B1514, UIF
3	FYTTD1	ENSG00000122068	ENST00000424384	protein_coding	PUTATIVE	None	25407	756	251	197477261	197509251	1	None	DKFZp761B1514, UIF
3	FYTTD1	ENSG00000122068	ENST00000492360	processed_transcript	PUTATIVE	None	25407	None	None	197505251	197509133	1	None	DKFZp761B1514, UIF
3	FYTTD1	ENSG00000122068	ENST00000428395	protein_coding	KNOWN	None	25407	684	227	197476424	197511317	1	None	DKFZp761B1514, UIF
19	None	ENSG00000270544	ENST00000603717	lincRNA	KNOWN	None	None	None	None	35393106	35395099	-1	None	None
19	None	ENSG00000255441	ENST00000526996	antisense	KNOWN	None	None	None	None	51918978	51919900	1	None	None
19	None	ENSG00000255441	ENST00000532688	antisense	KNOWN	None	None	None	None	51919160	51920679	1	None	None
Y	RBMY1HP	ENSG00000169811	ENST00000382759	unprocessed_pseudogene	KNOWN	None	9916	None	None	23655405	23663854	1	RBMY1H	None
Y	RBMY1HP	ENSG00000169811	ENST00000326985	unprocessed_pseudogene	KNOWN	None	9916	None	None	23655405	23662391	1	RBMY1H	None
Y	RBMY1HP	ENSG00000169811	ENST00000426043	unprocessed_pseudogene	KNOWN	None	9916	None	None	23661276	23663854	1	RBMY1H	None
19	None	ENSG00000271171	ENST00000605047	lincRNA	KNOWN	None	None	None	None	35395296	35395961	-1	None	None
9	None	ENSG00000270982	ENST00000605340	processed_pseudogene	KNOWN	None	None	None	None	104212083	104212215	1	None	None
19	None	ENSG00000268711	ENST00000598746	unprocessed_pseudogene	KNOWN	None	None	None	None	51929601	51929922	-1	None	None
19	CEP89	ENSG00000121289	ENST00000305768	protein_coding	KNOWN	CCDS32987	25907	2352	783	33369908	33462869	-1	CCDC123	FLJ14640
19	CEP89	ENSG00000121289	ENST00000591698	nonsense_mediated_decay	KNOWN	None	25907	522	173	33369909	33450858	-1	CCDC123	FLJ14640
19	CEP89	ENSG00000121289	ENST00000586984	nonsense_mediated_decay	KNOWN	None	25907	1287	428	33369917	33462861	-1	CCDC123	FLJ14640
19	CEP89	ENSG00000121289	ENST00000590597	protein_coding	KNOWN	None	25907	1071	356	33422135	33462869	-1	CCDC123	FLJ14640
19	CEP89	ENSG00000121289	ENST00000593276	protein_coding	NOVEL	None	25907	652	216	33428438	33457325	-1	CCDC123	FLJ14640
19	CEP89	ENSG00000121289	ENST00000591205	retained_intron	KNOWN	None	25907	None	None	33456917	33462881	-1	CCDC123	FLJ14640
19	CEP89	ENSG00000121289	ENST00000591863	processed_transcript	PUTATIVE	None	25907	None	None	33459815	33462897	-1	CCDC123	FLJ14640
19	CEP89	ENSG00000121289	ENST00000592401	processed_transcript	PUTATIVE	None	25907	None	None	33462079	33462822	-1	CCDC123	FLJ14640
9	None	ENSG00000225376	ENST00000424154	antisense	KNOWN	None	None	None	None	104230721	104243784	1	None	None
9	None	ENSG00000225376	ENST00000450109	antisense	KNOWN	None	None	None	None	104230744	104243784	1	None	None
9	None	ENSG00000225376	ENST00000431507	antisense	KNOWN	None	None	None	None	104231604	104243784	1	None	None
9	None	ENSG00000225376	ENST00000425734	antisense	KNOWN	None	None	None	None	104231661	104243784	1	None	None
4	RN7SKP105	ENSG00000253001	ENST00000517192	misc_RNA	KNOWN	None	45829	None	None	164749952	164750265	-1	None	None
9	None	ENSG00000260100	ENST00000569583	lincRNA	KNOWN	None	None	None	None	37078810	37079773	-1	None	None
4	None	ENSG00000177803	ENST00000436268	processed_pseudogene	KNOWN	None	None	None	None	164853678	164854334	1	None	None
2	FARP2	ENSG00000006607	ENST00000264042	protein_coding	KNOWN	CCDS33424	16460	3165	1054	242295658	242434256	1	None	KIAA0793, FIR, PLEKHC3, FRG
2	FARP2	ENSG00000006607	ENST00000478489	processed_transcript	KNOWN	None	16460	None	None	242295710	242344818	1	None	KIAA0793, FIR, PLEKHC3, FRG
2	FARP2	ENSG00000006607	ENST00000373287	protein_coding	KNOWN	None	16460	1944	647	242295712	242405445	1	None	KIAA0793, FIR, PLEKHC3, FRG
2	FARP2	ENSG00000006607	ENST00000479427	processed_transcript	PUTATIVE	None	16460	None	None	242295714	242335399	1	None	KIAA0793, FIR, PLEKHC3, FRG
2	FARP2	ENSG00000006607	ENST00000492868	processed_transcript	PUTATIVE	None	16460	None	None	242311975	242335059	1	None	KIAA0793, FIR, PLEKHC3, FRG
2	FARP2	ENSG00000006607	ENST00000418082	protein_coding	KNOWN	None	16460	403	133	242312093	242347023	1	None	KIAA0793, FIR, PLEKHC3, FRG
2	FARP2	ENSG00000006607	ENST00000445489	protein_coding	KNOWN	None	16460	279	92	242312264	242343338	1	None	KIAA0793, FIR, PLEKHC3, FRG
2	FARP2	ENSG00000006607	ENST00000464142	processed_transcript	PUTATIVE	None	16460	None	None	242312497	242343317	1	None	KIAA0793, FIR, PLEKHC3, FRG
2	FARP2	ENSG00000006607	ENST00000473082	processed_transcript	KNOWN	None	16460	None	None	242312604	242344817	1	None	KIAA0793, FIR, PLEKHC3, FRG
2	FARP2	ENSG00000006607	ENST00000467260	processed_transcript	KNOWN	None	16460	None	None	242326158	242344818	1	None	KIAA0793, FIR, PLEKHC3, FRG
2	FARP2	ENSG00000006607	ENST00000471447	retained_intron	KNOWN	None	16460	None	None	242350356	242371656	1	None	KIAA0793, FIR, PLEKHC3, FRG
2	FARP2	ENSG00000006607	ENST00000485051	retained_intron	KNOWN	None	16460	None	None	242350360	242373602	1	None	KIAA0793, FIR, PLEKHC3, FRG
2	FARP2	ENSG00000006607	ENST00000413432	protein_coding	NOVEL	None	16460	668	221	242373645	242381167	1	None	KIAA0793, FIR, PLEKHC3, FRG
2	FARP2	ENSG00000006607	ENST00000476799	retained_intron	KNOWN	None	16460	None	None	242395850	242402873	1	None	KIAA0793, FIR, PLEKHC3, FRG
2	FARP2	ENSG00000006607	ENST00000473510	retained_intron	KNOWN	None	16460	None	None	242401947	242402940	1	None	KIAA0793, FIR, PLEKHC3, FRG
2	FARP2	ENSG00000006607	ENST00000422951	protein_coding	PUTATIVE	None	16460	239	78	242402751	242405451	1	None	KIAA0793, FIR, PLEKHC3, FRG
2	FARP2	ENSG00000006607	ENST00000496470	retained_intron	KNOWN	None	16460	None	None	242402995	242407735	1	None	KIAA0793, FIR, PLEKHC3, FRG
2	FARP2	ENSG00000006607	ENST00000491425	processed_transcript	KNOWN	None	16460	None	None	242410727	242427925	1	None	KIAA0793, FIR, PLEKHC3, FRG
2	FARP2	ENSG00000006607	ENST00000486736	retained_intron	KNOWN	None	16460	None	None	242423505	242431064	1	None	KIAA0793, FIR, PLEKHC3, FRG
2	FARP2	ENSG00000006607	ENST00000470617	retained_intron	KNOWN	None	16460	None	None	242427563	242434255	1	None	KIAA0793, FIR, PLEKHC3, FRG
2	FARP2	ENSG00000006607	ENST00000444371	protein_coding	NOVEL	None	16460	587	194	242429376	242433534	1	None	KIAA0793, FIR, PLEKHC3, FRG
2	FARP2	ENSG00000006607	ENST00000412332	protein_coding	KNOWN	None	16460	170	55	242432808	242434255	1	None	KIAA0793, FIR, PLEKHC3, FRG
2	FARP2	ENSG00000006607	ENST00000545004	protein_coding	KNOWN	None	16460	1917	638	242295704	242405193	1	None	KIAA0793, FIR, PLEKHC3, FRG
19	None	ENSG00000269181	ENST00000594327	processed_pseudogene	KNOWN	None	None	None	None	51945633	51945904	1	None	None
4	None	ENSG00000250746	ENST00000509378	processed_pseudogene	KNOWN	None	None	None	None	165109463	165111519	1	None	None
HSCHR6_MHC_DBB	HSPA1A	ENSG00000234475	ENST00000433487	protein_coding	KNOWN	None	5232	1926	641	31765431	31767913	1	HSPA1	HSP70-1
HSCHR6_MHC_DBB	HSPA1A	ENSG00000234475	ENST00000452298	protein_coding	KNOWN	None	5232	1431	476	31765510	31767913	1	HSPA1	HSP70-1
19	SIGLEC25P	ENSG00000268957	ENST00000597690	processed_pseudogene	KNOWN	None	15614	None	None	51971614	51971890	-1	SIGLECP9	None
11	EED	ENSG00000074266	ENST00000263360	protein_coding	KNOWN	CCDS8273	3188	1326	441	85955586	85989778	1	None	WAIT-1, HEED
11	EED	ENSG00000074266	ENST00000528180	protein_coding	NOVEL	None	3188	1086	361	85955795	85989749	1	None	WAIT-1, HEED
11	EED	ENSG00000074266	ENST00000327320	protein_coding	KNOWN	CCDS8274	3188	1203	400	85956182	85989777	1	None	WAIT-1, HEED
11	EED	ENSG00000074266	ENST00000351625	protein_coding	NOVEL	None	3188	1401	466	85956265	85989855	1	None	WAIT-1, HEED
11	EED	ENSG00000074266	ENST00000534595	protein_coding	PUTATIVE	None	3188	347	114	85956276	85989403	1	None	WAIT-1, HEED
11	EED	ENSG00000074266	ENST00000525244	retained_intron	KNOWN	None	3188	None	None	85956310	85988577	1	None	WAIT-1, HEED
11	EED	ENSG00000074266	ENST00000533228	retained_intron	KNOWN	None	3188	None	None	85974987	85979572	1	None	WAIT-1, HEED
11	EED	ENSG00000074266	ENST00000534564	retained_intron	KNOWN	None	3188	None	None	85974987	85989596	1	None	WAIT-1, HEED
11	EED	ENSG00000074266	ENST00000524673	retained_intron	KNOWN	None	3188	None	None	85978937	85989620	1	None	WAIT-1, HEED
11	EED	ENSG00000074266	ENST00000527888	protein_coding	PUTATIVE	None	3188	321	106	85987174	85989781	1	None	WAIT-1, HEED
11	EED	ENSG00000074266	ENST00000528250	retained_intron	KNOWN	None	3188	None	None	85988140	85989781	1	None	WAIT-1, HEED
19	SIGLEC26P	ENSG00000268839	ENST00000594712	processed_pseudogene	KNOWN	None	15615	None	None	52008313	52008616	-1	SIGLECP10	None
HSCHR6_MHC_COX	HLA-DPB2	ENSG00000225132	ENST00000452102	processed_transcript	KNOWN	None	4941	None	None	33002124	33008832	1	HLA-DP2B	DP2B, DPB2
HSCHR6_MHC_COX	HLA-DPB2	ENSG00000225132	ENST00000485725	transcribed_unprocessed_pseudogene	KNOWN	None	4941	None	None	33002189	33018445	1	HLA-DP2B	DP2B, DPB2
8	CCDC26	ENSG00000229140	ENST00000523151	lincRNA	KNOWN	None	28416	None	None	130363937	130587262	-1	None	MGC27434, RAM
8	CCDC26	ENSG00000229140	ENST00000446592	lincRNA	KNOWN	None	28416	None	None	130363937	130692485	-1	None	MGC27434, RAM
8	CCDC26	ENSG00000229140	ENST00000520048	lincRNA	KNOWN	None	28416	None	None	130364675	130587237	-1	None	MGC27434, RAM
8	CCDC26	ENSG00000229140	ENST00000595333	lincRNA	KNOWN	None	28416	None	None	130364905	130365234	-1	None	MGC27434, RAM
4	ANP32C	ENSG00000248546	ENST00000512835	processed_pseudogene	KNOWN	None	16675	None	None	165118159	165118863	-1	None	PP32R1
19	SIGLEC27P	ENSG00000269580	ENST00000594477	processed_pseudogene	KNOWN	None	15617	None	None	52011827	52012565	1	SIGLECP11	None
19	SIGLEC27P	ENSG00000269580	ENST00000598771	processed_pseudogene	KNOWN	None	15617	None	None	52011827	52012439	1	SIGLECP11	None
19	SIGLEC27P	ENSG00000269580	ENST00000594518	processed_pseudogene	KNOWN	None	15617	None	None	52012033	52012567	1	SIGLECP11	None
6	MNF1	ENSG00000137288	ENST00000606961	retained_intron	KNOWN	None	21237	None	None	33662070	33666434	-1	C6orf125, MNF1	MGC14833, bA6B20.2, M19, Cbp6
6	MNF1	ENSG00000137288	ENST00000374231	protein_coding	KNOWN	None	21237	379	125	33663126	33679461	-1	C6orf125, MNF1	MGC14833, bA6B20.2, M19, Cbp6
6	MNF1	ENSG00000137288	ENST00000607484	protein_coding	KNOWN	CCDS4784	21237	381	126	33664538	33679504	-1	C6orf125, MNF1	MGC14833, bA6B20.2, M19, Cbp6
6	MNF1	ENSG00000137288	ENST00000374214	protein_coding	NOVEL	None	21237	306	101	33665345	33679504	-1	C6orf125, MNF1	MGC14833, bA6B20.2, M19, Cbp6
X	None	ENSG00000224617	ENST00000427368	processed_pseudogene	KNOWN	None	None	None	None	71009236	71009486	-1	None	None
22	SHISA8	ENSG00000234965	ENST00000457093	protein_coding	PUTATIVE	None	18351	486	161	42307297	42310570	-1	C22orf17	Orf26
17	SMTNL2	ENSG00000188176	ENST00000338859	protein_coding	KNOWN	CCDS11048	24764	954	317	4487294	4511614	1	None	FLJ42461
17	SMTNL2	ENSG00000188176	ENST00000389313	protein_coding	KNOWN	CCDS45583	24764	1386	461	4487834	4511609	1	None	FLJ42461
17	SMTNL2	ENSG00000188176	ENST00000572951	protein_coding	PUTATIVE	None	24764	247	81	4495650	4498555	1	None	FLJ42461
17	SMTNL2	ENSG00000188176	ENST00000570526	retained_intron	KNOWN	None	24764	None	None	4498361	4500249	1	None	FLJ42461
17	ARL17B	ENSG00000228696	ENST00000570618	protein_coding	KNOWN	CCDS54137	32387	378	125	44352150	44439130	-1	ARL17	None
17	ARL17B	ENSG00000228696	ENST00000434041	protein_coding	KNOWN	CCDS54137	32387	378	125	44376500	44439111	-1	ARL17	None
17	ARL17B	ENSG00000228696	ENST00000572991	nonsense_mediated_decay	KNOWN	None	32387	335	110	44386873	44430248	-1	ARL17	None
17	ARL17B	ENSG00000228696	ENST00000575698	protein_coding	PUTATIVE	None	32387	288	95	44407711	44439092	-1	ARL17	None
17	ARL17B	ENSG00000228696	ENST00000575960	protein_coding	PUTATIVE	None	32387	546	181	44407819	44439084	-1	ARL17	None
17	ARL17B	ENSG00000228696	ENST00000571246	protein_coding	PUTATIVE	None	32387	264	87	44412046	44439098	-1	ARL17	None
17	ARL17B	ENSG00000228696	ENST00000450673	protein_coding	KNOWN	CCDS58557	32387	534	177	44416763	44439130	-1	ARL17	None
X	None	ENSG00000229030	ENST00000424182	processed_pseudogene	KNOWN	None	None	None	None	71068625	71068854	1	None	None
HSCHR6_MHC_DBB	HSPA1B	ENSG00000231555	ENST00000445736	protein_coding	KNOWN	None	5233	1926	641	31777702	31780222	1	None	HSP70-2
8	None	ENSG00000253926	ENST00000519048	lincRNA	KNOWN	None	None	None	None	130428195	130458098	1	None	None
12	WBP11	ENSG00000084463	ENST00000261167	protein_coding	KNOWN	CCDS8666	16461	1926	641	14939410	14956474	-1	None	NPWBP, SIPP1
12	WBP11	ENSG00000084463	ENST00000537574	protein_coding	NOVEL	None	16461	1824	607	14939480	14956438	-1	None	NPWBP, SIPP1
12	WBP11	ENSG00000084463	ENST00000535638	nonsense_mediated_decay	KNOWN	None	16461	585	194	14943623	14954362	-1	None	NPWBP, SIPP1
12	WBP11	ENSG00000084463	ENST00000544764	retained_intron	KNOWN	None	16461	None	None	14952375	14956420	-1	None	NPWBP, SIPP1
12	WBP11	ENSG00000084463	ENST00000535328	protein_coding	KNOWN	None	16461	159	52	14952600	14956420	-1	None	NPWBP, SIPP1
12	WBP11	ENSG00000084463	ENST00000543316	retained_intron	KNOWN	None	16461	None	None	14953934	14956410	-1	None	NPWBP, SIPP1
X	XAGE1A	ENSG00000204379	ENST00000496463	retained_intron	KNOWN	None	4111	None	None	52255219	52258167	-1	GAGED2, XAGE1	XAGE-1, CT12.1a
X	XAGE1A	ENSG00000204379	ENST00000375595	processed_transcript	KNOWN	None	4111	None	None	52255219	52260154	-1	GAGED2, XAGE1	XAGE-1, CT12.1a
X	XAGE1A	ENSG00000204379	ENST00000375600	protein_coding	KNOWN	CCDS48122	4111	210	69	52255219	52260199	-1	GAGED2, XAGE1	XAGE-1, CT12.1a
X	XAGE1A	ENSG00000204379	ENST00000375602	protein_coding	KNOWN	CCDS48120	4111	246	81	52255219	52260355	-1	GAGED2, XAGE1	XAGE-1, CT12.1a
X	XAGE1A	ENSG00000204379	ENST00000399800	protein_coding	KNOWN	None	4111	441	146	52255219	52260363	-1	GAGED2, XAGE1	XAGE-1, CT12.1a
X	XAGE1A	ENSG00000204379	ENST00000441417	protein_coding	KNOWN	CCDS48122	4111	210	69	52255219	52258669	-1	GAGED2, XAGE1	XAGE-1, CT12.1a
22	TNFRSF13C	ENSG00000159958	ENST00000291232	protein_coding	KNOWN	CCDS14024	17755	555	184	42321045	42322822	-1	None	BAFFR, CD268
6	None	ENSG00000236627	ENST00000435810	lincRNA	KNOWN	None	None	None	None	166167677	166189268	1	None	None
19	PDE4A	ENSG00000065989	ENST00000592685	protein_coding	KNOWN	CCDS58649	8780	2595	864	10527449	10578325	1	DPDE2	None
19	PDE4A	ENSG00000065989	ENST00000352831	protein_coding	KNOWN	CCDS45961	8780	2661	886	10531331	10579169	1	DPDE2	None
19	PDE4A	ENSG00000065989	ENST00000293683	protein_coding	KNOWN	CCDS45962	8780	2583	860	10541521	10578297	1	DPDE2	None
19	PDE4A	ENSG00000065989	ENST00000440014	protein_coding	KNOWN	CCDS45963	8780	2478	825	10543111	10578297	1	DPDE2	None
19	PDE4A	ENSG00000065989	ENST00000591971	protein_coding	NOVEL	None	8780	836	277	10561507	10572605	1	DPDE2	None
19	PDE4A	ENSG00000065989	ENST00000344979	protein_coding	KNOWN	CCDS12238	8780	1944	647	10563615	10578607	1	DPDE2	None
19	PDE4A	ENSG00000065989	ENST00000589073	nonsense_mediated_decay	KNOWN	None	8780	291	96	10563633	10578041	1	DPDE2	None
19	PDE4A	ENSG00000065989	ENST00000586275	retained_intron	KNOWN	None	8780	None	None	10563960	10570406	1	DPDE2	None
19	PDE4A	ENSG00000065989	ENST00000590407	retained_intron	KNOWN	None	8780	None	None	10569645	10578042	1	DPDE2	None
19	PDE4A	ENSG00000065989	ENST00000380702	protein_coding	KNOWN	CCDS58649	8780	2595	864	10527619	10580305	1	DPDE2	None
15	ZNF592	ENSG00000166716	ENST00000560079	protein_coding	KNOWN	CCDS32317	28986	3804	1267	85291866	85349202	1	SCAR5	KIAA0211, CAMOS
15	ZNF592	ENSG00000166716	ENST00000559607	nonsense_mediated_decay	KNOWN	None	28986	2577	858	85321491	85345669	1	SCAR5	KIAA0211, CAMOS
15	ZNF592	ENSG00000166716	ENST00000299927	protein_coding	KNOWN	CCDS32317	28986	3804	1267	85325885	85349659	1	SCAR5	KIAA0211, CAMOS
6	None	ENSG00000223942	ENST00000431017	lincRNA	KNOWN	None	None	None	None	166186689	166188674	-1	None	None
2	TMEM247	ENSG00000187600	ENST00000449601	processed_transcript	KNOWN	None	42967	None	None	46656329	46668972	1	None	None
2	TMEM247	ENSG00000187600	ENST00000432241	processed_transcript	KNOWN	None	42967	None	None	46656334	46711563	1	None	None
2	TMEM247	ENSG00000187600	ENST00000416466	processed_transcript	PUTATIVE	None	42967	None	None	46657315	46668972	1	None	None
2	TMEM247	ENSG00000187600	ENST00000415396	processed_transcript	KNOWN	None	42967	None	None	46663612	46668971	1	None	None
2	TMEM247	ENSG00000187600	ENST00000434431	protein_coding	KNOWN	CCDS56117	42967	659	218	46706725	46711564	1	None	None
X	MCTS1	ENSG00000232119	ENST00000493879	processed_transcript	KNOWN	None	23357	None	None	119727865	119739991	1	None	MCT-1
X	MCTS1	ENSG00000232119	ENST00000493274	processed_transcript	KNOWN	None	23357	None	None	119727936	119744902	1	None	MCT-1
X	MCTS1	ENSG00000232119	ENST00000371317	protein_coding	KNOWN	CCDS14601	23357	546	181	119737835	119746334	1	None	MCT-1
X	MCTS1	ENSG00000232119	ENST00000371315	protein_coding	KNOWN	CCDS48160	23357	549	182	119738176	119746167	1	None	MCT-1
X	MCTS1	ENSG00000232119	ENST00000487133	processed_transcript	KNOWN	None	23357	None	None	119739259	119746242	1	None	MCT-1
X	MCTS1	ENSG00000232119	ENST00000484481	processed_transcript	KNOWN	None	23357	None	None	119744742	119746243	1	None	MCT-1
9	ROR2	ENSG00000169071	ENST00000375715	protein_coding	PUTATIVE	None	10257	2115	704	94325373	94711162	-1	NTRKR2, BDB, BDB1	None
9	ROR2	ENSG00000169071	ENST00000375708	protein_coding	KNOWN	CCDS6691	10257	2832	943	94484879	94712444	-1	NTRKR2, BDB, BDB1	None
9	ROR2	ENSG00000169071	ENST00000550066	processed_transcript	KNOWN	None	10257	None	None	94484884	94649481	-1	NTRKR2, BDB, BDB1	None
9	ROR2	ENSG00000169071	ENST00000548585	retained_intron	KNOWN	None	10257	None	None	94518222	94538063	-1	NTRKR2, BDB, BDB1	None
9	ROR2	ENSG00000169071	ENST00000495386	processed_transcript	KNOWN	None	10257	None	None	94519616	94710958	-1	NTRKR2, BDB, BDB1	None
9	ROR2	ENSG00000169071	ENST00000546883	processed_transcript	KNOWN	None	10257	None	None	94519718	94711023	-1	NTRKR2, BDB, BDB1	None
9	ROR2	ENSG00000169071	ENST00000476440	processed_transcript	KNOWN	None	10257	None	None	94685935	94712188	-1	NTRKR2, BDB, BDB1	None
9	ROR2	ENSG00000169071	ENST00000493846	processed_transcript	KNOWN	None	10257	None	None	94685950	94710997	-1	NTRKR2, BDB, BDB1	None
HSCHR6_MHC_MCF	POLR2LP	ENSG00000233504	ENST00000432966	processed_pseudogene	KNOWN	None	31340	None	None	31187044	31187230	1	None	AB023060.6
6	LINC00473	ENSG00000223414	ENST00000444465	lincRNA	KNOWN	None	21160	None	None	166322290	166401410	-1	C6orf176	bA142J11.1
6	LINC00473	ENSG00000223414	ENST00000455853	lincRNA	KNOWN	None	21160	None	None	166352944	166401527	-1	C6orf176	bA142J11.1
6	LINC00473	ENSG00000223414	ENST00000581850	lincRNA	KNOWN	None	21160	None	None	166354077	166401402	-1	C6orf176	bA142J11.1
6	LINC00473	ENSG00000223414	ENST00000584179	lincRNA	KNOWN	None	21160	None	None	166360260	166401479	-1	C6orf176	bA142J11.1
6	LINC00473	ENSG00000223414	ENST00000584911	lincRNA	KNOWN	None	21160	None	None	166361711	166401536	-1	C6orf176	bA142J11.1
19	ELAVL3	ENSG00000196361	ENST00000359227	protein_coding	KNOWN	CCDS32912	3314	1104	367	11562141	11591848	-1	None	HUC, PLE21, DKFZp547J036, HUCL, MGC20653
19	ELAVL3	ENSG00000196361	ENST00000438662	protein_coding	KNOWN	CCDS45978	3314	1083	360	11565218	11591440	-1	None	HUC, PLE21, DKFZp547J036, HUCL, MGC20653
19	ELAVL3	ENSG00000196361	ENST00000588853	protein_coding	NOVEL	None	3314	278	91	11576991	11591512	-1	None	HUC, PLE21, DKFZp547J036, HUCL, MGC20653
19	ELAVL3	ENSG00000196361	ENST00000592218	processed_transcript	PUTATIVE	None	3314	None	None	11591068	11591861	-1	None	HUC, PLE21, DKFZp547J036, HUCL, MGC20653
HSCHR6_MHC_MCF	PSORS1C3	ENSG00000230983	ENST00000428067	processed_transcript	KNOWN	None	17203	None	None	31220056	31224226	-1	None	NCRNA00196
12	APPL2	ENSG00000136044	ENST00000258530	protein_coding	KNOWN	CCDS9101	18242	1995	664	105567074	105630016	-1	None	FLJ10659, DIP13B
12	APPL2	ENSG00000136044	ENST00000547439	nonsense_mediated_decay	KNOWN	None	18242	708	235	105567075	105629981	-1	None	FLJ10659, DIP13B
12	APPL2	ENSG00000136044	ENST00000539978	protein_coding	PUTATIVE	CCDS58275	18242	1866	621	105567713	105627228	-1	None	FLJ10659, DIP13B
12	APPL2	ENSG00000136044	ENST00000547790	retained_intron	KNOWN	None	18242	None	None	105567795	105571233	-1	None	FLJ10659, DIP13B
12	APPL2	ENSG00000136044	ENST00000546731	protein_coding	PUTATIVE	None	18242	324	107	105567883	105570152	-1	None	FLJ10659, DIP13B
12	APPL2	ENSG00000136044	ENST00000551662	protein_coding	KNOWN	CCDS58276	18242	2013	670	105567986	105629861	-1	None	FLJ10659, DIP13B
12	APPL2	ENSG00000136044	ENST00000553109	protein_coding	PUTATIVE	None	18242	564	187	105568116	105583818	-1	None	FLJ10659, DIP13B
12	APPL2	ENSG00000136044	ENST00000548425	retained_intron	KNOWN	None	18242	None	None	105570581	105582227	-1	None	FLJ10659, DIP13B
12	APPL2	ENSG00000136044	ENST00000547809	retained_intron	KNOWN	None	18242	None	None	105570888	105626932	-1	None	FLJ10659, DIP13B
12	APPL2	ENSG00000136044	ENST00000552945	processed_transcript	KNOWN	None	18242	None	None	105582153	105589054	-1	None	FLJ10659, DIP13B
12	APPL2	ENSG00000136044	ENST00000549573	processed_transcript	KNOWN	None	18242	None	None	105591542	105601797	-1	None	FLJ10659, DIP13B
12	APPL2	ENSG00000136044	ENST00000549974	nonsense_mediated_decay	KNOWN	None	18242	120	39	105593110	105605051	-1	None	FLJ10659, DIP13B
12	APPL2	ENSG00000136044	ENST00000550648	retained_intron	KNOWN	None	18242	None	None	105597201	105601767	-1	None	FLJ10659, DIP13B
12	APPL2	ENSG00000136044	ENST00000546768	retained_intron	KNOWN	None	18242	None	None	105600628	105611461	-1	None	FLJ10659, DIP13B
12	APPL2	ENSG00000136044	ENST00000553097	protein_coding	NOVEL	None	18242	433	143	105600928	105629871	-1	None	FLJ10659, DIP13B
12	APPL2	ENSG00000136044	ENST00000549056	protein_coding	PUTATIVE	None	18242	185	60	105605067	105623638	-1	None	FLJ10659, DIP13B
19	MIR4747	ENSG00000263409	ENST00000584057	miRNA	KNOWN	None	41827	None	None	4932699	4932752	1	None	hsa-mir-4747
Y	None	ENSG00000242393	ENST00000456659	unprocessed_pseudogene	KNOWN	None	None	None	None	23670185	23672356	-1	None	None
HSCHR6_MHC_MCF	HCG27	ENSG00000223577	ENST00000420800	processed_transcript	PUTATIVE	None	27366	None	None	31248409	31249395	1	None	bPG299F13.9, bCX101P6.9, bQB115I13.2, FLJ40123
HSCHR6_MHC_MCF	HCG27	ENSG00000223577	ENST00000452180	processed_transcript	PUTATIVE	None	27366	None	None	31244484	31249616	1	None	bPG299F13.9, bCX101P6.9, bQB115I13.2, FLJ40123
HSCHR6_MHC_MCF	HCG27	ENSG00000223577	ENST00000436256	processed_transcript	KNOWN	None	27366	None	None	31244106	31250362	1	None	bPG299F13.9, bCX101P6.9, bQB115I13.2, FLJ40123
12	MDM1	ENSG00000111554	ENST00000357874	nonsense_mediated_decay	KNOWN	None	29917	92	29	68666223	68689103	-1	None	None
12	MDM1	ENSG00000111554	ENST00000540418	protein_coding	PUTATIVE	None	29917	1305	434	68688348	68726066	-1	None	None
12	MDM1	ENSG00000111554	ENST00000303145	protein_coding	KNOWN	CCDS8983	29917	2145	714	68688348	68726112	-1	None	None
12	MDM1	ENSG00000111554	ENST00000539972	protein_coding	NOVEL	None	29917	366	121	68688595	68696652	-1	None	None
12	MDM1	ENSG00000111554	ENST00000411698	protein_coding	NOVEL	CCDS55841	29917	2040	679	68688643	68726066	-1	None	None
12	MDM1	ENSG00000111554	ENST00000536313	retained_intron	KNOWN	None	29917	None	None	68696583	68710176	-1	None	None
12	MDM1	ENSG00000111554	ENST00000545964	retained_intron	KNOWN	None	29917	None	None	68708796	68710188	-1	None	None
12	MDM1	ENSG00000111554	ENST00000538454	retained_intron	KNOWN	None	29917	None	None	68714753	68716992	-1	None	None
12	MDM1	ENSG00000111554	ENST00000536997	retained_intron	KNOWN	None	29917	None	None	68715153	68717178	-1	None	None
12	MDM1	ENSG00000111554	ENST00000540476	processed_transcript	KNOWN	None	29917	None	None	68715332	68719890	-1	None	None
12	MDM1	ENSG00000111554	ENST00000541686	protein_coding	PUTATIVE	None	29917	841	279	68715354	68725816	-1	None	None
12	MDM1	ENSG00000111554	ENST00000393543	protein_coding	KNOWN	CCDS55842	29917	210	69	68718785	68726104	-1	None	None
12	MDM1	ENSG00000111554	ENST00000430606	protein_coding	KNOWN	CCDS44938	29917	669	222	68718901	68726161	-1	None	None
12	MDM1	ENSG00000111554	ENST00000545724	processed_transcript	KNOWN	None	29917	None	None	68718953	68726037	-1	None	None
12	MDM1	ENSG00000111554	ENST00000541087	retained_intron	KNOWN	None	29917	None	None	68724476	68726035	-1	None	None
10	None	ENSG00000220997	ENST00000408070	miRNA	NOVEL	None	None	None	None	30653996	30654077	-1	None	None
19	None	ENSG00000267550	ENST00000592429	antisense	KNOWN	None	None	None	None	5178130	5178475	1	None	None
22	None	ENSG00000252799	ENST00000516990	snoRNA	NOVEL	None	None	None	None	21878047	21878123	-1	None	None
6	None	ENSG00000252196	ENST00000516387	miRNA	NOVEL	None	None	None	None	166355759	166355829	-1	None	None
20	TOMM34	ENSG00000025772	ENST00000372813	protein_coding	KNOWN	CCDS13340	15746	930	309	43570771	43589127	-1	None	TOM34, HTOM34P
22	None	ENSG00000252143	ENST00000516334	snoRNA	NOVEL	None	None	None	None	21899186	21899328	1	None	None
10	TIMM23	ENSG00000138297	ENST00000444743	protein_coding	KNOWN	None	17312	322	106	51592080	51623203	-1	None	TIM23
10	TIMM23	ENSG00000138297	ENST00000260867	protein_coding	KNOWN	CCDS7238	17312	630	209	51592080	51623338	-1	None	TIM23
10	TIMM23	ENSG00000138297	ENST00000485812	processed_transcript	KNOWN	None	17312	None	None	51592090	51594455	-1	None	TIM23
10	TIMM23	ENSG00000138297	ENST00000374065	protein_coding	KNOWN	None	17312	519	172	51592280	51623319	-1	None	TIM23
10	TIMM23	ENSG00000138297	ENST00000476778	processed_transcript	KNOWN	None	17312	None	None	51592415	51623328	-1	None	TIM23
10	TIMM23	ENSG00000138297	ENST00000469116	processed_transcript	KNOWN	None	17312	None	None	51592551	51623365	-1	None	TIM23
10	TIMM23	ENSG00000138297	ENST00000480051	processed_transcript	KNOWN	None	17312	None	None	51606988	51623360	-1	None	TIM23
10	TIMM23	ENSG00000138297	ENST00000374064	protein_coding	KNOWN	None	17312	486	161	51592090	51623336	-1	None	TIM23
12	LHX5	ENSG00000089116	ENST00000261731	protein_coding	KNOWN	CCDS9171	14216	1209	402	113899839	113909877	-1	None	None
12	LHX5	ENSG00000089116	ENST00000557836	processed_transcript	KNOWN	None	14216	None	None	113909288	113910085	-1	None	None
Y	None	ENSG00000228257	ENST00000452426	unprocessed_pseudogene	KNOWN	None	None	None	None	23693725	23695897	-1	None	None
22	None	ENSG00000252605	ENST00000516796	snoRNA	NOVEL	None	None	None	None	21899414	21899496	1	None	None
6	GAPDHP72	ENSG00000216624	ENST00000402643	processed_pseudogene	KNOWN	None	22955	None	None	166477779	166478788	1	GAPDL18, GAPDHL18	None
22	RN7SKP221	ENSG00000222352	ENST00000410420	misc_RNA	KNOWN	None	45945	None	None	21899633	21899933	-1	None	None
10	RN7SL241P	ENSG00000239625	ENST00000482973	misc_RNA	KNOWN	None	46257	None	None	30654962	30655247	-1	None	None
HSCHR6_MHC_MCF	None	ENSG00000226408	ENST00000432333	processed_transcript	PUTATIVE	None	None	None	None	31246516	31248313	-1	None	None
16	ZNF785	ENSG00000197162	ENST00000562128	nonsense_mediated_decay	KNOWN	None	26496	245	80	30585061	30594125	-1	None	FLJ32130
16	ZNF785	ENSG00000197162	ENST00000470110	protein_coding	KNOWN	None	26496	1173	390	30590294	30597090	-1	None	FLJ32130
16	ZNF785	ENSG00000197162	ENST00000395216	protein_coding	KNOWN	CCDS10685	26496	1218	405	30591977	30597092	-1	None	FLJ32130
16	ZNF785	ENSG00000197162	ENST00000567773	protein_coding	PUTATIVE	None	26496	210	69	30594450	30596818	-1	None	FLJ32130
22	MIR301B	ENSG00000212102	ENST00000390813	miRNA	KNOWN	None	33667	None	None	22007270	22007347	1	MIRN301B	hsa-mir-301b
Y	None	ENSG00000227989	ENST00000411585	unprocessed_pseudogene	KNOWN	None	None	None	None	23717738	23719956	-1	None	None
HSCHR6_MHC_DBB	C6orf48	ENSG00000229300	ENST00000450610	protein_coding	KNOWN	None	19078	228	75	31784575	31789727	1	None	D6S57, G8
HSCHR6_MHC_DBB	C6orf48	ENSG00000229300	ENST00000433697	protein_coding	KNOWN	None	19078	228	75	31784594	31789727	1	None	D6S57, G8
HSCHR6_MHC_DBB	C6orf48	ENSG00000229300	ENST00000444331	protein_coding	KNOWN	None	19078	228	75	31784875	31789727	1	None	D6S57, G8
HSCHR6_MHC_DBB	C6orf48	ENSG00000229300	ENST00000414434	protein_coding	KNOWN	None	19078	228	75	31784875	31789727	1	None	D6S57, G8
HSCHR6_MHC_DBB	C6orf48	ENSG00000229300	ENST00000421605	protein_coding	KNOWN	None	19078	228	75	31784875	31789727	1	None	D6S57, G8
HSCHR6_MHC_DBB	C6orf48	ENSG00000229300	ENST00000423916	protein_coding	KNOWN	None	19078	228	75	31784885	31789727	1	None	D6S57, G8
HSCHR6_MHC_DBB	C6orf48	ENSG00000229300	ENST00000436495	protein_coding	KNOWN	None	19078	228	75	31784899	31789727	1	None	D6S57, G8
HSCHR6_MHC_DBB	C6orf48	ENSG00000229300	ENST00000426843	protein_coding	KNOWN	None	19078	228	75	31785252	31789727	1	None	D6S57, G8
HSCHR6_MHC_DBB	C6orf48	ENSG00000229300	ENST00000421039	protein_coding	KNOWN	None	19078	228	75	31786809	31789730	1	None	D6S57, G8
HSCHR6_MHC_DBB	C6orf48	ENSG00000229300	ENST00000551957	protein_coding	KNOWN	None	19078	378	125	31784883	31789723	1	None	D6S57, G8
HSCHR6_MHC_DBB	C6orf48	ENSG00000229300	ENST00000550492	protein_coding	KNOWN	None	19078	297	98	31784883	31789723	1	None	D6S57, G8
22	MIR130B	ENSG00000207751	ENST00000385018	miRNA	KNOWN	None	31515	None	None	22007593	22007674	1	MIRN130B	hsa-mir-130b
19	PLA2G4C	ENSG00000105499	ENST00000599111	protein_coding	KNOWN	CCDS59403	9037	1656	551	48551100	48614074	-1	None	cPLA2-gamma
19	PLA2G4C	ENSG00000105499	ENST00000354276	protein_coding	KNOWN	CCDS54286	9037	1584	527	48551101	48614039	-1	None	cPLA2-gamma
19	PLA2G4C	ENSG00000105499	ENST00000594790	retained_intron	KNOWN	None	9037	None	None	48551103	48558316	-1	None	cPLA2-gamma
19	PLA2G4C	ENSG00000105499	ENST00000599921	protein_coding	KNOWN	CCDS12710	9037	1626	541	48551600	48614069	-1	None	cPLA2-gamma
19	PLA2G4C	ENSG00000105499	ENST00000596510	processed_transcript	KNOWN	None	9037	None	None	48555054	48576308	-1	None	cPLA2-gamma
19	PLA2G4C	ENSG00000105499	ENST00000596353	retained_intron	KNOWN	None	9037	None	None	48558147	48571188	-1	None	cPLA2-gamma
19	PLA2G4C	ENSG00000105499	ENST00000599300	protein_coding	NOVEL	None	9037	641	212	48558179	48593666	-1	None	cPLA2-gamma
19	PLA2G4C	ENSG00000105499	ENST00000595161	protein_coding	PUTATIVE	None	9037	391	129	48564617	48578094	-1	None	cPLA2-gamma
19	PLA2G4C	ENSG00000105499	ENST00000599239	processed_transcript	KNOWN	None	9037	None	None	48564889	48600194	-1	None	cPLA2-gamma
19	PLA2G4C	ENSG00000105499	ENST00000601946	protein_coding	NOVEL	None	9037	581	192	48565379	48601465	-1	None	cPLA2-gamma
19	PLA2G4C	ENSG00000105499	ENST00000593765	retained_intron	KNOWN	None	9037	None	None	48577695	48588367	-1	None	cPLA2-gamma
19	PLA2G4C	ENSG00000105499	ENST00000598185	retained_intron	KNOWN	None	9037	None	None	48578103	48593860	-1	None	cPLA2-gamma
19	PLA2G4C	ENSG00000105499	ENST00000598457	retained_intron	KNOWN	None	9037	None	None	48593451	48603014	-1	None	cPLA2-gamma
19	PLA2G4C	ENSG00000105499	ENST00000597713	nonsense_mediated_decay	KNOWN	None	9037	104	33	48598721	48601494	-1	None	cPLA2-gamma
19	PLA2G4C	ENSG00000105499	ENST00000597377	retained_intron	KNOWN	None	9037	None	None	48600279	48603263	-1	None	cPLA2-gamma
19	PLA2G4C	ENSG00000105499	ENST00000599063	retained_intron	KNOWN	None	9037	None	None	48601022	48614024	-1	None	cPLA2-gamma
19	PLA2G4C	ENSG00000105499	ENST00000595487	nonsense_mediated_decay	KNOWN	None	9037	111	36	48603001	48613818	-1	None	cPLA2-gamma
19	PLA2G4C	ENSG00000105499	ENST00000595899	processed_transcript	KNOWN	None	9037	None	None	48603029	48613820	-1	None	cPLA2-gamma
19	PLA2G4C	ENSG00000105499	ENST00000596352	protein_coding	PUTATIVE	None	9037	141	46	48603039	48613820	-1	None	cPLA2-gamma
19	PLA2G4C	ENSG00000105499	ENST00000594156	processed_transcript	KNOWN	None	9037	None	None	48603055	48614070	-1	None	cPLA2-gamma
19	PLA2G4C	ENSG00000105499	ENST00000598813	processed_transcript	KNOWN	None	9037	None	None	48606677	48613820	-1	None	cPLA2-gamma
19	PLA2G4C	ENSG00000105499	ENST00000600170	retained_intron	KNOWN	None	9037	None	None	48607289	48608738	-1	None	cPLA2-gamma
19	PLA2G4C	ENSG00000105499	ENST00000596138	protein_coding	KNOWN	None	9037	119	38	48608591	48614003	-1	None	cPLA2-gamma
19	PLA2G4C	ENSG00000105499	ENST00000598488	nonsense_mediated_decay	KNOWN	None	9037	132	43	48608660	48613820	-1	None	cPLA2-gamma
19	PLA2G4C	ENSG00000105499	ENST00000413144	protein_coding	KNOWN	CCDS12710	9037	1626	541	48551600	48609786	-1	None	cPLA2-gamma
Y	TTTY13	ENSG00000184991	ENST00000330337	lincRNA	KNOWN	None	18494	None	None	23745486	23756552	-1	None	TTY13, NCRNA00136
HSCHR6_MHC_MCF	None	ENSG00000258058	ENST00000552355	pseudogene	NOVEL	None	None	None	None	31308228	31308595	-1	None	None
22	RN7SL280P	ENSG00000244671	ENST00000496490	misc_RNA	KNOWN	None	46296	None	None	22077172	22077471	-1	None	None
6	None	ENSG00000231297	ENST00000456477	lincRNA	KNOWN	None	None	None	None	166513153	166526761	1	None	None
6	None	ENSG00000231297	ENST00000363572	snoRNA	NOVEL	None	None	None	None	166513341	166513412	1	None	None
16	None	ENSG00000234337	ENST00000567701	processed_pseudogene	KNOWN	None	None	None	None	52689219	52689957	1	None	None
16	None	ENSG00000234337	ENST00000540332	processed_pseudogene	KNOWN	None	None	None	None	52689216	52689962	1	None	None
19	None	ENSG00000269037	ENST00000595783	lincRNA	KNOWN	None	None	None	None	35396219	35399092	1	None	None
22	RNA5SP493	ENSG00000200985	ENST00000364115	rRNA	KNOWN	None	43393	None	None	22146723	22146813	1	RN5S493	None
Y	None	ENSG00000271123	ENST00000604924	processed_pseudogene	KNOWN	None	None	None	None	23793569	23793901	-1	None	None
2	ATP6V1E2	ENSG00000250565	ENST00000524249	processed_transcript	KNOWN	None	18125	None	None	46717889	46769317	-1	ATP6EL2, ATP6V1EL2	MGC9341, VMA4, ATP6E1
2	ATP6V1E2	ENSG00000250565	ENST00000306448	protein_coding	KNOWN	CCDS1826	18125	681	226	46738986	46747096	-1	ATP6EL2, ATP6V1EL2	MGC9341, VMA4, ATP6E1
2	ATP6V1E2	ENSG00000250565	ENST00000522587	protein_coding	KNOWN	CCDS1826	18125	681	226	46739006	46769696	-1	ATP6EL2, ATP6V1EL2	MGC9341, VMA4, ATP6E1
2	ATP6V1E2	ENSG00000250565	ENST00000524188	processed_transcript	KNOWN	None	18125	None	None	46755017	46768722	-1	ATP6EL2, ATP6V1EL2	MGC9341, VMA4, ATP6E1
2	ATP6V1E2	ENSG00000250565	ENST00000505245	processed_transcript	KNOWN	None	18125	None	None	46761439	46769141	-1	ATP6EL2, ATP6V1EL2	MGC9341, VMA4, ATP6E1
2	ATP6V1E2	ENSG00000250565	ENST00000522219	processed_transcript	KNOWN	None	18125	None	None	46762952	46768728	-1	ATP6EL2, ATP6V1EL2	MGC9341, VMA4, ATP6E1
10	MKI67IPP1	ENSG00000214434	ENST00000398317	processed_pseudogene	KNOWN	None	44949	None	None	30669103	30669991	1	None	None
22	None	ENSG00000225544	ENST00000435222	processed_pseudogene	KNOWN	None	None	None	None	22239621	22240012	-1	None	None
19	None	ENSG00000270876	ENST00000604333	lincRNA	KNOWN	None	None	None	None	35414203	35417716	-1	None	None
Y	CDY10P	ENSG00000226042	ENST00000452415	unprocessed_pseudogene	KNOWN	None	23848	None	None	23799361	23800927	-1	None	None
17	FAM171A2	ENSG00000161682	ENST00000293443	protein_coding	KNOWN	CCDS45701	30480	2481	826	42430583	42441243	-1	None	MGC34829
17	FAM171A2	ENSG00000161682	ENST00000589407	nonsense_mediated_decay	KNOWN	None	30480	480	159	42433335	42441180	-1	None	MGC34829
17	FAM171A2	ENSG00000161682	ENST00000588067	nonsense_mediated_decay	KNOWN	None	30480	480	159	42433674	42441202	-1	None	MGC34829
17	FAM171A2	ENSG00000161682	ENST00000592560	retained_intron	KNOWN	None	30480	None	None	42436714	42441168	-1	None	MGC34829
19	None	ENSG00000269303	ENST00000600959	antisense	KNOWN	None	None	None	None	35489137	35491074	-1	None	None
22	None	ENSG00000224086	ENST00000458178	antisense	KNOWN	None	None	None	None	22292665	22297799	1	None	None
22	None	ENSG00000224086	ENST00000538634	antisense	KNOWN	None	None	None	None	22292609	22294263	1	None	None
HSCHR6_MHC_COX	IER3	ENSG00000237155	ENST00000416336	protein_coding	KNOWN	None	5392	417	138	30700841	30702190	-1	None	IEX-1, DIF-2, PRG1, IEX-1L
HSCHR6_MHC_COX	IER3	ENSG00000237155	ENST00000439190	protein_coding	KNOWN	None	5392	471	156	30700841	30702196	-1	None	IEX-1, DIF-2, PRG1, IEX-1L
1	TRMT13	ENSG00000122435	ENST00000370143	protein_coding	KNOWN	None	25502	330	109	100598706	100606096	1	CCDC76	FLJ10287, FLJ11219
1	TRMT13	ENSG00000122435	ENST00000370141	protein_coding	KNOWN	CCDS765	25502	1446	481	100598719	100616053	1	CCDC76	FLJ10287, FLJ11219
1	TRMT13	ENSG00000122435	ENST00000482437	nonsense_mediated_decay	KNOWN	None	25502	528	175	100598721	100610123	1	CCDC76	FLJ10287, FLJ11219
1	TRMT13	ENSG00000122435	ENST00000370139	protein_coding	KNOWN	None	25502	393	130	100598771	100606368	1	CCDC76	FLJ10287, FLJ11219
1	TRMT13	ENSG00000122435	ENST00000493651	processed_transcript	KNOWN	None	25502	None	None	100608463	100609907	1	CCDC76	FLJ10287, FLJ11219
HSCHR6_MHC_COX	MOG	ENSG00000237834	ENST00000488730	processed_transcript	KNOWN	None	7197	None	None	29621422	29630627	1	None	None
HSCHR6_MHC_COX	MOG	ENSG00000237834	ENST00000383525	protein_coding	KNOWN	None	7197	744	247	29621436	29636747	1	None	None
HSCHR6_MHC_COX	MOG	ENSG00000237834	ENST00000439884	protein_coding	KNOWN	None	7197	888	295	29621466	29636747	1	None	None
HSCHR6_MHC_COX	MOG	ENSG00000237834	ENST00000473784	processed_transcript	KNOWN	None	7197	None	None	29621504	29624296	1	None	None
HSCHR6_MHC_COX	MOG	ENSG00000237834	ENST00000383521	protein_coding	KNOWN	None	7197	396	131	29621584	29636747	1	None	None
HSCHR6_MHC_COX	MOG	ENSG00000237834	ENST00000400671	protein_coding	KNOWN	None	7197	642	213	29621584	29636747	1	None	None
HSCHR6_MHC_COX	MOG	ENSG00000237834	ENST00000444952	protein_coding	KNOWN	None	7197	759	252	29621584	29636747	1	None	None
HSCHR6_MHC_COX	MOG	ENSG00000237834	ENST00000400669	protein_coding	KNOWN	None	7197	690	229	29621584	29636747	1	None	None
HSCHR6_MHC_COX	MOG	ENSG00000237834	ENST00000412760	protein_coding	KNOWN	None	7197	675	224	29621584	29636747	1	None	None
HSCHR6_MHC_COX	MOG	ENSG00000237834	ENST00000448816	protein_coding	KNOWN	None	7197	615	204	29621590	29636747	1	None	None
HSCHR6_MHC_COX	MOG	ENSG00000237834	ENST00000421858	protein_coding	KNOWN	None	7197	539	178	29623691	29636747	1	None	None
HSCHR6_MHC_COX	MOG	ENSG00000237834	ENST00000479627	processed_transcript	KNOWN	None	7197	None	None	29623691	29636747	1	None	None
HSCHR6_MHC_COX	MOG	ENSG00000237834	ENST00000494392	processed_transcript	KNOWN	None	7197	None	None	29623691	29636747	1	None	None
HSCHR6_MHC_COX	MOG	ENSG00000237834	ENST00000549492	protein_coding	KNOWN	None	7197	621	206	29621355	29636745	1	None	None
HSCHR6_MHC_COX	MOG	ENSG00000237834	ENST00000550849	protein_coding	KNOWN	None	7197	627	208	29621355	29636745	1	None	None
HSCHR6_MHC_COX	MOG	ENSG00000237834	ENST00000552906	protein_coding	KNOWN	None	7197	174	57	29621436	29629102	1	None	None
HSCHR6_MHC_COX	MOG	ENSG00000237834	ENST00000552956	protein_coding	KNOWN	None	7197	516	171	29621355	29636745	1	None	None
10	GLUD1P6	ENSG00000231209	ENST00000420004	unprocessed_pseudogene	KNOWN	None	23610	None	None	48169665	48175810	-1	GLUDP6	bK2173J9.1
Y	USP9YP3	ENSG00000237023	ENST00000434481	unprocessed_pseudogene	KNOWN	None	37739	None	None	23823812	23835894	1	None	None
15	RYR3	ENSG00000198838	ENST00000415757	protein_coding	KNOWN	CCDS58351	10485	14598	4865	33603163	34158302	1	None	None
15	RYR3	ENSG00000198838	ENST00000389232	protein_coding	KNOWN	CCDS45210	10485	14613	4870	33603177	34158303	1	None	None
15	RYR3	ENSG00000198838	ENST00000557931	retained_intron	KNOWN	None	10485	None	None	34112918	34113535	1	None	None
15	RYR3	ENSG00000198838	ENST00000558060	retained_intron	KNOWN	None	10485	None	None	34113494	34118020	1	None	None
15	RYR3	ENSG00000198838	ENST00000559917	processed_transcript	KNOWN	None	10485	None	None	34139317	34150056	1	None	None
15	RYR3	ENSG00000198838	ENST00000559333	processed_transcript	KNOWN	None	10485	None	None	34139772	34146618	1	None	None
15	RYR3	ENSG00000198838	ENST00000560791	retained_intron	KNOWN	None	10485	None	None	34145119	34150016	1	None	None
9	SUSD1	ENSG00000106868	ENST00000355396	protein_coding	PUTATIVE	None	25413	2119	705	114803065	114937465	-1	None	DKFZP761E1824
9	SUSD1	ENSG00000106868	ENST00000374270	protein_coding	KNOWN	CCDS6783	25413	2244	747	114803065	114937688	-1	None	DKFZP761E1824
9	SUSD1	ENSG00000106868	ENST00000374264	protein_coding	KNOWN	None	25413	2274	757	114803359	114937547	-1	None	DKFZP761E1824
9	SUSD1	ENSG00000106868	ENST00000475283	nonsense_mediated_decay	KNOWN	None	25413	138	45	114803363	114820751	-1	None	DKFZP761E1824
9	SUSD1	ENSG00000106868	ENST00000529933	processed_transcript	KNOWN	None	25413	None	None	114842354	114867238	-1	None	DKFZP761E1824
9	SUSD1	ENSG00000106868	ENST00000415074	protein_coding	NOVEL	None	25413	842	279	114860862	114904746	-1	None	DKFZP761E1824
9	SUSD1	ENSG00000106868	ENST00000528773	retained_intron	KNOWN	None	25413	None	None	114864456	114874363	-1	None	DKFZP761E1824
9	SUSD1	ENSG00000106868	ENST00000532348	retained_intron	KNOWN	None	25413	None	None	114875072	114904868	-1	None	DKFZP761E1824
9	SUSD1	ENSG00000106868	ENST00000482851	processed_transcript	KNOWN	None	25413	None	None	114886576	114908456	-1	None	DKFZP761E1824
9	SUSD1	ENSG00000106868	ENST00000374263	protein_coding	KNOWN	None	25413	2169	722	114803065	114937556	-1	None	DKFZP761E1824
HSCHR6_MHC_COX	HLA-DPA3	ENSG00000227936	ENST00000446019	unprocessed_pseudogene	KNOWN	None	19393	None	None	33020575	33032712	-1	None	None
22	PRAMEF24P	ENSG00000197549	ENST00000419303	processed_transcript	KNOWN	None	34302	None	None	22345496	22398256	-1	PRAMEL, PRAMEF24P	FLJ16327
22	PRAMEF24P	ENSG00000197549	ENST00000337471	processed_transcript	KNOWN	None	34302	None	None	22345497	22398332	-1	PRAMEL, PRAMEF24P	FLJ16327
22	PRAMEF24P	ENSG00000197549	ENST00000548391	transcribed_unprocessed_pseudogene	KNOWN	None	34302	None	None	22345633	22349825	-1	PRAMEL, PRAMEF24P	FLJ16327
22	PRAMEF24P	ENSG00000197549	ENST00000546598	unprocessed_pseudogene	KNOWN	None	34302	None	None	22345497	22398332	-1	PRAMEL, PRAMEF24P	FLJ16327
7	GTF2IRD2P1	ENSG00000214544	ENST00000425256	processed_transcript	KNOWN	None	33127	None	None	72656902	72685658	-1	GTF2IRD2P	None
7	GTF2IRD2P1	ENSG00000214544	ENST00000449689	transcribed_unprocessed_pseudogene	KNOWN	None	33127	None	None	72662611	72694143	-1	GTF2IRD2P	None
X	DMD	ENSG00000198947	ENST00000378723	protein_coding	KNOWN	CCDS14231	2928	1908	635	31137336	31285069	-1	None	BMD, DXS142, DXS164, DXS206, DXS230, DXS239, DXS268, DXS269, DXS270, DXS272
X	DMD	ENSG00000198947	ENST00000358062	protein_coding	NOVEL	None	2928	4161	1386	31137338	31893490	-1	None	BMD, DXS142, DXS164, DXS206, DXS230, DXS239, DXS268, DXS269, DXS270, DXS272
X	DMD	ENSG00000198947	ENST00000378677	protein_coding	KNOWN	CCDS55395	2928	11046	3681	31137345	33146477	-1	None	BMD, DXS142, DXS164, DXS206, DXS230, DXS239, DXS268, DXS269, DXS270, DXS272
X	DMD	ENSG00000198947	ENST00000357033	protein_coding	KNOWN	CCDS14233	2928	11058	3685	31137345	33229636	-1	None	BMD, DXS142, DXS164, DXS206, DXS230, DXS239, DXS268, DXS269, DXS270, DXS272
X	DMD	ENSG00000198947	ENST00000378702	protein_coding	KNOWN	CCDS14234	2928	1854	617	31139301	31284974	-1	None	BMD, DXS142, DXS164, DXS206, DXS230, DXS239, DXS268, DXS269, DXS270, DXS272
X	DMD	ENSG00000198947	ENST00000465285	protein_coding	NOVEL	None	2928	4273	1423	31139514	31947809	-1	None	BMD, DXS142, DXS164, DXS206, DXS230, DXS239, DXS268, DXS269, DXS270, DXS272
X	DMD	ENSG00000198947	ENST00000474231	protein_coding	KNOWN	None	2928	3732	1243	31139514	32173586	-1	None	BMD, DXS142, DXS164, DXS206, DXS230, DXS239, DXS268, DXS269, DXS270, DXS272
X	DMD	ENSG00000198947	ENST00000361471	protein_coding	KNOWN	CCDS14232	2928	1869	622	31139673	31285024	-1	None	BMD, DXS142, DXS164, DXS206, DXS230, DXS239, DXS268, DXS269, DXS270, DXS272
X	DMD	ENSG00000198947	ENST00000378680	protein_coding	NOVEL	None	2928	1578	525	31139790	31285066	-1	None	BMD, DXS142, DXS164, DXS206, DXS230, DXS239, DXS268, DXS269, DXS270, DXS272
X	DMD	ENSG00000198947	ENST00000378705	protein_coding	PUTATIVE	None	2928	714	237	31187703	31224717	-1	None	BMD, DXS142, DXS164, DXS206, DXS230, DXS239, DXS268, DXS269, DXS270, DXS272
X	DMD	ENSG00000198947	ENST00000475732	retained_intron	KNOWN	None	2928	None	None	31196556	31201044	-1	None	BMD, DXS142, DXS164, DXS206, DXS230, DXS239, DXS268, DXS269, DXS270, DXS272
X	DMD	ENSG00000198947	ENST00000469142	processed_transcript	KNOWN	None	2928	None	None	31227642	31453771	-1	None	BMD, DXS142, DXS164, DXS206, DXS230, DXS239, DXS268, DXS269, DXS270, DXS272
X	DMD	ENSG00000198947	ENST00000445312	processed_transcript	KNOWN	None	2928	None	None	31496436	31526598	-1	None	BMD, DXS142, DXS164, DXS206, DXS230, DXS239, DXS268, DXS269, DXS270, DXS272
X	DMD	ENSG00000198947	ENST00000471779	nonsense_mediated_decay	KNOWN	None	2928	93	30	31747803	31854900	-1	None	BMD, DXS142, DXS164, DXS206, DXS230, DXS239, DXS268, DXS269, DXS270, DXS272
X	DMD	ENSG00000198947	ENST00000488902	processed_transcript	KNOWN	None	2928	None	None	31950233	33229671	-1	None	BMD, DXS142, DXS164, DXS206, DXS230, DXS239, DXS268, DXS269, DXS270, DXS272
X	DMD	ENSG00000198947	ENST00000493412	protein_coding	PUTATIVE	None	2928	405	134	32360748	32366627	-1	None	BMD, DXS142, DXS164, DXS206, DXS230, DXS239, DXS268, DXS269, DXS270, DXS272
X	DMD	ENSG00000198947	ENST00000420596	protein_coding	PUTATIVE	None	2928	303	100	32382798	33229429	-1	None	BMD, DXS142, DXS164, DXS206, DXS230, DXS239, DXS268, DXS269, DXS270, DXS272
X	DMD	ENSG00000198947	ENST00000448370	protein_coding	PUTATIVE	None	2928	123	40	32382798	33229429	-1	None	BMD, DXS142, DXS164, DXS206, DXS230, DXS239, DXS268, DXS269, DXS270, DXS272
X	DMD	ENSG00000198947	ENST00000288447	protein_coding	PUTATIVE	None	2928	2319	772	32534713	33357558	-1	None	BMD, DXS142, DXS164, DXS206, DXS230, DXS239, DXS268, DXS269, DXS270, DXS272
X	DMD	ENSG00000198947	ENST00000480751	processed_transcript	KNOWN	None	2928	None	None	32591709	32834670	-1	None	BMD, DXS142, DXS164, DXS206, DXS230, DXS239, DXS268, DXS269, DXS270, DXS272
X	DMD	ENSG00000198947	ENST00000447523	protein_coding	PUTATIVE	None	2928	375	124	32591728	32867919	-1	None	BMD, DXS142, DXS164, DXS206, DXS230, DXS239, DXS268, DXS269, DXS270, DXS272
X	DMD	ENSG00000198947	ENST00000472681	processed_transcript	KNOWN	None	2928	None	None	32867845	33147194	-1	None	BMD, DXS142, DXS164, DXS206, DXS230, DXS239, DXS268, DXS269, DXS270, DXS272
X	DMD	ENSG00000198947	ENST00000472266	processed_transcript	KNOWN	None	2928	None	None	33038303	33146544	-1	None	BMD, DXS142, DXS164, DXS206, DXS230, DXS239, DXS268, DXS269, DXS270, DXS272
X	DMD	ENSG00000198947	ENST00000463609	processed_transcript	KNOWN	None	2928	None	None	33177312	33229549	-1	None	BMD, DXS142, DXS164, DXS206, DXS230, DXS239, DXS268, DXS269, DXS270, DXS272
X	DMD	ENSG00000198947	ENST00000359836	protein_coding	KNOWN	None	2928	3693	1230	31137345	32173586	-1	None	BMD, DXS142, DXS164, DXS206, DXS230, DXS239, DXS268, DXS269, DXS270, DXS272
X	DMD	ENSG00000198947	ENST00000343523	protein_coding	KNOWN	None	2928	3402	1133	31137345	32173586	-1	None	BMD, DXS142, DXS164, DXS206, DXS230, DXS239, DXS268, DXS269, DXS270, DXS272
X	DMD	ENSG00000198947	ENST00000378707	protein_coding	KNOWN	CCDS48091	2928	3678	1225	31137345	32173586	-1	None	BMD, DXS142, DXS164, DXS206, DXS230, DXS239, DXS268, DXS269, DXS270, DXS272
X	DMD	ENSG00000198947	ENST00000541735	protein_coding	KNOWN	CCDS55394	2928	3348	1115	31137345	32173586	-1	None	BMD, DXS142, DXS164, DXS206, DXS230, DXS239, DXS268, DXS269, DXS270, DXS272
5	PCDHA5	ENSG00000204965	ENST00000529619	protein_coding	KNOWN	None	8671	2673	890	140201222	140391170	1	CNRS6	CNR6, CRNR6, CNRN6, PCDH-ALPHA5
5	PCDHA5	ENSG00000204965	ENST00000529859	protein_coding	KNOWN	CCDS54917	8671	2811	936	140201361	140391929	1	CNRS6	CNR6, CRNR6, CNRN6, PCDH-ALPHA5
5	PCDHA5	ENSG00000204965	ENST00000378126	protein_coding	KNOWN	None	8671	2451	816	140201361	140203811	1	CNRS6	CNR6, CRNR6, CNRN6, PCDH-ALPHA5
6	MEA1	ENSG00000124733	ENST00000244711	protein_coding	KNOWN	CCDS4879	6986	558	185	42979832	42981706	-1	MEA	None
10	DUSP8P2	ENSG00000215024	ENST00000399452	processed_pseudogene	KNOWN	None	45001	None	None	48173347	48175106	-1	None	None
6	UFL1	ENSG00000014123	ENST00000461673	processed_transcript	KNOWN	None	23039	None	None	96969471	96970840	1	KIAA0776	NLBP, Maxer, RCAD
6	UFL1	ENSG00000014123	ENST00000369278	protein_coding	KNOWN	CCDS5034	23039	2385	794	96969684	97003152	1	KIAA0776	NLBP, Maxer, RCAD
4	None	ENSG00000251689	ENST00000507882	processed_pseudogene	KNOWN	None	None	None	None	263655	263964	-1	None	None
10	BMS1P6	ENSG00000251070	ENST00000456732	unprocessed_pseudogene	KNOWN	None	23654	None	None	48187416	48199256	1	BMS1LP6	bA302K17.2, OTTHUMG00000018142
10	BAMBI	ENSG00000095739	ENST00000375533	protein_coding	KNOWN	CCDS7162	30251	783	260	28966271	28971868	1	None	NMA
10	BAMBI	ENSG00000095739	ENST00000497699	retained_intron	KNOWN	None	30251	None	None	28966439	28971606	1	None	NMA
HSCHR6_MHC_MCF	USP8P1	ENSG00000226050	ENST00000445362	processed_pseudogene	KNOWN	None	13987	None	None	31320465	31323637	1	USP8P	KIAA0055-hom, D84394.7
HSCHR6_MHC_MCF	USP8P1	ENSG00000226050	ENST00000552040	pseudogene	KNOWN	None	13987	None	None	31320475	31321750	1	USP8P	KIAA0055-hom, D84394.7
4	NIPAL1	ENSG00000163293	ENST00000513724	processed_transcript	PUTATIVE	None	27194	None	None	47916159	48027211	1	NPAL1	DKFZp686A06115
4	NIPAL1	ENSG00000163293	ENST00000500571	processed_transcript	PUTATIVE	None	27194	None	None	47916244	47961158	1	NPAL1	DKFZp686A06115
4	NIPAL1	ENSG00000163293	ENST00000508180	processed_transcript	KNOWN	None	27194	None	None	48018789	48037630	1	NPAL1	DKFZp686A06115
4	NIPAL1	ENSG00000163293	ENST00000295461	protein_coding	KNOWN	CCDS3479	27194	1233	410	48018791	48042188	1	NPAL1	DKFZp686A06115
4	NIPAL1	ENSG00000163293	ENST00000511852	nonsense_mediated_decay	KNOWN	None	27194	396	131	48018827	48037901	1	NPAL1	DKFZp686A06115
4	NIPAL1	ENSG00000163293	ENST00000511123	protein_coding	PUTATIVE	None	27194	279	92	48027144	48040877	1	NPAL1	DKFZp686A06115
4	None	ENSG00000251535	ENST00000507448	processed_pseudogene	KNOWN	None	None	None	None	330047	330575	-1	None	None
4	None	ENSG00000251162	ENST00000508153	processed_pseudogene	KNOWN	None	None	None	None	165518871	165519128	1	None	None
5	TNFAIP8	ENSG00000145779	ENST00000274456	protein_coding	KNOWN	CCDS47257	17260	567	188	118604387	118729089	1	None	GG2-1, MDC-3.13, SCC-S2
5	TNFAIP8	ENSG00000145779	ENST00000388882	protein_coding	PUTATIVE	None	17260	204	67	118604449	118728779	1	None	GG2-1, MDC-3.13, SCC-S2
5	TNFAIP8	ENSG00000145779	ENST00000513374	protein_coding	PUTATIVE	None	17260	633	210	118668870	118729438	1	None	GG2-1, MDC-3.13, SCC-S2
5	TNFAIP8	ENSG00000145779	ENST00000504771	protein_coding	KNOWN	CCDS47258	17260	597	198	118690009	118735383	1	None	GG2-1, MDC-3.13, SCC-S2
5	TNFAIP8	ENSG00000145779	ENST00000503646	protein_coding	PUTATIVE	CCDS47258	17260	597	198	118690468	118730293	1	None	GG2-1, MDC-3.13, SCC-S2
5	TNFAIP8	ENSG00000145779	ENST00000504642	protein_coding	PUTATIVE	None	17260	603	200	118691008	118729141	1	None	GG2-1, MDC-3.13, SCC-S2
5	TNFAIP8	ENSG00000145779	ENST00000415806	protein_coding	PUTATIVE	None	17260	120	39	118691730	118730294	1	None	GG2-1, MDC-3.13, SCC-S2
2	RHOQ	ENSG00000119729	ENST00000465198	processed_transcript	KNOWN	None	17736	None	None	46768945	46803388	1	RASL7A, ARHQ	TC10
2	RHOQ	ENSG00000119729	ENST00000238738	protein_coding	KNOWN	CCDS33191	17736	618	205	46769867	46810260	1	RASL7A, ARHQ	TC10
2	RHOQ	ENSG00000119729	ENST00000432183	nonsense_mediated_decay	KNOWN	None	17736	153	50	46769875	46803795	1	RASL7A, ARHQ	TC10
2	RHOQ	ENSG00000119729	ENST00000489471	nonsense_mediated_decay	KNOWN	None	17736	276	91	46770288	46808409	1	RASL7A, ARHQ	TC10
2	RHOQ	ENSG00000119729	ENST00000482449	protein_coding	PUTATIVE	None	17736	225	74	46770539	46803795	1	RASL7A, ARHQ	TC10
2	RHOQ	ENSG00000119729	ENST00000473428	nonsense_mediated_decay	KNOWN	None	17736	103	33	46770906	46808457	1	RASL7A, ARHQ	TC10
2	RHOQ	ENSG00000119729	ENST00000494370	retained_intron	KNOWN	None	17736	None	None	46803267	46804264	1	RASL7A, ARHQ	TC10
2	RHOQ	ENSG00000119729	ENST00000489448	retained_intron	KNOWN	None	17736	None	None	46807423	46808185	1	RASL7A, ARHQ	TC10
4	None	ENSG00000248564	ENST00000508039	processed_pseudogene	KNOWN	None	None	None	None	331886	332372	-1	None	None
8	CTHRC1	ENSG00000164932	ENST00000330295	protein_coding	KNOWN	CCDS6299	18831	732	243	104383743	104395225	1	None	None
8	CTHRC1	ENSG00000164932	ENST00000415886	protein_coding	PUTATIVE	None	18831	444	147	104383778	104388279	1	None	None
8	CTHRC1	ENSG00000164932	ENST00000520337	protein_coding	KNOWN	CCDS59110	18831	690	229	104384661	104395217	1	None	None
8	CTHRC1	ENSG00000164932	ENST00000520880	protein_coding	PUTATIVE	None	18831	342	113	104389366	104394842	1	None	None
4	RNU6-284P	ENSG00000223037	ENST00000411105	snRNA	KNOWN	None	47247	None	None	165541884	165541989	1	None	None
4	None	ENSG00000250321	ENST00000506193	processed_pseudogene	KNOWN	None	None	None	None	336610	336751	-1	None	None
4	None	ENSG00000248162	ENST00000506546	processed_pseudogene	KNOWN	None	None	None	None	165646462	165647858	1	None	None
10	RNA5SP313	ENSG00000252754	ENST00000516945	rRNA	KNOWN	None	43213	None	None	48206895	48207010	-1	RN5S313	None
HSCHR6_MHC_MCF	RPL3P2	ENSG00000227656	ENST00000434677	processed_pseudogene	KNOWN	None	17834	None	None	31325200	31326399	1	None	RPL3-Hom
18	None	ENSG00000268960	ENST00000600091	protein_coding	KNOWN	None	None	537	178	45778672	45779208	1	None	None
10	None	ENSG00000270119	ENST00000602714	processed_transcript	KNOWN	None	None	None	None	48249334	48262214	1	None	None
17	HSF5	ENSG00000176160	ENST00000323777	protein_coding	KNOWN	CCDS32690	26862	1791	596	56497528	56565745	-1	None	FLJ40311
HSCHR6_MHC_MCF	WASF5P	ENSG00000231309	ENST00000420590	processed_pseudogene	KNOWN	None	21665	None	None	31332382	31333836	-1	None	Em:D84394.5
19	RPL32P34	ENSG00000239524	ENST00000486380	processed_pseudogene	KNOWN	None	35903	None	None	5277745	5278144	1	None	None
10	None	ENSG00000271217	ENST00000605262	processed_pseudogene	KNOWN	None	None	None	None	48254606	48254905	1	None	None
HSCHR6_MHC_MCF	None	ENSG00000228713	ENST00000450959	unprocessed_pseudogene	KNOWN	None	None	None	None	31352706	31353440	-1	None	None
10	None	ENSG00000226044	ENST00000454672	lincRNA	KNOWN	None	None	None	None	48324788	48332197	-1	None	None
X	None	ENSG00000212347	ENST00000391045	snoRNA	NOVEL	None	None	None	None	45752347	45752414	-1	None	None
X	XAGE2	ENSG00000185751	ENST00000330906	protein_coding	KNOWN	None	4112	336	111	52380351	52387001	-1	GAGED3	XAGE-2, CT12.2
HSCHR6_MHC_MCF	None	ENSG00000257632	ENST00000546963	pseudogene	NOVEL	None	None	None	None	31381070	31381196	-1	None	None
16	NETO2	ENSG00000171208	ENST00000562435	protein_coding	KNOWN	CCDS10727	14644	1578	525	47111614	47177908	-1	None	FLJ10430, NEOT2
16	NETO2	ENSG00000171208	ENST00000303155	protein_coding	NOVEL	CCDS58460	14644	1557	518	47115545	47177620	-1	None	FLJ10430, NEOT2
16	NETO2	ENSG00000171208	ENST00000562559	protein_coding	PUTATIVE	None	14644	1096	364	47116901	47162369	-1	None	FLJ10430, NEOT2
16	NETO2	ENSG00000171208	ENST00000564667	protein_coding	PUTATIVE	None	14644	685	227	47117018	47143545	-1	None	FLJ10430, NEOT2
16	NETO2	ENSG00000171208	ENST00000563078	protein_coding	PUTATIVE	None	14644	581	192	47117525	47156814	-1	None	FLJ10430, NEOT2
9	None	ENSG00000233137	ENST00000429493	lincRNA	KNOWN	None	None	None	None	37079893	37090398	1	None	None
9	None	ENSG00000233137	ENST00000593237	lincRNA	KNOWN	None	None	None	None	37079905	37087173	1	None	None
9	None	ENSG00000233137	ENST00000588557	lincRNA	KNOWN	None	None	None	None	37079926	37081046	1	None	None
9	None	ENSG00000233137	ENST00000430809	lincRNA	KNOWN	None	None	None	None	37079932	37086871	1	None	None
9	None	ENSG00000233137	ENST00000592157	lincRNA	KNOWN	None	None	None	None	37079934	37087149	1	None	None
9	None	ENSG00000233137	ENST00000588403	lincRNA	KNOWN	None	None	None	None	37080010	37087004	1	None	None
9	None	ENSG00000233137	ENST00000588314	lincRNA	KNOWN	None	None	None	None	37084987	37087821	1	None	None
4	None	ENSG00000248771	ENST00000515485	lincRNA	KNOWN	None	None	None	None	165675216	165722606	1	None	None
4	None	ENSG00000248771	ENST00000507311	lincRNA	KNOWN	None	None	None	None	165675283	165724947	1	None	None
12	RPLP0	ENSG00000089157	ENST00000392514	protein_coding	KNOWN	CCDS9193	10371	954	317	120634489	120639014	-1	None	PRLP0, P0, L10E, RPP0, LP0
12	RPLP0	ENSG00000089157	ENST00000551217	retained_intron	KNOWN	None	10371	None	None	120634502	120635178	-1	None	PRLP0, P0, L10E, RPP0, LP0
12	RPLP0	ENSG00000089157	ENST00000551150	protein_coding	KNOWN	CCDS9193	10371	954	317	120634502	120638902	-1	None	PRLP0, P0, L10E, RPP0, LP0
12	RPLP0	ENSG00000089157	ENST00000552292	protein_coding	PUTATIVE	None	10371	324	107	120634505	120635611	-1	None	PRLP0, P0, L10E, RPP0, LP0
12	RPLP0	ENSG00000089157	ENST00000313104	protein_coding	NOVEL	None	10371	768	255	120634505	120638910	-1	None	PRLP0, P0, L10E, RPP0, LP0
12	RPLP0	ENSG00000089157	ENST00000546989	protein_coding	NOVEL	None	10371	846	281	120634505	120638913	-1	None	PRLP0, P0, L10E, RPP0, LP0
12	RPLP0	ENSG00000089157	ENST00000552461	retained_intron	KNOWN	None	10371	None	None	120634510	120638913	-1	None	PRLP0, P0, L10E, RPP0, LP0
12	RPLP0	ENSG00000089157	ENST00000549098	nonsense_mediated_decay	KNOWN	None	10371	174	57	120634511	120638913	-1	None	PRLP0, P0, L10E, RPP0, LP0
12	RPLP0	ENSG00000089157	ENST00000551258	nonsense_mediated_decay	KNOWN	None	10371	471	156	120634617	120638900	-1	None	PRLP0, P0, L10E, RPP0, LP0
12	RPLP0	ENSG00000089157	ENST00000546990	protein_coding	NOVEL	None	10371	738	245	120634645	120638618	-1	None	PRLP0, P0, L10E, RPP0, LP0
12	RPLP0	ENSG00000089157	ENST00000547475	nonsense_mediated_decay	KNOWN	None	10371	429	142	120635125	120638627	-1	None	PRLP0, P0, L10E, RPP0, LP0
12	RPLP0	ENSG00000089157	ENST00000547211	protein_coding	NOVEL	None	10371	732	243	120635125	120638635	-1	None	PRLP0, P0, L10E, RPP0, LP0
12	RPLP0	ENSG00000089157	ENST00000547173	nonsense_mediated_decay	KNOWN	None	10371	501	166	120635126	120638628	-1	None	PRLP0, P0, L10E, RPP0, LP0
12	RPLP0	ENSG00000089157	ENST00000550856	protein_coding	NOVEL	None	10371	742	246	120635175	120639038	-1	None	PRLP0, P0, L10E, RPP0, LP0
12	RPLP0	ENSG00000089157	ENST00000548568	retained_intron	KNOWN	None	10371	None	None	120636161	120638635	-1	None	PRLP0, P0, L10E, RPP0, LP0
12	RPLP0	ENSG00000089157	ENST00000546564	retained_intron	KNOWN	None	10371	None	None	120636359	120638667	-1	None	PRLP0, P0, L10E, RPP0, LP0
12	RPLP0	ENSG00000089157	ENST00000547191	protein_coding	PUTATIVE	None	10371	459	152	120636507	120638911	-1	None	PRLP0, P0, L10E, RPP0, LP0
12	RPLP0	ENSG00000089157	ENST00000550296	processed_transcript	KNOWN	None	10371	None	None	120636548	120638628	-1	None	PRLP0, P0, L10E, RPP0, LP0
12	RPLP0	ENSG00000089157	ENST00000552902	retained_intron	KNOWN	None	10371	None	None	120636559	120638892	-1	None	PRLP0, P0, L10E, RPP0, LP0
12	RPLP0	ENSG00000089157	ENST00000548495	retained_intron	KNOWN	None	10371	None	None	120636662	120638913	-1	None	PRLP0, P0, L10E, RPP0, LP0
12	RPLP0	ENSG00000089157	ENST00000550423	protein_coding	PUTATIVE	None	10371	334	110	120636746	120638655	-1	None	PRLP0, P0, L10E, RPP0, LP0
12	RPLP0	ENSG00000089157	ENST00000551914	protein_coding	NOVEL	None	10371	365	120	120636750	120638623	-1	None	PRLP0, P0, L10E, RPP0, LP0
12	RPLP0	ENSG00000089157	ENST00000548551	retained_intron	KNOWN	None	10371	None	None	120636783	120638913	-1	None	PRLP0, P0, L10E, RPP0, LP0
12	RPLP0	ENSG00000089157	ENST00000549242	retained_intron	KNOWN	None	10371	None	None	120636784	120638913	-1	None	PRLP0, P0, L10E, RPP0, LP0
12	RPLP0	ENSG00000089157	ENST00000551783	retained_intron	KNOWN	None	10371	None	None	120636969	120638888	-1	None	PRLP0, P0, L10E, RPP0, LP0
12	RPLP0	ENSG00000089157	ENST00000551336	processed_transcript	PUTATIVE	None	10371	None	None	120637260	120638898	-1	None	PRLP0, P0, L10E, RPP0, LP0
12	RPLP0	ENSG00000089157	ENST00000228306	protein_coding	KNOWN	CCDS9193	10371	954	317	120634510	120639014	-1	None	PRLP0, P0, L10E, RPP0, LP0
X	None	ENSG00000215286	ENST00000447169	processed_pseudogene	KNOWN	None	None	None	None	45772553	45773306	1	None	None
9	None	ENSG00000234506	ENST00000432148	lincRNA	KNOWN	None	None	None	None	71158457	71161032	-1	None	None
9	None	ENSG00000234506	ENST00000446290	lincRNA	KNOWN	None	None	None	None	71158457	71161505	-1	None	None
6	None	ENSG00000221312	ENST00000408385	miRNA	NOVEL	None	None	None	None	65684286	65684385	1	None	None
10	None	ENSG00000228865	ENST00000431774	antisense	KNOWN	None	None	None	None	48357926	48358600	1	None	None
16	AQP8	ENSG00000103375	ENST00000566125	protein_coding	PUTATIVE	None	642	768	255	25227052	25240253	1	None	None
16	AQP8	ENSG00000103375	ENST00000219660	protein_coding	KNOWN	CCDS10626	642	786	261	25228242	25240261	1	None	None
HSCHR6_MHC_MCF	HCP5	ENSG00000227429	ENST00000457127	processed_transcript	KNOWN	None	21659	None	None	31508507	31509970	1	None	D6S2650E, P5-1
HSCHR6_MHC_MCF	HCP5	ENSG00000227429	ENST00000455463	processed_transcript	PUTATIVE	None	21659	None	None	31508507	31509970	1	None	D6S2650E, P5-1
7	C7orf55	ENSG00000164898	ENST00000468383	processed_transcript	KNOWN	None	26946	None	None	139024203	139030541	1	None	HSPC268, FMC1
7	C7orf55	ENSG00000164898	ENST00000481123	processed_transcript	KNOWN	None	26946	None	None	139025196	139030536	1	None	HSPC268, FMC1
7	C7orf55	ENSG00000164898	ENST00000482181	processed_transcript	KNOWN	None	26946	None	None	139025237	139030523	1	None	HSPC268, FMC1
7	C7orf55	ENSG00000164898	ENST00000488886	processed_transcript	KNOWN	None	26946	None	None	139025323	139030541	1	None	HSPC268, FMC1
7	C7orf55	ENSG00000164898	ENST00000297534	protein_coding	KNOWN	CCDS5853	26946	342	113	139025878	139031065	1	None	HSPC268, FMC1
6	None	ENSG00000256352	ENST00000539441	pseudogene	NOVEL	None	None	None	None	65720260	65720336	1	None	None
X	None	ENSG00000234613	ENST00000420585	lincRNA	KNOWN	None	None	None	None	45772702	45776475	-1	None	None
6	None	ENSG00000214558	ENST00000398578	processed_pseudogene	KNOWN	None	None	None	None	66012415	66014850	1	None	None
6	None	ENSG00000214558	ENST00000414090	processed_pseudogene	KNOWN	None	None	None	None	66011354	66014960	1	None	None
X	MED28P4	ENSG00000224701	ENST00000433137	processed_pseudogene	KNOWN	None	45081	None	None	45811197	45811768	-1	None	None
4	RNU6-668P	ENSG00000201050	ENST00000364180	snRNA	KNOWN	None	47631	None	None	165708442	165708548	1	None	None
HSCHR6_MHC_MCF	None	ENSG00000263679	ENST00000578893	misc_RNA	NOVEL	None	None	None	None	31540833	31540934	-1	None	None
HSCHR6_MHC_DBB	C6orf136	ENSG00000237012	ENST00000480998	processed_transcript	KNOWN	None	21301	None	None	30605056	30609302	1	None	Em:AB023049.8
HSCHR6_MHC_DBB	C6orf136	ENSG00000237012	ENST00000466518	processed_transcript	KNOWN	None	21301	None	None	30605072	30611120	1	None	Em:AB023049.8
HSCHR6_MHC_DBB	C6orf136	ENSG00000237012	ENST00000422530	protein_coding	KNOWN	None	21301	948	315	30605090	30611120	1	None	Em:AB023049.8
HSCHR6_MHC_DBB	C6orf136	ENSG00000237012	ENST00000461130	processed_transcript	KNOWN	None	21301	None	None	30605143	30610724	1	None	Em:AB023049.8
HSCHR6_MHC_DBB	C6orf136	ENSG00000237012	ENST00000456444	protein_coding	KNOWN	None	21301	546	181	30605181	30611120	1	None	Em:AB023049.8
HSCHR6_MHC_DBB	C6orf136	ENSG00000237012	ENST00000479702	processed_transcript	KNOWN	None	21301	None	None	30605203	30607930	1	None	Em:AB023049.8
HSCHR6_MHC_DBB	C6orf136	ENSG00000237012	ENST00000453871	protein_coding	KNOWN	None	21301	1302	433	30605438	30611120	1	None	Em:AB023049.8
HSCHR6_MHC_DBB	C6orf136	ENSG00000237012	ENST00000468808	retained_intron	KNOWN	None	21301	None	None	30609071	30611120	1	None	Em:AB023049.8
HSCHR6_MHC_DBB	C6orf136	ENSG00000237012	ENST00000547308	protein_coding	KNOWN	None	21301	1491	496	30605056	30611220	1	None	Em:AB023049.8
X	KRT18P68	ENSG00000213100	ENST00000392293	processed_pseudogene	KNOWN	None	48895	None	None	45842800	45843799	1	None	None
5	POU4F3	ENSG00000091010	ENST00000230732	protein_coding	KNOWN	CCDS4281	9220	1017	338	145718587	145720083	1	DFNA15	BRN3C
HSCHR6_MHC_MCF	PPIAP9	ENSG00000229706	ENST00000443254	processed_pseudogene	KNOWN	None	9272	None	None	31563620	31564431	-1	PPIP9	Em:AC006046.3
5	PCDHA6	ENSG00000081842	ENST00000529310	protein_coding	KNOWN	CCDS47281	8672	2853	950	140207563	140391929	1	CNRS2	CNR2, CRNR2, PCDH-ALPHA6
5	PCDHA6	ENSG00000081842	ENST00000527624	protein_coding	KNOWN	CCDS47282	8672	2061	686	140207650	140389665	1	CNRS2	CNR2, CRNR2, PCDH-ALPHA6
4	None	ENSG00000248329	ENST00000507152	lincRNA	KNOWN	None	None	None	None	165798156	165818675	1	None	None
4	None	ENSG00000248329	ENST00000515275	retained_intron	KNOWN	None	None	None	None	165798346	165800408	1	None	None
4	None	ENSG00000248329	ENST00000510062	lincRNA	KNOWN	None	None	None	None	165798394	165820117	1	None	None
4	None	ENSG00000248329	ENST00000505269	lincRNA	KNOWN	None	None	None	None	165816674	165820086	1	None	None
4	None	ENSG00000248329	ENST00000515405	retained_intron	KNOWN	None	None	None	None	165817616	165820117	1	None	None
12	SSH1	ENSG00000084112	ENST00000326495	protein_coding	KNOWN	CCDS9121	30579	3150	1049	109176470	109251366	-1	None	KIAA1298
12	SSH1	ENSG00000084112	ENST00000546433	nonsense_mediated_decay	KNOWN	None	30579	287	94	109178573	109201466	-1	None	KIAA1298
12	SSH1	ENSG00000084112	ENST00000551165	protein_coding	KNOWN	CCDS55882	30579	2079	692	109185695	109251366	-1	None	KIAA1298
12	SSH1	ENSG00000084112	ENST00000326470	protein_coding	KNOWN	CCDS53825	30579	2112	703	109185702	109221327	-1	None	KIAA1298
12	SSH1	ENSG00000084112	ENST00000547862	retained_intron	KNOWN	None	30579	None	None	109201388	109211156	-1	None	KIAA1298
12	SSH1	ENSG00000084112	ENST00000548522	nonsense_mediated_decay	KNOWN	None	30579	114	37	109201451	109251289	-1	None	KIAA1298
12	SSH1	ENSG00000084112	ENST00000547381	retained_intron	KNOWN	None	30579	None	None	109201569	109205410	-1	None	KIAA1298
12	SSH1	ENSG00000084112	ENST00000546697	protein_coding	PUTATIVE	None	30579	462	153	109203495	109220062	-1	None	KIAA1298
12	SSH1	ENSG00000084112	ENST00000546812	processed_transcript	KNOWN	None	30579	None	None	109205034	109220170	-1	None	KIAA1298
12	SSH1	ENSG00000084112	ENST00000360239	protein_coding	KNOWN	None	30579	2214	737	109176466	109251359	-1	None	KIAA1298
HSCHR6_MHC_MCF	RPL15P4	ENSG00000236547	ENST00000451666	processed_pseudogene	KNOWN	None	21663	None	None	31572245	31572824	1	None	Em:AC006046.2
15	FAM169B	ENSG00000185087	ENST00000558256	protein_coding	KNOWN	CCDS45360	26835	579	192	98980391	99057611	-1	None	FLJ39743, KIAA0888L
15	FAM169B	ENSG00000185087	ENST00000332908	protein_coding	KNOWN	CCDS45360	26835	579	192	98980391	99029207	-1	None	FLJ39743, KIAA0888L
19	FUT5	ENSG00000130383	ENST00000588525	protein_coding	KNOWN	CCDS12154	4016	1125	374	5865837	5870551	-1	None	FUC-TV
19	FUT5	ENSG00000130383	ENST00000252675	protein_coding	KNOWN	CCDS12154	4016	1125	374	5866182	5903798	-1	None	FUC-TV
22	CENPM	ENSG00000100162	ENST00000215980	protein_coding	KNOWN	CCDS14025	18352	543	180	42334725	42343168	-1	C22orf18	Pane1, CENP-M, MGC861
22	CENPM	ENSG00000100162	ENST00000472374	protein_coding	KNOWN	CCDS46719	18352	177	58	42334741	42336223	-1	C22orf18	Pane1, CENP-M, MGC861
22	CENPM	ENSG00000100162	ENST00000404067	protein_coding	PUTATIVE	None	18352	222	73	42334741	42342692	-1	C22orf18	Pane1, CENP-M, MGC861
22	CENPM	ENSG00000100162	ENST00000402338	protein_coding	KNOWN	None	18352	441	146	42334741	42342697	-1	C22orf18	Pane1, CENP-M, MGC861
22	CENPM	ENSG00000100162	ENST00000407253	protein_coding	NOVEL	CCDS46720	18352	324	107	42334753	42343140	-1	C22orf18	Pane1, CENP-M, MGC861
22	CENPM	ENSG00000100162	ENST00000402420	protein_coding	PUTATIVE	None	18352	378	125	42335176	42342733	-1	C22orf18	Pane1, CENP-M, MGC861
22	CENPM	ENSG00000100162	ENST00000396437	retained_intron	KNOWN	None	18352	None	None	42340925	42343155	-1	C22orf18	Pane1, CENP-M, MGC861
22	CENPM	ENSG00000100162	ENST00000460824	retained_intron	KNOWN	None	18352	None	None	42342312	42343137	-1	C22orf18	Pane1, CENP-M, MGC861
5	None	ENSG00000248029	ENST00000445660	lincRNA	KNOWN	None	None	None	None	54359007	54362058	1	None	None
7	REPIN1	ENSG00000214022	ENST00000519397	protein_coding	KNOWN	None	17922	439	145	150065278	150068769	1	ZNF464	RIP60, AP4, H_DJ0584D14.12, Zfp464
7	REPIN1	ENSG00000214022	ENST00000487455	retained_intron	KNOWN	None	17922	None	None	150065318	150067133	1	ZNF464	RIP60, AP4, H_DJ0584D14.12, Zfp464
7	REPIN1	ENSG00000214022	ENST00000479668	protein_coding	PUTATIVE	None	17922	411	136	150065361	150071128	1	ZNF464	RIP60, AP4, H_DJ0584D14.12, Zfp464
7	REPIN1	ENSG00000214022	ENST00000466559	protein_coding	PUTATIVE	None	17922	168	55	150065881	150069188	1	ZNF464	RIP60, AP4, H_DJ0584D14.12, Zfp464
7	REPIN1	ENSG00000214022	ENST00000489432	protein_coding	KNOWN	CCDS47745	17922	1875	624	150065889	150070034	1	ZNF464	RIP60, AP4, H_DJ0584D14.12, Zfp464
7	REPIN1	ENSG00000214022	ENST00000475514	protein_coding	PUTATIVE	None	17922	1098	365	150065898	150069251	1	ZNF464	RIP60, AP4, H_DJ0584D14.12, Zfp464
7	REPIN1	ENSG00000214022	ENST00000473391	retained_intron	KNOWN	None	17922	None	None	150065899	150067691	1	ZNF464	RIP60, AP4, H_DJ0584D14.12, Zfp464
7	REPIN1	ENSG00000214022	ENST00000482680	protein_coding	PUTATIVE	None	17922	411	136	150065901	150068892	1	ZNF464	RIP60, AP4, H_DJ0584D14.12, Zfp464
7	REPIN1	ENSG00000214022	ENST00000488943	protein_coding	PUTATIVE	None	17922	1181	392	150065911	150069331	1	ZNF464	RIP60, AP4, H_DJ0584D14.12, Zfp464
7	REPIN1	ENSG00000214022	ENST00000495535	retained_intron	KNOWN	None	17922	None	None	150065915	150067223	1	ZNF464	RIP60, AP4, H_DJ0584D14.12, Zfp464
7	REPIN1	ENSG00000214022	ENST00000467980	nonsense_mediated_decay	KNOWN	None	17922	144	47	150065929	150068721	1	ZNF464	RIP60, AP4, H_DJ0584D14.12, Zfp464
7	REPIN1	ENSG00000214022	ENST00000469309	retained_intron	KNOWN	None	17922	None	None	150065934	150067500	1	ZNF464	RIP60, AP4, H_DJ0584D14.12, Zfp464
7	REPIN1	ENSG00000214022	ENST00000518514	protein_coding	PUTATIVE	None	17922	411	136	150065960	150068631	1	ZNF464	RIP60, AP4, H_DJ0584D14.12, Zfp464
7	REPIN1	ENSG00000214022	ENST00000522266	nonsense_mediated_decay	KNOWN	None	17922	144	47	150065986	150068481	1	ZNF464	RIP60, AP4, H_DJ0584D14.12, Zfp464
7	REPIN1	ENSG00000214022	ENST00000518462	processed_transcript	PUTATIVE	None	17922	None	None	150066469	150068646	1	ZNF464	RIP60, AP4, H_DJ0584D14.12, Zfp464
7	REPIN1	ENSG00000214022	ENST00000486714	nonsense_mediated_decay	KNOWN	None	17922	264	87	150066733	150068744	1	ZNF464	RIP60, AP4, H_DJ0584D14.12, Zfp464
7	REPIN1	ENSG00000214022	ENST00000425389	protein_coding	KNOWN	CCDS43677	17922	1704	567	150068253	150071128	1	ZNF464	RIP60, AP4, H_DJ0584D14.12, Zfp464
7	REPIN1	ENSG00000214022	ENST00000540729	protein_coding	KNOWN	CCDS43677	17922	1704	567	150065369	150070210	1	ZNF464	RIP60, AP4, H_DJ0584D14.12, Zfp464
7	REPIN1	ENSG00000214022	ENST00000397281	protein_coding	KNOWN	CCDS43677	17922	1704	567	150065879	150071133	1	ZNF464	RIP60, AP4, H_DJ0584D14.12, Zfp464
7	REPIN1	ENSG00000214022	ENST00000444957	protein_coding	KNOWN	CCDS43677	17922	1704	567	150065879	150071133	1	ZNF464	RIP60, AP4, H_DJ0584D14.12, Zfp464
5	GZMAP1	ENSG00000249454	ENST00000503054	unprocessed_pseudogene	KNOWN	None	44137	None	None	54368843	54392381	1	None	None
7	POM121B	ENSG00000205578	ENST00000380760	unprocessed_pseudogene	KNOWN	None	34004	None	None	72707497	72715158	1	None	None
7	POM121B	ENSG00000205578	ENST00000411631	unprocessed_pseudogene	KNOWN	None	34004	None	None	72710927	72716496	1	None	None
11	None	ENSG00000240801	ENST00000430034	processed_transcript	KNOWN	None	None	None	None	2150351	2151194	-1	None	None
19	RN7SL626P	ENSG00000266694	ENST00000577496	misc_RNA	KNOWN	None	46642	None	None	5409469	5409766	1	None	None
7	None	ENSG00000224136	ENST00000422912	processed_pseudogene	KNOWN	None	None	None	None	117522913	117523729	1	None	None
12	SOX5	ENSG00000134532	ENST00000546136	protein_coding	KNOWN	CCDS44844	11201	2253	750	23682440	24048960	-1	None	L-SOX5, MGC35153
12	SOX5	ENSG00000134532	ENST00000451604	protein_coding	KNOWN	CCDS8699	11201	2292	763	23685286	24102637	-1	None	L-SOX5, MGC35153
12	SOX5	ENSG00000134532	ENST00000537393	protein_coding	PUTATIVE	None	11201	2187	728	23686617	24102581	-1	None	L-SOX5, MGC35153
12	SOX5	ENSG00000134532	ENST00000541536	protein_coding	KNOWN	CCDS58216	11201	1929	642	23686721	24048961	-1	None	L-SOX5, MGC35153
12	SOX5	ENSG00000134532	ENST00000396007	protein_coding	KNOWN	CCDS41761	11201	1134	377	23686968	23737546	-1	None	L-SOX5, MGC35153
12	SOX5	ENSG00000134532	ENST00000545921	protein_coding	PUTATIVE	CCDS58217	11201	2262	753	23686982	24103966	-1	None	L-SOX5, MGC35153
12	SOX5	ENSG00000134532	ENST00000367206	nonsense_mediated_decay	KNOWN	None	11201	1530	509	23689464	24103854	-1	None	L-SOX5, MGC35153
12	SOX5	ENSG00000134532	ENST00000535530	processed_transcript	KNOWN	None	11201	None	None	23716250	23891440	-1	None	L-SOX5, MGC35153
12	SOX5	ENSG00000134532	ENST00000542241	processed_transcript	KNOWN	None	11201	None	None	23728593	23785128	-1	None	L-SOX5, MGC35153
12	SOX5	ENSG00000134532	ENST00000536629	processed_transcript	KNOWN	None	11201	None	None	23728747	23891440	-1	None	L-SOX5, MGC35153
12	SOX5	ENSG00000134532	ENST00000536911	retained_intron	KNOWN	None	11201	None	None	23756855	23887649	-1	None	L-SOX5, MGC35153
12	SOX5	ENSG00000134532	ENST00000541847	protein_coding	PUTATIVE	None	11201	726	241	23893785	24103841	-1	None	L-SOX5, MGC35153
12	SOX5	ENSG00000134532	ENST00000441133	protein_coding	PUTATIVE	None	11201	387	128	23915409	24103954	-1	None	L-SOX5, MGC35153
12	SOX5	ENSG00000134532	ENST00000538083	protein_coding	PUTATIVE	None	11201	434	143	23998925	24097286	-1	None	L-SOX5, MGC35153
12	SOX5	ENSG00000134532	ENST00000536850	processed_transcript	KNOWN	None	11201	None	None	24072972	24102526	-1	None	L-SOX5, MGC35153
12	SOX5	ENSG00000134532	ENST00000309359	protein_coding	KNOWN	CCDS44844	11201	2253	750	23685232	24102637	-1	None	L-SOX5, MGC35153
12	SOX5	ENSG00000134532	ENST00000381381	protein_coding	KNOWN	CCDS58216	11201	1929	642	23685232	24102637	-1	None	L-SOX5, MGC35153
5	MIR449A	ENSG00000198983	ENST00000362113	miRNA	KNOWN	None	27645	None	None	54466360	54466450	-1	MIRN449, MIRN449A	hsa-mir-449, hsa-mir-449a
19	TINCR	ENSG00000223573	ENST00000448587	lincRNA	KNOWN	None	14607	None	None	5558178	5568045	-1	PLAC2	FLJ90734, NCRNA00036, LINC00036
19	TINCR	ENSG00000223573	ENST00000590789	lincRNA	KNOWN	None	14607	None	None	5561045	5562309	-1	PLAC2	FLJ90734, NCRNA00036, LINC00036
19	TINCR	ENSG00000223573	ENST00000587632	lincRNA	KNOWN	None	14607	None	None	5561643	5567842	-1	PLAC2	FLJ90734, NCRNA00036, LINC00036
5	MIR449B	ENSG00000207728	ENST00000384995	miRNA	KNOWN	None	32794	None	None	54466474	54466570	-1	MIRN449B	hsa-mir-449b
7	TOMM7	ENSG00000196683	ENST00000463284	processed_transcript	PUTATIVE	None	21648	None	None	22852251	22862468	-1	None	None
7	TOMM7	ENSG00000196683	ENST00000358435	protein_coding	KNOWN	CCDS5376	21648	168	55	22852251	22862470	-1	None	None
7	TOMM7	ENSG00000196683	ENST00000483581	retained_intron	KNOWN	None	21648	None	None	22852590	22857954	-1	None	None
7	TOMM7	ENSG00000196683	ENST00000405021	protein_coding	PUTATIVE	None	21648	156	51	22852590	22861963	-1	None	None
7	TOMM7	ENSG00000196683	ENST00000372879	protein_coding	PUTATIVE	None	21648	378	125	22852592	22862410	-1	None	None
7	TOMM7	ENSG00000196683	ENST00000496129	retained_intron	KNOWN	None	21648	None	None	22857282	22862429	-1	None	None
18	CTIF	ENSG00000134030	ENST00000256413	protein_coding	KNOWN	CCDS11935	23925	1797	598	46065417	46389588	1	KIAA0427	None
18	CTIF	ENSG00000134030	ENST00000382998	protein_coding	KNOWN	CCDS45864	23925	1803	600	46065529	46388277	1	KIAA0427	None
18	CTIF	ENSG00000134030	ENST00000591412	protein_coding	NOVEL	None	23925	360	119	46065581	46190182	1	KIAA0427	None
18	CTIF	ENSG00000134030	ENST00000591387	protein_coding	KNOWN	None	23925	414	137	46065786	46190905	1	KIAA0427	None
18	CTIF	ENSG00000134030	ENST00000587752	protein_coding	KNOWN	None	23925	586	194	46066359	46284291	1	KIAA0427	None
18	CTIF	ENSG00000134030	ENST00000588345	protein_coding	KNOWN	None	23925	313	103	46066466	46190183	1	KIAA0427	None
18	CTIF	ENSG00000134030	ENST00000589585	processed_transcript	KNOWN	None	23925	None	None	46147815	46238028	1	KIAA0427	None
18	CTIF	ENSG00000134030	ENST00000587769	processed_transcript	KNOWN	None	23925	None	None	46218883	46284600	1	KIAA0427	None
18	CTIF	ENSG00000134030	ENST00000587860	retained_intron	KNOWN	None	23925	None	None	46286553	46386936	1	KIAA0427	None
18	CTIF	ENSG00000134030	ENST00000592658	processed_transcript	KNOWN	None	23925	None	None	46386253	46388726	1	KIAA0427	None
18	CTIF	ENSG00000134030	ENST00000590422	processed_transcript	KNOWN	None	23925	None	None	46388915	46389579	1	KIAA0427	None
11	MIR483	ENSG00000207805	ENST00000385070	miRNA	KNOWN	None	32340	None	None	2155364	2155439	-1	MIRN483	hsa-mir-483
X	PCNAP3	ENSG00000214009	ENST00000397222	processed_pseudogene	KNOWN	None	43736	None	None	45918186	45918963	-1	None	None
9	None	ENSG00000264545	ENST00000404796	nonsense_mediated_decay	KNOWN	None	None	432	143	21802635	22032985	1	None	None
5	MIR449C	ENSG00000251856	ENST00000516047	miRNA	KNOWN	None	37302	None	None	54468090	54468181	-1	None	hsa-mir-449c
5	None	ENSG00000251307	ENST00000506435	antisense	KNOWN	None	None	None	None	54529762	54591029	1	None	None
X	XAGE1C	ENSG00000183461	ENST00000375589	protein_coding	KNOWN	CCDS43955	30679	246	81	52511769	52516905	1	None	CT12.1c
X	XAGE1C	ENSG00000183461	ENST00000505738	retained_intron	KNOWN	None	30679	None	None	52511876	52513814	1	None	CT12.1c
X	XAGE1C	ENSG00000183461	ENST00000375588	protein_coding	KNOWN	CCDS48124	30679	210	69	52511925	52516905	1	None	CT12.1c
X	XAGE1C	ENSG00000183461	ENST00000338266	processed_transcript	KNOWN	None	30679	None	None	52511970	52516905	1	None	CT12.1c
X	XAGE1C	ENSG00000183461	ENST00000494476	retained_intron	KNOWN	None	30679	None	None	52513957	52516905	1	None	CT12.1c
X	XAGE1C	ENSG00000183461	ENST00000399795	protein_coding	KNOWN	None	30679	441	146	52511761	52516905	1	None	CT12.1c
X	XAGE1C	ENSG00000183461	ENST00000446098	protein_coding	KNOWN	CCDS48124	30679	210	69	52513455	52516905	1	None	CT12.1c
2	UGGT1	ENSG00000136731	ENST00000430075	nonsense_mediated_decay	KNOWN	None	15663	177	58	128848774	128865628	1	UGCGL1	HUGT1
2	UGGT1	ENSG00000136731	ENST00000438277	nonsense_mediated_decay	KNOWN	None	15663	165	54	128848782	128928964	1	UGCGL1	HUGT1
2	UGGT1	ENSG00000136731	ENST00000376723	nonsense_mediated_decay	KNOWN	None	15663	141	46	128848785	128949002	1	UGCGL1	HUGT1
2	UGGT1	ENSG00000136731	ENST00000259253	protein_coding	KNOWN	CCDS2154	15663	4668	1555	128848885	128953251	1	UGCGL1	HUGT1
2	UGGT1	ENSG00000136731	ENST00000488439	retained_intron	KNOWN	None	15663	None	None	128903226	128918123	1	UGCGL1	HUGT1
2	UGGT1	ENSG00000136731	ENST00000418197	protein_coding	NOVEL	None	15663	394	130	128937360	128947521	1	UGCGL1	HUGT1
2	UGGT1	ENSG00000136731	ENST00000465836	processed_transcript	PUTATIVE	None	15663	None	None	128944811	128947558	1	UGCGL1	HUGT1
2	UGGT1	ENSG00000136731	ENST00000375990	protein_coding	KNOWN	None	15663	4596	1531	128848782	128953247	1	UGCGL1	HUGT1
11	IGF2-AS	ENSG00000099869	ENST00000445504	antisense	KNOWN	None	14062	None	None	2161731	2169872	1	IGF2AS	PEG8, IGF2-AS1
11	IGF2-AS	ENSG00000099869	ENST00000381361	antisense	KNOWN	None	14062	None	None	2161747	2169894	1	IGF2AS	PEG8, IGF2-AS1
11	IGF2-AS	ENSG00000099869	ENST00000381363	antisense	KNOWN	None	14062	None	None	2161874	2169037	1	IGF2AS	PEG8, IGF2-AS1
7	None	ENSG00000225005	ENST00000417100	processed_pseudogene	KNOWN	None	None	None	None	72728107	72729213	1	None	None
16	None	ENSG00000260342	ENST00000567078	protein_coding	PUTATIVE	None	None	711	236	18799385	18812841	-1	None	None
9	C9orf53	ENSG00000224854	ENST00000441769	protein_coding	KNOWN	None	23831	240	79	21967137	21967738	1	None	bA149I2.3
X	ACTBP1	ENSG00000229145	ENST00000417985	processed_pseudogene	KNOWN	None	134	None	None	46147451	46148563	-1	None	None
14	None	ENSG00000257040	ENST00000542853	protein_coding	KNOWN	None	None	384	127	72456191	72458326	-1	None	None
7	RNU6-1080P	ENSG00000206709	ENST00000383982	snRNA	KNOWN	None	48043	None	None	72753097	72753203	-1	None	None
7	None	ENSG00000202035	ENST00000365165	misc_RNA	NOVEL	None	None	None	None	72818118	72818219	-1	None	None
16	CENPT	ENSG00000102901	ENST00000569862	retained_intron	KNOWN	None	25787	None	None	67862060	67867816	-1	C16orf56	FLJ13111, CENP-T
16	CENPT	ENSG00000102901	ENST00000562787	protein_coding	KNOWN	CCDS42182	25787	1686	561	67862060	67881361	-1	C16orf56	FLJ13111, CENP-T
16	CENPT	ENSG00000102901	ENST00000562513	nonsense_mediated_decay	KNOWN	None	25787	492	163	67862062	67867763	-1	C16orf56	FLJ13111, CENP-T
16	CENPT	ENSG00000102901	ENST00000436104	retained_intron	KNOWN	None	25787	None	None	67862062	67867800	-1	C16orf56	FLJ13111, CENP-T
16	CENPT	ENSG00000102901	ENST00000565157	retained_intron	KNOWN	None	25787	None	None	67862062	67867800	-1	C16orf56	FLJ13111, CENP-T
16	CENPT	ENSG00000102901	ENST00000568495	retained_intron	KNOWN	None	25787	None	None	67862088	67864156	-1	C16orf56	FLJ13111, CENP-T
16	CENPT	ENSG00000102901	ENST00000574569	retained_intron	KNOWN	None	25787	None	None	67862089	67863073	-1	C16orf56	FLJ13111, CENP-T
16	CENPT	ENSG00000102901	ENST00000563885	retained_intron	KNOWN	None	25787	None	None	67862090	67867783	-1	C16orf56	FLJ13111, CENP-T
16	CENPT	ENSG00000102901	ENST00000564817	protein_coding	NOVEL	None	25787	1521	506	67862112	67867821	-1	C16orf56	FLJ13111, CENP-T
16	CENPT	ENSG00000102901	ENST00000566758	protein_coding	NOVEL	None	25787	832	276	67863848	67867788	-1	C16orf56	FLJ13111, CENP-T
16	CENPT	ENSG00000102901	ENST00000564128	retained_intron	KNOWN	None	25787	None	None	67863852	67867849	-1	C16orf56	FLJ13111, CENP-T
16	CENPT	ENSG00000102901	ENST00000562947	processed_transcript	KNOWN	None	25787	None	None	67864298	67866215	-1	C16orf56	FLJ13111, CENP-T
16	CENPT	ENSG00000102901	ENST00000562462	nonsense_mediated_decay	KNOWN	None	25787	222	73	67864808	67867841	-1	C16orf56	FLJ13111, CENP-T
16	CENPT	ENSG00000102901	ENST00000565713	nonsense_mediated_decay	KNOWN	None	25787	306	101	67865119	67867846	-1	C16orf56	FLJ13111, CENP-T
16	CENPT	ENSG00000102901	ENST00000568069	nonsense_mediated_decay	KNOWN	None	25787	222	73	67865123	67867832	-1	C16orf56	FLJ13111, CENP-T
16	CENPT	ENSG00000102901	ENST00000564538	processed_transcript	KNOWN	None	25787	None	None	67865489	67867763	-1	C16orf56	FLJ13111, CENP-T
16	CENPT	ENSG00000102901	ENST00000566067	nonsense_mediated_decay	KNOWN	None	25787	240	79	67865672	67867846	-1	C16orf56	FLJ13111, CENP-T
16	CENPT	ENSG00000102901	ENST00000562338	nonsense_mediated_decay	KNOWN	None	25787	345	114	67865697	67867834	-1	C16orf56	FLJ13111, CENP-T
16	CENPT	ENSG00000102901	ENST00000562483	retained_intron	KNOWN	None	25787	None	None	67865732	67867799	-1	C16orf56	FLJ13111, CENP-T
16	CENPT	ENSG00000102901	ENST00000568564	retained_intron	KNOWN	None	25787	None	None	67866295	67868115	-1	C16orf56	FLJ13111, CENP-T
16	CENPT	ENSG00000102901	ENST00000561593	protein_coding	KNOWN	None	25787	194	63	67866365	67881596	-1	C16orf56	FLJ13111, CENP-T
16	CENPT	ENSG00000102901	ENST00000565114	protein_coding	KNOWN	None	25787	146	47	67866413	67881599	-1	C16orf56	FLJ13111, CENP-T
16	CENPT	ENSG00000102901	ENST00000567985	protein_coding	KNOWN	None	25787	20	5	67867743	67877045	-1	C16orf56	FLJ13111, CENP-T
16	CENPT	ENSG00000102901	ENST00000569094	processed_transcript	KNOWN	None	25787	None	None	67867792	67881658	-1	C16orf56	FLJ13111, CENP-T
16	CENPT	ENSG00000102901	ENST00000564346	processed_transcript	KNOWN	None	25787	None	None	67867793	67877011	-1	C16orf56	FLJ13111, CENP-T
16	CENPT	ENSG00000102901	ENST00000565385	processed_transcript	KNOWN	None	25787	None	None	67867848	67877032	-1	C16orf56	FLJ13111, CENP-T
16	CENPT	ENSG00000102901	ENST00000568652	processed_transcript	KNOWN	None	25787	None	None	67867859	67881655	-1	C16orf56	FLJ13111, CENP-T
16	CENPT	ENSG00000102901	ENST00000565132	processed_transcript	KNOWN	None	25787	None	None	67867869	67880726	-1	C16orf56	FLJ13111, CENP-T
16	CENPT	ENSG00000102901	ENST00000564144	processed_transcript	KNOWN	None	25787	None	None	67867877	67877208	-1	C16orf56	FLJ13111, CENP-T
16	CENPT	ENSG00000102901	ENST00000567482	processed_transcript	KNOWN	None	25787	None	None	67867928	67877193	-1	C16orf56	FLJ13111, CENP-T
16	CENPT	ENSG00000102901	ENST00000569019	processed_transcript	KNOWN	None	25787	None	None	67867937	67877240	-1	C16orf56	FLJ13111, CENP-T
16	CENPT	ENSG00000102901	ENST00000568765	processed_transcript	KNOWN	None	25787	None	None	67867937	67881714	-1	C16orf56	FLJ13111, CENP-T
16	CENPT	ENSG00000102901	ENST00000565436	processed_transcript	KNOWN	None	25787	None	None	67869151	67875853	-1	C16orf56	FLJ13111, CENP-T
16	CENPT	ENSG00000102901	ENST00000440851	protein_coding	KNOWN	CCDS42182	25787	1686	561	67862062	67869241	-1	C16orf56	FLJ13111, CENP-T
16	CENPT	ENSG00000102901	ENST00000219172	protein_coding	KNOWN	CCDS42182	25787	1686	561	67862064	67867799	-1	C16orf56	FLJ13111, CENP-T
16	CENPT	ENSG00000102901	ENST00000445712	protein_coding	KNOWN	None	25787	447	148	67864808	67867788	-1	C16orf56	FLJ13111, CENP-T
1	LRRC39	ENSG00000122477	ENST00000370137	protein_coding	KNOWN	CCDS766	28228	1008	335	100614409	100643771	-1	None	MGC14816
1	LRRC39	ENSG00000122477	ENST00000370138	protein_coding	KNOWN	CCDS58014	28228	1020	339	100614409	100643771	-1	None	MGC14816
1	LRRC39	ENSG00000122477	ENST00000342895	protein_coding	KNOWN	CCDS766	28228	1008	335	100614409	100643771	-1	None	MGC14816
3	TPRXL	ENSG00000180438	ENST00000532880	protein_coding	KNOWN	None	32178	61	19	13978756	14105737	1	None	FLJ35107
3	TPRXL	ENSG00000180438	ENST00000530586	protein_coding	KNOWN	None	32178	36	11	13978879	14105712	1	None	FLJ35107
3	TPRXL	ENSG00000180438	ENST00000532753	processed_transcript	KNOWN	None	32178	None	None	13978879	14124311	1	None	FLJ35107
3	TPRXL	ENSG00000180438	ENST00000524375	protein_coding	KNOWN	None	32178	152	49	13978896	14105828	1	None	FLJ35107
3	TPRXL	ENSG00000180438	ENST00000326972	protein_coding	KNOWN	None	32178	759	252	13978901	14107479	1	None	FLJ35107
3	TPRXL	ENSG00000180438	ENST00000529129	protein_coding	KNOWN	None	32178	115	37	13984843	14105791	1	None	FLJ35107
3	TPRXL	ENSG00000180438	ENST00000528312	protein_coding	KNOWN	None	32178	129	42	14043924	14105805	1	None	FLJ35107
3	TPRXL	ENSG00000180438	ENST00000424053	protein_coding	KNOWN	None	32178	759	252	14058901	14107479	1	None	FLJ35107
3	TPRXL	ENSG00000180438	ENST00000528067	protein_coding	KNOWN	None	32178	225	74	14058980	14105901	1	None	FLJ35107
3	TPRXL	ENSG00000180438	ENST00000429201	protein_coding	KNOWN	None	32178	759	252	14059053	14107479	1	None	FLJ35107
3	TPRXL	ENSG00000180438	ENST00000532924	protein_coding	KNOWN	None	32178	449	148	14061200	14106125	1	None	FLJ35107
3	TPRXL	ENSG00000180438	ENST00000528040	protein_coding	KNOWN	None	32178	62	19	14089702	14105738	1	None	FLJ35107
4	MIR571	ENSG00000207642	ENST00000384910	miRNA	KNOWN	None	32827	None	None	343946	344041	1	MIRN571	hsa-mir-571
21	C21orf91	ENSG00000154642	ENST00000284881	protein_coding	KNOWN	CCDS42907	16459	894	297	19161284	19191703	-1	C21orf38, C21orf14	YG81, EURL, CSSG1
21	C21orf91	ENSG00000154642	ENST00000400559	protein_coding	KNOWN	CCDS42908	16459	891	296	19165121	19191703	-1	C21orf38, C21orf14	YG81, EURL, CSSG1
21	C21orf91	ENSG00000154642	ENST00000400558	protein_coding	PUTATIVE	CCDS42909	16459	666	221	19165564	19191703	-1	C21orf38, C21orf14	YG81, EURL, CSSG1
21	C21orf91	ENSG00000154642	ENST00000405964	protein_coding	KNOWN	None	16459	727	241	19167525	19191336	-1	C21orf38, C21orf14	YG81, EURL, CSSG1
21	C21orf91	ENSG00000154642	ENST00000493464	processed_transcript	KNOWN	None	16459	None	None	19169040	19191664	-1	C21orf38, C21orf14	YG81, EURL, CSSG1
21	C21orf91	ENSG00000154642	ENST00000482915	retained_intron	KNOWN	None	16459	None	None	19190038	19191679	-1	C21orf38, C21orf14	YG81, EURL, CSSG1
2	PIGF	ENSG00000151665	ENST00000281382	protein_coding	KNOWN	CCDS1827	8962	660	219	46808076	46844258	-1	None	None
2	PIGF	ENSG00000151665	ENST00000482786	processed_transcript	PUTATIVE	None	8962	None	None	46808424	46815761	-1	None	None
2	PIGF	ENSG00000151665	ENST00000420164	nonsense_mediated_decay	KNOWN	None	8962	174	57	46808424	46839413	-1	None	None
2	PIGF	ENSG00000151665	ENST00000306465	protein_coding	KNOWN	CCDS1828	8962	621	206	46808424	46844190	-1	None	None
2	PIGF	ENSG00000151665	ENST00000412717	nonsense_mediated_decay	KNOWN	None	8962	339	112	46808555	46844194	-1	None	None
2	PIGF	ENSG00000151665	ENST00000495933	processed_transcript	KNOWN	None	8962	None	None	46839367	46844169	-1	None	None
2	PIGF	ENSG00000151665	ENST00000474980	protein_coding	KNOWN	None	8962	147	48	46842157	46844176	-1	None	None
7	None	ENSG00000234826	ENST00000427030	lincRNA	KNOWN	None	None	None	None	117638912	117644099	-1	None	None
17	SEZ6	ENSG00000063015	ENST00000360295	protein_coding	KNOWN	CCDS45638	15955	2982	993	27281919	27333163	-1	None	None
17	SEZ6	ENSG00000063015	ENST00000540632	protein_coding	KNOWN	None	15955	2760	919	27281923	27308890	-1	None	None
17	SEZ6	ENSG00000063015	ENST00000317338	protein_coding	KNOWN	CCDS45639	15955	2985	994	27281923	27333316	-1	None	None
17	SEZ6	ENSG00000063015	ENST00000540419	nonsense_mediated_decay	KNOWN	None	15955	1364	453	27281924	27308610	-1	None	None
17	SEZ6	ENSG00000063015	ENST00000535262	protein_coding	PUTATIVE	None	15955	304	100	27282149	27283457	-1	None	None
17	SEZ6	ENSG00000063015	ENST00000442608	protein_coding	NOVEL	None	15955	2943	980	27282149	27332931	-1	None	None
17	SEZ6	ENSG00000063015	ENST00000544224	retained_intron	KNOWN	None	15955	None	None	27283382	27284831	-1	None	None
17	SEZ6	ENSG00000063015	ENST00000539265	protein_coding	PUTATIVE	None	15955	395	130	27287258	27287991	-1	None	None
17	SEZ6	ENSG00000063015	ENST00000585644	protein_coding	PUTATIVE	None	15955	170	55	27308568	27333458	-1	None	None
17	SEZ6	ENSG00000063015	ENST00000335960	protein_coding	KNOWN	None	15955	1527	508	27283199	27333081	-1	None	None
X	RNU6-1078P	ENSG00000201392	ENST00000364522	snRNA	KNOWN	None	48041	None	None	71185822	71185924	-1	None	None
19	None	ENSG00000267740	ENST00000592091	nonsense_mediated_decay	KNOWN	None	None	366	121	5866182	5903798	-1	None	None
19	None	ENSG00000267740	ENST00000586349	protein_coding	PUTATIVE	None	None	506	167	5867626	5903714	-1	None	None
19	None	ENSG00000267740	ENST00000585661	protein_coding	PUTATIVE	None	None	431	142	5867626	5903714	-1	None	None
15	SNURF	ENSG00000214265	ENST00000577949	protein_coding	KNOWN	CCDS10016	11171	216	71	25200133	25213555	1	None	None
15	SNURF	ENSG00000214265	ENST00000580062	nonsense_mediated_decay	KNOWN	CCDS10016	11171	216	71	25200151	25222997	1	None	None
15	SNURF	ENSG00000214265	ENST00000338327	protein_coding	KNOWN	CCDS10016	11171	216	71	25200161	25213976	1	None	None
15	SNURF	ENSG00000214265	ENST00000551312	nonsense_mediated_decay	KNOWN	CCDS10016	11171	216	71	25200181	25245423	1	None	None
15	SNURF	ENSG00000214265	ENST00000557230	nonsense_mediated_decay	KNOWN	None	11171	114	37	25200181	25245423	1	None	None
15	SNURF	ENSG00000214265	ENST00000557108	retained_intron	KNOWN	None	11171	None	None	25223730	25228933	1	None	None
15	SNURF	ENSG00000214265	ENST00000338094	protein_coding	KNOWN	CCDS10016	11171	216	71	25200135	25223729	1	None	None
7	None	ENSG00000222226	ENST00000410294	miRNA	NOVEL	None	None	None	None	118102553	118102648	1	None	None
X	RPS26P11	ENSG00000196933	ENST00000463445	processed_pseudogene	KNOWN	None	31817	None	None	71264395	71264742	1	RPS26L1	bA366E13.1
4	None	ENSG00000249025	ENST00000514008	processed_pseudogene	KNOWN	None	None	None	None	387323	387447	1	None	None
21	SPATC1L	ENSG00000160284	ENST00000330205	protein_coding	KNOWN	CCDS13732	1298	561	186	47581062	47604390	-1	C21orf56	None
21	SPATC1L	ENSG00000160284	ENST00000291672	protein_coding	KNOWN	CCDS46653	1298	1023	340	47581075	47604373	-1	C21orf56	None
12	MUC8	ENSG00000269676	ENST00000595994	protein_coding	KNOWN	None	7519	927	308	133049334	133050726	-1	None	None
4	None	ENSG00000211482	ENST00000390148	miRNA	NOVEL	None	None	None	None	403598	403704	1	None	None
HSCHR6_MHC_COX	None	ENSG00000236178	ENST00000469489	retained_intron	KNOWN	None	None	None	None	30865890	30883959	1	None	None
HSCHR6_MHC_COX	None	ENSG00000236178	ENST00000383369	protein_coding	KNOWN	None	None	3192	1063	30871853	30883959	1	None	None
HSCHR6_MHC_COX	None	ENSG00000236178	ENST00000431578	protein_coding	KNOWN	None	None	978	325	30871900	30875439	1	None	None
HSCHR6_MHC_COX	None	ENSG00000236178	ENST00000470805	processed_transcript	KNOWN	None	None	None	None	30871914	30875446	1	None	None
HSCHR6_MHC_COX	None	ENSG00000236178	ENST00000416187	protein_coding	KNOWN	None	None	345	114	30872030	30873064	1	None	None
HSCHR6_MHC_COX	None	ENSG00000236178	ENST00000474247	retained_intron	KNOWN	None	None	None	None	30874068	30875401	1	None	None
HSCHR6_MHC_COX	None	ENSG00000236178	ENST00000462127	retained_intron	KNOWN	None	None	None	None	30876294	30883959	1	None	None
HSCHR6_MHC_COX	None	ENSG00000236178	ENST00000492221	processed_transcript	KNOWN	None	None	None	None	30877326	30883959	1	None	None
HSCHR6_MHC_COX	None	ENSG00000236178	ENST00000476604	processed_transcript	KNOWN	None	None	None	None	30879630	30883174	1	None	None
HSCHR6_MHC_COX	None	ENSG00000236178	ENST00000464968	retained_intron	KNOWN	None	None	None	None	30880083	30881005	1	None	None
HSCHR6_MHC_COX	None	ENSG00000236178	ENST00000462755	retained_intron	KNOWN	None	None	None	None	30880708	30883959	1	None	None
HSCHR6_MHC_COX	None	ENSG00000236178	ENST00000553245	protein_coding	KNOWN	None	None	3282	1093	30871979	30883956	1	None	None
HSCHR6_MHC_COX	None	ENSG00000236178	ENST00000549900	protein_coding	KNOWN	None	None	2772	923	30871853	30883956	1	None	None
15	SNX33	ENSG00000173548	ENST00000308527	protein_coding	KNOWN	CCDS10283	28468	1725	574	75940247	75954642	1	SH3PX3	MGC32065, SH3PXD3C, SNX30
15	SNX33	ENSG00000173548	ENST00000569152	protein_coding	NOVEL	None	28468	850	282	75942097	75950971	1	SH3PX3	MGC32065, SH3PXD3C, SNX30
1	PRRC2C	ENSG00000117523	ENST00000476522	processed_transcript	KNOWN	None	24903	None	None	171454690	171501931	1	BAT2D1, BAT2L2	KIAA1096, XTP2
1	PRRC2C	ENSG00000117523	ENST00000367742	protein_coding	NOVEL	None	24903	8460	2819	171454690	171562650	1	BAT2D1, BAT2L2	KIAA1096, XTP2
1	PRRC2C	ENSG00000117523	ENST00000338920	protein_coding	KNOWN	CCDS1296	24903	8454	2817	171454695	171562650	1	BAT2D1, BAT2L2	KIAA1096, XTP2
1	PRRC2C	ENSG00000117523	ENST00000467601	processed_transcript	KNOWN	None	24903	None	None	171454735	171484998	1	BAT2D1, BAT2L2	KIAA1096, XTP2
1	PRRC2C	ENSG00000117523	ENST00000463586	retained_intron	KNOWN	None	24903	None	None	171478699	171484935	1	BAT2D1, BAT2L2	KIAA1096, XTP2
1	PRRC2C	ENSG00000117523	ENST00000480806	processed_transcript	KNOWN	None	24903	None	None	171491654	171493994	1	BAT2D1, BAT2L2	KIAA1096, XTP2
1	PRRC2C	ENSG00000117523	ENST00000470689	processed_transcript	PUTATIVE	None	24903	None	None	171492488	171494009	1	BAT2D1, BAT2L2	KIAA1096, XTP2
1	PRRC2C	ENSG00000117523	ENST00000495585	protein_coding	NOVEL	None	24903	3902	1299	171510969	171562650	1	BAT2D1, BAT2L2	KIAA1096, XTP2
1	PRRC2C	ENSG00000117523	ENST00000498596	processed_transcript	KNOWN	None	24903	None	None	171556212	171561362	1	BAT2D1, BAT2L2	KIAA1096, XTP2
1	PRRC2C	ENSG00000117523	ENST00000492811	processed_transcript	KNOWN	None	24903	None	None	171556801	171560452	1	BAT2D1, BAT2L2	KIAA1096, XTP2
1	PRRC2C	ENSG00000117523	ENST00000392078	protein_coding	KNOWN	None	24903	8697	2898	171454651	171560986	1	BAT2D1, BAT2L2	KIAA1096, XTP2
1	PRRC2C	ENSG00000117523	ENST00000426496	protein_coding	KNOWN	None	24903	8259	2752	171454651	171560986	1	BAT2D1, BAT2L2	KIAA1096, XTP2
4	ABCA11P	ENSG00000251595	ENST00000451020	processed_transcript	KNOWN	None	31	None	None	419224	467918	-1	ABCA11	EST1133530, FLJ14297
4	ABCA11P	ENSG00000251595	ENST00000504019	transcribed_processed_pseudogene	KNOWN	None	31	None	None	419562	421671	-1	ABCA11	EST1133530, FLJ14297
4	ABCA11P	ENSG00000251595	ENST00000514396	processed_transcript	KNOWN	None	31	None	None	419604	467840	-1	ABCA11	EST1133530, FLJ14297
4	ABCA11P	ENSG00000251595	ENST00000507854	processed_transcript	KNOWN	None	31	None	None	419604	467840	-1	ABCA11	EST1133530, FLJ14297
7	None	ENSG00000229982	ENST00000432585	processed_pseudogene	KNOWN	None	None	None	None	118520157	118521342	-1	None	None
12	SHMT2	ENSG00000182199	ENST00000328923	protein_coding	KNOWN	CCDS8934	10852	1515	504	57623110	57628714	1	SHMT	None
12	SHMT2	ENSG00000182199	ENST00000556825	nonsense_mediated_decay	KNOWN	None	10852	261	86	57623356	57628718	1	SHMT	None
12	SHMT2	ENSG00000182199	ENST00000557740	processed_transcript	KNOWN	None	10852	None	None	57623444	57625696	1	SHMT	None
12	SHMT2	ENSG00000182199	ENST00000554600	processed_transcript	KNOWN	None	10852	None	None	57623467	57626355	1	SHMT	None
12	SHMT2	ENSG00000182199	ENST00000553324	retained_intron	KNOWN	None	10852	None	None	57623494	57625762	1	SHMT	None
12	SHMT2	ENSG00000182199	ENST00000554467	retained_intron	KNOWN	None	10852	None	None	57623494	57628509	1	SHMT	None
12	SHMT2	ENSG00000182199	ENST00000557487	protein_coding	NOVEL	CCDS55837	10852	1485	494	57623494	57628509	1	SHMT	None
12	SHMT2	ENSG00000182199	ENST00000553950	retained_intron	KNOWN	None	10852	None	None	57623498	57625552	1	SHMT	None
12	SHMT2	ENSG00000182199	ENST00000555634	protein_coding	PUTATIVE	None	10852	703	233	57623506	57627594	1	SHMT	None
12	SHMT2	ENSG00000182199	ENST00000556689	protein_coding	NOVEL	None	10852	713	236	57623507	57626605	1	SHMT	None
12	SHMT2	ENSG00000182199	ENST00000557269	nonsense_mediated_decay	KNOWN	None	10852	159	52	57623523	57626556	1	SHMT	None
12	SHMT2	ENSG00000182199	ENST00000555563	nonsense_mediated_decay	KNOWN	None	10852	261	86	57623532	57627022	1	SHMT	None
12	SHMT2	ENSG00000182199	ENST00000557433	nonsense_mediated_decay	KNOWN	None	10852	516	171	57623542	57628509	1	SHMT	None
12	SHMT2	ENSG00000182199	ENST00000414700	protein_coding	PUTATIVE	CCDS53805	10852	1452	483	57623869	57628509	1	SHMT	None
12	SHMT2	ENSG00000182199	ENST00000557348	nonsense_mediated_decay	KNOWN	None	10852	198	65	57623886	57628259	1	SHMT	None
12	SHMT2	ENSG00000182199	ENST00000557703	protein_coding	PUTATIVE	None	10852	426	141	57623898	57625673	1	SHMT	None
12	SHMT2	ENSG00000182199	ENST00000553529	protein_coding	PUTATIVE	None	10852	442	146	57623950	57625689	1	SHMT	None
12	SHMT2	ENSG00000182199	ENST00000554310	protein_coding	PUTATIVE	None	10852	480	159	57623950	57626024	1	SHMT	None
12	SHMT2	ENSG00000182199	ENST00000557302	retained_intron	KNOWN	None	10852	None	None	57623954	57624968	1	SHMT	None
12	SHMT2	ENSG00000182199	ENST00000554656	processed_transcript	KNOWN	None	10852	None	None	57624058	57626317	1	SHMT	None
12	SHMT2	ENSG00000182199	ENST00000557427	protein_coding	PUTATIVE	None	10852	477	158	57624063	57626021	1	SHMT	None
12	SHMT2	ENSG00000182199	ENST00000553474	protein_coding	PUTATIVE	CCDS53805	10852	1452	483	57624111	57628334	1	SHMT	None
12	SHMT2	ENSG00000182199	ENST00000555773	protein_coding	PUTATIVE	None	10852	449	148	57624137	57625696	1	SHMT	None
12	SHMT2	ENSG00000182199	ENST00000554975	protein_coding	PUTATIVE	None	10852	647	214	57624143	57626351	1	SHMT	None
12	SHMT2	ENSG00000182199	ENST00000449049	protein_coding	PUTATIVE	CCDS53805	10852	1452	483	57624143	57628482	1	SHMT	None
12	SHMT2	ENSG00000182199	ENST00000555774	nonsense_mediated_decay	KNOWN	None	10852	198	65	57624143	57628718	1	SHMT	None
12	SHMT2	ENSG00000182199	ENST00000555116	nonsense_mediated_decay	KNOWN	None	10852	198	65	57624151	57628546	1	SHMT	None
12	SHMT2	ENSG00000182199	ENST00000553837	nonsense_mediated_decay	KNOWN	None	10852	579	192	57624167	57628509	1	SHMT	None
12	SHMT2	ENSG00000182199	ENST00000554604	nonsense_mediated_decay	KNOWN	None	10852	579	192	57624177	57626584	1	SHMT	None
12	SHMT2	ENSG00000182199	ENST00000553949	processed_transcript	KNOWN	None	10852	None	None	57624484	57626044	1	SHMT	None
12	SHMT2	ENSG00000182199	ENST00000556737	protein_coding	PUTATIVE	None	10852	442	146	57624486	57625689	1	SHMT	None
12	SHMT2	ENSG00000182199	ENST00000553868	retained_intron	KNOWN	None	10852	None	None	57624945	57626182	1	SHMT	None
12	SHMT2	ENSG00000182199	ENST00000555213	retained_intron	KNOWN	None	10852	None	None	57625231	57626270	1	SHMT	None
12	SHMT2	ENSG00000182199	ENST00000557529	protein_coding	PUTATIVE	None	10852	793	263	57626244	57628477	1	SHMT	None
12	SHMT2	ENSG00000182199	ENST00000556798	retained_intron	KNOWN	None	10852	None	None	57627417	57628027	1	SHMT	None
12	SHMT2	ENSG00000182199	ENST00000393827	protein_coding	KNOWN	None	10852	1227	408	57624151	57628546	1	SHMT	None
10	None	ENSG00000266000	ENST00000581861	miRNA	NOVEL	None	None	None	None	48387524	48387622	1	None	None
15	ALPK3	ENSG00000136383	ENST00000258888	protein_coding	KNOWN	CCDS10333	17574	5724	1907	85359911	85416713	1	None	MAK, KIAA1330, Midori
15	ALPK3	ENSG00000136383	ENST00000558077	retained_intron	KNOWN	None	17574	None	None	85406760	85411443	1	None	MAK, KIAA1330, Midori
4	None	ENSG00000251101	ENST00000504399	processed_pseudogene	KNOWN	None	None	None	None	69481111	69481855	-1	None	None
10	FRMPD2P1	ENSG00000197704	ENST00000430359	unprocessed_pseudogene	KNOWN	None	16843	None	None	48844800	48868504	-1	PDZK5A, PDZD5A, FRMPD2L1	yX59F3.2
10	FRMPD2P1	ENSG00000197704	ENST00000431703	unprocessed_pseudogene	KNOWN	None	16843	None	None	48844036	48862688	-1	PDZK5A, PDZD5A, FRMPD2L1	yX59F3.2
11	PTS	ENSG00000150787	ENST00000280362	protein_coding	KNOWN	CCDS8359	9689	438	145	112097088	112104696	1	None	PTPS
11	PTS	ENSG00000150787	ENST00000528679	nonsense_mediated_decay	KNOWN	None	9689	168	55	112097090	112104632	1	None	PTPS
11	PTS	ENSG00000150787	ENST00000525645	retained_intron	KNOWN	None	9689	None	None	112097092	112100227	1	None	PTPS
11	PTS	ENSG00000150787	ENST00000531673	nonsense_mediated_decay	KNOWN	None	9689	168	55	112097111	112140678	1	None	PTPS
11	PTS	ENSG00000150787	ENST00000525803	protein_coding	PUTATIVE	None	9689	186	61	112097155	112104533	1	None	PTPS
11	PTS	ENSG00000150787	ENST00000524931	protein_coding	PUTATIVE	None	9689	234	77	112098996	112104533	1	None	PTPS
11	PTS	ENSG00000150787	ENST00000531175	retained_intron	KNOWN	None	9689	None	None	112100817	112104121	1	None	PTPS
11	PTS	ENSG00000150787	ENST00000527428	retained_intron	KNOWN	None	9689	None	None	112100989	112106729	1	None	PTPS
11	PTS	ENSG00000150787	ENST00000527635	retained_intron	KNOWN	None	9689	None	None	112101122	112104400	1	None	PTPS
4	None	ENSG00000251074	ENST00000510547	unprocessed_pseudogene	KNOWN	None	None	None	None	69492565	69494617	-1	None	None
18	None	ENSG00000238863	ENST00000459517	snoRNA	NOVEL	None	None	None	None	3424257	3424347	-1	None	None
6	LMBRD1	ENSG00000168216	ENST00000370577	protein_coding	KNOWN	CCDS4969	23038	1623	540	70385694	70507003	-1	C6orf209	FLJ11240, bA810I22.1, cblF
6	LMBRD1	ENSG00000168216	ENST00000370570	protein_coding	KNOWN	None	23038	1404	467	70385698	70500557	-1	C6orf209	FLJ11240, bA810I22.1, cblF
6	LMBRD1	ENSG00000168216	ENST00000472827	nonsense_mediated_decay	KNOWN	None	23038	1179	392	70385749	70506777	-1	C6orf209	FLJ11240, bA810I22.1, cblF
3	FNDC3B	ENSG00000075420	ENST00000421757	protein_coding	PUTATIVE	None	24670	216	71	171757418	171905088	1	None	FAD104, DKFZp762K137, FLJ23399, PRO4979, YVTM2421
3	FNDC3B	ENSG00000075420	ENST00000415807	protein_coding	KNOWN	CCDS3217	24670	3615	1204	171757418	172116561	1	None	FAD104, DKFZp762K137, FLJ23399, PRO4979, YVTM2421
3	FNDC3B	ENSG00000075420	ENST00000469491	retained_intron	KNOWN	None	24670	None	None	171757449	172056114	1	None	FAD104, DKFZp762K137, FLJ23399, PRO4979, YVTM2421
3	FNDC3B	ENSG00000075420	ENST00000336824	protein_coding	KNOWN	CCDS3217	24670	3615	1204	171758344	172119455	1	None	FAD104, DKFZp762K137, FLJ23399, PRO4979, YVTM2421
3	FNDC3B	ENSG00000075420	ENST00000423424	protein_coding	PUTATIVE	None	24670	216	71	171758345	171904624	1	None	FAD104, DKFZp762K137, FLJ23399, PRO4979, YVTM2421
3	FNDC3B	ENSG00000075420	ENST00000416957	protein_coding	KNOWN	CCDS3217	24670	3615	1204	171764703	172115271	1	None	FAD104, DKFZp762K137, FLJ23399, PRO4979, YVTM2421
3	FNDC3B	ENSG00000075420	ENST00000478016	retained_intron	KNOWN	None	24670	None	None	171844763	171945053	1	None	FAD104, DKFZp762K137, FLJ23399, PRO4979, YVTM2421
3	FNDC3B	ENSG00000075420	ENST00000443501	protein_coding	KNOWN	None	24670	624	207	171844764	171969246	1	None	FAD104, DKFZp762K137, FLJ23399, PRO4979, YVTM2421
3	FNDC3B	ENSG00000075420	ENST00000476794	processed_transcript	KNOWN	None	24670	None	None	171866325	171905008	1	None	FAD104, DKFZp762K137, FLJ23399, PRO4979, YVTM2421
3	FNDC3B	ENSG00000075420	ENST00000483344	retained_intron	KNOWN	None	24670	None	None	172024726	172028717	1	None	FAD104, DKFZp762K137, FLJ23399, PRO4979, YVTM2421
3	FNDC3B	ENSG00000075420	ENST00000494000	retained_intron	KNOWN	None	24670	None	None	172046864	172053604	1	None	FAD104, DKFZp762K137, FLJ23399, PRO4979, YVTM2421
3	FNDC3B	ENSG00000075420	ENST00000490832	retained_intron	KNOWN	None	24670	None	None	172063685	172070668	1	None	FAD104, DKFZp762K137, FLJ23399, PRO4979, YVTM2421
3	FNDC3B	ENSG00000075420	ENST00000392699	protein_coding	KNOWN	None	24670	216	71	171757418	171852172	1	None	FAD104, DKFZp762K137, FLJ23399, PRO4979, YVTM2421
18	None	ENSG00000266835	ENST00000581029	lincRNA	KNOWN	None	None	None	None	3466248	3473201	1	None	None
18	None	ENSG00000266835	ENST00000581442	lincRNA	KNOWN	None	None	None	None	3466248	3478925	1	None	None
18	None	ENSG00000266835	ENST00000579007	lincRNA	KNOWN	None	None	None	None	3466295	3478976	1	None	None
18	None	ENSG00000266835	ENST00000578664	lincRNA	KNOWN	None	None	None	None	3467239	3478974	1	None	None
4	None	ENSG00000248635	ENST00000509261	unprocessed_pseudogene	KNOWN	None	None	None	None	69570318	69578216	-1	None	None
4	TRIM60P14	ENSG00000250227	ENST00000513444	processed_pseudogene	KNOWN	None	38486	None	None	165836717	165838135	1	None	None
6	TMEM217	ENSG00000172738	ENST00000356757	protein_coding	KNOWN	None	21238	636	211	37179956	37225399	-1	C6orf128	dJ355M6.2
6	TMEM217	ENSG00000172738	ENST00000336655	protein_coding	KNOWN	CCDS4831	21238	690	229	37179957	37225372	-1	C6orf128	dJ355M6.2
6	TMEM217	ENSG00000172738	ENST00000497775	processed_transcript	KNOWN	None	21238	None	None	37179957	37225412	-1	C6orf128	dJ355M6.2
6	TMEM217	ENSG00000172738	ENST00000478262	processed_transcript	KNOWN	None	21238	None	None	37180452	37225413	-1	C6orf128	dJ355M6.2
6	TMEM217	ENSG00000172738	ENST00000482580	processed_transcript	KNOWN	None	21238	None	None	37185418	37186265	-1	C6orf128	dJ355M6.2
6	TMEM217	ENSG00000172738	ENST00000357219	retained_intron	KNOWN	None	21238	None	None	37185946	37225931	-1	C6orf128	dJ355M6.2
19	None	ENSG00000268777	ENST00000598220	antisense	KNOWN	None	None	None	None	52022985	52023514	1	None	None
4	None	ENSG00000244146	ENST00000495104	processed_pseudogene	KNOWN	None	None	None	None	165841770	165842215	-1	None	None
18	RN7SL39P	ENSG00000241223	ENST00000462264	misc_RNA	KNOWN	None	46055	None	None	3571214	3571509	-1	None	None
19	SIGLEC28P	ENSG00000269130	ENST00000595339	processed_pseudogene	KNOWN	None	15618	None	None	52063375	52063843	-1	SIGLECP12	None
3	IGF2BP2	ENSG00000073792	ENST00000382199	protein_coding	KNOWN	CCDS3273	28867	1800	599	185361527	185542844	-1	None	IMP-2
3	IGF2BP2	ENSG00000073792	ENST00000457616	protein_coding	NOVEL	None	28867	1818	605	185361763	185542800	-1	None	IMP-2
3	IGF2BP2	ENSG00000073792	ENST00000346192	protein_coding	KNOWN	CCDS33903	28867	1671	556	185361763	185542812	-1	None	IMP-2
3	IGF2BP2	ENSG00000073792	ENST00000464166	processed_transcript	KNOWN	None	28867	None	None	185364668	185367311	-1	None	IMP-2
3	IGF2BP2	ENSG00000073792	ENST00000494906	processed_transcript	KNOWN	None	28867	None	None	185367191	185407026	-1	None	IMP-2
3	IGF2BP2	ENSG00000073792	ENST00000496495	processed_transcript	KNOWN	None	28867	None	None	185392804	185393634	-1	None	IMP-2
3	IGF2BP2	ENSG00000073792	ENST00000461957	processed_transcript	KNOWN	None	28867	None	None	185407243	185541059	-1	None	IMP-2
3	IGF2BP2	ENSG00000073792	ENST00000493302	processed_transcript	KNOWN	None	28867	None	None	185407343	185538919	-1	None	IMP-2
3	IGF2BP2	ENSG00000073792	ENST00000466476	processed_transcript	KNOWN	None	28867	None	None	185414203	185542680	-1	None	IMP-2
3	IGF2BP2	ENSG00000073792	ENST00000466214	processed_transcript	PUTATIVE	None	28867	None	None	185531843	185538891	-1	None	IMP-2
3	IGF2BP2	ENSG00000073792	ENST00000421047	protein_coding	KNOWN	None	28867	1629	542	185361590	185538849	-1	None	IMP-2
12	LEPREL2	ENSG00000110811	ENST00000606935	polymorphic_pseudogene	KNOWN	None	19318	2210	735	6937606	6948625	1	None	GRCB, HSU47926, P3H3
12	LEPREL2	ENSG00000110811	ENST00000536140	retained_intron	KNOWN	None	19318	None	None	6938188	6949010	1	None	GRCB, HSU47926, P3H3
12	LEPREL2	ENSG00000110811	ENST00000544813	processed_transcript	KNOWN	None	19318	None	None	6938472	6940408	1	None	GRCB, HSU47926, P3H3
12	LEPREL2	ENSG00000110811	ENST00000290510	retained_intron	KNOWN	None	19318	None	None	6938992	6949010	1	None	GRCB, HSU47926, P3H3
12	LEPREL2	ENSG00000110811	ENST00000538102	processed_transcript	KNOWN	None	19318	None	None	6939648	6946250	1	None	GRCB, HSU47926, P3H3
12	LEPREL2	ENSG00000110811	ENST00000541956	retained_intron	KNOWN	None	19318	None	None	6940452	6946849	1	None	GRCB, HSU47926, P3H3
12	LEPREL2	ENSG00000110811	ENST00000544200	retained_intron	KNOWN	None	19318	None	None	6940987	6947210	1	None	GRCB, HSU47926, P3H3
12	LEPREL2	ENSG00000110811	ENST00000544949	retained_intron	KNOWN	None	19318	None	None	6941007	6946732	1	None	GRCB, HSU47926, P3H3
12	LEPREL2	ENSG00000110811	ENST00000540406	retained_intron	KNOWN	None	19318	None	None	6942694	6946932	1	None	GRCB, HSU47926, P3H3
12	LEPREL2	ENSG00000110811	ENST00000545596	retained_intron	KNOWN	None	19318	None	None	6942779	6944120	1	None	GRCB, HSU47926, P3H3
12	LEPREL2	ENSG00000110811	ENST00000542976	retained_intron	KNOWN	None	19318	None	None	6942826	6946700	1	None	GRCB, HSU47926, P3H3
12	LEPREL2	ENSG00000110811	ENST00000396725	protein_coding	KNOWN	None	19318	2208	735	6937572	6949018	1	None	GRCB, HSU47926, P3H3
12	LEPREL2	ENSG00000110811	ENST00000251761	protein_coding	KNOWN	None	19318	1656	551	6937572	6949018	1	None	GRCB, HSU47926, P3H3
Y	USP9YP8	ENSG00000229416	ENST00000441913	unprocessed_pseudogene	KNOWN	None	38424	None	None	23839132	23843004	-1	None	None
18	None	ENSG00000238445	ENST00000458894	snoRNA	NOVEL	None	None	None	None	3572938	3573041	-1	None	None
4	None	ENSG00000250376	ENST00000505681	unprocessed_pseudogene	KNOWN	None	None	None	None	69650336	69653192	1	None	None
5	None	ENSG00000248112	ENST00000504916	lincRNA	KNOWN	None	None	None	None	82215195	82216938	-1	None	None
18	None	ENSG00000266373	ENST00000577490	processed_pseudogene	KNOWN	None	None	None	None	3580167	3580752	1	None	None
10	None	ENSG00000223987	ENST00000451325	processed_pseudogene	KNOWN	None	None	None	None	5346394	5346828	-1	None	None
19	SIGLEC29P	ENSG00000268267	ENST00000599873	processed_pseudogene	KNOWN	None	15619	None	None	52067050	52068163	-1	SIGLECP13	None
17	MTMR4	ENSG00000108389	ENST00000579925	protein_coding	NOVEL	None	7452	3417	1138	56566898	56595212	-1	None	KIAA0647, ZFYVE11
17	MTMR4	ENSG00000108389	ENST00000323456	protein_coding	KNOWN	CCDS11608	7452	3588	1195	56566898	56595266	-1	None	KIAA0647, ZFYVE11
17	MTMR4	ENSG00000108389	ENST00000578259	retained_intron	KNOWN	None	7452	None	None	56568842	56570099	-1	None	KIAA0647, ZFYVE11
17	MTMR4	ENSG00000108389	ENST00000580983	retained_intron	KNOWN	None	7452	None	None	56585346	56588872	-1	None	KIAA0647, ZFYVE11
17	MTMR4	ENSG00000108389	ENST00000582663	nonsense_mediated_decay	KNOWN	None	7452	297	98	56585529	56595216	-1	None	KIAA0647, ZFYVE11
17	MTMR4	ENSG00000108389	ENST00000583966	retained_intron	KNOWN	None	7452	None	None	56585683	56586237	-1	None	KIAA0647, ZFYVE11
17	MTMR4	ENSG00000108389	ENST00000583656	protein_coding	PUTATIVE	None	7452	593	196	56585829	56591985	-1	None	KIAA0647, ZFYVE11
17	MTMR4	ENSG00000108389	ENST00000582390	nonsense_mediated_decay	KNOWN	None	7452	339	112	56587958	56591985	-1	None	KIAA0647, ZFYVE11
17	MTMR4	ENSG00000108389	ENST00000579921	protein_coding	KNOWN	None	7452	286	94	56588809	56595200	-1	None	KIAA0647, ZFYVE11
17	MTMR4	ENSG00000108389	ENST00000583243	protein_coding	PUTATIVE	None	7452	49	15	56588812	56591397	-1	None	KIAA0647, ZFYVE11
14	DPF3	ENSG00000205683	ENST00000556509	protein_coding	NOVEL	None	17427	1137	378	73086004	73360796	-1	None	cer-d4, Cerd4, FLJ14079
14	DPF3	ENSG00000205683	ENST00000557704	processed_transcript	KNOWN	None	17427	None	None	73127757	73190813	-1	None	cer-d4, Cerd4, FLJ14079
14	DPF3	ENSG00000205683	ENST00000366353	nonsense_mediated_decay	KNOWN	None	17427	1239	412	73128584	73359357	-1	None	cer-d4, Cerd4, FLJ14079
14	DPF3	ENSG00000205683	ENST00000381216	nonsense_mediated_decay	KNOWN	CCDS45133	17427	1074	357	73128584	73360809	-1	None	cer-d4, Cerd4, FLJ14079
14	DPF3	ENSG00000205683	ENST00000546183	protein_coding	NOVEL	None	17427	1104	367	73137561	73360809	-1	None	cer-d4, Cerd4, FLJ14079
14	DPF3	ENSG00000205683	ENST00000556891	processed_transcript	PUTATIVE	None	17427	None	None	73137708	73146010	-1	None	cer-d4, Cerd4, FLJ14079
14	DPF3	ENSG00000205683	ENST00000556997	processed_transcript	PUTATIVE	None	17427	None	None	73138019	73142479	-1	None	cer-d4, Cerd4, FLJ14079
14	DPF3	ENSG00000205683	ENST00000556238	processed_transcript	KNOWN	None	17427	None	None	73138019	73190479	-1	None	cer-d4, Cerd4, FLJ14079
14	DPF3	ENSG00000205683	ENST00000554594	processed_transcript	KNOWN	None	17427	None	None	73140730	73181212	-1	None	cer-d4, Cerd4, FLJ14079
14	DPF3	ENSG00000205683	ENST00000555781	processed_transcript	PUTATIVE	None	17427	None	None	73190340	73198375	-1	None	cer-d4, Cerd4, FLJ14079
14	DPF3	ENSG00000205683	ENST00000553608	processed_transcript	PUTATIVE	None	17427	None	None	73190340	73209419	-1	None	cer-d4, Cerd4, FLJ14079
14	DPF3	ENSG00000205683	ENST00000556902	processed_transcript	PUTATIVE	None	17427	None	None	73238452	73303191	-1	None	cer-d4, Cerd4, FLJ14079
14	DPF3	ENSG00000205683	ENST00000555469	processed_transcript	PUTATIVE	None	17427	None	None	73272718	73303191	-1	None	cer-d4, Cerd4, FLJ14079
14	DPF3	ENSG00000205683	ENST00000541685	protein_coding	KNOWN	CCDS45133	17427	1074	357	73136660	73360809	-1	None	cer-d4, Cerd4, FLJ14079
5	None	ENSG00000249857	ENST00000504382	lincRNA	KNOWN	None	None	None	None	82236277	82236802	-1	None	None
HSCHR6_MHC_COX	None	ENSG00000258060	ENST00000551282	protein_coding	NOVEL	None	None	39	12	31111082	31111199	1	None	None
16	ARL6IP1	ENSG00000170540	ENST00000304414	protein_coding	KNOWN	CCDS10572	697	612	203	18802991	18813000	-1	ARL6IP	AIP1, ARMER, KIAA0069
16	ARL6IP1	ENSG00000170540	ENST00000563861	nonsense_mediated_decay	KNOWN	None	697	300	99	18804201	18812869	-1	ARL6IP	AIP1, ARMER, KIAA0069
16	ARL6IP1	ENSG00000170540	ENST00000546206	protein_coding	PUTATIVE	None	697	525	174	18804269	18812746	-1	ARL6IP	AIP1, ARMER, KIAA0069
16	ARL6IP1	ENSG00000170540	ENST00000562819	protein_coding	NOVEL	None	697	267	88	18804344	18812869	-1	ARL6IP	AIP1, ARMER, KIAA0069
16	ARL6IP1	ENSG00000170540	ENST00000562234	protein_coding	NOVEL	None	697	304	100	18805996	18812875	-1	ARL6IP	AIP1, ARMER, KIAA0069
16	ARL6IP1	ENSG00000170540	ENST00000569976	retained_intron	KNOWN	None	697	None	None	18806498	18812870	-1	ARL6IP	AIP1, ARMER, KIAA0069
16	ARL6IP1	ENSG00000170540	ENST00000567969	retained_intron	KNOWN	None	697	None	None	18809034	18812866	-1	ARL6IP	AIP1, ARMER, KIAA0069
16	ARL6IP1	ENSG00000170540	ENST00000566391	retained_intron	KNOWN	None	697	None	None	18809493	18812894	-1	ARL6IP	AIP1, ARMER, KIAA0069
Y	CDY11P	ENSG00000230029	ENST00000447168	unprocessed_pseudogene	KNOWN	None	23852	None	None	23858456	23860106	1	None	None
5	ST13P12	ENSG00000248400	ENST00000508958	processed_pseudogene	KNOWN	None	38787	None	None	82264707	82272972	1	None	None
19	ZNF426	ENSG00000130818	ENST00000253115	protein_coding	KNOWN	CCDS12215	20725	1665	554	9638667	9649303	-1	None	MGC2663
19	ZNF426	ENSG00000130818	ENST00000535489	protein_coding	KNOWN	CCDS12215	20725	1665	554	9638683	9647245	-1	None	MGC2663
19	ZNF426	ENSG00000130818	ENST00000593003	protein_coding	PUTATIVE	None	20725	1551	516	9638683	9649266	-1	None	MGC2663
19	ZNF426	ENSG00000130818	ENST00000589289	protein_coding	PUTATIVE	None	20725	357	118	9639973	9649064	-1	None	MGC2663
10	CALML3-AS1	ENSG00000205488	ENST00000543008	antisense	KNOWN	None	44682	None	None	5556207	5565140	-1	None	None
10	CALML3-AS1	ENSG00000205488	ENST00000542093	antisense	KNOWN	None	44682	None	None	5559244	5568209	-1	None	None
10	CALML3-AS1	ENSG00000205488	ENST00000545372	antisense	KNOWN	None	44682	None	None	5559332	5568204	-1	None	None
18	DLGAP1-AS1	ENSG00000177337	ENST00000577995	antisense	KNOWN	None	31676	None	None	3593730	3596806	1	None	HsT914, FLJ35776
18	DLGAP1-AS1	ENSG00000177337	ENST00000575606	antisense	KNOWN	None	31676	None	None	3594092	3597370	1	None	HsT914, FLJ35776
18	DLGAP1-AS1	ENSG00000177337	ENST00000576606	antisense	KNOWN	None	31676	None	None	3594110	3597370	1	None	HsT914, FLJ35776
18	DLGAP1-AS1	ENSG00000177337	ENST00000317114	antisense	KNOWN	None	31676	None	None	3594112	3598350	1	None	HsT914, FLJ35776
18	DLGAP1-AS1	ENSG00000177337	ENST00000574411	antisense	KNOWN	None	31676	None	None	3594125	3597370	1	None	HsT914, FLJ35776
18	DLGAP1-AS1	ENSG00000177337	ENST00000573355	antisense	KNOWN	None	31676	None	None	3594453	3597226	1	None	HsT914, FLJ35776
15	CSPG4	ENSG00000173546	ENST00000308508	protein_coding	KNOWN	CCDS10284	2466	6969	2322	75966663	76005189	-1	None	MCSPG, MEL-CSPG, MSK16, NG2, MCSP, HMW-MAA
5	None	ENSG00000249664	ENST00000514840	lincRNA	KNOWN	None	None	None	None	82308104	82308928	-1	None	None
19	MEF2B	ENSG00000213999	ENST00000409224	protein_coding	PUTATIVE	None	6995	894	297	19256377	19281072	-1	None	RSRFR2
19	MEF2B	ENSG00000213999	ENST00000424583	protein_coding	KNOWN	CCDS46024	6995	1107	368	19256378	19281054	-1	None	RSRFR2
19	MEF2B	ENSG00000213999	ENST00000410050	protein_coding	NOVEL	None	6995	1128	375	19256378	19281057	-1	None	RSRFR2
19	MEF2B	ENSG00000213999	ENST00000409447	protein_coding	NOVEL	None	6995	861	286	19256402	19281098	-1	None	RSRFR2
19	MEF2B	ENSG00000213999	ENST00000602424	protein_coding	KNOWN	CCDS12394	6995	1098	365	19256379	19303400	-1	None	RSRFR2
19	MEF2B	ENSG00000213999	ENST00000162023	protein_coding	KNOWN	CCDS46024	6995	1107	368	19256562	19302967	-1	None	RSRFR2
19	SMARCA4	ENSG00000127616	ENST00000344626	protein_coding	KNOWN	CCDS12253	11100	4944	1647	11071677	11172735	1	SNF2L4	hSNF2b, BRG1, BAF190, SNF2, SWI2, SNF2-BETA, SNF2LB, FLJ39786
19	SMARCA4	ENSG00000127616	ENST00000429416	protein_coding	KNOWN	CCDS12253	11100	4944	1647	11071677	11172958	1	SNF2L4	hSNF2b, BRG1, BAF190, SNF2, SWI2, SNF2-BETA, SNF2LB, FLJ39786
19	SMARCA4	ENSG00000127616	ENST00000541122	protein_coding	KNOWN	CCDS45972	11100	4854	1617	11071757	11172492	1	SNF2L4	hSNF2b, BRG1, BAF190, SNF2, SWI2, SNF2-BETA, SNF2LB, FLJ39786
19	SMARCA4	ENSG00000127616	ENST00000589677	protein_coding	KNOWN	CCDS45973	11100	4851	1616	11071781	11172492	1	SNF2L4	hSNF2b, BRG1, BAF190, SNF2, SWI2, SNF2-BETA, SNF2LB, FLJ39786
19	SMARCA4	ENSG00000127616	ENST00000444061	protein_coding	KNOWN	CCDS54218	11100	4842	1613	11071786	11172492	1	SNF2L4	hSNF2b, BRG1, BAF190, SNF2, SWI2, SNF2-BETA, SNF2LB, FLJ39786
19	SMARCA4	ENSG00000127616	ENST00000590574	protein_coding	KNOWN	CCDS54217	11100	4845	1614	11071997	11172492	1	SNF2L4	hSNF2b, BRG1, BAF190, SNF2, SWI2, SNF2-BETA, SNF2LB, FLJ39786
19	SMARCA4	ENSG00000127616	ENST00000591545	retained_intron	KNOWN	None	11100	None	None	11094954	11143342	1	SNF2L4	hSNF2b, BRG1, BAF190, SNF2, SWI2, SNF2-BETA, SNF2LB, FLJ39786
19	SMARCA4	ENSG00000127616	ENST00000592604	retained_intron	KNOWN	None	11100	None	None	11123438	11172665	1	SNF2L4	hSNF2b, BRG1, BAF190, SNF2, SWI2, SNF2-BETA, SNF2LB, FLJ39786
19	SMARCA4	ENSG00000127616	ENST00000586122	processed_transcript	KNOWN	None	11100	None	None	11128988	11134264	1	SNF2L4	hSNF2b, BRG1, BAF190, SNF2, SWI2, SNF2-BETA, SNF2LB, FLJ39786
19	SMARCA4	ENSG00000127616	ENST00000587988	retained_intron	KNOWN	None	11100	None	None	11129546	11134237	1	SNF2L4	hSNF2b, BRG1, BAF190, SNF2, SWI2, SNF2-BETA, SNF2LB, FLJ39786
19	SMARCA4	ENSG00000127616	ENST00000591595	retained_intron	KNOWN	None	11100	None	None	11129690	11172952	1	SNF2L4	hSNF2b, BRG1, BAF190, SNF2, SWI2, SNF2-BETA, SNF2LB, FLJ39786
19	SMARCA4	ENSG00000127616	ENST00000585799	retained_intron	KNOWN	None	11100	None	None	11131257	11172952	1	SNF2L4	hSNF2b, BRG1, BAF190, SNF2, SWI2, SNF2-BETA, SNF2LB, FLJ39786
19	SMARCA4	ENSG00000127616	ENST00000538456	protein_coding	NOVEL	None	11100	1280	425	11138605	11169564	1	SNF2L4	hSNF2b, BRG1, BAF190, SNF2, SWI2, SNF2-BETA, SNF2LB, FLJ39786
19	SMARCA4	ENSG00000127616	ENST00000592158	protein_coding	NOVEL	None	11100	409	135	11141489	11152142	1	SNF2L4	hSNF2b, BRG1, BAF190, SNF2, SWI2, SNF2-BETA, SNF2LB, FLJ39786
19	SMARCA4	ENSG00000127616	ENST00000586892	retained_intron	KNOWN	None	11100	None	None	11143758	11144822	1	SNF2L4	hSNF2b, BRG1, BAF190, SNF2, SWI2, SNF2-BETA, SNF2LB, FLJ39786
19	SMARCA4	ENSG00000127616	ENST00000586985	protein_coding	PUTATIVE	None	11100	340	112	11169511	11176071	1	SNF2L4	hSNF2b, BRG1, BAF190, SNF2, SWI2, SNF2-BETA, SNF2LB, FLJ39786
19	SMARCA4	ENSG00000127616	ENST00000586921	processed_transcript	KNOWN	None	11100	None	None	11171137	11172945	1	SNF2L4	hSNF2b, BRG1, BAF190, SNF2, SWI2, SNF2-BETA, SNF2LB, FLJ39786
19	SMARCA4	ENSG00000127616	ENST00000358026	protein_coding	KNOWN	None	11100	5040	1679	11071598	11172958	1	SNF2L4	hSNF2b, BRG1, BAF190, SNF2, SWI2, SNF2-BETA, SNF2LB, FLJ39786
19	SMARCA4	ENSG00000127616	ENST00000413806	protein_coding	KNOWN	CCDS45972	11100	4854	1617	11094828	11172958	1	SNF2L4	hSNF2b, BRG1, BAF190, SNF2, SWI2, SNF2-BETA, SNF2LB, FLJ39786
19	SMARCA4	ENSG00000127616	ENST00000450717	protein_coding	KNOWN	CCDS45973	11100	4851	1616	11094828	11172958	1	SNF2L4	hSNF2b, BRG1, BAF190, SNF2, SWI2, SNF2-BETA, SNF2LB, FLJ39786
6	PDE10A	ENSG00000112541	ENST00000366882	protein_coding	PUTATIVE	None	8772	2340	779	165740776	166075588	-1	None	None
6	PDE10A	ENSG00000112541	ENST00000539869	protein_coding	KNOWN	CCDS47513	8772	2370	789	165744539	166075557	-1	None	None
6	PDE10A	ENSG00000112541	ENST00000580695	processed_transcript	KNOWN	None	8772	None	None	165957021	166400091	-1	None	None
6	PDE10A	ENSG00000112541	ENST00000535229	processed_transcript	KNOWN	None	8772	None	None	166193757	166399984	-1	None	None
6	PDE10A	ENSG00000112541	ENST00000354448	protein_coding	KNOWN	None	8772	2340	779	165740778	165989936	-1	None	None
4	None	ENSG00000251236	ENST00000507455	unprocessed_pseudogene	KNOWN	None	None	None	None	69679713	69680445	1	None	None
5	None	ENSG00000271862	ENST00000607625	lincRNA	KNOWN	None	None	None	None	82345195	82346783	-1	None	None
10	ADAM12	ENSG00000148848	ENST00000368679	protein_coding	KNOWN	CCDS7653	190	2730	909	127700950	128077024	-1	None	MCMPMltna, MLTN
10	ADAM12	ENSG00000148848	ENST00000368676	protein_coding	KNOWN	CCDS7654	190	2217	738	127729915	128077024	-1	None	MCMPMltna, MLTN
10	ADAM12	ENSG00000148848	ENST00000467145	processed_transcript	KNOWN	None	190	None	None	127738172	127759202	-1	None	MCMPMltna, MLTN
10	ADAM12	ENSG00000148848	ENST00000482291	processed_transcript	KNOWN	None	190	None	None	127753264	127755575	-1	None	MCMPMltna, MLTN
10	ADAM12	ENSG00000148848	ENST00000485388	processed_transcript	KNOWN	None	190	None	None	127779305	127798357	-1	None	MCMPMltna, MLTN
10	ADAM12	ENSG00000148848	ENST00000448723	protein_coding	KNOWN	None	190	835	277	127789717	128077024	-1	None	MCMPMltna, MLTN
10	ADAM12	ENSG00000148848	ENST00000494661	processed_transcript	KNOWN	None	190	None	None	127823937	127843874	-1	None	MCMPMltna, MLTN
4	None	ENSG00000251424	ENST00000512503	unprocessed_pseudogene	KNOWN	None	None	None	None	69699931	69700086	-1	None	None
19	LILRA3	ENSG00000170866	ENST00000391744	protein_coding	NOVEL	CCDS54317	6604	1128	375	54799854	54804173	-1	None	LIR-4, HM43, ILT6, HM31, LIR4, CD85e
19	LILRA3	ENSG00000170866	ENST00000251390	protein_coding	KNOWN	CCDS12887	6604	1320	439	54799854	54804265	-1	None	LIR-4, HM43, ILT6, HM31, LIR4, CD85e
19	LILRA3	ENSG00000170866	ENST00000391745	protein_coding	PUTATIVE	None	6604	1371	456	54799854	54809952	-1	None	LIR-4, HM43, ILT6, HM31, LIR4, CD85e
Y	None	ENSG00000229725	ENST00000414540	unprocessed_pseudogene	KNOWN	None	None	None	None	24017478	24019697	1	None	None
19	LHB	ENSG00000104826	ENST00000221421	protein_coding	KNOWN	CCDS12748	6584	426	141	49519237	49520338	-1	None	LSH-B, CGB4, hLHB
4	None	ENSG00000249235	ENST00000309229	unprocessed_pseudogene	KNOWN	None	None	None	None	69727050	69727328	-1	None	None
5	SCARNA18	ENSG00000238835	ENST00000459004	snoRNA	KNOWN	None	32559	None	None	82360023	82360156	-1	None	U109
Y	None	ENSG00000251618	ENST00000509611	unprocessed_pseudogene	KNOWN	None	None	None	None	24041541	24043706	1	None	None
1	DBT	ENSG00000137992	ENST00000370132	protein_coding	KNOWN	CCDS767	2698	1449	482	100659736	100715390	-1	None	None
1	DBT	ENSG00000137992	ENST00000370131	protein_coding	KNOWN	None	2698	963	320	100676099	100715376	-1	None	None
HSCHR6_MHC_COX	TCF19	ENSG00000224379	ENST00000439112	protein_coding	KNOWN	None	11629	1038	345	31118872	31124541	1	None	SC1
HSCHR6_MHC_COX	TCF19	ENSG00000224379	ENST00000453201	protein_coding	KNOWN	None	11629	1038	345	31118877	31124541	1	None	SC1
HSCHR6_MHC_COX	TCF19	ENSG00000224379	ENST00000481311	processed_transcript	PUTATIVE	None	11629	None	None	31121809	31123332	1	None	SC1
5	None	ENSG00000243385	ENST00000468914	processed_pseudogene	KNOWN	None	None	None	None	82497048	82497960	1	None	None
4	None	ENSG00000251529	ENST00000503319	unprocessed_pseudogene	KNOWN	None	None	None	None	69743344	69745849	-1	None	None
Y	None	ENSG00000227444	ENST00000426983	unprocessed_pseudogene	KNOWN	None	None	None	None	24065082	24067253	1	None	None
12	FBRSL1	ENSG00000112787	ENST00000434748	protein_coding	KNOWN	CCDS45010	29308	3138	1045	133066137	133161774	1	None	KIAA1545
12	FBRSL1	ENSG00000112787	ENST00000542061	processed_transcript	KNOWN	None	29308	None	None	133083616	133088536	1	None	KIAA1545
12	FBRSL1	ENSG00000112787	ENST00000539264	processed_transcript	KNOWN	None	29308	None	None	133136633	133146690	1	None	KIAA1545
12	FBRSL1	ENSG00000112787	ENST00000543360	processed_transcript	KNOWN	None	29308	None	None	133136739	133146625	1	None	KIAA1545
12	FBRSL1	ENSG00000112787	ENST00000543453	processed_transcript	KNOWN	None	29308	None	None	133147738	133149180	1	None	KIAA1545
12	FBRSL1	ENSG00000112787	ENST00000536075	processed_transcript	KNOWN	None	29308	None	None	133148025	133150746	1	None	KIAA1545
12	FBRSL1	ENSG00000112787	ENST00000542306	retained_intron	KNOWN	None	29308	None	None	133148447	133158853	1	None	KIAA1545
12	FBRSL1	ENSG00000112787	ENST00000537804	processed_transcript	KNOWN	None	29308	None	None	133149113	133153447	1	None	KIAA1545
12	FBRSL1	ENSG00000112787	ENST00000261673	protein_coding	KNOWN	None	29308	2919	972	133067157	133160364	1	None	KIAA1545
4	None	ENSG00000248547	ENST00000504736	processed_pseudogene	KNOWN	None	None	None	None	69749603	69750158	-1	None	None
6	RPL5P18	ENSG00000220744	ENST00000406671	processed_pseudogene	KNOWN	None	36640	None	None	127683658	127684548	1	None	None
Y	RBMY2AP	ENSG00000226092	ENST00000445405	unprocessed_pseudogene	KNOWN	None	9917	None	None	24073668	24083297	-1	RBMY2A	None
HSCHR6_MHC_QBL	BRD2	ENSG00000215077	ENST00000399529	protein_coding	KNOWN	None	1103	2406	801	32865184	32878022	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_QBL	BRD2	ENSG00000215077	ENST00000470079	processed_transcript	KNOWN	None	1103	None	None	32865782	32868665	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_QBL	BRD2	ENSG00000215077	ENST00000450284	protein_coding	KNOWN	None	1103	887	294	32865843	32873136	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_QBL	BRD2	ENSG00000215077	ENST00000399528	protein_coding	KNOWN	None	1103	2406	801	32867412	32878022	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_QBL	BRD2	ENSG00000215077	ENST00000486864	nonsense_mediated_decay	KNOWN	None	1103	1206	401	32867454	32874715	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_QBL	BRD2	ENSG00000215077	ENST00000477259	nonsense_mediated_decay	KNOWN	None	1103	444	147	32867477	32878022	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_QBL	BRD2	ENSG00000215077	ENST00000399527	protein_coding	KNOWN	None	1103	2511	836	32869254	32878022	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_QBL	BRD2	ENSG00000215077	ENST00000439194	protein_coding	KNOWN	None	1103	2423	806	32869608	32878022	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_QBL	BRD2	ENSG00000215077	ENST00000460240	retained_intron	KNOWN	None	1103	None	None	32872659	32874732	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_QBL	BRD2	ENSG00000215077	ENST00000482105	processed_transcript	KNOWN	None	1103	None	None	32873087	32874419	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_QBL	BRD2	ENSG00000215077	ENST00000484278	retained_intron	KNOWN	None	1103	None	None	32874068	32875319	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_QBL	BRD2	ENSG00000215077	ENST00000479568	retained_intron	KNOWN	None	1103	None	None	32876057	32877803	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_QBL	BRD2	ENSG00000215077	ENST00000474700	retained_intron	KNOWN	None	1103	None	None	32876199	32877283	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_QBL	BRD2	ENSG00000215077	ENST00000550142	protein_coding	KNOWN	None	1103	2511	836	32867425	32878021	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_QBL	BRD2	ENSG00000215077	ENST00000549236	protein_coding	KNOWN	None	1103	2265	754	32869608	32877825	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_QBL	BRD2	ENSG00000215077	ENST00000548837	protein_coding	KNOWN	None	1103	2046	681	32867477	32877825	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
4	None	ENSG00000248613	ENST00000511911	unprocessed_pseudogene	KNOWN	None	None	None	None	69766369	69766628	-1	None	None
7	GNAT3	ENSG00000214415	ENST00000398291	protein_coding	KNOWN	CCDS47625	22800	1065	354	80087987	80141336	-1	None	gustducin, GDCA
10	GSTO2	ENSG00000065621	ENST00000338595	protein_coding	KNOWN	CCDS7556	23064	732	243	106028939	106059169	1	None	None
10	GSTO2	ENSG00000065621	ENST00000473401	processed_transcript	KNOWN	None	23064	None	None	106034656	106059172	1	None	None
10	GSTO2	ENSG00000065621	ENST00000477078	processed_transcript	KNOWN	None	23064	None	None	106034678	106051402	1	None	None
10	GSTO2	ENSG00000065621	ENST00000369707	protein_coding	KNOWN	CCDS53575	23064	648	215	106034920	106059176	1	None	None
10	GSTO2	ENSG00000065621	ENST00000467629	processed_transcript	KNOWN	None	23064	None	None	106045696	106059176	1	None	None
10	GSTO2	ENSG00000065621	ENST00000498052	retained_intron	KNOWN	None	23064	None	None	106055033	106059169	1	None	None
10	GSTO2	ENSG00000065621	ENST00000450629	protein_coding	KNOWN	CCDS53574	23064	630	209	106028631	106059175	1	None	None
10	GSTO2	ENSG00000065621	ENST00000401888	protein_coding	KNOWN	None	23064	501	166	106034649	106048815	1	None	None
10	GSTO2	ENSG00000065621	ENST00000429569	protein_coding	KNOWN	None	23064	366	121	106034924	106059616	1	None	None
19	NLRP7	ENSG00000167634	ENST00000328092	protein_coding	KNOWN	CCDS12912	22947	3030	1009	55434878	55453118	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
19	NLRP7	ENSG00000167634	ENST00000590030	protein_coding	KNOWN	CCDS33109	22947	2943	980	55434883	55453120	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
19	NLRP7	ENSG00000167634	ENST00000588756	protein_coding	KNOWN	CCDS46183	22947	3114	1037	55434883	55477611	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
19	NLRP7	ENSG00000167634	ENST00000586379	nonsense_mediated_decay	KNOWN	None	22947	2892	963	55435020	55458865	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
19	NLRP7	ENSG00000167634	ENST00000592784	protein_coding	KNOWN	CCDS46183	22947	3114	1037	55435021	55458865	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
19	NLRP7	ENSG00000167634	ENST00000587844	protein_coding	KNOWN	None	22947	290	95	55452361	55477621	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
19	NLRP7	ENSG00000167634	ENST00000587103	protein_coding	KNOWN	None	22947	210	69	55452870	55477680	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
19	NLRP7	ENSG00000167634	ENST00000590659	protein_coding	KNOWN	None	22947	161	52	55452919	55477611	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
19	NLRP7	ENSG00000167634	ENST00000446217	protein_coding	KNOWN	None	22947	3198	1065	55434883	55477611	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
19	NLRP7	ENSG00000167634	ENST00000448121	protein_coding	KNOWN	CCDS12912	22947	3030	1009	55434877	55458873	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
19	NLRP7	ENSG00000167634	ENST00000340844	protein_coding	KNOWN	CCDS33109	22947	2943	980	55434877	55458873	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
19	CGB	ENSG00000104827	ENST00000357383	protein_coding	KNOWN	CCDS12749	1886	498	165	49526126	49527590	-1	None	CGB3
17	RCVRN	ENSG00000109047	ENST00000226193	protein_coding	KNOWN	CCDS11151	9937	603	200	9799637	9808938	-1	RCV1	None
17	RCVRN	ENSG00000109047	ENST00000570909	protein_coding	NOVEL	None	9937	210	69	9801027	9804495	-1	RCV1	None
4	None	ENSG00000249985	ENST00000514659	unprocessed_pseudogene	KNOWN	None	None	None	None	69773636	69773752	-1	None	None
6	None	ENSG00000220522	ENST00000406554	processed_pseudogene	KNOWN	None	None	None	None	127737680	127738097	-1	None	None
Y	None	ENSG00000237968	ENST00000426526	unprocessed_pseudogene	KNOWN	None	None	None	None	24086159	24087740	1	None	None
18	DLGAP1-AS2	ENSG00000262001	ENST00000573177	antisense	KNOWN	None	28146	None	None	3602998	3604385	1	None	MGC11082
18	DLGAP1-AS2	ENSG00000262001	ENST00000572856	antisense	KNOWN	None	28146	None	None	3603736	3608334	1	None	MGC11082
Y	OFD1P8Y	ENSG00000231159	ENST00000449148	unprocessed_pseudogene	KNOWN	None	23880	None	None	24118460	24151496	1	OFDYP8, OFD1P8, OFD1PY8	None
4	None	ENSG00000198277	ENST00000511202	unprocessed_pseudogene	KNOWN	None	None	None	None	69780646	69790459	-1	None	None
4	None	ENSG00000198277	ENST00000452537	processed_pseudogene	KNOWN	None	None	None	None	69780640	69780918	-1	None	None
6	None	ENSG00000220694	ENST00000404780	processed_pseudogene	KNOWN	None	None	None	None	127756781	127757334	1	None	None
19	SNRPEP4	ENSG00000233270	ENST00000435815	processed_pseudogene	KNOWN	None	43446	None	None	5576671	5576949	-1	None	None
4	None	ENSG00000252150	ENST00000516341	miRNA	NOVEL	None	None	None	None	461317	461425	-1	None	None
18	None	ENSG00000266401	ENST00000577848	antisense	KNOWN	None	None	None	None	3653410	3656282	1	None	None
19	None	ENSG00000263995	ENST00000579264	miRNA	NOVEL	None	None	None	None	5822936	5823035	1	None	None
4	RN7SL358P	ENSG00000263386	ENST00000580321	misc_RNA	KNOWN	None	46374	None	None	585359	585697	1	None	None
19	None	ENSG00000267709	ENST00000589276	antisense	KNOWN	None	None	None	None	5847478	5858250	1	None	None
18	None	ENSG00000266513	ENST00000584060	sense_intronic	KNOWN	None	None	None	None	3770017	3771430	-1	None	None
4	None	ENSG00000242686	ENST00000598370	antisense	KNOWN	None	None	None	None	646639	647049	-1	None	None
4	None	ENSG00000242686	ENST00000599030	antisense	KNOWN	None	None	None	None	646744	647578	-1	None	None
4	None	ENSG00000242686	ENST00000468356	antisense	KNOWN	None	None	None	None	647012	649434	-1	None	None
4	None	ENSG00000242686	ENST00000489312	antisense	KNOWN	None	None	None	None	647523	649266	-1	None	None
19	None	ENSG00000266941	ENST00000589277	antisense	KNOWN	None	None	None	None	5899906	5901472	1	None	None
19	None	ENSG00000266941	ENST00000590441	antisense	KNOWN	None	None	None	None	5899921	5901522	1	None	None
18	None	ENSG00000238790	ENST00000459060	snoRNA	NOVEL	None	None	None	None	3811317	3811420	1	None	None
Y	HSFY5P	ENSG00000232475	ENST00000453726	unprocessed_pseudogene	KNOWN	None	38789	None	None	24194701	24195494	-1	None	None
3	CCDC39	ENSG00000145075	ENST00000473854	protein_coding	PUTATIVE	None	25244	308	101	180320646	180334440	-1	None	DKFZp434A128, CILD14, FAP59
3	CCDC39	ENSG00000145075	ENST00000489868	protein_coding	PUTATIVE	None	25244	204	67	180327291	180334405	-1	None	DKFZp434A128, CILD14, FAP59
3	CCDC39	ENSG00000145075	ENST00000476379	nonsense_mediated_decay	KNOWN	None	25244	2016	671	180331796	180455662	-1	None	DKFZp434A128, CILD14, FAP59
3	CCDC39	ENSG00000145075	ENST00000442201	protein_coding	KNOWN	CCDS46964	25244	2826	941	180332376	180397288	-1	None	DKFZp434A128, CILD14, FAP59
3	CCDC39	ENSG00000145075	ENST00000471307	protein_coding	PUTATIVE	None	25244	292	96	180379660	180588721	-1	None	DKFZp434A128, CILD14, FAP59
3	CCDC39	ENSG00000145075	ENST00000485055	processed_transcript	KNOWN	None	25244	None	None	180425377	180587966	-1	None	DKFZp434A128, CILD14, FAP59
3	CCDC39	ENSG00000145075	ENST00000495817	processed_transcript	KNOWN	None	25244	None	None	180426114	180588793	-1	None	DKFZp434A128, CILD14, FAP59
3	CCDC39	ENSG00000145075	ENST00000273654	protein_coding	KNOWN	None	25244	2268	755	180331797	180455662	-1	None	DKFZp434A128, CILD14, FAP59
14	None	ENSG00000258945	ENST00000553678	protein_coding	PUTATIVE	None	None	297	98	85994943	85995730	1	None	None
18	DLGAP1-AS3	ENSG00000263724	ENST00000577649	antisense	KNOWN	None	27317	None	None	3878180	3897069	1	None	None
18	DLGAP1-AS3	ENSG00000263724	ENST00000583571	antisense	KNOWN	None	27317	None	None	3891932	3896658	1	None	None
4	None	ENSG00000251498	ENST00000515628	unprocessed_pseudogene	KNOWN	None	None	None	None	69838717	69841711	-1	None	None
2	CRIPT	ENSG00000119878	ENST00000486447	processed_transcript	KNOWN	None	14312	None	None	46843555	46852192	1	None	HSPC139
2	CRIPT	ENSG00000119878	ENST00000238892	protein_coding	KNOWN	CCDS1829	14312	306	101	46844290	46852881	1	None	HSPC139
Y	USP9YP17	ENSG00000229553	ENST00000444617	unprocessed_pseudogene	KNOWN	None	38753	None	None	24195902	24204260	-1	None	None
19	SBK2	ENSG00000187550	ENST00000413299	protein_coding	KNOWN	CCDS42631	34416	1047	348	56041100	56048456	-1	None	SGK069
19	SBK2	ENSG00000187550	ENST00000344158	protein_coding	KNOWN	CCDS42631	34416	1047	348	56041100	56047661	-1	None	SGK069
7	DTX2	ENSG00000091073	ENST00000425780	protein_coding	KNOWN	None	15973	195	64	76090993	76110021	1	None	RNF58
7	DTX2	ENSG00000091073	ENST00000456590	protein_coding	KNOWN	None	15973	75	24	76091014	76109901	1	None	RNF58
7	DTX2	ENSG00000091073	ENST00000451769	protein_coding	KNOWN	None	15973	85	27	76091014	76109911	1	None	RNF58
7	DTX2	ENSG00000091073	ENST00000324432	protein_coding	KNOWN	CCDS5587	15973	1869	622	76091018	76135308	1	None	RNF58
7	DTX2	ENSG00000091073	ENST00000492339	processed_transcript	KNOWN	None	15973	None	None	76091026	76109764	1	None	RNF58
7	DTX2	ENSG00000091073	ENST00000457529	protein_coding	KNOWN	None	15973	186	61	76091026	76110012	1	None	RNF58
7	DTX2	ENSG00000091073	ENST00000446600	protein_coding	PUTATIVE	None	15973	1596	531	76091026	76135305	1	None	RNF58
7	DTX2	ENSG00000091073	ENST00000413936	protein_coding	KNOWN	CCDS5587	15973	1869	622	76091033	76135311	1	None	RNF58
7	DTX2	ENSG00000091073	ENST00000423646	protein_coding	KNOWN	None	15973	420	139	76091034	76111976	1	None	RNF58
7	DTX2	ENSG00000091073	ENST00000438930	protein_coding	KNOWN	None	15973	269	88	76091037	76110095	1	None	RNF58
7	DTX2	ENSG00000091073	ENST00000430490	protein_coding	KNOWN	CCDS5587	15973	1869	622	76091044	76135308	1	None	RNF58
7	DTX2	ENSG00000091073	ENST00000442516	protein_coding	KNOWN	None	15973	42	13	76091775	76109868	1	None	RNF58
7	DTX2	ENSG00000091073	ENST00000429179	protein_coding	KNOWN	None	15973	324	107	76101379	76111880	1	None	RNF58
7	DTX2	ENSG00000091073	ENST00000435861	protein_coding	KNOWN	None	15973	269	88	76107444	76110095	1	None	RNF58
7	DTX2	ENSG00000091073	ENST00000472426	processed_transcript	PUTATIVE	None	15973	None	None	76108292	76111932	1	None	RNF58
7	DTX2	ENSG00000091073	ENST00000446820	protein_coding	KNOWN	CCDS43605	15973	1728	575	76109827	76134960	1	None	RNF58
7	DTX2	ENSG00000091073	ENST00000467729	retained_intron	KNOWN	None	15973	None	None	76121314	76131773	1	None	RNF58
7	DTX2	ENSG00000091073	ENST00000435251	nonsense_mediated_decay	KNOWN	None	15973	262	86	76121470	76132306	1	None	RNF58
7	DTX2	ENSG00000091073	ENST00000479915	retained_intron	KNOWN	None	15973	None	None	76129119	76135312	1	None	RNF58
7	DTX2	ENSG00000091073	ENST00000468546	retained_intron	KNOWN	None	15973	None	None	76131206	76135308	1	None	RNF58
7	DTX2	ENSG00000091073	ENST00000465488	retained_intron	KNOWN	None	15973	None	None	76132684	76135155	1	None	RNF58
7	DTX2	ENSG00000091073	ENST00000307569	protein_coding	KNOWN	CCDS43605	15973	1728	575	76091018	76135305	1	None	RNF58
4	None	ENSG00000248416	ENST00000502923	antisense	KNOWN	None	None	None	None	716064	717823	-1	None	None
10	MAPK8	ENSG00000107643	ENST00000432379	protein_coding	KNOWN	None	6881	428	141	49514698	49618189	1	PRKM8	JNK, JNK1, SAPK1
10	MAPK8	ENSG00000107643	ENST00000429041	protein_coding	KNOWN	None	6881	293	96	49514723	49628289	1	PRKM8	JNK, JNK1, SAPK1
10	MAPK8	ENSG00000107643	ENST00000374189	protein_coding	KNOWN	CCDS7224	6881	1284	427	49514733	49647403	1	PRKM8	JNK, JNK1, SAPK1
10	MAPK8	ENSG00000107643	ENST00000426557	protein_coding	KNOWN	None	6881	426	141	49515069	49618187	1	PRKM8	JNK, JNK1, SAPK1
10	MAPK8	ENSG00000107643	ENST00000476134	processed_transcript	KNOWN	None	6881	None	None	49516259	49618371	1	PRKM8	JNK, JNK1, SAPK1
10	MAPK8	ENSG00000107643	ENST00000374182	protein_coding	KNOWN	CCDS7225	6881	1155	384	49609686	49647403	1	PRKM8	JNK, JNK1, SAPK1
10	MAPK8	ENSG00000107643	ENST00000374179	protein_coding	KNOWN	CCDS7226	6881	1155	384	49609687	49647403	1	PRKM8	JNK, JNK1, SAPK1
10	MAPK8	ENSG00000107643	ENST00000374176	protein_coding	KNOWN	CCDS7223	6881	1284	427	49609691	49647403	1	PRKM8	JNK, JNK1, SAPK1
10	MAPK8	ENSG00000107643	ENST00000374174	protein_coding	KNOWN	None	6881	657	218	49609704	49633874	1	PRKM8	JNK, JNK1, SAPK1
10	MAPK8	ENSG00000107643	ENST00000469879	processed_transcript	KNOWN	None	6881	None	None	49632562	49642941	1	PRKM8	JNK, JNK1, SAPK1
10	MAPK8	ENSG00000107643	ENST00000471272	retained_intron	KNOWN	None	6881	None	None	49632612	49635453	1	PRKM8	JNK, JNK1, SAPK1
10	MAPK8	ENSG00000107643	ENST00000469110	retained_intron	KNOWN	None	6881	None	None	49633232	49644483	1	PRKM8	JNK, JNK1, SAPK1
10	MAPK8	ENSG00000107643	ENST00000482840	processed_transcript	KNOWN	None	6881	None	None	49633897	49634655	1	PRKM8	JNK, JNK1, SAPK1
10	MAPK8	ENSG00000107643	ENST00000459755	processed_transcript	KNOWN	None	6881	None	None	49637936	49643920	1	PRKM8	JNK, JNK1, SAPK1
10	MAPK8	ENSG00000107643	ENST00000360332	protein_coding	KNOWN	CCDS7224	6881	1284	427	49609687	49643173	1	PRKM8	JNK, JNK1, SAPK1
10	MAPK8	ENSG00000107643	ENST00000395611	protein_coding	KNOWN	None	6881	927	308	49609704	49642938	1	PRKM8	JNK, JNK1, SAPK1
6	CD83	ENSG00000112149	ENST00000379153	protein_coding	KNOWN	CCDS4532	1703	618	205	14117872	14137149	1	None	HB15, BL11
18	RNU6-831P	ENSG00000207278	ENST00000384548	snRNA	KNOWN	None	47794	None	None	3894699	3894805	-1	None	None
20	TMEM74B	ENSG00000125895	ENST00000381894	protein_coding	KNOWN	CCDS13011	15893	771	256	1161205	1165117	-1	C20orf46	FLJ11190
20	TMEM74B	ENSG00000125895	ENST00000429036	protein_coding	KNOWN	None	15893	462	153	1161801	1165319	-1	C20orf46	FLJ11190
20	TMEM74B	ENSG00000125895	ENST00000481747	processed_transcript	KNOWN	None	15893	None	None	1161928	1166059	-1	C20orf46	FLJ11190
4	None	ENSG00000249735	ENST00000503544	unprocessed_pseudogene	KNOWN	None	None	None	None	69850727	69854251	-1	None	None
5	COQ10BP2	ENSG00000251552	ENST00000513804	processed_pseudogene	KNOWN	None	44913	None	None	82575740	82576463	-1	None	None
4	None	ENSG00000249592	ENST00000503571	antisense	KNOWN	None	None	None	None	756175	775637	-1	None	None
4	None	ENSG00000249592	ENST00000507446	antisense	KNOWN	None	None	None	None	760929	775618	-1	None	None
4	None	ENSG00000249592	ENST00000503185	antisense	KNOWN	None	None	None	None	773937	775637	-1	None	None
4	None	ENSG00000249592	ENST00000503405	antisense	KNOWN	None	None	None	None	774034	775637	-1	None	None
18	DLGAP1-AS4	ENSG00000263878	ENST00000582054	antisense	KNOWN	None	44333	None	None	3962353	4013943	1	None	None
5	FTH1P9	ENSG00000251395	ENST00000513251	processed_pseudogene	KNOWN	None	39089	None	None	82722495	82722849	1	None	None
Y	CDY12P	ENSG00000228850	ENST00000440679	unprocessed_pseudogene	KNOWN	None	23856	None	None	24210845	24211859	1	None	None
14	SERPINA11	ENSG00000186910	ENST00000334708	protein_coding	KNOWN	CCDS32149	19193	1269	422	94908801	94919127	-1	None	None
19	ZNF333	ENSG00000160961	ENST00000392987	retained_intron	KNOWN	None	15624	None	None	14800613	14818074	1	None	KIAA1806
19	ZNF333	ENSG00000160961	ENST00000597007	nonsense_mediated_decay	KNOWN	None	15624	321	106	14800861	14826995	1	None	KIAA1806
19	ZNF333	ENSG00000160961	ENST00000596285	retained_intron	KNOWN	None	15624	None	None	14800867	14810223	1	None	KIAA1806
19	ZNF333	ENSG00000160961	ENST00000540689	protein_coding	PUTATIVE	None	15624	912	303	14800881	14844558	1	None	KIAA1806
19	ZNF333	ENSG00000160961	ENST00000601134	protein_coding	PUTATIVE	None	15624	501	166	14800886	14820032	1	None	KIAA1806
19	ZNF333	ENSG00000160961	ENST00000601629	processed_transcript	KNOWN	None	15624	None	None	14800911	14811167	1	None	KIAA1806
19	ZNF333	ENSG00000160961	ENST00000292530	protein_coding	KNOWN	CCDS12316	15624	1998	665	14800913	14832720	1	None	KIAA1806
19	ZNF333	ENSG00000160961	ENST00000597301	retained_intron	KNOWN	None	15624	None	None	14800918	14829055	1	None	KIAA1806
19	ZNF333	ENSG00000160961	ENST00000598161	nonsense_mediated_decay	KNOWN	None	15624	588	195	14804263	14831605	1	None	KIAA1806
19	ZNF333	ENSG00000160961	ENST00000594592	retained_intron	KNOWN	None	15624	None	None	14818806	14820062	1	None	KIAA1806
19	ZNF333	ENSG00000160961	ENST00000536363	protein_coding	KNOWN	None	15624	1671	556	14800711	14830546	1	None	KIAA1806
HSCHR6_MHC_QBL	CLIC1	ENSG00000206394	ENST00000400052	protein_coding	KNOWN	None	2062	726	241	31688591	31694585	-1	None	NCC27, p64CLCP
HSCHR6_MHC_QBL	CLIC1	ENSG00000206394	ENST00000383404	protein_coding	KNOWN	None	2062	726	241	31688591	31694590	-1	None	NCC27, p64CLCP
HSCHR6_MHC_QBL	CLIC1	ENSG00000206394	ENST00000383405	protein_coding	KNOWN	None	2062	726	241	31688591	31695336	-1	None	NCC27, p64CLCP
HSCHR6_MHC_QBL	CLIC1	ENSG00000206394	ENST00000400058	protein_coding	KNOWN	None	2062	726	241	31688591	31697781	-1	None	NCC27, p64CLCP
5	VCAN-AS1	ENSG00000249835	ENST00000512090	antisense	KNOWN	None	40163	None	None	82827171	82858133	-1	None	None
5	VCAN-AS1	ENSG00000249835	ENST00000513899	antisense	KNOWN	None	40163	None	None	82837296	82877139	-1	None	None
20	LRRN4	ENSG00000125872	ENST00000378858	protein_coding	KNOWN	CCDS13097	16208	2223	740	6021424	6034695	-1	C20orf75	dJ1056H1.1, NLRR4
4	None	ENSG00000250277	ENST00000509604	processed_pseudogene	KNOWN	None	None	None	None	69862653	69863427	-1	None	None
11	ANKRD13D	ENSG00000172932	ENST00000447274	protein_coding	KNOWN	None	27880	1557	518	67056018	67069952	1	None	None
11	ANKRD13D	ENSG00000172932	ENST00000512101	retained_intron	KNOWN	None	27880	None	None	67056771	67059122	1	None	None
11	ANKRD13D	ENSG00000172932	ENST00000513460	retained_intron	KNOWN	None	27880	None	None	67056819	67058011	1	None	None
11	ANKRD13D	ENSG00000172932	ENST00000308440	protein_coding	KNOWN	None	27880	1557	518	67056819	67069954	1	None	None
11	ANKRD13D	ENSG00000172932	ENST00000514166	protein_coding	KNOWN	None	27880	1557	518	67056873	67069956	1	None	None
11	ANKRD13D	ENSG00000172932	ENST00000514779	retained_intron	KNOWN	None	27880	None	None	67057405	67059508	1	None	None
11	ANKRD13D	ENSG00000172932	ENST00000506531	retained_intron	KNOWN	None	27880	None	None	67057838	67067505	1	None	None
11	ANKRD13D	ENSG00000172932	ENST00000504729	retained_intron	KNOWN	None	27880	None	None	67057883	67059645	1	None	None
11	ANKRD13D	ENSG00000172932	ENST00000504186	retained_intron	KNOWN	None	27880	None	None	67059609	67067773	1	None	None
11	ANKRD13D	ENSG00000172932	ENST00000508417	retained_intron	KNOWN	None	27880	None	None	67065362	67069954	1	None	None
11	ANKRD13D	ENSG00000172932	ENST00000512231	retained_intron	KNOWN	None	27880	None	None	67065404	67069954	1	None	None
11	ANKRD13D	ENSG00000172932	ENST00000513750	retained_intron	KNOWN	None	27880	None	None	67066101	67069954	1	None	None
11	ANKRD13D	ENSG00000172932	ENST00000508422	processed_transcript	KNOWN	None	27880	None	None	67066894	67069954	1	None	None
11	ANKRD13D	ENSG00000172932	ENST00000507915	retained_intron	KNOWN	None	27880	None	None	67067463	67069922	1	None	None
11	ANKRD13D	ENSG00000172932	ENST00000506119	retained_intron	KNOWN	None	27880	None	None	67067501	67068599	1	None	None
11	ANKRD13D	ENSG00000172932	ENST00000515828	protein_coding	KNOWN	None	27880	768	255	67068247	67069955	1	None	None
11	ANKRD13D	ENSG00000172932	ENST00000504236	processed_transcript	KNOWN	None	27880	None	None	67068944	67069955	1	None	None
11	ANKRD13D	ENSG00000172932	ENST00000511455	protein_coding	KNOWN	CCDS31616	27880	1818	605	67056762	67069954	1	None	None
Y	TCEB1P15	ENSG00000232029	ENST00000442090	processed_pseudogene	KNOWN	None	38151	None	None	24214967	24215298	1	None	None
6	None	ENSG00000219284	ENST00000403830	unprocessed_pseudogene	KNOWN	None	None	None	None	127954103	127956466	-1	None	None
14	FLRT2	ENSG00000185070	ENST00000330753	protein_coding	KNOWN	CCDS9877	3761	1983	660	85996488	86095034	1	None	None
14	FLRT2	ENSG00000185070	ENST00000556335	processed_transcript	PUTATIVE	None	3761	None	None	85996490	86019165	1	None	None
14	FLRT2	ENSG00000185070	ENST00000557419	processed_transcript	PUTATIVE	None	3761	None	None	85996507	86029396	1	None	None
14	FLRT2	ENSG00000185070	ENST00000554746	protein_coding	KNOWN	CCDS9877	3761	1983	660	85996572	86090431	1	None	None
14	FLRT2	ENSG00000185070	ENST00000555398	processed_transcript	PUTATIVE	None	3761	None	None	86025653	86029394	1	None	None
14	FLRT2	ENSG00000185070	ENST00000553627	retained_intron	KNOWN	None	3761	None	None	86027207	86029087	1	None	None
14	FLRT2	ENSG00000185070	ENST00000553650	processed_transcript	PUTATIVE	None	3761	None	None	86090034	86092572	1	None	None
5	RN7SKP295	ENSG00000253073	ENST00000517264	misc_RNA	KNOWN	None	46019	None	None	82981685	82981837	1	None	None
6	None	ENSG00000218187	ENST00000405809	processed_pseudogene	KNOWN	None	None	None	None	127976005	127976423	-1	None	None
5	RNU6-620P	ENSG00000206744	ENST00000384017	snRNA	KNOWN	None	47583	None	None	82999267	82999362	1	None	None
6	HLA-N	ENSG00000224372	ENST00000437516	unprocessed_pseudogene	KNOWN	None	19406	None	None	30319193	30319327	1	None	HLA-30
Y	None	ENSG00000236951	ENST00000417910	lincRNA	KNOWN	None	None	None	None	24246961	24252016	-1	None	None
Y	None	ENSG00000236951	ENST00000419158	lincRNA	KNOWN	None	None	None	None	24247839	24293631	-1	None	None
20	STK4	ENSG00000101109	ENST00000372806	protein_coding	KNOWN	CCDS13341	11408	1464	487	43595115	43708600	1	None	MST1, KRS2, YSK3
20	STK4	ENSG00000101109	ENST00000488618	processed_transcript	KNOWN	None	11408	None	None	43595156	43601561	1	None	MST1, KRS2, YSK3
20	STK4	ENSG00000101109	ENST00000372801	protein_coding	KNOWN	None	11408	1389	462	43595163	43704249	1	None	MST1, KRS2, YSK3
20	STK4	ENSG00000101109	ENST00000480745	processed_transcript	KNOWN	None	11408	None	None	43595180	43603045	1	None	MST1, KRS2, YSK3
20	STK4	ENSG00000101109	ENST00000487587	processed_transcript	KNOWN	None	11408	None	None	43595194	43604329	1	None	MST1, KRS2, YSK3
20	STK4	ENSG00000101109	ENST00000474717	processed_transcript	KNOWN	None	11408	None	None	43599183	43623898	1	None	MST1, KRS2, YSK3
20	STK4	ENSG00000101109	ENST00000499879	protein_coding	KNOWN	None	11408	1299	432	43595167	43707692	1	None	MST1, KRS2, YSK3
20	STK4	ENSG00000101109	ENST00000396731	protein_coding	KNOWN	None	11408	1389	462	43595142	43681810	1	None	MST1, KRS2, YSK3
5	None	ENSG00000242858	ENST00000492855	processed_pseudogene	KNOWN	None	None	None	None	83042207	83042808	-1	None	None
6	None	ENSG00000260212	ENST00000568952	processed_pseudogene	KNOWN	None	None	None	None	127980569	127981483	1	None	None
6	HCG19P	ENSG00000224486	ENST00000448756	processed_pseudogene	KNOWN	None	31336	None	None	30327055	30327688	-1	None	AB014085.4
15	PATL2	ENSG00000229474	ENST00000560775	protein_coding	KNOWN	CCDS45253	33630	1632	543	44957930	44968748	-1	None	None
15	PATL2	ENSG00000229474	ENST00000558159	retained_intron	KNOWN	None	33630	None	None	44957931	44959217	-1	None	None
15	PATL2	ENSG00000229474	ENST00000558809	protein_coding	PUTATIVE	None	33630	477	158	44957933	44960683	-1	None	None
15	PATL2	ENSG00000229474	ENST00000560780	protein_coding	PUTATIVE	None	33630	1065	354	44957933	44969086	-1	None	None
15	PATL2	ENSG00000229474	ENST00000561082	retained_intron	KNOWN	None	33630	None	None	44957934	44959476	-1	None	None
15	PATL2	ENSG00000229474	ENST00000558481	nonsense_mediated_decay	KNOWN	None	33630	566	187	44962001	44967817	-1	None	None
15	PATL2	ENSG00000229474	ENST00000560110	protein_coding	PUTATIVE	None	33630	376	124	44964316	44969022	-1	None	None
15	PATL2	ENSG00000229474	ENST00000558573	processed_transcript	KNOWN	None	33630	None	None	44966961	45003514	-1	None	None
15	PATL2	ENSG00000229474	ENST00000434130	protein_coding	KNOWN	CCDS45253	33630	1632	543	44957931	44969086	-1	None	None
6	UBQLN1P1	ENSG00000236405	ENST00000441056	processed_pseudogene	KNOWN	None	21633	None	None	30330889	30332057	-1	UBQLN1P	None
5	RNU4-11P	ENSG00000202157	ENST00000365287	snRNA	KNOWN	None	46947	None	None	83099373	83099504	1	None	None
5	None	ENSG00000250013	ENST00000514761	processed_pseudogene	KNOWN	None	None	None	None	83170985	83171640	-1	None	None
6	MICC	ENSG00000226577	ENST00000445710	unprocessed_pseudogene	KNOWN	None	7092	None	None	30382492	30387096	1	None	PERB11.3
19	None	ENSG00000231274	ENST00000420723	protein_coding	KNOWN	None	None	1269	422	56052023	56056909	-1	None	None
19	None	ENSG00000231274	ENST00000592464	protein_coding	PUTATIVE	None	None	480	159	56055614	56056888	-1	None	None
16	ZKSCAN2	ENSG00000155592	ENST00000328086	protein_coding	KNOWN	CCDS32410	25677	2904	967	25247322	25269252	-1	ZNF694	FLJ23199, ZSCAN34
16	ZKSCAN2	ENSG00000155592	ENST00000569150	nonsense_mediated_decay	KNOWN	None	25677	699	232	25250815	25268878	-1	ZNF694	FLJ23199, ZSCAN34
16	ZKSCAN2	ENSG00000155592	ENST00000565590	retained_intron	KNOWN	None	25677	None	None	25257592	25268855	-1	ZNF694	FLJ23199, ZSCAN34
Y	TTTY6B	ENSG00000131548	ENST00000253848	antisense	KNOWN	None	31887	None	None	24291113	24292978	1	None	LINC00128
Y	TTTY6B	ENSG00000131548	ENST00000545808	antisense	KNOWN	None	31887	None	None	24291169	24292831	1	None	LINC00128
3	RABL3	ENSG00000144840	ENST00000273375	protein_coding	KNOWN	CCDS3001	18072	711	236	120405528	120461384	-1	None	MGC23920
3	RABL3	ENSG00000144840	ENST00000473654	nonsense_mediated_decay	KNOWN	None	18072	390	129	120407444	120461840	-1	None	MGC23920
3	RABL3	ENSG00000144840	ENST00000485161	nonsense_mediated_decay	KNOWN	None	18072	162	53	120407543	120461361	-1	None	MGC23920
3	RABL3	ENSG00000144840	ENST00000481015	nonsense_mediated_decay	KNOWN	None	18072	160	52	120408265	120461352	-1	None	MGC23920
3	RABL3	ENSG00000144840	ENST00000465022	nonsense_mediated_decay	KNOWN	None	18072	408	135	120408394	120461357	-1	None	MGC23920
3	RABL3	ENSG00000144840	ENST00000491398	processed_transcript	KNOWN	None	18072	None	None	120408541	120461380	-1	None	MGC23920
3	RABL3	ENSG00000144840	ENST00000483733	protein_coding	NOVEL	None	18072	639	212	120408562	120461367	-1	None	MGC23920
3	RABL3	ENSG00000144840	ENST00000468192	processed_transcript	KNOWN	None	18072	None	None	120413000	120429393	-1	None	MGC23920
1	TMEM50A	ENSG00000183726	ENST00000374358	protein_coding	KNOWN	CCDS264	30590	474	157	25664408	25688852	1	None	SMP1
1	TMEM50A	ENSG00000183726	ENST00000498135	processed_transcript	KNOWN	None	30590	None	None	25664808	25687458	1	None	SMP1
1	TMEM50A	ENSG00000183726	ENST00000491936	processed_transcript	KNOWN	None	30590	None	None	25664811	25687756	1	None	SMP1
1	TMEM50A	ENSG00000183726	ENST00000480937	processed_transcript	KNOWN	None	30590	None	None	25664814	25687770	1	None	SMP1
1	TMEM50A	ENSG00000183726	ENST00000468704	processed_transcript	KNOWN	None	30590	None	None	25664951	25683344	1	None	SMP1
1	TMEM50A	ENSG00000183726	ENST00000487234	processed_transcript	KNOWN	None	30590	None	None	25669083	25678145	1	None	SMP1
9	FUBP3	ENSG00000107164	ENST00000467100	processed_transcript	KNOWN	None	4005	None	None	133454352	133457473	1	FBP3	None
9	FUBP3	ENSG00000107164	ENST00000319725	protein_coding	KNOWN	CCDS43893	4005	1719	572	133454993	133513739	1	FBP3	None
9	FUBP3	ENSG00000107164	ENST00000465949	processed_transcript	KNOWN	None	4005	None	None	133456482	133488409	1	FBP3	None
9	FUBP3	ENSG00000107164	ENST00000487406	processed_transcript	KNOWN	None	4005	None	None	133495801	133507409	1	FBP3	None
9	FUBP3	ENSG00000107164	ENST00000472006	processed_transcript	KNOWN	None	4005	None	None	133510008	133512438	1	FBP3	None
9	FUBP3	ENSG00000107164	ENST00000492199	processed_transcript	KNOWN	None	4005	None	None	133511251	133512620	1	FBP3	None
7	C7orf55-LUC7L2	ENSG00000146963	ENST00000541170	protein_coding	KNOWN	CCDS59085	44671	1170	389	139025105	139107257	1	None	None
7	C7orf55-LUC7L2	ENSG00000146963	ENST00000435096	retained_intron	KNOWN	None	44671	None	None	139044654	139059301	1	None	None
7	C7orf55-LUC7L2	ENSG00000146963	ENST00000354926	protein_coding	KNOWN	CCDS43656	44671	1179	392	139044654	139108198	1	None	None
7	C7orf55-LUC7L2	ENSG00000146963	ENST00000456182	nonsense_mediated_decay	KNOWN	None	44671	252	83	139044658	139107897	1	None	None
7	C7orf55-LUC7L2	ENSG00000146963	ENST00000463912	retained_intron	KNOWN	None	44671	None	None	139059419	139097571	1	None	None
7	C7orf55-LUC7L2	ENSG00000146963	ENST00000498518	retained_intron	KNOWN	None	44671	None	None	139059950	139107947	1	None	None
7	C7orf55-LUC7L2	ENSG00000146963	ENST00000482860	processed_transcript	KNOWN	None	44671	None	None	139100871	139107902	1	None	None
7	C7orf55-LUC7L2	ENSG00000146963	ENST00000263545	protein_coding	KNOWN	CCDS59510	44671	1176	391	139059160	139108198	1	None	None
22	IL2RB	ENSG00000100385	ENST00000216223	protein_coding	KNOWN	CCDS13942	6009	1656	551	37521878	37546030	-1	IL15RB	CD122
22	IL2RB	ENSG00000100385	ENST00000483573	retained_intron	KNOWN	None	6009	None	None	37524562	37532448	-1	IL15RB	CD122
22	IL2RB	ENSG00000100385	ENST00000453962	protein_coding	KNOWN	None	6009	566	187	37532405	37571094	-1	IL15RB	CD122
22	IL2RB	ENSG00000100385	ENST00000429622	protein_coding	KNOWN	None	6009	439	145	37533725	37571094	-1	IL15RB	CD122
22	IL2RB	ENSG00000100385	ENST00000461607	retained_intron	KNOWN	None	6009	None	None	37535112	37571094	-1	IL15RB	CD122
22	IL2RB	ENSG00000100385	ENST00000440958	nonsense_mediated_decay	KNOWN	None	6009	318	105	37535183	37539661	-1	IL15RB	CD122
22	IL2RB	ENSG00000100385	ENST00000445595	protein_coding	KNOWN	None	6009	266	87	37538490	37571094	-1	IL15RB	CD122
6	None	ENSG00000219699	ENST00000407841	processed_pseudogene	KNOWN	None	None	None	None	127980835	127981724	-1	None	None
2	SOCS5	ENSG00000171150	ENST00000306503	protein_coding	KNOWN	CCDS1830	16852	1611	536	46926091	46990268	1	None	KIAA0671, SOCS-5, CIS6, CISH6, Cish5
2	SOCS5	ENSG00000171150	ENST00000394861	protein_coding	KNOWN	CCDS1830	16852	1611	536	46926326	46989452	1	None	KIAA0671, SOCS-5, CIS6, CISH6, Cish5
17	KRT24	ENSG00000167916	ENST00000264651	protein_coding	KNOWN	CCDS11372	18527	1578	525	38854243	38860002	-1	None	FLJ20261, MGC138169, MGC138173
7	RNU6-1198P	ENSG00000252713	ENST00000516904	snRNA	KNOWN	None	48161	None	None	72921538	72921604	1	None	None
7	MIR4284	ENSG00000265724	ENST00000578924	miRNA	KNOWN	None	38322	None	None	73125647	73125727	1	None	hsa-mir-4284
6	None	ENSG00000227945	ENST00000417390	antisense	KNOWN	None	None	None	None	128349031	128406393	1	None	None
7	None	ENSG00000230520	ENST00000429245	processed_pseudogene	KNOWN	None	None	None	None	118590440	118591313	-1	None	None
14	SERPINA9	ENSG00000170054	ENST00000448305	protein_coding	KNOWN	None	15995	1014	337	94929054	94942535	-1	None	CENTERIN, SERPINA11b, GCET1
14	SERPINA9	ENSG00000170054	ENST00000298845	protein_coding	KNOWN	CCDS41983	15995	1008	335	94929054	94942548	-1	None	CENTERIN, SERPINA11b, GCET1
14	SERPINA9	ENSG00000170054	ENST00000424550	protein_coding	KNOWN	None	15995	861	286	94929054	94942580	-1	None	CENTERIN, SERPINA11b, GCET1
14	SERPINA9	ENSG00000170054	ENST00000337425	protein_coding	KNOWN	CCDS41982	15995	1308	435	94929058	94942584	-1	None	CENTERIN, SERPINA11b, GCET1
14	SERPINA9	ENSG00000170054	ENST00000380365	protein_coding	KNOWN	None	15995	1254	417	94929430	94942322	-1	None	CENTERIN, SERPINA11b, GCET1
14	SERPINA9	ENSG00000170054	ENST00000538527	nonsense_mediated_decay	KNOWN	None	15995	606	201	94930963	94942670	-1	None	CENTERIN, SERPINA11b, GCET1
14	SERPINA9	ENSG00000170054	ENST00000546329	protein_coding	KNOWN	None	15995	1005	334	94930963	94942670	-1	None	CENTERIN, SERPINA11b, GCET1
14	SERPINA9	ENSG00000170054	ENST00000539349	processed_transcript	PUTATIVE	None	15995	None	None	94936090	94946026	-1	None	CENTERIN, SERPINA11b, GCET1
19	ZNF579	ENSG00000218891	ENST00000325421	protein_coding	KNOWN	CCDS12927	26646	1689	562	56088899	56092187	-1	None	FLJ35453
19	ZNF579	ENSG00000218891	ENST00000592239	protein_coding	KNOWN	None	26646	46	14	56090960	56092211	-1	None	FLJ35453
20	FERMT1	ENSG00000101311	ENST00000478194	processed_transcript	KNOWN	None	15889	None	None	6055492	6074819	-1	C20orf42	FLJ20116, URP1, KIND1, UNC112A
20	FERMT1	ENSG00000101311	ENST00000217289	protein_coding	KNOWN	CCDS13098	15889	2034	677	6055492	6104191	-1	C20orf42	FLJ20116, URP1, KIND1, UNC112A
20	FERMT1	ENSG00000101311	ENST00000378844	protein_coding	KNOWN	None	15889	440	145	6093216	6101139	-1	C20orf42	FLJ20116, URP1, KIND1, UNC112A
20	FERMT1	ENSG00000101311	ENST00000536936	protein_coding	KNOWN	None	15889	1263	420	6056669	6103677	-1	C20orf42	FLJ20116, URP1, KIND1, UNC112A
19	BTBD2	ENSG00000133243	ENST00000592895	retained_intron	KNOWN	None	15504	None	None	1985447	1988568	-1	None	None
19	BTBD2	ENSG00000133243	ENST00000589685	retained_intron	KNOWN	None	15504	None	None	1985447	1991298	-1	None	None
19	BTBD2	ENSG00000133243	ENST00000255608	protein_coding	KNOWN	CCDS12078	15504	1578	525	1985447	2015719	-1	None	None
19	BTBD2	ENSG00000133243	ENST00000587825	protein_coding	NOVEL	None	15504	961	319	1987207	1997423	-1	None	None
19	BTBD2	ENSG00000133243	ENST00000592082	processed_transcript	KNOWN	None	15504	None	None	1987499	1990145	-1	None	None
19	BTBD2	ENSG00000133243	ENST00000587225	retained_intron	KNOWN	None	15504	None	None	1989689	1991273	-1	None	None
19	BTBD2	ENSG00000133243	ENST00000589200	nonsense_mediated_decay	KNOWN	None	15504	294	97	1989947	2015543	-1	None	None
19	BTBD2	ENSG00000133243	ENST00000590646	processed_transcript	KNOWN	None	15504	None	None	1993100	2034880	-1	None	None
19	BTBD2	ENSG00000133243	ENST00000587742	processed_transcript	KNOWN	None	15504	None	None	1997327	2034871	-1	None	None
19	BTBD2	ENSG00000133243	ENST00000588395	processed_transcript	KNOWN	None	15504	None	None	1997351	2034871	-1	None	None
8	SLC25A32	ENSG00000164933	ENST00000297578	protein_coding	KNOWN	CCDS6300	29683	948	315	104410863	104427332	-1	None	MFTC
8	SLC25A32	ENSG00000164933	ENST00000523256	nonsense_mediated_decay	KNOWN	None	29683	372	123	104410863	104427399	-1	None	MFTC
8	SLC25A32	ENSG00000164933	ENST00000521645	nonsense_mediated_decay	KNOWN	None	29683	450	149	104410863	104427417	-1	None	MFTC
8	SLC25A32	ENSG00000164933	ENST00000523866	nonsense_mediated_decay	KNOWN	None	29683	372	123	104412286	104427297	-1	None	MFTC
8	SLC25A32	ENSG00000164933	ENST00000523701	processed_transcript	PUTATIVE	None	29683	None	None	104413715	104414931	-1	None	MFTC
8	SLC25A32	ENSG00000164933	ENST00000543107	protein_coding	KNOWN	None	29683	552	183	104412286	104427297	-1	None	MFTC
11	MIR4686	ENSG00000265258	ENST00000584128	miRNA	KNOWN	None	41601	None	None	2194293	2194368	1	None	hsa-mir-4686
11	RNU6-878P	ENSG00000207308	ENST00000384578	snRNA	KNOWN	None	47841	None	None	2342948	2343057	1	None	None
2	None	ENSG00000222005	ENST00000479311	processed_transcript	KNOWN	None	None	None	None	47043807	47046597	1	None	None
2	None	ENSG00000222005	ENST00000409912	protein_coding	PUTATIVE	None	None	384	127	47043822	47049794	1	None	None
2	None	ENSG00000222005	ENST00000409518	protein_coding	PUTATIVE	None	None	198	65	47043827	47049796	1	None	None
6	None	ENSG00000228972	ENST00000434560	sense_intronic	KNOWN	None	None	None	None	128752086	128753913	-1	None	None
6	RNU6-153P	ENSG00000201292	ENST00000364422	snRNA	KNOWN	None	47116	None	None	166622891	166622994	1	None	None
6	None	ENSG00000182404	ENST00000450483	sense_intronic	KNOWN	None	None	None	None	128768543	128770446	-1	None	None
11	None	ENSG00000238184	ENST00000427151	processed_transcript	KNOWN	None	None	None	None	2349979	2399219	-1	None	None
11	None	ENSG00000238184	ENST00000413483	antisense	KNOWN	None	None	None	None	2349979	2399222	-1	None	None
6	None	ENSG00000233365	ENST00000444219	lincRNA	KNOWN	None	None	None	None	166650457	166657197	1	None	None
6	None	ENSG00000224733	ENST00000458367	antisense	KNOWN	None	None	None	None	128821672	128822321	1	None	None
6	GNG5P1	ENSG00000213536	ENST00000255500	processed_pseudogene	KNOWN	None	4409	None	None	166653778	166653981	-1	GNG5P	None
6	None	ENSG00000227112	ENST00000411489	antisense	KNOWN	None	None	None	None	128826270	128827421	1	None	None
7	None	ENSG00000270516	ENST00000605356	processed_pseudogene	KNOWN	None	None	None	None	118818231	118819203	-1	None	None
7	None	ENSG00000263692	ENST00000585282	miRNA	NOVEL	None	None	None	None	119124379	119124463	-1	None	None
7	None	ENSG00000256882	ENST00000539831	pseudogene	NOVEL	None	None	None	None	119209294	119209370	1	None	None
HSCHR6_MHC_DBB	DHX16	ENSG00000233418	ENST00000451748	protein_coding	KNOWN	None	2739	1683	560	30611130	30620025	-1	DDX16	DBP2, Prp2, PRPF2
HSCHR6_MHC_DBB	DHX16	ENSG00000233418	ENST00000424672	protein_coding	KNOWN	None	2739	3126	1041	30611130	30631079	-1	DDX16	DBP2, Prp2, PRPF2
HSCHR6_MHC_DBB	DHX16	ENSG00000233418	ENST00000480637	processed_transcript	KNOWN	None	2739	None	None	30617515	30618619	-1	DDX16	DBP2, Prp2, PRPF2
HSCHR6_MHC_DBB	DHX16	ENSG00000233418	ENST00000446074	protein_coding	KNOWN	None	2739	886	294	30623172	30631030	-1	DDX16	DBP2, Prp2, PRPF2
1	MTOR	ENSG00000198793	ENST00000376838	protein_coding	KNOWN	None	3942	2265	754	11166592	11191615	-1	FRAP, FRAP2, FRAP1	RAFT1, RAPT1, FLJ44809
1	MTOR	ENSG00000198793	ENST00000361445	protein_coding	KNOWN	CCDS127	3942	7650	2549	11166592	11322564	-1	FRAP, FRAP2, FRAP1	RAFT1, RAPT1, FLJ44809
1	MTOR	ENSG00000198793	ENST00000473471	processed_transcript	KNOWN	None	3942	None	None	11167342	11174686	-1	FRAP, FRAP2, FRAP1	RAFT1, RAPT1, FLJ44809
1	MTOR	ENSG00000198793	ENST00000490931	processed_transcript	KNOWN	None	3942	None	None	11167364	11175584	-1	FRAP, FRAP2, FRAP1	RAFT1, RAPT1, FLJ44809
1	MTOR	ENSG00000198793	ENST00000455339	protein_coding	KNOWN	None	3942	483	160	11169360	11175720	-1	FRAP, FRAP2, FRAP1	RAFT1, RAPT1, FLJ44809
1	MTOR	ENSG00000198793	ENST00000495435	processed_transcript	KNOWN	None	3942	None	None	11191651	11205082	-1	FRAP, FRAP2, FRAP1	RAFT1, RAPT1, FLJ44809
1	MTOR	ENSG00000198793	ENST00000476768	processed_transcript	KNOWN	None	3942	None	None	11199011	11199717	-1	FRAP, FRAP2, FRAP1	RAFT1, RAPT1, FLJ44809
9	CDKN2A	ENSG00000147889	ENST00000304494	protein_coding	KNOWN	CCDS6510	1787	471	156	21967752	21975097	-1	CDKN2, MLM	CDK4I, p16, INK4a, MTS1, CMM2, ARF, p19, p14, INK4, p16INK4a, p19Arf
9	CDKN2A	ENSG00000147889	ENST00000579755	protein_coding	KNOWN	CCDS6511	1787	399	132	21967752	21994623	-1	CDKN2, MLM	CDK4I, p16, INK4a, MTS1, CMM2, ARF, p19, p14, INK4, p16INK4a, p19Arf
9	CDKN2A	ENSG00000147889	ENST00000579122	protein_coding	PUTATIVE	None	1787	417	138	21967990	21974857	-1	CDKN2, MLM	CDK4I, p16, INK4a, MTS1, CMM2, ARF, p19, p14, INK4, p16INK4a, p19Arf
9	CDKN2A	ENSG00000147889	ENST00000578845	protein_coding	KNOWN	None	1787	318	105	21967995	21971331	-1	CDKN2, MLM	CDK4I, p16, INK4a, MTS1, CMM2, ARF, p19, p14, INK4, p16INK4a, p19Arf
9	CDKN2A	ENSG00000147889	ENST00000530628	protein_coding	KNOWN	CCDS6511	1787	399	132	21968000	21994410	-1	CDKN2, MLM	CDK4I, p16, INK4a, MTS1, CMM2, ARF, p19, p14, INK4, p16INK4a, p19Arf
9	CDKN2A	ENSG00000147889	ENST00000498124	protein_coding	KNOWN	CCDS56565	1787	504	167	21968055	21974865	-1	CDKN2, MLM	CDK4I, p16, INK4a, MTS1, CMM2, ARF, p19, p14, INK4, p16INK4a, p19Arf
9	CDKN2A	ENSG00000147889	ENST00000498628	protein_coding	KNOWN	None	1787	318	105	21968104	21995300	-1	CDKN2, MLM	CDK4I, p16, INK4a, MTS1, CMM2, ARF, p19, p14, INK4, p16INK4a, p19Arf
9	CDKN2A	ENSG00000147889	ENST00000380151	nonsense_mediated_decay	KNOWN	None	1787	351	116	21968179	21974826	-1	CDKN2, MLM	CDK4I, p16, INK4a, MTS1, CMM2, ARF, p19, p14, INK4, p16INK4a, p19Arf
9	CDKN2A	ENSG00000147889	ENST00000494262	protein_coding	KNOWN	None	1787	318	105	21968181	21995268	-1	CDKN2, MLM	CDK4I, p16, INK4a, MTS1, CMM2, ARF, p19, p14, INK4, p16INK4a, p19Arf
9	CDKN2A	ENSG00000147889	ENST00000479692	protein_coding	PUTATIVE	None	1787	366	121	21969568	21971345	-1	CDKN2, MLM	CDK4I, p16, INK4a, MTS1, CMM2, ARF, p19, p14, INK4, p16INK4a, p19Arf
9	CDKN2A	ENSG00000147889	ENST00000577854	processed_transcript	PUTATIVE	None	1787	None	None	21969582	21970466	-1	CDKN2, MLM	CDK4I, p16, INK4a, MTS1, CMM2, ARF, p19, p14, INK4, p16INK4a, p19Arf
9	CDKN2A	ENSG00000147889	ENST00000380150	processed_transcript	KNOWN	None	1787	None	None	21970441	21971331	-1	CDKN2, MLM	CDK4I, p16, INK4a, MTS1, CMM2, ARF, p19, p14, INK4, p16INK4a, p19Arf
9	CDKN2A	ENSG00000147889	ENST00000497750	protein_coding	PUTATIVE	None	1787	315	104	21970715	21971399	-1	CDKN2, MLM	CDK4I, p16, INK4a, MTS1, CMM2, ARF, p19, p14, INK4, p16INK4a, p19Arf
9	CDKN2A	ENSG00000147889	ENST00000470819	processed_transcript	KNOWN	None	1787	None	None	21989339	21994872	-1	CDKN2, MLM	CDK4I, p16, INK4a, MTS1, CMM2, ARF, p19, p14, INK4, p16INK4a, p19Arf
9	CDKN2A	ENSG00000147889	ENST00000582361	retained_intron	KNOWN	None	1787	None	None	21994027	21994319	-1	CDKN2, MLM	CDK4I, p16, INK4a, MTS1, CMM2, ARF, p19, p14, INK4, p16INK4a, p19Arf
9	CDKN2A	ENSG00000147889	ENST00000446177	protein_coding	KNOWN	CCDS56565	1787	504	167	21968724	21975038	-1	CDKN2, MLM	CDK4I, p16, INK4a, MTS1, CMM2, ARF, p19, p14, INK4, p16INK4a, p19Arf
9	CDKN2A	ENSG00000147889	ENST00000361570	protein_coding	KNOWN	None	1787	522	173	21967751	21994490	-1	CDKN2, MLM	CDK4I, p16, INK4a, MTS1, CMM2, ARF, p19, p14, INK4, p16INK4a, p19Arf
5	TCERG1	ENSG00000113649	ENST00000507175	retained_intron	KNOWN	None	15630	None	None	145826874	145859779	1	TAF2S	CA150, Urn1
5	TCERG1	ENSG00000113649	ENST00000296702	protein_coding	KNOWN	CCDS4282	15630	3297	1098	145826875	145891524	1	TAF2S	CA150, Urn1
5	TCERG1	ENSG00000113649	ENST00000394421	protein_coding	KNOWN	CCDS43379	15630	3234	1077	145826895	145890586	1	TAF2S	CA150, Urn1
5	TCERG1	ENSG00000113649	ENST00000549332	nonsense_mediated_decay	KNOWN	None	15630	3099	1032	145826909	145890328	1	TAF2S	CA150, Urn1
5	TCERG1	ENSG00000113649	ENST00000513298	retained_intron	KNOWN	None	15630	None	None	145838778	145849372	1	TAF2S	CA150, Urn1
5	TCERG1	ENSG00000113649	ENST00000510724	processed_transcript	KNOWN	None	15630	None	None	145841620	145850302	1	TAF2S	CA150, Urn1
5	TCERG1	ENSG00000113649	ENST00000509810	retained_intron	KNOWN	None	15630	None	None	145857981	145860081	1	TAF2S	CA150, Urn1
5	TCERG1	ENSG00000113649	ENST00000515203	processed_transcript	KNOWN	None	15630	None	None	145858088	145872528	1	TAF2S	CA150, Urn1
5	TCERG1	ENSG00000113649	ENST00000506524	retained_intron	KNOWN	None	15630	None	None	145860739	145891071	1	TAF2S	CA150, Urn1
5	TCERG1	ENSG00000113649	ENST00000505285	retained_intron	KNOWN	None	15630	None	None	145872432	145883102	1	TAF2S	CA150, Urn1
5	TCERG1	ENSG00000113649	ENST00000504116	processed_transcript	KNOWN	None	15630	None	None	145879136	145883102	1	TAF2S	CA150, Urn1
5	TCERG1	ENSG00000113649	ENST00000509787	processed_transcript	KNOWN	None	15630	None	None	145882595	145883765	1	TAF2S	CA150, Urn1
5	TCERG1	ENSG00000113649	ENST00000514567	processed_transcript	KNOWN	None	15630	None	None	145882982	145886740	1	TAF2S	CA150, Urn1
5	TCERG1	ENSG00000113649	ENST00000514719	retained_intron	KNOWN	None	15630	None	None	145883034	145886911	1	TAF2S	CA150, Urn1
5	TCERG1	ENSG00000113649	ENST00000503741	processed_transcript	KNOWN	None	15630	None	None	145883391	145888808	1	TAF2S	CA150, Urn1
5	TCERG1	ENSG00000113649	ENST00000511077	retained_intron	KNOWN	None	15630	None	None	145886934	145891068	1	TAF2S	CA150, Urn1
11	RPL26P30	ENSG00000236264	ENST00000602923	processed_transcript	KNOWN	None	36733	None	None	2356362	2357006	-1	None	None
11	RPL26P30	ENSG00000236264	ENST00000453533	transcribed_processed_pseudogene	KNOWN	None	36733	None	None	2356545	2356979	-1	None	None
11	RPL26P30	ENSG00000236264	ENST00000419125	processed_pseudogene	KNOWN	None	36733	None	None	2356365	2357001	-1	None	None
19	FIZ1	ENSG00000179943	ENST00000221665	protein_coding	KNOWN	CCDS12928	25917	1491	496	56102746	56110893	-1	None	FLJ14768, ZNF798
19	FIZ1	ENSG00000179943	ENST00000590714	protein_coding	KNOWN	None	25917	581	192	56104726	56113336	-1	None	FLJ14768, ZNF798
19	FIZ1	ENSG00000179943	ENST00000592585	protein_coding	PUTATIVE	None	25917	207	68	56104776	56110996	-1	None	FLJ14768, ZNF798
19	FIZ1	ENSG00000179943	ENST00000587678	protein_coding	PUTATIVE	None	25917	403	133	56104799	56109208	-1	None	FLJ14768, ZNF798
19	FIZ1	ENSG00000179943	ENST00000587414	protein_coding	KNOWN	None	25917	132	43	56109100	56110154	-1	None	FLJ14768, ZNF798
2	None	ENSG00000239332	ENST00000422294	protein_coding	PUTATIVE	None	None	281	92	47043836	47085349	1	None	None
2	None	ENSG00000239332	ENST00000490950	processed_transcript	KNOWN	None	None	None	None	47055003	47086146	1	None	None
2	None	ENSG00000239332	ENST00000468141	processed_transcript	KNOWN	None	None	None	None	47073015	47086145	1	None	None
2	None	ENSG00000239332	ENST00000495449	processed_transcript	KNOWN	None	None	None	None	47082827	47085718	1	None	None
19	ZNF121	ENSG00000197961	ENST00000590933	processed_transcript	KNOWN	None	12904	None	None	9671029	9673435	-1	D19S204	ZHC32, ZNF20
19	ZNF121	ENSG00000197961	ENST00000586602	protein_coding	KNOWN	None	12904	1173	390	9676404	9695173	-1	D19S204	ZHC32, ZNF20
19	ZNF121	ENSG00000197961	ENST00000320451	protein_coding	PUTATIVE	CCDS32902	12904	1173	390	9676458	9695209	-1	D19S204	ZHC32, ZNF20
19	ZNF121	ENSG00000197961	ENST00000591447	protein_coding	KNOWN	None	12904	453	150	9677336	9678419	-1	D19S204	ZHC32, ZNF20
7	LRGUK	ENSG00000155530	ENST00000285928	protein_coding	KNOWN	CCDS5830	21964	2478	825	133812052	133949343	1	None	FLJ32786
7	LRGUK	ENSG00000155530	ENST00000473068	processed_transcript	KNOWN	None	21964	None	None	133812111	133826451	1	None	FLJ32786
7	SEMA3C	ENSG00000075223	ENST00000265361	protein_coding	KNOWN	CCDS5596	10725	2256	751	80371854	80548667	-1	SEMAE	SemE
7	SEMA3C	ENSG00000075223	ENST00000419255	protein_coding	KNOWN	CCDS5596	10725	2256	751	80374184	80551675	-1	SEMAE	SemE
7	SEMA3C	ENSG00000075223	ENST00000458729	nonsense_mediated_decay	KNOWN	None	10725	123	40	80422673	80548499	-1	SEMAE	SemE
7	SEMA3C	ENSG00000075223	ENST00000475955	processed_transcript	PUTATIVE	None	10725	None	None	80425705	80427554	-1	SEMAE	SemE
7	SEMA3C	ENSG00000075223	ENST00000459652	processed_transcript	PUTATIVE	None	10725	None	None	80445265	80447725	-1	SEMAE	SemE
7	SEMA3C	ENSG00000075223	ENST00000411788	nonsense_mediated_decay	KNOWN	None	10725	192	63	80456746	80547745	-1	SEMAE	SemE
7	SEMA3C	ENSG00000075223	ENST00000427167	nonsense_mediated_decay	KNOWN	None	10725	192	63	80456765	80548499	-1	SEMAE	SemE
7	SEMA3C	ENSG00000075223	ENST00000487621	processed_transcript	KNOWN	None	10725	None	None	80476576	80548498	-1	SEMAE	SemE
7	SEMA3C	ENSG00000075223	ENST00000470581	processed_transcript	PUTATIVE	None	10725	None	None	80545005	80548499	-1	SEMAE	SemE
7	SEMA3C	ENSG00000075223	ENST00000544525	protein_coding	KNOWN	None	10725	2310	769	80374184	80551675	-1	SEMAE	SemE
7	SEMA3C	ENSG00000075223	ENST00000536800	protein_coding	KNOWN	None	10725	702	233	80422673	80548499	-1	SEMAE	SemE
7	None	ENSG00000225546	ENST00000431071	lincRNA	KNOWN	None	None	None	None	119344610	119547429	-1	None	None
7	None	ENSG00000225546	ENST00000426413	lincRNA	KNOWN	None	None	None	None	119390869	119547429	-1	None	None
6	ULBP2	ENSG00000131015	ENST00000367351	protein_coding	KNOWN	CCDS5222	14894	741	246	150263136	150270371	1	None	RAET1H
6	C6orf136	ENSG00000204564	ENST00000484551	nonsense_mediated_decay	KNOWN	None	21301	273	90	30614816	30619092	1	None	Em:AB023049.8
6	C6orf136	ENSG00000204564	ENST00000488383	nonsense_mediated_decay	KNOWN	None	21301	567	188	30614832	30620886	1	None	Em:AB023049.8
6	C6orf136	ENSG00000204564	ENST00000376473	protein_coding	KNOWN	CCDS43443	21301	948	315	30614850	30620987	1	None	Em:AB023049.8
6	C6orf136	ENSG00000204564	ENST00000463794	nonsense_mediated_decay	KNOWN	None	21301	177	58	30614903	30620490	1	None	Em:AB023049.8
6	C6orf136	ENSG00000204564	ENST00000376471	protein_coding	KNOWN	CCDS4684	21301	546	181	30614941	30620692	1	None	Em:AB023049.8
6	C6orf136	ENSG00000204564	ENST00000493705	processed_transcript	KNOWN	None	21301	None	None	30614963	30617690	1	None	Em:AB023049.8
6	C6orf136	ENSG00000204564	ENST00000446773	protein_coding	NOVEL	None	21301	1302	433	30615198	30620886	1	None	Em:AB023049.8
6	C6orf136	ENSG00000204564	ENST00000487873	nonsense_mediated_decay	KNOWN	None	21301	147	48	30617683	30620526	1	None	Em:AB023049.8
6	C6orf136	ENSG00000204564	ENST00000465699	protein_coding	PUTATIVE	None	21301	315	104	30618831	30620886	1	None	Em:AB023049.8
6	C6orf136	ENSG00000204564	ENST00000467801	protein_coding	PUTATIVE	None	21301	288	95	30618858	30620879	1	None	Em:AB023049.8
6	C6orf136	ENSG00000204564	ENST00000468785	protein_coding	PUTATIVE	None	21301	87	28	30619161	30620987	1	None	Em:AB023049.8
6	C6orf136	ENSG00000204564	ENST00000460172	retained_intron	KNOWN	None	21301	None	None	30620388	30620724	1	None	Em:AB023049.8
6	C6orf136	ENSG00000204564	ENST00000293604	protein_coding	KNOWN	CCDS54979	21301	1491	496	30614816	30620986	1	None	Em:AB023049.8
6	C6orf136	ENSG00000204564	ENST00000528347	protein_coding	KNOWN	None	21301	519	172	30617692	30620986	1	None	Em:AB023049.8
21	LSS	ENSG00000160285	ENST00000356396	protein_coding	KNOWN	CCDS13733	6708	2199	732	47608055	47648736	-1	None	OSC
21	LSS	ENSG00000160285	ENST00000491729	retained_intron	KNOWN	None	6708	None	None	47608360	47613401	-1	None	OSC
21	LSS	ENSG00000160285	ENST00000397728	protein_coding	KNOWN	CCDS13733	6708	2199	732	47608360	47648738	-1	None	OSC
21	LSS	ENSG00000160285	ENST00000419093	protein_coding	PUTATIVE	None	6708	409	135	47608388	47614494	-1	None	OSC
21	LSS	ENSG00000160285	ENST00000474319	retained_intron	KNOWN	None	6708	None	None	47609039	47613284	-1	None	OSC
21	LSS	ENSG00000160285	ENST00000522411	protein_coding	KNOWN	CCDS46654	6708	2166	721	47610697	47648695	-1	None	OSC
21	LSS	ENSG00000160285	ENST00000484808	processed_transcript	KNOWN	None	6708	None	None	47615590	47616285	-1	None	OSC
21	LSS	ENSG00000160285	ENST00000464357	processed_transcript	KNOWN	None	6708	None	None	47635599	47648676	-1	None	OSC
21	LSS	ENSG00000160285	ENST00000450351	protein_coding	PUTATIVE	None	6708	786	261	47636303	47648682	-1	None	OSC
21	LSS	ENSG00000160285	ENST00000472272	processed_transcript	KNOWN	None	6708	None	None	47647233	47648688	-1	None	OSC
21	LSS	ENSG00000160285	ENST00000457828	protein_coding	KNOWN	CCDS54489	6708	1959	652	47609038	47648738	-1	None	OSC
Y	RBMY1B	ENSG00000242875	ENST00000383020	protein_coding	KNOWN	CCDS35479	23914	1491	496	23673224	23687672	1	None	None
Y	RBMY1B	ENSG00000242875	ENST00000382639	nonsense_mediated_decay	KNOWN	None	23914	246	81	23673249	23687672	1	None	None
18	GAPDHP66	ENSG00000250933	ENST00000509132	processed_pseudogene	KNOWN	None	4144	None	None	3977649	3978615	-1	GAPDL11, GAPDHL11	None
7	None	ENSG00000271739	ENST00000606574	snRNA	NOVEL	None	None	None	None	119646030	119646155	-1	None	None
11	None	ENSG00000199550	ENST00000362680	misc_RNA	NOVEL	None	None	None	None	2393868	2393980	1	None	None
7	None	ENSG00000233417	ENST00000456062	lincRNA	KNOWN	None	None	None	None	119781070	119783050	-1	None	None
1	RTCA	ENSG00000137996	ENST00000370128	protein_coding	KNOWN	CCDS768	17981	1101	366	100731763	100758325	1	RTCD1	RPC, RTC1
1	RTCA	ENSG00000137996	ENST00000498617	processed_transcript	KNOWN	None	17981	None	None	100731772	100740399	1	RTCD1	RPC, RTC1
1	RTCA	ENSG00000137996	ENST00000483474	processed_transcript	KNOWN	None	17981	None	None	100731802	100739008	1	RTCD1	RPC, RTC1
1	RTCA	ENSG00000137996	ENST00000260563	protein_coding	KNOWN	CCDS44178	17981	1140	379	100731805	100757327	1	RTCD1	RPC, RTC1
1	RTCA	ENSG00000137996	ENST00000370126	protein_coding	KNOWN	None	17981	150	49	100731845	100732485	1	RTCD1	RPC, RTC1
X	XAGE1D	ENSG00000204376	ENST00000478767	retained_intron	KNOWN	None	21508	None	None	52528159	52531107	-1	None	CT12.1d
X	XAGE1D	ENSG00000204376	ENST00000375572	processed_transcript	KNOWN	None	21508	None	None	52528159	52533094	-1	None	CT12.1d
X	XAGE1D	ENSG00000204376	ENST00000375578	protein_coding	KNOWN	CCDS43956	21508	246	81	52528159	52533295	-1	None	CT12.1d
X	XAGE1D	ENSG00000204376	ENST00000374959	protein_coding	PUTATIVE	CCDS48125	21508	210	69	52528162	52533139	-1	None	CT12.1d
X	XAGE1D	ENSG00000204376	ENST00000396497	protein_coding	KNOWN	None	21508	441	146	52528159	52533303	-1	None	CT12.1d
X	XAGE1D	ENSG00000204376	ENST00000438079	protein_coding	KNOWN	CCDS48125	21508	210	69	52528159	52531609	-1	None	CT12.1d
11	None	ENSG00000230483	ENST00000433035	antisense	KNOWN	None	None	None	None	2425745	2429138	1	None	None
18	DLGAP1-AS5	ENSG00000261520	ENST00000565759	antisense	KNOWN	None	27586	None	None	4264602	4293365	1	None	None
18	DLGAP1-AS5	ENSG00000261520	ENST00000568986	antisense	KNOWN	None	27586	None	None	4264633	4280982	1	None	None
18	DLGAP1-AS5	ENSG00000261520	ENST00000565979	antisense	KNOWN	None	27586	None	None	4264633	4293469	1	None	None
18	DLGAP1-AS5	ENSG00000261520	ENST00000565811	antisense	KNOWN	None	27586	None	None	4264633	4295405	1	None	None
7	None	ENSG00000233969	ENST00000421825	lincRNA	KNOWN	None	None	None	None	119808399	119826118	1	None	None
19	None	ENSG00000269388	ENST00000598755	processed_transcript	KNOWN	None	None	None	None	52097814	52105041	1	None	None
19	None	ENSG00000269388	ENST00000596210	transcribed_processed_pseudogene	KNOWN	None	None	None	None	52101799	52104960	1	None	None
19	None	ENSG00000269388	ENST00000597710	processed_transcript	KNOWN	None	None	None	None	52104965	52109403	1	None	None
11	KCNQ1OT1	ENSG00000269821	ENST00000597346	antisense	KNOWN	None	6295	None	None	2629558	2721224	-1	None	KvDMR1, KCNQ1-AS2, KvLQT1-AS, LIT1, NCRNA00012
6	EEF1DP5	ENSG00000213130	ENST00000431410	processed_pseudogene	KNOWN	None	33524	None	None	128901258	128902029	-1	None	None
11	None	ENSG00000236041	ENST00000448769	processed_pseudogene	KNOWN	None	None	None	None	2792586	2792807	1	None	None
18	None	ENSG00000264246	ENST00000582863	processed_pseudogene	KNOWN	None	None	None	None	4430945	4431152	1	None	None
4	None	ENSG00000233799	ENST00000454037	antisense	KNOWN	None	None	None	None	758275	758862	-1	None	None
18	None	ENSG00000265545	ENST00000579720	processed_pseudogene	KNOWN	None	None	None	None	4459230	4459458	1	None	None
7	RNU6-581P	ENSG00000252023	ENST00000516214	snRNA	KNOWN	None	47544	None	None	120312925	120313029	1	None	None
7	None	ENSG00000231295	ENST00000450480	antisense	KNOWN	None	None	None	None	120386792	120392568	-1	None	None
18	None	ENSG00000266268	ENST00000585028	lincRNA	KNOWN	None	None	None	None	4775053	5004523	-1	None	None
18	None	ENSG00000266268	ENST00000584204	lincRNA	KNOWN	None	None	None	None	4807934	5004536	-1	None	None
X	BMX	ENSG00000102010	ENST00000357607	protein_coding	KNOWN	CCDS14168	1079	2028	675	15482369	15574652	1	None	ETK, PSCTK3
X	BMX	ENSG00000102010	ENST00000348343	protein_coding	KNOWN	CCDS14168	1079	2028	675	15518952	15574652	1	None	ETK, PSCTK3
X	BMX	ENSG00000102010	ENST00000463891	processed_transcript	KNOWN	None	1079	None	None	15525437	15536086	1	None	ETK, PSCTK3
X	BMX	ENSG00000102010	ENST00000342014	protein_coding	KNOWN	CCDS14168	1079	2028	675	15525441	15574640	1	None	ETK, PSCTK3
X	BMX	ENSG00000102010	ENST00000489983	processed_transcript	KNOWN	None	1079	None	None	15543411	15555428	1	None	ETK, PSCTK3
6	None	ENSG00000206982	ENST00000384255	misc_RNA	NOVEL	None	None	None	None	128905535	128905636	1	None	None
10	None	ENSG00000270670	ENST00000605714	processed_pseudogene	KNOWN	None	None	None	None	91597369	91599091	-1	None	None
6	None	ENSG00000238938	ENST00000459375	snoRNA	NOVEL	None	None	None	None	128934346	128934452	1	None	None
11	KCNQ1-AS1	ENSG00000229414	ENST00000440887	antisense	KNOWN	None	42790	None	None	2861365	2882798	-1	None	None
10	None	ENSG00000226159	ENST00000428485	lincRNA	KNOWN	None	None	None	None	91675246	91717130	-1	None	None
15	None	ENSG00000203392	ENST00000435356	protein_coding	KNOWN	None	None	378	125	75970672	75973093	1	None	None
6	None	ENSG00000220110	ENST00000406055	processed_pseudogene	KNOWN	None	None	None	None	128960333	128960798	-1	None	None
18	None	ENSG00000222463	ENST00000410531	miRNA	NOVEL	None	None	None	None	4988091	4988168	-1	None	None
7	RNA5SP240	ENSG00000202225	ENST00000365355	rRNA	KNOWN	None	43140	None	None	120621480	120621607	-1	RN5S240	None
3	GADL1	ENSG00000144644	ENST00000282538	protein_coding	KNOWN	CCDS2649	27949	1566	521	30767692	30936257	-1	None	None
3	GADL1	ENSG00000144644	ENST00000498387	processed_transcript	KNOWN	None	27949	None	None	30769600	30820565	-1	None	None
3	GADL1	ENSG00000144644	ENST00000454381	protein_coding	PUTATIVE	None	27949	1257	418	30839169	30936153	-1	None	None
2	STK25	ENSG00000115694	ENST00000316586	protein_coding	KNOWN	CCDS2549	11404	1281	426	242432089	242448107	-1	None	SOK1, YSK1
2	STK25	ENSG00000115694	ENST00000472181	processed_transcript	PUTATIVE	None	11404	None	None	242432803	242434568	-1	None	SOK1, YSK1
2	STK25	ENSG00000115694	ENST00000403346	protein_coding	KNOWN	CCDS2549	11404	1281	426	242434432	242448103	-1	None	SOK1, YSK1
2	STK25	ENSG00000115694	ENST00000401869	protein_coding	KNOWN	CCDS2549	11404	1281	426	242434434	242447777	-1	None	SOK1, YSK1
2	STK25	ENSG00000115694	ENST00000405883	protein_coding	NOVEL	None	11404	1050	349	242434437	242447971	-1	None	SOK1, YSK1
2	STK25	ENSG00000115694	ENST00000494699	retained_intron	KNOWN	None	11404	None	None	242434461	242435953	-1	None	SOK1, YSK1
2	STK25	ENSG00000115694	ENST00000487962	retained_intron	KNOWN	None	11404	None	None	242434465	242439387	-1	None	SOK1, YSK1
2	STK25	ENSG00000115694	ENST00000405585	protein_coding	NOVEL	None	11404	1050	349	242434664	242447999	-1	None	SOK1, YSK1
2	STK25	ENSG00000115694	ENST00000478403	processed_transcript	KNOWN	None	11404	None	None	242434863	242438605	-1	None	SOK1, YSK1
2	STK25	ENSG00000115694	ENST00000470438	processed_transcript	KNOWN	None	11404	None	None	242434905	242437664	-1	None	SOK1, YSK1
2	STK25	ENSG00000115694	ENST00000465009	retained_intron	KNOWN	None	11404	None	None	242434953	242438147	-1	None	SOK1, YSK1
2	STK25	ENSG00000115694	ENST00000423004	protein_coding	PUTATIVE	None	11404	743	246	242435811	242439659	-1	None	SOK1, YSK1
2	STK25	ENSG00000115694	ENST00000462953	retained_intron	KNOWN	None	11404	None	None	242436748	242437747	-1	None	SOK1, YSK1
2	STK25	ENSG00000115694	ENST00000495143	retained_intron	KNOWN	None	11404	None	None	242437925	242438735	-1	None	SOK1, YSK1
2	STK25	ENSG00000115694	ENST00000461760	processed_transcript	KNOWN	None	11404	None	None	242438085	242448713	-1	None	SOK1, YSK1
2	STK25	ENSG00000115694	ENST00000450497	protein_coding	PUTATIVE	None	11404	531	176	242438158	242440941	-1	None	SOK1, YSK1
2	STK25	ENSG00000115694	ENST00000424537	protein_coding	NOVEL	None	11404	483	160	242438404	242447748	-1	None	SOK1, YSK1
2	STK25	ENSG00000115694	ENST00000442307	protein_coding	PUTATIVE	None	11404	489	162	242438404	242448039	-1	None	SOK1, YSK1
2	STK25	ENSG00000115694	ENST00000413760	protein_coding	PUTATIVE	None	11404	445	147	242438448	242448741	-1	None	SOK1, YSK1
2	STK25	ENSG00000115694	ENST00000429279	protein_coding	PUTATIVE	None	11404	237	78	242438738	242448010	-1	None	SOK1, YSK1
2	STK25	ENSG00000115694	ENST00000436402	protein_coding	KNOWN	None	11404	455	150	242438802	242447777	-1	None	SOK1, YSK1
2	STK25	ENSG00000115694	ENST00000492127	retained_intron	KNOWN	None	11404	None	None	242438822	242441113	-1	None	SOK1, YSK1
2	STK25	ENSG00000115694	ENST00000479442	retained_intron	KNOWN	None	11404	None	None	242439318	242440286	-1	None	SOK1, YSK1
2	STK25	ENSG00000115694	ENST00000496159	retained_intron	KNOWN	None	11404	None	None	242439462	242441113	-1	None	SOK1, YSK1
2	STK25	ENSG00000115694	ENST00000440109	protein_coding	PUTATIVE	None	11404	175	57	242439558	242449145	-1	None	SOK1, YSK1
2	STK25	ENSG00000115694	ENST00000435225	protein_coding	PUTATIVE	None	11404	146	47	242439587	242441418	-1	None	SOK1, YSK1
2	STK25	ENSG00000115694	ENST00000439101	protein_coding	PUTATIVE	None	11404	58	18	242439675	242447747	-1	None	SOK1, YSK1
2	STK25	ENSG00000115694	ENST00000452891	processed_transcript	KNOWN	None	11404	None	None	242440178	242447986	-1	None	SOK1, YSK1
2	STK25	ENSG00000115694	ENST00000483603	processed_transcript	KNOWN	None	11404	None	None	242440195	242448022	-1	None	SOK1, YSK1
2	STK25	ENSG00000115694	ENST00000436917	processed_transcript	KNOWN	None	11404	None	None	242440275	242447997	-1	None	SOK1, YSK1
2	STK25	ENSG00000115694	ENST00000495372	retained_intron	KNOWN	None	11404	None	None	242440772	242447998	-1	None	SOK1, YSK1
2	STK25	ENSG00000115694	ENST00000426941	protein_coding	NOVEL	None	11404	346	114	242440808	242447986	-1	None	SOK1, YSK1
2	STK25	ENSG00000115694	ENST00000420551	protein_coding	PUTATIVE	None	11404	267	88	242440932	242448001	-1	None	SOK1, YSK1
2	STK25	ENSG00000115694	ENST00000543554	protein_coding	KNOWN	None	11404	999	332	242434675	242448960	-1	None	SOK1, YSK1
2	STK25	ENSG00000115694	ENST00000535007	protein_coding	KNOWN	None	11404	999	332	242434883	242448010	-1	None	SOK1, YSK1
18	PPIAP14	ENSG00000264775	ENST00000577627	processed_pseudogene	KNOWN	None	9267	None	None	5002758	5003253	-1	PPIP4	None
14	None	ENSG00000258804	ENST00000557527	protein_coding	PUTATIVE	None	None	297	98	87372122	87389099	1	None	None
11	KCNQ1DN	ENSG00000237941	ENST00000441418	antisense	KNOWN	None	13335	None	None	2891263	2893335	1	None	BWRT, HSA404617
18	None	ENSG00000265514	ENST00000583985	lincRNA	KNOWN	None	None	None	None	5081181	5085476	1	None	None
18	None	ENSG00000265514	ENST00000579141	lincRNA	KNOWN	None	None	None	None	5084991	5095814	1	None	None
HSCHR6_MHC_COX	TAP1	ENSG00000232367	ENST00000483345	retained_intron	KNOWN	None	43	None	None	32735310	32740243	-1	ABCB2	PSF1, RING4, D6S114E
HSCHR6_MHC_COX	TAP1	ENSG00000232367	ENST00000440894	protein_coding	KNOWN	None	43	2427	808	32735310	32744079	-1	ABCB2	PSF1, RING4, D6S114E
HSCHR6_MHC_COX	TAP1	ENSG00000232367	ENST00000468609	retained_intron	KNOWN	None	43	None	None	32735776	32738331	-1	ABCB2	PSF1, RING4, D6S114E
15	ODF3L1	ENSG00000182950	ENST00000332145	protein_coding	KNOWN	CCDS10285	28735	825	274	76016318	76020029	1	None	MGC48986
7	HMGN1P18	ENSG00000234927	ENST00000457642	processed_pseudogene	KNOWN	None	39362	None	None	120690981	120691257	1	None	None
19	None	ENSG00000267335	ENST00000591656	protein_coding	PUTATIVE	None	None	389	128	49526210	49540152	-1	None	None
19	None	ENSG00000267335	ENST00000604577	protein_coding	PUTATIVE	None	None	232	76	49526403	49540142	-1	None	None
18	None	ENSG00000215368	ENST00000578494	processed_pseudogene	KNOWN	None	None	None	None	5132748	5133228	-1	None	None
18	None	ENSG00000215368	ENST00000400144	processed_pseudogene	KNOWN	None	None	None	None	5132758	5133171	-1	None	None
6	None	ENSG00000265187	ENST00000582775	miRNA	NOVEL	None	None	None	None	66176897	66176982	-1	None	None
19	ZNF524	ENSG00000171443	ENST00000589521	protein_coding	KNOWN	None	28322	391	129	56111388	56113869	1	None	MGC23143
19	ZNF524	ENSG00000171443	ENST00000301073	protein_coding	KNOWN	CCDS12929	28322	795	264	56111735	56114502	1	None	MGC23143
19	ZNF524	ENSG00000171443	ENST00000591046	protein_coding	KNOWN	CCDS12929	28322	795	264	56113245	56114504	1	None	MGC23143
6	SLC25A51P1	ENSG00000220483	ENST00000468432	processed_pseudogene	KNOWN	None	23325	None	None	66498310	66499180	1	MCART3P	bA707M13.1
18	None	ENSG00000266153	ENST00000584896	lincRNA	KNOWN	None	None	None	None	5159331	5171025	1	None	None
10	CWF19L1	ENSG00000095485	ENST00000468709	processed_transcript	KNOWN	None	25613	None	None	101992055	102027437	-1	None	FLJ10998
10	CWF19L1	ENSG00000095485	ENST00000482452	processed_transcript	KNOWN	None	25613	None	None	101992056	102027355	-1	None	FLJ10998
10	CWF19L1	ENSG00000095485	ENST00000478047	processed_transcript	KNOWN	None	25613	None	None	101992062	102014376	-1	None	FLJ10998
10	CWF19L1	ENSG00000095485	ENST00000370379	protein_coding	KNOWN	None	25613	762	253	101992934	102006668	-1	None	FLJ10998
10	CWF19L1	ENSG00000095485	ENST00000466955	processed_transcript	KNOWN	None	25613	None	None	101997915	102027388	-1	None	FLJ10998
10	CWF19L1	ENSG00000095485	ENST00000466408	processed_transcript	KNOWN	None	25613	None	None	101997940	102005873	-1	None	FLJ10998
10	CWF19L1	ENSG00000095485	ENST00000496796	processed_transcript	KNOWN	None	25613	None	None	102005557	102027380	-1	None	FLJ10998
10	CWF19L1	ENSG00000095485	ENST00000473842	processed_transcript	KNOWN	None	25613	None	None	102010031	102027424	-1	None	FLJ10998
10	CWF19L1	ENSG00000095485	ENST00000354105	protein_coding	KNOWN	CCDS7489	25613	1617	538	101992055	102027437	-1	None	FLJ10998
10	None	ENSG00000235679	ENST00000440882	processed_pseudogene	KNOWN	None	None	None	None	30672329	30672551	1	None	None
6	ADH5P4	ENSG00000233859	ENST00000433151	processed_pseudogene	KNOWN	None	21377	None	None	66546823	66547932	-1	ADH5B	bA707M13.2
6	ADH5P4	ENSG00000233859	ENST00000444694	processed_pseudogene	KNOWN	None	21377	None	None	66546844	66547947	-1	ADH5B	bA707M13.2
11	SNORA54	ENSG00000207008	ENST00000384281	snoRNA	KNOWN	None	32647	None	None	2985001	2985123	-1	None	ACA54
5	PDE6A	ENSG00000132915	ENST00000255266	protein_coding	KNOWN	CCDS4299	8785	2583	860	149237519	149324356	-1	PDEA	RP43
5	PDE6A	ENSG00000132915	ENST00000508173	retained_intron	KNOWN	None	8785	None	None	149237519	149324356	-1	PDEA	RP43
5	PDE6A	ENSG00000132915	ENST00000512670	retained_intron	KNOWN	None	8785	None	None	149240217	149247455	-1	PDEA	RP43
16	None	ENSG00000260326	ENST00000562636	processed_pseudogene	KNOWN	None	None	None	None	52968725	52969547	1	None	None
19	CGB2	ENSG00000104818	ENST00000474913	protein_coding	PUTATIVE	None	16722	389	128	49535169	49536411	1	None	None
19	CGB2	ENSG00000104818	ENST00000359342	protein_coding	KNOWN	CCDS12750	16722	492	163	49535235	49536495	1	None	None
11	CARS-AS1	ENSG00000247473	ENST00000499962	antisense	KNOWN	None	40125	None	None	3050624	3062490	1	None	None
10	C10orf126	ENSG00000204365	ENST00000375520	protein_coding	KNOWN	None	28693	519	172	29135337	29170827	1	None	MGC45541, bA492M23.1
6	None	ENSG00000202200	ENST00000365330	misc_RNA	NOVEL	None	None	None	None	129082862	129082953	-1	None	None
HSCHR6_MHC_MCF	None	ENSG00000263625	ENST00000578360	snoRNA	KNOWN	None	None	None	None	31580504	31580579	-1	None	None
7	ETV1	ENSG00000006468	ENST00000430479	protein_coding	KNOWN	CCDS55088	3490	1434	477	13930853	14029571	-1	None	ER81
7	ETV1	ENSG00000006468	ENST00000405192	protein_coding	NOVEL	CCDS55087	3490	1365	454	13932655	14029301	-1	None	ER81
7	ETV1	ENSG00000006468	ENST00000405358	protein_coding	NOVEL	None	3490	1476	491	13932893	14028498	-1	None	ER81
7	ETV1	ENSG00000006468	ENST00000403527	protein_coding	NOVEL	CCDS55085	3490	1314	437	13933780	14026139	-1	None	ER81
7	ETV1	ENSG00000006468	ENST00000405218	protein_coding	KNOWN	CCDS55088	3490	1434	477	13934006	14029572	-1	None	ER81
7	ETV1	ENSG00000006468	ENST00000443137	nonsense_mediated_decay	KNOWN	None	3490	1104	367	13935361	14030315	-1	None	ER81
7	ETV1	ENSG00000006468	ENST00000403685	protein_coding	KNOWN	CCDS55086	3490	1380	459	13935483	14030874	-1	None	ER81
7	ETV1	ENSG00000006468	ENST00000493831	retained_intron	KNOWN	None	3490	None	None	13939998	13946123	-1	None	ER81
7	ETV1	ENSG00000006468	ENST00000472931	retained_intron	KNOWN	None	3490	None	None	13945823	14025114	-1	None	ER81
7	ETV1	ENSG00000006468	ENST00000438956	protein_coding	PUTATIVE	None	3490	865	287	13946126	14026077	-1	None	ER81
7	ETV1	ENSG00000006468	ENST00000476720	processed_transcript	KNOWN	None	3490	None	None	13950872	14025145	-1	None	ER81
7	ETV1	ENSG00000006468	ENST00000443608	protein_coding	PUTATIVE	None	3490	519	172	13950907	14026066	-1	None	ER81
7	ETV1	ENSG00000006468	ENST00000497115	processed_transcript	KNOWN	None	3490	None	None	13971267	14026650	-1	None	ER81
7	ETV1	ENSG00000006468	ENST00000476355	retained_intron	KNOWN	None	3490	None	None	13975336	14028138	-1	None	ER81
7	ETV1	ENSG00000006468	ENST00000421381	protein_coding	KNOWN	None	3490	369	122	13975518	14031050	-1	None	ER81
7	ETV1	ENSG00000006468	ENST00000431887	protein_coding	KNOWN	None	3490	286	94	13978821	14031009	-1	None	ER81
7	ETV1	ENSG00000006468	ENST00000460438	retained_intron	KNOWN	None	3490	None	None	13998382	14028728	-1	None	ER81
7	ETV1	ENSG00000006468	ENST00000483075	processed_transcript	KNOWN	None	3490	None	None	14014489	14029264	-1	None	ER81
7	ETV1	ENSG00000006468	ENST00000433547	protein_coding	KNOWN	None	3490	60	19	14027784	14029291	-1	None	ER81
7	ETV1	ENSG00000006468	ENST00000485475	processed_transcript	KNOWN	None	3490	None	None	14028933	14030114	-1	None	ER81
7	ETV1	ENSG00000006468	ENST00000242066	protein_coding	KNOWN	CCDS55086	3490	1380	459	13930858	14031050	-1	None	ER81
7	ETV1	ENSG00000006468	ENST00000343495	protein_coding	KNOWN	CCDS55086	3490	1380	459	13930858	14029642	-1	None	ER81
7	ETV1	ENSG00000006468	ENST00000420159	protein_coding	KNOWN	CCDS55083	3490	1260	419	13930858	14026139	-1	None	ER81
7	ETV1	ENSG00000006468	ENST00000399357	protein_coding	KNOWN	CCDS55084	3490	1125	374	13930858	14026139	-1	None	ER81
7	RNA5SP241	ENSG00000212628	ENST00000391326	rRNA	KNOWN	None	43141	None	None	120723754	120723867	-1	RN5S241	None
6	MESTP1	ENSG00000220884	ENST00000404287	processed_pseudogene	KNOWN	None	29660	None	None	129250140	129251133	-1	None	None
7	RNU6-517P	ENSG00000207090	ENST00000384362	snRNA	KNOWN	None	47480	None	None	120835002	120835111	-1	None	None
HSCHR6_MHC_MCF	None	ENSG00000266755	ENST00000582289	snoRNA	KNOWN	None	None	None	None	31585228	31585305	-1	None	None
2	MCFD2	ENSG00000180398	ENST00000409105	protein_coding	KNOWN	CCDS33192	18451	441	146	47129013	47142919	-1	None	F5F8D, LMAN1IP, SDNSF
2	MCFD2	ENSG00000180398	ENST00000409913	protein_coding	PUTATIVE	CCDS54354	18451	285	94	47129013	47142955	-1	None	F5F8D, LMAN1IP, SDNSF
2	MCFD2	ENSG00000180398	ENST00000319466	protein_coding	KNOWN	CCDS33192	18451	441	146	47129013	47143007	-1	None	F5F8D, LMAN1IP, SDNSF
2	MCFD2	ENSG00000180398	ENST00000409800	protein_coding	PUTATIVE	CCDS54354	18451	285	94	47129013	47143193	-1	None	F5F8D, LMAN1IP, SDNSF
2	MCFD2	ENSG00000180398	ENST00000493804	processed_transcript	PUTATIVE	None	18451	None	None	47131994	47142928	-1	None	F5F8D, LMAN1IP, SDNSF
2	MCFD2	ENSG00000180398	ENST00000409207	protein_coding	KNOWN	CCDS33192	18451	441	146	47132097	47168871	-1	None	F5F8D, LMAN1IP, SDNSF
2	MCFD2	ENSG00000180398	ENST00000470873	processed_transcript	PUTATIVE	None	18451	None	None	47132384	47168912	-1	None	F5F8D, LMAN1IP, SDNSF
2	MCFD2	ENSG00000180398	ENST00000409973	protein_coding	KNOWN	CCDS33192	18451	441	146	47132410	47142949	-1	None	F5F8D, LMAN1IP, SDNSF
2	MCFD2	ENSG00000180398	ENST00000409147	protein_coding	PUTATIVE	CCDS54354	18451	285	94	47132507	47168994	-1	None	F5F8D, LMAN1IP, SDNSF
2	MCFD2	ENSG00000180398	ENST00000409218	protein_coding	KNOWN	CCDS33192	18451	441	146	47132533	47143251	-1	None	F5F8D, LMAN1IP, SDNSF
2	MCFD2	ENSG00000180398	ENST00000412438	protein_coding	KNOWN	None	18451	438	145	47132605	47141257	-1	None	F5F8D, LMAN1IP, SDNSF
2	MCFD2	ENSG00000180398	ENST00000434262	protein_coding	PUTATIVE	None	18451	273	90	47132956	47136211	-1	None	F5F8D, LMAN1IP, SDNSF
2	MCFD2	ENSG00000180398	ENST00000477791	retained_intron	KNOWN	None	18451	None	None	47134668	47142930	-1	None	F5F8D, LMAN1IP, SDNSF
2	MCFD2	ENSG00000180398	ENST00000479225	retained_intron	KNOWN	None	18451	None	None	47134839	47168853	-1	None	F5F8D, LMAN1IP, SDNSF
2	MCFD2	ENSG00000180398	ENST00000417180	protein_coding	KNOWN	None	18451	184	60	47135074	47141213	-1	None	F5F8D, LMAN1IP, SDNSF
2	MCFD2	ENSG00000180398	ENST00000487121	retained_intron	KNOWN	None	18451	None	None	47135846	47168866	-1	None	F5F8D, LMAN1IP, SDNSF
2	MCFD2	ENSG00000180398	ENST00000444761	protein_coding	KNOWN	CCDS54355	18451	384	127	47129009	47168994	-1	None	F5F8D, LMAN1IP, SDNSF
11	B3GNT1	ENSG00000174684	ENST00000311181	protein_coding	KNOWN	CCDS8136	15685	1248	415	66112843	66115163	-1	B3GNT6	iGNT, iGAT, iGnT, BETA3GNTI, B3GN-T1
7	None	ENSG00000213310	ENST00000411715	processed_pseudogene	KNOWN	None	None	None	None	121038506	121038821	1	None	None
HSCHR6_MHC_MCF	DDX39B-AS1	ENSG00000234082	ENST00000445939	processed_transcript	PUTATIVE	None	39771	None	None	31586431	31587254	1	None	None
HSCHR6_MHC_MCF	DDX39B-AS1	ENSG00000234082	ENST00000449747	processed_transcript	PUTATIVE	None	39771	None	None	31586500	31587265	1	None	None
19	RAB4B	ENSG00000167578	ENST00000594800	protein_coding	KNOWN	CCDS33030	9782	642	213	41284121	41298477	1	None	FLJ78649, MGC52123
19	RAB4B	ENSG00000167578	ENST00000602069	processed_transcript	KNOWN	None	9782	None	None	41284155	41292665	1	None	FLJ78649, MGC52123
19	RAB4B	ENSG00000167578	ENST00000600078	retained_intron	KNOWN	None	9782	None	None	41284179	41289878	1	None	FLJ78649, MGC52123
19	RAB4B	ENSG00000167578	ENST00000378307	nonsense_mediated_decay	KNOWN	None	9782	366	121	41284214	41302795	1	None	FLJ78649, MGC52123
19	RAB4B	ENSG00000167578	ENST00000602173	protein_coding	NOVEL	None	9782	577	191	41284283	41292883	1	None	FLJ78649, MGC52123
19	RAB4B	ENSG00000167578	ENST00000597476	retained_intron	KNOWN	None	9782	None	None	41284952	41302843	1	None	FLJ78649, MGC52123
19	RAB4B	ENSG00000167578	ENST00000595728	protein_coding	KNOWN	None	9782	545	180	41286290	41302847	1	None	FLJ78649, MGC52123
19	RAB4B	ENSG00000167578	ENST00000598430	retained_intron	KNOWN	None	9782	None	None	41291438	41302843	1	None	FLJ78649, MGC52123
19	RAB4B	ENSG00000167578	ENST00000357052	protein_coding	KNOWN	CCDS33030	9782	642	213	41284171	41302847	1	None	FLJ78649, MGC52123
HSCHR6_MHC_COX	HCG24	ENSG00000237196	ENST00000426812	processed_transcript	PUTATIVE	None	23500	None	None	33034177	33037170	1	None	dJ1033B10.15
HSCHR6_MHC_MCF	None	ENSG00000265754	ENST00000578065	snoRNA	NOVEL	None	None	None	None	31667152	31667283	1	None	None
22	C1QTNF6	ENSG00000133466	ENST00000397110	protein_coding	KNOWN	CCDS13943	14343	837	278	37576207	37584326	-1	None	CTRP6, ZACRP6
22	C1QTNF6	ENSG00000133466	ENST00000337843	protein_coding	KNOWN	CCDS13943	14343	837	278	37576207	37584329	-1	None	CTRP6, ZACRP6
22	C1QTNF6	ENSG00000133466	ENST00000470655	processed_transcript	KNOWN	None	14343	None	None	37576207	37594341	-1	None	CTRP6, ZACRP6
22	C1QTNF6	ENSG00000133466	ENST00000493023	retained_intron	KNOWN	None	14343	None	None	37576211	37581988	-1	None	CTRP6, ZACRP6
22	C1QTNF6	ENSG00000133466	ENST00000434784	nonsense_mediated_decay	KNOWN	None	14343	351	116	37578214	37584276	-1	None	CTRP6, ZACRP6
22	C1QTNF6	ENSG00000133466	ENST00000467564	processed_transcript	KNOWN	None	14343	None	None	37586593	37593788	-1	None	CTRP6, ZACRP6
22	C1QTNF6	ENSG00000133466	ENST00000497071	processed_transcript	KNOWN	None	14343	None	None	37586593	37595425	-1	None	CTRP6, ZACRP6
22	C1QTNF6	ENSG00000133466	ENST00000255836	protein_coding	KNOWN	None	14343	465	154	37578130	37578845	-1	None	CTRP6, ZACRP6
HSCHR6_MHC_MCF	C6orf47-AS1	ENSG00000225390	ENST00000443371	processed_transcript	PUTATIVE	None	39767	None	None	31702389	31704781	1	None	None
17	PCGF2	ENSG00000056661	ENST00000580830	protein_coding	KNOWN	CCDS32638	12929	1035	344	36890151	36906070	-1	ZNF144, RNF110	MEL-18
17	PCGF2	ENSG00000056661	ENST00000578487	protein_coding	PUTATIVE	None	12929	200	65	36890153	36891849	-1	ZNF144, RNF110	MEL-18
17	PCGF2	ENSG00000056661	ENST00000581345	protein_coding	KNOWN	CCDS32638	12929	1035	344	36890533	36902881	-1	ZNF144, RNF110	MEL-18
17	PCGF2	ENSG00000056661	ENST00000579882	protein_coding	PUTATIVE	None	12929	774	257	36891297	36904631	-1	ZNF144, RNF110	MEL-18
17	PCGF2	ENSG00000056661	ENST00000585100	protein_coding	PUTATIVE	None	12929	774	257	36891362	36904437	-1	ZNF144, RNF110	MEL-18
17	PCGF2	ENSG00000056661	ENST00000578109	protein_coding	PUTATIVE	None	12929	612	203	36891365	36904606	-1	ZNF144, RNF110	MEL-18
17	PCGF2	ENSG00000056661	ENST00000360797	protein_coding	KNOWN	CCDS32638	12929	1035	344	36890150	36904558	-1	ZNF144, RNF110	MEL-18
16	ZNF689	ENSG00000156853	ENST00000287461	protein_coding	KNOWN	CCDS10686	25173	1503	500	30613879	30621700	-1	None	FLJ90415
16	ZNF689	ENSG00000156853	ENST00000563304	processed_transcript	KNOWN	None	25173	None	None	30615861	30621707	-1	None	FLJ90415
16	ZNF689	ENSG00000156853	ENST00000565440	processed_transcript	KNOWN	None	25173	None	None	30615939	30635269	-1	None	FLJ90415
16	ZNF689	ENSG00000156853	ENST00000566673	processed_transcript	KNOWN	None	25173	None	None	30615939	30635333	-1	None	FLJ90415
16	ZNF689	ENSG00000156853	ENST00000564262	processed_transcript	KNOWN	None	25173	None	None	30616104	30620806	-1	None	FLJ90415
16	ZNF689	ENSG00000156853	ENST00000565710	processed_transcript	KNOWN	None	25173	None	None	30616368	30621149	-1	None	FLJ90415
5	BRD8	ENSG00000112983	ENST00000254900	protein_coding	KNOWN	CCDS4198	19874	3708	1235	137475455	137514675	-1	None	SMAP, p120
5	BRD8	ENSG00000112983	ENST00000427976	protein_coding	PUTATIVE	None	19874	1011	336	137476316	137488344	-1	None	SMAP, p120
5	BRD8	ENSG00000112983	ENST00000472478	nonsense_mediated_decay	KNOWN	None	19874	109	35	137492571	137495818	-1	None	SMAP, p120
5	BRD8	ENSG00000112983	ENST00000441656	protein_coding	NOVEL	None	19874	2573	856	137492571	137513356	-1	None	SMAP, p120
5	BRD8	ENSG00000112983	ENST00000454473	protein_coding	KNOWN	None	19874	2679	892	137492571	137514288	-1	None	SMAP, p120
5	BRD8	ENSG00000112983	ENST00000418329	protein_coding	KNOWN	None	19874	2586	861	137492571	137514288	-1	None	SMAP, p120
5	BRD8	ENSG00000112983	ENST00000230901	protein_coding	KNOWN	CCDS34241	19874	2856	951	137492571	137514319	-1	None	SMAP, p120
5	BRD8	ENSG00000112983	ENST00000402931	protein_coding	NOVEL	None	19874	2637	878	137492571	137514322	-1	None	SMAP, p120
5	BRD8	ENSG00000112983	ENST00000512140	nonsense_mediated_decay	KNOWN	None	19874	147	48	137492604	137514319	-1	None	SMAP, p120
5	BRD8	ENSG00000112983	ENST00000460746	retained_intron	KNOWN	None	19874	None	None	137495264	137496924	-1	None	SMAP, p120
5	BRD8	ENSG00000112983	ENST00000489351	retained_intron	KNOWN	None	19874	None	None	137495780	137497776	-1	None	SMAP, p120
5	BRD8	ENSG00000112983	ENST00000515014	processed_transcript	KNOWN	None	19874	None	None	137496584	137500641	-1	None	SMAP, p120
5	BRD8	ENSG00000112983	ENST00000506167	nonsense_mediated_decay	KNOWN	None	19874	879	292	137496657	137501750	-1	None	SMAP, p120
5	BRD8	ENSG00000112983	ENST00000511898	protein_coding	NOVEL	None	19874	586	194	137497741	137501651	-1	None	SMAP, p120
5	BRD8	ENSG00000112983	ENST00000483805	retained_intron	KNOWN	None	19874	None	None	137500711	137501914	-1	None	SMAP, p120
5	BRD8	ENSG00000112983	ENST00000463620	retained_intron	KNOWN	None	19874	None	None	137500801	137502634	-1	None	SMAP, p120
5	BRD8	ENSG00000112983	ENST00000453824	protein_coding	PUTATIVE	None	19874	561	186	137501688	137506749	-1	None	SMAP, p120
5	BRD8	ENSG00000112983	ENST00000471892	retained_intron	KNOWN	None	19874	None	None	137503332	137506569	-1	None	SMAP, p120
5	BRD8	ENSG00000112983	ENST00000428808	nonsense_mediated_decay	KNOWN	None	19874	120	39	137503676	137514318	-1	None	SMAP, p120
5	BRD8	ENSG00000112983	ENST00000432618	nonsense_mediated_decay	KNOWN	None	19874	240	79	137504952	137514642	-1	None	SMAP, p120
5	BRD8	ENSG00000112983	ENST00000425764	processed_transcript	KNOWN	None	19874	None	None	137505052	137514318	-1	None	SMAP, p120
5	BRD8	ENSG00000112983	ENST00000450756	nonsense_mediated_decay	KNOWN	None	19874	204	67	137506070	137514317	-1	None	SMAP, p120
5	BRD8	ENSG00000112983	ENST00000515254	retained_intron	KNOWN	None	19874	None	None	137506419	137514318	-1	None	SMAP, p120
5	BRD8	ENSG00000112983	ENST00000430331	protein_coding	PUTATIVE	None	19874	368	121	137507050	137514367	-1	None	SMAP, p120
5	BRD8	ENSG00000112983	ENST00000471437	retained_intron	KNOWN	None	19874	None	None	137512853	137514327	-1	None	SMAP, p120
5	BRD8	ENSG00000112983	ENST00000411594	protein_coding	KNOWN	CCDS54907	19874	2601	866	137492586	137514358	-1	None	SMAP, p120
5	BRD8	ENSG00000112983	ENST00000455658	protein_coding	KNOWN	None	19874	2514	837	137492611	137514318	-1	None	SMAP, p120
HSCHR6_MHC_MCF	None	ENSG00000258259	ENST00000551159	pseudogene	NOVEL	None	None	None	None	31703068	31704007	-1	None	None
11	RNU1-91P	ENSG00000201616	ENST00000364746	snRNA	KNOWN	None	48433	None	None	3069589	3069751	-1	None	None
12	RBM19	ENSG00000122965	ENST00000553232	processed_transcript	KNOWN	None	29098	None	None	114254543	114255984	-1	None	DKFZp586F1023, KIAA0682
12	RBM19	ENSG00000122965	ENST00000545145	protein_coding	KNOWN	CCDS9172	29098	2883	960	114254547	114404111	-1	None	DKFZp586F1023, KIAA0682
12	RBM19	ENSG00000122965	ENST00000392561	protein_coding	KNOWN	CCDS9172	29098	2883	960	114259862	114404115	-1	None	DKFZp586F1023, KIAA0682
12	RBM19	ENSG00000122965	ENST00000261741	protein_coding	KNOWN	CCDS9172	29098	2883	960	114259862	114404176	-1	None	DKFZp586F1023, KIAA0682
12	RBM19	ENSG00000122965	ENST00000552384	nonsense_mediated_decay	KNOWN	None	29098	333	110	114260492	114296709	-1	None	DKFZp586F1023, KIAA0682
12	RBM19	ENSG00000122965	ENST00000552386	retained_intron	KNOWN	None	29098	None	None	114352774	114365236	-1	None	DKFZp586F1023, KIAA0682
12	RBM19	ENSG00000122965	ENST00000546876	processed_transcript	KNOWN	None	29098	None	None	114395668	114404014	-1	None	DKFZp586F1023, KIAA0682
19	None	ENSG00000267571	ENST00000591109	processed_transcript	KNOWN	None	None	None	None	5911589	5913910	-1	None	None
19	ZNF416	ENSG00000083817	ENST00000196489	protein_coding	KNOWN	CCDS12954	20645	1785	594	58082934	58090295	-1	None	FLJ20557
11	None	ENSG00000236710	ENST00000431546	processed_pseudogene	KNOWN	None	None	None	None	3105623	3106673	-1	None	None
4	None	ENSG00000251685	ENST00000505092	unprocessed_pseudogene	KNOWN	None	None	None	None	69870580	69886132	-1	None	None
4	None	ENSG00000251685	ENST00000425704	processed_pseudogene	KNOWN	None	None	None	None	69870574	69870852	-1	None	None
19	None	ENSG00000266983	ENST00000587836	antisense	KNOWN	None	None	None	None	5978414	6020374	1	None	None
16	None	ENSG00000260258	ENST00000569208	transcribed_processed_pseudogene	KNOWN	None	None	None	None	52976051	52976917	1	None	None
16	None	ENSG00000260258	ENST00000602826	processed_transcript	KNOWN	None	None	None	None	52976693	52977376	1	None	None
6	ULBP1	ENSG00000111981	ENST00000367345	protein_coding	KNOWN	CCDS5223	14893	735	244	150285143	150293347	1	None	RAET1I
6	ULBP1	ENSG00000111981	ENST00000229708	protein_coding	KNOWN	CCDS5223	14893	735	244	150285143	150294844	1	None	RAET1I
7	None	ENSG00000227371	ENST00000413598	processed_pseudogene	KNOWN	None	None	None	None	121059126	121059899	1	None	None
19	None	ENSG00000267262	ENST00000587759	antisense	KNOWN	None	None	None	None	6067964	6077130	1	None	None
7	TSPAN33	ENSG00000158457	ENST00000289407	protein_coding	KNOWN	CCDS5810	28743	852	283	128784712	128808637	1	None	MGC50844, Penumbra
7	TSPAN33	ENSG00000158457	ENST00000496963	retained_intron	KNOWN	None	28743	None	None	128802291	128804651	1	None	MGC50844, Penumbra
7	TSPAN33	ENSG00000158457	ENST00000486685	retained_intron	KNOWN	None	28743	None	None	128806281	128808671	1	None	MGC50844, Penumbra
10	None	ENSG00000224473	ENST00000438347	processed_pseudogene	KNOWN	None	None	None	None	30692126	30692705	-1	None	None
19	None	ENSG00000267589	ENST00000586415	processed_pseudogene	KNOWN	None	None	None	None	6072834	6073538	1	None	None
11	None	ENSG00000255468	ENST00000581155	processed_transcript	KNOWN	None	None	None	None	66115421	66121090	1	None	None
11	None	ENSG00000255468	ENST00000531602	protein_coding	PUTATIVE	None	None	312	103	66115421	66131231	1	None	None
11	None	ENSG00000255468	ENST00000580881	processed_transcript	KNOWN	None	None	None	None	66115686	66132275	1	None	None
11	None	ENSG00000234791	ENST00000455154	antisense	KNOWN	None	None	None	None	3210776	3211159	1	None	None
HSCHR6_MHC_DBB	HSD17B8	ENSG00000225312	ENST00000454191	protein_coding	KNOWN	None	3554	786	261	33150329	33152518	1	FABGL	HKE6, D6S2245E, RING2, KE6, H2-KE6, SDR30C1
HSCHR6_MHC_DBB	HSD17B8	ENSG00000225312	ENST00000476285	processed_transcript	KNOWN	None	3554	None	None	33150373	33152136	1	FABGL	HKE6, D6S2245E, RING2, KE6, H2-KE6, SDR30C1
5	TRIO	ENSG00000038382	ENST00000505971	retained_intron	KNOWN	None	12303	None	None	14143811	14287213	1	None	ARHGEF23
5	TRIO	ENSG00000038382	ENST00000502816	retained_intron	KNOWN	None	12303	None	None	14143811	14290996	1	None	ARHGEF23
5	TRIO	ENSG00000038382	ENST00000344204	protein_coding	KNOWN	CCDS3883	12303	9294	3097	14143811	14510313	1	None	ARHGEF23
5	TRIO	ENSG00000038382	ENST00000512070	nonsense_mediated_decay	KNOWN	None	12303	6930	2309	14143946	14508785	1	None	ARHGEF23
5	TRIO	ENSG00000038382	ENST00000509967	protein_coding	PUTATIVE	None	12303	4527	1508	14183907	14399509	1	None	ARHGEF23
5	TRIO	ENSG00000038382	ENST00000504606	retained_intron	KNOWN	None	12303	None	None	14291086	14297622	1	None	ARHGEF23
5	TRIO	ENSG00000038382	ENST00000513206	protein_coding	PUTATIVE	None	12303	7641	2546	14291086	14532235	1	None	ARHGEF23
5	TRIO	ENSG00000038382	ENST00000515144	retained_intron	KNOWN	None	12303	None	None	14293150	14489274	1	None	ARHGEF23
5	TRIO	ENSG00000038382	ENST00000510757	retained_intron	KNOWN	None	12303	None	None	14387452	14388059	1	None	ARHGEF23
5	TRIO	ENSG00000038382	ENST00000502490	retained_intron	KNOWN	None	12303	None	None	14388722	14397450	1	None	ARHGEF23
5	TRIO	ENSG00000038382	ENST00000509354	retained_intron	KNOWN	None	12303	None	None	14399133	14420295	1	None	ARHGEF23
5	TRIO	ENSG00000038382	ENST00000512303	retained_intron	KNOWN	None	12303	None	None	14406323	14420013	1	None	ARHGEF23
5	TRIO	ENSG00000038382	ENST00000512979	processed_transcript	KNOWN	None	12303	None	None	14418892	14420130	1	None	ARHGEF23
5	TRIO	ENSG00000038382	ENST00000507714	processed_transcript	KNOWN	None	12303	None	None	14419923	14420909	1	None	ARHGEF23
5	TRIO	ENSG00000038382	ENST00000515710	processed_transcript	KNOWN	None	12303	None	None	14440928	14466560	1	None	ARHGEF23
5	TRIO	ENSG00000038382	ENST00000506611	retained_intron	KNOWN	None	12303	None	None	14474121	14477442	1	None	ARHGEF23
5	TRIO	ENSG00000038382	ENST00000511019	retained_intron	KNOWN	None	12303	None	None	14479430	14481905	1	None	ARHGEF23
5	TRIO	ENSG00000038382	ENST00000510281	retained_intron	KNOWN	None	12303	None	None	14482526	14487898	1	None	ARHGEF23
5	TRIO	ENSG00000038382	ENST00000344135	protein_coding	KNOWN	None	12303	1791	596	14488557	14510312	1	None	ARHGEF23
5	TRIO	ENSG00000038382	ENST00000503399	retained_intron	KNOWN	None	12303	None	None	14492479	14497095	1	None	ARHGEF23
5	TRIO	ENSG00000038382	ENST00000508343	retained_intron	KNOWN	None	12303	None	None	14498248	14499290	1	None	ARHGEF23
5	TRIO	ENSG00000038382	ENST00000508283	retained_intron	KNOWN	None	12303	None	None	14498625	14504783	1	None	ARHGEF23
5	TRIO	ENSG00000038382	ENST00000508717	retained_intron	KNOWN	None	12303	None	None	14498625	14508442	1	None	ARHGEF23
5	TRIO	ENSG00000038382	ENST00000537187	protein_coding	KNOWN	None	12303	8766	2921	14143829	14509448	1	None	ARHGEF23
4	None	ENSG00000249890	ENST00000503426	unprocessed_pseudogene	KNOWN	None	None	None	None	69887374	69888058	-1	None	None
11	MRGPRG-AS1	ENSG00000236301	ENST00000434798	antisense	KNOWN	None	26691	None	None	3239562	3244361	1	C11orf36	FLJ36102, HSD-40
11	MRGPRG-AS1	ENSG00000236301	ENST00000531711	antisense	KNOWN	None	26691	None	None	3239597	3243027	1	C11orf36	FLJ36102, HSD-40
11	MRGPRG-AS1	ENSG00000236301	ENST00000420873	antisense	KNOWN	None	26691	None	None	3239618	3244356	1	C11orf36	FLJ36102, HSD-40
11	MRGPRG-AS1	ENSG00000236301	ENST00000541883	antisense	KNOWN	None	26691	None	None	3242905	3243597	1	C11orf36	FLJ36102, HSD-40
16	None	ENSG00000260939	ENST00000564816	processed_pseudogene	KNOWN	None	None	None	None	53044307	53045198	-1	None	None
4	None	ENSG00000250919	ENST00000508672	unprocessed_pseudogene	KNOWN	None	None	None	None	69893549	69910296	1	None	None
16	None	ENSG00000261550	ENST00000562178	antisense	KNOWN	None	None	None	None	53069602	53086785	-1	None	None
3	CEP70	ENSG00000114107	ENST00000264982	protein_coding	KNOWN	CCDS3102	29972	1794	597	138213186	138313198	-1	None	BITE, FLJ13036
3	CEP70	ENSG00000114107	ENST00000489254	protein_coding	PUTATIVE	None	29972	1338	445	138213600	138313161	-1	None	BITE, FLJ13036
3	CEP70	ENSG00000114107	ENST00000484888	protein_coding	KNOWN	CCDS3102	29972	1794	597	138213845	138313066	-1	None	BITE, FLJ13036
3	CEP70	ENSG00000114107	ENST00000474781	protein_coding	PUTATIVE	None	29972	1740	579	138213855	138313181	-1	None	BITE, FLJ13036
3	CEP70	ENSG00000114107	ENST00000459695	protein_coding	PUTATIVE	None	29972	216	71	138215752	138219022	-1	None	BITE, FLJ13036
3	CEP70	ENSG00000114107	ENST00000481834	protein_coding	KNOWN	None	29972	1665	554	138218726	138313090	-1	None	BITE, FLJ13036
3	CEP70	ENSG00000114107	ENST00000468900	protein_coding	NOVEL	None	29972	807	268	138248040	138313080	-1	None	BITE, FLJ13036
3	CEP70	ENSG00000114107	ENST00000462419	protein_coding	PUTATIVE	None	29972	779	258	138248071	138313187	-1	None	BITE, FLJ13036
3	CEP70	ENSG00000114107	ENST00000478673	processed_transcript	KNOWN	None	29972	None	None	138250349	138313096	-1	None	BITE, FLJ13036
3	CEP70	ENSG00000114107	ENST00000464035	protein_coding	KNOWN	None	29972	639	212	138255761	138310798	-1	None	BITE, FLJ13036
3	CEP70	ENSG00000114107	ENST00000470159	protein_coding	KNOWN	None	29972	348	115	138289277	138313380	-1	None	BITE, FLJ13036
3	CEP70	ENSG00000114107	ENST00000485115	protein_coding	KNOWN	None	29972	69	22	138291701	138312971	-1	None	BITE, FLJ13036
3	CEP70	ENSG00000114107	ENST00000460967	processed_transcript	PUTATIVE	None	29972	None	None	138310708	138313096	-1	None	BITE, FLJ13036
3	CEP70	ENSG00000114107	ENST00000542237	protein_coding	KNOWN	None	29972	1734	577	138213377	138313090	-1	None	BITE, FLJ13036
16	None	ENSG00000261291	ENST00000568648	sense_intronic	KNOWN	None	None	None	None	53202434	53203362	1	None	None
12	CHPT1	ENSG00000111666	ENST00000550385	processed_transcript	KNOWN	None	17852	None	None	102090725	102114004	1	None	CPT1
12	CHPT1	ENSG00000111666	ENST00000229266	protein_coding	KNOWN	CCDS9086	17852	1221	406	102091405	102122852	1	None	CPT1
12	CHPT1	ENSG00000111666	ENST00000549872	protein_coding	PUTATIVE	None	17852	1197	398	102091450	102120805	1	None	CPT1
12	CHPT1	ENSG00000111666	ENST00000549128	nonsense_mediated_decay	KNOWN	None	17852	1197	398	102091470	102122794	1	None	CPT1
12	CHPT1	ENSG00000111666	ENST00000552351	nonsense_mediated_decay	KNOWN	None	17852	657	218	102091470	102122829	1	None	CPT1
12	CHPT1	ENSG00000111666	ENST00000546490	retained_intron	KNOWN	None	17852	None	None	102091632	102108062	1	None	CPT1
12	CHPT1	ENSG00000111666	ENST00000552215	nonsense_mediated_decay	KNOWN	None	17852	554	183	102091743	102123424	1	None	CPT1
12	CHPT1	ENSG00000111666	ENST00000552329	nonsense_mediated_decay	KNOWN	None	17852	284	93	102108306	102117032	1	None	CPT1
12	CHPT1	ENSG00000111666	ENST00000546873	nonsense_mediated_decay	KNOWN	None	17852	115	37	102120101	102137918	1	None	CPT1
12	CHPT1	ENSG00000111666	ENST00000552213	processed_transcript	PUTATIVE	None	17852	None	None	102133356	102137788	1	None	CPT1
7	None	ENSG00000234985	ENST00000416734	processed_pseudogene	KNOWN	None	None	None	None	121080888	121081315	-1	None	None
19	None	ENSG00000271032	ENST00000605640	antisense	KNOWN	None	None	None	None	35505865	35516239	-1	None	None
17	GAS7	ENSG00000007237	ENST00000437099	protein_coding	KNOWN	CCDS58518	4169	1239	412	9813926	9929602	-1	None	KIAA0394, MGC1348
17	GAS7	ENSG00000007237	ENST00000323816	protein_coding	KNOWN	CCDS58518	4169	1239	412	9813926	10017870	-1	None	KIAA0394, MGC1348
17	GAS7	ENSG00000007237	ENST00000432992	protein_coding	KNOWN	CCDS11152	4169	1431	476	9817167	10101868	-1	None	KIAA0394, MGC1348
17	GAS7	ENSG00000007237	ENST00000585266	protein_coding	KNOWN	CCDS58518	4169	1239	412	9818572	9940064	-1	None	KIAA0394, MGC1348
17	GAS7	ENSG00000007237	ENST00000580865	protein_coding	KNOWN	CCDS45611	4169	1011	336	9819295	9862779	-1	None	KIAA0394, MGC1348
17	GAS7	ENSG00000007237	ENST00000583882	protein_coding	KNOWN	None	4169	237	78	9820123	9862779	-1	None	KIAA0394, MGC1348
17	GAS7	ENSG00000007237	ENST00000542249	protein_coding	NOVEL	None	4169	1266	421	9820153	9923459	-1	None	KIAA0394, MGC1348
17	GAS7	ENSG00000007237	ENST00000579158	protein_coding	NOVEL	None	4169	1287	428	9820370	9923319	-1	None	KIAA0394, MGC1348
17	GAS7	ENSG00000007237	ENST00000581112	processed_transcript	KNOWN	None	4169	None	None	9820403	9828102	-1	None	KIAA0394, MGC1348
17	GAS7	ENSG00000007237	ENST00000578456	retained_intron	KNOWN	None	4169	None	None	9820485	9830311	-1	None	KIAA0394, MGC1348
17	GAS7	ENSG00000007237	ENST00000581871	protein_coding	PUTATIVE	None	4169	426	141	9829988	9862320	-1	None	KIAA0394, MGC1348
17	GAS7	ENSG00000007237	ENST00000580811	protein_coding	PUTATIVE	None	4169	457	151	9830047	9862812	-1	None	KIAA0394, MGC1348
17	GAS7	ENSG00000007237	ENST00000584146	protein_coding	KNOWN	None	4169	539	178	9846438	9939854	-1	None	KIAA0394, MGC1348
17	GAS7	ENSG00000007237	ENST00000579140	processed_transcript	PUTATIVE	None	4169	None	None	9846438	9940018	-1	None	KIAA0394, MGC1348
17	GAS7	ENSG00000007237	ENST00000578655	processed_transcript	KNOWN	None	4169	None	None	9846526	9939979	-1	None	KIAA0394, MGC1348
17	GAS7	ENSG00000007237	ENST00000578599	protein_coding	KNOWN	None	4169	423	140	9850211	9963132	-1	None	KIAA0394, MGC1348
17	GAS7	ENSG00000007237	ENST00000584389	protein_coding	KNOWN	None	4169	384	127	9850250	9964696	-1	None	KIAA0394, MGC1348
17	GAS7	ENSG00000007237	ENST00000580043	protein_coding	KNOWN	None	4169	319	105	9862533	9939984	-1	None	KIAA0394, MGC1348
17	GAS7	ENSG00000007237	ENST00000396115	protein_coding	KNOWN	CCDS42263	4169	1251	416	9813926	9940064	-1	None	KIAA0394, MGC1348
17	GAS7	ENSG00000007237	ENST00000540214	protein_coding	KNOWN	None	4169	546	181	9817167	10101868	-1	None	KIAA0394, MGC1348
9	TMC1	ENSG00000165091	ENST00000297784	protein_coding	KNOWN	CCDS6643	16513	2283	760	75136717	75451267	1	DFNA36, DFNB7, DFNB11	None
9	TMC1	ENSG00000165091	ENST00000497073	processed_transcript	KNOWN	None	16513	None	None	75192704	75243260	1	DFNA36, DFNB7, DFNB11	None
9	TMC1	ENSG00000165091	ENST00000492418	processed_transcript	KNOWN	None	16513	None	None	75242941	75266534	1	DFNA36, DFNB7, DFNB11	None
9	TMC1	ENSG00000165091	ENST00000486417	processed_transcript	KNOWN	None	16513	None	None	75406954	75451236	1	DFNA36, DFNB7, DFNB11	None
9	TMC1	ENSG00000165091	ENST00000469455	processed_transcript	KNOWN	None	16513	None	None	75423799	75445435	1	DFNA36, DFNB7, DFNB11	None
9	TMC1	ENSG00000165091	ENST00000340019	protein_coding	KNOWN	CCDS6643	16513	2283	760	75229616	75451267	1	DFNA36, DFNB7, DFNB11	None
9	TMC1	ENSG00000165091	ENST00000396237	protein_coding	KNOWN	CCDS6643	16513	2283	760	75263565	75450977	1	DFNA36, DFNB7, DFNB11	None
19	CGB1	ENSG00000267631	ENST00000301407	protein_coding	KNOWN	CCDS12751	16721	468	155	49538867	49540073	-1	None	None
19	CGB1	ENSG00000267631	ENST00000601167	protein_coding	PUTATIVE	None	16721	389	128	49538910	49540152	-1	None	None
19	CGB1	ENSG00000267631	ENST00000391869	protein_coding	KNOWN	None	16721	468	155	49538831	49552006	-1	None	None
HSCHR6_MHC_COX	None	ENSG00000266781	ENST00000579625	misc_RNA	NOVEL	None	None	None	None	33089008	33089102	1	None	None
X	C1GALT1C1	ENSG00000171155	ENST00000304661	protein_coding	KNOWN	CCDS14602	24338	957	318	119759648	119764005	-1	None	COSMC, C1GALT2
X	C1GALT1C1	ENSG00000171155	ENST00000371313	protein_coding	KNOWN	CCDS14602	24338	957	318	119759786	119763850	-1	None	COSMC, C1GALT2
HSCHR6_MHC_MCF	HLA-E	ENSG00000225201	ENST00000444683	protein_coding	KNOWN	None	4962	1077	358	30535711	30540449	1	None	None
HSCHR6_MHC_MCF	HLA-E	ENSG00000225201	ENST00000489115	retained_intron	KNOWN	None	4962	None	None	30535754	30536609	1	None	None
HSCHR6_MHC_MCF	HLA-E	ENSG00000225201	ENST00000491393	retained_intron	KNOWN	None	4962	None	None	30535756	30537527	1	None	None
17	BLMH	ENSG00000108578	ENST00000261714	protein_coding	KNOWN	CCDS32604	1059	1368	455	28575218	28619012	-1	None	BH
17	BLMH	ENSG00000108578	ENST00000578795	retained_intron	KNOWN	None	1059	None	None	28575223	28577301	-1	None	BH
17	BLMH	ENSG00000108578	ENST00000578090	nonsense_mediated_decay	KNOWN	None	1059	216	71	28575840	28618867	-1	None	BH
17	BLMH	ENSG00000108578	ENST00000577623	protein_coding	PUTATIVE	None	1059	694	230	28593897	28618922	-1	None	BH
17	BLMH	ENSG00000108578	ENST00000579957	retained_intron	KNOWN	None	1059	None	None	28593903	28598511	-1	None	BH
17	BLMH	ENSG00000108578	ENST00000581037	protein_coding	NOVEL	None	1059	788	261	28598287	28614932	-1	None	BH
17	BLMH	ENSG00000108578	ENST00000577306	retained_intron	KNOWN	None	1059	None	None	28599276	28600148	-1	None	BH
17	BLMH	ENSG00000108578	ENST00000584603	protein_coding	PUTATIVE	None	1059	954	317	28599759	28618685	-1	None	BH
17	BLMH	ENSG00000108578	ENST00000582669	processed_transcript	KNOWN	None	1059	None	None	28600296	28612524	-1	None	BH
17	BLMH	ENSG00000108578	ENST00000579325	retained_intron	KNOWN	None	1059	None	None	28600783	28612557	-1	None	BH
17	BLMH	ENSG00000108578	ENST00000580709	protein_coding	PUTATIVE	None	1059	202	66	28614842	28619060	-1	None	BH
17	BLMH	ENSG00000108578	ENST00000577290	nonsense_mediated_decay	KNOWN	None	1059	282	93	28616432	28619012	-1	None	BH
17	BLMH	ENSG00000108578	ENST00000582749	retained_intron	KNOWN	None	1059	None	None	28618008	28619074	-1	None	BH
17	BLMH	ENSG00000108578	ENST00000394819	protein_coding	KNOWN	None	1059	1107	368	28575850	28618867	-1	None	BH
HSCHR6_MHC_COX	None	ENSG00000266130	ENST00000577365	miRNA	KNOWN	None	None	None	None	33097238	33097347	1	None	None
6	None	ENSG00000269490	ENST00000594414	protein_coding	NOVEL	None	None	279	92	33663196	33663474	-1	None	None
19	NDUFA11	ENSG00000174886	ENST00000418389	protein_coding	KNOWN	CCDS54203	20371	687	228	5891287	5903797	-1	None	B14.7
19	NDUFA11	ENSG00000174886	ENST00000592634	protein_coding	PUTATIVE	None	20371	363	120	5894686	5903782	-1	None	B14.7
19	NDUFA11	ENSG00000174886	ENST00000593233	nonsense_mediated_decay	KNOWN	None	20371	108	35	5894688	5903765	-1	None	B14.7
19	NDUFA11	ENSG00000174886	ENST00000308961	protein_coding	KNOWN	CCDS12155	20371	426	141	5894688	5903767	-1	None	B14.7
19	NDUFA11	ENSG00000174886	ENST00000591341	retained_intron	KNOWN	None	20371	None	None	5894692	5896692	-1	None	B14.7
19	NDUFA11	ENSG00000174886	ENST00000591160	processed_transcript	KNOWN	None	20371	None	None	5902442	5904017	-1	None	B14.7
18	None	ENSG00000265091	ENST00000581170	lincRNA	KNOWN	None	None	None	None	5232875	5238525	-1	None	None
18	None	ENSG00000265091	ENST00000579933	lincRNA	KNOWN	None	None	None	None	5232875	5238525	-1	None	None
12	NRIP2	ENSG00000053702	ENST00000337508	protein_coding	KNOWN	CCDS8514	23078	846	281	2934514	2944190	-1	None	DKFZP761G1913
12	NRIP2	ENSG00000053702	ENST00000542990	protein_coding	PUTATIVE	None	23078	526	174	2937116	2944710	-1	None	DKFZP761G1913
12	NRIP2	ENSG00000053702	ENST00000542386	protein_coding	PUTATIVE	None	23078	414	137	2937512	2944702	-1	None	DKFZP761G1913
10	PDZD8	ENSG00000165650	ENST00000334464	protein_coding	KNOWN	CCDS7600	26974	3465	1154	119040000	119134978	-1	PDZK8	bA129M16.2, FLJ34427
10	PDZD8	ENSG00000165650	ENST00000482496	processed_transcript	KNOWN	None	26974	None	None	119043818	119073746	-1	PDZK8	bA129M16.2, FLJ34427
10	PDZD8	ENSG00000165650	ENST00000489302	processed_transcript	KNOWN	None	26974	None	None	119044619	119078489	-1	PDZK8	bA129M16.2, FLJ34427
10	PDZD8	ENSG00000165650	ENST00000489491	processed_transcript	KNOWN	None	26974	None	None	119049697	119133992	-1	PDZK8	bA129M16.2, FLJ34427
3	TM4SF18	ENSG00000163762	ENST00000296059	protein_coding	KNOWN	CCDS3142	25181	606	201	149036285	149051548	-1	None	L6D
3	TM4SF18	ENSG00000163762	ENST00000470080	protein_coding	KNOWN	CCDS3142	25181	606	201	149039064	149051269	-1	None	L6D
3	TM4SF18	ENSG00000163762	ENST00000474754	protein_coding	KNOWN	None	25181	479	158	149040155	149052201	-1	None	L6D
3	TM4SF18	ENSG00000163762	ENST00000491182	retained_intron	KNOWN	None	25181	None	None	149042591	149051422	-1	None	L6D
3	TM4SF18	ENSG00000163762	ENST00000468398	retained_intron	KNOWN	None	25181	None	None	149047715	149051115	-1	None	L6D
HSCHR6_MHC_COX	ZNF70P1	ENSG00000230949	ENST00000413028	processed_pseudogene	KNOWN	None	13846	None	None	33105108	33105731	1	ZNF314P	dJ1033B10.7, bCX269C15.3
22	SEPT3	ENSG00000100167	ENST00000449288	protein_coding	PUTATIVE	None	10750	535	177	42372276	42385593	1	SEP3	None
22	SEPT3	ENSG00000100167	ENST00000396426	protein_coding	KNOWN	CCDS14026	10750	1077	358	42372814	42394225	1	SEP3	None
22	SEPT3	ENSG00000100167	ENST00000406029	protein_coding	NOVEL	None	10750	885	294	42372849	42393732	1	SEP3	None
22	SEPT3	ENSG00000100167	ENST00000396425	protein_coding	KNOWN	CCDS14027	10750	1053	350	42372938	42394225	1	SEP3	None
22	SEPT3	ENSG00000100167	ENST00000396417	nonsense_mediated_decay	KNOWN	None	10750	252	83	42373054	42394070	1	SEP3	None
22	SEPT3	ENSG00000100167	ENST00000460267	retained_intron	KNOWN	None	10750	None	None	42381646	42383693	1	SEP3	None
22	SEPT3	ENSG00000100167	ENST00000291236	protein_coding	KNOWN	None	10750	861	286	42372994	42390815	1	SEP3	None
22	SEPT3	ENSG00000100167	ENST00000328414	protein_coding	KNOWN	None	10750	252	83	42372931	42394225	1	SEP3	None
6	IP6K3	ENSG00000161896	ENST00000293756	protein_coding	KNOWN	CCDS34435	17269	1233	410	33689447	33714682	-1	IHPK3	INSP6K3
6	IP6K3	ENSG00000161896	ENST00000451316	protein_coding	KNOWN	CCDS34435	17269	1233	410	33689444	33714762	-1	IHPK3	INSP6K3
HSCHR6_MHC_MCF	None	ENSG00000265738	ENST00000578440	misc_RNA	NOVEL	None	None	None	None	31707348	31707461	1	None	None
6	JARID2	ENSG00000008083	ENST00000341776	protein_coding	KNOWN	CCDS4533	6196	3741	1246	15246527	15522252	1	JMJ	None
6	JARID2	ENSG00000008083	ENST00000474854	processed_transcript	KNOWN	None	6196	None	None	15501589	15508624	1	JMJ	None
6	JARID2	ENSG00000008083	ENST00000541660	protein_coding	KNOWN	None	6196	2883	960	15401089	15509585	1	JMJ	None
6	JARID2	ENSG00000008083	ENST00000397311	protein_coding	KNOWN	CCDS58996	6196	3225	1074	15249143	15520597	1	JMJ	None
HSCHR6_MHC_MCF	MIR4646	ENSG00000264873	ENST00000580407	miRNA	KNOWN	None	41543	None	None	31745090	31745152	-1	None	hsa-mir-4646
12	NOP2	ENSG00000111641	ENST00000537442	protein_coding	KNOWN	CCDS58203	7867	2439	812	6666029	6677128	-1	NOL1	NOP120, NSUN1, p120
12	NOP2	ENSG00000111641	ENST00000382421	protein_coding	NOVEL	CCDS58204	7867	2538	845	6666037	6677444	-1	NOL1	NOP120, NSUN1, p120
12	NOP2	ENSG00000111641	ENST00000545200	protein_coding	NOVEL	CCDS58202	7867	1887	628	6666037	6677448	-1	NOL1	NOP120, NSUN1, p120
12	NOP2	ENSG00000111641	ENST00000399466	protein_coding	KNOWN	CCDS44811	7867	2427	808	6666037	6677452	-1	NOL1	NOP120, NSUN1, p120
12	NOP2	ENSG00000111641	ENST00000322166	protein_coding	KNOWN	CCDS58203	7867	2439	812	6666037	6677490	-1	NOL1	NOP120, NSUN1, p120
12	NOP2	ENSG00000111641	ENST00000541778	protein_coding	KNOWN	CCDS44811	7867	2427	808	6666037	6677857	-1	NOL1	NOP120, NSUN1, p120
12	NOP2	ENSG00000111641	ENST00000542015	processed_transcript	KNOWN	None	7867	None	None	6666387	6677447	-1	NOL1	NOP120, NSUN1, p120
12	NOP2	ENSG00000111641	ENST00000544630	retained_intron	KNOWN	None	7867	None	None	6666720	6669959	-1	NOL1	NOP120, NSUN1, p120
12	NOP2	ENSG00000111641	ENST00000536506	retained_intron	KNOWN	None	7867	None	None	6669370	6672302	-1	NOL1	NOP120, NSUN1, p120
12	NOP2	ENSG00000111641	ENST00000537708	retained_intron	KNOWN	None	7867	None	None	6669407	6670147	-1	NOL1	NOP120, NSUN1, p120
12	NOP2	ENSG00000111641	ENST00000542919	retained_intron	KNOWN	None	7867	None	None	6670102	6672920	-1	NOL1	NOP120, NSUN1, p120
12	NOP2	ENSG00000111641	ENST00000542944	protein_coding	PUTATIVE	None	7867	825	274	6670840	6675623	-1	NOL1	NOP120, NSUN1, p120
12	NOP2	ENSG00000111641	ENST00000542867	protein_coding	PUTATIVE	None	7867	751	249	6672606	6677465	-1	NOL1	NOP120, NSUN1, p120
12	NOP2	ENSG00000111641	ENST00000400580	retained_intron	KNOWN	None	7867	None	None	6672792	6673471	-1	NOL1	NOP120, NSUN1, p120
12	NOP2	ENSG00000111641	ENST00000536124	protein_coding	PUTATIVE	None	7867	530	175	6673057	6677459	-1	NOL1	NOP120, NSUN1, p120
12	NOP2	ENSG00000111641	ENST00000538420	nonsense_mediated_decay	KNOWN	None	7867	297	98	6673074	6677441	-1	NOL1	NOP120, NSUN1, p120
12	NOP2	ENSG00000111641	ENST00000545492	protein_coding	PUTATIVE	None	7867	477	158	6675264	6677480	-1	NOL1	NOP120, NSUN1, p120
12	NOP2	ENSG00000111641	ENST00000545915	protein_coding	PUTATIVE	None	7867	246	81	6675426	6677491	-1	NOL1	NOP120, NSUN1, p120
12	NOP2	ENSG00000111641	ENST00000540228	protein_coding	PUTATIVE	None	7867	246	81	6675428	6677463	-1	NOL1	NOP120, NSUN1, p120
12	NOP2	ENSG00000111641	ENST00000538697	retained_intron	KNOWN	None	7867	None	None	6675742	6677462	-1	NOL1	NOP120, NSUN1, p120
12	NOP2	ENSG00000111641	ENST00000546053	retained_intron	KNOWN	None	7867	None	None	6676666	6677457	-1	NOL1	NOP120, NSUN1, p120
HSCHR6_MHC_MCF	None	ENSG00000264951	ENST00000579614	snRNA	NOVEL	None	None	None	None	31801028	31801130	-1	None	None
HSCHR6_MHC_MCF	SAPCD1-AS1	ENSG00000235765	ENST00000421248	processed_transcript	PUTATIVE	None	39824	None	None	31808387	31809665	-1	C6orf26-AS1	None
10	SNRPD2P1	ENSG00000228938	ENST00000489253	processed_pseudogene	KNOWN	None	31459	None	None	91738474	91738827	1	SNRPD2P	bA478K7.1
HSCHR6_MHC_COX	None	ENSG00000237536	ENST00000437306	processed_pseudogene	NOVEL	None	None	None	None	33127218	33129109	1	None	None
7	CASP2	ENSG00000106144	ENST00000310447	protein_coding	KNOWN	CCDS5879	1503	1359	452	142985308	143004789	1	NEDD2	ICH1, PPP1R57
7	CASP2	ENSG00000106144	ENST00000392925	protein_coding	PUTATIVE	None	1503	516	171	142985488	142990319	1	NEDD2	ICH1, PPP1R57
7	CASP2	ENSG00000106144	ENST00000350623	nonsense_mediated_decay	KNOWN	CCDS47733	1503	327	108	142985544	143002164	1	NEDD2	ICH1, PPP1R57
7	CASP2	ENSG00000106144	ENST00000493642	processed_transcript	KNOWN	None	1503	None	None	142986681	143002915	1	NEDD2	ICH1, PPP1R57
7	CASP2	ENSG00000106144	ENST00000481483	retained_intron	KNOWN	None	1503	None	None	142988711	142991574	1	NEDD2	ICH1, PPP1R57
7	CASP2	ENSG00000106144	ENST00000472067	retained_intron	KNOWN	None	1503	None	None	142991697	143003662	1	NEDD2	ICH1, PPP1R57
22	IGLVI-70	ENSG00000253239	ENST00000523272	IG_V_pseudogene	KNOWN	None	5940	None	None	22380474	22380991	1	None	IGLV(I)-70
HSCHR6_MHC_MCF	None	ENSG00000264887	ENST00000580858	misc_RNA	NOVEL	None	None	None	None	31822894	31822982	-1	None	None
HSCHR6_MHC_MCF	None	ENSG00000233649	ENST00000419289	processed_transcript	PUTATIVE	None	None	None	None	31928014	31928307	1	None	None
11	SLC29A2	ENSG00000174669	ENST00000311161	protein_coding	NOVEL	None	11004	1086	361	66129992	66139570	-1	ENT2, HNP36	DER12
11	SLC29A2	ENSG00000174669	ENST00000357440	protein_coding	KNOWN	CCDS8137	11004	1371	456	66129993	66139291	-1	ENT2, HNP36	DER12
11	SLC29A2	ENSG00000174669	ENST00000540386	nonsense_mediated_decay	KNOWN	None	11004	906	301	66129993	66139291	-1	ENT2, HNP36	DER12
11	SLC29A2	ENSG00000174669	ENST00000544554	protein_coding	KNOWN	CCDS8137	11004	1371	456	66129993	66139645	-1	ENT2, HNP36	DER12
11	SLC29A2	ENSG00000174669	ENST00000541567	nonsense_mediated_decay	KNOWN	None	11004	609	202	66129994	66139118	-1	ENT2, HNP36	DER12
11	SLC29A2	ENSG00000174669	ENST00000546034	protein_coding	KNOWN	CCDS8137	11004	1371	456	66129994	66139685	-1	ENT2, HNP36	DER12
HSCHR6_MHC_MCF	C4B-AS1	ENSG00000223661	ENST00000443643	processed_transcript	PUTATIVE	None	39752	None	None	31978673	31985947	-1	None	None
17	ITGA2B	ENSG00000005961	ENST00000588098	protein_coding	NOVEL	None	6138	97	31	42449548	42452063	-1	GP2B	CD41B, CD41
17	ITGA2B	ENSG00000005961	ENST00000587295	protein_coding	NOVEL	None	6138	313	103	42449549	42453552	-1	GP2B	CD41B, CD41
17	ITGA2B	ENSG00000005961	ENST00000262407	protein_coding	KNOWN	CCDS32665	6138	3120	1039	42449551	42466873	-1	GP2B	CD41B, CD41
17	ITGA2B	ENSG00000005961	ENST00000592462	retained_intron	KNOWN	None	6138	None	None	42451292	42460865	-1	GP2B	CD41B, CD41
17	ITGA2B	ENSG00000005961	ENST00000592226	retained_intron	KNOWN	None	6138	None	None	42457425	42462570	-1	GP2B	CD41B, CD41
17	ITGA2B	ENSG00000005961	ENST00000591990	retained_intron	KNOWN	None	6138	None	None	42461051	42462563	-1	GP2B	CD41B, CD41
17	ITGA2B	ENSG00000005961	ENST00000589645	retained_intron	KNOWN	None	6138	None	None	42461132	42462731	-1	GP2B	CD41B, CD41
17	ITGA2B	ENSG00000005961	ENST00000592075	retained_intron	KNOWN	None	6138	None	None	42461306	42462570	-1	GP2B	CD41B, CD41
17	ITGA2B	ENSG00000005961	ENST00000592253	retained_intron	KNOWN	None	6138	None	None	42461306	42462709	-1	GP2B	CD41B, CD41
17	ITGA2B	ENSG00000005961	ENST00000592944	retained_intron	KNOWN	None	6138	None	None	42461689	42463177	-1	GP2B	CD41B, CD41
17	ITGA2B	ENSG00000005961	ENST00000353281	protein_coding	KNOWN	None	6138	3018	1005	42449550	42466873	-1	GP2B	CD41B, CD41
17	ITGA2B	ENSG00000005961	ENST00000377068	protein_coding	KNOWN	None	6138	660	219	42457425	42462688	-1	GP2B	CD41B, CD41
HSCHR6_MHC_MCF	None	ENSG00000266612	ENST00000582748	miRNA	KNOWN	None	None	None	None	32001063	32001164	-1	None	None
8	None	ENSG00000255046	ENST00000531395	retained_intron	KNOWN	None	None	None	None	11655437	11660021	-1	None	None
8	None	ENSG00000255046	ENST00000533405	protein_coding	PUTATIVE	None	None	279	92	11659207	11660077	-1	None	None
HSCHR6_MHC_MCF	C4B	ENSG00000224639	ENST00000445788	processed_transcript	KNOWN	None	1324	None	None	32026249	32026275	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_MCF	C4B_2	ENSG00000224639	ENST00000445788	processed_transcript	KNOWN	None	42398	None	None	32026249	32026275	1	None	None
8	RIPK2	ENSG00000104312	ENST00000220751	protein_coding	KNOWN	CCDS6247	10020	1623	540	90769975	90803291	1	None	RICK, RIP2, CARDIAK, CARD3
8	RIPK2	ENSG00000104312	ENST00000522965	nonsense_mediated_decay	KNOWN	None	10020	207	68	90770034	90802836	1	None	RICK, RIP2, CARDIAK, CARD3
8	RIPK2	ENSG00000104312	ENST00000517696	nonsense_mediated_decay	KNOWN	None	10020	213	70	90770045	90775086	1	None	RICK, RIP2, CARDIAK, CARD3
8	RIPK2	ENSG00000104312	ENST00000518673	retained_intron	KNOWN	None	10020	None	None	90792316	90793006	1	None	RICK, RIP2, CARDIAK, CARD3
8	RIPK2	ENSG00000104312	ENST00000540020	protein_coding	KNOWN	None	10020	1212	403	90770062	90802688	1	None	RICK, RIP2, CARDIAK, CARD3
HSCHR6_MHC_MCF	CYP21A1P	ENSG00000229856	ENST00000510749	transcribed_unprocessed_pseudogene	KNOWN	None	2599	None	None	32052157	32052623	1	CYP21P, CYP21A	P450c21A
HSCHR6_MHC_MCF	CYP21A1P	ENSG00000229856	ENST00000430581	retained_intron	KNOWN	None	2599	None	None	32052157	32052675	1	CYP21P, CYP21A	P450c21A
1	MYOC	ENSG00000034971	ENST00000037502	protein_coding	KNOWN	CCDS1297	7610	1515	504	171604557	171621811	-1	GLC1A	TIGR, JOAG1
22	IGLVI-68	ENSG00000254355	ENST00000519525	IG_V_pseudogene	KNOWN	None	5939	None	None	22387143	22387592	1	None	IGLV(I)-68
19	NKG7	ENSG00000105374	ENST00000595217	protein_coding	NOVEL	None	7830	429	142	51874860	51875955	-1	None	GIG1
19	NKG7	ENSG00000105374	ENST00000221978	protein_coding	KNOWN	CCDS12830	7830	498	165	51874866	51875969	-1	None	GIG1
19	NKG7	ENSG00000105374	ENST00000593572	protein_coding	NOVEL	None	7830	219	72	51874874	51875657	-1	None	GIG1
19	NKG7	ENSG00000105374	ENST00000600427	protein_coding	NOVEL	None	7830	258	85	51874874	51875894	-1	None	GIG1
19	NKG7	ENSG00000105374	ENST00000595157	protein_coding	NOVEL	None	7830	268	88	51874952	51875664	-1	None	GIG1
22	None	ENSG00000225070	ENST00000411554	lincRNA	KNOWN	None	None	None	None	22390743	22394463	1	None	None
5	CARTPT	ENSG00000164326	ENST00000296777	protein_coding	KNOWN	CCDS4011	24323	351	116	71014990	71016875	1	None	CART
5	CARTPT	ENSG00000164326	ENST00000513096	processed_transcript	PUTATIVE	None	24323	None	None	71015406	71016875	1	None	CART
4	None	ENSG00000260262	ENST00000568585	lincRNA	KNOWN	None	None	None	None	830300	831012	-1	None	None
4	None	ENSG00000248763	ENST00000507775	unprocessed_pseudogene	KNOWN	None	None	None	None	69932113	69935606	1	None	None
22	None	ENSG00000249333	ENST00000423821	unprocessed_pseudogene	KNOWN	None	None	None	None	22393042	22393525	1	None	None
5	None	ENSG00000271410	ENST00000605749	processed_pseudogene	KNOWN	None	None	None	None	54652136	54653351	-1	None	None
12	ATP5G2	ENSG00000135390	ENST00000550241	processed_transcript	PUTATIVE	None	842	None	None	54026510	54062996	-1	None	None
12	ATP5G2	ENSG00000135390	ENST00000602871	protein_coding	KNOWN	None	842	426	141	54058950	54069899	-1	None	None
12	ATP5G2	ENSG00000135390	ENST00000394349	protein_coding	KNOWN	CCDS8863	842	597	198	54058950	54070109	-1	None	None
12	ATP5G2	ENSG00000135390	ENST00000495596	retained_intron	KNOWN	None	842	None	None	54058955	54067805	-1	None	None
12	ATP5G2	ENSG00000135390	ENST00000552242	nonsense_mediated_decay	KNOWN	None	842	72	23	54058955	54071192	-1	None	None
12	ATP5G2	ENSG00000135390	ENST00000549164	protein_coding	KNOWN	None	842	426	141	54058967	54070182	-1	None	None
12	ATP5G2	ENSG00000135390	ENST00000338662	protein_coding	NOVEL	CCDS31812	842	474	157	54058986	54071182	-1	None	None
12	ATP5G2	ENSG00000135390	ENST00000549748	nonsense_mediated_decay	KNOWN	None	842	102	33	54059023	54069866	-1	None	None
12	ATP5G2	ENSG00000135390	ENST00000552120	retained_intron	KNOWN	None	842	None	None	54063006	54064045	-1	None	None
HSCHR6_MHC_MCF	TNXA	ENSG00000224140	ENST00000423622	unprocessed_pseudogene	KNOWN	None	11975	None	None	32052838	32056696	-1	TNX	XA, D6S103E, HXBL
5	MIR5687	ENSG00000265135	ENST00000581367	miRNA	KNOWN	None	43457	None	None	54804678	54804754	-1	None	hsa-mir-5687
5	None	ENSG00000216125	ENST00000401306	miRNA	NOVEL	None	None	None	None	83269615	83269705	-1	None	None
5	RNF138P1	ENSG00000250853	ENST00000502765	processed_pseudogene	KNOWN	None	30342	None	None	54825984	54826529	-1	None	None
5	RNU6-448P	ENSG00000252861	ENST00000517052	snRNA	KNOWN	None	47411	None	None	83492701	83492807	1	None	None
8	INTS10	ENSG00000104613	ENST00000397977	protein_coding	KNOWN	CCDS6011	25548	2133	710	19674651	19709589	1	C8orf35	FLJ10569, INT10
8	INTS10	ENSG00000104613	ENST00000518424	nonsense_mediated_decay	KNOWN	None	25548	201	66	19674902	19677164	1	C8orf35	FLJ10569, INT10
8	INTS10	ENSG00000104613	ENST00000522114	nonsense_mediated_decay	KNOWN	None	25548	198	65	19674948	19678029	1	C8orf35	FLJ10569, INT10
8	INTS10	ENSG00000104613	ENST00000520985	retained_intron	KNOWN	None	25548	None	None	19674950	19676383	1	C8orf35	FLJ10569, INT10
8	INTS10	ENSG00000104613	ENST00000521758	processed_transcript	KNOWN	None	25548	None	None	19674961	19680031	1	C8orf35	FLJ10569, INT10
8	INTS10	ENSG00000104613	ENST00000523869	nonsense_mediated_decay	KNOWN	None	25548	164	53	19675092	19680963	1	C8orf35	FLJ10569, INT10
8	INTS10	ENSG00000104613	ENST00000522081	retained_intron	KNOWN	None	25548	None	None	19678460	19682003	1	C8orf35	FLJ10569, INT10
8	INTS10	ENSG00000104613	ENST00000523846	protein_coding	NOVEL	None	25548	704	233	19680899	19689621	1	C8orf35	FLJ10569, INT10
8	INTS10	ENSG00000104613	ENST00000522806	processed_transcript	PUTATIVE	None	25548	None	None	19681406	19683999	1	C8orf35	FLJ10569, INT10
8	INTS10	ENSG00000104613	ENST00000523143	retained_intron	KNOWN	None	25548	None	None	19682175	19688037	1	C8orf35	FLJ10569, INT10
8	INTS10	ENSG00000104613	ENST00000521357	nonsense_mediated_decay	KNOWN	None	25548	149	48	19682349	19701748	1	C8orf35	FLJ10569, INT10
8	INTS10	ENSG00000104613	ENST00000518799	protein_coding	NOVEL	None	25548	457	151	19688030	19703285	1	C8orf35	FLJ10569, INT10
8	INTS10	ENSG00000104613	ENST00000519493	retained_intron	KNOWN	None	25548	None	None	19689612	19695028	1	C8orf35	FLJ10569, INT10
8	INTS10	ENSG00000104613	ENST00000520670	protein_coding	PUTATIVE	None	25548	311	102	19694564	19709594	1	C8orf35	FLJ10569, INT10
8	INTS10	ENSG00000104613	ENST00000521008	nonsense_mediated_decay	KNOWN	None	25548	88	28	19694592	19709185	1	C8orf35	FLJ10569, INT10
8	INTS10	ENSG00000104613	ENST00000523772	protein_coding	NOVEL	None	25548	521	172	19700410	19709572	1	C8orf35	FLJ10569, INT10
8	INTS10	ENSG00000104613	ENST00000520827	nonsense_mediated_decay	KNOWN	None	25548	125	40	19701639	19709578	1	C8orf35	FLJ10569, INT10
8	INTS10	ENSG00000104613	ENST00000607660	retained_intron	KNOWN	None	25548	None	None	19702934	19703425	1	C8orf35	FLJ10569, INT10
8	INTS10	ENSG00000104613	ENST00000517546	retained_intron	KNOWN	None	25548	None	None	19706274	19709546	1	C8orf35	FLJ10569, INT10
HSCHR6_MHC_MCF	TNXB	ENSG00000206258	ENST00000424718	protein_coding	KNOWN	None	11976	12669	4222	32085376	32153582	-1	TNXB1, TNXB2	TNXBS, XBS, XB
HSCHR6_MHC_MCF	TNXB	ENSG00000206258	ENST00000475986	processed_transcript	KNOWN	None	11976	None	None	32085376	32090828	-1	TNXB1, TNXB2	TNXBS, XBS, XB
HSCHR6_MHC_MCF	TNXB	ENSG00000206258	ENST00000477062	retained_intron	KNOWN	None	11976	None	None	32085376	32090349	-1	TNXB1, TNXB2	TNXBS, XBS, XB
HSCHR6_MHC_MCF	TNXB	ENSG00000206258	ENST00000469136	retained_intron	KNOWN	None	11976	None	None	32086487	32087673	-1	TNXB1, TNXB2	TNXBS, XBS, XB
HSCHR6_MHC_MCF	TNXB	ENSG00000206258	ENST00000488162	retained_intron	KNOWN	None	11976	None	None	32139793	32153429	-1	TNXB1, TNXB2	TNXBS, XBS, XB
HSCHR6_MHC_MCF	TNXB	ENSG00000206258	ENST00000437547	protein_coding	KNOWN	None	11976	23	6	32142390	32159542	-1	TNXB1, TNXB2	TNXBS, XBS, XB
HSCHR6_MHC_MCF	TNXB	ENSG00000206258	ENST00000493830	processed_transcript	KNOWN	None	11976	None	None	32142390	32161818	-1	TNXB1, TNXB2	TNXBS, XBS, XB
HSCHR6_MHC_MCF	TNXB	ENSG00000206258	ENST00000548649	protein_coding	KNOWN	None	11976	12729	4242	32085376	32153582	-1	TNXB1, TNXB2	TNXBS, XBS, XB
5	AK4P2	ENSG00000249410	ENST00000504372	processed_pseudogene	KNOWN	None	39066	None	None	54847713	54848382	-1	None	None
6	TBC1D22B	ENSG00000065491	ENST00000373491	protein_coding	KNOWN	CCDS4832	21602	1518	505	37225548	37300746	1	C6orf197	FLJ20337, dJ744I24.2
5	None	ENSG00000250320	ENST00000514696	antisense	KNOWN	None	None	None	None	83680245	83695469	1	None	None
5	None	ENSG00000250320	ENST00000509406	antisense	KNOWN	None	None	None	None	83680311	83786583	1	None	None
5	None	ENSG00000250320	ENST00000515688	antisense	KNOWN	None	None	None	None	83680374	83713134	1	None	None
5	None	ENSG00000250320	ENST00000507060	antisense	KNOWN	None	None	None	None	83680665	83683875	1	None	None
5	None	ENSG00000250320	ENST00000502253	antisense	KNOWN	None	None	None	None	83681297	83696600	1	None	None
5	None	ENSG00000251368	ENST00000503994	processed_pseudogene	KNOWN	None	None	None	None	55046034	55046229	-1	None	None
5	RNA5SP183	ENSG00000199322	ENST00000362452	rRNA	KNOWN	None	43083	None	None	55073297	55073415	1	RN5S183	None
5	HNRNPH1P3	ENSG00000248854	ENST00000515565	processed_pseudogene	KNOWN	None	48811	None	None	55134629	55135853	-1	None	None
10	HNRNPA1P32	ENSG00000213778	ENST00000396326	processed_pseudogene	KNOWN	None	44958	None	None	30806545	30807790	-1	None	None
5	None	ENSG00000262211	ENST00000576302	antisense	KNOWN	None	None	None	None	55231971	55237555	1	None	None
1	RHCE	ENSG00000188672	ENST00000294413	protein_coding	KNOWN	CCDS30635	10008	1254	417	25688740	25747336	-1	RH	CD240CE
1	RHCE	ENSG00000188672	ENST00000340849	protein_coding	KNOWN	CCDS30636	10008	804	267	25688799	25747286	-1	RH	CD240CE
1	RHCE	ENSG00000188672	ENST00000349320	protein_coding	PUTATIVE	None	10008	1206	401	25688803	25756683	-1	RH	CD240CE
1	RHCE	ENSG00000188672	ENST00000527747	protein_coding	NOVEL	None	10008	233	76	25688850	25729193	-1	RH	CD240CE
1	RHCE	ENSG00000188672	ENST00000346452	protein_coding	KNOWN	CCDS30634	10008	801	266	25688854	25747283	-1	RH	CD240CE
1	RHCE	ENSG00000188672	ENST00000349438	protein_coding	KNOWN	CCDS30637	10008	1065	354	25688922	25747296	-1	RH	CD240CE
1	RHCE	ENSG00000188672	ENST00000527187	retained_intron	KNOWN	None	10008	None	None	25711989	25747432	-1	RH	CD240CE
1	RHCE	ENSG00000188672	ENST00000533771	nonsense_mediated_decay	KNOWN	None	10008	168	55	25712202	25747287	-1	RH	CD240CE
1	RHCE	ENSG00000188672	ENST00000495048	processed_transcript	KNOWN	None	10008	None	None	25729087	25747339	-1	RH	CD240CE
1	RHCE	ENSG00000188672	ENST00000413854	protein_coding	KNOWN	None	10008	1191	396	25688741	25747363	-1	RH	CD240CE
1	RHCE	ENSG00000188672	ENST00000455194	protein_coding	KNOWN	None	10008	939	312	25688741	25747363	-1	RH	CD240CE
1	RHCE	ENSG00000188672	ENST00000374352	protein_coding	KNOWN	None	10008	1206	401	25688741	25737930	-1	RH	CD240CE
1	RHCE	ENSG00000188672	ENST00000243186	protein_coding	KNOWN	None	10008	1119	372	25688741	25747363	-1	RH	CD240CE
1	RHCE	ENSG00000188672	ENST00000425135	protein_coding	KNOWN	None	10008	927	308	25688741	25747363	-1	RH	CD240CE
Y	TSPY23P	ENSG00000229159	ENST00000440136	unprocessed_pseudogene	KNOWN	None	38594	None	None	24329997	24332168	1	None	None
16	None	ENSG00000261263	ENST00000561744	processed_transcript	KNOWN	None	None	None	None	32661516	32662084	-1	None	None
16	None	ENSG00000261263	ENST00000569484	transcribed_processed_pseudogene	KNOWN	None	None	None	None	32661997	32662231	-1	None	None
17	NBR1	ENSG00000188554	ENST00000341165	protein_coding	KNOWN	CCDS45694	6746	2901	966	41322498	41363708	1	M17S2	CA125, KIAA0049, 1A1-3B
17	NBR1	ENSG00000188554	ENST00000586650	protein_coding	KNOWN	None	6746	127	41	41322511	41329977	1	M17S2	CA125, KIAA0049, 1A1-3B
17	NBR1	ENSG00000188554	ENST00000542611	protein_coding	PUTATIVE	None	6746	2514	837	41323219	41362012	1	M17S2	CA125, KIAA0049, 1A1-3B
17	NBR1	ENSG00000188554	ENST00000590996	protein_coding	KNOWN	CCDS45694	6746	2901	966	41323231	41362540	1	M17S2	CA125, KIAA0049, 1A1-3B
17	NBR1	ENSG00000188554	ENST00000592304	retained_intron	KNOWN	None	6746	None	None	41323242	41328693	1	M17S2	CA125, KIAA0049, 1A1-3B
17	NBR1	ENSG00000188554	ENST00000589872	protein_coding	PUTATIVE	None	6746	2814	937	41323260	41361876	1	M17S2	CA125, KIAA0049, 1A1-3B
17	NBR1	ENSG00000188554	ENST00000585505	retained_intron	KNOWN	None	6746	None	None	41341931	41348137	1	M17S2	CA125, KIAA0049, 1A1-3B
17	NBR1	ENSG00000188554	ENST00000422280	protein_coding	KNOWN	CCDS45694	6746	2901	966	41322511	41363706	1	M17S2	CA125, KIAA0049, 1A1-3B
17	NBR1	ENSG00000188554	ENST00000389312	protein_coding	KNOWN	None	6746	2901	966	41323246	41363706	1	M17S2	CA125, KIAA0049, 1A1-3B
Y	RBMY2UP	ENSG00000225615	ENST00000453474	unprocessed_pseudogene	KNOWN	None	23898	None	None	24344576	24349859	1	None	None
5	None	ENSG00000264281	ENST00000582508	processed_pseudogene	KNOWN	None	None	None	None	55240484	55240561	1	None	None
5	None	ENSG00000264281	ENST00000597044	processed_pseudogene	KNOWN	None	None	None	None	55240458	55240856	1	None	None
8	ADAM32	ENSG00000197140	ENST00000523400	protein_coding	PUTATIVE	None	15479	518	171	38964509	39008967	1	None	None
8	ADAM32	ENSG00000197140	ENST00000399831	protein_coding	PUTATIVE	None	15479	465	154	38965048	39018478	1	None	None
8	ADAM32	ENSG00000197140	ENST00000437682	protein_coding	PUTATIVE	None	15479	2067	688	38965090	39142428	1	None	None
8	ADAM32	ENSG00000197140	ENST00000519315	protein_coding	NOVEL	None	15479	1890	629	38965127	39142428	1	None	None
8	ADAM32	ENSG00000197140	ENST00000379907	protein_coding	KNOWN	CCDS47846	15479	2364	787	38965168	39142428	1	None	None
8	ADAM32	ENSG00000197140	ENST00000522506	protein_coding	PUTATIVE	None	15479	554	183	38965292	39022311	1	None	None
8	ADAM32	ENSG00000197140	ENST00000521741	protein_coding	PUTATIVE	None	15479	161	52	38965475	39008925	1	None	None
8	ADAM32	ENSG00000197140	ENST00000518259	retained_intron	KNOWN	None	15479	None	None	38975641	39081674	1	None	None
8	ADAM32	ENSG00000197140	ENST00000520691	retained_intron	KNOWN	None	15479	None	None	39078454	39142428	1	None	None
8	ADAM32	ENSG00000197140	ENST00000524303	processed_transcript	KNOWN	None	15479	None	None	39128394	39142430	1	None	None
8	ADAM32	ENSG00000197140	ENST00000517416	retained_intron	KNOWN	None	15479	None	None	39128395	39133816	1	None	None
5	None	ENSG00000248473	ENST00000513771	lincRNA	KNOWN	None	None	None	None	180618046	180618852	-1	None	None
Y	RBMY1KP	ENSG00000229234	ENST00000423480	unprocessed_pseudogene	KNOWN	None	38750	None	None	24355478	24362727	1	None	RBMY1K
19	ZNF865	ENSG00000261221	ENST00000568956	protein_coding	NOVEL	CCDS58681	38705	3180	1059	56116771	56128635	1	None	None
5	None	ENSG00000227908	ENST00000500093	antisense	KNOWN	None	None	None	None	55290995	55299477	1	None	None
5	None	ENSG00000250222	ENST00000514487	antisense	KNOWN	None	None	None	None	180618924	180621429	1	None	None
5	None	ENSG00000250222	ENST00000508877	antisense	KNOWN	None	None	None	None	180619070	180621428	1	None	None
Y	TTTY5	ENSG00000215560	ENST00000400581	lincRNA	KNOWN	None	16482	None	None	24442945	24445023	-1	None	TTY5, LINC00126
7	MCM7	ENSG00000166508	ENST00000489841	retained_intron	KNOWN	None	6950	None	None	99690351	99698993	-1	MCM2	CDC47
7	MCM7	ENSG00000166508	ENST00000343023	protein_coding	KNOWN	None	6950	1170	389	99690403	99699563	-1	MCM2	CDC47
7	MCM7	ENSG00000166508	ENST00000485286	retained_intron	KNOWN	None	6950	None	None	99690404	99698380	-1	MCM2	CDC47
7	MCM7	ENSG00000166508	ENST00000303887	protein_coding	KNOWN	CCDS5683	6950	2160	719	99690404	99699563	-1	MCM2	CDC47
7	MCM7	ENSG00000166508	ENST00000491245	nonsense_mediated_decay	KNOWN	None	6950	251	82	99690915	99697360	-1	MCM2	CDC47
7	MCM7	ENSG00000166508	ENST00000493352	retained_intron	KNOWN	None	6950	None	None	99690939	99693287	-1	MCM2	CDC47
7	MCM7	ENSG00000166508	ENST00000477372	retained_intron	KNOWN	None	6950	None	None	99695236	99696968	-1	MCM2	CDC47
7	MCM7	ENSG00000166508	ENST00000463722	retained_intron	KNOWN	None	6950	None	None	99695682	99699032	-1	MCM2	CDC47
7	MCM7	ENSG00000166508	ENST00000425308	protein_coding	PUTATIVE	None	6950	550	182	99695763	99698492	-1	MCM2	CDC47
7	MCM7	ENSG00000166508	ENST00000467516	retained_intron	KNOWN	None	6950	None	None	99696942	99698096	-1	MCM2	CDC47
7	MCM7	ENSG00000166508	ENST00000465688	retained_intron	KNOWN	None	6950	None	None	99697087	99698933	-1	MCM2	CDC47
7	MCM7	ENSG00000166508	ENST00000465738	retained_intron	KNOWN	None	6950	None	None	99697309	99698016	-1	MCM2	CDC47
7	MCM7	ENSG00000166508	ENST00000354230	protein_coding	KNOWN	CCDS5684	6950	1632	543	99690404	99698380	-1	MCM2	CDC47
HSCHR6_MHC_DBB	RING1	ENSG00000228520	ENST00000430233	protein_coding	KNOWN	None	10018	1221	406	33154182	33158409	1	None	RNF1
HSCHR6_MHC_DBB	RING1	ENSG00000228520	ENST00000482708	processed_transcript	PUTATIVE	None	10018	None	None	33155247	33158409	1	None	RNF1
5	None	ENSG00000238326	ENST00000459441	snoRNA	NOVEL	None	None	None	None	55296346	55296449	-1	None	None
19	LIM2	ENSG00000105370	ENST00000221973	protein_coding	KNOWN	CCDS12831	6610	648	215	51883163	51891209	-1	None	MP19, MP17
19	LIM2	ENSG00000105370	ENST00000596399	protein_coding	KNOWN	CCDS59415	6610	522	173	51883164	51891214	-1	None	MP19, MP17
Y	TSPY22P	ENSG00000229940	ENST00000427496	unprocessed_pseudogene	KNOWN	None	38522	None	None	24452072	24454098	-1	None	None
7	SLC29A4	ENSG00000164638	ENST00000434816	protein_coding	KNOWN	None	23097	489	162	5314000	5331397	1	None	FLJ34923, ENT4
7	SLC29A4	ENSG00000164638	ENST00000396872	protein_coding	KNOWN	CCDS5340	23097	1593	530	5322561	5343696	1	None	FLJ34923, ENT4
7	SLC29A4	ENSG00000164638	ENST00000444741	protein_coding	NOVEL	None	23097	453	150	5322593	5331398	1	None	FLJ34923, ENT4
7	SLC29A4	ENSG00000164638	ENST00000297195	protein_coding	KNOWN	CCDS5340	23097	1593	530	5322600	5343691	1	None	FLJ34923, ENT4
7	SLC29A4	ENSG00000164638	ENST00000406453	protein_coding	NOVEL	None	23097	1551	516	5322660	5343691	1	None	FLJ34923, ENT4
7	SLC29A4	ENSG00000164638	ENST00000439491	processed_transcript	KNOWN	None	23097	None	None	5338960	5343311	1	None	FLJ34923, ENT4
5	None	ENSG00000249236	ENST00000511861	lincRNA	KNOWN	None	None	None	None	55354877	55363199	1	None	None
19	ZNF784	ENSG00000179922	ENST00000325351	protein_coding	KNOWN	CCDS12930	33111	972	323	56132108	56135967	-1	None	MGC75238
19	ZNF784	ENSG00000179922	ENST00000591479	protein_coding	NOVEL	None	33111	129	42	56132572	56135932	-1	None	MGC75238
16	None	ENSG00000260311	ENST00000570183	lincRNA	KNOWN	None	None	None	None	32675246	32677854	1	None	None
16	None	ENSG00000260311	ENST00000570084	lincRNA	KNOWN	None	None	None	None	32676974	32677854	1	None	None
5	RNU6-299P	ENSG00000253032	ENST00000517223	snRNA	KNOWN	None	47262	None	None	55421498	55421597	1	None	None
5	RPL17P22	ENSG00000243592	ENST00000467688	processed_pseudogene	KNOWN	None	35761	None	None	55432806	55433358	1	None	None
Y	RBMY2FP	ENSG00000243040	ENST00000303922	processed_transcript	KNOWN	None	23891	None	None	24455006	24462352	1	None	MGC26641
Y	RBMY2FP	ENSG00000243040	ENST00000420346	transcribed_unprocessed_pseudogene	KNOWN	None	23891	None	None	24457011	24467972	1	None	MGC26641
5	RNA5SP184	ENSG00000223003	ENST00000411071	rRNA	KNOWN	None	43084	None	None	55442566	55442673	-1	RN5S184	None
5	None	ENSG00000251435	ENST00000510813	processed_pseudogene	KNOWN	None	None	None	None	55488357	55489460	1	None	None
4	ELF2	ENSG00000109381	ENST00000515489	processed_transcript	PUTATIVE	None	3317	None	None	139949266	139981749	-1	None	EU32, NERF, NERF-2, NERF-1A, NERF-1B
4	ELF2	ENSG00000109381	ENST00000394235	protein_coding	KNOWN	CCDS3744	3317	1746	581	139978374	140098372	-1	None	EU32, NERF, NERF-2, NERF-1A, NERF-1B
4	ELF2	ENSG00000109381	ENST00000358635	protein_coding	KNOWN	CCDS3745	3317	1602	533	139979009	140005650	-1	None	EU32, NERF, NERF-2, NERF-1A, NERF-1B
4	ELF2	ENSG00000109381	ENST00000510408	protein_coding	PUTATIVE	None	3317	1566	521	139979873	140005479	-1	None	EU32, NERF, NERF-2, NERF-1A, NERF-1B
4	ELF2	ENSG00000109381	ENST00000420916	protein_coding	PUTATIVE	None	3317	735	244	139981633	140005491	-1	None	EU32, NERF, NERF-2, NERF-1A, NERF-1B
4	ELF2	ENSG00000109381	ENST00000512627	protein_coding	PUTATIVE	None	3317	577	191	139981755	140005378	-1	None	EU32, NERF, NERF-2, NERF-1A, NERF-1B
4	ELF2	ENSG00000109381	ENST00000514577	retained_intron	KNOWN	None	3317	None	None	139983021	139994873	-1	None	EU32, NERF, NERF-2, NERF-1A, NERF-1B
4	ELF2	ENSG00000109381	ENST00000504314	retained_intron	KNOWN	None	3317	None	None	139983091	139993374	-1	None	EU32, NERF, NERF-2, NERF-1A, NERF-1B
4	ELF2	ENSG00000109381	ENST00000514606	retained_intron	KNOWN	None	3317	None	None	139987164	140005492	-1	None	EU32, NERF, NERF-2, NERF-1A, NERF-1B
4	ELF2	ENSG00000109381	ENST00000511184	nonsense_mediated_decay	KNOWN	None	3317	282	93	140022745	140098353	-1	None	EU32, NERF, NERF-2, NERF-1A, NERF-1B
4	ELF2	ENSG00000109381	ENST00000511006	retained_intron	KNOWN	None	3317	None	None	140057925	140098372	-1	None	EU32, NERF, NERF-2, NERF-1A, NERF-1B
4	ELF2	ENSG00000109381	ENST00000379550	protein_coding	KNOWN	None	3317	1782	593	139978871	140060606	-1	None	EU32, NERF, NERF-2, NERF-1A, NERF-1B
4	ELF2	ENSG00000109381	ENST00000265495	protein_coding	KNOWN	CCDS3744	3317	1746	581	139978871	140060606	-1	None	EU32, NERF, NERF-2, NERF-1A, NERF-1B
4	ELF2	ENSG00000109381	ENST00000379549	protein_coding	KNOWN	None	3317	1515	504	139978871	140005344	-1	None	EU32, NERF, NERF-2, NERF-1A, NERF-1B
5	RNA5SP185	ENSG00000212265	ENST00000390963	rRNA	KNOWN	None	43085	None	None	55556160	55556273	-1	RN5S185	None
19	ZNF283	ENSG00000167637	ENST00000324461	protein_coding	KNOWN	CCDS46097	13077	2040	679	44331444	44353307	1	None	None
19	ZNF283	ENSG00000167637	ENST00000591203	retained_intron	KNOWN	None	13077	None	None	44331507	44338004	1	None	None
19	ZNF283	ENSG00000167637	ENST00000588797	protein_coding	PUTATIVE	None	13077	1623	540	44331526	44353050	1	None	None
19	ZNF283	ENSG00000167637	ENST00000586976	processed_transcript	KNOWN	None	13077	None	None	44331547	44345627	1	None	None
19	ZNF283	ENSG00000167637	ENST00000590950	protein_coding	PUTATIVE	None	13077	240	79	44331576	44345170	1	None	None
19	ZNF283	ENSG00000167637	ENST00000593268	protein_coding	PUTATIVE	None	13077	324	107	44332348	44344927	1	None	None
19	ZNF283	ENSG00000167637	ENST00000588967	protein_coding	PUTATIVE	None	13077	136	44	44332351	44341331	1	None	None
19	ZNF283	ENSG00000167637	ENST00000593164	protein_coding	PUTATIVE	None	13077	285	94	44332354	44342232	1	None	None
19	ZNF283	ENSG00000167637	ENST00000310738	protein_coding	KNOWN	None	13077	252	83	44332354	44342232	1	None	None
HSCHR6_MHC_COX	HLA-B	ENSG00000223532	ENST00000472294	retained_intron	KNOWN	None	4932	None	None	31312134	31313068	-1	AS	None
HSCHR6_MHC_COX	HLA-B	ENSG00000223532	ENST00000473379	retained_intron	KNOWN	None	4932	None	None	31312134	31313338	-1	AS	None
HSCHR6_MHC_COX	HLA-B	ENSG00000223532	ENST00000416726	protein_coding	KNOWN	None	4932	725	240	31312134	31314663	-1	AS	None
HSCHR6_MHC_COX	HLA-B	ENSG00000223532	ENST00000425848	protein_coding	KNOWN	None	4932	1089	362	31312134	31315506	-1	AS	None
HSCHR6_MHC_COX	HLA-B	ENSG00000223532	ENST00000490676	retained_intron	KNOWN	None	4932	None	None	31313384	31314062	-1	AS	None
HSCHR6_MHC_COX	HLA-B	ENSG00000223532	ENST00000461583	nonsense_mediated_decay	KNOWN	None	4932	675	224	31313444	31315421	-1	AS	None
HSCHR6_MHC_COX	HLA-B	ENSG00000223532	ENST00000470915	retained_intron	KNOWN	None	4932	None	None	31313653	31315440	-1	AS	None
HSCHR6_MHC_COX	HLA-B	ENSG00000223532	ENST00000445222	protein_coding	KNOWN	None	4932	738	245	31313769	31315449	-1	AS	None
Y	TTTY25P	ENSG00000259247	ENST00000558356	unprocessed_pseudogene	KNOWN	None	38524	None	None	24476599	24478647	1	None	None
1	VAMP4	ENSG00000117533	ENST00000236192	protein_coding	KNOWN	CCDS1298	12645	426	141	171669300	171711387	-1	None	None
1	VAMP4	ENSG00000117533	ENST00000474047	nonsense_mediated_decay	KNOWN	CCDS1298	12645	426	141	171670232	171711200	-1	None	None
1	VAMP4	ENSG00000117533	ENST00000367740	protein_coding	KNOWN	CCDS53430	12645	423	140	171673090	171711214	-1	None	None
1	VAMP4	ENSG00000117533	ENST00000482519	processed_transcript	KNOWN	None	12645	None	None	171673645	171711205	-1	None	None
1	VAMP4	ENSG00000117533	ENST00000415773	protein_coding	KNOWN	CCDS53430	12645	423	140	171669312	171711202	-1	None	None
5	None	ENSG00000250900	ENST00000512508	antisense	KNOWN	None	None	None	None	180622496	180626977	1	None	None
5	None	ENSG00000250900	ENST00000509080	antisense	KNOWN	None	None	None	None	180625200	180630103	1	None	None
5	None	ENSG00000250900	ENST00000502812	antisense	KNOWN	None	None	None	None	180625202	180630100	1	None	None
5	None	ENSG00000250900	ENST00000511517	antisense	KNOWN	None	None	None	None	180626368	180630101	1	None	None
5	None	ENSG00000250900	ENST00000419707	antisense	KNOWN	None	None	None	None	180626373	180629305	1	None	None
5	None	ENSG00000250900	ENST00000514784	antisense	KNOWN	None	None	None	None	180627913	180630103	1	None	None
6	BMPR1APS1	ENSG00000219642	ENST00000403332	processed_pseudogene	KNOWN	None	21742	None	None	129478668	129480265	-1	None	None
Y	TSPY21P	ENSG00000237902	ENST00000433481	unprocessed_pseudogene	KNOWN	None	38101	None	None	24546550	24548715	-1	None	None
1	CDC14A	ENSG00000079335	ENST00000455467	protein_coding	KNOWN	None	1718	818	271	100817290	100928414	1	None	Cdc14A1, Cdc14A2, cdc14
1	CDC14A	ENSG00000079335	ENST00000361544	protein_coding	KNOWN	CCDS770	1718	1872	623	100818047	100965016	1	None	Cdc14A1, Cdc14A2, cdc14
1	CDC14A	ENSG00000079335	ENST00000370124	protein_coding	KNOWN	CCDS771	1718	1152	383	100818058	100950300	1	None	Cdc14A1, Cdc14A2, cdc14
1	CDC14A	ENSG00000079335	ENST00000336454	protein_coding	KNOWN	CCDS769	1718	1785	594	100818156	100985833	1	None	Cdc14A1, Cdc14A2, cdc14
1	CDC14A	ENSG00000079335	ENST00000469387	processed_transcript	KNOWN	None	1718	None	None	100889288	100908670	1	None	Cdc14A1, Cdc14A2, cdc14
1	CDC14A	ENSG00000079335	ENST00000544534	protein_coding	KNOWN	None	1718	1833	610	100818505	100983849	1	None	Cdc14A1, Cdc14A2, cdc14
1	CDC14A	ENSG00000079335	ENST00000370125	protein_coding	KNOWN	None	1718	576	191	100818023	100985832	1	None	Cdc14A1, Cdc14A2, cdc14
1	CDC14A	ENSG00000079335	ENST00000542213	protein_coding	KNOWN	None	1718	1698	565	100810584	100965021	1	None	Cdc14A1, Cdc14A2, cdc14
Y	None	ENSG00000235059	ENST00000446299	lincRNA	KNOWN	None	None	None	None	24585087	24630861	1	None	None
Y	None	ENSG00000235059	ENST00000439653	lincRNA	KNOWN	None	None	None	None	24626684	24631739	1	None	None
6	NUFIP1P	ENSG00000218890	ENST00000402902	processed_pseudogene	KNOWN	None	8058	None	None	66803324	66804802	-1	None	None
6	None	ENSG00000221281	ENST00000408354	miRNA	NOVEL	None	None	None	None	67069318	67069392	1	None	None
6	None	ENSG00000270521	ENST00000605180	processed_pseudogene	KNOWN	None	None	None	None	67420135	67420720	-1	None	None
6	ATF6B	ENSG00000213676	ENST00000494022	processed_transcript	KNOWN	None	2349	None	None	32065953	32085387	-1	CREBL1	G13
6	ATF6B	ENSG00000213676	ENST00000375203	protein_coding	KNOWN	CCDS4737	2349	2112	703	32083041	32096017	-1	CREBL1	G13
6	ATF6B	ENSG00000213676	ENST00000375201	protein_coding	KNOWN	CCDS47408	2349	2103	700	32083041	32096030	-1	CREBL1	G13
6	ATF6B	ENSG00000213676	ENST00000453203	protein_coding	KNOWN	None	2349	425	140	32084485	32085668	-1	CREBL1	G13
6	ATF6B	ENSG00000213676	ENST00000475705	retained_intron	KNOWN	None	2349	None	None	32086554	32087796	-1	CREBL1	G13
6	ATF6B	ENSG00000213676	ENST00000492342	retained_intron	KNOWN	None	2349	None	None	32086608	32088197	-1	CREBL1	G13
6	ATF6B	ENSG00000213676	ENST00000495579	retained_intron	KNOWN	None	2349	None	None	32088219	32095999	-1	CREBL1	G13
6	ATF6B	ENSG00000213676	ENST00000485314	retained_intron	KNOWN	None	2349	None	None	32088286	32095544	-1	CREBL1	G13
6	ATF6B	ENSG00000213676	ENST00000468502	processed_transcript	KNOWN	None	2349	None	None	32093819	32095995	-1	CREBL1	G13
4	FAM198B	ENSG00000164125	ENST00000585682	protein_coding	KNOWN	CCDS3798	25312	1560	519	159045626	159094202	-1	C4orf18	FLJ38155, DKFZp434L142
4	FAM198B	ENSG00000164125	ENST00000296530	protein_coding	KNOWN	CCDS3798	25312	1560	519	159045756	159093888	-1	C4orf18	FLJ38155, DKFZp434L142
4	FAM198B	ENSG00000164125	ENST00000393807	protein_coding	KNOWN	CCDS34087	25312	1584	527	159046006	159094202	-1	C4orf18	FLJ38155, DKFZp434L142
4	FAM198B	ENSG00000164125	ENST00000590648	protein_coding	PUTATIVE	None	25312	563	186	159048674	159080833	-1	C4orf18	FLJ38155, DKFZp434L142
4	FAM198B	ENSG00000164125	ENST00000592586	protein_coding	PUTATIVE	None	25312	324	107	159048697	159088364	-1	C4orf18	FLJ38155, DKFZp434L142
4	FAM198B	ENSG00000164125	ENST00000593260	protein_coding	NOVEL	None	25312	574	190	159051938	159091530	-1	C4orf18	FLJ38155, DKFZp434L142
4	FAM198B	ENSG00000164125	ENST00000589306	processed_transcript	PUTATIVE	None	25312	None	None	159051952	159094175	-1	C4orf18	FLJ38155, DKFZp434L142
4	FAM198B	ENSG00000164125	ENST00000592057	protein_coding	KNOWN	None	25312	996	331	159089506	159094198	-1	C4orf18	FLJ38155, DKFZp434L142
4	FAM198B	ENSG00000164125	ENST00000587787	protein_coding	KNOWN	None	25312	27	8	159092501	159094470	-1	C4orf18	FLJ38155, DKFZp434L142
8	BOP1	ENSG00000170727	ENST00000307404	protein_coding	KNOWN	CCDS6418	15519	2241	746	145486055	145515082	-1	None	KIAA0124
8	BOP1	ENSG00000170727	ENST00000526471	retained_intron	KNOWN	None	15519	None	None	145486966	145488018	-1	None	KIAA0124
8	BOP1	ENSG00000170727	ENST00000529245	processed_transcript	PUTATIVE	None	15519	None	None	145487474	145488126	-1	None	KIAA0124
8	BOP1	ENSG00000170727	ENST00000526552	protein_coding	NOVEL	None	15519	937	311	145487963	145515055	-1	None	KIAA0124
8	BOP1	ENSG00000170727	ENST00000530355	protein_coding	NOVEL	None	15519	277	91	145488390	145498035	-1	None	KIAA0124
8	BOP1	ENSG00000170727	ENST00000525016	processed_transcript	PUTATIVE	None	15519	None	None	145488533	145489448	-1	None	KIAA0124
8	BOP1	ENSG00000170727	ENST00000529231	protein_coding	PUTATIVE	None	15519	399	132	145488637	145515072	-1	None	KIAA0124
8	BOP1	ENSG00000170727	ENST00000524861	processed_transcript	PUTATIVE	None	15519	None	None	145488937	145489891	-1	None	KIAA0124
8	BOP1	ENSG00000170727	ENST00000533125	processed_transcript	PUTATIVE	None	15519	None	None	145505447	145515049	-1	None	KIAA0124
6	RNU7-66P	ENSG00000238949	ENST00000459469	snRNA	KNOWN	None	34162	None	None	67438736	67438797	-1	None	U7.66
6	None	ENSG00000266073	ENST00000581695	miRNA	NOVEL	None	None	None	None	67859402	67859492	-1	None	None
6	None	ENSG00000212229	ENST00000390927	snoRNA	NOVEL	None	None	None	None	67920301	67920373	-1	None	None
19	None	ENSG00000267808	ENST00000601315	lincRNA	KNOWN	None	None	None	None	52102542	52103723	1	None	None
14	GALC	ENSG00000054983	ENST00000555000	nonsense_mediated_decay	KNOWN	None	4115	1305	434	88304164	88446992	-1	None	None
14	GALC	ENSG00000054983	ENST00000261304	protein_coding	KNOWN	CCDS9878	4115	2058	685	88399358	88459615	-1	None	None
14	GALC	ENSG00000054983	ENST00000544807	protein_coding	KNOWN	None	4115	1770	589	88400067	88459182	-1	None	None
14	GALC	ENSG00000054983	ENST00000393569	protein_coding	KNOWN	CCDS55937	4115	1980	659	88400675	88460009	-1	None	None
14	GALC	ENSG00000054983	ENST00000393568	protein_coding	KNOWN	CCDS55936	4115	1989	662	88401025	88459522	-1	None	None
14	GALC	ENSG00000054983	ENST00000555179	nonsense_mediated_decay	KNOWN	None	4115	217	71	88401116	88416243	-1	None	None
14	GALC	ENSG00000054983	ENST00000557316	nonsense_mediated_decay	KNOWN	None	4115	636	211	88407739	88459514	-1	None	None
14	GALC	ENSG00000054983	ENST00000557520	processed_transcript	PUTATIVE	None	4115	None	None	88425897	88431967	-1	None	None
14	GALC	ENSG00000054983	ENST00000474294	retained_intron	KNOWN	None	4115	None	None	88429616	88459498	-1	None	None
14	GALC	ENSG00000054983	ENST00000477716	retained_intron	KNOWN	None	4115	None	None	88434737	88443208	-1	None	None
14	GALC	ENSG00000054983	ENST00000554916	processed_transcript	KNOWN	None	4115	None	None	88442702	88455991	-1	None	None
14	GALC	ENSG00000054983	ENST00000556261	processed_transcript	KNOWN	None	4115	None	None	88447547	88454516	-1	None	None
14	GALC	ENSG00000054983	ENST00000554372	nonsense_mediated_decay	KNOWN	None	4115	339	112	88448549	88459516	-1	None	None
14	GALC	ENSG00000054983	ENST00000556879	nonsense_mediated_decay	KNOWN	None	4115	189	62	88450785	88459466	-1	None	None
14	GALC	ENSG00000054983	ENST00000555956	retained_intron	KNOWN	None	4115	None	None	88454096	88454867	-1	None	None
19	RPL9P33	ENSG00000244071	ENST00000484311	processed_pseudogene	KNOWN	None	36273	None	None	52124389	52124954	1	None	None
Y	TTTY6	ENSG00000131538	ENST00000253838	lincRNA	KNOWN	None	16483	None	None	24585740	24587605	-1	None	TTY6, TTTY6A, LINC00127
Y	TTTY6	ENSG00000131538	ENST00000538537	lincRNA	KNOWN	None	16483	None	None	24585887	24587549	-1	None	TTY6, TTTY6A, LINC00127
16	DPEP1	ENSG00000015413	ENST00000570029	protein_coding	KNOWN	None	3002	322	106	89679716	89702756	1	None	None
16	DPEP1	ENSG00000015413	ENST00000565249	retained_intron	KNOWN	None	3002	None	None	89679957	89703937	1	None	None
16	DPEP1	ENSG00000015413	ENST00000564281	retained_intron	KNOWN	None	3002	None	None	89680081	89704806	1	None	None
16	DPEP1	ENSG00000015413	ENST00000568281	protein_coding	KNOWN	None	3002	334	110	89683281	89702768	1	None	None
16	DPEP1	ENSG00000015413	ENST00000393092	protein_coding	KNOWN	CCDS10982	3002	1236	411	89687000	89704837	1	None	None
16	DPEP1	ENSG00000015413	ENST00000561484	retained_intron	KNOWN	None	3002	None	None	89692866	89702587	1	None	None
16	DPEP1	ENSG00000015413	ENST00000261615	protein_coding	KNOWN	CCDS10982	3002	1236	411	89696697	89704839	1	None	None
16	DPEP1	ENSG00000015413	ENST00000564645	retained_intron	KNOWN	None	3002	None	None	89703984	89704703	1	None	None
16	DPEP1	ENSG00000015413	ENST00000421184	protein_coding	KNOWN	CCDS10982	3002	1236	411	89679716	89704838	1	None	None
HSCHR6_MHC_COX	HCG25	ENSG00000224096	ENST00000425999	processed_transcript	KNOWN	None	20196	None	None	33138933	33144343	1	None	dJ1033B10.16
HSCHR6_MHC_COX	HCG25	ENSG00000224096	ENST00000452295	processed_transcript	KNOWN	None	20196	None	None	33138983	33141338	1	None	dJ1033B10.16
HSCHR6_MHC_COX	HCG25	ENSG00000224096	ENST00000435652	processed_transcript	KNOWN	None	20196	None	None	33138995	33144388	1	None	dJ1033B10.16
HSCHR6_MHC_COX	HCG25	ENSG00000224096	ENST00000426711	processed_transcript	KNOWN	None	20196	None	None	33139678	33141034	1	None	dJ1033B10.16
10	PDCD4	ENSG00000150593	ENST00000280154	protein_coding	KNOWN	CCDS7567	8763	1410	469	112631565	112659764	1	None	H731
10	PDCD4	ENSG00000150593	ENST00000467574	processed_transcript	KNOWN	None	8763	None	None	112631651	112647519	1	None	H731
10	PDCD4	ENSG00000150593	ENST00000483670	processed_transcript	KNOWN	None	8763	None	None	112631677	112645097	1	None	H731
10	PDCD4	ENSG00000150593	ENST00000444997	protein_coding	KNOWN	None	8763	693	230	112631713	112647602	1	None	H731
10	PDCD4	ENSG00000150593	ENST00000492932	processed_transcript	KNOWN	None	8763	None	None	112640077	112647556	1	None	H731
10	PDCD4	ENSG00000150593	ENST00000481353	processed_transcript	KNOWN	None	8763	None	None	112644529	112653937	1	None	H731
10	PDCD4	ENSG00000150593	ENST00000462577	processed_transcript	KNOWN	None	8763	None	None	112645011	112657880	1	None	H731
10	PDCD4	ENSG00000150593	ENST00000489049	processed_transcript	KNOWN	None	8763	None	None	112647511	112650628	1	None	H731
10	PDCD4	ENSG00000150593	ENST00000483595	processed_transcript	KNOWN	None	8763	None	None	112647531	112655801	1	None	H731
10	PDCD4	ENSG00000150593	ENST00000498367	processed_transcript	KNOWN	None	8763	None	None	112650396	112658476	1	None	H731
10	PDCD4	ENSG00000150593	ENST00000393104	protein_coding	KNOWN	CCDS44478	8763	1377	458	112631596	112659763	1	None	H731
11	BIRC3	ENSG00000023445	ENST00000526421	processed_transcript	KNOWN	None	591	None	None	102188215	102192973	1	API2	cIAP2, hiap-1, MIHC, RNF49, MALT2, c-IAP2
11	BIRC3	ENSG00000023445	ENST00000263464	protein_coding	KNOWN	CCDS8315	591	1815	604	102188226	102208465	1	API2	cIAP2, hiap-1, MIHC, RNF49, MALT2, c-IAP2
11	BIRC3	ENSG00000023445	ENST00000528940	processed_transcript	KNOWN	None	591	None	None	102188233	102192859	1	API2	cIAP2, hiap-1, MIHC, RNF49, MALT2, c-IAP2
11	BIRC3	ENSG00000023445	ENST00000532808	protein_coding	KNOWN	CCDS8315	591	1815	604	102188294	102210134	1	API2	cIAP2, hiap-1, MIHC, RNF49, MALT2, c-IAP2
11	BIRC3	ENSG00000023445	ENST00000527309	protein_coding	NOVEL	None	591	549	182	102195952	102201785	1	API2	cIAP2, hiap-1, MIHC, RNF49, MALT2, c-IAP2
11	BIRC3	ENSG00000023445	ENST00000527336	retained_intron	KNOWN	None	591	None	None	102207252	102208022	1	API2	cIAP2, hiap-1, MIHC, RNF49, MALT2, c-IAP2
19	RPL7P51	ENSG00000243469	ENST00000490532	processed_pseudogene	KNOWN	None	36432	None	None	52152115	52152863	1	None	None
3	EIF1B	ENSG00000114784	ENST00000232905	protein_coding	KNOWN	CCDS2690	30792	342	113	40351175	40353915	1	None	GC20
3	EIF1B	ENSG00000114784	ENST00000462088	retained_intron	KNOWN	None	30792	None	None	40351213	40353005	1	None	GC20
3	EIF1B	ENSG00000114784	ENST00000488260	retained_intron	KNOWN	None	30792	None	None	40351317	40353286	1	None	GC20
3	EIF1B	ENSG00000114784	ENST00000487151	retained_intron	KNOWN	None	30792	None	None	40352119	40353163	1	None	GC20
19	None	ENSG00000238486	ENST00000459165	snoRNA	NOVEL	None	None	None	None	52172658	52172761	1	None	None
12	P2RX2	ENSG00000187848	ENST00000389110	protein_coding	KNOWN	CCDS31931	15459	1416	471	133195366	133198972	1	DFNA41	P2X2
12	P2RX2	ENSG00000187848	ENST00000449132	protein_coding	KNOWN	None	15459	1113	370	133195403	133198558	1	DFNA41	P2X2
12	P2RX2	ENSG00000187848	ENST00000343948	protein_coding	KNOWN	CCDS31930	15459	1494	497	133195403	133198558	1	DFNA41	P2X2
12	P2RX2	ENSG00000187848	ENST00000352418	protein_coding	KNOWN	CCDS31934	15459	1200	399	133195403	133198558	1	DFNA41	P2X2
12	P2RX2	ENSG00000187848	ENST00000350048	protein_coding	KNOWN	CCDS31933	15459	1344	447	133195403	133198558	1	DFNA41	P2X2
12	P2RX2	ENSG00000187848	ENST00000351222	protein_coding	KNOWN	CCDS31935	15459	1140	379	133195403	133198558	1	DFNA41	P2X2
12	P2RX2	ENSG00000187848	ENST00000348800	protein_coding	KNOWN	CCDS31932	15459	1215	404	133195403	133198565	1	DFNA41	P2X2
12	P2RX2	ENSG00000187848	ENST00000542301	protein_coding	PUTATIVE	None	15459	668	221	133195407	133196934	1	DFNA41	P2X2
12	P2RX2	ENSG00000187848	ENST00000536121	protein_coding	PUTATIVE	None	15459	593	196	133195427	133196934	1	DFNA41	P2X2
12	P2RX2	ENSG00000187848	ENST00000535910	protein_coding	PUTATIVE	None	15459	503	166	133195985	133196934	1	DFNA41	P2X2
19	None	ENSG00000269959	ENST00000602324	antisense	KNOWN	None	None	None	None	52188616	52196709	-1	None	None
Y	TCEB1P8	ENSG00000234131	ENST00000439309	processed_pseudogene	KNOWN	None	38144	None	None	24663389	24663720	-1	None	None
3	PCNP	ENSG00000081154	ENST00000265260	protein_coding	KNOWN	CCDS2942	30023	537	178	101292939	101313281	1	None	None
3	PCNP	ENSG00000081154	ENST00000498274	nonsense_mediated_decay	KNOWN	None	30023	123	40	101293030	101311615	1	None	None
3	PCNP	ENSG00000081154	ENST00000460231	nonsense_mediated_decay	KNOWN	None	30023	174	57	101293034	101313251	1	None	None
3	PCNP	ENSG00000081154	ENST00000469941	protein_coding	PUTATIVE	None	30023	168	55	101293038	101313281	1	None	None
3	PCNP	ENSG00000081154	ENST00000486406	processed_transcript	KNOWN	None	30023	None	None	101293063	101312095	1	None	None
3	PCNP	ENSG00000081154	ENST00000470490	processed_transcript	KNOWN	None	30023	None	None	101293685	101311620	1	None	None
3	PCNP	ENSG00000081154	ENST00000465366	retained_intron	KNOWN	None	30023	None	None	101308593	101311719	1	None	None
3	PCNP	ENSG00000081154	ENST00000296024	protein_coding	KNOWN	None	30023	393	130	101293040	101313279	1	None	None
Y	CDY13P	ENSG00000224873	ENST00000445813	unprocessed_pseudogene	KNOWN	None	23857	None	None	24666828	24667842	-1	None	None
19	MIR99B	ENSG00000207550	ENST00000384819	miRNA	KNOWN	None	31651	None	None	52195865	52195934	1	MIRN99B	hsa-mir-99b
16	None	ENSG00000269881	ENST00000600536	protein_coding	PUTATIVE	None	None	1596	531	299546	319942	1	None	None
HSCHR6_MHC_MCF	STK19P	ENSG00000230354	ENST00000439521	unprocessed_pseudogene	KNOWN	None	21668	None	None	32057494	32058011	1	None	bPG116M5.10, RP2
19	MIRLET7E	ENSG00000198972	ENST00000362102	miRNA	KNOWN	None	31482	None	None	52196039	52196117	1	MIRNLET7E	hsa-let-7e
2	HS6ST1	ENSG00000136720	ENST00000469019	processed_transcript	PUTATIVE	None	5201	None	None	128994290	129075970	-1	HS6ST	None
2	HS6ST1	ENSG00000136720	ENST00000259241	protein_coding	KNOWN	CCDS42748	5201	1236	411	129023054	129076151	-1	HS6ST	None
2	HS6ST1	ENSG00000136720	ENST00000463963	processed_transcript	PUTATIVE	None	5201	None	None	129026264	129047770	-1	HS6ST	None
2	HS6ST1	ENSG00000136720	ENST00000494089	processed_transcript	PUTATIVE	None	5201	None	None	129047219	129076046	-1	HS6ST	None
16	None	ENSG00000212582	ENST00000391280	misc_RNA	NOVEL	None	None	None	None	53284742	53284835	-1	None	None
7	NDUFA5	ENSG00000128609	ENST00000471770	protein_coding	PUTATIVE	None	7688	351	116	123177051	123197834	-1	None	B13, NUFM, CI-13KD-B, UQOR13, CI-13kB
7	NDUFA5	ENSG00000128609	ENST00000355749	protein_coding	KNOWN	CCDS5788	7688	351	116	123181083	123198309	-1	None	B13, NUFM, CI-13KD-B, UQOR13, CI-13kB
7	NDUFA5	ENSG00000128609	ENST00000378795	protein_coding	PUTATIVE	None	7688	337	111	123181150	123197509	-1	None	B13, NUFM, CI-13KD-B, UQOR13, CI-13kB
7	NDUFA5	ENSG00000128609	ENST00000459880	retained_intron	KNOWN	None	7688	None	None	123181891	123185879	-1	None	B13, NUFM, CI-13KD-B, UQOR13, CI-13kB
7	NDUFA5	ENSG00000128609	ENST00000466896	nonsense_mediated_decay	KNOWN	None	7688	213	70	123181912	123197855	-1	None	B13, NUFM, CI-13KD-B, UQOR13, CI-13kB
7	NDUFA5	ENSG00000128609	ENST00000467117	processed_transcript	KNOWN	None	7688	None	None	123182055	123197858	-1	None	B13, NUFM, CI-13KD-B, UQOR13, CI-13kB
7	NDUFA5	ENSG00000128609	ENST00000470123	protein_coding	PUTATIVE	None	7688	279	92	123185665	123197733	-1	None	B13, NUFM, CI-13KD-B, UQOR13, CI-13kB
7	NDUFA5	ENSG00000128609	ENST00000492549	retained_intron	KNOWN	None	7688	None	None	123190159	123197872	-1	None	B13, NUFM, CI-13KD-B, UQOR13, CI-13kB
7	NDUFA5	ENSG00000128609	ENST00000491033	retained_intron	KNOWN	None	7688	None	None	123190263	123197858	-1	None	B13, NUFM, CI-13KD-B, UQOR13, CI-13kB
7	NDUFA5	ENSG00000128609	ENST00000490618	retained_intron	KNOWN	None	7688	None	None	123194749	123197876	-1	None	B13, NUFM, CI-13KD-B, UQOR13, CI-13kB
19	MIR125A	ENSG00000208008	ENST00000385273	miRNA	KNOWN	None	31505	None	None	52196507	52196592	1	MIRN125A	hsa-mir-125a
10	DUX4L11	ENSG00000258434	ENST00000553748	unprocessed_pseudogene	KNOWN	None	38687	None	None	135483968	135485231	1	None	None
10	DUX4L11	ENSG00000258434	ENST00000314150	unprocessed_pseudogene	KNOWN	None	38687	None	None	135483662	135488584	1	None	None
HSCHR6_MHC_MCF	C4A-AS1	ENSG00000225540	ENST00000434058	processed_transcript	PUTATIVE	None	39753	None	None	32076954	32080483	-1	None	None
16	None	ENSG00000261056	ENST00000566796	transcribed_processed_pseudogene	KNOWN	None	None	None	None	53332136	53333704	1	None	None
4	SPRY1	ENSG00000164056	ENST00000505319	protein_coding	KNOWN	None	11269	202	66	124317950	124322948	1	None	hSPRY1
4	SPRY1	ENSG00000164056	ENST00000339241	protein_coding	KNOWN	CCDS3731	11269	960	319	124317956	124324907	1	None	hSPRY1
4	SPRY1	ENSG00000164056	ENST00000515726	processed_transcript	KNOWN	None	11269	None	None	124317966	124319492	1	None	hSPRY1
4	SPRY1	ENSG00000164056	ENST00000507703	protein_coding	KNOWN	None	11269	628	208	124319340	124323374	1	None	hSPRY1
4	SPRY1	ENSG00000164056	ENST00000394339	protein_coding	KNOWN	CCDS3731	11269	960	319	124320665	124324910	1	None	hSPRY1
4	SPRY1	ENSG00000164056	ENST00000508849	protein_coding	KNOWN	None	11269	105	34	124321123	124322851	1	None	hSPRY1
3	DHX30	ENSG00000132153	ENST00000472718	retained_intron	KNOWN	None	16716	None	None	47844399	47858462	1	DDX30	KIAA0890, FLJ11214
3	DHX30	ENSG00000132153	ENST00000445061	protein_coding	KNOWN	CCDS2759	16716	3585	1194	47844418	47891683	1	DDX30	KIAA0890, FLJ11214
3	DHX30	ENSG00000132153	ENST00000476446	processed_transcript	KNOWN	None	16716	None	None	47844440	47863800	1	DDX30	KIAA0890, FLJ11214
3	DHX30	ENSG00000132153	ENST00000415400	nonsense_mediated_decay	KNOWN	None	16716	129	42	47844597	47866353	1	DDX30	KIAA0890, FLJ11214
3	DHX30	ENSG00000132153	ENST00000492893	processed_transcript	KNOWN	None	16716	None	None	47844615	47866494	1	DDX30	KIAA0890, FLJ11214
3	DHX30	ENSG00000132153	ENST00000395745	nonsense_mediated_decay	KNOWN	None	16716	129	42	47844624	47891682	1	DDX30	KIAA0890, FLJ11214
3	DHX30	ENSG00000132153	ENST00000441384	nonsense_mediated_decay	KNOWN	None	16716	129	42	47844628	47884169	1	DDX30	KIAA0890, FLJ11214
3	DHX30	ENSG00000132153	ENST00000348968	protein_coding	NOVEL	None	16716	3501	1166	47844655	47891683	1	DDX30	KIAA0890, FLJ11214
3	DHX30	ENSG00000132153	ENST00000457607	protein_coding	NOVEL	None	16716	3669	1222	47866518	47891677	1	DDX30	KIAA0890, FLJ11214
3	DHX30	ENSG00000132153	ENST00000471082	processed_transcript	KNOWN	None	16716	None	None	47867402	47870625	1	DDX30	KIAA0890, FLJ11214
3	DHX30	ENSG00000132153	ENST00000470959	processed_transcript	KNOWN	None	16716	None	None	47868863	47872618	1	DDX30	KIAA0890, FLJ11214
3	DHX30	ENSG00000132153	ENST00000461905	processed_transcript	KNOWN	None	16716	None	None	47886992	47887894	1	DDX30	KIAA0890, FLJ11214
3	DHX30	ENSG00000132153	ENST00000474183	retained_intron	KNOWN	None	16716	None	None	47889267	47890486	1	DDX30	KIAA0890, FLJ11214
3	DHX30	ENSG00000132153	ENST00000446256	protein_coding	KNOWN	None	16716	3468	1155	47844399	47891685	1	DDX30	KIAA0890, FLJ11214
5	None	ENSG00000214853	ENST00000425840	processed_pseudogene	KNOWN	None	None	None	None	84295738	84296113	-1	None	None
16	None	ENSG00000238645	ENST00000459097	snoRNA	NOVEL	None	None	None	None	53368474	53368576	1	None	None
13	None	ENSG00000215549	ENST00000400553	protein_coding	NOVEL	None	None	105	34	26442061	26455095	1	None	None
11	PRDM10	ENSG00000170325	ENST00000358825	protein_coding	KNOWN	CCDS44771	13995	3483	1160	129769601	129872730	-1	None	KIAA1231, PFM7, MGC131802
11	PRDM10	ENSG00000170325	ENST00000304538	protein_coding	KNOWN	CCDS8485	13995	3072	1023	129769610	129817448	-1	None	KIAA1231, PFM7, MGC131802
11	PRDM10	ENSG00000170325	ENST00000360871	protein_coding	KNOWN	CCDS8484	13995	3471	1156	129769610	129872730	-1	None	KIAA1231, PFM7, MGC131802
11	PRDM10	ENSG00000170325	ENST00000423662	protein_coding	KNOWN	CCDS44772	13995	3186	1061	129769612	129817517	-1	None	KIAA1231, PFM7, MGC131802
11	PRDM10	ENSG00000170325	ENST00000528746	protein_coding	NOVEL	None	13995	3354	1117	129769612	129872730	-1	None	KIAA1231, PFM7, MGC131802
11	PRDM10	ENSG00000170325	ENST00000526082	protein_coding	KNOWN	None	13995	3225	1074	129772180	129817356	-1	None	KIAA1231, PFM7, MGC131802
11	PRDM10	ENSG00000170325	ENST00000533431	protein_coding	PUTATIVE	None	13995	2595	864	129772235	129812485	-1	None	KIAA1231, PFM7, MGC131802
11	PRDM10	ENSG00000170325	ENST00000527581	protein_coding	PUTATIVE	None	13995	419	138	129817081	129872699	-1	None	KIAA1231, PFM7, MGC131802
11	PRDM10	ENSG00000170325	ENST00000531431	protein_coding	PUTATIVE	None	13995	346	114	129817951	129872680	-1	None	KIAA1231, PFM7, MGC131802
16	RNA5SP427	ENSG00000202193	ENST00000365323	rRNA	KNOWN	None	43327	None	None	53371365	53371483	1	RN5S427	None
9	CCBL1	ENSG00000171097	ENST00000462722	processed_transcript	KNOWN	None	1564	None	None	131595221	131644315	-1	None	KATI, GTK
9	CCBL1	ENSG00000171097	ENST00000302586	protein_coding	KNOWN	CCDS43884	1564	1269	422	131595392	131644332	-1	None	KATI, GTK
9	CCBL1	ENSG00000171097	ENST00000320665	protein_coding	KNOWN	CCDS48038	1564	1119	372	131595398	131644208	-1	None	KATI, GTK
9	CCBL1	ENSG00000171097	ENST00000483599	processed_transcript	KNOWN	None	1564	None	None	131595402	131622811	-1	None	KATI, GTK
9	CCBL1	ENSG00000171097	ENST00000466418	processed_transcript	PUTATIVE	None	1564	None	None	131597457	131597790	-1	None	KATI, GTK
9	CCBL1	ENSG00000171097	ENST00000451800	protein_coding	KNOWN	None	1564	753	250	131598288	131644773	-1	None	KATI, GTK
9	CCBL1	ENSG00000171097	ENST00000416084	protein_coding	KNOWN	None	1564	552	183	131599979	131609136	-1	None	KATI, GTK
9	CCBL1	ENSG00000171097	ENST00000474824	processed_transcript	KNOWN	None	1564	None	None	131600030	131644224	-1	None	KATI, GTK
9	CCBL1	ENSG00000171097	ENST00000427720	protein_coding	KNOWN	None	1564	477	158	131600554	131607687	-1	None	KATI, GTK
9	CCBL1	ENSG00000171097	ENST00000436267	protein_coding	KNOWN	None	1564	1551	516	131595575	131644210	-1	None	KATI, GTK
5	None	ENSG00000249349	ENST00000446516	lincRNA	KNOWN	None	None	None	None	84408160	84408574	-1	None	None
HSCHR6_MHC_MCF	None	ENSG00000257856	ENST00000550621	pseudogene	NOVEL	None	None	None	None	32116948	32117198	-1	None	None
16	None	ENSG00000259962	ENST00000568878	unprocessed_pseudogene	KNOWN	None	None	None	None	53395931	53397590	-1	None	None
5	RBBP4P6	ENSG00000248674	ENST00000508098	processed_pseudogene	KNOWN	None	42373	None	None	84486447	84486648	-1	None	None
11	CHRM4	ENSG00000180720	ENST00000433765	protein_coding	KNOWN	CCDS44581	1953	1440	479	46406640	46408107	-1	None	None
HSCHR6_MHC_MCF	None	ENSG00000266726	ENST00000580910	rRNA	NOVEL	None	None	None	None	32122728	32122848	-1	None	None
13	PIBF1	ENSG00000083535	ENST00000326291	protein_coding	KNOWN	CCDS31991	23352	2274	757	73356197	73590591	1	C13orf24	None
13	PIBF1	ENSG00000083535	ENST00000489797	processed_transcript	KNOWN	None	23352	None	None	73356292	73372164	1	C13orf24	None
13	PIBF1	ENSG00000083535	ENST00000492803	processed_transcript	KNOWN	None	23352	None	None	73372047	73409414	1	C13orf24	None
13	PIBF1	ENSG00000083535	ENST00000486330	processed_transcript	KNOWN	None	23352	None	None	73458582	73468009	1	C13orf24	None
13	PIBF1	ENSG00000083535	ENST00000489922	processed_transcript	KNOWN	None	23352	None	None	73543741	73590199	1	C13orf24	None
13	PIBF1	ENSG00000083535	ENST00000469712	processed_transcript	KNOWN	None	23352	None	None	73543777	73590206	1	C13orf24	None
5	None	ENSG00000250253	ENST00000507974	processed_pseudogene	KNOWN	None	None	None	None	84505878	84506721	-1	None	None
5	None	ENSG00000250253	ENST00000394448	processed_pseudogene	KNOWN	None	None	None	None	84506310	84506690	-1	None	None
5	None	ENSG00000249792	ENST00000510049	lincRNA	KNOWN	None	None	None	None	84508776	84509432	-1	None	None
16	None	ENSG00000260078	ENST00000565598	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	53398894	53406995	-1	None	None
16	None	ENSG00000260078	ENST00000565421	retained_intron	KNOWN	None	None	None	None	53400826	53405041	-1	None	None
17	NT5M	ENSG00000205309	ENST00000389022	protein_coding	KNOWN	CCDS32581	15769	687	228	17206649	17250975	1	None	dNT-2, dNT2, mdN
17	NT5M	ENSG00000205309	ENST00000478373	nonsense_mediated_decay	KNOWN	None	15769	342	113	17206680	17248180	1	None	dNT-2, dNT2, mdN
17	NT5M	ENSG00000205309	ENST00000470418	nonsense_mediated_decay	KNOWN	None	15769	282	93	17206704	17250172	1	None	dNT-2, dNT2, mdN
17	NT5M	ENSG00000205309	ENST00000483704	nonsense_mediated_decay	KNOWN	None	15769	155	50	17206992	17250977	1	None	dNT-2, dNT2, mdN
17	NT5M	ENSG00000205309	ENST00000582909	processed_transcript	PUTATIVE	None	15769	None	None	17236825	17250522	1	None	dNT-2, dNT2, mdN
17	NT5M	ENSG00000205309	ENST00000480529	processed_transcript	PUTATIVE	None	15769	None	None	17248583	17250466	1	None	dNT-2, dNT2, mdN
5	None	ENSG00000248170	ENST00000509821	processed_pseudogene	KNOWN	None	None	None	None	84533499	84533892	-1	None	None
13	None	ENSG00000268344	ENST00000596729	protein_coding	KNOWN	None	None	258	85	26452422	26452679	-1	None	None
19	LINC00085	ENSG00000182310	ENST00000576093	processed_transcript	KNOWN	None	27113	None	None	52196593	52208443	1	NCRNA00085	SPACA6
19	LINC00085	ENSG00000182310	ENST00000573266	processed_transcript	KNOWN	None	27113	None	None	52196597	52208443	1	NCRNA00085	SPACA6
19	LINC00085	ENSG00000182310	ENST00000574140	unitary_pseudogene	KNOWN	None	27113	None	None	52196852	52208376	1	NCRNA00085	SPACA6
19	LINC00085	ENSG00000182310	ENST00000571328	retained_intron	KNOWN	None	27113	None	None	52197463	52205023	1	NCRNA00085	SPACA6
19	LINC00085	ENSG00000182310	ENST00000574072	retained_intron	KNOWN	None	27113	None	None	52197585	52206068	1	NCRNA00085	SPACA6
19	LINC00085	ENSG00000182310	ENST00000576494	retained_intron	KNOWN	None	27113	None	None	52197770	52207459	1	NCRNA00085	SPACA6
19	LINC00085	ENSG00000182310	ENST00000572160	retained_intron	KNOWN	None	27113	None	None	52205789	52208428	1	NCRNA00085	SPACA6
19	LINC00085	ENSG00000182310	ENST00000572565	retained_intron	KNOWN	None	27113	None	None	52206118	52208248	1	NCRNA00085	SPACA6
19	LINC00085	ENSG00000182310	ENST00000573151	retained_intron	KNOWN	None	27113	None	None	52206398	52208443	1	NCRNA00085	SPACA6
19	LINC00085	ENSG00000182310	ENST00000576975	retained_intron	KNOWN	None	27113	None	None	52207252	52208443	1	NCRNA00085	SPACA6
19	LINC00085	ENSG00000182310	ENST00000572703	retained_intron	KNOWN	None	27113	None	None	52207452	52208602	1	NCRNA00085	SPACA6
19	LINC00085	ENSG00000182310	ENST00000573896	processed_transcript	KNOWN	None	27113	None	None	52207574	52215640	1	NCRNA00085	SPACA6
19	LINC00085	ENSG00000182310	ENST00000572609	retained_intron	KNOWN	None	27113	None	None	52207588	52208442	1	NCRNA00085	SPACA6
19	LINC00085	ENSG00000182310	ENST00000331594	pseudogene	KNOWN	None	27113	None	None	52196614	52197610	1	NCRNA00085	SPACA6
10	LYZL1	ENSG00000120563	ENST00000375500	protein_coding	KNOWN	CCDS31174	30502	585	194	29577990	29600161	1	None	MGC33408, LYC2
10	LYZL1	ENSG00000120563	ENST00000494304	nonsense_mediated_decay	KNOWN	None	30502	321	106	29580854	29607257	1	None	MGC33408, LYC2
HSCHR6_MHC_MCF	HNRNPA1P2	ENSG00000225237	ENST00000446988	processed_pseudogene	KNOWN	None	13958	None	None	32369506	32370465	1	HNRPA1P2	dJ372B18.1
5	None	ENSG00000248667	ENST00000511793	lincRNA	KNOWN	None	None	None	None	84715846	84716269	-1	None	None
5	None	ENSG00000249023	ENST00000505572	lincRNA	KNOWN	None	None	None	None	84725520	84726002	1	None	None
HSCHR6_MHC_APD	TAP1	ENSG00000227816	ENST00000489659	retained_intron	KNOWN	None	43	None	None	32796593	32801524	-1	ABCB2	PSF1, RING4, D6S114E
HSCHR6_MHC_APD	TAP1	ENSG00000227816	ENST00000418205	protein_coding	KNOWN	None	43	2427	808	32796593	32805362	-1	ABCB2	PSF1, RING4, D6S114E
HSCHR6_MHC_APD	TAP1	ENSG00000227816	ENST00000494196	retained_intron	KNOWN	None	43	None	None	32797059	32799614	-1	ABCB2	PSF1, RING4, D6S114E
16	None	ENSG00000261804	ENST00000566383	lincRNA	KNOWN	None	None	None	None	53407405	53418171	1	None	None
16	None	ENSG00000261804	ENST00000565189	lincRNA	KNOWN	None	None	None	None	53412368	53418657	1	None	None
17	MYO15B	ENSG00000266714	ENST00000584516	processed_transcript	KNOWN	None	14083	None	None	73584139	73612471	1	None	MYO15BP
17	MYO15B	ENSG00000266714	ENST00000578382	processed_transcript	KNOWN	None	14083	None	None	73584139	73622929	1	None	MYO15BP
17	MYO15B	ENSG00000266714	ENST00000578564	processed_transcript	KNOWN	None	14083	None	None	73586422	73587327	1	None	MYO15BP
17	MYO15B	ENSG00000266714	ENST00000582561	protein_coding	PUTATIVE	None	14083	502	166	73586858	73588572	1	None	MYO15BP
17	MYO15B	ENSG00000266714	ENST00000581612	retained_intron	KNOWN	None	14083	None	None	73587549	73588131	1	None	MYO15BP
17	MYO15B	ENSG00000266714	ENST00000581866	retained_intron	KNOWN	None	14083	None	None	73588547	73589112	1	None	MYO15BP
17	MYO15B	ENSG00000266714	ENST00000580701	retained_intron	KNOWN	None	14083	None	None	73590543	73591127	1	None	MYO15BP
17	MYO15B	ENSG00000266714	ENST00000584762	protein_coding	NOVEL	None	14083	336	111	73592571	73597581	1	None	MYO15BP
17	MYO15B	ENSG00000266714	ENST00000584323	retained_intron	KNOWN	None	14083	None	None	73598382	73599142	1	None	MYO15BP
17	MYO15B	ENSG00000266714	ENST00000583560	protein_coding	NOVEL	None	14083	769	255	73598598	73607014	1	None	MYO15BP
17	MYO15B	ENSG00000266714	ENST00000582012	nonsense_mediated_decay	KNOWN	None	14083	201	66	73601697	73607016	1	None	MYO15BP
17	MYO15B	ENSG00000266714	ENST00000580724	retained_intron	KNOWN	None	14083	None	None	73601948	73603211	1	None	MYO15BP
17	MYO15B	ENSG00000266714	ENST00000578462	protein_coding	PUTATIVE	None	14083	422	139	73606780	73609188	1	None	MYO15BP
17	MYO15B	ENSG00000266714	ENST00000584723	processed_transcript	KNOWN	None	14083	None	None	73611346	73612462	1	None	MYO15BP
17	MYO15B	ENSG00000266714	ENST00000580176	retained_intron	KNOWN	None	14083	None	None	73611944	73612759	1	None	MYO15BP
17	MYO15B	ENSG00000266714	ENST00000578005	retained_intron	KNOWN	None	14083	None	None	73612740	73613995	1	None	MYO15BP
17	MYO15B	ENSG00000266714	ENST00000577342	processed_transcript	KNOWN	None	14083	None	None	73612770	73615299	1	None	MYO15BP
17	MYO15B	ENSG00000266714	ENST00000578960	retained_intron	KNOWN	None	14083	None	None	73613660	73615643	1	None	MYO15BP
17	MYO15B	ENSG00000266714	ENST00000578300	retained_intron	KNOWN	None	14083	None	None	73613680	73615262	1	None	MYO15BP
17	MYO15B	ENSG00000266714	ENST00000577785	retained_intron	KNOWN	None	14083	None	None	73615155	73616062	1	None	MYO15BP
17	MYO15B	ENSG00000266714	ENST00000583140	processed_transcript	KNOWN	None	14083	None	None	73615965	73617443	1	None	MYO15BP
17	MYO15B	ENSG00000266714	ENST00000579052	retained_intron	KNOWN	None	14083	None	None	73616288	73616952	1	None	MYO15BP
17	MYO15B	ENSG00000266714	ENST00000577296	retained_intron	KNOWN	None	14083	None	None	73616288	73617452	1	None	MYO15BP
17	MYO15B	ENSG00000266714	ENST00000580096	processed_transcript	KNOWN	None	14083	None	None	73616412	73620138	1	None	MYO15BP
17	MYO15B	ENSG00000266714	ENST00000577613	retained_intron	KNOWN	None	14083	None	None	73616974	73618138	1	None	MYO15BP
17	MYO15B	ENSG00000266714	ENST00000579048	retained_intron	KNOWN	None	14083	None	None	73617150	73617936	1	None	MYO15BP
17	MYO15B	ENSG00000266714	ENST00000578220	processed_transcript	KNOWN	None	14083	None	None	73617155	73620977	1	None	MYO15BP
17	MYO15B	ENSG00000266714	ENST00000582597	retained_intron	KNOWN	None	14083	None	None	73617173	73617905	1	None	MYO15BP
17	MYO15B	ENSG00000266714	ENST00000577986	retained_intron	KNOWN	None	14083	None	None	73617962	73620634	1	None	MYO15BP
17	MYO15B	ENSG00000266714	ENST00000577948	processed_transcript	KNOWN	None	14083	None	None	73619870	73621729	1	None	MYO15BP
17	MYO15B	ENSG00000266714	ENST00000580414	processed_transcript	KNOWN	None	14083	None	None	73619908	73621968	1	None	MYO15BP
17	MYO15B	ENSG00000266714	ENST00000580262	processed_transcript	KNOWN	None	14083	None	None	73620906	73622581	1	None	MYO15BP
5	None	ENSG00000249842	ENST00000511602	lincRNA	KNOWN	None	None	None	None	84742792	84743576	1	None	None
13	SHISA2	ENSG00000180730	ENST00000319420	protein_coding	KNOWN	CCDS31951	20366	888	295	26618735	26625169	-1	C13orf13, TMEM46	bA398O19.2, PRO28631, WGAR9166, hShisa
5	RPL5P17	ENSG00000243859	ENST00000469685	processed_pseudogene	KNOWN	None	36605	None	None	84760252	84761128	1	None	None
2	RAB6C	ENSG00000222014	ENST00000410061	protein_coding	KNOWN	CCDS46408	16525	765	254	130737235	130740311	1	None	WTH3
5	None	ENSG00000215953	ENST00000401134	miRNA	NOVEL	None	None	None	None	84823862	84823952	-1	None	None
16	None	ENSG00000262714	ENST00000571340	lincRNA	KNOWN	None	None	None	None	53420856	53422997	1	None	None
5	None	ENSG00000251066	ENST00000512074	processed_pseudogene	KNOWN	None	None	None	None	84845227	84845770	1	None	None
5	None	ENSG00000265704	ENST00000579163	miRNA	NOVEL	None	None	None	None	84930230	84930291	1	None	None
5	None	ENSG00000250874	ENST00000507387	lincRNA	KNOWN	None	None	None	None	84959050	84960502	1	None	None
9	None	ENSG00000224025	ENST00000436315	processed_pseudogene	KNOWN	None	None	None	None	71224041	71226900	1	None	None
9	None	ENSG00000236998	ENST00000424795	processed_pseudogene	KNOWN	None	None	None	None	71403223	71404586	-1	None	None
9	None	ENSG00000233055	ENST00000418219	processed_pseudogene	KNOWN	None	None	None	None	104263925	104264167	-1	None	None
5	None	ENSG00000241965	ENST00000467247	processed_pseudogene	KNOWN	None	None	None	None	85058377	85058956	1	None	None
7	LMTK2	ENSG00000164715	ENST00000297293	protein_coding	KNOWN	CCDS5654	17880	4512	1503	97736197	97838945	1	None	KIAA1079, KPI2, KPI-2, cprk, LMR2, BREK, AATYK2
7	LMTK2	ENSG00000164715	ENST00000493372	processed_transcript	KNOWN	None	17880	None	None	97755877	97780767	1	None	KIAA1079, KPI2, KPI-2, cprk, LMR2, BREK, AATYK2
10	EMX2	ENSG00000170370	ENST00000553456	protein_coding	KNOWN	CCDS7601	3341	759	252	119301955	119309056	1	None	None
10	EMX2	ENSG00000170370	ENST00000442245	protein_coding	KNOWN	CCDS53583	3341	510	169	119302509	119308412	1	None	None
10	EMX2	ENSG00000170370	ENST00000546446	processed_transcript	KNOWN	None	3341	None	None	119304377	119308365	1	None	None
HSCHR6_MHC_MCF	None	ENSG00000264557	ENST00000583551	snRNA	NOVEL	None	None	None	None	32396819	32396925	1	None	None
9	None	ENSG00000236733	ENST00000442103	antisense	KNOWN	None	None	None	None	71437319	71458191	-1	None	None
5	PSMC1P4	ENSG00000248781	ENST00000515236	processed_pseudogene	KNOWN	None	39779	None	None	55571131	55572457	-1	None	None
HSCHR6_MHC_MCF	HCG23	ENSG00000230602	ENST00000412919	processed_transcript	KNOWN	None	19713	None	None	32434447	32437624	1	None	dJ1077I5.3
HSCHR6_MHC_QBL	PPP1R10	ENSG00000206489	ENST00000383586	protein_coding	KNOWN	None	9284	2823	940	30557688	30574531	-1	None	PNUTS, FB19, CAT53, p99
HSCHR6_MHC_QBL	PPP1R10	ENSG00000206489	ENST00000486096	retained_intron	KNOWN	None	9284	None	None	30560861	30561500	-1	None	PNUTS, FB19, CAT53, p99
HSCHR6_MHC_QBL	PPP1R10	ENSG00000206489	ENST00000492458	retained_intron	KNOWN	None	9284	None	None	30561900	30563285	-1	None	PNUTS, FB19, CAT53, p99
HSCHR6_MHC_QBL	PPP1R10	ENSG00000206489	ENST00000462209	retained_intron	KNOWN	None	9284	None	None	30562306	30564024	-1	None	PNUTS, FB19, CAT53, p99
HSCHR6_MHC_QBL	PPP1R10	ENSG00000206489	ENST00000468855	retained_intron	KNOWN	None	9284	None	None	30563097	30563530	-1	None	PNUTS, FB19, CAT53, p99
HSCHR6_MHC_QBL	PPP1R10	ENSG00000206489	ENST00000478528	processed_transcript	KNOWN	None	9284	None	None	30567234	30574531	-1	None	PNUTS, FB19, CAT53, p99
HSCHR6_MHC_QBL	PPP1R10	ENSG00000206489	ENST00000464257	processed_transcript	KNOWN	None	9284	None	None	30573869	30575899	-1	None	PNUTS, FB19, CAT53, p99
HSCHR6_MHC_QBL	PPP1R10	ENSG00000206489	ENST00000548899	protein_coding	KNOWN	None	9284	936	311	30562224	30574530	-1	None	PNUTS, FB19, CAT53, p99
19	ZNF580	ENSG00000213015	ENST00000592881	protein_coding	KNOWN	None	29473	310	102	56146382	56154184	1	None	None
19	ZNF580	ENSG00000213015	ENST00000325333	protein_coding	KNOWN	CCDS12931	29473	519	172	56152262	56154835	1	None	None
19	ZNF580	ENSG00000213015	ENST00000590190	protein_coding	KNOWN	None	29473	66	21	56152351	56153940	1	None	None
19	ZNF580	ENSG00000213015	ENST00000592461	protein_coding	KNOWN	None	29473	313	103	56153463	56154187	1	None	None
19	ZNF580	ENSG00000213015	ENST00000543039	protein_coding	KNOWN	CCDS12931	29473	519	172	56153418	56154835	1	None	None
19	ZNF580	ENSG00000213015	ENST00000545125	protein_coding	KNOWN	CCDS12931	29473	519	172	56153463	56154835	1	None	None
5	RNU6ATAC2P	ENSG00000210678	ENST00000387943	snRNA	KNOWN	None	34092	None	None	55593391	55593516	-1	None	None
9	RNU6-820P	ENSG00000207000	ENST00000384273	snRNA	KNOWN	None	47783	None	None	71550789	71550895	-1	None	None
5	None	ENSG00000249697	ENST00000504349	lincRNA	KNOWN	None	None	None	None	55609732	55617224	-1	None	None
5	HMGN1P17	ENSG00000250787	ENST00000513734	processed_pseudogene	KNOWN	None	39361	None	None	55677608	55677902	1	None	None
5	None	ENSG00000265665	ENST00000577951	miRNA	NOVEL	None	None	None	None	55752865	55752965	-1	None	None
7	NUB1	ENSG00000013374	ENST00000413040	protein_coding	KNOWN	CCDS47751	17623	1878	625	151038785	151075535	1	None	BS4, NYREN18
7	NUB1	ENSG00000013374	ENST00000568733	protein_coding	KNOWN	CCDS59089	17623	1920	639	151038797	151075535	1	None	BS4, NYREN18
7	NUB1	ENSG00000013374	ENST00000468404	nonsense_mediated_decay	KNOWN	None	17623	804	267	151038890	151058335	1	None	BS4, NYREN18
7	NUB1	ENSG00000013374	ENST00000470229	protein_coding	KNOWN	None	17623	463	153	151038898	151052901	1	None	BS4, NYREN18
7	NUB1	ENSG00000013374	ENST00000483358	protein_coding	KNOWN	None	17623	762	253	151042431	151057295	1	None	BS4, NYREN18
7	NUB1	ENSG00000013374	ENST00000470316	nonsense_mediated_decay	KNOWN	None	17623	450	149	151042431	151058323	1	None	BS4, NYREN18
7	NUB1	ENSG00000013374	ENST00000493588	retained_intron	KNOWN	None	17623	None	None	151048206	151057381	1	None	BS4, NYREN18
7	NUB1	ENSG00000013374	ENST00000480907	retained_intron	KNOWN	None	17623	None	None	151048414	151065891	1	None	BS4, NYREN18
7	NUB1	ENSG00000013374	ENST00000477666	processed_transcript	KNOWN	None	17623	None	None	151049338	151057330	1	None	BS4, NYREN18
7	NUB1	ENSG00000013374	ENST00000497987	retained_intron	KNOWN	None	17623	None	None	151057227	151066279	1	None	BS4, NYREN18
7	NUB1	ENSG00000013374	ENST00000460712	protein_coding	PUTATIVE	None	17623	608	201	151065819	151074367	1	None	BS4, NYREN18
7	NUB1	ENSG00000013374	ENST00000480714	protein_coding	PUTATIVE	None	17623	385	127	151065916	151071710	1	None	BS4, NYREN18
7	NUB1	ENSG00000013374	ENST00000355851	protein_coding	KNOWN	None	17623	1848	615	151038858	151075530	1	None	BS4, NYREN18
7	NUB1	ENSG00000013374	ENST00000566856	protein_coding	KNOWN	None	17623	1806	601	151038858	151075530	1	None	BS4, NYREN18
11	TMEM86A	ENSG00000151117	ENST00000527002	processed_transcript	PUTATIVE	None	26890	None	None	18714669	18723275	1	None	FLJ90119
11	TMEM86A	ENSG00000151117	ENST00000533987	processed_transcript	PUTATIVE	None	26890	None	None	18720326	18722662	1	None	FLJ90119
11	TMEM86A	ENSG00000151117	ENST00000280734	protein_coding	KNOWN	CCDS7844	26890	723	240	18720338	18726332	1	None	FLJ90119
11	TMEM86A	ENSG00000151117	ENST00000524888	processed_transcript	KNOWN	None	26890	None	None	18720351	18722701	1	None	FLJ90119
11	TMEM86A	ENSG00000151117	ENST00000529240	processed_transcript	PUTATIVE	None	26890	None	None	18722141	18723246	1	None	FLJ90119
5	None	ENSG00000226221	ENST00000450941	processed_pseudogene	KNOWN	None	None	None	None	55800462	55800899	-1	None	None
5	None	ENSG00000234553	ENST00000431789	sense_intronic	PUTATIVE	None	None	None	None	55832410	55833653	-1	None	None
10	PRR26	ENSG00000180525	ENST00000441152	protein_coding	KNOWN	None	30724	666	221	695888	698593	1	C10orf108	FLJ38681
10	PRR26	ENSG00000180525	ENST00000381489	protein_coding	NOVEL	None	30724	597	198	696017	711109	1	C10orf108	FLJ38681
19	ZNF404	ENSG00000176222	ENST00000587539	protein_coding	KNOWN	CCDS59394	19417	1659	552	44376515	44388116	-1	None	None
19	ZNF404	ENSG00000176222	ENST00000588094	processed_transcript	KNOWN	None	19417	None	None	44385792	44405537	-1	None	None
19	ZNF404	ENSG00000176222	ENST00000324394	protein_coding	KNOWN	None	19417	1653	550	44376519	44384291	-1	None	None
5	None	ENSG00000228650	ENST00000438117	lincRNA	KNOWN	None	None	None	None	56066626	56068130	1	None	None
5	None	ENSG00000237705	ENST00000415589	antisense	KNOWN	None	None	None	None	56137843	56157991	-1	None	None
5	None	ENSG00000238717	ENST00000459264	snoRNA	NOVEL	None	None	None	None	56152975	56153078	1	None	None
3	COL6A6	ENSG00000206384	ENST00000358511	protein_coding	KNOWN	CCDS46911	27023	6792	2263	130279178	130396999	1	None	None
3	COL6A6	ENSG00000206384	ENST00000506143	nonsense_mediated_decay	KNOWN	None	27023	895	297	130300526	130395888	1	None	None
3	COL6A6	ENSG00000206384	ENST00000511332	protein_coding	PUTATIVE	None	27023	778	258	130300585	130312068	1	None	None
3	COL6A6	ENSG00000206384	ENST00000453409	protein_coding	KNOWN	None	27023	6792	2263	130279178	130395876	1	None	None
5	None	ENSG00000225230	ENST00000453721	antisense	KNOWN	None	None	None	None	56195868	56206541	-1	None	None
19	None	ENSG00000267874	ENST00000601692	sense_intronic	KNOWN	None	None	None	None	35527238	35527964	1	None	None
20	KCNS1	ENSG00000124134	ENST00000306117	protein_coding	KNOWN	CCDS13342	6300	1581	526	43720951	43729753	-1	None	Kv9.1
20	KCNS1	ENSG00000124134	ENST00000537075	protein_coding	KNOWN	CCDS13342	6300	1581	526	43723155	43729750	-1	None	Kv9.1
5	None	ENSG00000271828	ENST00000606813	antisense	KNOWN	None	None	None	None	56223701	56225400	1	None	None
19	HPN-AS1	ENSG00000227392	ENST00000392227	antisense	KNOWN	None	47041	None	None	35549963	35597208	-1	None	None
6	None	ENSG00000271111	ENST00000605247	processed_pseudogene	KNOWN	None	None	None	None	68166239	68167143	-1	None	None
5	None	ENSG00000235635	ENST00000438553	antisense	KNOWN	None	None	None	None	56237134	56242979	1	None	None
9	None	ENSG00000265068	ENST00000584534	miRNA	NOVEL	None	None	None	None	104311968	104312053	-1	None	None
6	RNA5SP208	ENSG00000251965	ENST00000516156	rRNA	KNOWN	None	43108	None	None	68177124	68177201	-1	RN5S208	None
X	CT47B1	ENSG00000236446	ENST00000371311	protein_coding	KNOWN	CCDS48161	33293	900	299	120006457	120009779	-1	None	CT47.13
9	MTND3P4	ENSG00000230302	ENST00000453537	processed_pseudogene	KNOWN	None	42144	None	None	104555736	104556038	-1	None	None
6	RNU6-280P	ENSG00000201015	ENST00000364145	snRNA	KNOWN	None	47243	None	None	68256544	68256647	1	None	None
6	TMEM14A	ENSG00000096092	ENST00000211314	protein_coding	KNOWN	CCDS4943	21076	300	99	52535907	52551386	1	None	PTD011, C6orf73
6	None	ENSG00000206672	ENST00000383945	misc_RNA	NOVEL	None	None	None	None	68335249	68335357	1	None	None
19	None	ENSG00000203403	ENST00000366225	pseudogene	KNOWN	None	None	None	None	35628549	35630484	-1	None	None
5	None	ENSG00000233943	ENST00000429057	processed_pseudogene	KNOWN	None	None	None	None	56271420	56272051	-1	None	None
17	ALOX15	ENSG00000161905	ENST00000570836	protein_coding	KNOWN	CCDS11049	433	1989	662	4534197	4545589	-1	None	15-LOX-1
17	ALOX15	ENSG00000161905	ENST00000574640	protein_coding	NOVEL	None	433	1872	623	4534629	4545230	-1	None	15-LOX-1
17	ALOX15	ENSG00000161905	ENST00000576572	retained_intron	KNOWN	None	433	None	None	4540465	4542459	-1	None	15-LOX-1
17	ALOX15	ENSG00000161905	ENST00000572265	protein_coding	PUTATIVE	None	433	12	3	4542222	4543177	-1	None	15-LOX-1
17	ALOX15	ENSG00000161905	ENST00000573740	retained_intron	KNOWN	None	433	None	None	4542222	4544973	-1	None	15-LOX-1
17	ALOX15	ENSG00000161905	ENST00000576394	protein_coding	KNOWN	None	433	329	108	4542733	4545170	-1	None	15-LOX-1
17	ALOX15	ENSG00000161905	ENST00000545513	protein_coding	KNOWN	None	433	2055	684	4534781	4545589	-1	None	15-LOX-1
17	ALOX15	ENSG00000161905	ENST00000293761	protein_coding	KNOWN	CCDS11049	433	1989	662	4534221	4544960	-1	None	15-LOX-1
6	None	ENSG00000227706	ENST00000412872	lincRNA	KNOWN	None	None	None	None	68597538	68599231	-1	None	None
2	POTEF	ENSG00000196604	ENST00000409914	protein_coding	KNOWN	CCDS46409	33905	3228	1075	130831603	130886795	-1	A26C1B	POTEACTIN, POTE2alpha
2	POTEF	ENSG00000196604	ENST00000357462	protein_coding	KNOWN	CCDS46409	33905	3228	1075	130831108	130878182	-1	A26C1B	POTEACTIN, POTE2alpha
2	POTEF	ENSG00000196604	ENST00000360967	protein_coding	KNOWN	None	33905	1131	376	130832909	130878140	-1	A26C1B	POTEACTIN, POTE2alpha
2	POTEF	ENSG00000196604	ENST00000361163	protein_coding	KNOWN	None	33905	1185	394	130832909	130878140	-1	A26C1B	POTEACTIN, POTE2alpha
7	SMO	ENSG00000128602	ENST00000249373	protein_coding	KNOWN	CCDS5811	11119	2364	787	128828713	128853386	1	SMOH	FZD11
7	SMO	ENSG00000128602	ENST00000462420	nonsense_mediated_decay	KNOWN	None	11119	456	151	128845622	128850969	1	SMOH	FZD11
7	SMO	ENSG00000128602	ENST00000495998	retained_intron	KNOWN	None	11119	None	None	128846126	128849122	1	SMOH	FZD11
7	SMO	ENSG00000128602	ENST00000475779	nonsense_mediated_decay	KNOWN	None	11119	213	70	128850349	128851993	1	SMOH	FZD11
13	RNF6	ENSG00000127870	ENST00000468480	processed_transcript	KNOWN	None	10069	None	None	26706253	26796398	-1	None	DKFZp686P0776
13	RNF6	ENSG00000127870	ENST00000346166	protein_coding	KNOWN	CCDS9316	10069	2058	685	26786905	26795979	-1	None	DKFZp686P0776
13	RNF6	ENSG00000127870	ENST00000381588	protein_coding	KNOWN	CCDS9316	10069	2058	685	26786905	26796791	-1	None	DKFZp686P0776
13	RNF6	ENSG00000127870	ENST00000381570	protein_coding	KNOWN	CCDS9316	10069	2058	685	26786912	26795840	-1	None	DKFZp686P0776
13	RNF6	ENSG00000127870	ENST00000498039	processed_transcript	KNOWN	None	10069	None	None	26789276	26795947	-1	None	DKFZp686P0776
13	RNF6	ENSG00000127870	ENST00000476347	processed_transcript	KNOWN	None	10069	None	None	26793433	26795828	-1	None	DKFZp686P0776
13	RNF6	ENSG00000127870	ENST00000474280	processed_transcript	KNOWN	None	10069	None	None	26795390	26796226	-1	None	DKFZp686P0776
13	RNF6	ENSG00000127870	ENST00000399762	protein_coding	KNOWN	None	10069	990	329	26787923	26795949	-1	None	DKFZp686P0776
19	None	ENSG00000221857	ENST00000586871	processed_transcript	KNOWN	None	None	None	None	35629728	35634266	1	None	None
19	None	ENSG00000221857	ENST00000592174	processed_transcript	KNOWN	None	None	None	None	35629735	35642239	1	None	None
21	PCP4	ENSG00000183036	ENST00000328619	protein_coding	KNOWN	CCDS33563	8742	189	62	41239243	41301322	1	None	PEP-19
21	PCP4	ENSG00000183036	ENST00000462224	nonsense_mediated_decay	KNOWN	None	8742	96	31	41239365	41301322	1	None	PEP-19
21	PCP4	ENSG00000183036	ENST00000468717	processed_transcript	KNOWN	None	8742	None	None	41239377	41301322	1	None	PEP-19
21	PCP4	ENSG00000183036	ENST00000467565	processed_transcript	KNOWN	None	8742	None	None	41270401	41301322	1	None	PEP-19
6	None	ENSG00000270509	ENST00000604538	processed_pseudogene	KNOWN	None	None	None	None	68643377	68644574	1	None	None
6	None	ENSG00000223504	ENST00000449928	lincRNA	KNOWN	None	None	None	None	68765243	68770394	1	None	None
16	None	ENSG00000269826	ENST00000595705	lincRNA	KNOWN	None	None	None	None	86380993	86383217	1	None	None
6	None	ENSG00000226497	ENST00000445346	lincRNA	KNOWN	None	None	None	None	68936864	69039791	-1	None	None
16	None	ENSG00000268473	ENST00000596612	processed_pseudogene	KNOWN	None	None	None	None	86468436	86469490	-1	None	None
20	WFDC5	ENSG00000175121	ENST00000307971	protein_coding	KNOWN	None	20477	675	224	43738093	43743803	-1	None	WAP1, dJ211D12.5
20	WFDC5	ENSG00000175121	ENST00000372789	protein_coding	KNOWN	CCDS33475	20477	372	123	43738093	43743813	-1	None	WAP1, dJ211D12.5
6	None	ENSG00000266675	ENST00000585220	miRNA	NOVEL	None	None	None	None	69203331	69203418	1	None	None
19	None	ENSG00000268173	ENST00000593731	nonsense_mediated_decay	KNOWN	CCDS12371	None	2187	728	18263968	18288927	1	None	None
6	None	ENSG00000218834	ENST00000406616	processed_pseudogene	KNOWN	None	None	None	None	69308096	69308285	-1	None	None
19	None	ENSG00000262497	ENST00000577135	unprocessed_pseudogene	KNOWN	None	None	None	None	35723194	35723906	-1	None	None
20	RNU6ATAC34P	ENSG00000221806	ENST00000408879	snRNA	KNOWN	None	46933	None	None	18591691	18591811	-1	None	None
16	CRISPLD2	ENSG00000103196	ENST00000262424	protein_coding	KNOWN	CCDS10949	25248	1494	497	84853590	84943114	1	LCRISP2	DKFZP434B044
16	CRISPLD2	ENSG00000103196	ENST00000566151	protein_coding	KNOWN	None	25248	56	17	84853591	84872157	1	LCRISP2	DKFZP434B044
16	CRISPLD2	ENSG00000103196	ENST00000567845	protein_coding	NOVEL	None	25248	1491	496	84853597	84940718	1	LCRISP2	DKFZP434B044
16	CRISPLD2	ENSG00000103196	ENST00000566431	processed_transcript	KNOWN	None	25248	None	None	84853598	84896772	1	LCRISP2	DKFZP434B044
16	CRISPLD2	ENSG00000103196	ENST00000565561	retained_intron	KNOWN	None	25248	None	None	84853603	84873629	1	LCRISP2	DKFZP434B044
16	CRISPLD2	ENSG00000103196	ENST00000564567	protein_coding	KNOWN	None	25248	1350	449	84853609	84914331	1	LCRISP2	DKFZP434B044
16	CRISPLD2	ENSG00000103196	ENST00000569090	protein_coding	KNOWN	None	25248	363	120	84853611	84879756	1	LCRISP2	DKFZP434B044
16	CRISPLD2	ENSG00000103196	ENST00000569262	retained_intron	KNOWN	None	25248	None	None	84853623	84907114	1	LCRISP2	DKFZP434B044
16	CRISPLD2	ENSG00000103196	ENST00000563066	protein_coding	PUTATIVE	None	25248	629	208	84875609	84906716	1	LCRISP2	DKFZP434B044
16	CRISPLD2	ENSG00000103196	ENST00000566789	protein_coding	PUTATIVE	None	25248	335	110	84882823	84900599	1	LCRISP2	DKFZP434B044
16	CRISPLD2	ENSG00000103196	ENST00000566165	nonsense_mediated_decay	KNOWN	None	25248	130	42	84922850	84954374	1	LCRISP2	DKFZP434B044
20	DUXAP7	ENSG00000232136	ENST00000431038	processed_pseudogene	KNOWN	None	32186	None	None	18623426	18624278	-1	None	None
20	None	ENSG00000233993	ENST00000428285	antisense	KNOWN	None	None	None	None	18655039	18679353	-1	None	None
2	BOK	ENSG00000176720	ENST00000318407	protein_coding	KNOWN	CCDS2550	1087	639	212	242498136	242513546	1	None	BCL2L9, BOKL, MGC4631
3	UCN2	ENSG00000145040	ENST00000273610	protein_coding	KNOWN	CCDS2772	18414	339	112	48599160	48601206	-1	None	UCNI, SRP, URP, UCN-II
11	ARCN1	ENSG00000095139	ENST00000392859	protein_coding	KNOWN	CCDS44749	649	1272	423	118443105	118471708	1	COPD	None
11	ARCN1	ENSG00000095139	ENST00000359415	protein_coding	PUTATIVE	None	649	1659	552	118443139	118473643	1	COPD	None
11	ARCN1	ENSG00000095139	ENST00000534182	protein_coding	NOVEL	None	649	252	83	118443151	118473748	1	COPD	None
11	ARCN1	ENSG00000095139	ENST00000264028	protein_coding	KNOWN	CCDS8400	649	1536	511	118443168	118473643	1	COPD	None
11	SMCO4	ENSG00000166002	ENST00000525141	protein_coding	KNOWN	CCDS8292	24810	180	59	93211638	93232517	-1	C11orf75	FN5
11	SMCO4	ENSG00000166002	ENST00000298966	protein_coding	KNOWN	CCDS8292	24810	180	59	93211638	93276674	-1	C11orf75	FN5
11	SMCO4	ENSG00000166002	ENST00000527149	protein_coding	KNOWN	CCDS8292	24810	180	59	93212107	93271081	-1	C11orf75	FN5
11	SMCO4	ENSG00000166002	ENST00000529714	protein_coding	KNOWN	None	24810	156	51	93212200	93256533	-1	C11orf75	FN5
11	SMCO4	ENSG00000166002	ENST00000526869	protein_coding	KNOWN	None	24810	141	46	93212215	93276521	-1	C11orf75	FN5
20	EEF1A1P34	ENSG00000233324	ENST00000419888	processed_pseudogene	KNOWN	None	37912	None	None	18763068	18764334	-1	None	None
1	METTL13	ENSG00000010165	ENST00000485629	processed_transcript	KNOWN	None	24248	None	None	171750804	171755220	1	KIAA0859	CGI-01
1	METTL13	ENSG00000010165	ENST00000362019	protein_coding	KNOWN	CCDS1300	24248	1842	613	171750822	171766857	1	KIAA0859	CGI-01
1	METTL13	ENSG00000010165	ENST00000367737	protein_coding	KNOWN	CCDS30936	24248	1632	543	171750836	171766857	1	KIAA0859	CGI-01
1	METTL13	ENSG00000010165	ENST00000361735	protein_coding	KNOWN	CCDS1299	24248	2100	699	171750842	171766857	1	KIAA0859	CGI-01
1	METTL13	ENSG00000010165	ENST00000367736	protein_coding	NOVEL	None	24248	1200	399	171752976	171766857	1	KIAA0859	CGI-01
1	METTL13	ENSG00000010165	ENST00000478330	processed_transcript	KNOWN	None	24248	None	None	171756965	171760065	1	KIAA0859	CGI-01
1	METTL13	ENSG00000010165	ENST00000466643	processed_transcript	KNOWN	None	24248	None	None	171757003	171766043	1	KIAA0859	CGI-01
1	METTL13	ENSG00000010165	ENST00000476386	processed_transcript	KNOWN	None	24248	None	None	171763534	171783163	1	KIAA0859	CGI-01
1	METTL13	ENSG00000010165	ENST00000458517	protein_coding	KNOWN	None	24248	2097	698	171750788	171766101	1	KIAA0859	CGI-01
5	MAP1B	ENSG00000131711	ENST00000512974	protein_coding	NOVEL	None	6836	367	121	71403061	71479650	1	None	MAP5
5	MAP1B	ENSG00000131711	ENST00000296755	protein_coding	KNOWN	CCDS4012	6836	7407	2468	71403061	71505395	1	None	MAP5
5	MAP1B	ENSG00000131711	ENST00000504183	processed_transcript	PUTATIVE	None	6836	None	None	71403304	71411857	1	None	MAP5
5	MAP1B	ENSG00000131711	ENST00000513526	nonsense_mediated_decay	KNOWN	None	6836	312	103	71403304	71491249	1	None	MAP5
5	MAP1B	ENSG00000131711	ENST00000511641	protein_coding	NOVEL	None	6836	2010	669	71403313	71491141	1	None	MAP5
5	MAP1B	ENSG00000131711	ENST00000504492	protein_coding	NOVEL	None	6836	1707	568	71475455	71491267	1	None	MAP5
3	EXOG	ENSG00000157036	ENST00000412107	nonsense_mediated_decay	KNOWN	None	3347	171	56	38537618	38565904	1	ENDOGL1, ENDOGL2	ENGL-a, ENGL, ENGL-b
3	EXOG	ENSG00000157036	ENST00000436414	nonsense_mediated_decay	KNOWN	None	3347	246	81	38537763	38566359	1	ENDOGL1, ENDOGL2	ENGL-a, ENGL, ENGL-b
3	EXOG	ENSG00000157036	ENST00000287675	protein_coding	KNOWN	CCDS2680	3347	1107	368	38537763	38567442	1	ENDOGL1, ENDOGL2	ENGL-a, ENGL, ENGL-b
3	EXOG	ENSG00000157036	ENST00000443942	nonsense_mediated_decay	KNOWN	None	3347	171	56	38537831	38542993	1	ENDOGL1, ENDOGL2	ENGL-a, ENGL, ENGL-b
3	EXOG	ENSG00000157036	ENST00000431472	nonsense_mediated_decay	KNOWN	None	3347	324	107	38537833	38565908	1	ENDOGL1, ENDOGL2	ENGL-a, ENGL, ENGL-b
3	EXOG	ENSG00000157036	ENST00000447573	nonsense_mediated_decay	KNOWN	None	3347	171	56	38537834	38566309	1	ENDOGL1, ENDOGL2	ENGL-a, ENGL, ENGL-b
3	EXOG	ENSG00000157036	ENST00000489813	retained_intron	KNOWN	None	3347	None	None	38537836	38539513	1	ENDOGL1, ENDOGL2	ENGL-a, ENGL, ENGL-b
3	EXOG	ENSG00000157036	ENST00000422077	protein_coding	NOVEL	CCDS46795	3347	957	318	38537836	38566190	1	ENDOGL1, ENDOGL2	ENGL-a, ENGL, ENGL-b
3	EXOG	ENSG00000157036	ENST00000454803	nonsense_mediated_decay	KNOWN	None	3347	441	146	38537836	38566441	1	ENDOGL1, ENDOGL2	ENGL-a, ENGL, ENGL-b
3	EXOG	ENSG00000157036	ENST00000438992	nonsense_mediated_decay	KNOWN	None	3347	171	56	38537856	38566059	1	ENDOGL1, ENDOGL2	ENGL-a, ENGL, ENGL-b
3	EXOG	ENSG00000157036	ENST00000457367	nonsense_mediated_decay	KNOWN	None	3347	432	143	38537856	38566612	1	ENDOGL1, ENDOGL2	ENGL-a, ENGL, ENGL-b
3	EXOG	ENSG00000157036	ENST00000453767	protein_coding	PUTATIVE	None	3347	562	186	38537972	38564707	1	ENDOGL1, ENDOGL2	ENGL-a, ENGL, ENGL-b
3	EXOG	ENSG00000157036	ENST00000450732	nonsense_mediated_decay	KNOWN	None	3347	324	107	38537976	38565551	1	ENDOGL1, ENDOGL2	ENGL-a, ENGL, ENGL-b
3	EXOG	ENSG00000157036	ENST00000470291	nonsense_mediated_decay	KNOWN	None	3347	47	14	38537983	38555342	1	ENDOGL1, ENDOGL2	ENGL-a, ENGL, ENGL-b
3	EXOG	ENSG00000157036	ENST00000474071	retained_intron	KNOWN	None	3347	None	None	38538229	38583652	1	ENDOGL1, ENDOGL2	ENGL-a, ENGL, ENGL-b
3	EXOG	ENSG00000157036	ENST00000483749	retained_intron	KNOWN	None	3347	None	None	38542653	38565737	1	ENDOGL1, ENDOGL2	ENGL-a, ENGL, ENGL-b
3	EXOG	ENSG00000157036	ENST00000358249	protein_coding	KNOWN	None	3347	450	149	38537763	38583437	1	ENDOGL1, ENDOGL2	ENGL-a, ENGL, ENGL-b
9	ARL2BPP7	ENSG00000230418	ENST00000446421	processed_pseudogene	KNOWN	None	39451	None	None	104817534	104818023	-1	None	None
3	CYP8B1	ENSG00000180432	ENST00000437102	protein_coding	NOVEL	None	2653	1491	496	42897497	42917390	-1	None	CYP12
3	CYP8B1	ENSG00000180432	ENST00000316161	protein_coding	KNOWN	CCDS2707	2653	1506	501	42913684	42917633	-1	None	CYP12
20	LINC00652	ENSG00000179935	ENST00000412553	processed_transcript	KNOWN	None	25003	None	None	18768295	18774637	-1	None	HSPC072
20	LINC00652	ENSG00000179935	ENST00000455340	processed_transcript	KNOWN	None	25003	None	None	18769191	18774979	-1	None	HSPC072
20	LINC00652	ENSG00000179935	ENST00000454749	processed_transcript	KNOWN	None	25003	None	None	18769308	18774933	-1	None	HSPC072
9	RNU6-329P	ENSG00000238882	ENST00000459618	snRNA	KNOWN	None	47292	None	None	105018886	105018992	1	None	None
12	RAB5B	ENSG00000111540	ENST00000553116	protein_coding	KNOWN	CCDS8900	9784	648	215	56367697	56388490	1	None	None
12	RAB5B	ENSG00000111540	ENST00000360299	protein_coding	KNOWN	CCDS8900	9784	648	215	56367795	56388489	1	None	None
12	RAB5B	ENSG00000111540	ENST00000549505	nonsense_mediated_decay	KNOWN	None	9784	222	73	56367858	56388490	1	None	None
12	RAB5B	ENSG00000111540	ENST00000546810	retained_intron	KNOWN	None	9784	None	None	56367862	56384002	1	None	None
12	RAB5B	ENSG00000111540	ENST00000548068	protein_coding	KNOWN	None	9784	345	114	56367868	56384495	1	None	None
12	RAB5B	ENSG00000111540	ENST00000549915	protein_coding	PUTATIVE	None	9784	237	78	56367881	56380876	1	None	None
12	RAB5B	ENSG00000111540	ENST00000551459	protein_coding	KNOWN	None	9784	301	99	56367885	56383868	1	None	None
12	RAB5B	ENSG00000111540	ENST00000448789	protein_coding	NOVEL	CCDS58244	9784	525	174	56367885	56386870	1	None	None
12	RAB5B	ENSG00000111540	ENST00000549034	retained_intron	KNOWN	None	9784	None	None	56383740	56384880	1	None	None
12	RAB5B	ENSG00000111540	ENST00000550283	retained_intron	KNOWN	None	9784	None	None	56384505	56385724	1	None	None
9	None	ENSG00000222117	ENST00000410185	miRNA	NOVEL	None	None	None	None	105057659	105057746	1	None	None
9	None	ENSG00000235901	ENST00000454390	processed_pseudogene	KNOWN	None	None	None	None	105277486	105280590	1	None	None
6	HNRNPA1P49	ENSG00000233231	ENST00000421336	processed_pseudogene	KNOWN	None	48779	None	None	166748056	166748959	1	None	None
19	None	ENSG00000267299	ENST00000588342	antisense	KNOWN	None	None	None	None	6109333	6125808	1	None	None
20	WFDC12	ENSG00000168703	ENST00000372785	protein_coding	KNOWN	CCDS13343	16115	336	111	43752066	43753106	-1	C20orf122	dJ211D12.4, WAP2
9	LINC00587	ENSG00000204250	ENST00000374801	lincRNA	KNOWN	None	31372	None	None	105281918	105419796	1	C9orf107	bA785H23.1
19	None	ENSG00000267415	ENST00000585766	transcribed_processed_pseudogene	KNOWN	None	None	None	None	6176267	6176453	-1	None	None
10	None	ENSG00000256462	ENST00000442008	antisense	KNOWN	None	None	None	None	5566939	5567705	-1	None	None
4	ANKRD50	ENSG00000151458	ENST00000504087	protein_coding	KNOWN	CCDS34060	29223	4290	1429	125585207	125633887	-1	None	KIAA1223
4	ANKRD50	ENSG00000151458	ENST00000515641	protein_coding	NOVEL	CCDS54802	29223	3753	1250	125588514	125633887	-1	None	KIAA1223
16	ITFG1	ENSG00000129636	ENST00000568047	processed_transcript	KNOWN	None	30697	None	None	47188298	47346186	-1	None	CDA08, TIP
16	ITFG1	ENSG00000129636	ENST00000320640	protein_coding	KNOWN	CCDS10728	30697	1839	612	47188298	47495185	-1	None	CDA08, TIP
16	ITFG1	ENSG00000129636	ENST00000537184	processed_transcript	KNOWN	None	30697	None	None	47189212	47345861	-1	None	CDA08, TIP
16	ITFG1	ENSG00000129636	ENST00000542691	processed_transcript	KNOWN	None	30697	None	None	47189468	47430131	-1	None	CDA08, TIP
16	ITFG1	ENSG00000129636	ENST00000567957	retained_intron	KNOWN	None	30697	None	None	47189496	47272200	-1	None	CDA08, TIP
16	ITFG1	ENSG00000129636	ENST00000544001	protein_coding	PUTATIVE	None	30697	1395	464	47189516	47495185	-1	None	CDA08, TIP
16	ITFG1	ENSG00000129636	ENST00000565262	protein_coding	PUTATIVE	None	30697	537	178	47189583	47292633	-1	None	CDA08, TIP
16	ITFG1	ENSG00000129636	ENST00000564825	processed_transcript	KNOWN	None	30697	None	None	47294571	47296925	-1	None	CDA08, TIP
16	ITFG1	ENSG00000129636	ENST00000569551	retained_intron	KNOWN	None	30697	None	None	47399482	47486668	-1	None	CDA08, TIP
16	ITFG1	ENSG00000129636	ENST00000563350	processed_transcript	KNOWN	None	30697	None	None	47459695	47493080	-1	None	CDA08, TIP
16	ITFG1	ENSG00000129636	ENST00000565940	protein_coding	PUTATIVE	None	30697	341	112	47482011	47493041	-1	None	CDA08, TIP
16	ITFG1	ENSG00000129636	ENST00000563730	protein_coding	PUTATIVE	None	30697	221	72	47485307	47498060	-1	None	CDA08, TIP
6	None	ENSG00000261420	ENST00000568025	antisense	KNOWN	None	None	None	None	166796677	166798312	1	None	None
10	None	ENSG00000242147	ENST00000478294	lincRNA	KNOWN	None	None	None	None	5636954	5638081	-1	None	None
19	None	ENSG00000267427	ENST00000586154	lincRNA	KNOWN	None	None	None	None	6210390	6212492	-1	None	None
19	None	ENSG00000267427	ENST00000587473	lincRNA	KNOWN	None	None	None	None	6210700	6211487	-1	None	None
6	RPS6KA2-IT1	ENSG00000232082	ENST00000416770	sense_intronic	KNOWN	None	41378	None	None	166874151	166878871	-1	None	None
4	CNGA1	ENSG00000198515	ENST00000402813	protein_coding	KNOWN	CCDS47050	2148	2280	759	47937994	47983552	-1	CNCG1, CNCG	RCNC1, RCNCa, CNG1, RP49
4	CNGA1	ENSG00000198515	ENST00000514170	protein_coding	KNOWN	CCDS43226	2148	2073	690	47937994	48018609	-1	CNCG1, CNCG	RCNC1, RCNCa, CNG1, RP49
4	CNGA1	ENSG00000198515	ENST00000420489	protein_coding	KNOWN	CCDS43226	2148	2073	690	47938031	48014961	-1	CNCG1, CNCG	RCNC1, RCNCa, CNG1, RP49
4	CNGA1	ENSG00000198515	ENST00000506118	retained_intron	KNOWN	None	2148	None	None	47944934	47954706	-1	CNCG1, CNCG	RCNC1, RCNCa, CNG1, RP49
4	CNGA1	ENSG00000198515	ENST00000504722	protein_coding	KNOWN	None	2148	385	127	47945262	48014961	-1	CNCG1, CNCG	RCNC1, RCNCa, CNG1, RP49
4	CNGA1	ENSG00000198515	ENST00000514520	protein_coding	KNOWN	None	2148	299	98	47951850	47954824	-1	CNCG1, CNCG	RCNC1, RCNCa, CNG1, RP49
4	CNGA1	ENSG00000198515	ENST00000513178	protein_coding	KNOWN	None	2148	297	98	47951852	48018689	-1	CNCG1, CNCG	RCNC1, RCNCa, CNG1, RP49
4	CNGA1	ENSG00000198515	ENST00000544810	protein_coding	KNOWN	CCDS43226	2148	2073	690	47937996	47983550	-1	CNCG1, CNCG	RCNC1, RCNCa, CNG1, RP49
4	CNGA1	ENSG00000198515	ENST00000358519	protein_coding	KNOWN	CCDS43226	2148	2073	690	47937996	47983519	-1	CNCG1, CNCG	RCNC1, RCNCa, CNG1, RP49
19	LILRA5	ENSG00000187116	ENST00000301219	protein_coding	KNOWN	CCDS12888	16309	900	299	54818353	54824409	-1	LILRB7	ILT11, LIR9, CD85, CD85f
19	LILRA5	ENSG00000187116	ENST00000346508	protein_coding	KNOWN	CCDS12889	16309	864	287	54818537	54824344	-1	LILRB7	ILT11, LIR9, CD85, CD85f
19	LILRA5	ENSG00000187116	ENST00000477720	retained_intron	KNOWN	None	16309	None	None	54818744	54822933	-1	LILRB7	ILT11, LIR9, CD85, CD85f
19	LILRA5	ENSG00000187116	ENST00000489504	retained_intron	KNOWN	None	16309	None	None	54822435	54824361	-1	LILRB7	ILT11, LIR9, CD85, CD85f
19	LILRA5	ENSG00000187116	ENST00000486742	retained_intron	KNOWN	None	16309	None	None	54822553	54824368	-1	LILRB7	ILT11, LIR9, CD85, CD85f
19	LILRA5	ENSG00000187116	ENST00000446712	protein_coding	KNOWN	CCDS46177	16309	762	253	54822435	54824368	-1	LILRB7	ILT11, LIR9, CD85, CD85f
19	LILRA5	ENSG00000187116	ENST00000432233	protein_coding	KNOWN	CCDS46178	16309	798	265	54822553	54824368	-1	LILRB7	ILT11, LIR9, CD85, CD85f
6	None	ENSG00000230910	ENST00000603261	antisense	KNOWN	None	None	None	None	69339854	69344854	-1	None	None
6	None	ENSG00000230910	ENST00000419979	antisense	KNOWN	None	None	None	None	69342555	69344216	-1	None	None
6	None	ENSG00000230910	ENST00000604392	antisense	KNOWN	None	None	None	None	69342555	69344919	-1	None	None
20	LIME1	ENSG00000203896	ENST00000496820	processed_transcript	KNOWN	None	26016	None	None	62366815	62369794	1	None	FLJ20406, dJ583P15.4, LIME
20	LIME1	ENSG00000203896	ENST00000444951	protein_coding	KNOWN	None	26016	320	105	62367635	62369587	1	None	FLJ20406, dJ583P15.4, LIME
20	LIME1	ENSG00000203896	ENST00000490824	processed_transcript	KNOWN	None	26016	None	None	62367670	62370456	1	None	FLJ20406, dJ583P15.4, LIME
20	LIME1	ENSG00000203896	ENST00000465591	processed_transcript	KNOWN	None	26016	None	None	62367812	62369485	1	None	FLJ20406, dJ583P15.4, LIME
20	LIME1	ENSG00000203896	ENST00000309546	protein_coding	KNOWN	CCDS13536	26016	888	295	62367995	62370456	1	None	FLJ20406, dJ583P15.4, LIME
20	LIME1	ENSG00000203896	ENST00000487026	processed_transcript	KNOWN	None	26016	None	None	62368009	62370027	1	None	FLJ20406, dJ583P15.4, LIME
20	LIME1	ENSG00000203896	ENST00000480139	processed_transcript	KNOWN	None	26016	None	None	62368021	62370158	1	None	FLJ20406, dJ583P15.4, LIME
20	LIME1	ENSG00000203896	ENST00000493265	processed_transcript	KNOWN	None	26016	None	None	62368637	62369697	1	None	FLJ20406, dJ583P15.4, LIME
20	LIME1	ENSG00000203896	ENST00000489212	processed_transcript	KNOWN	None	26016	None	None	62368852	62369712	1	None	FLJ20406, dJ583P15.4, LIME
20	LIME1	ENSG00000203896	ENST00000476183	processed_transcript	KNOWN	None	26016	None	None	62368852	62370147	1	None	FLJ20406, dJ583P15.4, LIME
20	LIME1	ENSG00000203896	ENST00000494776	processed_transcript	KNOWN	None	26016	None	None	62369558	62370456	1	None	FLJ20406, dJ583P15.4, LIME
19	None	ENSG00000267563	ENST00000588192	antisense	KNOWN	None	None	None	None	6259168	6259810	1	None	None
20	C20orf202	ENSG00000215595	ENST00000400633	protein_coding	KNOWN	CCDS46567	37254	369	122	1184098	1188918	1	None	None
20	PI3	ENSG00000124102	ENST00000243924	protein_coding	KNOWN	CCDS13344	8947	354	117	43803517	43805185	1	None	ESI, SKALP, ELAFIN, WAP3, WFDC14, cementoin
19	None	ENSG00000269802	ENST00000595644	antisense	KNOWN	None	None	None	None	6343772	6362160	-1	None	None
6	None	ENSG00000265498	ENST00000578978	miRNA	NOVEL	None	None	None	None	69924622	69924702	-1	None	None
20	None	ENSG00000264669	ENST00000584556	miRNA	NOVEL	None	None	None	None	19106429	19106551	1	None	None
4	None	ENSG00000251284	ENST00000506559	processed_pseudogene	KNOWN	None	None	None	None	69990992	69992169	1	None	None
6	None	ENSG00000265362	ENST00000583116	miRNA	NOVEL	None	None	None	None	70331265	70331364	1	None	None
6	AIG1	ENSG00000146416	ENST00000367601	protein_coding	PUTATIVE	None	21607	578	191	143381633	143654493	1	None	dJ95L4.1, AIG-1, FLJ10485
6	AIG1	ENSG00000146416	ENST00000447498	protein_coding	NOVEL	None	21607	371	122	143381990	143654430	1	None	dJ95L4.1, AIG-1, FLJ10485
6	AIG1	ENSG00000146416	ENST00000357847	protein_coding	KNOWN	CCDS5198	21607	717	238	143382013	143661441	1	None	dJ95L4.1, AIG-1, FLJ10485
6	AIG1	ENSG00000146416	ENST00000367596	protein_coding	PUTATIVE	None	21607	144	47	143382038	143382743	1	None	dJ95L4.1, AIG-1, FLJ10485
6	AIG1	ENSG00000146416	ENST00000494282	protein_coding	PUTATIVE	None	21607	414	137	143382038	143511734	1	None	dJ95L4.1, AIG-1, FLJ10485
6	AIG1	ENSG00000146416	ENST00000275235	protein_coding	KNOWN	None	21607	738	245	143382038	143656667	1	None	dJ95L4.1, AIG-1, FLJ10485
6	AIG1	ENSG00000146416	ENST00000458219	protein_coding	PUTATIVE	None	21607	415	137	143447387	143654582	1	None	dJ95L4.1, AIG-1, FLJ10485
6	AIG1	ENSG00000146416	ENST00000470265	retained_intron	KNOWN	None	21607	None	None	143486081	143508951	1	None	dJ95L4.1, AIG-1, FLJ10485
6	AIG1	ENSG00000146416	ENST00000344492	protein_coding	KNOWN	None	21607	561	186	143382023	143661441	1	None	dJ95L4.1, AIG-1, FLJ10485
6	AIG1	ENSG00000146416	ENST00000367598	protein_coding	KNOWN	None	21607	405	134	143381979	143509661	1	None	dJ95L4.1, AIG-1, FLJ10485
19	IFI30	ENSG00000216490	ENST00000597802	protein_coding	KNOWN	None	5398	279	92	18283972	18285996	1	None	IFI-30, GILT, IP30, MGC32056
19	IFI30	ENSG00000216490	ENST00000407280	protein_coding	KNOWN	CCDS46015	5398	753	250	18284584	18288927	1	None	IFI-30, GILT, IP30, MGC32056
19	IFI30	ENSG00000216490	ENST00000600463	retained_intron	KNOWN	None	5398	None	None	18284979	18288927	1	None	IFI-30, GILT, IP30, MGC32056
19	None	ENSG00000269444	ENST00000599584	sense_overlapping	KNOWN	None	None	None	None	6386773	6390411	-1	None	None
20	None	ENSG00000235996	ENST00000446849	antisense	KNOWN	None	None	None	None	19193496	19194121	-1	None	None
6	NPM1P37	ENSG00000219085	ENST00000403105	processed_pseudogene	KNOWN	None	45216	None	None	70415179	70416052	-1	None	None
19	None	ENSG00000214347	ENST00000593563	lincRNA	KNOWN	None	None	None	None	6393820	6411788	1	None	None
19	None	ENSG00000214347	ENST00000596254	lincRNA	KNOWN	None	None	None	None	6396356	6412415	1	None	None
19	None	ENSG00000214347	ENST00000398173	lincRNA	KNOWN	None	None	None	None	6396356	6412415	1	None	None
4	None	ENSG00000250100	ENST00000508057	unprocessed_pseudogene	KNOWN	None	None	None	None	69997069	70000532	1	None	None
6	GAPDHP42	ENSG00000219881	ENST00000406848	processed_pseudogene	KNOWN	None	37799	None	None	70455763	70456743	1	None	None
20	None	ENSG00000179447	ENST00000319682	antisense	KNOWN	None	None	None	None	19222946	19265240	-1	None	None
19	SYMPK	ENSG00000125755	ENST00000598155	processed_transcript	KNOWN	None	22935	None	None	46318668	46327419	-1	None	SYM, SPK
19	SYMPK	ENSG00000125755	ENST00000593504	retained_intron	KNOWN	None	22935	None	None	46318686	46366402	-1	None	SYM, SPK
19	SYMPK	ENSG00000125755	ENST00000245934	protein_coding	KNOWN	CCDS12676	22935	3825	1274	46318693	46366548	-1	None	SYM, SPK
19	SYMPK	ENSG00000125755	ENST00000600237	nonsense_mediated_decay	KNOWN	None	22935	2022	673	46318706	46359065	-1	None	SYM, SPK
19	SYMPK	ENSG00000125755	ENST00000598364	retained_intron	KNOWN	None	22935	None	None	46318726	46320391	-1	None	SYM, SPK
19	SYMPK	ENSG00000125755	ENST00000596824	nonsense_mediated_decay	KNOWN	None	22935	286	94	46319154	46321271	-1	None	SYM, SPK
19	SYMPK	ENSG00000125755	ENST00000598329	retained_intron	KNOWN	None	22935	None	None	46319365	46327270	-1	None	SYM, SPK
19	SYMPK	ENSG00000125755	ENST00000599460	retained_intron	KNOWN	None	22935	None	None	46322171	46366388	-1	None	SYM, SPK
19	SYMPK	ENSG00000125755	ENST00000599814	retained_intron	KNOWN	None	22935	None	None	46322213	46358968	-1	None	SYM, SPK
19	SYMPK	ENSG00000125755	ENST00000598896	retained_intron	KNOWN	None	22935	None	None	46334428	46366390	-1	None	SYM, SPK
19	SYMPK	ENSG00000125755	ENST00000593899	processed_transcript	KNOWN	None	22935	None	None	46338354	46346330	-1	None	SYM, SPK
19	SYMPK	ENSG00000125755	ENST00000601582	retained_intron	KNOWN	None	22935	None	None	46341813	46345990	-1	None	SYM, SPK
19	SYMPK	ENSG00000125755	ENST00000596518	processed_transcript	KNOWN	None	22935	None	None	46341851	46346295	-1	None	SYM, SPK
19	SYMPK	ENSG00000125755	ENST00000602061	protein_coding	KNOWN	None	22935	426	141	46352008	46365809	-1	None	SYM, SPK
19	SYMPK	ENSG00000125755	ENST00000598059	protein_coding	KNOWN	None	22935	413	136	46352021	46366423	-1	None	SYM, SPK
19	SYMPK	ENSG00000125755	ENST00000594293	protein_coding	KNOWN	None	22935	346	114	46352088	46366452	-1	None	SYM, SPK
19	SYMPK	ENSG00000125755	ENST00000593959	retained_intron	KNOWN	None	22935	None	None	46355570	46366400	-1	None	SYM, SPK
19	SYMPK	ENSG00000125755	ENST00000601600	protein_coding	KNOWN	None	22935	151	49	46357453	46358463	-1	None	SYM, SPK
6	RPL37P15	ENSG00000216365	ENST00000404509	processed_pseudogene	KNOWN	None	36659	None	None	70808282	70808568	-1	None	None
6	RNU6-861P	ENSG00000252554	ENST00000516745	snRNA	KNOWN	None	47824	None	None	129758020	129758125	-1	None	None
3	ZNF662	ENSG00000182983	ENST00000440367	protein_coding	KNOWN	CCDS2708	31930	1281	426	42947223	42959133	1	None	FLJ45880
3	ZNF662	ENSG00000182983	ENST00000328199	protein_coding	KNOWN	CCDS46807	31930	1359	452	42947658	42958487	1	None	FLJ45880
3	ZNF662	ENSG00000182983	ENST00000475386	retained_intron	KNOWN	None	31930	None	None	42947666	42956862	1	None	FLJ45880
3	ZNF662	ENSG00000182983	ENST00000422021	protein_coding	PUTATIVE	None	31930	321	106	42949514	42959132	1	None	FLJ45880
3	ZNF662	ENSG00000182983	ENST00000430067	processed_transcript	KNOWN	None	31930	None	None	42950294	42954795	1	None	FLJ45880
3	ZNF662	ENSG00000182983	ENST00000541208	protein_coding	KNOWN	CCDS2708	31930	1281	426	42947658	42960825	1	None	FLJ45880
4	None	ENSG00000251427	ENST00000514471	unprocessed_pseudogene	KNOWN	None	None	None	None	70010452	70013389	1	None	None
6	None	ENSG00000233351	ENST00000442449	antisense	KNOWN	None	None	None	None	129800760	129802555	-1	None	None
19	ZIK1	ENSG00000171649	ENST00000598726	processed_transcript	KNOWN	None	33104	None	None	58089824	58099993	1	None	ZNF762
19	ZIK1	ENSG00000171649	ENST00000600053	protein_coding	PUTATIVE	None	33104	330	109	58094978	58101566	1	None	ZNF762
19	ZIK1	ENSG00000171649	ENST00000536878	protein_coding	NOVEL	None	33104	1425	474	58095508	58105145	1	None	ZNF762
19	ZIK1	ENSG00000171649	ENST00000597850	protein_coding	KNOWN	CCDS33135	33104	1464	487	58095510	58105145	1	None	ZNF762
19	ZIK1	ENSG00000171649	ENST00000597219	protein_coding	PUTATIVE	None	33104	92	29	58095513	58099983	1	None	ZNF762
19	ZIK1	ENSG00000171649	ENST00000598689	protein_coding	NOVEL	None	33104	322	106	58095513	58101582	1	None	ZNF762
19	ZIK1	ENSG00000171649	ENST00000599456	protein_coding	PUTATIVE	None	33104	1299	432	58095628	58103758	1	None	ZNF762
19	ZIK1	ENSG00000171649	ENST00000307468	protein_coding	PUTATIVE	None	33104	90	29	58095628	58103758	1	None	ZNF762
6	None	ENSG00000253809	ENST00000522264	antisense	KNOWN	None	None	None	None	70932461	70951859	1	None	None
HSCHR6_MHC_MCF	HLA-DRB9	ENSG00000228260	ENST00000431310	unprocessed_pseudogene	KNOWN	None	4957	None	None	32502893	32516548	-1	HLA-DRB1L, HLA-DR1BL	D6S206, D6S206E
HSCHR6_MHC_MCF	None	ENSG00000232441	ENST00000427530	unprocessed_pseudogene	KNOWN	None	None	None	None	32528786	32528881	-1	None	None
6	None	ENSG00000226149	ENST00000430296	lincRNA	KNOWN	None	None	None	None	129847771	129873732	-1	None	None
6	None	ENSG00000226149	ENST00000419061	lincRNA	KNOWN	None	None	None	None	129860493	129867773	-1	None	None
HSCHR6_MHC_MCF	None	ENSG00000264893	ENST00000584018	snRNA	NOVEL	None	None	None	None	32554352	32554499	-1	None	None
7	CALCR	ENSG00000004948	ENST00000421592	protein_coding	KNOWN	None	1440	1473	490	93053804	93203792	-1	None	CTR
7	CALCR	ENSG00000004948	ENST00000394441	protein_coding	NOVEL	CCDS5631	1440	1425	474	93055635	93189122	-1	None	CTR
7	CALCR	ENSG00000004948	ENST00000426151	protein_coding	NOVEL	CCDS5631	1440	1425	474	93055635	93204042	-1	None	CTR
7	CALCR	ENSG00000004948	ENST00000423724	nonsense_mediated_decay	KNOWN	None	1440	873	290	93055668	93116293	-1	None	CTR
7	CALCR	ENSG00000004948	ENST00000415529	nonsense_mediated_decay	KNOWN	None	1440	825	274	93055668	93116293	-1	None	CTR
7	CALCR	ENSG00000004948	ENST00000359558	protein_coding	KNOWN	CCDS55125	1440	1527	508	93053799	93204042	-1	None	CTR
7	CALCR	ENSG00000004948	ENST00000360249	protein_coding	KNOWN	None	1440	1473	490	93053799	93204042	-1	None	CTR
4	MIR367	ENSG00000199169	ENST00000362299	miRNA	KNOWN	None	31781	None	None	113569030	113569097	-1	MIRN367	hsa-mir-367
2	THAP4	ENSG00000176946	ENST00000402136	protein_coding	KNOWN	CCDS54440	23187	498	165	242523820	242556916	-1	None	CGI-36
2	THAP4	ENSG00000176946	ENST00000407315	protein_coding	KNOWN	CCDS2551	23187	1734	577	242523820	242576864	-1	None	CGI-36
2	THAP4	ENSG00000176946	ENST00000321679	retained_intron	KNOWN	None	23187	None	None	242523835	242541585	-1	None	CGI-36
2	THAP4	ENSG00000176946	ENST00000402545	protein_coding	NOVEL	None	23187	579	192	242523842	242556905	-1	None	CGI-36
2	THAP4	ENSG00000176946	ENST00000497486	processed_transcript	KNOWN	None	23187	None	None	242531366	242542409	-1	None	CGI-36
HSCHR6_MHC_MCF	None	ENSG00000235074	ENST00000417950	unprocessed_pseudogene	KNOWN	None	None	None	None	32559779	32559874	-1	None	None
11	CD5	ENSG00000110448	ENST00000347785	protein_coding	KNOWN	CCDS8000	1685	1488	495	60869867	60895324	1	LEU1	T1
11	CD5	ENSG00000110448	ENST00000544014	protein_coding	PUTATIVE	None	1685	495	164	60869981	60886831	1	LEU1	T1
20	None	ENSG00000221748	ENST00000408821	miRNA	NOVEL	None	None	None	None	19321940	19322016	1	None	None
10	None	ENSG00000228800	ENST00000440932	lincRNA	KNOWN	None	None	None	None	30842783	30843412	-1	None	None
6	None	ENSG00000211996	ENST00000390707	miRNA	NOVEL	None	None	None	None	130068882	130068964	1	None	None
20	None	ENSG00000216017	ENST00000401198	miRNA	NOVEL	None	None	None	None	19570741	19570831	-1	None	None
11	C11orf34	ENSG00000188771	ENST00000533819	protein_coding	NOVEL	None	30053	86	27	112119522	112119607	-1	None	PLET1
11	C11orf34	ENSG00000188771	ENST00000527122	protein_coding	NOVEL	None	30053	436	144	112123083	112131312	-1	None	PLET1
11	C11orf34	ENSG00000188771	ENST00000338832	protein_coding	KNOWN	None	30053	624	207	112118876	112131583	-1	None	PLET1
6	RPL5P21	ENSG00000218689	ENST00000404620	processed_pseudogene	KNOWN	None	37029	None	None	130077443	130078257	-1	None	None
20	None	ENSG00000232675	ENST00000435992	antisense	KNOWN	None	None	None	None	19673853	19677414	-1	None	None
20	None	ENSG00000232675	ENST00000600889	antisense	KNOWN	None	None	None	None	19673856	19677413	-1	None	None
20	None	ENSG00000232675	ENST00000598694	antisense	KNOWN	None	None	None	None	19673911	19677371	-1	None	None
20	None	ENSG00000232675	ENST00000593770	antisense	KNOWN	None	None	None	None	19673911	19677438	-1	None	None
16	RGS11	ENSG00000076344	ENST00000397770	protein_coding	KNOWN	CCDS42088	9993	1404	467	318300	325929	-1	None	None
16	RGS11	ENSG00000076344	ENST00000168869	nonsense_mediated_decay	KNOWN	None	9993	255	84	318300	325940	-1	None	None
16	RGS11	ENSG00000076344	ENST00000316163	protein_coding	PUTATIVE	CCDS10403	9993	1341	446	318310	325914	-1	None	None
16	RGS11	ENSG00000076344	ENST00000477143	retained_intron	KNOWN	None	9993	None	None	318318	324956	-1	None	None
16	RGS11	ENSG00000076344	ENST00000359740	protein_coding	NOVEL	None	9993	1371	456	319268	325911	-1	None	None
16	RGS11	ENSG00000076344	ENST00000481672	retained_intron	KNOWN	None	9993	None	None	320646	324273	-1	None	None
16	RGS11	ENSG00000076344	ENST00000493449	retained_intron	KNOWN	None	9993	None	None	321826	325980	-1	None	None
16	RGS11	ENSG00000076344	ENST00000472466	retained_intron	KNOWN	None	9993	None	None	324939	325567	-1	None	None
16	RGS11	ENSG00000076344	ENST00000397768	protein_coding	KNOWN	None	9993	786	261	322259	325937	-1	None	None
16	RGS11	ENSG00000076344	ENST00000431291	protein_coding	KNOWN	None	9993	405	134	324404	325915	-1	None	None
20	SEMG1	ENSG00000124233	ENST00000372781	protein_coding	KNOWN	CCDS13345	10742	1389	462	43835638	43838413	1	SEMG	CT103
20	SEMG1	ENSG00000124233	ENST00000244069	protein_coding	KNOWN	None	10742	1209	402	43835638	43837327	1	SEMG	CT103
20	None	ENSG00000239120	ENST00000459075	miRNA	NOVEL	None	None	None	None	19715460	19715553	-1	None	None
20	RAD21L1	ENSG00000244588	ENST00000402452	protein_coding	KNOWN	None	16271	1566	521	1206700	1277065	1	None	dJ545L17.2, RAD21L
20	RAD21L1	ENSG00000244588	ENST00000409241	protein_coding	KNOWN	CCDS46568	16271	1671	556	1206764	1235145	1	None	dJ545L17.2, RAD21L
20	RAD21L1	ENSG00000244588	ENST00000246108	protein_coding	KNOWN	None	16271	196	64	1206779	1210575	1	None	dJ545L17.2, RAD21L
20	RAD21L1	ENSG00000244588	ENST00000477283	processed_transcript	KNOWN	None	16271	None	None	1211121	1214761	1	None	dJ545L17.2, RAD21L
20	RAD21L1	ENSG00000244588	ENST00000381882	protein_coding	KNOWN	None	16271	1566	521	1206764	1277041	1	None	dJ545L17.2, RAD21L
19	MIR3940	ENSG00000266722	ENST00000579148	miRNA	KNOWN	None	38893	None	None	6416421	6416522	-1	None	hsa-mir-3940
19	None	ENSG00000268191	ENST00000596027	antisense	KNOWN	None	None	None	None	6494331	6495036	1	None	None
20	None	ENSG00000233895	ENST00000432334	lincRNA	KNOWN	None	None	None	None	19738352	19780320	1	None	None
20	None	ENSG00000233895	ENST00000412571	lincRNA	KNOWN	None	None	None	None	19738792	19789926	1	None	None
20	None	ENSG00000233895	ENST00000426012	lincRNA	KNOWN	None	None	None	None	19780217	19790319	1	None	None
19	None	ENSG00000268203	ENST00000599292	antisense	KNOWN	None	None	None	None	6494331	6494816	1	None	None
10	RN7SL63P	ENSG00000239744	ENST00000468228	misc_RNA	KNOWN	None	46079	None	None	30844532	30844833	-1	None	None
3	TM4SF1	ENSG00000169908	ENST00000305366	protein_coding	KNOWN	CCDS3143	11853	609	202	149086809	149095652	-1	M3S1	L6
3	TM4SF1	ENSG00000169908	ENST00000472441	protein_coding	PUTATIVE	None	11853	354	117	149086810	149093499	-1	M3S1	L6
3	TM4SF1	ENSG00000169908	ENST00000493348	nonsense_mediated_decay	KNOWN	None	11853	306	101	149087285	149095479	-1	M3S1	L6
3	TM4SF1	ENSG00000169908	ENST00000493298	nonsense_mediated_decay	KNOWN	None	11853	312	103	149089559	149095436	-1	M3S1	L6
11	None	ENSG00000268472	ENST00000595053	protein_coding	KNOWN	None	None	114	37	112130988	112132117	1	None	None
6	MIR1913	ENSG00000222958	ENST00000411026	miRNA	KNOWN	None	35397	None	None	166922842	166922921	-1	MIRN1913	hsa-mir-1913
20	None	ENSG00000236992	ENST00000424633	processed_pseudogene	KNOWN	None	None	None	None	19804087	19804587	-1	None	None
20	None	ENSG00000236992	ENST00000454660	processed_pseudogene	KNOWN	None	None	None	None	19804090	19804587	-1	None	None
19	KEAP1	ENSG00000079999	ENST00000171111	protein_coding	KNOWN	CCDS12239	23177	1875	624	10596796	10614417	-1	None	KIAA0132, MGC10630, MGC1114, MGC20887, MGC4407, MGC9454, INrf2, KLHL19
19	KEAP1	ENSG00000079999	ENST00000592478	protein_coding	NOVEL	None	23177	517	171	10596801	10602396	-1	None	KIAA0132, MGC10630, MGC1114, MGC20887, MGC4407, MGC9454, INrf2, KLHL19
19	KEAP1	ENSG00000079999	ENST00000393623	protein_coding	KNOWN	CCDS12239	23177	1875	624	10596802	10613572	-1	None	KIAA0132, MGC10630, MGC1114, MGC20887, MGC4407, MGC9454, INrf2, KLHL19
19	KEAP1	ENSG00000079999	ENST00000590237	retained_intron	KNOWN	None	23177	None	None	10597288	10600111	-1	None	KIAA0132, MGC10630, MGC1114, MGC20887, MGC4407, MGC9454, INrf2, KLHL19
19	KEAP1	ENSG00000079999	ENST00000590593	nonsense_mediated_decay	KNOWN	None	23177	350	115	10597394	10602556	-1	None	KIAA0132, MGC10630, MGC1114, MGC20887, MGC4407, MGC9454, INrf2, KLHL19
19	KEAP1	ENSG00000079999	ENST00000588024	processed_transcript	KNOWN	None	23177	None	None	10602623	10610185	-1	None	KIAA0132, MGC10630, MGC1114, MGC20887, MGC4407, MGC9454, INrf2, KLHL19
19	KEAP1	ENSG00000079999	ENST00000585845	nonsense_mediated_decay	KNOWN	None	23177	389	128	10602675	10614234	-1	None	KIAA0132, MGC10630, MGC1114, MGC20887, MGC4407, MGC9454, INrf2, KLHL19
19	KEAP1	ENSG00000079999	ENST00000592055	protein_coding	KNOWN	None	23177	838	278	10602740	10613862	-1	None	KIAA0132, MGC10630, MGC1114, MGC20887, MGC4407, MGC9454, INrf2, KLHL19
19	KEAP1	ENSG00000079999	ENST00000591419	protein_coding	KNOWN	None	23177	642	213	10602936	10613363	-1	None	KIAA0132, MGC10630, MGC1114, MGC20887, MGC4407, MGC9454, INrf2, KLHL19
19	KEAP1	ENSG00000079999	ENST00000591039	protein_coding	KNOWN	None	23177	636	211	10610074	10613361	-1	None	KIAA0132, MGC10630, MGC1114, MGC20887, MGC4407, MGC9454, INrf2, KLHL19
10	None	ENSG00000230298	ENST00000426067	lincRNA	KNOWN	None	None	None	None	30865628	30869111	1	None	None
21	DSCAM	ENSG00000171587	ENST00000400454	protein_coding	KNOWN	CCDS42929	3039	6039	2012	41382926	42219065	-1	None	CHD2-42, CHD2-52
21	DSCAM	ENSG00000171587	ENST00000404019	protein_coding	NOVEL	None	3039	5241	1746	41384828	41725581	-1	None	CHD2-42, CHD2-52
6	FAM103A2P	ENSG00000235272	ENST00000444122	processed_pseudogene	KNOWN	None	21234	None	None	166999612	166999965	-1	C6orf119	dJ427A4.2
6	None	ENSG00000235008	ENST00000454907	processed_pseudogene	KNOWN	None	None	None	None	167114582	167116327	-1	None	None
6	RAET1L	ENSG00000155918	ENST00000367341	protein_coding	KNOWN	CCDS5224	16798	741	246	150339470	150346607	-1	None	None
6	RAET1L	ENSG00000155918	ENST00000286380	protein_coding	KNOWN	CCDS5224	16798	741	246	150341266	150346668	-1	None	None
6	TMPOP1	ENSG00000229068	ENST00000424642	processed_pseudogene	KNOWN	None	21364	None	None	30434229	30435771	1	TMPOL1	Em:AB014080.3
20	None	ENSG00000241054	ENST00000470758	antisense	KNOWN	None	None	None	None	20075045	20076328	-1	None	None
20	None	ENSG00000225417	ENST00000443692	antisense	KNOWN	None	None	None	None	20194943	20195906	-1	None	None
10	None	ENSG00000231483	ENST00000425246	lincRNA	KNOWN	None	None	None	None	5650438	5652756	-1	None	None
6	RPS6KA2-AS1	ENSG00000231654	ENST00000455390	antisense	KNOWN	None	40511	None	None	167317186	167318323	1	None	None
20	SEMG2	ENSG00000124157	ENST00000372769	protein_coding	KNOWN	CCDS13346	10743	1749	582	43849941	43853099	1	None	SGII
6	SUCLA2P1	ENSG00000224936	ENST00000425839	processed_pseudogene	KNOWN	None	21632	None	None	30436659	30438028	1	SUCLA2P	Em:AB014080.4
20	RPL17P1	ENSG00000229500	ENST00000445304	processed_pseudogene	KNOWN	None	16559	None	None	20233947	20234482	-1	None	dJ1178H5.1
4	None	ENSG00000250259	ENST00000503095	lincRNA	KNOWN	None	None	None	None	1021466	1022760	1	None	None
X	CT47A12	ENSG00000226685	ENST00000419982	protein_coding	KNOWN	None	33292	867	288	120011344	120066151	-1	None	CT47.12
X	CT47A12	ENSG00000226685	ENST00000416816	protein_coding	KNOWN	CCDS56607	33292	867	288	120011344	120066151	-1	None	CT47.12
HSCHR6_MHC_DBB	VPS52	ENSG00000228425	ENST00000489636	retained_intron	KNOWN	None	10518	None	None	33195972	33217578	-1	SACM2L	ARE1
HSCHR6_MHC_DBB	VPS52	ENSG00000228425	ENST00000441058	protein_coding	KNOWN	None	10518	2172	723	33195972	33217596	-1	SACM2L	ARE1
HSCHR6_MHC_DBB	VPS52	ENSG00000228425	ENST00000471761	processed_transcript	KNOWN	None	10518	None	None	33195972	33217749	-1	SACM2L	ARE1
HSCHR6_MHC_DBB	VPS52	ENSG00000228425	ENST00000479062	processed_transcript	PUTATIVE	None	10518	None	None	33196306	33209315	-1	SACM2L	ARE1
HSCHR6_MHC_DBB	VPS52	ENSG00000228425	ENST00000471922	processed_transcript	PUTATIVE	None	10518	None	None	33196511	33210005	-1	SACM2L	ARE1
HSCHR6_MHC_DBB	VPS52	ENSG00000228425	ENST00000467430	processed_transcript	PUTATIVE	None	10518	None	None	33197617	33210266	-1	SACM2L	ARE1
HSCHR6_MHC_DBB	VPS52	ENSG00000228425	ENST00000475583	retained_intron	KNOWN	None	10518	None	None	33209250	33209924	-1	SACM2L	ARE1
HSCHR6_MHC_DBB	VPS52	ENSG00000228425	ENST00000475750	retained_intron	KNOWN	None	10518	None	None	33209781	33212967	-1	SACM2L	ARE1
HSCHR6_MHC_DBB	VPS52	ENSG00000228425	ENST00000471802	retained_intron	KNOWN	None	10518	None	None	33213168	33213855	-1	SACM2L	ARE1
HSCHR6_MHC_DBB	VPS52	ENSG00000228425	ENST00000491657	processed_transcript	KNOWN	None	10518	None	None	33213572	33217479	-1	SACM2L	ARE1
HSCHR6_MHC_DBB	VPS52	ENSG00000228425	ENST00000490433	processed_transcript	KNOWN	None	10518	None	None	33213573	33217586	-1	SACM2L	ARE1
10	None	ENSG00000228951	ENST00000427341	lincRNA	KNOWN	None	None	None	None	5658825	5660124	-1	None	None
19	LGALS7	ENSG00000205076	ENST00000378626	protein_coding	KNOWN	CCDS33012	6568	411	136	39261611	39264132	-1	None	GAL7, PIG1, TP53I1, LGALS7A
19	LGALS7	ENSG00000205076	ENST00000599035	protein_coding	PUTATIVE	None	6568	106	34	39262524	39264072	-1	None	GAL7, PIG1, TP53I1, LGALS7A
6	RANP1	ENSG00000236603	ENST00000455094	processed_pseudogene	KNOWN	None	21631	None	None	30453717	30454367	1	None	Em:AB014080.2
6	RANP1	ENSG00000236603	ENST00000437856	processed_pseudogene	KNOWN	None	21631	None	None	30453717	30454046	1	None	Em:AB014080.2
10	None	ENSG00000230998	ENST00000450581	lincRNA	KNOWN	None	None	None	None	30944418	30946464	1	None	None
4	None	ENSG00000251639	ENST00000513176	processed_pseudogene	KNOWN	None	None	None	None	1093804	1095346	-1	None	None
20	None	ENSG00000243810	ENST00000460400	antisense	KNOWN	None	None	None	None	20239051	20248453	-1	None	None
Y	USP9YP24	ENSG00000230814	ENST00000434374	unprocessed_pseudogene	KNOWN	None	38760	None	None	24674428	24682786	1	None	None
6	NKAIN2	ENSG00000188580	ENST00000476571	processed_transcript	KNOWN	None	16443	None	None	124125286	124712190	1	TCBA1	FAM77B
6	NKAIN2	ENSG00000188580	ENST00000368416	protein_coding	KNOWN	None	16443	567	188	124125286	124980104	1	TCBA1	FAM77B
6	NKAIN2	ENSG00000188580	ENST00000368417	protein_coding	KNOWN	CCDS34526	16443	627	208	124125286	125146803	1	TCBA1	FAM77B
6	NKAIN2	ENSG00000188580	ENST00000546092	protein_coding	KNOWN	None	16443	420	139	124125346	125139618	1	TCBA1	FAM77B
6	NKAIN2	ENSG00000188580	ENST00000545433	protein_coding	KNOWN	None	16443	576	191	124603384	125139618	1	TCBA1	FAM77B
7	RPL35P4	ENSG00000213783	ENST00000446039	processed_pseudogene	KNOWN	None	36285	None	None	27308976	27309297	-1	None	None
20	RN7SL690P	ENSG00000264879	ENST00000582087	misc_RNA	KNOWN	None	46706	None	None	20297428	20297684	-1	None	None
4	None	ENSG00000251652	ENST00000504969	antisense	KNOWN	None	None	None	None	1107427	1126738	1	None	None
4	None	ENSG00000251652	ENST00000510332	antisense	KNOWN	None	None	None	None	1126097	1126765	1	None	None
20	EIF4E2P1	ENSG00000213384	ENST00000393781	processed_pseudogene	KNOWN	None	16237	None	None	20640354	20640608	1	EIF4EL4	dJ1049G11.3
17	KRT25	ENSG00000204897	ENST00000312150	protein_coding	KNOWN	CCDS11373	30839	1353	450	38904273	38911584	-1	KRT25A	None
20	None	ENSG00000270793	ENST00000603571	processed_pseudogene	KNOWN	None	None	None	None	20701830	20702522	1	None	None
7	ZNF775	ENSG00000196456	ENST00000478789	protein_coding	KNOWN	None	28501	434	143	150065879	150094003	1	None	MGC33584
7	ZNF775	ENSG00000196456	ENST00000483664	processed_transcript	PUTATIVE	None	28501	None	None	150076418	150107685	1	None	MGC33584
7	ZNF775	ENSG00000196456	ENST00000329630	protein_coding	KNOWN	CCDS43678	28501	1614	537	150076424	150095719	1	None	MGC33584
7	ZNF775	ENSG00000196456	ENST00000490973	protein_coding	KNOWN	None	28501	498	165	150079784	150094067	1	None	MGC33584
7	ZNF775	ENSG00000196456	ENST00000486297	processed_transcript	KNOWN	None	28501	None	None	150079805	150107645	1	None	MGC33584
7	ZNF775	ENSG00000196456	ENST00000476489	processed_transcript	KNOWN	None	28501	None	None	150097790	150109558	1	None	MGC33584
7	ZNF775	ENSG00000196456	ENST00000464630	processed_transcript	PUTATIVE	None	28501	None	None	150101574	150107636	1	None	MGC33584
7	ZNF775	ENSG00000196456	ENST00000480389	processed_transcript	PUTATIVE	None	28501	None	None	150101952	150107352	1	None	MGC33584
7	ZNF775	ENSG00000196456	ENST00000498682	processed_transcript	KNOWN	None	28501	None	None	150102234	150107337	1	None	MGC33584
7	ZNF775	ENSG00000196456	ENST00000481877	processed_transcript	PUTATIVE	None	28501	None	None	150102530	150107451	1	None	MGC33584
7	ZNF775	ENSG00000196456	ENST00000491664	processed_transcript	KNOWN	None	28501	None	None	150102825	150105362	1	None	MGC33584
7	ZNF775	ENSG00000196456	ENST00000474836	processed_transcript	PUTATIVE	None	28501	None	None	150102862	150107687	1	None	MGC33584
Y	HSFY7P	ENSG00000228571	ENST00000432672	unprocessed_pseudogene	KNOWN	None	38791	None	None	24683194	24683996	1	None	None
7	None	ENSG00000221690	ENST00000408763	miRNA	NOVEL	None	None	None	None	121214723	121214808	-1	None	None
20	RN7SL607P	ENSG00000264361	ENST00000461220	misc_RNA	KNOWN	None	46623	None	None	20719078	20719374	-1	None	None
19	None	ENSG00000262874	ENST00000574814	protein_coding	KNOWN	CCDS58676	None	561	186	51891543	51893828	-1	None	None
19	None	ENSG00000262874	ENST00000570516	protein_coding	PUTATIVE	None	None	117	38	51892191	51893817	-1	None	None
11	None	ENSG00000224513	ENST00000418995	antisense	KNOWN	None	None	None	None	3247291	3254068	1	None	None
20	MRPS11P1	ENSG00000225803	ENST00000437558	processed_pseudogene	KNOWN	None	16584	None	None	20834764	20835285	-1	None	dJ746H2.1
Y	OFD1P9Y	ENSG00000230476	ENST00000417699	unprocessed_pseudogene	KNOWN	None	23881	None	None	24727136	24760228	-1	OFDYP9, OFD1P9, OFD1PY9	None
20	None	ENSG00000234104	ENST00000432942	lincRNA	KNOWN	None	None	None	None	20951089	20953203	1	None	None
7	None	ENSG00000227743	ENST00000432702	lincRNA	KNOWN	None	None	None	None	121283388	121290414	-1	None	None
11	ELMOD1	ENSG00000110675	ENST00000531234	protein_coding	PUTATIVE	None	25334	987	328	107461817	107536210	1	None	DKFZp547C176
11	ELMOD1	ENSG00000110675	ENST00000265840	protein_coding	KNOWN	CCDS44723	25334	1005	334	107461956	107537505	1	None	DKFZp547C176
11	ELMOD1	ENSG00000110675	ENST00000443271	protein_coding	KNOWN	CCDS44724	25334	981	326	107461975	107536686	1	None	DKFZp547C176
11	ELMOD1	ENSG00000110675	ENST00000524378	processed_transcript	PUTATIVE	None	25334	None	None	107462132	107494590	1	None	DKFZp547C176
11	ELMOD1	ENSG00000110675	ENST00000529675	processed_transcript	PUTATIVE	None	25334	None	None	107462471	107463949	1	None	DKFZp547C176
11	ELMOD1	ENSG00000110675	ENST00000527036	processed_transcript	PUTATIVE	None	25334	None	None	107462624	107491196	1	None	DKFZp547C176
11	ELMOD1	ENSG00000110675	ENST00000534236	retained_intron	KNOWN	None	25334	None	None	107524162	107526719	1	None	DKFZp547C176
20	LINC00237	ENSG00000225127	ENST00000593272	lincRNA	KNOWN	None	38166	None	None	21068245	21086999	-1	NCRNA00237	None
20	LINC00237	ENSG00000225127	ENST00000455890	lincRNA	KNOWN	None	38166	None	None	21073450	21082200	-1	NCRNA00237	None
20	LINC00237	ENSG00000225127	ENST00000420705	lincRNA	KNOWN	None	38166	None	None	21074199	21086975	-1	NCRNA00237	None
2	CCDC74B	ENSG00000152076	ENST00000496704	retained_intron	KNOWN	None	25267	None	None	130896860	130900601	-1	None	DKFZp434E2321
2	CCDC74B	ENSG00000152076	ENST00000409943	protein_coding	NOVEL	CCDS58726	25267	945	314	130896860	130902652	-1	None	DKFZp434E2321
2	CCDC74B	ENSG00000152076	ENST00000310463	protein_coding	KNOWN	CCDS2155	25267	1143	380	130896860	130902707	-1	None	DKFZp434E2321
2	CCDC74B	ENSG00000152076	ENST00000498526	retained_intron	KNOWN	None	25267	None	None	130897000	130897646	-1	None	DKFZp434E2321
2	CCDC74B	ENSG00000152076	ENST00000423263	nonsense_mediated_decay	KNOWN	None	25267	348	115	130897856	130902649	-1	None	DKFZp434E2321
2	CCDC74B	ENSG00000152076	ENST00000409128	protein_coding	PUTATIVE	None	25267	615	204	130898590	130902606	-1	None	DKFZp434E2321
2	CCDC74B	ENSG00000152076	ENST00000434929	nonsense_mediated_decay	KNOWN	None	25267	282	93	130898731	130902589	-1	None	DKFZp434E2321
2	CCDC74B	ENSG00000152076	ENST00000457413	protein_coding	PUTATIVE	None	25267	613	203	130899761	130902567	-1	None	DKFZp434E2321
2	CCDC74B	ENSG00000152076	ENST00000409234	protein_coding	PUTATIVE	None	25267	678	225	130900353	130902656	-1	None	DKFZp434E2321
2	CCDC74B	ENSG00000152076	ENST00000441670	protein_coding	PUTATIVE	None	25267	479	158	130900784	130902651	-1	None	DKFZp434E2321
2	CCDC74B	ENSG00000152076	ENST00000392984	protein_coding	KNOWN	None	25267	1449	482	130896862	130902606	-1	None	DKFZp434E2321
11	NDUFA5P8	ENSG00000236987	ENST00000449019	processed_pseudogene	KNOWN	None	48850	None	None	3297275	3297620	1	None	None
9	ZYG11AP1	ENSG00000232242	ENST00000430329	processed_pseudogene	KNOWN	None	38032	None	None	105373444	105374437	-1	None	None
17	SPECC1	ENSG00000128487	ENST00000472876	processed_transcript	KNOWN	None	30615	None	None	19912657	20140217	1	None	HCMOGT-1, FLJ36955, NSP, CYTSB
17	SPECC1	ENSG00000128487	ENST00000395527	protein_coding	KNOWN	CCDS32590	30615	3207	1068	19912676	20217451	1	None	HCMOGT-1, FLJ36955, NSP, CYTSB
17	SPECC1	ENSG00000128487	ENST00000583482	protein_coding	KNOWN	None	30615	303	100	19912677	20107665	1	None	HCMOGT-1, FLJ36955, NSP, CYTSB
17	SPECC1	ENSG00000128487	ENST00000583528	protein_coding	KNOWN	None	30615	234	77	19912679	20013826	1	None	HCMOGT-1, FLJ36955, NSP, CYTSB
17	SPECC1	ENSG00000128487	ENST00000583463	protein_coding	KNOWN	None	30615	398	131	19912692	20107760	1	None	HCMOGT-1, FLJ36955, NSP, CYTSB
17	SPECC1	ENSG00000128487	ENST00000578321	protein_coding	KNOWN	None	30615	57	18	19913176	20000021	1	None	HCMOGT-1, FLJ36955, NSP, CYTSB
17	SPECC1	ENSG00000128487	ENST00000582604	protein_coding	KNOWN	None	30615	64	20	19920458	20000028	1	None	HCMOGT-1, FLJ36955, NSP, CYTSB
17	SPECC1	ENSG00000128487	ENST00000413167	processed_transcript	KNOWN	None	30615	None	None	19976878	20107778	1	None	HCMOGT-1, FLJ36955, NSP, CYTSB
17	SPECC1	ENSG00000128487	ENST00000395529	protein_coding	KNOWN	CCDS42280	30615	2373	790	19990334	20142740	1	None	HCMOGT-1, FLJ36955, NSP, CYTSB
17	SPECC1	ENSG00000128487	ENST00000261503	protein_coding	KNOWN	CCDS32590	30615	3207	1068	19990335	20218068	1	None	HCMOGT-1, FLJ36955, NSP, CYTSB
17	SPECC1	ENSG00000128487	ENST00000581973	protein_coding	KNOWN	None	30615	307	101	19999005	20107669	1	None	HCMOGT-1, FLJ36955, NSP, CYTSB
17	SPECC1	ENSG00000128487	ENST00000580934	protein_coding	KNOWN	None	30615	221	72	19999006	20013813	1	None	HCMOGT-1, FLJ36955, NSP, CYTSB
17	SPECC1	ENSG00000128487	ENST00000582063	processed_transcript	KNOWN	None	30615	None	None	20058651	20108051	1	None	HCMOGT-1, FLJ36955, NSP, CYTSB
17	SPECC1	ENSG00000128487	ENST00000579688	processed_transcript	KNOWN	None	30615	None	None	20059055	20107970	1	None	HCMOGT-1, FLJ36955, NSP, CYTSB
17	SPECC1	ENSG00000128487	ENST00000395530	protein_coding	KNOWN	CCDS42281	30615	2964	987	20059302	20222339	1	None	HCMOGT-1, FLJ36955, NSP, CYTSB
17	SPECC1	ENSG00000128487	ENST00000467722	nonsense_mediated_decay	KNOWN	None	30615	78	25	20059307	20135718	1	None	HCMOGT-1, FLJ36955, NSP, CYTSB
17	SPECC1	ENSG00000128487	ENST00000395522	protein_coding	PUTATIVE	CCDS58531	30615	2112	703	20059396	20140923	1	None	HCMOGT-1, FLJ36955, NSP, CYTSB
17	SPECC1	ENSG00000128487	ENST00000395525	protein_coding	KNOWN	CCDS45628	30615	2130	709	20059402	20140492	1	None	HCMOGT-1, FLJ36955, NSP, CYTSB
17	SPECC1	ENSG00000128487	ENST00000581399	protein_coding	PUTATIVE	None	30615	1604	533	20108849	20218023	1	None	HCMOGT-1, FLJ36955, NSP, CYTSB
17	SPECC1	ENSG00000128487	ENST00000582226	protein_coding	NOVEL	None	30615	503	166	20109053	20140489	1	None	HCMOGT-1, FLJ36955, NSP, CYTSB
17	SPECC1	ENSG00000128487	ENST00000584527	protein_coding	PUTATIVE	None	30615	609	202	20109109	20140461	1	None	HCMOGT-1, FLJ36955, NSP, CYTSB
17	SPECC1	ENSG00000128487	ENST00000578153	protein_coding	PUTATIVE	None	30615	140	45	20200347	20209486	1	None	HCMOGT-1, FLJ36955, NSP, CYTSB
17	SPECC1	ENSG00000128487	ENST00000492188	retained_intron	KNOWN	None	30615	None	None	20208965	20218047	1	None	HCMOGT-1, FLJ36955, NSP, CYTSB
17	SPECC1	ENSG00000128487	ENST00000536879	protein_coding	KNOWN	None	30615	1227	408	20059385	20217594	1	None	HCMOGT-1, FLJ36955, NSP, CYTSB
7	RN7SKP277	ENSG00000252704	ENST00000516895	misc_RNA	KNOWN	None	46001	None	None	121376497	121376779	1	None	None
Y	RBMY2BP	ENSG00000224657	ENST00000451071	unprocessed_pseudogene	KNOWN	None	9918	None	None	24795392	24805025	1	RBMY2B	None
Y	RBMY2BP	ENSG00000224657	ENST00000541402	unprocessed_pseudogene	KNOWN	None	9918	None	None	24795392	24800925	1	RBMY2B	None
1	GPR88	ENSG00000181656	ENST00000315033	protein_coding	KNOWN	CCDS772	4539	1155	384	101003693	101007574	1	None	None
11	NDUFA5P1	ENSG00000232390	ENST00000433858	processed_pseudogene	KNOWN	None	7689	None	None	3343092	3343432	1	None	None
19	ZNF581	ENSG00000171425	ENST00000587252	protein_coding	KNOWN	CCDS12932	25017	594	197	56146825	56156988	1	None	HSPC189, FLJ22550
19	ZNF581	ENSG00000171425	ENST00000585995	protein_coding	KNOWN	None	25017	419	138	56152397	56156356	1	None	HSPC189, FLJ22550
19	ZNF581	ENSG00000171425	ENST00000270451	protein_coding	KNOWN	CCDS12932	25017	594	197	56154913	56156988	1	None	HSPC189, FLJ22550
19	ZNF581	ENSG00000171425	ENST00000588537	protein_coding	KNOWN	CCDS12932	25017	594	197	56155176	56156987	1	None	HSPC189, FLJ22550
20	RPL24P2	ENSG00000235065	ENST00000421023	processed_pseudogene	KNOWN	None	16597	None	None	21095364	21095838	1	None	dJ872K7.2
11	VPS37C	ENSG00000167987	ENST00000301765	protein_coding	KNOWN	CCDS31573	26097	1068	355	60897728	60929089	-1	None	FLJ20847
11	VPS37C	ENSG00000167987	ENST00000538036	protein_coding	KNOWN	None	26097	444	147	60899916	60928608	-1	None	FLJ20847
11	VPS37C	ENSG00000167987	ENST00000536000	retained_intron	KNOWN	None	26097	None	None	60900229	60928925	-1	None	FLJ20847
11	VPS37C	ENSG00000167987	ENST00000535818	retained_intron	KNOWN	None	26097	None	None	60905668	60929087	-1	None	FLJ20847
1	ANGPTL7	ENSG00000171819	ENST00000376819	protein_coding	KNOWN	CCDS128	24078	1041	346	11249398	11256038	1	None	CDT6, AngX
1	ANGPTL7	ENSG00000171819	ENST00000476934	processed_transcript	KNOWN	None	24078	None	None	11253684	11255235	1	None	CDT6, AngX
6	None	ENSG00000235781	ENST00000415195	antisense	KNOWN	None	None	None	None	30484043	30486994	1	None	None
7	FAM126A	ENSG00000122591	ENST00000432176	protein_coding	KNOWN	CCDS5377	24587	1566	521	22980878	23053748	-1	None	DRCTNNB1A, HCC, HYCC1, hyccin
7	FAM126A	ENSG00000122591	ENST00000440481	protein_coding	PUTATIVE	None	24587	1415	470	22980888	23053749	-1	None	DRCTNNB1A, HCC, HYCC1, hyccin
7	FAM126A	ENSG00000122591	ENST00000409923	protein_coding	NOVEL	None	24587	1260	419	22984128	23053703	-1	None	DRCTNNB1A, HCC, HYCC1, hyccin
7	FAM126A	ENSG00000122591	ENST00000498833	processed_transcript	KNOWN	None	24587	None	None	22985602	23000935	-1	None	DRCTNNB1A, HCC, HYCC1, hyccin
7	FAM126A	ENSG00000122591	ENST00000477349	processed_transcript	KNOWN	None	24587	None	None	23016388	23053707	-1	None	DRCTNNB1A, HCC, HYCC1, hyccin
7	FAM126A	ENSG00000122591	ENST00000409763	protein_coding	PUTATIVE	None	24587	345	114	23017783	23053693	-1	None	DRCTNNB1A, HCC, HYCC1, hyccin
7	FAM126A	ENSG00000122591	ENST00000467005	retained_intron	KNOWN	None	24587	None	None	23023369	23053710	-1	None	DRCTNNB1A, HCC, HYCC1, hyccin
7	FAM126A	ENSG00000122591	ENST00000465661	processed_transcript	KNOWN	None	24587	None	None	23023613	23053749	-1	None	DRCTNNB1A, HCC, HYCC1, hyccin
11	C11orf96	ENSG00000187479	ENST00000528572	protein_coding	PUTATIVE	None	38675	1254	417	43964055	43965888	1	None	AG2
11	C11orf96	ENSG00000187479	ENST00000339446	protein_coding	KNOWN	None	38675	1308	435	43946892	43964823	1	None	AG2
16	FENDRR	ENSG00000268388	ENST00000595886	lincRNA	KNOWN	None	43894	None	None	86508135	86542466	-1	FOXF1-AS1	lincFOXF1
16	FENDRR	ENSG00000268388	ENST00000600553	lincRNA	KNOWN	None	43894	None	None	86510730	86524487	-1	FOXF1-AS1	lincFOXF1
16	FENDRR	ENSG00000268388	ENST00000598996	lincRNA	KNOWN	None	43894	None	None	86521322	86524485	-1	FOXF1-AS1	lincFOXF1
16	FENDRR	ENSG00000268388	ENST00000599749	lincRNA	KNOWN	None	43894	None	None	86521343	86542705	-1	FOXF1-AS1	lincFOXF1
16	FENDRR	ENSG00000268388	ENST00000597578	lincRNA	KNOWN	None	43894	None	None	86523789	86542482	-1	FOXF1-AS1	lincFOXF1
16	FENDRR	ENSG00000268388	ENST00000594398	lincRNA	KNOWN	None	43894	None	None	86523832	86532191	-1	FOXF1-AS1	lincFOXF1
16	FENDRR	ENSG00000268388	ENST00000593604	lincRNA	KNOWN	None	43894	None	None	86523874	86542483	-1	FOXF1-AS1	lincFOXF1
16	KIF22	ENSG00000079616	ENST00000561482	protein_coding	PUTATIVE	CCDS58444	6391	1794	597	29802040	29816705	1	KNSL4	Kid, OBP-1, OBP-2
16	KIF22	ENSG00000079616	ENST00000160827	protein_coding	KNOWN	CCDS10653	6391	1998	665	29802041	29816706	1	KNSL4	Kid, OBP-1, OBP-2
16	KIF22	ENSG00000079616	ENST00000569636	protein_coding	NOVEL	None	6391	555	184	29802055	29810505	1	KNSL4	Kid, OBP-1, OBP-2
16	KIF22	ENSG00000079616	ENST00000570173	nonsense_mediated_decay	KNOWN	None	6391	270	89	29802075	29810070	1	KNSL4	Kid, OBP-1, OBP-2
16	KIF22	ENSG00000079616	ENST00000400751	protein_coding	PUTATIVE	CCDS58444	6391	1794	597	29802292	29816705	1	KNSL4	Kid, OBP-1, OBP-2
16	KIF22	ENSG00000079616	ENST00000569382	protein_coding	NOVEL	None	6391	1836	611	29808207	29816674	1	KNSL4	Kid, OBP-1, OBP-2
16	KIF22	ENSG00000079616	ENST00000563666	retained_intron	KNOWN	None	6391	None	None	29808309	29811497	1	KNSL4	Kid, OBP-1, OBP-2
16	KIF22	ENSG00000079616	ENST00000563263	processed_transcript	KNOWN	None	6391	None	None	29810474	29811541	1	KNSL4	Kid, OBP-1, OBP-2
16	KIF22	ENSG00000079616	ENST00000565736	retained_intron	KNOWN	None	6391	None	None	29814721	29816677	1	KNSL4	Kid, OBP-1, OBP-2
16	KIF22	ENSG00000079616	ENST00000568312	nonsense_mediated_decay	KNOWN	None	6391	219	72	29814821	29816676	1	KNSL4	Kid, OBP-1, OBP-2
16	KIF22	ENSG00000079616	ENST00000400750	protein_coding	KNOWN	None	6391	219	72	29802076	29815938	1	KNSL4	Kid, OBP-1, OBP-2
15	B2M	ENSG00000166710	ENST00000558401	protein_coding	KNOWN	CCDS10113	914	360	119	45003675	45011075	1	None	None
15	B2M	ENSG00000166710	ENST00000559720	nonsense_mediated_decay	KNOWN	None	914	369	122	45003685	45009963	1	None	None
15	B2M	ENSG00000166710	ENST00000561424	nonsense_mediated_decay	KNOWN	CCDS10113	914	360	119	45003707	45011049	1	None	None
15	B2M	ENSG00000166710	ENST00000559916	protein_coding	KNOWN	CCDS10113	914	360	119	45003711	45009227	1	None	None
15	B2M	ENSG00000166710	ENST00000349264	nonsense_mediated_decay	KNOWN	None	914	174	57	45003715	45010265	1	None	None
15	B2M	ENSG00000166710	ENST00000557901	nonsense_mediated_decay	KNOWN	None	914	156	51	45003717	45009820	1	None	None
15	B2M	ENSG00000166710	ENST00000559907	processed_transcript	KNOWN	None	914	None	None	45004125	45009902	1	None	None
15	B2M	ENSG00000166710	ENST00000560681	retained_intron	KNOWN	None	914	None	None	45004157	45008757	1	None	None
15	B2M	ENSG00000166710	ENST00000559220	processed_transcript	PUTATIVE	None	914	None	None	45006705	45010342	1	None	None
15	B2M	ENSG00000166710	ENST00000561139	nonsense_mediated_decay	KNOWN	None	914	216	71	45007698	45010343	1	None	None
15	B2M	ENSG00000166710	ENST00000560556	processed_transcript	PUTATIVE	None	914	None	None	45007924	45009137	1	None	None
15	B2M	ENSG00000166710	ENST00000544417	protein_coding	KNOWN	None	914	369	122	45003715	45008550	1	None	None
7	LHFPL3	ENSG00000187416	ENST00000424859	protein_coding	KNOWN	None	6589	669	222	103969104	104547679	1	LHFPL4	None
7	LHFPL3	ENSG00000187416	ENST00000401970	protein_coding	PUTATIVE	None	6589	657	218	103969148	104547201	1	LHFPL4	None
7	LHFPL3	ENSG00000187416	ENST00000535008	protein_coding	KNOWN	None	6589	711	236	103969104	104549001	1	LHFPL4	None
7	LHFPL3	ENSG00000187416	ENST00000543266	protein_coding	KNOWN	None	6589	699	232	103969148	104547202	1	LHFPL4	None
6	MIR877	ENSG00000216101	ENST00000401282	miRNA	KNOWN	None	33660	None	None	30552109	30552194	1	MIRN877	hsa-mir-877
7	PNPT1P2	ENSG00000233272	ENST00000456768	processed_pseudogene	KNOWN	None	44469	None	None	121482422	121485185	-1	None	None
6	None	ENSG00000222894	ENST00000410962	miRNA	KNOWN	None	None	None	None	30584006	30584082	-1	None	None
Y	None	ENSG00000250136	ENST00000400578	processed_transcript	KNOWN	None	None	None	None	24795438	24800925	1	None	None
5	None	ENSG00000248652	ENST00000507687	processed_pseudogene	KNOWN	None	None	None	None	56377572	56377778	-1	None	None
6	PTMAP1	ENSG00000228415	ENST00000455552	processed_pseudogene	KNOWN	None	9624	None	None	30601409	30601675	1	None	Em:AB023049.6
HSCHR6_MHC_SSTO	MRPS18B	ENSG00000223775	ENST00000412451	protein_coding	KNOWN	None	14516	777	258	30576907	30585593	1	None	MRPS18-2, PTD017, C6orf14, HSPC183
HSCHR6_MHC_SSTO	MRPS18B	ENSG00000223775	ENST00000495921	retained_intron	KNOWN	None	14516	None	None	30577041	30579322	1	None	MRPS18-2, PTD017, C6orf14, HSPC183
HSCHR6_MHC_SSTO	MRPS18B	ENSG00000223775	ENST00000481158	retained_intron	KNOWN	None	14516	None	None	30577050	30585593	1	None	MRPS18-2, PTD017, C6orf14, HSPC183
HSCHR6_MHC_SSTO	MRPS18B	ENSG00000223775	ENST00000428224	protein_coding	KNOWN	None	14516	648	215	30577058	30585593	1	None	MRPS18-2, PTD017, C6orf14, HSPC183
HSCHR6_MHC_SSTO	MRPS18B	ENSG00000223775	ENST00000472444	processed_transcript	KNOWN	None	14516	None	None	30577058	30585593	1	None	MRPS18-2, PTD017, C6orf14, HSPC183
10	RN7SKP143	ENSG00000222451	ENST00000410519	misc_RNA	KNOWN	None	45867	None	None	91923408	91923717	-1	None	None
19	RAB4B-EGLN2	ENSG00000171570	ENST00000601949	processed_transcript	KNOWN	None	44465	None	None	41284147	41306348	1	None	RERT-lncRNA
19	RAB4B-EGLN2	ENSG00000171570	ENST00000594136	nonsense_mediated_decay	KNOWN	CCDS33030	44465	642	213	41284176	41314103	1	None	RERT-lncRNA
19	RAB4B-EGLN2	ENSG00000171570	ENST00000596216	retained_intron	KNOWN	None	44465	None	None	41286284	41306301	1	None	RERT-lncRNA
7	HNRNPA1P73	ENSG00000236569	ENST00000446472	processed_pseudogene	KNOWN	None	48803	None	None	27368226	27369153	-1	None	None
6	None	ENSG00000266183	ENST00000583820	miRNA	NOVEL	None	None	None	None	30616443	30616536	1	None	None
Y	None	ENSG00000224917	ENST00000434179	unprocessed_pseudogene	KNOWN	None	None	None	None	24816763	24819006	-1	None	None
10	LARP4B	ENSG00000107929	ENST00000316157	protein_coding	KNOWN	CCDS31131	28987	2217	738	855484	931702	-1	KIAA0217, LARP5	None
10	LARP4B	ENSG00000107929	ENST00000448368	protein_coding	KNOWN	None	28987	1018	338	858446	871184	-1	KIAA0217, LARP5	None
10	LARP4B	ENSG00000107929	ENST00000440895	protein_coding	KNOWN	None	28987	547	181	860491	863786	-1	KIAA0217, LARP5	None
10	LARP4B	ENSG00000107929	ENST00000469487	processed_transcript	KNOWN	None	28987	None	None	860702	861655	-1	KIAA0217, LARP5	None
10	LARP4B	ENSG00000107929	ENST00000476529	processed_transcript	KNOWN	None	28987	None	None	909683	977440	-1	KIAA0217, LARP5	None
10	LARP4B	ENSG00000107929	ENST00000406525	protein_coding	KNOWN	None	28987	394	130	909719	977564	-1	KIAA0217, LARP5	None
10	LARP4B	ENSG00000107929	ENST00000481118	processed_transcript	KNOWN	None	28987	None	None	910094	977416	-1	KIAA0217, LARP5	None
10	LARP4B	ENSG00000107929	ENST00000412411	protein_coding	KNOWN	None	28987	171	56	910181	949455	-1	KIAA0217, LARP5	None
5	None	ENSG00000250480	ENST00000514668	processed_pseudogene	KNOWN	None	None	None	None	56416623	56418451	1	None	None
10	None	ENSG00000236373	ENST00000418379	lincRNA	KNOWN	None	None	None	None	92162278	92300562	-1	None	None
X	KDM6A	ENSG00000147050	ENST00000377967	protein_coding	KNOWN	CCDS14265	12637	4206	1401	44732757	44971847	1	UTX	None
X	KDM6A	ENSG00000147050	ENST00000475233	processed_transcript	KNOWN	None	12637	None	None	44732961	44879975	1	UTX	None
X	KDM6A	ENSG00000147050	ENST00000451692	protein_coding	KNOWN	None	12637	671	222	44918527	44922921	1	UTX	None
X	KDM6A	ENSG00000147050	ENST00000414389	protein_coding	KNOWN	None	12637	2998	998	44918591	44971847	1	UTX	None
X	KDM6A	ENSG00000147050	ENST00000433797	protein_coding	KNOWN	None	12637	3133	1043	44919302	44971847	1	UTX	None
X	KDM6A	ENSG00000147050	ENST00000485072	processed_transcript	KNOWN	None	12637	None	None	44941643	44942768	1	UTX	None
X	KDM6A	ENSG00000147050	ENST00000484732	processed_transcript	KNOWN	None	12637	None	None	44941831	44945470	1	UTX	None
X	KDM6A	ENSG00000147050	ENST00000431196	protein_coding	KNOWN	None	12637	484	160	44950062	44970907	1	UTX	None
X	KDM6A	ENSG00000147050	ENST00000479423	processed_transcript	KNOWN	None	12637	None	None	44966185	44969494	1	UTX	None
X	KDM6A	ENSG00000147050	ENST00000536777	protein_coding	KNOWN	None	12637	4071	1356	44732781	44970753	1	UTX	None
X	KDM6A	ENSG00000147050	ENST00000382899	protein_coding	KNOWN	None	12637	4227	1408	44732781	44970749	1	UTX	None
X	KDM6A	ENSG00000147050	ENST00000543216	protein_coding	KNOWN	None	12637	3969	1322	44732798	44970656	1	UTX	None
3	GTF2E1	ENSG00000153767	ENST00000484715	protein_coding	KNOWN	None	4650	148	48	120461484	120469547	1	None	TFIIE-A, FE
3	GTF2E1	ENSG00000153767	ENST00000469772	protein_coding	PUTATIVE	None	4650	387	128	120461579	120495507	1	None	TFIIE-A, FE
3	GTF2E1	ENSG00000153767	ENST00000283875	protein_coding	KNOWN	CCDS3002	4650	1320	439	120461579	120501916	1	None	TFIIE-A, FE
3	GTF2E1	ENSG00000153767	ENST00000492959	protein_coding	KNOWN	None	4650	366	121	120461591	120469765	1	None	TFIIE-A, FE
3	GTF2E1	ENSG00000153767	ENST00000497393	retained_intron	KNOWN	None	4650	None	None	120461609	120469903	1	None	TFIIE-A, FE
Y	RBMY2WP	ENSG00000230727	ENST00000424230	unprocessed_pseudogene	KNOWN	None	23900	None	None	24908998	24915934	-1	None	None
6	None	ENSG00000219666	ENST00000403074	processed_pseudogene	KNOWN	None	None	None	None	130104914	130105190	-1	None	None
22	THAP7	ENSG00000184436	ENST00000498406	retained_intron	KNOWN	None	23190	None	None	21353393	21356031	-1	None	MGC10963
22	THAP7	ENSG00000184436	ENST00000215742	protein_coding	KNOWN	CCDS13787	23190	930	309	21354061	21356375	-1	None	MGC10963
22	THAP7	ENSG00000184436	ENST00000471073	retained_intron	KNOWN	None	23190	None	None	21354062	21356084	-1	None	MGC10963
22	THAP7	ENSG00000184436	ENST00000399133	protein_coding	KNOWN	CCDS13787	23190	930	309	21354066	21356485	-1	None	MGC10963
22	THAP7	ENSG00000184436	ENST00000476667	retained_intron	KNOWN	None	23190	None	None	21354091	21356395	-1	None	MGC10963
22	THAP7	ENSG00000184436	ENST00000466670	retained_intron	KNOWN	None	23190	None	None	21354519	21356406	-1	None	MGC10963
22	THAP7	ENSG00000184436	ENST00000488975	retained_intron	KNOWN	None	23190	None	None	21354561	21355807	-1	None	MGC10963
22	THAP7	ENSG00000184436	ENST00000471723	retained_intron	KNOWN	None	23190	None	None	21355581	21356407	-1	None	MGC10963
Y	TTTY17A	ENSG00000228240	ENST00000416110	lincRNA	KNOWN	None	18841	None	None	24997731	24998862	1	TTTY17	NCRNA00140
19	None	ENSG00000267314	ENST00000588891	nonsense_mediated_decay	KNOWN	None	None	207	68	5904852	5914718	1	None	None
Y	ZNF736P11Y	ENSG00000215537	ENST00000442535	processed_pseudogene	KNOWN	None	38426	None	None	25012691	25013903	-1	None	None
12	None	ENSG00000206044	ENST00000382678	protein_coding	KNOWN	None	None	939	312	2958397	2966213	-1	None	None
19	UPF1	ENSG00000005007	ENST00000262803	protein_coding	KNOWN	CCDS12386	9962	3357	1118	18942747	18979045	1	RENT1	HUPF1, KIAA0221, NORF1, pNORF1, smg-2
19	UPF1	ENSG00000005007	ENST00000599848	protein_coding	KNOWN	None	9962	3390	1129	18942810	18979038	1	RENT1	HUPF1, KIAA0221, NORF1, pNORF1, smg-2
19	UPF1	ENSG00000005007	ENST00000601981	processed_transcript	KNOWN	None	9962	None	None	18943939	18961500	1	RENT1	HUPF1, KIAA0221, NORF1, pNORF1, smg-2
19	UPF1	ENSG00000005007	ENST00000594504	processed_transcript	KNOWN	None	9962	None	None	18958942	18961585	1	RENT1	HUPF1, KIAA0221, NORF1, pNORF1, smg-2
19	UPF1	ENSG00000005007	ENST00000600012	processed_transcript	KNOWN	None	9962	None	None	18959817	18962991	1	RENT1	HUPF1, KIAA0221, NORF1, pNORF1, smg-2
19	UPF1	ENSG00000005007	ENST00000600868	processed_transcript	KNOWN	None	9962	None	None	18959817	18963105	1	RENT1	HUPF1, KIAA0221, NORF1, pNORF1, smg-2
19	UPF1	ENSG00000005007	ENST00000598209	processed_transcript	KNOWN	None	9962	None	None	18959891	18963045	1	RENT1	HUPF1, KIAA0221, NORF1, pNORF1, smg-2
19	UPF1	ENSG00000005007	ENST00000600310	processed_transcript	KNOWN	None	9962	None	None	18959975	18963063	1	RENT1	HUPF1, KIAA0221, NORF1, pNORF1, smg-2
19	UPF1	ENSG00000005007	ENST00000598471	processed_transcript	KNOWN	None	9962	None	None	18960622	18963003	1	RENT1	HUPF1, KIAA0221, NORF1, pNORF1, smg-2
19	UPF1	ENSG00000005007	ENST00000601689	retained_intron	KNOWN	None	9962	None	None	18963807	18965966	1	RENT1	HUPF1, KIAA0221, NORF1, pNORF1, smg-2
19	UPF1	ENSG00000005007	ENST00000594243	retained_intron	KNOWN	None	9962	None	None	18965722	18966489	1	RENT1	HUPF1, KIAA0221, NORF1, pNORF1, smg-2
19	UPF1	ENSG00000005007	ENST00000596842	retained_intron	KNOWN	None	9962	None	None	18970192	18979038	1	RENT1	HUPF1, KIAA0221, NORF1, pNORF1, smg-2
19	UPF1	ENSG00000005007	ENST00000600689	retained_intron	KNOWN	None	9962	None	None	18973742	18979038	1	RENT1	HUPF1, KIAA0221, NORF1, pNORF1, smg-2
13	METTL21C	ENSG00000139780	ENST00000267273	protein_coding	KNOWN	CCDS32003	33717	795	264	103338094	103346854	-1	C13orf39	LOC196541
4	FAM218BP	ENSG00000221891	ENST00000408897	processed_pseudogene	KNOWN	None	43779	None	None	165850646	165851103	-1	None	None
19	VMAC	ENSG00000187650	ENST00000339485	protein_coding	KNOWN	CCDS32881	33803	510	169	5904869	5910864	1	None	None
22	WBP2NL	ENSG00000183066	ENST00000412113	nonsense_mediated_decay	KNOWN	None	28389	822	273	42394729	42428773	1	None	FLJ26145, MGC26816, PAWP
22	WBP2NL	ENSG00000183066	ENST00000329620	nonsense_mediated_decay	KNOWN	CCDS14029	28389	930	309	42394729	42428933	1	None	FLJ26145, MGC26816, PAWP
22	WBP2NL	ENSG00000183066	ENST00000436265	nonsense_mediated_decay	KNOWN	CCDS14029	28389	930	309	42394776	42454460	1	None	FLJ26145, MGC26816, PAWP
22	WBP2NL	ENSG00000183066	ENST00000475341	processed_transcript	KNOWN	None	28389	None	None	42394792	42423044	1	None	FLJ26145, MGC26816, PAWP
22	WBP2NL	ENSG00000183066	ENST00000328823	protein_coding	KNOWN	CCDS14029	28389	930	309	42394792	42424479	1	None	FLJ26145, MGC26816, PAWP
22	WBP2NL	ENSG00000183066	ENST00000461730	processed_transcript	KNOWN	None	28389	None	None	42394797	42399467	1	None	FLJ26145, MGC26816, PAWP
22	WBP2NL	ENSG00000183066	ENST00000445185	nonsense_mediated_decay	KNOWN	None	28389	252	83	42394797	42422798	1	None	FLJ26145, MGC26816, PAWP
22	WBP2NL	ENSG00000183066	ENST00000487176	processed_transcript	KNOWN	None	28389	None	None	42423167	42428773	1	None	FLJ26145, MGC26816, PAWP
22	WBP2NL	ENSG00000183066	ENST00000470812	retained_intron	KNOWN	None	28389	None	None	42426550	42428935	1	None	FLJ26145, MGC26816, PAWP
22	WBP2NL	ENSG00000183066	ENST00000543212	protein_coding	KNOWN	None	28389	708	235	42415717	42428654	1	None	FLJ26145, MGC26816, PAWP
11	KIAA1731	ENSG00000166004	ENST00000325212	protein_coding	KNOWN	CCDS44708	29366	7806	2601	93394805	93463522	1	None	None
11	KIAA1731	ENSG00000166004	ENST00000531622	processed_transcript	PUTATIVE	None	29366	None	None	93424847	93428786	1	None	None
11	KIAA1731	ENSG00000166004	ENST00000531877	protein_coding	PUTATIVE	None	29366	744	247	93424871	93430141	1	None	None
11	KIAA1731	ENSG00000166004	ENST00000531700	protein_coding	PUTATIVE	None	29366	2346	781	93428696	93463522	1	None	None
11	KIAA1731	ENSG00000166004	ENST00000530425	protein_coding	PUTATIVE	None	29366	414	137	93432074	93456230	1	None	None
11	KIAA1731	ENSG00000166004	ENST00000531404	protein_coding	KNOWN	None	29366	1738	578	93455668	93463246	1	None	None
11	KIAA1731	ENSG00000166004	ENST00000529185	protein_coding	PUTATIVE	None	29366	237	78	93456565	93460281	1	None	None
11	KIAA1731	ENSG00000166004	ENST00000411936	protein_coding	KNOWN	None	29366	7809	2602	93394816	93463522	1	None	None
11	KIAA1731	ENSG00000166004	ENST00000344196	protein_coding	KNOWN	None	29366	2346	781	93394816	93463522	1	None	None
4	None	ENSG00000196472	ENST00000514545	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	70047378	70048090	1	None	None
4	None	ENSG00000196472	ENST00000359217	pseudogene	KNOWN	None	None	None	None	70047444	70048006	1	None	None
7	BHLHA15	ENSG00000180535	ENST00000314018	protein_coding	KNOWN	CCDS5655	22265	570	189	97841566	97842271	1	BHLHB8	MIST1, bHLHa15
Y	TTTY4	ENSG00000226906	ENST00000436568	lincRNA	KNOWN	None	16481	None	None	25082602	25119431	1	None	TTY4, TTTY4A, LINC00123
X	None	ENSG00000236751	ENST00000446884	lincRNA	KNOWN	None	None	None	None	46185359	46187080	-1	None	None
11	None	ENSG00000254592	ENST00000526922	antisense	KNOWN	None	None	None	None	3357951	3361860	1	None	None
19	None	ENSG00000267477	ENST00000585656	nonsense_mediated_decay	KNOWN	None	None	566	187	11577055	11616513	-1	None	None
11	IGSF22	ENSG00000179057	ENST00000513874	protein_coding	KNOWN	CCDS41625	26750	3981	1326	18725852	18747727	-1	None	FLJ37794
11	IGSF22	ENSG00000179057	ENST00000319338	nonsense_mediated_decay	KNOWN	None	26750	2712	903	18725859	18747777	-1	None	FLJ37794
11	IGSF22	ENSG00000179057	ENST00000510673	processed_transcript	KNOWN	None	26750	None	None	18726965	18727676	-1	None	FLJ37794
11	IGSF22	ENSG00000179057	ENST00000504981	retained_intron	KNOWN	None	26750	None	None	18728588	18747728	-1	None	FLJ37794
11	IGSF22	ENSG00000179057	ENST00000412229	processed_transcript	KNOWN	None	26750	None	None	18743349	18747721	-1	None	FLJ37794
Y	None	ENSG00000244000	ENST00000422002	processed_pseudogene	KNOWN	None	None	None	None	25163210	25163968	1	None	None
17	MED9	ENSG00000141026	ENST00000268711	protein_coding	KNOWN	CCDS11184	25487	441	146	17380300	17396540	1	None	FLJ10193, MED25
17	MED9	ENSG00000141026	ENST00000580462	protein_coding	PUTATIVE	None	25487	249	82	17380308	17388906	1	None	FLJ10193, MED25
17	MED9	ENSG00000141026	ENST00000585041	processed_transcript	KNOWN	None	25487	None	None	17380320	17380998	1	None	FLJ10193, MED25
17	MED9	ENSG00000141026	ENST00000581315	nonsense_mediated_decay	KNOWN	None	25487	249	82	17380339	17394785	1	None	FLJ10193, MED25
11	ACCSL	ENSG00000205126	ENST00000378832	protein_coding	KNOWN	CCDS41636	34391	1707	568	44069531	44081527	1	None	None
11	ACCSL	ENSG00000205126	ENST00000527145	nonsense_mediated_decay	KNOWN	None	34391	528	175	44069565	44081500	1	None	None
17	None	ENSG00000227450	ENST00000539023	protein_coding	PUTATIVE	None	None	591	196	36905613	36906969	1	None	None
4	None	ENSG00000270960	ENST00000605838	processed_pseudogene	KNOWN	None	None	None	None	165854238	165854658	-1	None	None
11	OR51D1	ENSG00000197428	ENST00000357605	protein_coding	KNOWN	CCDS31357	15193	975	324	4660945	4662068	1	None	OR51D1Q
4	None	ENSG00000248645	ENST00000514228	unprocessed_pseudogene	KNOWN	None	None	None	None	165859474	165861142	-1	None	None
7	None	ENSG00000224322	ENST00000412413	lincRNA	KNOWN	None	None	None	None	27401462	27449557	1	None	None
12	HECTD4	ENSG00000173064	ENST00000550722	protein_coding	NOVEL	None	26611	12819	4272	112598001	112819896	-1	C12orf51	FLJ34154, KIAA0614
12	HECTD4	ENSG00000173064	ENST00000549306	processed_transcript	KNOWN	None	26611	None	None	112598067	112600066	-1	C12orf51	FLJ34154, KIAA0614
12	HECTD4	ENSG00000173064	ENST00000549141	processed_transcript	KNOWN	None	26611	None	None	112598126	112598906	-1	C12orf51	FLJ34154, KIAA0614
12	HECTD4	ENSG00000173064	ENST00000547085	retained_intron	KNOWN	None	26611	None	None	112600573	112607989	-1	C12orf51	FLJ34154, KIAA0614
12	HECTD4	ENSG00000173064	ENST00000548140	retained_intron	KNOWN	None	26611	None	None	112603985	112605685	-1	C12orf51	FLJ34154, KIAA0614
12	HECTD4	ENSG00000173064	ENST00000548588	retained_intron	KNOWN	None	26611	None	None	112608544	112614506	-1	C12orf51	FLJ34154, KIAA0614
12	HECTD4	ENSG00000173064	ENST00000548896	processed_transcript	KNOWN	None	26611	None	None	112632801	112639242	-1	C12orf51	FLJ34154, KIAA0614
12	HECTD4	ENSG00000173064	ENST00000550968	retained_intron	KNOWN	None	26611	None	None	112640767	112665980	-1	C12orf51	FLJ34154, KIAA0614
12	HECTD4	ENSG00000173064	ENST00000552437	retained_intron	KNOWN	None	26611	None	None	112654625	112657384	-1	C12orf51	FLJ34154, KIAA0614
12	HECTD4	ENSG00000173064	ENST00000547519	retained_intron	KNOWN	None	26611	None	None	112664258	112669267	-1	C12orf51	FLJ34154, KIAA0614
12	HECTD4	ENSG00000173064	ENST00000311694	retained_intron	KNOWN	None	26611	None	None	112687361	112711597	-1	C12orf51	FLJ34154, KIAA0614
12	HECTD4	ENSG00000173064	ENST00000547352	retained_intron	KNOWN	None	26611	None	None	112696184	112699940	-1	C12orf51	FLJ34154, KIAA0614
12	HECTD4	ENSG00000173064	ENST00000550724	protein_coding	PUTATIVE	None	26611	181	59	112703737	112819896	-1	C12orf51	FLJ34154, KIAA0614
12	HECTD4	ENSG00000173064	ENST00000377560	protein_coding	KNOWN	None	26611	12741	4246	112597992	112819896	-1	C12orf51	FLJ34154, KIAA0614
12	HECTD4	ENSG00000173064	ENST00000430131	protein_coding	KNOWN	None	26611	11991	3996	112597992	112819896	-1	C12orf51	FLJ34154, KIAA0614
11	AMBRA1	ENSG00000110497	ENST00000314845	protein_coding	KNOWN	CCDS31475	25990	3627	1208	46417964	46612914	-1	None	FLJ20294, KIAA1736, WDR94, DCAF3
11	AMBRA1	ENSG00000110497	ENST00000533727	protein_coding	NOVEL	CCDS58132	25990	3540	1179	46417964	46615498	-1	None	FLJ20294, KIAA1736, WDR94, DCAF3
11	AMBRA1	ENSG00000110497	ENST00000534300	protein_coding	KNOWN	None	25990	3717	1238	46417964	46615571	-1	None	FLJ20294, KIAA1736, WDR94, DCAF3
11	AMBRA1	ENSG00000110497	ENST00000458649	protein_coding	KNOWN	None	25990	3897	1298	46417965	46612973	-1	None	FLJ20294, KIAA1736, WDR94, DCAF3
11	AMBRA1	ENSG00000110497	ENST00000526545	protein_coding	NOVEL	None	25990	771	256	46418934	46439545	-1	None	FLJ20294, KIAA1736, WDR94, DCAF3
11	AMBRA1	ENSG00000110497	ENST00000528950	protein_coding	KNOWN	None	25990	3810	1269	46419000	46615595	-1	None	FLJ20294, KIAA1736, WDR94, DCAF3
11	AMBRA1	ENSG00000110497	ENST00000529553	retained_intron	KNOWN	None	25990	None	None	46456399	46515443	-1	None	FLJ20294, KIAA1736, WDR94, DCAF3
11	AMBRA1	ENSG00000110497	ENST00000529963	processed_transcript	KNOWN	None	25990	None	None	46512548	46517061	-1	None	FLJ20294, KIAA1736, WDR94, DCAF3
11	AMBRA1	ENSG00000110497	ENST00000529558	processed_transcript	KNOWN	None	25990	None	None	46526029	46552157	-1	None	FLJ20294, KIAA1736, WDR94, DCAF3
11	AMBRA1	ENSG00000110497	ENST00000531542	processed_transcript	KNOWN	None	25990	None	None	46567251	46615548	-1	None	FLJ20294, KIAA1736, WDR94, DCAF3
11	AMBRA1	ENSG00000110497	ENST00000524783	processed_transcript	KNOWN	None	25990	None	None	46567621	46568970	-1	None	FLJ20294, KIAA1736, WDR94, DCAF3
11	AMBRA1	ENSG00000110497	ENST00000526606	protein_coding	KNOWN	None	25990	72	23	46569859	46615675	-1	None	FLJ20294, KIAA1736, WDR94, DCAF3
11	AMBRA1	ENSG00000110497	ENST00000426438	protein_coding	KNOWN	None	25990	3810	1269	46417964	46612914	-1	None	FLJ20294, KIAA1736, WDR94, DCAF3
11	AMBRA1	ENSG00000110497	ENST00000298834	protein_coding	KNOWN	None	25990	3717	1238	46417964	46612914	-1	None	FLJ20294, KIAA1736, WDR94, DCAF3
1	VCAM1	ENSG00000162692	ENST00000370119	protein_coding	KNOWN	CCDS55617	12663	2034	677	101185298	101204169	1	None	CD106
1	VCAM1	ENSG00000162692	ENST00000347652	protein_coding	KNOWN	CCDS774	12663	1944	647	101185311	101204601	1	None	CD106
1	VCAM1	ENSG00000162692	ENST00000294728	protein_coding	KNOWN	CCDS773	12663	2220	739	101185316	101204601	1	None	CD106
1	VCAM1	ENSG00000162692	ENST00000370115	protein_coding	NOVEL	None	12663	1623	540	101185320	101204594	1	None	CD106
1	VCAM1	ENSG00000162692	ENST00000603679	retained_intron	KNOWN	None	12663	None	None	101200731	101204595	1	None	CD106
X	None	ENSG00000248345	ENST00000513469	unprocessed_pseudogene	KNOWN	None	None	None	None	71352000	71354556	1	None	None
11	OR51E1	ENSG00000180785	ENST00000396952	protein_coding	KNOWN	CCDS31358	15194	957	318	4664650	4676718	1	OR51E1P, OR52A3P, GPR164	GPR136
11	OR51E1	ENSG00000180785	ENST00000530215	protein_coding	PUTATIVE	None	15194	219	72	4673716	4674840	1	OR51E1P, OR52A3P, GPR164	GPR136
HSCHR6_MHC_SSTO	BRD2	ENSG00000235307	ENST00000471151	processed_transcript	KNOWN	None	1103	None	None	33026945	33029706	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_SSTO	BRD2	ENSG00000235307	ENST00000429833	protein_coding	PUTATIVE	None	1103	887	294	33027006	33084311	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_SSTO	BRD2	ENSG00000235307	ENST00000448067	protein_coding	NOVEL	None	1103	2511	836	33080421	33089202	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_SSTO	BRD2	ENSG00000235307	ENST00000436979	protein_coding	PUTATIVE	None	1103	2265	754	33080775	33089202	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_SSTO	BRD2	ENSG00000235307	ENST00000482036	retained_intron	KNOWN	None	1103	None	None	33083835	33085907	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_SSTO	BRD2	ENSG00000235307	ENST00000466208	processed_transcript	KNOWN	None	1103	None	None	33084262	33085594	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_SSTO	BRD2	ENSG00000235307	ENST00000471514	retained_intron	KNOWN	None	1103	None	None	33085243	33086494	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_SSTO	BRD2	ENSG00000235307	ENST00000497338	retained_intron	KNOWN	None	1103	None	None	33087237	33088983	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_SSTO	BRD2	ENSG00000235307	ENST00000494637	retained_intron	KNOWN	None	1103	None	None	33087379	33088463	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_SSTO	BRD2	ENSG00000235307	ENST00000552587	protein_coding	KNOWN	None	1103	2406	801	33026347	33089201	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_SSTO	BRD2	ENSG00000235307	ENST00000549126	protein_coding	KNOWN	None	1103	2511	836	33028588	33089201	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_SSTO	BRD2	ENSG00000235307	ENST00000553146	protein_coding	KNOWN	None	1103	2046	681	33028640	33089005	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
X	None	ENSG00000215933	ENST00000401114	miRNA	NOVEL	None	None	None	None	71372186	71372264	-1	None	None
X	None	ENSG00000225471	ENST00000432517	processed_pseudogene	KNOWN	None	None	None	None	71379695	71380196	1	None	None
X	None	ENSG00000225471	ENST00000456343	processed_pseudogene	KNOWN	None	None	None	None	71364034	71381600	1	None	None
13	CCDC168	ENSG00000175820	ENST00000322527	protein_coding	KNOWN	None	26851	7359	2452	103381801	103389159	-1	C13orf40	FLJ40176
19	CGB5	ENSG00000189052	ENST00000301408	protein_coding	KNOWN	CCDS12752	16452	498	165	49547141	49548568	1	None	HCG
11	CCDC153	ENSG00000248712	ENST00000503566	protein_coding	KNOWN	CCDS44753	27446	633	210	119060347	119066197	-1	None	LOC283152
11	CCDC153	ENSG00000248712	ENST00000375140	retained_intron	KNOWN	None	27446	None	None	119060959	119067479	-1	None	LOC283152
11	CCDC153	ENSG00000248712	ENST00000447948	retained_intron	KNOWN	None	27446	None	None	119065891	119066584	-1	None	LOC283152
11	CCDC153	ENSG00000248712	ENST00000415318	protein_coding	KNOWN	CCDS44753	27446	633	210	119060965	119066584	-1	None	LOC283152
19	CAPS	ENSG00000105519	ENST00000588776	protein_coding	PUTATIVE	None	1487	828	275	5911718	5915653	1	None	CAPS1, MGC126562
19	CAPS	ENSG00000105519	ENST00000222125	protein_coding	KNOWN	CCDS12156	1487	570	189	5914247	5915888	1	None	CAPS1, MGC126562
19	CAPS	ENSG00000105519	ENST00000452990	protein_coding	KNOWN	CCDS45934	1487	489	162	5914251	5915886	1	None	CAPS1, MGC126562
19	CAPS	ENSG00000105519	ENST00000590428	retained_intron	KNOWN	None	1487	None	None	5914267	5914924	1	None	CAPS1, MGC126562
19	CAPS	ENSG00000105519	ENST00000585541	retained_intron	KNOWN	None	1487	None	None	5914283	5915141	1	None	CAPS1, MGC126562
19	CAPS	ENSG00000105519	ENST00000588865	protein_coding	KNOWN	None	1487	355	117	5914284	5915044	1	None	CAPS1, MGC126562
7	None	ENSG00000233830	ENST00000453115	processed_pseudogene	KNOWN	None	None	None	None	27497782	27498468	-1	None	None
1	TMEM57	ENSG00000204178	ENST00000374343	protein_coding	KNOWN	CCDS30638	25572	1995	664	25757411	25826700	1	None	FLJ10747
1	TMEM57	ENSG00000204178	ENST00000470035	processed_transcript	KNOWN	None	25572	None	None	25775384	25785274	1	None	FLJ10747
1	TMEM57	ENSG00000204178	ENST00000399766	protein_coding	KNOWN	None	25572	1314	437	25757388	25826700	1	None	FLJ10747
1	TMEM57	ENSG00000204178	ENST00000399763	protein_coding	KNOWN	None	25572	921	306	25757388	25826700	1	None	FLJ10747
X	CNKSR2	ENSG00000149970	ENST00000279451	protein_coding	KNOWN	CCDS55387	19701	2697	898	21392560	21660980	1	None	KIAA0902, CNK2, KSR2
X	CNKSR2	ENSG00000149970	ENST00000379510	protein_coding	KNOWN	CCDS14198	19701	3105	1034	21392980	21672813	1	None	KIAA0902, CNK2, KSR2
X	CNKSR2	ENSG00000149970	ENST00000480138	processed_transcript	KNOWN	None	19701	None	None	21450755	21488996	1	None	KIAA0902, CNK2, KSR2
X	CNKSR2	ENSG00000149970	ENST00000479158	processed_transcript	KNOWN	None	19701	None	None	21508577	21550140	1	None	KIAA0902, CNK2, KSR2
X	CNKSR2	ENSG00000149970	ENST00000485012	processed_transcript	KNOWN	None	19701	None	None	21549974	21609216	1	None	KIAA0902, CNK2, KSR2
X	CNKSR2	ENSG00000149970	ENST00000425654	protein_coding	KNOWN	CCDS55388	19701	3015	1004	21392536	21672812	1	None	KIAA0902, CNK2, KSR2
X	CNKSR2	ENSG00000149970	ENST00000543067	protein_coding	KNOWN	CCDS55389	19701	2550	849	21392536	21660980	1	None	KIAA0902, CNK2, KSR2
4	FAT4	ENSG00000196159	ENST00000394329	protein_coding	KNOWN	CCDS3732	23109	14946	4981	126237554	126414087	1	None	CDHF14, FAT-J, CDHR11
4	FAT4	ENSG00000196159	ENST00000335110	protein_coding	KNOWN	None	23109	9669	3222	126315091	126412923	1	None	CDHF14, FAT-J, CDHR11
4	FAT4	ENSG00000196159	ENST00000509444	retained_intron	KNOWN	None	23109	None	None	126367266	126369733	1	None	CDHF14, FAT-J, CDHR11
X	RN7SL388P	ENSG00000239577	ENST00000498736	misc_RNA	KNOWN	None	46404	None	None	71418562	71418898	1	None	None
6	None	ENSG00000197146	ENST00000356949	pseudogene	NOVEL	None	None	None	None	167357853	167360151	-1	None	None
X	RN7SL264P	ENSG00000264396	ENST00000577387	misc_RNA	KNOWN	None	46280	None	None	71443094	71443403	-1	None	None
11	BIRC2	ENSG00000110330	ENST00000527808	processed_transcript	KNOWN	None	590	None	None	102217942	102219744	1	API1	cIAP1, hiap-2, MIHB, RNF48, c-IAP1
11	BIRC2	ENSG00000110330	ENST00000532832	protein_coding	PUTATIVE	None	590	237	78	102217945	102221296	1	API1	cIAP1, hiap-2, MIHB, RNF48, c-IAP1
11	BIRC2	ENSG00000110330	ENST00000530675	protein_coding	PUTATIVE	CCDS58169	590	1710	569	102217945	102248967	1	API1	cIAP1, hiap-2, MIHB, RNF48, c-IAP1
11	BIRC2	ENSG00000110330	ENST00000534646	processed_transcript	KNOWN	None	590	None	None	102217948	102220966	1	API1	cIAP1, hiap-2, MIHB, RNF48, c-IAP1
11	BIRC2	ENSG00000110330	ENST00000533742	protein_coding	PUTATIVE	None	590	548	181	102217955	102248422	1	API1	cIAP1, hiap-2, MIHB, RNF48, c-IAP1
11	BIRC2	ENSG00000110330	ENST00000227758	protein_coding	KNOWN	CCDS8316	590	1857	618	102217966	102249401	1	API1	cIAP1, hiap-2, MIHB, RNF48, c-IAP1
11	BIRC2	ENSG00000110330	ENST00000532672	protein_coding	PUTATIVE	None	590	1794	597	102217978	102249400	1	API1	cIAP1, hiap-2, MIHB, RNF48, c-IAP1
11	BIRC2	ENSG00000110330	ENST00000531259	protein_coding	PUTATIVE	None	590	419	138	102217984	102248871	1	API1	cIAP1, hiap-2, MIHB, RNF48, c-IAP1
11	BIRC2	ENSG00000110330	ENST00000527465	protein_coding	PUTATIVE	None	590	447	148	102218000	102221095	1	API1	cIAP1, hiap-2, MIHB, RNF48, c-IAP1
11	BIRC2	ENSG00000110330	ENST00000527910	processed_transcript	KNOWN	None	590	None	None	102218105	102249401	1	API1	cIAP1, hiap-2, MIHB, RNF48, c-IAP1
11	BIRC2	ENSG00000110330	ENST00000528344	nonsense_mediated_decay	KNOWN	None	590	789	262	102220706	102234410	1	API1	cIAP1, hiap-2, MIHB, RNF48, c-IAP1
11	BIRC2	ENSG00000110330	ENST00000534130	retained_intron	KNOWN	None	590	None	None	102233473	102248328	1	API1	cIAP1, hiap-2, MIHB, RNF48, c-IAP1
1	UBIAD1	ENSG00000120942	ENST00000376810	protein_coding	KNOWN	CCDS129	30791	1017	338	11333263	11348491	1	SCCD	TERE1
1	UBIAD1	ENSG00000120942	ENST00000376804	protein_coding	KNOWN	None	30791	540	179	11333585	11355221	1	SCCD	TERE1
1	UBIAD1	ENSG00000120942	ENST00000486588	nonsense_mediated_decay	KNOWN	None	30791	357	118	11333946	11355240	1	SCCD	TERE1
1	UBIAD1	ENSG00000120942	ENST00000483738	protein_coding	PUTATIVE	None	30791	234	77	11333991	11356106	1	SCCD	TERE1
6	None	ENSG00000227598	ENST00000444102	antisense	KNOWN	None	None	None	None	167383114	167412553	-1	None	None
X	None	ENSG00000238926	ENST00000410980	misc_RNA	NOVEL	None	None	None	None	71504795	71504895	-1	None	None
X	RNU2-68P	ENSG00000222810	ENST00000410878	snRNA	KNOWN	None	48561	None	None	71596829	71597019	-1	None	None
6	MIR3939	ENSG00000265828	ENST00000582614	miRNA	KNOWN	None	38931	None	None	167411295	167411400	-1	None	hsa-mir-3939
X	None	ENSG00000225858	ENST00000417774	processed_pseudogene	KNOWN	None	None	None	None	71880320	71880569	1	None	None
6	None	ENSG00000216966	ENST00000404577	processed_pseudogene	KNOWN	None	None	None	None	167622119	167622385	-1	None	None
7	PSMC1P2	ENSG00000213781	ENST00000423961	processed_pseudogene	KNOWN	None	39777	None	None	27501385	27502588	1	None	None
19	ZNF653	ENSG00000161914	ENST00000590296	protein_coding	PUTATIVE	None	25196	652	216	11594242	11597647	-1	None	Zip67
19	ZNF653	ENSG00000161914	ENST00000293771	protein_coding	KNOWN	CCDS12261	25196	1848	615	11594242	11616738	-1	None	Zip67
19	ZNF653	ENSG00000161914	ENST00000589051	protein_coding	PUTATIVE	None	25196	218	71	11594256	11597645	-1	None	Zip67
19	ZNF653	ENSG00000161914	ENST00000590548	retained_intron	KNOWN	None	25196	None	None	11594497	11616636	-1	None	Zip67
19	ZNF653	ENSG00000161914	ENST00000592756	protein_coding	PUTATIVE	None	25196	508	168	11594827	11598111	-1	None	Zip67
19	ZNF653	ENSG00000161914	ENST00000588541	nonsense_mediated_decay	KNOWN	None	25196	104	33	11606540	11616315	-1	None	Zip67
19	ZNF653	ENSG00000161914	ENST00000593191	processed_transcript	KNOWN	None	25196	None	None	11606851	11615999	-1	None	Zip67
X	PHKA1-AS1	ENSG00000231944	ENST00000420998	antisense	KNOWN	None	40446	None	None	71908800	71932190	1	None	None
X	None	ENSG00000202482	ENST00000365612	snoRNA	NOVEL	None	None	None	None	71945976	71946190	-1	None	None
9	None	ENSG00000270236	ENST00000605734	processed_pseudogene	KNOWN	None	None	None	None	71722842	71723133	-1	None	None
X	None	ENSG00000213698	ENST00000395709	processed_pseudogene	KNOWN	None	None	None	None	71947802	71948646	-1	None	None
12	FOXM1	ENSG00000111206	ENST00000536066	retained_intron	KNOWN	None	3818	None	None	2966847	2974020	-1	FKHL16	HFH-11, trident, HNF-3, INS-1, MPP2, MPHOSPH2, TGT3
12	FOXM1	ENSG00000111206	ENST00000342628	protein_coding	KNOWN	CCDS8516	3818	2406	801	2966849	2986152	-1	FKHL16	HFH-11, trident, HNF-3, INS-1, MPP2, MPHOSPH2, TGT3
12	FOXM1	ENSG00000111206	ENST00000361953	protein_coding	KNOWN	CCDS8517	3818	2247	748	2966849	2986206	-1	FKHL16	HFH-11, trident, HNF-3, INS-1, MPP2, MPHOSPH2, TGT3
12	FOXM1	ENSG00000111206	ENST00000359843	protein_coding	KNOWN	CCDS8515	3818	2292	763	2966850	2986107	-1	FKHL16	HFH-11, trident, HNF-3, INS-1, MPP2, MPHOSPH2, TGT3
12	FOXM1	ENSG00000111206	ENST00000535350	protein_coding	NOVEL	None	3818	618	205	2968654	2977747	-1	FKHL16	HFH-11, trident, HNF-3, INS-1, MPP2, MPHOSPH2, TGT3
12	FOXM1	ENSG00000111206	ENST00000366362	retained_intron	KNOWN	None	3818	None	None	2972915	2973876	-1	FKHL16	HFH-11, trident, HNF-3, INS-1, MPP2, MPHOSPH2, TGT3
12	FOXM1	ENSG00000111206	ENST00000538564	nonsense_mediated_decay	KNOWN	None	3818	243	80	2973598	2983380	-1	FKHL16	HFH-11, trident, HNF-3, INS-1, MPP2, MPHOSPH2, TGT3
12	FOXM1	ENSG00000111206	ENST00000537018	processed_transcript	KNOWN	None	3818	None	None	2974051	2983303	-1	FKHL16	HFH-11, trident, HNF-3, INS-1, MPP2, MPHOSPH2, TGT3
12	FOXM1	ENSG00000111206	ENST00000545049	retained_intron	KNOWN	None	3818	None	None	2977397	2983366	-1	FKHL16	HFH-11, trident, HNF-3, INS-1, MPP2, MPHOSPH2, TGT3
15	None	ENSG00000256530	ENST00000543887	protein_coding	NOVEL	None	None	618	205	76030311	76031568	1	None	None
X	RNU1-112P	ENSG00000201271	ENST00000364401	snRNA	KNOWN	None	48454	None	None	71960530	71960693	-1	None	None
X	FAM226A	ENSG00000269911	ENST00000602508	sense_intronic	KNOWN	None	28544	None	None	71997432	71998921	1	CXorf50, NCRNA00246, NCRNA00246A, LINC00246A	MGC34827
X	FAM226B	ENSG00000269911	ENST00000602508	sense_intronic	KNOWN	None	31964	None	None	71997432	71998921	1	CXorf50B, NCRNA00246B, LINC00246B	None
13	TEX30	ENSG00000151287	ENST00000376027	protein_coding	PUTATIVE	None	25188	342	113	103418340	103423184	-1	C13orf27	None
13	TEX30	ENSG00000151287	ENST00000376019	protein_coding	KNOWN	None	25188	561	186	103418460	103422620	-1	C13orf27	None
13	TEX30	ENSG00000151287	ENST00000376022	protein_coding	PUTATIVE	None	25188	219	72	103418460	103426105	-1	C13orf27	None
13	TEX30	ENSG00000151287	ENST00000376021	protein_coding	KNOWN	None	25188	561	186	103418460	103426109	-1	C13orf27	None
13	TEX30	ENSG00000151287	ENST00000376032	protein_coding	KNOWN	CCDS9503	25188	684	227	103418460	103426161	-1	C13orf27	None
13	TEX30	ENSG00000151287	ENST00000376029	protein_coding	PUTATIVE	None	25188	342	113	103418460	103426161	-1	C13orf27	None
13	TEX30	ENSG00000151287	ENST00000487260	processed_transcript	KNOWN	None	25188	None	None	103420627	103425888	-1	C13orf27	None
7	None	ENSG00000235574	ENST00000450406	processed_pseudogene	KNOWN	None	None	None	None	27531301	27532384	-1	None	None
19	TMEM221	ENSG00000188051	ENST00000341130	protein_coding	KNOWN	CCDS54230	21943	876	291	17546318	17559376	-1	None	None
19	TMEM221	ENSG00000188051	ENST00000593461	retained_intron	KNOWN	None	21943	None	None	17555621	17559118	-1	None	None
19	CGB8	ENSG00000213030	ENST00000448456	protein_coding	KNOWN	CCDS12753	16453	498	165	49550895	49552363	-1	None	None
19	CGB8	ENSG00000213030	ENST00000355414	protein_coding	KNOWN	None	16453	492	163	49550897	49552400	-1	None	None
X	None	ENSG00000229583	ENST00000413458	lincRNA	KNOWN	None	None	None	None	72001689	72002454	-1	None	None
X	None	ENSG00000229583	ENST00000445437	lincRNA	KNOWN	None	None	None	None	72001689	72002484	-1	None	None
7	None	ENSG00000229893	ENST00000441955	antisense	KNOWN	None	None	None	None	27773014	27780014	-1	None	None
11	NCAM1	ENSG00000149294	ENST00000531915	processed_transcript	KNOWN	None	7656	None	None	112831997	113146109	1	None	NCAM, CD56
11	NCAM1	ENSG00000149294	ENST00000527506	processed_transcript	KNOWN	None	7656	None	None	112832090	113133734	1	None	NCAM, CD56
11	NCAM1	ENSG00000149294	ENST00000533760	protein_coding	NOVEL	None	7656	1827	608	112832090	113135919	1	None	NCAM, CD56
11	NCAM1	ENSG00000149294	ENST00000528742	processed_transcript	KNOWN	None	7656	None	None	112832124	113102944	1	None	NCAM, CD56
11	NCAM1	ENSG00000149294	ENST00000397957	processed_transcript	KNOWN	None	7656	None	None	112832124	113149158	1	None	NCAM, CD56
11	NCAM1	ENSG00000149294	ENST00000534618	processed_transcript	PUTATIVE	None	7656	None	None	112832147	112911938	1	None	NCAM, CD56
11	NCAM1	ENSG00000149294	ENST00000526427	processed_transcript	KNOWN	None	7656	None	None	112832157	113140961	1	None	NCAM, CD56
11	NCAM1	ENSG00000149294	ENST00000524665	protein_coding	NOVEL	None	7656	2724	907	112832158	113146211	1	None	NCAM, CD56
11	NCAM1	ENSG00000149294	ENST00000529420	processed_transcript	KNOWN	None	7656	None	None	112832159	113092625	1	None	NCAM, CD56
11	NCAM1	ENSG00000149294	ENST00000531838	processed_transcript	KNOWN	None	7656	None	None	112832161	113004673	1	None	NCAM, CD56
11	NCAM1	ENSG00000149294	ENST00000534015	protein_coding	NOVEL	None	7656	2419	805	112832202	113134015	1	None	NCAM, CD56
11	NCAM1	ENSG00000149294	ENST00000525973	processed_transcript	PUTATIVE	None	7656	None	None	113001416	113076388	1	None	NCAM, CD56
11	NCAM1	ENSG00000149294	ENST00000531044	processed_transcript	KNOWN	None	7656	None	None	113003650	113146286	1	None	NCAM, CD56
11	NCAM1	ENSG00000149294	ENST00000529356	processed_transcript	PUTATIVE	None	7656	None	None	113073098	113076383	1	None	NCAM, CD56
11	NCAM1	ENSG00000149294	ENST00000534046	retained_intron	KNOWN	None	7656	None	None	113102102	113103470	1	None	NCAM, CD56
11	NCAM1	ENSG00000149294	ENST00000530543	processed_transcript	KNOWN	None	7656	None	None	113102984	113130920	1	None	NCAM, CD56
11	NCAM1	ENSG00000149294	ENST00000526322	processed_transcript	KNOWN	None	7656	None	None	113103047	113133989	1	None	NCAM, CD56
11	NCAM1	ENSG00000149294	ENST00000531817	nonsense_mediated_decay	KNOWN	None	7656	498	165	113103515	113134015	1	None	NCAM, CD56
11	NCAM1	ENSG00000149294	ENST00000533073	processed_transcript	KNOWN	None	7656	None	None	113103517	113146685	1	None	NCAM, CD56
11	NCAM1	ENSG00000149294	ENST00000528590	processed_transcript	KNOWN	None	7656	None	None	113103866	113146170	1	None	NCAM, CD56
11	NCAM1	ENSG00000149294	ENST00000525355	retained_intron	KNOWN	None	7656	None	None	113103980	113131109	1	None	NCAM, CD56
11	NCAM1	ENSG00000149294	ENST00000525691	retained_intron	KNOWN	None	7656	None	None	113111229	113130997	1	None	NCAM, CD56
11	NCAM1	ENSG00000149294	ENST00000534516	retained_intron	KNOWN	None	7656	None	None	113116830	113131039	1	None	NCAM, CD56
11	NCAM1	ENSG00000149294	ENST00000524916	processed_transcript	KNOWN	None	7656	None	None	113126672	113133896	1	None	NCAM, CD56
11	NCAM1	ENSG00000149294	ENST00000530090	retained_intron	KNOWN	None	7656	None	None	113130813	113133899	1	None	NCAM, CD56
11	NCAM1	ENSG00000149294	ENST00000531927	retained_intron	KNOWN	None	7656	None	None	113130980	113143823	1	None	NCAM, CD56
11	NCAM1	ENSG00000149294	ENST00000533226	retained_intron	KNOWN	None	7656	None	None	113140691	113146004	1	None	NCAM, CD56
11	NCAM1	ENSG00000149294	ENST00000528158	processed_transcript	PUTATIVE	None	7656	None	None	113143742	113148588	1	None	NCAM, CD56
11	NCAM1	ENSG00000149294	ENST00000401611	protein_coding	KNOWN	None	7656	1995	664	113067915	113114341	1	None	NCAM, CD56
11	NCAM1	ENSG00000149294	ENST00000316851	protein_coding	KNOWN	None	7656	2547	848	113073079	113149133	1	None	NCAM, CD56
7	CAPZA2	ENSG00000198898	ENST00000464223	protein_coding	PUTATIVE	None	1490	103	33	116451124	116538840	1	None	CAPZ, CAPPA2
7	CAPZA2	ENSG00000198898	ENST00000484325	protein_coding	PUTATIVE	None	1490	103	33	116451124	116538840	1	None	CAPZ, CAPPA2
7	CAPZA2	ENSG00000198898	ENST00000361183	protein_coding	KNOWN	CCDS5768	1490	861	286	116502527	116559315	1	None	CAPZ, CAPPA2
7	CAPZA2	ENSG00000198898	ENST00000414148	processed_transcript	KNOWN	None	1490	None	None	116502584	116544390	1	None	CAPZ, CAPPA2
7	CAPZA2	ENSG00000198898	ENST00000449080	nonsense_mediated_decay	KNOWN	None	1490	114	37	116502641	116556164	1	None	CAPZ, CAPPA2
7	CAPZA2	ENSG00000198898	ENST00000490693	protein_coding	PUTATIVE	None	1490	441	146	116502654	116544808	1	None	CAPZ, CAPPA2
7	CAPZA2	ENSG00000198898	ENST00000426421	nonsense_mediated_decay	KNOWN	None	1490	525	174	116502654	116558242	1	None	CAPZ, CAPPA2
7	CAPZA2	ENSG00000198898	ENST00000461878	retained_intron	KNOWN	None	1490	None	None	116502657	116528753	1	None	CAPZ, CAPPA2
7	CAPZA2	ENSG00000198898	ENST00000417431	processed_transcript	KNOWN	None	1490	None	None	116502657	116550348	1	None	CAPZ, CAPPA2
7	CAPZA2	ENSG00000198898	ENST00000466023	processed_transcript	KNOWN	None	1490	None	None	116502658	116514344	1	None	CAPZ, CAPPA2
7	CAPZA2	ENSG00000198898	ENST00000464669	retained_intron	KNOWN	None	1490	None	None	116502668	116546790	1	None	CAPZ, CAPPA2
7	CAPZA2	ENSG00000198898	ENST00000465607	retained_intron	KNOWN	None	1490	None	None	116549814	116556176	1	None	CAPZ, CAPPA2
7	CAPZA2	ENSG00000198898	ENST00000496161	retained_intron	KNOWN	None	1490	None	None	116555510	116557814	1	None	CAPZ, CAPPA2
7	CAPZA2	ENSG00000198898	ENST00000458284	protein_coding	KNOWN	None	1490	519	172	116502613	116558510	1	None	CAPZ, CAPPA2
3	ABHD14B	ENSG00000114779	ENST00000483233	protein_coding	KNOWN	CCDS2842	28235	633	210	52002526	52017425	-1	None	MGC15429, CIB
3	ABHD14B	ENSG00000114779	ENST00000487005	processed_transcript	KNOWN	None	28235	None	None	52002532	52008646	-1	None	MGC15429, CIB
3	ABHD14B	ENSG00000114779	ENST00000395008	protein_coding	KNOWN	CCDS2842	28235	633	210	52002546	52008047	-1	None	MGC15429, CIB
3	ABHD14B	ENSG00000114779	ENST00000361143	protein_coding	KNOWN	CCDS2842	28235	633	210	52002569	52008082	-1	None	MGC15429, CIB
3	ABHD14B	ENSG00000114779	ENST00000461108	protein_coding	PUTATIVE	None	28235	567	188	52003100	52008037	-1	None	MGC15429, CIB
3	ABHD14B	ENSG00000114779	ENST00000525795	protein_coding	KNOWN	CCDS2842	28235	633	210	52003289	52008065	-1	None	MGC15429, CIB
3	ABHD14B	ENSG00000114779	ENST00000473912	retained_intron	KNOWN	None	28235	None	None	52005353	52008095	-1	None	MGC15429, CIB
3	ABHD14B	ENSG00000114779	ENST00000315877	protein_coding	KNOWN	None	28235	627	208	52002527	52008646	-1	None	MGC15429, CIB
HSCHR6_MHC_MANN	GTF2H4	ENSG00000233149	ENST00000456968	protein_coding	KNOWN	None	4658	1389	462	30920643	30926565	1	None	TFB2, TFIIH, P52
HSCHR6_MHC_MANN	GTF2H4	ENSG00000233149	ENST00000435498	protein_coding	KNOWN	None	4658	1389	462	30920680	30926565	1	None	TFB2, TFIIH, P52
HSCHR6_MHC_MANN	GTF2H4	ENSG00000233149	ENST00000416161	protein_coding	KNOWN	None	4658	414	137	30920682	30923093	1	None	TFB2, TFIIH, P52
HSCHR6_MHC_MANN	GTF2H4	ENSG00000233149	ENST00000480149	retained_intron	KNOWN	None	4658	None	None	30921901	30924852	1	None	TFB2, TFIIH, P52
HSCHR6_MHC_MANN	GTF2H4	ENSG00000233149	ENST00000469920	retained_intron	KNOWN	None	4658	None	None	30924410	30926565	1	None	TFB2, TFIIH, P52
HSCHR6_MHC_MANN	GTF2H4	ENSG00000233149	ENST00000468446	retained_intron	KNOWN	None	4658	None	None	30924682	30926565	1	None	TFB2, TFIIH, P52
15	IGF1R	ENSG00000140443	ENST00000268035	protein_coding	KNOWN	CCDS10378	5465	4104	1367	99192200	99507759	1	None	JTK13, CD221, IGFIR, MGC18216, IGFR
15	IGF1R	ENSG00000140443	ENST00000558762	protein_coding	NOVEL	None	5465	4101	1366	99192273	99507758	1	None	JTK13, CD221, IGFIR, MGC18216, IGFR
15	IGF1R	ENSG00000140443	ENST00000559925	retained_intron	KNOWN	None	5465	None	None	99192811	99460184	1	None	JTK13, CD221, IGFIR, MGC18216, IGFR
15	IGF1R	ENSG00000140443	ENST00000558355	protein_coding	PUTATIVE	None	5465	572	189	99251060	99434848	1	None	JTK13, CD221, IGFIR, MGC18216, IGFR
15	IGF1R	ENSG00000140443	ENST00000557938	processed_transcript	KNOWN	None	5465	None	None	99277941	99442775	1	None	JTK13, CD221, IGFIR, MGC18216, IGFR
15	IGF1R	ENSG00000140443	ENST00000560186	processed_transcript	KNOWN	None	5465	None	None	99364095	99440148	1	None	JTK13, CD221, IGFIR, MGC18216, IGFR
15	IGF1R	ENSG00000140443	ENST00000560277	processed_transcript	KNOWN	None	5465	None	None	99364113	99440078	1	None	JTK13, CD221, IGFIR, MGC18216, IGFR
15	IGF1R	ENSG00000140443	ENST00000557873	processed_transcript	KNOWN	None	5465	None	None	99416948	99440118	1	None	JTK13, CD221, IGFIR, MGC18216, IGFR
15	IGF1R	ENSG00000140443	ENST00000558898	protein_coding	PUTATIVE	None	5465	637	211	99433570	99454627	1	None	JTK13, CD221, IGFIR, MGC18216, IGFR
15	IGF1R	ENSG00000140443	ENST00000560432	processed_transcript	KNOWN	None	5465	None	None	99433771	99440115	1	None	JTK13, CD221, IGFIR, MGC18216, IGFR
15	IGF1R	ENSG00000140443	ENST00000558947	processed_transcript	KNOWN	None	5465	None	None	99440515	99442805	1	None	JTK13, CD221, IGFIR, MGC18216, IGFR
15	IGF1R	ENSG00000140443	ENST00000559582	processed_transcript	KNOWN	None	5465	None	None	99443839	99456343	1	None	JTK13, CD221, IGFIR, MGC18216, IGFR
15	IGF1R	ENSG00000140443	ENST00000560144	nonsense_mediated_decay	KNOWN	None	5465	271	89	99456405	99465471	1	None	JTK13, CD221, IGFIR, MGC18216, IGFR
15	IGF1R	ENSG00000140443	ENST00000561049	retained_intron	KNOWN	None	5465	None	None	99459714	99467110	1	None	JTK13, CD221, IGFIR, MGC18216, IGFR
15	IGF1R	ENSG00000140443	ENST00000560343	retained_intron	KNOWN	None	5465	None	None	99467011	99467865	1	None	JTK13, CD221, IGFIR, MGC18216, IGFR
15	IGF1R	ENSG00000140443	ENST00000560972	protein_coding	NOVEL	None	5465	310	102	99467829	99478595	1	None	JTK13, CD221, IGFIR, MGC18216, IGFR
15	IGF1R	ENSG00000140443	ENST00000558751	processed_transcript	KNOWN	None	5465	None	None	99496024	99500521	1	None	JTK13, CD221, IGFIR, MGC18216, IGFR
20	SNPH	ENSG00000101298	ENST00000381873	protein_coding	KNOWN	CCDS13012	15931	1485	494	1246960	1289972	1	None	bA314N13.5
20	SNPH	ENSG00000101298	ENST00000381867	protein_coding	KNOWN	None	15931	1617	538	1246999	1289972	1	None	bA314N13.5
7	RN7SL365P	ENSG00000265382	ENST00000577690	misc_RNA	KNOWN	None	46381	None	None	27920106	27920397	1	None	None
19	ZNF561	ENSG00000171469	ENST00000444802	nonsense_mediated_decay	KNOWN	None	28684	132	43	9715356	9731908	-1	None	MGC45408
19	ZNF561	ENSG00000171469	ENST00000424629	protein_coding	PUTATIVE	None	28684	1254	417	9718008	9731884	-1	None	MGC45408
19	ZNF561	ENSG00000171469	ENST00000302851	protein_coding	KNOWN	CCDS12216	28684	1461	486	9718008	9732075	-1	None	MGC45408
19	ZNF561	ENSG00000171469	ENST00000326044	protein_coding	PUTATIVE	None	28684	273	90	9720432	9731906	-1	None	MGC45408
19	ZNF561	ENSG00000171469	ENST00000444611	protein_coding	PUTATIVE	None	28684	863	286	9721492	9731910	-1	None	MGC45408
19	ZNF561	ENSG00000171469	ENST00000495503	processed_transcript	KNOWN	None	28684	None	None	9721613	9731871	-1	None	MGC45408
19	ZNF561	ENSG00000171469	ENST00000443819	nonsense_mediated_decay	KNOWN	None	28684	117	38	9721632	9731907	-1	None	MGC45408
19	ZNF561	ENSG00000171469	ENST00000494276	retained_intron	KNOWN	None	28684	None	None	9721705	9724956	-1	None	MGC45408
19	ZNF561	ENSG00000171469	ENST00000465974	processed_transcript	KNOWN	None	28684	None	None	9721782	9731908	-1	None	MGC45408
19	ZNF561	ENSG00000171469	ENST00000483768	retained_intron	KNOWN	None	28684	None	None	9721884	9728087	-1	None	MGC45408
19	ZNF561	ENSG00000171469	ENST00000457965	nonsense_mediated_decay	KNOWN	None	28684	132	43	9724735	9731898	-1	None	MGC45408
19	ZNF561	ENSG00000171469	ENST00000479943	retained_intron	KNOWN	None	28684	None	None	9727653	9731864	-1	None	MGC45408
19	ZNF561	ENSG00000171469	ENST00000444519	nonsense_mediated_decay	KNOWN	None	28684	186	61	9727728	9731907	-1	None	MGC45408
19	ZNF561	ENSG00000171469	ENST00000421525	protein_coding	KNOWN	None	28684	228	75	9727734	9731910	-1	None	MGC45408
19	ZNF561	ENSG00000171469	ENST00000470932	processed_transcript	KNOWN	None	28684	None	None	9727795	9731910	-1	None	MGC45408
19	ZNF561	ENSG00000171469	ENST00000435550	protein_coding	KNOWN	None	28684	124	40	9727838	9731907	-1	None	MGC45408
19	ZNF561	ENSG00000171469	ENST00000471053	processed_transcript	KNOWN	None	28684	None	None	9727878	9731907	-1	None	MGC45408
19	ZNF561	ENSG00000171469	ENST00000480167	processed_transcript	KNOWN	None	28684	None	None	9728306	9731881	-1	None	MGC45408
19	ZNF561	ENSG00000171469	ENST00000490893	retained_intron	KNOWN	None	28684	None	None	9728488	9731912	-1	None	MGC45408
19	ZNF561	ENSG00000171469	ENST00000485150	retained_intron	KNOWN	None	28684	None	None	9728739	9731895	-1	None	MGC45408
19	ZNF561	ENSG00000171469	ENST00000497409	retained_intron	KNOWN	None	28684	None	None	9729751	9731884	-1	None	MGC45408
19	ZNF561	ENSG00000171469	ENST00000354661	protein_coding	KNOWN	None	28684	1053	350	9720432	9731906	-1	None	MGC45408
5	SLC22A4	ENSG00000197208	ENST00000200652	protein_coding	KNOWN	CCDS4153	10968	1656	551	131630136	131679899	1	None	OCTN1, MGC34546
5	SLC22A4	ENSG00000197208	ENST00000491257	processed_transcript	KNOWN	None	10968	None	None	131631118	131656665	1	None	OCTN1, MGC34546
5	SLC22A4	ENSG00000197208	ENST00000425923	processed_transcript	KNOWN	None	10968	None	None	131657877	131663078	1	None	OCTN1, MGC34546
9	None	ENSG00000243888	ENST00000457328	3prime_overlapping_ncrna	KNOWN	None	None	None	None	72043164	72043637	-1	None	None
20	PLK1S1	ENSG00000088970	ENST00000445992	processed_transcript	KNOWN	None	15865	None	None	21106648	21143148	1	NCRNA00153, C20orf19	HT013, Kiz, Kizuna
20	PLK1S1	ENSG00000088970	ENST00000246027	processed_transcript	KNOWN	None	15865	None	None	21106695	21227260	1	NCRNA00153, C20orf19	HT013, Kiz, Kizuna
20	PLK1S1	ENSG00000088970	ENST00000457464	processed_transcript	KNOWN	None	15865	None	None	21126227	21227260	1	NCRNA00153, C20orf19	HT013, Kiz, Kizuna
20	PLK1S1	ENSG00000088970	ENST00000447448	processed_transcript	KNOWN	None	15865	None	None	21126230	21227260	1	NCRNA00153, C20orf19	HT013, Kiz, Kizuna
20	PLK1S1	ENSG00000088970	ENST00000428699	processed_transcript	KNOWN	None	15865	None	None	21142724	21227260	1	NCRNA00153, C20orf19	HT013, Kiz, Kizuna
20	PLK1S1	ENSG00000088970	ENST00000451772	processed_transcript	KNOWN	None	15865	None	None	21199097	21224992	1	NCRNA00153, C20orf19	HT013, Kiz, Kizuna
20	PLK1S1	ENSG00000088970	ENST00000419359	processed_transcript	KNOWN	None	15865	None	None	21199102	21227258	1	NCRNA00153, C20orf19	HT013, Kiz, Kizuna
20	PLK1S1	ENSG00000088970	ENST00000441136	processed_transcript	KNOWN	None	15865	None	None	21206778	21213552	1	NCRNA00153, C20orf19	HT013, Kiz, Kizuna
20	PLK1S1	ENSG00000088970	ENST00000423272	processed_transcript	KNOWN	None	15865	None	None	21225109	21227256	1	NCRNA00153, C20orf19	HT013, Kiz, Kizuna
20	PLK1S1	ENSG00000088970	ENST00000427692	processed_transcript	KNOWN	None	15865	None	None	21106624	21227256	1	NCRNA00153, C20orf19	HT013, Kiz, Kizuna
20	PLK1S1	ENSG00000088970	ENST00000424111	processed_transcript	KNOWN	None	15865	None	None	21106624	21227256	1	NCRNA00153, C20orf19	HT013, Kiz, Kizuna
20	PLK1S1	ENSG00000088970	ENST00000432487	processed_transcript	KNOWN	None	15865	None	None	21125966	21227256	1	NCRNA00153, C20orf19	HT013, Kiz, Kizuna
20	PLK1S1	ENSG00000088970	ENST00000458446	processed_transcript	KNOWN	None	15865	None	None	21106624	21227256	1	NCRNA00153, C20orf19	HT013, Kiz, Kizuna
19	EGLN2	ENSG00000269858	ENST00000598654	protein_coding	KNOWN	None	14660	303	100	41304901	41306780	1	None	PHD1, HIFPH1
19	EGLN2	ENSG00000269858	ENST00000303961	protein_coding	KNOWN	CCDS12567	14660	1224	407	41305092	41314337	1	None	PHD1, HIFPH1
19	EGLN2	ENSG00000269858	ENST00000593972	protein_coding	KNOWN	None	14660	419	138	41305330	41306896	1	None	PHD1, HIFPH1
19	EGLN2	ENSG00000269858	ENST00000406058	protein_coding	KNOWN	CCDS12567	14660	1224	407	41305420	41314337	1	None	PHD1, HIFPH1
19	EGLN2	ENSG00000269858	ENST00000593726	protein_coding	KNOWN	CCDS12567	14660	1224	407	41305450	41314338	1	None	PHD1, HIFPH1
19	EGLN2	ENSG00000269858	ENST00000594380	protein_coding	KNOWN	None	14660	263	86	41305612	41306740	1	None	PHD1, HIFPH1
19	EGLN2	ENSG00000269858	ENST00000593397	protein_coding	KNOWN	None	14660	217	71	41305615	41306694	1	None	PHD1, HIFPH1
19	EGLN2	ENSG00000269858	ENST00000601733	protein_coding	KNOWN	None	14660	282	93	41305615	41306759	1	None	PHD1, HIFPH1
19	EGLN2	ENSG00000269858	ENST00000593525	protein_coding	KNOWN	None	14660	231	76	41305630	41306708	1	None	PHD1, HIFPH1
19	EGLN2	ENSG00000269858	ENST00000596517	protein_coding	KNOWN	None	14660	202	66	41305740	41306679	1	None	PHD1, HIFPH1
19	EGLN2	ENSG00000269858	ENST00000597746	protein_coding	NOVEL	None	14660	387	128	41307195	41313841	1	None	PHD1, HIFPH1
19	EGLN2	ENSG00000269858	ENST00000594140	protein_coding	PUTATIVE	None	14660	378	125	41309045	41314283	1	None	PHD1, HIFPH1
19	EGLN2	ENSG00000269858	ENST00000599579	retained_intron	KNOWN	None	14660	None	None	41309978	41314337	1	None	PHD1, HIFPH1
19	EGLN2	ENSG00000269858	ENST00000593445	retained_intron	KNOWN	None	14660	None	None	41310375	41314337	1	None	PHD1, HIFPH1
19	EGLN2	ENSG00000269858	ENST00000593477	retained_intron	KNOWN	None	14660	None	None	41312227	41314337	1	None	PHD1, HIFPH1
19	EGLN2	ENSG00000269858	ENST00000602166	retained_intron	KNOWN	None	14660	None	None	41312824	41313973	1	None	PHD1, HIFPH1
19	EGLN2	ENSG00000269858	ENST00000595621	protein_coding	PUTATIVE	None	14660	290	95	41313047	41314013	1	None	PHD1, HIFPH1
19	EGLN2	ENSG00000269858	ENST00000595051	protein_coding	KNOWN	None	14660	156	51	41313148	41314337	1	None	PHD1, HIFPH1
7	RNU6-979P	ENSG00000206623	ENST00000383896	snRNA	KNOWN	None	47942	None	None	28157732	28157838	-1	None	None
X	None	ENSG00000225396	ENST00000419795	lincRNA	KNOWN	None	None	None	None	72027259	72028014	-1	None	None
X	None	ENSG00000225396	ENST00000458170	lincRNA	KNOWN	None	None	None	None	72027259	72028044	-1	None	None
10	None	ENSG00000224750	ENST00000422206	lincRNA	KNOWN	None	None	None	None	92213927	92261197	1	None	None
10	None	ENSG00000224750	ENST00000453889	lincRNA	KNOWN	None	None	None	None	92214437	92221258	1	None	None
10	None	ENSG00000224750	ENST00000414903	lincRNA	KNOWN	None	None	None	None	92214455	92262725	1	None	None
6	LEMD2	ENSG00000161904	ENST00000506578	protein_coding	NOVEL	None	21244	258	85	33738979	33744921	-1	None	dJ482C21.1, NET25
6	LEMD2	ENSG00000161904	ENST00000293760	protein_coding	KNOWN	CCDS4785	21244	1512	503	33738979	33756913	-1	None	dJ482C21.1, NET25
6	LEMD2	ENSG00000161904	ENST00000511171	retained_intron	KNOWN	None	21244	None	None	33738999	33750023	-1	None	dJ482C21.1, NET25
6	LEMD2	ENSG00000161904	ENST00000421671	nonsense_mediated_decay	KNOWN	None	21244	345	114	33739209	33756902	-1	None	dJ482C21.1, NET25
6	LEMD2	ENSG00000161904	ENST00000508327	protein_coding	KNOWN	CCDS47411	21244	606	201	33740102	33754778	-1	None	dJ482C21.1, NET25
6	LEMD2	ENSG00000161904	ENST00000510598	retained_intron	KNOWN	None	21244	None	None	33740544	33748076	-1	None	dJ482C21.1, NET25
6	LEMD2	ENSG00000161904	ENST00000504692	protein_coding	PUTATIVE	None	21244	307	101	33744391	33746116	-1	None	dJ482C21.1, NET25
6	LEMD2	ENSG00000161904	ENST00000502643	processed_transcript	KNOWN	None	21244	None	None	33744789	33749266	-1	None	dJ482C21.1, NET25
6	LEMD2	ENSG00000161904	ENST00000513832	retained_intron	KNOWN	None	21244	None	None	33744812	33749324	-1	None	dJ482C21.1, NET25
6	LEMD2	ENSG00000161904	ENST00000442696	protein_coding	NOVEL	None	21244	839	278	33744931	33756607	-1	None	dJ482C21.1, NET25
6	LEMD2	ENSG00000161904	ENST00000512368	retained_intron	KNOWN	None	21244	None	None	33746096	33752446	-1	None	dJ482C21.1, NET25
6	LEMD2	ENSG00000161904	ENST00000513701	protein_coding	KNOWN	None	21244	161	52	33746108	33754874	-1	None	dJ482C21.1, NET25
6	LEMD2	ENSG00000161904	ENST00000514636	retained_intron	KNOWN	None	21244	None	None	33747779	33752417	-1	None	dJ482C21.1, NET25
2	TTC7A	ENSG00000068724	ENST00000409245	protein_coding	PUTATIVE	None	19750	2475	824	47143296	47301187	1	TTC7	KIAA1140
2	TTC7A	ENSG00000068724	ENST00000319190	protein_coding	KNOWN	CCDS33193	19750	2577	858	47168313	47303274	1	TTC7	KIAA1140
2	TTC7A	ENSG00000068724	ENST00000461601	processed_transcript	KNOWN	None	19750	None	None	47168414	47277164	1	TTC7	KIAA1140
2	TTC7A	ENSG00000068724	ENST00000394850	protein_coding	NOVEL	None	19750	2649	882	47168425	47302463	1	TTC7	KIAA1140
2	TTC7A	ENSG00000068724	ENST00000441914	nonsense_mediated_decay	KNOWN	None	19750	992	329	47168682	47301062	1	TTC7	KIAA1140
2	TTC7A	ENSG00000068724	ENST00000409825	nonsense_mediated_decay	KNOWN	None	19750	199	65	47177560	47303276	1	TTC7	KIAA1140
2	TTC7A	ENSG00000068724	ENST00000474321	processed_transcript	KNOWN	None	19750	None	None	47205257	47233133	1	TTC7	KIAA1140
2	TTC7A	ENSG00000068724	ENST00000491786	retained_intron	KNOWN	None	19750	None	None	47205879	47302696	1	TTC7	KIAA1140
2	TTC7A	ENSG00000068724	ENST00000484061	retained_intron	KNOWN	None	19750	None	None	47221370	47302463	1	TTC7	KIAA1140
2	TTC7A	ENSG00000068724	ENST00000440051	nonsense_mediated_decay	KNOWN	None	19750	326	107	47233071	47277119	1	TTC7	KIAA1140
2	TTC7A	ENSG00000068724	ENST00000484337	processed_transcript	KNOWN	None	19750	None	None	47261294	47288095	1	TTC7	KIAA1140
2	TTC7A	ENSG00000068724	ENST00000496991	processed_transcript	PUTATIVE	None	19750	None	None	47273454	47277966	1	TTC7	KIAA1140
2	TTC7A	ENSG00000068724	ENST00000536057	protein_coding	KNOWN	None	19750	441	146	47168425	47178833	1	TTC7	KIAA1140
2	TTC7A	ENSG00000068724	ENST00000263737	protein_coding	KNOWN	None	19750	1515	504	47168682	47301062	1	TTC7	KIAA1140
HSCHR6_MHC_MANN	ZFP57	ENSG00000232099	ENST00000448114	protein_coding	KNOWN	None	18791	1551	516	29639820	29648438	-1	C6orf40	ZNF698, bA145L22, bA145L22.2
HSCHR6_MHC_MANN	ZFP57	ENSG00000232099	ENST00000548337	protein_coding	KNOWN	None	18791	1611	536	29639729	29644492	-1	C6orf40	ZNF698, bA145L22, bA145L22.2
HSCHR6_MHC_MANN	ZFP57	ENSG00000232099	ENST00000548001	protein_coding	KNOWN	None	18791	1551	516	29639729	29644341	-1	C6orf40	ZNF698, bA145L22, bA145L22.2
6	ULBP3	ENSG00000131019	ENST00000367339	protein_coding	KNOWN	CCDS5225	14895	735	244	150384286	150390231	-1	None	RAET1N
6	ULBP3	ENSG00000131019	ENST00000438272	protein_coding	KNOWN	CCDS5225	14895	735	244	150385743	150390202	-1	None	RAET1N
12	ZCRB1	ENSG00000139168	ENST00000266529	protein_coding	KNOWN	CCDS8740	29620	654	217	42705880	42719907	-1	None	MADP-1, MADP1, RBM36, ZCCHC19, SNRNP31
12	ZCRB1	ENSG00000139168	ENST00000552673	protein_coding	PUTATIVE	None	29620	531	176	42706733	42719889	-1	None	MADP-1, MADP1, RBM36, ZCCHC19, SNRNP31
12	ZCRB1	ENSG00000139168	ENST00000552235	protein_coding	PUTATIVE	None	29620	399	132	42707492	42719920	-1	None	MADP-1, MADP1, RBM36, ZCCHC19, SNRNP31
12	ZCRB1	ENSG00000139168	ENST00000548022	retained_intron	KNOWN	None	29620	None	None	42717682	42719896	-1	None	MADP-1, MADP1, RBM36, ZCCHC19, SNRNP31
12	ZCRB1	ENSG00000139168	ENST00000551102	processed_transcript	KNOWN	None	29620	None	None	42719155	42719799	-1	None	MADP-1, MADP1, RBM36, ZCCHC19, SNRNP31
20	SLPI	ENSG00000124107	ENST00000338380	protein_coding	KNOWN	CCDS13347	11092	399	132	43880880	43883205	-1	None	HUSI-I, ALK1, ALP, BLPI, HUSI, WAP4, WFDC4
7	TECPR1	ENSG00000205356	ENST00000447648	protein_coding	KNOWN	CCDS47648	22214	3498	1165	97843936	97881563	-1	None	DKFZP434B0335, FLJ23419, FLJ90593, KIAA1358
7	TECPR1	ENSG00000205356	ENST00000490842	retained_intron	KNOWN	None	22214	None	None	97844828	97863154	-1	None	DKFZP434B0335, FLJ23419, FLJ90593, KIAA1358
7	TECPR1	ENSG00000205356	ENST00000463402	retained_intron	KNOWN	None	22214	None	None	97846049	97852273	-1	None	DKFZP434B0335, FLJ23419, FLJ90593, KIAA1358
7	TECPR1	ENSG00000205356	ENST00000485716	retained_intron	KNOWN	None	22214	None	None	97846072	97847150	-1	None	DKFZP434B0335, FLJ23419, FLJ90593, KIAA1358
7	TECPR1	ENSG00000205356	ENST00000462511	processed_transcript	KNOWN	None	22214	None	None	97847055	97852286	-1	None	DKFZP434B0335, FLJ23419, FLJ90593, KIAA1358
7	TECPR1	ENSG00000205356	ENST00000474915	retained_intron	KNOWN	None	22214	None	None	97847279	97853055	-1	None	DKFZP434B0335, FLJ23419, FLJ90593, KIAA1358
7	TECPR1	ENSG00000205356	ENST00000479975	processed_transcript	KNOWN	None	22214	None	None	97851697	97857996	-1	None	DKFZP434B0335, FLJ23419, FLJ90593, KIAA1358
7	TECPR1	ENSG00000205356	ENST00000476659	processed_transcript	KNOWN	None	22214	None	None	97852343	97858173	-1	None	DKFZP434B0335, FLJ23419, FLJ90593, KIAA1358
7	TECPR1	ENSG00000205356	ENST00000479911	processed_transcript	KNOWN	None	22214	None	None	97855904	97860430	-1	None	DKFZP434B0335, FLJ23419, FLJ90593, KIAA1358
7	TECPR1	ENSG00000205356	ENST00000483740	retained_intron	KNOWN	None	22214	None	None	97858356	97860938	-1	None	DKFZP434B0335, FLJ23419, FLJ90593, KIAA1358
7	TECPR1	ENSG00000205356	ENST00000471397	processed_transcript	KNOWN	None	22214	None	None	97862739	97875435	-1	None	DKFZP434B0335, FLJ23419, FLJ90593, KIAA1358
7	TECPR1	ENSG00000205356	ENST00000463648	retained_intron	KNOWN	None	22214	None	None	97867816	97872886	-1	None	DKFZP434B0335, FLJ23419, FLJ90593, KIAA1358
7	TECPR1	ENSG00000205356	ENST00000472845	processed_transcript	KNOWN	None	22214	None	None	97872883	97881530	-1	None	DKFZP434B0335, FLJ23419, FLJ90593, KIAA1358
7	TECPR1	ENSG00000205356	ENST00000423128	protein_coding	KNOWN	None	22214	303	100	97874302	97881239	-1	None	DKFZP434B0335, FLJ23419, FLJ90593, KIAA1358
7	TECPR1	ENSG00000205356	ENST00000415086	protein_coding	NOVEL	None	22214	297	98	97874347	97881518	-1	None	DKFZP434B0335, FLJ23419, FLJ90593, KIAA1358
7	TECPR1	ENSG00000205356	ENST00000420697	protein_coding	NOVEL	None	22214	289	95	97874355	97881429	-1	None	DKFZP434B0335, FLJ23419, FLJ90593, KIAA1358
7	TECPR1	ENSG00000205356	ENST00000488667	retained_intron	KNOWN	None	22214	None	None	97880226	97881487	-1	None	DKFZP434B0335, FLJ23419, FLJ90593, KIAA1358
7	TECPR1	ENSG00000205356	ENST00000379795	protein_coding	KNOWN	None	22214	3504	1167	97846057	97881468	-1	None	DKFZP434B0335, FLJ23419, FLJ90593, KIAA1358
7	TECPR1	ENSG00000205356	ENST00000542604	protein_coding	KNOWN	None	22214	2331	776	97855904	97881530	-1	None	DKFZP434B0335, FLJ23419, FLJ90593, KIAA1358
19	HAUS8	ENSG00000131351	ENST00000253669	protein_coding	KNOWN	CCDS32948	30532	1233	410	17160539	17186423	-1	HICE1	MGC20533, NY-SAR-48
19	HAUS8	ENSG00000131351	ENST00000597917	retained_intron	KNOWN	None	30532	None	None	17160571	17163893	-1	HICE1	MGC20533, NY-SAR-48
19	HAUS8	ENSG00000131351	ENST00000448593	protein_coding	KNOWN	CCDS46009	30532	1230	409	17160571	17186435	-1	HICE1	MGC20533, NY-SAR-48
19	HAUS8	ENSG00000131351	ENST00000593360	protein_coding	KNOWN	None	30532	1050	349	17160576	17186010	-1	HICE1	MGC20533, NY-SAR-48
19	HAUS8	ENSG00000131351	ENST00000598517	nonsense_mediated_decay	KNOWN	None	30532	120	39	17160874	17186232	-1	HICE1	MGC20533, NY-SAR-48
19	HAUS8	ENSG00000131351	ENST00000597479	retained_intron	KNOWN	None	30532	None	None	17162493	17164529	-1	HICE1	MGC20533, NY-SAR-48
19	HAUS8	ENSG00000131351	ENST00000601564	nonsense_mediated_decay	KNOWN	None	30532	276	91	17163678	17186254	-1	HICE1	MGC20533, NY-SAR-48
19	HAUS8	ENSG00000131351	ENST00000595958	retained_intron	KNOWN	None	30532	None	None	17166641	17171052	-1	HICE1	MGC20533, NY-SAR-48
4	NACA3P	ENSG00000121089	ENST00000359690	processed_pseudogene	KNOWN	None	33442	None	None	165864442	165865089	1	None	NACA3
17	WFIKKN2	ENSG00000173714	ENST00000426127	protein_coding	PUTATIVE	None	30916	1452	483	48912011	48918669	1	None	WFIKKNRP, WFDC20B
17	WFIKKN2	ENSG00000173714	ENST00000311378	protein_coding	KNOWN	CCDS11575	30916	1731	576	48912771	48919709	1	None	WFIKKNRP, WFDC20B
1	PTCHD2	ENSG00000204624	ENST00000423056	processed_transcript	KNOWN	None	29251	None	None	11539223	11542017	1	None	KIAA1337, DISP3
1	PTCHD2	ENSG00000204624	ENST00000294484	protein_coding	KNOWN	CCDS41247	29251	4179	1392	11539295	11597641	1	None	KIAA1337, DISP3
1	PTCHD2	ENSG00000204624	ENST00000304391	protein_coding	PUTATIVE	None	29251	807	268	11593733	11597282	1	None	KIAA1337, DISP3
1	PTCHD2	ENSG00000204624	ENST00000389575	protein_coding	KNOWN	None	29251	4179	1392	11539295	11597639	1	None	KIAA1337, DISP3
4	None	ENSG00000236941	ENST00000512492	processed_pseudogene	KNOWN	None	None	None	None	165869231	165870590	1	None	None
4	None	ENSG00000236941	ENST00000596751	processed_pseudogene	KNOWN	None	None	None	None	165869231	165899980	1	None	None
6	None	ENSG00000218725	ENST00000404344	processed_pseudogene	KNOWN	None	None	None	None	130122053	130123359	1	None	None
10	BMS1P5	ENSG00000204164	ENST00000603015	transcribed_unprocessed_pseudogene	KNOWN	None	23653	None	None	48901542	48948766	-1	BMS1LP5	bA508M1.1, OTTHUMG00000018157
10	BMS1P5	ENSG00000204164	ENST00000436180	processed_transcript	KNOWN	None	23653	None	None	48903540	48942646	-1	BMS1LP5	bA508M1.1, OTTHUMG00000018157
10	BMS1P5	ENSG00000204164	ENST00000449800	processed_transcript	KNOWN	None	23653	None	None	48927373	48950972	-1	BMS1LP5	bA508M1.1, OTTHUMG00000018157
10	BMS1P5	ENSG00000204164	ENST00000425187	unprocessed_pseudogene	KNOWN	None	23653	None	None	48901102	48922972	-1	BMS1LP5	bA508M1.1, OTTHUMG00000018157
10	BMS1P5	ENSG00000204164	ENST00000445434	unprocessed_pseudogene	KNOWN	None	23653	None	None	48901194	48922958	-1	BMS1LP5	bA508M1.1, OTTHUMG00000018157
X	CT47A11	ENSG00000226929	ENST00000457020	protein_coding	KNOWN	CCDS35381	27397	867	288	120067700	120071012	-1	None	CT47.11
1	DNM3	ENSG00000197959	ENST00000367733	protein_coding	PUTATIVE	None	29125	1668	555	171810638	172102532	1	None	KIAA0820
1	DNM3	ENSG00000197959	ENST00000355305	protein_coding	NOVEL	None	29125	2610	869	171810640	172377494	1	None	KIAA0820
1	DNM3	ENSG00000197959	ENST00000367731	protein_coding	KNOWN	CCDS44276	29125	2580	859	171810640	172381857	1	None	KIAA0820
1	DNM3	ENSG00000197959	ENST00000520906	protein_coding	PUTATIVE	None	29125	1920	639	171810669	172280424	1	None	KIAA0820
1	DNM3	ENSG00000197959	ENST00000523513	protein_coding	KNOWN	None	29125	1335	444	171939262	172222718	1	None	KIAA0820
1	DNM3	ENSG00000197959	ENST00000485254	protein_coding	PUTATIVE	None	29125	666	221	172348158	172387606	1	None	KIAA0820
1	DNM3	ENSG00000197959	ENST00000491124	retained_intron	KNOWN	None	29125	None	None	172356328	172358362	1	None	KIAA0820
1	DNM3	ENSG00000197959	ENST00000358155	protein_coding	KNOWN	CCDS53431	29125	2592	863	171810621	172381856	1	None	KIAA0820
13	KLF5	ENSG00000102554	ENST00000477333	processed_transcript	KNOWN	None	6349	None	None	73629114	73636799	1	BTEB2	IKLF, CKLF
13	KLF5	ENSG00000102554	ENST00000377687	protein_coding	KNOWN	CCDS9448	6349	1374	457	73632930	73651676	1	BTEB2	IKLF, CKLF
13	KLF5	ENSG00000102554	ENST00000476859	processed_transcript	KNOWN	None	6349	None	None	73634717	73636680	1	BTEB2	IKLF, CKLF
13	KLF5	ENSG00000102554	ENST00000464404	processed_transcript	KNOWN	None	6349	None	None	73649153	73649916	1	BTEB2	IKLF, CKLF
13	KLF5	ENSG00000102554	ENST00000539231	protein_coding	KNOWN	None	6349	1101	366	73629114	73650129	1	BTEB2	IKLF, CKLF
15	UBE2Q2	ENSG00000140367	ENST00000267938	protein_coding	KNOWN	CCDS10286	19248	1128	375	76135626	76193419	1	None	DKFZp762C143
15	UBE2Q2	ENSG00000140367	ENST00000569423	protein_coding	NOVEL	None	19248	1023	340	76135648	76193385	1	None	DKFZp762C143
15	UBE2Q2	ENSG00000140367	ENST00000561723	nonsense_mediated_decay	KNOWN	None	19248	357	118	76135909	76191835	1	None	DKFZp762C143
15	UBE2Q2	ENSG00000140367	ENST00000561851	protein_coding	KNOWN	CCDS45309	19248	1080	359	76136385	76191991	1	None	DKFZp762C143
15	UBE2Q2	ENSG00000140367	ENST00000562635	processed_transcript	KNOWN	None	19248	None	None	76136488	76152226	1	None	DKFZp762C143
15	UBE2Q2	ENSG00000140367	ENST00000426727	protein_coding	KNOWN	None	19248	601	199	76152281	76193385	1	None	DKFZp762C143
15	UBE2Q2	ENSG00000140367	ENST00000567921	nonsense_mediated_decay	KNOWN	None	19248	276	91	76161292	76191918	1	None	DKFZp762C143
15	UBE2Q2	ENSG00000140367	ENST00000563966	processed_transcript	KNOWN	None	19248	None	None	76170527	76189403	1	None	DKFZp762C143
15	UBE2Q2	ENSG00000140367	ENST00000338677	protein_coding	KNOWN	None	19248	945	314	76135622	76193380	1	None	DKFZp762C143
10	None	ENSG00000238291	ENST00000425365	lincRNA	KNOWN	None	None	None	None	92222474	92227709	1	None	None
16	NFAT5	ENSG00000102908	ENST00000426654	nonsense_mediated_decay	KNOWN	None	7774	300	99	69598997	69738553	1	None	TONEBP, KIAA0827, NFATL1, OREBP, NFATZ, NF-AT5
16	NFAT5	ENSG00000102908	ENST00000354436	protein_coding	KNOWN	CCDS10881	7774	4596	1531	69599887	69738569	1	None	TONEBP, KIAA0827, NFATL1, OREBP, NFATZ, NF-AT5
16	NFAT5	ENSG00000102908	ENST00000567990	nonsense_mediated_decay	KNOWN	None	7774	360	119	69599929	69719978	1	None	TONEBP, KIAA0827, NFATL1, OREBP, NFATZ, NF-AT5
16	NFAT5	ENSG00000102908	ENST00000567239	protein_coding	NOVEL	CCDS45519	7774	4647	1548	69599965	69731743	1	None	TONEBP, KIAA0827, NFATL1, OREBP, NFATZ, NF-AT5
16	NFAT5	ENSG00000102908	ENST00000393742	protein_coding	KNOWN	CCDS10882	7774	4368	1455	69600111	69738569	1	None	TONEBP, KIAA0827, NFATL1, OREBP, NFATZ, NF-AT5
16	NFAT5	ENSG00000102908	ENST00000566899	protein_coding	NOVEL	CCDS10882	7774	4368	1455	69600254	69729579	1	None	TONEBP, KIAA0827, NFATL1, OREBP, NFATZ, NF-AT5
16	NFAT5	ENSG00000102908	ENST00000565301	protein_coding	PUTATIVE	None	7774	426	141	69681035	69730481	1	None	TONEBP, KIAA0827, NFATL1, OREBP, NFATZ, NF-AT5
16	NFAT5	ENSG00000102908	ENST00000563474	nonsense_mediated_decay	KNOWN	None	7774	430	142	69687139	69718819	1	None	TONEBP, KIAA0827, NFATL1, OREBP, NFATZ, NF-AT5
16	NFAT5	ENSG00000102908	ENST00000562429	retained_intron	KNOWN	None	7774	None	None	69710798	69724879	1	None	TONEBP, KIAA0827, NFATL1, OREBP, NFATZ, NF-AT5
16	NFAT5	ENSG00000102908	ENST00000568832	retained_intron	KNOWN	None	7774	None	None	69724447	69725956	1	None	TONEBP, KIAA0827, NFATL1, OREBP, NFATZ, NF-AT5
16	NFAT5	ENSG00000102908	ENST00000432919	protein_coding	KNOWN	CCDS45518	7774	4650	1549	69598997	69738553	1	None	TONEBP, KIAA0827, NFATL1, OREBP, NFATZ, NF-AT5
16	NFAT5	ENSG00000102908	ENST00000349945	protein_coding	KNOWN	CCDS10882	7774	4368	1455	69598997	69738553	1	None	TONEBP, KIAA0827, NFATL1, OREBP, NFATZ, NF-AT5
10	None	ENSG00000222305	ENST00000410373	misc_RNA	NOVEL	None	None	None	None	92639797	92639936	-1	None	None
10	RNU6-740P	ENSG00000201604	ENST00000364734	snRNA	KNOWN	None	47703	None	None	92682488	92682592	-1	None	None
1	EXTL2	ENSG00000162694	ENST00000370113	protein_coding	NOVEL	CCDS775	3516	993	330	101337943	101360368	-1	None	None
1	EXTL2	ENSG00000162694	ENST00000370114	protein_coding	KNOWN	CCDS775	3516	993	330	101337943	101361554	-1	None	None
1	EXTL2	ENSG00000162694	ENST00000450240	protein_coding	PUTATIVE	None	3516	799	265	101339716	101360220	-1	None	None
1	EXTL2	ENSG00000162694	ENST00000416479	protein_coding	PUTATIVE	None	3516	351	116	101343075	101360367	-1	None	None
1	EXTL2	ENSG00000162694	ENST00000494907	processed_transcript	KNOWN	None	3516	None	None	101351154	101360237	-1	None	None
1	EXTL2	ENSG00000162694	ENST00000480774	processed_transcript	KNOWN	None	3516	None	None	101353880	101360361	-1	None	None
1	EXTL2	ENSG00000162694	ENST00000535414	protein_coding	KNOWN	None	3516	954	317	101339112	101360387	-1	None	None
1	LDLRAP1	ENSG00000157978	ENST00000374338	protein_coding	KNOWN	CCDS30639	18640	927	308	25870071	25895377	1	None	ARH, ARH2, FHCB1, FHCB2, MGC34705, DKFZp586D0624
1	LDLRAP1	ENSG00000157978	ENST00000485476	processed_transcript	KNOWN	None	18640	None	None	25876452	25881370	1	None	ARH, ARH2, FHCB1, FHCB2, MGC34705, DKFZp586D0624
1	LDLRAP1	ENSG00000157978	ENST00000488127	processed_transcript	KNOWN	None	18640	None	None	25879855	25895375	1	None	ARH, ARH2, FHCB1, FHCB2, MGC34705, DKFZp586D0624
1	LDLRAP1	ENSG00000157978	ENST00000462394	processed_transcript	KNOWN	None	18640	None	None	25881372	25883920	1	None	ARH, ARH2, FHCB1, FHCB2, MGC34705, DKFZp586D0624
1	LDLRAP1	ENSG00000157978	ENST00000484476	processed_transcript	KNOWN	None	18640	None	None	25889307	25893491	1	None	ARH, ARH2, FHCB1, FHCB2, MGC34705, DKFZp586D0624
1	LDLRAP1	ENSG00000157978	ENST00000474283	processed_transcript	KNOWN	None	18640	None	None	25890125	25894061	1	None	ARH, ARH2, FHCB1, FHCB2, MGC34705, DKFZp586D0624
1	LDLRAP1	ENSG00000157978	ENST00000470950	processed_transcript	KNOWN	None	18640	None	None	25891082	25894127	1	None	ARH, ARH2, FHCB1, FHCB2, MGC34705, DKFZp586D0624
10	None	ENSG00000225519	ENST00000412362	lincRNA	KNOWN	None	None	None	None	92754377	92766147	1	None	None
10	LINC00502	ENSG00000224851	ENST00000423621	lincRNA	KNOWN	None	43442	None	None	92806923	92821916	1	None	None
11	RASGRP2	ENSG00000068831	ENST00000464324	retained_intron	KNOWN	None	9879	None	None	64494383	64508355	-1	None	CALDAG-GEFI
11	RASGRP2	ENSG00000068831	ENST00000377494	protein_coding	KNOWN	None	9879	1833	610	64494383	64511261	-1	None	CALDAG-GEFI
11	RASGRP2	ENSG00000068831	ENST00000421556	nonsense_mediated_decay	KNOWN	None	9879	192	63	64494383	64511594	-1	None	CALDAG-GEFI
11	RASGRP2	ENSG00000068831	ENST00000394432	protein_coding	NOVEL	CCDS31598	9879	1830	609	64494383	64511650	-1	None	CALDAG-GEFI
11	RASGRP2	ENSG00000068831	ENST00000377497	protein_coding	NOVEL	CCDS31598	9879	1830	609	64494383	64512306	-1	None	CALDAG-GEFI
11	RASGRP2	ENSG00000068831	ENST00000354024	protein_coding	NOVEL	CCDS31598	9879	1830	609	64494383	64512928	-1	None	CALDAG-GEFI
11	RASGRP2	ENSG00000068831	ENST00000488071	retained_intron	KNOWN	None	9879	None	None	64494418	64502738	-1	None	CALDAG-GEFI
11	RASGRP2	ENSG00000068831	ENST00000494001	retained_intron	KNOWN	None	9879	None	None	64497653	64504506	-1	None	CALDAG-GEFI
11	RASGRP2	ENSG00000068831	ENST00000497441	retained_intron	KNOWN	None	9879	None	None	64502584	64504726	-1	None	CALDAG-GEFI
11	RASGRP2	ENSG00000068831	ENST00000465852	retained_intron	KNOWN	None	9879	None	None	64502846	64504716	-1	None	CALDAG-GEFI
11	RASGRP2	ENSG00000068831	ENST00000445445	nonsense_mediated_decay	KNOWN	None	9879	381	126	64506851	64510418	-1	None	CALDAG-GEFI
11	RASGRP2	ENSG00000068831	ENST00000431822	protein_coding	NOVEL	None	9879	696	231	64507108	64511590	-1	None	CALDAG-GEFI
11	RASGRP2	ENSG00000068831	ENST00000441258	nonsense_mediated_decay	KNOWN	None	9879	378	125	64507598	64512303	-1	None	CALDAG-GEFI
11	RASGRP2	ENSG00000068831	ENST00000394429	protein_coding	PUTATIVE	None	9879	201	66	64508338	64510409	-1	None	CALDAG-GEFI
11	RASGRP2	ENSG00000068831	ENST00000394428	protein_coding	PUTATIVE	None	9879	192	63	64508338	64510409	-1	None	CALDAG-GEFI
11	RASGRP2	ENSG00000068831	ENST00000377486	protein_coding	PUTATIVE	None	9879	447	148	64508338	64511617	-1	None	CALDAG-GEFI
11	RASGRP2	ENSG00000068831	ENST00000377487	protein_coding	PUTATIVE	None	9879	447	148	64508338	64512331	-1	None	CALDAG-GEFI
11	RASGRP2	ENSG00000068831	ENST00000377489	protein_coding	PUTATIVE	None	9879	447	148	64508338	64512805	-1	None	CALDAG-GEFI
11	RASGRP2	ENSG00000068831	ENST00000394430	protein_coding	PUTATIVE	None	9879	447	148	64508340	64512061	-1	None	CALDAG-GEFI
11	RASGRP2	ENSG00000068831	ENST00000377485	protein_coding	NOVEL	None	9879	293	96	64508498	64512469	-1	None	CALDAG-GEFI
11	RASGRP2	ENSG00000068831	ENST00000430645	protein_coding	NOVEL	None	9879	251	82	64508540	64512339	-1	None	CALDAG-GEFI
11	RASGRP2	ENSG00000068831	ENST00000480443	retained_intron	KNOWN	None	9879	None	None	64509983	64512332	-1	None	CALDAG-GEFI
11	RASGRP2	ENSG00000068831	ENST00000419843	protein_coding	NOVEL	None	9879	41	12	64510298	64511789	-1	None	CALDAG-GEFI
10	DDX18P6	ENSG00000220585	ENST00000450119	processed_pseudogene	KNOWN	None	31126	None	None	92812808	92814804	1	None	None
10	DDX18P6	ENSG00000220585	ENST00000404391	processed_pseudogene	KNOWN	None	31126	None	None	92812808	92813176	1	None	None
7	RN7SL265P	ENSG00000241709	ENST00000486808	misc_RNA	KNOWN	None	46281	None	None	73146901	73147201	-1	None	None
7	LINC00035	ENSG00000225969	ENST00000427153	antisense	KNOWN	None	18289	None	None	73149368	73150384	1	WBSCR26, ABHD11-AS1	NCRNA00035
X	XAGE1E	ENSG00000204375	ENST00000463689	retained_intron	KNOWN	None	18372	None	None	52541053	52544001	-1	None	None
X	XAGE1E	ENSG00000204375	ENST00000375563	processed_transcript	KNOWN	None	18372	None	None	52541053	52545988	-1	None	None
X	XAGE1E	ENSG00000204375	ENST00000375567	protein_coding	KNOWN	CCDS48128	18372	210	69	52541053	52546033	-1	None	None
X	XAGE1E	ENSG00000204375	ENST00000375570	protein_coding	KNOWN	CCDS48126	18372	246	81	52541053	52546189	-1	None	None
X	XAGE1E	ENSG00000204375	ENST00000429372	protein_coding	KNOWN	None	18372	441	146	52541053	52546197	-1	None	None
10	None	ENSG00000234043	ENST00000477230	processed_pseudogene	KNOWN	None	None	None	None	92912362	92913106	-1	None	None
X	CT47A10	ENSG00000224089	ENST00000430448	protein_coding	KNOWN	CCDS35382	33291	867	288	120072561	120075873	-1	None	CT47.10
6	RPS18	ENSG00000231500	ENST00000439602	protein_coding	KNOWN	CCDS4771	10401	459	152	33239787	33244287	1	D6S218E	KE3, KE-3, HKE3, S18
6	RPS18	ENSG00000231500	ENST00000474973	protein_coding	KNOWN	None	10401	249	82	33239852	33244287	1	D6S218E	KE3, KE-3, HKE3, S18
6	RPS18	ENSG00000231500	ENST00000474626	retained_intron	KNOWN	None	10401	None	None	33239865	33244282	1	D6S218E	KE3, KE-3, HKE3, S18
6	RPS18	ENSG00000231500	ENST00000476222	processed_transcript	KNOWN	None	10401	None	None	33239873	33244287	1	D6S218E	KE3, KE-3, HKE3, S18
6	RPS18	ENSG00000231500	ENST00000496813	retained_intron	KNOWN	None	10401	None	None	33239876	33244282	1	D6S218E	KE3, KE-3, HKE3, S18
6	RPS18	ENSG00000231500	ENST00000490191	retained_intron	KNOWN	None	10401	None	None	33239909	33244287	1	D6S218E	KE3, KE-3, HKE3, S18
6	RPS18	ENSG00000231500	ENST00000472218	retained_intron	KNOWN	None	10401	None	None	33243098	33244287	1	D6S218E	KE3, KE-3, HKE3, S18
6	RPS18	ENSG00000231500	ENST00000479802	retained_intron	KNOWN	None	10401	None	None	33243643	33244287	1	D6S218E	KE3, KE-3, HKE3, S18
3	LRCH3	ENSG00000186001	ENST00000443727	nonsense_mediated_decay	KNOWN	None	28637	279	92	197518097	197556487	1	None	MGC4126
3	LRCH3	ENSG00000186001	ENST00000438796	protein_coding	KNOWN	None	28637	2412	803	197518106	197615307	1	None	MGC4126
3	LRCH3	ENSG00000186001	ENST00000414675	protein_coding	NOVEL	None	28637	2178	725	197518135	197610643	1	None	MGC4126
3	LRCH3	ENSG00000186001	ENST00000441090	protein_coding	NOVEL	None	28637	1872	623	197518135	197610684	1	None	MGC4126
3	LRCH3	ENSG00000186001	ENST00000334859	protein_coding	KNOWN	CCDS3330	28637	2139	712	197518145	197598456	1	None	MGC4126
3	LRCH3	ENSG00000186001	ENST00000425562	protein_coding	KNOWN	None	28637	2334	777	197518150	197611173	1	None	MGC4126
3	LRCH3	ENSG00000186001	ENST00000493726	processed_transcript	PUTATIVE	None	28637	None	None	197547204	197550336	1	None	MGC4126
3	LRCH3	ENSG00000186001	ENST00000494069	retained_intron	KNOWN	None	28637	None	None	197562668	197575370	1	None	MGC4126
3	LRCH3	ENSG00000186001	ENST00000461674	retained_intron	KNOWN	None	28637	None	None	197574716	197597047	1	None	MGC4126
3	LRCH3	ENSG00000186001	ENST00000452660	protein_coding	NOVEL	None	28637	681	226	197574830	197607430	1	None	MGC4126
3	LRCH3	ENSG00000186001	ENST00000433298	protein_coding	NOVEL	None	28637	645	214	197574872	197610869	1	None	MGC4126
3	LRCH3	ENSG00000186001	ENST00000481048	retained_intron	KNOWN	None	28637	None	None	197579199	197593050	1	None	MGC4126
3	LRCH3	ENSG00000186001	ENST00000466845	retained_intron	KNOWN	None	28637	None	None	197581261	197586310	1	None	MGC4126
3	LRCH3	ENSG00000186001	ENST00000471667	retained_intron	KNOWN	None	28637	None	None	197585689	197607496	1	None	MGC4126
3	LRCH3	ENSG00000186001	ENST00000483442	retained_intron	KNOWN	None	28637	None	None	197585692	197602631	1	None	MGC4126
3	LRCH3	ENSG00000186001	ENST00000473177	retained_intron	KNOWN	None	28637	None	None	197585693	197607483	1	None	MGC4126
3	LRCH3	ENSG00000186001	ENST00000428136	protein_coding	KNOWN	None	28637	544	180	197593086	197610247	1	None	MGC4126
3	LRCH3	ENSG00000186001	ENST00000466054	retained_intron	KNOWN	None	28637	None	None	197598294	197603211	1	None	MGC4126
3	LRCH3	ENSG00000186001	ENST00000476664	retained_intron	KNOWN	None	28637	None	None	197602565	197610556	1	None	MGC4126
3	LRCH3	ENSG00000186001	ENST00000536618	protein_coding	KNOWN	None	28637	1119	372	197556499	197612701	1	None	MGC4126
10	None	ENSG00000271385	ENST00000604630	processed_pseudogene	KNOWN	None	None	None	None	93224335	93224465	-1	None	None
10	RPS27P1	ENSG00000223876	ENST00000450552	processed_pseudogene	KNOWN	None	23740	None	None	93304609	93304855	1	None	bA108M11.3
7	None	ENSG00000261467	ENST00000567919	lincRNA	KNOWN	None	None	None	None	73400322	73403097	1	None	None
10	GAPDHP28	ENSG00000213449	ENST00000455134	processed_pseudogene	KNOWN	None	37780	None	None	93426537	93427539	-1	None	None
15	SNRPA1	ENSG00000131876	ENST00000254193	protein_coding	KNOWN	CCDS10391	11152	768	255	101821715	101835456	-1	None	Lea1
15	SNRPA1	ENSG00000131876	ENST00000560307	retained_intron	KNOWN	None	11152	None	None	101821719	101825335	-1	None	Lea1
15	SNRPA1	ENSG00000131876	ENST00000559309	nonsense_mediated_decay	KNOWN	None	11152	465	154	101821719	101835409	-1	None	Lea1
15	SNRPA1	ENSG00000131876	ENST00000558036	retained_intron	KNOWN	None	11152	None	None	101821719	101835487	-1	None	Lea1
15	SNRPA1	ENSG00000131876	ENST00000560433	retained_intron	KNOWN	None	11152	None	None	101821720	101828653	-1	None	Lea1
15	SNRPA1	ENSG00000131876	ENST00000394082	processed_transcript	KNOWN	None	11152	None	None	101821859	101835408	-1	None	Lea1
15	SNRPA1	ENSG00000131876	ENST00000540017	processed_transcript	KNOWN	None	11152	None	None	101821914	101835460	-1	None	Lea1
15	SNRPA1	ENSG00000131876	ENST00000560496	protein_coding	PUTATIVE	None	11152	267	88	101821950	101835110	-1	None	Lea1
15	SNRPA1	ENSG00000131876	ENST00000559686	protein_coding	PUTATIVE	None	11152	429	142	101824941	101827901	-1	None	Lea1
15	SNRPA1	ENSG00000131876	ENST00000560383	retained_intron	KNOWN	None	11152	None	None	101826815	101835418	-1	None	Lea1
15	SNRPA1	ENSG00000131876	ENST00000558059	retained_intron	KNOWN	None	11152	None	None	101826895	101835135	-1	None	Lea1
15	SNRPA1	ENSG00000131876	ENST00000560987	processed_transcript	KNOWN	None	11152	None	None	101827126	101835166	-1	None	Lea1
15	SNRPA1	ENSG00000131876	ENST00000560856	processed_transcript	KNOWN	None	11152	None	None	101827137	101835427	-1	None	Lea1
15	SNRPA1	ENSG00000131876	ENST00000558020	processed_transcript	KNOWN	None	11152	None	None	101828287	101835416	-1	None	Lea1
15	SNRPA1	ENSG00000131876	ENST00000561187	retained_intron	KNOWN	None	11152	None	None	101833044	101835476	-1	None	Lea1
7	None	ENSG00000232415	ENST00000435932	antisense	KNOWN	None	None	None	None	73473906	73476614	-1	None	None
18	SMAD7	ENSG00000101665	ENST00000262158	protein_coding	KNOWN	CCDS11936	6773	1281	426	46446223	46477081	-1	MADH8, MADH7	None
18	SMAD7	ENSG00000101665	ENST00000545051	retained_intron	KNOWN	None	6773	None	None	46446397	46469177	-1	MADH8, MADH7	None
18	SMAD7	ENSG00000101665	ENST00000591805	protein_coding	KNOWN	CCDS54186	6773	636	211	46447363	46475703	-1	MADH8, MADH7	None
18	SMAD7	ENSG00000101665	ENST00000589634	protein_coding	NOVEL	CCDS59317	6773	1278	425	46447742	46476794	-1	MADH8, MADH7	None
18	SMAD7	ENSG00000101665	ENST00000587336	processed_transcript	KNOWN	None	6773	None	None	46447781	46456552	-1	MADH8, MADH7	None
18	SMAD7	ENSG00000101665	ENST00000585986	processed_transcript	KNOWN	None	6773	None	None	46447871	46469102	-1	MADH8, MADH7	None
18	SMAD7	ENSG00000101665	ENST00000586093	protein_coding	KNOWN	None	6773	474	157	46447904	46474875	-1	MADH8, MADH7	None
18	SMAD7	ENSG00000101665	ENST00000588190	processed_transcript	KNOWN	None	6773	None	None	46448011	46460092	-1	MADH8, MADH7	None
Y	RBMY1A1	ENSG00000234414	ENST00000382707	protein_coding	KNOWN	CCDS14796	9912	1491	496	23696765	23711212	1	RBM1, RBM2	YRRM1, YRRM2
Y	RBMY1A1	ENSG00000234414	ENST00000361046	nonsense_mediated_decay	KNOWN	None	9912	246	81	23696790	23711212	1	RBM1, RBM2	YRRM1, YRRM2
Y	RBMY1A1	ENSG00000234414	ENST00000303902	protein_coding	KNOWN	CCDS14796	9912	1491	496	23698778	23711210	1	RBM1, RBM2	YRRM1, YRRM2
Y	RBMY1A1	ENSG00000234414	ENST00000439108	protein_coding	KNOWN	None	9912	870	289	23673258	23711210	1	RBM1, RBM2	YRRM1, YRRM2
3	PLCH1	ENSG00000114805	ENST00000494598	protein_coding	KNOWN	None	29185	3045	1014	155093369	155394205	-1	PLCL3	KIAA1069, MGC117152, DKFZp434C1372, PLCeta1
3	PLCH1	ENSG00000114805	ENST00000460012	protein_coding	KNOWN	CCDS33881	29185	4968	1655	155197670	155462856	-1	PLCL3	KIAA1069, MGC117152, DKFZp434C1372, PLCeta1
3	PLCH1	ENSG00000114805	ENST00000447496	protein_coding	KNOWN	CCDS46940	29185	3009	1002	155197671	155393828	-1	PLCL3	KIAA1069, MGC117152, DKFZp434C1372, PLCeta1
3	PLCH1	ENSG00000114805	ENST00000340059	protein_coding	KNOWN	CCDS46939	29185	5082	1693	155197671	155393828	-1	PLCL3	KIAA1069, MGC117152, DKFZp434C1372, PLCeta1
3	PLCH1	ENSG00000114805	ENST00000469040	retained_intron	KNOWN	None	29185	None	None	155208531	155222361	-1	PLCL3	KIAA1069, MGC117152, DKFZp434C1372, PLCeta1
3	PLCH1	ENSG00000114805	ENST00000334686	protein_coding	KNOWN	CCDS33881	29185	4968	1655	155197671	155421997	-1	PLCL3	KIAA1069, MGC117152, DKFZp434C1372, PLCeta1
3	PLCH1	ENSG00000114805	ENST00000414191	protein_coding	KNOWN	CCDS33881	29185	4968	1655	155197671	155394105	-1	PLCL3	KIAA1069, MGC117152, DKFZp434C1372, PLCeta1
6	TJAP1	ENSG00000137221	ENST00000372454	protein_coding	KNOWN	None	17949	301	99	43445307	43470031	1	TJP4	PILT
6	TJAP1	ENSG00000137221	ENST00000442878	protein_coding	KNOWN	None	17949	579	192	43445311	43471444	1	TJP4	PILT
6	TJAP1	ENSG00000137221	ENST00000259751	protein_coding	KNOWN	CCDS4898	17949	1644	547	43445311	43474291	1	TJP4	PILT
6	TJAP1	ENSG00000137221	ENST00000372452	protein_coding	KNOWN	CCDS4898	17949	1644	547	43445311	43474291	1	TJP4	PILT
6	TJAP1	ENSG00000137221	ENST00000372449	protein_coding	KNOWN	CCDS55004	17949	1674	557	43445311	43474291	1	TJP4	PILT
6	TJAP1	ENSG00000137221	ENST00000483640	processed_transcript	KNOWN	None	17949	None	None	43457353	43474291	1	TJP4	PILT
6	TJAP1	ENSG00000137221	ENST00000478173	processed_transcript	KNOWN	None	17949	None	None	43466758	43471444	1	TJP4	PILT
6	TJAP1	ENSG00000137221	ENST00000459851	processed_transcript	KNOWN	None	17949	None	None	43466835	43471434	1	TJP4	PILT
6	TJAP1	ENSG00000137221	ENST00000490050	processed_transcript	KNOWN	None	17949	None	None	43468704	43471405	1	TJP4	PILT
6	TJAP1	ENSG00000137221	ENST00000454762	protein_coding	KNOWN	None	17949	718	238	43469264	43474291	1	TJP4	PILT
6	TJAP1	ENSG00000137221	ENST00000372444	protein_coding	KNOWN	CCDS4898	17949	1644	547	43445261	43474294	1	TJP4	PILT
6	TJAP1	ENSG00000137221	ENST00000372445	protein_coding	KNOWN	CCDS55004	17949	1674	557	43445261	43474294	1	TJP4	PILT
6	TJAP1	ENSG00000137221	ENST00000436109	protein_coding	KNOWN	CCDS4898	17949	1644	547	43445261	43474294	1	TJP4	PILT
6	TJAP1	ENSG00000137221	ENST00000438588	protein_coding	KNOWN	CCDS55004	17949	1674	557	43457322	43474294	1	TJP4	PILT
X	CT47A9	ENSG00000226600	ENST00000417256	protein_coding	KNOWN	CCDS35383	33290	867	288	120077421	120080733	-1	None	CT47.9
19	CCDC106	ENSG00000173581	ENST00000592996	protein_coding	KNOWN	None	30181	518	171	56152428	56162853	1	None	HSU79303
19	CCDC106	ENSG00000173581	ENST00000593069	protein_coding	KNOWN	None	30181	136	44	56159380	56160675	1	None	HSU79303
19	CCDC106	ENSG00000173581	ENST00000308964	protein_coding	KNOWN	CCDS33118	30181	843	280	56159401	56164527	1	None	HSU79303
19	CCDC106	ENSG00000173581	ENST00000587213	protein_coding	KNOWN	None	30181	117	38	56159424	56160656	1	None	HSU79303
19	CCDC106	ENSG00000173581	ENST00000586790	protein_coding	KNOWN	CCDS33118	30181	843	280	56159509	56164527	1	None	HSU79303
19	CCDC106	ENSG00000173581	ENST00000591578	protein_coding	KNOWN	CCDS33118	30181	843	280	56159599	56164527	1	None	HSU79303
19	CCDC106	ENSG00000173581	ENST00000588740	protein_coding	KNOWN	CCDS33118	30181	843	280	56159599	56164527	1	None	HSU79303
19	CCDC106	ENSG00000173581	ENST00000586864	retained_intron	KNOWN	None	30181	None	None	56160271	56161021	1	None	HSU79303
19	CCDC106	ENSG00000173581	ENST00000591241	protein_coding	KNOWN	None	30181	738	245	56160285	56164399	1	None	HSU79303
10	None	ENSG00000228685	ENST00000441526	processed_pseudogene	KNOWN	None	None	None	None	5666894	5667089	1	None	None
8	CTSB	ENSG00000164733	ENST00000526481	nonsense_mediated_decay	KNOWN	None	2527	231	76	11700033	11703302	-1	None	None
8	CTSB	ENSG00000164733	ENST00000353047	protein_coding	KNOWN	CCDS5986	2527	1020	339	11700033	11725738	-1	None	None
8	CTSB	ENSG00000164733	ENST00000420692	retained_intron	KNOWN	None	2527	None	None	11701529	11706212	-1	None	None
8	CTSB	ENSG00000164733	ENST00000530640	protein_coding	KNOWN	CCDS5986	2527	1020	339	11701562	11725621	-1	None	None
8	CTSB	ENSG00000164733	ENST00000531089	protein_coding	KNOWN	CCDS5986	2527	1020	339	11701603	11725621	-1	None	None
8	CTSB	ENSG00000164733	ENST00000453527	protein_coding	KNOWN	CCDS5986	2527	1020	339	11701829	11725596	-1	None	None
8	CTSB	ENSG00000164733	ENST00000531551	nonsense_mediated_decay	KNOWN	None	2527	333	110	11701833	11725549	-1	None	None
8	CTSB	ENSG00000164733	ENST00000345125	protein_coding	KNOWN	CCDS5986	2527	1020	339	11701849	11725588	-1	None	None
8	CTSB	ENSG00000164733	ENST00000533455	protein_coding	KNOWN	CCDS5986	2527	1020	339	11701864	11725615	-1	None	None
8	CTSB	ENSG00000164733	ENST00000534510	protein_coding	KNOWN	CCDS5986	2527	1020	339	11701879	11725615	-1	None	None
8	CTSB	ENSG00000164733	ENST00000530624	processed_transcript	KNOWN	None	2527	None	None	11703170	11706018	-1	None	None
8	CTSB	ENSG00000164733	ENST00000532409	retained_intron	KNOWN	None	2527	None	None	11704602	11707087	-1	None	None
8	CTSB	ENSG00000164733	ENST00000530290	processed_transcript	KNOWN	None	2527	None	None	11704626	11706136	-1	None	None
8	CTSB	ENSG00000164733	ENST00000533110	processed_transcript	KNOWN	None	2527	None	None	11705188	11707556	-1	None	None
8	CTSB	ENSG00000164733	ENST00000534636	protein_coding	KNOWN	None	2527	525	174	11705583	11725561	-1	None	None
8	CTSB	ENSG00000164733	ENST00000533572	protein_coding	KNOWN	None	2527	510	169	11705598	11725202	-1	None	None
8	CTSB	ENSG00000164733	ENST00000530296	protein_coding	KNOWN	None	2527	495	164	11705613	11726426	-1	None	None
8	CTSB	ENSG00000164733	ENST00000525076	processed_transcript	KNOWN	None	2527	None	None	11705996	11725567	-1	None	None
8	CTSB	ENSG00000164733	ENST00000526195	protein_coding	KNOWN	None	2527	446	147	11706555	11726244	-1	None	None
8	CTSB	ENSG00000164733	ENST00000527243	protein_coding	KNOWN	None	2527	431	142	11706570	11719977	-1	None	None
8	CTSB	ENSG00000164733	ENST00000534149	protein_coding	KNOWN	None	2527	430	142	11706571	11726248	-1	None	None
8	CTSB	ENSG00000164733	ENST00000526645	protein_coding	KNOWN	None	2527	408	135	11706593	11726222	-1	None	None
8	CTSB	ENSG00000164733	ENST00000525315	retained_intron	KNOWN	None	2527	None	None	11708124	11710971	-1	None	None
8	CTSB	ENSG00000164733	ENST00000532370	retained_intron	KNOWN	None	2527	None	None	11708374	11711328	-1	None	None
8	CTSB	ENSG00000164733	ENST00000505496	protein_coding	KNOWN	None	2527	304	100	11708398	11725549	-1	None	None
8	CTSB	ENSG00000164733	ENST00000524500	protein_coding	KNOWN	None	2527	296	97	11708406	11725579	-1	None	None
8	CTSB	ENSG00000164733	ENST00000531502	protein_coding	KNOWN	None	2527	276	91	11708426	11725627	-1	None	None
8	CTSB	ENSG00000164733	ENST00000532656	protein_coding	KNOWN	None	2527	212	69	11710119	11725623	-1	None	None
8	CTSB	ENSG00000164733	ENST00000534382	protein_coding	KNOWN	None	2527	212	69	11710119	11726957	-1	None	None
8	CTSB	ENSG00000164733	ENST00000527215	protein_coding	KNOWN	None	2527	205	67	11710126	11725598	-1	None	None
8	CTSB	ENSG00000164733	ENST00000528965	protein_coding	KNOWN	None	2527	166	54	11710165	11725039	-1	None	None
8	CTSB	ENSG00000164733	ENST00000524654	protein_coding	KNOWN	None	2527	97	31	11710867	11712434	-1	None	None
8	CTSB	ENSG00000164733	ENST00000532392	protein_coding	KNOWN	None	2527	62	19	11710902	11725598	-1	None	None
8	CTSB	ENSG00000164733	ENST00000434271	protein_coding	KNOWN	CCDS5986	2527	1020	339	11700033	11725646	-1	None	None
8	CTSB	ENSG00000164733	ENST00000415599	protein_coding	KNOWN	None	2527	333	110	11701835	11711035	-1	None	None
10	RN7SL445P	ENSG00000240577	ENST00000495609	misc_RNA	KNOWN	None	46461	None	None	5673426	5673716	1	None	None
7	JAZF1-AS1	ENSG00000234336	ENST00000455963	antisense	KNOWN	None	41218	None	None	28219941	28280383	1	None	None
7	JAZF1-AS1	ENSG00000234336	ENST00000436758	antisense	KNOWN	None	41218	None	None	28220076	28280350	1	None	None
7	JAZF1-AS1	ENSG00000234336	ENST00000444500	antisense	KNOWN	None	41218	None	None	28279503	28283536	1	None	None
10	None	ENSG00000226647	ENST00000411512	antisense	KNOWN	None	None	None	None	5754137	5786030	-1	None	None
10	None	ENSG00000226647	ENST00000596567	antisense	KNOWN	None	None	None	None	5754383	5756386	-1	None	None
20	MATN4	ENSG00000124159	ENST00000372756	protein_coding	NOVEL	CCDS13348	6910	1746	581	43922085	43934231	-1	None	None
20	MATN4	ENSG00000124159	ENST00000372754	protein_coding	KNOWN	None	6910	1869	622	43922085	43934231	-1	None	None
20	MATN4	ENSG00000124159	ENST00000372753	protein_coding	KNOWN	None	6910	1299	432	43922085	43934231	-1	None	None
20	MATN4	ENSG00000124159	ENST00000342716	protein_coding	KNOWN	CCDS13348	6910	1746	581	43922087	43936967	-1	None	None
20	MATN4	ENSG00000124159	ENST00000360607	protein_coding	KNOWN	CCDS46607	6910	1623	540	43922087	43936967	-1	None	None
20	MATN4	ENSG00000124159	ENST00000353917	protein_coding	KNOWN	CCDS46606	6910	1500	499	43922087	43936967	-1	None	None
20	MATN4	ENSG00000124159	ENST00000537548	protein_coding	KNOWN	CCDS13348	6910	1746	581	43922116	43937169	-1	None	None
20	MATN4	ENSG00000124159	ENST00000372751	protein_coding	KNOWN	None	6910	1299	432	43922407	43936967	-1	None	None
10	NRBF2P5	ENSG00000270427	ENST00000603087	processed_pseudogene	KNOWN	None	44683	None	None	5818034	5818821	1	None	None
13	UFM1	ENSG00000120686	ENST00000494372	retained_intron	KNOWN	None	20597	None	None	38923986	38929022	1	C13orf20	bA131P10.1
13	UFM1	ENSG00000120686	ENST00000379649	protein_coding	PUTATIVE	None	20597	312	103	38923988	38935262	1	C13orf20	bA131P10.1
13	UFM1	ENSG00000120686	ENST00000239878	protein_coding	KNOWN	CCDS9366	20597	258	85	38924018	38937140	1	C13orf20	bA131P10.1
13	UFM1	ENSG00000120686	ENST00000464423	retained_intron	KNOWN	None	20597	None	None	38924023	38928695	1	C13orf20	bA131P10.1
13	UFM1	ENSG00000120686	ENST00000437952	protein_coding	PUTATIVE	None	20597	244	80	38924133	38933918	1	C13orf20	bA131P10.1
13	UFM1	ENSG00000120686	ENST00000379641	protein_coding	KNOWN	None	20597	312	103	38924252	38937137	1	C13orf20	bA131P10.1
HSCHR6_MHC_MCF	None	ENSG00000263971	ENST00000579513	snRNA	NOVEL	None	None	None	None	32576146	32576297	-1	None	None
3	FXR1	ENSG00000114416	ENST00000469882	protein_coding	PUTATIVE	None	4023	358	118	180585929	180667114	1	None	None
3	FXR1	ENSG00000114416	ENST00000484790	protein_coding	PUTATIVE	None	4023	227	74	180585944	180666571	1	None	None
3	FXR1	ENSG00000114416	ENST00000465551	protein_coding	PUTATIVE	None	4023	282	93	180586539	180667038	1	None	None
3	FXR1	ENSG00000114416	ENST00000357559	protein_coding	KNOWN	CCDS3238	4023	1866	621	180630090	180700541	1	None	None
3	FXR1	ENSG00000114416	ENST00000305586	protein_coding	KNOWN	CCDS33894	4023	1611	536	180630270	180694943	1	None	None
3	FXR1	ENSG00000114416	ENST00000475315	retained_intron	KNOWN	None	4023	None	None	180630279	180694367	1	None	None
3	FXR1	ENSG00000114416	ENST00000491674	protein_coding	PUTATIVE	None	4023	60	19	180630326	180645601	1	None	None
3	FXR1	ENSG00000114416	ENST00000479176	retained_intron	KNOWN	None	4023	None	None	180630459	180665980	1	None	None
3	FXR1	ENSG00000114416	ENST00000491062	protein_coding	NOVEL	None	4023	1473	490	180630459	180694206	1	None	None
3	FXR1	ENSG00000114416	ENST00000468861	protein_coding	NOVEL	None	4023	1365	454	180630459	180694333	1	None	None
3	FXR1	ENSG00000114416	ENST00000445140	protein_coding	KNOWN	CCDS46965	4023	1620	539	180630460	180694943	1	None	None
3	FXR1	ENSG00000114416	ENST00000472339	retained_intron	KNOWN	None	4023	None	None	180630466	180694341	1	None	None
3	FXR1	ENSG00000114416	ENST00000484958	protein_coding	PUTATIVE	None	4023	371	122	180630473	180667127	1	None	None
3	FXR1	ENSG00000114416	ENST00000480918	protein_coding	PUTATIVE	None	4023	1827	608	180633222	180694166	1	None	None
3	FXR1	ENSG00000114416	ENST00000484042	protein_coding	PUTATIVE	None	4023	453	150	180633248	180666530	1	None	None
3	FXR1	ENSG00000114416	ENST00000461801	retained_intron	KNOWN	None	4023	None	None	180650824	180652984	1	None	None
3	FXR1	ENSG00000114416	ENST00000473375	retained_intron	KNOWN	None	4023	None	None	180669118	180671893	1	None	None
3	FXR1	ENSG00000114416	ENST00000461044	retained_intron	KNOWN	None	4023	None	None	180675315	180680869	1	None	None
3	FXR1	ENSG00000114416	ENST00000498658	retained_intron	KNOWN	None	4023	None	None	180675597	180686193	1	None	None
3	FXR1	ENSG00000114416	ENST00000476672	retained_intron	KNOWN	None	4023	None	None	180675657	180688449	1	None	None
3	FXR1	ENSG00000114416	ENST00000482125	protein_coding	NOVEL	None	4023	739	245	180685839	180694070	1	None	None
3	FXR1	ENSG00000114416	ENST00000481383	retained_intron	KNOWN	None	4023	None	None	180687980	180689604	1	None	None
HSCHR6_MHC_MCF	HLA-DQB1-AS1	ENSG00000232351	ENST00000431777	processed_transcript	PUTATIVE	None	39762	None	None	32658435	32659285	1	None	None
10	None	ENSG00000240180	ENST00000430852	processed_pseudogene	KNOWN	None	None	None	None	5903768	5904557	-1	None	None
HSCHR6_MHC_MCF	None	ENSG00000242044	ENST00000428181	processed_transcript	PUTATIVE	None	None	None	None	32658441	32661036	-1	None	None
HSCHR6_MHC_MCF	MTCO3P1	ENSG00000228025	ENST00000427393	unprocessed_pseudogene	KNOWN	None	31342	None	None	32707550	32708382	-1	None	U92032.1
6	DTNBP1	ENSG00000047579	ENST00000344537	protein_coding	KNOWN	CCDS4534	17328	1056	351	15523032	15663273	-1	None	Dysbindin, My031, HPS7, DBND, BLOC1S8
6	DTNBP1	ENSG00000047579	ENST00000462989	protein_coding	NOVEL	None	17328	588	195	15523038	15586246	-1	None	Dysbindin, My031, HPS7, DBND, BLOC1S8
6	DTNBP1	ENSG00000047579	ENST00000510395	nonsense_mediated_decay	KNOWN	None	17328	135	44	15523041	15663238	-1	None	Dysbindin, My031, HPS7, DBND, BLOC1S8
6	DTNBP1	ENSG00000047579	ENST00000515875	nonsense_mediated_decay	KNOWN	None	17328	627	208	15523068	15663261	-1	None	Dysbindin, My031, HPS7, DBND, BLOC1S8
6	DTNBP1	ENSG00000047579	ENST00000513680	nonsense_mediated_decay	KNOWN	None	17328	141	46	15523074	15663289	-1	None	Dysbindin, My031, HPS7, DBND, BLOC1S8
6	DTNBP1	ENSG00000047579	ENST00000509674	protein_coding	PUTATIVE	None	17328	427	141	15523286	15548593	-1	None	Dysbindin, My031, HPS7, DBND, BLOC1S8
6	DTNBP1	ENSG00000047579	ENST00000338950	protein_coding	KNOWN	CCDS4535	17328	912	303	15523794	15663206	-1	None	Dysbindin, My031, HPS7, DBND, BLOC1S8
6	DTNBP1	ENSG00000047579	ENST00000506844	nonsense_mediated_decay	KNOWN	None	17328	141	46	15524216	15663151	-1	None	Dysbindin, My031, HPS7, DBND, BLOC1S8
6	DTNBP1	ENSG00000047579	ENST00000514651	retained_intron	KNOWN	None	17328	None	None	15524343	15533778	-1	None	Dysbindin, My031, HPS7, DBND, BLOC1S8
6	DTNBP1	ENSG00000047579	ENST00000511762	protein_coding	NOVEL	None	17328	692	229	15524771	15663251	-1	None	Dysbindin, My031, HPS7, DBND, BLOC1S8
6	DTNBP1	ENSG00000047579	ENST00000355917	protein_coding	KNOWN	None	17328	1059	352	15523041	15663271	-1	None	Dysbindin, My031, HPS7, DBND, BLOC1S8
16	None	ENSG00000260974	ENST00000563937	antisense	KNOWN	None	None	None	None	32686358	32690152	1	None	None
20	SDCBP2	ENSG00000125775	ENST00000467129	processed_transcript	PUTATIVE	None	15756	None	None	1290619	1291725	-1	None	ST-2, SITAC18
20	SDCBP2	ENSG00000125775	ENST00000381808	protein_coding	KNOWN	CCDS13013	15756	624	207	1290619	1294317	-1	None	ST-2, SITAC18
20	SDCBP2	ENSG00000125775	ENST00000381812	protein_coding	KNOWN	CCDS42848	15756	879	292	1290619	1306351	-1	None	ST-2, SITAC18
20	SDCBP2	ENSG00000125775	ENST00000339987	protein_coding	KNOWN	CCDS42848	15756	879	292	1290619	1306513	-1	None	ST-2, SITAC18
20	SDCBP2	ENSG00000125775	ENST00000360779	protein_coding	KNOWN	CCDS42848	15756	879	292	1290619	1309883	-1	None	ST-2, SITAC18
HSCHR6_MHC_MCF	None	ENSG00000226550	ENST00000415156	processed_transcript	KNOWN	None	None	None	None	32718927	32719753	1	None	None
HSCHR6_MHC_MCF	None	ENSG00000226550	ENST00000440024	processed_transcript	PUTATIVE	None	None	None	None	32718952	32719758	1	None	None
HSCHR6_MHC_MCF	None	ENSG00000226550	ENST00000428852	processed_transcript	PUTATIVE	None	None	None	None	32719307	32719761	1	None	None
8	OSGIN2	ENSG00000164823	ENST00000297438	protein_coding	KNOWN	CCDS6248	1355	1518	505	90914087	90940096	1	C8orf1	hT41
8	OSGIN2	ENSG00000164823	ENST00000451899	protein_coding	KNOWN	CCDS47888	1355	1650	549	90914762	90940116	1	C8orf1	hT41
8	OSGIN2	ENSG00000164823	ENST00000520659	protein_coding	PUTATIVE	None	1355	624	207	90914989	90933547	1	C8orf1	hT41
6	None	ENSG00000237643	ENST00000418403	lincRNA	KNOWN	None	None	None	None	71104590	71109120	1	None	None
16	None	ENSG00000261391	ENST00000568401	processed_pseudogene	KNOWN	None	None	None	None	32727252	32727377	1	None	None
12	PRICKLE1	ENSG00000139174	ENST00000445766	protein_coding	KNOWN	CCDS8742	17019	2496	831	42852157	42984157	-1	None	FLJ31937, EPM1B
12	PRICKLE1	ENSG00000139174	ENST00000548696	protein_coding	KNOWN	CCDS8742	17019	2496	831	42852753	42877744	-1	None	FLJ31937, EPM1B
12	PRICKLE1	ENSG00000139174	ENST00000345127	protein_coding	KNOWN	CCDS8742	17019	2496	831	42853052	42983478	-1	None	FLJ31937, EPM1B
12	PRICKLE1	ENSG00000139174	ENST00000552240	protein_coding	KNOWN	CCDS8742	17019	2496	831	42853070	42877416	-1	None	FLJ31937, EPM1B
12	PRICKLE1	ENSG00000139174	ENST00000552108	protein_coding	KNOWN	None	17019	478	158	42862538	42878134	-1	None	FLJ31937, EPM1B
12	PRICKLE1	ENSG00000139174	ENST00000551050	protein_coding	KNOWN	None	17019	357	118	42863279	42876874	-1	None	FLJ31937, EPM1B
12	PRICKLE1	ENSG00000139174	ENST00000547113	protein_coding	KNOWN	None	17019	329	108	42863307	42983478	-1	None	FLJ31937, EPM1B
12	PRICKLE1	ENSG00000139174	ENST00000552200	processed_transcript	KNOWN	None	17019	None	None	42877615	42983546	-1	None	FLJ31937, EPM1B
12	PRICKLE1	ENSG00000139174	ENST00000455697	protein_coding	KNOWN	CCDS8742	17019	2496	831	42852140	42877797	-1	None	FLJ31937, EPM1B
19	SIGLEC10	ENSG00000142512	ENST00000441969	protein_coding	KNOWN	CCDS54302	15620	1635	544	51913275	51920890	-1	None	SIGLEC-10, SLG2, PRO940, MGC126774
19	SIGLEC10	ENSG00000142512	ENST00000353836	protein_coding	KNOWN	CCDS54305	15620	1809	602	51913275	51921057	-1	None	SIGLEC-10, SLG2, PRO940, MGC126774
19	SIGLEC10	ENSG00000142512	ENST00000442846	protein_coding	KNOWN	CCDS54301	15620	1365	454	51913276	51920835	-1	None	SIGLEC-10, SLG2, PRO940, MGC126774
19	SIGLEC10	ENSG00000142512	ENST00000357375	retained_intron	KNOWN	None	15620	None	None	51913276	51920965	-1	None	SIGLEC-10, SLG2, PRO940, MGC126774
19	SIGLEC10	ENSG00000142512	ENST00000525998	protein_coding	NOVEL	None	15620	1539	512	51914112	51920896	-1	None	SIGLEC-10, SLG2, PRO940, MGC126774
19	SIGLEC10	ENSG00000142512	ENST00000436984	protein_coding	KNOWN	CCDS54304	15620	1665	554	51914303	51920896	-1	None	SIGLEC-10, SLG2, PRO940, MGC126774
19	SIGLEC10	ENSG00000142512	ENST00000439889	protein_coding	KNOWN	CCDS54303	15620	1920	639	51914303	51920991	-1	None	SIGLEC-10, SLG2, PRO940, MGC126774
19	SIGLEC10	ENSG00000142512	ENST00000339313	protein_coding	KNOWN	CCDS12832	15620	2094	697	51914308	51920952	-1	None	SIGLEC-10, SLG2, PRO940, MGC126774
19	SIGLEC10	ENSG00000142512	ENST00000529627	protein_coding	NOVEL	None	15620	466	154	51919152	51920965	-1	None	SIGLEC-10, SLG2, PRO940, MGC126774
19	SIGLEC10	ENSG00000142512	ENST00000530476	protein_coding	PUTATIVE	None	15620	559	185	51919968	51920845	-1	None	SIGLEC-10, SLG2, PRO940, MGC126774
19	SIGLEC10	ENSG00000142512	ENST00000524527	retained_intron	KNOWN	None	15620	None	None	51920177	51920885	-1	None	SIGLEC-10, SLG2, PRO940, MGC126774
19	SIGLEC10	ENSG00000142512	ENST00000432469	protein_coding	KNOWN	None	15620	1560	519	51913276	51921057	-1	None	SIGLEC-10, SLG2, PRO940, MGC126774
19	SIGLEC10	ENSG00000142512	ENST00000356298	protein_coding	KNOWN	CCDS12832	15620	2094	697	51913276	51920952	-1	None	SIGLEC-10, SLG2, PRO940, MGC126774
4	TMED11P	ENSG00000215367	ENST00000502630	processed_transcript	KNOWN	None	35401	None	None	1108985	1116952	-1	None	None
4	TMED11P	ENSG00000215367	ENST00000479478	unitary_pseudogene	KNOWN	None	35401	None	None	1109051	1147514	-1	None	None
4	TMED11P	ENSG00000215367	ENST00000491822	processed_transcript	KNOWN	None	35401	None	None	1110052	1116962	-1	None	None
3	DVL3	ENSG00000161202	ENST00000313143	protein_coding	KNOWN	CCDS3253	3087	2151	716	183873176	183891398	1	None	KIAA0208
3	DVL3	ENSG00000161202	ENST00000435708	nonsense_mediated_decay	KNOWN	None	3087	234	77	183873346	183882305	1	None	KIAA0208
3	DVL3	ENSG00000161202	ENST00000431765	protein_coding	NOVEL	None	3087	2100	699	183873348	183888661	1	None	KIAA0208
3	DVL3	ENSG00000161202	ENST00000462665	processed_transcript	KNOWN	None	3087	None	None	183873350	183882700	1	None	KIAA0208
3	DVL3	ENSG00000161202	ENST00000423300	protein_coding	PUTATIVE	None	3087	661	219	183874563	183884297	1	None	KIAA0208
3	DVL3	ENSG00000161202	ENST00000478247	retained_intron	KNOWN	None	3087	None	None	183881465	183888664	1	None	KIAA0208
3	DVL3	ENSG00000161202	ENST00000467873	retained_intron	KNOWN	None	3087	None	None	183882435	183883266	1	None	KIAA0208
3	DVL3	ENSG00000161202	ENST00000478639	retained_intron	KNOWN	None	3087	None	None	183883982	183884489	1	None	KIAA0208
HSCHR6_MHC_MCF	HLA-DQB3	ENSG00000234510	ENST00000434380	unprocessed_pseudogene	KNOWN	None	4946	None	None	32732325	32733261	-1	HLA-DVB	D6S205, D6S205E, DVB, DQB3
5	PCDHA7	ENSG00000204963	ENST00000525929	protein_coding	KNOWN	CCDS54918	8673	2814	937	140213969	140391929	1	CNRS4	CNR4, CRNR4
5	PCDHA7	ENSG00000204963	ENST00000378125	protein_coding	KNOWN	None	8673	2370	789	140213969	140216338	1	CNRS4	CNR4, CRNR4
HSCHR6_MHC_MANN	C6orf10	ENSG00000206245	ENST00000448986	protein_coding	KNOWN	None	13922	1689	562	32299914	32379126	-1	None	TSBP
HSCHR6_MHC_MANN	C6orf10	ENSG00000206245	ENST00000383130	protein_coding	KNOWN	None	13922	1692	563	32299914	32379098	-1	None	TSBP
HSCHR6_MHC_MANN	C6orf10	ENSG00000206245	ENST00000548975	protein_coding	KNOWN	None	13922	1704	567	32300172	32379118	-1	None	TSBP
HSCHR6_MHC_MANN	C6orf10	ENSG00000206245	ENST00000548927	protein_coding	KNOWN	None	13922	1683	560	32300197	32391764	-1	None	TSBP
HSCHR6_MHC_MANN	C6orf10	ENSG00000206245	ENST00000547550	protein_coding	KNOWN	None	13922	1686	561	32299931	32379098	-1	None	TSBP
1	SLC30A7	ENSG00000162695	ENST00000370112	protein_coding	NOVEL	CCDS776	19306	1131	376	101361632	101447309	1	None	ZnTL2, ZNT7
1	SLC30A7	ENSG00000162695	ENST00000357650	protein_coding	NOVEL	CCDS776	19306	1131	376	101361810	101440554	1	None	ZnTL2, ZNT7
1	SLC30A7	ENSG00000162695	ENST00000370111	protein_coding	PUTATIVE	None	19306	262	86	101427384	101438214	1	None	ZnTL2, ZNT7
21	None	ENSG00000268265	ENST00000595468	protein_coding	NOVEL	None	None	36	11	34947431	34947645	-1	None	None
10	None	ENSG00000232807	ENST00000397264	antisense	KNOWN	None	None	None	None	5979079	5987863	-1	None	None
10	None	ENSG00000232807	ENST00000448685	antisense	KNOWN	None	None	None	None	5985453	5987701	-1	None	None
10	None	ENSG00000232807	ENST00000454321	antisense	KNOWN	None	None	None	None	5985467	5987712	-1	None	None
19	LGALS7B	ENSG00000178934	ENST00000314980	protein_coding	KNOWN	CCDS42565	34447	411	136	39279851	39282389	1	None	GAL7
19	LGALS7B	ENSG00000178934	ENST00000600304	retained_intron	KNOWN	None	34447	None	None	39281168	39282388	1	None	GAL7
2	ATG4B	ENSG00000168397	ENST00000405546	protein_coding	KNOWN	CCDS46565	20790	1143	380	242576628	242613269	1	APG4B	Apg4B, KIAA0943, DKFZp586D1822, AUTL1
2	ATG4B	ENSG00000168397	ENST00000402096	protein_coding	KNOWN	None	20790	996	331	242577027	242612043	1	APG4B	Apg4B, KIAA0943, DKFZp586D1822, AUTL1
2	ATG4B	ENSG00000168397	ENST00000404914	protein_coding	KNOWN	CCDS46564	20790	1182	393	242577027	242613272	1	APG4B	Apg4B, KIAA0943, DKFZp586D1822, AUTL1
2	ATG4B	ENSG00000168397	ENST00000491867	processed_transcript	KNOWN	None	20790	None	None	242577035	242592748	1	APG4B	Apg4B, KIAA0943, DKFZp586D1822, AUTL1
2	ATG4B	ENSG00000168397	ENST00000400772	nonsense_mediated_decay	KNOWN	None	20790	267	88	242577041	242594745	1	APG4B	Apg4B, KIAA0943, DKFZp586D1822, AUTL1
2	ATG4B	ENSG00000168397	ENST00000494465	retained_intron	KNOWN	None	20790	None	None	242577050	242612014	1	APG4B	Apg4B, KIAA0943, DKFZp586D1822, AUTL1
2	ATG4B	ENSG00000168397	ENST00000483778	retained_intron	KNOWN	None	20790	None	None	242577077	242599187	1	APG4B	Apg4B, KIAA0943, DKFZp586D1822, AUTL1
2	ATG4B	ENSG00000168397	ENST00000479554	retained_intron	KNOWN	None	20790	None	None	242577108	242594120	1	APG4B	Apg4B, KIAA0943, DKFZp586D1822, AUTL1
2	ATG4B	ENSG00000168397	ENST00000475195	retained_intron	KNOWN	None	20790	None	None	242577108	242594417	1	APG4B	Apg4B, KIAA0943, DKFZp586D1822, AUTL1
2	ATG4B	ENSG00000168397	ENST00000419606	protein_coding	KNOWN	None	20790	199	65	242577108	242594721	1	APG4B	Apg4B, KIAA0943, DKFZp586D1822, AUTL1
2	ATG4B	ENSG00000168397	ENST00000465399	retained_intron	KNOWN	None	20790	None	None	242577108	242594859	1	APG4B	Apg4B, KIAA0943, DKFZp586D1822, AUTL1
2	ATG4B	ENSG00000168397	ENST00000468018	retained_intron	KNOWN	None	20790	None	None	242577112	242598615	1	APG4B	Apg4B, KIAA0943, DKFZp586D1822, AUTL1
2	ATG4B	ENSG00000168397	ENST00000482507	retained_intron	KNOWN	None	20790	None	None	242577113	242612046	1	APG4B	Apg4B, KIAA0943, DKFZp586D1822, AUTL1
2	ATG4B	ENSG00000168397	ENST00000493618	retained_intron	KNOWN	None	20790	None	None	242577121	242599026	1	APG4B	Apg4B, KIAA0943, DKFZp586D1822, AUTL1
2	ATG4B	ENSG00000168397	ENST00000425239	protein_coding	NOVEL	None	20790	799	265	242577122	242598863	1	APG4B	Apg4B, KIAA0943, DKFZp586D1822, AUTL1
2	ATG4B	ENSG00000168397	ENST00000415107	nonsense_mediated_decay	KNOWN	None	20790	267	88	242577125	242592939	1	APG4B	Apg4B, KIAA0943, DKFZp586D1822, AUTL1
2	ATG4B	ENSG00000168397	ENST00000400771	protein_coding	NOVEL	None	20790	658	218	242577125	242607636	1	APG4B	Apg4B, KIAA0943, DKFZp586D1822, AUTL1
2	ATG4B	ENSG00000168397	ENST00000430617	protein_coding	KNOWN	None	20790	316	104	242577144	242598602	1	APG4B	Apg4B, KIAA0943, DKFZp586D1822, AUTL1
2	ATG4B	ENSG00000168397	ENST00000344376	nonsense_mediated_decay	KNOWN	None	20790	230	75	242590422	242612007	1	APG4B	Apg4B, KIAA0943, DKFZp586D1822, AUTL1
2	ATG4B	ENSG00000168397	ENST00000429899	protein_coding	KNOWN	None	20790	441	146	242592882	242606184	1	APG4B	Apg4B, KIAA0943, DKFZp586D1822, AUTL1
2	ATG4B	ENSG00000168397	ENST00000428861	protein_coding	NOVEL	None	20790	580	192	242606011	242610781	1	APG4B	Apg4B, KIAA0943, DKFZp586D1822, AUTL1
2	ATG4B	ENSG00000168397	ENST00000460211	retained_intron	KNOWN	None	20790	None	None	242607227	242610984	1	APG4B	Apg4B, KIAA0943, DKFZp586D1822, AUTL1
2	ATG4B	ENSG00000168397	ENST00000479941	retained_intron	KNOWN	None	20790	None	None	242607584	242608275	1	APG4B	Apg4B, KIAA0943, DKFZp586D1822, AUTL1
2	ATG4B	ENSG00000168397	ENST00000475693	retained_intron	KNOWN	None	20790	None	None	242607674	242613264	1	APG4B	Apg4B, KIAA0943, DKFZp586D1822, AUTL1
2	ATG4B	ENSG00000168397	ENST00000494132	retained_intron	KNOWN	None	20790	None	None	242609976	242611332	1	APG4B	Apg4B, KIAA0943, DKFZp586D1822, AUTL1
2	ATG4B	ENSG00000168397	ENST00000474739	protein_coding	KNOWN	None	20790	1140	379	242577108	242612038	1	APG4B	Apg4B, KIAA0943, DKFZp586D1822, AUTL1
2	ATG4B	ENSG00000168397	ENST00000396411	protein_coding	KNOWN	None	20790	960	319	242577108	242611796	1	APG4B	Apg4B, KIAA0943, DKFZp586D1822, AUTL1
11	ABTB2	ENSG00000166016	ENST00000435224	protein_coding	KNOWN	CCDS7890	23842	3078	1025	34172535	34379555	-1	None	DKFZP586C1619, BTBD22, ABTB2A
11	ABTB2	ENSG00000166016	ENST00000530814	processed_transcript	KNOWN	None	23842	None	None	34194721	34264092	-1	None	DKFZP586C1619, BTBD22, ABTB2A
11	ABTB2	ENSG00000166016	ENST00000298992	protein_coding	KNOWN	None	23842	2520	839	34172535	34378802	-1	None	DKFZP586C1619, BTBD22, ABTB2A
6	None	ENSG00000219302	ENST00000406097	processed_pseudogene	KNOWN	None	None	None	None	130140782	130141315	-1	None	None
4	None	ENSG00000212458	ENST00000391156	snoRNA	NOVEL	None	None	None	None	1112672	1112801	1	None	None
7	None	ENSG00000174495	ENST00000482002	processed_pseudogene	KNOWN	None	None	None	None	28318830	28319319	-1	None	None
7	None	ENSG00000174495	ENST00000445031	processed_pseudogene	KNOWN	None	None	None	None	28318842	28319318	-1	None	None
20	BMP2	ENSG00000125845	ENST00000378827	protein_coding	KNOWN	CCDS13099	1069	1191	396	6748311	6760927	1	BMP2A	None
4	None	ENSG00000248632	ENST00000508856	processed_pseudogene	KNOWN	None	None	None	None	165889739	165891154	-1	None	None
6	None	ENSG00000227678	ENST00000415964	antisense	KNOWN	None	None	None	None	130454555	130463972	-1	None	None
6	None	ENSG00000227678	ENST00000591297	antisense	KNOWN	None	None	None	None	130454657	130459341	-1	None	None
4	MIR302D	ENSG00000199145	ENST00000362275	miRNA	KNOWN	None	31765	None	None	113569160	113569227	-1	MIRN302D	hsa-mir-302d
3	STXBP5L	ENSG00000145087	ENST00000273666	protein_coding	KNOWN	CCDS43137	30757	3561	1186	120626919	121143608	1	None	KIAA1006, LLGL4
3	STXBP5L	ENSG00000145087	ENST00000471454	protein_coding	NOVEL	None	30757	3489	1162	120627052	121138130	1	None	KIAA1006, LLGL4
3	STXBP5L	ENSG00000145087	ENST00000461772	nonsense_mediated_decay	KNOWN	None	30757	225	74	120627083	120877815	1	None	KIAA1006, LLGL4
3	STXBP5L	ENSG00000145087	ENST00000472879	protein_coding	PUTATIVE	None	30757	3009	1002	120627136	121126515	1	None	KIAA1006, LLGL4
3	STXBP5L	ENSG00000145087	ENST00000497029	protein_coding	PUTATIVE	None	30757	3003	1000	120627161	121126515	1	None	KIAA1006, LLGL4
3	STXBP5L	ENSG00000145087	ENST00000492541	protein_coding	PUTATIVE	None	30757	3081	1026	120627161	121126515	1	None	KIAA1006, LLGL4
3	STXBP5L	ENSG00000145087	ENST00000495504	protein_coding	KNOWN	None	30757	381	126	120627949	120764293	1	None	KIAA1006, LLGL4
3	STXBP5L	ENSG00000145087	ENST00000471262	protein_coding	NOVEL	None	30757	3388	1128	120628418	121137942	1	None	KIAA1006, LLGL4
4	None	ENSG00000248229	ENST00000510050	processed_pseudogene	KNOWN	None	None	None	None	165908417	165908939	1	None	None
4	MIR302A	ENSG00000207927	ENST00000385192	miRNA	KNOWN	None	31623	None	None	113569339	113569407	-1	MIRN302, MIRN302A	hsa-mir-302, hsa-mir-302a
4	MIR302C	ENSG00000199102	ENST00000362232	miRNA	KNOWN	None	31764	None	None	113569519	113569586	-1	MIRN302C	hsa-mir-302c
10	DUX4L12	ENSG00000259139	ENST00000556057	unprocessed_pseudogene	KNOWN	None	38671	None	None	135487297	135488539	1	None	None
4	OSTCP4	ENSG00000220924	ENST00000424397	processed_pseudogene	KNOWN	None	42866	None	None	113606211	113606659	1	None	None
11	WDR74	ENSG00000133316	ENST00000536401	protein_coding	KNOWN	None	25529	116	37	62599814	62600539	-1	None	FLJ10439
11	WDR74	ENSG00000133316	ENST00000311713	protein_coding	KNOWN	None	25529	1101	366	62600383	62607053	-1	None	FLJ10439
11	WDR74	ENSG00000133316	ENST00000529106	protein_coding	KNOWN	CCDS44630	25529	1158	385	62600384	62607628	-1	None	FLJ10439
11	WDR74	ENSG00000133316	ENST00000525239	protein_coding	KNOWN	CCDS44630	25529	1158	385	62600384	62609281	-1	None	FLJ10439
11	WDR74	ENSG00000133316	ENST00000525752	protein_coding	PUTATIVE	None	25529	987	328	62600424	62607852	-1	None	FLJ10439
11	WDR74	ENSG00000133316	ENST00000544831	retained_intron	KNOWN	None	25529	None	None	62600430	62602279	-1	None	FLJ10439
11	WDR74	ENSG00000133316	ENST00000543688	retained_intron	KNOWN	None	25529	None	None	62601090	62602059	-1	None	FLJ10439
11	WDR74	ENSG00000133316	ENST00000542347	nonsense_mediated_decay	KNOWN	None	25529	126	41	62601287	62607054	-1	None	FLJ10439
11	WDR74	ENSG00000133316	ENST00000541930	retained_intron	KNOWN	None	25529	None	None	62601859	62607068	-1	None	FLJ10439
11	WDR74	ENSG00000133316	ENST00000540620	processed_transcript	KNOWN	None	25529	None	None	62602369	62607049	-1	None	FLJ10439
11	WDR74	ENSG00000133316	ENST00000538150	retained_intron	KNOWN	None	25529	None	None	62602712	62603479	-1	None	FLJ10439
11	WDR74	ENSG00000133316	ENST00000545112	retained_intron	KNOWN	None	25529	None	None	62602961	62607030	-1	None	FLJ10439
11	WDR74	ENSG00000133316	ENST00000453708	retained_intron	KNOWN	None	25529	None	None	62603077	62607053	-1	None	FLJ10439
11	WDR74	ENSG00000133316	ENST00000544953	retained_intron	KNOWN	None	25529	None	None	62603234	62604148	-1	None	FLJ10439
11	WDR74	ENSG00000133316	ENST00000538277	retained_intron	KNOWN	None	25529	None	None	62603251	62607056	-1	None	FLJ10439
11	WDR74	ENSG00000133316	ENST00000538098	protein_coding	KNOWN	None	25529	171	56	62606794	62609281	-1	None	FLJ10439
11	WDR74	ENSG00000133316	ENST00000278856	protein_coding	KNOWN	CCDS44630	25529	1158	385	62600384	62607133	-1	None	FLJ10439
11	WT1	ENSG00000184937	ENST00000379079	protein_coding	KNOWN	CCDS55751	12796	909	302	32409321	32452359	-1	GUD	WAGR, WIT-2, AWT1
11	WT1	ENSG00000184937	ENST00000379077	nonsense_mediated_decay	KNOWN	None	12796	954	317	32409321	32456933	-1	GUD	WAGR, WIT-2, AWT1
11	WT1	ENSG00000184937	ENST00000332351	protein_coding	KNOWN	CCDS7878	12796	1554	517	32409321	32457176	-1	GUD	WAGR, WIT-2, AWT1
11	WT1	ENSG00000184937	ENST00000530998	protein_coding	NOVEL	CCDS55750	12796	867	288	32409324	32452359	-1	GUD	WAGR, WIT-2, AWT1
11	WT1	ENSG00000184937	ENST00000452863	protein_coding	KNOWN	CCDS44561	12796	1494	497	32409330	32456891	-1	GUD	WAGR, WIT-2, AWT1
11	WT1	ENSG00000184937	ENST00000448076	protein_coding	KNOWN	CCDS44562	12796	1545	514	32410225	32457081	-1	GUD	WAGR, WIT-2, AWT1
11	WT1	ENSG00000184937	ENST00000527882	protein_coding	NOVEL	None	12796	535	177	32410588	32439143	-1	GUD	WAGR, WIT-2, AWT1
11	WT1	ENSG00000184937	ENST00000526685	protein_coding	PUTATIVE	None	12796	76	24	32417803	32422161	-1	GUD	WAGR, WIT-2, AWT1
11	WT1	ENSG00000184937	ENST00000527775	protein_coding	PUTATIVE	None	12796	393	130	32417912	32450575	-1	GUD	WAGR, WIT-2, AWT1
16	HS3ST4	ENSG00000182601	ENST00000331351	protein_coding	KNOWN	CCDS53995	5200	1371	456	25703347	26149009	1	None	3OST4
16	HS3ST4	ENSG00000182601	ENST00000475436	processed_transcript	PUTATIVE	None	5200	None	None	25898067	26147528	1	None	3OST4
4	None	ENSG00000250046	ENST00000505632	lincRNA	KNOWN	None	None	None	None	113614203	113627966	-1	None	None
X	None	ENSG00000231235	ENST00000373465	processed_pseudogene	KNOWN	None	None	None	None	46277885	46279514	-1	None	None
5	PCDHA8	ENSG00000204962	ENST00000531613	protein_coding	KNOWN	CCDS54919	8674	2853	950	140220907	140391929	1	None	None
5	PCDHA8	ENSG00000204962	ENST00000378123	protein_coding	KNOWN	None	8674	2445	814	140220907	140223351	1	None	None
X	GAPDHP65	ENSG00000235587	ENST00000425487	processed_pseudogene	KNOWN	None	4143	None	None	46299144	46300149	-1	GAPDL10, GAPDHL10	None
X	CT47A8	ENSG00000230347	ENST00000457977	protein_coding	KNOWN	CCDS35384	33289	867	288	120082282	120085594	-1	None	CT47.8
6	OOEP	ENSG00000203907	ENST00000370363	protein_coding	PUTATIVE	None	21382	285	94	74078278	74104816	-1	C6orf156	Em:AC019205.2, KHDC2
6	OOEP	ENSG00000203907	ENST00000370359	protein_coding	KNOWN	CCDS47451	21382	450	149	74078479	74079515	-1	C6orf156	Em:AC019205.2, KHDC2
6	OOEP	ENSG00000203907	ENST00000441145	protein_coding	PUTATIVE	None	21382	201	66	74078933	74104856	-1	C6orf156	Em:AC019205.2, KHDC2
X	None	ENSG00000224072	ENST00000424779	processed_pseudogene	KNOWN	None	None	None	None	46313532	46316634	-1	None	None
3	CHCHD4	ENSG00000163528	ENST00000295767	protein_coding	KNOWN	CCDS2617	26467	468	155	14153580	14166370	-1	None	FLJ31709, TIMM40, MIA40
3	CHCHD4	ENSG00000163528	ENST00000396914	protein_coding	KNOWN	CCDS43054	26467	429	142	14153593	14166358	-1	None	FLJ31709, TIMM40, MIA40
3	CHCHD4	ENSG00000163528	ENST00000420103	nonsense_mediated_decay	KNOWN	None	26467	102	33	14154644	14166249	-1	None	FLJ31709, TIMM40, MIA40
1	FBXO2	ENSG00000116661	ENST00000354287	protein_coding	KNOWN	CCDS130	13581	891	296	11708424	11714739	-1	OCP1	FBX2, Nfb42, Fbs1, Fbg1
1	FBXO2	ENSG00000116661	ENST00000471501	retained_intron	KNOWN	None	13581	None	None	11709585	11710770	-1	OCP1	FBX2, Nfb42, Fbs1, Fbg1
1	FBXO2	ENSG00000116661	ENST00000466919	retained_intron	KNOWN	None	13581	None	None	11709931	11714254	-1	OCP1	FBX2, Nfb42, Fbs1, Fbg1
1	FBXO2	ENSG00000116661	ENST00000465901	protein_coding	PUTATIVE	None	13581	361	119	11710604	11715842	-1	OCP1	FBX2, Nfb42, Fbs1, Fbg1
1	FBXO2	ENSG00000116661	ENST00000475961	processed_transcript	KNOWN	None	13581	None	None	11710794	11713586	-1	OCP1	FBX2, Nfb42, Fbs1, Fbg1
7	ASB15	ENSG00000146809	ENST00000451558	protein_coding	KNOWN	CCDS34742	19767	1767	588	123207064	123277951	1	None	FLJ43370
7	ASB15	ENSG00000146809	ENST00000434204	protein_coding	KNOWN	CCDS34742	19767	1767	588	123241908	123277921	1	None	FLJ43370
7	ASB15	ENSG00000146809	ENST00000437535	protein_coding	KNOWN	None	19767	292	96	123241913	123256549	1	None	FLJ43370
7	ASB15	ENSG00000146809	ENST00000451215	protein_coding	KNOWN	CCDS34742	19767	1767	588	123241921	123277932	1	None	FLJ43370
7	ASB15	ENSG00000146809	ENST00000447789	protein_coding	KNOWN	None	19767	723	240	123249112	123267189	1	None	FLJ43370
7	ASB15	ENSG00000146809	ENST00000540573	protein_coding	KNOWN	CCDS34742	19767	1767	588	123248646	123277932	1	None	FLJ43370
7	ASB15	ENSG00000146809	ENST00000275699	protein_coding	KNOWN	CCDS34742	19767	1767	588	123249112	123277932	1	None	FLJ43370
4	None	ENSG00000227189	ENST00000417557	antisense	KNOWN	None	None	None	None	1145160	1147489	1	None	None
6	HLA-DOB	ENSG00000241106	ENST00000488325	nonsense_mediated_decay	KNOWN	None	4937	117	38	32780540	32784753	-1	None	None
6	HLA-DOB	ENSG00000241106	ENST00000438763	protein_coding	KNOWN	CCDS4754	4937	822	273	32780540	32784825	-1	None	None
6	HLA-DOB	ENSG00000241106	ENST00000475235	retained_intron	KNOWN	None	4937	None	None	32780824	32784765	-1	None	None
6	HLA-DOB	ENSG00000241106	ENST00000447394	protein_coding	KNOWN	None	4937	543	180	32782147	32784687	-1	None	None
20	HAO1	ENSG00000101323	ENST00000378789	protein_coding	KNOWN	CCDS13100	4809	1113	370	7863628	7921121	-1	GOX1	GOX
5	None	ENSG00000249153	ENST00000504046	lincRNA	KNOWN	None	None	None	None	85144320	85145017	1	None	None
5	PTP4A1P4	ENSG00000250359	ENST00000512479	processed_pseudogene	KNOWN	None	41931	None	None	85383344	85383665	1	None	None
3	FAM198A	ENSG00000144649	ENST00000273146	nonsense_mediated_decay	KNOWN	CCDS46808	24485	1728	575	43020759	43101703	1	C3orf41	DKFZP434B172
3	FAM198A	ENSG00000144649	ENST00000488863	protein_coding	PUTATIVE	None	24485	421	139	43020773	43097858	1	C3orf41	DKFZP434B172
3	FAM198A	ENSG00000144649	ENST00000434206	retained_intron	KNOWN	None	24485	None	None	43020805	43095613	1	C3orf41	DKFZP434B172
3	FAM198A	ENSG00000144649	ENST00000492161	retained_intron	KNOWN	None	24485	None	None	43020819	43095766	1	C3orf41	DKFZP434B172
3	FAM198A	ENSG00000144649	ENST00000430121	protein_coding	KNOWN	CCDS46808	24485	1728	575	43021040	43099176	1	C3orf41	DKFZP434B172
4	CTBP1-AS2	ENSG00000196810	ENST00000507044	antisense	KNOWN	None	28307	None	None	1243088	1244234	1	C4orf42, CTBP1-AS1	MGC21675
4	CTBP1-AS2	ENSG00000196810	ENST00000578730	antisense	KNOWN	None	28307	None	None	1243239	1282079	1	C4orf42, CTBP1-AS1	MGC21675
4	CTBP1-AS2	ENSG00000196810	ENST00000514984	antisense	KNOWN	None	28307	None	None	1243898	1244975	1	C4orf42, CTBP1-AS1	MGC21675
4	CTBP1-AS2	ENSG00000196810	ENST00000581398	antisense	KNOWN	None	28307	None	None	1244047	1249698	1	C4orf42, CTBP1-AS1	MGC21675
4	CTBP1-AS2	ENSG00000196810	ENST00000505364	antisense	KNOWN	None	28307	None	None	1246779	1259951	1	C4orf42, CTBP1-AS1	MGC21675
4	CTBP1-AS2	ENSG00000196810	ENST00000357591	antisense	KNOWN	None	28307	None	None	1244314	1245224	1	C4orf42, CTBP1-AS1	MGC21675
5	NBPF22P	ENSG00000205449	ENST00000590707	processed_transcript	KNOWN	None	28731	None	None	85578278	85592281	1	None	MGC48637
5	NBPF22P	ENSG00000205449	ENST00000508988	transcribed_unprocessed_pseudogene	KNOWN	None	28731	None	None	85578584	85592127	1	None	MGC48637
10	DUX4L13	ENSG00000258617	ENST00000554103	unprocessed_pseudogene	KNOWN	None	38672	None	None	135490600	135491839	1	None	None
10	DUX4L13	ENSG00000258617	ENST00000420742	unprocessed_pseudogene	KNOWN	None	38672	None	None	135490272	135495193	1	None	None
18	APCDD1	ENSG00000154856	ENST00000355285	protein_coding	KNOWN	CCDS11849	15718	1545	514	10454625	10488698	1	None	B7323
18	APCDD1	ENSG00000154856	ENST00000423585	nonsense_mediated_decay	KNOWN	None	15718	186	61	10454833	10487893	1	None	B7323
18	APCDD1	ENSG00000154856	ENST00000582723	nonsense_mediated_decay	KNOWN	None	15718	69	22	10454881	10485500	1	None	B7323
18	APCDD1	ENSG00000154856	ENST00000578882	protein_coding	NOVEL	None	15718	555	184	10454979	10487660	1	None	B7323
18	APCDD1	ENSG00000154856	ENST00000584596	processed_transcript	KNOWN	None	15718	None	None	10471833	10476560	1	None	B7323
18	APCDD1	ENSG00000154856	ENST00000579685	nonsense_mediated_decay	KNOWN	None	15718	285	94	10472004	10487811	1	None	B7323
Y	TRIM60P8Y	ENSG00000232764	ENST00000436338	processed_pseudogene	KNOWN	None	38458	None	None	25171741	25172810	1	TRIM60PY8	TRIM60P8
22	None	ENSG00000269103	ENST00000547793	protein_coding	NOVEL	None	None	192	63	21358030	21360736	-1	None	None
HSCHR6_MHC_MCF	None	ENSG00000258002	ENST00000548618	protein_coding	NOVEL	None	None	120	39	31216884	31232984	1	None	None
16	ZFHX3	ENSG00000140836	ENST00000268489	protein_coding	KNOWN	CCDS10908	777	11112	3703	72816784	73082274	-1	ATBF1	ZNF927
16	ZFHX3	ENSG00000140836	ENST00000397992	protein_coding	KNOWN	CCDS54035	777	8370	2789	72816784	73093597	-1	ATBF1	ZNF927
16	ZFHX3	ENSG00000140836	ENST00000563625	retained_intron	KNOWN	None	777	None	None	72863408	72923733	-1	ATBF1	ZNF927
16	ZFHX3	ENSG00000140836	ENST00000558842	processed_transcript	KNOWN	None	777	None	None	73092780	73093121	-1	ATBF1	ZNF927
6	RPL7P4	ENSG00000230449	ENST00000430239	processed_pseudogene	KNOWN	None	21634	None	None	30664583	30665312	-1	None	Em:AB023049.2
15	TRIM69	ENSG00000185880	ENST00000559390	protein_coding	KNOWN	CCDS32220	17857	1503	500	45021186	45060025	1	RNF36	Trif, TRIMLESS
15	TRIM69	ENSG00000185880	ENST00000560141	processed_transcript	KNOWN	None	17857	None	None	45021199	45026170	1	RNF36	Trif, TRIMLESS
15	TRIM69	ENSG00000185880	ENST00000560554	processed_transcript	PUTATIVE	None	17857	None	None	45021253	45028811	1	RNF36	Trif, TRIMLESS
15	TRIM69	ENSG00000185880	ENST00000559315	processed_transcript	PUTATIVE	None	17857	None	None	45021271	45028760	1	RNF36	Trif, TRIMLESS
15	TRIM69	ENSG00000185880	ENST00000561237	processed_transcript	PUTATIVE	None	17857	None	None	45021340	45023913	1	RNF36	Trif, TRIMLESS
15	TRIM69	ENSG00000185880	ENST00000560442	protein_coding	KNOWN	None	17857	891	296	45028728	45060023	1	RNF36	Trif, TRIMLESS
15	TRIM69	ENSG00000185880	ENST00000558329	protein_coding	KNOWN	None	17857	840	279	45028728	45060023	1	RNF36	Trif, TRIMLESS
15	TRIM69	ENSG00000185880	ENST00000561043	protein_coding	NOVEL	None	17857	792	263	45028733	45060025	1	RNF36	Trif, TRIMLESS
15	TRIM69	ENSG00000185880	ENST00000338264	protein_coding	KNOWN	CCDS10114	17857	1026	341	45028764	45060027	1	RNF36	Trif, TRIMLESS
15	TRIM69	ENSG00000185880	ENST00000558173	protein_coding	KNOWN	None	17857	891	296	45045116	45060025	1	RNF36	Trif, TRIMLESS
15	TRIM69	ENSG00000185880	ENST00000561170	protein_coding	NOVEL	None	17857	391	129	45050972	45059641	1	RNF36	Trif, TRIMLESS
15	TRIM69	ENSG00000185880	ENST00000329464	protein_coding	KNOWN	CCDS32220	17857	1503	500	45028560	45060025	1	RNF36	Trif, TRIMLESS
4	TXK	ENSG00000074966	ENST00000264316	protein_coding	KNOWN	CCDS3480	12434	1584	527	48068410	48136273	-1	PTK4	TKL, PSCTK5, BTKL, RLK
4	TXK	ENSG00000074966	ENST00000514937	nonsense_mediated_decay	KNOWN	None	12434	249	82	48068694	48082083	-1	PTK4	TKL, PSCTK5, BTKL, RLK
4	TXK	ENSG00000074966	ENST00000507351	protein_coding	PUTATIVE	None	12434	549	182	48069178	48082194	-1	PTK4	TKL, PSCTK5, BTKL, RLK
4	TXK	ENSG00000074966	ENST00000509681	nonsense_mediated_decay	KNOWN	None	12434	147	48	48069405	48082195	-1	PTK4	TKL, PSCTK5, BTKL, RLK
4	TXK	ENSG00000074966	ENST00000510457	processed_transcript	KNOWN	None	12434	None	None	48091402	48136246	-1	PTK4	TKL, PSCTK5, BTKL, RLK
4	TXK	ENSG00000074966	ENST00000506073	protein_coding	PUTATIVE	None	12434	415	137	48112586	48116562	-1	PTK4	TKL, PSCTK5, BTKL, RLK
10	MEIG1	ENSG00000197889	ENST00000477770	processed_transcript	KNOWN	None	23429	None	None	15001438	15014850	1	None	bA2K17.3, SPATA39
10	MEIG1	ENSG00000197889	ENST00000496225	processed_transcript	KNOWN	None	23429	None	None	15001509	15014680	1	None	bA2K17.3, SPATA39
10	MEIG1	ENSG00000197889	ENST00000378240	protein_coding	KNOWN	CCDS31151	23429	267	88	15008438	15014850	1	None	bA2K17.3, SPATA39
10	MEIG1	ENSG00000197889	ENST00000467536	processed_transcript	KNOWN	None	23429	None	None	15014554	15030049	1	None	bA2K17.3, SPATA39
10	MEIG1	ENSG00000197889	ENST00000407572	protein_coding	KNOWN	CCDS31151	23429	267	88	15001438	15014850	1	None	bA2K17.3, SPATA39
20	SLC2A4RG	ENSG00000125520	ENST00000467211	processed_transcript	KNOWN	None	15930	None	None	62369623	62371751	1	None	GEF, HDBP1, Si-1-2, Si-1-2-19
20	SLC2A4RG	ENSG00000125520	ENST00000476221	processed_transcript	KNOWN	None	15930	None	None	62369763	62371751	1	None	GEF, HDBP1, Si-1-2, Si-1-2-19
20	SLC2A4RG	ENSG00000125520	ENST00000266077	protein_coding	KNOWN	CCDS13537	15930	1164	387	62371214	62374858	1	None	GEF, HDBP1, Si-1-2, Si-1-2-19
20	SLC2A4RG	ENSG00000125520	ENST00000474248	processed_transcript	KNOWN	None	15930	None	None	62371596	62373519	1	None	GEF, HDBP1, Si-1-2, Si-1-2-19
20	SLC2A4RG	ENSG00000125520	ENST00000485897	processed_transcript	KNOWN	None	15930	None	None	62371733	62373843	1	None	GEF, HDBP1, Si-1-2, Si-1-2-19
20	SLC2A4RG	ENSG00000125520	ENST00000493772	processed_transcript	KNOWN	None	15930	None	None	62372605	62374858	1	None	GEF, HDBP1, Si-1-2, Si-1-2-19
20	SLC2A4RG	ENSG00000125520	ENST00000491109	processed_transcript	KNOWN	None	15930	None	None	62372757	62373887	1	None	GEF, HDBP1, Si-1-2, Si-1-2-19
20	SLC2A4RG	ENSG00000125520	ENST00000473157	processed_transcript	KNOWN	None	15930	None	None	62373268	62374858	1	None	GEF, HDBP1, Si-1-2, Si-1-2-19
20	SLC2A4RG	ENSG00000125520	ENST00000482718	processed_transcript	KNOWN	None	15930	None	None	62373275	62373888	1	None	GEF, HDBP1, Si-1-2, Si-1-2-19
20	SLC2A4RG	ENSG00000125520	ENST00000496425	processed_transcript	KNOWN	None	15930	None	None	62373881	62374470	1	None	GEF, HDBP1, Si-1-2, Si-1-2-19
17	KRT26	ENSG00000186393	ENST00000335552	protein_coding	KNOWN	CCDS11374	30840	1407	468	38922490	38928414	-1	KRT25B	None
Y	ZNF736P3Y	ENSG00000233126	ENST00000428264	processed_pseudogene	KNOWN	None	37728	None	None	25195394	25197342	1	ZNF381P, ZNF736P3	None
4	None	ENSG00000250887	ENST00000503778	lincRNA	KNOWN	None	None	None	None	165928238	165929111	-1	None	None
Y	TRIM60P9Y	ENSG00000227251	ENST00000438459	processed_pseudogene	KNOWN	None	38459	None	None	25204177	25205333	1	TRIM60PY9	TRIM60P9
10	FAF2P1	ENSG00000228759	ENST00000429974	processed_pseudogene	KNOWN	None	45172	None	None	93525656	93526953	-1	None	None
4	None	ENSG00000250712	ENST00000512437	processed_pseudogene	KNOWN	None	None	None	None	165931611	165933003	1	None	None
19	ZNF45	ENSG00000124459	ENST00000269973	protein_coding	KNOWN	CCDS12632	13111	2049	682	44416781	44439411	-1	ZNF13	None
19	ZNF45	ENSG00000124459	ENST00000589703	protein_coding	KNOWN	CCDS12632	13111	2049	682	44417281	44426439	-1	ZNF13	None
19	ZNF45	ENSG00000124459	ENST00000588140	protein_coding	PUTATIVE	None	13111	387	128	44419093	44423891	-1	ZNF13	None
19	ZNF45	ENSG00000124459	ENST00000588432	processed_transcript	KNOWN	None	13111	None	None	44434109	44439430	-1	ZNF13	None
19	ZNF45	ENSG00000124459	ENST00000590655	processed_transcript	KNOWN	None	13111	None	None	44436555	44438694	-1	ZNF13	None
Y	PPP1R12BP2	ENSG00000205936	ENST00000416956	unprocessed_pseudogene	KNOWN	None	23970	None	None	25525631	25538844	1	None	None
21	DONSON	ENSG00000159147	ENST00000303113	protein_coding	NOVEL	None	2993	1659	552	34947783	34960976	-1	C21orf60	B17, C2TA, DKFZP434M035
21	DONSON	ENSG00000159147	ENST00000453626	protein_coding	PUTATIVE	None	2993	1527	508	34949842	34960952	-1	C21orf60	B17, C2TA, DKFZP434M035
21	DONSON	ENSG00000159147	ENST00000457359	nonsense_mediated_decay	KNOWN	None	2993	633	210	34949867	34960952	-1	C21orf60	B17, C2TA, DKFZP434M035
21	DONSON	ENSG00000159147	ENST00000303071	protein_coding	KNOWN	CCDS13632	2993	1701	566	34950211	34961014	-1	C21orf60	B17, C2TA, DKFZP434M035
21	DONSON	ENSG00000159147	ENST00000417871	nonsense_mediated_decay	KNOWN	None	2993	411	136	34950223	34960976	-1	C21orf60	B17, C2TA, DKFZP434M035
21	DONSON	ENSG00000159147	ENST00000460557	retained_intron	KNOWN	None	2993	None	None	34950230	34951920	-1	C21orf60	B17, C2TA, DKFZP434M035
21	DONSON	ENSG00000159147	ENST00000444517	nonsense_mediated_decay	KNOWN	None	2993	477	158	34950248	34959908	-1	C21orf60	B17, C2TA, DKFZP434M035
21	DONSON	ENSG00000159147	ENST00000442660	nonsense_mediated_decay	KNOWN	None	2993	471	156	34950248	34959908	-1	C21orf60	B17, C2TA, DKFZP434M035
21	DONSON	ENSG00000159147	ENST00000437395	protein_coding	NOVEL	None	2993	1613	536	34950507	34960940	-1	C21orf60	B17, C2TA, DKFZP434M035
21	DONSON	ENSG00000159147	ENST00000432378	protein_coding	NOVEL	None	2993	1488	495	34950548	34961012	-1	C21orf60	B17, C2TA, DKFZP434M035
21	DONSON	ENSG00000159147	ENST00000440810	protein_coding	NOVEL	None	2993	703	233	34951830	34958464	-1	C21orf60	B17, C2TA, DKFZP434M035
21	DONSON	ENSG00000159147	ENST00000462566	retained_intron	KNOWN	None	2993	None	None	34953481	34954360	-1	C21orf60	B17, C2TA, DKFZP434M035
10	TNKS2-AS1	ENSG00000228701	ENST00000432938	antisense	KNOWN	None	45173	None	None	93542596	93558048	-1	None	None
10	TNKS2-AS1	ENSG00000228701	ENST00000432246	antisense	KNOWN	None	45173	None	None	93542693	93557953	-1	None	None
10	None	ENSG00000251922	ENST00000516113	snoRNA	NOVEL	None	None	None	None	6059017	6059157	-1	None	None
4	None	ENSG00000240674	ENST00000494303	processed_pseudogene	KNOWN	None	None	None	None	165933518	165933997	-1	None	None
22	NAGA	ENSG00000198951	ENST00000396398	protein_coding	KNOWN	CCDS14030	7631	1236	411	42454358	42466834	-1	None	D22S674
22	NAGA	ENSG00000198951	ENST00000403363	protein_coding	KNOWN	CCDS14030	7631	1236	411	42455800	42466834	-1	None	D22S674
22	NAGA	ENSG00000198951	ENST00000402937	protein_coding	KNOWN	CCDS14030	7631	1236	411	42455806	42466846	-1	None	D22S674
6	None	ENSG00000224349	ENST00000448363	antisense	KNOWN	None	None	None	None	71122531	71123653	-1	None	None
4	None	ENSG00000250430	ENST00000507651	processed_pseudogene	KNOWN	None	None	None	None	165947413	165948096	-1	None	None
4	None	ENSG00000249617	ENST00000508621	processed_pseudogene	KNOWN	None	None	None	None	165967121	165967432	1	None	None
6	RNU7-48P	ENSG00000238386	ENST00000458875	snRNA	KNOWN	None	34144	None	None	71222997	71223059	1	None	U7.48
7	HOXA1	ENSG00000105991	ENST00000343060	protein_coding	KNOWN	CCDS5401	5099	1008	335	27132612	27135593	-1	HOX1F, HOX1	None
7	HOXA1	ENSG00000105991	ENST00000355633	protein_coding	KNOWN	CCDS5402	5099	414	137	27132932	27135615	-1	HOX1F, HOX1	None
4	WRBP1	ENSG00000248633	ENST00000423352	transcribed_processed_pseudogene	KNOWN	None	44010	None	None	113614615	113614948	-1	None	None
6	MDC1-AS1	ENSG00000224328	ENST00000442150	antisense	KNOWN	None	39764	None	None	30670844	30680961	1	None	None
5	PCDHA9	ENSG00000204961	ENST00000532602	protein_coding	KNOWN	CCDS54920	8675	2853	950	140227048	140391929	1	None	KIAA0345, PCDH-ALPHA9
5	PCDHA9	ENSG00000204961	ENST00000378122	protein_coding	KNOWN	None	8675	2529	842	140227357	140233744	1	None	KIAA0345, PCDH-ALPHA9
4	None	ENSG00000250374	ENST00000503032	processed_pseudogene	KNOWN	None	None	None	None	165980300	165981706	1	None	None
4	None	ENSG00000241002	ENST00000479865	processed_pseudogene	KNOWN	None	None	None	None	113659828	113660262	1	None	None
6	None	ENSG00000272540	ENST00000607476	antisense	KNOWN	None	None	None	None	30690882	30691654	-1	None	None
6	None	ENSG00000271967	ENST00000606298	lincRNA	KNOWN	None	None	None	None	71306141	71306683	1	None	None
4	None	ENSG00000202536	ENST00000365666	misc_RNA	NOVEL	None	None	None	None	113676973	113677073	-1	None	None
6	None	ENSG00000201988	ENST00000365118	misc_RNA	NOVEL	None	None	None	None	30704081	30704191	-1	None	None
4	RPL7AP30	ENSG00000241741	ENST00000482859	processed_pseudogene	KNOWN	None	35757	None	None	113709239	113710034	-1	None	None
6	None	ENSG00000232389	ENST00000454078	processed_pseudogene	KNOWN	None	None	None	None	71317937	71319037	-1	None	None
4	RNU4-87P	ENSG00000200974	ENST00000364104	snRNA	KNOWN	None	47023	None	None	166173732	166173813	1	None	None
6	None	ENSG00000272273	ENST00000607333	antisense	KNOWN	None	None	None	None	30710706	30711369	1	None	None
11	HRAS	ENSG00000174775	ENST00000478324	processed_transcript	KNOWN	None	5173	None	None	532242	533612	-1	HRAS1	None
11	HRAS	ENSG00000174775	ENST00000397594	protein_coding	KNOWN	CCDS7699	5173	513	170	532242	534375	-1	HRAS1	None
11	HRAS	ENSG00000174775	ENST00000397596	protein_coding	KNOWN	CCDS7698	5173	570	189	532242	535339	-1	HRAS1	None
11	HRAS	ENSG00000174775	ENST00000493230	nonsense_mediated_decay	KNOWN	CCDS7699	5173	513	170	532242	535538	-1	HRAS1	None
11	HRAS	ENSG00000174775	ENST00000462734	processed_transcript	KNOWN	None	5173	None	None	532246	533595	-1	HRAS1	None
11	HRAS	ENSG00000174775	ENST00000311189	protein_coding	KNOWN	CCDS7698	5173	570	189	532376	535534	-1	HRAS1	None
11	HRAS	ENSG00000174775	ENST00000479482	processed_transcript	PUTATIVE	None	5173	None	None	532642	533976	-1	HRAS1	None
11	HRAS	ENSG00000174775	ENST00000468682	processed_transcript	KNOWN	None	5173	None	None	533795	537287	-1	HRAS1	None
11	HRAS	ENSG00000174775	ENST00000482021	processed_transcript	PUTATIVE	None	5173	None	None	534279	534587	-1	HRAS1	None
11	HRAS	ENSG00000174775	ENST00000451590	protein_coding	KNOWN	CCDS7698	5173	570	189	532243	535550	-1	HRAS1	None
11	HRAS	ENSG00000174775	ENST00000417302	protein_coding	KNOWN	CCDS7699	5173	513	170	532243	535550	-1	HRAS1	None
10	None	ENSG00000229664	ENST00000440436	antisense	KNOWN	None	None	None	None	6067941	6078390	1	None	None
4	None	ENSG00000250500	ENST00000503353	processed_pseudogene	KNOWN	None	None	None	None	113718206	113719847	-1	None	None
4	GK3P	ENSG00000229894	ENST00000505354	processed_pseudogene	KNOWN	None	4292	None	None	166199136	166200797	-1	GKP3	GKTB
4	GK3P	ENSG00000229894	ENST00000413616	processed_pseudogene	KNOWN	None	4292	None	None	166198944	166201175	-1	GKP3	GKTB
6	SLC29A1	ENSG00000112759	ENST00000427851	protein_coding	KNOWN	CCDS4908	11003	1371	456	44187393	44201878	1	ENT1	None
6	SLC29A1	ENSG00000112759	ENST00000371755	protein_coding	KNOWN	CCDS4908	11003	1371	456	44191302	44201878	1	ENT1	None
6	SLC29A1	ENSG00000112759	ENST00000371740	protein_coding	KNOWN	CCDS4908	11003	1371	456	44191302	44201878	1	ENT1	None
6	SLC29A1	ENSG00000112759	ENST00000371731	protein_coding	KNOWN	CCDS4908	11003	1371	456	44191351	44201878	1	ENT1	None
6	SLC29A1	ENSG00000112759	ENST00000371724	protein_coding	KNOWN	CCDS4908	11003	1371	456	44191560	44201878	1	ENT1	None
6	SLC29A1	ENSG00000112759	ENST00000371713	protein_coding	KNOWN	CCDS4908	11003	1371	456	44191560	44201878	1	ENT1	None
6	SLC29A1	ENSG00000112759	ENST00000371708	protein_coding	KNOWN	CCDS4908	11003	1371	456	44194876	44201878	1	ENT1	None
6	SLC29A1	ENSG00000112759	ENST00000472176	processed_transcript	KNOWN	None	11003	None	None	44197326	44200142	1	ENT1	None
6	SLC29A1	ENSG00000112759	ENST00000313248	protein_coding	KNOWN	None	11003	1608	535	44187373	44201879	1	ENT1	None
6	SLC29A1	ENSG00000112759	ENST00000393844	protein_coding	KNOWN	CCDS4908	11003	1371	456	44187242	44201888	1	ENT1	None
6	SLC29A1	ENSG00000112759	ENST00000393841	protein_coding	KNOWN	CCDS4908	11003	1371	456	44191363	44201888	1	ENT1	None
6	RN7SL353P	ENSG00000263608	ENST00000579902	misc_RNA	KNOWN	None	46369	None	None	30718815	30719062	1	None	None
10	None	ENSG00000214015	ENST00000397237	processed_pseudogene	KNOWN	None	None	None	None	6113477	6113881	-1	None	None
19	None	ENSG00000268742	ENST00000594355	processed_pseudogene	KNOWN	None	None	None	None	6552369	6554505	-1	None	None
6	SLC25A6P6	ENSG00000218870	ENST00000404247	processed_pseudogene	KNOWN	None	43855	None	None	71373205	71373982	-1	None	None
6	HCG20	ENSG00000228022	ENST00000439406	lincRNA	KNOWN	None	31334	None	None	30734602	30760027	1	None	AB023051.1, NCRNA00149
6	HCG20	ENSG00000228022	ENST00000422944	lincRNA	KNOWN	None	31334	None	None	30749735	30760027	1	None	AB023051.1, NCRNA00149
7	AHCYL2	ENSG00000158467	ENST00000325006	protein_coding	KNOWN	CCDS5812	22204	1836	611	128864864	129070052	1	None	KIAA0828
7	AHCYL2	ENSG00000158467	ENST00000446544	protein_coding	KNOWN	CCDS47706	22204	1833	610	128864891	129070052	1	None	KIAA0828
7	AHCYL2	ENSG00000158467	ENST00000461161	processed_transcript	KNOWN	None	22204	None	None	128991344	129037110	1	None	KIAA0828
7	AHCYL2	ENSG00000158467	ENST00000460109	protein_coding	KNOWN	None	22204	227	74	129007964	129028954	1	None	KIAA0828
7	AHCYL2	ENSG00000158467	ENST00000474594	protein_coding	KNOWN	CCDS47708	22204	1527	508	129007982	129067052	1	None	KIAA0828
7	AHCYL2	ENSG00000158467	ENST00000490911	protein_coding	PUTATIVE	CCDS47707	22204	1527	508	129015484	129067016	1	None	KIAA0828
7	AHCYL2	ENSG00000158467	ENST00000466993	protein_coding	PUTATIVE	None	22204	548	181	129015678	129040161	1	None	KIAA0828
7	AHCYL2	ENSG00000158467	ENST00000466924	protein_coding	PUTATIVE	None	22204	1556	517	129017379	129067053	1	None	KIAA0828
7	AHCYL2	ENSG00000158467	ENST00000472554	processed_transcript	KNOWN	None	22204	None	None	129027934	129037160	1	None	KIAA0828
7	AHCYL2	ENSG00000158467	ENST00000491079	retained_intron	KNOWN	None	22204	None	None	129028648	129040202	1	None	KIAA0828
7	AHCYL2	ENSG00000158467	ENST00000492628	retained_intron	KNOWN	None	22204	None	None	129040141	129045349	1	None	KIAA0828
7	AHCYL2	ENSG00000158467	ENST00000477028	retained_intron	KNOWN	None	22204	None	None	129064568	129067061	1	None	KIAA0828
7	AHCYL2	ENSG00000158467	ENST00000531335	protein_coding	KNOWN	None	22204	1593	530	128923225	129070051	1	None	KIAA0828
7	AHCYL2	ENSG00000158467	ENST00000446212	protein_coding	KNOWN	None	22204	1530	509	129007982	129070051	1	None	KIAA0828
16	None	ENSG00000270020	ENST00000602739	lincRNA	KNOWN	None	None	None	None	86553989	86557503	-1	None	None
9	None	ENSG00000229312	ENST00000429567	antisense	KNOWN	None	None	None	None	72087382	72109429	1	None	None
4	None	ENSG00000234841	ENST00000504528	processed_pseudogene	KNOWN	None	None	None	None	113747463	113748763	1	None	None
4	None	ENSG00000234841	ENST00000413930	processed_pseudogene	KNOWN	None	None	None	None	113748299	113748760	1	None	None
4	MIR578	ENSG00000207559	ENST00000384828	miRNA	KNOWN	None	32834	None	None	166307394	166307489	1	MIRN578	hsa-mir-578
9	None	ENSG00000261447	ENST00000567129	lincRNA	KNOWN	None	None	None	None	72287665	72288629	1	None	None
4	HADHAP1	ENSG00000251596	ENST00000514498	processed_pseudogene	KNOWN	None	4802	None	None	166325219	166327502	-1	HADHAP	None
12	None	ENSG00000257230	ENST00000548613	protein_coding	PUTATIVE	None	None	261	86	59917059	59917965	-1	None	None
4	None	ENSG00000251126	ENST00000511590	antisense	KNOWN	None	None	None	None	113801454	113803486	-1	None	None
19	None	ENSG00000269546	ENST00000601934	processed_pseudogene	KNOWN	None	None	None	None	6562134	6563859	-1	None	None
6	None	ENSG00000262803	ENST00000572103	processed_pseudogene	KNOWN	None	None	None	None	71403542	71404322	1	None	None
10	KCNIP2	ENSG00000120049	ENST00000348850	protein_coding	KNOWN	CCDS7525	15522	678	225	103585731	103599629	-1	None	KCHIP2
10	KCNIP2	ENSG00000120049	ENST00000355657	processed_transcript	KNOWN	None	15522	None	None	103585731	103603677	-1	None	KCHIP2
10	KCNIP2	ENSG00000120049	ENST00000356640	protein_coding	KNOWN	CCDS7522	15522	813	270	103586210	103603601	-1	None	KCHIP2
10	KCNIP2	ENSG00000120049	ENST00000460388	processed_transcript	KNOWN	None	15522	None	None	103586730	103587712	-1	None	KCHIP2
10	KCNIP2	ENSG00000120049	ENST00000370046	protein_coding	KNOWN	None	15522	555	184	103586943	103603526	-1	None	KCHIP2
10	KCNIP2	ENSG00000120049	ENST00000472764	processed_transcript	KNOWN	None	15522	None	None	103587053	103603325	-1	None	KCHIP2
10	KCNIP2	ENSG00000120049	ENST00000434163	protein_coding	PUTATIVE	None	15522	534	177	103587110	103590195	-1	None	KCHIP2
10	KCNIP2	ENSG00000120049	ENST00000353068	protein_coding	KNOWN	CCDS7523	15522	684	227	103587110	103603325	-1	None	KCHIP2
10	KCNIP2	ENSG00000120049	ENST00000461105	protein_coding	KNOWN	CCDS7521	15522	858	285	103587110	103603325	-1	None	KCHIP2
10	KCNIP2	ENSG00000120049	ENST00000343195	protein_coding	KNOWN	CCDS7524	15522	663	220	103587110	103603325	-1	None	KCHIP2
10	KCNIP2	ENSG00000120049	ENST00000239117	protein_coding	KNOWN	CCDS7526	15522	555	184	103587398	103603325	-1	None	KCHIP2
10	KCNIP2	ENSG00000120049	ENST00000483385	processed_transcript	KNOWN	None	15522	None	None	103588024	103589304	-1	None	KCHIP2
10	KCNIP2	ENSG00000120049	ENST00000358038	protein_coding	KNOWN	CCDS41562	15522	759	252	103585732	103603677	-1	None	KCHIP2
1	DPH5	ENSG00000117543	ENST00000370105	processed_transcript	KNOWN	None	24270	None	None	101455179	101491318	-1	None	CGI-30
1	DPH5	ENSG00000117543	ENST00000492067	processed_transcript	KNOWN	None	24270	None	None	101455619	101487276	-1	None	CGI-30
1	DPH5	ENSG00000117543	ENST00000370109	protein_coding	KNOWN	CCDS41358	24270	858	285	101455619	101491328	-1	None	CGI-30
1	DPH5	ENSG00000117543	ENST00000488789	processed_transcript	KNOWN	None	24270	None	None	101455619	101491644	-1	None	CGI-30
1	DPH5	ENSG00000117543	ENST00000481871	processed_transcript	KNOWN	None	24270	None	None	101455651	101490907	-1	None	CGI-30
1	DPH5	ENSG00000117543	ENST00000464270	processed_transcript	KNOWN	None	24270	None	None	101455779	101491371	-1	None	CGI-30
1	DPH5	ENSG00000117543	ENST00000342173	protein_coding	PUTATIVE	CCDS41359	24270	855	284	101455780	101491319	-1	None	CGI-30
1	DPH5	ENSG00000117543	ENST00000466807	processed_transcript	KNOWN	None	24270	None	None	101455871	101491327	-1	None	CGI-30
1	DPH5	ENSG00000117543	ENST00000477293	processed_transcript	KNOWN	None	24270	None	None	101455889	101491317	-1	None	CGI-30
1	DPH5	ENSG00000117543	ENST00000498372	processed_transcript	KNOWN	None	24270	None	None	101455890	101491311	-1	None	CGI-30
1	DPH5	ENSG00000117543	ENST00000488176	protein_coding	PUTATIVE	CCDS41358	24270	858	285	101455914	101491323	-1	None	CGI-30
1	DPH5	ENSG00000117543	ENST00000490732	processed_transcript	KNOWN	None	24270	None	None	101455949	101491371	-1	None	CGI-30
1	DPH5	ENSG00000117543	ENST00000476507	processed_transcript	KNOWN	None	24270	None	None	101479205	101491309	-1	None	CGI-30
1	DPH5	ENSG00000117543	ENST00000481982	processed_transcript	KNOWN	None	24270	None	None	101490526	101491343	-1	None	CGI-30
1	DPH5	ENSG00000117543	ENST00000427040	protein_coding	KNOWN	None	24270	141	46	101455620	101460706	-1	None	CGI-30
4	None	ENSG00000228814	ENST00000511960	transcribed_processed_pseudogene	KNOWN	None	None	None	None	113802874	113803288	-1	None	None
19	None	ENSG00000269035	ENST00000594663	protein_coding	NOVEL	None	None	678	225	17547420	17571613	-1	None	None
16	None	ENSG00000243697	ENST00000473913	processed_pseudogene	KNOWN	None	None	None	None	86559063	86559858	1	None	None
19	None	ENSG00000199223	ENST00000362353	misc_RNA	NOVEL	None	None	None	None	6572967	6573068	-1	None	None
4	None	ENSG00000248152	ENST00000508959	antisense	KNOWN	None	None	None	None	113900746	113993118	-1	None	None
19	RPL7P50	ENSG00000268785	ENST00000600588	processed_pseudogene	KNOWN	None	35816	None	None	6593340	6594066	1	None	None
1	PIGC	ENSG00000135845	ENST00000489002	processed_transcript	KNOWN	None	8960	None	None	172339329	172384466	-1	None	None
1	PIGC	ENSG00000135845	ENST00000465374	processed_transcript	KNOWN	None	8960	None	None	172345271	172350046	-1	None	None
1	PIGC	ENSG00000135845	ENST00000475059	processed_transcript	KNOWN	None	8960	None	None	172350061	172384516	-1	None	None
1	PIGC	ENSG00000135845	ENST00000484368	processed_transcript	KNOWN	None	8960	None	None	172362274	172413223	-1	None	None
1	PIGC	ENSG00000135845	ENST00000488806	processed_transcript	KNOWN	None	8960	None	None	172362654	172413188	-1	None	None
1	PIGC	ENSG00000135845	ENST00000344529	protein_coding	KNOWN	CCDS1302	8960	894	297	172410597	172413200	-1	None	None
1	PIGC	ENSG00000135845	ENST00000367728	protein_coding	KNOWN	CCDS1302	8960	894	297	172410597	172413226	-1	None	None
1	PIGC	ENSG00000135845	ENST00000478184	processed_transcript	KNOWN	None	8960	None	None	172411471	172413086	-1	None	None
1	PIGC	ENSG00000135845	ENST00000258324	protein_coding	KNOWN	CCDS1302	8960	894	297	172410598	172413230	-1	None	None
4	None	ENSG00000249373	ENST00000513645	antisense	KNOWN	None	None	None	None	113952443	113955707	-1	None	None
10	SRP9P1	ENSG00000180581	ENST00000445874	processed_pseudogene	KNOWN	None	23402	None	None	93566936	93567196	-1	SRP9L1	None
10	SRP9P1	ENSG00000180581	ENST00000318333	processed_pseudogene	KNOWN	None	23402	None	None	93565803	93567253	-1	SRP9L1	None
19	None	ENSG00000269680	ENST00000594056	antisense	KNOWN	None	None	None	None	6748304	6751478	-1	None	None
9	C9orf135-AS1	ENSG00000225626	ENST00000439418	lincRNA	KNOWN	None	48713	None	None	72433899	72435655	-1	None	None
9	C9orf135-AS1	ENSG00000225626	ENST00000453410	lincRNA	KNOWN	None	48713	None	None	72434321	72435583	-1	None	None
9	C9orf135-AS1	ENSG00000225626	ENST00000526458	lincRNA	KNOWN	None	48713	None	None	72434743	72435599	-1	None	None
HSCHR6_MHC_MCF	HLA-C	ENSG00000225691	ENST00000475452	retained_intron	KNOWN	None	4933	None	None	31313666	31314582	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_MCF	HLA-C	ENSG00000225691	ENST00000490960	retained_intron	KNOWN	None	4933	None	None	31313666	31315334	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_MCF	HLA-C	ENSG00000225691	ENST00000481588	retained_intron	KNOWN	None	4933	None	None	31313666	31316957	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_MCF	HLA-C	ENSG00000225691	ENST00000419135	protein_coding	KNOWN	None	4933	1119	372	31313666	31316993	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_MCF	HLA-C	ENSG00000225691	ENST00000433153	protein_coding	KNOWN	None	4933	1068	355	31313666	31316993	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_MCF	HLA-C	ENSG00000225691	ENST00000429840	protein_coding	KNOWN	None	4933	1107	368	31313666	31317000	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_MCF	HLA-C	ENSG00000225691	ENST00000491984	nonsense_mediated_decay	KNOWN	None	4933	396	131	31313666	31317012	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_MCF	HLA-C	ENSG00000225691	ENST00000457903	protein_coding	KNOWN	None	4933	1101	366	31313666	31317037	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_MCF	HLA-C	ENSG00000225691	ENST00000479546	processed_transcript	KNOWN	None	4933	None	None	31315122	31316980	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_MCF	HLA-C	ENSG00000225691	ENST00000445075	protein_coding	KNOWN	None	4933	782	259	31315126	31316976	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_MCF	HLA-C	ENSG00000225691	ENST00000467922	retained_intron	KNOWN	None	4933	None	None	31315133	31317037	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_MCF	HLA-C	ENSG00000225691	ENST00000482006	retained_intron	KNOWN	None	4933	None	None	31316011	31316997	-1	HLA-JY3, D6S204	None
19	None	ENSG00000265353	ENST00000580648	miRNA	NOVEL	None	None	None	None	6895733	6895814	1	None	None
4	None	ENSG00000196656	ENST00000485827	transcribed_processed_pseudogene	KNOWN	None	None	None	None	114135202	114135549	-1	None	None
4	None	ENSG00000196656	ENST00000356247	processed_transcript	PUTATIVE	None	None	None	None	114135416	114138326	-1	None	None
4	None	ENSG00000196656	ENST00000539199	processed_pseudogene	KNOWN	None	None	None	None	114135137	114135578	-1	None	None
11	PPP2R5B	ENSG00000068971	ENST00000413292	processed_transcript	KNOWN	None	9310	None	None	64685025	64691932	1	None	FLJ35411, B56B, PR61B
11	PPP2R5B	ENSG00000068971	ENST00000526559	protein_coding	KNOWN	None	9310	581	192	64685071	64695620	1	None	FLJ35411, B56B, PR61B
11	PPP2R5B	ENSG00000068971	ENST00000164133	protein_coding	KNOWN	CCDS8085	9310	1494	497	64692143	64701945	1	None	FLJ35411, B56B, PR61B
11	PPP2R5B	ENSG00000068971	ENST00000532850	protein_coding	PUTATIVE	None	9310	333	110	64692193	64695630	1	None	FLJ35411, B56B, PR61B
11	PPP2R5B	ENSG00000068971	ENST00000528530	retained_intron	KNOWN	None	9310	None	None	64695206	64697806	1	None	FLJ35411, B56B, PR61B
3	TMEM44	ENSG00000145014	ENST00000392432	protein_coding	KNOWN	CCDS54699	25120	1428	475	194308402	194354150	-1	None	DKFZp686O18124
3	TMEM44	ENSG00000145014	ENST00000432352	protein_coding	NOVEL	None	25120	594	197	194308407	194337884	-1	None	DKFZp686O18124
3	TMEM44	ENSG00000145014	ENST00000477651	retained_intron	KNOWN	None	25120	None	None	194308410	194338374	-1	None	DKFZp686O18124
3	TMEM44	ENSG00000145014	ENST00000381975	protein_coding	KNOWN	CCDS54698	25120	1191	396	194308410	194354010	-1	None	DKFZp686O18124
3	TMEM44	ENSG00000145014	ENST00000347147	protein_coding	KNOWN	CCDS33921	25120	1287	428	194308410	194354054	-1	None	DKFZp686O18124
3	TMEM44	ENSG00000145014	ENST00000476750	processed_transcript	PUTATIVE	None	25120	None	None	194308602	194310675	-1	None	DKFZp686O18124
3	TMEM44	ENSG00000145014	ENST00000473092	protein_coding	NOVEL	CCDS3308	25120	1317	438	194309177	194354054	-1	None	DKFZp686O18124
3	TMEM44	ENSG00000145014	ENST00000452358	protein_coding	NOVEL	None	25120	786	261	194309198	194346680	-1	None	DKFZp686O18124
3	TMEM44	ENSG00000145014	ENST00000429560	protein_coding	NOVEL	None	25120	360	119	194309258	194336405	-1	None	DKFZp686O18124
3	TMEM44	ENSG00000145014	ENST00000419280	nonsense_mediated_decay	KNOWN	None	25120	453	150	194313770	194354373	-1	None	DKFZp686O18124
3	TMEM44	ENSG00000145014	ENST00000467284	processed_transcript	PUTATIVE	None	25120	None	None	194317598	194331707	-1	None	DKFZp686O18124
3	TMEM44	ENSG00000145014	ENST00000494894	processed_transcript	KNOWN	None	25120	None	None	194331655	194354374	-1	None	DKFZp686O18124
3	TMEM44	ENSG00000145014	ENST00000330115	protein_coding	KNOWN	None	25120	342	113	194343277	194354418	-1	None	DKFZp686O18124
3	TMEM44	ENSG00000145014	ENST00000430601	nonsense_mediated_decay	KNOWN	None	25120	366	121	194343953	194354078	-1	None	DKFZp686O18124
3	TMEM44	ENSG00000145014	ENST00000273580	protein_coding	KNOWN	None	25120	1320	439	194308403	194354150	-1	None	DKFZp686O18124
14	AKT1	ENSG00000142208	ENST00000554581	protein_coding	KNOWN	CCDS9994	391	1443	480	105235686	105260461	-1	None	RAC, PKB, PRKBA, AKT
14	AKT1	ENSG00000142208	ENST00000407796	protein_coding	KNOWN	CCDS9994	391	1443	480	105235686	105262016	-1	None	RAC, PKB, PRKBA, AKT
14	AKT1	ENSG00000142208	ENST00000349310	protein_coding	KNOWN	CCDS9994	391	1443	480	105235686	105262088	-1	None	RAC, PKB, PRKBA, AKT
14	AKT1	ENSG00000142208	ENST00000553506	retained_intron	KNOWN	None	391	None	None	105235689	105241017	-1	None	RAC, PKB, PRKBA, AKT
14	AKT1	ENSG00000142208	ENST00000557552	retained_intron	KNOWN	None	391	None	None	105235689	105244908	-1	None	RAC, PKB, PRKBA, AKT
14	AKT1	ENSG00000142208	ENST00000402615	protein_coding	KNOWN	CCDS9994	391	1443	480	105235689	105260865	-1	None	RAC, PKB, PRKBA, AKT
14	AKT1	ENSG00000142208	ENST00000555528	protein_coding	KNOWN	CCDS9994	391	1443	480	105235708	105260037	-1	None	RAC, PKB, PRKBA, AKT
14	AKT1	ENSG00000142208	ENST00000555458	protein_coding	PUTATIVE	None	391	489	162	105235729	105239651	-1	None	RAC, PKB, PRKBA, AKT
14	AKT1	ENSG00000142208	ENST00000554192	protein_coding	PUTATIVE	None	391	504	167	105236309	105239828	-1	None	RAC, PKB, PRKBA, AKT
14	AKT1	ENSG00000142208	ENST00000544168	protein_coding	PUTATIVE	None	391	1257	418	105236492	105244015	-1	None	RAC, PKB, PRKBA, AKT
14	AKT1	ENSG00000142208	ENST00000554585	processed_transcript	KNOWN	None	391	None	None	105236530	105239716	-1	None	RAC, PKB, PRKBA, AKT
14	AKT1	ENSG00000142208	ENST00000554848	protein_coding	KNOWN	CCDS9994	391	1443	480	105236678	105260528	-1	None	RAC, PKB, PRKBA, AKT
14	AKT1	ENSG00000142208	ENST00000554826	retained_intron	KNOWN	None	391	None	None	105240128	105243031	-1	None	RAC, PKB, PRKBA, AKT
14	AKT1	ENSG00000142208	ENST00000556836	retained_intron	KNOWN	None	391	None	None	105241034	105241697	-1	None	RAC, PKB, PRKBA, AKT
14	AKT1	ENSG00000142208	ENST00000555380	protein_coding	PUTATIVE	None	391	317	104	105241477	105252704	-1	None	RAC, PKB, PRKBA, AKT
14	AKT1	ENSG00000142208	ENST00000555926	protein_coding	KNOWN	None	391	275	90	105243008	105261841	-1	None	RAC, PKB, PRKBA, AKT
14	AKT1	ENSG00000142208	ENST00000557494	processed_transcript	PUTATIVE	None	391	None	None	105259494	105262080	-1	None	RAC, PKB, PRKBA, AKT
14	AKT1	ENSG00000142208	ENST00000553797	processed_transcript	KNOWN	None	391	None	None	105259850	105261381	-1	None	RAC, PKB, PRKBA, AKT
19	None	ENSG00000269385	ENST00000595362	unprocessed_pseudogene	KNOWN	None	None	None	None	6898310	6898697	1	None	None
6	None	ENSG00000231720	ENST00000454185	lincRNA	KNOWN	None	None	None	None	167650996	167653968	-1	None	None
22	P2RX6	ENSG00000099957	ENST00000591411	processed_transcript	KNOWN	None	8538	None	None	21364097	21372231	1	P2RXL1	P2XM, MGC129625, P2X6
22	P2RX6	ENSG00000099957	ENST00000413302	protein_coding	KNOWN	CCDS13788	8538	1326	441	21369316	21383119	1	P2RXL1	P2XM, MGC129625, P2X6
22	P2RX6	ENSG00000099957	ENST00000442475	nonsense_mediated_decay	KNOWN	None	8538	243	80	21369442	21382297	1	P2RXL1	P2XM, MGC129625, P2X6
22	P2RX6	ENSG00000099957	ENST00000401443	protein_coding	KNOWN	CCDS54504	8538	1248	415	21369459	21381487	1	P2RXL1	P2XM, MGC129625, P2X6
22	P2RX6	ENSG00000099957	ENST00000469722	retained_intron	KNOWN	None	8538	None	None	21369464	21373080	1	P2RXL1	P2XM, MGC129625, P2X6
22	P2RX6	ENSG00000099957	ENST00000452228	nonsense_mediated_decay	KNOWN	None	8538	361	119	21369472	21377441	1	P2RXL1	P2XM, MGC129625, P2X6
22	P2RX6	ENSG00000099957	ENST00000432930	nonsense_mediated_decay	KNOWN	None	8538	393	130	21369476	21382297	1	P2RXL1	P2XM, MGC129625, P2X6
22	P2RX6	ENSG00000099957	ENST00000422210	nonsense_mediated_decay	KNOWN	None	8538	306	101	21369479	21382302	1	P2RXL1	P2XM, MGC129625, P2X6
22	P2RX6	ENSG00000099957	ENST00000487342	retained_intron	KNOWN	None	8538	None	None	21377638	21380886	1	P2RXL1	P2XM, MGC129625, P2X6
22	P2RX6	ENSG00000099957	ENST00000336296	protein_coding	KNOWN	None	8538	1296	431	21369449	21383119	1	P2RXL1	P2XM, MGC129625, P2X6
22	P2RX6	ENSG00000099957	ENST00000402329	protein_coding	KNOWN	None	8538	213	70	21369442	21382296	1	P2RXL1	P2XM, MGC129625, P2X6
22	P2RX6	ENSG00000099957	ENST00000443995	protein_coding	KNOWN	None	8538	1167	388	21369476	21382296	1	P2RXL1	P2XM, MGC129625, P2X6
18	NAPG	ENSG00000134265	ENST00000580483	nonsense_mediated_decay	KNOWN	None	7642	57	18	10525902	10550798	1	None	None
18	NAPG	ENSG00000134265	ENST00000580224	nonsense_mediated_decay	KNOWN	None	7642	69	22	10526026	10550517	1	None	None
18	NAPG	ENSG00000134265	ENST00000322897	protein_coding	KNOWN	CCDS45827	7642	939	312	10526031	10552757	1	None	None
18	NAPG	ENSG00000134265	ENST00000582978	retained_intron	KNOWN	None	7642	None	None	10526099	10540776	1	None	None
18	NAPG	ENSG00000134265	ENST00000580746	retained_intron	KNOWN	None	7642	None	None	10526102	10533328	1	None	None
18	NAPG	ENSG00000134265	ENST00000582472	protein_coding	PUTATIVE	None	7642	504	167	10526409	10539869	1	None	None
18	NAPG	ENSG00000134265	ENST00000583367	retained_intron	KNOWN	None	7642	None	None	10539121	10552758	1	None	None
18	NAPG	ENSG00000134265	ENST00000542979	protein_coding	KNOWN	None	7642	693	230	10526026	10550517	1	None	None
6	None	ENSG00000228648	ENST00000439207	lincRNA	KNOWN	None	None	None	None	167655379	167659404	1	None	None
6	KLHDC3	ENSG00000124702	ENST00000326974	protein_coding	KNOWN	CCDS4880	20704	1149	382	42981951	42989036	1	None	PEAS, hPeas, dJ20C7.3
6	KLHDC3	ENSG00000124702	ENST00000332245	protein_coding	KNOWN	None	20704	972	323	42984723	42989028	1	None	PEAS, hPeas, dJ20C7.3
6	KLHDC3	ENSG00000124702	ENST00000244670	protein_coding	KNOWN	None	20704	747	248	42981987	42989028	1	None	PEAS, hPeas, dJ20C7.3
8	DCAF13	ENSG00000164934	ENST00000297579	protein_coding	KNOWN	CCDS34934	24535	1794	597	104426942	104455681	1	WDSOF1	DKFZP564O0463, Gm83, HSPC064
8	DCAF13	ENSG00000164934	ENST00000521716	protein_coding	PUTATIVE	None	24535	291	96	104427593	104432876	1	WDSOF1	DKFZP564O0463, Gm83, HSPC064
8	DCAF13	ENSG00000164934	ENST00000521971	protein_coding	NOVEL	None	24535	546	181	104427607	104440945	1	WDSOF1	DKFZP564O0463, Gm83, HSPC064
8	DCAF13	ENSG00000164934	ENST00000521999	processed_transcript	KNOWN	None	24535	None	None	104427613	104452504	1	WDSOF1	DKFZP564O0463, Gm83, HSPC064
8	DCAF13	ENSG00000164934	ENST00000519682	protein_coding	PUTATIVE	None	24535	654	217	104427640	104439658	1	WDSOF1	DKFZP564O0463, Gm83, HSPC064
8	DCAF13	ENSG00000164934	ENST00000518554	retained_intron	KNOWN	None	24535	None	None	104427640	104455678	1	WDSOF1	DKFZP564O0463, Gm83, HSPC064
6	None	ENSG00000217447	ENST00000402817	processed_pseudogene	KNOWN	None	None	None	None	167760960	167761541	1	None	None
5	PCDHA10	ENSG00000250120	ENST00000506939	protein_coding	KNOWN	CCDS34255	8664	2058	685	140235595	140391213	1	CNRS8	CNR8, CRNR8, CNRN8, PCDH-ALPHA10
5	PCDHA10	ENSG00000250120	ENST00000307360	protein_coding	KNOWN	CCDS54921	8664	2847	948	140235634	140391929	1	CNRS8	CNR8, CRNR8, CNRN8, PCDH-ALPHA10
5	SLC26A2	ENSG00000155850	ENST00000286298	protein_coding	KNOWN	CCDS4300	10994	2220	739	149340300	149366968	1	DTD	DTDST
5	SLC26A2	ENSG00000155850	ENST00000433184	protein_coding	KNOWN	None	10994	70	22	149340348	149357285	1	DTD	DTDST
5	SLC26A2	ENSG00000155850	ENST00000503336	protein_coding	PUTATIVE	None	10994	375	124	149357543	149373018	1	DTD	DTDST
12	SYCP3	ENSG00000139351	ENST00000478238	retained_intron	KNOWN	None	18130	None	None	102122426	102125444	-1	None	None
12	SYCP3	ENSG00000139351	ENST00000266743	protein_coding	KNOWN	CCDS9087	18130	711	236	102122426	102133204	-1	None	None
12	SYCP3	ENSG00000139351	ENST00000478139	retained_intron	KNOWN	None	18130	None	None	102122426	102133250	-1	None	None
12	SYCP3	ENSG00000139351	ENST00000392927	protein_coding	KNOWN	CCDS9087	18130	711	236	102122428	102133247	-1	None	None
12	SYCP3	ENSG00000139351	ENST00000392924	protein_coding	KNOWN	CCDS9087	18130	711	236	102122651	102133191	-1	None	None
19	NXNL1	ENSG00000171773	ENST00000301944	protein_coding	KNOWN	CCDS12360	25179	639	212	17566234	17571763	-1	TXNL6	RDCVF
21	CHODL	ENSG00000154645	ENST00000400128	protein_coding	KNOWN	CCDS56209	17807	699	232	19273580	19639690	1	C21orf68	FLJ12627, PRED12, MT75
21	CHODL	ENSG00000154645	ENST00000400131	protein_coding	KNOWN	CCDS56210	17807	711	236	19289657	19639690	1	C21orf68	FLJ12627, PRED12, MT75
21	CHODL	ENSG00000154645	ENST00000400135	protein_coding	KNOWN	CCDS56210	17807	711	236	19289657	19639690	1	C21orf68	FLJ12627, PRED12, MT75
21	CHODL	ENSG00000154645	ENST00000400127	protein_coding	KNOWN	CCDS56209	17807	699	232	19289657	19639690	1	C21orf68	FLJ12627, PRED12, MT75
21	CHODL	ENSG00000154645	ENST00000299295	protein_coding	KNOWN	CCDS13570	17807	822	273	19617150	19639690	1	C21orf68	FLJ12627, PRED12, MT75
21	CHODL	ENSG00000154645	ENST00000543733	protein_coding	KNOWN	CCDS56208	17807	765	254	19618192	19639154	1	C21orf68	FLJ12627, PRED12, MT75
21	CHODL	ENSG00000154645	ENST00000338326	protein_coding	KNOWN	CCDS56210	17807	711	236	19617150	19639682	1	C21orf68	FLJ12627, PRED12, MT75
18	DYM	ENSG00000141627	ENST00000442713	protein_coding	PUTATIVE	None	21317	1440	479	46570039	46987035	-1	None	FLJ20071, DMC, SMC
18	DYM	ENSG00000141627	ENST00000577734	protein_coding	PUTATIVE	None	21317	203	66	46570174	46623863	-1	None	FLJ20071, DMC, SMC
18	DYM	ENSG00000141627	ENST00000269445	protein_coding	KNOWN	CCDS11937	21317	2010	669	46570190	46987172	-1	None	FLJ20071, DMC, SMC
18	DYM	ENSG00000141627	ENST00000583270	retained_intron	KNOWN	None	21317	None	None	46623555	46642559	-1	None	FLJ20071, DMC, SMC
18	DYM	ENSG00000141627	ENST00000582399	protein_coding	PUTATIVE	None	21317	366	121	46690081	46784778	-1	None	FLJ20071, DMC, SMC
18	DYM	ENSG00000141627	ENST00000584983	protein_coding	PUTATIVE	None	21317	489	162	46808538	46895076	-1	None	FLJ20071, DMC, SMC
18	DYM	ENSG00000141627	ENST00000418472	nonsense_mediated_decay	KNOWN	None	21317	120	39	46812818	46938311	-1	None	FLJ20071, DMC, SMC
18	DYM	ENSG00000141627	ENST00000580615	processed_transcript	KNOWN	None	21317	None	None	46812822	46886242	-1	None	FLJ20071, DMC, SMC
18	DYM	ENSG00000141627	ENST00000583225	protein_coding	PUTATIVE	None	21317	424	140	46812858	46895067	-1	None	FLJ20071, DMC, SMC
18	DYM	ENSG00000141627	ENST00000581738	protein_coding	PUTATIVE	None	21317	426	141	46812859	46895083	-1	None	FLJ20071, DMC, SMC
18	DYM	ENSG00000141627	ENST00000583280	protein_coding	PUTATIVE	None	21317	418	138	46812867	46895077	-1	None	FLJ20071, DMC, SMC
18	DYM	ENSG00000141627	ENST00000578396	protein_coding	PUTATIVE	None	21317	351	116	46847495	46905019	-1	None	FLJ20071, DMC, SMC
18	DYM	ENSG00000141627	ENST00000578596	processed_transcript	KNOWN	None	21317	None	None	46889589	46939502	-1	None	FLJ20071, DMC, SMC
18	DYM	ENSG00000141627	ENST00000579058	nonsense_mediated_decay	KNOWN	None	21317	225	74	46904993	46986997	-1	None	FLJ20071, DMC, SMC
18	DYM	ENSG00000141627	ENST00000583353	protein_coding	KNOWN	None	21317	329	108	46905029	46987717	-1	None	FLJ20071, DMC, SMC
18	DYM	ENSG00000141627	ENST00000577481	processed_transcript	KNOWN	None	21317	None	None	46906116	46987008	-1	None	FLJ20071, DMC, SMC
18	DYM	ENSG00000141627	ENST00000584977	processed_transcript	KNOWN	None	21317	None	None	46917090	46987084	-1	None	FLJ20071, DMC, SMC
18	DYM	ENSG00000141627	ENST00000581409	processed_transcript	KNOWN	None	21317	None	None	46917980	46987013	-1	None	FLJ20071, DMC, SMC
18	DYM	ENSG00000141627	ENST00000582095	processed_transcript	KNOWN	None	21317	None	None	46917990	46987015	-1	None	FLJ20071, DMC, SMC
18	DYM	ENSG00000141627	ENST00000577836	processed_transcript	KNOWN	None	21317	None	None	46944309	46987011	-1	None	FLJ20071, DMC, SMC
16	SMG1	ENSG00000157106	ENST00000446231	protein_coding	KNOWN	CCDS45430	30045	10986	3661	18816175	18937776	-1	None	LIP, KIAA0421, ATX
16	SMG1	ENSG00000157106	ENST00000565324	protein_coding	PUTATIVE	None	30045	10656	3551	18819082	18908196	-1	None	LIP, KIAA0421, ATX
16	SMG1	ENSG00000157106	ENST00000561940	retained_intron	KNOWN	None	30045	None	None	18823333	18827501	-1	None	LIP, KIAA0421, ATX
16	SMG1	ENSG00000157106	ENST00000563448	retained_intron	KNOWN	None	30045	None	None	18849783	18861683	-1	None	LIP, KIAA0421, ATX
16	SMG1	ENSG00000157106	ENST00000562668	retained_intron	KNOWN	None	30045	None	None	18859061	18860692	-1	None	LIP, KIAA0421, ATX
16	SMG1	ENSG00000157106	ENST00000569764	retained_intron	KNOWN	None	30045	None	None	18867660	18872809	-1	None	LIP, KIAA0421, ATX
16	SMG1	ENSG00000157106	ENST00000563235	protein_coding	PUTATIVE	None	30045	2561	852	18869108	18887627	-1	None	LIP, KIAA0421, ATX
16	SMG1	ENSG00000157106	ENST00000566328	processed_transcript	KNOWN	None	30045	None	None	18877469	18878107	-1	None	LIP, KIAA0421, ATX
16	SMG1	ENSG00000157106	ENST00000568038	nonsense_mediated_decay	KNOWN	None	30045	964	320	18878009	18883872	-1	None	LIP, KIAA0421, ATX
16	SMG1	ENSG00000157106	ENST00000561947	protein_coding	NOVEL	None	30045	1654	550	18886424	18908278	-1	None	LIP, KIAA0421, ATX
16	SMG1	ENSG00000157106	ENST00000565224	protein_coding	PUTATIVE	None	30045	1824	607	18886930	18911366	-1	None	LIP, KIAA0421, ATX
16	SMG1	ENSG00000157106	ENST00000568239	retained_intron	KNOWN	None	30045	None	None	18887269	18890983	-1	None	LIP, KIAA0421, ATX
16	SMG1	ENSG00000157106	ENST00000532700	protein_coding	PUTATIVE	None	30045	1006	334	18895427	18937480	-1	None	LIP, KIAA0421, ATX
16	SMG1	ENSG00000157106	ENST00000569122	protein_coding	PUTATIVE	None	30045	186	61	18902211	18937072	-1	None	LIP, KIAA0421, ATX
16	SMG1	ENSG00000157106	ENST00000563836	protein_coding	PUTATIVE	None	30045	170	55	18908123	18923035	-1	None	LIP, KIAA0421, ATX
16	SMG1	ENSG00000157106	ENST00000567737	processed_transcript	KNOWN	None	30045	None	None	18936238	18937361	-1	None	LIP, KIAA0421, ATX
16	SMG1	ENSG00000157106	ENST00000389467	protein_coding	KNOWN	None	30045	10989	3662	18816175	18937726	-1	None	LIP, KIAA0421, ATX
X	LINC00684	ENSG00000204119	ENST00000373527	lincRNA	KNOWN	None	44268	None	None	72158003	72158798	1	DMRTC1-AS1	None
X	LINC00684	ENSG00000204119	ENST00000373524	lincRNA	KNOWN	None	44268	None	None	72158069	72158780	1	DMRTC1-AS1	None
1	MAN1C1	ENSG00000117643	ENST00000374332	protein_coding	KNOWN	CCDS265	19080	1893	630	25943959	26112698	1	None	HMIC
1	MAN1C1	ENSG00000117643	ENST00000263979	protein_coding	KNOWN	None	19080	1353	450	25944341	26110941	1	None	HMIC
1	MAN1C1	ENSG00000117643	ENST00000473891	processed_transcript	KNOWN	None	19080	None	None	26012993	26088175	1	None	HMIC
1	MAN1C1	ENSG00000117643	ENST00000374329	protein_coding	KNOWN	None	19080	1206	401	26036093	26110941	1	None	HMIC
1	MAN1C1	ENSG00000117643	ENST00000496532	processed_transcript	KNOWN	None	19080	None	None	26098560	26109191	1	None	HMIC
1	MAN1C1	ENSG00000117643	ENST00000475314	processed_transcript	KNOWN	None	19080	None	None	26104080	26110467	1	None	HMIC
1	MAN1C1	ENSG00000117643	ENST00000487493	processed_transcript	KNOWN	None	19080	None	None	26107205	26110783	1	None	HMIC
19	None	ENSG00000271366	ENST00000604161	antisense	KNOWN	None	None	None	None	35742343	35744542	-1	None	None
10	None	ENSG00000252993	ENST00000517184	snoRNA	NOVEL	None	None	None	None	93835999	93836122	1	None	None
9	MED27	ENSG00000160563	ENST00000357028	protein_coding	KNOWN	None	2377	714	237	134735494	134955253	-1	CRSP8	TRAP37, CRSP34
9	MED27	ENSG00000160563	ENST00000292035	protein_coding	KNOWN	CCDS6945	2377	936	311	134735494	134955295	-1	CRSP8	TRAP37, CRSP34
9	MED27	ENSG00000160563	ENST00000474263	processed_transcript	KNOWN	None	2377	None	None	134948738	134955253	-1	CRSP8	TRAP37, CRSP34
9	MED27	ENSG00000160563	ENST00000372184	protein_coding	KNOWN	CCDS59153	2377	828	275	134735499	134955255	-1	CRSP8	TRAP37, CRSP34
19	None	ENSG00000268947	ENST00000602262	sense_intronic	KNOWN	None	None	None	None	35753749	35755707	1	None	None
11	GAL	ENSG00000069482	ENST00000538401	processed_transcript	PUTATIVE	None	4114	None	None	68451247	68452106	1	GALN	GMAP, GAL-GMAP, GLNN
11	GAL	ENSG00000069482	ENST00000265643	protein_coding	KNOWN	CCDS8183	4114	372	123	68451943	68458643	1	GALN	GMAP, GAL-GMAP, GLNN
19	LMNB2	ENSG00000176619	ENST00000532465	processed_transcript	KNOWN	None	6638	None	None	2427636	2433897	-1	LMN2	None
19	LMNB2	ENSG00000176619	ENST00000325327	protein_coding	KNOWN	CCDS12090	6638	1863	620	2428164	2456994	-1	LMN2	None
19	LMNB2	ENSG00000176619	ENST00000475819	processed_transcript	KNOWN	None	6638	None	None	2429469	2431827	-1	LMN2	None
19	LMNB2	ENSG00000176619	ENST00000490554	retained_intron	KNOWN	None	6638	None	None	2432506	2434957	-1	LMN2	None
19	LMNB2	ENSG00000176619	ENST00000527409	processed_transcript	KNOWN	None	6638	None	None	2434293	2437156	-1	LMN2	None
19	LMNB2	ENSG00000176619	ENST00000534495	processed_transcript	PUTATIVE	None	6638	None	None	2435001	2437119	-1	LMN2	None
19	LMNB2	ENSG00000176619	ENST00000582871	protein_coding	KNOWN	None	6638	1803	600	2428165	2456958	-1	LMN2	None
7	SLC35B4	ENSG00000205060	ENST00000378509	protein_coding	KNOWN	CCDS34756	20584	996	331	133974084	134001803	-1	None	FLJ14697, YEA4
7	SLC35B4	ENSG00000205060	ENST00000416907	nonsense_mediated_decay	KNOWN	None	20584	399	132	133979304	134001655	-1	None	FLJ14697, YEA4
7	SLC35B4	ENSG00000205060	ENST00000466599	processed_transcript	KNOWN	None	20584	None	None	133979358	133979929	-1	None	FLJ14697, YEA4
7	SLC35B4	ENSG00000205060	ENST00000470969	retained_intron	KNOWN	None	20584	None	None	133984061	134001649	-1	None	FLJ14697, YEA4
HSCHR6_MHC_MANN	HLA-F	ENSG00000237508	ENST00000435058	protein_coding	KNOWN	None	4963	1041	346	29687660	29691411	1	None	None
HSCHR6_MHC_MANN	HLA-F	ENSG00000237508	ENST00000437020	protein_coding	KNOWN	None	4963	393	130	29688164	29689116	1	None	None
HSCHR6_MHC_MANN	HLA-F	ENSG00000237508	ENST00000460067	processed_transcript	KNOWN	None	4963	None	None	29688277	29689300	1	None	None
HSCHR6_MHC_MANN	HLA-F	ENSG00000237508	ENST00000445657	protein_coding	KNOWN	None	4963	1329	442	29688293	29692183	1	None	None
HSCHR6_MHC_MANN	HLA-F	ENSG00000237508	ENST00000474636	processed_transcript	KNOWN	None	4963	None	None	29688312	29691411	1	None	None
HSCHR6_MHC_MANN	HLA-F	ENSG00000237508	ENST00000473159	processed_transcript	KNOWN	None	4963	None	None	29688319	29689972	1	None	None
HSCHR6_MHC_MANN	HLA-F	ENSG00000237508	ENST00000440590	protein_coding	KNOWN	None	4963	765	254	29688349	29691411	1	None	None
HSCHR6_MHC_MANN	HLA-F	ENSG00000237508	ENST00000466921	processed_transcript	KNOWN	None	4963	None	None	29688389	29689237	1	None	None
HSCHR6_MHC_MANN	HLA-F	ENSG00000237508	ENST00000490304	processed_transcript	KNOWN	None	4963	None	None	29688825	29690184	1	None	None
HSCHR6_MHC_MANN	HLA-F	ENSG00000237508	ENST00000426675	protein_coding	KNOWN	None	4963	677	224	29688924	29691411	1	None	None
HSCHR6_MHC_MANN	HLA-F	ENSG00000237508	ENST00000480742	processed_transcript	KNOWN	None	4963	None	None	29689042	29691411	1	None	None
HSCHR6_MHC_MANN	HLA-F	ENSG00000237508	ENST00000468678	processed_transcript	KNOWN	None	4963	None	None	29689939	29703415	1	None	None
HSCHR6_MHC_MANN	HLA-F	ENSG00000237508	ENST00000490259	processed_transcript	KNOWN	None	4963	None	None	29690339	29694238	1	None	None
HSCHR6_MHC_MANN	HLA-F	ENSG00000237508	ENST00000452916	protein_coding	KNOWN	None	4963	374	123	29690419	29692183	1	None	None
HSCHR6_MHC_MANN	HLA-F	ENSG00000237508	ENST00000551347	protein_coding	KNOWN	None	4963	1260	419	29688225	29692182	1	None	None
HSCHR6_MHC_MANN	HLA-F	ENSG00000237508	ENST00000551780	protein_coding	KNOWN	None	4963	1041	346	29688225	29691408	1	None	None
X	SSX7	ENSG00000187754	ENST00000298181	protein_coding	KNOWN	CCDS14343	19653	567	188	52673140	52683950	-1	None	None
1	C1orf105	ENSG00000180999	ENST00000367727	protein_coding	KNOWN	CCDS1301	29591	552	183	172389828	172437969	1	None	None
1	C1orf105	ENSG00000180999	ENST00000460397	protein_coding	PUTATIVE	None	29591	114	37	172389874	172400427	1	None	None
1	C1orf105	ENSG00000180999	ENST00000488100	protein_coding	PUTATIVE	None	29591	378	125	172414279	172434821	1	None	None
1	C1orf105	ENSG00000180999	ENST00000367726	processed_transcript	KNOWN	None	29591	None	None	172420181	172437967	1	None	None
1	C1orf105	ENSG00000180999	ENST00000367725	protein_coding	PUTATIVE	None	29591	522	173	172422033	172437971	1	None	None
12	DCTN2	ENSG00000175203	ENST00000548249	protein_coding	KNOWN	CCDS58245	2712	1206	401	57923885	57941114	-1	None	RBP50, DCTN-50
12	DCTN2	ENSG00000175203	ENST00000434715	protein_coding	KNOWN	CCDS44930	2712	1221	406	57924094	57940924	-1	None	RBP50, DCTN-50
12	DCTN2	ENSG00000175203	ENST00000550201	nonsense_mediated_decay	KNOWN	None	2712	948	315	57924137	57940935	-1	None	RBP50, DCTN-50
12	DCTN2	ENSG00000175203	ENST00000549394	nonsense_mediated_decay	KNOWN	None	2712	138	45	57924400	57940903	-1	None	RBP50, DCTN-50
12	DCTN2	ENSG00000175203	ENST00000546758	protein_coding	NOVEL	None	2712	807	268	57924462	57928853	-1	None	RBP50, DCTN-50
12	DCTN2	ENSG00000175203	ENST00000550988	retained_intron	KNOWN	None	2712	None	None	57926050	57927755	-1	None	RBP50, DCTN-50
12	DCTN2	ENSG00000175203	ENST00000552390	retained_intron	KNOWN	None	2712	None	None	57926373	57928922	-1	None	RBP50, DCTN-50
12	DCTN2	ENSG00000175203	ENST00000550086	protein_coding	NOVEL	None	2712	384	127	57926418	57929628	-1	None	RBP50, DCTN-50
12	DCTN2	ENSG00000175203	ENST00000550954	protein_coding	NOVEL	None	2712	834	277	57926576	57940904	-1	None	RBP50, DCTN-50
12	DCTN2	ENSG00000175203	ENST00000551872	retained_intron	KNOWN	None	2712	None	None	57926578	57928185	-1	None	RBP50, DCTN-50
12	DCTN2	ENSG00000175203	ENST00000548736	retained_intron	KNOWN	None	2712	None	None	57926761	57928313	-1	None	RBP50, DCTN-50
12	DCTN2	ENSG00000175203	ENST00000546670	protein_coding	NOVEL	None	2712	458	151	57926777	57940968	-1	None	RBP50, DCTN-50
12	DCTN2	ENSG00000175203	ENST00000551611	processed_transcript	KNOWN	None	2712	None	None	57927736	57929628	-1	None	RBP50, DCTN-50
12	DCTN2	ENSG00000175203	ENST00000546965	processed_transcript	KNOWN	None	2712	None	None	57927792	57932335	-1	None	RBP50, DCTN-50
12	DCTN2	ENSG00000175203	ENST00000550750	protein_coding	NOVEL	None	2712	406	134	57928124	57941007	-1	None	RBP50, DCTN-50
12	DCTN2	ENSG00000175203	ENST00000548949	processed_transcript	KNOWN	None	2712	None	None	57928129	57929628	-1	None	RBP50, DCTN-50
12	DCTN2	ENSG00000175203	ENST00000551142	retained_intron	KNOWN	None	2712	None	None	57928165	57929329	-1	None	RBP50, DCTN-50
12	DCTN2	ENSG00000175203	ENST00000547345	retained_intron	KNOWN	None	2712	None	None	57928761	57940971	-1	None	RBP50, DCTN-50
12	DCTN2	ENSG00000175203	ENST00000551400	processed_transcript	KNOWN	None	2712	None	None	57928843	57932349	-1	None	RBP50, DCTN-50
12	DCTN2	ENSG00000175203	ENST00000550576	retained_intron	KNOWN	None	2712	None	None	57929267	57929866	-1	None	RBP50, DCTN-50
12	DCTN2	ENSG00000175203	ENST00000547480	retained_intron	KNOWN	None	2712	None	None	57929278	57940989	-1	None	RBP50, DCTN-50
12	DCTN2	ENSG00000175203	ENST00000546559	processed_transcript	KNOWN	None	2712	None	None	57936730	57940976	-1	None	RBP50, DCTN-50
12	DCTN2	ENSG00000175203	ENST00000549712	processed_transcript	KNOWN	None	2712	None	None	57939811	57940957	-1	None	RBP50, DCTN-50
12	DCTN2	ENSG00000175203	ENST00000543672	protein_coding	KNOWN	None	2712	1221	406	57924094	57940992	-1	None	RBP50, DCTN-50
12	DCTN2	ENSG00000175203	ENST00000537439	protein_coding	KNOWN	None	2712	1137	378	57924094	57936758	-1	None	RBP50, DCTN-50
8	TG	ENSG00000042832	ENST00000523901	nonsense_mediated_decay	KNOWN	None	11764	180	59	133879203	133894140	1	None	TGN, AITD3
8	TG	ENSG00000042832	ENST00000220616	protein_coding	KNOWN	CCDS34944	11764	8307	2768	133879206	134147141	1	None	TGN, AITD3
8	TG	ENSG00000042832	ENST00000520769	retained_intron	KNOWN	None	11764	None	None	133894117	133895485	1	None	TGN, AITD3
8	TG	ENSG00000042832	ENST00000523756	nonsense_mediated_decay	KNOWN	None	11764	442	146	133909934	134147141	1	None	TGN, AITD3
8	TG	ENSG00000042832	ENST00000518097	retained_intron	KNOWN	None	11764	None	None	133909979	133911245	1	None	TGN, AITD3
8	TG	ENSG00000042832	ENST00000518505	protein_coding	NOVEL	None	11764	678	225	133909993	133919145	1	None	TGN, AITD3
8	TG	ENSG00000042832	ENST00000519178	protein_coding	NOVEL	None	11764	3673	1223	133931685	134147071	1	None	TGN, AITD3
8	TG	ENSG00000042832	ENST00000518058	protein_coding	NOVEL	None	11764	185	60	133975239	133980142	1	None	TGN, AITD3
8	TG	ENSG00000042832	ENST00000519543	protein_coding	PUTATIVE	None	11764	2706	901	133976852	134147147	1	None	TGN, AITD3
8	TG	ENSG00000042832	ENST00000520197	processed_transcript	KNOWN	None	11764	None	None	133981703	134015501	1	None	TGN, AITD3
8	TG	ENSG00000042832	ENST00000520089	retained_intron	KNOWN	None	11764	None	None	133981731	133995998	1	None	TGN, AITD3
8	TG	ENSG00000042832	ENST00000519294	processed_transcript	KNOWN	None	11764	None	None	133984072	134015501	1	None	TGN, AITD3
8	TG	ENSG00000042832	ENST00000524151	processed_transcript	KNOWN	None	11764	None	None	133984096	134014530	1	None	TGN, AITD3
8	TG	ENSG00000042832	ENST00000522523	processed_transcript	KNOWN	None	11764	None	None	133984506	134030212	1	None	TGN, AITD3
8	TG	ENSG00000042832	ENST00000522797	nonsense_mediated_decay	KNOWN	None	11764	223	73	133984877	134025928	1	None	TGN, AITD3
8	TG	ENSG00000042832	ENST00000518108	protein_coding	PUTATIVE	None	11764	581	192	134029944	134042224	1	None	TGN, AITD3
8	TG	ENSG00000042832	ENST00000522996	retained_intron	KNOWN	None	11764	None	None	134106867	134125740	1	None	TGN, AITD3
8	TG	ENSG00000042832	ENST00000522809	retained_intron	KNOWN	None	11764	None	None	134107403	134125912	1	None	TGN, AITD3
8	TG	ENSG00000042832	ENST00000521107	protein_coding	NOVEL	None	11764	519	172	134125747	134147135	1	None	TGN, AITD3
8	TG	ENSG00000042832	ENST00000522691	retained_intron	KNOWN	None	11764	None	None	134145631	134147121	1	None	TGN, AITD3
8	TG	ENSG00000042832	ENST00000377869	protein_coding	KNOWN	None	11764	8136	2711	133879205	134147143	1	None	TGN, AITD3
8	TG	ENSG00000042832	ENST00000542445	protein_coding	KNOWN	None	11764	3417	1138	133931685	134147071	1	None	TGN, AITD3
1	FBXO44	ENSG00000132879	ENST00000251546	protein_coding	NOVEL	CCDS131	24847	675	224	11714432	11722346	1	None	FBX30, FBG3, MGC14140, Fbxo6a, Fbx44
1	FBXO44	ENSG00000132879	ENST00000425796	protein_coding	NOVEL	None	24847	496	164	11714914	11718925	1	None	FBX30, FBG3, MGC14140, Fbxo6a, Fbx44
1	FBXO44	ENSG00000132879	ENST00000376768	protein_coding	NOVEL	None	24847	771	256	11714938	11721448	1	None	FBX30, FBG3, MGC14140, Fbxo6a, Fbx44
1	FBXO44	ENSG00000132879	ENST00000251547	protein_coding	KNOWN	CCDS132	24847	768	255	11714958	11723383	1	None	FBX30, FBG3, MGC14140, Fbxo6a, Fbx44
1	FBXO44	ENSG00000132879	ENST00000376760	protein_coding	NOVEL	CCDS131	24847	675	224	11714967	11721406	1	None	FBX30, FBG3, MGC14140, Fbxo6a, Fbx44
1	FBXO44	ENSG00000132879	ENST00000376762	protein_coding	NOVEL	CCDS131	24847	675	224	11714967	11722348	1	None	FBX30, FBG3, MGC14140, Fbxo6a, Fbx44
1	FBXO44	ENSG00000132879	ENST00000475435	protein_coding	KNOWN	None	24847	446	147	11716122	11723174	1	None	FBX30, FBG3, MGC14140, Fbxo6a, Fbx44
1	FBXO44	ENSG00000132879	ENST00000471895	protein_coding	NOVEL	None	24847	399	132	11718599	11723381	1	None	FBX30, FBG3, MGC14140, Fbxo6a, Fbx44
1	FBXO44	ENSG00000132879	ENST00000376770	protein_coding	KNOWN	CCDS132	24847	768	255	11714914	11723384	1	None	FBX30, FBG3, MGC14140, Fbxo6a, Fbx44
9	SUSD3	ENSG00000157303	ENST00000375472	protein_coding	KNOWN	CCDS6701	28391	768	255	95820989	95847420	1	None	MGC26847
9	SUSD3	ENSG00000157303	ENST00000465709	protein_coding	NOVEL	None	28391	463	153	95821061	95846949	1	None	MGC26847
9	SUSD3	ENSG00000157303	ENST00000471462	protein_coding	NOVEL	None	28391	359	118	95840128	95847415	1	None	MGC26847
9	SUSD3	ENSG00000157303	ENST00000375469	protein_coding	KNOWN	None	28391	729	242	95831382	95847412	1	None	MGC26847
3	WDR52	ENSG00000206530	ENST00000489244	nonsense_mediated_decay	KNOWN	None	25631	169	55	113005794	113022914	-1	None	FLJ11142
3	WDR52	ENSG00000206530	ENST00000465636	protein_coding	PUTATIVE	None	25631	2974	990	113008967	113085009	-1	None	FLJ11142
3	WDR52	ENSG00000206530	ENST00000461734	nonsense_mediated_decay	KNOWN	None	25631	1259	418	113009700	113046644	-1	None	FLJ11142
3	WDR52	ENSG00000206530	ENST00000484923	retained_intron	KNOWN	None	25631	None	None	113010380	113013303	-1	None	FLJ11142
3	WDR52	ENSG00000206530	ENST00000465510	retained_intron	KNOWN	None	25631	None	None	113013597	113023124	-1	None	FLJ11142
3	WDR52	ENSG00000206530	ENST00000490481	nonsense_mediated_decay	KNOWN	None	25631	358	118	113052298	113082157	-1	None	FLJ11142
3	WDR52	ENSG00000206530	ENST00000488854	nonsense_mediated_decay	KNOWN	None	25631	114	37	113081695	113160360	-1	None	FLJ11142
3	WDR52	ENSG00000206530	ENST00000295868	protein_coding	KNOWN	CCDS2972	25631	2949	982	113081712	113160457	-1	None	FLJ11142
3	WDR52	ENSG00000206530	ENST00000475568	processed_transcript	KNOWN	None	25631	None	None	113099862	113116191	-1	None	FLJ11142
3	WDR52	ENSG00000206530	ENST00000465186	nonsense_mediated_decay	KNOWN	None	25631	81	26	113118815	113122725	-1	None	FLJ11142
3	WDR52	ENSG00000206530	ENST00000489938	nonsense_mediated_decay	KNOWN	None	25631	31	9	113122858	113152428	-1	None	FLJ11142
3	WDR52	ENSG00000206530	ENST00000479422	retained_intron	KNOWN	None	25631	None	None	113144829	113160362	-1	None	FLJ11142
3	WDR52	ENSG00000206530	ENST00000473143	protein_coding	KNOWN	None	25631	253	83	113146034	113153792	-1	None	FLJ11142
3	WDR52	ENSG00000206530	ENST00000393845	protein_coding	KNOWN	CCDS54624	25631	5565	1854	113005777	113160361	-1	None	FLJ11142
3	WDR52	ENSG00000206530	ENST00000308346	protein_coding	KNOWN	None	25631	1206	401	113009700	113046644	-1	None	FLJ11142
11	ACCS	ENSG00000110455	ENST00000533208	processed_transcript	KNOWN	None	23989	None	None	44087475	44099249	1	None	PHACS, ACS
11	ACCS	ENSG00000110455	ENST00000524990	protein_coding	KNOWN	None	23989	419	138	44087729	44095067	1	None	PHACS, ACS
11	ACCS	ENSG00000110455	ENST00000263776	protein_coding	KNOWN	CCDS7907	23989	1506	501	44087818	44105764	1	None	PHACS, ACS
11	ACCS	ENSG00000110455	ENST00000527603	retained_intron	KNOWN	None	23989	None	None	44088074	44097406	1	None	PHACS, ACS
11	ACCS	ENSG00000110455	ENST00000526577	retained_intron	KNOWN	None	23989	None	None	44088086	44098995	1	None	PHACS, ACS
11	ACCS	ENSG00000110455	ENST00000533404	protein_coding	KNOWN	None	23989	232	76	44088679	44089409	1	None	PHACS, ACS
11	ACCS	ENSG00000110455	ENST00000531940	retained_intron	KNOWN	None	23989	None	None	44096180	44101157	1	None	PHACS, ACS
11	ACCS	ENSG00000110455	ENST00000527346	retained_intron	KNOWN	None	23989	None	None	44097081	44105772	1	None	PHACS, ACS
11	ACCS	ENSG00000110455	ENST00000532122	retained_intron	KNOWN	None	23989	None	None	44100888	44103670	1	None	PHACS, ACS
11	ACCS	ENSG00000110455	ENST00000531190	retained_intron	KNOWN	None	23989	None	None	44100888	44104758	1	None	PHACS, ACS
11	ACCS	ENSG00000110455	ENST00000527557	retained_intron	KNOWN	None	23989	None	None	44101079	44103731	1	None	PHACS, ACS
11	ACCS	ENSG00000110455	ENST00000531505	retained_intron	KNOWN	None	23989	None	None	44102060	44104820	1	None	PHACS, ACS
11	ACCS	ENSG00000110455	ENST00000534035	retained_intron	KNOWN	None	23989	None	None	44102568	44105443	1	None	PHACS, ACS
11	ACCS	ENSG00000110455	ENST00000432284	protein_coding	KNOWN	None	23989	477	158	44087875	44098953	1	None	PHACS, ACS
19	ECSIT	ENSG00000130159	ENST00000270517	protein_coding	KNOWN	CCDS12262	29548	1296	431	11616731	11639989	-1	None	SITPEC
19	ECSIT	ENSG00000130159	ENST00000588998	protein_coding	NOVEL	None	29548	249	82	11616744	11639911	-1	None	SITPEC
19	ECSIT	ENSG00000130159	ENST00000252440	protein_coding	KNOWN	CCDS45980	29548	891	296	11616744	11639952	-1	None	SITPEC
19	ECSIT	ENSG00000130159	ENST00000592571	nonsense_mediated_decay	KNOWN	None	29548	215	70	11616773	11623983	-1	None	SITPEC
19	ECSIT	ENSG00000130159	ENST00000417981	protein_coding	KNOWN	CCDS45979	29548	654	217	11616817	11639987	-1	None	SITPEC
19	ECSIT	ENSG00000130159	ENST00000585898	retained_intron	KNOWN	None	29548	None	None	11616890	11618524	-1	None	SITPEC
19	ECSIT	ENSG00000130159	ENST00000591104	protein_coding	PUTATIVE	CCDS59353	29548	891	296	11616999	11639680	-1	None	SITPEC
19	ECSIT	ENSG00000130159	ENST00000592312	protein_coding	PUTATIVE	None	29548	804	267	11617116	11639939	-1	None	SITPEC
19	ECSIT	ENSG00000130159	ENST00000585318	protein_coding	PUTATIVE	None	29548	670	222	11618305	11639947	-1	None	SITPEC
19	ECSIT	ENSG00000130159	ENST00000593231	nonsense_mediated_decay	KNOWN	None	29548	178	58	11618515	11624785	-1	None	SITPEC
19	ECSIT	ENSG00000130159	ENST00000591352	processed_transcript	KNOWN	None	29548	None	None	11618587	11624673	-1	None	SITPEC
19	ECSIT	ENSG00000130159	ENST00000590480	protein_coding	KNOWN	None	29548	683	226	11623926	11639945	-1	None	SITPEC
19	ECSIT	ENSG00000130159	ENST00000592665	protein_coding	PUTATIVE	None	29548	307	101	11623954	11639642	-1	None	SITPEC
19	ECSIT	ENSG00000130159	ENST00000586149	protein_coding	KNOWN	None	29548	74	23	11629912	11639914	-1	None	SITPEC
5	RASGEF1C	ENSG00000146090	ENST00000361132	protein_coding	KNOWN	CCDS4452	27400	1401	466	179527795	179636153	-1	None	FLJ35841
5	RASGEF1C	ENSG00000146090	ENST00000393371	protein_coding	KNOWN	CCDS4452	27400	1401	466	179527804	179565349	-1	None	FLJ35841
5	RASGEF1C	ENSG00000146090	ENST00000522500	protein_coding	PUTATIVE	None	27400	948	315	179527808	179563776	-1	None	FLJ35841
5	RASGEF1C	ENSG00000146090	ENST00000520209	nonsense_mediated_decay	KNOWN	None	27400	717	238	179527811	179563578	-1	None	FLJ35841
5	RASGEF1C	ENSG00000146090	ENST00000519456	processed_transcript	KNOWN	None	27400	None	None	179528332	179542400	-1	None	FLJ35841
5	RASGEF1C	ENSG00000146090	ENST00000519883	processed_transcript	KNOWN	None	27400	None	None	179545832	179562312	-1	None	FLJ35841
11	None	ENSG00000263365	ENST00000581561	miRNA	NOVEL	None	None	None	None	3394759	3394851	-1	None	None
12	AEBP2	ENSG00000139154	ENST00000538425	protein_coding	PUTATIVE	None	24051	330	109	19556979	19646763	1	None	MGC17922
12	AEBP2	ENSG00000139154	ENST00000541908	protein_coding	PUTATIVE	None	24051	825	274	19557000	19671126	1	None	MGC17922
12	AEBP2	ENSG00000139154	ENST00000398864	protein_coding	KNOWN	CCDS44841	24051	1554	517	19592608	19672309	1	None	MGC17922
12	AEBP2	ENSG00000139154	ENST00000266508	protein_coding	KNOWN	CCDS44842	24051	1512	503	19592633	19673158	1	None	MGC17922
12	AEBP2	ENSG00000139154	ENST00000360995	protein_coding	KNOWN	CCDS58215	24051	906	301	19593515	19673157	1	None	MGC17922
12	AEBP2	ENSG00000139154	ENST00000512223	protein_coding	PUTATIVE	None	24051	393	130	19653027	19873735	1	None	MGC17922
12	AEBP2	ENSG00000139154	ENST00000398731	protein_coding	PUTATIVE	None	24051	423	140	19653063	19706173	1	None	MGC17922
5	None	ENSG00000248195	ENST00000505348	lincRNA	KNOWN	None	None	None	None	85630842	85631626	1	None	None
17	LRRC37A	ENSG00000176681	ENST00000496930	protein_coding	PUTATIVE	None	29069	2217	738	44370099	44415158	1	None	KIAA0563
17	LRRC37A	ENSG00000176681	ENST00000393465	protein_coding	NOVEL	None	29069	4908	1635	44372465	44415143	1	None	KIAA0563
17	LRRC37A	ENSG00000176681	ENST00000320254	protein_coding	KNOWN	CCDS11504	29069	5103	1700	44372497	44415160	1	None	KIAA0563
5	None	ENSG00000248363	ENST00000510946	lincRNA	KNOWN	None	None	None	None	85649621	85664671	1	None	None
5	None	ENSG00000248363	ENST00000511940	lincRNA	KNOWN	None	None	None	None	85649621	85664672	1	None	None
20	RBPJL	ENSG00000124232	ENST00000372743	protein_coding	KNOWN	None	13761	1551	516	43935491	43945599	1	RBPSUHL	RBP-L, SUH, SUHL
20	RBPJL	ENSG00000124232	ENST00000372741	protein_coding	KNOWN	None	13761	1416	471	43935491	43945599	1	RBPSUHL	RBP-L, SUH, SUHL
20	RBPJL	ENSG00000124232	ENST00000343694	protein_coding	KNOWN	CCDS13349	13761	1554	517	43935491	43945803	1	RBPSUHL	RBP-L, SUH, SUHL
20	RBPJL	ENSG00000124232	ENST00000464504	processed_transcript	KNOWN	None	13761	None	None	43942675	43945599	1	RBPSUHL	RBP-L, SUH, SUHL
11	TSSC2	ENSG00000223756	ENST00000529482	processed_transcript	KNOWN	None	12384	None	None	3402191	3430208	1	None	None
11	TSSC2	ENSG00000223756	ENST00000526284	processed_transcript	KNOWN	None	12384	None	None	3402208	3419320	1	None	None
11	TSSC2	ENSG00000223756	ENST00000530366	processed_transcript	PUTATIVE	None	12384	None	None	3402223	3405641	1	None	None
11	TSSC2	ENSG00000223756	ENST00000526488	processed_transcript	KNOWN	None	12384	None	None	3404692	3418469	1	None	None
11	TSSC2	ENSG00000223756	ENST00000533775	processed_transcript	KNOWN	None	12384	None	None	3404692	3430191	1	None	None
11	TSSC2	ENSG00000223756	ENST00000450217	transcribed_unprocessed_pseudogene	KNOWN	None	12384	None	None	3422989	3430040	1	None	None
6	None	ENSG00000217767	ENST00000404262	processed_pseudogene	KNOWN	None	None	None	None	71444206	71444665	1	None	None
X	SSX2	ENSG00000241476	ENST00000336777	protein_coding	KNOWN	CCDS14345	11336	672	223	52725946	52736211	-1	SSX	HOM-MEL-40, HD21, MGC3884, MGC15364, MGC119055, CT5.2a
X	SSX2	ENSG00000241476	ENST00000337502	protein_coding	KNOWN	CCDS14344	11336	567	188	52725946	52736239	-1	SSX	HOM-MEL-40, HD21, MGC3884, MGC15364, MGC119055, CT5.2a
X	SSX2	ENSG00000241476	ENST00000476392	processed_transcript	KNOWN	None	11336	None	None	52726281	52731778	-1	SSX	HOM-MEL-40, HD21, MGC3884, MGC15364, MGC119055, CT5.2a
5	None	ENSG00000250124	ENST00000515706	lincRNA	KNOWN	None	None	None	None	85676478	85677244	-1	None	None
17	RECQL5	ENSG00000108469	ENST00000578865	retained_intron	KNOWN	None	9950	None	None	73622925	73624954	-1	None	RecQ5, FLJ90603
17	RECQL5	ENSG00000108469	ENST00000443199	processed_transcript	KNOWN	None	9950	None	None	73622925	73630303	-1	None	RecQ5, FLJ90603
17	RECQL5	ENSG00000108469	ENST00000423245	protein_coding	NOVEL	None	9950	2895	964	73622934	73663222	-1	None	RecQ5, FLJ90603
17	RECQL5	ENSG00000108469	ENST00000317905	protein_coding	KNOWN	CCDS42380	9950	2976	991	73622934	73663269	-1	None	RecQ5, FLJ90603
17	RECQL5	ENSG00000108469	ENST00000581825	protein_coding	PUTATIVE	None	9950	619	205	73622990	73625175	-1	None	RecQ5, FLJ90603
17	RECQL5	ENSG00000108469	ENST00000582548	protein_coding	NOVEL	None	9950	709	235	73624477	73625522	-1	None	RecQ5, FLJ90603
17	RECQL5	ENSG00000108469	ENST00000580707	protein_coding	PUTATIVE	None	9950	572	189	73625398	73636020	-1	None	RecQ5, FLJ90603
17	RECQL5	ENSG00000108469	ENST00000579265	retained_intron	KNOWN	None	9950	None	None	73625641	73626314	-1	None	RecQ5, FLJ90603
17	RECQL5	ENSG00000108469	ENST00000585205	retained_intron	KNOWN	None	9950	None	None	73625855	73626714	-1	None	RecQ5, FLJ90603
17	RECQL5	ENSG00000108469	ENST00000578201	protein_coding	KNOWN	None	9950	1441	479	73627537	73663168	-1	None	RecQ5, FLJ90603
17	RECQL5	ENSG00000108469	ENST00000583673	processed_transcript	KNOWN	None	9950	None	None	73627546	73636070	-1	None	RecQ5, FLJ90603
17	RECQL5	ENSG00000108469	ENST00000582464	nonsense_mediated_decay	KNOWN	None	9950	356	117	73627572	73657068	-1	None	RecQ5, FLJ90603
17	RECQL5	ENSG00000108469	ENST00000579739	processed_transcript	KNOWN	None	9950	None	None	73634626	73636042	-1	None	RecQ5, FLJ90603
17	RECQL5	ENSG00000108469	ENST00000581827	retained_intron	KNOWN	None	9950	None	None	73634842	73636053	-1	None	RecQ5, FLJ90603
17	RECQL5	ENSG00000108469	ENST00000420326	protein_coding	KNOWN	CCDS45777	9950	1233	410	73644945	73663269	-1	None	RecQ5, FLJ90603
17	RECQL5	ENSG00000108469	ENST00000340830	protein_coding	KNOWN	CCDS32735	9950	1308	435	73646439	73663269	-1	None	RecQ5, FLJ90603
17	RECQL5	ENSG00000108469	ENST00000584999	protein_coding	KNOWN	CCDS32735	9950	1308	435	73646442	73663253	-1	None	RecQ5, FLJ90603
17	RECQL5	ENSG00000108469	ENST00000580078	protein_coding	PUTATIVE	None	9950	596	197	73647175	73659040	-1	None	RecQ5, FLJ90603
17	RECQL5	ENSG00000108469	ENST00000579274	processed_transcript	KNOWN	None	9950	None	None	73648528	73654440	-1	None	RecQ5, FLJ90603
16	CHMP1A	ENSG00000131165	ENST00000397901	protein_coding	KNOWN	CCDS45552	8740	591	196	89710839	89724253	-1	PRSM1, PCOLN3	KIAA0047, CHMP1, Vps46A
16	CHMP1A	ENSG00000131165	ENST00000547687	retained_intron	KNOWN	None	8740	None	None	89710843	89713288	-1	PRSM1, PCOLN3	KIAA0047, CHMP1, Vps46A
16	CHMP1A	ENSG00000131165	ENST00000535997	protein_coding	PUTATIVE	None	8740	399	132	89710871	89724117	-1	PRSM1, PCOLN3	KIAA0047, CHMP1, Vps46A
16	CHMP1A	ENSG00000131165	ENST00000549139	retained_intron	KNOWN	None	8740	None	None	89712244	89716001	-1	PRSM1, PCOLN3	KIAA0047, CHMP1, Vps46A
16	CHMP1A	ENSG00000131165	ENST00000550102	protein_coding	NOVEL	None	8740	564	187	89712297	89724058	-1	PRSM1, PCOLN3	KIAA0047, CHMP1, Vps46A
16	CHMP1A	ENSG00000131165	ENST00000549328	nonsense_mediated_decay	KNOWN	None	8740	546	181	89712363	89724129	-1	PRSM1, PCOLN3	KIAA0047, CHMP1, Vps46A
16	CHMP1A	ENSG00000131165	ENST00000551981	retained_intron	KNOWN	None	8740	None	None	89713320	89724013	-1	PRSM1, PCOLN3	KIAA0047, CHMP1, Vps46A
16	CHMP1A	ENSG00000131165	ENST00000548650	retained_intron	KNOWN	None	8740	None	None	89713363	89715947	-1	PRSM1, PCOLN3	KIAA0047, CHMP1, Vps46A
16	CHMP1A	ENSG00000131165	ENST00000547614	processed_transcript	KNOWN	None	8740	None	None	89713452	89724129	-1	PRSM1, PCOLN3	KIAA0047, CHMP1, Vps46A
16	CHMP1A	ENSG00000131165	ENST00000550872	retained_intron	KNOWN	None	8740	None	None	89715587	89724105	-1	PRSM1, PCOLN3	KIAA0047, CHMP1, Vps46A
16	CHMP1A	ENSG00000131165	ENST00000253475	protein_coding	KNOWN	None	8740	723	240	89710846	89724129	-1	PRSM1, PCOLN3	KIAA0047, CHMP1, Vps46A
19	CGB7	ENSG00000196337	ENST00000596965	protein_coding	KNOWN	CCDS33071	16451	498	165	49557532	49561008	-1	None	CG-beta-a
19	CGB7	ENSG00000196337	ENST00000597853	protein_coding	KNOWN	CCDS33071	16451	498	165	49557532	49562117	-1	None	CG-beta-a
19	CGB7	ENSG00000196337	ENST00000593309	processed_transcript	KNOWN	None	16451	None	None	49559345	49561002	-1	None	CG-beta-a
19	CGB7	ENSG00000196337	ENST00000598442	processed_transcript	KNOWN	None	16451	None	None	49561115	49562018	-1	None	CG-beta-a
19	CGB7	ENSG00000196337	ENST00000377280	protein_coding	KNOWN	CCDS33071	16451	498	165	49557531	49558997	-1	None	CG-beta-a
19	CGB7	ENSG00000196337	ENST00000356213	protein_coding	KNOWN	None	16451	492	163	49557532	49562117	-1	None	CG-beta-a
8	LPL	ENSG00000175445	ENST00000520959	protein_coding	PUTATIVE	None	6677	345	114	19759228	19811662	1	LIPD	None
8	LPL	ENSG00000175445	ENST00000524029	protein_coding	KNOWN	None	6677	389	128	19796381	19809419	1	LIPD	None
8	LPL	ENSG00000175445	ENST00000522701	protein_coding	KNOWN	None	6677	317	104	19796444	19809347	1	LIPD	None
8	LPL	ENSG00000175445	ENST00000311322	protein_coding	KNOWN	CCDS6012	6677	1428	475	19796482	19824769	1	LIPD	None
8	LPL	ENSG00000175445	ENST00000519773	nonsense_mediated_decay	KNOWN	None	6677	120	39	19796767	19805814	1	LIPD	None
8	LPL	ENSG00000175445	ENST00000521994	processed_transcript	KNOWN	None	6677	None	None	19796767	19809339	1	LIPD	None
8	LPL	ENSG00000175445	ENST00000523696	retained_intron	KNOWN	None	6677	None	None	19796883	19805996	1	LIPD	None
7	ABCA13	ENSG00000179869	ENST00000417403	nonsense_mediated_decay	KNOWN	None	14638	954	317	48211055	48312592	1	None	FLJ33876, FLJ33951
7	ABCA13	ENSG00000179869	ENST00000435803	protein_coding	KNOWN	CCDS47584	14638	15177	5058	48211057	48687091	1	None	FLJ33876, FLJ33951
7	ABCA13	ENSG00000179869	ENST00000484268	retained_intron	KNOWN	None	14638	None	None	48352664	48444262	1	None	FLJ33876, FLJ33951
7	ABCA13	ENSG00000179869	ENST00000453246	nonsense_mediated_decay	KNOWN	None	14638	3577	1191	48416039	48684314	1	None	FLJ33876, FLJ33951
7	ABCA13	ENSG00000179869	ENST00000411975	protein_coding	NOVEL	None	14638	2496	831	48494660	48687092	1	None	FLJ33876, FLJ33951
7	ABCA13	ENSG00000179869	ENST00000435451	protein_coding	NOVEL	None	14638	463	153	48547468	48559741	1	None	FLJ33876, FLJ33951
7	ABCA13	ENSG00000179869	ENST00000544596	protein_coding	KNOWN	None	14638	2367	788	48494660	48687092	1	None	FLJ33876, FLJ33951
11	MUC15	ENSG00000169550	ENST00000455601	protein_coding	KNOWN	CCDS7859	14956	1005	334	26580580	26593668	-1	None	None
11	MUC15	ENSG00000169550	ENST00000529533	protein_coding	KNOWN	CCDS44557	14956	1086	361	26581852	26593780	-1	None	None
11	MUC15	ENSG00000169550	ENST00000527569	protein_coding	KNOWN	CCDS44556	14956	936	311	26582309	26593689	-1	None	None
11	MUC15	ENSG00000169550	ENST00000436318	protein_coding	KNOWN	CCDS44557	14956	1086	361	26580580	26588775	-1	None	None
11	MUC15	ENSG00000169550	ENST00000281268	protein_coding	KNOWN	CCDS44556	14956	936	311	26580580	26588775	-1	None	None
X	None	ENSG00000226725	ENST00000416989	antisense	KNOWN	None	None	None	None	72218227	72222695	-1	None	None
19	MKNK2	ENSG00000099875	ENST00000591142	protein_coding	PUTATIVE	None	7111	477	158	2037470	2042139	-1	GPRK7	MNK2
19	MKNK2	ENSG00000099875	ENST00000591601	protein_coding	KNOWN	CCDS12080	7111	1398	465	2037470	2050886	-1	GPRK7	MNK2
19	MKNK2	ENSG00000099875	ENST00000309340	protein_coding	KNOWN	CCDS12079	7111	1245	414	2037470	2051223	-1	GPRK7	MNK2
19	MKNK2	ENSG00000099875	ENST00000587416	retained_intron	KNOWN	None	7111	None	None	2037472	2042675	-1	GPRK7	MNK2
19	MKNK2	ENSG00000099875	ENST00000589441	protein_coding	NOVEL	None	7111	525	174	2037631	2041206	-1	GPRK7	MNK2
19	MKNK2	ENSG00000099875	ENST00000586828	nonsense_mediated_decay	KNOWN	None	7111	249	82	2039411	2050852	-1	GPRK7	MNK2
19	MKNK2	ENSG00000099875	ENST00000591588	protein_coding	PUTATIVE	None	7111	390	129	2039954	2042081	-1	GPRK7	MNK2
19	MKNK2	ENSG00000099875	ENST00000588014	protein_coding	PUTATIVE	None	7111	390	129	2040043	2042632	-1	GPRK7	MNK2
19	MKNK2	ENSG00000099875	ENST00000585667	retained_intron	KNOWN	None	7111	None	None	2040131	2043531	-1	GPRK7	MNK2
19	MKNK2	ENSG00000099875	ENST00000586620	retained_intron	KNOWN	None	7111	None	None	2040783	2042035	-1	GPRK7	MNK2
19	MKNK2	ENSG00000099875	ENST00000588346	retained_intron	KNOWN	None	7111	None	None	2042765	2046666	-1	GPRK7	MNK2
19	MKNK2	ENSG00000099875	ENST00000589534	protein_coding	NOVEL	None	7111	254	83	2046488	2051231	-1	GPRK7	MNK2
19	MKNK2	ENSG00000099875	ENST00000589509	protein_coding	PUTATIVE	None	7111	209	68	2046516	2051243	-1	GPRK7	MNK2
19	MKNK2	ENSG00000099875	ENST00000250896	protein_coding	KNOWN	CCDS12080	7111	1398	465	2037481	2051243	-1	GPRK7	MNK2
19	MKNK2	ENSG00000099875	ENST00000541165	protein_coding	KNOWN	None	7111	1005	334	2039411	2050852	-1	GPRK7	MNK2
14	DCAF4	ENSG00000119599	ENST00000358377	protein_coding	KNOWN	CCDS9809	20229	1488	495	73393040	73425829	1	WDR21, WDR21A	DKFZp434K114
14	DCAF4	ENSG00000119599	ENST00000353777	protein_coding	NOVEL	None	20229	978	325	73393085	73426300	1	WDR21, WDR21A	DKFZp434K114
14	DCAF4	ENSG00000119599	ENST00000509320	nonsense_mediated_decay	KNOWN	None	20229	225	74	73393159	73425829	1	WDR21, WDR21A	DKFZp434K114
14	DCAF4	ENSG00000119599	ENST00000394234	protein_coding	KNOWN	CCDS9810	20229	1188	395	73393186	73426411	1	WDR21, WDR21A	DKFZp434K114
14	DCAF4	ENSG00000119599	ENST00000509153	protein_coding	KNOWN	CCDS41968	20229	1308	435	73393188	73425654	1	WDR21, WDR21A	DKFZp434K114
14	DCAF4	ENSG00000119599	ENST00000555042	protein_coding	NOVEL	CCDS55926	20229	1470	489	73393195	73426352	1	WDR21, WDR21A	DKFZp434K114
14	DCAF4	ENSG00000119599	ENST00000514191	retained_intron	KNOWN	None	20229	None	None	73393207	73407234	1	WDR21, WDR21A	DKFZp434K114
14	DCAF4	ENSG00000119599	ENST00000505361	retained_intron	KNOWN	None	20229	None	None	73393209	73408610	1	WDR21, WDR21A	DKFZp434K114
14	DCAF4	ENSG00000119599	ENST00000510612	processed_transcript	KNOWN	None	20229	None	None	73393485	73406989	1	WDR21, WDR21A	DKFZp434K114
14	DCAF4	ENSG00000119599	ENST00000508412	processed_transcript	KNOWN	None	20229	None	None	73393493	73408492	1	WDR21, WDR21A	DKFZp434K114
14	DCAF4	ENSG00000119599	ENST00000514486	processed_transcript	KNOWN	None	20229	None	None	73396408	73408532	1	WDR21, WDR21A	DKFZp434K114
14	DCAF4	ENSG00000119599	ENST00000553457	protein_coding	NOVEL	None	20229	1002	333	73404697	73424820	1	WDR21, WDR21A	DKFZp434K114
14	DCAF4	ENSG00000119599	ENST00000513337	processed_transcript	KNOWN	None	20229	None	None	73408617	73412635	1	WDR21, WDR21A	DKFZp434K114
14	DCAF4	ENSG00000119599	ENST00000557203	retained_intron	KNOWN	None	20229	None	None	73409427	73412737	1	WDR21, WDR21A	DKFZp434K114
14	DCAF4	ENSG00000119599	ENST00000555992	processed_transcript	PUTATIVE	None	20229	None	None	73425423	73426083	1	WDR21, WDR21A	DKFZp434K114
7	RNU7-154P	ENSG00000252003	ENST00000516194	snRNA	KNOWN	None	45688	None	None	121721774	121721835	1	None	None
16	KDM8	ENSG00000155666	ENST00000286096	protein_coding	KNOWN	CCDS10627	25840	1251	416	27214816	27233085	1	JMJD5	FLJ13798
16	KDM8	ENSG00000155666	ENST00000564961	retained_intron	KNOWN	None	25840	None	None	27214829	27223036	1	JMJD5	FLJ13798
16	KDM8	ENSG00000155666	ENST00000562269	processed_transcript	KNOWN	None	25840	None	None	27214838	27224963	1	JMJD5	FLJ13798
16	KDM8	ENSG00000155666	ENST00000569329	protein_coding	KNOWN	None	25840	489	162	27215124	27221933	1	JMJD5	FLJ13798
16	KDM8	ENSG00000155666	ENST00000441782	protein_coding	KNOWN	CCDS45448	25840	1365	454	27215296	27232180	1	JMJD5	FLJ13798
16	KDM8	ENSG00000155666	ENST00000562733	protein_coding	KNOWN	None	25840	360	119	27215317	27221804	1	JMJD5	FLJ13798
16	KDM8	ENSG00000155666	ENST00000563881	processed_transcript	PUTATIVE	None	25840	None	None	27215399	27215765	1	JMJD5	FLJ13798
16	KDM8	ENSG00000155666	ENST00000568965	protein_coding	KNOWN	None	25840	663	220	27221445	27233043	1	JMJD5	FLJ13798
16	KDM8	ENSG00000155666	ENST00000563571	retained_intron	KNOWN	None	25840	None	None	27225897	27230384	1	JMJD5	FLJ13798
16	KDM8	ENSG00000155666	ENST00000567785	processed_transcript	KNOWN	None	25840	None	None	27225933	27232405	1	JMJD5	FLJ13798
16	KDM8	ENSG00000155666	ENST00000567366	processed_transcript	KNOWN	None	25840	None	None	27225941	27231988	1	JMJD5	FLJ13798
16	KDM8	ENSG00000155666	ENST00000568792	retained_intron	KNOWN	None	25840	None	None	27225959	27227455	1	JMJD5	FLJ13798
16	KDM8	ENSG00000155666	ENST00000567735	protein_coding	PUTATIVE	None	25840	272	89	27226292	27232515	1	JMJD5	FLJ13798
16	KDM8	ENSG00000155666	ENST00000569592	retained_intron	KNOWN	None	25840	None	None	27231639	27232223	1	JMJD5	FLJ13798
16	KDM8	ENSG00000155666	ENST00000380948	protein_coding	KNOWN	None	25840	663	220	27214807	27233089	1	JMJD5	FLJ13798
HSCHR6_MHC_MCF	None	ENSG00000266851	ENST00000580944	miRNA	NOVEL	None	None	None	None	32751469	32751536	-1	None	None
7	None	ENSG00000226636	ENST00000420179	processed_pseudogene	KNOWN	None	None	None	None	121799354	121802297	1	None	None
HSCHR6_MHC_DBB	NEU1	ENSG00000234343	ENST00000461380	retained_intron	KNOWN	None	7758	None	None	31807625	31812762	-1	NEU	None
HSCHR6_MHC_DBB	NEU1	ENSG00000234343	ENST00000466841	retained_intron	KNOWN	None	7758	None	None	31809018	31812771	-1	NEU	None
HSCHR6_MHC_DBB	NEU1	ENSG00000234343	ENST00000460116	nonsense_mediated_decay	KNOWN	None	7758	219	72	31809018	31812782	-1	NEU	None
HSCHR6_MHC_DBB	NEU1	ENSG00000234343	ENST00000460245	nonsense_mediated_decay	KNOWN	None	7758	804	267	31809018	31812788	-1	NEU	None
HSCHR6_MHC_DBB	NEU1	ENSG00000234343	ENST00000434496	protein_coding	KNOWN	None	7758	1248	415	31809018	31812872	-1	NEU	None
4	RN7SL184P	ENSG00000239279	ENST00000488308	misc_RNA	KNOWN	None	46200	None	None	114340996	114341290	1	None	None
5	HSD17B4	ENSG00000133835	ENST00000256216	protein_coding	KNOWN	CCDS4126	5213	2211	736	118788138	118878028	1	None	MFE-2, DBP, SDR8C1
5	HSD17B4	ENSG00000133835	ENST00000511186	retained_intron	KNOWN	None	5213	None	None	118788168	118813184	1	None	MFE-2, DBP, SDR8C1
5	HSD17B4	ENSG00000133835	ENST00000515320	protein_coding	NOVEL	CCDS56378	5213	2157	718	118788192	118877947	1	None	MFE-2, DBP, SDR8C1
5	HSD17B4	ENSG00000133835	ENST00000442060	nonsense_mediated_decay	KNOWN	None	5213	1503	500	118788192	118878027	1	None	MFE-2, DBP, SDR8C1
5	HSD17B4	ENSG00000133835	ENST00000515235	retained_intron	KNOWN	None	5213	None	None	118788211	118972894	1	None	MFE-2, DBP, SDR8C1
5	HSD17B4	ENSG00000133835	ENST00000510025	protein_coding	PUTATIVE	None	5213	2139	712	118788233	118877964	1	None	MFE-2, DBP, SDR8C1
5	HSD17B4	ENSG00000133835	ENST00000519184	processed_transcript	KNOWN	None	5213	None	None	118788260	118809675	1	None	MFE-2, DBP, SDR8C1
5	HSD17B4	ENSG00000133835	ENST00000504811	protein_coding	PUTATIVE	CCDS56379	5213	2286	761	118788265	118877959	1	None	MFE-2, DBP, SDR8C1
5	HSD17B4	ENSG00000133835	ENST00000512841	processed_transcript	KNOWN	None	5213	None	None	118788411	118814630	1	None	MFE-2, DBP, SDR8C1
5	HSD17B4	ENSG00000133835	ENST00000414835	protein_coding	PUTATIVE	None	5213	1791	596	118788448	118878027	1	None	MFE-2, DBP, SDR8C1
5	HSD17B4	ENSG00000133835	ENST00000508750	retained_intron	KNOWN	None	5213	None	None	118788461	118792427	1	None	MFE-2, DBP, SDR8C1
5	HSD17B4	ENSG00000133835	ENST00000503168	retained_intron	KNOWN	None	5213	None	None	118788470	118814694	1	None	MFE-2, DBP, SDR8C1
5	HSD17B4	ENSG00000133835	ENST00000507695	retained_intron	KNOWN	None	5213	None	None	118792008	118811568	1	None	MFE-2, DBP, SDR8C1
5	HSD17B4	ENSG00000133835	ENST00000505181	processed_transcript	KNOWN	None	5213	None	None	118812143	118824978	1	None	MFE-2, DBP, SDR8C1
5	HSD17B4	ENSG00000133835	ENST00000513628	protein_coding	PUTATIVE	None	5213	1800	599	118812237	118877869	1	None	MFE-2, DBP, SDR8C1
5	HSD17B4	ENSG00000133835	ENST00000508788	processed_transcript	KNOWN	None	5213	None	None	118812266	118814638	1	None	MFE-2, DBP, SDR8C1
5	HSD17B4	ENSG00000133835	ENST00000509514	protein_coding	PUTATIVE	None	5213	1425	474	118812324	118877947	1	None	MFE-2, DBP, SDR8C1
5	HSD17B4	ENSG00000133835	ENST00000512644	retained_intron	KNOWN	None	5213	None	None	118814527	118827819	1	None	MFE-2, DBP, SDR8C1
5	HSD17B4	ENSG00000133835	ENST00000520216	processed_transcript	KNOWN	None	5213	None	None	118829513	118837775	1	None	MFE-2, DBP, SDR8C1
5	HSD17B4	ENSG00000133835	ENST00000518349	processed_transcript	KNOWN	None	5213	None	None	118832236	118861719	1	None	MFE-2, DBP, SDR8C1
5	HSD17B4	ENSG00000133835	ENST00000512029	retained_intron	KNOWN	None	5213	None	None	118832251	118835333	1	None	MFE-2, DBP, SDR8C1
5	HSD17B4	ENSG00000133835	ENST00000520244	processed_transcript	KNOWN	None	5213	None	None	118837744	118861704	1	None	MFE-2, DBP, SDR8C1
5	HSD17B4	ENSG00000133835	ENST00000522415	processed_transcript	KNOWN	None	5213	None	None	118844836	118877711	1	None	MFE-2, DBP, SDR8C1
5	HSD17B4	ENSG00000133835	ENST00000509951	processed_transcript	KNOWN	None	5213	None	None	118860953	118878026	1	None	MFE-2, DBP, SDR8C1
5	HSD17B4	ENSG00000133835	ENST00000507353	retained_intron	KNOWN	None	5213	None	None	118861431	118865795	1	None	MFE-2, DBP, SDR8C1
5	HSD17B4	ENSG00000133835	ENST00000509606	retained_intron	KNOWN	None	5213	None	None	118862853	118878027	1	None	MFE-2, DBP, SDR8C1
5	HSD17B4	ENSG00000133835	ENST00000503310	retained_intron	KNOWN	None	5213	None	None	118871465	118877947	1	None	MFE-2, DBP, SDR8C1
4	RNU1-138P	ENSG00000206820	ENST00000384093	snRNA	KNOWN	None	48480	None	None	114341479	114341642	1	None	None
HSCHR6_MHC_MCF	None	ENSG00000234365	ENST00000449775	processed_transcript	KNOWN	None	None	None	None	32845343	32847752	1	None	None
HSCHR6_MHC_MCF	None	ENSG00000234365	ENST00000440543	processed_transcript	KNOWN	None	None	None	None	32845365	32847076	1	None	None
HSCHR6_MHC_MCF	None	ENSG00000234365	ENST00000453335	processed_transcript	KNOWN	None	None	None	None	32845390	32847467	1	None	None
HSCHR6_MHC_MCF	None	ENSG00000234365	ENST00000456226	processed_transcript	KNOWN	None	None	None	None	32845390	32847243	1	None	None
HSCHR6_MHC_MCF	None	ENSG00000234365	ENST00000435223	processed_transcript	KNOWN	None	None	None	None	32845391	32846952	1	None	None
HSCHR6_MHC_MCF	None	ENSG00000234365	ENST00000440517	processed_transcript	KNOWN	None	None	None	None	32845395	32847335	1	None	None
4	None	ENSG00000250229	ENST00000504097	processed_pseudogene	KNOWN	None	None	None	None	114761206	114761392	1	None	None
2	GRHL1	ENSG00000134317	ENST00000439493	nonsense_mediated_decay	KNOWN	None	17923	282	93	10091822	10101211	1	TFCP2L2	LBP-32, MGR
2	GRHL1	ENSG00000134317	ENST00000497403	retained_intron	KNOWN	None	17923	None	None	10091822	10106530	1	TFCP2L2	LBP-32, MGR
2	GRHL1	ENSG00000134317	ENST00000464418	nonsense_mediated_decay	KNOWN	None	17923	690	229	10091822	10140859	1	TFCP2L2	LBP-32, MGR
2	GRHL1	ENSG00000134317	ENST00000324907	protein_coding	KNOWN	CCDS33144	17923	1857	618	10091827	10142405	1	TFCP2L2	LBP-32, MGR
2	GRHL1	ENSG00000134317	ENST00000472167	nonsense_mediated_decay	KNOWN	None	17923	1536	511	10091911	10140960	1	TFCP2L2	LBP-32, MGR
2	GRHL1	ENSG00000134317	ENST00000494520	retained_intron	KNOWN	None	17923	None	None	10101093	10104436	1	TFCP2L2	LBP-32, MGR
2	GRHL1	ENSG00000134317	ENST00000480736	protein_coding	PUTATIVE	None	17923	219	72	10135434	10140994	1	TFCP2L2	LBP-32, MGR
2	GRHL1	ENSG00000134317	ENST00000405379	protein_coding	KNOWN	None	17923	1857	618	10085341	10142411	1	TFCP2L2	LBP-32, MGR
2	GRHL1	ENSG00000134317	ENST00000324883	protein_coding	KNOWN	None	17923	1290	429	10091792	10142411	1	TFCP2L2	LBP-32, MGR
Y	None	ENSG00000251925	ENST00000516116	snoRNA	NOVEL	None	None	None	None	25569246	25569383	-1	None	None
4	None	ENSG00000249304	ENST00000503557	antisense	KNOWN	None	None	None	None	114864412	114865476	1	None	None
Y	REREP1Y	ENSG00000225189	ENST00000422655	unprocessed_pseudogene	KNOWN	None	38795	None	None	25608612	25618427	1	None	None
Y	None	ENSG00000230073	ENST00000444350	unprocessed_pseudogene	KNOWN	None	None	None	None	25669468	25671516	1	None	None
12	ATP2A2	ENSG00000174437	ENST00000552636	protein_coding	PUTATIVE	None	812	135	44	110718561	110734517	1	ATP2B, DAR	SERCA2
12	ATP2A2	ENSG00000174437	ENST00000308664	protein_coding	KNOWN	CCDS9143	812	2994	997	110718921	110788895	1	ATP2B, DAR	SERCA2
12	ATP2A2	ENSG00000174437	ENST00000377685	nonsense_mediated_decay	KNOWN	None	812	153	50	110719102	110788862	1	ATP2B, DAR	SERCA2
12	ATP2A2	ENSG00000174437	ENST00000539276	protein_coding	KNOWN	CCDS9144	812	3129	1042	110719486	110785131	1	ATP2B, DAR	SERCA2
12	ATP2A2	ENSG00000174437	ENST00000548169	protein_coding	NOVEL	None	812	2800	932	110729854	110784426	1	ATP2B, DAR	SERCA2
12	ATP2A2	ENSG00000174437	ENST00000550248	processed_transcript	KNOWN	None	812	None	None	110733796	110760877	1	ATP2B, DAR	SERCA2
12	ATP2A2	ENSG00000174437	ENST00000547050	retained_intron	KNOWN	None	812	None	None	110763606	110770437	1	ATP2B, DAR	SERCA2
12	ATP2A2	ENSG00000174437	ENST00000549840	processed_transcript	KNOWN	None	812	None	None	110765492	110769948	1	ATP2B, DAR	SERCA2
12	ATP2A2	ENSG00000174437	ENST00000550262	retained_intron	KNOWN	None	812	None	None	110767204	110772096	1	ATP2B, DAR	SERCA2
12	ATP2A2	ENSG00000174437	ENST00000547792	retained_intron	KNOWN	None	812	None	None	110781061	110783052	1	ATP2B, DAR	SERCA2
12	ATP2A2	ENSG00000174437	ENST00000313432	retained_intron	KNOWN	None	812	None	None	110783242	110788898	1	ATP2B, DAR	SERCA2
12	ATP2A2	ENSG00000174437	ENST00000553144	protein_coding	PUTATIVE	None	812	141	46	110784006	110788178	1	ATP2B, DAR	SERCA2
12	ATP2A2	ENSG00000174437	ENST00000395494	protein_coding	KNOWN	None	812	3048	1015	110719032	110788893	1	ATP2B, DAR	SERCA2
17	RAB34	ENSG00000109113	ENST00000395243	protein_coding	KNOWN	CCDS45636	16519	756	251	27041302	27044766	-1	None	RAB39, RAH
17	RAB34	ENSG00000109113	ENST00000453384	protein_coding	KNOWN	CCDS54101	16519	807	268	27041302	27045285	-1	None	RAB39, RAH
17	RAB34	ENSG00000109113	ENST00000301043	protein_coding	KNOWN	CCDS11240	16519	780	259	27041302	27045433	-1	None	RAB39, RAH
17	RAB34	ENSG00000109113	ENST00000450529	protein_coding	KNOWN	CCDS45636	16519	756	251	27041303	27045183	-1	None	RAB39, RAH
17	RAB34	ENSG00000109113	ENST00000415040	protein_coding	NOVEL	CCDS58536	16519	714	237	27041303	27045201	-1	None	RAB39, RAH
17	RAB34	ENSG00000109113	ENST00000484161	retained_intron	KNOWN	None	16519	None	None	27041305	27042503	-1	None	RAB39, RAH
17	RAB34	ENSG00000109113	ENST00000422279	nonsense_mediated_decay	KNOWN	None	16519	516	171	27041309	27044411	-1	None	RAB39, RAH
17	RAB34	ENSG00000109113	ENST00000395242	protein_coding	NOVEL	None	16519	783	260	27041316	27044869	-1	None	RAB39, RAH
17	RAB34	ENSG00000109113	ENST00000474704	retained_intron	KNOWN	None	16519	None	None	27041317	27042736	-1	None	RAB39, RAH
17	RAB34	ENSG00000109113	ENST00000395245	protein_coding	KNOWN	CCDS11240	16519	780	259	27041332	27044911	-1	None	RAB39, RAH
17	RAB34	ENSG00000109113	ENST00000436730	protein_coding	KNOWN	CCDS11240	16519	780	259	27041643	27045179	-1	None	RAB39, RAH
17	RAB34	ENSG00000109113	ENST00000430132	protein_coding	NOVEL	None	16519	776	257	27041665	27045423	-1	None	RAB39, RAH
17	RAB34	ENSG00000109113	ENST00000583538	protein_coding	NOVEL	None	16519	467	154	27041691	27045185	-1	None	RAB39, RAH
17	RAB34	ENSG00000109113	ENST00000353676	protein_coding	KNOWN	None	16519	632	209	27041891	27045240	-1	None	RAB39, RAH
17	RAB34	ENSG00000109113	ENST00000412625	protein_coding	KNOWN	None	16519	632	209	27041891	27045447	-1	None	RAB39, RAH
17	RAB34	ENSG00000109113	ENST00000496866	retained_intron	KNOWN	None	16519	None	None	27041924	27042536	-1	None	RAB39, RAH
17	RAB34	ENSG00000109113	ENST00000419712	protein_coding	KNOWN	None	16519	448	148	27042278	27045185	-1	None	RAB39, RAH
17	RAB34	ENSG00000109113	ENST00000481501	retained_intron	KNOWN	None	16519	None	None	27042457	27043391	-1	None	RAB39, RAH
17	RAB34	ENSG00000109113	ENST00000580843	protein_coding	KNOWN	None	16519	155	50	27043071	27045185	-1	None	RAB39, RAH
17	RAB34	ENSG00000109113	ENST00000483554	retained_intron	KNOWN	None	16519	None	None	27043255	27044725	-1	None	RAB39, RAH
17	RAB34	ENSG00000109113	ENST00000482688	retained_intron	KNOWN	None	16519	None	None	27043774	27045185	-1	None	RAB39, RAH
17	RAB34	ENSG00000109113	ENST00000582934	retained_intron	KNOWN	None	16519	None	None	27043921	27045185	-1	None	RAB39, RAH
17	RAB34	ENSG00000109113	ENST00000447716	protein_coding	KNOWN	CCDS45635	16519	951	316	27041299	27045286	-1	None	RAB39, RAH
7	None	ENSG00000234418	ENST00000446053	lincRNA	KNOWN	None	None	None	None	121856401	121858491	1	None	None
6	PPP1R14C	ENSG00000198729	ENST00000361131	protein_coding	KNOWN	CCDS5226	14952	498	165	150464212	150571493	1	None	CPI17-like, NY-BR-81, KEPI
Y	None	ENSG00000215540	ENST00000448575	unprocessed_pseudogene	KNOWN	None	None	None	None	25683455	25693089	-1	None	None
11	OR7E12P	ENSG00000189398	ENST00000344740	processed_pseudogene	KNOWN	None	8383	None	None	3412010	3412982	-1	OR7E58P, OR7E79P	OR11-3
6	None	ENSG00000250264	ENST00000452392	protein_coding	NOVEL	None	None	2531	842	32781544	32806599	-1	None	None
HSCHR6_MHC_MCF	PPP1R2P1	ENSG00000233498	ENST00000425990	processed_transcript	KNOWN	None	9289	None	None	32880393	32881069	-1	PPP1R2P	IPP-2P
HSCHR6_MHC_MCF	PPP1R2P1	ENSG00000233498	ENST00000442377	transcribed_processed_pseudogene	KNOWN	None	9289	None	None	32880438	32881054	-1	PPP1R2P	IPP-2P
HSCHR6_MHC_MCF	PPP1R2P1	ENSG00000233498	ENST00000549353	pseudogene	KNOWN	None	9289	None	None	32880438	32881054	-1	PPP1R2P	IPP-2P
6	None	ENSG00000203688	ENST00000400831	lincRNA	KNOWN	None	None	None	None	168080306	168084467	-1	None	None
11	FAM86GP	ENSG00000166492	ENST00000448322	unprocessed_pseudogene	KNOWN	None	42358	None	None	3431582	3443726	-1	None	None
4	SLC39A8	ENSG00000138821	ENST00000424970	protein_coding	KNOWN	CCDS47117	20862	1335	444	103172198	103266362	-1	None	BIGM103
4	SLC39A8	ENSG00000138821	ENST00000394833	protein_coding	KNOWN	CCDS3656	20862	1383	460	103182823	103266296	-1	None	BIGM103
4	SLC39A8	ENSG00000138821	ENST00000356736	protein_coding	KNOWN	CCDS3656	20862	1383	460	103182823	103266631	-1	None	BIGM103
4	SLC39A8	ENSG00000138821	ENST00000512337	processed_transcript	KNOWN	None	20862	None	None	103190873	103225645	-1	None	BIGM103
4	SLC39A8	ENSG00000138821	ENST00000510255	processed_transcript	KNOWN	None	20862	None	None	103225564	103274157	-1	None	BIGM103
4	SLC39A8	ENSG00000138821	ENST00000514000	processed_transcript	KNOWN	None	20862	None	None	103225605	103266594	-1	None	BIGM103
4	SLC39A8	ENSG00000138821	ENST00000512657	processed_transcript	KNOWN	None	20862	None	None	103226182	103266639	-1	None	BIGM103
4	SLC39A8	ENSG00000138821	ENST00000502903	processed_transcript	KNOWN	None	20862	None	None	103228714	103352415	-1	None	BIGM103
HSCHR6_MHC_MCF	HLA-Z	ENSG00000226691	ENST00000448910	unprocessed_pseudogene	KNOWN	None	19394	None	None	32897630	32897704	1	None	HLA-Z1
1	SUCO	ENSG00000094975	ENST00000367723	protein_coding	KNOWN	None	1240	4221	1406	172501489	172580971	1	C1orf9	CH1, SLP1, OPT
1	SUCO	ENSG00000094975	ENST00000263688	protein_coding	KNOWN	CCDS1303	1240	3765	1254	172502357	172580971	1	C1orf9	CH1, SLP1, OPT
1	SUCO	ENSG00000094975	ENST00000486569	processed_transcript	KNOWN	None	1240	None	None	172571289	172572345	1	C1orf9	CH1, SLP1, OPT
10	RN7SKP78	ENSG00000201581	ENST00000364711	misc_RNA	KNOWN	None	45802	None	None	6191586	6191903	1	None	None
7	None	ENSG00000213302	ENST00000441577	processed_pseudogene	KNOWN	None	None	None	None	121874585	121874957	1	None	None
HSCHR6_MHC_MCF	None	ENSG00000264789	ENST00000581244	miRNA	NOVEL	None	None	None	None	32938147	32938241	-1	None	None
10	MIR3155A	ENSG00000263628	ENST00000577482	miRNA	KNOWN	None	38245	None	None	6194159	6194240	1	MIR3155	hsa-mir-3155
10	None	ENSG00000213994	ENST00000427630	antisense	KNOWN	None	None	None	None	6239575	6244656	-1	None	None
4	None	ENSG00000248716	ENST00000508637	processed_pseudogene	KNOWN	None	None	None	None	115025094	115025381	1	None	None
10	None	ENSG00000238366	ENST00000459607	misc_RNA	NOVEL	None	None	None	None	6287694	6287794	-1	None	None
1	SEPN1	ENSG00000162430	ENST00000361547	protein_coding	KNOWN	CCDS41282	15999	1773	590	26126667	26144713	1	RSMD1, MDRS1	selN, RSS
1	SEPN1	ENSG00000162430	ENST00000374315	protein_coding	KNOWN	CCDS41283	15999	1671	556	26126684	26144712	1	RSMD1, MDRS1	selN, RSS
1	SEPN1	ENSG00000162430	ENST00000494537	processed_transcript	KNOWN	None	15999	None	None	26139219	26142481	1	RSMD1, MDRS1	selN, RSS
1	SEPN1	ENSG00000162430	ENST00000354177	protein_coding	KNOWN	None	15999	1671	556	26126667	26144713	1	RSMD1, MDRS1	selN, RSS
7	SNX8	ENSG00000106266	ENST00000222990	protein_coding	KNOWN	CCDS5331	14972	1398	465	2291405	2354099	-1	None	Mvp1
7	SNX8	ENSG00000106266	ENST00000480807	retained_intron	KNOWN	None	14972	None	None	2294675	2297253	-1	None	Mvp1
7	SNX8	ENSG00000106266	ENST00000479689	retained_intron	KNOWN	None	14972	None	None	2297301	2311531	-1	None	Mvp1
7	SNX8	ENSG00000106266	ENST00000435060	protein_coding	PUTATIVE	None	14972	672	223	2304001	2349581	-1	None	Mvp1
7	SNX8	ENSG00000106266	ENST00000457286	protein_coding	KNOWN	None	14972	528	175	2304028	2339072	-1	None	Mvp1
7	SNX8	ENSG00000106266	ENST00000435336	protein_coding	PUTATIVE	None	14972	481	159	2304075	2393944	-1	None	Mvp1
7	SNX8	ENSG00000106266	ENST00000494722	retained_intron	KNOWN	None	14972	None	None	2314595	2354076	-1	None	Mvp1
7	SNX8	ENSG00000106266	ENST00000447136	protein_coding	PUTATIVE	None	14972	255	84	2314751	2393953	-1	None	Mvp1
7	SNX8	ENSG00000106266	ENST00000419693	protein_coding	KNOWN	None	14972	127	41	2317749	2347585	-1	None	Mvp1
19	ZNF530	ENSG00000183647	ENST00000597700	protein_coding	PUTATIVE	None	29297	98	31	58111253	58117090	1	None	KIAA1508
19	ZNF530	ENSG00000183647	ENST00000332854	protein_coding	KNOWN	CCDS12955	29297	1800	599	58111253	58119635	1	None	KIAA1508
19	ZNF530	ENSG00000183647	ENST00000600619	nonsense_mediated_decay	KNOWN	CCDS12955	29297	1800	599	58111253	58124090	1	None	KIAA1508
19	ZNF530	ENSG00000183647	ENST00000597864	protein_coding	PUTATIVE	None	29297	87	28	58111271	58124090	1	None	KIAA1508
19	ZNF530	ENSG00000183647	ENST00000598297	retained_intron	KNOWN	None	29297	None	None	58116023	58120389	1	None	KIAA1508
HSCHR6_MHC_DBB	PPP1R18	ENSG00000234000	ENST00000477065	processed_transcript	KNOWN	None	29413	None	None	30634431	30645200	-1	KIAA1949	phostensin
HSCHR6_MHC_DBB	PPP1R18	ENSG00000234000	ENST00000493833	processed_transcript	KNOWN	None	29413	None	None	30634431	30645235	-1	KIAA1949	phostensin
HSCHR6_MHC_DBB	PPP1R18	ENSG00000234000	ENST00000438945	protein_coding	KNOWN	None	29413	1842	613	30634431	30645258	-1	KIAA1949	phostensin
HSCHR6_MHC_DBB	PPP1R18	ENSG00000234000	ENST00000455935	protein_coding	KNOWN	None	29413	1842	613	30634431	30645937	-1	KIAA1949	phostensin
HSCHR6_MHC_DBB	PPP1R18	ENSG00000234000	ENST00000551049	protein_coding	KNOWN	None	29413	1134	377	30635100	30644060	-1	KIAA1949	phostensin
6	CENPQ	ENSG00000031691	ENST00000335783	protein_coding	KNOWN	CCDS4925	21347	807	268	49431091	49460820	1	C6orf139	FLJ10545, CENP-Q
17	PELP1	ENSG00000141456	ENST00000574876	protein_coding	KNOWN	CCDS58503	30134	3393	1130	4574679	4607424	-1	None	MNAR
17	PELP1	ENSG00000141456	ENST00000572293	protein_coding	PUTATIVE	None	30134	3543	1180	4574680	4607620	-1	None	MNAR
17	PELP1	ENSG00000141456	ENST00000573523	retained_intron	KNOWN	None	30134	None	None	4574683	4607406	-1	None	MNAR
17	PELP1	ENSG00000141456	ENST00000575329	nonsense_mediated_decay	KNOWN	None	30134	456	151	4574711	4607419	-1	None	MNAR
17	PELP1	ENSG00000141456	ENST00000573242	retained_intron	KNOWN	None	30134	None	None	4576153	4576830	-1	None	MNAR
17	PELP1	ENSG00000141456	ENST00000575534	retained_intron	KNOWN	None	30134	None	None	4577952	4578813	-1	None	MNAR
17	PELP1	ENSG00000141456	ENST00000570571	protein_coding	NOVEL	None	30134	902	299	4578609	4607335	-1	None	MNAR
17	PELP1	ENSG00000141456	ENST00000573506	retained_intron	KNOWN	None	30134	None	None	4578974	4579539	-1	None	MNAR
17	PELP1	ENSG00000141456	ENST00000570387	protein_coding	PUTATIVE	None	30134	299	98	4579765	4595120	-1	None	MNAR
17	PELP1	ENSG00000141456	ENST00000575101	protein_coding	NOVEL	None	30134	442	146	4580081	4607401	-1	None	MNAR
17	PELP1	ENSG00000141456	ENST00000571170	retained_intron	KNOWN	None	30134	None	None	4586020	4594509	-1	None	MNAR
17	PELP1	ENSG00000141456	ENST00000570823	processed_transcript	KNOWN	None	30134	None	None	4586329	4607424	-1	None	MNAR
17	PELP1	ENSG00000141456	ENST00000571347	retained_intron	KNOWN	None	30134	None	None	4594297	4607424	-1	None	MNAR
17	PELP1	ENSG00000141456	ENST00000301396	protein_coding	KNOWN	None	30134	3825	1274	4574680	4607632	-1	None	MNAR
17	PELP1	ENSG00000141456	ENST00000269230	protein_coding	KNOWN	None	30134	3123	1040	4574680	4607632	-1	None	MNAR
17	PELP1	ENSG00000141456	ENST00000436683	protein_coding	KNOWN	None	30134	2721	906	4574711	4607419	-1	None	MNAR
13	FREM2	ENSG00000150893	ENST00000280481	protein_coding	KNOWN	CCDS31960	25396	9510	3169	39261266	39460074	1	None	DKFZp686J0811
13	FREM2	ENSG00000150893	ENST00000482551	processed_transcript	KNOWN	None	25396	None	None	39395833	39424372	1	None	DKFZp686J0811
17	PSMB3	ENSG00000108294	ENST00000225426	protein_coding	KNOWN	CCDS11328	9540	618	205	36908989	36920484	1	None	HC10-II, MGC4147
17	PSMB3	ENSG00000108294	ENST00000579088	protein_coding	KNOWN	None	9540	437	144	36909000	36916833	1	None	HC10-II, MGC4147
17	PSMB3	ENSG00000108294	ENST00000584662	nonsense_mediated_decay	KNOWN	None	9540	324	107	36909017	36920478	1	None	HC10-II, MGC4147
17	PSMB3	ENSG00000108294	ENST00000579729	nonsense_mediated_decay	KNOWN	None	9540	339	112	36909026	36920478	1	None	HC10-II, MGC4147
17	PSMB3	ENSG00000108294	ENST00000581388	retained_intron	KNOWN	None	9540	None	None	36916638	36920478	1	None	HC10-II, MGC4147
17	PSMB3	ENSG00000108294	ENST00000583873	retained_intron	KNOWN	None	9540	None	None	36918304	36920478	1	None	HC10-II, MGC4147
2	SMPD4	ENSG00000136699	ENST00000454468	nonsense_mediated_decay	KNOWN	None	32949	153	50	130908981	130939152	-1	None	FLJ20297, FLJ20756, nSMase-3, KIAA1418, NSMASE3, NET13
2	SMPD4	ENSG00000136699	ENST00000412570	nonsense_mediated_decay	KNOWN	None	32949	174	57	130908981	130939166	-1	None	FLJ20297, FLJ20756, nSMase-3, KIAA1418, NSMASE3, NET13
2	SMPD4	ENSG00000136699	ENST00000433118	nonsense_mediated_decay	KNOWN	None	32949	171	56	130908981	130939172	-1	None	FLJ20297, FLJ20756, nSMase-3, KIAA1418, NSMASE3, NET13
2	SMPD4	ENSG00000136699	ENST00000351288	protein_coding	KNOWN	CCDS2156	32949	2514	837	130908981	130939174	-1	None	FLJ20297, FLJ20756, nSMase-3, KIAA1418, NSMASE3, NET13
2	SMPD4	ENSG00000136699	ENST00000491128	retained_intron	KNOWN	None	32949	None	None	130908982	130913836	-1	None	FLJ20297, FLJ20756, nSMase-3, KIAA1418, NSMASE3, NET13
2	SMPD4	ENSG00000136699	ENST00000482171	retained_intron	KNOWN	None	32949	None	None	130908982	130915526	-1	None	FLJ20297, FLJ20756, nSMase-3, KIAA1418, NSMASE3, NET13
2	SMPD4	ENSG00000136699	ENST00000439886	protein_coding	NOVEL	None	32949	2225	740	130908982	130930416	-1	None	FLJ20297, FLJ20756, nSMase-3, KIAA1418, NSMASE3, NET13
2	SMPD4	ENSG00000136699	ENST00000409031	protein_coding	KNOWN	CCDS42751	32949	2601	866	130908982	130940323	-1	None	FLJ20297, FLJ20756, nSMase-3, KIAA1418, NSMASE3, NET13
2	SMPD4	ENSG00000136699	ENST00000457039	protein_coding	PUTATIVE	None	32949	940	312	130910319	130914828	-1	None	FLJ20297, FLJ20756, nSMase-3, KIAA1418, NSMASE3, NET13
2	SMPD4	ENSG00000136699	ENST00000491319	retained_intron	KNOWN	None	32949	None	None	130910683	130911673	-1	None	FLJ20297, FLJ20756, nSMase-3, KIAA1418, NSMASE3, NET13
2	SMPD4	ENSG00000136699	ENST00000449159	protein_coding	PUTATIVE	None	32949	635	210	130910929	130913621	-1	None	FLJ20297, FLJ20756, nSMase-3, KIAA1418, NSMASE3, NET13
2	SMPD4	ENSG00000136699	ENST00000461187	retained_intron	KNOWN	None	32949	None	None	130911667	130913713	-1	None	FLJ20297, FLJ20756, nSMase-3, KIAA1418, NSMASE3, NET13
2	SMPD4	ENSG00000136699	ENST00000430682	protein_coding	PUTATIVE	None	32949	820	272	130911850	130930065	-1	None	FLJ20297, FLJ20756, nSMase-3, KIAA1418, NSMASE3, NET13
2	SMPD4	ENSG00000136699	ENST00000451542	protein_coding	PUTATIVE	None	32949	796	264	130912669	130930028	-1	None	FLJ20297, FLJ20756, nSMase-3, KIAA1418, NSMASE3, NET13
2	SMPD4	ENSG00000136699	ENST00000435455	nonsense_mediated_decay	KNOWN	None	32949	267	88	130912669	130930229	-1	None	FLJ20297, FLJ20756, nSMase-3, KIAA1418, NSMASE3, NET13
2	SMPD4	ENSG00000136699	ENST00000473720	processed_transcript	KNOWN	None	32949	None	None	130913600	130939168	-1	None	FLJ20297, FLJ20756, nSMase-3, KIAA1418, NSMASE3, NET13
2	SMPD4	ENSG00000136699	ENST00000455548	processed_transcript	PUTATIVE	None	32949	None	None	130913619	130915189	-1	None	FLJ20297, FLJ20756, nSMase-3, KIAA1418, NSMASE3, NET13
2	SMPD4	ENSG00000136699	ENST00000439029	nonsense_mediated_decay	KNOWN	None	32949	171	56	130914934	130939169	-1	None	FLJ20297, FLJ20756, nSMase-3, KIAA1418, NSMASE3, NET13
2	SMPD4	ENSG00000136699	ENST00000441135	protein_coding	PUTATIVE	None	32949	407	134	130930407	130939115	-1	None	FLJ20297, FLJ20756, nSMase-3, KIAA1418, NSMASE3, NET13
2	SMPD4	ENSG00000136699	ENST00000431183	protein_coding	KNOWN	CCDS54398	32949	2295	764	130908982	130940323	-1	None	FLJ20297, FLJ20756, nSMase-3, KIAA1418, NSMASE3, NET13
2	SMPD4	ENSG00000136699	ENST00000453750	protein_coding	KNOWN	None	32949	1848	615	130908982	130939174	-1	None	FLJ20297, FLJ20756, nSMase-3, KIAA1418, NSMASE3, NET13
2	SMPD4	ENSG00000136699	ENST00000339679	protein_coding	KNOWN	None	32949	2175	724	130909835	130939166	-1	None	FLJ20297, FLJ20756, nSMase-3, KIAA1418, NSMASE3, NET13
2	SMPD4	ENSG00000136699	ENST00000452225	protein_coding	KNOWN	None	32949	1824	607	130909849	130939174	-1	None	FLJ20297, FLJ20756, nSMase-3, KIAA1418, NSMASE3, NET13
2	SMPD4	ENSG00000136699	ENST00000426662	protein_coding	KNOWN	None	32949	1509	502	130910009	130939168	-1	None	FLJ20297, FLJ20756, nSMase-3, KIAA1418, NSMASE3, NET13
2	SMPD4	ENSG00000136699	ENST00000443958	protein_coding	KNOWN	None	32949	1593	530	130909667	130939169	-1	None	FLJ20297, FLJ20756, nSMase-3, KIAA1418, NSMASE3, NET13
3	COL7A1	ENSG00000114270	ENST00000470076	processed_transcript	KNOWN	None	2214	None	None	48601506	48602425	-1	EBDCT, EBD1, EBR1	None
3	COL7A1	ENSG00000114270	ENST00000465238	retained_intron	KNOWN	None	2214	None	None	48601506	48602452	-1	EBDCT, EBD1, EBR1	None
3	COL7A1	ENSG00000114270	ENST00000487017	retained_intron	KNOWN	None	2214	None	None	48601506	48621953	-1	EBDCT, EBD1, EBR1	None
3	COL7A1	ENSG00000114270	ENST00000328333	protein_coding	KNOWN	CCDS2773	2214	8835	2944	48601506	48632700	-1	EBDCT, EBD1, EBR1	None
3	COL7A1	ENSG00000114270	ENST00000466591	retained_intron	KNOWN	None	2214	None	None	48601507	48602772	-1	EBDCT, EBD1, EBR1	None
3	COL7A1	ENSG00000114270	ENST00000474432	retained_intron	KNOWN	None	2214	None	None	48603973	48604796	-1	EBDCT, EBD1, EBR1	None
3	COL7A1	ENSG00000114270	ENST00000459756	retained_intron	KNOWN	None	2214	None	None	48605131	48607874	-1	EBDCT, EBD1, EBR1	None
3	COL7A1	ENSG00000114270	ENST00000467985	retained_intron	KNOWN	None	2214	None	None	48605597	48608315	-1	EBDCT, EBD1, EBR1	None
3	COL7A1	ENSG00000114270	ENST00000422991	protein_coding	PUTATIVE	None	2214	519	172	48607191	48609059	-1	EBDCT, EBD1, EBR1	None
3	COL7A1	ENSG00000114270	ENST00000462475	retained_intron	KNOWN	None	2214	None	None	48608327	48608763	-1	EBDCT, EBD1, EBR1	None
3	COL7A1	ENSG00000114270	ENST00000454817	protein_coding	KNOWN	None	2214	8739	2912	48601506	48632593	-1	EBDCT, EBD1, EBR1	None
X	SSX2B	ENSG00000157950	ENST00000375515	protein_coding	KNOWN	CCDS48129	22263	567	188	52780318	52790617	1	None	CT5.2b
X	SSX2B	ENSG00000157950	ENST00000276049	protein_coding	KNOWN	None	22263	672	223	52780346	52790617	1	None	CT5.2b
X	SSX2B	ENSG00000157950	ENST00000288839	processed_transcript	KNOWN	None	22263	None	None	52784779	52787066	1	None	CT5.2b
6	None	ENSG00000213065	ENST00000392115	processed_pseudogene	KNOWN	None	None	None	None	168167763	168169248	-1	None	None
22	FAM109B	ENSG00000177096	ENST00000321753	protein_coding	KNOWN	CCDS33655	27161	780	259	42470255	42475445	1	None	DKFZp686J07229
22	FAM109B	ENSG00000177096	ENST00000419475	protein_coding	KNOWN	None	27161	325	107	42470361	42473622	1	None	DKFZp686J07229
13	CDK8	ENSG00000132964	ENST00000381527	protein_coding	KNOWN	CCDS9317	1779	1395	464	26828276	26979375	1	None	K35
13	CDK8	ENSG00000132964	ENST00000477290	processed_transcript	KNOWN	None	1779	None	None	26911704	26974652	1	None	K35
13	CDK8	ENSG00000132964	ENST00000465820	processed_transcript	KNOWN	None	1779	None	None	26959348	26975736	1	None	K35
13	CDK8	ENSG00000132964	ENST00000477277	processed_transcript	KNOWN	None	1779	None	None	26970354	26979315	1	None	K35
13	CDK8	ENSG00000132964	ENST00000480323	processed_transcript	KNOWN	None	1779	None	None	26974210	26979375	1	None	K35
13	CDK8	ENSG00000132964	ENST00000536792	protein_coding	KNOWN	None	1779	495	164	26828779	26978218	1	None	K35
13	KLF12	ENSG00000118922	ENST00000377669	protein_coding	KNOWN	CCDS9449	6346	1209	402	74260226	74569186	-1	None	AP-2rep, HSPC122, AP2REP
13	KLF12	ENSG00000118922	ENST00000472022	processed_transcript	KNOWN	None	6346	None	None	74387010	74569193	-1	None	AP-2rep, HSPC122, AP2REP
13	KLF12	ENSG00000118922	ENST00000377666	protein_coding	KNOWN	CCDS9449	6346	1209	402	74269536	74708394	-1	None	AP-2rep, HSPC122, AP2REP
6	MLLT4-AS1	ENSG00000198221	ENST00000359760	processed_transcript	KNOWN	None	21236	None	None	168224556	168227389	-1	C6orf124	HGC6.4, dJ431P23.3
6	MLLT4-AS1	ENSG00000198221	ENST00000425438	processed_transcript	KNOWN	None	21236	None	None	168224790	168225454	-1	C6orf124	HGC6.4, dJ431P23.3
6	MLLT4-AS1	ENSG00000198221	ENST00000417244	processed_transcript	KNOWN	None	21236	None	None	168225709	168226140	-1	C6orf124	HGC6.4, dJ431P23.3
6	MLLT4-AS1	ENSG00000198221	ENST00000414943	processed_transcript	KNOWN	None	21236	None	None	168226371	168227135	-1	C6orf124	HGC6.4, dJ431P23.3
17	RASD1	ENSG00000108551	ENST00000225688	protein_coding	KNOWN	CCDS11185	15828	846	281	17397751	17399707	-1	None	DEXRAS1, AGS1
17	RASD1	ENSG00000108551	ENST00000579152	protein_coding	NOVEL	CCDS58519	15828	369	122	17398021	17399709	-1	None	DEXRAS1, AGS1
19	None	ENSG00000269553	ENST00000597110	sense_intronic	KNOWN	None	None	None	None	35821746	35822823	1	None	None
19	MIR5196	ENSG00000263397	ENST00000578146	miRNA	KNOWN	None	43542	None	None	35836416	35836530	1	None	hsa-mir-5196
1	FBXO6	ENSG00000116663	ENST00000376753	protein_coding	KNOWN	CCDS133	13585	882	293	11724181	11734411	1	None	FBX6, FBG2, FBS2, Fbx6b
1	FBXO6	ENSG00000116663	ENST00000474239	retained_intron	KNOWN	None	13585	None	None	11724543	11732121	1	None	FBX6, FBG2, FBS2, Fbx6b
1	FBXO6	ENSG00000116663	ENST00000449067	protein_coding	KNOWN	None	13585	749	248	11728753	11734087	1	None	FBX6, FBG2, FBS2, Fbx6b
19	EEF1A1P7	ENSG00000268222	ENST00000596811	processed_pseudogene	KNOWN	None	3202	None	None	35873074	35874954	1	EEF1AL5	None
6	None	ENSG00000266556	ENST00000577460	miRNA	NOVEL	None	None	None	None	130755410	130755498	1	None	None
6	None	ENSG00000202438	ENST00000365568	misc_RNA	NOVEL	None	None	None	None	130895141	130895257	-1	None	None
12	CD9	ENSG00000010278	ENST00000382518	protein_coding	NOVEL	CCDS8540	1709	687	228	6308881	6347425	1	MIC3	BA2, P24, TSPAN29, MRP-1
12	CD9	ENSG00000010278	ENST00000543916	processed_transcript	PUTATIVE	None	1709	None	None	6309010	6342428	1	MIC3	BA2, P24, TSPAN29, MRP-1
12	CD9	ENSG00000010278	ENST00000536586	protein_coding	PUTATIVE	None	1709	425	140	6309041	6344471	1	MIC3	BA2, P24, TSPAN29, MRP-1
12	CD9	ENSG00000010278	ENST00000382519	protein_coding	PUTATIVE	None	1709	685	227	6309551	6345436	1	MIC3	BA2, P24, TSPAN29, MRP-1
12	CD9	ENSG00000010278	ENST00000546073	processed_transcript	PUTATIVE	None	1709	None	None	6309566	6342594	1	MIC3	BA2, P24, TSPAN29, MRP-1
12	CD9	ENSG00000010278	ENST00000538834	processed_transcript	KNOWN	None	1709	None	None	6309578	6342654	1	MIC3	BA2, P24, TSPAN29, MRP-1
12	CD9	ENSG00000010278	ENST00000538418	processed_transcript	PUTATIVE	None	1709	None	None	6309602	6334902	1	MIC3	BA2, P24, TSPAN29, MRP-1
12	CD9	ENSG00000010278	ENST00000009180	protein_coding	KNOWN	CCDS8540	1709	687	228	6309615	6347425	1	MIC3	BA2, P24, TSPAN29, MRP-1
12	CD9	ENSG00000010278	ENST00000382515	protein_coding	PUTATIVE	None	1709	480	159	6309963	6347425	1	MIC3	BA2, P24, TSPAN29, MRP-1
12	CD9	ENSG00000010278	ENST00000481267	processed_transcript	KNOWN	None	1709	None	None	6334152	6347425	1	MIC3	BA2, P24, TSPAN29, MRP-1
12	CD9	ENSG00000010278	ENST00000540891	processed_transcript	KNOWN	None	1709	None	None	6341352	6345428	1	MIC3	BA2, P24, TSPAN29, MRP-1
9	GRIN1	ENSG00000176884	ENST00000371561	protein_coding	KNOWN	CCDS7031	4584	2817	938	140032842	140063207	1	NMDAR1	GluN1
9	GRIN1	ENSG00000176884	ENST00000471122	processed_transcript	KNOWN	None	4584	None	None	140033627	140059874	1	NMDAR1	GluN1
9	GRIN1	ENSG00000176884	ENST00000350902	protein_coding	NOVEL	None	4584	2730	909	140033862	140059874	1	NMDAR1	GluN1
9	GRIN1	ENSG00000176884	ENST00000371550	protein_coding	PUTATIVE	CCDS7032	4584	2706	901	140033933	140063207	1	NMDAR1	GluN1
9	GRIN1	ENSG00000176884	ENST00000371546	protein_coding	PUTATIVE	None	4584	2880	959	140033933	140063207	1	NMDAR1	GluN1
9	GRIN1	ENSG00000176884	ENST00000371555	protein_coding	PUTATIVE	None	4584	2769	922	140033933	140063207	1	NMDAR1	GluN1
9	GRIN1	ENSG00000176884	ENST00000371553	protein_coding	PUTATIVE	CCDS55354	4584	2832	943	140033933	140063207	1	NMDAR1	GluN1
9	GRIN1	ENSG00000176884	ENST00000371559	protein_coding	PUTATIVE	CCDS43910	4584	2658	885	140033933	140063207	1	NMDAR1	GluN1
9	GRIN1	ENSG00000176884	ENST00000371560	protein_coding	NOVEL	CCDS55355	4584	2721	906	140033933	140063207	1	NMDAR1	GluN1
9	GRIN1	ENSG00000176884	ENST00000485413	processed_transcript	KNOWN	None	4584	None	None	140051428	140053169	1	NMDAR1	GluN1
9	GRIN1	ENSG00000176884	ENST00000460273	processed_transcript	KNOWN	None	4584	None	None	140057158	140058590	1	NMDAR1	GluN1
9	GRIN1	ENSG00000176884	ENST00000473811	processed_transcript	KNOWN	None	4584	None	None	140059569	140061986	1	NMDAR1	GluN1
9	GRIN1	ENSG00000176884	ENST00000462584	processed_transcript	KNOWN	None	4584	None	None	140062375	140063207	1	NMDAR1	GluN1
9	GRIN1	ENSG00000176884	ENST00000315048	protein_coding	KNOWN	None	4584	2769	922	140032842	140063207	1	NMDAR1	GluN1
6	None	ENSG00000229923	ENST00000454262	lincRNA	KNOWN	None	None	None	None	131018457	131018923	1	None	None
10	SDCBPP1	ENSG00000226705	ENST00000440192	processed_pseudogene	KNOWN	None	44684	None	None	6335063	6336647	-1	None	None
19	None	ENSG00000205786	ENST00000602468	lincRNA	KNOWN	None	None	None	None	35890413	35900502	1	None	None
19	None	ENSG00000205786	ENST00000601669	lincRNA	KNOWN	None	None	None	None	35890433	35910272	1	None	None
19	None	ENSG00000205786	ENST00000441942	lincRNA	KNOWN	None	None	None	None	35890450	35900395	1	None	None
19	None	ENSG00000205786	ENST00000602653	lincRNA	KNOWN	None	None	None	None	35890483	35902184	1	None	None
19	None	ENSG00000205786	ENST00000602796	lincRNA	KNOWN	None	None	None	None	35890484	35906443	1	None	None
19	None	ENSG00000205786	ENST00000536898	lincRNA	KNOWN	None	None	None	None	35896509	35907742	1	None	None
19	None	ENSG00000205786	ENST00000600405	lincRNA	KNOWN	None	None	None	None	35899727	35910287	1	None	None
3	TM4SF4	ENSG00000169903	ENST00000305354	protein_coding	KNOWN	CCDS46932	11856	609	202	149191761	149221068	1	None	il-TMP
3	TM4SF4	ENSG00000169903	ENST00000465758	protein_coding	NOVEL	None	11856	243	80	149192486	149205474	1	None	il-TMP
3	TM4SF4	ENSG00000169903	ENST00000463068	retained_intron	KNOWN	None	11856	None	None	149193571	149216698	1	None	il-TMP
19	ZNF134	ENSG00000213762	ENST00000597975	processed_transcript	KNOWN	None	12918	None	None	58125601	58131815	1	None	pHZ-15
19	ZNF134	ENSG00000213762	ENST00000600344	protein_coding	PUTATIVE	None	12918	141	46	58125606	58130996	1	None	pHZ-15
19	ZNF134	ENSG00000213762	ENST00000396161	protein_coding	KNOWN	CCDS42638	12918	1284	427	58125619	58134724	1	None	pHZ-15
19	ZNF134	ENSG00000213762	ENST00000600883	protein_coding	KNOWN	None	12918	199	65	58125624	58131686	1	None	pHZ-15
19	SLC27A1	ENSG00000130304	ENST00000600277	nonsense_mediated_decay	KNOWN	None	10995	675	224	17579578	17608123	1	None	FATP1, FATP, MGC71751, FLJ00336, ACSVL5
19	SLC27A1	ENSG00000130304	ENST00000252595	protein_coding	KNOWN	CCDS32953	10995	1941	646	17581253	17616977	1	None	FATP1, FATP, MGC71751, FLJ00336, ACSVL5
19	SLC27A1	ENSG00000130304	ENST00000598424	protein_coding	PUTATIVE	None	10995	1404	467	17581298	17615795	1	None	FATP1, FATP, MGC71751, FLJ00336, ACSVL5
19	SLC27A1	ENSG00000130304	ENST00000599380	nonsense_mediated_decay	KNOWN	None	10995	291	96	17581337	17610207	1	None	FATP1, FATP, MGC71751, FLJ00336, ACSVL5
19	SLC27A1	ENSG00000130304	ENST00000600297	nonsense_mediated_decay	KNOWN	None	10995	675	224	17581347	17599874	1	None	FATP1, FATP, MGC71751, FLJ00336, ACSVL5
19	SLC27A1	ENSG00000130304	ENST00000593701	retained_intron	KNOWN	None	10995	None	None	17599569	17611364	1	None	FATP1, FATP, MGC71751, FLJ00336, ACSVL5
19	SLC27A1	ENSG00000130304	ENST00000594962	retained_intron	KNOWN	None	10995	None	None	17606224	17616977	1	None	FATP1, FATP, MGC71751, FLJ00336, ACSVL5
19	SLC27A1	ENSG00000130304	ENST00000598848	processed_transcript	KNOWN	None	10995	None	None	17610679	17615410	1	None	FATP1, FATP, MGC71751, FLJ00336, ACSVL5
19	SLC27A1	ENSG00000130304	ENST00000599965	protein_coding	NOVEL	None	10995	500	165	17611175	17615709	1	None	FATP1, FATP, MGC71751, FLJ00336, ACSVL5
19	SLC27A1	ENSG00000130304	ENST00000442725	protein_coding	KNOWN	CCDS32953	10995	1941	646	17579578	17615421	1	None	FATP1, FATP, MGC71751, FLJ00336, ACSVL5
17	PSMD11	ENSG00000108671	ENST00000261712	protein_coding	KNOWN	CCDS11272	9556	1269	422	30771279	30810336	1	None	S9, p44.5, MGC3844, Rpn6
17	PSMD11	ENSG00000108671	ENST00000578213	protein_coding	PUTATIVE	None	9556	137	44	30771397	30791579	1	None	S9, p44.5, MGC3844, Rpn6
17	PSMD11	ENSG00000108671	ENST00000457654	protein_coding	KNOWN	CCDS11272	9556	1269	422	30771492	30808489	1	None	S9, p44.5, MGC3844, Rpn6
17	PSMD11	ENSG00000108671	ENST00000578397	retained_intron	KNOWN	None	9556	None	None	30771522	30804847	1	None	S9, p44.5, MGC3844, Rpn6
17	PSMD11	ENSG00000108671	ENST00000579451	protein_coding	NOVEL	None	9556	563	186	30771523	30791585	1	None	S9, p44.5, MGC3844, Rpn6
17	PSMD11	ENSG00000108671	ENST00000481992	retained_intron	KNOWN	None	9556	None	None	30771530	30774351	1	None	S9, p44.5, MGC3844, Rpn6
17	PSMD11	ENSG00000108671	ENST00000580904	protein_coding	PUTATIVE	None	9556	16	4	30772685	30781629	1	None	S9, p44.5, MGC3844, Rpn6
17	PSMD11	ENSG00000108671	ENST00000584340	nonsense_mediated_decay	KNOWN	None	9556	271	89	30796090	30806300	1	None	S9, p44.5, MGC3844, Rpn6
17	PSMD11	ENSG00000108671	ENST00000493026	retained_intron	KNOWN	None	9556	None	None	30803698	30808042	1	None	S9, p44.5, MGC3844, Rpn6
17	PSMD11	ENSG00000108671	ENST00000469475	retained_intron	KNOWN	None	9556	None	None	30807096	30807980	1	None	S9, p44.5, MGC3844, Rpn6
17	PSMD11	ENSG00000108671	ENST00000585265	retained_intron	KNOWN	None	9556	None	None	30807210	30808000	1	None	S9, p44.5, MGC3844, Rpn6
20	SDC4	ENSG00000124145	ENST00000372733	protein_coding	KNOWN	CCDS13350	10661	597	198	43953928	43977064	-1	None	SYND4, amphiglycan, ryudocan
20	SDC4	ENSG00000124145	ENST00000537976	protein_coding	KNOWN	None	10661	381	126	43955116	43977064	-1	None	SYND4, amphiglycan, ryudocan
Y	None	ENSG00000197955	ENST00000458444	processed_transcript	KNOWN	None	None	None	None	25687556	25693043	-1	None	None
1	None	ENSG00000269175	ENST00000593496	protein_coding	KNOWN	None	None	372	123	101455761	101457653	1	None	None
13	KDELC1	ENSG00000134901	ENST00000376004	protein_coding	KNOWN	CCDS9504	19350	1509	502	103436631	103451357	-1	None	MGC5302, EP58
13	KDELC1	ENSG00000134901	ENST00000460338	processed_transcript	KNOWN	None	19350	None	None	103436634	103451264	-1	None	MGC5302, EP58
13	KDELC1	ENSG00000134901	ENST00000484943	processed_transcript	KNOWN	None	19350	None	None	103436637	103443628	-1	None	MGC5302, EP58
13	KDELC1	ENSG00000134901	ENST00000486540	processed_transcript	KNOWN	None	19350	None	None	103445503	103446028	-1	None	MGC5302, EP58
12	SMCO2	ENSG00000165935	ENST00000298876	protein_coding	NOVEL	None	34448	882	293	27619743	27655118	1	C12orf70	LOC341346
12	SMCO2	ENSG00000165935	ENST00000543991	retained_intron	KNOWN	None	34448	None	None	27623555	27626050	1	C12orf70	LOC341346
12	SMCO2	ENSG00000165935	ENST00000535986	protein_coding	KNOWN	CCDS44852	34448	1032	343	27623565	27655118	1	C12orf70	LOC341346
12	SMCO2	ENSG00000165935	ENST00000538647	processed_transcript	KNOWN	None	34448	None	None	27627829	27648731	1	C12orf70	LOC341346
12	SMCO2	ENSG00000165935	ENST00000541168	retained_intron	KNOWN	None	34448	None	None	27646769	27655080	1	C12orf70	LOC341346
12	SMCO2	ENSG00000165935	ENST00000416383	protein_coding	KNOWN	CCDS44852	34448	1032	343	27619743	27655118	1	C12orf70	LOC341346
Y	None	ENSG00000236647	ENST00000444014	unprocessed_pseudogene	KNOWN	None	None	None	None	25695956	25697532	1	None	None
10	OLAH	ENSG00000152463	ENST00000428897	protein_coding	KNOWN	None	25625	430	142	15074226	15107610	1	THEDC1	FLJ11106, SAST
10	OLAH	ENSG00000152463	ENST00000413672	protein_coding	KNOWN	None	25625	290	95	15074252	15098949	1	THEDC1	FLJ11106, SAST
10	OLAH	ENSG00000152463	ENST00000429028	protein_coding	KNOWN	None	25625	543	180	15080621	15107723	1	THEDC1	FLJ11106, SAST
10	OLAH	ENSG00000152463	ENST00000378228	protein_coding	KNOWN	CCDS31152	25625	798	265	15085895	15115851	1	THEDC1	FLJ11106, SAST
10	OLAH	ENSG00000152463	ENST00000378225	protein_coding	KNOWN	None	25625	414	137	15085926	15104083	1	THEDC1	FLJ11106, SAST
10	OLAH	ENSG00000152463	ENST00000378217	protein_coding	KNOWN	CCDS7106	25625	957	318	15085962	15115851	1	THEDC1	FLJ11106, SAST
10	OLAH	ENSG00000152463	ENST00000493912	processed_transcript	KNOWN	None	25625	None	None	15091722	15110069	1	THEDC1	FLJ11106, SAST
10	OLAH	ENSG00000152463	ENST00000485251	processed_transcript	KNOWN	None	25625	None	None	15107537	15115367	1	THEDC1	FLJ11106, SAST
10	SDHCP2	ENSG00000214549	ENST00000398565	processed_pseudogene	KNOWN	None	45177	None	None	93878421	93878921	1	None	None
Y	OFD1P10Y	ENSG00000225466	ENST00000434110	unprocessed_pseudogene	KNOWN	None	23882	None	None	25727742	25760787	1	OFDYP10, OFD1P10, OFD1PY10	None
10	EIF4A1P8	ENSG00000213484	ENST00000394444	processed_pseudogene	KNOWN	None	37927	None	None	93896632	93898127	1	None	None
1	S1PR1	ENSG00000170989	ENST00000305352	protein_coding	KNOWN	CCDS777	3165	1149	382	101702444	101707074	1	EDG1	edg-1, D1S3362, CD363
1	S1PR1	ENSG00000170989	ENST00000475821	processed_transcript	KNOWN	None	3165	None	None	101702483	101705075	1	EDG1	edg-1, D1S3362, CD363
1	S1PR1	ENSG00000170989	ENST00000475289	processed_transcript	KNOWN	None	3165	None	None	101703646	101704720	1	EDG1	edg-1, D1S3362, CD363
16	None	ENSG00000260944	ENST00000563280	antisense	KNOWN	None	None	None	None	86598751	86601367	-1	None	None
Y	HSFY6P	ENSG00000224169	ENST00000445573	unprocessed_pseudogene	KNOWN	None	38790	None	None	25803986	25805205	-1	None	None
20	None	ENSG00000203630	ENST00000537552	protein_coding	KNOWN	None	None	396	131	1316228	1317555	-1	None	None
10	None	ENSG00000264076	ENST00000583870	miRNA	NOVEL	None	None	None	None	93919329	93919429	1	None	None
10	None	ENSG00000221042	ENST00000408115	misc_RNA	NOVEL	None	None	None	None	93963986	93964063	-1	None	None
Y	USP9YP18	ENSG00000223407	ENST00000425912	unprocessed_pseudogene	KNOWN	None	38754	None	None	25805613	25813969	-1	None	None
10	NHP2P1	ENSG00000105988	ENST00000335274	processed_pseudogene	KNOWN	None	23582	None	None	93976089	93976550	1	NOLA2P1	bA360G10.4
2	GPR113	ENSG00000173567	ENST00000459892	processed_transcript	KNOWN	None	18989	None	None	26531041	26568670	-1	None	hGPCR37, PGR23
2	GPR113	ENSG00000173567	ENST00000435303	nonsense_mediated_decay	KNOWN	None	18989	363	120	26531044	26569611	-1	None	hGPCR37, PGR23
2	GPR113	ENSG00000173567	ENST00000333478	protein_coding	KNOWN	CCDS33159	18989	2622	873	26531263	26569685	-1	None	hGPCR37, PGR23
2	GPR113	ENSG00000173567	ENST00000447444	nonsense_mediated_decay	KNOWN	CCDS33159	18989	2622	873	26531380	26569685	-1	None	hGPCR37, PGR23
2	GPR113	ENSG00000173567	ENST00000421160	protein_coding	PUTATIVE	CCDS46238	18989	2994	997	26532084	26541970	-1	None	hGPCR37, PGR23
2	GPR113	ENSG00000173567	ENST00000311519	protein_coding	PUTATIVE	CCDS46239	18989	3240	1079	26532812	26541917	-1	None	hGPCR37, PGR23
2	GPR113	ENSG00000173567	ENST00000487878	processed_transcript	PUTATIVE	None	18989	None	None	26539112	26569178	-1	None	hGPCR37, PGR23
2	GPR113	ENSG00000173567	ENST00000433584	protein_coding	PUTATIVE	None	18989	263	86	26539842	26569636	-1	None	hGPCR37, PGR23
2	GPR113	ENSG00000173567	ENST00000481960	processed_transcript	KNOWN	None	18989	None	None	26563233	26568682	-1	None	hGPCR37, PGR23
2	GPR113	ENSG00000173567	ENST00000541401	protein_coding	KNOWN	None	18989	2028	675	26531044	26569611	-1	None	hGPCR37, PGR23
10	None	ENSG00000199881	ENST00000363011	misc_RNA	NOVEL	None	None	None	None	94031904	94032007	-1	None	None
9	None	ENSG00000233242	ENST00000426946	antisense	KNOWN	None	None	None	None	37112545	37115487	-1	None	None
Y	CDY14P	ENSG00000226873	ENST00000431260	unprocessed_pseudogene	KNOWN	None	23858	None	None	25820526	25821539	1	None	None
6	None	ENSG00000235994	ENST00000441716	antisense	KNOWN	None	None	None	None	168377262	168380456	-1	None	None
6	None	ENSG00000235994	ENST00000538528	antisense	KNOWN	None	None	None	None	168376604	168377619	-1	None	None
9	None	ENSG00000200502	ENST00000363632	misc_RNA	NOVEL	None	None	None	None	37160134	37160234	1	None	None
9	None	ENSG00000228292	ENST00000404812	processed_pseudogene	KNOWN	None	None	None	None	37205109	37205365	-1	None	None
9	None	ENSG00000216070	ENST00000401251	miRNA	NOVEL	None	None	None	None	37296020	37296101	-1	None	None
X	RNU6-50P	ENSG00000199226	ENST00000362356	snRNA	KNOWN	None	10229	None	None	46377201	46377303	1	RNU6P1, RNU6-50	U6
9	None	ENSG00000206784	ENST00000384057	misc_RNA	NOVEL	None	None	None	None	37322256	37322368	1	None	None
19	RN7SL491P	ENSG00000264400	ENST00000584748	misc_RNA	KNOWN	None	46507	None	None	35905787	35906051	-1	None	None
11	None	ENSG00000268467	ENST00000600612	protein_coding	KNOWN	None	None	384	127	107462471	107463949	1	None	None
9	None	ENSG00000224648	ENST00000452923	lincRNA	KNOWN	None	None	None	None	37383175	37384431	-1	None	None
19	None	ENSG00000233214	ENST00000413796	antisense	KNOWN	None	None	None	None	35914964	35915554	-1	None	None
X	ZNF674-AS1	ENSG00000230844	ENST00000421685	processed_transcript	KNOWN	None	44266	None	None	46404928	46407671	1	None	None
7	MIR590	ENSG00000207741	ENST00000385008	miRNA	KNOWN	None	32846	None	None	73605528	73605624	1	MIRN590	hsa-mir-590
5	TIGD6	ENSG00000164296	ENST00000296736	protein_coding	KNOWN	CCDS4301	18332	1566	521	149372681	149380730	-1	None	DKFZp761E2110
5	TIGD6	ENSG00000164296	ENST00000515406	protein_coding	KNOWN	CCDS4301	18332	1566	521	149374291	149380217	-1	None	DKFZp761E2110
5	TIGD6	ENSG00000164296	ENST00000532987	processed_transcript	KNOWN	None	18332	None	None	149379403	149380216	-1	None	DKFZp761E2110
19	PSG6	ENSG00000170848	ENST00000187910	protein_coding	KNOWN	CCDS33038	9523	1275	424	43406231	43422010	-1	None	None
19	PSG6	ENSG00000170848	ENST00000402603	protein_coding	NOVEL	None	9523	996	331	43406238	43422034	-1	None	None
19	PSG6	ENSG00000170848	ENST00000599753	nonsense_mediated_decay	KNOWN	None	9523	245	80	43406273	43414956	-1	None	None
19	PSG6	ENSG00000170848	ENST00000292125	protein_coding	KNOWN	CCDS12613	9523	1308	435	43407768	43421989	-1	None	None
19	PSG6	ENSG00000170848	ENST00000595062	retained_intron	KNOWN	None	9523	None	None	43410788	43420550	-1	None	None
19	PSG6	ENSG00000170848	ENST00000594375	protein_coding	PUTATIVE	None	9523	473	156	43411877	43422039	-1	None	None
19	PSG6	ENSG00000170848	ENST00000402456	retained_intron	KNOWN	None	9523	None	None	43413851	43422034	-1	None	None
19	PSG6	ENSG00000170848	ENST00000484292	retained_intron	KNOWN	None	9523	None	None	43414628	43422162	-1	None	None
19	PSG6	ENSG00000170848	ENST00000601833	protein_coding	PUTATIVE	None	9523	222	73	43419454	43423715	-1	None	None
9	CHCHD4P3	ENSG00000236156	ENST00000455954	processed_pseudogene	KNOWN	None	44491	None	None	37434174	37434583	1	None	None
6	KIF25-AS1	ENSG00000229921	ENST00000456585	lincRNA	KNOWN	None	20953	None	None	168393502	168397757	-1	C6orf54, NCRNA00300	HGC6.1.1
6	KIF25-AS1	ENSG00000229921	ENST00000414364	lincRNA	KNOWN	None	20953	None	None	168394852	168397757	-1	C6orf54, NCRNA00300	HGC6.1.1
19	None	ENSG00000268316	ENST00000596964	lincRNA	KNOWN	None	None	None	None	52343024	52344198	-1	None	None
9	None	ENSG00000234269	ENST00000430854	processed_pseudogene	KNOWN	None	None	None	None	105684856	105685526	1	None	None
19	None	ENSG00000232680	ENST00000428426	lincRNA	KNOWN	None	None	None	None	35923859	35925544	-1	None	None
9	RN7SL463P	ENSG00000264255	ENST00000582257	misc_RNA	KNOWN	None	46479	None	None	37459392	37459706	-1	None	None
X	None	ENSG00000231963	ENST00000454388	antisense	KNOWN	None	None	None	None	72300006	72304474	1	None	None
9	None	ENSG00000229830	ENST00000429577	processed_pseudogene	KNOWN	None	None	None	None	105827698	105827880	1	None	None
19	None	ENSG00000269483	ENST00000594725	lincRNA	KNOWN	None	None	None	None	52343177	52346577	-1	None	None
7	RNU6-1070P	ENSG00000252538	ENST00000516729	snRNA	KNOWN	None	48033	None	None	73672856	73672946	-1	None	None
HSCHR6_MHC_COX	MYL8P	ENSG00000226575	ENST00000430039	processed_pseudogene	KNOWN	None	7589	None	None	33228367	33228884	1	None	BING3
HSCHR6_MHC_COX	MYL8P	ENSG00000226575	ENST00000553005	pseudogene	KNOWN	None	7589	None	None	33228369	33228884	1	None	BING3
9	None	ENSG00000187988	ENST00000434597	processed_pseudogene	KNOWN	None	None	None	None	37477146	37478314	1	None	None
9	None	ENSG00000187988	ENST00000344067	processed_pseudogene	KNOWN	None	None	None	None	37477146	37478314	1	None	None
X	None	ENSG00000270499	ENST00000604297	processed_pseudogene	KNOWN	None	None	None	None	46420363	46422184	-1	None	None
X	None	ENSG00000230311	ENST00000427861	processed_pseudogene	KNOWN	None	None	None	None	72442960	72443394	1	None	None
19	None	ENSG00000268095	ENST00000600329	antisense	KNOWN	None	None	None	None	52391278	52403716	1	None	None
9	None	ENSG00000230188	ENST00000422509	processed_pseudogene	KNOWN	None	None	None	None	37490418	37490890	-1	None	None
7	RNA5SP233	ENSG00000238391	ENST00000459153	rRNA	KNOWN	None	43133	None	None	73901758	73901870	-1	RN5S233	None
HSCHR6_MHC_QBL	MRPS18B	ENSG00000203624	ENST00000327800	protein_coding	KNOWN	None	14516	777	258	30574996	30583682	1	None	MRPS18-2, PTD017, C6orf14, HSPC183
HSCHR6_MHC_QBL	MRPS18B	ENSG00000203624	ENST00000482488	retained_intron	KNOWN	None	14516	None	None	30575130	30577411	1	None	MRPS18-2, PTD017, C6orf14, HSPC183
HSCHR6_MHC_QBL	MRPS18B	ENSG00000203624	ENST00000476123	retained_intron	KNOWN	None	14516	None	None	30575139	30583682	1	None	MRPS18-2, PTD017, C6orf14, HSPC183
HSCHR6_MHC_QBL	MRPS18B	ENSG00000203624	ENST00000400594	protein_coding	KNOWN	None	14516	648	215	30575147	30583682	1	None	MRPS18-2, PTD017, C6orf14, HSPC183
HSCHR6_MHC_QBL	MRPS18B	ENSG00000203624	ENST00000469397	processed_transcript	KNOWN	None	14516	None	None	30575147	30583682	1	None	MRPS18-2, PTD017, C6orf14, HSPC183
X	None	ENSG00000237014	ENST00000421810	processed_pseudogene	KNOWN	None	None	None	None	72457483	72458545	-1	None	None
19	HCCAT3	ENSG00000269235	ENST00000600253	antisense	KNOWN	None	48598	None	None	52452387	52480118	1	None	uc002pyc, ZNF350-AS1
19	HCCAT3	ENSG00000269235	ENST00000595010	antisense	KNOWN	None	48598	None	None	52452415	52484620	1	None	uc002pyc, ZNF350-AS1
19	None	ENSG00000236144	ENST00000589137	antisense	KNOWN	None	None	None	None	36031640	36036931	-1	None	None
19	None	ENSG00000236144	ENST00000590717	antisense	KNOWN	None	None	None	None	36031641	36035942	-1	None	None
19	None	ENSG00000236144	ENST00000590125	antisense	KNOWN	None	None	None	None	36032196	36034041	-1	None	None
19	None	ENSG00000236144	ENST00000588286	antisense	KNOWN	None	None	None	None	36032484	36036394	-1	None	None
19	None	ENSG00000236144	ENST00000444728	antisense	KNOWN	None	None	None	None	36032862	36036405	-1	None	None
7	None	ENSG00000252378	ENST00000516569	miRNA	NOVEL	None	None	None	None	73985677	73985754	1	None	None
19	None	ENSG00000260160	ENST00000569091	sense_overlapping	KNOWN	None	None	None	None	52561743	52566956	-1	None	None
20	FKBP1A	ENSG00000088832	ENST00000474657	processed_transcript	KNOWN	None	3711	None	None	1349622	1356247	-1	FKBP1	FKBP-12, FKBP12, PKC12, PPIASE, FKBP12C
20	FKBP1A	ENSG00000088832	ENST00000400137	protein_coding	KNOWN	CCDS13014	3711	327	108	1349622	1373806	-1	FKBP1	FKBP-12, FKBP12, PKC12, PPIASE, FKBP12C
20	FKBP1A	ENSG00000088832	ENST00000381724	protein_coding	KNOWN	None	3711	312	103	1350224	1373682	-1	FKBP1	FKBP-12, FKBP12, PKC12, PPIASE, FKBP12C
20	FKBP1A	ENSG00000088832	ENST00000460490	processed_transcript	KNOWN	None	3711	None	None	1350228	1352798	-1	FKBP1	FKBP-12, FKBP12, PKC12, PPIASE, FKBP12C
20	FKBP1A	ENSG00000088832	ENST00000474726	processed_transcript	KNOWN	None	3711	None	None	1350631	1358818	-1	FKBP1	FKBP-12, FKBP12, PKC12, PPIASE, FKBP12C
20	FKBP1A	ENSG00000088832	ENST00000381719	protein_coding	KNOWN	CCDS13014	3711	327	108	1352366	1373672	-1	FKBP1	FKBP-12, FKBP12, PKC12, PPIASE, FKBP12C
20	FKBP1A	ENSG00000088832	ENST00000381715	protein_coding	KNOWN	None	3711	312	103	1352422	1373606	-1	FKBP1	FKBP-12, FKBP12, PKC12, PPIASE, FKBP12C
20	FKBP1A	ENSG00000088832	ENST00000439640	protein_coding	KNOWN	None	3711	279	92	1352756	1373642	-1	FKBP1	FKBP-12, FKBP12, PKC12, PPIASE, FKBP12C
10	PRKCQ-AS1	ENSG00000237943	ENST00000445427	lincRNA	KNOWN	None	44689	None	None	6622381	6626261	1	None	None
10	PRKCQ-AS1	ENSG00000237943	ENST00000455810	lincRNA	KNOWN	None	44689	None	None	6622387	6625990	1	None	None
10	PRKCQ-AS1	ENSG00000237943	ENST00000414894	lincRNA	KNOWN	None	44689	None	None	6625638	6627641	1	None	None
10	PRKCQ-AS1	ENSG00000237943	ENST00000449648	lincRNA	KNOWN	None	44689	None	None	6625641	6626260	1	None	None
11	SLN	ENSG00000170290	ENST00000531293	protein_coding	KNOWN	CCDS31667	11089	96	31	107578104	107590419	-1	None	MGC12301, MGC125854, MGC125855
11	SLN	ENSG00000170290	ENST00000525934	protein_coding	KNOWN	CCDS31667	11089	96	31	107578338	107590383	-1	None	MGC12301, MGC125854, MGC125855
11	SLN	ENSG00000170290	ENST00000305991	protein_coding	KNOWN	CCDS31667	11089	96	31	107578109	107582787	-1	None	MGC12301, MGC125854, MGC125855
19	None	ENSG00000270248	ENST00000603942	processed_pseudogene	KNOWN	None	None	None	None	52613571	52613979	-1	None	None
22	SMDT1	ENSG00000183172	ENST00000422252	nonsense_mediated_decay	KNOWN	None	25055	174	57	42475695	42479357	1	C22orf32	dJ186O1.1, DDDD
22	SMDT1	ENSG00000183172	ENST00000331479	protein_coding	KNOWN	CCDS14031	25055	324	107	42475699	42480288	1	C22orf32	dJ186O1.1, DDDD
22	SMDT1	ENSG00000183172	ENST00000484235	retained_intron	KNOWN	None	25055	None	None	42475704	42478229	1	C22orf32	dJ186O1.1, DDDD
22	SMDT1	ENSG00000183172	ENST00000547929	processed_transcript	KNOWN	None	25055	None	None	42475904	42520105	1	C22orf32	dJ186O1.1, DDDD
10	None	ENSG00000202297	ENST00000365427	misc_RNA	NOVEL	None	None	None	None	94094220	94094321	1	None	None
10	MARK2P9	ENSG00000232709	ENST00000430958	processed_pseudogene	KNOWN	None	39800	None	None	94178424	94180632	1	None	None
1	None	ENSG00000255054	ENST00000559265	retained_intron	KNOWN	None	None	None	None	26137961	26149799	1	None	None
1	None	ENSG00000255054	ENST00000527604	nonsense_mediated_decay	KNOWN	None	None	132	43	26140464	26150235	1	None	None
10	None	ENSG00000207895	ENST00000385160	miRNA	NOVEL	None	None	None	None	94200968	94201061	-1	None	None
10	None	ENSG00000184111	ENST00000332269	processed_pseudogene	KNOWN	None	None	None	None	94356609	94357044	-1	None	None
19	NLRP2	ENSG00000022556	ENST00000588619	protein_coding	KNOWN	None	22948	420	139	55464498	55493007	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
19	NLRP2	ENSG00000022556	ENST00000588107	protein_coding	KNOWN	None	22948	373	123	55464536	55489167	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
19	NLRP2	ENSG00000022556	ENST00000433772	protein_coding	KNOWN	None	22948	463	153	55476438	55493050	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
19	NLRP2	ENSG00000022556	ENST00000543010	protein_coding	KNOWN	CCDS12913	22948	3189	1062	55476620	55512510	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
19	NLRP2	ENSG00000022556	ENST00000540597	retained_intron	KNOWN	None	22948	None	None	55476653	55512510	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
19	NLRP2	ENSG00000022556	ENST00000391721	protein_coding	KNOWN	None	22948	3117	1038	55476697	55512503	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
19	NLRP2	ENSG00000022556	ENST00000339757	protein_coding	KNOWN	CCDS54319	22948	3123	1040	55476704	55512506	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
19	NLRP2	ENSG00000022556	ENST00000539848	nonsense_mediated_decay	KNOWN	None	22948	330	109	55476712	55493014	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
19	NLRP2	ENSG00000022556	ENST00000585500	protein_coding	KNOWN	None	22948	406	134	55477742	55493679	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
19	NLRP2	ENSG00000022556	ENST00000427260	protein_coding	KNOWN	CCDS54318	22948	3120	1039	55477742	55512446	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
19	NLRP2	ENSG00000022556	ENST00000263437	protein_coding	NOVEL	None	22948	3180	1059	55477774	55512503	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
19	NLRP2	ENSG00000022556	ENST00000397169	protein_coding	NOVEL	None	22948	495	164	55485362	55493765	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
19	NLRP2	ENSG00000022556	ENST00000540005	protein_coding	PUTATIVE	None	22948	592	196	55494854	55497769	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
19	NLRP2	ENSG00000022556	ENST00000543277	nonsense_mediated_decay	KNOWN	None	22948	267	88	55497574	55505808	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
19	NLRP2	ENSG00000022556	ENST00000381637	nonsense_mediated_decay	KNOWN	None	22948	28	8	55497660	55501574	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
19	NLRP2	ENSG00000022556	ENST00000586512	processed_transcript	KNOWN	None	22948	None	None	55501994	55502917	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
19	NLRP2	ENSG00000022556	ENST00000542755	retained_intron	KNOWN	None	22948	None	None	55504586	55512506	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
19	NLRP2	ENSG00000022556	ENST00000448584	protein_coding	KNOWN	CCDS12913	22948	3189	1062	55477711	55512508	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
19	NLRP2	ENSG00000022556	ENST00000537859	protein_coding	KNOWN	CCDS54319	22948	3123	1040	55477711	55512508	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
19	NLRP2	ENSG00000022556	ENST00000538819	protein_coding	KNOWN	None	22948	3117	1038	55477767	55512501	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
19	None	ENSG00000224910	ENST00000453968	lincRNA	KNOWN	None	None	None	None	36088809	36092403	1	None	None
7	None	ENSG00000232729	ENST00000450426	antisense	KNOWN	None	None	None	None	74103273	74143103	-1	None	None
7	None	ENSG00000232729	ENST00000434256	antisense	KNOWN	None	None	None	None	74113790	74143187	-1	None	None
7	None	ENSG00000232729	ENST00000594967	antisense	KNOWN	None	None	None	None	74114417	74142224	-1	None	None
7	None	ENSG00000232729	ENST00000601921	retained_intron	KNOWN	None	None	None	None	74114417	74143339	-1	None	None
7	None	ENSG00000232729	ENST00000597786	retained_intron	KNOWN	None	None	None	None	74140778	74143227	-1	None	None
7	None	ENSG00000232729	ENST00000595409	antisense	KNOWN	None	None	None	None	74141288	74142221	-1	None	None
13	STOML3	ENSG00000133115	ENST00000379631	protein_coding	KNOWN	CCDS9367	19420	876	291	39540062	39565203	-1	None	SRO, Epb7.2l
13	STOML3	ENSG00000133115	ENST00000423210	protein_coding	KNOWN	CCDS45040	19420	849	282	39540063	39564996	-1	None	SRO, Epb7.2l
7	GIMAP8	ENSG00000171115	ENST00000307271	protein_coding	KNOWN	CCDS34777	21792	1998	665	150147718	150176480	1	None	DKFZp667I133, hIAN6
12	C12orf75	ENSG00000235162	ENST00000548458	processed_transcript	KNOWN	None	35164	None	None	105629068	105764958	1	None	OCC-1, OCC1, AGD3
12	C12orf75	ENSG00000235162	ENST00000443585	protein_coding	KNOWN	CCDS55879	35164	192	63	105724414	105765296	1	None	OCC-1, OCC1, AGD3
12	C12orf75	ENSG00000235162	ENST00000552457	protein_coding	PUTATIVE	None	35164	141	46	105724452	105764718	1	None	OCC-1, OCC1, AGD3
12	C12orf75	ENSG00000235162	ENST00000549893	protein_coding	PUTATIVE	None	35164	147	48	105724488	105789875	1	None	OCC-1, OCC1, AGD3
12	C12orf75	ENSG00000235162	ENST00000546866	retained_intron	KNOWN	None	35164	None	None	105724631	105760242	1	None	OCC-1, OCC1, AGD3
12	C12orf75	ENSG00000235162	ENST00000549934	protein_coding	PUTATIVE	None	35164	267	88	105724646	105764458	1	None	OCC-1, OCC1, AGD3
12	C12orf75	ENSG00000235162	ENST00000548336	processed_transcript	KNOWN	None	35164	None	None	105747287	105764981	1	None	OCC-1, OCC1, AGD3
19	None	ENSG00000267626	ENST00000589603	lincRNA	KNOWN	None	None	None	None	36099187	36103568	-1	None	None
6	None	ENSG00000234768	ENST00000457340	lincRNA	KNOWN	None	None	None	None	168595038	168605181	1	None	None
19	RN7SL765P	ENSG00000266455	ENST00000580260	misc_RNA	KNOWN	None	46781	None	None	36155398	36155724	1	None	None
7	HOXA2	ENSG00000105996	ENST00000222718	protein_coding	KNOWN	CCDS5403	5103	1131	376	27139721	27142430	-1	HOX1K	None
10	AGAP6	ENSG00000204149	ENST00000412531	protein_coding	PUTATIVE	CCDS44397	23466	2061	686	51748404	51770185	1	CTGLF3	bA324H6.1
10	AGAP6	ENSG00000204149	ENST00000374056	protein_coding	KNOWN	None	23466	1992	663	51748078	51770259	1	CTGLF3	bA324H6.1
19	UPK1A-AS1	ENSG00000226510	ENST00000443196	antisense	KNOWN	None	40603	None	None	36158850	36164193	-1	None	None
19	None	ENSG00000267190	ENST00000589501	processed_pseudogene	KNOWN	None	None	None	None	36174680	36175103	-1	None	None
10	ITPRIP	ENSG00000148841	ENST00000337478	protein_coding	KNOWN	CCDS7557	29370	1644	547	106071894	106098162	-1	KIAA1754	bA127L20.2, DANGER
10	ITPRIP	ENSG00000148841	ENST00000358187	protein_coding	KNOWN	CCDS7557	29370	1644	547	106071902	106088682	-1	KIAA1754	bA127L20.2, DANGER
10	ITPRIP	ENSG00000148841	ENST00000458723	protein_coding	KNOWN	None	29370	343	113	106075467	106093663	-1	KIAA1754	bA127L20.2, DANGER
10	ITPRIP	ENSG00000148841	ENST00000278071	protein_coding	KNOWN	CCDS7557	29370	1644	547	106071901	106093663	-1	KIAA1754	bA127L20.2, DANGER
1	OLFM3	ENSG00000118733	ENST00000370103	protein_coding	KNOWN	CCDS30781	17990	1377	458	102268130	102462586	-1	None	NOE3
1	OLFM3	ENSG00000118733	ENST00000338858	protein_coding	KNOWN	None	17990	1437	478	102269042	102312529	-1	None	NOE3
1	OLFM3	ENSG00000118733	ENST00000465523	processed_transcript	KNOWN	None	17990	None	None	102269042	102312529	-1	None	NOE3
1	OLFM3	ENSG00000118733	ENST00000462354	processed_transcript	KNOWN	None	17990	None	None	102269042	102462461	-1	None	NOE3
1	OLFM3	ENSG00000118733	ENST00000468901	processed_transcript	KNOWN	None	17990	None	None	102290646	102375710	-1	None	NOE3
1	OLFM3	ENSG00000118733	ENST00000359814	protein_coding	KNOWN	None	17990	708	235	102278647	102312600	-1	None	NOE3
1	OLFM3	ENSG00000118733	ENST00000536598	protein_coding	KNOWN	None	17990	423	140	102269042	102302585	-1	None	NOE3
8	SLC18A1	ENSG00000036565	ENST00000265808	protein_coding	KNOWN	CCDS47814	10934	1482	493	20002366	20040626	-1	VMAT1, VAT1	CGAT
8	SLC18A1	ENSG00000036565	ENST00000276373	protein_coding	KNOWN	CCDS6013	10934	1578	525	20002366	20040717	-1	VMAT1, VAT1	CGAT
8	SLC18A1	ENSG00000036565	ENST00000517776	nonsense_mediated_decay	KNOWN	None	10934	1158	385	20002370	20040636	-1	VMAT1, VAT1	CGAT
8	SLC18A1	ENSG00000036565	ENST00000519026	protein_coding	KNOWN	CCDS47814	10934	1482	493	20003009	20040683	-1	VMAT1, VAT1	CGAT
8	SLC18A1	ENSG00000036565	ENST00000381608	protein_coding	PUTATIVE	CCDS47815	10934	1419	472	20003299	20038475	-1	VMAT1, VAT1	CGAT
8	SLC18A1	ENSG00000036565	ENST00000519171	retained_intron	KNOWN	None	10934	None	None	20005114	20008507	-1	VMAT1, VAT1	CGAT
8	SLC18A1	ENSG00000036565	ENST00000522513	protein_coding	NOVEL	None	10934	774	257	20028614	20040628	-1	VMAT1, VAT1	CGAT
8	SLC18A1	ENSG00000036565	ENST00000524272	processed_transcript	KNOWN	None	10934	None	None	20028616	20033433	-1	VMAT1, VAT1	CGAT
8	SLC18A1	ENSG00000036565	ENST00000440926	protein_coding	KNOWN	CCDS6013	10934	1578	525	20002367	20040717	-1	VMAT1, VAT1	CGAT
8	SLC18A1	ENSG00000036565	ENST00000437980	protein_coding	KNOWN	CCDS47815	10934	1419	472	20002367	20040717	-1	VMAT1, VAT1	CGAT
3	FOXP1	ENSG00000114861	ENST00000318789	protein_coding	KNOWN	CCDS2914	3823	2034	677	71003844	71633140	-1	None	QRF1, 12CC4, HSPC215, hFKH1B
3	FOXP1	ENSG00000114861	ENST00000475937	protein_coding	KNOWN	CCDS2914	3823	2034	677	71005896	71592708	-1	None	QRF1, 12CC4, HSPC215, hFKH1B
3	FOXP1	ENSG00000114861	ENST00000460805	processed_transcript	KNOWN	None	3823	None	None	71008342	71015503	-1	None	QRF1, 12CC4, HSPC215, hFKH1B
3	FOXP1	ENSG00000114861	ENST00000497355	protein_coding	PUTATIVE	None	3823	1722	573	71008342	71179744	-1	None	QRF1, 12CC4, HSPC215, hFKH1B
3	FOXP1	ENSG00000114861	ENST00000491238	protein_coding	PUTATIVE	CCDS58837	3823	2040	679	71008342	71179988	-1	None	QRF1, 12CC4, HSPC215, hFKH1B
3	FOXP1	ENSG00000114861	ENST00000327590	nonsense_mediated_decay	KNOWN	None	3823	1701	566	71008342	71542706	-1	None	QRF1, 12CC4, HSPC215, hFKH1B
3	FOXP1	ENSG00000114861	ENST00000498215	protein_coding	KNOWN	CCDS2914	3823	2034	677	71008355	71294316	-1	None	QRF1, 12CC4, HSPC215, hFKH1B
3	FOXP1	ENSG00000114861	ENST00000493089	protein_coding	NOVEL	CCDS58839	3823	2031	676	71008355	71632904	-1	None	QRF1, 12CC4, HSPC215, hFKH1B
3	FOXP1	ENSG00000114861	ENST00000484350	protein_coding	NOVEL	CCDS58838	3823	1806	601	71008362	71353911	-1	None	QRF1, 12CC4, HSPC215, hFKH1B
3	FOXP1	ENSG00000114861	ENST00000468577	protein_coding	NOVEL	None	3823	1842	613	71008398	71247532	-1	None	QRF1, 12CC4, HSPC215, hFKH1B
3	FOXP1	ENSG00000114861	ENST00000485326	protein_coding	KNOWN	None	3823	674	223	71064700	71114077	-1	None	QRF1, 12CC4, HSPC215, hFKH1B
3	FOXP1	ENSG00000114861	ENST00000472382	processed_transcript	KNOWN	None	3823	None	None	71089429	71102924	-1	None	QRF1, 12CC4, HSPC215, hFKH1B
3	FOXP1	ENSG00000114861	ENST00000497553	protein_coding	KNOWN	None	3823	369	122	71096088	71114918	-1	None	QRF1, 12CC4, HSPC215, hFKH1B
3	FOXP1	ENSG00000114861	ENST00000318779	protein_coding	PUTATIVE	CCDS33785	3823	345	114	71247033	71633090	-1	None	QRF1, 12CC4, HSPC215, hFKH1B
3	FOXP1	ENSG00000114861	ENST00000470112	processed_transcript	KNOWN	None	3823	None	None	71345236	71355166	-1	None	QRF1, 12CC4, HSPC215, hFKH1B
3	FOXP1	ENSG00000114861	ENST00000493010	processed_transcript	KNOWN	None	3823	None	None	71348986	71409911	-1	None	QRF1, 12CC4, HSPC215, hFKH1B
3	FOXP1	ENSG00000114861	ENST00000498154	processed_transcript	KNOWN	None	3823	None	None	71542577	71631104	-1	None	QRF1, 12CC4, HSPC215, hFKH1B
3	FOXP1	ENSG00000114861	ENST00000471386	processed_transcript	KNOWN	None	3823	None	None	71542577	71632890	-1	None	QRF1, 12CC4, HSPC215, hFKH1B
3	GTDC2	ENSG00000144647	ENST00000441964	protein_coding	KNOWN	CCDS2709	25902	1743	580	43120724	43147431	-1	C3orf39, GTDC2	FLJ14566, AGO61
3	GTDC2	ENSG00000144647	ENST00000344697	protein_coding	KNOWN	CCDS2709	25902	1743	580	43120726	43147568	-1	C3orf39, GTDC2	FLJ14566, AGO61
3	ENTPD3	ENSG00000168032	ENST00000301825	protein_coding	KNOWN	CCDS2691	3365	1590	529	40428647	40470110	1	CD39L3	NTPDase-3, HB6
3	ENTPD3	ENSG00000168032	ENST00000439533	protein_coding	NOVEL	None	3365	392	129	40428736	40442485	1	CD39L3	NTPDase-3, HB6
3	ENTPD3	ENSG00000168032	ENST00000456402	protein_coding	KNOWN	CCDS2691	3365	1590	529	40428736	40468999	1	CD39L3	NTPDase-3, HB6
3	ENTPD3	ENSG00000168032	ENST00000445129	protein_coding	NOVEL	None	3365	1359	452	40429488	40466501	1	CD39L3	NTPDase-3, HB6
4	METAP1	ENSG00000164024	ENST00000296411	protein_coding	KNOWN	CCDS47110	15789	1161	386	99916771	99983964	1	None	KIAA0094, MetAP1A, MAP1A
4	METAP1	ENSG00000164024	ENST00000510209	processed_transcript	KNOWN	None	15789	None	None	99916810	99960597	1	None	KIAA0094, MetAP1A, MAP1A
4	METAP1	ENSG00000164024	ENST00000507537	nonsense_mediated_decay	KNOWN	None	15789	147	48	99916872	99964470	1	None	KIAA0094, MetAP1A, MAP1A
4	METAP1	ENSG00000164024	ENST00000506238	nonsense_mediated_decay	KNOWN	None	15789	147	48	99916891	99960598	1	None	KIAA0094, MetAP1A, MAP1A
4	METAP1	ENSG00000164024	ENST00000503247	nonsense_mediated_decay	KNOWN	None	15789	135	44	99916917	99962277	1	None	KIAA0094, MetAP1A, MAP1A
4	METAP1	ENSG00000164024	ENST00000510107	nonsense_mediated_decay	KNOWN	None	15789	116	37	99916981	99962277	1	None	KIAA0094, MetAP1A, MAP1A
4	METAP1	ENSG00000164024	ENST00000513199	processed_transcript	KNOWN	None	15789	None	None	99943446	99964422	1	None	KIAA0094, MetAP1A, MAP1A
4	METAP1	ENSG00000164024	ENST00000506548	processed_transcript	KNOWN	None	15789	None	None	99943923	99956611	1	None	KIAA0094, MetAP1A, MAP1A
4	METAP1	ENSG00000164024	ENST00000513097	retained_intron	KNOWN	None	15789	None	None	99960354	99966429	1	None	KIAA0094, MetAP1A, MAP1A
4	METAP1	ENSG00000164024	ENST00000510133	protein_coding	NOVEL	None	15789	513	170	99964400	99982670	1	None	KIAA0094, MetAP1A, MAP1A
4	METAP1	ENSG00000164024	ENST00000514051	protein_coding	NOVEL	None	15789	351	116	99966341	99983175	1	None	KIAA0094, MetAP1A, MAP1A
4	METAP1	ENSG00000164024	ENST00000544031	protein_coding	KNOWN	None	15789	1011	336	99952798	99983959	1	None	KIAA0094, MetAP1A, MAP1A
20	TMX4	ENSG00000125827	ENST00000246024	protein_coding	KNOWN	CCDS13101	25237	1050	349	7957995	8000476	-1	TXNDC13	DJ971N18.2, KIAA1162, PDIA14
20	TMX4	ENSG00000125827	ENST00000527925	protein_coding	NOVEL	None	25237	595	197	7964441	8000452	-1	TXNDC13	DJ971N18.2, KIAA1162, PDIA14
20	TMX4	ENSG00000125827	ENST00000462384	nonsense_mediated_decay	KNOWN	None	25237	240	79	7967957	8000293	-1	TXNDC13	DJ971N18.2, KIAA1162, PDIA14
20	TMX4	ENSG00000125827	ENST00000530935	processed_transcript	KNOWN	None	25237	None	None	7967971	7994577	-1	TXNDC13	DJ971N18.2, KIAA1162, PDIA14
10	RN7SL644P	ENSG00000264313	ENST00000577919	misc_RNA	KNOWN	None	46660	None	None	94418801	94419055	1	None	None
12	SLC16A7	ENSG00000118596	ENST00000552432	protein_coding	KNOWN	CCDS8961	10928	1437	478	59989848	60173994	1	None	MCT2
12	SLC16A7	ENSG00000118596	ENST00000547379	protein_coding	KNOWN	CCDS8961	10928	1437	478	59989925	60173770	1	None	MCT2
12	SLC16A7	ENSG00000118596	ENST00000549465	protein_coding	PUTATIVE	None	10928	237	78	59989943	60113975	1	None	MCT2
12	SLC16A7	ENSG00000118596	ENST00000552024	protein_coding	NOVEL	CCDS8961	10928	1437	478	59990840	60173466	1	None	MCT2
12	SLC16A7	ENSG00000118596	ENST00000548610	protein_coding	NOVEL	None	10928	1306	434	60058458	60173329	1	None	MCT2
12	SLC16A7	ENSG00000118596	ENST00000261187	protein_coding	KNOWN	CCDS8961	10928	1437	478	60083118	60176395	1	None	MCT2
12	SLC16A7	ENSG00000118596	ENST00000550062	nonsense_mediated_decay	KNOWN	None	10928	294	97	60083126	60129763	1	None	MCT2
12	SLC16A7	ENSG00000118596	ENST00000549588	processed_transcript	KNOWN	None	10928	None	None	60083126	60157858	1	None	MCT2
12	SLC16A7	ENSG00000118596	ENST00000546459	nonsense_mediated_decay	KNOWN	None	10928	255	84	60083129	60162004	1	None	MCT2
12	SLC16A7	ENSG00000118596	ENST00000552405	processed_transcript	KNOWN	None	10928	None	None	60083134	60162006	1	None	MCT2
12	SLC16A7	ENSG00000118596	ENST00000549033	nonsense_mediated_decay	KNOWN	None	10928	426	141	60083134	60173477	1	None	MCT2
12	SLC16A7	ENSG00000118596	ENST00000551877	nonsense_mediated_decay	KNOWN	None	10928	252	83	60083143	60127866	1	None	MCT2
12	SLC16A7	ENSG00000118596	ENST00000547801	processed_transcript	PUTATIVE	None	10928	None	None	60083143	60162090	1	None	MCT2
12	SLC16A7	ENSG00000118596	ENST00000549928	nonsense_mediated_decay	KNOWN	None	10928	255	84	60083151	60173470	1	None	MCT2
12	SLC16A7	ENSG00000118596	ENST00000549305	nonsense_mediated_decay	KNOWN	None	10928	255	84	60083152	60154927	1	None	MCT2
12	SLC16A7	ENSG00000118596	ENST00000548444	protein_coding	PUTATIVE	None	10928	395	130	60162840	60168816	1	None	MCT2
12	SLC16A7	ENSG00000118596	ENST00000543448	protein_coding	KNOWN	None	10928	1140	379	60083134	60173477	1	None	MCT2
7	PHBP15	ENSG00000232210	ENST00000428817	processed_pseudogene	KNOWN	None	39294	None	None	74155796	74156460	-1	None	None
19	None	ENSG00000267827	ENST00000598982	processed_transcript	KNOWN	None	None	None	None	52633801	52674722	-1	None	None
19	None	ENSG00000267827	ENST00000594362	processed_transcript	KNOWN	None	None	None	None	52633817	52674786	-1	None	None
3	THUMPD3	ENSG00000134077	ENST00000452837	protein_coding	KNOWN	CCDS2573	24493	1524	507	9404526	9427386	1	None	DKFZP434F091
3	THUMPD3	ENSG00000134077	ENST00000417036	protein_coding	KNOWN	None	24493	122	39	9404655	9406874	1	None	DKFZP434F091
3	THUMPD3	ENSG00000134077	ENST00000419437	protein_coding	KNOWN	None	24493	370	122	9404735	9412783	1	None	DKFZP434F091
3	THUMPD3	ENSG00000134077	ENST00000345094	protein_coding	KNOWN	CCDS2573	24493	1524	507	9404736	9428475	1	None	DKFZP434F091
3	THUMPD3	ENSG00000134077	ENST00000515662	protein_coding	KNOWN	CCDS2573	24493	1524	507	9404782	9426554	1	None	DKFZP434F091
3	THUMPD3	ENSG00000134077	ENST00000441127	protein_coding	PUTATIVE	None	24493	698	231	9412844	9422316	1	None	DKFZP434F091
3	THUMPD3	ENSG00000134077	ENST00000416603	protein_coding	PUTATIVE	None	24493	807	268	9412917	9426344	1	None	DKFZP434F091
3	THUMPD3	ENSG00000134077	ENST00000461636	retained_intron	KNOWN	None	24493	None	None	9413138	9422572	1	None	DKFZP434F091
3	THUMPD3	ENSG00000134077	ENST00000484006	retained_intron	KNOWN	None	24493	None	None	9424600	9426060	1	None	DKFZP434F091
3	THUMPD3	ENSG00000134077	ENST00000464045	retained_intron	KNOWN	None	24493	None	None	9424864	9426554	1	None	DKFZP434F091
10	EIF2S2P3	ENSG00000236493	ENST00000428356	processed_pseudogene	KNOWN	None	31664	None	None	94428502	94429500	-1	None	None
10	EIF2S2P3	ENSG00000236493	ENST00000439671	processed_pseudogene	KNOWN	None	31664	None	None	94428529	94429500	-1	None	None
4	MIR577	ENSG00000207931	ENST00000385196	miRNA	KNOWN	None	32833	None	None	115577915	115578010	1	MIRN577	hsa-mir-577
19	None	ENSG00000238630	ENST00000459287	snoRNA	NOVEL	None	None	None	None	52637506	52637593	-1	None	None
4	CIR1P2	ENSG00000250215	ENST00000514821	processed_pseudogene	KNOWN	None	44012	None	None	115634735	115636076	-1	None	None
19	None	ENSG00000268458	ENST00000597886	lincRNA	KNOWN	None	None	None	None	52645879	52647409	1	None	None
4	SCGB1D5P	ENSG00000248287	ENST00000515134	processed_pseudogene	KNOWN	None	42735	None	None	166438407	166438653	-1	SCGB1D1P1	None
20	SYS1	ENSG00000204070	ENST00000372727	protein_coding	KNOWN	CCDS13351	16162	471	156	43990577	43995854	1	C20orf169	dJ453C12.4
20	SYS1	ENSG00000204070	ENST00000414310	protein_coding	PUTATIVE	None	16162	408	135	43990591	43995865	1	C20orf169	dJ453C12.4
20	SYS1	ENSG00000204070	ENST00000243918	protein_coding	KNOWN	CCDS13351	16162	471	156	43991668	43997855	1	C20orf169	dJ453C12.4
20	SYS1	ENSG00000204070	ENST00000426004	protein_coding	NOVEL	CCDS56192	16162	231	76	43991779	44005438	1	C20orf169	dJ453C12.4
20	SYS1	ENSG00000204070	ENST00000461890	retained_intron	KNOWN	None	16162	None	None	43991795	43994508	1	C20orf169	dJ453C12.4
20	SYS1	ENSG00000204070	ENST00000457307	nonsense_mediated_decay	KNOWN	None	16162	174	57	43991870	43996064	1	C20orf169	dJ453C12.4
20	SYS1	ENSG00000204070	ENST00000453003	protein_coding	KNOWN	None	16162	355	117	43992094	43995639	1	C20orf169	dJ453C12.4
20	SYS1	ENSG00000204070	ENST00000479779	processed_transcript	KNOWN	None	16162	None	None	43993859	43996068	1	C20orf169	dJ453C12.4
17	OR1D5	ENSG00000262628	ENST00000575751	protein_coding	KNOWN	CCDS58499	8186	939	312	2965963	2966901	-1	None	OR17-31
5	None	ENSG00000207293	ENST00000384563	misc_RNA	NOVEL	None	None	None	None	56464935	56465036	-1	None	None
19	KMT2B	ENSG00000105663	ENST00000606995	processed_transcript	KNOWN	None	15840	None	None	36208921	36212431	1	None	KIAA0304, MLL2, TRX2, HRX2, WBP7, MLL1B, MLL4
19	KMT2B	ENSG00000105663	ENST00000607650	processed_transcript	KNOWN	None	15840	None	None	36208921	36229779	1	None	KIAA0304, MLL2, TRX2, HRX2, WBP7, MLL1B, MLL4
19	KMT2B	ENSG00000105663	ENST00000592092	retained_intron	KNOWN	None	15840	None	None	36224159	36228057	1	None	KIAA0304, MLL2, TRX2, HRX2, WBP7, MLL1B, MLL4
19	KMT2B	ENSG00000105663	ENST00000585476	retained_intron	KNOWN	None	15840	None	None	36226121	36229779	1	None	KIAA0304, MLL2, TRX2, HRX2, WBP7, MLL1B, MLL4
19	KMT2B	ENSG00000105663	ENST00000586308	retained_intron	KNOWN	None	15840	None	None	36228369	36229397	1	None	KIAA0304, MLL2, TRX2, HRX2, WBP7, MLL1B, MLL4
5	None	ENSG00000248586	ENST00000510053	processed_pseudogene	KNOWN	None	None	None	None	56613816	56615847	-1	None	None
7	STAG3L2	ENSG00000160828	ENST00000448772	transcribed_unprocessed_pseudogene	KNOWN	None	33886	None	None	74298811	74304518	-1	None	MGC131759, STAG3L2P
7	STAG3L2	ENSG00000160828	ENST00000423186	retained_intron	KNOWN	None	33886	None	None	74299873	74306687	-1	None	MGC131759, STAG3L2P
7	STAG3L2	ENSG00000160828	ENST00000470380	retained_intron	KNOWN	None	33886	None	None	74299901	74306687	-1	None	MGC131759, STAG3L2P
7	STAG3L2	ENSG00000160828	ENST00000380775	unprocessed_pseudogene	KNOWN	None	33886	None	None	74112305	74306675	-1	None	MGC131759, STAG3L2P
7	STAG3L2	ENSG00000160828	ENST00000359898	unprocessed_pseudogene	KNOWN	None	33886	None	None	74299100	74306687	-1	None	MGC131759, STAG3L2P
7	STAG3L2	ENSG00000160828	ENST00000429726	unprocessed_pseudogene	KNOWN	None	33886	None	None	74299285	74306731	-1	None	MGC131759, STAG3L2P
5	None	ENSG00000250961	ENST00000506106	antisense	KNOWN	None	None	None	None	56690887	56829251	1	None	None
1	FASLG	ENSG00000117560	ENST00000367721	protein_coding	KNOWN	CCDS1304	11936	846	281	172628158	172636014	1	APT1LG1, TNFSF6	FasL, CD178
1	FASLG	ENSG00000117560	ENST00000340030	protein_coding	KNOWN	None	11936	384	127	172628154	172636014	1	APT1LG1, TNFSF6	FasL, CD178
8	ADAM18	ENSG00000168619	ENST00000520001	nonsense_mediated_decay	KNOWN	None	196	189	62	39442008	39468263	1	None	tMDCIII, ADAM27
8	ADAM18	ENSG00000168619	ENST00000265707	protein_coding	KNOWN	CCDS6113	196	2220	739	39442097	39587582	1	None	tMDCIII, ADAM27
8	ADAM18	ENSG00000168619	ENST00000379866	protein_coding	KNOWN	None	196	2148	715	39442100	39587583	1	None	tMDCIII, ADAM27
8	ADAM18	ENSG00000168619	ENST00000520772	protein_coding	NOVEL	CCDS55225	196	549	182	39442104	39469094	1	None	tMDCIII, ADAM27
8	ADAM18	ENSG00000168619	ENST00000520087	nonsense_mediated_decay	KNOWN	None	196	348	115	39442142	39587487	1	None	tMDCIII, ADAM27
8	ADAM18	ENSG00000168619	ENST00000520559	processed_transcript	KNOWN	None	196	None	None	39462146	39468263	1	None	tMDCIII, ADAM27
8	ADAM18	ENSG00000168619	ENST00000523755	processed_transcript	KNOWN	None	196	None	None	39542649	39587581	1	None	tMDCIII, ADAM27
8	ADAM18	ENSG00000168619	ENST00000524117	retained_intron	KNOWN	None	196	None	None	39542693	39581477	1	None	tMDCIII, ADAM27
8	ADAM18	ENSG00000168619	ENST00000541111	protein_coding	KNOWN	None	196	462	153	39442142	39587487	1	None	tMDCIII, ADAM27
17	OR1D2	ENSG00000184166	ENST00000331459	protein_coding	KNOWN	CCDS11019	8183	939	312	2995352	2996290	-1	OLFR1	OR17-4
9	RN7SL570P	ENSG00000241174	ENST00000484405	misc_RNA	KNOWN	None	46586	None	None	72499279	72499566	-1	None	None
10	None	ENSG00000259812	ENST00000561822	lincRNA	KNOWN	None	None	None	None	6628186	6628882	1	None	None
5	SALL4P1	ENSG00000250308	ENST00000510352	processed_pseudogene	KNOWN	None	39818	None	None	56718291	56720218	1	None	None
10	SVILP1	ENSG00000234814	ENST00000422642	transcribed_unprocessed_pseudogene	KNOWN	None	44959	None	None	30960495	31006195	1	None	None
10	SVILP1	ENSG00000234814	ENST00000435645	processed_transcript	KNOWN	None	44959	None	None	30982591	30987392	1	None	None
10	SVILP1	ENSG00000234814	ENST00000429171	unprocessed_pseudogene	KNOWN	None	44959	None	None	30984850	31005942	1	None	None
X	YWHAZP8	ENSG00000225664	ENST00000436935	processed_pseudogene	KNOWN	None	39029	None	None	72494621	72495351	1	None	None
8	PHYHIP	ENSG00000168490	ENST00000321613	protein_coding	PUTATIVE	CCDS43723	16865	993	330	22077222	22089614	-1	DYRK1AP3	KIAA0273, PAHX-AP
8	PHYHIP	ENSG00000168490	ENST00000454243	protein_coding	KNOWN	CCDS43723	16865	993	330	22077234	22089854	-1	DYRK1AP3	KIAA0273, PAHX-AP
8	PHYHIP	ENSG00000168490	ENST00000523252	protein_coding	PUTATIVE	None	16865	744	247	22078971	22085206	-1	DYRK1AP3	KIAA0273, PAHX-AP
8	PHYHIP	ENSG00000168490	ENST00000522869	retained_intron	KNOWN	None	16865	None	None	22081246	22085766	-1	DYRK1AP3	KIAA0273, PAHX-AP
8	PHYHIP	ENSG00000168490	ENST00000518274	retained_intron	KNOWN	None	16865	None	None	22081805	22086191	-1	DYRK1AP3	KIAA0273, PAHX-AP
5	None	ENSG00000264748	ENST00000584598	miRNA	NOVEL	None	None	None	None	56777647	56777730	-1	None	None
17	OR1G1	ENSG00000183024	ENST00000328890	protein_coding	KNOWN	CCDS11020	8204	942	313	3029878	3030875	-1	OR1G2	OR17-209
10	MYOZ1	ENSG00000177791	ENST00000359322	protein_coding	KNOWN	CCDS7330	13752	900	299	75391412	75401515	-1	MYOZ	FATZ, CS-2
5	None	ENSG00000248294	ENST00000513392	lincRNA	KNOWN	None	None	None	None	56869854	56910168	1	None	None
9	MAMDC2-AS1	ENSG00000204706	ENST00000414515	antisense	KNOWN	None	48719	None	None	72700732	72728776	-1	None	None
9	MAMDC2-AS1	ENSG00000204706	ENST00000585478	antisense	KNOWN	None	48719	None	None	72702335	72703913	-1	None	None
9	MAMDC2-AS1	ENSG00000204706	ENST00000590177	antisense	KNOWN	None	48719	None	None	72702335	72705710	-1	None	None
9	MAMDC2-AS1	ENSG00000204706	ENST00000591368	antisense	KNOWN	None	48719	None	None	72702335	72790799	-1	None	None
9	MAMDC2-AS1	ENSG00000204706	ENST00000451488	antisense	KNOWN	None	48719	None	None	72768050	72772456	-1	None	None
9	MAMDC2-AS1	ENSG00000204706	ENST00000377178	antisense	KNOWN	None	48719	None	None	72768050	72790748	-1	None	None
9	MAMDC2-AS1	ENSG00000204706	ENST00000448377	antisense	KNOWN	None	48719	None	None	72784558	72790804	-1	None	None
9	MAMDC2-AS1	ENSG00000204706	ENST00000420573	antisense	KNOWN	None	48719	None	None	72786915	72787683	-1	None	None
9	MAMDC2-AS1	ENSG00000204706	ENST00000535188	antisense	KNOWN	None	48719	None	None	72784559	72787804	-1	None	None
5	HMGXB3	ENSG00000113716	ENST00000503427	protein_coding	NOVEL	None	28982	3783	1260	149379884	149432386	1	HMGX3	SMF, KIAA0194
5	HMGXB3	ENSG00000113716	ENST00000502717	protein_coding	KNOWN	CCDS54935	28982	3879	1292	149380281	149432386	1	HMGX3	SMF, KIAA0194
5	HMGXB3	ENSG00000113716	ENST00000514469	nonsense_mediated_decay	KNOWN	None	28982	337	111	149406626	149427320	1	HMGX3	SMF, KIAA0194
5	HMGXB3	ENSG00000113716	ENST00000513318	retained_intron	KNOWN	None	28982	None	None	149409880	149420386	1	HMGX3	SMF, KIAA0194
5	HMGXB3	ENSG00000113716	ENST00000510472	retained_intron	KNOWN	None	28982	None	None	149427048	149430004	1	HMGX3	SMF, KIAA0194
X	RNU6-1044P	ENSG00000207486	ENST00000384755	snRNA	KNOWN	None	48007	None	None	72617367	72617473	-1	None	None
X	MORF4L1P6	ENSG00000233162	ENST00000418771	processed_pseudogene	KNOWN	None	39258	None	None	72694399	72694666	1	None	None
5	None	ENSG00000249436	ENST00000509844	lincRNA	KNOWN	None	None	None	None	56910216	56913258	1	None	None
X	MAP2K4P1	ENSG00000269904	ENST00000602584	processed_transcript	KNOWN	None	43837	None	None	72744111	72782921	-1	None	None
X	MAP2K4P1	ENSG00000269904	ENST00000438453	transcribed_processed_pseudogene	KNOWN	None	43837	None	None	72744797	72745991	-1	None	None
5	None	ENSG00000221195	ENST00000408268	miRNA	NOVEL	None	None	None	None	56938722	56938813	-1	None	None
19	ZNF211	ENSG00000121417	ENST00000407202	protein_coding	PUTATIVE	None	13003	1705	567	58141763	58153594	1	None	ZNF-25, CH2H2-25
19	ZNF211	ENSG00000121417	ENST00000541072	retained_intron	KNOWN	None	13003	None	None	58144536	58145402	1	None	ZNF-25, CH2H2-25
19	ZNF211	ENSG00000121417	ENST00000542008	retained_intron	KNOWN	None	13003	None	None	58144536	58145651	1	None	ZNF-25, CH2H2-25
19	ZNF211	ENSG00000121417	ENST00000347302	protein_coding	KNOWN	CCDS12957	13003	1695	564	58144536	58154147	1	None	ZNF-25, CH2H2-25
19	ZNF211	ENSG00000121417	ENST00000540556	nonsense_mediated_decay	KNOWN	None	13003	117	38	58144549	58154132	1	None	ZNF-25, CH2H2-25
19	ZNF211	ENSG00000121417	ENST00000254182	protein_coding	KNOWN	CCDS58687	13003	1668	555	58144554	58153647	1	None	ZNF-25, CH2H2-25
19	ZNF211	ENSG00000121417	ENST00000391703	protein_coding	KNOWN	CCDS58688	13003	1512	503	58144567	58154135	1	None	ZNF-25, CH2H2-25
19	ZNF211	ENSG00000121417	ENST00000299871	protein_coding	NOVEL	CCDS58686	13003	1890	629	58144584	58154105	1	None	ZNF-25, CH2H2-25
19	ZNF211	ENSG00000121417	ENST00000535785	nonsense_mediated_decay	KNOWN	None	13003	138	45	58144584	58154132	1	None	ZNF-25, CH2H2-25
19	ZNF211	ENSG00000121417	ENST00000540780	retained_intron	KNOWN	None	13003	None	None	58144593	58145447	1	None	ZNF-25, CH2H2-25
19	ZNF211	ENSG00000121417	ENST00000240731	protein_coding	KNOWN	CCDS12956	13003	1734	577	58144596	58154136	1	None	ZNF-25, CH2H2-25
19	ZNF211	ENSG00000121417	ENST00000420680	protein_coding	KNOWN	None	13003	1707	568	58141761	58153549	1	None	ZNF-25, CH2H2-25
19	ZNF211	ENSG00000121417	ENST00000544273	protein_coding	KNOWN	None	13003	1731	576	58144584	58154130	1	None	ZNF-25, CH2H2-25
19	ZNF211	ENSG00000121417	ENST00000541801	protein_coding	KNOWN	CCDS58687	13003	1668	555	58144567	58154135	1	None	ZNF-25, CH2H2-25
3	VILL	ENSG00000136059	ENST00000283713	protein_coding	KNOWN	CCDS2670	30906	2571	856	38029550	38048679	1	None	None
3	VILL	ENSG00000136059	ENST00000416303	protein_coding	KNOWN	None	30906	392	129	38032217	38037280	1	None	None
3	VILL	ENSG00000136059	ENST00000492491	protein_coding	KNOWN	None	30906	561	186	38032625	38038678	1	None	None
3	VILL	ENSG00000136059	ENST00000460040	retained_intron	KNOWN	None	30906	None	None	38034884	38035496	1	None	None
3	VILL	ENSG00000136059	ENST00000484717	retained_intron	KNOWN	None	30906	None	None	38035644	38043971	1	None	None
3	VILL	ENSG00000136059	ENST00000465644	protein_coding	PUTATIVE	None	30906	1725	574	38035644	38048652	1	None	None
3	VILL	ENSG00000136059	ENST00000412008	nonsense_mediated_decay	KNOWN	None	30906	305	100	38039809	38044036	1	None	None
3	VILL	ENSG00000136059	ENST00000463080	retained_intron	KNOWN	None	30906	None	None	38040723	38044804	1	None	None
3	VILL	ENSG00000136059	ENST00000486616	retained_intron	KNOWN	None	30906	None	None	38042398	38048675	1	None	None
3	VILL	ENSG00000136059	ENST00000488209	retained_intron	KNOWN	None	30906	None	None	38045555	38047695	1	None	None
3	VILL	ENSG00000136059	ENST00000383759	protein_coding	KNOWN	CCDS2670	30906	2571	856	38035078	38048676	1	None	None
3	TMEM43	ENSG00000170876	ENST00000306077	protein_coding	KNOWN	CCDS2618	28472	1203	400	14166440	14185179	1	None	MGC3222, DKFZp586G1919, LUMA
3	TMEM43	ENSG00000170876	ENST00000432444	nonsense_mediated_decay	KNOWN	None	28472	201	66	14166515	14174421	1	None	MGC3222, DKFZp586G1919, LUMA
6	None	ENSG00000218857	ENST00000407765	processed_pseudogene	KNOWN	None	None	None	None	131505465	131506626	-1	None	None
Y	TCEB1P16	ENSG00000227915	ENST00000444494	unprocessed_pseudogene	KNOWN	None	38152	None	None	25824651	25824982	1	None	None
12	TBX5	ENSG00000089225	ENST00000349716	protein_coding	KNOWN	CCDS9174	11604	1407	468	114791736	114846192	-1	HOS	None
12	TBX5	ENSG00000089225	ENST00000310346	protein_coding	KNOWN	CCDS9173	11604	1557	518	114791736	114846247	-1	HOS	None
12	TBX5	ENSG00000089225	ENST00000405440	protein_coding	KNOWN	CCDS9173	11604	1557	518	114793186	114843889	-1	HOS	None
12	TBX5	ENSG00000089225	ENST00000526441	protein_coding	PUTATIVE	None	11604	1050	349	114803902	114841703	-1	HOS	None
12	TBX5	ENSG00000089225	ENST00000552726	processed_transcript	KNOWN	None	11604	None	None	114832683	114841754	-1	HOS	None
HSCHR6_MHC_MCF	BRD2-IT1	ENSG00000237348	ENST00000451901	processed_transcript	PUTATIVE	None	41311	None	None	32971548	32972062	1	None	None
Y	PRYP3	ENSG00000169763	ENST00000343584	processed_transcript	KNOWN	None	34020	None	None	25827587	25840726	-1	None	None
Y	PRYP3	ENSG00000169763	ENST00000607210	transcribed_unprocessed_pseudogene	KNOWN	None	34020	None	None	25828154	25840674	-1	None	None
Y	PRYP3	ENSG00000169763	ENST00000303593	unprocessed_pseudogene	KNOWN	None	34020	None	None	25829559	25840710	-1	None	None
2	DTYMK	ENSG00000168393	ENST00000305784	protein_coding	KNOWN	CCDS2552	3061	639	212	242615157	242626406	-1	None	CDC8, TYMK, TMPK
2	DTYMK	ENSG00000168393	ENST00000400770	nonsense_mediated_decay	KNOWN	None	3061	252	83	242615162	242626359	-1	None	CDC8, TYMK, TMPK
2	DTYMK	ENSG00000168393	ENST00000445261	protein_coding	NOVEL	None	3061	511	169	242615535	242626127	-1	None	CDC8, TYMK, TMPK
2	DTYMK	ENSG00000168393	ENST00000432348	nonsense_mediated_decay	KNOWN	None	3061	304	100	242615538	242626157	-1	None	CDC8, TYMK, TMPK
2	DTYMK	ENSG00000168393	ENST00000420144	protein_coding	NOVEL	None	3061	575	190	242615593	242625292	-1	None	CDC8, TYMK, TMPK
2	DTYMK	ENSG00000168393	ENST00000493095	processed_transcript	PUTATIVE	None	3061	None	None	242621570	242626140	-1	None	CDC8, TYMK, TMPK
2	DTYMK	ENSG00000168393	ENST00000464603	retained_intron	KNOWN	None	3061	None	None	242624531	242626196	-1	None	CDC8, TYMK, TMPK
6	TAP2	ENSG00000204267	ENST00000374899	protein_coding	KNOWN	CCDS4755	44	1962	653	32789610	32806504	-1	ABCB3	PSF2, RING11, D6S217E
6	TAP2	ENSG00000204267	ENST00000374897	protein_coding	KNOWN	None	44	2061	686	32793192	32806557	-1	ABCB3	PSF2, RING11, D6S217E
6	TAP2	ENSG00000204267	ENST00000464100	retained_intron	KNOWN	None	44	None	None	32796721	32798504	-1	ABCB3	PSF2, RING11, D6S217E
6	TAP2	ENSG00000204267	ENST00000485701	processed_transcript	PUTATIVE	None	44	None	None	32800072	32800510	-1	ABCB3	PSF2, RING11, D6S217E
HSCHR6_MHC_MCF	RPL32P1	ENSG00000231288	ENST00000436579	processed_pseudogene	KNOWN	None	10339	None	None	33080692	33081101	1	RPL32P	RPL32-L
HSCHR6_MHC_MCF	HLA-DPA2	ENSG00000230878	ENST00000415908	unprocessed_pseudogene	KNOWN	None	4939	None	None	33092978	33098520	-1	HLA-DP2A	None
6	None	ENSG00000219776	ENST00000402896	processed_pseudogene	KNOWN	None	None	None	None	131790199	131790676	1	None	None
13	BIVM	ENSG00000134897	ENST00000257336	protein_coding	KNOWN	CCDS9505	16034	1512	503	103451399	103493881	1	None	FLJ20159
13	BIVM	ENSG00000134897	ENST00000491929	processed_transcript	KNOWN	None	16034	None	None	103452751	103459750	1	None	FLJ20159
13	BIVM	ENSG00000134897	ENST00000481069	processed_transcript	KNOWN	None	16034	None	None	103453844	103459673	1	None	FLJ20159
13	BIVM	ENSG00000134897	ENST00000474443	processed_transcript	KNOWN	None	16034	None	None	103459894	103469224	1	None	FLJ20159
13	BIVM	ENSG00000134897	ENST00000490317	retained_intron	KNOWN	None	16034	None	None	103472737	103492513	1	None	FLJ20159
13	BIVM	ENSG00000134897	ENST00000419638	protein_coding	KNOWN	None	16034	945	314	103451561	103492168	1	None	FLJ20159
13	BIVM	ENSG00000134897	ENST00000448849	protein_coding	KNOWN	CCDS53879	16034	846	281	103451399	103493885	1	None	FLJ20159
9	C9orf89	ENSG00000165233	ENST00000375464	protein_coding	KNOWN	CCDS6702	28148	552	183	95858500	95875564	1	None	MGC11115, bA370F5.1, BinCARD
9	C9orf89	ENSG00000165233	ENST00000466409	nonsense_mediated_decay	KNOWN	None	28148	687	228	95858500	95875564	1	None	MGC11115, bA370F5.1, BinCARD
9	C9orf89	ENSG00000165233	ENST00000495641	processed_transcript	KNOWN	None	28148	None	None	95858510	95873496	1	None	MGC11115, bA370F5.1, BinCARD
9	C9orf89	ENSG00000165233	ENST00000466929	processed_transcript	KNOWN	None	28148	None	None	95858539	95873003	1	None	MGC11115, bA370F5.1, BinCARD
9	C9orf89	ENSG00000165233	ENST00000468781	processed_transcript	KNOWN	None	28148	None	None	95858560	95875489	1	None	MGC11115, bA370F5.1, BinCARD
9	C9orf89	ENSG00000165233	ENST00000490488	processed_transcript	KNOWN	None	28148	None	None	95858597	95875554	1	None	MGC11115, bA370F5.1, BinCARD
9	C9orf89	ENSG00000165233	ENST00000498243	processed_transcript	KNOWN	None	28148	None	None	95858605	95873469	1	None	MGC11115, bA370F5.1, BinCARD
9	C9orf89	ENSG00000165233	ENST00000475574	processed_transcript	KNOWN	None	28148	None	None	95870030	95874571	1	None	MGC11115, bA370F5.1, BinCARD
9	C9orf89	ENSG00000165233	ENST00000488630	processed_transcript	KNOWN	None	28148	None	None	95872174	95875565	1	None	MGC11115, bA370F5.1, BinCARD
HSCHR6_MHC_MCF	COL11A2P1	ENSG00000234249	ENST00000412646	unprocessed_pseudogene	KNOWN	None	13947	None	None	33104992	33108528	-1	COL11A2P	cD0826Q1.1
12	CALCOCO1	ENSG00000012822	ENST00000546443	protein_coding	NOVEL	None	29306	698	231	54104903	54108413	-1	None	KIAA1536, calphoglin, Cocoa
12	CALCOCO1	ENSG00000012822	ENST00000430117	protein_coding	NOVEL	CCDS44908	29306	1821	606	54104903	54121223	-1	None	KIAA1536, calphoglin, Cocoa
12	CALCOCO1	ENSG00000012822	ENST00000262059	protein_coding	KNOWN	None	29306	2073	690	54104903	54121529	-1	None	KIAA1536, calphoglin, Cocoa
12	CALCOCO1	ENSG00000012822	ENST00000548263	protein_coding	KNOWN	None	29306	1902	633	54104943	54121212	-1	None	KIAA1536, calphoglin, Cocoa
12	CALCOCO1	ENSG00000012822	ENST00000550804	protein_coding	KNOWN	CCDS8864	29306	2076	691	54105574	54121224	-1	None	KIAA1536, calphoglin, Cocoa
12	CALCOCO1	ENSG00000012822	ENST00000549935	retained_intron	KNOWN	None	29306	None	None	54106954	54121236	-1	None	KIAA1536, calphoglin, Cocoa
12	CALCOCO1	ENSG00000012822	ENST00000549613	retained_intron	KNOWN	None	29306	None	None	54107921	54110133	-1	None	KIAA1536, calphoglin, Cocoa
12	CALCOCO1	ENSG00000012822	ENST00000552282	retained_intron	KNOWN	None	29306	None	None	54109459	54113562	-1	None	KIAA1536, calphoglin, Cocoa
12	CALCOCO1	ENSG00000012822	ENST00000547988	retained_intron	KNOWN	None	29306	None	None	54113556	54121236	-1	None	KIAA1536, calphoglin, Cocoa
12	CALCOCO1	ENSG00000012822	ENST00000551900	protein_coding	PUTATIVE	None	29306	494	163	54115924	54121236	-1	None	KIAA1536, calphoglin, Cocoa
12	CALCOCO1	ENSG00000012822	ENST00000546619	protein_coding	PUTATIVE	None	29306	479	158	54115939	54121236	-1	None	KIAA1536, calphoglin, Cocoa
12	CALCOCO1	ENSG00000012822	ENST00000547949	processed_transcript	KNOWN	None	29306	None	None	54115948	54119051	-1	None	KIAA1536, calphoglin, Cocoa
12	CALCOCO1	ENSG00000012822	ENST00000553154	retained_intron	KNOWN	None	29306	None	None	54117334	54121236	-1	None	KIAA1536, calphoglin, Cocoa
12	CALCOCO1	ENSG00000012822	ENST00000549784	protein_coding	PUTATIVE	None	29306	449	148	54117378	54121390	-1	None	KIAA1536, calphoglin, Cocoa
12	CALCOCO1	ENSG00000012822	ENST00000549173	protein_coding	PUTATIVE	None	29306	482	159	54117405	54121235	-1	None	KIAA1536, calphoglin, Cocoa
12	CALCOCO1	ENSG00000012822	ENST00000548177	protein_coding	PUTATIVE	None	29306	403	133	54117424	54121236	-1	None	KIAA1536, calphoglin, Cocoa
12	CALCOCO1	ENSG00000012822	ENST00000552623	protein_coding	PUTATIVE	None	29306	360	119	54117467	54120124	-1	None	KIAA1536, calphoglin, Cocoa
12	CALCOCO1	ENSG00000012822	ENST00000549349	protein_coding	PUTATIVE	None	29306	347	114	54117480	54121241	-1	None	KIAA1536, calphoglin, Cocoa
12	CALCOCO1	ENSG00000012822	ENST00000549688	protein_coding	PUTATIVE	None	29306	314	103	54117513	54120124	-1	None	KIAA1536, calphoglin, Cocoa
12	CALCOCO1	ENSG00000012822	ENST00000547885	processed_transcript	KNOWN	None	29306	None	None	54117828	54121251	-1	None	KIAA1536, calphoglin, Cocoa
12	CALCOCO1	ENSG00000012822	ENST00000548431	retained_intron	KNOWN	None	29306	None	None	54118188	54121275	-1	None	KIAA1536, calphoglin, Cocoa
12	CALCOCO1	ENSG00000012822	ENST00000546774	retained_intron	KNOWN	None	29306	None	None	54118367	54121236	-1	None	KIAA1536, calphoglin, Cocoa
11	None	ENSG00000254757	ENST00000534291	lincRNA	KNOWN	None	None	None	None	3490549	3552558	1	None	None
10	None	ENSG00000201412	ENST00000364542	misc_RNA	NOVEL	None	None	None	None	94470256	94470365	-1	None	None
13	PROSER1	ENSG00000120685	ENST00000484434	processed_transcript	KNOWN	None	20291	None	None	39584002	39598067	-1	C13orf23	bA50D16.2, FLJ12661
13	PROSER1	ENSG00000120685	ENST00000352251	protein_coding	KNOWN	CCDS9368	20291	2835	944	39584003	39612213	-1	C13orf23	bA50D16.2, FLJ12661
13	PROSER1	ENSG00000120685	ENST00000468017	processed_transcript	KNOWN	None	20291	None	None	39585277	39586915	-1	C13orf23	bA50D16.2, FLJ12661
13	PROSER1	ENSG00000120685	ENST00000492646	retained_intron	KNOWN	None	20291	None	None	39585513	39586612	-1	C13orf23	bA50D16.2, FLJ12661
13	PROSER1	ENSG00000120685	ENST00000602512	retained_intron	KNOWN	None	20291	None	None	39588507	39596879	-1	C13orf23	bA50D16.2, FLJ12661
13	PROSER1	ENSG00000120685	ENST00000602899	retained_intron	KNOWN	None	20291	None	None	39588540	39592136	-1	C13orf23	bA50D16.2, FLJ12661
13	PROSER1	ENSG00000120685	ENST00000496138	retained_intron	KNOWN	None	20291	None	None	39596491	39600609	-1	C13orf23	bA50D16.2, FLJ12661
13	PROSER1	ENSG00000120685	ENST00000436678	retained_intron	KNOWN	None	20291	None	None	39598640	39605846	-1	C13orf23	bA50D16.2, FLJ12661
13	PROSER1	ENSG00000120685	ENST00000418503	protein_coding	NOVEL	None	20291	303	100	39602364	39611974	-1	C13orf23	bA50D16.2, FLJ12661
13	PROSER1	ENSG00000120685	ENST00000602534	retained_intron	KNOWN	None	20291	None	None	39603169	39611431	-1	C13orf23	bA50D16.2, FLJ12661
13	PROSER1	ENSG00000120685	ENST00000350125	protein_coding	KNOWN	None	20291	2769	922	39584003	39612252	-1	C13orf23	bA50D16.2, FLJ12661
11	SLC5A12	ENSG00000148942	ENST00000396005	protein_coding	KNOWN	CCDS7860	28750	1857	618	26688566	26743571	-1	None	MGC52019, SMCT2
11	SLC5A12	ENSG00000148942	ENST00000527405	nonsense_mediated_decay	KNOWN	None	28750	834	277	26692360	26744974	-1	None	MGC52019, SMCT2
11	SLC5A12	ENSG00000148942	ENST00000280467	protein_coding	KNOWN	None	28750	1191	396	26713205	26743546	-1	None	MGC52019, SMCT2
11	SLC5A12	ENSG00000148942	ENST00000533617	protein_coding	PUTATIVE	None	28750	452	149	26718735	26744908	-1	None	MGC52019, SMCT2
11	SLC5A12	ENSG00000148942	ENST00000528822	retained_intron	KNOWN	None	28750	None	None	26730607	26743579	-1	None	MGC52019, SMCT2
11	None	ENSG00000255367	ENST00000527970	processed_transcript	KNOWN	None	None	None	None	3502750	3602441	-1	None	None
11	None	ENSG00000255367	ENST00000526533	processed_transcript	PUTATIVE	None	None	None	None	3529210	3593217	-1	None	None
9	RGP1	ENSG00000107185	ENST00000378078	protein_coding	KNOWN	CCDS47964	21965	1176	391	35749284	35758572	1	KIAA0258	None
9	RGP1	ENSG00000107185	ENST00000496906	retained_intron	KNOWN	None	21965	None	None	35749288	35754139	1	KIAA0258	None
9	RGP1	ENSG00000107185	ENST00000456972	protein_coding	KNOWN	None	21965	1296	431	35749203	35752871	1	KIAA0258	None
1	MTFR1L	ENSG00000117640	ENST00000424294	protein_coding	KNOWN	None	28836	457	151	26145131	26156005	1	FAM54B	None
1	MTFR1L	ENSG00000117640	ENST00000533762	protein_coding	PUTATIVE	None	28836	41	12	26146417	26153198	1	FAM54B	None
1	MTFR1L	ENSG00000117640	ENST00000529116	protein_coding	KNOWN	None	28836	345	114	26146420	26153211	1	FAM54B	None
1	MTFR1L	ENSG00000117640	ENST00000474295	protein_coding	KNOWN	CCDS44089	28836	618	205	26146420	26159429	1	FAM54B	None
1	MTFR1L	ENSG00000117640	ENST00000488327	protein_coding	PUTATIVE	None	28836	160	52	26146430	26153317	1	FAM54B	None
1	MTFR1L	ENSG00000117640	ENST00000472643	protein_coding	PUTATIVE	None	28836	481	159	26146431	26156320	1	FAM54B	None
1	MTFR1L	ENSG00000117640	ENST00000494293	retained_intron	KNOWN	None	28836	None	None	26146446	26150238	1	FAM54B	None
1	MTFR1L	ENSG00000117640	ENST00000469815	processed_transcript	KNOWN	None	28836	None	None	26146469	26158825	1	FAM54B	None
1	MTFR1L	ENSG00000117640	ENST00000526894	protein_coding	NOVEL	None	28836	549	182	26146470	26156322	1	FAM54B	None
1	MTFR1L	ENSG00000117640	ENST00000478284	nonsense_mediated_decay	KNOWN	None	28836	222	73	26146472	26156112	1	FAM54B	None
1	MTFR1L	ENSG00000117640	ENST00000524618	protein_coding	PUTATIVE	None	28836	588	195	26146477	26158702	1	FAM54B	None
1	MTFR1L	ENSG00000117640	ENST00000374307	protein_coding	KNOWN	None	28836	843	280	26146494	26159429	1	FAM54B	None
1	MTFR1L	ENSG00000117640	ENST00000528624	nonsense_mediated_decay	KNOWN	None	28836	159	52	26146679	26152891	1	FAM54B	None
1	MTFR1L	ENSG00000117640	ENST00000525713	protein_coding	KNOWN	None	28836	332	109	26146684	26153198	1	FAM54B	None
1	MTFR1L	ENSG00000117640	ENST00000374301	protein_coding	KNOWN	CCDS41284	28836	879	292	26146684	26159429	1	FAM54B	None
1	MTFR1L	ENSG00000117640	ENST00000464008	nonsense_mediated_decay	KNOWN	None	28836	159	52	26146723	26156149	1	FAM54B	None
1	MTFR1L	ENSG00000117640	ENST00000526158	protein_coding	KNOWN	None	28836	512	169	26146934	26156060	1	FAM54B	None
1	MTFR1L	ENSG00000117640	ENST00000530599	nonsense_mediated_decay	KNOWN	None	28836	159	52	26147253	26153297	1	FAM54B	None
1	MTFR1L	ENSG00000117640	ENST00000374300	protein_coding	KNOWN	CCDS41284	28836	879	292	26147319	26159429	1	FAM54B	None
1	MTFR1L	ENSG00000117640	ENST00000466284	protein_coding	KNOWN	CCDS44089	28836	618	205	26148014	26159427	1	FAM54B	None
1	MTFR1L	ENSG00000117640	ENST00000531361	processed_transcript	KNOWN	None	28836	None	None	26149487	26156288	1	FAM54B	None
1	MTFR1L	ENSG00000117640	ENST00000497956	retained_intron	KNOWN	None	28836	None	None	26152123	26159425	1	FAM54B	None
1	MTFR1L	ENSG00000117640	ENST00000374303	protein_coding	KNOWN	CCDS41284	28836	879	292	26146397	26159432	1	FAM54B	None
7	FEZF1-AS1	ENSG00000230316	ENST00000428449	antisense	KNOWN	None	41001	None	None	121943712	121950131	1	None	None
7	FEZF1-AS1	ENSG00000230316	ENST00000437317	antisense	KNOWN	None	41001	None	None	121945004	121945871	1	None	None
7	FEZF1-AS1	ENSG00000230316	ENST00000424404	antisense	KNOWN	None	41001	None	None	121946935	121948611	1	None	None
1	MAD2L2	ENSG00000116670	ENST00000235310	protein_coding	KNOWN	CCDS134	6764	636	211	11734537	11751707	-1	None	MAD2B, REV7, POLZ2
1	MAD2L2	ENSG00000116670	ENST00000376672	protein_coding	KNOWN	None	6764	675	224	11734582	11751534	-1	None	MAD2B, REV7, POLZ2
1	MAD2L2	ENSG00000116670	ENST00000376669	protein_coding	KNOWN	None	6764	675	224	11734735	11741175	-1	None	MAD2B, REV7, POLZ2
1	MAD2L2	ENSG00000116670	ENST00000376667	protein_coding	KNOWN	CCDS134	6764	636	211	11734805	11751666	-1	None	MAD2B, REV7, POLZ2
1	MAD2L2	ENSG00000116670	ENST00000445656	protein_coding	KNOWN	None	6764	593	196	11735713	11741168	-1	None	MAD2B, REV7, POLZ2
1	MAD2L2	ENSG00000116670	ENST00000456915	protein_coding	KNOWN	None	6764	502	166	11735714	11741188	-1	None	MAD2B, REV7, POLZ2
1	MAD2L2	ENSG00000116670	ENST00000376664	retained_intron	KNOWN	None	6764	None	None	11735757	11741168	-1	None	MAD2B, REV7, POLZ2
1	MAD2L2	ENSG00000116670	ENST00000376655	retained_intron	KNOWN	None	6764	None	None	11736929	11751650	-1	None	MAD2B, REV7, POLZ2
1	MAD2L2	ENSG00000116670	ENST00000376692	protein_coding	KNOWN	CCDS134	6764	636	211	11734538	11741271	-1	None	MAD2B, REV7, POLZ2
4	None	ENSG00000250696	ENST00000504301	antisense	KNOWN	None	None	None	None	70047818	70080193	1	None	None
4	None	ENSG00000250696	ENST00000505646	antisense	KNOWN	None	None	None	None	70066138	70082484	1	None	None
6	RNF217	ENSG00000146373	ENST00000521654	protein_coding	NOVEL	None	21487	1629	542	125283691	125413779	1	C6orf172, IBRDC1	MGC26996, dJ84N20.1
6	RNF217	ENSG00000146373	ENST00000519971	processed_transcript	KNOWN	None	21487	None	None	125284395	125292719	1	C6orf172, IBRDC1	MGC26996, dJ84N20.1
6	RNF217	ENSG00000146373	ENST00000519565	nonsense_mediated_decay	KNOWN	None	21487	236	77	125284454	125413779	1	C6orf172, IBRDC1	MGC26996, dJ84N20.1
6	RNF217	ENSG00000146373	ENST00000454842	processed_transcript	KNOWN	None	21487	None	None	125292401	125366557	1	C6orf172, IBRDC1	MGC26996, dJ84N20.1
6	RNF217	ENSG00000146373	ENST00000519799	protein_coding	KNOWN	None	21487	6	1	125304510	125330428	1	C6orf172, IBRDC1	MGC26996, dJ84N20.1
6	RNF217	ENSG00000146373	ENST00000368414	protein_coding	PUTATIVE	None	21487	315	104	125304510	125404868	1	C6orf172, IBRDC1	MGC26996, dJ84N20.1
6	RNF217	ENSG00000146373	ENST00000359704	protein_coding	KNOWN	CCDS5129	21487	828	275	125304514	125404661	1	C6orf172, IBRDC1	MGC26996, dJ84N20.1
6	RNF217	ENSG00000146373	ENST00000432158	nonsense_mediated_decay	KNOWN	None	21487	196	64	125366449	125398004	1	C6orf172, IBRDC1	MGC26996, dJ84N20.1
6	RNF217	ENSG00000146373	ENST00000368415	retained_intron	KNOWN	None	21487	None	None	125367746	125404100	1	C6orf172, IBRDC1	MGC26996, dJ84N20.1
6	RNF217	ENSG00000146373	ENST00000560949	protein_coding	KNOWN	None	21487	924	307	125283862	125404864	1	C6orf172, IBRDC1	MGC26996, dJ84N20.1
6	RNF217	ENSG00000146373	ENST00000275184	protein_coding	KNOWN	None	21487	561	186	125369358	125404652	1	C6orf172, IBRDC1	MGC26996, dJ84N20.1
9	None	ENSG00000225564	ENST00000411575	lincRNA	KNOWN	None	None	None	None	105902805	106087316	-1	None	None
9	None	ENSG00000225564	ENST00000425157	lincRNA	KNOWN	None	None	None	None	105969455	106015548	-1	None	None
9	None	ENSG00000225564	ENST00000455051	lincRNA	KNOWN	None	None	None	None	106038313	106087060	-1	None	None
11	CBL	ENSG00000110395	ENST00000264033	protein_coding	KNOWN	CCDS8418	1541	2721	906	119076752	119178859	1	CBL2	RNF55, c-Cbl
4	None	ENSG00000268803	ENST00000514003	unprocessed_pseudogene	KNOWN	None	None	None	None	70081626	70082353	-1	None	None
HSCHR6_MHC_QBL	HLA-DOA	ENSG00000206292	ENST00000383226	protein_coding	KNOWN	None	4936	753	250	32900651	32906085	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
HSCHR6_MHC_QBL	HLA-DOA	ENSG00000206292	ENST00000474066	processed_transcript	KNOWN	None	4936	None	None	32903080	32903857	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
HSCHR6_MHC_QBL	HLA-DOA	ENSG00000206292	ENST00000491304	retained_intron	KNOWN	None	4936	None	None	32903274	32904527	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
HSCHR6_MHC_QBL	HLA-DOA	ENSG00000206292	ENST00000477987	processed_transcript	KNOWN	None	4936	None	None	32903918	32904597	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
HSCHR6_MHC_QBL	HLA-DOA	ENSG00000206292	ENST00000383225	protein_coding	KNOWN	None	4936	260	85	32903970	32906052	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
HSCHR6_MHC_QBL	HLA-DOA	ENSG00000206292	ENST00000484149	processed_transcript	KNOWN	None	4936	None	None	32904534	32906055	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
HSCHR6_MHC_QBL	HLA-DOA	ENSG00000206292	ENST00000550072	protein_coding	KNOWN	None	4936	186	61	32903219	32906033	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
7	HOXA3	ENSG00000105997	ENST00000396352	protein_coding	KNOWN	CCDS5404	5104	1332	443	27145803	27159214	-1	HOX1E, HOX1	None
7	HOXA3	ENSG00000105997	ENST00000317201	protein_coding	KNOWN	CCDS5404	5104	1332	443	27146631	27166639	-1	HOX1E, HOX1	None
7	HOXA3	ENSG00000105997	ENST00000522788	protein_coding	KNOWN	None	5104	253	83	27150007	27179825	-1	HOX1E, HOX1	None
7	HOXA3	ENSG00000105997	ENST00000522456	protein_coding	KNOWN	None	5104	162	53	27150098	27153464	-1	HOX1E, HOX1	None
7	HOXA3	ENSG00000105997	ENST00000521779	protein_coding	KNOWN	None	5104	37	11	27150223	27179838	-1	HOX1E, HOX1	None
7	HOXA3	ENSG00000105997	ENST00000521401	processed_transcript	KNOWN	None	5104	None	None	27150310	27179844	-1	HOX1E, HOX1	None
7	HOXA3	ENSG00000105997	ENST00000518451	processed_transcript	KNOWN	None	5104	None	None	27166547	27192200	-1	HOX1E, HOX1	None
7	HOXA3	ENSG00000105997	ENST00000467897	processed_transcript	KNOWN	None	5104	None	None	27168588	27192180	-1	HOX1E, HOX1	None
X	CT47A7	ENSG00000228517	ENST00000434883	protein_coding	KNOWN	CCDS35385	33288	867	288	120087142	120090454	-1	None	CT47.7
1	TNFSF18	ENSG00000120337	ENST00000404377	protein_coding	KNOWN	CCDS1305	11932	600	199	173009100	173020103	-1	None	AITRL, TL6, hGITRL
1	TNFSF18	ENSG00000120337	ENST00000239468	protein_coding	KNOWN	None	11932	534	177	173009100	173020056	-1	None	AITRL, TL6, hGITRL
9	None	ENSG00000226566	ENST00000421507	lincRNA	KNOWN	None	None	None	None	106124234	106192174	-1	None	None
X	PGAM1P7	ENSG00000213997	ENST00000413837	processed_pseudogene	KNOWN	None	42454	None	None	46506029	46506765	-1	None	None
4	None	ENSG00000249763	ENST00000512892	processed_pseudogene	KNOWN	None	None	None	None	70108346	70116533	1	None	None
6	FHL5	ENSG00000112214	ENST00000450218	protein_coding	KNOWN	None	17371	630	209	97010460	97058573	1	None	FLJ33049, ACT, dJ393D12.2
6	FHL5	ENSG00000112214	ENST00000326771	protein_coding	KNOWN	CCDS5035	17371	855	284	97010460	97064444	1	None	FLJ33049, ACT, dJ393D12.2
6	FHL5	ENSG00000112214	ENST00000541107	protein_coding	KNOWN	CCDS5035	17371	855	284	97010424	97064512	1	None	FLJ33049, ACT, dJ393D12.2
11	None	ENSG00000255522	ENST00000531775	processed_pseudogene	KNOWN	None	None	None	None	3552650	3552838	1	None	None
9	RNA5SP291	ENSG00000253031	ENST00000517222	rRNA	KNOWN	None	43191	None	None	106451755	106451859	-1	RN5S291	None
18	RNF125	ENSG00000101695	ENST00000217740	protein_coding	KNOWN	CCDS11902	21150	699	232	29598335	29653176	1	None	FLJ20456
18	RNF125	ENSG00000101695	ENST00000580209	nonsense_mediated_decay	KNOWN	None	21150	121	39	29617148	29646104	1	None	FLJ20456
18	RNF125	ENSG00000101695	ENST00000583384	processed_transcript	KNOWN	None	21150	None	None	29621786	29648452	1	None	FLJ20456
18	RNF125	ENSG00000101695	ENST00000583814	retained_intron	KNOWN	None	21150	None	None	29621869	29648513	1	None	FLJ20456
18	RNF125	ENSG00000101695	ENST00000580863	retained_intron	KNOWN	None	21150	None	None	29622042	29648391	1	None	FLJ20456
22	NDUFA6	ENSG00000184983	ENST00000602404	protein_coding	NOVEL	None	7690	387	128	42481529	42486783	-1	None	B14, LYRM6, CI-B14, NADHB14
22	NDUFA6	ENSG00000184983	ENST00000498737	protein_coding	KNOWN	CCDS33656	7690	465	154	42481529	42486959	-1	None	B14, LYRM6, CI-B14, NADHB14
22	NDUFA6	ENSG00000184983	ENST00000470753	protein_coding	NOVEL	None	7690	216	71	42482120	42483339	-1	None	B14, LYRM6, CI-B14, NADHB14
X	YBX1P8	ENSG00000226048	ENST00000421881	processed_pseudogene	KNOWN	None	42429	None	None	46544200	46545142	-1	None	None
11	RPS3AP39	ENSG00000237226	ENST00000426436	processed_pseudogene	KNOWN	None	35490	None	None	3570975	3571749	-1	None	None
9	None	ENSG00000270332	ENST00000603487	lincRNA	KNOWN	None	None	None	None	106842305	106854755	-1	None	None
9	None	ENSG00000270332	ENST00000603949	lincRNA	KNOWN	None	None	None	None	106854683	106855354	-1	None	None
X	None	ENSG00000215284	ENST00000399931	processed_pseudogene	KNOWN	None	None	None	None	46584599	46585253	-1	None	None
11	None	ENSG00000221019	ENST00000408092	miRNA	NOVEL	None	None	None	None	3578572	3578719	1	None	None
X	RNU6-1189P	ENSG00000206685	ENST00000383958	snRNA	KNOWN	None	48152	None	None	46946905	46947011	1	None	None
11	RPS24P14	ENSG00000223688	ENST00000417526	processed_pseudogene	KNOWN	None	35744	None	None	3580887	3581252	1	None	None
X	RNU12-2P	ENSG00000201659	ENST00000364789	snRNA	KNOWN	None	10109	None	None	46992070	46992225	1	RNU12, RNU12P	U12
X	None	ENSG00000237351	ENST00000456427	processed_pseudogene	KNOWN	None	None	None	None	47016037	47017598	-1	None	None
9	PRDM12	ENSG00000130711	ENST00000253008	protein_coding	KNOWN	CCDS6934	13997	1104	367	133539981	133558368	1	None	None
16	None	ENSG00000260387	ENST00000566485	lincRNA	KNOWN	None	None	None	None	86669934	86670751	-1	None	None
7	None	ENSG00000240499	ENST00000482375	antisense	KNOWN	None	None	None	None	121968523	122019000	1	None	None
7	None	ENSG00000240499	ENST00000602012	antisense	KNOWN	None	None	None	None	121968523	122019242	1	None	None
7	None	ENSG00000240499	ENST00000602199	antisense	KNOWN	None	None	None	None	121968523	122019272	1	None	None
7	None	ENSG00000240499	ENST00000591140	antisense	KNOWN	None	None	None	None	121968527	122066212	1	None	None
7	None	ENSG00000240499	ENST00000593910	antisense	KNOWN	None	None	None	None	121968533	122062115	1	None	None
7	None	ENSG00000240499	ENST00000422260	antisense	KNOWN	None	None	None	None	122062056	122067495	1	None	None
7	None	ENSG00000240499	ENST00000592542	antisense	KNOWN	None	None	None	None	122062085	122080410	1	None	None
12	CEP290	ENSG00000198707	ENST00000547691	protein_coding	KNOWN	None	29021	4620	1539	88442793	88497965	-1	None	KIAA0373, FLJ13615, 3H11Ag, rd16, NPHP6, JBTS5, SLSN6, LCA10, MKS4, BBS14, CT87, POC3
12	CEP290	ENSG00000198707	ENST00000552810	protein_coding	KNOWN	CCDS55858	29021	7440	2479	88442797	88535993	-1	None	KIAA0373, FLJ13615, 3H11Ag, rd16, NPHP6, JBTS5, SLSN6, LCA10, MKS4, BBS14, CT87, POC3
12	CEP290	ENSG00000198707	ENST00000604024	protein_coding	PUTATIVE	None	29021	2574	857	88487374	88523488	-1	None	KIAA0373, FLJ13615, 3H11Ag, rd16, NPHP6, JBTS5, SLSN6, LCA10, MKS4, BBS14, CT87, POC3
12	CEP290	ENSG00000198707	ENST00000547926	nonsense_mediated_decay	KNOWN	None	29021	1842	613	88504979	88534810	-1	None	KIAA0373, FLJ13615, 3H11Ag, rd16, NPHP6, JBTS5, SLSN6, LCA10, MKS4, BBS14, CT87, POC3
12	CEP290	ENSG00000198707	ENST00000550962	protein_coding	PUTATIVE	None	29021	492	163	88524168	88535854	-1	None	KIAA0373, FLJ13615, 3H11Ag, rd16, NPHP6, JBTS5, SLSN6, LCA10, MKS4, BBS14, CT87, POC3
12	CEP290	ENSG00000198707	ENST00000552770	protein_coding	PUTATIVE	None	29021	324	107	88529435	88534771	-1	None	KIAA0373, FLJ13615, 3H11Ag, rd16, NPHP6, JBTS5, SLSN6, LCA10, MKS4, BBS14, CT87, POC3
12	CEP290	ENSG00000198707	ENST00000309041	protein_coding	KNOWN	None	29021	7446	2481	88442961	88535747	-1	None	KIAA0373, FLJ13615, 3H11Ag, rd16, NPHP6, JBTS5, SLSN6, LCA10, MKS4, BBS14, CT87, POC3
12	CEP290	ENSG00000198707	ENST00000397838	protein_coding	KNOWN	None	29021	4620	1539	88442961	88523488	-1	None	KIAA0373, FLJ13615, 3H11Ag, rd16, NPHP6, JBTS5, SLSN6, LCA10, MKS4, BBS14, CT87, POC3
16	None	ENSG00000261161	ENST00000565822	lincRNA	KNOWN	None	None	None	None	86679907	86702529	1	None	None
16	None	ENSG00000260026	ENST00000563331	lincRNA	KNOWN	None	None	None	None	86754294	86755560	-1	None	None
6	None	ENSG00000237987	ENST00000424343	lincRNA	KNOWN	None	None	None	None	168625959	168627197	-1	None	None
3	WWTR1	ENSG00000018408	ENST00000465804	protein_coding	KNOWN	CCDS3144	24042	1203	400	149235022	149421060	-1	None	TAZ, DKFZp586I1419
3	WWTR1	ENSG00000018408	ENST00000360632	protein_coding	KNOWN	CCDS3144	24042	1203	400	149238032	149375888	-1	None	TAZ, DKFZp586I1419
3	WWTR1	ENSG00000018408	ENST00000467467	protein_coding	KNOWN	CCDS3144	24042	1203	400	149238397	149375812	-1	None	TAZ, DKFZp586I1419
3	WWTR1	ENSG00000018408	ENST00000471586	nonsense_mediated_decay	KNOWN	None	24042	128	41	149238486	149258847	-1	None	TAZ, DKFZp586I1419
3	WWTR1	ENSG00000018408	ENST00000494754	nonsense_mediated_decay	KNOWN	None	24042	89	28	149238509	149258053	-1	None	TAZ, DKFZp586I1419
3	WWTR1	ENSG00000018408	ENST00000472417	protein_coding	PUTATIVE	None	24042	741	246	149238628	149294039	-1	None	TAZ, DKFZp586I1419
3	WWTR1	ENSG00000018408	ENST00000485244	retained_intron	KNOWN	None	24042	None	None	149243592	149260226	-1	None	TAZ, DKFZp586I1419
3	WWTR1	ENSG00000018408	ENST00000479238	protein_coding	KNOWN	None	24042	568	188	149290651	149375222	-1	None	TAZ, DKFZp586I1419
3	WWTR1	ENSG00000018408	ENST00000485352	protein_coding	KNOWN	None	24042	416	137	149374678	149375554	-1	None	TAZ, DKFZp586I1419
3	WWTR1	ENSG00000018408	ENST00000475579	protein_coding	KNOWN	None	24042	329	108	149374765	149388696	-1	None	TAZ, DKFZp586I1419
3	WWTR1	ENSG00000018408	ENST00000460517	protein_coding	KNOWN	None	24042	63	20	149375031	149375828	-1	None	TAZ, DKFZp586I1419
3	WWTR1	ENSG00000018408	ENST00000474080	processed_transcript	KNOWN	None	24042	None	None	149419392	149454501	-1	None	TAZ, DKFZp586I1419
HSCHR6_MHC_DBB	NRM	ENSG00000236843	ENST00000491048	processed_transcript	KNOWN	None	8003	None	None	30646089	30648395	-1	None	NRM29
HSCHR6_MHC_DBB	NRM	ENSG00000236843	ENST00000444252	protein_coding	KNOWN	None	8003	787	261	30646089	30648765	-1	None	NRM29
HSCHR6_MHC_DBB	NRM	ENSG00000236843	ENST00000493210	processed_transcript	KNOWN	None	8003	None	None	30646089	30649009	-1	None	NRM29
HSCHR6_MHC_DBB	NRM	ENSG00000236843	ENST00000475256	processed_transcript	KNOWN	None	8003	None	None	30646089	30649016	-1	None	NRM29
HSCHR6_MHC_DBB	NRM	ENSG00000236843	ENST00000445058	protein_coding	KNOWN	None	8003	612	203	30646089	30649018	-1	None	NRM29
HSCHR6_MHC_DBB	NRM	ENSG00000236843	ENST00000469697	processed_transcript	KNOWN	None	8003	None	None	30646089	30649028	-1	None	NRM29
HSCHR6_MHC_DBB	NRM	ENSG00000236843	ENST00000493215	processed_transcript	KNOWN	None	8003	None	None	30646089	30649044	-1	None	NRM29
HSCHR6_MHC_DBB	NRM	ENSG00000236843	ENST00000422747	protein_coding	KNOWN	None	8003	789	262	30646089	30649462	-1	None	NRM29
16	None	ENSG00000261175	ENST00000569740	lincRNA	KNOWN	None	None	None	None	86755697	86771432	1	None	None
16	None	ENSG00000261175	ENST00000562064	lincRNA	KNOWN	None	None	None	None	86755698	86771325	1	None	None
11	None	ENSG00000230851	ENST00000415407	processed_pseudogene	KNOWN	None	None	None	None	3612507	3612845	-1	None	None
11	None	ENSG00000268602	ENST00000599133	protein_coding	NOVEL	None	None	39	12	107582998	107595135	1	None	None
16	IGFALS	ENSG00000099769	ENST00000215539	protein_coding	KNOWN	CCDS10446	5468	1818	605	1840414	1843764	-1	None	ALS
16	IGFALS	ENSG00000099769	ENST00000415638	protein_coding	KNOWN	CCDS53982	5468	1932	643	1840477	1843733	-1	None	ALS
16	IGFALS	ENSG00000099769	ENST00000568221	protein_coding	PUTATIVE	None	5468	396	131	1841806	1844972	-1	None	ALS
1	TNFSF4	ENSG00000117586	ENST00000367718	protein_coding	KNOWN	None	11934	402	133	173152873	173174697	-1	TXGP1	OX-40L, gp34, CD252
1	TNFSF4	ENSG00000117586	ENST00000281834	protein_coding	KNOWN	CCDS1306	11934	552	183	173152874	173176452	-1	TXGP1	OX-40L, gp34, CD252
1	TNFSF4	ENSG00000117586	ENST00000488053	processed_transcript	KNOWN	None	11934	None	None	173157603	173174863	-1	TXGP1	OX-40L, gp34, CD252
11	OR7E117P	ENSG00000238161	ENST00000422682	unprocessed_pseudogene	KNOWN	None	15303	None	None	3620825	3621936	-1	None	OST716
6	None	ENSG00000228361	ENST00000434596	lincRNA	KNOWN	None	None	None	None	168630412	168641395	1	None	None
7	KDELR2	ENSG00000136240	ENST00000463747	processed_transcript	KNOWN	None	6305	None	None	6485584	6523821	-1	None	ELP-1, ERD2.2
7	KDELR2	ENSG00000136240	ENST00000258739	protein_coding	KNOWN	CCDS5351	6305	639	212	6500712	6523873	-1	None	ELP-1, ERD2.2
7	KDELR2	ENSG00000136240	ENST00000454368	retained_intron	KNOWN	None	6305	None	None	6501393	6510037	-1	None	ELP-1, ERD2.2
7	KDELR2	ENSG00000136240	ENST00000490996	protein_coding	KNOWN	CCDS43550	6305	561	186	6502503	6523688	-1	None	ELP-1, ERD2.2
7	KDELR2	ENSG00000136240	ENST00000382267	nonsense_mediated_decay	KNOWN	None	6305	117	38	6509285	6523780	-1	None	ELP-1, ERD2.2
7	KDELR2	ENSG00000136240	ENST00000462052	retained_intron	KNOWN	None	6305	None	None	6513711	6523774	-1	None	ELP-1, ERD2.2
16	None	ENSG00000260795	ENST00000566109	processed_pseudogene	KNOWN	None	None	None	None	86939781	86940078	-1	None	None
4	None	ENSG00000251691	ENST00000509304	unprocessed_pseudogene	KNOWN	None	None	None	None	70172187	70172891	-1	None	None
19	NTF4	ENSG00000225950	ENST00000599795	nonsense_mediated_decay	KNOWN	None	8024	462	153	49559050	49568333	-1	NTF5	NT-4/5, GLC1O
19	NTF4	ENSG00000225950	ENST00000593537	protein_coding	KNOWN	CCDS12754	8024	633	210	49564323	49565254	-1	NTF5	NT-4/5, GLC1O
19	NTF4	ENSG00000225950	ENST00000595857	protein_coding	KNOWN	None	8024	430	142	49564825	49568311	-1	NTF5	NT-4/5, GLC1O
19	NTF4	ENSG00000225950	ENST00000594938	processed_transcript	KNOWN	None	8024	None	None	49566996	49568098	-1	NTF5	NT-4/5, GLC1O
19	NTF4	ENSG00000225950	ENST00000451356	protein_coding	KNOWN	None	8024	783	260	49559050	49568333	-1	NTF5	NT-4/5, GLC1O
19	NTF4	ENSG00000225950	ENST00000301411	protein_coding	KNOWN	CCDS12754	8024	633	210	49564397	49567124	-1	NTF5	NT-4/5, GLC1O
10	None	ENSG00000225118	ENST00000447000	processed_pseudogene	KNOWN	None	None	None	None	94637849	94638046	-1	None	None
16	None	ENSG00000232190	ENST00000430050	processed_transcript	KNOWN	None	None	None	None	87091390	87097597	1	None	None
11	None	ENSG00000214306	ENST00000447610	protein_coding	NOVEL	None	None	318	105	107643129	107647344	1	None	None
10	None	ENSG00000226425	ENST00000444965	antisense	KNOWN	None	None	None	None	94819420	94820183	-1	None	None
16	None	ENSG00000261363	ENST00000566798	lincRNA	KNOWN	None	None	None	None	87100311	87103354	1	None	None
11	None	ENSG00000214305	ENST00000398067	protein_coding	NOVEL	None	None	297	98	107650219	107652316	1	None	None
10	NIP7P1	ENSG00000232805	ENST00000433227	processed_pseudogene	KNOWN	None	45180	None	None	94866629	94867140	-1	None	None
7	TNRC18	ENSG00000182095	ENST00000399537	protein_coding	KNOWN	None	11962	8907	2968	5346421	5463177	-1	None	CAGL79, TNRC18A, KIAA1856
7	TNRC18	ENSG00000182095	ENST00000328270	protein_coding	PUTATIVE	None	11962	1220	405	5352742	5360238	-1	None	CAGL79, TNRC18A, KIAA1856
7	TNRC18	ENSG00000182095	ENST00000464852	retained_intron	KNOWN	None	11962	None	None	5359771	5360293	-1	None	CAGL79, TNRC18A, KIAA1856
7	TNRC18	ENSG00000182095	ENST00000455076	protein_coding	PUTATIVE	None	11962	577	191	5363853	5372509	-1	None	CAGL79, TNRC18A, KIAA1856
7	TNRC18	ENSG00000182095	ENST00000497663	retained_intron	KNOWN	None	11962	None	None	5363878	5365205	-1	None	CAGL79, TNRC18A, KIAA1856
7	TNRC18	ENSG00000182095	ENST00000440081	protein_coding	NOVEL	None	11962	757	251	5391633	5401658	-1	None	CAGL79, TNRC18A, KIAA1856
7	TNRC18	ENSG00000182095	ENST00000413081	protein_coding	PUTATIVE	None	11962	925	307	5415745	5427660	-1	None	CAGL79, TNRC18A, KIAA1856
7	TNRC18	ENSG00000182095	ENST00000434361	protein_coding	PUTATIVE	None	11962	297	98	5428936	5447025	-1	None	CAGL79, TNRC18A, KIAA1856
7	TNRC18	ENSG00000182095	ENST00000399434	protein_coding	PUTATIVE	None	11962	393	130	5429081	5465045	-1	None	CAGL79, TNRC18A, KIAA1856
7	TNRC18	ENSG00000182095	ENST00000430969	protein_coding	KNOWN	CCDS47534	11962	8907	2968	5346431	5463177	-1	None	CAGL79, TNRC18A, KIAA1856
6	None	ENSG00000234647	ENST00000446811	lincRNA	KNOWN	None	None	None	None	168643618	168663261	1	None	None
HSCHR6_MHC_QBL	MSH5	ENSG00000235569	ENST00000420729	protein_coding	KNOWN	None	7328	582	193	31698009	31702253	1	None	None
HSCHR6_MHC_QBL	MSH5	ENSG00000235569	ENST00000443906	protein_coding	KNOWN	None	7328	582	193	31698009	31702253	1	None	None
HSCHR6_MHC_QBL	MSH5	ENSG00000235569	ENST00000427968	protein_coding	KNOWN	None	7328	2181	726	31698015	31719637	1	None	None
HSCHR6_MHC_QBL	MSH5	ENSG00000235569	ENST00000458058	protein_coding	KNOWN	None	7328	2181	726	31698018	31719637	1	None	None
HSCHR6_MHC_QBL	MSH5	ENSG00000235569	ENST00000477402	retained_intron	KNOWN	None	7328	None	None	31698035	31701499	1	None	None
HSCHR6_MHC_QBL	MSH5	ENSG00000235569	ENST00000490125	processed_transcript	KNOWN	None	7328	None	None	31698038	31719637	1	None	None
HSCHR6_MHC_QBL	MSH5	ENSG00000235569	ENST00000482326	processed_transcript	KNOWN	None	7328	None	None	31698039	31716630	1	None	None
HSCHR6_MHC_QBL	MSH5	ENSG00000235569	ENST00000416819	protein_coding	KNOWN	None	7328	2184	727	31698039	31719637	1	None	None
HSCHR6_MHC_QBL	MSH5	ENSG00000235569	ENST00000457917	protein_coding	KNOWN	None	7328	2235	744	31698039	31719637	1	None	None
HSCHR6_MHC_QBL	MSH5	ENSG00000235569	ENST00000490771	retained_intron	KNOWN	None	7328	None	None	31699264	31712064	1	None	None
HSCHR6_MHC_QBL	MSH5	ENSG00000235569	ENST00000456073	protein_coding	KNOWN	None	7328	477	158	31699277	31711371	1	None	None
HSCHR6_MHC_QBL	MSH5	ENSG00000235569	ENST00000425344	protein_coding	KNOWN	None	7328	1000	332	31701997	31717513	1	None	None
HSCHR6_MHC_QBL	MSH5	ENSG00000235569	ENST00000465615	processed_transcript	KNOWN	None	7328	None	None	31709518	31717156	1	None	None
HSCHR6_MHC_QBL	MSH5	ENSG00000235569	ENST00000412975	protein_coding	KNOWN	None	7328	1203	400	31714613	31719637	1	None	None
HSCHR6_MHC_QBL	MSH5	ENSG00000235569	ENST00000487295	retained_intron	KNOWN	None	7328	None	None	31716217	31717524	1	None	None
HSCHR6_MHC_QBL	MSH5	ENSG00000235569	ENST00000446724	protein_coding	KNOWN	None	7328	348	115	31716259	31717453	1	None	None
HSCHR6_MHC_QBL	MSH5	ENSG00000235569	ENST00000495525	processed_transcript	KNOWN	None	7328	None	None	31717467	31719637	1	None	None
HSCHR6_MHC_QBL	MSH5	ENSG00000235569	ENST00000430241	protein_coding	KNOWN	None	7328	405	134	31717939	31719637	1	None	None
HSCHR6_MHC_QBL	MSH5	ENSG00000235569	ENST00000494635	processed_transcript	KNOWN	None	7328	None	None	31717939	31719779	1	None	None
HSCHR6_MHC_QBL	MSH5	ENSG00000235569	ENST00000480921	processed_transcript	KNOWN	None	7328	None	None	31718742	31719637	1	None	None
HSCHR6_MHC_QBL	MSH5	ENSG00000235569	ENST00000445511	protein_coding	KNOWN	None	7328	195	64	31719234	31719637	1	None	None
16	None	ENSG00000261095	ENST00000566092	lincRNA	KNOWN	None	None	None	None	87245728	87260036	1	None	None
16	None	ENSG00000261651	ENST00000562873	antisense	KNOWN	None	None	None	None	87249521	87250058	1	None	None
4	None	ENSG00000254094	ENST00000504748	sense_intronic	KNOWN	None	None	None	None	1350369	1351863	1	None	None
13	None	ENSG00000177596	ENST00000325811	protein_coding	KNOWN	None	None	435	144	74987094	74993252	-1	None	None
10	RNA5SP314	ENSG00000222406	ENST00000410474	rRNA	KNOWN	None	43214	None	None	48931789	48931904	1	RN5S314	None
11	TRPC2	ENSG00000182048	ENST00000451043	transcribed_unprocessed_pseudogene	KNOWN	None	12334	None	None	3631131	3658779	1	None	None
11	TRPC2	ENSG00000182048	ENST00000526541	processed_transcript	KNOWN	None	12334	None	None	3647714	3658789	1	None	None
11	TRPC2	ENSG00000182048	ENST00000399582	unprocessed_pseudogene	KNOWN	None	12334	None	None	3638462	3647749	1	None	None
2	CALM2	ENSG00000143933	ENST00000496939	processed_transcript	PUTATIVE	None	1445	None	None	47272677	47335941	-1	None	PHKD, CAMII
2	CALM2	ENSG00000143933	ENST00000464527	processed_transcript	PUTATIVE	None	1445	None	None	47292896	47335924	-1	None	PHKD, CAMII
2	CALM2	ENSG00000143933	ENST00000422269	processed_transcript	KNOWN	None	1445	None	None	47293080	47403650	-1	None	PHKD, CAMII
2	CALM2	ENSG00000143933	ENST00000482548	processed_transcript	PUTATIVE	None	1445	None	None	47295326	47335927	-1	None	PHKD, CAMII
2	CALM2	ENSG00000143933	ENST00000272298	protein_coding	KNOWN	CCDS1832	1445	450	149	47387221	47403740	-1	None	PHKD, CAMII
2	CALM2	ENSG00000143933	ENST00000460218	retained_intron	KNOWN	None	1445	None	None	47387303	47401346	-1	None	PHKD, CAMII
2	CALM2	ENSG00000143933	ENST00000432899	nonsense_mediated_decay	KNOWN	None	1445	198	65	47387311	47403639	-1	None	PHKD, CAMII
2	CALM2	ENSG00000143933	ENST00000482532	retained_intron	KNOWN	None	1445	None	None	47387741	47391102	-1	None	PHKD, CAMII
2	CALM2	ENSG00000143933	ENST00000456319	protein_coding	PUTATIVE	None	1445	564	187	47387776	47403650	-1	None	PHKD, CAMII
2	CALM2	ENSG00000143933	ENST00000409563	protein_coding	PUTATIVE	None	1445	591	196	47387878	47403650	-1	None	PHKD, CAMII
2	CALM2	ENSG00000143933	ENST00000484408	processed_transcript	KNOWN	None	1445	None	None	47388862	47403592	-1	None	PHKD, CAMII
2	CALM2	ENSG00000143933	ENST00000489742	processed_transcript	KNOWN	None	1445	None	None	47389425	47403609	-1	None	PHKD, CAMII
16	None	ENSG00000261697	ENST00000570286	sense_intronic	KNOWN	None	None	None	None	87296365	87326044	-1	None	None
16	None	ENSG00000261697	ENST00000569872	sense_intronic	KNOWN	None	None	None	None	87300864	87326044	-1	None	None
16	None	ENSG00000261697	ENST00000561709	sense_intronic	KNOWN	None	None	None	None	87305513	87326015	-1	None	None
16	None	ENSG00000261697	ENST00000568824	sense_intronic	KNOWN	None	None	None	None	87324332	87325644	-1	None	None
HSCHR6_MHC_SSTO	ATAT1	ENSG00000234549	ENST00000416917	protein_coding	KNOWN	None	21186	903	300	30586040	30603878	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_SSTO	ATAT1	ENSG00000234549	ENST00000432356	protein_coding	KNOWN	None	21186	1266	421	30586054	30606022	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_SSTO	ATAT1	ENSG00000234549	ENST00000454987	protein_coding	KNOWN	None	21186	933	310	30586073	30603878	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_SSTO	ATAT1	ENSG00000234549	ENST00000411724	protein_coding	KNOWN	None	21186	972	323	30586074	30603878	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_SSTO	ATAT1	ENSG00000234549	ENST00000456215	protein_coding	KNOWN	None	21186	1002	333	30586084	30603878	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_SSTO	ATAT1	ENSG00000234549	ENST00000457334	protein_coding	KNOWN	None	21186	1230	409	30586084	30606022	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_SSTO	ATAT1	ENSG00000234549	ENST00000477838	processed_transcript	KNOWN	None	21186	None	None	30586091	30606022	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_SSTO	ATAT1	ENSG00000234549	ENST00000462795	retained_intron	KNOWN	None	21186	None	None	30586113	30599897	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_SSTO	ATAT1	ENSG00000234549	ENST00000475631	retained_intron	KNOWN	None	21186	None	None	30586118	30606022	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_SSTO	ATAT1	ENSG00000234549	ENST00000491620	processed_transcript	KNOWN	None	21186	None	None	30587598	30605601	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_SSTO	ATAT1	ENSG00000234549	ENST00000471345	retained_intron	KNOWN	None	21186	None	None	30601021	30606022	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_SSTO	ATAT1	ENSG00000234549	ENST00000460478	retained_intron	KNOWN	None	21186	None	None	30602118	30606022	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_SSTO	ATAT1	ENSG00000234549	ENST00000550031	protein_coding	KNOWN	None	21186	1197	398	30586054	30606001	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
19	EMR4P	ENSG00000268758	ENST00000600751	processed_transcript	KNOWN	None	19240	None	None	6952511	6990857	-1	GPR127, EMR4	PGR16
19	EMR4P	ENSG00000268758	ENST00000597372	transcribed_unprocessed_pseudogene	KNOWN	None	19240	None	None	6954683	6988871	-1	GPR127, EMR4	PGR16
10	None	ENSG00000225948	ENST00000448835	lincRNA	KNOWN	None	None	None	None	6660678	6667308	1	None	None
4	None	ENSG00000253399	ENST00000515842	sense_intronic	KNOWN	None	None	None	None	1352267	1353249	1	None	None
10	GLUD1P2	ENSG00000227781	ENST00000598412	processed_transcript	KNOWN	None	4337	None	None	48952491	48980269	1	GLUDP2	None
10	GLUD1P2	ENSG00000227781	ENST00000602207	processed_transcript	KNOWN	None	4337	None	None	48953206	48968615	1	GLUDP2	None
10	GLUD1P2	ENSG00000227781	ENST00000594520	processed_transcript	KNOWN	None	4337	None	None	48954138	48980269	1	GLUDP2	None
10	GLUD1P2	ENSG00000227781	ENST00000598032	processed_transcript	KNOWN	None	4337	None	None	48954322	48966933	1	GLUDP2	None
10	GLUD1P2	ENSG00000227781	ENST00000601214	processed_transcript	KNOWN	None	4337	None	None	48961994	48980266	1	GLUDP2	None
10	GLUD1P2	ENSG00000227781	ENST00000451308	transcribed_unprocessed_pseudogene	KNOWN	None	4337	None	None	48962529	48968623	1	GLUDP2	None
12	ANKS1B	ENSG00000185046	ENST00000555119	nonsense_mediated_decay	KNOWN	None	24600	157	51	99120235	99145214	-1	None	EB-1, AIDA-1, cajalin-2, ANKS2
12	ANKS1B	ENSG00000185046	ENST00000341752	protein_coding	KNOWN	CCDS55864	24600	765	254	99128462	99288677	-1	None	EB-1, AIDA-1, cajalin-2, ANKS2
12	ANKS1B	ENSG00000185046	ENST00000549558	protein_coding	KNOWN	CCDS55866	24600	1245	414	99128569	99548524	-1	None	EB-1, AIDA-1, cajalin-2, ANKS2
12	ANKS1B	ENSG00000185046	ENST00000547776	protein_coding	KNOWN	CCDS55872	24600	3747	1248	99129200	100378015	-1	None	EB-1, AIDA-1, cajalin-2, ANKS2
12	ANKS1B	ENSG00000185046	ENST00000551212	processed_transcript	PUTATIVE	None	24600	None	None	99129296	99139617	-1	None	EB-1, AIDA-1, cajalin-2, ANKS2
12	ANKS1B	ENSG00000185046	ENST00000547010	protein_coding	KNOWN	None	24600	2295	764	99129338	100378049	-1	None	EB-1, AIDA-1, cajalin-2, ANKS2
12	ANKS1B	ENSG00000185046	ENST00000550693	protein_coding	KNOWN	CCDS55868	24600	1353	450	99137752	99548524	-1	None	EB-1, AIDA-1, cajalin-2, ANKS2
12	ANKS1B	ENSG00000185046	ENST00000549025	protein_coding	KNOWN	CCDS55865	24600	1074	357	99137752	99548645	-1	None	EB-1, AIDA-1, cajalin-2, ANKS2
12	ANKS1B	ENSG00000185046	ENST00000549493	protein_coding	KNOWN	CCDS55870	24600	1533	510	99137994	99548542	-1	None	EB-1, AIDA-1, cajalin-2, ANKS2
12	ANKS1B	ENSG00000185046	ENST00000547446	protein_coding	NOVEL	CCDS55871	24600	1185	394	99139129	99548868	-1	None	EB-1, AIDA-1, cajalin-2, ANKS2
12	ANKS1B	ENSG00000185046	ENST00000333732	protein_coding	NOVEL	None	24600	870	289	99139178	99288669	-1	None	EB-1, AIDA-1, cajalin-2, ANKS2
12	ANKS1B	ENSG00000185046	ENST00000550778	protein_coding	NOVEL	None	24600	1598	531	99139178	99640213	-1	None	EB-1, AIDA-1, cajalin-2, ANKS2
12	ANKS1B	ENSG00000185046	ENST00000547362	nonsense_mediated_decay	KNOWN	None	24600	324	107	99139238	99225919	-1	None	EB-1, AIDA-1, cajalin-2, ANKS2
12	ANKS1B	ENSG00000185046	ENST00000546568	protein_coding	KNOWN	CCDS55867	24600	1281	426	99139517	99548270	-1	None	EB-1, AIDA-1, cajalin-2, ANKS2
12	ANKS1B	ENSG00000185046	ENST00000546960	protein_coding	KNOWN	CCDS55869	24600	1383	460	99139611	99548270	-1	None	EB-1, AIDA-1, cajalin-2, ANKS2
12	ANKS1B	ENSG00000185046	ENST00000549315	processed_transcript	PUTATIVE	None	24600	None	None	99166772	99174990	-1	None	EB-1, AIDA-1, cajalin-2, ANKS2
12	ANKS1B	ENSG00000185046	ENST00000546364	protein_coding	PUTATIVE	None	24600	453	150	99174895	99289074	-1	None	EB-1, AIDA-1, cajalin-2, ANKS2
12	ANKS1B	ENSG00000185046	ENST00000552407	protein_coding	NOVEL	None	24600	289	95	99192708	99288986	-1	None	EB-1, AIDA-1, cajalin-2, ANKS2
12	ANKS1B	ENSG00000185046	ENST00000549797	protein_coding	PUTATIVE	None	24600	285	94	99192712	99288639	-1	None	EB-1, AIDA-1, cajalin-2, ANKS2
12	ANKS1B	ENSG00000185046	ENST00000551613	protein_coding	PUTATIVE	None	24600	60	19	99192712	99288986	-1	None	EB-1, AIDA-1, cajalin-2, ANKS2
12	ANKS1B	ENSG00000185046	ENST00000551830	processed_transcript	KNOWN	None	24600	None	None	99194775	99288642	-1	None	EB-1, AIDA-1, cajalin-2, ANKS2
12	ANKS1B	ENSG00000185046	ENST00000551560	protein_coding	NOVEL	None	24600	192	63	99194868	99287494	-1	None	EB-1, AIDA-1, cajalin-2, ANKS2
12	ANKS1B	ENSG00000185046	ENST00000552748	protein_coding	NOVEL	None	24600	117	38	99194871	99289078	-1	None	EB-1, AIDA-1, cajalin-2, ANKS2
12	ANKS1B	ENSG00000185046	ENST00000548447	protein_coding	NOVEL	None	24600	83	26	99222953	99289041	-1	None	EB-1, AIDA-1, cajalin-2, ANKS2
12	ANKS1B	ENSG00000185046	ENST00000552245	retained_intron	KNOWN	None	24600	None	None	99224782	99548493	-1	None	EB-1, AIDA-1, cajalin-2, ANKS2
12	ANKS1B	ENSG00000185046	ENST00000557083	processed_transcript	PUTATIVE	None	24600	None	None	99350130	99473742	-1	None	EB-1, AIDA-1, cajalin-2, ANKS2
12	ANKS1B	ENSG00000185046	ENST00000552210	processed_transcript	PUTATIVE	None	24600	None	None	99442492	99447082	-1	None	EB-1, AIDA-1, cajalin-2, ANKS2
12	ANKS1B	ENSG00000185046	ENST00000546631	processed_transcript	PUTATIVE	None	24600	None	None	99640143	99738749	-1	None	EB-1, AIDA-1, cajalin-2, ANKS2
12	ANKS1B	ENSG00000185046	ENST00000550833	processed_transcript	PUTATIVE	None	24600	None	None	99640214	99737568	-1	None	EB-1, AIDA-1, cajalin-2, ANKS2
12	ANKS1B	ENSG00000185046	ENST00000550157	processed_transcript	PUTATIVE	None	24600	None	None	99640262	99780075	-1	None	EB-1, AIDA-1, cajalin-2, ANKS2
12	ANKS1B	ENSG00000185046	ENST00000549866	protein_coding	NOVEL	None	24600	1688	561	99640609	100378432	-1	None	EB-1, AIDA-1, cajalin-2, ANKS2
12	ANKS1B	ENSG00000185046	ENST00000552232	processed_transcript	PUTATIVE	None	24600	None	None	99898376	100100402	-1	None	EB-1, AIDA-1, cajalin-2, ANKS2
12	ANKS1B	ENSG00000185046	ENST00000552472	processed_transcript	PUTATIVE	None	24600	None	None	100166488	100169421	-1	None	EB-1, AIDA-1, cajalin-2, ANKS2
12	ANKS1B	ENSG00000185046	ENST00000329257	protein_coding	KNOWN	None	24600	3747	1248	99129338	100378015	-1	None	EB-1, AIDA-1, cajalin-2, ANKS2
12	ANKS1B	ENSG00000185046	ENST00000332712	protein_coding	KNOWN	None	24600	1353	450	99139517	99548270	-1	None	EB-1, AIDA-1, cajalin-2, ANKS2
19	C19orf40	ENSG00000131944	ENST00000254262	nonsense_mediated_decay	KNOWN	None	28467	210	69	33463115	33467722	1	None	FLJ46828, MGC32020, FAAP24
19	C19orf40	ENSG00000131944	ENST00000589646	protein_coding	PUTATIVE	None	28467	363	120	33463127	33467756	1	None	FLJ46828, MGC32020, FAAP24
19	C19orf40	ENSG00000131944	ENST00000588258	protein_coding	KNOWN	CCDS12426	28467	648	215	33463156	33469128	1	None	FLJ46828, MGC32020, FAAP24
19	C19orf40	ENSG00000131944	ENST00000590179	protein_coding	PUTATIVE	None	28467	363	120	33463166	33467880	1	None	FLJ46828, MGC32020, FAAP24
19	C19orf40	ENSG00000131944	ENST00000590281	protein_coding	KNOWN	CCDS12426	28467	648	215	33463210	33467718	1	None	FLJ46828, MGC32020, FAAP24
19	C19orf40	ENSG00000131944	ENST00000591791	processed_transcript	PUTATIVE	None	28467	None	None	33467892	33468839	1	None	FLJ46828, MGC32020, FAAP24
9	MSMP	ENSG00000215183	ENST00000436428	protein_coding	KNOWN	CCDS43797	29663	420	139	35752987	35754266	-1	None	PC-3, PSMP
9	MSMP	ENSG00000215183	ENST00000414286	processed_transcript	PUTATIVE	None	29663	None	None	35752989	35756610	-1	None	PC-3, PSMP
4	None	ENSG00000244459	ENST00000466692	lincRNA	KNOWN	None	None	None	None	1575789	1581980	-1	None	None
5	None	ENSG00000249034	ENST00000502505	protein_coding	KNOWN	None	None	579	192	140240341	140243224	-1	None	None
X	None	ENSG00000237623	ENST00000423038	processed_pseudogene	KNOWN	None	None	None	None	47132765	47133789	-1	None	None
1	PRDX6	ENSG00000117592	ENST00000340385	protein_coding	KNOWN	CCDS1307	16753	675	224	173446405	173457946	1	None	AOP2, KIAA0106, 1-Cys, NSGPx, PRX, aiPLA2, MGC46173, p29
1	PRDX6	ENSG00000117592	ENST00000460950	processed_transcript	KNOWN	None	16753	None	None	173446469	173451110	1	None	AOP2, KIAA0106, 1-Cys, NSGPx, PRX, aiPLA2, MGC46173, p29
1	PRDX6	ENSG00000117592	ENST00000470017	processed_transcript	KNOWN	None	16753	None	None	173450338	173457154	1	None	AOP2, KIAA0106, 1-Cys, NSGPx, PRX, aiPLA2, MGC46173, p29
16	None	ENSG00000243705	ENST00000465012	processed_pseudogene	KNOWN	None	None	None	None	87301791	87301943	1	None	None
8	GPT	ENSG00000167701	ENST00000528431	protein_coding	KNOWN	CCDS6430	4552	1491	496	145728356	145732557	1	None	ALT1, GPT1
8	GPT	ENSG00000167701	ENST00000527165	retained_intron	KNOWN	None	4552	None	None	145729120	145731788	1	None	ALT1, GPT1
8	GPT	ENSG00000167701	ENST00000531330	retained_intron	KNOWN	None	4552	None	None	145729523	145730219	1	None	ALT1, GPT1
8	GPT	ENSG00000167701	ENST00000354769	retained_intron	KNOWN	None	4552	None	None	145729523	145730319	1	None	ALT1, GPT1
8	GPT	ENSG00000167701	ENST00000534702	retained_intron	KNOWN	None	4552	None	None	145729523	145731508	1	None	ALT1, GPT1
8	GPT	ENSG00000167701	ENST00000527961	retained_intron	KNOWN	None	4552	None	None	145729604	145730522	1	None	ALT1, GPT1
8	GPT	ENSG00000167701	ENST00000394955	protein_coding	KNOWN	CCDS6430	4552	1491	496	145729465	145732554	1	None	ALT1, GPT1
17	OR1A2	ENSG00000172150	ENST00000381951	protein_coding	KNOWN	CCDS11021	8180	930	309	3100813	3101742	1	None	OR17-6
HSCHR6_MHC_MCF	HLA-DPB2	ENSG00000223372	ENST00000395280	processed_transcript	KNOWN	None	4941	None	None	33113649	33118417	1	HLA-DP2B	DP2B, DPB2
HSCHR6_MHC_MCF	HLA-DPB2	ENSG00000223372	ENST00000484187	transcribed_unprocessed_pseudogene	KNOWN	None	4941	None	None	33113714	33118417	1	HLA-DP2B	DP2B, DPB2
X	None	ENSG00000238729	ENST00000459524	snoRNA	NOVEL	None	None	None	None	47138526	47138629	1	None	None
X	RN7SL785P	ENSG00000266158	ENST00000578437	misc_RNA	KNOWN	None	46801	None	None	47140214	47140462	-1	None	None
X	None	ENSG00000203402	ENST00000366224	lincRNA	KNOWN	None	None	None	None	47157251	47158120	1	None	None
4	None	ENSG00000207009	ENST00000384282	misc_RNA	NOVEL	None	None	None	None	1685147	1685256	-1	None	None
X	RNU6-149P	ENSG00000201450	ENST00000364580	snRNA	KNOWN	None	47112	None	None	47211242	47211348	-1	None	None
10	DUSP8P1	ENSG00000213686	ENST00000448376	processed_pseudogene	KNOWN	None	3075	None	None	48963181	48964127	1	DUSP8P	None
5	None	ENSG00000249198	ENST00000502647	lincRNA	KNOWN	None	None	None	None	57047019	57047544	-1	None	None
HSCHR6_MHC_MCF	None	ENSG00000266464	ENST00000577984	misc_RNA	NOVEL	None	None	None	None	33337742	33337836	1	None	None
4	None	ENSG00000270195	ENST00000605571	lincRNA	KNOWN	None	None	None	None	1714548	1715349	1	None	None
6	GLYATL3	ENSG00000203972	ENST00000371197	protein_coding	KNOWN	CCDS47440	21349	867	288	49467671	49494760	1	C6orf140	bA28H17.2
6	GLYATL3	ENSG00000203972	ENST00000545705	protein_coding	KNOWN	None	21349	468	155	49467692	49494228	1	C6orf140	bA28H17.2
16	RNU6-1153P	ENSG00000252569	ENST00000516760	snRNA	KNOWN	None	48116	None	None	53477140	53477244	-1	None	None
5	None	ENSG00000266864	ENST00000582810	miRNA	NOVEL	None	None	None	None	57168766	57168873	-1	None	None
HSCHR6_MHC_MCF	None	ENSG00000265459	ENST00000579748	miRNA	KNOWN	None	None	None	None	33345976	33346085	1	None	None
6	ADAT2	ENSG00000189007	ENST00000606514	protein_coding	PUTATIVE	None	21172	435	144	143743969	143763114	-1	DEADC1	dJ20N2.1, TAD2
6	ADAT2	ENSG00000189007	ENST00000237283	protein_coding	KNOWN	CCDS43511	21172	576	191	143748126	143771810	-1	DEADC1	dJ20N2.1, TAD2
6	ADAT2	ENSG00000189007	ENST00000367593	processed_transcript	KNOWN	None	21172	None	None	143765694	143771810	-1	DEADC1	dJ20N2.1, TAD2
4	None	ENSG00000218422	ENST00000404054	pseudogene	NOVEL	None	None	None	None	1741078	1743830	1	None	None
5	None	ENSG00000249584	ENST00000510444	lincRNA	KNOWN	None	None	None	None	57186154	57194989	-1	None	None
8	NBN	ENSG00000104320	ENST00000265433	protein_coding	KNOWN	CCDS6249	7652	2265	754	90945564	90996944	-1	NBS, NBS1	ATV, AT-V2, AT-V1
8	NBN	ENSG00000104320	ENST00000396252	nonsense_mediated_decay	KNOWN	None	7652	177	58	90945564	91015456	-1	NBS, NBS1	ATV, AT-V2, AT-V1
8	NBN	ENSG00000104320	ENST00000409330	protein_coding	PUTATIVE	None	7652	2019	672	90945712	90996632	-1	NBS, NBS1	ATV, AT-V2, AT-V1
8	NBN	ENSG00000104320	ENST00000474821	retained_intron	KNOWN	None	7652	None	None	90947660	90949575	-1	NBS, NBS1	ATV, AT-V2, AT-V1
8	NBN	ENSG00000104320	ENST00000520325	retained_intron	KNOWN	None	7652	None	None	90955587	90958853	-1	NBS, NBS1	ATV, AT-V2, AT-V1
8	NBN	ENSG00000104320	ENST00000519426	protein_coding	NOVEL	None	7652	477	158	90982747	90996847	-1	NBS, NBS1	ATV, AT-V2, AT-V1
8	NBN	ENSG00000104320	ENST00000517772	protein_coding	PUTATIVE	None	7652	494	163	90982748	90993883	-1	NBS, NBS1	ATV, AT-V2, AT-V1
8	NBN	ENSG00000104320	ENST00000523444	nonsense_mediated_decay	KNOWN	None	7652	177	58	90990506	90996847	-1	NBS, NBS1	ATV, AT-V2, AT-V1
8	NBN	ENSG00000104320	ENST00000517337	protein_coding	PUTATIVE	None	7652	276	91	90990510	90996465	-1	NBS, NBS1	ATV, AT-V2, AT-V1
8	NBN	ENSG00000104320	ENST00000494804	retained_intron	KNOWN	None	7652	None	None	90994632	90996893	-1	NBS, NBS1	ATV, AT-V2, AT-V1
5	PPAP2A	ENSG00000067113	ENST00000264775	protein_coding	KNOWN	CCDS34160	9228	858	285	54720682	54830797	-1	None	PAP-2a, LPP1
5	PPAP2A	ENSG00000067113	ENST00000307259	protein_coding	KNOWN	CCDS34159	9228	855	284	54720713	54830878	-1	None	PAP-2a, LPP1
5	PPAP2A	ENSG00000067113	ENST00000520263	retained_intron	KNOWN	None	9228	None	None	54737708	54764118	-1	None	PAP-2a, LPP1
5	PPAP2A	ENSG00000067113	ENST00000509667	nonsense_mediated_decay	KNOWN	None	9228	333	110	54737734	54830779	-1	None	PAP-2a, LPP1
5	PPAP2A	ENSG00000067113	ENST00000515132	processed_transcript	KNOWN	None	9228	None	None	54737734	54830792	-1	None	PAP-2a, LPP1
5	PPAP2A	ENSG00000067113	ENST00000502907	processed_transcript	KNOWN	None	9228	None	None	54826264	54830792	-1	None	PAP-2a, LPP1
HSCHR6_MHC_MCF	ZNF70P1	ENSG00000237723	ENST00000413375	processed_pseudogene	KNOWN	None	13846	None	None	33353846	33354469	1	ZNF314P	dJ1033B10.7, bCX269C15.3
4	RN7SL671P	ENSG00000240455	ENST00000484466	misc_RNA	KNOWN	None	46687	None	None	1870787	1871064	-1	None	None
7	LUC7L2	ENSG00000269955	ENST00000541515	protein_coding	KNOWN	CCDS59084	21608	1377	458	139026106	139107345	1	None	CGI-74, CGI-59, H_NH0792N18.3, FLJ10657, LUC7B2, hLuc7B2
5	None	ENSG00000238899	ENST00000458977	snoRNA	NOVEL	None	None	None	None	57366015	57366118	1	None	None
4	None	ENSG00000183504	ENST00000327785	pseudogene	KNOWN	None	None	None	None	1961768	1962113	-1	None	None
9	EXOSC2	ENSG00000130713	ENST00000491115	processed_transcript	KNOWN	None	17097	None	None	133569108	133579161	1	None	hRrp4p, Rrp4p, RRP4, p7
9	EXOSC2	ENSG00000130713	ENST00000372358	protein_coding	KNOWN	CCDS6935	17097	882	293	133569108	133580248	1	None	hRrp4p, Rrp4p, RRP4, p7
9	EXOSC2	ENSG00000130713	ENST00000430138	processed_transcript	KNOWN	None	17097	None	None	133569162	133580248	1	None	hRrp4p, Rrp4p, RRP4, p7
9	EXOSC2	ENSG00000130713	ENST00000490641	processed_transcript	KNOWN	None	17097	None	None	133569167	133575178	1	None	hRrp4p, Rrp4p, RRP4, p7
9	EXOSC2	ENSG00000130713	ENST00000372352	protein_coding	KNOWN	None	17097	858	285	133569167	133580248	1	None	hRrp4p, Rrp4p, RRP4, p7
9	EXOSC2	ENSG00000130713	ENST00000372351	protein_coding	KNOWN	None	17097	792	263	133569173	133580248	1	None	hRrp4p, Rrp4p, RRP4, p7
9	EXOSC2	ENSG00000130713	ENST00000372350	protein_coding	PUTATIVE	None	17097	601	199	133569174	133577680	1	None	hRrp4p, Rrp4p, RRP4, p7
9	EXOSC2	ENSG00000130713	ENST00000463488	processed_transcript	KNOWN	None	17097	None	None	133569193	133575068	1	None	hRrp4p, Rrp4p, RRP4, p7
9	EXOSC2	ENSG00000130713	ENST00000495699	protein_coding	PUTATIVE	None	17097	709	235	133569193	133578568	1	None	hRrp4p, Rrp4p, RRP4, p7
9	EXOSC2	ENSG00000130713	ENST00000467138	processed_transcript	KNOWN	None	17097	None	None	133576229	133580248	1	None	hRrp4p, Rrp4p, RRP4, p7
9	EXOSC2	ENSG00000130713	ENST00000546165	protein_coding	KNOWN	None	17097	804	267	133569158	133579446	1	None	hRrp4p, Rrp4p, RRP4, p7
19	RPL37P23	ENSG00000243680	ENST00000492641	processed_pseudogene	KNOWN	None	37003	None	None	52646296	52646589	1	None	None
HSCHR6_MHC_MCF	None	ENSG00000227750	ENST00000422677	processed_pseudogene	NOVEL	None	None	None	None	33375921	33377819	1	None	None
5	None	ENSG00000248132	ENST00000505861	lincRNA	KNOWN	None	None	None	None	57403909	57418168	-1	None	None
4	SCARNA22	ENSG00000249784	ENST00000503991	sense_intronic	KNOWN	None	32580	None	None	1976363	1976487	1	None	ACA11
4	MIR943	ENSG00000216105	ENST00000401286	miRNA	KNOWN	None	33689	None	None	1988111	1988204	-1	MIRN943	hsa-mir-943
11	MTL5	ENSG00000132749	ENST00000255087	protein_coding	KNOWN	CCDS8184	7446	1527	508	68474908	68519032	-1	None	CXCDC2
11	MTL5	ENSG00000132749	ENST00000544398	processed_transcript	PUTATIVE	None	7446	None	None	68474910	68478074	-1	None	CXCDC2
11	MTL5	ENSG00000132749	ENST00000543240	protein_coding	PUTATIVE	None	7446	614	203	68475027	68483402	-1	None	CXCDC2
11	MTL5	ENSG00000132749	ENST00000540869	processed_transcript	KNOWN	None	7446	None	None	68500055	68517733	-1	None	CXCDC2
11	MTL5	ENSG00000132749	ENST00000443940	protein_coding	KNOWN	None	7446	756	251	68503600	68518935	-1	None	CXCDC2
11	MTL5	ENSG00000132749	ENST00000438124	retained_intron	KNOWN	None	7446	None	None	68504796	68506266	-1	None	CXCDC2
11	MTL5	ENSG00000132749	ENST00000544963	protein_coding	KNOWN	CCDS44661	7446	921	306	68505930	68518928	-1	None	CXCDC2
11	MTL5	ENSG00000132749	ENST00000538944	retained_intron	KNOWN	None	7446	None	None	68512341	68514834	-1	None	CXCDC2
11	MTL5	ENSG00000132749	ENST00000432435	processed_transcript	PUTATIVE	None	7446	None	None	68514614	68518079	-1	None	CXCDC2
22	IGLV10-67	ENSG00000253794	ENST00000519446	IG_V_pseudogene	KNOWN	None	5885	None	None	22398016	22398340	1	None	None
11	SLC35F2	ENSG00000110660	ENST00000525815	protein_coding	KNOWN	CCDS41709	23615	1125	374	107661717	107729914	-1	None	FLJ13018
11	SLC35F2	ENSG00000110660	ENST00000525071	protein_coding	KNOWN	None	23615	1074	357	107661717	107799019	-1	None	FLJ13018
11	SLC35F2	ENSG00000110660	ENST00000533664	nonsense_mediated_decay	KNOWN	None	23615	117	38	107663324	107729534	-1	None	FLJ13018
11	SLC35F2	ENSG00000110660	ENST00000375682	protein_coding	KNOWN	None	23615	984	327	107663341	107729287	-1	None	FLJ13018
11	SLC35F2	ENSG00000110660	ENST00000532513	nonsense_mediated_decay	KNOWN	None	23615	798	265	107663385	107729493	-1	None	FLJ13018
11	SLC35F2	ENSG00000110660	ENST00000524991	nonsense_mediated_decay	KNOWN	None	23615	111	36	107677571	107729525	-1	None	FLJ13018
11	SLC35F2	ENSG00000110660	ENST00000429869	protein_coding	KNOWN	CCDS41709	23615	1125	374	107663341	107799019	-1	None	FLJ13018
11	SLC35F2	ENSG00000110660	ENST00000265836	protein_coding	KNOWN	None	23615	681	226	107663324	107729520	-1	None	FLJ13018
4	None	ENSG00000249006	ENST00000503377	processed_pseudogene	KNOWN	None	None	None	None	2090445	2092344	-1	None	None
22	CYP2D6	ENSG00000100197	ENST00000360124	nonsense_mediated_decay	KNOWN	None	2625	543	180	42522501	42525911	-1	CYP2DL1, CYP2D7P2, CYP2D7BP, CYP2D8P2, CYP2D7AP	CPD6, P450-DB1, CYP2D, P450C2D
22	CYP2D6	ENSG00000100197	ENST00000360608	protein_coding	KNOWN	CCDS46721	2625	1494	497	42522501	42526908	-1	CYP2DL1, CYP2D7P2, CYP2D7BP, CYP2D8P2, CYP2D7AP	CPD6, P450-DB1, CYP2D, P450C2D
22	CYP2D6	ENSG00000100197	ENST00000488442	retained_intron	KNOWN	None	2625	None	None	42522537	42526815	-1	CYP2DL1, CYP2D7P2, CYP2D7BP, CYP2D8P2, CYP2D7AP	CPD6, P450-DB1, CYP2D, P450C2D
22	CYP2D6	ENSG00000100197	ENST00000359033	protein_coding	KNOWN	CCDS33657	2625	1341	446	42522558	42526867	-1	CYP2DL1, CYP2D7P2, CYP2D7BP, CYP2D8P2, CYP2D7AP	CPD6, P450-DB1, CYP2D, P450C2D
22	CYP2D6	ENSG00000100197	ENST00000389970	protein_coding	KNOWN	None	2625	1494	497	42522503	42526883	-1	CYP2DL1, CYP2D7P2, CYP2D7BP, CYP2D8P2, CYP2D7AP	CPD6, P450-DB1, CYP2D, P450C2D
4	MOB1B	ENSG00000173542	ENST00000502869	protein_coding	PUTATIVE	None	29801	392	129	71768043	71840971	1	MOBKL1A	MOB4A
4	MOB1B	ENSG00000173542	ENST00000309395	protein_coding	KNOWN	CCDS34002	29801	651	216	71768053	71853885	1	MOBKL1A	MOB4A
4	MOB1B	ENSG00000173542	ENST00000509041	retained_intron	KNOWN	None	29801	None	None	71768064	71842460	1	MOBKL1A	MOB4A
4	MOB1B	ENSG00000173542	ENST00000396051	protein_coding	NOVEL	CCDS58903	29801	666	221	71768095	71847959	1	MOBKL1A	MOB4A
4	MOB1B	ENSG00000173542	ENST00000511449	processed_transcript	KNOWN	None	29801	None	None	71768101	71888166	1	MOBKL1A	MOB4A
7	None	ENSG00000225795	ENST00000445929	processed_pseudogene	KNOWN	None	None	None	None	122316634	122316865	1	None	None
5	PGAM1P1	ENSG00000248271	ENST00000504014	processed_pseudogene	KNOWN	None	42448	None	None	57457024	57457579	1	None	None
7	GIMAP7	ENSG00000179144	ENST00000313543	protein_coding	KNOWN	CCDS5903	22404	903	300	150211918	150218161	1	None	MGC27027, IAN7
22	None	ENSG00000228161	ENST00000413294	unprocessed_pseudogene	KNOWN	None	None	None	None	22400828	22400989	1	None	None
4	None	ENSG00000250623	ENST00000502636	antisense	KNOWN	None	None	None	None	2141400	2142785	1	None	None
9	None	ENSG00000242111	ENST00000493279	processed_transcript	KNOWN	None	None	None	None	107032509	107040107	1	None	None
9	None	ENSG00000242111	ENST00000469756	processed_transcript	KNOWN	None	None	None	None	107032531	107049236	1	None	None
9	None	ENSG00000242111	ENST00000467693	unitary_pseudogene	KNOWN	None	None	None	None	107037579	107039680	1	None	None
22	IGLVIV-66-1	ENSG00000253874	ENST00000521832	IG_V_pseudogene	KNOWN	None	15692	None	None	22412845	22413304	1	None	IGLV(IV)-66-1
HSCHR6_MHC_MCF	HCG25	ENSG00000238064	ENST00000427938	processed_transcript	KNOWN	None	20196	None	None	33387704	33393110	1	None	dJ1033B10.16
HSCHR6_MHC_MCF	HCG25	ENSG00000238064	ENST00000420003	processed_transcript	KNOWN	None	20196	None	None	33387754	33390109	1	None	dJ1033B10.16
HSCHR6_MHC_MCF	HCG25	ENSG00000238064	ENST00000455964	processed_transcript	KNOWN	None	20196	None	None	33387766	33393155	1	None	dJ1033B10.16
HSCHR6_MHC_MCF	HCG25	ENSG00000238064	ENST00000451453	processed_transcript	KNOWN	None	20196	None	None	33388449	33389805	1	None	dJ1033B10.16
4	COX6B1P5	ENSG00000249047	ENST00000509843	processed_pseudogene	KNOWN	None	37675	None	None	2235978	2236226	1	None	None
5	None	ENSG00000271257	ENST00000603797	processed_pseudogene	KNOWN	None	None	None	None	57799122	57799527	1	None	None
9	SPTLC1	ENSG00000090054	ENST00000262554	protein_coding	KNOWN	CCDS6692	11277	1422	473	94794281	94877658	-1	HSN1	LCB1, SPTI, HSAN1, hLCB1
9	SPTLC1	ENSG00000090054	ENST00000469778	processed_transcript	KNOWN	None	11277	None	None	94794636	94800740	-1	HSN1	LCB1, SPTI, HSAN1, hLCB1
9	SPTLC1	ENSG00000090054	ENST00000482632	processed_transcript	KNOWN	None	11277	None	None	94821461	94877666	-1	HSN1	LCB1, SPTI, HSAN1, hLCB1
9	SPTLC1	ENSG00000090054	ENST00000337841	protein_coding	KNOWN	CCDS6693	11277	432	143	94841343	94877665	-1	HSN1	LCB1, SPTI, HSAN1, hLCB1
9	SPTLC1	ENSG00000090054	ENST00000477888	processed_transcript	KNOWN	None	11277	None	None	94842135	94871050	-1	HSN1	LCB1, SPTI, HSAN1, hLCB1
9	SPTLC1	ENSG00000090054	ENST00000488921	processed_transcript	KNOWN	None	11277	None	None	94870083	94877664	-1	HSN1	LCB1, SPTI, HSAN1, hLCB1
9	SPTLC1	ENSG00000090054	ENST00000461132	processed_transcript	KNOWN	None	11277	None	None	94870442	94877620	-1	HSN1	LCB1, SPTI, HSAN1, hLCB1
22	IGLVV-66	ENSG00000254075	ENST00000523818	IG_V_pseudogene	KNOWN	None	5946	None	None	22415489	22415950	1	None	IGLV(V)-66
4	MIR4800	ENSG00000265080	ENST00000537353	miRNA	KNOWN	None	41877	None	None	2251804	2251883	-1	None	hsa-mir-4800
7	RPS26P31	ENSG00000235459	ENST00000473326	processed_pseudogene	KNOWN	None	36614	None	None	122321369	122321716	1	None	None
7	RPS26P31	ENSG00000235459	ENST00000539597	processed_pseudogene	KNOWN	None	36614	None	None	122321344	122321757	1	None	None
5	MIR548AE2	ENSG00000265699	ENST00000583456	miRNA	KNOWN	None	41831	None	None	57825870	57825936	-1	None	hsa-mir-548ae-2
22	IGLVIV-65	ENSG00000254161	ENST00000517313	IG_V_pseudogene	KNOWN	None	5944	None	None	22424636	22425118	1	None	IGLV(IV)-65
10	XRCC6P1	ENSG00000237417	ENST00000420392	processed_pseudogene	KNOWN	None	45183	None	None	94966614	94969384	-1	None	None
17	LRRC37A2	ENSG00000238083	ENST00000576629	protein_coding	KNOWN	CCDS42353	32404	5103	1700	44588877	44633016	1	None	FLJ45049
17	LRRC37A2	ENSG00000238083	ENST00000572638	retained_intron	KNOWN	None	32404	None	None	44624591	44633009	1	None	FLJ45049
17	LRRC37A2	ENSG00000238083	ENST00000333412	protein_coding	KNOWN	CCDS42353	32404	5103	1700	44590076	44633016	1	None	FLJ45049
2	ING5	ENSG00000168395	ENST00000492488	retained_intron	KNOWN	None	19421	None	None	242641450	242651795	1	None	FLJ23842, p28ING5
2	ING5	ENSG00000168395	ENST00000313552	protein_coding	KNOWN	CCDS33425	19421	723	240	242641455	242668893	1	None	FLJ23842, p28ING5
2	ING5	ENSG00000168395	ENST00000482774	processed_transcript	KNOWN	None	19421	None	None	242641457	242661130	1	None	FLJ23842, p28ING5
2	ING5	ENSG00000168395	ENST00000493261	retained_intron	KNOWN	None	19421	None	None	242641461	242651038	1	None	FLJ23842, p28ING5
2	ING5	ENSG00000168395	ENST00000406941	protein_coding	KNOWN	None	19421	681	226	242641461	242663451	1	None	FLJ23842, p28ING5
2	ING5	ENSG00000168395	ENST00000445620	nonsense_mediated_decay	KNOWN	None	19421	429	142	242641476	242662432	1	None	FLJ23842, p28ING5
2	ING5	ENSG00000168395	ENST00000489509	retained_intron	KNOWN	None	19421	None	None	242641480	242659334	1	None	FLJ23842, p28ING5
2	ING5	ENSG00000168395	ENST00000484145	retained_intron	KNOWN	None	19421	None	None	242648501	242650845	1	None	FLJ23842, p28ING5
2	ING5	ENSG00000168395	ENST00000493578	processed_transcript	KNOWN	None	19421	None	None	242660156	242663453	1	None	FLJ23842, p28ING5
2	ING5	ENSG00000168395	ENST00000474238	processed_transcript	PUTATIVE	None	19421	None	None	242665863	242667221	1	None	FLJ23842, p28ING5
2	ING5	ENSG00000168395	ENST00000486061	processed_transcript	PUTATIVE	None	19421	None	None	242667183	242668021	1	None	FLJ23842, p28ING5
5	None	ENSG00000248475	ENST00000504240	antisense	KNOWN	None	None	None	None	58037408	58080606	-1	None	None
5	None	ENSG00000248475	ENST00000509476	antisense	KNOWN	None	None	None	None	58037408	58112926	-1	None	None
15	SLC28A1	ENSG00000156222	ENST00000338602	protein_coding	KNOWN	CCDS10335	11001	528	175	85427885	85439277	1	None	CNT1
15	SLC28A1	ENSG00000156222	ENST00000286749	protein_coding	KNOWN	CCDS10334	11001	1950	649	85427909	85489027	1	None	CNT1
15	SLC28A1	ENSG00000156222	ENST00000537624	protein_coding	KNOWN	None	11001	1911	636	85427893	85518876	1	None	CNT1
15	SLC28A1	ENSG00000156222	ENST00000537216	protein_coding	KNOWN	None	11001	1632	543	85427892	85518772	1	None	CNT1
15	SLC28A1	ENSG00000156222	ENST00000538177	protein_coding	KNOWN	None	11001	1452	483	85427892	85488462	1	None	CNT1
15	SLC28A1	ENSG00000156222	ENST00000394573	protein_coding	KNOWN	CCDS10334	11001	1950	649	85427913	85489029	1	None	CNT1
15	SLC28A1	ENSG00000156222	ENST00000537703	protein_coding	KNOWN	None	11001	864	287	85427913	85469785	1	None	CNT1
19	LGALS4	ENSG00000171747	ENST00000595291	nonsense_mediated_decay	KNOWN	None	6565	117	38	39292311	39297147	-1	None	GAL4
19	LGALS4	ENSG00000171747	ENST00000307751	protein_coding	KNOWN	CCDS12521	6565	972	323	39292319	39304004	-1	None	GAL4
19	LGALS4	ENSG00000171747	ENST00000600070	protein_coding	NOVEL	None	6565	656	217	39292399	39299445	-1	None	GAL4
19	LGALS4	ENSG00000171747	ENST00000595342	retained_intron	KNOWN	None	6565	None	None	39292523	39294291	-1	None	GAL4
19	LGALS4	ENSG00000171747	ENST00000597153	retained_intron	KNOWN	None	6565	None	None	39292983	39303585	-1	None	GAL4
19	LGALS4	ENSG00000171747	ENST00000595278	retained_intron	KNOWN	None	6565	None	None	39293660	39303521	-1	None	GAL4
19	LGALS4	ENSG00000171747	ENST00000596628	retained_intron	KNOWN	None	6565	None	None	39294297	39299588	-1	None	GAL4
19	LGALS4	ENSG00000171747	ENST00000597803	processed_transcript	KNOWN	None	6565	None	None	39297101	39303585	-1	None	GAL4
19	LGALS4	ENSG00000171747	ENST00000594209	protein_coding	PUTATIVE	None	6565	95	30	39299538	39303585	-1	None	GAL4
22	IGLVIV-64	ENSG00000253242	ENST00000518581	IG_V_pseudogene	KNOWN	None	5943	None	None	22429777	22430077	1	None	IGLV(IV)-64
9	None	ENSG00000203396	ENST00000269395	processed_pseudogene	KNOWN	None	None	None	None	107090601	107091677	-1	None	None
10	None	ENSG00000213432	ENST00000394133	processed_pseudogene	KNOWN	None	None	None	None	95043761	95044315	-1	None	None
7	None	ENSG00000227573	ENST00000414855	processed_pseudogene	KNOWN	None	None	None	None	122489800	122490406	1	None	None
22	IGLVI-63	ENSG00000253752	ENST00000524184	IG_V_pseudogene	KNOWN	None	5938	None	None	22434180	22434673	1	None	IGLV(I)-63
5	RPL5P15	ENSG00000240412	ENST00000475870	processed_pseudogene	KNOWN	None	36769	None	None	58118330	58119541	1	None	None
6	RNU4-18P	ENSG00000252560	ENST00000516751	snRNA	KNOWN	None	46954	None	None	131963958	131964106	-1	None	None
10	RNA5SP323	ENSG00000212396	ENST00000391094	rRNA	KNOWN	None	43223	None	None	95270305	95270437	-1	RN5S323	None
9	None	ENSG00000237443	ENST00000430667	processed_pseudogene	KNOWN	None	None	None	None	107352325	107353231	1	None	None
5	None	ENSG00000248733	ENST00000510198	antisense	KNOWN	None	None	None	None	58142712	58159241	-1	None	None
11	CAT	ENSG00000121691	ENST00000241052	protein_coding	KNOWN	CCDS7891	1516	1584	527	34460472	34493609	1	None	None
11	CAT	ENSG00000121691	ENST00000528104	processed_transcript	PUTATIVE	None	1516	None	None	34477696	34478511	1	None	None
11	CAT	ENSG00000121691	ENST00000530343	processed_transcript	KNOWN	None	1516	None	None	34482280	34485746	1	None	None
11	CAT	ENSG00000121691	ENST00000525707	processed_transcript	PUTATIVE	None	1516	None	None	34482750	34490078	1	None	None
11	CAT	ENSG00000121691	ENST00000534710	processed_transcript	PUTATIVE	None	1516	None	None	34492261	34493606	1	None	None
22	IGLV1-62	ENSG00000253823	ENST00000518003	IG_V_pseudogene	KNOWN	None	5883	None	None	22440972	22441521	1	None	None
10	None	ENSG00000221352	ENST00000408425	miRNA	NOVEL	None	None	None	None	95368343	95368456	1	None	None
6	None	ENSG00000216917	ENST00000401879	processed_pseudogene	KNOWN	None	None	None	None	132101861	132102452	-1	None	None
9	None	ENSG00000235248	ENST00000457612	processed_pseudogene	KNOWN	None	None	None	None	107419049	107419997	-1	None	None
10	RAB11AP1	ENSG00000227995	ENST00000442978	processed_pseudogene	KNOWN	None	45188	None	None	95641050	95641695	-1	None	None
HSCHR6_MHC_MCF	MYL8P	ENSG00000224874	ENST00000416347	processed_pseudogene	KNOWN	None	7589	None	None	33477104	33477621	1	None	BING3
HSCHR6_MHC_MCF	MYL8P	ENSG00000224874	ENST00000551383	pseudogene	KNOWN	None	7589	None	None	33477106	33477621	1	None	BING3
7	None	ENSG00000226680	ENST00000420146	lincRNA	KNOWN	None	None	None	None	122709303	122743643	-1	None	None
9	None	ENSG00000188712	ENST00000412501	unprocessed_pseudogene	KNOWN	None	None	None	None	107484616	107485552	1	None	None
9	None	ENSG00000188712	ENST00000338236	unprocessed_pseudogene	KNOWN	None	None	None	None	107484616	107485552	1	None	None
9	None	ENSG00000226334	ENST00000435915	antisense	KNOWN	None	None	None	None	107689834	107691173	1	None	None
7	LYPLA1P1	ENSG00000223595	ENST00000434514	processed_pseudogene	KNOWN	None	44005	None	None	122870174	122870795	-1	None	None
22	None	ENSG00000225741	ENST00000444224	unprocessed_pseudogene	KNOWN	None	None	None	None	22457629	22459267	1	None	None
6	MIR548H5	ENSG00000266807	ENST00000580314	miRNA	KNOWN	None	41768	None	None	132113312	132113371	1	None	hsa-mir-548h-5
20	ZBTB46	ENSG00000130584	ENST00000245663	protein_coding	KNOWN	CCDS13538	16094	1770	589	62375019	62462567	-1	ZNF340, BTBD4	FLJ13502, RINZF, BZEL
20	ZBTB46	ENSG00000130584	ENST00000460757	processed_transcript	KNOWN	None	16094	None	None	62406609	62407315	-1	ZNF340, BTBD4	FLJ13502, RINZF, BZEL
20	ZBTB46	ENSG00000130584	ENST00000480766	processed_transcript	KNOWN	None	16094	None	None	62419073	62421212	-1	ZNF340, BTBD4	FLJ13502, RINZF, BZEL
20	ZBTB46	ENSG00000130584	ENST00000302995	protein_coding	KNOWN	CCDS13538	16094	1770	589	62375878	62462597	-1	ZNF340, BTBD4	FLJ13502, RINZF, BZEL
20	ZBTB46	ENSG00000130584	ENST00000395104	protein_coding	KNOWN	CCDS13538	16094	1770	589	62375878	62422147	-1	ZNF340, BTBD4	FLJ13502, RINZF, BZEL
4	RN7SL808P	ENSG00000240637	ENST00000496066	misc_RNA	KNOWN	None	46824	None	None	115720487	115720783	1	None	None
9	None	ENSG00000230013	ENST00000457720	lincRNA	KNOWN	None	None	None	None	107753077	107754062	-1	None	None
6	None	ENSG00000219532	ENST00000407837	processed_pseudogene	KNOWN	None	None	None	None	132140943	132141231	-1	None	None
4	MRPS33P3	ENSG00000251308	ENST00000513456	processed_pseudogene	KNOWN	None	29766	None	None	116064138	116064459	1	None	None
22	ABHD17AP5	ENSG00000182502	ENST00000333131	processed_pseudogene	KNOWN	None	34043	None	None	22469236	22472374	-1	FAM108A6, FAM108A6P	None
16	None	ENSG00000239186	ENST00000459533	snoRNA	NOVEL	None	None	None	None	87348326	87348429	1	None	None
4	RPF2P2	ENSG00000250693	ENST00000504693	processed_pseudogene	KNOWN	None	44015	None	None	116549968	116550863	1	None	None
16	None	ENSG00000270006	ENST00000602282	antisense	KNOWN	None	None	None	None	87351115	87351643	1	None	None
6	None	ENSG00000219669	ENST00000407947	processed_pseudogene	KNOWN	None	None	None	None	71785267	71786078	1	None	None
6	None	ENSG00000221345	ENST00000408418	snoRNA	NOVEL	None	None	None	None	71836597	71836808	-1	None	None
16	None	ENSG00000270082	ENST00000602665	antisense	KNOWN	None	None	None	None	87360593	87361190	1	None	None
11	None	ENSG00000201279	ENST00000364409	misc_RNA	NOVEL	None	None	None	None	3685045	3685141	-1	None	None
6	LYPLA1P3	ENSG00000218350	ENST00000402650	processed_pseudogene	KNOWN	None	44007	None	None	71874779	71875473	1	None	None
16	None	ENSG00000269901	ENST00000602779	antisense	KNOWN	None	None	None	None	87396142	87401082	1	None	None
11	None	ENSG00000200201	ENST00000363331	misc_RNA	NOVEL	None	None	None	None	3686394	3686489	-1	None	None
16	None	ENSG00000261592	ENST00000569147	antisense	KNOWN	None	None	None	None	87430310	87433901	-1	None	None
11	None	ENSG00000238686	ENST00000458786	snoRNA	NOVEL	None	None	None	None	3713273	3713375	1	None	None
6	RNU6-411P	ENSG00000207180	ENST00000384451	snRNA	KNOWN	None	47374	None	None	71892315	71892421	1	None	None
11	RNU6-1143P	ENSG00000251934	ENST00000516125	snRNA	KNOWN	None	48106	None	None	3736002	3736105	-1	None	None
22	None	ENSG00000236118	ENST00000448601	unprocessed_pseudogene	KNOWN	None	None	None	None	22509975	22510335	1	None	None
13	TBC1D4	ENSG00000136111	ENST00000377636	protein_coding	KNOWN	CCDS41901	19165	3897	1298	75858808	76056250	-1	None	KIAA0603, AS160, DKFZp779C0666
13	TBC1D4	ENSG00000136111	ENST00000478591	processed_transcript	KNOWN	None	19165	None	None	75869001	75876957	-1	None	KIAA0603, AS160, DKFZp779C0666
13	TBC1D4	ENSG00000136111	ENST00000493487	processed_transcript	KNOWN	None	19165	None	None	75880602	75890688	-1	None	KIAA0603, AS160, DKFZp779C0666
13	TBC1D4	ENSG00000136111	ENST00000413735	protein_coding	KNOWN	None	19165	847	281	75884171	75915667	-1	None	KIAA0603, AS160, DKFZp779C0666
13	TBC1D4	ENSG00000136111	ENST00000488955	processed_transcript	KNOWN	None	19165	None	None	75886918	75900386	-1	None	KIAA0603, AS160, DKFZp779C0666
13	TBC1D4	ENSG00000136111	ENST00000431480	protein_coding	KNOWN	None	19165	3873	1290	75858809	76056250	-1	None	KIAA0603, AS160, DKFZp779C0666
13	TBC1D4	ENSG00000136111	ENST00000377625	protein_coding	KNOWN	None	19165	3708	1235	75858809	76056250	-1	None	KIAA0603, AS160, DKFZp779C0666
13	TBC1D4	ENSG00000136111	ENST00000425511	protein_coding	KNOWN	None	19165	1389	462	75858809	76056250	-1	None	KIAA0603, AS160, DKFZp779C0666
7	None	ENSG00000232524	ENST00000419832	antisense	KNOWN	None	None	None	None	123096683	123099910	1	None	None
10	WBP1L	ENSG00000166272	ENST00000369889	protein_coding	KNOWN	CCDS7540	23510	1029	342	104536006	104576021	1	C10orf26	FLJ20154, OPAL1
10	WBP1L	ENSG00000166272	ENST00000448841	protein_coding	KNOWN	CCDS44473	23510	1092	363	104503727	104575997	1	C10orf26	FLJ20154, OPAL1
16	None	ENSG00000260750	ENST00000562466	lincRNA	KNOWN	None	None	None	None	87526161	87530604	1	None	None
16	None	ENSG00000260750	ENST00000565824	lincRNA	KNOWN	None	None	None	None	87526880	87530772	1	None	None
16	None	ENSG00000260750	ENST00000563921	lincRNA	KNOWN	None	None	None	None	87527793	87549241	1	None	None
22	None	ENSG00000233720	ENST00000440562	unprocessed_pseudogene	KNOWN	None	None	None	None	22511775	22512024	1	None	None
19	MPV17L2	ENSG00000254858	ENST00000599612	protein_coding	KNOWN	CCDS42522	28177	621	206	18303992	18307552	1	None	FKSG24, MGC12972
19	MPV17L2	ENSG00000254858	ENST00000534421	retained_intron	KNOWN	None	28177	None	None	18304028	18304970	1	None	FKSG24, MGC12972
19	MPV17L2	ENSG00000254858	ENST00000532896	retained_intron	KNOWN	None	28177	None	None	18304042	18307552	1	None	FKSG24, MGC12972
19	MPV17L2	ENSG00000254858	ENST00000534474	protein_coding	NOVEL	None	28177	939	312	18304042	18307552	1	None	FKSG24, MGC12972
19	MPV17L2	ENSG00000254858	ENST00000533807	retained_intron	KNOWN	None	28177	None	None	18304042	18307758	1	None	FKSG24, MGC12972
11	RNU7-50P	ENSG00000238304	ENST00000459175	snRNA	KNOWN	None	34146	None	None	3802625	3802686	1	None	U7.50
16	None	ENSG00000269935	ENST00000602388	antisense	KNOWN	None	None	None	None	87634132	87635796	-1	None	None
1	None	ENSG00000223474	ENST00000536896	protein_coding	NOVEL	None	None	507	168	26145212	26147288	-1	None	None
22	None	ENSG00000227710	ENST00000442890	unprocessed_pseudogene	KNOWN	None	None	None	None	22522682	22523027	1	None	None
11	None	ENSG00000250404	ENST00000507938	sense_overlapping	KNOWN	None	None	None	None	3837982	3843130	1	None	None
7	RNU6-296P	ENSG00000207338	ENST00000384608	snRNA	KNOWN	None	47259	None	None	123098042	123098148	-1	None	None
3	NMD3	ENSG00000169251	ENST00000468606	protein_coding	KNOWN	None	24250	294	97	160822484	160951204	1	None	CGI-07
3	NMD3	ENSG00000169251	ENST00000460503	protein_coding	KNOWN	None	24250	467	154	160822610	160952624	1	None	CGI-07
3	NMD3	ENSG00000169251	ENST00000493066	protein_coding	KNOWN	None	24250	656	217	160939050	160955979	1	None	CGI-07
3	NMD3	ENSG00000169251	ENST00000473909	retained_intron	KNOWN	None	24250	None	None	160939076	160952693	1	None	CGI-07
3	NMD3	ENSG00000169251	ENST00000351193	protein_coding	KNOWN	CCDS3194	24250	1512	503	160939078	160970095	1	None	CGI-07
3	NMD3	ENSG00000169251	ENST00000472947	protein_coding	PUTATIVE	None	24250	1590	529	160939096	160971320	1	None	CGI-07
3	NMD3	ENSG00000169251	ENST00000463518	protein_coding	KNOWN	None	24250	656	217	160939112	160955979	1	None	CGI-07
3	NMD3	ENSG00000169251	ENST00000476237	protein_coding	KNOWN	None	24250	486	161	160939345	160952643	1	None	CGI-07
3	NMD3	ENSG00000169251	ENST00000460469	protein_coding	KNOWN	CCDS3194	24250	1512	503	160939347	160969792	1	None	CGI-07
3	NMD3	ENSG00000169251	ENST00000478160	processed_transcript	KNOWN	None	24250	None	None	160942718	160953119	1	None	CGI-07
22	SOCS2P2	ENSG00000224465	ENST00000458366	processed_pseudogene	KNOWN	None	19330	None	None	22525369	22525942	-1	None	None
1	AUNIP	ENSG00000127423	ENST00000481602	processed_transcript	PUTATIVE	None	28363	None	None	26160497	26164038	-1	C1orf135	MGC2603, AIBp
1	AUNIP	ENSG00000127423	ENST00000374298	protein_coding	KNOWN	CCDS266	28363	1074	357	26160497	26185903	-1	C1orf135	MGC2603, AIBp
1	AUNIP	ENSG00000127423	ENST00000538789	protein_coding	KNOWN	None	28363	1116	371	26158414	26185903	-1	C1orf135	MGC2603, AIBp
22	IGLVIV-59	ENSG00000254308	ENST00000520218	IG_V_pseudogene	KNOWN	None	5942	None	None	22533618	22533867	1	None	IGLV(IV)-59
7	None	ENSG00000230442	ENST00000422401	antisense	KNOWN	None	None	None	None	123224913	123264636	-1	None	None
7	None	ENSG00000230442	ENST00000440504	antisense	KNOWN	None	None	None	None	123254215	123265011	-1	None	None
7	None	ENSG00000230442	ENST00000418409	antisense	KNOWN	None	None	None	None	123255511	123264777	-1	None	None
7	None	ENSG00000230442	ENST00000429396	antisense	KNOWN	None	None	None	None	123260036	123264783	-1	None	None
7	None	ENSG00000230442	ENST00000451016	antisense	KNOWN	None	None	None	None	123262810	123264739	-1	None	None
HSCHR6_MHC_SSTO	APOM	ENSG00000235754	ENST00000430238	protein_coding	KNOWN	None	13916	390	129	31610134	31615788	1	None	ApoM, G3a, NG20
HSCHR6_MHC_SSTO	APOM	ENSG00000235754	ENST00000425177	protein_coding	KNOWN	None	13916	351	116	31610134	31615927	1	None	ApoM, G3a, NG20
HSCHR6_MHC_SSTO	APOM	ENSG00000235754	ENST00000432598	protein_coding	KNOWN	None	13916	567	188	31613611	31615927	1	None	ApoM, G3a, NG20
HSCHR6_MHC_COX	TAPBP	ENSG00000112493	ENST00000467834	processed_transcript	PUTATIVE	None	11566	None	None	33189081	33203629	-1	None	TAPA
HSCHR6_MHC_COX	TAPBP	ENSG00000112493	ENST00000374568	protein_coding	KNOWN	None	11566	1401	466	33189081	33203636	-1	None	TAPA
HSCHR6_MHC_COX	TAPBP	ENSG00000112493	ENST00000374572	protein_coding	KNOWN	None	11566	1347	448	33189081	33203772	-1	None	TAPA
HSCHR6_MHC_COX	TAPBP	ENSG00000112493	ENST00000497837	processed_transcript	PUTATIVE	None	11566	None	None	33189118	33203441	-1	None	TAPA
HSCHR6_MHC_COX	TAPBP	ENSG00000112493	ENST00000395114	protein_coding	KNOWN	None	11566	1515	504	33193033	33203597	-1	None	TAPA
HSCHR6_MHC_COX	TAPBP	ENSG00000112493	ENST00000494432	retained_intron	KNOWN	None	11566	None	None	33193059	33203434	-1	None	TAPA
HSCHR6_MHC_COX	TAPBP	ENSG00000112493	ENST00000460153	processed_transcript	PUTATIVE	None	11566	None	None	33193664	33203426	-1	None	TAPA
HSCHR6_MHC_COX	TAPBP	ENSG00000112493	ENST00000456051	protein_coding	KNOWN	None	11566	607	201	33194385	33203431	-1	None	TAPA
HSCHR6_MHC_COX	TAPBP	ENSG00000112493	ENST00000473293	processed_transcript	PUTATIVE	None	11566	None	None	33202399	33203340	-1	None	TAPA
HSCHR6_MHC_COX	TAPBP	ENSG00000112493	ENST00000552779	protein_coding	KNOWN	None	11566	1347	448	33193171	33203744	-1	None	TAPA
HSCHR6_MHC_COX	TAPBP	ENSG00000112493	ENST00000550330	protein_coding	KNOWN	None	11566	1086	361	33193171	33203744	-1	None	TAPA
22	IGLVV-58	ENSG00000253637	ENST00000520445	IG_V_pseudogene	KNOWN	None	5945	None	None	22536972	22537275	1	None	IGLV(V)-58
20	None	ENSG00000269223	ENST00000596861	protein_coding	KNOWN	None	None	495	164	62474779	62475273	-1	None	None
4	PGAM4P2	ENSG00000248488	ENST00000512491	processed_pseudogene	KNOWN	None	42466	None	None	116685255	116685975	-1	None	None
5	CCNH	ENSG00000134480	ENST00000505587	retained_intron	KNOWN	None	1594	None	None	86687311	86703997	-1	None	p34, p37
5	CCNH	ENSG00000134480	ENST00000510921	processed_transcript	KNOWN	None	1594	None	None	86688524	86700767	-1	None	p34, p37
5	CCNH	ENSG00000134480	ENST00000508855	protein_coding	PUTATIVE	None	1594	768	255	86689234	86707111	-1	None	p34, p37
5	CCNH	ENSG00000134480	ENST00000256897	protein_coding	KNOWN	CCDS4064	1594	972	323	86690082	86708836	-1	None	p34, p37
5	CCNH	ENSG00000134480	ENST00000504878	protein_coding	PUTATIVE	None	1594	750	249	86690091	86708721	-1	None	p34, p37
5	CCNH	ENSG00000134480	ENST00000511207	retained_intron	KNOWN	None	1594	None	None	86690097	86697591	-1	None	p34, p37
5	CCNH	ENSG00000134480	ENST00000504115	retained_intron	KNOWN	None	1594	None	None	86690143	86704003	-1	None	p34, p37
5	CCNH	ENSG00000134480	ENST00000513499	processed_transcript	KNOWN	None	1594	None	None	86700659	86708706	-1	None	p34, p37
5	CCNH	ENSG00000134480	ENST00000510020	processed_transcript	KNOWN	None	1594	None	None	86703855	86708688	-1	None	p34, p37
5	CCNH	ENSG00000134480	ENST00000505230	retained_intron	KNOWN	None	1594	None	None	86704890	86708667	-1	None	p34, p37
4	KRT18P21	ENSG00000250363	ENST00000515767	processed_pseudogene	KNOWN	None	33389	None	None	116841863	116843134	1	None	None
1	SLC9C2	ENSG00000162753	ENST00000367714	protein_coding	KNOWN	CCDS1308	28664	3375	1124	173469603	173572233	-1	SLC9A11	MGC43026
1	SLC9C2	ENSG00000162753	ENST00000466087	processed_transcript	KNOWN	None	28664	None	None	173469609	173545890	-1	SLC9A11	MGC43026
1	SLC9C2	ENSG00000162753	ENST00000497689	processed_transcript	KNOWN	None	28664	None	None	173469609	173551057	-1	SLC9A11	MGC43026
1	SLC9C2	ENSG00000162753	ENST00000479367	processed_transcript	KNOWN	None	28664	None	None	173565557	173572192	-1	SLC9A11	MGC43026
1	SLC9C2	ENSG00000162753	ENST00000476568	processed_transcript	KNOWN	None	28664	None	None	173567045	173570891	-1	SLC9A11	MGC43026
1	SLC9C2	ENSG00000162753	ENST00000536496	protein_coding	KNOWN	None	28664	1353	450	173494015	173572189	-1	SLC9A11	MGC43026
20	ABHD16B	ENSG00000183260	ENST00000369916	protein_coding	KNOWN	CCDS13539	16128	1410	469	62492566	62494341	1	C20orf135	dJ591C20.1
5	CSF1R	ENSG00000182578	ENST00000504875	nonsense_mediated_decay	KNOWN	None	2433	2016	671	149432854	149466153	-1	FMS	C-FMS, CSFR, CD115
5	CSF1R	ENSG00000182578	ENST00000286301	protein_coding	KNOWN	CCDS4302	2433	2919	972	149432854	149492935	-1	FMS	C-FMS, CSFR, CD115
5	CSF1R	ENSG00000182578	ENST00000509861	retained_intron	KNOWN	None	2433	None	None	149433401	149434383	-1	FMS	C-FMS, CSFR, CD115
5	CSF1R	ENSG00000182578	ENST00000515068	nonsense_mediated_decay	KNOWN	None	2433	195	64	149435589	149441231	-1	FMS	C-FMS, CSFR, CD115
5	CSF1R	ENSG00000182578	ENST00000515239	processed_transcript	KNOWN	None	2433	None	None	149439341	149446744	-1	FMS	C-FMS, CSFR, CD115
5	CSF1R	ENSG00000182578	ENST00000513609	retained_intron	KNOWN	None	2433	None	None	149439341	149446744	-1	FMS	C-FMS, CSFR, CD115
5	CSF1R	ENSG00000182578	ENST00000502660	retained_intron	KNOWN	None	2433	None	None	149456467	149466117	-1	FMS	C-FMS, CSFR, CD115
5	CSF1R	ENSG00000182578	ENST00000511344	protein_coding	PUTATIVE	None	2433	148	48	149459615	149492935	-1	FMS	C-FMS, CSFR, CD115
5	CSF1R	ENSG00000182578	ENST00000543093	protein_coding	KNOWN	None	2433	921	306	149450103	149465990	-1	FMS	C-FMS, CSFR, CD115
6	None	ENSG00000232295	ENST00000602418	antisense	KNOWN	None	None	None	None	71931160	71994635	-1	None	None
6	None	ENSG00000232295	ENST00000412751	antisense	KNOWN	None	None	None	None	71961061	72020279	-1	None	None
6	None	ENSG00000232295	ENST00000423255	antisense	KNOWN	None	None	None	None	71961067	72020043	-1	None	None
6	None	ENSG00000232295	ENST00000586232	antisense	KNOWN	None	None	None	None	71961265	72037766	-1	None	None
6	None	ENSG00000232295	ENST00000591156	antisense	KNOWN	None	None	None	None	71963387	72037766	-1	None	None
6	None	ENSG00000232295	ENST00000588612	antisense	KNOWN	None	None	None	None	71986922	72037766	-1	None	None
6	None	ENSG00000232295	ENST00000587253	antisense	KNOWN	None	None	None	None	71991088	72037766	-1	None	None
6	None	ENSG00000232295	ENST00000432050	antisense	KNOWN	None	None	None	None	72004876	72020298	-1	None	None
6	None	ENSG00000232295	ENST00000586030	antisense	KNOWN	None	None	None	None	72004879	72037766	-1	None	None
6	None	ENSG00000232295	ENST00000450998	antisense	KNOWN	None	None	None	None	72012545	72037787	-1	None	None
6	None	ENSG00000232295	ENST00000587397	antisense	KNOWN	None	None	None	None	72012669	72037766	-1	None	None
6	None	ENSG00000232295	ENST00000585882	antisense	KNOWN	None	None	None	None	72012673	72037766	-1	None	None
6	None	ENSG00000232295	ENST00000587036	antisense	KNOWN	None	None	None	None	72012681	72037762	-1	None	None
6	None	ENSG00000232295	ENST00000590780	antisense	KNOWN	None	None	None	None	72017644	72037766	-1	None	None
6	None	ENSG00000232295	ENST00000434683	antisense	KNOWN	None	None	None	None	72017644	72037787	-1	None	None
6	None	ENSG00000232295	ENST00000585945	antisense	KNOWN	None	None	None	None	72017648	72037761	-1	None	None
6	None	ENSG00000232295	ENST00000589255	antisense	KNOWN	None	None	None	None	72017705	72037920	-1	None	None
6	None	ENSG00000232295	ENST00000586974	antisense	KNOWN	None	None	None	None	72017729	72021351	-1	None	None
6	None	ENSG00000232295	ENST00000587015	antisense	KNOWN	None	None	None	None	72017829	72037931	-1	None	None
6	None	ENSG00000232295	ENST00000590213	antisense	KNOWN	None	None	None	None	72019999	72037766	-1	None	None
4	None	ENSG00000248173	ENST00000508414	lincRNA	KNOWN	None	None	None	None	116843171	117218316	-1	None	None
4	None	ENSG00000248173	ENST00000509983	lincRNA	KNOWN	None	None	None	None	117017447	117218313	-1	None	None
11	None	ENSG00000228661	ENST00000415809	antisense	KNOWN	None	None	None	None	3875548	3876739	-1	None	None
19	U2AF2	ENSG00000063244	ENST00000450554	protein_coding	KNOWN	CCDS46197	23156	1416	471	56165512	56186081	1	None	U2AF65
19	U2AF2	ENSG00000063244	ENST00000308924	protein_coding	KNOWN	CCDS12933	23156	1428	475	56166431	56185664	1	None	U2AF65
19	U2AF2	ENSG00000063244	ENST00000588850	retained_intron	KNOWN	None	23156	None	None	56166448	56172683	1	None	U2AF65
19	U2AF2	ENSG00000063244	ENST00000587196	nonsense_mediated_decay	KNOWN	None	23156	155	50	56166475	56173312	1	None	U2AF65
19	U2AF2	ENSG00000063244	ENST00000592867	retained_intron	KNOWN	None	23156	None	None	56170574	56171851	1	None	U2AF65
19	U2AF2	ENSG00000063244	ENST00000592874	nonsense_mediated_decay	KNOWN	None	23156	259	85	56171882	56180231	1	None	U2AF65
19	U2AF2	ENSG00000063244	ENST00000590551	protein_coding	PUTATIVE	None	23156	924	307	56173865	56185605	1	None	U2AF65
19	U2AF2	ENSG00000063244	ENST00000587275	retained_intron	KNOWN	None	23156	None	None	56173885	56175425	1	None	U2AF65
9	None	ENSG00000234160	ENST00000413915	antisense	KNOWN	None	None	None	None	37509147	37510296	1	None	None
X	RPL7P53	ENSG00000237475	ENST00000421245	processed_pseudogene	KNOWN	None	36831	None	None	72755339	72756077	1	None	None
1	PAQR7	ENSG00000182749	ENST00000374296	protein_coding	KNOWN	CCDS267	23146	1041	346	26187701	26197744	-1	None	mSR, MPRA
4	EIF3KP3	ENSG00000250442	ENST00000514461	processed_pseudogene	KNOWN	None	44018	None	None	116964563	116965201	-1	None	None
11	None	ENSG00000229368	ENST00000430222	sense_overlapping	KNOWN	None	None	None	None	3875842	3876629	1	None	None
12	SUOX	ENSG00000139531	ENST00000356124	protein_coding	KNOWN	CCDS8901	11460	1638	545	56390964	56399309	1	None	None
12	SUOX	ENSG00000139531	ENST00000266971	protein_coding	KNOWN	CCDS8901	11460	1638	545	56391015	56399309	1	None	None
12	SUOX	ENSG00000139531	ENST00000550121	processed_transcript	KNOWN	None	11460	None	None	56391043	56395689	1	None	None
12	SUOX	ENSG00000139531	ENST00000552363	processed_transcript	KNOWN	None	11460	None	None	56391043	56397597	1	None	None
12	SUOX	ENSG00000139531	ENST00000551698	processed_transcript	KNOWN	None	11460	None	None	56391043	56397749	1	None	None
12	SUOX	ENSG00000139531	ENST00000550340	processed_transcript	KNOWN	None	11460	None	None	56391071	56397851	1	None	None
12	SUOX	ENSG00000139531	ENST00000394115	protein_coding	KNOWN	CCDS8901	11460	1638	545	56391072	56399270	1	None	None
12	SUOX	ENSG00000139531	ENST00000547586	protein_coding	KNOWN	None	11460	128	41	56391073	56396404	1	None	None
12	SUOX	ENSG00000139531	ENST00000552258	protein_coding	KNOWN	None	11460	363	120	56391080	56397536	1	None	None
12	SUOX	ENSG00000139531	ENST00000548274	protein_coding	KNOWN	CCDS8901	11460	1638	545	56391082	56399309	1	None	None
12	SUOX	ENSG00000139531	ENST00000552813	retained_intron	KNOWN	None	11460	None	None	56391102	56396838	1	None	None
12	SUOX	ENSG00000139531	ENST00000550478	processed_transcript	KNOWN	None	11460	None	None	56391103	56397707	1	None	None
12	SUOX	ENSG00000139531	ENST00000546833	protein_coding	KNOWN	None	11460	485	160	56391114	56397658	1	None	None
12	SUOX	ENSG00000139531	ENST00000551841	protein_coding	PUTATIVE	None	11460	315	104	56391399	56398457	1	None	None
12	SUOX	ENSG00000139531	ENST00000394109	protein_coding	KNOWN	CCDS8901	11460	1638	545	56395282	56399309	1	None	None
12	SUOX	ENSG00000139531	ENST00000546712	retained_intron	KNOWN	None	11460	None	None	56395523	56397518	1	None	None
12	SUOX	ENSG00000139531	ENST00000550065	nonsense_mediated_decay	KNOWN	CCDS8901	11460	1638	545	56395998	56400425	1	None	None
20	None	ENSG00000268858	ENST00000601296	protein_coding	KNOWN	None	None	339	112	62492879	62493217	-1	None	None
4	None	ENSG00000248327	ENST00000508336	processed_pseudogene	KNOWN	None	None	None	None	166468684	166472212	-1	None	None
4	None	ENSG00000249259	ENST00000513136	transcribed_processed_pseudogene	KNOWN	None	None	None	None	117016266	117018222	-1	None	None
20	PLCB1	ENSG00000182621	ENST00000378641	protein_coding	KNOWN	CCDS13103	15917	3522	1173	8112824	8865547	1	None	KIAA0581, PLC-I, PLC154
20	PLCB1	ENSG00000182621	ENST00000338037	protein_coding	KNOWN	CCDS13102	15917	3651	1216	8113272	8865547	1	None	KIAA0581, PLC-I, PLC154
20	PLCB1	ENSG00000182621	ENST00000378637	protein_coding	KNOWN	CCDS13103	15917	3522	1173	8113296	8783130	1	None	KIAA0581, PLC-I, PLC154
20	PLCB1	ENSG00000182621	ENST00000404098	protein_coding	KNOWN	None	15917	697	231	8113302	8632165	1	None	KIAA0581, PLC-I, PLC154
20	PLCB1	ENSG00000182621	ENST00000475958	processed_transcript	KNOWN	None	15917	None	None	8630038	8632658	1	None	KIAA0581, PLC-I, PLC154
20	PLCB1	ENSG00000182621	ENST00000487210	nonsense_mediated_decay	KNOWN	None	15917	2744	913	8639268	8949003	1	None	KIAA0581, PLC-I, PLC154
20	PLCB1	ENSG00000182621	ENST00000494924	processed_transcript	KNOWN	None	15917	None	None	8696509	8769172	1	None	KIAA0581, PLC-I, PLC154
20	PLCB1	ENSG00000182621	ENST00000439627	protein_coding	KNOWN	None	15917	591	196	8717675	8731883	1	None	KIAA0581, PLC-I, PLC154
20	PLCB1	ENSG00000182621	ENST00000437439	protein_coding	KNOWN	None	15917	93	30	8770825	8773437	1	None	KIAA0581, PLC-I, PLC154
9	PTBP3	ENSG00000119314	ENST00000374257	protein_coding	NOVEL	CCDS55332	10253	1575	524	114980715	115095947	-1	ROD1	DKFZp781I1117
9	PTBP3	ENSG00000119314	ENST00000374255	protein_coding	KNOWN	CCDS6784	10253	1659	552	114984525	115095905	-1	ROD1	DKFZp781I1117
9	PTBP3	ENSG00000119314	ENST00000343327	protein_coding	PUTATIVE	CCDS59140	10253	1374	457	114984941	115095858	-1	ROD1	DKFZp781I1117
9	PTBP3	ENSG00000119314	ENST00000487997	processed_transcript	KNOWN	None	10253	None	None	115024715	115095826	-1	ROD1	DKFZp781I1117
9	PTBP3	ENSG00000119314	ENST00000210227	protein_coding	PUTATIVE	None	10253	548	181	115024785	115095309	-1	ROD1	DKFZp781I1117
9	PTBP3	ENSG00000119314	ENST00000450374	protein_coding	NOVEL	None	10253	231	76	115038190	115095894	-1	ROD1	DKFZp781I1117
9	PTBP3	ENSG00000119314	ENST00000334318	protein_coding	KNOWN	CCDS55333	10253	1668	555	114980715	115095944	-1	ROD1	DKFZp781I1117
9	PTBP3	ENSG00000119314	ENST00000458258	protein_coding	KNOWN	CCDS59141	10253	1677	558	114980715	115095123	-1	ROD1	DKFZp781I1117
4	None	ENSG00000250725	ENST00000509326	processed_pseudogene	KNOWN	None	None	None	None	166585502	166586823	1	None	None
X	KLHL34	ENSG00000185915	ENST00000379499	protein_coding	KNOWN	CCDS14199	26634	1935	644	21673609	21676448	-1	None	FLJ34960, RP11-450P7.3
4	None	ENSG00000249500	ENST00000507838	lincRNA	KNOWN	None	None	None	None	166605791	166683930	1	None	None
20	ADRM1	ENSG00000130706	ENST00000491935	processed_transcript	KNOWN	None	15759	None	None	60877149	60879597	1	None	GP110, Rpn13, ARM1
20	ADRM1	ENSG00000130706	ENST00000253003	protein_coding	KNOWN	CCDS13496	15759	1224	407	60878061	60883918	1	None	GP110, Rpn13, ARM1
20	ADRM1	ENSG00000130706	ENST00000462554	processed_transcript	KNOWN	None	15759	None	None	60878314	60881790	1	None	GP110, Rpn13, ARM1
20	ADRM1	ENSG00000130706	ENST00000465805	processed_transcript	KNOWN	None	15759	None	None	60879215	60881790	1	None	GP110, Rpn13, ARM1
5	LRRTM2	ENSG00000146006	ENST00000274711	protein_coding	KNOWN	CCDS47272	19409	1551	516	138204612	138210979	-1	None	KIAA0416
5	LRRTM2	ENSG00000146006	ENST00000521094	protein_coding	NOVEL	None	19409	234	77	138208144	138210993	-1	None	KIAA0416
5	LRRTM2	ENSG00000146006	ENST00000518785	protein_coding	PUTATIVE	None	19409	117	38	138208321	138211057	-1	None	KIAA0416
5	LRRTM2	ENSG00000146006	ENST00000523537	processed_transcript	PUTATIVE	None	19409	None	None	138209735	138211030	-1	None	KIAA0416
10	CYP17A1	ENSG00000148795	ENST00000369887	protein_coding	KNOWN	CCDS7541	2593	1527	508	104590288	104597290	-1	CYP17	P450C17, CPT7, S17AH
10	CYP17A1	ENSG00000148795	ENST00000469683	retained_intron	KNOWN	None	2593	None	None	104590705	104591460	-1	CYP17	P450C17, CPT7, S17AH
10	CYP17A1	ENSG00000148795	ENST00000489268	processed_transcript	KNOWN	None	2593	None	None	104593232	104597171	-1	CYP17	P450C17, CPT7, S17AH
15	C15orf43	ENSG00000167014	ENST00000340827	protein_coding	KNOWN	CCDS10115	28520	663	220	45248900	45271427	1	None	MGC33951
15	C15orf43	ENSG00000167014	ENST00000559137	nonsense_mediated_decay	KNOWN	None	28520	147	48	45248908	45270837	1	None	MGC33951
15	C15orf43	ENSG00000167014	ENST00000557864	nonsense_mediated_decay	KNOWN	None	28520	131	42	45248933	45270810	1	None	MGC33951
11	SSH3	ENSG00000172830	ENST00000308127	protein_coding	KNOWN	CCDS8157	30581	1980	659	67070919	67080071	1	None	FLJ20515, FLJ10928
11	SSH3	ENSG00000172830	ENST00000532881	nonsense_mediated_decay	KNOWN	None	30581	75	24	67070949	67080076	1	None	FLJ20515, FLJ10928
11	SSH3	ENSG00000172830	ENST00000308298	protein_coding	NOVEL	None	30581	1185	394	67070951	67080073	1	None	FLJ20515, FLJ10928
11	SSH3	ENSG00000172830	ENST00000532600	nonsense_mediated_decay	KNOWN	None	30581	126	41	67071001	67074545	1	None	FLJ20515, FLJ10928
11	SSH3	ENSG00000172830	ENST00000376757	protein_coding	NOVEL	None	30581	1416	471	67071097	67080063	1	None	FLJ20515, FLJ10928
11	SSH3	ENSG00000172830	ENST00000534112	processed_transcript	PUTATIVE	None	30581	None	None	67071180	67072340	1	None	FLJ20515, FLJ10928
11	SSH3	ENSG00000172830	ENST00000532181	processed_transcript	KNOWN	None	30581	None	None	67071594	67077014	1	None	FLJ20515, FLJ10928
11	SSH3	ENSG00000172830	ENST00000529224	processed_transcript	PUTATIVE	None	30581	None	None	67075044	67076997	1	None	FLJ20515, FLJ10928
11	SSH3	ENSG00000172830	ENST00000527821	protein_coding	PUTATIVE	None	30581	622	206	67075128	67077640	1	None	FLJ20515, FLJ10928
11	SSH3	ENSG00000172830	ENST00000531495	processed_transcript	PUTATIVE	None	30581	None	None	67076701	67077569	1	None	FLJ20515, FLJ10928
11	SSH3	ENSG00000172830	ENST00000525913	processed_transcript	PUTATIVE	None	30581	None	None	67079096	67080078	1	None	FLJ20515, FLJ10928
14	CRIP1	ENSG00000213145	ENST00000496700	retained_intron	KNOWN	None	2360	None	None	105952654	105955122	1	None	CRIP
14	CRIP1	ENSG00000213145	ENST00000330233	protein_coding	KNOWN	CCDS10004	2360	234	77	105952654	105955128	1	None	CRIP
14	CRIP1	ENSG00000213145	ENST00000409393	protein_coding	KNOWN	CCDS10004	2360	234	77	105953204	105955284	1	None	CRIP
14	CRIP1	ENSG00000213145	ENST00000392531	protein_coding	KNOWN	CCDS10004	2360	234	77	105953254	105955128	1	None	CRIP
14	CRIP1	ENSG00000213145	ENST00000460900	retained_intron	KNOWN	None	2360	None	None	105953534	105955122	1	None	CRIP
14	CRIP1	ENSG00000213145	ENST00000461556	retained_intron	KNOWN	None	2360	None	None	105954191	105955126	1	None	CRIP
2	EPT1	ENSG00000138018	ENST00000442141	protein_coding	KNOWN	None	29361	354	117	26531415	26596374	1	None	KIAA1724, SELI, SEPI
2	EPT1	ENSG00000138018	ENST00000260585	protein_coding	KNOWN	CCDS46240	29361	1194	397	26568982	26618759	1	None	KIAA1724, SELI, SEPI
2	EPT1	ENSG00000138018	ENST00000447170	protein_coding	NOVEL	None	29361	540	179	26569017	26608007	1	None	KIAA1724, SELI, SEPI
2	EPT1	ENSG00000138018	ENST00000462301	processed_transcript	KNOWN	None	29361	None	None	26569046	26569768	1	None	KIAA1724, SELI, SEPI
6	CTAGE13P	ENSG00000230711	ENST00000416709	processed_pseudogene	KNOWN	None	37298	None	None	168687585	168690030	-1	None	None
6	None	ENSG00000224417	ENST00000445442	sense_intronic	KNOWN	None	None	None	None	168700863	168702794	-1	None	None
16	None	ENSG00000260864	ENST00000569060	unprocessed_pseudogene	KNOWN	None	None	None	None	32737936	32740858	-1	None	None
6	None	ENSG00000260771	ENST00000568306	lincRNA	KNOWN	None	None	None	None	168775377	168776035	1	None	None
9	RNU2-5P	ENSG00000222465	ENST00000410533	snRNA	KNOWN	None	10155	None	None	72803487	72803666	-1	RNU2P3	U2, u2.7
Y	XKRYP3	ENSG00000236620	ENST00000442113	unprocessed_pseudogene	KNOWN	None	23910	None	None	25862069	25872955	-1	None	None
6	None	ENSG00000255905	ENST00000535039	pseudogene	NOVEL	None	None	None	None	169067733	169068243	1	None	None
9	SMC5-AS1	ENSG00000268364	ENST00000594708	antisense	KNOWN	None	48718	None	None	72808913	72873782	-1	None	MAMDC2-AS2
9	RN7SKP191	ENSG00000201583	ENST00000364713	misc_RNA	KNOWN	None	45915	None	None	107859037	107859342	1	None	None
9	None	ENSG00000238208	ENST00000423731	processed_pseudogene	KNOWN	None	None	None	None	107944761	107949038	-1	None	None
Y	USP9YP25	ENSG00000224866	ENST00000457708	unprocessed_pseudogene	KNOWN	None	38761	None	None	25880340	25882396	1	None	None
16	AMFR	ENSG00000159461	ENST00000290649	protein_coding	KNOWN	CCDS10758	463	1932	643	56395364	56459450	-1	None	RNF45, gp78
16	AMFR	ENSG00000159461	ENST00000492830	protein_coding	NOVEL	None	463	900	299	56395472	56437029	-1	None	RNF45, gp78
16	AMFR	ENSG00000159461	ENST00000566757	retained_intron	KNOWN	None	463	None	None	56395914	56397757	-1	None	RNF45, gp78
16	AMFR	ENSG00000159461	ENST00000568325	retained_intron	KNOWN	None	463	None	None	56395935	56398028	-1	None	RNF45, gp78
16	AMFR	ENSG00000159461	ENST00000563285	retained_intron	KNOWN	None	463	None	None	56396828	56401515	-1	None	RNF45, gp78
16	AMFR	ENSG00000159461	ENST00000567738	protein_coding	NOVEL	None	463	866	287	56397992	56437015	-1	None	RNF45, gp78
16	AMFR	ENSG00000159461	ENST00000566334	retained_intron	KNOWN	None	463	None	None	56401203	56419884	-1	None	RNF45, gp78
16	AMFR	ENSG00000159461	ENST00000568762	retained_intron	KNOWN	None	463	None	None	56419554	56435687	-1	None	RNF45, gp78
16	AMFR	ENSG00000159461	ENST00000565445	protein_coding	PUTATIVE	None	463	688	228	56436898	56458907	-1	None	RNF45, gp78
16	AMFR	ENSG00000159461	ENST00000563664	protein_coding	PUTATIVE	None	463	496	164	56438880	56458783	-1	None	RNF45, gp78
16	AMFR	ENSG00000159461	ENST00000568657	processed_transcript	KNOWN	None	463	None	None	56441920	56458890	-1	None	RNF45, gp78
16	AMFR	ENSG00000159461	ENST00000564283	processed_transcript	PUTATIVE	None	463	None	None	56448233	56458107	-1	None	RNF45, gp78
5	None	ENSG00000248514	ENST00000503314	antisense	KNOWN	None	None	None	None	180632361	180633120	-1	None	None
9	RPL24P8	ENSG00000236801	ENST00000446071	processed_pseudogene	KNOWN	None	36409	None	None	72832111	72832584	1	None	None
7	LMOD2	ENSG00000170807	ENST00000458573	protein_coding	KNOWN	CCDS47693	6648	1644	547	123295861	123304344	1	None	None
7	LMOD2	ENSG00000170807	ENST00000456238	protein_coding	PUTATIVE	None	6648	480	159	123295923	123303642	1	None	None
9	None	ENSG00000239180	ENST00000459091	misc_RNA	NOVEL	None	None	None	None	72926523	72926617	-1	None	None
10	CCDC147	ENSG00000120051	ENST00000369704	protein_coding	KNOWN	CCDS31282	26676	2619	872	106113522	106214848	1	C10orf80	FLJ35908, bA554P13.1
10	CCDC147	ENSG00000120051	ENST00000369703	protein_coding	KNOWN	None	26676	279	92	106136613	106142118	1	C10orf80	FLJ35908, bA554P13.1
10	CCDC147	ENSG00000120051	ENST00000312902	protein_coding	KNOWN	None	26676	279	92	106113534	106141931	1	C10orf80	FLJ35908, bA554P13.1
9	None	ENSG00000272232	ENST00000605957	misc_RNA	NOVEL	None	None	None	None	73194081	73194377	-1	None	None
16	None	ENSG00000260845	ENST00000561479	lincRNA	KNOWN	None	None	None	None	32747230	32752415	-1	None	None
4	None	ENSG00000250612	ENST00000510090	processed_pseudogene	KNOWN	None	None	None	None	70212327	70223895	1	None	None
Y	USP9YP29	ENSG00000232424	ENST00000445112	unprocessed_pseudogene	KNOWN	None	38765	None	None	25886405	25892840	-1	None	None
9	None	ENSG00000232086	ENST00000436491	antisense	KNOWN	None	None	None	None	73322963	73327779	1	None	None
1	STMN1	ENSG00000117632	ENST00000513116	processed_transcript	KNOWN	None	6510	None	None	26210672	26219098	-1	LAP18, C1orf215	SMN, OP18, PR22, PP19, PP17, Lag, FLJ32206
1	STMN1	ENSG00000117632	ENST00000426559	protein_coding	KNOWN	CCDS44090	6510	525	174	26211931	26232957	-1	LAP18, C1orf215	SMN, OP18, PR22, PP19, PP17, Lag, FLJ32206
1	STMN1	ENSG00000117632	ENST00000455785	protein_coding	KNOWN	CCDS269	6510	450	149	26226593	26232957	-1	LAP18, C1orf215	SMN, OP18, PR22, PP19, PP17, Lag, FLJ32206
1	STMN1	ENSG00000117632	ENST00000465604	processed_transcript	KNOWN	None	6510	None	None	26227059	26232908	-1	LAP18, C1orf215	SMN, OP18, PR22, PP19, PP17, Lag, FLJ32206
1	STMN1	ENSG00000117632	ENST00000357865	protein_coding	KNOWN	CCDS269	6510	450	149	26227086	26233482	-1	LAP18, C1orf215	SMN, OP18, PR22, PP19, PP17, Lag, FLJ32206
1	STMN1	ENSG00000117632	ENST00000374291	protein_coding	KNOWN	CCDS269	6510	450	149	26227232	26231619	-1	LAP18, C1orf215	SMN, OP18, PR22, PP19, PP17, Lag, FLJ32206
1	STMN1	ENSG00000117632	ENST00000485226	processed_transcript	KNOWN	None	6510	None	None	26227898	26230304	-1	LAP18, C1orf215	SMN, OP18, PR22, PP19, PP17, Lag, FLJ32206
1	STMN1	ENSG00000117632	ENST00000446334	protein_coding	KNOWN	None	6510	257	84	26228103	26231980	-1	LAP18, C1orf215	SMN, OP18, PR22, PP19, PP17, Lag, FLJ32206
1	STMN1	ENSG00000117632	ENST00000399728	protein_coding	KNOWN	CCDS269	6510	450	149	26226609	26232644	-1	LAP18, C1orf215	SMN, OP18, PR22, PP19, PP17, Lag, FLJ32206
5	MIR4638	ENSG00000264732	ENST00000581158	miRNA	KNOWN	None	41841	None	None	180649566	180649633	-1	None	hsa-mir-4638
9	None	ENSG00000223966	ENST00000415119	antisense	KNOWN	None	None	None	None	73340956	73345772	1	None	None
16	None	ENSG00000261108	ENST00000570107	processed_pseudogene	KNOWN	None	None	None	None	32750948	32751487	-1	None	None
7	CLCN1	ENSG00000188037	ENST00000343257	protein_coding	KNOWN	CCDS5881	2019	2967	988	143013219	143049176	1	None	CLC1, ClC-1
7	CLCN1	ENSG00000188037	ENST00000432192	nonsense_mediated_decay	KNOWN	None	2019	229	75	143018567	143027988	1	None	CLC1, ClC-1
7	CLCN1	ENSG00000188037	ENST00000455478	nonsense_mediated_decay	KNOWN	None	2019	307	101	143018567	143027988	1	None	CLC1, ClC-1
7	CLCN1	ENSG00000188037	ENST00000495612	processed_transcript	KNOWN	None	2019	None	None	143018567	143027988	1	None	CLC1, ClC-1
9	MIR204	ENSG00000207935	ENST00000385200	miRNA	KNOWN	None	31582	None	None	73424891	73425000	-1	MIRN204	hsa-mir-204
14	TRAJ5	ENSG00000211884	ENST00000390532	TR_J_gene	KNOWN	None	12081	60	19	23009190	23009249	1	None	None
5	None	ENSG00000247049	ENST00000499096	antisense	KNOWN	None	None	None	None	180651646	180657685	-1	None	None
Y	RNU1-97P	ENSG00000252681	ENST00000516872	snRNA	KNOWN	None	48439	None	None	25887089	25887252	-1	None	None
4	None	ENSG00000268209	ENST00000508771	unprocessed_pseudogene	KNOWN	None	None	None	None	70253298	70254025	1	None	None
X	SNORA11C	ENSG00000221459	ENST00000408532	snoRNA	KNOWN	None	33621	None	None	47248048	47248176	1	None	None
6	IYD	ENSG00000009765	ENST00000229447	protein_coding	KNOWN	CCDS55067	21071	882	293	150690028	150725764	1	C6orf71	dJ422F24.1, DEHAL1
6	IYD	ENSG00000009765	ENST00000344419	protein_coding	KNOWN	CCDS5227	21071	870	289	150690028	150727105	1	C6orf71	dJ422F24.1, DEHAL1
6	IYD	ENSG00000009765	ENST00000367335	nonsense_mediated_decay	KNOWN	CCDS55066	21071	744	247	150690089	150719245	1	C6orf71	dJ422F24.1, DEHAL1
6	IYD	ENSG00000009765	ENST00000392256	protein_coding	KNOWN	CCDS55066	21071	744	247	150690089	150719245	1	C6orf71	dJ422F24.1, DEHAL1
6	IYD	ENSG00000009765	ENST00000392255	protein_coding	KNOWN	None	21071	813	270	150690133	150717952	1	C6orf71	dJ422F24.1, DEHAL1
6	IYD	ENSG00000009765	ENST00000500320	protein_coding	KNOWN	None	21071	855	284	150690133	150718026	1	C6orf71	dJ422F24.1, DEHAL1
6	IYD	ENSG00000009765	ENST00000546121	retained_intron	KNOWN	None	21071	None	None	150690225	150710766	1	C6orf71	dJ422F24.1, DEHAL1
6	IYD	ENSG00000009765	ENST00000422583	nonsense_mediated_decay	KNOWN	None	21071	270	89	150690291	150719245	1	C6orf71	dJ422F24.1, DEHAL1
6	IYD	ENSG00000009765	ENST00000425615	protein_coding	NOVEL	None	21071	579	192	150691113	150716668	1	C6orf71	dJ422F24.1, DEHAL1
Y	RAB9AP1	ENSG00000232910	ENST00000449393	unprocessed_pseudogene	KNOWN	None	38104	None	None	25897335	25897907	1	None	None
X	None	ENSG00000232009	ENST00000442314	processed_pseudogene	KNOWN	None	None	None	None	47249360	47251699	-1	None	None
10	RAB11FIP2	ENSG00000107560	ENST00000355624	protein_coding	KNOWN	CCDS7602	29152	1539	512	119764427	119806114	-1	None	KIAA0941, nRip11, Rab11-FIP2
10	RAB11FIP2	ENSG00000107560	ENST00000476207	processed_transcript	KNOWN	None	29152	None	None	119765267	119774621	-1	None	KIAA0941, nRip11, Rab11-FIP2
10	RAB11FIP2	ENSG00000107560	ENST00000483413	retained_intron	KNOWN	None	29152	None	None	119798435	119799823	-1	None	KIAA0941, nRip11, Rab11-FIP2
10	RAB11FIP2	ENSG00000107560	ENST00000369199	protein_coding	KNOWN	None	29152	1599	532	119768509	119805674	-1	None	KIAA0941, nRip11, Rab11-FIP2
11	PGA3	ENSG00000229859	ENST00000535551	retained_intron	KNOWN	None	8885	None	None	60970779	60975336	1	None	None
11	PGA3	ENSG00000229859	ENST00000325558	protein_coding	KNOWN	CCDS31574	8885	1167	388	60970852	60980570	1	None	None
11	PGA3	ENSG00000229859	ENST00000537954	retained_intron	KNOWN	None	8885	None	None	60970987	60972211	1	None	None
11	PGA3	ENSG00000229859	ENST00000539649	retained_intron	KNOWN	None	8885	None	None	60970987	60974288	1	None	None
11	PGA3	ENSG00000229859	ENST00000543349	protein_coding	PUTATIVE	None	8885	554	183	60971688	60977430	1	None	None
11	PGA3	ENSG00000229859	ENST00000543505	protein_coding	PUTATIVE	None	8885	797	264	60973152	60978906	1	None	None
11	PGA3	ENSG00000229859	ENST00000541699	retained_intron	KNOWN	None	8885	None	None	60975399	60978907	1	None	None
11	PGA3	ENSG00000229859	ENST00000543125	protein_coding	PUTATIVE	None	8885	705	234	60977020	60980337	1	None	None
11	PGA3	ENSG00000229859	ENST00000538258	protein_coding	PUTATIVE	None	8885	387	128	60978226	60980311	1	None	None
10	GPR123	ENSG00000197177	ENST00000607359	protein_coding	PUTATIVE	None	13838	3840	1279	134884433	134945179	1	None	KIAA1828
10	GPR123	ENSG00000197177	ENST00000392607	protein_coding	NOVEL	CCDS41580	13838	1683	560	134901409	134945179	1	None	KIAA1828
10	GPR123	ENSG00000197177	ENST00000392606	protein_coding	PUTATIVE	None	13838	1392	463	134915750	134944932	1	None	KIAA1828
5	None	ENSG00000251585	ENST00000502592	processed_pseudogene	KNOWN	None	None	None	None	85698283	85698778	1	None	None
X	SPANXN5	ENSG00000204363	ENST00000375511	protein_coding	KNOWN	CCDS35295	33178	219	72	52825184	52827141	-1	None	SPANX-N5, CT11.10
5	MIR3607	ENSG00000199262	ENST00000362392	snoRNA	KNOWN	None	38900	None	None	85916323	85916385	1	None	hsa-mir-3607
4	None	ENSG00000215110	ENST00000511504	processed_pseudogene	KNOWN	None	None	None	None	70255208	70267799	1	None	None
X	NPM1P49	ENSG00000226556	ENST00000448027	processed_pseudogene	KNOWN	None	45228	None	None	47298135	47299173	-1	None	None
5	RNU6-804P	ENSG00000207013	ENST00000384286	snRNA	KNOWN	None	47767	None	None	85958961	85959067	-1	None	None
Y	TRAPPC2P9	ENSG00000232845	ENST00000434556	unprocessed_pseudogene	KNOWN	None	37733	None	None	25908985	25911730	-1	None	TRAPPC2P4B
5	None	ENSG00000250544	ENST00000506471	lincRNA	KNOWN	None	None	None	None	86042635	86045589	1	None	None
5	None	ENSG00000250544	ENST00000503843	lincRNA	KNOWN	None	None	None	None	86042748	86045395	1	None	None
X	NUS1P1	ENSG00000235636	ENST00000446295	processed_pseudogene	KNOWN	None	38472	None	None	47372001	47372882	-1	None	None
7	WASL	ENSG00000106299	ENST00000223023	protein_coding	KNOWN	CCDS34743	12735	1518	505	123321989	123389121	-1	None	N-WASP, NWASP
5	None	ENSG00000248701	ENST00000507653	lincRNA	KNOWN	None	None	None	None	86093502	86096097	1	None	None
14	TRAJ4	ENSG00000211885	ENST00000390533	TR_J_gene	KNOWN	None	12070	63	20	23011142	23011204	1	None	None
HSCHR6_MHC_SSTO	C6orf47	ENSG00000226103	ENST00000413113	protein_coding	KNOWN	None	19076	885	294	31616015	31618489	-1	None	D6S53E, G4
7	CYP51A1	ENSG00000001630	ENST00000003100	protein_coding	KNOWN	CCDS5623	2649	1530	509	91741465	91763844	-1	CYP51	CP51, CYPL1, P450L1, LDM, P450-14DM
7	CYP51A1	ENSG00000001630	ENST00000450723	protein_coding	KNOWN	CCDS55123	2649	1215	404	91742726	91764117	-1	CYP51	CP51, CYPL1, P450L1, LDM, P450-14DM
7	CYP51A1	ENSG00000001630	ENST00000422867	protein_coding	NOVEL	None	2649	667	221	91742899	91753158	-1	CYP51	CP51, CYPL1, P450L1, LDM, P450-14DM
7	CYP51A1	ENSG00000001630	ENST00000482924	retained_intron	KNOWN	None	2649	None	None	91743008	91746762	-1	CYP51	CP51, CYPL1, P450L1, LDM, P450-14DM
7	CYP51A1	ENSG00000001630	ENST00000435873	protein_coding	PUTATIVE	None	2649	90	29	91761121	91772266	-1	CYP51	CP51, CYPL1, P450L1, LDM, P450-14DM
X	XAGE5	ENSG00000171405	ENST00000375501	protein_coding	KNOWN	CCDS14346	30930	327	108	52841591	52847325	1	GAGED5	XAGE-5, CT12.5
X	XAGE5	ENSG00000171405	ENST00000445860	processed_transcript	PUTATIVE	None	30930	None	None	52843935	52847325	1	GAGED5	XAGE-5, CT12.5
X	XAGE5	ENSG00000171405	ENST00000351072	protein_coding	KNOWN	CCDS14346	30930	327	108	52841228	52847322	1	GAGED5	XAGE-5, CT12.5
X	XAGE5	ENSG00000171405	ENST00000425386	protein_coding	KNOWN	CCDS14346	30930	327	108	52841228	52847322	1	GAGED5	XAGE-5, CT12.5
X	XAGE5	ENSG00000171405	ENST00000375503	protein_coding	KNOWN	None	30930	228	75	52841228	52847261	1	GAGED5	XAGE-5, CT12.5
20	TPD52L2	ENSG00000101150	ENST00000369927	protein_coding	KNOWN	CCDS58785	12007	492	163	62496596	62521777	1	None	D54, hD54
20	TPD52L2	ENSG00000101150	ENST00000346249	protein_coding	KNOWN	CCDS13540	12007	621	206	62496643	62522898	1	None	D54, hD54
20	TPD52L2	ENSG00000101150	ENST00000348257	protein_coding	KNOWN	CCDS13541	12007	561	186	62496643	62522898	1	None	D54, hD54
20	TPD52L2	ENSG00000101150	ENST00000352482	protein_coding	KNOWN	CCDS13544	12007	663	220	62496643	62522898	1	None	D54, hD54
20	TPD52L2	ENSG00000101150	ENST00000351424	protein_coding	KNOWN	CCDS13543	12007	630	209	62496647	62522898	1	None	D54, hD54
20	TPD52L2	ENSG00000101150	ENST00000217121	protein_coding	KNOWN	CCDS13542	12007	690	229	62496647	62522898	1	None	D54, hD54
20	TPD52L2	ENSG00000101150	ENST00000358548	protein_coding	KNOWN	CCDS13545	12007	603	200	62496647	62522898	1	None	D54, hD54
20	TPD52L2	ENSG00000101150	ENST00000474176	retained_intron	KNOWN	None	12007	None	None	62518235	62522898	1	None	D54, hD54
11	MIR4687	ENSG00000263421	ENST00000583618	miRNA	KNOWN	None	41712	None	None	3877292	3877371	1	None	hsa-mir-4687
4	TTC39CP1	ENSG00000250627	ENST00000512513	processed_pseudogene	KNOWN	None	44019	None	None	117115153	117115907	-1	None	None
11	None	ENSG00000230593	ENST00000448870	processed_pseudogene	KNOWN	None	None	None	None	3913628	3914117	-1	None	None
11	None	ENSG00000230593	ENST00000308739	processed_pseudogene	KNOWN	None	None	None	None	3913623	3914120	-1	None	None
4	TRMT112P1	ENSG00000250272	ENST00000505515	processed_pseudogene	KNOWN	None	44020	None	None	117300075	117300425	1	None	None
7	RNU6-11P	ENSG00000201104	ENST00000364234	snRNA	KNOWN	None	34255	None	None	123430659	123430765	-1	RNU6-11	None
7	AKR1B1	ENSG00000085662	ENST00000285930	protein_coding	KNOWN	CCDS5831	381	951	316	134127102	134143894	-1	ALDR1	AR
7	AKR1B1	ENSG00000085662	ENST00000434222	nonsense_mediated_decay	KNOWN	None	381	792	263	134127138	134143854	-1	ALDR1	AR
7	AKR1B1	ENSG00000085662	ENST00000465351	retained_intron	KNOWN	None	381	None	None	134127139	134143854	-1	ALDR1	AR
7	AKR1B1	ENSG00000085662	ENST00000467251	retained_intron	KNOWN	None	381	None	None	134129479	134132776	-1	ALDR1	AR
7	AKR1B1	ENSG00000085662	ENST00000498771	retained_intron	KNOWN	None	381	None	None	134132602	134136558	-1	ALDR1	AR
7	AKR1B1	ENSG00000085662	ENST00000498373	retained_intron	KNOWN	None	381	None	None	134132708	134134084	-1	ALDR1	AR
7	AKR1B1	ENSG00000085662	ENST00000487438	processed_transcript	KNOWN	None	381	None	None	134133749	134143944	-1	ALDR1	AR
7	AKR1B1	ENSG00000085662	ENST00000489022	processed_transcript	KNOWN	None	381	None	None	134133807	134143881	-1	ALDR1	AR
7	AKR1B1	ENSG00000085662	ENST00000491741	retained_intron	KNOWN	None	381	None	None	134133810	134144036	-1	ALDR1	AR
7	AKR1B1	ENSG00000085662	ENST00000497983	processed_transcript	KNOWN	None	381	None	None	134133848	134144004	-1	ALDR1	AR
7	AKR1B1	ENSG00000085662	ENST00000484592	retained_intron	KNOWN	None	381	None	None	134134330	134143882	-1	ALDR1	AR
7	AKR1B1	ENSG00000085662	ENST00000467829	retained_intron	KNOWN	None	381	None	None	134134437	134144036	-1	ALDR1	AR
7	AKR1B1	ENSG00000085662	ENST00000426422	nonsense_mediated_decay	KNOWN	None	381	309	102	134134471	134143850	-1	ALDR1	AR
7	AKR1B1	ENSG00000085662	ENST00000462784	retained_intron	KNOWN	None	381	None	None	134136046	134143886	-1	ALDR1	AR
11	None	ENSG00000206976	ENST00000384249	snoRNA	NOVEL	None	None	None	None	3943797	3943933	1	None	None
4	CUL4AP1	ENSG00000248139	ENST00000514750	processed_pseudogene	KNOWN	None	44027	None	None	117347139	117352048	-1	None	None
7	HYALP1	ENSG00000228211	ENST00000417674	unitary_pseudogene	KNOWN	None	5324	None	None	123454193	123469306	1	None	HYAL6
14	TRAJ3	ENSG00000211886	ENST00000390534	TR_J_gene	KNOWN	None	12059	62	19	23012122	23012183	1	None	None
19	ZNF221	ENSG00000159905	ENST00000591168	protein_coding	KNOWN	None	13014	391	129	44455375	44470045	1	None	None
19	ZNF221	ENSG00000159905	ENST00000587682	protein_coding	KNOWN	CCDS12633	13014	1854	617	44455375	44471508	1	None	None
19	ZNF221	ENSG00000159905	ENST00000251269	protein_coding	KNOWN	CCDS12633	13014	1854	617	44455397	44471861	1	None	None
19	ZNF221	ENSG00000159905	ENST00000592350	protein_coding	KNOWN	CCDS12633	13014	1854	617	44464428	44471752	1	None	None
4	TMEM144	ENSG00000164124	ENST00000505049	protein_coding	KNOWN	None	25633	232	76	159122756	159136465	1	None	FLJ11155
4	TMEM144	ENSG00000164124	ENST00000505189	protein_coding	KNOWN	None	25633	261	86	159122756	159138501	1	None	FLJ11155
4	TMEM144	ENSG00000164124	ENST00000511038	protein_coding	KNOWN	None	25633	31	9	159122767	159133850	1	None	FLJ11155
4	TMEM144	ENSG00000164124	ENST00000508243	protein_coding	KNOWN	None	25633	501	166	159131346	159156595	1	None	FLJ11155
4	TMEM144	ENSG00000164124	ENST00000296529	protein_coding	KNOWN	CCDS3799	25633	1038	345	159131401	159176563	1	None	FLJ11155
4	TMEM144	ENSG00000164124	ENST00000512481	protein_coding	KNOWN	None	25633	261	86	159131611	159138501	1	None	FLJ11155
4	TMEM144	ENSG00000164124	ENST00000504569	protein_coding	KNOWN	None	25633	413	136	159131636	159140542	1	None	FLJ11155
4	TMEM144	ENSG00000164124	ENST00000509278	protein_coding	PUTATIVE	None	25633	222	73	159131637	159135168	1	None	FLJ11155
4	TMEM144	ENSG00000164124	ENST00000514558	protein_coding	KNOWN	None	25633	510	169	159131637	159155542	1	None	FLJ11155
4	TMEM144	ENSG00000164124	ENST00000513744	processed_transcript	PUTATIVE	None	25633	None	None	159131638	159133058	1	None	FLJ11155
4	TMEM144	ENSG00000164124	ENST00000514346	processed_transcript	PUTATIVE	None	25633	None	None	159131638	159133372	1	None	FLJ11155
4	TMEM144	ENSG00000164124	ENST00000503200	protein_coding	KNOWN	None	25633	332	109	159131638	159138572	1	None	FLJ11155
4	TMEM144	ENSG00000164124	ENST00000511532	nonsense_mediated_decay	KNOWN	None	25633	585	194	159131707	159176356	1	None	FLJ11155
4	TMEM144	ENSG00000164124	ENST00000502698	protein_coding	KNOWN	None	25633	232	76	159132377	159136465	1	None	FLJ11155
4	TMEM144	ENSG00000164124	ENST00000514971	protein_coding	KNOWN	None	25633	273	90	159132418	159138513	1	None	FLJ11155
4	TMEM144	ENSG00000164124	ENST00000503404	processed_transcript	KNOWN	None	25633	None	None	159154188	159176439	1	None	FLJ11155
4	TMEM144	ENSG00000164124	ENST00000512272	retained_intron	KNOWN	None	25633	None	None	159158489	159165480	1	None	FLJ11155
4	None	ENSG00000250791	ENST00000491608	lincRNA	KNOWN	None	None	None	None	117410520	117436302	-1	None	None
4	None	ENSG00000250791	ENST00000503597	lincRNA	KNOWN	None	None	None	None	117411232	117412356	-1	None	None
7	KLRG2	ENSG00000188883	ENST00000340940	protein_coding	KNOWN	CCDS5854	24778	1230	409	139137436	139168458	-1	None	FLJ44186, CLEC15B
7	KLRG2	ENSG00000188883	ENST00000393039	protein_coding	KNOWN	None	24778	945	314	139138084	139168409	-1	None	FLJ44186, CLEC15B
16	PRR14	ENSG00000156858	ENST00000563399	retained_intron	KNOWN	None	28458	None	None	30662038	30664263	1	None	MGC3121
16	PRR14	ENSG00000156858	ENST00000568754	protein_coding	KNOWN	None	28458	728	241	30662050	30666019	1	None	MGC3121
16	PRR14	ENSG00000156858	ENST00000563211	retained_intron	KNOWN	None	28458	None	None	30662099	30664084	1	None	MGC3121
16	PRR14	ENSG00000156858	ENST00000569864	protein_coding	KNOWN	None	28458	314	103	30662099	30664163	1	None	MGC3121
16	PRR14	ENSG00000156858	ENST00000564946	retained_intron	KNOWN	None	28458	None	None	30662101	30667733	1	None	MGC3121
16	PRR14	ENSG00000156858	ENST00000300835	protein_coding	KNOWN	CCDS10687	28458	1758	585	30662188	30667761	1	None	MGC3121
16	PRR14	ENSG00000156858	ENST00000565410	retained_intron	KNOWN	None	28458	None	None	30662257	30664207	1	None	MGC3121
16	PRR14	ENSG00000156858	ENST00000287463	retained_intron	KNOWN	None	28458	None	None	30662306	30667734	1	None	MGC3121
16	PRR14	ENSG00000156858	ENST00000542965	protein_coding	KNOWN	CCDS10687	28458	1758	585	30662511	30667734	1	None	MGC3121
16	PRR14	ENSG00000156858	ENST00000567322	retained_intron	KNOWN	None	28458	None	None	30665430	30666913	1	None	MGC3121
16	PRR14	ENSG00000156858	ENST00000571654	processed_transcript	KNOWN	None	28458	None	None	30666142	30667269	1	None	MGC3121
16	PRR14	ENSG00000156858	ENST00000567989	retained_intron	KNOWN	None	28458	None	None	30666462	30667729	1	None	MGC3121
16	PRR14	ENSG00000156858	ENST00000565977	retained_intron	KNOWN	None	28458	None	None	30667040	30667734	1	None	MGC3121
X	SEPHS1P4	ENSG00000230146	ENST00000446112	processed_pseudogene	KNOWN	None	42169	None	None	72989083	72990258	1	None	None
X	TSIX	ENSG00000270641	ENST00000604411	lincRNA	KNOWN	None	12377	None	None	73012040	73049066	1	None	NCRNA00013, XIST-AS1, LINC00013
19	PSG7	ENSG00000221878	ENST00000599226	retained_intron	KNOWN	None	9524	None	None	43428286	43431729	-1	None	None
19	PSG7	ENSG00000221878	ENST00000406070	polymorphic_pseudogene	KNOWN	None	9524	1260	419	43428292	43441325	-1	None	None
19	PSG7	ENSG00000221878	ENST00000446844	polymorphic_pseudogene	KNOWN	None	9524	1281	426	43429031	43441318	-1	None	None
19	PSG7	ENSG00000221878	ENST00000599620	retained_intron	KNOWN	None	9524	None	None	43433341	43439709	-1	None	None
19	PSG7	ENSG00000221878	ENST00000471557	processed_transcript	KNOWN	None	9524	None	None	43440309	43441330	-1	None	None
5	SIL1	ENSG00000120725	ENST00000394817	protein_coding	KNOWN	CCDS4209	24624	1386	461	138282409	138534087	-1	MSS	BAP, ULG5
5	SIL1	ENSG00000120725	ENST00000265195	protein_coding	KNOWN	CCDS4209	24624	1386	461	138282443	138534005	-1	MSS	BAP, ULG5
5	SIL1	ENSG00000120725	ENST00000515008	processed_transcript	KNOWN	None	24624	None	None	138282684	138289122	-1	MSS	BAP, ULG5
5	SIL1	ENSG00000120725	ENST00000509534	protein_coding	PUTATIVE	None	24624	1407	468	138282712	138532210	-1	MSS	BAP, ULG5
5	SIL1	ENSG00000120725	ENST00000503732	processed_transcript	KNOWN	None	24624	None	None	138287478	138429570	-1	MSS	BAP, ULG5
5	SIL1	ENSG00000120725	ENST00000505945	protein_coding	NOVEL	None	24624	250	82	138287509	138378371	-1	MSS	BAP, ULG5
5	SIL1	ENSG00000120725	ENST00000508639	protein_coding	KNOWN	None	24624	489	162	138362646	138533995	-1	MSS	BAP, ULG5
5	SIL1	ENSG00000120725	ENST00000513453	protein_coding	KNOWN	None	24624	370	122	138378392	138467447	-1	MSS	BAP, ULG5
5	SIL1	ENSG00000120725	ENST00000507002	protein_coding	PUTATIVE	None	24624	375	124	138386635	138533986	-1	MSS	BAP, ULG5
5	SIL1	ENSG00000120725	ENST00000505830	protein_coding	PUTATIVE	None	24624	371	122	138386639	138533993	-1	MSS	BAP, ULG5
5	SIL1	ENSG00000120725	ENST00000505353	protein_coding	KNOWN	None	24624	284	93	138386696	138491156	-1	MSS	BAP, ULG5
5	SIL1	ENSG00000120725	ENST00000504666	processed_transcript	KNOWN	None	24624	None	None	138443696	138532217	-1	MSS	BAP, ULG5
5	SIL1	ENSG00000120725	ENST00000509400	processed_transcript	KNOWN	None	24624	None	None	138456724	138629223	-1	MSS	BAP, ULG5
5	SIL1	ENSG00000120725	ENST00000440765	processed_transcript	KNOWN	None	24624	None	None	138523440	138533997	-1	MSS	BAP, ULG5
5	SIL1	ENSG00000120725	ENST00000508744	processed_transcript	KNOWN	None	24624	None	None	138609227	138629246	-1	MSS	BAP, ULG5
1	DRAXIN	ENSG00000162490	ENST00000294485	protein_coding	KNOWN	CCDS135	25054	1050	349	11751786	11785914	1	C1orf187	FLJ34999, Draxin, Neucrin
11	None	ENSG00000255232	ENST00000529141	processed_pseudogene	KNOWN	None	None	None	None	3982507	3982768	1	None	None
11	HNRNPA1P76	ENSG00000255141	ENST00000529475	processed_pseudogene	KNOWN	None	48806	None	None	3994111	3995467	-1	None	None
5	None	ENSG00000242477	ENST00000486625	processed_pseudogene	KNOWN	None	None	None	None	86180048	86180698	-1	None	None
19	None	ENSG00000268845	ENST00000593558	antisense	KNOWN	None	None	None	None	6953222	6954915	1	None	None
2	D2HGDH	ENSG00000180902	ENST00000321264	protein_coding	KNOWN	CCDS33426	28358	1566	521	242673994	242708226	1	None	MGC25181, D2HGD, FLJ42195
2	D2HGDH	ENSG00000180902	ENST00000403782	protein_coding	PUTATIVE	None	28358	1164	387	242674017	242708224	1	None	MGC25181, D2HGD, FLJ42195
2	D2HGDH	ENSG00000180902	ENST00000436747	nonsense_mediated_decay	KNOWN	None	28358	732	243	242674030	242708226	1	None	MGC25181, D2HGD, FLJ42195
2	D2HGDH	ENSG00000180902	ENST00000400769	nonsense_mediated_decay	KNOWN	None	28358	963	320	242674045	242708224	1	None	MGC25181, D2HGD, FLJ42195
2	D2HGDH	ENSG00000180902	ENST00000463932	processed_transcript	PUTATIVE	None	28358	None	None	242674547	242675658	1	None	MGC25181, D2HGD, FLJ42195
2	D2HGDH	ENSG00000180902	ENST00000437164	protein_coding	NOVEL	None	28358	269	88	242681848	242689692	1	None	MGC25181, D2HGD, FLJ42195
2	D2HGDH	ENSG00000180902	ENST00000454048	protein_coding	NOVEL	None	28358	234	77	242681890	242690794	1	None	MGC25181, D2HGD, FLJ42195
2	D2HGDH	ENSG00000180902	ENST00000417686	protein_coding	NOVEL	None	28358	454	150	242681976	242688318	1	None	MGC25181, D2HGD, FLJ42195
2	D2HGDH	ENSG00000180902	ENST00000432449	protein_coding	NOVEL	None	28358	566	187	242688245	242695429	1	None	MGC25181, D2HGD, FLJ42195
2	D2HGDH	ENSG00000180902	ENST00000496252	processed_transcript	KNOWN	None	28358	None	None	242688251	242690804	1	None	MGC25181, D2HGD, FLJ42195
2	D2HGDH	ENSG00000180902	ENST00000467427	processed_transcript	KNOWN	None	28358	None	None	242688285	242694625	1	None	MGC25181, D2HGD, FLJ42195
2	D2HGDH	ENSG00000180902	ENST00000486953	processed_transcript	KNOWN	None	28358	None	None	242688405	242708226	1	None	MGC25181, D2HGD, FLJ42195
2	D2HGDH	ENSG00000180902	ENST00000470343	retained_intron	KNOWN	None	28358	None	None	242689232	242707363	1	None	MGC25181, D2HGD, FLJ42195
2	D2HGDH	ENSG00000180902	ENST00000473126	retained_intron	KNOWN	None	28358	None	None	242689514	242708231	1	None	MGC25181, D2HGD, FLJ42195
2	D2HGDH	ENSG00000180902	ENST00000468064	retained_intron	KNOWN	None	28358	None	None	242693936	242708226	1	None	MGC25181, D2HGD, FLJ42195
2	D2HGDH	ENSG00000180902	ENST00000445308	protein_coding	NOVEL	None	28358	955	317	242694489	242707377	1	None	MGC25181, D2HGD, FLJ42195
2	D2HGDH	ENSG00000180902	ENST00000342518	protein_coding	KNOWN	None	28358	960	319	242674045	242688742	1	None	MGC25181, D2HGD, FLJ42195
2	D2HGDH	ENSG00000180902	ENST00000537090	protein_coding	KNOWN	None	28358	978	325	242673994	242688529	1	None	MGC25181, D2HGD, FLJ42195
X	XIST	ENSG00000229807	ENST00000434839	lincRNA	KNOWN	None	12810	None	None	73040486	73046290	-1	DXS399E	NCRNA00001, DXS1089, swd66, LINC00001
X	XIST	ENSG00000229807	ENST00000421322	lincRNA	KNOWN	None	12810	None	None	73040488	73046641	-1	DXS399E	NCRNA00001, DXS1089, swd66, LINC00001
X	XIST	ENSG00000229807	ENST00000417942	lincRNA	KNOWN	None	12810	None	None	73040491	73046136	-1	DXS399E	NCRNA00001, DXS1089, swd66, LINC00001
X	XIST	ENSG00000229807	ENST00000416330	lincRNA	KNOWN	None	12810	None	None	73040491	73046179	-1	DXS399E	NCRNA00001, DXS1089, swd66, LINC00001
X	XIST	ENSG00000229807	ENST00000429829	lincRNA	KNOWN	None	12810	None	None	73040491	73072588	-1	DXS399E	NCRNA00001, DXS1089, swd66, LINC00001
X	XIST	ENSG00000229807	ENST00000433732	lincRNA	KNOWN	None	12810	None	None	73047544	73049302	-1	DXS399E	NCRNA00001, DXS1089, swd66, LINC00001
X	XIST	ENSG00000229807	ENST00000602587	lincRNA	KNOWN	None	12810	None	None	73047582	73051232	-1	DXS399E	NCRNA00001, DXS1089, swd66, LINC00001
X	XIST	ENSG00000229807	ENST00000445814	lincRNA	KNOWN	None	12810	None	None	73047636	73051045	-1	DXS399E	NCRNA00001, DXS1089, swd66, LINC00001
X	XIST	ENSG00000229807	ENST00000602863	lincRNA	KNOWN	None	12810	None	None	73048923	73061505	-1	DXS399E	NCRNA00001, DXS1089, swd66, LINC00001
X	XIST	ENSG00000229807	ENST00000602495	lincRNA	KNOWN	None	12810	None	None	73048973	73053596	-1	DXS399E	NCRNA00001, DXS1089, swd66, LINC00001
7	None	ENSG00000225583	ENST00000418216	processed_pseudogene	KNOWN	None	None	None	None	123572186	123572513	1	None	None
5	None	ENSG00000249061	ENST00000503349	lincRNA	KNOWN	None	None	None	None	86263138	86433529	1	None	None
5	None	ENSG00000249061	ENST00000515750	lincRNA	KNOWN	None	None	None	None	86415965	86433515	1	None	None
19	None	ENSG00000269761	ENST00000598153	processed_pseudogene	KNOWN	None	None	None	None	7005023	7006085	-1	None	None
15	RHOV	ENSG00000104140	ENST00000220507	protein_coding	KNOWN	CCDS10068	18313	711	236	41164412	41166487	-1	ARHV	Chp, WRCH2
3	STT3B	ENSG00000163527	ENST00000453168	processed_transcript	KNOWN	None	30611	None	None	31574130	31661766	1	None	SIMP, FLJ90106, STT3-B
3	STT3B	ENSG00000163527	ENST00000295770	protein_coding	KNOWN	CCDS2650	30611	2481	826	31574282	31679112	1	None	SIMP, FLJ90106, STT3-B
3	STT3B	ENSG00000163527	ENST00000423527	processed_transcript	KNOWN	None	30611	None	None	31574464	31661766	1	None	SIMP, FLJ90106, STT3-B
3	STT3B	ENSG00000163527	ENST00000462235	processed_transcript	KNOWN	None	30611	None	None	31575117	31658497	1	None	SIMP, FLJ90106, STT3-B
3	STT3B	ENSG00000163527	ENST00000436236	retained_intron	KNOWN	None	30611	None	None	31638298	31661788	1	None	SIMP, FLJ90106, STT3-B
3	STT3B	ENSG00000163527	ENST00000463044	processed_transcript	KNOWN	None	30611	None	None	31667553	31677956	1	None	SIMP, FLJ90106, STT3-B
3	STT3B	ENSG00000163527	ENST00000488151	retained_intron	KNOWN	None	30611	None	None	31670743	31677537	1	None	SIMP, FLJ90106, STT3-B
5	RN7SKP34	ENSG00000251951	ENST00000516142	misc_RNA	KNOWN	None	45758	None	None	86398420	86398663	-1	None	None
5	MIR4280	ENSG00000265919	ENST00000582178	miRNA	KNOWN	None	38334	None	None	86410696	86410771	-1	None	hsa-mir-4280
17	CAMKK1	ENSG00000004660	ENST00000381769	protein_coding	PUTATIVE	None	1469	1599	532	3763609	3794037	-1	None	DKFZp761M0423, CAMKKA, MGC34095
17	CAMKK1	ENSG00000004660	ENST00000348335	protein_coding	KNOWN	CCDS11038	1469	1518	505	3763609	3796338	-1	None	DKFZp761M0423, CAMKKA, MGC34095
17	CAMKK1	ENSG00000004660	ENST00000158166	protein_coding	KNOWN	CCDS11039	1469	1563	520	3768451	3796338	-1	None	DKFZp761M0423, CAMKKA, MGC34095
17	CAMKK1	ENSG00000004660	ENST00000573483	retained_intron	KNOWN	None	1469	None	None	3782125	3798185	-1	None	DKFZp761M0423, CAMKKA, MGC34095
17	CAMKK1	ENSG00000004660	ENST00000381771	protein_coding	KNOWN	None	1469	1632	543	3763625	3796337	-1	None	DKFZp761M0423, CAMKKA, MGC34095
3	RPL14	ENSG00000188846	ENST00000338970	protein_coding	KNOWN	CCDS33739	10305	648	215	40498783	40503861	1	None	L14, hRL14, RL14, CTG-B33
3	RPL14	ENSG00000188846	ENST00000465325	retained_intron	KNOWN	None	10305	None	None	40498794	40500107	1	None	L14, hRL14, RL14, CTG-B33
3	RPL14	ENSG00000188846	ENST00000396203	protein_coding	KNOWN	CCDS43070	10305	648	215	40498831	40503859	1	None	L14, hRL14, RL14, CTG-B33
3	RPL14	ENSG00000188846	ENST00000416518	protein_coding	PUTATIVE	None	10305	375	124	40498845	40503771	1	None	L14, hRL14, RL14, CTG-B33
3	RPL14	ENSG00000188846	ENST00000435633	nonsense_mediated_decay	KNOWN	None	10305	159	52	40498854	40503659	1	None	L14, hRL14, RL14, CTG-B33
3	RPL14	ENSG00000188846	ENST00000479563	retained_intron	KNOWN	None	10305	None	None	40499368	40503859	1	None	L14, hRL14, RL14, CTG-B33
3	RPL14	ENSG00000188846	ENST00000465280	retained_intron	KNOWN	None	10305	None	None	40499382	40500647	1	None	L14, hRL14, RL14, CTG-B33
3	RPL14	ENSG00000188846	ENST00000481798	retained_intron	KNOWN	None	10305	None	None	40499423	40503623	1	None	L14, hRL14, RL14, CTG-B33
3	RPL14	ENSG00000188846	ENST00000461368	processed_transcript	PUTATIVE	None	10305	None	None	40500122	40502961	1	None	L14, hRL14, RL14, CTG-B33
19	None	ENSG00000196589	ENST00000358469	lincRNA	KNOWN	None	None	None	None	7019311	7021442	-1	None	None
4	RNA5SP170	ENSG00000252959	ENST00000517150	rRNA	KNOWN	None	43070	None	None	166974339	166974439	-1	RN5S170	None
15	SORD	ENSG00000140263	ENST00000267814	protein_coding	KNOWN	CCDS10116	11184	1074	357	45315302	45369383	1	None	None
15	SORD	ENSG00000140263	ENST00000558789	nonsense_mediated_decay	KNOWN	None	11184	303	100	45315379	45362880	1	None	None
15	SORD	ENSG00000140263	ENST00000559230	nonsense_mediated_decay	KNOWN	None	11184	354	117	45315393	45365982	1	None	None
15	SORD	ENSG00000140263	ENST00000558580	protein_coding	PUTATIVE	None	11184	1011	336	45328434	45366006	1	None	None
15	SORD	ENSG00000140263	ENST00000560488	processed_transcript	PUTATIVE	None	11184	None	None	45362499	45365571	1	None	None
15	SORD	ENSG00000140263	ENST00000559562	processed_transcript	PUTATIVE	None	11184	None	None	45362652	45366103	1	None	None
15	SORD	ENSG00000140263	ENST00000558574	retained_intron	KNOWN	None	11184	None	None	45364354	45365632	1	None	None
11	None	ENSG00000224555	ENST00000531069	processed_pseudogene	KNOWN	None	None	None	None	4010393	4010693	-1	None	None
11	None	ENSG00000224555	ENST00000412449	processed_pseudogene	KNOWN	None	None	None	None	4010387	4010692	-1	None	None
20	SYS1-DBNDD2	ENSG00000254806	ENST00000419593	nonsense_mediated_decay	KNOWN	None	33535	237	78	43991840	44039250	1	None	None
20	SYS1-DBNDD2	ENSG00000254806	ENST00000475242	processed_transcript	KNOWN	None	33535	None	None	43991856	44038647	1	None	None
20	SYS1-DBNDD2	ENSG00000254806	ENST00000458187	nonsense_mediated_decay	KNOWN	None	33535	294	97	43992142	44038637	1	None	None
20	SYS1-DBNDD2	ENSG00000254806	ENST00000452133	nonsense_mediated_decay	KNOWN	None	33535	237	78	43992150	44038708	1	None	None
17	SMIM5	ENSG00000204323	ENST00000375215	protein_coding	KNOWN	CCDS54165	40030	234	77	73629514	73637484	1	C17orf109	None
17	SMIM5	ENSG00000204323	ENST00000581115	processed_transcript	KNOWN	None	40030	None	None	73629526	73630282	1	C17orf109	None
17	SMIM5	ENSG00000204323	ENST00000537494	retained_intron	KNOWN	None	40030	None	None	73632675	73637480	1	C17orf109	None
16	CENPBD1	ENSG00000177946	ENST00000567035	processed_transcript	KNOWN	None	28272	None	None	90036456	90038593	-1	None	MGC16385
16	CENPBD1	ENSG00000177946	ENST00000314994	protein_coding	KNOWN	CCDS45556	28272	564	187	90036206	90038942	-1	None	MGC16385
9	NTNG2	ENSG00000196358	ENST00000393229	protein_coding	KNOWN	CCDS6946	14288	1593	530	135037334	135119921	1	NTNG1	KIAA1857, Lmnt2
9	NTNG2	ENSG00000196358	ENST00000490694	processed_transcript	KNOWN	None	14288	None	None	135115995	135117560	1	NTNG1	KIAA1857, Lmnt2
9	NTNG2	ENSG00000196358	ENST00000483055	processed_transcript	KNOWN	None	14288	None	None	135116828	135117556	1	NTNG1	KIAA1857, Lmnt2
9	NTNG2	ENSG00000196358	ENST00000360670	protein_coding	KNOWN	None	14288	1611	536	135037334	135118220	1	NTNG1	KIAA1857, Lmnt2
9	NTNG2	ENSG00000196358	ENST00000393228	protein_coding	KNOWN	None	14288	1569	522	135037334	135118220	1	NTNG1	KIAA1857, Lmnt2
9	NTNG2	ENSG00000196358	ENST00000372179	protein_coding	KNOWN	None	14288	1269	422	135037334	135106896	1	NTNG1	KIAA1857, Lmnt2
6	B3GALT4	ENSG00000235863	ENST00000606990	processed_transcript	KNOWN	None	919	None	None	33246465	33252609	1	None	beta3Gal-T4, GalT4
6	B3GALT4	ENSG00000235863	ENST00000451237	protein_coding	KNOWN	CCDS34425	919	1137	378	33244917	33246602	1	None	beta3Gal-T4, GalT4
1	ANKRD45	ENSG00000183831	ENST00000333279	protein_coding	KNOWN	CCDS1309	24786	801	266	173578700	173639001	-1	None	FLJ45235, CT117
1	ANKRD45	ENSG00000183831	ENST00000367712	retained_intron	KNOWN	None	24786	None	None	173626765	173638971	-1	None	FLJ45235, CT117
7	None	ENSG00000241345	ENST00000472838	antisense	KNOWN	None	None	None	None	123634676	123667713	1	None	None
7	None	ENSG00000241345	ENST00000476892	antisense	KNOWN	None	None	None	None	123634685	123635466	1	None	None
5	RN7SL629P	ENSG00000241243	ENST00000489622	misc_RNA	KNOWN	None	46645	None	None	86590008	86590290	-1	None	None
5	None	ENSG00000247345	ENST00000500224	antisense	KNOWN	None	None	None	None	58335588	58359330	1	None	None
5	RNU6-606P	ENSG00000207452	ENST00000384721	snRNA	KNOWN	None	47569	None	None	86595504	86595614	-1	None	None
11	TMEM123	ENSG00000152558	ENST00000361236	protein_coding	KNOWN	None	30138	570	189	102267063	102323570	-1	None	PORIMIN, KCT3
11	TMEM123	ENSG00000152558	ENST00000398136	protein_coding	KNOWN	CCDS41702	30138	627	208	102267067	102323775	-1	None	PORIMIN, KCT3
11	TMEM123	ENSG00000152558	ENST00000532161	protein_coding	PUTATIVE	None	30138	363	120	102269555	102323097	-1	None	PORIMIN, KCT3
11	TMEM123	ENSG00000152558	ENST00000528969	protein_coding	PUTATIVE	None	30138	363	120	102269587	102321962	-1	None	PORIMIN, KCT3
11	TMEM123	ENSG00000152558	ENST00000529492	retained_intron	KNOWN	None	30138	None	None	102272475	102323283	-1	None	PORIMIN, KCT3
11	TMEM123	ENSG00000152558	ENST00000525577	processed_transcript	KNOWN	None	30138	None	None	102272656	102341115	-1	None	PORIMIN, KCT3
11	TMEM123	ENSG00000152558	ENST00000531103	protein_coding	PUTATIVE	None	30138	66	21	102272765	102320183	-1	None	PORIMIN, KCT3
11	TMEM123	ENSG00000152558	ENST00000526676	protein_coding	PUTATIVE	None	30138	139	45	102272830	102323086	-1	None	PORIMIN, KCT3
3	CRELD1	ENSG00000163703	ENST00000397170	protein_coding	KNOWN	CCDS2593	14630	1263	420	9975506	9986678	1	AVSD2	None
3	CRELD1	ENSG00000163703	ENST00000383811	protein_coding	KNOWN	CCDS2593	14630	1263	420	9975524	9987097	1	AVSD2	None
3	CRELD1	ENSG00000163703	ENST00000452070	protein_coding	KNOWN	CCDS2593	14630	1263	420	9975529	9986683	1	AVSD2	None
3	CRELD1	ENSG00000163703	ENST00000326434	protein_coding	KNOWN	CCDS33693	14630	1269	422	9975540	9986716	1	AVSD2	None
3	CRELD1	ENSG00000163703	ENST00000414117	nonsense_mediated_decay	KNOWN	None	14630	306	101	9976103	9984859	1	AVSD2	None
3	CRELD1	ENSG00000163703	ENST00000465716	retained_intron	KNOWN	None	14630	None	None	9976167	9980263	1	AVSD2	None
3	CRELD1	ENSG00000163703	ENST00000491527	retained_intron	KNOWN	None	14630	None	None	9976189	9976770	1	AVSD2	None
3	CRELD1	ENSG00000163703	ENST00000489674	processed_transcript	KNOWN	None	14630	None	None	9982808	9986107	1	AVSD2	None
3	CRELD1	ENSG00000163703	ENST00000467713	retained_intron	KNOWN	None	14630	None	None	9982839	9985164	1	AVSD2	None
3	CRELD1	ENSG00000163703	ENST00000435417	protein_coding	PUTATIVE	None	14630	301	99	9984477	9986698	1	AVSD2	None
3	CRELD1	ENSG00000163703	ENST00000482691	retained_intron	KNOWN	None	14630	None	None	9984497	9986215	1	AVSD2	None
5	NDUFB4P2	ENSG00000251306	ENST00000509515	processed_pseudogene	KNOWN	None	45250	None	None	58824687	58825077	1	None	None
5	None	ENSG00000272367	ENST00000607486	antisense	KNOWN	None	None	None	None	86672073	86672997	-1	None	None
8	RIMS2	ENSG00000176406	ENST00000504942	protein_coding	NOVEL	None	17283	3334	1110	104512976	105026843	1	RAB3IP3	KIAA0751, RIM2, OBOE
8	RIMS2	ENSG00000176406	ENST00000395361	processed_transcript	KNOWN	None	17283	None	None	104778455	104780729	1	RAB3IP3	KIAA0751, RIM2, OBOE
8	RIMS2	ENSG00000176406	ENST00000515551	protein_coding	NOVEL	None	17283	1997	664	104831448	104955074	1	RAB3IP3	KIAA0751, RIM2, OBOE
8	RIMS2	ENSG00000176406	ENST00000262231	protein_coding	KNOWN	None	17283	3567	1188	104831488	105264087	1	RAB3IP3	KIAA0751, RIM2, OBOE
8	RIMS2	ENSG00000176406	ENST00000507740	protein_coding	NOVEL	CCDS43761	17283	3492	1163	104831500	105268322	1	RAB3IP3	KIAA0751, RIM2, OBOE
8	RIMS2	ENSG00000176406	ENST00000408894	protein_coding	NOVEL	None	17283	3759	1252	104831615	105263298	1	RAB3IP3	KIAA0751, RIM2, OBOE
8	RIMS2	ENSG00000176406	ENST00000522174	processed_transcript	PUTATIVE	None	17283	None	None	104831782	104898036	1	RAB3IP3	KIAA0751, RIM2, OBOE
8	RIMS2	ENSG00000176406	ENST00000436393	protein_coding	NOVEL	None	17283	4104	1367	104892645	105264087	1	RAB3IP3	KIAA0751, RIM2, OBOE
8	RIMS2	ENSG00000176406	ENST00000507677	retained_intron	KNOWN	None	17283	None	None	104924360	104988487	1	RAB3IP3	KIAA0751, RIM2, OBOE
8	RIMS2	ENSG00000176406	ENST00000512598	retained_intron	KNOWN	None	17283	None	None	104927741	104930881	1	RAB3IP3	KIAA0751, RIM2, OBOE
8	RIMS2	ENSG00000176406	ENST00000501515	processed_transcript	KNOWN	None	17283	None	None	104927741	104933226	1	RAB3IP3	KIAA0751, RIM2, OBOE
8	RIMS2	ENSG00000176406	ENST00000511046	retained_intron	KNOWN	None	17283	None	None	104927741	104934236	1	RAB3IP3	KIAA0751, RIM2, OBOE
8	RIMS2	ENSG00000176406	ENST00000523362	protein_coding	PUTATIVE	None	17283	774	257	105235592	105263964	1	RAB3IP3	KIAA0751, RIM2, OBOE
8	RIMS2	ENSG00000176406	ENST00000406091	protein_coding	KNOWN	CCDS55269	17283	4050	1349	104513115	105264048	1	RAB3IP3	KIAA0751, RIM2, OBOE
8	RIMS2	ENSG00000176406	ENST00000339750	protein_coding	KNOWN	None	17283	858	285	105235880	105264087	1	RAB3IP3	KIAA0751, RIM2, OBOE
16	HAGH	ENSG00000063854	ENST00000564445	protein_coding	KNOWN	None	4805	718	238	1845621	1872905	-1	None	GLO2, GLXII, HAGH1
16	HAGH	ENSG00000063854	ENST00000566644	protein_coding	KNOWN	None	4805	195	64	1857578	1866908	-1	None	GLO2, GLXII, HAGH1
16	HAGH	ENSG00000063854	ENST00000455446	protein_coding	PUTATIVE	None	4805	711	236	1858873	1876835	-1	None	GLO2, GLXII, HAGH1
16	HAGH	ENSG00000063854	ENST00000397356	protein_coding	KNOWN	CCDS10447	4805	927	308	1858874	1877195	-1	None	GLO2, GLXII, HAGH1
16	HAGH	ENSG00000063854	ENST00000397353	protein_coding	KNOWN	CCDS32366	4805	783	260	1859104	1876842	-1	None	GLO2, GLXII, HAGH1
16	HAGH	ENSG00000063854	ENST00000567398	processed_transcript	KNOWN	None	4805	None	None	1859106	1862420	-1	None	GLO2, GLXII, HAGH1
16	HAGH	ENSG00000063854	ENST00000566709	protein_coding	PUTATIVE	None	4805	777	258	1859125	1877158	-1	None	GLO2, GLXII, HAGH1
16	HAGH	ENSG00000063854	ENST00000569339	protein_coding	KNOWN	None	4805	480	159	1867190	1876779	-1	None	GLO2, GLXII, HAGH1
16	HAGH	ENSG00000063854	ENST00000569700	retained_intron	KNOWN	None	4805	None	None	1868516	1876803	-1	None	GLO2, GLXII, HAGH1
16	HAGH	ENSG00000063854	ENST00000567190	retained_intron	KNOWN	None	4805	None	None	1869836	1876561	-1	None	GLO2, GLXII, HAGH1
16	HAGH	ENSG00000063854	ENST00000564518	retained_intron	KNOWN	None	4805	None	None	1869837	1876808	-1	None	GLO2, GLXII, HAGH1
16	HAGH	ENSG00000063854	ENST00000565097	retained_intron	KNOWN	None	4805	None	None	1871513	1876833	-1	None	GLO2, GLXII, HAGH1
7	CLEC2L	ENSG00000236279	ENST00000422142	protein_coding	NOVEL	CCDS47724	21969	645	214	139208602	139229730	1	None	FLJ32986
7	CLEC2L	ENSG00000236279	ENST00000521281	protein_coding	NOVEL	None	21969	324	107	139208828	139228996	1	None	FLJ32986
7	CLEC2L	ENSG00000236279	ENST00000520413	retained_intron	KNOWN	None	21969	None	None	139223899	139229730	1	None	FLJ32986
5	MIR582	ENSG00000202601	ENST00000365731	miRNA	KNOWN	None	32838	None	None	58999432	58999529	-1	MIRN582	hsa-mir-582
9	RAB1C	ENSG00000233111	ENST00000409159	processed_pseudogene	KNOWN	None	23683	None	None	37636685	37637290	-1	None	None
4	None	ENSG00000251148	ENST00000510632	antisense	KNOWN	None	None	None	None	2297311	2320816	1	None	None
4	None	ENSG00000266254	ENST00000583187	miRNA	NOVEL	None	None	None	None	167148917	167148984	1	None	None
5	None	ENSG00000248935	ENST00000502993	antisense	KNOWN	None	None	None	None	59317076	59326799	1	None	None
5	None	ENSG00000248935	ENST00000508696	antisense	KNOWN	None	None	None	None	59326713	59328847	1	None	None
10	CTSLP3	ENSG00000228418	ENST00000458206	unprocessed_pseudogene	KNOWN	None	2541	None	None	48980162	48981273	-1	CTSLL3, CTSL1P3	None
18	PIEZO2	ENSG00000154864	ENST00000582937	protein_coding	PUTATIVE	None	26270	279	92	10666480	10672744	-1	FAM38B2, C18orf30, C18orf58, FAM38B	FLJ23403, FLJ23144, HsT748, HsT771, FLJ34907
18	PIEZO2	ENSG00000154864	ENST00000302079	protein_coding	NOVEL	None	26270	8070	2689	10670238	11148587	-1	FAM38B2, C18orf30, C18orf58, FAM38B	FLJ23403, FLJ23144, HsT748, HsT771, FLJ34907
18	PIEZO2	ENSG00000154864	ENST00000538948	protein_coding	KNOWN	None	26270	2130	709	10671123	10701979	-1	FAM38B2, C18orf30, C18orf58, FAM38B	FLJ23403, FLJ23144, HsT748, HsT771, FLJ34907
18	PIEZO2	ENSG00000154864	ENST00000580640	protein_coding	NOVEL	None	26270	8334	2777	10671524	11148587	-1	FAM38B2, C18orf30, C18orf58, FAM38B	FLJ23403, FLJ23144, HsT748, HsT771, FLJ34907
18	PIEZO2	ENSG00000154864	ENST00000503781	protein_coding	NOVEL	None	26270	8259	2752	10671524	11148587	-1	FAM38B2, C18orf30, C18orf58, FAM38B	FLJ23403, FLJ23144, HsT748, HsT771, FLJ34907
18	PIEZO2	ENSG00000154864	ENST00000582913	nonsense_mediated_decay	KNOWN	None	26270	4422	1473	10671524	11148587	-1	FAM38B2, C18orf30, C18orf58, FAM38B	FLJ23403, FLJ23144, HsT748, HsT771, FLJ34907
18	PIEZO2	ENSG00000154864	ENST00000581680	processed_transcript	KNOWN	None	26270	None	None	10671696	10680360	-1	FAM38B2, C18orf30, C18orf58, FAM38B	FLJ23403, FLJ23144, HsT748, HsT771, FLJ34907
18	PIEZO2	ENSG00000154864	ENST00000579151	retained_intron	KNOWN	None	26270	None	None	10677514	10681725	-1	FAM38B2, C18orf30, C18orf58, FAM38B	FLJ23403, FLJ23144, HsT748, HsT771, FLJ34907
18	PIEZO2	ENSG00000154864	ENST00000579949	retained_intron	KNOWN	None	26270	None	None	10737661	10748498	-1	FAM38B2, C18orf30, C18orf58, FAM38B	FLJ23403, FLJ23144, HsT748, HsT771, FLJ34907
18	PIEZO2	ENSG00000154864	ENST00000578145	retained_intron	KNOWN	None	26270	None	None	10769758	10773562	-1	FAM38B2, C18orf30, C18orf58, FAM38B	FLJ23403, FLJ23144, HsT748, HsT771, FLJ34907
18	PIEZO2	ENSG00000154864	ENST00000583325	protein_coding	PUTATIVE	None	26270	578	191	10773529	10791648	-1	FAM38B2, C18orf30, C18orf58, FAM38B	FLJ23403, FLJ23144, HsT748, HsT771, FLJ34907
18	PIEZO2	ENSG00000154864	ENST00000579112	protein_coding	NOVEL	None	26270	532	176	10797495	10855434	-1	FAM38B2, C18orf30, C18orf58, FAM38B	FLJ23403, FLJ23144, HsT748, HsT771, FLJ34907
18	PIEZO2	ENSG00000154864	ENST00000579899	processed_transcript	KNOWN	None	26270	None	None	10857063	10890690	-1	FAM38B2, C18orf30, C18orf58, FAM38B	FLJ23403, FLJ23144, HsT748, HsT771, FLJ34907
18	PIEZO2	ENSG00000154864	ENST00000285141	protein_coding	KNOWN	None	26270	1635	544	10671123	10701979	-1	FAM38B2, C18orf30, C18orf58, FAM38B	FLJ23403, FLJ23144, HsT748, HsT771, FLJ34907
18	PIEZO2	ENSG00000154864	ENST00000383408	protein_coding	KNOWN	None	26270	1689	562	10731474	10787140	-1	FAM38B2, C18orf30, C18orf58, FAM38B	FLJ23403, FLJ23144, HsT748, HsT771, FLJ34907
4	None	ENSG00000206711	ENST00000383984	misc_RNA	NOVEL	None	None	None	None	167234087	167234186	-1	None	None
10	PIPSL	ENSG00000180764	ENST00000489875	transcribed_processed_pseudogene	KNOWN	None	23733	None	None	95717948	95721297	-1	PSMD4P2, PIP5K1L1	PIP5K1A-PSMD4, PIP5K1P3
10	PIPSL	ENSG00000180764	ENST00000480546	processed_transcript	PUTATIVE	None	23733	None	None	95717948	95721297	-1	PSMD4P2, PIP5K1L1	PIP5K1A-PSMD4, PIP5K1P3
10	PIPSL	ENSG00000180764	ENST00000540371	processed_pseudogene	KNOWN	None	23733	None	None	95719648	95721189	-1	PSMD4P2, PIP5K1L1	PIP5K1A-PSMD4, PIP5K1P3
HSCHR6_MHC_MCF	HLA-B	ENSG00000232126	ENST00000488641	retained_intron	KNOWN	None	4932	None	None	31398032	31398966	-1	AS	None
HSCHR6_MHC_MCF	HLA-B	ENSG00000232126	ENST00000494335	retained_intron	KNOWN	None	4932	None	None	31398032	31399236	-1	AS	None
HSCHR6_MHC_MCF	HLA-B	ENSG00000232126	ENST00000425798	protein_coding	KNOWN	None	4932	725	240	31398032	31400575	-1	AS	None
HSCHR6_MHC_MCF	HLA-B	ENSG00000232126	ENST00000450871	protein_coding	KNOWN	None	4932	1089	362	31398032	31401418	-1	AS	None
HSCHR6_MHC_MCF	HLA-B	ENSG00000232126	ENST00000462100	retained_intron	KNOWN	None	4932	None	None	31399282	31399973	-1	AS	None
HSCHR6_MHC_MCF	HLA-B	ENSG00000232126	ENST00000471639	nonsense_mediated_decay	KNOWN	None	4932	675	224	31399342	31401333	-1	AS	None
HSCHR6_MHC_MCF	HLA-B	ENSG00000232126	ENST00000469883	retained_intron	KNOWN	None	4932	None	None	31399562	31401352	-1	AS	None
HSCHR6_MHC_MCF	HLA-B	ENSG00000232126	ENST00000437866	protein_coding	KNOWN	None	4932	738	245	31399678	31401361	-1	AS	None
5	RNU6-806P	ENSG00000202017	ENST00000365147	snRNA	KNOWN	None	47769	None	None	59599874	59599978	-1	None	None
5	None	ENSG00000258864	ENST00000520401	nonsense_mediated_decay	KNOWN	None	None	284	93	112162910	112203279	1	None	None
12	C12orf60	ENSG00000182993	ENST00000330828	protein_coding	KNOWN	CCDS8667	28726	738	245	14956506	14977349	1	None	MGC47869
12	C12orf60	ENSG00000182993	ENST00000533472	processed_transcript	KNOWN	None	28726	None	None	14956600	15057544	1	None	MGC47869
12	C12orf60	ENSG00000182993	ENST00000527783	processed_transcript	KNOWN	None	28726	None	None	14956611	15059520	1	None	MGC47869
12	C12orf60	ENSG00000182993	ENST00000543822	processed_transcript	KNOWN	None	28726	None	None	15038650	15057595	1	None	MGC47869
4	RN7SL589P	ENSG00000239247	ENST00000481268	misc_RNA	KNOWN	None	46605	None	None	2317926	2318233	-1	None	None
11	RPS29P20	ENSG00000240385	ENST00000489592	processed_pseudogene	KNOWN	None	36491	None	None	4040178	4040348	1	None	None
5	None	ENSG00000213896	ENST00000486833	processed_pseudogene	KNOWN	None	None	None	None	59725730	59726103	-1	None	None
5	SNORD96A	ENSG00000272296	ENST00000606577	snoRNA	KNOWN	None	32758	None	None	180668814	180668892	-1	None	U96a
1	PAFAH2	ENSG00000158006	ENST00000374282	protein_coding	KNOWN	CCDS270	8579	1179	392	26286258	26324648	-1	None	HSD-PLA2
1	PAFAH2	ENSG00000158006	ENST00000374284	protein_coding	KNOWN	CCDS270	8579	1179	392	26287261	26324535	-1	None	HSD-PLA2
1	PAFAH2	ENSG00000158006	ENST00000493892	processed_transcript	KNOWN	None	8579	None	None	26308855	26324547	-1	None	HSD-PLA2
1	PAFAH2	ENSG00000158006	ENST00000464540	processed_transcript	KNOWN	None	8579	None	None	26308856	26324608	-1	None	HSD-PLA2
1	PAFAH2	ENSG00000158006	ENST00000476611	processed_transcript	PUTATIVE	None	8579	None	None	26308895	26310600	-1	None	HSD-PLA2
1	PAFAH2	ENSG00000158006	ENST00000439092	protein_coding	KNOWN	None	8579	557	184	26310447	26324112	-1	None	HSD-PLA2
1	PAFAH2	ENSG00000158006	ENST00000441420	protein_coding	KNOWN	None	8579	496	164	26310493	26324546	-1	None	HSD-PLA2
5	SETP21	ENSG00000214244	ENST00000514799	processed_pseudogene	KNOWN	None	42940	None	None	59755675	59756566	-1	None	None
6	BCLAF1	ENSG00000029363	ENST00000531224	protein_coding	KNOWN	CCDS5177	16863	2763	920	136578001	136610989	-1	None	KIAA0164, BTF
6	BCLAF1	ENSG00000029363	ENST00000533422	nonsense_mediated_decay	KNOWN	None	16863	380	125	136579432	136589460	-1	None	KIAA0164, BTF
6	BCLAF1	ENSG00000029363	ENST00000527536	protein_coding	NOVEL	None	16863	2616	871	136579724	136610967	-1	None	KIAA0164, BTF
6	BCLAF1	ENSG00000029363	ENST00000527613	nonsense_mediated_decay	KNOWN	None	16863	2259	752	136579731	136610933	-1	None	KIAA0164, BTF
6	BCLAF1	ENSG00000029363	ENST00000530767	protein_coding	KNOWN	CCDS47485	16863	2244	747	136580489	136610919	-1	None	KIAA0164, BTF
6	BCLAF1	ENSG00000029363	ENST00000527759	protein_coding	KNOWN	None	16863	2757	918	136580829	136610933	-1	None	KIAA0164, BTF
6	BCLAF1	ENSG00000029363	ENST00000534269	nonsense_mediated_decay	KNOWN	None	16863	1404	467	136580834	136610933	-1	None	KIAA0164, BTF
6	BCLAF1	ENSG00000029363	ENST00000529522	retained_intron	KNOWN	None	16863	None	None	136581884	136589809	-1	None	KIAA0164, BTF
6	BCLAF1	ENSG00000029363	ENST00000532384	nonsense_mediated_decay	KNOWN	None	16863	2259	752	136582033	136610979	-1	None	KIAA0164, BTF
6	BCLAF1	ENSG00000029363	ENST00000530429	nonsense_mediated_decay	KNOWN	None	16863	2253	750	136582040	136610922	-1	None	KIAA0164, BTF
6	BCLAF1	ENSG00000029363	ENST00000534762	protein_coding	NOVEL	None	16863	562	186	136582066	136590658	-1	None	KIAA0164, BTF
6	BCLAF1	ENSG00000029363	ENST00000529917	processed_transcript	KNOWN	None	16863	None	None	136582142	136591097	-1	None	KIAA0164, BTF
6	BCLAF1	ENSG00000029363	ENST00000392348	protein_coding	KNOWN	CCDS47486	16863	2610	869	136582248	136601004	-1	None	KIAA0164, BTF
6	BCLAF1	ENSG00000029363	ENST00000526228	retained_intron	KNOWN	None	16863	None	None	136582439	136589547	-1	None	KIAA0164, BTF
6	BCLAF1	ENSG00000029363	ENST00000534321	retained_intron	KNOWN	None	16863	None	None	136590227	136590878	-1	None	KIAA0164, BTF
6	BCLAF1	ENSG00000029363	ENST00000534792	retained_intron	KNOWN	None	16863	None	None	136590369	136594304	-1	None	KIAA0164, BTF
6	BCLAF1	ENSG00000029363	ENST00000532076	retained_intron	KNOWN	None	16863	None	None	136590400	136594282	-1	None	KIAA0164, BTF
6	BCLAF1	ENSG00000029363	ENST00000529826	protein_coding	NOVEL	None	16863	2177	724	136590614	136610982	-1	None	KIAA0164, BTF
6	BCLAF1	ENSG00000029363	ENST00000476194	retained_intron	KNOWN	None	16863	None	None	136593057	136594688	-1	None	KIAA0164, BTF
6	BCLAF1	ENSG00000029363	ENST00000533621	nonsense_mediated_decay	KNOWN	None	16863	357	118	136596693	136599241	-1	None	KIAA0164, BTF
6	BCLAF1	ENSG00000029363	ENST00000528229	retained_intron	KNOWN	None	16863	None	None	136600621	136610925	-1	None	KIAA0164, BTF
6	BCLAF1	ENSG00000029363	ENST00000353331	protein_coding	KNOWN	CCDS47486	16863	2610	869	136578001	136610989	-1	None	KIAA0164, BTF
6	BCLAF1	ENSG00000029363	ENST00000031135	protein_coding	KNOWN	None	16863	417	138	136581618	136590348	-1	None	KIAA0164, BTF
17	SMIM6	ENSG00000259120	ENST00000556126	protein_coding	KNOWN	CCDS54166	40032	189	62	73642323	73644055	1	C17orf110	None
17	SMIM6	ENSG00000259120	ENST00000579469	protein_coding	KNOWN	CCDS54166	40032	189	62	73642517	73644057	1	C17orf110	None
11	PHLDB1	ENSG00000019144	ENST00000361417	protein_coding	KNOWN	CCDS8401	23697	4134	1377	118477155	118528741	1	None	FLJ00141, LL5a, KIAA0638
11	PHLDB1	ENSG00000019144	ENST00000530994	nonsense_mediated_decay	KNOWN	None	23697	2988	995	118478330	118528738	1	None	FLJ00141, LL5a, KIAA0638
11	PHLDB1	ENSG00000019144	ENST00000528594	nonsense_mediated_decay	KNOWN	None	23697	2988	995	118478331	118528738	1	None	FLJ00141, LL5a, KIAA0638
11	PHLDB1	ENSG00000019144	ENST00000530708	processed_transcript	KNOWN	None	23697	None	None	118478348	118502754	1	None	FLJ00141, LL5a, KIAA0638
11	PHLDB1	ENSG00000019144	ENST00000356063	protein_coding	KNOWN	CCDS44750	23697	3960	1319	118478358	118528735	1	None	FLJ00141, LL5a, KIAA0638
11	PHLDB1	ENSG00000019144	ENST00000532639	processed_transcript	KNOWN	None	23697	None	None	118481142	118498112	1	None	FLJ00141, LL5a, KIAA0638
11	PHLDB1	ENSG00000019144	ENST00000525427	retained_intron	KNOWN	None	23697	None	None	118483868	118485909	1	None	FLJ00141, LL5a, KIAA0638
11	PHLDB1	ENSG00000019144	ENST00000527259	processed_transcript	KNOWN	None	23697	None	None	118486300	118498180	1	None	FLJ00141, LL5a, KIAA0638
11	PHLDB1	ENSG00000019144	ENST00000526374	processed_transcript	KNOWN	None	23697	None	None	118492078	118498309	1	None	FLJ00141, LL5a, KIAA0638
11	PHLDB1	ENSG00000019144	ENST00000526670	processed_transcript	KNOWN	None	23697	None	None	118494801	118495775	1	None	FLJ00141, LL5a, KIAA0638
11	PHLDB1	ENSG00000019144	ENST00000532517	retained_intron	KNOWN	None	23697	None	None	118497646	118528735	1	None	FLJ00141, LL5a, KIAA0638
11	PHLDB1	ENSG00000019144	ENST00000534672	processed_transcript	KNOWN	None	23697	None	None	118500695	118528738	1	None	FLJ00141, LL5a, KIAA0638
11	PHLDB1	ENSG00000019144	ENST00000534140	processed_transcript	KNOWN	None	23697	None	None	118502633	118528735	1	None	FLJ00141, LL5a, KIAA0638
11	PHLDB1	ENSG00000019144	ENST00000525698	nonsense_mediated_decay	KNOWN	None	23697	300	99	118502693	118528735	1	None	FLJ00141, LL5a, KIAA0638
11	PHLDB1	ENSG00000019144	ENST00000531862	retained_intron	KNOWN	None	23697	None	None	118502930	118514658	1	None	FLJ00141, LL5a, KIAA0638
11	PHLDB1	ENSG00000019144	ENST00000526699	retained_intron	KNOWN	None	23697	None	None	118505696	118510073	1	None	FLJ00141, LL5a, KIAA0638
11	PHLDB1	ENSG00000019144	ENST00000527500	processed_transcript	KNOWN	None	23697	None	None	118505742	118509955	1	None	FLJ00141, LL5a, KIAA0638
11	PHLDB1	ENSG00000019144	ENST00000528875	processed_transcript	KNOWN	None	23697	None	None	118505747	118520832	1	None	FLJ00141, LL5a, KIAA0638
11	PHLDB1	ENSG00000019144	ENST00000527898	protein_coding	PUTATIVE	None	23697	1254	417	118509318	118527551	1	None	FLJ00141, LL5a, KIAA0638
11	PHLDB1	ENSG00000019144	ENST00000392852	retained_intron	KNOWN	None	23697	None	None	118510125	118516501	1	None	FLJ00141, LL5a, KIAA0638
11	PHLDB1	ENSG00000019144	ENST00000524713	protein_coding	PUTATIVE	None	23697	1530	509	118512295	118527551	1	None	FLJ00141, LL5a, KIAA0638
11	PHLDB1	ENSG00000019144	ENST00000531987	retained_intron	KNOWN	None	23697	None	None	118512757	118515283	1	None	FLJ00141, LL5a, KIAA0638
11	PHLDB1	ENSG00000019144	ENST00000526826	retained_intron	KNOWN	None	23697	None	None	118513069	118515020	1	None	FLJ00141, LL5a, KIAA0638
11	PHLDB1	ENSG00000019144	ENST00000529005	processed_transcript	KNOWN	None	23697	None	None	118514807	118518553	1	None	FLJ00141, LL5a, KIAA0638
11	PHLDB1	ENSG00000019144	ENST00000525226	retained_intron	KNOWN	None	23697	None	None	118515087	118521226	1	None	FLJ00141, LL5a, KIAA0638
11	PHLDB1	ENSG00000019144	ENST00000526537	retained_intron	KNOWN	None	23697	None	None	118517050	118527862	1	None	FLJ00141, LL5a, KIAA0638
11	PHLDB1	ENSG00000019144	ENST00000528823	retained_intron	KNOWN	None	23697	None	None	118521306	118528200	1	None	FLJ00141, LL5a, KIAA0638
4	None	ENSG00000249077	ENST00000506116	processed_pseudogene	KNOWN	None	None	None	None	2326194	2326809	1	None	None
4	None	ENSG00000249675	ENST00000514134	lincRNA	KNOWN	None	None	None	None	167309853	167447271	-1	None	None
9	CDKN2B	ENSG00000147883	ENST00000276925	protein_coding	KNOWN	CCDS6512	1788	417	138	22002902	22009362	-1	None	P15, MTS2, INK4B, TP15, CDK4I, p15INK4b
9	CDKN2B	ENSG00000147883	ENST00000579591	retained_intron	KNOWN	None	1788	None	None	22005202	22006270	-1	None	P15, MTS2, INK4B, TP15, CDK4I, p15INK4b
9	CDKN2B	ENSG00000147883	ENST00000380142	protein_coding	KNOWN	CCDS6513	1788	237	78	22005986	22009271	-1	None	P15, MTS2, INK4B, TP15, CDK4I, p15INK4b
9	CDKN2B	ENSG00000147883	ENST00000539462	protein_coding	KNOWN	CCDS6513	1788	237	78	22008716	22008952	-1	None	P15, MTS2, INK4B, TP15, CDK4I, p15INK4b
4	RNA5SP171	ENSG00000212373	ENST00000391071	rRNA	KNOWN	None	43071	None	None	167839515	167839629	-1	RN5S171	None
5	PART1	ENSG00000152931	ENST00000515734	lincRNA	KNOWN	None	17263	None	None	59783540	59787345	1	None	DKFZP586D0823, NCRNA00206
5	PART1	ENSG00000152931	ENST00000506884	lincRNA	KNOWN	None	17263	None	None	59783967	59843484	1	None	DKFZP586D0823, NCRNA00206
5	PART1	ENSG00000152931	ENST00000504876	lincRNA	KNOWN	None	17263	None	None	59784034	59822245	1	None	DKFZP586D0823, NCRNA00206
4	None	ENSG00000250150	ENST00000509096	lincRNA	KNOWN	None	None	None	None	168228061	168229940	-1	None	None
16	HERC2P5	ENSG00000260644	ENST00000569697	processed_transcript	KNOWN	None	4873	None	None	32752635	32764659	1	None	D16F37S6
16	HERC2P5	ENSG00000260644	ENST00000562687	transcribed_unprocessed_pseudogene	KNOWN	None	4873	None	None	32753674	32786689	1	None	D16F37S6
16	HERC2P5	ENSG00000260644	ENST00000569679	processed_transcript	KNOWN	None	4873	None	None	32772264	32782919	1	None	D16F37S6
16	HERC2P5	ENSG00000260644	ENST00000564458	processed_transcript	KNOWN	None	4873	None	None	32786250	32787517	1	None	D16F37S6
5	PCDHA11	ENSG00000249158	ENST00000398640	protein_coding	KNOWN	CCDS47284	8665	2850	949	140248689	140391929	1	CNRS7	CNR7, CRNR7, CNRN7, PCDH-ALPHA11
9	RN7SKP171	ENSG00000201287	ENST00000364417	misc_RNA	KNOWN	None	45895	None	None	37661744	37662046	-1	None	None
16	DBNDD1	ENSG00000003249	ENST00000304733	protein_coding	KNOWN	CCDS10991	28455	537	178	90071273	90076529	-1	None	MGC3101, FLJ12582
16	DBNDD1	ENSG00000003249	ENST00000002501	protein_coding	KNOWN	CCDS42223	28455	477	158	90071273	90085881	-1	None	MGC3101, FLJ12582
16	DBNDD1	ENSG00000003249	ENST00000392973	protein_coding	PUTATIVE	None	28455	495	164	90071281	90076619	-1	None	MGC3101, FLJ12582
16	DBNDD1	ENSG00000003249	ENST00000568838	protein_coding	KNOWN	None	28455	837	278	90072597	90086536	-1	None	MGC3101, FLJ12582
16	DBNDD1	ENSG00000003249	ENST00000568662	retained_intron	KNOWN	None	28455	None	None	90072627	90075480	-1	None	MGC3101, FLJ12582
16	DBNDD1	ENSG00000003249	ENST00000568330	nonsense_mediated_decay	KNOWN	None	28455	239	78	90072888	90086288	-1	None	MGC3101, FLJ12582
4	None	ENSG00000206113	ENST00000382849	lincRNA	KNOWN	None	None	None	None	2420701	2430972	1	None	None
4	None	ENSG00000206113	ENST00000511731	lincRNA	KNOWN	None	None	None	None	2428248	2452087	1	None	None
4	None	ENSG00000206113	ENST00000514556	lincRNA	KNOWN	None	None	None	None	2444924	2452083	1	None	None
4	None	ENSG00000206113	ENST00000515732	lincRNA	KNOWN	None	None	None	None	2444942	2452083	1	None	None
9	None	ENSG00000232454	ENST00000452964	processed_pseudogene	KNOWN	None	None	None	None	37836041	37836391	1	None	None
12	GNPTAB	ENSG00000111670	ENST00000299314	protein_coding	KNOWN	CCDS9088	29670	3771	1256	102139275	102224716	-1	GNPTA	KIAA1208, MGC4170
12	GNPTAB	ENSG00000111670	ENST00000549738	nonsense_mediated_decay	KNOWN	None	29670	291	96	102142920	102151435	-1	GNPTA	KIAA1208, MGC4170
12	GNPTAB	ENSG00000111670	ENST00000550718	protein_coding	PUTATIVE	None	29670	352	116	102149993	102153868	-1	GNPTA	KIAA1208, MGC4170
12	GNPTAB	ENSG00000111670	ENST00000549194	retained_intron	KNOWN	None	29670	None	None	102150720	102153922	-1	GNPTA	KIAA1208, MGC4170
12	GNPTAB	ENSG00000111670	ENST00000552009	retained_intron	KNOWN	None	29670	None	None	102159539	102161881	-1	GNPTA	KIAA1208, MGC4170
12	GNPTAB	ENSG00000111670	ENST00000549940	protein_coding	KNOWN	None	29670	1473	490	102161688	102224596	-1	GNPTA	KIAA1208, MGC4170
12	GNPTAB	ENSG00000111670	ENST00000552681	protein_coding	PUTATIVE	None	29670	417	138	102172068	102179994	-1	GNPTA	KIAA1208, MGC4170
12	GNPTAB	ENSG00000111670	ENST00000550352	retained_intron	KNOWN	None	29670	None	None	102179368	102183832	-1	GNPTA	KIAA1208, MGC4170
12	GNPTAB	ENSG00000111670	ENST00000392919	protein_coding	PUTATIVE	None	29670	216	71	102189652	102224621	-1	GNPTA	KIAA1208, MGC4170
12	GNPTAB	ENSG00000111670	ENST00000549165	protein_coding	PUTATIVE	None	29670	207	68	102190289	102224457	-1	GNPTA	KIAA1208, MGC4170
20	TP53TG5	ENSG00000124251	ENST00000372726	protein_coding	KNOWN	CCDS13352	15856	873	290	44002526	44007033	-1	C20orf10	CLG01, dJ453C12.5
20	TP53TG5	ENSG00000124251	ENST00000494455	processed_transcript	KNOWN	None	15856	None	None	44004117	44036529	-1	C20orf10	CLG01, dJ453C12.5
20	TP53TG5	ENSG00000124251	ENST00000488588	processed_transcript	KNOWN	None	15856	None	None	44005837	44034634	-1	C20orf10	CLG01, dJ453C12.5
20	TP53TG5	ENSG00000124251	ENST00000468375	processed_transcript	KNOWN	None	15856	None	None	44032716	44036517	-1	C20orf10	CLG01, dJ453C12.5
20	TP53TG5	ENSG00000124251	ENST00000537995	protein_coding	KNOWN	None	15856	825	274	44002528	44007033	-1	C20orf10	CLG01, dJ453C12.5
19	None	ENSG00000269163	ENST00000598826	lincRNA	KNOWN	None	None	None	None	7087063	7087979	1	None	None
9	PAICSP1	ENSG00000226055	ENST00000425324	processed_pseudogene	KNOWN	None	8588	None	None	37878113	37879490	1	None	None
21	TMPRSS15	ENSG00000154646	ENST00000284885	protein_coding	KNOWN	CCDS13571	9490	3060	1019	19641433	19775973	-1	PRSS7	ENTK, MGC133046
21	TMPRSS15	ENSG00000154646	ENST00000422787	protein_coding	PUTATIVE	None	9490	683	226	19737457	19858197	-1	PRSS7	ENTK, MGC133046
21	TMPRSS15	ENSG00000154646	ENST00000474775	protein_coding	PUTATIVE	None	9490	15	4	19737558	19833049	-1	PRSS7	ENTK, MGC133046
17	FAM117A	ENSG00000121104	ENST00000240364	protein_coding	KNOWN	CCDS11553	24179	1362	453	47787694	47841529	-1	None	None
17	FAM117A	ENSG00000121104	ENST00000513602	protein_coding	PUTATIVE	None	24179	546	181	47788357	47865954	-1	None	None
17	FAM117A	ENSG00000121104	ENST00000503573	nonsense_mediated_decay	KNOWN	None	24179	168	55	47788707	47797256	-1	None	None
17	FAM117A	ENSG00000121104	ENST00000511743	protein_coding	PUTATIVE	None	24179	691	229	47793567	47801889	-1	None	None
17	FAM117A	ENSG00000121104	ENST00000503855	processed_transcript	KNOWN	None	24179	None	None	47794919	47865940	-1	None	None
17	FAM117A	ENSG00000121104	ENST00000514018	processed_transcript	KNOWN	None	24179	None	None	47794949	47866351	-1	None	None
17	FAM117A	ENSG00000121104	ENST00000505159	processed_transcript	KNOWN	None	24179	None	None	47794968	47866542	-1	None	None
17	FAM117A	ENSG00000121104	ENST00000506156	protein_coding	NOVEL	None	24179	670	222	47795019	47841493	-1	None	None
17	FAM117A	ENSG00000121104	ENST00000515240	processed_transcript	KNOWN	None	24179	None	None	47795048	47824625	-1	None	None
17	FAM117A	ENSG00000121104	ENST00000509347	processed_transcript	KNOWN	None	24179	None	None	47797694	47866527	-1	None	None
17	FAM117A	ENSG00000121104	ENST00000503720	processed_transcript	KNOWN	None	24179	None	None	47797766	47865937	-1	None	None
17	FAM117A	ENSG00000121104	ENST00000514841	retained_intron	KNOWN	None	24179	None	None	47799869	47810304	-1	None	None
19	None	ENSG00000266483	ENST00000581768	miRNA	NOVEL	None	None	None	None	7160431	7160506	-1	None	None
19	None	ENSG00000265748	ENST00000583606	miRNA	NOVEL	None	None	None	None	7309263	7309362	1	None	None
19	None	ENSG00000267852	ENST00000596946	antisense	KNOWN	None	None	None	None	7455408	7459925	-1	None	None
14	TRAJ2	ENSG00000211887	ENST00000390535	TR_J_gene	KNOWN	None	12048	66	21	23013015	23013080	1	None	None
12	SMCO3	ENSG00000179256	ENST00000316048	protein_coding	KNOWN	CCDS41759	34401	678	225	14957584	14967116	-1	C12orf69	LOC440087
17	TMIGD1	ENSG00000182271	ENST00000538566	protein_coding	NOVEL	None	32431	657	218	28643351	28661077	-1	TMIGD	UNQ9372
17	TMIGD1	ENSG00000182271	ENST00000328886	protein_coding	KNOWN	CCDS32605	32431	789	262	28643366	28661065	-1	TMIGD	UNQ9372
19	None	ENSG00000269371	ENST00000602083	antisense	KNOWN	None	None	None	None	7584802	7585346	-1	None	None
17	SEPT4	ENSG00000108387	ENST00000583114	protein_coding	PUTATIVE	CCDS58581	9165	996	331	56597611	56605342	-1	PNUTL2	H5, CE5B3, hucep-7, ARTS, hCDCREL-2, MART
17	SEPT4	ENSG00000108387	ENST00000426861	protein_coding	KNOWN	CCDS45743	9165	825	274	56597616	56609411	-1	PNUTL2	H5, CE5B3, hucep-7, ARTS, hCDCREL-2, MART
17	SEPT4	ENSG00000108387	ENST00000580796	retained_intron	KNOWN	None	9165	None	None	56597617	56605391	-1	PNUTL2	H5, CE5B3, hucep-7, ARTS, hCDCREL-2, MART
17	SEPT4	ENSG00000108387	ENST00000582270	retained_intron	KNOWN	None	9165	None	None	56597617	56606564	-1	PNUTL2	H5, CE5B3, hucep-7, ARTS, hCDCREL-2, MART
17	SEPT4	ENSG00000108387	ENST00000579371	protein_coding	PUTATIVE	None	9165	999	332	56597617	56606640	-1	PNUTL2	H5, CE5B3, hucep-7, ARTS, hCDCREL-2, MART
17	SEPT4	ENSG00000108387	ENST00000583273	retained_intron	KNOWN	None	9165	None	None	56597617	56606711	-1	PNUTL2	H5, CE5B3, hucep-7, ARTS, hCDCREL-2, MART
17	SEPT4	ENSG00000108387	ENST00000317268	protein_coding	KNOWN	CCDS11610	9165	1437	478	56597617	56606712	-1	PNUTL2	H5, CE5B3, hucep-7, ARTS, hCDCREL-2, MART
17	SEPT4	ENSG00000108387	ENST00000577440	retained_intron	KNOWN	None	9165	None	None	56597617	56609411	-1	PNUTL2	H5, CE5B3, hucep-7, ARTS, hCDCREL-2, MART
17	SEPT4	ENSG00000108387	ENST00000457347	protein_coding	KNOWN	CCDS58582	9165	1482	493	56597619	56618179	-1	PNUTL2	H5, CE5B3, hucep-7, ARTS, hCDCREL-2, MART
17	SEPT4	ENSG00000108387	ENST00000580844	protein_coding	NOVEL	None	9165	1140	379	56597660	56606664	-1	PNUTL2	H5, CE5B3, hucep-7, ARTS, hCDCREL-2, MART
17	SEPT4	ENSG00000108387	ENST00000317256	protein_coding	KNOWN	CCDS11609	9165	1380	459	56597720	56609407	-1	PNUTL2	H5, CE5B3, hucep-7, ARTS, hCDCREL-2, MART
17	SEPT4	ENSG00000108387	ENST00000412945	protein_coding	KNOWN	CCDS56041	9165	1413	470	56597720	56618179	-1	PNUTL2	H5, CE5B3, hucep-7, ARTS, hCDCREL-2, MART
17	SEPT4	ENSG00000108387	ENST00000584488	retained_intron	KNOWN	None	9165	None	None	56597787	56606674	-1	PNUTL2	H5, CE5B3, hucep-7, ARTS, hCDCREL-2, MART
17	SEPT4	ENSG00000108387	ENST00000580809	protein_coding	PUTATIVE	None	9165	528	175	56598910	56609415	-1	PNUTL2	H5, CE5B3, hucep-7, ARTS, hCDCREL-2, MART
17	SEPT4	ENSG00000108387	ENST00000577729	protein_coding	NOVEL	None	9165	621	206	56599109	56609427	-1	PNUTL2	H5, CE5B3, hucep-7, ARTS, hCDCREL-2, MART
17	SEPT4	ENSG00000108387	ENST00000581615	nonsense_mediated_decay	KNOWN	None	9165	168	55	56599382	56606674	-1	PNUTL2	H5, CE5B3, hucep-7, ARTS, hCDCREL-2, MART
17	SEPT4	ENSG00000108387	ENST00000578131	nonsense_mediated_decay	KNOWN	None	9165	111	36	56599412	56609426	-1	PNUTL2	H5, CE5B3, hucep-7, ARTS, hCDCREL-2, MART
17	SEPT4	ENSG00000108387	ENST00000585170	retained_intron	KNOWN	None	9165	None	None	56601949	56605930	-1	PNUTL2	H5, CE5B3, hucep-7, ARTS, hCDCREL-2, MART
17	SEPT4	ENSG00000108387	ENST00000583291	protein_coding	NOVEL	None	9165	677	224	56602439	56609436	-1	PNUTL2	H5, CE5B3, hucep-7, ARTS, hCDCREL-2, MART
17	SEPT4	ENSG00000108387	ENST00000584789	retained_intron	KNOWN	None	9165	None	None	56602523	56609398	-1	PNUTL2	H5, CE5B3, hucep-7, ARTS, hCDCREL-2, MART
17	SEPT4	ENSG00000108387	ENST00000581921	processed_transcript	KNOWN	None	9165	None	None	56603584	56616519	-1	PNUTL2	H5, CE5B3, hucep-7, ARTS, hCDCREL-2, MART
17	SEPT4	ENSG00000108387	ENST00000584528	processed_transcript	KNOWN	None	9165	None	None	56603615	56609426	-1	PNUTL2	H5, CE5B3, hucep-7, ARTS, hCDCREL-2, MART
17	SEPT4	ENSG00000108387	ENST00000580791	processed_transcript	KNOWN	None	9165	None	None	56603676	56605359	-1	PNUTL2	H5, CE5B3, hucep-7, ARTS, hCDCREL-2, MART
17	SEPT4	ENSG00000108387	ENST00000582248	retained_intron	KNOWN	None	9165	None	None	56603924	56605374	-1	PNUTL2	H5, CE5B3, hucep-7, ARTS, hCDCREL-2, MART
17	SEPT4	ENSG00000108387	ENST00000580740	processed_transcript	KNOWN	None	9165	None	None	56603938	56609647	-1	PNUTL2	H5, CE5B3, hucep-7, ARTS, hCDCREL-2, MART
17	SEPT4	ENSG00000108387	ENST00000578747	retained_intron	KNOWN	None	9165	None	None	56603939	56609003	-1	PNUTL2	H5, CE5B3, hucep-7, ARTS, hCDCREL-2, MART
17	SEPT4	ENSG00000108387	ENST00000581607	protein_coding	PUTATIVE	None	9165	217	71	56604126	56609302	-1	PNUTL2	H5, CE5B3, hucep-7, ARTS, hCDCREL-2, MART
17	SEPT4	ENSG00000108387	ENST00000582976	retained_intron	KNOWN	None	9165	None	None	56607179	56608885	-1	PNUTL2	H5, CE5B3, hucep-7, ARTS, hCDCREL-2, MART
17	SEPT4	ENSG00000108387	ENST00000393086	protein_coding	KNOWN	None	9165	1380	459	56597616	56604505	-1	PNUTL2	H5, CE5B3, hucep-7, ARTS, hCDCREL-2, MART
19	None	ENSG00000268204	ENST00000601797	antisense	KNOWN	None	None	None	None	7698652	7701876	-1	None	None
17	ARL17A	ENSG00000185829	ENST00000445552	protein_coding	KNOWN	CCDS45717	24096	378	125	44594068	44657036	-1	ARF1P2, ARL17P1	None
17	ARL17A	ENSG00000185829	ENST00000573185	protein_coding	PUTATIVE	None	24096	288	95	44625573	44657017	-1	ARF1P2, ARL17P1	None
17	ARL17A	ENSG00000185829	ENST00000570550	protein_coding	PUTATIVE	None	24096	264	87	44629899	44657023	-1	ARF1P2, ARL17P1	None
17	ARL17A	ENSG00000185829	ENST00000336125	protein_coding	KNOWN	CCDS45718	24096	534	177	44631410	44657048	-1	ARF1P2, ARL17P1	None
17	ARL17A	ENSG00000185829	ENST00000329240	protein_coding	KNOWN	CCDS45717	24096	378	125	44594481	44657059	-1	ARF1P2, ARL17P1	None
17	ARL17A	ENSG00000185829	ENST00000337845	protein_coding	KNOWN	None	24096	612	203	44594069	44657088	-1	ARF1P2, ARL17P1	None
6	RN7SKP245	ENSG00000200895	ENST00000364025	misc_RNA	KNOWN	None	45969	None	None	132141474	132141793	1	None	None
7	None	ENSG00000225286	ENST00000454851	processed_pseudogene	KNOWN	None	None	None	None	28654714	28655505	-1	None	None
9	None	ENSG00000213839	ENST00000436507	processed_pseudogene	KNOWN	None	None	None	None	37885680	37886387	1	None	None
19	None	ENSG00000269228	ENST00000597285	processed_pseudogene	KNOWN	None	None	None	None	7730603	7731362	1	None	None
6	None	ENSG00000237115	ENST00000455305	processed_pseudogene	KNOWN	None	None	None	None	132147121	132149553	-1	None	None
X	CT47A5	ENSG00000237957	ENST00000439466	protein_coding	KNOWN	CCDS35387	33286	867	288	120096886	120100198	-1	None	CT47.5
X	CT47A5	ENSG00000237957	ENST00000419194	protein_coding	KNOWN	None	33286	867	288	120092019	120100198	-1	None	CT47.5
6	None	ENSG00000236673	ENST00000454596	lincRNA	KNOWN	None	None	None	None	132223103	132241705	1	None	None
6	None	ENSG00000236673	ENST00000421310	lincRNA	KNOWN	None	None	None	None	132223104	132228670	1	None	None
6	None	ENSG00000236673	ENST00000419695	lincRNA	KNOWN	None	None	None	None	132224788	132228670	1	None	None
5	GPRIN1	ENSG00000169258	ENST00000303991	protein_coding	KNOWN	CCDS4405	24835	3027	1008	176022803	176037134	-1	None	GRIN1, KIAA1893
19	RPL21P129	ENSG00000242636	ENST00000491732	processed_pseudogene	KNOWN	None	36747	None	None	7815570	7816047	1	None	None
HSCHR6_MHC_COX	DDR1	ENSG00000137332	ENST00000491012	processed_transcript	KNOWN	None	2730	None	None	30838646	30849868	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_COX	DDR1	ENSG00000137332	ENST00000383377	protein_coding	KNOWN	None	2730	2742	913	30838699	30857829	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_COX	DDR1	ENSG00000137332	ENST00000475380	processed_transcript	KNOWN	None	2730	None	None	30838966	30842378	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_COX	DDR1	ENSG00000137332	ENST00000438728	protein_coding	KNOWN	None	2730	500	165	30840617	30848726	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_COX	DDR1	ENSG00000137332	ENST00000400407	protein_coding	KNOWN	None	2730	443	146	30840762	30848669	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_COX	DDR1	ENSG00000137332	ENST00000400414	protein_coding	KNOWN	None	2730	2742	913	30841450	30857829	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_COX	DDR1	ENSG00000137332	ENST00000259875	protein_coding	KNOWN	None	2730	2631	876	30841734	30857829	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_COX	DDR1	ENSG00000137332	ENST00000416705	protein_coding	KNOWN	None	2730	417	138	30842024	30847101	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_COX	DDR1	ENSG00000137332	ENST00000431334	protein_coding	KNOWN	None	2730	190	62	30842129	30846683	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_COX	DDR1	ENSG00000137332	ENST00000468225	processed_transcript	KNOWN	None	2730	None	None	30842227	30857829	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_COX	DDR1	ENSG00000137332	ENST00000400411	protein_coding	KNOWN	None	2730	2631	876	30842237	30857829	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_COX	DDR1	ENSG00000137332	ENST00000419285	protein_coding	KNOWN	None	2730	628	208	30842897	30849113	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_COX	DDR1	ENSG00000137332	ENST00000400410	protein_coding	KNOWN	None	2730	2631	876	30846060	30857829	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_COX	DDR1	ENSG00000137332	ENST00000469592	retained_intron	KNOWN	None	2730	None	None	30848813	30849851	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_COX	DDR1	ENSG00000137332	ENST00000444198	protein_coding	KNOWN	None	2730	1479	492	30849098	30855812	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_COX	DDR1	ENSG00000137332	ENST00000481378	processed_transcript	KNOWN	None	2730	None	None	30851028	30854719	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_COX	DDR1	ENSG00000137332	ENST00000416487	protein_coding	KNOWN	None	2730	1136	377	30854294	30857829	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_COX	DDR1	ENSG00000137332	ENST00000485552	retained_intron	KNOWN	None	2730	None	None	30854748	30857077	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_COX	DDR1	ENSG00000137332	ENST00000553015	protein_coding	KNOWN	None	2730	2760	919	30841755	30857825	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_COX	DDR1	ENSG00000137332	ENST00000552721	protein_coding	KNOWN	None	2730	732	243	30841755	30857825	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
5	SRP19	ENSG00000153037	ENST00000503445	processed_transcript	KNOWN	None	11300	None	None	112196885	112227334	1	None	None
5	SRP19	ENSG00000153037	ENST00000505459	protein_coding	KNOWN	CCDS4108	11300	435	144	112196919	112205485	1	None	None
5	SRP19	ENSG00000153037	ENST00000506997	nonsense_mediated_decay	KNOWN	None	11300	132	43	112196992	112228648	1	None	None
5	SRP19	ENSG00000153037	ENST00000282999	protein_coding	PUTATIVE	CCDS56375	11300	333	110	112197002	112203632	1	None	None
5	SRP19	ENSG00000153037	ENST00000512790	processed_transcript	KNOWN	None	11300	None	None	112197002	112228776	1	None	None
5	SRP19	ENSG00000153037	ENST00000515463	protein_coding	PUTATIVE	CCDS56376	11300	237	78	112197007	112203468	1	None	None
5	SRP19	ENSG00000153037	ENST00000515755	retained_intron	KNOWN	None	11300	None	None	112197023	112200616	1	None	None
5	SRP19	ENSG00000153037	ENST00000445150	retained_intron	KNOWN	None	11300	None	None	112197029	112200916	1	None	None
5	SRP19	ENSG00000153037	ENST00000506987	retained_intron	KNOWN	None	11300	None	None	112198059	112203421	1	None	None
5	SRP19	ENSG00000153037	ENST00000509024	retained_intron	KNOWN	None	11300	None	None	112198114	112227422	1	None	None
5	SRP19	ENSG00000153037	ENST00000504696	retained_intron	KNOWN	None	11300	None	None	112200306	112203449	1	None	None
6	ID4	ENSG00000172201	ENST00000378700	protein_coding	KNOWN	CCDS4544	5363	486	161	19837617	19840915	1	None	bHLHb27
4	ACTN4P1	ENSG00000213493	ENST00000514175	processed_pseudogene	KNOWN	None	44028	None	None	117519317	117520767	1	None	None
14	TRAJ1	ENSG00000211888	ENST00000390536	TR_J_gene	KNOWN	None	12037	62	19	23013981	23014042	1	None	None
15	DDX11L9	ENSG00000248472	ENST00000559159	processed_transcript	KNOWN	None	37109	None	None	102516761	102519296	-1	None	None
15	DDX11L9	ENSG00000248472	ENST00000562189	processed_transcript	KNOWN	None	37109	None	None	102516761	102519296	-1	None	None
15	DDX11L9	ENSG00000248472	ENST00000560040	transcribed_unprocessed_pseudogene	KNOWN	None	37109	None	None	102517497	102518994	-1	None	None
15	DDX11L9	ENSG00000248472	ENST00000538648	pseudogene	KNOWN	None	37109	None	None	102517351	102517622	-1	None	None
15	DDX11L9	ENSG00000248472	ENST00000515173	unprocessed_pseudogene	KNOWN	None	37109	None	None	102516758	102519298	-1	None	None
1	KLHL20	ENSG00000076321	ENST00000479505	processed_transcript	KNOWN	None	25056	None	None	173684080	173702967	1	None	KLEIP, KHLHX
1	KLHL20	ENSG00000076321	ENST00000209884	protein_coding	KNOWN	CCDS1310	25056	1830	609	173684123	173755840	1	None	KLEIP, KHLHX
1	KLHL20	ENSG00000076321	ENST00000483154	processed_transcript	KNOWN	None	25056	None	None	173684442	173703356	1	None	KLEIP, KHLHX
1	KLHL20	ENSG00000076321	ENST00000493170	processed_transcript	KNOWN	None	25056	None	None	173684706	173703652	1	None	KLEIP, KHLHX
1	KLHL20	ENSG00000076321	ENST00000488983	processed_transcript	KNOWN	None	25056	None	None	173751051	173754651	1	None	KLEIP, KHLHX
1	KLHL20	ENSG00000076321	ENST00000546011	protein_coding	KNOWN	None	25056	1263	420	173684109	173754885	1	None	KLEIP, KHLHX
4	RNU6-119P	ENSG00000201752	ENST00000364882	snRNA	KNOWN	None	47082	None	None	117760435	117760541	1	None	None
9	RALGAPA1P	ENSG00000229419	ENST00000443361	processed_pseudogene	KNOWN	None	23203	None	None	108282409	108288640	1	GARNL2, GARNL2P	DKFZp566D133
16	SPATA33	ENSG00000167523	ENST00000301031	protein_coding	KNOWN	CCDS10983	26463	420	139	89724210	89737675	1	C16orf55	FLJ31606
16	SPATA33	ENSG00000167523	ENST00000566204	protein_coding	NOVEL	None	26463	441	146	89724220	89736039	1	C16orf55	FLJ31606
16	SPATA33	ENSG00000167523	ENST00000565890	nonsense_mediated_decay	KNOWN	None	26463	207	68	89724237	89737680	1	C16orf55	FLJ31606
16	SPATA33	ENSG00000167523	ENST00000457689	nonsense_mediated_decay	KNOWN	None	26463	115	37	89724246	89736705	1	C16orf55	FLJ31606
16	SPATA33	ENSG00000167523	ENST00000567827	nonsense_mediated_decay	KNOWN	None	26463	145	47	89724269	89734452	1	C16orf55	FLJ31606
16	SPATA33	ENSG00000167523	ENST00000564238	protein_coding	PUTATIVE	None	26463	82	26	89724279	89727916	1	C16orf55	FLJ31606
16	SPATA33	ENSG00000167523	ENST00000568929	protein_coding	PUTATIVE	None	26463	129	42	89724510	89727891	1	C16orf55	FLJ31606
16	SPATA33	ENSG00000167523	ENST00000566857	processed_transcript	KNOWN	None	26463	None	None	89727236	89727916	1	C16orf55	FLJ31606
16	SPATA33	ENSG00000167523	ENST00000579310	protein_coding	KNOWN	None	26463	423	140	89724246	89736705	1	C16orf55	FLJ31606
4	None	ENSG00000271053	ENST00000603758	processed_pseudogene	KNOWN	None	None	None	None	117779249	117780129	1	None	None
4	None	ENSG00000223605	ENST00000451226	unprocessed_pseudogene	KNOWN	None	None	None	None	118171080	118171344	1	None	None
7	None	ENSG00000255690	ENST00000539664	pseudogene	KNOWN	None	None	None	None	28992974	28998029	-1	None	None
5	SNORD95	ENSG00000264549	ENST00000579879	snoRNA	KNOWN	None	32757	None	None	180670312	180670379	-1	None	U95
21	None	ENSG00000235878	ENST00000594486	protein_coding	NOVEL	None	None	804	267	47612391	47613673	-1	None	None
X	ACE2	ENSG00000130234	ENST00000252519	protein_coding	KNOWN	CCDS14169	13557	2418	805	15579156	15619137	-1	None	None
X	ACE2	ENSG00000130234	ENST00000471548	processed_transcript	KNOWN	None	13557	None	None	15579159	15584410	-1	None	None
X	ACE2	ENSG00000130234	ENST00000473851	processed_transcript	KNOWN	None	13557	None	None	15580003	15584832	-1	None	None
X	ACE2	ENSG00000130234	ENST00000484756	processed_transcript	KNOWN	None	13557	None	None	15613010	15620271	-1	None	None
X	ACE2	ENSG00000130234	ENST00000427411	protein_coding	KNOWN	CCDS14169	13557	2418	805	15579156	15620192	-1	None	None
12	NUAK1	ENSG00000074590	ENST00000261402	protein_coding	KNOWN	CCDS31892	14311	1986	661	106457118	106533811	-1	None	ARK5, KIAA0537, NuaK1
12	NUAK1	ENSG00000074590	ENST00000553094	protein_coding	PUTATIVE	None	14311	354	117	106461357	106477811	-1	None	ARK5, KIAA0537, NuaK1
12	NUAK1	ENSG00000074590	ENST00000549704	protein_coding	PUTATIVE	None	14311	223	73	106461593	106477816	-1	None	ARK5, KIAA0537, NuaK1
12	NUAK1	ENSG00000074590	ENST00000548902	protein_coding	PUTATIVE	None	14311	457	151	106461716	106480734	-1	None	ARK5, KIAA0537, NuaK1
7	None	ENSG00000269781	ENST00000601673	protein_coding	KNOWN	None	None	387	128	6522922	6524873	1	None	None
5	RNU6-727P	ENSG00000200462	ENST00000363592	snRNA	KNOWN	None	47690	None	None	86716158	86716264	-1	None	None
10	BLOC1S2	ENSG00000196072	ENST00000441611	protein_coding	PUTATIVE	None	20984	300	99	102033713	102046114	-1	None	MGC10120, FLJ30135, BLOS2
10	BLOC1S2	ENSG00000196072	ENST00000370372	protein_coding	KNOWN	CCDS7490	20984	429	142	102034452	102046469	-1	None	MGC10120, FLJ30135, BLOS2
10	BLOC1S2	ENSG00000196072	ENST00000579542	protein_coding	PUTATIVE	None	20984	354	117	102039798	102045905	-1	None	MGC10120, FLJ30135, BLOS2
10	BLOC1S2	ENSG00000196072	ENST00000361832	processed_transcript	KNOWN	None	20984	None	None	102040691	102046430	-1	None	MGC10120, FLJ30135, BLOS2
5	None	ENSG00000233937	ENST00000511331	antisense	KNOWN	None	None	None	None	180673523	180699168	1	None	None
5	None	ENSG00000233937	ENST00000506340	antisense	KNOWN	None	None	None	None	180673525	180684245	1	None	None
5	None	ENSG00000233937	ENST00000505151	antisense	KNOWN	None	None	None	None	180673901	180684587	1	None	None
5	None	ENSG00000233937	ENST00000417281	antisense	KNOWN	None	None	None	None	180674701	180684587	1	None	None
1	AGTRAP	ENSG00000177674	ENST00000376637	protein_coding	KNOWN	CCDS30586	13539	336	111	11796141	11810767	1	None	ATRAP
1	AGTRAP	ENSG00000177674	ENST00000476512	nonsense_mediated_decay	KNOWN	None	13539	192	63	11796174	11810383	1	None	ATRAP
1	AGTRAP	ENSG00000177674	ENST00000400895	protein_coding	KNOWN	CCDS41248	13539	444	147	11796181	11810373	1	None	ATRAP
1	AGTRAP	ENSG00000177674	ENST00000494437	processed_transcript	KNOWN	None	13539	None	None	11796187	11806729	1	None	ATRAP
1	AGTRAP	ENSG00000177674	ENST00000491346	processed_transcript	KNOWN	None	13539	None	None	11796199	11810545	1	None	ATRAP
1	AGTRAP	ENSG00000177674	ENST00000376629	protein_coding	KNOWN	CCDS30585	13539	459	152	11796204	11810826	1	None	ATRAP
1	AGTRAP	ENSG00000177674	ENST00000376627	protein_coding	NOVEL	None	13539	480	159	11796210	11810635	1	None	ATRAP
1	AGTRAP	ENSG00000177674	ENST00000314340	protein_coding	KNOWN	CCDS136	13539	480	159	11796212	11810822	1	None	ATRAP
1	AGTRAP	ENSG00000177674	ENST00000452018	protein_coding	KNOWN	CCDS44056	13539	468	155	11796230	11810466	1	None	ATRAP
1	AGTRAP	ENSG00000177674	ENST00000510878	protein_coding	PUTATIVE	None	13539	468	155	11796232	11810690	1	None	ATRAP
1	AGTRAP	ENSG00000177674	ENST00000476309	processed_transcript	KNOWN	None	13539	None	None	11805858	11810466	1	None	ATRAP
1	AGTRAP	ENSG00000177674	ENST00000514733	retained_intron	KNOWN	None	13539	None	None	11806055	11810545	1	None	ATRAP
1	AGTRAP	ENSG00000177674	ENST00000513739	retained_intron	KNOWN	None	13539	None	None	11806066	11810182	1	None	ATRAP
1	AGTRAP	ENSG00000177674	ENST00000471765	processed_transcript	KNOWN	None	13539	None	None	11807569	11814859	1	None	ATRAP
5	None	ENSG00000249362	ENST00000504287	lincRNA	KNOWN	None	None	None	None	86957859	86974964	1	None	None
12	ADAMTS20	ENSG00000173157	ENST00000389420	protein_coding	KNOWN	CCDS31778	17178	5733	1910	43747669	43945724	-1	None	GON-1
12	ADAMTS20	ENSG00000173157	ENST00000549670	protein_coding	NOVEL	None	17178	1905	634	43816622	43833515	-1	None	GON-1
12	ADAMTS20	ENSG00000173157	ENST00000553158	protein_coding	KNOWN	None	17178	4515	1504	43817379	43945724	-1	None	GON-1
12	ADAMTS20	ENSG00000173157	ENST00000395541	protein_coding	KNOWN	None	17178	1869	622	43816622	43833515	-1	None	GON-1
5	SNCB	ENSG00000074317	ENST00000310112	protein_coding	KNOWN	CCDS4406	11140	405	134	176047085	176057365	-1	None	None
5	SNCB	ENSG00000074317	ENST00000393693	protein_coding	KNOWN	CCDS4406	11140	405	134	176047242	176057530	-1	None	None
5	SNCB	ENSG00000074317	ENST00000510387	protein_coding	KNOWN	CCDS4406	11140	405	134	176047682	176056995	-1	None	None
5	SNCB	ENSG00000074317	ENST00000506696	protein_coding	KNOWN	CCDS4406	11140	405	134	176047786	176057001	-1	None	None
5	SNCB	ENSG00000074317	ENST00000508006	retained_intron	KNOWN	None	11140	None	None	176048215	176057049	-1	None	None
X	CT47A6	ENSG00000226023	ENST00000443600	protein_coding	KNOWN	CCDS35386	33287	867	288	120092025	120095337	-1	None	CT47.6
10	None	ENSG00000223784	ENST00000417112	lincRNA	KNOWN	None	None	None	None	6779344	6780988	1	None	None
1	COL11A1	ENSG00000060718	ENST00000370096	protein_coding	KNOWN	CCDS778	2186	5421	1806	103342023	103574047	-1	COLL6	STL2, CO11A1
1	COL11A1	ENSG00000060718	ENST00000470170	retained_intron	KNOWN	None	2186	None	None	103343273	103345574	-1	COLL6	STL2, CO11A1
1	COL11A1	ENSG00000060718	ENST00000512756	protein_coding	NOVEL	CCDS780	2186	5073	1690	103343507	103574035	-1	COLL6	STL2, CO11A1
1	COL11A1	ENSG00000060718	ENST00000465209	retained_intron	KNOWN	None	2186	None	None	103427301	103428240	-1	COLL6	STL2, CO11A1
1	COL11A1	ENSG00000060718	ENST00000461720	processed_transcript	KNOWN	None	2186	None	None	103466570	103474049	-1	COLL6	STL2, CO11A1
1	COL11A1	ENSG00000060718	ENST00000475980	processed_transcript	KNOWN	None	2186	None	None	103466993	103470037	-1	COLL6	STL2, CO11A1
1	COL11A1	ENSG00000060718	ENST00000427239	protein_coding	NOVEL	None	2186	1709	568	103474029	103573734	-1	COLL6	STL2, CO11A1
1	COL11A1	ENSG00000060718	ENST00000447608	protein_coding	PUTATIVE	None	2186	603	200	103496457	103548415	-1	COLL6	STL2, CO11A1
1	COL11A1	ENSG00000060718	ENST00000358392	protein_coding	KNOWN	None	2186	5457	1818	103342023	103574052	-1	COLL6	STL2, CO11A1
1	COL11A1	ENSG00000060718	ENST00000353414	protein_coding	KNOWN	CCDS53348	2186	5304	1767	103342023	103574052	-1	COLL6	STL2, CO11A1
14	TRAC	ENSG00000229164	ENST00000478163	TR_C_gene	KNOWN	None	12029	425	140	23016447	23021097	1	None	None
17	PEMT	ENSG00000133027	ENST00000582268	processed_transcript	PUTATIVE	None	8830	None	None	17408877	17409637	-1	None	PEMPT, PEMT2
17	PEMT	ENSG00000133027	ENST00000484838	processed_transcript	KNOWN	None	8830	None	None	17408877	17421471	-1	None	PEMPT, PEMT2
17	PEMT	ENSG00000133027	ENST00000490392	processed_transcript	KNOWN	None	8830	None	None	17408877	17422394	-1	None	PEMPT, PEMT2
17	PEMT	ENSG00000133027	ENST00000395782	protein_coding	KNOWN	CCDS11187	8830	600	199	17408877	17480779	-1	None	PEMPT, PEMT2
17	PEMT	ENSG00000133027	ENST00000395783	protein_coding	KNOWN	CCDS11187	8830	600	199	17408877	17485745	-1	None	PEMPT, PEMT2
17	PEMT	ENSG00000133027	ENST00000435340	protein_coding	PUTATIVE	None	8830	636	211	17408877	17494993	-1	None	PEMPT, PEMT2
17	PEMT	ENSG00000133027	ENST00000255389	protein_coding	KNOWN	CCDS11186	8830	711	236	17408877	17495014	-1	None	PEMPT, PEMT2
17	PEMT	ENSG00000133027	ENST00000395781	protein_coding	NOVEL	CCDS58520	8830	699	232	17408879	17495022	-1	None	PEMPT, PEMT2
17	PEMT	ENSG00000133027	ENST00000477595	processed_transcript	PUTATIVE	None	8830	None	None	17408880	17410370	-1	None	PEMPT, PEMT2
17	PEMT	ENSG00000133027	ENST00000580147	nonsense_mediated_decay	KNOWN	None	8830	240	79	17408903	17494997	-1	None	PEMPT, PEMT2
17	PEMT	ENSG00000133027	ENST00000421096	processed_transcript	KNOWN	None	8830	None	None	17412098	17494964	-1	None	PEMPT, PEMT2
17	PEMT	ENSG00000133027	ENST00000472446	processed_transcript	KNOWN	None	8830	None	None	17412748	17495017	-1	None	PEMPT, PEMT2
17	PEMT	ENSG00000133027	ENST00000461404	nonsense_mediated_decay	KNOWN	None	8830	294	97	17415828	17495014	-1	None	PEMPT, PEMT2
5	None	ENSG00000248275	ENST00000514146	antisense	KNOWN	None	None	None	None	180688213	180691262	1	None	None
5	None	ENSG00000248275	ENST00000507434	antisense	KNOWN	None	None	None	None	180688223	180699308	1	None	None
5	None	ENSG00000248275	ENST00000509252	antisense	KNOWN	None	None	None	None	180688225	180691258	1	None	None
5	None	ENSG00000248275	ENST00000433265	antisense	KNOWN	None	None	None	None	180690635	180691230	1	None	None
10	None	ENSG00000205740	ENST00000381466	protein_coding	KNOWN	None	None	432	143	1017097	1034281	-1	None	None
16	None	ENSG00000260671	ENST00000563036	sense_intronic	KNOWN	None	None	None	None	87773369	87781312	-1	None	None
8	POLR3D	ENSG00000168495	ENST00000306433	protein_coding	PUTATIVE	CCDS34858	1080	1197	398	22102617	22108680	1	BN51T	TSBN51, RPC4
8	POLR3D	ENSG00000168495	ENST00000519237	protein_coding	PUTATIVE	None	1080	623	206	22102679	22106130	1	BN51T	TSBN51, RPC4
8	POLR3D	ENSG00000168495	ENST00000397802	protein_coding	KNOWN	CCDS34858	1080	1197	398	22102748	22112113	1	BN51T	TSBN51, RPC4
8	POLR3D	ENSG00000168495	ENST00000518039	nonsense_mediated_decay	KNOWN	None	1080	372	123	22102945	22108409	1	BN51T	TSBN51, RPC4
8	POLR3D	ENSG00000168495	ENST00000517789	retained_intron	KNOWN	None	1080	None	None	22104732	22107672	1	BN51T	TSBN51, RPC4
17	OR1A1	ENSG00000172146	ENST00000304094	protein_coding	KNOWN	CCDS11022	8179	930	309	3118915	3119844	1	None	OR17-7
15	AVEN	ENSG00000169857	ENST00000306730	protein_coding	KNOWN	CCDS10030	13509	1089	362	34158428	34331377	-1	None	PDCD12
15	AVEN	ENSG00000169857	ENST00000560649	nonsense_mediated_decay	KNOWN	None	13509	178	58	34158908	34168195	-1	None	PDCD12
15	AVEN	ENSG00000169857	ENST00000558136	processed_transcript	KNOWN	None	13509	None	None	34159974	34177939	-1	None	PDCD12
10	SYNPO2L	ENSG00000166317	ENST00000372873	protein_coding	KNOWN	CCDS7331	23532	2262	753	75404639	75410787	-1	None	FLJ12921
10	SYNPO2L	ENSG00000166317	ENST00000372872	protein_coding	PUTATIVE	None	23532	1809	602	75404639	75415830	-1	None	FLJ12921
10	SYNPO2L	ENSG00000166317	ENST00000394810	protein_coding	KNOWN	CCDS44438	23532	2934	977	75404639	75415830	-1	None	FLJ12921
10	SYNPO2L	ENSG00000166317	ENST00000606523	protein_coding	PUTATIVE	None	23532	345	114	75413117	75423561	-1	None	FLJ12921
10	LINC00707	ENSG00000238266	ENST00000436383	lincRNA	KNOWN	None	44691	None	None	6821560	6884868	1	None	None
19	ZNF155	ENSG00000204920	ENST00000590411	protein_coding	KNOWN	None	12940	272	89	44472014	44500281	1	None	pHZ-96
19	ZNF155	ENSG00000204920	ENST00000588531	retained_intron	KNOWN	None	12940	None	None	44488340	44493120	1	None	pHZ-96
19	ZNF155	ENSG00000204920	ENST00000591532	protein_coding	KNOWN	None	12940	450	149	44488343	44500459	1	None	pHZ-96
19	ZNF155	ENSG00000204920	ENST00000407951	protein_coding	PUTATIVE	CCDS58668	12940	1650	549	44488346	44502005	1	None	pHZ-96
19	ZNF155	ENSG00000204920	ENST00000270014	protein_coding	KNOWN	CCDS12634	12940	1617	538	44488355	44502477	1	None	pHZ-96
19	ZNF155	ENSG00000204920	ENST00000590615	protein_coding	KNOWN	CCDS12634	12940	1617	538	44488369	44501706	1	None	pHZ-96
19	ZNF155	ENSG00000204920	ENST00000587302	retained_intron	KNOWN	None	12940	None	None	44488371	44493095	1	None	pHZ-96
19	ZNF155	ENSG00000204920	ENST00000586454	protein_coding	KNOWN	None	12940	346	114	44488373	44500355	1	None	pHZ-96
7	HIPK2	ENSG00000064393	ENST00000406875	protein_coding	KNOWN	None	14402	3597	1198	139246316	139477517	-1	None	None
7	HIPK2	ENSG00000064393	ENST00000428878	protein_coding	KNOWN	None	14402	3516	1171	139257375	139477577	-1	None	None
7	HIPK2	ENSG00000064393	ENST00000342645	protein_coding	KNOWN	None	14402	2757	918	139268471	139421841	-1	None	None
17	TOB1	ENSG00000141232	ENST00000499247	protein_coding	KNOWN	CCDS11576	11979	1038	345	48939584	48943706	-1	TROB1	TOB, TROB
17	TOB1	ENSG00000141232	ENST00000268957	protein_coding	KNOWN	CCDS11576	11979	1038	345	48940341	48945339	-1	TROB1	TOB, TROB
17	TOB1	ENSG00000141232	ENST00000509385	processed_transcript	PUTATIVE	None	11979	None	None	48940730	48943715	-1	TROB1	TOB, TROB
14	NYNRIN	ENSG00000205978	ENST00000382554	protein_coding	KNOWN	CCDS45090	20165	5697	1898	24867992	24888494	1	KIAA1305	FLJ11811, CGIN1
14	NYNRIN	ENSG00000205978	ENST00000554505	processed_transcript	KNOWN	None	20165	None	None	24881800	24883924	1	KIAA1305	FLJ11811, CGIN1
7	GRID2IP	ENSG00000215045	ENST00000452113	protein_coding	PUTATIVE	None	18464	3063	1020	6537093	6576528	-1	None	None
7	GRID2IP	ENSG00000215045	ENST00000435185	protein_coding	PUTATIVE	None	18464	3084	1027	6537358	6570817	-1	None	None
7	GRID2IP	ENSG00000215045	ENST00000457091	protein_coding	PUTATIVE	CCDS47537	18464	3636	1211	6537405	6591067	-1	None	None
6	None	ENSG00000227220	ENST00000435287	antisense	KNOWN	None	None	None	None	132272086	132398533	1	None	None
1	EXTL1	ENSG00000158008	ENST00000481377	processed_transcript	KNOWN	None	3515	None	None	26346375	26358038	1	None	EXTL, MGC70794
1	EXTL1	ENSG00000158008	ENST00000374280	protein_coding	KNOWN	CCDS271	3515	2031	676	26348271	26362955	1	None	EXTL, MGC70794
1	EXTL1	ENSG00000158008	ENST00000484339	processed_transcript	KNOWN	None	3515	None	None	26349680	26358046	1	None	EXTL, MGC70794
1	EXTL1	ENSG00000158008	ENST00000470037	processed_transcript	KNOWN	None	3515	None	None	26358621	26361495	1	None	EXTL, MGC70794
20	DBNDD2	ENSG00000244274	ENST00000372723	protein_coding	KNOWN	CCDS42880	15881	486	161	44034697	44039250	1	C20orf35	HSMNP1
20	DBNDD2	ENSG00000244274	ENST00000372722	protein_coding	KNOWN	CCDS42881	15881	339	112	44034711	44039250	1	C20orf35	HSMNP1
20	DBNDD2	ENSG00000244274	ENST00000357275	protein_coding	KNOWN	CCDS42880	15881	486	161	44034824	44039250	1	C20orf35	HSMNP1
20	DBNDD2	ENSG00000244274	ENST00000372720	protein_coding	KNOWN	CCDS56193	15881	780	259	44034861	44039250	1	C20orf35	HSMNP1
20	DBNDD2	ENSG00000244274	ENST00000372717	protein_coding	KNOWN	CCDS42881	15881	339	112	44035228	44039250	1	C20orf35	HSMNP1
20	DBNDD2	ENSG00000244274	ENST00000360981	protein_coding	KNOWN	CCDS42880	15881	486	161	44035259	44039250	1	C20orf35	HSMNP1
20	DBNDD2	ENSG00000244274	ENST00000372712	protein_coding	KNOWN	CCDS42880	15881	486	161	44035847	44039250	1	C20orf35	HSMNP1
20	DBNDD2	ENSG00000244274	ENST00000372710	protein_coding	PUTATIVE	CCDS56194	15881	792	263	44036647	44039250	1	C20orf35	HSMNP1
20	DBNDD2	ENSG00000244274	ENST00000443296	protein_coding	PUTATIVE	None	15881	518	171	44036929	44039250	1	C20orf35	HSMNP1
2	GAL3ST2	ENSG00000154252	ENST00000192314	protein_coding	KNOWN	CCDS33427	24869	1197	398	242716240	242743623	1	None	GP3ST
9	PIGUP1	ENSG00000224437	ENST00000423148	processed_pseudogene	KNOWN	None	45158	None	None	73531913	73532417	-1	None	None
6	None	ENSG00000236166	ENST00000430428	lincRNA	KNOWN	None	None	None	None	132406224	132420419	1	None	None
6	None	ENSG00000236166	ENST00000440246	lincRNA	KNOWN	None	None	None	None	132411673	132420366	1	None	None
7	EIF3B	ENSG00000106263	ENST00000431643	protein_coding	PUTATIVE	None	3280	460	152	2393721	2406070	1	EIF3S9	PRT1, eIF3b
7	EIF3B	ENSG00000106263	ENST00000360876	protein_coding	KNOWN	CCDS5332	3280	2445	814	2394501	2420378	1	EIF3S9	PRT1, eIF3b
7	EIF3B	ENSG00000106263	ENST00000413917	protein_coding	PUTATIVE	None	3280	907	301	2394502	2404031	1	EIF3S9	PRT1, eIF3b
7	EIF3B	ENSG00000106263	ENST00000397011	protein_coding	KNOWN	CCDS5332	3280	2445	814	2394517	2420380	1	EIF3S9	PRT1, eIF3b
7	EIF3B	ENSG00000106263	ENST00000463229	retained_intron	KNOWN	None	3280	None	None	2402656	2406659	1	EIF3S9	PRT1, eIF3b
7	EIF3B	ENSG00000106263	ENST00000463026	retained_intron	KNOWN	None	3280	None	None	2403959	2406378	1	EIF3S9	PRT1, eIF3b
7	EIF3B	ENSG00000106263	ENST00000468250	retained_intron	KNOWN	None	3280	None	None	2403959	2406754	1	EIF3S9	PRT1, eIF3b
7	EIF3B	ENSG00000106263	ENST00000466199	retained_intron	KNOWN	None	3280	None	None	2406165	2411825	1	EIF3S9	PRT1, eIF3b
7	EIF3B	ENSG00000106263	ENST00000475415	retained_intron	KNOWN	None	3280	None	None	2412753	2420375	1	EIF3S9	PRT1, eIF3b
7	EIF3B	ENSG00000106263	ENST00000468611	retained_intron	KNOWN	None	3280	None	None	2415610	2420375	1	EIF3S9	PRT1, eIF3b
7	EIF3B	ENSG00000106263	ENST00000465670	retained_intron	KNOWN	None	3280	None	None	2417459	2420375	1	EIF3S9	PRT1, eIF3b
7	EIF3B	ENSG00000106263	ENST00000494658	retained_intron	KNOWN	None	3280	None	None	2418322	2419476	1	EIF3S9	PRT1, eIF3b
3	ZBTB11	ENSG00000066422	ENST00000312938	protein_coding	KNOWN	CCDS2943	16740	3162	1053	101367733	101396339	-1	None	ZNF-U69274, ZNF913
3	ZBTB11	ENSG00000066422	ENST00000471673	retained_intron	KNOWN	None	16740	None	None	101374685	101378767	-1	None	ZNF-U69274, ZNF913
3	ZBTB11	ENSG00000066422	ENST00000461821	protein_coding	PUTATIVE	None	16740	648	215	101389457	101395962	-1	None	ZNF-U69274, ZNF913
10	FAM21A	ENSG00000099290	ENST00000434114	nonsense_mediated_decay	KNOWN	None	23416	321	106	51827684	51893262	1	None	bA56A21.1
10	FAM21A	ENSG00000099290	ENST00000282633	protein_coding	KNOWN	CCDS41527	23416	4026	1341	51827721	51892906	1	None	bA56A21.1
10	FAM21A	ENSG00000099290	ENST00000492914	processed_transcript	KNOWN	None	23416	None	None	51829270	51851265	1	None	bA56A21.1
10	FAM21A	ENSG00000099290	ENST00000476514	processed_transcript	KNOWN	None	23416	None	None	51840636	51845379	1	None	bA56A21.1
10	FAM21A	ENSG00000099290	ENST00000454806	protein_coding	KNOWN	None	23416	471	156	51879410	51886268	1	None	bA56A21.1
10	FAM21A	ENSG00000099290	ENST00000351071	protein_coding	KNOWN	None	23416	3963	1320	51827648	51893266	1	None	bA56A21.1
10	FAM21A	ENSG00000099290	ENST00000314664	protein_coding	KNOWN	None	23416	3840	1279	51827648	51893266	1	None	bA56A21.1
10	FAM21A	ENSG00000099290	ENST00000399339	protein_coding	KNOWN	None	23416	3762	1253	51837886	51893269	1	None	bA56A21.1
9	None	ENSG00000229814	ENST00000437667	processed_pseudogene	KNOWN	None	None	None	None	74204517	74204849	1	None	None
6	MIR548AJ1	ENSG00000265669	ENST00000584644	miRNA	KNOWN	None	41884	None	None	132436332	132436403	-1	None	hsa-mir-548aj-1
11	OR51E2	ENSG00000167332	ENST00000396950	protein_coding	KNOWN	CCDS7751	15195	963	320	4701401	4719072	-1	None	PSGR
11	OR51E2	ENSG00000167332	ENST00000532598	protein_coding	KNOWN	None	15195	251	82	4703691	4719084	-1	None	PSGR
16	C16orf47	ENSG00000197445	ENST00000358463	protein_coding	KNOWN	None	28329	402	133	73160536	73178346	-1	None	FLJ26184
4	None	ENSG00000248399	ENST00000502641	sense_intronic	KNOWN	None	None	None	None	2465524	2465851	1	None	None
11	MYOD1	ENSG00000129152	ENST00000250003	protein_coding	KNOWN	CCDS7826	7611	963	320	17741115	17743678	1	MYF3	PUM, MYOD, bHLHc1
2	MZT2B	ENSG00000152082	ENST00000425361	protein_coding	PUTATIVE	None	25886	368	121	130939310	130948286	1	FAM128B	FLJ14346, MOZART2B
2	MZT2B	ENSG00000152082	ENST00000457492	protein_coding	PUTATIVE	None	25886	366	121	130939345	130948268	1	FAM128B	FLJ14346, MOZART2B
2	MZT2B	ENSG00000152082	ENST00000281871	protein_coding	KNOWN	CCDS2157	25886	477	158	130939501	130948300	1	FAM128B	FLJ14346, MOZART2B
2	MZT2B	ENSG00000152082	ENST00000409255	protein_coding	NOVEL	None	25886	657	218	130939830	130948285	1	FAM128B	FLJ14346, MOZART2B
2	MZT2B	ENSG00000152082	ENST00000455239	protein_coding	PUTATIVE	None	25886	363	120	130939886	130948302	1	FAM128B	FLJ14346, MOZART2B
2	MZT2B	ENSG00000152082	ENST00000485869	retained_intron	KNOWN	None	25886	None	None	130939988	130940744	1	FAM128B	FLJ14346, MOZART2B
2	MZT2B	ENSG00000152082	ENST00000480182	retained_intron	KNOWN	None	25886	None	None	130940128	130948300	1	FAM128B	FLJ14346, MOZART2B
2	MZT2B	ENSG00000152082	ENST00000491178	processed_transcript	KNOWN	None	25886	None	None	130940253	130945835	1	FAM128B	FLJ14346, MOZART2B
19	PSG11	ENSG00000243130	ENST00000403486	protein_coding	KNOWN	CCDS12615	9516	642	213	43511808	43530618	-1	PSG13, PSG14	MGC22484
19	PSG11	ENSG00000243130	ENST00000320078	protein_coding	KNOWN	CCDS12614	9516	1008	335	43511808	43530664	-1	PSG13, PSG14	MGC22484
19	PSG11	ENSG00000243130	ENST00000593983	nonsense_mediated_decay	KNOWN	None	9516	381	126	43511810	43529504	-1	PSG13, PSG14	MGC22484
19	PSG11	ENSG00000243130	ENST00000593994	retained_intron	KNOWN	None	9516	None	None	43511982	43514858	-1	PSG13, PSG14	MGC22484
19	PSG11	ENSG00000243130	ENST00000306322	protein_coding	KNOWN	CCDS12615	9516	642	213	43512052	43530621	-1	PSG13, PSG14	MGC22484
19	PSG11	ENSG00000243130	ENST00000599976	processed_transcript	KNOWN	None	9516	None	None	43514422	43519426	-1	PSG13, PSG14	MGC22484
19	PSG11	ENSG00000243130	ENST00000594655	retained_intron	KNOWN	None	9516	None	None	43518233	43530614	-1	PSG13, PSG14	MGC22484
19	PSG11	ENSG00000243130	ENST00000595138	retained_intron	KNOWN	None	9516	None	None	43518406	43530614	-1	PSG13, PSG14	MGC22484
19	PSG11	ENSG00000243130	ENST00000598133	protein_coding	NOVEL	None	9516	960	319	43519272	43530600	-1	PSG13, PSG14	MGC22484
19	PSG11	ENSG00000243130	ENST00000595312	processed_transcript	KNOWN	None	9516	None	None	43521383	43523199	-1	PSG13, PSG14	MGC22484
19	PSG11	ENSG00000243130	ENST00000597093	retained_intron	KNOWN	None	9516	None	None	43522494	43528996	-1	PSG13, PSG14	MGC22484
19	PSG11	ENSG00000243130	ENST00000488205	retained_intron	KNOWN	None	9516	None	None	43522840	43530626	-1	PSG13, PSG14	MGC22484
19	PSG11	ENSG00000243130	ENST00000599245	retained_intron	KNOWN	None	9516	None	None	43528619	43530606	-1	PSG13, PSG14	MGC22484
19	PSG11	ENSG00000243130	ENST00000401740	protein_coding	KNOWN	CCDS12614	9516	1008	335	43511839	43530628	-1	PSG13, PSG14	MGC22484
4	None	ENSG00000251229	ENST00000508865	processed_pseudogene	KNOWN	None	None	None	None	2506808	2508006	-1	None	None
6	None	ENSG00000228495	ENST00000422700	lincRNA	KNOWN	None	None	None	None	132453055	132458073	1	None	None
6	None	ENSG00000228495	ENST00000458028	lincRNA	KNOWN	None	None	None	None	132455118	132468198	1	None	None
6	None	ENSG00000228495	ENST00000443303	lincRNA	KNOWN	None	None	None	None	132455551	132490514	1	None	None
6	None	ENSG00000228495	ENST00000436112	lincRNA	KNOWN	None	None	None	None	132481904	132490501	1	None	None
6	None	ENSG00000228495	ENST00000447481	lincRNA	KNOWN	None	None	None	None	132481905	132485631	1	None	None
X	SMPX	ENSG00000091482	ENST00000379494	protein_coding	KNOWN	CCDS14200	11122	267	88	21724090	21776281	-1	None	None
X	SMPX	ENSG00000091482	ENST00000494525	processed_transcript	KNOWN	None	11122	None	None	21724456	21776140	-1	None	None
HSCHR6_MHC_MANN	BTNL2	ENSG00000225412	ENST00000451625	protein_coding	KNOWN	None	1142	636	211	32400085	32403519	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_MANN	BTNL2	ENSG00000225412	ENST00000416387	protein_coding	KNOWN	None	1142	777	258	32408977	32414370	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_MANN	BTNL2	ENSG00000225412	ENST00000429303	protein_coding	KNOWN	None	1142	326	107	32412276	32414370	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_MANN	BTNL2	ENSG00000225412	ENST00000552523	protein_coding	KNOWN	None	1142	1167	388	32401185	32414363	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_MANN	BTNL2	ENSG00000225412	ENST00000551409	protein_coding	KNOWN	None	1142	1368	455	32401952	32414363	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_MANN	BTNL2	ENSG00000225412	ENST00000551686	protein_coding	KNOWN	None	1142	738	245	32401952	32414363	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_MANN	BTNL2	ENSG00000225412	ENST00000552970	protein_coding	KNOWN	None	1142	738	245	32401952	32414363	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_MANN	BTNL2	ENSG00000225412	ENST00000548717	protein_coding	KNOWN	None	1142	537	178	32401952	32414363	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_MANN	BTNL2	ENSG00000225412	ENST00000548066	protein_coding	KNOWN	None	1142	816	271	32401952	32414363	-1	None	HSBLMHC1, BTL-II
11	OR51C1P	ENSG00000197674	ENST00000357764	protein_coding	KNOWN	None	15191	939	312	4711988	4713394	-1	OR51C3P, OR51C2P	OST734
9	None	ENSG00000271166	ENST00000603750	processed_pseudogene	KNOWN	None	None	None	None	74419199	74419742	1	None	None
11	MMP26	ENSG00000167346	ENST00000477339	processed_transcript	KNOWN	None	14249	None	None	4726157	5011060	1	None	endometase, MGC126590, MGC126592
11	MMP26	ENSG00000167346	ENST00000380390	protein_coding	KNOWN	CCDS7752	14249	786	261	4788500	5013659	1	None	endometase, MGC126590, MGC126592
11	MMP26	ENSG00000167346	ENST00000300762	protein_coding	KNOWN	CCDS7752	14249	786	261	5009424	5013657	1	None	endometase, MGC126590, MGC126592
11	None	ENSG00000255482	ENST00000529278	protein_coding	NOVEL	None	None	231	76	102337986	102369532	1	None	None
10	GTPBP4	ENSG00000107937	ENST00000360803	protein_coding	KNOWN	CCDS31132	21535	1905	634	1034338	1065876	1	None	CRFG, NGB, FLJ10690, FLJ10686, NOG1
10	GTPBP4	ENSG00000107937	ENST00000491635	processed_transcript	KNOWN	None	21535	None	None	1034402	1056457	1	None	CRFG, NGB, FLJ10690, FLJ10686, NOG1
10	GTPBP4	ENSG00000107937	ENST00000360059	protein_coding	KNOWN	None	21535	420	139	1034646	1043248	1	None	CRFG, NGB, FLJ10690, FLJ10686, NOG1
10	GTPBP4	ENSG00000107937	ENST00000491261	processed_transcript	KNOWN	None	21535	None	None	1051778	1053260	1	None	CRFG, NGB, FLJ10690, FLJ10686, NOG1
10	GTPBP4	ENSG00000107937	ENST00000483839	processed_transcript	KNOWN	None	21535	None	None	1058340	1063137	1	None	CRFG, NGB, FLJ10690, FLJ10686, NOG1
10	GTPBP4	ENSG00000107937	ENST00000545048	protein_coding	KNOWN	None	21535	1764	587	1034655	1063642	1	None	CRFG, NGB, FLJ10690, FLJ10686, NOG1
10	GTPBP4	ENSG00000107937	ENST00000538293	protein_coding	KNOWN	None	21535	1557	518	1034402	1063617	1	None	CRFG, NGB, FLJ10690, FLJ10686, NOG1
17	SAP30BP	ENSG00000161526	ENST00000584667	protein_coding	KNOWN	CCDS11726	30785	927	308	73663196	73704139	1	None	HCNGP, HTRG, HTRP
17	SAP30BP	ENSG00000161526	ENST00000583170	nonsense_mediated_decay	KNOWN	None	30785	111	36	73663331	73686796	1	None	HCNGP, HTRG, HTRP
17	SAP30BP	ENSG00000161526	ENST00000578354	processed_transcript	KNOWN	None	30785	None	None	73663426	73689562	1	None	HCNGP, HTRG, HTRP
17	SAP30BP	ENSG00000161526	ENST00000355423	protein_coding	KNOWN	None	30785	879	292	73663426	73704134	1	None	HCNGP, HTRG, HTRP
17	SAP30BP	ENSG00000161526	ENST00000584861	retained_intron	KNOWN	None	30785	None	None	73663431	73668236	1	None	HCNGP, HTRG, HTRP
17	SAP30BP	ENSG00000161526	ENST00000577292	retained_intron	KNOWN	None	30785	None	None	73663431	73699238	1	None	HCNGP, HTRG, HTRP
17	SAP30BP	ENSG00000161526	ENST00000542343	nonsense_mediated_decay	KNOWN	None	30785	507	168	73663436	73702781	1	None	HCNGP, HTRG, HTRP
17	SAP30BP	ENSG00000161526	ENST00000579877	nonsense_mediated_decay	KNOWN	None	30785	114	37	73663442	73700894	1	None	HCNGP, HTRG, HTRP
17	SAP30BP	ENSG00000161526	ENST00000578288	retained_intron	KNOWN	None	30785	None	None	73663446	73687970	1	None	HCNGP, HTRG, HTRP
17	SAP30BP	ENSG00000161526	ENST00000583737	nonsense_mediated_decay	KNOWN	None	30785	111	36	73663446	73695952	1	None	HCNGP, HTRG, HTRP
17	SAP30BP	ENSG00000161526	ENST00000579864	processed_transcript	KNOWN	None	30785	None	None	73663446	73699399	1	None	HCNGP, HTRG, HTRP
17	SAP30BP	ENSG00000161526	ENST00000293208	nonsense_mediated_decay	KNOWN	None	30785	708	235	73663446	73702904	1	None	HCNGP, HTRG, HTRP
17	SAP30BP	ENSG00000161526	ENST00000580484	retained_intron	KNOWN	None	30785	None	None	73663450	73701826	1	None	HCNGP, HTRG, HTRP
17	SAP30BP	ENSG00000161526	ENST00000582022	nonsense_mediated_decay	KNOWN	None	30785	540	179	73663451	73704142	1	None	HCNGP, HTRG, HTRP
17	SAP30BP	ENSG00000161526	ENST00000580322	nonsense_mediated_decay	KNOWN	None	30785	746	247	73663454	73702836	1	None	HCNGP, HTRG, HTRP
17	SAP30BP	ENSG00000161526	ENST00000583536	protein_coding	NOVEL	None	30785	976	324	73663506	73702625	1	None	HCNGP, HTRG, HTRP
17	SAP30BP	ENSG00000161526	ENST00000578909	protein_coding	PUTATIVE	None	30785	314	103	73664596	73696339	1	None	HCNGP, HTRG, HTRP
17	SAP30BP	ENSG00000161526	ENST00000580601	retained_intron	KNOWN	None	30785	None	None	73687650	73702854	1	None	HCNGP, HTRG, HTRP
17	SAP30BP	ENSG00000161526	ENST00000584240	protein_coding	PUTATIVE	None	30785	281	92	73688124	73700848	1	None	HCNGP, HTRG, HTRP
17	SAP30BP	ENSG00000161526	ENST00000583063	protein_coding	PUTATIVE	None	30785	327	108	73688626	73700894	1	None	HCNGP, HTRG, HTRP
17	SAP30BP	ENSG00000161526	ENST00000581207	retained_intron	KNOWN	None	30785	None	None	73698560	73701560	1	None	HCNGP, HTRG, HTRP
17	SAP30BP	ENSG00000161526	ENST00000583329	retained_intron	KNOWN	None	30785	None	None	73699346	73702781	1	None	HCNGP, HTRG, HTRP
17	SAP30BP	ENSG00000161526	ENST00000578756	retained_intron	KNOWN	None	30785	None	None	73699850	73702837	1	None	HCNGP, HTRG, HTRP
17	SAP30BP	ENSG00000161526	ENST00000581385	retained_intron	KNOWN	None	30785	None	None	73700794	73702486	1	None	HCNGP, HTRG, HTRP
17	SAP30BP	ENSG00000161526	ENST00000584557	retained_intron	KNOWN	None	30785	None	None	73700852	73702851	1	None	HCNGP, HTRG, HTRP
17	SAP30BP	ENSG00000161526	ENST00000579005	processed_transcript	KNOWN	None	30785	None	None	73702265	73702836	1	None	HCNGP, HTRG, HTRP
X	XAGE3	ENSG00000171402	ENST00000375491	protein_coding	KNOWN	CCDS14347	14618	336	111	52891557	52896332	-1	PLAC6, GAGED4	XAGE-3, pp9012, CT12.3a, CT12.3b
X	XAGE3	ENSG00000171402	ENST00000346279	protein_coding	KNOWN	CCDS14347	14618	336	111	52891557	52897099	-1	PLAC6, GAGED4	XAGE-3, pp9012, CT12.3a, CT12.3b
9	None	ENSG00000200922	ENST00000364052	misc_RNA	NOVEL	None	None	None	None	74517371	74517466	-1	None	None
11	LRRC56	ENSG00000161328	ENST00000270115	protein_coding	KNOWN	CCDS7700	25430	1629	542	537527	554916	1	None	FLJ00101, DKFZp761L1518
6	EEF1A1P36	ENSG00000223912	ENST00000427807	processed_pseudogene	KNOWN	None	37914	None	None	132593121	132594471	1	None	None
16	PSMD7	ENSG00000103035	ENST00000219313	protein_coding	KNOWN	CCDS10910	9565	975	324	74330673	74340186	1	None	S12, P40, MOV34, Rpn8
16	PSMD7	ENSG00000103035	ENST00000566015	retained_intron	KNOWN	None	9565	None	None	74330713	74334375	1	None	S12, P40, MOV34, Rpn8
16	PSMD7	ENSG00000103035	ENST00000568717	nonsense_mediated_decay	KNOWN	None	9565	132	43	74330718	74339786	1	None	S12, P40, MOV34, Rpn8
16	PSMD7	ENSG00000103035	ENST00000567958	protein_coding	PUTATIVE	None	9565	597	198	74330719	74339411	1	None	S12, P40, MOV34, Rpn8
16	PSMD7	ENSG00000103035	ENST00000568615	protein_coding	PUTATIVE	None	9565	534	177	74330727	74338607	1	None	S12, P40, MOV34, Rpn8
16	PSMD7	ENSG00000103035	ENST00000563150	retained_intron	KNOWN	None	9565	None	None	74337887	74339504	1	None	S12, P40, MOV34, Rpn8
16	PSMD7	ENSG00000103035	ENST00000540379	protein_coding	KNOWN	None	9565	744	247	74330718	74339786	1	None	S12, P40, MOV34, Rpn8
9	None	ENSG00000198100	ENST00000361057	pseudogene	NOVEL	None	None	None	None	74576256	74576469	-1	None	None
5	None	ENSG00000248708	ENST00000511417	lincRNA	KNOWN	None	None	None	None	87008952	87029086	-1	None	None
9	HSPB1P1	ENSG00000236060	ENST00000423240	processed_pseudogene	KNOWN	None	5251	None	None	74622797	74623052	-1	HSPBL2	None
11	CEP164	ENSG00000110274	ENST00000525734	protein_coding	KNOWN	None	29182	347	114	117185273	117222658	1	None	KIAA1052, NPHP15
11	CEP164	ENSG00000110274	ENST00000533153	protein_coding	PUTATIVE	None	29182	474	157	117198566	117233179	1	None	KIAA1052, NPHP15
11	CEP164	ENSG00000110274	ENST00000278935	protein_coding	KNOWN	CCDS31683	29182	4383	1460	117198571	117283984	1	None	KIAA1052, NPHP15
11	CEP164	ENSG00000110274	ENST00000525416	protein_coding	PUTATIVE	None	29182	366	121	117198645	117232661	1	None	KIAA1052, NPHP15
11	CEP164	ENSG00000110274	ENST00000527609	protein_coding	KNOWN	None	29182	364	120	117198801	117222675	1	None	KIAA1052, NPHP15
11	CEP164	ENSG00000110274	ENST00000533570	protein_coding	KNOWN	None	29182	365	120	117198819	117222676	1	None	KIAA1052, NPHP15
11	CEP164	ENSG00000110274	ENST00000533675	retained_intron	KNOWN	None	29182	None	None	117226695	117283059	1	None	KIAA1052, NPHP15
11	CEP164	ENSG00000110274	ENST00000533706	processed_transcript	KNOWN	None	29182	None	None	117234671	117283982	1	None	KIAA1052, NPHP15
11	CEP164	ENSG00000110274	ENST00000529153	retained_intron	KNOWN	None	29182	None	None	117253448	117261774	1	None	KIAA1052, NPHP15
11	CEP164	ENSG00000110274	ENST00000533223	retained_intron	KNOWN	None	29182	None	None	117255313	117281417	1	None	KIAA1052, NPHP15
11	CEP164	ENSG00000110274	ENST00000528706	retained_intron	KNOWN	None	29182	None	None	117279733	117283055	1	None	KIAA1052, NPHP15
11	CEP164	ENSG00000110274	ENST00000532187	retained_intron	KNOWN	None	29182	None	None	117280528	117282580	1	None	KIAA1052, NPHP15
11	CEP164	ENSG00000110274	ENST00000533433	retained_intron	KNOWN	None	29182	None	None	117281828	117283546	1	None	KIAA1052, NPHP15
7	KLHL7	ENSG00000122550	ENST00000479288	processed_transcript	PUTATIVE	None	15646	None	None	23145377	23183520	1	None	KLHL6, SBBI26, RP42
7	KLHL7	ENSG00000122550	ENST00000521082	nonsense_mediated_decay	KNOWN	None	15646	123	40	23145377	23214921	1	None	KLHL6, SBBI26, RP42
7	KLHL7	ENSG00000122550	ENST00000339077	protein_coding	KNOWN	CCDS34609	15646	1761	586	23145403	23215040	1	None	KLHL6, SBBI26, RP42
7	KLHL7	ENSG00000122550	ENST00000322275	protein_coding	NOVEL	CCDS55095	15646	501	166	23145404	23165664	1	None	KLHL6, SBBI26, RP42
7	KLHL7	ENSG00000122550	ENST00000459661	processed_transcript	KNOWN	None	15646	None	None	23145409	23180403	1	None	KLHL6, SBBI26, RP42
7	KLHL7	ENSG00000122550	ENST00000491352	retained_intron	KNOWN	None	15646	None	None	23145736	23164821	1	None	KLHL6, SBBI26, RP42
7	KLHL7	ENSG00000122550	ENST00000409689	protein_coding	KNOWN	CCDS5378	15646	1617	538	23145914	23215007	1	None	KLHL6, SBBI26, RP42
7	KLHL7	ENSG00000122550	ENST00000410047	protein_coding	NOVEL	None	15646	435	144	23145917	23165662	1	None	KLHL6, SBBI26, RP42
7	KLHL7	ENSG00000122550	ENST00000479700	processed_transcript	KNOWN	None	15646	None	None	23146275	23165506	1	None	KLHL6, SBBI26, RP42
7	KLHL7	ENSG00000122550	ENST00000477076	retained_intron	KNOWN	None	15646	None	None	23164599	23165668	1	None	KLHL6, SBBI26, RP42
7	KLHL7	ENSG00000122550	ENST00000414163	protein_coding	PUTATIVE	None	15646	282	93	23183548	23195787	1	None	KLHL6, SBBI26, RP42
7	KLHL7	ENSG00000122550	ENST00000469576	retained_intron	KNOWN	None	15646	None	None	23205494	23207721	1	None	KLHL6, SBBI26, RP42
7	KLHL7	ENSG00000122550	ENST00000469845	retained_intron	KNOWN	None	15646	None	None	23212408	23213811	1	None	KLHL6, SBBI26, RP42
7	KLHL7	ENSG00000122550	ENST00000322231	protein_coding	KNOWN	None	15646	1695	564	23145353	23215036	1	None	KLHL6, SBBI26, RP42
7	KLHL7	ENSG00000122550	ENST00000545443	protein_coding	KNOWN	None	15646	1695	564	23157530	23215036	1	None	KLHL6, SBBI26, RP42
7	KLHL7	ENSG00000122550	ENST00000545771	protein_coding	KNOWN	None	15646	432	143	23146278	23165255	1	None	KLHL6, SBBI26, RP42
7	KLHL7	ENSG00000122550	ENST00000539124	protein_coding	KNOWN	None	15646	1533	510	23145409	23213992	1	None	KLHL6, SBBI26, RP42
7	KLHL7	ENSG00000122550	ENST00000542558	protein_coding	KNOWN	None	15646	1086	361	23145428	23214292	1	None	KLHL6, SBBI26, RP42
5	SLC22A5	ENSG00000197375	ENST00000245407	protein_coding	KNOWN	CCDS4154	10969	1674	557	131705444	131731306	1	CDSP	OCTN2, SCD
5	SLC22A5	ENSG00000197375	ENST00000437841	nonsense_mediated_decay	KNOWN	None	10969	426	141	131705592	131724697	1	CDSP	OCTN2, SCD
5	SLC22A5	ENSG00000197375	ENST00000415928	protein_coding	NOVEL	None	10969	720	239	131705968	131722843	1	CDSP	OCTN2, SCD
5	SLC22A5	ENSG00000197375	ENST00000461013	retained_intron	KNOWN	None	10969	None	None	131711778	131731303	1	CDSP	OCTN2, SCD
5	SLC22A5	ENSG00000197375	ENST00000448810	nonsense_mediated_decay	KNOWN	None	10969	410	135	131721020	131729507	1	CDSP	OCTN2, SCD
5	SLC22A5	ENSG00000197375	ENST00000479605	processed_transcript	KNOWN	None	10969	None	None	131723505	131729375	1	CDSP	OCTN2, SCD
5	SLC22A5	ENSG00000197375	ENST00000447841	nonsense_mediated_decay	KNOWN	None	10969	112	36	131724603	131730444	1	CDSP	OCTN2, SCD
5	SLC22A5	ENSG00000197375	ENST00000475308	retained_intron	KNOWN	None	10969	None	None	131724652	131731305	1	CDSP	OCTN2, SCD
5	SLC22A5	ENSG00000197375	ENST00000435065	protein_coding	KNOWN	None	10969	1746	581	131705665	131729964	1	CDSP	OCTN2, SCD
9	BTF3P4	ENSG00000224820	ENST00000418852	processed_pseudogene	KNOWN	None	38566	None	None	74722734	74723228	-1	None	None
5	None	ENSG00000197071	ENST00000262905	pseudogene	NOVEL	None	None	None	None	87514708	87515080	1	None	None
12	SLC38A4	ENSG00000139209	ENST00000447411	protein_coding	KNOWN	CCDS8750	14679	1644	547	47158546	47219780	-1	None	PAAT, NAT3, ATA3
12	SLC38A4	ENSG00000139209	ENST00000266579	protein_coding	KNOWN	CCDS8750	14679	1644	547	47159799	47219780	-1	None	PAAT, NAT3, ATA3
12	SLC38A4	ENSG00000139209	ENST00000550670	protein_coding	PUTATIVE	None	14679	423	140	47160086	47163087	-1	None	PAAT, NAT3, ATA3
12	SLC38A4	ENSG00000139209	ENST00000547477	protein_coding	KNOWN	None	14679	658	218	47173563	47219768	-1	None	PAAT, NAT3, ATA3
12	SLC38A4	ENSG00000139209	ENST00000546940	protein_coding	KNOWN	None	14679	575	190	47173732	47226191	-1	None	PAAT, NAT3, ATA3
15	VPS18	ENSG00000104142	ENST00000220509	protein_coding	KNOWN	CCDS10069	15972	2922	973	41186628	41196173	1	None	KIAA1475, PEP3
15	VPS18	ENSG00000104142	ENST00000558855	nonsense_mediated_decay	KNOWN	None	15972	393	130	41186650	41191595	1	None	KIAA1475, PEP3
15	VPS18	ENSG00000104142	ENST00000558474	protein_coding	PUTATIVE	None	15972	366	121	41186665	41195059	1	None	KIAA1475, PEP3
3	TAMM41	ENSG00000144559	ENST00000498127	retained_intron	KNOWN	None	25187	None	None	11831916	11851533	-1	C3orf31	MGC16471, DKFZp434E0519
3	TAMM41	ENSG00000144559	ENST00000455809	protein_coding	NOVEL	None	25187	1014	337	11831916	11888246	-1	C3orf31	MGC16471, DKFZp434E0519
3	TAMM41	ENSG00000144559	ENST00000273037	protein_coding	KNOWN	CCDS2607	25187	951	316	11831916	11888393	-1	C3orf31	MGC16471, DKFZp434E0519
3	TAMM41	ENSG00000144559	ENST00000457498	nonsense_mediated_decay	KNOWN	None	25187	456	151	11831920	11888355	-1	C3orf31	MGC16471, DKFZp434E0519
3	TAMM41	ENSG00000144559	ENST00000486090	retained_intron	KNOWN	None	25187	None	None	11831922	11853033	-1	C3orf31	MGC16471, DKFZp434E0519
3	TAMM41	ENSG00000144559	ENST00000414736	nonsense_mediated_decay	KNOWN	None	25187	167	54	11832017	11858811	-1	C3orf31	MGC16471, DKFZp434E0519
3	TAMM41	ENSG00000144559	ENST00000444133	protein_coding	PUTATIVE	None	25187	1359	452	11848768	11888253	-1	C3orf31	MGC16471, DKFZp434E0519
3	TAMM41	ENSG00000144559	ENST00000460246	retained_intron	KNOWN	None	25187	None	None	11858562	11871384	-1	C3orf31	MGC16471, DKFZp434E0519
3	TAMM41	ENSG00000144559	ENST00000411947	nonsense_mediated_decay	KNOWN	None	25187	456	151	11871230	11888366	-1	C3orf31	MGC16471, DKFZp434E0519
3	TAMM41	ENSG00000144559	ENST00000417723	nonsense_mediated_decay	KNOWN	None	25187	324	107	11874500	11888359	-1	C3orf31	MGC16471, DKFZp434E0519
3	TAMM41	ENSG00000144559	ENST00000494388	retained_intron	KNOWN	None	25187	None	None	11885013	11888338	-1	C3orf31	MGC16471, DKFZp434E0519
5	None	ENSG00000248103	ENST00000412295	lincRNA	KNOWN	None	None	None	None	180708376	180710653	1	None	None
6	None	ENSG00000235815	ENST00000436492	lincRNA	KNOWN	None	None	None	None	169116745	169123604	1	None	None
13	BIVM-ERCC5	ENSG00000270181	ENST00000602836	protein_coding	PUTATIVE	None	43690	4155	1384	103459704	103524748	1	None	None
5	RNU6-705P	ENSG00000222533	ENST00000410601	snRNA	KNOWN	None	47668	None	None	180728968	180729071	1	None	None
1	SLC30A2	ENSG00000158014	ENST00000374278	protein_coding	KNOWN	CCDS272	11013	972	323	26363743	26372604	-1	ZNT2	None
1	SLC30A2	ENSG00000158014	ENST00000374276	protein_coding	KNOWN	CCDS30644	11013	1119	372	26364513	26372624	-1	ZNT2	None
1	SLC30A2	ENSG00000158014	ENST00000498060	processed_transcript	KNOWN	None	11013	None	None	26369930	26371942	-1	ZNT2	None
6	None	ENSG00000225879	ENST00000444586	lincRNA	KNOWN	None	None	None	None	169362705	169364436	-1	None	None
4	INTU	ENSG00000164066	ENST00000504491	protein_coding	PUTATIVE	None	29239	605	200	128544426	128565191	1	PDZK6, PDZD6	KIAA1284
4	INTU	ENSG00000164066	ENST00000335251	protein_coding	KNOWN	CCDS34061	29239	2829	942	128554087	128637800	1	PDZK6, PDZD6	KIAA1284
4	INTU	ENSG00000164066	ENST00000503626	nonsense_mediated_decay	KNOWN	None	29239	1227	408	128554112	128637930	1	PDZK6, PDZD6	KIAA1284
4	INTU	ENSG00000164066	ENST00000503952	nonsense_mediated_decay	KNOWN	None	29239	1308	435	128554121	128637634	1	PDZK6, PDZD6	KIAA1284
4	INTU	ENSG00000164066	ENST00000504276	retained_intron	KNOWN	None	29239	None	None	128595309	128607105	1	PDZK6, PDZD6	KIAA1284
4	INTU	ENSG00000164066	ENST00000506283	protein_coding	PUTATIVE	None	29239	290	95	128608969	128626927	1	PDZK6, PDZD6	KIAA1284
4	INTU	ENSG00000164066	ENST00000512995	processed_transcript	KNOWN	None	29239	None	None	128620412	128627698	1	PDZK6, PDZD6	KIAA1284
4	INTU	ENSG00000164066	ENST00000510766	nonsense_mediated_decay	KNOWN	None	29239	280	92	128627959	128637540	1	PDZK6, PDZD6	KIAA1284
4	INTU	ENSG00000164066	ENST00000296461	protein_coding	KNOWN	None	29239	1227	408	128554120	128597105	1	PDZK6, PDZD6	KIAA1284
11	MMP7	ENSG00000137673	ENST00000260227	protein_coding	KNOWN	CCDS8317	7174	804	267	102391239	102401484	-1	MPSL1	PUMP-1
11	MMP7	ENSG00000137673	ENST00000533366	retained_intron	KNOWN	None	7174	None	None	102395007	102401481	-1	MPSL1	PUMP-1
11	MMP7	ENSG00000137673	ENST00000531200	retained_intron	KNOWN	None	7174	None	None	102397717	102401478	-1	MPSL1	PUMP-1
11	KCNC1	ENSG00000129159	ENST00000265969	protein_coding	KNOWN	CCDS44547	6233	1758	585	17756359	17804219	1	None	Kv3.1
11	KCNC1	ENSG00000129159	ENST00000379472	protein_coding	KNOWN	CCDS7827	6233	1536	511	17757520	17799377	1	None	Kv3.1
11	KCNC1	ENSG00000129159	ENST00000525802	processed_transcript	PUTATIVE	None	6233	None	None	17795098	17801247	1	None	Kv3.1
11	KCNC1	ENSG00000129159	ENST00000526029	retained_intron	KNOWN	None	6233	None	None	17800719	17804602	1	None	Kv3.1
14	CBLN3	ENSG00000139899	ENST00000267406	protein_coding	KNOWN	CCDS32057	20146	618	205	24895738	24898731	-1	None	None
14	CBLN3	ENSG00000139899	ENST00000555436	protein_coding	PUTATIVE	None	20146	465	154	24896811	24900160	-1	None	None
5	None	ENSG00000238035	ENST00000499986	lincRNA	KNOWN	None	None	None	None	180733503	180751131	1	None	None
5	None	ENSG00000238035	ENST00000604669	lincRNA	KNOWN	None	None	None	None	180743326	180748817	1	None	None
5	None	ENSG00000238035	ENST00000604354	lincRNA	KNOWN	None	None	None	None	180743369	180751686	1	None	None
5	None	ENSG00000238035	ENST00000457364	lincRNA	KNOWN	None	None	None	None	180751371	180755068	1	None	None
7	TRIL	ENSG00000176734	ENST00000322982	processed_transcript	KNOWN	None	22200	None	None	28992974	28997934	-1	None	KIAA0644
6	None	ENSG00000269966	ENST00000602823	lincRNA	KNOWN	None	None	None	None	72004876	72127139	-1	None	None
6	None	ENSG00000229720	ENST00000419800	lincRNA	KNOWN	None	None	None	None	169434292	169435737	-1	None	None
5	TMEM161B-AS1	ENSG00000247828	ENST00000513011	antisense	KNOWN	None	43839	None	None	87564712	87567042	1	None	linc-POLR3G-8
5	TMEM161B-AS1	ENSG00000247828	ENST00000504922	antisense	KNOWN	None	43839	None	None	87564733	87732502	1	None	linc-POLR3G-8
5	TMEM161B-AS1	ENSG00000247828	ENST00000501869	antisense	KNOWN	None	43839	None	None	87564755	87732501	1	None	linc-POLR3G-8
5	TMEM161B-AS1	ENSG00000247828	ENST00000504769	antisense	KNOWN	None	43839	None	None	87564841	87581884	1	None	linc-POLR3G-8
5	TMEM161B-AS1	ENSG00000247828	ENST00000501715	antisense	KNOWN	None	43839	None	None	87564841	87732491	1	None	linc-POLR3G-8
5	TMEM161B-AS1	ENSG00000247828	ENST00000496733	antisense	KNOWN	None	43839	None	None	87564856	87572039	1	None	linc-POLR3G-8
5	TMEM161B-AS1	ENSG00000247828	ENST00000510087	antisense	KNOWN	None	43839	None	None	87564859	87732419	1	None	linc-POLR3G-8
5	TMEM161B-AS1	ENSG00000247828	ENST00000504636	antisense	KNOWN	None	43839	None	None	87564861	87566247	1	None	linc-POLR3G-8
5	TMEM161B-AS1	ENSG00000247828	ENST00000506584	antisense	KNOWN	None	43839	None	None	87564864	87583473	1	None	linc-POLR3G-8
5	TMEM161B-AS1	ENSG00000247828	ENST00000512724	antisense	KNOWN	None	43839	None	None	87564867	87588572	1	None	linc-POLR3G-8
5	TMEM161B-AS1	ENSG00000247828	ENST00000507736	antisense	KNOWN	None	43839	None	None	87566323	87583474	1	None	linc-POLR3G-8
5	TMEM161B-AS1	ENSG00000247828	ENST00000508015	antisense	KNOWN	None	43839	None	None	87688012	87713308	1	None	linc-POLR3G-8
5	TMEM161B-AS1	ENSG00000247828	ENST00000513694	antisense	KNOWN	None	43839	None	None	87722512	87732183	1	None	linc-POLR3G-8
X	MBTPS2	ENSG00000012174	ENST00000465888	processed_transcript	KNOWN	None	15455	None	None	21857754	21875711	1	None	S2P
X	MBTPS2	ENSG00000012174	ENST00000379484	protein_coding	KNOWN	CCDS14201	15455	1560	519	21857754	21903542	1	None	S2P
X	MBTPS2	ENSG00000012174	ENST00000365779	protein_coding	KNOWN	None	15455	993	330	21857772	21891202	1	None	S2P
21	MCM3AP	ENSG00000160294	ENST00000467026	processed_transcript	PUTATIVE	None	6946	None	None	47655047	47679179	-1	None	Map80, KIAA0572, GANP, SAC3
21	MCM3AP	ENSG00000160294	ENST00000496607	retained_intron	KNOWN	None	6946	None	None	47655047	47686866	-1	None	Map80, KIAA0572, GANP, SAC3
21	MCM3AP	ENSG00000160294	ENST00000486937	retained_intron	KNOWN	None	6946	None	None	47655047	47687976	-1	None	Map80, KIAA0572, GANP, SAC3
21	MCM3AP	ENSG00000160294	ENST00000397708	protein_coding	KNOWN	CCDS13734	6946	5943	1980	47655047	47706211	-1	None	Map80, KIAA0572, GANP, SAC3
21	MCM3AP	ENSG00000160294	ENST00000481113	processed_transcript	PUTATIVE	None	6946	None	None	47671429	47676900	-1	None	Map80, KIAA0572, GANP, SAC3
21	MCM3AP	ENSG00000160294	ENST00000494755	retained_intron	KNOWN	None	6946	None	None	47676390	47679010	-1	None	Map80, KIAA0572, GANP, SAC3
21	MCM3AP	ENSG00000160294	ENST00000479557	processed_transcript	KNOWN	None	6946	None	None	47690177	47692537	-1	None	Map80, KIAA0572, GANP, SAC3
21	MCM3AP	ENSG00000160294	ENST00000426537	protein_coding	KNOWN	None	6946	282	93	47704919	47706098	-1	None	Map80, KIAA0572, GANP, SAC3
21	MCM3AP	ENSG00000160294	ENST00000495475	processed_transcript	KNOWN	None	6946	None	None	47705205	47705811	-1	None	Map80, KIAA0572, GANP, SAC3
21	MCM3AP	ENSG00000160294	ENST00000291688	protein_coding	KNOWN	CCDS13734	6946	5943	1980	47655048	47705236	-1	None	Map80, KIAA0572, GANP, SAC3
6	None	ENSG00000234519	ENST00000413324	lincRNA	KNOWN	None	None	None	None	169467913	169469511	1	None	None
6	None	ENSG00000234519	ENST00000435377	lincRNA	KNOWN	None	None	None	None	169467994	169469519	1	None	None
6	None	ENSG00000230597	ENST00000456795	lincRNA	KNOWN	None	None	None	None	72038645	72039509	1	None	None
19	CLEC4GP1	ENSG00000268297	ENST00000596555	unprocessed_pseudogene	KNOWN	None	33502	None	None	7852435	7855507	1	None	None
17	KRT27	ENSG00000171446	ENST00000540723	processed_transcript	KNOWN	None	30841	None	None	38933060	38934272	-1	KRT25C	None
17	KRT27	ENSG00000171446	ENST00000301656	protein_coding	KNOWN	CCDS11375	30841	1380	459	38933060	38938786	-1	KRT25C	None
6	None	ENSG00000223485	ENST00000439703	lincRNA	KNOWN	None	None	None	None	169558187	169563019	-1	None	None
6	None	ENSG00000223485	ENST00000449466	lincRNA	KNOWN	None	None	None	None	169558356	169562396	-1	None	None
2	TUBA3E	ENSG00000152086	ENST00000312988	protein_coding	KNOWN	CCDS2158	20765	1353	450	130949318	130956034	-1	None	None
4	None	ENSG00000248824	ENST00000508073	unprocessed_pseudogene	KNOWN	None	None	None	None	70272649	70273373	1	None	None
19	EXOSC3P2	ENSG00000269763	ENST00000594464	processed_pseudogene	KNOWN	None	33990	None	None	7878501	7879311	-1	None	None
6	LINC00472	ENSG00000233237	ENST00000413945	lincRNA	KNOWN	None	21380	None	None	72054047	72129806	-1	C6orf155	dJ288M22.3, FLJ13189
6	LINC00472	ENSG00000233237	ENST00000436803	lincRNA	KNOWN	None	21380	None	None	72054289	72129969	-1	C6orf155	dJ288M22.3, FLJ13189
6	LINC00472	ENSG00000233237	ENST00000426635	lincRNA	KNOWN	None	21380	None	None	72124148	72130472	-1	C6orf155	dJ288M22.3, FLJ13189
6	LINC00472	ENSG00000233237	ENST00000602878	lincRNA	KNOWN	None	21380	None	None	72125866	72129964	-1	C6orf155	dJ288M22.3, FLJ13189
6	LINC00472	ENSG00000233237	ENST00000421704	lincRNA	KNOWN	None	21380	None	None	72126087	72129970	-1	C6orf155	dJ288M22.3, FLJ13189
6	LINC00472	ENSG00000233237	ENST00000441570	lincRNA	KNOWN	None	21380	None	None	72126180	72129970	-1	C6orf155	dJ288M22.3, FLJ13189
6	WDR46	ENSG00000227057	ENST00000473611	retained_intron	KNOWN	None	13923	None	None	33246885	33248628	-1	C6orf11	BING4, UTP7
6	WDR46	ENSG00000227057	ENST00000461951	processed_transcript	KNOWN	None	13923	None	None	33246885	33248688	-1	C6orf11	BING4, UTP7
6	WDR46	ENSG00000227057	ENST00000374617	protein_coding	KNOWN	CCDS4772	13923	1833	610	33246885	33257304	-1	C6orf11	BING4, UTP7
6	WDR46	ENSG00000227057	ENST00000489905	retained_intron	KNOWN	None	13923	None	None	33247348	33255206	-1	C6orf11	BING4, UTP7
6	WDR46	ENSG00000227057	ENST00000444176	protein_coding	KNOWN	None	13923	968	321	33248693	33256664	-1	C6orf11	BING4, UTP7
6	WDR46	ENSG00000227057	ENST00000488944	retained_intron	KNOWN	None	13923	None	None	33255020	33255803	-1	C6orf11	BING4, UTP7
6	WDR46	ENSG00000227057	ENST00000477718	processed_transcript	KNOWN	None	13923	None	None	33255269	33257024	-1	C6orf11	BING4, UTP7
6	WDR46	ENSG00000227057	ENST00000468157	processed_transcript	KNOWN	None	13923	None	None	33255441	33256979	-1	C6orf11	BING4, UTP7
6	WDR46	ENSG00000227057	ENST00000481025	retained_intron	KNOWN	None	13923	None	None	33255833	33256789	-1	C6orf11	BING4, UTP7
16	None	ENSG00000260158	ENST00000569859	lincRNA	KNOWN	None	None	None	None	32820877	32835966	1	None	None
6	None	ENSG00000261039	ENST00000564830	lincRNA	KNOWN	None	None	None	None	169575401	169582835	-1	None	None
4	None	ENSG00000249956	ENST00000514441	processed_pseudogene	KNOWN	None	None	None	None	70274554	70288882	1	None	None
19	None	ENSG00000268120	ENST00000597156	lincRNA	KNOWN	None	None	None	None	7935447	7936182	1	None	None
6	None	ENSG00000226445	ENST00000444188	antisense	KNOWN	None	None	None	None	169613349	169639660	1	None	None
16	None	ENSG00000261719	ENST00000561729	processed_pseudogene	KNOWN	None	None	None	None	32822350	32822572	-1	None	None
16	None	ENSG00000259934	ENST00000569753	processed_pseudogene	KNOWN	None	None	None	None	32857285	32857501	-1	None	None
19	None	ENSG00000269153	ENST00000600506	processed_pseudogene	KNOWN	None	None	None	None	7944330	7945005	-1	None	None
16	None	ENSG00000260047	ENST00000563143	unprocessed_pseudogene	KNOWN	None	None	None	None	32881306	32883370	1	None	None
2	NEU4	ENSG00000204099	ENST00000407683	protein_coding	KNOWN	CCDS54442	21328	1455	484	242749920	242758739	1	None	None
2	NEU4	ENSG00000204099	ENST00000415936	protein_coding	PUTATIVE	None	21328	644	213	242750160	242757819	1	None	None
2	NEU4	ENSG00000204099	ENST00000405370	protein_coding	KNOWN	CCDS54442	21328	1455	484	242750282	242758732	1	None	None
2	NEU4	ENSG00000204099	ENST00000476542	retained_intron	KNOWN	None	21328	None	None	242750288	242756129	1	None	None
2	NEU4	ENSG00000204099	ENST00000435855	nonsense_mediated_decay	KNOWN	None	21328	477	158	242750288	242758734	1	None	None
2	NEU4	ENSG00000204099	ENST00000406147	retained_intron	KNOWN	None	21328	None	None	242750288	242758735	1	None	None
2	NEU4	ENSG00000204099	ENST00000423583	protein_coding	KNOWN	None	21328	566	187	242750330	242757485	1	None	None
2	NEU4	ENSG00000204099	ENST00000404257	protein_coding	KNOWN	CCDS2553	21328	1491	496	242752027	242758738	1	None	None
2	NEU4	ENSG00000204099	ENST00000391969	protein_coding	KNOWN	CCDS54442	21328	1455	484	242752030	242758734	1	None	None
2	NEU4	ENSG00000204099	ENST00000325935	protein_coding	KNOWN	CCDS54441	21328	1494	497	242752095	242758739	1	None	None
2	NEU4	ENSG00000204099	ENST00000435934	protein_coding	PUTATIVE	None	21328	156	51	242752485	242755720	1	None	None
2	NEU4	ENSG00000204099	ENST00000435894	protein_coding	PUTATIVE	None	21328	231	76	242752491	242756118	1	None	None
2	NEU4	ENSG00000204099	ENST00000426032	protein_coding	PUTATIVE	None	21328	643	213	242752491	242757782	1	None	None
2	NEU4	ENSG00000204099	ENST00000420288	protein_coding	KNOWN	None	21328	781	259	242752492	242757700	1	None	None
2	NEU4	ENSG00000204099	ENST00000494678	retained_intron	KNOWN	None	21328	None	None	242752504	242754908	1	None	None
2	NEU4	ENSG00000204099	ENST00000488997	retained_intron	KNOWN	None	21328	None	None	242752520	242756179	1	None	None
2	NEU4	ENSG00000204099	ENST00000428592	protein_coding	PUTATIVE	None	21328	433	143	242755214	242756197	1	None	None
6	None	ENSG00000233085	ENST00000457833	lincRNA	KNOWN	None	None	None	None	169686629	169687571	-1	None	None
6	None	ENSG00000233085	ENST00000435612	lincRNA	KNOWN	None	None	None	None	169686629	169689311	-1	None	None
6	LINC00243	ENSG00000214894	ENST00000419357	processed_transcript	KNOWN	None	30956	None	None	30766431	30798436	-1	C6orf214, NCRNA00243	bQB230F21.2, FLJ40693, bQB10J12.2
6	LINC00243	ENSG00000214894	ENST00000399196	processed_transcript	KNOWN	None	30956	None	None	30780643	30798436	-1	C6orf214, NCRNA00243	bQB230F21.2, FLJ40693, bQB10J12.2
19	RNA5SP463	ENSG00000199900	ENST00000363030	rRNA	KNOWN	None	43363	None	None	7951862	7951981	-1	RN5S463	None
9	None	ENSG00000235523	ENST00000427901	lincRNA	KNOWN	None	None	None	None	74872252	74872699	1	None	None
19	RN7SL115P	ENSG00000264166	ENST00000392196	misc_RNA	KNOWN	None	46131	None	None	7967148	7967416	-1	None	None
1	CENPL	ENSG00000120334	ENST00000356198	protein_coding	KNOWN	CCDS44277	17879	1173	390	173768688	173793460	-1	C1orf155	dJ383J4.3, FLJ31044
1	CENPL	ENSG00000120334	ENST00000345664	protein_coding	KNOWN	CCDS30938	17879	1035	344	173768988	173793270	-1	C1orf155	dJ383J4.3, FLJ31044
1	CENPL	ENSG00000120334	ENST00000367710	protein_coding	KNOWN	CCDS30938	17879	1035	344	173768988	173793312	-1	C1orf155	dJ383J4.3, FLJ31044
1	CENPL	ENSG00000120334	ENST00000496683	processed_transcript	KNOWN	None	17879	None	None	173769466	173793269	-1	C1orf155	dJ383J4.3, FLJ31044
1	CENPL	ENSG00000120334	ENST00000460816	processed_transcript	KNOWN	None	17879	None	None	173769550	173793473	-1	C1orf155	dJ383J4.3, FLJ31044
1	CENPL	ENSG00000120334	ENST00000484920	processed_transcript	KNOWN	None	17879	None	None	173772101	173793157	-1	C1orf155	dJ383J4.3, FLJ31044
1	CENPL	ENSG00000120334	ENST00000479159	processed_transcript	KNOWN	None	17879	None	None	173772584	173793858	-1	C1orf155	dJ383J4.3, FLJ31044
1	CENPL	ENSG00000120334	ENST00000493233	processed_transcript	KNOWN	None	17879	None	None	173780258	173793283	-1	C1orf155	dJ383J4.3, FLJ31044
1	CENPL	ENSG00000120334	ENST00000495275	processed_transcript	KNOWN	None	17879	None	None	173790947	173793611	-1	C1orf155	dJ383J4.3, FLJ31044
19	None	ENSG00000268149	ENST00000595655	antisense	KNOWN	None	None	None	None	7977533	7978403	-1	None	None
9	None	ENSG00000233933	ENST00000446146	processed_pseudogene	KNOWN	None	None	None	None	74890369	74890889	1	None	None
11	CCDC85B	ENSG00000175602	ENST00000312579	protein_coding	KNOWN	CCDS8120	24926	609	202	65657875	65659105	1	None	DIPA
12	POLE	ENSG00000177084	ENST00000541627	retained_intron	KNOWN	None	9177	None	None	133200348	133202537	-1	None	POLE1
12	POLE	ENSG00000177084	ENST00000320574	protein_coding	KNOWN	CCDS9278	9177	6861	2286	133200348	133263945	-1	None	POLE1
12	POLE	ENSG00000177084	ENST00000537064	nonsense_mediated_decay	KNOWN	None	9177	933	310	133200849	133263933	-1	None	POLE1
12	POLE	ENSG00000177084	ENST00000534922	retained_intron	KNOWN	None	9177	None	None	133201141	133209143	-1	None	POLE1
12	POLE	ENSG00000177084	ENST00000535270	protein_coding	NOVEL	None	9177	6780	2259	133201276	133263914	-1	None	POLE1
12	POLE	ENSG00000177084	ENST00000544692	retained_intron	KNOWN	None	9177	None	None	133201292	133210754	-1	None	POLE1
12	POLE	ENSG00000177084	ENST00000538196	processed_transcript	KNOWN	None	9177	None	None	133201884	133209002	-1	None	POLE1
12	POLE	ENSG00000177084	ENST00000543516	retained_intron	KNOWN	None	9177	None	None	133201980	133202860	-1	None	POLE1
12	POLE	ENSG00000177084	ENST00000544870	processed_transcript	KNOWN	None	9177	None	None	133202853	133212586	-1	None	POLE1
12	POLE	ENSG00000177084	ENST00000441786	processed_transcript	KNOWN	None	9177	None	None	133208898	133212578	-1	None	POLE1
12	POLE	ENSG00000177084	ENST00000541213	retained_intron	KNOWN	None	9177	None	None	133209034	133215755	-1	None	POLE1
12	POLE	ENSG00000177084	ENST00000544414	retained_intron	KNOWN	None	9177	None	None	133209094	133212571	-1	None	POLE1
12	POLE	ENSG00000177084	ENST00000416953	retained_intron	KNOWN	None	9177	None	None	133210557	133212611	-1	None	POLE1
12	POLE	ENSG00000177084	ENST00000434528	processed_transcript	KNOWN	None	9177	None	None	133210951	133217964	-1	None	POLE1
12	POLE	ENSG00000177084	ENST00000542362	retained_intron	KNOWN	None	9177	None	None	133217960	133218792	-1	None	POLE1
12	POLE	ENSG00000177084	ENST00000540987	retained_intron	KNOWN	None	9177	None	None	133225132	133225951	-1	None	POLE1
12	POLE	ENSG00000177084	ENST00000539006	protein_coding	PUTATIVE	None	9177	3491	1162	133225513	133254307	-1	None	POLE1
12	POLE	ENSG00000177084	ENST00000536445	protein_coding	PUTATIVE	None	9177	921	306	133225907	133237499	-1	None	POLE1
12	POLE	ENSG00000177084	ENST00000503265	protein_coding	PUTATIVE	None	9177	370	122	133225939	133227993	-1	None	POLE1
12	POLE	ENSG00000177084	ENST00000539215	retained_intron	KNOWN	None	9177	None	None	133248867	133250227	-1	None	POLE1
12	POLE	ENSG00000177084	ENST00000545015	retained_intron	KNOWN	None	9177	None	None	133249130	133249819	-1	None	POLE1
12	POLE	ENSG00000177084	ENST00000535934	protein_coding	PUTATIVE	None	9177	540	179	133249213	133253084	-1	None	POLE1
12	POLE	ENSG00000177084	ENST00000539618	processed_transcript	KNOWN	None	9177	None	None	133257117	133257865	-1	None	POLE1
12	POLE	ENSG00000177084	ENST00000539357	retained_intron	KNOWN	None	9177	None	None	133257614	133263951	-1	None	POLE1
7	None	ENSG00000228421	ENST00000436594	lincRNA	KNOWN	None	None	None	None	28997283	28998961	1	None	None
4	None	ENSG00000248155	ENST00000511554	unprocessed_pseudogene	KNOWN	None	None	None	None	2609597	2609873	-1	None	None
X	MIR4769	ENSG00000263858	ENST00000584126	miRNA	KNOWN	None	41694	None	None	47446828	47446904	1	None	hsa-mir-4769
19	LIG1	ENSG00000105486	ENST00000263274	protein_coding	KNOWN	CCDS12711	6598	2760	919	48618702	48673860	-1	None	None
19	LIG1	ENSG00000105486	ENST00000597146	retained_intron	KNOWN	None	6598	None	None	48618703	48619431	-1	None	None
19	LIG1	ENSG00000105486	ENST00000599322	retained_intron	KNOWN	None	6598	None	None	48618706	48621137	-1	None	None
19	LIG1	ENSG00000105486	ENST00000594759	nonsense_mediated_decay	KNOWN	None	6598	2403	800	48618707	48673583	-1	None	None
19	LIG1	ENSG00000105486	ENST00000427526	protein_coding	NOVEL	None	6598	2667	888	48618707	48673601	-1	None	None
19	LIG1	ENSG00000105486	ENST00000594067	retained_intron	KNOWN	None	6598	None	None	48618725	48657304	-1	None	None
19	LIG1	ENSG00000105486	ENST00000601091	nonsense_mediated_decay	KNOWN	None	6598	2406	801	48618781	48673509	-1	None	None
19	LIG1	ENSG00000105486	ENST00000596672	nonsense_mediated_decay	KNOWN	None	6598	110	35	48624454	48638979	-1	None	None
19	LIG1	ENSG00000105486	ENST00000596332	retained_intron	KNOWN	None	6598	None	None	48624529	48626880	-1	None	None
19	LIG1	ENSG00000105486	ENST00000596457	retained_intron	KNOWN	None	6598	None	None	48630534	48636751	-1	None	None
19	LIG1	ENSG00000105486	ENST00000597901	retained_intron	KNOWN	None	6598	None	None	48639011	48641148	-1	None	None
19	LIG1	ENSG00000105486	ENST00000542460	nonsense_mediated_decay	KNOWN	None	6598	1248	415	48639301	48673579	-1	None	None
19	LIG1	ENSG00000105486	ENST00000595758	retained_intron	KNOWN	None	6598	None	None	48653060	48657464	-1	None	None
19	LIG1	ENSG00000105486	ENST00000596104	processed_transcript	KNOWN	None	6598	None	None	48653067	48657821	-1	None	None
19	LIG1	ENSG00000105486	ENST00000599165	processed_transcript	KNOWN	None	6598	None	None	48653083	48673586	-1	None	None
19	LIG1	ENSG00000105486	ENST00000596549	protein_coding	NOVEL	None	6598	449	148	48653389	48673571	-1	None	None
19	LIG1	ENSG00000105486	ENST00000593425	protein_coding	KNOWN	None	6598	437	144	48657158	48672946	-1	None	None
19	LIG1	ENSG00000105486	ENST00000600055	retained_intron	KNOWN	None	6598	None	None	48664431	48673601	-1	None	None
19	LIG1	ENSG00000105486	ENST00000598938	protein_coding	KNOWN	None	6598	85	27	48665541	48673465	-1	None	None
19	LIG1	ENSG00000105486	ENST00000536218	protein_coding	KNOWN	None	6598	2556	851	48618707	48673571	-1	None	None
19	None	ENSG00000260500	ENST00000564226	antisense	KNOWN	None	None	None	None	7983537	7984042	-1	None	None
X	None	ENSG00000267064	ENST00000591832	antisense	KNOWN	None	None	None	None	47518232	47519510	1	None	None
X	None	ENSG00000267064	ENST00000590504	antisense	KNOWN	None	None	None	None	47518252	47519776	1	None	None
19	S1PR5	ENSG00000180739	ENST00000333430	protein_coding	KNOWN	CCDS12240	14299	1197	398	10623623	10628126	-1	EDG8	Edg-8
19	S1PR5	ENSG00000180739	ENST00000439028	protein_coding	KNOWN	CCDS12240	14299	1197	398	10623623	10628607	-1	EDG8	Edg-8
19	S1PR5	ENSG00000180739	ENST00000590601	protein_coding	PUTATIVE	None	14299	226	74	10625528	10628103	-1	EDG8	Edg-8
19	None	ENSG00000269139	ENST00000594308	antisense	KNOWN	None	None	None	None	7990886	7991648	1	None	None
7	KMT2E	ENSG00000005483	ENST00000311117	protein_coding	KNOWN	CCDS34723	18541	5577	1858	104654626	104754532	1	MLL5	HDCMC04P
7	KMT2E	ENSG00000005483	ENST00000334884	nonsense_mediated_decay	KNOWN	None	18541	2598	865	104654637	104754808	1	MLL5	HDCMC04P
7	KMT2E	ENSG00000005483	ENST00000478990	protein_coding	NOVEL	None	18541	1056	351	104654653	104730579	1	MLL5	HDCMC04P
7	KMT2E	ENSG00000005483	ENST00000480368	processed_transcript	KNOWN	None	18541	None	None	104654654	104681303	1	MLL5	HDCMC04P
7	KMT2E	ENSG00000005483	ENST00000495267	protein_coding	KNOWN	None	18541	691	229	104654655	104715224	1	MLL5	HDCMC04P
7	KMT2E	ENSG00000005483	ENST00000476671	protein_coding	KNOWN	None	18541	1830	609	104654665	104732053	1	MLL5	HDCMC04P
7	KMT2E	ENSG00000005483	ENST00000474203	protein_coding	KNOWN	None	18541	213	70	104654908	104703824	1	MLL5	HDCMC04P
7	KMT2E	ENSG00000005483	ENST00000482560	nonsense_mediated_decay	KNOWN	None	18541	435	144	104678573	104730579	1	MLL5	HDCMC04P
7	KMT2E	ENSG00000005483	ENST00000485619	retained_intron	KNOWN	None	18541	None	None	104702365	104703833	1	MLL5	HDCMC04P
7	KMT2E	ENSG00000005483	ENST00000468607	retained_intron	KNOWN	None	18541	None	None	104702645	104704274	1	MLL5	HDCMC04P
7	KMT2E	ENSG00000005483	ENST00000496191	retained_intron	KNOWN	None	18541	None	None	104717563	104718255	1	MLL5	HDCMC04P
7	KMT2E	ENSG00000005483	ENST00000479838	protein_coding	PUTATIVE	None	18541	434	143	104741918	104743096	1	MLL5	HDCMC04P
7	KMT2E	ENSG00000005483	ENST00000478079	nonsense_mediated_decay	KNOWN	None	18541	65	20	104748347	104751003	1	MLL5	HDCMC04P
7	KMT2E	ENSG00000005483	ENST00000473063	protein_coding	KNOWN	None	18541	375	124	104749487	104751314	1	MLL5	HDCMC04P
7	KMT2E	ENSG00000005483	ENST00000334877	protein_coding	KNOWN	None	18541	5451	1816	104654637	104754808	1	MLL5	HDCMC04P
7	KMT2E	ENSG00000005483	ENST00000257745	protein_coding	KNOWN	CCDS34723	18541	5577	1858	104654637	104754531	1	MLL5	HDCMC04P
7	KMT2E	ENSG00000005483	ENST00000334914	protein_coding	KNOWN	None	18541	1770	589	104654637	104752927	1	MLL5	HDCMC04P
X	FAM156B	ENSG00000179304	ENST00000452154	protein_coding	KNOWN	CCDS43957	31962	642	213	52920336	52937089	1	TMEM29B	None
X	FAM156B	ENSG00000179304	ENST00000414788	processed_transcript	KNOWN	None	31962	None	None	52920646	52929617	1	TMEM29B	None
X	FAM156B	ENSG00000179304	ENST00000458697	processed_transcript	KNOWN	None	31962	None	None	52925995	52929686	1	TMEM29B	None
X	FAM156B	ENSG00000179304	ENST00000430150	protein_coding	KNOWN	CCDS43957	31962	642	213	52926322	52937587	1	TMEM29B	None
X	FAM156B	ENSG00000179304	ENST00000452021	protein_coding	KNOWN	CCDS43957	31962	642	213	52926351	52937562	1	TMEM29B	None
X	FAM156B	ENSG00000179304	ENST00000412319	protein_coding	KNOWN	CCDS43957	31962	642	213	52926426	52937587	1	TMEM29B	None
X	FAM156B	ENSG00000179304	ENST00000416841	protein_coding	KNOWN	CCDS43957	31962	642	213	52927576	52937587	1	TMEM29B	None
X	FAM156B	ENSG00000179304	ENST00000509613	protein_coding	KNOWN	CCDS43957	31962	642	213	52928409	52937587	1	TMEM29B	None
4	None	ENSG00000206738	ENST00000384011	misc_RNA	NOVEL	None	None	None	None	2616851	2616951	-1	None	None
10	SVIL	ENSG00000197321	ENST00000375400	protein_coding	KNOWN	CCDS7163	11480	5367	1788	29746267	30024733	-1	None	None
10	SVIL	ENSG00000197321	ENST00000355867	protein_coding	KNOWN	CCDS7164	11480	6645	2214	29746988	29923901	-1	None	None
10	SVIL	ENSG00000197321	ENST00000460007	processed_transcript	KNOWN	None	11480	None	None	29762463	29770584	-1	None	None
10	SVIL	ENSG00000197321	ENST00000482607	processed_transcript	KNOWN	None	11480	None	None	29773616	29775236	-1	None	None
10	SVIL	ENSG00000197321	ENST00000474106	processed_transcript	KNOWN	None	11480	None	None	29779776	29785419	-1	None	None
10	SVIL	ENSG00000197321	ENST00000491872	processed_transcript	KNOWN	None	11480	None	None	29783909	29797465	-1	None	None
10	SVIL	ENSG00000197321	ENST00000464984	processed_transcript	KNOWN	None	11480	None	None	29796960	29811497	-1	None	None
10	SVIL	ENSG00000197321	ENST00000483758	processed_transcript	KNOWN	None	11480	None	None	29844019	29936184	-1	None	None
10	SVIL	ENSG00000197321	ENST00000464726	processed_transcript	KNOWN	None	11480	None	None	29946799	29975569	-1	None	None
10	SVIL	ENSG00000197321	ENST00000490031	processed_transcript	KNOWN	None	11480	None	None	29959911	29975551	-1	None	None
10	SVIL	ENSG00000197321	ENST00000465422	processed_transcript	KNOWN	None	11480	None	None	29975482	30025710	-1	None	None
10	SVIL	ENSG00000197321	ENST00000375398	protein_coding	KNOWN	CCDS7164	11480	6645	2214	29746277	30024730	-1	None	None
10	SVIL	ENSG00000197321	ENST00000535393	protein_coding	KNOWN	None	11480	3387	1128	29747042	29811456	-1	None	None
10	SVIL	ENSG00000197321	ENST00000538146	protein_coding	KNOWN	None	11480	1758	585	29769090	29785447	-1	None	None
19	None	ENSG00000269813	ENST00000595107	antisense	KNOWN	None	None	None	None	8024007	8024896	1	None	None
16	SEC14L5	ENSG00000103184	ENST00000251170	protein_coding	KNOWN	CCDS45403	29032	2091	696	5008318	5069159	1	None	KIAA0420, PRELID4B
16	SEC14L5	ENSG00000103184	ENST00000587469	protein_coding	KNOWN	None	29032	507	168	5009256	5041871	1	None	KIAA0420, PRELID4B
HSCHR6_MHC_COX	FKBPL	ENSG00000230907	ENST00000425378	protein_coding	KNOWN	None	13949	1050	349	32044940	32046524	-1	None	DIR1, NG7
4	None	ENSG00000224932	ENST00000416680	lincRNA	KNOWN	None	None	None	None	118235753	118281795	-1	None	None
19	None	ENSG00000267939	ENST00000599756	lincRNA	KNOWN	None	None	None	None	8073613	8080909	1	None	None
X	CXXC1P1	ENSG00000187893	ENST00000483225	processed_transcript	KNOWN	None	27864	None	None	47566590	47596027	1	CXorf25, NCRNA00236	FLJ36789
X	CXXC1P1	ENSG00000187893	ENST00000589302	processed_transcript	KNOWN	None	27864	None	None	47566655	47612855	1	CXorf25, NCRNA00236	FLJ36789
X	CXXC1P1	ENSG00000187893	ENST00000489409	transcribed_unprocessed_pseudogene	KNOWN	None	27864	None	None	47581730	47585331	1	CXorf25, NCRNA00236	FLJ36789
11	GPHA2	ENSG00000149735	ENST00000279168	protein_coding	KNOWN	CCDS8086	18054	390	129	64701943	64703360	-1	None	GPA2, ZSIG51, A2, MGC126572
11	GPHA2	ENSG00000149735	ENST00000533257	protein_coding	PUTATIVE	CCDS8086	18054	390	129	64702116	64702995	-1	None	GPA2, ZSIG51, A2, MGC126572
11	GPHA2	ENSG00000149735	ENST00000532246	protein_coding	PUTATIVE	None	18054	357	118	64702334	64703354	-1	None	GPA2, ZSIG51, A2, MGC126572
13	ERCC5	ENSG00000134899	ENST00000355739	protein_coding	KNOWN	CCDS32004	3437	3561	1186	103497194	103528345	1	ERCM2, XPGC	None
13	ERCC5	ENSG00000134899	ENST00000472151	nonsense_mediated_decay	KNOWN	None	3437	132	43	103498399	103506222	1	ERCM2, XPGC	None
13	ERCC5	ENSG00000134899	ENST00000375958	retained_intron	KNOWN	None	3437	None	None	103498462	103506283	1	ERCM2, XPGC	None
13	ERCC5	ENSG00000134899	ENST00000375954	protein_coding	KNOWN	None	3437	1260	419	103517068	103528333	1	ERCM2, XPGC	None
13	ERCC5	ENSG00000134899	ENST00000481099	retained_intron	KNOWN	None	3437	None	None	103518293	103520607	1	ERCM2, XPGC	None
13	ERCC5	ENSG00000134899	ENST00000472247	processed_transcript	KNOWN	None	3437	None	None	103527085	103528242	1	ERCM2, XPGC	None
13	ERCC5	ENSG00000134899	ENST00000535557	protein_coding	KNOWN	None	3437	699	232	103498174	103511287	1	ERCM2, XPGC	None
19	None	ENSG00000269651	ENST00000595307	unprocessed_pseudogene	KNOWN	None	None	None	None	8238156	8240451	1	None	None
HSCHR6_MHC_MCF	GNL1	ENSG00000228581	ENST00000437917	protein_coding	KNOWN	None	4413	1824	607	30587611	30603408	-1	None	HSR1
HSCHR6_MHC_MCF	GNL1	ENSG00000228581	ENST00000497917	retained_intron	KNOWN	None	4413	None	None	30592719	30598780	-1	None	HSR1
HSCHR6_MHC_MCF	GNL1	ENSG00000228581	ENST00000483987	retained_intron	KNOWN	None	4413	None	None	30593430	30594051	-1	None	HSR1
HSCHR6_MHC_MCF	GNL1	ENSG00000228581	ENST00000481380	retained_intron	KNOWN	None	4413	None	None	30598411	30599354	-1	None	HSR1
HSCHR6_MHC_MCF	GNL1	ENSG00000228581	ENST00000443235	protein_coding	KNOWN	None	4413	792	263	30599594	30602322	-1	None	HSR1
HSCHR6_MHC_MCF	GNL1	ENSG00000228581	ENST00000548423	protein_coding	KNOWN	None	4413	1290	429	30587619	30600878	-1	None	HSR1
12	CKAP4	ENSG00000136026	ENST00000378026	protein_coding	KNOWN	CCDS9103	16991	1809	602	106631655	106641766	-1	None	P63, CLIMP-63, ERGIC-63
12	CKAP4	ENSG00000136026	ENST00000552828	processed_transcript	PUTATIVE	None	16991	None	None	106633672	106698029	-1	None	P63, CLIMP-63, ERGIC-63
12	CKAP4	ENSG00000136026	ENST00000553039	protein_coding	PUTATIVE	None	16991	79	25	106634100	106698057	-1	None	P63, CLIMP-63, ERGIC-63
19	LILRA4	ENSG00000239961	ENST00000291759	protein_coding	KNOWN	CCDS12890	15503	1500	499	54844456	54850421	-1	None	ILT7, CD85g
19	LILRA4	ENSG00000239961	ENST00000595581	non_stop_decay	KNOWN	None	15503	421	139	54848043	54848719	-1	None	ILT7, CD85g
19	LILRA4	ENSG00000239961	ENST00000421056	retained_intron	KNOWN	None	15503	None	None	54849483	54850376	-1	None	ILT7, CD85g
4	NOP14-AS1	ENSG00000249673	ENST00000505731	antisense	KNOWN	None	20205	None	None	2936626	2949400	1	C4orf10	RES4-24
4	NOP14-AS1	ENSG00000249673	ENST00000507999	antisense	KNOWN	None	20205	None	None	2936667	2942231	1	C4orf10	RES4-24
4	NOP14-AS1	ENSG00000249673	ENST00000512712	antisense	KNOWN	None	20205	None	None	2937273	2943778	1	C4orf10	RES4-24
4	NOP14-AS1	ENSG00000249673	ENST00000515194	antisense	KNOWN	None	20205	None	None	2937273	2952794	1	C4orf10	RES4-24
4	NOP14-AS1	ENSG00000249673	ENST00000503709	antisense	KNOWN	None	20205	None	None	2938993	2963465	1	C4orf10	RES4-24
4	NOP14-AS1	ENSG00000249673	ENST00000507702	antisense	KNOWN	None	20205	None	None	2939322	2948655	1	C4orf10	RES4-24
4	NOP14-AS1	ENSG00000249673	ENST00000512802	antisense	KNOWN	None	20205	None	None	2939378	2942168	1	C4orf10	RES4-24
16	SLC6A10P	ENSG00000214617	ENST00000330048	processed_transcript	KNOWN	None	11043	None	None	32888790	32896463	-1	SLC6A10	CT-2
16	SLC6A10P	ENSG00000214617	ENST00000431994	transcribed_unprocessed_pseudogene	KNOWN	None	11043	None	None	32890027	32896822	-1	SLC6A10	CT-2
16	SLC6A10P	ENSG00000214617	ENST00000561837	processed_transcript	KNOWN	None	11043	None	None	32893952	32896435	-1	SLC6A10	CT-2
10	RNY4P26	ENSG00000252895	ENST00000517086	misc_RNA	KNOWN	None	42476	None	None	95806795	95806882	-1	None	None
1	TRIM63	ENSG00000158022	ENST00000374272	protein_coding	KNOWN	CCDS273	16007	1062	353	26377795	26394124	-1	RNF28	MURF-1, IRF, SMRZ
1	TRIM63	ENSG00000158022	ENST00000483052	processed_transcript	KNOWN	None	16007	None	None	26387735	26394927	-1	RNF28	MURF-1, IRF, SMRZ
5	EIF4E1B	ENSG00000175766	ENST00000510473	processed_transcript	KNOWN	None	33179	None	None	176057683	176069738	1	None	FLJ36951
5	EIF4E1B	ENSG00000175766	ENST00000510660	protein_coding	KNOWN	None	33179	270	89	176057956	176070709	1	None	FLJ36951
5	EIF4E1B	ENSG00000175766	ENST00000515458	retained_intron	KNOWN	None	33179	None	None	176057956	176073642	1	None	FLJ36951
5	EIF4E1B	ENSG00000175766	ENST00000504597	protein_coding	KNOWN	CCDS47345	33179	729	242	176068673	176073608	1	None	FLJ36951
5	EIF4E1B	ENSG00000175766	ENST00000503895	retained_intron	KNOWN	None	33179	None	None	176069929	176072301	1	None	FLJ36951
5	EIF4E1B	ENSG00000175766	ENST00000505497	protein_coding	PUTATIVE	None	33179	514	170	176070246	176072982	1	None	FLJ36951
5	EIF4E1B	ENSG00000175766	ENST00000512734	processed_transcript	KNOWN	None	33179	None	None	176071581	176073141	1	None	FLJ36951
5	EIF4E1B	ENSG00000175766	ENST00000318682	protein_coding	KNOWN	CCDS47345	33179	729	242	176057683	176073642	1	None	FLJ36951
2	CCDC115	ENSG00000136710	ENST00000259229	protein_coding	KNOWN	CCDS2159	28178	543	180	131095814	131099922	-1	None	MGC12981, FLJ30131, ccp1
2	CCDC115	ENSG00000136710	ENST00000442217	nonsense_mediated_decay	KNOWN	None	28178	582	193	131095816	131099922	-1	None	MGC12981, FLJ30131, ccp1
2	CCDC115	ENSG00000136710	ENST00000465315	retained_intron	KNOWN	None	28178	None	None	131095820	131099708	-1	None	MGC12981, FLJ30131, ccp1
2	CCDC115	ENSG00000136710	ENST00000409127	protein_coding	NOVEL	None	28178	528	175	131096069	131099897	-1	None	MGC12981, FLJ30131, ccp1
2	CCDC115	ENSG00000136710	ENST00000437688	protein_coding	KNOWN	None	28178	567	188	131096103	131099911	-1	None	MGC12981, FLJ30131, ccp1
4	None	ENSG00000228358	ENST00000420701	lincRNA	KNOWN	None	None	None	None	118281781	118293754	1	None	None
4	None	ENSG00000228358	ENST00000426240	lincRNA	KNOWN	None	None	None	None	118281822	118294008	1	None	None
4	None	ENSG00000228358	ENST00000448804	lincRNA	KNOWN	None	None	None	None	118282505	118293891	1	None	None
4	None	ENSG00000228358	ENST00000419264	lincRNA	KNOWN	None	None	None	None	118282556	118293891	1	None	None
4	None	ENSG00000250828	ENST00000502633	unprocessed_pseudogene	KNOWN	None	None	None	None	70303075	70306768	1	None	None
10	None	ENSG00000232913	ENST00000438899	antisense	KNOWN	None	None	None	None	95841707	95868537	-1	None	None
10	None	ENSG00000232913	ENST00000432782	antisense	KNOWN	None	None	None	None	95859405	95868542	-1	None	None
10	None	ENSG00000232913	ENST00000419353	antisense	KNOWN	None	None	None	None	95860253	95867629	-1	None	None
10	None	ENSG00000232913	ENST00000453183	antisense	KNOWN	None	None	None	None	95863883	95868506	-1	None	None
10	None	ENSG00000232913	ENST00000595394	antisense	KNOWN	None	None	None	None	95864189	95865112	-1	None	None
10	None	ENSG00000232913	ENST00000594225	antisense	KNOWN	None	None	None	None	95864189	95867627	-1	None	None
10	None	ENSG00000232913	ENST00000596901	antisense	KNOWN	None	None	None	None	95864189	95868541	-1	None	None
10	None	ENSG00000232913	ENST00000601781	antisense	KNOWN	None	None	None	None	95864189	95868542	-1	None	None
10	None	ENSG00000232913	ENST00000599260	antisense	KNOWN	None	None	None	None	95864189	95868571	-1	None	None
10	None	ENSG00000232913	ENST00000433038	antisense	KNOWN	None	None	None	None	95867350	95868232	-1	None	None
3	BTD	ENSG00000169814	ENST00000427382	protein_coding	PUTATIVE	None	1122	176	57	15642848	15677122	1	None	None
3	BTD	ENSG00000169814	ENST00000494021	processed_transcript	KNOWN	None	1122	None	None	15642877	15677087	1	None	None
3	BTD	ENSG00000169814	ENST00000417015	nonsense_mediated_decay	KNOWN	None	1122	195	64	15642894	15676963	1	None	None
3	BTD	ENSG00000169814	ENST00000449107	protein_coding	NOVEL	None	1122	1638	545	15643140	15687089	1	None	None
3	BTD	ENSG00000169814	ENST00000303498	protein_coding	KNOWN	CCDS2628	1122	1632	543	15643249	15687329	1	None	None
3	BTD	ENSG00000169814	ENST00000480711	processed_transcript	PUTATIVE	None	1122	None	None	15643255	15648259	1	None	None
3	BTD	ENSG00000169814	ENST00000471964	processed_transcript	PUTATIVE	None	1122	None	None	15643278	15676936	1	None	None
3	BTD	ENSG00000169814	ENST00000467027	processed_transcript	PUTATIVE	None	1122	None	None	15643308	15677121	1	None	None
3	BTD	ENSG00000169814	ENST00000437172	protein_coding	PUTATIVE	None	1122	1638	545	15643308	15687222	1	None	None
3	BTD	ENSG00000169814	ENST00000436193	protein_coding	PUTATIVE	None	1122	754	250	15643476	15686177	1	None	None
3	BTD	ENSG00000169814	ENST00000482824	processed_transcript	KNOWN	None	1122	None	None	15671509	15683674	1	None	None
3	BTD	ENSG00000169814	ENST00000383778	protein_coding	KNOWN	None	1122	1572	523	15643476	15687203	1	None	None
19	None	ENSG00000268550	ENST00000596056	protein_coding	NOVEL	None	None	285	94	14834747	14835121	1	None	None
10	DUX4L14	ENSG00000258514	ENST00000555635	unprocessed_pseudogene	KNOWN	None	38673	None	None	135493906	135495148	1	None	None
HSCHR6_MHC_DBB	SLC44A4	ENSG00000228263	ENST00000425238	protein_coding	KNOWN	None	13941	2133	710	31813158	31828963	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_DBB	SLC44A4	ENSG00000228263	ENST00000479497	processed_transcript	PUTATIVE	None	13941	None	None	31813543	31814646	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_DBB	SLC44A4	ENSG00000228263	ENST00000431710	protein_coding	KNOWN	None	13941	1233	410	31815656	31828929	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_DBB	SLC44A4	ENSG00000228263	ENST00000463524	retained_intron	KNOWN	None	13941	None	None	31816025	31821164	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_DBB	SLC44A4	ENSG00000228263	ENST00000467656	retained_intron	KNOWN	None	13941	None	None	31819558	31821206	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_DBB	SLC44A4	ENSG00000228263	ENST00000469478	processed_transcript	KNOWN	None	13941	None	None	31824487	31828959	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_DBB	SLC44A4	ENSG00000228263	ENST00000477158	processed_transcript	KNOWN	None	13941	None	None	31824784	31828959	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_DBB	SLC44A4	ENSG00000228263	ENST00000549663	protein_coding	KNOWN	None	13941	2007	668	31813161	31829008	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_DBB	SLC44A4	ENSG00000228263	ENST00000548188	protein_coding	KNOWN	None	13941	1905	634	31813161	31827633	-1	C6orf29	NG22, CTL4, FLJ14491
X	None	ENSG00000224656	ENST00000436365	processed_pseudogene	KNOWN	None	None	None	None	47577401	47578498	-1	None	None
10	DUX4L15	ENSG00000235950	ENST00000557077	unprocessed_pseudogene	KNOWN	None	38674	None	None	135497206	135498448	1	None	None
10	DUX4L15	ENSG00000235950	ENST00000536415	unprocessed_pseudogene	KNOWN	None	38674	None	None	135496888	135498492	1	None	None
X	None	ENSG00000229968	ENST00000439330	processed_pseudogene	KNOWN	None	None	None	None	47636226	47638096	-1	None	None
17	C17orf100	ENSG00000212734	ENST00000391428	protein_coding	KNOWN	None	34494	495	164	6554971	6556791	1	None	LOC388327
15	CHRM5	ENSG00000184984	ENST00000560035	protein_coding	KNOWN	None	1954	66	21	34260921	34354984	1	None	None
15	CHRM5	ENSG00000184984	ENST00000383263	protein_coding	KNOWN	CCDS10031	1954	1599	532	34261089	34357291	1	None	None
15	CHRM5	ENSG00000184984	ENST00000557872	protein_coding	KNOWN	CCDS10031	1954	1599	532	34310428	34357291	1	None	None
12	DAO	ENSG00000110887	ENST00000548052	processed_transcript	KNOWN	None	2671	None	None	109252708	109277547	1	None	DAMOX
12	DAO	ENSG00000110887	ENST00000551281	protein_coding	NOVEL	None	2671	846	281	109252708	109294697	1	None	DAMOX
12	DAO	ENSG00000110887	ENST00000228476	protein_coding	KNOWN	CCDS9122	2671	1044	347	109273806	109294819	1	None	DAMOX
12	DAO	ENSG00000110887	ENST00000547122	nonsense_mediated_decay	KNOWN	None	2671	237	78	109273867	109294815	1	None	DAMOX
12	DAO	ENSG00000110887	ENST00000547768	protein_coding	PUTATIVE	None	2671	500	165	109273885	109293208	1	None	DAMOX
12	DAO	ENSG00000110887	ENST00000549215	nonsense_mediated_decay	KNOWN	None	2671	372	123	109273916	109294707	1	None	DAMOX
12	DAO	ENSG00000110887	ENST00000547166	protein_coding	KNOWN	None	2671	590	195	109274127	109288121	1	None	DAMOX
12	DAO	ENSG00000110887	ENST00000546552	retained_intron	KNOWN	None	2671	None	None	109292248	109294269	1	None	DAMOX
12	PDE3A	ENSG00000172572	ENST00000359062	protein_coding	KNOWN	CCDS31754	8778	3426	1141	20522179	20837315	1	None	CGI-PDE
12	PDE3A	ENSG00000172572	ENST00000542675	retained_intron	KNOWN	None	8778	None	None	20523059	20710158	1	None	CGI-PDE
12	PDE3A	ENSG00000172572	ENST00000544307	processed_transcript	KNOWN	None	8778	None	None	20724798	20833451	1	None	CGI-PDE
3	SPATA12	ENSG00000186451	ENST00000334325	protein_coding	KNOWN	CCDS2879	23221	573	190	57094469	57109460	1	None	None
10	None	ENSG00000226880	ENST00000411632	processed_pseudogene	KNOWN	None	None	None	None	135505635	135505917	1	None	None
X	WASF4P	ENSG00000188459	ENST00000444248	processed_pseudogene	KNOWN	None	20801	None	None	47662695	47664188	1	WASF4	None
X	WASF4P	ENSG00000188459	ENST00000338709	processed_pseudogene	KNOWN	None	20801	None	None	47657325	47664188	1	WASF4	None
7	None	ENSG00000237896	ENST00000431501	protein_coding	NOVEL	None	None	360	119	80804824	80819706	1	None	None
7	None	ENSG00000237896	ENST00000447776	protein_coding	NOVEL	None	None	186	61	80817106	80828431	1	None	None
22	CYP2D7P1	ENSG00000205702	ENST00000435101	protein_coding	PUTATIVE	None	2624	456	151	42536214	42537934	-1	CYP2D, CYP2D@	CYP2D7
22	CYP2D7P1	ENSG00000205702	ENST00000358097	polymorphic_pseudogene	KNOWN	None	2624	1495	497	42536214	42540550	-1	CYP2D, CYP2D@	CYP2D7
22	CYP2D7P1	ENSG00000205702	ENST00000433992	polymorphic_pseudogene	KNOWN	None	2624	1552	516	42536214	42540576	-1	CYP2D, CYP2D@	CYP2D7
22	CYP2D7P1	ENSG00000205702	ENST00000424775	processed_transcript	PUTATIVE	None	2624	None	None	42538738	42540000	-1	CYP2D, CYP2D@	CYP2D7
22	CYP2D7P1	ENSG00000205702	ENST00000435688	retained_intron	KNOWN	None	2624	None	None	42539285	42540550	-1	CYP2D, CYP2D@	CYP2D7
12	PPFIBP1	ENSG00000110841	ENST00000538433	protein_coding	KNOWN	None	9249	55	17	27676364	27802985	1	None	L2, hSGT2, hSgt2p, SGT2
12	PPFIBP1	ENSG00000110841	ENST00000545381	non_stop_decay	KNOWN	None	9249	844	280	27677075	27811781	1	None	L2, hSGT2, hSgt2p, SGT2
12	PPFIBP1	ENSG00000110841	ENST00000545334	protein_coding	PUTATIVE	None	9249	330	109	27677091	27790252	1	None	L2, hSGT2, hSgt2p, SGT2
12	PPFIBP1	ENSG00000110841	ENST00000540114	protein_coding	PUTATIVE	None	9249	2232	743	27677106	27844717	1	None	L2, hSGT2, hSgt2p, SGT2
12	PPFIBP1	ENSG00000110841	ENST00000541633	processed_transcript	KNOWN	None	9249	None	None	27677107	27737351	1	None	L2, hSGT2, hSgt2p, SGT2
12	PPFIBP1	ENSG00000110841	ENST00000537927	protein_coding	KNOWN	CCDS55814	9249	2577	858	27677115	27848496	1	None	L2, hSGT2, hSgt2p, SGT2
12	PPFIBP1	ENSG00000110841	ENST00000318304	protein_coding	KNOWN	CCDS55812	9249	3036	1011	27677139	27848497	1	None	L2, hSGT2, hSgt2p, SGT2
12	PPFIBP1	ENSG00000110841	ENST00000535047	protein_coding	KNOWN	None	9249	513	170	27677153	27800910	1	None	L2, hSGT2, hSgt2p, SGT2
12	PPFIBP1	ENSG00000110841	ENST00000542629	protein_coding	KNOWN	CCDS55813	9249	2943	980	27677157	27845815	1	None	L2, hSGT2, hSgt2p, SGT2
12	PPFIBP1	ENSG00000110841	ENST00000228425	protein_coding	KNOWN	CCDS8713	9249	3018	1005	27677189	27848497	1	None	L2, hSGT2, hSgt2p, SGT2
12	PPFIBP1	ENSG00000110841	ENST00000535575	protein_coding	KNOWN	None	9249	259	85	27691056	27788037	1	None	L2, hSGT2, hSgt2p, SGT2
12	PPFIBP1	ENSG00000110841	ENST00000542187	protein_coding	PUTATIVE	None	9249	457	151	27752281	27800722	1	None	L2, hSGT2, hSgt2p, SGT2
12	PPFIBP1	ENSG00000110841	ENST00000534917	retained_intron	KNOWN	None	9249	None	None	27807319	27810056	1	None	L2, hSGT2, hSgt2p, SGT2
12	PPFIBP1	ENSG00000110841	ENST00000537261	protein_coding	NOVEL	None	9249	616	204	27813867	27829490	1	None	L2, hSGT2, hSgt2p, SGT2
12	PPFIBP1	ENSG00000110841	ENST00000540503	retained_intron	KNOWN	None	9249	None	None	27832733	27835588	1	None	L2, hSGT2, hSgt2p, SGT2
12	PPFIBP1	ENSG00000110841	ENST00000539326	protein_coding	NOVEL	None	9249	728	241	27835557	27846060	1	None	L2, hSGT2, hSgt2p, SGT2
12	PPFIBP1	ENSG00000110841	ENST00000540256	retained_intron	KNOWN	None	9249	None	None	27841122	27842136	1	None	L2, hSGT2, hSgt2p, SGT2
9	NPR2	ENSG00000159899	ENST00000342694	protein_coding	KNOWN	CCDS6590	7944	3144	1047	35792151	35809729	1	ANPRB, NPRB, AMDM	GUCY2B, ANPb
9	NPR2	ENSG00000159899	ENST00000464810	retained_intron	KNOWN	None	7944	None	None	35792406	35809729	1	ANPRB, NPRB, AMDM	GUCY2B, ANPb
9	NPR2	ENSG00000159899	ENST00000421267	protein_coding	PUTATIVE	None	7944	824	273	35805527	35808577	1	ANPRB, NPRB, AMDM	GUCY2B, ANPb
9	NPR2	ENSG00000159899	ENST00000447210	protein_coding	PUTATIVE	None	7944	495	164	35806082	35809709	1	ANPRB, NPRB, AMDM	GUCY2B, ANPb
9	NPR2	ENSG00000159899	ENST00000448821	nonsense_mediated_decay	KNOWN	None	7944	229	75	35806530	35809716	1	ANPRB, NPRB, AMDM	GUCY2B, ANPb
9	NPR2	ENSG00000159899	ENST00000469249	retained_intron	KNOWN	None	7944	None	None	35808398	35809432	1	ANPRB, NPRB, AMDM	GUCY2B, ANPb
14	None	ENSG00000259003	ENST00000557595	protein_coding	PUTATIVE	None	None	300	99	23025534	23027939	1	None	None
17	RAMP2	ENSG00000131477	ENST00000591972	processed_transcript	KNOWN	None	9844	None	None	40910465	40913917	1	None	None
17	RAMP2	ENSG00000131477	ENST00000589683	protein_coding	PUTATIVE	None	9844	303	100	40912793	40915059	1	None	None
17	RAMP2	ENSG00000131477	ENST00000588928	protein_coding	PUTATIVE	None	9844	149	48	40912823	40914716	1	None	None
17	RAMP2	ENSG00000131477	ENST00000253796	protein_coding	KNOWN	CCDS11437	9844	528	175	40913212	40915054	1	None	None
17	RAMP2	ENSG00000131477	ENST00000587142	protein_coding	NOVEL	None	9844	543	180	40913276	40914872	1	None	None
17	RAMP2	ENSG00000131477	ENST00000588576	protein_coding	PUTATIVE	None	9844	339	112	40913276	40915020	1	None	None
22	BMP6P1	ENSG00000236323	ENST00000431230	processed_pseudogene	KNOWN	None	19329	None	None	22540331	22541009	1	None	None
22	IGLVI-56	ENSG00000253126	ENST00000521342	IG_V_pseudogene	KNOWN	None	5937	None	None	22552960	22553411	1	None	IGLV(I)-56
22	IGLVIV-53	ENSG00000253935	ENST00000520107	IG_V_pseudogene	KNOWN	None	5941	None	None	22574039	22574525	1	None	IGLV(IV)-53
22	TOP3BP1	ENSG00000228050	ENST00000420768	processed_pseudogene	KNOWN	None	11994	None	None	22577580	22578959	-1	TOP3B2	None
15	EMC7	ENSG00000134153	ENST00000256545	protein_coding	KNOWN	CCDS10032	24301	729	242	34376218	34394149	-1	C15orf24	C11orf3
15	EMC7	ENSG00000134153	ENST00000527822	protein_coding	NOVEL	None	24301	577	191	34376531	34394008	-1	C15orf24	C11orf3
15	EMC7	ENSG00000134153	ENST00000528949	protein_coding	PUTATIVE	None	24301	480	159	34376565	34394008	-1	C15orf24	C11orf3
15	EMC7	ENSG00000134153	ENST00000532113	processed_transcript	PUTATIVE	None	24301	None	None	34392835	34394028	-1	C15orf24	C11orf3
6	DDX43	ENSG00000080007	ENST00000370336	protein_coding	KNOWN	CCDS4977	18677	1947	648	74104471	74127292	1	None	HAGE, DKFZp434H2114, CT13
6	DDX43	ENSG00000080007	ENST00000464221	retained_intron	KNOWN	None	18677	None	None	74104617	74107717	1	None	HAGE, DKFZp434H2114, CT13
6	DDX43	ENSG00000080007	ENST00000479773	processed_transcript	KNOWN	None	18677	None	None	74116688	74123730	1	None	HAGE, DKFZp434H2114, CT13
6	DDX43	ENSG00000080007	ENST00000539829	protein_coding	KNOWN	None	18677	588	195	74104576	74117731	1	None	HAGE, DKFZp434H2114, CT13
11	FOSL1	ENSG00000175592	ENST00000448083	protein_coding	NOVEL	None	13718	510	169	65659520	65667890	-1	None	fra-1
11	FOSL1	ENSG00000175592	ENST00000312562	protein_coding	KNOWN	CCDS8121	13718	816	271	65659691	65667997	-1	None	fra-1
11	FOSL1	ENSG00000175592	ENST00000531493	protein_coding	NOVEL	None	13718	708	235	65659945	65667890	-1	None	fra-1
11	FOSL1	ENSG00000175592	ENST00000532401	protein_coding	PUTATIVE	None	13718	408	135	65660116	65667890	-1	None	fra-1
11	FOSL1	ENSG00000175592	ENST00000534222	protein_coding	PUTATIVE	None	13718	38	11	65660475	65668044	-1	None	fra-1
17	GPATCH8	ENSG00000186566	ENST00000335500	retained_intron	KNOWN	None	29066	None	None	42472652	42543303	-1	KIAA0553, GPATC8	None
17	GPATCH8	ENSG00000186566	ENST00000591680	protein_coding	KNOWN	CCDS32666	29066	4509	1502	42474784	42580769	-1	KIAA0553, GPATC8	None
17	GPATCH8	ENSG00000186566	ENST00000587228	nonsense_mediated_decay	KNOWN	None	29066	132	43	42474784	42580772	-1	KIAA0553, GPATC8	None
17	GPATCH8	ENSG00000186566	ENST00000585614	protein_coding	NOVEL	None	29066	665	220	42478705	42580759	-1	KIAA0553, GPATC8	None
17	GPATCH8	ENSG00000186566	ENST00000590041	nonsense_mediated_decay	KNOWN	None	29066	141	46	42478776	42580757	-1	KIAA0553, GPATC8	None
17	GPATCH8	ENSG00000186566	ENST00000586265	processed_transcript	KNOWN	None	29066	None	None	42501745	42523290	-1	KIAA0553, GPATC8	None
17	GPATCH8	ENSG00000186566	ENST00000592746	nonsense_mediated_decay	KNOWN	None	29066	141	46	42512437	42580771	-1	KIAA0553, GPATC8	None
17	GPATCH8	ENSG00000186566	ENST00000586037	nonsense_mediated_decay	KNOWN	None	29066	141	46	42513875	42580771	-1	KIAA0553, GPATC8	None
17	GPATCH8	ENSG00000186566	ENST00000592154	protein_coding	PUTATIVE	None	29066	141	46	42550658	42580798	-1	KIAA0553, GPATC8	None
17	GPATCH8	ENSG00000186566	ENST00000588554	protein_coding	PUTATIVE	None	29066	129	42	42551788	42580774	-1	KIAA0553, GPATC8	None
17	GPATCH8	ENSG00000186566	ENST00000434000	protein_coding	KNOWN	None	29066	4275	1424	42474784	42580769	-1	KIAA0553, GPATC8	None
22	None	ENSG00000234726	ENST00000432623	processed_pseudogene	KNOWN	None	None	None	None	22583115	22584865	-1	None	None
22	None	ENSG00000272216	ENST00000606654	lincRNA	KNOWN	None	None	None	None	22638312	22641586	-1	None	None
4	ADH5	ENSG00000197894	ENST00000296412	protein_coding	KNOWN	CCDS47111	253	1125	374	99992132	100009902	-1	FDH	ADH-3, ADHX
4	ADH5	ENSG00000197894	ENST00000512621	retained_intron	KNOWN	None	253	None	None	99993337	100006367	-1	FDH	ADH-3, ADHX
4	ADH5	ENSG00000197894	ENST00000512659	nonsense_mediated_decay	KNOWN	None	253	171	56	99996064	100009853	-1	FDH	ADH-3, ADHX
4	ADH5	ENSG00000197894	ENST00000508511	retained_intron	KNOWN	None	253	None	None	99996376	100009868	-1	FDH	ADH-3, ADHX
4	ADH5	ENSG00000197894	ENST00000503130	protein_coding	NOVEL	None	253	786	261	99997443	100006367	-1	FDH	ADH-3, ADHX
4	ADH5	ENSG00000197894	ENST00000502590	nonsense_mediated_decay	KNOWN	None	253	288	95	99997543	100009855	-1	FDH	ADH-3, ADHX
4	ADH5	ENSG00000197894	ENST00000512991	processed_transcript	KNOWN	None	253	None	None	99997586	100006774	-1	FDH	ADH-3, ADHX
4	ADH5	ENSG00000197894	ENST00000512604	processed_transcript	PUTATIVE	None	253	None	None	99997948	100001174	-1	FDH	ADH-3, ADHX
4	ADH5	ENSG00000197894	ENST00000505652	nonsense_mediated_decay	KNOWN	None	253	348	115	99998004	100009887	-1	FDH	ADH-3, ADHX
4	ADH5	ENSG00000197894	ENST00000508146	processed_transcript	KNOWN	None	253	None	None	100001600	100009952	-1	FDH	ADH-3, ADHX
4	ADH5	ENSG00000197894	ENST00000507102	retained_intron	KNOWN	None	253	None	None	100002825	100009864	-1	FDH	ADH-3, ADHX
4	ADH5	ENSG00000197894	ENST00000502386	nonsense_mediated_decay	KNOWN	None	253	48	15	100003070	100009864	-1	FDH	ADH-3, ADHX
11	PTPN5	ENSG00000110786	ENST00000477854	protein_coding	NOVEL	None	9657	1110	369	18749475	18765389	-1	None	STEP, PTPSTEP
11	PTPN5	ENSG00000110786	ENST00000358540	protein_coding	KNOWN	CCDS7845	9657	1698	565	18749475	18813389	-1	None	STEP, PTPSTEP
11	PTPN5	ENSG00000110786	ENST00000396166	protein_coding	PUTATIVE	None	9657	516	171	18749477	18752291	-1	None	STEP, PTPSTEP
11	PTPN5	ENSG00000110786	ENST00000396170	protein_coding	NOVEL	CCDS41626	9657	1602	533	18749477	18814268	-1	None	STEP, PTPSTEP
11	PTPN5	ENSG00000110786	ENST00000396168	protein_coding	NOVEL	None	9657	1626	541	18749479	18813187	-1	None	STEP, PTPSTEP
11	PTPN5	ENSG00000110786	ENST00000496201	processed_transcript	KNOWN	None	9657	None	None	18762315	18765890	-1	None	STEP, PTPSTEP
11	PTPN5	ENSG00000110786	ENST00000396171	protein_coding	KNOWN	CCDS7845	9657	1698	565	18749477	18813389	-1	None	STEP, PTPSTEP
11	PTPN5	ENSG00000110786	ENST00000396167	protein_coding	KNOWN	CCDS41626	9657	1602	533	18749477	18813389	-1	None	STEP, PTPSTEP
17	NKIRAS2	ENSG00000168256	ENST00000585955	protein_coding	KNOWN	None	17898	140	45	40163400	40174462	1	None	KBRAS2, DKFZP434N1526, kappaB-Ras2
17	NKIRAS2	ENSG00000168256	ENST00000307641	protein_coding	KNOWN	CCDS11415	17898	576	191	40169038	40177659	1	None	KBRAS2, DKFZP434N1526, kappaB-Ras2
17	NKIRAS2	ENSG00000168256	ENST00000393885	protein_coding	KNOWN	CCDS11415	17898	576	191	40172069	40177076	1	None	KBRAS2, DKFZP434N1526, kappaB-Ras2
17	NKIRAS2	ENSG00000168256	ENST00000587337	protein_coding	PUTATIVE	None	17898	422	139	40172090	40175859	1	None	KBRAS2, DKFZP434N1526, kappaB-Ras2
17	NKIRAS2	ENSG00000168256	ENST00000485789	nonsense_mediated_decay	KNOWN	None	17898	177	58	40172096	40176283	1	None	KBRAS2, DKFZP434N1526, kappaB-Ras2
17	NKIRAS2	ENSG00000168256	ENST00000479407	protein_coding	PUTATIVE	CCDS45680	17898	294	97	40172096	40176283	1	None	KBRAS2, DKFZP434N1526, kappaB-Ras2
17	NKIRAS2	ENSG00000168256	ENST00000393880	protein_coding	KNOWN	CCDS11415	17898	576	191	40172115	40176792	1	None	KBRAS2, DKFZP434N1526, kappaB-Ras2
17	NKIRAS2	ENSG00000168256	ENST00000393881	protein_coding	KNOWN	CCDS11415	17898	576	191	40172115	40176792	1	None	KBRAS2, DKFZP434N1526, kappaB-Ras2
17	NKIRAS2	ENSG00000168256	ENST00000462043	protein_coding	PUTATIVE	None	17898	126	41	40172119	40176044	1	None	KBRAS2, DKFZP434N1526, kappaB-Ras2
17	NKIRAS2	ENSG00000168256	ENST00000587028	retained_intron	KNOWN	None	17898	None	None	40172120	40174013	1	None	KBRAS2, DKFZP434N1526, kappaB-Ras2
17	NKIRAS2	ENSG00000168256	ENST00000491638	nonsense_mediated_decay	KNOWN	None	17898	129	42	40172122	40176238	1	None	KBRAS2, DKFZP434N1526, kappaB-Ras2
17	NKIRAS2	ENSG00000168256	ENST00000449471	protein_coding	NOVEL	CCDS45679	17898	408	135	40172124	40176851	1	None	KBRAS2, DKFZP434N1526, kappaB-Ras2
17	NKIRAS2	ENSG00000168256	ENST00000316082	protein_coding	NOVEL	None	17898	690	229	40172141	40175958	1	None	KBRAS2, DKFZP434N1526, kappaB-Ras2
17	NKIRAS2	ENSG00000168256	ENST00000393879	retained_intron	KNOWN	None	17898	None	None	40172434	40177659	1	None	KBRAS2, DKFZP434N1526, kappaB-Ras2
17	NKIRAS2	ENSG00000168256	ENST00000393884	protein_coding	KNOWN	None	17898	570	189	40172087	40177654	1	None	KBRAS2, DKFZP434N1526, kappaB-Ras2
6	TPD52L1	ENSG00000111907	ENST00000534368	protein_coding	KNOWN	None	12006	276	91	125440195	125569506	1	None	D53, hD53
6	TPD52L1	ENSG00000111907	ENST00000304877	protein_coding	NOVEL	None	12006	630	209	125474795	125584643	1	None	D53, hD53
6	TPD52L1	ENSG00000111907	ENST00000534000	protein_coding	KNOWN	CCDS5130	12006	615	204	125474802	125585553	1	None	D53, hD53
6	TPD52L1	ENSG00000111907	ENST00000368402	protein_coding	KNOWN	CCDS34527	12006	435	144	125474879	125584643	1	None	D53, hD53
6	TPD52L1	ENSG00000111907	ENST00000368388	protein_coding	KNOWN	CCDS34528	12006	396	131	125474911	125585553	1	None	D53, hD53
6	TPD52L1	ENSG00000111907	ENST00000527711	protein_coding	NOVEL	None	12006	576	191	125474939	125584372	1	None	D53, hD53
6	TPD52L1	ENSG00000111907	ENST00000392483	retained_intron	KNOWN	None	12006	None	None	125474995	125569621	1	None	D53, hD53
6	TPD52L1	ENSG00000111907	ENST00000528193	protein_coding	PUTATIVE	None	12006	501	166	125475046	125584208	1	None	D53, hD53
6	TPD52L1	ENSG00000111907	ENST00000532978	retained_intron	KNOWN	None	12006	None	None	125475335	125574945	1	None	D53, hD53
6	TPD52L1	ENSG00000111907	ENST00000532429	protein_coding	KNOWN	CCDS43502	12006	528	175	125475335	125584190	1	None	D53, hD53
6	TPD52L1	ENSG00000111907	ENST00000534199	protein_coding	KNOWN	None	12006	309	102	125475527	125584271	1	None	D53, hD53
6	TPD52L1	ENSG00000111907	ENST00000392482	protein_coding	KNOWN	None	12006	309	102	125524785	125584638	1	None	D53, hD53
6	TPD52L1	ENSG00000111907	ENST00000524679	protein_coding	KNOWN	None	12006	309	102	125540991	125584294	1	None	D53, hD53
6	TPD52L1	ENSG00000111907	ENST00000532423	retained_intron	KNOWN	None	12006	None	None	125550213	125584184	1	None	D53, hD53
6	TPD52L1	ENSG00000111907	ENST00000530868	processed_transcript	KNOWN	None	12006	None	None	125552353	125584396	1	None	D53, hD53
6	TPD52L1	ENSG00000111907	ENST00000576089	processed_transcript	KNOWN	None	12006	None	None	125581109	125584203	1	None	D53, hD53
6	TPD52L1	ENSG00000111907	ENST00000571678	retained_intron	KNOWN	None	12006	None	None	125582157	125584642	1	None	D53, hD53
Y	OFD1P11Y	ENSG00000237302	ENST00000418213	unprocessed_pseudogene	KNOWN	None	23883	None	None	25917379	25944297	1	OFDYP11, OFD1P11, OFD1PY11	None
6	GPR63	ENSG00000112218	ENST00000229955	protein_coding	KNOWN	CCDS5036	13302	1260	419	97242002	97285339	-1	None	PSP24(beta), PSP24B
6	GPR63	ENSG00000112218	ENST00000417980	protein_coding	KNOWN	CCDS5036	13302	1260	419	97245888	97285353	-1	None	PSP24(beta), PSP24B
6	None	ENSG00000237923	ENST00000442852	lincRNA	KNOWN	None	None	None	None	30807303	30815936	-1	None	None
7	PRPS1L1	ENSG00000229937	ENST00000506618	protein_coding	KNOWN	CCDS47552	9463	957	318	18066405	18067486	-1	PRPSL	PRPS3
14	KHNYN	ENSG00000100441	ENST00000251343	protein_coding	KNOWN	CCDS32058	20166	2037	678	24898492	24910540	1	KIAA0323	None
14	KHNYN	ENSG00000100441	ENST00000556842	protein_coding	KNOWN	CCDS32058	20166	2037	678	24899141	24906823	1	KIAA0323	None
14	KHNYN	ENSG00000100441	ENST00000553935	protein_coding	KNOWN	CCDS32058	20166	2037	678	24899144	24907614	1	KIAA0323	None
14	KHNYN	ENSG00000100441	ENST00000556510	protein_coding	KNOWN	None	20166	404	133	24899430	24900871	1	KIAA0323	None
14	KHNYN	ENSG00000100441	ENST00000554268	protein_coding	PUTATIVE	None	20166	372	123	24902000	24906631	1	KIAA0323	None
14	KHNYN	ENSG00000100441	ENST00000556255	retained_intron	KNOWN	None	20166	None	None	24904663	24907614	1	KIAA0323	None
6	RN7SKP186	ENSG00000202241	ENST00000365371	misc_RNA	KNOWN	None	45910	None	None	30832027	30832329	1	None	None
1	PDIK1L	ENSG00000175087	ENST00000444713	protein_coding	KNOWN	None	18981	573	190	26437664	26448615	1	None	CLIK1L
1	PDIK1L	ENSG00000175087	ENST00000374271	protein_coding	KNOWN	CCDS274	18981	1026	341	26438328	26452034	1	None	CLIK1L
1	PDIK1L	ENSG00000175087	ENST00000374269	protein_coding	KNOWN	CCDS274	18981	1026	341	26438340	26450524	1	None	CLIK1L
10	AGAP5	ENSG00000172650	ENST00000443782	protein_coding	KNOWN	None	23467	1992	663	75434045	75457639	-1	CTGLF2	Em:AC073389.1
10	AGAP5	ENSG00000172650	ENST00000607663	nonsense_mediated_decay	KNOWN	None	23467	83	26	75436478	75442527	-1	CTGLF2	Em:AC073389.1
10	AGAP5	ENSG00000172650	ENST00000374094	protein_coding	KNOWN	CCDS44439	23467	2061	686	75434033	75457554	-1	CTGLF2	Em:AC073389.1
9	RNA5SP285	ENSG00000252428	ENST00000516619	rRNA	KNOWN	None	43185	None	None	74914636	74914754	-1	RN5S285	None
1	C1orf167	ENSG00000215910	ENST00000484153	processed_transcript	KNOWN	None	25262	None	None	11826799	11838367	1	None	DKFZp434E1410, RP11-56N19.2
1	C1orf167	ENSG00000215910	ENST00000312793	protein_coding	PUTATIVE	None	25262	2485	827	11832179	11849642	1	None	DKFZp434E1410, RP11-56N19.2
1	C1orf167	ENSG00000215910	ENST00000444493	protein_coding	PUTATIVE	None	25262	1849	615	11838988	11849535	1	None	DKFZp434E1410, RP11-56N19.2
1	C1orf167	ENSG00000215910	ENST00000449278	protein_coding	PUTATIVE	None	25262	1598	531	11839874	11849535	1	None	DKFZp434E1410, RP11-56N19.2
1	C1orf167	ENSG00000215910	ENST00000475041	retained_intron	KNOWN	None	25262	None	None	11845228	11848012	1	None	DKFZp434E1410, RP11-56N19.2
1	C1orf167	ENSG00000215910	ENST00000482358	processed_transcript	KNOWN	None	25262	None	None	11847869	11849642	1	None	DKFZp434E1410, RP11-56N19.2
1	C1orf167	ENSG00000215910	ENST00000433342	protein_coding	KNOWN	None	25262	4422	1473	11821844	11849641	1	None	DKFZp434E1410, RP11-56N19.2
1	C1orf167	ENSG00000215910	ENST00000435090	protein_coding	KNOWN	None	25262	729	242	11824462	11826801	1	None	DKFZp434E1410, RP11-56N19.2
17	KRT28	ENSG00000173908	ENST00000306658	protein_coding	KNOWN	CCDS11376	30842	1395	464	38948455	38956211	-1	KRT25D	None
1	DARS2	ENSG00000117593	ENST00000361951	protein_coding	KNOWN	CCDS1311	25538	1938	645	173793641	173827684	1	None	FLJ10514
1	DARS2	ENSG00000117593	ENST00000471476	processed_transcript	KNOWN	None	25538	None	None	173810051	173826976	1	None	FLJ10514
1	DARS2	ENSG00000117593	ENST00000460076	processed_transcript	KNOWN	None	25538	None	None	173819508	173821156	1	None	FLJ10514
1	DARS2	ENSG00000117593	ENST00000239457	protein_coding	KNOWN	None	25538	573	190	173793797	173827682	1	None	FLJ10514
9	None	ENSG00000225434	ENST00000451596	lincRNA	KNOWN	None	None	None	None	74920346	74930380	1	None	None
9	None	ENSG00000225434	ENST00000436054	lincRNA	KNOWN	None	None	None	None	74920352	74958126	1	None	None
9	None	ENSG00000225434	ENST00000451152	lincRNA	KNOWN	None	None	None	None	74920433	74930380	1	None	None
11	OR51F1	ENSG00000188069	ENST00000343430	protein_coding	KNOWN	CCDS31359	15196	939	312	4790209	4791147	-1	OR51F1P	None
11	OR51F1	ENSG00000188069	ENST00000380383	protein_coding	KNOWN	None	15196	960	319	4790209	4791168	-1	OR51F1P	None
3	COMMD2	ENSG00000114744	ENST00000473414	protein_coding	KNOWN	CCDS3145	24993	600	199	149456257	149470286	-1	None	HSPC042
3	COMMD2	ENSG00000114744	ENST00000491617	nonsense_mediated_decay	KNOWN	None	24993	408	135	149459177	149470259	-1	None	HSPC042
3	COMMD2	ENSG00000114744	ENST00000463077	retained_intron	KNOWN	None	24993	None	None	149459213	149470185	-1	None	HSPC042
3	COMMD2	ENSG00000114744	ENST00000483708	nonsense_mediated_decay	KNOWN	None	24993	366	121	149459362	149470237	-1	None	HSPC042
3	COMMD2	ENSG00000114744	ENST00000469896	retained_intron	KNOWN	None	24993	None	None	149468290	149470282	-1	None	HSPC042
3	COMMD2	ENSG00000114744	ENST00000483146	retained_intron	KNOWN	None	24993	None	None	149468574	149469845	-1	None	HSPC042
3	COMMD2	ENSG00000114744	ENST00000490008	retained_intron	KNOWN	None	24993	None	None	149469598	149470276	-1	None	HSPC042
6	COL19A1	ENSG00000082293	ENST00000322773	protein_coding	KNOWN	CCDS4970	2196	3429	1142	70576463	70919679	1	None	None
6	COL19A1	ENSG00000082293	ENST00000478620	processed_transcript	PUTATIVE	None	2196	None	None	70577441	70589687	1	None	None
6	COL19A1	ENSG00000082293	ENST00000476656	processed_transcript	KNOWN	None	2196	None	None	70577441	70601112	1	None	None
6	COL19A1	ENSG00000082293	ENST00000483745	processed_transcript	KNOWN	None	2196	None	None	70646764	70684088	1	None	None
6	COL19A1	ENSG00000082293	ENST00000393344	protein_coding	PUTATIVE	None	2196	2295	764	70769627	70919679	1	None	None
6	COL19A1	ENSG00000082293	ENST00000455415	protein_coding	PUTATIVE	None	2196	111	36	70831772	70841095	1	None	None
12	PLEKHG6	ENSG00000008323	ENST00000011684	protein_coding	KNOWN	CCDS8541	25562	2373	790	6419602	6437671	1	None	FLJ10665
12	PLEKHG6	ENSG00000008323	ENST00000536531	protein_coding	NOVEL	None	25562	1488	495	6419904	6428139	1	None	FLJ10665
12	PLEKHG6	ENSG00000008323	ENST00000538208	processed_transcript	PUTATIVE	None	25562	None	None	6419976	6421689	1	None	FLJ10665
12	PLEKHG6	ENSG00000008323	ENST00000396988	protein_coding	NOVEL	CCDS8541	25562	2373	790	6420099	6437671	1	None	FLJ10665
12	PLEKHG6	ENSG00000008323	ENST00000449001	protein_coding	KNOWN	CCDS44808	25562	2277	758	6421817	6437651	1	None	FLJ10665
12	PLEKHG6	ENSG00000008323	ENST00000543000	processed_transcript	PUTATIVE	None	25562	None	None	6426733	6427529	1	None	FLJ10665
12	PLEKHG6	ENSG00000008323	ENST00000535616	processed_transcript	KNOWN	None	25562	None	None	6427909	6428372	1	None	FLJ10665
12	PLEKHG6	ENSG00000008323	ENST00000544743	processed_transcript	PUTATIVE	None	25562	None	None	6427929	6428761	1	None	FLJ10665
12	PLEKHG6	ENSG00000008323	ENST00000304581	protein_coding	KNOWN	None	25562	963	320	6428626	6437672	1	None	FLJ10665
HSCHR6_MHC_COX	LYPLA2P1	ENSG00000232639	ENST00000419760	processed_pseudogene	KNOWN	None	21069	None	None	33254935	33255630	-1	LYPLA2L	dJ570F3.6, APT
HSCHR6_MHC_COX	LYPLA2P1	ENSG00000232639	ENST00000550624	processed_pseudogene	KNOWN	None	21069	None	None	33254836	33255630	-1	LYPLA2L	dJ570F3.6, APT
11	OR52R1	ENSG00000176937	ENST00000356069	protein_coding	KNOWN	CCDS31360	15235	948	315	4824663	4825610	-1	None	None
11	OR52R1	ENSG00000176937	ENST00000380382	protein_coding	KNOWN	None	15235	1185	394	4824663	4825847	-1	None	None
11	AP2A2	ENSG00000183020	ENST00000529818	processed_transcript	KNOWN	None	562	None	None	924894	977193	1	CLAPA2, ADTAB	DKFZP564D1864, HYPJ, KIAA0899, HIP9
11	AP2A2	ENSG00000183020	ENST00000529858	processed_transcript	KNOWN	None	562	None	None	925870	970233	1	CLAPA2, ADTAB	DKFZP564D1864, HYPJ, KIAA0899, HIP9
11	AP2A2	ENSG00000183020	ENST00000525796	protein_coding	PUTATIVE	None	562	377	124	925872	985477	1	CLAPA2, ADTAB	DKFZP564D1864, HYPJ, KIAA0899, HIP9
11	AP2A2	ENSG00000183020	ENST00000534328	protein_coding	PUTATIVE	None	562	1137	378	925880	1010919	1	CLAPA2, ADTAB	DKFZP564D1864, HYPJ, KIAA0899, HIP9
11	AP2A2	ENSG00000183020	ENST00000448903	protein_coding	KNOWN	CCDS44512	562	2820	939	925881	1012239	1	CLAPA2, ADTAB	DKFZP564D1864, HYPJ, KIAA0899, HIP9
11	AP2A2	ENSG00000183020	ENST00000528815	nonsense_mediated_decay	KNOWN	None	562	1971	656	925900	1010919	1	CLAPA2, ADTAB	DKFZP564D1864, HYPJ, KIAA0899, HIP9
11	AP2A2	ENSG00000183020	ENST00000528195	processed_transcript	KNOWN	None	562	None	None	925945	1000483	1	CLAPA2, ADTAB	DKFZP564D1864, HYPJ, KIAA0899, HIP9
11	AP2A2	ENSG00000183020	ENST00000531548	protein_coding	PUTATIVE	None	562	554	183	932693	977157	1	CLAPA2, ADTAB	DKFZP564D1864, HYPJ, KIAA0899, HIP9
11	AP2A2	ENSG00000183020	ENST00000534485	protein_coding	PUTATIVE	None	562	556	184	933561	977207	1	CLAPA2, ADTAB	DKFZP564D1864, HYPJ, KIAA0899, HIP9
11	AP2A2	ENSG00000183020	ENST00000527024	protein_coding	PUTATIVE	None	562	416	137	940735	972216	1	CLAPA2, ADTAB	DKFZP564D1864, HYPJ, KIAA0899, HIP9
11	AP2A2	ENSG00000183020	ENST00000526753	protein_coding	PUTATIVE	None	562	187	61	942279	972197	1	CLAPA2, ADTAB	DKFZP564D1864, HYPJ, KIAA0899, HIP9
11	AP2A2	ENSG00000183020	ENST00000530801	protein_coding	PUTATIVE	None	562	181	59	943100	972191	1	CLAPA2, ADTAB	DKFZP564D1864, HYPJ, KIAA0899, HIP9
11	AP2A2	ENSG00000183020	ENST00000524559	protein_coding	PUTATIVE	None	562	271	89	946461	977120	1	CLAPA2, ADTAB	DKFZP564D1864, HYPJ, KIAA0899, HIP9
11	AP2A2	ENSG00000183020	ENST00000527917	retained_intron	KNOWN	None	562	None	None	985384	986846	1	CLAPA2, ADTAB	DKFZP564D1864, HYPJ, KIAA0899, HIP9
11	AP2A2	ENSG00000183020	ENST00000524952	retained_intron	KNOWN	None	562	None	None	985538	988827	1	CLAPA2, ADTAB	DKFZP564D1864, HYPJ, KIAA0899, HIP9
11	AP2A2	ENSG00000183020	ENST00000525891	processed_transcript	KNOWN	None	562	None	None	996064	1009216	1	CLAPA2, ADTAB	DKFZP564D1864, HYPJ, KIAA0899, HIP9
11	AP2A2	ENSG00000183020	ENST00000529438	processed_transcript	KNOWN	None	562	None	None	1001326	1009366	1	CLAPA2, ADTAB	DKFZP564D1864, HYPJ, KIAA0899, HIP9
11	AP2A2	ENSG00000183020	ENST00000526401	retained_intron	KNOWN	None	562	None	None	1003667	1009774	1	CLAPA2, ADTAB	DKFZP564D1864, HYPJ, KIAA0899, HIP9
11	AP2A2	ENSG00000183020	ENST00000526376	retained_intron	KNOWN	None	562	None	None	1003732	1007040	1	CLAPA2, ADTAB	DKFZP564D1864, HYPJ, KIAA0899, HIP9
11	AP2A2	ENSG00000183020	ENST00000529427	retained_intron	KNOWN	None	562	None	None	1006544	1008282	1	CLAPA2, ADTAB	DKFZP564D1864, HYPJ, KIAA0899, HIP9
11	AP2A2	ENSG00000183020	ENST00000531497	retained_intron	KNOWN	None	562	None	None	1006709	1010926	1	CLAPA2, ADTAB	DKFZP564D1864, HYPJ, KIAA0899, HIP9
11	AP2A2	ENSG00000183020	ENST00000528816	retained_intron	KNOWN	None	562	None	None	1009355	1010237	1	CLAPA2, ADTAB	DKFZP564D1864, HYPJ, KIAA0899, HIP9
11	AP2A2	ENSG00000183020	ENST00000332231	protein_coding	KNOWN	None	562	2823	940	925881	1010917	1	CLAPA2, ADTAB	DKFZP564D1864, HYPJ, KIAA0899, HIP9
X	YY2	ENSG00000230797	ENST00000429584	protein_coding	KNOWN	CCDS14202	31684	1119	372	21874105	21876845	1	None	ZNF631
1	FAM110D	ENSG00000197245	ENST00000374268	protein_coding	KNOWN	CCDS41285	25860	816	271	26485511	26489119	1	GRRP1	FLJ14050
14	DAD1	ENSG00000129562	ENST00000250498	protein_coding	KNOWN	CCDS9571	2664	342	113	23033805	23058175	-1	None	OST2
14	DAD1	ENSG00000129562	ENST00000489532	processed_transcript	KNOWN	None	2664	None	None	23033807	23043989	-1	None	OST2
14	DAD1	ENSG00000129562	ENST00000535847	nonsense_mediated_decay	KNOWN	None	2664	198	65	23033807	23058126	-1	None	OST2
14	DAD1	ENSG00000129562	ENST00000538631	protein_coding	PUTATIVE	None	2664	237	78	23033808	23058063	-1	None	OST2
14	DAD1	ENSG00000129562	ENST00000543337	protein_coding	NOVEL	None	2664	258	85	23033904	23058128	-1	None	OST2
11	OR51F2	ENSG00000176925	ENST00000322110	protein_coding	KNOWN	CCDS31361	15197	1029	342	4842551	4843686	1	None	None
6	DDR1-AS1	ENSG00000237775	ENST00000458361	antisense	KNOWN	None	28694	None	None	30834759	30843695	-1	TIGD1L	bPG70P20.2, bCX111D4.7, bQB10J12.1
6	MIR4640	ENSG00000264594	ENST00000581824	miRNA	KNOWN	None	41561	None	None	30858660	30858749	1	None	hsa-mir-4640
6	RN7SL175P	ENSG00000264731	ENST00000580375	misc_RNA	KNOWN	None	46191	None	None	30874655	30874913	1	None	None
15	PGBD4	ENSG00000182405	ENST00000397766	protein_coding	KNOWN	CCDS10033	19401	1758	585	34394274	34396591	1	None	FLJ32638, FLJ37497
6	None	ENSG00000252761	ENST00000516952	misc_RNA	NOVEL	None	None	None	None	30900395	30900486	-1	None	None
16	None	ENSG00000259926	ENST00000565073	sense_intronic	KNOWN	None	None	None	None	53482660	53483502	1	None	None
11	OR51S1	ENSG00000176922	ENST00000322101	protein_coding	KNOWN	CCDS31362	15204	972	323	4869427	4870514	-1	None	None
6	HCG21	ENSG00000233529	ENST00000419481	antisense	KNOWN	None	31335	None	None	30913756	30922639	-1	None	AB023048.2, NCRNA00150
21	BACE2	ENSG00000182240	ENST00000330333	protein_coding	KNOWN	CCDS13668	934	1557	518	42539728	42648524	1	AEPLC	CEAP1, DRAP, ALP56
21	BACE2	ENSG00000182240	ENST00000347667	protein_coding	KNOWN	CCDS13669	934	1407	468	42539728	42648524	1	AEPLC	CEAP1, DRAP, ALP56
21	BACE2	ENSG00000182240	ENST00000328735	protein_coding	KNOWN	CCDS13670	934	1191	396	42539728	42648524	1	AEPLC	CEAP1, DRAP, ALP56
21	BACE2	ENSG00000182240	ENST00000470864	processed_transcript	KNOWN	None	934	None	None	42597403	42613766	1	AEPLC	CEAP1, DRAP, ALP56
21	BACE2	ENSG00000182240	ENST00000487994	processed_transcript	KNOWN	None	934	None	None	42598193	42647308	1	AEPLC	CEAP1, DRAP, ALP56
21	BACE2	ENSG00000182240	ENST00000491838	retained_intron	KNOWN	None	934	None	None	42598230	42618198	1	AEPLC	CEAP1, DRAP, ALP56
21	BACE2	ENSG00000182240	ENST00000466122	processed_transcript	KNOWN	None	934	None	None	42602045	42648524	1	AEPLC	CEAP1, DRAP, ALP56
21	BACE2	ENSG00000182240	ENST00000465326	processed_transcript	KNOWN	None	934	None	None	42608555	42629253	1	AEPLC	CEAP1, DRAP, ALP56
21	BACE2	ENSG00000182240	ENST00000463674	processed_transcript	PUTATIVE	None	934	None	None	42613672	42647551	1	AEPLC	CEAP1, DRAP, ALP56
21	BACE2	ENSG00000182240	ENST00000475618	processed_transcript	KNOWN	None	934	None	None	42624392	42629253	1	AEPLC	CEAP1, DRAP, ALP56
16	None	ENSG00000262557	ENST00000571523	3prime_overlapping_ncrna	KNOWN	None	None	None	None	53524952	53527880	-1	None	None
X	FXYD6P3	ENSG00000182707	ENST00000495569	processed_pseudogene	KNOWN	None	31124	None	None	73094903	73095470	1	FXYD8	None
HSCHR6_MHC_COX	PRRT1	ENSG00000229071	ENST00000464188	processed_transcript	KNOWN	None	13943	None	None	32064598	32066096	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_COX	PRRT1	ENSG00000229071	ENST00000464136	retained_intron	KNOWN	None	13943	None	None	32064598	32068162	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_COX	PRRT1	ENSG00000229071	ENST00000488855	processed_transcript	KNOWN	None	13943	None	None	32064598	32068176	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_COX	PRRT1	ENSG00000229071	ENST00000419655	protein_coding	KNOWN	None	13943	921	306	32064598	32068191	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_COX	PRRT1	ENSG00000229071	ENST00000423671	protein_coding	KNOWN	None	13943	678	225	32064598	32069324	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_COX	PRRT1	ENSG00000229071	ENST00000437574	protein_coding	KNOWN	None	13943	188	61	32066734	32070614	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_COX	PRRT1	ENSG00000229071	ENST00000470230	processed_transcript	KNOWN	None	13943	None	None	32068221	32070201	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_COX	PRRT1	ENSG00000229071	ENST00000466536	processed_transcript	KNOWN	None	13943	None	None	32069042	32070149	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_COX	PRRT1	ENSG00000229071	ENST00000487140	processed_transcript	KNOWN	None	13943	None	None	32069042	32070574	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_COX	PRRT1	ENSG00000229071	ENST00000470242	processed_transcript	KNOWN	None	13943	None	None	32069042	32070606	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_COX	PRRT1	ENSG00000229071	ENST00000471346	processed_transcript	KNOWN	None	13943	None	None	32069581	32070580	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_COX	PRRT1	ENSG00000229071	ENST00000476447	processed_transcript	PUTATIVE	None	13943	None	None	32069626	32070567	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_COX	PRRT1	ENSG00000229071	ENST00000548904	protein_coding	KNOWN	None	13943	678	225	32064603	32068342	-1	C6orf31	NG5, IFITMD7
1	ZNF593	ENSG00000142684	ENST00000374266	protein_coding	KNOWN	CCDS275	30943	405	134	26496362	26498551	1	None	ZT86
1	ZNF593	ENSG00000142684	ENST00000270812	protein_coding	PUTATIVE	None	30943	471	156	26496433	26498551	1	None	ZT86
11	OR51H1P	ENSG00000176904	ENST00000322059	protein_coding	PUTATIVE	None	14833	909	302	4880886	4881794	-1	OR51H1	None
6	HCG22	ENSG00000228789	ENST00000565192	lincRNA	KNOWN	None	27780	None	None	31021227	31027667	1	None	FLJ37114, PBMUCL2
6	HCG22	ENSG00000228789	ENST00000562344	lincRNA	KNOWN	None	27780	None	None	31021277	31024251	1	None	FLJ37114, PBMUCL2
6	HCG22	ENSG00000228789	ENST00000570223	lincRNA	KNOWN	None	27780	None	None	31021979	31023778	1	None	FLJ37114, PBMUCL2
6	HCG22	ENSG00000228789	ENST00000566475	lincRNA	KNOWN	None	27780	None	None	31021984	31027434	1	None	FLJ37114, PBMUCL2
6	HCG22	ENSG00000228789	ENST00000426185	lincRNA	KNOWN	None	27780	None	None	31021984	31027653	1	None	FLJ37114, PBMUCL2
16	None	ENSG00000261630	ENST00000564801	antisense	KNOWN	None	None	None	None	54015141	54015824	-1	None	None
16	None	ENSG00000260194	ENST00000565641	antisense	KNOWN	None	None	None	None	54032225	54033881	-1	None	None
2	IMP4	ENSG00000136718	ENST00000259239	protein_coding	KNOWN	CCDS2160	30856	876	291	131099798	131104197	1	None	MGC19606, BXDC4
2	IMP4	ENSG00000136718	ENST00000409935	protein_coding	NOVEL	None	30856	747	248	131100450	131104092	1	None	MGC19606, BXDC4
2	IMP4	ENSG00000136718	ENST00000490895	retained_intron	KNOWN	None	30856	None	None	131100467	131103625	1	None	MGC19606, BXDC4
2	IMP4	ENSG00000136718	ENST00000464432	retained_intron	KNOWN	None	30856	None	None	131100467	131103984	1	None	MGC19606, BXDC4
2	IMP4	ENSG00000136718	ENST00000462392	retained_intron	KNOWN	None	30856	None	None	131100467	131104924	1	None	MGC19606, BXDC4
2	IMP4	ENSG00000136718	ENST00000473689	retained_intron	KNOWN	None	30856	None	None	131100469	131103845	1	None	MGC19606, BXDC4
2	IMP4	ENSG00000136718	ENST00000470672	retained_intron	KNOWN	None	30856	None	None	131100470	131102519	1	None	MGC19606, BXDC4
2	IMP4	ENSG00000136718	ENST00000477375	retained_intron	KNOWN	None	30856	None	None	131100470	131103334	1	None	MGC19606, BXDC4
2	IMP4	ENSG00000136718	ENST00000409649	protein_coding	NOVEL	None	30856	517	171	131100483	131103937	1	None	MGC19606, BXDC4
2	IMP4	ENSG00000136718	ENST00000456713	nonsense_mediated_decay	KNOWN	None	30856	231	76	131100485	131103259	1	None	MGC19606, BXDC4
2	IMP4	ENSG00000136718	ENST00000495606	retained_intron	KNOWN	None	30856	None	None	131100491	131102593	1	None	MGC19606, BXDC4
2	IMP4	ENSG00000136718	ENST00000460766	retained_intron	KNOWN	None	30856	None	None	131100495	131105383	1	None	MGC19606, BXDC4
2	IMP4	ENSG00000136718	ENST00000428740	protein_coding	NOVEL	None	30856	710	235	131100497	131104040	1	None	MGC19606, BXDC4
2	IMP4	ENSG00000136718	ENST00000452955	protein_coding	NOVEL	None	30856	842	279	131100843	131104122	1	None	MGC19606, BXDC4
2	IMP4	ENSG00000136718	ENST00000460100	retained_intron	KNOWN	None	30856	None	None	131103206	131104195	1	None	MGC19606, BXDC4
2	IMP4	ENSG00000136718	ENST00000462357	retained_intron	KNOWN	None	30856	None	None	131103215	131103914	1	None	MGC19606, BXDC4
2	IMP4	ENSG00000136718	ENST00000475074	retained_intron	KNOWN	None	30856	None	None	131103518	131104198	1	None	MGC19606, BXDC4
19	RANBP3	ENSG00000031823	ENST00000439268	protein_coding	KNOWN	CCDS45935	9850	1689	562	5916150	5978119	-1	None	None
19	RANBP3	ENSG00000031823	ENST00000340578	protein_coding	KNOWN	CCDS42478	9850	1704	567	5916150	5978151	-1	None	None
19	RANBP3	ENSG00000031823	ENST00000592771	nonsense_mediated_decay	KNOWN	None	9850	225	74	5917327	5978096	-1	None	None
19	RANBP3	ENSG00000031823	ENST00000586344	retained_intron	KNOWN	None	9850	None	None	5917333	5934473	-1	None	None
19	RANBP3	ENSG00000031823	ENST00000591092	protein_coding	NOVEL	None	9850	1485	494	5917334	5978104	-1	None	None
19	RANBP3	ENSG00000031823	ENST00000034275	protein_coding	KNOWN	CCDS42477	9850	1500	499	5917363	5978097	-1	None	None
19	RANBP3	ENSG00000031823	ENST00000587479	protein_coding	PUTATIVE	None	9850	465	154	5917651	5978153	-1	None	None
19	RANBP3	ENSG00000031823	ENST00000592197	retained_intron	KNOWN	None	9850	None	None	5918414	5923885	-1	None	None
19	RANBP3	ENSG00000031823	ENST00000587411	retained_intron	KNOWN	None	9850	None	None	5920903	5933329	-1	None	None
19	RANBP3	ENSG00000031823	ENST00000592621	protein_coding	PUTATIVE	None	9850	366	121	5923205	5978090	-1	None	None
19	RANBP3	ENSG00000031823	ENST00000587799	retained_intron	KNOWN	None	9850	None	None	5923226	5925776	-1	None	None
19	RANBP3	ENSG00000031823	ENST00000590623	protein_coding	PUTATIVE	None	9850	153	50	5924838	5978107	-1	None	None
19	RANBP3	ENSG00000031823	ENST00000591736	protein_coding	PUTATIVE	None	9850	515	170	5925663	5978151	-1	None	None
19	RANBP3	ENSG00000031823	ENST00000593025	retained_intron	KNOWN	None	9850	None	None	5925675	5928455	-1	None	None
19	RANBP3	ENSG00000031823	ENST00000590953	processed_transcript	KNOWN	None	9850	None	None	5928027	5978108	-1	None	None
19	RANBP3	ENSG00000031823	ENST00000588879	processed_transcript	KNOWN	None	9850	None	None	5928073	5978151	-1	None	None
19	RANBP3	ENSG00000031823	ENST00000587159	protein_coding	PUTATIVE	None	9850	523	173	5928291	5978124	-1	None	None
19	RANBP3	ENSG00000031823	ENST00000586117	processed_transcript	KNOWN	None	9850	None	None	5931462	5978104	-1	None	None
19	RANBP3	ENSG00000031823	ENST00000589353	nonsense_mediated_decay	KNOWN	None	9850	234	77	5931507	5978104	-1	None	None
19	RANBP3	ENSG00000031823	ENST00000587463	nonsense_mediated_decay	KNOWN	None	9850	189	62	5931512	5978151	-1	None	None
19	RANBP3	ENSG00000031823	ENST00000588010	nonsense_mediated_decay	KNOWN	None	9850	222	73	5931524	5978104	-1	None	None
19	RANBP3	ENSG00000031823	ENST00000585339	nonsense_mediated_decay	KNOWN	None	9850	117	38	5932463	5978104	-1	None	None
19	RANBP3	ENSG00000031823	ENST00000591124	processed_transcript	KNOWN	None	9850	None	None	5932463	5978108	-1	None	None
19	RANBP3	ENSG00000031823	ENST00000592133	nonsense_mediated_decay	KNOWN	None	9850	246	81	5933423	5978099	-1	None	None
19	RANBP3	ENSG00000031823	ENST00000591881	processed_transcript	KNOWN	None	9850	None	None	5933428	5978096	-1	None	None
19	RANBP3	ENSG00000031823	ENST00000589886	processed_transcript	KNOWN	None	9850	None	None	5933431	5978104	-1	None	None
19	RANBP3	ENSG00000031823	ENST00000587263	nonsense_mediated_decay	KNOWN	None	9850	327	108	5933485	5978104	-1	None	None
19	RANBP3	ENSG00000031823	ENST00000587956	processed_transcript	KNOWN	None	9850	None	None	5941632	5978099	-1	None	None
19	RANBP3	ENSG00000031823	ENST00000591333	protein_coding	PUTATIVE	None	9850	419	138	5941682	5978104	-1	None	None
19	RANBP3	ENSG00000031823	ENST00000592266	retained_intron	KNOWN	None	9850	None	None	5950588	5978104	-1	None	None
19	RANBP3	ENSG00000031823	ENST00000541471	protein_coding	KNOWN	None	9850	1320	439	5917329	5978151	-1	None	None
11	OR51T1	ENSG00000176900	ENST00000322049	protein_coding	KNOWN	None	15205	984	327	4903130	4904113	1	None	None
11	OR51T1	ENSG00000176900	ENST00000380378	protein_coding	KNOWN	CCDS31363	15205	1065	354	4903049	4904113	1	None	None
16	None	ENSG00000261049	ENST00000563879	antisense	KNOWN	None	None	None	None	54067909	54088495	-1	None	None
3	IL17RD	ENSG00000144730	ENST00000296318	protein_coding	KNOWN	CCDS2880	17616	2220	739	57124010	57199403	-1	None	SEF, IL17RLM, FLJ35755, IL-17RD
3	IL17RD	ENSG00000144730	ENST00000320057	protein_coding	KNOWN	None	17616	1788	595	57128278	57204334	-1	None	SEF, IL17RLM, FLJ35755, IL-17RD
3	IL17RD	ENSG00000144730	ENST00000463523	protein_coding	KNOWN	None	17616	1788	595	57130206	57176519	-1	None	SEF, IL17RLM, FLJ35755, IL-17RD
3	IL17RD	ENSG00000144730	ENST00000469841	retained_intron	KNOWN	None	17616	None	None	57131501	57204323	-1	None	SEF, IL17RLM, FLJ35755, IL-17RD
3	IL17RD	ENSG00000144730	ENST00000467210	protein_coding	KNOWN	None	17616	220	72	57139980	57204323	-1	None	SEF, IL17RLM, FLJ35755, IL-17RD
3	IL17RD	ENSG00000144730	ENST00000479825	processed_transcript	KNOWN	None	17616	None	None	57148769	57199403	-1	None	SEF, IL17RLM, FLJ35755, IL-17RD
3	IL17RD	ENSG00000144730	ENST00000498471	processed_transcript	KNOWN	None	17616	None	None	57184318	57199206	-1	None	SEF, IL17RLM, FLJ35755, IL-17RD
3	IL17RD	ENSG00000144730	ENST00000427856	protein_coding	KNOWN	None	17616	2148	715	57128278	57176534	-1	None	SEF, IL17RLM, FLJ35755, IL-17RD
16	FTO-IT1	ENSG00000260936	ENST00000563011	sense_intronic	KNOWN	None	43758	None	None	54073305	54074638	1	None	None
7	HGF	ENSG00000019991	ENST00000222390	protein_coding	KNOWN	CCDS5597	4893	2187	728	81328322	81399514	-1	DFNB39	SF, F-TCF, HGFB, HPTA
7	HGF	ENSG00000019991	ENST00000457544	protein_coding	KNOWN	CCDS47626	4893	2172	723	81331897	81399364	-1	DFNB39	SF, F-TCF, HGFB, HPTA
7	HGF	ENSG00000019991	ENST00000444829	protein_coding	KNOWN	CCDS47627	4893	873	290	81372007	81399347	-1	DFNB39	SF, F-TCF, HGFB, HPTA
7	HGF	ENSG00000019991	ENST00000453411	protein_coding	KNOWN	CCDS47628	4893	858	285	81372048	81399330	-1	DFNB39	SF, F-TCF, HGFB, HPTA
7	HGF	ENSG00000019991	ENST00000423064	protein_coding	KNOWN	CCDS47629	4893	633	210	81380205	81399421	-1	DFNB39	SF, F-TCF, HGFB, HPTA
7	HGF	ENSG00000019991	ENST00000465234	retained_intron	KNOWN	None	4893	None	None	81381232	81399315	-1	DFNB39	SF, F-TCF, HGFB, HPTA
7	HGF	ENSG00000019991	ENST00000453018	protein_coding	PUTATIVE	None	4893	177	58	81386302	81392312	-1	DFNB39	SF, F-TCF, HGFB, HPTA
7	HGF	ENSG00000019991	ENST00000412881	protein_coding	KNOWN	None	4893	425	140	81386562	81399714	-1	DFNB39	SF, F-TCF, HGFB, HPTA
7	HGF	ENSG00000019991	ENST00000421558	protein_coding	KNOWN	None	4893	355	117	81388020	81399754	-1	DFNB39	SF, F-TCF, HGFB, HPTA
7	HGF	ENSG00000019991	ENST00000354224	protein_coding	KNOWN	None	4893	555	184	81384437	81399287	-1	DFNB39	SF, F-TCF, HGFB, HPTA
12	RAP1B	ENSG00000127314	ENST00000250559	protein_coding	KNOWN	CCDS8984	9857	555	184	69004619	69054372	1	None	K-REV, RAL1B, DKFZp586H0723
12	RAP1B	ENSG00000127314	ENST00000460800	processed_transcript	PUTATIVE	None	9857	None	None	69004635	69044662	1	None	K-REV, RAL1B, DKFZp586H0723
12	RAP1B	ENSG00000127314	ENST00000393436	protein_coding	KNOWN	CCDS8984	9857	555	184	69004638	69054302	1	None	K-REV, RAL1B, DKFZp586H0723
12	RAP1B	ENSG00000127314	ENST00000501412	retained_intron	KNOWN	None	9857	None	None	69004679	69043821	1	None	K-REV, RAL1B, DKFZp586H0723
12	RAP1B	ENSG00000127314	ENST00000425247	protein_coding	PUTATIVE	None	9857	472	156	69004679	69053063	1	None	K-REV, RAL1B, DKFZp586H0723
12	RAP1B	ENSG00000127314	ENST00000489473	protein_coding	KNOWN	None	9857	33	10	69004688	69042537	1	None	K-REV, RAL1B, DKFZp586H0723
12	RAP1B	ENSG00000127314	ENST00000422358	protein_coding	KNOWN	None	9857	98	31	69004688	69044220	1	None	K-REV, RAL1B, DKFZp586H0723
12	RAP1B	ENSG00000127314	ENST00000541167	protein_coding	KNOWN	None	9857	279	92	69004688	69047987	1	None	K-REV, RAL1B, DKFZp586H0723
12	RAP1B	ENSG00000127314	ENST00000538283	protein_coding	KNOWN	None	9857	304	100	69004688	69048012	1	None	K-REV, RAL1B, DKFZp586H0723
12	RAP1B	ENSG00000127314	ENST00000341355	protein_coding	KNOWN	CCDS8984	9857	555	184	69004688	69050971	1	None	K-REV, RAL1B, DKFZp586H0723
12	RAP1B	ENSG00000127314	ENST00000537460	protein_coding	KNOWN	CCDS8984	9857	555	184	69004688	69053181	1	None	K-REV, RAL1B, DKFZp586H0723
12	RAP1B	ENSG00000127314	ENST00000463493	processed_transcript	KNOWN	None	9857	None	None	69004688	69053277	1	None	K-REV, RAL1B, DKFZp586H0723
12	RAP1B	ENSG00000127314	ENST00000450214	protein_coding	NOVEL	CCDS58254	9857	429	142	69004688	69053904	1	None	K-REV, RAL1B, DKFZp586H0723
12	RAP1B	ENSG00000127314	ENST00000545270	protein_coding	KNOWN	None	9857	367	121	69004693	69050128	1	None	K-REV, RAL1B, DKFZp586H0723
12	RAP1B	ENSG00000127314	ENST00000538980	protein_coding	PUTATIVE	None	9857	365	120	69004698	69050930	1	None	K-REV, RAL1B, DKFZp586H0723
12	RAP1B	ENSG00000127314	ENST00000542018	protein_coding	KNOWN	None	9857	294	97	69004699	69048002	1	None	K-REV, RAL1B, DKFZp586H0723
12	RAP1B	ENSG00000127314	ENST00000543393	protein_coding	PUTATIVE	None	9857	357	118	69004699	69053406	1	None	K-REV, RAL1B, DKFZp586H0723
12	RAP1B	ENSG00000127314	ENST00000534899	protein_coding	KNOWN	None	9857	262	86	69004705	69047970	1	None	K-REV, RAL1B, DKFZp586H0723
12	RAP1B	ENSG00000127314	ENST00000453560	protein_coding	KNOWN	None	9857	383	126	69004705	69050144	1	None	K-REV, RAL1B, DKFZp586H0723
12	RAP1B	ENSG00000127314	ENST00000378985	protein_coding	PUTATIVE	None	9857	357	118	69004705	69051493	1	None	K-REV, RAL1B, DKFZp586H0723
12	RAP1B	ENSG00000127314	ENST00000540209	protein_coding	NOVEL	CCDS58253	9857	498	165	69004705	69053650	1	None	K-REV, RAL1B, DKFZp586H0723
12	RAP1B	ENSG00000127314	ENST00000540781	protein_coding	KNOWN	None	9857	417	138	69004709	69050178	1	None	K-REV, RAL1B, DKFZp586H0723
12	RAP1B	ENSG00000127314	ENST00000535492	protein_coding	PUTATIVE	None	9857	309	102	69004709	69050919	1	None	K-REV, RAL1B, DKFZp586H0723
12	RAP1B	ENSG00000127314	ENST00000539091	protein_coding	NOVEL	CCDS58254	9857	429	142	69004709	69053427	1	None	K-REV, RAL1B, DKFZp586H0723
12	RAP1B	ENSG00000127314	ENST00000542145	protein_coding	NOVEL	CCDS58252	9857	414	137	69004709	69053534	1	None	K-REV, RAL1B, DKFZp586H0723
12	RAP1B	ENSG00000127314	ENST00000485252	protein_coding	KNOWN	None	9857	146	47	69004713	69045794	1	None	K-REV, RAL1B, DKFZp586H0723
12	RAP1B	ENSG00000127314	ENST00000541386	protein_coding	KNOWN	None	9857	33	10	69004718	69042537	1	None	K-REV, RAL1B, DKFZp586H0723
12	RAP1B	ENSG00000127314	ENST00000538877	protein_coding	KNOWN	None	9857	160	52	69004718	69045808	1	None	K-REV, RAL1B, DKFZp586H0723
12	RAP1B	ENSG00000127314	ENST00000543697	protein_coding	NOVEL	None	9857	411	136	69004719	69053221	1	None	K-REV, RAL1B, DKFZp586H0723
12	RAP1B	ENSG00000127314	ENST00000545720	protein_coding	KNOWN	None	9857	254	83	69004741	69047962	1	None	K-REV, RAL1B, DKFZp586H0723
12	RAP1B	ENSG00000127314	ENST00000541216	protein_coding	PUTATIVE	None	9857	540	179	69004805	69050417	1	None	K-REV, RAL1B, DKFZp586H0723
12	RAP1B	ENSG00000127314	ENST00000544639	retained_intron	KNOWN	None	9857	None	None	69044024	69050193	1	None	K-REV, RAL1B, DKFZp586H0723
12	RAP1B	ENSG00000127314	ENST00000541968	retained_intron	KNOWN	None	9857	None	None	69045462	69047999	1	None	K-REV, RAL1B, DKFZp586H0723
11	OR51A7	ENSG00000176895	ENST00000359350	protein_coding	KNOWN	CCDS31364	15188	939	312	4928600	4929538	1	None	None
17	KRT10	ENSG00000186395	ENST00000269576	protein_coding	KNOWN	CCDS11377	6413	1755	584	38974369	38978847	-1	KPP	K10, CK10
16	None	ENSG00000214696	ENST00000394645	pseudogene	NOVEL	None	None	None	None	54146970	54148378	1	None	None
19	None	ENSG00000271717	ENST00000605980	antisense	KNOWN	None	None	None	None	8287037	8304532	-1	None	None
11	OR51G2	ENSG00000176893	ENST00000322013	protein_coding	KNOWN	CCDS31365	15198	945	314	4935900	4936922	-1	None	None
16	None	ENSG00000259759	ENST00000557953	lincRNA	KNOWN	None	None	None	None	54273605	54274566	1	None	None
2	PDCD1	ENSG00000188389	ENST00000334409	protein_coding	KNOWN	CCDS33428	8760	867	288	242792033	242801060	-1	None	CD279, PD1
2	PDCD1	ENSG00000188389	ENST00000418831	nonsense_mediated_decay	KNOWN	None	8760	201	66	242792849	242801017	-1	None	CD279, PD1
2	PDCD1	ENSG00000188389	ENST00000343705	protein_coding	NOVEL	None	8760	366	121	242793385	242795038	-1	None	CD279, PD1
19	ECH1	ENSG00000104823	ENST00000601333	retained_intron	KNOWN	None	3149	None	None	39306062	39306910	-1	None	HPXEL
19	ECH1	ENSG00000104823	ENST00000221418	protein_coding	KNOWN	CCDS33014	3149	987	328	39306062	39322645	-1	None	HPXEL
19	ECH1	ENSG00000104823	ENST00000594391	retained_intron	KNOWN	None	3149	None	None	39306123	39308004	-1	None	HPXEL
19	ECH1	ENSG00000104823	ENST00000601778	protein_coding	NOVEL	None	3149	799	265	39306497	39322401	-1	None	HPXEL
19	ECH1	ENSG00000104823	ENST00000598707	retained_intron	KNOWN	None	3149	None	None	39306776	39322415	-1	None	HPXEL
19	ECH1	ENSG00000104823	ENST00000594164	nonsense_mediated_decay	KNOWN	None	3149	114	37	39307110	39322422	-1	None	HPXEL
19	ECH1	ENSG00000104823	ENST00000600178	retained_intron	KNOWN	None	3149	None	None	39307575	39322429	-1	None	HPXEL
19	ECH1	ENSG00000104823	ENST00000601060	retained_intron	KNOWN	None	3149	None	None	39307662	39322481	-1	None	HPXEL
19	ECH1	ENSG00000104823	ENST00000598316	retained_intron	KNOWN	None	3149	None	None	39307908	39322394	-1	None	HPXEL
19	ECH1	ENSG00000104823	ENST00000595470	protein_coding	PUTATIVE	None	3149	543	180	39307936	39322429	-1	None	HPXEL
19	ECH1	ENSG00000104823	ENST00000597089	retained_intron	KNOWN	None	3149	None	None	39321544	39322028	-1	None	HPXEL
19	ECH1	ENSG00000104823	ENST00000596118	retained_intron	KNOWN	None	3149	None	None	39321544	39322052	-1	None	HPXEL
19	ECH1	ENSG00000104823	ENST00000601094	protein_coding	PUTATIVE	None	3149	109	35	39321718	39322299	-1	None	HPXEL
19	ECH1	ENSG00000104823	ENST00000597805	processed_transcript	KNOWN	None	3149	None	None	39321718	39322406	-1	None	HPXEL
19	ECH1	ENSG00000104823	ENST00000597205	protein_coding	NOVEL	None	3149	166	54	39321718	39322415	-1	None	HPXEL
19	ECH1	ENSG00000104823	ENST00000595567	protein_coding	PUTATIVE	None	3149	52	16	39321775	39322314	-1	None	HPXEL
19	ECH1	ENSG00000104823	ENST00000602115	protein_coding	PUTATIVE	None	3149	209	68	39322090	39322388	-1	None	HPXEL
X	RPL7P57	ENSG00000224401	ENST00000423238	processed_pseudogene	KNOWN	None	35901	None	None	47700362	47701101	-1	None	None
X	ZNF630-AS1	ENSG00000238068	ENST00000436124	antisense	KNOWN	None	41215	None	None	47915699	47925971	1	None	None
16	None	ENSG00000261803	ENST00000566649	lincRNA	KNOWN	None	None	None	None	54399919	54404577	-1	None	None
16	None	ENSG00000261803	ENST00000562614	lincRNA	KNOWN	None	None	None	None	54401279	54404611	-1	None	None
3	SPTSSB	ENSG00000196542	ENST00000359175	protein_coding	KNOWN	CCDS33887	24045	231	76	161062580	161090668	-1	C3orf57	ADMP, ssSPTb
3	SPTSSB	ENSG00000196542	ENST00000497137	protein_coding	KNOWN	CCDS33887	24045	231	76	161063563	161089289	-1	C3orf57	ADMP, ssSPTb
3	SPTSSB	ENSG00000196542	ENST00000497374	retained_intron	KNOWN	None	24045	None	None	161077087	161089305	-1	C3orf57	ADMP, ssSPTb
11	OR51G1	ENSG00000176879	ENST00000321961	protein_coding	KNOWN	CCDS31366	14738	966	321	4944531	4945637	-1	OR51G3P	None
X	None	ENSG00000238473	ENST00000459223	snoRNA	NOVEL	None	None	None	None	47941136	47941239	1	None	None
X	None	ENSG00000230241	ENST00000421152	processed_pseudogene	KNOWN	None	None	None	None	47995036	47995537	-1	None	None
4	RN7SL776P	ENSG00000240772	ENST00000493390	misc_RNA	KNOWN	None	46792	None	None	168321648	168321905	-1	None	None
4	PHBP14	ENSG00000248913	ENST00000512887	processed_pseudogene	KNOWN	None	39293	None	None	168569581	168569947	1	None	None
6	RNU6-1133P	ENSG00000222895	ENST00000410963	snRNA	KNOWN	None	48096	None	None	31050787	31050886	1	None	None
X	None	ENSG00000233139	ENST00000448031	processed_pseudogene	KNOWN	None	None	None	None	48013296	48015369	-1	None	None
4	RN7SKP188	ENSG00000222721	ENST00000410789	misc_RNA	KNOWN	None	45912	None	None	168584137	168584453	1	None	None
11	OR51A4	ENSG00000205497	ENST00000380373	protein_coding	KNOWN	CCDS31367	14795	942	313	4967355	4968356	-1	None	None
4	None	ENSG00000270336	ENST00000604961	processed_pseudogene	KNOWN	None	None	None	None	168663030	168663438	-1	None	None
6	RPL21P66	ENSG00000225343	ENST00000426566	processed_pseudogene	KNOWN	None	36476	None	None	132839969	132840434	-1	None	None
X	RNU6-707P	ENSG00000201517	ENST00000364647	snRNA	KNOWN	None	47670	None	None	48013408	48013502	-1	None	None
6	None	ENSG00000224999	ENST00000414044	processed_pseudogene	KNOWN	None	None	None	None	169696566	169698054	-1	None	None
15	UBE3A	ENSG00000114062	ENST00000232165	protein_coding	KNOWN	CCDS45191	12496	2619	872	25582381	25684128	-1	EPVE6AP, HPVE6A	AS, ANCR, E6-AP, FLJ26981
15	UBE3A	ENSG00000114062	ENST00000566215	protein_coding	PUTATIVE	CCDS32177	12496	2559	852	25584253	25683688	-1	EPVE6AP, HPVE6A	AS, ANCR, E6-AP, FLJ26981
15	UBE3A	ENSG00000114062	ENST00000397954	protein_coding	KNOWN	CCDS45192	12496	2628	875	25584284	25653795	-1	EPVE6AP, HPVE6A	AS, ANCR, E6-AP, FLJ26981
15	UBE3A	ENSG00000114062	ENST00000428984	protein_coding	KNOWN	CCDS32177	12496	2559	852	25584284	25653795	-1	EPVE6AP, HPVE6A	AS, ANCR, E6-AP, FLJ26981
15	UBE3A	ENSG00000114062	ENST00000604860	protein_coding	PUTATIVE	None	12496	539	178	25599180	25601977	-1	EPVE6AP, HPVE6A	AS, ANCR, E6-AP, FLJ26981
15	UBE3A	ENSG00000114062	ENST00000438097	protein_coding	KNOWN	CCDS32177	12496	2559	852	25582396	25650653	-1	EPVE6AP, HPVE6A	AS, ANCR, E6-AP, FLJ26981
4	None	ENSG00000248601	ENST00000506926	antisense	KNOWN	None	None	None	None	168867825	169034482	-1	None	None
6	TAAR7P	ENSG00000235998	ENST00000436141	unitary_pseudogene	KNOWN	None	31925	None	None	132880163	132880404	1	None	None
X	None	ENSG00000225198	ENST00000442971	unprocessed_pseudogene	KNOWN	None	None	None	None	48015795	48025778	1	None	None
17	TMEM99	ENSG00000167920	ENST00000436612	protein_coding	KNOWN	None	28305	569	188	38975358	38991337	1	None	MGC21518
17	TMEM99	ENSG00000167920	ENST00000301665	protein_coding	KNOWN	CCDS42319	28305	777	258	38975377	38992522	1	None	MGC21518
17	TMEM99	ENSG00000167920	ENST00000496847	processed_transcript	KNOWN	None	28305	None	None	38975412	38984518	1	None	MGC21518
6	None	ENSG00000226194	ENST00000433388	lincRNA	KNOWN	None	None	None	None	169770093	169788480	-1	None	None
6	None	ENSG00000226194	ENST00000440168	lincRNA	KNOWN	None	None	None	None	169773776	169788480	-1	None	None
4	None	ENSG00000238744	ENST00000459352	snoRNA	NOVEL	None	None	None	None	169231843	169231946	1	None	None
11	OR51A2	ENSG00000205496	ENST00000380371	protein_coding	KNOWN	CCDS31368	14764	942	313	4976002	4976943	-1	None	None
4	None	ENSG00000207171	ENST00000384442	snoRNA	NOVEL	None	None	None	None	169392560	169392690	1	None	None
9	DMRTA1	ENSG00000176399	ENST00000325870	protein_coding	KNOWN	CCDS6514	13826	1515	504	22446840	22452472	1	None	None
18	C18orf32	ENSG00000177576	ENST00000579820	protein_coding	KNOWN	CCDS32831	31690	231	76	47008028	47013622	-1	None	FLJ23458
18	C18orf32	ENSG00000177576	ENST00000318240	protein_coding	KNOWN	CCDS32831	31690	231	76	47008030	47013601	-1	None	FLJ23458
18	C18orf32	ENSG00000177576	ENST00000582392	protein_coding	KNOWN	CCDS32831	31690	231	76	47008436	47012983	-1	None	FLJ23458
6	None	ENSG00000265654	ENST00000579771	miRNA	NOVEL	None	None	None	None	170097344	170097429	1	None	None
6	None	ENSG00000232640	ENST00000413088	antisense	KNOWN	None	None	None	None	170125187	170125950	-1	None	None
X	None	ENSG00000238032	ENST00000440265	processed_pseudogene	KNOWN	None	None	None	None	48037167	48037459	-1	None	None
11	OR51L1	ENSG00000176798	ENST00000321543	protein_coding	KNOWN	CCDS31369	14759	948	315	5020213	5021160	1	None	None
11	FEZ1	ENSG00000149557	ENST00000526507	processed_transcript	KNOWN	None	3659	None	None	125315646	125321416	-1	None	None
11	FEZ1	ENSG00000149557	ENST00000527350	processed_transcript	KNOWN	None	3659	None	None	125315649	125351493	-1	None	None
11	FEZ1	ENSG00000149557	ENST00000278919	protein_coding	KNOWN	CCDS31716	3659	1179	392	125315657	125366206	-1	None	None
11	FEZ1	ENSG00000149557	ENST00000524427	retained_intron	KNOWN	None	3659	None	None	125315661	125326182	-1	None	None
11	FEZ1	ENSG00000149557	ENST00000530096	retained_intron	KNOWN	None	3659	None	None	125315743	125323824	-1	None	None
11	FEZ1	ENSG00000149557	ENST00000528863	retained_intron	KNOWN	None	3659	None	None	125318403	125324253	-1	None	None
11	FEZ1	ENSG00000149557	ENST00000532778	processed_transcript	KNOWN	None	3659	None	None	125322230	125322721	-1	None	None
11	FEZ1	ENSG00000149557	ENST00000392709	retained_intron	KNOWN	None	3659	None	None	125325346	125366213	-1	None	None
11	FEZ1	ENSG00000149557	ENST00000577924	protein_coding	PUTATIVE	None	3659	619	205	125325848	125351529	-1	None	None
11	FEZ1	ENSG00000149557	ENST00000533294	retained_intron	KNOWN	None	3659	None	None	125325906	125351652	-1	None	None
11	FEZ1	ENSG00000149557	ENST00000534022	retained_intron	KNOWN	None	3659	None	None	125330137	125333436	-1	None	None
11	FEZ1	ENSG00000149557	ENST00000532981	retained_intron	KNOWN	None	3659	None	None	125333146	125366114	-1	None	None
11	FEZ1	ENSG00000149557	ENST00000366139	protein_coding	PUTATIVE	CCDS44758	3659	315	104	125358823	125366173	-1	None	None
11	FEZ1	ENSG00000149557	ENST00000524435	protein_coding	KNOWN	CCDS44758	3659	315	104	125359247	125365561	-1	None	None
11	FEZ1	ENSG00000149557	ENST00000527534	protein_coding	PUTATIVE	None	3659	237	78	125359437	125366018	-1	None	None
15	KATNBL1	ENSG00000134152	ENST00000256544	protein_coding	KNOWN	CCDS10034	26199	915	304	34432875	34502280	-1	C15orf29	FLJ22557
15	KATNBL1	ENSG00000134152	ENST00000561270	protein_coding	NOVEL	None	26199	507	168	34434163	34445251	-1	C15orf29	FLJ22557
15	KATNBL1	ENSG00000134152	ENST00000558681	retained_intron	KNOWN	None	26199	None	None	34434292	34438056	-1	C15orf29	FLJ22557
15	KATNBL1	ENSG00000134152	ENST00000561371	protein_coding	PUTATIVE	None	26199	334	110	34434870	34439415	-1	C15orf29	FLJ22557
15	KATNBL1	ENSG00000134152	ENST00000559760	protein_coding	PUTATIVE	None	26199	459	152	34437165	34440951	-1	C15orf29	FLJ22557
15	KATNBL1	ENSG00000134152	ENST00000560247	retained_intron	KNOWN	None	26199	None	None	34438271	34502297	-1	C15orf29	FLJ22557
15	KATNBL1	ENSG00000134152	ENST00000540594	retained_intron	KNOWN	None	26199	None	None	34438861	34502297	-1	C15orf29	FLJ22557
15	KATNBL1	ENSG00000134152	ENST00000560308	retained_intron	KNOWN	None	26199	None	None	34439404	34447032	-1	C15orf29	FLJ22557
15	KATNBL1	ENSG00000134152	ENST00000560310	protein_coding	PUTATIVE	None	26199	380	125	34439431	34447032	-1	C15orf29	FLJ22557
15	KATNBL1	ENSG00000134152	ENST00000560671	retained_intron	KNOWN	None	26199	None	None	34440591	34502262	-1	C15orf29	FLJ22557
15	KATNBL1	ENSG00000134152	ENST00000558473	retained_intron	KNOWN	None	26199	None	None	34440744	34447032	-1	C15orf29	FLJ22557
15	KATNBL1	ENSG00000134152	ENST00000557877	protein_coding	KNOWN	None	26199	536	177	34440854	34502212	-1	C15orf29	FLJ22557
15	KATNBL1	ENSG00000134152	ENST00000559462	protein_coding	PUTATIVE	None	26199	245	80	34440857	34502297	-1	C15orf29	FLJ22557
15	KATNBL1	ENSG00000134152	ENST00000560108	protein_coding	KNOWN	None	26199	531	176	34440859	34502280	-1	C15orf29	FLJ22557
15	KATNBL1	ENSG00000134152	ENST00000559515	protein_coding	KNOWN	None	26199	223	73	34445206	34502278	-1	C15orf29	FLJ22557
15	KATNBL1	ENSG00000134152	ENST00000559464	protein_coding	KNOWN	None	26199	117	38	34455761	34492041	-1	C15orf29	FLJ22557
15	KATNBL1	ENSG00000134152	ENST00000560915	processed_transcript	KNOWN	None	26199	None	None	34500718	34502270	-1	C15orf29	FLJ22557
20	PIGT	ENSG00000124155	ENST00000279036	protein_coding	KNOWN	CCDS13353	14938	1737	578	44044717	44054884	1	None	None
20	PIGT	ENSG00000124155	ENST00000279035	protein_coding	KNOWN	CCDS54466	14938	1431	476	44044750	44054682	1	None	None
20	PIGT	ENSG00000124155	ENST00000372689	protein_coding	KNOWN	CCDS54465	14938	1536	511	44044777	44054881	1	None	None
20	PIGT	ENSG00000124155	ENST00000455050	nonsense_mediated_decay	KNOWN	None	14938	372	123	44044781	44054617	1	None	None
20	PIGT	ENSG00000124155	ENST00000543458	protein_coding	KNOWN	CCDS54464	14938	1569	522	44044784	44054884	1	None	None
20	PIGT	ENSG00000124155	ENST00000432270	protein_coding	PUTATIVE	None	14938	326	107	44044823	44049234	1	None	None
20	PIGT	ENSG00000124155	ENST00000341555	protein_coding	KNOWN	None	14938	1155	384	44044783	44054882	1	None	None
20	PIGT	ENSG00000124155	ENST00000535404	protein_coding	KNOWN	None	14938	1272	423	44044783	44054507	1	None	None
20	PIGT	ENSG00000124155	ENST00000545755	protein_coding	KNOWN	None	14938	951	316	44044781	44054549	1	None	None
19	None	ENSG00000265364	ENST00000577852	miRNA	NOVEL	None	None	None	None	8410894	8410980	-1	None	None
X	None	ENSG00000234780	ENST00000437312	processed_pseudogene	KNOWN	None	None	None	None	48056657	48058867	1	None	None
10	RPL23AP60	ENSG00000213147	ENST00000450011	processed_pseudogene	KNOWN	None	35966	None	None	135515571	135516024	1	None	None
19	None	ENSG00000268884	ENST00000596405	processed_pseudogene	KNOWN	None	None	None	None	8411401	8412571	1	None	None
HSCHR6_MHC_SSTO	HLA-DOA	ENSG00000232957	ENST00000426685	protein_coding	KNOWN	None	4936	753	250	33111813	33117246	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
HSCHR6_MHC_SSTO	HLA-DOA	ENSG00000232957	ENST00000492557	processed_transcript	KNOWN	None	4936	None	None	33114241	33115018	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
HSCHR6_MHC_SSTO	HLA-DOA	ENSG00000232957	ENST00000480717	retained_intron	KNOWN	None	4936	None	None	33114435	33115688	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
HSCHR6_MHC_SSTO	HLA-DOA	ENSG00000232957	ENST00000465107	processed_transcript	KNOWN	None	4936	None	None	33115079	33115758	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
HSCHR6_MHC_SSTO	HLA-DOA	ENSG00000232957	ENST00000418857	protein_coding	KNOWN	None	4936	260	85	33115131	33117213	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
HSCHR6_MHC_SSTO	HLA-DOA	ENSG00000232957	ENST00000497431	processed_transcript	KNOWN	None	4936	None	None	33115695	33117216	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
HSCHR6_MHC_SSTO	HLA-DOA	ENSG00000232957	ENST00000552368	protein_coding	KNOWN	None	4936	186	61	33114380	33117194	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
X	CT47A4	ENSG00000230594	ENST00000415858	protein_coding	KNOWN	CCDS35388	33285	867	288	120101746	120105058	-1	None	CT47.4
X	RNA5SP503	ENSG00000252856	ENST00000517047	rRNA	KNOWN	None	43403	None	None	48065693	48065809	1	RN5S503	None
9	RNU7-124P	ENSG00000251745	ENST00000515936	snRNA	KNOWN	None	45658	None	None	37936704	37936765	-1	None	None
6	POLR2LP	ENSG00000238211	ENST00000444785	processed_pseudogene	KNOWN	None	31340	None	None	31108504	31108690	1	None	AB023060.6
9	None	ENSG00000200026	ENST00000363156	snoRNA	NOVEL	None	None	None	None	38147425	38147558	1	None	None
9	SURF1	ENSG00000148290	ENST00000371974	protein_coding	KNOWN	CCDS6966	11474	903	300	136218610	136223361	-1	None	None
9	SURF1	ENSG00000148290	ENST00000495952	processed_transcript	KNOWN	None	11474	None	None	136218730	136221108	-1	None	None
9	SURF1	ENSG00000148290	ENST00000437995	retained_intron	KNOWN	None	11474	None	None	136218768	136223175	-1	None	None
9	SURF1	ENSG00000148290	ENST00000463965	processed_transcript	KNOWN	None	11474	None	None	136222960	136223552	-1	None	None
9	FCN2	ENSG00000160339	ENST00000291744	protein_coding	KNOWN	CCDS6983	3624	942	313	137772658	137779366	1	None	P35, FCNL, EBP-37, ficolin-2
9	FCN2	ENSG00000160339	ENST00000350339	protein_coding	KNOWN	None	3624	828	275	137772654	137779924	1	None	P35, FCNL, EBP-37, ficolin-2
19	RAB11B-AS1	ENSG00000269386	ENST00000597785	antisense	KNOWN	None	44178	None	None	8439257	8455008	-1	None	None
19	RAB11B-AS1	ENSG00000269386	ENST00000593581	antisense	KNOWN	None	44178	None	None	8439263	8455569	-1	None	None
19	RAB11B-AS1	ENSG00000269386	ENST00000597407	antisense	KNOWN	None	44178	None	None	8439305	8442711	-1	None	None
15	PGPEP1L	ENSG00000183571	ENST00000535714	protein_coding	PUTATIVE	CCDS58400	27080	429	142	99511459	99551024	-1	None	None
15	PGPEP1L	ENSG00000183571	ENST00000378919	protein_coding	KNOWN	CCDS53977	27080	591	196	99511509	99548791	-1	None	None
15	DUOX2	ENSG00000140279	ENST00000389039	protein_coding	KNOWN	None	13273	4647	1548	45384848	45406542	-1	None	P138-TOX, P138(TOX), THOX2, LNOX2
15	DUOX2	ENSG00000140279	ENST00000558383	retained_intron	KNOWN	None	13273	None	None	45391227	45405652	-1	None	P138-TOX, P138(TOX), THOX2, LNOX2
15	DUOX2	ENSG00000140279	ENST00000560797	retained_intron	KNOWN	None	13273	None	None	45392015	45392611	-1	None	P138-TOX, P138(TOX), THOX2, LNOX2
15	DUOX2	ENSG00000140279	ENST00000558416	retained_intron	KNOWN	None	13273	None	None	45393041	45394055	-1	None	P138-TOX, P138(TOX), THOX2, LNOX2
15	DUOX2	ENSG00000140279	ENST00000603300	protein_coding	KNOWN	CCDS10117	13273	4647	1548	45384853	45406359	-1	None	P138-TOX, P138(TOX), THOX2, LNOX2
12	ART4	ENSG00000111339	ENST00000228936	protein_coding	KNOWN	CCDS8668	726	945	314	14978503	14996429	-1	DO	DOK1, CD297
12	ART4	ENSG00000111339	ENST00000430129	protein_coding	PUTATIVE	None	726	198	65	14982288	14995996	-1	DO	DOK1, CD297
12	ART4	ENSG00000111339	ENST00000544616	protein_coding	PUTATIVE	None	726	126	41	14982288	14995996	-1	DO	DOK1, CD297
12	ART4	ENSG00000111339	ENST00000420600	protein_coding	PUTATIVE	None	726	822	273	14993294	14995996	-1	DO	DOK1, CD297
6	GSTA2	ENSG00000244067	ENST00000493422	protein_coding	KNOWN	CCDS4944	4627	669	222	52614897	52628367	-1	GST2	None
2	CXXC11	ENSG00000188011	ENST00000419912	nonsense_mediated_decay	KNOWN	None	26585	168	55	242811752	242815971	1	C2orf85	FLJ33590
2	CXXC11	ENSG00000188011	ENST00000343216	protein_coding	KNOWN	CCDS42843	26585	1719	572	242811881	242815975	1	C2orf85	FLJ33590
12	TCP11L2	ENSG00000166046	ENST00000553143	protein_coding	KNOWN	None	28627	53	16	106695707	106704906	1	None	MGC40368
12	TCP11L2	ENSG00000166046	ENST00000547153	protein_coding	PUTATIVE	None	28627	801	266	106696581	106723949	1	None	MGC40368
12	TCP11L2	ENSG00000166046	ENST00000299045	protein_coding	KNOWN	CCDS9104	28627	1560	519	106696581	106740793	1	None	MGC40368
12	TCP11L2	ENSG00000166046	ENST00000546625	protein_coding	PUTATIVE	None	28627	819	272	106696596	106719691	1	None	MGC40368
12	TCP11L2	ENSG00000166046	ENST00000553098	protein_coding	KNOWN	None	28627	702	233	106696611	106717354	1	None	MGC40368
12	TCP11L2	ENSG00000166046	ENST00000549906	nonsense_mediated_decay	KNOWN	None	28627	183	60	106696631	106708246	1	None	MGC40368
12	TCP11L2	ENSG00000166046	ENST00000551802	protein_coding	KNOWN	None	28627	395	130	106696838	106712223	1	None	MGC40368
12	TCP11L2	ENSG00000166046	ENST00000548428	protein_coding	KNOWN	None	28627	293	96	106697271	106708271	1	None	MGC40368
12	TCP11L2	ENSG00000166046	ENST00000551228	protein_coding	KNOWN	None	28627	53	16	106697643	106704906	1	None	MGC40368
12	TCP11L2	ENSG00000166046	ENST00000552690	processed_transcript	PUTATIVE	None	28627	None	None	106715352	106717834	1	None	MGC40368
18	RPL17-C18orf32	ENSG00000215472	ENST00000584895	protein_coding	KNOWN	CCDS58622	44661	687	228	47008051	47017956	-1	None	None
18	RPL17-C18orf32	ENSG00000215472	ENST00000332968	protein_coding	NOVEL	None	44661	573	190	47008522	47017956	-1	None	None
18	RPL17-C18orf32	ENSG00000215472	ENST00000577910	nonsense_mediated_decay	KNOWN	CCDS45865	44661	555	184	47008546	47017956	-1	None	None
19	PGLS	ENSG00000130313	ENST00000252603	protein_coding	KNOWN	CCDS12361	8903	777	258	17622438	17632097	1	None	6PGL
19	PGLS	ENSG00000130313	ENST00000594761	nonsense_mediated_decay	KNOWN	None	8903	540	179	17622445	17631852	1	None	6PGL
19	PGLS	ENSG00000130313	ENST00000596799	retained_intron	KNOWN	None	8903	None	None	17622453	17624053	1	None	6PGL
19	PGLS	ENSG00000130313	ENST00000600923	protein_coding	NOVEL	None	8903	648	215	17622479	17628644	1	None	6PGL
19	PGLS	ENSG00000130313	ENST00000595782	protein_coding	NOVEL	None	8903	444	147	17622674	17632097	1	None	6PGL
19	PGLS	ENSG00000130313	ENST00000598811	retained_intron	KNOWN	None	8903	None	None	17626551	17631839	1	None	6PGL
10	SEC24C	ENSG00000176986	ENST00000465076	nonsense_mediated_decay	KNOWN	None	10705	3129	1042	75504142	75531917	1	None	KIAA0079
10	SEC24C	ENSG00000176986	ENST00000345254	protein_coding	KNOWN	CCDS7332	10705	3285	1094	75504142	75531919	1	None	KIAA0079
10	SEC24C	ENSG00000176986	ENST00000339365	protein_coding	KNOWN	CCDS7332	10705	3285	1094	75504149	75531919	1	None	KIAA0079
10	SEC24C	ENSG00000176986	ENST00000477008	processed_transcript	KNOWN	None	10705	None	None	75506625	75511860	1	None	KIAA0079
10	SEC24C	ENSG00000176986	ENST00000496827	processed_transcript	KNOWN	None	10705	None	None	75527652	75530137	1	None	KIAA0079
10	SEC24C	ENSG00000176986	ENST00000411652	protein_coding	KNOWN	None	10705	2928	975	75504158	75530993	1	None	KIAA0079
10	SEC24C	ENSG00000176986	ENST00000546025	protein_coding	KNOWN	None	10705	777	258	75504127	75526555	1	None	KIAA0079
10	SEC24C	ENSG00000176986	ENST00000535742	protein_coding	KNOWN	None	10705	1029	342	75504120	75531016	1	None	KIAA0079
10	SEC24C	ENSG00000176986	ENST00000540668	protein_coding	KNOWN	None	10705	1029	342	75504143	75531136	1	None	KIAA0079
2	C2orf61	ENSG00000239605	ENST00000449846	protein_coding	PUTATIVE	None	26850	386	127	47314130	47378434	-1	None	FLJ40172
2	C2orf61	ENSG00000239605	ENST00000294947	protein_coding	KNOWN	CCDS1831	26850	534	177	47356014	47382426	-1	None	FLJ40172
2	C2orf61	ENSG00000239605	ENST00000445927	protein_coding	KNOWN	CCDS54356	26850	747	248	47314130	47382517	-1	None	FLJ40172
17	TMEM106A	ENSG00000184988	ENST00000588693	protein_coding	KNOWN	None	28288	724	240	41363854	41369755	1	None	MGC20235
17	TMEM106A	ENSG00000184988	ENST00000592649	retained_intron	KNOWN	None	28288	None	None	41363894	41366015	1	None	MGC20235
17	TMEM106A	ENSG00000184988	ENST00000588659	protein_coding	KNOWN	CCDS11462	28288	789	262	41363894	41370209	1	None	MGC20235
17	TMEM106A	ENSG00000184988	ENST00000541594	protein_coding	NOVEL	None	28288	645	214	41363894	41370268	1	None	MGC20235
17	TMEM106A	ENSG00000184988	ENST00000536052	protein_coding	NOVEL	None	28288	648	215	41363894	41370284	1	None	MGC20235
17	TMEM106A	ENSG00000184988	ENST00000331615	protein_coding	KNOWN	CCDS11462	28288	789	262	41363894	41372061	1	None	MGC20235
17	TMEM106A	ENSG00000184988	ENST00000592564	processed_transcript	KNOWN	None	28288	None	None	41363913	41368482	1	None	MGC20235
17	TMEM106A	ENSG00000184988	ENST00000586685	retained_intron	KNOWN	None	28288	None	None	41365063	41368104	1	None	MGC20235
X	None	ENSG00000204368	ENST00000433276	processed_pseudogene	KNOWN	None	None	None	None	48072226	48077445	1	None	None
X	None	ENSG00000204368	ENST00000446048	processed_pseudogene	KNOWN	None	None	None	None	48072226	48074077	1	None	None
3	None	ENSG00000267979	ENST00000596321	protein_coding	NOVEL	None	None	249	82	172019438	172019686	-1	None	None
3	None	ENSG00000203443	ENST00000366261	protein_coding	NOVEL	None	None	198	65	172034218	172039513	1	None	None
16	None	ENSG00000260498	ENST00000563993	lincRNA	KNOWN	None	None	None	None	87807094	87812980	-1	None	None
16	None	ENSG00000260498	ENST00000570159	lincRNA	KNOWN	None	None	None	None	87807117	87812754	-1	None	None
9	None	ENSG00000238313	ENST00000459319	snoRNA	NOVEL	None	None	None	None	38190404	38190504	1	None	None
2	None	ENSG00000216921	ENST00000404031	protein_coding	PUTATIVE	None	None	288	95	242836136	242842599	-1	None	None
2	None	ENSG00000216921	ENST00000452112	protein_coding	PUTATIVE	None	None	300	99	242836140	242841289	-1	None	None
2	None	ENSG00000216921	ENST00000401641	protein_coding	PUTATIVE	None	None	273	90	242836188	242844702	-1	None	None
7	HYAL4	ENSG00000106302	ENST00000489978	protein_coding	KNOWN	None	5323	191	62	123469037	123508518	1	None	None
7	HYAL4	ENSG00000106302	ENST00000488323	protein_coding	KNOWN	None	5323	137	44	123485102	123508464	1	None	None
7	HYAL4	ENSG00000106302	ENST00000223026	protein_coding	KNOWN	CCDS5789	5323	1446	481	123485223	123517532	1	None	None
7	HYAL4	ENSG00000106302	ENST00000476325	protein_coding	KNOWN	CCDS5789	5323	1446	481	123488124	123517239	1	None	None
7	HYAL4	ENSG00000106302	ENST00000483878	nonsense_mediated_decay	KNOWN	None	5323	1050	349	123488188	123517239	1	None	None
4	NFKB1	ENSG00000109320	ENST00000226574	protein_coding	KNOWN	CCDS3657	7794	2910	969	103422486	103538459	1	None	KBF1, p105, NFKB-p50, p50, NF-kappaB, NFkappaB, NF-kB1
4	NFKB1	ENSG00000109320	ENST00000394820	protein_coding	KNOWN	CCDS54783	7794	2907	968	103422488	103538072	1	None	KBF1, p105, NFKB-p50, p50, NF-kappaB, NFkappaB, NF-kB1
4	NFKB1	ENSG00000109320	ENST00000511926	protein_coding	KNOWN	None	7794	222	73	103422612	103459056	1	None	KBF1, p105, NFKB-p50, p50, NF-kappaB, NFkappaB, NF-kB1
4	NFKB1	ENSG00000109320	ENST00000507079	protein_coding	NOVEL	None	7794	595	197	103422629	103498196	1	None	KBF1, p105, NFKB-p50, p50, NF-kappaB, NFkappaB, NF-kB1
4	NFKB1	ENSG00000109320	ENST00000505458	protein_coding	KNOWN	CCDS54783	7794	2907	968	103423055	103538274	1	None	KBF1, p105, NFKB-p50, p50, NF-kappaB, NFkappaB, NF-kB1
4	NFKB1	ENSG00000109320	ENST00000509165	protein_coding	KNOWN	None	7794	434	143	103424532	103498059	1	None	KBF1, p105, NFKB-p50, p50, NF-kappaB, NFkappaB, NF-kB1
4	NFKB1	ENSG00000109320	ENST00000513803	processed_transcript	KNOWN	None	7794	None	None	103458744	103500195	1	None	KBF1, p105, NFKB-p50, p50, NF-kappaB, NFkappaB, NF-kB1
4	NFKB1	ENSG00000109320	ENST00000502367	retained_intron	KNOWN	None	7794	None	None	103458756	103488241	1	None	KBF1, p105, NFKB-p50, p50, NF-kappaB, NFkappaB, NF-kB1
4	NFKB1	ENSG00000109320	ENST00000510638	processed_transcript	KNOWN	None	7794	None	None	103478262	103501745	1	None	KBF1, p105, NFKB-p50, p50, NF-kappaB, NFkappaB, NF-kB1
4	NFKB1	ENSG00000109320	ENST00000600343	protein_coding	PUTATIVE	None	7794	2367	788	103498871	103538255	1	None	KBF1, p105, NFKB-p50, p50, NF-kappaB, NFkappaB, NF-kB1
4	NFKB1	ENSG00000109320	ENST00000508584	protein_coding	PUTATIVE	None	7794	589	195	103499021	103514725	1	None	KBF1, p105, NFKB-p50, p50, NF-kappaB, NFkappaB, NF-kB1
4	NFKB1	ENSG00000109320	ENST00000504044	retained_intron	KNOWN	None	7794	None	None	103514406	103517464	1	None	KBF1, p105, NFKB-p50, p50, NF-kappaB, NFkappaB, NF-kB1
9	None	ENSG00000223716	ENST00000422554	lincRNA	KNOWN	None	None	None	None	38360424	38376427	1	None	None
9	None	ENSG00000228317	ENST00000421614	antisense	KNOWN	None	None	None	None	108316316	108320310	-1	None	None
6	None	ENSG00000268402	ENST00000595616	protein_coding	NOVEL	None	None	48	15	143759575	143764295	1	None	None
9	None	ENSG00000225254	ENST00000443069	processed_pseudogene	KNOWN	None	None	None	None	38452779	38454067	-1	None	None
1	MTHFR	ENSG00000177000	ENST00000376592	protein_coding	KNOWN	CCDS137	7436	1971	656	11845780	11863302	-1	None	None
1	MTHFR	ENSG00000177000	ENST00000376590	protein_coding	KNOWN	CCDS137	7436	1971	656	11846660	11866115	-1	None	None
1	MTHFR	ENSG00000177000	ENST00000376585	protein_coding	KNOWN	None	7436	2094	697	11848351	11865470	-1	None	None
1	MTHFR	ENSG00000177000	ENST00000418034	protein_coding	KNOWN	None	7436	431	142	11861262	11865993	-1	None	None
1	MTHFR	ENSG00000177000	ENST00000413656	protein_coding	KNOWN	None	7436	89	28	11863085	11865351	-1	None	None
1	MTHFR	ENSG00000177000	ENST00000423400	protein_coding	KNOWN	None	7436	158	51	11863085	11865470	-1	None	None
1	MTHFR	ENSG00000177000	ENST00000431243	protein_coding	KNOWN	None	7436	89	28	11863085	11865470	-1	None	None
1	MTHFR	ENSG00000177000	ENST00000376486	protein_coding	KNOWN	None	7436	89	28	11863085	11866977	-1	None	None
1	MTHFR	ENSG00000177000	ENST00000376583	protein_coding	KNOWN	None	7436	2094	697	11845810	11863571	-1	None	None
17	None	ENSG00000230493	ENST00000436914	protein_coding	KNOWN	None	None	390	129	19122674	19125839	1	None	None
16	None	ENSG00000260177	ENST00000561567	lincRNA	KNOWN	None	None	None	None	87813740	87840082	-1	None	None
9	None	ENSG00000228366	ENST00000443781	processed_pseudogene	KNOWN	None	None	None	None	108472571	108473062	-1	None	None
3	GHSR	ENSG00000121853	ENST00000241256	protein_coding	KNOWN	CCDS3218	4267	1101	366	172162923	172166246	-1	None	None
3	GHSR	ENSG00000121853	ENST00000427970	protein_coding	KNOWN	CCDS46959	4267	870	289	172165334	172166245	-1	None	None
9	None	ENSG00000215165	ENST00000443005	processed_pseudogene	KNOWN	None	None	None	None	38478468	38479347	1	None	None
5	None	ENSG00000251303	ENST00000502277	processed_pseudogene	KNOWN	None	None	None	None	59926341	59926800	1	None	None
9	None	ENSG00000232486	ENST00000421655	processed_pseudogene	KNOWN	None	None	None	None	108520445	108523036	1	None	None
2	None	ENSG00000227061	ENST00000437798	antisense	KNOWN	None	None	None	None	197569	202605	1	None	None
1	CNKSR1	ENSG00000142675	ENST00000361530	protein_coding	KNOWN	CCDS276	19700	2142	713	26503894	26516377	1	None	CNK1, KSR, CNK
1	CNKSR1	ENSG00000142675	ENST00000481077	nonsense_mediated_decay	KNOWN	None	19700	192	63	26503975	26510286	1	None	CNK1, KSR, CNK
1	CNKSR1	ENSG00000142675	ENST00000480348	processed_transcript	KNOWN	None	19700	None	None	26503981	26509709	1	None	CNK1, KSR, CNK
1	CNKSR1	ENSG00000142675	ENST00000465415	retained_intron	KNOWN	None	19700	None	None	26503994	26507574	1	None	CNK1, KSR, CNK
1	CNKSR1	ENSG00000142675	ENST00000374253	protein_coding	KNOWN	None	19700	2163	720	26504000	26516375	1	None	CNK1, KSR, CNK
1	CNKSR1	ENSG00000142675	ENST00000525687	nonsense_mediated_decay	KNOWN	None	19700	939	312	26504003	26511532	1	None	CNK1, KSR, CNK
1	CNKSR1	ENSG00000142675	ENST00000482227	nonsense_mediated_decay	KNOWN	None	19700	690	229	26504003	26516373	1	None	CNK1, KSR, CNK
1	CNKSR1	ENSG00000142675	ENST00000531191	protein_coding	PUTATIVE	None	19700	1368	455	26506659	26516337	1	None	CNK1, KSR, CNK
1	CNKSR1	ENSG00000142675	ENST00000524529	retained_intron	KNOWN	None	19700	None	None	26508078	26509747	1	None	CNK1, KSR, CNK
1	CNKSR1	ENSG00000142675	ENST00000531150	retained_intron	KNOWN	None	19700	None	None	26508496	26510686	1	None	CNK1, KSR, CNK
1	CNKSR1	ENSG00000142675	ENST00000528001	processed_transcript	KNOWN	None	19700	None	None	26508546	26510900	1	None	CNK1, KSR, CNK
1	CNKSR1	ENSG00000142675	ENST00000528281	nonsense_mediated_decay	KNOWN	None	19700	236	77	26509695	26514948	1	None	CNK1, KSR, CNK
1	CNKSR1	ENSG00000142675	ENST00000480617	retained_intron	KNOWN	None	19700	None	None	26513406	26514792	1	None	CNK1, KSR, CNK
1	CNKSR1	ENSG00000142675	ENST00000484874	retained_intron	KNOWN	None	19700	None	None	26513784	26515344	1	None	CNK1, KSR, CNK
9	ELAVL2	ENSG00000107105	ENST00000380110	protein_coding	NOVEL	None	3313	1170	389	23690102	23821273	-1	None	HuB, HEL-N1
9	ELAVL2	ENSG00000107105	ENST00000223951	protein_coding	KNOWN	CCDS55298	3313	1041	346	23690102	23821478	-1	None	HuB, HEL-N1
9	ELAVL2	ENSG00000107105	ENST00000380117	protein_coding	KNOWN	CCDS6515	3313	1080	359	23691809	23826335	-1	None	HuB, HEL-N1
9	ELAVL2	ENSG00000107105	ENST00000423281	protein_coding	KNOWN	None	3313	272	89	23701413	23735563	-1	None	HuB, HEL-N1
9	ELAVL2	ENSG00000107105	ENST00000440102	protein_coding	PUTATIVE	None	3313	569	188	23701521	23779373	-1	None	HuB, HEL-N1
9	ELAVL2	ENSG00000107105	ENST00000462649	processed_transcript	KNOWN	None	3313	None	None	23765043	23826172	-1	None	HuB, HEL-N1
9	ELAVL2	ENSG00000107105	ENST00000397312	protein_coding	KNOWN	CCDS6515	3313	1080	359	23690105	23826063	-1	None	HuB, HEL-N1
9	ELAVL2	ENSG00000107105	ENST00000544538	protein_coding	KNOWN	CCDS6515	3313	1080	359	23690105	23821846	-1	None	HuB, HEL-N1
HSCHR6_MHC_QBL	ATAT1	ENSG00000206488	ENST00000383584	protein_coding	KNOWN	None	21186	903	300	30584129	30601966	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_QBL	ATAT1	ENSG00000206488	ENST00000383585	protein_coding	KNOWN	None	21186	1266	421	30584143	30604110	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_QBL	ATAT1	ENSG00000206488	ENST00000400576	protein_coding	KNOWN	None	21186	933	310	30584162	30601966	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_QBL	ATAT1	ENSG00000206488	ENST00000400575	protein_coding	KNOWN	None	21186	972	323	30584163	30601966	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_QBL	ATAT1	ENSG00000206488	ENST00000383583	protein_coding	KNOWN	None	21186	1002	333	30584173	30601966	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_QBL	ATAT1	ENSG00000206488	ENST00000383582	protein_coding	KNOWN	None	21186	1230	409	30584173	30604110	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_QBL	ATAT1	ENSG00000206488	ENST00000479580	processed_transcript	KNOWN	None	21186	None	None	30584180	30604110	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_QBL	ATAT1	ENSG00000206488	ENST00000468478	retained_intron	KNOWN	None	21186	None	None	30584202	30597985	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_QBL	ATAT1	ENSG00000206488	ENST00000485442	retained_intron	KNOWN	None	21186	None	None	30584207	30604110	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_QBL	ATAT1	ENSG00000206488	ENST00000496415	processed_transcript	KNOWN	None	21186	None	None	30585687	30603689	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_QBL	ATAT1	ENSG00000206488	ENST00000480981	processed_transcript	KNOWN	None	21186	None	None	30599109	30604110	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_QBL	ATAT1	ENSG00000206488	ENST00000470055	retained_intron	KNOWN	None	21186	None	None	30600206	30604110	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_QBL	ATAT1	ENSG00000206488	ENST00000551737	protein_coding	KNOWN	None	21186	1197	398	30584143	30604089	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
9	None	ENSG00000229511	ENST00000420145	processed_pseudogene	KNOWN	None	None	None	None	38486856	38488335	-1	None	None
1	ZBTB37	ENSG00000185278	ENST00000367704	protein_coding	KNOWN	None	28365	927	308	173837220	173855774	1	None	MGC2629, ZNF908
1	ZBTB37	ENSG00000185278	ENST00000490000	nonsense_mediated_decay	KNOWN	CCDS44278	28365	1512	503	173837486	173866494	1	None	MGC2629, ZNF908
1	ZBTB37	ENSG00000185278	ENST00000367702	protein_coding	NOVEL	CCDS1312	28365	1086	361	173837532	173842781	1	None	MGC2629, ZNF908
1	ZBTB37	ENSG00000185278	ENST00000367701	protein_coding	KNOWN	CCDS44278	28365	1512	503	173838094	173855583	1	None	MGC2629, ZNF908
1	ZBTB37	ENSG00000185278	ENST00000427304	protein_coding	KNOWN	CCDS44278	28365	1512	503	173837493	173855774	1	None	MGC2629, ZNF908
1	ZBTB37	ENSG00000185278	ENST00000432989	protein_coding	KNOWN	CCDS1312	28365	1086	361	173837493	173842776	1	None	MGC2629, ZNF908
2	None	ENSG00000228643	ENST00000450709	retained_intron	KNOWN	None	None	None	None	286419	287496	1	None	None
2	None	ENSG00000228643	ENST00000427831	antisense	KNOWN	None	None	None	None	286567	301515	1	None	None
9	VN1R48P	ENSG00000237487	ENST00000448149	processed_pseudogene	KNOWN	None	37368	None	None	38504444	38505479	-1	None	None
3	DZIP3	ENSG00000198919	ENST00000361582	protein_coding	KNOWN	CCDS2952	30938	3627	1208	108308529	108413693	1	None	hRUL138, PPP1R66
3	DZIP3	ENSG00000198919	ENST00000495008	nonsense_mediated_decay	KNOWN	None	30938	912	303	108308552	108412879	1	None	hRUL138, PPP1R66
3	DZIP3	ENSG00000198919	ENST00000486815	protein_coding	PUTATIVE	None	30938	379	125	108308581	108347958	1	None	hRUL138, PPP1R66
3	DZIP3	ENSG00000198919	ENST00000479138	protein_coding	KNOWN	None	30938	1962	653	108308902	108366959	1	None	hRUL138, PPP1R66
3	DZIP3	ENSG00000198919	ENST00000497905	protein_coding	KNOWN	None	30938	213	70	108321680	108330131	1	None	hRUL138, PPP1R66
3	DZIP3	ENSG00000198919	ENST00000463306	protein_coding	KNOWN	CCDS2952	30938	3627	1208	108321698	108410234	1	None	hRUL138, PPP1R66
9	SLC25A6P5	ENSG00000228948	ENST00000435663	processed_pseudogene	KNOWN	None	43854	None	None	108611991	108612884	1	None	None
9	SLC25A6P5	ENSG00000228948	ENST00000602729	processed_pseudogene	KNOWN	None	43854	None	None	108612306	108613706	1	None	None
9	None	ENSG00000243085	ENST00000451357	processed_pseudogene	KNOWN	None	None	None	None	38526828	38527029	1	None	None
7	PMS2P5	ENSG00000123965	ENST00000398065	unprocessed_pseudogene	KNOWN	None	9130	None	None	74310231	74313951	1	PMS2L5	PMS7, MGC34222
7	PMS2P5	ENSG00000123965	ENST00000337023	unprocessed_pseudogene	KNOWN	None	9130	None	None	74306894	74322330	1	PMS2L5	PMS7, MGC34222
7	PMS2P5	ENSG00000123965	ENST00000380410	unprocessed_pseudogene	KNOWN	None	9130	None	None	74306938	74366314	1	PMS2L5	PMS7, MGC34222
7	PMS2P5	ENSG00000123965	ENST00000394959	unprocessed_pseudogene	KNOWN	None	9130	None	None	74306894	74322330	1	PMS2L5	PMS7, MGC34222
7	PMS2P5	ENSG00000123965	ENST00000318568	unprocessed_pseudogene	KNOWN	None	9130	None	None	74306894	74322330	1	PMS2L5	PMS7, MGC34222
HSCHR6_MHC_QBL	HLA-DPA1	ENSG00000206291	ENST00000383224	protein_coding	KNOWN	None	4938	783	260	32961400	32977547	-1	HLA-DP1A	None
HSCHR6_MHC_QBL	HLA-DPA1	ENSG00000206291	ENST00000481258	retained_intron	KNOWN	None	4938	None	None	32961838	32970446	-1	HLA-DP1A	None
HSCHR6_MHC_QBL	HLA-DPA1	ENSG00000206291	ENST00000428180	protein_coding	KNOWN	None	4938	385	127	32964491	32966079	-1	HLA-DP1A	None
HSCHR6_MHC_QBL	HLA-DPA1	ENSG00000206291	ENST00000437123	protein_coding	KNOWN	None	4938	636	211	32965529	32970468	-1	HLA-DP1A	None
HSCHR6_MHC_QBL	HLA-DPA1	ENSG00000206291	ENST00000441483	protein_coding	KNOWN	None	4938	628	208	32965850	32977604	-1	HLA-DP1A	None
HSCHR6_MHC_QBL	HLA-DPA1	ENSG00000206291	ENST00000483480	processed_transcript	KNOWN	None	4938	None	None	32965935	32977592	-1	HLA-DP1A	None
HSCHR6_MHC_QBL	HLA-DPA1	ENSG00000206291	ENST00000474244	processed_transcript	KNOWN	None	4938	None	None	32965993	32970464	-1	HLA-DP1A	None
HSCHR6_MHC_QBL	HLA-DPA1	ENSG00000206291	ENST00000439867	protein_coding	KNOWN	None	4938	69	22	32970333	32977612	-1	HLA-DP1A	None
HSCHR6_MHC_QBL	HLA-DPA1	ENSG00000206291	ENST00000551933	protein_coding	KNOWN	None	4938	783	260	32961848	32970432	-1	HLA-DP1A	None
17	SLC13A5	ENSG00000141485	ENST00000433363	protein_coding	KNOWN	CCDS11079	23089	1707	568	6588032	6616886	-1	None	NACT
17	SLC13A5	ENSG00000141485	ENST00000574580	retained_intron	KNOWN	None	23089	None	None	6588042	6593401	-1	None	NACT
17	SLC13A5	ENSG00000141485	ENST00000293800	protein_coding	NOVEL	None	23089	1656	551	6588042	6616688	-1	None	NACT
17	SLC13A5	ENSG00000141485	ENST00000381074	protein_coding	NOVEL	None	23089	1578	525	6589399	6616685	-1	None	NACT
17	SLC13A5	ENSG00000141485	ENST00000573648	protein_coding	KNOWN	CCDS45593	23089	1569	522	6589416	6616696	-1	None	NACT
17	SLC13A5	ENSG00000141485	ENST00000570687	protein_coding	PUTATIVE	None	23089	283	93	6590673	6594203	-1	None	NACT
17	SLC13A5	ENSG00000141485	ENST00000572727	protein_coding	PUTATIVE	None	23089	618	205	6593281	6599208	-1	None	NACT
17	SLC13A5	ENSG00000141485	ENST00000574824	retained_intron	KNOWN	None	23089	None	None	6598727	6608876	-1	None	NACT
17	SLC13A5	ENSG00000141485	ENST00000572094	nonsense_mediated_decay	KNOWN	None	23089	246	81	6599136	6616678	-1	None	NACT
17	SLC13A5	ENSG00000141485	ENST00000572352	protein_coding	NOVEL	None	23089	502	166	6606392	6616688	-1	None	NACT
17	SLC13A5	ENSG00000141485	ENST00000576323	protein_coding	PUTATIVE	None	23089	412	136	6607200	6616690	-1	None	NACT
17	SLC13A5	ENSG00000141485	ENST00000575230	nonsense_mediated_decay	KNOWN	None	23089	276	91	6607355	6616688	-1	None	NACT
6	PEX3	ENSG00000034693	ENST00000367592	protein_coding	NOVEL	None	8858	548	181	143771944	143793398	1	None	None
6	PEX3	ENSG00000034693	ENST00000367591	protein_coding	KNOWN	CCDS5199	8858	1122	373	143772117	143811147	1	None	None
6	PEX3	ENSG00000034693	ENST00000585848	retained_intron	KNOWN	None	8858	None	None	143806209	143810510	1	None	None
6	RRP36	ENSG00000124541	ENST00000244496	protein_coding	KNOWN	CCDS34453	21374	780	259	42989383	42997335	1	C6orf153	dJ20C7.4
6	RRP36	ENSG00000124541	ENST00000607394	nonsense_mediated_decay	KNOWN	None	21374	90	29	42993811	43001709	1	C6orf153	dJ20C7.4
6	RRP36	ENSG00000124541	ENST00000607555	processed_transcript	KNOWN	None	21374	None	None	43000890	43001894	1	C6orf153	dJ20C7.4
15	DLL4	ENSG00000128917	ENST00000557876	retained_intron	KNOWN	None	2910	None	None	41221538	41223088	1	None	None
15	DLL4	ENSG00000128917	ENST00000249749	protein_coding	KNOWN	CCDS45232	2910	2058	685	41221591	41231237	1	None	None
15	DLL4	ENSG00000128917	ENST00000559440	retained_intron	KNOWN	None	2910	None	None	41223078	41227119	1	None	None
19	ZNF101	ENSG00000181896	ENST00000541458	protein_coding	PUTATIVE	None	12881	174	57	19779605	19790332	1	None	HZF12, DKFZp570I0164
19	ZNF101	ENSG00000181896	ENST00000318110	nonsense_mediated_decay	KNOWN	CCDS32971	12881	1311	436	19779605	19791761	1	None	HZF12, DKFZp570I0164
19	ZNF101	ENSG00000181896	ENST00000444249	protein_coding	PUTATIVE	None	12881	186	61	19779660	19790841	1	None	HZF12, DKFZp570I0164
19	ZNF101	ENSG00000181896	ENST00000592502	protein_coding	KNOWN	CCDS32971	12881	1311	436	19779663	19794315	1	None	HZF12, DKFZp570I0164
19	ZNF101	ENSG00000181896	ENST00000415784	protein_coding	PUTATIVE	None	12881	951	316	19779710	19791138	1	None	HZF12, DKFZp570I0164
19	ZNF101	ENSG00000181896	ENST00000415440	retained_intron	KNOWN	None	12881	None	None	19786950	19790841	1	None	HZF12, DKFZp570I0164
19	ZNF101	ENSG00000181896	ENST00000585565	nonsense_mediated_decay	KNOWN	None	12881	442	146	19790668	19793294	1	None	HZF12, DKFZp570I0164
19	ZNF101	ENSG00000181896	ENST00000586745	processed_transcript	PUTATIVE	None	12881	None	None	19792103	19794318	1	None	HZF12, DKFZp570I0164
2	None	ENSG00000235779	ENST00000588842	lincRNA	KNOWN	None	None	None	None	305111	307180	-1	None	None
2	None	ENSG00000235779	ENST00000590255	lincRNA	KNOWN	None	None	None	None	305473	306596	-1	None	None
2	None	ENSG00000235779	ENST00000585703	lincRNA	KNOWN	None	None	None	None	305475	306522	-1	None	None
2	None	ENSG00000235779	ENST00000588334	lincRNA	KNOWN	None	None	None	None	305495	307783	-1	None	None
2	None	ENSG00000235779	ENST00000591178	lincRNA	KNOWN	None	None	None	None	305560	307153	-1	None	None
2	None	ENSG00000235779	ENST00000592090	lincRNA	KNOWN	None	None	None	None	305625	306491	-1	None	None
2	None	ENSG00000235779	ENST00000457938	lincRNA	KNOWN	None	None	None	None	305841	307157	-1	None	None
2	None	ENSG00000235779	ENST00000587073	lincRNA	KNOWN	None	None	None	None	305841	308161	-1	None	None
2	None	ENSG00000235779	ENST00000590678	lincRNA	KNOWN	None	None	None	None	305841	309183	-1	None	None
2	None	ENSG00000235779	ENST00000591158	lincRNA	KNOWN	None	None	None	None	305843	306837	-1	None	None
2	None	ENSG00000235779	ENST00000416685	lincRNA	KNOWN	None	None	None	None	306059	309379	-1	None	None
2	None	ENSG00000235779	ENST00000586673	lincRNA	KNOWN	None	None	None	None	306225	310334	-1	None	None
2	None	ENSG00000235779	ENST00000592553	lincRNA	KNOWN	None	None	None	None	306225	313163	-1	None	None
2	None	ENSG00000235779	ENST00000587796	lincRNA	KNOWN	None	None	None	None	306225	314048	-1	None	None
2	None	ENSG00000235779	ENST00000586311	lincRNA	KNOWN	None	None	None	None	306225	314337	-1	None	None
2	None	ENSG00000235779	ENST00000589588	lincRNA	KNOWN	None	None	None	None	308833	314367	-1	None	None
2	None	ENSG00000235779	ENST00000586235	lincRNA	KNOWN	None	None	None	None	308833	314367	-1	None	None
2	None	ENSG00000235779	ENST00000591122	lincRNA	KNOWN	None	None	None	None	308972	311657	-1	None	None
2	None	ENSG00000235779	ENST00000585783	lincRNA	KNOWN	None	None	None	None	308972	314101	-1	None	None
2	None	ENSG00000235779	ENST00000592687	lincRNA	KNOWN	None	None	None	None	308981	314328	-1	None	None
2	None	ENSG00000235779	ENST00000591015	lincRNA	KNOWN	None	None	None	None	308987	314360	-1	None	None
2	None	ENSG00000235779	ENST00000589124	lincRNA	KNOWN	None	None	None	None	309001	314328	-1	None	None
2	None	ENSG00000235779	ENST00000592366	lincRNA	KNOWN	None	None	None	None	309023	314110	-1	None	None
2	None	ENSG00000235779	ENST00000586772	lincRNA	KNOWN	None	None	None	None	309031	314360	-1	None	None
2	None	ENSG00000235779	ENST00000591927	lincRNA	KNOWN	None	None	None	None	309120	314328	-1	None	None
2	None	ENSG00000235779	ENST00000591244	lincRNA	KNOWN	None	None	None	None	309218	314358	-1	None	None
2	None	ENSG00000235779	ENST00000589936	lincRNA	KNOWN	None	None	None	None	309221	314049	-1	None	None
2	None	ENSG00000235779	ENST00000586715	lincRNA	KNOWN	None	None	None	None	310296	314266	-1	None	None
10	ACBD7	ENSG00000176244	ENST00000356189	protein_coding	KNOWN	CCDS31153	17715	267	88	15119522	15130775	-1	None	FLJ38219, bA455B2.2
10	ACBD7	ENSG00000176244	ENST00000496890	processed_transcript	KNOWN	None	17715	None	None	15120486	15130480	-1	None	FLJ38219, bA455B2.2
HSCHR6_MHC_MANN	HLA-DRA	ENSG00000226260	ENST00000442960	protein_coding	KNOWN	None	4947	765	254	32446282	32451493	1	HLA-DRA1	None
HSCHR6_MHC_MANN	HLA-DRA	ENSG00000226260	ENST00000482781	processed_transcript	PUTATIVE	None	4947	None	None	32446312	32449636	1	HLA-DRA1	None
HSCHR6_MHC_MANN	HLA-DRA	ENSG00000226260	ENST00000415767	protein_coding	KNOWN	None	4947	690	229	32446364	32451493	1	HLA-DRA1	None
HSCHR6_MHC_MANN	HLA-DRA	ENSG00000226260	ENST00000549531	protein_coding	KNOWN	None	4947	714	237	32446310	32451491	1	HLA-DRA1	None
2	EPCAM	ENSG00000119888	ENST00000405271	protein_coding	PUTATIVE	None	11529	1029	342	47572297	47614039	1	M4S1, MIC18, TACSTD1	Ly74, TROP1, GA733-2, EGP34, EGP40, EGP-2, KSA, CD326, Ep-CAM, HEA125, KS1/4, MK-1, MH99, MOC31, 323/A3, 17-1A, TACST-1, CO-17A, ESA
2	EPCAM	ENSG00000119888	ENST00000456133	nonsense_mediated_decay	KNOWN	None	11529	1029	342	47572302	47614740	1	M4S1, MIC18, TACSTD1	Ly74, TROP1, GA733-2, EGP34, EGP40, EGP-2, KSA, CD326, Ep-CAM, HEA125, KS1/4, MK-1, MH99, MOC31, 323/A3, 17-1A, TACST-1, CO-17A, ESA
2	EPCAM	ENSG00000119888	ENST00000263735	protein_coding	KNOWN	CCDS1833	11529	945	314	47596287	47614173	1	M4S1, MIC18, TACSTD1	Ly74, TROP1, GA733-2, EGP34, EGP40, EGP-2, KSA, CD326, Ep-CAM, HEA125, KS1/4, MK-1, MH99, MOC31, 323/A3, 17-1A, TACST-1, CO-17A, ESA
2	EPCAM	ENSG00000119888	ENST00000474691	retained_intron	KNOWN	None	11529	None	None	47596614	47602393	1	M4S1, MIC18, TACSTD1	Ly74, TROP1, GA733-2, EGP34, EGP40, EGP-2, KSA, CD326, Ep-CAM, HEA125, KS1/4, MK-1, MH99, MOC31, 323/A3, 17-1A, TACST-1, CO-17A, ESA
2	EPCAM	ENSG00000119888	ENST00000419334	protein_coding	NOVEL	None	11529	598	198	47596634	47601132	1	M4S1, MIC18, TACSTD1	Ly74, TROP1, GA733-2, EGP34, EGP40, EGP-2, KSA, CD326, Ep-CAM, HEA125, KS1/4, MK-1, MH99, MOC31, 323/A3, 17-1A, TACST-1, CO-17A, ESA
2	EPCAM	ENSG00000119888	ENST00000490733	retained_intron	KNOWN	None	11529	None	None	47600914	47612349	1	M4S1, MIC18, TACSTD1	Ly74, TROP1, GA733-2, EGP34, EGP40, EGP-2, KSA, CD326, Ep-CAM, HEA125, KS1/4, MK-1, MH99, MOC31, 323/A3, 17-1A, TACST-1, CO-17A, ESA
HSCHR6_MHC_APD	HLA-DMB	ENSG00000242092	ENST00000494878	retained_intron	KNOWN	None	4935	None	None	32885993	32888250	-1	None	D6S221E, RING7
HSCHR6_MHC_APD	HLA-DMB	ENSG00000242092	ENST00000489470	retained_intron	KNOWN	None	4935	None	None	32885993	32888265	-1	None	D6S221E, RING7
HSCHR6_MHC_APD	HLA-DMB	ENSG00000242092	ENST00000437382	protein_coding	KNOWN	None	4935	321	106	32885993	32888803	-1	None	D6S221E, RING7
HSCHR6_MHC_APD	HLA-DMB	ENSG00000242092	ENST00000451921	protein_coding	KNOWN	None	4935	424	140	32885993	32890052	-1	None	D6S221E, RING7
HSCHR6_MHC_APD	HLA-DMB	ENSG00000242092	ENST00000480557	retained_intron	KNOWN	None	4935	None	None	32885993	32892348	-1	None	D6S221E, RING7
HSCHR6_MHC_APD	HLA-DMB	ENSG00000242092	ENST00000413617	protein_coding	KNOWN	None	4935	774	257	32885993	32892385	-1	None	D6S221E, RING7
HSCHR6_MHC_APD	HLA-DMB	ENSG00000242092	ENST00000395312	protein_coding	KNOWN	None	4935	792	263	32885993	32892434	-1	None	D6S221E, RING7
HSCHR6_MHC_APD	HLA-DMB	ENSG00000242092	ENST00000435056	protein_coding	KNOWN	None	4935	526	174	32888728	32904491	-1	None	D6S221E, RING7
HSCHR6_MHC_APD	HLA-DMB	ENSG00000242092	ENST00000552299	protein_coding	KNOWN	None	4935	288	95	32886002	32892404	-1	None	D6S221E, RING7
HSCHR6_MHC_APD	HLA-DMB	ENSG00000242092	ENST00000548611	protein_coding	KNOWN	None	4935	207	68	32886002	32892404	-1	None	D6S221E, RING7
HSCHR6_MHC_APD	HLA-DMB	ENSG00000242092	ENST00000548183	protein_coding	KNOWN	None	4935	171	56	32886335	32892171	-1	None	D6S221E, RING7
HSCHR6_MHC_COX	HLA-DMB	ENSG00000234154	ENST00000483420	retained_intron	KNOWN	None	4935	None	None	32824726	32826983	-1	None	D6S221E, RING7
HSCHR6_MHC_COX	HLA-DMB	ENSG00000234154	ENST00000468229	retained_intron	KNOWN	None	4935	None	None	32824726	32826998	-1	None	D6S221E, RING7
HSCHR6_MHC_COX	HLA-DMB	ENSG00000234154	ENST00000435204	protein_coding	KNOWN	None	4935	321	106	32824726	32827536	-1	None	D6S221E, RING7
HSCHR6_MHC_COX	HLA-DMB	ENSG00000234154	ENST00000441177	protein_coding	KNOWN	None	4935	424	140	32824726	32828785	-1	None	D6S221E, RING7
HSCHR6_MHC_COX	HLA-DMB	ENSG00000234154	ENST00000466737	retained_intron	KNOWN	None	4935	None	None	32824726	32831081	-1	None	D6S221E, RING7
HSCHR6_MHC_COX	HLA-DMB	ENSG00000234154	ENST00000418759	protein_coding	KNOWN	None	4935	774	257	32824726	32831118	-1	None	D6S221E, RING7
HSCHR6_MHC_COX	HLA-DMB	ENSG00000234154	ENST00000424822	protein_coding	KNOWN	None	4935	792	263	32824726	32831167	-1	None	D6S221E, RING7
HSCHR6_MHC_COX	HLA-DMB	ENSG00000234154	ENST00000430099	protein_coding	KNOWN	None	4935	526	174	32827461	32843224	-1	None	D6S221E, RING7
6	TAAR4P	ENSG00000237449	ENST00000454843	unitary_pseudogene	KNOWN	None	31924	None	None	132915537	132916575	-1	None	None
18	RPL17	ENSG00000265681	ENST00000584364	retained_intron	KNOWN	None	10307	None	None	47014851	47017308	-1	None	rpL23, L17
18	RPL17	ENSG00000265681	ENST00000579408	protein_coding	KNOWN	CCDS45865	10307	555	184	47014854	47018210	-1	None	rpL23, L17
18	RPL17	ENSG00000265681	ENST00000579248	protein_coding	KNOWN	CCDS45865	10307	555	184	47014854	47018814	-1	None	rpL23, L17
18	RPL17	ENSG00000265681	ENST00000581373	protein_coding	KNOWN	CCDS56070	10307	441	146	47014854	47018849	-1	None	rpL23, L17
18	RPL17	ENSG00000265681	ENST00000580261	protein_coding	KNOWN	CCDS45865	10307	555	184	47014854	47018893	-1	None	rpL23, L17
18	RPL17	ENSG00000265681	ENST00000580210	protein_coding	PUTATIVE	None	10307	525	174	47014888	47018184	-1	None	rpL23, L17
18	RPL17	ENSG00000265681	ENST00000583637	protein_coding	KNOWN	None	10307	522	173	47014922	47018769	-1	None	rpL23, L17
18	RPL17	ENSG00000265681	ENST00000578532	protein_coding	KNOWN	None	10307	513	170	47014931	47018802	-1	None	rpL23, L17
18	RPL17	ENSG00000265681	ENST00000582588	retained_intron	KNOWN	None	10307	None	None	47015535	47016838	-1	None	rpL23, L17
18	RPL17	ENSG00000265681	ENST00000581091	processed_transcript	KNOWN	None	10307	None	None	47015731	47017956	-1	None	rpL23, L17
18	RPL17	ENSG00000265681	ENST00000581741	retained_intron	KNOWN	None	10307	None	None	47015746	47017244	-1	None	rpL23, L17
18	RPL17	ENSG00000265681	ENST00000583036	protein_coding	KNOWN	None	10307	414	137	47015822	47018878	-1	None	rpL23, L17
18	RPL17	ENSG00000265681	ENST00000580387	protein_coding	KNOWN	None	10307	317	104	47015919	47018803	-1	None	rpL23, L17
18	RPL17	ENSG00000265681	ENST00000582935	retained_intron	KNOWN	None	10307	None	None	47016631	47017339	-1	None	rpL23, L17
18	RPL17	ENSG00000265681	ENST00000578528	protein_coding	KNOWN	None	10307	168	55	47017211	47018800	-1	None	rpL23, L17
18	RPL17	ENSG00000265681	ENST00000579495	retained_intron	KNOWN	None	10307	None	None	47017234	47018820	-1	None	rpL23, L17
18	RPL17	ENSG00000265681	ENST00000582782	retained_intron	KNOWN	None	10307	None	None	47017335	47018855	-1	None	rpL23, L17
18	RPL17	ENSG00000265681	ENST00000578966	retained_intron	KNOWN	None	10307	None	None	47017420	47018855	-1	None	rpL23, L17
18	RPL17	ENSG00000265681	ENST00000581305	retained_intron	KNOWN	None	10307	None	None	47017633	47018849	-1	None	rpL23, L17
18	RPL17	ENSG00000265681	ENST00000418495	protein_coding	KNOWN	CCDS45865	10307	555	184	47014858	47018906	-1	None	rpL23, L17
6	TAAR3	ENSG00000179073	ENST00000466706	processed_transcript	KNOWN	None	4513	None	None	132929364	132930441	-1	GPR57	None
6	TAAR3	ENSG00000179073	ENST00000481759	unitary_pseudogene	KNOWN	None	4513	None	None	132929391	132930415	-1	GPR57	None
6	TAAR3	ENSG00000179073	ENST00000313326	pseudogene	KNOWN	None	4513	None	None	132929386	132930415	-1	GPR57	None
4	None	ENSG00000237684	ENST00000413753	processed_pseudogene	KNOWN	None	None	None	None	118334618	118335435	1	None	None
13	NHLRC3	ENSG00000188811	ENST00000473371	retained_intron	KNOWN	None	33751	None	None	39612443	39615954	1	None	None
13	NHLRC3	ENSG00000188811	ENST00000470258	protein_coding	PUTATIVE	None	33751	453	150	39612448	39624246	1	None	None
13	NHLRC3	ENSG00000188811	ENST00000379600	protein_coding	KNOWN	CCDS31961	33751	1044	347	39612455	39624246	1	None	None
13	NHLRC3	ENSG00000188811	ENST00000379599	protein_coding	KNOWN	CCDS31962	33751	843	280	39612528	39624246	1	None	None
13	NHLRC3	ENSG00000188811	ENST00000485407	retained_intron	KNOWN	None	33751	None	None	39616195	39618601	1	None	None
4	BTF3L4P4	ENSG00000229226	ENST00000506381	processed_pseudogene	KNOWN	None	39648	None	None	169519391	169519908	-1	None	None
17	B9D1	ENSG00000108641	ENST00000575403	protein_coding	PUTATIVE	CCDS58528	24123	444	147	19240867	19281495	-1	None	B9, EPPB9
17	B9D1	ENSG00000108641	ENST00000461069	protein_coding	PUTATIVE	None	24123	561	186	19244234	19265927	-1	None	B9, EPPB9
17	B9D1	ENSG00000108641	ENST00000395615	protein_coding	PUTATIVE	None	24123	486	161	19246483	19265889	-1	None	B9, EPPB9
17	B9D1	ENSG00000108641	ENST00000261499	protein_coding	KNOWN	CCDS11205	24123	615	204	19246483	19266026	-1	None	B9, EPPB9
17	B9D1	ENSG00000108641	ENST00000477478	protein_coding	PUTATIVE	None	24123	642	213	19246483	19281495	-1	None	B9, EPPB9
17	B9D1	ENSG00000108641	ENST00000395616	protein_coding	PUTATIVE	None	24123	564	187	19246767	19266046	-1	None	B9, EPPB9
17	B9D1	ENSG00000108641	ENST00000575478	protein_coding	PUTATIVE	None	24123	421	139	19247081	19266034	-1	None	B9, EPPB9
17	B9D1	ENSG00000108641	ENST00000268841	protein_coding	KNOWN	None	24123	462	153	19250259	19265982	-1	None	B9, EPPB9
17	B9D1	ENSG00000108641	ENST00000440841	protein_coding	PUTATIVE	None	24123	402	133	19250263	19265855	-1	None	B9, EPPB9
17	B9D1	ENSG00000108641	ENST00000477683	retained_intron	KNOWN	None	24123	None	None	19250512	19266026	-1	None	B9, EPPB9
17	B9D1	ENSG00000108641	ENST00000574508	protein_coding	PUTATIVE	None	24123	320	105	19250593	19266344	-1	None	B9, EPPB9
17	B9D1	ENSG00000108641	ENST00000582857	nonsense_mediated_decay	KNOWN	None	24123	339	112	19250604	19265932	-1	None	B9, EPPB9
17	B9D1	ENSG00000108641	ENST00000487415	protein_coding	PUTATIVE	None	24123	58	18	19263634	19281203	-1	None	B9, EPPB9
17	B9D1	ENSG00000108641	ENST00000468679	processed_transcript	KNOWN	None	24123	None	None	19266970	19281218	-1	None	B9, EPPB9
17	B9D1	ENSG00000108641	ENST00000476298	retained_intron	KNOWN	None	24123	None	None	19274549	19281461	-1	None	B9, EPPB9
4	None	ENSG00000249623	ENST00000507842	antisense	KNOWN	None	None	None	None	169569047	169569738	-1	None	None
1	SERPINC1	ENSG00000117601	ENST00000367698	protein_coding	KNOWN	CCDS1313	775	1395	464	173872947	173886516	-1	AT3	ATIII, MGC22579
1	SERPINC1	ENSG00000117601	ENST00000487183	processed_transcript	KNOWN	None	775	None	None	173878868	173883803	-1	AT3	ATIII, MGC22579
1	SERPINC1	ENSG00000117601	ENST00000494024	processed_transcript	KNOWN	None	775	None	None	173881118	173886454	-1	AT3	ATIII, MGC22579
17	OR3A2	ENSG00000221882	ENST00000408891	protein_coding	KNOWN	CCDS42233	8283	966	321	3181193	3182268	-1	None	OLFRA04, OR228, OR17-228
7	FAM131B	ENSG00000159784	ENST00000443739	protein_coding	KNOWN	CCDS47734	22202	1083	360	143050493	143059845	-1	None	KIAA0773
7	FAM131B	ENSG00000159784	ENST00000410085	nonsense_mediated_decay	KNOWN	None	22202	35	10	143050494	143056850	-1	None	KIAA0773
7	FAM131B	ENSG00000159784	ENST00000409578	protein_coding	NOVEL	None	22202	1047	348	143050494	143059786	-1	None	KIAA0773
7	FAM131B	ENSG00000159784	ENST00000409346	protein_coding	KNOWN	CCDS5882	22202	999	332	143050494	143059818	-1	None	KIAA0773
7	FAM131B	ENSG00000159784	ENST00000409408	protein_coding	KNOWN	CCDS5882	22202	999	332	143050495	143058895	-1	None	KIAA0773
7	FAM131B	ENSG00000159784	ENST00000409222	protein_coding	KNOWN	CCDS5882	22202	999	332	143050915	143059148	-1	None	KIAA0773
7	FAM131B	ENSG00000159784	ENST00000519279	nonsense_mediated_decay	KNOWN	None	22202	192	63	143054064	143059725	-1	None	KIAA0773
7	FAM131B	ENSG00000159784	ENST00000521347	nonsense_mediated_decay	KNOWN	None	22202	135	44	143054374	143059173	-1	None	KIAA0773
7	FAM131B	ENSG00000159784	ENST00000519161	retained_intron	KNOWN	None	22202	None	None	143055980	143059863	-1	None	KIAA0773
4	RNU6-1336P	ENSG00000206613	ENST00000383886	snRNA	KNOWN	None	48299	None	None	169607759	169607867	-1	None	None
10	C10orf32	ENSG00000166275	ENST00000339834	protein_coding	KNOWN	CCDS7542	23516	321	106	104613980	104624718	1	None	FLJ40752
10	C10orf32	ENSG00000166275	ENST00000369883	protein_coding	KNOWN	CCDS7542	23516	321	106	104614019	104623970	1	None	FLJ40752
10	C10orf32	ENSG00000166275	ENST00000478833	retained_intron	KNOWN	None	23516	None	None	104614166	104620584	1	None	FLJ40752
6	None	ENSG00000227704	ENST00000430250	antisense	KNOWN	None	None	None	None	170125600	170139088	1	None	None
10	None	ENSG00000227821	ENST00000451996	pseudogene	NOVEL	None	None	None	None	6867825	6868186	-1	None	None
4	RPL9P16	ENSG00000214676	ENST00000491923	processed_pseudogene	KNOWN	None	36851	None	None	169676967	169677533	1	None	None
12	ANKRD33	ENSG00000167612	ENST00000301190	protein_coding	NOVEL	CCDS8815	13788	1359	452	52281744	52285438	1	C12orf7	DKFZp686O1689, PANKY
12	ANKRD33	ENSG00000167612	ENST00000549751	nonsense_mediated_decay	KNOWN	None	13788	411	136	52281793	52285138	1	C12orf7	DKFZp686O1689, PANKY
12	ANKRD33	ENSG00000167612	ENST00000548383	retained_intron	KNOWN	None	13788	None	None	52281796	52285138	1	C12orf7	DKFZp686O1689, PANKY
12	ANKRD33	ENSG00000167612	ENST00000548526	retained_intron	KNOWN	None	13788	None	None	52281887	52285441	1	C12orf7	DKFZp686O1689, PANKY
12	ANKRD33	ENSG00000167612	ENST00000340970	protein_coding	KNOWN	CCDS44892	13788	819	272	52282001	52285441	1	C12orf7	DKFZp686O1689, PANKY
12	ANKRD33	ENSG00000167612	ENST00000547119	processed_transcript	KNOWN	None	13788	None	None	52282048	52285222	1	C12orf7	DKFZp686O1689, PANKY
12	ANKRD33	ENSG00000167612	ENST00000549316	processed_transcript	PUTATIVE	None	13788	None	None	52282364	52284542	1	C12orf7	DKFZp686O1689, PANKY
12	ANKRD33	ENSG00000167612	ENST00000550652	retained_intron	KNOWN	None	13788	None	None	52284324	52285448	1	C12orf7	DKFZp686O1689, PANKY
12	ANKRD33	ENSG00000167612	ENST00000538991	protein_coding	KNOWN	None	13788	612	203	52281793	52285138	1	C12orf7	DKFZp686O1689, PANKY
19	None	ENSG00000267927	ENST00000599775	antisense	KNOWN	None	None	None	None	52674411	52680255	1	None	None
10	None	ENSG00000234248	ENST00000457632	lincRNA	KNOWN	None	None	None	None	6933419	6962434	-1	None	None
2	None	ENSG00000233684	ENST00000430529	lincRNA	KNOWN	None	None	None	None	317912	336465	1	None	None
2	None	ENSG00000233684	ENST00000436808	lincRNA	KNOWN	None	None	None	None	318053	342118	1	None	None
6	None	ENSG00000266896	ENST00000586101	sense_intronic	KNOWN	None	None	None	None	170170509	170172138	1	None	None
4	None	ENSG00000249609	ENST00000508985	antisense	KNOWN	None	None	None	None	169750070	169754088	-1	None	None
11	MMP20	ENSG00000137674	ENST00000260228	protein_coding	KNOWN	CCDS8318	7167	1452	483	102447566	102496063	-1	None	None
11	MMP20	ENSG00000137674	ENST00000542305	processed_transcript	KNOWN	None	7167	None	None	102447875	102454338	-1	None	None
11	MMP20	ENSG00000137674	ENST00000544938	processed_transcript	KNOWN	None	7167	None	None	102465419	102478581	-1	None	None
HSCHR6_MHC_MCF	LYPLA2P1	ENSG00000205677	ENST00000381207	processed_pseudogene	KNOWN	None	21069	None	None	33503674	33504369	-1	LYPLA2L	dJ570F3.6, APT
HSCHR6_MHC_MCF	LYPLA2P1	ENSG00000205677	ENST00000551394	processed_pseudogene	KNOWN	None	21069	None	None	33503815	33504332	-1	LYPLA2L	dJ570F3.6, APT
4	RNU6-853P	ENSG00000201176	ENST00000364306	snRNA	KNOWN	None	47816	None	None	169806506	169806612	1	None	None
19	None	ENSG00000268015	ENST00000593857	antisense	KNOWN	None	None	None	None	52725478	52734540	-1	None	None
19	None	ENSG00000268015	ENST00000599125	antisense	KNOWN	None	None	None	None	52731496	52734547	-1	None	None
19	None	ENSG00000268015	ENST00000601745	antisense	KNOWN	None	None	None	None	52732461	52734542	-1	None	None
7	HOXA4	ENSG00000197576	ENST00000360046	protein_coding	KNOWN	CCDS5405	5105	963	320	27168126	27170418	-1	HOX1D, HOX1	None
7	HOXA4	ENSG00000197576	ENST00000511914	protein_coding	PUTATIVE	None	5105	421	139	27168283	27169810	-1	HOX1D, HOX1	None
7	HOXA4	ENSG00000197576	ENST00000428284	protein_coding	KNOWN	CCDS5405	5105	963	320	27168152	27170352	-1	HOX1D, HOX1	None
2	None	ENSG00000236856	ENST00000431911	lincRNA	KNOWN	None	None	None	None	388412	416885	1	None	None
4	RNY4P17	ENSG00000201818	ENST00000364948	misc_RNA	KNOWN	None	34067	None	None	169926400	169926495	1	None	None
HSCHR6_MHC_MCF	RPL35AP4	ENSG00000231602	ENST00000414612	processed_pseudogene	KNOWN	None	33460	None	None	33527511	33527612	-1	None	BPG294E21.7, OTTHUMG00000140156
9	FAM220BP	ENSG00000176007	ENST00000377689	processed_pseudogene	KNOWN	None	23678	None	None	38527094	38527909	1	C9orf51	bA392E22.4
19	ZSCAN4	ENSG00000180532	ENST00000318203	protein_coding	KNOWN	CCDS12958	23709	1302	433	58180303	58190520	1	ZNF494	FLJ35105
4	None	ENSG00000251445	ENST00000506933	antisense	KNOWN	None	None	None	None	169931581	169932090	1	None	None
2	None	ENSG00000226277	ENST00000449119	lincRNA	KNOWN	None	None	None	None	421057	422156	1	None	None
2	None	ENSG00000226277	ENST00000449621	lincRNA	KNOWN	None	None	None	None	421133	422303	1	None	None
3	RTP3	ENSG00000163825	ENST00000296142	protein_coding	KNOWN	CCDS2740	15572	699	232	46538981	46542439	1	TMEM7	LTM1
4	RPL6P12	ENSG00000214671	ENST00000472250	processed_pseudogene	KNOWN	None	35681	None	None	170087423	170088268	1	None	None
18	RNF138	ENSG00000134758	ENST00000261593	protein_coding	KNOWN	CCDS11903	17765	738	245	29671818	29711524	1	None	STRIN, NARF
18	RNF138	ENSG00000134758	ENST00000585103	processed_transcript	KNOWN	None	17765	None	None	29671847	29693776	1	None	STRIN, NARF
18	RNF138	ENSG00000134758	ENST00000578914	protein_coding	PUTATIVE	None	17765	240	79	29671854	29693809	1	None	STRIN, NARF
18	RNF138	ENSG00000134758	ENST00000580519	processed_transcript	KNOWN	None	17765	None	None	29671865	29689475	1	None	STRIN, NARF
18	RNF138	ENSG00000134758	ENST00000578107	protein_coding	KNOWN	None	17765	326	107	29672573	29693757	1	None	STRIN, NARF
18	RNF138	ENSG00000134758	ENST00000583733	retained_intron	KNOWN	None	17765	None	None	29672626	29693904	1	None	STRIN, NARF
18	RNF138	ENSG00000134758	ENST00000257190	protein_coding	KNOWN	CCDS11904	17765	456	151	29672653	29710678	1	None	STRIN, NARF
18	RNF138	ENSG00000134758	ENST00000580499	protein_coding	PUTATIVE	None	17765	428	141	29672665	29704732	1	None	STRIN, NARF
18	RNF138	ENSG00000134758	ENST00000577999	protein_coding	PUTATIVE	None	17765	201	66	29703488	29709265	1	None	STRIN, NARF
HSCHR6_MHC_MCF	KIFC1	ENSG00000056678	ENST00000417146	processed_transcript	KNOWN	None	6389	None	None	33529672	33530001	1	KNSL2	HSET
HSCHR6_MHC_MCF	KIFC1	ENSG00000056678	ENST00000411692	processed_transcript	KNOWN	None	6389	None	None	33529997	33530001	1	KNSL2	HSET
9	None	ENSG00000259898	ENST00000564800	processed_pseudogene	KNOWN	None	None	None	None	38542311	38542566	-1	None	None
4	None	ENSG00000251171	ENST00000510225	antisense	KNOWN	None	None	None	None	170122945	170141500	1	None	None
2	None	ENSG00000223985	ENST00000427398	lincRNA	KNOWN	None	None	None	None	490944	492655	-1	None	None
21	None	ENSG00000249209	ENST00000429238	protein_coding	PUTATIVE	None	None	572	189	34956993	35284635	-1	None	None
19	EMR2	ENSG00000127507	ENST00000315576	protein_coding	KNOWN	CCDS32935	3337	2472	823	14843205	14889349	-1	None	CD312
19	EMR2	ENSG00000127507	ENST00000360222	retained_intron	KNOWN	None	3337	None	None	14846388	14889353	-1	None	CD312
19	EMR2	ENSG00000127507	ENST00000596991	protein_coding	PUTATIVE	None	3337	2439	812	14846891	14887568	-1	None	CD312
19	EMR2	ENSG00000127507	ENST00000392965	protein_coding	NOVEL	CCDS59361	3337	2298	765	14846919	14887654	-1	None	CD312
19	EMR2	ENSG00000127507	ENST00000594294	protein_coding	PUTATIVE	None	3337	2325	774	14847048	14887568	-1	None	CD312
19	EMR2	ENSG00000127507	ENST00000594076	protein_coding	PUTATIVE	None	3337	2193	730	14847048	14887568	-1	None	CD312
19	EMR2	ENSG00000127507	ENST00000595839	protein_coding	PUTATIVE	None	3337	2046	681	14847048	14887568	-1	None	CD312
19	EMR2	ENSG00000127507	ENST00000601345	protein_coding	PUTATIVE	None	3337	2496	831	14852287	14887654	-1	None	CD312
19	EMR2	ENSG00000127507	ENST00000595208	nonsense_mediated_decay	KNOWN	None	3337	992	329	14854576	14883186	-1	None	CD312
19	EMR2	ENSG00000127507	ENST00000392962	nonsense_mediated_decay	KNOWN	None	3337	1140	379	14862315	14887653	-1	None	CD312
19	EMR2	ENSG00000127507	ENST00000601619	processed_transcript	KNOWN	None	3337	None	None	14877898	14887418	-1	None	CD312
19	EMR2	ENSG00000127507	ENST00000599423	processed_transcript	KNOWN	None	3337	None	None	14879603	14887653	-1	None	CD312
19	EMR2	ENSG00000127507	ENST00000598500	retained_intron	KNOWN	None	3337	None	None	14882692	14887638	-1	None	CD312
19	EMR2	ENSG00000127507	ENST00000392967	protein_coding	KNOWN	None	3337	2439	812	14843205	14889353	-1	None	CD312
19	EMR2	ENSG00000127507	ENST00000346057	protein_coding	KNOWN	None	3337	2325	774	14843205	14889353	-1	None	CD312
19	EMR2	ENSG00000127507	ENST00000353876	protein_coding	KNOWN	None	3337	2193	730	14843205	14889353	-1	None	CD312
19	EMR2	ENSG00000127507	ENST00000353005	protein_coding	KNOWN	None	3337	2046	681	14843205	14889353	-1	None	CD312
19	EMR2	ENSG00000127507	ENST00000392964	protein_coding	KNOWN	None	3337	678	225	14854576	14883186	-1	None	CD312
10	HMX3	ENSG00000188620	ENST00000357878	protein_coding	KNOWN	CCDS41575	5019	1074	357	124895478	124897257	1	None	NKX5-1
4	None	ENSG00000264713	ENST00000582776	miRNA	NOVEL	None	None	None	None	170706345	170706431	-1	None	None
19	LAIR1	ENSG00000167613	ENST00000391743	protein_coding	PUTATIVE	None	6477	810	269	54865362	54882165	-1	None	CD305
19	LAIR1	ENSG00000167613	ENST00000475389	retained_intron	KNOWN	None	6477	None	None	54866284	54868956	-1	None	CD305
19	LAIR1	ENSG00000167613	ENST00000348231	protein_coding	KNOWN	CCDS12892	6477	813	270	54866284	54876472	-1	None	CD305
19	LAIR1	ENSG00000167613	ENST00000391742	protein_coding	KNOWN	CCDS12891	6477	864	287	54866284	54876564	-1	None	CD305
19	LAIR1	ENSG00000167613	ENST00000434277	protein_coding	NOVEL	None	6477	861	286	54866284	54876602	-1	None	CD305
19	LAIR1	ENSG00000167613	ENST00000498511	retained_intron	KNOWN	None	6477	None	None	54866810	54872800	-1	None	CD305
19	LAIR1	ENSG00000167613	ENST00000391741	nonsense_mediated_decay	KNOWN	None	6477	384	127	54866867	54876477	-1	None	CD305
19	LAIR1	ENSG00000167613	ENST00000474878	protein_coding	NOVEL	None	6477	810	269	54866876	54876414	-1	None	CD305
19	LAIR1	ENSG00000167613	ENST00000467269	retained_intron	KNOWN	None	6477	None	None	54866876	54876414	-1	None	CD305
19	LAIR1	ENSG00000167613	ENST00000440716	nonsense_mediated_decay	KNOWN	None	6477	60	19	54866955	54876443	-1	None	CD305
19	LAIR1	ENSG00000167613	ENST00000463489	processed_transcript	KNOWN	None	6477	None	None	54867589	54876697	-1	None	CD305
19	LAIR1	ENSG00000167613	ENST00000418556	nonsense_mediated_decay	KNOWN	None	6477	462	153	54867846	54876474	-1	None	CD305
19	LAIR1	ENSG00000167613	ENST00000460312	retained_intron	KNOWN	None	6477	None	None	54867895	54869238	-1	None	CD305
19	LAIR1	ENSG00000167613	ENST00000468656	processed_transcript	KNOWN	None	6477	None	None	54868166	54876706	-1	None	CD305
19	LAIR1	ENSG00000167613	ENST00000436513	nonsense_mediated_decay	KNOWN	None	6477	135	44	54868194	54876538	-1	None	CD305
19	LAIR1	ENSG00000167613	ENST00000420483	nonsense_mediated_decay	KNOWN	None	6477	135	44	54868217	54876538	-1	None	CD305
19	LAIR1	ENSG00000167613	ENST00000444687	protein_coding	PUTATIVE	None	6477	240	79	54869615	54872556	-1	None	CD305
19	LAIR1	ENSG00000167613	ENST00000423853	nonsense_mediated_decay	KNOWN	None	6477	60	19	54872302	54876721	-1	None	CD305
19	LAIR1	ENSG00000167613	ENST00000484116	processed_transcript	KNOWN	None	6477	None	None	54872407	54876456	-1	None	CD305
19	LAIR1	ENSG00000167613	ENST00000427131	nonsense_mediated_decay	KNOWN	None	6477	60	19	54872566	54876538	-1	None	CD305
19	LAIR1	ENSG00000167613	ENST00000480122	processed_transcript	PUTATIVE	None	6477	None	None	54872567	54880206	-1	None	CD305
19	LAIR1	ENSG00000167613	ENST00000438193	protein_coding	PUTATIVE	None	6477	280	92	54872589	54882098	-1	None	CD305
19	LAIR1	ENSG00000167613	ENST00000596835	retained_intron	KNOWN	None	6477	None	None	54879796	54880307	-1	None	CD305
19	LAIR1	ENSG00000167613	ENST00000313038	protein_coding	KNOWN	None	6477	843	280	54866383	54882058	-1	None	CD305
2	RHOB	ENSG00000143878	ENST00000272233	protein_coding	KNOWN	CCDS1699	668	591	196	20646835	20649200	1	ARH6, ARHB	RhoB, RHOH6, MST081
4	PTGES3P3	ENSG00000229204	ENST00000511479	processed_pseudogene	KNOWN	None	43823	None	None	170712372	170712853	-1	None	None
4	PTGES3P3	ENSG00000229204	ENST00000425338	processed_pseudogene	KNOWN	None	43823	None	None	170712371	170712853	-1	None	None
6	LINC00242	ENSG00000229214	ENST00000437615	lincRNA	KNOWN	None	21249	None	None	170188886	170198921	-1	C6orf122, NCRNA00242	FLJ31451, dJ266L20.5
10	None	ENSG00000232426	ENST00000423864	lincRNA	KNOWN	None	None	None	None	48988121	48989268	-1	None	None
10	None	ENSG00000232426	ENST00000430284	lincRNA	KNOWN	None	None	None	None	48988121	48998766	-1	None	None
4	None	ENSG00000248625	ENST00000503181	processed_pseudogene	KNOWN	None	None	None	None	170753804	170754514	1	None	None
2	None	ENSG00000225942	ENST00000454477	lincRNA	KNOWN	None	None	None	None	545805	546667	1	None	None
6	LINC00574	ENSG00000231690	ENST00000420557	lincRNA	KNOWN	None	21598	None	None	170190417	170202969	1	C6orf208	FLJ13162, dJ182D15.1
4	None	ENSG00000248319	ENST00000508313	lincRNA	KNOWN	None	None	None	None	170838912	170897053	-1	None	None
3	SETD5	ENSG00000168137	ENST00000431285	nonsense_mediated_decay	KNOWN	None	25566	159	52	9439299	9482382	1	None	FLJ10707
3	SETD5	ENSG00000168137	ENST00000450326	protein_coding	KNOWN	None	25566	486	161	9439403	9477509	1	None	FLJ10707
3	SETD5	ENSG00000168137	ENST00000463180	retained_intron	KNOWN	None	25566	None	None	9439540	9471009	1	None	FLJ10707
3	SETD5	ENSG00000168137	ENST00000478475	processed_transcript	KNOWN	None	25566	None	None	9439547	9475081	1	None	FLJ10707
3	SETD5	ENSG00000168137	ENST00000415650	nonsense_mediated_decay	KNOWN	None	25566	198	65	9439557	9475562	1	None	FLJ10707
3	SETD5	ENSG00000168137	ENST00000443339	nonsense_mediated_decay	KNOWN	None	25566	159	52	9439584	9506437	1	None	FLJ10707
3	SETD5	ENSG00000168137	ENST00000406341	protein_coding	KNOWN	CCDS46741	25566	4329	1442	9439588	9519838	1	None	FLJ10707
3	SETD5	ENSG00000168137	ENST00000468208	processed_transcript	KNOWN	None	25566	None	None	9464895	9470692	1	None	FLJ10707
3	SETD5	ENSG00000168137	ENST00000407969	protein_coding	NOVEL	None	25566	4386	1461	9470609	9519838	1	None	FLJ10707
3	SETD5	ENSG00000168137	ENST00000442373	protein_coding	PUTATIVE	None	25566	511	169	9471609	9483310	1	None	FLJ10707
3	SETD5	ENSG00000168137	ENST00000302463	protein_coding	KNOWN	None	25566	4035	1344	9471634	9518162	1	None	FLJ10707
3	SETD5	ENSG00000168137	ENST00000466172	processed_transcript	KNOWN	None	25566	None	None	9471657	9473560	1	None	FLJ10707
3	SETD5	ENSG00000168137	ENST00000490791	processed_transcript	KNOWN	None	25566	None	None	9475169	9482191	1	None	FLJ10707
3	SETD5	ENSG00000168137	ENST00000493918	retained_intron	KNOWN	None	25566	None	None	9475677	9518143	1	None	FLJ10707
3	SETD5	ENSG00000168137	ENST00000399686	protein_coding	PUTATIVE	None	25566	2734	910	9483851	9520924	1	None	FLJ10707
3	SETD5	ENSG00000168137	ENST00000497213	processed_transcript	KNOWN	None	25566	None	None	9483854	9487416	1	None	FLJ10707
3	SETD5	ENSG00000168137	ENST00000413704	nonsense_mediated_decay	KNOWN	None	25566	532	176	9483854	9517838	1	None	FLJ10707
3	SETD5	ENSG00000168137	ENST00000466242	retained_intron	KNOWN	None	25566	None	None	9484574	9518143	1	None	FLJ10707
3	SETD5	ENSG00000168137	ENST00000464410	retained_intron	KNOWN	None	25566	None	None	9487123	9489402	1	None	FLJ10707
3	SETD5	ENSG00000168137	ENST00000488236	processed_transcript	KNOWN	None	25566	None	None	9489371	9506638	1	None	FLJ10707
3	SETD5	ENSG00000168137	ENST00000421188	protein_coding	NOVEL	None	25566	1323	440	9489654	9515056	1	None	FLJ10707
3	SETD5	ENSG00000168137	ENST00000478961	processed_transcript	KNOWN	None	25566	None	None	9490159	9506494	1	None	FLJ10707
3	SETD5	ENSG00000168137	ENST00000476740	processed_transcript	KNOWN	None	25566	None	None	9490243	9506377	1	None	FLJ10707
3	SETD5	ENSG00000168137	ENST00000486465	retained_intron	KNOWN	None	25566	None	None	9512351	9516453	1	None	FLJ10707
3	SETD5	ENSG00000168137	ENST00000492939	retained_intron	KNOWN	None	25566	None	None	9514920	9516949	1	None	FLJ10707
3	SETD5	ENSG00000168137	ENST00000459941	retained_intron	KNOWN	None	25566	None	None	9515079	9517389	1	None	FLJ10707
3	SETD5	ENSG00000168137	ENST00000479538	processed_transcript	KNOWN	None	25566	None	None	9515107	9516655	1	None	FLJ10707
3	SETD5	ENSG00000168137	ENST00000466826	retained_intron	KNOWN	None	25566	None	None	9516734	9517343	1	None	FLJ10707
3	SETD5	ENSG00000168137	ENST00000402198	protein_coding	KNOWN	CCDS46741	25566	4329	1442	9439403	9519838	1	None	FLJ10707
3	SETD5	ENSG00000168137	ENST00000402466	protein_coding	KNOWN	None	25566	4035	1344	9439403	9519838	1	None	FLJ10707
7	GIMAP4	ENSG00000133574	ENST00000255945	protein_coding	KNOWN	CCDS5904	21872	990	329	150264365	150271041	1	None	HIMAP4, FLJ11110, IMAP4
7	GIMAP4	ENSG00000133574	ENST00000461940	protein_coding	NOVEL	None	21872	1032	343	150264457	150270602	1	None	HIMAP4, FLJ11110, IMAP4
7	GIMAP4	ENSG00000133574	ENST00000494750	processed_transcript	PUTATIVE	None	21872	None	None	150264478	150270026	1	None	HIMAP4, FLJ11110, IMAP4
7	GIMAP4	ENSG00000133574	ENST00000478135	processed_transcript	KNOWN	None	21872	None	None	150264484	150269621	1	None	HIMAP4, FLJ11110, IMAP4
7	GIMAP4	ENSG00000133574	ENST00000479232	protein_coding	KNOWN	None	21872	453	150	150264524	150269569	1	None	HIMAP4, FLJ11110, IMAP4
22	None	ENSG00000234630	ENST00000412149	lincRNA	KNOWN	None	None	None	None	22648098	22649159	1	None	None
2	None	ENSG00000233633	ENST00000444079	lincRNA	KNOWN	None	None	None	None	558204	578145	1	None	None
15	SENP8	ENSG00000166192	ENST00000542035	protein_coding	KNOWN	CCDS10240	22992	639	212	72406599	72433303	1	PRSC2	NEDP1, DEN1, HsT17512
15	SENP8	ENSG00000166192	ENST00000567794	protein_coding	KNOWN	None	22992	112	36	72409192	72432076	1	PRSC2	NEDP1, DEN1, HsT17512
15	SENP8	ENSG00000166192	ENST00000564863	protein_coding	KNOWN	None	22992	221	72	72409246	72432185	1	PRSC2	NEDP1, DEN1, HsT17512
15	SENP8	ENSG00000166192	ENST00000340912	protein_coding	KNOWN	CCDS10240	22992	639	212	72410637	72433304	1	PRSC2	NEDP1, DEN1, HsT17512
15	SENP8	ENSG00000166192	ENST00000564082	protein_coding	KNOWN	None	22992	392	129	72410666	72432356	1	PRSC2	NEDP1, DEN1, HsT17512
15	SENP8	ENSG00000166192	ENST00000544411	protein_coding	KNOWN	CCDS10240	22992	639	212	72409192	72433311	1	PRSC2	NEDP1, DEN1, HsT17512
15	SENP8	ENSG00000166192	ENST00000544171	protein_coding	KNOWN	CCDS10240	22992	639	212	72410643	72433311	1	PRSC2	NEDP1, DEN1, HsT17512
2	None	ENSG00000233296	ENST00000445418	antisense	KNOWN	None	None	None	None	677186	682802	1	None	None
2	None	ENSG00000233296	ENST00000435573	antisense	KNOWN	None	None	None	None	680081	697371	1	None	None
11	RAB39A	ENSG00000179331	ENST00000320578	protein_coding	KNOWN	CCDS8338	16521	654	217	107799229	107834208	1	RAB39	None
22	None	ENSG00000236850	ENST00000413293	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	22657589	22664766	1	None	None
22	None	ENSG00000236850	ENST00000426066	processed_transcript	KNOWN	None	None	None	None	22657589	22677203	1	None	None
12	MGP	ENSG00000111341	ENST00000539261	protein_coding	KNOWN	CCDS8669	7060	312	103	15034115	15038860	-1	None	None
12	MGP	ENSG00000111341	ENST00000545199	protein_coding	PUTATIVE	None	7060	224	73	15034825	15037179	-1	None	None
12	MGP	ENSG00000111341	ENST00000228938	protein_coding	NOVEL	CCDS53752	7060	387	128	15034832	15038791	-1	None	None
12	MGP	ENSG00000111341	ENST00000507170	retained_intron	KNOWN	None	7060	None	None	15035988	15038788	-1	None	None
3	SNRK	ENSG00000163788	ENST00000454177	protein_coding	KNOWN	CCDS43075	30598	2298	765	43328004	43390330	1	None	FLJ20224, HSNFRK, KIAA0096
3	SNRK	ENSG00000163788	ENST00000429705	protein_coding	KNOWN	CCDS43075	30598	2298	765	43328030	43392635	1	None	FLJ20224, HSNFRK, KIAA0096
3	SNRK	ENSG00000163788	ENST00000296088	protein_coding	KNOWN	CCDS43075	30598	2298	765	43328032	43392630	1	None	FLJ20224, HSNFRK, KIAA0096
3	SNRK	ENSG00000163788	ENST00000437827	protein_coding	NOVEL	None	30598	1680	559	43328078	43390245	1	None	FLJ20224, HSNFRK, KIAA0096
3	SNRK	ENSG00000163788	ENST00000462810	processed_transcript	KNOWN	None	30598	None	None	43344604	43374882	1	None	FLJ20224, HSNFRK, KIAA0096
3	SNRK	ENSG00000163788	ENST00000484791	retained_intron	KNOWN	None	30598	None	None	43373658	43382173	1	None	FLJ20224, HSNFRK, KIAA0096
3	SNRK	ENSG00000163788	ENST00000481892	retained_intron	KNOWN	None	30598	None	None	43384728	43389098	1	None	FLJ20224, HSNFRK, KIAA0096
3	SNRK	ENSG00000163788	ENST00000468628	processed_transcript	PUTATIVE	None	30598	None	None	43384843	43466256	1	None	FLJ20224, HSNFRK, KIAA0096
9	None	ENSG00000225002	ENST00000445897	lincRNA	KNOWN	None	None	None	None	108823635	108827106	-1	None	None
3	None	ENSG00000214919	ENST00000399242	protein_coding	KNOWN	None	None	387	128	155459933	155461515	-1	None	None
2	None	ENSG00000233970	ENST00000439196	antisense	KNOWN	None	None	None	None	692083	693235	-1	None	None
16	None	ENSG00000260466	ENST00000563687	antisense	KNOWN	None	None	None	None	87870138	87871269	1	None	None
9	None	ENSG00000234323	ENST00000435485	lincRNA	KNOWN	None	None	None	None	109040673	109367076	1	None	None
9	None	ENSG00000234323	ENST00000425709	lincRNA	KNOWN	None	None	None	None	109213097	109367076	1	None	None
4	None	ENSG00000236922	ENST00000422145	lincRNA	KNOWN	None	None	None	None	118349552	118612343	1	None	None
4	None	ENSG00000236922	ENST00000437514	lincRNA	KNOWN	None	None	None	None	118349559	118461728	1	None	None
4	None	ENSG00000236922	ENST00000600624	lincRNA	KNOWN	None	None	None	None	118492910	118610279	1	None	None
2	PTPN18	ENSG00000072135	ENST00000175756	protein_coding	KNOWN	CCDS2161	9649	1383	460	131113580	131132982	1	None	BDP1
2	PTPN18	ENSG00000072135	ENST00000347849	protein_coding	NOVEL	CCDS46410	9649	1062	353	131113618	131132144	1	None	BDP1
2	PTPN18	ENSG00000072135	ENST00000489215	retained_intron	KNOWN	None	9649	None	None	131113628	131127802	1	None	BDP1
2	PTPN18	ENSG00000072135	ENST00000428843	nonsense_mediated_decay	KNOWN	None	9649	147	48	131113639	131127761	1	None	BDP1
2	PTPN18	ENSG00000072135	ENST00000420717	processed_transcript	KNOWN	None	9649	None	None	131116437	131120003	1	None	BDP1
2	PTPN18	ENSG00000072135	ENST00000483617	retained_intron	KNOWN	None	9649	None	None	131116466	131128000	1	None	BDP1
2	PTPN18	ENSG00000072135	ENST00000479295	retained_intron	KNOWN	None	9649	None	None	131116523	131117494	1	None	BDP1
2	PTPN18	ENSG00000072135	ENST00000460992	retained_intron	KNOWN	None	9649	None	None	131116750	131117234	1	None	BDP1
2	PTPN18	ENSG00000072135	ENST00000495400	retained_intron	KNOWN	None	9649	None	None	131126470	131128170	1	None	BDP1
2	PTPN18	ENSG00000072135	ENST00000409022	protein_coding	PUTATIVE	None	9649	808	268	131127662	131132439	1	None	BDP1
2	PTPN18	ENSG00000072135	ENST00000490812	retained_intron	KNOWN	None	9649	None	None	131127701	131130026	1	None	BDP1
2	PTPN18	ENSG00000072135	ENST00000462996	retained_intron	KNOWN	None	9649	None	None	131127883	131130017	1	None	BDP1
2	PTPN18	ENSG00000072135	ENST00000464576	retained_intron	KNOWN	None	9649	None	None	131128006	131128490	1	None	BDP1
2	PTPN18	ENSG00000072135	ENST00000490137	retained_intron	KNOWN	None	9649	None	None	131128242	131128886	1	None	BDP1
2	PTPN18	ENSG00000072135	ENST00000481492	retained_intron	KNOWN	None	9649	None	None	131129571	131131562	1	None	BDP1
2	PTPN18	ENSG00000072135	ENST00000462321	retained_intron	KNOWN	None	9649	None	None	131130181	131132106	1	None	BDP1
6	HLFP1	ENSG00000218194	ENST00000402375	processed_pseudogene	KNOWN	None	41922	None	None	132996024	132996522	1	None	None
16	None	ENSG00000260603	ENST00000562644	sense_intronic	KNOWN	None	None	None	None	87926544	87927291	-1	None	None
2	None	ENSG00000227713	ENST00000433724	lincRNA	KNOWN	None	None	None	None	724966	731195	-1	None	None
2	None	ENSG00000227713	ENST00000456255	lincRNA	KNOWN	None	None	None	None	729306	731224	-1	None	None
3	LRRC2	ENSG00000163827	ENST00000395905	protein_coding	KNOWN	CCDS2741	14676	1116	371	46556913	46608040	-1	None	None
3	LRRC2	ENSG00000163827	ENST00000296144	protein_coding	KNOWN	CCDS2741	14676	1116	371	46559839	46621589	-1	None	None
3	LRRC2	ENSG00000163827	ENST00000496388	processed_transcript	PUTATIVE	None	14676	None	None	46586641	46608014	-1	None	None
3	LRRC2	ENSG00000163827	ENST00000469912	retained_intron	KNOWN	None	14676	None	None	46592598	46607724	-1	None	None
2	HS1BP3	ENSG00000118960	ENST00000446825	nonsense_mediated_decay	KNOWN	None	24979	78	25	20760208	20850842	-1	None	HS1-BP3,FLJ14249
2	HS1BP3	ENSG00000118960	ENST00000415264	protein_coding	PUTATIVE	None	24979	224	73	20792377	20824533	-1	None	HS1-BP3,FLJ14249
2	HS1BP3	ENSG00000118960	ENST00000304031	protein_coding	KNOWN	CCDS1700	24979	1179	392	20817582	20850849	-1	None	HS1-BP3,FLJ14249
2	HS1BP3	ENSG00000118960	ENST00000458740	protein_coding	PUTATIVE	None	24979	399	132	20821939	20838275	-1	None	HS1-BP3,FLJ14249
2	HS1BP3	ENSG00000118960	ENST00000445102	protein_coding	PUTATIVE	None	24979	334	110	20821948	20824652	-1	None	HS1-BP3,FLJ14249
2	HS1BP3	ENSG00000118960	ENST00000402541	protein_coding	PUTATIVE	None	24979	642	213	20834476	20850838	-1	None	HS1-BP3,FLJ14249
2	HS1BP3	ENSG00000118960	ENST00000406618	protein_coding	PUTATIVE	None	24979	600	199	20839785	20850844	-1	None	HS1-BP3,FLJ14249
22	None	ENSG00000225724	ENST00000436538	unprocessed_pseudogene	KNOWN	None	None	None	None	22693926	22695567	1	None	None
16	None	ENSG00000270385	ENST00000604757	processed_pseudogene	KNOWN	None	None	None	None	87926561	87927341	1	None	None
3	ATR	ENSG00000175054	ENST00000504521	nonsense_mediated_decay	KNOWN	None	882	243	80	142168077	142176552	-1	None	FRP1, SCKL, SCKL1, MEC1
3	ATR	ENSG00000175054	ENST00000515810	nonsense_mediated_decay	KNOWN	None	882	120	39	142168079	142172008	-1	None	FRP1, SCKL, SCKL1, MEC1
3	ATR	ENSG00000175054	ENST00000350721	protein_coding	KNOWN	CCDS3124	882	7935	2644	142168079	142297668	-1	None	FRP1, SCKL, SCKL1, MEC1
3	ATR	ENSG00000175054	ENST00000513291	protein_coding	PUTATIVE	None	882	1372	456	142168080	142188269	-1	None	FRP1, SCKL, SCKL1, MEC1
3	ATR	ENSG00000175054	ENST00000515107	retained_intron	KNOWN	None	882	None	None	142168160	142176600	-1	None	FRP1, SCKL, SCKL1, MEC1
3	ATR	ENSG00000175054	ENST00000511016	retained_intron	KNOWN	None	882	None	None	142171595	142176645	-1	None	FRP1, SCKL, SCKL1, MEC1
3	ATR	ENSG00000175054	ENST00000514393	nonsense_mediated_decay	KNOWN	None	882	153	50	142215232	142218034	-1	None	FRP1, SCKL, SCKL1, MEC1
3	ATR	ENSG00000175054	ENST00000507620	retained_intron	KNOWN	None	882	None	None	142215239	142218944	-1	None	FRP1, SCKL, SCKL1, MEC1
3	ATR	ENSG00000175054	ENST00000515863	retained_intron	KNOWN	None	882	None	None	142274912	142277843	-1	None	FRP1, SCKL, SCKL1, MEC1
3	ATR	ENSG00000175054	ENST00000515149	protein_coding	NOVEL	None	882	929	308	142275225	142281286	-1	None	FRP1, SCKL, SCKL1, MEC1
3	ATR	ENSG00000175054	ENST00000507148	nonsense_mediated_decay	KNOWN	None	882	303	100	142279181	142297566	-1	None	FRP1, SCKL, SCKL1, MEC1
3	ATR	ENSG00000175054	ENST00000383101	protein_coding	KNOWN	None	882	7743	2580	142168080	142297668	-1	None	FRP1, SCKL, SCKL1, MEC1
16	None	ENSG00000260443	ENST00000565496	processed_pseudogene	KNOWN	None	None	None	None	87978664	87978808	-1	None	None
4	NT5C3AP1	ENSG00000213492	ENST00000441170	processed_transcript	KNOWN	None	18530	None	None	118495667	118497329	-1	NT5C3P1	UMPH1P
4	NT5C3AP1	ENSG00000213492	ENST00000394500	transcribed_processed_pseudogene	KNOWN	None	18530	None	None	118496253	118497264	-1	NT5C3P1	UMPH1P
22	None	ENSG00000232515	ENST00000440829	unprocessed_pseudogene	KNOWN	None	None	None	None	22702157	22702514	1	None	None
11	SERGEF	ENSG00000129158	ENST00000531299	processed_transcript	PUTATIVE	None	17499	None	None	17809595	17888411	-1	None	DelGEF, Gnefr
11	SERGEF	ENSG00000129158	ENST00000531926	processed_transcript	PUTATIVE	None	17499	None	None	17809595	17895825	-1	None	DelGEF, Gnefr
11	SERGEF	ENSG00000129158	ENST00000528369	processed_transcript	PUTATIVE	None	17499	None	None	17809595	17961179	-1	None	DelGEF, Gnefr
11	SERGEF	ENSG00000129158	ENST00000527494	nonsense_mediated_decay	KNOWN	None	17499	177	58	17809595	18034445	-1	None	DelGEF, Gnefr
11	SERGEF	ENSG00000129158	ENST00000525422	nonsense_mediated_decay	KNOWN	None	17499	1065	354	17809595	18034583	-1	None	DelGEF, Gnefr
11	SERGEF	ENSG00000129158	ENST00000265965	protein_coding	KNOWN	CCDS7828	17499	1377	458	17809595	18034709	-1	None	DelGEF, Gnefr
11	SERGEF	ENSG00000129158	ENST00000528200	protein_coding	PUTATIVE	None	17499	867	288	17809596	18034575	-1	None	DelGEF, Gnefr
11	SERGEF	ENSG00000129158	ENST00000524589	processed_transcript	PUTATIVE	None	17499	None	None	17809599	17885244	-1	None	DelGEF, Gnefr
11	SERGEF	ENSG00000129158	ENST00000529440	processed_transcript	PUTATIVE	None	17499	None	None	17809599	18017382	-1	None	DelGEF, Gnefr
11	SERGEF	ENSG00000129158	ENST00000529151	protein_coding	PUTATIVE	None	17499	898	298	17809702	18022351	-1	None	DelGEF, Gnefr
11	SERGEF	ENSG00000129158	ENST00000532546	nonsense_mediated_decay	KNOWN	None	17499	381	126	17809743	18017412	-1	None	DelGEF, Gnefr
11	SERGEF	ENSG00000129158	ENST00000525920	protein_coding	PUTATIVE	None	17499	318	105	17809796	18026044	-1	None	DelGEF, Gnefr
11	SERGEF	ENSG00000129158	ENST00000532265	protein_coding	PUTATIVE	None	17499	525	174	17868109	18034500	-1	None	DelGEF, Gnefr
11	SERGEF	ENSG00000129158	ENST00000533241	protein_coding	PUTATIVE	None	17499	433	143	17868135	18010304	-1	None	DelGEF, Gnefr
11	SERGEF	ENSG00000129158	ENST00000525168	processed_transcript	PUTATIVE	None	17499	None	None	17899394	17981170	-1	None	DelGEF, Gnefr
11	SERGEF	ENSG00000129158	ENST00000529728	protein_coding	PUTATIVE	None	17499	686	227	17981000	18034476	-1	None	DelGEF, Gnefr
11	SERGEF	ENSG00000129158	ENST00000530613	protein_coding	PUTATIVE	None	17499	494	163	18010152	18034445	-1	None	DelGEF, Gnefr
11	SERGEF	ENSG00000129158	ENST00000532389	protein_coding	PUTATIVE	None	17499	412	136	18010234	18034471	-1	None	DelGEF, Gnefr
11	SERGEF	ENSG00000129158	ENST00000530925	nonsense_mediated_decay	KNOWN	None	17499	216	71	18014497	18034471	-1	None	DelGEF, Gnefr
11	SERGEF	ENSG00000129158	ENST00000533328	nonsense_mediated_decay	KNOWN	None	17499	135	44	18014535	18034465	-1	None	DelGEF, Gnefr
11	SERGEF	ENSG00000129158	ENST00000532212	processed_transcript	KNOWN	None	17499	None	None	18021093	18034475	-1	None	DelGEF, Gnefr
11	SERGEF	ENSG00000129158	ENST00000524716	nonsense_mediated_decay	KNOWN	None	17499	123	40	18022071	18034559	-1	None	DelGEF, Gnefr
11	SERGEF	ENSG00000129158	ENST00000530951	processed_transcript	PUTATIVE	None	17499	None	None	18029488	18031889	-1	None	DelGEF, Gnefr
2	None	ENSG00000272342	ENST00000606068	lincRNA	KNOWN	None	None	None	None	739588	740164	-1	None	None
21	NCAM2	ENSG00000154654	ENST00000400546	protein_coding	KNOWN	CCDS42910	7657	2514	837	22370633	22915650	1	None	NCAM21, MGC51008
21	NCAM2	ENSG00000154654	ENST00000486367	processed_transcript	KNOWN	None	7657	None	None	22611662	22664510	1	None	NCAM21, MGC51008
21	NCAM2	ENSG00000154654	ENST00000461281	processed_transcript	KNOWN	None	7657	None	None	22662397	22710798	1	None	NCAM21, MGC51008
21	NCAM2	ENSG00000154654	ENST00000484983	processed_transcript	KNOWN	None	7657	None	None	22836061	22841104	1	None	NCAM21, MGC51008
21	NCAM2	ENSG00000154654	ENST00000284894	protein_coding	KNOWN	None	7657	2088	695	22370882	22910278	1	None	NCAM21, MGC51008
21	NCAM2	ENSG00000154654	ENST00000535285	protein_coding	KNOWN	None	7657	1275	424	22519438	22757994	1	None	NCAM21, MGC51008
16	None	ENSG00000261193	ENST00000568267	lincRNA	KNOWN	None	None	None	None	88112767	88120989	-1	None	None
2	None	ENSG00000231173	ENST00000431542	lincRNA	KNOWN	None	None	None	None	741977	749856	1	None	None
22	None	ENSG00000237428	ENST00000453999	processed_pseudogene	KNOWN	None	None	None	None	22720578	22722138	1	None	None
15	FBXO22	ENSG00000167196	ENST00000308275	protein_coding	KNOWN	CCDS10287	13593	1212	403	76196200	76227609	1	None	FBX22, FISTC1
15	FBXO22	ENSG00000167196	ENST00000569749	nonsense_mediated_decay	KNOWN	None	13593	282	93	76196217	76223188	1	None	FBX22, FISTC1
15	FBXO22	ENSG00000167196	ENST00000453211	protein_coding	KNOWN	CCDS45310	13593	831	276	76196219	76222996	1	None	FBX22, FISTC1
15	FBXO22	ENSG00000167196	ENST00000569022	nonsense_mediated_decay	KNOWN	None	13593	141	46	76196219	76226448	1	None	FBX22, FISTC1
15	FBXO22	ENSG00000167196	ENST00000565131	processed_transcript	KNOWN	None	13593	None	None	76196299	76202770	1	None	FBX22, FISTC1
15	FBXO22	ENSG00000167196	ENST00000565036	protein_coding	NOVEL	None	13593	725	240	76196323	76225139	1	None	FBX22, FISTC1
15	FBXO22	ENSG00000167196	ENST00000569054	protein_coding	PUTATIVE	None	13593	482	159	76196466	76222390	1	None	FBX22, FISTC1
15	FBXO22	ENSG00000167196	ENST00000561885	nonsense_mediated_decay	KNOWN	None	13593	460	152	76205609	76226631	1	None	FBX22, FISTC1
15	FBXO22	ENSG00000167196	ENST00000564220	protein_coding	PUTATIVE	None	13593	237	78	76225141	76226167	1	None	FBX22, FISTC1
15	FBXO22	ENSG00000167196	ENST00000540507	protein_coding	KNOWN	None	13593	900	299	76196277	76225744	1	None	FBX22, FISTC1
4	None	ENSG00000229565	ENST00000442020	lincRNA	KNOWN	None	None	None	None	118755556	118791103	1	None	None
16	None	ENSG00000260166	ENST00000566155	lincRNA	KNOWN	None	None	None	None	88120993	88121538	1	None	None
3	C3orf33	ENSG00000174928	ENST00000482061	nonsense_mediated_decay	KNOWN	None	26434	360	119	155480406	155524055	-1	None	FLJ31139, AC3-33
3	C3orf33	ENSG00000174928	ENST00000340171	protein_coding	KNOWN	None	26434	885	294	155480406	155524140	-1	None	FLJ31139, AC3-33
3	C3orf33	ENSG00000174928	ENST00000465810	nonsense_mediated_decay	KNOWN	None	26434	216	71	155481317	155524048	-1	None	FLJ31139, AC3-33
3	C3orf33	ENSG00000174928	ENST00000486435	nonsense_mediated_decay	KNOWN	None	26434	347	114	155481576	155524040	-1	None	FLJ31139, AC3-33
3	C3orf33	ENSG00000174928	ENST00000534941	protein_coding	KNOWN	CCDS54659	26434	756	251	155480401	155524055	-1	None	FLJ31139, AC3-33
2	None	ENSG00000223751	ENST00000425850	lincRNA	KNOWN	None	None	None	None	742488	747767	1	None	None
9	None	ENSG00000250989	ENST00000504791	processed_pseudogene	KNOWN	None	None	None	None	38543101	38543443	-1	None	None
19	RHPN2	ENSG00000131941	ENST00000544458	retained_intron	KNOWN	None	19974	None	None	33469499	33518177	-1	None	None
19	RHPN2	ENSG00000131941	ENST00000254260	protein_coding	KNOWN	CCDS12427	19974	2061	686	33469499	33555794	-1	None	None
19	RHPN2	ENSG00000131941	ENST00000588388	nonsense_mediated_decay	KNOWN	None	19974	387	128	33470545	33555794	-1	None	None
19	RHPN2	ENSG00000131941	ENST00000588683	processed_transcript	PUTATIVE	None	19974	None	None	33470697	33482323	-1	None	None
19	RHPN2	ENSG00000131941	ENST00000592247	retained_intron	KNOWN	None	19974	None	None	33470860	33481678	-1	None	None
19	RHPN2	ENSG00000131941	ENST00000591502	retained_intron	KNOWN	None	19974	None	None	33481359	33483051	-1	None	None
19	RHPN2	ENSG00000131941	ENST00000585641	retained_intron	KNOWN	None	19974	None	None	33484928	33487367	-1	None	None
19	RHPN2	ENSG00000131941	ENST00000400226	protein_coding	KNOWN	None	19974	1608	535	33470545	33555794	-1	None	None
19	None	ENSG00000207265	ENST00000384535	misc_RNA	NOVEL	None	None	None	None	52762329	52762440	-1	None	None
22	None	ENSG00000232603	ENST00000443400	unprocessed_pseudogene	KNOWN	None	None	None	None	22725197	22725488	1	None	None
9	IARS	ENSG00000196305	ENST00000375643	protein_coding	KNOWN	CCDS6694	5330	3789	1262	94972489	95055982	-1	None	ILRS, IARS1
9	IARS	ENSG00000196305	ENST00000375627	protein_coding	KNOWN	None	5330	525	174	94991283	95007383	-1	None	ILRS, IARS1
9	IARS	ENSG00000196305	ENST00000474340	processed_transcript	KNOWN	None	5330	None	None	95002571	95005510	-1	None	ILRS, IARS1
9	IARS	ENSG00000196305	ENST00000473915	processed_transcript	KNOWN	None	5330	None	None	95003045	95005731	-1	None	ILRS, IARS1
9	IARS	ENSG00000196305	ENST00000467876	processed_transcript	KNOWN	None	5330	None	None	95012472	95013192	-1	None	ILRS, IARS1
9	IARS	ENSG00000196305	ENST00000472894	processed_transcript	KNOWN	None	5330	None	None	95018639	95022494	-1	None	ILRS, IARS1
9	IARS	ENSG00000196305	ENST00000395554	protein_coding	KNOWN	None	5330	990	329	95036708	95055998	-1	None	ILRS, IARS1
9	IARS	ENSG00000196305	ENST00000498025	processed_transcript	KNOWN	None	5330	None	None	95040145	95048413	-1	None	ILRS, IARS1
9	IARS	ENSG00000196305	ENST00000490438	processed_transcript	KNOWN	None	5330	None	None	95049695	95055998	-1	None	ILRS, IARS1
9	IARS	ENSG00000196305	ENST00000430417	protein_coding	PUTATIVE	None	5330	218	71	95050106	95055923	-1	None	ILRS, IARS1
9	IARS	ENSG00000196305	ENST00000443024	protein_coding	KNOWN	CCDS6694	5330	3789	1262	94972625	95056038	-1	None	ILRS, IARS1
9	IARS	ENSG00000196305	ENST00000447699	protein_coding	KNOWN	None	5330	3459	1152	94972627	95055977	-1	None	ILRS, IARS1
9	IARS	ENSG00000196305	ENST00000375629	protein_coding	KNOWN	None	5330	525	174	94972625	95055965	-1	None	ILRS, IARS1
9	SNX18P3	ENSG00000225345	ENST00000565670	processed_transcript	KNOWN	None	39611	None	None	38566257	38568006	-1	None	None
9	SNX18P3	ENSG00000225345	ENST00000424993	transcribed_unprocessed_pseudogene	KNOWN	None	39611	None	None	38567374	38568208	-1	None	None
5	ISL1	ENSG00000016082	ENST00000230658	protein_coding	KNOWN	CCDS43314	6132	1050	349	50678921	50690564	1	None	Isl-1, ISLET1
5	ISL1	ENSG00000016082	ENST00000511384	protein_coding	KNOWN	None	6132	981	326	50679506	50689444	1	None	Isl-1, ISLET1
5	ISL1	ENSG00000016082	ENST00000505475	processed_transcript	KNOWN	None	6132	None	None	50682038	50687313	1	None	Isl-1, ISLET1
19	MIR643	ENSG00000208002	ENST00000385267	miRNA	KNOWN	None	32899	None	None	52785050	52785146	1	MIRN643	hsa-mir-643
2	None	ENSG00000237667	ENST00000414556	lincRNA	KNOWN	None	None	None	None	779837	864112	-1	None	None
2	None	ENSG00000237667	ENST00000415700	lincRNA	KNOWN	None	None	None	None	780348	863877	-1	None	None
17	VPS25	ENSG00000131475	ENST00000253794	protein_coding	KNOWN	CCDS11438	28122	531	176	40925454	40931617	1	None	MGC10540, EAP20, DERP9
17	VPS25	ENSG00000131475	ENST00000591584	retained_intron	KNOWN	None	28122	None	None	40925476	40926346	1	None	MGC10540, EAP20, DERP9
17	VPS25	ENSG00000131475	ENST00000589219	retained_intron	KNOWN	None	28122	None	None	40925482	40927366	1	None	MGC10540, EAP20, DERP9
17	VPS25	ENSG00000131475	ENST00000589577	nonsense_mediated_decay	KNOWN	None	28122	300	99	40925487	40928338	1	None	MGC10540, EAP20, DERP9
17	VPS25	ENSG00000131475	ENST00000590339	protein_coding	PUTATIVE	None	28122	324	107	40925498	40931024	1	None	MGC10540, EAP20, DERP9
17	VPS25	ENSG00000131475	ENST00000589520	protein_coding	NOVEL	None	28122	334	110	40925526	40931392	1	None	MGC10540, EAP20, DERP9
22	IGLVI-42	ENSG00000254175	ENST00000522485	IG_V_pseudogene	KNOWN	None	5936	None	None	22751369	22751861	1	None	IGLV(I)-42
19	None	ENSG00000269102	ENST00000594865	antisense	KNOWN	None	None	None	None	52788033	52801173	-1	None	None
19	None	ENSG00000269535	ENST00000594379	antisense	KNOWN	None	None	None	None	52803946	52848482	-1	None	None
22	IGLVVII-41-1	ENSG00000254073	ENST00000518405	IG_V_pseudogene	KNOWN	None	15691	None	None	22753184	22753334	1	None	IGLV(VII)-41-1
10	HMX2	ENSG00000188816	ENST00000339992	protein_coding	KNOWN	CCDS31305	5018	822	273	124907638	124910188	1	None	NKX5-2
22	IGLV1-41	ENSG00000253818	ENST00000519790	IG_V_pseudogene	KNOWN	None	5878	None	None	22758539	22759053	1	None	None
22	ASH2LP1	ENSG00000224144	ENST00000438037	processed_pseudogene	KNOWN	None	19332	None	None	22774663	22775647	1	None	None
2	None	ENSG00000228799	ENST00000445279	lincRNA	KNOWN	None	None	None	None	895902	901137	-1	None	None
2	None	ENSG00000228799	ENST00000449405	lincRNA	KNOWN	None	None	None	None	897183	900983	-1	None	None
22	IGLVI-38	ENSG00000253889	ENST00000519982	IG_V_pseudogene	KNOWN	None	5935	None	None	22780158	22780651	1	None	IGLV(I)-38
19	None	ENSG00000269834	ENST00000594119	retained_intron	KNOWN	None	None	None	None	52892095	52894826	-1	None	None
19	None	ENSG00000269834	ENST00000601562	lincRNA	KNOWN	None	None	None	None	52892272	52901010	-1	None	None
19	None	ENSG00000269834	ENST00000596746	lincRNA	KNOWN	None	None	None	None	52898780	52901019	-1	None	None
19	None	ENSG00000269834	ENST00000598892	retained_intron	KNOWN	None	None	None	None	52899892	52900922	-1	None	None
3	ANKRD28	ENSG00000206560	ENST00000399451	protein_coding	PUTATIVE	CCDS46769	29024	3162	1053	15708743	15901278	-1	None	KIAA0379, PITK, PP6-ARS-A, PPP1R65
3	ANKRD28	ENSG00000206560	ENST00000412318	nonsense_mediated_decay	KNOWN	CCDS46769	29024	3162	1053	15708746	15900929	-1	None	KIAA0379, PITK, PP6-ARS-A, PPP1R65
3	ANKRD28	ENSG00000206560	ENST00000498713	processed_transcript	KNOWN	None	29024	None	None	15711299	15717730	-1	None	KIAA0379, PITK, PP6-ARS-A, PPP1R65
3	ANKRD28	ENSG00000206560	ENST00000497037	processed_transcript	KNOWN	None	29024	None	None	15711617	15839691	-1	None	KIAA0379, PITK, PP6-ARS-A, PPP1R65
3	ANKRD28	ENSG00000206560	ENST00000479043	retained_intron	KNOWN	None	29024	None	None	15718103	15719113	-1	None	KIAA0379, PITK, PP6-ARS-A, PPP1R65
3	ANKRD28	ENSG00000206560	ENST00000451422	nonsense_mediated_decay	KNOWN	None	29024	2169	722	15719043	15838013	-1	None	KIAA0379, PITK, PP6-ARS-A, PPP1R65
3	ANKRD28	ENSG00000206560	ENST00000463533	retained_intron	KNOWN	None	29024	None	None	15720808	15727960	-1	None	KIAA0379, PITK, PP6-ARS-A, PPP1R65
3	ANKRD28	ENSG00000206560	ENST00000498524	retained_intron	KNOWN	None	29024	None	None	15725249	15838333	-1	None	KIAA0379, PITK, PP6-ARS-A, PPP1R65
3	ANKRD28	ENSG00000206560	ENST00000462657	retained_intron	KNOWN	None	29024	None	None	15731347	15737738	-1	None	KIAA0379, PITK, PP6-ARS-A, PPP1R65
3	ANKRD28	ENSG00000206560	ENST00000492895	processed_transcript	KNOWN	None	29024	None	None	15751175	15762629	-1	None	KIAA0379, PITK, PP6-ARS-A, PPP1R65
3	ANKRD28	ENSG00000206560	ENST00000476472	processed_transcript	KNOWN	None	29024	None	None	15762608	15798054	-1	None	KIAA0379, PITK, PP6-ARS-A, PPP1R65
3	ANKRD28	ENSG00000206560	ENST00000460278	processed_transcript	KNOWN	None	29024	None	None	15765904	15798055	-1	None	KIAA0379, PITK, PP6-ARS-A, PPP1R65
3	ANKRD28	ENSG00000206560	ENST00000439830	nonsense_mediated_decay	KNOWN	None	29024	45	14	15778546	15900976	-1	None	KIAA0379, PITK, PP6-ARS-A, PPP1R65
3	ANKRD28	ENSG00000206560	ENST00000461696	processed_transcript	KNOWN	None	29024	None	None	15822944	15839486	-1	None	KIAA0379, PITK, PP6-ARS-A, PPP1R65
3	ANKRD28	ENSG00000206560	ENST00000383777	protein_coding	KNOWN	None	29024	3261	1086	15708743	15838028	-1	None	KIAA0379, PITK, PP6-ARS-A, PPP1R65
22	None	ENSG00000230821	ENST00000451224	processed_pseudogene	KNOWN	None	None	None	None	22801024	22802674	1	None	None
9	FAM201A	ENSG00000204860	ENST00000471864	antisense	KNOWN	None	27239	None	None	38620471	38622463	1	C9orf122	None
9	FAM201A	ENSG00000204860	ENST00000484285	antisense	KNOWN	None	27239	None	None	38620731	38623281	1	C9orf122	None
9	FAM201A	ENSG00000204860	ENST00000377680	antisense	KNOWN	None	27239	None	None	38621085	38624987	1	C9orf122	None
19	ATG4D	ENSG00000130734	ENST00000586417	nonsense_mediated_decay	KNOWN	None	20789	483	160	10654571	10663800	1	AUTL4, APG4D	APG4-D
19	ATG4D	ENSG00000130734	ENST00000590096	retained_intron	KNOWN	None	20789	None	None	10654593	10659710	1	AUTL4, APG4D	APG4-D
19	ATG4D	ENSG00000130734	ENST00000588857	nonsense_mediated_decay	KNOWN	None	20789	1005	334	10654593	10663743	1	AUTL4, APG4D	APG4-D
19	ATG4D	ENSG00000130734	ENST00000585752	nonsense_mediated_decay	KNOWN	None	20789	363	120	10654594	10663000	1	AUTL4, APG4D	APG4-D
19	ATG4D	ENSG00000130734	ENST00000309469	protein_coding	KNOWN	CCDS12241	20789	1425	474	10654594	10664094	1	AUTL4, APG4D	APG4-D
19	ATG4D	ENSG00000130734	ENST00000588667	nonsense_mediated_decay	KNOWN	None	20789	687	228	10654647	10664094	1	AUTL4, APG4D	APG4-D
19	ATG4D	ENSG00000130734	ENST00000586477	protein_coding	NOVEL	None	20789	628	208	10654959	10657751	1	AUTL4, APG4D	APG4-D
19	ATG4D	ENSG00000130734	ENST00000586863	protein_coding	NOVEL	None	20789	529	175	10654985	10662695	1	AUTL4, APG4D	APG4-D
19	ATG4D	ENSG00000130734	ENST00000589753	nonsense_mediated_decay	KNOWN	None	20789	204	67	10655686	10664094	1	AUTL4, APG4D	APG4-D
19	ATG4D	ENSG00000130734	ENST00000587256	protein_coding	NOVEL	None	20789	607	201	10655796	10662797	1	AUTL4, APG4D	APG4-D
19	ATG4D	ENSG00000130734	ENST00000588972	protein_coding	NOVEL	None	20789	534	177	10659705	10663841	1	AUTL4, APG4D	APG4-D
19	ATG4D	ENSG00000130734	ENST00000585437	protein_coding	NOVEL	None	20789	300	99	10662612	10663820	1	AUTL4, APG4D	APG4-D
19	ATG4D	ENSG00000130734	ENST00000540862	protein_coding	KNOWN	None	20789	426	141	10655686	10664093	1	AUTL4, APG4D	APG4-D
X	SMS	ENSG00000102172	ENST00000404933	protein_coding	KNOWN	CCDS14203	11123	1101	366	21958691	22012953	1	SRS	SPMSY, SpS, MRSR
X	SMS	ENSG00000102172	ENST00000379404	protein_coding	KNOWN	CCDS59161	11123	942	313	21958833	22012591	1	SRS	SPMSY, SpS, MRSR
X	SMS	ENSG00000102172	ENST00000478094	processed_transcript	KNOWN	None	11123	None	None	21958896	21996107	1	SRS	SPMSY, SpS, MRSR
X	SMS	ENSG00000102172	ENST00000457085	protein_coding	KNOWN	None	11123	931	309	21959163	21996229	1	SRS	SPMSY, SpS, MRSR
X	SMS	ENSG00000102172	ENST00000415881	protein_coding	KNOWN	None	11123	828	275	21958853	22025798	1	SRS	SPMSY, SpS, MRSR
14	SLC39A2	ENSG00000165794	ENST00000554422	protein_coding	PUTATIVE	CCDS58303	17127	258	85	21467414	21469880	1	None	ZIP2
14	SLC39A2	ENSG00000165794	ENST00000298681	protein_coding	KNOWN	CCDS9563	17127	930	309	21467449	21470030	1	None	ZIP2
14	SLC39A2	ENSG00000165794	ENST00000554128	retained_intron	KNOWN	None	17127	None	None	21467450	21468192	1	None	ZIP2
2	None	ENSG00000234796	ENST00000427019	antisense	KNOWN	None	None	None	None	906612	916810	-1	None	None
2	None	ENSG00000235688	ENST00000456949	antisense	KNOWN	None	None	None	None	945320	945960	-1	None	None
19	DPPA5P1	ENSG00000269776	ENST00000600430	processed_pseudogene	KNOWN	None	43752	None	None	52929116	52929455	-1	None	None
1	RC3H1	ENSG00000135870	ENST00000367696	protein_coding	KNOWN	CCDS30940	29434	3402	1133	173900352	173991435	-1	None	KIAA2025, roquin, RP5-1198E17.5, RNF198
1	RC3H1	ENSG00000135870	ENST00000367694	protein_coding	KNOWN	None	29434	3378	1125	173907549	173962210	-1	None	KIAA2025, roquin, RP5-1198E17.5, RNF198
1	RC3H1	ENSG00000135870	ENST00000479099	retained_intron	KNOWN	None	29434	None	None	173907714	173910587	-1	None	KIAA2025, roquin, RP5-1198E17.5, RNF198
1	RC3H1	ENSG00000135870	ENST00000531594	retained_intron	KNOWN	None	29434	None	None	173930171	173930953	-1	None	KIAA2025, roquin, RP5-1198E17.5, RNF198
1	RC3H1	ENSG00000135870	ENST00000484867	retained_intron	KNOWN	None	29434	None	None	173950087	173952171	-1	None	KIAA2025, roquin, RP5-1198E17.5, RNF198
1	RC3H1	ENSG00000135870	ENST00000258349	protein_coding	KNOWN	CCDS30940	29434	3402	1133	173900352	173962202	-1	None	KIAA2025, roquin, RP5-1198E17.5, RNF198
22	IGLV7-35	ENSG00000253631	ENST00000523314	IG_V_pseudogene	KNOWN	None	5928	None	None	22804540	22804990	1	None	None
2	None	ENSG00000235403	ENST00000437132	antisense	KNOWN	None	None	None	None	1054819	1064027	-1	None	None
19	None	ENSG00000267439	ENST00000585365	antisense	KNOWN	None	None	None	None	36237958	36239189	-1	None	None
19	None	ENSG00000267439	ENST00000591091	antisense	KNOWN	None	None	None	None	36238126	36244316	-1	None	None
22	None	ENSG00000226595	ENST00000419501	unprocessed_pseudogene	KNOWN	None	None	None	None	22819996	22820323	1	None	None
11	MCAM	ENSG00000076706	ENST00000264036	protein_coding	KNOWN	CCDS31690	6934	1941	646	119179241	119187826	-1	None	MUC18, CD146
11	MCAM	ENSG00000076706	ENST00000528533	retained_intron	KNOWN	None	6934	None	None	119179682	119187840	-1	None	MUC18, CD146
11	MCAM	ENSG00000076706	ENST00000525586	retained_intron	KNOWN	None	6934	None	None	119179696	119189087	-1	None	MUC18, CD146
11	MCAM	ENSG00000076706	ENST00000524940	processed_transcript	KNOWN	None	6934	None	None	119180597	119181828	-1	None	MUC18, CD146
11	MCAM	ENSG00000076706	ENST00000528976	processed_transcript	KNOWN	None	6934	None	None	119180697	119182091	-1	None	MUC18, CD146
11	MCAM	ENSG00000076706	ENST00000530706	processed_transcript	KNOWN	None	6934	None	None	119183582	119187840	-1	None	MUC18, CD146
11	MCAM	ENSG00000076706	ENST00000529257	processed_transcript	KNOWN	None	6934	None	None	119185212	119186776	-1	None	MUC18, CD146
11	MCAM	ENSG00000076706	ENST00000529295	processed_transcript	KNOWN	None	6934	None	None	119185215	119187552	-1	None	MUC18, CD146
11	MCAM	ENSG00000076706	ENST00000530006	retained_intron	KNOWN	None	6934	None	None	119185326	119187839	-1	None	MUC18, CD146
11	MCAM	ENSG00000076706	ENST00000530937	retained_intron	KNOWN	None	6934	None	None	119185395	119187840	-1	None	MUC18, CD146
11	MCAM	ENSG00000076706	ENST00000528502	processed_transcript	KNOWN	None	6934	None	None	119185402	119187840	-1	None	MUC18, CD146
11	MCAM	ENSG00000076706	ENST00000529686	processed_transcript	KNOWN	None	6934	None	None	119185404	119187840	-1	None	MUC18, CD146
11	MCAM	ENSG00000076706	ENST00000526190	retained_intron	KNOWN	None	6934	None	None	119185432	119187840	-1	None	MUC18, CD146
11	MCAM	ENSG00000076706	ENST00000525555	processed_transcript	KNOWN	None	6934	None	None	119185580	119187840	-1	None	MUC18, CD146
11	MCAM	ENSG00000076706	ENST00000534522	processed_transcript	KNOWN	None	6934	None	None	119185597	119189601	-1	None	MUC18, CD146
11	MCAM	ENSG00000076706	ENST00000530144	processed_transcript	KNOWN	None	6934	None	None	119185603	119192231	-1	None	MUC18, CD146
11	MCAM	ENSG00000076706	ENST00000526992	processed_transcript	KNOWN	None	6934	None	None	119185700	119186530	-1	None	MUC18, CD146
11	MCAM	ENSG00000076706	ENST00000392814	protein_coding	KNOWN	None	6934	1584	527	119179696	119184795	-1	None	MUC18, CD146
6	NDUFAF4	ENSG00000123545	ENST00000316149	protein_coding	KNOWN	CCDS5037	21034	528	175	97337189	97345757	-1	C6orf66	HSPC125, bA22L21.1, My013, HRPAP20
6	NDUFAF4	ENSG00000123545	ENST00000478382	processed_transcript	KNOWN	None	21034	None	None	97338888	97344794	-1	C6orf66	HSPC125, bA22L21.1, My013, HRPAP20
6	NDUFAF4	ENSG00000123545	ENST00000489477	processed_transcript	KNOWN	None	21034	None	None	97339027	97345750	-1	C6orf66	HSPC125, bA22L21.1, My013, HRPAP20
12	FAM19A2	ENSG00000198673	ENST00000416284	protein_coding	KNOWN	CCDS8962	21589	396	131	62102040	62586623	-1	None	TAFA-2
12	FAM19A2	ENSG00000198673	ENST00000551619	protein_coding	KNOWN	CCDS8962	21589	396	131	62102055	62652604	-1	None	TAFA-2
12	FAM19A2	ENSG00000198673	ENST00000550003	protein_coding	NOVEL	None	21589	105	34	62102058	62221014	-1	None	TAFA-2
12	FAM19A2	ENSG00000198673	ENST00000549379	nonsense_mediated_decay	KNOWN	None	21589	396	131	62102058	62653925	-1	None	TAFA-2
12	FAM19A2	ENSG00000198673	ENST00000551449	protein_coding	PUTATIVE	None	21589	150	49	62103904	62585217	-1	None	TAFA-2
12	FAM19A2	ENSG00000198673	ENST00000552075	protein_coding	PUTATIVE	None	21589	331	109	62147459	62653951	-1	None	TAFA-2
12	FAM19A2	ENSG00000198673	ENST00000549958	protein_coding	PUTATIVE	None	21589	303	100	62147505	62498709	-1	None	TAFA-2
12	FAM19A2	ENSG00000198673	ENST00000548780	protein_coding	PUTATIVE	None	21589	262	86	62148653	62529817	-1	None	TAFA-2
12	FAM19A2	ENSG00000198673	ENST00000549456	processed_transcript	KNOWN	None	21589	None	None	62464203	62653535	-1	None	TAFA-2
12	FAM19A2	ENSG00000198673	ENST00000547919	processed_transcript	PUTATIVE	None	21589	None	None	62600670	62652736	-1	None	TAFA-2
12	FAM19A2	ENSG00000198673	ENST00000550060	processed_transcript	PUTATIVE	None	21589	None	None	62636212	62653894	-1	None	TAFA-2
12	FAM19A2	ENSG00000198673	ENST00000548541	processed_transcript	PUTATIVE	None	21589	None	None	62636212	62653918	-1	None	TAFA-2
12	FAM19A2	ENSG00000198673	ENST00000500610	retained_intron	KNOWN	None	21589	None	None	62636214	62653509	-1	None	TAFA-2
12	FAM19A2	ENSG00000198673	ENST00000547075	processed_transcript	PUTATIVE	None	21589	None	None	62648946	62652820	-1	None	TAFA-2
12	FAM19A2	ENSG00000198673	ENST00000547941	retained_intron	KNOWN	None	21589	None	None	62652007	62653922	-1	None	TAFA-2
12	FAM19A2	ENSG00000198673	ENST00000550396	processed_transcript	KNOWN	None	21589	None	None	62652565	62672931	-1	None	TAFA-2
22	None	ENSG00000239066	ENST00000459485	snoRNA	NOVEL	None	None	None	None	22872116	22872211	1	None	None
2	None	ENSG00000236665	ENST00000428335	antisense	KNOWN	None	None	None	None	1153996	1156110	-1	None	None
22	IGLV2-34	ENSG00000253120	ENST00000490007	IG_V_pseudogene	KNOWN	None	5893	None	None	22922478	22922760	1	None	None
7	GIMAP6	ENSG00000133561	ENST00000328902	protein_coding	KNOWN	CCDS34778	21918	879	292	150322463	150329473	-1	None	FLJ22690
7	GIMAP6	ENSG00000133561	ENST00000493969	protein_coding	KNOWN	CCDS59087	21918	189	62	150324764	150329434	-1	None	FLJ22690
6	MBOAT1	ENSG00000172197	ENST00000324607	protein_coding	KNOWN	CCDS34346	21579	1488	495	20102376	20212630	-1	OACT1	MGC44669, dJ434O11.1, LPEAT1
6	MBOAT1	ENSG00000172197	ENST00000541730	protein_coding	KNOWN	None	21579	1041	346	20100935	20212670	-1	OACT1	MGC44669, dJ434O11.1, LPEAT1
6	MBOAT1	ENSG00000172197	ENST00000536798	protein_coding	KNOWN	None	21579	726	241	20126125	20212670	-1	OACT1	MGC44669, dJ434O11.1, LPEAT1
7	TBXAS1	ENSG00000059377	ENST00000493340	processed_transcript	KNOWN	None	11609	None	None	139476850	139489421	1	None	CYP5, CYP5A1, THAS, TXS, TXAS, TS
7	TBXAS1	ENSG00000059377	ENST00000462053	processed_transcript	KNOWN	None	11609	None	None	139476946	139497283	1	None	CYP5, CYP5A1, THAS, TXS, TXAS, TS
7	TBXAS1	ENSG00000059377	ENST00000473948	processed_transcript	KNOWN	None	11609	None	None	139477935	139482528	1	None	CYP5, CYP5A1, THAS, TXS, TXAS, TS
7	TBXAS1	ENSG00000059377	ENST00000425687	protein_coding	PUTATIVE	CCDS55175	11609	1401	466	139478047	139720089	1	None	CYP5, CYP5A1, THAS, TXS, TXAS, TS
7	TBXAS1	ENSG00000059377	ENST00000474763	processed_transcript	KNOWN	None	11609	None	None	139478053	139497283	1	None	CYP5, CYP5A1, THAS, TXS, TXAS, TS
7	TBXAS1	ENSG00000059377	ENST00000481440	processed_transcript	KNOWN	None	11609	None	None	139478055	139497282	1	None	CYP5, CYP5A1, THAS, TXS, TXAS, TS
7	TBXAS1	ENSG00000059377	ENST00000438104	protein_coding	KNOWN	None	11609	450	149	139478137	139636106	1	None	CYP5, CYP5A1, THAS, TXS, TXAS, TS
7	TBXAS1	ENSG00000059377	ENST00000336425	protein_coding	KNOWN	None	11609	1602	533	139478199	139720093	1	None	CYP5, CYP5A1, THAS, TXS, TXAS, TS
7	TBXAS1	ENSG00000059377	ENST00000448866	protein_coding	KNOWN	None	11609	1602	533	139529023	139720093	1	None	CYP5, CYP5A1, THAS, TXS, TXAS, TS
7	TBXAS1	ENSG00000059377	ENST00000422328	nonsense_mediated_decay	KNOWN	None	11609	240	79	139529046	139720091	1	None	CYP5, CYP5A1, THAS, TXS, TXAS, TS
7	TBXAS1	ENSG00000059377	ENST00000492560	retained_intron	KNOWN	None	11609	None	None	139529048	139575691	1	None	CYP5, CYP5A1, THAS, TXS, TXAS, TS
7	TBXAS1	ENSG00000059377	ENST00000455353	protein_coding	PUTATIVE	None	11609	456	151	139529053	139613828	1	None	CYP5, CYP5A1, THAS, TXS, TXAS, TS
7	TBXAS1	ENSG00000059377	ENST00000458722	protein_coding	NOVEL	None	11609	1740	579	139529053	139720079	1	None	CYP5, CYP5A1, THAS, TXS, TXAS, TS
7	TBXAS1	ENSG00000059377	ENST00000411653	protein_coding	PUTATIVE	None	11609	1380	459	139529063	139720125	1	None	CYP5, CYP5A1, THAS, TXS, TXAS, TS
7	TBXAS1	ENSG00000059377	ENST00000476637	retained_intron	KNOWN	None	11609	None	None	139529070	139653316	1	None	CYP5, CYP5A1, THAS, TXS, TXAS, TS
7	TBXAS1	ENSG00000059377	ENST00000462275	processed_transcript	KNOWN	None	11609	None	None	139529072	139716629	1	None	CYP5, CYP5A1, THAS, TXS, TXAS, TS
7	TBXAS1	ENSG00000059377	ENST00000414041	nonsense_mediated_decay	KNOWN	None	11609	243	80	139529101	139636034	1	None	CYP5, CYP5A1, THAS, TXS, TXAS, TS
7	TBXAS1	ENSG00000059377	ENST00000469630	retained_intron	KNOWN	None	11609	None	None	139653234	139662850	1	None	CYP5, CYP5A1, THAS, TXS, TXAS, TS
7	TBXAS1	ENSG00000059377	ENST00000494876	retained_intron	KNOWN	None	11609	None	None	139657380	139662035	1	None	CYP5, CYP5A1, THAS, TXS, TXAS, TS
7	TBXAS1	ENSG00000059377	ENST00000263552	protein_coding	KNOWN	CCDS5855	11609	1605	534	139478047	139720123	1	None	CYP5, CYP5A1, THAS, TXS, TXAS, TS
7	TBXAS1	ENSG00000059377	ENST00000416849	protein_coding	KNOWN	CCDS55174	11609	1743	580	139528952	139720123	1	None	CYP5, CYP5A1, THAS, TXS, TXAS, TS
7	TBXAS1	ENSG00000059377	ENST00000436047	protein_coding	KNOWN	CCDS5855	11609	1605	534	139528952	139720123	1	None	CYP5, CYP5A1, THAS, TXS, TXAS, TS
7	TBXAS1	ENSG00000059377	ENST00000414508	protein_coding	KNOWN	CCDS5856	11609	1383	460	139528952	139720123	1	None	CYP5, CYP5A1, THAS, TXS, TXAS, TS
7	TBXAS1	ENSG00000059377	ENST00000539806	protein_coding	KNOWN	None	11609	459	152	139529110	139613828	1	None	CYP5, CYP5A1, THAS, TXS, TXAS, TS
22	IGLV3-31	ENSG00000253920	ENST00000523713	IG_V_pseudogene	KNOWN	None	5913	None	None	22946915	22947635	1	None	None
2	None	ENSG00000233553	ENST00000457467	antisense	KNOWN	None	None	None	None	1344816	1350340	-1	None	None
5	None	ENSG00000256404	ENST00000540612	pseudogene	NOVEL	None	None	None	None	59960257	59960333	1	None	None
2	None	ENSG00000228613	ENST00000438247	antisense	KNOWN	None	None	None	None	1550437	1623885	-1	None	None
13	SLC10A2	ENSG00000125255	ENST00000245312	protein_coding	KNOWN	CCDS9506	10906	1047	348	103696350	103719196	-1	ASBT, ISBT	None
5	KRT8P31	ENSG00000250148	ENST00000504812	processed_pseudogene	KNOWN	None	39865	None	None	60039390	60040797	-1	None	None
6	None	ENSG00000236173	ENST00000427017	lincRNA	KNOWN	None	None	None	None	170209414	170210198	-1	None	None
2	None	ENSG00000231482	ENST00000419028	lincRNA	KNOWN	None	None	None	None	1576326	1584083	-1	None	None
21	FAM3B	ENSG00000183844	ENST00000479810	processed_transcript	KNOWN	None	1253	None	None	42676139	42729358	1	C21orf11	D21M16SJHU19e, PRED44, 2-21, ORF9, C21orf76
21	FAM3B	ENSG00000183844	ENST00000518236	processed_transcript	KNOWN	None	1253	None	None	42676177	42718276	1	C21orf11	D21M16SJHU19e, PRED44, 2-21, ORF9, C21orf76
21	FAM3B	ENSG00000183844	ENST00000357985	protein_coding	KNOWN	CCDS13671	1253	708	235	42688661	42729358	1	C21orf11	D21M16SJHU19e, PRED44, 2-21, ORF9, C21orf76
21	FAM3B	ENSG00000183844	ENST00000398652	protein_coding	NOVEL	None	1253	825	274	42688741	42729358	1	C21orf11	D21M16SJHU19e, PRED44, 2-21, ORF9, C21orf76
21	FAM3B	ENSG00000183844	ENST00000398647	protein_coding	KNOWN	CCDS42930	1253	564	187	42688741	42729358	1	C21orf11	D21M16SJHU19e, PRED44, 2-21, ORF9, C21orf76
21	FAM3B	ENSG00000183844	ENST00000398646	protein_coding	PUTATIVE	None	1253	777	258	42694747	42729358	1	C21orf11	D21M16SJHU19e, PRED44, 2-21, ORF9, C21orf76
2	None	ENSG00000203635	ENST00000366424	lincRNA	KNOWN	None	None	None	None	1624282	1629191	-1	None	None
11	RRM1-AS1	ENSG00000255276	ENST00000529323	antisense	KNOWN	None	40512	None	None	4158346	4159487	-1	None	None
6	CCNG1P1	ENSG00000218991	ENST00000406783	processed_pseudogene	KNOWN	None	39177	None	None	133019922	133020806	1	None	None
2	None	ENSG00000232057	ENST00000426976	antisense	KNOWN	None	None	None	None	1828184	1832439	1	None	None
11	OR55B1P	ENSG00000231548	ENST00000418718	unitary_pseudogene	KNOWN	None	15241	None	None	4167512	4168525	-1	OR55B2P, OR55C1P	None
3	TNFSF10	ENSG00000121858	ENST00000241261	protein_coding	KNOWN	CCDS3219	11925	846	281	172223298	172241297	-1	None	TRAIL, Apo-2L, TL2, CD253
3	TNFSF10	ENSG00000121858	ENST00000420541	protein_coding	PUTATIVE	CCDS54680	11925	306	101	172223452	172241265	-1	None	TRAIL, Apo-2L, TL2, CD253
3	TNFSF10	ENSG00000121858	ENST00000430881	nonsense_mediated_decay	KNOWN	None	11925	223	73	172225074	172241100	-1	None	TRAIL, Apo-2L, TL2, CD253
3	TNFSF10	ENSG00000121858	ENST00000494851	retained_intron	KNOWN	None	11925	None	None	172226936	172241257	-1	None	TRAIL, Apo-2L, TL2, CD253
3	TNFSF10	ENSG00000121858	ENST00000472804	retained_intron	KNOWN	None	11925	None	None	172229235	172241255	-1	None	TRAIL, Apo-2L, TL2, CD253
3	TNFSF10	ENSG00000121858	ENST00000466777	retained_intron	KNOWN	None	11925	None	None	172235145	172241257	-1	None	TRAIL, Apo-2L, TL2, CD253
6	None	ENSG00000234484	ENST00000430895	antisense	KNOWN	None	None	None	None	133073814	133075090	1	None	None
X	FAM156A	ENSG00000182646	ENST00000356333	protein_coding	KNOWN	CCDS35297	30114	642	213	52976462	52986462	-1	TMEM29	PRO0659
X	FAM156A	ENSG00000182646	ENST00000316310	protein_coding	KNOWN	CCDS35297	30114	642	213	52976462	52987611	-1	TMEM29	PRO0659
X	FAM156A	ENSG00000182646	ENST00000330025	protein_coding	KNOWN	CCDS35297	30114	642	213	52976462	52987698	-1	TMEM29	PRO0659
X	FAM156A	ENSG00000182646	ENST00000512364	protein_coding	KNOWN	CCDS35297	30114	642	213	52976462	53024644	-1	TMEM29	PRO0659
X	FAM156A	ENSG00000182646	ENST00000414076	protein_coding	KNOWN	CCDS35297	30114	642	213	52976960	53024551	-1	TMEM29	PRO0659
X	FAM156A	ENSG00000182646	ENST00000438003	protein_coding	KNOWN	None	30114	566	187	52977231	52987715	-1	TMEM29	PRO0659
X	FAM156A	ENSG00000182646	ENST00000411516	protein_coding	KNOWN	None	30114	554	183	52977243	52986857	-1	TMEM29	PRO0659
X	FAM156A	ENSG00000182646	ENST00000503775	protein_coding	KNOWN	None	30114	394	130	52977403	52987643	-1	TMEM29	PRO0659
X	FAM156A	ENSG00000182646	ENST00000375473	protein_coding	KNOWN	None	30114	380	125	52977417	52988070	-1	TMEM29	PRO0659
X	FAM156A	ENSG00000182646	ENST00000451084	protein_coding	KNOWN	None	30114	335	110	52977462	53024634	-1	TMEM29	PRO0659
X	FAM156A	ENSG00000182646	ENST00000447562	protein_coding	KNOWN	None	30114	326	107	52977471	52993386	-1	TMEM29	PRO0659
X	FAM156A	ENSG00000182646	ENST00000510517	protein_coding	KNOWN	None	30114	256	84	52977541	52985529	-1	TMEM29	PRO0659
X	FAM156A	ENSG00000182646	ENST00000416923	protein_coding	KNOWN	None	30114	29	8	52977768	53024632	-1	TMEM29	PRO0659
X	FAM156A	ENSG00000182646	ENST00000505988	protein_coding	KNOWN	None	30114	10	2	52977787	53024551	-1	TMEM29	PRO0659
X	FAM156A	ENSG00000182646	ENST00000475552	processed_transcript	KNOWN	None	30114	None	None	52977803	53024634	-1	TMEM29	PRO0659
X	FAM156A	ENSG00000182646	ENST00000493931	processed_transcript	KNOWN	None	30114	None	None	52977815	52986445	-1	TMEM29	PRO0659
X	FAM156A	ENSG00000182646	ENST00000511863	processed_transcript	KNOWN	None	30114	None	None	52984353	53024651	-1	TMEM29	PRO0659
X	FAM156A	ENSG00000182646	ENST00000510893	processed_transcript	KNOWN	None	30114	None	None	52985477	52993695	-1	TMEM29	PRO0659
X	FAM156A	ENSG00000182646	ENST00000515858	processed_transcript	KNOWN	None	30114	None	None	52994637	53024651	-1	TMEM29	PRO0659
X	FAM156A	ENSG00000182646	ENST00000505062	processed_transcript	KNOWN	None	30114	None	None	52994760	53024651	-1	TMEM29	PRO0659
2	None	ENSG00000225619	ENST00000422175	lincRNA	KNOWN	None	None	None	None	2323004	2330882	1	None	None
2	None	ENSG00000225619	ENST00000448106	lincRNA	KNOWN	None	None	None	None	2323016	2330880	1	None	None
7	None	ENSG00000242593	ENST00000484322	antisense	KNOWN	None	None	None	None	123672259	124035172	1	None	None
7	None	ENSG00000242593	ENST00000497598	antisense	KNOWN	None	None	None	None	123974348	123993469	1	None	None
14	SERPINA12	ENSG00000165953	ENST00000556881	protein_coding	KNOWN	CCDS9926	18359	1245	414	94953611	94970559	-1	None	OL-64, Vaspin
14	SERPINA12	ENSG00000165953	ENST00000341228	protein_coding	KNOWN	CCDS9926	18359	1245	414	94953620	94984181	-1	None	OL-64, Vaspin
21	CRYZL1	ENSG00000205758	ENST00000381554	protein_coding	KNOWN	CCDS13633	2420	1050	349	34961647	35014066	-1	None	QOH-1, 4P11
21	CRYZL1	ENSG00000205758	ENST00000290244	protein_coding	NOVEL	None	2420	1005	334	34961692	35014224	-1	None	QOH-1, 4P11
21	CRYZL1	ENSG00000205758	ENST00000468349	retained_intron	KNOWN	None	2420	None	None	34961767	34964024	-1	None	QOH-1, 4P11
21	CRYZL1	ENSG00000205758	ENST00000381540	protein_coding	NOVEL	None	2420	969	322	34961773	35014053	-1	None	QOH-1, 4P11
21	CRYZL1	ENSG00000205758	ENST00000452420	nonsense_mediated_decay	KNOWN	None	2420	289	95	34961774	34985866	-1	None	QOH-1, 4P11
21	CRYZL1	ENSG00000205758	ENST00000441940	protein_coding	PUTATIVE	None	2420	337	111	34961851	34971457	-1	None	QOH-1, 4P11
21	CRYZL1	ENSG00000205758	ENST00000480893	processed_transcript	KNOWN	None	2420	None	None	34961866	34969706	-1	None	QOH-1, 4P11
21	CRYZL1	ENSG00000205758	ENST00000445393	protein_coding	NOVEL	None	2420	594	197	34961923	35014036	-1	None	QOH-1, 4P11
21	CRYZL1	ENSG00000205758	ENST00000437996	nonsense_mediated_decay	KNOWN	None	2420	52	16	34962075	34974571	-1	None	QOH-1, 4P11
21	CRYZL1	ENSG00000205758	ENST00000361534	protein_coding	PUTATIVE	None	2420	978	325	34966813	35014065	-1	None	QOH-1, 4P11
21	CRYZL1	ENSG00000205758	ENST00000429827	nonsense_mediated_decay	KNOWN	None	2420	552	183	34966949	35014047	-1	None	QOH-1, 4P11
21	CRYZL1	ENSG00000205758	ENST00000420072	nonsense_mediated_decay	KNOWN	None	2420	597	198	34966968	35014644	-1	None	QOH-1, 4P11
21	CRYZL1	ENSG00000205758	ENST00000440526	protein_coding	PUTATIVE	None	2420	724	240	34967437	34994348	-1	None	QOH-1, 4P11
21	CRYZL1	ENSG00000205758	ENST00000479964	processed_transcript	KNOWN	None	2420	None	None	34967643	34974562	-1	None	QOH-1, 4P11
21	CRYZL1	ENSG00000205758	ENST00000414079	protein_coding	PUTATIVE	None	2420	294	97	34968368	34975754	-1	None	QOH-1, 4P11
21	CRYZL1	ENSG00000205758	ENST00000426935	protein_coding	PUTATIVE	None	2420	474	157	34971502	35014051	-1	None	QOH-1, 4P11
21	CRYZL1	ENSG00000205758	ENST00000431177	protein_coding	KNOWN	None	2420	544	180	34974573	35006008	-1	None	QOH-1, 4P11
21	CRYZL1	ENSG00000205758	ENST00000488167	retained_intron	KNOWN	None	2420	None	None	34974638	34989482	-1	None	QOH-1, 4P11
21	CRYZL1	ENSG00000205758	ENST00000417979	protein_coding	PUTATIVE	None	2420	322	106	34974639	35014036	-1	None	QOH-1, 4P11
21	CRYZL1	ENSG00000205758	ENST00000490714	retained_intron	KNOWN	None	2420	None	None	34975462	35014026	-1	None	QOH-1, 4P11
21	CRYZL1	ENSG00000205758	ENST00000413017	protein_coding	PUTATIVE	None	2420	342	113	34988593	35014028	-1	None	QOH-1, 4P11
21	CRYZL1	ENSG00000205758	ENST00000438788	protein_coding	KNOWN	None	2420	59	18	35003799	35016232	-1	None	QOH-1, 4P11
21	CRYZL1	ENSG00000205758	ENST00000399442	protein_coding	PUTATIVE	None	2420	75	24	35012051	35014027	-1	None	QOH-1, 4P11
2	None	ENSG00000234929	ENST00000414065	lincRNA	KNOWN	None	None	None	None	2645761	2660402	-1	None	None
19	ZNF551	ENSG00000204519	ENST00000601064	protein_coding	PUTATIVE	None	25108	1669	555	58193337	58199396	1	None	DKFZp686H1038
19	ZNF551	ENSG00000204519	ENST00000282296	protein_coding	KNOWN	CCDS12959	25108	2013	670	58193347	58202022	1	None	DKFZp686H1038
19	ZNF551	ENSG00000204519	ENST00000599402	processed_transcript	KNOWN	None	25108	None	None	58193375	58198203	1	None	DKFZp686H1038
19	ZNF551	ENSG00000204519	ENST00000356715	protein_coding	KNOWN	None	25108	1965	654	58193357	58201167	1	None	DKFZp686H1038
6	C6orf141	ENSG00000197261	ENST00000414696	nonsense_mediated_decay	KNOWN	CCDS55018	21351	735	244	49518379	49528647	1	None	MGC46457
6	C6orf141	ENSG00000197261	ENST00000371194	nonsense_mediated_decay	KNOWN	CCDS55018	21351	735	244	49518388	49529620	1	None	MGC46457
6	C6orf141	ENSG00000197261	ENST00000424426	processed_transcript	PUTATIVE	None	21351	None	None	49518739	49519770	1	None	MGC46457
6	C6orf141	ENSG00000197261	ENST00000415078	nonsense_mediated_decay	KNOWN	None	21351	218	71	49519023	49519812	1	None	MGC46457
6	C6orf141	ENSG00000197261	ENST00000526429	retained_intron	KNOWN	None	21351	None	None	49520066	49523021	1	None	MGC46457
6	C6orf141	ENSG00000197261	ENST00000530382	retained_intron	KNOWN	None	21351	None	None	49520071	49522773	1	None	MGC46457
6	C6orf141	ENSG00000197261	ENST00000529246	protein_coding	KNOWN	CCDS55018	21351	735	244	49518113	49519808	1	None	MGC46457
19	None	ENSG00000269349	ENST00000599143	antisense	KNOWN	None	None	None	None	53014535	53015595	-1	None	None
2	None	ENSG00000227364	ENST00000457813	lincRNA	KNOWN	None	None	None	None	2733680	2734729	-1	None	None
19	RPL39P34	ENSG00000242255	ENST00000477141	transcribed_processed_pseudogene	KNOWN	None	36528	None	None	53067329	53067484	1	None	None
2	None	ENSG00000237720	ENST00000452701	lincRNA	KNOWN	None	None	None	None	2838036	2842163	-1	None	None
16	NUDT16L1	ENSG00000168101	ENST00000304301	protein_coding	KNOWN	CCDS10519	28154	636	211	4743695	4745860	1	None	SDOS
16	NUDT16L1	ENSG00000168101	ENST00000586252	protein_coding	NOVEL	None	28154	516	171	4743704	4745562	1	None	SDOS
16	NUDT16L1	ENSG00000168101	ENST00000586536	protein_coding	PUTATIVE	CCDS59257	28154	579	192	4743708	4745860	1	None	SDOS
16	NUDT16L1	ENSG00000168101	ENST00000405142	protein_coding	KNOWN	None	28154	744	247	4743719	4745856	1	None	SDOS
16	NUDT16L1	ENSG00000168101	ENST00000590460	protein_coding	NOVEL	None	28154	596	197	4743762	4745293	1	None	SDOS
7	INMT	ENSG00000241644	ENST00000484180	processed_transcript	KNOWN	None	6069	None	None	30737601	30795586	1	None	None
7	INMT	ENSG00000241644	ENST00000461246	processed_transcript	KNOWN	None	6069	None	None	30737659	30739848	1	None	None
7	INMT	ENSG00000241644	ENST00000013222	protein_coding	KNOWN	CCDS5430	6069	792	263	30791751	30797218	1	None	None
7	INMT	ENSG00000241644	ENST00000409539	protein_coding	NOVEL	CCDS56479	6069	789	262	30791753	30795467	1	None	None
19	None	ENSG00000268886	ENST00000599222	antisense	KNOWN	None	None	None	None	53079136	53088814	-1	None	None
2	None	ENSG00000228391	ENST00000437610	lincRNA	KNOWN	None	None	None	None	2874330	2875003	-1	None	None
16	NPIPB15	ENSG00000196436	ENST00000429990	protein_coding	KNOWN	None	34409	1332	443	74411776	74425978	1	NPIPL2	LOC440348
11	None	ENSG00000254480	ENST00000525365	lincRNA	KNOWN	None	None	None	None	4208370	4223885	1	None	None
2	None	ENSG00000234423	ENST00000457478	lincRNA	KNOWN	None	None	None	None	2898820	3129798	-1	None	None
Y	RBMY1E	ENSG00000242389	ENST00000358944	nonsense_mediated_decay	KNOWN	None	23916	246	81	24049765	24064189	-1	None	None
Y	RBMY1E	ENSG00000242389	ENST00000382659	protein_coding	KNOWN	CCDS35481	23916	1491	496	24049765	24064214	-1	None	None
Y	RBMY1E	ENSG00000242389	ENST00000382673	protein_coding	KNOWN	None	23916	1491	496	24026223	24064174	-1	None	None
Y	RBMY1E	ENSG00000242389	ENST00000382658	protein_coding	KNOWN	None	23916	1380	459	24049997	24064127	-1	None	None
10	FAM35EP	ENSG00000230210	ENST00000419427	unprocessed_pseudogene	KNOWN	None	45005	None	None	49087398	49094515	1	None	None
10	RN7SL527P	ENSG00000266197	ENST00000583698	misc_RNA	KNOWN	None	46543	None	None	49090136	49090419	-1	None	None
11	None	ENSG00000255387	ENST00000528172	processed_pseudogene	KNOWN	None	None	None	None	4231584	4233321	-1	None	None
10	KNDC1	ENSG00000171798	ENST00000304613	protein_coding	KNOWN	CCDS7674	29374	5250	1749	134973951	135039916	1	RASGEF2, C10orf23	KIAA1768, bB439H18.3, FLJ25027
10	KNDC1	ENSG00000171798	ENST00000478074	processed_transcript	KNOWN	None	29374	None	None	134974007	134987748	1	RASGEF2, C10orf23	KIAA1768, bB439H18.3, FLJ25027
10	KNDC1	ENSG00000171798	ENST00000485110	processed_transcript	KNOWN	None	29374	None	None	134974007	134992878	1	RASGEF2, C10orf23	KIAA1768, bB439H18.3, FLJ25027
10	KNDC1	ENSG00000171798	ENST00000530127	processed_transcript	KNOWN	None	29374	None	None	134977691	134992653	1	RASGEF2, C10orf23	KIAA1768, bB439H18.3, FLJ25027
10	KNDC1	ENSG00000171798	ENST00000368571	protein_coding	PUTATIVE	None	29374	3426	1141	134980688	135020708	1	RASGEF2, C10orf23	KIAA1768, bB439H18.3, FLJ25027
10	KNDC1	ENSG00000171798	ENST00000368572	protein_coding	KNOWN	None	29374	5256	1751	134973971	135039916	1	RASGEF2, C10orf23	KIAA1768, bB439H18.3, FLJ25027
11	C11orf85	ENSG00000168070	ENST00000532617	protein_coding	PUTATIVE	None	27441	178	58	64704989	64708118	-1	None	None
11	C11orf85	ENSG00000168070	ENST00000530444	protein_coding	NOVEL	None	27441	531	176	64705702	64739495	-1	None	None
11	C11orf85	ENSG00000168070	ENST00000530287	retained_intron	KNOWN	None	27441	None	None	64705703	64707337	-1	None	None
11	C11orf85	ENSG00000168070	ENST00000530735	nonsense_mediated_decay	KNOWN	None	27441	345	114	64705703	64739557	-1	None	None
11	C11orf85	ENSG00000168070	ENST00000301896	protein_coding	KNOWN	CCDS31603	27441	651	216	64705929	64739358	-1	None	None
11	C11orf85	ENSG00000168070	ENST00000536065	protein_coding	KNOWN	None	27441	447	148	64705703	64739557	-1	None	None
11	C11orf85	ENSG00000168070	ENST00000432175	protein_coding	KNOWN	CCDS31603	27441	651	216	64705929	64727609	-1	None	None
2	None	ENSG00000263570	ENST00000584133	miRNA	NOVEL	None	None	None	None	3020991	3021102	-1	None	None
2	None	ENSG00000238722	ENST00000459409	snoRNA	NOVEL	None	None	None	None	3079444	3079544	-1	None	None
10	CTGLF12P	ENSG00000179296	ENST00000339771	unprocessed_pseudogene	KNOWN	None	23661	None	None	49217898	49239617	-1	None	bA164N7.2
10	CTGLF12P	ENSG00000179296	ENST00000424752	unprocessed_pseudogene	KNOWN	None	23661	None	None	49217974	49239729	-1	None	bA164N7.2
19	ZNF137P	ENSG00000123870	ENST00000597158	processed_transcript	KNOWN	None	12921	None	None	53091758	53098941	1	ZNF137	pHZ-30
19	ZNF137P	ENSG00000123870	ENST00000456718	transcribed_unprocessed_pseudogene	KNOWN	None	12921	None	None	53095291	53100598	1	ZNF137	pHZ-30
19	ZNF137P	ENSG00000123870	ENST00000333303	unprocessed_pseudogene	KNOWN	None	12921	None	None	53099127	53100660	1	ZNF137	pHZ-30
19	ZNF137P	ENSG00000123870	ENST00000406609	unprocessed_pseudogene	KNOWN	None	12921	None	None	53099127	53100660	1	ZNF137	pHZ-30
19	ZNF137P	ENSG00000123870	ENST00000446680	unprocessed_pseudogene	KNOWN	None	12921	None	None	53099127	53100564	1	ZNF137	pHZ-30
17	OR3A1	ENSG00000180090	ENST00000323404	protein_coding	KNOWN	CCDS11023	8282	948	315	3194929	3195876	-1	None	OLFRA03, OR40, OR17-40
2	None	ENSG00000236760	ENST00000425776	lincRNA	KNOWN	None	None	None	None	3135353	3136877	-1	None	None
2	None	ENSG00000236760	ENST00000419347	lincRNA	KNOWN	None	None	None	None	3135757	3149551	-1	None	None
6	None	ENSG00000232197	ENST00000429305	antisense	KNOWN	None	None	None	None	170477741	170478251	1	None	None
4	TEC	ENSG00000135605	ENST00000381501	protein_coding	KNOWN	CCDS3481	11719	1896	631	48137800	48271881	-1	None	PSCTK4
4	TEC	ENSG00000135605	ENST00000505452	nonsense_mediated_decay	KNOWN	None	11719	303	100	48138821	48230676	-1	None	PSCTK4
4	TEC	ENSG00000135605	ENST00000515146	nonsense_mediated_decay	KNOWN	None	11719	156	51	48139427	48148418	-1	None	PSCTK4
4	TEC	ENSG00000135605	ENST00000511150	retained_intron	KNOWN	None	11719	None	None	48140933	48143700	-1	None	PSCTK4
4	TEC	ENSG00000135605	ENST00000511471	processed_transcript	KNOWN	None	11719	None	None	48143373	48157883	-1	None	PSCTK4
2	MSH2	ENSG00000095002	ENST00000233146	protein_coding	KNOWN	CCDS1834	7325	2805	934	47630108	47710367	1	COCA1	HNPCC, HNPCC1
2	MSH2	ENSG00000095002	ENST00000454849	protein_coding	NOVEL	None	7325	421	139	47630206	47637485	1	COCA1	HNPCC, HNPCC1
2	MSH2	ENSG00000095002	ENST00000406134	protein_coding	PUTATIVE	None	7325	2766	921	47630269	47740373	1	COCA1	HNPCC, HNPCC1
2	MSH2	ENSG00000095002	ENST00000461394	processed_transcript	PUTATIVE	None	7325	None	None	47707936	47789450	1	COCA1	HNPCC, HNPCC1
2	MSH2	ENSG00000095002	ENST00000467323	processed_transcript	PUTATIVE	None	7325	None	None	47782998	47789450	1	COCA1	HNPCC, HNPCC1
2	MSH2	ENSG00000095002	ENST00000543555	protein_coding	KNOWN	CCDS58709	7325	2607	868	47630206	47710360	1	COCA1	HNPCC, HNPCC1
10	None	ENSG00000223581	ENST00000420049	lincRNA	KNOWN	None	None	None	None	7139114	7139637	1	None	None
2	None	ENSG00000226649	ENST00000454530	lincRNA	KNOWN	None	None	None	None	3160527	3161568	1	None	None
19	EPN1	ENSG00000063245	ENST00000270460	protein_coding	KNOWN	CCDS46199	21604	1731	576	56186592	56207132	1	None	None
19	EPN1	ENSG00000063245	ENST00000085079	protein_coding	KNOWN	CCDS46200	21604	1653	550	56186611	56207132	1	None	None
19	EPN1	ENSG00000063245	ENST00000411543	protein_coding	KNOWN	CCDS46198	21604	1989	662	56187991	56206807	1	None	None
19	EPN1	ENSG00000063245	ENST00000591743	processed_transcript	KNOWN	None	21604	None	None	56192042	56201281	1	None	None
19	EPN1	ENSG00000063245	ENST00000586194	retained_intron	KNOWN	None	21604	None	None	56204014	56204753	1	None	None
19	EPN1	ENSG00000063245	ENST00000589704	protein_coding	PUTATIVE	None	21604	182	59	56204136	56221224	1	None	None
10	None	ENSG00000270811	ENST00000604136	processed_pseudogene	KNOWN	None	None	None	None	7196082	7196198	1	None	None
14	SERPINA4	ENSG00000100665	ENST00000557004	protein_coding	KNOWN	CCDS9927	8948	1284	427	95027428	95036239	1	PI4	KST, KAL, KLST, kallistatin
14	SERPINA4	ENSG00000100665	ENST00000555095	protein_coding	KNOWN	CCDS9927	8948	1284	427	95027779	95036250	1	PI4	KST, KAL, KLST, kallistatin
14	SERPINA4	ENSG00000100665	ENST00000298841	protein_coding	KNOWN	CCDS9927	8948	1284	427	95027784	95036207	1	PI4	KST, KAL, KLST, kallistatin
10	None	ENSG00000235141	ENST00000421389	processed_pseudogene	KNOWN	None	None	None	None	7337068	7337252	-1	None	None
10	BUB3	ENSG00000154473	ENST00000368865	protein_coding	KNOWN	CCDS7635	1151	987	328	124913793	124924886	1	None	BUB3L
10	BUB3	ENSG00000154473	ENST00000368859	protein_coding	NOVEL	None	1151	438	145	124913918	124924728	1	None	BUB3L
10	BUB3	ENSG00000154473	ENST00000368858	protein_coding	KNOWN	CCDS31306	1151	981	326	124913931	124924881	1	None	BUB3L
10	BUB3	ENSG00000154473	ENST00000407911	protein_coding	PUTATIVE	None	1151	836	277	124914375	124922209	1	None	BUB3L
10	BUB3	ENSG00000154473	ENST00000481952	processed_transcript	KNOWN	None	1151	None	None	124921770	124922757	1	None	BUB3L
10	BUB3	ENSG00000154473	ENST00000538238	protein_coding	KNOWN	None	1151	747	248	124913909	124923641	1	None	BUB3L
2	TSSC1-IT1	ENSG00000224885	ENST00000454977	sense_intronic	KNOWN	None	41392	None	None	3302112	3305236	-1	None	None
13	DAOA	ENSG00000182346	ENST00000559369	nonsense_mediated_decay	KNOWN	CCDS53880	21191	249	82	106118216	106143383	1	None	G72
13	DAOA	ENSG00000182346	ENST00000600388	nonsense_mediated_decay	KNOWN	CCDS53880	21191	249	82	106118364	106143349	1	None	G72
13	DAOA	ENSG00000182346	ENST00000473269	nonsense_mediated_decay	KNOWN	None	21191	381	126	106118367	106143349	1	None	G72
13	DAOA	ENSG00000182346	ENST00000488534	nonsense_mediated_decay	KNOWN	None	21191	168	55	106118394	106143379	1	None	G72
13	DAOA	ENSG00000182346	ENST00000375936	protein_coding	KNOWN	CCDS41905	21191	462	153	106118592	106143383	1	None	G72
13	DAOA	ENSG00000182346	ENST00000489237	nonsense_mediated_decay	KNOWN	None	21191	192	63	106118597	106143332	1	None	G72
13	DAOA	ENSG00000182346	ENST00000329625	protein_coding	KNOWN	CCDS53880	21191	249	82	106118619	106143336	1	None	G72
13	DAOA	ENSG00000182346	ENST00000601240	nonsense_mediated_decay	KNOWN	None	21191	297	98	106118619	106143336	1	None	G72
13	DAOA	ENSG00000182346	ENST00000595812	nonsense_mediated_decay	KNOWN	CCDS59242	21191	378	125	106118619	106143336	1	None	G72
13	DAOA	ENSG00000182346	ENST00000471432	nonsense_mediated_decay	KNOWN	None	21191	92	29	106119458	106143349	1	None	G72
16	None	ENSG00000264079	ENST00000579890	miRNA	NOVEL	None	None	None	None	54583215	54583308	-1	None	None
10	RNA5SP315	ENSG00000252149	ENST00000516340	rRNA	KNOWN	None	43215	None	None	49248476	49248591	1	RN5S315	None
3	LSG1	ENSG00000041802	ENST00000265245	protein_coding	KNOWN	CCDS33922	25652	1977	658	194361517	194393206	-1	None	FLJ11301
3	LSG1	ENSG00000041802	ENST00000475763	retained_intron	KNOWN	None	25652	None	None	194362842	194367173	-1	None	FLJ11301
3	LSG1	ENSG00000041802	ENST00000460584	retained_intron	KNOWN	None	25652	None	None	194362902	194369748	-1	None	FLJ11301
3	LSG1	ENSG00000041802	ENST00000437613	protein_coding	NOVEL	None	25652	854	283	194365395	194373831	-1	None	FLJ11301
3	LSG1	ENSG00000041802	ENST00000466391	retained_intron	KNOWN	None	25652	None	None	194371446	194372326	-1	None	FLJ11301
3	LSG1	ENSG00000041802	ENST00000461343	retained_intron	KNOWN	None	25652	None	None	194371513	194373542	-1	None	FLJ11301
3	LSG1	ENSG00000041802	ENST00000427461	nonsense_mediated_decay	KNOWN	None	25652	537	178	194379835	194392891	-1	None	FLJ11301
3	LSG1	ENSG00000041802	ENST00000480853	processed_transcript	PUTATIVE	None	25652	None	None	194390792	194393192	-1	None	FLJ11301
16	None	ENSG00000261171	ENST00000561591	lincRNA	KNOWN	None	None	None	None	54881159	54882145	-1	None	None
3	SLC25A26	ENSG00000144741	ENST00000354883	protein_coding	KNOWN	CCDS2905	20661	825	274	66119285	66429351	1	None	None
3	SLC25A26	ENSG00000144741	ENST00000413054	protein_coding	NOVEL	None	20661	707	234	66293627	66428480	1	None	None
3	SLC25A26	ENSG00000144741	ENST00000483224	nonsense_mediated_decay	KNOWN	None	20661	275	90	66293627	66429351	1	None	None
3	SLC25A26	ENSG00000144741	ENST00000464350	nonsense_mediated_decay	KNOWN	None	20661	335	110	66293627	66438130	1	None	None
3	SLC25A26	ENSG00000144741	ENST00000484768	processed_transcript	KNOWN	None	20661	None	None	66312019	66421008	1	None	None
3	SLC25A26	ENSG00000144741	ENST00000536651	protein_coding	KNOWN	None	20661	66	21	66271490	66438530	1	None	None
3	SLC25A26	ENSG00000144741	ENST00000336733	protein_coding	KNOWN	CCDS54604	20661	561	186	66271168	66429349	1	None	None
17	OR1E1	ENSG00000180016	ENST00000322608	protein_coding	KNOWN	CCDS11024	8189	945	314	3300398	3301704	-1	OR1E9P, OR1E5, OR1E6	OR17-2, HGM071, OR17-32, OR13-66
10	BMS1P7	ENSG00000243899	ENST00000458344	transcribed_unprocessed_pseudogene	KNOWN	None	23655	None	None	49256241	49268060	-1	BMS1LP7	bA164N7.1, OTTHUMG00000018163
16	None	ENSG00000205037	ENST00000378417	lincRNA	KNOWN	None	None	None	None	88121647	88134565	-1	None	None
16	None	ENSG00000205037	ENST00000566351	lincRNA	KNOWN	None	None	None	None	88133015	88134591	-1	None	None
2	TRAPPC12-AS1	ENSG00000225234	ENST00000453806	antisense	KNOWN	None	41046	None	None	3485013	3486180	-1	None	None
14	ABHD4	ENSG00000100439	ENST00000428304	protein_coding	KNOWN	CCDS9572	20154	1029	342	23067146	23081265	1	None	FLJ12816
14	ABHD4	ENSG00000100439	ENST00000216327	protein_coding	NOVEL	None	20154	713	236	23067176	23078788	1	None	FLJ12816
14	ABHD4	ENSG00000100439	ENST00000537243	nonsense_mediated_decay	KNOWN	None	20154	258	85	23067199	23072981	1	None	FLJ12816
14	ABHD4	ENSG00000100439	ENST00000544562	processed_transcript	KNOWN	None	20154	None	None	23067203	23078713	1	None	FLJ12816
14	ABHD4	ENSG00000100439	ENST00000542041	protein_coding	PUTATIVE	None	20154	271	89	23067207	23072525	1	None	FLJ12816
14	ABHD4	ENSG00000100439	ENST00000539344	retained_intron	KNOWN	None	20154	None	None	23067209	23073161	1	None	FLJ12816
14	ABHD4	ENSG00000100439	ENST00000418446	nonsense_mediated_decay	KNOWN	None	20154	546	181	23067213	23079980	1	None	FLJ12816
14	ABHD4	ENSG00000100439	ENST00000545034	protein_coding	PUTATIVE	None	20154	133	43	23069028	23072315	1	None	FLJ12816
14	ABHD4	ENSG00000100439	ENST00000541962	nonsense_mediated_decay	KNOWN	None	20154	163	53	23070572	23079815	1	None	FLJ12816
14	ABHD4	ENSG00000100439	ENST00000489928	processed_transcript	PUTATIVE	None	20154	None	None	23080447	23081264	1	None	FLJ12816
2	None	ENSG00000271868	ENST00000607415	lincRNA	KNOWN	None	None	None	None	3500727	3501199	1	None	None
2	None	ENSG00000235078	ENST00000450917	antisense	KNOWN	None	None	None	None	3523046	3526968	1	None	None
10	None	ENSG00000232591	ENST00000420395	lincRNA	KNOWN	None	None	None	None	7487520	7513904	-1	None	None
16	None	ENSG00000260162	ENST00000563521	lincRNA	KNOWN	None	None	None	None	88210895	88212252	1	None	None
2	DRC1	ENSG00000157856	ENST00000288710	protein_coding	KNOWN	CCDS1723	24245	2223	740	26624784	26679579	1	C2orf39, CCDC164	MGC16372, FLJ32660
2	DRC1	ENSG00000157856	ENST00000421869	nonsense_mediated_decay	KNOWN	None	24245	363	120	26624806	26667767	1	C2orf39, CCDC164	MGC16372, FLJ32660
2	DRC1	ENSG00000157856	ENST00000487307	retained_intron	KNOWN	None	24245	None	None	26644022	26654858	1	C2orf39, CCDC164	MGC16372, FLJ32660
2	DRC1	ENSG00000157856	ENST00000497651	retained_intron	KNOWN	None	24245	None	None	26644023	26653666	1	C2orf39, CCDC164	MGC16372, FLJ32660
2	DRC1	ENSG00000157856	ENST00000442810	protein_coding	PUTATIVE	None	24245	552	183	26653357	26667126	1	C2orf39, CCDC164	MGC16372, FLJ32660
2	DRC1	ENSG00000157856	ENST00000483675	processed_transcript	KNOWN	None	24245	None	None	26653375	26667813	1	C2orf39, CCDC164	MGC16372, FLJ32660
2	DRC1	ENSG00000157856	ENST00000439066	protein_coding	KNOWN	None	24245	520	172	26671167	26676350	1	C2orf39, CCDC164	MGC16372, FLJ32660
10	RNU6-535P	ENSG00000207453	ENST00000384722	snRNA	KNOWN	None	47498	None	None	7528665	7528771	-1	None	None
2	None	ENSG00000242282	ENST00000422961	lincRNA	KNOWN	None	None	None	None	3579403	3584463	-1	None	None
2	None	ENSG00000242282	ENST00000439547	lincRNA	KNOWN	None	None	None	None	3579574	3581372	-1	None	None
2	None	ENSG00000242282	ENST00000416463	lincRNA	KNOWN	None	None	None	None	3579579	3581733	-1	None	None
2	None	ENSG00000242282	ENST00000423704	lincRNA	KNOWN	None	None	None	None	3579580	3580960	-1	None	None
2	None	ENSG00000242282	ENST00000438482	lincRNA	KNOWN	None	None	None	None	3580814	3584459	-1	None	None
5	None	ENSG00000248789	ENST00000505899	processed_transcript	KNOWN	None	None	None	None	51303865	51339743	1	None	None
5	None	ENSG00000248789	ENST00000510583	protein_coding	PUTATIVE	None	None	252	83	51305649	51376821	1	None	None
HSCHR6_MHC_MANN	HLA-DRB4	ENSG00000227826	ENST00000411959	protein_coding	KNOWN	None	4952	801	266	32542662	32557610	-1	HLA-DR4B	None
19	SCN1B	ENSG00000105711	ENST00000262631	protein_coding	KNOWN	CCDS12441	10586	657	218	35521588	35531352	1	None	None
19	SCN1B	ENSG00000105711	ENST00000595652	protein_coding	NOVEL	None	10586	444	147	35521637	35530977	1	None	None
19	SCN1B	ENSG00000105711	ENST00000415950	protein_coding	NOVEL	CCDS46047	10586	807	268	35521725	35525174	1	None	None
19	SCN1B	ENSG00000105711	ENST00000596348	processed_transcript	KNOWN	None	10586	None	None	35522636	35530123	1	None	None
19	SCN1B	ENSG00000105711	ENST00000602150	retained_intron	KNOWN	None	10586	None	None	35527803	35531352	1	None	None
17	OR3A3	ENSG00000159961	ENST00000291231	protein_coding	KNOWN	CCDS11025	8284	966	321	3323862	3324827	1	OR3A6, OR3A7, OR3A8P	OR17-201, OR17-137, OR17-16
10	PTPN20CP	ENSG00000126542	ENST00000506185	unprocessed_pseudogene	KNOWN	None	23424	None	None	49272348	49327498	-1	PTPN20C	bA164N7.3
10	PTPN20CP	ENSG00000126542	ENST00000316733	unprocessed_pseudogene	KNOWN	None	23424	None	None	49272334	49319280	-1	PTPN20C	bA164N7.3
11	NPAS4	ENSG00000174576	ENST00000311034	protein_coding	KNOWN	CCDS8138	18983	2409	802	66188475	66194178	1	None	PASD10, NXF, Le-PAS, bHLHe79
11	NPAS4	ENSG00000174576	ENST00000525148	nonsense_mediated_decay	KNOWN	None	18983	705	234	66188562	66193526	1	None	PASD10, NXF, Le-PAS, bHLHe79
11	NPAS4	ENSG00000174576	ENST00000524617	retained_intron	KNOWN	None	18983	None	None	66190355	66191316	1	None	PASD10, NXF, Le-PAS, bHLHe79
10	None	ENSG00000230121	ENST00000414631	antisense	KNOWN	None	None	None	None	7575169	7578527	1	None	None
11	CUL5	ENSG00000166266	ENST00000393094	protein_coding	KNOWN	CCDS31668	2556	2343	780	107879459	107978503	1	None	VACM-1
11	CUL5	ENSG00000166266	ENST00000532064	nonsense_mediated_decay	KNOWN	None	2556	144	47	107879646	107925682	1	None	VACM-1
11	CUL5	ENSG00000166266	ENST00000526303	retained_intron	KNOWN	None	2556	None	None	107879682	107917220	1	None	VACM-1
11	CUL5	ENSG00000166266	ENST00000531427	nonsense_mediated_decay	KNOWN	CCDS31668	2556	2343	780	107879986	107977579	1	None	VACM-1
11	CUL5	ENSG00000166266	ENST00000532782	protein_coding	NOVEL	None	2556	388	128	107916997	107925519	1	None	VACM-1
11	CUL5	ENSG00000166266	ENST00000531843	processed_transcript	PUTATIVE	None	2556	None	None	107944117	107944793	1	None	VACM-1
4	SLC25A31	ENSG00000151475	ENST00000281154	protein_coding	KNOWN	CCDS3733	25319	948	315	128651533	128695448	1	None	DKFZP434N1235, ANT4
10	None	ENSG00000233990	ENST00000440219	processed_pseudogene	KNOWN	None	None	None	None	7875581	7875920	-1	None	None
2	None	ENSG00000234171	ENST00000438436	antisense	KNOWN	None	None	None	None	3606082	3609324	1	None	None
2	None	ENSG00000234171	ENST00000426725	antisense	KNOWN	None	None	None	None	3606168	3609321	1	None	None
7	GIMAP2	ENSG00000106560	ENST00000487388	retained_intron	KNOWN	None	21789	None	None	150382785	150384606	1	None	DKFZp586D0824, HIMAP2, IMAP2
7	GIMAP2	ENSG00000106560	ENST00000223293	protein_coding	KNOWN	CCDS5905	21789	1014	337	150382788	150390729	1	None	DKFZp586D0824, HIMAP2, IMAP2
7	GIMAP2	ENSG00000106560	ENST00000474605	protein_coding	NOVEL	None	21789	132	43	150382815	150386790	1	None	DKFZp586D0824, HIMAP2, IMAP2
22	TCF20	ENSG00000100207	ENST00000359486	protein_coding	KNOWN	CCDS14033	11631	5883	1960	42556019	42611448	-1	None	AR1, SPBP
22	TCF20	ENSG00000100207	ENST00000335626	protein_coding	KNOWN	CCDS14032	11631	5817	1938	42557062	42611446	-1	None	AR1, SPBP
22	TCF20	ENSG00000100207	ENST00000404876	protein_coding	PUTATIVE	None	11631	753	250	42557104	42606214	-1	None	AR1, SPBP
22	TCF20	ENSG00000100207	ENST00000515426	protein_coding	KNOWN	None	11631	459	152	42610853	42739622	-1	None	AR1, SPBP
17	OR1E2	ENSG00000127780	ENST00000248384	protein_coding	KNOWN	CCDS11026	8190	972	323	3336164	3337135	-1	OR1E4	OR17-93, OR17-135
X	JPX	ENSG00000225470	ENST00000602938	lincRNA	KNOWN	None	37191	None	None	73164159	73218949	1	NCRNA00183	ENOX, LINC00183
X	JPX	ENSG00000225470	ENST00000602294	lincRNA	KNOWN	None	37191	None	None	73164159	73224186	1	NCRNA00183	ENOX, LINC00183
X	JPX	ENSG00000225470	ENST00000602920	lincRNA	KNOWN	None	37191	None	None	73164159	73224386	1	NCRNA00183	ENOX, LINC00183
X	JPX	ENSG00000225470	ENST00000602737	lincRNA	KNOWN	None	37191	None	None	73164162	73167041	1	NCRNA00183	ENOX, LINC00183
X	JPX	ENSG00000225470	ENST00000602772	lincRNA	KNOWN	None	37191	None	None	73164163	73290243	1	NCRNA00183	ENOX, LINC00183
X	JPX	ENSG00000225470	ENST00000414209	lincRNA	KNOWN	None	37191	None	None	73164177	73220326	1	NCRNA00183	ENOX, LINC00183
X	JPX	ENSG00000225470	ENST00000602895	lincRNA	KNOWN	None	37191	None	None	73164178	73219338	1	NCRNA00183	ENOX, LINC00183
X	JPX	ENSG00000225470	ENST00000453317	lincRNA	KNOWN	None	37191	None	None	73164181	73164781	1	NCRNA00183	ENOX, LINC00183
X	JPX	ENSG00000225470	ENST00000602546	lincRNA	KNOWN	None	37191	None	None	73164181	73219203	1	NCRNA00183	ENOX, LINC00183
X	JPX	ENSG00000225470	ENST00000602985	lincRNA	KNOWN	None	37191	None	None	73164186	73224386	1	NCRNA00183	ENOX, LINC00183
X	JPX	ENSG00000225470	ENST00000415215	lincRNA	KNOWN	None	37191	None	None	73164202	73167265	1	NCRNA00183	ENOX, LINC00183
X	JPX	ENSG00000225470	ENST00000538519	lincRNA	KNOWN	None	37191	None	None	73164437	73167041	1	NCRNA00183	ENOX, LINC00183
19	None	ENSG00000267328	ENST00000587767	antisense	KNOWN	None	None	None	None	36245467	36246391	1	None	None
19	None	ENSG00000267049	ENST00000589397	antisense	KNOWN	None	None	None	None	36260046	36261930	-1	None	None
20	NSFL1C	ENSG00000088833	ENST00000461211	processed_transcript	KNOWN	None	15912	None	None	1422807	1437735	-1	None	dJ776F14.1, p47, UBXD10, UBX1, UBXN2C
20	NSFL1C	ENSG00000088833	ENST00000353088	protein_coding	KNOWN	CCDS13016	15912	1020	339	1422807	1447473	-1	None	dJ776F14.1, p47, UBXD10, UBX1, UBXN2C
20	NSFL1C	ENSG00000088833	ENST00000555944	nonsense_mediated_decay	KNOWN	None	15912	108	35	1422807	1447550	-1	None	dJ776F14.1, p47, UBXD10, UBX1, UBXN2C
20	NSFL1C	ENSG00000088833	ENST00000476071	protein_coding	KNOWN	CCDS56175	15912	1119	372	1422807	1447563	-1	None	dJ776F14.1, p47, UBXD10, UBX1, UBXN2C
20	NSFL1C	ENSG00000088833	ENST00000216879	protein_coding	KNOWN	CCDS13015	15912	1113	370	1422807	1448337	-1	None	dJ776F14.1, p47, UBXD10, UBX1, UBXN2C
20	NSFL1C	ENSG00000088833	ENST00000381653	nonsense_mediated_decay	KNOWN	None	15912	825	274	1424380	1447469	-1	None	dJ776F14.1, p47, UBXD10, UBX1, UBXN2C
20	NSFL1C	ENSG00000088833	ENST00000555568	nonsense_mediated_decay	KNOWN	None	15912	108	35	1426311	1447480	-1	None	dJ776F14.1, p47, UBXD10, UBX1, UBXN2C
20	NSFL1C	ENSG00000088833	ENST00000470376	nonsense_mediated_decay	KNOWN	None	15912	216	71	1433190	1447474	-1	None	dJ776F14.1, p47, UBXD10, UBX1, UBXN2C
20	NSFL1C	ENSG00000088833	ENST00000489203	nonsense_mediated_decay	KNOWN	None	15912	318	105	1434858	1447469	-1	None	dJ776F14.1, p47, UBXD10, UBX1, UBXN2C
20	NSFL1C	ENSG00000088833	ENST00000555359	retained_intron	KNOWN	None	15912	None	None	1438600	1447494	-1	None	dJ776F14.1, p47, UBXD10, UBX1, UBXN2C
20	NSFL1C	ENSG00000088833	ENST00000487086	retained_intron	KNOWN	None	15912	None	None	1438675	1447477	-1	None	dJ776F14.1, p47, UBXD10, UBX1, UBXN2C
20	NSFL1C	ENSG00000088833	ENST00000478168	retained_intron	KNOWN	None	15912	None	None	1444551	1447467	-1	None	dJ776F14.1, p47, UBXD10, UBX1, UBXN2C
20	NSFL1C	ENSG00000088833	ENST00000350991	protein_coding	KNOWN	None	15912	1119	372	1424184	1447489	-1	None	dJ776F14.1, p47, UBXD10, UBX1, UBXN2C
20	NSFL1C	ENSG00000088833	ENST00000381658	protein_coding	KNOWN	None	15912	780	259	1422811	1448417	-1	None	dJ776F14.1, p47, UBXD10, UBX1, UBXN2C
19	None	ENSG00000225872	ENST00000433059	lincRNA	KNOWN	None	None	None	None	36279778	36288787	-1	None	None
19	None	ENSG00000225872	ENST00000564335	lincRNA	KNOWN	None	None	None	None	36282005	36288740	-1	None	None
19	None	ENSG00000225872	ENST00000567313	lincRNA	KNOWN	None	None	None	None	36282869	36288777	-1	None	None
9	SETX	ENSG00000107290	ENST00000477049	processed_transcript	KNOWN	None	445	None	None	135136743	135150769	-1	ALS4, SCAR1	KIAA0625, AOA2
9	SETX	ENSG00000107290	ENST00000436441	protein_coding	KNOWN	None	445	2847	948	135136743	135187243	-1	ALS4, SCAR1	KIAA0625, AOA2
9	SETX	ENSG00000107290	ENST00000224140	protein_coding	KNOWN	CCDS6947	445	8034	2677	135136743	135230372	-1	ALS4, SCAR1	KIAA0625, AOA2
9	SETX	ENSG00000107290	ENST00000464133	processed_transcript	KNOWN	None	445	None	None	135150310	135153496	-1	ALS4, SCAR1	KIAA0625, AOA2
9	SETX	ENSG00000107290	ENST00000474172	processed_transcript	KNOWN	None	445	None	None	135158157	135161884	-1	ALS4, SCAR1	KIAA0625, AOA2
9	SETX	ENSG00000107290	ENST00000372169	protein_coding	KNOWN	None	445	8121	2706	135136827	135230372	-1	ALS4, SCAR1	KIAA0625, AOA2
9	SETX	ENSG00000107290	ENST00000393220	protein_coding	KNOWN	None	445	7935	2644	135136827	135230372	-1	ALS4, SCAR1	KIAA0625, AOA2
12	RHNO1	ENSG00000171792	ENST00000536063	processed_transcript	KNOWN	None	28206	None	None	2985424	2997334	1	C12orf32	HKMT1188, MGC13204, RHINO
12	RHNO1	ENSG00000171792	ENST00000538636	protein_coding	KNOWN	None	28206	395	130	2986365	2997303	1	C12orf32	HKMT1188, MGC13204, RHINO
12	RHNO1	ENSG00000171792	ENST00000461997	protein_coding	NOVEL	CCDS58199	28206	675	224	2986365	2998437	1	C12orf32	HKMT1188, MGC13204, RHINO
12	RHNO1	ENSG00000171792	ENST00000464682	processed_transcript	KNOWN	None	28206	None	None	2986374	2998606	1	C12orf32	HKMT1188, MGC13204, RHINO
12	RHNO1	ENSG00000171792	ENST00000489288	protein_coding	KNOWN	CCDS8518	28206	717	238	2986381	2998626	1	C12orf32	HKMT1188, MGC13204, RHINO
12	RHNO1	ENSG00000171792	ENST00000366285	protein_coding	KNOWN	None	28206	192	63	2986389	2997100	1	C12orf32	HKMT1188, MGC13204, RHINO
12	RHNO1	ENSG00000171792	ENST00000535978	nonsense_mediated_decay	KNOWN	None	28206	180	59	2986389	2997173	1	C12orf32	HKMT1188, MGC13204, RHINO
12	RHNO1	ENSG00000171792	ENST00000538700	protein_coding	KNOWN	None	28206	315	104	2986389	2997223	1	C12orf32	HKMT1188, MGC13204, RHINO
5	TSPAN17	ENSG00000048140	ENST00000310032	protein_coding	KNOWN	CCDS34298	13594	999	332	176074388	176086021	1	FBXO23, TM4SF17	FBX23
5	TSPAN17	ENSG00000048140	ENST00000298564	protein_coding	PUTATIVE	None	13594	567	188	176074468	176086055	1	FBXO23, TM4SF17	FBX23
5	TSPAN17	ENSG00000048140	ENST00000514705	retained_intron	KNOWN	None	13594	None	None	176074498	176086054	1	FBXO23, TM4SF17	FBX23
5	TSPAN17	ENSG00000048140	ENST00000503030	nonsense_mediated_decay	KNOWN	None	13594	177	58	176074503	176084619	1	FBXO23, TM4SF17	FBX23
5	TSPAN17	ENSG00000048140	ENST00000508164	protein_coding	KNOWN	CCDS54952	13594	990	329	176074503	176086052	1	FBXO23, TM4SF17	FBX23
5	TSPAN17	ENSG00000048140	ENST00000504168	protein_coding	NOVEL	None	13594	773	256	176074506	176083957	1	FBXO23, TM4SF17	FBX23
5	TSPAN17	ENSG00000048140	ENST00000503045	protein_coding	NOVEL	None	13594	930	309	176074562	176084733	1	FBXO23, TM4SF17	FBX23
5	TSPAN17	ENSG00000048140	ENST00000515708	protein_coding	KNOWN	CCDS47346	13594	792	263	176074569	176086054	1	FBXO23, TM4SF17	FBX23
5	TSPAN17	ENSG00000048140	ENST00000507471	protein_coding	PUTATIVE	None	13594	611	202	176074621	176084057	1	FBXO23, TM4SF17	FBX23
5	TSPAN17	ENSG00000048140	ENST00000405525	protein_coding	KNOWN	None	13594	801	266	176074388	176086058	1	FBXO23, TM4SF17	FBX23
19	ZNF14	ENSG00000105708	ENST00000344099	protein_coding	KNOWN	CCDS12409	12924	1929	642	19821280	19843906	-1	None	KOX6, GIOT-4
5	PCDHA12	ENSG00000251664	ENST00000398631	protein_coding	KNOWN	CCDS47285	8666	2826	941	140255058	140391929	1	None	PCDH-ALPHA12
10	C10orf111	ENSG00000176236	ENST00000378207	protein_coding	KNOWN	CCDS7107	28582	468	155	15137384	15139318	-1	None	MGC35468, bA455B2.4
7	GIMAP1	ENSG00000213203	ENST00000307194	protein_coding	KNOWN	CCDS5906	23237	921	306	150413645	150421372	1	None	HIMAP1, IMAP38, IMAP1
7	GIMAP1	ENSG00000213203	ENST00000464461	retained_intron	KNOWN	None	23237	None	None	150413694	150416604	1	None	HIMAP1, IMAP38, IMAP1
2	None	ENSG00000252531	ENST00000516722	snoRNA	NOVEL	None	None	None	None	3628160	3628322	1	None	None
2	None	ENSG00000237370	ENST00000456450	antisense	KNOWN	None	None	None	None	3650987	3651832	-1	None	None
1	RNPC3	ENSG00000185946	ENST00000524631	protein_coding	NOVEL	None	18666	1551	516	104068313	104095965	1	None	KIAA1839, FLJ20008, RBM40, SNRNP65
1	RNPC3	ENSG00000185946	ENST00000531883	protein_coding	KNOWN	None	18666	555	184	104068319	104078063	1	None	KIAA1839, FLJ20008, RBM40, SNRNP65
1	RNPC3	ENSG00000185946	ENST00000533099	protein_coding	KNOWN	CCDS781	18666	1554	517	104068321	104097734	1	None	KIAA1839, FLJ20008, RBM40, SNRNP65
1	RNPC3	ENSG00000185946	ENST00000527062	protein_coding	PUTATIVE	None	18666	416	137	104068379	104084097	1	None	KIAA1839, FLJ20008, RBM40, SNRNP65
1	RNPC3	ENSG00000185946	ENST00000423855	protein_coding	KNOWN	CCDS781	18666	1554	517	104068593	104097861	1	None	KIAA1839, FLJ20008, RBM40, SNRNP65
1	RNPC3	ENSG00000185946	ENST00000533834	retained_intron	KNOWN	None	18666	None	None	104080010	104095400	1	None	KIAA1839, FLJ20008, RBM40, SNRNP65
1	RNPC3	ENSG00000185946	ENST00000524641	protein_coding	NOVEL	None	18666	547	181	104083983	104089657	1	None	KIAA1839, FLJ20008, RBM40, SNRNP65
1	RNPC3	ENSG00000185946	ENST00000525323	retained_intron	KNOWN	None	18666	None	None	104089549	104093885	1	None	KIAA1839, FLJ20008, RBM40, SNRNP65
1	RNPC3	ENSG00000185946	ENST00000532117	nonsense_mediated_decay	KNOWN	None	18666	57	18	104094346	104096336	1	None	KIAA1839, FLJ20008, RBM40, SNRNP65
17	CPD	ENSG00000108582	ENST00000225719	protein_coding	KNOWN	CCDS11257	2301	4143	1380	28705923	28797007	1	None	GP180
17	CPD	ENSG00000108582	ENST00000583275	retained_intron	KNOWN	None	2301	None	None	28706634	28712310	1	None	GP180
17	CPD	ENSG00000108582	ENST00000543464	protein_coding	KNOWN	CCDS56025	2301	3402	1133	28707254	28792035	1	None	GP180
17	CPD	ENSG00000108582	ENST00000581826	retained_intron	KNOWN	None	2301	None	None	28766003	28771162	1	None	GP180
17	CPD	ENSG00000108582	ENST00000584221	protein_coding	PUTATIVE	None	2301	555	184	28770820	28793441	1	None	GP180
17	CPD	ENSG00000108582	ENST00000588977	processed_transcript	KNOWN	None	2301	None	None	28772709	28778755	1	None	GP180
17	CPD	ENSG00000108582	ENST00000584050	nonsense_mediated_decay	KNOWN	None	2301	121	39	28776691	28783369	1	None	GP180
17	CPD	ENSG00000108582	ENST00000584051	processed_transcript	KNOWN	None	2301	None	None	28777254	28788284	1	None	GP180
17	CPD	ENSG00000108582	ENST00000579502	nonsense_mediated_decay	KNOWN	None	2301	249	82	28778828	28791965	1	None	GP180
17	CPD	ENSG00000108582	ENST00000580396	retained_intron	KNOWN	None	2301	None	None	28781039	28783881	1	None	GP180
2	TMSB4XP2	ENSG00000188765	ENST00000335179	unprocessed_pseudogene	KNOWN	None	11884	None	None	3665138	3665347	-1	TMSL2	None
2	TMSB4XP2	ENSG00000188765	ENST00000545072	unprocessed_pseudogene	KNOWN	None	11884	None	None	3665138	3665290	-1	TMSL2	None
20	LAMA5	ENSG00000130702	ENST00000492698	processed_transcript	KNOWN	None	6485	None	None	60883011	60884313	-1	None	None
20	LAMA5	ENSG00000130702	ENST00000370691	nonsense_mediated_decay	KNOWN	None	6485	2013	670	60884115	60889935	-1	None	None
20	LAMA5	ENSG00000130702	ENST00000252999	protein_coding	KNOWN	CCDS33502	6485	11088	3695	60884121	60942368	-1	None	None
20	LAMA5	ENSG00000130702	ENST00000495695	retained_intron	KNOWN	None	6485	None	None	60884201	60885468	-1	None	None
20	LAMA5	ENSG00000130702	ENST00000462415	retained_intron	KNOWN	None	6485	None	None	60886313	60887202	-1	None	None
20	LAMA5	ENSG00000130702	ENST00000491036	retained_intron	KNOWN	None	6485	None	None	60886986	60888017	-1	None	None
20	LAMA5	ENSG00000130702	ENST00000468786	retained_intron	KNOWN	None	6485	None	None	60888236	60888636	-1	None	None
20	LAMA5	ENSG00000130702	ENST00000471042	retained_intron	KNOWN	None	6485	None	None	60890152	60891378	-1	None	None
20	LAMA5	ENSG00000130702	ENST00000481120	retained_intron	KNOWN	None	6485	None	None	60893591	60894168	-1	None	None
20	LAMA5	ENSG00000130702	ENST00000464134	retained_intron	KNOWN	None	6485	None	None	60898832	60899927	-1	None	None
20	LAMA5	ENSG00000130702	ENST00000497363	processed_transcript	KNOWN	None	6485	None	None	60900196	60901687	-1	None	None
20	LAMA5	ENSG00000130702	ENST00000474128	nonsense_mediated_decay	KNOWN	None	6485	117	38	60909358	60912682	-1	None	None
20	LAMA5	ENSG00000130702	ENST00000370677	protein_coding	KNOWN	None	6485	1503	500	60920470	60942326	-1	None	None
20	LAMA5	ENSG00000130702	ENST00000497053	processed_transcript	KNOWN	None	6485	None	None	60921614	60927045	-1	None	None
20	LAMA5	ENSG00000130702	ENST00000370692	protein_coding	KNOWN	None	6485	1587	528	60916942	60942353	-1	None	None
1	CLCN6	ENSG00000011021	ENST00000346436	protein_coding	KNOWN	CCDS138	2024	2610	869	11866268	11903201	1	None	CLC-6, KIAA0046, ClC-6
1	CLCN6	ENSG00000011021	ENST00000376497	protein_coding	KNOWN	None	2024	369	122	11866270	11880836	1	None	CLC-6, KIAA0046, ClC-6
1	CLCN6	ENSG00000011021	ENST00000376496	protein_coding	NOVEL	None	2024	2862	953	11866317	11899107	1	None	CLC-6, KIAA0046, ClC-6
1	CLCN6	ENSG00000011021	ENST00000376490	processed_transcript	KNOWN	None	2024	None	None	11866320	11888275	1	None	CLC-6, KIAA0046, ClC-6
1	CLCN6	ENSG00000011021	ENST00000376491	processed_transcript	KNOWN	None	2024	None	None	11866320	11888275	1	None	CLC-6, KIAA0046, ClC-6
1	CLCN6	ENSG00000011021	ENST00000376492	processed_transcript	KNOWN	None	2024	None	None	11866320	11889360	1	None	CLC-6, KIAA0046, ClC-6
1	CLCN6	ENSG00000011021	ENST00000494028	processed_transcript	KNOWN	None	2024	None	None	11889906	11894365	1	None	CLC-6, KIAA0046, ClC-6
1	CLCN6	ENSG00000011021	ENST00000376487	protein_coding	KNOWN	CCDS57972	2024	2544	847	11866298	11900728	1	None	CLC-6, KIAA0046, ClC-6
1	CLCN6	ENSG00000011021	ENST00000312413	protein_coding	KNOWN	None	2024	1062	353	11866207	11903201	1	None	CLC-6, KIAA0046, ClC-6
2	GAPDHP48	ENSG00000232718	ENST00000436626	processed_pseudogene	KNOWN	None	37805	None	None	3735611	3736571	-1	None	None
17	PIP4K2B	ENSG00000141720	ENST00000269554	protein_coding	KNOWN	CCDS11329	8998	1251	416	36921942	36956158	-1	PIP5K2B	PIP5KIIB, PIP5KIIbeta
17	PIP4K2B	ENSG00000141720	ENST00000583278	processed_transcript	KNOWN	None	8998	None	None	36927427	36936183	-1	PIP5K2B	PIP5KIIB, PIP5KIIbeta
17	PIP4K2B	ENSG00000141720	ENST00000311500	processed_transcript	KNOWN	None	8998	None	None	36932857	36955775	-1	PIP5K2B	PIP5KIIB, PIP5KIIbeta
17	PIP4K2B	ENSG00000141720	ENST00000581097	protein_coding	PUTATIVE	None	8998	214	70	36936806	36956379	-1	PIP5K2B	PIP5KIIB, PIP5KIIbeta
9	NINJ1	ENSG00000131669	ENST00000375446	protein_coding	KNOWN	CCDS6703	7824	459	152	95883771	95896570	-1	None	NIN1
9	NINJ1	ENSG00000131669	ENST00000489274	processed_transcript	KNOWN	None	7824	None	None	95883779	95888472	-1	None	NIN1
9	NINJ1	ENSG00000131669	ENST00000470314	processed_transcript	KNOWN	None	7824	None	None	95884115	95896520	-1	None	NIN1
9	NINJ1	ENSG00000131669	ENST00000461162	processed_transcript	KNOWN	None	7824	None	None	95884179	95896501	-1	None	NIN1
9	NINJ1	ENSG00000131669	ENST00000490564	processed_transcript	KNOWN	None	7824	None	None	95888510	95896501	-1	None	NIN1
22	NFAM1	ENSG00000235568	ENST00000329021	protein_coding	KNOWN	CCDS14034	29872	813	270	42776416	42828401	-1	None	CNAIP
22	NFAM1	ENSG00000235568	ENST00000355469	nonsense_mediated_decay	KNOWN	None	29872	495	164	42806283	42828368	-1	None	CNAIP
2	None	ENSG00000224661	ENST00000441632	antisense	KNOWN	None	None	None	None	3750175	3751743	-1	None	None
HSCHR6_MHC_SSTO	HLA-DPA1	ENSG00000236177	ENST00000515317	protein_coding	KNOWN	None	4938	783	260	33171992	33188133	-1	HLA-DP1A	None
HSCHR6_MHC_SSTO	HLA-DPA1	ENSG00000236177	ENST00000511285	retained_intron	KNOWN	None	4938	None	None	33172437	33181038	-1	HLA-DP1A	None
HSCHR6_MHC_SSTO	HLA-DPA1	ENSG00000236177	ENST00000453314	protein_coding	KNOWN	None	4938	385	127	33175083	33176671	-1	HLA-DP1A	None
HSCHR6_MHC_SSTO	HLA-DPA1	ENSG00000236177	ENST00000515346	protein_coding	KNOWN	None	4938	636	211	33176121	33181060	-1	HLA-DP1A	None
HSCHR6_MHC_SSTO	HLA-DPA1	ENSG00000236177	ENST00000512750	protein_coding	KNOWN	None	4938	628	208	33176442	33188190	-1	HLA-DP1A	None
HSCHR6_MHC_SSTO	HLA-DPA1	ENSG00000236177	ENST00000514979	processed_transcript	KNOWN	None	4938	None	None	33176527	33188178	-1	HLA-DP1A	None
HSCHR6_MHC_SSTO	HLA-DPA1	ENSG00000236177	ENST00000502285	processed_transcript	KNOWN	None	4938	None	None	33176585	33181056	-1	HLA-DP1A	None
HSCHR6_MHC_SSTO	HLA-DPA1	ENSG00000236177	ENST00000448154	protein_coding	KNOWN	None	4938	69	22	33180925	33188198	-1	HLA-DP1A	None
HSCHR6_MHC_SSTO	HLA-DPA1	ENSG00000236177	ENST00000550456	protein_coding	KNOWN	None	4938	783	260	33172440	33181024	-1	HLA-DP1A	None
2	None	ENSG00000227363	ENST00000451101	lincRNA	KNOWN	None	None	None	None	3891774	3895001	1	None	None
6	None	ENSG00000271488	ENST00000604951	processed_pseudogene	KNOWN	None	None	None	None	133085799	133086597	1	None	None
6	SNORD101	ENSG00000206754	ENST00000384027	snoRNA	KNOWN	None	32764	None	None	133136446	133136518	1	None	U101
6	SNORD100	ENSG00000221500	ENST00000408573	snoRNA	KNOWN	None	32763	None	None	133137941	133138016	1	None	HBII-429
6	SNORA33	ENSG00000200534	ENST00000363664	snoRNA	KNOWN	None	32623	None	None	133138358	133138487	1	None	ACA33
4	None	ENSG00000249686	ENST00000510750	unprocessed_pseudogene	KNOWN	None	None	None	None	70315732	70317331	1	None	None
16	GAS8	ENSG00000141013	ENST00000563980	processed_transcript	KNOWN	None	4166	None	None	90086037	90097660	1	GAS11	None
16	GAS8	ENSG00000141013	ENST00000565957	processed_transcript	KNOWN	None	4166	None	None	90086045	90097814	1	GAS11	None
16	GAS8	ENSG00000141013	ENST00000563936	protein_coding	PUTATIVE	None	4166	352	116	90086051	90099264	1	GAS11	None
16	GAS8	ENSG00000141013	ENST00000568705	processed_transcript	KNOWN	None	4166	None	None	90086101	90099300	1	GAS11	None
16	GAS8	ENSG00000141013	ENST00000568664	processed_transcript	KNOWN	None	4166	None	None	90086138	90097907	1	GAS11	None
16	GAS8	ENSG00000141013	ENST00000561675	protein_coding	PUTATIVE	None	4166	180	59	90086139	90099266	1	GAS11	None
16	GAS8	ENSG00000141013	ENST00000564392	protein_coding	PUTATIVE	None	4166	286	94	90088494	90099198	1	GAS11	None
16	GAS8	ENSG00000141013	ENST00000268699	protein_coding	KNOWN	CCDS10992	4166	1437	478	90089008	90111379	1	GAS11	None
16	GAS8	ENSG00000141013	ENST00000565062	nonsense_mediated_decay	KNOWN	None	4166	336	111	90089061	90103454	1	GAS11	None
16	GAS8	ENSG00000141013	ENST00000540721	processed_transcript	KNOWN	None	4166	None	None	90089072	90108836	1	GAS11	None
16	GAS8	ENSG00000141013	ENST00000564853	retained_intron	KNOWN	None	4166	None	None	90089078	90094404	1	GAS11	None
16	GAS8	ENSG00000141013	ENST00000537797	retained_intron	KNOWN	None	4166	None	None	90089091	90103334	1	GAS11	None
16	GAS8	ENSG00000141013	ENST00000566266	nonsense_mediated_decay	KNOWN	None	4166	108	35	90089091	90111383	1	GAS11	None
16	GAS8	ENSG00000141013	ENST00000569558	retained_intron	KNOWN	None	4166	None	None	90095949	90111369	1	GAS11	None
16	GAS8	ENSG00000141013	ENST00000564802	processed_transcript	KNOWN	None	4166	None	None	90102140	90103755	1	GAS11	None
16	GAS8	ENSG00000141013	ENST00000565000	retained_intron	KNOWN	None	4166	None	None	90102189	90103174	1	GAS11	None
16	GAS8	ENSG00000141013	ENST00000569399	retained_intron	KNOWN	None	4166	None	None	90102604	90106917	1	GAS11	None
16	GAS8	ENSG00000141013	ENST00000564789	retained_intron	KNOWN	None	4166	None	None	90106451	90109880	1	GAS11	None
16	GAS8	ENSG00000141013	ENST00000568284	retained_intron	KNOWN	None	4166	None	None	90108785	90109880	1	GAS11	None
16	GAS8	ENSG00000141013	ENST00000536122	protein_coding	KNOWN	None	4166	1362	453	90086069	90109880	1	GAS11	None
16	CRNDE	ENSG00000245694	ENST00000501177	lincRNA	KNOWN	None	37078	None	None	54952775	54962463	-1	None	LOC643911, LINC00180
16	CRNDE	ENSG00000245694	ENST00000559598	lincRNA	KNOWN	None	37078	None	None	54952776	54962463	-1	None	LOC643911, LINC00180
16	CRNDE	ENSG00000245694	ENST00000560029	lincRNA	KNOWN	None	37078	None	None	54952782	54954528	-1	None	LOC643911, LINC00180
16	CRNDE	ENSG00000245694	ENST00000502066	lincRNA	KNOWN	None	37078	None	None	54952782	54962708	-1	None	LOC643911, LINC00180
16	CRNDE	ENSG00000245694	ENST00000558031	lincRNA	KNOWN	None	37078	None	None	54952966	54957691	-1	None	LOC643911, LINC00180
16	CRNDE	ENSG00000245694	ENST00000559432	lincRNA	KNOWN	None	37078	None	None	54952978	54962628	-1	None	LOC643911, LINC00180
16	CRNDE	ENSG00000245694	ENST00000560912	lincRNA	KNOWN	None	37078	None	None	54953085	54962724	-1	None	LOC643911, LINC00180
16	CRNDE	ENSG00000245694	ENST00000558952	lincRNA	KNOWN	None	37078	None	None	54957193	54962798	-1	None	LOC643911, LINC00180
16	CRNDE	ENSG00000245694	ENST00000560208	lincRNA	KNOWN	None	37078	None	None	54958771	54963061	-1	None	LOC643911, LINC00180
16	CRNDE	ENSG00000245694	ENST00000557792	lincRNA	KNOWN	None	37078	None	None	54959065	54963101	-1	None	LOC643911, LINC00180
10	RPP38	ENSG00000152464	ENST00000378203	protein_coding	KNOWN	CCDS7108	30329	852	283	15139179	15146250	1	None	None
10	RPP38	ENSG00000152464	ENST00000378201	protein_coding	PUTATIVE	None	30329	438	145	15139214	15148129	1	None	None
10	RPP38	ENSG00000152464	ENST00000451677	processed_transcript	KNOWN	None	30329	None	None	15139236	15181817	1	None	None
10	RPP38	ENSG00000152464	ENST00000378202	protein_coding	KNOWN	CCDS7108	30329	852	283	15139330	15146254	1	None	None
10	RPP38	ENSG00000152464	ENST00000378197	protein_coding	KNOWN	CCDS7108	30329	852	283	15139381	15146256	1	None	None
10	RPP38	ENSG00000152464	ENST00000441850	protein_coding	KNOWN	None	30329	506	167	15139419	15145819	1	None	None
6	HMGB1P13	ENSG00000220557	ENST00000406019	processed_pseudogene	KNOWN	None	13318	None	None	133189357	133189998	-1	HMGB1L13	None
2	None	ENSG00000237401	ENST00000454455	lincRNA	KNOWN	None	None	None	None	4005245	4021660	-1	None	None
2	None	ENSG00000237401	ENST00000592948	lincRNA	KNOWN	None	None	None	None	4005690	4007887	-1	None	None
2	None	ENSG00000237401	ENST00000586530	lincRNA	KNOWN	None	None	None	None	4005926	4007882	-1	None	None
2	None	ENSG00000237401	ENST00000590981	lincRNA	KNOWN	None	None	None	None	4006154	4007887	-1	None	None
2	None	ENSG00000237401	ENST00000591066	lincRNA	KNOWN	None	None	None	None	4006313	4007887	-1	None	None
2	None	ENSG00000237401	ENST00000588264	lincRNA	KNOWN	None	None	None	None	4006857	4007887	-1	None	None
2	None	ENSG00000237401	ENST00000425949	lincRNA	KNOWN	None	None	None	None	4007241	4021609	-1	None	None
2	None	ENSG00000237401	ENST00000588796	lincRNA	KNOWN	None	None	None	None	4007684	4021626	-1	None	None
2	None	ENSG00000237401	ENST00000453880	lincRNA	KNOWN	None	None	None	None	4007852	4021617	-1	None	None
2	None	ENSG00000237401	ENST00000431730	lincRNA	KNOWN	None	None	None	None	4020435	4021285	-1	None	None
2	None	ENSG00000237401	ENST00000457371	lincRNA	KNOWN	None	None	None	None	4020436	4021268	-1	None	None
11	OSBPL5	ENSG00000021762	ENST00000478260	protein_coding	PUTATIVE	None	16392	1002	333	3108346	3116109	-1	None	KIAA1534, ORP5
11	OSBPL5	ENSG00000021762	ENST00000263650	protein_coding	KNOWN	CCDS31344	16392	2640	879	3108346	3186584	-1	None	KIAA1534, ORP5
11	OSBPL5	ENSG00000021762	ENST00000389989	protein_coding	KNOWN	CCDS31343	16392	2436	811	3108351	3186530	-1	None	KIAA1534, ORP5
11	OSBPL5	ENSG00000021762	ENST00000534454	protein_coding	NOVEL	None	16392	1299	432	3108609	3123496	-1	None	KIAA1534, ORP5
11	OSBPL5	ENSG00000021762	ENST00000498536	retained_intron	KNOWN	None	16392	None	None	3108810	3111952	-1	None	KIAA1534, ORP5
11	OSBPL5	ENSG00000021762	ENST00000525498	protein_coding	PUTATIVE	None	16392	2373	790	3109136	3147838	-1	None	KIAA1534, ORP5
11	OSBPL5	ENSG00000021762	ENST00000471998	nonsense_mediated_decay	KNOWN	None	16392	348	115	3109146	3186530	-1	None	KIAA1534, ORP5
11	OSBPL5	ENSG00000021762	ENST00000348039	protein_coding	KNOWN	CCDS31343	16392	2436	811	3109231	3186582	-1	None	KIAA1534, ORP5
11	OSBPL5	ENSG00000021762	ENST00000534491	retained_intron	KNOWN	None	16392	None	None	3114615	3187969	-1	None	KIAA1534, ORP5
11	OSBPL5	ENSG00000021762	ENST00000532951	retained_intron	KNOWN	None	16392	None	None	3129020	3141217	-1	None	KIAA1534, ORP5
11	OSBPL5	ENSG00000021762	ENST00000459995	retained_intron	KNOWN	None	16392	None	None	3140777	3147824	-1	None	KIAA1534, ORP5
11	OSBPL5	ENSG00000021762	ENST00000533234	protein_coding	KNOWN	None	16392	419	138	3141838	3186566	-1	None	KIAA1534, ORP5
11	OSBPL5	ENSG00000021762	ENST00000465323	retained_intron	KNOWN	None	16392	None	None	3143034	3186503	-1	None	KIAA1534, ORP5
11	OSBPL5	ENSG00000021762	ENST00000477622	retained_intron	KNOWN	None	16392	None	None	3143036	3147874	-1	None	KIAA1534, ORP5
11	OSBPL5	ENSG00000021762	ENST00000526122	protein_coding	KNOWN	None	16392	373	123	3143256	3150559	-1	None	KIAA1534, ORP5
11	OSBPL5	ENSG00000021762	ENST00000530372	protein_coding	KNOWN	None	16392	294	97	3143584	3187000	-1	None	KIAA1534, ORP5
11	OSBPL5	ENSG00000021762	ENST00000533721	protein_coding	KNOWN	None	16392	269	88	3143609	3185653	-1	None	KIAA1534, ORP5
11	OSBPL5	ENSG00000021762	ENST00000534157	protein_coding	KNOWN	None	16392	209	68	3147713	3182623	-1	None	KIAA1534, ORP5
11	OSBPL5	ENSG00000021762	ENST00000528124	processed_transcript	PUTATIVE	None	16392	None	None	3167410	3186530	-1	None	KIAA1534, ORP5
11	OSBPL5	ENSG00000021762	ENST00000542243	protein_coding	KNOWN	None	16392	1533	510	3109146	3186530	-1	None	KIAA1534, ORP5
5	ITGA1	ENSG00000213949	ENST00000282588	protein_coding	KNOWN	CCDS3955	6134	3540	1179	52083730	52255040	1	None	VLA1, CD49a
5	ITGA1	ENSG00000213949	ENST00000504086	processed_transcript	KNOWN	None	6134	None	None	52083781	52121044	1	None	VLA1, CD49a
5	ITGA1	ENSG00000213949	ENST00000514262	processed_transcript	KNOWN	None	6134	None	None	52159807	52163052	1	None	VLA1, CD49a
5	ITGA1	ENSG00000213949	ENST00000513737	processed_transcript	KNOWN	None	6134	None	None	52159807	52183723	1	None	VLA1, CD49a
5	ITGA1	ENSG00000213949	ENST00000509049	processed_transcript	KNOWN	None	6134	None	None	52160805	52178759	1	None	VLA1, CD49a
5	ITGA1	ENSG00000213949	ENST00000504669	retained_intron	KNOWN	None	6134	None	None	52197609	52248342	1	None	VLA1, CD49a
5	ITGA1	ENSG00000213949	ENST00000506275	retained_intron	KNOWN	None	6134	None	None	52226982	52252321	1	None	VLA1, CD49a
4	None	ENSG00000264696	ENST00000583573	miRNA	NOVEL	None	None	None	None	70345049	70345152	1	None	None
9	None	ENSG00000230003	ENST00000431784	processed_pseudogene	KNOWN	None	None	None	None	75060670	75060885	-1	None	None
16	CA7	ENSG00000168748	ENST00000338437	protein_coding	KNOWN	CCDS10821	1381	795	264	66878282	66888052	1	None	None
16	CA7	ENSG00000168748	ENST00000548332	nonsense_mediated_decay	KNOWN	None	1381	135	44	66878835	66887623	1	None	None
16	CA7	ENSG00000168748	ENST00000394069	protein_coding	NOVEL	CCDS42173	1381	627	208	66878835	66888056	1	None	None
11	SSU72P5	ENSG00000237565	ENST00000532495	processed_pseudogene	KNOWN	None	43624	None	None	4254516	4255099	1	None	None
4	UGT2A3P7	ENSG00000248886	ENST00000510485	unprocessed_pseudogene	KNOWN	None	39429	None	None	70383385	70384118	-1	None	None
9	None	ENSG00000225947	ENST00000415024	processed_pseudogene	KNOWN	None	None	None	None	75085290	75085992	1	None	None
4	None	ENSG00000251177	ENST00000506662	unprocessed_pseudogene	KNOWN	None	None	None	None	70438109	70451245	-1	None	None
9	None	ENSG00000238402	ENST00000459030	snoRNA	NOVEL	None	None	None	None	75142152	75142255	1	None	None
7	None	ENSG00000243574	ENST00000467017	lincRNA	KNOWN	None	None	None	None	123914733	123927598	-1	None	None
9	RPS20P24	ENSG00000236862	ENST00000457473	processed_pseudogene	KNOWN	None	36283	None	None	75270748	75271108	-1	None	None
6	DHX16	ENSG00000204560	ENST00000376437	protein_coding	KNOWN	None	2739	1683	560	30620896	30629760	-1	DDX16	DBP2, Prp2, PRPF2
6	DHX16	ENSG00000204560	ENST00000376442	protein_coding	KNOWN	CCDS4685	2739	3126	1041	30620896	30640814	-1	DDX16	DBP2, Prp2, PRPF2
6	DHX16	ENSG00000204560	ENST00000480966	processed_transcript	KNOWN	None	2739	None	None	30627250	30628354	-1	DDX16	DBP2, Prp2, PRPF2
6	DHX16	ENSG00000204560	ENST00000415603	protein_coding	KNOWN	None	2739	886	294	30632907	30640765	-1	DDX16	DBP2, Prp2, PRPF2
7	None	ENSG00000241324	ENST00000470677	lincRNA	KNOWN	None	None	None	None	123977434	123989914	-1	None	None
9	None	ENSG00000229753	ENST00000447672	processed_pseudogene	KNOWN	None	None	None	None	75356068	75356533	-1	None	None
7	HOXA5	ENSG00000106004	ENST00000222726	protein_coding	KNOWN	CCDS5406	5106	813	270	27180671	27183287	-1	HOX1C, HOX1	None
7	HOXA5	ENSG00000106004	ENST00000520854	processed_transcript	KNOWN	None	5106	None	None	27181426	27182394	-1	HOX1C, HOX1	None
11	SSU72P2	ENSG00000255194	ENST00000524542	processed_pseudogene	KNOWN	None	43621	None	None	4263292	4263871	-1	None	None
11	SSU72P2	ENSG00000255194	ENST00000537115	processed_pseudogene	KNOWN	None	43621	None	None	4263286	4263870	-1	None	None
17	COPZ2	ENSG00000005243	ENST00000580409	retained_intron	KNOWN	None	19356	None	None	46103533	46106791	-1	None	MGC23008
17	COPZ2	ENSG00000005243	ENST00000583414	nonsense_mediated_decay	KNOWN	None	19356	138	45	46103533	46110618	-1	None	MGC23008
17	COPZ2	ENSG00000005243	ENST00000581637	nonsense_mediated_decay	KNOWN	None	19356	169	55	46103533	46114268	-1	None	MGC23008
17	COPZ2	ENSG00000005243	ENST00000581756	protein_coding	NOVEL	None	19356	425	140	46103533	46114272	-1	None	MGC23008
17	COPZ2	ENSG00000005243	ENST00000585182	retained_intron	KNOWN	None	19356	None	None	46103537	46105926	-1	None	MGC23008
17	COPZ2	ENSG00000005243	ENST00000584666	processed_transcript	KNOWN	None	19356	None	None	46103537	46115144	-1	None	MGC23008
17	COPZ2	ENSG00000005243	ENST00000584955	nonsense_mediated_decay	KNOWN	None	19356	351	116	46103540	46110648	-1	None	MGC23008
17	COPZ2	ENSG00000005243	ENST00000582553	processed_transcript	KNOWN	None	19356	None	None	46103548	46115135	-1	None	MGC23008
17	COPZ2	ENSG00000005243	ENST00000579263	protein_coding	PUTATIVE	None	19356	240	79	46109012	46111238	-1	None	MGC23008
17	COPZ2	ENSG00000005243	ENST00000580174	protein_coding	PUTATIVE	None	19356	29	8	46111258	46115392	-1	None	MGC23008
17	COPZ2	ENSG00000005243	ENST00000006101	protein_coding	KNOWN	None	19356	627	208	46103535	46115139	-1	None	MGC23008
X	NAA10	ENSG00000102030	ENST00000464845	protein_coding	KNOWN	CCDS14737	18704	708	235	153194695	153200676	-1	ARD1, ARD1A	DXS707, TE2
X	NAA10	ENSG00000102030	ENST00000482485	retained_intron	KNOWN	None	18704	None	None	153195280	153196893	-1	ARD1, ARD1A	DXS707, TE2
X	NAA10	ENSG00000102030	ENST00000370015	protein_coding	PUTATIVE	None	18704	510	169	153195367	153200494	-1	ARD1, ARD1A	DXS707, TE2
X	NAA10	ENSG00000102030	ENST00000393712	protein_coding	PUTATIVE	None	18704	555	184	153195374	153200411	-1	ARD1, ARD1A	DXS707, TE2
X	NAA10	ENSG00000102030	ENST00000370009	protein_coding	NOVEL	CCDS59179	18704	663	220	153195377	153200468	-1	ARD1, ARD1A	DXS707, TE2
X	NAA10	ENSG00000102030	ENST00000466877	retained_intron	KNOWN	None	18704	None	None	153195379	153200468	-1	ARD1, ARD1A	DXS707, TE2
X	NAA10	ENSG00000102030	ENST00000484950	retained_intron	KNOWN	None	18704	None	None	153195494	153198435	-1	ARD1, ARD1A	DXS707, TE2
X	NAA10	ENSG00000102030	ENST00000460996	retained_intron	KNOWN	None	18704	None	None	153195529	153200238	-1	ARD1, ARD1A	DXS707, TE2
X	NAA10	ENSG00000102030	ENST00000370011	protein_coding	NOVEL	None	18704	427	141	153195658	153200468	-1	ARD1, ARD1A	DXS707, TE2
X	NAA10	ENSG00000102030	ENST00000467451	retained_intron	KNOWN	None	18704	None	None	153195746	153197711	-1	ARD1, ARD1A	DXS707, TE2
X	NAA10	ENSG00000102030	ENST00000432089	protein_coding	NOVEL	None	18704	437	144	153196232	153200519	-1	ARD1, ARD1A	DXS707, TE2
X	NAA10	ENSG00000102030	ENST00000477750	retained_intron	KNOWN	None	18704	None	None	153197224	153200533	-1	ARD1, ARD1A	DXS707, TE2
X	NAA10	ENSG00000102030	ENST00000393710	processed_transcript	KNOWN	None	18704	None	None	153197407	153200468	-1	ARD1, ARD1A	DXS707, TE2
X	NAA10	ENSG00000102030	ENST00000477882	retained_intron	KNOWN	None	18704	None	None	153197520	153198435	-1	ARD1, ARD1A	DXS707, TE2
X	NAA10	ENSG00000102030	ENST00000478177	retained_intron	KNOWN	None	18704	None	None	153199113	153200468	-1	ARD1, ARD1A	DXS707, TE2
X	NAA10	ENSG00000102030	ENST00000488481	retained_intron	KNOWN	None	18704	None	None	153199483	153200459	-1	ARD1, ARD1A	DXS707, TE2
7	SSU72P8	ENSG00000230268	ENST00000473520	processed_pseudogene	KNOWN	None	43627	None	None	124116425	124117009	1	None	None
7	None	ENSG00000239069	ENST00000459002	misc_RNA	NOVEL	None	None	None	None	74311936	74312037	1	None	None
13	LHFP	ENSG00000183722	ENST00000379589	protein_coding	KNOWN	CCDS9369	6586	603	200	39917029	40177308	-1	None	MGC22429
13	LHFP	ENSG00000183722	ENST00000495922	processed_transcript	KNOWN	None	6586	None	None	40175450	40177665	-1	None	MGC22429
9	None	ENSG00000236849	ENST00000423171	lincRNA	KNOWN	None	None	None	None	75486644	75488984	-1	None	None
9	None	ENSG00000236849	ENST00000449235	lincRNA	KNOWN	None	None	None	None	75486644	75489014	-1	None	None
9	None	ENSG00000236849	ENST00000453787	lincRNA	KNOWN	None	None	None	None	75486644	75489025	-1	None	None
6	FKBPL	ENSG00000204315	ENST00000375156	protein_coding	KNOWN	CCDS4738	13949	1050	349	32096484	32098068	-1	None	DIR1, NG7
11	SSU72P6	ENSG00000236175	ENST00000532644	processed_pseudogene	KNOWN	None	43625	None	None	4299935	4300422	1	None	None
7	None	ENSG00000184616	ENST00000424157	unprocessed_pseudogene	KNOWN	None	None	None	None	74322778	74329363	-1	None	None
7	None	ENSG00000184616	ENST00000333385	unprocessed_pseudogene	KNOWN	None	None	None	None	74320406	74331163	-1	None	None
19	KCNA7	ENSG00000104848	ENST00000221444	protein_coding	KNOWN	CCDS12755	6226	1371	456	49570675	49576198	-1	None	Kv1.7, HAK6
3	ANKUB1	ENSG00000206199	ENST00000484019	nonsense_mediated_decay	KNOWN	None	29642	120	39	149479226	149510610	-1	C3orf16	None
3	ANKUB1	ENSG00000206199	ENST00000462519	protein_coding	NOVEL	None	29642	1509	502	149484415	149510553	-1	C3orf16	None
3	ANKUB1	ENSG00000206199	ENST00000474404	retained_intron	KNOWN	None	29642	None	None	149496141	149508714	-1	C3orf16	None
3	ANKUB1	ENSG00000206199	ENST00000474224	processed_transcript	PUTATIVE	None	29642	None	None	149496298	149498227	-1	C3orf16	None
3	ANKUB1	ENSG00000206199	ENST00000462561	processed_transcript	PUTATIVE	None	29642	None	None	149497918	149501058	-1	C3orf16	None
3	ANKUB1	ENSG00000206199	ENST00000481585	processed_transcript	KNOWN	None	29642	None	None	149498063	149686172	-1	C3orf16	None
3	ANKUB1	ENSG00000206199	ENST00000497728	processed_transcript	PUTATIVE	None	29642	None	None	149501161	149510109	-1	C3orf16	None
3	ANKUB1	ENSG00000206199	ENST00000473672	processed_transcript	PUTATIVE	None	29642	None	None	149563574	149569444	-1	C3orf16	None
3	ANKUB1	ENSG00000206199	ENST00000446160	protein_coding	KNOWN	None	29642	1635	544	149478892	149510610	-1	C3orf16	None
3	ANKUB1	ENSG00000206199	ENST00000383050	protein_coding	KNOWN	None	29642	1275	424	149481732	149510610	-1	C3orf16	None
7	None	ENSG00000213296	ENST00000393351	processed_pseudogene	KNOWN	None	None	None	None	124120578	124121449	1	None	None
1	CATSPER4	ENSG00000188782	ENST00000338855	protein_coding	PUTATIVE	None	23220	1449	482	26517052	26528094	1	None	None
1	CATSPER4	ENSG00000188782	ENST00000456354	protein_coding	KNOWN	CCDS30645	23220	1419	472	26517052	26529459	1	None	None
1	CATSPER4	ENSG00000188782	ENST00000518899	nonsense_mediated_decay	KNOWN	None	23220	1155	384	26517119	26529459	1	None	None
6	None	ENSG00000218716	ENST00000405880	processed_pseudogene	KNOWN	None	None	None	None	170514993	170515482	1	None	None
X	CT47A3	ENSG00000236126	ENST00000441330	protein_coding	KNOWN	CCDS35389	33284	867	288	120106606	120109918	-1	None	CT47.3
6	RHAG	ENSG00000112077	ENST00000371175	protein_coding	KNOWN	CCDS4927	10006	1230	409	49572871	49604552	-1	None	RH50A, CD241, SLC42A1
6	RHAG	ENSG00000112077	ENST00000229810	protein_coding	KNOWN	None	10006	1056	351	49573436	49604552	-1	None	RH50A, CD241, SLC42A1
6	None	ENSG00000230960	ENST00000452071	antisense	KNOWN	None	None	None	None	170563422	170571657	-1	None	None
2	RN7SL531P	ENSG00000264071	ENST00000578464	misc_RNA	KNOWN	None	46547	None	None	4077271	4077549	1	None	None
11	SSU72P4	ENSG00000186223	ENST00000530088	processed_pseudogene	KNOWN	None	43623	None	None	4308732	4309313	-1	None	None
6	SDIM1	ENSG00000256391	ENST00000545867	protein_coding	KNOWN	None	38749	441	146	166307330	166309725	-1	None	None
2	None	ENSG00000229550	ENST00000442831	lincRNA	KNOWN	None	None	None	None	4184234	4188321	-1	None	None
14	SDR39U1	ENSG00000100445	ENST00000544691	retained_intron	KNOWN	None	20275	None	None	24908972	24911982	-1	C14orf124	HCDI
14	SDR39U1	ENSG00000100445	ENST00000399395	protein_coding	KNOWN	CCDS45091	20275	882	293	24908972	24912009	-1	C14orf124	HCDI
14	SDR39U1	ENSG00000100445	ENST00000556548	retained_intron	KNOWN	None	20275	None	None	24908974	24911982	-1	C14orf124	HCDI
14	SDR39U1	ENSG00000100445	ENST00000553930	protein_coding	PUTATIVE	None	20275	507	168	24908985	24912064	-1	C14orf124	HCDI
14	SDR39U1	ENSG00000100445	ENST00000556262	retained_intron	KNOWN	None	20275	None	None	24908986	24911982	-1	C14orf124	HCDI
14	SDR39U1	ENSG00000100445	ENST00000538105	protein_coding	PUTATIVE	None	20275	636	211	24908988	24911654	-1	C14orf124	HCDI
14	SDR39U1	ENSG00000100445	ENST00000554698	protein_coding	PUTATIVE	None	20275	558	185	24908991	24911900	-1	C14orf124	HCDI
14	SDR39U1	ENSG00000100445	ENST00000556707	retained_intron	KNOWN	None	20275	None	None	24909003	24911659	-1	C14orf124	HCDI
14	SDR39U1	ENSG00000100445	ENST00000555365	protein_coding	PUTATIVE	None	20275	381	126	24909108	24911971	-1	C14orf124	HCDI
14	SDR39U1	ENSG00000100445	ENST00000553546	retained_intron	KNOWN	None	20275	None	None	24909245	24910182	-1	C14orf124	HCDI
14	SDR39U1	ENSG00000100445	ENST00000555561	processed_transcript	PUTATIVE	None	20275	None	None	24909307	24910132	-1	C14orf124	HCDI
14	SDR39U1	ENSG00000100445	ENST00000553343	protein_coding	PUTATIVE	None	20275	509	168	24909344	24911581	-1	C14orf124	HCDI
14	SDR39U1	ENSG00000100445	ENST00000554947	retained_intron	KNOWN	None	20275	None	None	24909344	24911965	-1	C14orf124	HCDI
14	SDR39U1	ENSG00000100445	ENST00000556249	protein_coding	NOVEL	None	20275	556	184	24909383	24911647	-1	C14orf124	HCDI
14	SDR39U1	ENSG00000100445	ENST00000555225	protein_coding	PUTATIVE	None	20275	287	94	24909383	24911659	-1	C14orf124	HCDI
14	SDR39U1	ENSG00000100445	ENST00000555355	protein_coding	PUTATIVE	None	20275	386	127	24909410	24911472	-1	C14orf124	HCDI
14	SDR39U1	ENSG00000100445	ENST00000556523	protein_coding	PUTATIVE	None	20275	200	65	24909470	24911643	-1	C14orf124	HCDI
14	SDR39U1	ENSG00000100445	ENST00000555830	processed_transcript	KNOWN	None	20275	None	None	24909992	24912110	-1	C14orf124	HCDI
14	SDR39U1	ENSG00000100445	ENST00000556175	retained_intron	KNOWN	None	20275	None	None	24910060	24911883	-1	C14orf124	HCDI
14	SDR39U1	ENSG00000100445	ENST00000555778	retained_intron	KNOWN	None	20275	None	None	24910498	24911487	-1	C14orf124	HCDI
14	SDR39U1	ENSG00000100445	ENST00000553937	retained_intron	KNOWN	None	20275	None	None	24911530	24912111	-1	C14orf124	HCDI
14	SDR39U1	ENSG00000100445	ENST00000399390	protein_coding	KNOWN	None	20275	597	198	24908974	24910257	-1	C14orf124	HCDI
16	None	ENSG00000259711	ENST00000560487	lincRNA	KNOWN	None	None	None	None	54968825	54988577	1	None	None
6	None	ENSG00000271820	ENST00000607733	lincRNA	KNOWN	None	None	None	None	170575757	170585850	-1	None	None
22	RRP7A	ENSG00000189306	ENST00000323013	protein_coding	KNOWN	CCDS14036	24286	843	280	42905974	42915808	-1	None	CGI-96
22	RRP7A	ENSG00000189306	ENST00000416699	nonsense_mediated_decay	KNOWN	None	24286	162	53	42910683	42915800	-1	None	CGI-96
22	RRP7A	ENSG00000189306	ENST00000483303	retained_intron	KNOWN	None	24286	None	None	42911207	42915802	-1	None	CGI-96
11	SSU72P3	ENSG00000186232	ENST00000531780	processed_pseudogene	KNOWN	None	43622	None	None	4351095	4351676	1	None	None
11	SSU72P3	ENSG00000186232	ENST00000334468	processed_pseudogene	KNOWN	None	43622	None	None	4351095	4351679	1	None	None
2	POTEI	ENSG00000196834	ENST00000451531	protein_coding	NOVEL	CCDS59431	37093	3228	1075	131217028	131267239	-1	None	POTE2beta
2	None	ENSG00000215960	ENST00000401141	miRNA	NOVEL	None	None	None	None	4276018	4276108	-1	None	None
4	SULT1D1P	ENSG00000236959	ENST00000458020	unitary_pseudogene	KNOWN	None	30659	None	None	70657590	70679606	-1	None	SULT1D1
2	NPM1P48	ENSG00000231821	ENST00000436002	processed_pseudogene	KNOWN	None	45227	None	None	4561794	4562646	-1	None	None
6	None	ENSG00000227508	ENST00000607074	lincRNA	KNOWN	None	None	None	None	170581562	170588975	1	None	None
6	None	ENSG00000227508	ENST00000422894	lincRNA	KNOWN	None	None	None	None	170584462	170588557	1	None	None
6	None	ENSG00000227508	ENST00000438622	lincRNA	KNOWN	None	None	None	None	170586027	170588557	1	None	None
17	RNMTL1	ENSG00000171861	ENST00000304478	protein_coding	KNOWN	CCDS10997	18485	1263	420	685513	695749	1	None	FLJ10581, HC90
17	RNMTL1	ENSG00000171861	ENST00000574916	retained_intron	KNOWN	None	18485	None	None	685598	686757	1	None	FLJ10581, HC90
17	RNMTL1	ENSG00000171861	ENST00000574509	nonsense_mediated_decay	KNOWN	None	18485	333	110	685607	695006	1	None	FLJ10581, HC90
17	RNMTL1	ENSG00000171861	ENST00000571157	protein_coding	PUTATIVE	None	18485	532	176	685840	691438	1	None	FLJ10581, HC90
7	RNU6-102P	ENSG00000207214	ENST00000384485	snRNA	KNOWN	None	47065	None	None	124287773	124287876	1	None	None
2	None	ENSG00000231532	ENST00000412134	lincRNA	KNOWN	None	None	None	None	4675812	4703805	-1	None	None
2	None	ENSG00000231532	ENST00000432314	lincRNA	KNOWN	None	None	None	None	4677790	4690945	-1	None	None
2	None	ENSG00000231532	ENST00000421212	lincRNA	KNOWN	None	None	None	None	4677790	4703793	-1	None	None
9	None	ENSG00000229297	ENST00000430534	lincRNA	KNOWN	None	None	None	None	109346423	109354233	-1	None	None
7	None	ENSG00000224897	ENST00000429134	processed_transcript	KNOWN	None	None	None	None	124569927	124765961	1	None	None
7	None	ENSG00000224897	ENST00000435452	processed_transcript	KNOWN	None	None	None	None	124569952	124819369	1	None	None
7	None	ENSG00000224897	ENST00000449642	processed_transcript	KNOWN	None	None	None	None	124569969	124785288	1	None	None
7	None	ENSG00000224897	ENST00000453342	processed_transcript	KNOWN	None	None	None	None	124569975	124784620	1	None	None
7	None	ENSG00000224897	ENST00000415715	processed_transcript	KNOWN	None	None	None	None	124633062	124742104	1	None	None
9	None	ENSG00000237062	ENST00000446206	lincRNA	KNOWN	None	None	None	None	109377359	109378087	-1	None	None
17	NSF	ENSG00000073969	ENST00000398238	protein_coding	KNOWN	CCDS42354	8016	2235	744	44668035	44834830	1	None	SKD2
17	NSF	ENSG00000073969	ENST00000571864	nonsense_mediated_decay	KNOWN	None	8016	246	81	44668121	44718062	1	None	SKD2
17	NSF	ENSG00000073969	ENST00000486366	retained_intron	KNOWN	None	8016	None	None	44668126	44708009	1	None	SKD2
17	NSF	ENSG00000073969	ENST00000576040	protein_coding	PUTATIVE	None	8016	134	43	44668387	44704029	1	None	SKD2
17	NSF	ENSG00000073969	ENST00000571172	protein_coding	PUTATIVE	None	8016	484	160	44679808	44717513	1	None	SKD2
17	NSF	ENSG00000073969	ENST00000575068	protein_coding	PUTATIVE	None	8016	2220	739	44701402	44833425	1	None	SKD2
17	NSF	ENSG00000073969	ENST00000576346	protein_coding	PUTATIVE	None	8016	408	135	44790515	44828949	1	None	SKD2
17	NSF	ENSG00000073969	ENST00000465370	protein_coding	PUTATIVE	None	8016	542	179	44803922	44833203	1	None	SKD2
17	NSF	ENSG00000073969	ENST00000225282	protein_coding	KNOWN	None	8016	1935	644	44668100	44833686	1	None	SKD2
5	MAPK9	ENSG00000050748	ENST00000452135	protein_coding	KNOWN	CCDS4453	6886	1275	424	179660143	179719099	-1	PRKM9	JNK2, p54a, SAPK
5	MAPK9	ENSG00000050748	ENST00000393360	protein_coding	KNOWN	CCDS43409	6886	1149	382	179660594	179719056	-1	PRKM9	JNK2, p54a, SAPK
5	MAPK9	ENSG00000050748	ENST00000455781	protein_coding	KNOWN	CCDS4454	6886	1275	424	179660594	179719071	-1	PRKM9	JNK2, p54a, SAPK
5	MAPK9	ENSG00000050748	ENST00000343111	protein_coding	KNOWN	CCDS43410	6886	1149	382	179660594	179719099	-1	PRKM9	JNK2, p54a, SAPK
5	MAPK9	ENSG00000050748	ENST00000347470	protein_coding	NOVEL	None	6886	1020	339	179663187	179719092	-1	PRKM9	JNK2, p54a, SAPK
5	MAPK9	ENSG00000050748	ENST00000520212	retained_intron	KNOWN	None	6886	None	None	179663526	179669900	-1	PRKM9	JNK2, p54a, SAPK
5	MAPK9	ENSG00000050748	ENST00000393362	nonsense_mediated_decay	KNOWN	None	6886	162	53	179669578	179719037	-1	PRKM9	JNK2, p54a, SAPK
5	MAPK9	ENSG00000050748	ENST00000524170	processed_transcript	KNOWN	None	6886	None	None	179669728	179690089	-1	PRKM9	JNK2, p54a, SAPK
5	MAPK9	ENSG00000050748	ENST00000425491	protein_coding	KNOWN	CCDS47356	6886	729	242	179673028	179718967	-1	PRKM9	JNK2, p54a, SAPK
5	MAPK9	ENSG00000050748	ENST00000523135	processed_transcript	PUTATIVE	None	6886	None	None	179680507	179691842	-1	PRKM9	JNK2, p54a, SAPK
5	MAPK9	ENSG00000050748	ENST00000523583	protein_coding	KNOWN	None	6886	311	102	179691781	179719053	-1	PRKM9	JNK2, p54a, SAPK
5	MAPK9	ENSG00000050748	ENST00000539014	protein_coding	KNOWN	None	6886	645	214	179673545	179707581	-1	PRKM9	JNK2, p54a, SAPK
5	MAPK9	ENSG00000050748	ENST00000397072	protein_coding	KNOWN	None	6886	375	124	179665309	179707581	-1	PRKM9	JNK2, p54a, SAPK
19	None	ENSG00000269026	ENST00000596085	protein_coding	PUTATIVE	None	None	177	58	58193403	58228669	1	None	None
19	None	ENSG00000269026	ENST00000599221	processed_transcript	KNOWN	None	None	None	None	58193413	58258440	1	None	None
19	None	ENSG00000269026	ENST00000594684	protein_coding	PUTATIVE	None	None	445	147	58193413	58264943	1	None	None
15	CHAC1	ENSG00000128965	ENST00000444189	protein_coding	KNOWN	CCDS45233	28680	660	219	41245160	41248020	1	None	MGC4504
15	CHAC1	ENSG00000128965	ENST00000446533	protein_coding	KNOWN	CCDS10070	28680	795	264	41245347	41248710	1	None	MGC4504
15	CHAC1	ENSG00000128965	ENST00000487220	protein_coding	PUTATIVE	None	28680	114	37	41246404	41248365	1	None	MGC4504
8	ATP6V1B2	ENSG00000147416	ENST00000276390	protein_coding	KNOWN	CCDS6014	854	1536	511	20054878	20079212	1	VPP3, ATP6B2	VATB, Vma2, HO57
8	ATP6V1B2	ENSG00000147416	ENST00000523482	retained_intron	KNOWN	None	854	None	None	20054914	20079200	1	VPP3, ATP6B2	VATB, Vma2, HO57
8	ATP6V1B2	ENSG00000147416	ENST00000523478	nonsense_mediated_decay	KNOWN	None	854	201	66	20054915	20068801	1	VPP3, ATP6B2	VATB, Vma2, HO57
8	ATP6V1B2	ENSG00000147416	ENST00000520830	nonsense_mediated_decay	KNOWN	None	854	169	55	20054935	20068765	1	VPP3, ATP6B2	VATB, Vma2, HO57
8	ATP6V1B2	ENSG00000147416	ENST00000519667	protein_coding	PUTATIVE	None	854	598	198	20054950	20068926	1	VPP3, ATP6B2	VATB, Vma2, HO57
8	ATP6V1B2	ENSG00000147416	ENST00000521442	nonsense_mediated_decay	KNOWN	None	854	148	48	20075693	20084330	1	VPP3, ATP6B2	VATB, Vma2, HO57
2	GDF7	ENSG00000143869	ENST00000272224	protein_coding	KNOWN	CCDS1701	4222	1353	450	20866424	20873418	1	None	BMP12
6	T	ENSG00000164458	ENST00000296946	protein_coding	KNOWN	CCDS5290	11515	1308	435	166571144	166582107	-1	None	None
6	T	ENSG00000164458	ENST00000366871	protein_coding	NOVEL	CCDS59045	11515	1134	377	166571144	166582188	-1	None	None
6	T	ENSG00000164458	ENST00000366876	protein_coding	NOVEL	None	11515	1211	402	166571903	166581365	-1	None	None
6	T	ENSG00000164458	ENST00000461348	protein_coding	KNOWN	None	11515	729	242	166578094	166582159	-1	None	None
X	CT47A1	ENSG00000236371	ENST00000433030	protein_coding	KNOWN	CCDS35391	33282	867	288	120116326	120119638	-1	None	CT47.1
X	CT47A1	ENSG00000236371	ENST00000434414	protein_coding	KNOWN	None	33282	867	288	120111460	120119638	-1	None	CT47.1
X	CT47A1	ENSG00000236371	ENST00000371280	protein_coding	KNOWN	CCDS35391	33282	867	288	120117630	120119642	-1	None	CT47.1
6	None	ENSG00000271234	ENST00000603529	lincRNA	KNOWN	None	None	None	None	170606964	170607463	-1	None	None
2	None	ENSG00000252238	ENST00000516429	snoRNA	NOVEL	None	None	None	None	4874591	4874674	-1	None	None
HSCHR6_MHC_MANN	HLA-DRB1	ENSG00000229074	ENST00000437784	protein_coding	KNOWN	None	4948	801	266	32691166	32706780	-1	HLA-DR1B	None
HSCHR6_MHC_MANN	HLA-DRB1	ENSG00000229074	ENST00000433975	protein_coding	KNOWN	None	4948	749	248	32693531	32725266	-1	HLA-DR1B	None
19	RAB3A	ENSG00000105649	ENST00000222256	protein_coding	KNOWN	CCDS12372	9777	663	220	18307594	18314884	-1	None	None
19	RAB3A	ENSG00000105649	ENST00000464076	protein_coding	PUTATIVE	None	9777	378	125	18308113	18314852	-1	None	None
19	RAB3A	ENSG00000105649	ENST00000481914	protein_coding	KNOWN	None	9777	347	114	18311137	18314822	-1	None	None
19	RAB3A	ENSG00000105649	ENST00000515410	retained_intron	KNOWN	None	9777	None	None	18313148	18314845	-1	None	None
2	RNU6-649P	ENSG00000207192	ENST00000384463	snRNA	KNOWN	None	47612	None	None	4992867	4992973	1	None	None
14	None	ENSG00000257341	ENST00000477724	nonsense_mediated_decay	KNOWN	CCDS10004	None	234	77	105953536	105958604	1	None	None
14	None	ENSG00000257341	ENST00000547940	retained_intron	KNOWN	None	None	None	None	105954521	105957996	1	None	None
14	None	ENSG00000257341	ENST00000553228	nonsense_mediated_decay	KNOWN	None	None	148	48	105954549	105957996	1	None	None
14	None	ENSG00000257341	ENST00000547184	nonsense_mediated_decay	KNOWN	None	None	139	45	105954558	105957996	1	None	None
14	None	ENSG00000257341	ENST00000550554	nonsense_mediated_decay	KNOWN	None	None	139	45	105954558	105957996	1	None	None
14	None	ENSG00000257341	ENST00000551180	nonsense_mediated_decay	KNOWN	None	None	139	45	105954558	105957996	1	None	None
6	MIR4644	ENSG00000266245	ENST00000579929	miRNA	KNOWN	None	41687	None	None	170639849	170639932	1	None	hsa-mir-4644
2	None	ENSG00000228585	ENST00000436316	processed_pseudogene	KNOWN	None	None	None	None	5453873	5454267	-1	None	None
6	RPL23AP46	ENSG00000213122	ENST00000438548	processed_pseudogene	KNOWN	None	35894	None	None	133318690	133319179	-1	None	None
11	MRPL11	ENSG00000174547	ENST00000310999	protein_coding	KNOWN	CCDS8139	14042	579	192	66202546	66206319	-1	None	None
11	MRPL11	ENSG00000174547	ENST00000430466	protein_coding	KNOWN	CCDS44655	14042	501	166	66202546	66206319	-1	None	None
11	MRPL11	ENSG00000174547	ENST00000524576	processed_transcript	KNOWN	None	14042	None	None	66202551	66234209	-1	None	None
11	MRPL11	ENSG00000174547	ENST00000528272	protein_coding	NOVEL	None	14042	192	63	66203305	66204693	-1	None	None
11	MRPL11	ENSG00000174547	ENST00000534488	nonsense_mediated_decay	KNOWN	None	14042	228	75	66203309	66206297	-1	None	None
11	MRPL11	ENSG00000174547	ENST00000329819	protein_coding	KNOWN	CCDS8140	14042	546	181	66203309	66206305	-1	None	None
16	KCTD19	ENSG00000168676	ENST00000570049	retained_intron	KNOWN	None	24753	None	None	67323331	67360629	-1	None	FLJ40162
16	KCTD19	ENSG00000168676	ENST00000562841	protein_coding	NOVEL	None	24753	348	115	67323336	67327726	-1	None	FLJ40162
16	KCTD19	ENSG00000168676	ENST00000566392	retained_intron	KNOWN	None	24753	None	None	67323336	67360656	-1	None	FLJ40162
16	KCTD19	ENSG00000168676	ENST00000569333	retained_intron	KNOWN	None	24753	None	None	67323338	67360632	-1	None	FLJ40162
16	KCTD19	ENSG00000168676	ENST00000304372	protein_coding	KNOWN	CCDS42179	24753	2781	926	67323351	67360666	-1	None	FLJ40162
16	KCTD19	ENSG00000168676	ENST00000562860	processed_transcript	KNOWN	None	24753	None	None	67333309	67354693	-1	None	FLJ40162
16	KCTD19	ENSG00000168676	ENST00000568736	retained_intron	KNOWN	None	24753	None	None	67337019	67360663	-1	None	FLJ40162
16	KCTD19	ENSG00000168676	ENST00000562721	nonsense_mediated_decay	KNOWN	None	24753	141	46	67337080	67360617	-1	None	FLJ40162
16	KCTD19	ENSG00000168676	ENST00000567976	protein_coding	PUTATIVE	None	24753	404	133	67338356	67355813	-1	None	FLJ40162
16	KCTD19	ENSG00000168676	ENST00000561625	processed_transcript	KNOWN	None	24753	None	None	67339277	67360642	-1	None	FLJ40162
16	KCTD19	ENSG00000168676	ENST00000566295	protein_coding	PUTATIVE	None	24753	228	75	67354549	67360000	-1	None	FLJ40162
19	None	ENSG00000268948	ENST00000597520	protein_coding	NOVEL	None	None	261	86	58203868	58204128	-1	None	None
2	None	ENSG00000232835	ENST00000425763	lincRNA	KNOWN	None	None	None	None	5689912	5696163	-1	None	None
6	None	ENSG00000261003	ENST00000564198	sense_overlapping	KNOWN	None	None	None	None	170723227	170728413	1	None	None
11	SSU72P7	ENSG00000229542	ENST00000532284	processed_pseudogene	KNOWN	None	43626	None	None	4359893	4360475	-1	None	None
2	None	ENSG00000224128	ENST00000458264	antisense	KNOWN	None	None	None	None	5742637	5831620	-1	None	None
HSCHR6_MHC_MANN	HLA-G	ENSG00000235680	ENST00000422371	protein_coding	KNOWN	None	4964	1032	343	29791677	29795834	1	None	None
HSCHR6_MHC_MANN	HLA-G	ENSG00000235680	ENST00000428952	protein_coding	KNOWN	None	4964	1017	338	29792530	29795834	1	None	None
HSCHR6_MHC_MANN	HLA-G	ENSG00000235680	ENST00000459768	retained_intron	KNOWN	None	4964	None	None	29792554	29795834	1	None	None
HSCHR6_MHC_MANN	HLA-G	ENSG00000235680	ENST00000426863	protein_coding	KNOWN	None	4964	741	246	29792554	29795834	1	None	None
HSCHR6_MHC_MANN	HLA-G	ENSG00000235680	ENST00000467814	nonsense_mediated_decay	KNOWN	None	4964	741	246	29792554	29795834	1	None	None
HSCHR6_MHC_MANN	HLA-G	ENSG00000235680	ENST00000429890	protein_coding	KNOWN	None	4964	465	154	29792554	29795834	1	None	None
HSCHR6_MHC_MANN	HLA-G	ENSG00000235680	ENST00000550897	protein_coding	KNOWN	None	4964	1017	338	29791689	29795831	1	None	None
11	None	ENSG00000255798	ENST00000537079	protein_coding	PUTATIVE	None	None	261	86	102552041	102554644	1	None	None
11	OR52B3P	ENSG00000175800	ENST00000314715	unitary_pseudogene	KNOWN	None	15208	None	None	4399512	4400439	1	None	None
11	OR52B3P	ENSG00000175800	ENST00000539895	pseudogene	KNOWN	None	15208	None	None	4399512	4400457	1	None	None
6	PRRT1	ENSG00000204314	ENST00000467780	processed_transcript	KNOWN	None	13943	None	None	32116136	32117634	-1	C6orf31	NG5, IFITMD7
6	PRRT1	ENSG00000204314	ENST00000495191	retained_intron	KNOWN	None	13943	None	None	32116136	32119700	-1	C6orf31	NG5, IFITMD7
6	PRRT1	ENSG00000204314	ENST00000472641	processed_transcript	KNOWN	None	13943	None	None	32116136	32119714	-1	C6orf31	NG5, IFITMD7
6	PRRT1	ENSG00000204314	ENST00000211413	protein_coding	KNOWN	CCDS4739	13943	921	306	32116136	32119729	-1	C6orf31	NG5, IFITMD7
6	PRRT1	ENSG00000204314	ENST00000375150	protein_coding	KNOWN	None	13943	678	225	32116136	32120860	-1	C6orf31	NG5, IFITMD7
6	PRRT1	ENSG00000204314	ENST00000428778	protein_coding	KNOWN	None	13943	188	61	32118272	32122150	-1	C6orf31	NG5, IFITMD7
6	PRRT1	ENSG00000204314	ENST00000486917	processed_transcript	KNOWN	None	13943	None	None	32119758	32121737	-1	C6orf31	NG5, IFITMD7
6	PRRT1	ENSG00000204314	ENST00000497552	processed_transcript	KNOWN	None	13943	None	None	32120579	32121685	-1	C6orf31	NG5, IFITMD7
6	PRRT1	ENSG00000204314	ENST00000485392	processed_transcript	KNOWN	None	13943	None	None	32120579	32122110	-1	C6orf31	NG5, IFITMD7
6	PRRT1	ENSG00000204314	ENST00000498575	processed_transcript	KNOWN	None	13943	None	None	32120579	32122142	-1	C6orf31	NG5, IFITMD7
6	PRRT1	ENSG00000204314	ENST00000494332	processed_transcript	KNOWN	None	13943	None	None	32121117	32122116	-1	C6orf31	NG5, IFITMD7
6	PRRT1	ENSG00000204314	ENST00000475826	processed_transcript	PUTATIVE	None	13943	None	None	32121162	32122103	-1	C6orf31	NG5, IFITMD7
6	PRRT1	ENSG00000204314	ENST00000375152	protein_coding	KNOWN	None	13943	678	225	32116141	32119879	-1	C6orf31	NG5, IFITMD7
6	MIR30C2	ENSG00000199094	ENST00000362224	miRNA	KNOWN	None	31627	None	None	72086663	72086734	-1	MIRN30C2	hsa-mir-30c-2
2	None	ENSG00000230090	ENST00000453678	antisense	KNOWN	None	None	None	None	5758459	5831250	-1	None	None
2	None	ENSG00000230090	ENST00000420221	antisense	KNOWN	None	None	None	None	5817274	5831178	-1	None	None
6	MIR30A	ENSG00000207827	ENST00000385092	miRNA	KNOWN	None	31624	None	None	72113254	72113324	-1	MIRN30A	hsa-mir-30a
2	CFC1B	ENSG00000152093	ENST00000281882	protein_coding	NOVEL	CCDS33286	33983	672	223	131278770	131285579	1	None	None
4	DCK	ENSG00000156136	ENST00000509617	protein_coding	KNOWN	None	2704	45	14	71858255	71859597	1	None	None
4	DCK	ENSG00000156136	ENST00000286648	protein_coding	KNOWN	CCDS3548	2704	783	260	71859156	71896631	1	None	None
4	DCK	ENSG00000156136	ENST00000503359	nonsense_mediated_decay	KNOWN	None	2704	147	48	71859280	71896631	1	None	None
4	DCK	ENSG00000156136	ENST00000504730	protein_coding	PUTATIVE	None	2704	600	199	71859355	71896631	1	None	None
4	DCK	ENSG00000156136	ENST00000504952	protein_coding	NOVEL	None	2704	954	317	71859355	71896631	1	None	None
4	DCK	ENSG00000156136	ENST00000509764	retained_intron	KNOWN	None	2704	None	None	71891601	71892516	1	None	None
6	LRRC73	ENSG00000204052	ENST00000372441	protein_coding	NOVEL	CCDS34456	21375	951	316	43474707	43478424	-1	C6orf154	dJ337H4.2
6	None	ENSG00000223765	ENST00000431997	lincRNA	KNOWN	None	None	None	None	72160537	72168577	1	None	None
6	None	ENSG00000212099	ENST00000390810	miRNA	NOVEL	None	None	None	None	72248587	72248679	-1	None	None
2	None	ENSG00000242540	ENST00000455579	3prime_overlapping_ncrna	KNOWN	None	None	None	None	5836352	5848227	1	None	None
19	ZNF154	ENSG00000179909	ENST00000512439	protein_coding	KNOWN	CCDS42639	12939	1314	437	58208735	58220536	-1	None	pHZ-92
19	ZNF154	ENSG00000179909	ENST00000451275	nonsense_mediated_decay	KNOWN	CCDS42639	12939	1314	437	58208735	58220562	-1	None	pHZ-92
19	ZNF154	ENSG00000179909	ENST00000426889	protein_coding	KNOWN	CCDS42639	12939	1314	437	58211811	58220579	-1	None	pHZ-92
6	None	ENSG00000219575	ENST00000403583	processed_pseudogene	KNOWN	None	None	None	None	72260661	72261346	-1	None	None
6	KRT19P1	ENSG00000218014	ENST00000405746	processed_pseudogene	KNOWN	None	33422	None	None	72294424	72295609	1	None	None
2	None	ENSG00000236106	ENST00000413960	lincRNA	KNOWN	None	None	None	None	5866581	5870474	1	None	None
5	None	ENSG00000272308	ENST00000607723	lincRNA	KNOWN	None	None	None	None	60162284	60162762	-1	None	None
11	MMP27	ENSG00000137675	ENST00000260229	protein_coding	KNOWN	CCDS8319	14250	1542	513	102562218	102576537	-1	None	None
5	GNL3LP1	ENSG00000215032	ENST00000399458	processed_pseudogene	KNOWN	None	25733	None	None	60187762	60189404	-1	GNL3LP	FLJ12595
HSCHR6_MHC_QBL	HLA-DPB1	ENSG00000215048	ENST00000399500	protein_coding	KNOWN	None	4940	777	258	32972757	32984034	1	HLA-DP1B	None
HSCHR6_MHC_QBL	HLA-DPB1	ENSG00000215048	ENST00000399491	protein_coding	KNOWN	None	4940	687	228	32972803	32984034	1	HLA-DP1B	None
HSCHR6_MHC_QBL	HLA-DPB1	ENSG00000215048	ENST00000486122	retained_intron	KNOWN	None	4940	None	None	32972841	32978069	1	HLA-DP1B	None
HSCHR6_MHC_QBL	HLA-DPB1	ENSG00000215048	ENST00000469961	processed_transcript	KNOWN	None	4940	None	None	32977223	32980849	1	HLA-DP1B	None
HSCHR6_MHC_QBL	HLA-DPB1	ENSG00000215048	ENST00000494369	processed_transcript	KNOWN	None	4940	None	None	32977223	32981790	1	HLA-DP1B	None
HSCHR6_MHC_QBL	HLA-DPB1	ENSG00000215048	ENST00000475215	processed_transcript	KNOWN	None	4940	None	None	32977280	32982064	1	HLA-DP1B	None
HSCHR6_MHC_QBL	HLA-DPB1	ENSG00000215048	ENST00000402095	protein_coding	KNOWN	None	4940	688	228	32977324	32982722	1	HLA-DP1B	None
HSCHR6_MHC_QBL	HLA-DPB1	ENSG00000215048	ENST00000432661	protein_coding	KNOWN	None	4940	707	234	32977509	32984034	1	HLA-DP1B	None
HSCHR6_MHC_QBL	HLA-DPB1	ENSG00000215048	ENST00000468854	processed_transcript	KNOWN	None	4940	None	None	32977778	32980727	1	HLA-DP1B	None
HSCHR6_MHC_QBL	HLA-DPB1	ENSG00000215048	ENST00000548907	protein_coding	KNOWN	None	4940	249	82	32972814	32984032	1	HLA-DP1B	None
2	None	ENSG00000237266	ENST00000450397	lincRNA	KNOWN	None	None	None	None	5950773	5952728	-1	None	None
5	None	ENSG00000233847	ENST00000457499	antisense	KNOWN	None	None	None	None	60213317	60215400	1	None	None
1	CEP85	ENSG00000130695	ENST00000476272	nonsense_mediated_decay	KNOWN	None	25309	2286	761	26560691	26605297	1	CCDC21	DKFZP434L0117
1	CEP85	ENSG00000130695	ENST00000252992	protein_coding	KNOWN	CCDS277	25309	2289	762	26560693	26605299	1	CCDC21	DKFZP434L0117
1	CEP85	ENSG00000130695	ENST00000480446	processed_transcript	KNOWN	None	25309	None	None	26581069	26581841	1	CCDC21	DKFZP434L0117
1	CEP85	ENSG00000130695	ENST00000453146	protein_coding	KNOWN	None	25309	1307	434	26584164	26605298	1	CCDC21	DKFZP434L0117
1	CEP85	ENSG00000130695	ENST00000469609	processed_transcript	KNOWN	None	25309	None	None	26595781	26605298	1	CCDC21	DKFZP434L0117
1	CEP85	ENSG00000130695	ENST00000468163	processed_transcript	KNOWN	None	25309	None	None	26597519	26598884	1	CCDC21	DKFZP434L0117
1	CEP85	ENSG00000130695	ENST00000491670	processed_transcript	KNOWN	None	25309	None	None	26597956	26603251	1	CCDC21	DKFZP434L0117
1	CEP85	ENSG00000130695	ENST00000451429	protein_coding	KNOWN	None	25309	2136	711	26560691	26604178	1	CCDC21	DKFZP434L0117
7	None	ENSG00000233517	ENST00000411479	antisense	KNOWN	None	None	None	None	29026644	29028515	1	None	None
9	None	ENSG00000234229	ENST00000444985	lincRNA	KNOWN	None	None	None	None	109378339	109442079	1	None	None
9	None	ENSG00000234229	ENST00000411451	lincRNA	KNOWN	None	None	None	None	109427035	109464943	1	None	None
2	None	ENSG00000232044	ENST00000456327	lincRNA	KNOWN	None	None	None	None	6072819	6120819	1	None	None
2	None	ENSG00000232044	ENST00000431188	lincRNA	KNOWN	None	None	None	None	6072920	6125025	1	None	None
2	None	ENSG00000232044	ENST00000444416	lincRNA	KNOWN	None	None	None	None	6122110	6125029	1	None	None
2	None	ENSG00000232044	ENST00000431182	lincRNA	KNOWN	None	None	None	None	6122576	6125850	1	None	None
2	None	ENSG00000232044	ENST00000450794	lincRNA	KNOWN	None	None	None	None	6122703	6141407	1	None	None
1	AMY2B	ENSG00000240038	ENST00000477657	nonsense_mediated_decay	KNOWN	None	478	1113	370	104096437	104122152	1	AMY2	None
1	AMY2B	ENSG00000240038	ENST00000361355	protein_coding	KNOWN	CCDS782	478	1536	511	104097322	104122151	1	AMY2	None
1	AMY2B	ENSG00000240038	ENST00000435302	protein_coding	KNOWN	None	478	288	95	104104379	104114851	1	AMY2	None
1	AMY2B	ENSG00000240038	ENST00000453959	protein_coding	KNOWN	None	478	259	85	104107653	104114822	1	AMY2	None
1	AMY2B	ENSG00000240038	ENST00000491397	processed_transcript	KNOWN	None	478	None	None	104110956	104122152	1	AMY2	None
1	AMY2B	ENSG00000240038	ENST00000462971	processed_transcript	KNOWN	None	478	None	None	104117937	104118403	1	AMY2	None
1	AMY2B	ENSG00000240038	ENST00000481821	processed_transcript	KNOWN	None	478	None	None	104120009	104122156	1	AMY2	None
6	PSORS1C3	ENSG00000204528	ENST00000412143	sense_intronic	KNOWN	None	17203	None	None	31141512	31145676	-1	None	NCRNA00196
16	CLEC18B	ENSG00000140839	ENST00000339953	protein_coding	KNOWN	CCDS32484	33849	1368	455	74442529	74455290	-1	None	None
16	CLEC18B	ENSG00000140839	ENST00000564842	retained_intron	KNOWN	None	33849	None	None	74445251	74446697	-1	None	None
16	CLEC18B	ENSG00000140839	ENST00000425714	retained_intron	KNOWN	None	33849	None	None	74445785	74455368	-1	None	None
12	TBX3	ENSG00000135111	ENST00000349155	protein_coding	KNOWN	CCDS9175	11602	2172	723	115108059	115121969	-1	UMS	TBX3-ISO, XHL
12	TBX3	ENSG00000135111	ENST00000257566	protein_coding	KNOWN	CCDS9176	11602	2232	743	115108060	115121395	-1	UMS	TBX3-ISO, XHL
12	TBX3	ENSG00000135111	ENST00000548503	retained_intron	KNOWN	None	11602	None	None	115115397	115117738	-1	UMS	TBX3-ISO, XHL
12	TBX3	ENSG00000135111	ENST00000552054	retained_intron	KNOWN	None	11602	None	None	115117761	115121239	-1	UMS	TBX3-ISO, XHL
19	SNRNP70	ENSG00000104852	ENST00000601065	nonsense_mediated_decay	KNOWN	None	11150	501	166	49588676	49611855	1	RNPU1Z, RPU1, SNRP70	U1-70K, Snp1
19	SNRNP70	ENSG00000104852	ENST00000598984	protein_coding	PUTATIVE	None	11150	282	93	49588680	49605375	1	RNPU1Z, RPU1, SNRP70	U1-70K, Snp1
19	SNRNP70	ENSG00000104852	ENST00000598441	protein_coding	KNOWN	CCDS12756	11150	1314	437	49588680	49611736	1	RNPU1Z, RPU1, SNRP70	U1-70K, Snp1
19	SNRNP70	ENSG00000104852	ENST00000597936	retained_intron	KNOWN	None	11150	None	None	49588708	49593896	1	RNPU1Z, RPU1, SNRP70	U1-70K, Snp1
19	SNRNP70	ENSG00000104852	ENST00000221448	protein_coding	KNOWN	None	11150	1287	428	49588708	49611820	1	RNPU1Z, RPU1, SNRP70	U1-70K, Snp1
19	SNRNP70	ENSG00000104852	ENST00000401730	nonsense_mediated_decay	KNOWN	None	11150	501	166	49588708	49611860	1	RNPU1Z, RPU1, SNRP70	U1-70K, Snp1
19	SNRNP70	ENSG00000104852	ENST00000595231	nonsense_mediated_decay	KNOWN	None	11150	501	166	49588752	49611862	1	RNPU1Z, RPU1, SNRP70	U1-70K, Snp1
19	SNRNP70	ENSG00000104852	ENST00000601411	protein_coding	PUTATIVE	None	11150	100	32	49589737	49601716	1	RNPU1Z, RPU1, SNRP70	U1-70K, Snp1
19	SNRNP70	ENSG00000104852	ENST00000599687	retained_intron	KNOWN	None	11150	None	None	49589781	49604925	1	RNPU1Z, RPU1, SNRP70	U1-70K, Snp1
19	SNRNP70	ENSG00000104852	ENST00000544278	retained_intron	KNOWN	None	11150	None	None	49605668	49611859	1	RNPU1Z, RPU1, SNRP70	U1-70K, Snp1
13	COG6	ENSG00000133103	ENST00000416691	protein_coding	KNOWN	CCDS45042	18621	1848	615	40229764	40365802	1	None	COD2, KIAA1134
13	COG6	ENSG00000133103	ENST00000542266	nonsense_mediated_decay	KNOWN	None	18621	186	61	40229788	40233640	1	None	COD2, KIAA1134
13	COG6	ENSG00000133103	ENST00000543790	nonsense_mediated_decay	KNOWN	None	18621	186	61	40229799	40233604	1	None	COD2, KIAA1134
13	COG6	ENSG00000133103	ENST00000543804	nonsense_mediated_decay	KNOWN	None	18621	189	62	40229799	40251714	1	None	COD2, KIAA1134
13	COG6	ENSG00000133103	ENST00000422759	protein_coding	NOVEL	None	18621	593	196	40229799	40252281	1	None	COD2, KIAA1134
13	COG6	ENSG00000133103	ENST00000455146	protein_coding	KNOWN	CCDS9370	18621	1974	657	40229814	40326769	1	None	COD2, KIAA1134
13	COG6	ENSG00000133103	ENST00000356576	nonsense_mediated_decay	KNOWN	None	18621	228	75	40229861	40326637	1	None	COD2, KIAA1134
13	COG6	ENSG00000133103	ENST00000536488	nonsense_mediated_decay	KNOWN	None	18621	403	133	40233533	40261683	1	None	COD2, KIAA1134
13	COG6	ENSG00000133103	ENST00000537156	processed_transcript	KNOWN	None	18621	None	None	40253484	40261730	1	None	COD2, KIAA1134
13	COG6	ENSG00000133103	ENST00000465775	processed_transcript	KNOWN	None	18621	None	None	40253733	40256610	1	None	COD2, KIAA1134
13	COG6	ENSG00000133103	ENST00000460701	processed_transcript	KNOWN	None	18621	None	None	40261680	40263957	1	None	COD2, KIAA1134
15	GRAMD2	ENSG00000175318	ENST00000309731	protein_coding	KNOWN	CCDS32283	27287	1065	354	72452148	72490126	-1	None	None
15	GRAMD2	ENSG00000175318	ENST00000567662	retained_intron	KNOWN	None	27287	None	None	72452149	72456174	-1	None	None
15	GRAMD2	ENSG00000175318	ENST00000565233	retained_intron	KNOWN	None	27287	None	None	72453823	72456130	-1	None	None
15	GRAMD2	ENSG00000175318	ENST00000567029	retained_intron	KNOWN	None	27287	None	None	72454168	72456196	-1	None	None
15	GRAMD2	ENSG00000175318	ENST00000564773	retained_intron	KNOWN	None	27287	None	None	72454249	72456209	-1	None	None
15	GRAMD2	ENSG00000175318	ENST00000564184	processed_transcript	KNOWN	None	27287	None	None	72455101	72459043	-1	None	None
15	GRAMD2	ENSG00000175318	ENST00000564129	protein_coding	PUTATIVE	None	27287	633	210	72456036	72462720	-1	None	None
15	GRAMD2	ENSG00000175318	ENST00000568594	protein_coding	PUTATIVE	None	27287	508	168	72458987	72462415	-1	None	None
15	GRAMD2	ENSG00000175318	ENST00000567637	retained_intron	KNOWN	None	27287	None	None	72459020	72461484	-1	None	None
15	GRAMD2	ENSG00000175318	ENST00000570275	protein_coding	PUTATIVE	None	27287	435	144	72459335	72462676	-1	None	None
15	GRAMD2	ENSG00000175318	ENST00000562288	nonsense_mediated_decay	KNOWN	None	27287	144	47	72460150	72462652	-1	None	None
15	GRAMD2	ENSG00000175318	ENST00000563133	processed_transcript	KNOWN	None	27287	None	None	72461603	72468439	-1	None	None
15	GRAMD2	ENSG00000175318	ENST00000569450	processed_transcript	KNOWN	None	27287	None	None	72465906	72468903	-1	None	None
9	RN7SKP77	ENSG00000200131	ENST00000363261	misc_RNA	KNOWN	None	45801	None	None	109442258	109442610	1	None	None
HSCHR6_MHC_SSTO	GPANK1	ENSG00000228605	ENST00000433880	protein_coding	KNOWN	None	13920	1071	356	31618946	31624007	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_SSTO	GPANK1	ENSG00000228605	ENST00000426326	protein_coding	KNOWN	None	13920	1071	356	31619798	31623114	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_SSTO	GPANK1	ENSG00000228605	ENST00000453899	protein_coding	KNOWN	None	13920	1071	356	31619798	31623354	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_SSTO	GPANK1	ENSG00000228605	ENST00000457505	protein_coding	KNOWN	None	13920	1071	356	31619798	31623574	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_SSTO	GPANK1	ENSG00000228605	ENST00000414528	protein_coding	KNOWN	None	13920	1071	356	31619798	31623585	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_SSTO	GPANK1	ENSG00000228605	ENST00000424956	protein_coding	KNOWN	None	13920	596	197	31621607	31623521	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_SSTO	GPANK1	ENSG00000228605	ENST00000424195	protein_coding	KNOWN	None	13920	494	163	31621709	31623166	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_SSTO	GPANK1	ENSG00000228605	ENST00000424420	protein_coding	KNOWN	None	13920	456	151	31621747	31622914	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_SSTO	GPANK1	ENSG00000228605	ENST00000418462	protein_coding	KNOWN	None	13920	321	106	31621882	31623558	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_SSTO	GPANK1	ENSG00000228605	ENST00000416364	protein_coding	KNOWN	None	13920	269	88	31621934	31622909	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
9	None	ENSG00000228143	ENST00000428997	processed_pseudogene	KNOWN	None	None	None	None	109484631	109485211	1	None	None
19	ZNF506	ENSG00000081665	ENST00000591639	nonsense_mediated_decay	KNOWN	CCDS42531	23780	1335	444	19896648	19932560	-1	None	DKFZp761G1812
19	ZNF506	ENSG00000081665	ENST00000587461	protein_coding	PUTATIVE	None	23780	327	108	19897196	19932549	-1	None	DKFZp761G1812
19	ZNF506	ENSG00000081665	ENST00000586260	nonsense_mediated_decay	KNOWN	None	23780	414	137	19897371	19932541	-1	None	DKFZp761G1812
19	ZNF506	ENSG00000081665	ENST00000590766	protein_coding	PUTATIVE	None	23780	322	106	19901781	19932519	-1	None	DKFZp761G1812
19	ZNF506	ENSG00000081665	ENST00000540806	protein_coding	NOVEL	CCDS42531	23780	1335	444	19905361	19932501	-1	None	DKFZp761G1812
19	ZNF506	ENSG00000081665	ENST00000450683	protein_coding	NOVEL	CCDS46027	23780	1239	412	19905361	19932558	-1	None	DKFZp761G1812
19	ZNF506	ENSG00000081665	ENST00000587822	retained_intron	KNOWN	None	23780	None	None	19905759	19909848	-1	None	DKFZp761G1812
19	ZNF506	ENSG00000081665	ENST00000590319	protein_coding	PUTATIVE	None	23780	446	147	19906022	19932532	-1	None	DKFZp761G1812
19	ZNF506	ENSG00000081665	ENST00000587452	protein_coding	PUTATIVE	None	23780	279	92	19909047	19932519	-1	None	DKFZp761G1812
19	ZNF506	ENSG00000081665	ENST00000545006	protein_coding	PUTATIVE	None	23780	237	78	19909598	19932531	-1	None	DKFZp761G1812
19	ZNF506	ENSG00000081665	ENST00000595825	processed_transcript	KNOWN	None	23780	None	None	19931064	19932559	-1	None	DKFZp761G1812
19	ZNF506	ENSG00000081665	ENST00000443905	protein_coding	KNOWN	CCDS42531	23780	1335	444	19902620	19932560	-1	None	DKFZp761G1812
1	RABGAP1L	ENSG00000152061	ENST00000357444	protein_coding	KNOWN	None	24663	1818	605	174128548	174517699	1	None	HHL, TBC1D18, KIAA0471, FLJ38519
1	RABGAP1L	ENSG00000152061	ENST00000251507	protein_coding	KNOWN	CCDS1314	24663	2448	815	174128655	174927319	1	None	HHL, TBC1D18, KIAA0471, FLJ38519
1	RABGAP1L	ENSG00000152061	ENST00000457696	protein_coding	KNOWN	None	24663	1746	581	174128728	174363283	1	None	HHL, TBC1D18, KIAA0471, FLJ38519
1	RABGAP1L	ENSG00000152061	ENST00000487987	retained_intron	KNOWN	None	24663	None	None	174189850	174200383	1	None	HHL, TBC1D18, KIAA0471, FLJ38519
1	RABGAP1L	ENSG00000152061	ENST00000529474	processed_transcript	KNOWN	None	24663	None	None	174200357	174212305	1	None	HHL, TBC1D18, KIAA0471, FLJ38519
1	RABGAP1L	ENSG00000152061	ENST00000367690	processed_transcript	KNOWN	None	24663	None	None	174244238	174515042	1	None	HHL, TBC1D18, KIAA0471, FLJ38519
1	RABGAP1L	ENSG00000152061	ENST00000526253	processed_transcript	KNOWN	None	24663	None	None	174334368	174606626	1	None	HHL, TBC1D18, KIAA0471, FLJ38519
1	RABGAP1L	ENSG00000152061	ENST00000474375	processed_transcript	KNOWN	None	24663	None	None	174606516	174674714	1	None	HHL, TBC1D18, KIAA0471, FLJ38519
1	RABGAP1L	ENSG00000152061	ENST00000529145	processed_transcript	KNOWN	None	24663	None	None	174669551	174721492	1	None	HHL, TBC1D18, KIAA0471, FLJ38519
1	RABGAP1L	ENSG00000152061	ENST00000325589	protein_coding	KNOWN	None	24663	1077	358	174669663	174959546	1	None	HHL, TBC1D18, KIAA0471, FLJ38519
1	RABGAP1L	ENSG00000152061	ENST00000469553	nonsense_mediated_decay	KNOWN	None	24663	294	97	174669869	174959478	1	None	HHL, TBC1D18, KIAA0471, FLJ38519
1	RABGAP1L	ENSG00000152061	ENST00000367686	processed_transcript	KNOWN	None	24663	None	None	174669869	174959478	1	None	HHL, TBC1D18, KIAA0471, FLJ38519
1	RABGAP1L	ENSG00000152061	ENST00000367687	protein_coding	KNOWN	None	24663	1134	377	174670158	174959730	1	None	HHL, TBC1D18, KIAA0471, FLJ38519
1	RABGAP1L	ENSG00000152061	ENST00000347255	protein_coding	KNOWN	None	24663	1137	378	174670160	174959650	1	None	HHL, TBC1D18, KIAA0471, FLJ38519
1	RABGAP1L	ENSG00000152061	ENST00000489615	protein_coding	KNOWN	CCDS58046	24663	1113	370	174769070	174964445	1	None	HHL, TBC1D18, KIAA0471, FLJ38519
1	RABGAP1L	ENSG00000152061	ENST00000478442	protein_coding	KNOWN	CCDS41437	24663	219	72	174843596	174927319	1	None	HHL, TBC1D18, KIAA0471, FLJ38519
1	RABGAP1L	ENSG00000152061	ENST00000465412	protein_coding	NOVEL	None	24663	571	189	174843609	174952037	1	None	HHL, TBC1D18, KIAA0471, FLJ38519
1	RABGAP1L	ENSG00000152061	ENST00000486220	protein_coding	KNOWN	CCDS41437	24663	219	72	174844684	174927324	1	None	HHL, TBC1D18, KIAA0471, FLJ38519
1	RABGAP1L	ENSG00000152061	ENST00000367688	protein_coding	PUTATIVE	CCDS55662	24663	762	253	174933905	174959622	1	None	HHL, TBC1D18, KIAA0471, FLJ38519
1	RABGAP1L	ENSG00000152061	ENST00000485114	processed_transcript	KNOWN	None	24663	None	None	174934096	174963017	1	None	HHL, TBC1D18, KIAA0471, FLJ38519
1	RABGAP1L	ENSG00000152061	ENST00000461613	processed_transcript	KNOWN	None	24663	None	None	174945166	174957944	1	None	HHL, TBC1D18, KIAA0471, FLJ38519
1	RABGAP1L	ENSG00000152061	ENST00000367689	protein_coding	KNOWN	None	24663	759	252	174128548	174514089	1	None	HHL, TBC1D18, KIAA0471, FLJ38519
1	RABGAP1L	ENSG00000152061	ENST00000392064	protein_coding	KNOWN	None	24663	927	308	174846578	174964438	1	None	HHL, TBC1D18, KIAA0471, FLJ38519
9	CYP1D1P	ENSG00000228024	ENST00000416662	unprocessed_pseudogene	KNOWN	None	39968	None	None	75657661	75671444	1	None	CYP1A8P
6	None	ENSG00000272501	ENST00000606367	antisense	KNOWN	None	None	None	None	31162977	31165814	-1	None	None
7	None	ENSG00000229452	ENST00000416513	antisense	KNOWN	None	None	None	None	29119900	29122143	1	None	None
2	None	ENSG00000184761	ENST00000409259	protein_coding	PUTATIVE	None	None	450	149	131296668	131307456	-1	None	None
6	None	ENSG00000271821	ENST00000606909	lincRNA	KNOWN	None	None	None	None	31167942	31169695	-1	None	None
5	RNA5SP187	ENSG00000207129	ENST00000384400	rRNA	KNOWN	None	43087	None	None	87570075	87570193	-1	RN5S187	None
9	RNA5SP292	ENSG00000212276	ENST00000390974	rRNA	KNOWN	None	43192	None	None	109606030	109606147	-1	RN5S292	None
8	MFSD3	ENSG00000167700	ENST00000301327	protein_coding	KNOWN	CCDS6431	25157	1239	412	145734457	145736596	1	None	None
8	MFSD3	ENSG00000167700	ENST00000528047	retained_intron	KNOWN	None	25157	None	None	145734463	145736564	1	None	None
8	MFSD3	ENSG00000167700	ENST00000526749	retained_intron	KNOWN	None	25157	None	None	145735002	145736197	1	None	None
8	MFSD3	ENSG00000167700	ENST00000534427	retained_intron	KNOWN	None	25157	None	None	145735629	145736564	1	None	None
7	UPK3B	ENSG00000243566	ENST00000334348	protein_coding	KNOWN	CCDS5589	21444	831	276	76139745	76144773	1	None	MGC10902, p35, UPIIIb, FLJ32198
7	UPK3B	ENSG00000243566	ENST00000257632	protein_coding	KNOWN	CCDS5588	21444	963	320	76139842	76144773	1	None	MGC10902, p35, UPIIIb, FLJ32198
7	UPK3B	ENSG00000243566	ENST00000394849	protein_coding	NOVEL	None	21444	798	265	76139932	76144773	1	None	MGC10902, p35, UPIIIb, FLJ32198
7	UPK3B	ENSG00000243566	ENST00000490360	retained_intron	KNOWN	None	21444	None	None	76140072	76141199	1	None	MGC10902, p35, UPIIIb, FLJ32198
7	UPK3B	ENSG00000243566	ENST00000469114	retained_intron	KNOWN	None	21444	None	None	76140852	76143365	1	None	MGC10902, p35, UPIIIb, FLJ32198
7	UPK3B	ENSG00000243566	ENST00000419923	protein_coding	KNOWN	CCDS5588	21444	963	320	76139745	76648340	1	None	MGC10902, p35, UPIIIb, FLJ32198
7	UPK3B	ENSG00000243566	ENST00000448265	protein_coding	KNOWN	CCDS5588	21444	963	320	76139745	76157195	1	None	MGC10902, p35, UPIIIb, FLJ32198
7	UPK3B	ENSG00000243566	ENST00000443097	protein_coding	KNOWN	CCDS5589	21444	831	276	76139745	76648340	1	None	MGC10902, p35, UPIIIb, FLJ32198
5	RPS3AP22	ENSG00000240083	ENST00000488297	processed_pseudogene	KNOWN	None	36573	None	None	87677774	87678542	1	None	None
6	None	ENSG00000255726	ENST00000546340	unprocessed_pseudogene	KNOWN	None	None	None	None	31190690	31190870	1	None	None
7	None	ENSG00000234432	ENST00000382426	protein_coding	KNOWN	None	None	666	221	5465916	5468558	-1	None	None
3	SLC33A1	ENSG00000169359	ENST00000392845	protein_coding	KNOWN	CCDS3173	95	1650	549	155544305	155572167	-1	ACATN, SPG42	AT-1, AT1
3	SLC33A1	ENSG00000169359	ENST00000359479	protein_coding	KNOWN	CCDS3173	95	1650	549	155544315	155572218	-1	ACATN, SPG42	AT-1, AT1
3	SLC33A1	ENSG00000169359	ENST00000475842	protein_coding	NOVEL	None	95	808	268	155545747	155571280	-1	ACATN, SPG42	AT-1, AT1
3	SLC33A1	ENSG00000169359	ENST00000496772	protein_coding	NOVEL	None	95	555	184	155546002	155560394	-1	ACATN, SPG42	AT-1, AT1
3	SLC33A1	ENSG00000169359	ENST00000468581	nonsense_mediated_decay	KNOWN	None	95	328	108	155546017	155571106	-1	ACATN, SPG42	AT-1, AT1
3	SLC33A1	ENSG00000169359	ENST00000460729	processed_transcript	PUTATIVE	None	95	None	None	155562507	155571151	-1	ACATN, SPG42	AT-1, AT1
6	None	ENSG00000255899	ENST00000538455	unprocessed_pseudogene	KNOWN	None	None	None	None	31192119	31192835	-1	None	None
2	None	ENSG00000234275	ENST00000425125	lincRNA	KNOWN	None	None	None	None	6453086	6465778	-1	None	None
7	SPAM1	ENSG00000106304	ENST00000413927	protein_coding	KNOWN	None	11217	241	79	123565291	123593865	1	None	HYAL5, PH-20, SPAG15
7	SPAM1	ENSG00000106304	ENST00000460182	protein_coding	KNOWN	CCDS5791	11217	1530	509	123565357	123600100	1	None	HYAL5, PH-20, SPAG15
7	SPAM1	ENSG00000106304	ENST00000340011	protein_coding	KNOWN	CCDS5790	11217	1536	511	123565368	123611468	1	None	HYAL5, PH-20, SPAG15
7	SPAM1	ENSG00000106304	ENST00000439500	protein_coding	KNOWN	CCDS5791	11217	1530	509	123565909	123600100	1	None	HYAL5, PH-20, SPAG15
7	SPAM1	ENSG00000106304	ENST00000402183	protein_coding	KNOWN	CCDS5791	11217	1530	509	123565286	123600023	1	None	HYAL5, PH-20, SPAG15
7	SPAM1	ENSG00000106304	ENST00000223028	protein_coding	KNOWN	CCDS5791	11217	1530	509	123587754	123600093	1	None	HYAL5, PH-20, SPAG15
2	None	ENSG00000227007	ENST00000448901	lincRNA	KNOWN	None	None	None	None	6506142	6515554	-1	None	None
2	None	ENSG00000183292	ENST00000409793	protein_coding	PUTATIVE	None	None	300	99	131328402	131339941	1	None	None
2	None	ENSG00000183292	ENST00000419965	nonsense_mediated_decay	KNOWN	None	None	119	38	131328413	131341734	1	None	None
2	None	ENSG00000183292	ENST00000414595	nonsense_mediated_decay	KNOWN	None	None	151	49	131328422	131341245	1	None	None
2	None	ENSG00000183292	ENST00000409982	protein_coding	PUTATIVE	None	None	483	160	131328459	131334914	1	None	None
2	None	ENSG00000183292	ENST00000440359	protein_coding	PUTATIVE	None	None	448	148	131331904	131339979	1	None	None
2	None	ENSG00000231610	ENST00000454229	processed_pseudogene	KNOWN	None	None	None	None	6636009	6636930	-1	None	None
6	LINC00326	ENSG00000231023	ENST00000457339	lincRNA	KNOWN	None	41926	None	None	133409219	133427717	1	NCRNA00326	None
6	LINC00326	ENSG00000231023	ENST00000434443	lincRNA	KNOWN	None	41926	None	None	133409267	133427337	1	NCRNA00326	None
3	IQCG	ENSG00000114473	ENST00000265239	protein_coding	KNOWN	CCDS3331	25251	1332	443	197615946	197686890	-1	None	DKFZp434B227
3	IQCG	ENSG00000114473	ENST00000455191	protein_coding	KNOWN	CCDS3331	25251	1332	443	197615948	197676796	-1	None	DKFZp434B227
3	IQCG	ENSG00000114473	ENST00000478903	retained_intron	KNOWN	None	25251	None	None	197615949	197640155	-1	None	DKFZp434B227
3	IQCG	ENSG00000114473	ENST00000490748	retained_intron	KNOWN	None	25251	None	None	197615949	197665903	-1	None	DKFZp434B227
3	IQCG	ENSG00000114473	ENST00000485787	processed_transcript	KNOWN	None	25251	None	None	197616284	197639905	-1	None	DKFZp434B227
3	IQCG	ENSG00000114473	ENST00000469822	processed_transcript	PUTATIVE	None	25251	None	None	197633239	197639823	-1	None	DKFZp434B227
3	IQCG	ENSG00000114473	ENST00000473225	processed_transcript	PUTATIVE	None	25251	None	None	197640222	197643291	-1	None	DKFZp434B227
3	IQCG	ENSG00000114473	ENST00000453254	protein_coding	PUTATIVE	None	25251	933	310	197640593	197676756	-1	None	DKFZp434B227
3	IQCG	ENSG00000114473	ENST00000416896	protein_coding	PUTATIVE	None	25251	596	197	197652968	197686466	-1	None	DKFZp434B227
3	IQCG	ENSG00000114473	ENST00000480302	processed_transcript	KNOWN	None	25251	None	None	197665531	197687013	-1	None	DKFZp434B227
3	IQCG	ENSG00000114473	ENST00000463651	processed_transcript	KNOWN	None	25251	None	None	197665537	197676796	-1	None	DKFZp434B227
3	IQCG	ENSG00000114473	ENST00000452735	protein_coding	KNOWN	None	25251	162	53	197670769	197676740	-1	None	DKFZp434B227
3	IQCG	ENSG00000114473	ENST00000493624	retained_intron	KNOWN	None	25251	None	None	197683512	197686886	-1	None	DKFZp434B227
4	None	ENSG00000251489	ENST00000502853	processed_pseudogene	KNOWN	None	None	None	None	70754595	70755124	1	None	None
2	None	ENSG00000226488	ENST00000436082	lincRNA	KNOWN	None	None	None	None	6636135	6643938	1	None	None
9	None	ENSG00000237557	ENST00000445359	processed_pseudogene	KNOWN	None	None	None	None	38643039	38643765	1	None	None
19	ZNF230	ENSG00000159882	ENST00000429154	protein_coding	KNOWN	CCDS33044	13024	1425	474	44507100	44518078	1	None	FDZF2
19	ZNF230	ENSG00000159882	ENST00000589275	retained_intron	KNOWN	None	13024	None	None	44507111	44508904	1	None	FDZF2
19	ZNF230	ENSG00000159882	ENST00000585568	nonsense_mediated_decay	KNOWN	None	13024	165	54	44507128	44518001	1	None	FDZF2
19	ZNF230	ENSG00000159882	ENST00000585632	protein_coding	PUTATIVE	None	13024	264	87	44507130	44513474	1	None	FDZF2
19	ZNF230	ENSG00000159882	ENST00000585491	protein_coding	KNOWN	None	13024	221	72	44510852	44513314	1	None	FDZF2
17	KRT12	ENSG00000187242	ENST00000251643	protein_coding	KNOWN	CCDS11378	6414	1485	494	39017555	39023462	-1	None	K12
9	RNU6-765P	ENSG00000252725	ENST00000516916	snRNA	KNOWN	None	47728	None	None	38680003	38680101	1	None	None
9	None	ENSG00000228467	ENST00000444791	lincRNA	KNOWN	None	None	None	None	38804004	38851913	1	None	None
16	None	ENSG00000261327	ENST00000568031	lincRNA	KNOWN	None	None	None	None	88210904	88212216	-1	None	None
16	None	ENSG00000261327	ENST00000562705	lincRNA	KNOWN	None	None	None	None	88211655	88212547	-1	None	None
16	None	ENSG00000261327	ENST00000596422	lincRNA	KNOWN	None	None	None	None	88211046	88219696	-1	None	None
4	LDB2	ENSG00000169744	ENST00000515064	protein_coding	NOVEL	None	6533	1116	371	16503164	16900185	-1	None	CLIM1, LDB1
4	LDB2	ENSG00000169744	ENST00000441778	protein_coding	KNOWN	CCDS47031	6533	996	331	16503164	16900217	-1	None	CLIM1, LDB1
4	LDB2	ENSG00000169744	ENST00000304523	protein_coding	KNOWN	CCDS3420	6533	1122	373	16503164	16900432	-1	None	CLIM1, LDB1
4	LDB2	ENSG00000169744	ENST00000509803	retained_intron	KNOWN	None	6533	None	None	16503167	16508850	-1	None	CLIM1, LDB1
4	LDB2	ENSG00000169744	ENST00000502640	protein_coding	PUTATIVE	None	6533	942	313	16503169	16900257	-1	None	CLIM1, LDB1
4	LDB2	ENSG00000169744	ENST00000507464	protein_coding	NOVEL	None	6533	884	293	16503665	16597498	-1	None	CLIM1, LDB1
4	LDB2	ENSG00000169744	ENST00000508918	nonsense_mediated_decay	KNOWN	None	6533	333	110	16504417	16900257	-1	None	CLIM1, LDB1
4	LDB2	ENSG00000169744	ENST00000512345	nonsense_mediated_decay	KNOWN	None	6533	321	106	16513608	16900244	-1	None	CLIM1, LDB1
4	LDB2	ENSG00000169744	ENST00000503153	processed_transcript	KNOWN	None	6533	None	None	16513628	16655442	-1	None	CLIM1, LDB1
4	LDB2	ENSG00000169744	ENST00000504886	processed_transcript	KNOWN	None	6533	None	None	16587573	16728125	-1	None	CLIM1, LDB1
4	LDB2	ENSG00000169744	ENST00000506732	protein_coding	KNOWN	None	6533	493	163	16587595	16900283	-1	None	CLIM1, LDB1
4	LDB2	ENSG00000169744	ENST00000503829	processed_transcript	KNOWN	None	6533	None	None	16587599	16628616	-1	None	CLIM1, LDB1
4	LDB2	ENSG00000169744	ENST00000508804	retained_intron	KNOWN	None	6533	None	None	16590332	16760998	-1	None	CLIM1, LDB1
4	LDB2	ENSG00000169744	ENST00000513457	processed_transcript	KNOWN	None	6533	None	None	16590333	16828183	-1	None	CLIM1, LDB1
4	LDB2	ENSG00000169744	ENST00000510825	processed_transcript	KNOWN	None	6533	None	None	16743078	16900301	-1	None	CLIM1, LDB1
4	LDB2	ENSG00000169744	ENST00000504189	processed_transcript	KNOWN	None	6533	None	None	16752473	16900001	-1	None	CLIM1, LDB1
4	LDB2	ENSG00000169744	ENST00000503178	protein_coding	KNOWN	None	6533	570	189	16504417	16675936	-1	None	CLIM1, LDB1
2	C2orf43	ENSG00000118961	ENST00000403006	protein_coding	PUTATIVE	None	26145	723	240	20883788	21022864	-1	None	FLJ21820
2	C2orf43	ENSG00000118961	ENST00000381090	protein_coding	NOVEL	None	26145	1113	370	20883804	21022874	-1	None	FLJ21820
2	C2orf43	ENSG00000118961	ENST00000470099	retained_intron	KNOWN	None	26145	None	None	20884172	20939751	-1	None	FLJ21820
2	C2orf43	ENSG00000118961	ENST00000237822	protein_coding	KNOWN	CCDS1702	26145	978	325	20884818	21022874	-1	None	FLJ21820
2	C2orf43	ENSG00000118961	ENST00000432947	protein_coding	PUTATIVE	None	26145	391	129	20901335	21022861	-1	None	FLJ21820
2	C2orf43	ENSG00000118961	ENST00000412261	protein_coding	NOVEL	None	26145	478	158	20939812	21022882	-1	None	FLJ21820
2	C2orf43	ENSG00000118961	ENST00000402479	protein_coding	NOVEL	None	26145	438	145	20974618	21022849	-1	None	FLJ21820
2	C2orf43	ENSG00000118961	ENST00000419825	protein_coding	PUTATIVE	None	26145	471	156	20988649	21022870	-1	None	FLJ21820
2	C2orf43	ENSG00000118961	ENST00000435420	protein_coding	KNOWN	None	26145	834	277	20886385	21022861	-1	None	FLJ21820
2	C2orf43	ENSG00000118961	ENST00000541941	protein_coding	KNOWN	None	26145	588	195	20886567	21022849	-1	None	FLJ21820
2	C2orf43	ENSG00000118961	ENST00000440866	protein_coding	KNOWN	None	26145	501	166	20886509	21022830	-1	None	FLJ21820
3	PIK3R4	ENSG00000196455	ENST00000356763	protein_coding	KNOWN	CCDS3067	8982	4077	1358	130397779	130465673	-1	None	VPS15, p150
3	PIK3R4	ENSG00000196455	ENST00000511760	retained_intron	KNOWN	None	8982	None	None	130397854	130399915	-1	None	VPS15, p150
3	PIK3R4	ENSG00000196455	ENST00000512362	retained_intron	KNOWN	None	8982	None	None	130399365	130405259	-1	None	VPS15, p150
3	PIK3R4	ENSG00000196455	ENST00000512677	processed_transcript	KNOWN	None	8982	None	None	130399448	130409501	-1	None	VPS15, p150
3	PIK3R4	ENSG00000196455	ENST00000508273	protein_coding	PUTATIVE	None	8982	579	192	130427166	130442659	-1	None	VPS15, p150
3	PIK3R4	ENSG00000196455	ENST00000507330	protein_coding	PUTATIVE	None	8982	387	128	130435261	130444802	-1	None	VPS15, p150
3	PIK3R4	ENSG00000196455	ENST00000512430	protein_coding	PUTATIVE	None	8982	380	125	130435268	130442737	-1	None	VPS15, p150
3	PIK3R4	ENSG00000196455	ENST00000504834	processed_transcript	KNOWN	None	8982	None	None	130437375	130452782	-1	None	VPS15, p150
16	None	ENSG00000261816	ENST00000568587	lincRNA	KNOWN	None	None	None	None	88225092	88227273	-1	None	None
HSCHR6_MHC_MCF	ATF6B	ENSG00000228628	ENST00000425571	protein_coding	KNOWN	None	2349	2112	703	32159472	32172448	-1	CREBL1	G13
HSCHR6_MHC_MCF	ATF6B	ENSG00000228628	ENST00000435768	protein_coding	KNOWN	None	2349	2103	700	32159472	32172461	-1	CREBL1	G13
HSCHR6_MHC_MCF	ATF6B	ENSG00000228628	ENST00000436157	protein_coding	KNOWN	None	2349	425	140	32160916	32162099	-1	CREBL1	G13
HSCHR6_MHC_MCF	ATF6B	ENSG00000228628	ENST00000462947	retained_intron	KNOWN	None	2349	None	None	32162985	32164227	-1	CREBL1	G13
HSCHR6_MHC_MCF	ATF6B	ENSG00000228628	ENST00000461317	retained_intron	KNOWN	None	2349	None	None	32163039	32164628	-1	CREBL1	G13
HSCHR6_MHC_MCF	ATF6B	ENSG00000228628	ENST00000492011	retained_intron	KNOWN	None	2349	None	None	32164650	32172430	-1	CREBL1	G13
HSCHR6_MHC_MCF	ATF6B	ENSG00000228628	ENST00000483144	retained_intron	KNOWN	None	2349	None	None	32164717	32171975	-1	CREBL1	G13
HSCHR6_MHC_MCF	ATF6B	ENSG00000228628	ENST00000476416	processed_transcript	KNOWN	None	2349	None	None	32170250	32172426	-1	CREBL1	G13
HSCHR6_MHC_MCF	ATF6B	ENSG00000228628	ENST00000553220	protein_coding	KNOWN	None	2349	669	222	32142344	32172419	-1	CREBL1	G13
12	ERP27	ENSG00000139055	ENST00000266397	protein_coding	KNOWN	CCDS8670	26495	822	273	15066969	15092016	-1	C12orf46	FLJ32115, ERp27, PDIA8
12	ERP27	ENSG00000139055	ENST00000540097	protein_coding	PUTATIVE	None	26495	519	172	15067346	15082059	-1	C12orf46	FLJ32115, ERp27, PDIA8
12	ERP27	ENSG00000139055	ENST00000544881	processed_transcript	PUTATIVE	None	26495	None	None	15068580	15070213	-1	C12orf46	FLJ32115, ERp27, PDIA8
16	None	ENSG00000260420	ENST00000569362	lincRNA	KNOWN	None	None	None	None	88227920	88228823	1	None	None
2	CFC1	ENSG00000136698	ENST00000259216	protein_coding	KNOWN	CCDS2162	18292	672	223	131350339	131357123	-1	None	CRYPTIC, HTX2
16	None	ENSG00000261273	ENST00000563190	lincRNA	KNOWN	None	None	None	None	88268391	88336117	1	None	None
16	None	ENSG00000259725	ENST00000559802	lincRNA	KNOWN	None	None	None	None	54971698	54972583	-1	None	None
16	None	ENSG00000259725	ENST00000558156	lincRNA	KNOWN	None	None	None	None	54971943	54972583	-1	None	None
6	USP8P1	ENSG00000214892	ENST00000494673	processed_pseudogene	KNOWN	None	13987	None	None	31243349	31246531	1	USP8P	KIAA0055-hom, D84394.7
6	RPL3P2	ENSG00000227939	ENST00000413027	processed_pseudogene	KNOWN	None	17834	None	None	31248094	31249296	1	None	RPL3-Hom
16	None	ENSG00000260147	ENST00000568888	processed_pseudogene	KNOWN	None	None	None	None	55041894	55042218	1	None	None
16	None	ENSG00000259283	ENST00000558730	antisense	KNOWN	None	None	None	None	55293881	55367500	-1	None	None
5	ANXA6	ENSG00000197043	ENST00000522664	protein_coding	PUTATIVE	None	544	274	90	150480273	150484833	-1	ANX6	None
5	ANXA6	ENSG00000197043	ENST00000354546	protein_coding	KNOWN	CCDS47315	544	2022	673	150480666	150537443	-1	ANX6	None
5	ANXA6	ENSG00000197043	ENST00000523714	protein_coding	PUTATIVE	CCDS54941	544	1926	641	150480670	150521201	-1	ANX6	None
5	ANXA6	ENSG00000197043	ENST00000377751	protein_coding	NOVEL	None	544	993	330	150480670	150537313	-1	ANX6	None
5	ANXA6	ENSG00000197043	ENST00000521512	protein_coding	NOVEL	None	544	1383	460	150480705	150537321	-1	ANX6	None
5	ANXA6	ENSG00000197043	ENST00000517486	protein_coding	NOVEL	None	544	469	155	150481041	150537308	-1	ANX6	None
5	ANXA6	ENSG00000197043	ENST00000519644	nonsense_mediated_decay	KNOWN	None	544	285	94	150498935	150537328	-1	ANX6	None
5	ANXA6	ENSG00000197043	ENST00000520054	retained_intron	KNOWN	None	544	None	None	150501782	150507932	-1	ANX6	None
5	ANXA6	ENSG00000197043	ENST00000517707	retained_intron	KNOWN	None	544	None	None	150506006	150512884	-1	ANX6	None
5	ANXA6	ENSG00000197043	ENST00000517677	nonsense_mediated_decay	KNOWN	None	544	390	129	150509021	150537326	-1	ANX6	None
5	ANXA6	ENSG00000197043	ENST00000521749	protein_coding	PUTATIVE	None	544	450	149	150513988	150521216	-1	ANX6	None
5	ANXA6	ENSG00000197043	ENST00000517757	protein_coding	PUTATIVE	None	544	389	128	150515821	150537326	-1	ANX6	None
5	ANXA6	ENSG00000197043	ENST00000520378	retained_intron	KNOWN	None	544	None	None	150516774	150537346	-1	ANX6	None
5	ANXA6	ENSG00000197043	ENST00000523164	protein_coding	KNOWN	None	544	331	109	150516870	150531040	-1	ANX6	None
5	ANXA6	ENSG00000197043	ENST00000519610	processed_transcript	KNOWN	None	544	None	None	150534446	150537322	-1	ANX6	None
5	ANXA6	ENSG00000197043	ENST00000356496	protein_coding	KNOWN	None	544	2004	667	150480670	150537313	-1	ANX6	None
6	WASF5P	ENSG00000231402	ENST00000428639	processed_pseudogene	KNOWN	None	21665	None	None	31255287	31256741	-1	None	Em:D84394.5
16	RN7SL841P	ENSG00000239555	ENST00000470547	misc_RNA	KNOWN	None	46857	None	None	55325293	55325587	-1	None	None
6	None	ENSG00000256166	ENST00000539514	lincRNA	KNOWN	None	None	None	None	31261685	31269419	-1	None	None
3	ZNF619	ENSG00000177873	ENST00000314686	protein_coding	KNOWN	None	26910	1683	560	40518604	40529877	1	None	FLJ90764
3	ZNF619	ENSG00000177873	ENST00000462961	retained_intron	KNOWN	None	26910	None	None	40518633	40523619	1	None	FLJ90764
3	ZNF619	ENSG00000177873	ENST00000520737	processed_transcript	KNOWN	None	26910	None	None	40518633	40530069	1	None	FLJ90764
3	ZNF619	ENSG00000177873	ENST00000494154	nonsense_mediated_decay	KNOWN	None	26910	180	59	40518675	40529924	1	None	FLJ90764
3	ZNF619	ENSG00000177873	ENST00000522736	protein_coding	KNOWN	None	26910	1704	567	40519261	40529750	1	None	FLJ90764
3	ZNF619	ENSG00000177873	ENST00000521353	protein_coding	KNOWN	CCDS46802	26910	1851	616	40519471	40529750	1	None	FLJ90764
3	ZNF619	ENSG00000177873	ENST00000432264	protein_coding	KNOWN	CCDS46803	26910	1731	576	40519471	40529750	1	None	FLJ90764
3	ZNF619	ENSG00000177873	ENST00000456778	protein_coding	KNOWN	CCDS46801	26910	1599	532	40518633	40530069	1	None	FLJ90764
3	ZNF619	ENSG00000177873	ENST00000447116	protein_coding	KNOWN	CCDS46802	26910	1851	616	40518604	40531727	1	None	FLJ90764
3	ZNF619	ENSG00000177873	ENST00000429348	protein_coding	KNOWN	CCDS46803	26910	1731	576	40518604	40531727	1	None	FLJ90764
16	None	ENSG00000263207	ENST00000573934	lincRNA	KNOWN	None	None	None	None	55366267	55366879	1	None	None
7	STRIP2	ENSG00000128578	ENST00000249344	protein_coding	KNOWN	CCDS34752	22209	2505	834	129074274	129128240	1	FAM40B	KIAA1170, FAR11B
7	STRIP2	ENSG00000128578	ENST00000435494	protein_coding	KNOWN	CCDS47709	22209	2277	758	129074287	129123472	1	FAM40B	KIAA1170, FAR11B
7	STRIP2	ENSG00000128578	ENST00000465033	retained_intron	KNOWN	None	22209	None	None	129098083	129100389	1	FAM40B	KIAA1170, FAR11B
16	RPL31P56	ENSG00000240760	ENST00000491087	processed_pseudogene	KNOWN	None	36336	None	None	55386633	55387000	-1	None	None
12	TULP3	ENSG00000078246	ENST00000540184	nonsense_mediated_decay	KNOWN	None	12425	513	170	2986389	3043728	1	None	TUBL3
12	TULP3	ENSG00000078246	ENST00000544943	protein_coding	PUTATIVE	None	12425	411	136	3000053	3048511	1	None	TUBL3
12	TULP3	ENSG00000078246	ENST00000538354	nonsense_mediated_decay	KNOWN	None	12425	120	39	3000057	3048726	1	None	TUBL3
12	TULP3	ENSG00000078246	ENST00000545331	nonsense_mediated_decay	KNOWN	None	12425	120	39	3000057	3048954	1	None	TUBL3
12	TULP3	ENSG00000078246	ENST00000448120	protein_coding	KNOWN	CCDS8519	12425	1329	442	3000063	3050306	1	None	TUBL3
12	TULP3	ENSG00000078246	ENST00000397132	protein_coding	PUTATIVE	CCDS53737	12425	1506	501	3000073	3050296	1	None	TUBL3
12	TULP3	ENSG00000078246	ENST00000541678	protein_coding	PUTATIVE	None	12425	400	132	3046844	3049504	1	None	TUBL3
12	TULP3	ENSG00000078246	ENST00000538704	protein_coding	PUTATIVE	None	12425	328	108	3046877	3049504	1	None	TUBL3
1	SH3BGRL3	ENSG00000142669	ENST00000270792	protein_coding	KNOWN	CCDS278	15568	282	93	26605667	26608007	1	None	None
1	SH3BGRL3	ENSG00000142669	ENST00000319041	protein_coding	KNOWN	None	15568	267	88	26606613	26607941	1	None	None
5	None	ENSG00000251279	ENST00000506902	antisense	KNOWN	None	None	None	None	60457897	60527867	1	None	None
10	None	ENSG00000232462	ENST00000429307	sense_intronic	KNOWN	None	None	None	None	49363368	49364177	-1	None	None
5	None	ENSG00000206958	ENST00000384231	snoRNA	NOVEL	None	None	None	None	87678589	87678724	1	None	None
22	SERHL2	ENSG00000183569	ENST00000447870	protein_coding	PUTATIVE	None	29446	299	98	42949623	42954418	1	None	None
22	SERHL2	ENSG00000183569	ENST00000477564	nonsense_mediated_decay	KNOWN	None	29446	630	209	42949865	42970387	1	None	None
22	SERHL2	ENSG00000183569	ENST00000534080	retained_intron	KNOWN	None	29446	None	None	42949891	42967670	1	None	None
22	SERHL2	ENSG00000183569	ENST00000416156	nonsense_mediated_decay	KNOWN	None	29446	396	131	42949924	42970003	1	None	None
22	SERHL2	ENSG00000183569	ENST00000327678	protein_coding	KNOWN	CCDS14037	29446	945	314	42949925	42970388	1	None	None
22	SERHL2	ENSG00000183569	ENST00000527167	retained_intron	KNOWN	None	29446	None	None	42949941	42970387	1	None	None
22	SERHL2	ENSG00000183569	ENST00000407614	protein_coding	KNOWN	None	29446	405	134	42950021	42970171	1	None	None
22	SERHL2	ENSG00000183569	ENST00000335879	protein_coding	KNOWN	None	29446	753	250	42950027	42970061	1	None	None
22	SERHL2	ENSG00000183569	ENST00000472589	retained_intron	KNOWN	None	29446	None	None	42950915	42951972	1	None	None
22	SERHL2	ENSG00000183569	ENST00000340239	protein_coding	KNOWN	None	29446	612	203	42949925	42970388	1	None	None
5	None	ENSG00000250306	ENST00000514065	processed_pseudogene	KNOWN	None	None	None	None	87678765	87679077	1	None	None
2	None	ENSG00000236172	ENST00000593202	lincRNA	KNOWN	None	None	None	None	6755722	6774002	-1	None	None
2	None	ENSG00000236172	ENST00000589150	lincRNA	KNOWN	None	None	None	None	6757334	6773843	-1	None	None
2	None	ENSG00000236172	ENST00000586893	lincRNA	KNOWN	None	None	None	None	6757444	6790379	-1	None	None
2	None	ENSG00000236172	ENST00000585834	lincRNA	KNOWN	None	None	None	None	6757540	6774916	-1	None	None
2	None	ENSG00000236172	ENST00000589597	lincRNA	KNOWN	None	None	None	None	6757605	6774006	-1	None	None
2	None	ENSG00000236172	ENST00000586753	lincRNA	KNOWN	None	None	None	None	6757788	6773954	-1	None	None
2	None	ENSG00000236172	ENST00000591450	lincRNA	KNOWN	None	None	None	None	6757836	6774020	-1	None	None
2	None	ENSG00000236172	ENST00000590489	lincRNA	KNOWN	None	None	None	None	6757846	6774048	-1	None	None
2	None	ENSG00000236172	ENST00000592565	lincRNA	KNOWN	None	None	None	None	6757946	6774055	-1	None	None
2	None	ENSG00000236172	ENST00000591575	lincRNA	KNOWN	None	None	None	None	6758204	6790379	-1	None	None
2	None	ENSG00000236172	ENST00000590276	lincRNA	KNOWN	None	None	None	None	6758209	6775306	-1	None	None
2	None	ENSG00000236172	ENST00000592394	lincRNA	KNOWN	None	None	None	None	6758248	6778959	-1	None	None
2	None	ENSG00000236172	ENST00000590865	lincRNA	KNOWN	None	None	None	None	6758400	6779250	-1	None	None
2	None	ENSG00000236172	ENST00000455317	lincRNA	KNOWN	None	None	None	None	6766241	6773919	-1	None	None
2	None	ENSG00000236172	ENST00000456028	lincRNA	KNOWN	None	None	None	None	6766244	6774838	-1	None	None
2	None	ENSG00000236172	ENST00000590971	lincRNA	KNOWN	None	None	None	None	6766254	6790379	-1	None	None
2	None	ENSG00000236172	ENST00000587748	lincRNA	KNOWN	None	None	None	None	6766255	6790379	-1	None	None
2	None	ENSG00000236172	ENST00000591060	lincRNA	KNOWN	None	None	None	None	6766271	6775846	-1	None	None
2	None	ENSG00000236172	ENST00000589024	lincRNA	KNOWN	None	None	None	None	6772393	6774101	-1	None	None
2	None	ENSG00000236172	ENST00000585872	lincRNA	KNOWN	None	None	None	None	6772454	6775726	-1	None	None
2	None	ENSG00000236172	ENST00000591018	lincRNA	KNOWN	None	None	None	None	6772573	6790379	-1	None	None
2	None	ENSG00000236172	ENST00000591053	lincRNA	KNOWN	None	None	None	None	6772592	6776295	-1	None	None
2	None	ENSG00000236172	ENST00000589962	lincRNA	KNOWN	None	None	None	None	6772832	6776352	-1	None	None
2	None	ENSG00000236172	ENST00000588384	lincRNA	KNOWN	None	None	None	None	6773801	6775576	-1	None	None
2	None	ENSG00000236172	ENST00000587316	lincRNA	KNOWN	None	None	None	None	6773921	6790379	-1	None	None
2	None	ENSG00000236172	ENST00000588108	lincRNA	KNOWN	None	None	None	None	6773970	6778880	-1	None	None
2	None	ENSG00000236172	ENST00000590961	lincRNA	KNOWN	None	None	None	None	6774001	6775955	-1	None	None
2	None	ENSG00000236172	ENST00000587628	lincRNA	KNOWN	None	None	None	None	6774775	6779411	-1	None	None
2	None	ENSG00000236172	ENST00000593277	lincRNA	KNOWN	None	None	None	None	6774781	6790379	-1	None	None
2	None	ENSG00000236172	ENST00000590006	lincRNA	KNOWN	None	None	None	None	6774949	6790379	-1	None	None
2	None	ENSG00000236172	ENST00000591129	lincRNA	KNOWN	None	None	None	None	6775252	6790379	-1	None	None
2	None	ENSG00000236172	ENST00000592365	lincRNA	KNOWN	None	None	None	None	6775252	6790379	-1	None	None
2	None	ENSG00000236172	ENST00000591093	lincRNA	KNOWN	None	None	None	None	6775364	6790341	-1	None	None
2	None	ENSG00000236172	ENST00000585789	lincRNA	KNOWN	None	None	None	None	6775584	6787700	-1	None	None
2	None	ENSG00000236172	ENST00000588330	lincRNA	KNOWN	None	None	None	None	6775966	6789461	-1	None	None
2	None	ENSG00000236172	ENST00000593269	lincRNA	KNOWN	None	None	None	None	6776193	6778937	-1	None	None
2	None	ENSG00000236172	ENST00000591400	lincRNA	KNOWN	None	None	None	None	6776709	6790633	-1	None	None
2	None	ENSG00000236172	ENST00000586129	lincRNA	KNOWN	None	None	None	None	6776765	6790379	-1	None	None
2	None	ENSG00000236172	ENST00000585718	lincRNA	KNOWN	None	None	None	None	6777816	6779257	-1	None	None
2	None	ENSG00000236172	ENST00000588145	lincRNA	KNOWN	None	None	None	None	6777912	6789370	-1	None	None
2	None	ENSG00000236172	ENST00000588051	lincRNA	KNOWN	None	None	None	None	6778431	6790379	-1	None	None
2	None	ENSG00000236172	ENST00000592229	lincRNA	KNOWN	None	None	None	None	6778448	6790379	-1	None	None
2	None	ENSG00000236172	ENST00000585781	lincRNA	KNOWN	None	None	None	None	6778478	6790379	-1	None	None
2	None	ENSG00000236172	ENST00000591731	lincRNA	KNOWN	None	None	None	None	6778883	6790379	-1	None	None
2	None	ENSG00000236172	ENST00000588220	lincRNA	KNOWN	None	None	None	None	6778924	6790379	-1	None	None
2	None	ENSG00000236172	ENST00000431336	lincRNA	KNOWN	None	None	None	None	6779255	6790651	-1	None	None
2	None	ENSG00000236172	ENST00000587162	lincRNA	KNOWN	None	None	None	None	6780395	6790379	-1	None	None
2	None	ENSG00000236172	ENST00000585767	lincRNA	KNOWN	None	None	None	None	6789223	6790379	-1	None	None
2	None	ENSG00000236172	ENST00000587050	lincRNA	KNOWN	None	None	None	None	6789236	6790379	-1	None	None
2	None	ENSG00000236172	ENST00000425711	lincRNA	KNOWN	None	None	None	None	6789237	6790442	-1	None	None
2	None	ENSG00000236172	ENST00000415657	lincRNA	KNOWN	None	None	None	None	6789237	6790576	-1	None	None
2	None	ENSG00000236172	ENST00000450467	lincRNA	KNOWN	None	None	None	None	6789238	6790375	-1	None	None
2	None	ENSG00000236172	ENST00000585810	lincRNA	KNOWN	None	None	None	None	6789284	6790639	-1	None	None
2	None	ENSG00000236172	ENST00000592730	lincRNA	KNOWN	None	None	None	None	6789284	6790657	-1	None	None
2	None	ENSG00000236172	ENST00000592816	lincRNA	KNOWN	None	None	None	None	6789284	6790667	-1	None	None
10	None	ENSG00000231575	ENST00000432707	sense_intronic	KNOWN	None	None	None	None	95868873	95880864	1	None	None
16	None	ENSG00000260135	ENST00000569037	lincRNA	KNOWN	None	None	None	None	55461470	55496209	-1	None	None
16	None	ENSG00000260135	ENST00000565307	lincRNA	KNOWN	None	None	None	None	55463047	55478671	-1	None	None
6	OR4F7P	ENSG00000217874	ENST00000402444	unprocessed_pseudogene	KNOWN	None	15089	None	None	170948694	170949624	1	OR4F10	None
5	None	ENSG00000250156	ENST00000506041	lincRNA	KNOWN	None	None	None	None	87704799	87734907	-1	None	None
5	None	ENSG00000250156	ENST00000606189	lincRNA	KNOWN	None	None	None	None	87722228	87725631	-1	None	None
10	HDAC1P1	ENSG00000234724	ENST00000455482	processed_pseudogene	KNOWN	None	45190	None	None	95897505	95899257	1	None	None
7	GIMAP5	ENSG00000196329	ENST00000498181	processed_transcript	KNOWN	None	18005	None	None	150419341	150439470	1	IAN4L1	HIMAP3
7	GIMAP5	ENSG00000196329	ENST00000358647	protein_coding	KNOWN	CCDS5907	18005	924	307	150434436	150441151	1	IAN4L1	HIMAP3
7	GIMAP5	ENSG00000196329	ENST00000479556	processed_transcript	KNOWN	None	18005	None	None	150434697	150440703	1	IAN4L1	HIMAP3
7	GIMAP5	ENSG00000196329	ENST00000476324	retained_intron	KNOWN	None	18005	None	None	150434698	150440734	1	IAN4L1	HIMAP3
7	GIMAP5	ENSG00000196329	ENST00000466347	processed_transcript	KNOWN	None	18005	None	None	150434715	150447121	1	IAN4L1	HIMAP3
7	GIMAP5	ENSG00000196329	ENST00000469272	retained_intron	KNOWN	None	18005	None	None	150434740	150437592	1	IAN4L1	HIMAP3
7	GIMAP5	ENSG00000196329	ENST00000493304	processed_transcript	PUTATIVE	None	18005	None	None	150437323	150439605	1	IAN4L1	HIMAP3
6	None	ENSG00000234986	ENST00000448824	lincRNA	KNOWN	None	None	None	None	171004401	171006038	1	None	None
5	GPR151	ENSG00000173250	ENST00000311104	protein_coding	KNOWN	CCDS34266	23624	1260	419	145892666	145895753	-1	None	PGR7, GALR4
9	VN2R3P	ENSG00000234680	ENST00000422626	unitary_pseudogene	KNOWN	None	33209	None	None	39016966	39039591	1	None	None
16	None	ENSG00000261997	ENST00000576365	lincRNA	KNOWN	None	None	None	None	55572112	55575939	1	None	None
15	INO80	ENSG00000128908	ENST00000361937	protein_coding	KNOWN	CCDS10071	26956	4671	1556	41271078	41408552	-1	INOC1	KIAA1259, Ino80, hINO80, INO80A
15	INO80	ENSG00000128908	ENST00000558357	nonsense_mediated_decay	KNOWN	None	26956	3315	1104	41271664	41408330	-1	INOC1	KIAA1259, Ino80, hINO80, INO80A
15	INO80	ENSG00000128908	ENST00000558270	retained_intron	KNOWN	None	26956	None	None	41272109	41275417	-1	INOC1	KIAA1259, Ino80, hINO80, INO80A
15	INO80	ENSG00000128908	ENST00000560689	retained_intron	KNOWN	None	26956	None	None	41272500	41276184	-1	INOC1	KIAA1259, Ino80, hINO80, INO80A
15	INO80	ENSG00000128908	ENST00000560799	retained_intron	KNOWN	None	26956	None	None	41276542	41289908	-1	INOC1	KIAA1259, Ino80, hINO80, INO80A
15	INO80	ENSG00000128908	ENST00000561244	processed_transcript	KNOWN	None	26956	None	None	41277547	41297555	-1	INOC1	KIAA1259, Ino80, hINO80, INO80A
15	INO80	ENSG00000128908	ENST00000557849	nonsense_mediated_decay	KNOWN	None	26956	82	26	41289775	41319797	-1	INOC1	KIAA1259, Ino80, hINO80, INO80A
15	INO80	ENSG00000128908	ENST00000559995	nonsense_mediated_decay	KNOWN	None	26956	239	78	41342137	41361820	-1	INOC1	KIAA1259, Ino80, hINO80, INO80A
15	INO80	ENSG00000128908	ENST00000561172	retained_intron	KNOWN	None	26956	None	None	41361710	41364213	-1	INOC1	KIAA1259, Ino80, hINO80, INO80A
15	INO80	ENSG00000128908	ENST00000401393	protein_coding	KNOWN	CCDS10071	26956	4671	1556	41271093	41408351	-1	INOC1	KIAA1259, Ino80, hINO80, INO80A
10	RNU6-657P	ENSG00000206631	ENST00000383904	snRNA	KNOWN	None	47620	None	None	95915396	95915502	-1	None	None
6	None	ENSG00000213863	ENST00000438217	lincRNA	KNOWN	None	None	None	None	171034285	171037576	1	None	None
5	None	ENSG00000271904	ENST00000504034	lincRNA	KNOWN	None	None	None	None	87729709	87794514	-1	None	None
10	None	ENSG00000225482	ENST00000425165	processed_pseudogene	KNOWN	None	None	None	None	49500742	49501460	1	None	None
6	None	ENSG00000230423	ENST00000426839	lincRNA	KNOWN	None	None	None	None	171044839	171045633	1	None	None
12	SLCO1C1	ENSG00000139155	ENST00000534996	processed_transcript	KNOWN	None	13819	None	None	20848289	20849909	1	SLC21A14	OATP-F, OATP1C1, OATP1
12	SLCO1C1	ENSG00000139155	ENST00000539415	nonsense_mediated_decay	KNOWN	None	13819	141	46	20848365	20905630	1	SLC21A14	OATP-F, OATP1C1, OATP1
12	SLCO1C1	ENSG00000139155	ENST00000540354	protein_coding	KNOWN	CCDS53758	13819	1992	663	20848396	20905751	1	SLC21A14	OATP-F, OATP1C1, OATP1
12	SLCO1C1	ENSG00000139155	ENST00000266509	protein_coding	KNOWN	CCDS8683	13819	2139	712	20848399	20906320	1	SLC21A14	OATP-F, OATP1C1, OATP1
12	SLCO1C1	ENSG00000139155	ENST00000497911	retained_intron	KNOWN	None	13819	None	None	20848495	20853173	1	SLC21A14	OATP-F, OATP1C1, OATP1
12	SLCO1C1	ENSG00000139155	ENST00000535609	processed_transcript	KNOWN	None	13819	None	None	20848505	20850430	1	SLC21A14	OATP-F, OATP1C1, OATP1
12	SLCO1C1	ENSG00000139155	ENST00000545102	protein_coding	KNOWN	CCDS53759	13819	1839	612	20848531	20906148	1	SLC21A14	OATP-F, OATP1C1, OATP1
12	SLCO1C1	ENSG00000139155	ENST00000539443	processed_transcript	KNOWN	None	13819	None	None	20848684	20849877	1	SLC21A14	OATP-F, OATP1C1, OATP1
12	SLCO1C1	ENSG00000139155	ENST00000545604	protein_coding	KNOWN	CCDS53757	13819	2193	730	20848289	20906318	1	SLC21A14	OATP-F, OATP1C1, OATP1
12	SLCO1C1	ENSG00000139155	ENST00000381552	protein_coding	KNOWN	CCDS53757	13819	2193	730	20848399	20906318	1	SLC21A14	OATP-F, OATP1C1, OATP1
3	SPICE1	ENSG00000163611	ENST00000295872	protein_coding	KNOWN	CCDS2973	25083	2568	855	113161565	113234003	-1	CCDC52	SPICE
3	SPICE1	ENSG00000163611	ENST00000467618	protein_coding	PUTATIVE	None	25083	569	188	113164101	113207837	-1	CCDC52	SPICE
3	SPICE1	ENSG00000163611	ENST00000496105	retained_intron	KNOWN	None	25083	None	None	113167682	113212977	-1	CCDC52	SPICE
3	SPICE1	ENSG00000163611	ENST00000495812	protein_coding	KNOWN	None	25083	520	172	113207883	113233691	-1	CCDC52	SPICE
3	SPICE1	ENSG00000163611	ENST00000480527	protein_coding	KNOWN	None	25083	482	159	113212063	113234034	-1	CCDC52	SPICE
3	SPICE1	ENSG00000163611	ENST00000460832	retained_intron	KNOWN	None	25083	None	None	113217783	113233689	-1	CCDC52	SPICE
3	SPICE1	ENSG00000163611	ENST00000496859	protein_coding	KNOWN	None	25083	57	18	113225396	113233753	-1	CCDC52	SPICE
X	None	ENSG00000228906	ENST00000444482	lincRNA	KNOWN	None	None	None	None	73168808	73169393	1	None	None
16	CES1P2	ENSG00000260765	ENST00000566467	unprocessed_pseudogene	KNOWN	None	48928	None	None	55762027	55784023	1	None	None
7	HOXA6	ENSG00000106006	ENST00000222728	protein_coding	KNOWN	CCDS5407	5107	702	233	27185015	27187393	-1	HOX1B, HOX1	None
7	HOXA6	ENSG00000106006	ENST00000521478	processed_transcript	KNOWN	None	5107	None	None	27185281	27190222	-1	HOX1B, HOX1	None
7	HOXA6	ENSG00000106006	ENST00000498652	processed_transcript	KNOWN	None	5107	None	None	27186985	27192217	-1	HOX1B, HOX1	None
3	OTOL1	ENSG00000182447	ENST00000327928	protein_coding	KNOWN	CCDS46948	34071	1434	477	161214596	161221730	1	None	C1QTNF15
X	None	ENSG00000271199	ENST00000603360	sense_overlapping	KNOWN	None	None	None	None	73177894	73189320	-1	None	None
HSCHR6_MHC_COX	ZFP57	ENSG00000226858	ENST00000435906	protein_coding	KNOWN	None	18791	1551	516	29636858	29645520	-1	C6orf40	ZNF698, bA145L22, bA145L22.2
HSCHR6_MHC_COX	ZFP57	ENSG00000226858	ENST00000549167	protein_coding	KNOWN	None	18791	1611	536	29636767	29641556	-1	C6orf40	ZNF698, bA145L22, bA145L22.2
HSCHR6_MHC_COX	ZFP57	ENSG00000226858	ENST00000549501	protein_coding	KNOWN	None	18791	1551	516	29636767	29641405	-1	C6orf40	ZNF698, bA145L22, bA145L22.2
Y	TCEB1P9	ENSG00000231540	ENST00000418624	processed_pseudogene	KNOWN	None	38145	None	None	25954968	25955206	-1	None	None
2	POTEJ	ENSG00000222038	ENST00000409602	protein_coding	NOVEL	CCDS59432	37094	3117	1038	131369054	131415664	1	None	POTE2beta
Y	CDY15P	ENSG00000223362	ENST00000421995	unprocessed_pseudogene	KNOWN	None	23859	None	None	26001669	26003238	-1	None	None
4	ENOPH1	ENSG00000145293	ENST00000273920	protein_coding	KNOWN	CCDS3594	24599	786	261	83351715	83382244	1	None	MASA, E1, mtnC
4	ENOPH1	ENSG00000145293	ENST00000509635	protein_coding	PUTATIVE	None	24599	522	173	83351801	83382208	1	None	MASA, E1, mtnC
4	ENOPH1	ENSG00000145293	ENST00000505846	nonsense_mediated_decay	KNOWN	None	24599	348	115	83351815	83382240	1	None	MASA, E1, mtnC
20	PLCB4	ENSG00000101333	ENST00000407043	protein_coding	KNOWN	None	9059	339	112	9049410	9319654	1	None	None
20	PLCB4	ENSG00000101333	ENST00000441846	protein_coding	KNOWN	None	9059	330	109	9049454	9319645	1	None	None
20	PLCB4	ENSG00000101333	ENST00000437503	protein_coding	KNOWN	None	9059	244	80	9049748	9319559	1	None	None
20	PLCB4	ENSG00000101333	ENST00000416836	protein_coding	KNOWN	None	9059	179	58	9147005	9318668	1	None	None
20	PLCB4	ENSG00000101333	ENST00000414679	protein_coding	KNOWN	CCDS54447	9059	3564	1187	9288447	9460004	1	None	None
20	PLCB4	ENSG00000101333	ENST00000378493	protein_coding	KNOWN	CCDS13105	9059	3528	1175	9288447	9461889	1	None	None
20	PLCB4	ENSG00000101333	ENST00000492632	processed_transcript	KNOWN	None	9059	None	None	9288447	9461889	1	None	None
20	PLCB4	ENSG00000101333	ENST00000378501	protein_coding	KNOWN	CCDS13104	9059	3585	1194	9288447	9461889	1	None	None
20	PLCB4	ENSG00000101333	ENST00000464199	processed_transcript	KNOWN	None	9059	None	None	9351581	9461889	1	None	None
20	PLCB4	ENSG00000101333	ENST00000473151	processed_transcript	KNOWN	None	9059	None	None	9351609	9461889	1	None	None
20	PLCB4	ENSG00000101333	ENST00000482123	processed_transcript	KNOWN	None	9059	None	None	9351609	9461889	1	None	None
20	PLCB4	ENSG00000101333	ENST00000334005	protein_coding	KNOWN	CCDS13104	9059	3585	1194	9049701	9461460	1	None	None
20	PLCB4	ENSG00000101333	ENST00000378473	protein_coding	KNOWN	CCDS54447	9059	3564	1187	9049701	9461460	1	None	None
20	PLCB4	ENSG00000101333	ENST00000278655	protein_coding	KNOWN	CCDS13105	9059	3528	1175	9198037	9461460	1	None	None
10	None	ENSG00000228553	ENST00000447227	antisense	KNOWN	None	None	None	None	95984917	95987045	-1	None	None
19	MIR4999	ENSG00000265390	ENST00000585029	miRNA	KNOWN	None	43494	None	None	8454174	8454264	-1	None	hsa-mir-4999
19	ZNF671	ENSG00000083814	ENST00000600125	nonsense_mediated_decay	KNOWN	None	26279	324	107	58231119	58238981	-1	None	FLJ23506
19	ZNF671	ENSG00000083814	ENST00000317398	protein_coding	KNOWN	CCDS12961	26279	1605	534	58231119	58238992	-1	None	FLJ23506
19	ZNF671	ENSG00000083814	ENST00000601584	nonsense_mediated_decay	KNOWN	None	26279	171	56	58231489	58238990	-1	None	FLJ23506
19	ZNF671	ENSG00000083814	ENST00000596939	protein_coding	PUTATIVE	None	26279	171	56	58233055	58238983	-1	None	FLJ23506
19	ZNF671	ENSG00000083814	ENST00000594803	processed_transcript	KNOWN	None	26279	None	None	58233690	58238990	-1	None	FLJ23506
19	ZNF671	ENSG00000083814	ENST00000599961	processed_transcript	KNOWN	None	26279	None	None	58234633	58238982	-1	None	FLJ23506
19	ZNF671	ENSG00000083814	ENST00000335820	protein_coding	KNOWN	None	26279	1311	436	58231489	58238990	-1	None	FLJ23506
Y	XKRYP4	ENSG00000231026	ENST00000414395	unprocessed_pseudogene	KNOWN	None	23911	None	None	26063388	26063870	-1	None	None
X	CT47A2	ENSG00000242362	ENST00000458218	protein_coding	KNOWN	CCDS35390	33283	867	288	120111466	120114778	-1	None	CT47.2
11	C11orf73	ENSG00000149196	ENST00000533986	protein_coding	PUTATIVE	None	26938	585	194	86013253	86056680	1	None	HSPC138, HSPC179, Hikeshi, OPI10
11	C11orf73	ENSG00000149196	ENST00000278483	protein_coding	KNOWN	CCDS8275	26938	594	197	86013265	86056969	1	None	HSPC138, HSPC179, Hikeshi, OPI10
11	C11orf73	ENSG00000149196	ENST00000531485	processed_transcript	KNOWN	None	26938	None	None	86013285	86056833	1	None	HSPC138, HSPC179, Hikeshi, OPI10
11	C11orf73	ENSG00000149196	ENST00000528004	nonsense_mediated_decay	KNOWN	None	26938	279	92	86013293	86056271	1	None	HSPC138, HSPC179, Hikeshi, OPI10
11	C11orf73	ENSG00000149196	ENST00000532270	processed_transcript	KNOWN	None	26938	None	None	86013326	86048537	1	None	HSPC138, HSPC179, Hikeshi, OPI10
11	C11orf73	ENSG00000149196	ENST00000530208	processed_transcript	KNOWN	None	26938	None	None	86014398	86056705	1	None	HSPC138, HSPC179, Hikeshi, OPI10
11	C11orf73	ENSG00000149196	ENST00000529405	retained_intron	KNOWN	None	26938	None	None	86054550	86056969	1	None	HSPC138, HSPC179, Hikeshi, OPI10
19	None	ENSG00000268931	ENST00000595706	antisense	KNOWN	None	None	None	None	8488239	8492711	-1	None	None
Y	USP9YP13	ENSG00000224571	ENST00000417797	unprocessed_pseudogene	KNOWN	None	38721	None	None	26066052	26067657	1	None	None
10	PLCE1-AS1	ENSG00000268894	ENST00000596633	antisense	KNOWN	None	45193	None	None	96039034	96046827	-1	None	None
10	PLCE1-AS1	ENSG00000268894	ENST00000425267	antisense	KNOWN	None	45193	None	None	96039062	96046804	-1	None	None
10	PLCE1-AS1	ENSG00000268894	ENST00000440198	antisense	KNOWN	None	45193	None	None	96042918	96046828	-1	None	None
19	None	ENSG00000265528	ENST00000581156	miRNA	NOVEL	None	None	None	None	8611743	8611812	1	None	None
11	OR52J3	ENSG00000205495	ENST00000380370	protein_coding	KNOWN	CCDS31370	14799	936	311	5067756	5068691	1	None	None
Y	USP9YP11	ENSG00000226369	ENST00000427537	unprocessed_pseudogene	KNOWN	None	38460	None	None	26081100	26086248	1	None	None
X	FTX	ENSG00000230590	ENST00000603672	lincRNA	KNOWN	None	37190	None	None	73183790	73512177	-1	NCRNA00182, MIR374AHG	LINC00182, FLJ33139
X	FTX	ENSG00000230590	ENST00000602812	lincRNA	KNOWN	None	37190	None	None	73247971	73513409	-1	NCRNA00182, MIR374AHG	LINC00182, FLJ33139
X	FTX	ENSG00000230590	ENST00000602420	lincRNA	KNOWN	None	37190	None	None	73289193	73513307	-1	NCRNA00182, MIR374AHG	LINC00182, FLJ33139
X	FTX	ENSG00000230590	ENST00000430772	lincRNA	KNOWN	None	37190	None	None	73467699	73513362	-1	NCRNA00182, MIR374AHG	LINC00182, FLJ33139
X	FTX	ENSG00000230590	ENST00000602576	lincRNA	KNOWN	None	37190	None	None	73494177	73512430	-1	NCRNA00182, MIR374AHG	LINC00182, FLJ33139
X	FTX	ENSG00000230590	ENST00000602776	lincRNA	KNOWN	None	37190	None	None	73494191	73512364	-1	NCRNA00182, MIR374AHG	LINC00182, FLJ33139
X	FTX	ENSG00000230590	ENST00000429124	lincRNA	KNOWN	None	37190	None	None	73498209	73512435	-1	NCRNA00182, MIR374AHG	LINC00182, FLJ33139
X	FTX	ENSG00000230590	ENST00000418855	lincRNA	KNOWN	None	37190	None	None	73500236	73512186	-1	NCRNA00182, MIR374AHG	LINC00182, FLJ33139
X	FTX	ENSG00000230590	ENST00000455395	lincRNA	KNOWN	None	37190	None	None	73500296	73511910	-1	NCRNA00182, MIR374AHG	LINC00182, FLJ33139
X	FTX	ENSG00000230590	ENST00000423992	lincRNA	KNOWN	None	37190	None	None	73500766	73513374	-1	NCRNA00182, MIR374AHG	LINC00182, FLJ33139
5	LINC00461	ENSG00000245526	ENST00000506978	lincRNA	KNOWN	None	42810	None	None	87803363	87980625	-1	None	EyeLinc1
5	LINC00461	ENSG00000245526	ENST00000506664	lincRNA	KNOWN	None	42810	None	None	87836329	87907594	-1	None	EyeLinc1
5	LINC00461	ENSG00000245526	ENST00000506014	lincRNA	KNOWN	None	42810	None	None	87836545	87974262	-1	None	EyeLinc1
5	LINC00461	ENSG00000245526	ENST00000502301	lincRNA	KNOWN	None	42810	None	None	87836546	87974262	-1	None	EyeLinc1
5	LINC00461	ENSG00000245526	ENST00000508885	lincRNA	KNOWN	None	42810	None	None	87836649	87955653	-1	None	EyeLinc1
5	LINC00461	ENSG00000245526	ENST00000509405	lincRNA	KNOWN	None	42810	None	None	87836665	87980622	-1	None	EyeLinc1
5	LINC00461	ENSG00000245526	ENST00000513805	lincRNA	KNOWN	None	42810	None	None	87836702	87980642	-1	None	EyeLinc1
5	LINC00461	ENSG00000245526	ENST00000505030	lincRNA	KNOWN	None	42810	None	None	87960263	87969143	-1	None	EyeLinc1
5	LINC00461	ENSG00000245526	ENST00000500197	lincRNA	KNOWN	None	42810	None	None	87960263	87969157	-1	None	EyeLinc1
5	LINC00461	ENSG00000245526	ENST00000511014	lincRNA	KNOWN	None	42810	None	None	87960264	87980753	-1	None	EyeLinc1
5	LINC00461	ENSG00000245526	ENST00000504246	lincRNA	KNOWN	None	42810	None	None	87962138	87972116	-1	None	EyeLinc1
5	LINC00461	ENSG00000245526	ENST00000509783	lincRNA	KNOWN	None	42810	None	None	87962697	87980587	-1	None	EyeLinc1
5	LINC00461	ENSG00000245526	ENST00000515885	lincRNA	KNOWN	None	42810	None	None	87962772	87968514	-1	None	EyeLinc1
5	LINC00461	ENSG00000245526	ENST00000513026	lincRNA	KNOWN	None	42810	None	None	87963092	87974265	-1	None	EyeLinc1
5	LINC00461	ENSG00000245526	ENST00000513893	lincRNA	KNOWN	None	42810	None	None	87963160	87986858	-1	None	EyeLinc1
5	LINC00461	ENSG00000245526	ENST00000509265	lincRNA	KNOWN	None	42810	None	None	87963171	87980640	-1	None	EyeLinc1
5	LINC00461	ENSG00000245526	ENST00000384838	miRNA	KNOWN	None	42810	None	None	87962671	87962757	-1	None	EyeLinc1
20	DNAJC5	ENSG00000101152	ENST00000360864	protein_coding	KNOWN	CCDS13546	16235	597	198	62526535	62567384	1	CLN4	FLJ00118, FLJ13070, DNAJC5A
20	DNAJC5	ENSG00000101152	ENST00000470551	nonsense_mediated_decay	KNOWN	None	16235	504	167	62526535	62567384	1	CLN4	FLJ00118, FLJ13070, DNAJC5A
20	DNAJC5	ENSG00000101152	ENST00000369911	protein_coding	KNOWN	None	16235	504	167	62526518	62562472	1	CLN4	FLJ00118, FLJ13070, DNAJC5A
10	FAM204A	ENSG00000165669	ENST00000369183	protein_coding	KNOWN	CCDS7605	25794	702	233	120065401	120101832	-1	C10orf84	FLJ13188, bA319I23.1
10	FAM204A	ENSG00000165669	ENST00000452252	processed_transcript	KNOWN	None	25794	None	None	120068118	120069092	-1	C10orf84	FLJ13188, bA319I23.1
10	FAM204A	ENSG00000165669	ENST00000467890	retained_intron	KNOWN	None	25794	None	None	120069926	120070998	-1	C10orf84	FLJ13188, bA319I23.1
10	FAM204A	ENSG00000165669	ENST00000491416	processed_transcript	KNOWN	None	25794	None	None	120070148	120085861	-1	C10orf84	FLJ13188, bA319I23.1
10	FAM204A	ENSG00000165669	ENST00000470476	nonsense_mediated_decay	KNOWN	None	25794	660	219	120070232	120101827	-1	C10orf84	FLJ13188, bA319I23.1
10	FAM204A	ENSG00000165669	ENST00000469758	processed_transcript	KNOWN	None	25794	None	None	120070232	120101827	-1	C10orf84	FLJ13188, bA319I23.1
10	FAM204A	ENSG00000165669	ENST00000369172	protein_coding	KNOWN	CCDS7605	25794	702	233	120070258	120101832	-1	C10orf84	FLJ13188, bA319I23.1
10	FAM204A	ENSG00000165669	ENST00000369170	protein_coding	KNOWN	None	25794	453	150	120094626	120101752	-1	C10orf84	FLJ13188, bA319I23.1
10	FAM204A	ENSG00000165669	ENST00000490048	retained_intron	KNOWN	None	25794	None	None	120094770	120101258	-1	C10orf84	FLJ13188, bA319I23.1
10	FAM204A	ENSG00000165669	ENST00000487269	retained_intron	KNOWN	None	25794	None	None	120095537	120101840	-1	C10orf84	FLJ13188, bA319I23.1
8	ADAM2	ENSG00000104755	ENST00000347580	protein_coding	KNOWN	None	198	2151	716	39601254	39695728	-1	FTNB	PH-30b, PH30, CT15
8	ADAM2	ENSG00000104755	ENST00000379853	protein_coding	NOVEL	None	198	1740	579	39601254	39695729	-1	FTNB	PH-30b, PH30, CT15
8	ADAM2	ENSG00000104755	ENST00000265708	protein_coding	KNOWN	CCDS34884	198	2208	735	39601254	39695808	-1	FTNB	PH-30b, PH30, CT15
8	ADAM2	ENSG00000104755	ENST00000521880	protein_coding	NOVEL	None	198	2019	672	39601550	39695746	-1	FTNB	PH-30b, PH30, CT15
8	ADAM2	ENSG00000104755	ENST00000520434	processed_transcript	KNOWN	None	198	None	None	39624368	39632221	-1	FTNB	PH-30b, PH30, CT15
8	ADAM2	ENSG00000104755	ENST00000523181	processed_transcript	KNOWN	None	198	None	None	39675421	39695728	-1	FTNB	PH-30b, PH30, CT15
11	OR52E2	ENSG00000176787	ENST00000321522	protein_coding	KNOWN	CCDS31371	14769	978	325	5079880	5080857	-1	None	None
19	None	ENSG00000268970	ENST00000596451	sense_intronic	KNOWN	None	None	None	None	53100952	53102140	-1	None	None
10	PKD2L1	ENSG00000107593	ENST00000318222	protein_coding	KNOWN	CCDS7492	9011	2418	805	102047911	102090243	-1	PKD2L, PKDL	PCL, TRPP3
10	PKD2L1	ENSG00000107593	ENST00000465680	protein_coding	NOVEL	None	9011	187	61	102047917	102089729	-1	PKD2L, PKDL	PCL, TRPP3
10	PKD2L1	ENSG00000107593	ENST00000528248	nonsense_mediated_decay	KNOWN	None	9011	119	38	102048153	102089697	-1	PKD2L, PKDL	PCL, TRPP3
10	PKD2L1	ENSG00000107593	ENST00000532547	nonsense_mediated_decay	KNOWN	None	9011	216	71	102059392	102090021	-1	PKD2L, PKDL	PCL, TRPP3
10	PKD2L1	ENSG00000107593	ENST00000338519	protein_coding	KNOWN	None	9011	2193	730	102047903	102090243	-1	PKD2L, PKDL	PCL, TRPP3
10	PKD2L1	ENSG00000107593	ENST00000353274	protein_coding	KNOWN	None	9011	2283	760	102047903	102090243	-1	PKD2L, PKDL	PCL, TRPP3
19	None	ENSG00000269825	ENST00000598322	sense_intronic	KNOWN	None	None	None	None	53153690	53156537	-1	None	None
11	OR52A5	ENSG00000171944	ENST00000307388	protein_coding	KNOWN	CCDS31373	19580	951	316	5152922	5153872	-1	None	None
2	GPR148	ENSG00000173302	ENST00000309926	protein_coding	KNOWN	CCDS2163	23623	1044	347	131486643	131487909	1	None	PGR6
19	None	ENSG00000255875	ENST00000536597	processed_pseudogene	KNOWN	None	None	None	None	53313077	53313961	1	None	None
X	GLUD2	ENSG00000182890	ENST00000328078	protein_coding	KNOWN	CCDS14603	4336	1677	558	120181462	120183794	1	GLUDP1	None
1	AMY2A	ENSG00000243480	ENST00000414303	protein_coding	KNOWN	CCDS783	477	1536	511	104159999	104168402	1	AMY2	None
1	AMY2A	ENSG00000243480	ENST00000423678	protein_coding	PUTATIVE	None	477	626	207	104160068	104163290	1	AMY2	None
1	AMY2A	ENSG00000243480	ENST00000497748	processed_transcript	KNOWN	None	477	None	None	104164184	104168227	1	AMY2	None
19	None	ENSG00000268225	ENST00000594408	processed_pseudogene	KNOWN	None	None	None	None	53365060	53366119	-1	None	None
18	GAREM	ENSG00000141441	ENST00000583696	protein_coding	PUTATIVE	None	26136	110	35	29704840	29867058	-1	C18orf11, FAM59A	FLJ21610
18	GAREM	ENSG00000141441	ENST00000399218	protein_coding	KNOWN	CCDS11905	26136	2628	875	29843485	30050447	-1	C18orf11, FAM59A	FLJ21610
18	GAREM	ENSG00000141441	ENST00000269209	protein_coding	KNOWN	CCDS56057	26136	2631	876	29847463	30050395	-1	C18orf11, FAM59A	FLJ21610
18	GAREM	ENSG00000141441	ENST00000578619	processed_transcript	KNOWN	None	26136	None	None	29867839	29911633	-1	C18orf11, FAM59A	FLJ21610
4	FKBP4P1	ENSG00000251463	ENST00000507284	processed_pseudogene	KNOWN	None	44038	None	None	119114560	119115906	-1	None	None
11	OR52A1	ENSG00000182070	ENST00000380367	protein_coding	KNOWN	CCDS31374	8318	939	312	5172239	5207612	-1	None	HPFH1OR
11	OR52A1	ENSG00000182070	ENST00000328942	protein_coding	KNOWN	CCDS31374	8318	939	312	5172661	5173599	-1	None	HPFH1OR
19	ZNF888	ENSG00000213793	ENST00000596623	lincRNA	KNOWN	None	38695	None	None	53418449	53426723	-1	None	None
19	ZNF888	ENSG00000213793	ENST00000454258	lincRNA	KNOWN	None	38695	None	None	53418450	53421126	-1	None	None
19	None	ENSG00000269646	ENST00000594546	lincRNA	KNOWN	None	None	None	None	53426635	53427328	1	None	None
4	SNHG8	ENSG00000269893	ENST00000602414	lincRNA	KNOWN	None	33098	None	None	119199864	119200978	1	None	NCRNA00060, LINC00060
4	SNHG8	ENSG00000269893	ENST00000602520	lincRNA	KNOWN	None	33098	None	None	119199864	119200978	1	None	NCRNA00060, LINC00060
4	SNHG8	ENSG00000269893	ENST00000602483	lincRNA	KNOWN	None	33098	None	None	119199910	119200975	1	None	NCRNA00060, LINC00060
4	SNHG8	ENSG00000269893	ENST00000602819	lincRNA	KNOWN	None	33098	None	None	119199913	119200976	1	None	NCRNA00060, LINC00060
4	SNHG8	ENSG00000269893	ENST00000602573	lincRNA	KNOWN	None	33098	None	None	119200215	119200976	1	None	NCRNA00060, LINC00060
4	SNHG8	ENSG00000269893	ENST00000384096	snoRNA	KNOWN	None	33098	None	None	119200345	119200475	1	None	NCRNA00060, LINC00060
11	OR51V1	ENSG00000176742	ENST00000321255	protein_coding	KNOWN	CCDS31375	19597	966	321	5220965	5221930	-1	OR51A12	None
10	LGI1	ENSG00000108231	ENST00000371418	protein_coding	KNOWN	CCDS7431	6572	1674	557	95517642	95557916	1	EPT	IB1099, ETL1, EPITEMPIN
10	LGI1	ENSG00000108231	ENST00000478763	processed_transcript	KNOWN	None	6572	None	None	95517678	95518669	1	EPT	IB1099, ETL1, EPITEMPIN
10	LGI1	ENSG00000108231	ENST00000371413	protein_coding	KNOWN	None	6572	876	291	95517678	95557914	1	EPT	IB1099, ETL1, EPITEMPIN
10	LGI1	ENSG00000108231	ENST00000485458	processed_transcript	KNOWN	None	6572	None	None	95536934	95537375	1	EPT	IB1099, ETL1, EPITEMPIN
10	LGI1	ENSG00000108231	ENST00000464250	processed_transcript	KNOWN	None	6572	None	None	95537314	95538744	1	EPT	IB1099, ETL1, EPITEMPIN
10	LGI1	ENSG00000108231	ENST00000542308	protein_coding	KNOWN	None	6572	1530	509	95517566	95557916	1	EPT	IB1099, ETL1, EPITEMPIN
19	ZNF816-ZNF321P	ENSG00000213801	ENST00000313956	processed_transcript	KNOWN	None	38879	None	None	53430388	53445854	-1	ZNF816-ZNF321	None
19	ZNF816-ZNF321P	ENSG00000213801	ENST00000550843	transcribed_processed_pseudogene	KNOWN	None	38879	None	None	53432156	53432650	-1	ZNF816-ZNF321	None
6	CUL7	ENSG00000044090	ENST00000265348	protein_coding	KNOWN	CCDS4881	21024	5097	1698	43005355	43021437	-1	KIAA0076	dJ20C7.5
6	CUL7	ENSG00000044090	ENST00000478630	processed_transcript	KNOWN	None	21024	None	None	43013325	43015898	-1	KIAA0076	dJ20C7.5
6	CUL7	ENSG00000044090	ENST00000535468	protein_coding	KNOWN	CCDS55003	21024	5349	1782	43005358	43021683	-1	KIAA0076	dJ20C7.5
3	AMT	ENSG00000145020	ENST00000465925	retained_intron	KNOWN	None	473	None	None	49454211	49458578	-1	None	GCST, NKH
3	AMT	ENSG00000145020	ENST00000427987	protein_coding	PUTATIVE	None	473	1153	383	49454211	49459875	-1	None	GCST, NKH
3	AMT	ENSG00000145020	ENST00000458307	protein_coding	NOVEL	CCDS54584	473	1080	359	49454212	49459902	-1	None	GCST, NKH
3	AMT	ENSG00000145020	ENST00000476226	processed_transcript	KNOWN	None	473	None	None	49454212	49459962	-1	None	GCST, NKH
3	AMT	ENSG00000145020	ENST00000273588	protein_coding	KNOWN	CCDS2797	473	1212	403	49454212	49460186	-1	None	GCST, NKH
3	AMT	ENSG00000145020	ENST00000476127	retained_intron	KNOWN	None	473	None	None	49454833	49457451	-1	None	GCST, NKH
3	AMT	ENSG00000145020	ENST00000495436	retained_intron	KNOWN	None	473	None	None	49454963	49459884	-1	None	GCST, NKH
3	AMT	ENSG00000145020	ENST00000399379	nonsense_mediated_decay	KNOWN	None	473	120	39	49454963	49459884	-1	None	GCST, NKH
3	AMT	ENSG00000145020	ENST00000473163	retained_intron	KNOWN	None	473	None	None	49455114	49456649	-1	None	GCST, NKH
3	AMT	ENSG00000145020	ENST00000430521	protein_coding	PUTATIVE	None	473	788	261	49455328	49459906	-1	None	GCST, NKH
3	AMT	ENSG00000145020	ENST00000491800	retained_intron	KNOWN	None	473	None	None	49455635	49456838	-1	None	GCST, NKH
3	AMT	ENSG00000145020	ENST00000487589	processed_transcript	KNOWN	None	473	None	None	49456711	49459896	-1	None	GCST, NKH
3	AMT	ENSG00000145020	ENST00000461210	retained_intron	KNOWN	None	473	None	None	49456721	49459445	-1	None	GCST, NKH
3	AMT	ENSG00000145020	ENST00000478594	retained_intron	KNOWN	None	473	None	None	49456753	49459891	-1	None	GCST, NKH
3	AMT	ENSG00000145020	ENST00000480957	processed_transcript	KNOWN	None	473	None	None	49457273	49459891	-1	None	GCST, NKH
3	AMT	ENSG00000145020	ENST00000493046	processed_transcript	KNOWN	None	473	None	None	49457435	49459884	-1	None	GCST, NKH
3	AMT	ENSG00000145020	ENST00000485108	processed_transcript	KNOWN	None	473	None	None	49457517	49459891	-1	None	GCST, NKH
3	AMT	ENSG00000145020	ENST00000476828	retained_intron	KNOWN	None	473	None	None	49457627	49459236	-1	None	GCST, NKH
3	AMT	ENSG00000145020	ENST00000462048	processed_transcript	KNOWN	None	473	None	None	49457643	49460118	-1	None	GCST, NKH
3	AMT	ENSG00000145020	ENST00000498571	retained_intron	KNOWN	None	473	None	None	49459174	49459881	-1	None	GCST, NKH
3	AMT	ENSG00000145020	ENST00000395338	protein_coding	KNOWN	CCDS54585	473	1161	386	49454211	49460111	-1	None	GCST, NKH
3	AMT	ENSG00000145020	ENST00000538581	protein_coding	KNOWN	CCDS54583	473	1044	347	49454212	49460111	-1	None	GCST, NKH
3	AMT	ENSG00000145020	ENST00000546031	protein_coding	KNOWN	None	473	921	306	49454963	49459884	-1	None	GCST, NKH
6	None	ENSG00000225532	ENST00000415530	lincRNA	KNOWN	None	None	None	None	171045261	171046865	-1	None	None
9	None	ENSG00000230782	ENST00000439901	antisense	KNOWN	None	None	None	None	109737114	109865269	-1	None	None
9	None	ENSG00000230782	ENST00000418656	retained_intron	KNOWN	None	None	None	None	109864325	109865153	-1	None	None
6	None	ENSG00000219814	ENST00000408017	processed_pseudogene	KNOWN	None	None	None	None	171054606	171055065	1	None	None
2	AMER3	ENSG00000178171	ENST00000321420	protein_coding	KNOWN	CCDS2164	26771	2586	861	131513008	131522659	1	FAM123C	FLJ38377
2	AMER3	ENSG00000178171	ENST00000431758	protein_coding	KNOWN	None	26771	425	140	131513224	131520070	1	FAM123C	FLJ38377
2	AMER3	ENSG00000178171	ENST00000458606	protein_coding	KNOWN	None	26771	541	179	131513864	131520186	1	FAM123C	FLJ38377
2	AMER3	ENSG00000178171	ENST00000423981	protein_coding	KNOWN	CCDS2164	26771	2586	861	131513864	131525707	1	FAM123C	FLJ38377
19	None	ENSG00000269082	ENST00000600068	processed_transcript	KNOWN	None	None	None	None	53459294	53484907	-1	None	None
17	ARL4D	ENSG00000175906	ENST00000320033	protein_coding	KNOWN	CCDS11463	656	606	201	41476327	41478505	1	ARF4L	None
6	MLN	ENSG00000096395	ENST00000430124	protein_coding	KNOWN	CCDS4786	7141	348	115	33762450	33771788	-1	None	None
6	MLN	ENSG00000096395	ENST00000266003	protein_coding	KNOWN	CCDS47412	7141	345	114	33762477	33771779	-1	None	None
6	MLN	ENSG00000096395	ENST00000507738	protein_coding	NOVEL	CCDS54993	7141	327	108	33762564	33771757	-1	None	None
11	TAF1D	ENSG00000166012	ENST00000323981	nonsense_mediated_decay	KNOWN	CCDS8293	28759	837	278	93463114	93474660	-1	JOSD3	MGC5306, TAF(I)41
11	TAF1D	ENSG00000166012	ENST00000526015	nonsense_mediated_decay	KNOWN	CCDS8293	28759	837	278	93463360	93474659	-1	JOSD3	MGC5306, TAF(I)41
11	TAF1D	ENSG00000166012	ENST00000534079	retained_intron	KNOWN	None	28759	None	None	93463366	93465667	-1	JOSD3	MGC5306, TAF(I)41
11	TAF1D	ENSG00000166012	ENST00000546088	processed_transcript	KNOWN	None	28759	None	None	93463438	93469341	-1	JOSD3	MGC5306, TAF(I)41
11	TAF1D	ENSG00000166012	ENST00000393259	nonsense_mediated_decay	KNOWN	None	28759	135	44	93463447	93469907	-1	JOSD3	MGC5306, TAF(I)41
11	TAF1D	ENSG00000166012	ENST00000530769	retained_intron	KNOWN	None	28759	None	None	93463448	93469014	-1	JOSD3	MGC5306, TAF(I)41
11	TAF1D	ENSG00000166012	ENST00000525928	retained_intron	KNOWN	None	28759	None	None	93463449	93467827	-1	JOSD3	MGC5306, TAF(I)41
11	TAF1D	ENSG00000166012	ENST00000529435	retained_intron	KNOWN	None	28759	None	None	93463520	93468404	-1	JOSD3	MGC5306, TAF(I)41
11	TAF1D	ENSG00000166012	ENST00000529900	retained_intron	KNOWN	None	28759	None	None	93463833	93465434	-1	JOSD3	MGC5306, TAF(I)41
11	TAF1D	ENSG00000166012	ENST00000540232	nonsense_mediated_decay	KNOWN	None	28759	129	42	93463848	93469455	-1	JOSD3	MGC5306, TAF(I)41
11	TAF1D	ENSG00000166012	ENST00000527169	nonsense_mediated_decay	KNOWN	None	28759	648	215	93464312	93474645	-1	JOSD3	MGC5306, TAF(I)41
11	TAF1D	ENSG00000166012	ENST00000530089	processed_transcript	KNOWN	None	28759	None	None	93464327	93469323	-1	JOSD3	MGC5306, TAF(I)41
11	TAF1D	ENSG00000166012	ENST00000533794	nonsense_mediated_decay	KNOWN	None	28759	79	25	93465966	93469405	-1	JOSD3	MGC5306, TAF(I)41
11	TAF1D	ENSG00000166012	ENST00000529794	retained_intron	KNOWN	None	28759	None	None	93466143	93469972	-1	JOSD3	MGC5306, TAF(I)41
11	TAF1D	ENSG00000166012	ENST00000527068	retained_intron	KNOWN	None	28759	None	None	93466471	93471458	-1	JOSD3	MGC5306, TAF(I)41
11	TAF1D	ENSG00000166012	ENST00000448108	protein_coding	KNOWN	CCDS8293	28759	837	278	93468733	93475111	-1	JOSD3	MGC5306, TAF(I)41
11	TAF1D	ENSG00000166012	ENST00000528734	retained_intron	KNOWN	None	28759	None	None	93469081	93470133	-1	JOSD3	MGC5306, TAF(I)41
11	TAF1D	ENSG00000166012	ENST00000534770	nonsense_mediated_decay	KNOWN	None	28759	111	36	93470255	93474646	-1	JOSD3	MGC5306, TAF(I)41
11	TAF1D	ENSG00000166012	ENST00000532235	processed_transcript	KNOWN	None	28759	None	None	93470322	93474642	-1	JOSD3	MGC5306, TAF(I)41
11	TAF1D	ENSG00000166012	ENST00000532455	protein_coding	PUTATIVE	None	28759	332	109	93471275	93474661	-1	JOSD3	MGC5306, TAF(I)41
11	TAF1D	ENSG00000166012	ENST00000529508	retained_intron	KNOWN	None	28759	None	None	93472133	93474660	-1	JOSD3	MGC5306, TAF(I)41
11	TAF1D	ENSG00000166012	ENST00000527690	protein_coding	KNOWN	None	28759	24	7	93472447	93517557	-1	JOSD3	MGC5306, TAF(I)41
2	LINC00487	ENSG00000205837	ENST00000412528	lincRNA	KNOWN	None	42947	None	None	6868309	6871454	-1	None	FLJ42418
2	LINC00487	ENSG00000205837	ENST00000424179	lincRNA	KNOWN	None	42947	None	None	6869300	6871358	-1	None	FLJ42418
2	LINC00487	ENSG00000205837	ENST00000382045	lincRNA	KNOWN	None	42947	None	None	6869300	6910442	-1	None	FLJ42418
4	CSN1S2AP	ENSG00000234124	ENST00000451783	processed_transcript	KNOWN	None	20230	None	None	70933103	70950990	1	CSN1S2A	None
4	CSN1S2AP	ENSG00000234124	ENST00000503813	unitary_pseudogene	KNOWN	None	20230	None	None	70934781	70936949	1	CSN1S2A	None
4	CSN1S2AP	ENSG00000234124	ENST00000503711	processed_transcript	KNOWN	None	20230	None	None	70934800	70950837	1	CSN1S2A	None
4	CSN1S2AP	ENSG00000234124	ENST00000512167	processed_transcript	KNOWN	None	20230	None	None	70939743	70951007	1	CSN1S2A	None
3	TIMP4	ENSG00000157150	ENST00000287814	protein_coding	KNOWN	CCDS2608	11823	675	224	12194551	12200851	-1	None	None
17	SPATA22	ENSG00000141255	ENST00000397168	protein_coding	KNOWN	CCDS11027	30705	1092	363	3343313	3375040	-1	None	NYD-SP20
17	SPATA22	ENSG00000141255	ENST00000572969	protein_coding	KNOWN	CCDS11027	30705	1092	363	3343313	3375081	-1	None	NYD-SP20
17	SPATA22	ENSG00000141255	ENST00000355380	protein_coding	KNOWN	CCDS54066	30705	963	320	3343313	3375091	-1	None	NYD-SP20
17	SPATA22	ENSG00000141255	ENST00000575375	protein_coding	KNOWN	CCDS11027	30705	1092	363	3343313	3375120	-1	None	NYD-SP20
17	SPATA22	ENSG00000141255	ENST00000573128	protein_coding	KNOWN	CCDS11027	30705	1092	363	3343313	3375428	-1	None	NYD-SP20
17	SPATA22	ENSG00000141255	ENST00000541913	protein_coding	NOVEL	None	30705	1044	347	3343316	3417146	-1	None	NYD-SP20
17	SPATA22	ENSG00000141255	ENST00000268981	protein_coding	KNOWN	CCDS54067	30705	810	269	3343537	3375033	-1	None	NYD-SP20
17	SPATA22	ENSG00000141255	ENST00000571553	protein_coding	PUTATIVE	None	30705	505	167	3349850	3375095	-1	None	NYD-SP20
17	SPATA22	ENSG00000141255	ENST00000574051	protein_coding	PUTATIVE	None	30705	628	208	3352106	3372609	-1	None	NYD-SP20
17	SPATA22	ENSG00000141255	ENST00000574797	protein_coding	PUTATIVE	None	30705	446	147	3352114	3375118	-1	None	NYD-SP20
17	SPATA22	ENSG00000141255	ENST00000572582	protein_coding	KNOWN	None	30705	492	163	3352281	3375592	-1	None	NYD-SP20
17	SPATA22	ENSG00000141255	ENST00000571607	protein_coding	PUTATIVE	None	30705	255	84	3352305	3371651	-1	None	NYD-SP20
17	SPATA22	ENSG00000141255	ENST00000574457	protein_coding	NOVEL	None	30705	149	48	3366037	3375635	-1	None	NYD-SP20
17	SPATA22	ENSG00000141255	ENST00000570318	protein_coding	KNOWN	None	30705	9	2	3372611	3417062	-1	None	NYD-SP20
3	SI	ENSG00000090402	ENST00000264382	protein_coding	KNOWN	CCDS3196	10856	5484	1827	164696686	164796283	-1	None	None
3	SI	ENSG00000090402	ENST00000476593	nonsense_mediated_decay	KNOWN	None	10856	141	46	164786507	164796283	-1	None	None
3	SI	ENSG00000090402	ENST00000463607	retained_intron	KNOWN	None	10856	None	None	164792213	164793802	-1	None	None
13	WASF3	ENSG00000132970	ENST00000335327	protein_coding	KNOWN	CCDS9318	12734	1509	502	27131887	27263085	1	None	WAVE3, SCAR3, KIAA0900
13	WASF3	ENSG00000132970	ENST00000496788	processed_transcript	KNOWN	None	12734	None	None	27216083	27250761	1	None	WAVE3, SCAR3, KIAA0900
13	WASF3	ENSG00000132970	ENST00000361042	protein_coding	KNOWN	None	12734	1500	499	27131840	27263062	1	None	WAVE3, SCAR3, KIAA0900
16	CDK10	ENSG00000185324	ENST00000331006	protein_coding	PUTATIVE	None	1770	942	313	89747145	89762761	1	None	PISSLRE
16	CDK10	ENSG00000185324	ENST00000353379	protein_coding	KNOWN	CCDS10984	1770	1083	360	89753076	89762772	1	None	PISSLRE
16	CDK10	ENSG00000185324	ENST00000508723	nonsense_mediated_decay	KNOWN	None	1770	129	42	89753078	89757943	1	None	PISSLRE
16	CDK10	ENSG00000185324	ENST00000505473	protein_coding	KNOWN	CCDS32514	1770	819	272	89753078	89762572	1	None	PISSLRE
16	CDK10	ENSG00000185324	ENST00000511415	nonsense_mediated_decay	KNOWN	None	1770	171	56	89753088	89759810	1	None	PISSLRE
16	CDK10	ENSG00000185324	ENST00000502547	nonsense_mediated_decay	KNOWN	None	1770	210	69	89753092	89757915	1	None	PISSLRE
16	CDK10	ENSG00000185324	ENST00000512912	nonsense_mediated_decay	KNOWN	None	1770	210	69	89753098	89758922	1	None	PISSLRE
16	CDK10	ENSG00000185324	ENST00000505733	retained_intron	KNOWN	None	1770	None	None	89753098	89762762	1	None	PISSLRE
16	CDK10	ENSG00000185324	ENST00000510811	nonsense_mediated_decay	KNOWN	None	1770	129	42	89753099	89762446	1	None	PISSLRE
16	CDK10	ENSG00000185324	ENST00000507205	retained_intron	KNOWN	None	1770	None	None	89753100	89760448	1	None	PISSLRE
16	CDK10	ENSG00000185324	ENST00000472018	retained_intron	KNOWN	None	1770	None	None	89753108	89762762	1	None	PISSLRE
16	CDK10	ENSG00000185324	ENST00000564192	protein_coding	NOVEL	None	1770	717	238	89753114	89761380	1	None	PISSLRE
16	CDK10	ENSG00000185324	ENST00000378277	retained_intron	KNOWN	None	1770	None	None	89753121	89759090	1	None	PISSLRE
16	CDK10	ENSG00000185324	ENST00000514965	processed_transcript	KNOWN	None	1770	None	None	89753136	89757920	1	None	PISSLRE
16	CDK10	ENSG00000185324	ENST00000503560	processed_transcript	KNOWN	None	1770	None	None	89753359	89756965	1	None	PISSLRE
16	CDK10	ENSG00000185324	ENST00000504473	retained_intron	KNOWN	None	1770	None	None	89753380	89759903	1	None	PISSLRE
16	CDK10	ENSG00000185324	ENST00000568456	retained_intron	KNOWN	None	1770	None	None	89755911	89758253	1	None	PISSLRE
16	CDK10	ENSG00000185324	ENST00000561477	retained_intron	KNOWN	None	1770	None	None	89758234	89760862	1	None	PISSLRE
16	CDK10	ENSG00000185324	ENST00000567932	retained_intron	KNOWN	None	1770	None	None	89758645	89760126	1	None	PISSLRE
16	CDK10	ENSG00000185324	ENST00000565470	nonsense_mediated_decay	KNOWN	None	1770	113	36	89760592	89762502	1	None	PISSLRE
2	None	ENSG00000225964	ENST00000366140	antisense	KNOWN	None	None	None	None	6968645	6973662	-1	None	None
2	None	ENSG00000225964	ENST00000414795	antisense	KNOWN	None	None	None	None	6969011	6980595	-1	None	None
2	None	ENSG00000271947	ENST00000607613	lincRNA	KNOWN	None	None	None	None	7045855	7046432	-1	None	None
12	SVOP	ENSG00000166111	ENST00000299134	protein_coding	KNOWN	None	25417	1451	482	109304658	109372439	-1	None	DKFZp761H039
12	SVOP	ENSG00000166111	ENST00000551211	retained_intron	KNOWN	None	25417	None	None	109330737	109332664	-1	None	DKFZp761H039
12	SVOP	ENSG00000166111	ENST00000550436	nonsense_mediated_decay	KNOWN	None	25417	119	38	109334603	109366252	-1	None	DKFZp761H039
12	SVOP	ENSG00000166111	ENST00000546618	protein_coding	NOVEL	None	25417	271	89	109354711	109372439	-1	None	DKFZp761H039
12	SVOP	ENSG00000166111	ENST00000548229	retained_intron	KNOWN	None	25417	None	None	109372200	109372439	-1	None	DKFZp761H039
12	SVOP	ENSG00000166111	ENST00000551429	retained_intron	KNOWN	None	25417	None	None	109458639	109458845	-1	None	DKFZp761H039
12	SVOP	ENSG00000166111	ENST00000550490	protein_coding	NOVEL	None	25417	35	10	109458639	109458845	-1	None	DKFZp761H039
12	SVOP	ENSG00000166111	ENST00000550046	nonsense_mediated_decay	KNOWN	None	25417	35	10	109458639	109458845	-1	None	DKFZp761H039
12	SVOP	ENSG00000166111	ENST00000551683	protein_coding	KNOWN	None	25417	35	10	109458639	109459045	-1	None	DKFZp761H039
14	OR11H12	ENSG00000257115	ENST00000550708	protein_coding	KNOWN	CCDS32017	30738	981	326	19377522	19378606	1	None	None
7	TMEM176B	ENSG00000106565	ENST00000492607	protein_coding	NOVEL	CCDS5908	29596	813	270	150488373	150497440	-1	None	LR8
7	TMEM176B	ENSG00000106565	ENST00000326442	protein_coding	KNOWN	CCDS5908	29596	813	270	150488375	150497452	-1	None	LR8
7	TMEM176B	ENSG00000106565	ENST00000447204	protein_coding	KNOWN	CCDS5908	29596	813	270	150488375	150498448	-1	None	LR8
7	TMEM176B	ENSG00000106565	ENST00000429904	protein_coding	KNOWN	CCDS5908	29596	813	270	150488389	150493820	-1	None	LR8
7	TMEM176B	ENSG00000106565	ENST00000450753	protein_coding	KNOWN	CCDS47746	29596	702	233	150488390	150497455	-1	None	LR8
7	TMEM176B	ENSG00000106565	ENST00000434545	protein_coding	KNOWN	CCDS5908	29596	813	270	150488380	150497621	-1	None	LR8
19	ZNF222	ENSG00000159885	ENST00000587846	protein_coding	PUTATIVE	None	13015	273	90	44529494	44532538	1	None	None
19	ZNF222	ENSG00000159885	ENST00000590160	processed_transcript	KNOWN	None	13015	None	None	44529506	44535201	1	None	None
19	ZNF222	ENSG00000159885	ENST00000187879	protein_coding	KNOWN	CCDS33045	13015	1356	451	44529515	44537263	1	None	None
19	ZNF222	ENSG00000159885	ENST00000391960	protein_coding	KNOWN	CCDS46098	13015	1476	491	44529552	44537265	1	None	None
2	RNF144A-AS1	ENSG00000228203	ENST00000418970	antisense	KNOWN	None	30963	None	None	7052408	7058813	-1	None	None
2	RNF144A-AS1	ENSG00000228203	ENST00000426122	antisense	KNOWN	None	30963	None	None	7053758	7058798	-1	None	None
2	RNF144A-AS1	ENSG00000228203	ENST00000424351	retained_intron	KNOWN	None	30963	None	None	7054683	7058813	-1	None	None
2	RNF144A-AS1	ENSG00000228203	ENST00000439208	antisense	KNOWN	None	30963	None	None	7056982	7058794	-1	None	None
2	RNF144A-AS1	ENSG00000228203	ENST00000437589	antisense	KNOWN	None	30963	None	None	7057163	7058810	-1	None	None
22	SLC7A4	ENSG00000099960	ENST00000403586	protein_coding	KNOWN	CCDS33608	11062	1908	635	21383007	21386838	-1	None	HCAT3, CAT-4, VH
22	SLC7A4	ENSG00000099960	ENST00000382932	protein_coding	KNOWN	CCDS33608	11062	1908	635	21383007	21386847	-1	None	HCAT3, CAT-4, VH
22	SLC7A4	ENSG00000099960	ENST00000426145	protein_coding	KNOWN	None	11062	245	80	21385857	21387129	-1	None	HCAT3, CAT-4, VH
11	OR51R1P	ENSG00000237272	ENST00000435309	unprocessed_pseudogene	KNOWN	None	15203	None	None	4439290	4440193	1	None	None
11	OR52P2P	ENSG00000171999	ENST00000527287	unitary_pseudogene	KNOWN	None	15233	None	None	4452553	4453507	-1	None	None
11	OR52P2P	ENSG00000171999	ENST00000307648	unitary_pseudogene	KNOWN	None	15233	None	None	4452560	4453459	-1	None	None
22	IGLV3-30	ENSG00000253329	ENST00000524362	IG_V_pseudogene	KNOWN	None	5912	None	None	22961042	22961633	1	None	None
16	MIR5189	ENSG00000263456	ENST00000577370	miRNA	KNOWN	None	43515	None	None	88535326	88535439	1	None	hsa-mir-5189
14	SERPINA5	ENSG00000188488	ENST00000554220	protein_coding	KNOWN	None	8723	516	171	95027779	95054215	1	PLANH3, PCI	PAI3, PROCI
14	SERPINA5	ENSG00000188488	ENST00000553780	protein_coding	KNOWN	CCDS9928	8723	1221	406	95027779	95059133	1	PLANH3, PCI	PAI3, PROCI
14	SERPINA5	ENSG00000188488	ENST00000556730	retained_intron	KNOWN	None	8723	None	None	95047728	95057104	1	PLANH3, PCI	PAI3, PROCI
14	SERPINA5	ENSG00000188488	ENST00000554760	protein_coding	KNOWN	None	8723	903	300	95047731	95056661	1	PLANH3, PCI	PAI3, PROCI
14	SERPINA5	ENSG00000188488	ENST00000554866	protein_coding	KNOWN	CCDS9928	8723	1221	406	95047731	95059452	1	PLANH3, PCI	PAI3, PROCI
14	SERPINA5	ENSG00000188488	ENST00000556775	protein_coding	KNOWN	None	8723	694	230	95047734	95056452	1	PLANH3, PCI	PAI3, PROCI
14	SERPINA5	ENSG00000188488	ENST00000553511	protein_coding	KNOWN	None	8723	272	89	95047763	95053971	1	PLANH3, PCI	PAI3, PROCI
14	SERPINA5	ENSG00000188488	ENST00000554633	protein_coding	KNOWN	None	8723	258	85	95047804	95053957	1	PLANH3, PCI	PAI3, PROCI
14	SERPINA5	ENSG00000188488	ENST00000555681	protein_coding	KNOWN	None	8723	433	143	95047808	95054132	1	PLANH3, PCI	PAI3, PROCI
14	SERPINA5	ENSG00000188488	ENST00000554276	protein_coding	KNOWN	CCDS9928	8723	1221	406	95047952	95059452	1	PLANH3, PCI	PAI3, PROCI
14	SERPINA5	ENSG00000188488	ENST00000557598	protein_coding	KNOWN	None	8723	471	156	95048217	95054170	1	PLANH3, PCI	PAI3, PROCI
14	SERPINA5	ENSG00000188488	ENST00000556064	protein_coding	KNOWN	None	8723	73	23	95048308	95053772	1	PLANH3, PCI	PAI3, PROCI
14	SERPINA5	ENSG00000188488	ENST00000329597	protein_coding	KNOWN	CCDS9928	8723	1221	406	95047731	95059457	1	PLANH3, PCI	PAI3, PROCI
19	FKRP	ENSG00000181027	ENST00000596974	processed_transcript	KNOWN	None	17997	None	None	47249303	47259049	1	None	LGMD2I, MDC1C
19	FKRP	ENSG00000181027	ENST00000601299	protein_coding	KNOWN	None	17997	487	161	47249303	47259194	1	None	LGMD2I, MDC1C
19	FKRP	ENSG00000181027	ENST00000318584	protein_coding	KNOWN	CCDS12691	17997	1488	495	47249303	47261742	1	None	LGMD2I, MDC1C
19	FKRP	ENSG00000181027	ENST00000595570	protein_coding	KNOWN	None	17997	184	60	47249311	47258891	1	None	LGMD2I, MDC1C
19	FKRP	ENSG00000181027	ENST00000593995	retained_intron	KNOWN	None	17997	None	None	47249314	47252220	1	None	LGMD2I, MDC1C
19	FKRP	ENSG00000181027	ENST00000600977	processed_transcript	KNOWN	None	17997	None	None	47249314	47258706	1	None	LGMD2I, MDC1C
19	FKRP	ENSG00000181027	ENST00000598271	protein_coding	KNOWN	None	17997	87	28	47249314	47258794	1	None	LGMD2I, MDC1C
19	FKRP	ENSG00000181027	ENST00000597313	protein_coding	KNOWN	None	17997	179	58	47249314	47258886	1	None	LGMD2I, MDC1C
19	FKRP	ENSG00000181027	ENST00000593875	protein_coding	KNOWN	None	17997	259	85	47249314	47258966	1	None	LGMD2I, MDC1C
19	FKRP	ENSG00000181027	ENST00000391909	protein_coding	KNOWN	CCDS12691	17997	1488	495	47249314	47261170	1	None	LGMD2I, MDC1C
19	FKRP	ENSG00000181027	ENST00000600646	processed_transcript	KNOWN	None	17997	None	None	47249314	47280245	1	None	LGMD2I, MDC1C
19	FKRP	ENSG00000181027	ENST00000600681	processed_transcript	KNOWN	None	17997	None	None	47249315	47252059	1	None	LGMD2I, MDC1C
19	FKRP	ENSG00000181027	ENST00000600872	processed_transcript	KNOWN	None	17997	None	None	47249315	47257282	1	None	LGMD2I, MDC1C
19	FKRP	ENSG00000181027	ENST00000602250	protein_coding	KNOWN	None	17997	160	52	47249315	47258867	1	None	LGMD2I, MDC1C
19	FKRP	ENSG00000181027	ENST00000595868	protein_coding	KNOWN	None	17997	210	69	47249315	47258917	1	None	LGMD2I, MDC1C
19	FKRP	ENSG00000181027	ENST00000600629	protein_coding	KNOWN	None	17997	240	79	47249315	47258947	1	None	LGMD2I, MDC1C
19	FKRP	ENSG00000181027	ENST00000602181	protein_coding	KNOWN	None	17997	287	94	47249315	47258994	1	None	LGMD2I, MDC1C
19	FKRP	ENSG00000181027	ENST00000593800	protein_coding	KNOWN	None	17997	303	100	47249315	47259010	1	None	LGMD2I, MDC1C
19	FKRP	ENSG00000181027	ENST00000600227	protein_coding	KNOWN	None	17997	318	105	47249315	47259025	1	None	LGMD2I, MDC1C
19	FKRP	ENSG00000181027	ENST00000600005	protein_coding	KNOWN	None	17997	342	113	47249315	47259049	1	None	LGMD2I, MDC1C
19	FKRP	ENSG00000181027	ENST00000594467	protein_coding	PUTATIVE	None	17997	105	34	47249315	47259241	1	None	LGMD2I, MDC1C
19	FKRP	ENSG00000181027	ENST00000597339	processed_transcript	KNOWN	None	17997	None	None	47249315	47265263	1	None	LGMD2I, MDC1C
19	FKRP	ENSG00000181027	ENST00000596460	protein_coding	KNOWN	None	17997	205	67	47249316	47258912	1	None	LGMD2I, MDC1C
19	FKRP	ENSG00000181027	ENST00000597403	processed_transcript	KNOWN	None	17997	None	None	47249318	47251898	1	None	LGMD2I, MDC1C
19	FKRP	ENSG00000181027	ENST00000600834	protein_coding	KNOWN	None	17997	216	71	47250167	47258923	1	None	LGMD2I, MDC1C
19	FKRP	ENSG00000181027	ENST00000593877	protein_coding	KNOWN	None	17997	13	3	47250916	47258720	1	None	LGMD2I, MDC1C
19	FKRP	ENSG00000181027	ENST00000593902	protein_coding	KNOWN	None	17997	411	136	47252015	47259118	1	None	LGMD2I, MDC1C
16	None	ENSG00000261744	ENST00000563243	antisense	KNOWN	None	None	None	None	88579368	88597461	-1	None	None
22	BCRP4	ENSG00000215456	ENST00000506079	unprocessed_pseudogene	KNOWN	None	1017	None	None	22972532	22978624	1	BCR4, BCRL4	BCR-4
X	None	ENSG00000231568	ENST00000429428	processed_pseudogene	KNOWN	None	None	None	None	48088268	48088394	-1	None	None
1	UBXN11	ENSG00000158062	ENST00000314675	protein_coding	KNOWN	CCDS41287	30600	1203	400	26607819	26633127	-1	UBXD5	SOC, SOCI
1	UBXN11	ENSG00000158062	ENST00000472155	retained_intron	KNOWN	None	30600	None	None	26608772	26633131	-1	UBXD5	SOC, SOCI
1	UBXN11	ENSG00000158062	ENST00000374223	protein_coding	KNOWN	None	30600	834	277	26608773	26633111	-1	UBXD5	SOC, SOCI
1	UBXN11	ENSG00000158062	ENST00000475591	retained_intron	KNOWN	None	30600	None	None	26608773	26633127	-1	UBXD5	SOC, SOCI
1	UBXN11	ENSG00000158062	ENST00000357089	protein_coding	KNOWN	CCDS41286	30600	1464	487	26608775	26633123	-1	UBXD5	SOC, SOCI
1	UBXN11	ENSG00000158062	ENST00000494942	retained_intron	KNOWN	None	30600	None	None	26608775	26633124	-1	UBXD5	SOC, SOCI
1	UBXN11	ENSG00000158062	ENST00000374221	protein_coding	KNOWN	CCDS41288	30600	1563	520	26608775	26633136	-1	UBXD5	SOC, SOCI
1	UBXN11	ENSG00000158062	ENST00000374222	protein_coding	KNOWN	CCDS41288	30600	1563	520	26608775	26644854	-1	UBXD5	SOC, SOCI
1	UBXN11	ENSG00000158062	ENST00000496466	retained_intron	KNOWN	None	30600	None	None	26608796	26624517	-1	UBXD5	SOC, SOCI
1	UBXN11	ENSG00000158062	ENST00000374215	protein_coding	KNOWN	None	30600	742	246	26611951	26633100	-1	UBXD5	SOC, SOCI
1	UBXN11	ENSG00000158062	ENST00000452980	protein_coding	KNOWN	None	30600	622	206	26612367	26629658	-1	UBXD5	SOC, SOCI
1	UBXN11	ENSG00000158062	ENST00000442942	protein_coding	KNOWN	None	30600	555	184	26612434	26629507	-1	UBXD5	SOC, SOCI
1	UBXN11	ENSG00000158062	ENST00000450041	protein_coding	KNOWN	None	30600	347	114	26620683	26633480	-1	UBXD5	SOC, SOCI
1	UBXN11	ENSG00000158062	ENST00000423664	protein_coding	KNOWN	None	30600	445	147	26620696	26633127	-1	UBXD5	SOC, SOCI
1	UBXN11	ENSG00000158062	ENST00000421827	protein_coding	KNOWN	None	30600	404	133	26623438	26633067	-1	UBXD5	SOC, SOCI
1	UBXN11	ENSG00000158062	ENST00000374217	protein_coding	KNOWN	CCDS41286	30600	1464	487	26608775	26644756	-1	UBXD5	SOC, SOCI
1	UBXN11	ENSG00000158062	ENST00000436301	protein_coding	KNOWN	None	30600	750	249	26611628	26633127	-1	UBXD5	SOC, SOCI
1	UBXN11	ENSG00000158062	ENST00000535108	protein_coding	KNOWN	None	30600	501	166	26611485	26633126	-1	UBXD5	SOC, SOCI
11	HBB	ENSG00000244734	ENST00000335295	protein_coding	KNOWN	CCDS7753	4827	444	147	5246694	5248427	-1	None	CD113t-C, HBD, beta-globin
11	HBB	ENSG00000244734	ENST00000475226	retained_intron	KNOWN	None	4827	None	None	5246885	5248053	-1	None	CD113t-C, HBD, beta-globin
11	HBB	ENSG00000244734	ENST00000485743	retained_intron	KNOWN	None	4827	None	None	5247493	5248302	-1	None	CD113t-C, HBD, beta-globin
11	HBB	ENSG00000244734	ENST00000380315	protein_coding	KNOWN	None	4827	272	89	5247850	5250625	-1	None	CD113t-C, HBD, beta-globin
11	KLHL35	ENSG00000149243	ENST00000376292	protein_coding	KNOWN	None	26597	1092	363	75133438	75141236	-1	None	FLJ33790
11	KLHL35	ENSG00000149243	ENST00000460787	retained_intron	KNOWN	None	26597	None	None	75133465	75141107	-1	None	FLJ33790
11	KLHL35	ENSG00000149243	ENST00000527491	retained_intron	KNOWN	None	26597	None	None	75136551	75137884	-1	None	FLJ33790
11	KLHL35	ENSG00000149243	ENST00000539798	protein_coding	KNOWN	CCDS44685	26597	1752	583	75133440	75141674	-1	None	FLJ33790
X	None	ENSG00000229662	ENST00000441060	processed_pseudogene	KNOWN	None	None	None	None	48104329	48105180	1	None	None
2	None	ENSG00000223884	ENST00000415520	antisense	KNOWN	None	None	None	None	7202858	7218011	-1	None	None
2	None	ENSG00000223884	ENST00000428379	antisense	KNOWN	None	None	None	None	7214635	7218011	-1	None	None
19	RN7SL402P	ENSG00000243968	ENST00000465059	misc_RNA	KNOWN	None	46418	None	None	36372792	36373053	1	None	None
16	SNAI3-AS1	ENSG00000260630	ENST00000563261	antisense	KNOWN	None	28327	None	None	88729706	88753594	1	None	MGC23284
16	SNAI3-AS1	ENSG00000260630	ENST00000565633	antisense	KNOWN	None	28327	None	None	88729743	88740055	1	None	MGC23284
16	SNAI3-AS1	ENSG00000260630	ENST00000569786	antisense	KNOWN	None	28327	None	None	88729777	88738587	1	None	MGC23284
16	SNAI3-AS1	ENSG00000260630	ENST00000563475	antisense	KNOWN	None	28327	None	None	88729788	88741572	1	None	MGC23284
16	SNAI3-AS1	ENSG00000260630	ENST00000568633	antisense	KNOWN	None	28327	None	None	88739804	88741899	1	None	MGC23284
16	SNAI3-AS1	ENSG00000260630	ENST00000567997	antisense	KNOWN	None	28327	None	None	88751541	88753588	1	None	MGC23284
16	SNAI3-AS1	ENSG00000260630	ENST00000596908	antisense	KNOWN	None	28327	None	None	88751542	88753587	1	None	MGC23284
19	None	ENSG00000267786	ENST00000592518	processed_transcript	KNOWN	None	None	None	None	36438017	36450094	1	None	None
X	None	ENSG00000232813	ENST00000433189	processed_pseudogene	KNOWN	None	None	None	None	48134339	48134482	-1	None	None
17	TBX2	ENSG00000121068	ENST00000240328	protein_coding	NOVEL	CCDS11627	11597	2139	712	59477257	59486786	1	None	None
17	TBX2	ENSG00000121068	ENST00000419047	nonsense_mediated_decay	KNOWN	None	11597	441	146	59477271	59486827	1	None	None
17	TBX2	ENSG00000121068	ENST00000477081	retained_intron	KNOWN	None	11597	None	None	59477726	59486485	1	None	None
17	TBX2	ENSG00000121068	ENST00000586986	processed_transcript	KNOWN	None	11597	None	None	59486083	59486827	1	None	None
2	RN7SKP112	ENSG00000223145	ENST00000411213	misc_RNA	KNOWN	None	45836	None	None	7281358	7281675	-1	None	None
22	POM121L1P	ENSG00000183169	ENST00000402027	processed_transcript	KNOWN	None	16439	None	None	22981648	22986944	-1	POM121L1	None
22	POM121L1P	ENSG00000183169	ENST00000605258	transcribed_unprocessed_pseudogene	KNOWN	None	16439	None	None	22984722	22986556	-1	POM121L1	None
HSCHR6_MHC_COX	HLA-F	ENSG00000137403	ENST00000342322	protein_coding	KNOWN	None	4963	1041	346	29684537	29688288	1	None	None
HSCHR6_MHC_COX	HLA-F	ENSG00000137403	ENST00000420414	protein_coding	KNOWN	None	4963	393	130	29685041	29685993	1	None	None
HSCHR6_MHC_COX	HLA-F	ENSG00000137403	ENST00000473966	processed_transcript	KNOWN	None	4963	None	None	29685154	29686177	1	None	None
HSCHR6_MHC_COX	HLA-F	ENSG00000137403	ENST00000383516	protein_coding	KNOWN	None	4963	1329	442	29685170	29689054	1	None	None
HSCHR6_MHC_COX	HLA-F	ENSG00000137403	ENST00000470816	processed_transcript	KNOWN	None	4963	None	None	29685189	29688288	1	None	None
HSCHR6_MHC_COX	HLA-F	ENSG00000137403	ENST00000496799	processed_transcript	KNOWN	None	4963	None	None	29685196	29686849	1	None	None
HSCHR6_MHC_COX	HLA-F	ENSG00000137403	ENST00000383515	protein_coding	KNOWN	None	4963	765	254	29685226	29688288	1	None	None
HSCHR6_MHC_COX	HLA-F	ENSG00000137403	ENST00000475107	processed_transcript	KNOWN	None	4963	None	None	29685266	29686114	1	None	None
HSCHR6_MHC_COX	HLA-F	ENSG00000137403	ENST00000494169	processed_transcript	KNOWN	None	4963	None	None	29685702	29687061	1	None	None
HSCHR6_MHC_COX	HLA-F	ENSG00000137403	ENST00000454646	protein_coding	KNOWN	None	4963	677	224	29685801	29688288	1	None	None
HSCHR6_MHC_COX	HLA-F	ENSG00000137403	ENST00000488237	processed_transcript	KNOWN	None	4963	None	None	29685919	29688288	1	None	None
HSCHR6_MHC_COX	HLA-F	ENSG00000137403	ENST00000472371	processed_transcript	KNOWN	None	4963	None	None	29686816	29700280	1	None	None
HSCHR6_MHC_COX	HLA-F	ENSG00000137403	ENST00000496199	processed_transcript	KNOWN	None	4963	None	None	29687216	29691108	1	None	None
HSCHR6_MHC_COX	HLA-F	ENSG00000137403	ENST00000458026	protein_coding	KNOWN	None	4963	374	123	29687296	29689054	1	None	None
HSCHR6_MHC_COX	HLA-F	ENSG00000137403	ENST00000551026	protein_coding	KNOWN	None	4963	1260	419	29685102	29689053	1	None	None
HSCHR6_MHC_COX	HLA-F	ENSG00000137403	ENST00000552082	protein_coding	KNOWN	None	4963	1041	346	29685102	29688285	1	None	None
2	None	ENSG00000272002	ENST00000606959	lincRNA	KNOWN	None	None	None	None	7401002	7401635	1	None	None
19	None	ENSG00000267113	ENST00000588406	processed_pseudogene	KNOWN	None	None	None	None	36448023	36448284	-1	None	None
1	AMY1A	ENSG00000237763	ENST00000430659	protein_coding	KNOWN	None	474	678	225	104197912	104201226	1	AMY1	None
1	AMY1A	ENSG00000237763	ENST00000370083	protein_coding	KNOWN	CCDS30782	474	1536	511	104198377	104207173	1	AMY1	None
1	AMY1A	ENSG00000237763	ENST00000422549	protein_coding	KNOWN	None	474	315	104	104198640	104199612	1	AMY1	None
1	AMY1A	ENSG00000237763	ENST00000461518	retained_intron	KNOWN	None	474	None	None	104199429	104202165	1	AMY1	None
1	AMY1A	ENSG00000237763	ENST00000494409	processed_transcript	KNOWN	None	474	None	None	104205366	104207171	1	AMY1	None
X	None	ENSG00000241207	ENST00000456455	unprocessed_pseudogene	KNOWN	None	None	None	None	48136139	48137013	-1	None	None
2	None	ENSG00000213774	ENST00000443549	processed_pseudogene	KNOWN	None	None	None	None	7464879	7465193	-1	None	None
19	None	ENSG00000267388	ENST00000587412	lincRNA	KNOWN	None	None	None	None	36451414	36454965	1	None	None
22	IGLV3-29	ENSG00000253338	ENST00000520084	IG_V_pseudogene	KNOWN	None	5911	None	None	23003769	23004012	1	None	None
5	PPP2R2B	ENSG00000156475	ENST00000394413	protein_coding	KNOWN	CCDS4284	9305	1332	443	145967936	146258205	-1	SCA12	PR55-BETA, PR52B
5	PPP2R2B	ENSG00000156475	ENST00000530902	processed_transcript	KNOWN	None	9305	None	None	145969067	146258457	-1	SCA12	PR55-BETA, PR52B
5	PPP2R2B	ENSG00000156475	ENST00000508545	protein_coding	KNOWN	CCDS43380	9305	1299	432	145969067	146302139	-1	SCA12	PR55-BETA, PR52B
5	PPP2R2B	ENSG00000156475	ENST00000394414	protein_coding	KNOWN	None	9305	1530	509	145969067	146435590	-1	SCA12	PR55-BETA, PR52B
5	PPP2R2B	ENSG00000156475	ENST00000394411	protein_coding	KNOWN	CCDS4284	9305	1332	443	145969070	146258328	-1	SCA12	PR55-BETA, PR52B
5	PPP2R2B	ENSG00000156475	ENST00000336640	protein_coding	KNOWN	CCDS4283	9305	1341	446	145969074	146435537	-1	SCA12	PR55-BETA, PR52B
5	PPP2R2B	ENSG00000156475	ENST00000504198	protein_coding	KNOWN	None	9305	1350	449	145969074	146461054	-1	SCA12	PR55-BETA, PR52B
5	PPP2R2B	ENSG00000156475	ENST00000512639	nonsense_mediated_decay	KNOWN	None	9305	135	44	145969510	146258144	-1	SCA12	PR55-BETA, PR52B
5	PPP2R2B	ENSG00000156475	ENST00000512984	protein_coding	PUTATIVE	None	9305	236	77	145969601	145979939	-1	SCA12	PR55-BETA, PR52B
5	PPP2R2B	ENSG00000156475	ENST00000522831	nonsense_mediated_decay	KNOWN	None	9305	105	34	146030110	146435494	-1	SCA12	PR55-BETA, PR52B
5	PPP2R2B	ENSG00000156475	ENST00000528601	nonsense_mediated_decay	KNOWN	None	9305	135	44	146070777	146258733	-1	SCA12	PR55-BETA, PR52B
5	PPP2R2B	ENSG00000156475	ENST00000515880	nonsense_mediated_decay	KNOWN	None	9305	114	37	146077580	146435522	-1	SCA12	PR55-BETA, PR52B
5	PPP2R2B	ENSG00000156475	ENST00000512011	nonsense_mediated_decay	KNOWN	None	9305	150	49	146077592	146435494	-1	SCA12	PR55-BETA, PR52B
5	PPP2R2B	ENSG00000156475	ENST00000532154	nonsense_mediated_decay	KNOWN	None	9305	135	44	146077603	146258348	-1	SCA12	PR55-BETA, PR52B
5	PPP2R2B	ENSG00000156475	ENST00000502876	processed_transcript	KNOWN	None	9305	None	None	146077624	146302090	-1	SCA12	PR55-BETA, PR52B
5	PPP2R2B	ENSG00000156475	ENST00000508267	protein_coding	PUTATIVE	None	9305	175	57	146077641	146461033	-1	SCA12	PR55-BETA, PR52B
5	PPP2R2B	ENSG00000156475	ENST00000504565	nonsense_mediated_decay	KNOWN	None	9305	123	40	146080635	146460856	-1	SCA12	PR55-BETA, PR52B
5	PPP2R2B	ENSG00000156475	ENST00000509721	processed_transcript	KNOWN	None	9305	None	None	146080649	146464347	-1	SCA12	PR55-BETA, PR52B
5	PPP2R2B	ENSG00000156475	ENST00000520231	processed_transcript	KNOWN	None	9305	None	None	146130785	146302085	-1	SCA12	PR55-BETA, PR52B
5	PPP2R2B	ENSG00000156475	ENST00000394409	protein_coding	KNOWN	None	9305	1506	501	145969510	146460671	-1	SCA12	PR55-BETA, PR52B
5	PPP2R2B	ENSG00000156475	ENST00000356826	protein_coding	KNOWN	CCDS4284	9305	1332	443	145969072	146435700	-1	SCA12	PR55-BETA, PR52B
5	PPP2R2B	ENSG00000156475	ENST00000453001	protein_coding	KNOWN	CCDS4284	9305	1332	443	145969072	146258457	-1	SCA12	PR55-BETA, PR52B
5	PPP2R2B	ENSG00000156475	ENST00000394410	protein_coding	KNOWN	CCDS43380	9305	1299	432	145969072	146461033	-1	SCA12	PR55-BETA, PR52B
22	None	ENSG00000207834	ENST00000385099	miRNA	NOVEL	None	None	None	None	23006898	23006993	1	None	None
19	None	ENSG00000248101	ENST00000473572	retained_intron	KNOWN	None	None	None	None	36499540	36505137	-1	None	None
X	GRIA3	ENSG00000125675	ENST00000371266	protein_coding	KNOWN	None	4573	495	164	122318006	122338534	1	GLUR3	GluA3, GLURC, MRX94
X	GRIA3	ENSG00000125675	ENST00000371264	protein_coding	KNOWN	None	4573	495	164	122318152	122338534	1	GLUR3	GluA3, GLURC, MRX94
X	GRIA3	ENSG00000125675	ENST00000371251	protein_coding	KNOWN	CCDS14604	4573	2685	894	122318336	122616897	1	GLUR3	GluA3, GLURC, MRX94
X	GRIA3	ENSG00000125675	ENST00000371256	protein_coding	KNOWN	CCDS14605	4573	2685	894	122318336	122624766	1	GLUR3	GluA3, GLURC, MRX94
X	GRIA3	ENSG00000125675	ENST00000479118	processed_transcript	KNOWN	None	4573	None	None	122318412	122387553	1	GLUR3	GluA3, GLURC, MRX94
X	GRIA3	ENSG00000125675	ENST00000477389	processed_transcript	KNOWN	None	4573	None	None	122488760	122495174	1	GLUR3	GluA3, GLURC, MRX94
X	GRIA3	ENSG00000125675	ENST00000460123	processed_transcript	KNOWN	None	4573	None	None	122616574	122622793	1	GLUR3	GluA3, GLURC, MRX94
X	GRIA3	ENSG00000125675	ENST00000264357	protein_coding	KNOWN	CCDS14604	4573	2685	894	122318096	122624756	1	GLUR3	GluA3, GLURC, MRX94
X	GRIA3	ENSG00000125675	ENST00000542149	protein_coding	KNOWN	None	4573	2475	824	122318224	122622587	1	GLUR3	GluA3, GLURC, MRX94
X	GRIA3	ENSG00000125675	ENST00000541091	protein_coding	KNOWN	None	4573	1989	662	122318765	122551942	1	GLUR3	GluA3, GLURC, MRX94
6	KLHL32	ENSG00000186231	ENST00000369261	protein_coding	KNOWN	CCDS5038	21221	1863	620	97372605	97588630	1	BKLHD5, KIAA1900	None
6	KLHL32	ENSG00000186231	ENST00000369254	protein_coding	KNOWN	None	21221	420	139	97414885	97578818	1	BKLHD5, KIAA1900	None
6	KLHL32	ENSG00000186231	ENST00000447886	protein_coding	KNOWN	None	21221	531	176	97512504	97562055	1	BKLHD5, KIAA1900	None
6	KLHL32	ENSG00000186231	ENST00000536676	protein_coding	KNOWN	None	21221	1755	584	97372665	97587503	1	BKLHD5, KIAA1900	None
6	KLHL32	ENSG00000186231	ENST00000539200	protein_coding	KNOWN	None	21221	1656	551	97372752	97587567	1	BKLHD5, KIAA1900	None
6	KLHL32	ENSG00000186231	ENST00000544166	protein_coding	KNOWN	None	21221	531	176	97372665	97587879	1	BKLHD5, KIAA1900	None
22	IGLV2-28	ENSG00000253451	ENST00000520681	IG_V_pseudogene	KNOWN	None	5891	None	None	23006943	23007377	1	None	None
7	ZDHHC4	ENSG00000136247	ENST00000405731	protein_coding	KNOWN	CCDS5352	18471	1035	344	6617065	6628562	1	None	FLJ10479, ZNF374
7	ZDHHC4	ENSG00000136247	ENST00000335965	protein_coding	KNOWN	CCDS5352	18471	1035	344	6617084	6628557	1	None	FLJ10479, ZNF374
7	ZDHHC4	ENSG00000136247	ENST00000493944	retained_intron	KNOWN	None	18471	None	None	6617091	6621952	1	None	FLJ10479, ZNF374
7	ZDHHC4	ENSG00000136247	ENST00000489138	retained_intron	KNOWN	None	18471	None	None	6617093	6620541	1	None	FLJ10479, ZNF374
7	ZDHHC4	ENSG00000136247	ENST00000474097	retained_intron	KNOWN	None	18471	None	None	6617099	6623951	1	None	FLJ10479, ZNF374
7	ZDHHC4	ENSG00000136247	ENST00000396709	protein_coding	KNOWN	CCDS5352	18471	1035	344	6617099	6628550	1	None	FLJ10479, ZNF374
7	ZDHHC4	ENSG00000136247	ENST00000483589	protein_coding	KNOWN	None	18471	496	164	6617112	6623062	1	None	FLJ10479, ZNF374
7	ZDHHC4	ENSG00000136247	ENST00000496017	processed_transcript	KNOWN	None	18471	None	None	6617128	6620755	1	None	FLJ10479, ZNF374
7	ZDHHC4	ENSG00000136247	ENST00000396706	protein_coding	KNOWN	CCDS5352	18471	1035	344	6617136	6629005	1	None	FLJ10479, ZNF374
7	ZDHHC4	ENSG00000136247	ENST00000474738	retained_intron	KNOWN	None	18471	None	None	6624534	6628607	1	None	FLJ10479, ZNF374
7	ZDHHC4	ENSG00000136247	ENST00000396713	protein_coding	KNOWN	CCDS5352	18471	1035	344	6617065	6628609	1	None	FLJ10479, ZNF374
7	ZDHHC4	ENSG00000136247	ENST00000396707	protein_coding	KNOWN	CCDS5352	18471	1035	344	6617065	6628609	1	None	FLJ10479, ZNF374
9	ABL1	ENSG00000097007	ENST00000372348	protein_coding	KNOWN	CCDS35165	76	3450	1149	133589333	133761070	1	ABL	JTK7, c-ABL, p150
9	ABL1	ENSG00000097007	ENST00000393293	protein_coding	PUTATIVE	None	76	192	63	133589367	133729509	1	ABL	JTK7, c-ABL, p150
9	ABL1	ENSG00000097007	ENST00000318560	protein_coding	KNOWN	CCDS35166	76	3393	1130	133710453	133763062	1	ABL	JTK7, c-ABL, p150
22	IGLV3-26	ENSG00000253913	ENST00000520756	IG_V_pseudogene	KNOWN	None	5909	None	None	23015622	23016072	1	None	None
22	None	ENSG00000187905	ENST00000497328	processed_transcript	KNOWN	None	None	None	None	21400249	21418457	1	None	None
22	None	ENSG00000187905	ENST00000473769	processed_transcript	KNOWN	None	None	None	None	21400270	21416565	1	None	None
22	None	ENSG00000187905	ENST00000442047	protein_coding	PUTATIVE	None	None	1098	365	21400276	21414736	1	None	None
22	None	ENSG00000187905	ENST00000469766	retained_intron	KNOWN	None	None	None	None	21410819	21414686	1	None	None
22	None	ENSG00000187905	ENST00000342608	protein_coding	KNOWN	None	None	1176	391	21400249	21418453	1	None	None
22	None	ENSG00000187905	ENST00000543388	protein_coding	KNOWN	None	None	486	161	21400270	21416565	1	None	None
19	None	ENSG00000267698	ENST00000586962	antisense	KNOWN	None	None	None	None	36505410	36536874	1	None	None
2	None	ENSG00000229727	ENST00000441014	lincRNA	KNOWN	None	None	None	None	7561392	7586021	1	None	None
2	None	ENSG00000229727	ENST00000435062	lincRNA	KNOWN	None	None	None	None	7561396	7590385	1	None	None
2	None	ENSG00000229727	ENST00000419713	lincRNA	KNOWN	None	None	None	None	7561402	7590385	1	None	None
2	None	ENSG00000229727	ENST00000444955	lincRNA	KNOWN	None	None	None	None	7561417	7563176	1	None	None
2	None	ENSG00000229727	ENST00000450695	lincRNA	KNOWN	None	None	None	None	7561423	7562966	1	None	None
2	None	ENSG00000229727	ENST00000457568	retained_intron	KNOWN	None	None	None	None	7570054	7590045	1	None	None
17	WNK4	ENSG00000126562	ENST00000246914	protein_coding	KNOWN	CCDS11439	14544	3732	1243	40932696	40948954	1	PRKWNK4	None
17	WNK4	ENSG00000126562	ENST00000591448	nonsense_mediated_decay	KNOWN	None	14544	1410	469	40932699	40948954	1	PRKWNK4	None
17	WNK4	ENSG00000126562	ENST00000592669	retained_intron	KNOWN	None	14544	None	None	40935627	40936471	1	PRKWNK4	None
17	WNK4	ENSG00000126562	ENST00000587705	processed_transcript	KNOWN	None	14544	None	None	40937345	40940413	1	PRKWNK4	None
17	WNK4	ENSG00000126562	ENST00000592072	retained_intron	KNOWN	None	14544	None	None	40937345	40946507	1	PRKWNK4	None
17	WNK4	ENSG00000126562	ENST00000587745	protein_coding	NOVEL	None	14544	188	61	40945733	40947760	1	PRKWNK4	None
22	IGLVVI-25-1	ENSG00000253779	ENST00000521893	IG_V_pseudogene	KNOWN	None	15690	None	None	23021570	23021818	1	None	IGLV(VI)-25-1
11	BATF2	ENSG00000168062	ENST00000301887	protein_coding	KNOWN	CCDS8087	25163	825	274	64755415	64764517	-1	None	MGC20410
11	BATF2	ENSG00000168062	ENST00000435842	protein_coding	PUTATIVE	None	25163	570	189	64755417	64757745	-1	None	MGC20410
11	BATF2	ENSG00000168062	ENST00000527454	retained_intron	KNOWN	None	25163	None	None	64755418	64757986	-1	None	MGC20410
11	BATF2	ENSG00000168062	ENST00000527716	protein_coding	PUTATIVE	None	25163	753	250	64756256	64757746	-1	None	MGC20410
11	BATF2	ENSG00000168062	ENST00000534177	protein_coding	NOVEL	None	25163	465	154	64756958	64764490	-1	None	MGC20410
17	KRT20	ENSG00000171431	ENST00000167588	protein_coding	KNOWN	CCDS11379	20412	1275	424	39032193	39041479	-1	None	CK20, K20, MGC35423
17	KRT20	ENSG00000171431	ENST00000482529	retained_intron	KNOWN	None	20412	None	None	39038715	39041162	-1	None	CK20, K20, MGC35423
22	None	ENSG00000232350	ENST00000418731	unprocessed_pseudogene	KNOWN	None	None	None	None	23032315	23032462	1	None	None
19	None	ENSG00000270760	ENST00000604228	antisense	KNOWN	None	None	None	None	36634983	36639250	-1	None	None
22	None	ENSG00000223999	ENST00000438185	lincRNA	KNOWN	None	None	None	None	23035263	23035797	-1	None	None
19	None	ENSG00000267005	ENST00000591692	processed_pseudogene	KNOWN	None	None	None	None	36664308	36664755	-1	None	None
19	RN7SL287P	ENSG00000264276	ENST00000577931	misc_RNA	KNOWN	None	46303	None	None	36680096	36680380	-1	None	None
22	IGLV3-24	ENSG00000253822	ENST00000517477	IG_V_pseudogene	KNOWN	None	5907	None	None	23036924	23037437	1	None	None
HSCHR6_MHC_DBB	RPS18	ENSG00000223367	ENST00000457341	protein_coding	KNOWN	None	10401	459	152	33217712	33222212	1	D6S218E	KE3, KE-3, HKE3, S18
HSCHR6_MHC_DBB	RPS18	ENSG00000223367	ENST00000476337	processed_transcript	KNOWN	None	10401	None	None	33217777	33222212	1	D6S218E	KE3, KE-3, HKE3, S18
HSCHR6_MHC_DBB	RPS18	ENSG00000223367	ENST00000490380	retained_intron	KNOWN	None	10401	None	None	33217790	33222207	1	D6S218E	KE3, KE-3, HKE3, S18
HSCHR6_MHC_DBB	RPS18	ENSG00000223367	ENST00000494232	protein_coding	PUTATIVE	None	10401	249	82	33217798	33222212	1	D6S218E	KE3, KE-3, HKE3, S18
HSCHR6_MHC_DBB	RPS18	ENSG00000223367	ENST00000482391	retained_intron	KNOWN	None	10401	None	None	33217801	33222207	1	D6S218E	KE3, KE-3, HKE3, S18
HSCHR6_MHC_DBB	RPS18	ENSG00000223367	ENST00000463232	retained_intron	KNOWN	None	10401	None	None	33217834	33222212	1	D6S218E	KE3, KE-3, HKE3, S18
HSCHR6_MHC_DBB	RPS18	ENSG00000223367	ENST00000485674	retained_intron	KNOWN	None	10401	None	None	33221023	33222212	1	D6S218E	KE3, KE-3, HKE3, S18
HSCHR6_MHC_DBB	RPS18	ENSG00000223367	ENST00000487970	retained_intron	KNOWN	None	10401	None	None	33221568	33222212	1	D6S218E	KE3, KE-3, HKE3, S18
19	None	ENSG00000200179	ENST00000363309	misc_RNA	NOVEL	None	None	None	None	36694249	36694361	-1	None	None
6	PSMB8	ENSG00000204264	ENST00000490613	retained_intron	KNOWN	None	9545	None	None	32808494	32809811	-1	LMP7	RING10, D6S216E, PSMB5i, beta5i
6	PSMB8	ENSG00000204264	ENST00000395339	protein_coding	KNOWN	None	9545	759	252	32808494	32811797	-1	LMP7	RING10, D6S216E, PSMB5i, beta5i
6	PSMB8	ENSG00000204264	ENST00000374882	protein_coding	KNOWN	CCDS4757	9545	831	276	32808494	32811824	-1	LMP7	RING10, D6S216E, PSMB5i, beta5i
6	PSMB8	ENSG00000204264	ENST00000374881	protein_coding	KNOWN	CCDS4756	9545	819	272	32808494	32812480	-1	LMP7	RING10, D6S216E, PSMB5i, beta5i
6	PSMB8	ENSG00000204264	ENST00000484003	retained_intron	KNOWN	None	9545	None	None	32808798	32812428	-1	LMP7	RING10, D6S216E, PSMB5i, beta5i
22	None	ENSG00000207830	ENST00000385095	miRNA	NOVEL	None	None	None	None	23040391	23040485	1	None	None
15	TMCO5A	ENSG00000166069	ENST00000560841	protein_coding	KNOWN	None	28558	212	69	38214140	38229119	1	TMCO5	MGC35118
15	TMCO5A	ENSG00000166069	ENST00000558625	protein_coding	KNOWN	None	28558	433	143	38225454	38233395	1	TMCO5	MGC35118
15	TMCO5A	ENSG00000166069	ENST00000559502	protein_coding	KNOWN	None	28558	687	228	38226827	38259925	1	TMCO5	MGC35118
15	TMCO5A	ENSG00000166069	ENST00000558148	protein_coding	KNOWN	None	28558	243	80	38226841	38229150	1	TMCO5	MGC35118
15	TMCO5A	ENSG00000166069	ENST00000558158	protein_coding	PUTATIVE	None	28558	573	190	38226844	38236627	1	TMCO5	MGC35118
15	TMCO5A	ENSG00000166069	ENST00000560653	nonsense_mediated_decay	KNOWN	None	28558	573	190	38226857	38243486	1	TMCO5	MGC35118
15	TMCO5A	ENSG00000166069	ENST00000559813	retained_intron	KNOWN	None	28558	None	None	38227458	38234588	1	TMCO5	MGC35118
15	TMCO5A	ENSG00000166069	ENST00000319669	protein_coding	KNOWN	CCDS10046	28558	867	288	38227458	38243740	1	TMCO5	MGC35118
15	TMCO5A	ENSG00000166069	ENST00000540944	protein_coding	KNOWN	None	28558	687	228	38227457	38248891	1	TMCO5	MGC35118
22	IGLVVI-22-1	ENSG00000253546	ENST00000521183	IG_V_pseudogene	KNOWN	None	15689	None	None	23043245	23043455	1	None	IGLV(VI)-22-1
19	None	ENSG00000267053	ENST00000586345	lincRNA	KNOWN	None	None	None	None	36795482	36802694	1	None	None
19	None	ENSG00000267053	ENST00000586488	lincRNA	KNOWN	None	None	None	None	36795523	36803570	1	None	None
19	None	ENSG00000267053	ENST00000590845	lincRNA	KNOWN	None	None	None	None	36798100	36803562	1	None	None
19	None	ENSG00000267053	ENST00000586340	lincRNA	KNOWN	None	None	None	None	36801260	36803564	1	None	None
19	None	ENSG00000267053	ENST00000593173	lincRNA	KNOWN	None	None	None	None	36802446	36803570	1	None	None
19	None	ENSG00000267053	ENST00000600983	lincRNA	KNOWN	None	None	None	None	36801260	36803563	1	None	None
6	FUCA2	ENSG00000001036	ENST00000002165	protein_coding	KNOWN	CCDS5200	4008	1404	467	143816614	143832827	-1	None	MGC1314, dJ20N2.5
6	FUCA2	ENSG00000001036	ENST00000451668	protein_coding	KNOWN	None	4008	330	109	143818089	143823259	-1	None	MGC1314, dJ20N2.5
6	FUCA2	ENSG00000001036	ENST00000367585	protein_coding	KNOWN	None	4008	498	165	143823082	143832827	-1	None	MGC1314, dJ20N2.5
6	FUCA2	ENSG00000001036	ENST00000438118	protein_coding	KNOWN	None	4008	498	165	143817763	143832799	-1	None	MGC1314, dJ20N2.5
11	ACAT1	ENSG00000075239	ENST00000265838	protein_coding	KNOWN	CCDS8339	93	1284	427	107992243	108018503	1	ACAT	THIL
11	ACAT1	ENSG00000075239	ENST00000524833	retained_intron	KNOWN	None	93	None	None	107992294	108005175	1	ACAT	THIL
11	ACAT1	ENSG00000075239	ENST00000299355	protein_coding	PUTATIVE	None	93	489	162	107992294	108007666	1	ACAT	THIL
11	ACAT1	ENSG00000075239	ENST00000531813	nonsense_mediated_decay	KNOWN	None	93	426	141	107992311	108014673	1	ACAT	THIL
11	ACAT1	ENSG00000075239	ENST00000531853	processed_transcript	PUTATIVE	None	93	None	None	107992478	108004971	1	ACAT	THIL
11	ACAT1	ENSG00000075239	ENST00000527942	protein_coding	PUTATIVE	None	93	164	53	107992523	108005968	1	ACAT	THIL
11	ACAT1	ENSG00000075239	ENST00000526119	processed_transcript	PUTATIVE	None	93	None	None	107992532	108002681	1	ACAT	THIL
11	ACAT1	ENSG00000075239	ENST00000528370	protein_coding	PUTATIVE	None	93	409	135	108004621	108009891	1	ACAT	THIL
11	ACAT1	ENSG00000075239	ENST00000534773	retained_intron	KNOWN	None	93	None	None	108009447	108010898	1	ACAT	THIL
11	ACAT1	ENSG00000075239	ENST00000532792	retained_intron	KNOWN	None	93	None	None	108009695	108014948	1	ACAT	THIL
11	ACAT1	ENSG00000075239	ENST00000533610	retained_intron	KNOWN	None	93	None	None	108010752	108014874	1	ACAT	THIL
11	ACAT1	ENSG00000075239	ENST00000533597	retained_intron	KNOWN	None	93	None	None	108016848	108018315	1	ACAT	THIL
19	ZNF702P	ENSG00000242779	ENST00000270443	processed_transcript	KNOWN	None	25775	None	None	53471504	53496777	-1	ZNF702	FLJ12985
19	ZNF702P	ENSG00000242779	ENST00000434269	transcribed_processed_pseudogene	KNOWN	None	25775	None	None	53472163	53474128	-1	ZNF702	FLJ12985
19	ZNF702P	ENSG00000242779	ENST00000598752	processed_transcript	KNOWN	None	25775	None	None	53473636	53484797	-1	ZNF702	FLJ12985
19	ZNF702P	ENSG00000242779	ENST00000600425	processed_transcript	KNOWN	None	25775	None	None	53473698	53541151	-1	ZNF702	FLJ12985
19	ZNF702P	ENSG00000242779	ENST00000599665	processed_transcript	KNOWN	None	25775	None	None	53474015	53496779	-1	ZNF702	FLJ12985
19	ZNF702P	ENSG00000242779	ENST00000595402	processed_transcript	KNOWN	None	25775	None	None	53477295	53496779	-1	ZNF702	FLJ12985
19	ZNF702P	ENSG00000242779	ENST00000599093	processed_transcript	KNOWN	None	25775	None	None	53478626	53496778	-1	ZNF702	FLJ12985
19	ZNF702P	ENSG00000242779	ENST00000602242	processed_transcript	KNOWN	None	25775	None	None	53482046	53496784	-1	ZNF702	FLJ12985
19	ZNF702P	ENSG00000242779	ENST00000594516	processed_transcript	KNOWN	None	25775	None	None	53482153	53541136	-1	ZNF702	FLJ12985
19	ZNF702P	ENSG00000242779	ENST00000597880	processed_transcript	KNOWN	None	25775	None	None	53486092	53489972	-1	ZNF702	FLJ12985
19	ZNF702P	ENSG00000242779	ENST00000600949	processed_transcript	KNOWN	None	25775	None	None	53489705	53496779	-1	ZNF702	FLJ12985
19	ZNF702P	ENSG00000242779	ENST00000595137	processed_transcript	KNOWN	None	25775	None	None	53489819	53496784	-1	ZNF702	FLJ12985
10	AP3M1	ENSG00000185009	ENST00000355264	protein_coding	KNOWN	CCDS7342	569	1257	418	75881524	75910821	-1	None	None
10	AP3M1	ENSG00000185009	ENST00000372745	protein_coding	KNOWN	CCDS7342	569	1257	418	75882722	75910600	-1	None	None
10	AP3M1	ENSG00000185009	ENST00000480373	processed_transcript	KNOWN	None	569	None	None	75888636	75889762	-1	None	None
10	AP3M1	ENSG00000185009	ENST00000487653	processed_transcript	KNOWN	None	569	None	None	75898014	75910515	-1	None	None
11	None	ENSG00000221030	ENST00000408103	miRNA	NOVEL	None	None	None	None	4467872	4467957	1	None	None
15	SYNM	ENSG00000182253	ENST00000560674	protein_coding	PUTATIVE	None	24466	2904	967	99638420	99675798	1	DMN	KIAA0353, SYN
15	SYNM	ENSG00000182253	ENST00000561323	processed_transcript	KNOWN	None	24466	None	None	99645241	99675794	1	DMN	KIAA0353, SYN
15	SYNM	ENSG00000182253	ENST00000561306	processed_transcript	KNOWN	None	24466	None	None	99645286	99675788	1	DMN	KIAA0353, SYN
15	SYNM	ENSG00000182253	ENST00000558420	processed_transcript	KNOWN	None	24466	None	None	99645286	99675788	1	DMN	KIAA0353, SYN
15	SYNM	ENSG00000182253	ENST00000336292	protein_coding	KNOWN	None	24466	4695	1564	99645286	99675770	1	DMN	KIAA0353, SYN
15	SYNM	ENSG00000182253	ENST00000328642	protein_coding	KNOWN	None	24466	3759	1252	99645286	99675770	1	DMN	KIAA0353, SYN
20	UCKL1	ENSG00000198276	ENST00000354216	protein_coding	KNOWN	CCDS13547	15938	1647	548	62571186	62587768	-1	URKL1	FLJ20517
20	UCKL1	ENSG00000198276	ENST00000369908	protein_coding	KNOWN	CCDS54479	15938	1602	533	62571277	62582479	-1	URKL1	FLJ20517
20	UCKL1	ENSG00000198276	ENST00000430743	protein_coding	PUTATIVE	None	15938	405	134	62571731	62572962	-1	URKL1	FLJ20517
20	UCKL1	ENSG00000198276	ENST00000492660	processed_transcript	KNOWN	None	15938	None	None	62577050	62577861	-1	URKL1	FLJ20517
20	UCKL1	ENSG00000198276	ENST00000483710	processed_transcript	KNOWN	None	15938	None	None	62577806	62587694	-1	URKL1	FLJ20517
20	UCKL1	ENSG00000198276	ENST00000369892	protein_coding	KNOWN	None	15938	1647	548	62571193	62587769	-1	URKL1	FLJ20517
20	UCKL1	ENSG00000198276	ENST00000358711	protein_coding	KNOWN	None	15938	1260	419	62571193	62587769	-1	URKL1	FLJ20517
2	RNU6ATAC37P	ENSG00000221255	ENST00000408328	snRNA	KNOWN	None	46936	None	None	7716972	7717102	1	None	None
11	OR52K3P	ENSG00000225101	ENST00000531655	unitary_pseudogene	KNOWN	None	15224	None	None	4496043	4496985	1	None	None
11	OR52K3P	ENSG00000225101	ENST00000416879	unitary_pseudogene	KNOWN	None	15224	None	None	4496470	4497123	1	None	None
19	None	ENSG00000267022	ENST00000591793	nonsense_mediated_decay	KNOWN	None	None	1797	598	44529506	44591471	1	None	None
2	None	ENSG00000230515	ENST00000414654	lincRNA	KNOWN	None	None	None	None	7811735	7812377	-1	None	None
6	None	ENSG00000229836	ENST00000421191	unprocessed_pseudogene	KNOWN	None	None	None	None	31275592	31276326	-1	None	None
7	FBXL18	ENSG00000155034	ENST00000415009	nonsense_mediated_decay	KNOWN	None	21874	2007	668	5470966	5553383	-1	None	FLJ11467, Fbl18
7	FBXL18	ENSG00000155034	ENST00000382368	protein_coding	KNOWN	CCDS43546	21874	2157	718	5520189	5553429	-1	None	FLJ11467, Fbl18
7	FBXL18	ENSG00000155034	ENST00000458142	protein_coding	PUTATIVE	None	21874	2057	684	5528809	5541550	-1	None	FLJ11467, Fbl18
7	FBXL18	ENSG00000155034	ENST00000453700	protein_coding	KNOWN	None	21874	2406	801	5528994	5553423	-1	None	FLJ11467, Fbl18
6	None	ENSG00000271581	ENST00000603274	unprocessed_pseudogene	KNOWN	None	None	None	None	31324424	31325414	1	None	None
2	None	ENSG00000235576	ENST00000417930	lincRNA	KNOWN	None	None	None	None	7865932	7870836	1	None	None
7	EEF1GP1	ENSG00000186676	ENST00000457231	processed_pseudogene	KNOWN	None	44556	None	None	124673507	124675355	1	None	None
11	CPT1A	ENSG00000110090	ENST00000540367	protein_coding	KNOWN	CCDS31624	2328	2271	756	68522088	68582971	-1	CPT1	CPT1-L, L-CPT1
11	CPT1A	ENSG00000110090	ENST00000265641	protein_coding	KNOWN	CCDS8185	2328	2322	773	68522357	68609384	-1	CPT1	CPT1-L, L-CPT1
11	CPT1A	ENSG00000110090	ENST00000539743	protein_coding	KNOWN	CCDS8185	2328	2322	773	68525081	68582971	-1	CPT1	CPT1-L, L-CPT1
11	CPT1A	ENSG00000110090	ENST00000537756	processed_transcript	PUTATIVE	None	2328	None	None	68530095	68541355	-1	CPT1	CPT1-L, L-CPT1
11	CPT1A	ENSG00000110090	ENST00000538994	protein_coding	PUTATIVE	None	2328	237	78	68553212	68566736	-1	CPT1	CPT1-L, L-CPT1
11	CPT1A	ENSG00000110090	ENST00000565318	protein_coding	KNOWN	None	2328	404	133	68574984	68586160	-1	CPT1	CPT1-L, L-CPT1
11	CPT1A	ENSG00000110090	ENST00000569129	protein_coding	KNOWN	None	2328	353	116	68575035	68607152	-1	CPT1	CPT1-L, L-CPT1
11	CPT1A	ENSG00000110090	ENST00000561996	protein_coding	KNOWN	None	2328	280	92	68579906	68611878	-1	CPT1	CPT1-L, L-CPT1
11	CPT1A	ENSG00000110090	ENST00000376618	protein_coding	KNOWN	CCDS31624	2328	2271	756	68522090	68609399	-1	CPT1	CPT1-L, L-CPT1
2	ARHGEF4	ENSG00000136002	ENST00000526381	processed_transcript	PUTATIVE	None	684	None	None	131594489	131672058	1	None	STM6, KIAA1112, ASEF
2	ARHGEF4	ENSG00000136002	ENST00000409359	protein_coding	PUTATIVE	None	684	3045	1014	131595028	131704803	1	None	STM6, KIAA1112, ASEF
2	ARHGEF4	ENSG00000136002	ENST00000326016	protein_coding	KNOWN	CCDS2165	684	2073	690	131674224	131804826	1	None	STM6, KIAA1112, ASEF
2	ARHGEF4	ENSG00000136002	ENST00000438985	protein_coding	PUTATIVE	None	684	1119	372	131674538	131804281	1	None	STM6, KIAA1112, ASEF
2	ARHGEF4	ENSG00000136002	ENST00000525839	protein_coding	KNOWN	CCDS42754	684	2013	670	131675004	131804824	1	None	STM6, KIAA1112, ASEF
2	ARHGEF4	ENSG00000136002	ENST00000409303	protein_coding	NOVEL	None	684	1893	630	131688531	131803762	1	None	STM6, KIAA1112, ASEF
2	ARHGEF4	ENSG00000136002	ENST00000355771	protein_coding	KNOWN	None	684	1860	619	131769256	131803762	1	None	STM6, KIAA1112, ASEF
2	ARHGEF4	ENSG00000136002	ENST00000496764	processed_transcript	PUTATIVE	None	684	None	None	131792501	131797243	1	None	STM6, KIAA1112, ASEF
2	ARHGEF4	ENSG00000136002	ENST00000439368	processed_transcript	KNOWN	None	684	None	None	131792545	131798849	1	None	STM6, KIAA1112, ASEF
2	ARHGEF4	ENSG00000136002	ENST00000528247	processed_transcript	KNOWN	None	684	None	None	131793058	131797981	1	None	STM6, KIAA1112, ASEF
2	ARHGEF4	ENSG00000136002	ENST00000490728	retained_intron	KNOWN	None	684	None	None	131797102	131804826	1	None	STM6, KIAA1112, ASEF
2	ARHGEF4	ENSG00000136002	ENST00000532720	protein_coding	PUTATIVE	None	684	862	286	131798850	131803131	1	None	STM6, KIAA1112, ASEF
2	ARHGEF4	ENSG00000136002	ENST00000527365	retained_intron	KNOWN	None	684	None	None	131798886	131801243	1	None	STM6, KIAA1112, ASEF
2	ARHGEF4	ENSG00000136002	ENST00000525092	retained_intron	KNOWN	None	684	None	None	131799084	131802107	1	None	STM6, KIAA1112, ASEF
2	ARHGEF4	ENSG00000136002	ENST00000428230	protein_coding	KNOWN	None	684	579	192	131674538	131804281	1	None	STM6, KIAA1112, ASEF
2	ARHGEF4	ENSG00000136002	ENST00000392953	protein_coding	KNOWN	CCDS42754	684	2013	670	131674224	131804836	1	None	STM6, KIAA1112, ASEF
6	DHFRP2	ENSG00000228432	ENST00000414224	processed_pseudogene	KNOWN	None	2863	None	None	31334129	31334675	-1	None	None
2	None	ENSG00000232979	ENST00000430932	processed_pseudogene	KNOWN	None	None	None	None	7875776	7875914	-1	None	None
6	RNU6-283P	ENSG00000201658	ENST00000364788	snRNA	KNOWN	None	47246	None	None	31337911	31338017	1	None	None
3	MAP4	ENSG00000047849	ENST00000429422	protein_coding	PUTATIVE	None	6862	1480	492	47892185	47950757	-1	None	None
3	MAP4	ENSG00000047849	ENST00000395734	protein_coding	KNOWN	CCDS46818	6862	3408	1135	47892186	48130329	-1	None	None
3	MAP4	ENSG00000047849	ENST00000426837	protein_coding	PUTATIVE	None	6862	6894	2297	47892584	48130331	-1	None	None
3	MAP4	ENSG00000047849	ENST00000360240	protein_coding	KNOWN	CCDS33750	6862	3459	1152	47893358	48130762	-1	None	None
3	MAP4	ENSG00000047849	ENST00000420772	protein_coding	KNOWN	None	6862	2487	828	47893635	47934325	-1	None	None
3	MAP4	ENSG00000047849	ENST00000335271	protein_coding	PUTATIVE	None	6862	1392	463	47894110	47932826	-1	None	None
3	MAP4	ENSG00000047849	ENST00000477765	retained_intron	KNOWN	None	6862	None	None	47896615	47898968	-1	None	None
3	MAP4	ENSG00000047849	ENST00000383736	protein_coding	KNOWN	None	6862	2135	710	47910702	47951878	-1	None	None
3	MAP4	ENSG00000047849	ENST00000462206	processed_transcript	KNOWN	None	6862	None	None	47912738	47919255	-1	None	None
3	MAP4	ENSG00000047849	ENST00000497735	retained_intron	KNOWN	None	6862	None	None	47918410	47934065	-1	None	None
3	MAP4	ENSG00000047849	ENST00000482752	processed_transcript	KNOWN	None	6862	None	None	47918817	47969792	-1	None	None
3	MAP4	ENSG00000047849	ENST00000423088	protein_coding	PUTATIVE	None	6862	871	289	47958352	48040370	-1	None	None
3	MAP4	ENSG00000047849	ENST00000434267	protein_coding	NOVEL	CCDS46821	6862	300	99	48014574	48057902	-1	None	None
3	MAP4	ENSG00000047849	ENST00000439356	protein_coding	NOVEL	CCDS46821	6862	300	99	48014576	48130314	-1	None	None
3	MAP4	ENSG00000047849	ENST00000468075	processed_transcript	KNOWN	None	6862	None	None	48040125	48130693	-1	None	None
3	MAP4	ENSG00000047849	ENST00000441748	protein_coding	KNOWN	None	6862	750	249	47894110	47932795	-1	None	None
3	MAP4	ENSG00000047849	ENST00000383737	protein_coding	KNOWN	None	6862	2436	811	47892182	48130769	-1	None	None
3	MAP4	ENSG00000047849	ENST00000264724	protein_coding	KNOWN	None	6862	2664	887	47892182	47951731	-1	None	None
2	None	ENSG00000229405	ENST00000433998	processed_pseudogene	KNOWN	None	None	None	None	7876569	7877226	-1	None	None
15	DUOXA2	ENSG00000140274	ENST00000323030	protein_coding	KNOWN	CCDS10118	32698	963	320	45406519	45410619	1	None	None
15	DUOXA2	ENSG00000140274	ENST00000350243	retained_intron	KNOWN	None	32698	None	None	45406524	45409936	1	None	None
15	DUOXA2	ENSG00000140274	ENST00000491993	nonsense_mediated_decay	KNOWN	None	32698	366	121	45406672	45410303	1	None	None
6	None	ENSG00000265294	ENST00000578513	miRNA	NOVEL	None	None	None	None	31342095	31342180	-1	None	None
12	None	ENSG00000257726	ENST00000547948	protein_coding	PUTATIVE	None	None	258	85	115800817	115802550	1	None	None
6	FGFR3P1	ENSG00000230994	ENST00000449999	processed_pseudogene	KNOWN	None	21664	None	None	31345196	31345796	1	FGFR3P, FGFR6	D84394.2
6	RNF8	ENSG00000112130	ENST00000373479	protein_coding	KNOWN	CCDS4834	10071	1458	485	37321748	37362514	1	None	KIAA0646
6	RNF8	ENSG00000112130	ENST00000494320	nonsense_mediated_decay	KNOWN	None	10071	150	49	37321755	37336650	1	None	KIAA0646
6	RNF8	ENSG00000112130	ENST00000229866	nonsense_mediated_decay	KNOWN	None	10071	297	98	37321791	37358944	1	None	KIAA0646
6	RNF8	ENSG00000112130	ENST00000487950	protein_coding	PUTATIVE	None	10071	616	204	37321840	37336806	1	None	KIAA0646
6	RNF8	ENSG00000112130	ENST00000479516	processed_transcript	KNOWN	None	10071	None	None	37321848	37338023	1	None	KIAA0646
6	RNF8	ENSG00000112130	ENST00000469316	nonsense_mediated_decay	KNOWN	None	10071	270	89	37321849	37336314	1	None	KIAA0646
6	RNF8	ENSG00000112130	ENST00000469731	protein_coding	KNOWN	CCDS4833	10071	1347	448	37321867	37359007	1	None	KIAA0646
6	RNF8	ENSG00000112130	ENST00000498460	protein_coding	NOVEL	None	10071	625	207	37336652	37358838	1	None	KIAA0646
6	RNF8	ENSG00000112130	ENST00000394443	protein_coding	KNOWN	None	10071	297	98	37321819	37336210	1	None	KIAA0646
2	None	ENSG00000226506	ENST00000416534	lincRNA	KNOWN	None	None	None	None	8026901	8039786	-1	None	None
2	None	ENSG00000226506	ENST00000416607	lincRNA	KNOWN	None	None	None	None	8029555	8037881	-1	None	None
14	C14orf80	ENSG00000185347	ENST00000329886	protein_coding	KNOWN	CCDS55955	20127	1065	354	105956192	105965912	1	None	None
14	C14orf80	ENSG00000185347	ENST00000427614	protein_coding	KNOWN	None	20127	240	79	105956200	105958580	1	None	None
14	C14orf80	ENSG00000185347	ENST00000455454	protein_coding	NOVEL	None	20127	648	215	105956213	105963780	1	None	None
14	C14orf80	ENSG00000185347	ENST00000432805	protein_coding	NOVEL	None	20127	908	301	105956461	105965033	1	None	None
14	C14orf80	ENSG00000185347	ENST00000551054	processed_transcript	KNOWN	None	20127	None	None	105956520	105965121	1	None	None
14	C14orf80	ENSG00000185347	ENST00000392527	protein_coding	KNOWN	CCDS45180	20127	1059	352	105956520	105965523	1	None	None
14	C14orf80	ENSG00000185347	ENST00000443229	protein_coding	KNOWN	None	20127	331	109	105956633	105958940	1	None	None
14	C14orf80	ENSG00000185347	ENST00000421892	protein_coding	KNOWN	None	20127	471	156	105957402	105964212	1	None	None
14	C14orf80	ENSG00000185347	ENST00000451719	protein_coding	KNOWN	None	20127	164	53	105957571	105959028	1	None	None
14	C14orf80	ENSG00000185347	ENST00000392522	protein_coding	KNOWN	CCDS45181	20127	1281	426	105957586	105965505	1	None	None
14	C14orf80	ENSG00000185347	ENST00000392523	protein_coding	KNOWN	None	20127	1488	495	105957592	105965519	1	None	None
14	C14orf80	ENSG00000185347	ENST00000460959	retained_intron	KNOWN	None	20127	None	None	105957599	105959054	1	None	None
14	C14orf80	ENSG00000185347	ENST00000354560	protein_coding	KNOWN	CCDS45182	20127	1182	393	105957605	105965546	1	None	None
14	C14orf80	ENSG00000185347	ENST00000546536	retained_intron	KNOWN	None	20127	None	None	105957609	105963994	1	None	None
14	C14orf80	ENSG00000185347	ENST00000463869	retained_intron	KNOWN	None	20127	None	None	105957663	105963750	1	None	None
14	C14orf80	ENSG00000185347	ENST00000548920	nonsense_mediated_decay	KNOWN	None	20127	360	119	105957704	105965565	1	None	None
14	C14orf80	ENSG00000185347	ENST00000450383	protein_coding	KNOWN	None	20127	747	248	105957731	105965283	1	None	None
14	C14orf80	ENSG00000185347	ENST00000551538	retained_intron	KNOWN	None	20127	None	None	105960491	105965566	1	None	None
14	C14orf80	ENSG00000185347	ENST00000546492	retained_intron	KNOWN	None	20127	None	None	105963963	105965566	1	None	None
14	C14orf80	ENSG00000185347	ENST00000334656	protein_coding	KNOWN	CCDS45180	20127	1059	352	105957440	105965551	1	None	None
10	GATA3-AS1	ENSG00000197308	ENST00000355358	lincRNA	KNOWN	None	33786	None	None	8092413	8095447	-1	None	None
10	GATA3-AS1	ENSG00000197308	ENST00000420815	lincRNA	KNOWN	None	33786	None	None	8092439	8094458	-1	None	None
10	GATA3-AS1	ENSG00000197308	ENST00000438755	lincRNA	KNOWN	None	33786	None	None	8092439	8094458	-1	None	None
6	ZDHHC20P2	ENSG00000223702	ENST00000424108	processed_pseudogene	KNOWN	None	33457	None	None	31348188	31348616	1	None	OTTHUMG00000133740
15	ATP10A	ENSG00000206190	ENST00000356865	protein_coding	KNOWN	CCDS32178	13542	4500	1499	25922420	26108355	-1	ATP10C	ATPVA, ATPVC, KIAA0566
15	ATP10A	ENSG00000206190	ENST00000555815	nonsense_mediated_decay	KNOWN	None	13542	1785	594	25922420	26108870	-1	ATP10C	ATPVA, ATPVC, KIAA0566
15	ATP10A	ENSG00000206190	ENST00000555450	retained_intron	KNOWN	None	13542	None	None	25926141	25929182	-1	ATP10C	ATPVA, ATPVC, KIAA0566
15	ATP10A	ENSG00000206190	ENST00000555756	protein_coding	NOVEL	None	13542	418	138	25928594	25939972	-1	ATP10C	ATPVA, ATPVC, KIAA0566
15	ATP10A	ENSG00000206190	ENST00000389967	nonsense_mediated_decay	KNOWN	None	13542	468	155	26086629	26110317	-1	ATP10C	ATPVA, ATPVC, KIAA0566
15	ATP10A	ENSG00000206190	ENST00000553577	processed_transcript	PUTATIVE	None	13542	None	None	26086636	26107331	-1	ATP10C	ATPVA, ATPVC, KIAA0566
18	GNAL	ENSG00000141404	ENST00000334049	protein_coding	KNOWN	CCDS11851	4388	1377	458	11688955	11885684	1	None	None
18	GNAL	ENSG00000141404	ENST00000585590	processed_transcript	PUTATIVE	None	4388	None	None	11689689	11702290	1	None	None
18	GNAL	ENSG00000141404	ENST00000535121	protein_coding	KNOWN	CCDS11852	4388	1146	381	11751471	11881134	1	None	None
18	GNAL	ENSG00000141404	ENST00000269162	protein_coding	KNOWN	CCDS11852	4388	1146	381	11751507	11881409	1	None	None
18	GNAL	ENSG00000141404	ENST00000423027	protein_coding	KNOWN	CCDS11852	4388	1146	381	11752112	11881922	1	None	None
18	GNAL	ENSG00000141404	ENST00000585642	protein_coding	PUTATIVE	None	4388	538	178	11752805	11868583	1	None	None
18	GNAL	ENSG00000141404	ENST00000590972	processed_transcript	KNOWN	None	4388	None	None	11752883	11833666	1	None	None
18	GNAL	ENSG00000141404	ENST00000590228	protein_coding	PUTATIVE	None	4388	435	144	11753547	11868585	1	None	None
18	GNAL	ENSG00000141404	ENST00000535980	processed_transcript	KNOWN	None	4388	None	None	11857439	11881171	1	None	None
18	GNAL	ENSG00000141404	ENST00000586926	protein_coding	PUTATIVE	None	4388	164	53	11872300	11874402	1	None	None
18	GNAL	ENSG00000141404	ENST00000602628	protein_coding	KNOWN	CCDS58614	4388	525	174	11857439	11881171	1	None	None
6	HLA-S	ENSG00000225851	ENST00000425174	unprocessed_pseudogene	KNOWN	None	19395	None	None	31349851	31350065	-1	None	HLA-17
5	MRPS27	ENSG00000113048	ENST00000261413	protein_coding	KNOWN	CCDS4013	14512	1245	414	71515236	71616088	-1	None	KIAA0264
5	MRPS27	ENSG00000113048	ENST00000457646	protein_coding	NOVEL	None	14512	1077	358	71515355	71616082	-1	None	KIAA0264
5	MRPS27	ENSG00000113048	ENST00000515226	retained_intron	KNOWN	None	14512	None	None	71515356	71525380	-1	None	KIAA0264
5	MRPS27	ENSG00000113048	ENST00000519874	processed_transcript	PUTATIVE	None	14512	None	None	71515876	71516600	-1	None	KIAA0264
5	MRPS27	ENSG00000113048	ENST00000513900	protein_coding	KNOWN	None	14512	1287	428	71516664	71616058	-1	None	KIAA0264
5	MRPS27	ENSG00000113048	ENST00000508863	protein_coding	PUTATIVE	None	14512	897	298	71516916	71616049	-1	None	KIAA0264
5	MRPS27	ENSG00000113048	ENST00000522585	processed_transcript	PUTATIVE	None	14512	None	None	71518276	71519557	-1	None	KIAA0264
5	MRPS27	ENSG00000113048	ENST00000522562	processed_transcript	KNOWN	None	14512	None	None	71519630	71533957	-1	None	KIAA0264
5	MRPS27	ENSG00000113048	ENST00000522042	processed_transcript	KNOWN	None	14512	None	None	71521920	71584699	-1	None	KIAA0264
5	MRPS27	ENSG00000113048	ENST00000515404	protein_coding	NOVEL	None	14512	594	197	71523590	71616066	-1	None	KIAA0264
5	MRPS27	ENSG00000113048	ENST00000519143	processed_transcript	KNOWN	None	14512	None	None	71533852	71603789	-1	None	KIAA0264
5	MRPS27	ENSG00000113048	ENST00000522404	processed_transcript	KNOWN	None	14512	None	None	71533902	71616036	-1	None	KIAA0264
5	MRPS27	ENSG00000113048	ENST00000520285	processed_transcript	KNOWN	None	14512	None	None	71590381	71616018	-1	None	KIAA0264
5	MRPS27	ENSG00000113048	ENST00000522095	protein_coding	NOVEL	None	14512	285	94	71591142	71616055	-1	None	KIAA0264
5	MRPS27	ENSG00000113048	ENST00000523654	processed_transcript	KNOWN	None	14512	None	None	71591376	71616065	-1	None	KIAA0264
5	MRPS27	ENSG00000113048	ENST00000506957	processed_transcript	KNOWN	None	14512	None	None	71591376	71616473	-1	None	KIAA0264
9	FCN1	ENSG00000085265	ENST00000371806	protein_coding	KNOWN	CCDS6985	3623	981	326	137801431	137809809	-1	None	FCNM
20	None	ENSG00000269549	ENST00000595203	protein_coding	KNOWN	None	None	399	132	44074071	44077220	1	None	None
11	ARL2	ENSG00000213465	ENST00000246747	protein_coding	KNOWN	CCDS8088	693	555	184	64781585	64789656	1	None	ARFL2
11	ARL2	ENSG00000213465	ENST00000524585	retained_intron	KNOWN	None	693	None	None	64781643	64787057	1	None	ARFL2
11	ARL2	ENSG00000213465	ENST00000529384	protein_coding	PUTATIVE	CCDS8088	693	555	184	64781652	64789656	1	None	ARFL2
11	ARL2	ENSG00000213465	ENST00000533729	protein_coding	NOVEL	CCDS55770	693	474	157	64781664	64789632	1	None	ARFL2
11	ARL2	ENSG00000213465	ENST00000531533	retained_intron	KNOWN	None	693	None	None	64786054	64788019	1	None	ARFL2
11	ARL2	ENSG00000213465	ENST00000529254	retained_intron	KNOWN	None	693	None	None	64788988	64789588	1	None	ARFL2
20	None	ENSG00000268111	ENST00000599747	protein_coding	NOVEL	None	None	60	19	44095910	44107452	-1	None	None
17	CWC25	ENSG00000108296	ENST00000225428	protein_coding	KNOWN	CCDS45663	25989	1278	425	36957340	36981734	-1	CCDC49	FLJ20291
17	CWC25	ENSG00000108296	ENST00000585298	nonsense_mediated_decay	KNOWN	None	25989	207	68	36957978	36981568	-1	CCDC49	FLJ20291
17	CWC25	ENSG00000108296	ENST00000578906	nonsense_mediated_decay	KNOWN	None	25989	10	2	36959068	36971988	-1	CCDC49	FLJ20291
17	CWC25	ENSG00000108296	ENST00000584007	nonsense_mediated_decay	KNOWN	None	25989	188	61	36959093	36969055	-1	CCDC49	FLJ20291
17	CWC25	ENSG00000108296	ENST00000581092	retained_intron	KNOWN	None	25989	None	None	36962756	36966061	-1	CCDC49	FLJ20291
17	CWC25	ENSG00000108296	ENST00000582713	nonsense_mediated_decay	KNOWN	None	25989	474	157	36963053	36981608	-1	CCDC49	FLJ20291
17	CWC25	ENSG00000108296	ENST00000583435	nonsense_mediated_decay	KNOWN	None	25989	207	68	36966607	36981559	-1	CCDC49	FLJ20291
17	CWC25	ENSG00000108296	ENST00000536127	protein_coding	KNOWN	None	25989	1089	362	36957978	36981568	-1	CCDC49	FLJ20291
2	None	ENSG00000235665	ENST00000426969	lincRNA	KNOWN	None	None	None	None	8062556	8119441	-1	None	None
2	None	ENSG00000235665	ENST00000456681	lincRNA	KNOWN	None	None	None	None	8064285	8418214	-1	None	None
19	C19orf82	ENSG00000267106	ENST00000591932	processed_transcript	KNOWN	None	27613	None	None	9731967	9744561	1	None	None
19	C19orf82	ENSG00000267106	ENST00000588765	nonsense_mediated_decay	KNOWN	None	27613	138	45	9732179	9744290	1	None	None
19	C19orf82	ENSG00000267106	ENST00000586614	protein_coding	PUTATIVE	None	27613	375	124	9732181	9744204	1	None	None
19	C19orf82	ENSG00000267106	ENST00000585797	nonsense_mediated_decay	KNOWN	None	27613	207	68	9732181	9745397	1	None	None
19	C19orf82	ENSG00000267106	ENST00000587536	protein_coding	PUTATIVE	CCDS59350	27613	315	104	9732193	9745538	1	None	None
19	C19orf82	ENSG00000267106	ENST00000591056	protein_coding	PUTATIVE	None	27613	207	68	9732195	9743327	1	None	None
19	C19orf82	ENSG00000267106	ENST00000592851	protein_coding	PUTATIVE	CCDS59350	27613	315	104	9732223	9756165	1	None	None
19	C19orf82	ENSG00000267106	ENST00000586943	retained_intron	KNOWN	None	27613	None	None	9754112	9756572	1	None	None
3	NCEH1	ENSG00000144959	ENST00000475381	protein_coding	KNOWN	None	29260	1227	408	172348039	172429008	-1	AADACL1	KIAA1363, NCEH
3	NCEH1	ENSG00000144959	ENST00000470419	retained_intron	KNOWN	None	29260	None	None	172351565	172353974	-1	AADACL1	KIAA1363, NCEH
3	NCEH1	ENSG00000144959	ENST00000424772	protein_coding	NOVEL	None	29260	921	306	172351663	172428842	-1	AADACL1	KIAA1363, NCEH
3	NCEH1	ENSG00000144959	ENST00000421723	nonsense_mediated_decay	KNOWN	None	29260	282	93	172351789	172428902	-1	AADACL1	KIAA1363, NCEH
3	NCEH1	ENSG00000144959	ENST00000538775	protein_coding	KNOWN	CCDS54682	29260	1347	448	172348435	172429008	-1	AADACL1	KIAA1363, NCEH
3	NCEH1	ENSG00000144959	ENST00000273512	protein_coding	KNOWN	CCDS33893	29260	1323	440	172348435	172429008	-1	AADACL1	KIAA1363, NCEH
3	NCEH1	ENSG00000144959	ENST00000543711	protein_coding	KNOWN	CCDS54681	29260	828	275	172348435	172429008	-1	AADACL1	KIAA1363, NCEH
11	OR52M2P	ENSG00000226616	ENST00000414298	unprocessed_pseudogene	KNOWN	None	15226	None	None	4536196	4537154	-1	OR52M4	None
18	MEP1B	ENSG00000141434	ENST00000581184	protein_coding	PUTATIVE	None	7020	342	113	29765032	29784214	1	None	None
18	MEP1B	ENSG00000141434	ENST00000269202	protein_coding	KNOWN	CCDS45846	7020	2106	701	29769987	29800367	1	None	None
18	MEP1B	ENSG00000141434	ENST00000581447	protein_coding	NOVEL	None	7020	2103	700	29769988	29800367	1	None	None
18	MEP1B	ENSG00000141434	ENST00000579919	retained_intron	KNOWN	None	7020	None	None	29770002	29783136	1	None	None
11	OR51A9P	ENSG00000180723	ENST00000422578	unprocessed_pseudogene	KNOWN	None	15190	None	None	4682083	4682993	-1	None	None
11	OR51A9P	ENSG00000180723	ENST00000324875	pseudogene	KNOWN	None	15190	None	None	4682083	4682963	-1	None	None
2	LINC00299	ENSG00000236790	ENST00000430192	lincRNA	KNOWN	None	27940	None	None	8147901	8464760	-1	C2orf46, NCRNA00299	FLJ45673
2	LINC00299	ENSG00000236790	ENST00000454043	lincRNA	KNOWN	None	27940	None	None	8180064	8258454	-1	C2orf46, NCRNA00299	FLJ45673
2	LINC00299	ENSG00000236790	ENST00000442956	lincRNA	KNOWN	None	27940	None	None	8347273	8468549	-1	C2orf46, NCRNA00299	FLJ45673
2	LINC00299	ENSG00000236790	ENST00000444688	lincRNA	KNOWN	None	27940	None	None	8452939	8523751	-1	C2orf46, NCRNA00299	FLJ45673
16	ZDHHC7	ENSG00000153786	ENST00000313732	protein_coding	KNOWN	CCDS10950	18459	927	308	85007787	85045141	-1	None	FLJ10792, ZNF370, FLJ20279, SERZ-B, SERZ1
16	ZDHHC7	ENSG00000153786	ENST00000344861	nonsense_mediated_decay	KNOWN	CCDS45538	18459	1038	345	85008066	85045128	-1	None	FLJ10792, ZNF370, FLJ20279, SERZ-B, SERZ1
16	ZDHHC7	ENSG00000153786	ENST00000564526	retained_intron	KNOWN	None	18459	None	None	85009710	85010887	-1	None	FLJ10792, ZNF370, FLJ20279, SERZ-B, SERZ1
16	ZDHHC7	ENSG00000153786	ENST00000564466	protein_coding	KNOWN	CCDS45538	18459	1038	345	85009819	85045108	-1	None	FLJ10792, ZNF370, FLJ20279, SERZ-B, SERZ1
16	ZDHHC7	ENSG00000153786	ENST00000569377	retained_intron	KNOWN	None	18459	None	None	85009852	85011732	-1	None	FLJ10792, ZNF370, FLJ20279, SERZ-B, SERZ1
16	ZDHHC7	ENSG00000153786	ENST00000566909	protein_coding	PUTATIVE	None	18459	423	140	85010102	85015723	-1	None	FLJ10792, ZNF370, FLJ20279, SERZ-B, SERZ1
16	ZDHHC7	ENSG00000153786	ENST00000569488	processed_transcript	KNOWN	None	18459	None	None	85010714	85024232	-1	None	FLJ10792, ZNF370, FLJ20279, SERZ-B, SERZ1
16	ZDHHC7	ENSG00000153786	ENST00000569017	protein_coding	KNOWN	None	18459	286	94	85023939	85038616	-1	None	FLJ10792, ZNF370, FLJ20279, SERZ-B, SERZ1
9	None	ENSG00000221110	ENST00000408183	miRNA	KNOWN	None	None	None	None	75906036	75906143	-1	None	None
9	None	ENSG00000221844	ENST00000416030	processed_pseudogene	KNOWN	None	None	None	None	76089294	76090989	-1	None	None
20	WFDC2	ENSG00000101443	ENST00000372676	protein_coding	KNOWN	CCDS35501	15939	375	124	44098346	44110172	1	None	HE4, WAP5, dJ461P17.6, EDDM4
20	WFDC2	ENSG00000101443	ENST00000217425	protein_coding	PUTATIVE	None	15939	309	102	44098396	44108388	1	None	HE4, WAP5, dJ461P17.6, EDDM4
20	WFDC2	ENSG00000101443	ENST00000447118	nonsense_mediated_decay	KNOWN	None	15939	240	79	44098396	44110171	1	None	HE4, WAP5, dJ461P17.6, EDDM4
20	WFDC2	ENSG00000101443	ENST00000339946	protein_coding	PUTATIVE	None	15939	231	76	44098396	44110172	1	None	HE4, WAP5, dJ461P17.6, EDDM4
20	WFDC2	ENSG00000101443	ENST00000462062	processed_transcript	KNOWN	None	15939	None	None	44099913	44110172	1	None	HE4, WAP5, dJ461P17.6, EDDM4
20	WFDC2	ENSG00000101443	ENST00000342873	protein_coding	PUTATIVE	None	15939	222	73	44108079	44110172	1	None	HE4, WAP5, dJ461P17.6, EDDM4
20	WFDC2	ENSG00000101443	ENST00000488143	processed_transcript	PUTATIVE	None	15939	None	None	44108079	44110172	1	None	HE4, WAP5, dJ461P17.6, EDDM4
X	None	ENSG00000237345	ENST00000445444	processed_pseudogene	KNOWN	None	None	None	None	48138858	48141227	1	None	None
19	CERS1	ENSG00000223802	ENST00000429504	protein_coding	KNOWN	CCDS46021	14253	1014	337	18988718	19006944	-1	LASS1	LAG1, UOG1
19	CERS1	ENSG00000223802	ENST00000542296	protein_coding	PUTATIVE	None	14253	720	239	18988720	19007536	-1	LASS1	LAG1, UOG1
19	CERS1	ENSG00000223802	ENST00000596048	protein_coding	PUTATIVE	None	14253	649	215	18988726	18995042	-1	LASS1	LAG1, UOG1
19	CERS1	ENSG00000223802	ENST00000427170	protein_coding	KNOWN	CCDS46020	14253	1053	350	18979361	19006953	-1	LASS1	LAG1, UOG1
X	None	ENSG00000234391	ENST00000453735	processed_pseudogene	KNOWN	None	None	None	None	48166204	48168490	1	None	None
4	TMEM150C	ENSG00000249242	ENST00000449862	protein_coding	KNOWN	CCDS47087	37263	750	249	83405743	83483367	-1	None	FLJ12993
4	TMEM150C	ENSG00000249242	ENST00000515780	protein_coding	KNOWN	CCDS47087	37263	750	249	83405967	83483510	-1	None	FLJ12993
4	TMEM150C	ENSG00000249242	ENST00000508701	protein_coding	PUTATIVE	None	37263	363	120	83411238	83483108	-1	None	FLJ12993
4	TMEM150C	ENSG00000249242	ENST00000454948	protein_coding	KNOWN	None	37263	202	66	83423913	83483131	-1	None	FLJ12993
1	NPPA	ENSG00000175206	ENST00000376480	protein_coding	KNOWN	CCDS139	7939	456	151	11905766	11907840	-1	ANP, PND	None
1	NPPA	ENSG00000175206	ENST00000376476	protein_coding	KNOWN	None	7939	306	101	11905936	11908402	-1	ANP, PND	None
6	None	ENSG00000211530	ENST00000390196	miRNA	NOVEL	None	None	None	None	72294792	72294904	1	None	None
8	SCXA	ENSG00000188686	ENST00000340695	protein_coding	KNOWN	CCDS47941	24312	606	201	145490549	145492470	1	None	bHLHa41
17	KRT23	ENSG00000108244	ENST00000209718	protein_coding	KNOWN	CCDS11380	6438	1269	422	39078948	39093672	-1	None	K23, DKFZP434G032, HAIK1, CK23, MGC26158
17	KRT23	ENSG00000108244	ENST00000436344	protein_coding	PUTATIVE	None	6438	858	285	39078952	39093702	-1	None	K23, DKFZP434G032, HAIK1, CK23, MGC26158
17	KRT23	ENSG00000108244	ENST00000462312	nonsense_mediated_decay	KNOWN	None	6438	114	37	39078952	39093836	-1	None	K23, DKFZP434G032, HAIK1, CK23, MGC26158
17	KRT23	ENSG00000108244	ENST00000582754	retained_intron	KNOWN	None	6438	None	None	39081413	39093087	-1	None	K23, DKFZP434G032, HAIK1, CK23, MGC26158
17	KRT23	ENSG00000108244	ENST00000494691	nonsense_mediated_decay	KNOWN	None	6438	114	37	39084490	39093797	-1	None	K23, DKFZP434G032, HAIK1, CK23, MGC26158
17	KRT23	ENSG00000108244	ENST00000584517	protein_coding	PUTATIVE	None	6438	450	149	39085928	39092642	-1	None	K23, DKFZP434G032, HAIK1, CK23, MGC26158
17	KRT23	ENSG00000108244	ENST00000485751	protein_coding	KNOWN	None	6438	156	51	39092700	39093738	-1	None	K23, DKFZP434G032, HAIK1, CK23, MGC26158
17	KRT23	ENSG00000108244	ENST00000582283	processed_transcript	KNOWN	None	6438	None	None	39092994	39093829	-1	None	K23, DKFZP434G032, HAIK1, CK23, MGC26158
17	KRT23	ENSG00000108244	ENST00000585006	processed_transcript	KNOWN	None	6438	None	None	39093084	39093886	-1	None	K23, DKFZP434G032, HAIK1, CK23, MGC26158
4	None	ENSG00000251200	ENST00000509956	antisense	KNOWN	None	None	None	None	170867132	170884485	1	None	None
16	ANKS3	ENSG00000168096	ENST00000591185	retained_intron	KNOWN	None	29422	None	None	4746513	4750171	-1	None	KIAA1977, FLJ32345, FLJ32767
16	ANKS3	ENSG00000168096	ENST00000589035	retained_intron	KNOWN	None	29422	None	None	4746513	4750304	-1	None	KIAA1977, FLJ32345, FLJ32767
16	ANKS3	ENSG00000168096	ENST00000590803	retained_intron	KNOWN	None	29422	None	None	4746513	4777170	-1	None	KIAA1977, FLJ32345, FLJ32767
16	ANKS3	ENSG00000168096	ENST00000591653	retained_intron	KNOWN	None	29422	None	None	4746513	4778079	-1	None	KIAA1977, FLJ32345, FLJ32767
16	ANKS3	ENSG00000168096	ENST00000304283	protein_coding	KNOWN	CCDS10520	29422	1971	656	4746513	4784163	-1	None	KIAA1977, FLJ32345, FLJ32767
16	ANKS3	ENSG00000168096	ENST00000590193	nonsense_mediated_decay	KNOWN	None	29422	423	140	4746513	4784200	-1	None	KIAA1977, FLJ32345, FLJ32767
16	ANKS3	ENSG00000168096	ENST00000592077	nonsense_mediated_decay	KNOWN	None	29422	186	61	4746513	4784220	-1	None	KIAA1977, FLJ32345, FLJ32767
16	ANKS3	ENSG00000168096	ENST00000585773	protein_coding	NOVEL	None	29422	1752	583	4746858	4784250	-1	None	KIAA1977, FLJ32345, FLJ32767
16	ANKS3	ENSG00000168096	ENST00000588513	protein_coding	NOVEL	None	29422	867	288	4747354	4755231	-1	None	KIAA1977, FLJ32345, FLJ32767
16	ANKS3	ENSG00000168096	ENST00000588398	retained_intron	KNOWN	None	29422	None	None	4748144	4749196	-1	None	KIAA1977, FLJ32345, FLJ32767
16	ANKS3	ENSG00000168096	ENST00000592840	retained_intron	KNOWN	None	29422	None	None	4749506	4751621	-1	None	KIAA1977, FLJ32345, FLJ32767
16	ANKS3	ENSG00000168096	ENST00000590730	nonsense_mediated_decay	KNOWN	None	29422	243	80	4749755	4784255	-1	None	KIAA1977, FLJ32345, FLJ32767
16	ANKS3	ENSG00000168096	ENST00000586605	protein_coding	PUTATIVE	None	29422	765	254	4750971	4784331	-1	None	KIAA1977, FLJ32345, FLJ32767
16	ANKS3	ENSG00000168096	ENST00000592421	protein_coding	NOVEL	None	29422	954	317	4750980	4784346	-1	None	KIAA1977, FLJ32345, FLJ32767
16	ANKS3	ENSG00000168096	ENST00000592068	nonsense_mediated_decay	KNOWN	None	29422	645	214	4751052	4784193	-1	None	KIAA1977, FLJ32345, FLJ32767
16	ANKS3	ENSG00000168096	ENST00000586166	protein_coding	PUTATIVE	None	29422	518	171	4751119	4784265	-1	None	KIAA1977, FLJ32345, FLJ32767
16	ANKS3	ENSG00000168096	ENST00000592698	protein_coding	PUTATIVE	None	29422	326	107	4752168	4784264	-1	None	KIAA1977, FLJ32345, FLJ32767
16	ANKS3	ENSG00000168096	ENST00000586159	nonsense_mediated_decay	KNOWN	None	29422	186	61	4755122	4784379	-1	None	KIAA1977, FLJ32345, FLJ32767
16	ANKS3	ENSG00000168096	ENST00000586632	retained_intron	KNOWN	None	29422	None	None	4755211	4775123	-1	None	KIAA1977, FLJ32345, FLJ32767
16	ANKS3	ENSG00000168096	ENST00000589065	protein_coding	NOVEL	None	29422	399	132	4755244	4784248	-1	None	KIAA1977, FLJ32345, FLJ32767
16	ANKS3	ENSG00000168096	ENST00000593120	retained_intron	KNOWN	None	29422	None	None	4764017	4784193	-1	None	KIAA1977, FLJ32345, FLJ32767
16	ANKS3	ENSG00000168096	ENST00000592711	protein_coding	PUTATIVE	None	29422	345	114	4764157	4784128	-1	None	KIAA1977, FLJ32345, FLJ32767
16	ANKS3	ENSG00000168096	ENST00000591281	nonsense_mediated_decay	KNOWN	None	29422	186	61	4767440	4784205	-1	None	KIAA1977, FLJ32345, FLJ32767
16	ANKS3	ENSG00000168096	ENST00000587005	nonsense_mediated_decay	KNOWN	None	29422	381	126	4774793	4784193	-1	None	KIAA1977, FLJ32345, FLJ32767
16	ANKS3	ENSG00000168096	ENST00000590147	protein_coding	PUTATIVE	None	29422	498	165	4774826	4784161	-1	None	KIAA1977, FLJ32345, FLJ32767
16	ANKS3	ENSG00000168096	ENST00000592190	protein_coding	PUTATIVE	None	29422	491	162	4776660	4784229	-1	None	KIAA1977, FLJ32345, FLJ32767
16	ANKS3	ENSG00000168096	ENST00000590689	retained_intron	KNOWN	None	29422	None	None	4779359	4784196	-1	None	KIAA1977, FLJ32345, FLJ32767
16	ANKS3	ENSG00000168096	ENST00000446014	protein_coding	KNOWN	None	29422	1584	527	4746513	4781584	-1	None	KIAA1977, FLJ32345, FLJ32767
16	ANKS3	ENSG00000168096	ENST00000450067	protein_coding	KNOWN	None	29422	921	306	4749755	4784250	-1	None	KIAA1977, FLJ32345, FLJ32767
6	RNU4-66P	ENSG00000202069	ENST00000365199	snRNA	KNOWN	None	47002	None	None	72362177	72362314	-1	None	None
6	None	ENSG00000264447	ENST00000580846	miRNA	NOVEL	None	None	None	None	72936410	72936533	-1	None	None
6	MTCYBP4	ENSG00000220113	ENST00000401524	processed_pseudogene	KNOWN	None	41923	None	None	133471707	133471955	1	None	None
2	None	ENSG00000229740	ENST00000442864	lincRNA	KNOWN	None	None	None	None	8279532	8283399	1	None	None
4	None	ENSG00000249955	ENST00000508955	antisense	KNOWN	None	None	None	None	170902898	170914957	1	None	None
6	None	ENSG00000223542	ENST00000412954	antisense	KNOWN	None	None	None	None	133756215	133760602	-1	None	None
7	BRI3	ENSG00000164713	ENST00000456357	processed_transcript	KNOWN	None	1109	None	None	97881691	97920836	1	None	None
7	BRI3	ENSG00000164713	ENST00000539286	protein_coding	KNOWN	CCDS55133	1109	297	98	97910979	97922275	1	None	None
7	BRI3	ENSG00000164713	ENST00000297290	protein_coding	KNOWN	CCDS5656	1109	378	125	97910987	97920836	1	None	None
7	BRI3	ENSG00000164713	ENST00000474291	retained_intron	KNOWN	None	1109	None	None	97911134	97912018	1	None	None
7	BRI3	ENSG00000164713	ENST00000473967	processed_transcript	KNOWN	None	1109	None	None	97911148	97920857	1	None	None
7	BRI3	ENSG00000164713	ENST00000491463	nonsense_mediated_decay	KNOWN	None	1109	144	47	97911695	97936761	1	None	None
7	BRI3	ENSG00000164713	ENST00000485422	processed_transcript	KNOWN	None	1109	None	None	97935834	97937162	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000223494	ENST00000469311	retained_intron	KNOWN	None	None	None	None	30920701	30938920	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000223494	ENST00000415079	protein_coding	KNOWN	None	None	3192	1063	30926664	30938920	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000223494	ENST00000411697	protein_coding	KNOWN	None	None	978	325	30926711	30930260	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000223494	ENST00000462413	processed_transcript	KNOWN	None	None	None	None	30926725	30930267	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000223494	ENST00000434089	protein_coding	KNOWN	None	None	345	114	30926841	30927875	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000223494	ENST00000471831	retained_intron	KNOWN	None	None	None	None	30928887	30930222	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000223494	ENST00000486378	retained_intron	KNOWN	None	None	None	None	30931225	30938920	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000223494	ENST00000462929	processed_transcript	KNOWN	None	None	None	None	30932287	30938920	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000223494	ENST00000463673	processed_transcript	KNOWN	None	None	None	None	30934591	30938135	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000223494	ENST00000487675	retained_intron	KNOWN	None	None	None	None	30935044	30935966	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000223494	ENST00000480082	retained_intron	KNOWN	None	None	None	None	30935669	30938920	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000223494	ENST00000546854	protein_coding	KNOWN	None	None	3282	1093	30926790	30938917	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000223494	ENST00000551709	protein_coding	KNOWN	None	None	2772	923	30926664	30938917	1	None	None
2	None	ENSG00000231435	ENST00000418358	lincRNA	KNOWN	None	None	None	None	8683722	8715631	-1	None	None
13	GPR12	ENSG00000132975	ENST00000381436	protein_coding	KNOWN	CCDS9319	4466	1005	334	27332447	27334427	-1	None	GPCR21
13	GPR12	ENSG00000132975	ENST00000405846	protein_coding	KNOWN	CCDS9319	4466	1005	334	27329341	27334922	-1	None	GPCR21
9	None	ENSG00000226625	ENST00000453646	processed_pseudogene	KNOWN	None	None	None	None	39154072	39155476	1	None	None
6	None	ENSG00000218732	ENST00000406139	processed_pseudogene	KNOWN	None	None	None	None	73026302	73027139	-1	None	None
6	None	ENSG00000234567	ENST00000457081	antisense	KNOWN	None	None	None	None	133773995	133777743	-1	None	None
1	GPR52	ENSG00000203737	ENST00000367685	protein_coding	KNOWN	CCDS30941	4508	1086	361	174417212	174418683	1	None	None
X	GPR173	ENSG00000184194	ENST00000332582	protein_coding	KNOWN	CCDS14349	18186	1122	373	53078273	53109797	1	None	SREB3
X	GPR173	ENSG00000184194	ENST00000375466	protein_coding	KNOWN	None	18186	157	51	53078465	53105960	1	None	SREB3
2	None	ENSG00000236008	ENST00000454224	lincRNA	KNOWN	None	None	None	None	8699963	8723922	-1	None	None
2	None	ENSG00000236008	ENST00000436187	lincRNA	KNOWN	None	None	None	None	8710461	8717085	-1	None	None
4	RNU6-520P	ENSG00000207448	ENST00000384717	snRNA	KNOWN	None	47483	None	None	71567472	71567575	1	None	None
9	None	ENSG00000271454	ENST00000605859	processed_pseudogene	KNOWN	None	None	None	None	39159068	39160316	1	None	None
6	None	ENSG00000217483	ENST00000405153	processed_pseudogene	KNOWN	None	None	None	None	73232343	73232940	1	None	None
4	RNU6-784P	ENSG00000207058	ENST00000384330	snRNA	KNOWN	None	47747	None	None	71568735	71568840	-1	None	None
4	None	ENSG00000238318	ENST00000459111	snoRNA	NOVEL	None	None	None	None	71677963	71678063	1	None	None
6	None	ENSG00000181514	ENST00000428697	processed_pseudogene	KNOWN	None	None	None	None	73308179	73309362	-1	None	None
10	None	ENSG00000270316	ENST00000299353	nonsense_mediated_decay	KNOWN	CCDS7542	None	321	106	104614029	104661656	1	None	None
4	RNU6-459P	ENSG00000252880	ENST00000517071	snRNA	KNOWN	None	47422	None	None	71713853	71713935	-1	None	None
7	INMT-FAM188B	ENSG00000254959	ENST00000458257	nonsense_mediated_decay	KNOWN	None	41995	426	141	30791753	30931696	1	None	None
7	INMT-FAM188B	ENSG00000254959	ENST00000451002	nonsense_mediated_decay	KNOWN	None	41995	367	121	30791769	30830795	1	None	None
6	KCNQ5-IT1	ENSG00000233844	ENST00000445310	sense_intronic	KNOWN	None	41354	None	None	73340223	73388282	1	None	None
2	None	ENSG00000231083	ENST00000425678	lincRNA	KNOWN	None	None	None	None	8741022	8763072	-1	None	None
4	RNU6-891P	ENSG00000207007	ENST00000384280	snRNA	KNOWN	None	47854	None	None	71717847	71717957	1	None	None
4	None	ENSG00000249170	ENST00000514650	processed_pseudogene	KNOWN	None	None	None	None	72165975	72166952	-1	None	None
6	MIR4282	ENSG00000266180	ENST00000583613	miRNA	KNOWN	None	38189	None	None	73677410	73677476	-1	None	hsa-mir-4282
2	SNRPEP5	ENSG00000225642	ENST00000425442	processed_pseudogene	KNOWN	None	43447	None	None	8743212	8743489	1	None	None
1	NPPB	ENSG00000120937	ENST00000376468	protein_coding	KNOWN	CCDS140	7940	405	134	11917521	11918988	-1	None	None
6	KNOP1P4	ENSG00000232422	ENST00000445020	processed_pseudogene	KNOWN	None	48922	None	None	73696036	73697473	1	None	None
4	LDHAL6EP	ENSG00000270098	ENST00000602428	processed_pseudogene	KNOWN	None	44241	None	None	72300122	72303641	-1	None	None
3	GMPS	ENSG00000163655	ENST00000496455	protein_coding	KNOWN	CCDS46941	4378	2082	693	155588325	155658457	1	None	None
3	GMPS	ENSG00000163655	ENST00000295920	protein_coding	NOVEL	None	4378	1785	594	155588439	155655499	1	None	None
3	GMPS	ENSG00000163655	ENST00000476145	processed_transcript	KNOWN	None	4378	None	None	155613202	155628599	1	None	None
4	RNA5SP163	ENSG00000222236	ENST00000410304	rRNA	KNOWN	None	43063	None	None	72625235	72625333	-1	RN5S163	None
6	PGAM1P10	ENSG00000220515	ENST00000402426	processed_pseudogene	KNOWN	None	42457	None	None	73764820	73765580	1	None	None
4	None	ENSG00000248567	ENST00000507156	lincRNA	KNOWN	None	None	None	None	72687022	72689697	-1	None	None
4	NDUFS5P5	ENSG00000230671	ENST00000437256	processed_pseudogene	KNOWN	None	44043	None	None	119321669	119321989	-1	None	None
2	None	ENSG00000235092	ENST00000412712	antisense	KNOWN	None	None	None	None	8806766	8818464	-1	None	None
2	None	ENSG00000235092	ENST00000455965	antisense	KNOWN	None	None	None	None	8811114	8821993	-1	None	None
2	None	ENSG00000235092	ENST00000453900	antisense	KNOWN	None	None	None	None	8811375	8815896	-1	None	None
2	None	ENSG00000235092	ENST00000433340	antisense	KNOWN	None	None	None	None	8817619	8818941	-1	None	None
2	None	ENSG00000235092	ENST00000433592	antisense	KNOWN	None	None	None	None	8817907	8818774	-1	None	None
2	None	ENSG00000235092	ENST00000421298	antisense	KNOWN	None	None	None	None	8817984	8819186	-1	None	None
2	None	ENSG00000235092	ENST00000418957	antisense	KNOWN	None	None	None	None	8817999	8818983	-1	None	None
16	NUDT21	ENSG00000167005	ENST00000300291	protein_coding	KNOWN	CCDS10760	13870	684	227	56463045	56485287	-1	CPSF5	CFIM25
16	NUDT21	ENSG00000167005	ENST00000563860	retained_intron	KNOWN	None	13870	None	None	56468239	56469124	-1	CPSF5	CFIM25
16	NUDT21	ENSG00000167005	ENST00000566340	protein_coding	PUTATIVE	None	13870	449	148	56468258	56486111	-1	CPSF5	CFIM25
16	NUDT21	ENSG00000167005	ENST00000563362	retained_intron	KNOWN	None	13870	None	None	56473039	56473647	-1	CPSF5	CFIM25
16	NUDT21	ENSG00000167005	ENST00000568822	protein_coding	PUTATIVE	None	13870	213	70	56473629	56483171	-1	CPSF5	CFIM25
16	NUDT21	ENSG00000167005	ENST00000567110	retained_intron	KNOWN	None	13870	None	None	56481560	56485263	-1	CPSF5	CFIM25
14	None	ENSG00000258744	ENST00000555109	protein_coding	PUTATIVE	None	None	264	87	24970800	24977894	1	None	None
19	ZNF223	ENSG00000178386	ENST00000588518	processed_transcript	KNOWN	None	13016	None	None	44555520	44564941	1	None	None
19	ZNF223	ENSG00000178386	ENST00000434772	protein_coding	KNOWN	CCDS12635	13016	1449	482	44556162	44572144	1	None	None
19	ZNF223	ENSG00000178386	ENST00000585552	protein_coding	PUTATIVE	None	13016	270	89	44556194	44565077	1	None	None
19	ZNF223	ENSG00000178386	ENST00000593088	nonsense_mediated_decay	KNOWN	None	13016	279	92	44556215	44570372	1	None	None
19	ZNF223	ENSG00000178386	ENST00000591850	protein_coding	PUTATIVE	None	13016	666	221	44564517	44570755	1	None	None
16	None	ENSG00000259813	ENST00000561699	antisense	KNOWN	None	None	None	None	88762909	88765018	1	None	None
6	KCNQ5-AS1	ENSG00000229154	ENST00000429832	antisense	KNOWN	None	40323	None	None	73844526	73853237	-1	None	None
4	None	ENSG00000250877	ENST00000503918	antisense	KNOWN	None	None	None	None	73188745	73196468	1	None	None
16	MIR4722	ENSG00000265672	ENST00000578292	miRNA	KNOWN	None	41782	None	None	88782686	88782745	-1	None	hsa-mir-4722
12	SCARB1	ENSG00000073060	ENST00000339570	protein_coding	KNOWN	CCDS45008	1664	1521	506	125261402	125348463	-1	CD36L1	SRB1, CLA-1, CLA1, SR-BI
12	SCARB1	ENSG00000073060	ENST00000415380	protein_coding	KNOWN	None	1664	1659	552	125262179	125348392	-1	CD36L1	SRB1, CLA-1, CLA1, SR-BI
12	SCARB1	ENSG00000073060	ENST00000261693	protein_coding	KNOWN	CCDS9259	1664	1530	509	125262179	125348393	-1	CD36L1	SRB1, CLA-1, CLA1, SR-BI
12	SCARB1	ENSG00000073060	ENST00000545305	processed_transcript	KNOWN	None	1664	None	None	125262419	125271039	-1	CD36L1	SRB1, CLA-1, CLA1, SR-BI
12	SCARB1	ENSG00000073060	ENST00000538291	retained_intron	KNOWN	None	1664	None	None	125262824	125348409	-1	CD36L1	SRB1, CLA-1, CLA1, SR-BI
12	SCARB1	ENSG00000073060	ENST00000546215	protein_coding	NOVEL	None	1664	1446	481	125263045	125348329	-1	CD36L1	SRB1, CLA-1, CLA1, SR-BI
12	SCARB1	ENSG00000073060	ENST00000535005	processed_transcript	KNOWN	None	1664	None	None	125267229	125365007	-1	CD36L1	SRB1, CLA-1, CLA1, SR-BI
12	SCARB1	ENSG00000073060	ENST00000544327	protein_coding	PUTATIVE	None	1664	1500	499	125270366	125302253	-1	CD36L1	SRB1, CLA-1, CLA1, SR-BI
12	SCARB1	ENSG00000073060	ENST00000545493	protein_coding	KNOWN	None	1664	438	145	125299507	125348409	-1	CD36L1	SRB1, CLA-1, CLA1, SR-BI
12	SCARB1	ENSG00000073060	ENST00000541661	processed_transcript	KNOWN	None	1664	None	None	125299510	125367214	-1	CD36L1	SRB1, CLA-1, CLA1, SR-BI
12	SCARB1	ENSG00000073060	ENST00000539320	processed_transcript	KNOWN	None	1664	None	None	125299519	125348442	-1	CD36L1	SRB1, CLA-1, CLA1, SR-BI
12	SCARB1	ENSG00000073060	ENST00000376788	protein_coding	KNOWN	None	1664	1230	409	125262186	125348393	-1	CD36L1	SRB1, CLA-1, CLA1, SR-BI
12	SCARB1	ENSG00000073060	ENST00000540495	protein_coding	KNOWN	None	1664	1551	516	125270366	125324589	-1	CD36L1	SRB1, CLA-1, CLA1, SR-BI
12	SCARB1	ENSG00000073060	ENST00000541205	protein_coding	KNOWN	None	1664	1539	512	125270259	125324217	-1	CD36L1	SRB1, CLA-1, CLA1, SR-BI
5	FASTKD3	ENSG00000124279	ENST00000264669	protein_coding	KNOWN	CCDS3873	28758	1989	662	7859272	7869115	-1	None	MGC5297, FLJ23274
5	FASTKD3	ENSG00000124279	ENST00000513658	processed_transcript	KNOWN	None	28758	None	None	7859449	7869139	-1	None	MGC5297, FLJ23274
5	FASTKD3	ENSG00000124279	ENST00000282110	processed_transcript	KNOWN	None	28758	None	None	7859494	7869123	-1	None	MGC5297, FLJ23274
5	FASTKD3	ENSG00000124279	ENST00000511261	nonsense_mediated_decay	KNOWN	None	28758	174	57	7859510	7868283	-1	None	MGC5297, FLJ23274
5	FASTKD3	ENSG00000124279	ENST00000507036	nonsense_mediated_decay	KNOWN	None	28758	1827	608	7859516	7868283	-1	None	MGC5297, FLJ23274
5	FASTKD3	ENSG00000124279	ENST00000513577	retained_intron	KNOWN	None	28758	None	None	7861722	7863409	-1	None	MGC5297, FLJ23274
5	FASTKD3	ENSG00000124279	ENST00000504695	protein_coding	KNOWN	None	28758	734	243	7867463	7869150	-1	None	MGC5297, FLJ23274
5	FASTKD3	ENSG00000124279	ENST00000507572	protein_coding	PUTATIVE	None	28758	543	180	7867603	7869145	-1	None	MGC5297, FLJ23274
16	None	ENSG00000260121	ENST00000564984	antisense	KNOWN	None	None	None	None	88785023	88786867	1	None	None
12	MED13L	ENSG00000123066	ENST00000552023	processed_transcript	PUTATIVE	None	22962	None	None	116395711	116398337	-1	THRAP2	KIAA1025, TRAP240L
12	MED13L	ENSG00000123066	ENST00000281928	protein_coding	KNOWN	CCDS9177	22962	6633	2210	116396381	116715143	-1	THRAP2	KIAA1025, TRAP240L
12	MED13L	ENSG00000123066	ENST00000548784	retained_intron	KNOWN	None	22962	None	None	116408479	116410270	-1	THRAP2	KIAA1025, TRAP240L
12	MED13L	ENSG00000123066	ENST00000552447	protein_coding	PUTATIVE	None	22962	584	193	116408495	116413484	-1	THRAP2	KIAA1025, TRAP240L
12	MED13L	ENSG00000123066	ENST00000548694	retained_intron	KNOWN	None	22962	None	None	116409883	116418707	-1	THRAP2	KIAA1025, TRAP240L
12	MED13L	ENSG00000123066	ENST00000552340	protein_coding	PUTATIVE	None	22962	423	140	116418286	116420395	-1	THRAP2	KIAA1025, TRAP240L
12	MED13L	ENSG00000123066	ENST00000549786	protein_coding	PUTATIVE	None	22962	572	189	116419687	116421240	-1	THRAP2	KIAA1025, TRAP240L
12	MED13L	ENSG00000123066	ENST00000549755	retained_intron	KNOWN	None	22962	None	None	116444612	116446950	-1	THRAP2	KIAA1025, TRAP240L
12	MED13L	ENSG00000123066	ENST00000551197	processed_transcript	KNOWN	None	22962	None	None	116547921	116714886	-1	THRAP2	KIAA1025, TRAP240L
12	MED13L	ENSG00000123066	ENST00000548743	protein_coding	PUTATIVE	None	22962	280	92	116675273	116714564	-1	THRAP2	KIAA1025, TRAP240L
9	None	ENSG00000231562	ENST00000444758	processed_pseudogene	KNOWN	None	None	None	None	109741057	109741835	-1	None	None
18	KLHL14	ENSG00000197705	ENST00000359358	protein_coding	KNOWN	CCDS32813	29266	1887	628	30252634	30353025	-1	None	KIAA1384
18	KLHL14	ENSG00000197705	ENST00000358095	protein_coding	KNOWN	None	29266	1167	388	30313650	30352842	-1	None	KIAA1384
18	KLHL14	ENSG00000197705	ENST00000583263	protein_coding	PUTATIVE	None	29266	682	226	30349954	30352130	-1	None	KIAA1384
6	None	ENSG00000234025	ENST00000437762	processed_pseudogene	KNOWN	None	None	None	None	73867240	73867862	-1	None	None
10	SORCS3	ENSG00000156395	ENST00000369701	protein_coding	KNOWN	CCDS7558	16699	3669	1222	106400859	107024993	1	None	KIAA1059, SORCS
10	SORCS3	ENSG00000156395	ENST00000393176	protein_coding	NOVEL	None	16699	458	151	106918686	106971008	1	None	KIAA1059, SORCS
10	SORCS3	ENSG00000156395	ENST00000369699	protein_coding	KNOWN	None	16699	594	197	106937525	107007093	1	None	KIAA1059, SORCS
13	USP12	ENSG00000152484	ENST00000282344	protein_coding	KNOWN	CCDS31952	20485	1113	370	27640293	27746033	-1	USP12L1	None
1	CACYBP	ENSG00000116161	ENST00000367681	protein_coding	PUTATIVE	CCDS30942	30423	558	185	174968300	174980851	1	None	SIP, S100A6BP
1	CACYBP	ENSG00000116161	ENST00000426793	protein_coding	KNOWN	None	30423	152	49	174968571	174973886	1	None	SIP, S100A6BP
1	CACYBP	ENSG00000116161	ENST00000461977	retained_intron	KNOWN	None	30423	None	None	174968607	174974104	1	None	SIP, S100A6BP
1	CACYBP	ENSG00000116161	ENST00000367679	protein_coding	KNOWN	CCDS1315	30423	687	228	174968869	174980846	1	None	SIP, S100A6BP
1	CACYBP	ENSG00000116161	ENST00000483307	retained_intron	KNOWN	None	30423	None	None	174969081	174974186	1	None	SIP, S100A6BP
1	CACYBP	ENSG00000116161	ENST00000473925	retained_intron	KNOWN	None	30423	None	None	174969091	174977890	1	None	SIP, S100A6BP
1	CACYBP	ENSG00000116161	ENST00000406752	protein_coding	KNOWN	None	30423	243	80	174969317	174975907	1	None	SIP, S100A6BP
1	CACYBP	ENSG00000116161	ENST00000405362	protein_coding	PUTATIVE	CCDS30942	30423	558	185	174969349	174979215	1	None	SIP, S100A6BP
1	CACYBP	ENSG00000116161	ENST00000469173	retained_intron	KNOWN	None	30423	None	None	174975719	174978033	1	None	SIP, S100A6BP
16	None	ENSG00000224888	ENST00000440406	antisense	KNOWN	None	None	None	None	88797588	88805596	1	None	None
16	None	ENSG00000224888	ENST00000567968	antisense	KNOWN	None	None	None	None	88803208	88807826	1	None	None
9	None	ENSG00000223615	ENST00000417622	processed_pseudogene	KNOWN	None	None	None	None	109878065	109878235	1	None	None
3	None	ENSG00000268324	ENST00000599511	protein_coding	KNOWN	None	None	516	171	46598888	46601178	1	None	None
16	NSMCE1	ENSG00000169189	ENST00000361439	protein_coding	KNOWN	CCDS10628	29897	801	266	27236312	27280115	-1	None	NSE1
16	NSMCE1	ENSG00000169189	ENST00000569236	nonsense_mediated_decay	KNOWN	None	29897	213	70	27236316	27280085	-1	None	NSE1
16	NSMCE1	ENSG00000169189	ENST00000565070	retained_intron	KNOWN	None	29897	None	None	27236346	27280062	-1	None	NSE1
16	NSMCE1	ENSG00000169189	ENST00000565384	processed_transcript	KNOWN	None	29897	None	None	27236465	27242160	-1	None	NSE1
16	NSMCE1	ENSG00000169189	ENST00000562039	protein_coding	PUTATIVE	None	29897	237	78	27236493	27244399	-1	None	NSE1
16	NSMCE1	ENSG00000169189	ENST00000566087	nonsense_mediated_decay	KNOWN	None	29897	213	70	27238052	27280081	-1	None	NSE1
16	NSMCE1	ENSG00000169189	ENST00000563273	protein_coding	NOVEL	None	29897	580	192	27238058	27280061	-1	None	NSE1
16	NSMCE1	ENSG00000169189	ENST00000564342	protein_coding	KNOWN	None	29897	434	143	27244371	27279900	-1	None	NSE1
16	NSMCE1	ENSG00000169189	ENST00000563900	protein_coding	KNOWN	None	29897	414	137	27244391	27269472	-1	None	NSE1
16	NSMCE1	ENSG00000169189	ENST00000561960	retained_intron	KNOWN	None	29897	None	None	27245304	27280083	-1	None	NSE1
16	NSMCE1	ENSG00000169189	ENST00000567710	protein_coding	KNOWN	None	29897	221	72	27246536	27280054	-1	None	NSE1
16	NSMCE1	ENSG00000169189	ENST00000563512	processed_transcript	KNOWN	None	29897	None	None	27246537	27280044	-1	None	NSE1
16	NSMCE1	ENSG00000169189	ENST00000565626	retained_intron	KNOWN	None	29897	None	None	27268663	27280045	-1	None	NSE1
16	NSMCE1	ENSG00000169189	ENST00000567375	processed_transcript	PUTATIVE	None	29897	None	None	27277645	27280049	-1	None	NSE1
11	PGA4	ENSG00000229183	ENST00000378149	protein_coding	KNOWN	CCDS31575	8886	1167	388	60989688	60999399	1	None	None
11	PGA4	ENSG00000229183	ENST00000543193	retained_intron	KNOWN	None	8886	None	None	60989823	60990885	1	None	None
11	PGA4	ENSG00000229183	ENST00000541743	retained_intron	KNOWN	None	8886	None	None	60989823	60993117	1	None	None
11	PGA4	ENSG00000229183	ENST00000545726	retained_intron	KNOWN	None	8886	None	None	60989823	60994165	1	None	None
11	PGA4	ENSG00000229183	ENST00000539581	retained_intron	KNOWN	None	8886	None	None	60994582	60998924	1	None	None
11	PGA4	ENSG00000229183	ENST00000537932	protein_coding	PUTATIVE	None	8886	705	234	60995849	60999038	1	None	None
11	PGA4	ENSG00000229183	ENST00000544899	protein_coding	PUTATIVE	None	8886	387	128	60997055	60999140	1	None	None
11	PGA4	ENSG00000229183	ENST00000422676	protein_coding	KNOWN	None	8886	1167	388	60989818	61018929	1	None	None
20	SPINT3	ENSG00000101446	ENST00000217428	protein_coding	KNOWN	CCDS46608	11248	270	89	44141101	44144264	-1	None	HKIB9
7	TMEM229A	ENSG00000234224	ENST00000455783	protein_coding	KNOWN	CCDS47694	37279	1143	380	123670973	123673523	-1	None	None
9	None	ENSG00000225531	ENST00000422849	processed_pseudogene	KNOWN	None	None	None	None	109879110	109879838	1	None	None
12	AMIGO2	ENSG00000139211	ENST00000266581	protein_coding	KNOWN	CCDS8751	24073	1569	522	47469490	47473648	-1	None	ALI1, DEGA
12	AMIGO2	ENSG00000139211	ENST00000550413	protein_coding	KNOWN	CCDS8751	24073	1569	522	47470281	47473425	-1	None	ALI1, DEGA
12	AMIGO2	ENSG00000139211	ENST00000429635	protein_coding	KNOWN	CCDS8751	24073	1569	522	47470383	47473734	-1	None	ALI1, DEGA
12	AMIGO2	ENSG00000139211	ENST00000321382	protein_coding	KNOWN	CCDS8751	24073	1569	522	47470383	47473557	-1	None	ALI1, DEGA
1	KIAA2013	ENSG00000116685	ENST00000376572	protein_coding	KNOWN	CCDS141	28513	1905	634	11979648	11986480	-1	None	MGC33867, RP5-1077B9.1
1	KIAA2013	ENSG00000116685	ENST00000376576	protein_coding	KNOWN	None	28513	2004	667	11982232	11986485	-1	None	MGC33867, RP5-1077B9.1
2	None	ENSG00000260837	ENST00000569008	lincRNA	KNOWN	None	None	None	None	8861264	8862816	-1	None	None
2	None	ENSG00000238888	ENST00000459489	snoRNA	NOVEL	None	None	None	None	9119024	9119128	1	None	None
12	GNB3	ENSG00000111664	ENST00000540458	retained_intron	KNOWN	None	4400	None	None	6949118	6956557	1	None	None
12	GNB3	ENSG00000111664	ENST00000229264	protein_coding	KNOWN	CCDS8564	4400	1023	340	6949375	6956557	1	None	None
12	GNB3	ENSG00000111664	ENST00000541257	protein_coding	PUTATIVE	None	4400	696	231	6949550	6953142	1	None	None
12	GNB3	ENSG00000111664	ENST00000541978	protein_coding	PUTATIVE	None	4400	698	231	6949964	6953141	1	None	None
12	GNB3	ENSG00000111664	ENST00000435982	protein_coding	NOVEL	None	4400	1020	339	6950138	6956062	1	None	None
12	GNB3	ENSG00000111664	ENST00000539127	nonsense_mediated_decay	KNOWN	None	4400	111	36	6950159	6952649	1	None	None
12	GNB3	ENSG00000111664	ENST00000542868	retained_intron	KNOWN	None	4400	None	None	6950205	6952165	1	None	None
12	GNB3	ENSG00000111664	ENST00000537035	protein_coding	PUTATIVE	None	4400	794	263	6950450	6954967	1	None	None
12	GNB3	ENSG00000111664	ENST00000542751	retained_intron	KNOWN	None	4400	None	None	6954531	6956516	1	None	None
2	HMGB1P25	ENSG00000230886	ENST00000468402	processed_pseudogene	KNOWN	None	39116	None	None	9158422	9159028	-1	None	None
7	GPR37	ENSG00000170775	ENST00000303921	protein_coding	KNOWN	CCDS5792	4494	1842	613	124386051	124405681	-1	None	EDNRBL, hET(B)R-LP, PAELR
10	None	ENSG00000232638	ENST00000418270	lincRNA	KNOWN	None	None	None	None	8093504	8095047	1	None	None
19	LINC00665	ENSG00000232677	ENST00000590657	lincRNA	KNOWN	None	44323	None	None	36803969	36806639	-1	None	None
19	LINC00665	ENSG00000232677	ENST00000585356	lincRNA	KNOWN	None	44323	None	None	36803969	36822609	-1	None	None
19	LINC00665	ENSG00000232677	ENST00000449434	lincRNA	KNOWN	None	44323	None	None	36803979	36821349	-1	None	None
19	LINC00665	ENSG00000232677	ENST00000412740	lincRNA	KNOWN	None	44323	None	None	36806262	36821394	-1	None	None
19	LINC00665	ENSG00000232677	ENST00000427868	lincRNA	KNOWN	None	44323	None	None	36806478	36813130	-1	None	None
19	LINC00665	ENSG00000232677	ENST00000590622	lincRNA	KNOWN	None	44323	None	None	36810618	36822620	-1	None	None
19	LINC00665	ENSG00000232677	ENST00000438368	lincRNA	KNOWN	None	44323	None	None	36810653	36822610	-1	None	None
19	LINC00665	ENSG00000232677	ENST00000591372	lincRNA	KNOWN	None	44323	None	None	36815839	36822551	-1	None	None
22	IGLVI-20	ENSG00000254240	ENST00000519296	IG_V_pseudogene	KNOWN	None	5934	None	None	23057775	23057904	1	None	IGLV(I)-20
2	RPL30P3	ENSG00000223640	ENST00000424262	processed_pseudogene	KNOWN	None	36380	None	None	9221524	9221856	-1	None	None
22	None	ENSG00000264629	ENST00000579613	miRNA	NOVEL	None	None	None	None	23077063	23077157	1	None	None
20	WFDC6	ENSG00000243543	ENST00000372670	protein_coding	KNOWN	CCDS13358	16164	261	86	44162835	44168134	-1	C20orf171	dJ461P17.11, WAP6
20	WFDC6	ENSG00000243543	ENST00000372665	protein_coding	NOVEL	None	16164	394	130	44163797	44168046	-1	C20orf171	dJ461P17.11, WAP6
20	WFDC6	ENSG00000243543	ENST00000600168	protein_coding	KNOWN	None	16164	486	161	44162836	44168134	-1	C20orf171	dJ461P17.11, WAP6
10	None	ENSG00000243350	ENST00000417359	lincRNA	KNOWN	None	None	None	None	8094205	8095219	-1	None	None
10	None	ENSG00000243350	ENST00000458727	lincRNA	KNOWN	None	None	None	None	8094206	8095412	-1	None	None
3	TDGF1	ENSG00000241186	ENST00000296145	protein_coding	KNOWN	CCDS2742	11701	567	188	46618727	46623953	1	None	CRIPTO, CR, Cripto-1
3	TDGF1	ENSG00000241186	ENST00000493282	retained_intron	KNOWN	None	11701	None	None	46619238	46621426	1	None	CRIPTO, CR, Cripto-1
3	TDGF1	ENSG00000241186	ENST00000471721	retained_intron	KNOWN	None	11701	None	None	46619255	46621132	1	None	CRIPTO, CR, Cripto-1
3	TDGF1	ENSG00000241186	ENST00000459867	retained_intron	KNOWN	None	11701	None	None	46620632	46621269	1	None	CRIPTO, CR, Cripto-1
3	TDGF1	ENSG00000241186	ENST00000505797	processed_transcript	KNOWN	None	11701	None	None	46622640	46658716	1	None	CRIPTO, CR, Cripto-1
3	TDGF1	ENSG00000241186	ENST00000444264	processed_transcript	PUTATIVE	None	11701	None	None	46653925	46668033	1	None	CRIPTO, CR, Cripto-1
3	TDGF1	ENSG00000241186	ENST00000542931	protein_coding	KNOWN	CCDS54575	11701	519	172	46616045	46623950	1	None	CRIPTO, CR, Cripto-1
2	None	ENSG00000242136	ENST00000495580	lincRNA	KNOWN	None	None	None	None	9243569	9244710	1	None	None
2	None	ENSG00000242136	ENST00000463302	retained_intron	KNOWN	None	None	None	None	9244288	9245243	1	None	None
19	None	ENSG00000268797	ENST00000601627	nonsense_mediated_decay	KNOWN	None	None	200	65	41307202	41404187	1	None	None
1	AMY1B	ENSG00000174876	ENST00000370080	protein_coding	KNOWN	CCDS30783	475	1536	511	104230037	104239076	-1	AMY1	None
1	AMY1B	ENSG00000174876	ENST00000464691	processed_transcript	KNOWN	None	475	None	None	104235049	104237785	-1	AMY1	None
1	AMY1B	ENSG00000174876	ENST00000446703	protein_coding	KNOWN	None	475	678	225	104235988	104239302	-1	AMY1	None
1	AMY1B	ENSG00000174876	ENST00000425410	protein_coding	KNOWN	None	475	315	104	104237602	104238574	-1	AMY1	None
1	AMY1B	ENSG00000174876	ENST00000330330	protein_coding	KNOWN	CCDS30783	475	1536	511	104230040	104238912	-1	AMY1	None
HSCHR6_MHC_DBB	EHMT2	ENSG00000227333	ENST00000469160	retained_intron	KNOWN	None	14129	None	None	31829721	31835103	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_DBB	EHMT2	ENSG00000227333	ENST00000429506	protein_coding	KNOWN	None	14129	3633	1210	31829721	31847646	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_DBB	EHMT2	ENSG00000227333	ENST00000450229	protein_coding	KNOWN	None	14129	3531	1176	31829721	31847639	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_DBB	EHMT2	ENSG00000227333	ENST00000497361	processed_transcript	KNOWN	None	14129	None	None	31829721	31846466	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_DBB	EHMT2	ENSG00000227333	ENST00000478077	retained_intron	KNOWN	None	14129	None	None	31829721	31836399	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_DBB	EHMT2	ENSG00000227333	ENST00000471633	processed_transcript	KNOWN	None	14129	None	None	31829721	31834768	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_DBB	EHMT2	ENSG00000227333	ENST00000428442	protein_coding	KNOWN	None	14129	3702	1233	31829721	31847184	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_DBB	EHMT2	ENSG00000227333	ENST00000420930	protein_coding	KNOWN	None	14129	3804	1267	31829721	31847164	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_DBB	EHMT2	ENSG00000227333	ENST00000451745	protein_coding	KNOWN	None	14129	894	297	31833781	31837026	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_DBB	EHMT2	ENSG00000227333	ENST00000490503	retained_intron	KNOWN	None	14129	None	None	31834635	31837081	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_DBB	EHMT2	ENSG00000227333	ENST00000484009	retained_intron	KNOWN	None	14129	None	None	31842380	31843148	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_DBB	EHMT2	ENSG00000227333	ENST00000480410	retained_intron	KNOWN	None	14129	None	None	31845363	31847649	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_DBB	EHMT2	ENSG00000227333	ENST00000547244	protein_coding	KNOWN	None	14129	3096	1031	31829727	31843347	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
6	KHDC1P1	ENSG00000251360	ENST00000511053	transcribed_unprocessed_pseudogene	KNOWN	None	43757	None	None	73918806	73919803	-1	None	None
X	TSPYL2	ENSG00000184205	ENST00000553557	retained_intron	KNOWN	None	24358	None	None	53111549	53115595	1	None	SE20-4, HRIHFB2216, CTCL, DENTT, CDA1, CINAP
X	TSPYL2	ENSG00000184205	ENST00000375442	protein_coding	KNOWN	CCDS14350	24358	2082	693	53111549	53117722	1	None	SE20-4, HRIHFB2216, CTCL, DENTT, CDA1, CINAP
X	TSPYL2	ENSG00000184205	ENST00000579390	protein_coding	NOVEL	None	24358	751	249	53111563	53115300	1	None	SE20-4, HRIHFB2216, CTCL, DENTT, CDA1, CINAP
X	TSPYL2	ENSG00000184205	ENST00000578306	nonsense_mediated_decay	KNOWN	None	24358	370	122	53112175	53115021	1	None	SE20-4, HRIHFB2216, CTCL, DENTT, CDA1, CINAP
X	TSPYL2	ENSG00000184205	ENST00000556808	retained_intron	KNOWN	None	24358	None	None	53112305	53117721	1	None	SE20-4, HRIHFB2216, CTCL, DENTT, CDA1, CINAP
X	TSPYL2	ENSG00000184205	ENST00000463525	retained_intron	KNOWN	None	24358	None	None	53113881	53115125	1	None	SE20-4, HRIHFB2216, CTCL, DENTT, CDA1, CINAP
5	C5orf56	ENSG00000197536	ENST00000378953	protein_coding	NOVEL	None	33838	354	117	131746328	131811736	1	None	None
5	C5orf56	ENSG00000197536	ENST00000461203	retained_intron	KNOWN	None	33838	None	None	131746673	131785683	1	None	None
5	C5orf56	ENSG00000197536	ENST00000337752	protein_coding	NOVEL	None	33838	381	126	131746673	131798059	1	None	None
5	C5orf56	ENSG00000197536	ENST00000378947	protein_coding	NOVEL	None	33838	243	80	131746681	131793113	1	None	None
5	C5orf56	ENSG00000197536	ENST00000407797	protein_coding	PUTATIVE	None	33838	114	37	131746681	131806600	1	None	None
5	C5orf56	ENSG00000197536	ENST00000464024	processed_transcript	PUTATIVE	None	33838	None	None	131806224	131811702	1	None	None
HSCHR6_MHC_APD	HLA-DMA	ENSG00000242361	ENST00000477135	retained_intron	KNOWN	None	4934	None	None	32899979	32901040	-1	None	D6S222E, RING6
HSCHR6_MHC_APD	HLA-DMA	ENSG00000242361	ENST00000451753	protein_coding	KNOWN	None	4934	501	166	32899979	32904430	-1	None	D6S222E, RING6
HSCHR6_MHC_APD	HLA-DMA	ENSG00000242361	ENST00000452330	protein_coding	KNOWN	None	4934	684	227	32899979	32904477	-1	None	D6S222E, RING6
HSCHR6_MHC_APD	HLA-DMA	ENSG00000242361	ENST00000479386	retained_intron	KNOWN	None	4934	None	None	32899979	32904477	-1	None	D6S222E, RING6
HSCHR6_MHC_APD	HLA-DMA	ENSG00000242361	ENST00000434337	protein_coding	KNOWN	None	4934	786	261	32899979	32904491	-1	None	D6S222E, RING6
HSCHR6_MHC_APD	HLA-DMA	ENSG00000242361	ENST00000490859	processed_transcript	KNOWN	None	4934	None	None	32900107	32902172	-1	None	D6S222E, RING6
HSCHR6_MHC_APD	HLA-DMA	ENSG00000242361	ENST00000479036	processed_transcript	KNOWN	None	4934	None	None	32900140	32901258	-1	None	D6S222E, RING6
HSCHR6_MHC_APD	HLA-DMA	ENSG00000242361	ENST00000433630	protein_coding	KNOWN	None	4934	871	289	32900640	32903830	-1	None	D6S222E, RING6
HSCHR6_MHC_APD	HLA-DMA	ENSG00000242361	ENST00000437285	protein_coding	KNOWN	None	4934	507	168	32901026	32902172	-1	None	D6S222E, RING6
HSCHR6_MHC_APD	HLA-DMA	ENSG00000242361	ENST00000466040	retained_intron	KNOWN	None	4934	None	None	32901453	32904403	-1	None	D6S222E, RING6
X	ATP11C	ENSG00000101974	ENST00000370557	protein_coding	KNOWN	None	13554	3342	1113	138808505	139015229	-1	None	ATPIG, ATPIQ
X	ATP11C	ENSG00000101974	ENST00000433868	protein_coding	KNOWN	None	13554	496	164	138808508	138827950	-1	None	ATPIG, ATPIQ
X	ATP11C	ENSG00000101974	ENST00000327569	protein_coding	KNOWN	CCDS14668	13554	3399	1132	138808508	138914447	-1	None	ATPIG, ATPIQ
X	ATP11C	ENSG00000101974	ENST00000361648	protein_coding	KNOWN	CCDS35410	13554	3360	1119	138808508	138914447	-1	None	ATPIG, ATPIQ
X	ATP11C	ENSG00000101974	ENST00000450801	protein_coding	KNOWN	None	13554	519	172	138808512	138832212	-1	None	ATPIG, ATPIQ
X	ATP11C	ENSG00000101974	ENST00000460773	processed_transcript	KNOWN	None	13554	None	None	138810945	138879440	-1	None	ATPIG, ATPIQ
X	ATP11C	ENSG00000101974	ENST00000471746	processed_transcript	KNOWN	None	13554	None	None	138832250	138864792	-1	None	ATPIG, ATPIQ
X	ATP11C	ENSG00000101974	ENST00000422228	protein_coding	KNOWN	None	13554	606	201	138864716	138871589	-1	None	ATPIG, ATPIQ
X	ATP11C	ENSG00000101974	ENST00000485626	processed_transcript	KNOWN	None	13554	None	None	138884461	139027435	-1	None	ATPIG, ATPIQ
X	ATP11C	ENSG00000101974	ENST00000370543	protein_coding	KNOWN	None	13554	3387	1128	138814595	138914447	-1	None	ATPIG, ATPIQ
X	ATP11C	ENSG00000101974	ENST00000359686	protein_coding	KNOWN	None	13554	3327	1108	138819926	138914447	-1	None	ATPIG, ATPIQ
2	None	ENSG00000261104	ENST00000565044	lincRNA	KNOWN	None	None	None	None	9246722	9249994	1	None	None
X	TMEM27	ENSG00000147003	ENST00000380342	protein_coding	KNOWN	CCDS14170	29437	669	222	15645441	15683154	-1	None	NX17
2	None	ENSG00000244310	ENST00000492300	lincRNA	KNOWN	None	None	None	None	9255326	9257013	1	None	None
11	FIBIN	ENSG00000176971	ENST00000318627	protein_coding	KNOWN	CCDS7861	33747	636	211	27015628	27018630	1	None	MGC24932
6	PRR18	ENSG00000176381	ENST00000529616	protein_coding	KNOWN	None	28574	350	115	166721281	166721936	-1	None	MGC35308
6	PRR18	ENSG00000176381	ENST00000322583	protein_coding	KNOWN	CCDS5291	28574	888	295	166719168	166721871	-1	None	MGC35308
2	None	ENSG00000240980	ENST00000474561	lincRNA	KNOWN	None	None	None	None	9283295	9286235	1	None	None
2	None	ENSG00000213772	ENST00000487533	processed_pseudogene	KNOWN	None	None	None	None	9411421	9411757	-1	None	None
19	CYP2A6	ENSG00000255974	ENST00000301141	protein_coding	KNOWN	CCDS12568	2610	1485	494	41349443	41356352	-1	CYP2A3	CPA6, CYP2A
19	CYP2A6	ENSG00000255974	ENST00000599960	retained_intron	KNOWN	None	2610	None	None	41349446	41350757	-1	CYP2A3	CPA6, CYP2A
19	CYP2A6	ENSG00000255974	ENST00000596719	retained_intron	KNOWN	None	2610	None	None	41350827	41356345	-1	CYP2A3	CPA6, CYP2A
19	CYP2A6	ENSG00000255974	ENST00000600495	nonsense_mediated_decay	KNOWN	None	2610	198	65	41351934	41356352	-1	CYP2A3	CPA6, CYP2A
22	POM121L7	ENSG00000239511	ENST00000329949	protein_coding	KNOWN	None	35444	1389	462	21479949	21482352	-1	None	None
22	POM121L7	ENSG00000239511	ENST00000419447	protein_coding	KNOWN	None	35444	1389	462	21477050	21482046	-1	None	None
2	None	ENSG00000239300	ENST00000480764	antisense	KNOWN	None	None	None	None	9645574	9652541	1	None	None
2	None	ENSG00000239300	ENST00000472619	antisense	KNOWN	None	None	None	None	9645574	9652541	1	None	None
7	FAM188B	ENSG00000106125	ENST00000265299	protein_coding	KNOWN	CCDS43565	21916	2274	757	30811033	30932002	1	C7orf67	FLJ22374
7	FAM188B	ENSG00000106125	ENST00000494187	retained_intron	KNOWN	None	21916	None	None	30819152	30826260	1	C7orf67	FLJ22374
7	FAM188B	ENSG00000106125	ENST00000409881	retained_intron	KNOWN	None	21916	None	None	30897363	30932001	1	C7orf67	FLJ22374
6	None	ENSG00000272221	ENST00000606743	lincRNA	KNOWN	None	None	None	None	31362066	31363272	-1	None	None
12	POLR3B	ENSG00000013503	ENST00000228347	protein_coding	KNOWN	CCDS9105	30348	3402	1133	106751436	106903976	1	None	RPC2, FLJ10388
12	POLR3B	ENSG00000013503	ENST00000539066	protein_coding	PUTATIVE	CCDS53824	30348	3228	1075	106751860	106903974	1	None	RPC2, FLJ10388
12	POLR3B	ENSG00000013503	ENST00000549569	protein_coding	PUTATIVE	None	30348	509	168	106775750	106821108	1	None	RPC2, FLJ10388
12	POLR3B	ENSG00000013503	ENST00000549195	processed_transcript	KNOWN	None	30348	None	None	106804022	106821045	1	None	RPC2, FLJ10388
16	MAZ	ENSG00000103495	ENST00000545521	protein_coding	PUTATIVE	None	6914	1365	454	29817427	29822481	1	None	ZF87, Pur-1, Zif87, ZNF801
16	MAZ	ENSG00000103495	ENST00000322945	protein_coding	KNOWN	CCDS42143	6914	1434	477	29817858	29822485	1	None	ZF87, Pur-1, Zif87, ZNF801
16	MAZ	ENSG00000103495	ENST00000562337	protein_coding	NOVEL	None	6914	519	172	29817871	29822455	1	None	ZF87, Pur-1, Zif87, ZNF801
16	MAZ	ENSG00000103495	ENST00000566906	protein_coding	NOVEL	None	6914	555	184	29817892	29822479	1	None	ZF87, Pur-1, Zif87, ZNF801
16	MAZ	ENSG00000103495	ENST00000563402	protein_coding	NOVEL	None	6914	561	186	29817892	29822479	1	None	ZF87, Pur-1, Zif87, ZNF801
16	MAZ	ENSG00000103495	ENST00000219782	protein_coding	KNOWN	CCDS42144	6914	1482	493	29817917	29822485	1	None	ZF87, Pur-1, Zif87, ZNF801
16	MAZ	ENSG00000103495	ENST00000561855	nonsense_mediated_decay	KNOWN	None	6914	255	84	29817969	29821587	1	None	ZF87, Pur-1, Zif87, ZNF801
16	MAZ	ENSG00000103495	ENST00000567444	protein_coding	PUTATIVE	None	6914	609	202	29818857	29820168	1	None	ZF87, Pur-1, Zif87, ZNF801
16	MAZ	ENSG00000103495	ENST00000568411	protein_coding	PUTATIVE	None	6914	589	195	29819096	29822484	1	None	ZF87, Pur-1, Zif87, ZNF801
16	MAZ	ENSG00000103495	ENST00000563012	protein_coding	NOVEL	None	6914	459	152	29819139	29821739	1	None	ZF87, Pur-1, Zif87, ZNF801
16	MAZ	ENSG00000103495	ENST00000562557	protein_coding	PUTATIVE	None	6914	236	77	29819250	29821014	1	None	ZF87, Pur-1, Zif87, ZNF801
16	MAZ	ENSG00000103495	ENST00000568544	protein_coding	PUTATIVE	None	6914	237	78	29819372	29822446	1	None	ZF87, Pur-1, Zif87, ZNF801
16	MAZ	ENSG00000103495	ENST00000569978	protein_coding	PUTATIVE	None	6914	162	53	29819414	29820256	1	None	ZF87, Pur-1, Zif87, ZNF801
16	MAZ	ENSG00000103495	ENST00000568282	protein_coding	PUTATIVE	None	6914	285	94	29819467	29822449	1	None	ZF87, Pur-1, Zif87, ZNF801
16	MAZ	ENSG00000103495	ENST00000565777	retained_intron	KNOWN	None	6914	None	None	29819741	29822388	1	None	ZF87, Pur-1, Zif87, ZNF801
16	MAZ	ENSG00000103495	ENST00000562594	protein_coding	PUTATIVE	None	6914	254	83	29820000	29823548	1	None	ZF87, Pur-1, Zif87, ZNF801
16	MAZ	ENSG00000103495	ENST00000568516	processed_transcript	PUTATIVE	None	6914	None	None	29822703	29823649	1	None	ZF87, Pur-1, Zif87, ZNF801
9	ALDH1A1	ENSG00000165092	ENST00000297785	protein_coding	KNOWN	CCDS6644	402	1506	501	75515578	75567971	-1	PUMB1, ALDH1	RALDH1
9	ALDH1A1	ENSG00000165092	ENST00000376939	protein_coding	KNOWN	None	402	693	230	75531885	75567972	-1	PUMB1, ALDH1	RALDH1
9	ALDH1A1	ENSG00000165092	ENST00000482210	processed_transcript	KNOWN	None	402	None	None	75538765	75567878	-1	PUMB1, ALDH1	RALDH1
9	ALDH1A1	ENSG00000165092	ENST00000419959	protein_coding	KNOWN	None	402	716	237	75538966	75695358	-1	PUMB1, ALDH1	RALDH1
9	ALDH1A1	ENSG00000165092	ENST00000446946	protein_coding	KNOWN	None	402	609	202	75540424	75653638	-1	PUMB1, ALDH1	RALDH1
9	ALDH1A1	ENSG00000165092	ENST00000493113	processed_transcript	KNOWN	None	402	None	None	75541899	75567883	-1	PUMB1, ALDH1	RALDH1
9	ALDH1A1	ENSG00000165092	ENST00000493311	processed_transcript	KNOWN	None	402	None	None	75668971	75695311	-1	PUMB1, ALDH1	RALDH1
6	HCP5	ENSG00000206337	ENST00000414046	sense_overlapping	KNOWN	None	21659	None	None	31368479	31433586	1	None	D6S2650E, P5-1
6	HCP5	ENSG00000206337	ENST00000460889	sense_overlapping	KNOWN	None	21659	None	None	31430962	31431598	1	None	D6S2650E, P5-1
6	HCP5	ENSG00000206337	ENST00000467369	sense_overlapping	KNOWN	None	21659	None	None	31430962	31445283	1	None	D6S2650E, P5-1
6	HCP5	ENSG00000206337	ENST00000541196	sense_overlapping	KNOWN	None	21659	None	None	31430962	31432156	1	None	D6S2650E, P5-1
2	None	ENSG00000238462	ENST00000459017	snoRNA	NOVEL	None	None	None	None	9672371	9672474	-1	None	None
2	None	ENSG00000271855	ENST00000607241	lincRNA	KNOWN	None	None	None	None	9696028	9696904	1	None	None
22	IGLV3-17	ENSG00000253152	ENST00000519099	IG_V_pseudogene	KNOWN	None	5902	None	None	23081432	23081675	1	None	None
2	None	ENSG00000207086	ENST00000384358	misc_RNA	NOVEL	None	None	None	None	9755396	9755502	1	None	None
9	None	ENSG00000243695	ENST00000425044	processed_pseudogene	KNOWN	None	None	None	None	39173791	39174510	-1	None	None
6	SFT2D1	ENSG00000198818	ENST00000361731	protein_coding	KNOWN	CCDS5292	21102	480	159	166733216	166756079	-1	C6orf83	MGC19825, pRGR1
6	SFT2D1	ENSG00000198818	ENST00000487841	processed_transcript	KNOWN	None	21102	None	None	166733348	166756035	-1	C6orf83	MGC19825, pRGR1
6	SFT2D1	ENSG00000198818	ENST00000479490	processed_transcript	KNOWN	None	21102	None	None	166733516	166738176	-1	C6orf83	MGC19825, pRGR1
6	SFT2D1	ENSG00000198818	ENST00000478705	processed_transcript	KNOWN	None	21102	None	None	166733644	166756064	-1	C6orf83	MGC19825, pRGR1
6	SFT2D1	ENSG00000198818	ENST00000488773	processed_transcript	KNOWN	None	21102	None	None	166737849	166744895	-1	C6orf83	MGC19825, pRGR1
6	SFT2D1	ENSG00000198818	ENST00000494682	processed_transcript	KNOWN	None	21102	None	None	166739361	166741827	-1	C6orf83	MGC19825, pRGR1
2	None	ENSG00000240687	ENST00000478468	lincRNA	KNOWN	None	None	None	None	9778901	9789568	1	None	None
22	IGLV3-15	ENSG00000253786	ENST00000518356	IG_V_pseudogene	KNOWN	None	5900	None	None	23098043	23098286	1	None	None
9	RN7SL640P	ENSG00000264912	ENST00000582799	misc_RNA	KNOWN	None	46656	None	None	39191097	39191355	1	None	None
2	None	ENSG00000244260	ENST00000483023	lincRNA	KNOWN	None	None	None	None	9814152	9848542	1	None	None
22	None	ENSG00000207835	ENST00000385100	miRNA	NOVEL	None	None	None	None	23101185	23101279	1	None	None
9	None	ENSG00000223758	ENST00000429555	processed_pseudogene	KNOWN	None	None	None	None	39368376	39368790	-1	None	None
22	IGLV3-13	ENSG00000253590	ENST00000518475	IG_V_pseudogene	KNOWN	None	5899	None	None	23104787	23105009	1	None	None
20	EPPIN	ENSG00000101448	ENST00000354280	protein_coding	KNOWN	CCDS13359	15932	402	133	44169265	44176063	-1	SPINLW1	EPPIN1, EPPIN2, EPPIN3, dJ461P17.2, WAP7, WFDC7, CT72
20	EPPIN	ENSG00000101448	ENST00000409554	protein_coding	PUTATIVE	None	15932	234	77	44170472	44176391	-1	SPINLW1	EPPIN1, EPPIN2, EPPIN3, dJ461P17.2, WAP7, WFDC7, CT72
20	EPPIN	ENSG00000101448	ENST00000336443	protein_coding	KNOWN	None	15932	354	117	44170484	44175016	-1	SPINLW1	EPPIN1, EPPIN2, EPPIN3, dJ461P17.2, WAP7, WFDC7, CT72
20	EPPIN	ENSG00000101448	ENST00000496898	retained_intron	KNOWN	None	15932	None	None	44170484	44175996	-1	SPINLW1	EPPIN1, EPPIN2, EPPIN3, dJ461P17.2, WAP7, WFDC7, CT72
20	EPPIN	ENSG00000101448	ENST00000555685	protein_coding	KNOWN	CCDS56195	15932	540	179	44165625	44176040	-1	SPINLW1	EPPIN1, EPPIN2, EPPIN3, dJ461P17.2, WAP7, WFDC7, CT72
11	BBOX1	ENSG00000129151	ENST00000529202	protein_coding	KNOWN	CCDS7862	964	1164	387	27062272	27149222	1	BBOX	gamma-BBH, G-BBH, BBH
11	BBOX1	ENSG00000129151	ENST00000533566	protein_coding	KNOWN	None	964	206	67	27062380	27077183	1	BBOX	gamma-BBH, G-BBH, BBH
11	BBOX1	ENSG00000129151	ENST00000531832	processed_transcript	PUTATIVE	None	964	None	None	27062418	27067833	1	BBOX	gamma-BBH, G-BBH, BBH
11	BBOX1	ENSG00000129151	ENST00000528583	protein_coding	KNOWN	CCDS7862	964	1164	387	27062860	27149356	1	BBOX	gamma-BBH, G-BBH, BBH
11	BBOX1	ENSG00000129151	ENST00000525090	protein_coding	KNOWN	CCDS7862	964	1164	387	27076764	27149218	1	BBOX	gamma-BBH, G-BBH, BBH
11	BBOX1	ENSG00000129151	ENST00000527505	processed_transcript	KNOWN	None	964	None	None	27076933	27141328	1	BBOX	gamma-BBH, G-BBH, BBH
11	BBOX1	ENSG00000129151	ENST00000534323	retained_intron	KNOWN	None	964	None	None	27076973	27078980	1	BBOX	gamma-BBH, G-BBH, BBH
11	BBOX1	ENSG00000129151	ENST00000263182	protein_coding	KNOWN	CCDS7862	964	1164	387	27062509	27149354	1	BBOX	gamma-BBH, G-BBH, BBH
2	RNU4-73P	ENSG00000200034	ENST00000363164	snRNA	KNOWN	None	47009	None	None	9880772	9880912	-1	None	None
22	None	ENSG00000231392	ENST00000415642	unprocessed_pseudogene	KNOWN	None	None	None	None	23117022	23117184	1	None	None
2	None	ENSG00000240960	ENST00000496833	processed_pseudogene	KNOWN	None	None	None	None	9886833	9886998	1	None	None
22	None	ENSG00000207833	ENST00000385098	miRNA	NOVEL	None	None	None	None	23134977	23135071	1	None	None
1	CD52	ENSG00000169442	ENST00000374213	protein_coding	KNOWN	CCDS30647	1804	186	61	26644448	26647014	1	CDW52	None
1	CD52	ENSG00000169442	ENST00000492808	processed_transcript	KNOWN	None	1804	None	None	26644449	26645485	1	CDW52	None
1	CD52	ENSG00000169442	ENST00000470468	processed_transcript	KNOWN	None	1804	None	None	26644449	26646815	1	CDW52	None
22	None	ENSG00000226477	ENST00000423259	unprocessed_pseudogene	KNOWN	None	None	None	None	23157168	23157423	1	None	None
2	None	ENSG00000243491	ENST00000474667	lincRNA	KNOWN	None	None	None	None	9897625	9910470	-1	None	None
22	GGT2	ENSG00000133475	ENST00000405188	protein_coding	KNOWN	None	4251	1680	559	21562262	21579843	-1	GGT	None
22	GGT2	ENSG00000133475	ENST00000401924	protein_coding	KNOWN	None	4251	1710	569	21562263	21581926	-1	GGT	None
22	GGT2	ENSG00000133475	ENST00000424627	protein_coding	KNOWN	None	4251	1710	569	21562294	21580582	-1	GGT	None
6	None	ENSG00000199332	ENST00000362462	misc_RNA	NOVEL	None	None	None	None	31369929	31370027	-1	None	None
12	RNF41	ENSG00000181852	ENST00000345093	protein_coding	KNOWN	CCDS8909	18401	954	317	56598285	56615705	-1	None	SBBI03
12	RNF41	ENSG00000181852	ENST00000547967	nonsense_mediated_decay	KNOWN	None	18401	393	130	56599234	56615650	-1	None	SBBI03
12	RNF41	ENSG00000181852	ENST00000394013	protein_coding	KNOWN	CCDS8910	18401	741	246	56599234	56615693	-1	None	SBBI03
12	RNF41	ENSG00000181852	ENST00000552656	protein_coding	KNOWN	CCDS8909	18401	954	317	56600231	56615717	-1	None	SBBI03
12	RNF41	ENSG00000181852	ENST00000548120	retained_intron	KNOWN	None	18401	None	None	56600371	56602328	-1	None	SBBI03
12	RNF41	ENSG00000181852	ENST00000551711	protein_coding	KNOWN	None	18401	439	145	56600533	56615706	-1	None	SBBI03
12	RNF41	ENSG00000181852	ENST00000552244	protein_coding	KNOWN	None	18401	606	201	56601423	56615627	-1	None	SBBI03
12	RNF41	ENSG00000181852	ENST00000549038	protein_coding	KNOWN	None	18401	571	189	56601461	56615485	-1	None	SBBI03
12	RNF41	ENSG00000181852	ENST00000549119	nonsense_mediated_decay	KNOWN	None	18401	186	61	56601932	56610390	-1	None	SBBI03
12	RNF41	ENSG00000181852	ENST00000548225	retained_intron	KNOWN	None	18401	None	None	56603821	56615644	-1	None	SBBI03
12	RNF41	ENSG00000181852	ENST00000550379	retained_intron	KNOWN	None	18401	None	None	56604032	56607802	-1	None	SBBI03
3	POLQ	ENSG00000051341	ENST00000264233	protein_coding	KNOWN	CCDS33833	9186	7773	2590	121150278	121264853	-1	None	POLH
3	POLQ	ENSG00000051341	ENST00000474243	processed_transcript	KNOWN	None	9186	None	None	121158931	121200443	-1	None	POLH
3	POLQ	ENSG00000051341	ENST00000488282	processed_transcript	KNOWN	None	9186	None	None	121240418	121252057	-1	None	POLH
6	None	ENSG00000230174	ENST00000430364	lincRNA	KNOWN	None	None	None	None	31409444	31414750	1	None	None
2	None	ENSG00000269973	ENST00000602458	lincRNA	KNOWN	None	None	None	None	10076489	10079719	1	None	None
6	None	ENSG00000233902	ENST00000440087	unprocessed_pseudogene	KNOWN	None	None	None	None	31430505	31431113	-1	None	None
9	IZUMO3	ENSG00000205442	ENST00000543880	protein_coding	NOVEL	None	31421	720	239	24542950	24545879	-1	C9orf134	bA20A20.1
9	IZUMO3	ENSG00000205442	ENST00000604921	protein_coding	NOVEL	None	31421	702	233	24543213	24545674	-1	C9orf134	bA20A20.1
9	IZUMO3	ENSG00000205442	ENST00000418122	protein_coding	PUTATIVE	None	31421	381	126	24543305	24545944	-1	C9orf134	bA20A20.1
6	None	ENSG00000201680	ENST00000383850	misc_RNA	NOVEL	None	None	None	None	31464466	31464567	-1	None	None
2	FAM168B	ENSG00000152102	ENST00000409185	protein_coding	KNOWN	CCDS42755	27016	588	195	131805449	131851001	-1	None	KIAA0280L
2	FAM168B	ENSG00000152102	ENST00000389915	protein_coding	KNOWN	CCDS42755	27016	588	195	131809940	131851033	-1	None	KIAA0280L
6	None	ENSG00000256851	ENST00000538358	unprocessed_pseudogene	KNOWN	None	None	None	None	31483756	31483988	1	None	None
10	ARHGAP22-IT1	ENSG00000248682	ENST00000505718	sense_intronic	KNOWN	None	42944	None	None	49718568	49719632	-1	None	FLJ35752
2	None	ENSG00000188525	ENST00000340444	antisense	KNOWN	None	None	None	None	10143286	10146158	-1	None	None
10	None	ENSG00000231906	ENST00000412463	processed_pseudogene	KNOWN	None	None	None	None	49754517	49754758	-1	None	None
6	PPIAP9	ENSG00000219797	ENST00000403866	processed_pseudogene	KNOWN	None	9272	None	None	31487257	31488068	-1	PPIP9	Em:AC006046.3
2	None	ENSG00000260476	ENST00000566840	lincRNA	KNOWN	None	None	None	None	10161705	10162952	1	None	None
7	POT1	ENSG00000128513	ENST00000430927	nonsense_mediated_decay	KNOWN	None	17284	256	84	124462440	124467304	-1	None	hPot1, DKFZp586D211
7	POT1	ENSG00000128513	ENST00000357628	protein_coding	KNOWN	CCDS5793	17284	1905	634	124462440	124570035	-1	None	hPot1, DKFZp586D211
7	POT1	ENSG00000128513	ENST00000436534	protein_coding	PUTATIVE	None	17284	415	137	124462455	124469396	-1	None	hPot1, DKFZp586D211
7	POT1	ENSG00000128513	ENST00000466483	retained_intron	KNOWN	None	17284	None	None	124481035	124483303	-1	None	hPot1, DKFZp586D211
7	POT1	ENSG00000128513	ENST00000487564	retained_intron	KNOWN	None	17284	None	None	124498835	124503439	-1	None	hPot1, DKFZp586D211
7	POT1	ENSG00000128513	ENST00000429326	nonsense_mediated_decay	KNOWN	None	17284	138	45	124499032	124537256	-1	None	hPot1, DKFZp586D211
7	POT1	ENSG00000128513	ENST00000446993	protein_coding	KNOWN	None	17284	247	81	124510973	124569998	-1	None	hPot1, DKFZp586D211
7	POT1	ENSG00000128513	ENST00000461288	processed_transcript	KNOWN	None	17284	None	None	124538315	124569856	-1	None	hPot1, DKFZp586D211
7	POT1	ENSG00000128513	ENST00000464453	processed_transcript	KNOWN	None	17284	None	None	124568975	124569840	-1	None	hPot1, DKFZp586D211
7	POT1	ENSG00000128513	ENST00000393329	protein_coding	KNOWN	None	17284	1512	503	124462441	124570037	-1	None	hPot1, DKFZp586D211
2	None	ENSG00000260077	ENST00000567540	lincRNA	KNOWN	None	None	None	None	10179219	10180790	-1	None	None
17	ITGB4	ENSG00000132470	ENST00000579662	protein_coding	KNOWN	CCDS58599	6158	5259	1752	73717408	73753685	1	None	CD104
17	ITGB4	ENSG00000132470	ENST00000200181	protein_coding	KNOWN	CCDS11727	6158	5469	1822	73717516	73753899	1	None	CD104
17	ITGB4	ENSG00000132470	ENST00000450894	protein_coding	KNOWN	CCDS58599	6158	5259	1752	73717577	73753896	1	None	CD104
17	ITGB4	ENSG00000132470	ENST00000580542	retained_intron	KNOWN	None	6158	None	None	73717589	73737186	1	None	CD104
17	ITGB4	ENSG00000132470	ENST00000449880	protein_coding	KNOWN	CCDS32736	6158	5418	1805	73720776	73753899	1	None	CD104
17	ITGB4	ENSG00000132470	ENST00000584558	processed_transcript	KNOWN	None	6158	None	None	73720784	73738738	1	None	CD104
17	ITGB4	ENSG00000132470	ENST00000582629	protein_coding	PUTATIVE	None	6158	345	114	73723882	73753899	1	None	CD104
17	ITGB4	ENSG00000132470	ENST00000584374	processed_transcript	KNOWN	None	6158	None	None	73727901	73735986	1	None	CD104
17	ITGB4	ENSG00000132470	ENST00000584025	retained_intron	KNOWN	None	6158	None	None	73738505	73745126	1	None	CD104
17	ITGB4	ENSG00000132470	ENST00000583327	protein_coding	PUTATIVE	None	6158	649	215	73747894	73751889	1	None	CD104
17	ITGB4	ENSG00000132470	ENST00000579211	retained_intron	KNOWN	None	6158	None	None	73750564	73751859	1	None	CD104
17	ITGB4	ENSG00000132470	ENST00000584939	protein_coding	NOVEL	None	6158	603	200	73750699	73753083	1	None	CD104
17	ITGB4	ENSG00000132470	ENST00000578318	protein_coding	PUTATIVE	None	6158	191	62	73753120	73753899	1	None	CD104
17	ITGB4	ENSG00000132470	ENST00000339591	protein_coding	KNOWN	CCDS32736	6158	5418	1805	73717516	73753898	1	None	CD104
5	None	ENSG00000249279	ENST00000511794	lincRNA	KNOWN	None	None	None	None	60497136	60548716	-1	None	None
5	None	ENSG00000249279	ENST00000503882	lincRNA	KNOWN	None	None	None	None	60546384	60560756	-1	None	None
2	None	ENSG00000271787	ENST00000607181	antisense	KNOWN	None	None	None	None	10194548	10194993	-1	None	None
12	ARHGDIB	ENSG00000111348	ENST00000228945	protein_coding	KNOWN	CCDS8671	679	606	201	15094951	15114603	-1	RAP1GN1, GDIA2, GDID4	Ly-GDI, RhoGDI2
12	ARHGDIB	ENSG00000111348	ENST00000536592	protein_coding	NOVEL	None	679	586	194	15094979	15103629	-1	RAP1GN1, GDIA2, GDID4	Ly-GDI, RhoGDI2
12	ARHGDIB	ENSG00000111348	ENST00000541644	protein_coding	KNOWN	CCDS8671	679	606	201	15095264	15104040	-1	RAP1GN1, GDIA2, GDID4	Ly-GDI, RhoGDI2
12	ARHGDIB	ENSG00000111348	ENST00000539131	processed_transcript	KNOWN	None	679	None	None	15095304	15101830	-1	RAP1GN1, GDIA2, GDID4	Ly-GDI, RhoGDI2
12	ARHGDIB	ENSG00000111348	ENST00000541546	protein_coding	KNOWN	CCDS8671	679	606	201	15095442	15114539	-1	RAP1GN1, GDIA2, GDID4	Ly-GDI, RhoGDI2
12	ARHGDIB	ENSG00000111348	ENST00000545895	protein_coding	KNOWN	None	679	476	157	15095586	15104085	-1	RAP1GN1, GDIA2, GDID4	Ly-GDI, RhoGDI2
12	ARHGDIB	ENSG00000111348	ENST00000535676	retained_intron	KNOWN	None	679	None	None	15100623	15114525	-1	RAP1GN1, GDIA2, GDID4	Ly-GDI, RhoGDI2
12	ARHGDIB	ENSG00000111348	ENST00000541380	protein_coding	KNOWN	None	679	338	111	15100811	15114200	-1	RAP1GN1, GDIA2, GDID4	Ly-GDI, RhoGDI2
12	ARHGDIB	ENSG00000111348	ENST00000542276	protein_coding	KNOWN	None	679	265	87	15102736	15114662	-1	RAP1GN1, GDIA2, GDID4	Ly-GDI, RhoGDI2
10	None	ENSG00000251413	ENST00000514425	sense_intronic	KNOWN	None	None	None	None	49832049	49833138	-1	None	None
19	FAM129C	ENSG00000167483	ENST00000595684	protein_coding	KNOWN	None	24130	2001	666	17634110	17660620	1	None	FLJ39802, BCNP1
19	FAM129C	ENSG00000167483	ENST00000332386	protein_coding	KNOWN	CCDS42521	24130	1956	651	17634110	17662835	1	None	FLJ39802, BCNP1
19	FAM129C	ENSG00000167483	ENST00000335393	protein_coding	KNOWN	CCDS12362	24130	2094	697	17634110	17664648	1	None	FLJ39802, BCNP1
19	FAM129C	ENSG00000167483	ENST00000601861	protein_coding	PUTATIVE	None	24130	2001	666	17638047	17664448	1	None	FLJ39802, BCNP1
19	FAM129C	ENSG00000167483	ENST00000599164	protein_coding	PUTATIVE	None	24130	1863	620	17638072	17662839	1	None	FLJ39802, BCNP1
19	FAM129C	ENSG00000167483	ENST00000597887	processed_transcript	KNOWN	None	24130	None	None	17638076	17648314	1	None	FLJ39802, BCNP1
19	FAM129C	ENSG00000167483	ENST00000449408	protein_coding	PUTATIVE	None	24130	1272	423	17638087	17664443	1	None	FLJ39802, BCNP1
19	FAM129C	ENSG00000167483	ENST00000600519	nonsense_mediated_decay	KNOWN	None	24130	1689	562	17638097	17664454	1	None	FLJ39802, BCNP1
19	FAM129C	ENSG00000167483	ENST00000600871	protein_coding	PUTATIVE	None	24130	1710	569	17638100	17662769	1	None	FLJ39802, BCNP1
19	FAM129C	ENSG00000167483	ENST00000599124	protein_coding	PUTATIVE	None	24130	1755	584	17638113	17662833	1	None	FLJ39802, BCNP1
19	FAM129C	ENSG00000167483	ENST00000599819	retained_intron	KNOWN	None	24130	None	None	17644288	17650034	1	None	FLJ39802, BCNP1
19	FAM129C	ENSG00000167483	ENST00000595601	retained_intron	KNOWN	None	24130	None	None	17650962	17654818	1	None	FLJ39802, BCNP1
19	FAM129C	ENSG00000167483	ENST00000352727	protein_coding	KNOWN	None	24130	1848	615	17634110	17662832	1	None	FLJ39802, BCNP1
19	FAM129C	ENSG00000167483	ENST00000300971	protein_coding	KNOWN	None	24130	1782	593	17634110	17656166	1	None	FLJ39802, BCNP1
2	None	ENSG00000212558	ENST00000391256	snoRNA	NOVEL	None	None	None	None	10230332	10230446	-1	None	None
5	None	ENSG00000251682	ENST00000505325	processed_pseudogene	KNOWN	None	None	None	None	60642953	60643543	1	None	None
2	None	ENSG00000272524	ENST00000607140	lincRNA	KNOWN	None	None	None	None	10260861	10261192	1	None	None
10	None	ENSG00000236800	ENST00000440750	lincRNA	KNOWN	None	None	None	None	49872244	49880469	-1	None	None
6	PPT2	ENSG00000221988	ENST00000414204	protein_coding	KNOWN	None	9326	541	179	32121218	32123755	1	None	None
6	PPT2	ENSG00000221988	ENST00000361568	protein_coding	KNOWN	CCDS4740	9326	927	308	32121300	32131455	1	None	None
6	PPT2	ENSG00000221988	ENST00000478521	processed_transcript	KNOWN	None	9326	None	None	32121319	32125626	1	None	None
6	PPT2	ENSG00000221988	ENST00000395523	protein_coding	KNOWN	CCDS4742	9326	909	302	32121354	32131455	1	None	None
6	PPT2	ENSG00000221988	ENST00000375137	protein_coding	KNOWN	CCDS4742	9326	909	302	32121872	32131455	1	None	None
6	PPT2	ENSG00000221988	ENST00000375143	protein_coding	KNOWN	CCDS4742	9326	909	302	32121915	32131455	1	None	None
6	PPT2	ENSG00000221988	ENST00000424499	protein_coding	KNOWN	None	9326	476	157	32121944	32125701	1	None	None
6	PPT2	ENSG00000221988	ENST00000493548	processed_transcript	KNOWN	None	9326	None	None	32121974	32130373	1	None	None
6	PPT2	ENSG00000221988	ENST00000436118	nonsense_mediated_decay	KNOWN	None	9326	294	97	32122230	32125636	1	None	None
6	PPT2	ENSG00000221988	ENST00000465047	processed_transcript	PUTATIVE	None	9326	None	None	32122795	32123536	1	None	None
6	PPT2	ENSG00000221988	ENST00000495908	retained_intron	KNOWN	None	9326	None	None	32125267	32126099	1	None	None
6	PPT2	ENSG00000221988	ENST00000445576	protein_coding	KNOWN	None	9326	906	301	32121622	32133976	1	None	None
6	PPT2	ENSG00000221988	ENST00000324816	protein_coding	KNOWN	CCDS4742	9326	909	302	32121622	32131452	1	None	None
6	PPT2	ENSG00000221988	ENST00000437001	protein_coding	KNOWN	None	9326	441	146	32121847	32134011	1	None	None
5	None	ENSG00000250461	ENST00000439448	processed_pseudogene	KNOWN	None	None	None	None	60670939	60671682	1	None	None
2	None	ENSG00000206647	ENST00000383920	snoRNA	NOVEL	None	None	None	None	10295199	10295333	-1	None	None
10	SLC35G1	ENSG00000176273	ENST00000371408	protein_coding	KNOWN	CCDS7432	26607	1095	364	95653730	95663581	1	TMEM20	FLJ33990, C10orf60
10	SLC35G1	ENSG00000176273	ENST00000483386	nonsense_mediated_decay	KNOWN	None	26607	141	46	95653748	95669587	1	TMEM20	FLJ33990, C10orf60
10	SLC35G1	ENSG00000176273	ENST00000605679	nonsense_mediated_decay	KNOWN	None	26607	192	63	95653758	95714013	1	TMEM20	FLJ33990, C10orf60
10	SLC35G1	ENSG00000176273	ENST00000494992	nonsense_mediated_decay	KNOWN	None	26607	192	63	95653759	95715819	1	TMEM20	FLJ33990, C10orf60
10	SLC35G1	ENSG00000176273	ENST00000603665	nonsense_mediated_decay	KNOWN	None	26607	192	63	95653779	95669582	1	TMEM20	FLJ33990, C10orf60
10	SLC35G1	ENSG00000176273	ENST00000427197	protein_coding	KNOWN	CCDS44459	26607	1098	365	95653730	95662490	1	TMEM20	FLJ33990, C10orf60
2	MIR4261	ENSG00000265418	ENST00000580325	miRNA	KNOWN	None	38272	None	None	10332740	10332797	-1	None	hsa-mir-4261
9	TUSC1	ENSG00000198680	ENST00000358022	protein_coding	KNOWN	CCDS34999	31010	639	212	25676396	25678856	-1	None	TSG-9
5	RPL3P6	ENSG00000213891	ENST00000474162	processed_pseudogene	KNOWN	None	36395	None	None	60686495	60687698	-1	None	None
2	RN7SL66P	ENSG00000264030	ENST00000582099	misc_RNA	KNOWN	None	46082	None	None	10420757	10421017	1	None	None
5	None	ENSG00000223200	ENST00000411268	miRNA	NOVEL	None	None	None	None	60853110	60853194	1	None	None
2	None	ENSG00000206898	ENST00000384171	snoRNA	NOVEL	None	None	None	None	10436173	10436306	-1	None	None
X	CA5B	ENSG00000169239	ENST00000498004	protein_coding	KNOWN	None	1378	230	75	15706953	15782788	1	None	None
X	CA5B	ENSG00000169239	ENST00000318636	protein_coding	KNOWN	CCDS14171	1378	954	317	15756393	15805747	1	None	None
X	CA5B	ENSG00000169239	ENST00000478923	retained_intron	KNOWN	None	1378	None	None	15756412	15768607	1	None	None
X	CA5B	ENSG00000169239	ENST00000474624	retained_intron	KNOWN	None	1378	None	None	15756429	15768531	1	None	None
X	CA5B	ENSG00000169239	ENST00000380319	retained_intron	KNOWN	None	1378	None	None	15756433	15783034	1	None	None
X	CA5B	ENSG00000169239	ENST00000479740	protein_coding	KNOWN	None	1378	408	135	15768026	15790686	1	None	None
X	CA5B	ENSG00000169239	ENST00000380313	processed_transcript	KNOWN	None	1378	None	None	15768043	15781167	1	None	None
X	CA5B	ENSG00000169239	ENST00000478341	nonsense_mediated_decay	KNOWN	None	1378	212	69	15782719	15786987	1	None	None
X	CA5B	ENSG00000169239	ENST00000496188	retained_intron	KNOWN	None	1378	None	None	15792392	15793754	1	None	None
X	CA5B	ENSG00000169239	ENST00000454127	protein_coding	KNOWN	CCDS14171	1378	954	317	15768093	15802658	1	None	None
2	SNORA80B	ENSG00000206633	ENST00000383906	snoRNA	KNOWN	None	34355	None	None	10586840	10586975	-1	None	ACA67B
5	None	ENSG00000248529	ENST00000505623	antisense	KNOWN	None	None	None	None	60954301	60983726	-1	None	None
5	None	ENSG00000248529	ENST00000507264	antisense	KNOWN	None	None	None	None	60958886	60983740	-1	None	None
5	None	ENSG00000248529	ENST00000513386	antisense	KNOWN	None	None	None	None	60958977	60994259	-1	None	None
7	ZYX	ENSG00000159840	ENST00000322764	protein_coding	KNOWN	CCDS5883	13200	1719	572	143078173	143088204	1	None	None
7	ZYX	ENSG00000159840	ENST00000449630	protein_coding	PUTATIVE	None	13200	533	176	143078388	143080018	1	None	None
7	ZYX	ENSG00000159840	ENST00000468083	retained_intron	KNOWN	None	13200	None	None	143078453	143080328	1	None	None
7	ZYX	ENSG00000159840	ENST00000457235	protein_coding	KNOWN	None	13200	492	163	143078454	143079769	1	None	None
7	ZYX	ENSG00000159840	ENST00000354434	protein_coding	NOVEL	None	13200	1623	540	143078668	143088202	1	None	None
7	ZYX	ENSG00000159840	ENST00000392910	protein_coding	PUTATIVE	None	13200	1248	415	143079000	143088202	1	None	None
7	ZYX	ENSG00000159840	ENST00000477373	processed_transcript	KNOWN	None	13200	None	None	143079121	143080333	1	None	None
7	ZYX	ENSG00000159840	ENST00000436448	nonsense_mediated_decay	KNOWN	None	13200	530	175	143079943	143085593	1	None	None
7	ZYX	ENSG00000159840	ENST00000446634	protein_coding	PUTATIVE	None	13200	514	170	143080093	143085989	1	None	None
7	ZYX	ENSG00000159840	ENST00000497119	retained_intron	KNOWN	None	13200	None	None	143084982	143085690	1	None	None
7	ZYX	ENSG00000159840	ENST00000449423	protein_coding	KNOWN	None	13200	1458	485	143078668	143088202	1	None	None
2	None	ENSG00000257135	ENST00000553181	lincRNA	KNOWN	None	None	None	None	10588820	10591453	1	None	None
2	None	ENSG00000257135	ENST00000547349	lincRNA	KNOWN	None	None	None	None	10589854	10590920	1	None	None
4	APOBEC3AP1	ENSG00000248822	ENST00000511396	processed_pseudogene	KNOWN	None	43835	None	None	171020969	171021255	1	None	None
1	MRPS14	ENSG00000120333	ENST00000498253	processed_transcript	KNOWN	None	14049	None	None	174979925	174983960	-1	None	HSMRPS14
1	MRPS14	ENSG00000120333	ENST00000476371	protein_coding	KNOWN	CCDS1316	14049	387	128	174982094	174992561	-1	None	HSMRPS14
1	MRPS14	ENSG00000120333	ENST00000367677	nonsense_mediated_decay	KNOWN	None	14049	183	60	174983381	174992551	-1	None	HSMRPS14
19	None	ENSG00000268618	ENST00000598703	antisense	KNOWN	None	None	None	None	8614390	8615023	1	None	None
4	None	ENSG00000248739	ENST00000507006	processed_pseudogene	KNOWN	None	None	None	None	171062443	171063683	-1	None	None
12	USP15	ENSG00000135655	ENST00000353364	protein_coding	KNOWN	CCDS8963	12613	2859	952	62654119	62799899	1	None	KIAA0529, UNPH4
12	USP15	ENSG00000135655	ENST00000549523	protein_coding	NOVEL	None	12613	525	174	62654137	62715270	1	None	KIAA0529, UNPH4
12	USP15	ENSG00000135655	ENST00000280377	protein_coding	KNOWN	CCDS58251	12613	2946	981	62654138	62799899	1	None	KIAA0529, UNPH4
12	USP15	ENSG00000135655	ENST00000550632	processed_transcript	KNOWN	None	12613	None	None	62654145	62749167	1	None	KIAA0529, UNPH4
12	USP15	ENSG00000135655	ENST00000312635	protein_coding	NOVEL	CCDS58250	12613	708	235	62654178	62730471	1	None	KIAA0529, UNPH4
12	USP15	ENSG00000135655	ENST00000548524	retained_intron	KNOWN	None	12613	None	None	62654180	62708854	1	None	KIAA0529, UNPH4
12	USP15	ENSG00000135655	ENST00000546718	retained_intron	KNOWN	None	12613	None	None	62654188	62688421	1	None	KIAA0529, UNPH4
12	USP15	ENSG00000135655	ENST00000551206	retained_intron	KNOWN	None	12613	None	None	62654188	62697367	1	None	KIAA0529, UNPH4
12	USP15	ENSG00000135655	ENST00000537297	processed_transcript	KNOWN	None	12613	None	None	62654189	62698677	1	None	KIAA0529, UNPH4
12	USP15	ENSG00000135655	ENST00000549237	protein_coding	PUTATIVE	None	12613	722	239	62654209	62721562	1	None	KIAA0529, UNPH4
12	USP15	ENSG00000135655	ENST00000548836	protein_coding	PUTATIVE	None	12613	419	138	62672409	62715350	1	None	KIAA0529, UNPH4
12	USP15	ENSG00000135655	ENST00000546694	protein_coding	PUTATIVE	None	12613	320	105	62699376	62719714	1	None	KIAA0529, UNPH4
12	USP15	ENSG00000135655	ENST00000552997	nonsense_mediated_decay	KNOWN	None	12613	263	86	62715242	62729155	1	None	KIAA0529, UNPH4
12	USP15	ENSG00000135655	ENST00000547317	processed_transcript	KNOWN	None	12613	None	None	62748792	62775414	1	None	KIAA0529, UNPH4
12	USP15	ENSG00000135655	ENST00000549268	retained_intron	KNOWN	None	12613	None	None	62749209	62783653	1	None	KIAA0529, UNPH4
12	USP15	ENSG00000135655	ENST00000549415	protein_coding	PUTATIVE	None	12613	474	157	62786142	62811211	1	None	KIAA0529, UNPH4
12	USP15	ENSG00000135655	ENST00000548620	nonsense_mediated_decay	KNOWN	None	12613	150	49	62786855	62798571	1	None	KIAA0529, UNPH4
12	USP15	ENSG00000135655	ENST00000552346	processed_transcript	KNOWN	None	12613	None	None	62790064	62798423	1	None	KIAA0529, UNPH4
12	USP15	ENSG00000135655	ENST00000549101	processed_transcript	PUTATIVE	None	12613	None	None	62794938	62798437	1	None	KIAA0529, UNPH4
12	USP15	ENSG00000135655	ENST00000393654	protein_coding	KNOWN	None	12613	2871	956	62654187	62799898	1	None	KIAA0529, UNPH4
19	None	ENSG00000267986	ENST00000597256	antisense	KNOWN	None	None	None	None	8646044	8647599	1	None	None
4	None	ENSG00000250266	ENST00000504509	lincRNA	KNOWN	None	None	None	None	171195070	171204230	1	None	None
2	None	ENSG00000217258	ENST00000404616	lincRNA	KNOWN	None	None	None	None	10592445	10595678	1	None	None
19	None	ENSG00000268480	ENST00000593792	lincRNA	KNOWN	None	None	None	None	8740121	8748103	1	None	None
HSCHR6_MHC_DBB	B3GALT4	ENSG00000235155	ENST00000419471	protein_coding	KNOWN	None	919	1137	378	33222842	33224527	1	None	beta3Gal-T4, GalT4
2	None	ENSG00000234818	ENST00000414538	antisense	KNOWN	None	None	None	None	10729292	10744956	1	None	None
19	None	ENSG00000261866	ENST00000570582	processed_pseudogene	KNOWN	None	None	None	None	8786679	8786903	1	None	None
5	RNU6-913P	ENSG00000212215	ENST00000390913	snRNA	KNOWN	None	47876	None	None	60959972	60960066	-1	None	None
9	CAAP1	ENSG00000120159	ENST00000333916	protein_coding	KNOWN	CCDS6516	25834	1086	361	26840683	26892802	-1	C9orf82	FLJ13657, CAAP
9	CAAP1	ENSG00000120159	ENST00000520187	protein_coding	PUTATIVE	None	25834	336	111	26842264	26892801	-1	C9orf82	FLJ13657, CAAP
9	CAAP1	ENSG00000120159	ENST00000483493	nonsense_mediated_decay	KNOWN	None	25834	402	133	26842392	26892785	-1	C9orf82	FLJ13657, CAAP
9	CAAP1	ENSG00000120159	ENST00000495958	processed_transcript	KNOWN	None	25834	None	None	26861087	26892602	-1	C9orf82	FLJ13657, CAAP
9	CAAP1	ENSG00000120159	ENST00000517946	processed_transcript	KNOWN	None	25834	None	None	26869924	26887476	-1	C9orf82	FLJ13657, CAAP
9	CAAP1	ENSG00000120159	ENST00000535437	protein_coding	KNOWN	CCDS55299	25834	651	216	26841734	26892365	-1	C9orf82	FLJ13657, CAAP
4	None	ENSG00000251061	ENST00000509548	lincRNA	KNOWN	None	None	None	None	171264240	171293462	1	None	None
1	AIM1L	ENSG00000176092	ENST00000527815	protein_coding	KNOWN	None	17295	2364	787	26648350	26670576	-1	None	CRYBG2, FLJ38020
1	AIM1L	ENSG00000176092	ENST00000374211	processed_transcript	KNOWN	None	17295	None	None	26648368	26651472	-1	None	CRYBG2, FLJ38020
1	AIM1L	ENSG00000176092	ENST00000374208	processed_transcript	KNOWN	None	17295	None	None	26648454	26651611	-1	None	CRYBG2, FLJ38020
1	AIM1L	ENSG00000176092	ENST00000520372	retained_intron	KNOWN	None	17295	None	None	26655100	26662874	-1	None	CRYBG2, FLJ38020
1	AIM1L	ENSG00000176092	ENST00000522923	processed_transcript	KNOWN	None	17295	None	None	26658076	26663737	-1	None	CRYBG2, FLJ38020
1	AIM1L	ENSG00000176092	ENST00000429942	protein_coding	NOVEL	None	17295	886	294	26658085	26665837	-1	None	CRYBG2, FLJ38020
1	AIM1L	ENSG00000176092	ENST00000522993	processed_transcript	KNOWN	None	17295	None	None	26662957	26664930	-1	None	CRYBG2, FLJ38020
1	AIM1L	ENSG00000176092	ENST00000374207	nonsense_mediated_decay	KNOWN	None	17295	1059	352	26669245	26680587	-1	None	CRYBG2, FLJ38020
1	AIM1L	ENSG00000176092	ENST00000475866	protein_coding	PUTATIVE	None	17295	1398	465	26671751	26680621	-1	None	CRYBG2, FLJ38020
1	AIM1L	ENSG00000176092	ENST00000308182	protein_coding	KNOWN	None	17295	1851	616	26648350	26670443	-1	None	CRYBG2, FLJ38020
5	None	ENSG00000251575	ENST00000506550	lincRNA	KNOWN	None	None	None	None	61028601	61031495	-1	None	None
5	None	ENSG00000251575	ENST00000512882	lincRNA	KNOWN	None	None	None	None	61030965	61031496	-1	None	None
19	RPL23AP78	ENSG00000269244	ENST00000599928	processed_pseudogene	KNOWN	None	35518	None	None	8839097	8839566	-1	None	None
2	RN7SL832P	ENSG00000243819	ENST00000607781	lincRNA	KNOWN	None	46848	None	None	10830470	10832225	1	None	None
2	RN7SL832P	ENSG00000243819	ENST00000487171	misc_RNA	KNOWN	None	46848	None	None	10831664	10831955	1	None	None
4	None	ENSG00000250082	ENST00000511259	processed_pseudogene	KNOWN	None	None	None	None	171402846	171403346	-1	None	None
4	HSP90AA6P	ENSG00000181359	ENST00000325407	processed_transcript	KNOWN	None	32536	None	None	171502621	171526135	-1	None	None
4	HSP90AA6P	ENSG00000181359	ENST00000506634	transcribed_processed_pseudogene	KNOWN	None	32536	None	None	171525867	171526601	-1	None	None
16	PDP2	ENSG00000172840	ENST00000566543	protein_coding	KNOWN	None	30263	455	150	66912492	66918642	1	None	KIAA1348, PPM2C2
16	PDP2	ENSG00000172840	ENST00000311765	protein_coding	KNOWN	CCDS10822	30263	1590	529	66914264	66921855	1	None	KIAA1348, PPM2C2
16	PDP2	ENSG00000172840	ENST00000568869	protein_coding	KNOWN	None	30263	465	154	66914418	66918652	1	None	KIAA1348, PPM2C2
16	PDP2	ENSG00000172840	ENST00000561704	protein_coding	PUTATIVE	None	30263	310	102	66914422	66918497	1	None	KIAA1348, PPM2C2
16	PDP2	ENSG00000172840	ENST00000568398	protein_coding	KNOWN	None	30263	82	26	66914434	66918269	1	None	KIAA1348, PPM2C2
16	PDP2	ENSG00000172840	ENST00000566805	nonsense_mediated_decay	KNOWN	None	30263	90	29	66914452	66926903	1	None	KIAA1348, PPM2C2
16	PDP2	ENSG00000172840	ENST00000568720	processed_transcript	PUTATIVE	None	30263	None	None	66914485	66929657	1	None	KIAA1348, PPM2C2
16	PDP2	ENSG00000172840	ENST00000566776	protein_coding	KNOWN	None	30263	727	241	66914510	66918914	1	None	KIAA1348, PPM2C2
19	None	ENSG00000268922	ENST00000600294	processed_pseudogene	KNOWN	None	None	None	None	8889341	8889537	-1	None	None
2	None	ENSG00000236162	ENST00000452909	lincRNA	KNOWN	None	None	None	None	10857899	10861078	1	None	None
14	POTEG	ENSG00000222036	ENST00000552966	nonsense_mediated_decay	KNOWN	None	33896	969	322	19553365	19584833	1	A26C2	POTE14, POTE-14, POTE14alpha, CT104.4
14	POTEG	ENSG00000222036	ENST00000547889	nonsense_mediated_decay	KNOWN	None	33896	1461	486	19553365	19584942	1	A26C2	POTE14, POTE-14, POTE14alpha, CT104.4
14	POTEG	ENSG00000222036	ENST00000409832	protein_coding	KNOWN	CCDS32018	33896	1527	508	19553365	19590078	1	A26C2	POTE14, POTE-14, POTE14alpha, CT104.4
10	PRPF38AP1	ENSG00000225053	ENST00000451976	processed_pseudogene	KNOWN	None	44692	None	None	8203223	8204155	1	None	None
4	ADH4	ENSG00000198099	ENST00000508393	protein_coding	NOVEL	None	252	1200	399	100044808	100065448	-1	None	ADH-2
4	ADH4	ENSG00000198099	ENST00000265512	protein_coding	KNOWN	CCDS34032	252	1143	380	100044818	100065448	-1	None	ADH-2
4	ADH4	ENSG00000198099	ENST00000509471	nonsense_mediated_decay	KNOWN	None	252	348	115	100045515	100057688	-1	None	ADH-2
4	ADH4	ENSG00000198099	ENST00000505590	protein_coding	NOVEL	None	252	1200	399	100045530	100065427	-1	None	ADH-2
4	ADH4	ENSG00000198099	ENST00000506705	nonsense_mediated_decay	KNOWN	None	252	111	36	100047745	100065427	-1	None	ADH-2
4	ADH4	ENSG00000198099	ENST00000512499	protein_coding	NOVEL	None	252	773	256	100052782	100065389	-1	None	ADH-2
4	ADH4	ENSG00000198099	ENST00000503416	retained_intron	KNOWN	None	252	None	None	100052803	100063962	-1	None	ADH-2
4	ADH4	ENSG00000198099	ENST00000504125	protein_coding	NOVEL	None	252	619	205	100052825	100065419	-1	None	ADH-2
4	ADH4	ENSG00000198099	ENST00000503944	processed_transcript	PUTATIVE	None	252	None	None	100057688	100064357	-1	None	ADH-2
4	ADH4	ENSG00000198099	ENST00000504894	nonsense_mediated_decay	KNOWN	None	252	111	36	100060294	100065448	-1	None	ADH-2
4	ADH4	ENSG00000198099	ENST00000504581	processed_transcript	PUTATIVE	None	252	None	None	100062790	100078949	-1	None	ADH-2
4	ADH4	ENSG00000198099	ENST00000423445	protein_coding	KNOWN	None	252	1200	399	100044832	100064391	-1	None	ADH-2
4	None	ENSG00000250968	ENST00000515840	lincRNA	KNOWN	None	None	None	None	171663620	171664869	-1	None	None
19	None	ENSG00000269300	ENST00000594006	antisense	KNOWN	None	None	None	None	8932177	8934786	1	None	None
2	RNU7-138P	ENSG00000239053	ENST00000459479	snRNA	KNOWN	None	45672	None	None	10884312	10884375	1	None	None
10	LINC00708	ENSG00000232170	ENST00000454056	lincRNA	KNOWN	None	44694	None	None	8301294	8302767	-1	None	None
10	LINC00708	ENSG00000232170	ENST00000428165	lincRNA	KNOWN	None	44694	None	None	8301294	8310268	-1	None	None
2	None	ENSG00000272275	ENST00000606907	lincRNA	KNOWN	None	None	None	None	10908001	10910184	-1	None	None
1	PLOD1	ENSG00000083444	ENST00000485046	processed_transcript	KNOWN	None	9081	None	None	11994262	12018677	1	LLH, PLOD	LH1
1	PLOD1	ENSG00000083444	ENST00000449038	protein_coding	NOVEL	None	9081	676	224	11994751	12012748	1	LLH, PLOD	LH1
1	PLOD1	ENSG00000083444	ENST00000358133	processed_transcript	KNOWN	None	9081	None	None	11994791	12014824	1	LLH, PLOD	LH1
1	PLOD1	ENSG00000083444	ENST00000429000	protein_coding	NOVEL	None	9081	849	282	11994800	12018000	1	LLH, PLOD	LH1
1	PLOD1	ENSG00000083444	ENST00000196061	protein_coding	KNOWN	CCDS142	9081	2184	727	11994810	12035594	1	LLH, PLOD	LH1
1	PLOD1	ENSG00000083444	ENST00000465920	retained_intron	KNOWN	None	9081	None	None	12014358	12018650	1	LLH, PLOD	LH1
1	PLOD1	ENSG00000083444	ENST00000491536	processed_transcript	KNOWN	None	9081	None	None	12024745	12035595	1	LLH, PLOD	LH1
1	PLOD1	ENSG00000083444	ENST00000470133	retained_intron	KNOWN	None	9081	None	None	12024759	12026471	1	LLH, PLOD	LH1
1	PLOD1	ENSG00000083444	ENST00000481933	retained_intron	KNOWN	None	9081	None	None	12031600	12035593	1	LLH, PLOD	LH1
1	PLOD1	ENSG00000083444	ENST00000376369	protein_coding	KNOWN	None	9081	2325	774	11994792	12035150	1	LLH, PLOD	LH1
19	None	ENSG00000269400	ENST00000595277	sense_intronic	KNOWN	None	None	None	None	8943741	8944217	1	None	None
2	RNU7-176P	ENSG00000238962	ENST00000458792	snRNA	KNOWN	None	45710	None	None	10955611	10955672	-1	None	None
19	None	ENSG00000267332	ENST00000586496	processed_pseudogene	KNOWN	None	None	None	None	9130020	9130660	1	None	None
HSCHR6_MHC_MCF	PRR3	ENSG00000233564	ENST00000449754	protein_coding	KNOWN	None	21149	567	188	30603120	30609957	1	None	CAT56, Em:AB014077.1, Em:AB023052.2
HSCHR6_MHC_MCF	PRR3	ENSG00000233564	ENST00000436805	protein_coding	KNOWN	None	21149	504	167	30603514	30609957	1	None	CAT56, Em:AB014077.1, Em:AB023052.2
HSCHR6_MHC_MCF	PRR3	ENSG00000233564	ENST00000473490	processed_transcript	KNOWN	None	21149	None	None	30603548	30609957	1	None	CAT56, Em:AB014077.1, Em:AB023052.2
HSCHR6_MHC_MCF	PRR3	ENSG00000233564	ENST00000489106	processed_transcript	KNOWN	None	21149	None	None	30603550	30609957	1	None	CAT56, Em:AB014077.1, Em:AB023052.2
HSCHR6_MHC_MCF	PRR3	ENSG00000233564	ENST00000481594	retained_intron	KNOWN	None	21149	None	None	30603581	30604670	1	None	CAT56, Em:AB014077.1, Em:AB023052.2
HSCHR6_MHC_MCF	PRR3	ENSG00000233564	ENST00000487302	retained_intron	KNOWN	None	21149	None	None	30606265	30609957	1	None	CAT56, Em:AB014077.1, Em:AB023052.2
2	None	ENSG00000270488	ENST00000603846	processed_pseudogene	KNOWN	None	None	None	None	11014417	11014693	-1	None	None
2	None	ENSG00000271952	ENST00000607419	lincRNA	KNOWN	None	None	None	None	11018395	11025244	1	None	None
21	MX2	ENSG00000183486	ENST00000330714	protein_coding	KNOWN	CCDS13672	7533	2148	715	42733870	42780870	1	None	MXB
21	MX2	ENSG00000183486	ENST00000436410	protein_coding	KNOWN	None	7533	388	128	42733926	42749854	1	None	MXB
21	MX2	ENSG00000183486	ENST00000435611	protein_coding	KNOWN	None	7533	377	124	42733934	42749843	1	None	MXB
21	MX2	ENSG00000183486	ENST00000494252	processed_transcript	KNOWN	None	7533	None	None	42733954	42736593	1	None	MXB
21	MX2	ENSG00000183486	ENST00000495892	retained_intron	KNOWN	None	7533	None	None	42733957	42739233	1	None	MXB
21	MX2	ENSG00000183486	ENST00000416447	protein_coding	KNOWN	None	7533	43	13	42742140	42748876	1	None	MXB
21	MX2	ENSG00000183486	ENST00000418103	protein_coding	KNOWN	None	7533	401	132	42742441	42749867	1	None	MXB
21	MX2	ENSG00000183486	ENST00000482953	retained_intron	KNOWN	None	7533	None	None	42761470	42781317	1	None	MXB
21	MX2	ENSG00000183486	ENST00000496774	processed_transcript	KNOWN	None	7533	None	None	42762578	42774127	1	None	MXB
21	MX2	ENSG00000183486	ENST00000493753	retained_intron	KNOWN	None	7533	None	None	42769558	42771693	1	None	MXB
21	MX2	ENSG00000183486	ENST00000481838	processed_transcript	KNOWN	None	7533	None	None	42770912	42779953	1	None	MXB
21	MX2	ENSG00000183486	ENST00000474368	retained_intron	KNOWN	None	7533	None	None	42772792	42776800	1	None	MXB
21	MX2	ENSG00000183486	ENST00000398632	retained_intron	KNOWN	None	7533	None	None	42774561	42780870	1	None	MXB
21	MX2	ENSG00000183486	ENST00000543692	protein_coding	KNOWN	None	7533	606	201	42742012	42770869	1	None	MXB
19	OR1M4P	ENSG00000267154	ENST00000589199	unprocessed_pseudogene	KNOWN	None	31244	None	None	9193788	9194074	-1	None	None
2	None	ENSG00000226080	ENST00000437876	processed_pseudogene	KNOWN	None	None	None	None	11242268	11243123	1	None	None
19	None	ENSG00000267418	ENST00000588193	processed_pseudogene	KNOWN	None	None	None	None	9293045	9293724	-1	None	None
10	None	ENSG00000226861	ENST00000413941	lincRNA	KNOWN	None	None	None	None	8340860	8343630	1	None	None
17	DHX8	ENSG00000067596	ENST00000592258	nonsense_mediated_decay	KNOWN	None	2749	162	53	41561233	41569660	1	DDX8	HRH1, PRP22, PRPF22
17	DHX8	ENSG00000067596	ENST00000540306	protein_coding	PUTATIVE	None	2749	3546	1181	41561331	41604154	1	DDX8	HRH1, PRP22, PRPF22
17	DHX8	ENSG00000067596	ENST00000262415	protein_coding	KNOWN	CCDS11464	2749	3663	1220	41561334	41603038	1	DDX8	HRH1, PRP22, PRPF22
17	DHX8	ENSG00000067596	ENST00000605777	protein_coding	NOVEL	None	2749	235	77	41561508	41567861	1	DDX8	HRH1, PRP22, PRPF22
17	DHX8	ENSG00000067596	ENST00000587044	retained_intron	KNOWN	None	2749	None	None	41568562	41604164	1	DDX8	HRH1, PRP22, PRPF22
17	DHX8	ENSG00000067596	ENST00000589898	protein_coding	PUTATIVE	None	2749	417	138	41598764	41621831	1	DDX8	HRH1, PRP22, PRPF22
17	DHX8	ENSG00000067596	ENST00000587574	protein_coding	PUTATIVE	None	2749	100	32	41599520	41604171	1	DDX8	HRH1, PRP22, PRPF22
12	PHC1	ENSG00000111752	ENST00000538657	protein_coding	KNOWN	None	3182	515	170	9066492	9075287	1	EDR1	HPH1, RAE28
12	PHC1	ENSG00000111752	ENST00000543824	protein_coding	KNOWN	CCDS8597	3182	3015	1004	9067149	9093000	1	EDR1	HPH1, RAE28
12	PHC1	ENSG00000111752	ENST00000433847	processed_transcript	KNOWN	None	3182	None	None	9067292	9086569	1	EDR1	HPH1, RAE28
12	PHC1	ENSG00000111752	ENST00000433083	protein_coding	NOVEL	None	3182	2880	959	9067327	9094063	1	EDR1	HPH1, RAE28
12	PHC1	ENSG00000111752	ENST00000544916	protein_coding	KNOWN	CCDS8597	3182	3015	1004	9067337	9092531	1	EDR1	HPH1, RAE28
12	PHC1	ENSG00000111752	ENST00000544539	protein_coding	NOVEL	None	3182	538	178	9067369	9075316	1	EDR1	HPH1, RAE28
12	PHC1	ENSG00000111752	ENST00000539063	protein_coding	NOVEL	None	3182	548	181	9067378	9083140	1	EDR1	HPH1, RAE28
12	PHC1	ENSG00000111752	ENST00000540574	nonsense_mediated_decay	KNOWN	None	3182	555	184	9068356	9094063	1	EDR1	HPH1, RAE28
12	PHC1	ENSG00000111752	ENST00000541181	protein_coding	NOVEL	None	3182	474	157	9070251	9074313	1	EDR1	HPH1, RAE28
12	PHC1	ENSG00000111752	ENST00000542346	protein_coding	PUTATIVE	None	3182	300	99	9075340	9092666	1	EDR1	HPH1, RAE28
12	PHC1	ENSG00000111752	ENST00000539928	processed_transcript	KNOWN	None	3182	None	None	9083208	9086576	1	EDR1	HPH1, RAE28
12	PHC1	ENSG00000111752	ENST00000537610	protein_coding	NOVEL	None	3182	561	186	9083512	9086596	1	EDR1	HPH1, RAE28
12	PHC1	ENSG00000111752	ENST00000535510	nonsense_mediated_decay	KNOWN	None	3182	395	130	9085918	9089845	1	EDR1	HPH1, RAE28
12	PHC1	ENSG00000111752	ENST00000540809	retained_intron	KNOWN	None	3182	None	None	9086133	9087824	1	EDR1	HPH1, RAE28
12	PHC1	ENSG00000111752	ENST00000536844	protein_coding	KNOWN	None	3182	1833	610	9068356	9094058	1	EDR1	HPH1, RAE28
7	POMZP3	ENSG00000146707	ENST00000275569	protein_coding	KNOWN	CCDS5590	9203	348	115	76239303	76256557	-1	None	POM-ZP3, POM121
7	POMZP3	ENSG00000146707	ENST00000310842	protein_coding	KNOWN	CCDS43606	9203	564	187	76239303	76256558	-1	None	POM-ZP3, POM121
7	POMZP3	ENSG00000146707	ENST00000441393	protein_coding	NOVEL	None	9203	373	123	76239311	76247617	-1	None	POM-ZP3, POM121
7	POMZP3	ENSG00000146707	ENST00000424818	nonsense_mediated_decay	KNOWN	None	9203	465	154	76239345	76256578	-1	None	POM-ZP3, POM121
7	POMZP3	ENSG00000146707	ENST00000454397	protein_coding	PUTATIVE	None	9203	752	249	76241039	76255444	-1	None	POM-ZP3, POM121
4	RNU6-204P	ENSG00000199335	ENST00000362465	snRNA	KNOWN	None	47167	None	None	3045828	3045934	1	None	None
19	HPN	ENSG00000105707	ENST00000262626	protein_coding	KNOWN	CCDS32993	5155	1254	417	35531410	35557475	1	None	TMPRSS1
19	HPN	ENSG00000105707	ENST00000392226	protein_coding	KNOWN	CCDS32993	5155	1254	417	35531410	35557475	1	None	TMPRSS1
19	HPN	ENSG00000105707	ENST00000600390	protein_coding	KNOWN	None	5155	241	79	35532653	35550657	1	None	TMPRSS1
19	HPN	ENSG00000105707	ENST00000597419	protein_coding	NOVEL	None	5155	780	259	35532670	35557462	1	None	TMPRSS1
19	HPN	ENSG00000105707	ENST00000599363	retained_intron	KNOWN	None	5155	None	None	35532671	35557462	1	None	TMPRSS1
19	HPN	ENSG00000105707	ENST00000596662	retained_intron	KNOWN	None	5155	None	None	35540175	35550985	1	None	TMPRSS1
19	HPN	ENSG00000105707	ENST00000541345	retained_intron	KNOWN	None	5155	None	None	35540175	35557462	1	None	TMPRSS1
19	HPN	ENSG00000105707	ENST00000593305	retained_intron	KNOWN	None	5155	None	None	35540220	35557475	1	None	TMPRSS1
19	HPN	ENSG00000105707	ENST00000600675	processed_transcript	PUTATIVE	None	5155	None	None	35550047	35550884	1	None	TMPRSS1
19	OR7E16P	ENSG00000267775	ENST00000592975	unprocessed_pseudogene	KNOWN	None	8387	None	None	9301962	9302846	1	OR7E60P, OR7E17P	OR19-133, OR19-9
19	OR7E25P	ENSG00000187847	ENST00000344844	unprocessed_pseudogene	KNOWN	None	8397	None	None	9314984	9315893	1	None	OR19-C, CIT-B-440L2
22	MIR650	ENSG00000207836	ENST00000385101	miRNA	KNOWN	None	32906	None	None	23165270	23165365	1	MIRN650	hsa-mir-650
19	OR7D1P	ENSG00000188314	ENST00000592739	unprocessed_pseudogene	KNOWN	None	8377	None	None	9345820	9346752	1	OR7D3P, OR7D3	OR19-A
19	OR7D1P	ENSG00000188314	ENST00000344049	unprocessed_pseudogene	KNOWN	None	8377	None	None	9346135	9346812	1	OR7D3P, OR7D3	OR19-A
1	TNN	ENSG00000120332	ENST00000239462	protein_coding	KNOWN	CCDS30943	22942	3900	1299	175036994	175117202	1	None	None
2	None	ENSG00000145063	ENST00000536743	lincRNA	KNOWN	None	None	None	None	11245443	11272302	-1	None	None
2	None	ENSG00000145063	ENST00000544306	lincRNA	KNOWN	None	None	None	None	11245443	11272347	-1	None	None
2	None	ENSG00000145063	ENST00000447433	lincRNA	KNOWN	None	None	None	None	11264345	11272896	-1	None	None
2	None	ENSG00000145063	ENST00000590373	lincRNA	KNOWN	None	None	None	None	11264884	11272947	-1	None	None
2	None	ENSG00000145063	ENST00000590207	lincRNA	KNOWN	None	None	None	None	11268665	11272234	-1	None	None
2	None	ENSG00000145063	ENST00000417697	lincRNA	KNOWN	None	None	None	None	11239977	11272302	-1	None	None
2	None	ENSG00000145063	ENST00000396164	lincRNA	KNOWN	None	None	None	None	11239977	11272302	-1	None	None
22	None	ENSG00000237127	ENST00000458673	unprocessed_pseudogene	KNOWN	None	None	None	None	23177041	23177293	1	None	None
19	OR7E18P	ENSG00000180926	ENST00000592589	unprocessed_pseudogene	KNOWN	None	8389	None	None	9371691	9372392	-1	OR7E61, OR7E98P	OR19-14, TPCR26
19	OR7E18P	ENSG00000180926	ENST00000318002	pseudogene	KNOWN	None	8389	None	None	9371730	9372200	-1	OR7E61, OR7E98P	OR19-14, TPCR26
10	None	ENSG00000228754	ENST00000434320	processed_pseudogene	KNOWN	None	None	None	None	49953590	49954173	-1	None	None
22	IGLV3-7	ENSG00000254077	ENST00000522952	IG_V_pseudogene	KNOWN	None	5917	None	None	23180779	23181049	1	None	None
7	HOXA7	ENSG00000122592	ENST00000242159	protein_coding	KNOWN	CCDS5408	5108	693	230	27193335	27196298	-1	HOX1A, HOX1	None
7	HOXA7	ENSG00000122592	ENST00000523796	processed_transcript	KNOWN	None	5108	None	None	27194402	27195617	-1	HOX1A, HOX1	None
7	HOXA7	ENSG00000122592	ENST00000519842	protein_coding	KNOWN	None	5108	92	29	27196073	27197555	-1	HOX1A, HOX1	None
HSCHR6_MHC_DBB	WDR46	ENSG00000226916	ENST00000481076	processed_transcript	PUTATIVE	None	13923	None	None	33224810	33226224	-1	C6orf11	BING4, UTP7
HSCHR6_MHC_DBB	WDR46	ENSG00000226916	ENST00000473848	retained_intron	KNOWN	None	13923	None	None	33224810	33226553	-1	C6orf11	BING4, UTP7
HSCHR6_MHC_DBB	WDR46	ENSG00000226916	ENST00000476583	processed_transcript	KNOWN	None	13923	None	None	33224810	33226613	-1	C6orf11	BING4, UTP7
HSCHR6_MHC_DBB	WDR46	ENSG00000226916	ENST00000457382	protein_coding	KNOWN	None	13923	1833	610	33224810	33235233	-1	C6orf11	BING4, UTP7
HSCHR6_MHC_DBB	WDR46	ENSG00000226916	ENST00000470002	retained_intron	KNOWN	None	13923	None	None	33225273	33233135	-1	C6orf11	BING4, UTP7
HSCHR6_MHC_DBB	WDR46	ENSG00000226916	ENST00000450918	protein_coding	KNOWN	None	13923	968	321	33226618	33234593	-1	C6orf11	BING4, UTP7
HSCHR6_MHC_DBB	WDR46	ENSG00000226916	ENST00000491279	retained_intron	KNOWN	None	13923	None	None	33232949	33233732	-1	C6orf11	BING4, UTP7
HSCHR6_MHC_DBB	WDR46	ENSG00000226916	ENST00000482376	processed_transcript	KNOWN	None	13923	None	None	33233198	33234953	-1	C6orf11	BING4, UTP7
HSCHR6_MHC_DBB	WDR46	ENSG00000226916	ENST00000477242	processed_transcript	KNOWN	None	13923	None	None	33233370	33234908	-1	C6orf11	BING4, UTP7
HSCHR6_MHC_DBB	WDR46	ENSG00000226916	ENST00000484807	retained_intron	KNOWN	None	13923	None	None	33233762	33234718	-1	C6orf11	BING4, UTP7
10	None	ENSG00000228403	ENST00000423256	sense_intronic	KNOWN	None	None	None	None	50086067	50086694	1	None	None
22	IGLV3-6	ENSG00000253448	ENST00000523937	IG_V_pseudogene	KNOWN	None	5916	None	None	23192550	23192799	1	None	None
22	None	ENSG00000207832	ENST00000385097	miRNA	NOVEL	None	None	None	None	23198720	23198813	1	None	None
17	FZD2	ENSG00000180340	ENST00000315323	protein_coding	KNOWN	CCDS11484	4040	1698	565	42634925	42636907	1	None	None
9	FAM74A5	ENSG00000215112	ENST00000465257	lincRNA	KNOWN	None	34035	None	None	39371062	39376913	1	None	None
9	FAM74A5	ENSG00000215112	ENST00000597685	lincRNA	KNOWN	None	34035	None	None	39371241	39371621	1	None	None
10	None	ENSG00000241577	ENST00000430438	sense_overlapping	KNOWN	None	None	None	None	50092000	50143258	-1	None	None
14	CMA1	ENSG00000092009	ENST00000250378	protein_coding	KNOWN	CCDS9630	2097	744	247	24974559	24977471	-1	None	None
14	CMA1	ENSG00000092009	ENST00000206446	protein_coding	PUTATIVE	None	2097	411	136	24974712	24977471	-1	None	None
22	IGLV2-5	ENSG00000253234	ENST00000522922	IG_V_pseudogene	KNOWN	None	5894	None	None	23198937	23199213	1	None	None
9	None	ENSG00000224038	ENST00000427327	lincRNA	KNOWN	None	None	None	None	39384503	39405302	-1	None	None
22	IGLV3-4	ENSG00000226420	ENST00000432300	IG_V_pseudogene	KNOWN	None	5915	None	None	23200200	23200443	1	None	None
5	PCDHA13	ENSG00000239389	ENST00000409494	protein_coding	PUTATIVE	None	8667	2715	904	140261793	140391929	1	CNRS5	CNR5, CRNR5, CNRN5, PCDH-ALPHA13
5	PCDHA13	ENSG00000239389	ENST00000289272	protein_coding	KNOWN	CCDS4240	8667	2853	950	140261854	140391929	1	CNRS5	CNR5, CRNR5, CNRN5, PCDH-ALPHA13
9	None	ENSG00000231140	ENST00000423499	lincRNA	KNOWN	None	None	None	None	39395734	39397403	-1	None	None
19	OR7E19P	ENSG00000225980	ENST00000589942	transcribed_unprocessed_pseudogene	KNOWN	None	8390	None	None	9376116	9376959	-1	OR7E65	OR19-7
19	OR7E19P	ENSG00000225980	ENST00000588789	processed_transcript	KNOWN	None	8390	None	None	9376150	9376621	-1	OR7E65	OR19-7
19	OR7E19P	ENSG00000225980	ENST00000442375	pseudogene	KNOWN	None	8390	None	None	9376066	9377015	-1	OR7E65	OR19-7
10	None	ENSG00000233665	ENST00000428825	antisense	KNOWN	None	None	None	None	50184599	50186937	-1	None	None
22	IGLV3-2	ENSG00000253963	ENST00000519345	IG_V_pseudogene	KNOWN	None	5904	None	None	23215391	23215619	1	None	None
10	None	ENSG00000226576	ENST00000422966	antisense	KNOWN	None	None	None	None	50192609	50226942	1	None	None
5	None	ENSG00000250705	ENST00000509149	processed_pseudogene	KNOWN	None	None	None	None	87898598	87898935	1	None	None
22	None	ENSG00000264824	ENST00000577998	miRNA	KNOWN	None	None	None	None	23228447	23228559	1	None	None
10	None	ENSG00000244332	ENST00000432120	sense_overlapping	KNOWN	None	None	None	None	96337196	96370995	1	None	None
9	None	ENSG00000198416	ENST00000602828	processed_transcript	KNOWN	None	None	None	None	39443817	39447188	-1	None	None
9	None	ENSG00000198416	ENST00000266116	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	39444497	39461691	-1	None	None
9	None	ENSG00000198416	ENST00000377618	unprocessed_pseudogene	KNOWN	None	None	None	None	39443804	39464526	-1	None	None
10	MIR4294	ENSG00000264800	ENST00000584548	miRNA	KNOWN	None	38180	None	None	50193557	50193632	-1	None	hsa-mir-4294
16	PPP4C	ENSG00000149923	ENST00000563732	nonsense_mediated_decay	KNOWN	None	9319	153	50	30087299	30096100	1	None	PP4, PPX
16	PPP4C	ENSG00000149923	ENST00000279387	protein_coding	KNOWN	CCDS10669	9319	924	307	30087311	30096698	1	None	PP4, PPX
16	PPP4C	ENSG00000149923	ENST00000567040	retained_intron	KNOWN	None	9319	None	None	30087321	30095126	1	None	PP4, PPX
16	PPP4C	ENSG00000149923	ENST00000568810	retained_intron	KNOWN	None	9319	None	None	30087322	30094788	1	None	PP4, PPX
16	PPP4C	ENSG00000149923	ENST00000563597	nonsense_mediated_decay	KNOWN	None	9319	171	56	30087326	30095101	1	None	PP4, PPX
16	PPP4C	ENSG00000149923	ENST00000564966	retained_intron	KNOWN	None	9319	None	None	30087328	30094888	1	None	PP4, PPX
16	PPP4C	ENSG00000149923	ENST00000563200	retained_intron	KNOWN	None	9319	None	None	30087328	30096668	1	None	PP4, PPX
16	PPP4C	ENSG00000149923	ENST00000566749	nonsense_mediated_decay	KNOWN	None	9319	363	120	30087338	30096692	1	None	PP4, PPX
16	PPP4C	ENSG00000149923	ENST00000562664	protein_coding	NOVEL	None	9319	801	266	30087339	30096362	1	None	PP4, PPX
16	PPP4C	ENSG00000149923	ENST00000567828	retained_intron	KNOWN	None	9319	None	None	30087345	30094305	1	None	PP4, PPX
16	PPP4C	ENSG00000149923	ENST00000567642	retained_intron	KNOWN	None	9319	None	None	30087350	30093010	1	None	PP4, PPX
16	PPP4C	ENSG00000149923	ENST00000562222	protein_coding	NOVEL	None	9319	610	202	30087353	30096094	1	None	PP4, PPX
16	PPP4C	ENSG00000149923	ENST00000561610	protein_coding	KNOWN	CCDS10669	9319	924	307	30087546	30096639	1	None	PP4, PPX
4	CEP170P1	ENSG00000154608	ENST00000502249	transcribed_unprocessed_pseudogene	KNOWN	None	28364	None	None	119388745	119475255	1	KIAA0470L, CEP170L	MGC26143, FAM68B
4	CEP170P1	ENSG00000154608	ENST00000412784	processed_transcript	KNOWN	None	28364	None	None	119437495	119475359	1	KIAA0470L, CEP170L	MGC26143, FAM68B
4	CEP170P1	ENSG00000154608	ENST00000450306	unprocessed_pseudogene	KNOWN	None	28364	None	None	119435150	119476483	1	KIAA0470L, CEP170L	MGC26143, FAM68B
10	CTBP2P2	ENSG00000235746	ENST00000434549	processed_pseudogene	KNOWN	None	45194	None	None	96406121	96407753	-1	None	None
22	POLDIP3	ENSG00000100227	ENST00000445215	nonsense_mediated_decay	KNOWN	None	23782	846	281	42979727	43010875	-1	None	PDIP46, KIAA1649
22	POLDIP3	ENSG00000100227	ENST00000348657	protein_coding	KNOWN	CCDS14039	23782	1179	392	42979727	43010937	-1	None	PDIP46, KIAA1649
22	POLDIP3	ENSG00000100227	ENST00000252115	protein_coding	KNOWN	CCDS14038	23782	1266	421	42979727	43010968	-1	None	PDIP46, KIAA1649
22	POLDIP3	ENSG00000100227	ENST00000491021	processed_transcript	KNOWN	None	23782	None	None	42981893	42999018	-1	None	PDIP46, KIAA1649
22	POLDIP3	ENSG00000100227	ENST00000454057	nonsense_mediated_decay	KNOWN	None	23782	570	189	42993714	43010866	-1	None	PDIP46, KIAA1649
22	POLDIP3	ENSG00000100227	ENST00000463133	processed_transcript	KNOWN	None	23782	None	None	42998774	43010883	-1	None	PDIP46, KIAA1649
22	POLDIP3	ENSG00000100227	ENST00000339677	protein_coding	KNOWN	None	23782	558	185	42980990	43010863	-1	None	PDIP46, KIAA1649
22	POLDIP3	ENSG00000100227	ENST00000451060	protein_coding	KNOWN	None	23782	561	186	42981443	42998972	-1	None	PDIP46, KIAA1649
5	None	ENSG00000245864	ENST00000510274	antisense	KNOWN	None	None	None	None	87972036	88018648	1	None	None
16	FBRS	ENSG00000156860	ENST00000356166	protein_coding	KNOWN	None	20442	2943	980	30669752	30682135	1	FBS1	FBS, FLJ11618
16	FBRS	ENSG00000156860	ENST00000498588	retained_intron	KNOWN	None	20442	None	None	30671239	30671902	1	FBS1	FBS, FLJ11618
16	FBRS	ENSG00000156860	ENST00000543786	nonsense_mediated_decay	KNOWN	None	20442	632	209	30671243	30682130	1	FBS1	FBS, FLJ11618
16	FBRS	ENSG00000156860	ENST00000484152	retained_intron	KNOWN	None	20442	None	None	30671247	30674018	1	FBS1	FBS, FLJ11618
16	FBRS	ENSG00000156860	ENST00000482749	processed_transcript	KNOWN	None	20442	None	None	30672643	30675837	1	FBS1	FBS, FLJ11618
16	FBRS	ENSG00000156860	ENST00000468966	retained_intron	KNOWN	None	20442	None	None	30673299	30673942	1	FBS1	FBS, FLJ11618
16	FBRS	ENSG00000156860	ENST00000570170	retained_intron	KNOWN	None	20442	None	None	30677296	30680575	1	FBS1	FBS, FLJ11618
16	FBRS	ENSG00000156860	ENST00000494101	retained_intron	KNOWN	None	20442	None	None	30679260	30682130	1	FBS1	FBS, FLJ11618
16	FBRS	ENSG00000156860	ENST00000287468	protein_coding	KNOWN	None	20442	1383	460	30675778	30682131	1	FBS1	FBS, FLJ11618
16	FBRS	ENSG00000156860	ENST00000395073	protein_coding	KNOWN	None	20442	1200	399	30675778	30681622	1	FBS1	FBS, FLJ11618
16	FBRS	ENSG00000156860	ENST00000568722	protein_coding	KNOWN	None	20442	1119	372	30671243	30682130	1	FBS1	FBS, FLJ11618
5	None	ENSG00000250377	ENST00000508719	lincRNA	KNOWN	None	None	None	None	87988462	87989789	-1	None	None
10	FAM170B-AS1	ENSG00000234736	ENST00000442525	antisense	KNOWN	None	45006	None	None	50329884	50359592	1	None	None
10	FAM170B-AS1	ENSG00000234736	ENST00000443389	antisense	KNOWN	None	45006	None	None	50329889	50359019	1	None	None
10	FAM170B-AS1	ENSG00000234736	ENST00000435809	antisense	KNOWN	None	45006	None	None	50330131	50349375	1	None	None
10	FAM170B-AS1	ENSG00000234736	ENST00000440054	antisense	KNOWN	None	45006	None	None	50345540	50359195	1	None	None
9	LRRC8A	ENSG00000136802	ENST00000372600	protein_coding	KNOWN	CCDS35155	19027	2433	810	131644391	131680318	1	LRRC8	KIAA1437, FLJ10337
9	LRRC8A	ENSG00000136802	ENST00000372599	protein_coding	KNOWN	CCDS35155	19027	2433	810	131644475	131680315	1	LRRC8	KIAA1437, FLJ10337
9	LRRC8A	ENSG00000136802	ENST00000483638	processed_transcript	PUTATIVE	None	19027	None	None	131647274	131648369	1	LRRC8	KIAA1437, FLJ10337
9	LRRC8A	ENSG00000136802	ENST00000492784	processed_transcript	PUTATIVE	None	19027	None	None	131675023	131679018	1	LRRC8	KIAA1437, FLJ10337
9	LRRC8A	ENSG00000136802	ENST00000259324	protein_coding	KNOWN	CCDS35155	19027	2433	810	131644781	131680313	1	LRRC8	KIAA1437, FLJ10337
HSCHR6_MHC_COX	POU5F1	ENSG00000233911	ENST00000496130	processed_transcript	KNOWN	None	9221	None	None	31124663	31125620	-1	OTF3	OCT3, Oct4, MGC22487
HSCHR6_MHC_COX	POU5F1	ENSG00000233911	ENST00000451077	protein_coding	KNOWN	None	9221	798	265	31124663	31126604	-1	OTF3	OCT3, Oct4, MGC22487
HSCHR6_MHC_COX	POU5F1	ENSG00000233911	ENST00000429603	protein_coding	KNOWN	None	9221	1083	360	31124663	31131037	-1	OTF3	OCT3, Oct4, MGC22487
HSCHR6_MHC_COX	POU5F1	ENSG00000233911	ENST00000471211	retained_intron	KNOWN	None	9221	None	None	31126028	31131002	-1	OTF3	OCT3, Oct4, MGC22487
HSCHR6_MHC_COX	POU5F1	ENSG00000233911	ENST00000547658	protein_coding	KNOWN	None	9221	369	122	31119738	31130964	-1	OTF3	OCT3, Oct4, MGC22487
HSCHR6_MHC_COX	POU5F1	ENSG00000233911	ENST00000547234	protein_coding	KNOWN	None	9221	558	185	31124664	31131018	-1	OTF3	OCT3, Oct4, MGC22487
4	SLAIN2	ENSG00000109171	ENST00000264313	protein_coding	KNOWN	CCDS47051	29282	1746	581	48343339	48428229	1	KIAA1458	FLJ21611
4	SLAIN2	ENSG00000109171	ENST00000506375	processed_transcript	KNOWN	None	29282	None	None	48371866	48381741	1	KIAA1458	FLJ21611
4	SLAIN2	ENSG00000109171	ENST00000512093	protein_coding	PUTATIVE	None	29282	1245	414	48379918	48427032	1	KIAA1458	FLJ21611
4	SLAIN2	ENSG00000109171	ENST00000505131	nonsense_mediated_decay	KNOWN	None	29282	177	58	48381844	48396647	1	KIAA1458	FLJ21611
4	SLAIN2	ENSG00000109171	ENST00000510595	protein_coding	PUTATIVE	None	29282	508	168	48385695	48422506	1	KIAA1458	FLJ21611
22	IGLC4	ENSG00000254029	ENST00000517690	IG_C_pseudogene	KNOWN	None	5858	None	None	23252998	23253245	1	IGLC	None
5	None	ENSG00000250555	ENST00000511000	antisense	KNOWN	None	None	None	None	87988468	87988676	1	None	None
2	RNU6-1081P	ENSG00000207267	ENST00000384537	snRNA	KNOWN	None	48044	None	None	11374114	11374220	1	None	None
22	HSCB	ENSG00000100209	ENST00000216027	protein_coding	KNOWN	CCDS13845	28913	708	235	29138019	29153498	1	None	HSC20, DNAJC20, Jac1
22	HSCB	ENSG00000100209	ENST00000450178	nonsense_mediated_decay	KNOWN	None	28913	318	105	29138030	29153498	1	None	HSC20, DNAJC20, Jac1
22	HSCB	ENSG00000100209	ENST00000398941	protein_coding	PUTATIVE	None	28913	432	143	29138043	29153503	1	None	HSC20, DNAJC20, Jac1
22	HSCB	ENSG00000100209	ENST00000420442	nonsense_mediated_decay	KNOWN	None	28913	432	143	29138049	29153201	1	None	HSC20, DNAJC20, Jac1
22	HSCB	ENSG00000100209	ENST00000485599	processed_transcript	KNOWN	None	28913	None	None	29138139	29141531	1	None	HSC20, DNAJC20, Jac1
22	HSCB	ENSG00000100209	ENST00000483861	processed_transcript	KNOWN	None	28913	None	None	29138667	29153198	1	None	HSC20, DNAJC20, Jac1
22	HSCB	ENSG00000100209	ENST00000495977	processed_transcript	KNOWN	None	28913	None	None	29138689	29153498	1	None	HSC20, DNAJC20, Jac1
22	IGLC5	ENSG00000254030	ENST00000519670	IG_C_pseudogene	KNOWN	None	5859	None	None	23257805	23258097	1	IGLC	None
3	ABHD14A	ENSG00000248487	ENST00000497864	protein_coding	PUTATIVE	None	24538	674	223	52005442	52014490	1	None	DKFZP564O243, DORZ1
3	ABHD14A	ENSG00000248487	ENST00000494478	protein_coding	PUTATIVE	None	24538	458	151	52007700	52014484	1	None	DKFZP564O243, DORZ1
3	ABHD14A	ENSG00000248487	ENST00000273596	protein_coding	KNOWN	CCDS2843	24538	816	271	52009084	52015212	1	None	DKFZP564O243, DORZ1
3	ABHD14A	ENSG00000248487	ENST00000474575	retained_intron	KNOWN	None	24538	None	None	52009118	52013023	1	None	DKFZP564O243, DORZ1
3	ABHD14A	ENSG00000248487	ENST00000491470	protein_coding	PUTATIVE	None	24538	375	124	52009119	52015211	1	None	DKFZP564O243, DORZ1
2	None	ENSG00000230154	ENST00000456674	processed_pseudogene	KNOWN	None	None	None	None	11448151	11449067	1	None	None
22	IGLC6	ENSG00000222037	ENST00000410078	IG_C_pseudogene	KNOWN	None	5860	None	None	23261707	23262023	1	IGLC	None
5	None	ENSG00000249878	ENST00000506094	processed_pseudogene	KNOWN	None	None	None	None	61127774	61128851	-1	None	None
2	None	ENSG00000226961	ENST00000433548	processed_pseudogene	KNOWN	None	None	None	None	11491753	11492244	1	None	None
2	None	ENSG00000226961	ENST00000545442	processed_pseudogene	KNOWN	None	None	None	None	11491753	11492250	1	None	None
22	None	ENSG00000237472	ENST00000415639	processed_pseudogene	KNOWN	None	None	None	None	23330438	23330756	1	None	None
5	None	ENSG00000248199	ENST00000511474	lincRNA	KNOWN	None	None	None	None	61173936	61181956	1	None	None
14	OR6J1	ENSG00000255804	ENST00000540461	protein_coding	KNOWN	None	14707	1044	347	23102673	23103716	-1	OR6J2, OR6J1P	None
5	RN7SKP157	ENSG00000251983	ENST00000516174	misc_RNA	KNOWN	None	45881	None	None	61442492	61442773	1	None	None
2	None	ENSG00000230952	ENST00000430897	lincRNA	KNOWN	None	None	None	None	11497641	11505762	-1	None	None
5	RNU6-661P	ENSG00000199279	ENST00000362409	snRNA	KNOWN	None	47624	None	None	61739003	61739109	1	None	None
14	POTEM	ENSG00000187537	ENST00000551509	protein_coding	NOVEL	CCDS45076	37096	1527	508	19983559	20020272	-1	None	POTE14beta, P704P, ACT
14	POTEM	ENSG00000187537	ENST00000547848	nonsense_mediated_decay	KNOWN	None	37096	1461	486	19988694	20020272	-1	None	POTE14beta, P704P, ACT
14	POTEM	ENSG00000187537	ENST00000547722	nonsense_mediated_decay	KNOWN	None	37096	969	322	19988803	20020272	-1	None	POTE14beta, P704P, ACT
22	None	ENSG00000223679	ENST00000420944	unprocessed_pseudogene	KNOWN	None	None	None	None	23332865	23350523	1	None	None
5	MEF2C-AS1	ENSG00000248309	ENST00000511100	antisense	KNOWN	None	48908	None	None	88179145	88328110	1	None	None
5	MEF2C-AS1	ENSG00000248309	ENST00000514794	antisense	KNOWN	None	48908	None	None	88179216	88239031	1	None	None
5	MEF2C-AS1	ENSG00000248309	ENST00000512585	antisense	KNOWN	None	48908	None	None	88179234	88600988	1	None	None
5	MEF2C-AS1	ENSG00000248309	ENST00000513704	antisense	KNOWN	None	48908	None	None	88185125	88239160	1	None	None
5	MEF2C-AS1	ENSG00000248309	ENST00000514011	antisense	KNOWN	None	48908	None	None	88185152	88263096	1	None	None
5	MEF2C-AS1	ENSG00000248309	ENST00000509179	antisense	KNOWN	None	48908	None	None	88185191	88261689	1	None	None
5	MEF2C-AS1	ENSG00000248309	ENST00000514092	antisense	KNOWN	None	48908	None	None	88185262	88761799	1	None	None
5	MEF2C-AS1	ENSG00000248309	ENST00000511876	antisense	KNOWN	None	48908	None	None	88185268	88201087	1	None	None
5	MEF2C-AS1	ENSG00000248309	ENST00000508718	antisense	KNOWN	None	48908	None	None	88185271	88239115	1	None	None
5	MEF2C-AS1	ENSG00000248309	ENST00000514158	antisense	KNOWN	None	48908	None	None	88185277	88237187	1	None	None
5	MEF2C-AS1	ENSG00000248309	ENST00000506665	antisense	KNOWN	None	48908	None	None	88188074	88261713	1	None	None
5	MEF2C-AS1	ENSG00000248309	ENST00000508521	antisense	KNOWN	None	48908	None	None	88238904	88371148	1	None	None
5	MEF2C-AS1	ENSG00000248309	ENST00000514571	antisense	KNOWN	None	48908	None	None	88261692	88464485	1	None	None
5	MEF2C-AS1	ENSG00000248309	ENST00000508742	antisense	KNOWN	None	48908	None	None	88714624	88762215	1	None	None
2	None	ENSG00000231403	ENST00000454489	lincRNA	KNOWN	None	None	None	None	11528149	11530493	-1	None	None
22	None	ENSG00000272019	ENST00000606537	misc_RNA	NOVEL	None	None	None	None	23474919	23475192	-1	None	None
2	PLEKHB2	ENSG00000115762	ENST00000409158	protein_coding	NOVEL	CCDS58730	19236	693	230	131862420	131905370	1	None	EVT2, FLJ20783
2	PLEKHB2	ENSG00000115762	ENST00000234115	protein_coding	KNOWN	CCDS2166	19236	666	221	131862517	131907420	1	None	EVT2, FLJ20783
2	PLEKHB2	ENSG00000115762	ENST00000487980	processed_transcript	PUTATIVE	None	19236	None	None	131862902	131865563	1	None	EVT2, FLJ20783
2	PLEKHB2	ENSG00000115762	ENST00000482225	retained_intron	KNOWN	None	19236	None	None	131862902	131884632	1	None	EVT2, FLJ20783
2	PLEKHB2	ENSG00000115762	ENST00000404460	protein_coding	KNOWN	None	19236	930	309	131862926	132111282	1	None	EVT2, FLJ20783
2	PLEKHB2	ENSG00000115762	ENST00000409612	protein_coding	NOVEL	CCDS46413	19236	669	222	131865129	131905370	1	None	EVT2, FLJ20783
2	PLEKHB2	ENSG00000115762	ENST00000409279	protein_coding	KNOWN	CCDS46413	19236	669	222	131876464	131905370	1	None	EVT2, FLJ20783
2	PLEKHB2	ENSG00000115762	ENST00000303908	protein_coding	KNOWN	None	19236	930	309	131878515	132111099	1	None	EVT2, FLJ20783
2	PLEKHB2	ENSG00000115762	ENST00000403716	protein_coding	KNOWN	CCDS46413	19236	669	222	131862420	131907424	1	None	EVT2, FLJ20783
2	PLEKHB2	ENSG00000115762	ENST00000439822	protein_coding	KNOWN	CCDS58731	19236	513	170	131862875	131905002	1	None	EVT2, FLJ20783
2	PLEKHB2	ENSG00000115762	ENST00000438882	protein_coding	KNOWN	CCDS58729	19236	537	178	131862909	131905175	1	None	EVT2, FLJ20783
2	PLEKHB2	ENSG00000115762	ENST00000538982	protein_coding	KNOWN	None	19236	525	174	131862911	131904761	1	None	EVT2, FLJ20783
22	None	ENSG00000221069	ENST00000408142	miRNA	NOVEL	None	None	None	None	23478807	23478897	1	None	None
19	PSG2	ENSG00000242221	ENST00000406487	protein_coding	KNOWN	CCDS12616	9519	1008	335	43568363	43586820	-1	PSBG2	PSGGB, PSG1, CEA
19	PSG2	ENSG00000242221	ENST00000329509	protein_coding	KNOWN	None	9519	353	116	43569641	43579559	-1	PSBG2	PSGGB, PSG1, CEA
19	PSG2	ENSG00000242221	ENST00000593482	processed_transcript	KNOWN	None	9519	None	None	43575923	43587197	-1	PSBG2	PSGGB, PSG1, CEA
19	PSG2	ENSG00000242221	ENST00000491995	processed_transcript	KNOWN	None	9519	None	None	43585939	43586820	-1	PSBG2	PSGGB, PSG1, CEA
19	ZNF253	ENSG00000256771	ENST00000592725	protein_coding	PUTATIVE	None	13497	644	213	19976695	20002892	1	ZNF411	BMZF-1, FLJ90391
19	ZNF253	ENSG00000256771	ENST00000589717	protein_coding	KNOWN	CCDS42532	13497	1500	499	19976714	20005483	1	ZNF411	BMZF-1, FLJ90391
19	ZNF253	ENSG00000256771	ENST00000355650	protein_coding	PUTATIVE	None	13497	1272	423	19976716	20004457	1	ZNF411	BMZF-1, FLJ90391
19	ZNF253	ENSG00000256771	ENST00000589668	retained_intron	KNOWN	None	13497	None	None	19976727	19989504	1	ZNF411	BMZF-1, FLJ90391
2	LINC00570	ENSG00000224177	ENST00000417473	lincRNA	KNOWN	None	43717	None	None	11534107	11543203	1	None	ncRNA-a5
2	LINC00570	ENSG00000224177	ENST00000437795	lincRNA	KNOWN	None	43717	None	None	11539128	11542234	1	None	ncRNA-a5
2	LINC00570	ENSG00000224177	ENST00000453100	lincRNA	KNOWN	None	43717	None	None	11539180	11542384	1	None	ncRNA-a5
2	LINC00570	ENSG00000224177	ENST00000432665	lincRNA	KNOWN	None	43717	None	None	11539295	11542387	1	None	ncRNA-a5
22	BCRP8	ENSG00000236794	ENST00000412037	processed_pseudogene	KNOWN	None	39076	None	None	23522105	23522359	-1	None	None
22	BCRP8	ENSG00000236794	ENST00000593306	processed_pseudogene	KNOWN	None	39076	None	None	23522058	23522465	-1	None	None
17	C17orf104	ENSG00000180336	ENST00000425535	protein_coding	PUTATIVE	None	26670	215	70	42733772	42739758	1	None	FLJ35848
17	C17orf104	ENSG00000180336	ENST00000409122	protein_coding	KNOWN	CCDS45703	26670	2859	952	42733840	42753167	1	None	FLJ35848
17	C17orf104	ENSG00000180336	ENST00000432494	protein_coding	KNOWN	None	26670	490	162	42742472	42744267	1	None	FLJ35848
17	C17orf104	ENSG00000180336	ENST00000456912	protein_coding	KNOWN	None	26670	388	128	42742480	42744165	1	None	FLJ35848
17	C17orf104	ENSG00000180336	ENST00000409464	protein_coding	KNOWN	None	26670	1980	659	42742486	42748588	1	None	FLJ35848
17	C17orf104	ENSG00000180336	ENST00000472403	nonsense_mediated_decay	KNOWN	None	26670	453	150	42745590	42767676	1	None	FLJ35848
17	C17orf104	ENSG00000180336	ENST00000588805	processed_transcript	KNOWN	None	26670	None	None	42754335	42765137	1	None	FLJ35848
17	C17orf104	ENSG00000180336	ENST00000359945	protein_coding	KNOWN	None	26670	2478	825	42733762	42746906	1	None	FLJ35848
X	None	ENSG00000227302	ENST00000417503	unprocessed_pseudogene	KNOWN	None	None	None	None	48181784	48186118	1	None	None
2	RNA5SP84	ENSG00000201610	ENST00000364740	rRNA	KNOWN	None	42882	None	None	11657523	11657629	1	RN5S84	None
9	PBX3	ENSG00000167081	ENST00000342287	protein_coding	KNOWN	None	8634	1056	351	128509624	128729656	1	None	None
9	PBX3	ENSG00000167081	ENST00000497091	processed_transcript	KNOWN	None	8634	None	None	128509653	128559744	1	None	None
9	PBX3	ENSG00000167081	ENST00000373487	protein_coding	NOVEL	None	8634	1368	455	128509653	128729656	1	None	None
9	PBX3	ENSG00000167081	ENST00000373489	protein_coding	KNOWN	CCDS6865	8634	1305	434	128509717	128729383	1	None	None
9	PBX3	ENSG00000167081	ENST00000373492	nonsense_mediated_decay	KNOWN	None	8634	282	93	128509733	128728202	1	None	None
9	PBX3	ENSG00000167081	ENST00000373482	nonsense_mediated_decay	KNOWN	None	8634	282	93	128509733	128728269	1	None	None
9	PBX3	ENSG00000167081	ENST00000491787	protein_coding	KNOWN	None	8634	482	159	128510461	128692124	1	None	None
9	PBX3	ENSG00000167081	ENST00000447726	protein_coding	KNOWN	CCDS48021	8634	1080	359	128510478	128728590	1	None	None
9	PBX3	ENSG00000167081	ENST00000492314	retained_intron	KNOWN	None	8634	None	None	128511210	128511816	1	None	None
9	PBX3	ENSG00000167081	ENST00000538998	processed_transcript	KNOWN	None	8634	None	None	128605992	128728219	1	None	None
9	PBX3	ENSG00000167081	ENST00000491160	processed_transcript	KNOWN	None	8634	None	None	128606014	128678148	1	None	None
9	PBX3	ENSG00000167081	ENST00000428092	protein_coding	NOVEL	None	8634	528	175	128627550	128697810	1	None	None
9	PBX3	ENSG00000167081	ENST00000373483	protein_coding	KNOWN	None	8634	762	253	128509733	128728202	1	None	None
2	MIR4429	ENSG00000264010	ENST00000580105	miRNA	KNOWN	None	41579	None	None	11680731	11680803	-1	None	hsa-mir-4429
2	RNU2-13P	ENSG00000251718	ENST00000515909	snRNA	KNOWN	None	48506	None	None	11701320	11701432	1	None	None
4	HTT-AS1	ENSG00000251075	ENST00000503893	antisense	KNOWN	None	37118	None	None	3065198	3076241	-1	HTT-AS1	HTTAS
2	RNA5SP85	ENSG00000202248	ENST00000365378	rRNA	KNOWN	None	42883	None	None	11701787	11701905	-1	RN5S85	None
4	SCD5	ENSG00000145284	ENST00000319540	protein_coding	KNOWN	CCDS34024	21088	993	330	83550692	83720010	-1	SCD4	ACOD4, FLJ21032, FADS4, HSCD5
4	SCD5	ENSG00000145284	ENST00000273908	protein_coding	KNOWN	CCDS3595	21088	771	256	83581040	83719925	-1	SCD4	ACOD4, FLJ21032, FADS4, HSCD5
4	SCD5	ENSG00000145284	ENST00000282709	protein_coding	KNOWN	None	21088	399	132	83615840	83719909	-1	SCD4	ACOD4, FLJ21032, FADS4, HSCD5
2	RN7SL674P	ENSG00000239899	ENST00000463397	misc_RNA	KNOWN	None	46690	None	None	11724899	11725176	1	None	None
4	None	ENSG00000248840	ENST00000510094	transcribed_processed_pseudogene	KNOWN	None	None	None	None	3314239	3314562	1	None	None
4	None	ENSG00000248840	ENST00000600073	processed_transcript	KNOWN	None	None	None	None	3314544	3314785	1	None	None
2	None	ENSG00000265583	ENST00000581704	miRNA	NOVEL	None	None	None	None	11747530	11747631	1	None	None
10	AS3MT	ENSG00000214435	ENST00000369880	protein_coding	KNOWN	CCDS41567	17452	1128	375	104629273	104661656	1	None	CYT19
8	IDO1	ENSG00000131203	ENST00000518804	protein_coding	KNOWN	None	6059	234	77	39759794	39775657	1	IDO, INDO	None
8	IDO1	ENSG00000131203	ENST00000519154	protein_coding	KNOWN	None	6059	540	179	39759890	39780173	1	IDO, INDO	None
8	IDO1	ENSG00000131203	ENST00000522495	protein_coding	KNOWN	CCDS47847	6059	1212	403	39759894	39785945	1	IDO, INDO	None
8	IDO1	ENSG00000131203	ENST00000522840	protein_coding	KNOWN	None	6059	142	46	39759899	39775448	1	IDO, INDO	None
8	IDO1	ENSG00000131203	ENST00000518237	protein_coding	KNOWN	CCDS47847	6059	1212	403	39770803	39785950	1	IDO, INDO	None
8	IDO1	ENSG00000131203	ENST00000253513	nonsense_mediated_decay	KNOWN	None	6059	513	170	39771388	39785963	1	IDO, INDO	None
8	IDO1	ENSG00000131203	ENST00000521636	retained_intron	KNOWN	None	6059	None	None	39775404	39780430	1	IDO, INDO	None
8	IDO1	ENSG00000131203	ENST00000521480	retained_intron	KNOWN	None	6059	None	None	39780071	39781450	1	IDO, INDO	None
8	IDO1	ENSG00000131203	ENST00000523779	retained_intron	KNOWN	None	6059	None	None	39782239	39785657	1	IDO, INDO	None
2	None	ENSG00000230044	ENST00000399740	processed_pseudogene	KNOWN	None	None	None	None	11805495	11806095	-1	None	None
4	None	ENSG00000248843	ENST00000513434	processed_pseudogene	KNOWN	None	None	None	None	3325704	3326489	-1	None	None
10	None	ENSG00000226990	ENST00000413286	lincRNA	KNOWN	None	None	None	None	8442823	8503826	1	None	None
10	None	ENSG00000271251	ENST00000603398	processed_pseudogene	KNOWN	None	None	None	None	8514682	8514915	1	None	None
1	AMY1C	ENSG00000187733	ENST00000370079	protein_coding	KNOWN	CCDS30784	476	1536	511	104293028	104301312	1	AMY1	None
10	KRT8P37	ENSG00000213771	ENST00000451609	processed_pseudogene	KNOWN	None	39871	None	None	8555650	8557069	-1	None	None
11	EXT2	ENSG00000151348	ENST00000533608	protein_coding	KNOWN	CCDS7908	3513	2157	718	44117099	44266482	1	None	SOTV
11	EXT2	ENSG00000151348	ENST00000532479	protein_coding	KNOWN	None	3513	147	48	44117223	44129409	1	None	SOTV
11	EXT2	ENSG00000151348	ENST00000527014	protein_coding	KNOWN	None	3513	337	111	44117229	44129599	1	None	SOTV
11	EXT2	ENSG00000151348	ENST00000358681	protein_coding	KNOWN	CCDS53619	3513	2187	728	44117267	44266481	1	None	SOTV
11	EXT2	ENSG00000151348	ENST00000343631	protein_coding	KNOWN	CCDS7908	3513	2157	718	44117773	44266975	1	None	SOTV
11	EXT2	ENSG00000151348	ENST00000529186	processed_transcript	KNOWN	None	3513	None	None	44129565	44138389	1	None	SOTV
11	EXT2	ENSG00000151348	ENST00000531161	processed_transcript	KNOWN	None	3513	None	None	44146419	44254000	1	None	SOTV
11	EXT2	ENSG00000151348	ENST00000525559	retained_intron	KNOWN	None	3513	None	None	44148453	44193461	1	None	SOTV
11	EXT2	ENSG00000151348	ENST00000534048	retained_intron	KNOWN	None	3513	None	None	44151593	44219670	1	None	SOTV
11	EXT2	ENSG00000151348	ENST00000528159	processed_transcript	KNOWN	None	3513	None	None	44228415	44265851	1	None	SOTV
11	EXT2	ENSG00000151348	ENST00000395673	protein_coding	KNOWN	CCDS53618	3513	2256	751	44117747	44266979	1	None	SOTV
Y	RBMY1D	ENSG00000244395	ENST00000382653	nonsense_mediated_decay	KNOWN	None	23915	246	81	24026223	24040648	-1	None	None
Y	RBMY1D	ENSG00000244395	ENST00000382680	protein_coding	KNOWN	CCDS35480	23915	1491	496	24026223	24040673	-1	None	None
Y	RBMY1D	ENSG00000244395	ENST00000382677	protein_coding	KNOWN	CCDS35480	23915	1491	496	24026223	24038660	-1	None	None
Y	RBMY1D	ENSG00000244395	ENST00000418956	protein_coding	KNOWN	None	23915	1380	459	24026455	24040586	-1	None	None
14	ZBTB42	ENSG00000179627	ENST00000555360	protein_coding	KNOWN	CCDS45174	32550	1269	422	105266933	105268823	1	None	ZNF925
14	ZBTB42	ENSG00000179627	ENST00000342537	protein_coding	KNOWN	CCDS45174	32550	1269	422	105267250	105271049	1	None	ZNF925
2	None	ENSG00000228496	ENST00000455754	sense_intronic	KNOWN	None	None	None	None	11821586	11823449	1	None	None
2	None	ENSG00000228496	ENST00000435175	sense_intronic	KNOWN	None	None	None	None	11821587	11823454	1	None	None
5	None	ENSG00000241991	ENST00000461396	processed_pseudogene	KNOWN	None	None	None	None	61857686	61858043	-1	None	None
X	XKRX	ENSG00000182489	ENST00000372956	protein_coding	KNOWN	CCDS14476	29845	1350	449	100168434	100183898	-1	None	XPLAC, XKR2
X	XKRX	ENSG00000182489	ENST00000468904	protein_coding	PUTATIVE	None	29845	420	139	100169288	100184422	-1	None	XPLAC, XKR2
X	XKRX	ENSG00000182489	ENST00000328526	protein_coding	KNOWN	None	29845	1389	462	100168431	100183898	-1	None	XPLAC, XKR2
7	NCF1C	ENSG00000165178	ENST00000438382	unprocessed_pseudogene	KNOWN	None	32523	None	None	74572445	74587848	-1	None	SH3PXD1C
7	NCF1C	ENSG00000165178	ENST00000297905	unprocessed_pseudogene	KNOWN	None	32523	None	None	74572446	74587817	-1	None	SH3PXD1C
7	NCF1C	ENSG00000165178	ENST00000419670	unprocessed_pseudogene	KNOWN	None	32523	None	None	74578180	74587768	-1	None	SH3PXD1C
7	NCF1C	ENSG00000165178	ENST00000536284	unprocessed_pseudogene	KNOWN	None	32523	None	None	74576546	74587769	-1	None	SH3PXD1C
13	EFNB2	ENSG00000125266	ENST00000245323	protein_coding	KNOWN	CCDS9507	3227	1002	333	107142079	107187462	-1	EPLG5	LERK5, Htk-L, HTKL, MGC126226, MGC126227, MGC126228
11	SLC3A2	ENSG00000168003	ENST00000377890	protein_coding	KNOWN	CCDS8039	11026	1893	630	62623574	62656265	1	MDU1	4T2HC, 4F2, NACAE, CD98, CD98HC, 4F2HC
11	SLC3A2	ENSG00000168003	ENST00000377891	protein_coding	KNOWN	CCDS31588	11026	1896	631	62623583	62656332	1	MDU1	4T2HC, 4F2, NACAE, CD98, CD98HC, 4F2HC
11	SLC3A2	ENSG00000168003	ENST00000377889	protein_coding	KNOWN	CCDS31589	11026	1707	568	62623616	62656325	1	MDU1	4T2HC, 4F2, NACAE, CD98, CD98HC, 4F2HC
11	SLC3A2	ENSG00000168003	ENST00000535296	protein_coding	NOVEL	None	11026	1800	599	62623640	62656347	1	MDU1	4T2HC, 4F2, NACAE, CD98, CD98HC, 4F2HC
11	SLC3A2	ENSG00000168003	ENST00000538084	protein_coding	NOVEL	None	11026	741	246	62638286	62649466	1	MDU1	4T2HC, 4F2, NACAE, CD98, CD98HC, 4F2HC
11	SLC3A2	ENSG00000168003	ENST00000544377	protein_coding	KNOWN	None	11026	405	134	62647894	62648900	1	MDU1	4T2HC, 4F2, NACAE, CD98, CD98HC, 4F2HC
11	SLC3A2	ENSG00000168003	ENST00000338663	protein_coding	KNOWN	CCDS31590	11026	1590	529	62648344	62656327	1	MDU1	4T2HC, 4F2, NACAE, CD98, CD98HC, 4F2HC
11	SLC3A2	ENSG00000168003	ENST00000541372	protein_coding	NOVEL	None	11026	141	46	62648368	62648762	1	MDU1	4T2HC, 4F2, NACAE, CD98, CD98HC, 4F2HC
11	SLC3A2	ENSG00000168003	ENST00000539458	protein_coding	NOVEL	None	11026	437	144	62648368	62649509	1	MDU1	4T2HC, 4F2, NACAE, CD98, CD98HC, 4F2HC
11	SLC3A2	ENSG00000168003	ENST00000537508	processed_transcript	KNOWN	None	11026	None	None	62649140	62652786	1	MDU1	4T2HC, 4F2, NACAE, CD98, CD98HC, 4F2HC
11	SLC3A2	ENSG00000168003	ENST00000541649	retained_intron	KNOWN	None	11026	None	None	62649170	62649858	1	MDU1	4T2HC, 4F2, NACAE, CD98, CD98HC, 4F2HC
11	SLC3A2	ENSG00000168003	ENST00000537839	processed_transcript	KNOWN	None	11026	None	None	62649171	62651470	1	MDU1	4T2HC, 4F2, NACAE, CD98, CD98HC, 4F2HC
11	SLC3A2	ENSG00000168003	ENST00000539891	protein_coding	PUTATIVE	None	11026	203	66	62649171	62655840	1	MDU1	4T2HC, 4F2, NACAE, CD98, CD98HC, 4F2HC
11	SLC3A2	ENSG00000168003	ENST00000538682	processed_transcript	KNOWN	None	11026	None	None	62649181	62655927	1	MDU1	4T2HC, 4F2, NACAE, CD98, CD98HC, 4F2HC
11	SLC3A2	ENSG00000168003	ENST00000546253	processed_transcript	KNOWN	None	11026	None	None	62649194	62651984	1	MDU1	4T2HC, 4F2, NACAE, CD98, CD98HC, 4F2HC
11	SLC3A2	ENSG00000168003	ENST00000536981	protein_coding	PUTATIVE	None	11026	528	175	62649197	62656317	1	MDU1	4T2HC, 4F2, NACAE, CD98, CD98HC, 4F2HC
11	SLC3A2	ENSG00000168003	ENST00000457660	processed_transcript	KNOWN	None	11026	None	None	62649277	62653998	1	MDU1	4T2HC, 4F2, NACAE, CD98, CD98HC, 4F2HC
11	SLC3A2	ENSG00000168003	ENST00000546312	retained_intron	KNOWN	None	11026	None	None	62650247	62652859	1	MDU1	4T2HC, 4F2, NACAE, CD98, CD98HC, 4F2HC
11	SLC3A2	ENSG00000168003	ENST00000541425	nonsense_mediated_decay	KNOWN	None	11026	75	24	62650433	62653059	1	MDU1	4T2HC, 4F2, NACAE, CD98, CD98HC, 4F2HC
11	SLC3A2	ENSG00000168003	ENST00000542922	retained_intron	KNOWN	None	11026	None	None	62650820	62656330	1	MDU1	4T2HC, 4F2, NACAE, CD98, CD98HC, 4F2HC
11	SLC3A2	ENSG00000168003	ENST00000535768	retained_intron	KNOWN	None	11026	None	None	62651927	62655641	1	MDU1	4T2HC, 4F2, NACAE, CD98, CD98HC, 4F2HC
11	SLC3A2	ENSG00000168003	ENST00000539507	protein_coding	NOVEL	None	11026	367	121	62652649	62656332	1	MDU1	4T2HC, 4F2, NACAE, CD98, CD98HC, 4F2HC
11	SLC3A2	ENSG00000168003	ENST00000542793	retained_intron	KNOWN	None	11026	None	None	62655342	62655992	1	MDU1	4T2HC, 4F2, NACAE, CD98, CD98HC, 4F2HC
11	SLC3A2	ENSG00000168003	ENST00000377892	protein_coding	KNOWN	None	11026	1986	661	62623518	62656352	1	MDU1	4T2HC, 4F2, NACAE, CD98, CD98HC, 4F2HC
1	KIAA0040	ENSG00000235750	ENST00000423313	protein_coding	KNOWN	None	28950	300	99	175126123	175161929	-1	None	None
1	KIAA0040	ENSG00000235750	ENST00000444639	protein_coding	KNOWN	None	28950	300	99	175126123	175162079	-1	None	None
1	KIAA0040	ENSG00000235750	ENST00000545251	protein_coding	KNOWN	None	28950	300	99	175128089	175161890	-1	None	None
1	KIAA0040	ENSG00000235750	ENST00000567124	processed_transcript	KNOWN	None	28950	None	None	175130163	175161911	-1	None	None
1	KIAA0040	ENSG00000235750	ENST00000563563	processed_transcript	KNOWN	None	28950	None	None	175130180	175162135	-1	None	None
19	ZNF284	ENSG00000186026	ENST00000421176	protein_coding	KNOWN	CCDS46099	13078	1782	593	44576297	44593766	1	None	DKFZp781F1775
1	ZNF683	ENSG00000176083	ENST00000403843	protein_coding	KNOWN	None	28495	1575	524	26688125	26699226	-1	None	MGC33414
1	ZNF683	ENSG00000176083	ENST00000349618	protein_coding	KNOWN	CCDS279	28495	1515	504	26688128	26699226	-1	None	MGC33414
1	ZNF683	ENSG00000176083	ENST00000455900	protein_coding	PUTATIVE	None	28495	848	281	26691213	26701013	-1	None	MGC33414
1	ZNF683	ENSG00000176083	ENST00000451801	protein_coding	KNOWN	None	28495	809	268	26691228	26697236	-1	None	MGC33414
1	ZNF683	ENSG00000176083	ENST00000454975	protein_coding	PUTATIVE	None	28495	463	153	26691424	26697241	-1	None	MGC33414
1	ZNF683	ENSG00000176083	ENST00000453132	protein_coding	PUTATIVE	None	28495	367	121	26691465	26699235	-1	None	MGC33414
1	ZNF683	ENSG00000176083	ENST00000423508	protein_coding	PUTATIVE	None	28495	591	196	26691470	26699191	-1	None	MGC33414
1	ZNF683	ENSG00000176083	ENST00000416125	protein_coding	KNOWN	None	28495	566	187	26691471	26700943	-1	None	MGC33414
1	ZNF683	ENSG00000176083	ENST00000436292	protein_coding	KNOWN	None	28495	1575	524	26688126	26699266	-1	None	MGC33414
1	ZNF683	ENSG00000176083	ENST00000374204	protein_coding	KNOWN	CCDS279	28495	1515	504	26688126	26699266	-1	None	MGC33414
2	None	ENSG00000203643	ENST00000430048	antisense	KNOWN	None	None	None	None	11861745	11864348	-1	None	None
6	MYLIP	ENSG00000007944	ENST00000356840	protein_coding	KNOWN	CCDS4536	21155	1338	445	16129356	16147112	1	None	MIR, IDOL
6	MYLIP	ENSG00000007944	ENST00000349606	protein_coding	KNOWN	None	21155	795	264	16129402	16148479	1	None	MIR, IDOL
2	None	ENSG00000230790	ENST00000431500	antisense	KNOWN	None	None	None	None	11881123	11885427	-1	None	None
10	CHCHD3P1	ENSG00000236420	ENST00000425516	processed_pseudogene	KNOWN	None	44697	None	None	8661896	8662571	1	None	None
2	MIR548S	ENSG00000265056	ENST00000581352	miRNA	KNOWN	None	38354	None	None	11907570	11907651	1	None	hsa-mir-548s
2	MIR4262	ENSG00000265172	ENST00000578394	miRNA	KNOWN	None	38308	None	None	11977059	11977112	-1	None	hsa-mir-4262
10	RNA5SP299	ENSG00000212505	ENST00000391203	rRNA	KNOWN	None	43199	None	None	8698679	8698794	-1	RN5S299	None
13	None	ENSG00000269120	ENST00000595486	protein_coding	KNOWN	None	None	186	61	41111138	41111323	-1	None	None
10	None	ENSG00000270234	ENST00000605632	processed_pseudogene	KNOWN	None	None	None	None	8765973	8766251	1	None	None
11	GDPD5	ENSG00000158555	ENST00000526177	protein_coding	KNOWN	None	28804	1404	467	75145685	75163376	-1	None	PP1665, GDE2
11	GDPD5	ENSG00000158555	ENST00000527820	nonsense_mediated_decay	KNOWN	None	28804	408	135	75145685	75190448	-1	None	PP1665, GDE2
11	GDPD5	ENSG00000158555	ENST00000533784	protein_coding	KNOWN	None	28804	1461	486	75145685	75201334	-1	None	PP1665, GDE2
11	GDPD5	ENSG00000158555	ENST00000529721	protein_coding	KNOWN	CCDS8238	28804	1818	605	75145685	75201796	-1	None	PP1665, GDE2
11	GDPD5	ENSG00000158555	ENST00000336898	protein_coding	KNOWN	CCDS8238	28804	1818	605	75145685	75236948	-1	None	PP1665, GDE2
11	GDPD5	ENSG00000158555	ENST00000533805	protein_coding	KNOWN	None	28804	1083	360	75145686	75160985	-1	None	PP1665, GDE2
11	GDPD5	ENSG00000158555	ENST00000531759	retained_intron	KNOWN	None	28804	None	None	75145984	75149893	-1	None	PP1665, GDE2
11	GDPD5	ENSG00000158555	ENST00000534322	protein_coding	NOVEL	None	28804	527	174	75146610	75152767	-1	None	PP1665, GDE2
11	GDPD5	ENSG00000158555	ENST00000531561	retained_intron	KNOWN	None	28804	None	None	75152735	75153742	-1	None	PP1665, GDE2
11	GDPD5	ENSG00000158555	ENST00000527322	processed_transcript	KNOWN	None	28804	None	None	75153809	75168831	-1	None	PP1665, GDE2
11	GDPD5	ENSG00000158555	ENST00000533911	processed_transcript	KNOWN	None	28804	None	None	75154108	75160985	-1	None	PP1665, GDE2
11	GDPD5	ENSG00000158555	ENST00000528031	retained_intron	KNOWN	None	28804	None	None	75167587	75190362	-1	None	PP1665, GDE2
11	GDPD5	ENSG00000158555	ENST00000532435	protein_coding	KNOWN	None	28804	221	72	75173831	75236469	-1	None	PP1665, GDE2
11	GDPD5	ENSG00000158555	ENST00000529095	processed_transcript	KNOWN	None	28804	None	None	75196350	75236419	-1	None	PP1665, GDE2
11	GDPD5	ENSG00000158555	ENST00000524785	processed_transcript	PUTATIVE	None	28804	None	None	75227020	75236301	-1	None	PP1665, GDE2
11	GDPD5	ENSG00000158555	ENST00000531441	processed_transcript	PUTATIVE	None	28804	None	None	75236329	75236909	-1	None	PP1665, GDE2
11	GDPD5	ENSG00000158555	ENST00000376282	protein_coding	KNOWN	None	28804	1461	486	75145686	75236867	-1	None	PP1665, GDE2
11	GDPD5	ENSG00000158555	ENST00000443276	protein_coding	KNOWN	None	28804	408	135	75145686	75188896	-1	None	PP1665, GDE2
11	C11orf35	ENSG00000185522	ENST00000469990	retained_intron	KNOWN	None	28561	None	None	554855	556420	-1	None	MGC35138
11	C11orf35	ENSG00000185522	ENST00000329451	protein_coding	KNOWN	CCDS7701	28561	1905	634	554864	560779	-1	None	MGC35138
11	C11orf35	ENSG00000185522	ENST00000441853	protein_coding	PUTATIVE	None	28561	906	301	556926	560730	-1	None	MGC35138
11	C11orf35	ENSG00000185522	ENST00000486629	protein_coding	PUTATIVE	None	28561	743	246	557399	559382	-1	None	MGC35138
11	C11orf35	ENSG00000185522	ENST00000492515	retained_intron	KNOWN	None	28561	None	None	558476	560143	-1	None	MGC35138
2	None	ENSG00000224184	ENST00000429878	lincRNA	KNOWN	None	None	None	None	11988748	12006410	1	None	None
2	None	ENSG00000224184	ENST00000438292	lincRNA	KNOWN	None	None	None	None	12006011	12450085	1	None	None
2	None	ENSG00000224184	ENST00000451644	lincRNA	KNOWN	None	None	None	None	12147242	12271711	1	None	None
2	None	ENSG00000224184	ENST00000412294	lincRNA	KNOWN	None	None	None	None	12147254	12718474	1	None	None
2	None	ENSG00000224184	ENST00000450916	lincRNA	KNOWN	None	None	None	None	12147300	12223744	1	None	None
2	None	ENSG00000224184	ENST00000449986	lincRNA	KNOWN	None	None	None	None	12246710	12271674	1	None	None
2	None	ENSG00000224184	ENST00000412606	lincRNA	KNOWN	None	None	None	None	12454443	12701391	1	None	None
13	FOXO1	ENSG00000150907	ENST00000379561	protein_coding	KNOWN	CCDS9371	3819	1968	655	41129804	41240734	-1	FKHR, FOXO1A	FKH1
13	FOXO1	ENSG00000150907	ENST00000473775	processed_transcript	KNOWN	None	3819	None	None	41134896	41136901	-1	FKHR, FOXO1A	FKH1
19	GDF1	ENSG00000130283	ENST00000247005	protein_coding	KNOWN	CCDS42526	4214	1119	372	18979361	19006905	-1	None	None
19	PDE4C	ENSG00000105650	ENST00000355502	protein_coding	KNOWN	CCDS12373	8782	2139	712	18318771	18366229	-1	DPDE1	None
19	PDE4C	ENSG00000105650	ENST00000447275	protein_coding	KNOWN	CCDS46016	8782	1821	606	18321354	18335303	-1	DPDE1	None
19	PDE4C	ENSG00000105650	ENST00000597360	retained_intron	KNOWN	None	8782	None	None	18321362	18344195	-1	DPDE1	None
19	PDE4C	ENSG00000105650	ENST00000594617	protein_coding	KNOWN	CCDS12373	8782	2139	712	18321371	18359010	-1	DPDE1	None
19	PDE4C	ENSG00000105650	ENST00000599188	nonsense_mediated_decay	KNOWN	None	8782	696	231	18321641	18337235	-1	DPDE1	None
19	PDE4C	ENSG00000105650	ENST00000594465	protein_coding	KNOWN	CCDS12373	8782	2139	712	18321641	18344481	-1	DPDE1	None
19	PDE4C	ENSG00000105650	ENST00000262805	protein_coding	KNOWN	CCDS42523	8782	2043	680	18321685	18337285	-1	DPDE1	None
19	PDE4C	ENSG00000105650	ENST00000598111	nonsense_mediated_decay	KNOWN	None	8782	34	10	18321739	18331932	-1	DPDE1	None
19	PDE4C	ENSG00000105650	ENST00000597297	retained_intron	KNOWN	None	8782	None	None	18321739	18332042	-1	DPDE1	None
19	PDE4C	ENSG00000105650	ENST00000595343	nonsense_mediated_decay	KNOWN	None	8782	208	68	18331047	18331945	-1	DPDE1	None
19	PDE4C	ENSG00000105650	ENST00000593594	nonsense_mediated_decay	KNOWN	None	8782	244	80	18331047	18331945	-1	DPDE1	None
19	PDE4C	ENSG00000105650	ENST00000597573	retained_intron	KNOWN	None	8782	None	None	18331079	18331945	-1	DPDE1	None
19	PDE4C	ENSG00000105650	ENST00000599754	protein_coding	KNOWN	None	8782	280	92	18333096	18345066	-1	DPDE1	None
19	PDE4C	ENSG00000105650	ENST00000596647	processed_transcript	KNOWN	None	8782	None	None	18360760	18366161	-1	DPDE1	None
19	PDE4C	ENSG00000105650	ENST00000600667	retained_intron	KNOWN	None	8782	None	None	18360957	18363242	-1	DPDE1	None
19	PDE4C	ENSG00000105650	ENST00000539010	protein_coding	KNOWN	None	8782	1446	481	18321641	18331971	-1	DPDE1	None
2	OTOF	ENSG00000115155	ENST00000338581	protein_coding	KNOWN	CCDS1726	8515	3693	1230	26680071	26700910	-1	DFNB9	FER1L2, DFNB6
2	OTOF	ENSG00000115155	ENST00000339598	protein_coding	KNOWN	CCDS1724	8515	3693	1230	26680071	26700910	-1	DFNB9	FER1L2, DFNB6
2	OTOF	ENSG00000115155	ENST00000402415	protein_coding	KNOWN	CCDS46241	8515	3924	1307	26680071	26700910	-1	DFNB9	FER1L2, DFNB6
2	OTOF	ENSG00000115155	ENST00000272371	protein_coding	KNOWN	CCDS1725	8515	5994	1997	26680071	26781566	-1	DFNB9	FER1L2, DFNB6
2	OTOF	ENSG00000115155	ENST00000403946	protein_coding	NOVEL	None	8515	5994	1997	26680072	26781546	-1	DFNB9	FER1L2, DFNB6
2	OTOF	ENSG00000115155	ENST00000464574	retained_intron	KNOWN	None	8515	None	None	26686374	26689193	-1	DFNB9	FER1L2, DFNB6
2	OTOF	ENSG00000115155	ENST00000426958	protein_coding	PUTATIVE	None	8515	424	140	26695200	26696409	-1	DFNB9	FER1L2, DFNB6
12	PCED1B	ENSG00000179715	ENST00000546455	protein_coding	KNOWN	CCDS8752	28255	1299	432	47473386	47630443	1	FAM113B	MGC16044
12	PCED1B	ENSG00000179715	ENST00000548348	protein_coding	PUTATIVE	None	28255	569	188	47610370	47629775	1	FAM113B	MGC16044
12	PCED1B	ENSG00000179715	ENST00000549500	protein_coding	KNOWN	None	28255	502	166	47610381	47629348	1	FAM113B	MGC16044
12	PCED1B	ENSG00000179715	ENST00000549630	protein_coding	KNOWN	None	28255	503	166	47617284	47629349	1	FAM113B	MGC16044
12	PCED1B	ENSG00000179715	ENST00000551777	protein_coding	KNOWN	None	28255	175	57	47617328	47629021	1	FAM113B	MGC16044
12	PCED1B	ENSG00000179715	ENST00000432328	protein_coding	KNOWN	CCDS8752	28255	1299	432	47610052	47630439	1	FAM113B	MGC16044
6	None	ENSG00000263378	ENST00000584443	miRNA	NOVEL	None	None	None	None	73972731	73972807	1	None	None
19	C19orf43	ENSG00000123144	ENST00000591254	nonsense_mediated_decay	KNOWN	None	28424	402	133	12841454	12845471	-1	None	MGC2803, fSAP18
19	C19orf43	ENSG00000123144	ENST00000592273	protein_coding	NOVEL	None	28424	453	150	12841454	12845480	-1	None	MGC2803, fSAP18
19	C19orf43	ENSG00000123144	ENST00000242784	protein_coding	KNOWN	CCDS12279	28424	531	176	12841454	12845589	-1	None	MGC2803, fSAP18
19	C19orf43	ENSG00000123144	ENST00000588213	protein_coding	PUTATIVE	None	28424	399	132	12841456	12845485	-1	None	MGC2803, fSAP18
19	C19orf43	ENSG00000123144	ENST00000589590	retained_intron	KNOWN	None	28424	None	None	12841463	12842667	-1	None	MGC2803, fSAP18
2	None	ENSG00000238503	ENST00000459604	snoRNA	NOVEL	None	None	None	None	12170429	12170498	-1	None	None
2	MIR3681	ENSG00000264089	ENST00000580089	miRNA	KNOWN	None	38994	None	None	12339256	12339327	1	None	hsa-mir-3681
6	None	ENSG00000229852	ENST00000442007	antisense	KNOWN	None	None	None	None	73972938	73986240	1	None	None
6	None	ENSG00000229852	ENST00000441363	antisense	KNOWN	None	None	None	None	73973082	74011124	1	None	None
6	None	ENSG00000229852	ENST00000421315	antisense	KNOWN	None	None	None	None	73977774	74001063	1	None	None
19	OR7H1P	ENSG00000226480	ENST00000448965	unprocessed_pseudogene	KNOWN	None	8468	None	None	9389124	9390045	-1	None	OR7H1
2	RNU6-843P	ENSG00000207183	ENST00000384454	snRNA	KNOWN	None	47806	None	None	12551524	12551627	-1	None	None
8	LZTS1	ENSG00000061337	ENST00000381569	protein_coding	KNOWN	CCDS6015	13861	1791	596	20103676	20161474	-1	None	FEZ1
8	LZTS1	ENSG00000061337	ENST00000522290	protein_coding	KNOWN	None	13861	1614	537	20107233	20112692	-1	None	FEZ1
8	LZTS1	ENSG00000061337	ENST00000265801	protein_coding	KNOWN	CCDS6015	13861	1791	596	20103676	20112803	-1	None	FEZ1
15	GABRB3	ENSG00000166206	ENST00000311550	protein_coding	KNOWN	CCDS10019	4083	1422	473	26788693	27018221	-1	None	None
15	GABRB3	ENSG00000166206	ENST00000541819	protein_coding	PUTATIVE	None	4083	1590	529	26788699	27184686	-1	None	None
15	GABRB3	ENSG00000166206	ENST00000299267	protein_coding	KNOWN	CCDS10018	4083	1422	473	26791319	27018935	-1	None	None
15	GABRB3	ENSG00000166206	ENST00000400188	protein_coding	KNOWN	CCDS53921	4083	1209	402	26792336	26874237	-1	None	None
15	GABRB3	ENSG00000166206	ENST00000555632	nonsense_mediated_decay	KNOWN	None	4083	264	87	26792403	27018161	-1	None	None
15	GABRB3	ENSG00000166206	ENST00000545868	protein_coding	KNOWN	CCDS53920	4083	1167	388	26792780	26961912	-1	None	None
15	GABRB3	ENSG00000166206	ENST00000554556	nonsense_mediated_decay	KNOWN	None	4083	318	105	26806216	27018204	-1	None	None
15	GABRB3	ENSG00000166206	ENST00000557765	retained_intron	KNOWN	None	4083	None	None	26806270	26825818	-1	None	None
15	GABRB3	ENSG00000166206	ENST00000555094	protein_coding	KNOWN	None	4083	415	137	26825478	27012383	-1	None	None
15	GABRB3	ENSG00000166206	ENST00000556636	nonsense_mediated_decay	KNOWN	None	4083	133	43	26860444	26866553	-1	None	None
15	GABRB3	ENSG00000166206	ENST00000556166	nonsense_mediated_decay	KNOWN	None	4083	246	81	26860444	26874325	-1	None	None
15	GABRB3	ENSG00000166206	ENST00000557641	processed_transcript	KNOWN	None	4083	None	None	26995082	27035447	-1	None	None
15	GABRB3	ENSG00000166206	ENST00000554722	processed_transcript	KNOWN	None	4083	None	None	27016966	27018898	-1	None	None
1	PRMT6	ENSG00000198890	ENST00000370078	protein_coding	KNOWN	CCDS41360	18241	1128	375	107599301	107601916	1	HRMT1L6	FLJ10559
1	PRMT6	ENSG00000198890	ENST00000361318	protein_coding	KNOWN	None	18241	951	316	107599267	107601905	1	HRMT1L6	FLJ10559
2	None	ENSG00000223360	ENST00000414086	lincRNA	KNOWN	None	None	None	None	12739113	12745271	1	None	None
19	None	ENSG00000267510	ENST00000591336	antisense	KNOWN	None	None	None	None	9402191	9405158	1	None	None
4	HNRNPA1P67	ENSG00000270665	ENST00000604027	processed_pseudogene	KNOWN	None	48797	None	None	73672984	73673909	1	None	None
17	NFE2L1	ENSG00000082641	ENST00000579889	protein_coding	KNOWN	None	7781	28	8	46125691	46128508	1	TCF11	NRF1, LCR-F1, FLJ00380
17	NFE2L1	ENSG00000082641	ENST00000584137	protein_coding	KNOWN	None	7781	248	81	46125721	46128728	1	TCF11	NRF1, LCR-F1, FLJ00380
17	NFE2L1	ENSG00000082641	ENST00000362042	protein_coding	KNOWN	CCDS11524	7781	2319	772	46125721	46138842	1	TCF11	NRF1, LCR-F1, FLJ00380
17	NFE2L1	ENSG00000082641	ENST00000585291	protein_coding	KNOWN	None	7781	2229	742	46125725	46138849	1	TCF11	NRF1, LCR-F1, FLJ00380
17	NFE2L1	ENSG00000082641	ENST00000357480	protein_coding	KNOWN	None	7781	2229	742	46125732	46138841	1	TCF11	NRF1, LCR-F1, FLJ00380
17	NFE2L1	ENSG00000082641	ENST00000585299	processed_transcript	KNOWN	None	7781	None	None	46125840	46128434	1	TCF11	NRF1, LCR-F1, FLJ00380
17	NFE2L1	ENSG00000082641	ENST00000583060	processed_transcript	KNOWN	None	7781	None	None	46125969	46128403	1	TCF11	NRF1, LCR-F1, FLJ00380
17	NFE2L1	ENSG00000082641	ENST00000361665	protein_coding	NOVEL	None	7781	2286	761	46126135	46138842	1	TCF11	NRF1, LCR-F1, FLJ00380
17	NFE2L1	ENSG00000082641	ENST00000579481	processed_transcript	KNOWN	None	7781	None	None	46126144	46128436	1	TCF11	NRF1, LCR-F1, FLJ00380
17	NFE2L1	ENSG00000082641	ENST00000582574	processed_transcript	KNOWN	None	7781	None	None	46126145	46128459	1	TCF11	NRF1, LCR-F1, FLJ00380
17	NFE2L1	ENSG00000082641	ENST00000585062	protein_coding	NOVEL	None	7781	298	98	46126146	46128778	1	TCF11	NRF1, LCR-F1, FLJ00380
17	NFE2L1	ENSG00000082641	ENST00000581441	protein_coding	KNOWN	None	7781	11	2	46126494	46128491	1	TCF11	NRF1, LCR-F1, FLJ00380
17	NFE2L1	ENSG00000082641	ENST00000579537	protein_coding	PUTATIVE	None	7781	191	62	46131690	46133806	1	TCF11	NRF1, LCR-F1, FLJ00380
17	NFE2L1	ENSG00000082641	ENST00000583210	protein_coding	PUTATIVE	None	7781	69	22	46131690	46135704	1	TCF11	NRF1, LCR-F1, FLJ00380
17	NFE2L1	ENSG00000082641	ENST00000577411	protein_coding	PUTATIVE	None	7781	188	61	46131843	46135823	1	TCF11	NRF1, LCR-F1, FLJ00380
17	NFE2L1	ENSG00000082641	ENST00000584634	protein_coding	PUTATIVE	None	7781	58	18	46131912	46135693	1	TCF11	NRF1, LCR-F1, FLJ00380
17	NFE2L1	ENSG00000082641	ENST00000580050	protein_coding	PUTATIVE	None	7781	335	110	46131949	46133950	1	TCF11	NRF1, LCR-F1, FLJ00380
17	NFE2L1	ENSG00000082641	ENST00000582155	protein_coding	PUTATIVE	None	7781	1755	584	46132037	46137195	1	TCF11	NRF1, LCR-F1, FLJ00380
17	NFE2L1	ENSG00000082641	ENST00000583378	protein_coding	PUTATIVE	None	7781	1722	573	46132054	46137298	1	TCF11	NRF1, LCR-F1, FLJ00380
17	NFE2L1	ENSG00000082641	ENST00000536222	protein_coding	PUTATIVE	None	7781	1851	616	46132072	46137015	1	TCF11	NRF1, LCR-F1, FLJ00380
17	NFE2L1	ENSG00000082641	ENST00000577431	protein_coding	PUTATIVE	None	7781	484	160	46132282	46135669	1	TCF11	NRF1, LCR-F1, FLJ00380
17	NFE2L1	ENSG00000082641	ENST00000580037	protein_coding	PUTATIVE	None	7781	143	46	46133314	46135778	1	TCF11	NRF1, LCR-F1, FLJ00380
17	NFE2L1	ENSG00000082641	ENST00000581319	protein_coding	PUTATIVE	None	7781	402	133	46136239	46137412	1	TCF11	NRF1, LCR-F1, FLJ00380
13	MRPS31	ENSG00000102738	ENST00000498078	processed_transcript	KNOWN	None	16632	None	None	41303432	41323749	-1	None	IMOGN38
13	MRPS31	ENSG00000102738	ENST00000323563	protein_coding	KNOWN	CCDS9372	16632	1188	395	41303440	41345309	-1	None	IMOGN38
13	MRPS31	ENSG00000102738	ENST00000461675	processed_transcript	KNOWN	None	16632	None	None	41303510	41326543	-1	None	IMOGN38
13	MRPS31	ENSG00000102738	ENST00000435009	processed_transcript	KNOWN	None	16632	None	None	41333138	41345079	-1	None	IMOGN38
19	None	ENSG00000266912	ENST00000592371	lincRNA	KNOWN	None	None	None	None	9455460	9456574	1	None	None
2	None	ENSG00000261117	ENST00000569860	lincRNA	KNOWN	None	None	None	None	12855541	12856353	1	None	None
4	RNU4ATAC9P	ENSG00000252955	ENST00000517146	snRNA	KNOWN	None	46895	None	None	73830895	73831020	1	None	None
4	RNU6ATAC5P	ENSG00000210839	ENST00000388104	snRNA	KNOWN	None	34095	None	None	73892465	73892590	1	None	None
19	None	ENSG00000270614	ENST00000604303	processed_pseudogene	KNOWN	None	None	None	None	9458782	9459379	-1	None	None
4	HMGA1P2	ENSG00000248641	ENST00000430198	processed_pseudogene	KNOWN	None	13322	None	None	73964539	73964862	1	HMGA1L2	HMGIYL2
2	MIR3125	ENSG00000264370	ENST00000579927	miRNA	KNOWN	None	38219	None	None	12877493	12877570	1	None	hsa-mir-3125
11	SNX15	ENSG00000110025	ENST00000301886	processed_transcript	KNOWN	None	14978	None	None	64781654	64808042	1	None	None
11	SNX15	ENSG00000110025	ENST00000377244	protein_coding	KNOWN	CCDS8089	14978	1029	342	64794880	64808044	1	None	None
11	SNX15	ENSG00000110025	ENST00000529673	nonsense_mediated_decay	KNOWN	None	14978	345	114	64794944	64802597	1	None	None
11	SNX15	ENSG00000110025	ENST00000534637	protein_coding	PUTATIVE	None	14978	652	216	64794958	64803135	1	None	None
11	SNX15	ENSG00000110025	ENST00000524831	protein_coding	NOVEL	None	14978	576	191	64794959	64803083	1	None	None
11	SNX15	ENSG00000110025	ENST00000352068	protein_coding	KNOWN	CCDS8090	14978	771	256	64795010	64807264	1	None	None
11	SNX15	ENSG00000110025	ENST00000526702	retained_intron	KNOWN	None	14978	None	None	64795012	64808042	1	None	None
11	SNX15	ENSG00000110025	ENST00000525648	protein_coding	NOVEL	None	14978	198	65	64795020	64802596	1	None	None
8	HSF1	ENSG00000185122	ENST00000528838	protein_coding	KNOWN	CCDS6419	5224	1590	529	145515280	145538385	1	None	HSTF1
8	HSF1	ENSG00000185122	ENST00000528988	processed_transcript	KNOWN	None	5224	None	None	145515287	145533280	1	None	HSTF1
8	HSF1	ENSG00000185122	ENST00000533240	protein_coding	PUTATIVE	None	5224	416	137	145516262	145535053	1	None	HSTF1
8	HSF1	ENSG00000185122	ENST00000400780	protein_coding	NOVEL	None	5224	1293	430	145532591	145538331	1	None	HSTF1
8	HSF1	ENSG00000185122	ENST00000532338	retained_intron	KNOWN	None	5224	None	None	145532720	145538382	1	None	HSTF1
8	HSF1	ENSG00000185122	ENST00000528199	processed_transcript	KNOWN	None	5224	None	None	145532882	145535068	1	None	HSTF1
8	HSF1	ENSG00000185122	ENST00000529630	processed_transcript	KNOWN	None	5224	None	None	145532955	145533780	1	None	HSTF1
8	HSF1	ENSG00000185122	ENST00000534314	processed_transcript	KNOWN	None	5224	None	None	145533144	145535777	1	None	HSTF1
8	HSF1	ENSG00000185122	ENST00000527328	retained_intron	KNOWN	None	5224	None	None	145534085	145538379	1	None	HSTF1
8	HSF1	ENSG00000185122	ENST00000531447	processed_transcript	KNOWN	None	5224	None	None	145534740	145535296	1	None	HSTF1
8	HSF1	ENSG00000185122	ENST00000533130	processed_transcript	KNOWN	None	5224	None	None	145534861	145535573	1	None	HSTF1
8	HSF1	ENSG00000185122	ENST00000530661	processed_transcript	KNOWN	None	5224	None	None	145535452	145537839	1	None	HSTF1
8	HSF1	ENSG00000185122	ENST00000528842	processed_transcript	PUTATIVE	None	5224	None	None	145536727	145537867	1	None	HSTF1
19	None	ENSG00000267273	ENST00000589751	lincRNA	KNOWN	None	None	None	None	9609354	9620755	1	None	None
9	None	ENSG00000232590	ENST00000422909	lincRNA	KNOWN	None	None	None	None	76188531	76194414	1	None	None
3	ACY1	ENSG00000243989	ENST00000496679	retained_intron	KNOWN	None	177	None	None	52017356	52018417	1	None	None
3	ACY1	ENSG00000243989	ENST00000491318	nonsense_mediated_decay	KNOWN	None	177	606	201	52017459	52023213	1	None	None
3	ACY1	ENSG00000243989	ENST00000476854	protein_coding	NOVEL	CCDS56262	177	1032	343	52017459	52023213	1	None	None
3	ACY1	ENSG00000243989	ENST00000476351	protein_coding	NOVEL	CCDS56263	177	1122	373	52017459	52023213	1	None	None
3	ACY1	ENSG00000243989	ENST00000494103	protein_coding	NOVEL	CCDS56261	177	1011	336	52017459	52023213	1	None	None
3	ACY1	ENSG00000243989	ENST00000404366	protein_coding	KNOWN	CCDS2844	177	1227	408	52017478	52023162	1	None	None
3	ACY1	ENSG00000243989	ENST00000465121	retained_intron	KNOWN	None	177	None	None	52017551	52022246	1	None	None
3	ACY1	ENSG00000243989	ENST00000469863	protein_coding	NOVEL	None	177	684	227	52017553	52021077	1	None	None
3	ACY1	ENSG00000243989	ENST00000468068	processed_transcript	KNOWN	None	177	None	None	52018861	52020297	1	None	None
3	ACY1	ENSG00000243989	ENST00000464587	processed_transcript	KNOWN	None	177	None	None	52020226	52021470	1	None	None
3	ACY1	ENSG00000243989	ENST00000490244	processed_transcript	KNOWN	None	177	None	None	52022318	52022996	1	None	None
3	ACY1	ENSG00000243989	ENST00000458031	protein_coding	KNOWN	None	177	1497	498	52009066	52023199	1	None	None
7	AKR1B10	ENSG00000198074	ENST00000359579	protein_coding	KNOWN	CCDS5832	382	951	316	134212344	134226160	1	AKR1B11	AKR1B12, ARL-1, HIS, ARL1, HSI, ALDRLn
7	AKR1B10	ENSG00000198074	ENST00000475559	processed_transcript	KNOWN	None	382	None	None	134212372	134221839	1	AKR1B11	AKR1B12, ARL-1, HIS, ARL1, HSI, ALDRLn
7	AKR1B10	ENSG00000198074	ENST00000498818	processed_transcript	KNOWN	None	382	None	None	134222332	134226160	1	AKR1B11	AKR1B12, ARL-1, HIS, ARL1, HSI, ALDRLn
7	AKR1B10	ENSG00000198074	ENST00000496435	processed_transcript	KNOWN	None	382	None	None	134222365	134226160	1	AKR1B11	AKR1B12, ARL-1, HIS, ARL1, HSI, ALDRLn
8	DECR1	ENSG00000104325	ENST00000519328	nonsense_mediated_decay	KNOWN	None	2753	126	41	91013633	91064148	1	DECR	SDR18C1
8	DECR1	ENSG00000104325	ENST00000220764	protein_coding	KNOWN	CCDS6250	2753	1008	335	91013633	91064236	1	DECR	SDR18C1
8	DECR1	ENSG00000104325	ENST00000517314	nonsense_mediated_decay	KNOWN	None	2753	147	48	91013674	91054976	1	DECR	SDR18C1
8	DECR1	ENSG00000104325	ENST00000521603	nonsense_mediated_decay	KNOWN	None	2753	126	41	91013686	91049249	1	DECR	SDR18C1
8	DECR1	ENSG00000104325	ENST00000523447	processed_transcript	KNOWN	None	2753	None	None	91013691	91057213	1	DECR	SDR18C1
8	DECR1	ENSG00000104325	ENST00000519410	protein_coding	PUTATIVE	None	2753	544	180	91013704	91049113	1	DECR	SDR18C1
8	DECR1	ENSG00000104325	ENST00000517597	nonsense_mediated_decay	KNOWN	None	2753	126	41	91013704	91064200	1	DECR	SDR18C1
8	DECR1	ENSG00000104325	ENST00000520859	processed_transcript	PUTATIVE	None	2753	None	None	91013705	91018461	1	DECR	SDR18C1
8	DECR1	ENSG00000104325	ENST00000519007	processed_transcript	KNOWN	None	2753	None	None	91013705	91041692	1	DECR	SDR18C1
8	DECR1	ENSG00000104325	ENST00000522161	protein_coding	PUTATIVE	None	2753	981	326	91013705	91064227	1	DECR	SDR18C1
8	DECR1	ENSG00000104325	ENST00000521668	processed_transcript	PUTATIVE	None	2753	None	None	91013706	91029397	1	DECR	SDR18C1
8	DECR1	ENSG00000104325	ENST00000518725	nonsense_mediated_decay	KNOWN	None	2753	288	95	91013708	91033140	1	DECR	SDR18C1
8	DECR1	ENSG00000104325	ENST00000517761	protein_coding	PUTATIVE	None	2753	616	204	91013716	91049146	1	DECR	SDR18C1
8	DECR1	ENSG00000104325	ENST00000520227	protein_coding	PUTATIVE	None	2753	454	150	91013745	91049107	1	DECR	SDR18C1
8	DECR1	ENSG00000104325	ENST00000522583	retained_intron	KNOWN	None	2753	None	None	91028962	91031194	1	DECR	SDR18C1
8	DECR1	ENSG00000104325	ENST00000524326	processed_transcript	KNOWN	None	2753	None	None	91030792	91049109	1	DECR	SDR18C1
8	DECR1	ENSG00000104325	ENST00000517301	processed_transcript	KNOWN	None	2753	None	None	91042683	91064075	1	DECR	SDR18C1
8	DECR1	ENSG00000104325	ENST00000524332	retained_intron	KNOWN	None	2753	None	None	91054707	91064178	1	DECR	SDR18C1
8	DECR1	ENSG00000104325	ENST00000520148	nonsense_mediated_decay	KNOWN	None	2753	131	42	91054961	91064320	1	DECR	SDR18C1
2	None	ENSG00000225649	ENST00000425974	lincRNA	KNOWN	None	None	None	None	13106910	13147138	-1	None	None
2	None	ENSG00000225649	ENST00000421112	lincRNA	KNOWN	None	None	None	None	13141789	13147122	-1	None	None
2	None	ENSG00000225649	ENST00000422996	lincRNA	KNOWN	None	None	None	None	13142762	13147138	-1	None	None
2	None	ENSG00000225649	ENST00000414661	retained_intron	KNOWN	None	None	None	None	13143356	13147125	-1	None	None
1	TNR	ENSG00000116147	ENST00000367674	protein_coding	KNOWN	CCDS1318	11953	4077	1358	175291935	175712906	-1	None	None
1	TNR	ENSG00000116147	ENST00000422274	protein_coding	KNOWN	None	11953	529	175	175362916	175375500	-1	None	None
1	TNR	ENSG00000116147	ENST00000263525	protein_coding	KNOWN	CCDS1318	11953	4077	1358	175291935	175712752	-1	None	None
6	MB21D1	ENSG00000164430	ENST00000370318	protein_coding	KNOWN	None	21367	1344	447	74123238	74161982	-1	C6orf150	None
6	MB21D1	ENSG00000164430	ENST00000370315	protein_coding	KNOWN	CCDS4978	21367	1569	522	74133432	74161999	-1	C6orf150	None
6	MB21D1	ENSG00000164430	ENST00000459924	retained_intron	KNOWN	None	21367	None	None	74149466	74155408	-1	C6orf150	None
1	LIN28A	ENSG00000131914	ENST00000326279	protein_coding	KNOWN	CCDS280	15986	630	209	26737269	26756213	1	LIN28	LIN-28, FLJ12457, ZCCHC1, CSDD1
1	LIN28A	ENSG00000131914	ENST00000254231	protein_coding	KNOWN	CCDS280	15986	630	209	26737308	26756210	1	LIN28	LIN-28, FLJ12457, ZCCHC1, CSDD1
10	None	ENSG00000234752	ENST00000447297	lincRNA	KNOWN	None	None	None	None	8939952	8956559	1	None	None
18	LIPG	ENSG00000101670	ENST00000577628	protein_coding	PUTATIVE	None	6623	1173	390	47087069	47108219	1	None	EDL
18	LIPG	ENSG00000101670	ENST00000583083	protein_coding	PUTATIVE	None	6623	73	23	47087542	47093845	1	None	EDL
18	LIPG	ENSG00000101670	ENST00000261292	protein_coding	KNOWN	CCDS11938	6623	1503	500	47088401	47119272	1	None	EDL
18	LIPG	ENSG00000101670	ENST00000427224	protein_coding	NOVEL	None	6623	1281	426	47088430	47117122	1	None	EDL
18	LIPG	ENSG00000101670	ENST00000580036	protein_coding	KNOWN	None	6623	1065	354	47088457	47108222	1	None	EDL
18	LIPG	ENSG00000101670	ENST00000579750	non_stop_decay	KNOWN	None	6623	565	187	47088715	47094133	1	None	EDL
12	DRAM1	ENSG00000136048	ENST00000258534	protein_coding	KNOWN	CCDS41823	25645	717	238	102271129	102317401	1	None	FLJ11259, DRAM
12	DRAM1	ENSG00000136048	ENST00000544152	protein_coding	PUTATIVE	None	25645	387	128	102271461	102315592	1	None	FLJ11259, DRAM
12	DRAM1	ENSG00000136048	ENST00000551403	nonsense_mediated_decay	KNOWN	None	25645	345	114	102271469	102315320	1	None	FLJ11259, DRAM
12	DRAM1	ENSG00000136048	ENST00000549365	nonsense_mediated_decay	KNOWN	None	25645	140	45	102271575	102302105	1	None	FLJ11259, DRAM
12	DRAM1	ENSG00000136048	ENST00000549066	protein_coding	PUTATIVE	None	25645	160	52	102302092	102405908	1	None	FLJ11259, DRAM
12	DRAM1	ENSG00000136048	ENST00000546729	retained_intron	KNOWN	None	25645	None	None	102313797	102315345	1	None	FLJ11259, DRAM
10	None	ENSG00000223808	ENST00000456526	lincRNA	KNOWN	None	None	None	None	9012088	9015431	1	None	None
2	None	ENSG00000229370	ENST00000434509	lincRNA	KNOWN	None	None	None	None	13677798	13749293	1	None	None
10	LINC00709	ENSG00000230014	ENST00000458168	lincRNA	KNOWN	None	44700	None	None	9317796	9329020	1	None	None
12	IKZF4	ENSG00000123411	ENST00000262032	protein_coding	KNOWN	CCDS44917	13179	1758	585	56401443	56432219	1	ZNFN1A4	Eos
12	IKZF4	ENSG00000123411	ENST00000548601	processed_transcript	KNOWN	None	13179	None	None	56401453	56426388	1	ZNFN1A4	Eos
12	IKZF4	ENSG00000123411	ENST00000550860	processed_transcript	KNOWN	None	13179	None	None	56404920	56420588	1	ZNFN1A4	Eos
12	IKZF4	ENSG00000123411	ENST00000552689	protein_coding	KNOWN	None	13179	30	9	56405342	56415307	1	ZNFN1A4	Eos
12	IKZF4	ENSG00000123411	ENST00000549519	processed_transcript	KNOWN	None	13179	None	None	56413104	56420611	1	ZNFN1A4	Eos
12	IKZF4	ENSG00000123411	ENST00000551103	nonsense_mediated_decay	KNOWN	None	13179	147	48	56414832	56430688	1	ZNFN1A4	Eos
12	IKZF4	ENSG00000123411	ENST00000547167	protein_coding	KNOWN	CCDS44917	13179	1758	585	56414864	56429482	1	ZNFN1A4	Eos
12	IKZF4	ENSG00000123411	ENST00000547791	protein_coding	PUTATIVE	None	13179	1623	540	56415100	56429115	1	ZNFN1A4	Eos
12	IKZF4	ENSG00000123411	ENST00000547668	processed_transcript	KNOWN	None	13179	None	None	56415130	56418668	1	ZNFN1A4	Eos
12	IKZF4	ENSG00000123411	ENST00000551701	processed_transcript	KNOWN	None	13179	None	None	56415587	56421684	1	ZNFN1A4	Eos
12	IKZF4	ENSG00000123411	ENST00000551124	retained_intron	KNOWN	None	13179	None	None	56418524	56431620	1	ZNFN1A4	Eos
12	IKZF4	ENSG00000123411	ENST00000547556	retained_intron	KNOWN	None	13179	None	None	56426064	56428384	1	ZNFN1A4	Eos
12	IKZF4	ENSG00000123411	ENST00000431367	protein_coding	KNOWN	None	13179	1452	483	56414832	56430688	1	ZNFN1A4	Eos
2	LINC00276	ENSG00000230448	ENST00000417751	lincRNA	KNOWN	None	38663	None	None	13850656	14541087	-1	NCRNA00276	None
2	LINC00276	ENSG00000230448	ENST00000418420	lincRNA	KNOWN	None	38663	None	None	14368998	14541082	-1	NCRNA00276	None
14	SERPINA3	ENSG00000196136	ENST00000553947	protein_coding	KNOWN	None	16	1347	448	95058395	95090983	1	AACT	ACT, alpha-1-antichymotrypsin
14	SERPINA3	ENSG00000196136	ENST00000485588	retained_intron	KNOWN	None	16	None	None	95078721	95080194	1	AACT	ACT, alpha-1-antichymotrypsin
14	SERPINA3	ENSG00000196136	ENST00000393080	protein_coding	KNOWN	CCDS32150	16	1272	423	95078721	95090392	1	AACT	ACT, alpha-1-antichymotrypsin
14	SERPINA3	ENSG00000196136	ENST00000555820	nonsense_mediated_decay	KNOWN	None	16	141	46	95078727	95085805	1	AACT	ACT, alpha-1-antichymotrypsin
14	SERPINA3	ENSG00000196136	ENST00000556388	processed_transcript	PUTATIVE	None	16	None	None	95078728	95089100	1	AACT	ACT, alpha-1-antichymotrypsin
14	SERPINA3	ENSG00000196136	ENST00000467132	protein_coding	KNOWN	CCDS32150	16	1272	423	95078728	95090391	1	AACT	ACT, alpha-1-antichymotrypsin
14	SERPINA3	ENSG00000196136	ENST00000556968	nonsense_mediated_decay	KNOWN	None	16	651	216	95078742	95090391	1	AACT	ACT, alpha-1-antichymotrypsin
14	SERPINA3	ENSG00000196136	ENST00000482740	protein_coding	PUTATIVE	None	16	618	205	95083979	95090389	1	AACT	ACT, alpha-1-antichymotrypsin
14	SERPINA3	ENSG00000196136	ENST00000393078	protein_coding	KNOWN	CCDS32150	16	1272	423	95078714	95090389	1	AACT	ACT, alpha-1-antichymotrypsin
7	AP4M1	ENSG00000221838	ENST00000394061	nonsense_mediated_decay	KNOWN	None	574	195	64	99699172	99701271	1	None	MU-ARP2, MU-4, SPG50
7	AP4M1	ENSG00000221838	ENST00000438383	protein_coding	NOVEL	None	574	933	310	99699180	99704137	1	None	MU-ARP2, MU-4, SPG50
7	AP4M1	ENSG00000221838	ENST00000445208	nonsense_mediated_decay	KNOWN	None	574	294	97	99699180	99704763	1	None	MU-ARP2, MU-4, SPG50
7	AP4M1	ENSG00000221838	ENST00000429084	protein_coding	NOVEL	None	574	1383	460	99699180	99704800	1	None	MU-ARP2, MU-4, SPG50
7	AP4M1	ENSG00000221838	ENST00000359593	protein_coding	KNOWN	CCDS5685	574	1362	453	99699180	99704802	1	None	MU-ARP2, MU-4, SPG50
7	AP4M1	ENSG00000221838	ENST00000439416	protein_coding	NOVEL	None	574	797	264	99699214	99703162	1	None	MU-ARP2, MU-4, SPG50
7	AP4M1	ENSG00000221838	ENST00000478501	processed_transcript	KNOWN	None	574	None	None	99699259	99701068	1	None	MU-ARP2, MU-4, SPG50
7	AP4M1	ENSG00000221838	ENST00000446007	nonsense_mediated_decay	KNOWN	None	574	657	218	99699282	99703914	1	None	MU-ARP2, MU-4, SPG50
7	AP4M1	ENSG00000221838	ENST00000421755	protein_coding	KNOWN	CCDS5685	574	1362	453	99699287	99707942	1	None	MU-ARP2, MU-4, SPG50
7	AP4M1	ENSG00000221838	ENST00000463195	retained_intron	KNOWN	None	574	None	None	99699392	99703665	1	None	MU-ARP2, MU-4, SPG50
7	AP4M1	ENSG00000221838	ENST00000416938	nonsense_mediated_decay	KNOWN	None	574	580	192	99699489	99706662	1	None	MU-ARP2, MU-4, SPG50
7	AP4M1	ENSG00000221838	ENST00000422582	protein_coding	PUTATIVE	None	574	978	325	99699684	99704771	1	None	MU-ARP2, MU-4, SPG50
7	AP4M1	ENSG00000221838	ENST00000495154	processed_transcript	KNOWN	None	574	None	None	99699709	99700919	1	None	MU-ARP2, MU-4, SPG50
7	AP4M1	ENSG00000221838	ENST00000479916	retained_intron	KNOWN	None	574	None	None	99701191	99703136	1	None	MU-ARP2, MU-4, SPG50
7	AP4M1	ENSG00000221838	ENST00000450807	protein_coding	PUTATIVE	None	574	483	160	99702880	99707968	1	None	MU-ARP2, MU-4, SPG50
7	AP4M1	ENSG00000221838	ENST00000445295	protein_coding	PUTATIVE	None	574	416	137	99702959	99704767	1	None	MU-ARP2, MU-4, SPG50
7	AP4M1	ENSG00000221838	ENST00000489387	retained_intron	KNOWN	None	574	None	None	99703600	99704415	1	None	MU-ARP2, MU-4, SPG50
2	None	ENSG00000227718	ENST00000420828	lincRNA	KNOWN	None	None	None	None	13863173	13898277	1	None	None
17	MYO18A	ENSG00000196535	ENST00000529578	processed_transcript	KNOWN	None	31104	None	None	27400537	27418537	-1	None	KIAA0216, MysPDZ
17	MYO18A	ENSG00000196535	ENST00000533112	protein_coding	NOVEL	None	31104	6009	2002	27400537	27503770	-1	None	KIAA0216, MysPDZ
17	MYO18A	ENSG00000196535	ENST00000531253	protein_coding	KNOWN	CCDS45641	31104	6120	2039	27400537	27507382	-1	None	KIAA0216, MysPDZ
17	MYO18A	ENSG00000196535	ENST00000527372	protein_coding	KNOWN	CCDS45642	31104	6165	2054	27400537	27507430	-1	None	KIAA0216, MysPDZ
17	MYO18A	ENSG00000196535	ENST00000530254	nonsense_mediated_decay	KNOWN	None	31104	82	26	27400539	27467397	-1	None	KIAA0216, MysPDZ
17	MYO18A	ENSG00000196535	ENST00000546105	processed_transcript	KNOWN	None	31104	None	None	27401499	27418867	-1	None	KIAA0216, MysPDZ
17	MYO18A	ENSG00000196535	ENST00000532867	processed_transcript	KNOWN	None	31104	None	None	27401766	27406794	-1	None	KIAA0216, MysPDZ
17	MYO18A	ENSG00000196535	ENST00000527312	retained_intron	KNOWN	None	31104	None	None	27401847	27413819	-1	None	KIAA0216, MysPDZ
17	MYO18A	ENSG00000196535	ENST00000531438	retained_intron	KNOWN	None	31104	None	None	27401877	27417178	-1	None	KIAA0216, MysPDZ
17	MYO18A	ENSG00000196535	ENST00000531892	processed_transcript	KNOWN	None	31104	None	None	27413478	27417853	-1	None	KIAA0216, MysPDZ
17	MYO18A	ENSG00000196535	ENST00000529889	retained_intron	KNOWN	None	31104	None	None	27413590	27418111	-1	None	KIAA0216, MysPDZ
17	MYO18A	ENSG00000196535	ENST00000530557	retained_intron	KNOWN	None	31104	None	None	27420999	27424898	-1	None	KIAA0216, MysPDZ
17	MYO18A	ENSG00000196535	ENST00000533652	retained_intron	KNOWN	None	31104	None	None	27421261	27424371	-1	None	KIAA0216, MysPDZ
17	MYO18A	ENSG00000196535	ENST00000532143	retained_intron	KNOWN	None	31104	None	None	27425389	27434685	-1	None	KIAA0216, MysPDZ
17	MYO18A	ENSG00000196535	ENST00000533399	retained_intron	KNOWN	None	31104	None	None	27438804	27441286	-1	None	KIAA0216, MysPDZ
17	MYO18A	ENSG00000196535	ENST00000588791	nonsense_mediated_decay	KNOWN	None	31104	280	92	27442371	27447693	-1	None	KIAA0216, MysPDZ
17	MYO18A	ENSG00000196535	ENST00000590242	processed_transcript	KNOWN	None	31104	None	None	27448048	27467440	-1	None	KIAA0216, MysPDZ
17	MYO18A	ENSG00000196535	ENST00000528564	protein_coding	PUTATIVE	None	31104	589	195	27448128	27467436	-1	None	KIAA0216, MysPDZ
17	MYO18A	ENSG00000196535	ENST00000528322	retained_intron	KNOWN	None	31104	None	None	27448565	27467407	-1	None	KIAA0216, MysPDZ
17	MYO18A	ENSG00000196535	ENST00000585573	processed_transcript	KNOWN	None	31104	None	None	27448869	27492529	-1	None	KIAA0216, MysPDZ
17	MYO18A	ENSG00000196535	ENST00000531267	processed_transcript	KNOWN	None	31104	None	None	27448871	27455010	-1	None	KIAA0216, MysPDZ
17	MYO18A	ENSG00000196535	ENST00000533420	processed_transcript	KNOWN	None	31104	None	None	27448943	27455018	-1	None	KIAA0216, MysPDZ
17	MYO18A	ENSG00000196535	ENST00000590565	processed_transcript	KNOWN	None	31104	None	None	27460779	27492499	-1	None	KIAA0216, MysPDZ
17	MYO18A	ENSG00000196535	ENST00000354329	protein_coding	KNOWN	None	31104	6165	2054	27400528	27507407	-1	None	KIAA0216, MysPDZ
5	REEP5	ENSG00000129625	ENST00000379638	protein_coding	KNOWN	CCDS4109	30077	570	189	112212084	112258236	-1	C5orf18	DP1, TB2, D5S346
5	REEP5	ENSG00000129625	ENST00000497856	retained_intron	KNOWN	None	30077	None	None	112213782	112257211	-1	C5orf18	DP1, TB2, D5S346
5	REEP5	ENSG00000129625	ENST00000513339	protein_coding	PUTATIVE	None	30077	369	122	112213782	112257924	-1	C5orf18	DP1, TB2, D5S346
5	REEP5	ENSG00000129625	ENST00000511865	nonsense_mediated_decay	KNOWN	None	30077	436	144	112214274	112257927	-1	C5orf18	DP1, TB2, D5S346
5	REEP5	ENSG00000129625	ENST00000261482	protein_coding	PUTATIVE	None	30077	496	164	112214530	112257694	-1	C5orf18	DP1, TB2, D5S346
5	REEP5	ENSG00000129625	ENST00000474542	processed_transcript	PUTATIVE	None	30077	None	None	112222712	112257201	-1	C5orf18	DP1, TB2, D5S346
5	REEP5	ENSG00000129625	ENST00000504247	protein_coding	PUTATIVE	None	30077	300	99	112222712	112257986	-1	C5orf18	DP1, TB2, D5S346
5	REEP5	ENSG00000129625	ENST00000545426	protein_coding	KNOWN	None	30077	396	131	112214274	112257927	-1	C5orf18	DP1, TB2, D5S346
4	None	ENSG00000261643	ENST00000564650	sense_overlapping	KNOWN	None	None	None	None	3505324	3506184	-1	None	None
2	RNU6-1288P	ENSG00000251859	ENST00000516050	snRNA	KNOWN	None	48251	None	None	14414746	14414849	-1	None	None
6	None	ENSG00000227954	ENST00000451017	antisense	KNOWN	None	None	None	None	133823390	133832866	-1	None	None
6	None	ENSG00000227954	ENST00000607033	antisense	KNOWN	None	None	None	None	133823390	134210120	-1	None	None
6	None	ENSG00000227954	ENST00000606292	antisense	KNOWN	None	None	None	None	133858312	134088746	-1	None	None
6	None	ENSG00000227954	ENST00000607573	antisense	KNOWN	None	None	None	None	133858351	134213074	-1	None	None
6	None	ENSG00000227954	ENST00000606544	antisense	KNOWN	None	None	None	None	133858449	134210120	-1	None	None
6	None	ENSG00000227954	ENST00000419627	antisense	KNOWN	None	None	None	None	134081323	134167089	-1	None	None
6	None	ENSG00000227954	ENST00000607641	antisense	KNOWN	None	None	None	None	134208649	134210144	-1	None	None
12	RPL6	ENSG00000089009	ENST00000553205	retained_intron	KNOWN	None	10362	None	None	112842994	112844148	-1	TXREB1	TAXREB107, L6
12	RPL6	ENSG00000089009	ENST00000202773	protein_coding	KNOWN	CCDS9162	10362	867	288	112843003	112847445	-1	TXREB1	TAXREB107, L6
12	RPL6	ENSG00000089009	ENST00000424576	protein_coding	KNOWN	CCDS9162	10362	867	288	112843007	112847400	-1	TXREB1	TAXREB107, L6
12	RPL6	ENSG00000089009	ENST00000546368	retained_intron	KNOWN	None	10362	None	None	112844098	112847439	-1	TXREB1	TAXREB107, L6
12	RPL6	ENSG00000089009	ENST00000550238	protein_coding	PUTATIVE	None	10362	191	62	112844103	112848174	-1	TXREB1	TAXREB107, L6
12	RPL6	ENSG00000089009	ENST00000551041	retained_intron	KNOWN	None	10362	None	None	112844147	112847409	-1	TXREB1	TAXREB107, L6
12	RPL6	ENSG00000089009	ENST00000552455	retained_intron	KNOWN	None	10362	None	None	112844433	112847397	-1	TXREB1	TAXREB107, L6
12	RPL6	ENSG00000089009	ENST00000550566	protein_coding	KNOWN	None	10362	480	159	112844551	112847378	-1	TXREB1	TAXREB107, L6
12	RPL6	ENSG00000089009	ENST00000549847	protein_coding	KNOWN	None	10362	479	158	112844552	112847115	-1	TXREB1	TAXREB107, L6
12	RPL6	ENSG00000089009	ENST00000551291	protein_coding	KNOWN	None	10362	361	119	112844670	112856642	-1	TXREB1	TAXREB107, L6
12	RPL6	ENSG00000089009	ENST00000553213	protein_coding	KNOWN	None	10362	356	117	112844675	112847378	-1	TXREB1	TAXREB107, L6
12	RPL6	ENSG00000089009	ENST00000549562	retained_intron	KNOWN	None	10362	None	None	112845825	112847418	-1	TXREB1	TAXREB107, L6
12	RPL6	ENSG00000089009	ENST00000548343	protein_coding	KNOWN	None	10362	316	104	112846064	112846756	-1	TXREB1	TAXREB107, L6
11	CCDC34	ENSG00000109881	ENST00000529615	processed_transcript	KNOWN	None	25079	None	None	27352374	27371971	-1	None	NY-REN-41, L15, RAMA3
11	CCDC34	ENSG00000109881	ENST00000328697	protein_coding	KNOWN	CCDS31448	25079	1122	373	27360061	27385415	-1	None	NY-REN-41, L15, RAMA3
11	CCDC34	ENSG00000109881	ENST00000317945	protein_coding	KNOWN	CCDS7863	25079	690	229	27370416	27384781	-1	None	NY-REN-41, L15, RAMA3
2	None	ENSG00000228505	ENST00000450715	lincRNA	KNOWN	None	None	None	None	14756552	14770316	1	None	None
2	None	ENSG00000228505	ENST00000418481	lincRNA	KNOWN	None	None	None	None	14756552	14770316	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000257707	ENST00000552359	protein_coding	NOVEL	None	None	126	41	28706709	28709409	-1	None	None
9	WNK2	ENSG00000165238	ENST00000448039	protein_coding	PUTATIVE	None	14542	2371	789	95947198	96021357	1	SDCCAG43, PRKWNK2	NY-CO-43, KIAA1760
9	WNK2	ENSG00000165238	ENST00000297954	protein_coding	KNOWN	None	14542	6894	2297	95947212	96080553	1	SDCCAG43, PRKWNK2	NY-CO-43, KIAA1760
9	WNK2	ENSG00000165238	ENST00000432730	protein_coding	NOVEL	None	14542	6662	2219	95947225	96081486	1	SDCCAG43, PRKWNK2	NY-CO-43, KIAA1760
9	WNK2	ENSG00000165238	ENST00000411624	protein_coding	PUTATIVE	None	14542	5320	1772	95997205	96081490	1	SDCCAG43, PRKWNK2	NY-CO-43, KIAA1760
9	WNK2	ENSG00000165238	ENST00000464625	processed_transcript	KNOWN	None	14542	None	None	96019008	96021533	1	SDCCAG43, PRKWNK2	NY-CO-43, KIAA1760
9	WNK2	ENSG00000165238	ENST00000478583	processed_transcript	KNOWN	None	14542	None	None	96025548	96030322	1	SDCCAG43, PRKWNK2	NY-CO-43, KIAA1760
9	WNK2	ENSG00000165238	ENST00000448251	protein_coding	PUTATIVE	None	14542	3044	1013	96026230	96082854	1	SDCCAG43, PRKWNK2	NY-CO-43, KIAA1760
9	WNK2	ENSG00000165238	ENST00000462595	processed_transcript	KNOWN	None	14542	None	None	96029302	96030097	1	SDCCAG43, PRKWNK2	NY-CO-43, KIAA1760
9	WNK2	ENSG00000165238	ENST00000453718	protein_coding	PUTATIVE	None	14542	1937	644	96051469	96070866	1	SDCCAG43, PRKWNK2	NY-CO-43, KIAA1760
9	WNK2	ENSG00000165238	ENST00000474009	processed_transcript	KNOWN	None	14542	None	None	96055371	96070870	1	SDCCAG43, PRKWNK2	NY-CO-43, KIAA1760
9	WNK2	ENSG00000165238	ENST00000479696	processed_transcript	KNOWN	None	14542	None	None	96055415	96062608	1	SDCCAG43, PRKWNK2	NY-CO-43, KIAA1760
9	WNK2	ENSG00000165238	ENST00000467401	retained_intron	KNOWN	None	14542	None	None	96068919	96082846	1	SDCCAG43, PRKWNK2	NY-CO-43, KIAA1760
9	WNK2	ENSG00000165238	ENST00000460335	processed_transcript	KNOWN	None	14542	None	None	96070783	96071477	1	SDCCAG43, PRKWNK2	NY-CO-43, KIAA1760
9	WNK2	ENSG00000165238	ENST00000471076	processed_transcript	KNOWN	None	14542	None	None	96077770	96082848	1	SDCCAG43, PRKWNK2	NY-CO-43, KIAA1760
9	WNK2	ENSG00000165238	ENST00000395477	protein_coding	KNOWN	None	14542	6654	2217	95947212	96082854	1	SDCCAG43, PRKWNK2	NY-CO-43, KIAA1760
9	WNK2	ENSG00000165238	ENST00000395475	protein_coding	KNOWN	None	14542	2337	778	95947212	96082854	1	SDCCAG43, PRKWNK2	NY-CO-43, KIAA1760
9	WNK2	ENSG00000165238	ENST00000349097	protein_coding	KNOWN	None	14542	5601	1866	95947212	96082854	1	SDCCAG43, PRKWNK2	NY-CO-43, KIAA1760
9	WNK2	ENSG00000165238	ENST00000427277	protein_coding	KNOWN	None	14542	5511	1836	95947212	96080356	1	SDCCAG43, PRKWNK2	NY-CO-43, KIAA1760
9	WNK2	ENSG00000165238	ENST00000356055	protein_coding	KNOWN	None	14542	1092	363	95947212	96082854	1	SDCCAG43, PRKWNK2	NY-CO-43, KIAA1760
2	None	ENSG00000235127	ENST00000416173	lincRNA	KNOWN	None	None	None	None	15026771	15047788	-1	None	None
HSCHR6_MHC_DBB	None	ENSG00000258264	ENST00000536450	protein_coding	NOVEL	None	None	108	35	28730493	28730600	1	None	None
2	None	ENSG00000229087	ENST00000413892	processed_pseudogene	KNOWN	None	None	None	None	15537559	15537906	-1	None	None
2	None	ENSG00000234022	ENST00000438178	antisense	KNOWN	None	None	None	None	15704294	15713992	1	None	None
19	MYO9B	ENSG00000099331	ENST00000595618	protein_coding	KNOWN	CCDS46010	7609	6069	2022	17186591	17324104	1	CELIAC4	None
19	MYO9B	ENSG00000099331	ENST00000594824	protein_coding	KNOWN	None	7609	6474	2157	17186596	17324093	1	CELIAC4	None
19	MYO9B	ENSG00000099331	ENST00000595641	protein_coding	NOVEL	None	7609	6215	2070	17212528	17322908	1	CELIAC4	None
19	MYO9B	ENSG00000099331	ENST00000593411	processed_transcript	PUTATIVE	None	7609	None	None	17212992	17214599	1	CELIAC4	None
19	MYO9B	ENSG00000099331	ENST00000594971	protein_coding	NOVEL	None	7609	461	152	17283185	17295707	1	CELIAC4	None
19	MYO9B	ENSG00000099331	ENST00000598101	retained_intron	KNOWN	None	7609	None	None	17283622	17294811	1	CELIAC4	None
19	MYO9B	ENSG00000099331	ENST00000602177	protein_coding	NOVEL	None	7609	524	173	17283733	17298814	1	CELIAC4	None
19	MYO9B	ENSG00000099331	ENST00000601749	retained_intron	KNOWN	None	7609	None	None	17291454	17298748	1	CELIAC4	None
19	MYO9B	ENSG00000099331	ENST00000598464	retained_intron	KNOWN	None	7609	None	None	17294546	17295764	1	CELIAC4	None
19	MYO9B	ENSG00000099331	ENST00000601490	retained_intron	KNOWN	None	7609	None	None	17295320	17296809	1	CELIAC4	None
19	MYO9B	ENSG00000099331	ENST00000593533	retained_intron	KNOWN	None	7609	None	None	17308927	17317637	1	CELIAC4	None
19	MYO9B	ENSG00000099331	ENST00000599420	retained_intron	KNOWN	None	7609	None	None	17312938	17317168	1	CELIAC4	None
19	MYO9B	ENSG00000099331	ENST00000602158	nonsense_mediated_decay	KNOWN	None	7609	179	58	17313679	17316942	1	CELIAC4	None
19	MYO9B	ENSG00000099331	ENST00000596942	protein_coding	NOVEL	None	7609	584	193	17317498	17322553	1	CELIAC4	None
19	MYO9B	ENSG00000099331	ENST00000597073	protein_coding	PUTATIVE	None	7609	588	195	17317583	17324093	1	CELIAC4	None
19	MYO9B	ENSG00000099331	ENST00000598419	protein_coding	PUTATIVE	None	7609	525	174	17318022	17325346	1	CELIAC4	None
19	MYO9B	ENSG00000099331	ENST00000597572	retained_intron	KNOWN	None	7609	None	None	17321252	17322709	1	CELIAC4	None
19	MYO9B	ENSG00000099331	ENST00000597881	retained_intron	KNOWN	None	7609	None	None	17321400	17322749	1	CELIAC4	None
19	MYO9B	ENSG00000099331	ENST00000397274	protein_coding	KNOWN	CCDS46010	7609	6069	2022	17212466	17324103	1	CELIAC4	None
4	HSPA4L	ENSG00000164070	ENST00000508776	protein_coding	KNOWN	CCDS3734	17041	2520	839	128702976	128754197	1	None	APG-1, Osp94, HSPH3
4	HSPA4L	ENSG00000164070	ENST00000296464	protein_coding	KNOWN	CCDS3734	17041	2520	839	128703295	128755226	1	None	APG-1, Osp94, HSPH3
4	HSPA4L	ENSG00000164070	ENST00000508549	protein_coding	NOVEL	None	17041	1593	530	128703477	128741624	1	None	APG-1, Osp94, HSPH3
4	HSPA4L	ENSG00000164070	ENST00000505726	protein_coding	PUTATIVE	None	17041	2442	813	128704704	128754123	1	None	APG-1, Osp94, HSPH3
4	HSPA4L	ENSG00000164070	ENST00000515262	processed_transcript	KNOWN	None	17041	None	None	128734173	128741676	1	None	APG-1, Osp94, HSPH3
4	HSPA4L	ENSG00000164070	ENST00000439123	protein_coding	KNOWN	None	17041	2613	870	128702976	128754197	1	None	APG-1, Osp94, HSPH3
2	None	ENSG00000224194	ENST00000431117	antisense	KNOWN	None	None	None	None	15808808	15820608	-1	None	None
12	ANAPC7	ENSG00000196510	ENST00000455511	protein_coding	KNOWN	CCDS9145	17380	1800	599	110810705	110841535	-1	None	APC7
12	ANAPC7	ENSG00000196510	ENST00000481473	processed_transcript	KNOWN	None	17380	None	None	110811283	110816956	-1	None	APC7
12	ANAPC7	ENSG00000196510	ENST00000552087	protein_coding	PUTATIVE	None	17380	448	148	110811487	110819663	-1	None	APC7
12	ANAPC7	ENSG00000196510	ENST00000486321	retained_intron	KNOWN	None	17380	None	None	110812051	110815706	-1	None	APC7
12	ANAPC7	ENSG00000196510	ENST00000452721	retained_intron	KNOWN	None	17380	None	None	110813272	110815902	-1	None	APC7
12	ANAPC7	ENSG00000196510	ENST00000450008	protein_coding	KNOWN	CCDS44971	17380	1614	537	110813282	110841535	-1	None	APC7
12	ANAPC7	ENSG00000196510	ENST00000471602	retained_intron	KNOWN	None	17380	None	None	110813937	110821070	-1	None	APC7
12	ANAPC7	ENSG00000196510	ENST00000547199	processed_transcript	KNOWN	None	17380	None	None	110815386	110815819	-1	None	APC7
12	ANAPC7	ENSG00000196510	ENST00000548234	retained_intron	KNOWN	None	17380	None	None	110815396	110825082	-1	None	APC7
12	ANAPC7	ENSG00000196510	ENST00000546720	processed_transcript	KNOWN	None	17380	None	None	110824134	110834315	-1	None	APC7
12	ANAPC7	ENSG00000196510	ENST00000552170	nonsense_mediated_decay	KNOWN	None	17380	163	53	110824220	110841469	-1	None	APC7
12	ANAPC7	ENSG00000196510	ENST00000464697	retained_intron	KNOWN	None	17380	None	None	110825434	110841494	-1	None	APC7
2	None	ENSG00000237326	ENST00000448379	lincRNA	KNOWN	None	None	None	None	15941871	15951001	-1	None	None
HSCHR6_MHC_DBB	ZNF311	ENSG00000235178	ENST00000429714	protein_coding	KNOWN	None	13847	2001	666	28962576	28973051	-1	None	None
HSCHR6_MHC_DBB	ZNF311	ENSG00000235178	ENST00000466714	processed_transcript	KNOWN	None	13847	None	None	28962576	28973107	-1	None	None
2	RNU5E-7P	ENSG00000202160	ENST00000365290	snRNA	KNOWN	None	42526	None	None	16005059	16005175	1	None	None
3	OSBPL10	ENSG00000144645	ENST00000396556	protein_coding	KNOWN	CCDS2651	16395	2295	764	31699382	32022794	-1	None	None
3	OSBPL10	ENSG00000144645	ENST00000429492	protein_coding	PUTATIVE	None	16395	1616	537	31699404	31871566	-1	None	None
3	OSBPL10	ENSG00000144645	ENST00000438237	protein_coding	NOVEL	CCDS54559	16395	2103	700	31703164	32022792	-1	None	None
3	OSBPL10	ENSG00000144645	ENST00000469557	retained_intron	KNOWN	None	16395	None	None	31703566	31706111	-1	None	None
3	OSBPL10	ENSG00000144645	ENST00000467598	processed_transcript	KNOWN	None	16395	None	None	31725360	31746250	-1	None	None
3	OSBPL10	ENSG00000144645	ENST00000472175	processed_transcript	KNOWN	None	16395	None	None	31725461	31745292	-1	None	None
3	OSBPL10	ENSG00000144645	ENST00000479396	processed_transcript	KNOWN	None	16395	None	None	31741791	31743963	-1	None	None
3	OSBPL10	ENSG00000144645	ENST00000490009	processed_transcript	KNOWN	None	16395	None	None	31743868	31750656	-1	None	None
3	OSBPL10	ENSG00000144645	ENST00000467647	processed_transcript	KNOWN	None	16395	None	None	31774079	31871672	-1	None	None
3	OSBPL10	ENSG00000144645	ENST00000428241	protein_coding	PUTATIVE	None	16395	519	172	31774749	31871597	-1	None	None
3	OSBPL10	ENSG00000144645	ENST00000480671	processed_transcript	KNOWN	None	16395	None	None	31789425	32022438	-1	None	None
3	OSBPL10	ENSG00000144645	ENST00000485205	processed_transcript	KNOWN	None	16395	None	None	31789464	31948488	-1	None	None
3	OSBPL10	ENSG00000144645	ENST00000467955	processed_transcript	KNOWN	None	16395	None	None	31789506	31960992	-1	None	None
3	OSBPL10	ENSG00000144645	ENST00000466604	processed_transcript	KNOWN	None	16395	None	None	31863620	32001828	-1	None	None
3	OSBPL10	ENSG00000144645	ENST00000463504	processed_transcript	KNOWN	None	16395	None	None	31917925	32011047	-1	None	None
3	OSBPL10	ENSG00000144645	ENST00000479173	processed_transcript	KNOWN	None	16395	None	None	31917925	32119072	-1	None	None
3	OSBPL10	ENSG00000144645	ENST00000452791	processed_transcript	PUTATIVE	None	16395	None	None	31917927	32022797	-1	None	None
3	OSBPL10	ENSG00000144645	ENST00000465626	retained_intron	KNOWN	None	16395	None	None	31920898	32022438	-1	None	None
2	None	ENSG00000214657	ENST00000398740	processed_pseudogene	KNOWN	None	None	None	None	16010063	16010367	1	None	None
2	None	ENSG00000214657	ENST00000598420	processed_pseudogene	KNOWN	None	None	None	None	16010063	16010365	1	None	None
3	FAM43A	ENSG00000185112	ENST00000329759	protein_coding	KNOWN	CCDS33923	26888	1272	423	194406622	194409762	1	None	FLJ90022
16	None	ENSG00000260617	ENST00000566114	antisense	KNOWN	None	None	None	None	88808039	88808775	1	None	None
2	None	ENSG00000238371	ENST00000458916	snoRNA	NOVEL	None	None	None	None	16043792	16043895	1	None	None
6	RPSAP41	ENSG00000239626	ENST00000439695	processed_pseudogene	KNOWN	None	36663	None	None	74000126	74000985	1	None	None
X	PHEX	ENSG00000102174	ENST00000379374	protein_coding	KNOWN	CCDS14204	8918	2250	749	22050559	22269427	1	HYP, HPDR	PEX, HPDR1, HYP1, XLH
X	PHEX	ENSG00000102174	ENST00000475778	processed_transcript	KNOWN	None	8918	None	None	22108611	22117481	1	HYP, HPDR	PEX, HPDR1, HYP1, XLH
X	PHEX	ENSG00000102174	ENST00000537599	protein_coding	KNOWN	None	8918	2088	695	22051016	22266300	1	HYP, HPDR	PEX, HPDR1, HYP1, XLH
X	PHEX	ENSG00000102174	ENST00000535894	protein_coding	KNOWN	None	8918	1959	652	22056171	22266413	1	HYP, HPDR	PEX, HPDR1, HYP1, XLH
X	PHEX	ENSG00000102174	ENST00000418858	protein_coding	KNOWN	None	8918	1359	452	22115822	22266209	1	HYP, HPDR	PEX, HPDR1, HYP1, XLH
2	None	ENSG00000223850	ENST00000433810	lincRNA	KNOWN	None	None	None	None	16060521	16076139	1	None	None
16	None	ENSG00000182376	ENST00000333666	antisense	KNOWN	None	None	None	None	88809175	88812156	1	None	None
16	None	ENSG00000182376	ENST00000567588	antisense	KNOWN	None	None	None	None	88809229	88811872	1	None	None
20	EPPIN-WFDC6	ENSG00000249139	ENST00000504988	protein_coding	KNOWN	CCDS56195	38825	540	179	44165625	44176065	-1	SPINLW1-WFDC6	None
13	RPL21	ENSG00000122026	ENST00000311549	protein_coding	KNOWN	CCDS9320	10313	483	160	27825446	27830705	1	None	L21, FLJ27458, MGC71252, MGC104274, MGC104275, DKFZp686C06101
13	RPL21	ENSG00000122026	ENST00000473558	retained_intron	KNOWN	None	10313	None	None	27825499	27828604	1	None	L21, FLJ27458, MGC71252, MGC104274, MGC104275, DKFZp686C06101
13	RPL21	ENSG00000122026	ENST00000461690	nonsense_mediated_decay	KNOWN	None	10313	264	87	27825698	27830828	1	None	L21, FLJ27458, MGC71252, MGC104274, MGC104275, DKFZp686C06101
13	RPL21	ENSG00000122026	ENST00000272274	protein_coding	KNOWN	CCDS9320	10313	483	160	27825716	27830705	1	None	L21, FLJ27458, MGC71252, MGC104274, MGC104275, DKFZp686C06101
13	RPL21	ENSG00000122026	ENST00000319826	protein_coding	KNOWN	CCDS9320	10313	483	160	27825720	27830705	1	None	L21, FLJ27458, MGC71252, MGC104274, MGC104275, DKFZp686C06101
13	RPL21	ENSG00000122026	ENST00000326092	protein_coding	KNOWN	CCDS9320	10313	483	160	27825734	27830705	1	None	L21, FLJ27458, MGC71252, MGC104274, MGC104275, DKFZp686C06101
13	RPL21	ENSG00000122026	ENST00000493317	protein_coding	KNOWN	None	10313	366	121	27827842	27830444	1	None	L21, FLJ27458, MGC71252, MGC104274, MGC104275, DKFZp686C06101
13	RPL21	ENSG00000122026	ENST00000466550	retained_intron	KNOWN	None	10313	None	None	27827902	27829993	1	None	L21, FLJ27458, MGC71252, MGC104274, MGC104275, DKFZp686C06101
13	RPL21	ENSG00000122026	ENST00000483765	nonsense_mediated_decay	KNOWN	None	10313	180	59	27827902	27830682	1	None	L21, FLJ27458, MGC71252, MGC104274, MGC104275, DKFZp686C06101
13	RPL21	ENSG00000122026	ENST00000485756	retained_intron	KNOWN	None	10313	None	None	27829081	27830685	1	None	L21, FLJ27458, MGC71252, MGC104274, MGC104275, DKFZp686C06101
19	ZNF776	ENSG00000152443	ENST00000317178	protein_coding	KNOWN	CCDS12962	26765	1557	518	58258164	58269527	1	None	FLJ38288
19	ZNF776	ENSG00000152443	ENST00000473585	processed_transcript	PUTATIVE	None	26765	None	None	58258190	58262213	1	None	FLJ38288
19	ZNF776	ENSG00000152443	ENST00000431353	protein_coding	PUTATIVE	None	26765	177	58	58258209	58264812	1	None	FLJ38288
19	ZNF776	ENSG00000152443	ENST00000451849	protein_coding	PUTATIVE	None	26765	116	37	58262172	58268677	1	None	FLJ38288
19	ZNF776	ENSG00000152443	ENST00000489376	processed_transcript	KNOWN	None	26765	None	None	58265412	58268562	1	None	FLJ38288
2	MYCNOS	ENSG00000233718	ENST00000453400	antisense	KNOWN	None	16911	None	None	16061159	16081370	-1	None	NCYM, MYCN-AS1
2	MYCNOS	ENSG00000233718	ENST00000420452	antisense	KNOWN	None	16911	None	None	16076387	16081704	-1	None	NCYM, MYCN-AS1
2	MYCNOS	ENSG00000233718	ENST00000419083	antisense	KNOWN	None	16911	None	None	16080020	16081845	-1	None	NCYM, MYCN-AS1
2	MYCNOS	ENSG00000233718	ENST00000439180	antisense	KNOWN	None	16911	None	None	16080243	16081360	-1	None	NCYM, MYCN-AS1
2	MYCNOS	ENSG00000233718	ENST00000448719	antisense	KNOWN	None	16911	None	None	16080307	16082371	-1	None	NCYM, MYCN-AS1
16	None	ENSG00000259881	ENST00000562405	antisense	KNOWN	None	None	None	None	88947446	88950327	1	None	None
16	None	ENSG00000259881	ENST00000562574	antisense	KNOWN	None	None	None	None	88947665	88950123	1	None	None
16	None	ENSG00000259881	ENST00000569249	antisense	KNOWN	None	None	None	None	88947863	88950334	1	None	None
16	None	ENSG00000259881	ENST00000565053	antisense	KNOWN	None	None	None	None	88949680	88953544	1	None	None
19	KRI1	ENSG00000129347	ENST00000536689	retained_intron	KNOWN	None	25769	None	None	10663761	10676673	-1	None	FLJ12949
19	KRI1	ENSG00000129347	ENST00000312962	protein_coding	KNOWN	CCDS12242	25769	2130	709	10663761	10676713	-1	None	FLJ12949
19	KRI1	ENSG00000129347	ENST00000537363	retained_intron	KNOWN	None	25769	None	None	10663767	10670612	-1	None	FLJ12949
19	KRI1	ENSG00000129347	ENST00000478863	retained_intron	KNOWN	None	25769	None	None	10664252	10676647	-1	None	FLJ12949
19	KRI1	ENSG00000129347	ENST00000361821	protein_coding	PUTATIVE	None	25769	2118	705	10664267	10676696	-1	None	FLJ12949
19	KRI1	ENSG00000129347	ENST00000537433	retained_intron	KNOWN	None	25769	None	None	10665807	10670152	-1	None	FLJ12949
19	KRI1	ENSG00000129347	ENST00000543842	retained_intron	KNOWN	None	25769	None	None	10665985	10668897	-1	None	FLJ12949
19	KRI1	ENSG00000129347	ENST00000539027	protein_coding	NOVEL	None	25769	582	193	10668228	10676666	-1	None	FLJ12949
19	KRI1	ENSG00000129347	ENST00000536714	retained_intron	KNOWN	None	25769	None	None	10668234	10670506	-1	None	FLJ12949
19	KRI1	ENSG00000129347	ENST00000432197	nonsense_mediated_decay	KNOWN	None	25769	120	39	10670486	10676707	-1	None	FLJ12949
19	KRI1	ENSG00000129347	ENST00000543682	protein_coding	NOVEL	None	25769	571	189	10671048	10676686	-1	None	FLJ12949
19	KRI1	ENSG00000129347	ENST00000546063	nonsense_mediated_decay	KNOWN	None	25769	111	36	10671057	10676684	-1	None	FLJ12949
19	KRI1	ENSG00000129347	ENST00000537964	processed_transcript	KNOWN	None	25769	None	None	10671679	10676686	-1	None	FLJ12949
19	KRI1	ENSG00000129347	ENST00000544397	nonsense_mediated_decay	KNOWN	None	25769	339	112	10671909	10676684	-1	None	FLJ12949
12	RPAP3	ENSG00000005175	ENST00000005386	protein_coding	KNOWN	CCDS8753	26151	1998	665	48057070	48099844	-1	None	FLJ21908, spag
12	RPAP3	ENSG00000005175	ENST00000548211	processed_transcript	KNOWN	None	26151	None	None	48057073	48058626	-1	None	FLJ21908, spag
12	RPAP3	ENSG00000005175	ENST00000432584	protein_coding	PUTATIVE	CCDS53782	26151	1521	506	48057075	48099809	-1	None	FLJ21908, spag
12	RPAP3	ENSG00000005175	ENST00000380650	protein_coding	KNOWN	CCDS53783	26151	1896	631	48057076	48099769	-1	None	FLJ21908, spag
12	RPAP3	ENSG00000005175	ENST00000548296	retained_intron	KNOWN	None	26151	None	None	48089725	48091484	-1	None	FLJ21908, spag
12	RPAP3	ENSG00000005175	ENST00000547706	processed_transcript	KNOWN	None	26151	None	None	48093798	48096599	-1	None	FLJ21908, spag
12	RPAP3	ENSG00000005175	ENST00000551293	retained_intron	KNOWN	None	26151	None	None	48094974	48099782	-1	None	FLJ21908, spag
10	HSP90AB7P	ENSG00000235838	ENST00000450068	processed_pseudogene	KNOWN	None	44701	None	None	9763926	9766379	-1	None	None
2	RN7SL104P	ENSG00000243541	ENST00000498686	misc_RNA	KNOWN	None	46120	None	None	16090812	16091103	-1	None	None
19	None	ENSG00000268282	ENST00000597698	processed_pseudogene	KNOWN	None	None	None	None	53507293	53508403	1	None	None
20	WFDC8	ENSG00000158901	ENST00000357199	protein_coding	KNOWN	CCDS13361	16163	726	241	44179792	44207965	-1	C20orf170	dJ461P17.1, WAP8
20	WFDC8	ENSG00000158901	ENST00000289953	protein_coding	KNOWN	CCDS13361	16163	726	241	44180401	44207965	-1	C20orf170	dJ461P17.1, WAP8
2	None	ENSG00000226764	ENST00000422415	lincRNA	KNOWN	None	None	None	None	16137171	16203007	-1	None	None
19	None	ENSG00000267943	ENST00000596769	lincRNA	KNOWN	None	None	None	None	53510765	53516433	1	None	None
6	GRM4	ENSG00000124493	ENST00000374181	protein_coding	KNOWN	CCDS4787	4596	2739	912	33989628	34101443	-1	None	GPRC1D, mGlu4, MGLUR4
6	GRM4	ENSG00000124493	ENST00000374177	protein_coding	KNOWN	CCDS59012	4596	2391	796	33989631	34123399	-1	None	GPRC1D, mGlu4, MGLUR4
6	GRM4	ENSG00000124493	ENST00000538487	protein_coding	KNOWN	CCDS4787	4596	2739	912	33990372	34113857	-1	None	GPRC1D, mGlu4, MGLUR4
6	GRM4	ENSG00000124493	ENST00000544773	protein_coding	KNOWN	CCDS59011	4596	2232	743	33990210	34078540	-1	None	GPRC1D, mGlu4, MGLUR4
6	GRM4	ENSG00000124493	ENST00000535756	protein_coding	KNOWN	CCDS59010	4596	2340	779	33989955	34071631	-1	None	GPRC1D, mGlu4, MGLUR4
6	GRM4	ENSG00000124493	ENST00000455714	protein_coding	KNOWN	CCDS59009	4596	2319	772	33990374	34069928	-1	None	GPRC1D, mGlu4, MGLUR4
6	GRM4	ENSG00000124493	ENST00000545715	protein_coding	KNOWN	None	4596	1776	591	33989915	34031412	-1	None	GPRC1D, mGlu4, MGLUR4
19	GP6	ENSG00000088053	ENST00000417454	protein_coding	KNOWN	CCDS46184	14388	1020	339	55525073	55549632	-1	None	GPVI
19	GP6	ENSG00000088053	ENST00000310373	protein_coding	KNOWN	CCDS42626	14388	1863	620	55525073	55549632	-1	None	GPVI
19	GP6	ENSG00000088053	ENST00000333884	protein_coding	KNOWN	CCDS58678	14388	966	321	55525073	55549632	-1	None	GPVI
19	GP6	ENSG00000088053	ENST00000465648	retained_intron	KNOWN	None	14388	None	None	55525894	55530187	-1	None	GPVI
19	GP6	ENSG00000088053	ENST00000468239	protein_coding	PUTATIVE	None	14388	352	116	55538973	55544233	-1	None	GPVI
7	BAIAP2L1	ENSG00000006453	ENST00000005260	protein_coding	KNOWN	CCDS34687	21649	1536	511	97920963	98030380	-1	None	IRTKS
7	BAIAP2L1	ENSG00000006453	ENST00000480580	retained_intron	KNOWN	None	21649	None	None	97933508	97936269	-1	None	IRTKS
7	BAIAP2L1	ENSG00000006453	ENST00000462558	processed_transcript	KNOWN	None	21649	None	None	97937616	98030380	-1	None	IRTKS
7	BAIAP2L1	ENSG00000006453	ENST00000473569	retained_intron	KNOWN	None	21649	None	None	97946549	97984738	-1	None	IRTKS
7	BAIAP2L1	ENSG00000006453	ENST00000479789	processed_transcript	KNOWN	None	21649	None	None	97984353	98029649	-1	None	IRTKS
19	None	ENSG00000268613	ENST00000596766	lincRNA	KNOWN	None	None	None	None	53638190	53638575	-1	None	None
2	None	ENSG00000236289	ENST00000426539	lincRNA	KNOWN	None	None	None	None	16190549	16225923	1	None	None
2	None	ENSG00000236289	ENST00000442387	lincRNA	KNOWN	None	None	None	None	16213520	16221239	1	None	None
X	ARL13A	ENSG00000174225	ENST00000450457	nonsense_mediated_decay	KNOWN	None	31709	873	290	100224697	100245818	1	ARL13	None
X	ARL13A	ENSG00000174225	ENST00000450049	protein_coding	NOVEL	CCDS55463	31709	771	256	100224700	100245795	1	ARL13	None
X	ARL13A	ENSG00000174225	ENST00000372953	protein_coding	PUTATIVE	None	31709	491	162	100240904	100245668	1	ARL13	None
X	ARL13A	ENSG00000174225	ENST00000494863	nonsense_mediated_decay	KNOWN	None	31709	373	123	100242393	100245818	1	ARL13	None
19	None	ENSG00000268842	ENST00000600257	antisense	KNOWN	None	None	None	None	53665681	53666816	1	None	None
15	DUOXA1	ENSG00000140254	ENST00000267803	protein_coding	KNOWN	CCDS10119	26507	1452	483	45409569	45422057	-1	None	FLJ32334, NUMBIP, NIP, mol
15	DUOXA1	ENSG00000140254	ENST00000559014	protein_coding	KNOWN	CCDS10119	26507	1452	483	45409572	45422059	-1	None	FLJ32334, NUMBIP, NIP, mol
15	DUOXA1	ENSG00000140254	ENST00000558996	protein_coding	KNOWN	None	26507	897	298	45409572	45422075	-1	None	FLJ32334, NUMBIP, NIP, mol
15	DUOXA1	ENSG00000140254	ENST00000430224	protein_coding	NOVEL	None	26507	1317	438	45409713	45415212	-1	None	FLJ32334, NUMBIP, NIP, mol
15	DUOXA1	ENSG00000140254	ENST00000559013	nonsense_mediated_decay	KNOWN	None	26507	500	165	45410754	45415151	-1	None	FLJ32334, NUMBIP, NIP, mol
15	DUOXA1	ENSG00000140254	ENST00000558422	protein_coding	KNOWN	None	26507	897	298	45410919	45422075	-1	None	FLJ32334, NUMBIP, NIP, mol
15	DUOXA1	ENSG00000140254	ENST00000560572	protein_coding	KNOWN	None	26507	1032	343	45411298	45415218	-1	None	FLJ32334, NUMBIP, NIP, mol
15	DUOXA1	ENSG00000140254	ENST00000558326	protein_coding	KNOWN	None	26507	232	76	45412977	45422077	-1	None	FLJ32334, NUMBIP, NIP, mol
15	DUOXA1	ENSG00000140254	ENST00000559988	protein_coding	KNOWN	None	26507	364	120	45412980	45422068	-1	None	FLJ32334, NUMBIP, NIP, mol
15	DUOXA1	ENSG00000140254	ENST00000559226	protein_coding	KNOWN	None	26507	215	70	45412994	45422075	-1	None	FLJ32334, NUMBIP, NIP, mol
15	DUOXA1	ENSG00000140254	ENST00000558377	protein_coding	KNOWN	None	26507	218	71	45413407	45422107	-1	None	FLJ32334, NUMBIP, NIP, mol
15	DUOXA1	ENSG00000140254	ENST00000559644	protein_coding	KNOWN	None	26507	47	14	45415166	45422136	-1	None	FLJ32334, NUMBIP, NIP, mol
15	DUOXA1	ENSG00000140254	ENST00000558851	protein_coding	KNOWN	None	26507	38	11	45415175	45422059	-1	None	FLJ32334, NUMBIP, NIP, mol
15	DUOXA1	ENSG00000140254	ENST00000559407	processed_transcript	PUTATIVE	None	26507	None	None	45421353	45422078	-1	None	FLJ32334, NUMBIP, NIP, mol
15	DUOXA1	ENSG00000140254	ENST00000558976	processed_transcript	PUTATIVE	None	26507	None	None	45421371	45422075	-1	None	FLJ32334, NUMBIP, NIP, mol
2	None	ENSG00000236989	ENST00000412381	lincRNA	KNOWN	None	None	None	None	16225344	16245963	-1	None	None
2	None	ENSG00000236989	ENST00000428280	lincRNA	KNOWN	None	None	None	None	16236548	16245784	-1	None	None
19	None	ENSG00000269051	ENST00000597550	lincRNA	KNOWN	None	None	None	None	53700364	53714268	1	None	None
19	None	ENSG00000269051	ENST00000601072	lincRNA	KNOWN	None	None	None	None	53700439	53707308	1	None	None
10	MTND4P19	ENSG00000230338	ENST00000446659	processed_pseudogene	KNOWN	None	42206	None	None	96533913	96534390	-1	None	None
2	POTEE	ENSG00000188219	ENST00000356920	protein_coding	KNOWN	CCDS46414	33895	3228	1075	131975882	132022965	1	A26C1A	POTE2, POTE-2, A26C1, POTE2gamma, CT104.2
2	POTEE	ENSG00000188219	ENST00000358087	protein_coding	KNOWN	None	33895	1185	394	131975924	132022416	1	A26C1A	POTE2, POTE-2, A26C1, POTE2gamma, CT104.2
19	ZNF562	ENSG00000171466	ENST00000293648	protein_coding	KNOWN	CCDS12217	25950	1065	354	9759330	9785734	-1	None	FLJ20079
19	ZNF562	ENSG00000171466	ENST00000453372	protein_coding	KNOWN	CCDS45956	25950	1281	426	9762955	9785720	-1	None	FLJ20079
19	ZNF562	ENSG00000171466	ENST00000590155	protein_coding	NOVEL	None	25950	1278	425	9763389	9785758	-1	None	FLJ20079
19	ZNF562	ENSG00000171466	ENST00000585688	nonsense_mediated_decay	KNOWN	None	25950	132	43	9763497	9785756	-1	None	FLJ20079
19	ZNF562	ENSG00000171466	ENST00000587392	protein_coding	PUTATIVE	None	25950	276	91	9764384	9785728	-1	None	FLJ20079
19	ZNF562	ENSG00000171466	ENST00000588653	protein_coding	PUTATIVE	None	25950	361	119	9764434	9785762	-1	None	FLJ20079
19	ZNF562	ENSG00000171466	ENST00000589542	protein_coding	KNOWN	None	25950	348	115	9767223	9785756	-1	None	FLJ20079
19	ZNF562	ENSG00000171466	ENST00000585350	protein_coding	KNOWN	None	25950	30	9	9770139	9785724	-1	None	FLJ20079
19	ZNF562	ENSG00000171466	ENST00000448622	protein_coding	KNOWN	CCDS45956	25950	1281	426	9759363	9785776	-1	None	FLJ20079
19	ZNF562	ENSG00000171466	ENST00000541032	protein_coding	KNOWN	None	25950	1170	389	9763254	9785762	-1	None	FLJ20079
19	ZNF562	ENSG00000171466	ENST00000453792	protein_coding	KNOWN	None	25950	1074	357	9763440	9785776	-1	None	FLJ20079
19	ZNF562	ENSG00000171466	ENST00000537617	protein_coding	KNOWN	None	25950	933	310	9763497	9785756	-1	None	FLJ20079
10	CYP2C58P	ENSG00000235199	ENST00000436281	processed_pseudogene	KNOWN	None	39969	None	None	96625609	96632886	-1	None	None
2	None	ENSG00000271315	ENST00000603389	processed_pseudogene	KNOWN	None	None	None	None	16330519	16330662	1	None	None
16	C16orf3	ENSG00000221819	ENST00000408886	protein_coding	KNOWN	CCDS32518	1197	354	117	90095316	90096309	-1	None	None
3	XXYLT1	ENSG00000173950	ENST00000310380	protein_coding	KNOWN	CCDS43188	26639	1182	393	194789008	194991896	-1	C3orf21	FLJ35155
3	XXYLT1	ENSG00000173950	ENST00000437101	protein_coding	KNOWN	None	26639	573	190	194789330	194905527	-1	C3orf21	FLJ35155
3	XXYLT1	ENSG00000173950	ENST00000460582	processed_transcript	PUTATIVE	None	26639	None	None	194790322	194808101	-1	C3orf21	FLJ35155
3	XXYLT1	ENSG00000173950	ENST00000473200	processed_transcript	PUTATIVE	None	26639	None	None	194790360	194874832	-1	C3orf21	FLJ35155
3	XXYLT1	ENSG00000173950	ENST00000429994	protein_coding	PUTATIVE	None	26639	744	247	194790406	194968649	-1	C3orf21	FLJ35155
3	XXYLT1	ENSG00000173950	ENST00000356740	protein_coding	KNOWN	None	26639	564	187	194790444	194842921	-1	C3orf21	FLJ35155
3	XXYLT1	ENSG00000173950	ENST00000418940	nonsense_mediated_decay	KNOWN	None	26639	255	84	194790699	194968585	-1	C3orf21	FLJ35155
3	XXYLT1	ENSG00000173950	ENST00000491138	processed_transcript	PUTATIVE	None	26639	None	None	194790766	194930595	-1	C3orf21	FLJ35155
3	XXYLT1	ENSG00000173950	ENST00000496644	processed_transcript	PUTATIVE	None	26639	None	None	194790767	194814938	-1	C3orf21	FLJ35155
3	XXYLT1	ENSG00000173950	ENST00000476897	processed_transcript	KNOWN	None	26639	None	None	194896384	194930343	-1	C3orf21	FLJ35155
3	XXYLT1	ENSG00000173950	ENST00000494175	processed_transcript	KNOWN	None	26639	None	None	194901123	194980809	-1	C3orf21	FLJ35155
3	XXYLT1	ENSG00000173950	ENST00000455281	nonsense_mediated_decay	KNOWN	None	26639	343	113	194947453	194991590	-1	C3orf21	FLJ35155
3	XXYLT1	ENSG00000173950	ENST00000355729	protein_coding	KNOWN	None	26639	573	190	194789330	194896402	-1	C3orf21	FLJ35155
19	ZNF818P	ENSG00000269001	ENST00000598377	processed_pseudogene	KNOWN	None	33265	None	None	53716241	53716649	1	ZNF818	FLJ46385
1	NTNG1	ENSG00000162631	ENST00000370074	protein_coding	KNOWN	CCDS30785	23319	1317	438	107682629	108024475	1	None	KIAA0976, Lmnt1
1	NTNG1	ENSG00000162631	ENST00000370068	protein_coding	KNOWN	CCDS44180	23319	1620	539	107683442	108025030	1	None	KIAA0976, Lmnt1
1	NTNG1	ENSG00000162631	ENST00000294649	retained_intron	KNOWN	None	23319	None	None	107683549	107953207	1	None	KIAA0976, Lmnt1
1	NTNG1	ENSG00000162631	ENST00000370067	protein_coding	NOVEL	None	23319	1383	460	107683661	108026080	1	None	KIAA0976, Lmnt1
1	NTNG1	ENSG00000162631	ENST00000462149	processed_transcript	KNOWN	None	23319	None	None	107683991	107691429	1	None	KIAA0976, Lmnt1
1	NTNG1	ENSG00000162631	ENST00000370076	processed_transcript	KNOWN	None	23319	None	None	107685698	107690922	1	None	KIAA0976, Lmnt1
1	NTNG1	ENSG00000162631	ENST00000370066	protein_coding	KNOWN	CCDS44179	23319	1443	480	107691216	108023462	1	None	KIAA0976, Lmnt1
1	NTNG1	ENSG00000162631	ENST00000370065	protein_coding	NOVEL	None	23319	1485	494	107691216	108023462	1	None	KIAA0976, Lmnt1
1	NTNG1	ENSG00000162631	ENST00000477948	processed_transcript	KNOWN	None	23319	None	None	107803425	107876645	1	None	KIAA0976, Lmnt1
1	NTNG1	ENSG00000162631	ENST00000370073	protein_coding	KNOWN	CCDS44180	23319	1620	539	107682629	108024450	1	None	KIAA0976, Lmnt1
1	NTNG1	ENSG00000162631	ENST00000370071	protein_coding	KNOWN	CCDS44179	23319	1443	480	107682629	108024450	1	None	KIAA0976, Lmnt1
1	NTNG1	ENSG00000162631	ENST00000542803	protein_coding	KNOWN	None	23319	1620	539	107682639	108024092	1	None	KIAA0976, Lmnt1
1	NTNG1	ENSG00000162631	ENST00000370061	protein_coding	KNOWN	None	23319	1518	505	107682639	108024092	1	None	KIAA0976, Lmnt1
1	NTNG1	ENSG00000162631	ENST00000370072	protein_coding	KNOWN	None	23319	1485	494	107682639	108024092	1	None	KIAA0976, Lmnt1
1	NTNG1	ENSG00000162631	ENST00000370070	protein_coding	KNOWN	None	23319	1383	460	107682639	108024092	1	None	KIAA0976, Lmnt1
2	None	ENSG00000251704	ENST00000515895	snoRNA	NOVEL	None	None	None	None	16380471	16380563	1	None	None
19	NDUFV2P1	ENSG00000267809	ENST00000596415	processed_pseudogene	KNOWN	None	7718	None	None	53727226	53728132	-1	None	None
2	None	ENSG00000226041	ENST00000444804	lincRNA	KNOWN	None	None	None	None	16383698	16385494	1	None	None
2	None	ENSG00000228876	ENST00000420404	lincRNA	KNOWN	None	None	None	None	16405315	16410408	1	None	None
5	None	ENSG00000240436	ENST00000469402	processed_pseudogene	KNOWN	None	None	None	None	61871778	61872098	-1	None	None
5	ISCA1P1	ENSG00000217416	ENST00000426679	processed_pseudogene	KNOWN	None	33263	None	None	62072704	62073090	-1	ISCA1L	None
5	ISCA1P1	ENSG00000217416	ENST00000542811	processed_pseudogene	KNOWN	None	33263	None	None	62072704	62072796	-1	ISCA1L	None
4	None	ENSG00000249943	ENST00000515331	processed_pseudogene	KNOWN	None	None	None	None	171735490	171735699	-1	None	None
7	ST7	ENSG00000004866	ENST00000393446	protein_coding	NOVEL	None	11351	1572	523	116593292	116870150	1	FAM4A1	TSG7, SEN4, ETS7q, HELG, RAY1, FAM4A
7	ST7	ENSG00000004866	ENST00000265437	protein_coding	KNOWN	CCDS5770	11351	1758	585	116593381	116863961	1	FAM4A1	TSG7, SEN4, ETS7q, HELG, RAY1, FAM4A
7	ST7	ENSG00000004866	ENST00000393451	protein_coding	KNOWN	CCDS5769	11351	1665	554	116593396	116870157	1	FAM4A1	TSG7, SEN4, ETS7q, HELG, RAY1, FAM4A
7	ST7	ENSG00000004866	ENST00000438863	nonsense_mediated_decay	KNOWN	None	11351	159	52	116593401	116778586	1	FAM4A1	TSG7, SEN4, ETS7q, HELG, RAY1, FAM4A
7	ST7	ENSG00000004866	ENST00000323984	protein_coding	NOVEL	None	11351	1734	577	116593433	116870157	1	FAM4A1	TSG7, SEN4, ETS7q, HELG, RAY1, FAM4A
7	ST7	ENSG00000004866	ENST00000393449	protein_coding	NOVEL	None	11351	1719	572	116593433	116870157	1	FAM4A1	TSG7, SEN4, ETS7q, HELG, RAY1, FAM4A
7	ST7	ENSG00000004866	ENST00000443979	nonsense_mediated_decay	KNOWN	None	11351	195	64	116593521	116862021	1	FAM4A1	TSG7, SEN4, ETS7q, HELG, RAY1, FAM4A
7	ST7	ENSG00000004866	ENST00000417919	protein_coding	KNOWN	None	11351	186	61	116593557	116759716	1	FAM4A1	TSG7, SEN4, ETS7q, HELG, RAY1, FAM4A
7	ST7	ENSG00000004866	ENST00000446490	protein_coding	PUTATIVE	None	11351	1674	557	116593575	116870153	1	FAM4A1	TSG7, SEN4, ETS7q, HELG, RAY1, FAM4A
7	ST7	ENSG00000004866	ENST00000421345	protein_coding	PUTATIVE	None	11351	237	78	116594445	116759773	1	FAM4A1	TSG7, SEN4, ETS7q, HELG, RAY1, FAM4A
7	ST7	ENSG00000004866	ENST00000432298	protein_coding	NOVEL	None	11351	1596	531	116654942	116870157	1	FAM4A1	TSG7, SEN4, ETS7q, HELG, RAY1, FAM4A
7	ST7	ENSG00000004866	ENST00000422922	protein_coding	NOVEL	None	11351	1527	508	116654942	116870157	1	FAM4A1	TSG7, SEN4, ETS7q, HELG, RAY1, FAM4A
7	ST7	ENSG00000004866	ENST00000449366	protein_coding	KNOWN	None	11351	261	86	116654990	116769863	1	FAM4A1	TSG7, SEN4, ETS7q, HELG, RAY1, FAM4A
7	ST7	ENSG00000004866	ENST00000487459	processed_transcript	KNOWN	None	11351	None	None	116660238	116830986	1	FAM4A1	TSG7, SEN4, ETS7q, HELG, RAY1, FAM4A
7	ST7	ENSG00000004866	ENST00000434836	protein_coding	PUTATIVE	None	11351	73	23	116660272	116739893	1	FAM4A1	TSG7, SEN4, ETS7q, HELG, RAY1, FAM4A
7	ST7	ENSG00000004866	ENST00000467538	processed_transcript	KNOWN	None	11351	None	None	116660272	116770559	1	FAM4A1	TSG7, SEN4, ETS7q, HELG, RAY1, FAM4A
7	ST7	ENSG00000004866	ENST00000393443	protein_coding	KNOWN	None	11351	1500	499	116660272	116870157	1	FAM4A1	TSG7, SEN4, ETS7q, HELG, RAY1, FAM4A
7	ST7	ENSG00000004866	ENST00000465133	protein_coding	PUTATIVE	None	11351	756	251	116660281	116777396	1	FAM4A1	TSG7, SEN4, ETS7q, HELG, RAY1, FAM4A
7	ST7	ENSG00000004866	ENST00000477742	protein_coding	PUTATIVE	None	11351	293	96	116660299	116769901	1	FAM4A1	TSG7, SEN4, ETS7q, HELG, RAY1, FAM4A
7	ST7	ENSG00000004866	ENST00000462544	processed_transcript	KNOWN	None	11351	None	None	116660313	116738756	1	FAM4A1	TSG7, SEN4, ETS7q, HELG, RAY1, FAM4A
7	ST7	ENSG00000004866	ENST00000393447	protein_coding	KNOWN	None	11351	1605	534	116660331	116870157	1	FAM4A1	TSG7, SEN4, ETS7q, HELG, RAY1, FAM4A
7	ST7	ENSG00000004866	ENST00000393444	protein_coding	KNOWN	None	11351	1536	511	116660331	116870157	1	FAM4A1	TSG7, SEN4, ETS7q, HELG, RAY1, FAM4A
7	ST7	ENSG00000004866	ENST00000420755	protein_coding	PUTATIVE	None	11351	416	137	116716578	116771945	1	FAM4A1	TSG7, SEN4, ETS7q, HELG, RAY1, FAM4A
7	ST7	ENSG00000004866	ENST00000490039	protein_coding	PUTATIVE	None	11351	1684	560	116739816	116870157	1	FAM4A1	TSG7, SEN4, ETS7q, HELG, RAY1, FAM4A
7	ST7	ENSG00000004866	ENST00000489293	processed_transcript	KNOWN	None	11351	None	None	116759740	116838451	1	FAM4A1	TSG7, SEN4, ETS7q, HELG, RAY1, FAM4A
7	ST7	ENSG00000004866	ENST00000485394	processed_transcript	KNOWN	None	11351	None	None	116813463	116849991	1	FAM4A1	TSG7, SEN4, ETS7q, HELG, RAY1, FAM4A
7	ST7	ENSG00000004866	ENST00000465641	processed_transcript	KNOWN	None	11351	None	None	116822723	116862116	1	FAM4A1	TSG7, SEN4, ETS7q, HELG, RAY1, FAM4A
7	ST7	ENSG00000004866	ENST00000543837	processed_transcript	KNOWN	None	11351	None	None	116822735	116859144	1	FAM4A1	TSG7, SEN4, ETS7q, HELG, RAY1, FAM4A
7	ST7	ENSG00000004866	ENST00000464020	retained_intron	KNOWN	None	11351	None	None	116859079	116863187	1	FAM4A1	TSG7, SEN4, ETS7q, HELG, RAY1, FAM4A
2	None	ENSG00000231266	ENST00000439745	lincRNA	KNOWN	None	None	None	None	16408295	16409462	-1	None	None
4	RNU6ATAC13P	ENSG00000251961	ENST00000516152	snRNA	KNOWN	None	46912	None	None	171812618	171812748	1	None	None
5	None	ENSG00000249579	ENST00000507903	processed_pseudogene	KNOWN	None	None	None	None	62318746	62319316	-1	None	None
3	PPARG	ENSG00000132170	ENST00000397010	protein_coding	KNOWN	CCDS2610	9236	1434	477	12328867	12475843	1	None	PPARG1, PPARG2, NR1C3, PPARgamma
3	PPARG	ENSG00000132170	ENST00000397029	protein_coding	KNOWN	None	9236	396	131	12328887	12422990	1	None	PPARG1, PPARG2, NR1C3, PPARgamma
3	PPARG	ENSG00000132170	ENST00000309576	protein_coding	KNOWN	CCDS2610	9236	1434	477	12329359	12475843	1	None	PPARG1, PPARG2, NR1C3, PPARgamma
3	PPARG	ENSG00000132170	ENST00000397015	protein_coding	KNOWN	CCDS2610	9236	1434	477	12329400	12475810	1	None	PPARG1, PPARG2, NR1C3, PPARgamma
3	PPARG	ENSG00000132170	ENST00000455517	protein_coding	KNOWN	None	9236	129	42	12330337	12421333	1	None	PPARG1, PPARG2, NR1C3, PPARgamma
3	PPARG	ENSG00000132170	ENST00000397012	protein_coding	KNOWN	CCDS2610	9236	1434	477	12330337	12475843	1	None	PPARG1, PPARG2, NR1C3, PPARgamma
3	PPARG	ENSG00000132170	ENST00000397026	protein_coding	NOVEL	None	9236	1452	483	12330570	12475838	1	None	PPARG1, PPARG2, NR1C3, PPARgamma
3	PPARG	ENSG00000132170	ENST00000497594	retained_intron	KNOWN	None	9236	None	None	12330610	12448345	1	None	PPARG1, PPARG2, NR1C3, PPARgamma
3	PPARG	ENSG00000132170	ENST00000438682	protein_coding	KNOWN	None	9236	297	98	12347272	12422891	1	None	PPARG1, PPARG2, NR1C3, PPARgamma
3	PPARG	ENSG00000132170	ENST00000397000	protein_coding	PUTATIVE	None	9236	753	250	12353887	12475715	1	None	PPARG1, PPARG2, NR1C3, PPARgamma
3	PPARG	ENSG00000132170	ENST00000477039	retained_intron	KNOWN	None	9236	None	None	12392971	12448345	1	None	PPARG1, PPARG2, NR1C3, PPARgamma
3	PPARG	ENSG00000132170	ENST00000287820	protein_coding	KNOWN	CCDS2609	9236	1518	505	12392971	12475855	1	None	PPARG1, PPARG2, NR1C3, PPARgamma
3	PPARG	ENSG00000132170	ENST00000397023	nonsense_mediated_decay	KNOWN	None	9236	123	40	12393068	12475843	1	None	PPARG1, PPARG2, NR1C3, PPARgamma
3	PPARG	ENSG00000132170	ENST00000396999	nonsense_mediated_decay	KNOWN	None	9236	561	186	12421205	12458653	1	None	PPARG1, PPARG2, NR1C3, PPARgamma
3	PPARG	ENSG00000132170	ENST00000539812	protein_coding	KNOWN	None	9236	747	248	12353887	12475715	1	None	PPARG1, PPARG2, NR1C3, PPARgamma
2	None	ENSG00000232444	ENST00000420130	lincRNA	KNOWN	None	None	None	None	16497592	16500834	-1	None	None
4	None	ENSG00000248872	ENST00000505329	lincRNA	KNOWN	None	None	None	None	171961753	171980314	1	None	None
4	None	ENSG00000248872	ENST00000503929	lincRNA	KNOWN	None	None	None	None	171961759	171980314	1	None	None
5	None	ENSG00000248185	ENST00000502728	processed_pseudogene	KNOWN	None	None	None	None	62597350	62597883	1	None	None
7	HOXA9	ENSG00000078399	ENST00000343483	protein_coding	KNOWN	CCDS5409	5109	819	272	27202054	27205149	-1	HOX1G, HOX1	None
7	HOXA9	ENSG00000078399	ENST00000497089	processed_transcript	KNOWN	None	5109	None	None	27202219	27209063	-1	HOX1G, HOX1	None
7	HOXA9	ENSG00000078399	ENST00000487384	processed_transcript	KNOWN	None	5109	None	None	27202926	27210117	-1	HOX1G, HOX1	None
7	HOXA9	ENSG00000078399	ENST00000396345	protein_coding	NOVEL	None	5109	321	106	27203140	27205145	-1	HOX1G, HOX1	None
7	HOXA9	ENSG00000078399	ENST00000489695	processed_transcript	KNOWN	None	5109	None	None	27203301	27209356	-1	HOX1G, HOX1	None
2	None	ENSG00000224400	ENST00000425176	lincRNA	KNOWN	None	None	None	None	16535524	16613970	1	None	None
2	None	ENSG00000224400	ENST00000427950	lincRNA	KNOWN	None	None	None	None	16536453	16613970	1	None	None
5	None	ENSG00000248285	ENST00000502882	sense_overlapping	KNOWN	None	None	None	None	63253720	63276870	-1	None	None
19	ZNF224	ENSG00000267680	ENST00000589680	protein_coding	KNOWN	None	13017	198	65	44598492	44605341	1	ZNF255, ZNF27	BMZF-2, KOX22
19	ZNF224	ENSG00000267680	ENST00000590614	retained_intron	KNOWN	None	13017	None	None	44598540	44605241	1	ZNF255, ZNF27	BMZF-2, KOX22
19	ZNF224	ENSG00000267680	ENST00000589060	retained_intron	KNOWN	None	13017	None	None	44598543	44600094	1	ZNF255, ZNF27	BMZF-2, KOX22
19	ZNF224	ENSG00000267680	ENST00000336976	protein_coding	KNOWN	CCDS33046	13017	2124	707	44598545	44612479	1	ZNF255, ZNF27	BMZF-2, KOX22
19	ZNF224	ENSG00000267680	ENST00000586978	processed_transcript	KNOWN	None	13017	None	None	44598938	44602005	1	ZNF255, ZNF27	BMZF-2, KOX22
19	ZNF224	ENSG00000267680	ENST00000589870	protein_coding	KNOWN	None	13017	160	52	44600199	44605303	1	ZNF255, ZNF27	BMZF-2, KOX22
19	ZNF224	ENSG00000267680	ENST00000591511	protein_coding	KNOWN	None	13017	373	123	44601862	44610686	1	ZNF255, ZNF27	BMZF-2, KOX22
19	ZNF224	ENSG00000267680	ENST00000591551	retained_intron	KNOWN	None	13017	None	None	44609486	44612479	1	ZNF255, ZNF27	BMZF-2, KOX22
5	None	ENSG00000236068	ENST00000438016	unitary_pseudogene	KNOWN	None	None	None	None	63700339	63782442	-1	None	None
2	None	ENSG00000237633	ENST00000446357	antisense	KNOWN	None	None	None	None	16704444	16710655	1	None	None
2	None	ENSG00000237633	ENST00000443066	antisense	KNOWN	None	None	None	None	16704458	16709077	1	None	None
21	MX1	ENSG00000157601	ENST00000490220	processed_transcript	KNOWN	None	7532	None	None	42792231	42799793	1	None	IFI-78K, MxA
21	MX1	ENSG00000157601	ENST00000468506	retained_intron	KNOWN	None	7532	None	None	42792293	42795204	1	None	IFI-78K, MxA
21	MX1	ENSG00000157601	ENST00000398600	protein_coding	KNOWN	CCDS13673	7532	1989	662	42792442	42831141	1	None	IFI-78K, MxA
21	MX1	ENSG00000157601	ENST00000413778	protein_coding	KNOWN	None	7532	204	67	42793256	42807862	1	None	IFI-78K, MxA
21	MX1	ENSG00000157601	ENST00000419044	protein_coding	KNOWN	None	7532	77	24	42797958	42804074	1	None	IFI-78K, MxA
21	MX1	ENSG00000157601	ENST00000398598	protein_coding	KNOWN	CCDS13673	7532	1989	662	42798094	42831141	1	None	IFI-78K, MxA
21	MX1	ENSG00000157601	ENST00000424365	protein_coding	KNOWN	None	7532	591	196	42798105	42811775	1	None	IFI-78K, MxA
21	MX1	ENSG00000157601	ENST00000484465	retained_intron	KNOWN	None	7532	None	None	42798119	42799997	1	None	IFI-78K, MxA
21	MX1	ENSG00000157601	ENST00000417963	protein_coding	KNOWN	None	7532	604	200	42798132	42812826	1	None	IFI-78K, MxA
21	MX1	ENSG00000157601	ENST00000441677	protein_coding	KNOWN	None	7532	233	76	42798168	42807891	1	None	IFI-78K, MxA
21	MX1	ENSG00000157601	ENST00000478268	retained_intron	KNOWN	None	7532	None	None	42798197	42801848	1	None	IFI-78K, MxA
21	MX1	ENSG00000157601	ENST00000427464	protein_coding	KNOWN	None	7532	105	34	42801408	42804102	1	None	IFI-78K, MxA
21	MX1	ENSG00000157601	ENST00000288383	protein_coding	PUTATIVE	None	7532	1920	639	42803641	42831141	1	None	IFI-78K, MxA
21	MX1	ENSG00000157601	ENST00000467510	retained_intron	KNOWN	None	7532	None	None	42815406	42817413	1	None	IFI-78K, MxA
21	MX1	ENSG00000157601	ENST00000486275	retained_intron	KNOWN	None	7532	None	None	42817397	42821712	1	None	IFI-78K, MxA
21	MX1	ENSG00000157601	ENST00000491110	retained_intron	KNOWN	None	7532	None	None	42822855	42824747	1	None	IFI-78K, MxA
21	MX1	ENSG00000157601	ENST00000455164	protein_coding	KNOWN	CCDS13673	7532	1989	662	42798103	42831138	1	None	IFI-78K, MxA
20	WFDC9	ENSG00000180205	ENST00000326000	protein_coding	KNOWN	CCDS13362	20380	270	89	44236578	44259907	-1	None	WAP9, dJ688G8.2
2	None	ENSG00000223536	ENST00000423925	lincRNA	KNOWN	None	None	None	None	16909391	16948676	1	None	None
2	None	ENSG00000223536	ENST00000448650	lincRNA	KNOWN	None	None	None	None	16909391	16948822	1	None	None
5	RN7SL169P	ENSG00000242547	ENST00000485643	misc_RNA	KNOWN	None	46185	None	None	63835331	63835621	1	None	None
12	USP30	ENSG00000135093	ENST00000392784	protein_coding	PUTATIVE	None	20065	1461	486	109460894	109524182	1	None	MGC10702, FLJ40511
12	USP30	ENSG00000135093	ENST00000257548	protein_coding	KNOWN	CCDS9123	20065	1554	517	109490391	109525831	1	None	MGC10702, FLJ40511
12	USP30	ENSG00000135093	ENST00000536723	protein_coding	PUTATIVE	None	20065	532	176	109490396	109510155	1	None	MGC10702, FLJ40511
12	USP30	ENSG00000135093	ENST00000377883	nonsense_mediated_decay	KNOWN	None	20065	108	35	109490409	109520722	1	None	MGC10702, FLJ40511
12	USP30	ENSG00000135093	ENST00000536393	protein_coding	NOVEL	None	20065	439	145	109490447	109510152	1	None	MGC10702, FLJ40511
12	USP30	ENSG00000135093	ENST00000539121	protein_coding	PUTATIVE	None	20065	286	94	109490701	109495901	1	None	MGC10702, FLJ40511
12	USP30	ENSG00000135093	ENST00000467307	retained_intron	KNOWN	None	20065	None	None	109505399	109519433	1	None	MGC10702, FLJ40511
12	USP30	ENSG00000135093	ENST00000479219	retained_intron	KNOWN	None	20065	None	None	109520341	109525828	1	None	MGC10702, FLJ40511
12	USP30	ENSG00000135093	ENST00000491362	retained_intron	KNOWN	None	20065	None	None	109520500	109523727	1	None	MGC10702, FLJ40511
12	USP30	ENSG00000135093	ENST00000470117	nonsense_mediated_decay	KNOWN	None	20065	276	91	109522868	109524129	1	None	MGC10702, FLJ40511
5	RNU6-294P	ENSG00000201869	ENST00000364999	snRNA	KNOWN	None	47257	None	None	63869396	63869497	1	None	None
3	ALS2CL	ENSG00000178038	ENST00000486301	retained_intron	KNOWN	None	20605	None	None	46710487	46718945	-1	None	FLJ36525, RN49018, DKFZp686I0110
3	ALS2CL	ENSG00000178038	ENST00000318962	protein_coding	KNOWN	CCDS2743	20605	2862	953	46710679	46735191	-1	None	FLJ36525, RN49018, DKFZp686I0110
3	ALS2CL	ENSG00000178038	ENST00000434140	nonsense_mediated_decay	KNOWN	None	20605	1608	535	46711772	46735194	-1	None	FLJ36525, RN49018, DKFZp686I0110
3	ALS2CL	ENSG00000178038	ENST00000415953	protein_coding	KNOWN	CCDS2743	20605	2862	953	46712055	46735143	-1	None	FLJ36525, RN49018, DKFZp686I0110
3	ALS2CL	ENSG00000178038	ENST00000383742	protein_coding	KNOWN	CCDS43080	20605	903	300	46712062	46718899	-1	None	FLJ36525, RN49018, DKFZp686I0110
3	ALS2CL	ENSG00000178038	ENST00000431015	nonsense_mediated_decay	KNOWN	None	20605	1572	523	46712089	46735166	-1	None	FLJ36525, RN49018, DKFZp686I0110
3	ALS2CL	ENSG00000178038	ENST00000450172	nonsense_mediated_decay	KNOWN	None	20605	1440	479	46712089	46735171	-1	None	FLJ36525, RN49018, DKFZp686I0110
3	ALS2CL	ENSG00000178038	ENST00000423707	nonsense_mediated_decay	KNOWN	None	20605	908	301	46712090	46729681	-1	None	FLJ36525, RN49018, DKFZp686I0110
3	ALS2CL	ENSG00000178038	ENST00000498817	retained_intron	KNOWN	None	20605	None	None	46712274	46716188	-1	None	FLJ36525, RN49018, DKFZp686I0110
3	ALS2CL	ENSG00000178038	ENST00000473484	retained_intron	KNOWN	None	20605	None	None	46712978	46716083	-1	None	FLJ36525, RN49018, DKFZp686I0110
2	None	ENSG00000224604	ENST00000444710	processed_pseudogene	KNOWN	None	None	None	None	17035087	17036551	-1	None	None
5	MRPL49P1	ENSG00000224296	ENST00000505951	processed_pseudogene	KNOWN	None	29717	None	None	63970680	63971214	1	None	None
13	ARGLU1	ENSG00000134884	ENST00000400198	protein_coding	KNOWN	CCDS41906	25482	822	273	107194021	107220512	-1	None	FLJ10154
13	ARGLU1	ENSG00000134884	ENST00000472226	processed_transcript	KNOWN	None	25482	None	None	107195821	107210043	-1	None	FLJ10154
13	ARGLU1	ENSG00000134884	ENST00000375926	protein_coding	KNOWN	None	25482	429	142	107196176	107214299	-1	None	FLJ10154
13	ARGLU1	ENSG00000134884	ENST00000360629	protein_coding	KNOWN	None	25482	206	67	107209454	107219971	-1	None	FLJ10154
HSCHR6_MHC_SSTO	HLA-DPB1	ENSG00000226826	ENST00000433800	protein_coding	KNOWN	None	4940	777	258	33183349	33194624	1	HLA-DP1B	None
HSCHR6_MHC_SSTO	HLA-DPB1	ENSG00000226826	ENST00000444931	protein_coding	KNOWN	None	4940	687	228	33183395	33194624	1	HLA-DP1B	None
HSCHR6_MHC_SSTO	HLA-DPB1	ENSG00000226826	ENST00000492951	retained_intron	KNOWN	None	4940	None	None	33183433	33188655	1	HLA-DP1B	None
HSCHR6_MHC_SSTO	HLA-DPB1	ENSG00000226826	ENST00000461155	processed_transcript	KNOWN	None	4940	None	None	33187809	33191435	1	HLA-DP1B	None
HSCHR6_MHC_SSTO	HLA-DPB1	ENSG00000226826	ENST00000492866	processed_transcript	KNOWN	None	4940	None	None	33187809	33192380	1	HLA-DP1B	None
HSCHR6_MHC_SSTO	HLA-DPB1	ENSG00000226826	ENST00000493721	processed_transcript	KNOWN	None	4940	None	None	33187866	33192654	1	HLA-DP1B	None
HSCHR6_MHC_SSTO	HLA-DPB1	ENSG00000226826	ENST00000418444	protein_coding	KNOWN	None	4940	688	228	33187910	33193312	1	HLA-DP1B	None
HSCHR6_MHC_SSTO	HLA-DPB1	ENSG00000226826	ENST00000447674	protein_coding	KNOWN	None	4940	707	234	33188095	33194624	1	HLA-DP1B	None
HSCHR6_MHC_SSTO	HLA-DPB1	ENSG00000226826	ENST00000488076	processed_transcript	KNOWN	None	4940	None	None	33188364	33191313	1	HLA-DP1B	None
HSCHR6_MHC_SSTO	HLA-DPB1	ENSG00000226826	ENST00000552574	protein_coding	KNOWN	None	4940	249	82	33183406	33194622	1	HLA-DP1B	None
5	None	ENSG00000272370	ENST00000607786	lincRNA	KNOWN	None	None	None	None	64315865	64316378	1	None	None
2	None	ENSG00000237670	ENST00000421181	lincRNA	KNOWN	None	None	None	None	17151301	17155764	1	None	None
X	ZRSR2	ENSG00000169249	ENST00000380308	protein_coding	KNOWN	None	23019	444	147	15808595	15819913	1	U2AF1L2	U2AF1-RS2, URP
X	ZRSR2	ENSG00000169249	ENST00000307771	protein_coding	KNOWN	CCDS14172	23019	1449	482	15808595	15841383	1	U2AF1L2	U2AF1-RS2, URP
X	ZRSR2	ENSG00000169249	ENST00000468028	processed_transcript	KNOWN	None	23019	None	None	15808635	15821919	1	U2AF1L2	U2AF1-RS2, URP
2	RN7SKP168	ENSG00000222842	ENST00000410910	misc_RNA	KNOWN	None	45892	None	None	17304108	17304407	-1	None	None
HSCHR6_MHC_MANN	HLA-A	ENSG00000231834	ENST00000456012	protein_coding	KNOWN	None	4931	1098	365	29898024	29902665	1	None	None
HSCHR6_MHC_MANN	HLA-A	ENSG00000231834	ENST00000470780	nonsense_mediated_decay	KNOWN	None	4931	1029	342	29899010	29902665	1	None	None
HSCHR6_MHC_MANN	HLA-A	ENSG00000231834	ENST00000492759	retained_intron	KNOWN	None	4931	None	None	29899313	29902665	1	None	None
HSCHR6_MHC_MANN	HLA-A	ENSG00000231834	ENST00000450342	protein_coding	KNOWN	None	4931	900	299	29899314	29902665	1	None	None
HSCHR6_MHC_MANN	HLA-A	ENSG00000231834	ENST00000473059	retained_intron	KNOWN	None	4931	None	None	29899317	29902665	1	None	None
HSCHR6_MHC_MANN	HLA-A	ENSG00000231834	ENST00000481018	retained_intron	KNOWN	None	4931	None	None	29899319	29902062	1	None	None
HSCHR6_MHC_MANN	HLA-A	ENSG00000231834	ENST00000462184	retained_intron	KNOWN	None	4931	None	None	29899319	29902062	1	None	None
HSCHR6_MHC_MANN	HLA-A	ENSG00000231834	ENST00000550728	protein_coding	KNOWN	None	4931	1098	365	29899266	29902551	1	None	None
2	ZFYVE9P2	ENSG00000214843	ENST00000447321	processed_pseudogene	KNOWN	None	39046	None	None	17465559	17466162	1	None	None
9	SURF2	ENSG00000148291	ENST00000371964	protein_coding	KNOWN	CCDS6967	11475	771	256	136223428	136228045	1	None	None
9	SURF2	ENSG00000148291	ENST00000495524	processed_transcript	KNOWN	None	11475	None	None	136223454	136226983	1	None	None
9	SURF2	ENSG00000148291	ENST00000486887	processed_transcript	KNOWN	None	11475	None	None	136223924	136226900	1	None	None
2	PSMC1P10	ENSG00000236348	ENST00000434820	processed_pseudogene	KNOWN	None	39785	None	None	17566358	17567684	1	None	None
7	TMEM176A	ENSG00000002933	ENST00000484928	protein_coding	KNOWN	CCDS5909	24930	708	235	150497491	150502197	1	None	HCA112
7	TMEM176A	ENSG00000002933	ENST00000004103	protein_coding	KNOWN	CCDS5909	24930	708	235	150497631	150502208	1	None	HCA112
7	TMEM176A	ENSG00000002933	ENST00000494349	retained_intron	KNOWN	None	24930	None	None	150497876	150502206	1	None	HCA112
7	TMEM176A	ENSG00000002933	ENST00000475710	retained_intron	KNOWN	None	24930	None	None	150497886	150499377	1	None	HCA112
7	TMEM176A	ENSG00000002933	ENST00000461345	protein_coding	NOVEL	None	24930	531	176	150498622	150502024	1	None	HCA112
7	TMEM176A	ENSG00000002933	ENST00000475536	protein_coding	NOVEL	None	24930	534	177	150498783	150502206	1	None	HCA112
7	TMEM176A	ENSG00000002933	ENST00000468689	protein_coding	PUTATIVE	None	24930	354	117	150498846	150500896	1	None	HCA112
7	TMEM176A	ENSG00000002933	ENST00000462826	retained_intron	KNOWN	None	24930	None	None	150499144	150502202	1	None	HCA112
7	TMEM176A	ENSG00000002933	ENST00000475007	retained_intron	KNOWN	None	24930	None	None	150500307	150502201	1	None	HCA112
7	TMEM176A	ENSG00000002933	ENST00000481305	retained_intron	KNOWN	None	24930	None	None	150500392	150502200	1	None	HCA112
7	TMEM176A	ENSG00000002933	ENST00000474166	retained_intron	KNOWN	None	24930	None	None	150500707	150501769	1	None	HCA112
20	WFDC10A	ENSG00000180305	ENST00000372643	protein_coding	KNOWN	CCDS13363	16139	240	79	44258165	44259835	1	C20orf146	dJ688G8.3, WAP10
10	None	ENSG00000225354	ENST00000458096	processed_pseudogene	KNOWN	None	None	None	None	96642311	96643100	1	None	None
2	None	ENSG00000212455	ENST00000391153	snoRNA	NOVEL	None	None	None	None	18221872	18221999	-1	None	None
2	None	ENSG00000260331	ENST00000565944	lincRNA	KNOWN	None	None	None	None	18728652	18729470	-1	None	None
2	RNU6-1215P	ENSG00000207170	ENST00000384441	snRNA	KNOWN	None	48178	None	None	18764633	18764734	-1	None	None
1	DHDDS	ENSG00000117682	ENST00000434391	nonsense_mediated_decay	KNOWN	None	20603	222	73	26758773	26797785	1	None	HDS, FLJ13102, DS
1	DHDDS	ENSG00000117682	ENST00000427245	protein_coding	PUTATIVE	None	20603	597	198	26758807	26775056	1	None	HDS, FLJ13102, DS
1	DHDDS	ENSG00000117682	ENST00000527611	retained_intron	KNOWN	None	20603	None	None	26758814	26759624	1	None	HDS, FLJ13102, DS
1	DHDDS	ENSG00000117682	ENST00000374186	retained_intron	KNOWN	None	20603	None	None	26758820	26769571	1	None	HDS, FLJ13102, DS
1	DHDDS	ENSG00000117682	ENST00000525682	protein_coding	NOVEL	CCDS57983	20603	900	299	26758830	26795864	1	None	HDS, FLJ13102, DS
1	DHDDS	ENSG00000117682	ENST00000236342	protein_coding	KNOWN	CCDS282	20603	1002	333	26758830	26795930	1	None	HDS, FLJ13102, DS
1	DHDDS	ENSG00000117682	ENST00000526219	protein_coding	KNOWN	CCDS57984	20603	885	294	26758831	26795717	1	None	HDS, FLJ13102, DS
1	DHDDS	ENSG00000117682	ENST00000374185	protein_coding	PUTATIVE	None	20603	630	209	26758833	26774667	1	None	HDS, FLJ13102, DS
1	DHDDS	ENSG00000117682	ENST00000487944	retained_intron	KNOWN	None	20603	None	None	26758836	26765225	1	None	HDS, FLJ13102, DS
1	DHDDS	ENSG00000117682	ENST00000360009	protein_coding	KNOWN	CCDS281	20603	1005	334	26758846	26797785	1	None	HDS, FLJ13102, DS
1	DHDDS	ENSG00000117682	ENST00000533087	protein_coding	KNOWN	None	20603	497	164	26758857	26774106	1	None	HDS, FLJ13102, DS
1	DHDDS	ENSG00000117682	ENST00000531312	protein_coding	KNOWN	None	20603	392	129	26758858	26772875	1	None	HDS, FLJ13102, DS
1	DHDDS	ENSG00000117682	ENST00000525165	protein_coding	KNOWN	None	20603	367	121	26758859	26772850	1	None	HDS, FLJ13102, DS
1	DHDDS	ENSG00000117682	ENST00000525326	protein_coding	KNOWN	None	20603	213	70	26758862	26769254	1	None	HDS, FLJ13102, DS
1	DHDDS	ENSG00000117682	ENST00000525546	protein_coding	KNOWN	None	20603	255	84	26758862	26769296	1	None	HDS, FLJ13102, DS
1	DHDDS	ENSG00000117682	ENST00000528557	processed_transcript	KNOWN	None	20603	None	None	26758862	26769380	1	None	HDS, FLJ13102, DS
1	DHDDS	ENSG00000117682	ENST00000526278	retained_intron	KNOWN	None	20603	None	None	26758877	26772923	1	None	HDS, FLJ13102, DS
1	DHDDS	ENSG00000117682	ENST00000436153	protein_coding	KNOWN	None	20603	521	172	26758881	26774130	1	None	HDS, FLJ13102, DS
1	DHDDS	ENSG00000117682	ENST00000529688	retained_intron	KNOWN	None	20603	None	None	26758889	26772873	1	None	HDS, FLJ13102, DS
1	DHDDS	ENSG00000117682	ENST00000530781	protein_coding	KNOWN	None	20603	180	59	26758894	26764775	1	None	HDS, FLJ13102, DS
1	DHDDS	ENSG00000117682	ENST00000531955	processed_transcript	KNOWN	None	20603	None	None	26759217	26769380	1	None	HDS, FLJ13102, DS
1	DHDDS	ENSG00000117682	ENST00000525410	retained_intron	KNOWN	None	20603	None	None	26759269	26772887	1	None	HDS, FLJ13102, DS
1	DHDDS	ENSG00000117682	ENST00000430232	protein_coding	NOVEL	None	20603	648	215	26759382	26786635	1	None	HDS, FLJ13102, DS
1	DHDDS	ENSG00000117682	ENST00000431933	protein_coding	NOVEL	None	20603	510	169	26769327	26797785	1	None	HDS, FLJ13102, DS
1	DHDDS	ENSG00000117682	ENST00000416052	protein_coding	PUTATIVE	None	20603	487	161	26772855	26794018	1	None	HDS, FLJ13102, DS
2	None	ENSG00000224626	ENST00000431697	lincRNA	KNOWN	None	None	None	None	18966073	18969018	1	None	None
2	None	ENSG00000236204	ENST00000424895	lincRNA	KNOWN	None	None	None	None	19167729	19226726	-1	None	None
2	None	ENSG00000236204	ENST00000432142	lincRNA	KNOWN	None	None	None	None	19203707	19505815	-1	None	None
2	None	ENSG00000236204	ENST00000418165	lincRNA	KNOWN	None	None	None	None	19226415	19505798	-1	None	None
2	None	ENSG00000236204	ENST00000449124	lincRNA	KNOWN	None	None	None	None	19244622	19546509	-1	None	None
20	WFDC11	ENSG00000180083	ENST00000356562	protein_coding	KNOWN	CCDS13364	20478	264	87	44277202	44298909	-1	None	WAP11
20	WFDC11	ENSG00000180083	ENST00000324384	protein_coding	KNOWN	CCDS13364	20478	264	87	44277203	44298878	-1	None	WAP11
17	ZNF594	ENSG00000180626	ENST00000399604	protein_coding	KNOWN	CCDS42241	29392	2424	807	5082831	5087692	-1	None	KIAA1871
17	ZNF594	ENSG00000180626	ENST00000575779	protein_coding	KNOWN	CCDS42241	29392	2424	807	5083373	5095178	-1	None	KIAA1871
17	ZNF594	ENSG00000180626	ENST00000576772	protein_coding	KNOWN	None	29392	306	101	5087246	5095157	-1	None	KIAA1871
16	URAHP	ENSG00000222019	ENST00000409873	processed_transcript	KNOWN	None	43695	None	None	90106169	90114033	-1	None	URAH
16	URAHP	ENSG00000222019	ENST00000517889	protein_coding	NOVEL	None	43695	513	170	90109310	90114181	-1	None	URAH
16	URAHP	ENSG00000222019	ENST00000409768	nonsense_mediated_decay	KNOWN	None	43695	147	48	90109837	90111018	-1	None	URAH
16	URAHP	ENSG00000222019	ENST00000521551	protein_coding	NOVEL	None	43695	296	97	90110210	90113598	-1	None	URAH
22	RN7SL263P	ENSG00000240160	ENST00000467969	misc_RNA	KNOWN	None	46279	None	None	23603971	23604258	-1	None	None
1	RFWD2	ENSG00000143207	ENST00000461830	retained_intron	KNOWN	None	17440	None	None	175913967	176050392	-1	None	FLJ10416, COP1, RNF200
1	RFWD2	ENSG00000143207	ENST00000367667	nonsense_mediated_decay	KNOWN	None	17440	340	112	175913967	176175827	-1	None	FLJ10416, COP1, RNF200
1	RFWD2	ENSG00000143207	ENST00000367669	protein_coding	KNOWN	CCDS30944	17440	2196	731	175913967	176176629	-1	None	FLJ10416, COP1, RNF200
1	RFWD2	ENSG00000143207	ENST00000367666	protein_coding	NOVEL	None	17440	1701	566	175913968	176153800	-1	None	FLJ10416, COP1, RNF200
1	RFWD2	ENSG00000143207	ENST00000482305	retained_intron	KNOWN	None	17440	None	None	175913989	175916462	-1	None	FLJ10416, COP1, RNF200
1	RFWD2	ENSG00000143207	ENST00000308769	protein_coding	KNOWN	CCDS44279	17440	2124	707	175914289	176176114	-1	None	FLJ10416, COP1, RNF200
1	RFWD2	ENSG00000143207	ENST00000459744	protein_coding	NOVEL	None	17440	741	246	176012352	176104218	-1	None	FLJ10416, COP1, RNF200
1	RFWD2	ENSG00000143207	ENST00000498306	protein_coding	PUTATIVE	None	17440	568	188	176055002	176175517	-1	None	FLJ10416, COP1, RNF200
1	RFWD2	ENSG00000143207	ENST00000491600	nonsense_mediated_decay	KNOWN	None	17440	207	68	176085782	176175576	-1	None	FLJ10416, COP1, RNF200
1	RFWD2	ENSG00000143207	ENST00000474194	nonsense_mediated_decay	KNOWN	None	17440	474	157	176104146	176176219	-1	None	FLJ10416, COP1, RNF200
22	FBXW4P1	ENSG00000230701	ENST00000426721	processed_pseudogene	KNOWN	None	13609	None	None	23605323	23606541	1	FBXW3, SHFM3P1	FBW3
19	MOB3A	ENSG00000172081	ENST00000357066	protein_coding	KNOWN	CCDS12081	29802	654	217	2071037	2096331	-1	MOBKL2A	MOB1C, MOB-LAK, moblak
19	MOB3A	ENSG00000172081	ENST00000592143	processed_transcript	KNOWN	None	29802	None	None	2073034	2085336	-1	MOBKL2A	MOB1C, MOB-LAK, moblak
19	MOB3A	ENSG00000172081	ENST00000592280	protein_coding	KNOWN	CCDS12081	29802	654	217	2073136	2078718	-1	MOBKL2A	MOB1C, MOB-LAK, moblak
19	MOB3A	ENSG00000172081	ENST00000591638	protein_coding	KNOWN	None	29802	230	75	2078330	2085391	-1	MOBKL2A	MOB1C, MOB-LAK, moblak
19	MOB3A	ENSG00000172081	ENST00000591326	protein_coding	KNOWN	None	29802	189	62	2078371	2090175	-1	MOBKL2A	MOB1C, MOB-LAK, moblak
19	MOB3A	ENSG00000172081	ENST00000591236	protein_coding	KNOWN	None	29802	187	61	2078373	2096478	-1	MOBKL2A	MOB1C, MOB-LAK, moblak
19	MOB3A	ENSG00000172081	ENST00000589902	protein_coding	KNOWN	None	29802	164	53	2078396	2096672	-1	MOBKL2A	MOB1C, MOB-LAK, moblak
19	MOB3A	ENSG00000172081	ENST00000586676	protein_coding	KNOWN	None	29802	115	37	2078445	2085651	-1	MOBKL2A	MOB1C, MOB-LAK, moblak
19	MOB3A	ENSG00000172081	ENST00000588048	protein_coding	KNOWN	None	29802	47	14	2078513	2096269	-1	MOBKL2A	MOB1C, MOB-LAK, moblak
Y	USP9YP12	ENSG00000227871	ENST00000450481	unprocessed_pseudogene	KNOWN	None	38720	None	None	26092074	26098440	-1	None	None
22	None	ENSG00000214526	ENST00000440602	processed_pseudogene	KNOWN	None	None	None	None	23664730	23665114	-1	None	None
22	None	ENSG00000236611	ENST00000450776	lincRNA	KNOWN	None	None	None	None	23668803	23670680	1	None	None
2	MIR4757	ENSG00000266738	ENST00000584244	miRNA	KNOWN	None	41746	None	None	19548190	19548266	1	None	hsa-mir-4757
Y	RNU1-86P	ENSG00000251917	ENST00000516108	snRNA	KNOWN	None	48428	None	None	26092765	26092918	-1	None	None
2	None	ENSG00000234597	ENST00000443897	lincRNA	KNOWN	None	None	None	None	19657981	19668722	-1	None	None
19	PSG5	ENSG00000204941	ENST00000366175	protein_coding	KNOWN	CCDS12617	9522	1008	335	43670408	43690688	-1	None	FL-NCA-3, PSG
19	PSG5	ENSG00000204941	ENST00000407356	protein_coding	KNOWN	CCDS12617	9522	1008	335	43671895	43690642	-1	None	FL-NCA-3, PSG
19	PSG5	ENSG00000204941	ENST00000407568	protein_coding	NOVEL	None	9522	474	157	43671895	43690646	-1	None	FL-NCA-3, PSG
19	PSG5	ENSG00000204941	ENST00000599812	protein_coding	NOVEL	None	9522	1287	428	43671895	43690653	-1	None	FL-NCA-3, PSG
19	PSG5	ENSG00000204941	ENST00000342951	protein_coding	KNOWN	CCDS12617	9522	1008	335	43671895	43690674	-1	None	FL-NCA-3, PSG
19	PSG5	ENSG00000204941	ENST00000401942	retained_intron	KNOWN	None	9522	None	None	43671924	43674723	-1	None	FL-NCA-3, PSG
19	PSG5	ENSG00000204941	ENST00000599214	retained_intron	KNOWN	None	9522	None	None	43672274	43674717	-1	None	FL-NCA-3, PSG
19	PSG5	ENSG00000204941	ENST00000404580	protein_coding	PUTATIVE	None	9522	1002	333	43678275	43690646	-1	None	FL-NCA-3, PSG
19	PSG5	ENSG00000204941	ENST00000600817	retained_intron	KNOWN	None	9522	None	None	43679815	43690646	-1	None	FL-NCA-3, PSG
19	PSG5	ENSG00000204941	ENST00000489220	processed_transcript	KNOWN	None	9522	None	None	43684499	43689087	-1	None	FL-NCA-3, PSG
19	PSG5	ENSG00000204941	ENST00000401992	processed_transcript	KNOWN	None	9522	None	None	43687434	43690658	-1	None	FL-NCA-3, PSG
2	None	ENSG00000237992	ENST00000450628	lincRNA	KNOWN	None	None	None	None	19675211	19688611	1	None	None
2	None	ENSG00000235911	ENST00000432822	lincRNA	KNOWN	None	None	None	None	19911476	19917337	1	None	None
2	CISD1P1	ENSG00000213403	ENST00000393907	processed_pseudogene	KNOWN	None	29611	None	None	20026010	20026336	1	ZCD1B, CISD1B	None
22	CES5AP1	ENSG00000215478	ENST00000400418	transcribed_unprocessed_pseudogene	KNOWN	None	38516	None	None	23701790	23719201	-1	None	None
22	CES5AP1	ENSG00000215478	ENST00000422151	processed_transcript	KNOWN	None	38516	None	None	23708489	23719083	-1	None	None
22	CES5AP1	ENSG00000215478	ENST00000431237	processed_transcript	KNOWN	None	38516	None	None	23712282	23722939	-1	None	None
22	CES5AP1	ENSG00000215478	ENST00000415114	processed_transcript	KNOWN	None	38516	None	None	23712282	23729918	-1	None	None
22	CES5AP1	ENSG00000215478	ENST00000424029	processed_transcript	KNOWN	None	38516	None	None	23715835	23719258	-1	None	None
22	CES5AP1	ENSG00000215478	ENST00000542510	unprocessed_pseudogene	KNOWN	None	38516	None	None	23701797	23724313	-1	None	None
10	NMT2	ENSG00000152465	ENST00000466201	processed_transcript	KNOWN	None	7858	None	None	15144583	15151827	-1	None	None
10	NMT2	ENSG00000152465	ENST00000486786	processed_transcript	KNOWN	None	7858	None	None	15148372	15161384	-1	None	None
10	NMT2	ENSG00000152465	ENST00000378165	protein_coding	KNOWN	CCDS7109	7858	1497	498	15149865	15210692	-1	None	None
10	NMT2	ENSG00000152465	ENST00000378150	protein_coding	KNOWN	None	7858	1458	485	15150293	15210627	-1	None	None
10	NMT2	ENSG00000152465	ENST00000478580	processed_transcript	KNOWN	None	7858	None	None	15174816	15183352	-1	None	None
10	NMT2	ENSG00000152465	ENST00000535341	protein_coding	KNOWN	None	7858	1458	485	15151098	15210445	-1	None	None
10	NMT2	ENSG00000152465	ENST00000540259	protein_coding	KNOWN	None	7858	933	310	15151020	15202124	-1	None	None
20	WFDC10B	ENSG00000182931	ENST00000330523	protein_coding	KNOWN	CCDS13366	20479	222	73	44313292	44333658	-1	None	WAP12
20	WFDC10B	ENSG00000182931	ENST00000335769	protein_coding	KNOWN	CCDS13365	20479	270	89	44313292	44333658	-1	None	WAP12
12	ACVRL1	ENSG00000139567	ENST00000551576	protein_coding	NOVEL	None	175	267	88	52300692	52307088	1	ACVRLK1, ORW2	HHT2, ALK1, HHT
12	ACVRL1	ENSG00000139567	ENST00000388922	protein_coding	KNOWN	CCDS31804	175	1512	503	52301202	52314853	1	ACVRLK1, ORW2	HHT2, ALK1, HHT
12	ACVRL1	ENSG00000139567	ENST00000547400	protein_coding	PUTATIVE	None	175	478	158	52306113	52308345	1	ACVRLK1, ORW2	HHT2, ALK1, HHT
12	ACVRL1	ENSG00000139567	ENST00000550683	protein_coding	KNOWN	None	175	1554	517	52306116	52317143	1	ACVRLK1, ORW2	HHT2, ALK1, HHT
12	ACVRL1	ENSG00000139567	ENST00000419526	protein_coding	NOVEL	None	175	990	329	52306155	52314981	1	ACVRLK1, ORW2	HHT2, ALK1, HHT
12	ACVRL1	ENSG00000139567	ENST00000552678	protein_coding	PUTATIVE	None	175	490	162	52309232	52313126	1	ACVRLK1, ORW2	HHT2, ALK1, HHT
12	ACVRL1	ENSG00000139567	ENST00000547632	retained_intron	KNOWN	None	175	None	None	52309497	52313104	1	ACVRLK1, ORW2	HHT2, ALK1, HHT
12	ACVRL1	ENSG00000139567	ENST00000550084	processed_transcript	PUTATIVE	None	175	None	None	52315436	52317145	1	ACVRLK1, ORW2	HHT2, ALK1, HHT
3	RNF13	ENSG00000082996	ENST00000392894	protein_coding	KNOWN	CCDS3146	10057	1146	381	149530495	149679926	1	None	RZF
3	RNF13	ENSG00000082996	ENST00000344229	protein_coding	KNOWN	CCDS3146	10057	1146	381	149530557	149679909	1	None	RZF
3	RNF13	ENSG00000082996	ENST00000470151	protein_coding	KNOWN	None	10057	241	79	149530620	149589861	1	None	RZF
3	RNF13	ENSG00000082996	ENST00000466478	protein_coding	KNOWN	None	10057	216	71	149530836	149589836	1	None	RZF
3	RNF13	ENSG00000082996	ENST00000491086	protein_coding	PUTATIVE	None	10057	701	232	149530991	149678803	1	None	RZF
3	RNF13	ENSG00000082996	ENST00000467977	protein_coding	PUTATIVE	None	10057	450	149	149531002	149678552	1	None	RZF
3	RNF13	ENSG00000082996	ENST00000474348	nonsense_mediated_decay	KNOWN	None	10057	423	140	149531015	149678620	1	None	RZF
3	RNF13	ENSG00000082996	ENST00000467996	nonsense_mediated_decay	KNOWN	None	10057	54	17	149531052	149678537	1	None	RZF
3	RNF13	ENSG00000082996	ENST00000468648	protein_coding	KNOWN	None	10057	347	114	149531607	149613285	1	None	RZF
3	RNF13	ENSG00000082996	ENST00000459632	protein_coding	KNOWN	None	10057	497	164	149531624	149619946	1	None	RZF
3	RNF13	ENSG00000082996	ENST00000466795	protein_coding	KNOWN	None	10057	490	162	149535029	149619939	1	None	RZF
3	RNF13	ENSG00000082996	ENST00000482539	protein_coding	KNOWN	None	10057	271	89	149545466	149589891	1	None	RZF
3	RNF13	ENSG00000082996	ENST00000490631	protein_coding	NOVEL	None	10057	576	191	149563807	149638971	1	None	RZF
3	RNF13	ENSG00000082996	ENST00000361785	protein_coding	PUTATIVE	None	10057	789	262	149589860	149679913	1	None	RZF
3	RNF13	ENSG00000082996	ENST00000482083	protein_coding	PUTATIVE	None	10057	696	231	149613027	149678798	1	None	RZF
3	RNF13	ENSG00000082996	ENST00000468289	protein_coding	NOVEL	None	10057	550	182	149629780	149679161	1	None	RZF
3	RNF13	ENSG00000082996	ENST00000493238	retained_intron	KNOWN	None	10057	None	None	149677744	149679161	1	None	RZF
10	MTND4P20	ENSG00000233377	ENST00000424125	processed_pseudogene	KNOWN	None	42207	None	None	96700010	96700878	-1	None	None
6	EIF3EP1	ENSG00000234882	ENST00000433978	processed_pseudogene	KNOWN	None	6102	None	None	74001685	74003000	1	INT6P1, EIF3S6P1, EIF3EP	None
11	POLD4	ENSG00000175482	ENST00000529704	processed_transcript	KNOWN	None	14106	None	None	67118248	67121050	-1	None	p12, POLDS
11	POLD4	ENSG00000175482	ENST00000533429	retained_intron	KNOWN	None	14106	None	None	67119019	67120549	-1	None	p12, POLDS
11	POLD4	ENSG00000175482	ENST00000530584	nonsense_mediated_decay	KNOWN	None	14106	105	34	67119019	67120989	-1	None	p12, POLDS
11	POLD4	ENSG00000175482	ENST00000312419	protein_coding	KNOWN	CCDS8158	14106	324	107	67119019	67121017	-1	None	p12, POLDS
11	POLD4	ENSG00000175482	ENST00000532830	processed_transcript	KNOWN	None	14106	None	None	67119019	67124443	-1	None	p12, POLDS
11	POLD4	ENSG00000175482	ENST00000534515	retained_intron	KNOWN	None	14106	None	None	67119024	67121032	-1	None	p12, POLDS
11	POLD4	ENSG00000175482	ENST00000528087	retained_intron	KNOWN	None	14106	None	None	67119036	67120961	-1	None	p12, POLDS
11	POLD4	ENSG00000175482	ENST00000539074	protein_coding	PUTATIVE	CCDS58149	14106	240	79	67119079	67120985	-1	None	p12, POLDS
11	POLD4	ENSG00000175482	ENST00000531239	nonsense_mediated_decay	KNOWN	None	14106	87	28	67119280	67121005	-1	None	p12, POLDS
11	POLD4	ENSG00000175482	ENST00000524743	retained_intron	KNOWN	None	14106	None	None	67119930	67121066	-1	None	p12, POLDS
11	POLD4	ENSG00000175482	ENST00000525255	retained_intron	KNOWN	None	14106	None	None	67119995	67121032	-1	None	p12, POLDS
11	POLD4	ENSG00000175482	ENST00000542982	retained_intron	KNOWN	None	14106	None	None	67120003	67120996	-1	None	p12, POLDS
11	POLD4	ENSG00000175482	ENST00000529000	retained_intron	KNOWN	None	14106	None	None	67120364	67121005	-1	None	p12, POLDS
2	LINC00954	ENSG00000228784	ENST00000607100	lincRNA	KNOWN	None	48668	None	None	20068621	20077154	1	None	FLJ12334
2	LINC00954	ENSG00000228784	ENST00000449086	lincRNA	KNOWN	None	48668	None	None	20068635	20084808	1	None	FLJ12334
2	LINC00954	ENSG00000228784	ENST00000456119	lincRNA	KNOWN	None	48668	None	None	20068652	20072291	1	None	FLJ12334
2	LINC00954	ENSG00000228784	ENST00000433669	lincRNA	KNOWN	None	48668	None	None	20068652	20077296	1	None	FLJ12334
15	EMC4	ENSG00000128463	ENST00000267750	protein_coding	KNOWN	CCDS10035	28032	552	183	34517200	34522357	1	TMEM85	FLJ90746, MGC24415, PIG17
15	EMC4	ENSG00000128463	ENST00000249209	protein_coding	KNOWN	None	28032	450	149	34517214	34522348	1	TMEM85	FLJ90746, MGC24415, PIG17
15	EMC4	ENSG00000128463	ENST00000560911	nonsense_mediated_decay	KNOWN	None	28032	219	72	34517219	34520784	1	TMEM85	FLJ90746, MGC24415, PIG17
15	EMC4	ENSG00000128463	ENST00000557941	retained_intron	KNOWN	None	28032	None	None	34517220	34518755	1	TMEM85	FLJ90746, MGC24415, PIG17
15	EMC4	ENSG00000128463	ENST00000561372	protein_coding	NOVEL	None	28032	376	124	34517226	34520047	1	TMEM85	FLJ90746, MGC24415, PIG17
15	EMC4	ENSG00000128463	ENST00000559078	protein_coding	PUTATIVE	None	28032	309	102	34517237	34521383	1	TMEM85	FLJ90746, MGC24415, PIG17
15	EMC4	ENSG00000128463	ENST00000558205	nonsense_mediated_decay	KNOWN	None	28032	255	84	34517238	34522357	1	TMEM85	FLJ90746, MGC24415, PIG17
15	EMC4	ENSG00000128463	ENST00000557879	protein_coding	PUTATIVE	None	28032	219	72	34517239	34521042	1	TMEM85	FLJ90746, MGC24415, PIG17
15	EMC4	ENSG00000128463	ENST00000558102	nonsense_mediated_decay	KNOWN	None	28032	132	43	34517241	34522181	1	TMEM85	FLJ90746, MGC24415, PIG17
15	EMC4	ENSG00000128463	ENST00000559421	protein_coding	NOVEL	None	28032	237	78	34517267	34522200	1	TMEM85	FLJ90746, MGC24415, PIG17
15	EMC4	ENSG00000128463	ENST00000558810	retained_intron	KNOWN	None	28032	None	None	34517363	34520391	1	TMEM85	FLJ90746, MGC24415, PIG17
15	EMC4	ENSG00000128463	ENST00000561246	retained_intron	KNOWN	None	28032	None	None	34518713	34522350	1	TMEM85	FLJ90746, MGC24415, PIG17
15	EMC4	ENSG00000128463	ENST00000560947	protein_coding	PUTATIVE	None	28032	295	97	34519896	34522357	1	TMEM85	FLJ90746, MGC24415, PIG17
6	SDCBP2P1	ENSG00000223389	ENST00000416115	processed_pseudogene	KNOWN	None	44685	None	None	74032560	74033173	1	None	None
10	CYP2C59P	ENSG00000228460	ENST00000457790	unprocessed_pseudogene	KNOWN	None	42406	None	None	96766883	96767313	-1	None	CYP2C9-de2c3c
6	PAICSP3	ENSG00000226840	ENST00000428007	processed_pseudogene	KNOWN	None	38096	None	None	74037247	74038740	1	None	None
3	ANO10	ENSG00000160746	ENST00000466658	processed_transcript	KNOWN	None	25519	None	None	43396351	43407700	-1	TMEM16K	FLJ10375, MGC47890, SCAR10
3	ANO10	ENSG00000160746	ENST00000292246	protein_coding	KNOWN	CCDS2710	25519	1983	660	43407340	43663560	-1	TMEM16K	FLJ10375, MGC47890, SCAR10
3	ANO10	ENSG00000160746	ENST00000350459	protein_coding	KNOWN	CCDS56249	25519	1413	470	43407840	43663457	-1	TMEM16K	FLJ10375, MGC47890, SCAR10
3	ANO10	ENSG00000160746	ENST00000396091	protein_coding	NOVEL	CCDS56248	25519	1785	594	43407851	43663476	-1	TMEM16K	FLJ10375, MGC47890, SCAR10
3	ANO10	ENSG00000160746	ENST00000414522	protein_coding	PUTATIVE	CCDS56250	25519	1884	627	43408048	43663503	-1	TMEM16K	FLJ10375, MGC47890, SCAR10
3	ANO10	ENSG00000160746	ENST00000451430	protein_coding	NOVEL	CCDS56247	25519	1650	549	43408135	43663495	-1	TMEM16K	FLJ10375, MGC47890, SCAR10
3	ANO10	ENSG00000160746	ENST00000448045	protein_coding	PUTATIVE	None	25519	566	187	43408381	43596903	-1	TMEM16K	FLJ10375, MGC47890, SCAR10
3	ANO10	ENSG00000160746	ENST00000427171	protein_coding	PUTATIVE	None	25519	577	191	43602865	43663558	-1	TMEM16K	FLJ10375, MGC47890, SCAR10
3	ANO10	ENSG00000160746	ENST00000428472	protein_coding	PUTATIVE	None	25519	486	161	43618527	43663495	-1	TMEM16K	FLJ10375, MGC47890, SCAR10
3	ANO10	ENSG00000160746	ENST00000444344	protein_coding	KNOWN	None	25519	439	145	43640057	43663389	-1	TMEM16K	FLJ10375, MGC47890, SCAR10
3	ANO10	ENSG00000160746	ENST00000456438	protein_coding	KNOWN	None	25519	423	140	43640073	43663444	-1	TMEM16K	FLJ10375, MGC47890, SCAR10
3	ANO10	ENSG00000160746	ENST00000413397	protein_coding	KNOWN	None	25519	422	139	43640074	43733086	-1	TMEM16K	FLJ10375, MGC47890, SCAR10
3	ANO10	ENSG00000160746	ENST00000439141	protein_coding	KNOWN	None	25519	402	133	43640094	43733061	-1	TMEM16K	FLJ10375, MGC47890, SCAR10
3	ANO10	ENSG00000160746	ENST00000428831	protein_coding	KNOWN	None	25519	337	111	43641876	43732305	-1	TMEM16K	FLJ10375, MGC47890, SCAR10
3	ANO10	ENSG00000160746	ENST00000436073	protein_coding	KNOWN	None	25519	116	37	43647229	43732311	-1	TMEM16K	FLJ10375, MGC47890, SCAR10
3	ANO10	ENSG00000160746	ENST00000486959	processed_transcript	KNOWN	None	25519	None	None	43677801	43680386	-1	TMEM16K	FLJ10375, MGC47890, SCAR10
3	ANO10	ENSG00000160746	ENST00000495772	processed_transcript	KNOWN	None	25519	None	None	43680167	43733064	-1	TMEM16K	FLJ10375, MGC47890, SCAR10
4	None	ENSG00000249525	ENST00000513885	processed_pseudogene	KNOWN	None	None	None	None	172034940	172035732	1	None	None
10	None	ENSG00000260863	ENST00000566088	unprocessed_pseudogene	KNOWN	None	None	None	None	96769431	96769569	1	None	None
22	CCDC117	ENSG00000159873	ENST00000249064	protein_coding	KNOWN	CCDS13846	26599	840	279	29168662	29185283	1	None	FLJ33814
22	CCDC117	ENSG00000159873	ENST00000453543	nonsense_mediated_decay	KNOWN	None	26599	189	62	29168692	29182165	1	None	FLJ33814
22	CCDC117	ENSG00000159873	ENST00000444523	protein_coding	NOVEL	None	26599	341	112	29168716	29177091	1	None	FLJ33814
22	CCDC117	ENSG00000159873	ENST00000432510	protein_coding	PUTATIVE	None	26599	211	69	29169229	29182081	1	None	FLJ33814
22	CCDC117	ENSG00000159873	ENST00000448492	protein_coding	KNOWN	None	26599	786	261	29168716	29182441	1	None	FLJ33814
22	CCDC117	ENSG00000159873	ENST00000421503	protein_coding	KNOWN	None	26599	615	204	29168762	29182760	1	None	FLJ33814
22	CCDC117	ENSG00000159873	ENST00000443309	protein_coding	KNOWN	None	26599	444	147	29169132	29182664	1	None	FLJ33814
4	None	ENSG00000248755	ENST00000509651	processed_pseudogene	KNOWN	None	None	None	None	172090360	172091093	-1	None	None
6	OOEP-AS1	ENSG00000231332	ENST00000445350	antisense	KNOWN	None	39192	None	None	74079427	74097440	1	OOEP-AS	None
10	None	ENSG00000237885	ENST00000442302	processed_pseudogene	KNOWN	None	None	None	None	96791397	96791805	1	None	None
4	None	ENSG00000248339	ENST00000512241	lincRNA	KNOWN	None	None	None	None	172210626	172219418	-1	None	None
6	RPL39P3	ENSG00000235174	ENST00000424573	processed_pseudogene	KNOWN	None	21383	None	None	74082831	74082986	-1	None	Em:AC019205.3
10	None	ENSG00000231829	ENST00000422744	lincRNA	KNOWN	None	None	None	None	96901682	96928182	-1	None	None
2	CYP4F31P	ENSG00000178206	ENST00000416266	protein_coding	KNOWN	None	39955	357	118	132044330	132050127	1	None	CYP4F-se10[6:7:8]
2	None	ENSG00000271991	ENST00000607190	lincRNA	KNOWN	None	None	None	None	20101786	20102330	1	None	None
16	PRDM7	ENSG00000126856	ENST00000325921	protein_coding	KNOWN	CCDS10993	9351	516	171	90122974	90128733	-1	None	ZNF910
16	PRDM7	ENSG00000126856	ENST00000449207	protein_coding	KNOWN	CCDS45557	9351	1479	492	90124188	90142338	-1	None	ZNF910
16	PRDM7	ENSG00000126856	ENST00000568473	nonsense_mediated_decay	KNOWN	None	9351	417	138	90127860	90142333	-1	None	ZNF910
16	PRDM7	ENSG00000126856	ENST00000564210	nonsense_mediated_decay	KNOWN	None	9351	222	73	90127860	90142338	-1	None	ZNF910
16	PRDM7	ENSG00000126856	ENST00000569206	processed_transcript	KNOWN	None	9351	None	None	90141413	90158480	-1	None	ZNF910
16	PRDM7	ENSG00000126856	ENST00000407825	protein_coding	KNOWN	CCDS10993	9351	516	171	90122976	90142338	-1	None	ZNF910
2	None	ENSG00000227210	ENST00000416575	antisense	KNOWN	None	None	None	None	20189978	20203971	1	None	None
6	RPS6P8	ENSG00000224221	ENST00000421830	processed_pseudogene	KNOWN	None	36999	None	None	74100761	74101490	-1	None	None
20	WFDC13	ENSG00000168634	ENST00000305479	protein_coding	KNOWN	CCDS13367	16131	282	93	44330655	44337456	1	C20orf138	dJ601O1.3, WAP13
19	None	ENSG00000222730	ENST00000410798	miRNA	NOVEL	None	None	None	None	36821351	36821449	1	None	None
19	None	ENSG00000266973	ENST00000587018	antisense	KNOWN	None	None	None	None	36868930	36869734	1	None	None
2	None	ENSG00000223734	ENST00000452342	antisense	KNOWN	None	None	None	None	20251895	20254257	1	None	None
6	None	ENSG00000238464	ENST00000459178	snoRNA	NOVEL	None	None	None	None	74103636	74103736	-1	None	None
19	None	ENSG00000267363	ENST00000589968	lincRNA	KNOWN	None	None	None	None	36870253	36871814	-1	None	None
6	None	ENSG00000266346	ENST00000583935	miRNA	NOVEL	None	None	None	None	74142707	74142807	1	None	None
2	MZT2A	ENSG00000173272	ENST00000427024	nonsense_mediated_decay	KNOWN	None	33187	421	139	132222473	132249908	-1	FAM128A	MOZART2A
2	MZT2A	ENSG00000173272	ENST00000445782	retained_intron	KNOWN	None	33187	None	None	132227382	132249960	-1	FAM128A	MOZART2A
2	MZT2A	ENSG00000173272	ENST00000410036	processed_transcript	KNOWN	None	33187	None	None	132241531	132250316	-1	FAM128A	MOZART2A
2	MZT2A	ENSG00000173272	ENST00000309451	protein_coding	KNOWN	CCDS42758	33187	477	158	132241533	132249995	-1	FAM128A	MOZART2A
2	MZT2A	ENSG00000173272	ENST00000488586	processed_transcript	PUTATIVE	None	33187	None	None	132243997	132249544	-1	FAM128A	MOZART2A
2	MZT2A	ENSG00000173272	ENST00000491265	retained_intron	KNOWN	None	33187	None	None	132246942	132249949	-1	FAM128A	MOZART2A
2	None	ENSG00000234378	ENST00000430429	lincRNA	KNOWN	None	None	None	None	20263617	20306590	-1	None	None
20	SPINT4	ENSG00000149651	ENST00000279058	protein_coding	KNOWN	CCDS33477	16130	300	99	44350990	44354469	1	C20orf137	dJ601O1.1
6	RNU6-975P	ENSG00000207023	ENST00000384296	snRNA	KNOWN	None	47938	None	None	74173796	74173900	1	None	None
19	None	ENSG00000260112	ENST00000567299	processed_pseudogene	KNOWN	None	None	None	None	9628826	9630017	1	None	None
19	None	ENSG00000267142	ENST00000589470	processed_pseudogene	KNOWN	None	None	None	None	36912438	36913436	1	None	None
2	None	ENSG00000213729	ENST00000436164	processed_pseudogene	KNOWN	None	None	None	None	20355379	20355818	-1	None	None
19	None	ENSG00000267309	ENST00000592087	antisense	KNOWN	None	None	None	None	36980551	36981942	1	None	None
17	SCIMP	ENSG00000161929	ENST00000574081	protein_coding	KNOWN	CCDS42242	33504	438	145	5112256	5138155	-1	C17orf87	DTFT5783, UNQ5783, FLJ32580, MGC163426, MGC163428
17	SCIMP	ENSG00000161929	ENST00000399600	protein_coding	NOVEL	None	33504	417	138	5113445	5138155	-1	C17orf87	DTFT5783, UNQ5783, FLJ32580, MGC163426, MGC163428
17	SCIMP	ENSG00000161929	ENST00000571800	protein_coding	KNOWN	None	33504	372	123	5116307	5138118	-1	C17orf87	DTFT5783, UNQ5783, FLJ32580, MGC163426, MGC163428
17	SCIMP	ENSG00000161929	ENST00000574297	protein_coding	PUTATIVE	None	33504	393	130	5117951	5138155	-1	C17orf87	DTFT5783, UNQ5783, FLJ32580, MGC163426, MGC163428
4	None	ENSG00000270090	ENST00000602641	lincRNA	KNOWN	None	None	None	None	3546282	3550315	1	None	None
4	None	ENSG00000270090	ENST00000602543	lincRNA	KNOWN	None	None	None	None	3546615	3550523	1	None	None
2	RN7SL140P	ENSG00000266059	ENST00000581321	misc_RNA	KNOWN	None	46156	None	None	20375107	20375397	1	None	None
19	CTBP2P7	ENSG00000267091	ENST00000593270	processed_pseudogene	KNOWN	None	45199	None	None	36987818	36989061	-1	None	None
1	MFN2	ENSG00000116688	ENST00000490079	processed_transcript	KNOWN	None	16877	None	None	12040356	12049291	1	None	CPRP1, KIAA0214, MARF, CMT2A2
1	MFN2	ENSG00000116688	ENST00000235329	protein_coding	KNOWN	CCDS30587	16877	2274	757	12040369	12073565	1	None	CPRP1, KIAA0214, MARF, CMT2A2
1	MFN2	ENSG00000116688	ENST00000484391	processed_transcript	KNOWN	None	16877	None	None	12040427	12049400	1	None	CPRP1, KIAA0214, MARF, CMT2A2
1	MFN2	ENSG00000116688	ENST00000497302	processed_transcript	KNOWN	None	16877	None	None	12040492	12052697	1	None	CPRP1, KIAA0214, MARF, CMT2A2
1	MFN2	ENSG00000116688	ENST00000412236	protein_coding	KNOWN	None	16877	294	97	12042049	12052730	1	None	CPRP1, KIAA0214, MARF, CMT2A2
1	MFN2	ENSG00000116688	ENST00000444836	protein_coding	KNOWN	CCDS30587	16877	2274	757	12040238	12073571	1	None	CPRP1, KIAA0214, MARF, CMT2A2
2	RNU6-961P	ENSG00000200763	ENST00000363893	snRNA	KNOWN	None	47924	None	None	20375566	20375670	1	None	None
3	None	ENSG00000269496	ENST00000598405	protein_coding	NOVEL	None	None	258	85	172361483	172361740	1	None	None
17	ZNF385C	ENSG00000187595	ENST00000496039	retained_intron	KNOWN	None	33722	None	None	40177594	40180149	-1	None	None
17	ZNF385C	ENSG00000187595	ENST00000461831	processed_transcript	KNOWN	None	33722	None	None	40177594	40180707	-1	None	None
17	ZNF385C	ENSG00000187595	ENST00000436535	protein_coding	NOVEL	None	33722	1379	458	40179036	40215075	-1	None	None
17	ZNF385C	ENSG00000187595	ENST00000453355	retained_intron	KNOWN	None	33722	None	None	40213257	40217383	-1	None	None
2	None	ENSG00000235411	ENST00000438989	processed_pseudogene	KNOWN	None	None	None	None	20439653	20440807	-1	None	None
14	OXA1L	ENSG00000155463	ENST00000285848	protein_coding	KNOWN	CCDS9573	8526	1488	495	23235731	23241007	1	None	MGC133129, OXA1
14	OXA1L	ENSG00000155463	ENST00000483939	retained_intron	KNOWN	None	8526	None	None	23235884	23238138	1	None	MGC133129, OXA1
14	OXA1L	ENSG00000155463	ENST00000604262	protein_coding	NOVEL	None	8526	1308	435	23235888	23241007	1	None	MGC133129, OXA1
14	OXA1L	ENSG00000155463	ENST00000557299	retained_intron	KNOWN	None	8526	None	None	23235897	23236917	1	None	MGC133129, OXA1
14	OXA1L	ENSG00000155463	ENST00000473744	retained_intron	KNOWN	None	8526	None	None	23235897	23239772	1	None	MGC133129, OXA1
14	OXA1L	ENSG00000155463	ENST00000442110	nonsense_mediated_decay	KNOWN	None	8526	249	82	23235899	23239749	1	None	MGC133129, OXA1
14	OXA1L	ENSG00000155463	ENST00000431881	protein_coding	PUTATIVE	None	8526	336	111	23235901	23239729	1	None	MGC133129, OXA1
14	OXA1L	ENSG00000155463	ENST00000412791	protein_coding	NOVEL	None	8526	1227	408	23235911	23240980	1	None	MGC133129, OXA1
14	OXA1L	ENSG00000155463	ENST00000495424	retained_intron	KNOWN	None	8526	None	None	23235912	23240963	1	None	MGC133129, OXA1
14	OXA1L	ENSG00000155463	ENST00000358043	protein_coding	KNOWN	None	8526	1260	419	23235928	23240939	1	None	MGC133129, OXA1
14	OXA1L	ENSG00000155463	ENST00000556473	retained_intron	KNOWN	None	8526	None	None	23236134	23237470	1	None	MGC133129, OXA1
14	OXA1L	ENSG00000155463	ENST00000481218	retained_intron	KNOWN	None	8526	None	None	23236491	23240970	1	None	MGC133129, OXA1
4	None	ENSG00000250681	ENST00000505702	lincRNA	KNOWN	None	None	None	None	3634756	3635702	1	None	None
14	CEP170B	ENSG00000099814	ENST00000556508	protein_coding	PUTATIVE	CCDS45176	20362	4560	1519	105331617	105363079	1	KIAA0284	FAM68C, Cep170R
14	CEP170B	ENSG00000099814	ENST00000414716	protein_coding	KNOWN	CCDS45175	20362	4665	1554	105331650	105363107	1	KIAA0284	FAM68C, Cep170R
14	CEP170B	ENSG00000099814	ENST00000251181	retained_intron	KNOWN	None	20362	None	None	105360271	105361396	1	KIAA0284	FAM68C, Cep170R
14	CEP170B	ENSG00000099814	ENST00000453495	protein_coding	KNOWN	None	20362	4773	1590	105331650	105363078	1	KIAA0284	FAM68C, Cep170R
14	CEP170B	ENSG00000099814	ENST00000418279	protein_coding	KNOWN	None	20362	4455	1484	105331654	105363086	1	KIAA0284	FAM68C, Cep170R
19	RPS4XP22	ENSG00000239830	ENST00000480755	processed_pseudogene	KNOWN	None	36125	None	None	9793970	9794749	-1	RPS4P22	None
4	None	ENSG00000250632	ENST00000508619	lincRNA	KNOWN	None	None	None	None	3675320	3679582	-1	None	None
2	RNU7-113P	ENSG00000238735	ENST00000459273	snRNA	KNOWN	None	45647	None	None	20446087	20446148	-1	None	None
2	None	ENSG00000252216	ENST00000516407	miRNA	NOVEL	None	None	None	None	20553403	20553477	-1	None	None
2	SLC7A15P	ENSG00000232800	ENST00000424028	unitary_pseudogene	KNOWN	None	32724	None	None	20586147	20596349	1	None	None
2	APOB	ENSG00000084674	ENST00000233242	protein_coding	KNOWN	CCDS1703	603	13692	4563	21224301	21266945	-1	None	None
2	APOB	ENSG00000084674	ENST00000399256	protein_coding	PUTATIVE	None	603	2487	828	21247042	21266834	-1	None	None
13	COMMD6	ENSG00000188243	ENST00000377615	protein_coding	KNOWN	CCDS9451	24015	258	85	76099355	76112938	-1	None	Acrg
13	COMMD6	ENSG00000188243	ENST00000483290	retained_intron	KNOWN	None	24015	None	None	76100572	76104640	-1	None	Acrg
13	COMMD6	ENSG00000188243	ENST00000377619	protein_coding	PUTATIVE	None	24015	303	100	76100572	76111754	-1	None	Acrg
13	COMMD6	ENSG00000188243	ENST00000486516	processed_transcript	KNOWN	None	24015	None	None	76100572	76111962	-1	None	Acrg
13	COMMD6	ENSG00000188243	ENST00000497707	processed_transcript	KNOWN	None	24015	None	None	76100572	76111977	-1	None	Acrg
13	COMMD6	ENSG00000188243	ENST00000355801	protein_coding	KNOWN	CCDS9452	24015	297	98	76100572	76111977	-1	None	Acrg
13	COMMD6	ENSG00000188243	ENST00000377612	nonsense_mediated_decay	KNOWN	None	24015	120	39	76100572	76112938	-1	None	Acrg
13	COMMD6	ENSG00000188243	ENST00000460675	processed_transcript	KNOWN	None	24015	None	None	76100572	76123564	-1	None	Acrg
13	COMMD6	ENSG00000188243	ENST00000464050	retained_intron	KNOWN	None	24015	None	None	76103845	76111980	-1	None	Acrg
13	COMMD6	ENSG00000188243	ENST00000477377	retained_intron	KNOWN	None	24015	None	None	76103960	76111977	-1	None	Acrg
13	COMMD6	ENSG00000188243	ENST00000471682	processed_transcript	KNOWN	None	24015	None	None	76104250	76123575	-1	None	Acrg
13	COMMD6	ENSG00000188243	ENST00000406936	protein_coding	KNOWN	CCDS9451	24015	258	85	76099350	76111991	-1	None	Acrg
4	None	ENSG00000250986	ENST00000511928	lincRNA	KNOWN	None	None	None	None	3760475	3765117	-1	None	None
2	RNA5SP86	ENSG00000212171	ENST00000390869	rRNA	KNOWN	None	42884	None	None	20601388	20601485	-1	RN5S86	None
16	None	ENSG00000261226	ENST00000561980	sense_intronic	KNOWN	None	None	None	None	89003187	89004164	-1	None	None
16	None	ENSG00000261226	ENST00000564646	sense_intronic	KNOWN	None	None	None	None	89003187	89006059	-1	None	None
2	None	ENSG00000228950	ENST00000448241	lincRNA	KNOWN	None	None	None	None	20650803	20652708	1	None	None
4	OR7E163P	ENSG00000251166	ENST00000505943	unprocessed_pseudogene	KNOWN	None	45040	None	None	3891083	3891976	-1	None	None
19	CYP2A7	ENSG00000198077	ENST00000301146	protein_coding	KNOWN	CCDS12569	2611	1485	494	41381344	41388657	-1	None	CYP2A
19	CYP2A7	ENSG00000198077	ENST00000602008	retained_intron	KNOWN	None	2611	None	None	41381703	41382652	-1	None	CYP2A
19	CYP2A7	ENSG00000198077	ENST00000598264	retained_intron	KNOWN	None	2611	None	None	41382980	41385995	-1	None	CYP2A
19	CYP2A7	ENSG00000198077	ENST00000594332	nonsense_mediated_decay	KNOWN	None	2611	243	80	41384782	41388136	-1	None	CYP2A
19	CYP2A7	ENSG00000198077	ENST00000291764	protein_coding	KNOWN	CCDS42570	2611	1332	443	41381344	41388657	-1	None	CYP2A
X	AP1S2	ENSG00000182287	ENST00000329235	protein_coding	KNOWN	CCDS14173	560	474	157	15843929	15873054	-1	MRX59	SIGMA1B
X	AP1S2	ENSG00000182287	ENST00000452376	protein_coding	KNOWN	None	560	460	152	15845015	15870636	-1	MRX59	SIGMA1B
X	AP1S2	ENSG00000182287	ENST00000380291	protein_coding	KNOWN	None	560	483	160	15848182	15872927	-1	MRX59	SIGMA1B
X	AP1S2	ENSG00000182287	ENST00000479184	processed_transcript	KNOWN	None	560	None	None	15849229	15863639	-1	MRX59	SIGMA1B
X	AP1S2	ENSG00000182287	ENST00000450644	protein_coding	KNOWN	None	560	440	145	15849566	15870625	-1	MRX59	SIGMA1B
X	AP1S2	ENSG00000182287	ENST00000545766	protein_coding	KNOWN	None	560	588	195	15849325	15872936	-1	MRX59	SIGMA1B
X	AP1S2	ENSG00000182287	ENST00000421527	protein_coding	KNOWN	None	560	609	202	15850187	15872936	-1	MRX59	SIGMA1B
2	None	ENSG00000200829	ENST00000363959	misc_RNA	NOVEL	None	None	None	None	20680605	20680716	1	None	None
4	OR7E162P	ENSG00000234386	ENST00000398413	unprocessed_pseudogene	KNOWN	None	28374	None	None	3903293	3904321	-1	None	None
6	None	ENSG00000264609	ENST00000580608	miRNA	NOVEL	None	None	None	None	74186781	74186865	1	None	None
3	XPC	ENSG00000154767	ENST00000285021	protein_coding	KNOWN	CCDS46763	12816	2823	940	14186647	14220283	-1	None	XPCC, RAD4
3	XPC	ENSG00000154767	ENST00000476581	nonsense_mediated_decay	KNOWN	None	12816	423	140	14187229	14220101	-1	None	XPCC, RAD4
3	XPC	ENSG00000154767	ENST00000427795	retained_intron	KNOWN	None	12816	None	None	14188967	14190428	-1	None	XPCC, RAD4
3	XPC	ENSG00000154767	ENST00000477324	retained_intron	KNOWN	None	12816	None	None	14200307	14208767	-1	None	XPCC, RAD4
3	XPC	ENSG00000154767	ENST00000455144	retained_intron	KNOWN	None	12816	None	None	14205866	14211960	-1	None	XPCC, RAD4
3	XPC	ENSG00000154767	ENST00000452172	retained_intron	KNOWN	None	12816	None	None	14206407	14212114	-1	None	XPCC, RAD4
3	XPC	ENSG00000154767	ENST00000511155	protein_coding	NOVEL	None	12816	504	167	14209771	14220121	-1	None	XPCC, RAD4
3	XPC	ENSG00000154767	ENST00000449060	protein_coding	KNOWN	CCDS46764	12816	2712	903	14187441	14220068	-1	None	XPCC, RAD4
2	None	ENSG00000227047	ENST00000441870	lincRNA	KNOWN	None	None	None	None	20699331	20701071	-1	None	None
16	None	ENSG00000259989	ENST00000562040	lincRNA	KNOWN	None	None	None	None	89050440	89061777	1	None	None
6	None	ENSG00000271986	ENST00000607480	misc_RNA	NOVEL	None	None	None	None	74197315	74197600	-1	None	None
19	None	ENSG00000269288	ENST00000596041	antisense	KNOWN	None	None	None	None	53743928	53745166	1	None	None
6	None	ENSG00000223821	ENST00000423099	antisense	KNOWN	None	None	None	None	74201748	74202465	-1	None	None
2	None	ENSG00000269976	ENST00000602736	lincRNA	KNOWN	None	None	None	None	20786008	20786446	-1	None	None
19	None	ENSG00000269758	ENST00000599803	lincRNA	KNOWN	None	None	None	None	53771123	53774185	-1	None	None
16	None	ENSG00000256982	ENST00000537498	lincRNA	KNOWN	None	None	None	None	89112580	89119373	-1	None	None
19	None	ENSG00000267490	ENST00000589783	unprocessed_pseudogene	KNOWN	None	None	None	None	9834684	9835762	-1	None	None
2	HS1BP3-IT1	ENSG00000231948	ENST00000449391	sense_intronic	KNOWN	None	41474	None	None	20790535	20792308	-1	None	None
6	None	ENSG00000229862	ENST00000431108	antisense	KNOWN	None	None	None	None	74233341	74280256	1	None	None
6	None	ENSG00000229862	ENST00000429386	antisense	KNOWN	None	None	None	None	74233564	74280319	1	None	None
16	None	ENSG00000261546	ENST00000562782	antisense	KNOWN	None	None	None	None	89179583	89181687	-1	None	None
14	CTSG	ENSG00000100448	ENST00000552252	retained_intron	KNOWN	None	2532	None	None	25042728	25045456	-1	None	CG
14	CTSG	ENSG00000100448	ENST00000216336	protein_coding	KNOWN	CCDS9631	2532	768	255	25042762	25045466	-1	None	CG
19	ZNF586	ENSG00000083828	ENST00000391702	protein_coding	KNOWN	CCDS56108	25949	1080	359	58281023	58291982	1	None	FLJ20070
19	ZNF586	ENSG00000083828	ENST00000598885	protein_coding	PUTATIVE	None	25949	306	101	58281029	58326026	1	None	FLJ20070
19	ZNF586	ENSG00000083828	ENST00000598183	protein_coding	PUTATIVE	None	25949	231	76	58281035	58310867	1	None	FLJ20070
19	ZNF586	ENSG00000083828	ENST00000396154	protein_coding	KNOWN	CCDS42640	25949	1209	402	58281038	58291945	1	None	FLJ20070
19	ZNF586	ENSG00000083828	ENST00000599802	protein_coding	PUTATIVE	None	25949	72	23	58281038	58331307	1	None	FLJ20070
19	ZNF586	ENSG00000083828	ENST00000396150	protein_coding	KNOWN	CCDS56107	25949	633	210	58281064	58291912	1	None	FLJ20070
9	HSDL2	ENSG00000119471	ENST00000398805	protein_coding	NOVEL	CCDS43864	18572	1257	418	115142217	115234690	1	C9orf99	SDR13C1
9	HSDL2	ENSG00000119471	ENST00000398803	protein_coding	NOVEL	CCDS56582	18572	1038	345	115142360	115234685	1	C9orf99	SDR13C1
9	HSDL2	ENSG00000119471	ENST00000488101	processed_transcript	KNOWN	None	18572	None	None	115142384	115216442	1	C9orf99	SDR13C1
9	HSDL2	ENSG00000119471	ENST00000467434	processed_transcript	KNOWN	None	18572	None	None	115142402	115221817	1	C9orf99	SDR13C1
9	HSDL2	ENSG00000119471	ENST00000480881	processed_transcript	KNOWN	None	18572	None	None	115176282	115204050	1	C9orf99	SDR13C1
9	HSDL2	ENSG00000119471	ENST00000262542	protein_coding	KNOWN	None	18572	897	298	115142388	115232935	1	C9orf99	SDR13C1
9	HSDL2	ENSG00000119471	ENST00000539114	protein_coding	KNOWN	None	18572	642	213	115142392	115232963	1	C9orf99	SDR13C1
2	None	ENSG00000233416	ENST00000421295	processed_pseudogene	KNOWN	None	None	None	None	20806040	20806414	-1	None	None
19	FAM90A27P	ENSG00000189348	ENST00000593323	transcribed_unprocessed_pseudogene	KNOWN	None	43617	None	None	53784812	53788197	1	None	None
19	FAM90A27P	ENSG00000189348	ENST00000599085	processed_transcript	KNOWN	None	43617	None	None	53785543	53787602	1	None	None
19	FAM90A27P	ENSG00000189348	ENST00000338885	unprocessed_pseudogene	KNOWN	None	43617	None	None	53784808	53788200	1	None	None
20	WFDC3	ENSG00000124116	ENST00000481847	processed_transcript	KNOWN	None	15957	None	None	44376583	44420571	-1	None	dJ447F3.3, WAP14
20	WFDC3	ENSG00000124116	ENST00000337205	protein_coding	PUTATIVE	None	15957	677	224	44402847	44419579	-1	None	dJ447F3.3, WAP14
20	WFDC3	ENSG00000124116	ENST00000243938	protein_coding	KNOWN	CCDS33478	15957	696	231	44402847	44420547	-1	None	dJ447F3.3, WAP14
20	WFDC3	ENSG00000124116	ENST00000474942	processed_transcript	KNOWN	None	15957	None	None	44402852	44408532	-1	None	dJ447F3.3, WAP14
20	WFDC3	ENSG00000124116	ENST00000372632	protein_coding	NOVEL	None	15957	414	137	44402852	44418689	-1	None	dJ447F3.3, WAP14
20	WFDC3	ENSG00000124116	ENST00000372630	protein_coding	PUTATIVE	None	15957	285	94	44402852	44418711	-1	None	dJ447F3.3, WAP14
20	WFDC3	ENSG00000124116	ENST00000471401	processed_transcript	KNOWN	None	15957	None	None	44402852	44420520	-1	None	dJ447F3.3, WAP14
20	WFDC3	ENSG00000124116	ENST00000493693	processed_transcript	KNOWN	None	15957	None	None	44402852	44420539	-1	None	dJ447F3.3, WAP14
20	WFDC3	ENSG00000124116	ENST00000487343	processed_transcript	KNOWN	None	15957	None	None	44402944	44420542	-1	None	dJ447F3.3, WAP14
20	WFDC3	ENSG00000124116	ENST00000462017	processed_transcript	KNOWN	None	15957	None	None	44402944	44420542	-1	None	dJ447F3.3, WAP14
20	WFDC3	ENSG00000124116	ENST00000467679	processed_transcript	KNOWN	None	15957	None	None	44404056	44420554	-1	None	dJ447F3.3, WAP14
20	WFDC3	ENSG00000124116	ENST00000490877	processed_transcript	KNOWN	None	15957	None	None	44404150	44420514	-1	None	dJ447F3.3, WAP14
20	WFDC3	ENSG00000124116	ENST00000465935	retained_intron	KNOWN	None	15957	None	None	44416850	44420507	-1	None	dJ447F3.3, WAP14
16	LINC00304	ENSG00000180422	ENST00000562248	lincRNA	KNOWN	None	26713	None	None	89225554	89226970	1	C16orf81, NCRNA00304	FLJ36701
16	LINC00304	ENSG00000180422	ENST00000321214	lincRNA	KNOWN	None	26713	None	None	89225628	89230083	1	C16orf81, NCRNA00304	FLJ36701
16	LINC00304	ENSG00000180422	ENST00000565008	lincRNA	KNOWN	None	26713	None	None	89228790	89230653	1	C16orf81, NCRNA00304	FLJ36701
2	None	ENSG00000260396	ENST00000565841	lincRNA	KNOWN	None	None	None	None	20877569	20879005	1	None	None
10	PLCE1	ENSG00000138193	ENST00000371380	protein_coding	KNOWN	CCDS41552	17175	6909	2302	95790569	96088146	1	None	KIAA1516, PLCE, NPHS3
10	PLCE1	ENSG00000138193	ENST00000371375	protein_coding	KNOWN	CCDS53555	17175	5985	1994	95848852	96085366	1	None	KIAA1516, PLCE, NPHS3
10	PLCE1	ENSG00000138193	ENST00000464214	processed_transcript	KNOWN	None	17175	None	None	96084646	96085413	1	None	KIAA1516, PLCE, NPHS3
10	PLCE1	ENSG00000138193	ENST00000260766	protein_coding	KNOWN	CCDS41552	17175	6909	2302	95753746	96088149	1	None	KIAA1516, PLCE, NPHS3
10	PLCE1	ENSG00000138193	ENST00000371385	protein_coding	KNOWN	CCDS53555	17175	5985	1994	95848830	96088149	1	None	KIAA1516, PLCE, NPHS3
HSCHR6_MHC_DBB	MDC1	ENSG00000225589	ENST00000420320	protein_coding	KNOWN	None	21163	6270	2089	30657847	30675928	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_DBB	MDC1	ENSG00000225589	ENST00000489008	retained_intron	KNOWN	None	21163	None	None	30658355	30662121	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_DBB	MDC1	ENSG00000225589	ENST00000419675	protein_coding	KNOWN	None	21163	916	304	30663488	30669953	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_DBB	MDC1	ENSG00000225589	ENST00000474752	retained_intron	KNOWN	None	21163	None	None	30663622	30665724	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_DBB	MDC1	ENSG00000225589	ENST00000495325	processed_transcript	KNOWN	None	21163	None	None	30669511	30669970	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_DBB	MDC1	ENSG00000225589	ENST00000447640	protein_coding	KNOWN	None	21163	487	161	30671872	30675214	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_DBB	MDC1	ENSG00000225589	ENST00000445764	protein_coding	KNOWN	None	21163	380	125	30671979	30675486	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_DBB	MDC1	ENSG00000225589	ENST00000437759	protein_coding	KNOWN	None	21163	340	112	30672019	30675160	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_DBB	MDC1	ENSG00000225589	ENST00000552263	protein_coding	KNOWN	None	21163	5478	1825	30657848	30675720	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_DBB	MDC1	ENSG00000225589	ENST00000551204	protein_coding	KNOWN	None	21163	5409	1802	30657848	30675720	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_DBB	MDC1	ENSG00000225589	ENST00000549428	protein_coding	KNOWN	None	21163	735	244	30658435	30675720	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_DBB	MDC1	ENSG00000225589	ENST00000547681	protein_coding	KNOWN	None	21163	732	243	30671247	30675720	-1	None	NFBD1, KIAA0170, Em:AB023051.5
10	PAWRP1	ENSG00000225533	ENST00000451083	processed_pseudogene	KNOWN	None	45201	None	None	96943410	96943974	1	None	None
2	None	ENSG00000270100	ENST00000602445	lincRNA	KNOWN	None	None	None	None	20878014	20878692	-1	None	None
7	AQP1	ENSG00000240583	ENST00000311813	protein_coding	KNOWN	CCDS5431	633	810	269	30951470	30965131	1	CO	CHIP28
7	AQP1	ENSG00000240583	ENST00000482461	processed_transcript	KNOWN	None	633	None	None	30952906	30963277	1	CO	CHIP28
7	AQP1	ENSG00000240583	ENST00000409899	protein_coding	PUTATIVE	CCDS55096	633	465	154	30961049	30963636	1	CO	CHIP28
7	AQP1	ENSG00000240583	ENST00000409611	protein_coding	PUTATIVE	CCDS55097	633	657	218	30961105	30963609	1	CO	CHIP28
7	AQP1	ENSG00000240583	ENST00000434909	protein_coding	KNOWN	None	633	990	329	30893010	30963427	1	CO	CHIP28
7	AQP1	ENSG00000240583	ENST00000441328	protein_coding	KNOWN	CCDS55098	633	561	186	30960915	30965131	1	CO	CHIP28
2	None	ENSG00000236436	ENST00000447260	lincRNA	KNOWN	None	None	None	None	21059531	21061421	1	None	None
7	None	ENSG00000257184	ENST00000470747	protein_coding	PUTATIVE	None	None	339	112	27203154	27219632	-1	None	None
7	None	ENSG00000257184	ENST00000465941	processed_transcript	KNOWN	None	None	None	None	27203283	27214799	-1	None	None
6	MPC1	ENSG00000060762	ENST00000360961	protein_coding	KNOWN	CCDS5293	21606	330	109	166778407	166796486	-1	BRP44L	dJ68L15.3, CGI-129
6	MPC1	ENSG00000060762	ENST00000487218	processed_transcript	KNOWN	None	21606	None	None	166778562	166796381	-1	BRP44L	dJ68L15.3, CGI-129
6	MPC1	ENSG00000060762	ENST00000366868	retained_intron	KNOWN	None	21606	None	None	166778718	166783823	-1	BRP44L	dJ68L15.3, CGI-129
6	MPC1	ENSG00000060762	ENST00000475708	processed_transcript	KNOWN	None	21606	None	None	166778820	166796359	-1	BRP44L	dJ68L15.3, CGI-129
6	MPC1	ENSG00000060762	ENST00000341756	protein_coding	KNOWN	None	21606	330	109	166778407	166796486	-1	BRP44L	dJ68L15.3, CGI-129
19	FAM90A28P	ENSG00000269118	ENST00000597191	transcribed_unprocessed_pseudogene	KNOWN	None	43747	None	None	53802304	53805379	-1	None	None
19	FAM90A28P	ENSG00000269118	ENST00000596881	processed_transcript	KNOWN	None	43747	None	None	53805375	53811897	-1	None	None
2	None	ENSG00000261012	ENST00000567376	lincRNA	KNOWN	None	None	None	None	21222185	21223789	-1	None	None
10	None	ENSG00000234026	ENST00000451737	antisense	KNOWN	None	None	None	None	96988000	96990901	-1	None	None
13	FAM155A	ENSG00000204442	ENST00000375915	protein_coding	KNOWN	CCDS32006	33877	1377	458	107820883	108519083	-1	None	None
2	TUBA3D	ENSG00000075886	ENST00000321253	protein_coding	KNOWN	CCDS33290	24071	1353	450	132233666	132240507	1	None	H2-ALPHA
2	TUBA3D	ENSG00000075886	ENST00000409047	processed_transcript	PUTATIVE	None	24071	None	None	132236290	132237911	1	None	H2-ALPHA
5	IRF1	ENSG00000125347	ENST00000245414	protein_coding	KNOWN	CCDS4155	6116	978	325	131817301	131826490	-1	None	MAR
5	IRF1	ENSG00000125347	ENST00000472045	retained_intron	KNOWN	None	6116	None	None	131818777	131824724	-1	None	MAR
5	IRF1	ENSG00000125347	ENST00000405885	protein_coding	KNOWN	CCDS4155	6116	978	325	131818778	131825954	-1	None	MAR
5	IRF1	ENSG00000125347	ENST00000437654	protein_coding	NOVEL	None	6116	594	197	131821359	131826469	-1	None	MAR
5	IRF1	ENSG00000125347	ENST00000459982	retained_intron	KNOWN	None	6116	None	None	131821815	131826457	-1	None	MAR
5	IRF1	ENSG00000125347	ENST00000458069	protein_coding	KNOWN	None	6116	577	191	131822033	131825996	-1	None	MAR
5	IRF1	ENSG00000125347	ENST00000463784	processed_transcript	KNOWN	None	6116	None	None	131822309	131826459	-1	None	MAR
5	IRF1	ENSG00000125347	ENST00000439555	nonsense_mediated_decay	KNOWN	None	6116	156	51	131822356	131826418	-1	None	MAR
5	IRF1	ENSG00000125347	ENST00000476613	protein_coding	KNOWN	None	6116	356	117	131822654	131825337	-1	None	MAR
5	IRF1	ENSG00000125347	ENST00000493208	retained_intron	KNOWN	None	6116	None	None	131824363	131826446	-1	None	MAR
2	None	ENSG00000271629	ENST00000604334	processed_pseudogene	KNOWN	None	None	None	None	21421390	21421768	-1	None	None
19	VN1R6P	ENSG00000174677	ENST00000458417	unitary_pseudogene	KNOWN	None	13712	None	None	53818390	53819296	1	VNR19I2	ZVNR2, ZVNH2
10	None	ENSG00000214362	ENST00000398190	processed_pseudogene	KNOWN	None	None	None	None	97354355	97355129	1	None	None
2	None	ENSG00000233005	ENST00000435237	lincRNA	KNOWN	None	None	None	None	21444047	22193831	1	None	None
2	None	ENSG00000233005	ENST00000457901	lincRNA	KNOWN	None	None	None	None	21444057	21486958	1	None	None
19	None	ENSG00000268083	ENST00000594769	protein_coding	PUTATIVE	None	None	963	320	39308111	39330818	-1	None	None
19	None	ENSG00000268083	ENST00000602021	protein_coding	PUTATIVE	None	None	342	113	39308111	39330818	-1	None	None
19	None	ENSG00000241069	ENST00000459631	transcribed_processed_pseudogene	KNOWN	None	None	None	None	53889486	53889641	1	None	None
5	None	ENSG00000250831	ENST00000514662	lincRNA	KNOWN	None	None	None	None	88762354	88765856	-1	None	None
14	GZMH	ENSG00000100450	ENST00000216338	protein_coding	KNOWN	CCDS9632	4710	741	246	25075686	25078864	-1	CTSGL2	CGL-2, CCP-X, CTLA1, CSP-C
14	GZMH	ENSG00000100450	ENST00000557220	protein_coding	PUTATIVE	None	4710	348	115	25075691	25078873	-1	CTSGL2	CGL-2, CCP-X, CTLA1, CSP-C
14	GZMH	ENSG00000100450	ENST00000382548	protein_coding	NOVEL	CCDS59243	4710	483	160	25075691	25078905	-1	CTSGL2	CGL-2, CCP-X, CTLA1, CSP-C
2	None	ENSG00000231204	ENST00000451476	lincRNA	KNOWN	None	None	None	None	21540532	21784185	1	None	None
2	None	ENSG00000231204	ENST00000451511	lincRNA	KNOWN	None	None	None	None	21618948	21626046	1	None	None
2	None	ENSG00000231204	ENST00000417609	lincRNA	KNOWN	None	None	None	None	21619455	21626046	1	None	None
5	None	ENSG00000250437	ENST00000503691	lincRNA	KNOWN	None	None	None	None	88877026	88973518	1	None	None
9	OLFM1	ENSG00000130558	ENST00000371799	protein_coding	PUTATIVE	None	17187	504	167	137967268	137969237	1	None	NOE1, OlfA, AMY, NOELIN
9	OLFM1	ENSG00000130558	ENST00000277415	protein_coding	KNOWN	CCDS6987	17187	408	135	137967268	137989953	1	None	NOE1, OlfA, AMY, NOELIN
9	OLFM1	ENSG00000130558	ENST00000252854	protein_coding	KNOWN	CCDS6986	17187	1404	467	137967366	138013024	1	None	NOE1, OlfA, AMY, NOELIN
9	OLFM1	ENSG00000130558	ENST00000371801	protein_coding	PUTATIVE	None	17187	390	129	137967512	137968333	1	None	NOE1, OlfA, AMY, NOELIN
9	OLFM1	ENSG00000130558	ENST00000339720	protein_coding	PUTATIVE	None	17187	490	162	137978400	137990198	1	None	NOE1, OlfA, AMY, NOELIN
9	OLFM1	ENSG00000130558	ENST00000371796	protein_coding	PUTATIVE	None	17187	1377	458	137979106	138013025	1	None	NOE1, OlfA, AMY, NOELIN
9	OLFM1	ENSG00000130558	ENST00000539529	protein_coding	PUTATIVE	None	17187	388	128	137979515	137990312	1	None	NOE1, OlfA, AMY, NOELIN
9	OLFM1	ENSG00000130558	ENST00000392991	protein_coding	KNOWN	None	17187	462	153	137979520	137989911	1	None	NOE1, OlfA, AMY, NOELIN
9	OLFM1	ENSG00000130558	ENST00000371793	protein_coding	KNOWN	None	17187	1458	485	137979585	138012759	1	None	NOE1, OlfA, AMY, NOELIN
9	OLFM1	ENSG00000130558	ENST00000539877	protein_coding	PUTATIVE	None	17187	625	207	137986906	138011500	1	None	NOE1, OlfA, AMY, NOELIN
9	OLFM1	ENSG00000130558	ENST00000545657	protein_coding	PUTATIVE	None	17187	298	98	137987832	138011822	1	None	NOE1, OlfA, AMY, NOELIN
9	OLFM1	ENSG00000130558	ENST00000483042	retained_intron	KNOWN	None	17187	None	None	137997486	138012757	1	None	NOE1, OlfA, AMY, NOELIN
19	RPL39P36	ENSG00000239912	ENST00000490784	processed_pseudogene	KNOWN	None	36076	None	None	53916443	53916598	1	None	None
4	None	ENSG00000250220	ENST00000502790	antisense	KNOWN	None	None	None	None	74124926	74183670	1	None	None
5	None	ENSG00000214942	ENST00000505109	lincRNA	KNOWN	None	None	None	None	89196481	89200725	1	None	None
7	None	ENSG00000267970	ENST00000596947	protein_coding	KNOWN	None	None	411	136	48887362	48891221	1	None	None
5	None	ENSG00000249265	ENST00000512941	lincRNA	KNOWN	None	None	None	None	89240727	89243390	1	None	None
HSCHR6_MHC_MANN	HLA-DQA1	ENSG00000225890	ENST00000448163	protein_coding	KNOWN	None	4942	73	23	32748724	32758071	1	HLA-DQA	CELIAC1
HSCHR6_MHC_MANN	HLA-DQA1	ENSG00000225890	ENST00000443320	protein_coding	KNOWN	None	4942	765	254	32757897	32764107	1	HLA-DQA	CELIAC1
HSCHR6_MHC_MANN	HLA-DQA1	ENSG00000225890	ENST00000451947	protein_coding	KNOWN	None	4942	765	254	32757897	32764107	1	HLA-DQA	CELIAC1
HSCHR6_MHC_MANN	HLA-DQA1	ENSG00000225890	ENST00000416403	protein_coding	KNOWN	None	4942	765	254	32757941	32764107	1	HLA-DQA	CELIAC1
HSCHR6_MHC_MANN	HLA-DQA1	ENSG00000225890	ENST00000498305	processed_transcript	KNOWN	None	4942	None	None	32757946	32763430	1	HLA-DQA	CELIAC1
HSCHR6_MHC_MANN	HLA-DQA1	ENSG00000225890	ENST00000442680	protein_coding	KNOWN	None	4942	765	254	32757960	32763466	1	HLA-DQA	CELIAC1
HSCHR6_MHC_MANN	HLA-DQA1	ENSG00000225890	ENST00000498769	processed_transcript	PUTATIVE	None	4942	None	None	32757964	32762701	1	HLA-DQA	CELIAC1
HSCHR6_MHC_MANN	HLA-DQA1	ENSG00000225890	ENST00000468299	nonsense_mediated_decay	KNOWN	None	4942	348	115	32757967	32763727	1	HLA-DQA	CELIAC1
HSCHR6_MHC_MANN	HLA-DQA1	ENSG00000225890	ENST00000476192	retained_intron	KNOWN	None	4942	None	None	32757971	32771089	1	HLA-DQA	CELIAC1
HSCHR6_MHC_MANN	HLA-DQA1	ENSG00000225890	ENST00000468405	processed_transcript	PUTATIVE	None	4942	None	None	32761775	32763727	1	HLA-DQA	CELIAC1
7	HOXA10	ENSG00000253293	ENST00000283921	protein_coding	KNOWN	CCDS5410	5100	1233	410	27210210	27213925	-1	HOX1H, HOX1	None
7	HOXA10	ENSG00000253293	ENST00000396344	protein_coding	KNOWN	None	5100	285	94	27210839	27219880	-1	HOX1H, HOX1	None
7	HOXA10	ENSG00000253293	ENST00000524368	processed_transcript	KNOWN	None	5100	None	None	27210997	27212582	-1	HOX1H, HOX1	None
7	HOXA10	ENSG00000253293	ENST00000521421	processed_transcript	KNOWN	None	5100	None	None	27211082	27212508	-1	HOX1H, HOX1	None
7	HOXA10	ENSG00000253293	ENST00000519593	processed_transcript	KNOWN	None	5100	None	None	27211396	27212508	-1	HOX1H, HOX1	None
7	AKR1B15	ENSG00000227471	ENST00000457545	protein_coding	PUTATIVE	CCDS47715	37281	1035	344	134233888	134264627	1	None	None
7	AKR1B15	ENSG00000227471	ENST00000467156	retained_intron	KNOWN	None	37281	None	None	134249540	134255226	1	None	None
7	AKR1B15	ENSG00000227471	ENST00000423958	protein_coding	KNOWN	None	37281	951	316	134250233	134264592	1	None	None
19	None	ENSG00000249435	ENST00000503482	processed_pseudogene	KNOWN	None	None	None	None	53929272	53929752	-1	None	None
7	CCDC146	ENSG00000135205	ENST00000415750	protein_coding	KNOWN	None	29296	511	169	76751751	76883884	1	None	KIAA1505
7	CCDC146	ENSG00000135205	ENST00000285871	protein_coding	KNOWN	CCDS34671	29296	2868	955	76751934	76924521	1	None	KIAA1505
7	CCDC146	ENSG00000135205	ENST00000461882	retained_intron	KNOWN	None	29296	None	None	76871663	76888606	1	None	KIAA1505
7	CCDC146	ENSG00000135205	ENST00000415740	processed_transcript	KNOWN	None	29296	None	None	76889285	76924533	1	None	KIAA1505
7	CCDC146	ENSG00000135205	ENST00000461259	retained_intron	KNOWN	None	29296	None	None	76911616	76924530	1	None	KIAA1505
7	CCDC146	ENSG00000135205	ENST00000474733	retained_intron	KNOWN	None	29296	None	None	76911828	76922517	1	None	KIAA1505
7	CCDC146	ENSG00000135205	ENST00000464021	retained_intron	KNOWN	None	29296	None	None	76911909	76916487	1	None	KIAA1505
7	CCDC146	ENSG00000135205	ENST00000478101	retained_intron	KNOWN	None	29296	None	None	76916671	76924232	1	None	KIAA1505
7	CCDC146	ENSG00000135205	ENST00000488998	processed_transcript	PUTATIVE	None	29296	None	None	76922370	76958850	1	None	KIAA1505
7	CCDC146	ENSG00000135205	ENST00000431197	protein_coding	KNOWN	None	29296	2010	669	76751934	76924521	1	None	KIAA1505
2	None	ENSG00000270654	ENST00000604593	processed_pseudogene	KNOWN	None	None	None	None	21585164	21586897	-1	None	None
7	VWC2	ENSG00000188730	ENST00000340652	protein_coding	KNOWN	CCDS5508	30200	978	325	49813257	49952138	1	None	PSST739, UNQ739
2	None	ENSG00000235537	ENST00000458359	lincRNA	KNOWN	None	None	None	None	21853420	21859181	-1	None	None
19	TPM3P9	ENSG00000241015	ENST00000424846	processed_transcript	KNOWN	None	44142	None	None	53935237	53947923	1	None	None
19	TPM3P9	ENSG00000241015	ENST00000492121	transcribed_processed_pseudogene	KNOWN	None	44142	None	None	53945116	53945860	1	None	None
15	PDE8A	ENSG00000073417	ENST00000310298	protein_coding	KNOWN	CCDS10336	8793	2490	829	85523671	85682376	1	None	HsT19550
15	PDE8A	ENSG00000073417	ENST00000557957	protein_coding	PUTATIVE	CCDS58397	8793	2274	757	85523744	85682373	1	None	HsT19550
15	PDE8A	ENSG00000073417	ENST00000339708	protein_coding	KNOWN	CCDS10337	8793	2352	783	85525212	85681263	1	None	HsT19550
15	PDE8A	ENSG00000073417	ENST00000478717	nonsense_mediated_decay	KNOWN	None	8793	687	228	85525212	85681263	1	None	HsT19550
15	PDE8A	ENSG00000073417	ENST00000485596	nonsense_mediated_decay	KNOWN	None	8793	819	272	85525212	85681263	1	None	HsT19550
15	PDE8A	ENSG00000073417	ENST00000559742	nonsense_mediated_decay	KNOWN	None	8793	696	231	85525212	85681263	1	None	HsT19550
15	PDE8A	ENSG00000073417	ENST00000559086	nonsense_mediated_decay	KNOWN	None	8793	381	126	85525457	85652361	1	None	HsT19550
15	PDE8A	ENSG00000073417	ENST00000560789	retained_intron	KNOWN	None	8793	None	None	85605728	85681838	1	None	HsT19550
15	PDE8A	ENSG00000073417	ENST00000557819	processed_transcript	KNOWN	None	8793	None	None	85610259	85656631	1	None	HsT19550
15	PDE8A	ENSG00000073417	ENST00000558543	retained_intron	KNOWN	None	8793	None	None	85641034	85657269	1	None	HsT19550
15	PDE8A	ENSG00000073417	ENST00000557954	retained_intron	KNOWN	None	8793	None	None	85642988	85657187	1	None	HsT19550
15	PDE8A	ENSG00000073417	ENST00000561105	retained_intron	KNOWN	None	8793	None	None	85643210	85643489	1	None	HsT19550
15	PDE8A	ENSG00000073417	ENST00000561374	retained_intron	KNOWN	None	8793	None	None	85658487	85659540	1	None	HsT19550
15	PDE8A	ENSG00000073417	ENST00000560333	retained_intron	KNOWN	None	8793	None	None	85659000	85661063	1	None	HsT19550
15	PDE8A	ENSG00000073417	ENST00000561024	retained_intron	KNOWN	None	8793	None	None	85663422	85682373	1	None	HsT19550
15	PDE8A	ENSG00000073417	ENST00000394553	protein_coding	KNOWN	CCDS10336	8793	2490	829	85525205	85682367	1	None	HsT19550
2	None	ENSG00000228538	ENST00000416032	lincRNA	KNOWN	None	None	None	None	21861303	21872374	-1	None	None
2	None	ENSG00000228538	ENST00000412424	lincRNA	KNOWN	None	None	None	None	21861303	21872435	-1	None	None
12	CCDC53	ENSG00000120860	ENST00000538761	nonsense_mediated_decay	KNOWN	None	24256	153	50	102406705	102455752	-1	None	CGI-116
12	CCDC53	ENSG00000120860	ENST00000240079	protein_coding	KNOWN	CCDS44959	24256	585	194	102406717	102455902	-1	None	CGI-116
12	CCDC53	ENSG00000120860	ENST00000544341	nonsense_mediated_decay	KNOWN	None	24256	522	173	102406720	102455851	-1	None	CGI-116
12	CCDC53	ENSG00000120860	ENST00000545679	protein_coding	NOVEL	None	24256	582	193	102406720	102455857	-1	None	CGI-116
12	CCDC53	ENSG00000120860	ENST00000540536	nonsense_mediated_decay	KNOWN	None	24256	510	169	102406721	102455778	-1	None	CGI-116
12	CCDC53	ENSG00000120860	ENST00000535501	nonsense_mediated_decay	KNOWN	None	24256	186	61	102406722	102455812	-1	None	CGI-116
12	CCDC53	ENSG00000120860	ENST00000536197	retained_intron	KNOWN	None	24256	None	None	102406724	102434212	-1	None	CGI-116
12	CCDC53	ENSG00000120860	ENST00000542923	protein_coding	NOVEL	None	24256	324	107	102406733	102439897	-1	None	CGI-116
12	CCDC53	ENSG00000120860	ENST00000539515	processed_transcript	KNOWN	None	24256	None	None	102413055	102455927	-1	None	CGI-116
12	CCDC53	ENSG00000120860	ENST00000541569	retained_intron	KNOWN	None	24256	None	None	102419699	102455756	-1	None	CGI-116
12	CCDC53	ENSG00000120860	ENST00000500685	nonsense_mediated_decay	KNOWN	None	24256	234	77	102433662	102455790	-1	None	CGI-116
12	CCDC53	ENSG00000120860	ENST00000326351	retained_intron	KNOWN	None	24256	None	None	102437393	102455769	-1	None	CGI-116
12	CCDC53	ENSG00000120860	ENST00000536930	processed_transcript	PUTATIVE	None	24256	None	None	102453442	102455752	-1	None	CGI-116
2	KCNK12	ENSG00000184261	ENST00000327876	protein_coding	KNOWN	CCDS1835	6274	1293	430	47747910	47798078	-1	None	THIK-2, THIK2, K2p12.1
2	KCNK12	ENSG00000184261	ENST00000493527	processed_transcript	PUTATIVE	None	6274	None	None	47770483	47797454	-1	None	THIK-2, THIK2, K2p12.1
2	None	ENSG00000229621	ENST00000435682	lincRNA	KNOWN	None	None	None	None	21910306	21933495	-1	None	None
15	PKM	ENSG00000067225	ENST00000564440	retained_intron	KNOWN	None	9021	None	None	72491370	72496900	-1	PKM2	THBP1, OIP3, PK3
15	PKM	ENSG00000067225	ENST00000565184	protein_coding	KNOWN	CCDS32285	9021	1596	531	72491373	72523512	-1	PKM2	THBP1, OIP3, PK3
15	PKM	ENSG00000067225	ENST00000335181	protein_coding	KNOWN	CCDS32284	9021	1596	531	72491373	72523547	-1	PKM2	THBP1, OIP3, PK3
15	PKM	ENSG00000067225	ENST00000568883	protein_coding	NOVEL	None	9021	1101	366	72491373	72524164	-1	PKM2	THBP1, OIP3, PK3
15	PKM	ENSG00000067225	ENST00000565143	retained_intron	KNOWN	None	9021	None	None	72491377	72494394	-1	PKM2	THBP1, OIP3, PK3
15	PKM	ENSG00000067225	ENST00000567118	nonsense_mediated_decay	KNOWN	None	9021	210	69	72491446	72523531	-1	PKM2	THBP1, OIP3, PK3
15	PKM	ENSG00000067225	ENST00000565154	protein_coding	NOVEL	CCDS32285	9021	1596	531	72491931	72523454	-1	PKM2	THBP1, OIP3, PK3
15	PKM	ENSG00000067225	ENST00000568459	protein_coding	NOVEL	CCDS32285	9021	1596	531	72491970	72522063	-1	PKM2	THBP1, OIP3, PK3
15	PKM	ENSG00000067225	ENST00000561609	protein_coding	NOVEL	None	9021	1455	484	72492849	72521017	-1	PKM2	THBP1, OIP3, PK3
15	PKM	ENSG00000067225	ENST00000563986	retained_intron	KNOWN	None	9021	None	None	72494208	72499139	-1	PKM2	THBP1, OIP3, PK3
15	PKM	ENSG00000067225	ENST00000569857	nonsense_mediated_decay	KNOWN	None	9021	846	281	72494874	72523566	-1	PKM2	THBP1, OIP3, PK3
15	PKM	ENSG00000067225	ENST00000570166	retained_intron	KNOWN	None	9021	None	None	72495031	72499195	-1	PKM2	THBP1, OIP3, PK3
15	PKM	ENSG00000067225	ENST00000564993	retained_intron	KNOWN	None	9021	None	None	72498600	72499508	-1	PKM2	THBP1, OIP3, PK3
15	PKM	ENSG00000067225	ENST00000563275	retained_intron	KNOWN	None	9021	None	None	72499016	72501303	-1	PKM2	THBP1, OIP3, PK3
15	PKM	ENSG00000067225	ENST00000568743	retained_intron	KNOWN	None	9021	None	None	72501007	72502367	-1	PKM2	THBP1, OIP3, PK3
15	PKM	ENSG00000067225	ENST00000562784	retained_intron	KNOWN	None	9021	None	None	72501847	72509792	-1	PKM2	THBP1, OIP3, PK3
15	PKM	ENSG00000067225	ENST00000564178	protein_coding	KNOWN	None	9021	505	167	72502074	72511766	-1	PKM2	THBP1, OIP3, PK3
15	PKM	ENSG00000067225	ENST00000562997	protein_coding	KNOWN	None	9021	487	161	72502092	72514872	-1	PKM2	THBP1, OIP3, PK3
15	PKM	ENSG00000067225	ENST00000567087	protein_coding	PUTATIVE	None	9021	455	150	72502124	72524021	-1	PKM2	THBP1, OIP3, PK3
15	PKM	ENSG00000067225	ENST00000564276	retained_intron	KNOWN	None	9021	None	None	72502401	72523531	-1	PKM2	THBP1, OIP3, PK3
15	PKM	ENSG00000067225	ENST00000566809	protein_coding	PUTATIVE	None	9021	246	81	72509750	72523965	-1	PKM2	THBP1, OIP3, PK3
15	PKM	ENSG00000067225	ENST00000569050	protein_coding	KNOWN	None	9021	155	50	72511284	72524160	-1	PKM2	THBP1, OIP3, PK3
15	PKM	ENSG00000067225	ENST00000449901	protein_coding	KNOWN	CCDS55972	9021	1551	516	72491446	72523531	-1	PKM2	THBP1, OIP3, PK3
15	PKM	ENSG00000067225	ENST00000319622	protein_coding	KNOWN	CCDS32285	9021	1596	531	72491370	72523684	-1	PKM2	THBP1, OIP3, PK3
15	PKM	ENSG00000067225	ENST00000389093	protein_coding	KNOWN	CCDS32285	9021	1596	531	72491373	72523531	-1	PKM2	THBP1, OIP3, PK3
2	RN7SL117P	ENSG00000264192	ENST00000580765	misc_RNA	KNOWN	None	46133	None	None	22145865	22146160	1	None	None
18	None	ENSG00000228835	ENST00000426194	protein_coding	NOVEL	None	None	567	188	30349758	30354376	1	None	None
17	C17orf98	ENSG00000214556	ENST00000398575	protein_coding	KNOWN	CCDS42310	34492	465	154	36991341	36997708	-1	None	LOC388381
3	PRRT3	ENSG00000163704	ENST00000295984	nonsense_mediated_decay	KNOWN	CCDS43049	26591	2946	981	9987226	9994058	-1	None	FLJ33674
3	PRRT3	ENSG00000163704	ENST00000412055	protein_coding	KNOWN	CCDS43049	26591	2946	981	9987226	9994078	-1	None	FLJ33674
3	PRRT3	ENSG00000163704	ENST00000411976	protein_coding	NOVEL	None	26591	1266	421	9990264	9994074	-1	None	FLJ33674
2	None	ENSG00000231200	ENST00000450551	lincRNA	KNOWN	None	None	None	None	22156208	22753977	-1	None	None
13	LIG4	ENSG00000174405	ENST00000356922	protein_coding	KNOWN	CCDS9508	6601	2736	911	108859787	108867130	-1	None	None
13	LIG4	ENSG00000174405	ENST00000405925	protein_coding	KNOWN	CCDS9508	6601	2736	911	108859794	108870716	-1	None	None
13	LIG4	ENSG00000174405	ENST00000442234	protein_coding	KNOWN	CCDS9508	6601	2736	911	108859794	108867888	-1	None	None
19	ZNF225	ENSG00000256294	ENST00000589155	protein_coding	KNOWN	None	13018	367	121	44616334	44635134	1	None	None
19	ZNF225	ENSG00000256294	ENST00000262894	protein_coding	KNOWN	CCDS46100	13018	2121	706	44617511	44636982	1	None	None
19	ZNF225	ENSG00000256294	ENST00000588926	protein_coding	KNOWN	None	13018	153	50	44617568	44622645	1	None	None
19	ZNF225	ENSG00000256294	ENST00000592780	protein_coding	PUTATIVE	None	13018	276	91	44617570	44637027	1	None	None
19	ZNF225	ENSG00000256294	ENST00000590612	protein_coding	KNOWN	CCDS46100	13018	2121	706	44619698	44636888	1	None	None
19	ZNF225	ENSG00000256294	ENST00000592360	retained_intron	KNOWN	None	13018	None	None	44632607	44634853	1	None	None
19	ZNF761	ENSG00000160336	ENST00000447129	processed_transcript	KNOWN	None	23179	None	None	53935246	53953585	1	None	KIAA2033, FLJ16231, FLJ35333
19	ZNF761	ENSG00000160336	ENST00000429310	processed_transcript	KNOWN	None	23179	None	None	53948254	53961515	1	None	KIAA2033, FLJ16231, FLJ35333
19	ZNF761	ENSG00000160336	ENST00000366293	processed_transcript	KNOWN	None	23179	None	None	53950490	53953608	1	None	KIAA2033, FLJ16231, FLJ35333
19	ZNF761	ENSG00000160336	ENST00000334095	processed_transcript	KNOWN	None	23179	None	None	53953150	53961514	1	None	KIAA2033, FLJ16231, FLJ35333
19	ZNF761	ENSG00000160336	ENST00000454407	processed_transcript	KNOWN	None	23179	None	None	53935227	53961514	1	None	KIAA2033, FLJ16231, FLJ35333
19	ZNF761	ENSG00000160336	ENST00000396407	processed_transcript	KNOWN	None	23179	None	None	53952637	53953585	1	None	KIAA2033, FLJ16231, FLJ35333
19	ZNF761	ENSG00000160336	ENST00000432094	processed_transcript	KNOWN	None	23179	None	None	53952750	53960002	1	None	KIAA2033, FLJ16231, FLJ35333
3	SIDT1	ENSG00000072858	ENST00000264852	protein_coding	KNOWN	CCDS2974	25967	2484	827	113251143	113348425	1	None	FLJ20174, SID-1
3	SIDT1	ENSG00000072858	ENST00000491730	retained_intron	KNOWN	None	25967	None	None	113251402	113300722	1	None	FLJ20174, SID-1
3	SIDT1	ENSG00000072858	ENST00000483946	retained_intron	KNOWN	None	25967	None	None	113252024	113286763	1	None	FLJ20174, SID-1
3	SIDT1	ENSG00000072858	ENST00000488390	retained_intron	KNOWN	None	25967	None	None	113303529	113320856	1	None	FLJ20174, SID-1
3	SIDT1	ENSG00000072858	ENST00000480746	retained_intron	KNOWN	None	25967	None	None	113311550	113323822	1	None	FLJ20174, SID-1
3	SIDT1	ENSG00000072858	ENST00000468728	retained_intron	KNOWN	None	25967	None	None	113320203	113321908	1	None	FLJ20174, SID-1
3	SIDT1	ENSG00000072858	ENST00000463226	processed_transcript	KNOWN	None	25967	None	None	113321249	113346688	1	None	FLJ20174, SID-1
3	SIDT1	ENSG00000072858	ENST00000465803	retained_intron	KNOWN	None	25967	None	None	113321530	113322870	1	None	FLJ20174, SID-1
3	SIDT1	ENSG00000072858	ENST00000492863	retained_intron	KNOWN	None	25967	None	None	113325259	113326970	1	None	FLJ20174, SID-1
3	SIDT1	ENSG00000072858	ENST00000481891	retained_intron	KNOWN	None	25967	None	None	113334874	113338762	1	None	FLJ20174, SID-1
3	SIDT1	ENSG00000072858	ENST00000498152	retained_intron	KNOWN	None	25967	None	None	113344761	113346767	1	None	FLJ20174, SID-1
3	SIDT1	ENSG00000072858	ENST00000393830	protein_coding	KNOWN	None	25967	2499	832	113251218	113348421	1	None	FLJ20174, SID-1
2	None	ENSG00000228999	ENST00000430520	lincRNA	KNOWN	None	None	None	None	22167481	22188423	-1	None	None
8	GFRA2	ENSG00000168546	ENST00000524240	protein_coding	KNOWN	CCDS47816	4244	1395	464	21547915	21646322	-1	None	RETL2, GDNFRB, NTNRA, TRNR2
8	GFRA2	ENSG00000168546	ENST00000306793	nonsense_mediated_decay	KNOWN	None	4244	189	62	21549530	21646331	-1	None	RETL2, GDNFRB, NTNRA, TRNR2
8	GFRA2	ENSG00000168546	ENST00000517328	protein_coding	KNOWN	CCDS47816	4244	1395	464	21550355	21669869	-1	None	RETL2, GDNFRB, NTNRA, TRNR2
8	GFRA2	ENSG00000168546	ENST00000518077	protein_coding	KNOWN	CCDS55207	4244	996	331	21550447	21645835	-1	None	RETL2, GDNFRB, NTNRA, TRNR2
8	GFRA2	ENSG00000168546	ENST00000517892	protein_coding	NOVEL	None	4244	1077	358	21550793	21645986	-1	None	RETL2, GDNFRB, NTNRA, TRNR2
8	GFRA2	ENSG00000168546	ENST00000522071	protein_coding	KNOWN	None	4244	796	264	21563552	21646765	-1	None	RETL2, GDNFRB, NTNRA, TRNR2
8	GFRA2	ENSG00000168546	ENST00000519195	protein_coding	PUTATIVE	None	4244	222	73	21632488	21646296	-1	None	RETL2, GDNFRB, NTNRA, TRNR2
8	GFRA2	ENSG00000168546	ENST00000520676	processed_transcript	KNOWN	None	4244	None	None	21637062	21645671	-1	None	RETL2, GDNFRB, NTNRA, TRNR2
8	GFRA2	ENSG00000168546	ENST00000400782	protein_coding	KNOWN	CCDS55208	4244	1080	359	21549532	21646346	-1	None	RETL2, GDNFRB, NTNRA, TRNR2
2	None	ENSG00000223691	ENST00000441585	processed_pseudogene	KNOWN	None	None	None	None	22411208	22413185	1	None	None
2	None	ENSG00000269563	ENST00000601243	protein_coding	KNOWN	None	None	453	150	47799601	47801998	1	None	None
22	ZDHHC8P1	ENSG00000133519	ENST00000255890	processed_transcript	KNOWN	None	26461	None	None	23732793	23744754	-1	ZDHHC8P	FLJ31568
22	ZDHHC8P1	ENSG00000133519	ENST00000433168	processed_transcript	KNOWN	None	26461	None	None	23732793	23744913	-1	ZDHHC8P	FLJ31568
22	ZDHHC8P1	ENSG00000133519	ENST00000420968	processed_transcript	KNOWN	None	26461	None	None	23733564	23744759	-1	ZDHHC8P	FLJ31568
22	ZDHHC8P1	ENSG00000133519	ENST00000456279	processed_transcript	KNOWN	None	26461	None	None	23734772	23741795	-1	ZDHHC8P	FLJ31568
22	ZDHHC8P1	ENSG00000133519	ENST00000418264	transcribed_unprocessed_pseudogene	KNOWN	None	26461	None	None	23740125	23744344	-1	ZDHHC8P	FLJ31568
13	SLC25A15	ENSG00000102743	ENST00000478827	processed_transcript	KNOWN	None	10985	None	None	41363548	41382606	1	ORNT1, HHH	ORC1, D13S327
13	SLC25A15	ENSG00000102743	ENST00000338625	protein_coding	KNOWN	CCDS9373	10985	906	301	41363633	41384247	1	ORNT1, HHH	ORC1, D13S327
13	SLC25A15	ENSG00000102743	ENST00000417731	protein_coding	PUTATIVE	None	10985	399	132	41367294	41381514	1	ORNT1, HHH	ORC1, D13S327
13	SLC25A15	ENSG00000102743	ENST00000470509	nonsense_mediated_decay	KNOWN	None	10985	174	57	41367294	41381562	1	ORNT1, HHH	ORC1, D13S327
9	None	ENSG00000241536	ENST00000423634	processed_pseudogene	KNOWN	None	None	None	None	39485380	39485866	1	None	None
2	None	ENSG00000234189	ENST00000439809	processed_pseudogene	KNOWN	None	None	None	None	22539925	22540116	1	None	None
8	LRRC14	ENSG00000160959	ENST00000527730	protein_coding	PUTATIVE	None	20419	903	300	145743376	145746195	1	None	KIAA0014, LRRC14A
8	LRRC14	ENSG00000160959	ENST00000529022	protein_coding	PUTATIVE	CCDS6432	20419	1482	493	145743389	145747408	1	None	KIAA0014, LRRC14A
8	LRRC14	ENSG00000160959	ENST00000292524	protein_coding	KNOWN	CCDS6432	20419	1482	493	145743391	145750557	1	None	KIAA0014, LRRC14A
8	LRRC14	ENSG00000160959	ENST00000530854	protein_coding	PUTATIVE	None	20419	260	85	145743755	145745369	1	None	KIAA0014, LRRC14A
8	LRRC14	ENSG00000160959	ENST00000525766	protein_coding	PUTATIVE	None	20419	479	158	145744129	145745771	1	None	KIAA0014, LRRC14A
8	LRRC14	ENSG00000160959	ENST00000531310	retained_intron	KNOWN	None	20419	None	None	145744651	145746206	1	None	KIAA0014, LRRC14A
8	LRRC14	ENSG00000160959	ENST00000528528	processed_transcript	KNOWN	None	20419	None	None	145747966	145749830	1	None	KIAA0014, LRRC14A
8	LRRC14	ENSG00000160959	ENST00000530242	processed_transcript	KNOWN	None	20419	None	None	145748656	145749675	1	None	KIAA0014, LRRC14A
8	LRRC14	ENSG00000160959	ENST00000529995	processed_transcript	KNOWN	None	20419	None	None	145749047	145750255	1	None	KIAA0014, LRRC14A
13	ABHD13	ENSG00000139826	ENST00000375898	protein_coding	KNOWN	CCDS32007	20293	1014	337	108870727	108886603	1	C13orf6	bA153I24.2, FLJ14906, BEM46L1
9	None	ENSG00000268819	ENST00000599266	processed_pseudogene	KNOWN	None	None	None	None	39631025	39632395	1	None	None
2	RNA5SP87	ENSG00000206882	ENST00000384155	rRNA	KNOWN	None	42885	None	None	22561758	22561875	-1	RN5S87	None
2	None	ENSG00000234207	ENST00000419013	lincRNA	KNOWN	None	None	None	None	22600466	22704876	1	None	None
19	TPM3P6	ENSG00000250731	ENST00000391998	processed_pseudogene	KNOWN	None	39169	None	None	53982604	53983345	1	None	None
16	KIAA0513	ENSG00000135709	ENST00000566428	protein_coding	KNOWN	CCDS32499	29058	1236	411	85096818	85127836	1	None	None
16	KIAA0513	ENSG00000135709	ENST00000567328	protein_coding	KNOWN	None	29058	906	301	85100458	85113360	1	None	None
16	KIAA0513	ENSG00000135709	ENST00000562580	protein_coding	NOVEL	None	29058	597	198	85111066	85122009	1	None	None
16	KIAA0513	ENSG00000135709	ENST00000562564	protein_coding	NOVEL	None	29058	342	113	85112025	85121953	1	None	None
16	KIAA0513	ENSG00000135709	ENST00000562388	retained_intron	KNOWN	None	29058	None	None	85120520	85122361	1	None	None
16	KIAA0513	ENSG00000135709	ENST00000538274	protein_coding	KNOWN	None	29058	1206	401	85061375	85122055	1	None	None
16	KIAA0513	ENSG00000135709	ENST00000258180	protein_coding	KNOWN	CCDS32499	29058	1236	411	85061410	85127826	1	None	None
2	None	ENSG00000233587	ENST00000433429	lincRNA	KNOWN	None	None	None	None	22759351	22761160	1	None	None
11	None	ENSG00000256206	ENST00000555531	nonsense_mediated_decay	KNOWN	None	None	495	164	14515329	14541890	-1	None	None
2	RN7SKP27	ENSG00000222616	ENST00000410684	misc_RNA	KNOWN	None	45751	None	None	23084424	23084756	1	None	None
5	MIR3660	ENSG00000264342	ENST00000584845	miRNA	KNOWN	None	38985	None	None	89312438	89312537	-1	None	hsa-mir-3660
19	None	ENSG00000241434	ENST00000483735	transcribed_processed_pseudogene	KNOWN	None	None	None	None	53999141	53999291	1	None	None
4	None	ENSG00000221639	ENST00000408712	snoRNA	KNOWN	None	None	None	None	74129677	74129801	1	None	None
HSCHR6_MHC_COX	HLA-DMA	ENSG00000243719	ENST00000460128	retained_intron	KNOWN	None	4934	None	None	32838712	32839773	-1	None	D6S222E, RING6
HSCHR6_MHC_COX	HLA-DMA	ENSG00000243719	ENST00000452703	protein_coding	KNOWN	None	4934	501	166	32838712	32843163	-1	None	D6S222E, RING6
HSCHR6_MHC_COX	HLA-DMA	ENSG00000243719	ENST00000451148	protein_coding	KNOWN	None	4934	684	227	32838712	32843210	-1	None	D6S222E, RING6
HSCHR6_MHC_COX	HLA-DMA	ENSG00000243719	ENST00000481354	retained_intron	KNOWN	None	4934	None	None	32838712	32843210	-1	None	D6S222E, RING6
HSCHR6_MHC_COX	HLA-DMA	ENSG00000243719	ENST00000453490	protein_coding	KNOWN	None	4934	786	261	32838712	32843224	-1	None	D6S222E, RING6
HSCHR6_MHC_COX	HLA-DMA	ENSG00000243719	ENST00000493659	processed_transcript	KNOWN	None	4934	None	None	32838840	32860827	-1	None	D6S222E, RING6
HSCHR6_MHC_COX	HLA-DMA	ENSG00000243719	ENST00000466446	processed_transcript	KNOWN	None	4934	None	None	32838873	32858555	-1	None	D6S222E, RING6
HSCHR6_MHC_COX	HLA-DMA	ENSG00000243719	ENST00000422196	protein_coding	KNOWN	None	4934	871	289	32839373	32842563	-1	None	D6S222E, RING6
HSCHR6_MHC_COX	HLA-DMA	ENSG00000243719	ENST00000416297	protein_coding	KNOWN	None	4934	507	168	32839759	32859205	-1	None	D6S222E, RING6
HSCHR6_MHC_COX	HLA-DMA	ENSG00000243719	ENST00000475284	retained_intron	KNOWN	None	4934	None	None	32840186	32843136	-1	None	D6S222E, RING6
11	NPAT	ENSG00000149308	ENST00000278612	protein_coding	KNOWN	CCDS41710	7896	4284	1427	108027942	108093369	-1	None	E14
11	NPAT	ENSG00000149308	ENST00000530926	retained_intron	KNOWN	None	7896	None	None	108029365	108032410	-1	None	E14
11	NPAT	ENSG00000149308	ENST00000530859	retained_intron	KNOWN	None	7896	None	None	108029520	108040928	-1	None	E14
11	NPAT	ENSG00000149308	ENST00000527296	protein_coding	NOVEL	None	7896	898	298	108031911	108032892	-1	None	E14
11	NPAT	ENSG00000149308	ENST00000531384	nonsense_mediated_decay	KNOWN	None	7896	183	60	108061187	108093343	-1	None	E14
4	None	ENSG00000249976	ENST00000510511	processed_pseudogene	KNOWN	None	None	None	None	74202950	74203488	-1	None	None
2	None	ENSG00000232451	ENST00000421581	lincRNA	KNOWN	None	None	None	None	23240997	23313708	-1	None	None
2	None	ENSG00000232451	ENST00000432612	lincRNA	KNOWN	None	None	None	None	23249981	23253293	-1	None	None
2	None	ENSG00000232451	ENST00000440785	lincRNA	KNOWN	None	None	None	None	23253475	23421927	-1	None	None
4	None	ENSG00000250436	ENST00000502291	lincRNA	KNOWN	None	None	None	None	74374520	74394250	1	None	None
4	None	ENSG00000250436	ENST00000508147	lincRNA	KNOWN	None	None	None	None	74375916	74394439	1	None	None
4	None	ENSG00000250436	ENST00000504368	lincRNA	KNOWN	None	None	None	None	74375928	74399845	1	None	None
9	None	ENSG00000230281	ENST00000428578	processed_pseudogene	KNOWN	None	None	None	None	39651897	39652392	-1	None	None
22	None	ENSG00000248409	ENST00000512987	unprocessed_pseudogene	KNOWN	None	None	None	None	23734958	23736026	1	None	None
2	None	ENSG00000223530	ENST00000423706	lincRNA	KNOWN	None	None	None	None	23553535	23554915	-1	None	None
6	MMS22L	ENSG00000146263	ENST00000275053	protein_coding	KNOWN	CCDS5039	21475	3732	1243	97590037	97731052	-1	C6orf167	dJ39B17.2
6	MMS22L	ENSG00000146263	ENST00000369251	protein_coding	NOVEL	None	21475	3612	1203	97594421	97730429	-1	C6orf167	dJ39B17.2
6	MMS22L	ENSG00000146263	ENST00000514790	retained_intron	KNOWN	None	21475	None	None	97599454	97609921	-1	C6orf167	dJ39B17.2
6	MMS22L	ENSG00000146263	ENST00000509383	nonsense_mediated_decay	KNOWN	None	21475	612	203	97678145	97731064	-1	C6orf167	dJ39B17.2
6	MMS22L	ENSG00000146263	ENST00000510018	protein_coding	NOVEL	None	21475	966	321	97681737	97729180	-1	C6orf167	dJ39B17.2
6	MMS22L	ENSG00000146263	ENST00000482634	protein_coding	PUTATIVE	None	21475	267	88	97693855	97711228	-1	C6orf167	dJ39B17.2
6	MMS22L	ENSG00000146263	ENST00000508976	retained_intron	KNOWN	None	21475	None	None	97701341	97730387	-1	C6orf167	dJ39B17.2
6	MMS22L	ENSG00000146263	ENST00000511335	retained_intron	KNOWN	None	21475	None	None	97706539	97720981	-1	C6orf167	dJ39B17.2
6	MMS22L	ENSG00000146263	ENST00000506256	processed_transcript	KNOWN	None	21475	None	None	97707248	97720677	-1	C6orf167	dJ39B17.2
6	MMS22L	ENSG00000146263	ENST00000484170	processed_transcript	KNOWN	None	21475	None	None	97707539	97720671	-1	C6orf167	dJ39B17.2
6	MMS22L	ENSG00000146263	ENST00000508820	retained_intron	KNOWN	None	21475	None	None	97713596	97731093	-1	C6orf167	dJ39B17.2
6	MMS22L	ENSG00000146263	ENST00000496119	nonsense_mediated_decay	KNOWN	None	21475	423	140	97715780	97731086	-1	C6orf167	dJ39B17.2
9	ATP5A1P9	ENSG00000225995	ENST00000412467	processed_pseudogene	KNOWN	None	37667	None	None	39654198	39655518	-1	None	None
22	None	ENSG00000234928	ENST00000449711	lincRNA	KNOWN	None	None	None	None	23775751	23777258	1	None	None
22	None	ENSG00000234928	ENST00000428415	lincRNA	KNOWN	None	None	None	None	23776358	23776918	1	None	None
2	None	ENSG00000233714	ENST00000415245	lincRNA	KNOWN	None	None	None	None	23570525	23574735	1	None	None
14	GZMB	ENSG00000100453	ENST00000415355	protein_coding	KNOWN	None	4709	708	235	25100160	25103415	-1	CTLA1, CSPB	CCPI, CGL-1, CSP-B, CGL1, CTSGL1, HLP, SECT
14	GZMB	ENSG00000100453	ENST00000216341	protein_coding	KNOWN	CCDS9633	4709	744	247	25100160	25103473	-1	CTLA1, CSPB	CCPI, CGL-1, CSP-B, CGL1, CTSGL1, HLP, SECT
14	GZMB	ENSG00000100453	ENST00000532263	nonsense_mediated_decay	KNOWN	None	4709	108	35	25100220	25103366	-1	CTLA1, CSPB	CCPI, CGL-1, CSP-B, CGL1, CTSGL1, HLP, SECT
14	GZMB	ENSG00000100453	ENST00000554242	nonsense_mediated_decay	KNOWN	None	4709	273	90	25100220	25103366	-1	CTLA1, CSPB	CCPI, CGL-1, CSP-B, CGL1, CTSGL1, HLP, SECT
14	GZMB	ENSG00000100453	ENST00000530830	nonsense_mediated_decay	KNOWN	None	4709	135	44	25100370	25103380	-1	CTLA1, CSPB	CCPI, CGL-1, CSP-B, CGL1, CTSGL1, HLP, SECT
14	GZMB	ENSG00000100453	ENST00000526004	protein_coding	PUTATIVE	None	4709	273	90	25100745	25103402	-1	CTLA1, CSPB	CCPI, CGL-1, CSP-B, CGL1, CTSGL1, HLP, SECT
14	GZMB	ENSG00000100453	ENST00000382542	protein_coding	KNOWN	None	4709	846	281	25100177	25103473	-1	CTLA1, CSPB	CCPI, CGL-1, CSP-B, CGL1, CTSGL1, HLP, SECT
14	GZMB	ENSG00000100453	ENST00000382540	protein_coding	KNOWN	None	4709	609	202	25100177	25103473	-1	CTLA1, CSPB	CCPI, CGL-1, CSP-B, CGL1, CTSGL1, HLP, SECT
11	MMP8	ENSG00000118113	ENST00000236826	protein_coding	KNOWN	CCDS8320	7175	1404	467	102582526	102595685	-1	CLG1	None
11	MMP8	ENSG00000118113	ENST00000528662	nonsense_mediated_decay	KNOWN	None	7175	111	36	102583363	102597781	-1	CLG1	None
11	MMP8	ENSG00000118113	ENST00000438475	protein_coding	PUTATIVE	None	7175	1033	343	102583861	102595512	-1	CLG1	None
11	MMP8	ENSG00000118113	ENST00000533258	nonsense_mediated_decay	KNOWN	None	7175	171	56	102592200	102595672	-1	CLG1	None
11	MMP8	ENSG00000118113	ENST00000531168	nonsense_mediated_decay	KNOWN	None	7175	171	56	102593231	102595683	-1	CLG1	None
11	MMP8	ENSG00000118113	ENST00000532799	nonsense_mediated_decay	KNOWN	None	7175	132	43	102593274	102595685	-1	CLG1	None
2	None	ENSG00000223634	ENST00000426527	lincRNA	KNOWN	None	None	None	None	23580387	23583247	-1	None	None
5	PDGFRB	ENSG00000113721	ENST00000261799	protein_coding	KNOWN	CCDS4303	8804	3321	1106	149493400	149535423	-1	PDGFR	JTK12, CD140b, PDGFR1
5	PDGFRB	ENSG00000113721	ENST00000520851	processed_transcript	PUTATIVE	None	8804	None	None	149493405	149494521	-1	PDGFR	JTK12, CD140b, PDGFR1
5	PDGFRB	ENSG00000113721	ENST00000520579	nonsense_mediated_decay	KNOWN	None	8804	720	239	149495290	149535422	-1	PDGFR	JTK12, CD140b, PDGFR1
5	PDGFRB	ENSG00000113721	ENST00000519575	processed_transcript	KNOWN	None	8804	None	None	149499030	149501765	-1	PDGFR	JTK12, CD140b, PDGFR1
5	PDGFRB	ENSG00000113721	ENST00000521723	processed_transcript	KNOWN	None	8804	None	None	149500490	149501800	-1	PDGFR	JTK12, CD140b, PDGFR1
5	PDGFRB	ENSG00000113721	ENST00000520229	retained_intron	KNOWN	None	8804	None	None	149503733	149505083	-1	PDGFR	JTK12, CD140b, PDGFR1
5	PDGFRB	ENSG00000113721	ENST00000522466	retained_intron	KNOWN	None	8804	None	None	149513258	149513673	-1	PDGFR	JTK12, CD140b, PDGFR1
5	PDGFRB	ENSG00000113721	ENST00000517488	protein_coding	PUTATIVE	None	8804	439	145	149514313	149535190	-1	PDGFR	JTK12, CD140b, PDGFR1
5	PDGFRB	ENSG00000113721	ENST00000517957	protein_coding	KNOWN	None	8804	524	173	149514420	149517000	-1	PDGFR	JTK12, CD140b, PDGFR1
5	PDGFRB	ENSG00000113721	ENST00000517660	processed_transcript	KNOWN	None	8804	None	None	149516867	149535423	-1	PDGFR	JTK12, CD140b, PDGFR1
5	PDGFRB	ENSG00000113721	ENST00000523456	processed_transcript	KNOWN	None	8804	None	None	149532974	149535435	-1	PDGFR	JTK12, CD140b, PDGFR1
2	None	ENSG00000235497	ENST00000421563	lincRNA	KNOWN	None	None	None	None	23598100	23604170	-1	None	None
2	None	ENSG00000235497	ENST00000430051	lincRNA	KNOWN	None	None	None	None	23598235	23604126	-1	None	None
4	None	ENSG00000260404	ENST00000567913	lincRNA	KNOWN	None	None	None	None	119512928	119554884	1	None	None
X	GRPR	ENSG00000126010	ENST00000380289	protein_coding	KNOWN	CCDS14174	4609	1155	384	16141679	16171144	1	None	None
1	HMGN2	ENSG00000198830	ENST00000468388	processed_transcript	KNOWN	None	4986	None	None	26798941	26800619	1	HMG17	None
1	HMGN2	ENSG00000198830	ENST00000479815	processed_transcript	KNOWN	None	4986	None	None	26798954	26801719	1	HMG17	None
1	HMGN2	ENSG00000198830	ENST00000460563	processed_transcript	KNOWN	None	4986	None	None	26798968	26801923	1	HMG17	None
1	HMGN2	ENSG00000198830	ENST00000464888	processed_transcript	KNOWN	None	4986	None	None	26798997	26801649	1	HMG17	None
1	HMGN2	ENSG00000198830	ENST00000463817	processed_transcript	KNOWN	None	4986	None	None	26799002	26802059	1	HMG17	None
1	HMGN2	ENSG00000198830	ENST00000467700	processed_transcript	KNOWN	None	4986	None	None	26799008	26802117	1	HMG17	None
1	HMGN2	ENSG00000198830	ENST00000361427	protein_coding	KNOWN	CCDS283	4986	273	90	26799010	26802463	1	HMG17	None
1	HMGN2	ENSG00000198830	ENST00000466194	processed_transcript	KNOWN	None	4986	None	None	26799697	26802056	1	HMG17	None
1	HMGN2	ENSG00000198830	ENST00000493418	processed_transcript	KNOWN	None	4986	None	None	26799920	26801851	1	HMG17	None
17	SPAG9	ENSG00000008294	ENST00000262013	protein_coding	KNOWN	CCDS45740	14524	3966	1321	49039535	49198226	-1	None	HSS, SYD1, KIAA0516, MGC14967, MGC74461, MGC117291, JLP, PHET, HLC4, PIG6, FLJ13450, FLJ14006, FLJ26141, FLJ34602, CT89
17	SPAG9	ENSG00000008294	ENST00000509724	processed_transcript	PUTATIVE	None	14524	None	None	49041510	49042855	-1	None	HSS, SYD1, KIAA0516, MGC14967, MGC74461, MGC117291, JLP, PHET, HLC4, PIG6, FLJ13450, FLJ14006, FLJ26141, FLJ34602, CT89
17	SPAG9	ENSG00000008294	ENST00000510283	protein_coding	PUTATIVE	CCDS58577	14524	3534	1177	49042436	49124239	-1	None	HSS, SYD1, KIAA0516, MGC14967, MGC74461, MGC117291, JLP, PHET, HLC4, PIG6, FLJ13450, FLJ14006, FLJ26141, FLJ34602, CT89
17	SPAG9	ENSG00000008294	ENST00000505279	protein_coding	KNOWN	CCDS58578	14524	3936	1311	49042988	49198095	-1	None	HSS, SYD1, KIAA0516, MGC14967, MGC74461, MGC117291, JLP, PHET, HLC4, PIG6, FLJ13450, FLJ14006, FLJ26141, FLJ34602, CT89
17	SPAG9	ENSG00000008294	ENST00000357122	protein_coding	KNOWN	CCDS11577	14524	3924	1307	49043005	49198226	-1	None	HSS, SYD1, KIAA0516, MGC14967, MGC74461, MGC117291, JLP, PHET, HLC4, PIG6, FLJ13450, FLJ14006, FLJ26141, FLJ34602, CT89
17	SPAG9	ENSG00000008294	ENST00000506500	retained_intron	KNOWN	None	14524	None	None	49043661	49052721	-1	None	HSS, SYD1, KIAA0516, MGC14967, MGC74461, MGC117291, JLP, PHET, HLC4, PIG6, FLJ13450, FLJ14006, FLJ26141, FLJ34602, CT89
17	SPAG9	ENSG00000008294	ENST00000513746	nonsense_mediated_decay	KNOWN	None	14524	459	152	49052231	49067946	-1	None	HSS, SYD1, KIAA0516, MGC14967, MGC74461, MGC117291, JLP, PHET, HLC4, PIG6, FLJ13450, FLJ14006, FLJ26141, FLJ34602, CT89
17	SPAG9	ENSG00000008294	ENST00000511312	retained_intron	KNOWN	None	14524	None	None	49053961	49060033	-1	None	HSS, SYD1, KIAA0516, MGC14967, MGC74461, MGC117291, JLP, PHET, HLC4, PIG6, FLJ13450, FLJ14006, FLJ26141, FLJ34602, CT89
17	SPAG9	ENSG00000008294	ENST00000513906	protein_coding	PUTATIVE	None	14524	750	249	49063060	49071298	-1	None	HSS, SYD1, KIAA0516, MGC14967, MGC74461, MGC117291, JLP, PHET, HLC4, PIG6, FLJ13450, FLJ14006, FLJ26141, FLJ34602, CT89
17	SPAG9	ENSG00000008294	ENST00000514613	retained_intron	KNOWN	None	14524	None	None	49066901	49156983	-1	None	HSS, SYD1, KIAA0516, MGC14967, MGC74461, MGC117291, JLP, PHET, HLC4, PIG6, FLJ13450, FLJ14006, FLJ26141, FLJ34602, CT89
17	SPAG9	ENSG00000008294	ENST00000505173	retained_intron	KNOWN	None	14524	None	None	49067000	49133785	-1	None	HSS, SYD1, KIAA0516, MGC14967, MGC74461, MGC117291, JLP, PHET, HLC4, PIG6, FLJ13450, FLJ14006, FLJ26141, FLJ34602, CT89
17	SPAG9	ENSG00000008294	ENST00000514205	retained_intron	KNOWN	None	14524	None	None	49067384	49068103	-1	None	HSS, SYD1, KIAA0516, MGC14967, MGC74461, MGC117291, JLP, PHET, HLC4, PIG6, FLJ13450, FLJ14006, FLJ26141, FLJ34602, CT89
17	SPAG9	ENSG00000008294	ENST00000506483	retained_intron	KNOWN	None	14524	None	None	49071134	49073321	-1	None	HSS, SYD1, KIAA0516, MGC14967, MGC74461, MGC117291, JLP, PHET, HLC4, PIG6, FLJ13450, FLJ14006, FLJ26141, FLJ34602, CT89
17	SPAG9	ENSG00000008294	ENST00000513827	retained_intron	KNOWN	None	14524	None	None	49073590	49079106	-1	None	HSS, SYD1, KIAA0516, MGC14967, MGC74461, MGC117291, JLP, PHET, HLC4, PIG6, FLJ13450, FLJ14006, FLJ26141, FLJ34602, CT89
17	SPAG9	ENSG00000008294	ENST00000515685	retained_intron	KNOWN	None	14524	None	None	49075774	49079105	-1	None	HSS, SYD1, KIAA0516, MGC14967, MGC74461, MGC117291, JLP, PHET, HLC4, PIG6, FLJ13450, FLJ14006, FLJ26141, FLJ34602, CT89
17	SPAG9	ENSG00000008294	ENST00000513547	processed_transcript	KNOWN	None	14524	None	None	49079196	49093617	-1	None	HSS, SYD1, KIAA0516, MGC14967, MGC74461, MGC117291, JLP, PHET, HLC4, PIG6, FLJ13450, FLJ14006, FLJ26141, FLJ34602, CT89
17	SPAG9	ENSG00000008294	ENST00000511795	protein_coding	PUTATIVE	None	14524	522	173	49079198	49097620	-1	None	HSS, SYD1, KIAA0516, MGC14967, MGC74461, MGC117291, JLP, PHET, HLC4, PIG6, FLJ13450, FLJ14006, FLJ26141, FLJ34602, CT89
17	SPAG9	ENSG00000008294	ENST00000576492	processed_transcript	KNOWN	None	14524	None	None	49084630	49117812	-1	None	HSS, SYD1, KIAA0516, MGC14967, MGC74461, MGC117291, JLP, PHET, HLC4, PIG6, FLJ13450, FLJ14006, FLJ26141, FLJ34602, CT89
17	SPAG9	ENSG00000008294	ENST00000510855	protein_coding	PUTATIVE	None	14524	468	155	49098613	49124239	-1	None	HSS, SYD1, KIAA0516, MGC14967, MGC74461, MGC117291, JLP, PHET, HLC4, PIG6, FLJ13450, FLJ14006, FLJ26141, FLJ34602, CT89
17	SPAG9	ENSG00000008294	ENST00000511987	retained_intron	KNOWN	None	14524	None	None	49108275	49124198	-1	None	HSS, SYD1, KIAA0516, MGC14967, MGC74461, MGC117291, JLP, PHET, HLC4, PIG6, FLJ13450, FLJ14006, FLJ26141, FLJ34602, CT89
17	SPAG9	ENSG00000008294	ENST00000502329	retained_intron	KNOWN	None	14524	None	None	49108804	49124832	-1	None	HSS, SYD1, KIAA0516, MGC14967, MGC74461, MGC117291, JLP, PHET, HLC4, PIG6, FLJ13450, FLJ14006, FLJ26141, FLJ34602, CT89
13	TNFSF13B	ENSG00000102524	ENST00000486502	processed_transcript	KNOWN	None	11929	None	None	108903588	108922765	1	TNFSF20	BAFF, THANK, BLYS, TALL-1, TALL1, CD257
13	TNFSF13B	ENSG00000102524	ENST00000375887	protein_coding	KNOWN	CCDS9509	11929	858	285	108922066	108960832	1	TNFSF20	BAFF, THANK, BLYS, TALL-1, TALL1, CD257
13	TNFSF13B	ENSG00000102524	ENST00000479435	processed_transcript	KNOWN	None	11929	None	None	108922575	108955952	1	TNFSF20	BAFF, THANK, BLYS, TALL-1, TALL1, CD257
13	TNFSF13B	ENSG00000102524	ENST00000493765	processed_transcript	KNOWN	None	11929	None	None	108955654	108959381	1	TNFSF20	BAFF, THANK, BLYS, TALL-1, TALL1, CD257
13	TNFSF13B	ENSG00000102524	ENST00000430559	protein_coding	KNOWN	CCDS45067	11929	801	266	108921977	108959365	1	TNFSF20	BAFF, THANK, BLYS, TALL-1, TALL1, CD257
13	TNFSF13B	ENSG00000102524	ENST00000542136	protein_coding	KNOWN	None	11929	495	164	108922244	108955815	1	TNFSF20	BAFF, THANK, BLYS, TALL-1, TALL1, CD257
2	PGAM1P6	ENSG00000224464	ENST00000425684	processed_pseudogene	KNOWN	None	42453	None	None	24095138	24095884	-1	None	None
4	RNU6-1054P	ENSG00000223225	ENST00000411293	snRNA	KNOWN	None	48017	None	None	119527605	119527708	1	None	None
HSCHR6_MHC_MCF	ABCF1	ENSG00000236342	ENST00000457078	protein_coding	KNOWN	None	70	2538	845	30617610	30637665	1	ABC50	EST123147
HSCHR6_MHC_MCF	ABCF1	ENSG00000236342	ENST00000412443	protein_coding	KNOWN	None	70	2424	807	30617627	30637665	1	ABC50	EST123147
HSCHR6_MHC_MCF	ABCF1	ENSG00000236342	ENST00000418552	protein_coding	KNOWN	None	70	1019	338	30617667	30629942	1	ABC50	EST123147
HSCHR6_MHC_MCF	ABCF1	ENSG00000236342	ENST00000460512	processed_transcript	KNOWN	None	70	None	None	30617676	30626682	1	ABC50	EST123147
HSCHR6_MHC_MCF	ABCF1	ENSG00000236342	ENST00000421608	protein_coding	KNOWN	None	70	717	238	30617686	30637665	1	ABC50	EST123147
HSCHR6_MHC_MCF	ABCF1	ENSG00000236342	ENST00000486105	processed_transcript	KNOWN	None	70	None	None	30628699	30643414	1	ABC50	EST123147
HSCHR6_MHC_MCF	ABCF1	ENSG00000236342	ENST00000472245	retained_intron	KNOWN	None	70	None	None	30635663	30636977	1	ABC50	EST123147
HSCHR6_MHC_MCF	ABCF1	ENSG00000236342	ENST00000546690	protein_coding	KNOWN	None	70	1602	533	30617627	30637764	1	ABC50	EST123147
4	None	ENSG00000225892	ENST00000426314	transcribed_processed_pseudogene	KNOWN	None	None	None	None	119553429	119555914	1	None	None
2	CCDC74A	ENSG00000163040	ENST00000465939	retained_intron	KNOWN	None	25197	None	None	132285248	132287753	1	None	FLJ40345
2	CCDC74A	ENSG00000163040	ENST00000295171	protein_coding	KNOWN	CCDS2167	25197	1137	378	132285406	132291239	1	None	FLJ40345
2	CCDC74A	ENSG00000163040	ENST00000454549	nonsense_mediated_decay	KNOWN	None	25197	408	135	132285429	132288410	1	None	FLJ40345
2	CCDC74A	ENSG00000163040	ENST00000409856	protein_coding	NOVEL	CCDS58732	25197	939	312	132285453	132291239	1	None	FLJ40345
2	CCDC74A	ENSG00000163040	ENST00000468650	retained_intron	KNOWN	None	25197	None	None	132285484	132287264	1	None	FLJ40345
2	CCDC74A	ENSG00000163040	ENST00000478665	processed_transcript	PUTATIVE	None	25197	None	None	132285507	132287322	1	None	FLJ40345
2	CCDC74A	ENSG00000163040	ENST00000434330	protein_coding	PUTATIVE	None	25197	620	205	132286754	132290514	1	None	FLJ40345
2	CCDC74A	ENSG00000163040	ENST00000467992	protein_coding	KNOWN	None	25197	993	330	132287237	132291237	1	None	FLJ40345
22	None	ENSG00000227755	ENST00000454268	processed_transcript	KNOWN	None	None	None	None	23788785	23802975	1	None	None
22	None	ENSG00000227755	ENST00000457193	processed_transcript	KNOWN	None	None	None	None	23800566	23803020	1	None	None
22	None	ENSG00000227755	ENST00000426024	transcribed_processed_pseudogene	KNOWN	None	None	None	None	23802536	23802698	1	None	None
2	None	ENSG00000238111	ENST00000421721	processed_pseudogene	KNOWN	None	None	None	None	24123563	24124019	1	None	None
9	PHYHD1	ENSG00000175287	ENST00000372592	protein_coding	KNOWN	CCDS43885	23396	876	291	131683174	131704316	1	None	MGC16638
9	PHYHD1	ENSG00000175287	ENST00000428610	protein_coding	KNOWN	None	23396	192	63	131683245	131689475	1	None	MGC16638
9	PHYHD1	ENSG00000175287	ENST00000412476	nonsense_mediated_decay	KNOWN	None	23396	483	160	131683465	131704316	1	None	MGC16638
9	PHYHD1	ENSG00000175287	ENST00000308941	protein_coding	KNOWN	CCDS6914	23396	894	297	131683687	131704317	1	None	MGC16638
9	PHYHD1	ENSG00000175287	ENST00000419552	protein_coding	KNOWN	None	23396	199	65	131683691	131696067	1	None	MGC16638
9	PHYHD1	ENSG00000175287	ENST00000353176	protein_coding	KNOWN	CCDS43886	23396	813	270	131683871	131704317	1	None	MGC16638
9	PHYHD1	ENSG00000175287	ENST00000426694	protein_coding	KNOWN	None	23396	531	176	131684027	131702721	1	None	MGC16638
9	PHYHD1	ENSG00000175287	ENST00000451000	nonsense_mediated_decay	KNOWN	None	23396	141	46	131684593	131698924	1	None	MGC16638
9	PHYHD1	ENSG00000175287	ENST00000424503	nonsense_mediated_decay	KNOWN	None	23396	163	53	131689325	131702988	1	None	MGC16638
9	PHYHD1	ENSG00000175287	ENST00000442837	protein_coding	PUTATIVE	None	23396	495	164	131696304	131704317	1	None	MGC16638
9	PHYHD1	ENSG00000175287	ENST00000419872	protein_coding	PUTATIVE	None	23396	294	97	131700028	131704317	1	None	MGC16638
9	PHYHD1	ENSG00000175287	ENST00000487504	processed_transcript	KNOWN	None	23396	None	None	131702672	131703987	1	None	MGC16638
9	PHYHD1	ENSG00000175287	ENST00000421063	protein_coding	KNOWN	CCDS43886	23396	813	270	131684562	131704320	1	None	MGC16638
4	CICP16	ENSG00000248213	ENST00000502609	processed_pseudogene	KNOWN	None	38550	None	None	119557125	119559937	-1	None	None
4	CICP16	ENSG00000248213	ENST00000401754	pseudogene	KNOWN	None	38550	None	None	119557056	119557462	-1	None	None
2	SDHCP3	ENSG00000234946	ENST00000445371	processed_pseudogene	KNOWN	None	45178	None	None	24166716	24167221	1	None	None
11	PDE3B	ENSG00000152270	ENST00000282096	protein_coding	KNOWN	CCDS7817	8779	3339	1112	14665269	14892350	1	None	HcGIP1
11	PDE3B	ENSG00000152270	ENST00000455098	protein_coding	KNOWN	None	8779	3186	1061	14665377	14891440	1	None	HcGIP1
11	PDE3B	ENSG00000152270	ENST00000534317	processed_transcript	PUTATIVE	None	8779	None	None	14665806	14798209	1	None	HcGIP1
11	PDE3B	ENSG00000152270	ENST00000532740	processed_transcript	PUTATIVE	None	8779	None	None	14720385	14722472	1	None	HcGIP1
11	PDE3B	ENSG00000152270	ENST00000525439	processed_transcript	KNOWN	None	8779	None	None	14810485	14840752	1	None	HcGIP1
6	GMPR	ENSG00000137198	ENST00000259727	protein_coding	KNOWN	CCDS4537	4376	1038	345	16238811	16295780	1	None	None
6	GMPR	ENSG00000137198	ENST00000543191	processed_transcript	KNOWN	None	4376	None	None	16258204	16295559	1	None	None
6	GMPR	ENSG00000137198	ENST00000544145	processed_transcript	PUTATIVE	None	4376	None	None	16289749	16295775	1	None	None
6	GMPR	ENSG00000137198	ENST00000540478	retained_intron	KNOWN	None	4376	None	None	16290176	16295352	1	None	None
7	AOC1	ENSG00000002726	ENST00000493429	protein_coding	KNOWN	CCDS43679	80	2256	751	150521715	150558592	1	ABP1	DAO
7	AOC1	ENSG00000002726	ENST00000467291	protein_coding	KNOWN	CCDS43679	80	2256	751	150523481	150558592	1	ABP1	DAO
7	AOC1	ENSG00000002726	ENST00000460213	protein_coding	KNOWN	None	80	747	248	150549097	150554305	1	ABP1	DAO
7	AOC1	ENSG00000002726	ENST00000360937	protein_coding	KNOWN	CCDS43679	80	2256	751	150549565	150558592	1	ABP1	DAO
7	AOC1	ENSG00000002726	ENST00000416793	protein_coding	KNOWN	None	80	2313	770	150549603	150558377	1	ABP1	DAO
7	AOC1	ENSG00000002726	ENST00000483043	protein_coding	KNOWN	None	80	1012	336	150549607	150554570	1	ABP1	DAO
7	AOC1	ENSG00000002726	ENST00000480582	processed_transcript	KNOWN	None	80	None	None	150555021	150558307	1	ABP1	DAO
2	RN7SL610P	ENSG00000243847	ENST00000463845	misc_RNA	KNOWN	None	46626	None	None	24219667	24219955	-1	None	None
2	RNU6-370P	ENSG00000222940	ENST00000411008	snRNA	KNOWN	None	47333	None	None	24268705	24268808	1	None	None
18	CHMP1B	ENSG00000255112	ENST00000526991	protein_coding	KNOWN	CCDS54180	24287	600	199	11851395	11854448	1	None	CHMP1.5, C18orf2, Vps46B
18	CHMP1B	ENSG00000255112	ENST00000588284	processed_transcript	PUTATIVE	None	24287	None	None	11853778	11854349	1	None	CHMP1.5, C18orf2, Vps46B
2	None	ENSG00000232642	ENST00000428344	antisense	KNOWN	None	None	None	None	24388753	24397652	-1	None	None
2	None	ENSG00000232642	ENST00000438414	antisense	KNOWN	None	None	None	None	24392818	24397874	-1	None	None
6	None	ENSG00000223967	ENST00000407268	processed_pseudogene	KNOWN	None	None	None	None	74236467	74236602	-1	None	None
6	RPS27P15	ENSG00000218459	ENST00000402023	processed_pseudogene	KNOWN	None	35863	None	None	74328069	74328320	1	None	None
2	MSH6	ENSG00000116062	ENST00000607272	processed_transcript	KNOWN	None	7329	None	None	47922669	47936969	1	GTBP	None
2	MSH6	ENSG00000116062	ENST00000454137	processed_transcript	KNOWN	None	7329	None	None	47922955	47984932	1	GTBP	None
2	MSH6	ENSG00000116062	ENST00000606499	protein_coding	NOVEL	None	7329	153	50	47922958	48018255	1	GTBP	None
2	MSH6	ENSG00000116062	ENST00000234420	protein_coding	KNOWN	CCDS1836	7329	4083	1360	48010221	48034092	1	GTBP	None
2	MSH6	ENSG00000116062	ENST00000445503	nonsense_mediated_decay	KNOWN	None	7329	483	160	48010221	48034092	1	GTBP	None
2	MSH6	ENSG00000116062	ENST00000456246	nonsense_mediated_decay	KNOWN	None	7329	315	104	48010267	48026059	1	GTBP	None
2	MSH6	ENSG00000116062	ENST00000493177	processed_transcript	PUTATIVE	None	7329	None	None	48010309	48012115	1	GTBP	None
2	MSH6	ENSG00000116062	ENST00000455383	protein_coding	PUTATIVE	None	7329	347	114	48010724	48025766	1	GTBP	None
2	MSH6	ENSG00000116062	ENST00000420813	protein_coding	PUTATIVE	None	7329	303	100	48011094	48023175	1	GTBP	None
2	MSH6	ENSG00000116062	ENST00000411819	protein_coding	PUTATIVE	None	7329	453	150	48011320	48025872	1	GTBP	None
2	MSH6	ENSG00000116062	ENST00000540021	protein_coding	KNOWN	None	7329	3693	1230	48010322	48034084	1	GTBP	None
2	MSH6	ENSG00000116062	ENST00000538136	protein_coding	KNOWN	None	7329	3177	1058	48011094	48034084	1	GTBP	None
17	KAT7	ENSG00000136504	ENST00000259021	protein_coding	KNOWN	CCDS11554	17016	1836	611	47865917	47906458	1	MYST2	HBOA, HBO1, ZC2HC7
17	KAT7	ENSG00000136504	ENST00000454930	protein_coding	NOVEL	CCDS56037	17016	1419	472	47866043	47905065	1	MYST2	HBOA, HBO1, ZC2HC7
17	KAT7	ENSG00000136504	ENST00000509773	protein_coding	NOVEL	CCDS56036	17016	1506	501	47866044	47904979	1	MYST2	HBOA, HBO1, ZC2HC7
17	KAT7	ENSG00000136504	ENST00000510819	protein_coding	NOVEL	CCDS56038	17016	1329	442	47866055	47905162	1	MYST2	HBOA, HBO1, ZC2HC7
17	KAT7	ENSG00000136504	ENST00000424009	protein_coding	NOVEL	CCDS56035	17016	1746	581	47866068	47906458	1	MYST2	HBOA, HBO1, ZC2HC7
17	KAT7	ENSG00000136504	ENST00000509124	processed_transcript	KNOWN	None	17016	None	None	47866076	47893258	1	MYST2	HBOA, HBO1, ZC2HC7
17	KAT7	ENSG00000136504	ENST00000506533	protein_coding	PUTATIVE	None	17016	48	15	47866674	47875856	1	MYST2	HBOA, HBO1, ZC2HC7
17	KAT7	ENSG00000136504	ENST00000435742	protein_coding	PUTATIVE	None	17016	1278	425	47867015	47906458	1	MYST2	HBOA, HBO1, ZC2HC7
17	KAT7	ENSG00000136504	ENST00000513171	processed_transcript	KNOWN	None	17016	None	None	47892314	47904068	1	MYST2	HBOA, HBO1, ZC2HC7
17	KAT7	ENSG00000136504	ENST00000514540	processed_transcript	KNOWN	None	17016	None	None	47892393	47904075	1	MYST2	HBOA, HBO1, ZC2HC7
17	KAT7	ENSG00000136504	ENST00000513980	processed_transcript	KNOWN	None	17016	None	None	47892694	47905178	1	MYST2	HBOA, HBO1, ZC2HC7
17	KAT7	ENSG00000136504	ENST00000512616	processed_transcript	KNOWN	None	17016	None	None	47892752	47904946	1	MYST2	HBOA, HBO1, ZC2HC7
17	KAT7	ENSG00000136504	ENST00000508594	processed_transcript	KNOWN	None	17016	None	None	47892760	47899110	1	MYST2	HBOA, HBO1, ZC2HC7
17	KAT7	ENSG00000136504	ENST00000509794	retained_intron	KNOWN	None	17016	None	None	47898855	47904068	1	MYST2	HBOA, HBO1, ZC2HC7
17	KAT7	ENSG00000136504	ENST00000510426	retained_intron	KNOWN	None	17016	None	None	47899047	47901005	1	MYST2	HBOA, HBO1, ZC2HC7
17	KAT7	ENSG00000136504	ENST00000513075	retained_intron	KNOWN	None	17016	None	None	47900596	47903739	1	MYST2	HBOA, HBO1, ZC2HC7
17	KAT7	ENSG00000136504	ENST00000503101	processed_transcript	KNOWN	None	17016	None	None	47901844	47905124	1	MYST2	HBOA, HBO1, ZC2HC7
17	KAT7	ENSG00000136504	ENST00000503635	retained_intron	KNOWN	None	17016	None	None	47903364	47904492	1	MYST2	HBOA, HBO1, ZC2HC7
17	KAT7	ENSG00000136504	ENST00000503935	protein_coding	KNOWN	None	17016	1368	455	47866745	47906456	1	MYST2	HBOA, HBO1, ZC2HC7
2	None	ENSG00000223754	ENST00000429717	antisense	KNOWN	None	None	None	None	24422708	24424567	-1	None	None
6	LAMA2	ENSG00000196569	ENST00000421865	protein_coding	KNOWN	CCDS5138	6482	9369	3122	129204342	129837714	1	LAMM	None
6	LAMA2	ENSG00000196569	ENST00000466230	processed_transcript	KNOWN	None	6482	None	None	129204460	129371126	1	LAMM	None
6	LAMA2	ENSG00000196569	ENST00000498257	processed_transcript	KNOWN	None	6482	None	None	129811828	129823817	1	LAMM	None
6	LAMA2	ENSG00000196569	ENST00000494137	processed_transcript	KNOWN	None	6482	None	None	129811881	129813595	1	LAMM	None
12	TEAD4	ENSG00000197905	ENST00000358409	protein_coding	KNOWN	CCDS31730	11717	1176	391	3068496	3149831	1	TCF13L1	TEF-3, TEFR-1, EFTR-2, RTEF-1
12	TEAD4	ENSG00000197905	ENST00000540314	protein_coding	KNOWN	None	11717	67	21	3068572	3103999	1	TCF13L1	TEF-3, TEFR-1, EFTR-2, RTEF-1
12	TEAD4	ENSG00000197905	ENST00000536826	protein_coding	KNOWN	None	11717	217	71	3068573	3104149	1	TCF13L1	TEF-3, TEFR-1, EFTR-2, RTEF-1
12	TEAD4	ENSG00000197905	ENST00000359864	protein_coding	KNOWN	CCDS31729	11717	1305	434	3068580	3149839	1	TCF13L1	TEF-3, TEFR-1, EFTR-2, RTEF-1
12	TEAD4	ENSG00000197905	ENST00000543035	protein_coding	KNOWN	None	11717	527	174	3068962	3127754	1	TCF13L1	TEF-3, TEFR-1, EFTR-2, RTEF-1
12	TEAD4	ENSG00000197905	ENST00000397122	protein_coding	KNOWN	CCDS41737	11717	918	305	3069083	3149837	1	TCF13L1	TEF-3, TEFR-1, EFTR-2, RTEF-1
12	TEAD4	ENSG00000197905	ENST00000443986	nonsense_mediated_decay	KNOWN	None	11717	333	110	3069110	3129925	1	TCF13L1	TEF-3, TEFR-1, EFTR-2, RTEF-1
12	TEAD4	ENSG00000197905	ENST00000544666	protein_coding	NOVEL	None	11717	567	188	3120210	3131086	1	TCF13L1	TEF-3, TEFR-1, EFTR-2, RTEF-1
19	ASNA1	ENSG00000198356	ENST00000591090	protein_coding	KNOWN	CCDS32920	752	1047	348	12847953	12859137	1	None	ARSA-I, GET3, TRC40
19	ASNA1	ENSG00000198356	ENST00000586561	protein_coding	KNOWN	None	752	600	199	12848072	12856564	1	None	ARSA-I, GET3, TRC40
19	ASNA1	ENSG00000198356	ENST00000590633	retained_intron	KNOWN	None	752	None	None	12848311	12856464	1	None	ARSA-I, GET3, TRC40
19	ASNA1	ENSG00000198356	ENST00000357332	protein_coding	KNOWN	CCDS32920	752	1047	348	12848306	12859137	1	None	ARSA-I, GET3, TRC40
6	None	ENSG00000231652	ENST00000428865	antisense	KNOWN	None	None	None	None	74403626	74405854	-1	None	None
2	None	ENSG00000242628	ENST00000413254	antisense	KNOWN	None	None	None	None	24437250	24439163	1	None	None
2	None	ENSG00000242628	ENST00000413989	antisense	KNOWN	None	None	None	None	24437250	24444375	1	None	None
2	None	ENSG00000242628	ENST00000430105	antisense	KNOWN	None	None	None	None	24437250	24444385	1	None	None
11	KRT8P49	ENSG00000271602	ENST00000604166	processed_pseudogene	KNOWN	None	48345	None	None	4743970	4745401	-1	None	None
4	None	ENSG00000251176	ENST00000399152	lincRNA	KNOWN	None	None	None	None	172474151	172485418	-1	None	None
11	None	ENSG00000201980	ENST00000365110	snoRNA	NOVEL	None	None	None	None	4777875	4778027	1	None	None
6	PLEKHG1	ENSG00000120278	ENST00000367326	protein_coding	KNOWN	None	20884	140	45	150921019	151054957	1	None	KIAA1209, ARHGEF41
6	PLEKHG1	ENSG00000120278	ENST00000358517	protein_coding	KNOWN	CCDS34552	20884	4158	1385	151042224	151164799	1	None	KIAA1209, ARHGEF41
6	PLEKHG1	ENSG00000120278	ENST00000475490	nonsense_mediated_decay	KNOWN	None	20884	1179	392	151089822	151163192	1	None	KIAA1209, ARHGEF41
6	PLEKHG1	ENSG00000120278	ENST00000367328	protein_coding	KNOWN	CCDS34552	20884	4158	1385	150920999	151164799	1	None	KIAA1209, ARHGEF41
5	None	ENSG00000272354	ENST00000606057	lincRNA	KNOWN	None	None	None	None	64316441	64316816	1	None	None
14	GPR65	ENSG00000140030	ENST00000267549	protein_coding	KNOWN	CCDS9879	4517	1014	337	88471468	88478419	1	None	hTDAG8, TDAG8
11	OR51N1P	ENSG00000176951	ENST00000433299	unprocessed_pseudogene	KNOWN	None	14757	None	None	4807984	4808935	1	None	None
11	OR51N1P	ENSG00000176951	ENST00000322493	pseudogene	KNOWN	None	14757	None	None	4807963	4808920	1	None	None
1	PAPPA2	ENSG00000116183	ENST00000367662	protein_coding	KNOWN	CCDS41438	14615	5376	1791	176432307	176814735	1	PLAC3	PAPPE, PAPP-A2
1	PAPPA2	ENSG00000116183	ENST00000367661	protein_coding	KNOWN	CCDS41439	14615	2484	827	176432307	176660340	1	PLAC3	PAPPE, PAPP-A2
1	PAPPA2	ENSG00000116183	ENST00000493665	processed_transcript	KNOWN	None	14615	None	None	176506439	176524847	1	PLAC3	PAPPE, PAPP-A2
1	PAPPA2	ENSG00000116183	ENST00000486075	processed_transcript	KNOWN	None	14615	None	None	176522624	176524872	1	PLAC3	PAPPE, PAPP-A2
1	PAPPA2	ENSG00000116183	ENST00000479836	processed_transcript	KNOWN	None	14615	None	None	176760581	176805938	1	PLAC3	PAPPE, PAPP-A2
4	None	ENSG00000249297	ENST00000508977	lincRNA	KNOWN	None	None	None	None	172523834	172559914	-1	None	None
5	None	ENSG00000207439	ENST00000384708	misc_RNA	NOVEL	None	None	None	None	64419196	64419301	1	None	None
2	None	ENSG00000251805	ENST00000515996	snoRNA	NOVEL	None	None	None	None	24496483	24496610	-1	None	None
20	RPS21	ENSG00000171858	ENST00000343986	protein_coding	KNOWN	CCDS13497	10409	252	83	60962172	60963575	1	None	S21
20	RPS21	ENSG00000171858	ENST00000492356	processed_transcript	KNOWN	None	10409	None	None	60962179	60963575	1	None	S21
20	RPS21	ENSG00000171858	ENST00000370562	protein_coding	KNOWN	None	10409	201	66	60962353	60963576	1	None	S21
20	RPS21	ENSG00000171858	ENST00000370592	protein_coding	KNOWN	None	10409	273	90	60962381	60963171	1	None	S21
20	RPS21	ENSG00000171858	ENST00000450116	protein_coding	KNOWN	None	10409	246	81	60962374	60963575	1	None	S21
5	None	ENSG00000248288	ENST00000509786	processed_pseudogene	KNOWN	None	None	None	None	64505748	64506775	1	None	None
2	HMGN2P20	ENSG00000232963	ENST00000437531	processed_pseudogene	KNOWN	None	39385	None	None	24553271	24553543	1	None	None
3	ECT2	ENSG00000114346	ENST00000232458	protein_coding	KNOWN	CCDS3220	3155	2652	883	172468472	172539264	1	None	ARHGEF31
3	ECT2	ENSG00000114346	ENST00000392692	protein_coding	NOVEL	CCDS58860	3155	2745	914	172468494	172539264	1	None	ARHGEF31
3	ECT2	ENSG00000114346	ENST00000417960	protein_coding	NOVEL	None	3155	2649	882	172468516	172539264	1	None	ARHGEF31
3	ECT2	ENSG00000114346	ENST00000428567	protein_coding	NOVEL	None	3155	613	203	172468548	172479424	1	None	ARHGEF31
3	ECT2	ENSG00000114346	ENST00000366090	protein_coding	NOVEL	None	3155	330	109	172468553	172474799	1	None	ARHGEF31
3	ECT2	ENSG00000114346	ENST00000426894	protein_coding	KNOWN	None	3155	320	105	172468553	172474882	1	None	ARHGEF31
3	ECT2	ENSG00000114346	ENST00000366254	protein_coding	KNOWN	None	3155	55	17	172468749	172472375	1	None	ARHGEF31
3	ECT2	ENSG00000114346	ENST00000415665	protein_coding	KNOWN	None	3155	478	158	172468770	172476854	1	None	ARHGEF31
3	ECT2	ENSG00000114346	ENST00000438041	protein_coding	NOVEL	None	3155	451	149	172468807	172474920	1	None	ARHGEF31
3	ECT2	ENSG00000114346	ENST00000441497	protein_coding	KNOWN	CCDS3220	3155	2652	883	172472247	172538126	1	None	ARHGEF31
3	ECT2	ENSG00000114346	ENST00000444250	protein_coding	NOVEL	None	3155	627	208	172480577	172501670	1	None	ARHGEF31
3	ECT2	ENSG00000114346	ENST00000437296	protein_coding	PUTATIVE	None	3155	895	297	172520481	172539263	1	None	ARHGEF31
3	ECT2	ENSG00000114346	ENST00000460860	retained_intron	KNOWN	None	3155	None	None	172520651	172523897	1	None	ARHGEF31
3	ECT2	ENSG00000114346	ENST00000486027	retained_intron	KNOWN	None	3155	None	None	172525496	172538101	1	None	ARHGEF31
3	ECT2	ENSG00000114346	ENST00000487073	retained_intron	KNOWN	None	3155	None	None	172536121	172538081	1	None	ARHGEF31
3	ECT2	ENSG00000114346	ENST00000540509	protein_coding	KNOWN	CCDS58860	3155	2745	914	172472321	172538027	1	None	ARHGEF31
3	ECT2	ENSG00000114346	ENST00000427830	protein_coding	KNOWN	None	3155	2784	927	172468513	172536559	1	None	ARHGEF31
14	OR4N2	ENSG00000176294	ENST00000557414	protein_coding	KNOWN	None	14742	65	20	20187174	20295672	1	None	None
14	OR4N2	ENSG00000176294	ENST00000557677	protein_coding	KNOWN	None	14742	438	145	20271929	20296045	1	None	None
14	OR4N2	ENSG00000176294	ENST00000568211	protein_coding	PUTATIVE	None	14742	539	178	20295608	20296531	1	None	None
14	OR4N2	ENSG00000176294	ENST00000315947	protein_coding	KNOWN	CCDS32022	14742	924	307	20295608	20296531	1	None	None
5	RPEP1	ENSG00000250732	ENST00000504507	processed_pseudogene	KNOWN	None	44520	None	None	64546954	64547611	-1	None	None
11	MRPL23	ENSG00000214026	ENST00000397298	protein_coding	KNOWN	CCDS31336	10322	462	153	1968508	1977839	1	RPL23L	L23MRP
11	MRPL23	ENSG00000214026	ENST00000381519	protein_coding	KNOWN	CCDS31336	10322	462	153	1968508	1977839	1	RPL23L	L23MRP
11	MRPL23	ENSG00000214026	ENST00000397297	protein_coding	PUTATIVE	None	10322	576	191	1968562	2005752	1	RPL23L	L23MRP
11	MRPL23	ENSG00000214026	ENST00000381514	protein_coding	PUTATIVE	None	10322	492	163	1968571	1984068	1	RPL23L	L23MRP
11	MRPL23	ENSG00000214026	ENST00000397294	protein_coding	PUTATIVE	None	10322	501	166	1968574	1994023	1	RPL23L	L23MRP
11	MRPL23	ENSG00000214026	ENST00000462288	processed_transcript	KNOWN	None	10322	None	None	1968784	1977839	1	RPL23L	L23MRP
11	MRPL23	ENSG00000214026	ENST00000486931	processed_transcript	PUTATIVE	None	10322	None	None	1970770	1972251	1	RPL23L	L23MRP
11	MRPL23	ENSG00000214026	ENST00000429295	nonsense_mediated_decay	KNOWN	None	10322	355	117	1972129	1977839	1	RPL23L	L23MRP
11	MRPL23	ENSG00000214026	ENST00000466346	retained_intron	KNOWN	None	10322	None	None	1972140	1974552	1	RPL23L	L23MRP
11	MRPL23	ENSG00000214026	ENST00000484918	processed_transcript	PUTATIVE	None	10322	None	None	1976807	1977576	1	RPL23L	L23MRP
7	None	ENSG00000224899	ENST00000454957	lincRNA	KNOWN	None	None	None	None	124791380	124793665	-1	None	None
4	None	ENSG00000248637	ENST00000513791	processed_pseudogene	KNOWN	None	None	None	None	173301179	173301638	-1	None	None
2	None	ENSG00000233747	ENST00000457490	processed_pseudogene	KNOWN	None	None	None	None	24557381	24558021	1	None	None
21	MRPL39	ENSG00000154719	ENST00000352957	protein_coding	KNOWN	CCDS13573	14027	1017	338	26957968	26979829	-1	None	RPML5, MRP-L5, MGC104174, PRED66, PRED22, C21orf92, L39mt, MSTP003, MGC3400, FLJ20451
21	MRPL39	ENSG00000154719	ENST00000307301	protein_coding	KNOWN	CCDS33522	14027	1062	353	26957968	26979829	-1	None	RPML5, MRP-L5, MGC104174, PRED66, PRED22, C21orf92, L39mt, MSTP003, MGC3400, FLJ20451
21	MRPL39	ENSG00000154719	ENST00000419219	protein_coding	PUTATIVE	None	14027	891	296	26965124	26979796	-1	None	RPML5, MRP-L5, MGC104174, PRED66, PRED22, C21orf92, L39mt, MSTP003, MGC3400, FLJ20451
2	RNA5SP88	ENSG00000202430	ENST00000365560	rRNA	KNOWN	None	42886	None	None	24787499	24787607	-1	RN5S88	None
6	FTSJD2	ENSG00000137200	ENST00000471097	processed_transcript	KNOWN	None	21077	None	None	37400995	37411859	1	KIAA0082, FTSJD2	MTr1, ISG95
6	FTSJD2	ENSG00000137200	ENST00000455891	protein_coding	KNOWN	None	21077	1116	371	37400996	37429837	1	KIAA0082, FTSJD2	MTr1, ISG95
6	FTSJD2	ENSG00000137200	ENST00000373451	protein_coding	KNOWN	CCDS4835	21077	2508	835	37400996	37449282	1	KIAA0082, FTSJD2	MTr1, ISG95
6	FTSJD2	ENSG00000137200	ENST00000493656	processed_transcript	KNOWN	None	21077	None	None	37427435	37429848	1	KIAA0082, FTSJD2	MTr1, ISG95
6	FTSJD2	ENSG00000137200	ENST00000475364	nonsense_mediated_decay	KNOWN	None	21077	340	112	37441344	37446971	1	KIAA0082, FTSJD2	MTr1, ISG95
6	FTSJD2	ENSG00000137200	ENST00000457419	protein_coding	KNOWN	None	21077	470	155	37443095	37450603	1	KIAA0082, FTSJD2	MTr1, ISG95
7	None	ENSG00000205898	ENST00000382242	processed_pseudogene	KNOWN	None	None	None	None	124800028	124800601	-1	None	None
2	RNU6-936P	ENSG00000206732	ENST00000384005	snRNA	KNOWN	None	47899	None	None	24899178	24899284	1	None	None
9	None	ENSG00000226047	ENST00000427833	lincRNA	KNOWN	None	None	None	None	109879740	109883986	-1	None	None
8	IDO2	ENSG00000188676	ENST00000343295	processed_transcript	KNOWN	None	27269	None	None	39792133	39873910	1	INDOL1	None
8	IDO2	ENSG00000188676	ENST00000389060	protein_coding	KNOWN	None	27269	1224	407	39806685	39873124	1	INDOL1	None
8	IDO2	ENSG00000188676	ENST00000418094	processed_transcript	KNOWN	None	27269	None	None	39845262	39873910	1	INDOL1	None
8	IDO2	ENSG00000188676	ENST00000502986	protein_coding	KNOWN	None	27269	1263	420	39792474	39873910	1	INDOL1	None
2	None	ENSG00000271936	ENST00000606114	antisense	KNOWN	None	None	None	None	25048479	25049586	1	None	None
4	None	ENSG00000245213	ENST00000500914	antisense	KNOWN	None	None	None	None	174053079	174090803	-1	None	None
4	None	ENSG00000245213	ENST00000499322	antisense	KNOWN	None	None	None	None	174065387	174090306	-1	None	None
4	None	ENSG00000245213	ENST00000510523	antisense	KNOWN	None	None	None	None	174087220	174090078	-1	None	None
10	None	ENSG00000267964	ENST00000595757	protein_coding	KNOWN	None	None	444	147	75531935	75532378	-1	None	None
10	ARHGAP22	ENSG00000128805	ENST00000249601	protein_coding	KNOWN	CCDS7227	30320	2097	698	49654077	49813138	-1	None	RhoGAP2
10	ARHGAP22	ENSG00000128805	ENST00000477708	protein_coding	PUTATIVE	None	30320	1596	531	49654079	49659670	-1	None	RhoGAP2
10	ARHGAP22	ENSG00000128805	ENST00000374170	protein_coding	PUTATIVE	None	30320	1620	539	49654079	49732281	-1	None	RhoGAP2
10	ARHGAP22	ENSG00000128805	ENST00000374172	protein_coding	PUTATIVE	None	30320	1770	589	49654079	49764723	-1	None	RhoGAP2
10	ARHGAP22	ENSG00000128805	ENST00000417247	protein_coding	KNOWN	CCDS58079	30320	1827	608	49654080	49701692	-1	None	RhoGAP2
10	ARHGAP22	ENSG00000128805	ENST00000435790	protein_coding	PUTATIVE	CCDS58081	30320	2115	704	49654285	49860661	-1	None	RhoGAP2
10	ARHGAP22	ENSG00000128805	ENST00000417912	protein_coding	KNOWN	CCDS58080	30320	2145	714	49654383	49812997	-1	None	RhoGAP2
10	ARHGAP22	ENSG00000128805	ENST00000460425	nonsense_mediated_decay	KNOWN	None	30320	786	261	49654601	49864310	-1	None	RhoGAP2
10	ARHGAP22	ENSG00000128805	ENST00000515523	processed_transcript	KNOWN	None	30320	None	None	49661344	49687249	-1	None	RhoGAP2
10	ARHGAP22	ENSG00000128805	ENST00000471013	processed_transcript	KNOWN	None	30320	None	None	49661400	49813133	-1	None	RhoGAP2
10	ARHGAP22	ENSG00000128805	ENST00000489984	processed_transcript	KNOWN	None	30320	None	None	49662200	49674739	-1	None	RhoGAP2
10	ARHGAP22	ENSG00000128805	ENST00000493012	processed_transcript	KNOWN	None	30320	None	None	49740529	49791170	-1	None	RhoGAP2
10	ARHGAP22	ENSG00000128805	ENST00000491108	processed_transcript	KNOWN	None	30320	None	None	49782747	49813000	-1	None	RhoGAP2
10	ARHGAP22	ENSG00000128805	ENST00000511570	processed_transcript	PUTATIVE	None	30320	None	None	49783367	49791092	-1	None	RhoGAP2
10	ARHGAP22	ENSG00000128805	ENST00000464445	retained_intron	KNOWN	None	30320	None	None	49790766	49860366	-1	None	RhoGAP2
2	None	ENSG00000237953	ENST00000458227	processed_pseudogene	KNOWN	None	None	None	None	25191827	25192093	-1	None	None
14	OR4Q3	ENSG00000182652	ENST00000331723	protein_coding	KNOWN	CCDS32020	15426	942	313	20215587	20216528	1	OR4Q4	C14orf13
11	None	ENSG00000267981	ENST00000597197	protein_coding	NOVEL	None	None	348	115	129936836	129944012	1	None	None
11	OR52Y1P	ENSG00000231070	ENST00000452418	unprocessed_pseudogene	KNOWN	None	15240	None	None	4815008	4816514	-1	OR52Y2P	None
2	None	ENSG00000202479	ENST00000365609	snoRNA	NOVEL	None	None	None	None	25192257	25192346	-1	None	None
9	None	ENSG00000226535	ENST00000415694	processed_pseudogene	KNOWN	None	None	None	None	109931850	109933429	-1	None	None
7	None	ENSG00000237764	ENST00000424515	processed_transcript	KNOWN	None	None	None	None	124812272	125019375	1	None	None
14	OR4M1	ENSG00000176299	ENST00000315957	protein_coding	KNOWN	CCDS32021	14735	942	313	20248401	20249516	1	None	None
10	FUT11	ENSG00000196968	ENST00000372841	protein_coding	KNOWN	CCDS7333	19233	1479	492	75532049	75535977	1	None	MGC33202
10	FUT11	ENSG00000196968	ENST00000465695	processed_transcript	KNOWN	None	19233	None	None	75532322	75534881	1	None	MGC33202
10	FUT11	ENSG00000196968	ENST00000489264	processed_transcript	KNOWN	None	19233	None	None	75533363	75538821	1	None	MGC33202
10	FUT11	ENSG00000196968	ENST00000394790	protein_coding	KNOWN	None	19233	1431	476	75532049	75535273	1	None	MGC33202
9	None	ENSG00000226825	ENST00000423523	lincRNA	KNOWN	None	None	None	None	110182565	110193083	-1	None	None
9	None	ENSG00000226825	ENST00000415302	lincRNA	KNOWN	None	None	None	None	110189521	110190683	-1	None	None
2	DNAJC27-AS1	ENSG00000224165	ENST00000421904	antisense	KNOWN	None	42943	None	None	25194259	25195691	1	None	None
2	DNAJC27-AS1	ENSG00000224165	ENST00000451291	antisense	KNOWN	None	42943	None	None	25194311	25258619	1	None	None
2	DNAJC27-AS1	ENSG00000224165	ENST00000445389	antisense	KNOWN	None	42943	None	None	25194995	25250386	1	None	None
2	DNAJC27-AS1	ENSG00000224165	ENST00000434897	antisense	KNOWN	None	42943	None	None	25194995	25262563	1	None	None
2	DNAJC27-AS1	ENSG00000224165	ENST00000428614	antisense	KNOWN	None	42943	None	None	25195013	25258533	1	None	None
2	DNAJC27-AS1	ENSG00000224165	ENST00000422449	antisense	KNOWN	None	42943	None	None	25195034	25195691	1	None	None
2	DNAJC27-AS1	ENSG00000224165	ENST00000421842	antisense	KNOWN	None	42943	None	None	25195052	25195699	1	None	None
5	PCDHAC1	ENSG00000248383	ENST00000253807	protein_coding	KNOWN	CCDS4241	8676	2892	963	140306478	140391929	1	None	None
5	PCDHAC1	ENSG00000248383	ENST00000409700	protein_coding	KNOWN	None	8676	2457	818	140306302	140309385	1	None	None
Y	RAB9AP5	ENSG00000231423	ENST00000437794	unprocessed_pseudogene	KNOWN	None	38109	None	None	26102716	26106365	1	None	None
14	OR4K2	ENSG00000165762	ENST00000298642	protein_coding	KNOWN	CCDS32023	14728	945	314	20344391	20345468	1	None	None
11	OR51A8P	ENSG00000197984	ENST00000421277	unprocessed_pseudogene	KNOWN	None	15189	None	None	4853363	4854302	1	None	None
11	OR51A8P	ENSG00000197984	ENST00000354690	pseudogene	KNOWN	None	15189	None	None	4853399	4854284	1	None	None
Y	TRAPPC2P10	ENSG00000228465	ENST00000415662	unprocessed_pseudogene	KNOWN	None	37732	None	None	26113711	26116841	-1	None	TRAPPC2P5B
14	OR4K5	ENSG00000176281	ENST00000315915	protein_coding	KNOWN	CCDS32024	14745	972	323	20388741	20389818	1	None	None
17	DHX58	ENSG00000108771	ENST00000589979	nonsense_mediated_decay	KNOWN	None	29517	154	50	40253422	40256925	-1	None	LGP2, D11LGP2
17	DHX58	ENSG00000108771	ENST00000251642	protein_coding	KNOWN	CCDS11416	29517	2037	678	40253422	40264751	-1	None	LGP2, D11LGP2
17	DHX58	ENSG00000108771	ENST00000592024	retained_intron	KNOWN	None	29517	None	None	40253618	40254827	-1	None	LGP2, D11LGP2
17	DHX58	ENSG00000108771	ENST00000586522	retained_intron	KNOWN	None	29517	None	None	40255231	40264731	-1	None	LGP2, D11LGP2
17	DHX58	ENSG00000108771	ENST00000590637	retained_intron	KNOWN	None	29517	None	None	40255626	40259866	-1	None	LGP2, D11LGP2
17	DHX58	ENSG00000108771	ENST00000413196	protein_coding	KNOWN	None	29517	908	301	40259711	40264504	-1	None	LGP2, D11LGP2
17	DHX58	ENSG00000108771	ENST00000591220	protein_coding	PUTATIVE	None	29517	298	98	40262797	40264732	-1	None	LGP2, D11LGP2
17	DHX58	ENSG00000108771	ENST00000430773	protein_coding	KNOWN	None	29517	468	155	40262834	40264481	-1	None	LGP2, D11LGP2
11	TTC12	ENSG00000149292	ENST00000529221	protein_coding	KNOWN	CCDS8360	23700	2118	705	113185251	113237114	1	None	FLJ13859, FLJ20535, TPARM
11	TTC12	ENSG00000149292	ENST00000429951	protein_coding	KNOWN	None	23700	322	106	113185301	113195404	1	None	FLJ13859, FLJ20535, TPARM
11	TTC12	ENSG00000149292	ENST00000442859	protein_coding	KNOWN	None	23700	606	201	113185301	113209525	1	None	FLJ13859, FLJ20535, TPARM
11	TTC12	ENSG00000149292	ENST00000531164	protein_coding	PUTATIVE	None	23700	513	170	113185305	113209507	1	None	FLJ13859, FLJ20535, TPARM
11	TTC12	ENSG00000149292	ENST00000529850	protein_coding	NOVEL	None	23700	543	180	113185305	113209522	1	None	FLJ13859, FLJ20535, TPARM
11	TTC12	ENSG00000149292	ENST00000525965	protein_coding	NOVEL	None	23700	764	253	113185313	113211455	1	None	FLJ13859, FLJ20535, TPARM
11	TTC12	ENSG00000149292	ENST00000464224	nonsense_mediated_decay	KNOWN	None	23700	453	150	113185324	113237108	1	None	FLJ13859, FLJ20535, TPARM
11	TTC12	ENSG00000149292	ENST00000494714	nonsense_mediated_decay	KNOWN	None	23700	2199	732	113185329	113244019	1	None	FLJ13859, FLJ20535, TPARM
11	TTC12	ENSG00000149292	ENST00000393020	protein_coding	NOVEL	None	23700	2010	669	113185533	113254266	1	None	FLJ13859, FLJ20535, TPARM
11	TTC12	ENSG00000149292	ENST00000455306	protein_coding	KNOWN	None	23700	502	166	113185576	113200699	1	None	FLJ13859, FLJ20535, TPARM
11	TTC12	ENSG00000149292	ENST00000524580	protein_coding	PUTATIVE	None	23700	269	88	113185778	113210161	1	None	FLJ13859, FLJ20535, TPARM
11	TTC12	ENSG00000149292	ENST00000489064	retained_intron	KNOWN	None	23700	None	None	113185786	113194932	1	None	FLJ13859, FLJ20535, TPARM
11	TTC12	ENSG00000149292	ENST00000527781	retained_intron	KNOWN	None	23700	None	None	113186963	113196425	1	None	FLJ13859, FLJ20535, TPARM
11	TTC12	ENSG00000149292	ENST00000483239	protein_coding	NOVEL	None	23700	2136	711	113186963	113237109	1	None	FLJ13859, FLJ20535, TPARM
11	TTC12	ENSG00000149292	ENST00000527362	nonsense_mediated_decay	KNOWN	None	23700	253	83	113196331	113230730	1	None	FLJ13859, FLJ20535, TPARM
11	TTC12	ENSG00000149292	ENST00000525989	retained_intron	KNOWN	None	23700	None	None	113200452	113209535	1	None	FLJ13859, FLJ20535, TPARM
11	TTC12	ENSG00000149292	ENST00000534793	retained_intron	KNOWN	None	23700	None	None	113205749	113210277	1	None	FLJ13859, FLJ20535, TPARM
11	TTC12	ENSG00000149292	ENST00000478125	processed_transcript	KNOWN	None	23700	None	None	113212377	113230719	1	None	FLJ13859, FLJ20535, TPARM
11	TTC12	ENSG00000149292	ENST00000462711	nonsense_mediated_decay	KNOWN	None	23700	249	82	113233174	113242263	1	None	FLJ13859, FLJ20535, TPARM
11	TTC12	ENSG00000149292	ENST00000480233	processed_transcript	KNOWN	None	23700	None	None	113235103	113237109	1	None	FLJ13859, FLJ20535, TPARM
11	TTC12	ENSG00000149292	ENST00000496311	retained_intron	KNOWN	None	23700	None	None	113235506	113237108	1	None	FLJ13859, FLJ20535, TPARM
11	TTC12	ENSG00000149292	ENST00000314756	protein_coding	KNOWN	None	23700	2199	732	113185305	113239065	1	None	FLJ13859, FLJ20535, TPARM
17	RAI1	ENSG00000108557	ENST00000353383	protein_coding	KNOWN	CCDS11188	9834	5721	1906	17584787	17714767	1	SMCR	DKFZP434A139, SMS, KIAA1820, MGC12824
17	RAI1	ENSG00000108557	ENST00000489697	processed_transcript	KNOWN	None	9834	None	None	17585043	17588364	1	SMCR	DKFZP434A139, SMS, KIAA1820, MGC12824
17	RAI1	ENSG00000108557	ENST00000471135	protein_coding	KNOWN	None	9834	195	64	17585809	17696457	1	SMCR	DKFZP434A139, SMS, KIAA1820, MGC12824
17	RAI1	ENSG00000108557	ENST00000395774	protein_coding	KNOWN	None	9834	2828	941	17685446	17699090	1	SMCR	DKFZP434A139, SMS, KIAA1820, MGC12824
17	RAI1	ENSG00000108557	ENST00000583166	protein_coding	PUTATIVE	None	9834	469	155	17701698	17707428	1	SMCR	DKFZP434A139, SMS, KIAA1820, MGC12824
17	RAI1	ENSG00000108557	ENST00000582514	processed_transcript	PUTATIVE	None	9834	None	None	17712596	17714003	1	SMCR	DKFZP434A139, SMS, KIAA1820, MGC12824
17	RAI1	ENSG00000108557	ENST00000261641	protein_coding	KNOWN	None	9834	4923	1640	17696263	17714194	1	SMCR	DKFZP434A139, SMS, KIAA1820, MGC12824
17	TLCD2	ENSG00000185561	ENST00000330676	protein_coding	NOVEL	CCDS45567	33522	795	264	1611064	1613732	-1	None	None
19	NLRP9	ENSG00000185792	ENST00000332836	protein_coding	KNOWN	CCDS12934	22941	2976	991	56219798	56249768	-1	NALP9	NOD6, PAN12, CLR19.1
19	NLRP9	ENSG00000185792	ENST00000590200	protein_coding	KNOWN	None	22941	2958	985	56222799	56249740	-1	NALP9	NOD6, PAN12, CLR19.1
6	MTO1	ENSG00000135297	ENST00000415954	protein_coding	KNOWN	CCDS47452	19261	2199	732	74171301	74210819	1	None	None
6	MTO1	ENSG00000135297	ENST00000498286	protein_coding	KNOWN	CCDS34485	19261	2079	692	74171301	74218959	1	None	None
6	MTO1	ENSG00000135297	ENST00000442897	nonsense_mediated_decay	KNOWN	None	19261	357	118	74171465	74189695	1	None	None
6	MTO1	ENSG00000135297	ENST00000370305	protein_coding	KNOWN	None	19261	1932	643	74171469	74210646	1	None	None
6	MTO1	ENSG00000135297	ENST00000521032	nonsense_mediated_decay	KNOWN	None	19261	333	110	74171470	74183197	1	None	None
6	MTO1	ENSG00000135297	ENST00000370308	retained_intron	KNOWN	None	19261	None	None	74171488	74210819	1	None	None
6	MTO1	ENSG00000135297	ENST00000415228	nonsense_mediated_decay	KNOWN	None	19261	579	192	74171488	74210819	1	None	None
6	MTO1	ENSG00000135297	ENST00000370300	protein_coding	KNOWN	CCDS4979	19261	2154	717	74171488	74211175	1	None	None
6	MTO1	ENSG00000135297	ENST00000522205	nonsense_mediated_decay	KNOWN	None	19261	288	95	74171501	74183255	1	None	None
6	MTO1	ENSG00000135297	ENST00000462039	retained_intron	KNOWN	None	19261	None	None	74171518	74210773	1	None	None
6	MTO1	ENSG00000135297	ENST00000518210	processed_transcript	KNOWN	None	19261	None	None	74171866	74183134	1	None	None
6	MTO1	ENSG00000135297	ENST00000485082	retained_intron	KNOWN	None	19261	None	None	74175986	74181518	1	None	None
6	MTO1	ENSG00000135297	ENST00000466977	retained_intron	KNOWN	None	19261	None	None	74183276	74189894	1	None	None
6	MTO1	ENSG00000135297	ENST00000445187	nonsense_mediated_decay	KNOWN	None	19261	297	98	74189723	74192257	1	None	None
6	MTO1	ENSG00000135297	ENST00000520366	processed_transcript	KNOWN	None	19261	None	None	74189786	74190485	1	None	None
6	MTO1	ENSG00000135297	ENST00000487960	retained_intron	KNOWN	None	19261	None	None	74189889	74190751	1	None	None
6	MTO1	ENSG00000135297	ENST00000524046	nonsense_mediated_decay	KNOWN	None	19261	260	85	74190019	74202048	1	None	None
6	MTO1	ENSG00000135297	ENST00000521156	protein_coding	PUTATIVE	None	19261	435	144	74191838	74210761	1	None	None
6	MTO1	ENSG00000135297	ENST00000523763	nonsense_mediated_decay	KNOWN	None	19261	346	114	74191855	74210424	1	None	None
17	C17orf82	ENSG00000187013	ENST00000335108	protein_coding	KNOWN	CCDS11628	32699	756	251	59489112	59490641	1	None	None
Y	OFD1P12Y	ENSG00000232585	ENST00000427963	unprocessed_pseudogene	KNOWN	None	23884	None	None	26118927	26141228	1	OFDYP12, OFD1P12, OFD1PY12	None
7	BPGM	ENSG00000172331	ENST00000344924	protein_coding	KNOWN	CCDS5833	1093	780	259	134331560	134364565	1	None	None
7	BPGM	ENSG00000172331	ENST00000418040	protein_coding	KNOWN	CCDS5833	1093	780	259	134331563	134364560	1	None	None
7	BPGM	ENSG00000172331	ENST00000393132	protein_coding	KNOWN	CCDS5833	1093	780	259	134331583	134364565	1	None	None
7	BPGM	ENSG00000172331	ENST00000443095	protein_coding	KNOWN	None	1093	234	77	134345173	134346493	1	None	None
14	OR4K1	ENSG00000155249	ENST00000285600	protein_coding	KNOWN	CCDS32025	14726	936	311	20403767	20404842	1	None	None
10	CHCHD1	ENSG00000172586	ENST00000372837	protein_coding	KNOWN	None	23518	294	97	75541805	75543129	1	C10orf34	FLJ25854
10	CHCHD1	ENSG00000172586	ENST00000372833	protein_coding	KNOWN	CCDS7334	23518	357	118	75541821	75543410	1	C10orf34	FLJ25854
9	RN7SL462P	ENSG00000266087	ENST00000580763	misc_RNA	KNOWN	None	46478	None	None	39720399	39720657	1	None	None
9	None	ENSG00000225529	ENST00000448922	unprocessed_pseudogene	KNOWN	None	None	None	None	39722430	39817308	-1	None	None
2	None	ENSG00000207069	ENST00000384341	misc_RNA	NOVEL	None	None	None	None	25231714	25231815	-1	None	None
14	OR4K15	ENSG00000169488	ENST00000305051	protein_coding	KNOWN	CCDS32026	15353	1047	348	20443603	20444818	1	None	OR4K15Q
2	RN7SL856P	ENSG00000240913	ENST00000461754	misc_RNA	KNOWN	None	46872	None	None	25280901	25281196	1	None	None
2	SUCLA2P3	ENSG00000229593	ENST00000458157	processed_pseudogene	KNOWN	None	38103	None	None	25302770	25304558	-1	None	None
Y	TCEB1P10	ENSG00000234081	ENST00000440624	processed_pseudogene	KNOWN	None	38146	None	None	26153058	26153384	-1	None	None
18	CCDC178	ENSG00000166960	ENST00000581852	protein_coding	PUTATIVE	None	29588	219	72	30517366	30716041	-1	C18orf34	FLJ44050
18	CCDC178	ENSG00000166960	ENST00000581524	protein_coding	PUTATIVE	None	29588	1095	364	30517370	30846929	-1	C18orf34	FLJ44050
18	CCDC178	ENSG00000166960	ENST00000383096	protein_coding	KNOWN	CCDS42424	29588	2604	867	30517371	31020657	-1	C18orf34	FLJ44050
18	CCDC178	ENSG00000166960	ENST00000300227	protein_coding	KNOWN	CCDS11906	29588	2490	829	30517589	31020685	-1	C18orf34	FLJ44050
18	CCDC178	ENSG00000166960	ENST00000579916	protein_coding	NOVEL	None	29588	564	187	30517628	31020009	-1	C18orf34	FLJ44050
18	CCDC178	ENSG00000166960	ENST00000583930	protein_coding	NOVEL	None	29588	2676	891	30517636	31019982	-1	C18orf34	FLJ44050
18	CCDC178	ENSG00000166960	ENST00000579947	protein_coding	PUTATIVE	None	29588	2550	849	30537967	31020657	-1	C18orf34	FLJ44050
18	CCDC178	ENSG00000166960	ENST00000577268	retained_intron	KNOWN	None	29588	None	None	30903115	30926186	-1	C18orf34	FLJ44050
18	CCDC178	ENSG00000166960	ENST00000399177	non_stop_decay	KNOWN	None	29588	874	290	30913143	31020046	-1	C18orf34	FLJ44050
18	CCDC178	ENSG00000166960	ENST00000577766	protein_coding	KNOWN	None	29588	311	102	30950051	31021065	-1	C18orf34	FLJ44050
18	CCDC178	ENSG00000166960	ENST00000583550	processed_transcript	KNOWN	None	29588	None	None	31017597	31020507	-1	C18orf34	FLJ44050
18	CCDC178	ENSG00000166960	ENST00000403303	protein_coding	KNOWN	CCDS42424	29588	2604	867	30517367	31020045	-1	C18orf34	FLJ44050
18	CCDC178	ENSG00000166960	ENST00000406524	protein_coding	KNOWN	None	29588	2676	891	30517636	30992076	-1	C18orf34	FLJ44050
18	CCDC178	ENSG00000166960	ENST00000402325	protein_coding	KNOWN	None	29588	2454	817	30517975	30992052	-1	C18orf34	FLJ44050
14	OR4Q2	ENSG00000196383	ENST00000541415	polymorphic_pseudogene	KNOWN	None	15359	944	313	20470322	20471265	1	OR4Q2P	None
14	KCNK10	ENSG00000100433	ENST00000340700	protein_coding	KNOWN	CCDS9880	6273	1617	538	88649113	88793251	-1	None	K2p10.1, TREK-2, TREK2
14	KCNK10	ENSG00000100433	ENST00000312350	protein_coding	KNOWN	CCDS9882	6273	1632	543	88651237	88737255	-1	None	K2p10.1, TREK-2, TREK2
14	KCNK10	ENSG00000100433	ENST00000319231	protein_coding	KNOWN	CCDS9881	6273	1632	543	88651237	88789593	-1	None	K2p10.1, TREK-2, TREK2
14	KCNK10	ENSG00000100433	ENST00000556282	protein_coding	PUTATIVE	None	6273	470	155	88707046	88790069	-1	None	K2p10.1, TREK-2, TREK2
Y	CDY17P	ENSG00000231375	ENST00000414121	unprocessed_pseudogene	KNOWN	None	23861	None	None	26196025	26197634	-1	None	None
9	None	ENSG00000263459	ENST00000581575	miRNA	NOVEL	None	None	None	None	110195821	110195890	-1	None	None
9	HMGN2P32	ENSG00000213558	ENST00000444648	processed_pseudogene	KNOWN	None	39403	None	None	110220319	110220587	-1	None	None
14	OR4K14	ENSG00000169484	ENST00000305045	protein_coding	KNOWN	CCDS32027	15352	933	310	20482419	20483352	-1	None	None
Y	USP9YP35	ENSG00000237467	ENST00000435696	unprocessed_pseudogene	KNOWN	None	38779	None	None	26223946	26225959	1	None	None
2	None	ENSG00000261452	ENST00000567599	lincRNA	KNOWN	None	None	None	None	25380063	25382006	1	None	None
9	RNU6-492P	ENSG00000199905	ENST00000363035	snRNA	KNOWN	None	47455	None	None	110237317	110237420	-1	None	None
Y	USP9YP31	ENSG00000229250	ENST00000431405	unprocessed_pseudogene	KNOWN	None	38775	None	None	26227851	26236493	-1	None	None
22	XBP1	ENSG00000100219	ENST00000216037	protein_coding	KNOWN	CCDS13847	12801	786	261	29190543	29196585	-1	XBP2	None
22	XBP1	ENSG00000100219	ENST00000403532	protein_coding	NOVEL	None	12801	801	266	29190545	29196546	-1	XBP2	None
22	XBP1	ENSG00000100219	ENST00000484256	retained_intron	KNOWN	None	12801	None	None	29190547	29193033	-1	XBP2	None
22	XBP1	ENSG00000100219	ENST00000405219	protein_coding	PUTATIVE	None	12801	636	211	29190577	29196121	-1	XBP2	None
22	XBP1	ENSG00000100219	ENST00000344347	protein_coding	KNOWN	None	12801	1131	376	29191163	29196512	-1	XBP2	None
22	XBP1	ENSG00000100219	ENST00000482720	retained_intron	KNOWN	None	12801	None	None	29194894	29196557	-1	XBP2	None
2	None	ENSG00000230452	ENST00000431650	antisense	KNOWN	None	None	None	None	25427182	25432071	1	None	None
6	RPL15P4	ENSG00000225499	ENST00000416625	processed_pseudogene	KNOWN	None	21663	None	None	31495891	31496470	1	None	Em:AC006046.2
X	ZNF645	ENSG00000175809	ENST00000323684	protein_coding	KNOWN	CCDS14205	26371	1278	425	22291065	22292574	1	None	FLJ25735, HAKAIL
2	None	ENSG00000272048	ENST00000606328	lincRNA	KNOWN	None	None	None	None	25450724	25451090	-1	None	None
2	MIR1301	ENSG00000221445	ENST00000408518	miRNA	KNOWN	None	35253	None	None	25551509	25551590	-1	MIRN1301	hsa-mir-1301
17	TBX4	ENSG00000121075	ENST00000589003	protein_coding	PUTATIVE	None	11603	405	134	59529765	59556101	1	None	None
17	TBX4	ENSG00000121075	ENST00000393853	protein_coding	KNOWN	None	11603	1641	546	59529779	59562471	1	None	None
17	TBX4	ENSG00000121075	ENST00000240335	protein_coding	KNOWN	CCDS11629	11603	1638	545	59533807	59561664	1	None	None
17	TBX4	ENSG00000121075	ENST00000593249	processed_transcript	KNOWN	None	11603	None	None	59541575	59556150	1	None	None
17	TBX4	ENSG00000121075	ENST00000590174	retained_intron	KNOWN	None	11603	None	None	59543154	59557636	1	None	None
17	TBX4	ENSG00000121075	ENST00000589449	processed_transcript	KNOWN	None	11603	None	None	59555712	59560731	1	None	None
17	TBX4	ENSG00000121075	ENST00000586874	processed_transcript	KNOWN	None	11603	None	None	59555724	59558707	1	None	None
17	MAPK7	ENSG00000166484	ENST00000299612	protein_coding	KNOWN	CCDS11207	6880	2034	677	19281066	19286857	1	PRKM7	BMK1, ERK5
17	MAPK7	ENSG00000166484	ENST00000571657	processed_transcript	KNOWN	None	6880	None	None	19281112	19286652	1	PRKM7	BMK1, ERK5
17	MAPK7	ENSG00000166484	ENST00000573417	processed_transcript	KNOWN	None	6880	None	None	19281305	19285401	1	PRKM7	BMK1, ERK5
17	MAPK7	ENSG00000166484	ENST00000395602	protein_coding	KNOWN	CCDS11206	6880	2451	816	19281566	19286857	1	PRKM7	BMK1, ERK5
17	MAPK7	ENSG00000166484	ENST00000579284	protein_coding	KNOWN	None	6880	471	156	19281573	19283993	1	PRKM7	BMK1, ERK5
17	MAPK7	ENSG00000166484	ENST00000443215	protein_coding	KNOWN	None	6880	724	240	19281595	19284246	1	PRKM7	BMK1, ERK5
17	MAPK7	ENSG00000166484	ENST00000395604	protein_coding	KNOWN	CCDS11206	6880	2451	816	19281636	19286857	1	PRKM7	BMK1, ERK5
17	MAPK7	ENSG00000166484	ENST00000572968	processed_transcript	KNOWN	None	6880	None	None	19281781	19283785	1	PRKM7	BMK1, ERK5
17	MAPK7	ENSG00000166484	ENST00000573466	retained_intron	KNOWN	None	6880	None	None	19281817	19283479	1	PRKM7	BMK1, ERK5
17	MAPK7	ENSG00000166484	ENST00000482850	protein_coding	KNOWN	None	6880	587	194	19281822	19284526	1	PRKM7	BMK1, ERK5
17	MAPK7	ENSG00000166484	ENST00000581260	nonsense_mediated_decay	KNOWN	None	6880	243	80	19281840	19284173	1	PRKM7	BMK1, ERK5
17	MAPK7	ENSG00000166484	ENST00000570306	retained_intron	KNOWN	None	6880	None	None	19281842	19286851	1	PRKM7	BMK1, ERK5
17	MAPK7	ENSG00000166484	ENST00000486905	retained_intron	KNOWN	None	6880	None	None	19281868	19283396	1	PRKM7	BMK1, ERK5
17	MAPK7	ENSG00000166484	ENST00000572853	retained_intron	KNOWN	None	6880	None	None	19282062	19283274	1	PRKM7	BMK1, ERK5
17	MAPK7	ENSG00000166484	ENST00000603493	protein_coding	NOVEL	None	6880	432	143	19282064	19283936	1	PRKM7	BMK1, ERK5
17	MAPK7	ENSG00000166484	ENST00000490660	retained_intron	KNOWN	None	6880	None	None	19282205	19286857	1	PRKM7	BMK1, ERK5
17	MAPK7	ENSG00000166484	ENST00000572716	retained_intron	KNOWN	None	6880	None	None	19283545	19284426	1	PRKM7	BMK1, ERK5
17	MAPK7	ENSG00000166484	ENST00000308406	protein_coding	KNOWN	CCDS11206	6880	2451	816	19281034	19286856	1	PRKM7	BMK1, ERK5
4	None	ENSG00000251155	ENST00000513445	processed_pseudogene	KNOWN	None	None	None	None	119561828	119562013	1	None	None
2	None	ENSG00000235072	ENST00000431557	lincRNA	KNOWN	None	None	None	None	25592042	25598714	-1	None	None
X	DDX53	ENSG00000184735	ENST00000327968	protein_coding	KNOWN	CCDS35214	20083	1896	631	23018087	23020204	1	None	CAGE, CT26
4	None	ENSG00000249002	ENST00000509945	processed_pseudogene	KNOWN	None	None	None	None	119927187	119927556	1	None	None
1	MIIP	ENSG00000116691	ENST00000478749	processed_transcript	KNOWN	None	25715	None	None	12079523	12089912	1	None	FLJ12438, IIp45
1	MIIP	ENSG00000116691	ENST00000235332	protein_coding	KNOWN	CCDS143	25715	1167	388	12079523	12092102	1	None	FLJ12438, IIp45
1	MIIP	ENSG00000116691	ENST00000466860	processed_transcript	KNOWN	None	25715	None	None	12082279	12092032	1	None	FLJ12438, IIp45
1	MIIP	ENSG00000116691	ENST00000498685	processed_transcript	KNOWN	None	25715	None	None	12082921	12092100	1	None	FLJ12438, IIp45
1	MIIP	ENSG00000116691	ENST00000492256	processed_transcript	KNOWN	None	25715	None	None	12088778	12089664	1	None	FLJ12438, IIp45
1	MIIP	ENSG00000116691	ENST00000460823	processed_transcript	KNOWN	None	25715	None	None	12089153	12092082	1	None	FLJ12438, IIp45
1	MIIP	ENSG00000116691	ENST00000478299	processed_transcript	KNOWN	None	25715	None	None	12091184	12092096	1	None	FLJ12438, IIp45
1	MIIP	ENSG00000116691	ENST00000436478	protein_coding	KNOWN	None	25715	1077	358	12079590	12092095	1	None	FLJ12438, IIp45
19	CNN1	ENSG00000130176	ENST00000252456	protein_coding	KNOWN	CCDS12263	2155	894	297	11649532	11661138	1	None	SMCC, Sm-Calp
19	CNN1	ENSG00000130176	ENST00000592923	protein_coding	PUTATIVE	None	2155	744	247	11649582	11661137	1	None	SMCC, Sm-Calp
19	CNN1	ENSG00000130176	ENST00000535659	protein_coding	PUTATIVE	None	2155	744	247	11649590	11660815	1	None	SMCC, Sm-Calp
19	CNN1	ENSG00000130176	ENST00000588468	processed_transcript	KNOWN	None	2155	None	None	11649668	11653056	1	None	SMCC, Sm-Calp
19	CNN1	ENSG00000130176	ENST00000586059	protein_coding	PUTATIVE	None	2155	350	115	11650709	11658721	1	None	SMCC, Sm-Calp
19	CNN1	ENSG00000130176	ENST00000585869	protein_coding	PUTATIVE	None	2155	359	118	11651051	11651988	1	None	SMCC, Sm-Calp
19	CNN1	ENSG00000130176	ENST00000587087	protein_coding	NOVEL	None	2155	348	115	11652005	11660774	1	None	SMCC, Sm-Calp
19	CNN1	ENSG00000130176	ENST00000592338	protein_coding	NOVEL	None	2155	525	174	11657490	11660573	1	None	SMCC, Sm-Calp
19	CNN1	ENSG00000130176	ENST00000586577	protein_coding	PUTATIVE	None	2155	520	172	11657523	11660539	1	None	SMCC, Sm-Calp
19	CNN1	ENSG00000130176	ENST00000588935	protein_coding	PUTATIVE	None	2155	686	227	11658655	11661136	1	None	SMCC, Sm-Calp
19	CNN1	ENSG00000130176	ENST00000544952	protein_coding	KNOWN	None	2155	834	277	11650518	11660680	1	None	SMCC, Sm-Calp
2	None	ENSG00000179061	ENST00000313031	pseudogene	KNOWN	None	None	None	None	25592818	25593185	-1	None	None
10	BBIP1	ENSG00000214413	ENST00000448814	protein_coding	KNOWN	CCDS55727	28093	279	92	112658488	112679032	-1	NCRNA00081	bA348N5.3, BBIP10
10	BBIP1	ENSG00000214413	ENST00000447005	protein_coding	KNOWN	CCDS58094	28093	213	70	112659714	112678959	-1	NCRNA00081	bA348N5.3, BBIP10
10	BBIP1	ENSG00000214413	ENST00000454061	protein_coding	PUTATIVE	CCDS55728	28093	312	103	112659879	112678959	-1	NCRNA00081	bA348N5.3, BBIP10
10	BBIP1	ENSG00000214413	ENST00000423273	protein_coding	NOVEL	CCDS55726	28093	204	67	112659923	112678915	-1	NCRNA00081	bA348N5.3, BBIP10
10	BBIP1	ENSG00000214413	ENST00000605742	protein_coding	KNOWN	CCDS55727	28093	279	92	112659976	112678694	-1	NCRNA00081	bA348N5.3, BBIP10
10	BBIP1	ENSG00000214413	ENST00000436562	protein_coding	KNOWN	CCDS58094	28093	213	70	112659987	112678915	-1	NCRNA00081	bA348N5.3, BBIP10
10	BBIP1	ENSG00000214413	ENST00000605265	processed_transcript	KNOWN	None	28093	None	None	112659992	112664703	-1	NCRNA00081	bA348N5.3, BBIP10
10	BBIP1	ENSG00000214413	ENST00000398289	nonsense_mediated_decay	KNOWN	None	28093	138	45	112659996	112678940	-1	NCRNA00081	bA348N5.3, BBIP10
10	BBIP1	ENSG00000214413	ENST00000422050	retained_intron	KNOWN	None	28093	None	None	112666237	112678925	-1	NCRNA00081	bA348N5.3, BBIP10
10	BBIP1	ENSG00000214413	ENST00000431847	retained_intron	KNOWN	None	28093	None	None	112677717	112678919	-1	NCRNA00081	bA348N5.3, BBIP10
4	None	ENSG00000249356	ENST00000514608	lincRNA	KNOWN	None	None	None	None	119990479	119991452	-1	None	None
2	None	ENSG00000224220	ENST00000352271	antisense	KNOWN	None	None	None	None	25643986	25650512	1	None	None
6	None	ENSG00000238059	ENST00000438283	processed_pseudogene	KNOWN	None	None	None	None	133831524	133831831	-1	None	None
14	OR4K13	ENSG00000176253	ENST00000315693	protein_coding	KNOWN	CCDS32028	15351	915	304	20502003	20502919	-1	None	None
1	VAV3	ENSG00000134215	ENST00000370056	protein_coding	KNOWN	CCDS785	12659	2544	847	108113782	108507766	-1	None	None
1	VAV3	ENSG00000134215	ENST00000527011	protein_coding	NOVEL	None	12659	2628	875	108114211	108507631	-1	None	None
1	VAV3	ENSG00000134215	ENST00000529413	nonsense_mediated_decay	KNOWN	None	12659	159	52	108115470	108231126	-1	None	None
1	VAV3	ENSG00000134215	ENST00000525460	processed_transcript	KNOWN	None	12659	None	None	108115572	108220631	-1	None	None
1	VAV3	ENSG00000134215	ENST00000415432	protein_coding	KNOWN	CCDS44181	12659	864	287	108115597	108231126	-1	None	None
1	VAV3	ENSG00000134215	ENST00000343258	processed_transcript	KNOWN	None	12659	None	None	108115791	108328246	-1	None	None
1	VAV3	ENSG00000134215	ENST00000529033	processed_transcript	KNOWN	None	12659	None	None	108138917	108216271	-1	None	None
1	VAV3	ENSG00000134215	ENST00000525231	nonsense_mediated_decay	KNOWN	None	12659	159	52	108145719	108231126	-1	None	None
1	VAV3	ENSG00000134215	ENST00000479977	retained_intron	KNOWN	None	12659	None	None	108152436	108231150	-1	None	None
1	VAV3	ENSG00000134215	ENST00000533398	processed_transcript	KNOWN	None	12659	None	None	108160189	108228574	-1	None	None
1	VAV3	ENSG00000134215	ENST00000529809	protein_coding	NOVEL	None	12659	546	181	108160206	108292130	-1	None	None
1	VAV3	ENSG00000134215	ENST00000469325	processed_transcript	KNOWN	None	12659	None	None	108211461	108506218	-1	None	None
1	VAV3	ENSG00000134215	ENST00000490388	protein_coding	PUTATIVE	None	12659	1850	615	108211585	108507475	-1	None	None
1	VAV3	ENSG00000134215	ENST00000524574	processed_transcript	KNOWN	None	12659	None	None	108309137	108363518	-1	None	None
1	VAV3	ENSG00000134215	ENST00000530671	processed_transcript	KNOWN	None	12659	None	None	108313281	108506122	-1	None	None
1	VAV3	ENSG00000134215	ENST00000544443	protein_coding	KNOWN	None	12659	756	251	108115470	108231126	-1	None	None
1	VAV3	ENSG00000134215	ENST00000371846	protein_coding	KNOWN	None	12659	1671	556	108211585	108507475	-1	None	None
2	None	ENSG00000201160	ENST00000364290	misc_RNA	NOVEL	None	None	None	None	25919945	25920057	-1	None	None
6	None	ENSG00000272428	ENST00000606160	lincRNA	KNOWN	None	None	None	None	133861922	133862312	1	None	None
2	None	ENSG00000222070	ENST00000410138	miRNA	NOVEL	None	None	None	None	25945061	25945165	1	None	None
6	FTH1P26	ENSG00000218213	ENST00000406512	processed_pseudogene	KNOWN	None	37644	None	None	133997867	133998567	-1	FTHL26	None
2	TPM3P7	ENSG00000187536	ENST00000338274	processed_pseudogene	KNOWN	None	39170	None	None	26032794	26033525	-1	None	None
20	None	ENSG00000267848	ENST00000595604	protein_coding	KNOWN	None	None	489	162	62585007	62585495	1	None	None
7	HDAC9	ENSG00000048052	ENST00000417496	protein_coding	PUTATIVE	CCDS56465	14065	1767	588	18126572	18706546	1	None	KIAA0744, HDAC, MITR, HD7, HDAC7B
7	HDAC9	ENSG00000048052	ENST00000455069	retained_intron	KNOWN	None	14065	None	None	18127506	18202251	1	None	KIAA0744, HDAC, MITR, HD7, HDAC7B
7	HDAC9	ENSG00000048052	ENST00000425071	processed_transcript	KNOWN	None	14065	None	None	18191398	18367235	1	None	KIAA0744, HDAC, MITR, HD7, HDAC7B
7	HDAC9	ENSG00000048052	ENST00000433709	protein_coding	KNOWN	None	14065	68	21	18329715	18624949	1	None	KIAA0744, HDAC, MITR, HD7, HDAC7B
7	HDAC9	ENSG00000048052	ENST00000411993	processed_transcript	KNOWN	None	14065	None	None	18329811	18367381	1	None	KIAA0744, HDAC, MITR, HD7, HDAC7B
7	HDAC9	ENSG00000048052	ENST00000413509	protein_coding	KNOWN	None	14065	415	137	18330045	18630109	1	None	KIAA0744, HDAC, MITR, HD7, HDAC7B
7	HDAC9	ENSG00000048052	ENST00000461159	retained_intron	KNOWN	None	14065	None	None	18330045	18869015	1	None	KIAA0744, HDAC, MITR, HD7, HDAC7B
7	HDAC9	ENSG00000048052	ENST00000474742	processed_transcript	KNOWN	None	14065	None	None	18330073	18536369	1	None	KIAA0744, HDAC, MITR, HD7, HDAC7B
7	HDAC9	ENSG00000048052	ENST00000413380	protein_coding	KNOWN	None	14065	444	147	18535333	18631167	1	None	KIAA0744, HDAC, MITR, HD7, HDAC7B
7	HDAC9	ENSG00000048052	ENST00000430454	protein_coding	PUTATIVE	None	14065	212	69	18535338	18629999	1	None	KIAA0744, HDAC, MITR, HD7, HDAC7B
7	HDAC9	ENSG00000048052	ENST00000476135	processed_transcript	KNOWN	None	14065	None	None	18535362	18629977	1	None	KIAA0744, HDAC, MITR, HD7, HDAC7B
7	HDAC9	ENSG00000048052	ENST00000405010	protein_coding	KNOWN	CCDS47557	14065	1773	590	18535369	18708466	1	None	KIAA0744, HDAC, MITR, HD7, HDAC7B
7	HDAC9	ENSG00000048052	ENST00000406451	protein_coding	KNOWN	CCDS47554	14065	3201	1066	18535369	19036993	1	None	KIAA0744, HDAC, MITR, HD7, HDAC7B
7	HDAC9	ENSG00000048052	ENST00000428307	protein_coding	NOVEL	CCDS56466	14065	1641	546	18535379	18706728	1	None	KIAA0744, HDAC, MITR, HD7, HDAC7B
7	HDAC9	ENSG00000048052	ENST00000461409	processed_transcript	KNOWN	None	14065	None	None	18535384	18545659	1	None	KIAA0744, HDAC, MITR, HD7, HDAC7B
7	HDAC9	ENSG00000048052	ENST00000406072	protein_coding	PUTATIVE	None	14065	1734	577	18535790	18708466	1	None	KIAA0744, HDAC, MITR, HD7, HDAC7B
7	HDAC9	ENSG00000048052	ENST00000446646	nonsense_mediated_decay	KNOWN	None	14065	117	38	18535799	18631167	1	None	KIAA0744, HDAC, MITR, HD7, HDAC7B
7	HDAC9	ENSG00000048052	ENST00000401921	protein_coding	KNOWN	None	14065	3078	1025	18535885	19035820	1	None	KIAA0744, HDAC, MITR, HD7, HDAC7B
7	HDAC9	ENSG00000048052	ENST00000523867	retained_intron	KNOWN	None	14065	None	None	18535926	18875272	1	None	KIAA0744, HDAC, MITR, HD7, HDAC7B
7	HDAC9	ENSG00000048052	ENST00000432645	protein_coding	KNOWN	CCDS47555	14065	3036	1011	18535926	18993939	1	None	KIAA0744, HDAC, MITR, HD7, HDAC7B
7	HDAC9	ENSG00000048052	ENST00000441542	protein_coding	KNOWN	CCDS47553	14065	3210	1069	18535926	19035685	1	None	KIAA0744, HDAC, MITR, HD7, HDAC7B
7	HDAC9	ENSG00000048052	ENST00000441986	protein_coding	PUTATIVE	None	14065	331	109	18536120	18631156	1	None	KIAA0744, HDAC, MITR, HD7, HDAC7B
7	HDAC9	ENSG00000048052	ENST00000471887	processed_transcript	KNOWN	None	14065	None	None	18542231	18557694	1	None	KIAA0744, HDAC, MITR, HD7, HDAC7B
7	HDAC9	ENSG00000048052	ENST00000456174	protein_coding	PUTATIVE	CCDS56467	14065	1689	562	18548896	18706523	1	None	KIAA0744, HDAC, MITR, HD7, HDAC7B
7	HDAC9	ENSG00000048052	ENST00000524023	protein_coding	PUTATIVE	CCDS56468	14065	1542	513	18548936	18706602	1	None	KIAA0744, HDAC, MITR, HD7, HDAC7B
7	HDAC9	ENSG00000048052	ENST00000490851	retained_intron	KNOWN	None	14065	None	None	18832782	19036922	1	None	KIAA0744, HDAC, MITR, HD7, HDAC7B
7	HDAC9	ENSG00000048052	ENST00000483142	processed_transcript	KNOWN	None	14065	None	None	18875532	18946657	1	None	KIAA0744, HDAC, MITR, HD7, HDAC7B
7	HDAC9	ENSG00000048052	ENST00000496026	processed_transcript	KNOWN	None	14065	None	None	18891023	19035966	1	None	KIAA0744, HDAC, MITR, HD7, HDAC7B
2	PTGES3P2	ENSG00000217643	ENST00000407942	processed_pseudogene	KNOWN	None	43822	None	None	26045338	26045819	1	None	None
6	None	ENSG00000223586	ENST00000456347	lincRNA	KNOWN	None	None	None	None	134142285	134172426	1	None	None
6	None	ENSG00000223586	ENST00000412745	lincRNA	KNOWN	None	None	None	None	134158322	134172938	1	None	None
22	CYB5R3	ENSG00000100243	ENST00000352397	protein_coding	KNOWN	CCDS33658	2873	906	301	43014814	43045574	-1	DIA1	None
22	CYB5R3	ENSG00000100243	ENST00000407623	protein_coding	KNOWN	CCDS14040	2873	837	278	43014848	43042983	-1	DIA1	None
22	CYB5R3	ENSG00000100243	ENST00000407332	protein_coding	KNOWN	CCDS14040	2873	837	278	43014859	43032896	-1	DIA1	None
22	CYB5R3	ENSG00000100243	ENST00000470741	retained_intron	KNOWN	None	2873	None	None	43014881	43029354	-1	DIA1	None
22	CYB5R3	ENSG00000100243	ENST00000402438	protein_coding	KNOWN	CCDS14040	2873	837	278	43015750	43042966	-1	DIA1	None
22	CYB5R3	ENSG00000100243	ENST00000438270	protein_coding	KNOWN	None	2873	442	146	43023647	43043076	-1	DIA1	None
22	CYB5R3	ENSG00000100243	ENST00000466276	retained_intron	KNOWN	None	2873	None	None	43027047	43042685	-1	DIA1	None
22	CYB5R3	ENSG00000100243	ENST00000361740	protein_coding	KNOWN	CCDS54535	2873	1005	334	43013846	43040515	-1	DIA1	None
22	CYB5R3	ENSG00000100243	ENST00000396303	protein_coding	KNOWN	CCDS14040	2873	837	278	43013846	43042995	-1	DIA1	None
3	DNAJC19	ENSG00000205981	ENST00000382564	protein_coding	KNOWN	CCDS33895	30528	351	116	180701497	180707561	-1	None	TIMM14, Tim14, Pam18
3	DNAJC19	ENSG00000205981	ENST00000469657	nonsense_mediated_decay	KNOWN	None	30528	144	47	180701561	180707491	-1	None	TIMM14, Tim14, Pam18
3	DNAJC19	ENSG00000205981	ENST00000486355	protein_coding	PUTATIVE	None	30528	180	59	180702063	180707557	-1	None	TIMM14, Tim14, Pam18
3	DNAJC19	ENSG00000205981	ENST00000491873	protein_coding	PUTATIVE	CCDS54684	30528	276	91	180702066	180707498	-1	None	TIMM14, Tim14, Pam18
3	DNAJC19	ENSG00000205981	ENST00000479269	protein_coding	PUTATIVE	CCDS54684	30528	276	91	180702353	180707306	-1	None	TIMM14, Tim14, Pam18
3	DNAJC19	ENSG00000205981	ENST00000478723	retained_intron	KNOWN	None	30528	None	None	180703198	180707529	-1	None	TIMM14, Tim14, Pam18
3	DNAJC19	ENSG00000205981	ENST00000485675	retained_intron	KNOWN	None	30528	None	None	180704383	180707515	-1	None	TIMM14, Tim14, Pam18
3	DNAJC19	ENSG00000205981	ENST00000482363	retained_intron	KNOWN	None	30528	None	None	180704968	180707551	-1	None	TIMM14, Tim14, Pam18
3	DNAJC19	ENSG00000205981	ENST00000472504	retained_intron	KNOWN	None	30528	None	None	180705374	180707562	-1	None	TIMM14, Tim14, Pam18
2	None	ENSG00000218682	ENST00000403125	processed_pseudogene	KNOWN	None	None	None	None	26079330	26079835	-1	None	None
6	HMGA1P7	ENSG00000216753	ENST00000406908	processed_pseudogene	KNOWN	None	19122	None	None	134436373	134436874	-1	HMGA1L7	None
19	IZUMO4	ENSG00000099840	ENST00000481489	retained_intron	KNOWN	None	26950	None	None	2096380	2098803	1	C19orf36	None
19	IZUMO4	ENSG00000099840	ENST00000395307	protein_coding	KNOWN	CCDS35499	26950	645	214	2096380	2099586	1	C19orf36	None
19	IZUMO4	ENSG00000099840	ENST00000497445	retained_intron	KNOWN	None	26950	None	None	2096858	2099583	1	C19orf36	None
19	IZUMO4	ENSG00000099840	ENST00000478879	retained_intron	KNOWN	None	26950	None	None	2096858	2099592	1	C19orf36	None
19	IZUMO4	ENSG00000099840	ENST00000395301	protein_coding	KNOWN	CCDS42458	26950	699	232	2096881	2099579	1	C19orf36	None
19	IZUMO4	ENSG00000099840	ENST00000498554	retained_intron	KNOWN	None	26950	None	None	2096892	2099109	1	C19orf36	None
19	IZUMO4	ENSG00000099840	ENST00000590985	retained_intron	KNOWN	None	26950	None	None	2096914	2098333	1	C19orf36	None
19	IZUMO4	ENSG00000099840	ENST00000591894	retained_intron	KNOWN	None	26950	None	None	2096997	2098829	1	C19orf36	None
19	IZUMO4	ENSG00000099840	ENST00000588003	processed_transcript	KNOWN	None	26950	None	None	2097006	2099085	1	C19orf36	None
19	IZUMO4	ENSG00000099840	ENST00000593185	retained_intron	KNOWN	None	26950	None	None	2098901	2099587	1	C19orf36	None
19	IZUMO4	ENSG00000099840	ENST00000395296	protein_coding	KNOWN	None	26950	474	157	2096868	2097687	1	C19orf36	None
2	None	ENSG00000217718	ENST00000404822	processed_pseudogene	KNOWN	None	None	None	None	26109833	26110075	-1	None	None
16	OGFOD1	ENSG00000087263	ENST00000566157	protein_coding	KNOWN	CCDS10761	25585	1629	542	56485402	56513012	1	None	KIAA1612, FLJ10826, TPA1
16	OGFOD1	ENSG00000087263	ENST00000569802	nonsense_mediated_decay	KNOWN	None	25585	141	46	56485433	56500095	1	None	KIAA1612, FLJ10826, TPA1
16	OGFOD1	ENSG00000087263	ENST00000562150	protein_coding	NOVEL	None	25585	494	163	56485433	56500115	1	None	KIAA1612, FLJ10826, TPA1
16	OGFOD1	ENSG00000087263	ENST00000561646	protein_coding	PUTATIVE	None	25585	526	174	56485433	56501110	1	None	KIAA1612, FLJ10826, TPA1
16	OGFOD1	ENSG00000087263	ENST00000565682	nonsense_mediated_decay	KNOWN	None	25585	330	109	56485435	56496540	1	None	KIAA1612, FLJ10826, TPA1
16	OGFOD1	ENSG00000087263	ENST00000336111	nonsense_mediated_decay	KNOWN	None	25585	120	39	56485436	56511041	1	None	KIAA1612, FLJ10826, TPA1
16	OGFOD1	ENSG00000087263	ENST00000563733	retained_intron	KNOWN	None	25585	None	None	56485445	56492813	1	None	KIAA1612, FLJ10826, TPA1
16	OGFOD1	ENSG00000087263	ENST00000568172	processed_transcript	KNOWN	None	25585	None	None	56485452	56500180	1	None	KIAA1612, FLJ10826, TPA1
16	OGFOD1	ENSG00000087263	ENST00000569645	retained_intron	KNOWN	None	25585	None	None	56485468	56487605	1	None	KIAA1612, FLJ10826, TPA1
16	OGFOD1	ENSG00000087263	ENST00000568397	protein_coding	NOVEL	None	25585	1500	499	56485474	56510247	1	None	KIAA1612, FLJ10826, TPA1
16	OGFOD1	ENSG00000087263	ENST00000565209	processed_transcript	KNOWN	None	25585	None	None	56492041	56500091	1	None	KIAA1612, FLJ10826, TPA1
6	RN7SL408P	ENSG00000266875	ENST00000577207	misc_RNA	KNOWN	None	46424	None	None	134454711	134455004	1	None	None
6	None	ENSG00000238631	ENST00000458970	snoRNA	NOVEL	None	None	None	None	134527549	134527652	-1	None	None
10	None	ENSG00000228636	ENST00000419836	lincRNA	KNOWN	None	None	None	None	9800746	9801200	-1	None	None
6	RNA5SP218	ENSG00000200058	ENST00000363188	rRNA	KNOWN	None	43118	None	None	134578173	134578281	1	RN5S218	None
2	UQCRHP2	ENSG00000237629	ENST00000415651	processed_pseudogene	KNOWN	None	38045	None	None	26217663	26217950	1	None	None
3	FAIM	ENSG00000158234	ENST00000470889	retained_intron	KNOWN	None	18703	None	None	138327448	138349981	1	None	FLJ10582, FAIM1
3	FAIM	ENSG00000158234	ENST00000338446	protein_coding	KNOWN	CCDS33864	18703	642	213	138327451	138352218	1	None	FLJ10582, FAIM1
3	FAIM	ENSG00000158234	ENST00000360570	protein_coding	KNOWN	CCDS33865	18703	606	201	138327542	138352218	1	None	FLJ10582, FAIM1
3	FAIM	ENSG00000158234	ENST00000393035	protein_coding	KNOWN	CCDS3103	18703	540	179	138327693	138352218	1	None	FLJ10582, FAIM1
3	FAIM	ENSG00000158234	ENST00000491175	retained_intron	KNOWN	None	18703	None	None	138327782	138348174	1	None	FLJ10582, FAIM1
3	FAIM	ENSG00000158234	ENST00000393034	protein_coding	KNOWN	CCDS3103	18703	540	179	138327914	138352211	1	None	FLJ10582, FAIM1
3	FAIM	ENSG00000158234	ENST00000464668	protein_coding	KNOWN	CCDS3103	18703	540	179	138340052	138351945	1	None	FLJ10582, FAIM1
3	FAIM	ENSG00000158234	ENST00000479848	protein_coding	KNOWN	None	18703	385	127	138340067	138347993	1	None	FLJ10582, FAIM1
3	FAIM	ENSG00000158234	ENST00000464912	retained_intron	KNOWN	None	18703	None	None	138340115	138341147	1	None	FLJ10582, FAIM1
6	None	ENSG00000201309	ENST00000364439	misc_RNA	NOVEL	None	None	None	None	134604230	134604331	1	None	None
16	None	ENSG00000205015	ENST00000378340	lincRNA	KNOWN	None	None	None	None	89232791	89235555	1	None	None
2	RNU6-942P	ENSG00000199872	ENST00000363002	snRNA	KNOWN	None	47905	None	None	26265544	26265650	1	None	None
X	MAGEB17	ENSG00000182798	ENST00000400004	protein_coding	KNOWN	CCDS59524	17418	1011	336	16185604	16189587	1	None	None
X	MAGEB17	ENSG00000182798	ENST00000400003	protein_coding	KNOWN	CCDS59524	17418	1011	336	16185836	16189587	1	None	None
X	MAGEB17	ENSG00000182798	ENST00000329538	protein_coding	KNOWN	None	17418	993	330	16188506	16189498	1	None	None
2	None	ENSG00000235440	ENST00000439053	processed_pseudogene	KNOWN	None	None	None	None	26324186	26325005	-1	None	None
10	None	ENSG00000224788	ENST00000429539	lincRNA	KNOWN	None	None	None	None	10100685	10105465	1	None	None
19	RFPL4A	ENSG00000223638	ENST00000434937	protein_coding	NOVEL	CCDS46201	16449	864	287	56270380	56274541	1	RFPL4	RNF210
5	GIN1	ENSG00000145723	ENST00000512248	nonsense_mediated_decay	KNOWN	None	25959	243	80	102421704	102455812	-1	ZH2C2	FLJ20125, GIN-1, TGIN1
5	GIN1	ENSG00000145723	ENST00000399004	protein_coding	KNOWN	CCDS43349	25959	1569	522	102422037	102455855	-1	ZH2C2	FLJ20125, GIN-1, TGIN1
5	GIN1	ENSG00000145723	ENST00000508629	protein_coding	KNOWN	None	25959	669	222	102423517	102455801	-1	ZH2C2	FLJ20125, GIN-1, TGIN1
5	GIN1	ENSG00000145723	ENST00000507478	processed_transcript	KNOWN	None	25959	None	None	102423519	102433397	-1	ZH2C2	FLJ20125, GIN-1, TGIN1
5	GIN1	ENSG00000145723	ENST00000513747	nonsense_mediated_decay	KNOWN	None	25959	243	80	102423830	102455793	-1	ZH2C2	FLJ20125, GIN-1, TGIN1
5	GIN1	ENSG00000145723	ENST00000511400	processed_transcript	KNOWN	None	25959	None	None	102437980	102440325	-1	ZH2C2	FLJ20125, GIN-1, TGIN1
5	GIN1	ENSG00000145723	ENST00000513603	retained_intron	KNOWN	None	25959	None	None	102442268	102455842	-1	ZH2C2	FLJ20125, GIN-1, TGIN1
2	None	ENSG00000231655	ENST00000443818	processed_pseudogene	KNOWN	None	None	None	None	26363132	26364133	-1	None	None
8	DOK2	ENSG00000147443	ENST00000276420	protein_coding	KNOWN	CCDS6016	2991	1239	412	21766384	21771371	-1	None	p56dok-2, Dok-2
8	DOK2	ENSG00000147443	ENST00000524001	retained_intron	KNOWN	None	2991	None	None	21766975	21770078	-1	None	p56dok-2, Dok-2
8	DOK2	ENSG00000147443	ENST00000517422	nonsense_mediated_decay	KNOWN	None	2991	372	123	21767126	21771201	-1	None	p56dok-2, Dok-2
8	DOK2	ENSG00000147443	ENST00000518197	protein_coding	PUTATIVE	None	2991	453	150	21767146	21771174	-1	None	p56dok-2, Dok-2
8	DOK2	ENSG00000147443	ENST00000523932	protein_coding	PUTATIVE	None	2991	699	232	21767340	21771187	-1	None	p56dok-2, Dok-2
8	DOK2	ENSG00000147443	ENST00000522011	retained_intron	KNOWN	None	2991	None	None	21767345	21768586	-1	None	p56dok-2, Dok-2
8	DOK2	ENSG00000147443	ENST00000544659	protein_coding	KNOWN	None	2991	777	258	21766385	21771201	-1	None	p56dok-2, Dok-2
2	C2orf27A	ENSG00000197927	ENST00000355171	protein_coding	KNOWN	CCDS2168	25077	612	203	132479948	132524973	1	C2orf27	None
2	C2orf27A	ENSG00000197927	ENST00000463645	processed_transcript	PUTATIVE	None	25077	None	None	132491229	132509242	1	C2orf27	None
2	C2orf27A	ENSG00000197927	ENST00000466372	processed_transcript	PUTATIVE	None	25077	None	None	132494125	132508336	1	C2orf27	None
2	C2orf27A	ENSG00000197927	ENST00000481510	processed_transcript	PUTATIVE	None	25077	None	None	132515604	132524680	1	C2orf27	None
2	SMARCE1P6	ENSG00000214465	ENST00000398372	processed_pseudogene	KNOWN	None	39737	None	None	26372073	26373600	1	None	None
6	KRT8P42	ENSG00000220378	ENST00000405771	processed_pseudogene	KNOWN	None	39876	None	None	134618135	134619833	-1	None	None
2	None	ENSG00000227133	ENST00000431448	processed_pseudogene	KNOWN	None	None	None	None	26382892	26384005	1	None	None
22	None	ENSG00000178248	ENST00000320372	lincRNA	KNOWN	None	None	None	None	23804273	23829167	-1	None	None
22	None	ENSG00000178248	ENST00000539460	lincRNA	KNOWN	None	None	None	None	23812181	23829093	-1	None	None
HSCHR6_MHC_SSTO	CSNK2B	ENSG00000224774	ENST00000432290	protein_coding	KNOWN	None	2460	705	234	31622960	31627794	1	None	None
HSCHR6_MHC_SSTO	CSNK2B	ENSG00000224774	ENST00000451917	protein_coding	KNOWN	None	2460	648	215	31623788	31627794	1	None	None
HSCHR6_MHC_SSTO	CSNK2B	ENSG00000224774	ENST00000493079	retained_intron	KNOWN	None	2460	None	None	31623805	31627794	1	None	None
HSCHR6_MHC_SSTO	CSNK2B	ENSG00000224774	ENST00000469352	retained_intron	KNOWN	None	2460	None	None	31623811	31625965	1	None	None
HSCHR6_MHC_SSTO	CSNK2B	ENSG00000224774	ENST00000460765	retained_intron	KNOWN	None	2460	None	None	31623818	31627188	1	None	None
HSCHR6_MHC_SSTO	CSNK2B	ENSG00000224774	ENST00000476022	processed_transcript	KNOWN	None	2460	None	None	31623822	31627794	1	None	None
HSCHR6_MHC_SSTO	CSNK2B	ENSG00000224774	ENST00000437010	protein_coding	KNOWN	None	2460	687	228	31623826	31631270	1	None	None
HSCHR6_MHC_SSTO	CSNK2B	ENSG00000224774	ENST00000412802	protein_coding	KNOWN	None	2460	648	215	31624016	31627794	1	None	None
HSCHR6_MHC_SSTO	CSNK2B	ENSG00000224774	ENST00000453234	protein_coding	KNOWN	None	2460	648	215	31624079	31627794	1	None	None
2	PPIL1P1	ENSG00000237951	ENST00000423936	processed_pseudogene	KNOWN	None	20865	None	None	26384925	26385423	1	None	None
4	None	ENSG00000249970	ENST00000511117	processed_pseudogene	KNOWN	None	None	None	None	74409539	74409730	1	None	None
HSCHR6_MHC_COX	ZBTB22	ENSG00000229253	ENST00000416097	protein_coding	KNOWN	None	13085	1905	634	33203803	33207123	-1	ZNF297	BING1, ZNF297A, fruitless, fru, ZBTB22A
HSCHR6_MHC_COX	ZBTB22	ENSG00000229253	ENST00000454866	protein_coding	KNOWN	None	13085	448	148	33205854	33207329	-1	ZNF297	BING1, ZNF297A, fruitless, fru, ZBTB22A
HSCHR6_MHC_COX	ZBTB22	ENSG00000229253	ENST00000548019	protein_coding	KNOWN	None	13085	1905	634	33203791	33207330	-1	ZNF297	BING1, ZNF297A, fruitless, fru, ZBTB22A
4	None	ENSG00000228277	ENST00000436089	lincRNA	KNOWN	None	None	None	None	74576019	74580244	1	None	None
2	None	ENSG00000225378	ENST00000420852	antisense	KNOWN	None	None	None	None	26894122	26897332	-1	None	None
17	CDK5R1	ENSG00000176749	ENST00000313401	protein_coding	KNOWN	CCDS11273	1775	924	307	30813637	30818274	1	None	p35nck5a, Nck5a
17	CDK5R1	ENSG00000176749	ENST00000584792	protein_coding	PUTATIVE	None	1775	347	114	30814814	30815637	1	None	p35nck5a, Nck5a
17	CDK5R1	ENSG00000176749	ENST00000584716	nonsense_mediated_decay	KNOWN	None	1775	347	114	30814814	30816538	1	None	p35nck5a, Nck5a
4	None	ENSG00000249051	ENST00000508565	processed_pseudogene	KNOWN	None	None	None	None	74643353	74643777	-1	None	None
19	RFPL4AL1	ENSG00000229292	ENST00000341750	protein_coding	NOVEL	CCDS59425	45147	864	287	56280507	56284545	1	None	None
2	None	ENSG00000225024	ENST00000418887	processed_pseudogene	KNOWN	None	None	None	None	26901087	26901378	-1	None	None
4	PPBPP1	ENSG00000250550	ENST00000510807	transcribed_unprocessed_pseudogene	KNOWN	None	9241	None	None	74713583	74714546	1	PPBPL1	TGB2
10	ENTPD1-AS1	ENSG00000226688	ENST00000416301	antisense	KNOWN	None	45203	None	None	97512963	97849971	-1	None	None
10	ENTPD1-AS1	ENSG00000226688	ENST00000451364	antisense	KNOWN	None	45203	None	None	97621070	97849912	-1	None	None
10	ENTPD1-AS1	ENSG00000226688	ENST00000449419	antisense	KNOWN	None	45203	None	None	97634841	97667532	-1	None	None
10	ENTPD1-AS1	ENSG00000226688	ENST00000452942	antisense	KNOWN	None	45203	None	None	97635039	97667639	-1	None	None
10	ENTPD1-AS1	ENSG00000226688	ENST00000452728	antisense	KNOWN	None	45203	None	None	97635145	97849955	-1	None	None
10	ENTPD1-AS1	ENSG00000226688	ENST00000414006	antisense	KNOWN	None	45203	None	None	97635283	97667620	-1	None	None
10	ENTPD1-AS1	ENSG00000226688	ENST00000427300	antisense	KNOWN	None	45203	None	None	97664413	97667640	-1	None	None
10	ENTPD1-AS1	ENSG00000226688	ENST00000454638	antisense	KNOWN	None	45203	None	None	97678695	97849969	-1	None	None
10	ENTPD1-AS1	ENSG00000226688	ENST00000458228	antisense	KNOWN	None	45203	None	None	97778477	97849982	-1	None	None
10	ENTPD1-AS1	ENSG00000226688	ENST00000449197	antisense	KNOWN	None	45203	None	None	97781035	97802602	-1	None	None
10	ENTPD1-AS1	ENSG00000226688	ENST00000427846	antisense	KNOWN	None	45203	None	None	97802235	97849995	-1	None	None
10	ENTPD1-AS1	ENSG00000226688	ENST00000444375	antisense	KNOWN	None	45203	None	None	97848666	97849956	-1	None	None
2	CDKN2AIPNLP2	ENSG00000145835	ENST00000274516	processed_pseudogene	KNOWN	None	39855	None	None	27050037	27050388	-1	None	None
19	HNRNPL	ENSG00000104824	ENST00000221419	protein_coding	KNOWN	CCDS33015	5045	1770	589	39327028	39340973	-1	HNRPL	None
19	HNRNPL	ENSG00000104824	ENST00000595443	retained_intron	KNOWN	None	5045	None	None	39327029	39330304	-1	HNRPL	None
19	HNRNPL	ENSG00000104824	ENST00000595804	retained_intron	KNOWN	None	5045	None	None	39327035	39328225	-1	HNRPL	None
19	HNRNPL	ENSG00000104824	ENST00000601449	protein_coding	PUTATIVE	None	5045	1591	529	39327035	39341795	-1	HNRPL	None
19	HNRNPL	ENSG00000104824	ENST00000388749	nonsense_mediated_decay	KNOWN	None	5045	540	179	39327035	39342987	-1	HNRPL	None
19	HNRNPL	ENSG00000104824	ENST00000595164	retained_intron	KNOWN	None	5045	None	None	39327038	39332389	-1	HNRPL	None
19	HNRNPL	ENSG00000104824	ENST00000597731	retained_intron	KNOWN	None	5045	None	None	39327038	39332968	-1	HNRPL	None
19	HNRNPL	ENSG00000104824	ENST00000600873	protein_coding	KNOWN	CCDS33016	5045	1371	456	39327275	39342978	-1	HNRPL	None
19	HNRNPL	ENSG00000104824	ENST00000601664	retained_intron	KNOWN	None	5045	None	None	39329292	39330818	-1	HNRPL	None
19	HNRNPL	ENSG00000104824	ENST00000598985	retained_intron	KNOWN	None	5045	None	None	39330943	39342965	-1	HNRPL	None
19	HNRNPL	ENSG00000104824	ENST00000594120	retained_intron	KNOWN	None	5045	None	None	39331199	39336330	-1	HNRPL	None
19	HNRNPL	ENSG00000104824	ENST00000601047	retained_intron	KNOWN	None	5045	None	None	39334011	39342978	-1	HNRPL	None
19	HNRNPL	ENSG00000104824	ENST00000600233	protein_coding	PUTATIVE	None	5045	659	218	39334497	39340008	-1	HNRPL	None
19	HNRNPL	ENSG00000104824	ENST00000601813	protein_coding	PUTATIVE	None	5045	593	196	39334665	39340580	-1	HNRPL	None
19	HNRNPL	ENSG00000104824	ENST00000600741	retained_intron	KNOWN	None	5045	None	None	39336307	39338272	-1	HNRPL	None
10	TCEB1P3	ENSG00000229919	ENST00000439303	processed_pseudogene	KNOWN	None	29457	None	None	10216193	10216540	1	None	dJ254P11.1
10	TCEB1P3	ENSG00000229919	ENST00000535261	processed_pseudogene	KNOWN	None	29457	None	None	10216193	10216528	1	None	dJ254P11.1
2	C2orf27B	ENSG00000186825	ENST00000303798	protein_coding	KNOWN	CCDS2169	33824	630	209	132552534	132559234	-1	None	MGC50273
1	RPS6KA1	ENSG00000117676	ENST00000525525	nonsense_mediated_decay	KNOWN	None	10430	171	56	26856252	26873474	1	None	RSK, RSK1, HU-1
1	RPS6KA1	ENSG00000117676	ENST00000526040	nonsense_mediated_decay	KNOWN	None	10430	159	52	26856252	26879952	1	None	RSK, RSK1, HU-1
1	RPS6KA1	ENSG00000117676	ENST00000374168	protein_coding	KNOWN	CCDS284	10430	2208	735	26856258	26901516	1	None	RSK, RSK1, HU-1
1	RPS6KA1	ENSG00000117676	ENST00000524436	retained_intron	KNOWN	None	10430	None	None	26856266	26877994	1	None	RSK, RSK1, HU-1
1	RPS6KA1	ENSG00000117676	ENST00000374166	protein_coding	NOVEL	None	10430	2175	724	26856269	26901505	1	None	RSK, RSK1, HU-1
1	RPS6KA1	ENSG00000117676	ENST00000526792	protein_coding	PUTATIVE	None	10430	1932	643	26857709	26900922	1	None	RSK, RSK1, HU-1
1	RPS6KA1	ENSG00000117676	ENST00000529454	protein_coding	PUTATIVE	None	10430	337	111	26857819	26880742	1	None	RSK, RSK1, HU-1
1	RPS6KA1	ENSG00000117676	ENST00000530003	protein_coding	PUTATIVE	None	10430	2160	719	26869603	26901505	1	None	RSK, RSK1, HU-1
1	RPS6KA1	ENSG00000117676	ENST00000366866	nonsense_mediated_decay	KNOWN	None	10430	336	111	26869621	26879917	1	None	RSK, RSK1, HU-1
1	RPS6KA1	ENSG00000117676	ENST00000531113	retained_intron	KNOWN	None	10430	None	None	26869653	26898724	1	None	RSK, RSK1, HU-1
1	RPS6KA1	ENSG00000117676	ENST00000374163	nonsense_mediated_decay	KNOWN	None	10430	615	204	26872333	26901521	1	None	RSK, RSK1, HU-1
1	RPS6KA1	ENSG00000117676	ENST00000530607	retained_intron	KNOWN	None	10430	None	None	26872336	26878077	1	None	RSK, RSK1, HU-1
1	RPS6KA1	ENSG00000117676	ENST00000531382	protein_coding	KNOWN	CCDS30649	10430	2235	744	26872343	26900767	1	None	RSK, RSK1, HU-1
1	RPS6KA1	ENSG00000117676	ENST00000525582	retained_intron	KNOWN	None	10430	None	None	26873391	26874081	1	None	RSK, RSK1, HU-1
1	RPS6KA1	ENSG00000117676	ENST00000527264	retained_intron	KNOWN	None	10430	None	None	26873734	26880938	1	None	RSK, RSK1, HU-1
1	RPS6KA1	ENSG00000117676	ENST00000474934	retained_intron	KNOWN	None	10430	None	None	26877937	26880626	1	None	RSK, RSK1, HU-1
1	RPS6KA1	ENSG00000117676	ENST00000488985	processed_transcript	KNOWN	None	10430	None	None	26881690	26883527	1	None	RSK, RSK1, HU-1
1	RPS6KA1	ENSG00000117676	ENST00000403732	protein_coding	NOVEL	None	10430	498	165	26883534	26897999	1	None	RSK, RSK1, HU-1
1	RPS6KA1	ENSG00000117676	ENST00000530305	retained_intron	KNOWN	None	10430	None	None	26897720	26898512	1	None	RSK, RSK1, HU-1
1	RPS6KA1	ENSG00000117676	ENST00000438977	protein_coding	PUTATIVE	None	10430	348	115	26898761	26901225	1	None	RSK, RSK1, HU-1
1	RPS6KA1	ENSG00000117676	ENST00000374162	protein_coding	KNOWN	None	10430	1932	643	26857819	26900922	1	None	RSK, RSK1, HU-1
6	PPP1R18	ENSG00000146112	ENST00000467662	processed_transcript	KNOWN	None	29413	None	None	30644166	30654935	-1	KIAA1949	phostensin
6	PPP1R18	ENSG00000146112	ENST00000488324	processed_transcript	KNOWN	None	29413	None	None	30644166	30654970	-1	KIAA1949	phostensin
6	PPP1R18	ENSG00000146112	ENST00000399199	protein_coding	KNOWN	CCDS43444	29413	1842	613	30644166	30654993	-1	KIAA1949	phostensin
6	PPP1R18	ENSG00000146112	ENST00000274853	protein_coding	KNOWN	CCDS43444	29413	1842	613	30644166	30655672	-1	KIAA1949	phostensin
2	None	ENSG00000230286	ENST00000416226	antisense	KNOWN	None	None	None	None	27173176	27232675	-1	None	None
12	BCAT1	ENSG00000060982	ENST00000261192	protein_coding	KNOWN	CCDS44845	976	1161	386	24964295	25102393	-1	BCT1	None
12	BCAT1	ENSG00000060982	ENST00000538118	protein_coding	PUTATIVE	CCDS53760	976	1158	385	24967737	25055230	-1	BCT1	None
12	BCAT1	ENSG00000060982	ENST00000342945	protein_coding	NOVEL	CCDS53762	976	978	325	24967755	25102020	-1	BCT1	None
12	BCAT1	ENSG00000060982	ENST00000539282	protein_coding	PUTATIVE	CCDS53761	976	1197	398	24970415	25056009	-1	BCT1	None
12	BCAT1	ENSG00000060982	ENST00000543099	processed_transcript	PUTATIVE	None	976	None	None	24970590	24983262	-1	BCT1	None
12	BCAT1	ENSG00000060982	ENST00000539780	protein_coding	NOVEL	CCDS53763	976	1050	349	24970743	25101977	-1	BCT1	None
12	BCAT1	ENSG00000060982	ENST00000544418	processed_transcript	KNOWN	None	976	None	None	24986745	25055322	-1	BCT1	None
12	BCAT1	ENSG00000060982	ENST00000546285	protein_coding	PUTATIVE	None	976	432	143	25031470	25101983	-1	BCT1	None
12	BCAT1	ENSG00000060982	ENST00000355164	processed_transcript	PUTATIVE	None	976	None	None	25098365	25101995	-1	BCT1	None
2	None	ENSG00000205500	ENST00000411685	antisense	KNOWN	None	None	None	None	27207644	27236841	-1	None	None
2	None	ENSG00000205500	ENST00000455081	antisense	KNOWN	None	None	None	None	27207646	27237456	-1	None	None
2	None	ENSG00000205500	ENST00000380387	antisense	KNOWN	None	None	None	None	27234637	27237480	-1	None	None
2	None	ENSG00000205500	ENST00000423923	retained_intron	KNOWN	None	None	None	None	27236678	27237429	-1	None	None
14	PSMA3	ENSG00000100567	ENST00000216455	protein_coding	KNOWN	CCDS9731	9532	768	255	58711549	58738725	1	None	HC8
14	PSMA3	ENSG00000100567	ENST00000554812	retained_intron	KNOWN	None	9532	None	None	58711564	58734857	1	None	HC8
14	PSMA3	ENSG00000100567	ENST00000553665	retained_intron	KNOWN	None	9532	None	None	58711574	58725172	1	None	HC8
14	PSMA3	ENSG00000100567	ENST00000557087	nonsense_mediated_decay	KNOWN	None	9532	111	36	58711584	58737716	1	None	HC8
14	PSMA3	ENSG00000100567	ENST00000555931	nonsense_mediated_decay	KNOWN	None	9532	165	54	58711591	58734222	1	None	HC8
14	PSMA3	ENSG00000100567	ENST00000554456	processed_transcript	KNOWN	None	9532	None	None	58711592	58712196	1	None	HC8
14	PSMA3	ENSG00000100567	ENST00000412908	protein_coding	KNOWN	CCDS45113	9532	747	248	58711595	58738730	1	None	HC8
14	PSMA3	ENSG00000100567	ENST00000555743	retained_intron	KNOWN	None	9532	None	None	58711597	58734246	1	None	HC8
14	PSMA3	ENSG00000100567	ENST00000557508	protein_coding	PUTATIVE	None	9532	543	180	58711622	58738725	1	None	HC8
14	PSMA3	ENSG00000100567	ENST00000556321	retained_intron	KNOWN	None	9532	None	None	58714507	58724799	1	None	HC8
14	PSMA3	ENSG00000100567	ENST00000553677	protein_coding	NOVEL	None	9532	252	83	58724643	58738724	1	None	HC8
14	PSMA3	ENSG00000100567	ENST00000554207	retained_intron	KNOWN	None	9532	None	None	58730242	58734514	1	None	HC8
14	PSMA3	ENSG00000100567	ENST00000557290	retained_intron	KNOWN	None	9532	None	None	58736693	58738722	1	None	HC8
3	ARGFX	ENSG00000186103	ENST00000334384	protein_coding	KNOWN	CCDS33834	30146	948	315	121289551	121305481	1	None	None
3	EMC3	ENSG00000125037	ENST00000245046	protein_coding	KNOWN	CCDS2594	23999	786	261	10004221	10028804	-1	TMEM111	None
3	EMC3	ENSG00000125037	ENST00000487465	retained_intron	KNOWN	None	23999	None	None	10010328	10028522	-1	TMEM111	None
3	EMC3	ENSG00000125037	ENST00000497557	processed_transcript	KNOWN	None	23999	None	None	10011413	10019981	-1	TMEM111	None
3	EMC3	ENSG00000125037	ENST00000429759	protein_coding	KNOWN	None	23999	612	203	10015190	10028366	-1	TMEM111	None
3	EMC3	ENSG00000125037	ENST00000470827	protein_coding	KNOWN	None	23999	235	77	10018713	10052800	-1	TMEM111	None
2	AGBL5-AS1	ENSG00000231636	ENST00000444217	antisense	KNOWN	None	41133	None	None	27272551	27273132	-1	None	None
HSCHR6_MHC_QBL	VARS	ENSG00000227686	ENST00000467893	retained_intron	KNOWN	None	12651	None	None	31749636	31750304	-1	VARS2	None
HSCHR6_MHC_QBL	VARS	ENSG00000227686	ENST00000491744	retained_intron	KNOWN	None	12651	None	None	31749636	31750986	-1	VARS2	None
HSCHR6_MHC_QBL	VARS	ENSG00000227686	ENST00000424974	protein_coding	KNOWN	None	12651	1100	365	31749636	31753979	-1	VARS2	None
HSCHR6_MHC_QBL	VARS	ENSG00000227686	ENST00000428505	protein_coding	KNOWN	None	12651	522	173	31751012	31753525	-1	VARS2	None
19	None	ENSG00000213777	ENST00000509280	transcribed_processed_pseudogene	KNOWN	None	None	None	None	54006646	54007532	1	None	None
19	None	ENSG00000213777	ENST00000597004	processed_transcript	KNOWN	None	None	None	None	54007073	54015941	1	None	None
19	None	ENSG00000213777	ENST00000601966	processed_transcript	KNOWN	None	None	None	None	54007222	54015665	1	None	None
2	None	ENSG00000272056	ENST00000607407	antisense	KNOWN	None	None	None	None	27276486	27277144	-1	None	None
6	None	ENSG00000217268	ENST00000406296	processed_pseudogene	KNOWN	None	None	None	None	74714236	74714528	-1	None	None
X	None	ENSG00000230100	ENST00000422410	lincRNA	KNOWN	None	None	None	None	48193110	48193874	-1	None	None
2	AGBL5-IT1	ENSG00000229122	ENST00000411862	sense_intronic	KNOWN	None	41484	None	None	27283906	27284683	1	None	None
3	FBXO40	ENSG00000163833	ENST00000338040	protein_coding	KNOWN	CCDS33835	29816	2130	709	121311966	121349139	1	None	KIAA1195, Fbx40
X	None	ENSG00000270747	ENST00000603331	processed_pseudogene	KNOWN	None	None	None	None	48196334	48196604	-1	None	None
2	None	ENSG00000272148	ENST00000607659	antisense	KNOWN	None	None	None	None	27285296	27285775	-1	None	None
2	ANKRD30BL	ENSG00000163046	ENST00000465868	processed_transcript	KNOWN	None	35167	None	None	132905164	132910311	-1	NCRNA00164, ANKRD30BP3	None
2	ANKRD30BL	ENSG00000163046	ENST00000470729	processed_transcript	KNOWN	None	35167	None	None	132905164	133015542	-1	NCRNA00164, ANKRD30BP3	None
2	ANKRD30BL	ENSG00000163046	ENST00000481691	retained_intron	KNOWN	None	35167	None	None	132905480	132919326	-1	NCRNA00164, ANKRD30BP3	None
2	ANKRD30BL	ENSG00000163046	ENST00000409867	protein_coding	NOVEL	None	35167	777	258	132905480	132919528	-1	NCRNA00164, ANKRD30BP3	None
2	ANKRD30BL	ENSG00000163046	ENST00000295181	nonsense_mediated_decay	KNOWN	None	35167	756	251	132905482	132919528	-1	NCRNA00164, ANKRD30BP3	None
2	ANKRD30BL	ENSG00000163046	ENST00000471048	processed_transcript	KNOWN	None	35167	None	None	132911083	132919156	-1	NCRNA00164, ANKRD30BP3	None
X	None	ENSG00000225055	ENST00000452266	processed_pseudogene	KNOWN	None	None	None	None	48216560	48218930	1	None	None
6	None	ENSG00000223786	ENST00000435946	lincRNA	KNOWN	None	None	None	None	74779167	75400443	1	None	None
2	None	ENSG00000236099	ENST00000436954	unprocessed_pseudogene	KNOWN	None	None	None	None	27381431	27382097	-1	None	None
4	None	ENSG00000249522	ENST00000504408	processed_pseudogene	KNOWN	None	None	None	None	3912010	3912331	1	None	None
3	KCNAB1	ENSG00000169282	ENST00000478609	retained_intron	KNOWN	None	6228	None	None	155755490	156171049	1	None	AKR6A3, KCNA1B, hKvBeta3, Kvb1.3, hKvb3
3	KCNAB1	ENSG00000169282	ENST00000477912	processed_transcript	KNOWN	None	6228	None	None	155755490	156192552	1	None	AKR6A3, KCNA1B, hKvBeta3, Kvb1.3, hKvb3
3	KCNAB1	ENSG00000169282	ENST00000472028	protein_coding	PUTATIVE	None	6228	386	127	155755490	156232213	1	None	AKR6A3, KCNA1B, hKvBeta3, Kvb1.3, hKvb3
3	KCNAB1	ENSG00000169282	ENST00000490337	protein_coding	KNOWN	CCDS3174	6228	1260	419	155838337	156256334	1	None	AKR6A3, KCNA1B, hKvBeta3, Kvb1.3, hKvb3
3	KCNAB1	ENSG00000169282	ENST00000389636	protein_coding	NOVEL	None	6228	1173	390	155838367	156255135	1	None	AKR6A3, KCNA1B, hKvBeta3, Kvb1.3, hKvb3
3	KCNAB1	ENSG00000169282	ENST00000471742	protein_coding	KNOWN	CCDS3175	6228	1227	408	155860751	156256393	1	None	AKR6A3, KCNA1B, hKvBeta3, Kvb1.3, hKvb3
3	KCNAB1	ENSG00000169282	ENST00000475456	protein_coding	PUTATIVE	None	6228	532	176	155991342	156232197	1	None	AKR6A3, KCNA1B, hKvBeta3, Kvb1.3, hKvb3
3	KCNAB1	ENSG00000169282	ENST00000302490	protein_coding	KNOWN	CCDS33882	6228	1206	401	156008826	156256545	1	None	AKR6A3, KCNA1B, hKvBeta3, Kvb1.3, hKvb3
3	KCNAB1	ENSG00000169282	ENST00000389634	protein_coding	NOVEL	None	6228	1119	372	156009697	156254536	1	None	AKR6A3, KCNA1B, hKvBeta3, Kvb1.3, hKvb3
3	KCNAB1	ENSG00000169282	ENST00000489036	nonsense_mediated_decay	KNOWN	None	6228	246	81	156009709	156232180	1	None	AKR6A3, KCNA1B, hKvBeta3, Kvb1.3, hKvb3
3	KCNAB1	ENSG00000169282	ENST00000476362	processed_transcript	KNOWN	None	6228	None	None	156173782	156232194	1	None	AKR6A3, KCNA1B, hKvBeta3, Kvb1.3, hKvb3
3	KCNAB1	ENSG00000169282	ENST00000461717	processed_transcript	KNOWN	None	6228	None	None	156174713	156232936	1	None	AKR6A3, KCNA1B, hKvBeta3, Kvb1.3, hKvb3
3	KCNAB1	ENSG00000169282	ENST00000497291	processed_transcript	KNOWN	None	6228	None	None	156174999	156255030	1	None	AKR6A3, KCNA1B, hKvBeta3, Kvb1.3, hKvb3
3	KCNAB1	ENSG00000169282	ENST00000496923	processed_transcript	PUTATIVE	None	6228	None	None	156175267	156178336	1	None	AKR6A3, KCNA1B, hKvBeta3, Kvb1.3, hKvb3
11	HBD	ENSG00000223609	ENST00000292901	protein_coding	PUTATIVE	None	4829	426	141	5253908	5255713	-1	None	None
11	HBD	ENSG00000223609	ENST00000380299	protein_coding	KNOWN	CCDS31376	4829	444	147	5254068	5255878	-1	None	None
11	HBD	ENSG00000223609	ENST00000417377	protein_coding	PUTATIVE	None	4829	255	84	5254160	5255713	-1	None	None
11	HBD	ENSG00000223609	ENST00000429817	protein_coding	KNOWN	None	4829	313	103	5255223	5256600	-1	None	None
6	None	ENSG00000217178	ENST00000404728	processed_pseudogene	KNOWN	None	None	None	None	74991982	74992376	1	None	None
6	None	ENSG00000272243	ENST00000432484	lincRNA	KNOWN	None	None	None	None	75239964	75443995	-1	None	None
6	None	ENSG00000272243	ENST00000436672	lincRNA	KNOWN	None	None	None	None	75303895	75304929	-1	None	None
6	None	ENSG00000272243	ENST00000607807	lincRNA	KNOWN	None	None	None	None	75304299	75355356	-1	None	None
4	RN7SL253P	ENSG00000241652	ENST00000476759	misc_RNA	KNOWN	None	46269	None	None	174062794	174063087	1	None	None
6	SNORD117	ENSG00000201785	ENST00000364915	snoRNA	KNOWN	None	32742	None	None	31504151	31504226	-1	None	U83
4	MIR548T	ENSG00000221296	ENST00000408369	miRNA	KNOWN	None	38298	None	None	174189311	174189384	1	None	hsa-mir-548t
6	SNORD84	ENSG00000265236	ENST00000584275	snoRNA	KNOWN	None	32743	None	None	31508878	31508955	-1	None	U84
2	None	ENSG00000234945	ENST00000416453	antisense	KNOWN	None	None	None	None	27558409	27560692	1	None	None
2	None	ENSG00000234945	ENST00000585326	antisense	KNOWN	None	None	None	None	27558644	27560311	1	None	None
2	None	ENSG00000234945	ENST00000592265	antisense	KNOWN	None	None	None	None	27558812	27560326	1	None	None
2	None	ENSG00000234945	ENST00000590383	antisense	KNOWN	None	None	None	None	27560078	27565466	1	None	None
2	None	ENSG00000234945	ENST00000590754	antisense	KNOWN	None	None	None	None	27560090	27560651	1	None	None
2	None	ENSG00000234945	ENST00000585645	antisense	KNOWN	None	None	None	None	27560090	27560667	1	None	None
2	None	ENSG00000234945	ENST00000587586	antisense	KNOWN	None	None	None	None	27560090	27562875	1	None	None
2	None	ENSG00000234945	ENST00000589232	antisense	KNOWN	None	None	None	None	27560090	27563104	1	None	None
2	None	ENSG00000234945	ENST00000588707	antisense	KNOWN	None	None	None	None	27560090	27563691	1	None	None
2	None	ENSG00000234945	ENST00000589853	antisense	KNOWN	None	None	None	None	27560090	27564631	1	None	None
X	CTPS2	ENSG00000047230	ENST00000359276	protein_coding	KNOWN	CCDS14175	2520	1761	586	16606429	16730775	-1	None	None
X	CTPS2	ENSG00000047230	ENST00000380241	protein_coding	KNOWN	CCDS14175	2520	1761	586	16606429	16731059	-1	None	None
X	CTPS2	ENSG00000047230	ENST00000483053	processed_transcript	KNOWN	None	2520	None	None	16607672	16609168	-1	None	None
X	CTPS2	ENSG00000047230	ENST00000455276	protein_coding	KNOWN	None	2520	398	131	16656610	16688756	-1	None	None
X	CTPS2	ENSG00000047230	ENST00000443824	protein_coding	KNOWN	CCDS14175	2520	1761	586	16606126	16730340	-1	None	None
6	DDX39B-AS1	ENSG00000234006	ENST00000420520	antisense	KNOWN	None	39771	None	None	31510081	31510904	1	None	None
6	DDX39B-AS1	ENSG00000234006	ENST00000416684	antisense	KNOWN	None	39771	None	None	31510150	31510915	1	None	None
18	ACAA2	ENSG00000167315	ENST00000285093	protein_coding	KNOWN	CCDS11939	83	1194	397	47309869	47340330	-1	None	DSAEC
18	ACAA2	ENSG00000167315	ENST00000589432	protein_coding	PUTATIVE	None	83	1029	342	47309873	47339412	-1	None	DSAEC
18	ACAA2	ENSG00000167315	ENST00000591171	retained_intron	KNOWN	None	83	None	None	47309875	47312989	-1	None	DSAEC
18	ACAA2	ENSG00000167315	ENST00000587994	protein_coding	NOVEL	None	83	1185	394	47309875	47340323	-1	None	DSAEC
18	ACAA2	ENSG00000167315	ENST00000586485	protein_coding	PUTATIVE	None	83	372	123	47320690	47340307	-1	None	DSAEC
18	ACAA2	ENSG00000167315	ENST00000585948	protein_coding	PUTATIVE	None	83	253	83	47322146	47337901	-1	None	DSAEC
18	ACAA2	ENSG00000167315	ENST00000586100	protein_coding	PUTATIVE	None	83	218	71	47322181	47340323	-1	None	DSAEC
6	PHACTR2	ENSG00000112419	ENST00000367584	protein_coding	NOVEL	None	20956	1869	622	143857982	144145301	1	C6orf56	KIAA0680
6	PHACTR2	ENSG00000112419	ENST00000427704	protein_coding	KNOWN	CCDS47492	20956	1905	634	143929317	144152322	1	C6orf56	KIAA0680
6	PHACTR2	ENSG00000112419	ENST00000305766	protein_coding	KNOWN	CCDS43512	20956	1665	554	143929322	144144887	1	C6orf56	KIAA0680
6	PHACTR2	ENSG00000112419	ENST00000440869	protein_coding	KNOWN	CCDS47493	20956	1938	645	143999102	144145258	1	C6orf56	KIAA0680
6	PHACTR2	ENSG00000112419	ENST00000367582	protein_coding	KNOWN	CCDS47494	20956	1698	565	143999120	144147314	1	C6orf56	KIAA0680
6	PHACTR2	ENSG00000112419	ENST00000402863	retained_intron	KNOWN	None	20956	None	None	143999156	144075275	1	C6orf56	KIAA0680
6	PHACTR2	ENSG00000112419	ENST00000451827	protein_coding	NOVEL	None	20956	535	177	143999161	144086637	1	C6orf56	KIAA0680
6	PHACTR2	ENSG00000112419	ENST00000542769	protein_coding	NOVEL	None	20956	500	165	143999185	144086611	1	C6orf56	KIAA0680
6	PHACTR2	ENSG00000112419	ENST00000397980	protein_coding	PUTATIVE	None	20956	462	153	143999205	144076636	1	C6orf56	KIAA0680
6	PHACTR2	ENSG00000112419	ENST00000545919	retained_intron	KNOWN	None	20956	None	None	143999310	144033473	1	C6orf56	KIAA0680
6	PHACTR2	ENSG00000112419	ENST00000420771	retained_intron	KNOWN	None	20956	None	None	144070065	144086802	1	C6orf56	KIAA0680
6	PHACTR2	ENSG00000112419	ENST00000536245	retained_intron	KNOWN	None	20956	None	None	144095305	144110501	1	C6orf56	KIAA0680
6	UQCRHP1	ENSG00000230622	ENST00000424609	processed_pseudogene	KNOWN	None	31341	None	None	31578860	31579133	-1	UQCRHP5	Em:AF129756.18
17	CBX1	ENSG00000108468	ENST00000393408	protein_coding	KNOWN	CCDS11525	1551	558	185	46147414	46178560	-1	None	HP1Hs-beta, M31, MOD1, CBX, HP1-BETA
17	CBX1	ENSG00000108468	ENST00000225603	protein_coding	KNOWN	CCDS11525	1551	558	185	46147414	46178883	-1	None	HP1Hs-beta, M31, MOD1, CBX, HP1-BETA
17	CBX1	ENSG00000108468	ENST00000581003	protein_coding	KNOWN	None	1551	521	172	46148834	46178741	-1	None	HP1Hs-beta, M31, MOD1, CBX, HP1-BETA
17	CBX1	ENSG00000108468	ENST00000402583	protein_coding	NOVEL	None	1551	506	167	46148861	46178664	-1	None	HP1Hs-beta, M31, MOD1, CBX, HP1-BETA
17	CBX1	ENSG00000108468	ENST00000495350	protein_coding	PUTATIVE	None	1551	417	138	46152288	46178649	-1	None	HP1Hs-beta, M31, MOD1, CBX, HP1-BETA
17	CBX1	ENSG00000108468	ENST00000444685	protein_coding	KNOWN	None	1551	330	109	46152451	46177944	-1	None	HP1Hs-beta, M31, MOD1, CBX, HP1-BETA
2	None	ENSG00000234072	ENST00000447070	antisense	KNOWN	None	None	None	None	27579113	27583123	1	None	None
2	None	ENSG00000234072	ENST00000453289	antisense	KNOWN	None	None	None	None	27580007	27581057	1	None	None
2	None	ENSG00000234072	ENST00000412749	antisense	KNOWN	None	None	None	None	27580055	27590489	1	None	None
5	None	ENSG00000205644	ENST00000478174	processed_pseudogene	KNOWN	None	None	None	None	64711180	64712049	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000258145	ENST00000553262	protein_coding	NOVEL	None	None	762	253	32768066	32768971	-1	None	None
HSCHR6_MHC_MANN	None	ENSG00000258145	ENST00000550127	protein_coding	NOVEL	None	None	507	168	32768190	32777985	-1	None	None
20	ZNF512B	ENSG00000196700	ENST00000369888	protein_coding	KNOWN	CCDS13548	29212	2679	892	62588055	62601218	-1	None	GM632, MGC149845, MGC149846
20	ZNF512B	ENSG00000196700	ENST00000450537	protein_coding	KNOWN	CCDS13548	29212	2679	892	62588055	62680113	-1	None	GM632, MGC149845, MGC149846
20	ZNF512B	ENSG00000196700	ENST00000217130	protein_coding	KNOWN	CCDS13548	29212	2679	892	62588055	62669938	-1	None	GM632, MGC149845, MGC149846
2	FTH1P3	ENSG00000213453	ENST00000394290	processed_pseudogene	KNOWN	None	3990	None	None	27615651	27616234	-1	FTHL3	None
15	PCSK6	ENSG00000140479	ENST00000558864	protein_coding	PUTATIVE	None	8569	232	76	101840818	101853607	-1	PACE4	SPC4
15	PCSK6	ENSG00000140479	ENST00000558951	protein_coding	PUTATIVE	None	8569	378	125	101840818	101906467	-1	PACE4	SPC4
15	PCSK6	ENSG00000140479	ENST00000561177	processed_transcript	KNOWN	None	8569	None	None	101844133	102030042	-1	PACE4	SPC4
15	PCSK6	ENSG00000140479	ENST00000398185	protein_coding	NOVEL	None	8569	2394	797	101844134	101983868	-1	PACE4	SPC4
15	PCSK6	ENSG00000140479	ENST00000559499	retained_intron	KNOWN	None	8569	None	None	101844136	101849317	-1	PACE4	SPC4
15	PCSK6	ENSG00000140479	ENST00000560921	processed_transcript	KNOWN	None	8569	None	None	101844139	102029947	-1	PACE4	SPC4
15	PCSK6	ENSG00000140479	ENST00000557794	processed_transcript	KNOWN	None	8569	None	None	101844951	102065405	-1	PACE4	SPC4
15	PCSK6	ENSG00000140479	ENST00000558433	processed_transcript	KNOWN	None	8569	None	None	101845333	101856594	-1	PACE4	SPC4
15	PCSK6	ENSG00000140479	ENST00000559430	processed_transcript	PUTATIVE	None	8569	None	None	101845436	101849145	-1	PACE4	SPC4
15	PCSK6	ENSG00000140479	ENST00000560785	retained_intron	KNOWN	None	8569	None	None	101847496	101854052	-1	PACE4	SPC4
15	PCSK6	ENSG00000140479	ENST00000561109	processed_transcript	KNOWN	None	8569	None	None	101853222	102029947	-1	PACE4	SPC4
15	PCSK6	ENSG00000140479	ENST00000559678	processed_transcript	KNOWN	None	8569	None	None	101853222	102029947	-1	PACE4	SPC4
15	PCSK6	ENSG00000140479	ENST00000559605	protein_coding	PUTATIVE	None	8569	379	125	101865144	101910673	-1	PACE4	SPC4
15	PCSK6	ENSG00000140479	ENST00000560902	processed_transcript	KNOWN	None	8569	None	None	101866586	101922329	-1	PACE4	SPC4
15	PCSK6	ENSG00000140479	ENST00000560271	processed_transcript	KNOWN	None	8569	None	None	101886947	102029900	-1	PACE4	SPC4
15	PCSK6	ENSG00000140479	ENST00000558716	processed_transcript	KNOWN	None	8569	None	None	101886947	102029900	-1	PACE4	SPC4
15	PCSK6	ENSG00000140479	ENST00000561444	processed_transcript	KNOWN	None	8569	None	None	101905079	102030042	-1	PACE4	SPC4
15	PCSK6	ENSG00000140479	ENST00000558154	retained_intron	KNOWN	None	8569	None	None	101905990	101922411	-1	PACE4	SPC4
15	PCSK6	ENSG00000140479	ENST00000559417	protein_coding	NOVEL	None	8569	1035	344	101924527	102029640	-1	PACE4	SPC4
15	PCSK6	ENSG00000140479	ENST00000348070	protein_coding	KNOWN	None	8569	2907	968	101844134	102029873	-1	PACE4	SPC4
15	PCSK6	ENSG00000140479	ENST00000358417	protein_coding	KNOWN	None	8569	2868	955	101844134	102029873	-1	PACE4	SPC4
15	PCSK6	ENSG00000140479	ENST00000344273	protein_coding	KNOWN	None	8569	1956	651	101886947	102029873	-1	PACE4	SPC4
15	PCSK6	ENSG00000140479	ENST00000398181	protein_coding	KNOWN	None	8569	1869	622	101886947	102030187	-1	PACE4	SPC4
15	PCSK6	ENSG00000140479	ENST00000331826	protein_coding	KNOWN	None	8569	1497	498	101905113	101971716	-1	PACE4	SPC4
14	ZFYVE1	ENSG00000165861	ENST00000553891	protein_coding	KNOWN	None	13180	2370	789	73436159	73493814	-1	ZNFN2A1	DFCP1, KIAA1589, TAFF1
14	ZFYVE1	ENSG00000165861	ENST00000318876	protein_coding	NOVEL	None	13180	2292	763	73436160	73493839	-1	ZNFN2A1	DFCP1, KIAA1589, TAFF1
14	ZFYVE1	ENSG00000165861	ENST00000556143	protein_coding	KNOWN	CCDS9811	13180	2334	777	73436160	73493920	-1	ZNFN2A1	DFCP1, KIAA1589, TAFF1
14	ZFYVE1	ENSG00000165861	ENST00000394207	protein_coding	KNOWN	CCDS41969	13180	1089	362	73437586	73453652	-1	ZNFN2A1	DFCP1, KIAA1589, TAFF1
14	ZFYVE1	ENSG00000165861	ENST00000555072	protein_coding	KNOWN	CCDS41969	13180	1089	362	73437590	73453693	-1	ZNFN2A1	DFCP1, KIAA1589, TAFF1
14	ZFYVE1	ENSG00000165861	ENST00000556040	retained_intron	KNOWN	None	13180	None	None	73437638	73442649	-1	ZNFN2A1	DFCP1, KIAA1589, TAFF1
14	ZFYVE1	ENSG00000165861	ENST00000556761	retained_intron	KNOWN	None	13180	None	None	73440786	73441915	-1	ZNFN2A1	DFCP1, KIAA1589, TAFF1
14	ZFYVE1	ENSG00000165861	ENST00000554145	processed_transcript	KNOWN	None	13180	None	None	73441536	73445703	-1	ZNFN2A1	DFCP1, KIAA1589, TAFF1
14	ZFYVE1	ENSG00000165861	ENST00000554250	retained_intron	KNOWN	None	13180	None	None	73444672	73445933	-1	ZNFN2A1	DFCP1, KIAA1589, TAFF1
19	NLRP11	ENSG00000179873	ENST00000589824	protein_coding	NOVEL	None	22945	2940	979	56296770	56329603	-1	NALP11	PYPAF6, NOD17, PAN10, CLR19.6
19	NLRP11	ENSG00000179873	ENST00000592953	protein_coding	KNOWN	None	22945	2805	934	56296770	56343353	-1	NALP11	PYPAF6, NOD17, PAN10, CLR19.6
19	NLRP11	ENSG00000179873	ENST00000589093	protein_coding	KNOWN	CCDS12935	22945	3102	1033	56296770	56343360	-1	NALP11	PYPAF6, NOD17, PAN10, CLR19.6
19	NLRP11	ENSG00000179873	ENST00000590409	nonsense_mediated_decay	KNOWN	None	22945	1965	654	56296770	56348128	-1	NALP11	PYPAF6, NOD17, PAN10, CLR19.6
19	NLRP11	ENSG00000179873	ENST00000593244	nonsense_mediated_decay	KNOWN	None	22945	2256	751	56303736	56347805	-1	NALP11	PYPAF6, NOD17, PAN10, CLR19.6
19	NLRP11	ENSG00000179873	ENST00000593208	protein_coding	KNOWN	None	22945	77	24	56321602	56348166	-1	NALP11	PYPAF6, NOD17, PAN10, CLR19.6
19	NLRP11	ENSG00000179873	ENST00000443188	protein_coding	KNOWN	CCDS12935	22945	3102	1033	56296770	56348128	-1	NALP11	PYPAF6, NOD17, PAN10, CLR19.6
19	NLRP11	ENSG00000179873	ENST00000360133	protein_coding	KNOWN	None	22945	2940	979	56296770	56348128	-1	NALP11	PYPAF6, NOD17, PAN10, CLR19.6
2	None	ENSG00000235267	ENST00000417130	processed_pseudogene	KNOWN	None	None	None	None	27678023	27678729	1	None	None
2	RNU6-986P	ENSG00000200003	ENST00000363133	snRNA	KNOWN	None	47949	None	None	27698361	27698462	-1	None	None
3	SCN5A	ENSG00000183873	ENST00000414099	protein_coding	KNOWN	CCDS46798	10593	5997	1998	38589548	38674840	-1	CMD1E	Nav1.5, LQT3, HB1, HBBD, PFHB1, IVF, HB2, HH1, SSS1, CDCD2, CMPD2, ICCD
3	SCN5A	ENSG00000183873	ENST00000423572	protein_coding	KNOWN	CCDS46797	10593	6048	2015	38589553	38674853	-1	CMD1E	Nav1.5, LQT3, HB1, HBBD, PFHB1, IVF, HB2, HH1, SSS1, CDCD2, CMPD2, ICCD
3	SCN5A	ENSG00000183873	ENST00000413689	protein_coding	KNOWN	CCDS46799	10593	6051	2016	38589553	38691163	-1	CMD1E	Nav1.5, LQT3, HB1, HBBD, PFHB1, IVF, HB2, HH1, SSS1, CDCD2, CMPD2, ICCD
3	SCN5A	ENSG00000183873	ENST00000333535	protein_coding	KNOWN	CCDS46796	10593	6051	2016	38589557	38691119	-1	CMD1E	Nav1.5, LQT3, HB1, HBBD, PFHB1, IVF, HB2, HH1, SSS1, CDCD2, CMPD2, ICCD
3	SCN5A	ENSG00000183873	ENST00000455624	protein_coding	NOVEL	CCDS54570	10593	5952	1983	38590619	38674823	-1	CMD1E	Nav1.5, LQT3, HB1, HBBD, PFHB1, IVF, HB2, HH1, SSS1, CDCD2, CMPD2, ICCD
3	SCN5A	ENSG00000183873	ENST00000450102	protein_coding	NOVEL	CCDS54569	10593	5889	1962	38591459	38674840	-1	CMD1E	Nav1.5, LQT3, HB1, HBBD, PFHB1, IVF, HB2, HH1, SSS1, CDCD2, CMPD2, ICCD
3	SCN5A	ENSG00000183873	ENST00000449557	protein_coding	NOVEL	None	10593	5889	1962	38591812	38674807	-1	CMD1E	Nav1.5, LQT3, HB1, HBBD, PFHB1, IVF, HB2, HH1, SSS1, CDCD2, CMPD2, ICCD
3	SCN5A	ENSG00000183873	ENST00000464652	processed_transcript	KNOWN	None	10593	None	None	38594472	38596040	-1	CMD1E	Nav1.5, LQT3, HB1, HBBD, PFHB1, IVF, HB2, HH1, SSS1, CDCD2, CMPD2, ICCD
3	SCN5A	ENSG00000183873	ENST00000491944	retained_intron	KNOWN	None	10593	None	None	38655519	38691164	-1	CMD1E	Nav1.5, LQT3, HB1, HBBD, PFHB1, IVF, HB2, HH1, SSS1, CDCD2, CMPD2, ICCD
3	SCN5A	ENSG00000183873	ENST00000476683	retained_intron	KNOWN	None	10593	None	None	38671333	38674711	-1	CMD1E	Nav1.5, LQT3, HB1, HBBD, PFHB1, IVF, HB2, HH1, SSS1, CDCD2, CMPD2, ICCD
3	SCN5A	ENSG00000183873	ENST00000327956	protein_coding	KNOWN	None	10593	197	64	38674602	38687267	-1	CMD1E	Nav1.5, LQT3, HB1, HBBD, PFHB1, IVF, HB2, HH1, SSS1, CDCD2, CMPD2, ICCD
3	SCN5A	ENSG00000183873	ENST00000451551	protein_coding	KNOWN	CCDS54569	10593	5889	1962	38589553	38691164	-1	CMD1E	Nav1.5, LQT3, HB1, HBBD, PFHB1, IVF, HB2, HH1, SSS1, CDCD2, CMPD2, ICCD
3	SCN5A	ENSG00000183873	ENST00000443581	protein_coding	KNOWN	CCDS46797	10593	6048	2015	38589553	38691163	-1	CMD1E	Nav1.5, LQT3, HB1, HBBD, PFHB1, IVF, HB2, HH1, SSS1, CDCD2, CMPD2, ICCD
3	SCN5A	ENSG00000183873	ENST00000425664	protein_coding	KNOWN	CCDS46798	10593	5997	1998	38589553	38691163	-1	CMD1E	Nav1.5, LQT3, HB1, HBBD, PFHB1, IVF, HB2, HH1, SSS1, CDCD2, CMPD2, ICCD
2	None	ENSG00000221531	ENST00000408604	miRNA	NOVEL	None	None	None	None	27804756	27804813	-1	None	None
4	KLHL2P1	ENSG00000250412	ENST00000508691	unprocessed_pseudogene	KNOWN	None	44046	None	None	120255484	120299388	1	None	MAVP1
2	GPR39	ENSG00000183840	ENST00000329321	protein_coding	KNOWN	CCDS2170	4496	1362	453	133174147	133404132	1	None	None
2	GPR39	ENSG00000183840	ENST00000470071	processed_transcript	KNOWN	None	4496	None	None	133362014	133404127	1	None	None
9	SURF4	ENSG00000148248	ENST00000371989	protein_coding	KNOWN	CCDS6968	11476	810	269	136228325	136242970	-1	None	ERV29, FLJ22993, MGC102753
9	SURF4	ENSG00000148248	ENST00000485435	protein_coding	NOVEL	None	11476	480	159	136229744	136242970	-1	None	ERV29, FLJ22993, MGC102753
9	SURF4	ENSG00000148248	ENST00000465565	processed_transcript	KNOWN	None	11476	None	None	136230329	136232953	-1	None	ERV29, FLJ22993, MGC102753
9	SURF4	ENSG00000148248	ENST00000467910	processed_transcript	KNOWN	None	11476	None	None	136230431	136242862	-1	None	ERV29, FLJ22993, MGC102753
9	SURF4	ENSG00000148248	ENST00000371991	protein_coding	KNOWN	None	11476	561	186	136230671	136242914	-1	None	ERV29, FLJ22993, MGC102753
9	SURF4	ENSG00000148248	ENST00000371982	processed_transcript	KNOWN	None	11476	None	None	136231845	136242881	-1	None	ERV29, FLJ22993, MGC102753
9	SURF4	ENSG00000148248	ENST00000545297	protein_coding	KNOWN	None	11476	387	128	136230064	136242930	-1	None	ERV29, FLJ22993, MGC102753
2	None	ENSG00000259080	ENST00000505973	processed_transcript	KNOWN	None	None	None	None	27805913	27858041	1	None	None
19	None	ENSG00000269641	ENST00000599707	unprocessed_pseudogene	KNOWN	None	None	None	None	54107656	54111705	-1	None	None
HSCHR6_MHC_QBL	LSM2	ENSG00000172850	ENST00000477511	processed_transcript	KNOWN	None	13940	None	None	31755421	31764676	-1	C6orf28	G7b, YBL026W
HSCHR6_MHC_QBL	LSM2	ENSG00000172850	ENST00000474334	processed_transcript	KNOWN	None	13940	None	None	31755421	31764677	-1	C6orf28	G7b, YBL026W
HSCHR6_MHC_QBL	LSM2	ENSG00000172850	ENST00000462194	processed_transcript	KNOWN	None	13940	None	None	31755421	31764834	-1	C6orf28	G7b, YBL026W
HSCHR6_MHC_QBL	LSM2	ENSG00000172850	ENST00000482154	processed_transcript	KNOWN	None	13940	None	None	31755421	31764869	-1	C6orf28	G7b, YBL026W
HSCHR6_MHC_QBL	LSM2	ENSG00000172850	ENST00000483171	processed_transcript	KNOWN	None	13940	None	None	31755421	31764983	-1	C6orf28	G7b, YBL026W
HSCHR6_MHC_QBL	LSM2	ENSG00000172850	ENST00000383391	protein_coding	KNOWN	None	13940	288	95	31755421	31765001	-1	C6orf28	G7b, YBL026W
HSCHR6_MHC_QBL	LSM2	ENSG00000172850	ENST00000482823	processed_transcript	KNOWN	None	13940	None	None	31760777	31764619	-1	C6orf28	G7b, YBL026W
4	HNRNPA1P55	ENSG00000249920	ENST00000505935	processed_pseudogene	KNOWN	None	48785	None	None	74804321	74805275	-1	None	None
19	None	ENSG00000269608	ENST00000593607	processed_pseudogene	KNOWN	None	None	None	None	54120056	54120508	1	None	None
9	None	ENSG00000249336	ENST00000503949	unprocessed_pseudogene	KNOWN	None	None	None	None	39722432	39817308	-1	None	None
19	RDH13	ENSG00000160439	ENST00000592423	processed_transcript	KNOWN	None	19978	None	None	55550476	55554475	-1	None	SDR7C3
19	RDH13	ENSG00000160439	ENST00000586331	processed_transcript	KNOWN	None	19978	None	None	55550479	55553257	-1	None	SDR7C3
19	RDH13	ENSG00000160439	ENST00000591960	nonsense_mediated_decay	KNOWN	None	19978	108	35	55550479	55574444	-1	None	SDR7C3
19	RDH13	ENSG00000160439	ENST00000415061	protein_coding	KNOWN	CCDS54320	19978	996	331	55555711	55574544	-1	None	SDR7C3
19	RDH13	ENSG00000160439	ENST00000291892	nonsense_mediated_decay	KNOWN	None	19978	663	220	55555711	55575201	-1	None	SDR7C3
19	RDH13	ENSG00000160439	ENST00000396247	protein_coding	KNOWN	CCDS42627	19978	783	260	55555711	55580897	-1	None	SDR7C3
19	RDH13	ENSG00000160439	ENST00000592573	nonsense_mediated_decay	KNOWN	None	19978	663	220	55556223	55574454	-1	None	SDR7C3
19	RDH13	ENSG00000160439	ENST00000587721	nonsense_mediated_decay	KNOWN	None	19978	108	35	55558781	55574516	-1	None	SDR7C3
19	RDH13	ENSG00000160439	ENST00000589605	processed_transcript	KNOWN	None	19978	None	None	55560025	55570542	-1	None	SDR7C3
19	RDH13	ENSG00000160439	ENST00000589305	processed_transcript	KNOWN	None	19978	None	None	55562242	55574487	-1	None	SDR7C3
19	RDH13	ENSG00000160439	ENST00000586945	protein_coding	KNOWN	None	19978	127	41	55568021	55580897	-1	None	SDR7C3
19	RDH13	ENSG00000160439	ENST00000587026	protein_coding	KNOWN	None	19978	88	28	55570621	55580908	-1	None	SDR7C3
19	RDH13	ENSG00000160439	ENST00000591603	processed_transcript	KNOWN	None	19978	None	None	55574409	55575736	-1	None	SDR7C3
19	RDH13	ENSG00000160439	ENST00000588306	processed_transcript	KNOWN	None	19978	None	None	55574588	55580908	-1	None	SDR7C3
19	RDH13	ENSG00000160439	ENST00000591023	processed_transcript	KNOWN	None	19978	None	None	55574639	55580888	-1	None	SDR7C3
19	RDH13	ENSG00000160439	ENST00000589197	processed_transcript	KNOWN	None	19978	None	None	55574876	55580891	-1	None	SDR7C3
19	RDH13	ENSG00000160439	ENST00000590349	processed_transcript	KNOWN	None	19978	None	None	55575120	55580859	-1	None	SDR7C3
19	RDH13	ENSG00000160439	ENST00000587373	processed_transcript	KNOWN	None	19978	None	None	55575269	55580899	-1	None	SDR7C3
19	RDH13	ENSG00000160439	ENST00000593134	processed_transcript	KNOWN	None	19978	None	None	55575316	55582659	-1	None	SDR7C3
19	RDH13	ENSG00000160439	ENST00000587046	processed_transcript	KNOWN	None	19978	None	None	55575408	55581260	-1	None	SDR7C3
19	RDH13	ENSG00000160439	ENST00000588941	processed_transcript	KNOWN	None	19978	None	None	55578563	55580870	-1	None	SDR7C3
19	RN7SL317P	ENSG00000242668	ENST00000497408	misc_RNA	KNOWN	None	46333	None	None	54132967	54133246	1	None	None
19	RNU6-698P	ENSG00000200393	ENST00000363523	snRNA	KNOWN	None	47661	None	None	54156939	54157045	1	None	None
2	None	ENSG00000206731	ENST00000384004	snoRNA	NOVEL	None	None	None	None	27864910	27865036	-1	None	None
16	CDH16	ENSG00000166589	ENST00000394055	protein_coding	KNOWN	CCDS56002	1755	2424	807	66942025	66952820	-1	None	None
16	CDH16	ENSG00000166589	ENST00000299752	protein_coding	KNOWN	CCDS10823	1755	2490	829	66942025	66952887	-1	None	None
16	CDH16	ENSG00000166589	ENST00000568632	protein_coding	NOVEL	CCDS58472	1755	2199	732	66942026	66952751	-1	None	None
16	CDH16	ENSG00000166589	ENST00000570262	protein_coding	NOVEL	None	1755	2250	749	66942027	66952779	-1	None	None
16	CDH16	ENSG00000166589	ENST00000565796	protein_coding	NOVEL	CCDS58471	1755	2373	790	66942032	66952751	-1	None	None
16	CDH16	ENSG00000166589	ENST00000567269	nonsense_mediated_decay	KNOWN	None	1755	528	175	66942032	66952787	-1	None	None
16	CDH16	ENSG00000166589	ENST00000568698	nonsense_mediated_decay	KNOWN	None	1755	747	248	66942036	66952755	-1	None	None
16	CDH16	ENSG00000166589	ENST00000567009	protein_coding	PUTATIVE	None	1755	715	237	66947088	66950299	-1	None	None
16	CDH16	ENSG00000166589	ENST00000565235	protein_coding	PUTATIVE	None	1755	373	123	66949123	66952750	-1	None	None
19	None	ENSG00000270347	ENST00000603737	unprocessed_pseudogene	KNOWN	None	None	None	None	54160654	54161716	-1	None	None
2	None	ENSG00000270846	ENST00000603006	processed_pseudogene	KNOWN	None	None	None	None	28118983	28120062	-1	None	None
2	MIR4263	ENSG00000265321	ENST00000584745	miRNA	KNOWN	None	38365	None	None	28219234	28219316	1	None	hsa-mir-4263
2	None	ENSG00000270528	ENST00000603137	processed_pseudogene	KNOWN	None	None	None	None	28238644	28239349	-1	None	None
19	MIR512-1	ENSG00000207645	ENST00000384913	miRNA	KNOWN	None	32090	None	None	54169927	54170024	1	MIRN512-1	hsa-mir-512-1
18	MPPE1	ENSG00000154889	ENST00000588072	protein_coding	KNOWN	CCDS11853	15988	1191	396	11882621	11909222	-1	None	None
18	MPPE1	ENSG00000154889	ENST00000317235	protein_coding	KNOWN	CCDS56054	15988	1002	333	11883470	11908348	-1	None	None
18	MPPE1	ENSG00000154889	ENST00000496196	nonsense_mediated_decay	KNOWN	None	15988	1023	340	11883689	11908316	-1	None	None
18	MPPE1	ENSG00000154889	ENST00000317251	nonsense_mediated_decay	KNOWN	None	15988	732	243	11884052	11908294	-1	None	None
18	MPPE1	ENSG00000154889	ENST00000309976	protein_coding	KNOWN	CCDS56054	15988	1002	333	11884052	11908349	-1	None	None
18	MPPE1	ENSG00000154889	ENST00000344987	protein_coding	NOVEL	None	15988	1125	374	11884067	11908329	-1	None	None
18	MPPE1	ENSG00000154889	ENST00000592755	processed_transcript	PUTATIVE	None	15988	None	None	11884165	11885120	-1	None	None
18	MPPE1	ENSG00000154889	ENST00000592447	retained_intron	KNOWN	None	15988	None	None	11884194	11897276	-1	None	None
18	MPPE1	ENSG00000154889	ENST00000592306	nonsense_mediated_decay	KNOWN	None	15988	246	81	11884489	11886795	-1	None	None
18	MPPE1	ENSG00000154889	ENST00000592894	retained_intron	KNOWN	None	15988	None	None	11884876	11897162	-1	None	None
18	MPPE1	ENSG00000154889	ENST00000587724	protein_coding	PUTATIVE	None	15988	486	161	11884892	11889414	-1	None	None
18	MPPE1	ENSG00000154889	ENST00000592977	protein_coding	KNOWN	None	15988	924	307	11885759	11908272	-1	None	None
18	MPPE1	ENSG00000154889	ENST00000589731	retained_intron	KNOWN	None	15988	None	None	11886114	11908314	-1	None	None
18	MPPE1	ENSG00000154889	ENST00000592331	protein_coding	PUTATIVE	None	15988	517	171	11886720	11897043	-1	None	None
18	MPPE1	ENSG00000154889	ENST00000588186	protein_coding	KNOWN	None	15988	534	177	11888703	11908349	-1	None	None
18	MPPE1	ENSG00000154889	ENST00000588191	protein_coding	KNOWN	None	15988	494	163	11889386	11908347	-1	None	None
18	MPPE1	ENSG00000154889	ENST00000589267	protein_coding	KNOWN	None	15988	425	140	11889455	11908365	-1	None	None
18	MPPE1	ENSG00000154889	ENST00000586364	processed_transcript	PUTATIVE	None	15988	None	None	11891185	11897159	-1	None	None
18	MPPE1	ENSG00000154889	ENST00000592180	retained_intron	KNOWN	None	15988	None	None	11893047	11897090	-1	None	None
18	MPPE1	ENSG00000154889	ENST00000590501	protein_coding	KNOWN	None	15988	282	93	11896982	11908307	-1	None	None
18	MPPE1	ENSG00000154889	ENST00000588103	protein_coding	KNOWN	None	15988	276	91	11896988	11908330	-1	None	None
18	MPPE1	ENSG00000154889	ENST00000587381	processed_transcript	KNOWN	None	15988	None	None	11897035	11908346	-1	None	None
18	MPPE1	ENSG00000154889	ENST00000589859	protein_coding	KNOWN	None	15988	209	68	11897055	11902754	-1	None	None
18	MPPE1	ENSG00000154889	ENST00000586844	protein_coding	KNOWN	None	15988	206	67	11897058	11908316	-1	None	None
18	MPPE1	ENSG00000154889	ENST00000593001	non_stop_decay	KNOWN	None	15988	79	25	11897185	11908300	-1	None	None
18	MPPE1	ENSG00000154889	ENST00000589829	processed_transcript	KNOWN	None	15988	None	None	11897299	11908314	-1	None	None
18	MPPE1	ENSG00000154889	ENST00000591667	processed_transcript	KNOWN	None	15988	None	None	11897326	11908314	-1	None	None
18	MPPE1	ENSG00000154889	ENST00000590302	processed_transcript	KNOWN	None	15988	None	None	11902748	11908346	-1	None	None
18	MPPE1	ENSG00000154889	ENST00000586204	processed_transcript	PUTATIVE	None	15988	None	None	11902779	11908275	-1	None	None
18	MPPE1	ENSG00000154889	ENST00000588939	retained_intron	KNOWN	None	15988	None	None	11905825	11908314	-1	None	None
18	MPPE1	ENSG00000154889	ENST00000399978	protein_coding	KNOWN	None	15988	1026	341	11885028	11908641	-1	None	None
11	CCDC81	ENSG00000149201	ENST00000354755	protein_coding	KNOWN	CCDS8276	26281	1689	562	86085778	86134150	1	None	FLJ16339, FLJ23514
11	CCDC81	ENSG00000149201	ENST00000531271	protein_coding	PUTATIVE	None	26281	266	87	86085929	86108707	1	None	FLJ16339, FLJ23514
11	CCDC81	ENSG00000149201	ENST00000445632	protein_coding	KNOWN	CCDS53691	26281	1959	652	86085934	86134054	1	None	FLJ16339, FLJ23514
11	CCDC81	ENSG00000149201	ENST00000530845	retained_intron	KNOWN	None	26281	None	None	86106153	86123480	1	None	FLJ16339, FLJ23514
11	CCDC81	ENSG00000149201	ENST00000532466	retained_intron	KNOWN	None	26281	None	None	86106194	86119276	1	None	FLJ16339, FLJ23514
11	CCDC81	ENSG00000149201	ENST00000532215	retained_intron	KNOWN	None	26281	None	None	86106194	86120407	1	None	FLJ16339, FLJ23514
11	CCDC81	ENSG00000149201	ENST00000529603	retained_intron	KNOWN	None	26281	None	None	86106216	86118719	1	None	FLJ16339, FLJ23514
11	CCDC81	ENSG00000149201	ENST00000528728	protein_coding	PUTATIVE	None	26281	1164	387	86106216	86134151	1	None	FLJ16339, FLJ23514
11	CCDC81	ENSG00000149201	ENST00000531587	retained_intron	KNOWN	None	26281	None	None	86125368	86134148	1	None	FLJ16339, FLJ23514
11	CCDC81	ENSG00000149201	ENST00000525247	retained_intron	KNOWN	None	26281	None	None	86130118	86134148	1	None	FLJ16339, FLJ23514
11	CCDC81	ENSG00000149201	ENST00000278487	protein_coding	KNOWN	None	26281	1164	387	86085778	86134150	1	None	FLJ16339, FLJ23514
16	TUFM	ENSG00000178952	ENST00000313511	protein_coding	KNOWN	CCDS10642	12420	1368	455	28853732	28857729	-1	None	EFTu, EF-TuMT, EFTU
16	TUFM	ENSG00000178952	ENST00000569217	retained_intron	KNOWN	None	12420	None	None	28854159	28855653	-1	None	EFTu, EF-TuMT, EFTU
16	TUFM	ENSG00000178952	ENST00000565012	nonsense_mediated_decay	KNOWN	None	12420	306	101	28855273	28857651	-1	None	EFTu, EF-TuMT, EFTU
16	TUFM	ENSG00000178952	ENST00000561644	retained_intron	KNOWN	None	12420	None	None	28855947	28856328	-1	None	EFTu, EF-TuMT, EFTU
19	BEST2	ENSG00000039987	ENST00000549706	protein_coding	KNOWN	CCDS42506	17107	1530	509	12862516	12869220	1	VMD2L1	FLJ20132
19	BEST2	ENSG00000039987	ENST00000553030	protein_coding	KNOWN	CCDS42506	17107	1530	509	12862616	12869272	1	VMD2L1	FLJ20132
19	BEST2	ENSG00000039987	ENST00000552539	protein_coding	PUTATIVE	None	17107	236	77	12866673	12867520	1	VMD2L1	FLJ20132
19	BEST2	ENSG00000039987	ENST00000042931	protein_coding	KNOWN	CCDS42506	17107	1530	509	12863407	12869269	1	VMD2L1	FLJ20132
19	MIR512-2	ENSG00000207644	ENST00000384912	miRNA	KNOWN	None	32091	None	None	54172411	54172508	1	MIRN512-2	hsa-mir-512-2
2	None	ENSG00000223522	ENST00000418963	antisense	KNOWN	None	None	None	None	28530558	28533326	-1	None	None
6	PSMB9	ENSG00000240065	ENST00000395330	protein_coding	KNOWN	None	9546	591	196	32811913	32827362	1	LMP2	RING12, beta1i, PSMB6i
6	PSMB9	ENSG00000240065	ENST00000414474	protein_coding	KNOWN	None	9546	395	130	32812613	32826214	1	LMP2	RING12, beta1i, PSMB6i
6	PSMB9	ENSG00000240065	ENST00000464863	retained_intron	KNOWN	None	9546	None	None	32821925	32826677	1	LMP2	RING12, beta1i, PSMB6i
6	PSMB9	ENSG00000240065	ENST00000374859	protein_coding	KNOWN	CCDS4759	9546	660	219	32821938	32827362	1	LMP2	RING12, beta1i, PSMB6i
6	PSMB9	ENSG00000240065	ENST00000467593	retained_intron	KNOWN	None	9546	None	None	32823874	32826499	1	LMP2	RING12, beta1i, PSMB6i
6	PSMB9	ENSG00000240065	ENST00000453265	protein_coding	KNOWN	None	9546	465	154	32821938	32826347	1	LMP2	RING12, beta1i, PSMB6i
2	LYPD1	ENSG00000150551	ENST00000397463	protein_coding	KNOWN	CCDS42759	28431	426	141	133402426	133427778	-1	LYPDC1	MGC29643
2	LYPD1	ENSG00000150551	ENST00000345008	protein_coding	KNOWN	CCDS46416	28431	270	89	133403360	133429152	-1	LYPDC1	MGC29643
2	LYPD1	ENSG00000150551	ENST00000449209	nonsense_mediated_decay	KNOWN	None	28431	120	39	133420599	133427773	-1	LYPDC1	MGC29643
12	MAP1LC3B2	ENSG00000171471	ENST00000556529	protein_coding	KNOWN	CCDS41841	34390	378	125	117013656	117014411	1	None	ATG8G
12	MAP1LC3B2	ENSG00000171471	ENST00000306985	protein_coding	KNOWN	CCDS41841	34390	378	125	116997186	117014425	1	None	ATG8G
22	RIMBP3B	ENSG00000196934	ENST00000434111	protein_coding	KNOWN	CCDS46668	33891	4920	1639	21737663	21743446	1	None	None
5	TMEM161B	ENSG00000164180	ENST00000514135	protein_coding	NOVEL	None	28483	1509	502	87485450	87564647	-1	None	MGC33214
5	TMEM161B	ENSG00000164180	ENST00000511087	nonsense_mediated_decay	KNOWN	None	28483	366	121	87490864	87564616	-1	None	MGC33214
5	TMEM161B	ENSG00000164180	ENST00000510089	nonsense_mediated_decay	KNOWN	None	28483	423	140	87490986	87564665	-1	None	MGC33214
5	TMEM161B	ENSG00000164180	ENST00000296595	protein_coding	KNOWN	CCDS4065	28483	1464	487	87491023	87564665	-1	None	MGC33214
5	TMEM161B	ENSG00000164180	ENST00000506536	protein_coding	PUTATIVE	None	28483	654	217	87491024	87564639	-1	None	MGC33214
5	TMEM161B	ENSG00000164180	ENST00000511218	protein_coding	PUTATIVE	None	28483	837	278	87491645	87516448	-1	None	MGC33214
5	TMEM161B	ENSG00000164180	ENST00000512429	protein_coding	NOVEL	None	28483	1431	476	87491934	87564646	-1	None	MGC33214
5	TMEM161B	ENSG00000164180	ENST00000515293	processed_transcript	KNOWN	None	28483	None	None	87492167	87494268	-1	None	MGC33214
5	TMEM161B	ENSG00000164180	ENST00000507872	nonsense_mediated_decay	KNOWN	None	28483	462	153	87498501	87564636	-1	None	MGC33214
5	TMEM161B	ENSG00000164180	ENST00000509387	protein_coding	PUTATIVE	None	28483	537	178	87498760	87564674	-1	None	MGC33214
5	TMEM161B	ENSG00000164180	ENST00000503755	processed_transcript	KNOWN	None	28483	None	None	87502237	87564646	-1	None	MGC33214
5	TMEM161B	ENSG00000164180	ENST00000513487	processed_transcript	KNOWN	None	28483	None	None	87502852	87564665	-1	None	MGC33214
5	TMEM161B	ENSG00000164180	ENST00000515477	processed_transcript	KNOWN	None	28483	None	None	87516432	87564664	-1	None	MGC33214
5	TMEM161B	ENSG00000164180	ENST00000503943	processed_transcript	KNOWN	None	28483	None	None	87524258	87546854	-1	None	MGC33214
5	TMEM161B	ENSG00000164180	ENST00000503194	processed_transcript	KNOWN	None	28483	None	None	87524276	87565293	-1	None	MGC33214
2	None	ENSG00000225991	ENST00000423483	processed_pseudogene	KNOWN	None	None	None	None	28531028	28531437	1	None	None
2	None	ENSG00000229951	ENST00000427929	antisense	KNOWN	None	None	None	None	28607276	28617539	-1	None	None
2	None	ENSG00000229951	ENST00000445878	antisense	KNOWN	None	None	None	None	28607276	28617539	-1	None	None
Y	CDY18P	ENSG00000232205	ENST00000438294	unprocessed_pseudogene	KNOWN	None	23862	None	None	26250254	26252165	1	None	None
6	ATXN1	ENSG00000124788	ENST00000244769	protein_coding	KNOWN	CCDS34342	10548	2448	815	16299343	16761687	-1	SCA1	D6S504E, ATX1
6	ATXN1	ENSG00000124788	ENST00000483591	processed_transcript	KNOWN	None	10548	None	None	16432795	16750323	-1	SCA1	D6S504E, ATX1
6	ATXN1	ENSG00000124788	ENST00000473388	processed_transcript	KNOWN	None	10548	None	None	16485366	16761691	-1	SCA1	D6S504E, ATX1
6	ATXN1	ENSG00000124788	ENST00000495178	processed_transcript	KNOWN	None	10548	None	None	16615206	16753539	-1	SCA1	D6S504E, ATX1
6	ATXN1	ENSG00000124788	ENST00000483954	processed_transcript	KNOWN	None	10548	None	None	16667199	16761687	-1	SCA1	D6S504E, ATX1
6	ATXN1	ENSG00000124788	ENST00000467008	processed_transcript	KNOWN	None	10548	None	None	16737082	16761707	-1	SCA1	D6S504E, ATX1
6	ATXN1	ENSG00000124788	ENST00000498374	processed_transcript	KNOWN	None	10548	None	None	16738696	16761722	-1	SCA1	D6S504E, ATX1
6	ATXN1	ENSG00000124788	ENST00000492857	processed_transcript	KNOWN	None	10548	None	None	16739833	16761694	-1	SCA1	D6S504E, ATX1
6	ATXN1	ENSG00000124788	ENST00000479680	processed_transcript	KNOWN	None	10548	None	None	16753193	16761710	-1	SCA1	D6S504E, ATX1
6	ATXN1	ENSG00000124788	ENST00000436367	protein_coding	KNOWN	CCDS34342	10548	2448	815	16299343	16761721	-1	SCA1	D6S504E, ATX1
19	MIR1323	ENSG00000221017	ENST00000408090	miRNA	KNOWN	None	35251	None	None	54175222	54175294	1	MIRN1323	hsa-mir-1323
X	PTCHD1	ENSG00000165186	ENST00000379361	protein_coding	KNOWN	CCDS35215	26392	2667	888	23352133	23422489	1	None	FLJ30296
X	PTCHD1	ENSG00000165186	ENST00000456522	protein_coding	PUTATIVE	None	26392	311	102	23353186	23411225	1	None	FLJ30296
19	MIR498	ENSG00000207869	ENST00000385134	miRNA	KNOWN	None	32092	None	None	54177451	54177574	1	MIRN498	hsa-mir-498
16	LRRC36	ENSG00000159708	ENST00000563303	processed_transcript	KNOWN	None	25615	None	None	67360701	67384193	1	None	FLJ11004
16	LRRC36	ENSG00000159708	ENST00000570075	nonsense_mediated_decay	KNOWN	None	25615	117	38	67360747	67397613	1	None	FLJ11004
16	LRRC36	ENSG00000159708	ENST00000569499	protein_coding	PUTATIVE	None	25615	250	82	67360747	67399258	1	None	FLJ11004
16	LRRC36	ENSG00000159708	ENST00000329956	protein_coding	KNOWN	CCDS32467	25615	2265	754	67360747	67419103	1	None	FLJ11004
16	LRRC36	ENSG00000159708	ENST00000561948	protein_coding	PUTATIVE	None	25615	193	63	67360749	67397615	1	None	FLJ11004
16	LRRC36	ENSG00000159708	ENST00000569228	retained_intron	KNOWN	None	25615	None	None	67360786	67406005	1	None	FLJ11004
16	LRRC36	ENSG00000159708	ENST00000565019	nonsense_mediated_decay	KNOWN	None	25615	826	274	67360786	67419106	1	None	FLJ11004
16	LRRC36	ENSG00000159708	ENST00000568804	protein_coding	PUTATIVE	None	25615	89	28	67360878	67397508	1	None	FLJ11004
16	LRRC36	ENSG00000159708	ENST00000566558	processed_transcript	KNOWN	None	25615	None	None	67360883	67381494	1	None	FLJ11004
16	LRRC36	ENSG00000159708	ENST00000567211	nonsense_mediated_decay	KNOWN	None	25615	69	22	67381253	67406005	1	None	FLJ11004
16	LRRC36	ENSG00000159708	ENST00000568010	nonsense_mediated_decay	KNOWN	None	25615	393	130	67381271	67419028	1	None	FLJ11004
16	LRRC36	ENSG00000159708	ENST00000569552	nonsense_mediated_decay	KNOWN	None	25615	69	22	67381279	67401262	1	None	FLJ11004
16	LRRC36	ENSG00000159708	ENST00000567723	nonsense_mediated_decay	KNOWN	None	25615	381	126	67381279	67419103	1	None	FLJ11004
16	LRRC36	ENSG00000159708	ENST00000563189	protein_coding	KNOWN	CCDS58474	25615	1902	633	67381279	67419103	1	None	FLJ11004
16	LRRC36	ENSG00000159708	ENST00000567823	nonsense_mediated_decay	KNOWN	None	25615	225	74	67381291	67419076	1	None	FLJ11004
16	LRRC36	ENSG00000159708	ENST00000561821	nonsense_mediated_decay	KNOWN	None	25615	69	22	67381292	67401088	1	None	FLJ11004
16	LRRC36	ENSG00000159708	ENST00000435835	protein_coding	NOVEL	None	25615	1590	529	67381306	67419103	1	None	FLJ11004
16	LRRC36	ENSG00000159708	ENST00000569121	retained_intron	KNOWN	None	25615	None	None	67399046	67401301	1	None	FLJ11004
16	LRRC36	ENSG00000159708	ENST00000290940	protein_coding	KNOWN	None	25615	981	326	67381279	67419103	1	None	FLJ11004
16	LRRC36	ENSG00000159708	ENST00000541146	protein_coding	KNOWN	None	25615	681	226	67381271	67419028	1	None	FLJ11004
2	None	ENSG00000270640	ENST00000604052	sense_intronic	KNOWN	None	None	None	None	28619682	28619977	1	None	None
19	MIR520E	ENSG00000207599	ENST00000384867	miRNA	KNOWN	None	32093	None	None	54178965	54179051	1	MIRN520E	hsa-mir-520e
17	MYO1D	ENSG00000176658	ENST00000318217	protein_coding	KNOWN	CCDS32615	7598	3021	1006	30819540	31204195	-1	None	KIAA0727, myr4
17	MYO1D	ENSG00000176658	ENST00000394649	protein_coding	PUTATIVE	None	7598	2757	918	30819627	31190061	-1	None	KIAA0727, myr4
17	MYO1D	ENSG00000176658	ENST00000577576	processed_transcript	PUTATIVE	None	7598	None	None	30821471	30824091	-1	None	KIAA0727, myr4
17	MYO1D	ENSG00000176658	ENST00000577352	retained_intron	KNOWN	None	7598	None	None	30821737	30986424	-1	None	KIAA0727, myr4
17	MYO1D	ENSG00000176658	ENST00000579584	protein_coding	PUTATIVE	None	7598	2886	961	30921221	31204162	-1	None	KIAA0727, myr4
17	MYO1D	ENSG00000176658	ENST00000580547	processed_transcript	PUTATIVE	None	7598	None	None	30921359	30929729	-1	None	KIAA0727, myr4
17	MYO1D	ENSG00000176658	ENST00000581059	processed_transcript	KNOWN	None	7598	None	None	30965793	30986469	-1	None	KIAA0727, myr4
17	MYO1D	ENSG00000176658	ENST00000582217	processed_transcript	KNOWN	None	7598	None	None	30980882	31011302	-1	None	KIAA0727, myr4
17	MYO1D	ENSG00000176658	ENST00000585094	retained_intron	KNOWN	None	7598	None	None	30985997	31048153	-1	None	KIAA0727, myr4
17	MYO1D	ENSG00000176658	ENST00000577252	nonsense_mediated_decay	KNOWN	None	7598	135	44	31048124	31082536	-1	None	KIAA0727, myr4
17	MYO1D	ENSG00000176658	ENST00000580538	retained_intron	KNOWN	None	7598	None	None	31048163	31082737	-1	None	KIAA0727, myr4
17	MYO1D	ENSG00000176658	ENST00000584232	processed_transcript	KNOWN	None	7598	None	None	31054605	31087414	-1	None	KIAA0727, myr4
17	MYO1D	ENSG00000176658	ENST00000583611	processed_transcript	KNOWN	None	7598	None	None	31061743	31076023	-1	None	KIAA0727, myr4
17	MYO1D	ENSG00000176658	ENST00000582751	processed_transcript	KNOWN	None	7598	None	None	31065376	31083280	-1	None	KIAA0727, myr4
17	MYO1D	ENSG00000176658	ENST00000583621	protein_coding	PUTATIVE	None	7598	1311	436	31086830	31204195	-1	None	KIAA0727, myr4
2	None	ENSG00000270210	ENST00000605056	lincRNA	KNOWN	None	None	None	None	28648812	28649586	1	None	None
11	PYGM	ENSG00000068976	ENST00000483742	retained_intron	KNOWN	None	9726	None	None	64513861	64516360	-1	None	None
11	PYGM	ENSG00000068976	ENST00000377432	protein_coding	NOVEL	CCDS53659	9726	2265	754	64513861	64527446	-1	None	None
11	PYGM	ENSG00000068976	ENST00000164139	protein_coding	KNOWN	CCDS8079	9726	2529	842	64513861	64527769	-1	None	None
11	PYGM	ENSG00000068976	ENST00000462303	processed_transcript	PUTATIVE	None	9726	None	None	64518620	64519487	-1	None	None
11	PYGM	ENSG00000068976	ENST00000460413	processed_transcript	PUTATIVE	None	9726	None	None	64521143	64521893	-1	None	None
2	None	ENSG00000227938	ENST00000439700	lincRNA	KNOWN	None	None	None	None	28671034	28673051	-1	None	None
Y	None	ENSG00000235981	ENST00000445264	unprocessed_pseudogene	KNOWN	None	None	None	None	26288505	26303990	1	None	None
19	None	ENSG00000228629	ENST00000446262	antisense	KNOWN	None	None	None	None	37019220	37026137	1	None	None
2	SNRPGP7	ENSG00000242915	ENST00000469016	processed_pseudogene	KNOWN	None	39326	None	None	28683123	28683228	-1	None	None
2	None	ENSG00000230730	ENST00000431376	antisense	KNOWN	None	None	None	None	28856148	28887406	-1	None	None
19	COPE	ENSG00000105669	ENST00000600528	processed_transcript	KNOWN	None	2234	None	None	19010323	19010746	-1	None	epsilon-COP
19	COPE	ENSG00000105669	ENST00000262812	protein_coding	KNOWN	CCDS12387	2234	927	308	19010323	19030206	-1	None	epsilon-COP
19	COPE	ENSG00000105669	ENST00000349893	protein_coding	KNOWN	CCDS12389	2234	771	256	19010326	19030172	-1	None	epsilon-COP
19	COPE	ENSG00000105669	ENST00000595984	processed_transcript	KNOWN	None	2234	None	None	19010338	19014109	-1	None	epsilon-COP
19	COPE	ENSG00000105669	ENST00000600932	protein_coding	NOVEL	None	2234	996	331	19010372	19030189	-1	None	epsilon-COP
19	COPE	ENSG00000105669	ENST00000598969	processed_transcript	KNOWN	None	2234	None	None	19010376	19023855	-1	None	epsilon-COP
19	COPE	ENSG00000105669	ENST00000351079	protein_coding	KNOWN	CCDS12388	2234	774	257	19010382	19030184	-1	None	epsilon-COP
19	COPE	ENSG00000105669	ENST00000593827	nonsense_mediated_decay	KNOWN	None	2234	441	146	19010700	19030186	-1	None	epsilon-COP
19	COPE	ENSG00000105669	ENST00000597026	retained_intron	KNOWN	None	2234	None	None	19017408	19023855	-1	None	epsilon-COP
19	COPE	ENSG00000105669	ENST00000597646	processed_transcript	KNOWN	None	2234	None	None	19021364	19030174	-1	None	epsilon-COP
19	COPE	ENSG00000105669	ENST00000599964	processed_transcript	KNOWN	None	2234	None	None	19021836	19030163	-1	None	epsilon-COP
22	HIC2	ENSG00000169635	ENST00000407464	protein_coding	KNOWN	CCDS13789	18595	1848	615	21771693	21805752	1	None	KIAA1020, HRG22, ZBTB30, ZNF907
22	HIC2	ENSG00000169635	ENST00000407598	protein_coding	KNOWN	CCDS13789	18595	1848	615	21774925	21803723	1	None	KIAA1020, HRG22, ZBTB30, ZNF907
22	HIC2	ENSG00000169635	ENST00000443632	protein_coding	KNOWN	CCDS13789	18595	1848	615	21796749	21805752	1	None	KIAA1020, HRG22, ZBTB30, ZNF907
2	RNA5SP89	ENSG00000222232	ENST00000410300	rRNA	KNOWN	None	42887	None	None	28906842	28906949	1	RN5S89	None
19	None	ENSG00000233527	ENST00000475219	antisense	KNOWN	None	None	None	None	37063972	37085610	1	None	None
19	None	ENSG00000233527	ENST00000448373	antisense	KNOWN	None	None	None	None	37064279	37068817	1	None	None
19	None	ENSG00000233527	ENST00000592880	antisense	KNOWN	None	None	None	None	37064439	37085610	1	None	None
19	None	ENSG00000233527	ENST00000494214	antisense	KNOWN	None	None	None	None	37068130	37085610	1	None	None
1	ASTN1	ENSG00000152092	ENST00000367657	protein_coding	PUTATIVE	None	773	3687	1228	176826438	177134003	-1	ASTN	None
1	ASTN1	ENSG00000152092	ENST00000361833	protein_coding	KNOWN	CCDS1319	773	3885	1294	176830203	177133826	-1	ASTN	None
1	ASTN1	ENSG00000152092	ENST00000367654	protein_coding	KNOWN	None	773	3909	1302	176830221	177133826	-1	ASTN	None
1	ASTN1	ENSG00000152092	ENST00000424564	protein_coding	KNOWN	CCDS44280	773	3651	1216	176837949	177133819	-1	ASTN	None
1	ASTN1	ENSG00000152092	ENST00000281881	processed_transcript	KNOWN	None	773	None	None	176905190	177134109	-1	ASTN	None
1	ASTN1	ENSG00000152092	ENST00000473640	processed_transcript	KNOWN	None	773	None	None	176945189	177001686	-1	ASTN	None
12	C12orf49	ENSG00000111412	ENST00000261318	protein_coding	KNOWN	CCDS9179	26128	618	205	117153593	117175866	-1	None	FLJ21415
12	C12orf49	ENSG00000111412	ENST00000547630	nonsense_mediated_decay	KNOWN	None	26128	144	47	117154875	117175875	-1	None	FLJ21415
12	C12orf49	ENSG00000111412	ENST00000548356	protein_coding	PUTATIVE	None	26128	141	46	117155141	117157932	-1	None	FLJ21415
12	C12orf49	ENSG00000111412	ENST00000547606	protein_coding	PUTATIVE	None	26128	131	42	117155254	117175641	-1	None	FLJ21415
12	C12orf49	ENSG00000111412	ENST00000536380	protein_coding	KNOWN	None	26128	528	175	117155334	117175874	-1	None	FLJ21415
2	None	ENSG00000226833	ENST00000452212	antisense	KNOWN	None	None	None	None	28931819	28959071	-1	None	None
2	None	ENSG00000226833	ENST00000428036	antisense	KNOWN	None	None	None	None	28932191	28959058	-1	None	None
2	None	ENSG00000226833	ENST00000444501	antisense	KNOWN	None	None	None	None	28945306	28958975	-1	None	None
Y	GOLGA6L11P	ENSG00000223698	ENST00000417252	unprocessed_pseudogene	KNOWN	None	23958	None	None	26314334	26320641	1	GOLGA6L15P	None
14	OR4L1	ENSG00000176246	ENST00000315683	protein_coding	KNOWN	CCDS32029	15356	939	312	20528204	20529142	1	OR4L2P	None
HSCHR6_MHC_MANN	None	ENSG00000258062	ENST00000553050	protein_coding	NOVEL	None	None	36	11	32768896	32769252	1	None	None
17	SREBF1	ENSG00000072310	ENST00000485080	nonsense_mediated_decay	KNOWN	None	11289	333	110	17713713	17717083	-1	None	SREBP1, bHLHd1, SREBP-1c
17	SREBF1	ENSG00000072310	ENST00000578469	nonsense_mediated_decay	KNOWN	None	11289	95	30	17714670	17716756	-1	None	SREBP1, bHLHd1, SREBP-1c
17	SREBF1	ENSG00000072310	ENST00000395756	nonsense_mediated_decay	KNOWN	None	11289	340	112	17715387	17721641	-1	None	SREBP1, bHLHd1, SREBP-1c
17	SREBF1	ENSG00000072310	ENST00000395757	protein_coding	NOVEL	None	11289	2682	893	17715387	17723265	-1	None	SREBP1, bHLHd1, SREBP-1c
17	SREBF1	ENSG00000072310	ENST00000395751	nonsense_mediated_decay	KNOWN	None	11289	651	216	17715387	17724178	-1	None	SREBP1, bHLHd1, SREBP-1c
17	SREBF1	ENSG00000072310	ENST00000355815	protein_coding	KNOWN	CCDS32583	11289	3534	1177	17715387	17740301	-1	None	SREBP1, bHLHd1, SREBP-1c
17	SREBF1	ENSG00000072310	ENST00000261646	protein_coding	KNOWN	CCDS11189	11289	3444	1147	17715387	17740316	-1	None	SREBP1, bHLHd1, SREBP-1c
17	SREBF1	ENSG00000072310	ENST00000486311	protein_coding	PUTATIVE	None	11289	473	156	17716026	17717690	-1	None	SREBP1, bHLHd1, SREBP-1c
17	SREBF1	ENSG00000072310	ENST00000478616	protein_coding	PUTATIVE	None	11289	492	163	17716224	17717669	-1	None	SREBP1, bHLHd1, SREBP-1c
17	SREBF1	ENSG00000072310	ENST00000447641	retained_intron	KNOWN	None	11289	None	None	17717658	17719709	-1	None	SREBP1, bHLHd1, SREBP-1c
17	SREBF1	ENSG00000072310	ENST00000581707	retained_intron	KNOWN	None	11289	None	None	17717717	17718687	-1	None	SREBP1, bHLHd1, SREBP-1c
17	SREBF1	ENSG00000072310	ENST00000490796	retained_intron	KNOWN	None	11289	None	None	17717930	17719698	-1	None	SREBP1, bHLHd1, SREBP-1c
17	SREBF1	ENSG00000072310	ENST00000584760	retained_intron	KNOWN	None	11289	None	None	17718911	17719652	-1	None	SREBP1, bHLHd1, SREBP-1c
17	SREBF1	ENSG00000072310	ENST00000471445	retained_intron	KNOWN	None	11289	None	None	17719771	17721064	-1	None	SREBP1, bHLHd1, SREBP-1c
17	SREBF1	ENSG00000072310	ENST00000469356	retained_intron	KNOWN	None	11289	None	None	17719839	17722056	-1	None	SREBP1, bHLHd1, SREBP-1c
17	SREBF1	ENSG00000072310	ENST00000580540	retained_intron	KNOWN	None	11289	None	None	17720437	17721214	-1	None	SREBP1, bHLHd1, SREBP-1c
17	SREBF1	ENSG00000072310	ENST00000583080	retained_intron	KNOWN	None	11289	None	None	17720738	17721463	-1	None	SREBP1, bHLHd1, SREBP-1c
17	SREBF1	ENSG00000072310	ENST00000487401	retained_intron	KNOWN	None	11289	None	None	17720840	17721659	-1	None	SREBP1, bHLHd1, SREBP-1c
17	SREBF1	ENSG00000072310	ENST00000470247	retained_intron	KNOWN	None	11289	None	None	17721537	17722548	-1	None	SREBP1, bHLHd1, SREBP-1c
17	SREBF1	ENSG00000072310	ENST00000423161	protein_coding	NOVEL	None	11289	976	324	17722341	17726932	-1	None	SREBP1, bHLHd1, SREBP-1c
17	SREBF1	ENSG00000072310	ENST00000583732	processed_transcript	KNOWN	None	11289	None	None	17722386	17726918	-1	None	SREBP1, bHLHd1, SREBP-1c
17	SREBF1	ENSG00000072310	ENST00000577897	protein_coding	NOVEL	None	11289	198	65	17722435	17723824	-1	None	SREBP1, bHLHd1, SREBP-1c
17	SREBF1	ENSG00000072310	ENST00000476994	retained_intron	KNOWN	None	11289	None	None	17723322	17726908	-1	None	SREBP1, bHLHd1, SREBP-1c
17	SREBF1	ENSG00000072310	ENST00000338854	protein_coding	KNOWN	None	11289	3216	1071	17715069	17740325	-1	None	SREBP1, bHLHd1, SREBP-1c
17	SREBF1	ENSG00000072310	ENST00000435530	protein_coding	KNOWN	None	11289	1413	470	17720880	17740131	-1	None	SREBP1, bHLHd1, SREBP-1c
2	SNORD92	ENSG00000264994	ENST00000585078	snoRNA	KNOWN	None	32754	None	None	29136530	29136614	1	None	HBII-316
2	SNORD53	ENSG00000265145	ENST00000579969	snoRNA	KNOWN	None	10203	None	None	29149933	29150010	1	RNU53	U53
Y	DNM1P24	ENSG00000242854	ENST00000441091	unprocessed_pseudogene	KNOWN	None	35171	None	None	26325463	26329652	-1	DNM1DN15@	DNM1DN15-1
HSCHR6_MHC_MANN	None	ENSG00000257123	ENST00000551364	protein_coding	NOVEL	None	None	375	124	32778165	32778539	-1	None	None
19	None	ENSG00000266935	ENST00000585467	lincRNA	KNOWN	None	None	None	None	37119695	37121092	1	None	None
HSCHR6_MHC_APD	HLA-DPA1	ENSG00000235844	ENST00000443117	protein_coding	KNOWN	None	4938	783	260	33015768	33031897	-1	HLA-DP1A	None
HSCHR6_MHC_APD	HLA-DPA1	ENSG00000235844	ENST00000485095	retained_intron	KNOWN	None	4938	None	None	33016206	33024796	-1	HLA-DP1A	None
HSCHR6_MHC_APD	HLA-DPA1	ENSG00000235844	ENST00000419452	protein_coding	KNOWN	None	4938	385	127	33018859	33020447	-1	HLA-DP1A	None
HSCHR6_MHC_APD	HLA-DPA1	ENSG00000235844	ENST00000447657	protein_coding	KNOWN	None	4938	636	211	33019897	33024818	-1	HLA-DP1A	None
HSCHR6_MHC_APD	HLA-DPA1	ENSG00000235844	ENST00000439571	protein_coding	KNOWN	None	4938	628	208	33020218	33031954	-1	HLA-DP1A	None
HSCHR6_MHC_APD	HLA-DPA1	ENSG00000235844	ENST00000463243	processed_transcript	KNOWN	None	4938	None	None	33020303	33031942	-1	HLA-DP1A	None
HSCHR6_MHC_APD	HLA-DPA1	ENSG00000235844	ENST00000480521	processed_transcript	KNOWN	None	4938	None	None	33020361	33024814	-1	HLA-DP1A	None
HSCHR6_MHC_APD	HLA-DPA1	ENSG00000235844	ENST00000413109	protein_coding	KNOWN	None	4938	69	22	33024683	33031962	-1	HLA-DP1A	None
HSCHR6_MHC_APD	HLA-DPA1	ENSG00000235844	ENST00000551196	protein_coding	KNOWN	None	4938	783	260	33016216	33024782	-1	HLA-DP1A	None
5	None	ENSG00000248555	ENST00000505712	lincRNA	KNOWN	None	None	None	None	89454156	89585755	-1	None	None
5	None	ENSG00000248555	ENST00000524094	retained_intron	KNOWN	None	None	None	None	89454173	89456450	-1	None	None
5	None	ENSG00000248555	ENST00000518436	lincRNA	KNOWN	None	None	None	None	89455806	89585798	-1	None	None
5	None	ENSG00000248555	ENST00000519336	lincRNA	KNOWN	None	None	None	None	89530743	89585888	-1	None	None
2	None	ENSG00000222224	ENST00000410292	misc_RNA	NOVEL	None	None	None	None	29150109	29150206	-1	None	None
2	None	ENSG00000265706	ENST00000577887	snoRNA	NOVEL	None	None	None	None	29150849	29150926	1	None	None
19	None	ENSG00000225975	ENST00000433232	lincRNA	KNOWN	None	None	None	None	37176342	37178351	-1	None	None
19	None	ENSG00000225975	ENST00000425254	lincRNA	KNOWN	None	None	None	None	37176367	37178312	-1	None	None
19	None	ENSG00000225975	ENST00000590952	lincRNA	KNOWN	None	None	None	None	37177329	37178339	-1	None	None
2	None	ENSG00000200283	ENST00000363413	misc_RNA	NOVEL	None	None	None	None	29195280	29195387	-1	None	None
2	None	ENSG00000263957	ENST00000582373	miRNA	NOVEL	None	None	None	None	29304136	29304217	-1	None	None
Y	None	ENSG00000230977	ENST00000418278	unprocessed_pseudogene	KNOWN	None	None	None	None	26328624	26329218	1	None	None
1	TNFRSF8	ENSG00000120949	ENST00000263932	protein_coding	KNOWN	CCDS144	11923	1788	595	12123434	12204264	1	CD30, D1S166E	KI-1
1	TNFRSF8	ENSG00000120949	ENST00000514649	nonsense_mediated_decay	KNOWN	None	11923	168	55	12123527	12203174	1	CD30, D1S166E	KI-1
1	TNFRSF8	ENSG00000120949	ENST00000413146	protein_coding	KNOWN	CCDS44057	11923	399	132	12185956	12204264	1	CD30, D1S166E	KI-1
1	TNFRSF8	ENSG00000120949	ENST00000479933	processed_transcript	KNOWN	None	11923	None	None	12185991	12204264	1	CD30, D1S166E	KI-1
1	TNFRSF8	ENSG00000120949	ENST00000417814	protein_coding	KNOWN	None	11923	1452	483	12123527	12203174	1	CD30, D1S166E	KI-1
2	None	ENSG00000229224	ENST00000446073	antisense	KNOWN	None	None	None	None	29319709	29320391	-1	None	None
Y	CSPG4P2Y	ENSG00000244231	ENST00000306853	processed_transcript	KNOWN	None	32424	None	None	26329581	26333378	-1	CSPG4LYP2, CSPG4P2	None
11	HBG1	ENSG00000213934	ENST00000330597	protein_coding	KNOWN	CCDS7754	4831	444	147	5269313	5271122	-1	None	None
2	None	ENSG00000266310	ENST00000577441	miRNA	NOVEL	None	None	None	None	29726773	29726859	-1	None	None
15	TTC23	ENSG00000103852	ENST00000459771	nonsense_mediated_decay	KNOWN	None	25730	1182	393	99676528	99789723	-1	None	FLJ12572, HCC-8
15	TTC23	ENSG00000103852	ENST00000394132	protein_coding	KNOWN	CCDS10379	25730	1344	447	99676528	99789763	-1	None	FLJ12572, HCC-8
15	TTC23	ENSG00000103852	ENST00000494567	retained_intron	KNOWN	None	25730	None	None	99676611	99762069	-1	None	FLJ12572, HCC-8
15	TTC23	ENSG00000103852	ENST00000558663	protein_coding	KNOWN	CCDS10379	25730	1344	447	99677758	99791428	-1	None	FLJ12572, HCC-8
15	TTC23	ENSG00000103852	ENST00000394135	protein_coding	KNOWN	CCDS10379	25730	1344	447	99677781	99791428	-1	None	FLJ12572, HCC-8
15	TTC23	ENSG00000103852	ENST00000480371	nonsense_mediated_decay	KNOWN	None	25730	220	72	99677845	99701952	-1	None	FLJ12572, HCC-8
15	TTC23	ENSG00000103852	ENST00000490688	retained_intron	KNOWN	None	25730	None	None	99678058	99679947	-1	None	FLJ12572, HCC-8
15	TTC23	ENSG00000103852	ENST00000434594	protein_coding	PUTATIVE	None	25730	790	262	99678147	99715325	-1	None	FLJ12572, HCC-8
15	TTC23	ENSG00000103852	ENST00000558438	processed_transcript	KNOWN	None	25730	None	None	99688717	99696484	-1	None	FLJ12572, HCC-8
15	TTC23	ENSG00000103852	ENST00000394129	protein_coding	PUTATIVE	None	25730	1176	391	99695569	99791422	-1	None	FLJ12572, HCC-8
15	TTC23	ENSG00000103852	ENST00000561365	protein_coding	KNOWN	None	25730	471	156	99758903	99791428	-1	None	FLJ12572, HCC-8
15	TTC23	ENSG00000103852	ENST00000560279	protein_coding	KNOWN	None	25730	455	150	99759103	99791428	-1	None	FLJ12572, HCC-8
15	TTC23	ENSG00000103852	ENST00000560860	protein_coding	KNOWN	None	25730	345	114	99759213	99789805	-1	None	FLJ12572, HCC-8
15	TTC23	ENSG00000103852	ENST00000560772	protein_coding	KNOWN	None	25730	249	82	99762001	99789815	-1	None	FLJ12572, HCC-8
15	TTC23	ENSG00000103852	ENST00000468436	retained_intron	KNOWN	None	25730	None	None	99768610	99789650	-1	None	FLJ12572, HCC-8
15	TTC23	ENSG00000103852	ENST00000558078	protein_coding	KNOWN	None	25730	168	55	99768750	99789812	-1	None	FLJ12572, HCC-8
15	TTC23	ENSG00000103852	ENST00000560235	protein_coding	KNOWN	None	25730	160	52	99768758	99789736	-1	None	FLJ12572, HCC-8
15	TTC23	ENSG00000103852	ENST00000490671	processed_transcript	KNOWN	None	25730	None	None	99781592	99789763	-1	None	FLJ12572, HCC-8
15	TTC23	ENSG00000103852	ENST00000394136	protein_coding	KNOWN	CCDS10379	25730	1344	447	99676528	99789815	-1	None	FLJ12572, HCC-8
15	TTC23	ENSG00000103852	ENST00000262074	protein_coding	KNOWN	CCDS10379	25730	1344	447	99676528	99789815	-1	None	FLJ12572, HCC-8
15	TTC23	ENSG00000103852	ENST00000558613	protein_coding	KNOWN	CCDS10379	25730	1344	447	99676528	99789815	-1	None	FLJ12572, HCC-8
15	TTC23	ENSG00000103852	ENST00000394130	protein_coding	KNOWN	None	25730	1182	393	99679634	99789815	-1	None	FLJ12572, HCC-8
4	RNU4-33P	ENSG00000201186	ENST00000364316	snRNA	KNOWN	None	46969	None	None	120288717	120288801	1	None	None
9	None	ENSG00000236005	ENST00000454576	processed_pseudogene	KNOWN	None	None	None	None	110296671	110297443	1	None	None
Y	CSPG4P3Y	ENSG00000172342	ENST00000418188	unprocessed_pseudogene	KNOWN	None	38111	None	None	26332656	26338017	-1	CSPG4P3, CSPG4P6Y	None
3	PLCD1	ENSG00000187091	ENST00000417185	retained_intron	KNOWN	None	9060	None	None	38048987	38049826	-1	None	None
3	PLCD1	ENSG00000187091	ENST00000461445	retained_intron	KNOWN	None	9060	None	None	38048987	38071050	-1	None	None
3	PLCD1	ENSG00000187091	ENST00000463876	protein_coding	KNOWN	CCDS46793	9060	2334	777	38048989	38066278	-1	None	None
3	PLCD1	ENSG00000187091	ENST00000334661	protein_coding	KNOWN	CCDS2671	9060	2271	756	38048989	38071253	-1	None	None
3	PLCD1	ENSG00000187091	ENST00000495395	retained_intron	KNOWN	None	9060	None	None	38049765	38050255	-1	None	None
3	PLCD1	ENSG00000187091	ENST00000484829	retained_intron	KNOWN	None	9060	None	None	38049954	38051913	-1	None	None
3	PLCD1	ENSG00000187091	ENST00000495367	retained_intron	KNOWN	None	9060	None	None	38050069	38051374	-1	None	None
3	PLCD1	ENSG00000187091	ENST00000479619	processed_transcript	KNOWN	None	9060	None	None	38052784	38060525	-1	None	None
3	PLCD1	ENSG00000187091	ENST00000473834	processed_transcript	PUTATIVE	None	9060	None	None	38061720	38066067	-1	None	None
16	CES1P1	ENSG00000228695	ENST00000421606	transcribed_unprocessed_pseudogene	KNOWN	None	18546	None	None	55794460	55828070	1	CES4	PCE-3, CESR, CES1A3
16	CES1P1	ENSG00000228695	ENST00000574030	processed_transcript	KNOWN	None	18546	None	None	55794478	55807423	1	CES4	PCE-3, CESR, CES1A3
16	CES1P1	ENSG00000228695	ENST00000571348	processed_transcript	KNOWN	None	18546	None	None	55794511	55808838	1	CES4	PCE-3, CESR, CES1A3
16	CES1P1	ENSG00000228695	ENST00000573705	processed_transcript	KNOWN	None	18546	None	None	55794513	55807833	1	CES4	PCE-3, CESR, CES1A3
16	CES1P1	ENSG00000228695	ENST00000427184	unprocessed_pseudogene	KNOWN	None	18546	None	None	55817523	55828067	1	CES4	PCE-3, CESR, CES1A3
2	RN7SL516P	ENSG00000242699	ENST00000496127	misc_RNA	KNOWN	None	46532	None	None	29903895	29904189	-1	None	None
6	TTK	ENSG00000112742	ENST00000509894	protein_coding	NOVEL	CCDS55040	12401	2571	856	80713604	80752244	1	None	MPS1, MPS1L1, CT96, MPH1
6	TTK	ENSG00000112742	ENST00000230510	protein_coding	NOVEL	CCDS55040	12401	2571	856	80713864	80752244	1	None	MPS1, MPS1L1, CT96, MPH1
6	TTK	ENSG00000112742	ENST00000369798	protein_coding	KNOWN	CCDS4993	12401	2574	857	80714322	80752244	1	None	MPS1, MPS1L1, CT96, MPH1
6	TTK	ENSG00000112742	ENST00000509313	nonsense_mediated_decay	KNOWN	None	12401	240	79	80714367	80718133	1	None	MPS1, MPS1L1, CT96, MPH1
6	TTK	ENSG00000112742	ENST00000502580	protein_coding	KNOWN	None	12401	417	138	80714427	80718157	1	None	MPS1, MPS1L1, CT96, MPH1
6	TTK	ENSG00000112742	ENST00000511260	protein_coding	KNOWN	None	12401	452	149	80714551	80718192	1	None	MPS1, MPS1L1, CT96, MPH1
6	TTK	ENSG00000112742	ENST00000504040	protein_coding	KNOWN	None	12401	527	174	80715519	80720588	1	None	MPS1, MPS1L1, CT96, MPH1
6	TTK	ENSG00000112742	ENST00000430061	retained_intron	KNOWN	None	12401	None	None	80715658	80721270	1	None	MPS1, MPS1L1, CT96, MPH1
6	TTK	ENSG00000112742	ENST00000515751	processed_transcript	KNOWN	None	12401	None	None	80723172	80737667	1	None	MPS1, MPS1L1, CT96, MPH1
6	TTK	ENSG00000112742	ENST00000504590	retained_intron	KNOWN	None	12401	None	None	80747270	80749988	1	None	MPS1, MPS1L1, CT96, MPH1
19	None	ENSG00000267353	ENST00000588717	lincRNA	KNOWN	None	None	None	None	37264614	37266810	-1	None	None
4	CXCL1P	ENSG00000250339	ENST00000502804	processed_pseudogene	KNOWN	None	10641	None	None	74809728	74810041	-1	SCYB1P	MGSAP, GROP, GRO1P
2	None	ENSG00000230737	ENST00000421411	antisense	KNOWN	None	None	None	None	30113237	30115220	1	None	None
X	KDM5C	ENSG00000126012	ENST00000375401	protein_coding	KNOWN	CCDS14351	11114	4683	1560	53221334	53254604	-1	SMCX, JARID1C	DXS1272E, XE169
X	KDM5C	ENSG00000126012	ENST00000404049	protein_coding	KNOWN	None	11114	4680	1559	53221439	53254358	-1	SMCX, JARID1C	DXS1272E, XE169
X	KDM5C	ENSG00000126012	ENST00000375379	protein_coding	KNOWN	None	11114	4674	1557	53222111	53254604	-1	SMCX, JARID1C	DXS1272E, XE169
X	KDM5C	ENSG00000126012	ENST00000375383	protein_coding	KNOWN	None	11114	4551	1516	53222111	53254604	-1	SMCX, JARID1C	DXS1272E, XE169
X	KDM5C	ENSG00000126012	ENST00000477109	processed_transcript	KNOWN	None	11114	None	None	53226839	53227748	-1	SMCX, JARID1C	DXS1272E, XE169
X	KDM5C	ENSG00000126012	ENST00000497100	retained_intron	KNOWN	None	11114	None	None	53227672	53240840	-1	SMCX, JARID1C	DXS1272E, XE169
X	KDM5C	ENSG00000126012	ENST00000465402	processed_transcript	KNOWN	None	11114	None	None	53230461	53239729	-1	SMCX, JARID1C	DXS1272E, XE169
X	KDM5C	ENSG00000126012	ENST00000481369	retained_intron	KNOWN	None	11114	None	None	53230486	53231955	-1	SMCX, JARID1C	DXS1272E, XE169
X	KDM5C	ENSG00000126012	ENST00000497995	retained_intron	KNOWN	None	11114	None	None	53244896	53246331	-1	SMCX, JARID1C	DXS1272E, XE169
X	KDM5C	ENSG00000126012	ENST00000429877	nonsense_mediated_decay	KNOWN	None	11114	162	53	53246992	53254390	-1	SMCX, JARID1C	DXS1272E, XE169
X	KDM5C	ENSG00000126012	ENST00000495519	processed_transcript	KNOWN	None	11114	None	None	53247011	53247919	-1	SMCX, JARID1C	DXS1272E, XE169
X	KDM5C	ENSG00000126012	ENST00000467093	processed_transcript	KNOWN	None	11114	None	None	53247035	53251000	-1	SMCX, JARID1C	DXS1272E, XE169
X	KDM5C	ENSG00000126012	ENST00000428012	nonsense_mediated_decay	KNOWN	None	11114	300	99	53247497	53254376	-1	SMCX, JARID1C	DXS1272E, XE169
X	KDM5C	ENSG00000126012	ENST00000349663	nonsense_mediated_decay	KNOWN	None	11114	225	74	53250887	53254380	-1	SMCX, JARID1C	DXS1272E, XE169
X	KDM5C	ENSG00000126012	ENST00000452825	protein_coding	KNOWN	CCDS55417	11114	4140	1379	53220503	53254604	-1	SMCX, JARID1C	DXS1272E, XE169
11	HARBI1	ENSG00000180423	ENST00000326737	protein_coding	KNOWN	CCDS7920	26522	1050	349	46624411	46638777	-1	C11orf77	FLJ32675
11	HARBI1	ENSG00000180423	ENST00000529192	protein_coding	KNOWN	None	26522	226	74	46637562	46638399	-1	C11orf77	FLJ32675
11	HARBI1	ENSG00000180423	ENST00000532281	protein_coding	KNOWN	None	26522	128	41	46637660	46639459	-1	C11orf77	FLJ32675
2	None	ENSG00000197644	ENST00000359823	antisense	KNOWN	None	None	None	None	30122463	30130065	1	None	None
4	RN7SL218P	ENSG00000244194	ENST00000464637	misc_RNA	KNOWN	None	46234	None	None	74877295	74877595	1	None	None
19	None	ENSG00000267254	ENST00000587413	antisense	KNOWN	None	None	None	None	37288420	37293554	1	None	None
19	None	ENSG00000267254	ENST00000589556	antisense	KNOWN	None	None	None	None	37288427	37293102	1	None	None
19	None	ENSG00000267254	ENST00000588906	antisense	KNOWN	None	None	None	None	37288465	37319003	1	None	None
19	None	ENSG00000267254	ENST00000587278	antisense	KNOWN	None	None	None	None	37292111	37319017	1	None	None
22	RIMBP3C	ENSG00000183246	ENST00000331505	protein_coding	KNOWN	None	33892	4638	1545	21899646	21905120	-1	None	None
22	RIMBP3C	ENSG00000183246	ENST00000433039	protein_coding	KNOWN	CCDS46669	33892	4920	1639	21899967	21905750	-1	None	None
8	GNRH1	ENSG00000147437	ENST00000421054	protein_coding	KNOWN	CCDS43725	4419	279	92	25276776	25281747	-1	GRH, GNRH, LHRH	None
8	GNRH1	ENSG00000147437	ENST00000276414	protein_coding	KNOWN	CCDS43725	4419	279	92	25276778	25282170	-1	GRH, GNRH, LHRH	None
4	PPBPP2	ENSG00000248848	ENST00000513150	processed_transcript	KNOWN	None	16981	None	None	74919755	74921116	-1	PPBPL2	SPBPBP
4	PPBPP2	ENSG00000248848	ENST00000514391	transcribed_unprocessed_pseudogene	KNOWN	None	16981	None	None	74919758	74920537	-1	PPBPL2	SPBPBP
2	None	ENSG00000233862	ENST00000453606	antisense	KNOWN	None	None	None	None	30273932	30363532	-1	None	None
2	None	ENSG00000233862	ENST00000420016	antisense	KNOWN	None	None	None	None	30334041	30359199	-1	None	None
2	None	ENSG00000233862	ENST00000455424	antisense	KNOWN	None	None	None	None	30355211	30366670	-1	None	None
22	None	ENSG00000225413	ENST00000432249	lincRNA	KNOWN	None	None	None	None	23854681	23855789	-1	None	None
Y	None	ENSG00000172332	ENST00000423852	unprocessed_pseudogene	KNOWN	None	None	None	None	26355714	26361728	-1	None	None
Y	None	ENSG00000172332	ENST00000338706	unprocessed_pseudogene	KNOWN	None	None	None	None	26356114	26360978	-1	None	None
2	None	ENSG00000221383	ENST00000408456	miRNA	NOVEL	None	None	None	None	30288990	30289079	-1	None	None
19	MIR515-1	ENSG00000207616	ENST00000384884	miRNA	KNOWN	None	32094	None	None	54182257	54182339	1	MIRN515-1	hsa-mir-515-1
9	QRFP	ENSG00000188710	ENST00000343079	protein_coding	KNOWN	CCDS6936	29982	411	136	133768815	133769225	-1	None	26RFa, P518
2	None	ENSG00000225943	ENST00000419483	processed_pseudogene	KNOWN	None	None	None	None	30299959	30301138	1	None	None
22	None	ENSG00000224277	ENST00000454863	antisense	KNOWN	None	None	None	None	23909251	23915309	1	None	None
22	None	ENSG00000224277	ENST00000458318	antisense	KNOWN	None	None	None	None	23909251	23915694	1	None	None
19	None	ENSG00000267612	ENST00000585880	lincRNA	KNOWN	None	None	None	None	9841529	9842619	1	None	None
17	LGALS9B	ENSG00000170298	ENST00000423676	protein_coding	KNOWN	None	24842	1071	356	20352708	20370847	-1	None	None
17	LGALS9B	ENSG00000170298	ENST00000578481	nonsense_mediated_decay	KNOWN	None	24842	108	35	20353219	20370852	-1	None	None
17	LGALS9B	ENSG00000170298	ENST00000578724	retained_intron	KNOWN	None	24842	None	None	20354914	20355484	-1	None	None
17	LGALS9B	ENSG00000170298	ENST00000581490	retained_intron	KNOWN	None	24842	None	None	20355135	20356786	-1	None	None
17	LGALS9B	ENSG00000170298	ENST00000584703	nonsense_mediated_decay	KNOWN	None	24842	156	51	20359874	20361573	-1	None	None
17	LGALS9B	ENSG00000170298	ENST00000324290	protein_coding	KNOWN	CCDS42283	24842	1068	355	20353176	20370848	-1	None	None
19	None	ENSG00000267370	ENST00000588113	unprocessed_pseudogene	KNOWN	None	None	None	None	9866828	9867539	-1	None	None
2	None	ENSG00000207187	ENST00000384458	snoRNA	NOVEL	None	None	None	None	30410300	30410432	1	None	None
19	None	ENSG00000206669	ENST00000383942	misc_RNA	NOVEL	None	None	None	None	37349129	37349231	-1	None	None
19	UBE2L4	ENSG00000267741	ENST00000587688	processed_pseudogene	KNOWN	None	12489	None	None	9885173	9885636	1	None	None
4	None	ENSG00000251017	ENST00000514414	processed_pseudogene	KNOWN	None	None	None	None	74951712	74952389	-1	None	None
7	SMKR1	ENSG00000240204	ENST00000462322	protein_coding	PUTATIVE	CCDS59077	43561	198	65	129142320	129152773	1	None	None
7	SMKR1	ENSG00000240204	ENST00000488846	protein_coding	PUTATIVE	None	43561	129	42	129142633	129152479	1	None	None
2	None	ENSG00000231712	ENST00000435671	processed_pseudogene	KNOWN	None	None	None	None	30432861	30433173	1	None	None
19	RPL31P61	ENSG00000243297	ENST00000496160	processed_pseudogene	KNOWN	None	35635	None	None	37392644	37393019	1	None	None
4	None	ENSG00000265720	ENST00000583318	miRNA	NOVEL	None	None	None	None	75192603	75192680	1	None	None
22	None	ENSG00000211683	ENST00000390329	processed_transcript	PUTATIVE	None	None	None	None	23974071	23981128	-1	None	None
2	None	ENSG00000256261	ENST00000541067	pseudogene	KNOWN	None	None	None	None	30481193	30482893	1	None	None
HSCHR6_MHC_MANN	HLA-DQB1	ENSG00000225824	ENST00000475182	retained_intron	KNOWN	None	4944	None	None	32779140	32786683	-1	HLA-DQB	IDDM1, CELIAC1
HSCHR6_MHC_MANN	HLA-DQB1	ENSG00000225824	ENST00000473366	nonsense_mediated_decay	KNOWN	None	4944	411	136	32779140	32786683	-1	HLA-DQB	IDDM1, CELIAC1
HSCHR6_MHC_MANN	HLA-DQB1	ENSG00000225824	ENST00000415926	protein_coding	KNOWN	None	4944	675	224	32779140	32786693	-1	HLA-DQB	IDDM1, CELIAC1
HSCHR6_MHC_MANN	HLA-DQB1	ENSG00000225824	ENST00000428219	protein_coding	KNOWN	None	4944	405	134	32779140	32786697	-1	HLA-DQB	IDDM1, CELIAC1
HSCHR6_MHC_MANN	HLA-DQB1	ENSG00000225824	ENST00000419914	protein_coding	KNOWN	None	4944	786	261	32779140	32786739	-1	HLA-DQB	IDDM1, CELIAC1
HSCHR6_MHC_MANN	HLA-DQB1	ENSG00000225824	ENST00000421888	protein_coding	KNOWN	None	4944	810	269	32779140	32786862	-1	HLA-DQB	IDDM1, CELIAC1
HSCHR6_MHC_MANN	HLA-DQB1	ENSG00000225824	ENST00000424806	protein_coding	KNOWN	None	4944	786	261	32779140	32788434	-1	HLA-DQB	IDDM1, CELIAC1
HSCHR6_MHC_MANN	HLA-DQB1	ENSG00000225824	ENST00000493020	processed_transcript	KNOWN	None	4944	None	None	32779559	32780114	-1	HLA-DQB	IDDM1, CELIAC1
HSCHR6_MHC_MANN	HLA-DQB1	ENSG00000225824	ENST00000456954	protein_coding	KNOWN	None	4944	434	143	32781706	32786702	-1	HLA-DQB	IDDM1, CELIAC1
HSCHR6_MHC_MANN	HLA-DQB1	ENSG00000225824	ENST00000547498	protein_coding	KNOWN	None	4944	717	238	32779273	32786687	-1	HLA-DQB	IDDM1, CELIAC1
19	None	ENSG00000265379	ENST00000577851	miRNA	NOVEL	None	None	None	None	9886685	9886771	1	None	None
19	None	ENSG00000266950	ENST00000590046	lincRNA	KNOWN	None	None	None	None	9904297	9912977	1	None	None
19	None	ENSG00000200237	ENST00000363367	snoRNA	NOVEL	None	None	None	None	9930630	9930770	1	None	None
2	None	ENSG00000235997	ENST00000421976	lincRNA	KNOWN	None	None	None	None	30569525	30575297	1	None	None
10	CNNM2	ENSG00000148842	ENST00000369875	protein_coding	KNOWN	CCDS7543	103	1659	552	104678074	104687375	1	ACDP2	None
10	CNNM2	ENSG00000148842	ENST00000433628	protein_coding	NOVEL	CCDS44475	103	2562	853	104678114	104838108	1	ACDP2	None
10	CNNM2	ENSG00000148842	ENST00000457502	protein_coding	PUTATIVE	None	103	1902	633	104678864	104838344	1	ACDP2	None
10	CNNM2	ENSG00000148842	ENST00000475511	processed_transcript	KNOWN	None	103	None	None	104828193	104836786	1	ACDP2	None
10	CNNM2	ENSG00000148842	ENST00000369878	protein_coding	KNOWN	CCDS44474	103	2628	875	104678114	104838238	1	ACDP2	None
6	CHCHD2P4	ENSG00000213118	ENST00000418701	processed_pseudogene	KNOWN	None	39588	None	None	134714280	134715038	-1	None	None
19	None	ENSG00000267119	ENST00000585756	processed_pseudogene	KNOWN	None	None	None	None	9930817	9931131	1	None	None
2	None	ENSG00000221377	ENST00000408450	miRNA	NOVEL	None	None	None	None	30655219	30655314	-1	None	None
Y	GOLGA2P2Y	ENSG00000239533	ENST00000398377	processed_transcript	KNOWN	None	16479	None	None	26356114	26360978	-1	GOLGA2LY1, GOLGA2P2	None
Y	GOLGA2P2Y	ENSG00000239533	ENST00000516761	miRNA	KNOWN	None	16479	None	None	26356197	26356279	-1	GOLGA2LY1, GOLGA2P2	None
2	None	ENSG00000230118	ENST00000455192	processed_pseudogene	KNOWN	None	None	None	None	30969310	30969567	-1	None	None
2	None	ENSG00000234579	ENST00000449780	antisense	KNOWN	None	None	None	None	31209805	31214292	1	None	None
6	None	ENSG00000218483	ENST00000401875	processed_pseudogene	KNOWN	None	None	None	None	75320165	75320431	-1	None	None
4	RXFP1	ENSG00000171509	ENST00000460056	protein_coding	PUTATIVE	None	19718	2031	676	159236463	159573364	1	LGR7	RXFPR1
4	RXFP1	ENSG00000171509	ENST00000472969	processed_transcript	PUTATIVE	None	19718	None	None	159442878	159465320	1	LGR7	RXFPR1
4	RXFP1	ENSG00000171509	ENST00000307765	protein_coding	KNOWN	CCDS43276	19718	2274	757	159442878	159574524	1	LGR7	RXFPR1
4	RXFP1	ENSG00000171509	ENST00000342048	nonsense_mediated_decay	KNOWN	None	19718	474	157	159443128	159574524	1	LGR7	RXFPR1
4	RXFP1	ENSG00000171509	ENST00000471616	nonsense_mediated_decay	KNOWN	None	19718	570	189	159443129	159567831	1	LGR7	RXFPR1
4	RXFP1	ENSG00000171509	ENST00000343542	protein_coding	NOVEL	CCDS58929	19718	2130	709	159443129	159573207	1	LGR7	RXFPR1
4	RXFP1	ENSG00000171509	ENST00000470033	protein_coding	NOVEL	CCDS58930	19718	2175	724	159443129	159573207	1	LGR7	RXFPR1
4	RXFP1	ENSG00000171509	ENST00000484785	processed_transcript	PUTATIVE	None	19718	None	None	159465384	159494243	1	LGR7	RXFPR1
4	RXFP1	ENSG00000171509	ENST00000423548	protein_coding	KNOWN	None	19718	570	189	159442929	159531818	1	LGR7	RXFPR1
4	RXFP1	ENSG00000171509	ENST00000448688	protein_coding	KNOWN	None	19718	1959	652	159443043	159573932	1	LGR7	RXFPR1
16	PHKB	ENSG00000102893	ENST00000566037	protein_coding	KNOWN	None	8927	688	228	47495034	47581458	1	None	None
16	PHKB	ENSG00000102893	ENST00000566044	protein_coding	KNOWN	CCDS42161	8927	3261	1086	47495206	47733656	1	None	None
16	PHKB	ENSG00000102893	ENST00000299167	protein_coding	KNOWN	None	8927	3282	1093	47495237	47735434	1	None	None
16	PHKB	ENSG00000102893	ENST00000323584	protein_coding	KNOWN	CCDS10729	8927	3282	1093	47495238	47734254	1	None	None
16	PHKB	ENSG00000102893	ENST00000566721	processed_transcript	PUTATIVE	None	8927	None	None	47495240	47497433	1	None	None
16	PHKB	ENSG00000102893	ENST00000565424	retained_intron	KNOWN	None	8927	None	None	47495242	47582075	1	None	None
16	PHKB	ENSG00000102893	ENST00000567402	processed_transcript	KNOWN	None	8927	None	None	47495247	47624749	1	None	None
16	PHKB	ENSG00000102893	ENST00000563376	protein_coding	KNOWN	None	8927	451	149	47495261	47545642	1	None	None
16	PHKB	ENSG00000102893	ENST00000567200	protein_coding	PUTATIVE	None	8927	31	9	47496023	47497880	1	None	None
16	PHKB	ENSG00000102893	ENST00000564873	protein_coding	KNOWN	None	8927	221	72	47496578	47533742	1	None	None
16	PHKB	ENSG00000102893	ENST00000570047	nonsense_mediated_decay	KNOWN	None	8927	563	186	47533667	47621669	1	None	None
16	PHKB	ENSG00000102893	ENST00000566436	processed_transcript	PUTATIVE	None	8927	None	None	47628061	47631947	1	None	None
16	PHKB	ENSG00000102893	ENST00000568439	protein_coding	PUTATIVE	None	8927	229	75	47630339	47653340	1	None	None
16	PHKB	ENSG00000102893	ENST00000568171	retained_intron	KNOWN	None	8927	None	None	47684741	47698301	1	None	None
16	PHKB	ENSG00000102893	ENST00000566275	protein_coding	PUTATIVE	None	8927	633	210	47694614	47710320	1	None	None
16	PHKB	ENSG00000102893	ENST00000566319	retained_intron	KNOWN	None	8927	None	None	47698701	47734259	1	None	None
16	PHKB	ENSG00000102893	ENST00000564711	protein_coding	PUTATIVE	None	8927	236	77	47730383	47733605	1	None	None
16	PHKB	ENSG00000102893	ENST00000455779	protein_coding	KNOWN	None	8927	3261	1086	47495210	47735434	1	None	None
Y	RN7SL818P	ENSG00000242425	ENST00000485099	misc_RNA	KNOWN	None	46834	None	None	26357107	26357382	-1	None	None
2	None	ENSG00000216093	ENST00000401274	miRNA	NOVEL	None	None	None	None	31258419	31258510	1	None	None
4	None	ENSG00000248774	ENST00000507803	antisense	KNOWN	None	None	None	None	174243357	174250845	-1	None	None
HSCHR6_MHC_DBB	OR2W1	ENSG00000229328	ENST00000446776	protein_coding	KNOWN	None	8281	963	320	29012004	29013031	-1	None	hs6M1-15
2	RNA5SP90	ENSG00000201671	ENST00000364801	rRNA	KNOWN	None	42888	None	None	31451178	31451276	1	RN5S90	None
17	COA3	ENSG00000183978	ENST00000586680	nonsense_mediated_decay	KNOWN	None	24990	216	71	40947165	40950708	-1	CCDC56	HSPC009, MITRAC12
17	COA3	ENSG00000183978	ENST00000328434	protein_coding	KNOWN	CCDS32660	24990	321	106	40949652	40950722	-1	CCDC56	HSPC009, MITRAC12
Y	UBE2Q2P4Y	ENSG00000225491	ENST00000433767	unprocessed_pseudogene	KNOWN	None	38429	None	None	26378973	26385131	-1	UBE2Q2PY1	None
6	None	ENSG00000224583	ENST00000421318	lincRNA	KNOWN	None	None	None	None	75352100	75361718	1	None	None
4	SLC4A4	ENSG00000080493	ENST00000264485	protein_coding	KNOWN	CCDS43236	11030	3240	1079	72053003	72435434	1	SLC4A5	NBC1, HNBC1, NBC2, pNBC, hhNMC
4	SLC4A4	ENSG00000080493	ENST00000351898	protein_coding	KNOWN	None	11030	2988	995	72053044	72434175	1	SLC4A5	NBC1, HNBC1, NBC2, pNBC, hhNMC
4	SLC4A4	ENSG00000080493	ENST00000514331	processed_transcript	KNOWN	None	11030	None	None	72120935	72339024	1	SLC4A5	NBC1, HNBC1, NBC2, pNBC, hhNMC
4	SLC4A4	ENSG00000080493	ENST00000512686	protein_coding	NOVEL	None	11030	1941	646	72204770	72339036	1	SLC4A5	NBC1, HNBC1, NBC2, pNBC, hhNMC
4	SLC4A4	ENSG00000080493	ENST00000340595	protein_coding	KNOWN	CCDS3549	11030	3108	1035	72204770	72437804	1	SLC4A5	NBC1, HNBC1, NBC2, pNBC, hhNMC
4	SLC4A4	ENSG00000080493	ENST00000425175	protein_coding	KNOWN	CCDS47071	11030	3285	1094	72053003	72437804	1	SLC4A5	NBC1, HNBC1, NBC2, pNBC, hhNMC
2	None	ENSG00000213620	ENST00000327215	processed_pseudogene	KNOWN	None	None	None	None	31513628	31514470	1	None	None
2	NCKAP5	ENSG00000176771	ENST00000409261	protein_coding	KNOWN	CCDS46418	29847	5730	1909	133429374	134326031	-1	None	NAP5, ERIH1, ERIH2
2	NCKAP5	ENSG00000176771	ENST00000409213	protein_coding	KNOWN	CCDS46417	29847	1773	590	133430622	134326034	-1	None	NAP5, ERIH1, ERIH2
2	NCKAP5	ENSG00000176771	ENST00000473859	processed_transcript	KNOWN	None	29847	None	None	133489522	133539596	-1	None	NAP5, ERIH1, ERIH2
2	NCKAP5	ENSG00000176771	ENST00000427594	protein_coding	PUTATIVE	None	29847	344	113	133879542	134275084	-1	None	NAP5, ERIH1, ERIH2
2	NCKAP5	ENSG00000176771	ENST00000358991	protein_coding	KNOWN	None	29847	207	68	133971288	134284756	-1	None	NAP5, ERIH1, ERIH2
2	NCKAP5	ENSG00000176771	ENST00000317721	protein_coding	KNOWN	CCDS46418	29847	5730	1909	133430862	134275097	-1	None	NAP5, ERIH1, ERIH2
2	NCKAP5	ENSG00000176771	ENST00000405974	protein_coding	KNOWN	CCDS46417	29847	1773	590	133430862	134275097	-1	None	NAP5, ERIH1, ERIH2
22	UBE2L3	ENSG00000185651	ENST00000342192	protein_coding	KNOWN	CCDS13790	12488	465	154	21921836	21978323	1	None	UBCH7
22	UBE2L3	ENSG00000185651	ENST00000496722	retained_intron	KNOWN	None	12488	None	None	21922019	21978323	1	None	UBCH7
22	UBE2L3	ENSG00000185651	ENST00000458578	protein_coding	KNOWN	CCDS58795	12488	639	212	21903736	21976541	1	None	UBCH7
22	UBE2L3	ENSG00000185651	ENST00000545681	protein_coding	KNOWN	CCDS58796	12488	369	122	21922026	21976638	1	None	UBCH7
16	None	ENSG00000259877	ENST00000570267	antisense	KNOWN	None	None	None	None	89281638	89284061	-1	None	None
6	None	ENSG00000264884	ENST00000584571	miRNA	NOVEL	None	None	None	None	75429462	75429559	-1	None	None
6	None	ENSG00000219736	ENST00000406203	processed_pseudogene	KNOWN	None	None	None	None	75558793	75560200	-1	None	None
16	None	ENSG00000260659	ENST00000563182	antisense	KNOWN	None	None	None	None	89293215	89295100	-1	None	None
17	CCDC43	ENSG00000180329	ENST00000588687	protein_coding	PUTATIVE	None	26472	332	109	42750437	42767093	-1	None	FLJ31795
17	CCDC43	ENSG00000180329	ENST00000457422	protein_coding	PUTATIVE	CCDS45705	26472	465	154	42754808	42767147	-1	None	FLJ31795
17	CCDC43	ENSG00000180329	ENST00000315286	protein_coding	KNOWN	CCDS45704	26472	675	224	42754826	42767130	-1	None	FLJ31795
17	CCDC43	ENSG00000180329	ENST00000588210	protein_coding	NOVEL	None	26472	684	227	42754851	42767131	-1	None	FLJ31795
17	CCDC43	ENSG00000180329	ENST00000592333	retained_intron	KNOWN	None	26472	None	None	42759099	42767113	-1	None	FLJ31795
Y	LINC00265-2P	ENSG00000224827	ENST00000413372	processed_pseudogene	KNOWN	None	38523	None	None	26422392	26423173	1	NCRNA00265B, NCRNA00265-2P	None
HSCHR6_MHC_DBB	OR2B3	ENSG00000225736	ENST00000456140	protein_coding	KNOWN	None	8238	942	313	29053997	29055102	-1	OR2B3P	OR6-4
16	None	ENSG00000260637	ENST00000566427	lincRNA	KNOWN	None	None	None	None	89323587	89333938	-1	None	None
2	SRD5A2	ENSG00000049319	ENST00000405650	processed_transcript	KNOWN	None	11285	None	None	31747550	31806136	-1	None	None
2	SRD5A2	ENSG00000049319	ENST00000233139	processed_transcript	KNOWN	None	11285	None	None	31749656	31805969	-1	None	None
Y	CICP2	ENSG00000233740	ENST00000420675	processed_pseudogene	KNOWN	None	23935	None	None	26424484	26427287	-1	None	None
6	None	ENSG00000225793	ENST00000438676	lincRNA	KNOWN	None	None	None	None	75994730	76006283	1	None	None
6	None	ENSG00000225793	ENST00000607221	lincRNA	KNOWN	None	None	None	None	75994749	76001217	1	None	None
6	None	ENSG00000225793	ENST00000607799	lincRNA	KNOWN	None	None	None	None	75994762	76006719	1	None	None
16	None	ENSG00000260279	ENST00000563087	antisense	KNOWN	None	None	None	None	89363916	89364717	1	None	None
16	None	ENSG00000260279	ENST00000564394	antisense	KNOWN	None	None	None	None	89364264	89364724	1	None	None
Y	LINC00266-2P	ENSG00000248792	ENST00000509776	unprocessed_pseudogene	KNOWN	None	38529	None	None	26424828	26437493	1	NCRNA00266B, NCRNA00266-2P	NCRNA00266Y1
9	FIBCD1	ENSG00000130720	ENST00000444139	protein_coding	KNOWN	None	25922	932	309	133777827	133805366	-1	None	FLJ14810
9	FIBCD1	ENSG00000130720	ENST00000372338	protein_coding	KNOWN	CCDS6937	25922	1386	461	133777827	133814237	-1	None	FLJ14810
9	FIBCD1	ENSG00000130720	ENST00000372337	protein_coding	PUTATIVE	None	25922	912	303	133779063	133811763	-1	None	FLJ14810
9	FIBCD1	ENSG00000130720	ENST00000451466	protein_coding	KNOWN	None	25922	867	288	133787258	133814527	-1	None	FLJ14810
9	FIBCD1	ENSG00000130720	ENST00000486250	processed_transcript	KNOWN	None	25922	None	None	133813404	133814526	-1	None	FLJ14810
9	FIBCD1	ENSG00000130720	ENST00000463475	processed_transcript	KNOWN	None	25922	None	None	133813404	133814673	-1	None	FLJ14810
9	FIBCD1	ENSG00000130720	ENST00000253018	protein_coding	KNOWN	None	25922	597	198	133779335	133814239	-1	None	FLJ14810
9	FIBCD1	ENSG00000130720	ENST00000448616	protein_coding	KNOWN	CCDS6937	25922	1386	461	133777825	133814455	-1	None	FLJ14810
HSCHR6_MHC_DBB	OR2J3	ENSG00000229866	ENST00000419260	protein_coding	KNOWN	None	8261	936	311	29079681	29080616	1	None	OR6-6
16	None	ENSG00000261253	ENST00000562995	antisense	KNOWN	None	None	None	None	89387541	89391518	1	None	None
16	None	ENSG00000261253	ENST00000565667	antisense	KNOWN	None	None	None	None	89389632	89390941	1	None	None
22	GUSBP11	ENSG00000228315	ENST00000430357	processed_transcript	KNOWN	None	42325	None	None	23980674	23995073	-1	None	None
22	GUSBP11	ENSG00000228315	ENST00000455485	processed_transcript	KNOWN	None	42325	None	None	23980674	24035338	-1	None	None
22	GUSBP11	ENSG00000228315	ENST00000451837	processed_transcript	KNOWN	None	42325	None	None	23980674	24059508	-1	None	None
22	GUSBP11	ENSG00000228315	ENST00000452737	processed_transcript	KNOWN	None	42325	None	None	23980674	24059508	-1	None	None
22	GUSBP11	ENSG00000228315	ENST00000445682	processed_transcript	KNOWN	None	42325	None	None	23980674	24059543	-1	None	None
22	GUSBP11	ENSG00000228315	ENST00000422506	processed_transcript	KNOWN	None	42325	None	None	23980674	24059543	-1	None	None
22	GUSBP11	ENSG00000228315	ENST00000423913	processed_transcript	KNOWN	None	42325	None	None	23995047	24032480	-1	None	None
22	GUSBP11	ENSG00000228315	ENST00000421064	processed_transcript	KNOWN	None	42325	None	None	23995356	24059534	-1	None	None
22	GUSBP11	ENSG00000228315	ENST00000434893	processed_transcript	KNOWN	None	42325	None	None	23995357	24029101	-1	None	None
22	GUSBP11	ENSG00000228315	ENST00000417194	processed_transcript	KNOWN	None	42325	None	None	24000281	24035372	-1	None	None
22	GUSBP11	ENSG00000228315	ENST00000435868	transcribed_unprocessed_pseudogene	KNOWN	None	42325	None	None	24002056	24059482	-1	None	None
22	GUSBP11	ENSG00000228315	ENST00000438858	processed_transcript	KNOWN	None	42325	None	None	24002063	24032678	-1	None	None
22	GUSBP11	ENSG00000228315	ENST00000458554	processed_transcript	KNOWN	None	42325	None	None	24020797	24032484	-1	None	None
22	GUSBP11	ENSG00000228315	ENST00000451919	processed_transcript	KNOWN	None	42325	None	None	24025912	24030167	-1	None	None
22	GUSBP11	ENSG00000228315	ENST00000437862	processed_transcript	KNOWN	None	42325	None	None	24025931	24030006	-1	None	None
22	GUSBP11	ENSG00000228315	ENST00000432595	processed_transcript	KNOWN	None	42325	None	None	24042976	24059454	-1	None	None
22	GUSBP11	ENSG00000228315	ENST00000444220	processed_transcript	KNOWN	None	42325	None	None	24052032	24059514	-1	None	None
22	GUSBP11	ENSG00000228315	ENST00000437294	processed_transcript	KNOWN	None	42325	None	None	24056373	24059543	-1	None	None
Y	RBMY2XP	ENSG00000234399	ENST00000447471	unprocessed_pseudogene	KNOWN	None	23901	None	None	26542751	26549673	-1	None	None
11	MMP10	ENSG00000166670	ENST00000279441	protein_coding	KNOWN	CCDS8321	7156	1431	476	102641234	102651359	-1	STMY2	None
11	MMP10	ENSG00000166670	ENST00000539681	protein_coding	NOVEL	None	7156	544	180	102649400	102651359	-1	STMY2	None
6	PFDN6	ENSG00000204220	ENST00000395131	protein_coding	KNOWN	CCDS4773	4926	390	129	33257079	33258710	1	HKE2	KE-2, H2-KE2, PFD6
6	PFDN6	ENSG00000204220	ENST00000374606	protein_coding	KNOWN	CCDS4773	4926	390	129	33257372	33258710	1	HKE2	KE-2, H2-KE2, PFD6
6	PFDN6	ENSG00000204220	ENST00000395134	retained_intron	KNOWN	None	4926	None	None	33257373	33258652	1	HKE2	KE-2, H2-KE2, PFD6
6	PFDN6	ENSG00000204220	ENST00000374610	protein_coding	KNOWN	CCDS4773	4926	390	129	33257374	33258639	1	HKE2	KE-2, H2-KE2, PFD6
6	PFDN6	ENSG00000204220	ENST00000491382	retained_intron	KNOWN	None	4926	None	None	33257404	33258645	1	HKE2	KE-2, H2-KE2, PFD6
6	PFDN6	ENSG00000204220	ENST00000463584	protein_coding	KNOWN	None	4926	312	103	33257552	33266178	1	HKE2	KE-2, H2-KE2, PFD6
6	PFDN6	ENSG00000204220	ENST00000374607	protein_coding	KNOWN	CCDS4773	4926	390	129	33257378	33258698	1	HKE2	KE-2, H2-KE2, PFD6
HSCHR6_MHC_DBB	OR2J2	ENSG00000232945	ENST00000419605	protein_coding	KNOWN	None	8260	939	312	29141329	29142369	1	None	OR6-8, hs6M1-6, dJ80I19.4
17	SNX11	ENSG00000002919	ENST00000581298	protein_coding	KNOWN	None	14975	517	171	46180719	46196526	1	None	None
17	SNX11	ENSG00000002919	ENST00000578861	processed_transcript	KNOWN	None	14975	None	None	46184911	46196370	1	None	None
17	SNX11	ENSG00000002919	ENST00000580219	protein_coding	PUTATIVE	None	14975	789	262	46184911	46199170	1	None	None
17	SNX11	ENSG00000002919	ENST00000452859	protein_coding	PUTATIVE	None	14975	381	126	46184911	46199497	1	None	None
17	SNX11	ENSG00000002919	ENST00000393405	protein_coding	KNOWN	CCDS11526	14975	813	270	46184920	46200436	1	None	None
17	SNX11	ENSG00000002919	ENST00000580875	retained_intron	KNOWN	None	14975	None	None	46184922	46189817	1	None	None
17	SNX11	ENSG00000002919	ENST00000581705	nonsense_mediated_decay	KNOWN	None	14975	141	46	46184938	46199248	1	None	None
17	SNX11	ENSG00000002919	ENST00000359238	protein_coding	KNOWN	CCDS11526	14975	813	270	46184947	46200105	1	None	None
17	SNX11	ENSG00000002919	ENST00000583320	nonsense_mediated_decay	KNOWN	None	14975	174	57	46184965	46198650	1	None	None
17	SNX11	ENSG00000002919	ENST00000582104	protein_coding	PUTATIVE	None	14975	789	262	46185150	46199249	1	None	None
17	SNX11	ENSG00000002919	ENST00000584335	protein_coding	KNOWN	None	14975	763	253	46185256	46198820	1	None	None
17	SNX11	ENSG00000002919	ENST00000582481	protein_coding	KNOWN	None	14975	532	176	46189311	46196541	1	None	None
17	SNX11	ENSG00000002919	ENST00000577310	retained_intron	KNOWN	None	14975	None	None	46189928	46190925	1	None	None
17	SNX11	ENSG00000002919	ENST00000439357	protein_coding	KNOWN	None	14975	630	209	46184938	46199248	1	None	None
13	MYO16	ENSG00000041515	ENST00000251041	protein_coding	KNOWN	None	29822	2823	940	109318231	109701330	1	None	MYR8, KIAA0865, Myo16b, NYAP3
13	MYO16	ENSG00000041515	ENST00000357550	protein_coding	KNOWN	CCDS32008	29822	5577	1858	109318231	109860341	1	None	MYR8, KIAA0865, Myo16b, NYAP3
13	MYO16	ENSG00000041515	ENST00000467639	processed_transcript	KNOWN	None	29822	None	None	109431890	109438088	1	None	MYR8, KIAA0865, Myo16b, NYAP3
13	MYO16	ENSG00000041515	ENST00000375857	protein_coding	KNOWN	None	29822	2659	885	109445928	109708405	1	None	MYR8, KIAA0865, Myo16b, NYAP3
13	MYO16	ENSG00000041515	ENST00000482793	processed_transcript	KNOWN	None	29822	None	None	109507644	109540825	1	None	MYR8, KIAA0865, Myo16b, NYAP3
13	MYO16	ENSG00000041515	ENST00000356711	protein_coding	KNOWN	CCDS32008	29822	5577	1858	109248500	109860355	1	None	MYR8, KIAA0865, Myo16b, NYAP3
13	MYO16	ENSG00000041515	ENST00000457511	protein_coding	KNOWN	None	29822	2574	857	109538517	109780039	1	None	MYR8, KIAA0865, Myo16b, NYAP3
17	MYH13	ENSG00000006788	ENST00000570743	protein_coding	KNOWN	CCDS45613	7571	5817	1938	10201401	10276322	-1	None	MyHC-eo
17	MYH13	ENSG00000006788	ENST00000418404	protein_coding	KNOWN	CCDS45613	7571	5817	1938	10201401	10276447	-1	None	MyHC-eo
17	MYH13	ENSG00000006788	ENST00000252172	protein_coding	KNOWN	CCDS45613	7571	5817	1938	10204183	10276322	-1	None	MyHC-eo
7	NPTX2	ENSG00000106236	ENST00000265634	protein_coding	KNOWN	CCDS5657	7953	1296	431	98246609	98259180	1	None	None
7	NPTX2	ENSG00000106236	ENST00000466102	retained_intron	KNOWN	None	7953	None	None	98248979	98256565	1	None	None
HSCHR6_MHC_DBB	OR14J1	ENSG00000237777	ENST00000451272	protein_coding	KNOWN	None	13971	966	321	29274457	29275573	1	OR5U1	hs6M1-28
9	PLAA	ENSG00000137055	ENST00000397292	protein_coding	KNOWN	CCDS35000	9043	2388	795	26904081	26947461	-1	None	PLAP, PLA2P, FLJ11281, FLJ12699, DOA1
9	PLAA	ENSG00000137055	ENST00000517642	protein_coding	NOVEL	None	9043	868	288	26905881	26923231	-1	None	PLAP, PLA2P, FLJ11281, FLJ12699, DOA1
9	PLAA	ENSG00000137055	ENST00000487173	protein_coding	PUTATIVE	None	9043	409	135	26907608	26919372	-1	None	PLAP, PLA2P, FLJ11281, FLJ12699, DOA1
9	PLAA	ENSG00000137055	ENST00000520884	protein_coding	PUTATIVE	None	9043	1830	609	26907801	26947231	-1	None	PLAP, PLA2P, FLJ11281, FLJ12699, DOA1
9	PLAA	ENSG00000137055	ENST00000520641	processed_transcript	KNOWN	None	9043	None	None	26916454	26919459	-1	None	PLAP, PLA2P, FLJ11281, FLJ12699, DOA1
9	PLAA	ENSG00000137055	ENST00000521968	retained_intron	KNOWN	None	9043	None	None	26919191	26920344	-1	None	PLAP, PLA2P, FLJ11281, FLJ12699, DOA1
9	PLAA	ENSG00000137055	ENST00000523212	protein_coding	NOVEL	None	9043	730	242	26925891	26946981	-1	None	PLAP, PLA2P, FLJ11281, FLJ12699, DOA1
6	SNORA38	ENSG00000200816	ENST00000363946	snoRNA	KNOWN	None	32631	None	None	31590856	31590987	1	None	ACA38
6	C6orf47-AS1	ENSG00000227198	ENST00000422049	antisense	KNOWN	None	39767	None	None	31626106	31628498	1	None	None
19	None	ENSG00000216102	ENST00000401283	miRNA	NOVEL	None	None	None	None	9931204	9931281	1	None	None
6	None	ENSG00000201207	ENST00000364337	misc_RNA	NOVEL	None	None	None	None	31631065	31631178	1	None	None
2	None	ENSG00000228563	ENST00000435713	antisense	KNOWN	None	None	None	None	31752012	31788534	1	None	None
19	RN7SL94P	ENSG00000263493	ENST00000583875	misc_RNA	KNOWN	None	46110	None	None	9935953	9936217	1	None	None
6	MIR4646	ENSG00000266776	ENST00000580775	miRNA	KNOWN	None	41543	None	None	31668806	31668868	-1	None	hsa-mir-4646
11	PELI3	ENSG00000174516	ENST00000349459	protein_coding	KNOWN	CCDS41675	30010	1338	445	66234216	66244799	1	None	MGC35521
11	PELI3	ENSG00000174516	ENST00000320740	protein_coding	KNOWN	CCDS31615	30010	1410	469	66234340	66244808	1	None	MGC35521
11	PELI3	ENSG00000174516	ENST00000532970	nonsense_mediated_decay	KNOWN	None	30010	276	91	66234389	66244749	1	None	MGC35521
11	PELI3	ENSG00000174516	ENST00000524466	protein_coding	PUTATIVE	None	30010	996	331	66234395	66242122	1	None	MGC35521
11	PELI3	ENSG00000174516	ENST00000526296	protein_coding	PUTATIVE	None	30010	765	254	66234397	66243314	1	None	MGC35521
11	PELI3	ENSG00000174516	ENST00000531856	processed_transcript	PUTATIVE	None	30010	None	None	66234429	66243480	1	None	MGC35521
11	PELI3	ENSG00000174516	ENST00000527230	protein_coding	KNOWN	None	30010	357	118	66234863	66238845	1	None	MGC35521
11	PELI3	ENSG00000174516	ENST00000528752	protein_coding	PUTATIVE	None	30010	204	67	66240895	66244808	1	None	MGC35521
11	APLP2	ENSG00000084234	ENST00000532456	processed_transcript	KNOWN	None	598	None	None	129939732	129980532	1	APPL2	APPH
11	APLP2	ENSG00000084234	ENST00000533616	nonsense_mediated_decay	KNOWN	None	598	120	39	129939732	130013417	1	APPL2	APPH
11	APLP2	ENSG00000084234	ENST00000534761	processed_transcript	KNOWN	None	598	None	None	129939786	129991613	1	APPL2	APPH
11	APLP2	ENSG00000084234	ENST00000533532	retained_intron	KNOWN	None	598	None	None	129939789	129979718	1	APPL2	APPH
11	APLP2	ENSG00000084234	ENST00000530132	nonsense_mediated_decay	KNOWN	None	598	108	35	129939789	129980455	1	APPL2	APPH
11	APLP2	ENSG00000084234	ENST00000533195	protein_coding	PUTATIVE	None	598	476	157	129939789	129980554	1	APPL2	APPH
11	APLP2	ENSG00000084234	ENST00000533618	retained_intron	KNOWN	None	598	None	None	129939789	129990672	1	APPL2	APPH
11	APLP2	ENSG00000084234	ENST00000533713	protein_coding	PUTATIVE	None	598	476	157	129939789	129990718	1	APPL2	APPH
11	APLP2	ENSG00000084234	ENST00000529235	processed_transcript	KNOWN	None	598	None	None	129939789	129990718	1	APPL2	APPH
11	APLP2	ENSG00000084234	ENST00000534582	nonsense_mediated_decay	KNOWN	None	598	351	116	129939789	129991621	1	APPL2	APPH
11	APLP2	ENSG00000084234	ENST00000527702	processed_transcript	KNOWN	None	598	None	None	129939789	129991661	1	APPL2	APPH
11	APLP2	ENSG00000084234	ENST00000534001	processed_transcript	KNOWN	None	598	None	None	129939789	129991678	1	APPL2	APPH
11	APLP2	ENSG00000084234	ENST00000526330	processed_transcript	KNOWN	None	598	None	None	129939789	129992272	1	APPL2	APPH
11	APLP2	ENSG00000084234	ENST00000529701	processed_transcript	KNOWN	None	598	None	None	129939789	129992365	1	APPL2	APPH
11	APLP2	ENSG00000084234	ENST00000528499	protein_coding	KNOWN	CCDS44774	598	2088	695	129939789	130013701	1	APPL2	APPH
11	APLP2	ENSG00000084234	ENST00000263574	protein_coding	KNOWN	CCDS8486	598	2292	763	129939801	130014699	1	APPL2	APPH
11	APLP2	ENSG00000084234	ENST00000345598	protein_coding	KNOWN	CCDS44775	598	1569	522	129939811	130013574	1	APPL2	APPH
11	APLP2	ENSG00000084234	ENST00000338167	protein_coding	KNOWN	CCDS44773	598	2256	751	129939816	130014300	1	APPL2	APPH
11	APLP2	ENSG00000084234	ENST00000278756	protein_coding	PUTATIVE	CCDS58196	598	2286	761	129940463	130014699	1	APPL2	APPH
11	APLP2	ENSG00000084234	ENST00000461918	retained_intron	KNOWN	None	598	None	None	129978500	129979497	1	APPL2	APPH
11	APLP2	ENSG00000084234	ENST00000525215	retained_intron	KNOWN	None	598	None	None	129979056	129980468	1	APPL2	APPH
11	APLP2	ENSG00000084234	ENST00000529483	processed_transcript	KNOWN	None	598	None	None	129979322	129990712	1	APPL2	APPH
11	APLP2	ENSG00000084234	ENST00000533860	retained_intron	KNOWN	None	598	None	None	130008673	130013470	1	APPL2	APPH
11	APLP2	ENSG00000084234	ENST00000530493	retained_intron	KNOWN	None	598	None	None	130010390	130013329	1	APPL2	APPH
11	APLP2	ENSG00000084234	ENST00000525604	retained_intron	KNOWN	None	598	None	None	130011307	130014168	1	APPL2	APPH
11	APLP2	ENSG00000084234	ENST00000543137	protein_coding	KNOWN	None	598	1977	658	129940463	130014699	1	APPL2	APPH
11	APLP2	ENSG00000084234	ENST00000539648	protein_coding	KNOWN	None	598	1656	551	129939789	130013417	1	APPL2	APPH
19	None	ENSG00000267289	ENST00000591174	lincRNA	KNOWN	None	None	None	None	9944755	9945689	-1	None	None
2	None	ENSG00000270422	ENST00000603236	processed_pseudogene	KNOWN	None	None	None	None	31876450	31876931	1	None	None
2	FBXO11	ENSG00000138081	ENST00000434234	nonsense_mediated_decay	KNOWN	None	13590	246	81	48016455	48036390	-1	None	FBX11, PRMT9, UBR6
2	FBXO11	ENSG00000138081	ENST00000405808	protein_coding	PUTATIVE	None	13590	174	57	48016461	48036324	-1	None	FBX11, PRMT9, UBR6
2	FBXO11	ENSG00000138081	ENST00000465204	retained_intron	KNOWN	None	13590	None	None	48033891	48038800	-1	None	FBX11, PRMT9, UBR6
2	FBXO11	ENSG00000138081	ENST00000402508	protein_coding	KNOWN	CCDS1837	13590	2532	843	48034059	48115858	-1	None	FBX11, PRMT9, UBR6
2	FBXO11	ENSG00000138081	ENST00000403359	protein_coding	KNOWN	CCDS54357	13590	2784	927	48034059	48132932	-1	None	FBX11, PRMT9, UBR6
2	FBXO11	ENSG00000138081	ENST00000470899	retained_intron	KNOWN	None	13590	None	None	48036369	48041437	-1	None	FBX11, PRMT9, UBR6
2	FBXO11	ENSG00000138081	ENST00000493962	protein_coding	PUTATIVE	None	13590	1687	561	48039988	48063101	-1	None	FBX11, PRMT9, UBR6
2	FBXO11	ENSG00000138081	ENST00000492225	retained_intron	KNOWN	None	13590	None	None	48045556	48132707	-1	None	FBX11, PRMT9, UBR6
2	FBXO11	ENSG00000138081	ENST00000424163	protein_coding	NOVEL	None	13590	422	139	48063054	48132349	-1	None	FBX11, PRMT9, UBR6
2	FBXO11	ENSG00000138081	ENST00000480038	processed_transcript	KNOWN	None	13590	None	None	48063091	48115858	-1	None	FBX11, PRMT9, UBR6
2	FBXO11	ENSG00000138081	ENST00000316377	protein_coding	KNOWN	CCDS1837	13590	2532	843	48034063	48132814	-1	None	FBX11, PRMT9, UBR6
2	FBXO11	ENSG00000138081	ENST00000434523	protein_coding	KNOWN	None	13590	1056	351	48034623	48059590	-1	None	FBX11, PRMT9, UBR6
2	FBXO11	ENSG00000138081	ENST00000378314	protein_coding	KNOWN	None	13590	282	93	48064127	48132814	-1	None	FBX11, PRMT9, UBR6
HSCHR6_MHC_DBB	OR12D3	ENSG00000242022	ENST00000505384	protein_coding	KNOWN	None	13963	951	316	29341259	29417808	-1	None	hs6M1-27
HSCHR6_MHC_DBB	OR12D3	ENSG00000242022	ENST00000552446	protein_coding	KNOWN	None	13963	951	316	29341259	29343127	-1	None	hs6M1-27
2	None	ENSG00000223647	ENST00000416279	lincRNA	KNOWN	None	None	None	None	32018892	32029049	-1	None	None
19	ZNF552	ENSG00000178935	ENST00000594473	protein_coding	PUTATIVE	None	26135	188	61	58315209	58324772	-1	None	FLJ21603
19	ZNF552	ENSG00000178935	ENST00000391701	protein_coding	KNOWN	CCDS12963	26135	1224	407	58318450	58326281	-1	None	FLJ21603
19	ZNF552	ENSG00000178935	ENST00000596248	nonsense_mediated_decay	KNOWN	None	26135	150	49	58319277	58326281	-1	None	FLJ21603
19	ZNF552	ENSG00000178935	ENST00000600397	retained_intron	KNOWN	None	26135	None	None	58324427	58326281	-1	None	FLJ21603
19	None	ENSG00000266247	ENST00000582439	miRNA	NOVEL	None	None	None	None	9962104	9962192	1	None	None
19	None	ENSG00000267650	ENST00000592332	antisense	KNOWN	None	None	None	None	10106673	10107839	1	None	None
17	WDR81	ENSG00000167716	ENST00000455636	protein_coding	PUTATIVE	None	26600	517	171	1619817	1634521	1	None	FLJ33817
17	WDR81	ENSG00000167716	ENST00000468539	protein_coding	PUTATIVE	None	26600	513	170	1619817	1636939	1	None	FLJ33817
17	WDR81	ENSG00000167716	ENST00000309182	protein_coding	KNOWN	None	26600	2673	890	1619830	1641893	1	None	FLJ33817
17	WDR81	ENSG00000167716	ENST00000492901	retained_intron	KNOWN	None	26600	None	None	1619841	1634131	1	None	FLJ33817
17	WDR81	ENSG00000167716	ENST00000446363	protein_coding	PUTATIVE	None	26600	1743	580	1619895	1641782	1	None	FLJ33817
17	WDR81	ENSG00000167716	ENST00000419248	protein_coding	KNOWN	CCDS54063	26600	2145	714	1627834	1641888	1	None	FLJ33817
17	WDR81	ENSG00000167716	ENST00000418841	protein_coding	PUTATIVE	None	26600	397	131	1627984	1636973	1	None	FLJ33817
17	WDR81	ENSG00000167716	ENST00000409644	protein_coding	KNOWN	CCDS54062	26600	5826	1941	1628254	1641886	1	None	FLJ33817
17	WDR81	ENSG00000167716	ENST00000464528	retained_intron	KNOWN	None	26600	None	None	1630868	1641878	1	None	FLJ33817
17	WDR81	ENSG00000167716	ENST00000575206	protein_coding	PUTATIVE	None	26600	590	195	1631504	1634221	1	None	FLJ33817
17	WDR81	ENSG00000167716	ENST00000474958	nonsense_mediated_decay	KNOWN	None	26600	371	122	1633755	1636831	1	None	FLJ33817
17	WDR81	ENSG00000167716	ENST00000479966	retained_intron	KNOWN	None	26600	None	None	1633765	1634507	1	None	FLJ33817
17	WDR81	ENSG00000167716	ENST00000495411	retained_intron	KNOWN	None	26600	None	None	1634478	1636271	1	None	FLJ33817
17	WDR81	ENSG00000167716	ENST00000437219	protein_coding	KNOWN	CCDS54061	26600	2217	738	1619817	1641893	1	None	FLJ33817
17	WDR81	ENSG00000167716	ENST00000545662	protein_coding	KNOWN	None	26600	1719	572	1633755	1641448	1	None	FLJ33817
2	None	ENSG00000238448	ENST00000459590	miRNA	NOVEL	None	None	None	None	32035264	32035357	-1	None	None
5	SLC38A9	ENSG00000177058	ENST00000515159	retained_intron	KNOWN	None	26907	None	None	54921673	54960691	-1	None	FLJ90709
5	SLC38A9	ENSG00000177058	ENST00000505708	nonsense_mediated_decay	KNOWN	None	26907	1194	397	54921673	54988554	-1	None	FLJ90709
5	SLC38A9	ENSG00000177058	ENST00000396865	protein_coding	KNOWN	CCDS3968	26907	1686	561	54921673	55008554	-1	None	FLJ90709
5	SLC38A9	ENSG00000177058	ENST00000515629	protein_coding	PUTATIVE	CCDS58947	26907	1497	498	54921686	54988881	-1	None	FLJ90709
5	SLC38A9	ENSG00000177058	ENST00000508124	nonsense_mediated_decay	KNOWN	None	26907	132	43	54921686	55008143	-1	None	FLJ90709
5	SLC38A9	ENSG00000177058	ENST00000512595	protein_coding	PUTATIVE	CCDS58948	26907	1497	498	54922239	54988521	-1	None	FLJ90709
5	SLC38A9	ENSG00000177058	ENST00000511233	protein_coding	NOVEL	None	26907	1365	454	54922388	54993820	-1	None	FLJ90709
5	SLC38A9	ENSG00000177058	ENST00000515754	processed_transcript	KNOWN	None	26907	None	None	54929224	54941696	-1	None	FLJ90709
5	SLC38A9	ENSG00000177058	ENST00000524030	processed_transcript	KNOWN	None	26907	None	None	54945038	54953866	-1	None	FLJ90709
5	SLC38A9	ENSG00000177058	ENST00000512208	protein_coding	PUTATIVE	None	26907	562	186	54952549	55008089	-1	None	FLJ90709
5	SLC38A9	ENSG00000177058	ENST00000524154	retained_intron	KNOWN	None	26907	None	None	54952573	54960960	-1	None	FLJ90709
5	SLC38A9	ENSG00000177058	ENST00000507447	retained_intron	KNOWN	None	26907	None	None	54960388	54965493	-1	None	FLJ90709
5	SLC38A9	ENSG00000177058	ENST00000514806	retained_intron	KNOWN	None	26907	None	None	54964949	55008089	-1	None	FLJ90709
5	SLC38A9	ENSG00000177058	ENST00000503817	protein_coding	PUTATIVE	None	26907	306	101	54965087	54988448	-1	None	FLJ90709
5	SLC38A9	ENSG00000177058	ENST00000503891	protein_coding	KNOWN	None	26907	393	130	54965424	55008158	-1	None	FLJ90709
5	SLC38A9	ENSG00000177058	ENST00000502247	protein_coding	PUTATIVE	None	26907	108	35	54965657	54988559	-1	None	FLJ90709
5	SLC38A9	ENSG00000177058	ENST00000513993	protein_coding	KNOWN	None	26907	290	95	54965664	55008130	-1	None	FLJ90709
5	SLC38A9	ENSG00000177058	ENST00000505563	nonsense_mediated_decay	KNOWN	None	26907	132	43	54988699	55008118	-1	None	FLJ90709
5	SLC38A9	ENSG00000177058	ENST00000504880	processed_transcript	KNOWN	None	26907	None	None	54991820	55069022	-1	None	FLJ90709
5	SLC38A9	ENSG00000177058	ENST00000506624	protein_coding	KNOWN	None	26907	113	36	54993674	55008119	-1	None	FLJ90709
5	SLC38A9	ENSG00000177058	ENST00000507109	protein_coding	KNOWN	None	26907	113	36	54993674	55008161	-1	None	FLJ90709
5	SLC38A9	ENSG00000177058	ENST00000513275	protein_coding	KNOWN	None	26907	80	25	54993707	55008121	-1	None	FLJ90709
5	SLC38A9	ENSG00000177058	ENST00000502416	processed_transcript	KNOWN	None	26907	None	None	54993787	55008157	-1	None	FLJ90709
5	SLC38A9	ENSG00000177058	ENST00000507216	processed_transcript	KNOWN	None	26907	None	None	55000103	55008126	-1	None	FLJ90709
5	SLC38A9	ENSG00000177058	ENST00000318672	protein_coding	KNOWN	CCDS3968	26907	1686	561	54921676	54993822	-1	None	FLJ90709
5	SLC38A9	ENSG00000177058	ENST00000416547	protein_coding	KNOWN	None	26907	1314	437	54921686	54993822	-1	None	FLJ90709
5	SLC38A9	ENSG00000177058	ENST00000539768	protein_coding	KNOWN	None	26907	1389	462	54921676	54993786	-1	None	FLJ90709
13	UCHL3	ENSG00000118939	ENST00000471792	processed_transcript	KNOWN	None	12515	None	None	76123619	76169126	1	None	None
13	UCHL3	ENSG00000118939	ENST00000377595	protein_coding	KNOWN	CCDS9453	12515	693	230	76123927	76180069	1	None	None
13	UCHL3	ENSG00000118939	ENST00000419068	protein_coding	NOVEL	None	12515	687	228	76140846	76180085	1	None	None
13	UCHL3	ENSG00000118939	ENST00000606347	processed_transcript	KNOWN	None	12515	None	None	76143259	76180066	1	None	None
13	UCHL3	ENSG00000118939	ENST00000607339	processed_transcript	KNOWN	None	12515	None	None	76178663	76180069	1	None	None
17	KRT39	ENSG00000196859	ENST00000355612	protein_coding	KNOWN	CCDS11382	32971	1476	491	39114669	39123144	-1	None	KA35
17	KRT39	ENSG00000196859	ENST00000578078	nonsense_mediated_decay	KNOWN	None	32971	555	184	39114714	39123138	-1	None	KA35
17	KRT39	ENSG00000196859	ENST00000578029	retained_intron	KNOWN	None	32971	None	None	39114752	39116949	-1	None	KA35
2	KRT18P52	ENSG00000237007	ENST00000404956	processed_pseudogene	KNOWN	None	37888	None	None	32047660	32048505	-1	None	None
2	KRT18P52	ENSG00000237007	ENST00000542625	processed_pseudogene	KNOWN	None	37888	None	None	32047880	32048320	-1	None	None
17	XAF1	ENSG00000132530	ENST00000573760	retained_intron	KNOWN	None	30932	None	None	6658766	6661951	1	None	BIRC4BP, XIAPAF1, HSXIAPAF1
17	XAF1	ENSG00000132530	ENST00000575369	nonsense_mediated_decay	KNOWN	None	30932	387	128	6658767	6675247	1	None	BIRC4BP, XIAPAF1, HSXIAPAF1
17	XAF1	ENSG00000132530	ENST00000576341	retained_intron	KNOWN	None	30932	None	None	6658770	6661648	1	None	BIRC4BP, XIAPAF1, HSXIAPAF1
17	XAF1	ENSG00000132530	ENST00000574394	protein_coding	KNOWN	None	30932	401	132	6658884	6663900	1	None	BIRC4BP, XIAPAF1, HSXIAPAF1
17	XAF1	ENSG00000132530	ENST00000346752	protein_coding	KNOWN	CCDS11081	30932	849	282	6659157	6676982	1	None	BIRC4BP, XIAPAF1, HSXIAPAF1
17	XAF1	ENSG00000132530	ENST00000361842	protein_coding	KNOWN	CCDS11080	30932	906	301	6659159	6678966	1	None	BIRC4BP, XIAPAF1, HSXIAPAF1
17	XAF1	ENSG00000132530	ENST00000576459	processed_transcript	KNOWN	None	30932	None	None	6659365	6662875	1	None	BIRC4BP, XIAPAF1, HSXIAPAF1
17	XAF1	ENSG00000132530	ENST00000572546	nonsense_mediated_decay	KNOWN	None	30932	438	145	6659365	6665512	1	None	BIRC4BP, XIAPAF1, HSXIAPAF1
17	XAF1	ENSG00000132530	ENST00000575267	processed_transcript	PUTATIVE	None	30932	None	None	6659367	6661494	1	None	BIRC4BP, XIAPAF1, HSXIAPAF1
17	XAF1	ENSG00000132530	ENST00000572107	processed_transcript	PUTATIVE	None	30932	None	None	6659372	6662035	1	None	BIRC4BP, XIAPAF1, HSXIAPAF1
17	XAF1	ENSG00000132530	ENST00000576724	nonsense_mediated_decay	KNOWN	None	30932	495	164	6659374	6674288	1	None	BIRC4BP, XIAPAF1, HSXIAPAF1
17	XAF1	ENSG00000132530	ENST00000571217	nonsense_mediated_decay	KNOWN	None	30932	225	74	6659381	6677427	1	None	BIRC4BP, XIAPAF1, HSXIAPAF1
17	XAF1	ENSG00000132530	ENST00000575147	nonsense_mediated_decay	KNOWN	None	30932	192	63	6659386	6665344	1	None	BIRC4BP, XIAPAF1, HSXIAPAF1
17	XAF1	ENSG00000132530	ENST00000574907	protein_coding	NOVEL	None	30932	571	189	6659386	6665525	1	None	BIRC4BP, XIAPAF1, HSXIAPAF1
17	XAF1	ENSG00000132530	ENST00000571135	nonsense_mediated_decay	KNOWN	None	30932	387	128	6659396	6663798	1	None	BIRC4BP, XIAPAF1, HSXIAPAF1
17	XAF1	ENSG00000132530	ENST00000574962	nonsense_mediated_decay	KNOWN	None	30932	426	141	6659398	6676488	1	None	BIRC4BP, XIAPAF1, HSXIAPAF1
17	XAF1	ENSG00000132530	ENST00000571673	nonsense_mediated_decay	KNOWN	None	30932	369	122	6659398	6676488	1	None	BIRC4BP, XIAPAF1, HSXIAPAF1
17	XAF1	ENSG00000132530	ENST00000572495	retained_intron	KNOWN	None	30932	None	None	6660716	6661911	1	None	BIRC4BP, XIAPAF1, HSXIAPAF1
17	XAF1	ENSG00000132530	ENST00000573518	retained_intron	KNOWN	None	30932	None	None	6665037	6674099	1	None	BIRC4BP, XIAPAF1, HSXIAPAF1
17	XAF1	ENSG00000132530	ENST00000441631	protein_coding	KNOWN	None	30932	906	301	6659156	6678962	1	None	BIRC4BP, XIAPAF1, HSXIAPAF1
17	XAF1	ENSG00000132530	ENST00000438512	protein_coding	KNOWN	None	30932	495	164	6659156	6665278	1	None	BIRC4BP, XIAPAF1, HSXIAPAF1
4	None	ENSG00000249244	ENST00000505994	unprocessed_pseudogene	KNOWN	None	None	None	None	120312986	120316490	-1	None	None
HSCHR6_MHC_MCF	FKBPL	ENSG00000223666	ENST00000443350	protein_coding	KNOWN	None	13949	1050	349	32172915	32174499	-1	None	DIR1, NG7
2	None	ENSG00000265267	ENST00000580521	miRNA	NOVEL	None	None	None	None	32048087	32048175	-1	None	None
HSCHR6_MHC_DBB	OR12D2	ENSG00000227446	ENST00000443442	protein_coding	KNOWN	None	8178	924	307	29364252	29365320	1	None	hs6M1-20
2	AK2P2	ENSG00000242272	ENST00000439142	processed_pseudogene	KNOWN	None	33542	None	None	32048482	32048886	-1	None	None
4	None	ENSG00000260091	ENST00000567343	lincRNA	KNOWN	None	None	None	None	120330488	120331388	1	None	None
19	C3P1	ENSG00000167798	ENST00000497718	transcribed_unprocessed_pseudogene	KNOWN	None	34414	None	None	10148479	10184811	1	None	CPLP
19	C3P1	ENSG00000167798	ENST00000495140	processed_transcript	KNOWN	None	34414	None	None	10152517	10184811	1	None	CPLP
2	None	ENSG00000221326	ENST00000408399	miRNA	NOVEL	None	None	None	None	32144931	32145018	-1	None	None
11	DSCAML1	ENSG00000177103	ENST00000527706	protein_coding	PUTATIVE	None	14656	5532	1843	117298489	117667806	-1	None	KIAA1132
11	DSCAML1	ENSG00000177103	ENST00000321322	protein_coding	KNOWN	CCDS8384	14656	6342	2113	117298489	117667976	-1	None	KIAA1132
11	DSCAML1	ENSG00000177103	ENST00000525836	protein_coding	PUTATIVE	None	14656	198	65	117647524	117688240	-1	None	KIAA1132
4	RNU6-1217P	ENSG00000223208	ENST00000411276	snRNA	KNOWN	None	48180	None	None	120355160	120355263	-1	None	None
6	None	ENSG00000231971	ENST00000417483	lincRNA	KNOWN	None	None	None	None	134749378	134841723	-1	None	None
6	None	ENSG00000231971	ENST00000422736	lincRNA	KNOWN	None	None	None	None	134768568	134775719	-1	None	None
2	None	ENSG00000271228	ENST00000605811	antisense	KNOWN	None	None	None	None	32238130	32238437	1	None	None
11	CLCF1	ENSG00000175505	ENST00000312438	protein_coding	KNOWN	CCDS31617	17412	678	225	67131639	67141208	-1	None	NNT1, BSF3, CLC, NR6, CISS2, BSF-3, NNT-1
11	CLCF1	ENSG00000175505	ENST00000533438	protein_coding	KNOWN	CCDS53666	17412	648	215	67132433	67141648	-1	None	NNT1, BSF3, CLC, NR6, CISS2, BSF-3, NNT-1
11	CLCF1	ENSG00000175505	ENST00000528474	protein_coding	NOVEL	CCDS53666	17412	648	215	67132499	67135108	-1	None	NNT1, BSF3, CLC, NR6, CISS2, BSF-3, NNT-1
4	None	ENSG00000248280	ENST00000456547	unprocessed_pseudogene	KNOWN	None	None	None	None	120361716	120371312	-1	None	None
2	None	ENSG00000263802	ENST00000577299	miRNA	NOVEL	None	None	None	None	32313373	32313460	-1	None	None
2	DDX50P1	ENSG00000229816	ENST00000438163	processed_pseudogene	KNOWN	None	18974	None	None	32426669	32429068	1	None	None
Y	PRY2	ENSG00000169807	ENST00000303804	protein_coding	KNOWN	CCDS35482	21504	444	147	24217903	24242154	-1	None	PTPN13LY2
Y	PRY2	ENSG00000169807	ENST00000472391	nonsense_mediated_decay	KNOWN	None	21504	216	71	24217903	24242154	-1	None	PTPN13LY2
Y	PRY2	ENSG00000169807	ENST00000341740	protein_coding	KNOWN	None	21504	216	71	24219875	24242154	-1	None	PTPN13LY2
2	RNU6-647P	ENSG00000201113	ENST00000364243	snRNA	KNOWN	None	47610	None	None	32439525	32439631	-1	None	None
6	RNU6-850P	ENSG00000252743	ENST00000516934	snRNA	KNOWN	None	47813	None	None	31724728	31724830	-1	None	None
4	RPL5P11	ENSG00000242882	ENST00000498068	processed_pseudogene	KNOWN	None	35483	None	None	174340396	174341288	-1	None	None
2	BIRC6-AS1	ENSG00000230046	ENST00000455572	antisense	KNOWN	None	40641	None	None	32602699	32604667	-1	None	None
6	SAPCD1-AS1	ENSG00000235663	ENST00000419679	antisense	KNOWN	None	39824	None	None	31732087	31733365	-1	C6orf26-AS1	None
1	TNFRSF1B	ENSG00000028137	ENST00000376259	protein_coding	KNOWN	CCDS145	11917	1386	461	12227060	12269285	1	TNFR2	TNFBR, TNFR80, TNF-R75, TNF-R-II, p75, CD120b
1	TNFRSF1B	ENSG00000028137	ENST00000492361	processed_transcript	KNOWN	None	11917	None	None	12227060	12269285	1	TNFR2	TNFBR, TNFR80, TNF-R75, TNF-R-II, p75, CD120b
1	TNFRSF1B	ENSG00000028137	ENST00000489921	processed_transcript	KNOWN	None	11917	None	None	12251895	12253065	1	TNFR2	TNFBR, TNFR80, TNF-R75, TNF-R-II, p75, CD120b
1	TNFRSF1B	ENSG00000028137	ENST00000536782	protein_coding	KNOWN	None	11917	468	155	12227060	12252415	1	TNFR2	TNFBR, TNFR80, TNF-R75, TNF-R-II, p75, CD120b
4	RNU6-1096P	ENSG00000252898	ENST00000517089	snRNA	KNOWN	None	48059	None	None	174367754	174367855	-1	None	None
2	MIR558	ENSG00000207653	ENST00000384920	miRNA	KNOWN	None	32814	None	None	32757220	32757313	1	MIRN558	hsa-mir-558
6	None	ENSG00000201555	ENST00000364685	misc_RNA	NOVEL	None	None	None	None	31746594	31746682	-1	None	None
4	None	ENSG00000261646	ENST00000563631	lincRNA	KNOWN	None	None	None	None	174388984	174391192	-1	None	None
6	SNORD48	ENSG00000201823	ENST00000364953	snoRNA	KNOWN	None	10188	None	None	31803040	31803103	1	RNU48	U48
2	MIR4765	ENSG00000265057	ENST00000585007	miRNA	KNOWN	None	41791	None	None	32860322	32860398	1	None	hsa-mir-4765
6	SNORD52	ENSG00000201754	ENST00000364884	snoRNA	KNOWN	None	10202	None	None	31804853	31804919	1	RNU52	U52
6	EHMT2-AS1	ENSG00000237080	ENST00000434689	antisense	KNOWN	None	39751	None	None	31851538	31851831	1	None	None
2	LINC00486	ENSG00000230876	ENST00000414054	lincRNA	KNOWN	None	42946	None	None	33050510	33151760	1	None	None
2	LINC00486	ENSG00000230876	ENST00000424364	lincRNA	KNOWN	None	42946	None	None	33066081	33127190	1	None	None
2	LINC00486	ENSG00000230876	ENST00000435075	lincRNA	KNOWN	None	42946	None	None	33107868	33151589	1	None	None
6	MIR1236	ENSG00000221267	ENST00000408340	miRNA	KNOWN	None	33925	None	None	31924616	31924717	-1	MIRN1236	hsa-mir-1236
6	C4A-AS1	ENSG00000233627	ENST00000458633	antisense	KNOWN	None	39753	None	None	31967753	31971298	-1	None	None
4	None	ENSG00000245958	ENST00000511950	processed_transcript	KNOWN	None	None	None	None	120375946	120381399	1	None	None
4	None	ENSG00000245958	ENST00000510011	processed_transcript	KNOWN	None	None	None	None	120375975	120419058	1	None	None
4	None	ENSG00000245958	ENST00000504422	processed_transcript	PUTATIVE	None	None	None	None	120375994	120379393	1	None	None
4	None	ENSG00000245958	ENST00000508519	processed_transcript	KNOWN	None	None	None	None	120375994	120414592	1	None	None
4	None	ENSG00000245958	ENST00000515251	processed_transcript	KNOWN	None	None	None	None	120376051	120382938	1	None	None
4	None	ENSG00000245958	ENST00000511823	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	120379123	120383019	1	None	None
4	None	ENSG00000245958	ENST00000513147	retained_intron	KNOWN	None	None	None	None	120381592	120383065	1	None	None
4	None	ENSG00000245958	ENST00000498873	processed_transcript	KNOWN	None	None	None	None	120409798	120473179	1	None	None
4	None	ENSG00000245958	ENST00000510844	processed_transcript	KNOWN	None	None	None	None	120415581	120440721	1	None	None
4	None	ENSG00000245958	ENST00000506451	processed_transcript	KNOWN	None	None	None	None	120415620	120419182	1	None	None
4	None	ENSG00000245958	ENST00000502760	processed_transcript	KNOWN	None	None	None	None	120415641	120421434	1	None	None
4	None	ENSG00000245958	ENST00000500559	processed_transcript	KNOWN	None	None	None	None	120433528	120473180	1	None	None
4	None	ENSG00000245958	ENST00000503038	retained_intron	KNOWN	None	None	None	None	120469361	120473180	1	None	None
4	None	ENSG00000250532	ENST00000508581	antisense	KNOWN	None	None	None	None	75284634	75306174	-1	None	None
2	None	ENSG00000236854	ENST00000440786	lincRNA	KNOWN	None	None	None	None	33152194	33153472	1	None	None
4	None	ENSG00000249942	ENST00000510419	antisense	KNOWN	None	None	None	None	75418301	75514664	-1	None	None
3	EIF4E3	ENSG00000163412	ENST00000425534	protein_coding	KNOWN	CCDS46867	31837	675	224	71728440	71774526	-1	None	MGC39820
3	EIF4E3	ENSG00000163412	ENST00000295612	protein_coding	KNOWN	CCDS33786	31837	357	118	71731878	71802775	-1	None	MGC39820
3	EIF4E3	ENSG00000163412	ENST00000481525	processed_transcript	KNOWN	None	31837	None	None	71733692	71777801	-1	None	MGC39820
3	EIF4E3	ENSG00000163412	ENST00000468147	processed_transcript	KNOWN	None	31837	None	None	71733771	71777788	-1	None	MGC39820
3	EIF4E3	ENSG00000163412	ENST00000421769	protein_coding	KNOWN	CCDS33786	31837	357	118	71733833	71803924	-1	None	MGC39820
3	EIF4E3	ENSG00000163412	ENST00000497838	protein_coding	KNOWN	None	31837	279	92	71739192	71778348	-1	None	MGC39820
3	EIF4E3	ENSG00000163412	ENST00000496214	protein_coding	KNOWN	None	31837	154	50	71743026	71803534	-1	None	MGC39820
3	EIF4E3	ENSG00000163412	ENST00000469524	protein_coding	KNOWN	None	31837	132	43	71743048	71777871	-1	None	MGC39820
3	EIF4E3	ENSG00000163412	ENST00000448225	protein_coding	KNOWN	CCDS33786	31837	357	118	71728442	71803532	-1	None	MGC39820
3	EIF4E3	ENSG00000163412	ENST00000389826	protein_coding	KNOWN	CCDS33786	31837	357	118	71728442	71778269	-1	None	MGC39820
6	CYP21A1P	ENSG00000204338	ENST00000342991	retained_intron	KNOWN	None	2599	None	None	31973413	31976228	1	CYP21P, CYP21A	P450c21A
6	CYP21A1P	ENSG00000204338	ENST00000354927	transcribed_unprocessed_pseudogene	KNOWN	None	2599	None	None	31973466	31976176	1	CYP21P, CYP21A	P450c21A
4	None	ENSG00000253917	ENST00000514073	processed_transcript	KNOWN	None	None	None	None	3916910	3957146	-1	None	None
4	None	ENSG00000253917	ENST00000281228	processed_transcript	KNOWN	None	None	None	None	3948487	3957148	-1	None	None
HSCHR6_MHC_MCF	PRRT1	ENSG00000227122	ENST00000498282	processed_transcript	KNOWN	None	13943	None	None	32192562	32194060	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_MCF	PRRT1	ENSG00000227122	ENST00000479222	retained_intron	KNOWN	None	13943	None	None	32192562	32196126	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_MCF	PRRT1	ENSG00000227122	ENST00000465328	processed_transcript	KNOWN	None	13943	None	None	32192562	32196140	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_MCF	PRRT1	ENSG00000227122	ENST00000458719	protein_coding	KNOWN	None	13943	921	306	32192562	32196155	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_MCF	PRRT1	ENSG00000227122	ENST00000441129	protein_coding	KNOWN	None	13943	678	225	32192562	32197286	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_MCF	PRRT1	ENSG00000227122	ENST00000439937	protein_coding	KNOWN	None	13943	188	61	32194698	32198576	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_MCF	PRRT1	ENSG00000227122	ENST00000469341	processed_transcript	KNOWN	None	13943	None	None	32196184	32198163	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_MCF	PRRT1	ENSG00000227122	ENST00000473847	processed_transcript	KNOWN	None	13943	None	None	32197005	32198111	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_MCF	PRRT1	ENSG00000227122	ENST00000494845	processed_transcript	KNOWN	None	13943	None	None	32197005	32198536	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_MCF	PRRT1	ENSG00000227122	ENST00000480121	processed_transcript	KNOWN	None	13943	None	None	32197005	32198568	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_MCF	PRRT1	ENSG00000227122	ENST00000465468	processed_transcript	KNOWN	None	13943	None	None	32197543	32198542	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_MCF	PRRT1	ENSG00000227122	ENST00000461643	processed_transcript	PUTATIVE	None	13943	None	None	32197588	32198529	-1	C6orf31	NG5, IFITMD7
HSCHR6_MHC_MCF	PRRT1	ENSG00000227122	ENST00000551213	protein_coding	KNOWN	None	13943	678	225	32192567	32196305	-1	C6orf31	NG5, IFITMD7
2	None	ENSG00000206951	ENST00000384224	misc_RNA	NOVEL	None	None	None	None	33170406	33170518	-1	None	None
16	None	ENSG00000261574	ENST00000562211	sense_intronic	KNOWN	None	None	None	None	89458783	89478972	-1	None	None
2	None	ENSG00000252502	ENST00000516693	snoRNA	NOVEL	None	None	None	None	33216326	33216391	-1	None	None
4	None	ENSG00000248760	ENST00000515302	antisense	KNOWN	None	None	None	None	75454449	75475972	-1	None	None
2	None	ENSG00000223951	ENST00000456007	processed_pseudogene	KNOWN	None	None	None	None	33281400	33288180	-1	None	None
HSCHR6_MHC_DBB	OR10C1	ENSG00000229412	ENST00000377138	protein_coding	KNOWN	None	8165	939	312	29407016	29408664	1	OR10C2	hs6M1-17, OR10C1P
HSCHR6_MHC_DBB	OR10C1	ENSG00000229412	ENST00000546473	protein_coding	KNOWN	None	8165	885	294	29384997	29408631	1	OR10C2	hs6M1-17, OR10C1P
4	None	ENSG00000250356	ENST00000509838	processed_pseudogene	KNOWN	None	None	None	None	75843032	75843348	1	None	None
11	C11orf54	ENSG00000182919	ENST00000528288	protein_coding	KNOWN	CCDS8294	30204	798	265	93474757	93497915	1	None	PTD012
11	C11orf54	ENSG00000182919	ENST00000531516	processed_transcript	PUTATIVE	None	30204	None	None	93474762	93475919	1	None	PTD012
11	C11orf54	ENSG00000182919	ENST00000331239	protein_coding	KNOWN	None	30204	948	315	93474808	93496249	1	None	PTD012
11	C11orf54	ENSG00000182919	ENST00000533585	protein_coding	KNOWN	None	30204	301	99	93474823	93487174	1	None	PTD012
11	C11orf54	ENSG00000182919	ENST00000528099	protein_coding	KNOWN	None	30204	948	315	93474825	93495469	1	None	PTD012
11	C11orf54	ENSG00000182919	ENST00000354421	protein_coding	KNOWN	None	30204	948	315	93474835	93495482	1	None	PTD012
11	C11orf54	ENSG00000182919	ENST00000530620	protein_coding	KNOWN	None	30204	718	238	93474836	93493025	1	None	PTD012
11	C11orf54	ENSG00000182919	ENST00000527003	protein_coding	KNOWN	None	30204	230	75	93474849	93486923	1	None	PTD012
11	C11orf54	ENSG00000182919	ENST00000531650	protein_coding	NOVEL	None	30204	555	184	93474852	93492982	1	None	PTD012
11	C11orf54	ENSG00000182919	ENST00000530279	protein_coding	KNOWN	None	30204	287	94	93474854	93487160	1	None	PTD012
11	C11orf54	ENSG00000182919	ENST00000527363	protein_coding	KNOWN	None	30204	514	170	93478995	93488559	1	None	PTD012
11	C11orf54	ENSG00000182919	ENST00000526335	protein_coding	KNOWN	None	30204	447	148	93479651	93488492	1	None	PTD012
11	C11orf54	ENSG00000182919	ENST00000533154	protein_coding	PUTATIVE	None	30204	563	186	93488039	93494802	1	None	PTD012
11	C11orf54	ENSG00000182919	ENST00000540113	protein_coding	KNOWN	None	30204	891	296	93474835	93495451	1	None	PTD012
2	RNA5SP91	ENSG00000212204	ENST00000390902	rRNA	KNOWN	None	42889	None	None	33510836	33510954	-1	RN5S91	None
2	RNA5SP92	ENSG00000252246	ENST00000516437	rRNA	KNOWN	None	42890	None	None	33557965	33558074	1	RN5S92	None
4	None	ENSG00000249717	ENST00000508031	antisense	KNOWN	None	None	None	None	75881184	75895572	-1	None	None
4	None	ENSG00000249717	ENST00000507517	antisense	KNOWN	None	None	None	None	75890381	75895334	-1	None	None
2	None	ENSG00000269686	ENST00000596384	protein_coding	NOVEL	None	None	378	125	133874577	133876625	1	None	None
2	None	ENSG00000237133	ENST00000437680	antisense	KNOWN	None	None	None	None	33780114	33788614	-1	None	None
2	ATP6V0E1P3	ENSG00000238038	ENST00000420036	processed_pseudogene	KNOWN	None	41937	None	None	33827108	33827353	1	None	None
4	None	ENSG00000248165	ENST00000513770	antisense	KNOWN	None	None	None	None	75919087	75960034	-1	None	None
2	HNRNPA1P61	ENSG00000187999	ENST00000342073	processed_pseudogene	KNOWN	None	48791	None	None	33861569	33862492	1	None	None
2	None	ENSG00000203386	ENST00000366209	lincRNA	KNOWN	None	None	None	None	33931953	34522820	1	None	None
2	None	ENSG00000203386	ENST00000442026	lincRNA	KNOWN	None	None	None	None	33931975	34286114	1	None	None
HSCHR6_MHC_DBB	TUBB	ENSG00000235067	ENST00000419792	protein_coding	KNOWN	None	20778	1335	444	30678239	30683464	1	None	OK/SW-cl.56, MGC16435, M40, Tubb5
HSCHR6_MHC_DBB	TUBB	ENSG00000235067	ENST00000436335	protein_coding	KNOWN	None	20778	1119	372	30679612	30683464	1	None	OK/SW-cl.56, MGC16435, M40, Tubb5
HSCHR6_MHC_DBB	TUBB	ENSG00000235067	ENST00000425136	protein_coding	KNOWN	None	20778	1281	426	30679705	30683464	1	None	OK/SW-cl.56, MGC16435, M40, Tubb5
HSCHR6_MHC_DBB	TUBB	ENSG00000235067	ENST00000444441	protein_coding	KNOWN	None	20778	1119	372	30679737	30683464	1	None	OK/SW-cl.56, MGC16435, M40, Tubb5
HSCHR6_MHC_DBB	TUBB	ENSG00000235067	ENST00000547690	protein_coding	KNOWN	None	20778	1305	434	30678395	30682566	1	None	OK/SW-cl.56, MGC16435, M40, Tubb5
4	None	ENSG00000260265	ENST00000561705	lincRNA	KNOWN	None	None	None	None	76006912	76009927	-1	None	None
4	None	ENSG00000260265	ENST00000567197	lincRNA	KNOWN	None	None	None	None	76007135	76007705	-1	None	None
4	None	ENSG00000260265	ENST00000562355	lincRNA	KNOWN	None	None	None	None	76007229	76008706	-1	None	None
4	None	ENSG00000260265	ENST00000563602	lincRNA	KNOWN	None	None	None	None	76007247	76008878	-1	None	None
X	None	ENSG00000234448	ENST00000433136	processed_pseudogene	KNOWN	None	None	None	None	48231338	48231528	1	None	None
10	C10orf71-AS1	ENSG00000236208	ENST00000437677	antisense	KNOWN	None	45007	None	None	50504157	50506825	-1	None	None
10	C10orf71-AS1	ENSG00000236208	ENST00000442700	antisense	KNOWN	None	45007	None	None	50504495	50507063	-1	None	None
17	KRT40	ENSG00000204889	ENST00000461923	nonsense_mediated_decay	KNOWN	None	26707	711	236	39133968	39143253	-1	None	FLJ36600, KA36
17	KRT40	ENSG00000204889	ENST00000398486	protein_coding	KNOWN	CCDS42320	26707	1296	431	39134134	39143387	-1	None	FLJ36600, KA36
17	KRT40	ENSG00000204889	ENST00000377755	protein_coding	KNOWN	CCDS42320	26707	1296	431	39133968	39140560	-1	None	FLJ36600, KA36
X	None	ENSG00000231603	ENST00000413071	processed_pseudogene	KNOWN	None	None	None	None	48239582	48242564	-1	None	None
2	MYADML	ENSG00000239649	ENST00000490394	processed_transcript	KNOWN	None	31019	None	None	33947788	33952631	-1	None	None
2	MYADML	ENSG00000239649	ENST00000474610	processed_transcript	KNOWN	None	31019	None	None	33951128	33953274	-1	None	None
2	MYADML	ENSG00000239649	ENST00000491596	transcribed_processed_pseudogene	KNOWN	None	31019	None	None	33952105	33953055	-1	None	None
2	MYADML	ENSG00000239649	ENST00000322472	processed_pseudogene	KNOWN	None	31019	None	None	33951323	33953271	-1	None	None
4	None	ENSG00000250315	ENST00000598794	processed_transcript	KNOWN	None	None	None	None	76026687	76027153	1	None	None
4	None	ENSG00000250315	ENST00000515177	transcribed_processed_pseudogene	KNOWN	None	None	None	None	76026701	76027071	1	None	None
19	MIR519E	ENSG00000207810	ENST00000385075	miRNA	KNOWN	None	32095	None	None	54183194	54183277	1	MIRN519E	hsa-mir-519e
5	None	ENSG00000250081	ENST00000510261	lincRNA	KNOWN	None	None	None	None	64782271	64782875	-1	None	None
19	MIR520F	ENSG00000207555	ENST00000384824	miRNA	KNOWN	None	32096	None	None	54185413	54185499	1	MIRN520F	hsa-mir-520f
X	None	ENSG00000229620	ENST00000415467	processed_pseudogene	KNOWN	None	None	None	None	48271748	48274761	1	None	None
2	MGAT5	ENSG00000152127	ENST00000481801	processed_transcript	PUTATIVE	None	7049	None	None	134877554	135012177	1	None	GNT-V
2	MGAT5	ENSG00000152127	ENST00000468758	processed_transcript	PUTATIVE	None	7049	None	None	134877554	135012215	1	None	GNT-V
2	MGAT5	ENSG00000152127	ENST00000409645	protein_coding	KNOWN	CCDS2171	7049	2226	741	134877753	135212192	1	None	GNT-V
2	MGAT5	ENSG00000152127	ENST00000488365	processed_transcript	KNOWN	None	7049	None	None	135010675	135012085	1	None	GNT-V
2	MGAT5	ENSG00000152127	ENST00000281923	protein_coding	KNOWN	CCDS2171	7049	2226	741	135011830	135206468	1	None	GNT-V
5	RNU6-540P	ENSG00000207352	ENST00000384622	snRNA	KNOWN	None	47503	None	None	64900488	64900588	-1	None	None
7	GNGT1	ENSG00000127928	ENST00000455502	protein_coding	PUTATIVE	None	4411	141	46	93220885	93540387	1	None	GNG1
7	GNGT1	ENSG00000127928	ENST00000248572	protein_coding	KNOWN	CCDS5633	4411	225	74	93535820	93540577	1	None	GNG1
7	GNGT1	ENSG00000127928	ENST00000429473	protein_coding	KNOWN	CCDS5633	4411	225	74	93535898	93540382	1	None	GNG1
7	GNGT1	ENSG00000127928	ENST00000430875	protein_coding	PUTATIVE	None	4411	141	46	93535904	93539171	1	None	GNG1
7	GNGT1	ENSG00000127928	ENST00000428834	protein_coding	PUTATIVE	None	4411	141	46	93535906	93539367	1	None	GNG1
7	NRF1	ENSG00000106459	ENST00000477428	processed_transcript	KNOWN	None	7996	None	None	129251580	129273621	1	None	EWG, ALPHA-PAL
7	NRF1	ENSG00000106459	ENST00000454688	protein_coding	KNOWN	None	7996	629	208	129251588	129348937	1	None	EWG, ALPHA-PAL
7	NRF1	ENSG00000106459	ENST00000223190	protein_coding	KNOWN	CCDS5813	7996	1512	503	129251597	129395855	1	None	EWG, ALPHA-PAL
7	NRF1	ENSG00000106459	ENST00000311967	protein_coding	NOVEL	None	7996	1569	522	129251597	129395855	1	None	EWG, ALPHA-PAL
7	NRF1	ENSG00000106459	ENST00000393230	protein_coding	KNOWN	CCDS5813	7996	1512	503	129269909	129396922	1	None	EWG, ALPHA-PAL
7	NRF1	ENSG00000106459	ENST00000393232	protein_coding	KNOWN	CCDS5813	7996	1512	503	129251555	129396920	1	None	EWG, ALPHA-PAL
7	NRF1	ENSG00000106459	ENST00000353868	protein_coding	KNOWN	None	7996	1314	437	129251555	129396920	1	None	EWG, ALPHA-PAL
7	NRF1	ENSG00000106459	ENST00000393231	protein_coding	KNOWN	None	7996	1569	522	129297191	129395227	1	None	EWG, ALPHA-PAL
7	NRF1	ENSG00000106459	ENST00000539636	protein_coding	KNOWN	None	7996	1029	342	129251580	129395060	1	None	EWG, ALPHA-PAL
19	MIR515-2	ENSG00000207615	ENST00000384883	miRNA	KNOWN	None	32097	None	None	54188263	54188345	1	MIRN515-2	hsa-mir-515-2
5	None	ENSG00000251648	ENST00000511047	processed_pseudogene	KNOWN	None	None	None	None	65028800	65029481	1	None	None
2	None	ENSG00000264267	ENST00000580494	miRNA	NOVEL	None	None	None	None	34011105	34011205	-1	None	None
19	MIR519C	ENSG00000207788	ENST00000385053	miRNA	KNOWN	None	32098	None	None	54189723	54189809	1	MIRN519C	hsa-mir-519c
2	SLC25A5P2	ENSG00000235064	ENST00000413713	processed_pseudogene	KNOWN	None	35470	None	None	34064849	34065745	-1	None	LOC344371
X	None	ENSG00000231489	ENST00000423117	processed_pseudogene	KNOWN	None	None	None	None	48281727	48281853	-1	None	None
12	PUS7L	ENSG00000129317	ENST00000416848	protein_coding	KNOWN	CCDS8743	25276	2106	701	44122410	44152561	-1	None	DKFZP434G1415
12	PUS7L	ENSG00000129317	ENST00000344862	protein_coding	KNOWN	CCDS8743	25276	2106	701	44122415	44152620	-1	None	DKFZP434G1415
12	PUS7L	ENSG00000129317	ENST00000551923	protein_coding	KNOWN	CCDS8743	25276	2106	701	44123061	44152576	-1	None	DKFZP434G1415
12	PUS7L	ENSG00000129317	ENST00000431332	protein_coding	PUTATIVE	None	25276	1167	388	44123566	44152596	-1	None	DKFZP434G1415
12	PUS7L	ENSG00000129317	ENST00000550784	protein_coding	PUTATIVE	None	25276	482	159	44132136	44152562	-1	None	DKFZP434G1415
12	PUS7L	ENSG00000129317	ENST00000547156	protein_coding	PUTATIVE	None	25276	462	153	44132156	44152562	-1	None	DKFZP434G1415
12	PUS7L	ENSG00000129317	ENST00000553166	protein_coding	KNOWN	None	25276	1095	364	44140017	44152570	-1	None	DKFZP434G1415
12	PUS7L	ENSG00000129317	ENST00000549868	protein_coding	KNOWN	None	25276	379	125	44148670	44152562	-1	None	DKFZP434G1415
5	None	ENSG00000269961	ENST00000602982	lincRNA	KNOWN	None	None	None	None	65220457	65220963	-1	None	None
2	None	ENSG00000266861	ENST00000581297	miRNA	NOVEL	None	None	None	None	34152451	34152539	1	None	None
X	None	ENSG00000235350	ENST00000441624	unprocessed_pseudogene	KNOWN	None	None	None	None	48291580	48299998	1	None	None
2	None	ENSG00000237790	ENST00000423593	lincRNA	KNOWN	None	None	None	None	34292293	34294617	1	None	None
3	SOX2	ENSG00000181449	ENST00000431565	protein_coding	KNOWN	CCDS3239	11195	954	317	181429714	181431102	1	None	None
3	SOX2	ENSG00000181449	ENST00000325404	protein_coding	KNOWN	CCDS3239	11195	954	317	181429722	181432221	1	None	None
16	SRCAP	ENSG00000080603	ENST00000411466	protein_coding	KNOWN	None	16974	300	99	30709530	30715630	1	None	KIAA0309, EAF1, SWR1, DOMO1
16	SRCAP	ENSG00000080603	ENST00000262518	protein_coding	KNOWN	CCDS10689	16974	9693	3230	30710462	30751450	1	None	KIAA0309, EAF1, SWR1, DOMO1
16	SRCAP	ENSG00000080603	ENST00000380361	nonsense_mediated_decay	KNOWN	None	16974	9162	3053	30715388	30755602	1	None	KIAA0309, EAF1, SWR1, DOMO1
16	SRCAP	ENSG00000080603	ENST00000483083	retained_intron	KNOWN	None	16974	None	None	30721217	30736689	1	None	KIAA0309, EAF1, SWR1, DOMO1
16	SRCAP	ENSG00000080603	ENST00000474008	retained_intron	KNOWN	None	16974	None	None	30745271	30747584	1	None	KIAA0309, EAF1, SWR1, DOMO1
16	SRCAP	ENSG00000080603	ENST00000395059	protein_coding	KNOWN	None	16974	9507	3168	30710462	30751449	1	None	KIAA0309, EAF1, SWR1, DOMO1
16	SRCAP	ENSG00000080603	ENST00000344771	protein_coding	KNOWN	None	16974	9219	3072	30710462	30751449	1	None	KIAA0309, EAF1, SWR1, DOMO1
2	None	ENSG00000226785	ENST00000422558	lincRNA	KNOWN	None	None	None	None	34608855	34860407	1	None	None
8	KCTD9	ENSG00000104756	ENST00000221200	protein_coding	KNOWN	CCDS6048	22401	1170	389	25285366	25315983	-1	None	FLJ20038, BTBD27
8	KCTD9	ENSG00000104756	ENST00000519665	nonsense_mediated_decay	KNOWN	None	22401	174	57	25286778	25315992	-1	None	FLJ20038, BTBD27
8	KCTD9	ENSG00000104756	ENST00000523140	nonsense_mediated_decay	KNOWN	None	22401	189	62	25292949	25315903	-1	None	FLJ20038, BTBD27
8	KCTD9	ENSG00000104756	ENST00000522493	processed_transcript	KNOWN	None	22401	None	None	25293778	25315822	-1	None	FLJ20038, BTBD27
8	KCTD9	ENSG00000104756	ENST00000518067	processed_transcript	KNOWN	None	22401	None	None	25296872	25315928	-1	None	FLJ20038, BTBD27
8	KCTD9	ENSG00000104756	ENST00000518997	processed_transcript	KNOWN	None	22401	None	None	25297126	25315947	-1	None	FLJ20038, BTBD27
8	KCTD9	ENSG00000104756	ENST00000523294	retained_intron	KNOWN	None	22401	None	None	25297145	25314933	-1	None	FLJ20038, BTBD27
8	KCTD9	ENSG00000104756	ENST00000521458	retained_intron	KNOWN	None	22401	None	None	25298059	25315958	-1	None	FLJ20038, BTBD27
8	KCTD9	ENSG00000104756	ENST00000524217	processed_transcript	KNOWN	None	22401	None	None	25298140	25315796	-1	None	FLJ20038, BTBD27
8	KCTD9	ENSG00000104756	ENST00000520405	retained_intron	KNOWN	None	22401	None	None	25303666	25308127	-1	None	FLJ20038, BTBD27
8	KCTD9	ENSG00000104756	ENST00000517914	processed_transcript	PUTATIVE	None	22401	None	None	25307895	25315270	-1	None	FLJ20038, BTBD27
19	MIR1283-1	ENSG00000221421	ENST00000408494	miRNA	KNOWN	None	35255	None	None	54191735	54191821	1	MIRN1283-1	hsa-mir-1283-1
2	None	ENSG00000212025	ENST00000390736	miRNA	NOVEL	None	None	None	None	34628731	34628824	-1	None	None
17	GOSR1	ENSG00000108587	ENST00000225724	protein_coding	KNOWN	CCDS11258	4430	753	250	28804380	28854610	1	None	GOS28, P28, GS28, GOS-28, GOLIM2
17	GOSR1	ENSG00000108587	ENST00000451249	protein_coding	KNOWN	CCDS45643	4430	747	248	28804395	28849823	1	None	GOS28, P28, GS28, GOS-28, GOLIM2
17	GOSR1	ENSG00000108587	ENST00000467635	retained_intron	KNOWN	None	4430	None	None	28804435	28817368	1	None	GOS28, P28, GS28, GOS-28, GOLIM2
17	GOSR1	ENSG00000108587	ENST00000427274	nonsense_mediated_decay	KNOWN	None	4430	525	174	28804438	28847450	1	None	GOS28, P28, GS28, GOS-28, GOLIM2
17	GOSR1	ENSG00000108587	ENST00000491489	retained_intron	KNOWN	None	4430	None	None	28804441	28812152	1	None	GOS28, P28, GS28, GOS-28, GOLIM2
17	GOSR1	ENSG00000108587	ENST00000537788	nonsense_mediated_decay	KNOWN	None	4430	246	81	28804441	28817209	1	None	GOS28, P28, GS28, GOS-28, GOLIM2
17	GOSR1	ENSG00000108587	ENST00000467337	protein_coding	KNOWN	CCDS45644	4430	558	185	28804441	28849627	1	None	GOS28, P28, GS28, GOS-28, GOLIM2
17	GOSR1	ENSG00000108587	ENST00000581721	protein_coding	NOVEL	None	4430	711	236	28804445	28849434	1	None	GOS28, P28, GS28, GOS-28, GOLIM2
17	GOSR1	ENSG00000108587	ENST00000414833	protein_coding	PUTATIVE	None	4430	767	254	28804460	28849576	1	None	GOS28, P28, GS28, GOS-28, GOLIM2
17	GOSR1	ENSG00000108587	ENST00000579905	processed_transcript	KNOWN	None	4430	None	None	28805513	28808360	1	None	GOS28, P28, GS28, GOS-28, GOLIM2
17	GOSR1	ENSG00000108587	ENST00000494918	retained_intron	KNOWN	None	4430	None	None	28837611	28849611	1	None	GOS28, P28, GS28, GOS-28, GOLIM2
17	GOSR1	ENSG00000108587	ENST00000477885	retained_intron	KNOWN	None	4430	None	None	28846717	28849627	1	None	GOS28, P28, GS28, GOS-28, GOLIM2
19	MIR520A	ENSG00000207594	ENST00000384862	miRNA	KNOWN	None	32099	None	None	54194135	54194219	1	MIRN520A	hsa-mir-520a
16	FAHD1	ENSG00000180185	ENST00000382668	protein_coding	KNOWN	CCDS45380	14169	681	226	1876968	1890208	1	C16orf36	DKFZP566J2046
16	FAHD1	ENSG00000180185	ENST00000382666	protein_coding	KNOWN	CCDS32367	14169	747	248	1876968	1890208	1	C16orf36	DKFZP566J2046
16	FAHD1	ENSG00000180185	ENST00000427358	protein_coding	KNOWN	CCDS10448	14169	675	224	1877225	1878908	1	C16orf36	DKFZP566J2046
2	None	ENSG00000228262	ENST00000423663	lincRNA	KNOWN	None	None	None	None	34902646	34947630	1	None	None
2	None	ENSG00000228262	ENST00000607437	lincRNA	KNOWN	None	None	None	None	34929778	34947186	1	None	None
2	None	ENSG00000228262	ENST00000604250	lincRNA	KNOWN	None	None	None	None	34935519	34947580	1	None	None
2	None	ENSG00000228262	ENST00000603129	lincRNA	KNOWN	None	None	None	None	34938657	34962644	1	None	None
2	None	ENSG00000228262	ENST00000453774	lincRNA	KNOWN	None	None	None	None	34938657	34963298	1	None	None
2	None	ENSG00000228262	ENST00000587085	lincRNA	KNOWN	None	None	None	None	34960145	34962638	1	None	None
15	GABRA5	ENSG00000186297	ENST00000335625	protein_coding	KNOWN	CCDS45194	4079	1389	462	27111510	27194354	1	None	None
15	GABRA5	ENSG00000186297	ENST00000355395	protein_coding	KNOWN	CCDS45194	4079	1389	462	27112058	27193899	1	None	None
15	GABRA5	ENSG00000186297	ENST00000555182	protein_coding	PUTATIVE	None	4079	499	165	27112219	27182346	1	None	None
15	GABRA5	ENSG00000186297	ENST00000557484	processed_transcript	KNOWN	None	4079	None	None	27112267	27122831	1	None	None
15	GABRA5	ENSG00000186297	ENST00000554038	protein_coding	KNOWN	None	4079	258	85	27112310	27128362	1	None	None
15	GABRA5	ENSG00000186297	ENST00000554596	protein_coding	KNOWN	None	4079	446	147	27112389	27128653	1	None	None
15	GABRA5	ENSG00000186297	ENST00000557449	processed_transcript	KNOWN	None	4079	None	None	27112392	27159997	1	None	None
15	GABRA5	ENSG00000186297	ENST00000555060	protein_coding	KNOWN	None	4079	48	15	27112976	27114443	1	None	None
15	GABRA5	ENSG00000186297	ENST00000554599	protein_coding	KNOWN	None	4079	500	165	27113862	27159952	1	None	None
15	GABRA5	ENSG00000186297	ENST00000554083	protein_coding	PUTATIVE	None	4079	257	84	27125690	27128560	1	None	None
15	GABRA5	ENSG00000186297	ENST00000400081	protein_coding	KNOWN	CCDS45194	4079	1389	462	27112273	27194354	1	None	None
HSCHR6_MHC_APD	HLA-DPB1	ENSG00000236693	ENST00000411749	protein_coding	KNOWN	None	4940	777	258	33027107	33038372	1	HLA-DP1B	None
HSCHR6_MHC_APD	HLA-DPB1	ENSG00000236693	ENST00000441981	protein_coding	KNOWN	None	4940	687	228	33027153	33038372	1	HLA-DP1B	None
HSCHR6_MHC_APD	HLA-DPB1	ENSG00000236693	ENST00000478718	retained_intron	KNOWN	None	4940	None	None	33027191	33032419	1	HLA-DP1B	None
HSCHR6_MHC_APD	HLA-DPB1	ENSG00000236693	ENST00000474044	processed_transcript	KNOWN	None	4940	None	None	33031573	33035199	1	HLA-DP1B	None
HSCHR6_MHC_APD	HLA-DPB1	ENSG00000236693	ENST00000466949	processed_transcript	KNOWN	None	4940	None	None	33031573	33036128	1	HLA-DP1B	None
HSCHR6_MHC_APD	HLA-DPB1	ENSG00000236693	ENST00000471170	processed_transcript	KNOWN	None	4940	None	None	33031630	33036402	1	HLA-DP1B	None
HSCHR6_MHC_APD	HLA-DPB1	ENSG00000236693	ENST00000441678	protein_coding	KNOWN	None	4940	688	228	33031674	33037060	1	HLA-DP1B	None
HSCHR6_MHC_APD	HLA-DPB1	ENSG00000236693	ENST00000411722	protein_coding	KNOWN	None	4940	707	234	33031859	33038372	1	HLA-DP1B	None
HSCHR6_MHC_APD	HLA-DPB1	ENSG00000236693	ENST00000468054	processed_transcript	KNOWN	None	4940	None	None	33032128	33035077	1	HLA-DP1B	None
HSCHR6_MHC_APD	HLA-DPB1	ENSG00000236693	ENST00000550949	protein_coding	KNOWN	None	4940	198	65	33031861	33037940	1	HLA-DP1B	None
11	RASSF7	ENSG00000099849	ENST00000431809	protein_coding	KNOWN	CCDS44506	1166	1014	337	560404	563993	1	C11orf13	HRC1, HRAS1
11	RASSF7	ENSG00000099849	ENST00000397582	protein_coding	KNOWN	CCDS44506	1166	1014	337	560956	564012	1	C11orf13	HRC1, HRAS1
11	RASSF7	ENSG00000099849	ENST00000414138	nonsense_mediated_decay	KNOWN	None	1166	363	120	560971	563980	1	C11orf13	HRC1, HRAS1
11	RASSF7	ENSG00000099849	ENST00000524468	processed_transcript	KNOWN	None	1166	None	None	560987	562456	1	C11orf13	HRC1, HRAS1
11	RASSF7	ENSG00000099849	ENST00000397583	protein_coding	KNOWN	CCDS7702	1166	1122	373	561052	564018	1	C11orf13	HRC1, HRAS1
11	RASSF7	ENSG00000099849	ENST00000454668	protein_coding	KNOWN	CCDS44505	1166	963	320	561450	564021	1	C11orf13	HRC1, HRAS1
11	RASSF7	ENSG00000099849	ENST00000528736	protein_coding	KNOWN	None	1166	251	82	561547	562205	1	C11orf13	HRC1, HRAS1
11	RASSF7	ENSG00000099849	ENST00000531112	nonsense_mediated_decay	KNOWN	None	1166	584	193	562385	563685	1	C11orf13	HRC1, HRAS1
11	RASSF7	ENSG00000099849	ENST00000344375	protein_coding	KNOWN	CCDS7702	1166	1122	373	560999	563645	1	C11orf13	HRC1, HRAS1
3	RETNLB	ENSG00000163515	ENST00000482939	processed_transcript	KNOWN	None	20388	None	None	108462271	108475862	-1	None	HXCP2, FIZZ2, RELMb
3	RETNLB	ENSG00000163515	ENST00000295755	protein_coding	KNOWN	CCDS2953	20388	336	111	108474484	108476231	-1	None	HXCP2, FIZZ2, RELMb
17	DBF4B	ENSG00000161692	ENST00000393547	protein_coding	KNOWN	CCDS45706	17883	1296	431	42785976	42829632	1	None	FLJ13087, DRF1, ASKL1, chifb, ZDBF1B
17	DBF4B	ENSG00000161692	ENST00000528766	retained_intron	KNOWN	None	17883	None	None	42786024	42808586	1	None	FLJ13087, DRF1, ASKL1, chifb, ZDBF1B
17	DBF4B	ENSG00000161692	ENST00000528353	retained_intron	KNOWN	None	17883	None	None	42786024	42810245	1	None	FLJ13087, DRF1, ASKL1, chifb, ZDBF1B
17	DBF4B	ENSG00000161692	ENST00000315005	protein_coding	KNOWN	CCDS11485	17883	1848	615	42786051	42829632	1	None	FLJ13087, DRF1, ASKL1, chifb, ZDBF1B
17	DBF4B	ENSG00000161692	ENST00000526924	nonsense_mediated_decay	KNOWN	None	17883	474	157	42786066	42827607	1	None	FLJ13087, DRF1, ASKL1, chifb, ZDBF1B
17	DBF4B	ENSG00000161692	ENST00000526915	processed_transcript	KNOWN	None	17883	None	None	42786096	42811521	1	None	FLJ13087, DRF1, ASKL1, chifb, ZDBF1B
17	DBF4B	ENSG00000161692	ENST00000525140	retained_intron	KNOWN	None	17883	None	None	42786212	42808614	1	None	FLJ13087, DRF1, ASKL1, chifb, ZDBF1B
17	DBF4B	ENSG00000161692	ENST00000531699	retained_intron	KNOWN	None	17883	None	None	42786214	42808528	1	None	FLJ13087, DRF1, ASKL1, chifb, ZDBF1B
17	DBF4B	ENSG00000161692	ENST00000532789	retained_intron	KNOWN	None	17883	None	None	42786230	42808790	1	None	FLJ13087, DRF1, ASKL1, chifb, ZDBF1B
17	DBF4B	ENSG00000161692	ENST00000527862	retained_intron	KNOWN	None	17883	None	None	42811027	42826767	1	None	FLJ13087, DRF1, ASKL1, chifb, ZDBF1B
17	DBF4B	ENSG00000161692	ENST00000398338	protein_coding	KNOWN	None	17883	474	157	42786004	42818820	1	None	FLJ13087, DRF1, ASKL1, chifb, ZDBF1B
11	MUC6	ENSG00000184956	ENST00000421673	protein_coding	KNOWN	CCDS44513	7517	7320	2439	1012821	1036706	-1	None	None
11	MUC6	ENSG00000184956	ENST00000532016	protein_coding	PUTATIVE	None	7517	656	217	1013473	1016153	-1	None	None
11	MUC6	ENSG00000184956	ENST00000527242	protein_coding	PUTATIVE	None	7517	350	115	1019905	1021217	-1	None	None
11	MUC6	ENSG00000184956	ENST00000525923	protein_coding	PUTATIVE	None	7517	543	180	1031619	1033209	-1	None	None
3	HCLS1	ENSG00000180353	ENST00000314583	protein_coding	KNOWN	CCDS3003	4844	1461	486	121350246	121379758	-1	None	HS1, CTTNL
3	HCLS1	ENSG00000180353	ENST00000473883	processed_transcript	KNOWN	None	4844	None	None	121350247	121363030	-1	None	HS1, CTTNL
3	HCLS1	ENSG00000180353	ENST00000428394	protein_coding	NOVEL	None	4844	1350	449	121350562	121379745	-1	None	HS1, CTTNL
3	HCLS1	ENSG00000180353	ENST00000495491	nonsense_mediated_decay	KNOWN	None	4844	630	209	121351253	121379774	-1	None	HS1, CTTNL
3	HCLS1	ENSG00000180353	ENST00000464274	nonsense_mediated_decay	KNOWN	None	4844	228	75	121355993	121379730	-1	None	HS1, CTTNL
3	HCLS1	ENSG00000180353	ENST00000487290	processed_transcript	KNOWN	None	4844	None	None	121362968	121379745	-1	None	HS1, CTTNL
3	HCLS1	ENSG00000180353	ENST00000481314	retained_intron	KNOWN	None	4844	None	None	121363077	121379748	-1	None	HS1, CTTNL
3	HCLS1	ENSG00000180353	ENST00000497391	nonsense_mediated_decay	KNOWN	None	4844	231	76	121363665	121379766	-1	None	HS1, CTTNL
3	HCLS1	ENSG00000180353	ENST00000488033	processed_transcript	KNOWN	None	4844	None	None	121372412	121379763	-1	None	HS1, CTTNL
3	HCLS1	ENSG00000180353	ENST00000468693	processed_transcript	KNOWN	None	4844	None	None	121374906	121379725	-1	None	HS1, CTTNL
3	HCLS1	ENSG00000180353	ENST00000491824	retained_intron	KNOWN	None	4844	None	None	121375738	121379766	-1	None	HS1, CTTNL
3	HCLS1	ENSG00000180353	ENST00000479994	retained_intron	KNOWN	None	4844	None	None	121376829	121379750	-1	None	HS1, CTTNL
20	DNTTIP1	ENSG00000101457	ENST00000372622	protein_coding	KNOWN	CCDS13369	16160	990	329	44420576	44440066	1	C20orf167	dJ447F3.4, Tdif1
20	DNTTIP1	ENSG00000101457	ENST00000449078	protein_coding	PUTATIVE	None	16160	453	150	44420659	44425212	1	C20orf167	dJ447F3.4, Tdif1
20	DNTTIP1	ENSG00000101457	ENST00000456939	protein_coding	NOVEL	None	16160	841	279	44420694	44440066	1	C20orf167	dJ447F3.4, Tdif1
20	DNTTIP1	ENSG00000101457	ENST00000415790	protein_coding	PUTATIVE	None	16160	435	144	44421175	44430694	1	C20orf167	dJ447F3.4, Tdif1
20	DNTTIP1	ENSG00000101457	ENST00000435014	protein_coding	NOVEL	None	16160	698	231	44422604	44440066	1	C20orf167	dJ447F3.4, Tdif1
20	DNTTIP1	ENSG00000101457	ENST00000467701	retained_intron	KNOWN	None	16160	None	None	44431636	44434005	1	C20orf167	dJ447F3.4, Tdif1
6	TNXA	ENSG00000248290	ENST00000507684	unprocessed_pseudogene	KNOWN	None	11975	None	None	31976391	31980249	-1	TNX	XA, D6S103E, HXBL
10	ZSWIM8	ENSG00000214655	ENST00000604729	protein_coding	NOVEL	None	23528	5505	1834	75545340	75561550	1	KIAA0913	4832404P21Rik
10	ZSWIM8	ENSG00000214655	ENST00000603114	protein_coding	NOVEL	None	23528	5391	1796	75545382	75561550	1	KIAA0913	4832404P21Rik
10	ZSWIM8	ENSG00000214655	ENST00000446546	retained_intron	KNOWN	None	23528	None	None	75545413	75546437	1	KIAA0913	4832404P21Rik
10	ZSWIM8	ENSG00000214655	ENST00000604524	protein_coding	NOVEL	None	23528	4968	1655	75545414	75561551	1	KIAA0913	4832404P21Rik
10	ZSWIM8	ENSG00000214655	ENST00000605216	protein_coding	NOVEL	None	23528	5514	1837	75545420	75561550	1	KIAA0913	4832404P21Rik
10	ZSWIM8	ENSG00000214655	ENST00000433366	nonsense_mediated_decay	KNOWN	None	23528	4011	1336	75545441	75561366	1	KIAA0913	4832404P21Rik
10	ZSWIM8	ENSG00000214655	ENST00000451629	processed_transcript	KNOWN	None	23528	None	None	75549260	75550014	1	KIAA0913	4832404P21Rik
10	ZSWIM8	ENSG00000214655	ENST00000492395	nonsense_mediated_decay	KNOWN	None	23528	2715	904	75551082	75561551	1	KIAA0913	4832404P21Rik
10	ZSWIM8	ENSG00000214655	ENST00000431225	processed_transcript	KNOWN	None	23528	None	None	75551808	75554701	1	KIAA0913	4832404P21Rik
10	ZSWIM8	ENSG00000214655	ENST00000603187	protein_coding	NOVEL	None	23528	3697	1231	75552280	75561550	1	KIAA0913	4832404P21Rik
10	ZSWIM8	ENSG00000214655	ENST00000412198	protein_coding	NOVEL	None	23528	3338	1111	75552489	75561550	1	KIAA0913	4832404P21Rik
10	ZSWIM8	ENSG00000214655	ENST00000604754	protein_coding	NOVEL	None	23528	3307	1101	75552517	75561339	1	KIAA0913	4832404P21Rik
10	ZSWIM8	ENSG00000214655	ENST00000425051	processed_transcript	KNOWN	None	23528	None	None	75553642	75556118	1	KIAA0913	4832404P21Rik
10	ZSWIM8	ENSG00000214655	ENST00000489234	processed_transcript	KNOWN	None	23528	None	None	75553771	75556109	1	KIAA0913	4832404P21Rik
10	ZSWIM8	ENSG00000214655	ENST00000487278	processed_transcript	KNOWN	None	23528	None	None	75556129	75557208	1	KIAA0913	4832404P21Rik
10	ZSWIM8	ENSG00000214655	ENST00000603409	processed_transcript	KNOWN	None	23528	None	None	75558820	75560924	1	KIAA0913	4832404P21Rik
10	ZSWIM8	ENSG00000214655	ENST00000604165	processed_transcript	KNOWN	None	23528	None	None	75558832	75560693	1	KIAA0913	4832404P21Rik
10	ZSWIM8	ENSG00000214655	ENST00000603195	processed_transcript	KNOWN	None	23528	None	None	75559068	75560553	1	KIAA0913	4832404P21Rik
10	ZSWIM8	ENSG00000214655	ENST00000603840	processed_transcript	KNOWN	None	23528	None	None	75559391	75560652	1	KIAA0913	4832404P21Rik
10	ZSWIM8	ENSG00000214655	ENST00000603309	processed_transcript	KNOWN	None	23528	None	None	75559880	75561190	1	KIAA0913	4832404P21Rik
10	ZSWIM8	ENSG00000214655	ENST00000466354	protein_coding	PUTATIVE	None	23528	613	203	75560477	75561551	1	KIAA0913	4832404P21Rik
10	ZSWIM8	ENSG00000214655	ENST00000466568	processed_transcript	KNOWN	None	23528	None	None	75560665	75561250	1	KIAA0913	4832404P21Rik
10	ZSWIM8	ENSG00000214655	ENST00000398706	protein_coding	KNOWN	CCDS44440	23528	5529	1842	75545420	75561550	1	KIAA0913	4832404P21Rik
1	FAM5B	ENSG00000198797	ENST00000361539	protein_coding	KNOWN	CCDS1320	13746	2352	783	177140633	177251558	1	FAM5B	DBCCR1L2
1	FAM5B	ENSG00000198797	ENST00000460161	processed_transcript	KNOWN	None	13746	None	None	177225917	177226431	1	FAM5B	DBCCR1L2
1	FAM5B	ENSG00000198797	ENST00000478325	processed_transcript	KNOWN	None	13746	None	None	177225996	177250950	1	FAM5B	DBCCR1L2
2	None	ENSG00000272027	ENST00000606468	lincRNA	KNOWN	None	None	None	None	34917357	34919365	-1	None	None
2	None	ENSG00000272027	ENST00000605962	lincRNA	KNOWN	None	None	None	None	34925426	34928447	-1	None	None
2	None	ENSG00000232153	ENST00000458413	lincRNA	KNOWN	None	None	None	None	34960042	34962185	-1	None	None
11	ELF5	ENSG00000135374	ENST00000257832	protein_coding	KNOWN	CCDS7893	3320	768	255	34500340	34535347	-1	None	None
11	ELF5	ENSG00000135374	ENST00000312319	protein_coding	KNOWN	CCDS7892	3320	798	265	34500343	34533346	-1	None	None
11	ELF5	ENSG00000135374	ENST00000429939	protein_coding	NOVEL	CCDS58129	3320	483	160	34501744	34535352	-1	None	None
11	ELF5	ENSG00000135374	ENST00000528709	processed_transcript	KNOWN	None	3320	None	None	34503977	34533375	-1	None	None
11	ELF5	ENSG00000135374	ENST00000532417	protein_coding	NOVEL	None	3320	417	138	34513144	34535312	-1	None	None
10	IDI2	ENSG00000148377	ENST00000277517	protein_coding	KNOWN	CCDS7055	23487	684	227	1064847	1071799	-1	None	IPPI2
4	HAND2-AS1	ENSG00000237125	ENST00000512099	antisense	KNOWN	None	48872	None	None	174448421	174504526	1	None	DEIN, NBLA00301, FLJ11539
4	HAND2-AS1	ENSG00000237125	ENST00000515310	antisense	KNOWN	None	48872	None	None	174449751	174459331	1	None	DEIN, NBLA00301, FLJ11539
4	HAND2-AS1	ENSG00000237125	ENST00000514673	antisense	KNOWN	None	48872	None	None	174451522	174460124	1	None	DEIN, NBLA00301, FLJ11539
4	HAND2-AS1	ENSG00000237125	ENST00000507062	antisense	KNOWN	None	48872	None	None	174451522	174463082	1	None	DEIN, NBLA00301, FLJ11539
4	HAND2-AS1	ENSG00000237125	ENST00000512929	antisense	KNOWN	None	48872	None	None	174451592	174512304	1	None	DEIN, NBLA00301, FLJ11539
4	HAND2-AS1	ENSG00000237125	ENST00000502334	antisense	KNOWN	None	48872	None	None	174451609	174460111	1	None	DEIN, NBLA00301, FLJ11539
4	HAND2-AS1	ENSG00000237125	ENST00000507636	antisense	KNOWN	None	48872	None	None	174451609	174462981	1	None	DEIN, NBLA00301, FLJ11539
4	HAND2-AS1	ENSG00000237125	ENST00000510221	antisense	KNOWN	None	48872	None	None	174451609	174462981	1	None	DEIN, NBLA00301, FLJ11539
4	HAND2-AS1	ENSG00000237125	ENST00000509640	antisense	KNOWN	None	48872	None	None	174451609	174462981	1	None	DEIN, NBLA00301, FLJ11539
4	HAND2-AS1	ENSG00000237125	ENST00000512246	antisense	KNOWN	None	48872	None	None	174451609	174462981	1	None	DEIN, NBLA00301, FLJ11539
4	HAND2-AS1	ENSG00000237125	ENST00000507322	antisense	KNOWN	None	48872	None	None	174451609	174462981	1	None	DEIN, NBLA00301, FLJ11539
4	HAND2-AS1	ENSG00000237125	ENST00000502941	antisense	KNOWN	None	48872	None	None	174451609	174462981	1	None	DEIN, NBLA00301, FLJ11539
4	HAND2-AS1	ENSG00000237125	ENST00000510339	antisense	KNOWN	None	48872	None	None	174451609	174463082	1	None	DEIN, NBLA00301, FLJ11539
4	HAND2-AS1	ENSG00000237125	ENST00000515350	antisense	KNOWN	None	48872	None	None	174451609	174463082	1	None	DEIN, NBLA00301, FLJ11539
4	HAND2-AS1	ENSG00000237125	ENST00000507571	antisense	KNOWN	None	48872	None	None	174451609	174463082	1	None	DEIN, NBLA00301, FLJ11539
4	HAND2-AS1	ENSG00000237125	ENST00000508534	antisense	KNOWN	None	48872	None	None	174451609	174463082	1	None	DEIN, NBLA00301, FLJ11539
4	HAND2-AS1	ENSG00000237125	ENST00000505621	antisense	KNOWN	None	48872	None	None	174451609	174463082	1	None	DEIN, NBLA00301, FLJ11539
4	HAND2-AS1	ENSG00000237125	ENST00000502896	antisense	KNOWN	None	48872	None	None	174451609	174463082	1	None	DEIN, NBLA00301, FLJ11539
4	HAND2-AS1	ENSG00000237125	ENST00000503198	antisense	KNOWN	None	48872	None	None	174451610	174460625	1	None	DEIN, NBLA00301, FLJ11539
4	HAND2-AS1	ENSG00000237125	ENST00000511196	antisense	KNOWN	None	48872	None	None	174451611	174459288	1	None	DEIN, NBLA00301, FLJ11539
4	HAND2-AS1	ENSG00000237125	ENST00000515376	antisense	KNOWN	None	48872	None	None	174451611	174512475	1	None	DEIN, NBLA00301, FLJ11539
4	HAND2-AS1	ENSG00000237125	ENST00000505032	antisense	KNOWN	None	48872	None	None	174451613	174452489	1	None	DEIN, NBLA00301, FLJ11539
4	HAND2-AS1	ENSG00000237125	ENST00000515741	antisense	KNOWN	None	48872	None	None	174451613	174458446	1	None	DEIN, NBLA00301, FLJ11539
4	HAND2-AS1	ENSG00000237125	ENST00000511728	antisense	KNOWN	None	48872	None	None	174451613	174458616	1	None	DEIN, NBLA00301, FLJ11539
4	HAND2-AS1	ENSG00000237125	ENST00000509866	antisense	KNOWN	None	48872	None	None	174451613	174458842	1	None	DEIN, NBLA00301, FLJ11539
4	HAND2-AS1	ENSG00000237125	ENST00000512943	antisense	KNOWN	None	48872	None	None	174451614	174505820	1	None	DEIN, NBLA00301, FLJ11539
4	HAND2-AS1	ENSG00000237125	ENST00000503474	antisense	KNOWN	None	48872	None	None	174451614	174506879	1	None	DEIN, NBLA00301, FLJ11539
4	HAND2-AS1	ENSG00000237125	ENST00000515345	antisense	KNOWN	None	48872	None	None	174451625	174458566	1	None	DEIN, NBLA00301, FLJ11539
4	HAND2-AS1	ENSG00000237125	ENST00000503309	antisense	KNOWN	None	48872	None	None	174451626	174455228	1	None	DEIN, NBLA00301, FLJ11539
4	HAND2-AS1	ENSG00000237125	ENST00000512209	antisense	KNOWN	None	48872	None	None	174451626	174505983	1	None	DEIN, NBLA00301, FLJ11539
4	HAND2-AS1	ENSG00000237125	ENST00000504740	antisense	KNOWN	None	48872	None	None	174451630	174504247	1	None	DEIN, NBLA00301, FLJ11539
4	HAND2-AS1	ENSG00000237125	ENST00000508887	antisense	KNOWN	None	48872	None	None	174451635	174458591	1	None	DEIN, NBLA00301, FLJ11539
4	HAND2-AS1	ENSG00000237125	ENST00000505817	antisense	KNOWN	None	48872	None	None	174451658	174504165	1	None	DEIN, NBLA00301, FLJ11539
4	HAND2-AS1	ENSG00000237125	ENST00000514431	antisense	KNOWN	None	48872	None	None	174451666	174504320	1	None	DEIN, NBLA00301, FLJ11539
4	HAND2-AS1	ENSG00000237125	ENST00000510268	antisense	KNOWN	None	48872	None	None	174452326	174512406	1	None	DEIN, NBLA00301, FLJ11539
4	HAND2-AS1	ENSG00000237125	ENST00000504429	antisense	KNOWN	None	48872	None	None	174452696	174458510	1	None	DEIN, NBLA00301, FLJ11539
5	UNC5A	ENSG00000113763	ENST00000329542	protein_coding	KNOWN	CCDS34299	12567	2529	842	176237478	176307896	1	None	KIAA1976, UNC5H1
5	UNC5A	ENSG00000113763	ENST00000513890	nonsense_mediated_decay	KNOWN	None	12567	254	83	176289625	176301401	1	None	KIAA1976, UNC5H1
5	UNC5A	ENSG00000113763	ENST00000509580	protein_coding	NOVEL	None	12567	1031	342	176289659	176301049	1	None	KIAA1976, UNC5H1
5	UNC5A	ENSG00000113763	ENST00000261961	protein_coding	KNOWN	None	12567	2409	802	176292551	176307897	1	None	KIAA1976, UNC5H1
2	None	ENSG00000226994	ENST00000453451	lincRNA	KNOWN	None	None	None	None	35024917	35388178	1	None	None
2	None	ENSG00000226994	ENST00000592523	lincRNA	KNOWN	None	None	None	None	35056445	35384830	1	None	None
2	None	ENSG00000226994	ENST00000588944	lincRNA	KNOWN	None	None	None	None	35056445	35385344	1	None	None
2	None	ENSG00000226994	ENST00000585391	lincRNA	KNOWN	None	None	None	None	35056445	35389031	1	None	None
2	None	ENSG00000226994	ENST00000591221	lincRNA	KNOWN	None	None	None	None	35056445	35389308	1	None	None
2	None	ENSG00000226994	ENST00000586769	lincRNA	KNOWN	None	None	None	None	35056445	35398190	1	None	None
2	None	ENSG00000226994	ENST00000588650	lincRNA	KNOWN	None	None	None	None	35056445	35398245	1	None	None
2	None	ENSG00000226994	ENST00000587791	lincRNA	KNOWN	None	None	None	None	35093461	35399975	1	None	None
2	None	ENSG00000226994	ENST00000587255	lincRNA	KNOWN	None	None	None	None	35384665	35395415	1	None	None
2	None	ENSG00000226994	ENST00000586952	lincRNA	KNOWN	None	None	None	None	35387842	35410755	1	None	None
2	None	ENSG00000226994	ENST00000606126	lincRNA	KNOWN	None	None	None	None	35387852	35398097	1	None	None
1	SLC25A24	ENSG00000085491	ENST00000565488	protein_coding	KNOWN	CCDS41361	20662	1434	477	108676658	108742980	-1	None	DKFZp586G0123, APC1
1	SLC25A24	ENSG00000085491	ENST00000264128	nonsense_mediated_decay	KNOWN	None	20662	333	110	108677442	108742901	-1	None	DKFZp586G0123, APC1
1	SLC25A24	ENSG00000085491	ENST00000370041	protein_coding	KNOWN	CCDS786	20662	1377	458	108677445	108735440	-1	None	DKFZp586G0123, APC1
1	SLC25A24	ENSG00000085491	ENST00000569674	protein_coding	PUTATIVE	None	20662	210	69	108741115	108743471	-1	None	DKFZp586G0123, APC1
16	None	ENSG00000246379	ENST00000501259	lincRNA	KNOWN	None	None	None	None	56126899	56225006	-1	None	None
16	None	ENSG00000246379	ENST00000565155	lincRNA	KNOWN	None	None	None	None	56177611	56223480	-1	None	None
16	None	ENSG00000246379	ENST00000569025	lincRNA	KNOWN	None	None	None	None	56203591	56223919	-1	None	None
16	None	ENSG00000246379	ENST00000567929	lincRNA	KNOWN	None	None	None	None	56220986	56221990	-1	None	None
X	None	ENSG00000226971	ENST00000457562	processed_pseudogene	KNOWN	None	None	None	None	48305273	48307251	-1	None	None
5	None	ENSG00000253321	ENST00000520032	lincRNA	KNOWN	None	None	None	None	89648854	89652426	-1	None	None
10	None	ENSG00000200849	ENST00000363979	misc_RNA	NOVEL	None	None	None	None	10274574	10274675	1	None	None
10	CUX2P1	ENSG00000272436	ENST00000606426	processed_pseudogene	KNOWN	None	33694	None	None	10299132	10299429	-1	None	None
X	None	ENSG00000224292	ENST00000445586	antisense	KNOWN	None	None	None	None	48364911	48367226	-1	None	None
5	None	ENSG00000260871	ENST00000562820	sense_overlapping	KNOWN	None	None	None	None	89684285	89685180	-1	None	None
1	ARID1A	ENSG00000117713	ENST00000324856	protein_coding	KNOWN	CCDS285	11110	6858	2285	27022524	27108595	1	C1orf4, SMARCF1	B120, P270, C10rf4, BAF250, BAF250a
1	ARID1A	ENSG00000117713	ENST00000457599	protein_coding	NOVEL	CCDS44091	11110	6207	2068	27022895	27107308	1	C1orf4, SMARCF1	B120, P270, C10rf4, BAF250, BAF250a
1	ARID1A	ENSG00000117713	ENST00000524572	protein_coding	NOVEL	None	11110	368	121	27054199	27057809	1	C1orf4, SMARCF1	B120, P270, C10rf4, BAF250, BAF250a
1	ARID1A	ENSG00000117713	ENST00000374152	protein_coding	NOVEL	None	11110	5709	1902	27055871	27107247	1	C1orf4, SMARCF1	B120, P270, C10rf4, BAF250, BAF250a
1	ARID1A	ENSG00000117713	ENST00000430291	retained_intron	KNOWN	None	11110	None	None	27092761	27094492	1	C1orf4, SMARCF1	B120, P270, C10rf4, BAF250, BAF250a
1	ARID1A	ENSG00000117713	ENST00000430799	protein_coding	NOVEL	None	11110	3547	1181	27097720	27107678	1	C1orf4, SMARCF1	B120, P270, C10rf4, BAF250, BAF250a
1	ARID1A	ENSG00000117713	ENST00000466382	nonsense_mediated_decay	KNOWN	None	11110	434	143	27099455	27107668	1	C1orf4, SMARCF1	B120, P270, C10rf4, BAF250, BAF250a
1	ARID1A	ENSG00000117713	ENST00000532781	nonsense_mediated_decay	KNOWN	None	11110	566	187	27101361	27107474	1	C1orf4, SMARCF1	B120, P270, C10rf4, BAF250, BAF250a
1	ARID1A	ENSG00000117713	ENST00000540690	protein_coding	KNOWN	None	11110	1842	613	27099455	27107650	1	C1orf4, SMARCF1	B120, P270, C10rf4, BAF250, BAF250a
X	None	ENSG00000239017	ENST00000459609	snoRNA	NOVEL	None	None	None	None	48420090	48420189	-1	None	None
17	KRTAP3-3	ENSG00000212899	ENST00000391586	protein_coding	KNOWN	CCDS32643	18890	297	98	39149686	39150385	-1	None	KAP3.3
21	YBEY	ENSG00000182362	ENST00000397701	protein_coding	KNOWN	CCDS33591	1299	504	167	47706251	47717665	1	C21orf57	None
21	YBEY	ENSG00000182362	ENST00000468924	retained_intron	KNOWN	None	1299	None	None	47706269	47711844	1	C21orf57	None
21	YBEY	ENSG00000182362	ENST00000397694	protein_coding	KNOWN	None	1299	369	122	47706298	47717637	1	C21orf57	None
21	YBEY	ENSG00000182362	ENST00000329319	protein_coding	KNOWN	CCDS33591	1299	504	167	47706298	47717665	1	C21orf57	None
21	YBEY	ENSG00000182362	ENST00000339195	protein_coding	KNOWN	None	1299	375	124	47706298	47717665	1	C21orf57	None
21	YBEY	ENSG00000182362	ENST00000397692	protein_coding	KNOWN	None	1299	240	79	47706298	47717665	1	C21orf57	None
21	YBEY	ENSG00000182362	ENST00000492864	retained_intron	KNOWN	None	1299	None	None	47706368	47712111	1	C21orf57	None
21	YBEY	ENSG00000182362	ENST00000397691	protein_coding	KNOWN	CCDS33591	1299	504	167	47706559	47717665	1	C21orf57	None
X	None	ENSG00000228343	ENST00000453810	antisense	KNOWN	None	None	None	None	48438162	48439545	-1	None	None
2	RN7SL602P	ENSG00000264352	ENST00000578326	misc_RNA	KNOWN	None	46618	None	None	35034320	35034623	-1	None	None
X	MRPL32P1	ENSG00000220125	ENST00000406301	processed_pseudogene	KNOWN	None	29704	None	None	48441481	48441727	-1	None	None
2	None	ENSG00000237320	ENST00000414796	lincRNA	KNOWN	None	None	None	None	35223345	35225227	-1	None	None
X	VN1R110P	ENSG00000231725	ENST00000438988	processed_pseudogene	KNOWN	None	37438	None	None	48494553	48495523	1	None	None
6	STK19P	ENSG00000250535	ENST00000512515	unprocessed_pseudogene	KNOWN	None	21668	None	None	31981047	31981564	1	None	bPG116M5.10, RP2
3	LRIG1	ENSG00000144749	ENST00000273261	protein_coding	KNOWN	CCDS33783	17360	3282	1093	66429221	66551356	-1	None	LIG-1, DKFZP586O1624, LIG1
3	LRIG1	ENSG00000144749	ENST00000383703	protein_coding	KNOWN	None	17360	3213	1070	66429221	66551435	-1	None	LIG-1, DKFZP586O1624, LIG1
3	LRIG1	ENSG00000144749	ENST00000496559	processed_transcript	KNOWN	None	17360	None	None	66429222	66456637	-1	None	LIG-1, DKFZP586O1624, LIG1
3	LRIG1	ENSG00000144749	ENST00000495037	processed_transcript	KNOWN	None	17360	None	None	66430649	66454834	-1	None	LIG-1, DKFZP586O1624, LIG1
3	LRIG1	ENSG00000144749	ENST00000491821	retained_intron	KNOWN	None	17360	None	None	66460178	66463355	-1	None	LIG-1, DKFZP586O1624, LIG1
3	LRIG1	ENSG00000144749	ENST00000497721	processed_transcript	KNOWN	None	17360	None	None	66460575	66468056	-1	None	LIG-1, DKFZP586O1624, LIG1
3	LRIG1	ENSG00000144749	ENST00000498287	processed_transcript	KNOWN	None	17360	None	None	66463350	66551687	-1	None	LIG-1, DKFZP586O1624, LIG1
3	LRIG1	ENSG00000144749	ENST00000475366	processed_transcript	KNOWN	None	17360	None	None	66465382	66548683	-1	None	LIG-1, DKFZP586O1624, LIG1
3	LRIG1	ENSG00000144749	ENST00000495671	processed_transcript	KNOWN	None	17360	None	None	66501982	66519669	-1	None	LIG-1, DKFZP586O1624, LIG1
X	None	ENSG00000232828	ENST00000416061	antisense	KNOWN	None	None	None	None	48557354	48595570	-1	None	None
7	HOXA11	ENSG00000005073	ENST00000517402	protein_coding	PUTATIVE	None	5101	851	282	27221129	27224842	-1	HOX1I, HOX1	None
7	HOXA11	ENSG00000005073	ENST00000006015	protein_coding	KNOWN	CCDS5411	5101	942	313	27221134	27224835	-1	HOX1I, HOX1	None
2	None	ENSG00000196085	ENST00000397347	processed_pseudogene	KNOWN	None	None	None	None	35444443	35444670	-1	None	None
17	KRTAP3-2	ENSG00000212900	ENST00000391587	protein_coding	KNOWN	CCDS32644	16779	297	98	39155447	39156138	-1	None	KAP3.2
2	MIR548AD	ENSG00000265301	ENST00000584780	miRNA	KNOWN	None	41683	None	None	35696471	35696552	1	None	hsa-mir-548ad
2	RNU6-1117P	ENSG00000207255	ENST00000384525	snRNA	KNOWN	None	48080	None	None	35696671	35696774	1	None	None
12	TNFRSF1A	ENSG00000067182	ENST00000534885	nonsense_mediated_decay	KNOWN	None	11916	369	122	6437923	6451280	-1	TNFR1	TNF-R, TNFAR, TNFR60, TNF-R-I, CD120a, TNF-R55
12	TNFRSF1A	ENSG00000067182	ENST00000162749	protein_coding	KNOWN	CCDS8542	11916	1368	455	6437923	6451280	-1	TNFR1	TNF-R, TNFAR, TNFR60, TNF-R-I, CD120a, TNF-R55
12	TNFRSF1A	ENSG00000067182	ENST00000536717	retained_intron	KNOWN	None	11916	None	None	6438247	6440547	-1	TNFR1	TNF-R, TNFAR, TNFR60, TNF-R-I, CD120a, TNF-R55
12	TNFRSF1A	ENSG00000067182	ENST00000543995	nonsense_mediated_decay	KNOWN	None	11916	219	72	6438311	6451170	-1	TNFR1	TNF-R, TNFAR, TNFR60, TNF-R-I, CD120a, TNF-R55
12	TNFRSF1A	ENSG00000067182	ENST00000540022	protein_coding	NOVEL	None	11916	1239	412	6438403	6451193	-1	TNFR1	TNF-R, TNFAR, TNFR60, TNF-R-I, CD120a, TNF-R55
12	TNFRSF1A	ENSG00000067182	ENST00000543359	processed_transcript	KNOWN	None	11916	None	None	6438631	6442271	-1	TNFR1	TNF-R, TNFAR, TNFR60, TNF-R-I, CD120a, TNF-R55
12	TNFRSF1A	ENSG00000067182	ENST00000537842	processed_transcript	KNOWN	None	11916	None	None	6439034	6442608	-1	TNFR1	TNF-R, TNFAR, TNFR60, TNF-R-I, CD120a, TNF-R55
12	TNFRSF1A	ENSG00000067182	ENST00000535038	processed_transcript	PUTATIVE	None	11916	None	None	6439434	6440313	-1	TNFR1	TNF-R, TNFAR, TNFR60, TNF-R-I, CD120a, TNF-R55
12	TNFRSF1A	ENSG00000067182	ENST00000539372	protein_coding	PUTATIVE	None	11916	895	297	6439608	6451148	-1	TNFR1	TNF-R, TNFAR, TNFR60, TNF-R-I, CD120a, TNF-R55
12	TNFRSF1A	ENSG00000067182	ENST00000366159	protein_coding	NOVEL	None	11916	657	218	6440406	6451014	-1	TNFR1	TNF-R, TNFAR, TNFR60, TNF-R-I, CD120a, TNF-R55
12	TNFRSF1A	ENSG00000067182	ENST00000437813	processed_transcript	KNOWN	None	11916	None	None	6441038	6443410	-1	TNFR1	TNF-R, TNFAR, TNFR60, TNF-R-I, CD120a, TNF-R55
12	TNFRSF1A	ENSG00000067182	ENST00000543048	nonsense_mediated_decay	KNOWN	None	11916	216	71	6442232	6451170	-1	TNFR1	TNF-R, TNFAR, TNFR60, TNF-R-I, CD120a, TNF-R55
12	TNFRSF1A	ENSG00000067182	ENST00000440083	protein_coding	PUTATIVE	None	11916	763	253	6442242	6451251	-1	TNFR1	TNF-R, TNFAR, TNFR60, TNF-R-I, CD120a, TNF-R55
12	TNFRSF1A	ENSG00000067182	ENST00000536194	protein_coding	PUTATIVE	None	11916	354	117	6442624	6451207	-1	TNFR1	TNF-R, TNFAR, TNFR60, TNF-R-I, CD120a, TNF-R55
12	TNFRSF1A	ENSG00000067182	ENST00000535958	processed_transcript	PUTATIVE	None	11916	None	None	6442903	6451201	-1	TNFR1	TNF-R, TNFAR, TNFR60, TNF-R-I, CD120a, TNF-R55
12	TNFRSF1A	ENSG00000067182	ENST00000538363	processed_transcript	PUTATIVE	None	11916	None	None	6443086	6451170	-1	TNFR1	TNF-R, TNFAR, TNFR60, TNF-R-I, CD120a, TNF-R55
2	None	ENSG00000229013	ENST00000445475	processed_pseudogene	KNOWN	None	None	None	None	35696782	35696907	1	None	None
6	C4B-AS1	ENSG00000229776	ENST00000415626	antisense	KNOWN	None	39752	None	None	32000490	32004035	-1	None	None
2	TMEM163	ENSG00000152128	ENST00000281924	protein_coding	KNOWN	CCDS2172	25380	870	289	135213330	135476570	-1	None	DKFZP566N034, SV31
2	TMEM163	ENSG00000152128	ENST00000467316	retained_intron	KNOWN	None	25380	None	None	135213331	135216845	-1	None	DKFZP566N034, SV31
2	TMEM163	ENSG00000152128	ENST00000476823	retained_intron	KNOWN	None	25380	None	None	135213335	135227607	-1	None	DKFZP566N034, SV31
2	MRPL50P1	ENSG00000234587	ENST00000431951	processed_pseudogene	KNOWN	None	29719	None	None	35949825	35950208	-1	None	None
10	IDI1	ENSG00000067064	ENST00000381344	protein_coding	KNOWN	CCDS7056	5387	855	284	1085848	1095110	-1	None	None
10	IDI1	ENSG00000067064	ENST00000491735	processed_transcript	KNOWN	None	5387	None	None	1086843	1095043	-1	None	None
10	IDI1	ENSG00000067064	ENST00000427898	protein_coding	KNOWN	None	5387	362	119	1088489	1094337	-1	None	None
10	IDI1	ENSG00000067064	ENST00000429642	protein_coding	KNOWN	None	5387	366	121	1088572	1094823	-1	None	None
10	IDI1	ENSG00000067064	ENST00000482091	processed_transcript	KNOWN	None	5387	None	None	1088617	1094875	-1	None	None
3	ATP11B	ENSG00000058063	ENST00000323116	protein_coding	KNOWN	CCDS33896	13553	3534	1177	182511288	182639423	1	None	ATPIF, ATPIR, KIAA0956
3	ATP11B	ENSG00000058063	ENST00000493826	protein_coding	PUTATIVE	None	13553	588	195	182511291	182554412	1	None	ATPIF, ATPIR, KIAA0956
3	ATP11B	ENSG00000058063	ENST00000482794	processed_transcript	KNOWN	None	13553	None	None	182551461	182566345	1	None	ATPIF, ATPIR, KIAA0956
3	ATP11B	ENSG00000058063	ENST00000498086	protein_coding	PUTATIVE	None	13553	2912	969	182554905	182636129	1	None	ATPIF, ATPIR, KIAA0956
3	ATP11B	ENSG00000058063	ENST00000490303	retained_intron	KNOWN	None	13553	None	None	182583315	182631891	1	None	ATPIF, ATPIR, KIAA0956
3	ATP11B	ENSG00000058063	ENST00000466758	nonsense_mediated_decay	KNOWN	None	13553	327	108	182591754	182636851	1	None	ATPIF, ATPIR, KIAA0956
3	ATP11B	ENSG00000058063	ENST00000482070	protein_coding	NOVEL	None	13553	716	237	182597327	182615113	1	None	ATPIF, ATPIR, KIAA0956
3	ATP11B	ENSG00000058063	ENST00000491699	protein_coding	PUTATIVE	None	13553	442	146	182615090	182633037	1	None	ATPIF, ATPIR, KIAA0956
3	ATP11B	ENSG00000058063	ENST00000484691	protein_coding	PUTATIVE	None	13553	358	118	182616395	182631884	1	None	ATPIF, ATPIR, KIAA0956
3	ATP11B	ENSG00000058063	ENST00000475636	processed_transcript	KNOWN	None	13553	None	None	182616473	182631766	1	None	ATPIF, ATPIR, KIAA0956
2	None	ENSG00000233752	ENST00000427200	processed_pseudogene	KNOWN	None	None	None	None	36526531	36526973	-1	None	None
2	None	ENSG00000260025	ENST00000565283	lincRNA	KNOWN	None	None	None	None	36581892	36582257	-1	None	None
2	None	ENSG00000256845	ENST00000535666	pseudogene	NOVEL	None	None	None	None	36816784	36818696	-1	None	None
9	None	ENSG00000227350	ENST00000422463	processed_pseudogene	KNOWN	None	None	None	None	110305432	110305897	-1	None	None
2	None	ENSG00000270677	ENST00000604736	processed_pseudogene	KNOWN	None	None	None	None	36883465	36884084	-1	None	None
9	None	ENSG00000226368	ENST00000437349	processed_pseudogene	KNOWN	None	None	None	None	39860052	39860359	1	None	None
2	RNU6-577P	ENSG00000252756	ENST00000516947	snRNA	KNOWN	None	47540	None	None	37094541	37094638	-1	None	None
12	NABP2	ENSG00000139579	ENST00000447747	protein_coding	KNOWN	None	28412	433	143	56615799	56620200	1	OBFC2B	MGC2731, SSB1, hSSB1, SOSS-B1
12	NABP2	ENSG00000139579	ENST00000399713	protein_coding	KNOWN	None	28412	455	150	56615799	56622816	1	OBFC2B	MGC2731, SSB1, hSSB1, SOSS-B1
12	NABP2	ENSG00000139579	ENST00000267023	protein_coding	KNOWN	CCDS8911	28412	636	211	56618109	56623638	1	OBFC2B	MGC2731, SSB1, hSSB1, SOSS-B1
12	NABP2	ENSG00000139579	ENST00000479016	retained_intron	KNOWN	None	28412	None	None	56618141	56620203	1	OBFC2B	MGC2731, SSB1, hSSB1, SOSS-B1
12	NABP2	ENSG00000139579	ENST00000380198	protein_coding	KNOWN	CCDS8911	28412	636	211	56618143	56623638	1	OBFC2B	MGC2731, SSB1, hSSB1, SOSS-B1
12	NABP2	ENSG00000139579	ENST00000341463	protein_coding	KNOWN	CCDS8911	28412	636	211	56618185	56623628	1	OBFC2B	MGC2731, SSB1, hSSB1, SOSS-B1
2	RNU6-846P	ENSG00000252518	ENST00000516709	snRNA	KNOWN	None	47809	None	None	37186505	37186605	1	None	None
HSCHR6_MHC_COX	DAXX	ENSG00000227046	ENST00000455860	protein_coding	KNOWN	None	2681	2223	740	33207945	33212401	-1	None	DAP6
HSCHR6_MHC_COX	DAXX	ENSG00000227046	ENST00000436311	protein_coding	KNOWN	None	2681	2223	740	33207945	33212405	-1	None	DAP6
HSCHR6_MHC_COX	DAXX	ENSG00000227046	ENST00000486470	processed_transcript	KNOWN	None	2681	None	None	33208922	33212321	-1	None	DAP6
HSCHR6_MHC_COX	DAXX	ENSG00000227046	ENST00000472399	processed_transcript	KNOWN	None	2681	None	None	33208974	33211258	-1	None	DAP6
HSCHR6_MHC_COX	DAXX	ENSG00000227046	ENST00000469010	retained_intron	KNOWN	None	2681	None	None	33209053	33209849	-1	None	DAP6
HSCHR6_MHC_COX	DAXX	ENSG00000227046	ENST00000487360	processed_transcript	KNOWN	None	2681	None	None	33210258	33212309	-1	None	DAP6
HSCHR6_MHC_COX	DAXX	ENSG00000227046	ENST00000440500	protein_coding	KNOWN	None	2681	535	177	33210629	33212336	-1	None	DAP6
HSCHR6_MHC_COX	DAXX	ENSG00000227046	ENST00000419855	protein_coding	KNOWN	None	2681	389	128	33210775	33218623	-1	None	DAP6
HSCHR6_MHC_COX	DAXX	ENSG00000227046	ENST00000491696	retained_intron	KNOWN	None	2681	None	None	33211000	33212348	-1	None	DAP6
HSCHR6_MHC_COX	DAXX	ENSG00000227046	ENST00000421874	protein_coding	KNOWN	None	2681	144	47	33211171	33212194	-1	None	DAP6
HSCHR6_MHC_COX	DAXX	ENSG00000227046	ENST00000480469	processed_transcript	KNOWN	None	2681	None	None	33213019	33218656	-1	None	DAP6
9	None	ENSG00000236584	ENST00000416647	processed_pseudogene	KNOWN	None	None	None	None	39897660	39897987	-1	None	None
9	RNU6-996P	ENSG00000202308	ENST00000365438	snRNA	KNOWN	None	47959	None	None	110425421	110425527	-1	None	None
9	RNU6-1064P	ENSG00000222558	ENST00000410626	snRNA	KNOWN	None	48027	None	None	110560025	110560128	-1	None	None
9	RN7SL659P	ENSG00000244104	ENST00000483093	misc_RNA	KNOWN	None	46675	None	None	110573900	110574195	-1	None	None
9	FAM74A1	ENSG00000225597	ENST00000434519	lincRNA	KNOWN	None	32029	None	None	39900346	39906219	1	None	None
9	FAM74A1	ENSG00000225597	ENST00000597221	lincRNA	KNOWN	None	32029	None	None	39900525	39900905	1	None	None
9	RPL36AP6	ENSG00000231293	ENST00000435770	processed_pseudogene	KNOWN	None	23365	None	None	110596790	110597110	-1	None	bA380I20.1
2	None	ENSG00000224891	ENST00000412776	processed_pseudogene	KNOWN	None	None	None	None	37375673	37376447	1	None	None
2	None	ENSG00000233159	ENST00000415722	processed_pseudogene	KNOWN	None	None	None	None	37421525	37421880	-1	None	None
9	None	ENSG00000233727	ENST00000449233	processed_pseudogene	KNOWN	None	None	None	None	110616064	110616539	-1	None	None
12	PDE6H	ENSG00000139053	ENST00000266395	protein_coding	KNOWN	CCDS8672	8790	252	83	15125956	15134799	1	None	None
5	SEMA5A	ENSG00000112902	ENST00000382496	protein_coding	KNOWN	CCDS3875	10736	3225	1074	9035138	9546187	-1	SEMAF	semF
5	SEMA5A	ENSG00000112902	ENST00000514923	protein_coding	PUTATIVE	None	10736	605	200	9202236	9265657	-1	SEMAF	semF
5	SEMA5A	ENSG00000112902	ENST00000513968	protein_coding	KNOWN	None	10736	763	253	9202236	9380313	-1	SEMAF	semF
5	SEMA5A	ENSG00000112902	ENST00000509486	nonsense_mediated_decay	KNOWN	None	10736	276	91	9237831	9380135	-1	SEMAF	semF
9	RNA5SP293	ENSG00000222459	ENST00000410527	rRNA	KNOWN	None	43193	None	None	110681147	110681259	-1	RN5S293	None
4	None	ENSG00000271977	ENST00000513501	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	3916914	3926001	-1	None	None
2	None	ENSG00000272054	ENST00000606229	sense_intronic	KNOWN	None	None	None	None	37436018	37439820	1	None	None
4	None	ENSG00000250560	ENST00000506837	processed_pseudogene	KNOWN	None	None	None	None	76120077	76120289	1	None	None
7	TFPI2	ENSG00000105825	ENST00000222543	protein_coding	KNOWN	CCDS5632	11761	708	235	93514709	93520303	-1	None	PP5, TFPI-2, REF1
7	TFPI2	ENSG00000105825	ENST00000451238	protein_coding	PUTATIVE	None	11761	324	107	93515746	93519482	-1	None	PP5, TFPI-2, REF1
7	TFPI2	ENSG00000105825	ENST00000461482	retained_intron	KNOWN	None	11761	None	None	93519230	93520065	-1	None	PP5, TFPI-2, REF1
7	TFPI2	ENSG00000105825	ENST00000545378	protein_coding	KNOWN	None	11761	375	124	93515307	93520216	-1	None	PP5, TFPI-2, REF1
2	None	ENSG00000232028	ENST00000433893	lincRNA	KNOWN	None	None	None	None	37552483	37553940	1	None	None
2	RNU6-939P	ENSG00000207364	ENST00000384634	snRNA	KNOWN	None	47902	None	None	37558913	37559019	-1	None	None
9	None	ENSG00000236783	ENST00000449183	processed_pseudogene	KNOWN	None	None	None	None	110725984	110726326	-1	None	None
4	ALG1L7P	ENSG00000251271	ENST00000502317	unprocessed_pseudogene	KNOWN	None	44376	None	None	3937174	3944246	1	None	None
4	ALG1L7P	ENSG00000251271	ENST00000546233	unprocessed_pseudogene	KNOWN	None	44376	None	None	3940250	3944248	1	None	None
2	RNU6-1116P	ENSG00000253078	ENST00000517269	snRNA	KNOWN	None	48079	None	None	37662653	37662751	-1	None	None
7	CALD1	ENSG00000122786	ENST00000417172	protein_coding	KNOWN	CCDS5834	1441	1617	538	134429003	134653153	1	None	CDM, H-CAD, L-CAD
7	CALD1	ENSG00000122786	ENST00000436461	protein_coding	KNOWN	None	1441	1379	458	134430218	134644807	1	None	CDM, H-CAD, L-CAD
7	CALD1	ENSG00000122786	ENST00000422748	protein_coding	NOVEL	CCDS5836	1441	1692	563	134464171	134653610	1	None	CDM, H-CAD, L-CAD
7	CALD1	ENSG00000122786	ENST00000454108	protein_coding	KNOWN	None	1441	218	71	134464376	134613651	1	None	CDM, H-CAD, L-CAD
7	CALD1	ENSG00000122786	ENST00000475772	retained_intron	KNOWN	None	1441	None	None	134464385	134552992	1	None	CDM, H-CAD, L-CAD
7	CALD1	ENSG00000122786	ENST00000430085	nonsense_mediated_decay	KNOWN	None	1441	258	85	134464388	134653404	1	None	CDM, H-CAD, L-CAD
7	CALD1	ENSG00000122786	ENST00000462181	processed_transcript	PUTATIVE	None	1441	None	None	134464390	134506812	1	None	CDM, H-CAD, L-CAD
7	CALD1	ENSG00000122786	ENST00000482470	retained_intron	KNOWN	None	1441	None	None	134464401	134647140	1	None	CDM, H-CAD, L-CAD
7	CALD1	ENSG00000122786	ENST00000361675	protein_coding	NOVEL	CCDS5835	1441	2382	793	134464401	134654097	1	None	CDM, H-CAD, L-CAD
7	CALD1	ENSG00000122786	ENST00000361901	protein_coding	KNOWN	CCDS5834	1441	1617	538	134464429	134655392	1	None	CDM, H-CAD, L-CAD
7	CALD1	ENSG00000122786	ENST00000498254	retained_intron	KNOWN	None	1441	None	None	134464466	134552726	1	None	CDM, H-CAD, L-CAD
7	CALD1	ENSG00000122786	ENST00000489019	processed_transcript	KNOWN	None	1441	None	None	134528635	134584804	1	None	CDM, H-CAD, L-CAD
7	CALD1	ENSG00000122786	ENST00000445569	protein_coding	PUTATIVE	None	1441	396	131	134528635	134617874	1	None	CDM, H-CAD, L-CAD
7	CALD1	ENSG00000122786	ENST00000435928	protein_coding	KNOWN	None	1441	218	71	134551592	134613651	1	None	CDM, H-CAD, L-CAD
7	CALD1	ENSG00000122786	ENST00000443197	nonsense_mediated_decay	KNOWN	None	1441	1611	536	134576209	134655392	1	None	CDM, H-CAD, L-CAD
7	CALD1	ENSG00000122786	ENST00000424922	protein_coding	KNOWN	CCDS47717	1441	1599	532	134576361	134653610	1	None	CDM, H-CAD, L-CAD
7	CALD1	ENSG00000122786	ENST00000495522	protein_coding	NOVEL	None	1441	1674	557	134576361	134653610	1	None	CDM, H-CAD, L-CAD
7	CALD1	ENSG00000122786	ENST00000496024	processed_transcript	KNOWN	None	1441	None	None	134605317	134617993	1	None	CDM, H-CAD, L-CAD
7	CALD1	ENSG00000122786	ENST00000478075	processed_transcript	PUTATIVE	None	1441	None	None	134625892	134629302	1	None	CDM, H-CAD, L-CAD
7	CALD1	ENSG00000122786	ENST00000472096	retained_intron	KNOWN	None	1441	None	None	134625933	134632853	1	None	CDM, H-CAD, L-CAD
7	CALD1	ENSG00000122786	ENST00000466704	processed_transcript	KNOWN	None	1441	None	None	134635126	134653626	1	None	CDM, H-CAD, L-CAD
7	CALD1	ENSG00000122786	ENST00000473714	retained_intron	KNOWN	None	1441	None	None	134645282	134650188	1	None	CDM, H-CAD, L-CAD
7	CALD1	ENSG00000122786	ENST00000480638	retained_intron	KNOWN	None	1441	None	None	134649962	134653474	1	None	CDM, H-CAD, L-CAD
7	CALD1	ENSG00000122786	ENST00000361388	protein_coding	KNOWN	None	1441	1695	564	134464164	134655479	1	None	CDM, H-CAD, L-CAD
7	CALD1	ENSG00000122786	ENST00000393118	protein_coding	KNOWN	CCDS47716	1441	1677	558	134576151	134655479	1	None	CDM, H-CAD, L-CAD
7	CALD1	ENSG00000122786	ENST00000543443	protein_coding	KNOWN	None	1441	1632	543	134605237	134653293	1	None	CDM, H-CAD, L-CAD
2	None	ENSG00000236213	ENST00000419425	antisense	KNOWN	None	None	None	None	37827279	37873841	1	None	None
9	None	ENSG00000228534	ENST00000433614	lincRNA	KNOWN	None	None	None	None	39925026	39926970	-1	None	None
2	None	ENSG00000236572	ENST00000431712	lincRNA	KNOWN	None	None	None	None	37971476	37974189	1	None	None
2	None	ENSG00000225402	ENST00000456500	processed_pseudogene	KNOWN	None	None	None	None	38044058	38045104	1	None	None
9	VN2R4P	ENSG00000234375	ENST00000452634	unitary_pseudogene	KNOWN	None	33210	None	None	40063116	40085739	-1	None	None
17	CNTD1	ENSG00000176563	ENST00000588408	protein_coding	KNOWN	CCDS11440	26847	993	330	40950810	40962653	1	CNTD	FLJ40137
17	CNTD1	ENSG00000176563	ENST00000585355	protein_coding	PUTATIVE	None	26847	529	175	40950818	40958796	1	CNTD	FLJ40137
17	CNTD1	ENSG00000176563	ENST00000592166	nonsense_mediated_decay	KNOWN	None	26847	180	59	40950872	40959826	1	CNTD	FLJ40137
17	CNTD1	ENSG00000176563	ENST00000591559	processed_transcript	KNOWN	None	26847	None	None	40950888	40956414	1	CNTD	FLJ40137
17	CNTD1	ENSG00000176563	ENST00000588527	protein_coding	PUTATIVE	None	26847	744	247	40950905	40961905	1	CNTD	FLJ40137
17	CNTD1	ENSG00000176563	ENST00000315066	processed_transcript	KNOWN	None	26847	None	None	40957422	40963605	1	CNTD	FLJ40137
17	CNTD1	ENSG00000176563	ENST00000586652	protein_coding	PUTATIVE	None	26847	342	113	40957884	40961597	1	CNTD	FLJ40137
2	LINC00211	ENSG00000237803	ENST00000413792	lincRNA	KNOWN	None	37459	None	None	38053390	38056575	-1	NCRNA00211	None
2	LINC00211	ENSG00000237803	ENST00000446799	lincRNA	KNOWN	None	37459	None	None	38054752	38103006	-1	NCRNA00211	None
2	LINC00211	ENSG00000237803	ENST00000418746	lincRNA	KNOWN	None	37459	None	None	38067181	38103417	-1	NCRNA00211	None
19	None	ENSG00000267345	ENST00000590376	antisense	KNOWN	None	None	None	None	37566015	37569507	-1	None	None
19	None	ENSG00000267672	ENST00000588369	sense_intronic	KNOWN	None	None	None	None	37582243	37583466	1	None	None
19	None	ENSG00000267437	ENST00000587645	antisense	KNOWN	None	None	None	None	37619581	37632542	-1	None	None
3	ZNF620	ENSG00000177842	ENST00000420891	protein_coding	KNOWN	None	28742	350	115	40547483	40557435	1	None	MGC50836
3	ZNF620	ENSG00000177842	ENST00000314529	protein_coding	KNOWN	CCDS33740	28742	1269	422	40547530	40560227	1	None	MGC50836
3	ZNF620	ENSG00000177842	ENST00000418905	protein_coding	NOVEL	CCDS58825	28742	927	308	40547531	40559200	1	None	MGC50836
3	ZNF620	ENSG00000177842	ENST00000433723	nonsense_mediated_decay	KNOWN	None	28742	135	44	40547599	40553963	1	None	MGC50836
X	None	ENSG00000270223	ENST00000603952	sense_intronic	KNOWN	None	None	None	None	73229224	73231303	-1	None	None
X	RPSAP14	ENSG00000233984	ENST00000429143	processed_pseudogene	KNOWN	None	6506	None	None	73251297	73251655	1	LAMRL4, LAMR1P14	LAMRP4
2	RMDN2-AS1	ENSG00000235848	ENST00000414365	antisense	KNOWN	None	41150	None	None	38177144	38263484	-1	None	None
2	RMDN2-AS1	ENSG00000235848	ENST00000598798	antisense	KNOWN	None	41150	None	None	38257368	38263433	-1	None	None
2	RMDN2-AS1	ENSG00000235848	ENST00000601029	antisense	KNOWN	None	41150	None	None	38263031	38294184	-1	None	None
X	None	ENSG00000203397	ENST00000366220	processed_pseudogene	KNOWN	None	None	None	None	73285918	73286427	1	None	None
19	None	ENSG00000226686	ENST00000438770	lincRNA	KNOWN	None	None	None	None	37742814	37754664	1	None	None
19	None	ENSG00000226686	ENST00000591116	lincRNA	KNOWN	None	None	None	None	37742824	37756375	1	None	None
19	None	ENSG00000226686	ENST00000592712	lincRNA	KNOWN	None	None	None	None	37742828	37754515	1	None	None
19	None	ENSG00000226686	ENST00000592100	lincRNA	KNOWN	None	None	None	None	37746801	37756433	1	None	None
19	None	ENSG00000226686	ENST00000588904	lincRNA	KNOWN	None	None	None	None	37746818	37756377	1	None	None
19	None	ENSG00000226686	ENST00000587477	lincRNA	KNOWN	None	None	None	None	37747301	37756437	1	None	None
4	FAM86EP	ENSG00000251669	ENST00000313946	processed_transcript	KNOWN	None	28017	None	None	3943487	3957142	-1	None	None
4	FAM86EP	ENSG00000251669	ENST00000511488	processed_transcript	KNOWN	None	28017	None	None	3944494	3957121	-1	None	None
4	FAM86EP	ENSG00000251669	ENST00000507301	processed_transcript	PUTATIVE	None	28017	None	None	3944579	3957090	-1	None	None
4	FAM86EP	ENSG00000251669	ENST00000510565	processed_transcript	PUTATIVE	None	28017	None	None	3944638	3957135	-1	None	None
4	FAM86EP	ENSG00000251669	ENST00000510506	transcribed_unprocessed_pseudogene	KNOWN	None	28017	None	None	3945001	3957146	-1	None	None
4	FAM86EP	ENSG00000251669	ENST00000502255	processed_transcript	PUTATIVE	None	28017	None	None	3949226	3954903	-1	None	None
4	FAM86EP	ENSG00000251669	ENST00000506770	processed_transcript	KNOWN	None	28017	None	None	3949251	3954892	-1	None	None
4	FAM86EP	ENSG00000251669	ENST00000512092	processed_transcript	KNOWN	None	28017	None	None	3949632	3956770	-1	None	None
4	FAM86EP	ENSG00000251669	ENST00000504375	processed_transcript	KNOWN	None	28017	None	None	3949904	3957119	-1	None	None
X	None	ENSG00000234969	ENST00000413508	processed_pseudogene	KNOWN	None	None	None	None	73289111	73290667	1	None	None
7	ZPBP	ENSG00000042813	ENST00000491129	processed_transcript	KNOWN	None	15662	None	None	49890017	50096020	-1	None	SP38, ZPBP1
7	ZPBP	ENSG00000042813	ENST00000465922	processed_transcript	KNOWN	None	15662	None	None	49890074	49975757	-1	None	SP38, ZPBP1
7	ZPBP	ENSG00000042813	ENST00000046087	protein_coding	KNOWN	CCDS5509	15662	1056	351	49977037	50132860	-1	None	SP38, ZPBP1
7	ZPBP	ENSG00000042813	ENST00000419417	protein_coding	NOVEL	CCDS55110	15662	1053	350	49977124	50132832	-1	None	SP38, ZPBP1
7	ZPBP	ENSG00000042813	ENST00000450231	protein_coding	PUTATIVE	None	15662	217	71	50121370	50160925	-1	None	SP38, ZPBP1
7	ZPBP	ENSG00000042813	ENST00000413331	nonsense_mediated_decay	KNOWN	None	15662	228	75	50121456	50132828	-1	None	SP38, ZPBP1
X	UHRF2P1	ENSG00000223650	ENST00000431339	processed_pseudogene	KNOWN	None	39565	None	None	73325407	73327793	1	None	None
17	RABEP1	ENSG00000029725	ENST00000575991	protein_coding	NOVEL	None	17677	329	108	5185560	5212097	1	None	neurocrescin, RAB5EP, RABPT5, rabaptin-5
17	RABEP1	ENSG00000029725	ENST00000546142	protein_coding	KNOWN	CCDS45592	17677	2589	862	5185595	5288057	1	None	neurocrescin, RAB5EP, RABPT5, rabaptin-5
17	RABEP1	ENSG00000029725	ENST00000575475	retained_intron	KNOWN	None	17677	None	None	5185617	5281988	1	None	neurocrescin, RAB5EP, RABPT5, rabaptin-5
17	RABEP1	ENSG00000029725	ENST00000341923	protein_coding	KNOWN	CCDS42243	17677	2490	829	5185782	5286518	1	None	neurocrescin, RAB5EP, RABPT5, rabaptin-5
17	RABEP1	ENSG00000029725	ENST00000570487	processed_transcript	KNOWN	None	17677	None	None	5235350	5239984	1	None	neurocrescin, RAB5EP, RABPT5, rabaptin-5
17	RABEP1	ENSG00000029725	ENST00000574568	protein_coding	NOVEL	None	17677	578	191	5257696	5264924	1	None	neurocrescin, RAB5EP, RABPT5, rabaptin-5
17	RABEP1	ENSG00000029725	ENST00000572250	protein_coding	PUTATIVE	None	17677	460	152	5280506	5285016	1	None	neurocrescin, RAB5EP, RABPT5, rabaptin-5
17	RABEP1	ENSG00000029725	ENST00000262477	protein_coding	KNOWN	CCDS45592	17677	2589	862	5185558	5289129	1	None	neurocrescin, RAB5EP, RABPT5, rabaptin-5
17	RABEP1	ENSG00000029725	ENST00000408982	protein_coding	KNOWN	CCDS42243	17677	2490	829	5185558	5289129	1	None	neurocrescin, RAB5EP, RABPT5, rabaptin-5
17	RABEP1	ENSG00000029725	ENST00000537505	protein_coding	KNOWN	None	17677	2460	819	5185569	5286720	1	None	neurocrescin, RAB5EP, RABPT5, rabaptin-5
X	DDX3YP1	ENSG00000232928	ENST00000418231	processed_pseudogene	KNOWN	None	42171	None	None	73340847	73351758	1	None	None
2	CYP1B1-AS1	ENSG00000232973	ENST00000431999	antisense	KNOWN	None	28543	None	None	38302791	38358759	1	C2orf58	MGC34824
2	CYP1B1-AS1	ENSG00000232973	ENST00000589303	antisense	KNOWN	None	28543	None	None	38303638	38358662	1	C2orf58	MGC34824
2	CYP1B1-AS1	ENSG00000232973	ENST00000427168	antisense	KNOWN	None	28543	None	None	38325722	38358718	1	C2orf58	MGC34824
2	CYP1B1-AS1	ENSG00000232973	ENST00000593090	antisense	KNOWN	None	28543	None	None	38328066	38358732	1	C2orf58	MGC34824
2	CYP1B1-AS1	ENSG00000232973	ENST00000603809	antisense	KNOWN	None	28543	None	None	38340515	38358730	1	C2orf58	MGC34824
2	CYP1B1-AS1	ENSG00000232973	ENST00000606100	antisense	KNOWN	None	28543	None	None	38348316	38358732	1	C2orf58	MGC34824
2	CYP1B1-AS1	ENSG00000232973	ENST00000606849	antisense	KNOWN	None	28543	None	None	38348778	38358732	1	C2orf58	MGC34824
2	CYP1B1-AS1	ENSG00000232973	ENST00000585654	antisense	KNOWN	None	28543	None	None	38349127	38358732	1	C2orf58	MGC34824
2	CYP1B1-AS1	ENSG00000232973	ENST00000413828	antisense	KNOWN	None	28543	None	None	38358247	38408997	1	C2orf58	MGC34824
13	ELF1	ENSG00000120690	ENST00000498824	processed_transcript	KNOWN	None	3316	None	None	41506168	41556378	-1	None	None
13	ELF1	ENSG00000120690	ENST00000239882	protein_coding	KNOWN	CCDS9374	3316	1860	619	41506170	41593450	-1	None	None
13	ELF1	ENSG00000120690	ENST00000405737	protein_coding	KNOWN	None	3316	72	23	41556119	41635576	-1	None	None
13	ELF1	ENSG00000120690	ENST00000442101	protein_coding	KNOWN	CCDS45043	3316	1788	595	41506056	41556418	-1	None	None
14	STXBP6	ENSG00000168952	ENST00000396700	protein_coding	KNOWN	CCDS9634	19666	633	210	25278862	25519270	-1	None	amisyn, HSPC156
14	STXBP6	ENSG00000168952	ENST00000548724	protein_coding	KNOWN	CCDS9634	19666	633	210	25278862	25519270	-1	None	amisyn, HSPC156
14	STXBP6	ENSG00000168952	ENST00000323944	protein_coding	KNOWN	CCDS9634	19666	633	210	25278868	25519503	-1	None	amisyn, HSPC156
14	STXBP6	ENSG00000168952	ENST00000419632	protein_coding	KNOWN	CCDS9634	19666	633	210	25281293	25519095	-1	None	amisyn, HSPC156
14	STXBP6	ENSG00000168952	ENST00000546511	protein_coding	KNOWN	CCDS9634	19666	633	210	25281398	25518206	-1	None	amisyn, HSPC156
14	STXBP6	ENSG00000168952	ENST00000550887	protein_coding	KNOWN	CCDS9634	19666	633	210	25281506	25479846	-1	None	amisyn, HSPC156
14	STXBP6	ENSG00000168952	ENST00000548369	protein_coding	KNOWN	None	19666	327	108	25281698	25288683	-1	None	amisyn, HSPC156
14	STXBP6	ENSG00000168952	ENST00000548182	nonsense_mediated_decay	KNOWN	None	19666	198	65	25284868	25519100	-1	None	amisyn, HSPC156
14	STXBP6	ENSG00000168952	ENST00000358326	protein_coding	KNOWN	None	19666	633	210	25287292	25519104	-1	None	amisyn, HSPC156
2	ACMSD	ENSG00000153086	ENST00000356140	protein_coding	KNOWN	CCDS2173	19288	1011	336	135596117	135659604	1	None	None
2	ACMSD	ENSG00000153086	ENST00000485893	retained_intron	KNOWN	None	19288	None	None	135596186	135631231	1	None	None
2	ACMSD	ENSG00000153086	ENST00000392928	protein_coding	KNOWN	None	19288	837	278	135596188	135659604	1	None	None
2	ACMSD	ENSG00000153086	ENST00000498093	retained_intron	KNOWN	None	19288	None	None	135601993	135617264	1	None	None
2	ACMSD	ENSG00000153086	ENST00000283054	protein_coding	KNOWN	None	19288	837	278	135596186	135659600	1	None	None
12	RERG	ENSG00000134533	ENST00000256953	protein_coding	KNOWN	CCDS8673	15980	600	199	15260717	15374351	-1	None	MGC15754
12	RERG	ENSG00000134533	ENST00000538313	protein_coding	KNOWN	CCDS8673	15980	600	199	15260724	15370563	-1	None	MGC15754
12	RERG	ENSG00000134533	ENST00000536465	protein_coding	KNOWN	CCDS8673	15980	600	199	15260751	15370985	-1	None	MGC15754
12	RERG	ENSG00000134533	ENST00000546331	protein_coding	NOVEL	CCDS53753	15980	543	180	15261541	15374351	-1	None	MGC15754
12	RERG	ENSG00000134533	ENST00000545567	protein_coding	PUTATIVE	None	15980	340	112	15262343	15291097	-1	None	MGC15754
12	RERG	ENSG00000134533	ENST00000537647	protein_coding	PUTATIVE	None	15980	213	70	15263861	15374340	-1	None	MGC15754
12	RERG	ENSG00000134533	ENST00000393736	protein_coding	KNOWN	None	15980	116	37	15273999	15501532	-1	None	MGC15754
12	RERG	ENSG00000134533	ENST00000537717	retained_intron	KNOWN	None	15980	None	None	15370030	15374202	-1	None	MGC15754
12	RERG	ENSG00000134533	ENST00000437578	processed_transcript	PUTATIVE	None	15980	None	None	15499411	15501609	-1	None	MGC15754
X	DDX3YP2	ENSG00000230986	ENST00000446138	processed_pseudogene	KNOWN	None	42172	None	None	73352839	73352949	-1	None	None
22	ZNRF3	ENSG00000183579	ENST00000544604	protein_coding	KNOWN	CCDS56225	18126	2811	936	29279580	29453475	1	None	KIAA1133, BK747E2.3, FLJ22057, RNF203
22	ZNRF3	ENSG00000183579	ENST00000402174	protein_coding	KNOWN	CCDS42999	18126	2511	836	29313377	29449673	1	None	KIAA1133, BK747E2.3, FLJ22057, RNF203
22	ZNRF3	ENSG00000183579	ENST00000406323	protein_coding	KNOWN	CCDS42999	18126	2511	836	29383040	29449953	1	None	KIAA1133, BK747E2.3, FLJ22057, RNF203
22	ZNRF3	ENSG00000183579	ENST00000332811	protein_coding	KNOWN	CCDS42999	18126	2511	836	29279890	29453475	1	None	KIAA1133, BK747E2.3, FLJ22057, RNF203
8	DEFB136	ENSG00000205884	ENST00000382209	protein_coding	KNOWN	CCDS43709	34433	237	78	11831446	11832108	-1	None	DEFB137
10	None	ENSG00000235939	ENST00000423283	antisense	KNOWN	None	None	None	None	50627323	50680949	1	None	None
16	None	ENSG00000261692	ENST00000567166	sense_intronic	KNOWN	None	None	None	None	89486483	89488634	-1	None	None
X	MKRN5P	ENSG00000224430	ENST00000445263	processed_pseudogene	KNOWN	None	7117	None	None	73380897	73382363	-1	ZNF127L2, MKRNP1	ZNF-Xq
20	UBE2C	ENSG00000175063	ENST00000356455	protein_coding	KNOWN	CCDS13370	15937	540	179	44441215	44445596	1	None	UBCH10
20	UBE2C	ENSG00000175063	ENST00000335046	protein_coding	KNOWN	CCDS13371	15937	486	161	44441274	44445596	1	None	UBCH10
20	UBE2C	ENSG00000175063	ENST00000243893	protein_coding	KNOWN	CCDS13373	15937	153	50	44441297	44445596	1	None	UBCH10
20	UBE2C	ENSG00000175063	ENST00000352551	protein_coding	KNOWN	CCDS13372	15937	453	150	44441313	44445596	1	None	UBCH10
20	UBE2C	ENSG00000175063	ENST00000372568	protein_coding	KNOWN	CCDS13374	15937	423	140	44441645	44445596	1	None	UBCH10
20	UBE2C	ENSG00000175063	ENST00000496085	processed_transcript	KNOWN	None	15937	None	None	44443049	44445441	1	None	UBCH10
20	UBE2C	ENSG00000175063	ENST00000405520	protein_coding	KNOWN	CCDS13374	15937	423	140	44441255	44445592	1	None	UBCH10
16	RNU6-430P	ENSG00000252887	ENST00000517078	snRNA	KNOWN	None	47393	None	None	89509726	89509832	1	None	None
1	SEC16B	ENSG00000120341	ENST00000441371	processed_transcript	KNOWN	None	30301	None	None	177893091	177897620	-1	LZTR2	RGPR, PGPR-p117
1	SEC16B	ENSG00000120341	ENST00000495165	processed_transcript	KNOWN	None	30301	None	None	177896701	177905501	-1	LZTR2	RGPR, PGPR-p117
1	SEC16B	ENSG00000120341	ENST00000308284	protein_coding	KNOWN	CCDS44281	30301	3183	1060	177898281	177939050	-1	LZTR2	RGPR, PGPR-p117
1	SEC16B	ENSG00000120341	ENST00000327037	processed_transcript	KNOWN	None	30301	None	None	177898970	177917779	-1	LZTR2	RGPR, PGPR-p117
1	SEC16B	ENSG00000120341	ENST00000526773	retained_intron	KNOWN	None	30301	None	None	177913694	177927554	-1	LZTR2	RGPR, PGPR-p117
1	SEC16B	ENSG00000120341	ENST00000464631	protein_coding	PUTATIVE	None	30301	1878	625	177914467	177939348	-1	LZTR2	RGPR, PGPR-p117
1	SEC16B	ENSG00000120341	ENST00000527976	protein_coding	NOVEL	None	30301	525	174	177915555	177928038	-1	LZTR2	RGPR, PGPR-p117
19	None	ENSG00000267605	ENST00000588763	lincRNA	KNOWN	None	None	None	None	37756841	37762290	-1	None	None
19	None	ENSG00000267605	ENST00000586324	lincRNA	KNOWN	None	None	None	None	37756843	37758095	-1	None	None
19	None	ENSG00000267605	ENST00000590889	lincRNA	KNOWN	None	None	None	None	37756849	37759886	-1	None	None
19	None	ENSG00000267605	ENST00000586442	lincRNA	KNOWN	None	None	None	None	37756972	37762420	-1	None	None
16	None	ENSG00000270832	ENST00000605168	processed_pseudogene	KNOWN	None	None	None	None	89525278	89525845	1	None	None
X	USMG5P1	ENSG00000231549	ENST00000425964	processed_pseudogene	KNOWN	None	31716	None	None	73393725	73393901	1	None	None
16	None	ENSG00000261118	ENST00000565623	antisense	KNOWN	None	None	None	None	89558425	89570868	-1	None	None
16	None	ENSG00000261118	ENST00000565310	antisense	KNOWN	None	None	None	None	89558811	89560201	-1	None	None
5	None	ENSG00000255647	ENST00000546238	pseudogene	KNOWN	None	None	None	None	89705817	89706485	1	None	None
X	BMP2KL	ENSG00000204113	ENST00000414251	processed_pseudogene	KNOWN	None	17080	None	None	73405764	73406988	1	None	None
X	BMP2KL	ENSG00000204113	ENST00000373488	processed_pseudogene	KNOWN	None	17080	None	None	73406775	73406990	1	None	None
6	NRM	ENSG00000137404	ENST00000495946	processed_transcript	KNOWN	None	8003	None	None	30655824	30658130	-1	None	NRM29
6	NRM	ENSG00000137404	ENST00000444096	protein_coding	KNOWN	None	8003	787	261	30655824	30658500	-1	None	NRM29
6	NRM	ENSG00000137404	ENST00000482141	processed_transcript	KNOWN	None	8003	None	None	30655824	30658744	-1	None	NRM29
6	NRM	ENSG00000137404	ENST00000474864	processed_transcript	KNOWN	None	8003	None	None	30655824	30658751	-1	None	NRM29
6	NRM	ENSG00000137404	ENST00000376420	protein_coding	KNOWN	CCDS59498	8003	612	203	30655824	30658753	-1	None	NRM29
6	NRM	ENSG00000137404	ENST00000462857	processed_transcript	KNOWN	None	8003	None	None	30655824	30658763	-1	None	NRM29
6	NRM	ENSG00000137404	ENST00000470733	processed_transcript	KNOWN	None	8003	None	None	30655824	30658779	-1	None	NRM29
6	NRM	ENSG00000137404	ENST00000259953	protein_coding	KNOWN	CCDS4686	8003	789	262	30655824	30659197	-1	None	NRM29
6	NRM	ENSG00000137404	ENST00000376421	protein_coding	KNOWN	CCDS4686	8003	789	262	30655829	30658769	-1	None	NRM29
5	None	ENSG00000249514	ENST00000503717	processed_pseudogene	KNOWN	None	None	None	None	90326807	90327124	-1	None	None
6	None	ENSG00000236700	ENST00000431422	lincRNA	KNOWN	None	None	None	None	134758854	134825719	1	None	None
6	None	ENSG00000236700	ENST00000440090	lincRNA	KNOWN	None	None	None	None	134786115	134825157	1	None	None
6	None	ENSG00000236700	ENST00000456749	lincRNA	KNOWN	None	None	None	None	134797768	134825157	1	None	None
16	RNU7-117P	ENSG00000252579	ENST00000516770	snRNA	KNOWN	None	45651	None	None	89599924	89599962	-1	None	None
20	SIRPB2	ENSG00000196209	ENST00000481731	nonsense_mediated_decay	KNOWN	None	16247	870	289	1451386	1472164	-1	PTPN1L, PTPNS1L3	dJ776F14.2
20	SIRPB2	ENSG00000196209	ENST00000486775	nonsense_mediated_decay	KNOWN	None	16247	870	289	1453313	1472233	-1	PTPN1L, PTPNS1L3	dJ776F14.2
20	SIRPB2	ENSG00000196209	ENST00000359801	protein_coding	KNOWN	CCDS42849	16247	1029	342	1455236	1472042	-1	PTPN1L, PTPNS1L3	dJ776F14.2
20	SIRPB2	ENSG00000196209	ENST00000381630	protein_coding	KNOWN	None	16247	624	207	1457450	1472029	-1	PTPN1L, PTPNS1L3	dJ776F14.2
20	SIRPB2	ENSG00000196209	ENST00000444444	protein_coding	KNOWN	CCDS46570	16247	735	244	1455236	1472233	-1	PTPN1L, PTPNS1L3	dJ776F14.2
20	SIRPB2	ENSG00000196209	ENST00000537284	protein_coding	KNOWN	None	16247	633	210	1457285	1472059	-1	PTPN1L, PTPNS1L3	dJ776F14.2
2	None	ENSG00000229160	ENST00000417213	lincRNA	KNOWN	None	None	None	None	38359779	38366088	-1	None	None
16	SNORD68	ENSG00000200084	ENST00000363214	snoRNA	KNOWN	None	32729	None	None	89627842	89627925	1	None	HBII-202
5	None	ENSG00000212930	ENST00000514239	lincRNA	KNOWN	None	None	None	None	90519236	90519784	1	None	None
4	SLC10A4	ENSG00000145248	ENST00000273861	protein_coding	KNOWN	CCDS3482	22980	1314	437	48485360	48491213	1	None	MGC29802
2	RNU6-951P	ENSG00000199603	ENST00000362733	snRNA	KNOWN	None	47914	None	None	38374557	38374663	1	None	None
5	None	ENSG00000251093	ENST00000510153	lincRNA	KNOWN	None	None	None	None	90522292	90522888	-1	None	None
3	PIK3CB	ENSG00000051382	ENST00000477593	protein_coding	KNOWN	CCDS3104	8976	3213	1070	138372860	138553594	-1	PIK3C1	None
3	PIK3CB	ENSG00000051382	ENST00000469284	nonsense_mediated_decay	KNOWN	None	8976	105	34	138372862	138431146	-1	PIK3C1	None
3	PIK3CB	ENSG00000051382	ENST00000462898	nonsense_mediated_decay	KNOWN	None	8976	405	134	138372910	138553759	-1	PIK3C1	None
3	PIK3CB	ENSG00000051382	ENST00000481749	retained_intron	KNOWN	None	8976	None	None	138373930	138426463	-1	PIK3C1	None
3	PIK3CB	ENSG00000051382	ENST00000493568	protein_coding	NOVEL	None	8976	2108	701	138373992	138433557	-1	PIK3C1	None
3	PIK3CB	ENSG00000051382	ENST00000487552	retained_intron	KNOWN	None	8976	None	None	138376125	138382775	-1	PIK3C1	None
3	PIK3CB	ENSG00000051382	ENST00000473435	nonsense_mediated_decay	KNOWN	None	8976	738	245	138400826	138431095	-1	PIK3C1	None
3	PIK3CB	ENSG00000051382	ENST00000485060	retained_intron	KNOWN	None	8976	None	None	138402520	138403968	-1	PIK3C1	None
3	PIK3CB	ENSG00000051382	ENST00000462294	protein_coding	NOVEL	None	8976	542	179	138433502	138461623	-1	PIK3C1	None
3	PIK3CB	ENSG00000051382	ENST00000483968	protein_coding	KNOWN	None	8976	394	130	138474599	138553675	-1	PIK3C1	None
3	PIK3CB	ENSG00000051382	ENST00000461451	protein_coding	KNOWN	None	8976	302	99	138474691	138553780	-1	PIK3C1	None
3	PIK3CB	ENSG00000051382	ENST00000465581	protein_coding	KNOWN	None	8976	169	55	138478017	138489397	-1	PIK3C1	None
3	PIK3CB	ENSG00000051382	ENST00000289153	protein_coding	KNOWN	CCDS3104	8976	3213	1070	138374231	138478185	-1	PIK3C1	None
3	PIK3CB	ENSG00000051382	ENST00000544716	protein_coding	KNOWN	None	8976	1566	521	138372864	138433328	-1	PIK3C1	None
16	VPS9D1-AS1	ENSG00000261373	ENST00000562866	antisense	KNOWN	None	48915	None	None	89778264	89784573	1	None	None
16	VPS9D1-AS1	ENSG00000261373	ENST00000562298	antisense	KNOWN	None	48915	None	None	89782936	89784572	1	None	None
2	None	ENSG00000227292	ENST00000450854	lincRNA	KNOWN	None	None	None	None	38430505	38466732	-1	None	None
HSCHR6_MHC_DBB	OR11A1	ENSG00000234347	ENST00000418485	protein_coding	KNOWN	None	8176	948	315	29393220	29396182	-1	OR11A2	hs6M1-18
HSCHR6_MHC_DBB	OR11A1	ENSG00000234347	ENST00000419773	protein_coding	KNOWN	None	8176	948	315	29393220	29424782	-1	OR11A2	hs6M1-18
HSCHR6_MHC_DBB	OR11A1	ENSG00000234347	ENST00000551986	protein_coding	KNOWN	None	8176	948	315	29393220	29395448	-1	OR11A2	hs6M1-18
20	CABLES2	ENSG00000149679	ENST00000279101	protein_coding	KNOWN	CCDS33503	16143	1437	478	60963688	60982341	-1	C20orf150	dJ908M14.2, ik3-2
20	CABLES2	ENSG00000149679	ENST00000453274	protein_coding	KNOWN	None	16143	775	257	60966070	60971387	-1	C20orf150	dJ908M14.2, ik3-2
2	None	ENSG00000227770	ENST00000446719	processed_pseudogene	KNOWN	None	None	None	None	38458710	38459459	1	None	None
10	PRLHR	ENSG00000119973	ENST00000369169	protein_coding	KNOWN	CCDS7606	4464	1113	370	120352961	120354756	-1	GPR10	None
10	PRLHR	ENSG00000119973	ENST00000239032	protein_coding	KNOWN	CCDS7606	4464	1113	370	120352916	120355160	-1	GPR10	None
2	GAPDHP25	ENSG00000213594	ENST00000447061	processed_pseudogene	KNOWN	None	37777	None	None	38512552	38513552	1	None	None
6	ZBTB12	ENSG00000204366	ENST00000375527	protein_coding	KNOWN	CCDS4727	19066	1380	459	31867384	31869769	-1	C6orf46	G10, NG35, D6S59E
6	None	ENSG00000232310	ENST00000607531	lincRNA	KNOWN	None	None	None	None	134846452	134855807	-1	None	None
6	None	ENSG00000232310	ENST00000423028	lincRNA	KNOWN	None	None	None	None	134846463	134852144	-1	None	None
6	None	ENSG00000232310	ENST00000418837	lincRNA	KNOWN	None	None	None	None	134846463	134861482	-1	None	None
6	None	ENSG00000232310	ENST00000434593	lincRNA	KNOWN	None	None	None	None	134846463	134980974	-1	None	None
6	None	ENSG00000232310	ENST00000606039	lincRNA	KNOWN	None	None	None	None	134846655	134861130	-1	None	None
4	ZAR1	ENSG00000182223	ENST00000327939	protein_coding	KNOWN	CCDS3483	20436	1275	424	48492269	48496406	1	None	None
19	ZNF93	ENSG00000184635	ENST00000592613	processed_transcript	KNOWN	None	13169	None	None	20011722	20020329	1	ZNF505	HPF34, TF34, FLJ12488
19	ZNF93	ENSG00000184635	ENST00000591366	protein_coding	PUTATIVE	None	13169	360	119	20011737	20038122	1	ZNF505	HPF34, TF34, FLJ12488
19	ZNF93	ENSG00000184635	ENST00000586021	nonsense_mediated_decay	KNOWN	None	13169	255	84	20011755	20044083	1	ZNF505	HPF34, TF34, FLJ12488
19	ZNF93	ENSG00000184635	ENST00000588146	protein_coding	PUTATIVE	None	13169	362	119	20011755	20044318	1	ZNF505	HPF34, TF34, FLJ12488
19	ZNF93	ENSG00000184635	ENST00000592160	protein_coding	PUTATIVE	None	13169	372	123	20011780	20043806	1	ZNF505	HPF34, TF34, FLJ12488
19	ZNF93	ENSG00000184635	ENST00000589903	processed_transcript	KNOWN	None	13169	None	None	20011792	20038081	1	ZNF505	HPF34, TF34, FLJ12488
19	ZNF93	ENSG00000184635	ENST00000343769	protein_coding	KNOWN	CCDS32973	13169	1863	620	20011870	20046384	1	ZNF505	HPF34, TF34, FLJ12488
19	MIR5589	ENSG00000266204	ENST00000579442	miRNA	KNOWN	None	43514	None	None	10149030	10149089	1	None	hsa-mir-5589
16	SH2B1	ENSG00000178188	ENST00000563591	protein_coding	KNOWN	None	30417	190	62	28857921	28877605	1	None	FLJ30542, SH2B
16	SH2B1	ENSG00000178188	ENST00000567536	protein_coding	PUTATIVE	None	30417	54	17	28857964	28880610	1	None	FLJ30542, SH2B
16	SH2B1	ENSG00000178188	ENST00000322610	protein_coding	KNOWN	CCDS53996	30417	2271	756	28858010	28885526	1	None	FLJ30542, SH2B
16	SH2B1	ENSG00000178188	ENST00000337120	protein_coding	KNOWN	CCDS32424	30417	2016	671	28874125	28885522	1	None	FLJ30542, SH2B
16	SH2B1	ENSG00000178188	ENST00000566209	protein_coding	KNOWN	None	30417	170	55	28874351	28877585	1	None	FLJ30542, SH2B
16	SH2B1	ENSG00000178188	ENST00000545570	protein_coding	PUTATIVE	None	30417	1122	373	28874880	28884948	1	None	FLJ30542, SH2B
16	SH2B1	ENSG00000178188	ENST00000359285	protein_coding	KNOWN	CCDS53997	30417	2052	683	28875126	28885526	1	None	FLJ30542, SH2B
16	SH2B1	ENSG00000178188	ENST00000538342	protein_coding	PUTATIVE	None	30417	1008	335	28875127	28885144	1	None	FLJ30542, SH2B
16	SH2B1	ENSG00000178188	ENST00000563674	processed_transcript	KNOWN	None	30417	None	None	28875199	28885076	1	None	FLJ30542, SH2B
16	SH2B1	ENSG00000178188	ENST00000395532	protein_coding	KNOWN	CCDS32424	30417	2016	671	28875296	28884928	1	None	FLJ30542, SH2B
16	SH2B1	ENSG00000178188	ENST00000566176	protein_coding	NOVEL	None	30417	546	181	28877956	28883276	1	None	FLJ30542, SH2B
16	SH2B1	ENSG00000178188	ENST00000561629	protein_coding	PUTATIVE	None	30417	367	121	28878475	28883235	1	None	FLJ30542, SH2B
16	SH2B1	ENSG00000178188	ENST00000569471	retained_intron	KNOWN	None	30417	None	None	28880415	28883711	1	None	FLJ30542, SH2B
16	SH2B1	ENSG00000178188	ENST00000569651	protein_coding	PUTATIVE	None	30417	602	199	28883574	28885214	1	None	FLJ30542, SH2B
16	SH2B1	ENSG00000178188	ENST00000568868	protein_coding	PUTATIVE	None	30417	342	113	28883661	28884134	1	None	FLJ30542, SH2B
19	None	ENSG00000267387	ENST00000589622	antisense	KNOWN	None	None	None	None	10199708	10201053	-1	None	None
19	ZNF234	ENSG00000263002	ENST00000592437	protein_coding	KNOWN	CCDS46101	13027	2103	700	44645710	44662272	1	ZNF269	HZF4
19	ZNF234	ENSG00000263002	ENST00000426739	protein_coding	KNOWN	CCDS46101	13027	2103	700	44645759	44663156	1	ZNF269	HZF4
19	ZNF234	ENSG00000263002	ENST00000590795	nonsense_mediated_decay	KNOWN	None	13027	162	53	44645795	44654658	1	ZNF269	HZF4
19	ZNF234	ENSG00000263002	ENST00000590748	processed_transcript	KNOWN	None	13027	None	None	44646063	44652964	1	ZNF269	HZF4
2	None	ENSG00000231367	ENST00000438085	lincRNA	KNOWN	None	None	None	None	38633861	38645069	-1	None	None
2	None	ENSG00000231367	ENST00000417039	lincRNA	KNOWN	None	None	None	None	38633870	38742882	-1	None	None
2	None	ENSG00000231367	ENST00000437979	lincRNA	KNOWN	None	None	None	None	38685779	38690256	-1	None	None
2	None	ENSG00000231367	ENST00000421463	lincRNA	KNOWN	None	None	None	None	38685785	38710235	-1	None	None
2	None	ENSG00000231367	ENST00000413227	lincRNA	KNOWN	None	None	None	None	38685788	38696583	-1	None	None
19	SNORD105	ENSG00000209645	ENST00000386910	snoRNA	KNOWN	None	32769	None	None	10218327	10218411	1	None	U105
15	SLC12A6	ENSG00000140199	ENST00000397707	protein_coding	KNOWN	CCDS42010	10914	3408	1135	34525460	34629045	-1	KCC3, ACCPN	None
15	SLC12A6	ENSG00000140199	ENST00000560611	protein_coding	NOVEL	CCDS58352	10914	3453	1150	34525460	34629045	-1	KCC3, ACCPN	None
15	SLC12A6	ENSG00000140199	ENST00000354181	protein_coding	NOVEL	CCDS58352	10914	3453	1150	34525460	34629953	-1	KCC3, ACCPN	None
15	SLC12A6	ENSG00000140199	ENST00000559523	nonsense_mediated_decay	KNOWN	None	10914	2829	942	34525460	34629961	-1	KCC3, ACCPN	None
15	SLC12A6	ENSG00000140199	ENST00000458406	protein_coding	KNOWN	CCDS42012	10914	3276	1091	34525460	34629961	-1	KCC3, ACCPN	None
15	SLC12A6	ENSG00000140199	ENST00000559664	nonsense_mediated_decay	KNOWN	None	10914	2721	906	34525460	34629987	-1	KCC3, ACCPN	None
15	SLC12A6	ENSG00000140199	ENST00000397702	protein_coding	KNOWN	CCDS42012	10914	3276	1091	34525460	34630261	-1	KCC3, ACCPN	None
15	SLC12A6	ENSG00000140199	ENST00000560164	protein_coding	PUTATIVE	None	10914	2889	962	34525463	34591859	-1	KCC3, ACCPN	None
15	SLC12A6	ENSG00000140199	ENST00000561080	nonsense_mediated_decay	KNOWN	None	10914	2721	906	34525464	34630258	-1	KCC3, ACCPN	None
15	SLC12A6	ENSG00000140199	ENST00000290209	protein_coding	KNOWN	CCDS10036	10914	3300	1099	34525666	34610980	-1	KCC3, ACCPN	None
15	SLC12A6	ENSG00000140199	ENST00000558667	protein_coding	NOVEL	CCDS58352	10914	3453	1150	34525913	34630258	-1	KCC3, ACCPN	None
15	SLC12A6	ENSG00000140199	ENST00000558589	protein_coding	KNOWN	CCDS42011	10914	3426	1141	34526082	34629958	-1	KCC3, ACCPN	None
15	SLC12A6	ENSG00000140199	ENST00000559076	retained_intron	KNOWN	None	10914	None	None	34529285	34530597	-1	KCC3, ACCPN	None
15	SLC12A6	ENSG00000140199	ENST00000559441	retained_intron	KNOWN	None	10914	None	None	34529682	34530911	-1	KCC3, ACCPN	None
15	SLC12A6	ENSG00000140199	ENST00000558950	retained_intron	KNOWN	None	10914	None	None	34530433	34533245	-1	KCC3, ACCPN	None
15	SLC12A6	ENSG00000140199	ENST00000560023	retained_intron	KNOWN	None	10914	None	None	34533264	34537541	-1	KCC3, ACCPN	None
15	SLC12A6	ENSG00000140199	ENST00000560332	protein_coding	PUTATIVE	None	10914	321	106	34548437	34591837	-1	KCC3, ACCPN	None
15	SLC12A6	ENSG00000140199	ENST00000561120	protein_coding	KNOWN	None	10914	456	151	34551074	34630258	-1	KCC3, ACCPN	None
15	SLC12A6	ENSG00000140199	ENST00000559236	protein_coding	NOVEL	None	10914	407	134	34553131	34630258	-1	KCC3, ACCPN	None
15	SLC12A6	ENSG00000140199	ENST00000559484	protein_coding	KNOWN	None	10914	182	59	34553179	34629943	-1	KCC3, ACCPN	None
15	SLC12A6	ENSG00000140199	ENST00000451844	protein_coding	KNOWN	None	10914	2889	962	34525463	34567596	-1	KCC3, ACCPN	None
7	EPHA1	ENSG00000146904	ENST00000458129	processed_transcript	PUTATIVE	None	3385	None	None	143087382	143088484	-1	EPHT, EPHT1	EPH
7	EPHA1	ENSG00000146904	ENST00000275815	protein_coding	KNOWN	CCDS5884	3385	2931	976	143088205	143105985	-1	EPHT, EPHT1	EPH
7	EPHA1	ENSG00000146904	ENST00000488068	retained_intron	KNOWN	None	3385	None	None	143088504	143105898	-1	EPHT, EPHT1	EPH
7	EPHA1	ENSG00000146904	ENST00000465208	retained_intron	KNOWN	None	3385	None	None	143091303	143092694	-1	EPHT, EPHT1	EPH
7	EPHA1	ENSG00000146904	ENST00000494989	retained_intron	KNOWN	None	3385	None	None	143091900	143093774	-1	EPHT, EPHT1	EPH
7	EPHA1	ENSG00000146904	ENST00000479459	retained_intron	KNOWN	None	3385	None	None	143094574	143095805	-1	EPHT, EPHT1	EPH
7	EPHA1	ENSG00000146904	ENST00000497891	retained_intron	KNOWN	None	3385	None	None	143097919	143104743	-1	EPHT, EPHT1	EPH
3	PLS1	ENSG00000120756	ENST00000457734	protein_coding	KNOWN	CCDS3125	9090	1890	629	142315229	142432506	1	None	I-plastin, Plastin-1
3	PLS1	ENSG00000120756	ENST00000483373	protein_coding	KNOWN	None	9090	100	32	142315258	142388261	1	None	I-plastin, Plastin-1
3	PLS1	ENSG00000120756	ENST00000475296	protein_coding	KNOWN	None	9090	359	118	142315260	142389959	1	None	I-plastin, Plastin-1
3	PLS1	ENSG00000120756	ENST00000495744	protein_coding	KNOWN	None	9090	175	57	142315274	142388336	1	None	I-plastin, Plastin-1
3	PLS1	ENSG00000120756	ENST00000476044	protein_coding	PUTATIVE	None	9090	799	265	142315280	142408514	1	None	I-plastin, Plastin-1
3	PLS1	ENSG00000120756	ENST00000461644	protein_coding	KNOWN	None	9090	163	53	142315282	142388324	1	None	I-plastin, Plastin-1
3	PLS1	ENSG00000120756	ENST00000464320	protein_coding	KNOWN	None	9090	361	119	142315297	142389961	1	None	I-plastin, Plastin-1
3	PLS1	ENSG00000120756	ENST00000337777	protein_coding	KNOWN	CCDS3125	9090	1890	629	142342228	142432501	1	None	I-plastin, Plastin-1
3	PLS1	ENSG00000120756	ENST00000497199	protein_coding	KNOWN	None	9090	158	51	142342249	142388319	1	None	I-plastin, Plastin-1
3	PLS1	ENSG00000120756	ENST00000497002	protein_coding	KNOWN	CCDS3125	9090	1890	629	142375739	142430897	1	None	I-plastin, Plastin-1
3	PLS1	ENSG00000120756	ENST00000460104	retained_intron	KNOWN	None	9090	None	None	142382964	142389887	1	None	I-plastin, Plastin-1
3	PLS1	ENSG00000120756	ENST00000483507	retained_intron	KNOWN	None	9090	None	None	142408472	142417280	1	None	I-plastin, Plastin-1
6	TRAF3IP2	ENSG00000056972	ENST00000368761	protein_coding	KNOWN	CCDS5093	1343	1698	565	111877657	111927449	-1	C6orf4, C6orf5, C6orf6, C6orf2	DKFZP586G0522, ACT1, CIKS
6	TRAF3IP2	ENSG00000056972	ENST00000359831	protein_coding	KNOWN	CCDS55050	1343	1695	564	111880143	111927074	-1	C6orf4, C6orf5, C6orf6, C6orf2	DKFZP586G0522, ACT1, CIKS
6	TRAF3IP2	ENSG00000056972	ENST00000340026	protein_coding	KNOWN	None	1343	1725	574	111880143	111927481	-1	C6orf4, C6orf5, C6orf6, C6orf2	DKFZP586G0522, ACT1, CIKS
6	TRAF3IP2	ENSG00000056972	ENST00000492671	processed_transcript	KNOWN	None	1343	None	None	111880148	111887703	-1	C6orf4, C6orf5, C6orf6, C6orf2	DKFZP586G0522, ACT1, CIKS
6	TRAF3IP2	ENSG00000056972	ENST00000368731	processed_transcript	KNOWN	None	1343	None	None	111880164	111895189	-1	C6orf4, C6orf5, C6orf6, C6orf2	DKFZP586G0522, ACT1, CIKS
6	TRAF3IP2	ENSG00000056972	ENST00000368735	protein_coding	PUTATIVE	CCDS55049	1343	330	109	111880189	111888563	-1	C6orf4, C6orf5, C6orf6, C6orf2	DKFZP586G0522, ACT1, CIKS
6	TRAF3IP2	ENSG00000056972	ENST00000368734	processed_transcript	KNOWN	None	1343	None	None	111880222	111888324	-1	C6orf4, C6orf5, C6orf6, C6orf2	DKFZP586G0522, ACT1, CIKS
6	TRAF3IP2	ENSG00000056972	ENST00000368730	processed_transcript	KNOWN	None	1343	None	None	111880440	111888482	-1	C6orf4, C6orf5, C6orf6, C6orf2	DKFZP586G0522, ACT1, CIKS
6	TRAF3IP2	ENSG00000056972	ENST00000464903	processed_transcript	KNOWN	None	1343	None	None	111884228	111888479	-1	C6orf4, C6orf5, C6orf6, C6orf2	DKFZP586G0522, ACT1, CIKS
6	TRAF3IP2	ENSG00000056972	ENST00000532708	retained_intron	KNOWN	None	1343	None	None	111888456	111927073	-1	C6orf4, C6orf5, C6orf6, C6orf2	DKFZP586G0522, ACT1, CIKS
6	TRAF3IP2	ENSG00000056972	ENST00000528599	retained_intron	KNOWN	None	1343	None	None	111893920	111927165	-1	C6orf4, C6orf5, C6orf6, C6orf2	DKFZP586G0522, ACT1, CIKS
6	TRAF3IP2	ENSG00000056972	ENST00000392556	protein_coding	KNOWN	None	1343	462	153	111880143	111927474	-1	C6orf4, C6orf5, C6orf6, C6orf2	DKFZP586G0522, ACT1, CIKS
9	None	ENSG00000185020	ENST00000451450	unprocessed_pseudogene	KNOWN	None	None	None	None	40293025	40337495	1	None	None
9	None	ENSG00000185020	ENST00000333554	unprocessed_pseudogene	KNOWN	None	None	None	None	40307346	40339528	1	None	None
11	MRPL21	ENSG00000197345	ENST00000450904	protein_coding	KNOWN	CCDS44662	14479	363	120	68658744	68671254	-1	None	None
11	MRPL21	ENSG00000197345	ENST00000362034	protein_coding	KNOWN	CCDS8186	14479	618	205	68658744	68671288	-1	None	None
11	MRPL21	ENSG00000197345	ENST00000565125	nonsense_mediated_decay	KNOWN	None	14479	150	49	68658747	68671303	-1	None	None
11	MRPL21	ENSG00000197345	ENST00000541279	nonsense_mediated_decay	KNOWN	None	14479	453	150	68658751	68671295	-1	None	None
11	MRPL21	ENSG00000197345	ENST00000567045	protein_coding	NOVEL	None	14479	588	195	68659960	68671246	-1	None	None
11	MRPL21	ENSG00000197345	ENST00000544567	nonsense_mediated_decay	KNOWN	None	14479	111	36	68660363	68671282	-1	None	None
11	MRPL21	ENSG00000197345	ENST00000541265	nonsense_mediated_decay	KNOWN	None	14479	150	49	68660437	68671300	-1	None	None
11	MRPL21	ENSG00000197345	ENST00000536637	retained_intron	KNOWN	None	14479	None	None	68665062	68671270	-1	None	None
2	None	ENSG00000235009	ENST00000457385	lincRNA	KNOWN	None	None	None	None	38658436	38660715	1	None	None
11	RAD9A	ENSG00000172613	ENST00000543808	processed_transcript	KNOWN	None	9827	None	None	67159176	67163493	1	RAD9	None
11	RAD9A	ENSG00000172613	ENST00000307980	protein_coding	KNOWN	CCDS8159	9827	1176	391	67159423	67165880	1	RAD9	None
11	RAD9A	ENSG00000172613	ENST00000544620	protein_coding	PUTATIVE	None	9827	742	246	67159429	67163783	1	RAD9	None
11	RAD9A	ENSG00000172613	ENST00000538013	nonsense_mediated_decay	KNOWN	None	9827	150	49	67159429	67164895	1	RAD9	None
11	RAD9A	ENSG00000172613	ENST00000542139	nonsense_mediated_decay	KNOWN	None	9827	357	118	67159447	67163278	1	RAD9	None
11	RAD9A	ENSG00000172613	ENST00000541132	retained_intron	KNOWN	None	9827	None	None	67159454	67161254	1	RAD9	None
11	RAD9A	ENSG00000172613	ENST00000530934	retained_intron	KNOWN	None	9827	None	None	67160353	67163786	1	RAD9	None
11	RAD9A	ENSG00000172613	ENST00000529100	processed_transcript	KNOWN	None	9827	None	None	67160776	67164861	1	RAD9	None
11	RAD9A	ENSG00000172613	ENST00000535644	processed_transcript	KNOWN	None	9827	None	None	67163141	67165881	1	RAD9	None
3	SLITRK3	ENSG00000121871	ENST00000475390	protein_coding	KNOWN	CCDS3197	23501	2934	977	164904508	164913790	-1	None	KIAA0848
3	SLITRK3	ENSG00000121871	ENST00000241274	protein_coding	KNOWN	CCDS3197	23501	2934	977	164904510	164914640	-1	None	KIAA0848
3	SLITRK3	ENSG00000121871	ENST00000497724	protein_coding	KNOWN	None	23501	488	161	164908131	164914897	-1	None	KIAA0848
10	CACUL1	ENSG00000151893	ENST00000544392	processed_transcript	KNOWN	None	23727	None	None	120433679	120485897	-1	C10orf46	FLJ40409, MGC33215, CAC1
10	CACUL1	ENSG00000151893	ENST00000369151	protein_coding	KNOWN	CCDS41570	23727	1110	369	120440501	120514758	-1	C10orf46	FLJ40409, MGC33215, CAC1
10	CACUL1	ENSG00000151893	ENST00000493518	nonsense_mediated_decay	KNOWN	None	23727	912	303	120444068	120514761	-1	C10orf46	FLJ40409, MGC33215, CAC1
10	CACUL1	ENSG00000151893	ENST00000490610	retained_intron	KNOWN	None	23727	None	None	120445471	120446293	-1	C10orf46	FLJ40409, MGC33215, CAC1
10	CACUL1	ENSG00000151893	ENST00000489169	retained_intron	KNOWN	None	23727	None	None	120445509	120451077	-1	C10orf46	FLJ40409, MGC33215, CAC1
10	CACUL1	ENSG00000151893	ENST00000481360	retained_intron	KNOWN	None	23727	None	None	120454433	120467025	-1	C10orf46	FLJ40409, MGC33215, CAC1
10	CACUL1	ENSG00000151893	ENST00000477583	retained_intron	KNOWN	None	23727	None	None	120488687	120513989	-1	C10orf46	FLJ40409, MGC33215, CAC1
10	CACUL1	ENSG00000151893	ENST00000340214	protein_coding	KNOWN	None	23727	912	303	120453236	120514758	-1	C10orf46	FLJ40409, MGC33215, CAC1
10	None	ENSG00000234306	ENST00000455871	lincRNA	KNOWN	None	None	None	None	10407143	10408450	-1	None	None
11	MMP1	ENSG00000196611	ENST00000315274	protein_coding	KNOWN	CCDS8322	7155	1410	469	102660651	102668891	-1	CLG	None
2	RPLP0P6	ENSG00000213553	ENST00000394878	processed_pseudogene	KNOWN	None	36404	None	None	38708993	38709946	1	None	None
2	RPLP0P6	ENSG00000213553	ENST00000413306	pseudogene	KNOWN	None	36404	None	None	38708920	38710012	1	None	None
1	NBPF4	ENSG00000196427	ENST00000487594	nonsense_mediated_decay	KNOWN	None	26550	372	123	108765087	108786673	-1	None	FLJ32833
1	NBPF4	ENSG00000196427	ENST00000415641	protein_coding	KNOWN	CCDS44182	26550	1917	638	108765963	108786689	-1	None	FLJ32833
10	None	ENSG00000270111	ENST00000602311	lincRNA	KNOWN	None	None	None	None	10461501	10504312	-1	None	None
10	None	ENSG00000271237	ENST00000605814	processed_pseudogene	KNOWN	None	None	None	None	50759354	50760698	1	None	None
18	None	ENSG00000266997	ENST00000590532	nonsense_mediated_decay	KNOWN	None	None	516	171	47322163	47363993	-1	None	None
6	HSP90AB1	ENSG00000096384	ENST00000371646	protein_coding	KNOWN	CCDS4909	5258	2175	724	44214824	44221620	1	HSPC2, HSPCB	None
6	HSP90AB1	ENSG00000096384	ENST00000353801	protein_coding	KNOWN	CCDS4909	5258	2175	724	44214824	44221620	1	HSPC2, HSPCB	None
6	HSP90AB1	ENSG00000096384	ENST00000371554	protein_coding	KNOWN	CCDS4909	5258	2175	724	44215603	44221620	1	HSPC2, HSPCB	None
2	None	ENSG00000271443	ENST00000603297	transcribed_processed_pseudogene	KNOWN	None	None	None	None	38762400	38762837	-1	None	None
2	None	ENSG00000271443	ENST00000605062	processed_transcript	KNOWN	None	None	None	None	38762710	38763391	-1	None	None
10	None	ENSG00000226389	ENST00000420752	processed_pseudogene	KNOWN	None	None	None	None	50979887	50981345	1	None	None
10	None	ENSG00000226389	ENST00000545486	processed_pseudogene	KNOWN	None	None	None	None	50980317	50980586	1	None	None
Y	RBMY1F	ENSG00000169800	ENST00000303766	protein_coding	KNOWN	CCDS35483	23974	1491	496	24314689	24329095	-1	None	MGC33094
Y	RBMY1F	ENSG00000169800	ENST00000481858	processed_transcript	KNOWN	None	23974	None	None	24314689	24329104	-1	None	MGC33094
Y	RBMY1F	ENSG00000169800	ENST00000454978	protein_coding	KNOWN	None	23974	1380	459	24314689	24329129	-1	None	MGC33094
19	SNORD105B	ENSG00000238531	ENST00000458770	snoRNA	KNOWN	None	33572	None	None	10220433	10220511	1	None	None
8	DEFB135	ENSG00000205883	ENST00000382208	protein_coding	KNOWN	CCDS43710	32400	234	77	11839830	11842099	1	None	None
2	None	ENSG00000235586	ENST00000457097	antisense	KNOWN	None	None	None	None	38828740	38829320	1	None	None
6	CRISP2	ENSG00000124490	ENST00000339139	protein_coding	KNOWN	CCDS4928	12024	732	243	49660073	49681274	-1	GAPDL5, TPX1	CRISP-2, CT36
13	WBP4	ENSG00000120688	ENST00000379487	protein_coding	KNOWN	CCDS9375	12739	1131	376	41635410	41658137	1	None	FBP21, MGC117310
13	WBP4	ENSG00000120688	ENST00000542082	protein_coding	KNOWN	None	12739	1068	355	41635696	41657332	1	None	FBP21, MGC117310
10	ASAH2	ENSG00000188611	ENST00000395526	protein_coding	KNOWN	CCDS7239	18860	2343	780	51944621	52008370	-1	None	None
10	ASAH2	ENSG00000188611	ENST00000489640	processed_transcript	KNOWN	None	18860	None	None	51946971	51958906	-1	None	None
10	ASAH2	ENSG00000188611	ENST00000329428	protein_coding	KNOWN	None	18860	2181	726	51947072	52008313	-1	None	None
10	ASAH2	ENSG00000188611	ENST00000474434	processed_transcript	KNOWN	None	18860	None	None	51947171	51958907	-1	None	None
10	ASAH2	ENSG00000188611	ENST00000447815	protein_coding	KNOWN	CCDS44398	18860	2238	745	51947002	52008370	-1	None	None
10	ASAH2	ENSG00000188611	ENST00000443575	protein_coding	KNOWN	None	18860	1869	622	51947002	52000307	-1	None	None
19	None	ENSG00000175898	ENST00000317726	lincRNA	KNOWN	None	None	None	None	10332111	10333870	-1	None	None
19	None	ENSG00000175898	ENST00000589757	lincRNA	KNOWN	None	None	None	None	10332113	10333424	-1	None	None
10	None	ENSG00000229870	ENST00000444021	processed_pseudogene	KNOWN	None	None	None	None	51023142	51023608	1	None	None
2	None	ENSG00000232518	ENST00000446277	antisense	KNOWN	None	None	None	None	38895830	38898563	-1	None	None
10	None	ENSG00000230166	ENST00000413846	processed_pseudogene	KNOWN	None	None	None	None	51117659	51117988	1	None	None
2	TTC39DP	ENSG00000227238	ENST00000416781	unitary_pseudogene	KNOWN	None	35451	None	None	38990676	38992363	1	None	None
HSCHR6_MHC_SSTO	COL11A2	ENSG00000232541	ENST00000443138	protein_coding	KNOWN	None	2187	4871	1622	33269767	33296553	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_SSTO	COL11A2	ENSG00000232541	ENST00000486982	processed_transcript	KNOWN	None	2187	None	None	33269781	33284978	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_SSTO	COL11A2	ENSG00000232541	ENST00000447855	protein_coding	KNOWN	None	2187	1790	595	33285217	33296553	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_SSTO	COL11A2	ENSG00000232541	ENST00000434780	protein_coding	KNOWN	None	2187	791	262	33293529	33296553	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_SSTO	COL11A2	ENSG00000232541	ENST00000548637	protein_coding	KNOWN	None	2187	5052	1683	33269781	33296554	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_SSTO	COL11A2	ENSG00000232541	ENST00000548137	protein_coding	KNOWN	None	2187	4809	1602	33269781	33296554	-1	DFNA13, DFNB53	HKE5
19	MIR4322	ENSG00000264266	ENST00000585009	miRNA	KNOWN	None	38261	None	None	10341089	10341161	1	None	hsa-mir-4322
11	CYP2R1	ENSG00000186104	ENST00000532805	nonsense_mediated_decay	KNOWN	None	20580	114	37	14899553	14908880	-1	None	None
11	CYP2R1	ENSG00000186104	ENST00000530609	nonsense_mediated_decay	KNOWN	None	20580	114	37	14899555	14913186	-1	None	None
11	CYP2R1	ENSG00000186104	ENST00000534686	nonsense_mediated_decay	KNOWN	None	20580	114	37	14899555	14913208	-1	None	None
11	CYP2R1	ENSG00000186104	ENST00000525015	nonsense_mediated_decay	KNOWN	None	20580	98	31	14899558	14907387	-1	None	None
11	CYP2R1	ENSG00000186104	ENST00000532378	protein_coding	PUTATIVE	None	20580	807	268	14899584	14913197	-1	None	None
11	CYP2R1	ENSG00000186104	ENST00000334636	protein_coding	KNOWN	CCDS7818	20580	1506	501	14899608	14913798	-1	None	None
11	CYP2R1	ENSG00000186104	ENST00000526489	processed_transcript	PUTATIVE	None	20580	None	None	14901681	14912077	-1	None	None
11	CYP2R1	ENSG00000186104	ENST00000526276	processed_transcript	PUTATIVE	None	20580	None	None	14901861	14913038	-1	None	None
11	CYP2R1	ENSG00000186104	ENST00000532641	processed_transcript	PUTATIVE	None	20580	None	None	14901883	14907523	-1	None	None
11	CYP2R1	ENSG00000186104	ENST00000529043	processed_transcript	KNOWN	None	20580	None	None	14902180	14913076	-1	None	None
10	None	ENSG00000270568	ENST00000603466	processed_pseudogene	KNOWN	None	None	None	None	51211725	51212022	-1	None	None
19	None	ENSG00000266978	ENST00000592893	antisense	KNOWN	None	None	None	None	10362944	10395784	-1	None	None
8	DEFB134	ENSG00000205882	ENST00000526438	protein_coding	KNOWN	CCDS34847	32399	201	66	11850692	11853821	-1	None	None
8	DEFB134	ENSG00000205882	ENST00000382205	protein_coding	NOVEL	CCDS34847	32399	201	66	11851437	11853821	-1	None	None
10	FAM25D	ENSG00000214986	ENST00000426412	lincRNA	KNOWN	None	23588	None	None	51214507	51216406	-1	None	bA592B15.5
19	None	ENSG00000267105	ENST00000587088	antisense	KNOWN	None	None	None	None	10369785	10370721	-1	None	None
22	YDJC	ENSG00000161179	ENST00000464015	retained_intron	KNOWN	None	27158	None	None	21982378	21984301	-1	None	None
22	YDJC	ENSG00000161179	ENST00000468686	retained_intron	KNOWN	None	27158	None	None	21982378	21984320	-1	None	None
22	YDJC	ENSG00000161179	ENST00000292778	protein_coding	KNOWN	CCDS33613	27158	972	323	21982378	21984353	-1	None	None
22	YDJC	ENSG00000161179	ENST00000415762	nonsense_mediated_decay	KNOWN	None	27158	411	136	21982378	21984353	-1	None	None
22	YDJC	ENSG00000161179	ENST00000473985	retained_intron	KNOWN	None	27158	None	None	21982403	21984327	-1	None	None
22	YDJC	ENSG00000161179	ENST00000482998	retained_intron	KNOWN	None	27158	None	None	21982411	21984303	-1	None	None
22	YDJC	ENSG00000161179	ENST00000398873	protein_coding	KNOWN	None	27158	450	149	21982381	21984325	-1	None	None
15	NRG4	ENSG00000169752	ENST00000567467	processed_transcript	KNOWN	None	29862	None	None	76228310	76235113	-1	None	HRG4
15	NRG4	ENSG00000169752	ENST00000569343	processed_transcript	KNOWN	None	29862	None	None	76228310	76238186	-1	None	HRG4
15	NRG4	ENSG00000169752	ENST00000566417	nonsense_mediated_decay	KNOWN	CCDS10288	29862	348	115	76228605	76349358	-1	None	HRG4
15	NRG4	ENSG00000169752	ENST00000461391	nonsense_mediated_decay	KNOWN	None	29862	108	35	76233277	76304763	-1	None	HRG4
15	NRG4	ENSG00000169752	ENST00000472094	nonsense_mediated_decay	KNOWN	None	29862	111	36	76234314	76304562	-1	None	HRG4
15	NRG4	ENSG00000169752	ENST00000394907	protein_coding	KNOWN	CCDS10288	29862	348	115	76235350	76304785	-1	None	HRG4
15	NRG4	ENSG00000169752	ENST00000568073	nonsense_mediated_decay	KNOWN	None	29862	111	36	76235385	76303628	-1	None	HRG4
15	NRG4	ENSG00000169752	ENST00000565661	nonsense_mediated_decay	KNOWN	None	29862	108	35	76235507	76352069	-1	None	HRG4
15	NRG4	ENSG00000169752	ENST00000562114	nonsense_mediated_decay	KNOWN	None	29862	111	36	76235575	76304774	-1	None	HRG4
15	NRG4	ENSG00000169752	ENST00000567936	nonsense_mediated_decay	KNOWN	None	29862	111	36	76248273	76304735	-1	None	HRG4
15	NRG4	ENSG00000169752	ENST00000563204	nonsense_mediated_decay	KNOWN	None	29862	273	90	76248273	76304763	-1	None	HRG4
15	NRG4	ENSG00000169752	ENST00000563910	protein_coding	KNOWN	None	29862	331	109	76248273	76352136	-1	None	HRG4
15	NRG4	ENSG00000169752	ENST00000498750	nonsense_mediated_decay	KNOWN	None	29862	111	36	76251415	76304418	-1	None	HRG4
15	NRG4	ENSG00000169752	ENST00000567126	nonsense_mediated_decay	KNOWN	None	29862	111	36	76254271	76352074	-1	None	HRG4
15	NRG4	ENSG00000169752	ENST00000568203	processed_transcript	KNOWN	None	29862	None	None	76298081	76301636	-1	None	HRG4
15	NRG4	ENSG00000169752	ENST00000563582	processed_transcript	KNOWN	None	29862	None	None	76344439	76349595	-1	None	HRG4
15	NRG4	ENSG00000169752	ENST00000535975	protein_coding	KNOWN	None	29862	273	90	76251460	76304418	-1	None	HRG4
15	NRG4	ENSG00000169752	ENST00000305435	protein_coding	KNOWN	None	29862	171	56	76298084	76352069	-1	None	HRG4
19	None	ENSG00000267607	ENST00000589379	antisense	KNOWN	None	None	None	None	10396477	10399695	-1	None	None
2	None	ENSG00000232114	ENST00000435255	processed_pseudogene	KNOWN	None	None	None	None	38996407	38997266	1	None	None
10	SORCS1	ENSG00000108018	ENST00000263054	protein_coding	KNOWN	CCDS7559	16697	3507	1168	108333421	108924292	-1	None	sorCS1
10	SORCS1	ENSG00000108018	ENST00000369698	protein_coding	PUTATIVE	None	16697	2145	714	108336940	108459116	-1	None	sorCS1
10	SORCS1	ENSG00000108018	ENST00000473866	retained_intron	KNOWN	None	16697	None	None	108336956	108366976	-1	None	sorCS1
10	SORCS1	ENSG00000108018	ENST00000452214	protein_coding	KNOWN	None	16697	641	212	108336957	108371745	-1	None	sorCS1
10	SORCS1	ENSG00000108018	ENST00000478809	processed_transcript	KNOWN	None	16697	None	None	108360025	108378032	-1	None	sorCS1
10	SORCS1	ENSG00000108018	ENST00000486192	retained_intron	KNOWN	None	16697	None	None	108379876	108389147	-1	None	sorCS1
10	SORCS1	ENSG00000108018	ENST00000472196	processed_transcript	KNOWN	None	16697	None	None	108426842	108434847	-1	None	sorCS1
10	SORCS1	ENSG00000108018	ENST00000344440	protein_coding	KNOWN	CCDS31283	16697	3597	1198	108336964	108924284	-1	None	sorCS1
10	None	ENSG00000244393	ENST00000418400	processed_transcript	KNOWN	None	None	None	None	51253146	51291409	-1	None	None
10	None	ENSG00000244393	ENST00000399508	processed_transcript	KNOWN	None	None	None	None	51253926	51371300	-1	None	None
10	None	ENSG00000244393	ENST00000432221	processed_transcript	KNOWN	None	None	None	None	51287202	51371338	-1	None	None
2	ASS1P2	ENSG00000223922	ENST00000439895	processed_pseudogene	KNOWN	None	765	None	None	39037574	39038796	-1	ASSP2	None
9	VN2R5P	ENSG00000233628	ENST00000425251	unitary_pseudogene	KNOWN	None	33211	None	None	40371838	40394460	-1	VN2R8P	None
12	CDCA3	ENSG00000111665	ENST00000422785	protein_coding	NOVEL	None	14624	660	219	6953957	6960433	-1	None	TOME-1, GRCC8
12	CDCA3	ENSG00000111665	ENST00000604599	processed_transcript	KNOWN	None	14624	None	None	6953963	6958036	-1	None	TOME-1, GRCC8
12	CDCA3	ENSG00000111665	ENST00000603043	processed_transcript	KNOWN	None	14624	None	None	6954023	6957531	-1	None	TOME-1, GRCC8
12	CDCA3	ENSG00000111665	ENST00000538862	protein_coding	KNOWN	CCDS8565	14624	807	268	6957973	6961230	-1	None	TOME-1, GRCC8
12	CDCA3	ENSG00000111665	ENST00000229265	protein_coding	PUTATIVE	None	14624	732	243	6957980	6960416	-1	None	TOME-1, GRCC8
12	CDCA3	ENSG00000111665	ENST00000535406	protein_coding	PUTATIVE	CCDS8565	14624	807	268	6957993	6960422	-1	None	TOME-1, GRCC8
12	CDCA3	ENSG00000111665	ENST00000536241	retained_intron	KNOWN	None	14624	None	None	6957993	6960426	-1	None	TOME-1, GRCC8
12	CDCA3	ENSG00000111665	ENST00000544610	processed_transcript	PUTATIVE	None	14624	None	None	6957996	6958971	-1	None	TOME-1, GRCC8
12	CDCA3	ENSG00000111665	ENST00000540683	protein_coding	PUTATIVE	None	14624	549	182	6958007	6960413	-1	None	TOME-1, GRCC8
12	CDCA3	ENSG00000111665	ENST00000545368	processed_transcript	KNOWN	None	14624	None	None	6958239	6960456	-1	None	TOME-1, GRCC8
12	CDCA3	ENSG00000111665	ENST00000535871	processed_transcript	KNOWN	None	14624	None	None	6958318	6959654	-1	None	TOME-1, GRCC8
12	CDCA3	ENSG00000111665	ENST00000446553	retained_intron	KNOWN	None	14624	None	None	6959363	6960456	-1	None	TOME-1, GRCC8
8	None	ENSG00000255098	ENST00000527396	protein_coding	PUTATIVE	None	None	222	73	11870545	11873043	-1	None	None
16	MEIOB	ENSG00000162039	ENST00000470044	protein_coding	PUTATIVE	None	28569	795	264	1883988	1934295	-1	C16orf73	MGC35212
16	MEIOB	ENSG00000162039	ENST00000325962	protein_coding	KNOWN	CCDS53983	28569	1416	471	1883989	1918186	-1	C16orf73	MGC35212
16	MEIOB	ENSG00000162039	ENST00000397344	protein_coding	KNOWN	CCDS10449	28569	1329	442	1883989	1922179	-1	C16orf73	MGC35212
16	MEIOB	ENSG00000162039	ENST00000490154	retained_intron	KNOWN	None	28569	None	None	1887685	1891908	-1	C16orf73	MGC35212
16	MEIOB	ENSG00000162039	ENST00000496541	protein_coding	PUTATIVE	None	28569	161	52	1894961	1922145	-1	C16orf73	MGC35212
16	MEIOB	ENSG00000162039	ENST00000460494	nonsense_mediated_decay	KNOWN	None	28569	132	43	1907713	1922096	-1	C16orf73	MGC35212
16	MEIOB	ENSG00000162039	ENST00000563416	processed_transcript	PUTATIVE	None	28569	None	None	1928286	1934232	-1	C16orf73	MGC35212
16	MEIOB	ENSG00000162039	ENST00000412554	protein_coding	KNOWN	CCDS53983	28569	1416	471	1883984	1922179	-1	C16orf73	MGC35212
16	MEIOB	ENSG00000162039	ENST00000452149	protein_coding	KNOWN	None	28569	1329	442	1883984	1922179	-1	C16orf73	MGC35212
2	None	ENSG00000225284	ENST00000442829	antisense	KNOWN	None	None	None	None	39088862	39090275	1	None	None
17	NXN	ENSG00000167693	ENST00000575801	protein_coding	KNOWN	CCDS56013	18008	984	327	702553	767351	-1	None	FLJ12614, NRX
17	NXN	ENSG00000167693	ENST00000336868	protein_coding	KNOWN	CCDS10998	18008	1308	435	702553	883010	-1	None	FLJ12614, NRX
17	NXN	ENSG00000167693	ENST00000571281	retained_intron	KNOWN	None	18008	None	None	703628	707224	-1	None	FLJ12614, NRX
17	NXN	ENSG00000167693	ENST00000571684	protein_coding	PUTATIVE	None	18008	691	229	703721	729241	-1	None	FLJ12614, NRX
17	NXN	ENSG00000167693	ENST00000537628	protein_coding	PUTATIVE	None	18008	561	186	704008	767337	-1	None	FLJ12614, NRX
17	NXN	ENSG00000167693	ENST00000574018	processed_transcript	KNOWN	None	18008	None	None	704028	708488	-1	None	FLJ12614, NRX
17	NXN	ENSG00000167693	ENST00000575455	retained_intron	KNOWN	None	18008	None	None	722354	800254	-1	None	FLJ12614, NRX
17	NXN	ENSG00000167693	ENST00000577098	processed_transcript	KNOWN	None	18008	None	None	726886	811274	-1	None	FLJ12614, NRX
17	NXN	ENSG00000167693	ENST00000571338	processed_transcript	KNOWN	None	18008	None	None	726927	833291	-1	None	FLJ12614, NRX
17	NXN	ENSG00000167693	ENST00000575171	retained_intron	KNOWN	None	18008	None	None	728806	882589	-1	None	FLJ12614, NRX
17	NXN	ENSG00000167693	ENST00000576991	processed_transcript	PUTATIVE	None	18008	None	None	833196	836653	-1	None	FLJ12614, NRX
17	NXN	ENSG00000167693	ENST00000571080	retained_intron	KNOWN	None	18008	None	None	881539	882702	-1	None	FLJ12614, NRX
17	NXN	ENSG00000167693	ENST00000538650	protein_coding	KNOWN	None	18008	381	126	703721	725698	-1	None	FLJ12614, NRX
2	RNU6-851P	ENSG00000207295	ENST00000384565	snRNA	KNOWN	None	47814	None	None	39111701	39111807	-1	None	None
19	MIR526B	ENSG00000207580	ENST00000384848	miRNA	KNOWN	None	32100	None	None	54197647	54197729	1	MIRN526B	hsa-mir-526b
2	RN7SL96P	ENSG00000265905	ENST00000582641	misc_RNA	KNOWN	None	46112	None	None	39164021	39164299	-1	None	None
19	MIR519B	ENSG00000207825	ENST00000385090	miRNA	KNOWN	None	32101	None	None	54198467	54198547	1	MIRN519B	hsa-mir-519b
8	None	ENSG00000233050	ENST00000437818	protein_coding	PUTATIVE	CCDS56524	None	240	79	11921898	11929256	-1	None	None
20	TNNC2	ENSG00000101470	ENST00000372555	protein_coding	KNOWN	CCDS13375	11944	483	160	44451853	44455980	-1	None	None
20	TNNC2	ENSG00000101470	ENST00000372557	protein_coding	KNOWN	None	11944	438	145	44451853	44462384	-1	None	None
2	SOS1-IT1	ENSG00000229692	ENST00000594472	sense_intronic	KNOWN	None	41385	None	None	39219420	39220977	-1	None	None
2	SOS1-IT1	ENSG00000229692	ENST00000420644	sense_intronic	KNOWN	None	41385	None	None	39220117	39220998	-1	None	None
19	MIR525	ENSG00000207711	ENST00000384978	miRNA	KNOWN	None	32102	None	None	54200787	54200871	1	MIRN525	hsa-mir-525
7	HOXA13	ENSG00000106031	ENST00000518136	processed_transcript	KNOWN	None	5102	None	None	27233122	27235219	-1	HOX1J, HOX1	None
7	HOXA13	ENSG00000106031	ENST00000222753	protein_coding	KNOWN	CCDS5412	5102	1167	388	27234637	27239725	-1	HOX1J, HOX1	None
19	MIR523	ENSG00000208016	ENST00000385281	miRNA	KNOWN	None	32103	None	None	54201639	54201725	1	MIRN523	hsa-mir-523
2	RNU6-198P	ENSG00000206985	ENST00000384258	snRNA	KNOWN	None	47161	None	None	39309730	39309833	1	None	None
10	GPR26	ENSG00000154478	ENST00000284674	protein_coding	KNOWN	CCDS7636	4481	1014	337	125425871	125454123	1	None	None
19	MIR518F	ENSG00000207706	ENST00000384973	miRNA	KNOWN	None	32104	None	None	54203269	54203355	1	MIRN518F	hsa-mir-518f
2	None	ENSG00000225900	ENST00000451143	processed_pseudogene	KNOWN	None	None	None	None	39325290	39325586	-1	None	None
3	BCHE	ENSG00000114200	ENST00000264381	protein_coding	KNOWN	CCDS3198	983	1809	602	165490692	165555260	-1	CHE1, CHE2	E1
3	BCHE	ENSG00000114200	ENST00000497011	nonsense_mediated_decay	KNOWN	None	983	1689	562	165490693	165555250	-1	CHE1, CHE2	E1
3	BCHE	ENSG00000114200	ENST00000482958	nonsense_mediated_decay	KNOWN	None	983	1578	525	165490693	165555250	-1	CHE1, CHE2	E1
3	BCHE	ENSG00000114200	ENST00000479451	protein_coding	PUTATIVE	None	983	399	132	165490867	165555208	-1	CHE1, CHE2	E1
3	BCHE	ENSG00000114200	ENST00000488954	protein_coding	PUTATIVE	None	983	363	120	165496062	165555208	-1	CHE1, CHE2	E1
3	BCHE	ENSG00000114200	ENST00000540653	protein_coding	KNOWN	None	983	195	64	165490872	165555208	-1	CHE1, CHE2	E1
19	MIR520B	ENSG00000207722	ENST00000384989	miRNA	KNOWN	None	32105	None	None	54204481	54204541	1	MIRN520B	hsa-mir-520b
7	WDR86	ENSG00000187260	ENST00000463000	processed_transcript	KNOWN	None	28020	None	None	151072995	151093003	-1	None	None
7	WDR86	ENSG00000187260	ENST00000334493	protein_coding	NOVEL	CCDS5925	28020	1131	376	151078207	151107106	-1	None	None
7	WDR86	ENSG00000187260	ENST00000477459	protein_coding	KNOWN	None	28020	834	277	151078207	151107813	-1	None	None
7	WDR86	ENSG00000187260	ENST00000469830	protein_coding	PUTATIVE	None	28020	1449	482	151078214	151106717	-1	None	None
7	WDR86	ENSG00000187260	ENST00000484630	retained_intron	KNOWN	None	28020	None	None	151105646	151107075	-1	None	None
7	WDR86	ENSG00000187260	ENST00000496971	processed_transcript	PUTATIVE	None	28020	None	None	151106059	151107804	-1	None	None
2	None	ENSG00000202309	ENST00000365439	misc_RNA	NOVEL	None	None	None	None	39355967	39356068	-1	None	None
8	ZNF705D	ENSG00000215343	ENST00000400085	protein_coding	KNOWN	CCDS43712	33202	903	300	11961898	11973025	1	None	None
2	None	ENSG00000252473	ENST00000516664	snoRNA	NOVEL	None	None	None	None	39510798	39510932	-1	None	None
16	None	ENSG00000267048	ENST00000570217	retained_intron	KNOWN	None	None	None	None	89972565	89984641	1	None	None
2	RNU6-1185P	ENSG00000252239	ENST00000516430	snRNA	KNOWN	None	48148	None	None	39620663	39620759	-1	None	None
11	ATG13	ENSG00000175224	ENST00000580238	protein_coding	KNOWN	None	29091	98	31	46639077	46666917	1	KIAA0652	None
11	ATG13	ENSG00000175224	ENST00000579280	processed_transcript	KNOWN	None	29091	None	None	46639085	46646914	1	KIAA0652	None
11	ATG13	ENSG00000175224	ENST00000581416	protein_coding	KNOWN	None	29091	150	49	46639086	46666969	1	KIAA0652	None
11	ATG13	ENSG00000175224	ENST00000529655	protein_coding	KNOWN	CCDS7921	29091	1443	480	46639091	46694591	1	KIAA0652	None
11	ATG13	ENSG00000175224	ENST00000526715	processed_transcript	KNOWN	None	29091	None	None	46639095	46651572	1	KIAA0652	None
11	ATG13	ENSG00000175224	ENST00000533325	protein_coding	KNOWN	None	29091	357	118	46639099	46671766	1	KIAA0652	None
11	ATG13	ENSG00000175224	ENST00000581438	protein_coding	KNOWN	None	29091	40	12	46639107	46665881	1	KIAA0652	None
11	ATG13	ENSG00000175224	ENST00000583249	protein_coding	KNOWN	None	29091	81	26	46639107	46666900	1	KIAA0652	None
11	ATG13	ENSG00000175224	ENST00000530500	protein_coding	PUTATIVE	CCDS55761	29091	1206	401	46639113	46694210	1	KIAA0652	None
11	ATG13	ENSG00000175224	ENST00000526508	protein_coding	KNOWN	CCDS44582	29091	1554	517	46639113	46696070	1	KIAA0652	None
11	ATG13	ENSG00000175224	ENST00000578626	protein_coding	KNOWN	None	29091	100	32	46639118	46666919	1	KIAA0652	None
11	ATG13	ENSG00000175224	ENST00000577256	protein_coding	KNOWN	None	29091	170	55	46639118	46667439	1	KIAA0652	None
11	ATG13	ENSG00000175224	ENST00000524625	protein_coding	KNOWN	CCDS7921	29091	1443	480	46639127	46696070	1	KIAA0652	None
11	ATG13	ENSG00000175224	ENST00000530942	processed_transcript	KNOWN	None	29091	None	None	46639128	46651578	1	KIAA0652	None
11	ATG13	ENSG00000175224	ENST00000534610	retained_intron	KNOWN	None	29091	None	None	46639132	46681579	1	KIAA0652	None
11	ATG13	ENSG00000175224	ENST00000582547	protein_coding	KNOWN	None	29091	114	37	46639135	46666933	1	KIAA0652	None
11	ATG13	ENSG00000175224	ENST00000359513	protein_coding	KNOWN	CCDS44582	29091	1554	517	46639146	46696368	1	KIAA0652	None
11	ATG13	ENSG00000175224	ENST00000528494	protein_coding	NOVEL	CCDS55760	29091	1653	550	46639150	46694276	1	KIAA0652	None
11	ATG13	ENSG00000175224	ENST00000395549	protein_coding	KNOWN	None	29091	596	197	46639341	46678741	1	KIAA0652	None
11	ATG13	ENSG00000175224	ENST00000528145	retained_intron	KNOWN	None	29091	None	None	46665887	46677948	1	KIAA0652	None
11	ATG13	ENSG00000175224	ENST00000525850	processed_transcript	KNOWN	None	29091	None	None	46670277	46679168	1	KIAA0652	None
11	ATG13	ENSG00000175224	ENST00000528984	retained_intron	KNOWN	None	29091	None	None	46678501	46685699	1	KIAA0652	None
11	ATG13	ENSG00000175224	ENST00000527907	retained_intron	KNOWN	None	29091	None	None	46678503	46689415	1	KIAA0652	None
11	ATG13	ENSG00000175224	ENST00000528704	retained_intron	KNOWN	None	29091	None	None	46678610	46680952	1	KIAA0652	None
11	ATG13	ENSG00000175224	ENST00000533316	retained_intron	KNOWN	None	29091	None	None	46680885	46690440	1	KIAA0652	None
11	ATG13	ENSG00000175224	ENST00000531933	protein_coding	PUTATIVE	None	29091	142	46	46680972	46694323	1	KIAA0652	None
11	ATG13	ENSG00000175224	ENST00000525009	protein_coding	NOVEL	None	29091	581	192	46685550	46690991	1	KIAA0652	None
11	ATG13	ENSG00000175224	ENST00000529395	nonsense_mediated_decay	KNOWN	None	29091	237	78	46687059	46691082	1	KIAA0652	None
11	ATG13	ENSG00000175224	ENST00000532067	nonsense_mediated_decay	KNOWN	None	29091	127	41	46689422	46690432	1	KIAA0652	None
11	ATG13	ENSG00000175224	ENST00000526485	processed_transcript	KNOWN	None	29091	None	None	46694345	46696063	1	KIAA0652	None
11	ATG13	ENSG00000175224	ENST00000434074	protein_coding	KNOWN	CCDS44582	29091	1554	517	46638826	46696367	1	KIAA0652	None
11	ATG13	ENSG00000175224	ENST00000312040	protein_coding	KNOWN	CCDS44582	29091	1554	517	46638826	46696367	1	KIAA0652	None
11	ATG13	ENSG00000175224	ENST00000451945	protein_coding	KNOWN	CCDS7921	29091	1443	480	46638826	46696367	1	KIAA0652	None
9	None	ENSG00000236247	ENST00000454256	processed_pseudogene	KNOWN	None	None	None	None	40479776	40481177	1	None	None
16	None	ENSG00000256390	ENST00000540694	pseudogene	NOVEL	None	None	None	None	89985273	89987375	1	None	None
10	None	ENSG00000240527	ENST00000433113	sense_intronic	KNOWN	None	None	None	None	97593265	97633515	1	None	None
6	CFB	ENSG00000243649	ENST00000475617	protein_coding	KNOWN	None	1037	433	143	31913427	31914918	1	BFD, BF	H2-Bf
6	CFB	ENSG00000243649	ENST00000425368	protein_coding	KNOWN	CCDS4729	1037	2295	764	31913486	31919861	1	BFD, BF	H2-Bf
6	CFB	ENSG00000243649	ENST00000472581	retained_intron	KNOWN	None	1037	None	None	31913752	31914897	1	BFD, BF	H2-Bf
6	CFB	ENSG00000243649	ENST00000460718	nonsense_mediated_decay	KNOWN	None	1037	261	86	31913903	31915746	1	BFD, BF	H2-Bf
6	CFB	ENSG00000243649	ENST00000452035	retained_intron	KNOWN	None	1037	None	None	31913999	31918422	1	BFD, BF	H2-Bf
6	CFB	ENSG00000243649	ENST00000461483	retained_intron	KNOWN	None	1037	None	None	31915058	31917328	1	BFD, BF	H2-Bf
6	CFB	ENSG00000243649	ENST00000497841	processed_transcript	KNOWN	None	1037	None	None	31915574	31917375	1	BFD, BF	H2-Bf
6	CFB	ENSG00000243649	ENST00000465750	retained_intron	KNOWN	None	1037	None	None	31916135	31917375	1	BFD, BF	H2-Bf
6	CFB	ENSG00000243649	ENST00000482886	retained_intron	KNOWN	None	1037	None	None	31916237	31917034	1	BFD, BF	H2-Bf
6	CFB	ENSG00000243649	ENST00000483004	protein_coding	NOVEL	None	1037	917	304	31916733	31919830	1	BFD, BF	H2-Bf
6	CFB	ENSG00000243649	ENST00000467150	retained_intron	KNOWN	None	1037	None	None	31916775	31917375	1	BFD, BF	H2-Bf
6	CFB	ENSG00000243649	ENST00000467360	retained_intron	KNOWN	None	1037	None	None	31917508	31919021	1	BFD, BF	H2-Bf
6	CFB	ENSG00000243649	ENST00000482312	retained_intron	KNOWN	None	1037	None	None	31918651	31919861	1	BFD, BF	H2-Bf
6	CFB	ENSG00000243649	ENST00000498317	protein_coding	PUTATIVE	None	1037	205	67	31919192	31919861	1	BFD, BF	H2-Bf
6	CFB	ENSG00000243649	ENST00000556679	protein_coding	KNOWN	None	1037	3801	1266	31895475	31919825	1	BFD, BF	H2-Bf
10	None	ENSG00000227805	ENST00000415692	processed_pseudogene	KNOWN	None	None	None	None	97759535	97760000	-1	None	None
9	None	ENSG00000215142	ENST00000399669	unprocessed_pseudogene	KNOWN	None	None	None	None	40491622	40633282	-1	None	None
18	MYO5B	ENSG00000167306	ENST00000285039	protein_coding	KNOWN	CCDS42436	7603	5547	1848	47349183	47721463	-1	None	KIAA1119
18	MYO5B	ENSG00000167306	ENST00000592779	protein_coding	NOVEL	None	7603	2900	965	47352630	47431043	-1	None	KIAA1119
18	MYO5B	ENSG00000167306	ENST00000592688	protein_coding	PUTATIVE	None	7603	1257	418	47352660	47376216	-1	None	KIAA1119
18	MYO5B	ENSG00000167306	ENST00000587895	processed_transcript	KNOWN	None	7603	None	None	47389632	47402653	-1	None	KIAA1119
18	MYO5B	ENSG00000167306	ENST00000589568	retained_intron	KNOWN	None	7603	None	None	47404169	47405791	-1	None	KIAA1119
18	MYO5B	ENSG00000167306	ENST00000585859	retained_intron	KNOWN	None	7603	None	None	47405391	47406866	-1	None	KIAA1119
18	MYO5B	ENSG00000167306	ENST00000586036	processed_transcript	KNOWN	None	7603	None	None	47566622	47623990	-1	None	KIAA1119
18	MYO5B	ENSG00000167306	ENST00000324581	protein_coding	KNOWN	None	7603	2892	963	47352630	47429205	-1	None	KIAA1119
2	CCNT2	ENSG00000082258	ENST00000419781	nonsense_mediated_decay	KNOWN	None	1600	522	173	135675805	135714413	1	None	None
2	CCNT2	ENSG00000082258	ENST00000446247	protein_coding	PUTATIVE	None	1600	393	130	135675811	135710895	1	None	None
2	CCNT2	ENSG00000082258	ENST00000452839	nonsense_mediated_decay	KNOWN	None	1600	522	173	135676392	135712369	1	None	None
2	CCNT2	ENSG00000082258	ENST00000295238	protein_coding	KNOWN	CCDS2175	1600	1992	663	135676395	135714587	1	None	None
2	CCNT2	ENSG00000082258	ENST00000264157	protein_coding	KNOWN	CCDS2174	1600	2193	730	135676395	135716912	1	None	None
2	CCNT2	ENSG00000082258	ENST00000475094	retained_intron	KNOWN	None	1600	None	None	135676407	135700339	1	None	None
2	CCNT2	ENSG00000082258	ENST00000464932	retained_intron	KNOWN	None	1600	None	None	135676413	135677932	1	None	None
2	CCNT2	ENSG00000082258	ENST00000417175	nonsense_mediated_decay	KNOWN	None	1600	522	173	135676417	135703784	1	None	None
2	CCNT2	ENSG00000082258	ENST00000452521	protein_coding	NOVEL	None	1600	448	148	135705300	135712408	1	None	None
2	CCNT2	ENSG00000082258	ENST00000438691	protein_coding	PUTATIVE	None	1600	202	66	135705396	135710768	1	None	None
2	CCNT2	ENSG00000082258	ENST00000537343	protein_coding	KNOWN	None	1600	1467	488	135676392	135712369	1	None	None
5	None	ENSG00000252904	ENST00000517095	snoRNA	NOVEL	None	None	None	None	65257011	65257147	-1	None	None
5	None	ENSG00000253744	ENST00000521596	antisense	KNOWN	None	None	None	None	65439984	65440623	-1	None	None
2	None	ENSG00000231312	ENST00000426083	antisense	KNOWN	None	None	None	None	39663778	39831216	1	None	None
2	None	ENSG00000231312	ENST00000443038	antisense	KNOWN	None	None	None	None	39664510	39743909	1	None	None
2	None	ENSG00000231312	ENST00000422128	antisense	KNOWN	None	None	None	None	39664543	39811788	1	None	None
2	None	ENSG00000231312	ENST00000449569	antisense	KNOWN	None	None	None	None	39664557	39828484	1	None	None
2	None	ENSG00000231312	ENST00000445520	antisense	KNOWN	None	None	None	None	39664572	39701899	1	None	None
2	None	ENSG00000231312	ENST00000366187	antisense	KNOWN	None	None	None	None	39680980	39681867	1	None	None
2	None	ENSG00000231312	ENST00000446698	antisense	KNOWN	None	None	None	None	39681063	39851496	1	None	None
2	None	ENSG00000231312	ENST00000438649	antisense	KNOWN	None	None	None	None	39741287	39826679	1	None	None
2	None	ENSG00000231312	ENST00000425775	antisense	KNOWN	None	None	None	None	39744007	39826617	1	None	None
2	None	ENSG00000231312	ENST00000415640	antisense	KNOWN	None	None	None	None	39745780	39892483	1	None	None
2	None	ENSG00000231312	ENST00000451547	antisense	KNOWN	None	None	None	None	39745816	39826679	1	None	None
11	IGF2	ENSG00000167244	ENST00000381395	protein_coding	KNOWN	CCDS7728	5466	543	180	2150342	2158520	-1	C11orf43	FLJ44734
11	IGF2	ENSG00000167244	ENST00000381406	protein_coding	KNOWN	None	5466	552	183	2150342	2160204	-1	C11orf43	FLJ44734
11	IGF2	ENSG00000167244	ENST00000416167	protein_coding	KNOWN	CCDS7728	5466	543	180	2150342	2160619	-1	C11orf43	FLJ44734
11	IGF2	ENSG00000167244	ENST00000434045	protein_coding	KNOWN	CCDS44517	5466	711	236	2153730	2162468	-1	C11orf43	FLJ44734
11	IGF2	ENSG00000167244	ENST00000381392	protein_coding	KNOWN	None	5466	552	183	2153870	2158517	-1	C11orf43	FLJ44734
11	IGF2	ENSG00000167244	ENST00000381389	protein_coding	KNOWN	CCDS7728	5466	543	180	2153903	2162246	-1	C11orf43	FLJ44734
11	IGF2	ENSG00000167244	ENST00000418738	protein_coding	KNOWN	CCDS7728	5466	543	180	2153946	2158535	-1	C11orf43	FLJ44734
11	IGF2	ENSG00000167244	ENST00000337883	protein_coding	KNOWN	CCDS7728	5466	543	180	2153964	2169040	-1	C11orf43	FLJ44734
11	IGF2	ENSG00000167244	ENST00000300632	protein_coding	KNOWN	CCDS7728	5466	543	180	2150348	2170833	-1	C11orf43	FLJ44734
19	LIN7B	ENSG00000104863	ENST00000391864	protein_coding	PUTATIVE	None	17788	414	137	49617581	49621717	1	None	MALS-2, LIN-7B, VELI2
19	LIN7B	ENSG00000104863	ENST00000221459	protein_coding	KNOWN	CCDS12757	17788	624	207	49617618	49621717	1	None	MALS-2, LIN-7B, VELI2
19	LIN7B	ENSG00000104863	ENST00000595200	nonsense_mediated_decay	KNOWN	None	17788	398	131	49617666	49621272	1	None	MALS-2, LIN-7B, VELI2
19	LIN7B	ENSG00000104863	ENST00000486217	protein_coding	PUTATIVE	None	17788	347	114	49617681	49618746	1	None	MALS-2, LIN-7B, VELI2
19	LIN7B	ENSG00000104863	ENST00000469137	retained_intron	KNOWN	None	17788	None	None	49617723	49621717	1	None	MALS-2, LIN-7B, VELI2
19	LIN7B	ENSG00000104863	ENST00000474252	retained_intron	KNOWN	None	17788	None	None	49618483	49621316	1	None	MALS-2, LIN-7B, VELI2
19	LIN7B	ENSG00000104863	ENST00000465141	retained_intron	KNOWN	None	17788	None	None	49619375	49621252	1	None	MALS-2, LIN-7B, VELI2
5	None	ENSG00000248846	ENST00000509924	lincRNA	KNOWN	None	None	None	None	65502040	65505275	-1	None	None
5	None	ENSG00000238400	ENST00000458751	snoRNA	NOVEL	None	None	None	None	65526957	65527060	-1	None	None
5	IL5	ENSG00000113525	ENST00000231454	protein_coding	KNOWN	CCDS4156	6016	405	134	131877136	131879214	-1	None	IL-5, EDF, TRF
5	IL5	ENSG00000113525	ENST00000462418	retained_intron	KNOWN	None	6016	None	None	131877758	131879612	-1	None	IL-5, EDF, TRF
5	IL5	ENSG00000113525	ENST00000450655	protein_coding	PUTATIVE	None	6016	153	50	131877758	131892530	-1	None	IL-5, EDF, TRF
20	RBBP8NL	ENSG00000130701	ENST00000252998	protein_coding	KNOWN	CCDS13498	16144	1995	664	60985293	61002589	-1	C20orf151	dJ908M14.3
1	VPS13D	ENSG00000048707	ENST00000358136	protein_coding	KNOWN	CCDS30588	23595	13167	4388	12290124	12572099	1	None	FLJ10619, KIAA0453
1	VPS13D	ENSG00000048707	ENST00000356315	protein_coding	KNOWN	CCDS30589	23595	13092	4363	12290124	12572099	1	None	FLJ10619, KIAA0453
1	VPS13D	ENSG00000048707	ENST00000476169	processed_transcript	KNOWN	None	23595	None	None	12304481	12309660	1	None	FLJ10619, KIAA0453
1	VPS13D	ENSG00000048707	ENST00000489961	processed_transcript	KNOWN	None	23595	None	None	12313791	12318012	1	None	FLJ10619, KIAA0453
1	VPS13D	ENSG00000048707	ENST00000011700	protein_coding	NOVEL	None	23595	9632	3209	12337178	12570415	1	None	FLJ10619, KIAA0453
1	VPS13D	ENSG00000048707	ENST00000460333	processed_transcript	KNOWN	None	23595	None	None	12359338	12433903	1	None	FLJ10619, KIAA0453
1	VPS13D	ENSG00000048707	ENST00000487188	processed_transcript	KNOWN	None	23595	None	None	12371583	12398045	1	None	FLJ10619, KIAA0453
1	VPS13D	ENSG00000048707	ENST00000469054	processed_transcript	KNOWN	None	23595	None	None	12404922	12409306	1	None	FLJ10619, KIAA0453
1	VPS13D	ENSG00000048707	ENST00000496628	processed_transcript	KNOWN	None	23595	None	None	12427725	12572099	1	None	FLJ10619, KIAA0453
1	VPS13D	ENSG00000048707	ENST00000466732	nonsense_mediated_decay	KNOWN	None	23595	138	45	12460367	12464001	1	None	FLJ10619, KIAA0453
1	VPS13D	ENSG00000048707	ENST00000476045	processed_transcript	KNOWN	None	23595	None	None	12467307	12476880	1	None	FLJ10619, KIAA0453
1	VPS13D	ENSG00000048707	ENST00000481484	processed_transcript	KNOWN	None	23595	None	None	12469891	12476880	1	None	FLJ10619, KIAA0453
1	VPS13D	ENSG00000048707	ENST00000471923	protein_coding	PUTATIVE	None	23595	135	44	12524995	12572099	1	None	FLJ10619, KIAA0453
1	VPS13D	ENSG00000048707	ENST00000473099	retained_intron	KNOWN	None	23595	None	None	12557280	12566961	1	None	FLJ10619, KIAA0453
1	VPS13D	ENSG00000048707	ENST00000543766	protein_coding	KNOWN	None	23595	1161	386	12469924	12570415	1	None	FLJ10619, KIAA0453
1	VPS13D	ENSG00000048707	ENST00000543710	protein_coding	KNOWN	None	23595	579	192	12538604	12569753	1	None	FLJ10619, KIAA0453
19	MIR1181	ENSG00000221566	ENST00000408639	miRNA	KNOWN	None	35262	None	None	10514134	10514214	-1	MIRN1181	hsa-mir-1181
1	PIGV	ENSG00000060642	ENST00000430292	protein_coding	KNOWN	None	26031	216	71	27113963	27120741	1	None	FLJ20477
1	PIGV	ENSG00000060642	ENST00000472757	nonsense_mediated_decay	KNOWN	None	26031	225	74	27114455	27124298	1	None	FLJ20477
1	PIGV	ENSG00000060642	ENST00000078527	protein_coding	KNOWN	CCDS287	26031	1482	493	27114486	27124889	1	None	FLJ20477
1	PIGV	ENSG00000060642	ENST00000431541	protein_coding	KNOWN	None	26031	362	119	27114589	27120887	1	None	FLJ20477
1	PIGV	ENSG00000060642	ENST00000374145	protein_coding	KNOWN	CCDS287	26031	1482	493	27114686	27124884	1	None	FLJ20477
1	PIGV	ENSG00000060642	ENST00000455364	protein_coding	KNOWN	None	26031	547	181	27115419	27121072	1	None	FLJ20477
1	PIGV	ENSG00000060642	ENST00000449950	protein_coding	KNOWN	None	26031	798	265	27114679	27124649	1	None	FLJ20477
19	None	ENSG00000267197	ENST00000592671	sense_intronic	KNOWN	None	None	None	None	10601015	10601676	-1	None	None
17	WNT3	ENSG00000108379	ENST00000225512	protein_coding	KNOWN	CCDS11505	12782	1068	355	44839872	44896126	-1	INT4	MGC131950, MGC138321, MGC138323
17	WNT3	ENSG00000108379	ENST00000573788	processed_transcript	KNOWN	None	12782	None	None	44851208	44910399	-1	INT4	MGC131950, MGC138321, MGC138323
17	WNT3	ENSG00000108379	ENST00000572508	processed_transcript	KNOWN	None	12782	None	None	44907961	44910424	-1	INT4	MGC131950, MGC138321, MGC138323
17	WNT3	ENSG00000108379	ENST00000576471	retained_intron	KNOWN	None	12782	None	None	44908771	44910520	-1	INT4	MGC131950, MGC138321, MGC138323
6	HDDC2	ENSG00000111906	ENST00000318787	protein_coding	KNOWN	None	21078	513	170	125596496	125623120	-1	C6orf74	CGI-130, dJ167O5.2
6	HDDC2	ENSG00000111906	ENST00000398153	protein_coding	KNOWN	CCDS43503	21078	615	204	125596496	125623282	-1	C6orf74	CGI-130, dJ167O5.2
6	HDDC2	ENSG00000111906	ENST00000368377	protein_coding	KNOWN	None	21078	513	170	125596496	125623282	-1	C6orf74	CGI-130, dJ167O5.2
19	RNU7-140P	ENSG00000238364	ENST00000459546	snRNA	KNOWN	None	45674	None	None	10661709	10661768	-1	None	None
19	MIR1238	ENSG00000221410	ENST00000408483	miRNA	KNOWN	None	33933	None	None	10662798	10662880	1	MIRN1238	hsa-mir-1238
HSCHR6_MHC_COX	MRPS18B	ENSG00000227420	ENST00000454427	protein_coding	KNOWN	None	14516	777	258	30575335	30584021	1	None	MRPS18-2, PTD017, C6orf14, HSPC183
HSCHR6_MHC_COX	MRPS18B	ENSG00000227420	ENST00000482773	retained_intron	KNOWN	None	14516	None	None	30575469	30577750	1	None	MRPS18-2, PTD017, C6orf14, HSPC183
HSCHR6_MHC_COX	MRPS18B	ENSG00000227420	ENST00000464426	retained_intron	KNOWN	None	14516	None	None	30575478	30584021	1	None	MRPS18-2, PTD017, C6orf14, HSPC183
HSCHR6_MHC_COX	MRPS18B	ENSG00000227420	ENST00000437247	protein_coding	KNOWN	None	14516	648	215	30575486	30584021	1	None	MRPS18-2, PTD017, C6orf14, HSPC183
HSCHR6_MHC_COX	MRPS18B	ENSG00000227420	ENST00000477010	processed_transcript	KNOWN	None	14516	None	None	30575486	30584021	1	None	MRPS18-2, PTD017, C6orf14, HSPC183
16	GLG1	ENSG00000090863	ENST00000205061	protein_coding	KNOWN	CCDS32485	4316	3612	1203	74485856	74641012	-1	None	MG-160, ESL-1, CFR-1
16	GLG1	ENSG00000090863	ENST00000422840	protein_coding	KNOWN	CCDS45527	4316	3540	1179	74485857	74640992	-1	None	MG-160, ESL-1, CFR-1
16	GLG1	ENSG00000090863	ENST00000447066	protein_coding	KNOWN	CCDS45526	4316	3579	1192	74485925	74641010	-1	None	MG-160, ESL-1, CFR-1
16	GLG1	ENSG00000090863	ENST00000567951	nonsense_mediated_decay	KNOWN	None	4316	918	305	74486688	74640996	-1	None	MG-160, ESL-1, CFR-1
16	GLG1	ENSG00000090863	ENST00000562090	nonsense_mediated_decay	KNOWN	None	4316	2097	698	74486688	74641003	-1	None	MG-160, ESL-1, CFR-1
16	GLG1	ENSG00000090863	ENST00000561942	retained_intron	KNOWN	None	4316	None	None	74487087	74492192	-1	None	MG-160, ESL-1, CFR-1
16	GLG1	ENSG00000090863	ENST00000561481	retained_intron	KNOWN	None	4316	None	None	74495387	74502303	-1	None	MG-160, ESL-1, CFR-1
16	GLG1	ENSG00000090863	ENST00000563646	retained_intron	KNOWN	None	4316	None	None	74495682	74497337	-1	None	MG-160, ESL-1, CFR-1
16	GLG1	ENSG00000090863	ENST00000563432	retained_intron	KNOWN	None	4316	None	None	74501657	74506390	-1	None	MG-160, ESL-1, CFR-1
16	GLG1	ENSG00000090863	ENST00000566601	retained_intron	KNOWN	None	4316	None	None	74502152	74506848	-1	None	MG-160, ESL-1, CFR-1
16	GLG1	ENSG00000090863	ENST00000567911	retained_intron	KNOWN	None	4316	None	None	74508070	74511431	-1	None	MG-160, ESL-1, CFR-1
16	GLG1	ENSG00000090863	ENST00000565474	protein_coding	PUTATIVE	None	4316	222	73	74530498	74597223	-1	None	MG-160, ESL-1, CFR-1
16	GLG1	ENSG00000090863	ENST00000565260	protein_coding	NOVEL	None	4316	458	151	74537634	74640995	-1	None	MG-160, ESL-1, CFR-1
19	None	ENSG00000271010	ENST00000603599	processed_pseudogene	KNOWN	None	None	None	None	10708677	10709641	-1	None	None
6	FAM8A6P	ENSG00000218772	ENST00000407496	processed_pseudogene	KNOWN	None	16377	None	None	134924702	134925836	-1	None	None
10	CPXM2	ENSG00000121898	ENST00000368854	processed_transcript	KNOWN	None	26977	None	None	125465723	125699783	-1	None	UNQ676, CPX2
10	CPXM2	ENSG00000121898	ENST00000241305	protein_coding	KNOWN	CCDS7637	26977	2271	756	125505152	125651330	-1	None	UNQ676, CPX2
10	CPXM2	ENSG00000121898	ENST00000481775	processed_transcript	KNOWN	None	26977	None	None	125639725	125646682	-1	None	UNQ676, CPX2
17	GALK1	ENSG00000108479	ENST00000225614	protein_coding	KNOWN	CCDS11728	4118	1179	392	73747675	73761317	-1	GALK	None
17	GALK1	ENSG00000108479	ENST00000589643	retained_intron	KNOWN	None	4118	None	None	73747760	73754600	-1	GALK	None
17	GALK1	ENSG00000108479	ENST00000592997	protein_coding	NOVEL	None	4118	555	184	73753975	73759171	-1	GALK	None
17	GALK1	ENSG00000108479	ENST00000588479	protein_coding	KNOWN	CCDS11728	4118	1179	392	73754025	73761792	-1	GALK	None
17	GALK1	ENSG00000108479	ENST00000586733	retained_intron	KNOWN	None	4118	None	None	73754053	73754599	-1	GALK	None
17	GALK1	ENSG00000108479	ENST00000587707	nonsense_mediated_decay	KNOWN	None	4118	276	91	73754593	73760086	-1	GALK	None
17	GALK1	ENSG00000108479	ENST00000592494	retained_intron	KNOWN	None	4118	None	None	73754672	73761238	-1	GALK	None
17	GALK1	ENSG00000108479	ENST00000586244	nonsense_mediated_decay	KNOWN	None	4118	363	120	73758839	73761273	-1	GALK	None
17	GALK1	ENSG00000108479	ENST00000589030	retained_intron	KNOWN	None	4118	None	None	73759464	73761214	-1	GALK	None
17	GALK1	ENSG00000108479	ENST00000437911	protein_coding	KNOWN	None	4118	1269	422	73754027	73761307	-1	GALK	None
19	ILF3-AS1	ENSG00000267100	ENST00000591501	lincRNA	KNOWN	None	27115	None	None	10762538	10764520	-1	None	None
6	HMGB1P39	ENSG00000203489	ENST00000366304	processed_pseudogene	KNOWN	None	39186	None	None	76028817	76029696	-1	None	None
6	None	ENSG00000229722	ENST00000412602	lincRNA	KNOWN	None	None	None	None	134927437	134930575	-1	None	None
15	DUOX1	ENSG00000137857	ENST00000321429	protein_coding	KNOWN	CCDS32221	3062	4656	1551	45422131	45457774	1	None	NOXEF1, THOX1, LNOX1
15	DUOX1	ENSG00000137857	ENST00000389037	protein_coding	KNOWN	CCDS32221	3062	4656	1551	45422192	45457772	1	None	NOXEF1, THOX1, LNOX1
15	DUOX1	ENSG00000137857	ENST00000558322	protein_coding	KNOWN	None	3062	129	42	45422216	45426132	1	None	NOXEF1, THOX1, LNOX1
15	DUOX1	ENSG00000137857	ENST00000561220	nonsense_mediated_decay	KNOWN	None	3062	1335	444	45422236	45457164	1	None	NOXEF1, THOX1, LNOX1
15	DUOX1	ENSG00000137857	ENST00000558991	retained_intron	KNOWN	None	3062	None	None	45430844	45433237	1	None	NOXEF1, THOX1, LNOX1
15	DUOX1	ENSG00000137857	ENST00000561166	protein_coding	KNOWN	None	3062	3594	1197	45431016	45457771	1	None	NOXEF1, THOX1, LNOX1
15	DUOX1	ENSG00000137857	ENST00000559219	retained_intron	KNOWN	None	3062	None	None	45439744	45440756	1	None	NOXEF1, THOX1, LNOX1
15	DUOX1	ENSG00000137857	ENST00000557893	retained_intron	KNOWN	None	3062	None	None	45440153	45445437	1	None	NOXEF1, THOX1, LNOX1
15	DUOX1	ENSG00000137857	ENST00000558446	retained_intron	KNOWN	None	3062	None	None	45442498	45444079	1	None	NOXEF1, THOX1, LNOX1
15	DUOX1	ENSG00000137857	ENST00000559716	retained_intron	KNOWN	None	3062	None	None	45444027	45453188	1	None	NOXEF1, THOX1, LNOX1
15	DUOX1	ENSG00000137857	ENST00000559221	processed_transcript	KNOWN	None	3062	None	None	45444698	45447733	1	None	NOXEF1, THOX1, LNOX1
15	DUOX1	ENSG00000137857	ENST00000558744	retained_intron	KNOWN	None	3062	None	None	45445986	45448049	1	None	NOXEF1, THOX1, LNOX1
7	KCNH2	ENSG00000055118	ENST00000330883	protein_coding	KNOWN	CCDS5911	6251	2460	819	150642049	150652994	-1	LQT2	Kv11.1, HERG, erg1
7	KCNH2	ENSG00000055118	ENST00000262186	protein_coding	KNOWN	CCDS5910	6251	3480	1159	150642049	150675403	-1	LQT2	Kv11.1, HERG, erg1
7	KCNH2	ENSG00000055118	ENST00000532957	retained_intron	KNOWN	None	6251	None	None	150646503	150675224	-1	LQT2	Kv11.1, HERG, erg1
7	KCNH2	ENSG00000055118	ENST00000473610	retained_intron	KNOWN	None	6251	None	None	150646504	150652916	-1	LQT2	Kv11.1, HERG, erg1
7	KCNH2	ENSG00000055118	ENST00000461280	retained_intron	KNOWN	None	6251	None	None	150646511	150652898	-1	LQT2	Kv11.1, HERG, erg1
7	KCNH2	ENSG00000055118	ENST00000392968	protein_coding	KNOWN	None	6251	3192	1063	150642049	150657964	-1	LQT2	Kv11.1, HERG, erg1
7	KCNH2	ENSG00000055118	ENST00000430723	protein_coding	KNOWN	CCDS47747	6251	2667	888	150646522	150675014	-1	LQT2	Kv11.1, HERG, erg1
6	None	ENSG00000227723	ENST00000452888	lincRNA	KNOWN	None	None	None	None	134957627	134963633	1	None	None
19	MIR638	ENSG00000207972	ENST00000385237	miRNA	KNOWN	None	32894	None	None	10829080	10829179	1	MIRN638	hsa-mir-638
19	MIR4748	ENSG00000265879	ENST00000578076	miRNA	KNOWN	None	41557	None	None	10890930	10891011	1	None	hsa-mir-4748
6	None	ENSG00000236389	ENST00000447557	lincRNA	KNOWN	None	None	None	None	135027198	135028487	-1	None	None
19	MIR199A1	ENSG00000207752	ENST00000385019	miRNA	KNOWN	None	31571	None	None	10928102	10928172	-1	MIRN199A1	hsa-mir-199a-1
6	None	ENSG00000237174	ENST00000588761	antisense	KNOWN	None	None	None	None	76066941	76072730	1	None	None
6	None	ENSG00000237174	ENST00000415457	antisense	KNOWN	None	None	None	None	76066960	76072730	1	None	None
6	None	ENSG00000237174	ENST00000591821	antisense	KNOWN	None	None	None	None	76066960	76072740	1	None	None
6	None	ENSG00000237174	ENST00000440220	antisense	KNOWN	None	None	None	None	76067008	76072740	1	None	None
6	None	ENSG00000237174	ENST00000419709	antisense	KNOWN	None	None	None	None	76070565	76096096	1	None	None
7	CACNA2D1	ENSG00000153956	ENST00000356860	protein_coding	KNOWN	CCDS5598	1399	3276	1091	81575760	82073114	-1	CACNL2A, CACNA2, MHS3	None
7	CACNA2D1	ENSG00000153956	ENST00000469297	retained_intron	KNOWN	None	1399	None	None	81591210	81593598	-1	CACNL2A, CACNA2, MHS3	None
7	CACNA2D1	ENSG00000153956	ENST00000486539	retained_intron	KNOWN	None	1399	None	None	81596481	81600405	-1	CACNL2A, CACNA2, MHS3	None
7	CACNA2D1	ENSG00000153956	ENST00000443883	protein_coding	NOVEL	None	1399	840	279	81599197	81635106	-1	CACNL2A, CACNA2, MHS3	None
7	CACNA2D1	ENSG00000153956	ENST00000466806	retained_intron	KNOWN	None	1399	None	None	81634647	81641567	-1	CACNL2A, CACNA2, MHS3	None
7	CACNA2D1	ENSG00000153956	ENST00000464354	processed_transcript	KNOWN	None	1399	None	None	81634763	81662388	-1	CACNL2A, CACNA2, MHS3	None
7	CACNA2D1	ENSG00000153956	ENST00000475237	retained_intron	KNOWN	None	1399	None	None	81636978	81662217	-1	CACNL2A, CACNA2, MHS3	None
7	CACNA2D1	ENSG00000153956	ENST00000492734	retained_intron	KNOWN	None	1399	None	None	81641359	81667551	-1	CACNL2A, CACNA2, MHS3	None
7	CACNA2D1	ENSG00000153956	ENST00000423588	protein_coding	PUTATIVE	None	1399	930	309	81679652	82073032	-1	CACNL2A, CACNA2, MHS3	None
7	CACNA2D1	ENSG00000153956	ENST00000461275	processed_transcript	KNOWN	None	1399	None	None	81680251	81714152	-1	CACNL2A, CACNA2, MHS3	None
7	CACNA2D1	ENSG00000153956	ENST00000484706	processed_transcript	KNOWN	None	1399	None	None	81746360	81972552	-1	CACNL2A, CACNA2, MHS3	None
7	CACNA2D1	ENSG00000153956	ENST00000356253	protein_coding	KNOWN	None	1399	3312	1103	81579418	82073031	-1	CACNL2A, CACNA2, MHS3	None
7	CACNA2D1	ENSG00000153956	ENST00000535308	protein_coding	KNOWN	None	1399	912	303	81579557	81600405	-1	CACNL2A, CACNA2, MHS3	None
7	GTF2IP1	ENSG00000232561	ENST00000441487	unprocessed_pseudogene	KNOWN	None	4660	None	None	74602964	74632983	-1	WBSCR7	None
7	GTF2IP1	ENSG00000232561	ENST00000545332	unprocessed_pseudogene	KNOWN	None	4660	None	None	74602783	74653438	-1	WBSCR7	None
19	None	ENSG00000267544	ENST00000590455	processed_pseudogene	KNOWN	None	None	None	None	10952515	10952926	1	None	None
7	TMEM130	ENSG00000166448	ENST00000416379	protein_coding	KNOWN	CCDS47650	25429	1308	435	98444111	98467489	-1	None	DKFZp761L1417, FLJ42643
7	TMEM130	ENSG00000166448	ENST00000339375	protein_coding	KNOWN	CCDS5658	25429	1272	423	98444111	98467659	-1	None	DKFZp761L1417, FLJ42643
7	TMEM130	ENSG00000166448	ENST00000450876	protein_coding	NOVEL	None	25429	1020	339	98444124	98464569	-1	None	DKFZp761L1417, FLJ42643
7	TMEM130	ENSG00000166448	ENST00000474857	processed_transcript	PUTATIVE	None	25429	None	None	98444172	98445351	-1	None	DKFZp761L1417, FLJ42643
7	TMEM130	ENSG00000166448	ENST00000345589	protein_coding	KNOWN	CCDS47649	25429	966	321	98444480	98467580	-1	None	DKFZp761L1417, FLJ42643
7	TMEM130	ENSG00000166448	ENST00000461092	processed_transcript	KNOWN	None	25429	None	None	98449148	98467637	-1	None	DKFZp761L1417, FLJ42643
7	TMEM130	ENSG00000166448	ENST00000486839	processed_transcript	KNOWN	None	25429	None	None	98457811	98466917	-1	None	DKFZp761L1417, FLJ42643
7	TMEM130	ENSG00000166448	ENST00000445790	protein_coding	NOVEL	None	25429	139	45	98460718	98468394	-1	None	DKFZp761L1417, FLJ42643
7	TMEM130	ENSG00000166448	ENST00000546258	protein_coding	KNOWN	None	25429	1215	404	98445403	98466917	-1	None	DKFZp761L1417, FLJ42643
19	None	ENSG00000267682	ENST00000592319	sense_intronic	KNOWN	None	None	None	None	37828138	37828645	1	None	None
19	None	ENSG00000266936	ENST00000587831	antisense	KNOWN	None	None	None	None	11121593	11126687	-1	None	None
X	CXorf36	ENSG00000147113	ENST00000398000	protein_coding	KNOWN	CCDS48096	25866	1302	433	45007619	45060146	-1	None	FLJ14103, DIA1R
X	CXorf36	ENSG00000147113	ENST00000477281	processed_transcript	KNOWN	None	25866	None	None	45009145	45051178	-1	None	FLJ14103, DIA1R
X	CXorf36	ENSG00000147113	ENST00000377934	protein_coding	KNOWN	CCDS14266	25866	549	182	45021555	45060146	-1	None	FLJ14103, DIA1R
X	CXorf36	ENSG00000147113	ENST00000492138	processed_transcript	KNOWN	None	25866	None	None	45050638	45051114	-1	None	FLJ14103, DIA1R
19	None	ENSG00000267381	ENST00000591976	lincRNA	KNOWN	None	None	None	None	37978901	37979554	1	None	None
19	RN7SL192P	ENSG00000266352	ENST00000584303	misc_RNA	KNOWN	None	46208	None	None	11122384	11122680	1	None	None
2	SLC8A1-AS1	ENSG00000227028	ENST00000599740	antisense	KNOWN	None	44102	None	None	40013593	40478887	1	None	None
2	SLC8A1-AS1	ENSG00000227028	ENST00000418854	antisense	KNOWN	None	44102	None	None	40146833	40332461	1	None	None
2	SLC8A1-AS1	ENSG00000227028	ENST00000439606	antisense	KNOWN	None	44102	None	None	40269490	40332562	1	None	None
2	SLC8A1-AS1	ENSG00000227028	ENST00000599268	antisense	KNOWN	None	44102	None	None	40292487	40478897	1	None	None
2	SLC8A1-AS1	ENSG00000227028	ENST00000597385	antisense	KNOWN	None	44102	None	None	40292493	40478897	1	None	None
2	SLC8A1-AS1	ENSG00000227028	ENST00000601679	antisense	KNOWN	None	44102	None	None	40299893	40478889	1	None	None
2	SLC8A1-AS1	ENSG00000227028	ENST00000593878	antisense	KNOWN	None	44102	None	None	40314104	40478889	1	None	None
2	SLC8A1-AS1	ENSG00000227028	ENST00000596532	antisense	KNOWN	None	44102	None	None	40314104	40478889	1	None	None
2	SLC8A1-AS1	ENSG00000227028	ENST00000599956	antisense	KNOWN	None	44102	None	None	40314104	40478889	1	None	None
2	SLC8A1-AS1	ENSG00000227028	ENST00000597170	antisense	KNOWN	None	44102	None	None	40314104	40478889	1	None	None
2	SLC8A1-AS1	ENSG00000227028	ENST00000444629	antisense	KNOWN	None	44102	None	None	40332049	40482349	1	None	None
2	SLC8A1-AS1	ENSG00000227028	ENST00000598247	antisense	KNOWN	None	44102	None	None	40341678	40478889	1	None	None
2	SLC8A1-AS1	ENSG00000227028	ENST00000593848	antisense	KNOWN	None	44102	None	None	40342075	40478889	1	None	None
2	SLC8A1-AS1	ENSG00000227028	ENST00000435515	antisense	KNOWN	None	44102	None	None	40342169	40481718	1	None	None
2	SLC8A1-AS1	ENSG00000227028	ENST00000427354	antisense	KNOWN	None	44102	None	None	40437105	40482198	1	None	None
2	SLC8A1-AS1	ENSG00000227028	ENST00000413479	antisense	KNOWN	None	44102	None	None	40447283	40481903	1	None	None
2	SLC8A1-AS1	ENSG00000227028	ENST00000417875	antisense	KNOWN	None	44102	None	None	40478563	40481686	1	None	None
6	None	ENSG00000221332	ENST00000408405	snoRNA	NOVEL	None	None	None	None	76108577	76108783	-1	None	None
19	None	ENSG00000267082	ENST00000588634	antisense	KNOWN	None	None	None	None	11314304	11326844	1	None	None
6	MIR4463	ENSG00000263533	ENST00000580609	miRNA	KNOWN	None	41665	None	None	76138123	76138189	1	None	hsa-mir-4463
6	None	ENSG00000238156	ENST00000455530	lincRNA	KNOWN	None	None	None	None	76164660	76168616	1	None	None
19	None	ENSG00000266916	ENST00000588845	antisense	KNOWN	None	None	None	None	37988063	37997526	-1	None	None
19	None	ENSG00000266916	ENST00000585890	antisense	KNOWN	None	None	None	None	37988066	37989077	-1	None	None
19	None	ENSG00000266916	ENST00000589025	antisense	KNOWN	None	None	None	None	37988259	37997869	-1	None	None
19	None	ENSG00000266916	ENST00000585397	antisense	KNOWN	None	None	None	None	37988265	37997169	-1	None	None
19	None	ENSG00000266916	ENST00000587060	antisense	KNOWN	None	None	None	None	37996481	37997948	-1	None	None
21	TMPRSS2	ENSG00000184012	ENST00000332149	protein_coding	KNOWN	CCDS33564	11876	1479	492	42836478	42880086	-1	None	PRSS10
21	TMPRSS2	ENSG00000184012	ENST00000488556	retained_intron	KNOWN	None	11876	None	None	42837817	42840029	-1	None	PRSS10
21	TMPRSS2	ENSG00000184012	ENST00000458356	protein_coding	KNOWN	CCDS33564	11876	1479	492	42837936	42879909	-1	None	PRSS10
21	TMPRSS2	ENSG00000184012	ENST00000454499	protein_coding	KNOWN	None	11876	1467	488	42839661	42903043	-1	None	PRSS10
21	TMPRSS2	ENSG00000184012	ENST00000469395	retained_intron	KNOWN	None	11876	None	None	42839693	42840764	-1	None	PRSS10
21	TMPRSS2	ENSG00000184012	ENST00000424093	protein_coding	PUTATIVE	None	11876	658	218	42845373	42880019	-1	None	PRSS10
21	TMPRSS2	ENSG00000184012	ENST00000497881	processed_transcript	PUTATIVE	None	11876	None	None	42858394	42880085	-1	None	PRSS10
21	TMPRSS2	ENSG00000184012	ENST00000463138	processed_transcript	KNOWN	None	11876	None	None	42860416	42880041	-1	None	PRSS10
21	TMPRSS2	ENSG00000184012	ENST00000455813	protein_coding	KNOWN	None	11876	238	78	42866283	42878531	-1	None	PRSS10
21	TMPRSS2	ENSG00000184012	ENST00000489201	retained_intron	KNOWN	None	11876	None	None	42901716	42903025	-1	None	PRSS10
21	TMPRSS2	ENSG00000184012	ENST00000398585	protein_coding	KNOWN	CCDS54486	11876	1590	529	42836480	42879992	-1	None	PRSS10
6	None	ENSG00000217680	ENST00000407776	processed_pseudogene	KNOWN	None	None	None	None	76174839	76175286	1	None	None
8	USP17L2	ENSG00000223443	ENST00000333796	protein_coding	KNOWN	CCDS43713	34434	1593	530	11994677	11996586	-1	None	DUB3
5	None	ENSG00000251391	ENST00000510964	lincRNA	KNOWN	None	None	None	None	65594296	65618772	1	None	None
20	SNX21	ENSG00000124104	ENST00000466252	processed_transcript	KNOWN	None	16154	None	None	44462449	44463694	1	C20orf161	dJ337O18.4, SNX-L
20	SNX21	ENSG00000124104	ENST00000462307	protein_coding	KNOWN	CCDS42883	16154	477	158	44462470	44469773	1	C20orf161	dJ337O18.4, SNX-L
20	SNX21	ENSG00000124104	ENST00000472219	processed_transcript	KNOWN	None	16154	None	None	44462470	44470369	1	C20orf161	dJ337O18.4, SNX-L
20	SNX21	ENSG00000124104	ENST00000491381	protein_coding	KNOWN	CCDS13377	16154	1122	373	44462491	44470369	1	C20orf161	dJ337O18.4, SNX-L
20	SNX21	ENSG00000124104	ENST00000342644	protein_coding	KNOWN	CCDS13376	16154	600	199	44462491	44471520	1	C20orf161	dJ337O18.4, SNX-L
20	SNX21	ENSG00000124104	ENST00000372542	protein_coding	NOVEL	None	16154	1095	364	44462534	44470369	1	C20orf161	dJ337O18.4, SNX-L
20	SNX21	ENSG00000124104	ENST00000372541	protein_coding	NOVEL	None	16154	450	149	44462775	44469546	1	C20orf161	dJ337O18.4, SNX-L
20	SNX21	ENSG00000124104	ENST00000344780	processed_transcript	KNOWN	None	16154	None	None	44462790	44471914	1	C20orf161	dJ337O18.4, SNX-L
20	SNX21	ENSG00000124104	ENST00000478230	processed_transcript	KNOWN	None	16154	None	None	44462996	44469810	1	C20orf161	dJ337O18.4, SNX-L
20	SNX21	ENSG00000124104	ENST00000372547	retained_intron	KNOWN	None	16154	None	None	44463216	44471520	1	C20orf161	dJ337O18.4, SNX-L
20	SNX21	ENSG00000124104	ENST00000486336	retained_intron	KNOWN	None	16154	None	None	44463388	44469610	1	C20orf161	dJ337O18.4, SNX-L
20	SNX21	ENSG00000124104	ENST00000465997	processed_transcript	KNOWN	None	16154	None	None	44463672	44469729	1	C20orf161	dJ337O18.4, SNX-L
4	PLK4	ENSG00000142731	ENST00000270861	protein_coding	KNOWN	CCDS3735	11397	2913	970	128802016	128820350	1	STK18	Sak
4	PLK4	ENSG00000142731	ENST00000511942	processed_transcript	KNOWN	None	11397	None	None	128802048	128804671	1	STK18	Sak
4	PLK4	ENSG00000142731	ENST00000503914	retained_intron	KNOWN	None	11397	None	None	128802054	128804625	1	STK18	Sak
4	PLK4	ENSG00000142731	ENST00000515069	protein_coding	NOVEL	None	11397	2679	892	128802064	128820222	1	STK18	Sak
4	PLK4	ENSG00000142731	ENST00000513090	protein_coding	NOVEL	CCDS54803	11397	2817	938	128802082	128819794	1	STK18	Sak
4	PLK4	ENSG00000142731	ENST00000507249	protein_coding	NOVEL	None	11397	2730	909	128802084	128819955	1	STK18	Sak
4	PLK4	ENSG00000142731	ENST00000514379	protein_coding	PUTATIVE	CCDS54804	11397	2790	929	128802387	128819734	1	STK18	Sak
4	PLK4	ENSG00000142731	ENST00000510605	retained_intron	KNOWN	None	11397	None	None	128808489	128812349	1	STK18	Sak
4	PLK4	ENSG00000142731	ENST00000507454	retained_intron	KNOWN	None	11397	None	None	128812152	128813848	1	STK18	Sak
4	PLK4	ENSG00000142731	ENST00000508113	protein_coding	PUTATIVE	None	11397	596	197	128812326	128819641	1	STK18	Sak
4	PLK4	ENSG00000142731	ENST00000510192	retained_intron	KNOWN	None	11397	None	None	128814355	128819697	1	STK18	Sak
5	None	ENSG00000250313	ENST00000508486	lincRNA	KNOWN	None	None	None	None	65803372	65807432	-1	None	None
5	PTCD2	ENSG00000049883	ENST00000380639	protein_coding	KNOWN	CCDS4014	25734	1167	388	71616194	71655122	1	None	FLJ12598
5	PTCD2	ENSG00000049883	ENST00000515198	nonsense_mediated_decay	KNOWN	None	25734	486	161	71616195	71648584	1	None	FLJ12598
5	PTCD2	ENSG00000049883	ENST00000511752	nonsense_mediated_decay	KNOWN	None	25734	282	93	71616200	71634498	1	None	FLJ12598
5	PTCD2	ENSG00000049883	ENST00000486995	nonsense_mediated_decay	KNOWN	None	25734	225	74	71616200	71655055	1	None	FLJ12598
5	PTCD2	ENSG00000049883	ENST00000308077	nonsense_mediated_decay	KNOWN	CCDS4014	25734	1167	388	71616200	71656052	1	None	FLJ12598
5	PTCD2	ENSG00000049883	ENST00000503868	protein_coding	NOVEL	None	25734	840	279	71616203	71655060	1	None	FLJ12598
5	PTCD2	ENSG00000049883	ENST00000510676	protein_coding	NOVEL	None	25734	611	202	71616215	71654211	1	None	FLJ12598
5	PTCD2	ENSG00000049883	ENST00000503315	nonsense_mediated_decay	KNOWN	None	25734	432	143	71616225	71654739	1	None	FLJ12598
5	PTCD2	ENSG00000049883	ENST00000493283	processed_transcript	KNOWN	None	25734	None	None	71616226	71648473	1	None	FLJ12598
5	PTCD2	ENSG00000049883	ENST00000460837	processed_transcript	KNOWN	None	25734	None	None	71631386	71654665	1	None	FLJ12598
5	PTCD2	ENSG00000049883	ENST00000543322	protein_coding	KNOWN	None	25734	486	161	71616195	71654045	1	None	FLJ12598
5	PTCD2	ENSG00000049883	ENST00000536805	protein_coding	KNOWN	None	25734	651	216	71616225	71654739	1	None	FLJ12598
1	ZDHHC18	ENSG00000204160	ENST00000374142	protein_coding	KNOWN	CCDS30650	20712	1167	388	27153201	27182207	1	None	DKFZp667O2416
1	ZDHHC18	ENSG00000204160	ENST00000374141	protein_coding	PUTATIVE	None	20712	762	253	27158495	27180454	1	None	DKFZp667O2416
1	ZDHHC18	ENSG00000204160	ENST00000534643	protein_coding	PUTATIVE	None	20712	474	157	27158511	27177665	1	None	DKFZp667O2416
1	ZDHHC18	ENSG00000204160	ENST00000488397	protein_coding	PUTATIVE	None	20712	484	160	27176853	27184093	1	None	DKFZp667O2416
1	ZDHHC18	ENSG00000204160	ENST00000478902	processed_transcript	KNOWN	None	20712	None	None	27177620	27179702	1	None	DKFZp667O2416
1	NBPF6	ENSG00000186086	ENST00000495380	protein_coding	KNOWN	CCDS44184	31988	1917	638	108992909	109013624	1	None	None
1	NBPF6	ENSG00000186086	ENST00000531446	protein_coding	NOVEL	None	31988	1718	571	108992943	109008017	1	None	None
1	NBPF6	ENSG00000186086	ENST00000444143	protein_coding	KNOWN	CCDS44184	31988	1917	638	108918421	109013624	1	None	None
1	NBPF6	ENSG00000186086	ENST00000370040	protein_coding	KNOWN	None	31988	2004	667	108992904	109013260	1	None	None
1	NBPF6	ENSG00000186086	ENST00000294652	protein_coding	KNOWN	None	31988	372	123	108918421	109013624	1	None	None
9	None	ENSG00000236701	ENST00000447378	processed_pseudogene	KNOWN	None	None	None	None	76263744	76264755	1	None	None
5	None	ENSG00000234838	ENST00000414951	processed_pseudogene	KNOWN	None	None	None	None	65867885	65868374	1	None	None
9	RNA5SP286	ENSG00000212454	ENST00000391152	rRNA	KNOWN	None	43186	None	None	76365888	76365993	-1	RN5S286	None
5	None	ENSG00000248803	ENST00000504903	processed_pseudogene	KNOWN	None	None	None	None	65918696	65919005	1	None	None
X	RNU6-1056P	ENSG00000206723	ENST00000383996	snRNA	KNOWN	None	48019	None	None	48582860	48582966	-1	None	None
X	None	ENSG00000233585	ENST00000419045	processed_pseudogene	KNOWN	None	None	None	None	48634408	48635385	-1	None	None
5	MAST4-IT1	ENSG00000249057	ENST00000514241	sense_intronic	KNOWN	None	41448	None	None	65958159	65958816	1	None	None
X	RNU6-29P	ENSG00000207367	ENST00000384637	snRNA	KNOWN	None	34273	None	None	48635380	48635486	-1	RNU6-29	None
2	None	ENSG00000235653	ENST00000425555	processed_pseudogene	KNOWN	None	None	None	None	40156250	40157138	1	None	None
5	MAST4-AS1	ENSG00000229666	ENST00000451496	antisense	KNOWN	None	40865	None	None	66297211	66299781	-1	None	None
HSCHR6_MHC_DBB	OR2H1	ENSG00000232984	ENST00000443407	protein_coding	KNOWN	None	8252	951	316	29424892	29432039	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_DBB	OR2H1	ENSG00000232984	ENST00000412956	protein_coding	KNOWN	None	8252	951	316	29424899	29432039	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_DBB	OR2H1	ENSG00000232984	ENST00000472712	processed_transcript	KNOWN	None	8252	None	None	29424914	29428797	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_DBB	OR2H1	ENSG00000232984	ENST00000421808	protein_coding	KNOWN	None	8252	951	316	29427482	29432039	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_DBB	OR2H1	ENSG00000232984	ENST00000431658	protein_coding	KNOWN	None	8252	951	316	29429151	29430444	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_DBB	OR2H1	ENSG00000232984	ENST00000492722	processed_transcript	KNOWN	None	8252	None	None	29429206	29430431	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_DBB	OR2H1	ENSG00000232984	ENST00000491531	processed_transcript	KNOWN	None	8252	None	None	29429206	29430431	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_DBB	OR2H1	ENSG00000232984	ENST00000546418	protein_coding	KNOWN	None	8252	951	316	29426164	29432031	1	OR2H6, OR2H8	OR6-2
X	None	ENSG00000184596	ENST00000330085	pseudogene	KNOWN	None	None	None	None	48797263	48798079	1	None	None
2	None	ENSG00000233128	ENST00000420187	lincRNA	KNOWN	None	None	None	None	40973627	40994592	1	None	None
5	None	ENSG00000270107	ENST00000602471	lincRNA	KNOWN	None	None	None	None	66475441	66476415	-1	None	None
17	KRTAP3-1	ENSG00000212901	ENST00000581033	processed_transcript	KNOWN	None	16778	None	None	39164773	39175576	-1	None	KAP3.1
17	KRTAP3-1	ENSG00000212901	ENST00000391588	protein_coding	KNOWN	CCDS32645	16778	297	98	39164776	39165366	-1	None	KAP3.1
2	HNRNPA1P57	ENSG00000237442	ENST00000431359	processed_transcript	KNOWN	None	48787	None	None	41370920	41383954	1	None	None
2	HNRNPA1P57	ENSG00000237442	ENST00000452488	transcribed_processed_pseudogene	KNOWN	None	48787	None	None	41383738	41384695	1	None	None
5	None	ENSG00000251206	ENST00000515077	lincRNA	KNOWN	None	None	None	None	66563850	66566010	1	None	None
X	None	ENSG00000271430	ENST00000603037	sense_intronic	KNOWN	None	None	None	None	73420064	73461983	-1	None	None
19	None	ENSG00000268750	ENST00000597134	protein_coding	NOVEL	None	None	36	11	58331087	58369945	1	None	None
19	None	ENSG00000268750	ENST00000593873	protein_coding	PUTATIVE	None	None	214	70	58331094	58370279	1	None	None
19	None	ENSG00000268750	ENST00000596498	protein_coding	NOVEL	None	None	400	132	58331094	58370309	1	None	None
19	None	ENSG00000268750	ENST00000603271	protein_coding	PUTATIVE	None	None	398	131	58331099	58370181	1	None	None
19	None	ENSG00000268750	ENST00000598031	protein_coding	PUTATIVE	None	None	499	165	58331174	58370279	1	None	None
19	None	ENSG00000268750	ENST00000604231	nonsense_mediated_decay	KNOWN	None	None	183	60	58341680	58370009	1	None	None
6	RNA5SP206	ENSG00000252512	ENST00000516703	rRNA	KNOWN	None	43106	None	None	32046285	32046405	-1	RN5S206	None
2	None	ENSG00000221372	ENST00000408445	miRNA	NOVEL	None	None	None	None	41823526	41823632	1	None	None
HSCHR6_MHC_SSTO	LY6G5B	ENSG00000239497	ENST00000456439	protein_coding	KNOWN	None	13931	639	212	31626842	31631270	1	C6orf19	G5b
HSCHR6_MHC_SSTO	LY6G5B	ENSG00000239497	ENST00000423363	retained_intron	KNOWN	None	13931	None	None	31628103	31631270	1	C6orf19	G5b
HSCHR6_MHC_SSTO	LY6G5B	ENSG00000239497	ENST00000490011	protein_coding	KNOWN	None	13931	606	201	31628675	31631270	1	C6orf19	G5b
6	None	ENSG00000225914	ENST00000425033	antisense	KNOWN	None	None	None	None	32223488	32233615	1	None	None
5	None	ENSG00000249364	ENST00000503106	lincRNA	KNOWN	None	None	None	None	66675206	67070862	1	None	None
5	None	ENSG00000249364	ENST00000514368	lincRNA	KNOWN	None	None	None	None	66915619	67093432	1	None	None
5	None	ENSG00000249364	ENST00000513234	lincRNA	KNOWN	None	None	None	None	67089042	67096886	1	None	None
5	None	ENSG00000249364	ENST00000504068	lincRNA	KNOWN	None	None	None	None	67089046	67101063	1	None	None
5	None	ENSG00000249364	ENST00000515227	lincRNA	KNOWN	None	None	None	None	67089048	67101066	1	None	None
5	None	ENSG00000249364	ENST00000509947	retained_intron	KNOWN	None	None	None	None	67093173	67095905	1	None	None
2	None	ENSG00000252281	ENST00000516472	snoRNA	NOVEL	None	None	None	None	41961517	41961596	1	None	None
2	LDHAP3	ENSG00000236090	ENST00000448312	processed_pseudogene	KNOWN	None	6538	None	None	42046887	42047894	1	LDHAL3	None
7	CRYGN	ENSG00000127377	ENST00000476631	processed_transcript	KNOWN	None	20458	None	None	151125921	151137899	-1	None	None
7	CRYGN	ENSG00000127377	ENST00000462809	processed_transcript	PUTATIVE	None	20458	None	None	151126805	151134002	-1	None	None
7	CRYGN	ENSG00000127377	ENST00000337323	protein_coding	KNOWN	CCDS5926	20458	549	182	151127056	151137130	-1	None	None
7	CRYGN	ENSG00000127377	ENST00000491928	nonsense_mediated_decay	KNOWN	None	20458	378	125	151127087	151137094	-1	None	None
7	CRYGN	ENSG00000127377	ENST00000478106	processed_transcript	KNOWN	None	20458	None	None	151129265	151133359	-1	None	None
17	BECN1	ENSG00000126581	ENST00000361523	protein_coding	KNOWN	CCDS11441	1034	1353	450	40962152	40976281	-1	None	ATG6, VPS30
17	BECN1	ENSG00000126581	ENST00000590099	protein_coding	KNOWN	CCDS11441	1034	1353	450	40962155	40976281	-1	None	ATG6, VPS30
17	BECN1	ENSG00000126581	ENST00000590764	protein_coding	PUTATIVE	None	1034	329	108	40962306	40966611	-1	None	ATG6, VPS30
17	BECN1	ENSG00000126581	ENST00000438274	protein_coding	PUTATIVE	None	1034	840	279	40962326	40976305	-1	None	ATG6, VPS30
17	BECN1	ENSG00000126581	ENST00000588276	protein_coding	NOVEL	None	1034	319	105	40962328	40966691	-1	None	ATG6, VPS30
17	BECN1	ENSG00000126581	ENST00000543382	retained_intron	KNOWN	None	1034	None	None	40962432	40976305	-1	None	ATG6, VPS30
17	BECN1	ENSG00000126581	ENST00000589663	protein_coding	NOVEL	None	1034	399	132	40962688	40970596	-1	None	ATG6, VPS30
17	BECN1	ENSG00000126581	ENST00000587880	nonsense_mediated_decay	KNOWN	None	1034	168	55	40962734	40966007	-1	None	ATG6, VPS30
17	BECN1	ENSG00000126581	ENST00000590185	retained_intron	KNOWN	None	1034	None	None	40962798	40964104	-1	None	ATG6, VPS30
17	BECN1	ENSG00000126581	ENST00000586589	protein_coding	PUTATIVE	None	1034	689	228	40962878	40970670	-1	None	ATG6, VPS30
17	BECN1	ENSG00000126581	ENST00000586754	protein_coding	NOVEL	None	1034	475	157	40963742	40968013	-1	None	ATG6, VPS30
17	BECN1	ENSG00000126581	ENST00000589492	retained_intron	KNOWN	None	1034	None	None	40965921	40967032	-1	None	ATG6, VPS30
17	BECN1	ENSG00000126581	ENST00000590852	protein_coding	PUTATIVE	None	1034	218	71	40966186	40967989	-1	None	ATG6, VPS30
17	BECN1	ENSG00000126581	ENST00000593205	protein_coding	NOVEL	None	1034	530	175	40966617	40976269	-1	None	ATG6, VPS30
17	BECN1	ENSG00000126581	ENST00000589493	retained_intron	KNOWN	None	1034	None	None	40967688	40970700	-1	None	ATG6, VPS30
17	BECN1	ENSG00000126581	ENST00000591085	nonsense_mediated_decay	KNOWN	None	1034	231	76	40970669	40976305	-1	None	ATG6, VPS30
17	BECN1	ENSG00000126581	ENST00000585515	retained_intron	KNOWN	None	1034	None	None	40971342	40976300	-1	None	ATG6, VPS30
17	BECN1	ENSG00000126581	ENST00000591307	retained_intron	KNOWN	None	1034	None	None	40972369	40976271	-1	None	ATG6, VPS30
17	BECN1	ENSG00000126581	ENST00000593112	retained_intron	KNOWN	None	1034	None	None	40972541	40976278	-1	None	ATG6, VPS30
17	BECN1	ENSG00000126581	ENST00000589636	protein_coding	KNOWN	None	1034	178	58	40972812	40985367	-1	None	ATG6, VPS30
17	BECN1	ENSG00000126581	ENST00000591404	protein_coding	KNOWN	None	1034	60	19	40975836	40985349	-1	None	ATG6, VPS30
2	None	ENSG00000236533	ENST00000414823	processed_pseudogene	KNOWN	None	None	None	None	42077343	42077741	-1	None	None
8	LRRC24	ENSG00000254402	ENST00000529415	protein_coding	KNOWN	CCDS34969	28947	1542	513	145747761	145752402	-1	None	LRRC14OS
8	LRRC24	ENSG00000254402	ENST00000533758	protein_coding	NOVEL	None	28947	1533	510	145747823	145752416	-1	None	LRRC14OS
6	HNRNPA1P2	ENSG00000237285	ENST00000432375	processed_pseudogene	KNOWN	None	13958	None	None	32292996	32293955	1	HNRPA1P2	dJ372B18.1
12	PTPN11	ENSG00000179295	ENST00000531326	processed_transcript	PUTATIVE	None	9644	None	None	112856155	112856885	1	NS1	BPTP3, SH-PTP2, SHP-2, PTP2C, SHP2
12	PTPN11	ENSG00000179295	ENST00000392597	protein_coding	KNOWN	CCDS58280	9644	1383	460	112856713	112924727	1	NS1	BPTP3, SH-PTP2, SHP-2, PTP2C, SHP2
12	PTPN11	ENSG00000179295	ENST00000351677	protein_coding	KNOWN	CCDS9163	9644	1782	593	112856718	112947717	1	NS1	BPTP3, SH-PTP2, SHP-2, PTP2C, SHP2
12	PTPN11	ENSG00000179295	ENST00000530818	protein_coding	PUTATIVE	None	9644	326	107	112891133	112895290	1	NS1	BPTP3, SH-PTP2, SHP-2, PTP2C, SHP2
11	AKIP1	ENSG00000166452	ENST00000299576	protein_coding	KNOWN	CCDS55744	1170	552	183	8932686	8941631	1	C11orf17	BCA3
11	AKIP1	ENSG00000166452	ENST00000309377	protein_coding	KNOWN	CCDS7793	1170	633	210	8932687	8941631	1	C11orf17	BCA3
11	AKIP1	ENSG00000166452	ENST00000309357	protein_coding	KNOWN	CCDS55743	1170	552	183	8932701	8941631	1	C11orf17	BCA3
11	AKIP1	ENSG00000166452	ENST00000529876	protein_coding	PUTATIVE	None	1170	507	168	8932736	8939666	1	C11orf17	BCA3
11	AKIP1	ENSG00000166452	ENST00000525005	protein_coding	PUTATIVE	None	1170	588	195	8932739	8939295	1	C11orf17	BCA3
11	AKIP1	ENSG00000166452	ENST00000524577	protein_coding	PUTATIVE	None	1170	538	178	8932746	8938963	1	C11orf17	BCA3
11	AKIP1	ENSG00000166452	ENST00000534506	protein_coding	PUTATIVE	None	1170	507	168	8932746	8939051	1	C11orf17	BCA3
11	AKIP1	ENSG00000166452	ENST00000530281	protein_coding	PUTATIVE	None	1170	303	100	8932835	8940961	1	C11orf17	BCA3
11	AKIP1	ENSG00000166452	ENST00000396648	protein_coding	KNOWN	CCDS55744	1170	552	183	8932885	8941447	1	C11orf17	BCA3
11	AKIP1	ENSG00000166452	ENST00000534147	protein_coding	KNOWN	CCDS7793	1170	633	210	8932990	8941409	1	C11orf17	BCA3
11	AKIP1	ENSG00000166452	ENST00000529942	protein_coding	NOVEL	None	1170	456	151	8933012	8941084	1	C11orf17	BCA3
2	None	ENSG00000207218	ENST00000384489	misc_RNA	NOVEL	None	None	None	None	42084411	42084512	-1	None	None
2	RNU4-63P	ENSG00000223245	ENST00000411313	snRNA	KNOWN	None	46999	None	None	42098411	42098528	1	None	None
17	KRTAP1-5	ENSG00000221852	ENST00000361883	protein_coding	KNOWN	CCDS42321	16777	525	174	39182278	39183454	-1	None	KAP1.5
2	None	ENSG00000214691	ENST00000418836	lincRNA	KNOWN	None	None	None	None	42104214	42105095	1	None	None
2	None	ENSG00000214691	ENST00000398796	lincRNA	KNOWN	None	None	None	None	42104695	42121179	1	None	None
2	None	ENSG00000214691	ENST00000442214	lincRNA	KNOWN	None	None	None	None	42104696	42120186	1	None	None
9	None	ENSG00000213557	ENST00000394891	processed_pseudogene	KNOWN	None	None	None	None	110802494	110802873	1	None	None
6	POLR1C	ENSG00000171453	ENST00000428025	protein_coding	PUTATIVE	None	20194	373	123	43477440	43488048	1	None	RPA40, RPA39, RPA5, RPAC1
6	POLR1C	ENSG00000171453	ENST00000372389	protein_coding	KNOWN	CCDS4901	20194	1041	346	43484760	43489264	1	None	RPA40, RPA39, RPA5, RPAC1
6	POLR1C	ENSG00000171453	ENST00000481352	retained_intron	KNOWN	None	20194	None	None	43484792	43489217	1	None	RPA40, RPA39, RPA5, RPAC1
6	POLR1C	ENSG00000171453	ENST00000512472	retained_intron	KNOWN	None	20194	None	None	43484821	43487471	1	None	RPA40, RPA39, RPA5, RPAC1
6	POLR1C	ENSG00000171453	ENST00000372344	protein_coding	NOVEL	None	20194	891	296	43484826	43489244	1	None	RPA40, RPA39, RPA5, RPAC1
6	POLR1C	ENSG00000171453	ENST00000304004	protein_coding	KNOWN	None	20194	1029	342	43484827	43497323	1	None	RPA40, RPA39, RPA5, RPAC1
6	POLR1C	ENSG00000171453	ENST00000488601	retained_intron	KNOWN	None	20194	None	None	43484836	43488441	1	None	RPA40, RPA39, RPA5, RPAC1
6	POLR1C	ENSG00000171453	ENST00000423780	protein_coding	NOVEL	None	20194	418	138	43484850	43488050	1	None	RPA40, RPA39, RPA5, RPAC1
6	POLR1C	ENSG00000171453	ENST00000455605	retained_intron	KNOWN	None	20194	None	None	43484871	43489232	1	None	RPA40, RPA39, RPA5, RPAC1
Y	TTTY17B	ENSG00000227439	ENST00000441906	lincRNA	KNOWN	None	31889	None	None	26631479	26632610	1	None	NCRNA00141
Y	TRIM60P5Y	ENSG00000224210	ENST00000413946	processed_pseudogene	KNOWN	None	38430	None	None	26640856	26641730	-1	TRIM60PY5	TRIM60P5
19	HOOK2	ENSG00000095066	ENST00000397668	protein_coding	KNOWN	CCDS42508	19885	2160	719	12873817	12886337	-1	None	HK2
19	HOOK2	ENSG00000095066	ENST00000264827	protein_coding	KNOWN	CCDS42507	19885	2154	717	12873818	12886434	-1	None	HK2
19	HOOK2	ENSG00000095066	ENST00000589915	retained_intron	KNOWN	None	19885	None	None	12874177	12874536	-1	None	HK2
19	HOOK2	ENSG00000095066	ENST00000586710	retained_intron	KNOWN	None	19885	None	None	12874515	12876178	-1	None	HK2
19	HOOK2	ENSG00000095066	ENST00000586188	nonsense_mediated_decay	KNOWN	None	19885	215	70	12874573	12883632	-1	None	HK2
19	HOOK2	ENSG00000095066	ENST00000592259	retained_intron	KNOWN	None	19885	None	None	12875162	12877337	-1	None	HK2
19	HOOK2	ENSG00000095066	ENST00000589965	processed_transcript	KNOWN	None	19885	None	None	12875981	12886347	-1	None	HK2
19	HOOK2	ENSG00000095066	ENST00000591839	retained_intron	KNOWN	None	19885	None	None	12876471	12877428	-1	None	HK2
19	HOOK2	ENSG00000095066	ENST00000589398	retained_intron	KNOWN	None	19885	None	None	12876607	12878898	-1	None	HK2
19	HOOK2	ENSG00000095066	ENST00000589400	protein_coding	PUTATIVE	None	19885	810	269	12880770	12889226	-1	None	HK2
19	HOOK2	ENSG00000095066	ENST00000592079	protein_coding	PUTATIVE	None	19885	678	225	12881751	12889271	-1	None	HK2
19	HOOK2	ENSG00000095066	ENST00000586284	retained_intron	KNOWN	None	19885	None	None	12882043	12886353	-1	None	HK2
19	HOOK2	ENSG00000095066	ENST00000590839	protein_coding	PUTATIVE	None	19885	472	156	12882043	12889234	-1	None	HK2
19	HOOK2	ENSG00000095066	ENST00000586719	nonsense_mediated_decay	KNOWN	None	19885	282	93	12882091	12889233	-1	None	HK2
19	HOOK2	ENSG00000095066	ENST00000588052	protein_coding	PUTATIVE	None	19885	383	126	12882209	12884067	-1	None	HK2
19	HOOK2	ENSG00000095066	ENST00000587964	protein_coding	PUTATIVE	None	19885	193	63	12882631	12883494	-1	None	HK2
19	HOOK2	ENSG00000095066	ENST00000587178	protein_coding	PUTATIVE	None	19885	627	208	12883004	12886384	-1	None	HK2
19	HOOK2	ENSG00000095066	ENST00000592808	retained_intron	KNOWN	None	19885	None	None	12884766	12886386	-1	None	HK2
19	HOOK2	ENSG00000095066	ENST00000591251	retained_intron	KNOWN	None	19885	None	None	12884787	12889206	-1	None	HK2
19	HOOK2	ENSG00000095066	ENST00000589134	retained_intron	KNOWN	None	19885	None	None	12884892	12886358	-1	None	HK2
19	HOOK2	ENSG00000095066	ENST00000589765	processed_transcript	KNOWN	None	19885	None	None	12884973	12983554	-1	None	HK2
19	HOOK2	ENSG00000095066	ENST00000591641	retained_intron	KNOWN	None	19885	None	None	12885150	12889260	-1	None	HK2
19	HOOK2	ENSG00000095066	ENST00000593143	retained_intron	KNOWN	None	19885	None	None	12885316	12903396	-1	None	HK2
19	HOOK2	ENSG00000095066	ENST00000592512	retained_intron	KNOWN	None	19885	None	None	12885349	12889223	-1	None	HK2
7	DGKB	ENSG00000136267	ENST00000403951	protein_coding	KNOWN	CCDS47547	2850	2415	804	14184674	14942986	-1	DAGK2	KIAA0718, DGK, DGK-BETA
7	DGKB	ENSG00000136267	ENST00000402815	protein_coding	KNOWN	None	2850	2412	803	14185859	14942315	-1	DAGK2	KIAA0718, DGK, DGK-BETA
7	DGKB	ENSG00000136267	ENST00000407950	protein_coding	KNOWN	None	2850	2391	796	14187934	14942467	-1	DAGK2	KIAA0718, DGK, DGK-BETA
7	DGKB	ENSG00000136267	ENST00000493142	processed_transcript	KNOWN	None	2850	None	None	14188782	14308826	-1	DAGK2	KIAA0718, DGK, DGK-BETA
7	DGKB	ENSG00000136267	ENST00000406247	protein_coding	KNOWN	CCDS47548	2850	2322	773	14215598	14880972	-1	DAGK2	KIAA0718, DGK, DGK-BETA
7	DGKB	ENSG00000136267	ENST00000403963	processed_transcript	KNOWN	None	2850	None	None	14248697	14942624	-1	DAGK2	KIAA0718, DGK, DGK-BETA
7	DGKB	ENSG00000136267	ENST00000471732	processed_transcript	KNOWN	None	2850	None	None	14620528	14775794	-1	DAGK2	KIAA0718, DGK, DGK-BETA
7	DGKB	ENSG00000136267	ENST00000477401	retained_intron	KNOWN	None	2850	None	None	14660766	14942467	-1	DAGK2	KIAA0718, DGK, DGK-BETA
7	DGKB	ENSG00000136267	ENST00000464065	retained_intron	KNOWN	None	2850	None	None	14733702	14758505	-1	DAGK2	KIAA0718, DGK, DGK-BETA
7	DGKB	ENSG00000136267	ENST00000467449	processed_transcript	KNOWN	None	2850	None	None	14775763	14942533	-1	DAGK2	KIAA0718, DGK, DGK-BETA
7	DGKB	ENSG00000136267	ENST00000437998	protein_coding	KNOWN	None	2850	225	74	14775763	15014402	-1	DAGK2	KIAA0718, DGK, DGK-BETA
7	DGKB	ENSG00000136267	ENST00000463981	processed_transcript	KNOWN	None	2850	None	None	14775799	14942991	-1	DAGK2	KIAA0718, DGK, DGK-BETA
7	DGKB	ENSG00000136267	ENST00000399322	protein_coding	KNOWN	CCDS47547	2850	2415	804	14184674	14881075	-1	DAGK2	KIAA0718, DGK, DGK-BETA
7	DGKB	ENSG00000136267	ENST00000258767	protein_coding	KNOWN	None	2850	2415	804	14184674	14881075	-1	DAGK2	KIAA0718, DGK, DGK-BETA
7	DGKB	ENSG00000136267	ENST00000444700	protein_coding	KNOWN	None	2850	2358	785	14188217	14942529	-1	DAGK2	KIAA0718, DGK, DGK-BETA
12	RPS26	ENSG00000197728	ENST00000356464	protein_coding	KNOWN	CCDS31832	10414	348	115	56435637	56438116	1	None	S26
12	RPS26	ENSG00000197728	ENST00000552361	protein_coding	KNOWN	CCDS31832	10414	348	115	56435677	56438007	1	None	S26
12	RPS26	ENSG00000197728	ENST00000548590	retained_intron	KNOWN	None	10414	None	None	56435924	56438007	1	None	S26
2	None	ENSG00000234362	ENST00000427054	lincRNA	KNOWN	None	None	None	None	42158739	42160605	-1	None	None
2	None	ENSG00000234362	ENST00000436551	lincRNA	KNOWN	None	None	None	None	42158759	42160863	-1	None	None
9	SPAG8	ENSG00000137098	ENST00000460836	retained_intron	KNOWN	None	14105	None	None	35808042	35811071	-1	None	hSMP-1, HSD-1, BS-84, SPAG3
9	SPAG8	ENSG00000137098	ENST00000463889	processed_transcript	KNOWN	None	14105	None	None	35808042	35812152	-1	None	hSMP-1, HSD-1, BS-84, SPAG3
9	SPAG8	ENSG00000137098	ENST00000340291	protein_coding	KNOWN	CCDS6592	14105	1506	501	35808042	35812269	-1	None	hSMP-1, HSD-1, BS-84, SPAG3
9	SPAG8	ENSG00000137098	ENST00000475644	nonsense_mediated_decay	KNOWN	None	14105	1281	426	35808044	35812259	-1	None	hSMP-1, HSD-1, BS-84, SPAG3
9	SPAG8	ENSG00000137098	ENST00000489063	processed_transcript	KNOWN	None	14105	None	None	35808128	35809874	-1	None	hSMP-1, HSD-1, BS-84, SPAG3
9	SPAG8	ENSG00000137098	ENST00000484764	protein_coding	PUTATIVE	None	14105	1434	477	35809792	35812185	-1	None	hSMP-1, HSD-1, BS-84, SPAG3
9	SPAG8	ENSG00000137098	ENST00000396638	protein_coding	KNOWN	CCDS43798	14105	1458	485	35809816	35812167	-1	None	hSMP-1, HSD-1, BS-84, SPAG3
9	SPAG8	ENSG00000137098	ENST00000497810	protein_coding	PUTATIVE	None	14105	1451	482	35809833	35812143	-1	None	hSMP-1, HSD-1, BS-84, SPAG3
9	SPAG8	ENSG00000137098	ENST00000479751	processed_transcript	KNOWN	None	14105	None	None	35809864	35811413	-1	None	hSMP-1, HSD-1, BS-84, SPAG3
9	SPAG8	ENSG00000137098	ENST00000495667	nonsense_mediated_decay	KNOWN	None	14105	210	69	35810001	35812170	-1	None	hSMP-1, HSD-1, BS-84, SPAG3
9	SPAG8	ENSG00000137098	ENST00000472605	nonsense_mediated_decay	KNOWN	None	14105	291	96	35810205	35812146	-1	None	hSMP-1, HSD-1, BS-84, SPAG3
9	SPAG8	ENSG00000137098	ENST00000471631	nonsense_mediated_decay	KNOWN	None	14105	210	69	35810253	35812172	-1	None	hSMP-1, HSD-1, BS-84, SPAG3
Y	ZNF736P12Y	ENSG00000232003	ENST00000443152	processed_pseudogene	KNOWN	None	38431	None	None	26646410	26647652	-1	None	None
17	KRTAP1-4	ENSG00000204887	ENST00000377747	protein_coding	KNOWN	CCDS58548	18904	366	121	39185949	39186356	-1	None	KAP1.4
1	SFN	ENSG00000175793	ENST00000339276	protein_coding	KNOWN	CCDS288	10773	747	248	27189633	27190947	1	None	YWHAS
6	COL9A1	ENSG00000112280	ENST00000357250	protein_coding	KNOWN	CCDS4971	2217	2766	921	70924764	71012786	-1	None	None
6	COL9A1	ENSG00000112280	ENST00000320755	protein_coding	KNOWN	CCDS47447	2217	2037	678	70925735	70992912	-1	None	None
6	COL9A1	ENSG00000112280	ENST00000486080	processed_transcript	KNOWN	None	2217	None	None	70926227	70956006	-1	None	None
6	COL9A1	ENSG00000112280	ENST00000489611	processed_transcript	KNOWN	None	2217	None	None	70926446	70990180	-1	None	None
6	COL9A1	ENSG00000112280	ENST00000447041	processed_transcript	KNOWN	None	2217	None	None	70944263	70964461	-1	None	None
6	COL9A1	ENSG00000112280	ENST00000493682	retained_intron	KNOWN	None	2217	None	None	70944612	70970781	-1	None	None
6	COL9A1	ENSG00000112280	ENST00000360859	processed_transcript	KNOWN	None	2217	None	None	70950418	70968345	-1	None	None
6	COL9A1	ENSG00000112280	ENST00000489861	retained_intron	KNOWN	None	2217	None	None	70961869	70964314	-1	None	None
6	COL9A1	ENSG00000112280	ENST00000470652	retained_intron	KNOWN	None	2217	None	None	70983715	70984881	-1	None	None
6	COL9A1	ENSG00000112280	ENST00000370496	protein_coding	KNOWN	None	2217	987	328	70989465	71012773	-1	None	None
6	COL9A1	ENSG00000112280	ENST00000370499	protein_coding	KNOWN	None	2217	2037	678	70925744	70992755	-1	None	None
X	RAB11FIP1P1	ENSG00000228492	ENST00000438337	processed_pseudogene	KNOWN	None	42366	None	None	73422669	73424430	1	None	None
3	TRAT1	ENSG00000163519	ENST00000295756	protein_coding	KNOWN	CCDS33813	30698	561	186	108541545	108573852	1	TCRIM	HSPC062, TRIM
3	TRAT1	ENSG00000163519	ENST00000484927	processed_transcript	PUTATIVE	None	30698	None	None	108541617	108566185	1	TCRIM	HSPC062, TRIM
3	TRAT1	ENSG00000163519	ENST00000426646	protein_coding	NOVEL	None	30698	450	149	108541619	108573714	1	TCRIM	HSPC062, TRIM
3	TRAT1	ENSG00000163519	ENST00000493604	processed_transcript	KNOWN	None	30698	None	None	108541620	108566227	1	TCRIM	HSPC062, TRIM
3	TRAT1	ENSG00000163519	ENST00000478830	processed_transcript	PUTATIVE	None	30698	None	None	108541706	108558172	1	TCRIM	HSPC062, TRIM
11	MRGPRX1	ENSG00000170255	ENST00000526914	processed_transcript	PUTATIVE	None	17962	None	None	18955688	18961054	-1	None	MRGX1
11	MRGPRX1	ENSG00000170255	ENST00000302797	protein_coding	KNOWN	CCDS7846	17962	969	322	18955360	18956556	-1	None	MRGX1
6	RNU6-603P	ENSG00000223335	ENST00000411403	snRNA	KNOWN	None	47566	None	None	32320654	32320760	1	None	None
6	HCG23	ENSG00000228962	ENST00000426643	antisense	KNOWN	None	19713	None	None	32358287	32361463	1	None	dJ1077I5.3
3	ACAP2	ENSG00000114331	ENST00000326793	protein_coding	KNOWN	CCDS33924	16469	2337	778	194995465	195163807	-1	CENTB2	KIAA0041, CNT-B2
3	ACAP2	ENSG00000114331	ENST00000472860	processed_transcript	PUTATIVE	None	16469	None	None	194999763	195000528	-1	CENTB2	KIAA0041, CNT-B2
3	ACAP2	ENSG00000114331	ENST00000466876	retained_intron	KNOWN	None	16469	None	None	195006057	195012474	-1	CENTB2	KIAA0041, CNT-B2
3	ACAP2	ENSG00000114331	ENST00000450200	protein_coding	NOVEL	None	16469	684	227	195013043	195022373	-1	CENTB2	KIAA0041, CNT-B2
3	ACAP2	ENSG00000114331	ENST00000475905	retained_intron	KNOWN	None	16469	None	None	195016175	195022844	-1	CENTB2	KIAA0041, CNT-B2
3	ACAP2	ENSG00000114331	ENST00000484296	retained_intron	KNOWN	None	16469	None	None	195017953	195027594	-1	CENTB2	KIAA0041, CNT-B2
3	ACAP2	ENSG00000114331	ENST00000439758	protein_coding	NOVEL	None	16469	766	254	195022877	195063338	-1	CENTB2	KIAA0041, CNT-B2
3	ACAP2	ENSG00000114331	ENST00000471593	retained_intron	KNOWN	None	16469	None	None	195047061	195057694	-1	CENTB2	KIAA0041, CNT-B2
3	ACAP2	ENSG00000114331	ENST00000423531	protein_coding	NOVEL	None	16469	475	157	195053811	195076941	-1	CENTB2	KIAA0041, CNT-B2
3	ACAP2	ENSG00000114331	ENST00000480906	retained_intron	KNOWN	None	16469	None	None	195056628	195163772	-1	CENTB2	KIAA0041, CNT-B2
3	ACAP2	ENSG00000114331	ENST00000481463	processed_transcript	KNOWN	None	16469	None	None	195063335	195163005	-1	CENTB2	KIAA0041, CNT-B2
3	ACAP2	ENSG00000114331	ENST00000439666	protein_coding	PUTATIVE	None	16469	153	50	195101738	195163584	-1	CENTB2	KIAA0041, CNT-B2
3	ACAP2	ENSG00000114331	ENST00000447662	nonsense_mediated_decay	KNOWN	None	16469	150	49	195101755	195163634	-1	CENTB2	KIAA0041, CNT-B2
3	ACAP2	ENSG00000114331	ENST00000490224	retained_intron	KNOWN	None	16469	None	None	195162522	195163773	-1	CENTB2	KIAA0041, CNT-B2
2	None	ENSG00000226398	ENST00000451514	antisense	KNOWN	None	None	None	None	42242765	42252442	-1	None	None
X	None	ENSG00000271533	ENST00000604070	sense_intronic	KNOWN	None	None	None	None	73429811	73433495	-1	None	None
9	CHCHD4P2	ENSG00000237360	ENST00000431135	processed_pseudogene	KNOWN	None	44490	None	None	110859712	110860131	-1	None	None
Y	TTTY4B	ENSG00000235412	ENST00000420149	lincRNA	KNOWN	None	31891	None	None	26716349	26753172	1	None	LINC00124
19	C19orf68	ENSG00000185453	ENST00000328759	protein_coding	KNOWN	None	34495	1884	627	48673949	48700877	1	None	LOC374920
19	C19orf68	ENSG00000185453	ENST00000593921	processed_transcript	KNOWN	None	34495	None	None	48675179	48678112	1	None	LOC374920
X	MIR421	ENSG00000202566	ENST00000365696	miRNA	KNOWN	None	32793	None	None	73438212	73438296	-1	MIRN421	hsa-mir-421
2	None	ENSG00000224875	ENST00000422013	antisense	KNOWN	None	None	None	None	42370378	42397371	-1	None	None
2	None	ENSG00000224875	ENST00000458490	antisense	KNOWN	None	None	None	None	42396586	42397441	-1	None	None
X	MIR374B	ENSG00000212027	ENST00000390738	miRNA	KNOWN	None	33665	None	None	73438382	73438453	-1	MIRN374B	hsa-mir-374b
Y	None	ENSG00000240566	ENST00000432862	processed_pseudogene	KNOWN	None	None	None	None	26796955	26797681	1	None	None
X	RN7SL648P	ENSG00000265727	ENST00000478418	misc_RNA	KNOWN	None	46664	None	None	73462445	73462736	-1	None	None
2	None	ENSG00000221300	ENST00000408373	snoRNA	NOVEL	None	None	None	None	42667517	42667576	1	None	None
17	KRTAP1-3	ENSG00000221880	ENST00000344363	protein_coding	KNOWN	CCDS42323	16771	504	167	39190142	39191107	-1	None	KAP1.3
X	MIR545	ENSG00000207820	ENST00000385085	miRNA	KNOWN	None	32531	None	None	73506939	73507044	-1	MIRN545	hsa-mir-545
5	ZRSR1	ENSG00000212643	ENST00000391338	protein_coding	KNOWN	None	12456	1440	479	112227313	112228791	1	U2AFBPL, U2AF1P, U2AF1L1	U2AF1-RS1, U2AF1RS1
2	None	ENSG00000232526	ENST00000447826	processed_pseudogene	KNOWN	None	None	None	None	42690279	42691137	-1	None	None
16	None	ENSG00000259006	ENST00000554623	antisense	KNOWN	None	None	None	None	89986235	89989070	-1	None	None
1	GPN2	ENSG00000142751	ENST00000374135	protein_coding	KNOWN	CCDS289	25513	933	310	27202624	27216788	-1	ATPBD1B	FLJ10349
1	GPN2	ENSG00000142751	ENST00000374133	protein_coding	KNOWN	None	25513	396	131	27205867	27213016	-1	ATPBD1B	FLJ10349
1	GPN2	ENSG00000142751	ENST00000477418	retained_intron	KNOWN	None	25513	None	None	27205992	27212832	-1	ATPBD1B	FLJ10349
1	GPN2	ENSG00000142751	ENST00000431781	protein_coding	KNOWN	None	25513	339	112	27210724	27216751	-1	ATPBD1B	FLJ10349
1	GPN2	ENSG00000142751	ENST00000461282	processed_transcript	KNOWN	None	25513	None	None	27212533	27215431	-1	ATPBD1B	FLJ10349
22	C22orf31	ENSG00000100249	ENST00000216071	protein_coding	KNOWN	CCDS13848	26931	873	290	29454660	29457832	-1	None	HS747E2A, bK747E2.1
3	ZBBX	ENSG00000169064	ENST00000392766	protein_coding	KNOWN	CCDS3199	26245	2403	800	166958075	167098089	-1	None	FLJ23049
3	ZBBX	ENSG00000169064	ENST00000455345	protein_coding	KNOWN	CCDS56296	26245	2520	839	166958200	167097578	-1	None	FLJ23049
3	ZBBX	ENSG00000169064	ENST00000494898	nonsense_mediated_decay	KNOWN	None	26245	136	44	166958420	167000230	-1	None	FLJ23049
3	ZBBX	ENSG00000169064	ENST00000492642	nonsense_mediated_decay	KNOWN	None	26245	260	85	166958420	167000247	-1	None	FLJ23049
3	ZBBX	ENSG00000169064	ENST00000392764	protein_coding	PUTATIVE	CCDS56295	26245	2316	771	166958420	167098071	-1	None	FLJ23049
3	ZBBX	ENSG00000169064	ENST00000464922	nonsense_mediated_decay	KNOWN	None	26245	149	48	166958426	167000109	-1	None	FLJ23049
3	ZBBX	ENSG00000169064	ENST00000465071	retained_intron	KNOWN	None	26245	None	None	166958426	167000360	-1	None	FLJ23049
3	ZBBX	ENSG00000169064	ENST00000469220	processed_transcript	PUTATIVE	None	26245	None	None	167034793	167097582	-1	None	FLJ23049
3	ZBBX	ENSG00000169064	ENST00000474464	protein_coding	KNOWN	None	26245	491	162	167068245	167098085	-1	None	FLJ23049
3	ZBBX	ENSG00000169064	ENST00000485651	protein_coding	PUTATIVE	None	26245	206	67	167084602	167098089	-1	None	FLJ23049
3	ZBBX	ENSG00000169064	ENST00000473888	retained_intron	KNOWN	None	26245	None	None	167086244	167099134	-1	None	FLJ23049
3	ZBBX	ENSG00000169064	ENST00000392767	protein_coding	KNOWN	CCDS3199	26245	2403	800	166958117	167090776	-1	None	FLJ23049
3	ZBBX	ENSG00000169064	ENST00000307529	protein_coding	KNOWN	CCDS56296	26245	2520	839	166958200	167090776	-1	None	FLJ23049
6	HLA-DRB9	ENSG00000196301	ENST00000449413	unprocessed_pseudogene	KNOWN	None	4957	None	None	32427598	32441277	-1	HLA-DRB1L, HLA-DR1BL	D6S206, D6S206E
2	None	ENSG00000236913	ENST00000442609	processed_pseudogene	KNOWN	None	None	None	None	42696957	42697406	1	None	None
6	RNU1-61P	ENSG00000251916	ENST00000516107	snRNA	KNOWN	None	48403	None	None	32517717	32517867	-1	None	None
11	MRGPRX2	ENSG00000183695	ENST00000329773	protein_coding	KNOWN	CCDS7847	17983	993	330	19076002	19082228	-1	None	MRGX2
17	KRTAP1-1	ENSG00000188581	ENST00000306271	protein_coding	KNOWN	CCDS42324	16772	534	177	39196811	39197713	-1	None	KAP1.1B, HB2A, KAP1.1, KAP1.1A
2	None	ENSG00000215263	ENST00000399891	processed_pseudogene	KNOWN	None	None	None	None	42759906	42760582	-1	None	None
7	GRM8	ENSG00000179603	ENST00000339582	protein_coding	KNOWN	CCDS5794	4600	2727	908	126078652	126893348	-1	None	GLUR8, GPRC1H, mGlu8, MGLUR8
7	GRM8	ENSG00000179603	ENST00000358373	protein_coding	KNOWN	CCDS47696	4600	2727	908	126078669	126892435	-1	None	GLUR8, GPRC1H, mGlu8, MGLUR8
7	GRM8	ENSG00000179603	ENST00000489939	processed_transcript	KNOWN	None	4600	None	None	126078682	126105353	-1	None	GLUR8, GPRC1H, mGlu8, MGLUR8
7	GRM8	ENSG00000179603	ENST00000341617	nonsense_mediated_decay	KNOWN	None	4600	1506	501	126078746	126883273	-1	None	GLUR8, GPRC1H, mGlu8, MGLUR8
7	GRM8	ENSG00000179603	ENST00000495315	processed_transcript	KNOWN	None	4600	None	None	126078747	126087242	-1	None	GLUR8, GPRC1H, mGlu8, MGLUR8
7	GRM8	ENSG00000179603	ENST00000472701	nonsense_mediated_decay	KNOWN	CCDS47696	4600	2727	908	126079131	126893147	-1	None	GLUR8, GPRC1H, mGlu8, MGLUR8
7	GRM8	ENSG00000179603	ENST00000480995	processed_transcript	KNOWN	None	4600	None	None	126173105	126752374	-1	None	GLUR8, GPRC1H, mGlu8, MGLUR8
7	GRM8	ENSG00000179603	ENST00000448250	processed_transcript	KNOWN	None	4600	None	None	126409975	126758326	-1	None	GLUR8, GPRC1H, mGlu8, MGLUR8
7	GRM8	ENSG00000179603	ENST00000457830	protein_coding	KNOWN	None	4600	881	292	126544163	126891273	-1	None	GLUR8, GPRC1H, mGlu8, MGLUR8
7	GRM8	ENSG00000179603	ENST00000465844	protein_coding	PUTATIVE	None	4600	276	91	126716019	126746706	-1	None	GLUR8, GPRC1H, mGlu8, MGLUR8
7	GRM8	ENSG00000179603	ENST00000465800	processed_transcript	KNOWN	None	4600	None	None	126724343	126735864	-1	None	GLUR8, GPRC1H, mGlu8, MGLUR8
7	GRM8	ENSG00000179603	ENST00000473254	processed_transcript	KNOWN	None	4600	None	None	126730977	126752340	-1	None	GLUR8, GPRC1H, mGlu8, MGLUR8
7	GRM8	ENSG00000179603	ENST00000412160	protein_coding	KNOWN	None	4600	62	19	126883197	126891080	-1	None	GLUR8, GPRC1H, mGlu8, MGLUR8
7	GRM8	ENSG00000179603	ENST00000444921	protein_coding	KNOWN	CCDS5794	4600	2727	908	126078652	126883569	-1	None	GLUR8, GPRC1H, mGlu8, MGLUR8
7	GRM8	ENSG00000179603	ENST00000405249	protein_coding	KNOWN	None	4600	1506	501	126249475	126883258	-1	None	GLUR8, GPRC1H, mGlu8, MGLUR8
8	FAM86B1	ENSG00000186523	ENST00000529146	nonsense_mediated_decay	KNOWN	None	28268	210	69	12039605	12049353	-1	None	MGC16279
8	FAM86B1	ENSG00000186523	ENST00000340537	nonsense_mediated_decay	KNOWN	None	28268	462	153	12039607	12051591	-1	None	MGC16279
8	FAM86B1	ENSG00000186523	ENST00000431227	nonsense_mediated_decay	KNOWN	None	28268	180	59	12039619	12051191	-1	None	MGC16279
8	FAM86B1	ENSG00000186523	ENST00000534187	nonsense_mediated_decay	KNOWN	None	28268	201	66	12039619	12051614	-1	None	MGC16279
8	FAM86B1	ENSG00000186523	ENST00000448228	protein_coding	KNOWN	CCDS59512	28268	891	296	12039960	12051629	-1	None	MGC16279
8	FAM86B1	ENSG00000186523	ENST00000533852	protein_coding	NOVEL	None	28268	993	330	12040065	12051579	-1	None	MGC16279
8	FAM86B1	ENSG00000186523	ENST00000530385	nonsense_mediated_decay	KNOWN	None	28268	318	105	12040630	12051642	-1	None	MGC16279
8	FAM86B1	ENSG00000186523	ENST00000527300	nonsense_mediated_decay	KNOWN	None	28268	309	102	12040902	12051579	-1	None	MGC16279
8	FAM86B1	ENSG00000186523	ENST00000530508	retained_intron	KNOWN	None	28268	None	None	12040950	12043895	-1	None	MGC16279
8	FAM86B1	ENSG00000186523	ENST00000534732	retained_intron	KNOWN	None	28268	None	None	12040962	12051559	-1	None	MGC16279
8	FAM86B1	ENSG00000186523	ENST00000524893	nonsense_mediated_decay	KNOWN	None	28268	201	66	12040989	12051591	-1	None	MGC16279
8	FAM86B1	ENSG00000186523	ENST00000534520	protein_coding	KNOWN	None	28268	462	153	12042658	12051636	-1	None	MGC16279
8	FAM86B1	ENSG00000186523	ENST00000525822	retained_intron	KNOWN	None	28268	None	None	12042743	12049322	-1	None	MGC16279
8	FAM86B1	ENSG00000186523	ENST00000529060	nonsense_mediated_decay	KNOWN	None	28268	307	101	12042885	12051574	-1	None	MGC16279
8	FAM86B1	ENSG00000186523	ENST00000526708	nonsense_mediated_decay	KNOWN	None	28268	177	58	12042885	12051607	-1	None	MGC16279
8	FAM86B1	ENSG00000186523	ENST00000529617	retained_intron	KNOWN	None	28268	None	None	12042964	12051617	-1	None	MGC16279
8	FAM86B1	ENSG00000186523	ENST00000531833	nonsense_mediated_decay	KNOWN	None	28268	327	108	12043005	12051598	-1	None	MGC16279
8	FAM86B1	ENSG00000186523	ENST00000524571	protein_coding	PUTATIVE	None	28268	294	97	12043571	12051576	-1	None	MGC16279
8	FAM86B1	ENSG00000186523	ENST00000533513	protein_coding	PUTATIVE	None	28268	480	159	12043963	12051582	-1	None	MGC16279
8	FAM86B1	ENSG00000186523	ENST00000321602	protein_coding	KNOWN	None	28268	390	129	12040630	12051642	-1	None	MGC16279
9	None	ENSG00000230030	ENST00000453455	lincRNA	KNOWN	None	None	None	None	111014434	111017100	-1	None	None
2	None	ENSG00000194270	ENST00000345515	misc_RNA	NOVEL	None	None	None	None	42865101	42865188	1	None	None
8	C8orf82	ENSG00000213563	ENST00000524821	protein_coding	KNOWN	CCDS34970	33826	651	216	145751117	145754516	-1	None	MGC70857
8	C8orf82	ENSG00000213563	ENST00000313465	protein_coding	KNOWN	None	33826	261	86	145751603	145754476	-1	None	MGC70857
8	C8orf82	ENSG00000213563	ENST00000534680	nonsense_mediated_decay	KNOWN	CCDS34970	33826	651	216	145751636	145754516	-1	None	MGC70857
8	C8orf82	ENSG00000213563	ENST00000532827	protein_coding	PUTATIVE	None	33826	784	260	145752708	145753940	-1	None	MGC70857
8	C8orf82	ENSG00000213563	ENST00000527462	protein_coding	PUTATIVE	None	33826	401	132	145753757	145754446	-1	None	MGC70857
16	PRRT2	ENSG00000167371	ENST00000562148	protein_coding	KNOWN	None	30500	276	91	29823177	29824651	1	None	FLJ25513, DKFZp547J199, IFITMD1
16	PRRT2	ENSG00000167371	ENST00000358758	protein_coding	KNOWN	CCDS10654	30500	1023	340	29823427	29827201	1	None	FLJ25513, DKFZp547J199, IFITMD1
16	PRRT2	ENSG00000167371	ENST00000567659	protein_coding	KNOWN	CCDS58445	30500	1185	394	29823512	29826046	1	None	FLJ25513, DKFZp547J199, IFITMD1
16	PRRT2	ENSG00000167371	ENST00000572820	protein_coding	NOVEL	None	30500	405	134	29823539	29824939	1	None	FLJ25513, DKFZp547J199, IFITMD1
16	PRRT2	ENSG00000167371	ENST00000300797	protein_coding	KNOWN	CCDS58446	30500	900	299	29823564	29827201	1	None	FLJ25513, DKFZp547J199, IFITMD1
16	PRRT2	ENSG00000167371	ENST00000567551	processed_transcript	KNOWN	None	30500	None	None	29823597	29825117	1	None	FLJ25513, DKFZp547J199, IFITMD1
6	HLA-DRB6	ENSG00000229391	ENST00000411500	processed_transcript	KNOWN	None	4954	None	None	32520490	32527779	-1	None	None
6	HLA-DRB6	ENSG00000229391	ENST00000437183	processed_transcript	KNOWN	None	4954	None	None	32520726	32527799	-1	None	None
6	HLA-DRB6	ENSG00000229391	ENST00000437650	transcribed_unprocessed_pseudogene	KNOWN	None	4954	None	None	32520823	32525963	-1	None	None
6	HLA-DRB6	ENSG00000229391	ENST00000440876	unprocessed_pseudogene	KNOWN	None	4954	None	None	32522507	32527799	-1	None	None
2	None	ENSG00000226523	ENST00000372993	processed_pseudogene	KNOWN	None	None	None	None	42907228	42907419	-1	None	None
2	RNU6-137P	ENSG00000200550	ENST00000363680	snRNA	KNOWN	None	47100	None	None	42939880	42939987	1	None	None
22	ATP5L2	ENSG00000249222	ENST00000505920	protein_coding	KNOWN	CCDS54534	13213	303	100	43035809	43036607	-1	ATP5K2	dJ222E13.5
4	FRYL	ENSG00000075539	ENST00000503238	protein_coding	KNOWN	CCDS43227	29127	9042	3013	48499378	48636427	-1	KIAA0826	DKFZp686E205
4	FRYL	ENSG00000075539	ENST00000507873	protein_coding	KNOWN	None	29127	1212	403	48499558	48559722	-1	KIAA0826	DKFZp686E205
4	FRYL	ENSG00000075539	ENST00000503339	retained_intron	KNOWN	None	29127	None	None	48499584	48508629	-1	KIAA0826	DKFZp686E205
4	FRYL	ENSG00000075539	ENST00000512810	processed_transcript	KNOWN	None	29127	None	None	48501271	48522702	-1	KIAA0826	DKFZp686E205
4	FRYL	ENSG00000075539	ENST00000514617	protein_coding	NOVEL	None	29127	4364	1453	48517226	48567001	-1	KIAA0826	DKFZp686E205
4	FRYL	ENSG00000075539	ENST00000513401	retained_intron	KNOWN	None	29127	None	None	48523111	48548776	-1	KIAA0826	DKFZp686E205
4	FRYL	ENSG00000075539	ENST00000512297	processed_transcript	PUTATIVE	None	29127	None	None	48533318	48542552	-1	KIAA0826	DKFZp686E205
4	FRYL	ENSG00000075539	ENST00000502925	retained_intron	KNOWN	None	29127	None	None	48549487	48553585	-1	KIAA0826	DKFZp686E205
4	FRYL	ENSG00000075539	ENST00000507711	protein_coding	PUTATIVE	None	29127	4662	1553	48552519	48782265	-1	KIAA0826	DKFZp686E205
4	FRYL	ENSG00000075539	ENST00000511343	retained_intron	KNOWN	None	29127	None	None	48572844	48573914	-1	KIAA0826	DKFZp686E205
4	FRYL	ENSG00000075539	ENST00000506685	protein_coding	NOVEL	None	29127	1416	471	48582473	48607863	-1	KIAA0826	DKFZp686E205
4	FRYL	ENSG00000075539	ENST00000302806	retained_intron	KNOWN	None	29127	None	None	48619621	48655934	-1	KIAA0826	DKFZp686E205
4	FRYL	ENSG00000075539	ENST00000505759	protein_coding	NOVEL	None	29127	572	189	48622674	48683188	-1	KIAA0826	DKFZp686E205
4	FRYL	ENSG00000075539	ENST00000505437	processed_transcript	PUTATIVE	None	29127	None	None	48636435	48782284	-1	KIAA0826	DKFZp686E205
4	FRYL	ENSG00000075539	ENST00000502520	processed_transcript	PUTATIVE	None	29127	None	None	48636435	48782339	-1	KIAA0826	DKFZp686E205
4	FRYL	ENSG00000075539	ENST00000514783	processed_transcript	KNOWN	None	29127	None	None	48638867	48782288	-1	KIAA0826	DKFZp686E205
4	FRYL	ENSG00000075539	ENST00000509886	processed_transcript	PUTATIVE	None	29127	None	None	48640206	48782288	-1	KIAA0826	DKFZp686E205
4	FRYL	ENSG00000075539	ENST00000515684	processed_transcript	KNOWN	None	29127	None	None	48647986	48782146	-1	KIAA0826	DKFZp686E205
4	FRYL	ENSG00000075539	ENST00000358350	protein_coding	KNOWN	CCDS43227	29127	9042	3013	48499380	48782316	-1	KIAA0826	DKFZp686E205
4	FRYL	ENSG00000075539	ENST00000537810	protein_coding	KNOWN	None	29127	9042	3013	48499380	48782316	-1	KIAA0826	DKFZp686E205
4	FRYL	ENSG00000075539	ENST00000264319	protein_coding	KNOWN	None	29127	1212	403	48499380	48782316	-1	KIAA0826	DKFZp686E205
2	FTOP1	ENSG00000226491	ENST00000419363	processed_pseudogene	KNOWN	None	43759	None	None	43024365	43025852	-1	None	None
HSCHR6_MHC_COX	HLA-G	ENSG00000230413	ENST00000400665	protein_coding	KNOWN	None	4964	1032	343	29788431	29792596	1	None	None
HSCHR6_MHC_COX	HLA-G	ENSG00000230413	ENST00000444098	protein_coding	KNOWN	None	4964	1017	338	29789285	29792596	1	None	None
HSCHR6_MHC_COX	HLA-G	ENSG00000230413	ENST00000445373	protein_coding	KNOWN	None	4964	465	154	29789309	29792596	1	None	None
HSCHR6_MHC_COX	HLA-G	ENSG00000230413	ENST00000486553	nonsense_mediated_decay	KNOWN	None	4964	741	246	29789309	29792596	1	None	None
HSCHR6_MHC_COX	HLA-G	ENSG00000230413	ENST00000478108	retained_intron	KNOWN	None	4964	None	None	29789309	29792596	1	None	None
HSCHR6_MHC_COX	HLA-G	ENSG00000230413	ENST00000452715	protein_coding	KNOWN	None	4964	741	246	29789309	29792596	1	None	None
HSCHR6_MHC_COX	HLA-G	ENSG00000230413	ENST00000546545	protein_coding	KNOWN	None	4964	1017	338	29788443	29792600	1	None	None
16	None	ENSG00000260041	ENST00000562822	lincRNA	KNOWN	None	None	None	None	56143449	56170655	1	None	None
16	None	ENSG00000260041	ENST00000564102	lincRNA	KNOWN	None	None	None	None	56155827	56170912	1	None	None
17	ETV4	ENSG00000175832	ENST00000319349	protein_coding	KNOWN	CCDS11465	3493	1455	484	41605212	41623800	-1	None	E1A-F, E1AF
17	ETV4	ENSG00000175832	ENST00000393664	protein_coding	KNOWN	CCDS11465	3493	1455	484	41605214	41623039	-1	None	E1A-F, E1AF
17	ETV4	ENSG00000175832	ENST00000545954	protein_coding	PUTATIVE	CCDS58553	3493	1338	445	41605646	41623691	-1	None	E1A-F, E1AF
17	ETV4	ENSG00000175832	ENST00000545089	protein_coding	NOVEL	None	3493	1293	430	41605648	41623081	-1	None	E1A-F, E1AF
17	ETV4	ENSG00000175832	ENST00000591713	protein_coding	KNOWN	CCDS11465	3493	1455	484	41605705	41623267	-1	None	E1A-F, E1AF
17	ETV4	ENSG00000175832	ENST00000586826	protein_coding	PUTATIVE	CCDS59292	3493	624	207	41605867	41607802	-1	None	E1A-F, E1AF
17	ETV4	ENSG00000175832	ENST00000590236	retained_intron	KNOWN	None	3493	None	None	41610298	41622770	-1	None	E1A-F, E1AF
17	ETV4	ENSG00000175832	ENST00000585508	retained_intron	KNOWN	None	3493	None	None	41610712	41623683	-1	None	E1A-F, E1AF
17	ETV4	ENSG00000175832	ENST00000587151	retained_intron	KNOWN	None	3493	None	None	41613684	41623393	-1	None	E1A-F, E1AF
17	ETV4	ENSG00000175832	ENST00000586764	protein_coding	KNOWN	None	3493	84	27	41622344	41656988	-1	None	E1A-F, E1AF
17	ETV4	ENSG00000175832	ENST00000538265	protein_coding	KNOWN	CCDS58553	3493	1338	445	41605297	41623267	-1	None	E1A-F, E1AF
HSCHR6_MHC_SSTO	LY6G5C	ENSG00000111971	ENST00000465837	processed_transcript	KNOWN	None	13932	None	None	31634408	31638089	-1	C6orf20	G5c, NG33
HSCHR6_MHC_SSTO	LY6G5C	ENSG00000111971	ENST00000462526	retained_intron	KNOWN	None	13932	None	None	31634408	31638089	-1	C6orf20	G5c, NG33
HSCHR6_MHC_SSTO	LY6G5C	ENSG00000111971	ENST00000324540	protein_coding	KNOWN	None	13932	453	150	31634408	31638102	-1	C6orf20	G5c, NG33
HSCHR6_MHC_SSTO	LY6G5C	ENSG00000111971	ENST00000481444	processed_transcript	KNOWN	None	13932	None	None	31634408	31639200	-1	C6orf20	G5c, NG33
HSCHR6_MHC_SSTO	LY6G5C	ENSG00000111971	ENST00000484710	processed_transcript	KNOWN	None	13932	None	None	31634408	31640931	-1	C6orf20	G5c, NG33
HSCHR6_MHC_SSTO	LY6G5C	ENSG00000111971	ENST00000450798	protein_coding	KNOWN	None	13932	677	224	31634408	31641761	-1	C6orf20	G5c, NG33
HSCHR6_MHC_SSTO	LY6G5C	ENSG00000111971	ENST00000464853	processed_transcript	KNOWN	None	13932	None	None	31634408	31641761	-1	C6orf20	G5c, NG33
HSCHR6_MHC_SSTO	LY6G5C	ENSG00000111971	ENST00000495209	processed_transcript	KNOWN	None	13932	None	None	31639072	31639684	-1	C6orf20	G5c, NG33
HSCHR6_MHC_SSTO	LY6G5C	ENSG00000111971	ENST00000551004	protein_coding	KNOWN	None	13932	447	148	31634408	31641761	-1	C6orf20	G5c, NG33
19	ZNF114	ENSG00000178150	ENST00000597695	protein_coding	PUTATIVE	None	12894	1152	383	48675575	48790833	1	None	MGC17986
19	ZNF114	ENSG00000178150	ENST00000595607	protein_coding	KNOWN	CCDS12713	12894	1254	417	48773359	48790865	1	None	MGC17986
19	ZNF114	ENSG00000178150	ENST00000600687	protein_coding	KNOWN	CCDS12713	12894	1254	417	48774313	48790327	1	None	MGC17986
19	ZNF114	ENSG00000178150	ENST00000594024	protein_coding	NOVEL	None	12894	342	113	48774629	48789085	1	None	MGC17986
19	ZNF114	ENSG00000178150	ENST00000595408	protein_coding	NOVEL	None	12894	395	130	48774639	48789138	1	None	MGC17986
19	ZNF114	ENSG00000178150	ENST00000601320	protein_coding	KNOWN	None	12894	182	59	48774880	48785662	1	None	MGC17986
19	ZNF114	ENSG00000178150	ENST00000598898	retained_intron	KNOWN	None	12894	None	None	48785419	48789033	1	None	MGC17986
19	ZNF114	ENSG00000178150	ENST00000315849	protein_coding	KNOWN	CCDS12713	12894	1254	417	48774654	48790863	1	None	MGC17986
2	None	ENSG00000232202	ENST00000453565	processed_pseudogene	KNOWN	None	None	None	None	43053462	43054757	-1	None	None
2	None	ENSG00000224739	ENST00000457457	lincRNA	KNOWN	None	None	None	None	43228495	43233200	-1	None	None
16	None	ENSG00000261013	ENST00000565441	lincRNA	KNOWN	None	None	None	None	56217638	56220218	-1	None	None
6	MTHFD1L	ENSG00000120254	ENST00000367321	protein_coding	KNOWN	CCDS5228	21055	2937	978	151186685	151423023	1	FTHFSDC1	DKFZP586G1517, FLJ21145
6	MTHFD1L	ENSG00000120254	ENST00000367308	protein_coding	KNOWN	None	21055	996	331	151187080	151247289	1	FTHFSDC1	DKFZP586G1517, FLJ21145
6	MTHFD1L	ENSG00000120254	ENST00000441122	protein_coding	KNOWN	None	21055	381	126	151187642	151258051	1	FTHFSDC1	DKFZP586G1517, FLJ21145
6	MTHFD1L	ENSG00000120254	ENST00000423867	protein_coding	KNOWN	None	21055	342	113	151187693	151209009	1	FTHFSDC1	DKFZP586G1517, FLJ21145
6	MTHFD1L	ENSG00000120254	ENST00000443074	protein_coding	KNOWN	None	21055	363	120	151203946	151220136	1	FTHFSDC1	DKFZP586G1517, FLJ21145
6	MTHFD1L	ENSG00000120254	ENST00000425276	protein_coding	KNOWN	None	21055	363	120	151203949	151220136	1	FTHFSDC1	DKFZP586G1517, FLJ21145
6	MTHFD1L	ENSG00000120254	ENST00000421497	protein_coding	KNOWN	None	21055	130	42	151226806	151234084	1	FTHFSDC1	DKFZP586G1517, FLJ21145
6	MTHFD1L	ENSG00000120254	ENST00000478643	processed_transcript	KNOWN	None	21055	None	None	151293084	151331094	1	FTHFSDC1	DKFZP586G1517, FLJ21145
6	MTHFD1L	ENSG00000120254	ENST00000420192	protein_coding	KNOWN	None	21055	291	96	151336016	151343491	1	FTHFSDC1	DKFZP586G1517, FLJ21145
6	MTHFD1L	ENSG00000120254	ENST00000453602	protein_coding	KNOWN	None	21055	279	92	151355668	151363200	1	FTHFSDC1	DKFZP586G1517, FLJ21145
6	MTHFD1L	ENSG00000120254	ENST00000450635	protein_coding	KNOWN	None	21055	174	57	151358110	151363194	1	FTHFSDC1	DKFZP586G1517, FLJ21145
6	MTHFD1L	ENSG00000120254	ENST00000367307	protein_coding	KNOWN	CCDS56457	21055	828	275	151186691	151220043	1	FTHFSDC1	DKFZP586G1517, FLJ21145
2	None	ENSG00000231826	ENST00000422351	lincRNA	KNOWN	None	None	None	None	43254992	43266682	-1	None	None
2	None	ENSG00000231826	ENST00000449766	lincRNA	KNOWN	None	None	None	None	43259640	43266686	-1	None	None
2	None	ENSG00000231826	ENST00000425212	lincRNA	KNOWN	None	None	None	None	43260372	43266680	-1	None	None
19	MIR518B	ENSG00000207862	ENST00000385127	miRNA	KNOWN	None	32106	None	None	54205991	54206073	1	MIRN518B	hsa-mir-518b
16	None	ENSG00000261439	ENST00000567381	antisense	KNOWN	None	None	None	None	56226526	56228430	-1	None	None
22	A4GALT	ENSG00000128274	ENST00000401850	protein_coding	KNOWN	CCDS14041	18149	1062	353	43088127	43090992	-1	None	A14GALT, Gb3S, P(k)
22	A4GALT	ENSG00000128274	ENST00000249005	protein_coding	KNOWN	CCDS14041	18149	1062	353	43088127	43091639	-1	None	A14GALT, Gb3S, P(k)
22	A4GALT	ENSG00000128274	ENST00000381278	protein_coding	KNOWN	CCDS14041	18149	1062	353	43088128	43091639	-1	None	A14GALT, Gb3S, P(k)
22	A4GALT	ENSG00000128274	ENST00000483026	processed_transcript	KNOWN	None	18149	None	None	43089977	43091639	-1	None	A14GALT, Gb3S, P(k)
22	A4GALT	ENSG00000128274	ENST00000465765	processed_transcript	KNOWN	None	18149	None	None	43091177	43117304	-1	None	A14GALT, Gb3S, P(k)
1	None	ENSG00000254154	ENST00000354921	processed_transcript	KNOWN	None	None	None	None	177897923	177991679	-1	None	None
1	None	ENSG00000254154	ENST00000466953	retained_intron	KNOWN	None	None	None	None	177897926	177991722	-1	None	None
1	None	ENSG00000254154	ENST00000464428	retained_intron	KNOWN	None	None	None	None	177897926	178007142	-1	None	None
1	None	ENSG00000254154	ENST00000528461	nonsense_mediated_decay	KNOWN	None	None	951	316	177898993	177953438	-1	None	None
16	MIR3935	ENSG00000265281	ENST00000583472	miRNA	KNOWN	None	38918	None	None	56279432	56279535	1	None	hsa-mir-3935
17	KRTAP2-1	ENSG00000212725	ENST00000391419	protein_coding	KNOWN	CCDS42325	16775	387	128	39202793	39203568	-1	None	KAP2.1A
17	KRTAP2-1	ENSG00000212725	ENST00000542137	protein_coding	KNOWN	None	16775	375	124	39203043	39203519	-1	None	KAP2.1A
22	KREMEN1	ENSG00000183762	ENST00000400335	protein_coding	KNOWN	CCDS43000	17550	1377	458	29469066	29542808	1	KREMEN	KRM1
22	KREMEN1	ENSG00000183762	ENST00000327813	protein_coding	KNOWN	CCDS13849	17550	1479	492	29469106	29564321	1	KREMEN	KRM1
22	KREMEN1	ENSG00000183762	ENST00000407188	protein_coding	KNOWN	None	17550	1422	473	29469119	29538100	1	KREMEN	KRM1
22	KREMEN1	ENSG00000183762	ENST00000453585	nonsense_mediated_decay	KNOWN	None	17550	248	81	29517429	29534759	1	KREMEN	KRM1
22	KREMEN1	ENSG00000183762	ENST00000474001	retained_intron	KNOWN	None	17550	None	None	29521185	29534630	1	KREMEN	KRM1
22	KREMEN1	ENSG00000183762	ENST00000479755	processed_transcript	KNOWN	None	17550	None	None	29538018	29550757	1	KREMEN	KRM1
22	KREMEN1	ENSG00000183762	ENST00000400338	protein_coding	KNOWN	None	17550	1428	475	29469066	29542801	1	KREMEN	KRM1
17	H3F3B	ENSG00000132475	ENST00000254810	protein_coding	KNOWN	CCDS11729	4765	411	136	73772515	73775860	-1	None	H3.3B
17	H3F3B	ENSG00000132475	ENST00000593254	processed_transcript	KNOWN	None	4765	None	None	73774101	73775859	-1	None	H3.3B
17	H3F3B	ENSG00000132475	ENST00000586518	retained_intron	KNOWN	None	4765	None	None	73774153	73775853	-1	None	H3.3B
17	H3F3B	ENSG00000132475	ENST00000592643	protein_coding	PUTATIVE	None	4765	342	113	73774331	73775839	-1	None	H3.3B
17	H3F3B	ENSG00000132475	ENST00000591890	protein_coding	PUTATIVE	None	4765	279	92	73774406	73775840	-1	None	H3.3B
17	H3F3B	ENSG00000132475	ENST00000589949	retained_intron	KNOWN	None	4765	None	None	73774534	73775847	-1	None	H3.3B
17	H3F3B	ENSG00000132475	ENST00000587560	protein_coding	KNOWN	CCDS11729	4765	411	136	73774648	73775367	-1	None	H3.3B
17	H3F3B	ENSG00000132475	ENST00000589599	protein_coding	KNOWN	CCDS11729	4765	411	136	73774655	73775861	-1	None	H3.3B
17	H3F3B	ENSG00000132475	ENST00000586607	protein_coding	KNOWN	CCDS11729	4765	411	136	73774657	73781567	-1	None	H3.3B
17	H3F3B	ENSG00000132475	ENST00000586270	protein_coding	KNOWN	None	4765	396	131	73774691	73775684	-1	None	H3.3B
17	H3F3B	ENSG00000132475	ENST00000587171	protein_coding	PUTATIVE	None	4765	454	150	73774719	73775859	-1	None	H3.3B
17	H3F3B	ENSG00000132475	ENST00000589417	retained_intron	KNOWN	None	4765	None	None	73774728	73775860	-1	None	H3.3B
17	H3F3B	ENSG00000132475	ENST00000591893	retained_intron	KNOWN	None	4765	None	None	73779188	73781974	-1	None	H3.3B
16	None	ENSG00000260198	ENST00000564074	sense_intronic	KNOWN	None	None	None	None	56334528	56336816	1	None	None
16	None	ENSG00000272372	ENST00000606772	antisense	KNOWN	None	None	None	None	56385798	56387436	-1	None	None
16	None	ENSG00000260621	ENST00000563090	antisense	KNOWN	None	None	None	None	56443232	56445595	1	None	None
2	None	ENSG00000233978	ENST00000438736	lincRNA	KNOWN	None	None	None	None	43268332	43270921	-1	None	None
19	CYP2B6	ENSG00000197408	ENST00000324071	protein_coding	KNOWN	CCDS12570	2615	1476	491	41497204	41524303	1	CYP2B	CPB6, CYPIIB6
19	CYP2B6	ENSG00000197408	ENST00000598834	processed_transcript	KNOWN	None	2615	None	None	41497309	41513436	1	CYP2B	CPB6, CYPIIB6
19	CYP2B6	ENSG00000197408	ENST00000593831	protein_coding	PUTATIVE	None	2615	768	255	41509851	41523278	1	CYP2B	CPB6, CYPIIB6
19	CYP2B6	ENSG00000197408	ENST00000594187	retained_intron	KNOWN	None	2615	None	None	41510284	41513080	1	CYP2B	CPB6, CYPIIB6
19	CYP2B6	ENSG00000197408	ENST00000597612	retained_intron	KNOWN	None	2615	None	None	41515582	41523752	1	CYP2B	CPB6, CYPIIB6
19	CYP2B6	ENSG00000197408	ENST00000330446	protein_coding	KNOWN	None	2615	876	291	41509851	41523278	1	CYP2B	CPB6, CYPIIB6
2	RNU6-242P	ENSG00000207087	ENST00000384359	snRNA	KNOWN	None	47205	None	None	43318526	43318632	-1	None	None
16	None	ENSG00000260823	ENST00000569778	lincRNA	KNOWN	None	None	None	None	56643413	56645287	-1	None	None
5	DCP2	ENSG00000172795	ENST00000515408	protein_coding	KNOWN	CCDS56377	24452	1158	385	112312399	112355820	1	None	NUDT20
5	DCP2	ENSG00000172795	ENST00000513585	protein_coding	PUTATIVE	None	24452	1207	401	112312407	112349546	1	None	NUDT20
5	DCP2	ENSG00000172795	ENST00000389063	protein_coding	KNOWN	CCDS34210	24452	1263	420	112312433	112356667	1	None	NUDT20
5	DCP2	ENSG00000172795	ENST00000510046	retained_intron	KNOWN	None	24452	None	None	112312491	112321707	1	None	NUDT20
5	DCP2	ENSG00000172795	ENST00000504961	processed_transcript	PUTATIVE	None	24452	None	None	112312510	112320348	1	None	NUDT20
5	DCP2	ENSG00000172795	ENST00000512751	nonsense_mediated_decay	KNOWN	None	24452	225	74	112312639	112343686	1	None	NUDT20
5	DCP2	ENSG00000172795	ENST00000502635	retained_intron	KNOWN	None	24452	None	None	112321529	112336912	1	None	NUDT20
5	DCP2	ENSG00000172795	ENST00000508359	retained_intron	KNOWN	None	24452	None	None	112336823	112344004	1	None	NUDT20
5	DCP2	ENSG00000172795	ENST00000543319	protein_coding	KNOWN	None	24452	630	209	112312479	112349546	1	None	NUDT20
2	None	ENSG00000230587	ENST00000434020	lincRNA	KNOWN	None	None	None	None	43324884	43329829	-1	None	None
17	KRTAP2-2	ENSG00000214518	ENST00000398477	protein_coding	KNOWN	CCDS54122	18905	372	123	39210750	39211482	-1	None	KAP2.2
17	KRTAP2-2	ENSG00000214518	ENST00000542910	protein_coding	KNOWN	None	18905	390	129	39211002	39211463	-1	None	KAP2.2
16	MT1L	ENSG00000260549	ENST00000565768	processed_transcript	KNOWN	None	7404	None	None	56651388	56652730	1	MT1	MTF, MT1R
16	MT1L	ENSG00000260549	ENST00000566367	unitary_pseudogene	KNOWN	None	7404	None	None	56651475	56652140	1	MT1	MTF, MT1R
1	GPATCH3	ENSG00000198746	ENST00000445019	protein_coding	KNOWN	None	25720	230	75	27216979	27219939	-1	GPATC3	FLJ12455
1	GPATCH3	ENSG00000198746	ENST00000361720	protein_coding	KNOWN	CCDS290	25720	1578	525	27216980	27226957	-1	GPATC3	FLJ12455
1	GPATCH3	ENSG00000198746	ENST00000450844	protein_coding	KNOWN	None	25720	385	127	27217548	27219383	-1	GPATC3	FLJ12455
2	None	ENSG00000234936	ENST00000423354	antisense	KNOWN	None	None	None	None	43456712	43460533	1	None	None
X	MIR374A	ENSG00000199168	ENST00000362298	miRNA	KNOWN	None	31788	None	None	73507121	73507192	-1	MIRN374, MIRN374A	hsa-mir-374, hsa-mir-374a
16	None	ENSG00000261317	ENST00000565150	antisense	KNOWN	None	None	None	None	90036199	90038952	1	None	None
X	None	ENSG00000226515	ENST00000441858	processed_pseudogene	KNOWN	None	None	None	None	73562548	73562695	-1	None	None
2	RNU6-958P	ENSG00000252804	ENST00000516995	snRNA	KNOWN	None	47921	None	None	43635446	43635551	1	None	None
13	KBTBD6	ENSG00000165572	ENST00000379485	protein_coding	KNOWN	CCDS9376	25340	2025	674	41701705	41706882	-1	None	DKFZp547E1912
13	KBTBD6	ENSG00000165572	ENST00000499385	protein_coding	KNOWN	None	25340	1827	608	41704413	41706882	-1	None	DKFZp547E1912
19	PSG4	ENSG00000243137	ENST00000405312	protein_coding	KNOWN	CCDS46093	9521	1260	419	43696854	43709926	-1	None	None
19	PSG4	ENSG00000243137	ENST00000490769	retained_intron	KNOWN	None	9521	None	None	43696890	43699038	-1	None	None
19	PSG4	ENSG00000243137	ENST00000244295	protein_coding	KNOWN	CCDS33039	9521	981	326	43696903	43709715	-1	None	None
19	PSG4	ENSG00000243137	ENST00000597374	protein_coding	PUTATIVE	None	9521	775	257	43697758	43702231	-1	None	None
19	PSG4	ENSG00000243137	ENST00000597349	retained_intron	KNOWN	None	9521	None	None	43698107	43699301	-1	None	None
19	PSG4	ENSG00000243137	ENST00000596907	protein_coding	NOVEL	None	9521	877	291	43698492	43709787	-1	None	None
19	PSG4	ENSG00000243137	ENST00000599391	protein_coding	NOVEL	None	9521	540	179	43698550	43709703	-1	None	None
19	PSG4	ENSG00000243137	ENST00000601041	nonsense_mediated_decay	KNOWN	None	9521	159	52	43698558	43709785	-1	None	None
19	PSG4	ENSG00000243137	ENST00000599746	protein_coding	NOVEL	None	9521	731	242	43698661	43708403	-1	None	None
19	PSG4	ENSG00000243137	ENST00000595949	nonsense_mediated_decay	KNOWN	None	9521	123	40	43699151	43709764	-1	None	None
19	PSG4	ENSG00000243137	ENST00000599371	protein_coding	PUTATIVE	None	9521	289	95	43700610	43702426	-1	None	None
19	PSG4	ENSG00000243137	ENST00000495316	retained_intron	KNOWN	None	9521	None	None	43701896	43708203	-1	None	None
19	PSG4	ENSG00000243137	ENST00000596199	retained_intron	KNOWN	None	9521	None	None	43702067	43709790	-1	None	None
19	PSG4	ENSG00000243137	ENST00000451895	protein_coding	PUTATIVE	None	9521	757	251	43702149	43709790	-1	None	None
19	PSG4	ENSG00000243137	ENST00000600572	protein_coding	PUTATIVE	None	9521	235	77	43702410	43708766	-1	None	None
19	PSG4	ENSG00000243137	ENST00000597912	retained_intron	KNOWN	None	9521	None	None	43707241	43711451	-1	None	None
19	PSG4	ENSG00000243137	ENST00000433626	protein_coding	KNOWN	None	9521	981	326	43696863	43709820	-1	None	None
2	None	ENSG00000207411	ENST00000384680	misc_RNA	NOVEL	None	None	None	None	43848017	43848123	-1	None	None
X	None	ENSG00000213269	ENST00000393214	processed_pseudogene	KNOWN	None	None	None	None	73595960	73596720	-1	None	None
2	None	ENSG00000223658	ENST00000475092	processed_pseudogene	KNOWN	None	None	None	None	43902519	43903461	-1	None	None
2	None	ENSG00000223658	ENST00000542399	processed_pseudogene	KNOWN	None	None	None	None	43902292	43903461	-1	None	None
17	ARRB2	ENSG00000141480	ENST00000269260	protein_coding	KNOWN	CCDS11050	712	1230	409	4613784	4624766	1	ARR2	BARR2, DKFZp686L0365
17	ARRB2	ENSG00000141480	ENST00000574502	nonsense_mediated_decay	KNOWN	None	712	195	64	4613891	4622708	1	ARR2	BARR2, DKFZp686L0365
17	ARRB2	ENSG00000141480	ENST00000574954	protein_coding	PUTATIVE	None	712	654	217	4613925	4624391	1	ARR2	BARR2, DKFZp686L0365
17	ARRB2	ENSG00000141480	ENST00000570718	processed_transcript	KNOWN	None	712	None	None	4613927	4619834	1	ARR2	BARR2, DKFZp686L0365
17	ARRB2	ENSG00000141480	ENST00000570739	processed_transcript	KNOWN	None	712	None	None	4613927	4621236	1	ARR2	BARR2, DKFZp686L0365
17	ARRB2	ENSG00000141480	ENST00000346341	protein_coding	NOVEL	CCDS58505	712	1221	406	4613929	4624794	1	ARR2	BARR2, DKFZp686L0365
17	ARRB2	ENSG00000141480	ENST00000572457	protein_coding	PUTATIVE	None	712	654	217	4613938	4624777	1	ARR2	BARR2, DKFZp686L0365
17	ARRB2	ENSG00000141480	ENST00000574888	retained_intron	KNOWN	None	712	None	None	4613950	4619768	1	ARR2	BARR2, DKFZp686L0365
17	ARRB2	ENSG00000141480	ENST00000575131	retained_intron	KNOWN	None	712	None	None	4613956	4620674	1	ARR2	BARR2, DKFZp686L0365
17	ARRB2	ENSG00000141480	ENST00000571791	retained_intron	KNOWN	None	712	None	None	4613977	4620357	1	ARR2	BARR2, DKFZp686L0365
17	ARRB2	ENSG00000141480	ENST00000572497	nonsense_mediated_decay	KNOWN	None	712	225	74	4613986	4619810	1	ARR2	BARR2, DKFZp686L0365
17	ARRB2	ENSG00000141480	ENST00000573886	retained_intron	KNOWN	None	712	None	None	4613986	4621665	1	ARR2	BARR2, DKFZp686L0365
17	ARRB2	ENSG00000141480	ENST00000381488	protein_coding	KNOWN	CCDS11051	712	1185	394	4613988	4624356	1	ARR2	BARR2, DKFZp686L0365
17	ARRB2	ENSG00000141480	ENST00000412477	protein_coding	NOVEL	CCDS58504	712	1293	430	4613988	4624791	1	ARR2	BARR2, DKFZp686L0365
17	ARRB2	ENSG00000141480	ENST00000571428	protein_coding	PUTATIVE	None	712	339	112	4613992	4622713	1	ARR2	BARR2, DKFZp686L0365
17	ARRB2	ENSG00000141480	ENST00000575877	protein_coding	PUTATIVE	CCDS59276	712	993	330	4613994	4624791	1	ARR2	BARR2, DKFZp686L0365
17	ARRB2	ENSG00000141480	ENST00000576235	nonsense_mediated_decay	KNOWN	None	712	591	196	4614019	4623702	1	ARR2	BARR2, DKFZp686L0365
17	ARRB2	ENSG00000141480	ENST00000572782	retained_intron	KNOWN	None	712	None	None	4617846	4619297	1	ARR2	BARR2, DKFZp686L0365
17	ARRB2	ENSG00000141480	ENST00000571206	protein_coding	PUTATIVE	None	712	654	217	4618884	4624433	1	ARR2	BARR2, DKFZp686L0365
17	ARRB2	ENSG00000141480	ENST00000577054	retained_intron	KNOWN	None	712	None	None	4620731	4621444	1	ARR2	BARR2, DKFZp686L0365
Y	TRIM60P10Y	ENSG00000232976	ENST00000425589	processed_pseudogene	KNOWN	None	38462	None	None	26805484	26806553	1	TRIM60PY10	TRIM60P10
X	RN7SL790P	ENSG00000239745	ENST00000474043	misc_RNA	KNOWN	None	46806	None	None	73610527	73610822	1	None	None
12	RNFT2	ENSG00000135119	ENST00000257575	protein_coding	KNOWN	CCDS44987	25905	1335	444	117176096	117289567	1	TMEM118	FLJ14627
12	RNFT2	ENSG00000135119	ENST00000407967	protein_coding	KNOWN	CCDS9180	25905	1263	420	117176096	117291436	1	TMEM118	FLJ14627
12	RNFT2	ENSG00000135119	ENST00000319176	protein_coding	PUTATIVE	None	25905	966	321	117176116	117290750	1	TMEM118	FLJ14627
12	RNFT2	ENSG00000135119	ENST00000552920	retained_intron	KNOWN	None	25905	None	None	117176121	117178644	1	TMEM118	FLJ14627
12	RNFT2	ENSG00000135119	ENST00000547718	nonsense_mediated_decay	KNOWN	None	25905	126	41	117176143	117290746	1	TMEM118	FLJ14627
12	RNFT2	ENSG00000135119	ENST00000551251	processed_transcript	KNOWN	None	25905	None	None	117273802	117290750	1	TMEM118	FLJ14627
12	RNFT2	ENSG00000135119	ENST00000392549	protein_coding	KNOWN	CCDS44987	25905	1335	444	117176096	117291434	1	TMEM118	FLJ14627
2	None	ENSG00000229695	ENST00000433596	processed_pseudogene	KNOWN	None	None	None	None	43907604	43908761	-1	None	None
X	PRKRIRP1	ENSG00000230665	ENST00000398672	processed_pseudogene	KNOWN	None	39563	None	None	73616706	73619385	-1	None	None
Y	ZNF736P2Y	ENSG00000226270	ENST00000416040	processed_pseudogene	KNOWN	None	37727	None	None	26829804	26831082	1	ZNF736P2	None
2	RN7SKP66	ENSG00000252490	ENST00000516681	misc_RNA	KNOWN	None	45790	None	None	43999259	43999489	-1	None	None
2	RNU6-1048P	ENSG00000200924	ENST00000364054	snRNA	KNOWN	None	48011	None	None	44119829	44119935	1	None	None
1	FAM102B	ENSG00000162636	ENST00000370035	protein_coding	KNOWN	CCDS30786	27637	1083	360	109102711	109181949	1	None	DKFZp779B126, SYM-3B
1	FAM102B	ENSG00000162636	ENST00000405454	protein_coding	PUTATIVE	None	27637	1068	355	109102711	109187522	1	None	DKFZp779B126, SYM-3B
1	FAM102B	ENSG00000162636	ENST00000483371	retained_intron	KNOWN	None	27637	None	None	109167287	109181944	1	None	DKFZp779B126, SYM-3B
2	None	ENSG00000219391	ENST00000403786	processed_pseudogene	KNOWN	None	None	None	None	44293033	44293293	-1	None	None
Y	TRIM60P11Y	ENSG00000227837	ENST00000445313	processed_pseudogene	KNOWN	None	38463	None	None	26837938	26839079	1	TRIM60PY11	TRIM60P11
13	KBTBD7	ENSG00000120696	ENST00000379483	protein_coding	KNOWN	CCDS9377	25266	2055	684	41763969	41768702	-1	None	DKFZP434E2318
X	RPS7P14	ENSG00000213695	ENST00000426405	processed_pseudogene	KNOWN	None	36602	None	None	73629353	73629935	1	None	None
11	ZDHHC13	ENSG00000177054	ENST00000532026	processed_transcript	KNOWN	None	18413	None	None	19138646	19170802	1	None	FLJ10852, FLJ10941, HIP14L
11	ZDHHC13	ENSG00000177054	ENST00000446113	protein_coding	KNOWN	CCDS44550	18413	1869	622	19138676	19197962	1	None	FLJ10852, FLJ10941, HIP14L
11	ZDHHC13	ENSG00000177054	ENST00000399351	protein_coding	KNOWN	CCDS44551	18413	1479	492	19138692	19197962	1	None	FLJ10852, FLJ10941, HIP14L
11	ZDHHC13	ENSG00000177054	ENST00000525490	retained_intron	KNOWN	None	18413	None	None	19138703	19197969	1	None	FLJ10852, FLJ10941, HIP14L
11	ZDHHC13	ENSG00000177054	ENST00000524744	processed_transcript	PUTATIVE	None	18413	None	None	19138731	19140364	1	None	FLJ10852, FLJ10941, HIP14L
11	ZDHHC13	ENSG00000177054	ENST00000532812	processed_transcript	KNOWN	None	18413	None	None	19170161	19177478	1	None	FLJ10852, FLJ10941, HIP14L
11	ZDHHC13	ENSG00000177054	ENST00000530698	processed_transcript	KNOWN	None	18413	None	None	19170217	19174172	1	None	FLJ10852, FLJ10941, HIP14L
11	ZDHHC13	ENSG00000177054	ENST00000530100	retained_intron	KNOWN	None	18413	None	None	19185829	19188263	1	None	FLJ10852, FLJ10941, HIP14L
21	ITSN1	ENSG00000205726	ENST00000399353	protein_coding	NOVEL	None	6183	3537	1178	35014706	35209322	1	SH3D1A, ITSN	SH3P17, MGC134948, MGC134949
21	ITSN1	ENSG00000205726	ENST00000444491	protein_coding	KNOWN	None	6183	346	114	35014758	35107509	1	SH3D1A, ITSN	SH3P17, MGC134948, MGC134949
21	ITSN1	ENSG00000205726	ENST00000470742	processed_transcript	KNOWN	None	6183	None	None	35014759	35094296	1	SH3D1A, ITSN	SH3P17, MGC134948, MGC134949
21	ITSN1	ENSG00000205726	ENST00000381318	protein_coding	KNOWN	CCDS33545	6183	5166	1721	35014764	35272165	1	SH3D1A, ITSN	SH3P17, MGC134948, MGC134949
21	ITSN1	ENSG00000205726	ENST00000381291	protein_coding	KNOWN	CCDS33546	6183	3663	1220	35014784	35210798	1	SH3D1A, ITSN	SH3P17, MGC134948, MGC134949
21	ITSN1	ENSG00000205726	ENST00000399367	protein_coding	NOVEL	None	6183	5151	1716	35014789	35260912	1	SH3D1A, ITSN	SH3P17, MGC134948, MGC134949
21	ITSN1	ENSG00000205726	ENST00000399352	protein_coding	NOVEL	None	6183	3648	1215	35014802	35210802	1	SH3D1A, ITSN	SH3P17, MGC134948, MGC134949
21	ITSN1	ENSG00000205726	ENST00000399355	protein_coding	NOVEL	None	6183	3450	1149	35014804	35209597	1	SH3D1A, ITSN	SH3P17, MGC134948, MGC134949
21	ITSN1	ENSG00000205726	ENST00000399349	protein_coding	NOVEL	None	6183	3435	1144	35014804	35210800	1	SH3D1A, ITSN	SH3P17, MGC134948, MGC134949
21	ITSN1	ENSG00000205726	ENST00000451686	protein_coding	KNOWN	None	6183	235	77	35014848	35107398	1	SH3D1A, ITSN	SH3P17, MGC134948, MGC134949
21	ITSN1	ENSG00000205726	ENST00000381283	protein_coding	NOVEL	None	6183	1084	360	35091102	35144586	1	SH3D1A, ITSN	SH3P17, MGC134948, MGC134949
21	ITSN1	ENSG00000205726	ENST00000456489	protein_coding	PUTATIVE	None	6183	181	59	35107346	35107931	1	SH3D1A, ITSN	SH3P17, MGC134948, MGC134949
21	ITSN1	ENSG00000205726	ENST00000488166	processed_transcript	KNOWN	None	6183	None	None	35126488	35144604	1	SH3D1A, ITSN	SH3P17, MGC134948, MGC134949
21	ITSN1	ENSG00000205726	ENST00000474132	retained_intron	KNOWN	None	6183	None	None	35146667	35147383	1	SH3D1A, ITSN	SH3P17, MGC134948, MGC134949
21	ITSN1	ENSG00000205726	ENST00000419241	nonsense_mediated_decay	KNOWN	None	6183	234	77	35169858	35189720	1	SH3D1A, ITSN	SH3P17, MGC134948, MGC134949
21	ITSN1	ENSG00000205726	ENST00000440794	protein_coding	PUTATIVE	None	6183	781	259	35172227	35190040	1	SH3D1A, ITSN	SH3P17, MGC134948, MGC134949
21	ITSN1	ENSG00000205726	ENST00000465143	retained_intron	KNOWN	None	6183	None	None	35183508	35186811	1	SH3D1A, ITSN	SH3P17, MGC134948, MGC134949
21	ITSN1	ENSG00000205726	ENST00000487427	retained_intron	KNOWN	None	6183	None	None	35190330	35201333	1	SH3D1A, ITSN	SH3P17, MGC134948, MGC134949
21	ITSN1	ENSG00000205726	ENST00000437126	nonsense_mediated_decay	KNOWN	None	6183	232	76	35190687	35206700	1	SH3D1A, ITSN	SH3P17, MGC134948, MGC134949
21	ITSN1	ENSG00000205726	ENST00000428240	processed_transcript	KNOWN	None	6183	None	None	35190756	35201990	1	SH3D1A, ITSN	SH3P17, MGC134948, MGC134949
21	ITSN1	ENSG00000205726	ENST00000472548	processed_transcript	KNOWN	None	6183	None	None	35201310	35209342	1	SH3D1A, ITSN	SH3P17, MGC134948, MGC134949
21	ITSN1	ENSG00000205726	ENST00000479424	processed_transcript	KNOWN	None	6183	None	None	35201310	35209342	1	SH3D1A, ITSN	SH3P17, MGC134948, MGC134949
21	ITSN1	ENSG00000205726	ENST00000462212	retained_intron	KNOWN	None	6183	None	None	35201310	35209342	1	SH3D1A, ITSN	SH3P17, MGC134948, MGC134949
21	ITSN1	ENSG00000205726	ENST00000495656	processed_transcript	KNOWN	None	6183	None	None	35201310	35229097	1	SH3D1A, ITSN	SH3P17, MGC134948, MGC134949
21	ITSN1	ENSG00000205726	ENST00000475422	retained_intron	KNOWN	None	6183	None	None	35201310	35229097	1	SH3D1A, ITSN	SH3P17, MGC134948, MGC134949
21	ITSN1	ENSG00000205726	ENST00000489261	retained_intron	KNOWN	None	6183	None	None	35201310	35229097	1	SH3D1A, ITSN	SH3P17, MGC134948, MGC134949
21	ITSN1	ENSG00000205726	ENST00000381284	protein_coding	PUTATIVE	None	6183	949	315	35231001	35258658	1	SH3D1A, ITSN	SH3P17, MGC134948, MGC134949
21	ITSN1	ENSG00000205726	ENST00000420666	nonsense_mediated_decay	KNOWN	None	6183	200	65	35247662	35258681	1	SH3D1A, ITSN	SH3P17, MGC134948, MGC134949
21	ITSN1	ENSG00000205726	ENST00000415023	protein_coding	NOVEL	None	6183	519	172	35247664	35258658	1	SH3D1A, ITSN	SH3P17, MGC134948, MGC134949
21	ITSN1	ENSG00000205726	ENST00000381285	protein_coding	KNOWN	None	6183	5166	1721	35014784	35261609	1	SH3D1A, ITSN	SH3P17, MGC134948, MGC134949
21	ITSN1	ENSG00000205726	ENST00000437442	protein_coding	KNOWN	None	6183	4983	1660	35091133	35260612	1	SH3D1A, ITSN	SH3P17, MGC134948, MGC134949
21	ITSN1	ENSG00000205726	ENST00000399326	protein_coding	KNOWN	None	6183	3048	1015	35091133	35260612	1	SH3D1A, ITSN	SH3P17, MGC134948, MGC134949
21	ITSN1	ENSG00000205726	ENST00000379960	protein_coding	KNOWN	None	6183	2745	914	35091133	35209342	1	SH3D1A, ITSN	SH3P17, MGC134948, MGC134949
21	ITSN1	ENSG00000205726	ENST00000399338	protein_coding	KNOWN	None	6183	3063	1020	35091115	35189918	1	SH3D1A, ITSN	SH3P17, MGC134948, MGC134949
2	RNU6-566P	ENSG00000252599	ENST00000516790	snRNA	KNOWN	None	47529	None	None	44381928	44382034	-1	None	None
X	RN7SL641P	ENSG00000264531	ENST00000584363	misc_RNA	KNOWN	None	46657	None	None	73673458	73673691	-1	None	None
Y	ZNF736P1Y	ENSG00000223978	ENST00000440402	processed_pseudogene	KNOWN	None	37726	None	None	27131348	27132623	-1	ZNF736P1	None
2	None	ENSG00000224637	ENST00000449397	unprocessed_pseudogene	KNOWN	None	None	None	None	44393405	44394082	1	None	None
X	HNRNPA1P25	ENSG00000231206	ENST00000422644	processed_pseudogene	KNOWN	None	39543	None	None	73692852	73693788	-1	None	None
19	None	ENSG00000267115	ENST00000586176	lincRNA	KNOWN	None	None	None	None	37994808	37995367	-1	None	None
Y	ZNF736P5Y	ENSG00000230819	ENST00000451173	processed_pseudogene	KNOWN	None	38597	None	None	27164646	27165450	-1	None	None
2	None	ENSG00000239052	ENST00000459048	snoRNA	NOVEL	None	None	None	None	44466707	44466800	-1	None	None
2	None	ENSG00000226972	ENST00000429825	processed_pseudogene	KNOWN	None	None	None	None	44497760	44498245	1	None	None
6	None	ENSG00000213117	ENST00000441868	processed_pseudogene	KNOWN	None	None	None	None	135219012	135219897	1	None	None
X	PABPC1P3	ENSG00000230673	ENST00000469174	processed_pseudogene	KNOWN	None	8560	None	None	73802923	73803381	-1	PABPCP3	PABP3
2	None	ENSG00000252896	ENST00000517087	miRNA	NOVEL	None	None	None	None	45009185	45009269	-1	None	None
2	MAP3K19	ENSG00000176601	ENST00000375845	protein_coding	KNOWN	CCDS2176	26249	3987	1328	135722061	135782248	-1	YSK4	FLJ23074
2	MAP3K19	ENSG00000176601	ENST00000358371	protein_coding	KNOWN	None	26249	3648	1215	135722380	135782248	-1	YSK4	FLJ23074
2	MAP3K19	ENSG00000176601	ENST00000375844	protein_coding	KNOWN	CCDS33293	26249	1533	510	135722380	135782248	-1	YSK4	FLJ23074
2	MAP3K19	ENSG00000176601	ENST00000392918	protein_coding	KNOWN	None	26249	1389	462	135722380	135782248	-1	YSK4	FLJ23074
2	MAP3K19	ENSG00000176601	ENST00000478805	retained_intron	KNOWN	None	26249	None	None	135738284	135741049	-1	YSK4	FLJ23074
2	MAP3K19	ENSG00000176601	ENST00000392915	protein_coding	PUTATIVE	None	26249	3459	1152	135738284	135781219	-1	YSK4	FLJ23074
2	MAP3K19	ENSG00000176601	ENST00000437365	protein_coding	KNOWN	None	26249	2094	697	135738286	135744611	-1	YSK4	FLJ23074
2	MAP3K19	ENSG00000176601	ENST00000468155	retained_intron	KNOWN	None	26249	None	None	135748911	135805038	-1	YSK4	FLJ23074
2	MAP3K19	ENSG00000176601	ENST00000425952	protein_coding	PUTATIVE	None	26249	307	101	135756491	135780946	-1	YSK4	FLJ23074
2	MAP3K19	ENSG00000176601	ENST00000414343	protein_coding	PUTATIVE	None	26249	65	20	135763091	135805028	-1	YSK4	FLJ23074
2	MAP3K19	ENSG00000176601	ENST00000486077	processed_transcript	PUTATIVE	None	26249	None	None	135787922	135805013	-1	YSK4	FLJ23074
2	MAP3K19	ENSG00000176601	ENST00000392917	protein_coding	KNOWN	None	26249	1383	460	135722380	135782247	-1	YSK4	FLJ23074
2	MAP3K19	ENSG00000176601	ENST00000315513	protein_coding	KNOWN	None	26249	507	168	135738286	135781219	-1	YSK4	FLJ23074
9	None	ENSG00000223368	ENST00000450410	processed_pseudogene	KNOWN	None	None	None	None	76485812	76488213	-1	None	None
6	None	ENSG00000240056	ENST00000416448	antisense	KNOWN	None	None	None	None	135262530	135263588	1	None	None
2	None	ENSG00000259439	ENST00000560399	lincRNA	KNOWN	None	None	None	None	45148216	45150178	-1	None	None
2	None	ENSG00000259439	ENST00000437916	lincRNA	KNOWN	None	None	None	None	45148216	45166338	-1	None	None
2	None	ENSG00000259439	ENST00000432125	lincRNA	KNOWN	None	None	None	None	45150174	45162783	-1	None	None
2	None	ENSG00000259439	ENST00000430847	lincRNA	KNOWN	None	None	None	None	45157116	45162498	-1	None	None
2	None	ENSG00000259439	ENST00000444871	lincRNA	KNOWN	None	None	None	None	45158261	45166027	-1	None	None
2	None	ENSG00000259439	ENST00000354756	lincRNA	KNOWN	None	None	None	None	45147332	45149606	-1	None	None
9	C9orf147	ENSG00000230185	ENST00000412934	nonsense_mediated_decay	KNOWN	None	31438	81	26	115196096	115246906	-1	None	bA32M23.3
9	C9orf147	ENSG00000230185	ENST00000457681	protein_coding	PUTATIVE	None	31438	457	151	115246722	115249484	-1	None	bA32M23.3
9	C9orf147	ENSG00000230185	ENST00000460965	processed_transcript	KNOWN	None	31438	None	None	115246809	115248785	-1	None	bA32M23.3
9	C9orf147	ENSG00000230185	ENST00000463223	processed_transcript	KNOWN	None	31438	None	None	115247241	115248931	-1	None	bA32M23.3
17	WNT9B	ENSG00000158955	ENST00000575372	protein_coding	PUTATIVE	None	12779	398	131	44910567	44952512	1	WNT15	WNT14B
17	WNT9B	ENSG00000158955	ENST00000290015	protein_coding	KNOWN	CCDS11506	12779	1074	357	44928952	44954333	1	WNT15	WNT14B
17	WNT9B	ENSG00000158955	ENST00000393461	protein_coding	PUTATIVE	None	12779	990	329	44928952	44964096	1	WNT15	WNT14B
6	None	ENSG00000232876	ENST00000447508	antisense	KNOWN	None	None	None	None	135376171	135381688	1	None	None
16	FAM92B	ENSG00000153789	ENST00000539556	protein_coding	KNOWN	CCDS32500	24781	915	304	85131965	85146114	-1	None	FLJ44299
9	None	ENSG00000227809	ENST00000423681	lincRNA	KNOWN	None	None	None	None	76986447	76998446	1	None	None
3	FANCD2	ENSG00000144554	ENST00000287647	protein_coding	KNOWN	CCDS2595	3585	4416	1471	10068098	10141344	1	FACD, FANCD	FAD, FA-D2
3	FANCD2	ENSG00000144554	ENST00000435522	nonsense_mediated_decay	KNOWN	None	3585	117	38	10068152	10076197	1	FACD, FANCD	FAD, FA-D2
3	FANCD2	ENSG00000144554	ENST00000419585	protein_coding	KNOWN	CCDS33696	3585	4356	1451	10068183	10143614	1	FACD, FANCD	FAD, FA-D2
3	FANCD2	ENSG00000144554	ENST00000431693	protein_coding	NOVEL	None	3585	726	241	10070304	10083246	1	FACD, FANCD	FAD, FA-D2
3	FANCD2	ENSG00000144554	ENST00000438741	processed_transcript	KNOWN	None	3585	None	None	10076391	10082368	1	FACD, FANCD	FAD, FA-D2
3	FANCD2	ENSG00000144554	ENST00000483276	processed_transcript	KNOWN	None	3585	None	None	10087211	10089743	1	FACD, FANCD	FAD, FA-D2
3	FANCD2	ENSG00000144554	ENST00000464934	retained_intron	KNOWN	None	3585	None	None	10088111	10091188	1	FACD, FANCD	FAD, FA-D2
3	FANCD2	ENSG00000144554	ENST00000421731	nonsense_mediated_decay	KNOWN	None	3585	2249	748	10091146	10143610	1	FACD, FANCD	FAD, FA-D2
3	FANCD2	ENSG00000144554	ENST00000470757	processed_transcript	KNOWN	None	3585	None	None	10106039	10114662	1	FACD, FANCD	FAD, FA-D2
3	FANCD2	ENSG00000144554	ENST00000480909	retained_intron	KNOWN	None	3585	None	None	10106377	10114648	1	FACD, FANCD	FAD, FA-D2
3	FANCD2	ENSG00000144554	ENST00000470028	processed_transcript	KNOWN	None	3585	None	None	10134972	10142966	1	FACD, FANCD	FAD, FA-D2
3	FANCD2	ENSG00000144554	ENST00000383807	protein_coding	KNOWN	CCDS33696	3585	4356	1451	10068113	10143614	1	FACD, FANCD	FAD, FA-D2
3	FANCD2	ENSG00000144554	ENST00000383806	protein_coding	KNOWN	None	3585	3750	1249	10068113	10143614	1	FACD, FANCD	FAD, FA-D2
6	MYB-AS1	ENSG00000236703	ENST00000455534	antisense	KNOWN	None	37457	None	None	135516221	135517133	-1	MYBAS, MYB-AS	RP1-32B1.3, NCRNA00209
9	None	ENSG00000224825	ENST00000417576	antisense	KNOWN	None	None	None	None	77100467	77114043	-1	None	None
6	TAP1	ENSG00000168394	ENST00000486332	retained_intron	KNOWN	None	43	None	None	32812986	32817919	-1	ABCB2	PSF1, RING4, D6S114E
6	TAP1	ENSG00000168394	ENST00000354258	protein_coding	KNOWN	CCDS4758	43	2427	808	32812986	32821755	-1	ABCB2	PSF1, RING4, D6S114E
6	TAP1	ENSG00000168394	ENST00000487296	retained_intron	KNOWN	None	43	None	None	32813452	32816007	-1	ABCB2	PSF1, RING4, D6S114E
6	TAP1	ENSG00000168394	ENST00000425148	protein_coding	KNOWN	None	43	1644	547	32812987	32820535	-1	ABCB2	PSF1, RING4, D6S114E
21	JAM2	ENSG00000154721	ENST00000400532	protein_coding	PUTATIVE	CCDS58787	14686	939	312	27011584	27086885	1	C21orf43	VE-JAM, JAM-B, JAMB, CD322
21	JAM2	ENSG00000154721	ENST00000480456	protein_coding	KNOWN	CCDS42911	14686	897	298	27011584	27089874	1	C21orf43	VE-JAM, JAM-B, JAMB, CD322
21	JAM2	ENSG00000154721	ENST00000460679	nonsense_mediated_decay	KNOWN	None	14686	785	260	27062178	27087043	1	C21orf43	VE-JAM, JAM-B, JAMB, CD322
21	JAM2	ENSG00000154721	ENST00000492962	retained_intron	KNOWN	None	14686	None	None	27074490	27082491	1	C21orf43	VE-JAM, JAM-B, JAMB, CD322
21	JAM2	ENSG00000154721	ENST00000477351	processed_transcript	KNOWN	None	14686	None	None	27083700	27087051	1	C21orf43	VE-JAM, JAM-B, JAMB, CD322
21	JAM2	ENSG00000154721	ENST00000471689	retained_intron	KNOWN	None	14686	None	None	27084331	27087201	1	C21orf43	VE-JAM, JAM-B, JAMB, CD322
21	JAM2	ENSG00000154721	ENST00000312957	protein_coding	KNOWN	None	14686	897	298	27011589	27087235	1	C21orf43	VE-JAM, JAM-B, JAMB, CD322
21	JAM2	ENSG00000154721	ENST00000425221	protein_coding	KNOWN	CCDS58788	14686	789	262	27011910	27087648	1	C21orf43	VE-JAM, JAM-B, JAMB, CD322
16	None	ENSG00000262601	ENST00000574293	protein_coding	PUTATIVE	None	None	777	258	85204882	85218969	1	None	None
16	None	ENSG00000261567	ENST00000568080	protein_coding	PUTATIVE	None	None	184	60	85391069	85393055	1	None	None
2	SIX3-AS1	ENSG00000236502	ENST00000419364	antisense	KNOWN	None	40532	None	None	45167293	45169012	-1	None	None
2	SIX3-AS1	ENSG00000236502	ENST00000456467	antisense	KNOWN	None	40532	None	None	45167723	45168633	-1	None	None
16	AFG3L1P	ENSG00000223959	ENST00000431757	processed_transcript	KNOWN	None	314	None	None	90038994	90046278	1	AFG3, AFG3L1	None
16	AFG3L1P	ENSG00000223959	ENST00000429663	processed_transcript	KNOWN	None	314	None	None	90038994	90048294	1	AFG3, AFG3L1	None
16	AFG3L1P	ENSG00000223959	ENST00000418696	processed_transcript	KNOWN	None	314	None	None	90038994	90063034	1	AFG3, AFG3L1	None
16	AFG3L1P	ENSG00000223959	ENST00000450026	retained_intron	KNOWN	None	314	None	None	90038997	90044363	1	AFG3, AFG3L1	None
16	AFG3L1P	ENSG00000223959	ENST00000457926	processed_transcript	KNOWN	None	314	None	None	90039001	90063031	1	AFG3, AFG3L1	None
16	AFG3L1P	ENSG00000223959	ENST00000436447	processed_transcript	KNOWN	None	314	None	None	90039001	90063031	1	AFG3, AFG3L1	None
16	AFG3L1P	ENSG00000223959	ENST00000423742	retained_intron	KNOWN	None	314	None	None	90039002	90044925	1	AFG3, AFG3L1	None
16	AFG3L1P	ENSG00000223959	ENST00000437774	processed_transcript	KNOWN	None	314	None	None	90039025	90063031	1	AFG3, AFG3L1	None
16	AFG3L1P	ENSG00000223959	ENST00000557444	unitary_pseudogene	KNOWN	None	314	None	None	90039039	90067076	1	AFG3, AFG3L1	None
16	AFG3L1P	ENSG00000223959	ENST00000421164	retained_intron	KNOWN	None	314	None	None	90039056	90051107	1	AFG3, AFG3L1	None
16	AFG3L1P	ENSG00000223959	ENST00000423684	retained_intron	KNOWN	None	314	None	None	90044102	90051109	1	AFG3, AFG3L1	None
16	AFG3L1P	ENSG00000223959	ENST00000421780	retained_intron	KNOWN	None	314	None	None	90044102	90051109	1	AFG3, AFG3L1	None
16	AFG3L1P	ENSG00000223959	ENST00000388970	processed_transcript	KNOWN	None	314	None	None	90044102	90066961	1	AFG3, AFG3L1	None
16	AFG3L1P	ENSG00000223959	ENST00000458301	processed_transcript	KNOWN	None	314	None	None	90046653	90063031	1	AFG3, AFG3L1	None
16	AFG3L1P	ENSG00000223959	ENST00000355531	retained_intron	KNOWN	None	314	None	None	90054904	90066961	1	AFG3, AFG3L1	None
16	AFG3L1P	ENSG00000223959	ENST00000427658	retained_intron	KNOWN	None	314	None	None	90056740	90063018	1	AFG3, AFG3L1	None
16	AFG3L1P	ENSG00000223959	ENST00000454997	retained_intron	KNOWN	None	314	None	None	90065014	90068569	1	AFG3, AFG3L1	None
19	None	ENSG00000180458	ENST00000316807	antisense	KNOWN	None	None	None	None	38036372	38040073	-1	None	None
HSCHR6_MHC_MCF	MICB	ENSG00000238289	ENST00000436531	protein_coding	KNOWN	None	7091	1023	340	31542228	31555259	1	None	PERB11.2
HSCHR6_MHC_MCF	MICB	ENSG00000238289	ENST00000436655	protein_coding	KNOWN	None	7091	1152	383	31542257	31555259	1	None	PERB11.2
HSCHR6_MHC_MCF	MICB	ENSG00000238289	ENST00000470406	retained_intron	KNOWN	None	7091	None	None	31550072	31551668	1	None	PERB11.2
HSCHR6_MHC_MCF	MICB	ENSG00000238289	ENST00000547574	protein_coding	KNOWN	None	7091	126	41	31542287	31542833	1	None	PERB11.2
13	MTRF1	ENSG00000120662	ENST00000379480	protein_coding	KNOWN	CCDS9378	7469	1338	445	41790505	41837713	-1	None	RF1, MTTRF1, MGC47721
13	MTRF1	ENSG00000120662	ENST00000473492	processed_transcript	KNOWN	None	7469	None	None	41791111	41800705	-1	None	RF1, MTTRF1, MGC47721
13	MTRF1	ENSG00000120662	ENST00000379477	protein_coding	KNOWN	CCDS9378	7469	1338	445	41791111	41837620	-1	None	RF1, MTTRF1, MGC47721
13	MTRF1	ENSG00000120662	ENST00000239852	processed_transcript	KNOWN	None	7469	None	None	41826418	41837705	-1	None	RF1, MTTRF1, MGC47721
13	MTRF1	ENSG00000120662	ENST00000480434	processed_transcript	KNOWN	None	7469	None	None	41826420	41834722	-1	None	RF1, MTTRF1, MGC47721
13	MTRF1	ENSG00000120662	ENST00000452359	protein_coding	PUTATIVE	None	7469	678	225	41826800	41837683	-1	None	RF1, MTTRF1, MGC47721
13	MTRF1	ENSG00000120662	ENST00000497679	processed_transcript	KNOWN	None	7469	None	None	41826841	41837713	-1	None	RF1, MTTRF1, MGC47721
13	MTRF1	ENSG00000120662	ENST00000492827	processed_transcript	KNOWN	None	7469	None	None	41835469	41837674	-1	None	RF1, MTTRF1, MGC47721
13	MTRF1	ENSG00000120662	ENST00000498245	processed_transcript	KNOWN	None	7469	None	None	41835569	41837626	-1	None	RF1, MTTRF1, MGC47721
13	MTRF1	ENSG00000120662	ENST00000430347	protein_coding	KNOWN	None	7469	1407	468	41791214	41837742	-1	None	RF1, MTTRF1, MGC47721
1	NUDC	ENSG00000090273	ENST00000435827	protein_coding	PUTATIVE	None	8045	558	185	27226729	27269267	1	None	NudC
1	NUDC	ENSG00000090273	ENST00000321265	protein_coding	KNOWN	CCDS292	8045	996	331	27248217	27273353	1	None	NudC
1	NUDC	ENSG00000090273	ENST00000452707	protein_coding	PUTATIVE	None	8045	399	132	27248633	27269267	1	None	NudC
1	NUDC	ENSG00000090273	ENST00000484772	processed_transcript	KNOWN	None	8045	None	None	27271626	27272675	1	None	NudC
7	PHBP6	ENSG00000223981	ENST00000424623	processed_pseudogene	KNOWN	None	39285	None	None	74619641	74620426	1	None	None
9	KIAA1958	ENSG00000165185	ENST00000337530	protein_coding	KNOWN	CCDS35108	23427	2151	716	115249127	115431677	1	None	FLJ39294
9	KIAA1958	ENSG00000165185	ENST00000374244	protein_coding	KNOWN	None	23427	2217	738	115249295	115381494	1	None	FLJ39294
9	KIAA1958	ENSG00000165185	ENST00000536272	protein_coding	KNOWN	None	23427	2235	744	115249358	115422415	1	None	FLJ39294
2	None	ENSG00000225156	ENST00000425325	lincRNA	KNOWN	None	None	None	None	45181803	45195901	1	None	None
7	RHEB	ENSG00000106615	ENST00000262187	protein_coding	KNOWN	CCDS5927	10011	555	184	151163098	151217010	-1	RHEB2	None
7	RHEB	ENSG00000106615	ENST00000472642	protein_coding	PUTATIVE	None	10011	240	79	151163960	151216269	-1	RHEB2	None
7	RHEB	ENSG00000106615	ENST00000478470	nonsense_mediated_decay	KNOWN	None	10011	144	47	151164039	151216937	-1	RHEB2	None
7	RHEB	ENSG00000106615	ENST00000496004	protein_coding	PUTATIVE	None	10011	240	79	151164187	151217206	-1	RHEB2	None
7	RHEB	ENSG00000106615	ENST00000470072	retained_intron	KNOWN	None	10011	None	None	151167385	151168889	-1	RHEB2	None
7	RHEB	ENSG00000106615	ENST00000470370	protein_coding	PUTATIVE	None	10011	59	18	151168486	151215155	-1	RHEB2	None
7	RHEB	ENSG00000106615	ENST00000482053	retained_intron	KNOWN	None	10011	None	None	151168490	151169153	-1	RHEB2	None
7	None	ENSG00000231091	ENST00000444734	processed_pseudogene	KNOWN	None	None	None	None	74653079	74653184	-1	None	None
8	ARHGAP39	ENSG00000147799	ENST00000377307	protein_coding	KNOWN	CCDS34971	29351	3345	1114	145754563	145831084	-1	None	KIAA1688, Vilse, CrGAP
8	ARHGAP39	ENSG00000147799	ENST00000276826	protein_coding	KNOWN	None	29351	3252	1083	145754563	145831201	-1	None	KIAA1688, Vilse, CrGAP
8	ARHGAP39	ENSG00000147799	ENST00000528810	processed_transcript	KNOWN	None	29351	None	None	145763142	145771048	-1	None	KIAA1688, Vilse, CrGAP
8	ARHGAP39	ENSG00000147799	ENST00000540274	protein_coding	KNOWN	None	29351	3252	1083	145755795	145911194	-1	None	KIAA1688, Vilse, CrGAP
7	None	ENSG00000205509	ENST00000455489	unprocessed_pseudogene	KNOWN	None	None	None	None	74696066	74701892	1	None	None
7	None	ENSG00000205509	ENST00000380425	unprocessed_pseudogene	KNOWN	None	None	None	None	74697327	74704116	1	None	None
19	ZNF571-AS1	ENSG00000267470	ENST00000591430	antisense	KNOWN	None	44324	None	None	38039816	38076660	1	None	None
19	ZNF571-AS1	ENSG00000267470	ENST00000592575	antisense	KNOWN	None	44324	None	None	38039830	38040516	1	None	None
19	ZNF571-AS1	ENSG00000267470	ENST00000585578	antisense	KNOWN	None	44324	None	None	38039849	38078249	1	None	None
19	ZNF571-AS1	ENSG00000267470	ENST00000586139	antisense	KNOWN	None	44324	None	None	38039853	38078249	1	None	None
19	ZNF571-AS1	ENSG00000267470	ENST00000589802	antisense	KNOWN	None	44324	None	None	38039869	38076337	1	None	None
19	ZNF571-AS1	ENSG00000267470	ENST00000592392	antisense	KNOWN	None	44324	None	None	38039877	38076357	1	None	None
19	ZNF571-AS1	ENSG00000267470	ENST00000590838	antisense	KNOWN	None	44324	None	None	38042273	38078249	1	None	None
19	ZNF571-AS1	ENSG00000267470	ENST00000586013	antisense	KNOWN	None	44324	None	None	38042274	38076275	1	None	None
19	ZNF571-AS1	ENSG00000267470	ENST00000589750	antisense	KNOWN	None	44324	None	None	38042279	38074462	1	None	None
19	ZNF571-AS1	ENSG00000267470	ENST00000587121	antisense	KNOWN	None	44324	None	None	38042314	38076478	1	None	None
19	ZNF571-AS1	ENSG00000267470	ENST00000588382	antisense	KNOWN	None	44324	None	None	38042507	38051776	1	None	None
19	ZNF571-AS1	ENSG00000267470	ENST00000591177	antisense	KNOWN	None	44324	None	None	38060844	38066724	1	None	None
2	None	ENSG00000231848	ENST00000423051	processed_pseudogene	KNOWN	None	None	None	None	45223552	45224012	1	None	None
2	None	ENSG00000231156	ENST00000423433	lincRNA	KNOWN	None	None	None	None	45240353	45240807	-1	None	None
19	MIR526A1	ENSG00000207629	ENST00000384897	miRNA	KNOWN	None	32107	None	None	54209506	54209590	1	MIRN526A-1, MIRN526A1	hsa-mir-526a-1
19	MIR520C	ENSG00000207738	ENST00000385005	miRNA	KNOWN	None	32108	None	None	54210707	54210793	1	MIRN520C	hsa-mir-520c
22	ARFGAP3	ENSG00000242247	ENST00000263245	protein_coding	KNOWN	CCDS14042	661	1551	516	43192508	43253408	-1	ARFGAP1	None
22	ARFGAP3	ENSG00000242247	ENST00000437119	protein_coding	KNOWN	CCDS46722	661	1419	472	43193420	43253245	-1	ARFGAP1	None
22	ARFGAP3	ENSG00000242247	ENST00000453516	protein_coding	KNOWN	None	661	817	271	43203080	43227658	-1	ARFGAP1	None
22	ARFGAP3	ENSG00000242247	ENST00000454099	protein_coding	KNOWN	None	661	456	151	43219662	43253274	-1	ARFGAP1	None
22	ARFGAP3	ENSG00000242247	ENST00000435208	protein_coding	PUTATIVE	None	661	276	91	43231419	43254112	-1	ARFGAP1	None
22	ARFGAP3	ENSG00000242247	ENST00000493606	retained_intron	KNOWN	None	661	None	None	43243240	43253300	-1	ARFGAP1	None
22	ARFGAP3	ENSG00000242247	ENST00000429508	protein_coding	KNOWN	None	661	1335	444	43193375	43253274	-1	ARFGAP1	None
2	None	ENSG00000205054	ENST00000427020	lincRNA	KNOWN	None	None	None	None	45392009	45419404	-1	None	None
2	None	ENSG00000205054	ENST00000413669	lincRNA	KNOWN	None	None	None	None	45401481	45402350	-1	None	None
2	None	ENSG00000205054	ENST00000378479	lincRNA	KNOWN	None	None	None	None	45401483	45482080	-1	None	None
2	None	ENSG00000205054	ENST00000454673	retained_intron	KNOWN	None	None	None	None	45414309	45419424	-1	None	None
2	None	ENSG00000205054	ENST00000430650	lincRNA	KNOWN	None	None	None	None	45419318	45550434	-1	None	None
19	MIR518C	ENSG00000207553	ENST00000384822	miRNA	KNOWN	None	32109	None	None	54211989	54212089	1	MIRN518C	hsa-mir-518c
19	TTYH1	ENSG00000167614	ENST00000423529	protein_coding	PUTATIVE	None	13476	471	156	54926393	54933429	1	None	None
19	TTYH1	ENSG00000167614	ENST00000301194	protein_coding	NOVEL	CCDS56102	13476	1356	451	54926605	54948080	1	None	None
19	TTYH1	ENSG00000167614	ENST00000376530	protein_coding	KNOWN	CCDS12893	13476	1353	450	54926624	54947899	1	None	None
19	TTYH1	ENSG00000167614	ENST00000445095	protein_coding	NOVEL	None	13476	841	279	54926639	54937905	1	None	None
19	TTYH1	ENSG00000167614	ENST00000425969	nonsense_mediated_decay	KNOWN	None	13476	342	113	54926684	54937945	1	None	None
19	TTYH1	ENSG00000167614	ENST00000487134	retained_intron	KNOWN	None	13476	None	None	54926686	54947899	1	None	None
19	TTYH1	ENSG00000167614	ENST00000376531	protein_coding	KNOWN	CCDS33106	13476	1383	460	54926700	54947899	1	None	None
19	TTYH1	ENSG00000167614	ENST00000462757	processed_transcript	KNOWN	None	13476	None	None	54927014	54933422	1	None	None
19	TTYH1	ENSG00000167614	ENST00000462769	processed_transcript	KNOWN	None	13476	None	None	54929436	54930710	1	None	None
19	TTYH1	ENSG00000167614	ENST00000478036	processed_transcript	PUTATIVE	None	13476	None	None	54929563	54932517	1	None	None
19	TTYH1	ENSG00000167614	ENST00000472198	nonsense_mediated_decay	KNOWN	None	13476	115	37	54930370	54944890	1	None	None
19	TTYH1	ENSG00000167614	ENST00000461302	processed_transcript	KNOWN	None	13476	None	None	54931842	54937910	1	None	None
19	TTYH1	ENSG00000167614	ENST00000476757	processed_transcript	KNOWN	None	13476	None	None	54931873	54940531	1	None	None
19	TTYH1	ENSG00000167614	ENST00000489425	processed_transcript	KNOWN	None	13476	None	None	54937651	54947899	1	None	None
19	TTYH1	ENSG00000167614	ENST00000492920	processed_transcript	KNOWN	None	13476	None	None	54941991	54947652	1	None	None
19	TTYH1	ENSG00000167614	ENST00000476863	processed_transcript	KNOWN	None	13476	None	None	54946140	54947508	1	None	None
19	TTYH1	ENSG00000167614	ENST00000467939	processed_transcript	PUTATIVE	None	13476	None	None	54947185	54947897	1	None	None
19	TTYH1	ENSG00000167614	ENST00000391739	protein_coding	KNOWN	None	13476	1362	453	54926665	54947338	1	None	None
16	None	ENSG00000245888	ENST00000566854	protein_coding	PUTATIVE	None	None	246	81	27279526	27301789	1	None	None
16	None	ENSG00000245888	ENST00000565060	processed_transcript	KNOWN	None	None	None	None	27280167	27295975	1	None	None
16	None	ENSG00000245888	ENST00000499939	processed_transcript	KNOWN	None	None	None	None	27280190	27283297	1	None	None
16	None	ENSG00000245888	ENST00000566535	processed_transcript	PUTATIVE	None	None	None	None	27297978	27301813	1	None	None
16	None	ENSG00000245888	ENST00000564990	retained_intron	KNOWN	None	None	None	None	27301519	27301797	1	None	None
19	MIR524	ENSG00000207977	ENST00000385242	miRNA	KNOWN	None	32110	None	None	54214256	54214342	1	MIRN524	hsa-mir-524
3	PFN2	ENSG00000070087	ENST00000452853	protein_coding	KNOWN	CCDS46934	8882	423	140	149682691	149688737	-1	None	None
3	PFN2	ENSG00000070087	ENST00000239940	protein_coding	KNOWN	CCDS3148	8882	423	140	149682691	149688896	-1	None	None
3	PFN2	ENSG00000070087	ENST00000423691	protein_coding	PUTATIVE	None	8882	567	188	149682700	149688709	-1	None	None
3	PFN2	ENSG00000070087	ENST00000481767	protein_coding	PUTATIVE	None	8882	276	91	149682722	149688502	-1	None	None
3	PFN2	ENSG00000070087	ENST00000460404	nonsense_mediated_decay	KNOWN	None	8882	138	45	149683476	149688691	-1	None	None
3	PFN2	ENSG00000070087	ENST00000468323	nonsense_mediated_decay	KNOWN	None	8882	168	55	149683500	149688685	-1	None	None
3	PFN2	ENSG00000070087	ENST00000494827	protein_coding	PUTATIVE	None	8882	276	91	149683644	149740598	-1	None	None
3	PFN2	ENSG00000070087	ENST00000497060	retained_intron	KNOWN	None	8882	None	None	149683840	149686692	-1	None	None
3	PFN2	ENSG00000070087	ENST00000490975	protein_coding	NOVEL	None	8882	378	125	149683865	149688712	-1	None	None
3	PFN2	ENSG00000070087	ENST00000497148	protein_coding	PUTATIVE	None	8882	276	91	149683948	149768575	-1	None	None
3	PFN2	ENSG00000070087	ENST00000498169	nonsense_mediated_decay	KNOWN	None	8882	168	55	149684038	149688669	-1	None	None
3	PFN2	ENSG00000070087	ENST00000475518	protein_coding	PUTATIVE	None	8882	276	91	149684047	149688522	-1	None	None
3	PFN2	ENSG00000070087	ENST00000481275	protein_coding	PUTATIVE	None	8882	276	91	149684055	149688188	-1	None	None
3	PFN2	ENSG00000070087	ENST00000498307	protein_coding	PUTATIVE	None	8882	276	91	149684072	149689000	-1	None	None
3	PFN2	ENSG00000070087	ENST00000489155	protein_coding	PUTATIVE	None	8882	276	91	149684103	149689010	-1	None	None
3	PFN2	ENSG00000070087	ENST00000461930	protein_coding	PUTATIVE	None	8882	138	45	149685905	149688691	-1	None	None
3	PFN2	ENSG00000070087	ENST00000461868	protein_coding	PUTATIVE	None	8882	333	110	149685941	149688727	-1	None	None
19	MIR517A	ENSG00000207734	ENST00000385001	miRNA	KNOWN	None	32111	None	None	54215522	54215608	1	MIRN517A	hsa-mir-517a
22	EMID1	ENSG00000186998	ENST00000334018	protein_coding	KNOWN	CCDS33630	18036	1332	443	29601840	29655586	1	None	EMU1, hEmu1, EMI5
22	EMID1	ENSG00000186998	ENST00000429226	protein_coding	PUTATIVE	None	18036	636	211	29601895	29629417	1	None	EMU1, hEmu1, EMI5
22	EMID1	ENSG00000186998	ENST00000404755	protein_coding	NOVEL	None	18036	1269	422	29601901	29655586	1	None	EMU1, hEmu1, EMI5
22	EMID1	ENSG00000186998	ENST00000404820	protein_coding	NOVEL	None	18036	1338	445	29601901	29655586	1	None	EMU1, hEmu1, EMI5
22	EMID1	ENSG00000186998	ENST00000430127	protein_coding	PUTATIVE	None	18036	525	174	29601912	29627604	1	None	EMU1, hEmu1, EMI5
22	EMID1	ENSG00000186998	ENST00000435427	nonsense_mediated_decay	KNOWN	None	18036	105	34	29601948	29628334	1	None	EMU1, hEmu1, EMI5
22	EMID1	ENSG00000186998	ENST00000484039	processed_transcript	KNOWN	None	18036	None	None	29611566	29629656	1	None	EMU1, hEmu1, EMI5
22	EMID1	ENSG00000186998	ENST00000433143	protein_coding	PUTATIVE	None	18036	707	234	29627007	29639478	1	None	EMU1, hEmu1, EMI5
22	EMID1	ENSG00000186998	ENST00000473933	retained_intron	KNOWN	None	18036	None	None	29627671	29629851	1	None	EMU1, hEmu1, EMI5
22	EMID1	ENSG00000186998	ENST00000488820	retained_intron	KNOWN	None	18036	None	None	29628325	29651601	1	None	EMU1, hEmu1, EMI5
22	EMID1	ENSG00000186998	ENST00000487477	retained_intron	KNOWN	None	18036	None	None	29629335	29650794	1	None	EMU1, hEmu1, EMI5
19	MIR519D	ENSG00000207981	ENST00000385246	miRNA	KNOWN	None	32112	None	None	54216601	54216688	1	MIRN519D	hsa-mir-519d
7	None	ENSG00000189011	ENST00000512776	unprocessed_pseudogene	KNOWN	None	None	None	None	74710744	74714647	-1	None	None
7	None	ENSG00000189011	ENST00000314850	unprocessed_pseudogene	KNOWN	None	None	None	None	74702428	74712565	-1	None	None
12	PTPRO	ENSG00000151490	ENST00000281171	protein_coding	KNOWN	CCDS8675	9678	3651	1216	15475331	15750327	1	None	PTPU2, GLEPP1, PTP-U2, PTP-oc, NPHS6
12	PTPRO	ENSG00000151490	ENST00000543886	protein_coding	PUTATIVE	None	9678	1794	597	15475477	15669997	1	None	PTPU2, GLEPP1, PTP-U2, PTP-oc, NPHS6
12	PTPRO	ENSG00000151490	ENST00000348962	protein_coding	KNOWN	CCDS8674	9678	3567	1188	15475487	15750327	1	None	PTPU2, GLEPP1, PTP-U2, PTP-oc, NPHS6
12	PTPRO	ENSG00000151490	ENST00000545023	processed_transcript	PUTATIVE	None	9678	None	None	15475711	15563700	1	None	PTPU2, GLEPP1, PTP-U2, PTP-oc, NPHS6
12	PTPRO	ENSG00000151490	ENST00000442921	protein_coding	KNOWN	CCDS44837	9678	1218	405	15699286	15750333	1	None	PTPU2, GLEPP1, PTP-U2, PTP-oc, NPHS6
12	PTPRO	ENSG00000151490	ENST00000542557	protein_coding	NOVEL	CCDS53754	9678	1134	377	15699286	15750333	1	None	PTPU2, GLEPP1, PTP-U2, PTP-oc, NPHS6
12	PTPRO	ENSG00000151490	ENST00000445537	protein_coding	KNOWN	CCDS44837	9678	1218	405	15699286	15750333	1	None	PTPU2, GLEPP1, PTP-U2, PTP-oc, NPHS6
12	PTPRO	ENSG00000151490	ENST00000544244	protein_coding	NOVEL	CCDS53754	9678	1134	377	15699286	15750333	1	None	PTPU2, GLEPP1, PTP-U2, PTP-oc, NPHS6
12	PTPRO	ENSG00000151490	ENST00000535311	nonsense_mediated_decay	KNOWN	None	9678	265	87	15699552	15733003	1	None	PTPU2, GLEPP1, PTP-U2, PTP-oc, NPHS6
12	PTPRO	ENSG00000151490	ENST00000538907	retained_intron	KNOWN	None	9678	None	None	15718283	15733680	1	None	PTPU2, GLEPP1, PTP-U2, PTP-oc, NPHS6
12	PTPRO	ENSG00000151490	ENST00000535322	protein_coding	PUTATIVE	None	9678	351	116	15733697	15740110	1	None	PTPU2, GLEPP1, PTP-U2, PTP-oc, NPHS6
12	PTPRO	ENSG00000151490	ENST00000544706	processed_transcript	PUTATIVE	None	9678	None	None	15748155	15749508	1	None	PTPU2, GLEPP1, PTP-U2, PTP-oc, NPHS6
7	None	ENSG00000202021	ENST00000365151	misc_RNA	NOVEL	None	None	None	None	74712847	74712948	-1	None	None
5	C1QTNF2	ENSG00000145861	ENST00000393975	protein_coding	KNOWN	CCDS4351	14325	993	330	159774758	159797648	-1	None	CTRP2
2	None	ENSG00000231054	ENST00000442821	lincRNA	KNOWN	None	None	None	None	45395722	45396553	1	None	None
7	None	ENSG00000250424	ENST00000509504	protein_coding	PUTATIVE	None	None	1341	446	30893010	30963427	1	None	None
19	ZNF587B	ENSG00000269343	ENST00000594328	protein_coding	PUTATIVE	None	37142	1295	430	58331109	58353487	1	None	None
19	ZNF587B	ENSG00000269343	ENST00000442832	protein_coding	KNOWN	CCDS56109	37142	1209	402	58341663	58357606	1	None	None
19	ZNF587B	ENSG00000269343	ENST00000594901	protein_coding	NOVEL	None	37142	1902	633	58341681	58353944	1	None	None
19	ZNF587B	ENSG00000269343	ENST00000316462	protein_coding	KNOWN	None	37142	498	165	58331099	58370018	1	None	None
7	None	ENSG00000230195	ENST00000420642	processed_transcript	KNOWN	None	None	None	None	74765876	74789332	1	None	None
7	None	ENSG00000230195	ENST00000417840	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	74765955	74789271	1	None	None
14	OR4K17	ENSG00000176230	ENST00000315543	protein_coding	KNOWN	CCDS32030	15355	1032	343	20585566	20586597	1	None	None
HSCHR6_MHC_MANN	ZNRD1	ENSG00000235176	ENST00000466305	retained_intron	KNOWN	None	13182	None	None	30021879	30027881	1	None	hZR14, HTEX-6, tctex-6, RPA12
HSCHR6_MHC_MANN	ZNRD1	ENSG00000235176	ENST00000417738	protein_coding	KNOWN	None	13182	381	126	30024231	30027881	1	None	hZR14, HTEX-6, tctex-6, RPA12
HSCHR6_MHC_MANN	ZNRD1	ENSG00000235176	ENST00000429558	protein_coding	KNOWN	None	13182	381	126	30024234	30027881	1	None	hZR14, HTEX-6, tctex-6, RPA12
HSCHR6_MHC_MANN	ZNRD1	ENSG00000235176	ENST00000441251	protein_coding	KNOWN	None	13182	381	126	30024236	30027881	1	None	hZR14, HTEX-6, tctex-6, RPA12
HSCHR6_MHC_MANN	ZNRD1	ENSG00000235176	ENST00000431416	protein_coding	KNOWN	None	13182	381	126	30024240	30027881	1	None	hZR14, HTEX-6, tctex-6, RPA12
HSCHR6_MHC_MANN	ZNRD1	ENSG00000235176	ENST00000477956	processed_transcript	KNOWN	None	13182	None	None	30024307	30027881	1	None	hZR14, HTEX-6, tctex-6, RPA12
2	RN7SL414P	ENSG00000239396	ENST00000469545	misc_RNA	KNOWN	None	46430	None	None	45796340	45796631	-1	None	None
2	None	ENSG00000228481	ENST00000423120	antisense	KNOWN	None	None	None	None	45901840	45902615	-1	None	None
14	OR4N5	ENSG00000184394	ENST00000333629	protein_coding	KNOWN	CCDS32031	15358	927	308	20611895	20612821	1	None	None
19	RN7SL298P	ENSG00000265747	ENST00000581369	misc_RNA	KNOWN	None	46314	None	None	11344419	11344674	-1	None	None
6	STMND1	ENSG00000230873	ENST00000354384	protein_coding	KNOWN	None	44668	601	199	17110726	17130906	1	None	FLJ23152
6	STMND1	ENSG00000230873	ENST00000366215	retained_intron	KNOWN	None	44668	None	None	17128169	17131603	1	None	FLJ23152
6	STMND1	ENSG00000230873	ENST00000536551	protein_coding	KNOWN	CCDS58997	44668	831	276	17102489	17131603	1	None	FLJ23152
10	SCD	ENSG00000099194	ENST00000370355	protein_coding	KNOWN	CCDS7493	10571	1080	359	102106881	102124591	1	SCDOS	FADS5
19	None	ENSG00000179066	ENST00000313865	protein_coding	KNOWN	None	None	447	148	35596873	35598141	1	None	None
2	None	ENSG00000233829	ENST00000416146	processed_pseudogene	KNOWN	None	None	None	None	46231081	46231448	-1	None	None
19	None	ENSG00000267174	ENST00000586356	3prime_overlapping_ncrna	KNOWN	None	None	None	None	11411453	11435117	-1	None	None
19	None	ENSG00000267174	ENST00000585801	3prime_overlapping_ncrna	KNOWN	None	None	None	None	11411543	11431999	-1	None	None
10	None	ENSG00000228997	ENST00000448495	processed_pseudogene	KNOWN	None	None	None	None	10818186	10818624	-1	None	None
5	RNU4-90P	ENSG00000199643	ENST00000362773	snRNA	KNOWN	None	47026	None	None	90566544	90566684	1	None	None
7	None	ENSG00000224804	ENST00000430941	antisense	KNOWN	None	None	None	None	74855312	74864233	1	None	None
7	None	ENSG00000224804	ENST00000452986	antisense	KNOWN	None	None	None	None	74855366	74856154	1	None	None
14	OR11G2	ENSG00000196832	ENST00000357366	protein_coding	KNOWN	CCDS32032	15346	1038	345	20665495	20666605	1	None	None
5	None	ENSG00000234292	ENST00000440769	lincRNA	KNOWN	None	None	None	None	90575914	90576959	-1	None	None
2	None	ENSG00000232696	ENST00000444077	antisense	KNOWN	None	None	None	None	46305154	46305967	-1	None	None
6	HEY2	ENSG00000135547	ENST00000368365	protein_coding	KNOWN	None	4881	876	291	126068810	126082415	1	None	bHLHb32, HERP1, HESR2
6	HEY2	ENSG00000135547	ENST00000368364	protein_coding	KNOWN	CCDS5131	4881	1014	337	126070726	126082415	1	None	bHLHb32, HERP1, HESR2
7	None	ENSG00000249595	ENST00000458474	sense_intronic	KNOWN	None	None	None	None	74856621	74857439	-1	None	None
2	None	ENSG00000231336	ENST00000450080	antisense	KNOWN	None	None	None	None	46393928	46395117	-1	None	None
10	SFTA1P	ENSG00000225383	ENST00000602763	lincRNA	KNOWN	None	18383	None	None	10826400	10836920	-1	SFTPF	None
10	SFTA1P	ENSG00000225383	ENST00000415590	lincRNA	KNOWN	None	18383	None	None	10826400	10836930	-1	SFTPF	None
10	SFTA1P	ENSG00000225383	ENST00000434919	lincRNA	KNOWN	None	18383	None	None	10826401	10836943	-1	SFTPF	None
10	SFTA1P	ENSG00000225383	ENST00000446372	lincRNA	KNOWN	None	18383	None	None	10826402	10836877	-1	SFTPF	None
5	LUCAT1	ENSG00000248323	ENST00000513492	lincRNA	KNOWN	None	48498	None	None	90598846	90608312	-1	None	SCAL1
5	LUCAT1	ENSG00000248323	ENST00000511918	lincRNA	KNOWN	None	48498	None	None	90598846	90610200	-1	None	SCAL1
5	LUCAT1	ENSG00000248323	ENST00000513626	lincRNA	KNOWN	None	48498	None	None	90606838	90610219	-1	None	SCAL1
7	None	ENSG00000254977	ENST00000448088	antisense	KNOWN	None	None	None	None	74862851	74863847	1	None	None
2	None	ENSG00000233335	ENST00000446949	processed_pseudogene	KNOWN	None	None	None	None	46483999	46484316	-1	None	None
HSCHR6_MHC_COX	PPT2	ENSG00000206256	ENST00000458119	protein_coding	KNOWN	None	9326	541	179	32069682	32072223	1	None	None
HSCHR6_MHC_COX	PPT2	ENSG00000206256	ENST00000383152	protein_coding	KNOWN	None	9326	927	308	32069764	32079932	1	None	None
HSCHR6_MHC_COX	PPT2	ENSG00000206256	ENST00000474480	processed_transcript	KNOWN	None	9326	None	None	32069783	32074094	1	None	None
HSCHR6_MHC_COX	PPT2	ENSG00000206256	ENST00000399665	protein_coding	KNOWN	None	9326	909	302	32069818	32079932	1	None	None
HSCHR6_MHC_COX	PPT2	ENSG00000206256	ENST00000399662	protein_coding	KNOWN	None	9326	909	302	32070336	32079932	1	None	None
HSCHR6_MHC_COX	PPT2	ENSG00000206256	ENST00000399660	protein_coding	KNOWN	None	9326	909	302	32070379	32079932	1	None	None
HSCHR6_MHC_COX	PPT2	ENSG00000206256	ENST00000446563	protein_coding	KNOWN	None	9326	476	157	32070408	32074169	1	None	None
HSCHR6_MHC_COX	PPT2	ENSG00000206256	ENST00000480985	processed_transcript	KNOWN	None	9326	None	None	32070438	32078850	1	None	None
HSCHR6_MHC_COX	PPT2	ENSG00000206256	ENST00000433748	protein_coding	KNOWN	None	9326	601	199	32070707	32073941	1	None	None
HSCHR6_MHC_COX	PPT2	ENSG00000206256	ENST00000441396	protein_coding	KNOWN	None	9326	279	92	32070719	32072028	1	None	None
HSCHR6_MHC_COX	PPT2	ENSG00000206256	ENST00000470327	processed_transcript	PUTATIVE	None	9326	None	None	32071259	32072004	1	None	None
HSCHR6_MHC_COX	PPT2	ENSG00000206256	ENST00000484132	retained_intron	KNOWN	None	9326	None	None	32073735	32074567	1	None	None
HSCHR6_MHC_COX	PPT2	ENSG00000206256	ENST00000551703	protein_coding	KNOWN	None	9326	906	301	32070086	32082453	1	None	None
HSCHR6_MHC_COX	PPT2	ENSG00000206256	ENST00000547646	protein_coding	KNOWN	None	9326	909	302	32070086	32079929	1	None	None
12	NUP37	ENSG00000075188	ENST00000546385	retained_intron	KNOWN	None	29929	None	None	102467967	102470778	-1	None	MGC5585, FLJ22618
12	NUP37	ENSG00000075188	ENST00000552283	protein_coding	KNOWN	CCDS9089	29929	981	326	102467967	102513902	-1	None	MGC5585, FLJ22618
12	NUP37	ENSG00000075188	ENST00000547269	nonsense_mediated_decay	KNOWN	None	29929	96	31	102468023	102479633	-1	None	MGC5585, FLJ22618
12	NUP37	ENSG00000075188	ENST00000551744	protein_coding	NOVEL	None	29929	626	207	102468214	102513898	-1	None	MGC5585, FLJ22618
12	NUP37	ENSG00000075188	ENST00000551200	retained_intron	KNOWN	None	29929	None	None	102470771	102513869	-1	None	MGC5585, FLJ22618
12	NUP37	ENSG00000075188	ENST00000543021	processed_transcript	KNOWN	None	29929	None	None	102472856	102513867	-1	None	MGC5585, FLJ22618
12	NUP37	ENSG00000075188	ENST00000548994	processed_transcript	KNOWN	None	29929	None	None	102505953	102513868	-1	None	MGC5585, FLJ22618
12	NUP37	ENSG00000075188	ENST00000550459	protein_coding	KNOWN	None	29929	154	50	102512143	102513198	-1	None	MGC5585, FLJ22618
12	NUP37	ENSG00000075188	ENST00000251074	protein_coding	KNOWN	CCDS9089	29929	981	326	102467975	102512361	-1	None	MGC5585, FLJ22618
7	None	ENSG00000205508	ENST00000443263	unprocessed_pseudogene	KNOWN	None	None	None	None	74910311	74916191	1	None	None
7	None	ENSG00000205508	ENST00000380417	unprocessed_pseudogene	KNOWN	None	None	None	None	74911591	74918380	1	None	None
2	None	ENSG00000228100	ENST00000418415	lincRNA	KNOWN	None	None	None	None	46619436	46621306	-1	None	None
9	MVB12B	ENSG00000196814	ENST00000361171	protein_coding	KNOWN	CCDS35142	23368	960	319	129089128	129269320	1	C9orf28, FAM125B	FLJ00001
9	MVB12B	ENSG00000196814	ENST00000489637	processed_transcript	KNOWN	None	23368	None	None	129089141	129159912	1	C9orf28, FAM125B	FLJ00001
9	MVB12B	ENSG00000196814	ENST00000402437	protein_coding	KNOWN	None	23368	617	204	129097498	129157976	1	C9orf28, FAM125B	FLJ00001
9	MVB12B	ENSG00000196814	ENST00000470567	processed_transcript	KNOWN	None	23368	None	None	129157919	129210688	1	C9orf28, FAM125B	FLJ00001
9	MVB12B	ENSG00000196814	ENST00000489570	processed_transcript	KNOWN	None	23368	None	None	129184133	129210688	1	C9orf28, FAM125B	FLJ00001
9	MVB12B	ENSG00000196814	ENST00000485886	processed_transcript	KNOWN	None	23368	None	None	129243092	129269320	1	C9orf28, FAM125B	FLJ00001
9	MVB12B	ENSG00000196814	ENST00000545391	protein_coding	KNOWN	CCDS48022	23368	666	221	129089128	129159912	1	C9orf28, FAM125B	FLJ00001
9	MVB12B	ENSG00000196814	ENST00000436593	protein_coding	KNOWN	None	23368	915	304	129097526	129265553	1	C9orf28, FAM125B	FLJ00001
9	MVB12B	ENSG00000196814	ENST00000535766	protein_coding	KNOWN	None	23368	645	214	129138722	129158208	1	C9orf28, FAM125B	FLJ00001
2	RN7SL817P	ENSG00000241791	ENST00000480777	misc_RNA	KNOWN	None	46833	None	None	46675365	46675650	-1	None	None
2	None	ENSG00000253515	ENST00000517716	antisense	KNOWN	None	None	None	None	46726870	46728417	1	None	None
2	None	ENSG00000250116	ENST00000506009	antisense	KNOWN	None	None	None	None	46795395	46807377	-1	None	None
12	ACVR1B	ENSG00000135503	ENST00000257963	protein_coding	KNOWN	CCDS8816	172	1518	505	52345451	52390862	1	ACVRLK4	ALK4, SKR2, ActRIB
12	ACVR1B	ENSG00000135503	ENST00000541224	protein_coding	NOVEL	CCDS44894	172	1641	546	52345485	52388001	1	ACVRLK4	ALK4, SKR2, ActRIB
12	ACVR1B	ENSG00000135503	ENST00000426655	protein_coding	KNOWN	None	172	1431	476	52345486	52386125	1	ACVRLK4	ALK4, SKR2, ActRIB
12	ACVR1B	ENSG00000135503	ENST00000536420	protein_coding	PUTATIVE	None	172	213	70	52345490	52370148	1	ACVRLK4	ALK4, SKR2, ActRIB
12	ACVR1B	ENSG00000135503	ENST00000415850	protein_coding	KNOWN	None	172	1464	487	52345528	52381130	1	ACVRLK4	ALK4, SKR2, ActRIB
12	ACVR1B	ENSG00000135503	ENST00000542485	protein_coding	NOVEL	CCDS44893	172	1362	453	52347164	52388709	1	ACVRLK4	ALK4, SKR2, ActRIB
12	ACVR1B	ENSG00000135503	ENST00000563121	processed_transcript	PUTATIVE	None	172	None	None	52377819	52385776	1	ACVRLK4	ALK4, SKR2, ActRIB
16	TUBB8P7	ENSG00000261812	ENST00000564451	processed_transcript	KNOWN	None	42345	None	None	90159562	90162762	1	None	None
16	TUBB8P7	ENSG00000261812	ENST00000567207	processed_transcript	KNOWN	None	42345	None	None	90160431	90162566	1	None	None
16	TUBB8P7	ENSG00000261812	ENST00000563927	processed_transcript	KNOWN	None	42345	None	None	90160431	90162597	1	None	None
16	TUBB8P7	ENSG00000261812	ENST00000567960	polymorphic_pseudogene	KNOWN	None	42345	1333	443	90160431	90162597	1	None	None
X	PRDX4	ENSG00000123131	ENST00000379349	protein_coding	KNOWN	None	17169	557	184	23682379	23697404	1	None	AOE37-2
X	PRDX4	ENSG00000123131	ENST00000379341	protein_coding	KNOWN	CCDS14206	17169	816	271	23685563	23704516	1	None	AOE37-2
X	PRDX4	ENSG00000123131	ENST00000495599	processed_transcript	KNOWN	None	17169	None	None	23685616	23697325	1	None	AOE37-2
X	PRDX4	ENSG00000123131	ENST00000379331	protein_coding	KNOWN	None	17169	561	186	23685668	23693579	1	None	AOE37-2
X	PRDX4	ENSG00000123131	ENST00000439422	protein_coding	KNOWN	None	17169	484	160	23693116	23704512	1	None	AOE37-2
7	PMS2P10	ENSG00000188073	ENST00000329909	unprocessed_pseudogene	KNOWN	None	9124	None	None	74917197	74928928	-1	PMS2L10	PMSR4
7	PMS2P10	ENSG00000188073	ENST00000439753	unprocessed_pseudogene	KNOWN	None	9124	None	None	74916804	74926845	-1	PMS2L10	PMSR4
2	None	ENSG00000260977	ENST00000568862	lincRNA	KNOWN	None	None	None	None	47004922	47007384	1	None	None
16	GSE1	ENSG00000131149	ENST00000405402	protein_coding	KNOWN	CCDS45539	28979	3342	1113	85645015	85706960	1	KIAA0182	None
16	GSE1	ENSG00000131149	ENST00000411612	protein_coding	NOVEL	None	28979	632	209	85646763	85689478	1	KIAA0182	None
16	GSE1	ENSG00000131149	ENST00000253458	protein_coding	KNOWN	CCDS10952	28979	3654	1217	85646822	85709810	1	KIAA0182	None
16	GSE1	ENSG00000131149	ENST00000393243	protein_coding	KNOWN	None	28979	3435	1144	85646958	85709810	1	KIAA0182	None
16	GSE1	ENSG00000131149	ENST00000412692	protein_coding	NOVEL	None	28979	2960	985	85688038	85709810	1	KIAA0182	None
16	GSE1	ENSG00000131149	ENST00000479488	retained_intron	KNOWN	None	28979	None	None	85695096	85696959	1	KIAA0182	None
16	GSE1	ENSG00000131149	ENST00000469381	retained_intron	KNOWN	None	28979	None	None	85695897	85709810	1	KIAA0182	None
16	GSE1	ENSG00000131149	ENST00000438180	protein_coding	PUTATIVE	None	28979	1259	418	85696972	85706499	1	KIAA0182	None
16	GSE1	ENSG00000131149	ENST00000495192	retained_intron	KNOWN	None	28979	None	None	85698146	85699610	1	KIAA0182	None
16	GSE1	ENSG00000131149	ENST00000562659	retained_intron	KNOWN	None	28979	None	None	85698626	85700228	1	KIAA0182	None
16	GSE1	ENSG00000131149	ENST00000496345	retained_intron	KNOWN	None	28979	None	None	85704234	85706102	1	KIAA0182	None
16	GSE1	ENSG00000131149	ENST00000471070	processed_transcript	KNOWN	None	28979	None	None	85705437	85706254	1	KIAA0182	None
5	RAD50	ENSG00000113522	ENST00000416135	protein_coding	PUTATIVE	None	9816	300	99	131891711	131915599	1	None	hRad50, RAD50-2
5	RAD50	ENSG00000113522	ENST00000533482	nonsense_mediated_decay	KNOWN	None	9816	309	102	131892630	131978168	1	None	hRad50, RAD50-2
5	RAD50	ENSG00000113522	ENST00000265335	protein_coding	KNOWN	CCDS34233	9816	3939	1312	131892630	131979752	1	None	hRad50, RAD50-2
5	RAD50	ENSG00000113522	ENST00000453394	protein_coding	NOVEL	None	9816	1982	659	131892923	131931460	1	None	hRad50, RAD50-2
5	RAD50	ENSG00000113522	ENST00000423956	nonsense_mediated_decay	KNOWN	None	9816	1656	551	131892923	131945031	1	None	hRad50, RAD50-2
5	RAD50	ENSG00000113522	ENST00000487596	processed_transcript	KNOWN	None	9816	None	None	131915437	131924499	1	None	hRad50, RAD50-2
5	RAD50	ENSG00000113522	ENST00000434288	protein_coding	PUTATIVE	None	9816	475	157	131926969	131929219	1	None	hRad50, RAD50-2
5	RAD50	ENSG00000113522	ENST00000496204	processed_transcript	KNOWN	None	9816	None	None	131930914	131939097	1	None	hRad50, RAD50-2
5	RAD50	ENSG00000113522	ENST00000489420	processed_transcript	PUTATIVE	None	9816	None	None	131939002	131940720	1	None	hRad50, RAD50-2
5	RAD50	ENSG00000113522	ENST00000455677	protein_coding	PUTATIVE	None	9816	472	156	131953963	131978873	1	None	hRad50, RAD50-2
5	RAD50	ENSG00000113522	ENST00000378823	protein_coding	KNOWN	None	9816	3522	1173	131892616	131980313	1	None	hRad50, RAD50-2
17	UNK	ENSG00000132478	ENST00000589666	protein_coding	KNOWN	CCDS45778	29369	2433	810	73780852	73821880	1	ZC3HDC5, ZC3H5	KIAA1753
17	UNK	ENSG00000132478	ENST00000589790	retained_intron	KNOWN	None	29369	None	None	73780923	73788246	1	ZC3HDC5, ZC3H5	KIAA1753
17	UNK	ENSG00000132478	ENST00000587501	nonsense_mediated_decay	KNOWN	None	29369	114	37	73780930	73790205	1	ZC3HDC5, ZC3H5	KIAA1753
17	UNK	ENSG00000132478	ENST00000586527	nonsense_mediated_decay	KNOWN	None	29369	120	39	73780936	73790279	1	ZC3HDC5, ZC3H5	KIAA1753
17	UNK	ENSG00000132478	ENST00000592629	nonsense_mediated_decay	KNOWN	None	29369	126	41	73780943	73808400	1	ZC3HDC5, ZC3H5	KIAA1753
17	UNK	ENSG00000132478	ENST00000592074	retained_intron	KNOWN	None	29369	None	None	73787852	73788717	1	ZC3HDC5, ZC3H5	KIAA1753
17	UNK	ENSG00000132478	ENST00000586217	nonsense_mediated_decay	KNOWN	None	29369	208	68	73808229	73811302	1	ZC3HDC5, ZC3H5	KIAA1753
17	UNK	ENSG00000132478	ENST00000587258	protein_coding	NOVEL	None	29369	660	219	73815820	73820410	1	ZC3HDC5, ZC3H5	KIAA1753
17	UNK	ENSG00000132478	ENST00000293218	protein_coding	KNOWN	None	29369	2661	886	73780681	73821886	1	ZC3HDC5, ZC3H5	KIAA1753
1	HENMT1	ENSG00000162639	ENST00000370031	protein_coding	KNOWN	None	26400	1275	424	109190917	109203677	-1	C1orf59	FLJ30525, HEN1
1	HENMT1	ENSG00000162639	ENST00000370032	protein_coding	KNOWN	CCDS787	26400	1182	393	109190917	109204148	-1	C1orf59	FLJ30525, HEN1
1	HENMT1	ENSG00000162639	ENST00000420055	protein_coding	KNOWN	None	26400	948	315	109191422	109203802	-1	C1orf59	FLJ30525, HEN1
1	HENMT1	ENSG00000162639	ENST00000493676	processed_transcript	KNOWN	None	26400	None	None	109191516	109203686	-1	C1orf59	FLJ30525, HEN1
1	HENMT1	ENSG00000162639	ENST00000483729	processed_transcript	KNOWN	None	26400	None	None	109192846	109194067	-1	C1orf59	FLJ30525, HEN1
1	HENMT1	ENSG00000162639	ENST00000402983	protein_coding	KNOWN	CCDS787	26400	1182	393	109190912	109203744	-1	C1orf59	FLJ30525, HEN1
22	None	ENSG00000234353	ENST00000430707	processed_transcript	KNOWN	None	None	None	None	23980679	23982949	-1	None	None
22	None	ENSG00000234353	ENST00000425948	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	23980865	23982612	-1	None	None
Y	TTTY4C	ENSG00000228296	ENST00000456123	lincRNA	KNOWN	None	31892	None	None	27209230	27246039	-1	None	LINC00125
2	None	ENSG00000226548	ENST00000453936	antisense	KNOWN	None	None	None	None	47079159	47080635	-1	None	None
12	ARPC3	ENSG00000111229	ENST00000228825	protein_coding	KNOWN	CCDS9146	706	537	178	110872630	110888212	-1	None	p21-Arc, ARC21
12	ARPC3	ENSG00000111229	ENST00000467622	retained_intron	KNOWN	None	706	None	None	110872715	110875104	-1	None	p21-Arc, ARC21
12	ARPC3	ENSG00000111229	ENST00000426440	protein_coding	PUTATIVE	None	706	298	98	110873983	110888116	-1	None	p21-Arc, ARC21
12	ARPC3	ENSG00000111229	ENST00000476566	retained_intron	KNOWN	None	706	None	None	110874392	110878312	-1	None	p21-Arc, ARC21
12	ARPC3	ENSG00000111229	ENST00000547365	protein_coding	PUTATIVE	None	706	254	83	110874463	110883392	-1	None	p21-Arc, ARC21
12	ARPC3	ENSG00000111229	ENST00000548878	retained_intron	KNOWN	None	706	None	None	110874540	110888073	-1	None	p21-Arc, ARC21
12	ARPC3	ENSG00000111229	ENST00000471641	processed_transcript	KNOWN	None	706	None	None	110880449	110888090	-1	None	p21-Arc, ARC21
12	ARPC3	ENSG00000111229	ENST00000475777	retained_intron	KNOWN	None	706	None	None	110882688	110888227	-1	None	p21-Arc, ARC21
12	ARPC3	ENSG00000111229	ENST00000549408	processed_transcript	PUTATIVE	None	706	None	None	110882874	110883290	-1	None	p21-Arc, ARC21
1	RASAL2	ENSG00000075391	ENST00000367649	protein_coding	KNOWN	CCDS1321	9874	3843	1280	178063276	178442557	1	None	nGAP
1	RASAL2	ENSG00000075391	ENST00000465723	processed_transcript	KNOWN	None	9874	None	None	178090096	178269190	1	None	nGAP
1	RASAL2	ENSG00000075391	ENST00000462775	protein_coding	KNOWN	CCDS1322	9874	3420	1139	178310606	178447985	1	None	nGAP
1	RASAL2	ENSG00000075391	ENST00000433130	protein_coding	PUTATIVE	None	9874	2080	692	178421572	178442657	1	None	nGAP
1	RASAL2	ENSG00000075391	ENST00000463079	retained_intron	KNOWN	None	9874	None	None	178425610	178427042	1	None	nGAP
1	RASAL2	ENSG00000075391	ENST00000448150	protein_coding	KNOWN	None	9874	3810	1269	178062864	178448644	1	None	nGAP
7	None	ENSG00000199641	ENST00000362771	misc_RNA	NOVEL	None	None	None	None	74927121	74927222	-1	None	None
6	RBM24	ENSG00000112183	ENST00000379052	protein_coding	KNOWN	CCDS47378	21539	711	236	17281577	17294106	1	RNPC6	FLJ30829, dJ259A10.1
6	RBM24	ENSG00000112183	ENST00000509686	protein_coding	PUTATIVE	None	21539	243	80	17281936	17293261	1	RNPC6	FLJ30829, dJ259A10.1
6	RBM24	ENSG00000112183	ENST00000425446	protein_coding	KNOWN	CCDS47379	21539	537	178	17282295	17292685	1	RNPC6	FLJ30829, dJ259A10.1
6	RBM24	ENSG00000112183	ENST00000503965	protein_coding	PUTATIVE	None	21539	605	200	17282568	17292367	1	RNPC6	FLJ30829, dJ259A10.1
6	RBM24	ENSG00000112183	ENST00000318204	protein_coding	KNOWN	CCDS4538	21539	576	191	17282932	17294097	1	RNPC6	FLJ30829, dJ259A10.1
6	RBM24	ENSG00000112183	ENST00000504055	processed_transcript	KNOWN	None	21539	None	None	17283275	17292448	1	RNPC6	FLJ30829, dJ259A10.1
6	RBM24	ENSG00000112183	ENST00000510826	processed_transcript	KNOWN	None	21539	None	None	17290086	17292994	1	RNPC6	FLJ30829, dJ259A10.1
6	RBM24	ENSG00000112183	ENST00000508508	processed_transcript	KNOWN	None	21539	None	None	17290200	17293254	1	RNPC6	FLJ30829, dJ259A10.1
Y	ZNF736P4Y	ENSG00000236379	ENST00000454995	processed_pseudogene	KNOWN	None	38464	None	None	27314746	27315988	1	None	None
2	None	ENSG00000228925	ENST00000429761	antisense	KNOWN	None	None	None	None	47126414	47135817	1	None	None
14	SPATA7	ENSG00000042317	ENST00000556553	protein_coding	KNOWN	CCDS32132	20423	1704	567	88851268	88904804	1	LCA3	HSD3
14	SPATA7	ENSG00000042317	ENST00000393545	protein_coding	KNOWN	CCDS9883	20423	1800	599	88851874	88904800	1	LCA3	HSD3
14	SPATA7	ENSG00000042317	ENST00000554168	nonsense_mediated_decay	KNOWN	None	20423	141	46	88851982	88883188	1	LCA3	HSD3
14	SPATA7	ENSG00000042317	ENST00000556870	nonsense_mediated_decay	KNOWN	None	20423	162	53	88851988	88892848	1	LCA3	HSD3
14	SPATA7	ENSG00000042317	ENST00000555534	nonsense_mediated_decay	KNOWN	None	20423	258	85	88851993	88892861	1	LCA3	HSD3
14	SPATA7	ENSG00000042317	ENST00000557724	nonsense_mediated_decay	KNOWN	None	20423	141	46	88852017	88862537	1	LCA3	HSD3
14	SPATA7	ENSG00000042317	ENST00000555715	nonsense_mediated_decay	KNOWN	None	20423	129	42	88852017	88862547	1	LCA3	HSD3
14	SPATA7	ENSG00000042317	ENST00000555356	nonsense_mediated_decay	KNOWN	None	20423	141	46	88852017	88883105	1	LCA3	HSD3
14	SPATA7	ENSG00000042317	ENST00000554102	processed_transcript	KNOWN	None	20423	None	None	88852020	88877127	1	LCA3	HSD3
14	SPATA7	ENSG00000042317	ENST00000555515	nonsense_mediated_decay	KNOWN	None	20423	246	81	88852022	88893029	1	LCA3	HSD3
14	SPATA7	ENSG00000042317	ENST00000555401	protein_coding	NOVEL	None	20423	416	137	88852034	88892790	1	LCA3	HSD3
14	SPATA7	ENSG00000042317	ENST00000553626	retained_intron	KNOWN	None	20423	None	None	88852035	88904797	1	LCA3	HSD3
14	SPATA7	ENSG00000042317	ENST00000553885	protein_coding	NOVEL	None	20423	684	227	88852042	88892929	1	LCA3	HSD3
14	SPATA7	ENSG00000042317	ENST00000557567	retained_intron	KNOWN	None	20423	None	None	88852044	88859980	1	LCA3	HSD3
14	SPATA7	ENSG00000042317	ENST00000557248	nonsense_mediated_decay	KNOWN	None	20423	261	86	88852083	88892946	1	LCA3	HSD3
14	SPATA7	ENSG00000042317	ENST00000553908	nonsense_mediated_decay	KNOWN	None	20423	150	49	88852088	88892864	1	LCA3	HSD3
14	SPATA7	ENSG00000042317	ENST00000045347	protein_coding	KNOWN	None	20423	1377	458	88852163	88904799	1	LCA3	HSD3
14	SPATA7	ENSG00000042317	ENST00000556666	retained_intron	KNOWN	None	20423	None	None	88882270	88904799	1	LCA3	HSD3
14	SPATA7	ENSG00000042317	ENST00000556406	protein_coding	PUTATIVE	None	20423	275	90	88897515	88936694	1	LCA3	HSD3
14	SPATA7	ENSG00000042317	ENST00000553303	retained_intron	KNOWN	None	20423	None	None	88898967	88904421	1	LCA3	HSD3
14	SPATA7	ENSG00000042317	ENST00000554802	protein_coding	PUTATIVE	None	20423	231	76	88899501	88921627	1	LCA3	HSD3
14	SPATA7	ENSG00000042317	ENST00000356583	protein_coding	KNOWN	CCDS32132	20423	1704	567	88851988	88904802	1	LCA3	HSD3
10	SHOC2	ENSG00000108061	ENST00000369452	protein_coding	KNOWN	CCDS7568	15454	1749	582	112679305	112773425	1	None	KIAA0862, SOC2, SUR-8, SOC-2, SUR8
10	SHOC2	ENSG00000108061	ENST00000480155	processed_transcript	KNOWN	None	15454	None	None	112679351	112724282	1	None	KIAA0862, SOC2, SUR-8, SOC-2, SUR8
10	SHOC2	ENSG00000108061	ENST00000489390	processed_transcript	KNOWN	None	15454	None	None	112679361	112771428	1	None	KIAA0862, SOC2, SUR-8, SOC-2, SUR8
10	SHOC2	ENSG00000108061	ENST00000489783	processed_transcript	KNOWN	None	15454	None	None	112679761	112724487	1	None	KIAA0862, SOC2, SUR-8, SOC-2, SUR8
10	SHOC2	ENSG00000108061	ENST00000451838	protein_coding	KNOWN	None	15454	1119	372	112724609	112773424	1	None	KIAA0862, SOC2, SUR-8, SOC-2, SUR8
10	SHOC2	ENSG00000108061	ENST00000497305	processed_transcript	KNOWN	None	15454	None	None	112724790	112745680	1	None	KIAA0862, SOC2, SUR-8, SOC-2, SUR8
10	SHOC2	ENSG00000108061	ENST00000265277	protein_coding	KNOWN	CCDS58095	15454	1611	536	112679301	112773422	1	None	KIAA0862, SOC2, SUR-8, SOC-2, SUR8
X	RNU6-330P	ENSG00000199885	ENST00000363015	snRNA	KNOWN	None	47293	None	None	73899888	73899994	1	None	None
17	GOSR2	ENSG00000108433	ENST00000576910	protein_coding	NOVEL	None	4431	498	165	45000483	45017226	1	None	GS27, Bos1
17	GOSR2	ENSG00000108433	ENST00000393456	protein_coding	KNOWN	CCDS42355	4431	639	212	45000502	45016277	1	None	GS27, Bos1
17	GOSR2	ENSG00000108433	ENST00000571658	retained_intron	KNOWN	None	4431	None	None	45000504	45007284	1	None	GS27, Bos1
17	GOSR2	ENSG00000108433	ENST00000415811	protein_coding	KNOWN	CCDS45719	4431	588	195	45000504	45014205	1	None	GS27, Bos1
17	GOSR2	ENSG00000108433	ENST00000575949	protein_coding	PUTATIVE	None	4431	432	143	45000519	45009832	1	None	GS27, Bos1
17	GOSR2	ENSG00000108433	ENST00000225567	protein_coding	KNOWN	CCDS11507	4431	642	213	45000528	45018161	1	None	GS27, Bos1
17	GOSR2	ENSG00000108433	ENST00000571048	retained_intron	KNOWN	None	4431	None	None	45000532	45009608	1	None	GS27, Bos1
17	GOSR2	ENSG00000108433	ENST00000572403	protein_coding	PUTATIVE	None	4431	449	148	45000538	45041123	1	None	GS27, Bos1
17	GOSR2	ENSG00000108433	ENST00000570879	protein_coding	NOVEL	None	4431	597	198	45000563	45016091	1	None	GS27, Bos1
17	GOSR2	ENSG00000108433	ENST00000573224	protein_coding	PUTATIVE	None	4431	297	98	45015965	45044385	1	None	GS27, Bos1
17	GOSR2	ENSG00000108433	ENST00000439730	protein_coding	KNOWN	None	4431	699	232	45000499	45105003	1	None	GS27, Bos1
11	DPP3	ENSG00000254986	ENST00000531863	protein_coding	PUTATIVE	None	3008	2274	757	66247484	66277021	1	None	None
11	DPP3	ENSG00000254986	ENST00000532677	protein_coding	PUTATIVE	None	3008	2271	756	66247484	66277128	1	None	None
11	DPP3	ENSG00000254986	ENST00000541961	protein_coding	KNOWN	CCDS8141	3008	2214	737	66247902	66277128	1	None	None
11	DPP3	ENSG00000254986	ENST00000531272	processed_transcript	KNOWN	None	3008	None	None	66247905	66254063	1	None	None
11	DPP3	ENSG00000254986	ENST00000532019	protein_coding	PUTATIVE	None	3008	312	103	66247906	66255429	1	None	None
11	DPP3	ENSG00000254986	ENST00000526515	protein_coding	NOVEL	None	3008	511	169	66247909	66255412	1	None	None
11	DPP3	ENSG00000254986	ENST00000530165	protein_coding	NOVEL	CCDS58147	3008	2124	707	66247909	66276816	1	None	None
11	DPP3	ENSG00000254986	ENST00000533725	protein_coding	PUTATIVE	None	3008	532	176	66247910	66259004	1	None	None
11	DPP3	ENSG00000254986	ENST00000544603	processed_transcript	KNOWN	None	3008	None	None	66247915	66254070	1	None	None
11	DPP3	ENSG00000254986	ENST00000531314	protein_coding	KNOWN	None	3008	270	89	66248212	66249941	1	None	None
11	DPP3	ENSG00000254986	ENST00000531354	protein_coding	KNOWN	None	3008	603	200	66249542	66255414	1	None	None
11	DPP3	ENSG00000254986	ENST00000526250	retained_intron	KNOWN	None	3008	None	None	66259076	66263221	1	None	None
11	DPP3	ENSG00000254986	ENST00000526667	retained_intron	KNOWN	None	3008	None	None	66259202	66263221	1	None	None
11	DPP3	ENSG00000254986	ENST00000533799	processed_transcript	KNOWN	None	3008	None	None	66259900	66262895	1	None	None
11	DPP3	ENSG00000254986	ENST00000525738	processed_transcript	PUTATIVE	None	3008	None	None	66259938	66260650	1	None	None
11	DPP3	ENSG00000254986	ENST00000539085	processed_transcript	PUTATIVE	None	3008	None	None	66272116	66276802	1	None	None
11	DPP3	ENSG00000254986	ENST00000360510	protein_coding	KNOWN	CCDS8141	3008	2214	737	66247880	66277130	1	None	None
11	DPP3	ENSG00000254986	ENST00000453114	protein_coding	KNOWN	CCDS8141	3008	2214	737	66247880	66277130	1	None	None
X	None	ENSG00000271589	ENST00000603662	processed_pseudogene	KNOWN	None	None	None	None	73989474	73989633	1	None	None
X	None	ENSG00000229661	ENST00000449374	processed_pseudogene	KNOWN	None	None	None	None	74421326	74421625	1	None	None
X	S100G	ENSG00000169906	ENST00000380200	protein_coding	KNOWN	CCDS14176	1436	240	79	16668281	16672793	1	CALB3	CABP9K, CABP1
5	None	ENSG00000271762	ENST00000607854	lincRNA	KNOWN	None	None	None	None	90608874	90610219	-1	None	None
13	LMO7	ENSG00000136153	ENST00000341547	protein_coding	KNOWN	CCDS9454	6646	4050	1349	76194570	76434002	1	FBXO20	FBX20, KIAA0858
13	LMO7	ENSG00000136153	ENST00000533299	retained_intron	KNOWN	None	6646	None	None	76197405	76201477	1	FBXO20	FBX20, KIAA0858
13	LMO7	ENSG00000136153	ENST00000533305	processed_transcript	KNOWN	None	6646	None	None	76209946	76378471	1	FBXO20	FBX20, KIAA0858
13	LMO7	ENSG00000136153	ENST00000377499	protein_coding	PUTATIVE	None	6646	3137	1044	76210459	76419504	1	FBXO20	FBX20, KIAA0858
13	LMO7	ENSG00000136153	ENST00000534657	protein_coding	PUTATIVE	None	6646	37	11	76334503	76378499	1	FBXO20	FBX20, KIAA0858
13	LMO7	ENSG00000136153	ENST00000321797	protein_coding	PUTATIVE	None	6646	4197	1398	76334570	76432808	1	FBXO20	FBX20, KIAA0858
13	LMO7	ENSG00000136153	ENST00000465309	processed_transcript	KNOWN	None	6646	None	None	76334589	76378438	1	FBXO20	FBX20, KIAA0858
13	LMO7	ENSG00000136153	ENST00000526202	protein_coding	NOVEL	None	6646	3828	1275	76334795	76432292	1	FBXO20	FBX20, KIAA0858
13	LMO7	ENSG00000136153	ENST00000465261	protein_coding	PUTATIVE	CCDS53876	6646	4158	1385	76334797	76432811	1	FBXO20	FBX20, KIAA0858
13	LMO7	ENSG00000136153	ENST00000497947	protein_coding	PUTATIVE	None	6646	363	120	76362974	76391414	1	FBXO20	FBX20, KIAA0858
13	LMO7	ENSG00000136153	ENST00000526371	protein_coding	PUTATIVE	None	6646	497	164	76378310	76379896	1	FBXO20	FBX20, KIAA0858
13	LMO7	ENSG00000136153	ENST00000526528	protein_coding	PUTATIVE	None	6646	423	140	76378314	76381823	1	FBXO20	FBX20, KIAA0858
13	LMO7	ENSG00000136153	ENST00000489941	protein_coding	PUTATIVE	None	6646	497	164	76378363	76393662	1	FBXO20	FBX20, KIAA0858
13	LMO7	ENSG00000136153	ENST00000525373	protein_coding	PUTATIVE	None	6646	575	190	76378366	76395411	1	FBXO20	FBX20, KIAA0858
13	LMO7	ENSG00000136153	ENST00000447038	protein_coding	NOVEL	None	6646	3165	1054	76378456	76419504	1	FBXO20	FBX20, KIAA0858
13	LMO7	ENSG00000136153	ENST00000532785	retained_intron	KNOWN	None	6646	None	None	76390922	76393634	1	FBXO20	FBX20, KIAA0858
13	LMO7	ENSG00000136153	ENST00000532377	retained_intron	KNOWN	None	6646	None	None	76393414	76395649	1	FBXO20	FBX20, KIAA0858
13	LMO7	ENSG00000136153	ENST00000485987	processed_transcript	KNOWN	None	6646	None	None	76397762	76412588	1	FBXO20	FBX20, KIAA0858
13	LMO7	ENSG00000136153	ENST00000524651	protein_coding	PUTATIVE	None	6646	914	303	76397846	76415337	1	FBXO20	FBX20, KIAA0858
13	LMO7	ENSG00000136153	ENST00000525107	protein_coding	PUTATIVE	None	6646	536	177	76407221	76414246	1	FBXO20	FBX20, KIAA0858
13	LMO7	ENSG00000136153	ENST00000525914	protein_coding	PUTATIVE	None	6646	874	290	76408435	76417023	1	FBXO20	FBX20, KIAA0858
13	LMO7	ENSG00000136153	ENST00000533809	protein_coding	PUTATIVE	None	6646	297	98	76413852	76415322	1	FBXO20	FBX20, KIAA0858
13	LMO7	ENSG00000136153	ENST00000482116	retained_intron	KNOWN	None	6646	None	None	76423112	76430853	1	FBXO20	FBX20, KIAA0858
13	LMO7	ENSG00000136153	ENST00000467686	retained_intron	KNOWN	None	6646	None	None	76429085	76430812	1	FBXO20	FBX20, KIAA0858
13	LMO7	ENSG00000136153	ENST00000605961	processed_transcript	KNOWN	None	6646	None	None	76430773	76432811	1	FBXO20	FBX20, KIAA0858
13	LMO7	ENSG00000136153	ENST00000357063	protein_coding	KNOWN	None	6646	5013	1670	76194570	76434004	1	FBXO20	FBX20, KIAA0858
13	LMO7	ENSG00000136153	ENST00000377534	protein_coding	KNOWN	None	6646	4845	1614	76194570	76434004	1	FBXO20	FBX20, KIAA0858
X	RNU6-562P	ENSG00000199601	ENST00000362731	snRNA	KNOWN	None	47525	None	None	74422538	74422644	1	None	None
X	None	ENSG00000232186	ENST00000432946	processed_pseudogene	KNOWN	None	None	None	None	74546607	74547834	-1	None	None
X	RPL21P134	ENSG00000233254	ENST00000453468	processed_pseudogene	KNOWN	None	36006	None	None	74604181	74604663	1	None	None
11	TREH	ENSG00000118094	ENST00000529101	protein_coding	KNOWN	None	12266	1734	577	118528026	118550382	-1	None	TRE, TREA, MGC129621
11	TREH	ENSG00000118094	ENST00000530256	protein_coding	PUTATIVE	None	12266	1365	454	118528942	118550359	-1	None	TRE, TREA, MGC129621
11	TREH	ENSG00000118094	ENST00000525958	protein_coding	KNOWN	None	12266	1641	546	118528979	118550375	-1	None	TRE, TREA, MGC129621
11	TREH	ENSG00000118094	ENST00000531295	retained_intron	KNOWN	None	12266	None	None	118530518	118550355	-1	None	TRE, TREA, MGC129621
11	TREH	ENSG00000118094	ENST00000527558	retained_intron	KNOWN	None	12266	None	None	118533440	118550399	-1	None	TRE, TREA, MGC129621
11	TREH	ENSG00000118094	ENST00000264029	protein_coding	KNOWN	None	12266	1749	582	118528942	118550381	-1	None	TRE, TREA, MGC129621
11	TREH	ENSG00000118094	ENST00000397925	protein_coding	KNOWN	None	12266	1656	551	118528999	118550381	-1	None	TRE, TREA, MGC129621
1	NR0B2	ENSG00000131910	ENST00000254227	protein_coding	KNOWN	CCDS291	7961	774	257	27237980	27240457	-1	None	SHP
19	ZNF812	ENSG00000224689	ENST00000536819	processed_transcript	KNOWN	None	33242	None	None	9800600	9811452	-1	None	None
19	ZNF812	ENSG00000224689	ENST00000457674	protein_coding	NOVEL	CCDS54215	33242	1365	454	9800600	9811452	-1	None	None
19	ZNF812	ENSG00000224689	ENST00000590544	protein_coding	PUTATIVE	None	33242	97	31	9801770	9811452	-1	None	None
19	ZNF812	ENSG00000224689	ENST00000585964	protein_coding	KNOWN	None	33242	86	27	9805483	9811348	-1	None	None
X	PCNPP4	ENSG00000237089	ENST00000414817	processed_pseudogene	KNOWN	None	41976	None	None	74757382	74758537	-1	None	None
HSCHR6_MHC_QBL	HSPA1L	ENSG00000206383	ENST00000383390	protein_coding	KNOWN	None	5234	1926	641	31767647	31773092	-1	None	HSP70-HOM, hum70t
22	ASLP1	ENSG00000244723	ENST00000428790	unprocessed_pseudogene	KNOWN	None	747	None	None	23991400	23995521	-1	ASLL	None
11	SAC3D1	ENSG00000168061	ENST00000531072	protein_coding	KNOWN	CCDS41668	30179	1077	358	64808373	64812271	1	None	HSU79266, SHD1
11	SAC3D1	ENSG00000168061	ENST00000533017	processed_transcript	KNOWN	None	30179	None	None	64808413	64812145	1	None	HSU79266, SHD1
11	SAC3D1	ENSG00000168061	ENST00000528109	processed_transcript	KNOWN	None	30179	None	None	64808425	64812300	1	None	HSU79266, SHD1
11	SAC3D1	ENSG00000168061	ENST00000530213	processed_transcript	KNOWN	None	30179	None	None	64808442	64812300	1	None	HSU79266, SHD1
11	SAC3D1	ENSG00000168061	ENST00000529996	protein_coding	PUTATIVE	None	30179	720	239	64808717	64812300	1	None	HSU79266, SHD1
11	SAC3D1	ENSG00000168061	ENST00000398846	protein_coding	KNOWN	CCDS41668	30179	1077	358	64808376	64812299	1	None	HSU79266, SHD1
11	LGR4	ENSG00000205213	ENST00000379214	protein_coding	KNOWN	CCDS31449	13299	2856	951	27387508	27494293	-1	GPR48	None
11	LGR4	ENSG00000205213	ENST00000389858	protein_coding	NOVEL	None	13299	2784	927	27387508	27494322	-1	GPR48	None
11	LGR4	ENSG00000205213	ENST00000489910	retained_intron	KNOWN	None	13299	None	None	27394547	27395547	-1	GPR48	None
11	LGR4	ENSG00000205213	ENST00000530658	retained_intron	KNOWN	None	13299	None	None	27398705	27400730	-1	GPR48	None
11	LGR4	ENSG00000205213	ENST00000527773	retained_intron	KNOWN	None	13299	None	None	27405815	27407079	-1	GPR48	None
11	LGR4	ENSG00000205213	ENST00000480977	protein_coding	PUTATIVE	None	13299	477	158	27406793	27493861	-1	GPR48	None
22	None	ENSG00000270041	ENST00000602816	lincRNA	KNOWN	None	None	None	None	24080865	24081476	-1	None	None
1	C1orf172	ENSG00000175707	ENST00000320567	protein_coding	KNOWN	CCDS293	26624	1197	398	27276053	27286897	-1	None	FLJ34633, RP11-344H11.3
22	RN7SL268P	ENSG00000244425	ENST00000491172	misc_RNA	KNOWN	None	46284	None	None	24221682	24221977	-1	None	None
22	None	ENSG00000225282	ENST00000439492	processed_pseudogene	KNOWN	None	None	None	None	24269087	24271761	1	None	None
4	ENPP7P9	ENSG00000250476	ENST00000514456	processed_pseudogene	KNOWN	None	48692	None	None	3968761	3969387	-1	None	None
5	FAM105A	ENSG00000145569	ENST00000274217	protein_coding	KNOWN	CCDS3884	25629	1071	356	14581884	14612829	1	None	FLJ11127, NET20
5	FAM105A	ENSG00000145569	ENST00000513825	processed_transcript	KNOWN	None	25629	None	None	14601074	14607479	1	None	FLJ11127, NET20
5	FAM105A	ENSG00000145569	ENST00000506258	processed_transcript	PUTATIVE	None	25629	None	None	14610447	14615116	1	None	FLJ11127, NET20
4	None	ENSG00000264106	ENST00000408832	miRNA	NOVEL	None	None	None	None	4038811	4038914	1	None	None
4	None	ENSG00000243894	ENST00000485355	processed_pseudogene	KNOWN	None	None	None	None	4078438	4079218	-1	None	None
6	MIR548A2	ENSG00000207689	ENST00000384956	miRNA	KNOWN	None	32797	None	None	135560298	135560394	1	MIRN548A2	hsa-mir-548a-2
4	None	ENSG00000221301	ENST00000408374	miRNA	NOVEL	None	None	None	None	4086061	4086208	1	None	None
4	None	ENSG00000250940	ENST00000506136	processed_pseudogene	KNOWN	None	None	None	None	4088365	4088541	1	None	None
6	None	ENSG00000224374	ENST00000434255	antisense	KNOWN	None	None	None	None	135581134	135582071	1	None	None
14	NOVA1	ENSG00000139910	ENST00000483536	nonsense_mediated_decay	KNOWN	None	7886	366	121	26912299	27066725	-1	None	None
14	NOVA1	ENSG00000139910	ENST00000465357	protein_coding	KNOWN	CCDS32060	7886	1452	483	26915094	27066692	-1	None	None
14	NOVA1	ENSG00000139910	ENST00000539517	protein_coding	KNOWN	CCDS32061	7886	1524	507	26915095	27066960	-1	None	None
14	NOVA1	ENSG00000139910	ENST00000449198	protein_coding	PUTATIVE	None	7886	832	276	26917734	27065281	-1	None	None
14	NOVA1	ENSG00000139910	ENST00000347476	protein_coding	PUTATIVE	None	7886	327	108	26917924	27064705	-1	None	None
14	NOVA1	ENSG00000139910	ENST00000546546	nonsense_mediated_decay	KNOWN	None	7886	150	49	26917940	27064679	-1	None	None
14	NOVA1	ENSG00000139910	ENST00000549146	protein_coding	PUTATIVE	None	7886	289	95	26918034	27064832	-1	None	None
14	NOVA1	ENSG00000139910	ENST00000549571	protein_coding	PUTATIVE	None	7886	520	172	26918058	27066288	-1	None	None
14	NOVA1	ENSG00000139910	ENST00000344429	protein_coding	KNOWN	CCDS9635	7886	546	181	26939324	27066646	-1	None	None
14	NOVA1	ENSG00000139910	ENST00000547619	protein_coding	PUTATIVE	None	7886	636	211	26941157	27066701	-1	None	None
14	NOVA1	ENSG00000139910	ENST00000574031	protein_coding	PUTATIVE	None	7886	459	152	26948223	27066666	-1	None	None
14	NOVA1	ENSG00000139910	ENST00000551754	processed_transcript	KNOWN	None	7886	None	None	26988405	27064667	-1	None	None
14	NOVA1	ENSG00000139910	ENST00000547415	retained_intron	KNOWN	None	7886	None	None	27018557	27064684	-1	None	None
14	NOVA1	ENSG00000139910	ENST00000267422	protein_coding	KNOWN	None	7886	1158	385	26916770	27066642	-1	None	None
5	None	ENSG00000240388	ENST00000495909	processed_pseudogene	KNOWN	None	None	None	None	90650295	90650751	1	None	None
5	None	ENSG00000250978	ENST00000508512	lincRNA	KNOWN	None	None	None	None	66759637	66771305	-1	None	None
5	None	ENSG00000250978	ENST00000515184	retained_intron	KNOWN	None	None	None	None	66760863	66771420	-1	None	None
5	None	ENSG00000241059	ENST00000484429	antisense	KNOWN	None	None	None	None	90651197	90651843	1	None	None
6	None	ENSG00000234084	ENST00000444302	antisense	KNOWN	None	None	None	None	135622706	135628296	1	None	None
12	UBC	ENSG00000150991	ENST00000536769	protein_coding	KNOWN	CCDS9260	12468	2058	685	125396150	125399894	-1	None	None
12	UBC	ENSG00000150991	ENST00000538617	protein_coding	PUTATIVE	None	12468	918	305	125396192	125399849	-1	None	None
12	UBC	ENSG00000150991	ENST00000339647	protein_coding	KNOWN	CCDS9260	12468	2058	685	125396194	125399693	-1	None	None
12	UBC	ENSG00000150991	ENST00000541272	protein_coding	KNOWN	None	12468	509	168	125397581	125398620	-1	None	None
12	UBC	ENSG00000150991	ENST00000540351	protein_coding	KNOWN	None	12468	482	159	125397836	125398687	-1	None	None
12	UBC	ENSG00000150991	ENST00000541645	protein_coding	KNOWN	None	12468	466	154	125397852	125398665	-1	None	None
12	UBC	ENSG00000150991	ENST00000535131	protein_coding	KNOWN	None	12468	449	148	125397869	125398625	-1	None	None
12	UBC	ENSG00000150991	ENST00000544481	processed_transcript	PUTATIVE	None	12468	None	None	125397896	125398611	-1	None	None
12	UBC	ENSG00000150991	ENST00000546271	protein_coding	KNOWN	None	12468	410	135	125397908	125398989	-1	None	None
12	UBC	ENSG00000150991	ENST00000540700	protein_coding	KNOWN	None	12468	402	133	125397916	125399137	-1	None	None
12	UBC	ENSG00000150991	ENST00000535859	protein_coding	KNOWN	None	12468	368	121	125397950	125398850	-1	None	None
12	UBC	ENSG00000150991	ENST00000536661	processed_transcript	PUTATIVE	None	12468	None	None	125398133	125399577	-1	None	None
12	UBC	ENSG00000150991	ENST00000542416	protein_coding	KNOWN	None	12468	185	60	125398133	125401914	-1	None	None
12	UBC	ENSG00000150991	ENST00000546120	protein_coding	KNOWN	None	12468	1830	609	125396194	125399196	-1	None	None
5	RAB5CP2	ENSG00000251356	ENST00000505368	processed_pseudogene	KNOWN	None	45106	None	None	90772199	90772835	1	None	None
HSCHR6_MHC_QBL	HSPA1A	ENSG00000215328	ENST00000400040	protein_coding	KNOWN	None	5232	1926	641	31773491	31775973	1	HSPA1	HSP70-1
HSCHR6_MHC_QBL	HSPA1A	ENSG00000215328	ENST00000383389	protein_coding	KNOWN	None	5232	1431	476	31773570	31775973	1	HSPA1	HSP70-1
6	RNU1-34P	ENSG00000201291	ENST00000364421	snRNA	KNOWN	None	48376	None	None	76183454	76183610	-1	None	None
1	TRNP1	ENSG00000253368	ENST00000522111	protein_coding	KNOWN	CCDS41289	34348	684	227	27320198	27327389	1	C1orf225	LOC388610
1	TRNP1	ENSG00000253368	ENST00000531285	protein_coding	KNOWN	None	34348	152	49	27320810	27326600	1	C1orf225	LOC388610
5	PCBP2P3	ENSG00000248826	ENST00000509726	processed_pseudogene	KNOWN	None	39032	None	None	91139504	91140346	-1	None	None
6	RPL26P20	ENSG00000219722	ENST00000403318	processed_pseudogene	KNOWN	None	35933	None	None	76209421	76209852	1	None	None
14	OR11H6	ENSG00000176219	ENST00000315519	protein_coding	KNOWN	CCDS32033	15349	993	330	20691791	20692964	1	None	None
6	None	ENSG00000201012	ENST00000364142	misc_RNA	NOVEL	None	None	None	None	135795642	135795747	-1	None	None
5	None	ENSG00000222939	ENST00000411007	miRNA	NOVEL	None	None	None	None	66760350	66760436	-1	None	None
5	None	ENSG00000239870	ENST00000468416	processed_pseudogene	KNOWN	None	None	None	None	66904482	66904958	1	None	None
X	SYAP1	ENSG00000169895	ENST00000380155	protein_coding	KNOWN	CCDS14177	16273	1059	352	16737755	16783459	1	None	FLJ14495, PRO3113
X	SYAP1	ENSG00000169895	ENST00000495743	processed_transcript	KNOWN	None	16273	None	None	16737894	16754644	1	None	FLJ14495, PRO3113
6	None	ENSG00000220730	ENST00000402607	processed_pseudogene	KNOWN	None	None	None	None	76295838	76296177	1	None	None
14	OR11H7	ENSG00000258806	ENST00000553765	polymorphic_pseudogene	KNOWN	None	15350	940	312	20697561	20698500	1	OR11H7P	None
5	None	ENSG00000249736	ENST00000507298	lincRNA	KNOWN	None	None	None	None	66928094	66942617	-1	None	None
HSCHR6_MHC_MANN	None	ENSG00000258296	ENST00000552241	protein_coding	NOVEL	None	None	24	7	32849115	32852880	-1	None	None
5	None	ENSG00000249238	ENST00000506012	processed_pseudogene	KNOWN	None	None	None	None	66932210	66934770	1	None	None
6	RNU6-1338P	ENSG00000252137	ENST00000516328	snRNA	KNOWN	None	48301	None	None	76302771	76302861	1	None	None
6	LINC00271	ENSG00000231028	ENST00000579339	lincRNA	KNOWN	None	32526	None	None	135818939	135839927	1	C6orf217, NCRNA00271	None
6	LINC00271	ENSG00000231028	ENST00000580741	lincRNA	KNOWN	None	32526	None	None	135818944	135839927	1	C6orf217, NCRNA00271	None
6	LINC00271	ENSG00000231028	ENST00000421378	lincRNA	KNOWN	None	32526	None	None	135818992	136011973	1	C6orf217, NCRNA00271	None
6	LINC00271	ENSG00000231028	ENST00000579057	lincRNA	KNOWN	None	32526	None	None	135819075	135838197	1	C6orf217, NCRNA00271	None
6	LINC00271	ENSG00000231028	ENST00000436554	lincRNA	KNOWN	None	32526	None	None	135819094	135842287	1	C6orf217, NCRNA00271	None
6	LINC00271	ENSG00000231028	ENST00000438618	lincRNA	KNOWN	None	32526	None	None	135819107	135964093	1	C6orf217, NCRNA00271	None
6	LINC00271	ENSG00000231028	ENST00000579944	lincRNA	KNOWN	None	32526	None	None	135993452	136037193	1	C6orf217, NCRNA00271	None
6	LINC00271	ENSG00000231028	ENST00000536296	lincRNA	KNOWN	None	32526	None	None	135818489	135839927	1	C6orf217, NCRNA00271	None
14	OR11H4	ENSG00000176198	ENST00000315409	protein_coding	KNOWN	CCDS32034	15347	975	324	20710898	20711979	1	None	None
5	None	ENSG00000250669	ENST00000515142	processed_pseudogene	KNOWN	None	None	None	None	66985861	66986265	-1	None	None
6	None	ENSG00000217488	ENST00000533798	processed_transcript	KNOWN	None	None	None	None	76320674	76321504	-1	None	None
6	None	ENSG00000217488	ENST00000402263	transcribed_processed_pseudogene	KNOWN	None	None	None	None	76320906	76321661	-1	None	None
HSCHR6_MHC_MANN	HLA-DQA2	ENSG00000231823	ENST00000453672	protein_coding	KNOWN	None	4943	768	255	32862880	32868441	1	HLA-DXA	None
6	RNU6-1016P	ENSG00000252498	ENST00000516689	snRNA	KNOWN	None	47979	None	None	76353800	76353893	1	None	None
1	FAM46B	ENSG00000158246	ENST00000289166	protein_coding	KNOWN	CCDS294	28273	1278	425	27331511	27339327	-1	None	MGC16491
6	RN7SKP163	ENSG00000200091	ENST00000363221	misc_RNA	KNOWN	None	45887	None	None	76364686	76365015	-1	None	None
6	RNU6-155P	ENSG00000252156	ENST00000516347	snRNA	KNOWN	None	47118	None	None	76477776	76477875	-1	None	None
6	RNA5SP209	ENSG00000223169	ENST00000411237	rRNA	KNOWN	None	43109	None	None	76574956	76575052	-1	RN5S209	None
2	FOXN2	ENSG00000170802	ENST00000413569	protein_coding	KNOWN	None	5281	740	245	48541776	48600467	1	HTLF	None
2	FOXN2	ENSG00000170802	ENST00000340553	protein_coding	KNOWN	CCDS1838	5281	1296	431	48541849	48606433	1	HTLF	None
HSCHR6_MHC_SSTO	ABHD16A	ENSG00000230475	ENST00000475266	retained_intron	KNOWN	None	13921	None	None	31644680	31646118	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_SSTO	ABHD16A	ENSG00000230475	ENST00000497595	retained_intron	KNOWN	None	13921	None	None	31644680	31648331	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_SSTO	ABHD16A	ENSG00000230475	ENST00000495335	processed_transcript	KNOWN	None	13921	None	None	31644681	31660810	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_SSTO	ABHD16A	ENSG00000230475	ENST00000479622	processed_transcript	KNOWN	None	13921	None	None	31644681	31661077	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_SSTO	ABHD16A	ENSG00000230475	ENST00000432617	protein_coding	KNOWN	None	13921	1806	601	31644681	31661153	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_SSTO	ABHD16A	ENSG00000230475	ENST00000469254	retained_intron	KNOWN	None	13921	None	None	31645112	31646050	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_SSTO	ABHD16A	ENSG00000230475	ENST00000477758	retained_intron	KNOWN	None	13921	None	None	31645300	31646032	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_SSTO	ABHD16A	ENSG00000230475	ENST00000488182	processed_transcript	KNOWN	None	13921	None	None	31645378	31647974	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_SSTO	ABHD16A	ENSG00000230475	ENST00000495416	retained_intron	KNOWN	None	13921	None	None	31645498	31649375	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_SSTO	ABHD16A	ENSG00000230475	ENST00000493080	processed_transcript	KNOWN	None	13921	None	None	31646744	31661070	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_SSTO	ABHD16A	ENSG00000230475	ENST00000440799	protein_coding	KNOWN	None	13921	791	262	31648285	31660603	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_SSTO	ABHD16A	ENSG00000230475	ENST00000463481	processed_transcript	KNOWN	None	13921	None	None	31649175	31650785	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_SSTO	ABHD16A	ENSG00000230475	ENST00000466634	retained_intron	KNOWN	None	13921	None	None	31649318	31650023	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_SSTO	ABHD16A	ENSG00000230475	ENST00000550719	protein_coding	KNOWN	None	13921	1677	558	31644674	31661097	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_SSTO	ABHD16A	ENSG00000230475	ENST00000549722	protein_coding	KNOWN	None	13921	1578	525	31644674	31660810	-1	BAT5	NG26, D6S82E
X	BRAFP1	ENSG00000224775	ENST00000445336	unprocessed_pseudogene	KNOWN	None	18615	None	None	74802511	74805341	1	BRAFPS2	BRAF2
5	PELO	ENSG00000152684	ENST00000274311	protein_coding	KNOWN	CCDS3956	8829	1158	385	52083774	52099880	1	None	None
5	PELO	ENSG00000152684	ENST00000506949	processed_transcript	KNOWN	None	8829	None	None	52083787	52097668	1	None	None
HSCHR6_MHC_SSTO	C6orf136	ENSG00000237100	ENST00000478213	processed_transcript	KNOWN	None	21301	None	None	30606238	30610484	1	None	Em:AB023049.8
HSCHR6_MHC_SSTO	C6orf136	ENSG00000237100	ENST00000491140	processed_transcript	KNOWN	None	21301	None	None	30606254	30612300	1	None	Em:AB023049.8
HSCHR6_MHC_SSTO	C6orf136	ENSG00000237100	ENST00000419321	protein_coding	KNOWN	None	21301	948	315	30606272	30612300	1	None	Em:AB023049.8
HSCHR6_MHC_SSTO	C6orf136	ENSG00000237100	ENST00000471556	processed_transcript	KNOWN	None	21301	None	None	30606325	30611904	1	None	Em:AB023049.8
HSCHR6_MHC_SSTO	C6orf136	ENSG00000237100	ENST00000417076	protein_coding	KNOWN	None	21301	546	181	30606363	30612300	1	None	Em:AB023049.8
HSCHR6_MHC_SSTO	C6orf136	ENSG00000237100	ENST00000485014	processed_transcript	KNOWN	None	21301	None	None	30606385	30609112	1	None	Em:AB023049.8
HSCHR6_MHC_SSTO	C6orf136	ENSG00000237100	ENST00000411654	protein_coding	KNOWN	None	21301	1302	433	30606620	30612300	1	None	Em:AB023049.8
HSCHR6_MHC_SSTO	C6orf136	ENSG00000237100	ENST00000473721	retained_intron	KNOWN	None	21301	None	None	30610253	30612300	1	None	Em:AB023049.8
HSCHR6_MHC_SSTO	C6orf136	ENSG00000237100	ENST00000546452	protein_coding	KNOWN	None	21301	1491	496	30606238	30612400	1	None	Em:AB023049.8
X	TTC3P1	ENSG00000215105	ENST00000399586	processed_pseudogene	KNOWN	None	23318	None	None	74960666	74966746	-1	TTC3L	RNF105L
X	TTC3P1	ENSG00000215105	ENST00000535618	processed_pseudogene	KNOWN	None	23318	None	None	74960541	74961903	-1	TTC3L	RNF105L
X	TTC3P1	ENSG00000215105	ENST00000427129	processed_pseudogene	KNOWN	None	23318	None	None	74963216	74965819	-1	TTC3L	RNF105L
X	TTC3P1	ENSG00000215105	ENST00000426611	processed_pseudogene	KNOWN	None	23318	None	None	74965904	74966749	-1	TTC3L	RNF105L
HSCHR6_MHC_QBL	HSPA1B	ENSG00000212866	ENST00000391555	protein_coding	KNOWN	None	5233	1926	641	31785766	31788290	1	None	HSP70-2
X	SAR1AP4	ENSG00000233063	ENST00000429225	processed_pseudogene	KNOWN	None	37638	None	None	75104381	75104971	1	None	None
13	NAA16	ENSG00000172766	ENST00000379406	protein_coding	KNOWN	CCDS9379	26164	2595	864	41885341	41951166	1	NARG1L	FLJ22054, MGC40612, PRO2435
13	NAA16	ENSG00000172766	ENST00000403412	protein_coding	KNOWN	CCDS45044	26164	1290	429	41885416	41932854	1	NARG1L	FLJ22054, MGC40612, PRO2435
13	NAA16	ENSG00000172766	ENST00000476980	processed_transcript	KNOWN	None	26164	None	None	41885418	41932854	1	NARG1L	FLJ22054, MGC40612, PRO2435
13	NAA16	ENSG00000172766	ENST00000464857	nonsense_mediated_decay	KNOWN	None	26164	1551	516	41885431	41943340	1	NARG1L	FLJ22054, MGC40612, PRO2435
13	NAA16	ENSG00000172766	ENST00000483215	processed_transcript	KNOWN	None	26164	None	None	41901993	41910823	1	NARG1L	FLJ22054, MGC40612, PRO2435
13	NAA16	ENSG00000172766	ENST00000497727	processed_transcript	KNOWN	None	26164	None	None	41932443	41943340	1	NARG1L	FLJ22054, MGC40612, PRO2435
13	NAA16	ENSG00000172766	ENST00000463114	processed_transcript	KNOWN	None	26164	None	None	41936262	41947816	1	NARG1L	FLJ22054, MGC40612, PRO2435
13	NAA16	ENSG00000172766	ENST00000497143	processed_transcript	KNOWN	None	26164	None	None	41936591	41951166	1	NARG1L	FLJ22054, MGC40612, PRO2435
13	NAA16	ENSG00000172766	ENST00000495148	processed_transcript	KNOWN	None	26164	None	None	41943375	41947917	1	NARG1L	FLJ22054, MGC40612, PRO2435
13	NAA16	ENSG00000172766	ENST00000477452	processed_transcript	KNOWN	None	26164	None	None	41946951	41950318	1	NARG1L	FLJ22054, MGC40612, PRO2435
13	NAA16	ENSG00000172766	ENST00000469708	processed_transcript	KNOWN	None	26164	None	None	41948611	41949948	1	NARG1L	FLJ22054, MGC40612, PRO2435
13	NAA16	ENSG00000172766	ENST00000379367	protein_coding	KNOWN	None	26164	1593	530	41885341	41936920	1	NARG1L	FLJ22054, MGC40612, PRO2435
20	LAMP5	ENSG00000125869	ENST00000427562	protein_coding	KNOWN	CCDS56177	16097	711	236	9495005	9510570	1	C20orf103	dJ1119D9.3, BAD-LAMP, UNC-43
20	LAMP5	ENSG00000125869	ENST00000246070	protein_coding	KNOWN	CCDS13106	16097	843	280	9495008	9511171	1	C20orf103	dJ1119D9.3, BAD-LAMP, UNC-43
14	TTC5	ENSG00000136319	ENST00000556592	processed_transcript	KNOWN	None	19274	None	None	20724717	20755899	-1	None	Strap
14	TTC5	ENSG00000136319	ENST00000554992	processed_transcript	PUTATIVE	None	19274	None	None	20728743	20729773	-1	None	Strap
14	TTC5	ENSG00000136319	ENST00000258821	protein_coding	KNOWN	CCDS9546	19274	1323	440	20754387	20774153	-1	None	Strap
14	TTC5	ENSG00000136319	ENST00000383029	nonsense_mediated_decay	KNOWN	None	19274	387	128	20757290	20774100	-1	None	Strap
14	TTC5	ENSG00000136319	ENST00000554157	retained_intron	KNOWN	None	19274	None	None	20757290	20774107	-1	None	Strap
14	TTC5	ENSG00000136319	ENST00000423949	protein_coding	NOVEL	None	19274	1156	384	20757688	20774094	-1	None	Strap
14	TTC5	ENSG00000136319	ENST00000557379	retained_intron	KNOWN	None	19274	None	None	20768496	20774112	-1	None	Strap
14	TTC5	ENSG00000136319	ENST00000553828	protein_coding	PUTATIVE	None	19274	47	14	20768968	20774119	-1	None	Strap
X	None	ENSG00000230028	ENST00000431331	processed_transcript	KNOWN	None	None	None	None	75107994	75109321	1	None	None
17	KAT2A	ENSG00000108773	ENST00000225916	protein_coding	KNOWN	CCDS11417	4201	2514	837	40265126	40273376	-1	GCN5L2	GCN5, PCAF-b
17	KAT2A	ENSG00000108773	ENST00000465682	nonsense_mediated_decay	KNOWN	None	4201	831	276	40265136	40273076	-1	GCN5L2	GCN5, PCAF-b
17	KAT2A	ENSG00000108773	ENST00000586972	retained_intron	KNOWN	None	4201	None	None	40265408	40266416	-1	GCN5L2	GCN5, PCAF-b
17	KAT2A	ENSG00000108773	ENST00000588759	nonsense_mediated_decay	KNOWN	None	4201	213	70	40266242	40267851	-1	GCN5L2	GCN5, PCAF-b
17	KAT2A	ENSG00000108773	ENST00000592310	retained_intron	KNOWN	None	4201	None	None	40267711	40269507	-1	GCN5L2	GCN5, PCAF-b
X	None	ENSG00000226753	ENST00000450005	processed_pseudogene	KNOWN	None	None	None	None	75108535	75108723	1	None	None
X	None	ENSG00000255752	ENST00000545116	pseudogene	NOVEL	None	None	None	None	75119639	75119715	-1	None	None
19	FXYD3	ENSG00000089356	ENST00000604404	protein_coding	KNOWN	CCDS12442	4027	264	87	35606783	35615228	1	PLML	MAT-8
19	FXYD3	ENSG00000089356	ENST00000435734	protein_coding	KNOWN	CCDS12443	4027	342	113	35606799	35615227	1	PLML	MAT-8
19	FXYD3	ENSG00000089356	ENST00000603181	protein_coding	KNOWN	CCDS12442	4027	264	87	35606845	35614561	1	PLML	MAT-8
19	FXYD3	ENSG00000089356	ENST00000604255	protein_coding	KNOWN	CCDS46048	4027	435	144	35607166	35614559	1	PLML	MAT-8
19	FXYD3	ENSG00000089356	ENST00000604504	retained_intron	KNOWN	None	4027	None	None	35607222	35610792	1	PLML	MAT-8
19	FXYD3	ENSG00000089356	ENST00000603449	protein_coding	KNOWN	CCDS46050	4027	186	61	35607222	35612569	1	PLML	MAT-8
19	FXYD3	ENSG00000089356	ENST00000605550	protein_coding	PUTATIVE	None	4027	213	70	35607223	35614184	1	PLML	MAT-8
19	FXYD3	ENSG00000089356	ENST00000604804	protein_coding	PUTATIVE	None	4027	351	116	35607223	35614519	1	PLML	MAT-8
19	FXYD3	ENSG00000089356	ENST00000605552	protein_coding	KNOWN	CCDS46050	4027	186	61	35607224	35612751	1	PLML	MAT-8
19	FXYD3	ENSG00000089356	ENST00000603524	protein_coding	PUTATIVE	None	4027	351	116	35608931	35614556	1	PLML	MAT-8
19	FXYD3	ENSG00000089356	ENST00000604621	protein_coding	KNOWN	CCDS12442	4027	264	87	35609434	35614561	1	PLML	MAT-8
19	FXYD3	ENSG00000089356	ENST00000605677	protein_coding	KNOWN	CCDS46049	4027	291	96	35610267	35614190	1	PLML	MAT-8
19	FXYD3	ENSG00000089356	ENST00000535103	protein_coding	KNOWN	CCDS46048	4027	435	144	35608210	35614557	1	PLML	MAT-8
19	FXYD3	ENSG00000089356	ENST00000346446	protein_coding	KNOWN	CCDS12443	4027	342	113	35607166	35615227	1	PLML	MAT-8
19	FXYD3	ENSG00000089356	ENST00000344013	protein_coding	KNOWN	CCDS12442	4027	264	87	35607166	35615227	1	PLML	MAT-8
19	FXYD3	ENSG00000089356	ENST00000406988	protein_coding	KNOWN	CCDS12442	4027	264	87	35607222	35614557	1	PLML	MAT-8
19	FXYD3	ENSG00000089356	ENST00000406242	protein_coding	KNOWN	CCDS46049	4027	291	96	35606732	35614107	1	PLML	MAT-8
19	FXYD3	ENSG00000089356	ENST00000454903	protein_coding	KNOWN	CCDS46050	4027	186	61	35606732	35612569	1	PLML	MAT-8
X	None	ENSG00000226854	ENST00000413763	lincRNA	KNOWN	None	None	None	None	75122940	75124693	1	None	None
19	None	ENSG00000267576	ENST00000586051	sense_intronic	KNOWN	None	None	None	None	11432832	11434871	1	None	None
7	None	ENSG00000223052	ENST00000411120	miRNA	NOVEL	None	None	None	None	29127804	29127927	-1	None	None
19	None	ENSG00000267277	ENST00000590399	antisense	KNOWN	None	None	None	None	11478799	11485611	-1	None	None
10	MIR3157	ENSG00000266407	ENST00000578688	miRNA	KNOWN	None	38172	None	None	97824072	97824156	-1	None	hsa-mir-3157
11	FXYD2	ENSG00000137731	ENST00000514385	processed_transcript	KNOWN	None	4026	None	None	117671559	117690134	-1	ATP1G1, HOMG2	MGC12372
11	FXYD2	ENSG00000137731	ENST00000532119	protein_coding	NOVEL	CCDS8385	4026	195	64	117672445	117698783	-1	ATP1G1, HOMG2	MGC12372
11	FXYD2	ENSG00000137731	ENST00000528014	protein_coding	KNOWN	CCDS8385	4026	195	64	117690785	117699413	-1	ATP1G1, HOMG2	MGC12372
11	FXYD2	ENSG00000137731	ENST00000292079	protein_coding	KNOWN	CCDS8386	4026	201	66	117690790	117695459	-1	ATP1G1, HOMG2	MGC12372
11	FXYD2	ENSG00000137731	ENST00000260287	protein_coding	KNOWN	CCDS8385	4026	195	64	117690855	117698807	-1	ATP1G1, HOMG2	MGC12372
11	FXYD2	ENSG00000137731	ENST00000534383	retained_intron	KNOWN	None	4026	None	None	117690862	117695459	-1	ATP1G1, HOMG2	MGC12372
11	FXYD2	ENSG00000137731	ENST00000533281	retained_intron	KNOWN	None	4026	None	None	117691275	117695455	-1	ATP1G1, HOMG2	MGC12372
11	FXYD2	ENSG00000137731	ENST00000317594	retained_intron	KNOWN	None	4026	None	None	117691957	117695459	-1	ATP1G1, HOMG2	MGC12372
19	None	ENSG00000202357	ENST00000365487	misc_RNA	NOVEL	None	None	None	None	11519448	11519556	1	None	None
9	INIP	ENSG00000148153	ENST00000374242	protein_coding	KNOWN	CCDS6785	24994	315	104	115446206	115480516	-1	C9orf80	HSPC043, hSSBIP1, SOSS-C, MISE
9	INIP	ENSG00000148153	ENST00000497712	processed_transcript	KNOWN	None	24994	None	None	115449377	115480369	-1	C9orf80	HSPC043, hSSBIP1, SOSS-C, MISE
9	INIP	ENSG00000148153	ENST00000374236	protein_coding	KNOWN	None	24994	225	74	115449397	115480429	-1	C9orf80	HSPC043, hSSBIP1, SOSS-C, MISE
9	INIP	ENSG00000148153	ENST00000481146	processed_transcript	KNOWN	None	24994	None	None	115449412	115480366	-1	C9orf80	HSPC043, hSSBIP1, SOSS-C, MISE
9	INIP	ENSG00000148153	ENST00000374234	protein_coding	KNOWN	None	24994	168	55	115449425	115480387	-1	C9orf80	HSPC043, hSSBIP1, SOSS-C, MISE
9	INIP	ENSG00000148153	ENST00000476599	processed_transcript	KNOWN	None	24994	None	None	115456314	115480397	-1	C9orf80	HSPC043, hSSBIP1, SOSS-C, MISE
9	INIP	ENSG00000148153	ENST00000374238	protein_coding	KNOWN	None	24994	168	55	115448797	115480390	-1	C9orf80	HSPC043, hSSBIP1, SOSS-C, MISE
HSCHR6_MHC_COX	C4B	ENSG00000228267	ENST00000411583	protein_coding	KNOWN	None	1324	5235	1744	31937353	31951642	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_COX	C4B	ENSG00000228267	ENST00000486807	retained_intron	KNOWN	None	1324	None	None	31938172	31938888	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_COX	C4B	ENSG00000228267	ENST00000487011	processed_transcript	KNOWN	None	1324	None	None	31938210	31939727	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_COX	C4B	ENSG00000228267	ENST00000487749	retained_intron	KNOWN	None	1324	None	None	31941139	31942938	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_COX	C4B	ENSG00000228267	ENST00000487923	retained_intron	KNOWN	None	1324	None	None	31944071	31944582	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_COX	C4B	ENSG00000228267	ENST00000487226	processed_transcript	PUTATIVE	None	1324	None	None	31944917	31947797	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_COX	C4B	ENSG00000228267	ENST00000496224	retained_intron	KNOWN	None	1324	None	None	31946703	31948680	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_COX	C4B	ENSG00000228267	ENST00000485815	retained_intron	KNOWN	None	1324	None	None	31947812	31948491	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_COX	C4B	ENSG00000228267	ENST00000497033	retained_intron	KNOWN	None	1324	None	None	31948116	31951642	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_COX	C4B	ENSG00000228267	ENST00000494291	retained_intron	KNOWN	None	1324	None	None	31948161	31951642	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_COX	C4B	ENSG00000228267	ENST00000485485	processed_transcript	KNOWN	None	1324	None	None	31949959	31951642	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_COX	C4B	ENSG00000228267	ENST00000478151	retained_intron	KNOWN	None	1324	None	None	31950088	31951226	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_COX	C4B	ENSG00000228267	ENST00000461901	retained_intron	KNOWN	None	1324	None	None	31950221	31950829	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_COX	C4B	ENSG00000228267	ENST00000548530	protein_coding	KNOWN	None	1324	5097	1698	31937397	31951632	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_COX	C4B	ENSG00000228267	ENST00000550398	protein_coding	KNOWN	None	1324	1953	650	31939410	31951624	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_COX	C4B_2	ENSG00000228267	ENST00000411583	protein_coding	KNOWN	None	42398	5235	1744	31937353	31951642	1	None	None
HSCHR6_MHC_COX	C4B_2	ENSG00000228267	ENST00000486807	retained_intron	KNOWN	None	42398	None	None	31938172	31938888	1	None	None
HSCHR6_MHC_COX	C4B_2	ENSG00000228267	ENST00000487011	processed_transcript	KNOWN	None	42398	None	None	31938210	31939727	1	None	None
HSCHR6_MHC_COX	C4B_2	ENSG00000228267	ENST00000487749	retained_intron	KNOWN	None	42398	None	None	31941139	31942938	1	None	None
HSCHR6_MHC_COX	C4B_2	ENSG00000228267	ENST00000487923	retained_intron	KNOWN	None	42398	None	None	31944071	31944582	1	None	None
HSCHR6_MHC_COX	C4B_2	ENSG00000228267	ENST00000487226	processed_transcript	PUTATIVE	None	42398	None	None	31944917	31947797	1	None	None
HSCHR6_MHC_COX	C4B_2	ENSG00000228267	ENST00000496224	retained_intron	KNOWN	None	42398	None	None	31946703	31948680	1	None	None
HSCHR6_MHC_COX	C4B_2	ENSG00000228267	ENST00000485815	retained_intron	KNOWN	None	42398	None	None	31947812	31948491	1	None	None
HSCHR6_MHC_COX	C4B_2	ENSG00000228267	ENST00000497033	retained_intron	KNOWN	None	42398	None	None	31948116	31951642	1	None	None
HSCHR6_MHC_COX	C4B_2	ENSG00000228267	ENST00000494291	retained_intron	KNOWN	None	42398	None	None	31948161	31951642	1	None	None
HSCHR6_MHC_COX	C4B_2	ENSG00000228267	ENST00000485485	processed_transcript	KNOWN	None	42398	None	None	31949959	31951642	1	None	None
HSCHR6_MHC_COX	C4B_2	ENSG00000228267	ENST00000478151	retained_intron	KNOWN	None	42398	None	None	31950088	31951226	1	None	None
HSCHR6_MHC_COX	C4B_2	ENSG00000228267	ENST00000461901	retained_intron	KNOWN	None	42398	None	None	31950221	31950829	1	None	None
HSCHR6_MHC_COX	C4B_2	ENSG00000228267	ENST00000548530	protein_coding	KNOWN	None	42398	5097	1698	31937397	31951632	1	None	None
HSCHR6_MHC_COX	C4B_2	ENSG00000228267	ENST00000550398	protein_coding	KNOWN	None	42398	1953	650	31939410	31951624	1	None	None
7	None	ENSG00000235669	ENST00000446246	antisense	KNOWN	None	None	None	None	29239156	29248586	-1	None	None
7	EVX1	ENSG00000106038	ENST00000496902	protein_coding	KNOWN	CCDS5413	3506	1224	407	27282164	27287046	1	None	None
7	EVX1	ENSG00000106038	ENST00000222761	protein_coding	PUTATIVE	None	3506	606	201	27282319	27286044	1	None	None
7	EVX1	ENSG00000106038	ENST00000580535	protein_coding	NOVEL	None	3506	321	106	27282987	27286795	1	None	None
7	EVX1	ENSG00000106038	ENST00000518886	processed_transcript	KNOWN	None	3506	None	None	27286987	27290112	1	None	None
7	EVX1	ENSG00000106038	ENST00000535619	protein_coding	KNOWN	None	3506	678	225	27282987	27286795	1	None	None
19	NLRP4	ENSG00000160505	ENST00000301295	protein_coding	KNOWN	CCDS12936	22943	2985	994	56347944	56393216	1	NALP4	PYPAF4, FLJ32126, PAN2, RNH2, CLR19.5, CT58
19	NLRP4	ENSG00000160505	ENST00000587464	protein_coding	KNOWN	None	22943	467	154	56348261	56369226	1	NALP4	PYPAF4, FLJ32126, PAN2, RNH2, CLR19.5, CT58
19	NLRP4	ENSG00000160505	ENST00000587891	protein_coding	KNOWN	None	22943	2760	919	56368811	56393220	1	NALP4	PYPAF4, FLJ32126, PAN2, RNH2, CLR19.5, CT58
19	NLRP4	ENSG00000160505	ENST00000589437	protein_coding	NOVEL	None	22943	1514	503	56370063	56393220	1	NALP4	PYPAF4, FLJ32126, PAN2, RNH2, CLR19.5, CT58
19	NLRP4	ENSG00000160505	ENST00000346986	protein_coding	KNOWN	None	22943	2817	938	56347944	56393218	1	NALP4	PYPAF4, FLJ32126, PAN2, RNH2, CLR19.5, CT58
1	SLC9A1	ENSG00000090020	ENST00000374089	retained_intron	KNOWN	None	11071	None	None	27425306	27430513	-1	APNH, NHE1	None
1	SLC9A1	ENSG00000090020	ENST00000263980	protein_coding	KNOWN	CCDS295	11071	2448	815	27425306	27481401	-1	APNH, NHE1	None
1	SLC9A1	ENSG00000090020	ENST00000490329	processed_transcript	KNOWN	None	11071	None	None	27425307	27426173	-1	APNH, NHE1	None
1	SLC9A1	ENSG00000090020	ENST00000447808	retained_intron	KNOWN	None	11071	None	None	27426836	27429286	-1	APNH, NHE1	None
1	SLC9A1	ENSG00000090020	ENST00000374086	protein_coding	KNOWN	None	11071	1668	555	27431942	27481089	-1	APNH, NHE1	None
1	SLC9A1	ENSG00000090020	ENST00000374084	protein_coding	KNOWN	None	11071	406	134	27440724	27493472	-1	APNH, NHE1	None
1	SLC9A1	ENSG00000090020	ENST00000545949	protein_coding	KNOWN	None	11071	1431	476	27426578	27480973	-1	APNH, NHE1	None
17	ASPA	ENSG00000108381	ENST00000577034	protein_coding	KNOWN	None	756	236	77	3375668	3379689	1	None	ASP, ACY2
17	ASPA	ENSG00000108381	ENST00000456349	protein_coding	KNOWN	CCDS11028	756	942	313	3377347	3402382	1	None	ASP, ACY2
17	ASPA	ENSG00000108381	ENST00000263080	protein_coding	KNOWN	CCDS11028	756	942	313	3379296	3406713	1	None	ASP, ACY2
17	ASPA	ENSG00000108381	ENST00000571278	nonsense_mediated_decay	KNOWN	None	756	171	56	3379318	3392545	1	None	ASP, ACY2
14	SLC7A7	ENSG00000155465	ENST00000285850	protein_coding	KNOWN	CCDS9574	11065	1536	511	23242431	23289005	-1	LPI	y+LAT-1
14	SLC7A7	ENSG00000155465	ENST00000555702	protein_coding	KNOWN	CCDS9574	11065	1536	511	23242431	23289020	-1	LPI	y+LAT-1
14	SLC7A7	ENSG00000155465	ENST00000397532	protein_coding	KNOWN	CCDS9574	11065	1536	511	23242434	23285012	-1	LPI	y+LAT-1
14	SLC7A7	ENSG00000155465	ENST00000556287	nonsense_mediated_decay	KNOWN	None	11065	933	310	23242434	23285686	-1	LPI	y+LAT-1
14	SLC7A7	ENSG00000155465	ENST00000397529	protein_coding	KNOWN	CCDS9574	11065	1536	511	23242462	23289005	-1	LPI	y+LAT-1
14	SLC7A7	ENSG00000155465	ENST00000397528	protein_coding	KNOWN	CCDS9574	11065	1536	511	23242499	23285107	-1	LPI	y+LAT-1
14	SLC7A7	ENSG00000155465	ENST00000554061	processed_transcript	KNOWN	None	11065	None	None	23242525	23249684	-1	LPI	y+LAT-1
14	SLC7A7	ENSG00000155465	ENST00000555678	retained_intron	KNOWN	None	11065	None	None	23242782	23245008	-1	LPI	y+LAT-1
14	SLC7A7	ENSG00000155465	ENST00000554517	protein_coding	PUTATIVE	None	11065	738	245	23242782	23288930	-1	LPI	y+LAT-1
14	SLC7A7	ENSG00000155465	ENST00000556350	protein_coding	PUTATIVE	None	11065	505	167	23242844	23245441	-1	LPI	y+LAT-1
14	SLC7A7	ENSG00000155465	ENST00000554758	protein_coding	KNOWN	None	11065	494	163	23282114	23285085	-1	LPI	y+LAT-1
14	SLC7A7	ENSG00000155465	ENST00000488800	protein_coding	KNOWN	None	11065	424	140	23282184	23299029	-1	LPI	y+LAT-1
14	SLC7A7	ENSG00000155465	ENST00000555251	protein_coding	KNOWN	None	11065	367	121	23282241	23284391	-1	LPI	y+LAT-1
14	SLC7A7	ENSG00000155465	ENST00000557629	protein_coding	KNOWN	None	11065	350	115	23282258	23292172	-1	LPI	y+LAT-1
14	SLC7A7	ENSG00000155465	ENST00000555911	protein_coding	KNOWN	None	11065	344	113	23282264	23284732	-1	LPI	y+LAT-1
14	SLC7A7	ENSG00000155465	ENST00000557129	protein_coding	KNOWN	None	11065	320	105	23282288	23285408	-1	LPI	y+LAT-1
14	SLC7A7	ENSG00000155465	ENST00000554741	protein_coding	KNOWN	None	11065	132	43	23282476	23292620	-1	LPI	y+LAT-1
14	SLC7A7	ENSG00000155465	ENST00000555959	protein_coding	KNOWN	None	11065	91	29	23282517	23284676	-1	LPI	y+LAT-1
14	SLC7A7	ENSG00000155465	ENST00000553874	processed_transcript	KNOWN	None	11065	None	None	23282613	23292645	-1	LPI	y+LAT-1
14	SLC7A7	ENSG00000155465	ENST00000553351	processed_transcript	KNOWN	None	11065	None	None	23282627	23292653	-1	LPI	y+LAT-1
14	SLC7A7	ENSG00000155465	ENST00000553632	processed_transcript	PUTATIVE	None	11065	None	None	23284532	23290069	-1	LPI	y+LAT-1
19	ZNF226	ENSG00000167380	ENST00000590578	protein_coding	KNOWN	None	13019	381	126	44669226	44679796	1	None	None
19	ZNF226	ENSG00000167380	ENST00000589160	protein_coding	PUTATIVE	None	13019	270	89	44669237	44677344	1	None	None
19	ZNF226	ENSG00000167380	ENST00000586286	protein_coding	KNOWN	None	13019	217	71	44669250	44677087	1	None	None
19	ZNF226	ENSG00000167380	ENST00000585560	protein_coding	KNOWN	None	13019	198	65	44669254	44677068	1	None	None
19	ZNF226	ENSG00000167380	ENST00000586914	protein_coding	KNOWN	None	13019	268	88	44669254	44679683	1	None	None
19	ZNF226	ENSG00000167380	ENST00000588883	protein_coding	PUTATIVE	None	13019	270	89	44669254	44682534	1	None	None
19	ZNF226	ENSG00000167380	ENST00000413984	protein_coding	KNOWN	CCDS46103	13019	285	94	44669256	44679311	1	None	None
19	ZNF226	ENSG00000167380	ENST00000588742	protein_coding	KNOWN	CCDS46103	13019	285	94	44669257	44679186	1	None	None
19	ZNF226	ENSG00000167380	ENST00000300823	protein_coding	KNOWN	CCDS46103	13019	285	94	44669257	44679582	1	None	None
19	ZNF226	ENSG00000167380	ENST00000585678	protein_coding	PUTATIVE	None	13019	342	113	44669260	44679865	1	None	None
19	ZNF226	ENSG00000167380	ENST00000586203	protein_coding	KNOWN	None	13019	82	26	44669262	44676307	1	None	None
19	ZNF226	ENSG00000167380	ENST00000590467	protein_coding	KNOWN	None	13019	182	59	44669265	44677052	1	None	None
19	ZNF226	ENSG00000167380	ENST00000588795	protein_coding	PUTATIVE	None	13019	270	89	44669269	44677387	1	None	None
19	ZNF226	ENSG00000167380	ENST00000588127	protein_coding	KNOWN	None	13019	417	138	44669269	44679832	1	None	None
19	ZNF226	ENSG00000167380	ENST00000590089	protein_coding	KNOWN	CCDS46102	13019	2412	803	44669308	44681836	1	None	None
19	ZNF226	ENSG00000167380	ENST00000454662	protein_coding	KNOWN	CCDS46102	13019	2412	803	44669317	44681840	1	None	None
19	ZNF226	ENSG00000167380	ENST00000590524	protein_coding	KNOWN	None	13019	459	152	44669909	44679874	1	None	None
19	ZNF226	ENSG00000167380	ENST00000590759	retained_intron	KNOWN	None	13019	None	None	44674186	44676911	1	None	None
19	ZNF226	ENSG00000167380	ENST00000337433	protein_coding	KNOWN	CCDS46102	13019	2412	803	44669249	44681836	1	None	None
11	ATM	ENSG00000149311	ENST00000527805	protein_coding	KNOWN	None	795	4108	1368	108093211	108158441	1	ATA, ATDC, ATC, ATD	TEL1, TELO1
11	ATM	ENSG00000149311	ENST00000527891	protein_coding	NOVEL	None	795	463	153	108093812	108114811	1	ATA, ATDC, ATC, ATD	TEL1, TELO1
11	ATM	ENSG00000149311	ENST00000532931	protein_coding	KNOWN	None	795	280	92	108093817	108099999	1	ATA, ATDC, ATC, ATD	TEL1, TELO1
11	ATM	ENSG00000149311	ENST00000530958	retained_intron	KNOWN	None	795	None	None	108093830	108107261	1	ATA, ATDC, ATC, ATD	TEL1, TELO1
11	ATM	ENSG00000149311	ENST00000452508	protein_coding	KNOWN	CCDS31669	795	9171	3056	108093843	108239829	1	ATA, ATDC, ATC, ATD	TEL1, TELO1
11	ATM	ENSG00000149311	ENST00000526567	retained_intron	KNOWN	None	795	None	None	108094256	108100091	1	ATA, ATDC, ATC, ATD	TEL1, TELO1
11	ATM	ENSG00000149311	ENST00000601453	protein_coding	KNOWN	None	795	405	134	108094805	108106470	1	ATA, ATDC, ATC, ATD	TEL1, TELO1
11	ATM	ENSG00000149311	ENST00000525012	processed_transcript	PUTATIVE	None	795	None	None	108123548	108124723	1	ATA, ATDC, ATC, ATD	TEL1, TELO1
11	ATM	ENSG00000149311	ENST00000533526	processed_transcript	PUTATIVE	None	795	None	None	108123548	108124723	1	ATA, ATDC, ATC, ATD	TEL1, TELO1
11	ATM	ENSG00000149311	ENST00000419286	processed_transcript	PUTATIVE	None	795	None	None	108138067	108142079	1	ATA, ATDC, ATC, ATD	TEL1, TELO1
11	ATM	ENSG00000149311	ENST00000533733	retained_intron	KNOWN	None	795	None	None	108157905	108161394	1	ATA, ATDC, ATC, ATD	TEL1, TELO1
11	ATM	ENSG00000149311	ENST00000524792	retained_intron	KNOWN	None	795	None	None	108158119	108236761	1	ATA, ATDC, ATC, ATD	TEL1, TELO1
11	ATM	ENSG00000149311	ENST00000531525	protein_coding	PUTATIVE	None	795	468	155	108158327	108166723	1	ATA, ATDC, ATC, ATD	TEL1, TELO1
11	ATM	ENSG00000149311	ENST00000531957	retained_intron	KNOWN	None	795	None	None	108164112	108166097	1	ATA, ATDC, ATC, ATD	TEL1, TELO1
11	ATM	ENSG00000149311	ENST00000533690	retained_intron	KNOWN	None	795	None	None	108167701	108204635	1	ATA, ATDC, ATC, ATD	TEL1, TELO1
11	ATM	ENSG00000149311	ENST00000534625	retained_intron	KNOWN	None	795	None	None	108170207	108173756	1	ATA, ATDC, ATC, ATD	TEL1, TELO1
11	ATM	ENSG00000149311	ENST00000529588	nonsense_mediated_decay	KNOWN	None	795	233	76	108173749	108186621	1	ATA, ATDC, ATC, ATD	TEL1, TELO1
11	ATM	ENSG00000149311	ENST00000532765	processed_transcript	PUTATIVE	None	795	None	None	108178719	108188194	1	ATA, ATDC, ATC, ATD	TEL1, TELO1
11	ATM	ENSG00000149311	ENST00000525537	retained_intron	KNOWN	None	795	None	None	108198121	108199968	1	ATA, ATDC, ATC, ATD	TEL1, TELO1
11	ATM	ENSG00000149311	ENST00000527389	retained_intron	KNOWN	None	795	None	None	108198371	108200034	1	ATA, ATDC, ATC, ATD	TEL1, TELO1
11	ATM	ENSG00000149311	ENST00000533979	processed_transcript	PUTATIVE	None	795	None	None	108203489	108207135	1	ATA, ATDC, ATC, ATD	TEL1, TELO1
11	ATM	ENSG00000149311	ENST00000525056	retained_intron	KNOWN	None	795	None	None	108203504	108206880	1	ATA, ATDC, ATC, ATD	TEL1, TELO1
11	ATM	ENSG00000149311	ENST00000525178	processed_transcript	PUTATIVE	None	795	None	None	108217248	108236456	1	ATA, ATDC, ATC, ATD	TEL1, TELO1
11	ATM	ENSG00000149311	ENST00000527181	retained_intron	KNOWN	None	795	None	None	108224483	108236465	1	ATA, ATDC, ATC, ATD	TEL1, TELO1
11	ATM	ENSG00000149311	ENST00000278616	protein_coding	KNOWN	CCDS31669	795	9171	3056	108093559	108239826	1	ATA, ATDC, ATC, ATD	TEL1, TELO1
7	NANOGP4	ENSG00000237065	ENST00000427230	transcribed_processed_pseudogene	KNOWN	None	23102	None	None	29251918	29252830	1	None	NANOGP2
9	None	ENSG00000222512	ENST00000410580	miRNA	NOVEL	None	None	None	None	111121132	111121209	-1	None	None
16	IL4R	ENSG00000077238	ENST00000566117	protein_coding	KNOWN	None	6015	361	119	27324989	27356341	1	None	CD124
16	IL4R	ENSG00000077238	ENST00000395762	protein_coding	KNOWN	CCDS10629	6015	2478	825	27325234	27376099	1	None	CD124
16	IL4R	ENSG00000077238	ENST00000562142	protein_coding	KNOWN	None	6015	191	62	27325244	27353562	1	None	CD124
16	IL4R	ENSG00000077238	ENST00000561742	protein_coding	KNOWN	None	6015	31	9	27325247	27351555	1	None	CD124
16	IL4R	ENSG00000077238	ENST00000563926	nonsense_mediated_decay	KNOWN	None	6015	201	66	27325247	27353475	1	None	CD124
16	IL4R	ENSG00000077238	ENST00000543915	protein_coding	KNOWN	CCDS10629	6015	2478	825	27325247	27376099	1	None	CD124
16	IL4R	ENSG00000077238	ENST00000568746	nonsense_mediated_decay	KNOWN	None	6015	201	66	27325255	27375224	1	None	CD124
16	IL4R	ENSG00000077238	ENST00000566318	nonsense_mediated_decay	KNOWN	None	6015	375	124	27325259	27367197	1	None	CD124
16	IL4R	ENSG00000077238	ENST00000563002	protein_coding	KNOWN	None	6015	361	119	27325313	27356341	1	None	CD124
16	IL4R	ENSG00000077238	ENST00000561946	retained_intron	KNOWN	None	6015	None	None	27325351	27356411	1	None	CD124
16	IL4R	ENSG00000077238	ENST00000563787	retained_intron	KNOWN	None	6015	None	None	27326718	27356360	1	None	CD124
16	IL4R	ENSG00000077238	ENST00000565696	retained_intron	KNOWN	None	6015	None	None	27353352	27357939	1	None	CD124
16	IL4R	ENSG00000077238	ENST00000562968	protein_coding	PUTATIVE	None	6015	148	48	27356229	27356923	1	None	CD124
16	IL4R	ENSG00000077238	ENST00000565179	protein_coding	PUTATIVE	None	6015	579	192	27363871	27373694	1	None	CD124
16	IL4R	ENSG00000077238	ENST00000565352	protein_coding	PUTATIVE	None	6015	402	133	27363996	27375618	1	None	CD124
16	IL4R	ENSG00000077238	ENST00000565915	processed_transcript	KNOWN	None	6015	None	None	27365404	27373804	1	None	CD124
16	IL4R	ENSG00000077238	ENST00000563886	retained_intron	KNOWN	None	6015	None	None	27366669	27373617	1	None	CD124
16	IL4R	ENSG00000077238	ENST00000170630	protein_coding	KNOWN	CCDS10629	6015	2478	825	27351504	27376098	1	None	CD124
16	IL4R	ENSG00000077238	ENST00000449195	protein_coding	KNOWN	None	6015	684	227	27325251	27366534	1	None	CD124
16	IL4R	ENSG00000077238	ENST00000380922	protein_coding	KNOWN	CCDS58441	6015	2433	810	27325255	27375224	1	None	CD124
13	IRS2	ENSG00000185950	ENST00000375856	protein_coding	KNOWN	CCDS9510	6126	4017	1338	110406184	110438915	-1	None	None
11	HBG2	ENSG00000196565	ENST00000380252	protein_coding	PUTATIVE	None	4832	414	137	5274420	5526835	-1	None	None
11	HBG2	ENSG00000196565	ENST00000380259	protein_coding	KNOWN	CCDS7755	4832	444	147	5274420	5667019	-1	None	None
11	HBG2	ENSG00000196565	ENST00000444587	nonsense_mediated_decay	KNOWN	None	4832	93	30	5274619	5275971	-1	None	None
11	HBG2	ENSG00000196565	ENST00000336906	protein_coding	KNOWN	CCDS7755	4832	444	147	5274432	5276041	-1	None	None
9	None	ENSG00000169253	ENST00000306634	processed_pseudogene	KNOWN	None	None	None	None	111389113	111389430	1	None	None
10	RNU6-271P	ENSG00000200728	ENST00000363858	snRNA	KNOWN	None	47234	None	None	97872504	97872608	1	None	None
9	None	ENSG00000231678	ENST00000415465	lincRNA	KNOWN	None	None	None	None	111463650	111465372	1	None	None
1	PRPF38B	ENSG00000134186	ENST00000370025	protein_coding	KNOWN	CCDS788	25512	1641	546	109234945	109244425	1	None	FLJ10330, NET1
1	PRPF38B	ENSG00000134186	ENST00000370022	protein_coding	KNOWN	None	25512	573	190	109234946	109240126	1	None	FLJ10330, NET1
1	PRPF38B	ENSG00000134186	ENST00000467302	processed_transcript	KNOWN	None	25512	None	None	109234949	109240126	1	None	FLJ10330, NET1
1	PRPF38B	ENSG00000134186	ENST00000370021	protein_coding	KNOWN	None	25512	1308	435	109234963	109244425	1	None	FLJ10330, NET1
1	PRPF38B	ENSG00000134186	ENST00000485810	processed_transcript	KNOWN	None	25512	None	None	109240322	109242007	1	None	FLJ10330, NET1
4	MANBA	ENSG00000109323	ENST00000514430	retained_intron	KNOWN	None	6831	None	None	103552660	103682098	-1	None	None
4	MANBA	ENSG00000109323	ENST00000226578	protein_coding	KNOWN	CCDS3658	6831	2640	879	103553050	103682151	-1	None	None
4	MANBA	ENSG00000109323	ENST00000505239	protein_coding	NOVEL	None	6831	2469	822	103553145	103682090	-1	None	None
4	MANBA	ENSG00000109323	ENST00000508141	retained_intron	KNOWN	None	6831	None	None	103557063	103571995	-1	None	None
4	MANBA	ENSG00000109323	ENST00000506478	retained_intron	KNOWN	None	6831	None	None	103643530	103645041	-1	None	None
4	MANBA	ENSG00000109323	ENST00000511813	nonsense_mediated_decay	KNOWN	None	6831	207	68	103645031	103682140	-1	None	None
4	MANBA	ENSG00000109323	ENST00000507358	retained_intron	KNOWN	None	6831	None	None	103674848	103682151	-1	None	None
6	MDC1	ENSG00000137337	ENST00000376406	protein_coding	KNOWN	CCDS34384	21163	6270	2089	30667584	30685666	-1	None	NFBD1, KIAA0170, Em:AB023051.5
6	MDC1	ENSG00000137337	ENST00000489540	retained_intron	KNOWN	None	21163	None	None	30668092	30671858	-1	None	NFBD1, KIAA0170, Em:AB023051.5
6	MDC1	ENSG00000137337	ENST00000417033	protein_coding	KNOWN	None	21163	916	304	30673225	30679691	-1	None	NFBD1, KIAA0170, Em:AB023051.5
6	MDC1	ENSG00000137337	ENST00000492462	retained_intron	KNOWN	None	21163	None	None	30673359	30675462	-1	None	NFBD1, KIAA0170, Em:AB023051.5
6	MDC1	ENSG00000137337	ENST00000494654	processed_transcript	KNOWN	None	21163	None	None	30679249	30679708	-1	None	NFBD1, KIAA0170, Em:AB023051.5
6	MDC1	ENSG00000137337	ENST00000416571	protein_coding	KNOWN	None	21163	487	161	30681610	30684952	-1	None	NFBD1, KIAA0170, Em:AB023051.5
6	MDC1	ENSG00000137337	ENST00000425072	protein_coding	KNOWN	None	21163	380	125	30681717	30685224	-1	None	NFBD1, KIAA0170, Em:AB023051.5
6	MDC1	ENSG00000137337	ENST00000422266	protein_coding	KNOWN	None	21163	340	112	30681757	30684898	-1	None	NFBD1, KIAA0170, Em:AB023051.5
6	MDC1	ENSG00000137337	ENST00000376405	protein_coding	KNOWN	None	21163	5478	1825	30667585	30685458	-1	None	NFBD1, KIAA0170, Em:AB023051.5
3	HESX1	ENSG00000163666	ENST00000295934	protein_coding	KNOWN	CCDS2881	4877	558	185	57231944	57233983	-1	None	RPX, ANF
3	HESX1	ENSG00000163666	ENST00000473921	protein_coding	NOVEL	None	4877	456	151	57232009	57233966	-1	None	RPX, ANF
3	HESX1	ENSG00000163666	ENST00000495160	protein_coding	KNOWN	None	4877	321	106	57232817	57260549	-1	None	RPX, ANF
9	None	ENSG00000231810	ENST00000426082	processed_pseudogene	KNOWN	None	None	None	None	111583977	111584284	1	None	None
7	PARP12	ENSG00000059378	ENST00000263549	protein_coding	KNOWN	CCDS5857	21919	2106	701	139723544	139763521	-1	ZC3HDC1	FLJ22693, PARP-12, ZC3H1
7	PARP12	ENSG00000059378	ENST00000473341	nonsense_mediated_decay	KNOWN	None	21919	1263	420	139723549	139762733	-1	ZC3HDC1	FLJ22693, PARP-12, ZC3H1
7	PARP12	ENSG00000059378	ENST00000488726	retained_intron	KNOWN	None	21919	None	None	139723586	139757109	-1	ZC3HDC1	FLJ22693, PARP-12, ZC3H1
7	PARP12	ENSG00000059378	ENST00000489809	protein_coding	PUTATIVE	None	21919	522	173	139724334	139756791	-1	ZC3HDC1	FLJ22693, PARP-12, ZC3H1
7	PARP12	ENSG00000059378	ENST00000491598	nonsense_mediated_decay	KNOWN	None	21919	137	44	139724381	139754563	-1	ZC3HDC1	FLJ22693, PARP-12, ZC3H1
7	PARP12	ENSG00000059378	ENST00000484111	protein_coding	PUTATIVE	None	21919	230	75	139725043	139727118	-1	ZC3HDC1	FLJ22693, PARP-12, ZC3H1
7	PARP12	ENSG00000059378	ENST00000496624	retained_intron	KNOWN	None	21919	None	None	139725996	139728942	-1	ZC3HDC1	FLJ22693, PARP-12, ZC3H1
7	PARP12	ENSG00000059378	ENST00000489383	retained_intron	KNOWN	None	21919	None	None	139726004	139727467	-1	ZC3HDC1	FLJ22693, PARP-12, ZC3H1
7	PARP12	ENSG00000059378	ENST00000466597	retained_intron	KNOWN	None	21919	None	None	139727076	139734536	-1	ZC3HDC1	FLJ22693, PARP-12, ZC3H1
7	PARP12	ENSG00000059378	ENST00000470515	processed_transcript	KNOWN	None	21919	None	None	139733642	139741528	-1	ZC3HDC1	FLJ22693, PARP-12, ZC3H1
7	PARP12	ENSG00000059378	ENST00000493262	retained_intron	KNOWN	None	21919	None	None	139741179	139754522	-1	ZC3HDC1	FLJ22693, PARP-12, ZC3H1
7	PARP12	ENSG00000059378	ENST00000467638	retained_intron	KNOWN	None	21919	None	None	139757207	139762351	-1	ZC3HDC1	FLJ22693, PARP-12, ZC3H1
7	None	ENSG00000205506	ENST00000429058	unprocessed_pseudogene	KNOWN	None	None	None	None	74938329	74944214	1	None	None
7	None	ENSG00000205506	ENST00000398408	unprocessed_pseudogene	KNOWN	None	None	None	None	74936533	74944219	1	None	None
2	RAB3GAP1	ENSG00000115839	ENST00000264158	protein_coding	KNOWN	CCDS33294	17063	2946	981	135809835	135928276	1	None	RAB3GAP, KIAA0066, RAB3GAP130, WARBM1
2	RAB3GAP1	ENSG00000115839	ENST00000442034	protein_coding	NOVEL	CCDS54402	17063	2967	988	135809868	135927559	1	None	RAB3GAP, KIAA0066, RAB3GAP130, WARBM1
2	RAB3GAP1	ENSG00000115839	ENST00000425393	protein_coding	PUTATIVE	None	17063	177	58	135809869	135816636	1	None	RAB3GAP, KIAA0066, RAB3GAP130, WARBM1
2	RAB3GAP1	ENSG00000115839	ENST00000487003	processed_transcript	KNOWN	None	17063	None	None	135847224	135933964	1	None	RAB3GAP, KIAA0066, RAB3GAP130, WARBM1
2	RAB3GAP1	ENSG00000115839	ENST00000489858	retained_intron	KNOWN	None	17063	None	None	135881650	135888275	1	None	RAB3GAP, KIAA0066, RAB3GAP130, WARBM1
2	RAB3GAP1	ENSG00000115839	ENST00000497080	retained_intron	KNOWN	None	17063	None	None	135926118	135927547	1	None	RAB3GAP, KIAA0066, RAB3GAP130, WARBM1
2	RAB3GAP1	ENSG00000115839	ENST00000539493	protein_coding	KNOWN	None	17063	2808	935	135809865	135933964	1	None	RAB3GAP, KIAA0066, RAB3GAP130, WARBM1
10	ZNF518A	ENSG00000177853	ENST00000567632	processed_transcript	KNOWN	None	29009	None	None	97889472	97922498	1	ZNF518	KIAA0335
10	ZNF518A	ENSG00000177853	ENST00000488700	processed_transcript	KNOWN	None	29009	None	None	97889492	97915776	1	ZNF518	KIAA0335
10	ZNF518A	ENSG00000177853	ENST00000539666	processed_transcript	KNOWN	None	29009	None	None	97889813	97911323	1	ZNF518	KIAA0335
10	ZNF518A	ENSG00000177853	ENST00000478086	processed_transcript	KNOWN	None	29009	None	None	97889813	97917094	1	ZNF518	KIAA0335
10	ZNF518A	ENSG00000177853	ENST00000563195	processed_transcript	KNOWN	None	29009	None	None	97889829	97965044	1	ZNF518	KIAA0335
10	ZNF518A	ENSG00000177853	ENST00000484770	retained_intron	KNOWN	None	29009	None	None	97890436	97892666	1	ZNF518	KIAA0335
10	ZNF518A	ENSG00000177853	ENST00000371192	retained_intron	KNOWN	None	29009	None	None	97915100	97923517	1	ZNF518	KIAA0335
10	ZNF518A	ENSG00000177853	ENST00000442635	processed_transcript	KNOWN	None	29009	None	None	97915770	97963885	1	ZNF518	KIAA0335
10	ZNF518A	ENSG00000177853	ENST00000534948	processed_transcript	KNOWN	None	29009	None	None	97889472	97923508	1	ZNF518	KIAA0335
10	ZNF518A	ENSG00000177853	ENST00000316045	processed_transcript	KNOWN	None	29009	None	None	97889656	97920530	1	ZNF518	KIAA0335
18	CCDC11	ENSG00000172361	ENST00000398545	protein_coding	KNOWN	CCDS11940	26530	1545	514	47753563	47792892	-1	None	FLJ32743
20	GATA5	ENSG00000130700	ENST00000252997	protein_coding	KNOWN	CCDS13499	15802	1194	397	61038553	61051026	-1	None	bB379O24.1, GATAS
4	ZNF595	ENSG00000197701	ENST00000339368	processed_transcript	KNOWN	None	27196	None	None	53179	88099	1	None	FLJ31740
4	ZNF595	ENSG00000197701	ENST00000507368	processed_transcript	KNOWN	None	27196	None	None	53180	87412	1	None	FLJ31740
4	ZNF595	ENSG00000197701	ENST00000512065	processed_transcript	KNOWN	None	27196	None	None	53189	87410	1	None	FLJ31740
4	ZNF595	ENSG00000197701	ENST00000509152	protein_coding	PUTATIVE	None	27196	258	85	53198	68392	1	None	FLJ31740
4	ZNF595	ENSG00000197701	ENST00000502981	retained_intron	KNOWN	None	27196	None	None	53223	60407	1	None	FLJ31740
4	ZNF595	ENSG00000197701	ENST00000526473	protein_coding	KNOWN	None	27196	279	92	53210	60296	1	None	FLJ31740
19	MIR521-2	ENSG00000207549	ENST00000384818	miRNA	KNOWN	None	32113	None	None	54219848	54219934	1	MIRN521-2	hsa-mir-521-2
7	None	ENSG00000223813	ENST00000447171	processed_transcript	PUTATIVE	None	None	None	None	29554385	29603279	-1	None	None
7	None	ENSG00000223813	ENST00000450540	processed_transcript	PUTATIVE	None	None	None	None	29554707	29603286	-1	None	None
19	RNU6-803P	ENSG00000251843	ENST00000516034	snRNA	KNOWN	None	47766	None	None	54222318	54222419	-1	None	None
19	C19orf73	ENSG00000221916	ENST00000408991	protein_coding	KNOWN	CCDS42589	25534	390	129	49621655	49622397	-1	None	FLJ10490
19	MIR520D	ENSG00000207735	ENST00000385002	miRNA	KNOWN	None	32114	None	None	54223350	54223436	1	MIRN520D	hsa-mir-520d
4	None	ENSG00000251185	ENST00000505930	lincRNA	KNOWN	None	None	None	None	76194278	76286392	-1	None	None
10	NT5C2	ENSG00000076685	ENST00000404739	protein_coding	KNOWN	CCDS7544	8022	1686	561	104847774	104934739	-1	NT5B	PNT5, GMP, cN-II
10	NT5C2	ENSG00000076685	ENST00000369857	processed_transcript	KNOWN	None	8022	None	None	104848674	104953029	-1	NT5B	PNT5, GMP, cN-II
10	NT5C2	ENSG00000076685	ENST00000421281	protein_coding	NOVEL	None	8022	440	145	104849598	104854125	-1	NT5B	PNT5, GMP, cN-II
10	NT5C2	ENSG00000076685	ENST00000469228	retained_intron	KNOWN	None	8022	None	None	104853489	104854292	-1	NT5B	PNT5, GMP, cN-II
10	NT5C2	ENSG00000076685	ENST00000452156	nonsense_mediated_decay	KNOWN	None	8022	795	264	104857048	104953029	-1	NT5B	PNT5, GMP, cN-II
10	NT5C2	ENSG00000076685	ENST00000461461	nonsense_mediated_decay	KNOWN	None	8022	189	62	104857065	104953055	-1	NT5B	PNT5, GMP, cN-II
10	NT5C2	ENSG00000076685	ENST00000458345	protein_coding	NOVEL	None	8022	525	174	104857729	104866407	-1	NT5B	PNT5, GMP, cN-II
10	NT5C2	ENSG00000076685	ENST00000470228	retained_intron	KNOWN	None	8022	None	None	104858149	104865516	-1	NT5B	PNT5, GMP, cN-II
10	NT5C2	ENSG00000076685	ENST00000552185	nonsense_mediated_decay	KNOWN	None	8022	472	156	104858728	104866441	-1	NT5B	PNT5, GMP, cN-II
10	NT5C2	ENSG00000076685	ENST00000487810	processed_transcript	KNOWN	None	8022	None	None	104859683	104899949	-1	NT5B	PNT5, GMP, cN-II
10	NT5C2	ENSG00000076685	ENST00000481549	processed_transcript	KNOWN	None	8022	None	None	104860625	104866444	-1	NT5B	PNT5, GMP, cN-II
10	NT5C2	ENSG00000076685	ENST00000470299	protein_coding	PUTATIVE	None	8022	135	44	104871502	104953055	-1	NT5B	PNT5, GMP, cN-II
10	NT5C2	ENSG00000076685	ENST00000467380	processed_transcript	KNOWN	None	8022	None	None	104929041	104941077	-1	NT5B	PNT5, GMP, cN-II
10	NT5C2	ENSG00000076685	ENST00000343289	protein_coding	KNOWN	CCDS7544	8022	1686	561	104845940	104953056	-1	NT5B	PNT5, GMP, cN-II
10	NT5C2	ENSG00000076685	ENST00000423468	protein_coding	KNOWN	None	8022	1599	532	104849342	104913384	-1	NT5B	PNT5, GMP, cN-II
19	MIR517B	ENSG00000207837	ENST00000385102	miRNA	KNOWN	None	32115	None	None	54224330	54224396	1	MIRN517B	hsa-mir-517b
4	None	ENSG00000251454	ENST00000509215	lincRNA	KNOWN	None	None	None	None	76266489	76284234	-1	None	None
19	MIR520G	ENSG00000207799	ENST00000385064	miRNA	KNOWN	None	32116	None	None	54225420	54225509	1	MIRN520G	hsa-mir-520g
1	TEX35	ENSG00000240021	ENST00000319416	protein_coding	KNOWN	CCDS1323	25366	702	233	178482212	178491784	1	C1orf49	DKFZP564J047, TSC24
1	TEX35	ENSG00000240021	ENST00000367643	protein_coding	KNOWN	CCDS53433	25366	639	212	178482247	178490945	1	C1orf49	DKFZP564J047, TSC24
1	TEX35	ENSG00000240021	ENST00000367642	protein_coding	KNOWN	None	25366	300	99	178482253	178491783	1	C1orf49	DKFZP564J047, TSC24
1	TEX35	ENSG00000240021	ENST00000367641	protein_coding	KNOWN	None	25366	606	201	178482265	178491784	1	C1orf49	DKFZP564J047, TSC24
1	TEX35	ENSG00000240021	ENST00000419909	nonsense_mediated_decay	KNOWN	None	25366	267	88	178482268	178517734	1	C1orf49	DKFZP564J047, TSC24
1	TEX35	ENSG00000240021	ENST00000367639	protein_coding	KNOWN	CCDS53434	25366	648	215	178482279	178492566	1	C1orf49	DKFZP564J047, TSC24
1	TEX35	ENSG00000240021	ENST00000442872	protein_coding	KNOWN	None	25366	153	50	178489964	178490947	1	C1orf49	DKFZP564J047, TSC24
1	TEX35	ENSG00000240021	ENST00000258298	protein_coding	KNOWN	None	25366	540	179	178482212	178500693	1	C1orf49	DKFZP564J047, TSC24
19	MIR516B2	ENSG00000207925	ENST00000385190	miRNA	KNOWN	None	32117	None	None	54228696	54228780	1	MIRN516-3, MIRN516B2	hsa-mir-516-3, hsa-mir-516b-2
4	None	ENSG00000251383	ENST00000512043	lincRNA	KNOWN	None	None	None	None	76279286	76287776	1	None	None
HSCHR6_MHC_DBB	MAS1L	ENSG00000228515	ENST00000449044	protein_coding	KNOWN	None	13961	1137	378	29454408	29455672	-1	None	MAS-L, MRG, dJ994E9.2
19	None	ENSG00000268461	ENST00000595282	protein_coding	NOVEL	None	None	237	78	20047769	20048639	-1	None	None
19	MIR526A2	ENSG00000211532	ENST00000390198	miRNA	KNOWN	None	32118	None	None	54230176	54230240	1	MIRN526A-2, MIRN526A2	hsa-mir-526a-2
4	None	ENSG00000248646	ENST00000510744	lincRNA	KNOWN	None	None	None	None	76286417	76359659	-1	None	None
19	MIR518E	ENSG00000207987	ENST00000385252	miRNA	KNOWN	None	32119	None	None	54233092	54233179	1	MIRN518E	hsa-mir-518e
4	None	ENSG00000250735	ENST00000507739	lincRNA	KNOWN	None	None	None	None	76326405	76348232	1	None	None
4	None	ENSG00000250735	ENST00000515230	lincRNA	KNOWN	None	None	None	None	76326428	76348233	1	None	None
19	MIR518A1	ENSG00000207803	ENST00000385068	miRNA	KNOWN	None	32120	None	None	54234260	54234344	1	MIRN518A-1, MIRN518A1	hsa-mir-518a-1
2	TDRD15	ENSG00000218819	ENST00000405799	protein_coding	NOVEL	None	45037	5805	1934	21346789	21366144	1	None	None
9	RN7SL422P	ENSG00000265605	ENST00000577458	misc_RNA	KNOWN	None	46438	None	None	40516806	40517064	1	None	None
19	RNU6-980P	ENSG00000252734	ENST00000516925	snRNA	KNOWN	None	47943	None	None	54236235	54236337	-1	None	None
4	None	ENSG00000201644	ENST00000364774	misc_RNA	NOVEL	None	None	None	None	76587305	76587397	-1	None	None
11	PGA5	ENSG00000256713	ENST00000312403	protein_coding	KNOWN	CCDS8001	8887	1167	388	61008514	61018920	1	None	None
11	PGA5	ENSG00000256713	ENST00000545109	retained_intron	KNOWN	None	8887	None	None	61008649	61009726	1	None	None
11	PGA5	ENSG00000256713	ENST00000536269	retained_intron	KNOWN	None	8887	None	None	61008649	61011943	1	None	None
11	PGA5	ENSG00000256713	ENST00000535568	retained_intron	KNOWN	None	8887	None	None	61009318	61012991	1	None	None
11	PGA5	ENSG00000256713	ENST00000451616	protein_coding	PUTATIVE	None	8887	705	234	61015594	61018916	1	None	None
11	PGA5	ENSG00000256713	ENST00000541528	protein_coding	PUTATIVE	None	8887	387	128	61016805	61018890	1	None	None
19	MIR518D	ENSG00000207747	ENST00000385014	miRNA	KNOWN	None	32121	None	None	54238131	54238217	1	MIRN518D	hsa-mir-518d
4	RNU2-16P	ENSG00000222644	ENST00000410712	snRNA	KNOWN	None	48509	None	None	76750607	76750742	-1	None	None
19	MIR516B1	ENSG00000207946	ENST00000385211	miRNA	KNOWN	None	32122	None	None	54240099	54240188	1	MIRN516-4, MIRN516B1	hsa-mir-516-4, hsa-mir-516b-1
4	None	ENSG00000229717	ENST00000438151	antisense	KNOWN	None	None	None	None	76751904	76753858	1	None	None
19	CYP2A13	ENSG00000197838	ENST00000330436	protein_coding	KNOWN	CCDS12571	2608	1485	494	41594377	41602100	1	None	CPAD, CYP2A
5	PCDHAC2	ENSG00000243232	ENST00000289269	protein_coding	KNOWN	CCDS4242	8677	3024	1007	140345820	140391936	1	None	PCDH-ALPHA-C2
19	MIR518A2	ENSG00000207699	ENST00000384966	miRNA	KNOWN	None	32123	None	None	54242587	54242673	1	MIRN518A-2, MIRN518A2	hsa-mir-518a-2
4	None	ENSG00000245928	ENST00000501239	antisense	KNOWN	None	None	None	None	76901943	76927095	1	None	None
7	GLI3	ENSG00000106571	ENST00000395925	protein_coding	KNOWN	CCDS5465	4319	4743	1580	42000548	42276612	-1	GCPS, PHS	PAP-A, PAPA, PAPA1, PAPB, ACLS, PPDIV
7	GLI3	ENSG00000106571	ENST00000479210	processed_transcript	KNOWN	None	4319	None	None	42003680	42192052	-1	GCPS, PHS	PAP-A, PAPA, PAPA1, PAPB, ACLS, PPDIV
7	GLI3	ENSG00000106571	ENST00000464291	retained_intron	KNOWN	None	4319	None	None	42012039	42017521	-1	GCPS, PHS	PAP-A, PAPA, PAPA1, PAPB, ACLS, PPDIV
7	GLI3	ENSG00000106571	ENST00000448703	protein_coding	KNOWN	None	4319	540	179	42088229	42267320	-1	GCPS, PHS	PAP-A, PAPA, PAPA1, PAPB, ACLS, PPDIV
7	GLI3	ENSG00000106571	ENST00000437480	protein_coding	PUTATIVE	None	4319	291	96	42212090	42276658	-1	GCPS, PHS	PAP-A, PAPA, PAPA1, PAPB, ACLS, PPDIV
7	GLI3	ENSG00000106571	ENST00000428534	retained_intron	KNOWN	None	4319	None	None	42262399	42277469	-1	GCPS, PHS	PAP-A, PAPA, PAPA1, PAPB, ACLS, PPDIV
20	ACOT8	ENSG00000101473	ENST00000217455	protein_coding	KNOWN	CCDS13378	15919	960	319	44470360	44486045	-1	PTE1	hACTE-III, hTE, PTE-2
20	ACOT8	ENSG00000101473	ENST00000461272	nonsense_mediated_decay	KNOWN	None	15919	681	226	44470365	44486028	-1	PTE1	hACTE-III, hTE, PTE-2
20	ACOT8	ENSG00000101473	ENST00000488679	nonsense_mediated_decay	KNOWN	None	15919	324	107	44470377	44486041	-1	PTE1	hACTE-III, hTE, PTE-2
20	ACOT8	ENSG00000101473	ENST00000487205	protein_coding	NOVEL	None	15919	629	208	44470404	44483923	-1	PTE1	hACTE-III, hTE, PTE-2
20	ACOT8	ENSG00000101473	ENST00000484975	retained_intron	KNOWN	None	15919	None	None	44470662	44477749	-1	PTE1	hACTE-III, hTE, PTE-2
20	ACOT8	ENSG00000101473	ENST00000493118	retained_intron	KNOWN	None	15919	None	None	44470662	44486010	-1	PTE1	hACTE-III, hTE, PTE-2
20	ACOT8	ENSG00000101473	ENST00000483141	nonsense_mediated_decay	KNOWN	None	15919	516	171	44471386	44486008	-1	PTE1	hACTE-III, hTE, PTE-2
20	ACOT8	ENSG00000101473	ENST00000484783	retained_intron	KNOWN	None	15919	None	None	44472362	44486036	-1	PTE1	hACTE-III, hTE, PTE-2
20	ACOT8	ENSG00000101473	ENST00000486165	nonsense_mediated_decay	KNOWN	None	15919	399	132	44472902	44486010	-1	PTE1	hACTE-III, hTE, PTE-2
20	ACOT8	ENSG00000101473	ENST00000481938	nonsense_mediated_decay	KNOWN	None	15919	285	94	44477172	44486044	-1	PTE1	hACTE-III, hTE, PTE-2
20	ACOT8	ENSG00000101473	ENST00000457981	protein_coding	PUTATIVE	None	15919	223	73	44482059	44485835	-1	PTE1	hACTE-III, hTE, PTE-2
20	ACOT8	ENSG00000101473	ENST00000426915	protein_coding	PUTATIVE	None	15919	279	92	44482061	44485948	-1	PTE1	hACTE-III, hTE, PTE-2
19	MIR517C	ENSG00000207838	ENST00000385103	miRNA	KNOWN	None	32124	None	None	54244567	54244661	1	MIRN517C	hsa-mir-517c
19	None	ENSG00000267319	ENST00000589357	processed_pseudogene	KNOWN	None	None	None	None	38184181	38184465	-1	None	None
1	DHRS3	ENSG00000162496	ENST00000376223	protein_coding	KNOWN	CCDS146	17693	909	302	12627939	12677737	-1	None	retSDR1, Rsdr1, SDR1, RDH17, SDR16C1
1	DHRS3	ENSG00000162496	ENST00000464917	processed_transcript	KNOWN	None	17693	None	None	12628421	12676799	-1	None	retSDR1, Rsdr1, SDR1, RDH17, SDR16C1
1	DHRS3	ENSG00000162496	ENST00000430996	protein_coding	KNOWN	None	17693	443	146	12638746	12656321	-1	None	retSDR1, Rsdr1, SDR1, RDH17, SDR16C1
1	DHRS3	ENSG00000162496	ENST00000482265	processed_transcript	KNOWN	None	17693	None	None	12639796	12676700	-1	None	retSDR1, Rsdr1, SDR1, RDH17, SDR16C1
19	MIR520H	ENSG00000207861	ENST00000385126	miRNA	KNOWN	None	32125	None	None	54245766	54245853	1	MIRN520H	hsa-mir-520h
19	None	ENSG00000267152	ENST00000588040	lincRNA	KNOWN	None	None	None	None	38219487	38221544	-1	None	None
19	RNU6-982P	ENSG00000252025	ENST00000516216	snRNA	KNOWN	None	47945	None	None	54248258	54248359	-1	None	None
12	ERBB3	ENSG00000065361	ENST00000549282	protein_coding	KNOWN	None	3431	379	125	56473641	56478923	1	LCCS2	HER3
12	ERBB3	ENSG00000065361	ENST00000549061	protein_coding	PUTATIVE	None	3431	349	115	56473641	56480419	1	LCCS2	HER3
12	ERBB3	ENSG00000065361	ENST00000267101	protein_coding	KNOWN	CCDS31833	3431	4029	1342	56473645	56497289	1	LCCS2	HER3
12	ERBB3	ENSG00000065361	ENST00000411731	protein_coding	KNOWN	CCDS44918	3431	552	183	56473921	56479400	1	LCCS2	HER3
12	ERBB3	ENSG00000065361	ENST00000550869	nonsense_mediated_decay	KNOWN	None	3431	132	43	56473951	56490553	1	LCCS2	HER3
12	ERBB3	ENSG00000065361	ENST00000551085	nonsense_mediated_decay	KNOWN	None	3431	2766	921	56473952	56495876	1	LCCS2	HER3
12	ERBB3	ENSG00000065361	ENST00000546884	retained_intron	KNOWN	None	3431	None	None	56473988	56480456	1	LCCS2	HER3
12	ERBB3	ENSG00000065361	ENST00000551242	nonsense_mediated_decay	KNOWN	None	3431	996	331	56473989	56496618	1	LCCS2	HER3
12	ERBB3	ENSG00000065361	ENST00000549672	protein_coding	PUTATIVE	None	3431	345	114	56477097	56480415	1	LCCS2	HER3
12	ERBB3	ENSG00000065361	ENST00000415288	protein_coding	KNOWN	None	3431	3852	1283	56477103	56496120	1	LCCS2	HER3
12	ERBB3	ENSG00000065361	ENST00000549472	retained_intron	KNOWN	None	3431	None	None	56480303	56481848	1	LCCS2	HER3
12	ERBB3	ENSG00000065361	ENST00000546748	retained_intron	KNOWN	None	3431	None	None	56481608	56482652	1	LCCS2	HER3
12	ERBB3	ENSG00000065361	ENST00000551176	retained_intron	KNOWN	None	3431	None	None	56482413	56482780	1	LCCS2	HER3
12	ERBB3	ENSG00000065361	ENST00000549205	retained_intron	KNOWN	None	3431	None	None	56487267	56489847	1	LCCS2	HER3
12	ERBB3	ENSG00000065361	ENST00000550828	retained_intron	KNOWN	None	3431	None	None	56487298	56487776	1	LCCS2	HER3
12	ERBB3	ENSG00000065361	ENST00000550070	protein_coding	PUTATIVE	None	3431	1950	649	56487616	56496618	1	LCCS2	HER3
12	ERBB3	ENSG00000065361	ENST00000549644	retained_intron	KNOWN	None	3431	None	None	56488306	56489311	1	LCCS2	HER3
12	ERBB3	ENSG00000065361	ENST00000553131	protein_coding	PUTATIVE	None	3431	1752	583	56489775	56496590	1	LCCS2	HER3
12	ERBB3	ENSG00000065361	ENST00000548709	retained_intron	KNOWN	None	3431	None	None	56490918	56492764	1	LCCS2	HER3
12	ERBB3	ENSG00000065361	ENST00000549832	protein_coding	PUTATIVE	None	3431	1389	462	56492035	56497283	1	LCCS2	HER3
12	ERBB3	ENSG00000065361	ENST00000552691	retained_intron	KNOWN	None	3431	None	None	56493650	56494084	1	LCCS2	HER3
12	ERBB3	ENSG00000065361	ENST00000450146	protein_coding	KNOWN	None	3431	2100	699	56473951	56496158	1	LCCS2	HER3
7	None	ENSG00000270196	ENST00000604053	processed_pseudogene	KNOWN	None	None	None	None	29591137	29591767	1	None	None
19	MIR521-1	ENSG00000207634	ENST00000384902	miRNA	KNOWN	None	32126	None	None	54251890	54251976	1	MIRN521-1	hsa-mir-521-1
19	RNU6-751P	ENSG00000252191	ENST00000516382	snRNA	KNOWN	None	47714	None	None	54253105	54253205	-1	None	None
19	None	ENSG00000267422	ENST00000591908	processed_transcript	KNOWN	None	None	None	None	38270326	38283412	1	None	None
19	None	ENSG00000267422	ENST00000587765	transcribed_processed_pseudogene	KNOWN	None	None	None	None	38282412	38283505	1	None	None
19	MIR522	ENSG00000207806	ENST00000385071	miRNA	KNOWN	None	32127	None	None	54254465	54254551	1	MIRN522	hsa-mir-522
HSCHR6_MHC_MCF	PPT2	ENSG00000231618	ENST00000447703	protein_coding	KNOWN	None	9326	541	179	32197644	32200185	1	None	None
HSCHR6_MHC_MCF	PPT2	ENSG00000231618	ENST00000423347	protein_coding	KNOWN	None	9326	927	308	32197726	32207887	1	None	None
HSCHR6_MHC_MCF	PPT2	ENSG00000231618	ENST00000490571	processed_transcript	KNOWN	None	9326	None	None	32197745	32202056	1	None	None
HSCHR6_MHC_MCF	PPT2	ENSG00000231618	ENST00000440507	protein_coding	KNOWN	None	9326	909	302	32197780	32207887	1	None	None
HSCHR6_MHC_MCF	PPT2	ENSG00000231618	ENST00000496937	nonsense_mediated_decay	KNOWN	None	9326	906	301	32198048	32212490	1	None	None
HSCHR6_MHC_MCF	PPT2	ENSG00000231618	ENST00000424353	protein_coding	KNOWN	None	9326	909	302	32198298	32207887	1	None	None
HSCHR6_MHC_MCF	PPT2	ENSG00000231618	ENST00000452304	protein_coding	KNOWN	None	9326	909	302	32198341	32207887	1	None	None
HSCHR6_MHC_MCF	PPT2	ENSG00000231618	ENST00000443298	protein_coding	NOVEL	None	9326	476	157	32198370	32202131	1	None	None
HSCHR6_MHC_MCF	PPT2	ENSG00000231618	ENST00000459936	processed_transcript	KNOWN	None	9326	None	None	32198400	32206805	1	None	None
HSCHR6_MHC_MCF	PPT2	ENSG00000231618	ENST00000483565	nonsense_mediated_decay	KNOWN	None	9326	906	301	32198425	32216187	1	None	None
HSCHR6_MHC_MCF	PPT2	ENSG00000231618	ENST00000426325	protein_coding	KNOWN	None	9326	601	199	32198669	32201903	1	None	None
HSCHR6_MHC_MCF	PPT2	ENSG00000231618	ENST00000426390	protein_coding	NOVEL	None	9326	279	92	32198681	32199990	1	None	None
HSCHR6_MHC_MCF	PPT2	ENSG00000231618	ENST00000469618	processed_transcript	PUTATIVE	None	9326	None	None	32199221	32199966	1	None	None
HSCHR6_MHC_MCF	PPT2	ENSG00000231618	ENST00000474530	retained_intron	KNOWN	None	9326	None	None	32201318	32208864	1	None	None
HSCHR6_MHC_MCF	PPT2	ENSG00000231618	ENST00000480214	retained_intron	KNOWN	None	9326	None	None	32201697	32202529	1	None	None
HSCHR6_MHC_MCF	PPT2	ENSG00000231618	ENST00000497702	nonsense_mediated_decay	KNOWN	None	9326	383	126	32201850	32211214	1	None	None
HSCHR6_MHC_MCF	PPT2	ENSG00000231618	ENST00000548089	protein_coding	KNOWN	None	9326	906	301	32198048	32210408	1	None	None
HSCHR6_MHC_MCF	PPT2	ENSG00000231618	ENST00000551222	protein_coding	KNOWN	None	9326	909	302	32198048	32207884	1	None	None
HSCHR6_MHC_MCF	PPT2	ENSG00000231618	ENST00000549741	protein_coding	KNOWN	None	9326	882	293	32208837	32212494	1	None	None
19	MIR519A1	ENSG00000207992	ENST00000385257	miRNA	KNOWN	None	32128	None	None	54255651	54255735	1	MIRN519A-1, MIRN519A1	hsa-mir-519a-1
19	MIR527	ENSG00000207979	ENST00000385244	miRNA	KNOWN	None	32129	None	None	54257272	54257356	1	MIRN527	hsa-mir-527
7	None	ENSG00000225264	ENST00000442865	processed_transcript	PUTATIVE	None	None	None	None	29638411	29724871	-1	None	None
7	None	ENSG00000225264	ENST00000426767	processed_transcript	PUTATIVE	None	None	None	None	29690659	29724754	-1	None	None
19	None	ENSG00000267640	ENST00000589653	lincRNA	KNOWN	None	None	None	None	38307999	38310935	1	None	None
19	None	ENSG00000267640	ENST00000590433	lincRNA	KNOWN	None	None	None	None	38308051	38317278	1	None	None
19	None	ENSG00000267640	ENST00000592103	lincRNA	KNOWN	None	None	None	None	38308125	38317048	1	None	None
19	None	ENSG00000267640	ENST00000587248	lincRNA	KNOWN	None	None	None	None	38308566	38316851	1	None	None
19	None	ENSG00000267640	ENST00000586819	lincRNA	KNOWN	None	None	None	None	38308566	38317215	1	None	None
22	None	ENSG00000206090	ENST00000443377	unprocessed_pseudogene	KNOWN	None	None	None	None	24282185	24284985	1	None	None
8	C8orf4	ENSG00000176907	ENST00000315792	protein_coding	KNOWN	CCDS6115	1357	321	106	40010989	40012821	1	None	TC-1, hTC-1
12	HRK	ENSG00000135116	ENST00000257572	protein_coding	KNOWN	CCDS9181	5185	276	91	117293949	117319246	-1	None	DP5
12	HRK	ENSG00000135116	ENST00000552092	processed_transcript	KNOWN	None	5185	None	None	117298932	117317422	-1	None	DP5
12	HRK	ENSG00000135116	ENST00000550505	protein_coding	KNOWN	None	5185	57	18	117299138	117318893	-1	None	DP5
12	HRK	ENSG00000135116	ENST00000586941	processed_transcript	KNOWN	None	5185	None	None	117307282	117316302	-1	None	DP5
22	None	ENSG00000231271	ENST00000440099	unprocessed_pseudogene	KNOWN	None	None	None	None	24292105	24296229	1	None	None
2	KLHL29	ENSG00000119771	ENST00000486442	protein_coding	KNOWN	CCDS54335	29404	2628	875	23608088	23931476	1	KBTBD9	KIAA1921
2	KLHL29	ENSG00000119771	ENST00000489446	retained_intron	KNOWN	None	29404	None	None	23755455	23867155	1	KBTBD9	KIAA1921
2	KLHL29	ENSG00000119771	ENST00000288548	protein_coding	PUTATIVE	None	29404	1628	541	23865262	23920802	1	KBTBD9	KIAA1921
2	KLHL29	ENSG00000119771	ENST00000471654	retained_intron	KNOWN	None	29404	None	None	23911655	23931481	1	KBTBD9	KIAA1921
19	GPATCH1	ENSG00000076650	ENST00000170564	protein_coding	KNOWN	CCDS12428	24658	2796	931	33571786	33621448	1	GPATC1	ECGP, FLJ10206, FLJ38686
19	GPATCH1	ENSG00000076650	ENST00000592165	nonsense_mediated_decay	KNOWN	None	24658	387	128	33571805	33600783	1	GPATC1	ECGP, FLJ10206, FLJ38686
19	GPATCH1	ENSG00000076650	ENST00000590062	retained_intron	KNOWN	None	24658	None	None	33600783	33603585	1	GPATC1	ECGP, FLJ10206, FLJ38686
19	GPATCH1	ENSG00000076650	ENST00000592262	retained_intron	KNOWN	None	24658	None	None	33603845	33621312	1	GPATC1	ECGP, FLJ10206, FLJ38686
10	C10orf76	ENSG00000120029	ENST00000495001	processed_transcript	KNOWN	None	25788	None	None	103605356	103649493	-1	None	FLJ13114
10	C10orf76	ENSG00000120029	ENST00000370033	protein_coding	KNOWN	CCDS41563	25788	2070	689	103605356	103815950	-1	None	FLJ13114
10	C10orf76	ENSG00000120029	ENST00000456149	protein_coding	KNOWN	None	25788	284	93	103750308	103761821	-1	None	FLJ13114
10	C10orf76	ENSG00000120029	ENST00000470043	processed_transcript	KNOWN	None	25788	None	None	103789205	103793195	-1	None	FLJ13114
10	C10orf76	ENSG00000120029	ENST00000311122	protein_coding	KNOWN	None	25788	597	198	103789205	103815950	-1	None	FLJ13114
22	None	ENSG00000228039	ENST00000423307	processed_pseudogene	KNOWN	None	None	None	None	24305967	24306561	1	None	None
22	None	ENSG00000228039	ENST00000542932	processed_pseudogene	KNOWN	None	None	None	None	24305942	24306644	1	None	None
17	UNC13D	ENSG00000092929	ENST00000589670	protein_coding	KNOWN	None	23147	439	145	73823306	73826228	-1	None	Munc13-4
17	UNC13D	ENSG00000092929	ENST00000207549	protein_coding	KNOWN	CCDS11730	23147	3273	1090	73823306	73840798	-1	None	Munc13-4
17	UNC13D	ENSG00000092929	ENST00000412096	protein_coding	KNOWN	None	23147	3429	1142	73823345	73840431	-1	None	Munc13-4
17	UNC13D	ENSG00000092929	ENST00000586519	nonsense_mediated_decay	KNOWN	None	23147	207	68	73824038	73826518	-1	None	Munc13-4
17	UNC13D	ENSG00000092929	ENST00000590856	retained_intron	KNOWN	None	23147	None	None	73825743	73826742	-1	None	Munc13-4
17	UNC13D	ENSG00000092929	ENST00000586930	processed_transcript	KNOWN	None	23147	None	None	73827376	73829350	-1	None	Munc13-4
17	UNC13D	ENSG00000092929	ENST00000591563	retained_intron	KNOWN	None	23147	None	None	73827382	73840499	-1	None	Munc13-4
17	UNC13D	ENSG00000092929	ENST00000591616	retained_intron	KNOWN	None	23147	None	None	73830406	73831353	-1	None	Munc13-4
17	UNC13D	ENSG00000092929	ENST00000586147	protein_coding	PUTATIVE	None	23147	566	187	73831500	73840441	-1	None	Munc13-4
17	UNC13D	ENSG00000092929	ENST00000587105	nonsense_mediated_decay	KNOWN	None	23147	443	146	73831798	73836385	-1	None	Munc13-4
17	UNC13D	ENSG00000092929	ENST00000587504	processed_transcript	KNOWN	None	23147	None	None	73835928	73839825	-1	None	Munc13-4
17	UNC13D	ENSG00000092929	ENST00000592386	protein_coding	NOVEL	None	23147	930	309	73836099	73840415	-1	None	Munc13-4
17	UNC13D	ENSG00000092929	ENST00000590762	protein_coding	PUTATIVE	None	23147	801	266	73836306	73839850	-1	None	Munc13-4
17	UNC13D	ENSG00000092929	ENST00000587495	retained_intron	KNOWN	None	23147	None	None	73836836	73837237	-1	None	Munc13-4
17	UNC13D	ENSG00000092929	ENST00000585574	processed_transcript	KNOWN	None	23147	None	None	73836875	73839836	-1	None	Munc13-4
17	UNC13D	ENSG00000092929	ENST00000586108	protein_coding	KNOWN	None	23147	509	168	73838574	73840633	-1	None	Munc13-4
17	UNC13D	ENSG00000092929	ENST00000588774	retained_intron	KNOWN	None	23147	None	None	73839240	73840394	-1	None	Munc13-4
4	ZNF732	ENSG00000186777	ENST00000419098	protein_coding	KNOWN	CCDS46990	37138	1758	585	264464	299110	-1	None	FLJ59067
22	None	ENSG00000250470	ENST00000506097	unprocessed_pseudogene	KNOWN	None	None	None	None	24319095	24319776	-1	None	None
22	None	ENSG00000224205	ENST00000437021	unprocessed_pseudogene	KNOWN	None	None	None	None	24329511	24333615	-1	None	None
20	SAMD10	ENSG00000130590	ENST00000369886	protein_coding	KNOWN	CCDS13549	16129	609	202	62605466	62610995	-1	C20orf136	None
20	SAMD10	ENSG00000130590	ENST00000498830	processed_transcript	KNOWN	None	16129	None	None	62606713	62611361	-1	C20orf136	None
20	SAMD10	ENSG00000130590	ENST00000478694	processed_transcript	KNOWN	None	16129	None	None	62606828	62611337	-1	C20orf136	None
20	SAMD10	ENSG00000130590	ENST00000450107	protein_coding	KNOWN	None	16129	318	105	62608650	62610995	-1	C20orf136	None
6	None	ENSG00000239132	ENST00000459013	snoRNA	NOVEL	None	None	None	None	76575681	76575783	1	None	None
6	None	ENSG00000200040	ENST00000363170	misc_RNA	NOVEL	None	None	None	None	76638230	76638342	1	None	None
7	UBE2H	ENSG00000186591	ENST00000355621	protein_coding	KNOWN	CCDS5814	12484	552	183	129470572	129592789	-1	None	UBCH, UBC8, GID3
7	UBE2H	ENSG00000186591	ENST00000473814	protein_coding	KNOWN	CCDS47710	12484	459	152	129474777	129592471	-1	None	UBCH, UBC8, GID3
7	UBE2H	ENSG00000186591	ENST00000496698	protein_coding	PUTATIVE	None	12484	449	148	129474781	129591167	-1	None	UBCH, UBC8, GID3
7	UBE2H	ENSG00000186591	ENST00000483368	retained_intron	KNOWN	None	12484	None	None	129474818	129479581	-1	None	UBCH, UBC8, GID3
7	UBE2H	ENSG00000186591	ENST00000472396	protein_coding	NOVEL	None	12484	370	122	129479044	129592783	-1	None	UBCH, UBC8, GID3
7	UBE2H	ENSG00000186591	ENST00000480245	nonsense_mediated_decay	KNOWN	None	12484	189	62	129479065	129592371	-1	None	UBCH, UBC8, GID3
7	UBE2H	ENSG00000186591	ENST00000486283	retained_intron	KNOWN	None	12484	None	None	129496813	129520816	-1	None	UBCH, UBC8, GID3
7	UBE2H	ENSG00000186591	ENST00000463272	retained_intron	KNOWN	None	12484	None	None	129496919	129498809	-1	None	UBCH, UBC8, GID3
7	UBE2H	ENSG00000186591	ENST00000490974	protein_coding	PUTATIVE	None	12484	309	102	129497388	129592562	-1	None	UBCH, UBC8, GID3
19	ZNF682	ENSG00000197124	ENST00000596019	protein_coding	PUTATIVE	None	28857	249	82	20107867	20150274	-1	None	BC39498_3
19	ZNF682	ENSG00000197124	ENST00000397165	protein_coding	KNOWN	CCDS42533	28857	1497	498	20115227	20150315	-1	None	BC39498_3
19	ZNF682	ENSG00000197124	ENST00000594127	protein_coding	PUTATIVE	None	28857	133	43	20115229	20118071	-1	None	BC39498_3
19	ZNF682	ENSG00000197124	ENST00000601365	retained_intron	KNOWN	None	28857	None	None	20115229	20118997	-1	None	BC39498_3
19	ZNF682	ENSG00000197124	ENST00000602079	protein_coding	PUTATIVE	None	28857	157	51	20115229	20135108	-1	None	BC39498_3
19	ZNF682	ENSG00000197124	ENST00000358523	protein_coding	KNOWN	CCDS42534	28857	1401	466	20116476	20150014	-1	None	BC39498_3
19	ZNF682	ENSG00000197124	ENST00000595736	protein_coding	PUTATIVE	None	28857	1269	422	20116476	20150252	-1	None	BC39498_3
19	ZNF682	ENSG00000197124	ENST00000597972	protein_coding	PUTATIVE	None	28857	1515	504	20116813	20135228	-1	None	BC39498_3
19	ZNF682	ENSG00000197124	ENST00000601100	protein_coding	KNOWN	None	28857	412	136	20117803	20150085	-1	None	BC39498_3
19	ZNF682	ENSG00000197124	ENST00000593468	protein_coding	PUTATIVE	None	28857	312	103	20117911	20150271	-1	None	BC39498_3
19	ZNF682	ENSG00000197124	ENST00000595534	nonsense_mediated_decay	KNOWN	None	28857	231	76	20117965	20150250	-1	None	BC39498_3
19	ZNF682	ENSG00000197124	ENST00000599240	processed_transcript	KNOWN	None	28857	None	None	20141526	20150259	-1	None	BC39498_3
19	ZNF682	ENSG00000197124	ENST00000397162	protein_coding	KNOWN	CCDS42534	28857	1401	466	20115227	20150064	-1	None	BC39498_3
6	RNU6-248P	ENSG00000222652	ENST00000410720	snRNA	KNOWN	None	47211	None	None	76802551	76802657	1	None	None
22	GSTTP1	ENSG00000241850	ENST00000513608	unprocessed_pseudogene	KNOWN	None	26930	None	None	24340828	24347253	-1	None	HS322B1A
22	GSTTP1	ENSG00000241850	ENST00000448934	unprocessed_pseudogene	KNOWN	None	26930	None	None	24340874	24347258	-1	None	HS322B1A
7	TMSB4XP3	ENSG00000223437	ENST00000445144	processed_pseudogene	KNOWN	None	38587	None	None	29665486	29665599	1	None	None
19	MIR516A1	ENSG00000207767	ENST00000385033	miRNA	KNOWN	None	32130	None	None	54259995	54260084	1	MIRN516-1, MIRN516A1	hsa-mir-516-1, hsa-mir-516a-1
6	RNU6-261P	ENSG00000238697	ENST00000459506	snRNA	KNOWN	None	47224	None	None	77156705	77156806	-1	None	None
3	SPATA16	ENSG00000144962	ENST00000351008	protein_coding	KNOWN	CCDS3221	29935	1710	569	172607148	172859058	-1	None	NYD-SP12
6	None	ENSG00000236635	ENST00000455554	lincRNA	KNOWN	None	None	None	None	77232168	77303340	-1	None	None
19	None	ENSG00000265569	ENST00000583623	miRNA	NOVEL	None	None	None	None	54261123	54261223	1	None	None
8	DPYS	ENSG00000147647	ENST00000521601	processed_transcript	KNOWN	None	3013	None	None	105342552	105431140	-1	None	DHPase
8	DPYS	ENSG00000147647	ENST00000351513	protein_coding	KNOWN	CCDS6302	3013	1560	519	105391652	105479281	-1	None	DHPase
8	DPYS	ENSG00000147647	ENST00000520806	retained_intron	KNOWN	None	3013	None	None	105391663	105393639	-1	None	DHPase
8	DPYS	ENSG00000147647	ENST00000533874	protein_coding	PUTATIVE	None	3013	163	53	105391719	105405084	-1	None	DHPase
8	DPYS	ENSG00000147647	ENST00000520483	retained_intron	KNOWN	None	3013	None	None	105392741	105431082	-1	None	DHPase
8	DPYS	ENSG00000147647	ENST00000521372	processed_transcript	PUTATIVE	None	3013	None	None	105393405	105424043	-1	None	DHPase
8	DPYS	ENSG00000147647	ENST00000519217	retained_intron	KNOWN	None	3013	None	None	105441375	105456596	-1	None	DHPase
8	DPYS	ENSG00000147647	ENST00000521573	protein_coding	NOVEL	None	3013	452	149	105456658	105479272	-1	None	DHPase
19	MIR1283-2	ENSG00000221548	ENST00000408621	miRNA	KNOWN	None	35361	None	None	54261486	54261572	1	MIRN1283-2	hsa-mir-1283-2
6	None	ENSG00000272445	ENST00000607737	snRNA	NOVEL	None	None	None	None	77267370	77267471	-1	None	None
6	HLA-DQB1-AS1	ENSG00000223534	ENST00000419852	antisense	KNOWN	None	39762	None	None	32627657	32628506	1	None	None
19	CARD8	ENSG00000105483	ENST00000600800	processed_transcript	KNOWN	None	17057	None	None	48684027	48707209	-1	None	TUCAN, KIAA0955, CARDINAL, NDPP, Dakar
19	CARD8	ENSG00000105483	ENST00000518450	nonsense_mediated_decay	KNOWN	None	17057	211	69	48706403	48722210	-1	None	TUCAN, KIAA0955, CARDINAL, NDPP, Dakar
19	CARD8	ENSG00000105483	ENST00000517510	nonsense_mediated_decay	KNOWN	None	17057	249	82	48706889	48759155	-1	None	TUCAN, KIAA0955, CARDINAL, NDPP, Dakar
19	CARD8	ENSG00000105483	ENST00000518622	nonsense_mediated_decay	KNOWN	None	17057	249	82	48711513	48752925	-1	None	TUCAN, KIAA0955, CARDINAL, NDPP, Dakar
19	CARD8	ENSG00000105483	ENST00000377461	retained_intron	KNOWN	None	17057	None	None	48712901	48735371	-1	None	TUCAN, KIAA0955, CARDINAL, NDPP, Dakar
19	CARD8	ENSG00000105483	ENST00000518979	nonsense_mediated_decay	KNOWN	None	17057	249	82	48712901	48752925	-1	None	TUCAN, KIAA0955, CARDINAL, NDPP, Dakar
19	CARD8	ENSG00000105483	ENST00000520753	protein_coding	PUTATIVE	CCDS54288	17057	1179	392	48713744	48759143	-1	None	TUCAN, KIAA0955, CARDINAL, NDPP, Dakar
19	CARD8	ENSG00000105483	ENST00000522773	nonsense_mediated_decay	KNOWN	None	17057	417	138	48714044	48753067	-1	None	TUCAN, KIAA0955, CARDINAL, NDPP, Dakar
19	CARD8	ENSG00000105483	ENST00000520153	protein_coding	NOVEL	CCDS12712	17057	1464	487	48714044	48753083	-1	None	TUCAN, KIAA0955, CARDINAL, NDPP, Dakar
19	CARD8	ENSG00000105483	ENST00000522051	retained_intron	KNOWN	None	17057	None	None	48714047	48753090	-1	None	TUCAN, KIAA0955, CARDINAL, NDPP, Dakar
19	CARD8	ENSG00000105483	ENST00000519646	nonsense_mediated_decay	KNOWN	None	17057	441	146	48714409	48753083	-1	None	TUCAN, KIAA0955, CARDINAL, NDPP, Dakar
19	CARD8	ENSG00000105483	ENST00000520015	protein_coding	PUTATIVE	CCDS54288	17057	1179	392	48714634	48753090	-1	None	TUCAN, KIAA0955, CARDINAL, NDPP, Dakar
19	CARD8	ENSG00000105483	ENST00000521613	protein_coding	NOVEL	CCDS12712	17057	1464	487	48714823	48759203	-1	None	TUCAN, KIAA0955, CARDINAL, NDPP, Dakar
19	CARD8	ENSG00000105483	ENST00000521415	nonsense_mediated_decay	KNOWN	None	17057	399	132	48714874	48744320	-1	None	TUCAN, KIAA0955, CARDINAL, NDPP, Dakar
19	CARD8	ENSG00000105483	ENST00000519940	protein_coding	NOVEL	CCDS54289	17057	1614	537	48714874	48759146	-1	None	TUCAN, KIAA0955, CARDINAL, NDPP, Dakar
19	CARD8	ENSG00000105483	ENST00000523579	nonsense_mediated_decay	KNOWN	None	17057	73	23	48715084	48733755	-1	None	TUCAN, KIAA0955, CARDINAL, NDPP, Dakar
19	CARD8	ENSG00000105483	ENST00000519302	nonsense_mediated_decay	KNOWN	None	17057	399	132	48715154	48753073	-1	None	TUCAN, KIAA0955, CARDINAL, NDPP, Dakar
19	CARD8	ENSG00000105483	ENST00000523668	retained_intron	KNOWN	None	17057	None	None	48718395	48733904	-1	None	TUCAN, KIAA0955, CARDINAL, NDPP, Dakar
19	CARD8	ENSG00000105483	ENST00000522068	processed_transcript	KNOWN	None	17057	None	None	48734986	48759168	-1	None	TUCAN, KIAA0955, CARDINAL, NDPP, Dakar
19	CARD8	ENSG00000105483	ENST00000523750	processed_transcript	PUTATIVE	None	17057	None	None	48736667	48737721	-1	None	TUCAN, KIAA0955, CARDINAL, NDPP, Dakar
19	CARD8	ENSG00000105483	ENST00000518596	retained_intron	KNOWN	None	17057	None	None	48737078	48753085	-1	None	TUCAN, KIAA0955, CARDINAL, NDPP, Dakar
19	CARD8	ENSG00000105483	ENST00000517778	processed_transcript	KNOWN	None	17057	None	None	48737103	48752871	-1	None	TUCAN, KIAA0955, CARDINAL, NDPP, Dakar
19	CARD8	ENSG00000105483	ENST00000521092	retained_intron	KNOWN	None	17057	None	None	48737535	48753083	-1	None	TUCAN, KIAA0955, CARDINAL, NDPP, Dakar
19	CARD8	ENSG00000105483	ENST00000522889	protein_coding	NOVEL	None	17057	131	42	48737729	48759128	-1	None	TUCAN, KIAA0955, CARDINAL, NDPP, Dakar
19	CARD8	ENSG00000105483	ENST00000522431	protein_coding	PUTATIVE	CCDS54287	17057	213	70	48741519	48753028	-1	None	TUCAN, KIAA0955, CARDINAL, NDPP, Dakar
19	CARD8	ENSG00000105483	ENST00000519332	protein_coding	PUTATIVE	CCDS54287	17057	213	70	48741591	48759150	-1	None	TUCAN, KIAA0955, CARDINAL, NDPP, Dakar
19	CARD8	ENSG00000105483	ENST00000520007	protein_coding	PUTATIVE	CCDS54287	17057	213	70	48741593	48759155	-1	None	TUCAN, KIAA0955, CARDINAL, NDPP, Dakar
19	CARD8	ENSG00000105483	ENST00000521437	protein_coding	NOVEL	None	17057	117	38	48741732	48759154	-1	None	TUCAN, KIAA0955, CARDINAL, NDPP, Dakar
19	CARD8	ENSG00000105483	ENST00000357778	protein_coding	KNOWN	None	17057	570	189	48706889	48753085	-1	None	TUCAN, KIAA0955, CARDINAL, NDPP, Dakar
19	CARD8	ENSG00000105483	ENST00000447740	protein_coding	KNOWN	CCDS12712	17057	1464	487	48711361	48753104	-1	None	TUCAN, KIAA0955, CARDINAL, NDPP, Dakar
19	CARD8	ENSG00000105483	ENST00000391898	protein_coding	KNOWN	CCDS54289	17057	1614	537	48711361	48744320	-1	None	TUCAN, KIAA0955, CARDINAL, NDPP, Dakar
19	CARD8	ENSG00000105483	ENST00000359009	protein_coding	KNOWN	None	17057	1296	431	48711361	48752925	-1	None	TUCAN, KIAA0955, CARDINAL, NDPP, Dakar
5	None	ENSG00000250049	ENST00000507217	lincRNA	KNOWN	None	None	None	None	91378414	91815133	1	None	None
5	None	ENSG00000250049	ENST00000502934	lincRNA	KNOWN	None	None	None	None	91495354	91742351	1	None	None
6	None	ENSG00000231762	ENST00000440811	processed_pseudogene	KNOWN	None	None	None	None	77370203	77372487	1	None	None
6	HMGA1	ENSG00000137309	ENST00000347617	protein_coding	KNOWN	CCDS4788	5010	291	96	34204650	34214008	1	HMGIY	None
6	HMGA1	ENSG00000137309	ENST00000401473	protein_coding	KNOWN	CCDS4788	5010	291	96	34204650	34214008	1	HMGIY	None
6	HMGA1	ENSG00000137309	ENST00000311487	protein_coding	KNOWN	CCDS4789	5010	324	107	34204650	34214008	1	HMGIY	None
6	HMGA1	ENSG00000137309	ENST00000478214	processed_transcript	KNOWN	None	5010	None	None	34204981	34212928	1	HMGIY	None
6	HMGA1	ENSG00000137309	ENST00000395004	protein_coding	KNOWN	None	5010	987	328	34204656	34213888	1	HMGIY	None
6	HMGA1	ENSG00000137309	ENST00000447654	protein_coding	KNOWN	CCDS4789	5010	324	107	34204650	34214007	1	HMGIY	None
6	HMGA1	ENSG00000137309	ENST00000374116	protein_coding	KNOWN	CCDS4788	5010	291	96	34206568	34214007	1	HMGIY	None
6	None	ENSG00000271945	ENST00000607287	lincRNA	KNOWN	None	None	None	None	77484700	77485577	1	None	None
19	None	ENSG00000238349	ENST00000459022	snoRNA	NOVEL	None	None	None	None	11549997	11550096	1	None	None
4	ZNF141	ENSG00000131127	ENST00000366506	processed_transcript	KNOWN	None	12926	None	None	331603	366815	1	D4S90	pHZ-44
4	ZNF141	ENSG00000131127	ENST00000512994	protein_coding	PUTATIVE	None	12926	606	201	331609	377760	1	D4S90	pHZ-44
4	ZNF141	ENSG00000131127	ENST00000503699	processed_transcript	KNOWN	None	12926	None	None	331622	352339	1	D4S90	pHZ-44
4	ZNF141	ENSG00000131127	ENST00000505939	protein_coding	PUTATIVE	None	12926	342	113	331623	378653	1	D4S90	pHZ-44
4	ZNF141	ENSG00000131127	ENST00000240499	protein_coding	KNOWN	CCDS33931	12926	1425	474	331624	369047	1	D4S90	pHZ-44
4	ZNF141	ENSG00000131127	ENST00000579770	processed_transcript	KNOWN	None	12926	None	None	371828	377057	1	D4S90	pHZ-44
19	RN7SL669P	ENSG00000265149	ENST00000581926	misc_RNA	KNOWN	None	46685	None	None	11578091	11578412	1	None	None
6	RPS6P7	ENSG00000219253	ENST00000406279	processed_pseudogene	KNOWN	None	36092	None	None	78205836	78206388	1	None	None
7	ACTB	ENSG00000075624	ENST00000464611	processed_transcript	KNOWN	None	132	None	None	5566782	5567729	-1	None	None
7	ACTB	ENSG00000075624	ENST00000331789	protein_coding	KNOWN	CCDS5341	132	1128	375	5566782	5570340	-1	None	None
7	ACTB	ENSG00000075624	ENST00000425660	nonsense_mediated_decay	KNOWN	None	132	378	125	5566787	5570232	-1	None	None
7	ACTB	ENSG00000075624	ENST00000462494	retained_intron	KNOWN	None	132	None	None	5566787	5570232	-1	None	None
7	ACTB	ENSG00000075624	ENST00000493945	retained_intron	KNOWN	None	132	None	None	5567372	5569294	-1	None	None
7	ACTB	ENSG00000075624	ENST00000484841	retained_intron	KNOWN	None	132	None	None	5567742	5570233	-1	None	None
7	ACTB	ENSG00000075624	ENST00000473257	processed_transcript	KNOWN	None	132	None	None	5567781	5570235	-1	None	None
7	ACTB	ENSG00000075624	ENST00000477812	retained_intron	KNOWN	None	132	None	None	5568101	5570221	-1	None	None
7	ACTB	ENSG00000075624	ENST00000432588	protein_coding	KNOWN	None	132	491	162	5568223	5603415	-1	None	None
7	ACTB	ENSG00000075624	ENST00000480301	retained_intron	KNOWN	None	132	None	None	5568698	5570214	-1	None	None
7	ACTB	ENSG00000075624	ENST00000443528	protein_coding	KNOWN	None	132	308	101	5568847	5602459	-1	None	None
7	ACTB	ENSG00000075624	ENST00000417101	protein_coding	KNOWN	None	132	298	98	5568866	5569613	-1	None	None
7	ACTB	ENSG00000075624	ENST00000414620	protein_coding	KNOWN	None	132	242	79	5568913	5602421	-1	None	None
3	GUCA1C	ENSG00000138472	ENST00000393963	protein_coding	KNOWN	None	4680	591	196	108626639	108672609	-1	None	GCAP3
3	GUCA1C	ENSG00000138472	ENST00000261047	protein_coding	KNOWN	CCDS2954	4680	630	209	108626650	108672742	-1	None	GCAP3
3	GUCA1C	ENSG00000138472	ENST00000471108	protein_coding	NOVEL	None	4680	486	161	108634787	108672613	-1	None	GCAP3
19	RN7SL833P	ENSG00000244080	ENST00000498758	misc_RNA	KNOWN	None	46849	None	None	11626864	11627150	-1	None	None
16	DDX11L10	ENSG00000233614	ENST00000513886	processed_transcript	KNOWN	None	14125	None	None	61555	64090	1	DDX11P, DDX11L1	None
16	DDX11L10	ENSG00000233614	ENST00000430178	transcribed_unprocessed_pseudogene	KNOWN	None	14125	None	None	61861	63351	1	DDX11P, DDX11L1	None
16	DDX11L10	ENSG00000233614	ENST00000545636	unprocessed_pseudogene	KNOWN	None	14125	None	None	61553	64093	1	DDX11P, DDX11L1	None
19	MEF2BNB	ENSG00000254901	ENST00000488252	nonsense_mediated_decay	KNOWN	CCDS46025	37247	360	119	19287712	19303221	-1	None	None
19	MEF2BNB	ENSG00000254901	ENST00000591566	retained_intron	KNOWN	None	37247	None	None	19287713	19291410	-1	None	None
19	MEF2BNB	ENSG00000254901	ENST00000585679	protein_coding	PUTATIVE	None	37247	189	62	19287715	19302948	-1	None	None
19	MEF2BNB	ENSG00000254901	ENST00000462790	protein_coding	KNOWN	CCDS46025	37247	360	119	19287715	19303398	-1	None	None
19	MEF2BNB	ENSG00000254901	ENST00000588208	protein_coding	KNOWN	None	37247	210	69	19287741	19296907	-1	None	None
19	MEF2BNB	ENSG00000254901	ENST00000494489	processed_transcript	KNOWN	None	37247	None	None	19287817	19303397	-1	None	None
19	MEF2BNB	ENSG00000254901	ENST00000477565	protein_coding	KNOWN	CCDS54235	37247	330	109	19292691	19303398	-1	None	None
19	MEF2BNB	ENSG00000254901	ENST00000591398	retained_intron	KNOWN	None	37247	None	None	19293269	19297836	-1	None	None
19	MEF2BNB	ENSG00000254901	ENST00000462498	retained_intron	KNOWN	None	37247	None	None	19293432	19303400	-1	None	None
19	PPFIA3	ENSG00000177380	ENST00000334186	protein_coding	KNOWN	CCDS12758	9247	3585	1194	49622646	49654278	1	None	KIAA0654, LPNA3, MGC126567, MGC126569
19	PPFIA3	ENSG00000177380	ENST00000602655	nonsense_mediated_decay	KNOWN	None	9247	1959	652	49622921	49653536	1	None	KIAA0654, LPNA3, MGC126567, MGC126569
19	PPFIA3	ENSG00000177380	ENST00000602509	protein_coding	KNOWN	None	9247	440	145	49628608	49632202	1	None	KIAA0654, LPNA3, MGC126567, MGC126569
19	PPFIA3	ENSG00000177380	ENST00000602351	protein_coding	NOVEL	None	9247	3558	1185	49631131	49654283	1	None	KIAA0654, LPNA3, MGC126567, MGC126569
19	PPFIA3	ENSG00000177380	ENST00000602492	retained_intron	KNOWN	None	9247	None	None	49631277	49633685	1	None	KIAA0654, LPNA3, MGC126567, MGC126569
19	PPFIA3	ENSG00000177380	ENST00000602716	retained_intron	KNOWN	None	9247	None	None	49631546	49640497	1	None	KIAA0654, LPNA3, MGC126567, MGC126569
19	PPFIA3	ENSG00000177380	ENST00000421230	retained_intron	KNOWN	None	9247	None	None	49631584	49646175	1	None	KIAA0654, LPNA3, MGC126567, MGC126569
19	PPFIA3	ENSG00000177380	ENST00000602726	retained_intron	KNOWN	None	9247	None	None	49631837	49633856	1	None	KIAA0654, LPNA3, MGC126567, MGC126569
19	PPFIA3	ENSG00000177380	ENST00000602848	protein_coding	NOVEL	None	9247	834	277	49646241	49654283	1	None	KIAA0654, LPNA3, MGC126567, MGC126569
19	PPFIA3	ENSG00000177380	ENST00000602800	retained_intron	KNOWN	None	9247	None	None	49648944	49649665	1	None	KIAA0654, LPNA3, MGC126567, MGC126569
19	PPFIA3	ENSG00000177380	ENST00000602897	protein_coding	KNOWN	None	9247	732	243	49651358	49654278	1	None	KIAA0654, LPNA3, MGC126567, MGC126569
19	PPFIA3	ENSG00000177380	ENST00000602905	retained_intron	KNOWN	None	9247	None	None	49651830	49653611	1	None	KIAA0654, LPNA3, MGC126567, MGC126569
19	PPFIA3	ENSG00000177380	ENST00000602783	retained_intron	KNOWN	None	9247	None	None	49653215	49654278	1	None	KIAA0654, LPNA3, MGC126567, MGC126569
10	LINC00710	ENSG00000229240	ENST00000600516	lincRNA	KNOWN	None	27386	None	None	10969021	10988765	-1	None	None
10	LINC00710	ENSG00000229240	ENST00000428520	lincRNA	KNOWN	None	27386	None	None	10976487	10994058	-1	None	None
10	LINC00710	ENSG00000229240	ENST00000441855	retained_intron	KNOWN	None	27386	None	None	10976903	10978626	-1	None	None
10	LINC00710	ENSG00000229240	ENST00000596092	retained_intron	KNOWN	None	27386	None	None	10988010	10994143	-1	None	None
10	LINC00710	ENSG00000229240	ENST00000601050	retained_intron	KNOWN	None	27386	None	None	10988011	10993929	-1	None	None
10	LINC00710	ENSG00000229240	ENST00000450174	retained_intron	KNOWN	None	27386	None	None	10988821	10994058	-1	None	None
10	LINC00710	ENSG00000229240	ENST00000598573	retained_intron	KNOWN	None	27386	None	None	10989127	10994129	-1	None	None
19	None	ENSG00000213304	ENST00000483614	processed_pseudogene	KNOWN	None	None	None	None	11632783	11633313	1	None	None
3	APPL1	ENSG00000157500	ENST00000288266	protein_coding	KNOWN	CCDS2882	24035	2130	709	57261765	57307496	1	None	APPL
3	APPL1	ENSG00000157500	ENST00000482800	retained_intron	KNOWN	None	24035	None	None	57261817	57302049	1	None	APPL
3	APPL1	ENSG00000157500	ENST00000495803	protein_coding	NOVEL	None	24035	343	113	57261859	57276170	1	None	APPL
3	APPL1	ENSG00000157500	ENST00000468342	retained_intron	KNOWN	None	24035	None	None	57261867	57272233	1	None	APPL
3	APPL1	ENSG00000157500	ENST00000444459	protein_coding	PUTATIVE	None	24035	401	132	57261902	57276920	1	None	APPL
3	APPL1	ENSG00000157500	ENST00000464446	retained_intron	KNOWN	None	24035	None	None	57287710	57294467	1	None	APPL
3	APPL1	ENSG00000157500	ENST00000488530	retained_intron	KNOWN	None	24035	None	None	57292791	57301820	1	None	APPL
3	APPL1	ENSG00000157500	ENST00000492501	retained_intron	KNOWN	None	24035	None	None	57293821	57294462	1	None	APPL
6	None	ENSG00000252932	ENST00000517123	snoRNA	NOVEL	None	None	None	None	78646918	78646988	1	None	None
6	None	ENSG00000230309	ENST00000449463	lincRNA	KNOWN	None	None	None	None	79314184	79315753	-1	None	None
19	None	ENSG00000213303	ENST00000463278	processed_pseudogene	KNOWN	None	None	None	None	11634251	11634646	1	None	None
6	None	ENSG00000229495	ENST00000430931	lincRNA	KNOWN	None	None	None	None	79519432	79523020	-1	None	None
13	COL4A1	ENSG00000187498	ENST00000375820	protein_coding	KNOWN	CCDS9511	2202	5010	1669	110801318	110959496	-1	None	None
13	COL4A1	ENSG00000187498	ENST00000467182	processed_transcript	PUTATIVE	None	2202	None	None	110813365	110815837	-1	None	None
13	COL4A1	ENSG00000187498	ENST00000474391	processed_transcript	PUTATIVE	None	2202	None	None	110814305	110815905	-1	None	None
13	COL4A1	ENSG00000187498	ENST00000543140	protein_coding	KNOWN	None	2202	1560	519	110843090	110959478	-1	None	None
19	None	ENSG00000249840	ENST00000512278	unprocessed_pseudogene	KNOWN	None	None	None	None	11696061	11697950	1	None	None
17	SKAP1	ENSG00000141293	ENST00000336915	protein_coding	KNOWN	CCDS32674	15605	1080	359	46210802	46507552	-1	SCAP1	SKAP55
17	SKAP1	ENSG00000141293	ENST00000584709	nonsense_mediated_decay	KNOWN	None	15605	312	103	46210807	46507637	-1	SCAP1	SKAP55
17	SKAP1	ENSG00000141293	ENST00000583844	nonsense_mediated_decay	KNOWN	None	15605	99	32	46210808	46214696	-1	SCAP1	SKAP55
17	SKAP1	ENSG00000141293	ENST00000579476	retained_intron	KNOWN	None	15605	None	None	46210808	46240032	-1	SCAP1	SKAP55
17	SKAP1	ENSG00000141293	ENST00000584924	protein_coding	KNOWN	CCDS32674	15605	1080	359	46214300	46507581	-1	SCAP1	SKAP55
17	SKAP1	ENSG00000141293	ENST00000581400	nonsense_mediated_decay	KNOWN	None	15605	277	91	46214591	46423367	-1	SCAP1	SKAP55
17	SKAP1	ENSG00000141293	ENST00000579336	protein_coding	PUTATIVE	None	15605	299	98	46257454	46262541	-1	SCAP1	SKAP55
17	SKAP1	ENSG00000141293	ENST00000581419	nonsense_mediated_decay	KNOWN	None	15605	117	38	46257470	46423327	-1	SCAP1	SKAP55
10	None	ENSG00000231496	ENST00000420825	lincRNA	KNOWN	None	None	None	None	11002114	11012779	1	None	None
HSCHR6_MHC_COX	BRD2	ENSG00000234507	ENST00000438194	protein_coding	KNOWN	None	1103	2406	801	32858771	32871622	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_COX	BRD2	ENSG00000234507	ENST00000466744	processed_transcript	KNOWN	None	1103	None	None	32859369	32862252	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_COX	BRD2	ENSG00000234507	ENST00000412535	protein_coding	KNOWN	None	1103	887	294	32859430	32866731	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_COX	BRD2	ENSG00000234507	ENST00000383108	protein_coding	KNOWN	None	1103	2406	801	32860999	32871622	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_COX	BRD2	ENSG00000234507	ENST00000492172	nonsense_mediated_decay	KNOWN	None	1103	1206	401	32861041	32868310	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_COX	BRD2	ENSG00000234507	ENST00000493063	nonsense_mediated_decay	KNOWN	None	1103	444	147	32861064	32871622	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_COX	BRD2	ENSG00000234507	ENST00000442863	protein_coding	KNOWN	None	1103	2511	836	32862841	32871622	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_COX	BRD2	ENSG00000234507	ENST00000446150	protein_coding	KNOWN	None	1103	2423	806	32863195	32871622	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_COX	BRD2	ENSG00000234507	ENST00000488138	retained_intron	KNOWN	None	1103	None	None	32866255	32868327	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_COX	BRD2	ENSG00000234507	ENST00000496177	nonsense_mediated_decay	KNOWN	None	1103	413	136	32866682	32868014	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_COX	BRD2	ENSG00000234507	ENST00000495079	retained_intron	KNOWN	None	1103	None	None	32867663	32868914	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_COX	BRD2	ENSG00000234507	ENST00000474498	retained_intron	KNOWN	None	1103	None	None	32869657	32871403	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_COX	BRD2	ENSG00000234507	ENST00000480700	retained_intron	KNOWN	None	1103	None	None	32869799	32870883	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_COX	BRD2	ENSG00000234507	ENST00000547895	protein_coding	KNOWN	None	1103	2511	836	32861012	32871621	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_COX	BRD2	ENSG00000234507	ENST00000552513	protein_coding	KNOWN	None	1103	2265	754	32863195	32871425	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_COX	BRD2	ENSG00000234507	ENST00000549843	protein_coding	KNOWN	None	1103	2046	681	32861064	32871425	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
4	None	ENSG00000248669	ENST00000507042	processed_pseudogene	KNOWN	None	None	None	None	4119652	4120011	-1	None	None
19	ZNF833P	ENSG00000197332	ENST00000344893	lincRNA	KNOWN	None	33819	None	None	11750591	11797382	1	ZNF833	None
19	ZNF833P	ENSG00000197332	ENST00000542716	lincRNA	KNOWN	None	33819	None	None	11793356	11797074	1	ZNF833	None
1	AADACL4	ENSG00000204518	ENST00000376221	protein_coding	KNOWN	CCDS30590	32038	1224	407	12704566	12727097	1	None	OTTHUMG00000001889
7	None	ENSG00000227855	ENST00000414296	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	29689843	29782210	1	None	None
7	None	ENSG00000227855	ENST00000602965	processed_transcript	KNOWN	None	None	None	None	29724258	29727508	1	None	None
7	None	ENSG00000227855	ENST00000602980	processed_transcript	KNOWN	None	None	None	None	29724770	29727859	1	None	None
5	None	ENSG00000248864	ENST00000511323	lincRNA	KNOWN	None	None	None	None	91625047	91628401	1	None	None
15	GABRG3	ENSG00000182256	ENST00000333743	protein_coding	KNOWN	CCDS45195	4088	1404	467	27216429	27778373	1	None	None
15	GABRG3	ENSG00000182256	ENST00000555083	protein_coding	PUTATIVE	CCDS59251	4088	762	253	27216540	27726483	1	None	None
15	GABRG3	ENSG00000182256	ENST00000553440	retained_intron	KNOWN	None	4088	None	None	27216591	27272221	1	None	None
15	GABRG3	ENSG00000182256	ENST00000554786	processed_transcript	PUTATIVE	None	4088	None	None	27516688	27540344	1	None	None
15	GABRG3	ENSG00000182256	ENST00000554696	protein_coding	NOVEL	None	4088	774	257	27516689	27772661	1	None	None
15	GABRG3	ENSG00000182256	ENST00000557596	protein_coding	PUTATIVE	None	4088	116	37	27573964	27595542	1	None	None
15	GABRG3	ENSG00000182256	ENST00000451330	protein_coding	PUTATIVE	None	4088	509	168	27765118	27776066	1	None	None
7	None	ENSG00000198632	ENST00000515634	unprocessed_pseudogene	KNOWN	None	None	None	None	74945222	74957275	-1	None	None
7	None	ENSG00000198632	ENST00000305928	unprocessed_pseudogene	KNOWN	None	None	None	None	74945134	74954880	-1	None	None
14	FOXG1	ENSG00000176165	ENST00000382535	protein_coding	KNOWN	CCDS9636	3811	1470	489	29235050	29238870	1	FKHL2, FOXG1B, FKHL4, FKH2, FKHL1, FOXG1C, FKHL3, FOXG1A	HFK2, QIN, BF1, HFK1, HFK3, HBF-3
14	FOXG1	ENSG00000176165	ENST00000313071	protein_coding	KNOWN	CCDS9636	3811	1470	489	29236287	29238870	1	FKHL2, FOXG1B, FKHL4, FKH2, FKHL1, FOXG1C, FKHL3, FOXG1A	HFK2, QIN, BF1, HFK1, HFK3, HBF-3
16	MT1JP	ENSG00000255986	ENST00000444023	transcribed_unprocessed_pseudogene	KNOWN	None	7402	None	None	56669651	56670998	1	MT1, MT1NP, MT1J	MTB
16	MT1JP	ENSG00000255986	ENST00000563395	processed_transcript	KNOWN	None	7402	None	None	56669651	56670998	1	MT1, MT1NP, MT1J	MTB
16	MT1JP	ENSG00000255986	ENST00000564564	processed_transcript	KNOWN	None	7402	None	None	56669675	56670908	1	MT1, MT1NP, MT1J	MTB
1	C1orf220	ENSG00000213057	ENST00000367638	protein_coding	PUTATIVE	None	33805	321	106	178511887	178514635	1	None	FLJ35530
1	C1orf220	ENSG00000213057	ENST00000521244	processed_transcript	KNOWN	None	33805	None	None	178511931	178518024	1	None	FLJ35530
1	C1orf220	ENSG00000213057	ENST00000319387	protein_coding	KNOWN	None	33805	321	106	178514056	178518024	1	None	FLJ35530
1	AADACL3	ENSG00000188984	ENST00000332530	protein_coding	KNOWN	CCDS41252	32037	843	280	12776118	12788726	1	None	OTTHUMG00000001887
1	AADACL3	ENSG00000188984	ENST00000359318	protein_coding	KNOWN	CCDS41253	32037	1053	350	12776146	12785963	1	None	OTTHUMG00000001887
X	None	ENSG00000232332	ENST00000451247	processed_pseudogene	KNOWN	None	None	None	None	75249730	75250165	1	None	None
5	ITGA2	ENSG00000164171	ENST00000296585	protein_coding	KNOWN	CCDS3957	6137	3546	1181	52285156	52390609	1	CD49B	CD49b
5	ITGA2	ENSG00000164171	ENST00000503810	nonsense_mediated_decay	KNOWN	None	6137	528	175	52285170	52386664	1	CD49B	CD49b
5	ITGA2	ENSG00000164171	ENST00000513685	nonsense_mediated_decay	KNOWN	None	6137	165	54	52285270	52386476	1	CD49B	CD49b
5	ITGA2	ENSG00000164171	ENST00000509814	nonsense_mediated_decay	KNOWN	None	6137	2448	815	52285270	52386483	1	CD49B	CD49b
5	ITGA2	ENSG00000164171	ENST00000509960	nonsense_mediated_decay	KNOWN	None	6137	1926	641	52285270	52386487	1	CD49B	CD49b
5	ITGA2	ENSG00000164171	ENST00000510722	nonsense_mediated_decay	KNOWN	None	6137	2829	942	52285270	52386487	1	CD49B	CD49b
1	FNDC7	ENSG00000143107	ENST00000370017	protein_coding	KNOWN	CCDS44185	26668	2202	733	109255279	109285362	1	None	FLJ35838
1	FNDC7	ENSG00000143107	ENST00000445274	protein_coding	NOVEL	None	26668	1498	498	109265033	109284678	1	None	FLJ35838
1	FNDC7	ENSG00000143107	ENST00000271311	protein_coding	KNOWN	None	26668	2205	734	109256067	109285365	1	None	FLJ35838
20	ZSWIM3	ENSG00000132801	ENST00000255152	protein_coding	KNOWN	CCDS13381	16157	2091	696	44486256	44507761	1	C20orf164	dJ337O18.7
20	ZSWIM3	ENSG00000132801	ENST00000454862	protein_coding	KNOWN	None	16157	2073	690	44486256	44507598	1	C20orf164	dJ337O18.7
7	GHRHR	ENSG00000106128	ENST00000466427	processed_transcript	PUTATIVE	None	4266	None	None	30978284	31008494	1	None	None
7	GHRHR	ENSG00000106128	ENST00000326139	protein_coding	KNOWN	CCDS5432	4266	1272	423	31003638	31019143	1	None	None
7	GHRHR	ENSG00000106128	ENST00000409904	protein_coding	PUTATIVE	None	4266	1080	359	31009148	31019134	1	None	None
7	GHRHR	ENSG00000106128	ENST00000396227	nonsense_mediated_decay	KNOWN	None	4266	438	145	31009148	31019134	1	None	None
7	GHRHR	ENSG00000106128	ENST00000409316	protein_coding	PUTATIVE	None	4266	456	151	31009148	31019143	1	None	None
7	GHRHR	ENSG00000106128	ENST00000337750	nonsense_mediated_decay	KNOWN	None	4266	207	68	31009148	31019147	1	None	None
7	GHRHR	ENSG00000106128	ENST00000489974	retained_intron	KNOWN	None	4266	None	None	31010595	31013753	1	None	None
7	GHRHR	ENSG00000106128	ENST00000461424	processed_transcript	KNOWN	None	4266	None	None	31011584	31024831	1	None	None
7	GHRHR	ENSG00000106128	ENST00000461390	retained_intron	KNOWN	None	4266	None	None	31011646	31015592	1	None	None
7	GHRHR	ENSG00000106128	ENST00000463164	processed_transcript	PUTATIVE	None	4266	None	None	31016044	31019146	1	None	None
7	GHRHR	ENSG00000106128	ENST00000473133	processed_transcript	PUTATIVE	None	4266	None	None	31023696	31032869	1	None	None
6	CCDC167	ENSG00000198937	ENST00000373408	protein_coding	KNOWN	CCDS34441	21239	294	97	37450696	37467698	-1	C6orf129	dJ153P14.2
1	None	ENSG00000184909	ENST00000367636	protein_coding	NOVEL	None	None	405	134	178511950	178517579	1	None	None
10	None	ENSG00000272225	ENST00000415340	lincRNA	KNOWN	None	None	None	None	51253787	51262426	-1	None	None
X	TRMT2B	ENSG00000188917	ENST00000372939	protein_coding	KNOWN	CCDS55464	25748	1380	459	100264339	100307043	-1	CXorf34	FLJ12687
X	TRMT2B	ENSG00000188917	ENST00000490509	nonsense_mediated_decay	KNOWN	None	25748	1485	494	100264339	100307094	-1	CXorf34	FLJ12687
X	TRMT2B	ENSG00000188917	ENST00000372935	protein_coding	KNOWN	CCDS14477	25748	1515	504	100264531	100307059	-1	CXorf34	FLJ12687
X	TRMT2B	ENSG00000188917	ENST00000372936	protein_coding	KNOWN	CCDS14477	25748	1515	504	100264531	100307072	-1	CXorf34	FLJ12687
X	TRMT2B	ENSG00000188917	ENST00000478422	processed_transcript	KNOWN	None	25748	None	None	100278575	100307071	-1	CXorf34	FLJ12687
X	TRMT2B	ENSG00000188917	ENST00000488615	processed_transcript	KNOWN	None	25748	None	None	100290612	100292528	-1	CXorf34	FLJ12687
X	TRMT2B	ENSG00000188917	ENST00000338687	protein_coding	KNOWN	CCDS55464	25748	1380	459	100264335	100307105	-1	CXorf34	FLJ12687
X	TRMT2B	ENSG00000188917	ENST00000545398	protein_coding	KNOWN	CCDS14477	25748	1515	504	100264335	100307105	-1	CXorf34	FLJ12687
X	TRMT2B	ENSG00000188917	ENST00000372931	protein_coding	KNOWN	None	25748	1485	494	100268632	100307105	-1	CXorf34	FLJ12687
11	ME3	ENSG00000151376	ENST00000393324	protein_coding	KNOWN	CCDS8277	6985	1815	604	86152150	86383240	-1	None	None
11	ME3	ENSG00000151376	ENST00000524826	protein_coding	KNOWN	None	6985	1742	579	86152394	86383678	-1	None	None
11	ME3	ENSG00000151376	ENST00000530520	retained_intron	KNOWN	None	6985	None	None	86157935	86383007	-1	None	None
11	ME3	ENSG00000151376	ENST00000526504	nonsense_mediated_decay	KNOWN	None	6985	1029	342	86161007	86383678	-1	None	None
11	ME3	ENSG00000151376	ENST00000525957	processed_transcript	KNOWN	None	6985	None	None	86168621	86209166	-1	None	None
11	ME3	ENSG00000151376	ENST00000530335	protein_coding	KNOWN	None	6985	455	150	86267607	86383660	-1	None	None
11	ME3	ENSG00000151376	ENST00000534638	processed_transcript	PUTATIVE	None	6985	None	None	86378781	86382864	-1	None	None
11	ME3	ENSG00000151376	ENST00000532471	protein_coding	KNOWN	None	6985	239	78	86382748	86383470	-1	None	None
11	ME3	ENSG00000151376	ENST00000526834	protein_coding	KNOWN	None	6985	185	60	86382802	86383414	-1	None	None
11	ME3	ENSG00000151376	ENST00000526944	protein_coding	KNOWN	None	6985	183	60	86382804	86383655	-1	None	None
11	ME3	ENSG00000151376	ENST00000359636	protein_coding	KNOWN	CCDS8277	6985	1815	604	86152150	86383427	-1	None	None
11	ME3	ENSG00000151376	ENST00000543262	protein_coding	KNOWN	CCDS8277	6985	1815	604	86152152	86383678	-1	None	None
11	ME3	ENSG00000151376	ENST00000323418	protein_coding	KNOWN	None	6985	780	259	86175124	86270862	-1	None	None
10	RNA5SP316	ENSG00000222100	ENST00000410168	rRNA	KNOWN	None	43216	None	None	51255380	51255495	1	RN5S316	None
11	MMP3	ENSG00000149968	ENST00000299855	protein_coding	KNOWN	CCDS8323	7173	1434	477	102706532	102714534	-1	STMY1, STMY	None
11	MMP3	ENSG00000149968	ENST00000434103	protein_coding	NOVEL	None	7173	296	97	102707228	102709441	-1	STMY1, STMY	None
11	MMP3	ENSG00000149968	ENST00000524478	nonsense_mediated_decay	KNOWN	None	7173	129	42	102712983	102714338	-1	STMY1, STMY	None
4	ZNF721	ENSG00000182903	ENST00000515578	nonsense_mediated_decay	KNOWN	None	29425	186	61	419604	467840	-1	None	KIAA1982
4	ZNF721	ENSG00000182903	ENST00000506646	protein_coding	PUTATIVE	None	29425	399	132	420578	467931	-1	None	KIAA1982
4	ZNF721	ENSG00000182903	ENST00000507078	processed_transcript	KNOWN	None	29425	None	None	429559	467887	-1	None	KIAA1982
4	ZNF721	ENSG00000182903	ENST00000338977	protein_coding	KNOWN	None	29425	2736	911	433777	492891	-1	None	KIAA1982
4	ZNF721	ENSG00000182903	ENST00000511833	protein_coding	KNOWN	CCDS46991	29425	2772	923	435484	492945	-1	None	KIAA1982
4	ZNF721	ENSG00000182903	ENST00000505900	protein_coding	PUTATIVE	None	29425	480	159	437872	467956	-1	None	KIAA1982
3	PPP1R2	ENSG00000184203	ENST00000328432	protein_coding	KNOWN	CCDS3309	9288	618	205	195241221	195270209	-1	None	IPP2
3	PPP1R2	ENSG00000184203	ENST00000418939	nonsense_mediated_decay	KNOWN	None	9288	165	54	195243183	195256662	-1	None	IPP2
3	PPP1R2	ENSG00000184203	ENST00000460437	retained_intron	KNOWN	None	9288	None	None	195243474	195246436	-1	None	IPP2
3	PPP1R2	ENSG00000184203	ENST00000438848	protein_coding	NOVEL	None	9288	511	169	195243723	195270176	-1	None	IPP2
3	PPP1R2	ENSG00000184203	ENST00000413183	nonsense_mediated_decay	KNOWN	None	9288	243	80	195245958	195269981	-1	None	IPP2
3	PPP1R2	ENSG00000184203	ENST00000462906	retained_intron	KNOWN	None	9288	None	None	195255518	195270209	-1	None	IPP2
1	C1orf158	ENSG00000157330	ENST00000288048	protein_coding	KNOWN	CCDS147	28567	585	194	12806163	12823847	1	None	MGC35194
1	C1orf158	ENSG00000157330	ENST00000474179	processed_transcript	KNOWN	None	28567	None	None	12806335	12813875	1	None	MGC35194
1	C1orf158	ENSG00000157330	ENST00000376210	protein_coding	KNOWN	None	28567	471	156	12806373	12821102	1	None	MGC35194
20	ZSWIM1	ENSG00000168612	ENST00000372523	protein_coding	KNOWN	CCDS13382	16155	1458	485	44509866	44513905	1	C20orf162	dJ337O18.5
20	ZSWIM1	ENSG00000168612	ENST00000372520	protein_coding	KNOWN	CCDS13382	16155	1458	485	44509880	44513904	1	C20orf162	dJ337O18.5
10	None	ENSG00000225784	ENST00000404618	unprocessed_pseudogene	KNOWN	None	None	None	None	51287081	51371070	-1	None	None
6	KLC4	ENSG00000137171	ENST00000467906	nonsense_mediated_decay	KNOWN	None	21624	396	131	43008515	43042825	1	KNSL8	bA387M24.3
6	KLC4	ENSG00000137171	ENST00000347162	protein_coding	KNOWN	CCDS4883	21624	1860	619	43027332	43042837	1	KNSL8	bA387M24.3
6	KLC4	ENSG00000137171	ENST00000453940	protein_coding	NOVEL	None	21624	1629	542	43027369	43042646	1	KNSL8	bA387M24.3
6	KLC4	ENSG00000137171	ENST00000479632	protein_coding	PUTATIVE	None	21624	486	161	43027385	43034219	1	KNSL8	bA387M24.3
6	KLC4	ENSG00000137171	ENST00000470728	protein_coding	NOVEL	None	21624	815	270	43027390	43038093	1	KNSL8	bA387M24.3
6	KLC4	ENSG00000137171	ENST00000458460	protein_coding	PUTATIVE	CCDS47429	21624	948	315	43027391	43035135	1	KNSL8	bA387M24.3
6	KLC4	ENSG00000137171	ENST00000259708	protein_coding	KNOWN	CCDS4882	21624	1914	637	43027595	43042831	1	KNSL8	bA387M24.3
6	KLC4	ENSG00000137171	ENST00000472792	protein_coding	KNOWN	None	21624	248	81	43027621	43029321	1	KNSL8	bA387M24.3
6	KLC4	ENSG00000137171	ENST00000479388	protein_coding	KNOWN	CCDS4883	21624	1860	619	43027621	43042827	1	KNSL8	bA387M24.3
6	KLC4	ENSG00000137171	ENST00000460283	protein_coding	KNOWN	None	21624	252	83	43027625	43029325	1	KNSL8	bA387M24.3
6	KLC4	ENSG00000137171	ENST00000481499	nonsense_mediated_decay	KNOWN	None	21624	138	45	43027628	43034196	1	KNSL8	bA387M24.3
6	KLC4	ENSG00000137171	ENST00000394056	protein_coding	KNOWN	CCDS4883	21624	1860	619	43027633	43042825	1	KNSL8	bA387M24.3
6	KLC4	ENSG00000137171	ENST00000481888	protein_coding	KNOWN	None	21624	275	90	43028800	43030671	1	KNSL8	bA387M24.3
6	KLC4	ENSG00000137171	ENST00000472172	retained_intron	KNOWN	None	21624	None	None	43030266	43034094	1	KNSL8	bA387M24.3
6	KLC4	ENSG00000137171	ENST00000468114	retained_intron	KNOWN	None	21624	None	None	43033130	43034260	1	KNSL8	bA387M24.3
6	KLC4	ENSG00000137171	ENST00000469987	nonsense_mediated_decay	KNOWN	None	21624	478	158	43034818	43040701	1	KNSL8	bA387M24.3
6	KLC4	ENSG00000137171	ENST00000463063	retained_intron	KNOWN	None	21624	None	None	43038084	43039981	1	KNSL8	bA387M24.3
6	KLC4	ENSG00000137171	ENST00000463168	retained_intron	KNOWN	None	21624	None	None	43040626	43041385	1	KNSL8	bA387M24.3
6	KLC4	ENSG00000137171	ENST00000486439	retained_intron	KNOWN	None	21624	None	None	43041422	43042833	1	KNSL8	bA387M24.3
6	KLC4	ENSG00000137171	ENST00000394058	protein_coding	KNOWN	CCDS4883	21624	1860	619	43028182	43042833	1	KNSL8	bA387M24.3
10	FAM171A1	ENSG00000148468	ENST00000378116	protein_coding	KNOWN	CCDS31154	23522	2673	890	15253642	15413058	-1	C10orf38	FLJ12884
10	FAM171A1	ENSG00000148468	ENST00000477161	processed_transcript	KNOWN	None	23522	None	None	15256170	15290706	-1	C10orf38	FLJ12884
10	FAM171A1	ENSG00000148468	ENST00000455654	protein_coding	KNOWN	None	23522	595	197	15290638	15413061	-1	C10orf38	FLJ12884
10	NANOS1	ENSG00000188613	ENST00000340087	protein_coding	KNOWN	None	23044	255	84	120789938	120791045	1	None	NOS1
10	NANOS1	ENSG00000188613	ENST00000425699	protein_coding	KNOWN	CCDS7607	23044	879	292	120789228	120793854	1	None	NOS1
Y	TTTY17C	ENSG00000223641	ENST00000421387	lincRNA	KNOWN	None	31890	None	None	27329790	27330920	-1	None	NCRNA00142
10	SGMS1	ENSG00000198964	ENST00000361781	protein_coding	KNOWN	CCDS7240	29799	1242	413	52065360	52383743	-1	TMEM23	MOB, MGC17342, SMS1
10	SGMS1	ENSG00000198964	ENST00000602619	protein_coding	PUTATIVE	None	29799	107	34	52071123	52100436	-1	TMEM23	MOB, MGC17342, SMS1
10	SGMS1	ENSG00000198964	ENST00000602565	protein_coding	PUTATIVE	None	29799	39	12	52101954	52103286	-1	TMEM23	MOB, MGC17342, SMS1
10	SGMS1	ENSG00000198964	ENST00000492601	processed_transcript	KNOWN	None	29799	None	None	52103896	52178238	-1	TMEM23	MOB, MGC17342, SMS1
10	SGMS1	ENSG00000198964	ENST00000498514	processed_transcript	KNOWN	None	29799	None	None	52219701	52226692	-1	TMEM23	MOB, MGC17342, SMS1
10	SGMS1	ENSG00000198964	ENST00000429490	protein_coding	KNOWN	None	29799	735	244	52066902	52384795	-1	TMEM23	MOB, MGC17342, SMS1
10	SGMS1	ENSG00000198964	ENST00000361543	protein_coding	KNOWN	None	29799	726	241	52087038	52104006	-1	TMEM23	MOB, MGC17342, SMS1
20	SPATA25	ENSG00000149634	ENST00000372519	protein_coding	KNOWN	CCDS13383	16158	684	227	44515128	44516274	-1	C20orf165	dJ337O18.8, TSG23
Y	RBMY2YP	ENSG00000227633	ENST00000423333	unprocessed_pseudogene	KNOWN	None	23902	None	None	27412731	27419678	1	None	None
17	ADAM11	ENSG00000073670	ENST00000200557	protein_coding	KNOWN	CCDS11486	189	2310	769	42836399	42859214	1	MDC	None
17	ADAM11	ENSG00000073670	ENST00000355638	nonsense_mediated_decay	KNOWN	None	189	726	241	42836547	42859015	1	MDC	None
17	ADAM11	ENSG00000073670	ENST00000535346	protein_coding	KNOWN	None	189	1710	569	42836693	42857243	1	MDC	None
17	ADAM11	ENSG00000073670	ENST00000587773	nonsense_mediated_decay	KNOWN	None	189	1554	517	42847354	42857978	1	MDC	None
17	ADAM11	ENSG00000073670	ENST00000588363	retained_intron	KNOWN	None	189	None	None	42852926	42855170	1	MDC	None
Y	LINC00266-4P	ENSG00000228786	ENST00000427373	processed_transcript	KNOWN	None	38800	None	None	27524447	27540866	-1	NCRNA00266D, NCRNA00266-4P	NCRNA00266Y2
X	THOC2	ENSG00000125676	ENST00000448128	protein_coding	KNOWN	None	19073	569	188	122734412	122755010	-1	CXorf3	THO2, dJ506G2.1
X	THOC2	ENSG00000125676	ENST00000441692	protein_coding	NOVEL	None	19073	1166	387	122734420	122756696	-1	CXorf3	THO2, dJ506G2.1
X	THOC2	ENSG00000125676	ENST00000492203	processed_transcript	KNOWN	None	19073	None	None	122734651	122748004	-1	CXorf3	THO2, dJ506G2.1
X	THOC2	ENSG00000125676	ENST00000419633	protein_coding	PUTATIVE	None	19073	97	31	122734797	122747256	-1	CXorf3	THO2, dJ506G2.1
X	THOC2	ENSG00000125676	ENST00000497887	processed_transcript	KNOWN	None	19073	None	None	122735060	122754056	-1	CXorf3	THO2, dJ506G2.1
X	THOC2	ENSG00000125676	ENST00000432353	nonsense_mediated_decay	KNOWN	None	19073	497	164	122735951	122755430	-1	CXorf3	THO2, dJ506G2.1
X	THOC2	ENSG00000125676	ENST00000455053	protein_coding	NOVEL	None	19073	255	84	122737300	122747405	-1	CXorf3	THO2, dJ506G2.1
X	THOC2	ENSG00000125676	ENST00000416618	protein_coding	NOVEL	None	19073	543	180	122744049	122754799	-1	CXorf3	THO2, dJ506G2.1
X	THOC2	ENSG00000125676	ENST00000355725	protein_coding	KNOWN	CCDS43988	19073	4782	1593	122744049	122866906	-1	CXorf3	THO2, dJ506G2.1
X	THOC2	ENSG00000125676	ENST00000491737	protein_coding	NOVEL	None	19073	4437	1478	122744772	122831537	-1	CXorf3	THO2, dJ506G2.1
X	THOC2	ENSG00000125676	ENST00000464992	processed_transcript	KNOWN	None	19073	None	None	122745351	122754521	-1	CXorf3	THO2, dJ506G2.1
X	THOC2	ENSG00000125676	ENST00000496830	retained_intron	KNOWN	None	19073	None	None	122747381	122754029	-1	CXorf3	THO2, dJ506G2.1
X	THOC2	ENSG00000125676	ENST00000464604	retained_intron	KNOWN	None	19073	None	None	122754178	122755032	-1	CXorf3	THO2, dJ506G2.1
X	THOC2	ENSG00000125676	ENST00000464982	retained_intron	KNOWN	None	19073	None	None	122755326	122756893	-1	CXorf3	THO2, dJ506G2.1
X	THOC2	ENSG00000125676	ENST00000438358	protein_coding	NOVEL	None	19073	1137	378	122755370	122760487	-1	CXorf3	THO2, dJ506G2.1
X	THOC2	ENSG00000125676	ENST00000459945	retained_intron	KNOWN	None	19073	None	None	122755374	122757476	-1	CXorf3	THO2, dJ506G2.1
X	THOC2	ENSG00000125676	ENST00000472687	nonsense_mediated_decay	KNOWN	None	19073	363	120	122755414	122866887	-1	CXorf3	THO2, dJ506G2.1
X	THOC2	ENSG00000125676	ENST00000464161	retained_intron	KNOWN	None	19073	None	None	122757364	122758460	-1	CXorf3	THO2, dJ506G2.1
X	THOC2	ENSG00000125676	ENST00000433883	nonsense_mediated_decay	KNOWN	None	19073	363	120	122802159	122866887	-1	CXorf3	THO2, dJ506G2.1
X	THOC2	ENSG00000125676	ENST00000419789	processed_transcript	KNOWN	None	19073	None	None	122831576	122846754	-1	CXorf3	THO2, dJ506G2.1
X	THOC2	ENSG00000125676	ENST00000245838	protein_coding	KNOWN	CCDS43988	19073	4782	1593	122734413	122866904	-1	CXorf3	THO2, dJ506G2.1
12	PARPBP	ENSG00000185480	ENST00000541394	protein_coding	NOVEL	None	26074	1971	656	102513963	102590445	1	C12orf48	FLJ20641, PARI
12	PARPBP	ENSG00000185480	ENST00000543784	protein_coding	NOVEL	None	26074	552	183	102513973	102590146	1	C12orf48	FLJ20641, PARI
12	PARPBP	ENSG00000185480	ENST00000392909	nonsense_mediated_decay	KNOWN	None	26074	435	144	102513982	102545601	1	C12orf48	FLJ20641, PARI
12	PARPBP	ENSG00000185480	ENST00000537257	protein_coding	PUTATIVE	None	26074	402	133	102514023	102542785	1	C12orf48	FLJ20641, PARI
12	PARPBP	ENSG00000185480	ENST00000358383	protein_coding	KNOWN	CCDS9090	26074	1740	579	102514023	102590370	1	C12orf48	FLJ20641, PARI
12	PARPBP	ENSG00000185480	ENST00000392911	protein_coding	KNOWN	None	26074	1497	498	102514025	102590207	1	C12orf48	FLJ20641, PARI
12	PARPBP	ENSG00000185480	ENST00000541668	processed_transcript	KNOWN	None	26074	None	None	102514161	102549058	1	C12orf48	FLJ20641, PARI
12	PARPBP	ENSG00000185480	ENST00000392914	retained_intron	KNOWN	None	26074	None	None	102517664	102545790	1	C12orf48	FLJ20641, PARI
12	PARPBP	ENSG00000185480	ENST00000457614	nonsense_mediated_decay	KNOWN	None	26074	195	64	102517766	102591139	1	C12orf48	FLJ20641, PARI
12	PARPBP	ENSG00000185480	ENST00000417507	protein_coding	PUTATIVE	None	26074	810	269	102517766	102591139	1	C12orf48	FLJ20641, PARI
12	PARPBP	ENSG00000185480	ENST00000412715	protein_coding	NOVEL	None	26074	795	264	102517766	102591139	1	C12orf48	FLJ20641, PARI
12	PARPBP	ENSG00000185480	ENST00000535811	processed_transcript	KNOWN	None	26074	None	None	102517766	102591139	1	C12orf48	FLJ20641, PARI
12	PARPBP	ENSG00000185480	ENST00000378128	protein_coding	KNOWN	None	26074	894	297	102513956	102591298	1	C12orf48	FLJ20641, PARI
12	PARPBP	ENSG00000185480	ENST00000327680	protein_coding	KNOWN	None	26074	1497	498	102513956	102591298	1	C12orf48	FLJ20641, PARI
9	None	ENSG00000269408	ENST00000593613	protein_coding	NOVEL	None	None	735	244	138150512	138151275	-1	None	None
20	NEURL2	ENSG00000124257	ENST00000545238	protein_coding	PUTATIVE	None	16156	271	89	44517264	44519115	-1	C20orf163	dJ337O18.6, FLJ30259, Ozz, Ozz-E3
20	NEURL2	ENSG00000124257	ENST00000372518	protein_coding	KNOWN	CCDS13384	16156	858	285	44517273	44519926	-1	C20orf163	dJ337O18.6, FLJ30259, Ozz, Ozz-E3
Y	CICP1	ENSG00000233652	ENST00000416803	processed_pseudogene	KNOWN	None	23936	None	None	27535139	27537958	1	None	None
9	C9orf62	ENSG00000178243	ENST00000320778	protein_coding	PUTATIVE	CCDS59154	28581	459	152	138235095	138238408	1	None	MGC35463
19	RNU6-1041P	ENSG00000252063	ENST00000516254	snRNA	KNOWN	None	48004	None	None	54263341	54263442	-1	None	None
Y	LINC00265-3P	ENSG00000233944	ENST00000447588	processed_pseudogene	KNOWN	None	38536	None	None	27539301	27540203	-1	NCRNA00265C, NCRNA00265-3P	None
19	MIR516A2	ENSG00000207620	ENST00000384888	miRNA	KNOWN	None	32131	None	None	54264387	54264476	1	MIRN516-2, MIRN516A2	hsa-mir-516-2, hsa-mir-516a-2
1	PRAMEF12	ENSG00000116726	ENST00000357726	protein_coding	KNOWN	CCDS41254	22125	1452	483	12834984	12838049	1	None	OTTHUMG00000001927
20	C20orf166	ENSG00000174407	ENST00000370527	protein_coding	KNOWN	CCDS46627	16159	354	117	61147660	61167971	1	None	dJ353C17.1
20	C20orf166	ENSG00000174407	ENST00000370523	protein_coding	PUTATIVE	None	16159	300	99	61150768	61167971	1	None	dJ353C17.1
20	C20orf166	ENSG00000174407	ENST00000370524	protein_coding	KNOWN	None	16159	300	99	61147660	61167970	1	None	dJ353C17.1
10	NOC3L	ENSG00000173145	ENST00000371361	protein_coding	KNOWN	CCDS7433	24034	2403	800	96092983	96122696	-1	C10orf117	AD24, FLJ12820, FAD24
10	NOC3L	ENSG00000173145	ENST00000463649	processed_transcript	KNOWN	None	24034	None	None	96106233	96122696	-1	C10orf117	AD24, FLJ12820, FAD24
10	NOC3L	ENSG00000173145	ENST00000461562	processed_transcript	KNOWN	None	24034	None	None	96121081	96122716	-1	C10orf117	AD24, FLJ12820, FAD24
10	NOC3L	ENSG00000173145	ENST00000543788	protein_coding	KNOWN	None	24034	1506	501	96075004	96112733	-1	C10orf117	AD24, FLJ12820, FAD24
10	NOC3L	ENSG00000173145	ENST00000371350	protein_coding	KNOWN	None	24034	2403	800	96092989	96121711	-1	C10orf117	AD24, FLJ12820, FAD24
19	MIR519A2	ENSG00000269842	ENST00000597619	lincRNA	KNOWN	None	32132	None	None	54265215	54267453	1	MIRN519A-2, MIRN519A2	hsa-mir-519a-2
19	MIR519A2	ENSG00000269842	ENST00000384990	miRNA	KNOWN	None	32132	None	None	54265598	54265684	1	MIRN519A-2, MIRN519A2	hsa-mir-519a-2
3	ABHD14A-ACY1	ENSG00000114786	ENST00000486081	nonsense_mediated_decay	KNOWN	None	38856	504	167	52009066	52020675	1	None	None
3	ABHD14A-ACY1	ENSG00000114786	ENST00000463721	nonsense_mediated_decay	KNOWN	None	38856	504	167	52009066	52023199	1	None	None
3	ABHD14A-ACY1	ENSG00000114786	ENST00000497128	retained_intron	KNOWN	None	38856	None	None	52009076	52020905	1	None	None
3	ABHD14A-ACY1	ENSG00000114786	ENST00000463937	protein_coding	PUTATIVE	None	38856	1530	509	52009076	52023190	1	None	None
Y	UBE2Q2P5Y	ENSG00000223636	ENST00000413867	unprocessed_pseudogene	KNOWN	None	38466	None	None	27577303	27583462	1	UBE2Q2PY2	None
20	SIRPD	ENSG00000125900	ENST00000429387	protein_coding	PUTATIVE	None	16248	242	79	1514897	1532585	-1	PTPNS1L2	dJ576H24.4
20	SIRPD	ENSG00000125900	ENST00000381621	protein_coding	PUTATIVE	None	16248	597	198	1514897	1538351	-1	PTPNS1L2	dJ576H24.4
20	SIRPD	ENSG00000125900	ENST00000381623	protein_coding	NOVEL	CCDS13018	16248	594	197	1514897	1539489	-1	PTPNS1L2	dJ576H24.4
19	SLC1A5	ENSG00000105281	ENST00000542575	protein_coding	KNOWN	CCDS12692	10943	1626	541	47278140	47291851	-1	RDRC, M7V1	AAAT, ASCT2
19	SLC1A5	ENSG00000105281	ENST00000434726	protein_coding	KNOWN	CCDS46125	10943	1020	339	47278142	47288081	-1	RDRC, M7V1	AAAT, ASCT2
19	SLC1A5	ENSG00000105281	ENST00000594991	protein_coding	PUTATIVE	None	10943	1098	365	47278142	47288162	-1	RDRC, M7V1	AAAT, ASCT2
19	SLC1A5	ENSG00000105281	ENST00000412532	protein_coding	KNOWN	CCDS46126	10943	942	313	47278181	47290599	-1	RDRC, M7V1	AAAT, ASCT2
19	SLC1A5	ENSG00000105281	ENST00000593713	protein_coding	NOVEL	None	10943	774	257	47280468	47288043	-1	RDRC, M7V1	AAAT, ASCT2
19	SLC1A5	ENSG00000105281	ENST00000598022	protein_coding	KNOWN	None	10943	87	28	47285693	47288060	-1	RDRC, M7V1	AAAT, ASCT2
19	RNU6-165P	ENSG00000252979	ENST00000517170	snRNA	KNOWN	None	47128	None	None	54269788	54269886	-1	None	None
1	WDTC1	ENSG00000142784	ENST00000361771	protein_coding	KNOWN	CCDS296	29175	2031	676	27561159	27634735	1	None	KIAA1037, ADP, DCAF9
1	WDTC1	ENSG00000142784	ENST00000447062	nonsense_mediated_decay	KNOWN	None	29175	1848	615	27587539	27634732	1	None	KIAA1037, ADP, DCAF9
1	WDTC1	ENSG00000142784	ENST00000491239	retained_intron	KNOWN	None	29175	None	None	27614200	27635110	1	None	KIAA1037, ADP, DCAF9
1	WDTC1	ENSG00000142784	ENST00000472249	nonsense_mediated_decay	KNOWN	None	29175	378	125	27631505	27633381	1	None	KIAA1037, ADP, DCAF9
1	WDTC1	ENSG00000142784	ENST00000319394	protein_coding	KNOWN	None	29175	2034	677	27561007	27635110	1	None	KIAA1037, ADP, DCAF9
19	HMGN1P32	ENSG00000237589	ENST00000441744	processed_pseudogene	KNOWN	None	39376	None	None	54271225	54271807	-1	None	None
Y	GOLGA2P3Y	ENSG00000172297	ENST00000416946	unprocessed_pseudogene	KNOWN	None	32426	None	None	27600708	27606719	1	GOLGA2LY2, GOLGA2P3	None
Y	GOLGA2P3Y	ENSG00000172297	ENST00000306667	unprocessed_pseudogene	KNOWN	None	32426	None	None	27601458	27606322	1	GOLGA2LY2, GOLGA2P3	None
19	SEPT7P8	ENSG00000229000	ENST00000413308	processed_pseudogene	KNOWN	None	38044	None	None	54275760	54276534	-1	None	None
17	TRPV3	ENSG00000167723	ENST00000381913	nonsense_mediated_decay	KNOWN	None	18084	1019	338	3413796	3438971	-1	None	VRL3
17	TRPV3	ENSG00000167723	ENST00000577016	nonsense_mediated_decay	KNOWN	None	18084	440	145	3416484	3432282	-1	None	VRL3
17	TRPV3	ENSG00000167723	ENST00000301365	protein_coding	KNOWN	CCDS58500	18084	2376	791	3416484	3461099	-1	None	VRL3
17	TRPV3	ENSG00000167723	ENST00000571139	nonsense_mediated_decay	KNOWN	None	18084	168	55	3417115	3461061	-1	None	VRL3
17	TRPV3	ENSG00000167723	ENST00000573539	nonsense_mediated_decay	KNOWN	None	18084	168	55	3417115	3461061	-1	None	VRL3
17	TRPV3	ENSG00000167723	ENST00000576742	protein_coding	KNOWN	CCDS11029	18084	2373	790	3417140	3461289	-1	None	VRL3
17	TRPV3	ENSG00000167723	ENST00000572519	protein_coding	KNOWN	None	18084	2298	765	3417360	3461099	-1	None	VRL3
17	TRPV3	ENSG00000167723	ENST00000571005	retained_intron	KNOWN	None	18084	None	None	3430167	3433551	-1	None	VRL3
17	TRPV3	ENSG00000167723	ENST00000575865	retained_intron	KNOWN	None	18084	None	None	3430991	3433406	-1	None	VRL3
17	TRPV3	ENSG00000167723	ENST00000574773	retained_intron	KNOWN	None	18084	None	None	3455505	3461100	-1	None	VRL3
9	LAMC3	ENSG00000050555	ENST00000361069	protein_coding	KNOWN	CCDS6938	6494	4728	1575	133884469	133968446	1	None	DKFZp434E202
9	LAMC3	ENSG00000050555	ENST00000480883	processed_transcript	KNOWN	None	6494	None	None	133884561	133967496	1	None	DKFZp434E202
9	LAMC3	ENSG00000050555	ENST00000355452	protein_coding	PUTATIVE	None	6494	773	256	133954630	133969860	1	None	DKFZp434E202
9	LAMC3	ENSG00000050555	ENST00000462567	processed_transcript	KNOWN	None	6494	None	None	133961212	133967430	1	None	DKFZp434E202
4	None	ENSG00000250950	ENST00000506942	lincRNA	KNOWN	None	None	None	None	120377505	120378432	1	None	None
1	PRAMEF1	ENSG00000116721	ENST00000332296	protein_coding	KNOWN	CCDS148	28840	1425	474	12851546	12856777	1	None	None
1	PRAMEF1	ENSG00000116721	ENST00000400814	protein_coding	KNOWN	None	28840	690	229	12854840	12856634	1	None	None
8	XPO7	ENSG00000130227	ENST00000252512	protein_coding	KNOWN	CCDS47818	14108	3264	1087	21777182	21864096	1	RANBP16	KIAA0745
8	XPO7	ENSG00000130227	ENST00000521303	protein_coding	PUTATIVE	None	14108	569	188	21777268	21832216	1	RANBP16	KIAA0745
8	XPO7	ENSG00000130227	ENST00000519769	retained_intron	KNOWN	None	14108	None	None	21777271	21827407	1	RANBP16	KIAA0745
8	XPO7	ENSG00000130227	ENST00000518017	processed_transcript	KNOWN	None	14108	None	None	21778925	21834013	1	RANBP16	KIAA0745
8	XPO7	ENSG00000130227	ENST00000520754	processed_transcript	KNOWN	None	14108	None	None	21778967	21824500	1	RANBP16	KIAA0745
8	XPO7	ENSG00000130227	ENST00000433566	protein_coding	KNOWN	None	14108	3267	1088	21823749	21863796	1	RANBP16	KIAA0745
8	XPO7	ENSG00000130227	ENST00000518808	retained_intron	KNOWN	None	14108	None	None	21845859	21848122	1	RANBP16	KIAA0745
8	XPO7	ENSG00000130227	ENST00000517551	protein_coding	PUTATIVE	None	14108	712	236	21849237	21857185	1	RANBP16	KIAA0745
8	XPO7	ENSG00000130227	ENST00000522015	retained_intron	KNOWN	None	14108	None	None	21860496	21861524	1	RANBP16	KIAA0745
8	XPO7	ENSG00000130227	ENST00000434536	protein_coding	KNOWN	None	14108	3291	1096	21777180	21864095	1	RANBP16	KIAA0745
4	None	ENSG00000221245	ENST00000408318	snoRNA	NOVEL	None	None	None	None	120490854	120490980	1	None	None
7	None	ENSG00000202178	ENST00000365308	misc_RNA	NOVEL	None	None	None	None	74955146	74955247	-1	None	None
7	MIR550A3	ENSG00000212024	ENST00000390735	miRNA	KNOWN	None	41870	None	None	29720350	29720444	-1	None	hsa-mir-550a-3
12	M6PR	ENSG00000003056	ENST00000539143	protein_coding	PUTATIVE	None	6752	290	95	9092959	9096016	-1	None	None
12	M6PR	ENSG00000003056	ENST00000541507	nonsense_mediated_decay	KNOWN	None	6752	402	133	9092959	9102232	-1	None	None
12	M6PR	ENSG00000003056	ENST00000000412	protein_coding	KNOWN	CCDS8598	6752	834	277	9092961	9102551	-1	None	None
12	M6PR	ENSG00000003056	ENST00000544193	protein_coding	PUTATIVE	None	6752	255	84	9093347	9095113	-1	None	None
12	M6PR	ENSG00000003056	ENST00000543704	protein_coding	NOVEL	None	6752	447	148	9094245	9098964	-1	None	None
12	M6PR	ENSG00000003056	ENST00000537621	protein_coding	PUTATIVE	None	6752	368	121	9094775	9096482	-1	None	None
12	M6PR	ENSG00000003056	ENST00000543258	nonsense_mediated_decay	KNOWN	None	6752	313	103	9095047	9098836	-1	None	None
12	M6PR	ENSG00000003056	ENST00000543834	retained_intron	KNOWN	None	6752	None	None	9095892	9098075	-1	None	None
12	M6PR	ENSG00000003056	ENST00000544245	protein_coding	PUTATIVE	None	6752	75	24	9096421	9102331	-1	None	None
12	M6PR	ENSG00000003056	ENST00000540837	retained_intron	KNOWN	None	6752	None	None	9097833	9102206	-1	None	None
12	M6PR	ENSG00000003056	ENST00000543845	protein_coding	KNOWN	None	6752	328	108	9098029	9102241	-1	None	None
12	M6PR	ENSG00000003056	ENST00000543159	protein_coding	KNOWN	None	6752	276	91	9098081	9099444	-1	None	None
22	MTND1P13	ENSG00000232014	ENST00000421902	processed_pseudogene	KNOWN	None	42096	None	None	24347904	24349416	1	None	None
4	None	ENSG00000250772	ENST00000503266	lincRNA	KNOWN	None	None	None	None	120720244	120725670	-1	None	None
4	None	ENSG00000250772	ENST00000512219	lincRNA	KNOWN	None	None	None	None	120720251	120725655	-1	None	None
7	None	ENSG00000205505	ENST00000438562	unprocessed_pseudogene	KNOWN	None	None	None	None	74966356	74972233	1	None	None
7	None	ENSG00000205505	ENST00000380407	unprocessed_pseudogene	KNOWN	None	None	None	None	74967634	74974606	1	None	None
22	EIF4EBP1P2	ENSG00000229513	ENST00000445894	processed_pseudogene	KNOWN	None	44047	None	None	24348440	24348799	1	None	None
3	ATP2C1	ENSG00000017260	ENST00000505330	protein_coding	KNOWN	CCDS56281	13211	2712	903	130569439	130721994	1	BCPM	KIAA1347, ATP2C1A, PMR1, SPCA1
3	ATP2C1	ENSG00000017260	ENST00000504381	protein_coding	NOVEL	None	13211	2685	894	130569439	130735528	1	BCPM	KIAA1347, ATP2C1A, PMR1, SPCA1
3	ATP2C1	ENSG00000017260	ENST00000507488	protein_coding	KNOWN	CCDS56280	13211	2772	923	130569445	130735528	1	BCPM	KIAA1347, ATP2C1A, PMR1, SPCA1
3	ATP2C1	ENSG00000017260	ENST00000509150	processed_transcript	PUTATIVE	None	13211	None	None	130569627	130575067	1	BCPM	KIAA1347, ATP2C1A, PMR1, SPCA1
3	ATP2C1	ENSG00000017260	ENST00000510168	protein_coding	KNOWN	CCDS46914	13211	2760	919	130612812	130721951	1	BCPM	KIAA1347, ATP2C1A, PMR1, SPCA1
3	ATP2C1	ENSG00000017260	ENST00000508532	protein_coding	KNOWN	CCDS46914	13211	2760	919	130612835	130721994	1	BCPM	KIAA1347, ATP2C1A, PMR1, SPCA1
3	ATP2C1	ENSG00000017260	ENST00000504948	protein_coding	KNOWN	CCDS56281	13211	2712	903	130613022	130721994	1	BCPM	KIAA1347, ATP2C1A, PMR1, SPCA1
3	ATP2C1	ENSG00000017260	ENST00000513801	protein_coding	KNOWN	CCDS56280	13211	2772	923	130613022	130735556	1	BCPM	KIAA1347, ATP2C1A, PMR1, SPCA1
3	ATP2C1	ENSG00000017260	ENST00000505072	protein_coding	KNOWN	None	13211	361	119	130613026	130656308	1	BCPM	KIAA1347, ATP2C1A, PMR1, SPCA1
3	ATP2C1	ENSG00000017260	ENST00000509662	protein_coding	KNOWN	None	13211	307	101	130613226	130653538	1	BCPM	KIAA1347, ATP2C1A, PMR1, SPCA1
3	ATP2C1	ENSG00000017260	ENST00000328560	protein_coding	KNOWN	CCDS46913	13211	2667	888	130613292	130735528	1	BCPM	KIAA1347, ATP2C1A, PMR1, SPCA1
3	ATP2C1	ENSG00000017260	ENST00000428331	protein_coding	KNOWN	CCDS46914	13211	2760	919	130613379	130721994	1	BCPM	KIAA1347, ATP2C1A, PMR1, SPCA1
3	ATP2C1	ENSG00000017260	ENST00000359644	protein_coding	KNOWN	CCDS33856	13211	2850	949	130613485	130735513	1	BCPM	KIAA1347, ATP2C1A, PMR1, SPCA1
3	ATP2C1	ENSG00000017260	ENST00000422190	protein_coding	KNOWN	CCDS46912	13211	2820	939	130613485	130735528	1	BCPM	KIAA1347, ATP2C1A, PMR1, SPCA1
3	ATP2C1	ENSG00000017260	ENST00000508297	protein_coding	KNOWN	None	13211	246	81	130648842	130653525	1	BCPM	KIAA1347, ATP2C1A, PMR1, SPCA1
3	ATP2C1	ENSG00000017260	ENST00000504612	protein_coding	NOVEL	None	13211	2711	902	130650888	130735528	1	BCPM	KIAA1347, ATP2C1A, PMR1, SPCA1
3	ATP2C1	ENSG00000017260	ENST00000513636	retained_intron	KNOWN	None	13211	None	None	130672683	130678425	1	BCPM	KIAA1347, ATP2C1A, PMR1, SPCA1
3	ATP2C1	ENSG00000017260	ENST00000515854	protein_coding	NOVEL	None	13211	393	130	130674587	130686042	1	BCPM	KIAA1347, ATP2C1A, PMR1, SPCA1
3	ATP2C1	ENSG00000017260	ENST00000514654	retained_intron	KNOWN	None	13211	None	None	130681746	130721994	1	BCPM	KIAA1347, ATP2C1A, PMR1, SPCA1
3	ATP2C1	ENSG00000017260	ENST00000504571	nonsense_mediated_decay	KNOWN	None	13211	648	215	130682855	130712859	1	BCPM	KIAA1347, ATP2C1A, PMR1, SPCA1
3	ATP2C1	ENSG00000017260	ENST00000508660	protein_coding	PUTATIVE	None	13211	943	313	130686232	130716596	1	BCPM	KIAA1347, ATP2C1A, PMR1, SPCA1
3	ATP2C1	ENSG00000017260	ENST00000510774	retained_intron	KNOWN	None	13211	None	None	130699414	130715113	1	BCPM	KIAA1347, ATP2C1A, PMR1, SPCA1
3	ATP2C1	ENSG00000017260	ENST00000507194	nonsense_mediated_decay	KNOWN	None	13211	153	50	130712914	130720186	1	BCPM	KIAA1347, ATP2C1A, PMR1, SPCA1
3	ATP2C1	ENSG00000017260	ENST00000393221	protein_coding	KNOWN	CCDS56278	13211	2922	973	130569450	130735400	1	BCPM	KIAA1347, ATP2C1A, PMR1, SPCA1
3	ATP2C1	ENSG00000017260	ENST00000533801	protein_coding	KNOWN	CCDS56279	13211	2835	944	130569613	130735481	1	BCPM	KIAA1347, ATP2C1A, PMR1, SPCA1
11	PHRF1	ENSG00000070047	ENST00000534320	nonsense_mediated_decay	KNOWN	None	24351	4485	1494	576486	612043	1	RNF221	KIAA1542
11	PHRF1	ENSG00000070047	ENST00000264555	protein_coding	KNOWN	None	24351	4950	1649	576486	612222	1	RNF221	KIAA1542
11	PHRF1	ENSG00000070047	ENST00000533464	protein_coding	NOVEL	None	24351	4938	1645	576521	611964	1	RNF221	KIAA1542
11	PHRF1	ENSG00000070047	ENST00000413872	protein_coding	NOVEL	None	24351	4944	1647	576521	611964	1	RNF221	KIAA1542
11	PHRF1	ENSG00000070047	ENST00000416188	protein_coding	KNOWN	CCDS44507	24351	4947	1648	576521	611964	1	RNF221	KIAA1542
11	PHRF1	ENSG00000070047	ENST00000532550	retained_intron	KNOWN	None	24351	None	None	601657	606842	1	RNF221	KIAA1542
1	RALGPS2	ENSG00000116191	ENST00000495034	retained_intron	KNOWN	None	30279	None	None	178694300	178848923	1	None	KIAA0351, FLJ10244, FLJ25604
1	RALGPS2	ENSG00000116191	ENST00000367635	protein_coding	KNOWN	CCDS1325	30279	1752	583	178694300	178889238	1	None	KIAA0351, FLJ10244, FLJ25604
1	RALGPS2	ENSG00000116191	ENST00000324778	protein_coding	NOVEL	None	30279	1647	548	178694427	178887143	1	None	KIAA0351, FLJ10244, FLJ25604
1	RALGPS2	ENSG00000116191	ENST00000477383	processed_transcript	KNOWN	None	30279	None	None	178846675	178863126	1	None	KIAA0351, FLJ10244, FLJ25604
1	RALGPS2	ENSG00000116191	ENST00000415888	protein_coding	PUTATIVE	None	30279	298	98	178848080	178854756	1	None	KIAA0351, FLJ10244, FLJ25604
1	RALGPS2	ENSG00000116191	ENST00000480743	retained_intron	KNOWN	None	30279	None	None	178855112	178863460	1	None	KIAA0351, FLJ10244, FLJ25604
1	RALGPS2	ENSG00000116191	ENST00000367632	protein_coding	NOVEL	None	30279	438	145	178855214	178875946	1	None	KIAA0351, FLJ10244, FLJ25604
1	RALGPS2	ENSG00000116191	ENST00000478871	retained_intron	KNOWN	None	30279	None	None	178862973	178885510	1	None	KIAA0351, FLJ10244, FLJ25604
1	RALGPS2	ENSG00000116191	ENST00000367634	protein_coding	KNOWN	None	30279	1674	557	178694379	178885784	1	None	KIAA0351, FLJ10244, FLJ25604
22	None	ENSG00000224676	ENST00000448902	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	24350068	24352081	-1	None	None
22	None	ENSG00000224676	ENST00000421045	processed_transcript	KNOWN	None	None	None	None	24350175	24351822	-1	None	None
6	GAPDHP73	ENSG00000226540	ENST00000423411	processed_pseudogene	KNOWN	None	22956	None	None	135940303	135941309	-1	GAPDL19, GAPDHL19	None
12	FBXW8	ENSG00000174989	ENST00000309909	protein_coding	KNOWN	CCDS9182	13597	1797	598	117348761	117466441	1	FBXO29	FBX29, FBW6, FBW8
12	FBXW8	ENSG00000174989	ENST00000455858	protein_coding	KNOWN	CCDS44988	13597	1599	532	117348770	117468953	1	FBXO29	FBX29, FBW6, FBW8
12	FBXW8	ENSG00000174989	ENST00000551773	processed_transcript	KNOWN	None	13597	None	None	117415872	117423209	1	FBXO29	FBX29, FBW6, FBW8
7	ZNRF2P2	ENSG00000239968	ENST00000454624	processed_pseudogene	KNOWN	None	42793	None	None	29724389	29724808	-1	None	None
8	ZMAT4	ENSG00000165061	ENST00000315769	protein_coding	KNOWN	CCDS47848	25844	462	153	40388109	40755352	-1	None	FLJ13842
8	ZMAT4	ENSG00000165061	ENST00000297737	protein_coding	KNOWN	CCDS34885	25844	690	229	40388113	40755344	-1	None	FLJ13842
8	ZMAT4	ENSG00000165061	ENST00000519406	protein_coding	KNOWN	None	25844	635	210	40438723	40746064	-1	None	FLJ13842
8	ZMAT4	ENSG00000165061	ENST00000519806	retained_intron	KNOWN	None	25844	None	None	40531883	40554856	-1	None	FLJ13842
8	ZMAT4	ENSG00000165061	ENST00000518242	retained_intron	KNOWN	None	25844	None	None	40554515	40644301	-1	None	FLJ13842
8	ZMAT4	ENSG00000165061	ENST00000523188	nonsense_mediated_decay	KNOWN	None	25844	186	61	40554789	40755343	-1	None	FLJ13842
8	ZMAT4	ENSG00000165061	ENST00000523542	nonsense_mediated_decay	KNOWN	None	25844	141	46	40554793	40755329	-1	None	FLJ13842
8	ZMAT4	ENSG00000165061	ENST00000522623	nonsense_mediated_decay	KNOWN	None	25844	141	46	40625165	40755326	-1	None	FLJ13842
8	ZMAT4	ENSG00000165061	ENST00000523823	processed_transcript	KNOWN	None	25844	None	None	40666042	40742463	-1	None	FLJ13842
HSCHR6_MHC_MCF	None	ENSG00000269020	ENST00000602119	protein_coding	NOVEL	None	None	72	23	31560862	31561338	1	None	None
1	STXBP3	ENSG00000116266	ENST00000483586	retained_intron	KNOWN	None	11446	None	None	109289296	109299627	1	None	UNC-18C
1	STXBP3	ENSG00000116266	ENST00000469338	retained_intron	KNOWN	None	11446	None	None	109289304	109295823	1	None	UNC-18C
1	STXBP3	ENSG00000116266	ENST00000370008	protein_coding	KNOWN	CCDS790	11446	1779	592	109289310	109352148	1	None	UNC-18C
1	STXBP3	ENSG00000116266	ENST00000486601	processed_transcript	KNOWN	None	11446	None	None	109301679	109319045	1	None	UNC-18C
1	STXBP3	ENSG00000116266	ENST00000485167	processed_transcript	KNOWN	None	11446	None	None	109302675	109324164	1	None	UNC-18C
1	STXBP3	ENSG00000116266	ENST00000495245	retained_intron	KNOWN	None	11446	None	None	109324483	109336253	1	None	UNC-18C
1	STXBP3	ENSG00000116266	ENST00000472099	processed_transcript	KNOWN	None	11446	None	None	109338857	109350103	1	None	UNC-18C
5	STK32A	ENSG00000169302	ENST00000306304	retained_intron	KNOWN	None	28317	None	None	146614526	146755479	1	None	MGC22688, YANK1
5	STK32A	ENSG00000169302	ENST00000397936	protein_coding	KNOWN	CCDS47299	28317	1191	396	146614526	146767415	1	None	MGC22688, YANK1
5	STK32A	ENSG00000169302	ENST00000503975	retained_intron	KNOWN	None	28317	None	None	146614618	146619722	1	None	MGC22688, YANK1
5	STK32A	ENSG00000169302	ENST00000398523	protein_coding	NOVEL	None	28317	1224	407	146614688	146764241	1	None	MGC22688, YANK1
5	STK32A	ENSG00000169302	ENST00000503384	retained_intron	KNOWN	None	28317	None	None	146722036	146730715	1	None	MGC22688, YANK1
5	STK32A	ENSG00000169302	ENST00000515832	retained_intron	KNOWN	None	28317	None	None	146762461	146763512	1	None	MGC22688, YANK1
5	STK32A	ENSG00000169302	ENST00000506091	retained_intron	KNOWN	None	28317	None	None	146762893	146764306	1	None	MGC22688, YANK1
5	STK32A	ENSG00000169302	ENST00000510953	retained_intron	KNOWN	None	28317	None	None	146762912	146764009	1	None	MGC22688, YANK1
5	STK32A	ENSG00000169302	ENST00000541094	protein_coding	KNOWN	CCDS54931	28317	501	166	146614579	146728393	1	None	MGC22688, YANK1
5	STK32A	ENSG00000169302	ENST00000398521	protein_coding	KNOWN	None	28317	501	166	146614589	146722810	1	None	MGC22688, YANK1
22	None	ENSG00000184490	ENST00000511878	unprocessed_pseudogene	KNOWN	None	None	None	None	24366750	24370830	1	None	None
22	None	ENSG00000184490	ENST00000329210	unprocessed_pseudogene	KNOWN	None	None	None	None	24366752	24370882	1	None	None
HSCHR6_MHC_MCF	MCCD1	ENSG00000228662	ENST00000430073	protein_coding	KNOWN	None	20668	360	119	31572848	31574363	1	None	None
8	DCSTAMP	ENSG00000164935	ENST00000519562	processed_transcript	PUTATIVE	None	18549	None	None	105351315	105360902	1	TM7SF4	DC-STAMP, FIND
8	DCSTAMP	ENSG00000164935	ENST00000517364	processed_transcript	PUTATIVE	None	18549	None	None	105351762	105361013	1	TM7SF4	DC-STAMP, FIND
8	DCSTAMP	ENSG00000164935	ENST00000518023	processed_transcript	PUTATIVE	None	18549	None	None	105352054	105361159	1	TM7SF4	DC-STAMP, FIND
8	DCSTAMP	ENSG00000164935	ENST00000297581	protein_coding	KNOWN	CCDS6301	18549	1413	470	105352054	105368917	1	TM7SF4	DC-STAMP, FIND
8	DCSTAMP	ENSG00000164935	ENST00000517991	protein_coding	NOVEL	CCDS59111	18549	852	283	105360769	105368461	1	TM7SF4	DC-STAMP, FIND
8	DCSTAMP	ENSG00000164935	ENST00000518051	processed_transcript	PUTATIVE	None	18549	None	None	105361665	105368786	1	TM7SF4	DC-STAMP, FIND
8	DCSTAMP	ENSG00000164935	ENST00000520080	processed_transcript	PUTATIVE	None	18549	None	None	105367284	105368917	1	TM7SF4	DC-STAMP, FIND
22	CCDC116	ENSG00000161180	ENST00000425975	protein_coding	PUTATIVE	None	26688	458	151	21987007	21988498	1	None	FLJ36046
22	CCDC116	ENSG00000161180	ENST00000292779	protein_coding	KNOWN	CCDS13791	26688	1842	613	21987018	21991616	1	None	FLJ36046
6	None	ENSG00000233534	ENST00000416481	lincRNA	KNOWN	None	None	None	None	135950543	135951406	-1	None	None
20	None	ENSG00000167046	ENST00000370520	protein_coding	KNOWN	None	None	435	144	61272071	61274656	-1	None	None
12	None	ENSG00000257545	ENST00000551505	protein_coding	PUTATIVE	None	None	348	115	106889736	107168696	-1	None	None
12	None	ENSG00000257545	ENST00000549203	nonsense_mediated_decay	KNOWN	None	None	191	62	106890188	107168609	-1	None	None
Y	None	ENSG00000272042	ENST00000606439	misc_RNA	NOVEL	None	None	None	None	27605054	27605329	1	None	None
1	PRAMEF11	ENSG00000204513	ENST00000437584	protein_coding	KNOWN	None	14086	1306	434	12884805	12891264	-1	None	None
1	PRAMEF11	ENSG00000204513	ENST00000535591	protein_coding	KNOWN	CCDS53268	14086	1311	436	12884468	12891264	-1	None	None
Y	None	ENSG00000252471	ENST00000516662	miRNA	NOVEL	None	None	None	None	27606157	27606239	1	None	None
6	HMGB1P17	ENSG00000217482	ENST00000403495	processed_pseudogene	KNOWN	None	39099	None	None	135957224	135957851	-1	None	None
9	PPP1R26	ENSG00000196422	ENST00000605286	protein_coding	KNOWN	CCDS6988	29089	3630	1209	138370925	138380739	1	KIAA0649	None
9	PPP1R26	ENSG00000196422	ENST00000604351	protein_coding	KNOWN	CCDS6988	29089	3630	1209	138371509	138380739	1	KIAA0649	None
9	PPP1R26	ENSG00000196422	ENST00000356818	protein_coding	KNOWN	CCDS6988	29089	3630	1209	138371648	138380739	1	KIAA0649	None
9	PPP1R26	ENSG00000196422	ENST00000602993	processed_transcript	KNOWN	None	29089	None	None	138374528	138380459	1	KIAA0649	None
9	PPP1R26	ENSG00000196422	ENST00000401470	protein_coding	KNOWN	CCDS6988	29089	3630	1209	138375209	138380739	1	KIAA0649	None
9	PPP1R26	ENSG00000196422	ENST00000605660	protein_coding	KNOWN	CCDS6988	29089	3630	1209	138376238	138380739	1	KIAA0649	None
7	PMS2P2	ENSG00000174368	ENST00000513070	unprocessed_pseudogene	KNOWN	None	9127	None	None	74981057	74984931	-1	PMS2L2	PMS4
7	PMS2P2	ENSG00000174368	ENST00000440373	unprocessed_pseudogene	KNOWN	None	9127	None	None	74944693	74982850	-1	PMS2L2	PMS4
7	PMS2P2	ENSG00000174368	ENST00000310939	unprocessed_pseudogene	KNOWN	None	9127	None	None	74944693	74988262	-1	PMS2L2	PMS4
7	PMS2P2	ENSG00000174368	ENST00000414100	unprocessed_pseudogene	KNOWN	None	9127	None	None	74953337	74988213	-1	PMS2L2	PMS4
7	PMS2P2	ENSG00000174368	ENST00000442338	unprocessed_pseudogene	KNOWN	None	9127	None	None	74880905	74988225	-1	PMS2L2	PMS4
7	None	ENSG00000238906	ENST00000459368	snoRNA	NOVEL	None	None	None	None	29952144	29952248	1	None	None
12	IRAK4	ENSG00000198001	ENST00000440781	protein_coding	KNOWN	CCDS44862	17967	1011	336	44152747	44180778	1	None	NY-REN-64
12	IRAK4	ENSG00000198001	ENST00000550616	protein_coding	KNOWN	None	17967	268	88	44152753	44165129	1	None	NY-REN-64
12	IRAK4	ENSG00000198001	ENST00000550615	nonsense_mediated_decay	KNOWN	None	17967	183	60	44152753	44180553	1	None	NY-REN-64
12	IRAK4	ENSG00000198001	ENST00000547521	nonsense_mediated_decay	KNOWN	None	17967	183	60	44152754	44180217	1	None	NY-REN-64
12	IRAK4	ENSG00000198001	ENST00000448290	protein_coding	KNOWN	CCDS8744	17967	1383	460	44152758	44181899	1	None	NY-REN-64
12	IRAK4	ENSG00000198001	ENST00000551736	protein_coding	KNOWN	CCDS8744	17967	1383	460	44152764	44180706	1	None	NY-REN-64
12	IRAK4	ENSG00000198001	ENST00000550386	nonsense_mediated_decay	KNOWN	None	17967	165	54	44152764	44180706	1	None	NY-REN-64
12	IRAK4	ENSG00000198001	ENST00000547101	nonsense_mediated_decay	KNOWN	None	17967	165	54	44152764	44180706	1	None	NY-REN-64
12	IRAK4	ENSG00000198001	ENST00000546780	retained_intron	KNOWN	None	17967	None	None	44152770	44162395	1	None	NY-REN-64
12	IRAK4	ENSG00000198001	ENST00000552309	nonsense_mediated_decay	KNOWN	None	17967	183	60	44152770	44176293	1	None	NY-REN-64
12	IRAK4	ENSG00000198001	ENST00000550361	nonsense_mediated_decay	KNOWN	None	17967	183	60	44152839	44166759	1	None	NY-REN-64
12	IRAK4	ENSG00000198001	ENST00000547928	retained_intron	KNOWN	None	17967	None	None	44167598	44176275	1	None	NY-REN-64
12	IRAK4	ENSG00000198001	ENST00000431837	protein_coding	KNOWN	CCDS44862	17967	1011	336	44152747	44183346	1	None	NY-REN-64
Y	CSPG4P4Y	ENSG00000172294	ENST00000333235	unprocessed_pseudogene	KNOWN	None	38535	None	None	27624416	27629777	1	CSPG4P4, CSPG4P7Y	None
Y	CSPG4P4Y	ENSG00000172294	ENST00000539489	unprocessed_pseudogene	KNOWN	None	38535	None	None	27629055	27632852	1	CSPG4P4, CSPG4P7Y	None
21	RIPK4	ENSG00000183421	ENST00000332512	protein_coding	KNOWN	CCDS13675	496	2355	784	43159529	43187266	-1	ANKRD3	DIK, ANKK2, RIP4, PKK
21	RIPK4	ENSG00000183421	ENST00000352483	protein_coding	KNOWN	None	496	2499	832	43159545	43187266	-1	ANKRD3	DIK, ANKK2, RIP4, PKK
21	RIPK4	ENSG00000183421	ENST00000544709	protein_coding	KNOWN	None	496	2166	721	43160763	43186352	-1	ANKRD3	DIK, ANKK2, RIP4, PKK
21	RIPK4	ENSG00000183421	ENST00000542057	protein_coding	KNOWN	None	496	2166	721	43160763	43186118	-1	ANKRD3	DIK, ANKK2, RIP4, PKK
1	HNRNPCL1	ENSG00000179172	ENST00000317869	protein_coding	KNOWN	CCDS30591	29295	882	293	12907261	12908578	-1	HNRPCL1	None
5	HK3	ENSG00000160883	ENST00000506834	retained_intron	KNOWN	None	4925	None	None	176307870	176315648	-1	None	None
5	HK3	ENSG00000160883	ENST00000292432	protein_coding	KNOWN	CCDS4407	4925	2772	923	176307872	176326333	-1	None	None
5	HK3	ENSG00000160883	ENST00000514666	retained_intron	KNOWN	None	4925	None	None	176308303	176308873	-1	None	None
5	HK3	ENSG00000160883	ENST00000514058	protein_coding	NOVEL	None	4925	395	130	176308957	176311135	-1	None	None
5	HK3	ENSG00000160883	ENST00000509717	nonsense_mediated_decay	KNOWN	None	4925	321	106	176314067	176318539	-1	None	None
5	HK3	ENSG00000160883	ENST00000504910	nonsense_mediated_decay	KNOWN	None	4925	174	57	176316662	176318392	-1	None	None
20	None	ENSG00000260861	ENST00000566961	protein_coding	PUTATIVE	None	None	422	139	1520790	1592209	-1	None	None
20	None	ENSG00000260861	ENST00000567028	protein_coding	PUTATIVE	None	None	531	176	1532584	1569315	-1	None	None
20	None	ENSG00000260861	ENST00000564763	protein_coding	PUTATIVE	None	None	519	172	1532606	1600655	-1	None	None
2	ZRANB3	ENSG00000121988	ENST00000412849	processed_transcript	KNOWN	None	25249	None	None	135894486	135996431	-1	None	DKFZP434B1727
2	ZRANB3	ENSG00000121988	ENST00000401392	protein_coding	NOVEL	None	25249	3234	1077	135954539	136288301	-1	None	DKFZP434B1727
2	ZRANB3	ENSG00000121988	ENST00000264159	protein_coding	KNOWN	CCDS46419	25249	3240	1079	135957223	136288806	-1	None	DKFZP434B1727
2	ZRANB3	ENSG00000121988	ENST00000403017	nonsense_mediated_decay	KNOWN	None	25249	1287	428	135957233	136288182	-1	None	DKFZP434B1727
2	ZRANB3	ENSG00000121988	ENST00000474919	retained_intron	KNOWN	None	25249	None	None	135960008	135965088	-1	None	DKFZP434B1727
2	ZRANB3	ENSG00000121988	ENST00000495945	retained_intron	KNOWN	None	25249	None	None	135982020	135985882	-1	None	DKFZP434B1727
2	ZRANB3	ENSG00000121988	ENST00000452187	processed_transcript	KNOWN	None	25249	None	None	136026637	136288769	-1	None	DKFZP434B1727
2	ZRANB3	ENSG00000121988	ENST00000472452	processed_transcript	KNOWN	None	25249	None	None	136102706	136111198	-1	None	DKFZP434B1727
2	ZRANB3	ENSG00000121988	ENST00000492193	retained_intron	KNOWN	None	25249	None	None	136110891	136288146	-1	None	DKFZP434B1727
2	ZRANB3	ENSG00000121988	ENST00000536680	protein_coding	KNOWN	None	25249	3234	1077	135957576	136288806	-1	None	DKFZP434B1727
7	None	ENSG00000227014	ENST00000422239	antisense	KNOWN	None	None	None	None	30028216	30065216	1	None	None
7	None	ENSG00000227014	ENST00000419103	antisense	KNOWN	None	None	None	None	30028216	30065276	1	None	None
HSCHR6_MHC_QBL	C6orf48	ENSG00000206380	ENST00000414536	protein_coding	KNOWN	None	19078	228	75	31792647	31797796	1	None	D6S57, G8
HSCHR6_MHC_QBL	C6orf48	ENSG00000206380	ENST00000400038	protein_coding	KNOWN	None	19078	228	75	31792666	31797796	1	None	D6S57, G8
HSCHR6_MHC_QBL	C6orf48	ENSG00000206380	ENST00000383384	protein_coding	KNOWN	None	19078	228	75	31792947	31797796	1	None	D6S57, G8
HSCHR6_MHC_QBL	C6orf48	ENSG00000206380	ENST00000383385	protein_coding	KNOWN	None	19078	228	75	31792947	31797796	1	None	D6S57, G8
HSCHR6_MHC_QBL	C6orf48	ENSG00000206380	ENST00000383383	protein_coding	KNOWN	None	19078	228	75	31792947	31797796	1	None	D6S57, G8
HSCHR6_MHC_QBL	C6orf48	ENSG00000206380	ENST00000400037	protein_coding	KNOWN	None	19078	228	75	31792957	31797796	1	None	D6S57, G8
HSCHR6_MHC_QBL	C6orf48	ENSG00000206380	ENST00000400035	protein_coding	KNOWN	None	19078	228	75	31792971	31797796	1	None	D6S57, G8
HSCHR6_MHC_QBL	C6orf48	ENSG00000206380	ENST00000400034	protein_coding	KNOWN	None	19078	228	75	31793324	31797796	1	None	D6S57, G8
HSCHR6_MHC_QBL	C6orf48	ENSG00000206380	ENST00000400039	protein_coding	KNOWN	None	19078	228	75	31794879	31797799	1	None	D6S57, G8
HSCHR6_MHC_QBL	C6orf48	ENSG00000206380	ENST00000547624	protein_coding	KNOWN	None	19078	378	125	31792955	31797792	1	None	D6S57, G8
HSCHR6_MHC_QBL	C6orf48	ENSG00000206380	ENST00000550685	protein_coding	KNOWN	None	19078	297	98	31792955	31797792	1	None	D6S57, G8
1	PRAMEF2	ENSG00000120952	ENST00000240189	protein_coding	KNOWN	CCDS149	28841	1425	474	12916941	12921764	1	None	FLJ43580
22	SDF2L1	ENSG00000128228	ENST00000248958	protein_coding	KNOWN	CCDS13792	10676	666	221	21996550	21998587	1	None	AP000553.C22.4, OTTHUMT00000075032
22	SDF2L1	ENSG00000128228	ENST00000466935	retained_intron	KNOWN	None	10676	None	None	21996643	21997581	1	None	AP000553.C22.4, OTTHUMT00000075032
9	None	ENSG00000213556	ENST00000451069	processed_pseudogene	KNOWN	None	None	None	None	111598613	111598877	1	None	None
9	RNA5-8SP3	ENSG00000201227	ENST00000364357	rRNA	KNOWN	None	41957	None	None	111754689	111754849	-1	RN5-8S3	None
8	ZNF251	ENSG00000198169	ENST00000524394	processed_transcript	KNOWN	None	13045	None	None	145946298	145980871	-1	None	None
8	ZNF251	ENSG00000198169	ENST00000292562	protein_coding	KNOWN	CCDS47944	13045	2016	671	145946514	145980990	-1	None	None
8	ZNF251	ENSG00000198169	ENST00000525191	protein_coding	PUTATIVE	None	13045	442	146	145978841	145980826	-1	None	None
8	ZNF251	ENSG00000198169	ENST00000530353	retained_intron	KNOWN	None	13045	None	None	145979066	145981802	-1	None	None
19	CYP2F1	ENSG00000197446	ENST00000526093	retained_intron	KNOWN	None	2632	None	None	41620337	41629255	1	CYP2F	None
19	CYP2F1	ENSG00000197446	ENST00000531409	retained_intron	KNOWN	None	2632	None	None	41620337	41631722	1	CYP2F	None
19	CYP2F1	ENSG00000197446	ENST00000331105	protein_coding	KNOWN	CCDS12572	2632	1476	491	41620337	41634159	1	CYP2F	None
19	CYP2F1	ENSG00000197446	ENST00000532164	nonsense_mediated_decay	KNOWN	None	2632	963	320	41620337	41634159	1	CYP2F	None
19	CYP2F1	ENSG00000197446	ENST00000534009	non_stop_decay	KNOWN	None	2632	516	171	41630623	41631724	1	CYP2F	None
19	CYP2F1	ENSG00000197446	ENST00000439903	protein_coding	PUTATIVE	None	2632	244	80	41630760	41634271	1	CYP2F	None
2	None	ENSG00000224361	ENST00000430988	protein_coding	PUTATIVE	None	None	331	109	23729913	23747214	-1	None	None
9	C9orf116	ENSG00000160345	ENST00000429260	protein_coding	KNOWN	CCDS43899	28435	411	136	138387027	138391718	-1	None	MGC29761, RbEST47, PIERCE1
9	C9orf116	ENSG00000160345	ENST00000371789	protein_coding	KNOWN	CCDS6989	28435	279	92	138387027	138392364	-1	None	MGC29761, RbEST47, PIERCE1
9	C9orf116	ENSG00000160345	ENST00000371791	protein_coding	KNOWN	CCDS6989	28435	279	92	138387027	138393580	-1	None	MGC29761, RbEST47, PIERCE1
9	C9orf116	ENSG00000160345	ENST00000371786	retained_intron	KNOWN	None	28435	None	None	138387287	138390867	-1	None	MGC29761, RbEST47, PIERCE1
9	C9orf116	ENSG00000160345	ENST00000419770	protein_coding	PUTATIVE	None	28435	212	69	138387298	138391364	-1	None	MGC29761, RbEST47, PIERCE1
19	None	ENSG00000238150	ENST00000423096	processed_pseudogene	KNOWN	None	None	None	None	54278853	54279136	1	None	None
1	PRAMEF4	ENSG00000243073	ENST00000235349	protein_coding	KNOWN	CCDS30592	31971	1437	478	12939045	12946025	-1	None	RP5-845O24.6
14	C14orf23	ENSG00000186960	ENST00000399387	protein_coding	KNOWN	None	19828	504	167	29241910	29262434	1	None	None
14	C14orf23	ENSG00000186960	ENST00000552957	protein_coding	PUTATIVE	None	19828	294	97	29241991	29247766	1	None	None
14	C14orf23	ENSG00000186960	ENST00000548213	protein_coding	PUTATIVE	None	19828	228	75	29242001	29282493	1	None	None
14	C14orf23	ENSG00000186960	ENST00000550266	processed_transcript	PUTATIVE	None	19828	None	None	29255077	29262009	1	None	None
6	None	ENSG00000241287	ENST00000443574	processed_transcript	KNOWN	None	None	None	None	32627663	32630227	-1	None	None
20	SLCO4A1	ENSG00000101187	ENST00000497209	nonsense_mediated_decay	KNOWN	None	10953	1863	620	61273872	61303645	1	SLC21A12	OATP-E, OATP4A1
20	SLCO4A1	ENSG00000101187	ENST00000370507	protein_coding	KNOWN	CCDS13501	10953	2169	722	61287711	61303645	1	SLC21A12	OATP-E, OATP4A1
20	SLCO4A1	ENSG00000101187	ENST00000470412	processed_transcript	KNOWN	None	10953	None	None	61297767	61301574	1	SLC21A12	OATP-E, OATP4A1
20	SLCO4A1	ENSG00000101187	ENST00000495889	processed_transcript	KNOWN	None	10953	None	None	61298830	61303959	1	SLC21A12	OATP-E, OATP4A1
20	SLCO4A1	ENSG00000101187	ENST00000466961	processed_transcript	KNOWN	None	10953	None	None	61299093	61303506	1	SLC21A12	OATP-E, OATP4A1
20	SLCO4A1	ENSG00000101187	ENST00000451793	protein_coding	KNOWN	None	10953	456	151	61299165	61303645	1	SLC21A12	OATP-E, OATP4A1
20	SLCO4A1	ENSG00000101187	ENST00000497919	processed_transcript	KNOWN	None	10953	None	None	61299771	61301470	1	SLC21A12	OATP-E, OATP4A1
20	SLCO4A1	ENSG00000101187	ENST00000466818	processed_transcript	KNOWN	None	10953	None	None	61299832	61317137	1	SLC21A12	OATP-E, OATP4A1
20	SLCO4A1	ENSG00000101187	ENST00000217159	protein_coding	KNOWN	CCDS13501	10953	2169	722	61273797	61303647	1	SLC21A12	OATP-E, OATP4A1
11	NAALADL1	ENSG00000168060	ENST00000533753	protein_coding	PUTATIVE	None	23536	297	98	64812290	64813736	-1	None	None
11	NAALADL1	ENSG00000168060	ENST00000532450	nonsense_mediated_decay	KNOWN	None	23536	147	48	64812290	64815204	-1	None	None
11	NAALADL1	ENSG00000168060	ENST00000358658	protein_coding	KNOWN	CCDS31604	23536	2223	740	64812295	64826021	-1	None	None
11	NAALADL1	ENSG00000168060	ENST00000526799	protein_coding	PUTATIVE	None	23536	264	87	64812698	64815905	-1	None	None
11	NAALADL1	ENSG00000168060	ENST00000529274	retained_intron	KNOWN	None	23536	None	None	64812708	64826014	-1	None	None
11	NAALADL1	ENSG00000168060	ENST00000528977	retained_intron	KNOWN	None	23536	None	None	64812708	64826014	-1	None	None
11	NAALADL1	ENSG00000168060	ENST00000340252	protein_coding	PUTATIVE	None	23536	2376	791	64812743	64825993	-1	None	None
11	NAALADL1	ENSG00000168060	ENST00000355721	protein_coding	PUTATIVE	None	23536	2100	699	64812743	64825993	-1	None	None
11	NAALADL1	ENSG00000168060	ENST00000356632	protein_coding	PUTATIVE	None	23536	2118	705	64812743	64825993	-1	None	None
11	NAALADL1	ENSG00000168060	ENST00000526516	protein_coding	PUTATIVE	None	23536	231	76	64812776	64815409	-1	None	None
11	NAALADL1	ENSG00000168060	ENST00000532802	protein_coding	PUTATIVE	None	23536	222	73	64812785	64815358	-1	None	None
11	NAALADL1	ENSG00000168060	ENST00000530995	protein_coding	PUTATIVE	None	23536	184	60	64812823	64815945	-1	None	None
11	NAALADL1	ENSG00000168060	ENST00000533842	protein_coding	PUTATIVE	None	23536	105	34	64812902	64815333	-1	None	None
11	NAALADL1	ENSG00000168060	ENST00000534568	retained_intron	KNOWN	None	23536	None	None	64812920	64813843	-1	None	None
11	NAALADL1	ENSG00000168060	ENST00000533340	protein_coding	PUTATIVE	None	23536	81	26	64812926	64815955	-1	None	None
11	NAALADL1	ENSG00000168060	ENST00000531746	retained_intron	KNOWN	None	23536	None	None	64812946	64815328	-1	None	None
11	NAALADL1	ENSG00000168060	ENST00000528884	protein_coding	PUTATIVE	None	23536	81	26	64812990	64815929	-1	None	None
11	NAALADL1	ENSG00000168060	ENST00000531174	retained_intron	KNOWN	None	23536	None	None	64813471	64815359	-1	None	None
11	NAALADL1	ENSG00000168060	ENST00000529685	retained_intron	KNOWN	None	23536	None	None	64813529	64815599	-1	None	None
11	NAALADL1	ENSG00000168060	ENST00000530139	protein_coding	PUTATIVE	None	23536	212	69	64813732	64815405	-1	None	None
11	NAALADL1	ENSG00000168060	ENST00000524445	retained_intron	KNOWN	None	23536	None	None	64813854	64815940	-1	None	None
11	NAALADL1	ENSG00000168060	ENST00000532432	retained_intron	KNOWN	None	23536	None	None	64815363	64815929	-1	None	None
11	NAALADL1	ENSG00000168060	ENST00000355369	protein_coding	KNOWN	None	23536	1569	522	64812297	64826009	-1	None	None
11	NAALADL1	ENSG00000168060	ENST00000339885	protein_coding	KNOWN	None	23536	1635	544	64812297	64826009	-1	None	None
19	MIR371B	ENSG00000269877	ENST00000595160	lincRNA	KNOWN	None	41863	None	None	54290851	54291423	-1	None	hsa-mir-371b
5	None	ENSG00000249721	ENST00000514578	processed_pseudogene	KNOWN	None	None	None	None	66988640	66989028	-1	None	None
17	KRTAP2-3	ENSG00000212724	ENST00000391418	protein_coding	KNOWN	CCDS54123	18906	387	128	39215495	39216344	-1	None	KAP2.3
19	MIR371A	ENSG00000199031	ENST00000362161	miRNA	KNOWN	None	31785	None	None	54290929	54290995	1	MIRN371, MIR371	hsa-mir-371
5	None	ENSG00000250421	ENST00000510621	lincRNA	KNOWN	None	None	None	None	66995257	67198428	-1	None	None
5	None	ENSG00000250421	ENST00000506819	lincRNA	KNOWN	None	None	None	None	66995279	67114150	-1	None	None
7	None	ENSG00000231519	ENST00000433088	antisense	KNOWN	None	None	None	None	30109274	30114731	-1	None	None
19	MIR372	ENSG00000199095	ENST00000362225	miRNA	KNOWN	None	31786	None	None	54291144	54291210	1	MIRN372	hsa-mir-372
6	MTCO3P1	ENSG00000235040	ENST00000422088	unprocessed_pseudogene	KNOWN	None	31342	None	None	32673901	32674732	-1	None	U92032.1
19	MIR373	ENSG00000199143	ENST00000362273	miRNA	KNOWN	None	31787	None	None	54291959	54292027	1	MIRN373	hsa-mir-373
19	None	ENSG00000269564	ENST00000597420	lincRNA	KNOWN	None	None	None	None	54292036	54292422	1	None	None
12	ENDOU	ENSG00000111405	ENST00000229003	protein_coding	KNOWN	CCDS8754	14369	1110	369	48103517	48119350	-1	None	PP11, P11, PRSS26
12	ENDOU	ENSG00000111405	ENST00000422538	protein_coding	NOVEL	CCDS53785	14369	1233	410	48103528	48119319	-1	None	PP11, P11, PRSS26
12	ENDOU	ENSG00000111405	ENST00000545824	protein_coding	NOVEL	CCDS53784	14369	1044	347	48104237	48119317	-1	None	PP11, P11, PRSS26
12	ENDOU	ENSG00000111405	ENST00000551186	retained_intron	KNOWN	None	14369	None	None	48110162	48111662	-1	None	PP11, P11, PRSS26
12	ENDOU	ENSG00000111405	ENST00000542202	protein_coding	KNOWN	None	14369	456	151	48104231	48111432	-1	None	PP11, P11, PRSS26
6	None	ENSG00000232080	ENST00000448198	lincRNA	KNOWN	None	None	None	None	32685782	32686604	1	None	None
6	None	ENSG00000232080	ENST00000585372	lincRNA	KNOWN	None	None	None	None	32685806	32686604	1	None	None
6	None	ENSG00000232080	ENST00000458375	lincRNA	KNOWN	None	None	None	None	32686162	32686612	1	None	None
15	C15orf27	ENSG00000169758	ENST00000388942	protein_coding	KNOWN	CCDS10289	26763	1596	531	76352178	76497304	1	None	FLJ38190
15	C15orf27	ENSG00000169758	ENST00000484722	nonsense_mediated_decay	KNOWN	None	26763	306	101	76352299	76497303	1	None	FLJ38190
15	C15orf27	ENSG00000169758	ENST00000559079	processed_transcript	KNOWN	None	26763	None	None	76352326	76406544	1	None	FLJ38190
15	C15orf27	ENSG00000169758	ENST00000561302	nonsense_mediated_decay	KNOWN	None	26763	366	121	76352326	76521462	1	None	FLJ38190
15	C15orf27	ENSG00000169758	ENST00000558249	retained_intron	KNOWN	None	26763	None	None	76483810	76497303	1	None	FLJ38190
7	FGL2	ENSG00000127951	ENST00000248598	protein_coding	KNOWN	CCDS5591	3696	1320	439	76822688	76829143	-1	None	pT49, T49
19	None	ENSG00000228323	ENST00000455835	antisense	KNOWN	None	None	None	None	54357835	54372361	-1	None	None
3	ZNF621	ENSG00000172888	ENST00000403205	protein_coding	KNOWN	CCDS2693	24787	1320	439	40566369	40575017	1	None	FLJ45246
3	ZNF621	ENSG00000172888	ENST00000339296	protein_coding	KNOWN	CCDS2693	24787	1320	439	40566376	40579187	1	None	FLJ45246
3	ZNF621	ENSG00000172888	ENST00000431278	protein_coding	NOVEL	None	24787	987	328	40566389	40575562	1	None	FLJ45246
3	ZNF621	ENSG00000172888	ENST00000490457	processed_transcript	KNOWN	None	24787	None	None	40566474	40616176	1	None	FLJ45246
3	ZNF621	ENSG00000172888	ENST00000462161	processed_transcript	KNOWN	None	24787	None	None	40566497	40573748	1	None	FLJ45246
3	ZNF621	ENSG00000172888	ENST00000453351	protein_coding	KNOWN	None	24787	458	151	40566907	40573719	1	None	FLJ45246
3	ZNF621	ENSG00000172888	ENST00000492098	retained_intron	KNOWN	None	24787	None	None	40570779	40574352	1	None	FLJ45246
3	ZNF621	ENSG00000172888	ENST00000310898	protein_coding	KNOWN	None	24787	474	157	40566369	40579814	1	None	FLJ45246
1	PRAMEF10	ENSG00000187545	ENST00000235347	protein_coding	KNOWN	CCDS41255	27997	1425	474	12952727	12958101	-1	None	None
19	None	ENSG00000232324	ENST00000422045	lincRNA	KNOWN	None	None	None	None	54368017	54369394	1	None	None
19	None	ENSG00000267500	ENST00000431363	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	11759179	11763692	1	None	None
17	KRTAP2-4	ENSG00000213417	ENST00000394015	protein_coding	KNOWN	CCDS32648	18891	387	128	39221369	39222131	-1	None	KAP2.4
6	None	ENSG00000251969	ENST00000516160	miRNA	NOVEL	None	None	None	None	79671213	79671289	-1	None	None
X	None	ENSG00000237252	ENST00000423224	processed_pseudogene	KNOWN	None	None	None	None	75443036	75443496	1	None	None
6	None	ENSG00000217512	ENST00000406574	processed_pseudogene	KNOWN	None	None	None	None	79777409	79777855	-1	None	None
7	None	ENSG00000230751	ENST00000415934	sense_intronic	KNOWN	None	None	None	None	30180486	30181033	1	None	None
6	None	ENSG00000270362	ENST00000604516	antisense	KNOWN	None	None	None	None	79943435	79946514	1	None	None
17	KRTAP4-7	ENSG00000240871	ENST00000391417	protein_coding	KNOWN	CCDS45673	18898	468	155	39240459	39241396	1	None	KAP4.7
19	HNRNPA1P10	ENSG00000214223	ENST00000444945	processed_pseudogene	KNOWN	None	39128	None	None	11776884	11777845	-1	None	None
19	HNRNPA1P10	ENSG00000214223	ENST00000406078	pseudogene	KNOWN	None	39128	None	None	11776884	11777845	-1	None	None
1	TMEM222	ENSG00000186501	ENST00000374076	protein_coding	KNOWN	CCDS297	25363	627	208	27648651	27662891	1	C1orf160	DKFZP564D0478
1	TMEM222	ENSG00000186501	ENST00000464720	nonsense_mediated_decay	KNOWN	None	25363	269	88	27648738	27662891	1	C1orf160	DKFZP564D0478
1	TMEM222	ENSG00000186501	ENST00000466759	protein_coding	PUTATIVE	None	25363	286	94	27648745	27659050	1	C1orf160	DKFZP564D0478
1	TMEM222	ENSG00000186501	ENST00000486082	nonsense_mediated_decay	KNOWN	None	25363	262	86	27648745	27662139	1	C1orf160	DKFZP564D0478
1	TMEM222	ENSG00000186501	ENST00000464813	protein_coding	PUTATIVE	None	25363	460	152	27648772	27661387	1	C1orf160	DKFZP564D0478
1	TMEM222	ENSG00000186501	ENST00000478104	nonsense_mediated_decay	KNOWN	None	25363	477	158	27648776	27662315	1	C1orf160	DKFZP564D0478
1	TMEM222	ENSG00000186501	ENST00000498220	protein_coding	NOVEL	None	25363	600	199	27648791	27662036	1	C1orf160	DKFZP564D0478
1	TMEM222	ENSG00000186501	ENST00000471456	retained_intron	KNOWN	None	25363	None	None	27658837	27662890	1	C1orf160	DKFZP564D0478
1	TMEM222	ENSG00000186501	ENST00000470223	retained_intron	KNOWN	None	25363	None	None	27659954	27662890	1	C1orf160	DKFZP564D0478
20	CTSA	ENSG00000064601	ENST00000606788	nonsense_mediated_decay	KNOWN	None	9251	696	231	44518783	44527459	1	GSL, PPGB	None
20	CTSA	ENSG00000064601	ENST00000372484	protein_coding	KNOWN	CCDS13385	9251	1497	498	44519683	44527459	1	GSL, PPGB	None
20	CTSA	ENSG00000064601	ENST00000606394	nonsense_mediated_decay	KNOWN	None	9251	249	82	44519952	44521938	1	GSL, PPGB	None
20	CTSA	ENSG00000064601	ENST00000354880	protein_coding	KNOWN	CCDS54467	9251	1446	481	44519961	44527459	1	GSL, PPGB	None
20	CTSA	ENSG00000064601	ENST00000607841	retained_intron	KNOWN	None	9251	None	None	44519974	44520886	1	GSL, PPGB	None
20	CTSA	ENSG00000064601	ENST00000606066	retained_intron	KNOWN	None	9251	None	None	44519974	44521403	1	GSL, PPGB	None
20	CTSA	ENSG00000064601	ENST00000191018	protein_coding	KNOWN	CCDS46609	9251	1443	480	44519980	44527459	1	GSL, PPGB	None
20	CTSA	ENSG00000064601	ENST00000607814	retained_intron	KNOWN	None	9251	None	None	44519994	44521011	1	GSL, PPGB	None
20	CTSA	ENSG00000064601	ENST00000607212	retained_intron	KNOWN	None	9251	None	None	44519996	44521093	1	GSL, PPGB	None
20	CTSA	ENSG00000064601	ENST00000607482	protein_coding	KNOWN	None	9251	329	108	44520015	44520934	1	GSL, PPGB	None
20	CTSA	ENSG00000064601	ENST00000372459	protein_coding	KNOWN	CCDS46609	9251	1443	480	44520015	44527425	1	GSL, PPGB	None
20	CTSA	ENSG00000064601	ENST00000485627	retained_intron	KNOWN	None	9251	None	None	44520945	44522968	1	GSL, PPGB	None
20	CTSA	ENSG00000064601	ENST00000606782	retained_intron	KNOWN	None	9251	None	None	44521047	44521868	1	GSL, PPGB	None
20	CTSA	ENSG00000064601	ENST00000419493	protein_coding	PUTATIVE	None	9251	606	201	44521391	44523771	1	GSL, PPGB	None
20	CTSA	ENSG00000064601	ENST00000493522	retained_intron	KNOWN	None	9251	None	None	44521600	44526433	1	GSL, PPGB	None
20	CTSA	ENSG00000064601	ENST00000480961	retained_intron	KNOWN	None	9251	None	None	44522627	44523889	1	GSL, PPGB	None
20	CTSA	ENSG00000064601	ENST00000484855	retained_intron	KNOWN	None	9251	None	None	44525020	44527459	1	GSL, PPGB	None
20	CTSA	ENSG00000064601	ENST00000607187	retained_intron	KNOWN	None	9251	None	None	44525238	44526422	1	GSL, PPGB	None
20	CTSA	ENSG00000064601	ENST00000606000	retained_intron	KNOWN	None	9251	None	None	44526265	44527266	1	GSL, PPGB	None
17	KRTAP4-8	ENSG00000204880	ENST00000333822	protein_coding	KNOWN	CCDS45674	17230	558	185	39253233	39254393	-1	None	KAP4.8
12	ALKBH2	ENSG00000189046	ENST00000343075	protein_coding	KNOWN	CCDS31897	32487	786	261	109525996	109531277	-1	None	MGC90512, ABH2
12	ALKBH2	ENSG00000189046	ENST00000429722	protein_coding	KNOWN	CCDS31897	32487	786	261	109526002	109531264	-1	None	MGC90512, ABH2
12	ALKBH2	ENSG00000189046	ENST00000440112	protein_coding	NOVEL	CCDS55883	32487	474	157	109526027	109530594	-1	None	MGC90512, ABH2
12	ALKBH2	ENSG00000189046	ENST00000543444	protein_coding	PUTATIVE	None	32487	449	148	109527425	109530557	-1	None	MGC90512, ABH2
12	ALKBH2	ENSG00000189046	ENST00000536242	protein_coding	KNOWN	None	32487	451	149	109527842	109531274	-1	None	MGC90512, ABH2
12	ALKBH2	ENSG00000189046	ENST00000536358	protein_coding	KNOWN	None	32487	363	120	109527930	109531277	-1	None	MGC90512, ABH2
12	ALKBH2	ENSG00000189046	ENST00000536720	retained_intron	KNOWN	None	32487	None	None	109530060	109531436	-1	None	MGC90512, ABH2
5	None	ENSG00000249894	ENST00000514791	lincRNA	KNOWN	None	None	None	None	67096568	67185924	-1	None	None
5	None	ENSG00000223149	ENST00000411217	miRNA	NOVEL	None	None	None	None	67263273	67263379	1	None	None
5	None	ENSG00000253801	ENST00000522101	processed_pseudogene	KNOWN	None	None	None	None	67382989	67383322	-1	None	None
5	FAM105B	ENSG00000154124	ENST00000503023	nonsense_mediated_decay	KNOWN	None	25118	177	58	14664773	14690379	1	None	FLJ34884
5	FAM105B	ENSG00000154124	ENST00000507335	retained_intron	KNOWN	None	25118	None	None	14664841	14674246	1	None	FLJ34884
5	FAM105B	ENSG00000154124	ENST00000284274	protein_coding	KNOWN	CCDS43302	25118	1059	352	14664857	14699820	1	None	FLJ34884
5	FAM105B	ENSG00000154124	ENST00000514913	nonsense_mediated_decay	KNOWN	None	25118	200	65	14678865	14690260	1	None	FLJ34884
5	FAM105B	ENSG00000154124	ENST00000506417	protein_coding	NOVEL	None	25118	253	83	14681659	14693509	1	None	FLJ34884
5	FAM105B	ENSG00000154124	ENST00000508678	retained_intron	KNOWN	None	25118	None	None	14681685	14688049	1	None	FLJ34884
6	HLA-DQB3	ENSG00000226030	ENST00000425319	unprocessed_pseudogene	KNOWN	None	4946	None	None	32698535	32699472	-1	HLA-DVB	D6S205, D6S205E, DVB, DQB3
16	MT1DP	ENSG00000205361	ENST00000463480	processed_transcript	KNOWN	None	7396	None	None	56677617	56678698	1	None	MTM
16	MT1DP	ENSG00000205361	ENST00000486551	transcribed_unprocessed_pseudogene	KNOWN	None	7396	None	None	56677637	56678677	1	None	MTM
7	None	ENSG00000251660	ENST00000511893	processed_transcript	PUTATIVE	None	None	None	None	30197147	30199150	1	None	None
19	None	ENSG00000267343	ENST00000424938	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	11793361	11797005	1	None	None
11	HBE1	ENSG00000213931	ENST00000380237	protein_coding	KNOWN	CCDS7756	4830	444	147	5289582	5526834	-1	None	HBE
11	HBE1	ENSG00000213931	ENST00000396895	protein_coding	KNOWN	None	4830	263	86	5290736	5526847	-1	None	HBE
11	HBE1	ENSG00000213931	ENST00000292896	protein_coding	KNOWN	CCDS7756	4830	444	147	5289584	5291388	-1	None	HBE
5	RNU6-1232P	ENSG00000252108	ENST00000516299	snRNA	KNOWN	None	48195	None	None	67454889	67454974	-1	None	None
1	PRAMEF7	ENSG00000204510	ENST00000330881	protein_coding	KNOWN	CCDS30593	28415	1425	474	12977513	12980233	1	None	None
1	PRAMEF7	ENSG00000204510	ENST00000361079	protein_coding	KNOWN	CCDS30593	28415	1425	474	12976450	12980569	1	None	None
5	EEF1B2P2	ENSG00000213864	ENST00000519625	processed_pseudogene	KNOWN	None	3209	None	None	67455046	67455721	-1	EEF1B, EEF1B3	BETA-3, EEF-1BETA5A, EEF-1
6	MIR3135B	ENSG00000263649	ENST00000581098	miRNA	KNOWN	None	41783	None	None	32717689	32717756	-1	None	hsa-mir-3135b
10	EIF3A	ENSG00000107581	ENST00000369144	protein_coding	KNOWN	CCDS7608	3271	4149	1382	120794356	120840316	-1	EIF3, EIF3S10	eIF3-theta, eIF3-p170, KIAA0139, eIF3a, TIF32
10	EIF3A	ENSG00000107581	ENST00000478852	processed_transcript	KNOWN	None	3271	None	None	120794873	120840396	-1	EIF3, EIF3S10	eIF3-theta, eIF3-p170, KIAA0139, eIF3a, TIF32
10	EIF3A	ENSG00000107581	ENST00000462527	retained_intron	KNOWN	None	3271	None	None	120816388	120819402	-1	EIF3, EIF3S10	eIF3-theta, eIF3-p170, KIAA0139, eIF3a, TIF32
10	EIF3A	ENSG00000107581	ENST00000541549	protein_coding	KNOWN	None	3271	4047	1348	120795305	120840031	-1	EIF3, EIF3S10	eIF3-theta, eIF3-p170, KIAA0139, eIF3a, TIF32
5	None	ENSG00000251044	ENST00000503685	lincRNA	KNOWN	None	None	None	None	67670593	67670955	1	None	None
11	IGHMBP2	ENSG00000132740	ENST00000255078	protein_coding	KNOWN	CCDS8187	5542	2982	993	68671310	68708067	1	None	ZFAND7, SMUBP2, CATF1, SMARD1, HCSA, HMN6
11	IGHMBP2	ENSG00000132740	ENST00000544541	nonsense_mediated_decay	KNOWN	None	5542	90	29	68671359	68678947	1	None	ZFAND7, SMUBP2, CATF1, SMARD1, HCSA, HMN6
11	IGHMBP2	ENSG00000132740	ENST00000539224	protein_coding	NOVEL	None	5542	579	192	68671365	68682406	1	None	ZFAND7, SMUBP2, CATF1, SMARD1, HCSA, HMN6
11	IGHMBP2	ENSG00000132740	ENST00000545146	nonsense_mediated_decay	KNOWN	None	5542	276	91	68671394	68675660	1	None	ZFAND7, SMUBP2, CATF1, SMARD1, HCSA, HMN6
11	IGHMBP2	ENSG00000132740	ENST00000568742	processed_transcript	KNOWN	None	5542	None	None	68693664	68700849	1	None	ZFAND7, SMUBP2, CATF1, SMARD1, HCSA, HMN6
11	IGHMBP2	ENSG00000132740	ENST00000536803	processed_transcript	PUTATIVE	None	5542	None	None	68697559	68700866	1	None	ZFAND7, SMUBP2, CATF1, SMARD1, HCSA, HMN6
11	IGHMBP2	ENSG00000132740	ENST00000539064	retained_intron	KNOWN	None	5542	None	None	68699773	68704535	1	None	ZFAND7, SMUBP2, CATF1, SMARD1, HCSA, HMN6
11	IGHMBP2	ENSG00000132740	ENST00000537458	retained_intron	KNOWN	None	5542	None	None	68700415	68701540	1	None	ZFAND7, SMUBP2, CATF1, SMARD1, HCSA, HMN6
11	IGHMBP2	ENSG00000132740	ENST00000543739	retained_intron	KNOWN	None	5542	None	None	68700415	68708070	1	None	ZFAND7, SMUBP2, CATF1, SMARD1, HCSA, HMN6
11	IGHMBP2	ENSG00000132740	ENST00000541229	processed_transcript	KNOWN	None	5542	None	None	68701150	68703802	1	None	ZFAND7, SMUBP2, CATF1, SMARD1, HCSA, HMN6
11	IGHMBP2	ENSG00000132740	ENST00000545475	retained_intron	KNOWN	None	5542	None	None	68701799	68703914	1	None	ZFAND7, SMUBP2, CATF1, SMARD1, HCSA, HMN6
11	IGHMBP2	ENSG00000132740	ENST00000544521	retained_intron	KNOWN	None	5542	None	None	68705208	68708069	1	None	ZFAND7, SMUBP2, CATF1, SMARD1, HCSA, HMN6
10	None	ENSG00000230720	ENST00000416310	lincRNA	KNOWN	None	None	None	None	31012180	31012669	1	None	None
17	KRTAP4-16P	ENSG00000241241	ENST00000440582	protein_coding	PUTATIVE	None	18921	708	235	39257754	39258461	-1	KRTAP4P1	KAP4A
4	OR4D12P	ENSG00000198787	ENST00000509361	unprocessed_pseudogene	KNOWN	None	19587	None	None	4128386	4129296	-1	OR7E103P	None
12	HOXC13	ENSG00000123364	ENST00000243056	protein_coding	KNOWN	CCDS8865	5125	993	330	54332535	54340328	1	HOX3, HOX3G	None
19	None	ENSG00000266922	ENST00000586983	sense_intronic	KNOWN	None	None	None	None	11836776	11841598	-1	None	None
4	None	ENSG00000225846	ENST00000477971	processed_pseudogene	KNOWN	None	None	None	None	76957903	76958217	-1	None	None
7	RPS27P16	ENSG00000225907	ENST00000425758	processed_pseudogene	KNOWN	None	36560	None	None	30207420	30207620	1	None	None
14	PRKD1	ENSG00000184304	ENST00000331968	protein_coding	KNOWN	CCDS9637	9407	2739	912	30045687	30396948	-1	PRKCM	PKCM, PKD, PKC-mu
14	PRKD1	ENSG00000184304	ENST00000415220	protein_coding	NOVEL	None	9407	2763	920	30046148	30396848	-1	PRKCM	PKCM, PKD, PKC-mu
14	PRKD1	ENSG00000184304	ENST00000490795	nonsense_mediated_decay	KNOWN	None	9407	243	80	30060321	30066874	-1	PRKCM	PKCM, PKD, PKC-mu
14	PRKD1	ENSG00000184304	ENST00000546371	protein_coding	PUTATIVE	None	9407	474	157	30099778	30103680	-1	PRKCM	PKCM, PKD, PKC-mu
14	PRKD1	ENSG00000184304	ENST00000551644	processed_transcript	KNOWN	None	9407	None	None	30105649	30119726	-1	PRKCM	PKCM, PKD, PKC-mu
14	PRKD1	ENSG00000184304	ENST00000468370	retained_intron	KNOWN	None	9407	None	None	30107502	30135364	-1	PRKCM	PKCM, PKD, PKC-mu
14	PRKD1	ENSG00000184304	ENST00000547441	processed_transcript	KNOWN	None	9407	None	None	30107729	30127050	-1	PRKCM	PKCM, PKD, PKC-mu
14	PRKD1	ENSG00000184304	ENST00000549503	protein_coding	PUTATIVE	None	9407	352	116	30133018	30661104	-1	PRKCM	PKCM, PKD, PKC-mu
6	None	ENSG00000204261	ENST00000453426	lincRNA	KNOWN	None	None	None	None	32811863	32814272	1	None	None
6	None	ENSG00000204261	ENST00000458296	lincRNA	KNOWN	None	None	None	None	32811885	32813596	1	None	None
6	None	ENSG00000204261	ENST00000413039	lincRNA	KNOWN	None	None	None	None	32811910	32813763	1	None	None
6	None	ENSG00000204261	ENST00000429600	lincRNA	KNOWN	None	None	None	None	32811910	32813987	1	None	None
6	None	ENSG00000204261	ENST00000412095	lincRNA	KNOWN	None	None	None	None	32811911	32813472	1	None	None
6	None	ENSG00000204261	ENST00000415067	lincRNA	KNOWN	None	None	None	None	32811915	32813855	1	None	None
7	C7orf72	ENSG00000164500	ENST00000297001	protein_coding	KNOWN	CCDS47585	22564	1317	438	50135632	50199426	1	None	None
12	RFX4	ENSG00000111783	ENST00000392842	protein_coding	KNOWN	CCDS9106	9985	2208	735	106976685	107156580	1	None	None
12	RFX4	ENSG00000111783	ENST00000546882	nonsense_mediated_decay	KNOWN	None	9985	234	77	106976811	107075832	1	None	None
12	RFX4	ENSG00000111783	ENST00000549040	protein_coding	PUTATIVE	None	9985	177	58	106977423	107080710	1	None	None
12	RFX4	ENSG00000111783	ENST00000539967	protein_coding	PUTATIVE	None	9985	436	144	106979505	107109322	1	None	None
12	RFX4	ENSG00000111783	ENST00000357881	protein_coding	KNOWN	CCDS55880	9985	2235	744	106994915	107155437	1	None	None
12	RFX4	ENSG00000111783	ENST00000536722	nonsense_mediated_decay	KNOWN	None	9985	744	247	106994944	107109305	1	None	None
12	RFX4	ENSG00000111783	ENST00000536688	retained_intron	KNOWN	None	9985	None	None	106994950	107127284	1	None	None
12	RFX4	ENSG00000111783	ENST00000552773	retained_intron	KNOWN	None	9985	None	None	107033110	107077244	1	None	None
12	RFX4	ENSG00000111783	ENST00000551640	protein_coding	PUTATIVE	None	9985	769	255	107039660	107103208	1	None	None
12	RFX4	ENSG00000111783	ENST00000552866	protein_coding	NOVEL	None	9985	481	159	107078474	107086937	1	None	None
12	RFX4	ENSG00000111783	ENST00000229387	protein_coding	KNOWN	CCDS9108	9985	1926	641	107078474	107156581	1	None	None
12	RFX4	ENSG00000111783	ENST00000552917	nonsense_mediated_decay	KNOWN	None	9985	120	39	107078586	107103167	1	None	None
4	None	ENSG00000265931	ENST00000582318	miRNA	NOVEL	None	None	None	None	77016561	77016661	1	None	None
4	SNX5P1	ENSG00000249858	ENST00000505757	processed_pseudogene	KNOWN	None	41512	None	None	77265703	77266743	1	None	None
10	DDX10P1	ENSG00000237135	ENST00000448545	processed_pseudogene	KNOWN	None	44960	None	None	31207941	31210164	-1	None	None
5	PPIP5K2	ENSG00000145725	ENST00000515845	protein_coding	KNOWN	None	29035	175	57	102455853	102469217	1	HISPPD1	KIAA0433, VIP2
5	PPIP5K2	ENSG00000145725	ENST00000321521	protein_coding	KNOWN	CCDS34207	29035	3669	1222	102455904	102548500	1	HISPPD1	KIAA0433, VIP2
5	PPIP5K2	ENSG00000145725	ENST00000507921	protein_coding	PUTATIVE	None	29035	1357	451	102455958	102493993	1	HISPPD1	KIAA0433, VIP2
5	PPIP5K2	ENSG00000145725	ENST00000504275	nonsense_mediated_decay	KNOWN	None	29035	156	51	102455966	102474126	1	HISPPD1	KIAA0433, VIP2
5	PPIP5K2	ENSG00000145725	ENST00000358359	protein_coding	KNOWN	None	29035	3732	1243	102455968	102538907	1	HISPPD1	KIAA0433, VIP2
5	PPIP5K2	ENSG00000145725	ENST00000513500	processed_transcript	KNOWN	None	29035	None	None	102456094	102537308	1	HISPPD1	KIAA0433, VIP2
5	PPIP5K2	ENSG00000145725	ENST00000502481	protein_coding	PUTATIVE	None	29035	174	57	102456312	102482295	1	HISPPD1	KIAA0433, VIP2
5	PPIP5K2	ENSG00000145725	ENST00000507310	protein_coding	PUTATIVE	None	29035	630	209	102469253	102484004	1	HISPPD1	KIAA0433, VIP2
5	PPIP5K2	ENSG00000145725	ENST00000509597	protein_coding	NOVEL	None	29035	1197	398	102503892	102538937	1	HISPPD1	KIAA0433, VIP2
5	PPIP5K2	ENSG00000145725	ENST00000508935	retained_intron	KNOWN	None	29035	None	None	102508958	102509895	1	HISPPD1	KIAA0433, VIP2
5	PPIP5K2	ENSG00000145725	ENST00000511724	processed_transcript	KNOWN	None	29035	None	None	102509567	102524595	1	HISPPD1	KIAA0433, VIP2
5	PPIP5K2	ENSG00000145725	ENST00000507966	processed_transcript	KNOWN	None	29035	None	None	102509648	102537314	1	HISPPD1	KIAA0433, VIP2
5	PPIP5K2	ENSG00000145725	ENST00000511022	protein_coding	NOVEL	None	29035	756	251	102513620	102530729	1	HISPPD1	KIAA0433, VIP2
5	PPIP5K2	ENSG00000145725	ENST00000510672	retained_intron	KNOWN	None	29035	None	None	102519944	102526759	1	HISPPD1	KIAA0433, VIP2
5	PPIP5K2	ENSG00000145725	ENST00000504083	retained_intron	KNOWN	None	29035	None	None	102530482	102537370	1	HISPPD1	KIAA0433, VIP2
5	PPIP5K2	ENSG00000145725	ENST00000414217	protein_coding	KNOWN	CCDS34207	29035	3669	1222	102465257	102538907	1	HISPPD1	KIAA0433, VIP2
4	RNU6-1000P	ENSG00000212368	ENST00000391066	snRNA	KNOWN	None	47963	None	None	77277763	77277868	-1	None	None
4	None	ENSG00000240426	ENST00000485172	processed_pseudogene	KNOWN	None	None	None	None	77322404	77322722	1	None	None
1	ANGPTL1	ENSG00000116194	ENST00000234816	protein_coding	KNOWN	CCDS1327	489	1476	491	178818840	178840187	-1	ANGPT3	ANG3, AngY, ARP1
1	ANGPTL1	ENSG00000116194	ENST00000367629	protein_coding	KNOWN	CCDS1327	489	1476	491	178819759	178840157	-1	ANGPT3	ANG3, AngY, ARP1
1	ANGPTL1	ENSG00000116194	ENST00000444255	protein_coding	KNOWN	None	489	343	113	178834569	178838413	-1	ANGPT3	ANG3, AngY, ARP1
4	None	ENSG00000199857	ENST00000362987	snoRNA	NOVEL	None	None	None	None	77323229	77323299	1	None	None
16	TBX6	ENSG00000149922	ENST00000395224	protein_coding	KNOWN	CCDS10670	11605	1311	436	30097114	30103205	-1	None	None
16	TBX6	ENSG00000149922	ENST00000567664	nonsense_mediated_decay	KNOWN	None	11605	888	295	30097356	30102534	-1	None	None
16	TBX6	ENSG00000149922	ENST00000553607	protein_coding	PUTATIVE	None	11605	888	295	30099237	30103208	-1	None	None
16	TBX6	ENSG00000149922	ENST00000279386	protein_coding	KNOWN	CCDS10670	11605	1311	436	30097117	30102570	-1	None	None
4	None	ENSG00000221118	ENST00000408191	miRNA	NOVEL	None	None	None	None	77414400	77414539	-1	None	None
2	ATAD2B	ENSG00000119778	ENST00000238789	protein_coding	KNOWN	CCDS46227	29230	4377	1458	23971534	24149984	-1	None	KIAA1240
2	ATAD2B	ENSG00000119778	ENST00000381024	protein_coding	NOVEL	None	29230	2204	733	23971541	24042725	-1	None	KIAA1240
2	ATAD2B	ENSG00000119778	ENST00000474583	processed_transcript	KNOWN	None	29230	None	None	23974673	24055472	-1	None	KIAA1240
2	ATAD2B	ENSG00000119778	ENST00000486610	retained_intron	KNOWN	None	29230	None	None	23977054	23977962	-1	None	KIAA1240
2	ATAD2B	ENSG00000119778	ENST00000478885	retained_intron	KNOWN	None	29230	None	None	24008625	24011233	-1	None	KIAA1240
2	ATAD2B	ENSG00000119778	ENST00000498006	processed_transcript	KNOWN	None	29230	None	None	24029044	24034340	-1	None	KIAA1240
2	ATAD2B	ENSG00000119778	ENST00000458510	protein_coding	PUTATIVE	None	29230	192	63	24046381	24055481	-1	None	KIAA1240
2	ATAD2B	ENSG00000119778	ENST00000366438	protein_coding	PUTATIVE	None	29230	467	154	24078879	24090757	-1	None	KIAA1240
2	ATAD2B	ENSG00000119778	ENST00000439915	protein_coding	NOVEL	None	29230	1111	369	24092540	24149935	-1	None	KIAA1240
21	C21orf58	ENSG00000160298	ENST00000491666	nonsense_mediated_decay	KNOWN	None	1300	720	239	47720095	47738120	-1	None	None
21	C21orf58	ENSG00000160298	ENST00000397683	protein_coding	NOVEL	None	1300	651	216	47720344	47740739	-1	None	None
21	C21orf58	ENSG00000160298	ENST00000417060	protein_coding	KNOWN	None	1300	855	284	47720425	47738120	-1	None	None
21	C21orf58	ENSG00000160298	ENST00000397682	protein_coding	NOVEL	None	1300	651	216	47721044	47743789	-1	None	None
21	C21orf58	ENSG00000160298	ENST00000291691	protein_coding	KNOWN	CCDS13735	1300	969	322	47721044	47743789	-1	None	None
21	C21orf58	ENSG00000160298	ENST00000397679	protein_coding	NOVEL	None	1300	651	216	47721048	47739051	-1	None	None
21	C21orf58	ENSG00000160298	ENST00000397680	protein_coding	NOVEL	None	1300	651	216	47721048	47743771	-1	None	None
21	C21orf58	ENSG00000160298	ENST00000472607	processed_transcript	PUTATIVE	None	1300	None	None	47721624	47731545	-1	None	None
21	C21orf58	ENSG00000160298	ENST00000445935	protein_coding	NOVEL	None	1300	136	44	47734785	47743783	-1	None	None
21	C21orf58	ENSG00000160298	ENST00000475776	retained_intron	KNOWN	None	1300	None	None	47734785	47743783	-1	None	None
21	C21orf58	ENSG00000160298	ENST00000397685	protein_coding	KNOWN	None	1300	288	95	47734785	47743783	-1	None	None
HSCHR6_MHC_MANN	HLA-DQB2	ENSG00000229493	ENST00000457432	protein_coding	KNOWN	None	4945	807	268	32877673	32885112	-1	HLA-DXB	None
HSCHR6_MHC_MANN	HLA-DQB2	ENSG00000229493	ENST00000419519	protein_coding	KNOWN	None	4945	840	279	32877673	32885110	-1	HLA-DXB	None
HSCHR6_MHC_MANN	HLA-DQB2	ENSG00000229493	ENST00000433114	protein_coding	KNOWN	None	4945	696	231	32877673	32885068	-1	HLA-DXB	None
HSCHR6_MHC_MANN	HLA-DQB2	ENSG00000229493	ENST00000419109	protein_coding	KNOWN	None	4945	656	217	32877963	32885044	-1	HLA-DXB	None
HSCHR6_MHC_MANN	HLA-DQB2	ENSG00000229493	ENST00000549667	protein_coding	KNOWN	None	4945	627	208	32877673	32885131	-1	HLA-DXB	None
X	RNU6-867P	ENSG00000201826	ENST00000364956	snRNA	KNOWN	None	47830	None	None	75465367	75465473	1	None	None
10	None	ENSG00000263578	ENST00000577878	miRNA	NOVEL	None	None	None	None	31354880	31354976	-1	None	None
X	LDHBP2	ENSG00000213684	ENST00000456969	processed_pseudogene	KNOWN	None	6543	None	None	75555240	75556244	-1	LDHBP, LDHBL2	None
X	RNA5SP508	ENSG00000223259	ENST00000411327	rRNA	KNOWN	None	43408	None	None	75875410	75875528	-1	RN5S508	None
9	None	ENSG00000199331	ENST00000362461	misc_RNA	NOVEL	None	None	None	None	111804666	111804767	-1	None	None
17	KRTAP4-9	ENSG00000212722	ENST00000391415	protein_coding	KNOWN	CCDS54124	18910	633	210	39261584	39262740	1	None	KAP4.9
9	MIR32	ENSG00000207698	ENST00000384965	miRNA	KNOWN	None	31631	None	None	111808509	111808578	-1	MIRN32	hsa-mir-32
3	MORC1	ENSG00000114487	ENST00000232603	protein_coding	KNOWN	CCDS2955	7198	2955	984	108677086	108836989	-1	MORC	ZCW6, CT33
3	MORC1	ENSG00000114487	ENST00000483760	protein_coding	NOVEL	None	7198	2892	963	108677692	108836950	-1	MORC	ZCW6, CT33
19	ZNF846	ENSG00000196605	ENST00000589453	nonsense_mediated_decay	KNOWN	None	27260	261	86	9862669	9879293	-1	None	None
19	ZNF846	ENSG00000196605	ENST00000588267	protein_coding	PUTATIVE	None	27260	633	210	9862816	9879410	-1	None	None
19	ZNF846	ENSG00000196605	ENST00000592859	protein_coding	PUTATIVE	None	27260	633	210	9863061	9879408	-1	None	None
19	ZNF846	ENSG00000196605	ENST00000586293	protein_coding	PUTATIVE	None	27260	261	86	9868151	9878981	-1	None	None
19	ZNF846	ENSG00000196605	ENST00000397902	protein_coding	KNOWN	CCDS42496	27260	1602	533	9868151	9879293	-1	None	None
19	ZNF846	ENSG00000196605	ENST00000591377	retained_intron	KNOWN	None	27260	None	None	9869150	9873139	-1	None	None
19	ZNF846	ENSG00000196605	ENST00000589412	protein_coding	KNOWN	None	27260	527	174	9869223	9896672	-1	None	None
19	ZNF846	ENSG00000196605	ENST00000586814	protein_coding	PUTATIVE	None	27260	245	80	9869425	9896765	-1	None	None
19	ZNF846	ENSG00000196605	ENST00000592587	protein_coding	KNOWN	None	27260	299	98	9870549	9903773	-1	None	None
19	ZNF846	ENSG00000196605	ENST00000587650	processed_transcript	KNOWN	None	27260	None	None	9872776	9896699	-1	None	None
19	ZNF846	ENSG00000196605	ENST00000590471	processed_transcript	KNOWN	None	27260	None	None	9873064	9896727	-1	None	None
19	ZNF846	ENSG00000196605	ENST00000589038	processed_transcript	KNOWN	None	27260	None	None	9898084	9903856	-1	None	None
9	None	ENSG00000260230	ENST00000561981	sense_overlapping	KNOWN	None	None	None	None	111892573	111898218	-1	None	None
1	PRAMEF6	ENSG00000232423	ENST00000355096	protein_coding	KNOWN	CCDS30594	30583	1431	476	12998505	13002348	-1	None	None
1	PRAMEF6	ENSG00000232423	ENST00000376192	protein_coding	KNOWN	None	30583	1431	476	12998484	13117736	-1	None	None
1	PRAMEF6	ENSG00000232423	ENST00000376189	protein_coding	KNOWN	CCDS30594	30583	1431	476	12998181	13007420	-1	None	None
1	PRAMEF6	ENSG00000232423	ENST00000415464	protein_coding	KNOWN	CCDS30594	30583	1431	476	12998302	13005246	-1	None	None
1	PRAMEF6	ENSG00000232423	ENST00000376182	protein_coding	KNOWN	None	30583	1431	476	13108514	13117751	-1	None	None
1	PRAMEF6	ENSG00000232423	ENST00000414205	protein_coding	KNOWN	None	30583	1431	476	13108635	13115578	-1	None	None
17	KRTAP4-11	ENSG00000212721	ENST00000391413	protein_coding	KNOWN	CCDS45675	18911	588	195	39273433	39274606	-1	KRTAP4-14	KAP4.11, KAP4.14
14	TMEM121	ENSG00000184986	ENST00000392519	protein_coding	KNOWN	CCDS10006	20511	960	319	105992940	105996539	1	None	MGC4659, hole
14	TMEM121	ENSG00000184986	ENST00000552019	processed_transcript	PUTATIVE	None	20511	None	None	105993442	105995090	1	None	MGC4659, hole
14	TMEM121	ENSG00000184986	ENST00000431372	protein_coding	KNOWN	CCDS10006	20511	960	319	105994961	105996539	1	None	MGC4659, hole
9	RNU6-984P	ENSG00000200106	ENST00000363236	snRNA	KNOWN	None	47947	None	None	111958481	111958589	-1	None	None
12	TSPAN9	ENSG00000011105	ENST00000444315	nonsense_mediated_decay	KNOWN	None	21640	180	59	3186543	3388172	1	None	NET-5
12	TSPAN9	ENSG00000011105	ENST00000011898	protein_coding	KNOWN	CCDS8520	21640	720	239	3186543	3395724	1	None	NET-5
12	TSPAN9	ENSG00000011105	ENST00000539631	retained_intron	KNOWN	None	21640	None	None	3186594	3193376	1	None	NET-5
12	TSPAN9	ENSG00000011105	ENST00000407263	protein_coding	PUTATIVE	None	21640	816	271	3310341	3391274	1	None	NET-5
12	TSPAN9	ENSG00000011105	ENST00000431374	processed_transcript	KNOWN	None	21640	None	None	3324417	3390447	1	None	NET-5
12	TSPAN9	ENSG00000011105	ENST00000492305	processed_transcript	KNOWN	None	21640	None	None	3382078	3389637	1	None	NET-5
12	TSPAN9	ENSG00000011105	ENST00000537971	protein_coding	KNOWN	CCDS8520	21640	720	239	3186521	3395730	1	None	NET-5
12	GPN3	ENSG00000111231	ENST00000228827	protein_coding	KNOWN	CCDS9147	30186	855	284	110890289	110906071	-1	ATPBD1C	MGC14560
12	GPN3	ENSG00000111231	ENST00000537466	protein_coding	KNOWN	CCDS53830	30186	885	294	110890294	110906069	-1	ATPBD1C	MGC14560
12	GPN3	ENSG00000111231	ENST00000551079	protein_coding	PUTATIVE	None	30186	363	120	110890369	110893735	-1	ATPBD1C	MGC14560
12	GPN3	ENSG00000111231	ENST00000550228	protein_coding	PUTATIVE	None	30186	353	116	110891617	110897667	-1	ATPBD1C	MGC14560
12	GPN3	ENSG00000111231	ENST00000550974	protein_coding	PUTATIVE	None	30186	477	158	110893643	110906069	-1	ATPBD1C	MGC14560
12	GPN3	ENSG00000111231	ENST00000552180	processed_transcript	KNOWN	None	30186	None	None	110897625	110907019	-1	ATPBD1C	MGC14560
12	GPN3	ENSG00000111231	ENST00000547323	retained_intron	KNOWN	None	30186	None	None	110902585	110906066	-1	ATPBD1C	MGC14560
12	GPN3	ENSG00000111231	ENST00000549963	protein_coding	KNOWN	None	30186	77	24	110902991	110906524	-1	ATPBD1C	MGC14560
12	GPN3	ENSG00000111231	ENST00000543199	protein_coding	KNOWN	CCDS53831	30186	972	323	110890292	110906526	-1	ATPBD1C	MGC14560
5	GFPT2	ENSG00000131459	ENST00000253778	protein_coding	KNOWN	CCDS43411	4242	2049	682	179727690	179780387	-1	None	GFAT2
5	GFPT2	ENSG00000131459	ENST00000520165	processed_transcript	KNOWN	None	4242	None	None	179743764	179751486	-1	None	GFAT2
5	GFPT2	ENSG00000131459	ENST00000510122	retained_intron	KNOWN	None	4242	None	None	179745619	179751364	-1	None	GFAT2
5	GFPT2	ENSG00000131459	ENST00000518906	protein_coding	PUTATIVE	None	4242	648	215	179745809	179758648	-1	None	GFAT2
5	GFPT2	ENSG00000131459	ENST00000518185	processed_transcript	KNOWN	None	4242	None	None	179745844	179757934	-1	None	GFAT2
5	GFPT2	ENSG00000131459	ENST00000518158	retained_intron	KNOWN	None	4242	None	None	179758412	179780336	-1	None	GFAT2
5	GFPT2	ENSG00000131459	ENST00000503546	retained_intron	KNOWN	None	4242	None	None	179762869	179780336	-1	None	GFAT2
5	GFPT2	ENSG00000131459	ENST00000503228	protein_coding	PUTATIVE	None	4242	536	177	179765573	179779900	-1	None	GFAT2
17	KRTAP4-12	ENSG00000213416	ENST00000394014	protein_coding	KNOWN	CCDS32649	16776	606	201	39279343	39280419	-1	None	KAP4.12
3	C3orf65	ENSG00000163915	ENST00000470754	processed_transcript	PUTATIVE	None	32674	None	None	185430316	185434680	1	None	FLJ32900
3	C3orf65	ENSG00000163915	ENST00000456447	nonsense_mediated_decay	KNOWN	None	32674	345	114	185431040	185447575	1	None	FLJ32900
3	C3orf65	ENSG00000163915	ENST00000296270	protein_coding	KNOWN	None	32674	432	143	185431080	185435955	1	None	FLJ32900
3	C3orf65	ENSG00000163915	ENST00000496717	processed_transcript	KNOWN	None	32674	None	None	185440252	185447575	1	None	FLJ32900
3	C3orf65	ENSG00000163915	ENST00000465364	processed_transcript	PUTATIVE	None	32674	None	None	185446032	185446375	1	None	FLJ32900
22	None	ENSG00000235231	ENST00000503903	unprocessed_pseudogene	KNOWN	None	None	None	None	24373138	24373785	1	None	None
22	None	ENSG00000235231	ENST00000439866	unprocessed_pseudogene	KNOWN	None	None	None	None	24373117	24374043	1	None	None
X	None	ENSG00000235447	ENST00000435991	processed_pseudogene	KNOWN	None	None	None	None	75875899	75876960	-1	None	None
X	MIR325	ENSG00000207995	ENST00000385260	miRNA	KNOWN	None	31768	None	None	76225829	76225926	-1	MIRN325	hsa-mir-325
19	ZNF814	ENSG00000204514	ENST00000597652	processed_transcript	KNOWN	None	33258	None	None	58360099	58368657	-1	None	None
19	ZNF814	ENSG00000204514	ENST00000596604	protein_coding	PUTATIVE	None	33258	255	84	58361683	58400288	-1	None	None
19	ZNF814	ENSG00000204514	ENST00000597342	protein_coding	PUTATIVE	None	33258	342	113	58361688	58400326	-1	None	None
19	ZNF814	ENSG00000204514	ENST00000597832	protein_coding	PUTATIVE	None	33258	207	68	58362047	58400387	-1	None	None
19	ZNF814	ENSG00000204514	ENST00000595894	nonsense_mediated_decay	KNOWN	None	33258	276	91	58363534	58400175	-1	None	None
19	ZNF814	ENSG00000204514	ENST00000595295	protein_coding	PUTATIVE	None	33258	120	39	58369498	58400189	-1	None	None
19	ZNF814	ENSG00000204514	ENST00000596184	retained_intron	KNOWN	None	33258	None	None	58369512	58372007	-1	None	None
19	ZNF814	ENSG00000204514	ENST00000597348	nonsense_mediated_decay	KNOWN	None	33258	240	79	58376126	58400405	-1	None	None
19	ZNF814	ENSG00000204514	ENST00000600634	protein_coding	PUTATIVE	None	33258	276	91	58376127	58400185	-1	None	None
19	ZNF814	ENSG00000204514	ENST00000595048	protein_coding	PUTATIVE	None	33258	284	93	58376133	58400148	-1	None	None
19	ZNF814	ENSG00000204514	ENST00000594629	processed_transcript	KNOWN	None	33258	None	None	58379904	58400442	-1	None	None
19	ZNF814	ENSG00000204514	ENST00000594159	retained_intron	KNOWN	None	33258	None	None	58380751	58383027	-1	None	None
19	ZNF814	ENSG00000204514	ENST00000435989	protein_coding	KNOWN	CCDS46212	33258	2568	855	58383847	58400405	-1	None	None
19	ZNF814	ENSG00000204514	ENST00000597807	protein_coding	PUTATIVE	None	33258	189	62	58387843	58400337	-1	None	None
17	KRTAP4-6	ENSG00000198090	ENST00000345847	protein_coding	KNOWN	CCDS54125	18909	618	205	39295685	39296739	-1	KRTAP4-15	KAP4.6, KAP4.15
X	RNA5SP509	ENSG00000201447	ENST00000364577	rRNA	KNOWN	None	43409	None	None	76287130	76287248	1	RN5S509	None
9	None	ENSG00000235283	ENST00000432614	lincRNA	KNOWN	None	None	None	None	40704468	40713709	-1	None	None
22	GSTTP2	ENSG00000239334	ENST00000485225	transcribed_unprocessed_pseudogene	KNOWN	None	33606	None	None	24385938	24401899	-1	None	None
22	GSTTP2	ENSG00000239334	ENST00000466426	processed_transcript	KNOWN	None	33606	None	None	24396360	24401855	-1	None	None
22	GSTTP2	ENSG00000239334	ENST00000389399	processed_transcript	KNOWN	None	33606	None	None	24397664	24401779	-1	None	None
7	C7orf26	ENSG00000146576	ENST00000344417	protein_coding	KNOWN	CCDS5353	21702	1350	449	6629648	6648357	1	None	MGC2718
7	C7orf26	ENSG00000146576	ENST00000359073	protein_coding	KNOWN	None	21702	1059	352	6629775	6648355	1	None	MGC2718
7	C7orf26	ENSG00000146576	ENST00000472693	processed_transcript	KNOWN	None	21702	None	None	6631388	6647728	1	None	MGC2718
7	C7orf26	ENSG00000146576	ENST00000477298	retained_intron	KNOWN	None	21702	None	None	6639605	6641890	1	None	MGC2718
7	C7orf26	ENSG00000146576	ENST00000445375	protein_coding	PUTATIVE	None	21702	448	148	6639668	6647482	1	None	MGC2718
7	C7orf26	ENSG00000146576	ENST00000440409	nonsense_mediated_decay	KNOWN	None	21702	294	97	6639831	6647701	1	None	MGC2718
14	IGHA2	ENSG00000211890	ENST00000390539	IG_C_gene	KNOWN	None	5479	1023	340	106053226	106054732	-1	None	None
17	KRTAP4-5	ENSG00000198271	ENST00000343246	protein_coding	KNOWN	CCDS32650	18899	546	181	39305178	39306054	-1	None	KAP4.5
HSCHR6_MHC_DBB	GABBR1	ENSG00000237112	ENST00000417759	protein_coding	KNOWN	None	4070	2535	844	29523343	29595776	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_DBB	GABBR1	ENSG00000237112	ENST00000425097	protein_coding	KNOWN	None	4070	2886	961	29569967	29600898	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_DBB	GABBR1	ENSG00000237112	ENST00000446436	protein_coding	KNOWN	None	4070	2535	844	29569967	29595751	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_DBB	GABBR1	ENSG00000237112	ENST00000443440	protein_coding	KNOWN	None	4070	2700	899	29569967	29600873	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_DBB	GABBR1	ENSG00000237112	ENST00000471103	processed_transcript	KNOWN	None	4070	None	None	29569967	29600672	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_DBB	GABBR1	ENSG00000237112	ENST00000497560	processed_transcript	KNOWN	None	4070	None	None	29569967	29576470	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_DBB	GABBR1	ENSG00000237112	ENST00000493150	processed_transcript	KNOWN	None	4070	None	None	29571051	29572886	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_DBB	GABBR1	ENSG00000237112	ENST00000466282	processed_transcript	KNOWN	None	4070	None	None	29572650	29600123	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_DBB	GABBR1	ENSG00000237112	ENST00000475099	processed_transcript	KNOWN	None	4070	None	None	29573147	29574326	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_DBB	GABBR1	ENSG00000237112	ENST00000481954	processed_transcript	KNOWN	None	4070	None	None	29576191	29580336	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_DBB	GABBR1	ENSG00000237112	ENST00000492358	processed_transcript	KNOWN	None	4070	None	None	29589542	29591999	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_DBB	GABBR1	ENSG00000237112	ENST00000472409	processed_transcript	KNOWN	None	4070	None	None	29597637	29600805	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_DBB	GABBR1	ENSG00000237112	ENST00000551140	protein_coding	KNOWN	None	4070	1737	578	29569966	29600923	-1	None	hGB1a, GPRC3A
6	PPP1R2P1	ENSG00000234515	ENST00000420261	processed_transcript	KNOWN	None	9289	None	None	32846948	32847625	-1	PPP1R2P	IPP-2P
6	PPP1R2P1	ENSG00000234515	ENST00000429032	transcribed_processed_pseudogene	KNOWN	None	9289	None	None	32846993	32847610	-1	PPP1R2P	IPP-2P
11	CALCB	ENSG00000175868	ENST00000523376	protein_coding	PUTATIVE	None	1438	417	138	14926543	15100182	1	CALC2	FLJ30166, CGRP-II
11	CALCB	ENSG00000175868	ENST00000324229	protein_coding	KNOWN	CCDS7820	1438	384	127	15095108	15100178	1	CALC2	FLJ30166, CGRP-II
11	CALCB	ENSG00000175868	ENST00000533448	protein_coding	KNOWN	CCDS7820	1438	384	127	15095108	15103888	1	CALC2	FLJ30166, CGRP-II
1	FAM20B	ENSG00000116199	ENST00000440702	protein_coding	KNOWN	None	23017	415	137	178994939	179019451	1	None	KIAA0475, GXK1
1	FAM20B	ENSG00000116199	ENST00000263733	protein_coding	KNOWN	CCDS1328	23017	1230	409	178995031	179045697	1	None	KIAA0475, GXK1
12	USP5	ENSG00000111667	ENST00000229268	protein_coding	KNOWN	CCDS41743	12628	2577	858	6961292	6975793	1	None	IsoT
12	USP5	ENSG00000111667	ENST00000389231	protein_coding	KNOWN	CCDS31733	12628	2508	835	6961312	6975784	1	None	IsoT
12	USP5	ENSG00000111667	ENST00000542087	protein_coding	PUTATIVE	None	12628	411	136	6961317	6970254	1	None	IsoT
12	USP5	ENSG00000111667	ENST00000535080	retained_intron	KNOWN	None	12628	None	None	6966020	6967990	1	None	IsoT
12	USP5	ENSG00000111667	ENST00000537267	retained_intron	KNOWN	None	12628	None	None	6966565	6975796	1	None	IsoT
12	USP5	ENSG00000111667	ENST00000541969	processed_transcript	KNOWN	None	12628	None	None	6969628	6973080	1	None	IsoT
12	USP5	ENSG00000111667	ENST00000542371	retained_intron	KNOWN	None	12628	None	None	6972500	6975268	1	None	IsoT
17	KRTAP4-4	ENSG00000171396	ENST00000390661	protein_coding	KNOWN	CCDS11383	16928	501	166	39315910	39316983	-1	KRTAP4-13	KAP4.4, KAP4.13
7	HIBADH	ENSG00000106049	ENST00000265395	protein_coding	KNOWN	CCDS5414	4907	1011	336	27565061	27702614	-1	None	NS5ATP1
7	HIBADH	ENSG00000106049	ENST00000428288	nonsense_mediated_decay	KNOWN	None	4907	120	39	27565064	27702487	-1	None	NS5ATP1
7	HIBADH	ENSG00000106049	ENST00000425715	protein_coding	PUTATIVE	None	4907	618	205	27570873	27687375	-1	None	NS5ATP1
7	HIBADH	ENSG00000106049	ENST00000496814	retained_intron	KNOWN	None	4907	None	None	27688843	27702476	-1	None	NS5ATP1
11	PPP1CA	ENSG00000172531	ENST00000312989	protein_coding	KNOWN	CCDS31618	9281	1026	341	67165654	67169264	-1	PPP1A	PP1A, PP-1A, PP1alpha
11	PPP1CA	ENSG00000172531	ENST00000532446	processed_transcript	KNOWN	None	9281	None	None	67165672	67169048	-1	PPP1A	PP1A, PP-1A, PP1alpha
11	PPP1CA	ENSG00000172531	ENST00000526510	retained_intron	KNOWN	None	9281	None	None	67165672	67169075	-1	PPP1A	PP1A, PP-1A, PP1alpha
11	PPP1CA	ENSG00000172531	ENST00000376745	protein_coding	KNOWN	CCDS8160	9281	993	330	67165672	67169402	-1	PPP1A	PP1A, PP-1A, PP1alpha
11	PPP1CA	ENSG00000172531	ENST00000358239	protein_coding	NOVEL	CCDS8161	9281	861	286	67165902	67169342	-1	PPP1A	PP1A, PP-1A, PP1alpha
11	PPP1CA	ENSG00000172531	ENST00000532279	processed_transcript	PUTATIVE	None	9281	None	None	67166053	67167077	-1	PPP1A	PP1A, PP-1A, PP1alpha
11	PPP1CA	ENSG00000172531	ENST00000527663	protein_coding	PUTATIVE	None	9281	759	252	67166211	67169259	-1	PPP1A	PP1A, PP-1A, PP1alpha
11	PPP1CA	ENSG00000172531	ENST00000537694	processed_transcript	KNOWN	None	9281	None	None	67166407	67174735	-1	PPP1A	PP1A, PP-1A, PP1alpha
11	PPP1CA	ENSG00000172531	ENST00000529724	processed_transcript	PUTATIVE	None	9281	None	None	67168187	67169286	-1	PPP1A	PP1A, PP-1A, PP1alpha
11	PPP1CA	ENSG00000172531	ENST00000546202	protein_coding	PUTATIVE	None	9281	507	168	67168326	67188652	-1	PPP1A	PP1A, PP-1A, PP1alpha
11	PPP1CA	ENSG00000172531	ENST00000542876	protein_coding	PUTATIVE	None	9281	539	178	67168330	67188654	-1	PPP1A	PP1A, PP-1A, PP1alpha
9	HINT2	ENSG00000137133	ENST00000490578	processed_transcript	KNOWN	None	18344	None	None	35812957	35813767	-1	None	None
9	HINT2	ENSG00000137133	ENST00000472085	processed_transcript	KNOWN	None	18344	None	None	35812957	35814989	-1	None	None
9	HINT2	ENSG00000137133	ENST00000259667	protein_coding	KNOWN	CCDS6594	18344	492	163	35812957	35815018	-1	None	None
9	HINT2	ENSG00000137133	ENST00000474908	processed_transcript	KNOWN	None	18344	None	None	35812957	35815349	-1	None	None
9	HINT2	ENSG00000137133	ENST00000474848	processed_transcript	KNOWN	None	18344	None	None	35812957	35815351	-1	None	None
9	HINT2	ENSG00000137133	ENST00000471774	processed_transcript	KNOWN	None	18344	None	None	35812958	35813691	-1	None	None
9	HINT2	ENSG00000137133	ENST00000461169	processed_transcript	KNOWN	None	18344	None	None	35812971	35815018	-1	None	None
1	PRAMEF22	ENSG00000204508	ENST00000376187	protein_coding	KNOWN	CCDS41256	34393	1446	481	13035543	13038381	1	None	PRAMEF3L
HSCHR6_MHC_MANN	TAP2	ENSG00000206235	ENST00000383119	protein_coding	KNOWN	None	44	1962	653	32943409	32960304	-1	ABCB3	PSF2, RING11, D6S217E
HSCHR6_MHC_MANN	TAP2	ENSG00000206235	ENST00000383118	protein_coding	KNOWN	None	44	2061	686	32946990	32960357	-1	ABCB3	PSF2, RING11, D6S217E
HSCHR6_MHC_MANN	TAP2	ENSG00000206235	ENST00000495722	retained_intron	KNOWN	None	44	None	None	32950519	32952302	-1	ABCB3	PSF2, RING11, D6S217E
HSCHR6_MHC_MANN	TAP2	ENSG00000206235	ENST00000474736	processed_transcript	PUTATIVE	None	44	None	None	32953870	32954308	-1	ABCB3	PSF2, RING11, D6S217E
5	CCDC69	ENSG00000198624	ENST00000521308	processed_transcript	KNOWN	None	24487	None	None	150560613	150603654	-1	None	FLJ13705, DKFZP434C171
5	CCDC69	ENSG00000198624	ENST00000355417	protein_coding	KNOWN	CCDS4312	24487	891	296	150560613	150603706	-1	None	FLJ13705, DKFZP434C171
5	CCDC69	ENSG00000198624	ENST00000519448	retained_intron	KNOWN	None	24487	None	None	150560796	150564776	-1	None	FLJ13705, DKFZP434C171
5	CCDC69	ENSG00000198624	ENST00000518189	nonsense_mediated_decay	KNOWN	None	24487	560	185	150560954	150585038	-1	None	FLJ13705, DKFZP434C171
5	CCDC69	ENSG00000198624	ENST00000522964	nonsense_mediated_decay	KNOWN	None	24487	267	88	150564983	150585036	-1	None	FLJ13705, DKFZP434C171
5	CCDC69	ENSG00000198624	ENST00000524344	retained_intron	KNOWN	None	24487	None	None	150578403	150585036	-1	None	FLJ13705, DKFZP434C171
5	CCDC69	ENSG00000198624	ENST00000522179	processed_transcript	KNOWN	None	24487	None	None	150584961	150590706	-1	None	FLJ13705, DKFZP434C171
5	CCDC69	ENSG00000198624	ENST00000519740	nonsense_mediated_decay	KNOWN	None	24487	144	47	150595127	150603653	-1	None	FLJ13705, DKFZP434C171
17	KRTAP4-3	ENSG00000196156	ENST00000391356	protein_coding	KNOWN	CCDS42331	18908	588	195	39323484	39324424	-1	None	KAP4.3
4	None	ENSG00000249278	ENST00000513916	processed_pseudogene	KNOWN	None	None	None	None	77430437	77430872	-1	None	None
X	None	ENSG00000234404	ENST00000443861	processed_pseudogene	KNOWN	None	None	None	None	76594675	76601782	1	None	None
6	HLA-Z	ENSG00000235301	ENST00000434920	unprocessed_pseudogene	KNOWN	None	19394	None	None	32864193	32864267	1	None	HLA-Z1
17	KRTAP4-2	ENSG00000244537	ENST00000377726	protein_coding	KNOWN	CCDS11384	18900	411	136	39333698	39334460	-1	None	KAP4.2
4	UNC93B4	ENSG00000250381	ENST00000505679	unprocessed_pseudogene	KNOWN	None	13484	None	None	4145185	4152148	-1	None	None
19	EPS8L1	ENSG00000131037	ENST00000586329	protein_coding	NOVEL	None	21295	1647	548	55583388	55599287	1	None	FLJ20258, DRC3, MGC23164, MGC4642
19	EPS8L1	ENSG00000131037	ENST00000592824	processed_transcript	KNOWN	None	21295	None	None	55587221	55595353	1	None	FLJ20258, DRC3, MGC23164, MGC4642
19	EPS8L1	ENSG00000131037	ENST00000591219	retained_intron	KNOWN	None	21295	None	None	55587256	55591744	1	None	FLJ20258, DRC3, MGC23164, MGC4642
19	EPS8L1	ENSG00000131037	ENST00000201647	protein_coding	KNOWN	CCDS12914	21295	2172	723	55587269	55599290	1	None	FLJ20258, DRC3, MGC23164, MGC4642
19	EPS8L1	ENSG00000131037	ENST00000540810	protein_coding	NOVEL	None	21295	1980	659	55587271	55599216	1	None	FLJ20258, DRC3, MGC23164, MGC4642
19	EPS8L1	ENSG00000131037	ENST00000587786	nonsense_mediated_decay	KNOWN	None	21295	1287	428	55587724	55597260	1	None	FLJ20258, DRC3, MGC23164, MGC4642
19	EPS8L1	ENSG00000131037	ENST00000592318	retained_intron	KNOWN	None	21295	None	None	55590953	55591551	1	None	FLJ20258, DRC3, MGC23164, MGC4642
19	EPS8L1	ENSG00000131037	ENST00000588359	protein_coding	NOVEL	None	21295	1230	409	55591760	55599057	1	None	FLJ20258, DRC3, MGC23164, MGC4642
19	EPS8L1	ENSG00000131037	ENST00000245618	protein_coding	KNOWN	CCDS12915	21295	1791	596	55591760	55599287	1	None	FLJ20258, DRC3, MGC23164, MGC4642
19	EPS8L1	ENSG00000131037	ENST00000592044	retained_intron	KNOWN	None	21295	None	None	55591805	55592695	1	None	FLJ20258, DRC3, MGC23164, MGC4642
19	EPS8L1	ENSG00000131037	ENST00000590232	retained_intron	KNOWN	None	21295	None	None	55592400	55593242	1	None	FLJ20258, DRC3, MGC23164, MGC4642
19	EPS8L1	ENSG00000131037	ENST00000590610	retained_intron	KNOWN	None	21295	None	None	55593060	55594772	1	None	FLJ20258, DRC3, MGC23164, MGC4642
19	EPS8L1	ENSG00000131037	ENST00000592284	retained_intron	KNOWN	None	21295	None	None	55593061	55594848	1	None	FLJ20258, DRC3, MGC23164, MGC4642
19	EPS8L1	ENSG00000131037	ENST00000592102	retained_intron	KNOWN	None	21295	None	None	55593061	55599290	1	None	FLJ20258, DRC3, MGC23164, MGC4642
19	EPS8L1	ENSG00000131037	ENST00000589362	retained_intron	KNOWN	None	21295	None	None	55593306	55599291	1	None	FLJ20258, DRC3, MGC23164, MGC4642
19	EPS8L1	ENSG00000131037	ENST00000585347	processed_transcript	KNOWN	None	21295	None	None	55595833	55597803	1	None	FLJ20258, DRC3, MGC23164, MGC4642
19	EPS8L1	ENSG00000131037	ENST00000589694	retained_intron	KNOWN	None	21295	None	None	55597063	55597560	1	None	FLJ20258, DRC3, MGC23164, MGC4642
19	EPS8L1	ENSG00000131037	ENST00000587901	processed_transcript	KNOWN	None	21295	None	None	55598145	55599288	1	None	FLJ20258, DRC3, MGC23164, MGC4642
19	EPS8L1	ENSG00000131037	ENST00000587715	retained_intron	KNOWN	None	21295	None	None	55598437	55599273	1	None	FLJ20258, DRC3, MGC23164, MGC4642
4	RNU6-145P	ENSG00000207307	ENST00000384577	snRNA	KNOWN	None	47108	None	None	77453375	77453480	-1	None	None
X	TXLNG	ENSG00000086712	ENST00000380122	protein_coding	KNOWN	CCDS14178	18578	1587	528	16804550	16862642	1	CXorf15	FLJ11209, LSR5, FIAT, MGC126621, MGC126625
X	TXLNG	ENSG00000086712	ENST00000485153	processed_transcript	KNOWN	None	18578	None	None	16857960	16862642	1	CXorf15	FLJ11209, LSR5, FIAT, MGC126621, MGC126625
X	TXLNG	ENSG00000086712	ENST00000398155	protein_coding	KNOWN	CCDS55373	18578	1191	396	16804555	16862640	1	CXorf15	FLJ11209, LSR5, FIAT, MGC126621, MGC126625
6	None	ENSG00000212066	ENST00000390777	miRNA	NOVEL	None	None	None	None	32904693	32904787	-1	None	None
4	MIR4450	ENSG00000263445	ENST00000583589	miRNA	KNOWN	None	41725	None	None	77494721	77494785	1	None	hsa-mir-4450
4	OR7E99P	ENSG00000250710	ENST00000505750	unprocessed_pseudogene	KNOWN	None	15059	None	None	4158249	4159170	-1	None	None
9	None	ENSG00000241341	ENST00000433824	processed_pseudogene	KNOWN	None	None	None	None	40712985	40713384	-1	None	None
17	KRTAP4-1	ENSG00000198443	ENST00000398472	protein_coding	KNOWN	None	18907	441	146	39340354	39341594	-1	KRTAP4-10	KAP4.1, KAP4.10
4	MIR548AH	ENSG00000265314	ENST00000580856	miRNA	KNOWN	None	41605	None	None	77496704	77496779	1	None	hsa-mir-548ah
1	None	ENSG00000239810	ENST00000436041	protein_coding	PUTATIVE	None	None	273	90	13052394	13052998	-1	None	None
6	BRD2-IT1	ENSG00000223837	ENST00000415875	sense_intronic	KNOWN	None	41311	None	None	32938009	32938663	1	None	None
9	FAM74A3	ENSG00000204844	ENST00000604146	lincRNA	KNOWN	None	32031	None	None	40715662	40722679	1	None	OTTHUMG00000067149
9	FAM74A3	ENSG00000204844	ENST00000355345	lincRNA	KNOWN	None	32031	None	None	40715849	40716325	1	None	OTTHUMG00000067149
2	PPP1R21	ENSG00000162869	ENST00000431614	nonsense_mediated_decay	KNOWN	None	30595	162	53	48667737	48738607	1	CCDC128, KLRAQ1	FLJ16566
2	PPP1R21	ENSG00000162869	ENST00000416913	nonsense_mediated_decay	KNOWN	None	30595	165	54	48667908	48742524	1	CCDC128, KLRAQ1	FLJ16566
2	PPP1R21	ENSG00000162869	ENST00000281394	protein_coding	KNOWN	CCDS1839	30595	2310	769	48667908	48742525	1	CCDC128, KLRAQ1	FLJ16566
2	PPP1R21	ENSG00000162869	ENST00000294952	protein_coding	KNOWN	CCDS46278	30595	2343	780	48667936	48742525	1	CCDC128, KLRAQ1	FLJ16566
2	PPP1R21	ENSG00000162869	ENST00000421486	protein_coding	PUTATIVE	None	30595	122	39	48668268	48681867	1	CCDC128, KLRAQ1	FLJ16566
2	PPP1R21	ENSG00000162869	ENST00000460299	retained_intron	KNOWN	None	30595	None	None	48692105	48698589	1	CCDC128, KLRAQ1	FLJ16566
2	PPP1R21	ENSG00000162869	ENST00000455978	nonsense_mediated_decay	KNOWN	None	30595	349	115	48698450	48725640	1	CCDC128, KLRAQ1	FLJ16566
2	PPP1R21	ENSG00000162869	ENST00000476199	processed_transcript	KNOWN	None	30595	None	None	48734350	48742525	1	CCDC128, KLRAQ1	FLJ16566
2	PPP1R21	ENSG00000162869	ENST00000449090	protein_coding	KNOWN	CCDS54358	30595	2217	738	48667996	48741947	1	CCDC128, KLRAQ1	FLJ16566
4	OR7E43P	ENSG00000249844	ENST00000503910	unprocessed_pseudogene	KNOWN	None	8417	None	None	4176046	4176965	-1	None	OR4-116
1	None	ENSG00000229571	ENST00000423177	protein_coding	PUTATIVE	None	None	1144	380	13216356	13219581	-1	None	None
17	KRTAP9-1	ENSG00000240542	ENST00000398470	protein_coding	KNOWN	CCDS56029	18912	753	250	39346139	39346891	1	KRTAP9L3	KAP9.1
17	KRTAP9-1	ENSG00000240542	ENST00000377723	protein_coding	KNOWN	None	18912	303	100	39344697	39346855	1	KRTAP9L3	KAP9.1
17	KRTAP9-1	ENSG00000240542	ENST00000318329	protein_coding	KNOWN	None	18912	351	116	39346289	39346891	1	KRTAP9L3	KAP9.1
7	CHST12	ENSG00000136213	ENST00000258711	protein_coding	KNOWN	CCDS5333	17423	1245	414	2443223	2474242	1	None	C4S-2, C4ST2
7	CHST12	ENSG00000136213	ENST00000432336	protein_coding	KNOWN	None	17423	736	244	2443734	2473010	1	None	C4S-2, C4ST2
4	None	ENSG00000248516	ENST00000509015	lincRNA	KNOWN	None	None	None	None	4323689	4335909	1	None	None
7	IKZF1	ENSG00000185811	ENST00000484847	processed_transcript	KNOWN	None	13176	None	None	50343720	50367581	1	ZNFN1A1	hIk-1, LyF-1, Hs.54452, IKAROS
7	IKZF1	ENSG00000185811	ENST00000413698	protein_coding	PUTATIVE	None	13176	525	174	50344324	50437142	1	ZNFN1A1	hIk-1, LyF-1, Hs.54452, IKAROS
7	IKZF1	ENSG00000185811	ENST00000359197	protein_coding	KNOWN	CCDS59055	13176	1434	477	50344378	50470223	1	ZNFN1A1	hIk-1, LyF-1, Hs.54452, IKAROS
7	IKZF1	ENSG00000185811	ENST00000331340	protein_coding	KNOWN	None	13176	1560	519	50344378	50472799	1	ZNFN1A1	hIk-1, LyF-1, Hs.54452, IKAROS
7	IKZF1	ENSG00000185811	ENST00000438033	protein_coding	KNOWN	None	13176	1299	432	50348317	50468574	1	ZNFN1A1	hIk-1, LyF-1, Hs.54452, IKAROS
7	IKZF1	ENSG00000185811	ENST00000439701	protein_coding	KNOWN	CCDS59055	13176	1434	477	50348318	50470264	1	ZNFN1A1	hIk-1, LyF-1, Hs.54452, IKAROS
7	IKZF1	ENSG00000185811	ENST00000492782	processed_transcript	KNOWN	None	13176	None	None	50348344	50437537	1	ZNFN1A1	hIk-1, LyF-1, Hs.54452, IKAROS
7	IKZF1	ENSG00000185811	ENST00000462201	retained_intron	KNOWN	None	13176	None	None	50348350	50445025	1	ZNFN1A1	hIk-1, LyF-1, Hs.54452, IKAROS
7	IKZF1	ENSG00000185811	ENST00000471793	retained_intron	KNOWN	None	13176	None	None	50366975	50468325	1	ZNFN1A1	hIk-1, LyF-1, Hs.54452, IKAROS
7	IKZF1	ENSG00000185811	ENST00000426121	protein_coding	PUTATIVE	None	13176	201	66	50367245	50467707	1	ZNFN1A1	hIk-1, LyF-1, Hs.54452, IKAROS
7	IKZF1	ENSG00000185811	ENST00000492119	processed_transcript	PUTATIVE	None	13176	None	None	50435363	50437402	1	ZNFN1A1	hIk-1, LyF-1, Hs.54452, IKAROS
7	IKZF1	ENSG00000185811	ENST00000357364	protein_coding	KNOWN	None	13176	1299	432	50344378	50472799	1	ZNFN1A1	hIk-1, LyF-1, Hs.54452, IKAROS
7	IKZF1	ENSG00000185811	ENST00000343574	protein_coding	KNOWN	None	13176	1299	432	50344378	50472799	1	ZNFN1A1	hIk-1, LyF-1, Hs.54452, IKAROS
7	IKZF1	ENSG00000185811	ENST00000349824	protein_coding	KNOWN	None	13176	1131	376	50344378	50472799	1	ZNFN1A1	hIk-1, LyF-1, Hs.54452, IKAROS
7	IKZF1	ENSG00000185811	ENST00000346667	protein_coding	KNOWN	None	13176	870	289	50344378	50472799	1	ZNFN1A1	hIk-1, LyF-1, Hs.54452, IKAROS
7	IKZF1	ENSG00000185811	ENST00000440768	protein_coding	KNOWN	None	13176	681	226	50344378	50470223	1	ZNFN1A1	hIk-1, LyF-1, Hs.54452, IKAROS
6	CRISP3	ENSG00000096006	ENST00000263045	protein_coding	KNOWN	CCDS4929	16904	777	258	49695097	49712127	-1	None	SGP28, CRISP-3, CRS3, dJ442L6.3, Aeg2
6	CRISP3	ENSG00000096006	ENST00000371159	protein_coding	NOVEL	None	16904	831	276	49696421	49712099	-1	None	SGP28, CRISP-3, CRS3, dJ442L6.3, Aeg2
6	CRISP3	ENSG00000096006	ENST00000354620	protein_coding	NOVEL	None	16904	575	190	49700923	49712150	-1	None	SGP28, CRISP-3, CRS3, dJ442L6.3, Aeg2
6	CRISP3	ENSG00000096006	ENST00000433368	protein_coding	KNOWN	CCDS55019	16904	807	268	49695115	49712150	-1	None	SGP28, CRISP-3, CRS3, dJ442L6.3, Aeg2
6	CRISP3	ENSG00000096006	ENST00000393666	protein_coding	KNOWN	None	16904	738	245	49695115	49705116	-1	None	SGP28, CRISP-3, CRS3, dJ442L6.3, Aeg2
6	CRISP3	ENSG00000096006	ENST00000423399	protein_coding	KNOWN	None	16904	468	155	49696004	49712088	-1	None	SGP28, CRISP-3, CRS3, dJ442L6.3, Aeg2
19	RFX2	ENSG00000087903	ENST00000303657	protein_coding	KNOWN	CCDS12157	9983	2172	723	5993175	6110545	-1	None	FLJ14226
19	RFX2	ENSG00000087903	ENST00000359161	protein_coding	KNOWN	CCDS12157	9983	2172	723	5993528	6049243	-1	None	FLJ14226
19	RFX2	ENSG00000087903	ENST00000592546	protein_coding	KNOWN	CCDS12158	9983	2097	698	5994513	6110543	-1	None	FLJ14226
19	RFX2	ENSG00000087903	ENST00000590778	retained_intron	KNOWN	None	9983	None	None	5994827	5997384	-1	None	FLJ14226
19	RFX2	ENSG00000087903	ENST00000589340	protein_coding	PUTATIVE	None	9983	538	178	6002733	6008237	-1	None	FLJ14226
19	RFX2	ENSG00000087903	ENST00000589742	protein_coding	PUTATIVE	None	9983	295	97	6007786	6110523	-1	None	FLJ14226
19	RFX2	ENSG00000087903	ENST00000588021	retained_intron	KNOWN	None	9983	None	None	6007877	6026710	-1	None	FLJ14226
19	RFX2	ENSG00000087903	ENST00000592337	processed_transcript	KNOWN	None	9983	None	None	6008200	6023216	-1	None	FLJ14226
19	RFX2	ENSG00000087903	ENST00000586806	protein_coding	PUTATIVE	None	9983	441	146	6010193	6110493	-1	None	FLJ14226
19	RFX2	ENSG00000087903	ENST00000587321	protein_coding	PUTATIVE	None	9983	99	32	6013050	6110491	-1	None	FLJ14226
19	RFX2	ENSG00000087903	ENST00000586302	protein_coding	PUTATIVE	None	9983	507	168	6026174	6110457	-1	None	FLJ14226
19	RFX2	ENSG00000087903	ENST00000592172	processed_transcript	KNOWN	None	9983	None	None	6026207	6110484	-1	None	FLJ14226
19	RFX2	ENSG00000087903	ENST00000586940	processed_transcript	KNOWN	None	9983	None	None	6027175	6110489	-1	None	FLJ14226
19	RFX2	ENSG00000087903	ENST00000592473	protein_coding	PUTATIVE	None	9983	332	109	6040046	6113772	-1	None	FLJ14226
19	RFX2	ENSG00000087903	ENST00000592883	protein_coding	KNOWN	None	9983	428	141	6040085	6199540	-1	None	FLJ14226
19	RFX2	ENSG00000087903	ENST00000593241	protein_coding	PUTATIVE	None	9983	281	92	6040097	6110612	-1	None	FLJ14226
19	RFX2	ENSG00000087903	ENST00000592281	protein_coding	KNOWN	None	9983	316	104	6040197	6057294	-1	None	FLJ14226
19	RFX2	ENSG00000087903	ENST00000587181	protein_coding	KNOWN	None	9983	299	98	6040214	6110487	-1	None	FLJ14226
19	RFX2	ENSG00000087903	ENST00000590822	processed_transcript	KNOWN	None	9983	None	None	6078112	6110479	-1	None	FLJ14226
19	RFX2	ENSG00000087903	ENST00000589712	processed_transcript	KNOWN	None	9983	None	None	6175884	6199574	-1	None	FLJ14226
19	RFX2	ENSG00000087903	ENST00000585324	processed_transcript	KNOWN	None	9983	None	None	6176286	6199535	-1	None	FLJ14226
19	RFX2	ENSG00000087903	ENST00000587700	processed_transcript	KNOWN	None	9983	None	None	6189739	6199540	-1	None	FLJ14226
19	RFX2	ENSG00000087903	ENST00000589523	processed_transcript	KNOWN	None	9983	None	None	6191337	6199518	-1	None	FLJ14226
19	RFX2	ENSG00000087903	ENST00000589641	processed_transcript	KNOWN	None	9983	None	None	6191581	6199583	-1	None	FLJ14226
8	ZNF34	ENSG00000196378	ENST00000343459	protein_coding	KNOWN	CCDS47945	13098	1683	560	145998499	146012689	-1	None	KOX32
8	ZNF34	ENSG00000196378	ENST00000429371	protein_coding	KNOWN	None	13098	1620	539	145998499	146012710	-1	None	KOX32
8	ZNF34	ENSG00000196378	ENST00000527740	retained_intron	KNOWN	None	13098	None	None	145998505	146012692	-1	None	KOX32
8	ZNF34	ENSG00000196378	ENST00000534337	protein_coding	PUTATIVE	None	13098	794	263	145999357	146005667	-1	None	KOX32
8	ZNF34	ENSG00000196378	ENST00000534445	protein_coding	PUTATIVE	None	13098	475	157	145999739	146012730	-1	None	KOX32
9	None	ENSG00000236361	ENST00000445963	lincRNA	KNOWN	None	None	None	None	40740776	40742447	-1	None	None
10	UTF1	ENSG00000171794	ENST00000304477	protein_coding	KNOWN	CCDS31318	12634	1026	341	135043778	135045062	1	None	None
6	None	ENSG00000263756	ENST00000580587	antisense	KNOWN	None	None	None	None	32939842	32940630	-1	None	None
10	WNT8B	ENSG00000075290	ENST00000343737	protein_coding	KNOWN	CCDS7494	12789	1056	351	102222798	102243501	1	None	None
9	None	ENSG00000236931	ENST00000429748	processed_pseudogene	KNOWN	None	None	None	None	40812916	40813390	1	None	None
6	RPL32P1	ENSG00000224796	ENST00000439737	processed_pseudogene	KNOWN	None	10339	None	None	33047228	33047637	1	RPL32P	RPL32-L
1	SYTL1	ENSG00000142765	ENST00000318074	protein_coding	KNOWN	CCDS298	15584	1653	550	27668513	27680421	1	None	SLP1, JFC1, FLJ14996, exophilin-7
1	SYTL1	ENSG00000142765	ENST00000483926	retained_intron	KNOWN	None	15584	None	None	27668548	27680421	1	None	SLP1, JFC1, FLJ14996, exophilin-7
1	SYTL1	ENSG00000142765	ENST00000473280	protein_coding	KNOWN	None	15584	229	75	27669719	27673949	1	None	SLP1, JFC1, FLJ14996, exophilin-7
1	SYTL1	ENSG00000142765	ENST00000490170	processed_transcript	KNOWN	None	15584	None	None	27674035	27680421	1	None	SLP1, JFC1, FLJ14996, exophilin-7
1	SYTL1	ENSG00000142765	ENST00000496001	retained_intron	KNOWN	None	15584	None	None	27675967	27678036	1	None	SLP1, JFC1, FLJ14996, exophilin-7
1	SYTL1	ENSG00000142765	ENST00000485269	retained_intron	KNOWN	None	15584	None	None	27676238	27678070	1	None	SLP1, JFC1, FLJ14996, exophilin-7
1	SYTL1	ENSG00000142765	ENST00000475199	retained_intron	KNOWN	None	15584	None	None	27677963	27680421	1	None	SLP1, JFC1, FLJ14996, exophilin-7
1	SYTL1	ENSG00000142765	ENST00000543823	protein_coding	KNOWN	CCDS53286	15584	1689	562	27671364	27680421	1	None	SLP1, JFC1, FLJ14996, exophilin-7
9	None	ENSG00000265647	ENST00000578641	miRNA	NOVEL	None	None	None	None	112028557	112028655	1	None	None
9	ATP5A1P1	ENSG00000243268	ENST00000440061	processed_pseudogene	KNOWN	None	827	None	None	41028804	41030086	1	ATP5AP1	None
12	UNG	ENSG00000076248	ENST00000242576	protein_coding	KNOWN	CCDS9124	12572	942	313	109535379	109548797	1	DGU	UDG, UNG1, UNG2, HIGM4
12	UNG	ENSG00000076248	ENST00000540158	retained_intron	KNOWN	None	12572	None	None	109535484	109537151	1	DGU	UDG, UNG1, UNG2, HIGM4
12	UNG	ENSG00000076248	ENST00000336865	protein_coding	KNOWN	CCDS9125	12572	915	304	109535923	109548780	1	DGU	UDG, UNG1, UNG2, HIGM4
12	UNG	ENSG00000076248	ENST00000539287	nonsense_mediated_decay	KNOWN	None	12572	777	258	109535953	109548797	1	DGU	UDG, UNG1, UNG2, HIGM4
12	UNG	ENSG00000076248	ENST00000446767	nonsense_mediated_decay	KNOWN	None	12572	426	141	109535956	109548797	1	DGU	UDG, UNG1, UNG2, HIGM4
1	PRAMEF3	ENSG00000204503	ENST00000353410	protein_coding	KNOWN	None	14087	1440	479	13328196	13331692	-1	None	None
1	PRAMEF3	ENSG00000204503	ENST00000376173	protein_coding	KNOWN	None	14087	1446	481	13328196	13331692	-1	None	None
6	HLA-DPA2	ENSG00000231461	ENST00000433582	unprocessed_pseudogene	KNOWN	None	4939	None	None	33059530	33065072	-1	HLA-DP2A	None
9	MTND2P11	ENSG00000237124	ENST00000423638	unprocessed_pseudogene	KNOWN	None	42112	None	None	112062466	112063452	1	None	None
7	None	ENSG00000227017	ENST00000430537	lincRNA	KNOWN	None	None	None	None	30216003	30218630	-1	None	None
1	TOR3A	ENSG00000186283	ENST00000367627	protein_coding	KNOWN	CCDS1329	11997	1194	397	179050512	179065131	1	ADIR	FLJ22345, ADIR2
1	TOR3A	ENSG00000186283	ENST00000367625	protein_coding	KNOWN	None	11997	460	152	179051205	179054990	1	ADIR	FLJ22345, ADIR2
1	TOR3A	ENSG00000186283	ENST00000483887	nonsense_mediated_decay	KNOWN	None	11997	294	97	179051213	179057218	1	ADIR	FLJ22345, ADIR2
1	TOR3A	ENSG00000186283	ENST00000352445	protein_coding	KNOWN	None	11997	1011	336	179051221	179067158	1	ADIR	FLJ22345, ADIR2
1	TOR3A	ENSG00000186283	ENST00000472001	processed_transcript	KNOWN	None	11997	None	None	179051316	179063270	1	ADIR	FLJ22345, ADIR2
1	TOR3A	ENSG00000186283	ENST00000447595	protein_coding	KNOWN	None	11997	523	173	179054507	179063256	1	ADIR	FLJ22345, ADIR2
1	TOR3A	ENSG00000186283	ENST00000495145	processed_transcript	KNOWN	None	11997	None	None	179054933	179057631	1	ADIR	FLJ22345, ADIR2
12	FAM71C	ENSG00000180219	ENST00000324341	protein_coding	KNOWN	CCDS9072	28594	726	241	100041531	100043824	1	None	MGC39520
10	VENTX	ENSG00000151650	ENST00000325980	protein_coding	KNOWN	CCDS7675	13639	777	258	135050908	135055433	1	VENTX2	HPX42B
19	None	ENSG00000220949	ENST00000436907	unprocessed_pseudogene	KNOWN	None	None	None	None	11867348	11870748	-1	None	None
6	RGL2	ENSG00000237441	ENST00000491168	processed_transcript	KNOWN	None	9769	None	None	33259431	33264880	-1	RAB2L	KE1.5, HKE1.5
6	RGL2	ENSG00000237441	ENST00000483151	retained_intron	KNOWN	None	9769	None	None	33259431	33266298	-1	RAB2L	KE1.5, HKE1.5
6	RGL2	ENSG00000237441	ENST00000437840	processed_transcript	KNOWN	None	9769	None	None	33259431	33266707	-1	RAB2L	KE1.5, HKE1.5
6	RGL2	ENSG00000237441	ENST00000497454	protein_coding	KNOWN	CCDS4774	9769	2334	777	33259431	33267101	-1	RAB2L	KE1.5, HKE1.5
6	RGL2	ENSG00000237441	ENST00000471319	processed_transcript	PUTATIVE	None	9769	None	None	33259883	33261707	-1	RAB2L	KE1.5, HKE1.5
6	RGL2	ENSG00000237441	ENST00000476616	retained_intron	KNOWN	None	9769	None	None	33260872	33263400	-1	RAB2L	KE1.5, HKE1.5
6	RGL2	ENSG00000237441	ENST00000478610	retained_intron	KNOWN	None	9769	None	None	33263464	33265763	-1	RAB2L	KE1.5, HKE1.5
6	RGL2	ENSG00000237441	ENST00000494550	retained_intron	KNOWN	None	9769	None	None	33263583	33265770	-1	RAB2L	KE1.5, HKE1.5
6	RGL2	ENSG00000237441	ENST00000485077	processed_transcript	KNOWN	None	9769	None	None	33263876	33265469	-1	RAB2L	KE1.5, HKE1.5
6	RGL2	ENSG00000237441	ENST00000460988	retained_intron	KNOWN	None	9769	None	None	33263934	33265163	-1	RAB2L	KE1.5, HKE1.5
6	RGL2	ENSG00000237441	ENST00000425946	protein_coding	KNOWN	None	9769	440	145	33264221	33266587	-1	RAB2L	KE1.5, HKE1.5
6	RGL2	ENSG00000237441	ENST00000444031	protein_coding	KNOWN	None	9769	1383	460	33261276	33266701	-1	RAB2L	KE1.5, HKE1.5
5	GM2A	ENSG00000196743	ENST00000523466	protein_coding	PUTATIVE	None	4367	438	145	150591711	150646441	1	None	SAP-3
5	GM2A	ENSG00000196743	ENST00000357164	protein_coding	KNOWN	CCDS4313	4367	582	193	150632453	150650001	1	None	SAP-3
5	GM2A	ENSG00000196743	ENST00000523004	protein_coding	PUTATIVE	None	4367	313	103	150639360	150646816	1	None	SAP-3
4	STX18-IT1	ENSG00000248221	ENST00000515487	sense_intronic	KNOWN	None	41415	None	None	4477848	4483427	-1	None	None
7	MIR550A1	ENSG00000207771	ENST00000385037	miRNA	KNOWN	None	32804	None	None	30329410	30329506	1	MIRN550-1, MIR550-1	hsa-mir-550-1
1	PRAMEF5	ENSG00000204502	ENST00000376168	protein_coding	KNOWN	CCDS30596	27995	1431	476	13359819	13369057	1	None	None
9	None	ENSG00000207329	ENST00000384599	misc_RNA	NOVEL	None	None	None	None	112086965	112087076	1	None	None
5	C5orf54	ENSG00000221886	ENST00000408953	protein_coding	KNOWN	CCDS34283	30804	1785	594	159820155	159827104	-1	None	Buster3
5	C5orf54	ENSG00000221886	ENST00000523213	protein_coding	KNOWN	CCDS34283	30804	1785	594	159820535	159827043	-1	None	Buster3
17	KRTAP9-2	ENSG00000239886	ENST00000377721	protein_coding	KNOWN	CCDS32651	16926	525	174	39382900	39383904	1	None	KAP9.2
17	KRTAP9-2	ENSG00000239886	ENST00000455970	protein_coding	KNOWN	None	16926	477	158	39382907	39383431	1	None	KAP9.2
HSCHR6_MHC_MCF	DDX39B	ENSG00000229496	ENST00000460187	retained_intron	KNOWN	None	13917	None	None	31574350	31575874	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MCF	DDX39B	ENSG00000229496	ENST00000482080	nonsense_mediated_decay	KNOWN	None	13917	424	140	31574350	31579605	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MCF	DDX39B	ENSG00000229496	ENST00000430703	protein_coding	KNOWN	None	13917	1278	425	31574350	31584664	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MCF	DDX39B	ENSG00000229496	ENST00000494457	retained_intron	KNOWN	None	13917	None	None	31574350	31586144	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MCF	DDX39B	ENSG00000229496	ENST00000416863	protein_coding	KNOWN	None	13917	1287	428	31574350	31586575	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MCF	DDX39B	ENSG00000229496	ENST00000413678	protein_coding	KNOWN	None	13917	1287	428	31574350	31586575	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MCF	DDX39B	ENSG00000229496	ENST00000414440	protein_coding	KNOWN	None	13917	1287	428	31574350	31590705	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MCF	DDX39B	ENSG00000229496	ENST00000479206	processed_transcript	PUTATIVE	None	13917	None	None	31574374	31575065	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MCF	DDX39B	ENSG00000229496	ENST00000428107	protein_coding	KNOWN	None	13917	561	186	31574909	31578641	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MCF	DDX39B	ENSG00000229496	ENST00000461080	retained_intron	KNOWN	None	13917	None	None	31575246	31575801	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MCF	DDX39B	ENSG00000229496	ENST00000468089	processed_transcript	KNOWN	None	13917	None	None	31575404	31586528	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MCF	DDX39B	ENSG00000229496	ENST00000452792	protein_coding	KNOWN	None	13917	737	244	31575432	31586108	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MCF	DDX39B	ENSG00000229496	ENST00000494835	retained_intron	KNOWN	None	13917	None	None	31576543	31586128	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MCF	DDX39B	ENSG00000229496	ENST00000414088	protein_coding	KNOWN	None	13917	867	288	31576910	31585658	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MCF	DDX39B	ENSG00000229496	ENST00000438433	protein_coding	KNOWN	None	13917	714	237	31579518	31586145	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MCF	DDX39B	ENSG00000229496	ENST00000446909	protein_coding	KNOWN	None	13917	707	234	31579525	31585611	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MCF	DDX39B	ENSG00000229496	ENST00000452908	protein_coding	KNOWN	None	13917	695	230	31579537	31586064	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MCF	DDX39B	ENSG00000229496	ENST00000416183	protein_coding	KNOWN	None	13917	591	196	31580739	31586116	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MCF	DDX39B	ENSG00000229496	ENST00000441479	protein_coding	KNOWN	None	13917	562	186	31580753	31585856	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MCF	DDX39B	ENSG00000229496	ENST00000414881	protein_coding	KNOWN	None	13917	376	124	31582949	31586113	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MCF	DDX39B	ENSG00000229496	ENST00000418760	protein_coding	KNOWN	None	13917	409	135	31582961	31586118	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MCF	DDX39B	ENSG00000229496	ENST00000452163	protein_coding	KNOWN	None	13917	397	131	31583012	31586130	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MCF	DDX39B	ENSG00000229496	ENST00000457900	protein_coding	KNOWN	None	13917	287	94	31583329	31586000	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MCF	DDX39B	ENSG00000229496	ENST00000547489	protein_coding	KNOWN	None	13917	1332	443	31574384	31586113	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MCF	DDX39B	ENSG00000229496	ENST00000551031	protein_coding	KNOWN	None	13917	972	323	31575223	31586113	-1	BAT1	D6S81E, UAP56
9	MIR3927	ENSG00000263861	ENST00000579313	miRNA	KNOWN	None	38901	None	None	112273755	112273825	-1	None	hsa-mir-3927
4	RPS7P15	ENSG00000237170	ENST00000415804	processed_pseudogene	KNOWN	None	48878	None	None	4508805	4509504	1	None	None
16	MT1CP	ENSG00000205360	ENST00000567054	transcribed_unprocessed_pseudogene	KNOWN	None	7395	None	None	56682160	56683426	1	None	None
16	MT1CP	ENSG00000205360	ENST00000379816	unprocessed_pseudogene	KNOWN	None	7395	None	None	56682743	56683426	1	None	None
9	YBX1P6	ENSG00000213539	ENST00000442962	processed_pseudogene	KNOWN	None	42427	None	None	112295110	112296612	-1	None	None
11	ALX4	ENSG00000052850	ENST00000329255	protein_coding	KNOWN	CCDS31468	450	1236	411	44281994	44331716	-1	PFM2	FPP, PFM, KIAA1788
6	COL11A2P1	ENSG00000228688	ENST00000441798	unprocessed_pseudogene	KNOWN	None	13947	None	None	33071571	33075107	-1	COL11A2P	cD0826Q1.1
4	STX18-AS1	ENSG00000247708	ENST00000499430	antisense	KNOWN	None	48877	None	None	4543858	4546634	1	None	LOC100507266
4	STX18-AS1	ENSG00000247708	ENST00000507244	antisense	KNOWN	None	48877	None	None	4543870	4562286	1	None	LOC100507266
4	STX18-AS1	ENSG00000247708	ENST00000512438	antisense	KNOWN	None	48877	None	None	4543926	4592902	1	None	LOC100507266
4	STX18-AS1	ENSG00000247708	ENST00000502693	antisense	KNOWN	None	48877	None	None	4543967	4639631	1	None	LOC100507266
4	STX18-AS1	ENSG00000247708	ENST00000514763	antisense	KNOWN	None	48877	None	None	4544145	4546787	1	None	LOC100507266
7	LFNG	ENSG00000106003	ENST00000402506	protein_coding	PUTATIVE	CCDS55081	6560	927	308	2552163	2568061	1	None	SCDO3
7	LFNG	ENSG00000106003	ENST00000402045	protein_coding	PUTATIVE	CCDS55082	6560	753	250	2557497	2568063	1	None	SCDO3
7	LFNG	ENSG00000106003	ENST00000222725	protein_coding	KNOWN	CCDS34587	6560	1140	379	2559476	2568063	1	None	SCDO3
7	LFNG	ENSG00000106003	ENST00000359574	protein_coding	KNOWN	CCDS34586	6560	1086	361	2559496	2568811	1	None	SCDO3
7	LFNG	ENSG00000106003	ENST00000493850	retained_intron	KNOWN	None	6560	None	None	2563227	2566505	1	None	SCDO3
7	LFNG	ENSG00000106003	ENST00000338732	protein_coding	KNOWN	CCDS55082	6560	753	250	2558188	2568061	1	None	SCDO3
12	HOXC12	ENSG00000123407	ENST00000243103	protein_coding	KNOWN	CCDS8866	5124	849	282	54348618	54352740	1	HOX3, HOX3F, HOC3F	None
11	MUC2	ENSG00000198788	ENST00000441003	protein_coding	KNOWN	None	7512	8454	2817	1074875	1104419	1	None	None
11	MUC2	ENSG00000198788	ENST00000359061	protein_coding	KNOWN	None	7512	5340	1779	1074902	1093653	1	None	None
11	MUC2	ENSG00000198788	ENST00000361558	protein_coding	KNOWN	None	7512	1227	408	1092184	1098828	1	None	None
11	MUC2	ENSG00000198788	ENST00000333592	protein_coding	KNOWN	None	7512	834	277	1093318	1096354	1	None	None
X	FABP5P15	ENSG00000237106	ENST00000453566	processed_pseudogene	KNOWN	None	31071	None	None	76983344	76983557	1	FABP5L15	None
10	NPM1P25	ENSG00000229417	ENST00000429734	processed_pseudogene	KNOWN	None	45204	None	None	97949122	97949975	-1	None	None
11	ANKK1	ENSG00000170209	ENST00000303941	protein_coding	KNOWN	CCDS44734	21027	2298	765	113258513	113271140	1	None	X-kinase
11	ANKK1	ENSG00000170209	ENST00000542948	nonsense_mediated_decay	KNOWN	None	21027	164	53	113264355	113266896	1	None	X-kinase
20	SIRPB1	ENSG00000101307	ENST00000381605	protein_coding	KNOWN	CCDS13019	15928	1197	398	1544167	1600655	-1	None	SIRP-BETA-1, CD172b
20	SIRPB1	ENSG00000101307	ENST00000381603	protein_coding	KNOWN	CCDS42850	15928	546	181	1545029	1600642	-1	None	SIRP-BETA-1, CD172b
20	SIRPB1	ENSG00000101307	ENST00000569629	protein_coding	PUTATIVE	None	15928	177	58	1545851	1592066	-1	None	SIRP-BETA-1, CD172b
20	SIRPB1	ENSG00000101307	ENST00000563840	protein_coding	PUTATIVE	None	15928	468	155	1546876	1569393	-1	None	SIRP-BETA-1, CD172b
20	SIRPB1	ENSG00000101307	ENST00000565076	protein_coding	KNOWN	None	15928	549	182	1551163	1552558	-1	None	SIRP-BETA-1, CD172b
20	SIRPB1	ENSG00000101307	ENST00000565775	processed_transcript	KNOWN	None	15928	None	None	1558796	1600707	-1	None	SIRP-BETA-1, CD172b
20	SIRPB1	ENSG00000101307	ENST00000569387	protein_coding	KNOWN	None	15928	234	77	1577986	1584576	-1	None	SIRP-BETA-1, CD172b
20	SIRPB1	ENSG00000101307	ENST00000566055	protein_coding	KNOWN	None	15928	234	77	1577986	1584576	-1	None	SIRP-BETA-1, CD172b
20	SIRPB1	ENSG00000101307	ENST00000565087	protein_coding	KNOWN	None	15928	234	77	1577986	1584576	-1	None	SIRP-BETA-1, CD172b
20	SIRPB1	ENSG00000101307	ENST00000565230	nonsense_mediated_decay	KNOWN	None	15928	395	130	1577986	1584788	-1	None	SIRP-BETA-1, CD172b
20	SIRPB1	ENSG00000101307	ENST00000562014	protein_coding	KNOWN	None	15928	711	236	1577986	1585652	-1	None	SIRP-BETA-1, CD172b
20	SIRPB1	ENSG00000101307	ENST00000279477	protein_coding	KNOWN	CCDS46571	15928	1197	398	1577986	1600655	-1	None	SIRP-BETA-1, CD172b
20	SIRPB1	ENSG00000101307	ENST00000568365	protein_coding	NOVEL	CCDS46571	15928	1197	398	1578393	1600655	-1	None	SIRP-BETA-1, CD172b
20	SIRPB1	ENSG00000101307	ENST00000381596	processed_transcript	KNOWN	None	15928	None	None	1585621	1600632	-1	None	SIRP-BETA-1, CD172b
20	SIRPB1	ENSG00000101307	ENST00000262929	protein_coding	KNOWN	None	15928	543	180	1545030	1569278	-1	None	SIRP-BETA-1, CD172b
5	None	ENSG00000264489	ENST00000579227	miRNA	NOVEL	None	None	None	None	91741653	91741744	-1	None	None
1	PRAMEF8	ENSG00000182330	ENST00000357367	protein_coding	KNOWN	CCDS30597	24074	1425	474	13386646	13390765	-1	None	None
12	HOXC11	ENSG00000123388	ENST00000546378	protein_coding	KNOWN	CCDS8867	5123	915	304	54366910	54371427	1	HOX3H	None
12	HOXC11	ENSG00000123388	ENST00000243082	protein_coding	NOVEL	None	5123	1137	378	54366912	54370203	1	HOX3H	None
7	None	ENSG00000235859	ENST00000496846	processed_pseudogene	KNOWN	None	None	None	None	30411124	30412357	1	None	None
7	None	ENSG00000235859	ENST00000541071	processed_pseudogene	KNOWN	None	None	None	None	30410987	30411832	1	None	None
20	PRPF6	ENSG00000101161	ENST00000266079	protein_coding	KNOWN	CCDS13550	15860	2826	941	62612488	62664453	1	C20orf14	TOM, bB152O15.1, ANT-1, U5-102K, Prp6, hPrp6, SNRNP102
20	PRPF6	ENSG00000101161	ENST00000535781	protein_coding	KNOWN	None	15860	2706	901	62612488	62664449	1	C20orf14	TOM, bB152O15.1, ANT-1, U5-102K, Prp6, hPrp6, SNRNP102
5	None	ENSG00000249776	ENST00000512210	lincRNA	KNOWN	None	None	None	None	91745963	91975204	-1	None	None
5	None	ENSG00000249776	ENST00000513779	lincRNA	KNOWN	None	None	None	None	91767910	91996570	-1	None	None
5	None	ENSG00000249776	ENST00000512284	lincRNA	KNOWN	None	None	None	None	91889150	91895740	-1	None	None
1	AKNAD1	ENSG00000162641	ENST00000466413	retained_intron	KNOWN	None	28398	None	None	109358520	109360076	-1	C1orf62	MGC26989
1	AKNAD1	ENSG00000162641	ENST00000370001	protein_coding	KNOWN	CCDS791	28398	2511	836	109358520	109399716	-1	C1orf62	MGC26989
1	AKNAD1	ENSG00000162641	ENST00000474186	nonsense_mediated_decay	KNOWN	None	28398	1959	652	109358523	109400850	-1	C1orf62	MGC26989
1	AKNAD1	ENSG00000162641	ENST00000477908	processed_transcript	KNOWN	None	28398	None	None	109358765	109363200	-1	C1orf62	MGC26989
1	AKNAD1	ENSG00000162641	ENST00000369994	protein_coding	PUTATIVE	None	28398	2169	722	109365679	109395339	-1	C1orf62	MGC26989
1	AKNAD1	ENSG00000162641	ENST00000369995	protein_coding	KNOWN	None	28398	2286	761	109365679	109399706	-1	C1orf62	MGC26989
1	AKNAD1	ENSG00000162641	ENST00000461774	nonsense_mediated_decay	KNOWN	None	28398	1710	569	109365682	109399698	-1	C1orf62	MGC26989
1	AKNAD1	ENSG00000162641	ENST00000603450	retained_intron	KNOWN	None	28398	None	None	109365898	109373356	-1	C1orf62	MGC26989
1	AKNAD1	ENSG00000162641	ENST00000472781	nonsense_mediated_decay	KNOWN	None	28398	1248	415	109379346	109399706	-1	C1orf62	MGC26989
1	AKNAD1	ENSG00000162641	ENST00000357393	protein_coding	KNOWN	None	28398	1332	443	109365461	109506106	-1	C1orf62	MGC26989
19	None	ENSG00000267646	ENST00000589227	antisense	KNOWN	None	None	None	None	11906899	11909413	-1	None	None
17	CDRT15L2	ENSG00000214819	ENST00000399044	protein_coding	KNOWN	CCDS54096	34075	846	281	20483037	20484224	1	None	None
19	None	ENSG00000267089	ENST00000585694	lincRNA	KNOWN	None	None	None	None	11952056	11953254	-1	None	None
19	AP3D1	ENSG00000065000	ENST00000589223	retained_intron	KNOWN	None	568	None	None	2100988	2112405	-1	None	ADTD
19	AP3D1	ENSG00000065000	ENST00000355272	protein_coding	KNOWN	CCDS58638	568	3648	1215	2100993	2151540	-1	None	ADTD
19	AP3D1	ENSG00000065000	ENST00000585652	retained_intron	KNOWN	None	568	None	None	2100994	2112822	-1	None	ADTD
19	AP3D1	ENSG00000065000	ENST00000345016	protein_coding	KNOWN	CCDS42459	568	3462	1153	2100995	2151565	-1	None	ADTD
19	AP3D1	ENSG00000065000	ENST00000591650	retained_intron	KNOWN	None	568	None	None	2101620	2111505	-1	None	ADTD
19	AP3D1	ENSG00000065000	ENST00000589369	protein_coding	PUTATIVE	None	568	581	192	2108686	2110804	-1	None	ADTD
19	AP3D1	ENSG00000065000	ENST00000586370	protein_coding	PUTATIVE	None	568	466	154	2108686	2110881	-1	None	ADTD
19	AP3D1	ENSG00000065000	ENST00000592488	retained_intron	KNOWN	None	568	None	None	2112859	2114238	-1	None	ADTD
19	AP3D1	ENSG00000065000	ENST00000591631	retained_intron	KNOWN	None	568	None	None	2115346	2118837	-1	None	ADTD
19	AP3D1	ENSG00000065000	ENST00000586177	retained_intron	KNOWN	None	568	None	None	2116766	2118625	-1	None	ADTD
19	AP3D1	ENSG00000065000	ENST00000590683	processed_transcript	KNOWN	None	568	None	None	2121048	2129429	-1	None	ADTD
19	AP3D1	ENSG00000065000	ENST00000591284	processed_transcript	KNOWN	None	568	None	None	2132467	2164464	-1	None	ADTD
19	AP3D1	ENSG00000065000	ENST00000356926	protein_coding	KNOWN	None	568	3339	1112	2100993	2151556	-1	None	ADTD
19	AP3D1	ENSG00000065000	ENST00000350812	protein_coding	KNOWN	None	568	2955	984	2100995	2151539	-1	None	ADTD
8	LRP12	ENSG00000147650	ENST00000424843	protein_coding	KNOWN	CCDS47907	31708	2523	840	105501459	105601252	-1	None	ST7, FLJ12929
8	LRP12	ENSG00000147650	ENST00000276654	protein_coding	NOVEL	CCDS6303	31708	2580	859	105501478	105601234	-1	None	ST7, FLJ12929
8	LRP12	ENSG00000147650	ENST00000518375	processed_transcript	PUTATIVE	None	31708	None	None	105501484	105508370	-1	None	ST7, FLJ12929
8	LRP12	ENSG00000147650	ENST00000523007	protein_coding	PUTATIVE	None	31708	602	199	105503646	105509833	-1	None	ST7, FLJ12929
8	LRP12	ENSG00000147650	ENST00000522046	processed_transcript	PUTATIVE	None	31708	None	None	105503649	105507978	-1	None	ST7, FLJ12929
8	LRP12	ENSG00000147650	ENST00000520770	processed_transcript	KNOWN	None	31708	None	None	105509982	105601237	-1	None	ST7, FLJ12929
8	LRP12	ENSG00000147650	ENST00000519675	retained_intron	KNOWN	None	31708	None	None	105516472	105601223	-1	None	ST7, FLJ12929
10	None	ENSG00000228027	ENST00000437825	antisense	KNOWN	None	None	None	None	11052127	11053082	-1	None	None
12	HOXC10	ENSG00000180818	ENST00000515593	protein_coding	PUTATIVE	None	5122	382	126	54378849	54379761	1	HOX3I	None
12	HOXC10	ENSG00000180818	ENST00000303460	protein_coding	KNOWN	CCDS8868	5122	1029	342	54378970	54384063	1	HOX3I	None
12	HOXC10	ENSG00000180818	ENST00000511575	processed_transcript	KNOWN	None	5122	None	None	54379916	54383777	1	HOX3I	None
12	HOXC10	ENSG00000180818	ENST00000514415	processed_transcript	PUTATIVE	None	5122	None	None	54380122	54383459	1	HOX3I	None
12	HOXC10	ENSG00000180818	ENST00000513413	processed_transcript	PUTATIVE	None	5122	None	None	54380214	54383494	1	HOX3I	None
17	CCDC144NL	ENSG00000205212	ENST00000539484	processed_transcript	KNOWN	None	33735	None	None	20739760	20771521	-1	None	MGC87631
17	CCDC144NL	ENSG00000205212	ENST00000327925	protein_coding	KNOWN	CCDS32591	33735	666	221	20766708	20799453	-1	None	MGC87631
17	CCDC144NL	ENSG00000205212	ENST00000539177	processed_transcript	KNOWN	None	33735	None	None	20769976	20771538	-1	None	MGC87631
5	PCDH1	ENSG00000156453	ENST00000503492	protein_coding	PUTATIVE	None	8655	1149	382	141232938	141257974	-1	None	pc42
5	PCDH1	ENSG00000156453	ENST00000287008	protein_coding	KNOWN	CCDS4267	8655	3714	1237	141232939	141257975	-1	None	pc42
5	PCDH1	ENSG00000156453	ENST00000394536	protein_coding	KNOWN	CCDS43375	8655	3183	1060	141242217	141257967	-1	None	pc42
5	PCDH1	ENSG00000156453	ENST00000511044	processed_transcript	KNOWN	None	8655	None	None	141242450	141245767	-1	None	pc42
5	PCDH1	ENSG00000156453	ENST00000515351	nonsense_mediated_decay	KNOWN	None	8655	52	16	141242578	141248140	-1	None	pc42
5	PCDH1	ENSG00000156453	ENST00000357517	protein_coding	PUTATIVE	None	8655	3216	1071	141242622	141249154	-1	None	pc42
5	PCDH1	ENSG00000156453	ENST00000505937	nonsense_mediated_decay	KNOWN	None	8655	380	125	141244600	141248447	-1	None	pc42
5	PCDH1	ENSG00000156453	ENST00000514773	protein_coding	PUTATIVE	None	8655	452	149	141248519	141258811	-1	None	pc42
5	PCDH1	ENSG00000156453	ENST00000456271	protein_coding	KNOWN	None	8655	3147	1048	141242218	141257954	-1	None	pc42
5	PCDH1	ENSG00000156453	ENST00000536585	protein_coding	KNOWN	None	8655	3117	1038	141242622	141249154	-1	None	pc42
5	PCDHB1	ENSG00000171815	ENST00000306549	protein_coding	KNOWN	CCDS4243	8680	2457	818	140430979	140433512	1	None	PCDH-BETA1
3	APOD	ENSG00000189058	ENST00000343267	protein_coding	KNOWN	CCDS33925	612	570	189	195295573	195311076	-1	None	None
3	APOD	ENSG00000189058	ENST00000458447	nonsense_mediated_decay	KNOWN	None	612	327	108	195295624	195310825	-1	None	None
3	APOD	ENSG00000189058	ENST00000421243	protein_coding	PUTATIVE	None	612	646	214	195295779	195310811	-1	None	None
3	APOD	ENSG00000189058	ENST00000453131	protein_coding	KNOWN	None	612	448	148	195295893	195310811	-1	None	None
3	APOD	ENSG00000189058	ENST00000463719	retained_intron	KNOWN	None	612	None	None	195297462	195310904	-1	None	None
1	PRAMEF9	ENSG00000204501	ENST00000376152	protein_coding	KNOWN	CCDS30598	27996	1437	478	13421176	13428191	1	None	None
3	GOLGB1	ENSG00000173230	ENST00000340645	protein_coding	KNOWN	CCDS3004	4429	9780	3259	121382046	121468602	-1	None	GCP, GCP372, giantin, GOLIM1
3	GOLGB1	ENSG00000173230	ENST00000393667	protein_coding	NOVEL	CCDS58847	4429	9810	3269	121382050	121468587	-1	None	GCP, GCP372, giantin, GOLIM1
3	GOLGB1	ENSG00000173230	ENST00000482512	nonsense_mediated_decay	KNOWN	None	4429	120	39	121382948	121468569	-1	None	GCP, GCP372, giantin, GOLIM1
3	GOLGB1	ENSG00000173230	ENST00000491690	nonsense_mediated_decay	KNOWN	None	4429	330	109	121383377	121395877	-1	None	GCP, GCP372, giantin, GOLIM1
3	GOLGB1	ENSG00000173230	ENST00000494517	protein_coding	NOVEL	None	4429	4922	1639	121414325	121468513	-1	None	GCP, GCP372, giantin, GOLIM1
3	GOLGB1	ENSG00000173230	ENST00000489400	protein_coding	NOVEL	None	4429	3093	1030	121415874	121448797	-1	None	GCP, GCP372, giantin, GOLIM1
3	GOLGB1	ENSG00000173230	ENST00000472829	processed_transcript	KNOWN	None	4429	None	None	121447975	121449063	-1	None	GCP, GCP372, giantin, GOLIM1
3	GOLGB1	ENSG00000173230	ENST00000472475	protein_coding	KNOWN	None	4429	124	40	121448837	121468010	-1	None	GCP, GCP372, giantin, GOLIM1
10	None	ENSG00000229206	ENST00000428853	sense_intronic	KNOWN	None	None	None	None	11072297	11072831	1	None	None
21	PRDM15	ENSG00000141956	ENST00000470586	processed_transcript	PUTATIVE	None	13999	None	None	43218385	43230822	-1	ZNF298, C21orf83	None
21	PRDM15	ENSG00000141956	ENST00000486812	retained_intron	KNOWN	None	13999	None	None	43218385	43235318	-1	ZNF298, C21orf83	None
21	PRDM15	ENSG00000141956	ENST00000447016	nonsense_mediated_decay	KNOWN	None	13999	3426	1141	43218385	43283411	-1	ZNF298, C21orf83	None
21	PRDM15	ENSG00000141956	ENST00000422911	protein_coding	NOVEL	None	13999	3597	1198	43218385	43299582	-1	ZNF298, C21orf83	None
21	PRDM15	ENSG00000141956	ENST00000441787	nonsense_mediated_decay	KNOWN	None	13999	1437	478	43218385	43299582	-1	ZNF298, C21orf83	None
21	PRDM15	ENSG00000141956	ENST00000449395	nonsense_mediated_decay	KNOWN	None	13999	1668	555	43218385	43299582	-1	ZNF298, C21orf83	None
21	PRDM15	ENSG00000141956	ENST00000398548	protein_coding	KNOWN	CCDS42932	13999	3537	1178	43218385	43299582	-1	ZNF298, C21orf83	None
21	PRDM15	ENSG00000141956	ENST00000433067	nonsense_mediated_decay	KNOWN	CCDS13676	13999	4524	1507	43218385	43299591	-1	ZNF298, C21orf83	None
21	PRDM15	ENSG00000141956	ENST00000465955	processed_transcript	PUTATIVE	None	13999	None	None	43221788	43223278	-1	ZNF298, C21orf83	None
21	PRDM15	ENSG00000141956	ENST00000477633	processed_transcript	PUTATIVE	None	13999	None	None	43221817	43224883	-1	ZNF298, C21orf83	None
21	PRDM15	ENSG00000141956	ENST00000495217	processed_transcript	PUTATIVE	None	13999	None	None	43223054	43240139	-1	ZNF298, C21orf83	None
21	PRDM15	ENSG00000141956	ENST00000491486	processed_transcript	KNOWN	None	13999	None	None	43241547	43255627	-1	ZNF298, C21orf83	None
21	PRDM15	ENSG00000141956	ENST00000489661	retained_intron	KNOWN	None	13999	None	None	43246333	43257003	-1	ZNF298, C21orf83	None
21	PRDM15	ENSG00000141956	ENST00000496124	processed_transcript	KNOWN	None	13999	None	None	43248677	43257041	-1	ZNF298, C21orf83	None
21	PRDM15	ENSG00000141956	ENST00000269844	protein_coding	KNOWN	CCDS13676	13999	4524	1507	43221325	43299591	-1	ZNF298, C21orf83	None
21	PRDM15	ENSG00000141956	ENST00000538201	protein_coding	KNOWN	None	13999	3486	1161	43218387	43299582	-1	ZNF298, C21orf83	None
21	PRDM15	ENSG00000141956	ENST00000447207	protein_coding	KNOWN	None	13999	3426	1141	43218387	43280487	-1	ZNF298, C21orf83	None
5	None	ENSG00000249169	ENST00000512237	lincRNA	KNOWN	None	None	None	None	91990555	92006441	1	None	None
5	None	ENSG00000249169	ENST00000513812	lincRNA	KNOWN	None	None	None	None	92005577	92014848	1	None	None
5	ANKH	ENSG00000154122	ENST00000284268	protein_coding	KNOWN	CCDS3885	15492	1479	492	14704913	14871887	-1	CCAL2, CMDJ	HANK, ANK, CPPDD
5	ANKH	ENSG00000154122	ENST00000502585	retained_intron	KNOWN	None	15492	None	None	14711197	14717197	-1	CCAL2, CMDJ	HANK, ANK, CPPDD
5	ANKH	ENSG00000154122	ENST00000503939	processed_transcript	KNOWN	None	15492	None	None	14741401	14755997	-1	CCAL2, CMDJ	HANK, ANK, CPPDD
5	ANKH	ENSG00000154122	ENST00000515517	retained_intron	KNOWN	None	15492	None	None	14741566	14749336	-1	CCAL2, CMDJ	HANK, ANK, CPPDD
5	ANKH	ENSG00000154122	ENST00000513115	retained_intron	KNOWN	None	15492	None	None	14768725	14871581	-1	CCAL2, CMDJ	HANK, ANK, CPPDD
5	ANKH	ENSG00000154122	ENST00000503389	processed_transcript	KNOWN	None	15492	None	None	14769116	14788326	-1	CCAL2, CMDJ	HANK, ANK, CPPDD
5	ANKH	ENSG00000154122	ENST00000505140	nonsense_mediated_decay	KNOWN	None	15492	381	126	14868818	14871835	-1	CCAL2, CMDJ	HANK, ANK, CPPDD
5	ANKH	ENSG00000154122	ENST00000535119	protein_coding	KNOWN	None	15492	885	294	14704910	14751320	-1	CCAL2, CMDJ	HANK, ANK, CPPDD
19	ZNF587	ENSG00000198466	ENST00000339656	protein_coding	KNOWN	CCDS12964	30955	1728	575	58361225	58376480	1	None	ZF6, FLJ14710, UBF-fl, FLJ20813
19	ZNF587	ENSG00000198466	ENST00000484707	processed_transcript	PUTATIVE	None	30955	None	None	58361228	58365476	1	None	ZF6, FLJ14710, UBF-fl, FLJ20813
19	ZNF587	ENSG00000198466	ENST00000423137	protein_coding	NOVEL	CCDS56110	30955	1725	574	58361228	58371578	1	None	ZF6, FLJ14710, UBF-fl, FLJ20813
19	ZNF587	ENSG00000198466	ENST00000419854	protein_coding	NOVEL	None	30955	1599	532	58367337	58375409	1	None	ZF6, FLJ14710, UBF-fl, FLJ20813
19	ZNF587	ENSG00000198466	ENST00000596433	processed_transcript	PUTATIVE	None	30955	None	None	58372653	58373526	1	None	ZF6, FLJ14710, UBF-fl, FLJ20813
16	None	ENSG00000260803	ENST00000568710	processed_transcript	KNOWN	None	None	None	None	67514	85195	-1	None	None
12	PXN	ENSG00000089159	ENST00000458477	protein_coding	KNOWN	CCDS44998	9718	1275	424	120648250	120687964	-1	None	None
12	PXN	ENSG00000089159	ENST00000228307	protein_coding	KNOWN	CCDS44997	9718	1776	591	120648250	120703574	-1	None	None
12	PXN	ENSG00000089159	ENST00000424649	protein_coding	KNOWN	CCDS44996	9718	1674	557	120648250	120703574	-1	None	None
12	PXN	ENSG00000089159	ENST00000536957	protein_coding	PUTATIVE	None	9718	1770	589	120648251	120664647	-1	None	None
12	PXN	ENSG00000089159	ENST00000323871	retained_intron	KNOWN	None	9718	None	None	120648254	120703521	-1	None	None
12	PXN	ENSG00000089159	ENST00000538144	processed_transcript	KNOWN	None	9718	None	None	120650117	120662180	-1	None	None
12	PXN	ENSG00000089159	ENST00000550795	protein_coding	PUTATIVE	None	9718	513	170	120652639	120653809	-1	None	None
12	PXN	ENSG00000089159	ENST00000547983	nonsense_mediated_decay	KNOWN	None	9718	276	91	120659446	120703540	-1	None	None
12	PXN	ENSG00000089159	ENST00000551327	processed_transcript	KNOWN	None	9718	None	None	120660479	120686551	-1	None	None
12	PXN	ENSG00000089159	ENST00000543331	protein_coding	PUTATIVE	None	9718	530	175	120660520	120664598	-1	None	None
12	PXN	ENSG00000089159	ENST00000546532	protein_coding	PUTATIVE	None	9718	111	36	120660537	120663858	-1	None	None
12	PXN	ENSG00000089159	ENST00000548912	protein_coding	PUTATIVE	None	9718	108	35	120660540	120663872	-1	None	None
12	PXN	ENSG00000089159	ENST00000552550	protein_coding	PUTATIVE	None	9718	94	30	120660666	120662553	-1	None	None
12	PXN	ENSG00000089159	ENST00000440827	processed_transcript	KNOWN	None	9718	None	None	120661523	120703509	-1	None	None
12	PXN	ENSG00000089159	ENST00000547746	processed_transcript	KNOWN	None	9718	None	None	120661957	120703495	-1	None	None
12	PXN	ENSG00000089159	ENST00000540221	processed_transcript	PUTATIVE	None	9718	None	None	120661978	120664302	-1	None	None
12	PXN	ENSG00000089159	ENST00000550205	processed_transcript	PUTATIVE	None	9718	None	None	120664409	120686553	-1	None	None
12	PXN	ENSG00000089159	ENST00000547772	processed_transcript	PUTATIVE	None	9718	None	None	120664458	120703540	-1	None	None
12	PXN	ENSG00000089159	ENST00000267257	protein_coding	KNOWN	CCDS58281	9718	1818	605	120648251	120703563	-1	None	None
12	PXN	ENSG00000089159	ENST00000397506	protein_coding	KNOWN	None	9718	1212	403	120648251	120657181	-1	None	None
5	PCDHB2	ENSG00000112852	ENST00000194155	protein_coding	KNOWN	CCDS4244	8687	2397	798	140474227	140476962	1	None	PCDH-BETA2
9	RN7SKP47	ENSG00000202217	ENST00000365347	misc_RNA	KNOWN	None	45771	None	None	77414811	77415138	1	None	None
9	None	ENSG00000270954	ENST00000605848	processed_pseudogene	KNOWN	None	None	None	None	77419389	77419689	1	None	None
4	SEC31A	ENSG00000138674	ENST00000503937	protein_coding	NOVEL	None	17052	1151	382	83739814	83765613	-1	SEC31L1	KIAA0905, ABP125, ABP130
4	SEC31A	ENSG00000138674	ENST00000348405	protein_coding	KNOWN	CCDS3597	17052	3546	1181	83739814	83812289	-1	SEC31L1	KIAA0905, ABP125, ABP130
4	SEC31A	ENSG00000138674	ENST00000513858	protein_coding	NOVEL	None	17052	3204	1067	83739814	83812306	-1	SEC31L1	KIAA0905, ABP125, ABP130
4	SEC31A	ENSG00000138674	ENST00000395310	protein_coding	KNOWN	CCDS3596	17052	3663	1220	83739814	83812419	-1	SEC31L1	KIAA0905, ABP125, ABP130
4	SEC31A	ENSG00000138674	ENST00000443462	protein_coding	PUTATIVE	CCDS54773	17052	3603	1200	83739815	83812331	-1	SEC31L1	KIAA0905, ABP125, ABP130
4	SEC31A	ENSG00000138674	ENST00000509142	protein_coding	KNOWN	CCDS43244	17052	3321	1106	83739815	83812367	-1	SEC31L1	KIAA0905, ABP125, ABP130
4	SEC31A	ENSG00000138674	ENST00000505472	protein_coding	NOVEL	None	17052	3756	1251	83739825	83803090	-1	SEC31L1	KIAA0905, ABP125, ABP130
4	SEC31A	ENSG00000138674	ENST00000500777	protein_coding	KNOWN	None	17052	3204	1067	83739825	83803093	-1	SEC31L1	KIAA0905, ABP125, ABP130
4	SEC31A	ENSG00000138674	ENST00000508502	protein_coding	KNOWN	CCDS47088	17052	3618	1205	83740164	83812356	-1	SEC31L1	KIAA0905, ABP125, ABP130
4	SEC31A	ENSG00000138674	ENST00000355196	protein_coding	KNOWN	CCDS3596	17052	3663	1220	83740164	83821691	-1	SEC31L1	KIAA0905, ABP125, ABP130
4	SEC31A	ENSG00000138674	ENST00000515062	protein_coding	NOVEL	None	17052	544	180	83740174	83748765	-1	SEC31L1	KIAA0905, ABP125, ABP130
4	SEC31A	ENSG00000138674	ENST00000264405	protein_coding	KNOWN	None	17052	2910	969	83740175	83793103	-1	SEC31L1	KIAA0905, ABP125, ABP130
4	SEC31A	ENSG00000138674	ENST00000505479	retained_intron	KNOWN	None	17052	None	None	83740191	83742604	-1	SEC31L1	KIAA0905, ABP125, ABP130
4	SEC31A	ENSG00000138674	ENST00000505984	protein_coding	NOVEL	None	17052	3501	1166	83740197	83812301	-1	SEC31L1	KIAA0905, ABP125, ABP130
4	SEC31A	ENSG00000138674	ENST00000511338	protein_coding	NOVEL	None	17052	657	218	83745751	83769996	-1	SEC31L1	KIAA0905, ABP125, ABP130
4	SEC31A	ENSG00000138674	ENST00000514362	retained_intron	KNOWN	None	17052	None	None	83748653	83752514	-1	SEC31L1	KIAA0905, ABP125, ABP130
4	SEC31A	ENSG00000138674	ENST00000515749	retained_intron	KNOWN	None	17052	None	None	83748701	83763977	-1	SEC31L1	KIAA0905, ABP125, ABP130
4	SEC31A	ENSG00000138674	ENST00000509691	retained_intron	KNOWN	None	17052	None	None	83748709	83750566	-1	SEC31L1	KIAA0905, ABP125, ABP130
4	SEC31A	ENSG00000138674	ENST00000508479	protein_coding	PUTATIVE	None	17052	2634	877	83764838	83812306	-1	SEC31L1	KIAA0905, ABP125, ABP130
4	SEC31A	ENSG00000138674	ENST00000507828	protein_coding	NOVEL	None	17052	1329	442	83769979	83788084	-1	SEC31L1	KIAA0905, ABP125, ABP130
4	SEC31A	ENSG00000138674	ENST00000512664	protein_coding	NOVEL	None	17052	710	235	83772667	83785608	-1	SEC31L1	KIAA0905, ABP125, ABP130
4	SEC31A	ENSG00000138674	ENST00000510167	protein_coding	NOVEL	None	17052	857	284	83774784	83785751	-1	SEC31L1	KIAA0905, ABP125, ABP130
4	SEC31A	ENSG00000138674	ENST00000503226	retained_intron	KNOWN	None	17052	None	None	83776059	83779151	-1	SEC31L1	KIAA0905, ABP125, ABP130
4	SEC31A	ENSG00000138674	ENST00000512732	retained_intron	KNOWN	None	17052	None	None	83776103	83782999	-1	SEC31L1	KIAA0905, ABP125, ABP130
4	SEC31A	ENSG00000138674	ENST00000436790	processed_transcript	KNOWN	None	17052	None	None	83784364	83812337	-1	SEC31L1	KIAA0905, ABP125, ABP130
4	SEC31A	ENSG00000138674	ENST00000503058	protein_coding	PUTATIVE	None	17052	706	234	83793086	83812273	-1	SEC31L1	KIAA0905, ABP125, ABP130
4	SEC31A	ENSG00000138674	ENST00000507816	nonsense_mediated_decay	KNOWN	None	17052	279	92	83795851	83812358	-1	SEC31L1	KIAA0905, ABP125, ABP130
4	SEC31A	ENSG00000138674	ENST00000514326	protein_coding	KNOWN	None	17052	498	165	83796880	83812248	-1	SEC31L1	KIAA0905, ABP125, ABP130
4	SEC31A	ENSG00000138674	ENST00000513323	protein_coding	KNOWN	None	17052	494	163	83796884	83812171	-1	SEC31L1	KIAA0905, ABP125, ABP130
4	SEC31A	ENSG00000138674	ENST00000511975	processed_transcript	KNOWN	None	17052	None	None	83796925	83812331	-1	SEC31L1	KIAA0905, ABP125, ABP130
4	SEC31A	ENSG00000138674	ENST00000507340	nonsense_mediated_decay	KNOWN	None	17052	207	68	83796938	83812393	-1	SEC31L1	KIAA0905, ABP125, ABP130
4	SEC31A	ENSG00000138674	ENST00000507867	processed_transcript	KNOWN	None	17052	None	None	83798642	83812331	-1	SEC31L1	KIAA0905, ABP125, ABP130
4	SEC31A	ENSG00000138674	ENST00000506497	processed_transcript	KNOWN	None	17052	None	None	83798710	83812286	-1	SEC31L1	KIAA0905, ABP125, ABP130
4	SEC31A	ENSG00000138674	ENST00000510310	processed_transcript	KNOWN	None	17052	None	None	83799929	83812414	-1	SEC31L1	KIAA0905, ABP125, ABP130
4	SEC31A	ENSG00000138674	ENST00000503210	protein_coding	KNOWN	None	17052	244	80	83800041	83822319	-1	SEC31L1	KIAA0905, ABP125, ABP130
4	SEC31A	ENSG00000138674	ENST00000505434	protein_coding	KNOWN	None	17052	198	65	83801957	83812255	-1	SEC31L1	KIAA0905, ABP125, ABP130
4	SEC31A	ENSG00000138674	ENST00000507676	protein_coding	KNOWN	None	17052	195	64	83801960	83821691	-1	SEC31L1	KIAA0905, ABP125, ABP130
4	SEC31A	ENSG00000138674	ENST00000506495	protein_coding	KNOWN	None	17052	80	25	83803010	83821722	-1	SEC31L1	KIAA0905, ABP125, ABP130
4	SEC31A	ENSG00000138674	ENST00000507051	protein_coding	KNOWN	None	17052	35	10	83803055	83821722	-1	SEC31L1	KIAA0905, ABP125, ABP130
4	SEC31A	ENSG00000138674	ENST00000432794	protein_coding	KNOWN	None	17052	3702	1233	83739815	83812400	-1	SEC31L1	KIAA0905, ABP125, ABP130
4	SEC31A	ENSG00000138674	ENST00000448323	protein_coding	KNOWN	CCDS3596	17052	3663	1220	83739815	83812400	-1	SEC31L1	KIAA0905, ABP125, ABP130
4	SEC31A	ENSG00000138674	ENST00000326950	protein_coding	KNOWN	CCDS3597	17052	3546	1181	83739815	83812400	-1	SEC31L1	KIAA0905, ABP125, ABP130
4	SEC31A	ENSG00000138674	ENST00000311785	protein_coding	KNOWN	CCDS43244	17052	3321	1106	83739815	83812400	-1	SEC31L1	KIAA0905, ABP125, ABP130
7	JHDM1D	ENSG00000006459	ENST00000397560	protein_coding	KNOWN	CCDS43658	22224	2826	941	139784546	139876835	-1	None	KIAA1718
7	JHDM1D	ENSG00000006459	ENST00000472616	nonsense_mediated_decay	KNOWN	None	22224	1214	403	139784655	139818942	-1	None	KIAA1718
7	JHDM1D	ENSG00000006459	ENST00000478996	retained_intron	KNOWN	None	22224	None	None	139790703	139791941	-1	None	KIAA1718
7	JHDM1D	ENSG00000006459	ENST00000006967	protein_coding	KNOWN	None	22224	2430	809	139795456	139876741	-1	None	KIAA1718
9	RNY4P1	ENSG00000252159	ENST00000516350	misc_RNA	KNOWN	None	10245	None	None	77462422	77462517	1	None	hY4.B8
12	UHRF1BP1L	ENSG00000111647	ENST00000548712	protein_coding	PUTATIVE	None	29102	614	203	100422233	100441974	-1	None	KIAA0701
12	UHRF1BP1L	ENSG00000111647	ENST00000279907	protein_coding	KNOWN	CCDS31882	29102	4395	1464	100430854	100536626	-1	None	KIAA0701
12	UHRF1BP1L	ENSG00000111647	ENST00000545232	protein_coding	PUTATIVE	None	29102	3345	1114	100430921	100486726	-1	None	KIAA0701
12	UHRF1BP1L	ENSG00000111647	ENST00000547504	retained_intron	KNOWN	None	29102	None	None	100444043	100445652	-1	None	KIAA0701
12	UHRF1BP1L	ENSG00000111647	ENST00000356828	protein_coding	KNOWN	CCDS31883	29102	1569	522	100463686	100536625	-1	None	KIAA0701
12	UHRF1BP1L	ENSG00000111647	ENST00000548045	protein_coding	PUTATIVE	None	29102	309	102	100466457	100486709	-1	None	KIAA0701
12	UHRF1BP1L	ENSG00000111647	ENST00000551973	protein_coding	PUTATIVE	None	29102	392	129	100466557	100486742	-1	None	KIAA0701
12	UHRF1BP1L	ENSG00000111647	ENST00000550544	protein_coding	PUTATIVE	None	29102	202	66	100466564	100486668	-1	None	KIAA0701
12	UHRF1BP1L	ENSG00000111647	ENST00000551980	protein_coding	PUTATIVE	None	29102	181	59	100478311	100486668	-1	None	KIAA0701
12	UHRF1BP1L	ENSG00000111647	ENST00000547428	nonsense_mediated_decay	KNOWN	None	29102	138	45	100497713	100536602	-1	None	KIAA0701
3	GPR27	ENSG00000170837	ENST00000304411	protein_coding	KNOWN	CCDS2915	4482	1128	375	71803201	71805647	1	None	SREB1
9	RNU6-445P	ENSG00000252758	ENST00000516949	snRNA	KNOWN	None	47408	None	None	77472591	77472697	1	None	None
14	RBM25	ENSG00000119707	ENST00000261973	protein_coding	KNOWN	CCDS32113	23244	2532	843	73525144	73588122	1	RNPC7	S164, fSAP94, NET52, Snu71
14	RBM25	ENSG00000119707	ENST00000527432	protein_coding	KNOWN	CCDS32113	23244	2532	843	73525240	73587099	1	RNPC7	S164, fSAP94, NET52, Snu71
14	RBM25	ENSG00000119707	ENST00000531500	protein_coding	KNOWN	None	23244	729	242	73525241	73563808	1	RNPC7	S164, fSAP94, NET52, Snu71
14	RBM25	ENSG00000119707	ENST00000532683	retained_intron	KNOWN	None	23244	None	None	73525250	73586837	1	RNPC7	S164, fSAP94, NET52, Snu71
14	RBM25	ENSG00000119707	ENST00000525321	protein_coding	KNOWN	None	23244	903	300	73525255	73567887	1	RNPC7	S164, fSAP94, NET52, Snu71
14	RBM25	ENSG00000119707	ENST00000526754	protein_coding	KNOWN	None	23244	885	294	73525257	73567887	1	RNPC7	S164, fSAP94, NET52, Snu71
14	RBM25	ENSG00000119707	ENST00000525161	protein_coding	KNOWN	None	23244	382	126	73525376	73550259	1	RNPC7	S164, fSAP94, NET52, Snu71
14	RBM25	ENSG00000119707	ENST00000528081	nonsense_mediated_decay	KNOWN	None	23244	495	164	73538345	73586937	1	RNPC7	S164, fSAP94, NET52, Snu71
14	RBM25	ENSG00000119707	ENST00000532192	protein_coding	NOVEL	None	23244	221	72	73563744	73567703	1	RNPC7	S164, fSAP94, NET52, Snu71
14	RBM25	ENSG00000119707	ENST00000532483	processed_transcript	PUTATIVE	None	23244	None	None	73572988	73581041	1	RNPC7	S164, fSAP94, NET52, Snu71
14	RBM25	ENSG00000119707	ENST00000527449	retained_intron	KNOWN	None	23244	None	None	73574010	73588021	1	RNPC7	S164, fSAP94, NET52, Snu71
14	RBM25	ENSG00000119707	ENST00000530978	retained_intron	KNOWN	None	23244	None	None	73575839	73577617	1	RNPC7	S164, fSAP94, NET52, Snu71
14	RBM25	ENSG00000119707	ENST00000540173	protein_coding	KNOWN	None	23244	885	294	73525221	73567026	1	RNPC7	S164, fSAP94, NET52, Snu71
9	None	ENSG00000224297	ENST00000414735	processed_pseudogene	KNOWN	None	None	None	None	77550092	77550612	1	None	None
10	CELF2-AS2	ENSG00000237986	ENST00000432370	antisense	KNOWN	None	44703	None	None	11117094	11140436	-1	None	None
10	CELF2-AS2	ENSG00000237986	ENST00000420634	antisense	KNOWN	None	44703	None	None	11139277	11140123	-1	None	None
9	None	ENSG00000236742	ENST00000426439	processed_pseudogene	KNOWN	None	None	None	None	41031936	41032439	1	None	None
11	CD82	ENSG00000085117	ENST00000526958	protein_coding	PUTATIVE	None	6210	483	160	44585977	44636845	1	ST6, KAI1	R2, IA4, TSPAN27
11	CD82	ENSG00000085117	ENST00000227155	protein_coding	KNOWN	CCDS7909	6210	804	267	44587141	44641913	1	ST6, KAI1	R2, IA4, TSPAN27
11	CD82	ENSG00000085117	ENST00000342935	protein_coding	KNOWN	CCDS31469	6210	729	242	44587151	44640676	1	ST6, KAI1	R2, IA4, TSPAN27
11	CD82	ENSG00000085117	ENST00000532544	protein_coding	KNOWN	None	6210	324	107	44587191	44626967	1	ST6, KAI1	R2, IA4, TSPAN27
11	CD82	ENSG00000085117	ENST00000529277	processed_transcript	KNOWN	None	6210	None	None	44587192	44640884	1	ST6, KAI1	R2, IA4, TSPAN27
11	CD82	ENSG00000085117	ENST00000525210	protein_coding	KNOWN	None	6210	115	37	44587213	44621759	1	ST6, KAI1	R2, IA4, TSPAN27
11	CD82	ENSG00000085117	ENST00000525898	retained_intron	KNOWN	None	6210	None	None	44587217	44640933	1	ST6, KAI1	R2, IA4, TSPAN27
11	CD82	ENSG00000085117	ENST00000527737	protein_coding	PUTATIVE	None	6210	537	178	44587230	44626988	1	ST6, KAI1	R2, IA4, TSPAN27
11	CD82	ENSG00000085117	ENST00000524704	protein_coding	KNOWN	None	6210	204	67	44587273	44626675	1	ST6, KAI1	R2, IA4, TSPAN27
11	CD82	ENSG00000085117	ENST00000525813	protein_coding	KNOWN	None	6210	314	103	44594628	44626957	1	ST6, KAI1	R2, IA4, TSPAN27
11	CD82	ENSG00000085117	ENST00000529853	retained_intron	KNOWN	None	6210	None	None	44608782	44616546	1	ST6, KAI1	R2, IA4, TSPAN27
11	CD82	ENSG00000085117	ENST00000530601	protein_coding	PUTATIVE	None	6210	473	156	44618406	44639803	1	ST6, KAI1	R2, IA4, TSPAN27
11	CD82	ENSG00000085117	ENST00000530931	processed_transcript	KNOWN	None	6210	None	None	44625978	44640825	1	ST6, KAI1	R2, IA4, TSPAN27
11	CD82	ENSG00000085117	ENST00000524750	protein_coding	NOVEL	None	6210	174	57	44639820	44641259	1	ST6, KAI1	R2, IA4, TSPAN27
5	None	ENSG00000249984	ENST00000503489	lincRNA	KNOWN	None	None	None	None	92011663	92023961	-1	None	None
10	None	ENSG00000230322	ENST00000417273	antisense	KNOWN	None	None	None	None	11210885	11213339	-1	None	None
10	ADAM8	ENSG00000151651	ENST00000445355	protein_coding	KNOWN	CCDS31319	215	2475	824	135075907	135090372	-1	None	CD156, MS2
10	ADAM8	ENSG00000151651	ENST00000415217	protein_coding	NOVEL	CCDS58103	215	2229	742	135075924	135090354	-1	None	CD156, MS2
10	ADAM8	ENSG00000151651	ENST00000485491	protein_coding	KNOWN	CCDS58102	215	2202	733	135076472	135090372	-1	None	CD156, MS2
10	ADAM8	ENSG00000151651	ENST00000559018	retained_intron	KNOWN	None	215	None	None	135076507	135077369	-1	None	CD156, MS2
10	ADAM8	ENSG00000151651	ENST00000468964	retained_intron	KNOWN	None	215	None	None	135083957	135084929	-1	None	CD156, MS2
10	ADAM8	ENSG00000151651	ENST00000561175	retained_intron	KNOWN	None	215	None	None	135085221	135086080	-1	None	CD156, MS2
10	ADAM8	ENSG00000151651	ENST00000537099	retained_intron	KNOWN	None	215	None	None	135085318	135089498	-1	None	CD156, MS2
10	ADAM8	ENSG00000151651	ENST00000560135	nonsense_mediated_decay	KNOWN	None	215	330	109	135085919	135090367	-1	None	CD156, MS2
10	ADAM8	ENSG00000151651	ENST00000463298	retained_intron	KNOWN	None	215	None	None	135086242	135090360	-1	None	CD156, MS2
10	ADAM8	ENSG00000151651	ENST00000486609	protein_coding	NOVEL	None	215	736	244	135086790	135090361	-1	None	CD156, MS2
10	ADAM8	ENSG00000151651	ENST00000559180	processed_transcript	KNOWN	None	215	None	None	135086809	135090372	-1	None	CD156, MS2
16	WASIR2	ENSG00000231439	ENST00000527434	antisense	KNOWN	None	38609	None	None	72910	75123	1	NCRNA00286A	None
16	WASIR2	ENSG00000231439	ENST00000329244	antisense	KNOWN	None	38609	None	None	72910	75123	1	NCRNA00286A	None
19	None	ENSG00000269476	ENST00000602124	nonsense_mediated_decay	KNOWN	None	None	129	42	58388133	58427959	-1	None	None
2	R3HDM1	ENSG00000048991	ENST00000483021	processed_transcript	KNOWN	None	9757	None	None	136289025	136360240	1	R3HDM	KIAA0029
2	R3HDM1	ENSG00000048991	ENST00000463230	retained_intron	KNOWN	None	9757	None	None	136289043	136364246	1	R3HDM	KIAA0029
2	R3HDM1	ENSG00000048991	ENST00000409478	protein_coding	NOVEL	None	9757	2916	971	136289071	136482836	1	R3HDM	KIAA0029
2	R3HDM1	ENSG00000048991	ENST00000264160	protein_coding	KNOWN	CCDS2177	9757	3300	1099	136289083	136482840	1	R3HDM	KIAA0029
2	R3HDM1	ENSG00000048991	ENST00000438014	protein_coding	PUTATIVE	None	9757	150	49	136289087	136362390	1	R3HDM	KIAA0029
2	R3HDM1	ENSG00000048991	ENST00000488035	processed_transcript	KNOWN	None	9757	None	None	136289097	136389571	1	R3HDM	KIAA0029
2	R3HDM1	ENSG00000048991	ENST00000410054	protein_coding	PUTATIVE	None	9757	3135	1044	136343820	136482838	1	R3HDM	KIAA0029
2	R3HDM1	ENSG00000048991	ENST00000436436	protein_coding	NOVEL	None	9757	197	64	136343922	136389313	1	R3HDM	KIAA0029
2	R3HDM1	ENSG00000048991	ENST00000409606	protein_coding	NOVEL	None	9757	3303	1100	136344007	136481913	1	R3HDM	KIAA0029
2	R3HDM1	ENSG00000048991	ENST00000456040	protein_coding	NOVEL	None	9757	851	282	136362426	136393753	1	R3HDM	KIAA0029
2	R3HDM1	ENSG00000048991	ENST00000480793	processed_transcript	KNOWN	None	9757	None	None	136379082	136389508	1	R3HDM	KIAA0029
2	R3HDM1	ENSG00000048991	ENST00000486532	processed_transcript	KNOWN	None	9757	None	None	136391282	136396684	1	R3HDM	KIAA0029
2	R3HDM1	ENSG00000048991	ENST00000443537	processed_transcript	KNOWN	None	9757	None	None	136396188	136406901	1	R3HDM	KIAA0029
2	R3HDM1	ENSG00000048991	ENST00000441871	protein_coding	NOVEL	None	9757	556	184	136396211	136409344	1	R3HDM	KIAA0029
2	R3HDM1	ENSG00000048991	ENST00000429703	protein_coding	NOVEL	None	9757	2470	822	136396303	136482835	1	R3HDM	KIAA0029
2	R3HDM1	ENSG00000048991	ENST00000425804	protein_coding	NOVEL	None	9757	581	192	136396469	136409510	1	R3HDM	KIAA0029
2	R3HDM1	ENSG00000048991	ENST00000487294	retained_intron	KNOWN	None	9757	None	None	136402803	136409591	1	R3HDM	KIAA0029
2	R3HDM1	ENSG00000048991	ENST00000445855	protein_coding	PUTATIVE	None	9757	670	222	136432968	136480107	1	R3HDM	KIAA0029
2	R3HDM1	ENSG00000048991	ENST00000483065	retained_intron	KNOWN	None	9757	None	None	136479079	136480117	1	R3HDM	KIAA0029
2	R3HDM1	ENSG00000048991	ENST00000329971	protein_coding	KNOWN	None	9757	2913	970	136289083	136482836	1	R3HDM	KIAA0029
1	PRAMEF13	ENSG00000204495	ENST00000376132	protein_coding	KNOWN	CCDS41257	13262	1425	474	13447414	13452656	-1	None	OTTHUMG00000008034
5	PCDHB3	ENSG00000113205	ENST00000231130	protein_coding	KNOWN	CCDS4245	8688	2391	796	140480234	140483406	1	None	PCDH-BETA3
21	ATP5J	ENSG00000154723	ENST00000400099	protein_coding	PUTATIVE	None	847	360	119	27088815	27107338	-1	ATP5A, ATP5, ATPM	CF6
21	ATP5J	ENSG00000154723	ENST00000400094	protein_coding	KNOWN	CCDS13574	847	327	108	27096791	27107215	-1	ATP5A, ATP5, ATPM	CF6
21	ATP5J	ENSG00000154723	ENST00000284971	protein_coding	KNOWN	CCDS13574	847	327	108	27096791	27107283	-1	ATP5A, ATP5, ATPM	CF6
21	ATP5J	ENSG00000154723	ENST00000457143	protein_coding	KNOWN	CCDS46637	847	351	116	27096791	27107344	-1	ATP5A, ATP5, ATPM	CF6
21	ATP5J	ENSG00000154723	ENST00000400090	protein_coding	KNOWN	CCDS13574	847	327	108	27096791	27107950	-1	ATP5A, ATP5, ATPM	CF6
21	ATP5J	ENSG00000154723	ENST00000400087	protein_coding	KNOWN	CCDS13574	847	327	108	27096791	27107957	-1	ATP5A, ATP5, ATPM	CF6
21	ATP5J	ENSG00000154723	ENST00000400093	protein_coding	KNOWN	CCDS13574	847	327	108	27096791	27107984	-1	ATP5A, ATP5, ATPM	CF6
21	ATP5J	ENSG00000154723	ENST00000486002	retained_intron	KNOWN	None	847	None	None	27097009	27107215	-1	ATP5A, ATP5, ATPM	CF6
5	None	ENSG00000221810	ENST00000408883	miRNA	NOVEL	None	None	None	None	92053139	92053220	-1	None	None
11	None	ENSG00000255537	ENST00000527818	protein_coding	PUTATIVE	None	None	591	196	125365110	125369424	1	None	None
19	CYP2S1	ENSG00000167600	ENST00000310054	protein_coding	KNOWN	CCDS12573	15654	1515	504	41698954	41713444	1	None	None
19	CYP2S1	ENSG00000167600	ENST00000597754	protein_coding	NOVEL	None	15654	525	174	41699115	41711880	1	None	None
19	CYP2S1	ENSG00000167600	ENST00000593545	nonsense_mediated_decay	KNOWN	None	15654	498	165	41699144	41712822	1	None	None
19	CYP2S1	ENSG00000167600	ENST00000600561	protein_coding	NOVEL	None	15654	562	186	41699152	41707204	1	None	None
19	CYP2S1	ENSG00000167600	ENST00000595590	nonsense_mediated_decay	KNOWN	None	15654	183	60	41699627	41712213	1	None	None
19	CYP2S1	ENSG00000167600	ENST00000593890	protein_coding	PUTATIVE	None	15654	222	73	41707198	41712472	1	None	None
19	CYP2S1	ENSG00000167600	ENST00000542619	protein_coding	KNOWN	None	15654	690	229	41699144	41712822	1	None	None
15	OCA2	ENSG00000104044	ENST00000353809	protein_coding	NOVEL	None	8101	2445	814	28000021	28344458	-1	D15S12, P, EYCL3, EYCL2	BEY2, EYCL, BEY, BEY1
15	OCA2	ENSG00000104044	ENST00000354638	protein_coding	KNOWN	CCDS10020	8101	2517	838	28000021	28344504	-1	D15S12, P, EYCL3, EYCL2	BEY2, EYCL, BEY, BEY1
15	OCA2	ENSG00000104044	ENST00000445578	protein_coding	NOVEL	None	8101	656	217	28261250	28344442	-1	D15S12, P, EYCL3, EYCL2	BEY2, EYCL, BEY, BEY1
15	OCA2	ENSG00000104044	ENST00000431101	protein_coding	KNOWN	None	8101	792	263	28263558	28344439	-1	D15S12, P, EYCL3, EYCL2	BEY2, EYCL, BEY, BEY1
15	OCA2	ENSG00000104044	ENST00000382996	protein_coding	KNOWN	None	8101	2007	668	28195655	28344458	-1	D15S12, P, EYCL3, EYCL2	BEY2, EYCL, BEY, BEY1
4	PIGG	ENSG00000174227	ENST00000504187	nonsense_mediated_decay	KNOWN	None	25985	561	186	492999	515750	1	None	FLJ20265, GPI7, LAS21
4	PIGG	ENSG00000174227	ENST00000310340	protein_coding	KNOWN	CCDS3336	25985	2928	975	493010	533318	1	None	FLJ20265, GPI7, LAS21
4	PIGG	ENSG00000174227	ENST00000453061	protein_coding	KNOWN	CCDS46992	25985	2952	983	493019	533318	1	None	FLJ20265, GPI7, LAS21
4	PIGG	ENSG00000174227	ENST00000504346	protein_coding	NOVEL	None	25985	2685	894	493026	533317	1	None	FLJ20265, GPI7, LAS21
4	PIGG	ENSG00000174227	ENST00000502311	processed_transcript	KNOWN	None	25985	None	None	493029	496118	1	None	FLJ20265, GPI7, LAS21
4	PIGG	ENSG00000174227	ENST00000503111	protein_coding	KNOWN	None	25985	900	299	493029	516631	1	None	FLJ20265, GPI7, LAS21
4	PIGG	ENSG00000174227	ENST00000511448	nonsense_mediated_decay	KNOWN	None	25985	582	193	493032	501327	1	None	FLJ20265, GPI7, LAS21
4	PIGG	ENSG00000174227	ENST00000506402	nonsense_mediated_decay	KNOWN	None	25985	1392	463	493047	516626	1	None	FLJ20265, GPI7, LAS21
4	PIGG	ENSG00000174227	ENST00000383028	protein_coding	KNOWN	None	25985	2553	850	493047	533314	1	None	FLJ20265, GPI7, LAS21
4	PIGG	ENSG00000174227	ENST00000509768	protein_coding	NOVEL	None	25985	1443	480	493078	516632	1	None	FLJ20265, GPI7, LAS21
4	PIGG	ENSG00000174227	ENST00000514953	processed_transcript	KNOWN	None	25985	None	None	493143	494960	1	None	FLJ20265, GPI7, LAS21
4	PIGG	ENSG00000174227	ENST00000506898	processed_transcript	KNOWN	None	25985	None	None	509859	516012	1	None	FLJ20265, GPI7, LAS21
4	PIGG	ENSG00000174227	ENST00000507493	processed_transcript	KNOWN	None	25985	None	None	514840	516102	1	None	FLJ20265, GPI7, LAS21
4	PIGG	ENSG00000174227	ENST00000513679	processed_transcript	KNOWN	None	25985	None	None	515546	516154	1	None	FLJ20265, GPI7, LAS21
4	PIGG	ENSG00000174227	ENST00000508562	processed_transcript	KNOWN	None	25985	None	None	515679	524287	1	None	FLJ20265, GPI7, LAS21
4	PIGG	ENSG00000174227	ENST00000511247	processed_transcript	KNOWN	None	25985	None	None	517309	518700	1	None	FLJ20265, GPI7, LAS21
4	PIGG	ENSG00000174227	ENST00000508669	retained_intron	KNOWN	None	25985	None	None	517621	521329	1	None	FLJ20265, GPI7, LAS21
4	PIGG	ENSG00000174227	ENST00000503261	processed_transcript	KNOWN	None	25985	None	None	519154	527770	1	None	FLJ20265, GPI7, LAS21
4	PIGG	ENSG00000174227	ENST00000510235	protein_coding	PUTATIVE	None	25985	73	23	519357	524514	1	None	FLJ20265, GPI7, LAS21
4	PIGG	ENSG00000174227	ENST00000511666	retained_intron	KNOWN	None	25985	None	None	520739	533154	1	None	FLJ20265, GPI7, LAS21
4	PIGG	ENSG00000174227	ENST00000513239	retained_intron	KNOWN	None	25985	None	None	524629	533318	1	None	FLJ20265, GPI7, LAS21
4	PIGG	ENSG00000174227	ENST00000513192	retained_intron	KNOWN	None	25985	None	None	525903	533314	1	None	FLJ20265, GPI7, LAS21
4	PIGG	ENSG00000174227	ENST00000504879	processed_transcript	KNOWN	None	25985	None	None	526503	530103	1	None	FLJ20265, GPI7, LAS21
4	PIGG	ENSG00000174227	ENST00000508144	retained_intron	KNOWN	None	25985	None	None	527421	533985	1	None	FLJ20265, GPI7, LAS21
4	PIGG	ENSG00000174227	ENST00000515237	processed_transcript	KNOWN	None	25985	None	None	530494	533318	1	None	FLJ20265, GPI7, LAS21
4	PIGG	ENSG00000174227	ENST00000505800	processed_transcript	KNOWN	None	25985	None	None	531080	533312	1	None	FLJ20265, GPI7, LAS21
4	PIGG	ENSG00000174227	ENST00000296306	protein_coding	KNOWN	None	25985	900	299	492989	533317	1	None	FLJ20265, GPI7, LAS21
4	PIGG	ENSG00000174227	ENST00000536264	protein_coding	KNOWN	None	25985	1026	341	492999	515750	1	None	FLJ20265, GPI7, LAS21
6	MDGA1	ENSG00000112139	ENST00000434837	protein_coding	KNOWN	CCDS47417	19267	2868	955	37598455	37665766	-1	None	GPIM, MAMDC3
6	MDGA1	ENSG00000112139	ENST00000373401	retained_intron	KNOWN	None	19267	None	None	37601513	37607600	-1	None	GPIM, MAMDC3
6	MDGA1	ENSG00000112139	ENST00000505425	protein_coding	PUTATIVE	None	19267	2922	973	37605736	37664587	-1	None	GPIM, MAMDC3
6	MDGA1	ENSG00000112139	ENST00000503419	processed_transcript	KNOWN	None	19267	None	None	37606404	37609673	-1	None	GPIM, MAMDC3
6	MDGA1	ENSG00000112139	ENST00000418178	protein_coding	NOVEL	None	19267	478	158	37606431	37614150	-1	None	GPIM, MAMDC3
6	MDGA1	ENSG00000112139	ENST00000502298	nonsense_mediated_decay	KNOWN	None	19267	262	86	37611054	37615048	-1	None	GPIM, MAMDC3
6	MDGA1	ENSG00000112139	ENST00000510077	processed_transcript	KNOWN	None	19267	None	None	37614079	37616406	-1	None	GPIM, MAMDC3
6	MDGA1	ENSG00000112139	ENST00000478143	retained_intron	KNOWN	None	19267	None	None	37617647	37631765	-1	None	GPIM, MAMDC3
6	MDGA1	ENSG00000112139	ENST00000515437	protein_coding	PUTATIVE	None	19267	388	128	37623499	37667082	-1	None	GPIM, MAMDC3
6	MDGA1	ENSG00000112139	ENST00000508399	protein_coding	PUTATIVE	None	19267	231	76	37623656	37632092	-1	None	GPIM, MAMDC3
6	MDGA1	ENSG00000112139	ENST00000297153	protein_coding	KNOWN	None	19267	2880	959	37600284	37665766	-1	None	GPIM, MAMDC3
10	CELF2-AS1	ENSG00000181800	ENST00000379256	antisense	KNOWN	None	23515	None	None	11358797	11361847	-1	C10orf31	FLJ40494, Em:AC026887.2
11	CALCA	ENSG00000110680	ENST00000486207	protein_coding	KNOWN	CCDS31432	1437	387	128	14988214	14992747	-1	CALC1	None
11	CALCA	ENSG00000110680	ENST00000494746	retained_intron	KNOWN	None	1437	None	None	14988217	14991562	-1	CALC1	None
11	CALCA	ENSG00000110680	ENST00000469608	nonsense_mediated_decay	KNOWN	None	1437	426	141	14988586	14993818	-1	CALC1	None
11	CALCA	ENSG00000110680	ENST00000331587	protein_coding	KNOWN	CCDS7819	1437	426	141	14990047	14993900	-1	CALC1	None
11	CALCA	ENSG00000110680	ENST00000396372	protein_coding	KNOWN	CCDS7819	1437	426	141	14990252	14993819	-1	CALC1	None
11	CALCA	ENSG00000110680	ENST00000361010	protein_coding	KNOWN	CCDS31432	1437	387	128	14988215	14993832	-1	CALC1	None
11	CALCA	ENSG00000110680	ENST00000359642	protein_coding	KNOWN	None	1437	426	141	14989374	14993832	-1	CALC1	None
6	MAP7	ENSG00000135525	ENST00000354570	protein_coding	KNOWN	CCDS5178	6869	2250	749	136663875	136871957	-1	None	E-MAP-115
6	MAP7	ENSG00000135525	ENST00000454590	protein_coding	KNOWN	CCDS56455	6869	2316	771	136664681	136847610	-1	None	E-MAP-115
6	MAP7	ENSG00000135525	ENST00000438100	protein_coding	KNOWN	CCDS56454	6869	2205	734	136664968	136847121	-1	None	E-MAP-115
6	MAP7	ENSG00000135525	ENST00000544465	protein_coding	KNOWN	CCDS56453	6869	2205	734	136664920	136788013	-1	None	E-MAP-115
6	MAP7	ENSG00000135525	ENST00000432797	protein_coding	KNOWN	CCDS56452	6869	1812	603	136664999	136847744	-1	None	E-MAP-115
19	ZNF417	ENSG00000173480	ENST00000594396	protein_coding	PUTATIVE	None	20646	272	89	58411664	58423535	-1	None	MGC34079
19	ZNF417	ENSG00000173480	ENST00000312026	protein_coding	KNOWN	CCDS12965	20646	1728	575	58418214	58427944	-1	None	MGC34079
19	ZNF417	ENSG00000173480	ENST00000595559	protein_coding	NOVEL	None	20646	1725	574	58419848	58427959	-1	None	MGC34079
19	ZNF417	ENSG00000173480	ENST00000597515	protein_coding	PUTATIVE	None	20646	172	56	58421345	58427960	-1	None	MGC34079
19	ZNF417	ENSG00000173480	ENST00000598526	protein_coding	PUTATIVE	None	20646	154	50	58421363	58427978	-1	None	MGC34079
19	ZNF417	ENSG00000173480	ENST00000598629	protein_coding	PUTATIVE	None	20646	64	20	58421453	58427945	-1	None	MGC34079
19	ZNF417	ENSG00000173480	ENST00000599251	protein_coding	PUTATIVE	None	20646	45	14	58421472	58427977	-1	None	MGC34079
19	ZNF417	ENSG00000173480	ENST00000536263	protein_coding	KNOWN	None	20646	1131	376	58419557	58427945	-1	None	MGC34079
1	PRAMEF18	ENSG00000204491	ENST00000376126	protein_coding	PUTATIVE	CCDS41258	30693	1440	479	13474689	13477522	-1	None	OTTHUMG00000002932
15	EXD1	ENSG00000178997	ENST00000314992	protein_coding	KNOWN	CCDS10072	28507	1545	514	41474923	41522895	-1	EXDL1	MGC33637
15	EXD1	ENSG00000178997	ENST00000558881	retained_intron	KNOWN	None	28507	None	None	41474933	41482568	-1	EXDL1	MGC33637
15	EXD1	ENSG00000178997	ENST00000458580	protein_coding	PUTATIVE	None	28507	1719	572	41475937	41522889	-1	EXDL1	MGC33637
15	EXD1	ENSG00000178997	ENST00000559743	processed_transcript	KNOWN	None	28507	None	None	41508946	41522740	-1	EXDL1	MGC33637
15	EXD1	ENSG00000178997	ENST00000558396	protein_coding	PUTATIVE	None	28507	165	54	41509321	41522941	-1	EXDL1	MGC33637
3	RPL29	ENSG00000162244	ENST00000294189	protein_coding	KNOWN	CCDS2845	10331	480	159	52027616	52029958	-1	RPL29P10	HIP, HUMRPL29, L29
3	RPL29	ENSG00000162244	ENST00000466397	protein_coding	KNOWN	CCDS2845	10331	480	159	52027644	52029879	-1	RPL29P10	HIP, HUMRPL29, L29
3	RPL29	ENSG00000162244	ENST00000480306	nonsense_mediated_decay	KNOWN	None	10331	114	37	52027644	52029897	-1	RPL29P10	HIP, HUMRPL29, L29
3	RPL29	ENSG00000162244	ENST00000479017	protein_coding	KNOWN	CCDS2845	10331	480	159	52027645	52029846	-1	RPL29P10	HIP, HUMRPL29, L29
3	RPL29	ENSG00000162244	ENST00000495383	protein_coding	KNOWN	CCDS2845	10331	480	159	52027645	52029860	-1	RPL29P10	HIP, HUMRPL29, L29
3	RPL29	ENSG00000162244	ENST00000475248	protein_coding	KNOWN	CCDS2845	10331	480	159	52027739	52029831	-1	RPL29P10	HIP, HUMRPL29, L29
3	RPL29	ENSG00000162244	ENST00000492277	protein_coding	KNOWN	None	10331	479	158	52027766	52029830	-1	RPL29P10	HIP, HUMRPL29, L29
3	RPL29	ENSG00000162244	ENST00000481629	protein_coding	PUTATIVE	None	10331	183	60	52028313	52029897	-1	RPL29P10	HIP, HUMRPL29, L29
3	RPL29	ENSG00000162244	ENST00000486565	retained_intron	KNOWN	None	10331	None	None	52028951	52029911	-1	RPL29P10	HIP, HUMRPL29, L29
5	FAM170A	ENSG00000164334	ENST00000504819	nonsense_mediated_decay	KNOWN	None	27963	852	283	118965254	118971517	1	None	None
5	FAM170A	ENSG00000164334	ENST00000379555	nonsense_mediated_decay	KNOWN	CCDS54889	27963	849	282	118965254	118971517	1	None	None
5	FAM170A	ENSG00000164334	ENST00000515256	protein_coding	KNOWN	None	27963	993	330	118965292	118970777	1	None	None
5	FAM170A	ENSG00000164334	ENST00000335286	nonsense_mediated_decay	KNOWN	CCDS43353	27963	990	329	118965293	118971517	1	None	None
5	FAM170A	ENSG00000164334	ENST00000509264	protein_coding	PUTATIVE	None	27963	559	185	118965381	118970777	1	None	None
7	None	ENSG00000199870	ENST00000363000	misc_RNA	NOVEL	None	None	None	None	74983126	74983227	-1	None	None
5	PCDHB4	ENSG00000081818	ENST00000194152	protein_coding	KNOWN	CCDS4246	8689	2388	795	140501581	140505201	1	None	PCDH-BETA4
10	None	ENSG00000271360	ENST00000604634	antisense	KNOWN	None	None	None	None	11653304	11654226	1	None	None
6	None	ENSG00000236378	ENST00000447848	lincRNA	KNOWN	None	None	None	None	136128286	136129604	-1	None	None
10	None	ENSG00000271046	ENST00000604086	lincRNA	KNOWN	None	None	None	None	11721674	11722513	1	None	None
6	None	ENSG00000238921	ENST00000459265	miRNA	NOVEL	None	None	None	None	136235893	136235985	1	None	None
4	None	ENSG00000250183	ENST00000505862	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	120858712	120885053	1	None	None
6	None	ENSG00000222121	ENST00000410189	miRNA	NOVEL	None	None	None	None	136298949	136299041	-1	None	None
1	PRAMEF16	ENSG00000204488	ENST00000376121	protein_coding	KNOWN	CCDS41259	25767	1425	474	13495254	13498260	1	None	OTTHUMG00000002933
5	PCDHB5	ENSG00000113209	ENST00000231134	protein_coding	KNOWN	CCDS4247	8690	2388	795	140514800	140517703	1	None	DKFZp586B0217, PCDH-BETA5
6	COX5BP2	ENSG00000213111	ENST00000576956	processed_transcript	KNOWN	None	2271	None	None	136355169	136356293	-1	COX5BL2	None
6	COX5BP2	ENSG00000213111	ENST00000392354	transcribed_processed_pseudogene	KNOWN	None	2271	None	None	136355691	136356024	-1	COX5BL2	None
4	None	ENSG00000231335	ENST00000425645	sense_intronic	KNOWN	None	None	None	None	77558776	77565521	1	None	None
4	None	ENSG00000250392	ENST00000505122	lincRNA	KNOWN	None	None	None	None	120860695	120885448	1	None	None
4	C4orf46	ENSG00000205208	ENST00000379205	protein_coding	KNOWN	CCDS34088	27320	342	113	159587831	159593198	-1	None	LOC201725
4	C4orf46	ENSG00000205208	ENST00000508457	protein_coding	PUTATIVE	None	27320	198	65	159587836	159593044	-1	None	LOC201725
4	C4orf46	ENSG00000205208	ENST00000508836	processed_transcript	KNOWN	None	27320	None	None	159590077	159593407	-1	None	LOC201725
4	None	ENSG00000233860	ENST00000452412	antisense	KNOWN	None	None	None	None	77678113	77679627	-1	None	None
10	PROSER2-AS1	ENSG00000225778	ENST00000445498	antisense	KNOWN	None	27343	None	None	11891612	11936699	-1	None	None
10	PROSER2-AS1	ENSG00000225778	ENST00000453242	antisense	KNOWN	None	27343	None	None	11899288	11916794	-1	None	None
4	None	ENSG00000200553	ENST00000363683	misc_RNA	NOVEL	None	None	None	None	120868286	120868387	1	None	None
4	None	ENSG00000224218	ENST00000449007	antisense	KNOWN	None	None	None	None	77679707	77723117	-1	None	None
4	None	ENSG00000253825	ENST00000518701	lincRNA	KNOWN	None	None	None	None	120956188	120961770	-1	None	None
12	SLC39A5	ENSG00000139540	ENST00000424625	protein_coding	KNOWN	None	20502	371	122	56623833	56626556	1	None	None
12	SLC39A5	ENSG00000139540	ENST00000419753	protein_coding	KNOWN	None	20502	468	155	56623833	56626653	1	None	None
12	SLC39A5	ENSG00000139540	ENST00000493574	retained_intron	KNOWN	None	20502	None	None	56623840	56624501	1	None	None
12	SLC39A5	ENSG00000139540	ENST00000481103	retained_intron	KNOWN	None	20502	None	None	56623847	56629596	1	None	None
12	SLC39A5	ENSG00000139540	ENST00000454355	protein_coding	KNOWN	CCDS8912	20502	1623	540	56623847	56631630	1	None	None
12	SLC39A5	ENSG00000139540	ENST00000417965	protein_coding	KNOWN	None	20502	386	127	56623851	56626571	1	None	None
12	SLC39A5	ENSG00000139540	ENST00000436633	protein_coding	NOVEL	None	20502	717	238	56623867	56629110	1	None	None
12	SLC39A5	ENSG00000139540	ENST00000266980	protein_coding	KNOWN	CCDS8912	20502	1623	540	56624436	56631630	1	None	None
12	SLC39A5	ENSG00000139540	ENST00000437277	protein_coding	KNOWN	None	20502	378	125	56624546	56626563	1	None	None
12	SLC39A5	ENSG00000139540	ENST00000419232	processed_transcript	KNOWN	None	20502	None	None	56630444	56631598	1	None	None
12	SLC39A5	ENSG00000139540	ENST00000447080	processed_transcript	KNOWN	None	20502	None	None	56630488	56631627	1	None	None
4	None	ENSG00000264124	ENST00000580319	miRNA	NOVEL	None	None	None	None	77775117	77775213	1	None	None
19	None	ENSG00000267274	ENST00000586394	sense_overlapping	KNOWN	None	None	None	None	12050774	12064196	1	None	None
4	None	ENSG00000270244	ENST00000604442	processed_pseudogene	KNOWN	None	None	None	None	77807182	77807523	-1	None	None
4	None	ENSG00000242727	ENST00000485829	processed_pseudogene	KNOWN	None	None	None	None	77812187	77812598	1	None	None
10	ITGA8	ENSG00000077943	ENST00000378076	protein_coding	KNOWN	CCDS31155	6144	3192	1063	15555948	15762124	-1	None	None
10	ITGA8	ENSG00000077943	ENST00000477064	processed_transcript	KNOWN	None	6144	None	None	15638512	15646269	-1	None	None
10	ITGA8	ENSG00000077943	ENST00000468882	processed_transcript	KNOWN	None	6144	None	None	15653509	15686144	-1	None	None
7	STAG3L1	ENSG00000205583	ENST00000402225	processed_transcript	KNOWN	None	33852	None	None	74988448	75024642	1	None	DKFZP434A0131, STAG3L1P
7	STAG3L1	ENSG00000205583	ENST00000456374	transcribed_unprocessed_pseudogene	KNOWN	None	33852	None	None	74990644	74996355	1	None	DKFZP434A0131, STAG3L1P
7	STAG3L1	ENSG00000205583	ENST00000404291	processed_transcript	PUTATIVE	None	33852	None	None	74995623	75024657	1	None	DKFZP434A0131, STAG3L1P
7	STAG3L1	ENSG00000205583	ENST00000487154	processed_transcript	PUTATIVE	None	33852	None	None	75013533	75019157	1	None	DKFZP434A0131, STAG3L1P
7	STAG3L1	ENSG00000205583	ENST00000339898	unprocessed_pseudogene	KNOWN	None	33852	None	None	74988455	74996990	1	None	DKFZP434A0131, STAG3L1P
7	STAG3L1	ENSG00000205583	ENST00000338421	unprocessed_pseudogene	KNOWN	None	33852	None	None	74988455	74995278	1	None	DKFZP434A0131, STAG3L1P
7	STAG3L1	ENSG00000205583	ENST00000436837	unprocessed_pseudogene	KNOWN	None	33852	None	None	74988455	74996990	1	None	DKFZP434A0131, STAG3L1P
17	MEOX1	ENSG00000005102	ENST00000318579	protein_coding	KNOWN	CCDS11466	7013	765	254	41717756	41739322	-1	None	MOX1
17	MEOX1	ENSG00000005102	ENST00000549132	protein_coding	KNOWN	None	7013	504	167	41718747	41738931	-1	None	MOX1
17	MEOX1	ENSG00000005102	ENST00000393661	protein_coding	KNOWN	CCDS42343	7013	420	139	41718748	41739290	-1	None	MOX1
17	MEOX1	ENSG00000005102	ENST00000329168	protein_coding	KNOWN	CCDS11467	7013	555	184	41717770	41738931	-1	None	MOX1
1	MAP3K6	ENSG00000142733	ENST00000486046	protein_coding	NOVEL	None	6858	248	81	27681675	27682962	-1	None	MAPKKK6, ASK2, MEKK6
1	MAP3K6	ENSG00000142733	ENST00000472410	protein_coding	PUTATIVE	None	6858	2396	797	27681675	27690442	-1	None	MAPKKK6, ASK2, MEKK6
1	MAP3K6	ENSG00000142733	ENST00000374040	protein_coding	KNOWN	None	6858	3843	1280	27681677	27693349	-1	None	MAPKKK6, ASK2, MEKK6
1	MAP3K6	ENSG00000142733	ENST00000493901	protein_coding	KNOWN	CCDS299	6858	3867	1288	27681680	27693383	-1	None	MAPKKK6, ASK2, MEKK6
1	MAP3K6	ENSG00000142733	ENST00000470890	retained_intron	KNOWN	None	6858	None	None	27681847	27683658	-1	None	MAPKKK6, ASK2, MEKK6
1	MAP3K6	ENSG00000142733	ENST00000357582	protein_coding	KNOWN	CCDS299	6858	3867	1288	27681882	27693357	-1	None	MAPKKK6, ASK2, MEKK6
1	MAP3K6	ENSG00000142733	ENST00000476509	retained_intron	KNOWN	None	6858	None	None	27683081	27684105	-1	None	MAPKKK6, ASK2, MEKK6
1	MAP3K6	ENSG00000142733	ENST00000495230	retained_intron	KNOWN	None	6858	None	None	27683652	27684299	-1	None	MAPKKK6, ASK2, MEKK6
4	None	ENSG00000234036	ENST00000510190	processed_pseudogene	KNOWN	None	None	None	None	77880013	77880322	-1	None	None
4	None	ENSG00000234036	ENST00000429255	processed_pseudogene	KNOWN	None	None	None	None	77880014	77880316	-1	None	None
5	PCDHB6	ENSG00000113211	ENST00000231136	protein_coding	KNOWN	CCDS4248	8691	2385	794	140529839	140532868	1	None	PCDH-BETA6
5	PCDHB6	ENSG00000113211	ENST00000543635	protein_coding	KNOWN	None	8691	1977	658	140529683	140532487	1	None	PCDH-BETA6
9	None	ENSG00000268342	ENST00000600961	processed_pseudogene	KNOWN	None	None	None	None	41054827	41056158	-1	None	None
19	None	ENSG00000219665	ENST00000406892	antisense	KNOWN	None	None	None	None	12098432	12138009	1	None	None
19	None	ENSG00000219665	ENST00000495324	antisense	KNOWN	None	None	None	None	12098471	12129285	1	None	None
19	None	ENSG00000219665	ENST00000588047	retained_intron	KNOWN	None	None	None	None	12098471	12146729	1	None	None
19	None	ENSG00000219665	ENST00000489336	antisense	KNOWN	None	None	None	None	12098486	12114626	1	None	None
19	None	ENSG00000219665	ENST00000476474	antisense	KNOWN	None	None	None	None	12098494	12157090	1	None	None
19	None	ENSG00000219665	ENST00000589551	antisense	KNOWN	None	None	None	None	12098582	12114410	1	None	None
19	None	ENSG00000219665	ENST00000592187	retained_intron	KNOWN	None	None	None	None	12134010	12138009	1	None	None
19	None	ENSG00000219665	ENST00000591838	antisense	KNOWN	None	None	None	None	12145391	12157090	1	None	None
19	None	ENSG00000219665	ENST00000591898	antisense	KNOWN	None	None	None	None	12146638	12157090	1	None	None
9	TTF1	ENSG00000125482	ENST00000334270	protein_coding	KNOWN	CCDS6948	12397	2718	905	135251008	135282209	-1	None	None
9	TTF1	ENSG00000125482	ENST00000461970	processed_transcript	KNOWN	None	12397	None	None	135251122	135254592	-1	None	None
6	None	ENSG00000220154	ENST00000406706	processed_pseudogene	KNOWN	None	None	None	None	79987822	79988144	-1	None	None
1	PRAMEF21	ENSG00000204486	ENST00000327795	protein_coding	PUTATIVE	CCDS41260	22405	1428	475	13521973	13526873	1	None	OTTHUMT00000008157
1	PRAMEF21	ENSG00000204486	ENST00000332192	protein_coding	KNOWN	CCDS41260	22405	1428	475	13516066	13526943	1	None	OTTHUMT00000008157
6	None	ENSG00000201464	ENST00000364594	misc_RNA	NOVEL	None	None	None	None	80011680	80011783	-1	None	None
9	None	ENSG00000229471	ENST00000450268	unprocessed_pseudogene	KNOWN	None	None	None	None	41214067	41217717	-1	None	None
10	RNU6-1095P	ENSG00000251957	ENST00000516148	snRNA	KNOWN	None	48058	None	None	11965180	11965287	1	None	None
12	HOXC5	ENSG00000172789	ENST00000513209	processed_transcript	PUTATIVE	None	5127	None	None	54379629	54428672	1	HOX3D, HOX3	None
12	HOXC5	ENSG00000172789	ENST00000512206	processed_transcript	PUTATIVE	None	5127	None	None	54410894	54429145	1	HOX3D, HOX3	None
12	HOXC5	ENSG00000172789	ENST00000312492	protein_coding	KNOWN	CCDS8872	5127	669	222	54426637	54429142	1	HOX3D, HOX3	None
10	None	ENSG00000272507	ENST00000606801	snRNA	NOVEL	None	None	None	None	12158279	12158378	-1	None	None
16	NAGPA	ENSG00000103174	ENST00000312251	protein_coding	KNOWN	CCDS10527	17378	1548	515	5074845	5083935	-1	None	APAA, UCE
16	NAGPA	ENSG00000103174	ENST00000381955	protein_coding	NOVEL	None	17378	1446	481	5074845	5083935	-1	None	APAA, UCE
16	NAGPA	ENSG00000103174	ENST00000564397	retained_intron	KNOWN	None	17378	None	None	5074873	5080159	-1	None	APAA, UCE
16	NAGPA	ENSG00000103174	ENST00000562746	nonsense_mediated_decay	KNOWN	None	17378	930	309	5074873	5083919	-1	None	APAA, UCE
16	NAGPA	ENSG00000103174	ENST00000568202	retained_intron	KNOWN	None	17378	None	None	5074911	5083927	-1	None	APAA, UCE
16	NAGPA	ENSG00000103174	ENST00000563578	protein_coding	NOVEL	None	17378	946	314	5074931	5083633	-1	None	APAA, UCE
16	NAGPA	ENSG00000103174	ENST00000566137	retained_intron	KNOWN	None	17378	None	None	5077279	5078404	-1	None	APAA, UCE
16	NAGPA	ENSG00000103174	ENST00000567739	retained_intron	KNOWN	None	17378	None	None	5077291	5079119	-1	None	APAA, UCE
16	NAGPA	ENSG00000103174	ENST00000569296	nonsense_mediated_decay	KNOWN	None	17378	519	172	5077302	5083359	-1	None	APAA, UCE
16	NAGPA	ENSG00000103174	ENST00000565876	nonsense_mediated_decay	KNOWN	None	17378	121	39	5077317	5083339	-1	None	APAA, UCE
16	NAGPA	ENSG00000103174	ENST00000568528	processed_transcript	KNOWN	None	17378	None	None	5078073	5078615	-1	None	APAA, UCE
16	NAGPA	ENSG00000103174	ENST00000562346	protein_coding	NOVEL	None	17378	570	189	5078121	5083637	-1	None	APAA, UCE
16	NAGPA	ENSG00000103174	ENST00000562037	nonsense_mediated_decay	KNOWN	None	17378	315	104	5078947	5083644	-1	None	APAA, UCE
16	NAGPA	ENSG00000103174	ENST00000569793	processed_transcript	KNOWN	None	17378	None	None	5080315	5080652	-1	None	APAA, UCE
16	NAGPA	ENSG00000103174	ENST00000591478	processed_transcript	KNOWN	None	17378	None	None	5080443	5083629	-1	None	APAA, UCE
16	NAGPA	ENSG00000103174	ENST00000561580	retained_intron	KNOWN	None	17378	None	None	5081029	5083940	-1	None	APAA, UCE
16	NAGPA	ENSG00000103174	ENST00000564922	processed_transcript	PUTATIVE	None	17378	None	None	5081844	5084142	-1	None	APAA, UCE
10	SEC31B	ENSG00000075826	ENST00000370345	protein_coding	KNOWN	CCDS7495	23197	3540	1179	102246399	102279591	-1	SEC31L2	SEC31B-1, DKFZP434M183
10	SEC31B	ENSG00000075826	ENST00000485800	retained_intron	KNOWN	None	23197	None	None	102246403	102249928	-1	SEC31L2	SEC31B-1, DKFZP434M183
10	SEC31B	ENSG00000075826	ENST00000492667	retained_intron	KNOWN	None	23197	None	None	102246404	102250313	-1	SEC31L2	SEC31B-1, DKFZP434M183
10	SEC31B	ENSG00000075826	ENST00000479697	nonsense_mediated_decay	KNOWN	None	23197	258	85	102246404	102279616	-1	SEC31L2	SEC31B-1, DKFZP434M183
10	SEC31B	ENSG00000075826	ENST00000462434	nonsense_mediated_decay	KNOWN	None	23197	1047	348	102246405	102279595	-1	SEC31L2	SEC31B-1, DKFZP434M183
10	SEC31B	ENSG00000075826	ENST00000469546	nonsense_mediated_decay	KNOWN	None	23197	1050	349	102246542	102276752	-1	SEC31L2	SEC31B-1, DKFZP434M183
10	SEC31B	ENSG00000075826	ENST00000482456	nonsense_mediated_decay	KNOWN	None	23197	258	85	102246681	102279592	-1	SEC31L2	SEC31B-1, DKFZP434M183
10	SEC31B	ENSG00000075826	ENST00000484848	retained_intron	KNOWN	None	23197	None	None	102254602	102268550	-1	SEC31L2	SEC31B-1, DKFZP434M183
10	SEC31B	ENSG00000075826	ENST00000469824	processed_transcript	KNOWN	None	23197	None	None	102256015	102257996	-1	SEC31L2	SEC31B-1, DKFZP434M183
10	SEC31B	ENSG00000075826	ENST00000498298	retained_intron	KNOWN	None	23197	None	None	102257272	102258088	-1	SEC31L2	SEC31B-1, DKFZP434M183
10	SEC31B	ENSG00000075826	ENST00000494350	processed_transcript	KNOWN	None	23197	None	None	102257798	102259331	-1	SEC31L2	SEC31B-1, DKFZP434M183
10	SEC31B	ENSG00000075826	ENST00000490567	retained_intron	KNOWN	None	23197	None	None	102262067	102266228	-1	SEC31L2	SEC31B-1, DKFZP434M183
10	SEC31B	ENSG00000075826	ENST00000480905	nonsense_mediated_decay	KNOWN	None	23197	258	85	102266093	102279621	-1	SEC31L2	SEC31B-1, DKFZP434M183
10	SEC31B	ENSG00000075826	ENST00000451524	protein_coding	KNOWN	None	23197	1443	480	102259884	102279595	-1	SEC31L2	SEC31B-1, DKFZP434M183
10	SEC31B	ENSG00000075826	ENST00000370329	protein_coding	KNOWN	None	23197	1059	352	102265693	102279711	-1	SEC31L2	SEC31B-1, DKFZP434M183
10	SEC31B	ENSG00000075826	ENST00000535773	protein_coding	KNOWN	None	23197	579	192	102265562	102289628	-1	SEC31L2	SEC31B-1, DKFZP434M183
6	None	ENSG00000217786	ENST00000405542	processed_pseudogene	KNOWN	None	None	None	None	80036285	80036924	-1	None	None
14	IGHE	ENSG00000211891	ENST00000390541	IG_C_gene	KNOWN	None	5522	1287	428	106066278	106068065	-1	None	None
14	IGHE	ENSG00000211891	ENST00000577108	IG_C_gene	KNOWN	None	5522	228	75	106064224	106066546	-1	None	None
14	IGHE	ENSG00000211891	ENST00000576077	IG_C_gene	KNOWN	None	5522	30	9	106066241	106066546	-1	None	None
6	None	ENSG00000218029	ENST00000444542	processed_pseudogene	KNOWN	None	None	None	None	80064160	80064430	-1	None	None
9	MRPS2	ENSG00000122140	ENST00000371785	protein_coding	KNOWN	CCDS6990	14495	891	296	138391830	138396519	1	None	CGI-91
9	MRPS2	ENSG00000122140	ENST00000488610	processed_transcript	KNOWN	None	14495	None	None	138392545	138395806	1	None	CGI-91
9	MRPS2	ENSG00000122140	ENST00000485333	processed_transcript	KNOWN	None	14495	None	None	138392553	138395822	1	None	CGI-91
9	MRPS2	ENSG00000122140	ENST00000462948	processed_transcript	KNOWN	None	14495	None	None	138392561	138395440	1	None	CGI-91
9	MRPS2	ENSG00000122140	ENST00000472852	processed_transcript	KNOWN	None	14495	None	None	138392561	138395801	1	None	CGI-91
9	MRPS2	ENSG00000122140	ENST00000453385	protein_coding	KNOWN	None	14495	810	269	138392759	138395856	1	None	CGI-91
9	MRPS2	ENSG00000122140	ENST00000472946	processed_transcript	KNOWN	None	14495	None	None	138394434	138395832	1	None	CGI-91
9	MRPS2	ENSG00000122140	ENST00000241600	protein_coding	KNOWN	CCDS6990	14495	891	296	138392483	138396516	1	None	CGI-91
11	LIN7C	ENSG00000148943	ENST00000278193	protein_coding	KNOWN	CCDS7864	17789	594	197	27516123	27528320	-1	None	MALS-3, Lin7c, LIN-7C, LIN-7-C, VELI3, FLJ11215
11	LIN7C	ENSG00000148943	ENST00000524596	protein_coding	NOVEL	None	17789	522	173	27516445	27528316	-1	None	MALS-3, Lin7c, LIN-7C, LIN-7-C, VELI3, FLJ11215
1	PRAMEF15	ENSG00000157358	ENST00000330087	protein_coding	KNOWN	CCDS44059	26764	1437	478	13641973	13648988	1	None	OTTHUMG00000007921
X	RNU6-854P	ENSG00000200906	ENST00000364036	snRNA	KNOWN	None	47817	None	None	77092786	77092892	1	None	None
X	RN7SL460P	ENSG00000263410	ENST00000582806	misc_RNA	KNOWN	None	46476	None	None	77140874	77141127	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000257944	ENST00000553258	protein_coding	NOVEL	None	None	375	124	31811419	31812274	1	None	None
X	None	ENSG00000248503	ENST00000602791	processed_transcript	KNOWN	None	None	None	None	77166238	77220387	1	None	None
X	None	ENSG00000248503	ENST00000506043	transcribed_processed_pseudogene	KNOWN	None	None	None	None	77218050	77218386	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000257705	ENST00000549708	protein_coding	NOVEL	None	None	459	152	31811806	31812495	-1	None	None
16	TMC7	ENSG00000170537	ENST00000569532	protein_coding	PUTATIVE	None	23000	2277	758	18995256	19071318	1	None	FLJ21240
16	TMC7	ENSG00000170537	ENST00000304381	protein_coding	KNOWN	CCDS10573	23000	2172	723	18995256	19074503	1	None	FLJ21240
16	TMC7	ENSG00000170537	ENST00000568469	retained_intron	KNOWN	None	23000	None	None	18995345	19056461	1	None	FLJ21240
16	TMC7	ENSG00000170537	ENST00000421369	protein_coding	KNOWN	CCDS53992	23000	1842	613	18995609	19075264	1	None	FLJ21240
16	TMC7	ENSG00000170537	ENST00000561963	processed_transcript	KNOWN	None	23000	None	None	19044838	19049352	1	None	FLJ21240
HSCHR6_MHC_QBL	None	ENSG00000257589	ENST00000548794	protein_coding	NOVEL	None	None	99	32	32974007	32976386	-1	None	None
4	None	ENSG00000250938	ENST00000503073	antisense	KNOWN	None	None	None	None	120988113	121006734	1	None	None
4	None	ENSG00000250938	ENST00000511064	antisense	KNOWN	None	None	None	None	120988113	121087047	1	None	None
4	None	ENSG00000250938	ENST00000504106	antisense	KNOWN	None	None	None	None	120988125	121314877	1	None	None
4	None	ENSG00000250938	ENST00000508362	antisense	KNOWN	None	None	None	None	120988666	121337921	1	None	None
X	FNDC3CP	ENSG00000223592	ENST00000420795	unitary_pseudogene	KNOWN	None	35452	None	None	77421193	77427919	-1	None	None
10	MIR548AK	ENSG00000265653	ENST00000584402	miRNA	KNOWN	None	41893	None	None	12172759	12172815	-1	None	hsa-mir-548ak
1	PRAMEF14	ENSG00000204481	ENST00000602491	processed_transcript	KNOWN	None	13576	None	None	13668411	13670217	-1	None	OTTHUMG00000007916
1	PRAMEF14	ENSG00000204481	ENST00000334600	protein_coding	PUTATIVE	None	13576	1425	474	13668743	13673511	-1	None	OTTHUMG00000007916
1	PRAMEF14	ENSG00000204481	ENST00000344998	protein_coding	KNOWN	None	13576	1281	426	13668269	13673511	-1	None	OTTHUMG00000007916
14	IGHG4	ENSG00000211892	ENST00000390543	IG_C_gene	KNOWN	None	5528	984	327	106090687	106092403	-1	None	None
12	REP15	ENSG00000174236	ENST00000310791	protein_coding	KNOWN	CCDS31762	33748	711	236	27849428	27850566	1	None	RAB15EP
3	TRPC1	ENSG00000144935	ENST00000476941	protein_coding	KNOWN	CCDS58856	12333	2382	793	142442916	142525270	1	None	HTRP-1
3	TRPC1	ENSG00000144935	ENST00000273482	protein_coding	KNOWN	CCDS3126	12333	2280	759	142443011	142526730	1	None	HTRP-1
3	TRPC1	ENSG00000144935	ENST00000460401	nonsense_mediated_decay	KNOWN	None	12333	196	64	142443407	142496500	1	None	HTRP-1
3	TRPC1	ENSG00000144935	ENST00000480101	retained_intron	KNOWN	None	12333	None	None	142499782	142504129	1	None	HTRP-1
1	ABL2	ENSG00000143322	ENST00000502732	protein_coding	KNOWN	CCDS30947	77	3549	1182	179068462	179198736	-1	ABLL	ARG
1	ABL2	ENSG00000143322	ENST00000344730	protein_coding	KNOWN	CCDS44282	77	3195	1064	179073183	179112224	-1	ABLL	ARG
1	ABL2	ENSG00000143322	ENST00000512653	protein_coding	KNOWN	CCDS41441	77	3504	1167	179076734	179112191	-1	ABLL	ARG
1	ABL2	ENSG00000143322	ENST00000504405	protein_coding	KNOWN	CCDS53435	77	3132	1043	179076853	179112179	-1	ABLL	ARG
1	ABL2	ENSG00000143322	ENST00000367623	protein_coding	NOVEL	CCDS53436	77	3486	1161	179076853	179198532	-1	ABLL	ARG
1	ABL2	ENSG00000143322	ENST00000507173	protein_coding	NOVEL	CCDS53437	77	3177	1058	179076853	179198532	-1	ABLL	ARG
1	ABL2	ENSG00000143322	ENST00000511413	protein_coding	NOVEL	CCDS53438	77	3240	1079	179076853	179198532	-1	ABLL	ARG
1	ABL2	ENSG00000143322	ENST00000392043	protein_coding	KNOWN	CCDS44283	77	1629	542	179079716	179198819	-1	ABLL	ARG
1	ABL2	ENSG00000143322	ENST00000509520	retained_intron	KNOWN	None	77	None	None	179085958	179112204	-1	ABLL	ARG
1	ABL2	ENSG00000143322	ENST00000504324	retained_intron	KNOWN	None	77	None	None	179085987	179112211	-1	ABLL	ARG
1	ABL2	ENSG00000143322	ENST00000508127	retained_intron	KNOWN	None	77	None	None	179100347	179112209	-1	ABLL	ARG
1	ABL2	ENSG00000143322	ENST00000408940	protein_coding	KNOWN	None	77	3441	1146	179068463	179112179	-1	ABLL	ARG
6	PPT2-EGFL8	ENSG00000258388	ENST00000428388	nonsense_mediated_decay	KNOWN	None	48343	906	301	32121622	32136058	1	None	None
6	PPT2-EGFL8	ENSG00000258388	ENST00000585246	nonsense_mediated_decay	KNOWN	None	48343	294	97	32121847	32134011	1	None	None
6	PPT2-EGFL8	ENSG00000258388	ENST00000422437	nonsense_mediated_decay	KNOWN	None	48343	906	301	32121999	32139755	1	None	None
6	PPT2-EGFL8	ENSG00000258388	ENST00000453656	processed_transcript	KNOWN	None	48343	None	None	32122241	32134266	1	None	None
6	PPT2-EGFL8	ENSG00000258388	ENST00000583227	nonsense_mediated_decay	KNOWN	None	48343	294	97	32122364	32135016	1	None	None
6	PPT2-EGFL8	ENSG00000258388	ENST00000479001	retained_intron	KNOWN	None	48343	None	None	32124888	32134029	1	None	None
6	PPT2-EGFL8	ENSG00000258388	ENST00000421600	nonsense_mediated_decay	KNOWN	None	48343	389	128	32125414	32134765	1	None	None
3	ZNF860	ENSG00000197385	ENST00000489408	processed_transcript	KNOWN	None	34513	None	None	32023263	32030417	1	None	None
3	ZNF860	ENSG00000197385	ENST00000360311	protein_coding	KNOWN	CCDS46784	34513	1899	632	32023266	32033120	1	None	None
5	None	ENSG00000255622	ENST00000539533	protein_coding	KNOWN	None	None	1764	587	140535577	140538639	1	None	None
17	C17orf47	ENSG00000181013	ENST00000321691	protein_coding	KNOWN	CCDS32691	26844	1713	570	56618948	56621729	-1	None	FLJ40121
3	SSR3	ENSG00000114850	ENST00000265044	protein_coding	KNOWN	CCDS3176	11325	558	185	156257929	156272973	-1	None	TRAPG
3	SSR3	ENSG00000114850	ENST00000467789	protein_coding	NOVEL	None	11325	597	198	156260610	156272938	-1	None	TRAPG
3	SSR3	ENSG00000114850	ENST00000498205	retained_intron	KNOWN	None	11325	None	None	156260793	156266888	-1	None	TRAPG
3	SSR3	ENSG00000114850	ENST00000476217	protein_coding	PUTATIVE	None	11325	525	174	156260793	156272914	-1	None	TRAPG
3	SSR3	ENSG00000114850	ENST00000478842	processed_transcript	KNOWN	None	11325	None	None	156260797	156269305	-1	None	TRAPG
3	SSR3	ENSG00000114850	ENST00000464138	processed_transcript	PUTATIVE	None	11325	None	None	156260851	156266786	-1	None	TRAPG
3	SSR3	ENSG00000114850	ENST00000463503	protein_coding	PUTATIVE	None	11325	402	133	156260930	156272634	-1	None	TRAPG
3	SSR3	ENSG00000114850	ENST00000496050	protein_coding	PUTATIVE	None	11325	402	133	156260971	156271914	-1	None	TRAPG
3	SSR3	ENSG00000114850	ENST00000467733	retained_intron	KNOWN	None	11325	None	None	156261743	156272906	-1	None	TRAPG
10	None	ENSG00000229418	ENST00000454484	antisense	KNOWN	None	None	None	None	98052442	98066452	-1	None	None
HSCHR6_MHC_COX	None	ENSG00000263778	ENST00000578098	miRNA	NOVEL	None	None	None	None	28615937	28616005	-1	None	None
16	PAGR1	ENSG00000185928	ENST00000320330	protein_coding	KNOWN	CCDS10655	28707	765	254	29827285	29831759	1	C16orf53	MGC4606, GAS, PA1
10	None	ENSG00000238900	ENST00000458754	snoRNA	NOVEL	None	None	None	None	12187662	12187765	1	None	None
10	NPM1P26	ENSG00000235677	ENST00000426339	processed_pseudogene	KNOWN	None	45205	None	None	98319942	98320679	1	None	None
17	KRTAP9-3	ENSG00000204873	ENST00000411528	protein_coding	KNOWN	CCDS11385	16927	480	159	39388715	39389705	1	None	KAP9.3
HSCHR6_MHC_QBL	NEU1	ENSG00000184494	ENST00000493354	retained_intron	KNOWN	None	7758	None	None	31815830	31820967	-1	NEU	None
HSCHR6_MHC_QBL	NEU1	ENSG00000184494	ENST00000495330	retained_intron	KNOWN	None	7758	None	None	31817223	31820976	-1	NEU	None
HSCHR6_MHC_QBL	NEU1	ENSG00000184494	ENST00000473226	nonsense_mediated_decay	KNOWN	None	7758	219	72	31817223	31820987	-1	NEU	None
HSCHR6_MHC_QBL	NEU1	ENSG00000184494	ENST00000486127	nonsense_mediated_decay	KNOWN	None	7758	804	267	31817223	31820993	-1	NEU	None
HSCHR6_MHC_QBL	NEU1	ENSG00000184494	ENST00000229725	protein_coding	KNOWN	None	7758	1248	415	31817223	31821077	-1	NEU	None
9	C9orf129	ENSG00000204352	ENST00000375419	protein_coding	KNOWN	CCDS43850	31116	591	196	96080481	96108696	-1	None	bA165J3.3
22	PPIL2	ENSG00000100023	ENST00000498589	processed_transcript	KNOWN	None	9261	None	None	22006559	22024526	1	None	UBOX7, CYC4, Cyp-60
22	PPIL2	ENSG00000100023	ENST00000496819	retained_intron	KNOWN	None	9261	None	None	22020298	22024572	1	None	UBOX7, CYC4, Cyp-60
22	PPIL2	ENSG00000100023	ENST00000335025	protein_coding	KNOWN	CCDS13793	9261	1563	520	22020298	22052192	1	None	UBOX7, CYC4, Cyp-60
22	PPIL2	ENSG00000100023	ENST00000398831	protein_coding	KNOWN	CCDS13793	9261	1563	520	22020311	22050712	1	None	UBOX7, CYC4, Cyp-60
22	PPIL2	ENSG00000100023	ENST00000458567	protein_coding	PUTATIVE	None	9261	480	159	22020312	22035679	1	None	UBOX7, CYC4, Cyp-60
22	PPIL2	ENSG00000100023	ENST00000417788	nonsense_mediated_decay	KNOWN	None	9261	126	41	22020312	22052201	1	None	UBOX7, CYC4, Cyp-60
22	PPIL2	ENSG00000100023	ENST00000484439	processed_transcript	KNOWN	None	9261	None	None	22020318	22039167	1	None	UBOX7, CYC4, Cyp-60
22	PPIL2	ENSG00000100023	ENST00000406385	protein_coding	KNOWN	CCDS13793	9261	1563	520	22020329	22052565	1	None	UBOX7, CYC4, Cyp-60
22	PPIL2	ENSG00000100023	ENST00000498109	retained_intron	KNOWN	None	9261	None	None	22020368	22025314	1	None	UBOX7, CYC4, Cyp-60
22	PPIL2	ENSG00000100023	ENST00000485930	processed_transcript	KNOWN	None	9261	None	None	22026619	22027898	1	None	UBOX7, CYC4, Cyp-60
22	PPIL2	ENSG00000100023	ENST00000446951	protein_coding	PUTATIVE	None	9261	903	300	22039962	22052190	1	None	UBOX7, CYC4, Cyp-60
22	PPIL2	ENSG00000100023	ENST00000462188	retained_intron	KNOWN	None	9261	None	None	22048950	22052191	1	None	UBOX7, CYC4, Cyp-60
22	PPIL2	ENSG00000100023	ENST00000412327	protein_coding	KNOWN	CCDS46670	9261	1584	527	22020273	22052201	1	None	UBOX7, CYC4, Cyp-60
22	PPIL2	ENSG00000100023	ENST00000456792	protein_coding	KNOWN	None	9261	1470	489	22020358	22051472	1	None	UBOX7, CYC4, Cyp-60
22	PPIL2	ENSG00000100023	ENST00000492445	protein_coding	KNOWN	CCDS13793	9261	1563	520	22020311	22050349	1	None	UBOX7, CYC4, Cyp-60
1	GPSM2	ENSG00000121957	ENST00000406462	protein_coding	KNOWN	CCDS792	29501	2055	684	109417972	109473044	1	DFNB82	LGN, Pins
1	GPSM2	ENSG00000121957	ENST00000435987	protein_coding	KNOWN	None	29501	640	212	109419603	109441346	1	DFNB82	LGN, Pins
1	GPSM2	ENSG00000121957	ENST00000435475	protein_coding	KNOWN	None	29501	225	74	109419878	109439654	1	DFNB82	LGN, Pins
1	GPSM2	ENSG00000121957	ENST00000446797	protein_coding	KNOWN	None	29501	156	51	109420030	109439585	1	DFNB82	LGN, Pins
1	GPSM2	ENSG00000121957	ENST00000441735	protein_coding	PUTATIVE	None	29501	653	216	109456999	109466983	1	DFNB82	LGN, Pins
1	GPSM2	ENSG00000121957	ENST00000264126	protein_coding	KNOWN	CCDS792	29501	2055	684	109419603	109473043	1	DFNB82	LGN, Pins
10	RNA5SP324	ENSG00000202047	ENST00000365177	rRNA	KNOWN	None	43224	None	None	98379133	98379240	1	RN5S324	None
5	PCDHB7	ENSG00000113212	ENST00000231137	protein_coding	KNOWN	CCDS4249	8692	2382	793	140552243	140555957	1	None	PCDH-BETA7
10	None	ENSG00000227032	ENST00000456516	processed_pseudogene	KNOWN	None	None	None	None	98380634	98381464	-1	None	None
6	HLA-DPB2	ENSG00000224557	ENST00000435074	processed_transcript	KNOWN	None	4941	None	None	33080228	33086926	1	HLA-DP2B	DP2B, DPB2
6	HLA-DPB2	ENSG00000224557	ENST00000470997	transcribed_unprocessed_pseudogene	KNOWN	None	4941	None	None	33080293	33096861	1	HLA-DP2B	DP2B, DPB2
6	HLA-DPB2	ENSG00000224557	ENST00000435499	unprocessed_pseudogene	KNOWN	None	4941	None	None	33080254	33102442	1	HLA-DP2B	DP2B, DPB2
12	HOXC6	ENSG00000197757	ENST00000504315	protein_coding	KNOWN	None	5128	155	50	54384408	54422706	1	HOX3C, HOX3	None
12	HOXC6	ENSG00000197757	ENST00000509328	protein_coding	KNOWN	None	5128	213	70	54388728	54423473	1	HOX3C, HOX3	None
12	HOXC6	ENSG00000197757	ENST00000394331	protein_coding	KNOWN	CCDS41792	5128	462	153	54409681	54424517	1	HOX3C, HOX3	None
12	HOXC6	ENSG00000197757	ENST00000243108	protein_coding	KNOWN	CCDS8871	5128	708	235	54422142	54424607	1	HOX3C, HOX3	None
10	RNU6-1274P	ENSG00000207287	ENST00000384557	snRNA	KNOWN	None	48237	None	None	98502924	98503030	1	None	None
1	PRAMEF19	ENSG00000204480	ENST00000376101	protein_coding	KNOWN	None	24908	1233	410	13695525	13698151	-1	None	OTTHUMG00000007919
1	PRAMEF19	ENSG00000204480	ENST00000540591	protein_coding	KNOWN	None	24908	1440	479	13694889	13698405	-1	None	OTTHUMG00000007919
17	MYH8	ENSG00000133020	ENST00000403437	protein_coding	KNOWN	CCDS11153	7578	5814	1937	10293639	10325267	-1	None	MyHC-peri, MyHC-pn
X	HMGN1P34	ENSG00000224755	ENST00000413023	processed_pseudogene	KNOWN	None	39378	None	None	77775090	77775683	-1	None	None
10	RPL13AP5	ENSG00000236552	ENST00000439189	processed_pseudogene	KNOWN	None	23736	None	None	98510045	98510656	1	None	bA196N24.2
10	RPL13AP5	ENSG00000236552	ENST00000270634	pseudogene	KNOWN	None	23736	None	None	98510045	98510675	1	None	bA196N24.2
HSCHR6_MHC_COX	LINC00533	ENSG00000249032	ENST00000504412	processed_transcript	KNOWN	None	18690	None	None	28616026	28622216	-1	C6orf38	bA373N24.1, C6orf39
HSCHR6_MHC_COX	LINC00533	ENSG00000249032	ENST00000512141	processed_transcript	KNOWN	None	18690	None	None	28616595	28622258	-1	C6orf38	bA373N24.1, C6orf39
17	TMEM98	ENSG00000006042	ENST00000394642	protein_coding	KNOWN	CCDS11274	24529	681	226	31254928	31268631	1	None	DKFZP564K1964
17	TMEM98	ENSG00000006042	ENST00000579849	protein_coding	KNOWN	CCDS11274	24529	681	226	31254955	31271333	1	None	DKFZP564K1964
17	TMEM98	ENSG00000006042	ENST00000395149	protein_coding	KNOWN	None	24529	413	136	31255063	31263465	1	None	DKFZP564K1964
17	TMEM98	ENSG00000006042	ENST00000261713	protein_coding	NOVEL	None	24529	605	200	31255089	31267995	1	None	DKFZP564K1964
17	TMEM98	ENSG00000006042	ENST00000582227	retained_intron	KNOWN	None	24529	None	None	31255222	31261381	1	None	DKFZP564K1964
17	TMEM98	ENSG00000006042	ENST00000578289	protein_coding	PUTATIVE	None	24529	417	138	31255222	31272124	1	None	DKFZP564K1964
17	TMEM98	ENSG00000006042	ENST00000439138	protein_coding	KNOWN	None	24529	666	221	31255228	31267996	1	None	DKFZP564K1964
17	TMEM98	ENSG00000006042	ENST00000583437	protein_coding	KNOWN	None	24529	281	92	31258052	31261326	1	None	DKFZP564K1964
17	TMEM98	ENSG00000006042	ENST00000583120	retained_intron	KNOWN	None	24529	None	None	31258405	31263486	1	None	DKFZP564K1964
X	UBE2V1P7	ENSG00000235061	ENST00000446395	processed_pseudogene	KNOWN	None	44890	None	None	77809909	77810248	-1	None	None
16	BBS2	ENSG00000125124	ENST00000564123	protein_coding	PUTATIVE	None	967	256	84	56500748	56519650	-1	BBS	None
16	BBS2	ENSG00000125124	ENST00000564459	protein_coding	PUTATIVE	None	967	429	142	56504315	56531714	-1	BBS	None
16	BBS2	ENSG00000125124	ENST00000568104	protein_coding	NOVEL	None	967	2028	675	56518257	56553953	-1	BBS	None
16	BBS2	ENSG00000125124	ENST00000565781	retained_intron	KNOWN	None	967	None	None	56518297	56553999	-1	BBS	None
16	BBS2	ENSG00000125124	ENST00000245157	protein_coding	KNOWN	CCDS32451	967	2166	721	56518297	56554195	-1	BBS	None
16	BBS2	ENSG00000125124	ENST00000562813	retained_intron	KNOWN	None	967	None	None	56518300	56534831	-1	BBS	None
16	BBS2	ENSG00000125124	ENST00000569192	retained_intron	KNOWN	None	967	None	None	56519519	56533890	-1	BBS	None
16	BBS2	ENSG00000125124	ENST00000566495	retained_intron	KNOWN	None	967	None	None	56531655	56535506	-1	BBS	None
16	BBS2	ENSG00000125124	ENST00000561877	nonsense_mediated_decay	KNOWN	None	967	229	75	56531688	56534858	-1	BBS	None
16	BBS2	ENSG00000125124	ENST00000566410	processed_transcript	PUTATIVE	None	967	None	None	56532402	56533835	-1	BBS	None
16	BBS2	ENSG00000125124	ENST00000566452	retained_intron	KNOWN	None	967	None	None	56533613	56534857	-1	BBS	None
16	BBS2	ENSG00000125124	ENST00000566210	retained_intron	KNOWN	None	967	None	None	56533698	56535088	-1	BBS	None
16	BBS2	ENSG00000125124	ENST00000562012	nonsense_mediated_decay	KNOWN	None	967	360	119	56533744	56543901	-1	BBS	None
16	BBS2	ENSG00000125124	ENST00000562059	retained_intron	KNOWN	None	967	None	None	56534794	56535718	-1	BBS	None
16	BBS2	ENSG00000125124	ENST00000569342	retained_intron	KNOWN	None	967	None	None	56535315	56553908	-1	BBS	None
16	BBS2	ENSG00000125124	ENST00000561951	processed_transcript	KNOWN	None	967	None	None	56535559	56545190	-1	BBS	None
16	BBS2	ENSG00000125124	ENST00000561853	retained_intron	KNOWN	None	967	None	None	56536134	56540075	-1	BBS	None
16	BBS2	ENSG00000125124	ENST00000565859	retained_intron	KNOWN	None	967	None	None	56539890	56543879	-1	BBS	None
16	BBS2	ENSG00000125124	ENST00000569941	protein_coding	PUTATIVE	None	967	15	4	56543869	56550043	-1	BBS	None
16	BBS2	ENSG00000125124	ENST00000566689	processed_transcript	KNOWN	None	967	None	None	56543894	56553533	-1	BBS	None
16	BBS2	ENSG00000125124	ENST00000565378	processed_transcript	KNOWN	None	967	None	None	56543916	56553968	-1	BBS	None
5	None	ENSG00000248588	ENST00000502383	lincRNA	KNOWN	None	None	None	None	92161962	92179711	1	None	None
22	PACSIN2	ENSG00000100266	ENST00000507586	nonsense_mediated_decay	KNOWN	None	8571	178	58	43231418	43272213	-1	None	SDPII
22	PACSIN2	ENSG00000100266	ENST00000487119	processed_transcript	KNOWN	None	8571	None	None	43243575	43275158	-1	None	SDPII
22	PACSIN2	ENSG00000100266	ENST00000496919	processed_transcript	KNOWN	None	8571	None	None	43243575	43289560	-1	None	SDPII
22	PACSIN2	ENSG00000100266	ENST00000263246	protein_coding	KNOWN	CCDS43023	8571	1461	486	43265777	43411151	-1	None	SDPII
22	PACSIN2	ENSG00000100266	ENST00000407585	protein_coding	KNOWN	CCDS54536	8571	1338	445	43265781	43355887	-1	None	SDPII
22	PACSIN2	ENSG00000100266	ENST00000403744	protein_coding	KNOWN	CCDS43023	8571	1461	486	43266936	43343047	-1	None	SDPII
22	PACSIN2	ENSG00000100266	ENST00000402229	protein_coding	KNOWN	CCDS43023	8571	1461	486	43267134	43355884	-1	None	SDPII
22	PACSIN2	ENSG00000100266	ENST00000453643	protein_coding	KNOWN	None	8571	465	154	43286941	43411141	-1	None	SDPII
22	PACSIN2	ENSG00000100266	ENST00000418133	protein_coding	KNOWN	None	8571	456	151	43286950	43341879	-1	None	SDPII
22	PACSIN2	ENSG00000100266	ENST00000422336	protein_coding	KNOWN	None	8571	456	151	43286950	43398446	-1	None	SDPII
22	PACSIN2	ENSG00000100266	ENST00000445706	nonsense_mediated_decay	KNOWN	None	8571	105	34	43289463	43411104	-1	None	SDPII
22	PACSIN2	ENSG00000100266	ENST00000453079	protein_coding	KNOWN	None	8571	100	32	43289580	43355905	-1	None	SDPII
22	PACSIN2	ENSG00000100266	ENST00000337959	protein_coding	KNOWN	CCDS54536	8571	1338	445	43265777	43411151	-1	None	SDPII
14	IGHG2	ENSG00000211893	ENST00000390545	IG_C_gene	KNOWN	None	5526	981	326	106109389	106111127	-1	None	None
3	GPD1L	ENSG00000152642	ENST00000429432	protein_coding	PUTATIVE	None	28956	383	126	32147181	32181853	1	None	KIAA0089
3	GPD1L	ENSG00000152642	ENST00000282541	protein_coding	KNOWN	CCDS33729	28956	1056	351	32148003	32210205	1	None	KIAA0089
3	GPD1L	ENSG00000152642	ENST00000428684	nonsense_mediated_decay	KNOWN	None	28956	195	64	32148104	32201107	1	None	KIAA0089
3	GPD1L	ENSG00000152642	ENST00000425459	protein_coding	PUTATIVE	None	28956	520	172	32148125	32200410	1	None	KIAA0089
3	GPD1L	ENSG00000152642	ENST00000431009	protein_coding	PUTATIVE	None	28956	432	143	32148191	32188157	1	None	KIAA0089
3	GPD1L	ENSG00000152642	ENST00000474846	retained_intron	KNOWN	None	28956	None	None	32199826	32210198	1	None	KIAA0089
3	GPD1L	ENSG00000152642	ENST00000496151	retained_intron	KNOWN	None	28956	None	None	32200249	32207380	1	None	KIAA0089
10	MIR607	ENSG00000207976	ENST00000385241	miRNA	KNOWN	None	32863	None	None	98588426	98588521	-1	MIRN607	hsa-mir-607
4	LTV1P1	ENSG00000250219	ENST00000510683	processed_pseudogene	KNOWN	None	44049	None	None	121012201	121013437	-1	None	None
11	DRD2	ENSG00000149295	ENST00000346454	protein_coding	KNOWN	CCDS8362	3023	1245	414	113280337	113345842	-1	None	None
11	DRD2	ENSG00000149295	ENST00000362072	protein_coding	KNOWN	CCDS8361	3023	1332	443	113280337	113346111	-1	None	None
11	DRD2	ENSG00000149295	ENST00000544518	protein_coding	NOVEL	None	3023	1329	442	113280338	113295406	-1	None	None
11	DRD2	ENSG00000149295	ENST00000542968	protein_coding	KNOWN	CCDS8361	3023	1332	443	113280635	113295694	-1	None	None
11	DRD2	ENSG00000149295	ENST00000538967	protein_coding	KNOWN	None	3023	1338	445	113281294	113295373	-1	None	None
11	DRD2	ENSG00000149295	ENST00000540600	retained_intron	KNOWN	None	3023	None	None	113284586	113346413	-1	None	None
11	DRD2	ENSG00000149295	ENST00000535984	processed_transcript	PUTATIVE	None	3023	None	None	113285097	113295229	-1	None	None
11	DRD2	ENSG00000149295	ENST00000539420	retained_intron	KNOWN	None	3023	None	None	113286016	113288839	-1	None	None
11	DRD2	ENSG00000149295	ENST00000543292	protein_coding	KNOWN	None	3023	532	176	113287585	113318443	-1	None	None
11	DRD2	ENSG00000149295	ENST00000542616	protein_coding	KNOWN	None	3023	22	6	113295352	113346001	-1	None	None
11	DRD2	ENSG00000149295	ENST00000355319	protein_coding	KNOWN	None	3023	1338	445	113280318	113346001	-1	None	None
17	KRTAP9-8	ENSG00000187272	ENST00000254072	protein_coding	KNOWN	CCDS42334	17231	480	159	39394297	39395256	1	None	KAP9.8
22	None	ENSG00000235689	ENST00000440539	unprocessed_pseudogene	KNOWN	None	None	None	None	24402751	24404704	-1	None	None
22	None	ENSG00000232545	ENST00000444093	sense_intronic	KNOWN	None	None	None	None	24497652	24499317	1	None	None
11	OR51B4	ENSG00000183251	ENST00000380224	protein_coding	KNOWN	CCDS7757	14708	933	310	5322244	5323226	-1	None	None
5	CDX1	ENSG00000113722	ENST00000231656	protein_coding	KNOWN	CCDS4304	1805	798	265	149546358	149564120	1	None	None
4	None	ENSG00000225665	ENST00000434012	processed_pseudogene	KNOWN	None	None	None	None	121263211	121263802	1	None	None
4	None	ENSG00000225665	ENST00000600592	processed_pseudogene	KNOWN	None	None	None	None	121263212	121263784	1	None	None
1	PRAMEF17	ENSG00000204479	ENST00000376098	protein_coding	KNOWN	CCDS41264	29485	1425	474	13716092	13719089	1	None	OTTHUMG00000007909
3	PROK2	ENSG00000163421	ENST00000353065	protein_coding	KNOWN	CCDS2916	18455	327	108	71820807	71834357	-1	None	PK2, BV8, MIT1, KAL4
3	PROK2	ENSG00000163421	ENST00000295619	protein_coding	KNOWN	CCDS46868	18455	390	129	71821252	71834212	-1	None	PK2, BV8, MIT1, KAL4
17	KRTAP9-4	ENSG00000241595	ENST00000334109	protein_coding	KNOWN	CCDS11386	18902	465	154	39405939	39406904	1	None	KAP9.4
X	PPATP2	ENSG00000271433	ENST00000605635	processed_pseudogene	KNOWN	None	48738	None	None	77954881	77955388	-1	None	None
6	HLA-DPA3	ENSG00000237398	ENST00000454398	unprocessed_pseudogene	KNOWN	None	19393	None	None	33098993	33111102	-1	None	None
16	None	ENSG00000263136	ENST00000562285	nonsense_mediated_decay	KNOWN	None	None	254	83	29828560	29841948	1	None	None
22	None	ENSG00000230712	ENST00000402176	unprocessed_pseudogene	KNOWN	None	None	None	None	24644042	24645434	-1	None	None
17	KRTAP9-9	ENSG00000198083	ENST00000394008	protein_coding	KNOWN	CCDS54127	16773	510	169	39411636	39412616	1	KRTAP9-5	KAP9.9, KAP9.5
7	TRRAP	ENSG00000196367	ENST00000417523	protein_coding	KNOWN	None	12347	215	70	98475556	98488022	1	None	TR-AP, PAF400, Tra1
7	TRRAP	ENSG00000196367	ENST00000359863	protein_coding	KNOWN	CCDS59066	12347	11580	3859	98476113	98610866	1	None	TR-AP, PAF400, Tra1
7	TRRAP	ENSG00000196367	ENST00000355540	protein_coding	KNOWN	CCDS5659	12347	11493	3830	98476113	98610866	1	None	TR-AP, PAF400, Tra1
7	TRRAP	ENSG00000196367	ENST00000446306	protein_coding	NOVEL	None	12347	11547	3848	98478713	98610862	1	None	TR-AP, PAF400, Tra1
7	TRRAP	ENSG00000196367	ENST00000456197	protein_coding	NOVEL	None	12347	10766	3587	98498303	98610866	1	None	TR-AP, PAF400, Tra1
7	TRRAP	ENSG00000196367	ENST00000480695	retained_intron	KNOWN	None	12347	None	None	98573583	98575903	1	None	TR-AP, PAF400, Tra1
6	HCG24	ENSG00000230313	ENST00000414398	antisense	KNOWN	None	23500	None	None	33112560	33115544	1	None	dJ1033B10.15
4	None	ENSG00000249409	ENST00000506100	lincRNA	KNOWN	None	None	None	None	121560245	121571943	1	None	None
4	None	ENSG00000249409	ENST00000505556	lincRNA	KNOWN	None	None	None	None	121560264	121571951	1	None	None
X	ACOT9	ENSG00000123130	ENST00000379303	protein_coding	KNOWN	CCDS43924	17152	1347	448	23720370	23761390	-1	None	CGI-16, MT-ACT48, ACATE2
X	ACOT9	ENSG00000123130	ENST00000336430	protein_coding	KNOWN	CCDS35216	17152	1320	439	23721788	23761393	-1	None	CGI-16, MT-ACT48, ACATE2
X	ACOT9	ENSG00000123130	ENST00000379297	retained_intron	KNOWN	None	17152	None	None	23721794	23725317	-1	None	CGI-16, MT-ACT48, ACATE2
X	ACOT9	ENSG00000123130	ENST00000379295	protein_coding	KNOWN	None	17152	1140	379	23721801	23784592	-1	None	CGI-16, MT-ACT48, ACATE2
X	ACOT9	ENSG00000123130	ENST00000494361	nonsense_mediated_decay	KNOWN	None	17152	141	46	23721822	23761407	-1	None	CGI-16, MT-ACT48, ACATE2
X	ACOT9	ENSG00000123130	ENST00000473710	protein_coding	NOVEL	None	17152	793	263	23723175	23751314	-1	None	CGI-16, MT-ACT48, ACATE2
X	ACOT9	ENSG00000123130	ENST00000449612	retained_intron	KNOWN	None	17152	None	None	23725834	23740859	-1	None	CGI-16, MT-ACT48, ACATE2
X	ACOT9	ENSG00000123130	ENST00000492081	protein_coding	PUTATIVE	None	17152	411	136	23725948	23761367	-1	None	CGI-16, MT-ACT48, ACATE2
17	KRTAP9-6	ENSG00000212659	ENST00000391355	protein_coding	KNOWN	CCDS59286	18914	483	160	39421591	39422893	1	KRTAP9L2	KAP9.6
12	MRPS35	ENSG00000061794	ENST00000081029	protein_coding	KNOWN	CCDS8714	16635	972	323	27863706	27909228	1	None	MRPS28, MDS023
12	MRPS35	ENSG00000061794	ENST00000536569	nonsense_mediated_decay	KNOWN	None	16635	126	41	27863755	27888433	1	None	MRPS28, MDS023
12	MRPS35	ENSG00000061794	ENST00000538315	protein_coding	KNOWN	CCDS53769	16635	585	194	27863768	27909227	1	None	MRPS28, MDS023
12	MRPS35	ENSG00000061794	ENST00000542791	protein_coding	PUTATIVE	None	16635	117	38	27863780	27908470	1	None	MRPS28, MDS023
12	MRPS35	ENSG00000061794	ENST00000542199	nonsense_mediated_decay	KNOWN	None	16635	488	161	27863820	27890541	1	None	MRPS28, MDS023
6	RNY4P10	ENSG00000202441	ENST00000365571	misc_RNA	KNOWN	None	34060	None	None	33167378	33167472	1	None	None
17	KRTAP9-7	ENSG00000180386	ENST00000391354	protein_coding	KNOWN	CCDS59287	18915	510	169	39431911	39432949	1	KRTAP9L1	KAP9.7
1	PRAMEF20	ENSG00000204478	ENST00000602960	protein_coding	KNOWN	CCDS41265	25224	1428	475	13742808	13747803	1	None	OTTHUMG00000007911
1	PRAMEF20	ENSG00000204478	ENST00000316412	protein_coding	KNOWN	CCDS41265	25224	1428	475	13736907	13747803	1	None	OTTHUMG00000007911
11	CHRM1	ENSG00000168539	ENST00000306960	protein_coding	KNOWN	CCDS8040	1950	1383	460	62676151	62689153	-1	None	None
11	CHRM1	ENSG00000168539	ENST00000543973	protein_coding	KNOWN	None	1950	1363	453	62677210	62689279	-1	None	None
11	CHRM1	ENSG00000168539	ENST00000536524	protein_coding	KNOWN	None	1950	403	133	62678170	62684413	-1	None	None
10	HMGN2P35	ENSG00000232875	ENST00000412164	processed_pseudogene	KNOWN	None	39406	None	None	98675390	98675659	-1	None	None
6	MIR219-1	ENSG00000199036	ENST00000362166	miRNA	KNOWN	None	31597	None	None	33175612	33175721	1	MIRN219-1	hsa-mir-219-1
5	LDHBP3	ENSG00000248950	ENST00000514909	processed_pseudogene	KNOWN	None	39136	None	None	92176514	92177335	-1	None	None
4	None	ENSG00000214062	ENST00000470927	processed_pseudogene	KNOWN	None	None	None	None	78003556	78004279	-1	None	None
9	FAM120AOS	ENSG00000188938	ENST00000479094	processed_transcript	KNOWN	None	23389	None	None	96208776	96213806	-1	C9orf10OS	None
9	FAM120AOS	ENSG00000188938	ENST00000423591	protein_coding	PUTATIVE	None	23389	225	74	96208776	96213844	-1	C9orf10OS	None
9	FAM120AOS	ENSG00000188938	ENST00000375412	protein_coding	KNOWN	CCDS6705	23389	771	256	96208776	96215874	-1	C9orf10OS	None
9	FAM120AOS	ENSG00000188938	ENST00000523407	processed_transcript	KNOWN	None	23389	None	None	96208807	96213806	-1	C9orf10OS	None
9	FAM120AOS	ENSG00000188938	ENST00000520403	processed_transcript	KNOWN	None	23389	None	None	96208815	96213794	-1	C9orf10OS	None
9	FAM120AOS	ENSG00000188938	ENST00000483149	processed_transcript	KNOWN	None	23389	None	None	96209187	96215539	-1	C9orf10OS	None
9	FAM120AOS	ENSG00000188938	ENST00000520470	processed_transcript	KNOWN	None	23389	None	None	96209187	96215539	-1	C9orf10OS	None
9	FAM120AOS	ENSG00000188938	ENST00000483056	processed_transcript	KNOWN	None	23389	None	None	96209206	96213490	-1	C9orf10OS	None
9	FAM120AOS	ENSG00000188938	ENST00000476484	nonsense_mediated_decay	KNOWN	None	23389	177	58	96209206	96213844	-1	C9orf10OS	None
9	FAM120AOS	ENSG00000188938	ENST00000428152	processed_transcript	KNOWN	None	23389	None	None	96209550	96213396	-1	C9orf10OS	None
9	FAM120AOS	ENSG00000188938	ENST00000428378	protein_coding	PUTATIVE	None	23389	198	65	96209917	96213265	-1	C9orf10OS	None
10	None	ENSG00000221465	ENST00000408538	miRNA	NOVEL	None	None	None	None	98680459	98680548	1	None	None
10	None	ENSG00000231025	ENST00000421806	antisense	KNOWN	None	None	None	None	98752207	98755716	1	None	None
17	KRTAP29-1	ENSG00000212658	ENST00000391353	protein_coding	KNOWN	None	34211	1026	341	39458078	39459103	-1	None	KAP29.2
6	ZNF70P1	ENSG00000225463	ENST00000417480	processed_pseudogene	KNOWN	None	13846	None	None	33183482	33184105	1	ZNF314P	dJ1033B10.7, bCX269C15.3
6	None	ENSG00000262048	ENST00000573303	processed_pseudogene	KNOWN	None	None	None	None	80115957	80116491	-1	None	None
22	POM121L9P	ENSG00000128262	ENST00000414583	processed_transcript	KNOWN	None	30080	None	None	24647796	24661493	1	None	None
22	POM121L9P	ENSG00000128262	ENST00000441984	transcribed_unprocessed_pseudogene	KNOWN	None	30080	None	None	24647973	24649257	1	None	None
22	POM121L9P	ENSG00000128262	ENST00000419222	processed_transcript	KNOWN	None	30080	None	None	24652602	24657868	1	None	None
1	LRRC38	ENSG00000162494	ENST00000376085	protein_coding	KNOWN	CCDS53269	27005	885	294	13801445	13840543	-1	None	None
19	CDKN2D	ENSG00000129355	ENST00000393599	protein_coding	KNOWN	CCDS12244	1790	501	166	10677138	10679654	-1	None	INK4D, p19
19	CDKN2D	ENSG00000129355	ENST00000335766	protein_coding	KNOWN	CCDS12244	1790	501	166	10677277	10679735	-1	None	INK4D, p19
10	None	ENSG00000234855	ENST00000424428	antisense	KNOWN	None	None	None	None	98862513	98863504	1	None	None
17	KRTAP16-1	ENSG00000212657	ENST00000391352	protein_coding	KNOWN	CCDS56032	18916	1554	517	39463952	39465505	-1	None	KAP16.1
6	C6orf1	ENSG00000186577	ENST00000476320	protein_coding	KNOWN	CCDS4790	1340	480	159	34214157	34217247	-1	None	LBH, MGC57858
6	C6orf1	ENSG00000186577	ENST00000481533	protein_coding	KNOWN	CCDS4790	1340	480	159	34214172	34216766	-1	None	LBH, MGC57858
6	C6orf1	ENSG00000186577	ENST00000413013	protein_coding	PUTATIVE	None	1340	420	139	34214172	34216797	-1	None	LBH, MGC57858
6	C6orf1	ENSG00000186577	ENST00000394990	protein_coding	KNOWN	CCDS4790	1340	480	159	34214172	34216817	-1	None	LBH, MGC57858
6	C6orf1	ENSG00000186577	ENST00000335352	protein_coding	PUTATIVE	None	1340	420	139	34214172	34216832	-1	None	LBH, MGC57858
6	C6orf1	ENSG00000186577	ENST00000463083	retained_intron	KNOWN	None	1340	None	None	34214226	34216762	-1	None	LBH, MGC57858
6	C6orf1	ENSG00000186577	ENST00000468145	protein_coding	KNOWN	CCDS4790	1340	480	159	34214262	34216766	-1	None	LBH, MGC57858
6	C6orf1	ENSG00000186577	ENST00000495581	retained_intron	KNOWN	None	1340	None	None	34214807	34216831	-1	None	LBH, MGC57858
6	None	ENSG00000231533	ENST00000429444	lincRNA	KNOWN	None	None	None	None	80130014	80131022	1	None	None
6	None	ENSG00000223457	ENST00000432008	processed_pseudogene	KNOWN	None	None	None	None	33205576	33207467	1	None	None
16	None	ENSG00000259923	ENST00000568608	processed_transcript	KNOWN	None	None	None	None	56682793	56686548	1	None	None
6	DBIP1	ENSG00000218748	ENST00000401435	processed_pseudogene	KNOWN	None	2692	None	None	80146625	80146884	-1	DBIL2	None
16	GINS2	ENSG00000131153	ENST00000253462	protein_coding	KNOWN	CCDS10953	24575	558	185	85709804	85722605	-1	None	PSF2, Pfs2
16	GINS2	ENSG00000131153	ENST00000595355	protein_coding	PUTATIVE	None	24575	207	68	85712176	85721631	-1	None	PSF2, Pfs2
16	GINS2	ENSG00000131153	ENST00000596233	protein_coding	PUTATIVE	None	24575	154	50	85712229	85723679	-1	None	PSF2, Pfs2
16	None	ENSG00000259827	ENST00000567563	processed_transcript	KNOWN	None	None	None	None	56716382	56721719	1	None	None
17	KRTAP17-1	ENSG00000186860	ENST00000334202	protein_coding	KNOWN	CCDS11387	18917	318	105	39471173	39471947	-1	None	KAP17.1
6	None	ENSG00000261970	ENST00000571144	processed_pseudogene	KNOWN	None	None	None	None	80262511	80262877	1	None	None
6	None	ENSG00000272137	ENST00000607718	lincRNA	KNOWN	None	None	None	None	80270849	80271319	1	None	None
16	DPPA2P4	ENSG00000261429	ENST00000563717	processed_pseudogene	KNOWN	None	44629	None	None	56720763	56721964	1	None	None
6	None	ENSG00000235357	ENST00000438797	lincRNA	KNOWN	None	None	None	None	80513300	80516942	-1	None	None
6	None	ENSG00000221470	ENST00000408543	miRNA	NOVEL	None	None	None	None	80536510	80536602	-1	None	None
16	None	ENSG00000261302	ENST00000561663	antisense	KNOWN	None	None	None	None	56742684	56763880	-1	None	None
16	None	ENSG00000261302	ENST00000564560	antisense	KNOWN	None	None	None	None	56743137	56763880	-1	None	None
17	KRT33A	ENSG00000006059	ENST00000007735	protein_coding	KNOWN	CCDS11388	6450	1215	404	39502344	39507064	-1	KRTHA3A	Ha-3I, Krt1-3
4	None	ENSG00000271676	ENST00000603335	processed_pseudogene	KNOWN	None	None	None	None	78033648	78034611	-1	None	None
22	BCRP1	ENSG00000225098	ENST00000444246	unprocessed_pseudogene	KNOWN	None	39073	None	None	24655897	24659732	-1	None	BCR-1
12	KLRG1	ENSG00000139187	ENST00000539240	protein_coding	PUTATIVE	None	6380	244	80	9102640	9162044	1	None	MAFA, 2F1, MAFA-L, CLEC15A
12	KLRG1	ENSG00000139187	ENST00000544226	processed_transcript	KNOWN	None	6380	None	None	9102703	9162112	1	None	MAFA, 2F1, MAFA-L, CLEC15A
12	KLRG1	ENSG00000139187	ENST00000538029	processed_transcript	KNOWN	None	6380	None	None	9102721	9162659	1	None	MAFA, 2F1, MAFA-L, CLEC15A
12	KLRG1	ENSG00000139187	ENST00000541957	processed_transcript	KNOWN	None	6380	None	None	9123025	9144888	1	None	MAFA, 2F1, MAFA-L, CLEC15A
12	KLRG1	ENSG00000139187	ENST00000356986	protein_coding	KNOWN	CCDS8599	6380	570	189	9142137	9162674	1	None	MAFA, 2F1, MAFA-L, CLEC15A
12	KLRG1	ENSG00000139187	ENST00000266551	protein_coding	KNOWN	None	6380	588	195	9142217	9163356	1	None	MAFA, 2F1, MAFA-L, CLEC15A
12	KLRG1	ENSG00000139187	ENST00000543895	protein_coding	PUTATIVE	None	6380	241	79	9144666	9162041	1	None	MAFA, 2F1, MAFA-L, CLEC15A
4	RNU6-1187P	ENSG00000201641	ENST00000364771	snRNA	KNOWN	None	48150	None	None	78071481	78071590	-1	None	None
16	MIR138-2	ENSG00000207649	ENST00000384916	miRNA	KNOWN	None	31525	None	None	56892430	56892513	1	MIRN138-2	hsa-mir-138-2
4	None	ENSG00000270669	ENST00000603341	processed_pseudogene	KNOWN	None	None	None	None	78137569	78138031	-1	None	None
16	RPS24P17	ENSG00000243988	ENST00000479895	processed_pseudogene	KNOWN	None	36348	None	None	56940446	56940868	1	None	None
10	None	ENSG00000272381	ENST00000605929	lincRNA	KNOWN	None	None	None	None	31476812	31550839	1	None	None
5	SLU7	ENSG00000164609	ENST00000297151	protein_coding	KNOWN	CCDS4352	16939	1761	586	159828648	159846401	-1	None	9G8
5	SLU7	ENSG00000164609	ENST00000521320	retained_intron	KNOWN	None	16939	None	None	159830160	159831626	-1	None	9G8
5	SLU7	ENSG00000164609	ENST00000520841	retained_intron	KNOWN	None	16939	None	None	159833356	159835428	-1	None	9G8
5	SLU7	ENSG00000164609	ENST00000523219	retained_intron	KNOWN	None	16939	None	None	159833372	159834817	-1	None	9G8
5	SLU7	ENSG00000164609	ENST00000521826	protein_coding	KNOWN	None	16939	431	142	159840602	159848718	-1	None	9G8
5	SLU7	ENSG00000164609	ENST00000521190	retained_intron	KNOWN	None	16939	None	None	159840809	159846088	-1	None	9G8
5	SLU7	ENSG00000164609	ENST00000519349	protein_coding	KNOWN	None	16939	372	123	159840939	159846088	-1	None	9G8
5	SLU7	ENSG00000164609	ENST00000518268	retained_intron	KNOWN	None	16939	None	None	159841124	159846088	-1	None	9G8
5	SLU7	ENSG00000164609	ENST00000520664	protein_coding	KNOWN	None	16939	305	100	159841345	159846088	-1	None	9G8
4	ETFDH	ENSG00000171503	ENST00000512251	protein_coding	PUTATIVE	None	3483	114	37	159593277	159601759	1	None	ETFQO
4	ETFDH	ENSG00000171503	ENST00000511912	protein_coding	KNOWN	CCDS3800	3483	1854	617	159593277	159630775	1	None	ETFQO
4	ETFDH	ENSG00000171503	ENST00000507475	protein_coding	PUTATIVE	None	3483	493	163	159593459	159620154	1	None	ETFQO
4	ETFDH	ENSG00000171503	ENST00000510353	processed_transcript	KNOWN	None	3483	None	None	159593468	159601253	1	None	ETFQO
4	ETFDH	ENSG00000171503	ENST00000436096	processed_transcript	KNOWN	None	3483	None	None	159593468	159603576	1	None	ETFQO
4	ETFDH	ENSG00000171503	ENST00000307738	protein_coding	PUTATIVE	None	3483	1713	570	159593491	159629751	1	None	ETFQO
4	ETFDH	ENSG00000171503	ENST00000506422	processed_transcript	KNOWN	None	3483	None	None	159593557	159629720	1	None	ETFQO
4	ETFDH	ENSG00000171503	ENST00000514148	retained_intron	KNOWN	None	3483	None	None	159603094	159605927	1	None	ETFQO
16	None	ENSG00000261270	ENST00000565861	sense_intronic	KNOWN	None	None	None	None	56974190	56975254	1	None	None
5	SLC6A7	ENSG00000011083	ENST00000230671	protein_coding	KNOWN	CCDS4305	11054	1911	636	149569520	149590635	1	None	PROT
5	SLC6A7	ENSG00000011083	ENST00000524041	protein_coding	PUTATIVE	None	11054	2001	666	149569648	149602351	1	None	PROT
5	SLC6A7	ENSG00000011083	ENST00000513403	retained_intron	KNOWN	None	11054	None	None	149569814	149574767	1	None	PROT
16	None	ENSG00000261114	ENST00000570210	sense_intronic	KNOWN	None	None	None	None	56974940	56975638	1	None	None
12	RAPGEF3	ENSG00000079337	ENST00000449771	protein_coding	KNOWN	CCDS41775	16629	2772	923	48130841	48152428	-1	None	cAMP-GEFI, EPAC, bcm910
12	RAPGEF3	ENSG00000079337	ENST00000547856	nonsense_mediated_decay	KNOWN	None	16629	240	79	48131027	48152355	-1	None	cAMP-GEFI, EPAC, bcm910
12	RAPGEF3	ENSG00000079337	ENST00000549151	protein_coding	KNOWN	CCDS31784	16629	2646	881	48131029	48164817	-1	None	cAMP-GEFI, EPAC, bcm910
12	RAPGEF3	ENSG00000079337	ENST00000395360	retained_intron	KNOWN	None	16629	None	None	48131039	48138689	-1	None	cAMP-GEFI, EPAC, bcm910
12	RAPGEF3	ENSG00000079337	ENST00000482843	retained_intron	KNOWN	None	16629	None	None	48131039	48152557	-1	None	cAMP-GEFI, EPAC, bcm910
12	RAPGEF3	ENSG00000079337	ENST00000479866	retained_intron	KNOWN	None	16629	None	None	48131039	48152621	-1	None	cAMP-GEFI, EPAC, bcm910
12	RAPGEF3	ENSG00000079337	ENST00000488250	retained_intron	KNOWN	None	16629	None	None	48131040	48136075	-1	None	cAMP-GEFI, EPAC, bcm910
12	RAPGEF3	ENSG00000079337	ENST00000389212	protein_coding	KNOWN	CCDS41775	16629	2772	923	48131040	48152639	-1	None	cAMP-GEFI, EPAC, bcm910
12	RAPGEF3	ENSG00000079337	ENST00000548919	protein_coding	NOVEL	None	16629	2445	814	48131323	48164823	-1	None	cAMP-GEFI, EPAC, bcm910
12	RAPGEF3	ENSG00000079337	ENST00000490387	retained_intron	KNOWN	None	16629	None	None	48131979	48133507	-1	None	cAMP-GEFI, EPAC, bcm910
12	RAPGEF3	ENSG00000079337	ENST00000548434	nonsense_mediated_decay	KNOWN	None	16629	554	183	48132527	48135385	-1	None	cAMP-GEFI, EPAC, bcm910
12	RAPGEF3	ENSG00000079337	ENST00000473777	retained_intron	KNOWN	None	16629	None	None	48132950	48135681	-1	None	cAMP-GEFI, EPAC, bcm910
12	RAPGEF3	ENSG00000079337	ENST00000476259	retained_intron	KNOWN	None	16629	None	None	48133242	48134178	-1	None	cAMP-GEFI, EPAC, bcm910
12	RAPGEF3	ENSG00000079337	ENST00000395358	protein_coding	KNOWN	None	16629	1797	598	48138236	48152428	-1	None	cAMP-GEFI, EPAC, bcm910
12	RAPGEF3	ENSG00000079337	ENST00000494764	retained_intron	KNOWN	None	16629	None	None	48140640	48142695	-1	None	cAMP-GEFI, EPAC, bcm910
12	RAPGEF3	ENSG00000079337	ENST00000495465	nonsense_mediated_decay	KNOWN	None	16629	327	108	48141502	48144952	-1	None	cAMP-GEFI, EPAC, bcm910
12	RAPGEF3	ENSG00000079337	ENST00000466322	protein_coding	KNOWN	None	16629	668	221	48143736	48152221	-1	None	cAMP-GEFI, EPAC, bcm910
12	RAPGEF3	ENSG00000079337	ENST00000495953	protein_coding	KNOWN	None	16629	423	140	48144953	48151966	-1	None	cAMP-GEFI, EPAC, bcm910
12	RAPGEF3	ENSG00000079337	ENST00000549347	processed_transcript	PUTATIVE	None	16629	None	None	48146345	48151970	-1	None	cAMP-GEFI, EPAC, bcm910
12	RAPGEF3	ENSG00000079337	ENST00000405493	protein_coding	KNOWN	CCDS31784	16629	2646	881	48128455	48152244	-1	None	cAMP-GEFI, EPAC, bcm910
12	RAPGEF3	ENSG00000079337	ENST00000171000	protein_coding	KNOWN	CCDS31784	16629	2646	881	48131040	48152861	-1	None	cAMP-GEFI, EPAC, bcm910
16	None	ENSG00000263441	ENST00000585112	miRNA	NOVEL	None	None	None	None	56991177	56991273	1	None	None
6	None	ENSG00000272217	ENST00000606432	processed_transcript	KNOWN	None	None	None	None	33213852	33214633	-1	None	None
9	SNX30	ENSG00000148158	ENST00000374232	protein_coding	KNOWN	CCDS43865	23685	1314	437	115513118	115637267	1	None	ATG24A
9	SNX30	ENSG00000148158	ENST00000416585	protein_coding	PUTATIVE	None	23685	374	123	115600865	115628805	1	None	ATG24A
9	SNX30	ENSG00000148158	ENST00000604751	processed_transcript	KNOWN	None	23685	None	None	115618988	115643951	1	None	ATG24A
16	MVP	ENSG00000013364	ENST00000563915	protein_coding	KNOWN	None	7531	661	219	29831715	29847108	1	None	LRP, VAULT1
16	MVP	ENSG00000013364	ENST00000357402	protein_coding	KNOWN	CCDS10656	7531	2682	893	29831729	29859355	1	None	LRP, VAULT1
16	MVP	ENSG00000013364	ENST00000566859	nonsense_mediated_decay	KNOWN	None	7531	246	81	29831773	29851592	1	None	LRP, VAULT1
16	MVP	ENSG00000013364	ENST00000563096	retained_intron	KNOWN	None	7531	None	None	29831787	29842295	1	None	LRP, VAULT1
16	MVP	ENSG00000013364	ENST00000566066	protein_coding	KNOWN	None	7531	283	93	29831794	29842356	1	None	LRP, VAULT1
16	MVP	ENSG00000013364	ENST00000562463	nonsense_mediated_decay	KNOWN	None	7531	174	57	29831794	29845458	1	None	LRP, VAULT1
16	MVP	ENSG00000013364	ENST00000563558	protein_coding	NOVEL	None	7531	434	143	29831794	29852972	1	None	LRP, VAULT1
16	MVP	ENSG00000013364	ENST00000565830	processed_transcript	KNOWN	None	7531	None	None	29831798	29843090	1	None	LRP, VAULT1
16	MVP	ENSG00000013364	ENST00000569887	nonsense_mediated_decay	KNOWN	None	7531	120	39	29831799	29851704	1	None	LRP, VAULT1
16	MVP	ENSG00000013364	ENST00000565164	protein_coding	KNOWN	None	7531	126	41	29832645	29841996	1	None	LRP, VAULT1
16	MVP	ENSG00000013364	ENST00000570234	protein_coding	KNOWN	None	7531	446	147	29832646	29845178	1	None	LRP, VAULT1
16	MVP	ENSG00000013364	ENST00000566252	protein_coding	KNOWN	None	7531	322	106	29840933	29842395	1	None	LRP, VAULT1
16	MVP	ENSG00000013364	ENST00000566554	processed_transcript	KNOWN	None	7531	None	None	29841051	29842222	1	None	LRP, VAULT1
16	MVP	ENSG00000013364	ENST00000569612	retained_intron	KNOWN	None	7531	None	None	29844658	29846826	1	None	LRP, VAULT1
16	MVP	ENSG00000013364	ENST00000563123	nonsense_mediated_decay	KNOWN	None	7531	185	60	29845148	29847106	1	None	LRP, VAULT1
16	MVP	ENSG00000013364	ENST00000570061	processed_transcript	KNOWN	None	7531	None	None	29845507	29851588	1	None	LRP, VAULT1
16	MVP	ENSG00000013364	ENST00000568068	retained_intron	KNOWN	None	7531	None	None	29851415	29853111	1	None	LRP, VAULT1
16	MVP	ENSG00000013364	ENST00000395353	protein_coding	KNOWN	CCDS10656	7531	2682	893	29831788	29859341	1	None	LRP, VAULT1
16	MVP	ENSG00000013364	ENST00000452209	protein_coding	KNOWN	None	7531	480	159	29831773	29853311	1	None	LRP, VAULT1
16	None	ENSG00000259922	ENST00000566704	processed_pseudogene	KNOWN	None	None	None	None	57046983	57048012	-1	None	None
1	FCN3	ENSG00000142748	ENST00000270879	protein_coding	KNOWN	CCDS300	3625	900	299	27695603	27701315	-1	None	FCNH, HAKA1
1	FCN3	ENSG00000142748	ENST00000354982	protein_coding	KNOWN	CCDS301	3625	867	288	27695603	27701315	-1	None	FCNH, HAKA1
1	FCN3	ENSG00000142748	ENST00000498393	retained_intron	KNOWN	None	3625	None	None	27696964	27700169	-1	None	FCNH, HAKA1
1	FCN3	ENSG00000142748	ENST00000481748	retained_intron	KNOWN	None	3625	None	None	27700021	27701296	-1	None	FCNH, HAKA1
17	USP22	ENSG00000124422	ENST00000261497	protein_coding	KNOWN	CCDS42285	12621	1578	525	20902910	20946352	-1	USP3L	KIAA1063
17	USP22	ENSG00000124422	ENST00000537526	protein_coding	KNOWN	None	12621	1542	513	20902910	20947073	-1	USP3L	KIAA1063
17	USP22	ENSG00000124422	ENST00000455117	processed_transcript	KNOWN	None	12621	None	None	20905688	20946688	-1	USP3L	KIAA1063
17	USP22	ENSG00000124422	ENST00000579645	nonsense_mediated_decay	KNOWN	None	12621	585	194	20906285	20947073	-1	USP3L	KIAA1063
17	USP22	ENSG00000124422	ENST00000463692	retained_intron	KNOWN	None	12621	None	None	20907533	20908463	-1	USP3L	KIAA1063
17	USP22	ENSG00000124422	ENST00000478443	retained_intron	KNOWN	None	12621	None	None	20909821	20914927	-1	USP3L	KIAA1063
17	USP22	ENSG00000124422	ENST00000582335	protein_coding	NOVEL	None	12621	306	101	20914543	20922452	-1	USP3L	KIAA1063
17	USP22	ENSG00000124422	ENST00000577610	processed_transcript	KNOWN	None	12621	None	None	20916143	20921654	-1	USP3L	KIAA1063
17	USP22	ENSG00000124422	ENST00000578446	retained_intron	KNOWN	None	12621	None	None	20918964	20924509	-1	USP3L	KIAA1063
17	USP22	ENSG00000124422	ENST00000476111	protein_coding	PUTATIVE	None	12621	375	124	20921255	20945586	-1	USP3L	KIAA1063
17	USP22	ENSG00000124422	ENST00000584538	protein_coding	PUTATIVE	None	12621	321	106	20921309	20946722	-1	USP3L	KIAA1063
16	None	ENSG00000260145	ENST00000562970	antisense	KNOWN	None	None	None	None	57086417	57092409	-1	None	None
5	ANKHD1-EIF4EBP3	ENSG00000254996	ENST00000532219	protein_coding	KNOWN	CCDS4224	33530	7854	2617	139781493	139929154	1	None	MASK-BP3
5	ANKHD1-EIF4EBP3	ENSG00000254996	ENST00000474060	retained_intron	KNOWN	None	33530	None	None	139908411	139929154	1	None	MASK-BP3
5	ANKHD1-EIF4EBP3	ENSG00000254996	ENST00000437495	protein_coding	PUTATIVE	None	33530	1911	636	139908499	139929154	1	None	MASK-BP3
X	None	ENSG00000250534	ENST00000514744	processed_transcript	KNOWN	None	None	None	None	78003228	78010503	1	None	None
10	None	ENSG00000228302	ENST00000598961	antisense	KNOWN	None	None	None	None	12286750	12288157	-1	None	None
10	None	ENSG00000228302	ENST00000421657	antisense	KNOWN	None	None	None	None	12287627	12289844	-1	None	None
6	HCG25	ENSG00000232940	ENST00000450514	antisense	KNOWN	None	20196	None	None	33217311	33222721	1	None	dJ1033B10.16
6	HCG25	ENSG00000232940	ENST00000422366	antisense	KNOWN	None	20196	None	None	33217361	33219716	1	None	dJ1033B10.16
6	HCG25	ENSG00000232940	ENST00000427196	antisense	KNOWN	None	20196	None	None	33217373	33222766	1	None	dJ1033B10.16
6	HCG25	ENSG00000232940	ENST00000442228	antisense	KNOWN	None	20196	None	None	33218056	33219412	1	None	dJ1033B10.16
16	None	ENSG00000260148	ENST00000565829	antisense	KNOWN	None	None	None	None	57125125	57126215	-1	None	None
X	RPL7P54	ENSG00000227645	ENST00000438336	processed_pseudogene	KNOWN	None	36817	None	None	78018723	78019396	1	None	None
16	None	ENSG00000260038	ENST00000562409	sense_intronic	KNOWN	None	None	None	None	57281262	57282404	1	None	None
18	MBD1	ENSG00000141644	ENST00000585672	protein_coding	KNOWN	CCDS59318	6916	1704	567	47793252	47807829	-1	None	PCM1, CXXC3
18	MBD1	ENSG00000141644	ENST00000592060	protein_coding	PUTATIVE	None	6916	1250	415	47793256	47803367	-1	None	PCM1, CXXC3
18	MBD1	ENSG00000141644	ENST00000382948	protein_coding	KNOWN	CCDS11943	6916	1818	605	47793887	47808144	-1	None	PCM1, CXXC3
18	MBD1	ENSG00000141644	ENST00000353909	protein_coding	KNOWN	CCDS11944	6916	1671	556	47795211	47807846	-1	None	PCM1, CXXC3
18	MBD1	ENSG00000141644	ENST00000591416	protein_coding	KNOWN	CCDS11943	6916	1818	605	47795216	47808139	-1	None	PCM1, CXXC3
18	MBD1	ENSG00000141644	ENST00000339998	protein_coding	KNOWN	CCDS56072	6916	1653	550	47795217	47807846	-1	None	PCM1, CXXC3
18	MBD1	ENSG00000141644	ENST00000590208	protein_coding	KNOWN	CCDS59320	6916	1968	655	47795401	47808054	-1	None	PCM1, CXXC3
18	MBD1	ENSG00000141644	ENST00000587605	protein_coding	KNOWN	CCDS59319	6916	1608	535	47795927	47808137	-1	None	PCM1, CXXC3
18	MBD1	ENSG00000141644	ENST00000588937	protein_coding	KNOWN	CCDS32832	6916	1761	586	47795999	47806362	-1	None	PCM1, CXXC3
18	MBD1	ENSG00000141644	ENST00000585595	protein_coding	KNOWN	CCDS56073	6916	1893	630	47796104	47807677	-1	None	PCM1, CXXC3
18	MBD1	ENSG00000141644	ENST00000589541	protein_coding	PUTATIVE	None	6916	723	240	47796108	47801525	-1	None	PCM1, CXXC3
18	MBD1	ENSG00000141644	ENST00000398495	protein_coding	NOVEL	None	6916	1701	566	47797412	47806380	-1	None	PCM1, CXXC3
18	MBD1	ENSG00000141644	ENST00000457839	protein_coding	KNOWN	CCDS56073	6916	1893	630	47797420	47807836	-1	None	PCM1, CXXC3
18	MBD1	ENSG00000141644	ENST00000398493	protein_coding	KNOWN	CCDS11942	6916	1650	549	47797839	47807870	-1	None	PCM1, CXXC3
18	MBD1	ENSG00000141644	ENST00000398488	protein_coding	KNOWN	CCDS11941	6916	1512	503	47797871	47806362	-1	None	PCM1, CXXC3
18	MBD1	ENSG00000141644	ENST00000591535	protein_coding	KNOWN	CCDS56071	6916	1611	536	47797871	47806362	-1	None	PCM1, CXXC3
18	MBD1	ENSG00000141644	ENST00000586884	retained_intron	KNOWN	None	6916	None	None	47798835	47799433	-1	None	PCM1, CXXC3
18	MBD1	ENSG00000141644	ENST00000589733	protein_coding	PUTATIVE	None	6916	767	254	47799978	47803108	-1	None	PCM1, CXXC3
18	MBD1	ENSG00000141644	ENST00000591661	retained_intron	KNOWN	None	6916	None	None	47801499	47802334	-1	None	PCM1, CXXC3
18	MBD1	ENSG00000141644	ENST00000586679	retained_intron	KNOWN	None	6916	None	None	47801527	47802519	-1	None	PCM1, CXXC3
18	MBD1	ENSG00000141644	ENST00000586118	retained_intron	KNOWN	None	6916	None	None	47802021	47807891	-1	None	PCM1, CXXC3
18	MBD1	ENSG00000141644	ENST00000589867	retained_intron	KNOWN	None	6916	None	None	47802787	47807811	-1	None	PCM1, CXXC3
18	MBD1	ENSG00000141644	ENST00000590215	nonsense_mediated_decay	KNOWN	None	6916	135	44	47803084	47808041	-1	None	PCM1, CXXC3
18	MBD1	ENSG00000141644	ENST00000589758	retained_intron	KNOWN	None	6916	None	None	47806116	47807845	-1	None	PCM1, CXXC3
18	MBD1	ENSG00000141644	ENST00000269471	protein_coding	KNOWN	CCDS32832	6916	1761	586	47795217	47808144	-1	None	PCM1, CXXC3
18	MBD1	ENSG00000141644	ENST00000424334	protein_coding	KNOWN	None	6916	1971	656	47796104	47807677	-1	None	PCM1, CXXC3
18	MBD1	ENSG00000141644	ENST00000269468	protein_coding	KNOWN	CCDS11943	6916	1818	605	47795217	47808144	-1	None	PCM1, CXXC3
18	MBD1	ENSG00000141644	ENST00000347968	protein_coding	KNOWN	CCDS11942	6916	1650	549	47795217	47808144	-1	None	PCM1, CXXC3
18	MBD1	ENSG00000141644	ENST00000436910	protein_coding	KNOWN	CCDS56071	6916	1611	536	47795217	47808144	-1	None	PCM1, CXXC3
18	MBD1	ENSG00000141644	ENST00000349085	protein_coding	KNOWN	CCDS11941	6916	1512	503	47795217	47808144	-1	None	PCM1, CXXC3
16	None	ENSG00000260946	ENST00000564376	antisense	KNOWN	None	None	None	None	57282459	57286664	-1	None	None
5	PCDHB8	ENSG00000120322	ENST00000239444	protein_coding	KNOWN	CCDS4250	8693	2406	801	140557371	140560081	1	None	PCDH-BETA8, PCDH3I
14	IGHA1	ENSG00000211895	ENST00000390547	IG_C_gene	KNOWN	None	5478	1062	353	106173457	106175002	-1	None	None
16	None	ENSG00000260965	ENST00000569211	processed_pseudogene	KNOWN	None	None	None	None	57355264	57356029	1	None	None
12	PRMT8	ENSG00000111218	ENST00000452611	protein_coding	KNOWN	CCDS58200	5188	1158	385	3490515	3702348	1	HRMT1L3, HRMT1L4	None
12	PRMT8	ENSG00000111218	ENST00000382622	protein_coding	KNOWN	CCDS8521	5188	1185	394	3600402	3703139	1	HRMT1L3, HRMT1L4	None
12	PRMT8	ENSG00000111218	ENST00000543701	retained_intron	KNOWN	None	5188	None	None	3600425	3703136	1	HRMT1L3, HRMT1L4	None
12	PRMT8	ENSG00000111218	ENST00000261252	processed_transcript	KNOWN	None	5188	None	None	3647380	3703139	1	HRMT1L3, HRMT1L4	None
3	FOXL2	ENSG00000183770	ENST00000330315	protein_coding	KNOWN	CCDS3105	1092	1131	376	138663066	138665982	-1	BPES	BPES1
11	OR51B2	ENSG00000184881	ENST00000328813	protein_coding	KNOWN	CCDS31377	14703	939	312	5344541	5345582	-1	OR51B1P	None
2	UBXN4	ENSG00000144224	ENST00000272638	protein_coding	KNOWN	CCDS42761	14860	1527	508	136499189	136542625	1	UBXDC1, UBXD2	KIAA0242
2	UBXN4	ENSG00000144224	ENST00000415164	protein_coding	NOVEL	None	14860	352	116	136499304	136511758	1	UBXDC1, UBXD2	KIAA0242
2	UBXN4	ENSG00000144224	ENST00000426921	nonsense_mediated_decay	KNOWN	None	14860	198	65	136499356	136519451	1	UBXDC1, UBXD2	KIAA0242
2	UBXN4	ENSG00000144224	ENST00000416538	nonsense_mediated_decay	KNOWN	None	14860	288	95	136499438	136519481	1	UBXDC1, UBXD2	KIAA0242
2	UBXN4	ENSG00000144224	ENST00000467065	processed_transcript	KNOWN	None	14860	None	None	136500093	136505939	1	UBXDC1, UBXD2	KIAA0242
2	UBXN4	ENSG00000144224	ENST00000470687	retained_intron	KNOWN	None	14860	None	None	136505681	136513228	1	UBXDC1, UBXD2	KIAA0242
2	UBXN4	ENSG00000144224	ENST00000490163	processed_transcript	KNOWN	None	14860	None	None	136511722	136542625	1	UBXDC1, UBXD2	KIAA0242
2	UBXN4	ENSG00000144224	ENST00000471246	retained_intron	KNOWN	None	14860	None	None	136530017	136537791	1	UBXDC1, UBXD2	KIAA0242
HSCHR6_MHC_COX	None	ENSG00000257832	ENST00000547907	pseudogene	NOVEL	None	None	None	None	28658641	28659004	1	None	None
10	ZEB1-AS1	ENSG00000237036	ENST00000605946	antisense	KNOWN	None	42354	None	None	31495207	31608620	-1	None	None
10	ZEB1-AS1	ENSG00000237036	ENST00000450834	antisense	KNOWN	None	42354	None	None	31596646	31607964	-1	None	None
10	ZEB1-AS1	ENSG00000237036	ENST00000424191	antisense	KNOWN	None	42354	None	None	31596922	31607861	-1	None	None
10	ZEB1-AS1	ENSG00000237036	ENST00000607166	antisense	KNOWN	None	42354	None	None	31605457	31607959	-1	None	None
10	ZEB1-AS1	ENSG00000237036	ENST00000441257	antisense	KNOWN	None	42354	None	None	31607017	31607956	-1	None	None
10	ZEB1-AS1	ENSG00000237036	ENST00000606286	antisense	KNOWN	None	42354	None	None	31607159	31609376	-1	None	None
10	ZEB1-AS1	ENSG00000237036	ENST00000607455	antisense	KNOWN	None	42354	None	None	31607287	31607991	-1	None	None
10	ZEB1-AS1	ENSG00000237036	ENST00000606250	processed_transcript	KNOWN	None	42354	None	None	31607371	31609280	-1	None	None
10	ZEB1-AS1	ENSG00000237036	ENST00000423714	antisense	KNOWN	None	42354	None	None	31607381	31608810	-1	None	None
HSCHR6_MHC_QBL	C6orf136	ENSG00000206487	ENST00000470883	processed_transcript	KNOWN	None	21301	None	None	30604326	30608572	1	None	Em:AB023049.8
HSCHR6_MHC_QBL	C6orf136	ENSG00000206487	ENST00000459700	processed_transcript	KNOWN	None	21301	None	None	30604342	30610390	1	None	Em:AB023049.8
HSCHR6_MHC_QBL	C6orf136	ENSG00000206487	ENST00000383581	protein_coding	KNOWN	None	21301	948	315	30604360	30610390	1	None	Em:AB023049.8
HSCHR6_MHC_QBL	C6orf136	ENSG00000206487	ENST00000466703	processed_transcript	KNOWN	None	21301	None	None	30604413	30609994	1	None	Em:AB023049.8
HSCHR6_MHC_QBL	C6orf136	ENSG00000206487	ENST00000383580	protein_coding	KNOWN	None	21301	546	181	30604451	30610390	1	None	Em:AB023049.8
HSCHR6_MHC_QBL	C6orf136	ENSG00000206487	ENST00000472973	processed_transcript	KNOWN	None	21301	None	None	30604473	30607200	1	None	Em:AB023049.8
HSCHR6_MHC_QBL	C6orf136	ENSG00000206487	ENST00000424031	protein_coding	KNOWN	None	21301	1302	433	30604708	30610390	1	None	Em:AB023049.8
HSCHR6_MHC_QBL	C6orf136	ENSG00000206487	ENST00000474083	retained_intron	KNOWN	None	21301	None	None	30608294	30610390	1	None	Em:AB023049.8
HSCHR6_MHC_QBL	C6orf136	ENSG00000206487	ENST00000549361	protein_coding	KNOWN	None	21301	1491	496	30604326	30610490	1	None	Em:AB023049.8
11	OR51B5	ENSG00000242180	ENST00000300773	protein_coding	KNOWN	CCDS31378	19599	939	312	5363744	5364809	-1	None	None
10	None	ENSG00000269165	ENST00000595931	protein_coding	KNOWN	None	None	222	73	52094298	52095876	1	None	None
X	None	ENSG00000232168	ENST00000416730	processed_pseudogene	KNOWN	None	None	None	None	78340433	78341345	1	None	None
9	TMEM8B	ENSG00000137103	ENST00000377996	protein_coding	KNOWN	CCDS6595	21427	1017	338	35814448	35847231	1	C9orf127	NAG-5, NGX6
9	TMEM8B	ENSG00000137103	ENST00000439587	protein_coding	KNOWN	CCDS6595	21427	1017	338	35829225	35847232	1	C9orf127	NAG-5, NGX6
9	TMEM8B	ENSG00000137103	ENST00000377991	protein_coding	KNOWN	CCDS43800	21427	1419	472	35829229	35854844	1	C9orf127	NAG-5, NGX6
9	TMEM8B	ENSG00000137103	ENST00000464519	processed_transcript	KNOWN	None	21427	None	None	35829269	35842464	1	C9orf127	NAG-5, NGX6
9	TMEM8B	ENSG00000137103	ENST00000473947	processed_transcript	KNOWN	None	21427	None	None	35829513	35846377	1	C9orf127	NAG-5, NGX6
9	TMEM8B	ENSG00000137103	ENST00000472010	processed_transcript	KNOWN	None	21427	None	None	35829515	35841258	1	C9orf127	NAG-5, NGX6
9	TMEM8B	ENSG00000137103	ENST00000490199	processed_transcript	KNOWN	None	21427	None	None	35829774	35846268	1	C9orf127	NAG-5, NGX6
9	TMEM8B	ENSG00000137103	ENST00000377988	protein_coding	KNOWN	CCDS43800	21427	1419	472	35829513	35854843	1	C9orf127	NAG-5, NGX6
10	RN7SL232P	ENSG00000265824	ENST00000582360	misc_RNA	KNOWN	None	46248	None	None	12303670	12303926	1	None	None
11	OR51B6	ENSG00000176239	ENST00000380219	protein_coding	KNOWN	CCDS31379	19600	939	312	5372738	5373676	1	None	None
10	RN7SL198P	ENSG00000264036	ENST00000583190	misc_RNA	KNOWN	None	46214	None	None	12370135	12370388	-1	None	None
1	PDPN	ENSG00000162493	ENST00000294489	protein_coding	KNOWN	CCDS30602	29602	717	238	13909960	13944452	1	None	T1A-2, Gp38, aggrus, GP40, PA2.26
1	PDPN	ENSG00000162493	ENST00000376057	protein_coding	KNOWN	CCDS41266	29602	711	236	13910257	13944452	1	None	T1A-2, Gp38, aggrus, GP40, PA2.26
1	PDPN	ENSG00000162493	ENST00000506205	nonsense_mediated_decay	KNOWN	None	29602	283	93	13910327	13933716	1	None	T1A-2, Gp38, aggrus, GP40, PA2.26
1	PDPN	ENSG00000162493	ENST00000510906	protein_coding	PUTATIVE	None	29602	687	228	13910328	13941009	1	None	T1A-2, Gp38, aggrus, GP40, PA2.26
1	PDPN	ENSG00000162493	ENST00000509009	protein_coding	PUTATIVE	None	29602	474	157	13910588	13942459	1	None	T1A-2, Gp38, aggrus, GP40, PA2.26
1	PDPN	ENSG00000162493	ENST00000376061	protein_coding	KNOWN	CCDS44060	29602	363	120	13910762	13943277	1	None	T1A-2, Gp38, aggrus, GP40, PA2.26
1	PDPN	ENSG00000162493	ENST00000513143	protein_coding	KNOWN	CCDS44060	29602	363	120	13910765	13943059	1	None	T1A-2, Gp38, aggrus, GP40, PA2.26
1	PDPN	ENSG00000162493	ENST00000487038	protein_coding	KNOWN	CCDS44060	29602	363	120	13911956	13942412	1	None	T1A-2, Gp38, aggrus, GP40, PA2.26
1	PDPN	ENSG00000162493	ENST00000475043	protein_coding	KNOWN	CCDS53270	29602	357	118	13911967	13942742	1	None	T1A-2, Gp38, aggrus, GP40, PA2.26
1	PDPN	ENSG00000162493	ENST00000488631	nonsense_mediated_decay	KNOWN	None	29602	132	43	13911975	13942754	1	None	T1A-2, Gp38, aggrus, GP40, PA2.26
11	MED17	ENSG00000042429	ENST00000251871	protein_coding	KNOWN	CCDS8295	2375	1956	651	93517393	93547861	1	CRSP6	CRSP77, TRAP80, DRIP80
11	MED17	ENSG00000042429	ENST00000530819	protein_coding	KNOWN	None	2375	438	145	93517448	93522962	1	CRSP6	CRSP77, TRAP80, DRIP80
11	MED17	ENSG00000042429	ENST00000533359	protein_coding	PUTATIVE	None	2375	695	230	93517528	93523933	1	CRSP6	CRSP77, TRAP80, DRIP80
11	MED17	ENSG00000042429	ENST00000533133	nonsense_mediated_decay	KNOWN	None	2375	801	266	93517577	93545568	1	CRSP6	CRSP77, TRAP80, DRIP80
11	MED17	ENSG00000042429	ENST00000528786	protein_coding	PUTATIVE	None	2375	429	142	93518073	93527009	1	CRSP6	CRSP77, TRAP80, DRIP80
11	MED17	ENSG00000042429	ENST00000525026	retained_intron	KNOWN	None	2375	None	None	93521868	93530761	1	CRSP6	CRSP77, TRAP80, DRIP80
11	MED17	ENSG00000042429	ENST00000533367	processed_transcript	KNOWN	None	2375	None	None	93527137	93543042	1	CRSP6	CRSP77, TRAP80, DRIP80
11	MED17	ENSG00000042429	ENST00000507258	retained_intron	KNOWN	None	2375	None	None	93527416	93529645	1	CRSP6	CRSP77, TRAP80, DRIP80
11	MED17	ENSG00000042429	ENST00000531920	retained_intron	KNOWN	None	2375	None	None	93527914	93542961	1	CRSP6	CRSP77, TRAP80, DRIP80
11	MED17	ENSG00000042429	ENST00000525613	retained_intron	KNOWN	None	2375	None	None	93533248	93545394	1	CRSP6	CRSP77, TRAP80, DRIP80
11	MED17	ENSG00000042429	ENST00000529626	retained_intron	KNOWN	None	2375	None	None	93541892	93545561	1	CRSP6	CRSP77, TRAP80, DRIP80
10	None	ENSG00000269700	ENST00000596442	protein_coding	NOVEL	None	None	381	126	52152766	52154321	1	None	None
10	None	ENSG00000252438	ENST00000516629	snoRNA	KNOWN	None	None	None	None	12457927	12457999	1	None	None
10	RNU6ATAC39P	ENSG00000252118	ENST00000516309	snRNA	KNOWN	None	46938	None	None	12498482	12498630	1	None	None
10	WDR37	ENSG00000047056	ENST00000358220	protein_coding	KNOWN	CCDS7057	31406	1485	494	1095478	1178237	1	None	KIAA0982
10	WDR37	ENSG00000047056	ENST00000381329	protein_coding	KNOWN	None	31406	750	249	1102344	1142566	1	None	KIAA0982
10	WDR37	ENSG00000047056	ENST00000263150	protein_coding	KNOWN	CCDS7057	31406	1485	494	1102798	1178110	1	None	KIAA0982
10	WDR37	ENSG00000047056	ENST00000436154	protein_coding	KNOWN	None	31406	627	208	1120323	1142186	1	None	KIAA0982
10	WDR37	ENSG00000047056	ENST00000482165	processed_transcript	KNOWN	None	31406	None	None	1169747	1175192	1	None	KIAA0982
10	ADRA2A	ENSG00000150594	ENST00000280155	protein_coding	KNOWN	CCDS7569	281	1398	465	112836790	112840658	1	ADRA2, ADRA2R	ADRAR
1	CD164L2	ENSG00000174950	ENST00000374027	protein_coding	KNOWN	CCDS302	32043	522	173	27705666	27709793	-1	None	None
1	CD164L2	ENSG00000174950	ENST00000374030	protein_coding	KNOWN	None	32043	525	174	27705666	27709870	-1	None	None
1	CD164L2	ENSG00000174950	ENST00000374025	protein_coding	KNOWN	None	32043	516	171	27708266	27709796	-1	None	None
5	PCDHB16	ENSG00000196963	ENST00000361016	protein_coding	KNOWN	CCDS4251	14546	2331	776	140560980	140565793	1	None	PCDHB8a, PCDH3X, KIAA1621, PCDH-BETA16, ME1
11	C11orf16	ENSG00000176029	ENST00000525780	protein_coding	KNOWN	None	1169	1215	404	8941623	8954535	-1	None	None
11	C11orf16	ENSG00000176029	ENST00000326053	protein_coding	KNOWN	CCDS7794	1169	1404	467	8941623	8954536	-1	None	None
11	C11orf16	ENSG00000176029	ENST00000528998	processed_transcript	KNOWN	None	1169	None	None	8948647	8954494	-1	None	None
11	C11orf16	ENSG00000176029	ENST00000528830	nonsense_mediated_decay	KNOWN	None	1169	387	128	8948701	8954497	-1	None	None
11	C11orf16	ENSG00000176029	ENST00000526227	protein_coding	NOVEL	None	1169	462	153	8949118	8954530	-1	None	None
11	C11orf16	ENSG00000176029	ENST00000527607	retained_intron	KNOWN	None	1169	None	None	8950448	8954553	-1	None	None
3	SERPINI2	ENSG00000114204	ENST00000476257	protein_coding	KNOWN	CCDS3200	8945	1218	405	167159577	167196792	-1	PI14	PANCPIN, TSA2004, MEPI, pancpin
3	SERPINI2	ENSG00000114204	ENST00000461846	protein_coding	KNOWN	CCDS3200	8945	1218	405	167159702	167191615	-1	PI14	PANCPIN, TSA2004, MEPI, pancpin
3	SERPINI2	ENSG00000114204	ENST00000471111	protein_coding	KNOWN	CCDS3200	8945	1218	405	167159853	167189691	-1	PI14	PANCPIN, TSA2004, MEPI, pancpin
3	SERPINI2	ENSG00000114204	ENST00000495108	retained_intron	KNOWN	None	8945	None	None	167159855	167164793	-1	PI14	PANCPIN, TSA2004, MEPI, pancpin
3	SERPINI2	ENSG00000114204	ENST00000466903	protein_coding	KNOWN	None	8945	618	205	167183322	167191814	-1	PI14	PANCPIN, TSA2004, MEPI, pancpin
3	SERPINI2	ENSG00000114204	ENST00000467583	protein_coding	NOVEL	None	8945	472	156	167183423	167189627	-1	PI14	PANCPIN, TSA2004, MEPI, pancpin
3	SERPINI2	ENSG00000114204	ENST00000465031	processed_transcript	KNOWN	None	8945	None	None	167187046	167189632	-1	PI14	PANCPIN, TSA2004, MEPI, pancpin
3	SERPINI2	ENSG00000114204	ENST00000264677	protein_coding	KNOWN	CCDS3200	8945	1218	405	167159723	167191818	-1	PI14	PANCPIN, TSA2004, MEPI, pancpin
6	POU3F2	ENSG00000184486	ENST00000328345	protein_coding	KNOWN	CCDS5040	9215	1332	443	99282580	99286660	1	OTF7	POUF3, BRN2, OCT7
11	PRSS23	ENSG00000150687	ENST00000527521	protein_coding	KNOWN	None	14370	463	153	86502101	86519148	1	None	SPUVE, SIG13
11	PRSS23	ENSG00000150687	ENST00000280258	protein_coding	KNOWN	CCDS8278	14370	1152	383	86511282	86522275	1	None	SPUVE, SIG13
11	PRSS23	ENSG00000150687	ENST00000532234	nonsense_mediated_decay	KNOWN	None	14370	249	82	86511563	86663830	1	None	SPUVE, SIG13
11	PRSS23	ENSG00000150687	ENST00000533902	protein_coding	PUTATIVE	None	14370	276	91	86511563	86663952	1	None	SPUVE, SIG13
11	PRSS23	ENSG00000150687	ENST00000531475	processed_transcript	KNOWN	None	14370	None	None	86511586	86643935	1	None	SPUVE, SIG13
11	PRSS23	ENSG00000150687	ENST00000533880	processed_transcript	KNOWN	None	14370	None	None	86511586	86643976	1	None	SPUVE, SIG13
11	PRSS23	ENSG00000150687	ENST00000532572	retained_intron	KNOWN	None	14370	None	None	86534438	86648861	1	None	SPUVE, SIG13
11	PRSS23	ENSG00000150687	ENST00000528769	processed_transcript	KNOWN	None	14370	None	None	86651828	86662449	1	None	SPUVE, SIG13
11	PRSS23	ENSG00000150687	ENST00000531521	processed_transcript	KNOWN	None	14370	None	None	86651828	86662778	1	None	SPUVE, SIG13
11	PRSS23	ENSG00000150687	ENST00000441050	protein_coding	KNOWN	None	14370	1056	351	86511585	86520169	1	None	SPUVE, SIG13
4	QDPR	ENSG00000151552	ENST00000513615	protein_coding	PUTATIVE	None	9752	459	152	17461884	17513712	-1	None	DHPR, PKU2, SDR33C1
4	QDPR	ENSG00000151552	ENST00000507439	nonsense_mediated_decay	KNOWN	None	9752	459	152	17488021	17513692	-1	None	DHPR, PKU2, SDR33C1
4	QDPR	ENSG00000151552	ENST00000281243	protein_coding	KNOWN	CCDS3421	9752	735	244	17488021	17513857	-1	None	DHPR, PKU2, SDR33C1
4	QDPR	ENSG00000151552	ENST00000428702	protein_coding	NOVEL	None	9752	642	213	17488150	17513709	-1	None	DHPR, PKU2, SDR33C1
4	QDPR	ENSG00000151552	ENST00000501943	retained_intron	KNOWN	None	9752	None	None	17488423	17494136	-1	None	DHPR, PKU2, SDR33C1
4	QDPR	ENSG00000151552	ENST00000508623	protein_coding	PUTATIVE	None	9752	489	162	17488728	17513710	-1	None	DHPR, PKU2, SDR33C1
4	QDPR	ENSG00000151552	ENST00000514300	nonsense_mediated_decay	KNOWN	None	9752	111	36	17488793	17513829	-1	None	DHPR, PKU2, SDR33C1
4	QDPR	ENSG00000151552	ENST00000505710	protein_coding	PUTATIVE	None	9752	386	127	17491664	17513604	-1	None	DHPR, PKU2, SDR33C1
4	QDPR	ENSG00000151552	ENST00000511609	retained_intron	KNOWN	None	9752	None	None	17492062	17494131	-1	None	DHPR, PKU2, SDR33C1
10	MIR4480	ENSG00000263584	ENST00000582492	miRNA	KNOWN	None	41716	None	None	12620752	12620822	1	None	hsa-mir-4480
5	MATR3	ENSG00000015479	ENST00000509990	protein_coding	KNOWN	CCDS4210	6912	2544	847	138609441	138665093	1	MPD2	KIAA0723, MGC9105, VCPDM
5	MATR3	ENSG00000015479	ENST00000506147	protein_coding	PUTATIVE	None	6912	189	62	138609478	138651837	1	MPD2	KIAA0723, MGC9105, VCPDM
5	MATR3	ENSG00000015479	ENST00000512107	protein_coding	PUTATIVE	None	6912	20	5	138609527	138651782	1	MPD2	KIAA0723, MGC9105, VCPDM
5	MATR3	ENSG00000015479	ENST00000448190	processed_transcript	KNOWN	None	6912	None	None	138609791	138615528	1	MPD2	KIAA0723, MGC9105, VCPDM
5	MATR3	ENSG00000015479	ENST00000507692	retained_intron	KNOWN	None	6912	None	None	138609792	138615077	1	MPD2	KIAA0723, MGC9105, VCPDM
5	MATR3	ENSG00000015479	ENST00000506188	processed_transcript	KNOWN	None	6912	None	None	138609792	138618678	1	MPD2	KIAA0723, MGC9105, VCPDM
5	MATR3	ENSG00000015479	ENST00000513259	processed_transcript	KNOWN	None	6912	None	None	138609793	138615748	1	MPD2	KIAA0723, MGC9105, VCPDM
5	MATR3	ENSG00000015479	ENST00000514694	protein_coding	KNOWN	None	6912	322	106	138609793	138643426	1	MPD2	KIAA0723, MGC9105, VCPDM
5	MATR3	ENSG00000015479	ENST00000504203	protein_coding	PUTATIVE	None	6912	1530	509	138609793	138665446	1	MPD2	KIAA0723, MGC9105, VCPDM
5	MATR3	ENSG00000015479	ENST00000502929	protein_coding	NOVEL	None	6912	2688	895	138609793	138666117	1	MPD2	KIAA0723, MGC9105, VCPDM
5	MATR3	ENSG00000015479	ENST00000394800	protein_coding	NOVEL	None	6912	2688	895	138609793	138667360	1	MPD2	KIAA0723, MGC9105, VCPDM
5	MATR3	ENSG00000015479	ENST00000507197	processed_transcript	KNOWN	None	6912	None	None	138609807	138618933	1	MPD2	KIAA0723, MGC9105, VCPDM
5	MATR3	ENSG00000015479	ENST00000509644	protein_coding	PUTATIVE	None	6912	243	80	138609813	138653359	1	MPD2	KIAA0723, MGC9105, VCPDM
5	MATR3	ENSG00000015479	ENST00000508735	processed_transcript	KNOWN	None	6912	None	None	138609820	138614818	1	MPD2	KIAA0723, MGC9105, VCPDM
5	MATR3	ENSG00000015479	ENST00000514110	retained_intron	KNOWN	None	6912	None	None	138609820	138615275	1	MPD2	KIAA0723, MGC9105, VCPDM
5	MATR3	ENSG00000015479	ENST00000505522	processed_transcript	KNOWN	None	6912	None	None	138609820	138618834	1	MPD2	KIAA0723, MGC9105, VCPDM
5	MATR3	ENSG00000015479	ENST00000505016	protein_coding	KNOWN	None	6912	141	46	138609820	138643245	1	MPD2	KIAA0723, MGC9105, VCPDM
5	MATR3	ENSG00000015479	ENST00000502394	protein_coding	KNOWN	None	6912	299	98	138611798	138643403	1	MPD2	KIAA0723, MGC9105, VCPDM
5	MATR3	ENSG00000015479	ENST00000394805	protein_coding	KNOWN	CCDS4210	6912	2544	847	138629337	138667048	1	MPD2	KIAA0723, MGC9105, VCPDM
5	MATR3	ENSG00000015479	ENST00000512876	protein_coding	PUTATIVE	None	6912	374	123	138629363	138654676	1	MPD2	KIAA0723, MGC9105, VCPDM
5	MATR3	ENSG00000015479	ENST00000513678	protein_coding	PUTATIVE	None	6912	258	85	138629369	138653374	1	MPD2	KIAA0723, MGC9105, VCPDM
5	MATR3	ENSG00000015479	ENST00000513121	retained_intron	KNOWN	None	6912	None	None	138629405	138650846	1	MPD2	KIAA0723, MGC9105, VCPDM
5	MATR3	ENSG00000015479	ENST00000504045	protein_coding	KNOWN	None	6912	1300	432	138629407	138653402	1	MPD2	KIAA0723, MGC9105, VCPDM
5	MATR3	ENSG00000015479	ENST00000504311	protein_coding	PUTATIVE	None	6912	329	108	138629408	138654631	1	MPD2	KIAA0723, MGC9105, VCPDM
5	MATR3	ENSG00000015479	ENST00000502499	protein_coding	PUTATIVE	None	6912	1530	509	138629411	138666094	1	MPD2	KIAA0723, MGC9105, VCPDM
5	MATR3	ENSG00000015479	ENST00000510056	protein_coding	PUTATIVE	None	6912	2385	794	138629419	138665449	1	MPD2	KIAA0723, MGC9105, VCPDM
5	MATR3	ENSG00000015479	ENST00000511249	protein_coding	PUTATIVE	None	6912	365	120	138629426	138655159	1	MPD2	KIAA0723, MGC9105, VCPDM
5	MATR3	ENSG00000015479	ENST00000507860	retained_intron	KNOWN	None	6912	None	None	138629431	138650903	1	MPD2	KIAA0723, MGC9105, VCPDM
5	MATR3	ENSG00000015479	ENST00000509918	processed_transcript	KNOWN	None	6912	None	None	138629432	138657683	1	MPD2	KIAA0723, MGC9105, VCPDM
5	MATR3	ENSG00000015479	ENST00000511978	processed_transcript	KNOWN	None	6912	None	None	138629439	138657718	1	MPD2	KIAA0723, MGC9105, VCPDM
5	MATR3	ENSG00000015479	ENST00000503811	protein_coding	PUTATIVE	CCDS54908	6912	1680	559	138629439	138665691	1	MPD2	KIAA0723, MGC9105, VCPDM
5	MATR3	ENSG00000015479	ENST00000511378	protein_coding	KNOWN	None	6912	27	8	138629467	138643131	1	MPD2	KIAA0723, MGC9105, VCPDM
5	MATR3	ENSG00000015479	ENST00000508689	protein_coding	KNOWN	None	6912	235	77	138629641	138643339	1	MPD2	KIAA0723, MGC9105, VCPDM
5	MATR3	ENSG00000015479	ENST00000514528	protein_coding	PUTATIVE	None	6912	516	171	138629654	138653410	1	MPD2	KIAA0723, MGC9105, VCPDM
5	MATR3	ENSG00000015479	ENST00000504643	retained_intron	KNOWN	None	6912	None	None	138629672	138658637	1	MPD2	KIAA0723, MGC9105, VCPDM
5	MATR3	ENSG00000015479	ENST00000514488	protein_coding	KNOWN	None	6912	300	99	138630219	138643404	1	MPD2	KIAA0723, MGC9105, VCPDM
5	MATR3	ENSG00000015479	ENST00000503340	protein_coding	KNOWN	None	6912	262	86	138630275	138643366	1	MPD2	KIAA0723, MGC9105, VCPDM
5	MATR3	ENSG00000015479	ENST00000504023	protein_coding	KNOWN	None	6912	233	76	138630327	138643337	1	MPD2	KIAA0723, MGC9105, VCPDM
5	MATR3	ENSG00000015479	ENST00000515833	protein_coding	NOVEL	None	6912	1001	332	138643784	138657706	1	MPD2	KIAA0723, MGC9105, VCPDM
5	MATR3	ENSG00000015479	ENST00000514402	retained_intron	KNOWN	None	6912	None	None	138643932	138650834	1	MPD2	KIAA0723, MGC9105, VCPDM
5	MATR3	ENSG00000015479	ENST00000505625	retained_intron	KNOWN	None	6912	None	None	138645732	138666126	1	MPD2	KIAA0723, MGC9105, VCPDM
5	MATR3	ENSG00000015479	ENST00000511333	retained_intron	KNOWN	None	6912	None	None	138651036	138652794	1	MPD2	KIAA0723, MGC9105, VCPDM
5	MATR3	ENSG00000015479	ENST00000502422	retained_intron	KNOWN	None	6912	None	None	138651440	138665337	1	MPD2	KIAA0723, MGC9105, VCPDM
5	MATR3	ENSG00000015479	ENST00000502944	retained_intron	KNOWN	None	6912	None	None	138657494	138658379	1	MPD2	KIAA0723, MGC9105, VCPDM
5	MATR3	ENSG00000015479	ENST00000512040	nonsense_mediated_decay	KNOWN	None	6912	555	184	138658435	138661944	1	MPD2	KIAA0723, MGC9105, VCPDM
5	MATR3	ENSG00000015479	ENST00000361059	protein_coding	KNOWN	CCDS4210	6912	2544	847	138609792	138666128	1	MPD2	KIAA0723, MGC9105, VCPDM
HSCHR6_MHC_COX	RPSAP2	ENSG00000249814	ENST00000502477	processed_pseudogene	KNOWN	None	18771	None	None	28700592	28701479	1	LAMR1P2	bA60E24.1
11	MRGPRD	ENSG00000172938	ENST00000309106	protein_coding	KNOWN	CCDS31625	29626	966	321	68747490	68748455	-1	None	mrgD
10	MIR548Q	ENSG00000221331	ENST00000408404	miRNA	KNOWN	None	37312	None	None	12767253	12767352	-1	None	hsa-mir-548q
18	IMPA2	ENSG00000141401	ENST00000588752	processed_transcript	KNOWN	None	6051	None	None	11981024	12028117	1	None	None
18	IMPA2	ENSG00000141401	ENST00000589238	protein_coding	PUTATIVE	None	6051	300	99	11981036	12030515	1	None	None
18	IMPA2	ENSG00000141401	ENST00000269159	protein_coding	KNOWN	CCDS11855	6051	867	288	11981427	12030876	1	None	None
18	IMPA2	ENSG00000141401	ENST00000590107	nonsense_mediated_decay	KNOWN	None	6051	492	163	11981464	12030867	1	None	None
18	IMPA2	ENSG00000141401	ENST00000383376	nonsense_mediated_decay	KNOWN	None	6051	258	85	11981515	12018284	1	None	None
18	IMPA2	ENSG00000141401	ENST00000590138	nonsense_mediated_decay	KNOWN	None	6051	351	116	11981610	12030472	1	None	None
18	IMPA2	ENSG00000141401	ENST00000588927	protein_coding	PUTATIVE	None	6051	300	99	11981669	12030457	1	None	None
18	IMPA2	ENSG00000141401	ENST00000588863	retained_intron	KNOWN	None	6051	None	None	11999135	12010220	1	None	None
18	IMPA2	ENSG00000141401	ENST00000588167	retained_intron	KNOWN	None	6051	None	None	12009899	12028683	1	None	None
18	IMPA2	ENSG00000141401	ENST00000586230	nonsense_mediated_decay	KNOWN	None	6051	379	125	12009930	12028961	1	None	None
18	IMPA2	ENSG00000141401	ENST00000589374	retained_intron	KNOWN	None	6051	None	None	12028607	12030874	1	None	None
HSCHR6_MHC_COX	None	ENSG00000263532	ENST00000581754	miRNA	NOVEL	None	None	None	None	28744522	28744629	1	None	None
11	OR51M1	ENSG00000184698	ENST00000328611	protein_coding	KNOWN	CCDS53596	14847	981	326	5410607	5411664	1	None	None
5	PCDHB10	ENSG00000120324	ENST00000239446	protein_coding	KNOWN	CCDS4252	8681	2403	800	140571942	140575215	1	None	None
9	None	ENSG00000232939	ENST00000449258	antisense	KNOWN	None	None	None	None	112522640	112534323	-1	None	None
12	KIF5A	ENSG00000155980	ENST00000455537	protein_coding	KNOWN	CCDS8945	6323	3099	1032	57943781	57980415	1	SPG10	D12S1889, NKHC, MY050
12	KIF5A	ENSG00000155980	ENST00000286452	protein_coding	NOVEL	None	6323	2832	943	57943827	57978431	1	SPG10	D12S1889, NKHC, MY050
12	KIF5A	ENSG00000155980	ENST00000552227	retained_intron	KNOWN	None	6323	None	None	57975461	57976657	1	SPG10	D12S1889, NKHC, MY050
1	GPR3	ENSG00000181773	ENST00000374024	protein_coding	KNOWN	CCDS303	4484	993	330	27719148	27722318	1	None	ACCA
9	None	ENSG00000228053	ENST00000418441	processed_pseudogene	KNOWN	None	None	None	None	112787161	112787638	-1	None	None
9	RNU6-1039P	ENSG00000206658	ENST00000383931	snRNA	KNOWN	None	48002	None	None	113131872	113131978	-1	None	None
HSCHR6_MHC_COX	None	ENSG00000230574	ENST00000421958	processed_pseudogene	NOVEL	None	None	None	None	28752233	28752604	-1	None	None
11	SLC22A6	ENSG00000197901	ENST00000540654	nonsense_mediated_decay	KNOWN	None	10970	786	261	62703857	62752296	-1	None	ROAT1, PAHT, OAT1
11	SLC22A6	ENSG00000197901	ENST00000360421	protein_coding	KNOWN	CCDS8041	10970	1653	550	62744069	62752455	-1	None	ROAT1, PAHT, OAT1
11	SLC22A6	ENSG00000197901	ENST00000377871	protein_coding	KNOWN	CCDS31591	10970	1692	563	62744074	62752429	-1	None	ROAT1, PAHT, OAT1
11	SLC22A6	ENSG00000197901	ENST00000458333	protein_coding	KNOWN	CCDS44632	10970	1521	506	62744266	62752162	-1	None	ROAT1, PAHT, OAT1
11	SLC22A6	ENSG00000197901	ENST00000421062	protein_coding	KNOWN	CCDS44631	10970	1560	519	62744266	62752162	-1	None	ROAT1, PAHT, OAT1
11	SLC22A6	ENSG00000197901	ENST00000537349	processed_transcript	KNOWN	None	10970	None	None	62747340	62751364	-1	None	ROAT1, PAHT, OAT1
4	MFSD8	ENSG00000164073	ENST00000296468	protein_coding	KNOWN	CCDS3736	28486	1557	518	128838960	128887104	-1	CLN7	MGC33302
4	MFSD8	ENSG00000164073	ENST00000503928	processed_transcript	KNOWN	None	28486	None	None	128839307	128841754	-1	CLN7	MGC33302
4	MFSD8	ENSG00000164073	ENST00000515130	processed_transcript	KNOWN	None	28486	None	None	128840361	128887150	-1	CLN7	MGC33302
4	MFSD8	ENSG00000164073	ENST00000513559	protein_coding	PUTATIVE	None	28486	1422	473	128841497	128887118	-1	CLN7	MGC33302
4	MFSD8	ENSG00000164073	ENST00000504126	retained_intron	KNOWN	None	28486	None	None	128842512	128843144	-1	CLN7	MGC33302
4	MFSD8	ENSG00000164073	ENST00000505284	processed_transcript	KNOWN	None	28486	None	None	128842886	128886297	-1	CLN7	MGC33302
4	MFSD8	ENSG00000164073	ENST00000509826	nonsense_mediated_decay	KNOWN	None	28486	462	153	128843017	128887093	-1	CLN7	MGC33302
4	MFSD8	ENSG00000164073	ENST00000508441	processed_transcript	KNOWN	None	28486	None	None	128859938	128886300	-1	CLN7	MGC33302
4	MFSD8	ENSG00000164073	ENST00000541133	protein_coding	KNOWN	None	28486	555	184	128851861	128887099	-1	CLN7	MGC33302
9	RNU6-124P	ENSG00000212254	ENST00000390952	snRNA	KNOWN	None	47087	None	None	113301970	113302078	-1	None	None
9	None	ENSG00000232896	ENST00000451108	lincRNA	KNOWN	None	None	None	None	113361755	113367499	1	None	None
10	RNA5SP300	ENSG00000212499	ENST00000391197	rRNA	KNOWN	None	43200	None	None	12966679	12966785	-1	RN5S300	None
6	FBXL4	ENSG00000112234	ENST00000369244	protein_coding	KNOWN	CCDS5041	13601	1866	621	99316420	99395802	-1	None	FBL4, FBL5
6	FBXL4	ENSG00000112234	ENST00000229971	protein_coding	KNOWN	CCDS5041	13601	1866	621	99321601	99395849	-1	None	FBL4, FBL5
9	None	ENSG00000223781	ENST00000411776	lincRNA	KNOWN	None	None	None	None	41277733	41298538	1	None	None
8	CDCA2	ENSG00000184661	ENST00000330560	protein_coding	KNOWN	CCDS6049	14623	3072	1023	25316513	25365436	1	None	Repo-Man
8	CDCA2	ENSG00000184661	ENST00000518225	processed_transcript	PUTATIVE	None	14623	None	None	25316715	25319587	1	None	Repo-Man
8	CDCA2	ENSG00000184661	ENST00000380665	protein_coding	PUTATIVE	None	14623	3027	1008	25316715	25365389	1	None	Repo-Man
8	CDCA2	ENSG00000184661	ENST00000523454	processed_transcript	KNOWN	None	14623	None	None	25325787	25343351	1	None	Repo-Man
8	CDCA2	ENSG00000184661	ENST00000521098	processed_transcript	KNOWN	None	14623	None	None	25337208	25365389	1	None	Repo-Man
9	None	ENSG00000223918	ENST00000446460	processed_pseudogene	KNOWN	None	None	None	None	113489736	113489959	-1	None	None
5	PRR16	ENSG00000184838	ENST00000407149	protein_coding	KNOWN	None	29654	915	304	119799973	120023027	1	None	DSC54
5	PRR16	ENSG00000184838	ENST00000379551	protein_coding	KNOWN	CCDS4127	29654	846	281	119800019	120023027	1	None	DSC54
5	PRR16	ENSG00000184838	ENST00000509923	protein_coding	KNOWN	None	29654	427	141	119801326	120022126	1	None	DSC54
5	PRR16	ENSG00000184838	ENST00000505123	protein_coding	KNOWN	None	29654	705	234	119867159	120022625	1	None	DSC54
5	PRR16	ENSG00000184838	ENST00000446965	protein_coding	KNOWN	None	29654	705	234	119952783	120022598	1	None	DSC54
9	None	ENSG00000228858	ENST00000450779	antisense	KNOWN	None	None	None	None	41285357	41287306	1	None	None
9	RNU6-432P	ENSG00000206923	ENST00000384196	snRNA	KNOWN	None	47395	None	None	113665617	113665725	1	None	None
3	CDC25A	ENSG00000164045	ENST00000302506	protein_coding	KNOWN	CCDS2760	1725	1575	524	48198636	48229846	-1	None	None
3	CDC25A	ENSG00000164045	ENST00000351231	protein_coding	KNOWN	CCDS2761	1725	1455	484	48198636	48229846	-1	None	None
3	CDC25A	ENSG00000164045	ENST00000459900	processed_transcript	KNOWN	None	1725	None	None	48205892	48216243	-1	None	None
3	CDC25A	ENSG00000164045	ENST00000443342	protein_coding	NOVEL	None	1725	758	251	48218856	48229456	-1	None	None
3	CDC25A	ENSG00000164045	ENST00000437972	protein_coding	KNOWN	None	1725	429	142	48224419	48229892	-1	None	None
9	None	ENSG00000207401	ENST00000384670	misc_RNA	NOVEL	None	None	None	None	113696686	113696787	1	None	None
9	RNY4P18	ENSG00000212409	ENST00000391107	misc_RNA	KNOWN	None	34068	None	None	113859605	113859693	-1	None	None
9	FAM74A2	ENSG00000231757	ENST00000427006	lincRNA	KNOWN	None	32030	None	None	41306133	41311985	-1	None	None
9	FAM74A2	ENSG00000231757	ENST00000601076	lincRNA	KNOWN	None	32030	None	None	41311426	41311806	-1	None	None
9	None	ENSG00000227531	ENST00000426204	lincRNA	KNOWN	None	None	None	None	113901526	114047116	-1	None	None
3	CMTM8	ENSG00000170293	ENST00000458535	protein_coding	PUTATIVE	None	19179	348	115	32280171	32411813	1	CKLFSF8	None
3	CMTM8	ENSG00000170293	ENST00000307526	protein_coding	KNOWN	CCDS2652	19179	522	173	32280171	32411817	1	CKLFSF8	None
9	RNA5SP294	ENSG00000223238	ENST00000411306	rRNA	KNOWN	None	43194	None	None	114173924	114174022	-1	RN5S294	None
9	None	ENSG00000231391	ENST00000440883	antisense	KNOWN	None	None	None	None	41313945	41323179	1	None	None
9	None	ENSG00000224644	ENST00000450154	antisense	KNOWN	None	None	None	None	114336472	114337707	1	None	None
X	RBBP7	ENSG00000102054	ENST00000425696	protein_coding	PUTATIVE	None	9890	258	85	16857406	16870188	-1	None	RbAp46
X	RBBP7	ENSG00000102054	ENST00000380087	protein_coding	KNOWN	CCDS14179	9890	1278	425	16862464	16888537	-1	None	RbAp46
X	RBBP7	ENSG00000102054	ENST00000330735	retained_intron	KNOWN	None	9890	None	None	16862773	16870403	-1	None	RbAp46
X	RBBP7	ENSG00000102054	ENST00000465244	retained_intron	KNOWN	None	9890	None	None	16862777	16870275	-1	None	RbAp46
X	RBBP7	ENSG00000102054	ENST00000380084	protein_coding	NOVEL	CCDS56598	9890	1410	469	16862777	16888009	-1	None	RbAp46
X	RBBP7	ENSG00000102054	ENST00000404022	protein_coding	NOVEL	None	9890	1251	416	16862813	16888484	-1	None	RbAp46
X	RBBP7	ENSG00000102054	ENST00000481586	retained_intron	KNOWN	None	9890	None	None	16863994	16871093	-1	None	RbAp46
X	RBBP7	ENSG00000102054	ENST00000444437	protein_coding	PUTATIVE	None	9890	528	175	16867114	16875725	-1	None	RbAp46
X	RBBP7	ENSG00000102054	ENST00000416035	protein_coding	NOVEL	None	9890	857	284	16870169	16881144	-1	None	RbAp46
X	RBBP7	ENSG00000102054	ENST00000486166	retained_intron	KNOWN	None	9890	None	None	16870675	16876926	-1	None	RbAp46
X	RBBP7	ENSG00000102054	ENST00000468092	protein_coding	PUTATIVE	None	9890	203	66	16881080	16888467	-1	None	RbAp46
X	RBBP7	ENSG00000102054	ENST00000493145	protein_coding	PUTATIVE	None	9890	112	36	16887239	16888276	-1	None	RbAp46
12	CHD4	ENSG00000111642	ENST00000544484	protein_coding	KNOWN	None	1919	5814	1937	6679249	6716534	-1	None	Mi-2b, Mi2-BETA
12	CHD4	ENSG00000111642	ENST00000544040	protein_coding	KNOWN	None	1919	5718	1905	6679249	6716590	-1	None	Mi-2b, Mi2-BETA
12	CHD4	ENSG00000111642	ENST00000535717	retained_intron	KNOWN	None	1919	None	None	6679511	6680345	-1	None	Mi-2b, Mi2-BETA
12	CHD4	ENSG00000111642	ENST00000542717	processed_transcript	PUTATIVE	None	1919	None	None	6688013	6690336	-1	None	Mi-2b, Mi2-BETA
12	CHD4	ENSG00000111642	ENST00000536301	processed_transcript	PUTATIVE	None	1919	None	None	6690242	6700751	-1	None	Mi-2b, Mi2-BETA
12	CHD4	ENSG00000111642	ENST00000540960	processed_transcript	KNOWN	None	1919	None	None	6691334	6696991	-1	None	Mi-2b, Mi2-BETA
12	CHD4	ENSG00000111642	ENST00000537634	retained_intron	KNOWN	None	1919	None	None	6700406	6701631	-1	None	Mi-2b, Mi2-BETA
12	CHD4	ENSG00000111642	ENST00000545083	retained_intron	KNOWN	None	1919	None	None	6700928	6701902	-1	None	Mi-2b, Mi2-BETA
12	CHD4	ENSG00000111642	ENST00000536999	processed_transcript	PUTATIVE	None	1919	None	None	6705152	6707225	-1	None	Mi-2b, Mi2-BETA
12	CHD4	ENSG00000111642	ENST00000535810	processed_transcript	PUTATIVE	None	1919	None	None	6708973	6710216	-1	None	Mi-2b, Mi2-BETA
12	CHD4	ENSG00000111642	ENST00000545942	protein_coding	NOVEL	None	1919	1062	353	6709701	6716642	-1	None	Mi-2b, Mi2-BETA
12	CHD4	ENSG00000111642	ENST00000430771	retained_intron	KNOWN	None	1919	None	None	6711130	6712308	-1	None	Mi-2b, Mi2-BETA
12	CHD4	ENSG00000111642	ENST00000545584	protein_coding	PUTATIVE	None	1919	377	124	6711166	6715846	-1	None	Mi-2b, Mi2-BETA
12	CHD4	ENSG00000111642	ENST00000309577	protein_coding	KNOWN	None	1919	5823	1940	6679249	6716551	-1	None	Mi-2b, Mi2-BETA
12	CHD4	ENSG00000111642	ENST00000357008	protein_coding	KNOWN	CCDS8552	1919	5739	1912	6679249	6716551	-1	None	Mi-2b, Mi2-BETA
9	None	ENSG00000234138	ENST00000456641	unprocessed_pseudogene	KNOWN	None	None	None	None	41418937	41433320	-1	None	None
Y	CSPG4P1Y	ENSG00000240450	ENST00000306641	processed_transcript	KNOWN	None	16478	None	None	27629055	27632852	1	CSPG4LYP1, CSPG4P1	None
Y	DNM1P48	ENSG00000239304	ENST00000419538	processed_pseudogene	KNOWN	None	38801	None	None	27632787	27633469	1	None	None
9	LMX1B	ENSG00000136944	ENST00000526117	protein_coding	KNOWN	CCDS6866	6654	1188	395	129376722	129458730	1	NPS1	None
9	LMX1B	ENSG00000136944	ENST00000373474	protein_coding	KNOWN	CCDS55342	6654	1209	402	129376722	129458828	1	NPS1	None
9	LMX1B	ENSG00000136944	ENST00000561065	protein_coding	KNOWN	None	6654	1152	383	129376748	129458828	1	NPS1	None
9	LMX1B	ENSG00000136944	ENST00000355497	protein_coding	KNOWN	CCDS55343	6654	1221	406	129376722	129463311	1	NPS1	None
9	LMX1B	ENSG00000136944	ENST00000425646	protein_coding	KNOWN	None	6654	1119	372	129376722	129463311	1	NPS1	None
9	None	ENSG00000237625	ENST00000435814	processed_pseudogene	KNOWN	None	None	None	None	41475787	41476094	1	None	None
X	IQSEC2	ENSG00000124313	ENST00000396435	protein_coding	KNOWN	CCDS48130	29059	4467	1488	53262058	53350522	-1	None	KIAA0522
X	IQSEC2	ENSG00000124313	ENST00000375365	protein_coding	KNOWN	CCDS35298	29059	2850	949	53263292	53310796	-1	None	KIAA0522
X	IQSEC2	ENSG00000124313	ENST00000485377	processed_transcript	KNOWN	None	29059	None	None	53295511	53310776	-1	None	KIAA0522
X	IQSEC2	ENSG00000124313	ENST00000462054	processed_transcript	KNOWN	None	29059	None	None	53295511	53310776	-1	None	KIAA0522
X	IQSEC2	ENSG00000124313	ENST00000498281	processed_transcript	KNOWN	None	29059	None	None	53295511	53310776	-1	None	KIAA0522
X	IQSEC2	ENSG00000124313	ENST00000375368	protein_coding	KNOWN	None	29059	4437	1478	53262059	53350522	-1	None	KIAA0522
Y	None	ENSG00000233619	ENST00000437571	processed_pseudogene	KNOWN	None	None	None	None	27633431	27633809	-1	None	None
1	WASF2	ENSG00000158195	ENST00000430629	protein_coding	KNOWN	CCDS304	12733	1497	498	27730730	27816669	-1	None	WAVE2, SCAR2
1	WASF2	ENSG00000158195	ENST00000536657	protein_coding	KNOWN	CCDS55582	12733	846	281	27734691	27816562	-1	None	WAVE2, SCAR2
17	WBP2	ENSG00000132471	ENST00000585462	protein_coding	PUTATIVE	None	12738	720	239	73841790	73851403	-1	None	WBP-2
17	WBP2	ENSG00000132471	ENST00000591399	protein_coding	KNOWN	CCDS11731	12738	786	261	73841801	73852588	-1	None	WBP-2
17	WBP2	ENSG00000132471	ENST00000587642	retained_intron	KNOWN	None	12738	None	None	73841825	73848431	-1	None	WBP-2
17	WBP2	ENSG00000132471	ENST00000591831	nonsense_mediated_decay	KNOWN	None	12738	696	231	73841828	73851389	-1	None	WBP-2
17	WBP2	ENSG00000132471	ENST00000590221	protein_coding	NOVEL	None	12738	774	257	73841853	73851387	-1	None	WBP-2
17	WBP2	ENSG00000132471	ENST00000586257	protein_coding	PUTATIVE	None	12738	617	204	73841918	73844743	-1	None	WBP-2
17	WBP2	ENSG00000132471	ENST00000588373	nonsense_mediated_decay	KNOWN	None	12738	108	35	73842404	73851390	-1	None	WBP-2
17	WBP2	ENSG00000132471	ENST00000433525	protein_coding	NOVEL	None	12738	651	216	73842576	73851416	-1	None	WBP-2
17	WBP2	ENSG00000132471	ENST00000589236	retained_intron	KNOWN	None	12738	None	None	73842854	73844408	-1	None	WBP-2
17	WBP2	ENSG00000132471	ENST00000416574	retained_intron	KNOWN	None	12738	None	None	73843181	73851416	-1	None	WBP-2
17	WBP2	ENSG00000132471	ENST00000589642	protein_coding	PUTATIVE	None	12738	457	151	73843568	73851285	-1	None	WBP-2
17	WBP2	ENSG00000132471	ENST00000587374	protein_coding	PUTATIVE	None	12738	342	113	73843641	73851397	-1	None	WBP-2
17	WBP2	ENSG00000132471	ENST00000593002	protein_coding	PUTATIVE	None	12738	501	166	73843656	73851306	-1	None	WBP-2
17	WBP2	ENSG00000132471	ENST00000589241	retained_intron	KNOWN	None	12738	None	None	73844588	73851416	-1	None	WBP-2
17	WBP2	ENSG00000132471	ENST00000590450	processed_transcript	KNOWN	None	12738	None	None	73844863	73851390	-1	None	WBP-2
17	WBP2	ENSG00000132471	ENST00000589834	retained_intron	KNOWN	None	12738	None	None	73845438	73851418	-1	None	WBP-2
17	WBP2	ENSG00000132471	ENST00000592802	retained_intron	KNOWN	None	12738	None	None	73847281	73851416	-1	None	WBP-2
17	WBP2	ENSG00000132471	ENST00000254806	protein_coding	KNOWN	CCDS11731	12738	786	261	73841780	73851501	-1	None	WBP-2
17	WBP2	ENSG00000132471	ENST00000344296	protein_coding	KNOWN	None	12738	720	239	73842404	73851390	-1	None	WBP-2
9	None	ENSG00000243935	ENST00000429787	processed_transcript	KNOWN	None	None	None	None	41504853	41514094	-1	None	None
9	None	ENSG00000243935	ENST00000444803	transcribed_processed_pseudogene	KNOWN	None	None	None	None	41513413	41513699	-1	None	None
16	IL9RP3	ENSG00000226942	ENST00000442856	unprocessed_pseudogene	KNOWN	None	6033	None	None	79336	88321	-1	None	None
Y	GOLGA6L16P	ENSG00000197092	ENST00000441780	unprocessed_pseudogene	KNOWN	None	38117	None	None	27641798	27648105	-1	None	None
9	LRRC26	ENSG00000184709	ENST00000371542	protein_coding	KNOWN	CCDS35184	31409	1005	334	140063210	140064503	-1	None	bA350O14.10, OTTHUMG00000020980
11	OR51J1	ENSG00000184321	ENST00000332043	protein_coding	KNOWN	None	14856	951	316	5423827	5424777	1	OR51J2, OR51J1P	None
19	RNA5SP464	ENSG00000252060	ENST00000516251	rRNA	KNOWN	None	43364	None	None	12107624	12107731	1	RN5S464	None
4	None	ENSG00000250006	ENST00000503840	processed_pseudogene	KNOWN	None	None	None	None	78232550	78233264	-1	None	None
3	TMEM42	ENSG00000169964	ENST00000302392	protein_coding	KNOWN	CCDS2722	28444	480	159	44903361	44907162	1	None	MGC29956
3	TMEM42	ENSG00000169964	ENST00000477126	retained_intron	KNOWN	None	28444	None	None	44903396	44907162	1	None	MGC29956
19	RNA5SP465	ENSG00000212497	ENST00000391195	rRNA	KNOWN	None	43365	None	None	12138728	12138836	-1	RN5S465	None
4	None	ENSG00000248831	ENST00000506035	processed_pseudogene	KNOWN	None	None	None	None	78271523	78272388	-1	None	None
19	RNA5SP466	ENSG00000252546	ENST00000516737	rRNA	KNOWN	None	43366	None	None	12180979	12181086	1	RN5S466	None
3	C3orf72	ENSG00000206262	ENST00000470680	nonsense_mediated_decay	KNOWN	None	34428	126	41	138666076	138669721	1	None	FLJ43329
3	C3orf72	ENSG00000206262	ENST00000383165	protein_coding	KNOWN	CCDS43155	34428	528	175	138666076	138672293	1	None	FLJ43329
3	C3orf72	ENSG00000206262	ENST00000498709	retained_intron	KNOWN	None	34428	None	None	138666454	138669670	1	None	FLJ43329
4	None	ENSG00000249036	ENST00000513871	lincRNA	KNOWN	None	None	None	None	78315645	78415440	-1	None	None
19	None	ENSG00000199444	ENST00000362574	misc_RNA	NOVEL	None	None	None	None	12199060	12199161	-1	None	None
11	OR51Q1	ENSG00000167360	ENST00000300778	protein_coding	KNOWN	CCDS31381	14851	954	317	5443341	5444436	1	None	None
4	None	ENSG00000221711	ENST00000408784	snoRNA	NOVEL	None	None	None	None	78623900	78623957	-1	None	None
19	RSL24D1P8	ENSG00000237273	ENST00000434442	processed_pseudogene	KNOWN	None	37873	None	None	12207239	12207730	1	None	None
5	CCT7P2	ENSG00000249958	ENST00000479109	processed_pseudogene	KNOWN	None	35134	None	None	92225094	92226547	-1	None	None
4	None	ENSG00000250214	ENST00000508230	processed_pseudogene	KNOWN	None	None	None	None	78785662	78785958	-1	None	None
19	RNA5SP467	ENSG00000212576	ENST00000391274	rRNA	KNOWN	None	43367	None	None	12217312	12217429	1	RN5S467	None
22	TTLL1	ENSG00000100271	ENST00000439248	nonsense_mediated_decay	KNOWN	None	1312	180	59	43435650	43485344	-1	C22orf7	None
22	TTLL1	ENSG00000100271	ENST00000266254	protein_coding	KNOWN	CCDS14043	1312	1272	423	43435650	43485434	-1	C22orf7	None
22	TTLL1	ENSG00000100271	ENST00000440761	nonsense_mediated_decay	KNOWN	None	1312	180	59	43435675	43485425	-1	C22orf7	None
22	TTLL1	ENSG00000100271	ENST00000331018	protein_coding	KNOWN	None	1312	1185	394	43435522	43485434	-1	C22orf7	None
22	TTLL1	ENSG00000100271	ENST00000445824	protein_coding	KNOWN	None	1312	180	59	43466182	43485434	-1	C22orf7	None
5	None	ENSG00000248528	ENST00000507491	lincRNA	KNOWN	None	None	None	None	92242887	92275298	-1	None	None
Y	None	ENSG00000235583	ENST00000421819	unprocessed_pseudogene	KNOWN	None	None	None	None	27658448	27673933	-1	None	None
9	TMEM210	ENSG00000185863	ENST00000430332	processed_transcript	KNOWN	None	34059	None	None	140065310	140066201	-1	None	None
9	TMEM210	ENSG00000185863	ENST00000427366	retained_intron	KNOWN	None	34059	None	None	140065380	140066033	-1	None	None
9	TMEM210	ENSG00000185863	ENST00000413619	protein_coding	KNOWN	None	34059	444	147	140065380	140066861	-1	None	None
9	TMEM210	ENSG00000185863	ENST00000535352	protein_coding	PUTATIVE	None	34059	156	51	140065382	140066498	-1	None	None
19	None	ENSG00000242615	ENST00000472362	processed_transcript	KNOWN	None	None	None	None	12252621	12254137	-1	None	None
19	None	ENSG00000242615	ENST00000486612	transcribed_processed_pseudogene	KNOWN	None	None	None	None	12253186	12253708	-1	None	None
5	None	ENSG00000251361	ENST00000515153	lincRNA	KNOWN	None	None	None	None	92355369	92404375	-1	None	None
HSCHR6_MHC_DBB	C2	ENSG00000231543	ENST00000475544	processed_transcript	PUTATIVE	None	1248	None	None	31847749	31895640	1	None	None
HSCHR6_MHC_DBB	C2	ENSG00000231543	ENST00000449738	protein_coding	KNOWN	None	1248	508	168	31850961	31889217	1	None	None
HSCHR6_MHC_DBB	C2	ENSG00000231543	ENST00000433109	protein_coding	KNOWN	None	1248	476	157	31850966	31884262	1	None	None
HSCHR6_MHC_DBB	C2	ENSG00000231543	ENST00000484901	processed_transcript	KNOWN	None	1248	None	None	31869908	31887427	1	None	None
HSCHR6_MHC_DBB	C2	ENSG00000231543	ENST00000435596	protein_coding	KNOWN	None	1248	419	138	31869951	31878861	1	None	None
HSCHR6_MHC_DBB	C2	ENSG00000231543	ENST00000469696	processed_transcript	KNOWN	None	1248	None	None	31870063	31885957	1	None	None
HSCHR6_MHC_DBB	C2	ENSG00000231543	ENST00000413548	protein_coding	KNOWN	None	1248	2259	752	31877459	31895640	1	None	None
HSCHR6_MHC_DBB	C2	ENSG00000231543	ENST00000449293	protein_coding	KNOWN	None	1248	377	124	31877492	31883697	1	None	None
HSCHR6_MHC_DBB	C2	ENSG00000231543	ENST00000435104	protein_coding	KNOWN	None	1248	1059	352	31877498	31893287	1	None	None
HSCHR6_MHC_DBB	C2	ENSG00000231543	ENST00000497466	retained_intron	KNOWN	None	1248	None	None	31877670	31885025	1	None	None
HSCHR6_MHC_DBB	C2	ENSG00000231543	ENST00000423826	protein_coding	KNOWN	None	1248	1578	525	31877730	31895640	1	None	None
HSCHR6_MHC_DBB	C2	ENSG00000231543	ENST00000486307	processed_transcript	PUTATIVE	None	1248	None	None	31882315	31884249	1	None	None
HSCHR6_MHC_DBB	C2	ENSG00000231543	ENST00000477630	processed_transcript	KNOWN	None	1248	None	None	31884250	31893726	1	None	None
HSCHR6_MHC_DBB	C2	ENSG00000231543	ENST00000483332	retained_intron	KNOWN	None	1248	None	None	31886022	31895640	1	None	None
HSCHR6_MHC_DBB	C2	ENSG00000231543	ENST00000495674	processed_transcript	KNOWN	None	1248	None	None	31893641	31895640	1	None	None
HSCHR6_MHC_DBB	C2	ENSG00000231543	ENST00000550682	protein_coding	KNOWN	None	1248	1863	620	31877456	31895637	1	None	None
HSCHR6_MHC_DBB	C2	ENSG00000231543	ENST00000549997	protein_coding	KNOWN	None	1248	1134	377	31877456	31895637	1	None	None
16	None	ENSG00000269482	ENST00000601483	antisense	KNOWN	None	None	None	None	140629	141100	1	None	None
5	POLD2P1	ENSG00000213730	ENST00000511220	processed_pseudogene	KNOWN	None	41522	None	None	92603135	92604131	1	None	None
19	None	ENSG00000234773	ENST00000415793	lincRNA	KNOWN	None	None	None	None	12305830	12318512	1	None	None
19	None	ENSG00000234773	ENST00000440004	lincRNA	KNOWN	None	None	None	None	12305830	12348247	1	None	None
19	None	ENSG00000234773	ENST00000426044	lincRNA	KNOWN	None	None	None	None	12305832	12348582	1	None	None
19	None	ENSG00000234773	ENST00000451691	lincRNA	KNOWN	None	None	None	None	12305903	12318269	1	None	None
17	TEX14	ENSG00000121101	ENST00000389934	protein_coding	KNOWN	CCDS32693	11737	4476	1491	56634039	56769416	-1	None	CT113
17	TEX14	ENSG00000121101	ENST00000584699	processed_transcript	KNOWN	None	11737	None	None	56634041	56641619	-1	None	CT113
17	TEX14	ENSG00000121101	ENST00000240361	protein_coding	KNOWN	CCDS56042	11737	4494	1497	56634041	56769384	-1	None	CT113
17	TEX14	ENSG00000121101	ENST00000349033	protein_coding	KNOWN	CCDS32692	11737	4356	1451	56634041	56769384	-1	None	CT113
17	TEX14	ENSG00000121101	ENST00000582740	nonsense_mediated_decay	KNOWN	None	11737	201	66	56634041	56769406	-1	None	CT113
17	TEX14	ENSG00000121101	ENST00000581147	nonsense_mediated_decay	KNOWN	None	11737	457	151	56643113	56650612	-1	None	CT113
16	None	ENSG00000228779	ENST00000445733	antisense	KNOWN	None	None	None	None	175736	177218	1	None	None
16	GPR97	ENSG00000182885	ENST00000333493	protein_coding	KNOWN	CCDS10786	13728	1650	549	57702099	57723290	1	None	Pb99, PGR26
16	GPR97	ENSG00000182885	ENST00000568245	nonsense_mediated_decay	KNOWN	None	13728	210	69	57702189	57712194	1	None	Pb99, PGR26
16	GPR97	ENSG00000182885	ENST00000565579	retained_intron	KNOWN	None	13728	None	None	57702218	57712751	1	None	Pb99, PGR26
16	GPR97	ENSG00000182885	ENST00000450388	protein_coding	PUTATIVE	None	13728	1290	429	57702220	57722607	1	None	Pb99, PGR26
16	GPR97	ENSG00000182885	ENST00000567991	nonsense_mediated_decay	KNOWN	None	13728	948	315	57702229	57723290	1	None	Pb99, PGR26
16	GPR97	ENSG00000182885	ENST00000565902	retained_intron	KNOWN	None	13728	None	None	57702235	57712538	1	None	Pb99, PGR26
16	GPR97	ENSG00000182885	ENST00000569977	retained_intron	KNOWN	None	13728	None	None	57713710	57722828	1	None	Pb99, PGR26
16	GPR97	ENSG00000182885	ENST00000327655	protein_coding	KNOWN	None	13728	1173	390	57702157	57723975	1	None	Pb99, PGR26
Y	CDY19P	ENSG00000237823	ENST00000411668	unprocessed_pseudogene	KNOWN	None	23863	None	None	27710269	27712180	-1	None	None
11	BDNF	ENSG00000176697	ENST00000439476	protein_coding	KNOWN	CCDS7866	1033	744	247	27676440	27681205	-1	None	None
11	BDNF	ENSG00000176697	ENST00000525528	protein_coding	KNOWN	CCDS7866	1033	744	247	27676440	27681205	-1	None	None
11	BDNF	ENSG00000176697	ENST00000395986	protein_coding	KNOWN	CCDS41628	1033	789	262	27676440	27721214	-1	None	None
11	BDNF	ENSG00000176697	ENST00000533131	protein_coding	KNOWN	CCDS7866	1033	744	247	27676440	27721214	-1	None	None
11	BDNF	ENSG00000176697	ENST00000356660	protein_coding	KNOWN	CCDS7866	1033	744	247	27676440	27722035	-1	None	None
11	BDNF	ENSG00000176697	ENST00000418212	protein_coding	KNOWN	CCDS7866	1033	744	247	27676440	27722035	-1	None	None
11	BDNF	ENSG00000176697	ENST00000533246	protein_coding	KNOWN	CCDS7866	1033	744	247	27676440	27722035	-1	None	None
11	BDNF	ENSG00000176697	ENST00000530861	protein_coding	KNOWN	CCDS7866	1033	744	247	27676440	27722447	-1	None	None
11	BDNF	ENSG00000176697	ENST00000530786	nonsense_mediated_decay	KNOWN	None	1033	234	77	27676440	27722600	-1	None	None
11	BDNF	ENSG00000176697	ENST00000395983	protein_coding	KNOWN	CCDS7866	1033	744	247	27676440	27722600	-1	None	None
11	BDNF	ENSG00000176697	ENST00000438929	protein_coding	KNOWN	CCDS44558	1033	990	329	27676440	27722600	-1	None	None
11	BDNF	ENSG00000176697	ENST00000584049	processed_transcript	KNOWN	None	1033	None	None	27676440	27723180	-1	None	None
11	BDNF	ENSG00000176697	ENST00000532997	protein_coding	KNOWN	CCDS7866	1033	744	247	27676440	27741294	-1	None	None
11	BDNF	ENSG00000176697	ENST00000395981	protein_coding	KNOWN	CCDS7866	1033	744	247	27676440	27742270	-1	None	None
11	BDNF	ENSG00000176697	ENST00000395978	protein_coding	KNOWN	CCDS7866	1033	744	247	27676440	27742270	-1	None	None
11	BDNF	ENSG00000176697	ENST00000525950	protein_coding	KNOWN	CCDS7866	1033	744	247	27676440	27742326	-1	None	None
11	BDNF	ENSG00000176697	ENST00000314915	protein_coding	KNOWN	CCDS7865	1033	768	255	27676440	27743605	-1	None	None
11	BDNF	ENSG00000176697	ENST00000395980	protein_coding	KNOWN	CCDS7866	1033	744	247	27676440	27723180	-1	None	None
11	BDNF	ENSG00000176697	ENST00000420794	protein_coding	KNOWN	CCDS7866	1033	744	247	27676440	27722600	-1	None	None
8	CALB1	ENSG00000104327	ENST00000469032	retained_intron	KNOWN	None	1434	None	None	91070836	91076696	-1	CALB	None
8	CALB1	ENSG00000104327	ENST00000265431	protein_coding	KNOWN	CCDS6251	1434	786	261	91070836	91095107	-1	CALB	None
8	CALB1	ENSG00000104327	ENST00000518457	protein_coding	PUTATIVE	None	1434	615	204	91071647	91093749	-1	CALB	None
8	CALB1	ENSG00000104327	ENST00000497376	retained_intron	KNOWN	None	1434	None	None	91072398	91073540	-1	CALB	None
8	CALB1	ENSG00000104327	ENST00000522070	retained_intron	KNOWN	None	1434	None	None	91074856	91075658	-1	CALB	None
8	CALB1	ENSG00000104327	ENST00000523716	protein_coding	PUTATIVE	None	1434	357	118	91075527	91107703	-1	CALB	None
8	CALB1	ENSG00000104327	ENST00000520613	protein_coding	PUTATIVE	None	1434	306	101	91075663	91107579	-1	CALB	None
8	CALB1	ENSG00000104327	ENST00000482702	retained_intron	KNOWN	None	1434	None	None	91081232	91095099	-1	CALB	None
8	CALB1	ENSG00000104327	ENST00000476853	retained_intron	KNOWN	None	1434	None	None	91081397	91094643	-1	CALB	None
8	CALB1	ENSG00000104327	ENST00000473670	retained_intron	KNOWN	None	1434	None	None	91090539	91094811	-1	CALB	None
8	CALB1	ENSG00000104327	ENST00000514406	protein_coding	PUTATIVE	None	1434	9	2	91090652	91107698	-1	CALB	None
17	KRT33B	ENSG00000131738	ENST00000251646	protein_coding	KNOWN	CCDS11389	6451	1215	404	39519746	39526052	-1	KRTHA3B	Ha-3II
3	RYBP	ENSG00000163602	ENST00000477973	protein_coding	KNOWN	None	10480	952	316	72423744	72496069	-1	None	YEAF1, AAP1, DEDAF
19	None	ENSG00000213293	ENST00000461223	processed_pseudogene	KNOWN	None	None	None	None	12370941	12371352	1	None	None
Y	USP9YP36	ENSG00000229709	ENST00000424581	unprocessed_pseudogene	KNOWN	None	38780	None	None	27725937	27734591	1	None	None
9	C9orf171	ENSG00000188523	ENST00000393215	protein_coding	PUTATIVE	None	33776	597	198	135285430	135388793	1	None	FLJ46082
9	C9orf171	ENSG00000188523	ENST00000343036	protein_coding	KNOWN	CCDS6949	33776	963	320	135285611	135448704	1	None	FLJ46082
9	C9orf171	ENSG00000188523	ENST00000393216	protein_coding	KNOWN	None	33776	855	284	135285615	135448636	1	None	FLJ46082
6	None	ENSG00000220918	ENST00000403623	processed_pseudogene	KNOWN	None	None	None	None	80564401	80565349	1	None	None
1	SOAT1	ENSG00000057252	ENST00000367619	protein_coding	KNOWN	CCDS1330	11177	1653	550	179262937	179327815	1	SOAT, STAT	ACAT
1	SOAT1	ENSG00000057252	ENST00000426956	protein_coding	KNOWN	None	11177	780	259	179263455	179310445	1	SOAT, STAT	ACAT
1	SOAT1	ENSG00000057252	ENST00000540564	protein_coding	KNOWN	CCDS58047	11177	1479	492	179262932	179323138	1	SOAT, STAT	ACAT
1	SOAT1	ENSG00000057252	ENST00000539888	protein_coding	KNOWN	CCDS58048	11177	1458	485	179262925	179322942	1	SOAT, STAT	ACAT
1	SOAT1	ENSG00000057252	ENST00000535686	protein_coding	KNOWN	None	11177	861	286	179262932	179322997	1	SOAT, STAT	ACAT
4	LDHAP1	ENSG00000251587	ENST00000509421	processed_pseudogene	KNOWN	None	6536	None	None	4895909	4896900	-1	LDHAL1	None
6	None	ENSG00000233835	ENST00000436418	lincRNA	KNOWN	None	None	None	None	80581590	80584327	1	None	None
6	GAPDHP63	ENSG00000218582	ENST00000405405	processed_pseudogene	KNOWN	None	4157	None	None	80662722	80663728	-1	GAPDL8, GAPDHL8	None
Y	USP9YP33	ENSG00000232064	ENST00000412220	unprocessed_pseudogene	KNOWN	None	38777	None	None	27736470	27738492	-1	None	None
6	MYL8P	ENSG00000229596	ENST00000431574	processed_pseudogene	KNOWN	None	7589	None	None	33306755	33307272	1	None	BING3
6	MYL8P	ENSG00000229596	ENST00000430664	processed_pseudogene	KNOWN	None	7589	None	None	33306760	33307272	1	None	BING3
4	RN7SKP113	ENSG00000200761	ENST00000363891	misc_RNA	KNOWN	None	45837	None	None	4922497	4922791	-1	None	None
6	RPL35AP18	ENSG00000220311	ENST00000404414	processed_pseudogene	KNOWN	None	36812	None	None	80673932	80674236	1	None	None
4	None	ENSG00000252266	ENST00000516457	misc_RNA	NOVEL	None	None	None	None	5428612	5428711	-1	None	None
Y	CDY20P	ENSG00000225609	ENST00000447528	unprocessed_pseudogene	KNOWN	None	23864	None	None	27764791	27766400	1	None	None
4	RN7SKP275	ENSG00000201496	ENST00000364626	misc_RNA	KNOWN	None	45999	None	None	5460308	5460608	-1	None	None
6	None	ENSG00000218418	ENST00000401578	processed_pseudogene	KNOWN	None	None	None	None	80774003	80779916	-1	None	None
4	MIR378D1	ENSG00000263631	ENST00000580913	miRNA	KNOWN	None	41550	None	None	5925002	5925055	-1	None	hsa-mir-378d-1
6	LYPLA2P1	ENSG00000228285	ENST00000447689	processed_pseudogene	KNOWN	None	21069	None	None	33333325	33334020	-1	LYPLA2L	dJ570F3.6, APT
3	CMTM7	ENSG00000153551	ENST00000334983	protein_coding	KNOWN	CCDS33730	19178	528	175	32433163	32497020	1	CKLFSF7	FLJ30992
3	CMTM7	ENSG00000153551	ENST00000349718	protein_coding	NOVEL	CCDS33731	19178	429	142	32433190	32496322	1	CKLFSF7	FLJ30992
3	CMTM7	ENSG00000153551	ENST00000454304	nonsense_mediated_decay	KNOWN	None	19178	456	151	32433381	32495850	1	CKLFSF7	FLJ30992
3	CMTM7	ENSG00000153551	ENST00000465248	protein_coding	PUTATIVE	None	19178	492	163	32433531	32496311	1	CKLFSF7	FLJ30992
3	CMTM7	ENSG00000153551	ENST00000487007	nonsense_mediated_decay	KNOWN	None	19178	134	43	32491007	32524559	1	CKLFSF7	FLJ30992
3	CMTM7	ENSG00000153551	ENST00000464689	retained_intron	KNOWN	None	19178	None	None	32492495	32496327	1	CKLFSF7	FLJ30992
4	None	ENSG00000249896	ENST00000508601	lincRNA	KNOWN	None	None	None	None	6202460	6240044	1	None	None
6	AK4P5	ENSG00000217377	ENST00000404520	processed_pseudogene	KNOWN	None	39068	None	None	80787446	80788079	-1	None	None
12	ACACB	ENSG00000076555	ENST00000338432	protein_coding	KNOWN	CCDS31898	85	7377	2458	109554400	109706031	1	None	HACC275, ACC2, ACCB
12	ACACB	ENSG00000076555	ENST00000539864	protein_coding	KNOWN	None	85	430	142	109569163	109577715	1	None	HACC275, ACC2, ACCB
12	ACACB	ENSG00000076555	ENST00000546328	retained_intron	KNOWN	None	85	None	None	109577784	109605085	1	None	HACC275, ACC2, ACCB
12	ACACB	ENSG00000076555	ENST00000544726	protein_coding	PUTATIVE	None	85	466	154	109592487	109610116	1	None	HACC275, ACC2, ACCB
12	ACACB	ENSG00000076555	ENST00000543080	processed_transcript	KNOWN	None	85	None	None	109613782	109617845	1	None	HACC275, ACC2, ACCB
12	ACACB	ENSG00000076555	ENST00000544651	retained_intron	KNOWN	None	85	None	None	109629283	109629723	1	None	HACC275, ACC2, ACCB
12	ACACB	ENSG00000076555	ENST00000538526	nonsense_mediated_decay	KNOWN	None	85	2578	858	109670474	109704360	1	None	HACC275, ACC2, ACCB
12	ACACB	ENSG00000076555	ENST00000542524	retained_intron	KNOWN	None	85	None	None	109673112	109674182	1	None	HACC275, ACC2, ACCB
12	ACACB	ENSG00000076555	ENST00000534852	retained_intron	KNOWN	None	85	None	None	109679028	109680472	1	None	HACC275, ACC2, ACCB
12	ACACB	ENSG00000076555	ENST00000537347	retained_intron	KNOWN	None	85	None	None	109679475	109684191	1	None	HACC275, ACC2, ACCB
12	ACACB	ENSG00000076555	ENST00000536440	retained_intron	KNOWN	None	85	None	None	109683519	109690037	1	None	HACC275, ACC2, ACCB
12	ACACB	ENSG00000076555	ENST00000396233	retained_intron	KNOWN	None	85	None	None	109686763	109690866	1	None	HACC275, ACC2, ACCB
12	ACACB	ENSG00000076555	ENST00000537279	retained_intron	KNOWN	None	85	None	None	109700827	109704746	1	None	HACC275, ACC2, ACCB
12	ACACB	ENSG00000076555	ENST00000377848	protein_coding	KNOWN	CCDS31898	85	7377	2458	109577202	109706028	1	None	HACC275, ACC2, ACCB
12	ACACB	ENSG00000076555	ENST00000377854	protein_coding	KNOWN	None	85	7167	2388	109577202	109706028	1	None	HACC275, ACC2, ACCB
12	ACACB	ENSG00000076555	ENST00000543201	protein_coding	KNOWN	None	85	2577	858	109670474	109704349	1	None	HACC275, ACC2, ACCB
2	LCT	ENSG00000115850	ENST00000264162	protein_coding	KNOWN	CCDS2178	6530	5784	1927	136545410	136594750	-1	None	None
2	LCT	ENSG00000115850	ENST00000452974	nonsense_mediated_decay	KNOWN	None	6530	3012	1003	136551907	136570529	-1	None	None
6	None	ENSG00000272129	ENST00000606629	lincRNA	KNOWN	None	None	None	None	81065141	81066576	1	None	None
3	PRR23A	ENSG00000206260	ENST00000383163	protein_coding	KNOWN	CCDS46923	37172	801	266	138722804	138725110	-1	None	None
1	CLCC1	ENSG00000121940	ENST00000356970	protein_coding	KNOWN	CCDS41362	29675	1656	551	109472130	109506079	-1	None	MCLC
1	CLCC1	ENSG00000121940	ENST00000473062	processed_transcript	KNOWN	None	29675	None	None	109472561	109486149	-1	None	MCLC
1	CLCC1	ENSG00000121940	ENST00000369976	protein_coding	KNOWN	None	29675	789	262	109472561	109506072	-1	None	MCLC
1	CLCC1	ENSG00000121940	ENST00000482889	processed_transcript	KNOWN	None	29675	None	None	109472602	109486504	-1	None	MCLC
1	CLCC1	ENSG00000121940	ENST00000369970	protein_coding	KNOWN	CCDS793	29675	1506	501	109474608	109493070	-1	None	MCLC
1	CLCC1	ENSG00000121940	ENST00000348264	protein_coding	KNOWN	None	29675	1101	366	109477280	109493070	-1	None	MCLC
1	CLCC1	ENSG00000121940	ENST00000302500	protein_coding	KNOWN	None	29675	1293	430	109477280	109493070	-1	None	MCLC
1	CLCC1	ENSG00000121940	ENST00000369971	protein_coding	KNOWN	CCDS41362	29675	1656	551	109472130	109506111	-1	None	MCLC
1	CLCC1	ENSG00000121940	ENST00000415331	protein_coding	KNOWN	CCDS793	29675	1506	501	109472130	109506111	-1	None	MCLC
1	CLCC1	ENSG00000121940	ENST00000369969	protein_coding	KNOWN	None	29675	1293	430	109472130	109493060	-1	None	MCLC
1	CLCC1	ENSG00000121940	ENST00000369968	protein_coding	KNOWN	None	29675	1101	366	109472130	109493060	-1	None	MCLC
4	None	ENSG00000251408	ENST00000507424	lincRNA	KNOWN	None	None	None	None	6204055	6208376	1	None	None
12	FAM216A	ENSG00000204856	ENST00000377673	protein_coding	KNOWN	CCDS31899	30180	822	273	110906169	110928190	1	C12orf24	HSU79274
12	FAM216A	ENSG00000204856	ENST00000538285	retained_intron	KNOWN	None	30180	None	None	110906220	110925120	1	C12orf24	HSU79274
12	FAM216A	ENSG00000204856	ENST00000548869	retained_intron	KNOWN	None	30180	None	None	110906229	110925103	1	C12orf24	HSU79274
12	FAM216A	ENSG00000204856	ENST00000548449	nonsense_mediated_decay	KNOWN	None	30180	234	77	110906586	110924858	1	C12orf24	HSU79274
12	FAM216A	ENSG00000204856	ENST00000546396	retained_intron	KNOWN	None	30180	None	None	110924106	110928190	1	C12orf24	HSU79274
12	FAM216A	ENSG00000204856	ENST00000547539	retained_intron	KNOWN	None	30180	None	None	110924696	110928154	1	C12orf24	HSU79274
5	NR2F1-AS1	ENSG00000237187	ENST00000607797	antisense	KNOWN	None	48622	None	None	92745065	92906499	-1	None	FLJ42709
5	NR2F1-AS1	ENSG00000237187	ENST00000606233	antisense	KNOWN	None	48622	None	None	92745515	92916925	-1	None	FLJ42709
5	NR2F1-AS1	ENSG00000237187	ENST00000606165	antisense	KNOWN	None	48622	None	None	92746724	92758948	-1	None	FLJ42709
5	NR2F1-AS1	ENSG00000237187	ENST00000606188	antisense	KNOWN	None	48622	None	None	92746724	92774443	-1	None	FLJ42709
5	NR2F1-AS1	ENSG00000237187	ENST00000606739	antisense	KNOWN	None	48622	None	None	92746727	92906525	-1	None	FLJ42709
5	NR2F1-AS1	ENSG00000237187	ENST00000607195	antisense	KNOWN	None	48622	None	None	92746739	92758129	-1	None	FLJ42709
5	NR2F1-AS1	ENSG00000237187	ENST00000510254	antisense	KNOWN	None	48622	None	None	92746995	92916713	-1	None	FLJ42709
5	NR2F1-AS1	ENSG00000237187	ENST00000607112	antisense	KNOWN	None	48622	None	None	92747108	92758119	-1	None	FLJ42709
5	NR2F1-AS1	ENSG00000237187	ENST00000607831	antisense	KNOWN	None	48622	None	None	92747153	92907049	-1	None	FLJ42709
5	NR2F1-AS1	ENSG00000237187	ENST00000606696	antisense	KNOWN	None	48622	None	None	92877578	92916994	-1	None	FLJ42709
5	NR2F1-AS1	ENSG00000237187	ENST00000504474	antisense	KNOWN	None	48622	None	None	92877578	92917003	-1	None	FLJ42709
5	NR2F1-AS1	ENSG00000237187	ENST00000503134	processed_transcript	KNOWN	None	48622	None	None	92879248	92916738	-1	None	FLJ42709
5	NR2F1-AS1	ENSG00000237187	ENST00000507963	antisense	KNOWN	None	48622	None	None	92889459	92916761	-1	None	FLJ42709
5	NR2F1-AS1	ENSG00000237187	ENST00000513055	antisense	KNOWN	None	48622	None	None	92889467	92921354	-1	None	FLJ42709
17	RPL23	ENSG00000125691	ENST00000394332	protein_coding	PUTATIVE	CCDS11330	10316	423	140	37004118	37009975	-1	None	rpL17, L23
17	RPL23	ENSG00000125691	ENST00000394333	protein_coding	PUTATIVE	None	10316	345	114	37004118	37009988	-1	None	rpL17, L23
17	RPL23	ENSG00000125691	ENST00000479035	protein_coding	KNOWN	CCDS11330	10316	423	140	37004120	37010096	-1	None	rpL17, L23
17	RPL23	ENSG00000125691	ENST00000245857	protein_coding	PUTATIVE	None	10316	246	81	37006334	37009681	-1	None	rpL17, L23
17	RPL23	ENSG00000125691	ENST00000584912	retained_intron	KNOWN	None	10316	None	None	37006334	37009993	-1	None	rpL17, L23
17	RPL23	ENSG00000125691	ENST00000584583	retained_intron	KNOWN	None	10316	None	None	37006339	37006914	-1	None	rpL17, L23
17	RPL23	ENSG00000125691	ENST00000577407	protein_coding	PUTATIVE	None	10316	369	122	37006367	37009990	-1	None	rpL17, L23
17	RPL23	ENSG00000125691	ENST00000470646	protein_coding	PUTATIVE	None	10316	103	33	37006675	37009677	-1	None	rpL17, L23
17	RPL23	ENSG00000125691	ENST00000378096	protein_coding	PUTATIVE	None	10316	275	90	37006692	37009882	-1	None	rpL17, L23
17	RPL23	ENSG00000125691	ENST00000577760	retained_intron	KNOWN	None	10316	None	None	37006937	37010017	-1	None	rpL17, L23
17	RPL23	ENSG00000125691	ENST00000584056	retained_intron	KNOWN	None	10316	None	None	37008851	37009991	-1	None	rpL17, L23
4	RNU6-550P	ENSG00000212359	ENST00000391057	snRNA	KNOWN	None	47513	None	None	121731624	121731724	1	None	None
17	KRT34	ENSG00000131737	ENST00000394001	protein_coding	KNOWN	CCDS11390	6452	1311	436	39533902	39538655	-1	KRTHA4	Ha-4
4	SETP12	ENSG00000251609	ENST00000514068	processed_pseudogene	KNOWN	None	42931	None	None	121816649	121818238	-1	None	None
18	ASXL3	ENSG00000141431	ENST00000592288	nonsense_mediated_decay	KNOWN	None	29357	957	318	31158579	31323525	1	KIAA1713	None
18	ASXL3	ENSG00000141431	ENST00000593195	nonsense_mediated_decay	KNOWN	None	29357	186	61	31158596	31241609	1	KIAA1713	None
18	ASXL3	ENSG00000141431	ENST00000269197	protein_coding	KNOWN	CCDS45847	29357	6747	2248	31158596	31331156	1	KIAA1713	None
18	ASXL3	ENSG00000141431	ENST00000590189	protein_coding	PUTATIVE	None	29357	538	178	31158605	31250706	1	KIAA1713	None
18	ASXL3	ENSG00000141431	ENST00000592541	nonsense_mediated_decay	KNOWN	None	29357	177	58	31158608	31250725	1	KIAA1713	None
18	ASXL3	ENSG00000141431	ENST00000586596	protein_coding	PUTATIVE	None	29357	523	173	31158630	31250713	1	KIAA1713	None
18	ASXL3	ENSG00000141431	ENST00000592349	processed_transcript	KNOWN	None	29357	None	None	31158735	31206892	1	KIAA1713	None
18	ASXL3	ENSG00000141431	ENST00000586948	processed_transcript	KNOWN	None	29357	None	None	31158846	31207007	1	KIAA1713	None
18	ASXL3	ENSG00000141431	ENST00000586327	protein_coding	PUTATIVE	None	29357	444	147	31185550	31241701	1	KIAA1713	None
18	ASXL3	ENSG00000141431	ENST00000588038	nonsense_mediated_decay	KNOWN	None	29357	60	19	31185551	31206966	1	KIAA1713	None
18	ASXL3	ENSG00000141431	ENST00000585426	nonsense_mediated_decay	KNOWN	None	29357	105	34	31185558	31229581	1	KIAA1713	None
18	ASXL3	ENSG00000141431	ENST00000588741	nonsense_mediated_decay	KNOWN	None	29357	105	34	31185563	31226317	1	KIAA1713	None
18	ASXL3	ENSG00000141431	ENST00000590225	nonsense_mediated_decay	KNOWN	None	29357	177	58	31185572	31226313	1	KIAA1713	None
18	ASXL3	ENSG00000141431	ENST00000593235	nonsense_mediated_decay	KNOWN	None	29357	105	34	31185590	31250682	1	KIAA1713	None
18	ASXL3	ENSG00000141431	ENST00000590973	nonsense_mediated_decay	KNOWN	None	29357	177	58	31187571	31241630	1	KIAA1713	None
8	RPL8	ENSG00000161016	ENST00000534781	retained_intron	KNOWN	None	10368	None	None	146015150	146016257	-1	None	L8
8	RPL8	ENSG00000161016	ENST00000531975	nonsense_mediated_decay	KNOWN	None	10368	331	109	146015151	146017442	-1	None	L8
8	RPL8	ENSG00000161016	ENST00000529163	processed_transcript	KNOWN	None	10368	None	None	146015152	146017775	-1	None	L8
8	RPL8	ENSG00000161016	ENST00000526668	retained_intron	KNOWN	None	10368	None	None	146015153	146017344	-1	None	L8
8	RPL8	ENSG00000161016	ENST00000528296	processed_transcript	KNOWN	None	10368	None	None	146015154	146017510	-1	None	L8
8	RPL8	ENSG00000161016	ENST00000394920	protein_coding	KNOWN	CCDS6433	10368	774	257	146015154	146017774	-1	None	L8
8	RPL8	ENSG00000161016	ENST00000527914	protein_coding	PUTATIVE	None	10368	447	148	146015154	146017808	-1	None	L8
8	RPL8	ENSG00000161016	ENST00000262584	protein_coding	KNOWN	CCDS6433	10368	774	257	146015155	146017972	-1	None	L8
8	RPL8	ENSG00000161016	ENST00000528957	protein_coding	KNOWN	CCDS6433	10368	774	257	146015170	146017736	-1	None	L8
8	RPL8	ENSG00000161016	ENST00000529920	nonsense_mediated_decay	KNOWN	None	10368	504	167	146015187	146017528	-1	None	L8
8	RPL8	ENSG00000161016	ENST00000533397	protein_coding	PUTATIVE	None	10368	706	234	146015194	146017538	-1	None	L8
8	RPL8	ENSG00000161016	ENST00000532702	protein_coding	PUTATIVE	None	10368	615	204	146015740	146017769	-1	None	L8
8	RPL8	ENSG00000161016	ENST00000525232	retained_intron	KNOWN	None	10368	None	None	146016498	146017806	-1	None	L8
8	RPL8	ENSG00000161016	ENST00000531767	retained_intron	KNOWN	None	10368	None	None	146016892	146017805	-1	None	L8
4	RN7SKP137	ENSG00000223006	ENST00000411074	misc_RNA	KNOWN	None	45861	None	None	121982327	121982633	-1	None	None
19	AP1M2	ENSG00000129354	ENST00000587069	protein_coding	PUTATIVE	None	558	387	128	10683347	10687990	-1	None	HSMU1B, mu2, AP1-mu2
19	AP1M2	ENSG00000129354	ENST00000590923	protein_coding	KNOWN	None	558	1278	425	10683347	10697991	-1	None	HSMU1B, mu2, AP1-mu2
19	AP1M2	ENSG00000129354	ENST00000250244	protein_coding	KNOWN	CCDS45964	558	1272	423	10683348	10697990	-1	None	HSMU1B, mu2, AP1-mu2
19	AP1M2	ENSG00000129354	ENST00000589348	protein_coding	NOVEL	None	558	133	43	10683365	10687907	-1	None	HSMU1B, mu2, AP1-mu2
19	AP1M2	ENSG00000129354	ENST00000592285	protein_coding	PUTATIVE	None	558	312	103	10685034	10687948	-1	None	HSMU1B, mu2, AP1-mu2
19	AP1M2	ENSG00000129354	ENST00000591240	protein_coding	NOVEL	None	558	736	244	10687948	10697895	-1	None	HSMU1B, mu2, AP1-mu2
19	AP1M2	ENSG00000129354	ENST00000589684	protein_coding	PUTATIVE	None	558	718	238	10690412	10697926	-1	None	HSMU1B, mu2, AP1-mu2
19	AP1M2	ENSG00000129354	ENST00000591676	protein_coding	NOVEL	None	558	897	298	10691958	10697971	-1	None	HSMU1B, mu2, AP1-mu2
19	AP1M2	ENSG00000129354	ENST00000589571	nonsense_mediated_decay	KNOWN	None	558	117	38	10692422	10697975	-1	None	HSMU1B, mu2, AP1-mu2
19	AP1M2	ENSG00000129354	ENST00000589809	retained_intron	KNOWN	None	558	None	None	10694236	10697895	-1	None	HSMU1B, mu2, AP1-mu2
10	GPAM	ENSG00000119927	ENST00000348367	protein_coding	KNOWN	CCDS7570	24865	2487	828	113909624	113943521	-1	None	KIAA1560, MGC26846, GPAT1
10	GPAM	ENSG00000119927	ENST00000369425	protein_coding	KNOWN	None	24865	2133	710	113913628	113943468	-1	None	KIAA1560, MGC26846, GPAT1
10	GPAM	ENSG00000119927	ENST00000480130	processed_transcript	KNOWN	None	24865	None	None	113940279	113975135	-1	None	KIAA1560, MGC26846, GPAT1
10	GPAM	ENSG00000119927	ENST00000498541	processed_transcript	KNOWN	None	24865	None	None	113940310	113974154	-1	None	KIAA1560, MGC26846, GPAT1
10	GPAM	ENSG00000119927	ENST00000423155	protein_coding	KNOWN	CCDS7570	24865	2487	828	113909637	113943525	-1	None	KIAA1560, MGC26846, GPAT1
HSCHR6_MHC_MANN	PPP1R11	ENSG00000236560	ENST00000448550	protein_coding	KNOWN	None	9285	225	74	30029681	30033306	1	TCTE5	HCGV, Tctex5, HCG-V
HSCHR6_MHC_MANN	PPP1R11	ENSG00000236560	ENST00000431424	protein_coding	KNOWN	None	9285	381	126	30030178	30033306	1	TCTE5	HCGV, Tctex5, HCG-V
HSCHR6_MHC_MANN	PPP1R11	ENSG00000236560	ENST00000414032	protein_coding	KNOWN	None	9285	225	74	30030178	30033306	1	TCTE5	HCGV, Tctex5, HCG-V
HSCHR6_MHC_MANN	PPP1R11	ENSG00000236560	ENST00000439463	protein_coding	KNOWN	None	9285	225	74	30030516	30033306	1	TCTE5	HCGV, Tctex5, HCG-V
HSCHR6_MHC_MANN	PPP1R11	ENSG00000236560	ENST00000451993	protein_coding	KNOWN	None	9285	225	74	30030549	30033306	1	TCTE5	HCGV, Tctex5, HCG-V
HSCHR6_MHC_MANN	PPP1R11	ENSG00000236560	ENST00000450177	protein_coding	KNOWN	None	9285	225	74	30031179	30033306	1	TCTE5	HCGV, Tctex5, HCG-V
6	RPL35AP4	ENSG00000225644	ENST00000412007	processed_pseudogene	KNOWN	None	33460	None	None	33357151	33357252	-1	None	BPG294E21.7, OTTHUMG00000140156
11	INSC	ENSG00000188487	ENST00000379554	protein_coding	KNOWN	CCDS41621	33116	1740	579	15133970	15268754	1	None	None
11	INSC	ENSG00000188487	ENST00000379556	protein_coding	KNOWN	CCDS41622	33116	1599	532	15136484	15268754	1	None	None
11	INSC	ENSG00000188487	ENST00000528567	protein_coding	NOVEL	None	33116	1563	520	15170648	15268072	1	None	None
11	INSC	ENSG00000188487	ENST00000530161	protein_coding	KNOWN	CCDS41622	33116	1599	532	15170654	15267622	1	None	None
11	INSC	ENSG00000188487	ENST00000525218	protein_coding	KNOWN	None	33116	1473	490	15170654	15267622	1	None	None
11	INSC	ENSG00000188487	ENST00000447214	processed_transcript	KNOWN	None	33116	None	None	15209734	15267622	1	None	None
11	INSC	ENSG00000188487	ENST00000526102	processed_transcript	KNOWN	None	33116	None	None	15256691	15267864	1	None	None
11	INSC	ENSG00000188487	ENST00000424273	protein_coding	KNOWN	None	33116	1473	490	15136484	15268752	1	None	None
16	None	ENSG00000271456	ENST00000604358	processed_pseudogene	KNOWN	None	None	None	None	57366291	57366511	-1	None	None
16	None	ENSG00000260345	ENST00000567090	processed_transcript	KNOWN	None	None	None	None	57494967	57496649	1	None	None
16	HMGB3P32	ENSG00000260828	ENST00000567416	processed_pseudogene	KNOWN	None	39335	None	None	57637049	57637609	1	None	None
6	None	ENSG00000257065	ENST00000545614	nonsense_mediated_decay	KNOWN	None	None	58	18	144128229	144165754	1	None	None
16	None	ENSG00000261633	ENST00000563251	antisense	KNOWN	None	None	None	None	57655946	57665559	-1	None	None
18	ANKRD62	ENSG00000181626	ENST00000586406	protein_coding	KNOWN	None	35241	1068	355	12093848	12109968	1	None	DKFZp779B1634
18	ANKRD62	ENSG00000181626	ENST00000587848	protein_coding	PUTATIVE	None	35241	1878	625	12097739	12127776	1	None	DKFZp779B1634
18	ANKRD62	ENSG00000181626	ENST00000418274	protein_coding	KNOWN	None	35241	1920	639	12102705	12129748	1	None	DKFZp779B1634
18	ANKRD62	ENSG00000181626	ENST00000314074	protein_coding	KNOWN	None	35241	2712	903	12094059	12129746	1	None	DKFZp779B1634
19	FBXL12	ENSG00000127452	ENST00000586651	protein_coding	PUTATIVE	None	13611	258	85	9920943	9929505	-1	None	FLJ20188, Fbl12
19	FBXL12	ENSG00000127452	ENST00000247977	protein_coding	KNOWN	CCDS12218	13611	981	326	9920943	9929731	-1	None	FLJ20188, Fbl12
19	FBXL12	ENSG00000127452	ENST00000589626	protein_coding	PUTATIVE	None	13611	168	55	9920943	9929755	-1	None	FLJ20188, Fbl12
19	FBXL12	ENSG00000127452	ENST00000588922	protein_coding	PUTATIVE	None	13611	144	47	9920947	9929752	-1	None	FLJ20188, Fbl12
19	FBXL12	ENSG00000127452	ENST00000585379	protein_coding	KNOWN	None	13611	822	273	9921537	9938492	-1	None	FLJ20188, Fbl12
19	FBXL12	ENSG00000127452	ENST00000591009	protein_coding	KNOWN	None	13611	822	273	9921572	9924089	-1	None	FLJ20188, Fbl12
19	FBXL12	ENSG00000127452	ENST00000592732	nonsense_mediated_decay	KNOWN	None	13611	125	40	9921802	9929461	-1	None	FLJ20188, Fbl12
19	FBXL12	ENSG00000127452	ENST00000589438	nonsense_mediated_decay	KNOWN	None	13611	258	85	9921832	9929489	-1	None	FLJ20188, Fbl12
19	FBXL12	ENSG00000127452	ENST00000592067	protein_coding	PUTATIVE	None	13611	168	55	9921958	9929755	-1	None	FLJ20188, Fbl12
19	FBXL12	ENSG00000127452	ENST00000590808	nonsense_mediated_decay	KNOWN	None	13611	162	53	9921984	9929492	-1	None	FLJ20188, Fbl12
19	FBXL12	ENSG00000127452	ENST00000590277	protein_coding	KNOWN	None	13611	264	87	9922130	9929751	-1	None	FLJ20188, Fbl12
19	FBXL12	ENSG00000127452	ENST00000586469	protein_coding	PUTATIVE	None	13611	210	69	9922226	9929779	-1	None	FLJ20188, Fbl12
19	FBXL12	ENSG00000127452	ENST00000586073	protein_coding	PUTATIVE	None	13611	405	134	9928830	9929521	-1	None	FLJ20188, Fbl12
16	None	ENSG00000260467	ENST00000563062	antisense	KNOWN	None	None	None	None	57715036	57735642	-1	None	None
1	AHDC1	ENSG00000126705	ENST00000247087	protein_coding	KNOWN	CCDS30652	25230	4812	1603	27860546	27930102	-1	None	DJ159A19.3, RP1-159A19.1
1	AHDC1	ENSG00000126705	ENST00000482400	processed_transcript	KNOWN	None	25230	None	None	27860787	27930361	-1	None	DJ159A19.3, RP1-159A19.1
1	AHDC1	ENSG00000126705	ENST00000487743	processed_transcript	KNOWN	None	25230	None	None	27878553	27879815	-1	None	DJ159A19.3, RP1-159A19.1
1	AHDC1	ENSG00000126705	ENST00000490295	processed_transcript	KNOWN	None	25230	None	None	27879238	27929925	-1	None	DJ159A19.3, RP1-159A19.1
1	AHDC1	ENSG00000126705	ENST00000480033	processed_transcript	KNOWN	None	25230	None	None	27885219	27930942	-1	None	DJ159A19.3, RP1-159A19.1
1	AHDC1	ENSG00000126705	ENST00000374011	protein_coding	KNOWN	CCDS30652	25230	4812	1603	27860814	27930143	-1	None	DJ159A19.3, RP1-159A19.1
10	RPL5P25	ENSG00000225251	ENST00000441148	processed_pseudogene	KNOWN	None	35493	None	None	13099902	13100676	-1	None	None
14	CCNB1IP1	ENSG00000100814	ENST00000398160	protein_coding	KNOWN	CCDS9547	19437	834	277	20779527	20801169	-1	C14orf18	HEI10
14	CCNB1IP1	ENSG00000100814	ENST00000398169	protein_coding	KNOWN	CCDS9547	19437	834	277	20779529	20797539	-1	C14orf18	HEI10
14	CCNB1IP1	ENSG00000100814	ENST00000358932	protein_coding	KNOWN	CCDS9547	19437	834	277	20779529	20801447	-1	C14orf18	HEI10
14	CCNB1IP1	ENSG00000100814	ENST00000398163	protein_coding	KNOWN	CCDS9547	19437	834	277	20779588	20797536	-1	C14orf18	HEI10
14	CCNB1IP1	ENSG00000100814	ENST00000554184	nonsense_mediated_decay	KNOWN	None	19437	94	30	20779842	20784424	-1	C14orf18	HEI10
14	CCNB1IP1	ENSG00000100814	ENST00000556854	nonsense_mediated_decay	KNOWN	None	19437	309	102	20779863	20801462	-1	C14orf18	HEI10
14	CCNB1IP1	ENSG00000100814	ENST00000557665	protein_coding	KNOWN	None	19437	462	153	20781796	20801441	-1	C14orf18	HEI10
14	CCNB1IP1	ENSG00000100814	ENST00000554047	nonsense_mediated_decay	KNOWN	None	19437	194	63	20782370	20784567	-1	C14orf18	HEI10
14	CCNB1IP1	ENSG00000100814	ENST00000556563	protein_coding	PUTATIVE	None	19437	203	66	20784573	20797533	-1	C14orf18	HEI10
14	CCNB1IP1	ENSG00000100814	ENST00000553291	protein_coding	KNOWN	None	19437	12	3	20784671	20797532	-1	C14orf18	HEI10
14	CCNB1IP1	ENSG00000100814	ENST00000553516	processed_transcript	KNOWN	None	19437	None	None	20785755	20797429	-1	C14orf18	HEI10
14	CCNB1IP1	ENSG00000100814	ENST00000555348	processed_transcript	KNOWN	None	19437	None	None	20787210	20801471	-1	C14orf18	HEI10
14	CCNB1IP1	ENSG00000100814	ENST00000557114	processed_transcript	KNOWN	None	19437	None	None	20793698	20799047	-1	C14orf18	HEI10
14	CCNB1IP1	ENSG00000100814	ENST00000555963	processed_transcript	PUTATIVE	None	19437	None	None	20793748	20801432	-1	C14orf18	HEI10
14	CCNB1IP1	ENSG00000100814	ENST00000353689	protein_coding	KNOWN	CCDS9547	19437	834	277	20779530	20801457	-1	C14orf18	HEI10
14	CCNB1IP1	ENSG00000100814	ENST00000437553	protein_coding	KNOWN	CCDS9547	19437	834	277	20779530	20797533	-1	C14orf18	HEI10
7	TAF6	ENSG00000106290	ENST00000421980	nonsense_mediated_decay	KNOWN	None	11540	345	114	99704693	99716982	-1	TAF2E	TAFII70, TAFII80, MGC:8964, TAFII85
7	TAF6	ENSG00000106290	ENST00000453269	protein_coding	KNOWN	CCDS5686	11540	2034	677	99704693	99717021	-1	TAF2E	TAFII70, TAFII80, MGC:8964, TAFII85
7	TAF6	ENSG00000106290	ENST00000472509	protein_coding	PUTATIVE	None	11540	2205	734	99704701	99712181	-1	TAF2E	TAFII70, TAFII80, MGC:8964, TAFII85
7	TAF6	ENSG00000106290	ENST00000452041	protein_coding	KNOWN	CCDS5686	11540	2034	677	99704701	99716987	-1	TAF2E	TAFII70, TAFII80, MGC:8964, TAFII85
7	TAF6	ENSG00000106290	ENST00000344095	protein_coding	KNOWN	CCDS5686	11540	2034	677	99704702	99716969	-1	TAF2E	TAFII70, TAFII80, MGC:8964, TAFII85
7	TAF6	ENSG00000106290	ENST00000437822	protein_coding	PUTATIVE	CCDS55135	11540	2145	714	99704791	99717464	-1	TAF2E	TAFII70, TAFII80, MGC:8964, TAFII85
7	TAF6	ENSG00000106290	ENST00000487115	retained_intron	KNOWN	None	11540	None	None	99707700	99708947	-1	TAF2E	TAFII70, TAFII80, MGC:8964, TAFII85
7	TAF6	ENSG00000106290	ENST00000487288	retained_intron	KNOWN	None	11540	None	None	99709422	99716599	-1	TAF2E	TAFII70, TAFII80, MGC:8964, TAFII85
7	TAF6	ENSG00000106290	ENST00000493322	protein_coding	KNOWN	None	11540	766	254	99709577	99716972	-1	TAF2E	TAFII70, TAFII80, MGC:8964, TAFII85
7	TAF6	ENSG00000106290	ENST00000440225	protein_coding	KNOWN	None	11540	698	231	99709588	99716940	-1	TAF2E	TAFII70, TAFII80, MGC:8964, TAFII85
7	TAF6	ENSG00000106290	ENST00000452438	protein_coding	NOVEL	None	11540	468	155	99710470	99716987	-1	TAF2E	TAFII70, TAFII80, MGC:8964, TAFII85
7	TAF6	ENSG00000106290	ENST00000523306	protein_coding	NOVEL	None	11540	424	140	99710972	99716962	-1	TAF2E	TAFII70, TAFII80, MGC:8964, TAFII85
7	TAF6	ENSG00000106290	ENST00000449571	protein_coding	KNOWN	None	11540	402	133	99711024	99717190	-1	TAF2E	TAFII70, TAFII80, MGC:8964, TAFII85
7	TAF6	ENSG00000106290	ENST00000520135	protein_coding	NOVEL	None	11540	341	112	99711265	99716972	-1	TAF2E	TAFII70, TAFII80, MGC:8964, TAFII85
7	TAF6	ENSG00000106290	ENST00000451699	protein_coding	KNOWN	None	11540	343	113	99711293	99716995	-1	TAF2E	TAFII70, TAFII80, MGC:8964, TAFII85
7	TAF6	ENSG00000106290	ENST00000417349	protein_coding	KNOWN	None	11540	229	75	99711505	99716971	-1	TAF2E	TAFII70, TAFII80, MGC:8964, TAFII85
7	TAF6	ENSG00000106290	ENST00000431404	protein_coding	KNOWN	None	11540	41	12	99711792	99716927	-1	TAF2E	TAFII70, TAFII80, MGC:8964, TAFII85
7	TAF6	ENSG00000106290	ENST00000460673	protein_coding	KNOWN	None	11540	28	8	99711805	99716979	-1	TAF2E	TAFII70, TAFII80, MGC:8964, TAFII85
7	TAF6	ENSG00000106290	ENST00000497233	processed_transcript	KNOWN	None	11540	None	None	99711852	99716989	-1	TAF2E	TAFII70, TAFII80, MGC:8964, TAFII85
7	TAF6	ENSG00000106290	ENST00000418432	protein_coding	KNOWN	None	11540	1806	601	99704702	99716979	-1	TAF2E	TAFII70, TAFII80, MGC:8964, TAFII85
HSCHR6_MHC_COX	None	ENSG00000265950	ENST00000580233	miRNA	NOVEL	None	None	None	None	28764545	28764608	-1	None	None
16	HBZP1	ENSG00000206178	ENST00000354915	unprocessed_pseudogene	KNOWN	None	4836	None	None	213121	215155	1	HBZP	None
16	None	ENSG00000260438	ENST00000562099	processed_pseudogene	KNOWN	None	None	None	None	57747694	57748869	1	None	None
HSCHR6_MHC_COX	None	ENSG00000237006	ENST00000445238	processed_transcript	PUTATIVE	None	None	None	None	28806290	28807427	-1	None	None
HSCHR6_MHC_QBL	DHX16	ENSG00000206486	ENST00000383576	protein_coding	KNOWN	None	2739	1683	560	30610400	30619295	-1	DDX16	DBP2, Prp2, PRPF2
HSCHR6_MHC_QBL	DHX16	ENSG00000206486	ENST00000383577	protein_coding	KNOWN	None	2739	3126	1041	30610400	30630349	-1	DDX16	DBP2, Prp2, PRPF2
HSCHR6_MHC_QBL	DHX16	ENSG00000206486	ENST00000485518	processed_transcript	KNOWN	None	2739	None	None	30616785	30617889	-1	DDX16	DBP2, Prp2, PRPF2
HSCHR6_MHC_QBL	DHX16	ENSG00000206486	ENST00000448766	protein_coding	KNOWN	None	2739	886	294	30622442	30630300	-1	DDX16	DBP2, Prp2, PRPF2
17	TBC1D29	ENSG00000266733	ENST00000580161	protein_coding	KNOWN	CCDS32606	24509	453	150	28884130	28890511	1	None	DKFZP434O047
17	TBC1D29	ENSG00000266733	ENST00000584297	protein_coding	PUTATIVE	None	24509	246	81	28886584	28890492	1	None	DKFZP434O047
17	TBC1D29	ENSG00000266733	ENST00000579181	protein_coding	KNOWN	CCDS32606	24509	453	150	28886584	28890493	1	None	DKFZP434O047
17	TBC1D29	ENSG00000266733	ENST00000582511	retained_intron	KNOWN	None	24509	None	None	28886584	28890493	1	None	DKFZP434O047
16	RNU6-20P	ENSG00000206833	ENST00000384106	snRNA	KNOWN	None	34264	None	None	57864440	57864546	-1	RNU6-20	None
6	ZFAND3	ENSG00000156639	ENST00000287218	protein_coding	KNOWN	CCDS4836	18019	684	227	37787275	38122400	1	TEX27	FLJ13222
6	ZFAND3	ENSG00000156639	ENST00000373391	protein_coding	NOVEL	None	18019	618	205	37787574	38122400	1	TEX27	FLJ13222
6	ZFAND3	ENSG00000156639	ENST00000474522	protein_coding	NOVEL	None	18019	559	185	37787718	38084452	1	TEX27	FLJ13222
6	ZFAND3	ENSG00000156639	ENST00000373389	protein_coding	PUTATIVE	None	18019	493	163	37897735	38110107	1	TEX27	FLJ13222
6	ZFAND3	ENSG00000156639	ENST00000469208	processed_transcript	KNOWN	None	18019	None	None	38029387	38030436	1	TEX27	FLJ13222
6	ZFAND3	ENSG00000156639	ENST00000440482	processed_transcript	KNOWN	None	18019	None	None	38056107	38120620	1	TEX27	FLJ13222
6	ZFAND3	ENSG00000156639	ENST00000463847	processed_transcript	KNOWN	None	18019	None	None	38110773	38120771	1	TEX27	FLJ13222
1	PRDM2	ENSG00000116731	ENST00000484063	protein_coding	NOVEL	None	9347	460	152	14026693	14075958	1	None	RIZ, RIZ1, RIZ2, KMT8, MTB-ZF, HUMHOXY1
1	PRDM2	ENSG00000116731	ENST00000376048	protein_coding	KNOWN	CCDS44061	9347	681	226	14026735	14151560	1	None	RIZ, RIZ1, RIZ2, KMT8, MTB-ZF, HUMHOXY1
1	PRDM2	ENSG00000116731	ENST00000235372	protein_coding	KNOWN	CCDS150	9347	5157	1718	14031350	14151574	1	None	RIZ, RIZ1, RIZ2, KMT8, MTB-ZF, HUMHOXY1
1	PRDM2	ENSG00000116731	ENST00000491134	nonsense_mediated_decay	KNOWN	None	9347	135	44	14057513	14113562	1	None	RIZ, RIZ1, RIZ2, KMT8, MTB-ZF, HUMHOXY1
1	PRDM2	ENSG00000116731	ENST00000502727	processed_transcript	KNOWN	None	9347	None	None	14065245	14099683	1	None	RIZ, RIZ1, RIZ2, KMT8, MTB-ZF, HUMHOXY1
1	PRDM2	ENSG00000116731	ENST00000502724	processed_transcript	KNOWN	None	9347	None	None	14065280	14099621	1	None	RIZ, RIZ1, RIZ2, KMT8, MTB-ZF, HUMHOXY1
1	PRDM2	ENSG00000116731	ENST00000413440	protein_coding	KNOWN	CCDS30603	9347	4446	1481	14075898	14114574	1	None	RIZ, RIZ1, RIZ2, KMT8, MTB-ZF, HUMHOXY1
1	PRDM2	ENSG00000116731	ENST00000343137	protein_coding	KNOWN	CCDS30603	9347	4446	1481	14075910	14114152	1	None	RIZ, RIZ1, RIZ2, KMT8, MTB-ZF, HUMHOXY1
1	PRDM2	ENSG00000116731	ENST00000491815	retained_intron	KNOWN	None	9347	None	None	14075919	14100166	1	None	RIZ, RIZ1, RIZ2, KMT8, MTB-ZF, HUMHOXY1
1	PRDM2	ENSG00000116731	ENST00000503842	protein_coding	PUTATIVE	None	9347	189	62	14075930	14149994	1	None	RIZ, RIZ1, RIZ2, KMT8, MTB-ZF, HUMHOXY1
1	PRDM2	ENSG00000116731	ENST00000407521	protein_coding	KNOWN	None	9347	234	77	14075931	14105127	1	None	RIZ, RIZ1, RIZ2, KMT8, MTB-ZF, HUMHOXY1
1	PRDM2	ENSG00000116731	ENST00000505823	protein_coding	PUTATIVE	None	9347	189	62	14075931	14149914	1	None	RIZ, RIZ1, RIZ2, KMT8, MTB-ZF, HUMHOXY1
1	PRDM2	ENSG00000116731	ENST00000487453	protein_coding	KNOWN	None	9347	65	20	14098221	14104958	1	None	RIZ, RIZ1, RIZ2, KMT8, MTB-ZF, HUMHOXY1
1	PRDM2	ENSG00000116731	ENST00000311066	protein_coding	KNOWN	CCDS151	9347	5049	1682	14031350	14114554	1	None	RIZ, RIZ1, RIZ2, KMT8, MTB-ZF, HUMHOXY1
7	ZNF800	ENSG00000048405	ENST00000485577	processed_transcript	KNOWN	None	27267	None	None	126986844	127013619	-1	None	None
7	ZNF800	ENSG00000048405	ENST00000393313	protein_coding	KNOWN	CCDS5795	27267	1995	664	127010097	127032745	-1	None	None
7	ZNF800	ENSG00000048405	ENST00000265827	protein_coding	KNOWN	CCDS5795	27267	1995	664	127010353	127032748	-1	None	None
7	ZNF800	ENSG00000048405	ENST00000393312	protein_coding	KNOWN	CCDS5795	27267	1995	664	127011654	127032420	-1	None	None
7	ZNF800	ENSG00000048405	ENST00000434602	protein_coding	KNOWN	None	27267	726	241	127014664	127032772	-1	None	None
7	ZNF800	ENSG00000048405	ENST00000436992	protein_coding	KNOWN	None	27267	390	129	127015000	127032172	-1	None	None
7	ZNF800	ENSG00000048405	ENST00000439506	protein_coding	KNOWN	None	27267	296	97	127017245	127071978	-1	None	None
3	DPPA2	ENSG00000163530	ENST00000478945	protein_coding	KNOWN	CCDS2956	19197	897	298	109012635	109035364	-1	None	PESCRG1, CT100
5	PCDHB11	ENSG00000197479	ENST00000354757	protein_coding	KNOWN	CCDS4253	8682	2394	797	140579348	140582618	1	None	PCDH-BETA11, ME2
5	PCDHB11	ENSG00000197479	ENST00000536699	protein_coding	KNOWN	None	8682	1299	432	140579183	140581852	1	None	PCDH-BETA11, ME2
5	UIMC1	ENSG00000087206	ENST00000377227	protein_coding	KNOWN	CCDS4408	30298	2160	719	176332006	176433409	-1	None	RAP80
5	UIMC1	ENSG00000087206	ENST00000506128	protein_coding	NOVEL	None	30298	1662	553	176332051	176433582	-1	None	RAP80
5	UIMC1	ENSG00000087206	ENST00000511320	protein_coding	KNOWN	CCDS4408	30298	2160	719	176332051	176433752	-1	None	RAP80
5	UIMC1	ENSG00000087206	ENST00000512031	nonsense_mediated_decay	KNOWN	None	30298	501	166	176332054	176433716	-1	None	RAP80
5	UIMC1	ENSG00000087206	ENST00000510698	nonsense_mediated_decay	KNOWN	None	30298	768	255	176332080	176433724	-1	None	RAP80
5	UIMC1	ENSG00000087206	ENST00000510376	retained_intron	KNOWN	None	30298	None	None	176332194	176333177	-1	None	RAP80
5	UIMC1	ENSG00000087206	ENST00000505229	retained_intron	KNOWN	None	30298	None	None	176332659	176334308	-1	None	RAP80
5	UIMC1	ENSG00000087206	ENST00000503273	processed_transcript	KNOWN	None	30298	None	None	176335634	176395890	-1	None	RAP80
5	UIMC1	ENSG00000087206	ENST00000509236	protein_coding	KNOWN	None	30298	472	156	176396284	176449603	-1	None	RAP80
5	UIMC1	ENSG00000087206	ENST00000417486	retained_intron	KNOWN	None	30298	None	None	176396942	176433366	-1	None	RAP80
5	UIMC1	ENSG00000087206	ENST00000515488	retained_intron	KNOWN	None	30298	None	None	176397691	176449634	-1	None	RAP80
5	UIMC1	ENSG00000087206	ENST00000507513	protein_coding	KNOWN	None	30298	267	88	176397833	176433715	-1	None	RAP80
5	UIMC1	ENSG00000087206	ENST00000505879	processed_transcript	KNOWN	None	30298	None	None	176402417	176407277	-1	None	RAP80
5	UIMC1	ENSG00000087206	ENST00000428382	protein_coding	KNOWN	None	30298	95	30	176409522	176433571	-1	None	RAP80
5	UIMC1	ENSG00000087206	ENST00000377219	protein_coding	KNOWN	None	30298	2163	720	176332009	176433443	-1	None	RAP80
9	LRRC37A5P	ENSG00000204173	ENST00000536054	processed_transcript	KNOWN	None	23369	None	None	114365111	114375833	-1	C9orf29	None
9	LRRC37A5P	ENSG00000204173	ENST00000374304	processed_transcript	KNOWN	None	23369	None	None	114365569	114393569	-1	C9orf29	None
9	LRRC37A5P	ENSG00000204173	ENST00000580181	transcribed_unprocessed_pseudogene	KNOWN	None	23369	None	None	114371294	114371878	-1	C9orf29	None
9	LRRC37A5P	ENSG00000204173	ENST00000374306	unprocessed_pseudogene	KNOWN	None	23369	None	None	114353872	114375311	-1	C9orf29	None
9	LRRC37A5P	ENSG00000204173	ENST00000374302	unprocessed_pseudogene	KNOWN	None	23369	None	None	114366105	114375833	-1	C9orf29	None
HSCHR6_MHC_COX	None	ENSG00000268719	ENST00000595434	protein_coding	KNOWN	None	None	831	276	29809936	29810766	-1	None	None
HSCHR6_MHC_COX	None	ENSG00000227966	ENST00000411921	processed_transcript	KNOWN	None	None	None	None	28828044	28831792	-1	None	None
3	MRPS22	ENSG00000175110	ENST00000495075	protein_coding	KNOWN	CCDS3107	14508	1083	360	138724648	139075888	1	None	MRP-S22, GK002, C3orf5, GIBT
3	MRPS22	ENSG00000175110	ENST00000495225	protein_coding	PUTATIVE	None	14508	155	50	138829246	139065792	1	None	MRP-S22, GK002, C3orf5, GIBT
3	MRPS22	ENSG00000175110	ENST00000489521	processed_transcript	KNOWN	None	14508	None	None	139000556	139062865	1	None	MRP-S22, GK002, C3orf5, GIBT
3	MRPS22	ENSG00000175110	ENST00000498505	nonsense_mediated_decay	KNOWN	None	14508	507	168	139062864	139076065	1	None	MRP-S22, GK002, C3orf5, GIBT
3	MRPS22	ENSG00000175110	ENST00000465056	protein_coding	NOVEL	None	14508	1080	359	139062869	139075875	1	None	MRP-S22, GK002, C3orf5, GIBT
3	MRPS22	ENSG00000175110	ENST00000480938	retained_intron	KNOWN	None	14508	None	None	139062869	139075893	1	None	MRP-S22, GK002, C3orf5, GIBT
3	MRPS22	ENSG00000175110	ENST00000465373	protein_coding	NOVEL	None	14508	600	199	139062881	139069101	1	None	MRP-S22, GK002, C3orf5, GIBT
3	MRPS22	ENSG00000175110	ENST00000466690	nonsense_mediated_decay	KNOWN	None	14508	496	164	139062883	139069904	1	None	MRP-S22, GK002, C3orf5, GIBT
3	MRPS22	ENSG00000175110	ENST00000486705	retained_intron	KNOWN	None	14508	None	None	139062958	139067349	1	None	MRP-S22, GK002, C3orf5, GIBT
3	MRPS22	ENSG00000175110	ENST00000478464	protein_coding	PUTATIVE	None	14508	960	319	139063407	139075856	1	None	MRP-S22, GK002, C3orf5, GIBT
3	MRPS22	ENSG00000175110	ENST00000483545	retained_intron	KNOWN	None	14508	None	None	139065808	139069998	1	None	MRP-S22, GK002, C3orf5, GIBT
3	MRPS22	ENSG00000175110	ENST00000480644	protein_coding	NOVEL	None	14508	363	120	139067124	139071634	1	None	MRP-S22, GK002, C3orf5, GIBT
3	MRPS22	ENSG00000175110	ENST00000492644	retained_intron	KNOWN	None	14508	None	None	139069712	139075888	1	None	MRP-S22, GK002, C3orf5, GIBT
3	MRPS22	ENSG00000175110	ENST00000310776	protein_coding	KNOWN	CCDS3107	14508	1083	360	139062861	139075885	1	None	MRP-S22, GK002, C3orf5, GIBT
5	CNOT6	ENSG00000113300	ENST00000510148	processed_transcript	PUTATIVE	None	14099	None	None	179921412	179922755	1	None	CCR4, KIAA1194
5	CNOT6	ENSG00000113300	ENST00000393356	protein_coding	KNOWN	CCDS4455	14099	1674	557	179921433	180005405	1	None	CCR4, KIAA1194
5	CNOT6	ENSG00000113300	ENST00000507016	processed_transcript	PUTATIVE	None	14099	None	None	179921447	179976995	1	None	CCR4, KIAA1194
5	CNOT6	ENSG00000113300	ENST00000502447	processed_transcript	KNOWN	None	14099	None	None	179921707	179991682	1	None	CCR4, KIAA1194
5	CNOT6	ENSG00000113300	ENST00000504343	protein_coding	NOVEL	None	14099	704	233	179956275	179994968	1	None	CCR4, KIAA1194
5	CNOT6	ENSG00000113300	ENST00000261951	protein_coding	KNOWN	CCDS4455	14099	1674	557	179921417	180005353	1	None	CCR4, KIAA1194
10	SNRPGP5	ENSG00000235763	ENST00000456003	processed_pseudogene	KNOWN	None	39324	None	None	13146574	13146793	-1	None	None
6	CAP2	ENSG00000112186	ENST00000229922	protein_coding	KNOWN	CCDS4539	20039	1434	477	17393447	17558023	1	None	None
6	CAP2	ENSG00000112186	ENST00000489374	protein_coding	NOVEL	None	20039	1098	365	17393864	17556890	1	None	None
6	CAP2	ENSG00000112186	ENST00000378990	protein_coding	NOVEL	None	20039	1356	451	17393876	17557026	1	None	None
6	CAP2	ENSG00000112186	ENST00000493172	protein_coding	NOVEL	None	20039	654	217	17393894	17556795	1	None	None
6	CAP2	ENSG00000112186	ENST00000479291	nonsense_mediated_decay	KNOWN	None	20039	585	194	17393943	17551801	1	None	None
6	CAP2	ENSG00000112186	ENST00000465994	protein_coding	NOVEL	None	20039	1242	413	17393943	17556799	1	None	None
6	CAP2	ENSG00000112186	ENST00000476263	nonsense_mediated_decay	KNOWN	None	20039	315	104	17393963	17539521	1	None	None
HSCHR6_MHC_COX	RPL13P	ENSG00000226714	ENST00000413822	processed_pseudogene	KNOWN	None	13978	None	None	28829830	28830461	1	None	BBC1p, dJ111M5.1
13	RGCC	ENSG00000102760	ENST00000379359	protein_coding	KNOWN	CCDS41880	20369	414	137	42031695	42045018	1	C13orf15	bA157L14.2, RGC-32, RGC32
13	RGCC	ENSG00000102760	ENST00000487837	processed_transcript	KNOWN	None	20369	None	None	42038251	42042980	1	C13orf15	bA157L14.2, RGC-32, RGC32
6	LTV1	ENSG00000135521	ENST00000367576	protein_coding	KNOWN	CCDS5201	21173	1428	475	144164481	144184949	1	C6orf93	FLJ14909, dJ468K18.4
10	None	ENSG00000234175	ENST00000442321	processed_pseudogene	KNOWN	None	None	None	None	13181196	13181533	-1	None	None
16	None	ENSG00000265209	ENST00000580935	miRNA	NOVEL	None	None	None	None	57908288	57908434	-1	None	None
2	MCM6	ENSG00000076003	ENST00000264156	protein_coding	KNOWN	CCDS2179	6949	2466	821	136597196	136633996	-1	None	Mis5
2	MCM6	ENSG00000076003	ENST00000492091	processed_transcript	KNOWN	None	6949	None	None	136602178	136622621	-1	None	Mis5
2	MCM6	ENSG00000076003	ENST00000483902	retained_intron	KNOWN	None	6949	None	None	136605726	136609515	-1	None	Mis5
7	ZNF853	ENSG00000236609	ENST00000457543	protein_coding	KNOWN	CCDS59048	21767	1980	659	6655248	6663921	1	None	DKFZp434J1015
16	None	ENSG00000207173	ENST00000384444	misc_RNA	NOVEL	None	None	None	None	58116972	58117072	-1	None	None
3	SHQ1	ENSG00000144736	ENST00000468371	processed_transcript	KNOWN	None	25543	None	None	72798428	72844741	-1	None	FLJ10539, Shq1p
3	SHQ1	ENSG00000144736	ENST00000444040	nonsense_mediated_decay	KNOWN	None	25543	153	50	72798430	72897566	-1	None	FLJ10539, Shq1p
3	SHQ1	ENSG00000144736	ENST00000325599	protein_coding	KNOWN	CCDS33788	25543	1734	577	72798430	72897631	-1	None	FLJ10539, Shq1p
3	SHQ1	ENSG00000144736	ENST00000463369	protein_coding	PUTATIVE	None	25543	1650	549	72799110	72895514	-1	None	FLJ10539, Shq1p
3	SHQ1	ENSG00000144736	ENST00000475558	processed_transcript	KNOWN	None	25543	None	None	72858771	72866535	-1	None	FLJ10539, Shq1p
3	SHQ1	ENSG00000144736	ENST00000468347	processed_transcript	KNOWN	None	25543	None	None	72863648	72866401	-1	None	FLJ10539, Shq1p
3	SHQ1	ENSG00000144736	ENST00000482785	protein_coding	PUTATIVE	None	25543	332	109	72881520	72911065	-1	None	FLJ10539, Shq1p
3	SHQ1	ENSG00000144736	ENST00000471526	nonsense_mediated_decay	KNOWN	None	25543	192	63	72890196	72897623	-1	None	FLJ10539, Shq1p
HSCHR6_MHC_COX	ZNF90P2	ENSG00000235184	ENST00000414910	processed_pseudogene	KNOWN	None	21687	None	None	28857440	28858514	-1	ZNF463P	dJ111M5.3
16	None	ENSG00000261151	ENST00000570133	processed_pseudogene	KNOWN	None	None	None	None	58125957	58126851	-1	None	None
16	None	ENSG00000260545	ENST00000564672	antisense	KNOWN	None	None	None	None	58150789	58153257	1	None	None
6	TUBB	ENSG00000196230	ENST00000327892	protein_coding	KNOWN	CCDS4687	20778	1335	444	30687978	30693203	1	None	OK/SW-cl.56, MGC16435, M40, Tubb5
6	TUBB	ENSG00000196230	ENST00000330914	protein_coding	KNOWN	None	20778	1119	372	30689351	30693203	1	None	OK/SW-cl.56, MGC16435, M40, Tubb5
6	TUBB	ENSG00000196230	ENST00000396389	protein_coding	KNOWN	None	20778	1281	426	30689444	30693203	1	None	OK/SW-cl.56, MGC16435, M40, Tubb5
6	TUBB	ENSG00000196230	ENST00000396384	protein_coding	KNOWN	None	20778	1119	372	30689476	30693203	1	None	OK/SW-cl.56, MGC16435, M40, Tubb5
6	TUBB	ENSG00000196230	ENST00000435534	protein_coding	KNOWN	None	20778	732	243	30688134	30692174	1	None	OK/SW-cl.56, MGC16435, M40, Tubb5
14	G2E3	ENSG00000092140	ENST00000206595	protein_coding	KNOWN	CCDS9638	20338	2121	706	31028329	31089269	1	KIAA1333	FLJ20333, PHF7B
14	G2E3	ENSG00000092140	ENST00000550944	protein_coding	KNOWN	None	20338	362	119	31028364	31061653	1	KIAA1333	FLJ20333, PHF7B
14	G2E3	ENSG00000092140	ENST00000547209	nonsense_mediated_decay	KNOWN	None	20338	171	56	31028364	31074766	1	KIAA1333	FLJ20333, PHF7B
14	G2E3	ENSG00000092140	ENST00000544007	processed_transcript	KNOWN	None	20338	None	None	31028364	31077125	1	KIAA1333	FLJ20333, PHF7B
14	G2E3	ENSG00000092140	ENST00000438909	protein_coding	PUTATIVE	None	20338	1983	660	31028364	31085875	1	KIAA1333	FLJ20333, PHF7B
14	G2E3	ENSG00000092140	ENST00000552488	processed_transcript	KNOWN	None	20338	None	None	31028366	31060169	1	KIAA1333	FLJ20333, PHF7B
14	G2E3	ENSG00000092140	ENST00000553504	protein_coding	PUTATIVE	None	20338	2211	736	31028516	31085878	1	KIAA1333	FLJ20333, PHF7B
14	G2E3	ENSG00000092140	ENST00000554714	protein_coding	KNOWN	None	20338	393	130	31043741	31062710	1	KIAA1333	FLJ20333, PHF7B
14	G2E3	ENSG00000092140	ENST00000547532	protein_coding	KNOWN	None	20338	528	175	31046962	31062845	1	KIAA1333	FLJ20333, PHF7B
14	G2E3	ENSG00000092140	ENST00000555429	protein_coding	KNOWN	None	20338	237	78	31046967	31058690	1	KIAA1333	FLJ20333, PHF7B
14	G2E3	ENSG00000092140	ENST00000549553	processed_transcript	KNOWN	None	20338	None	None	31061529	31067494	1	KIAA1333	FLJ20333, PHF7B
14	G2E3	ENSG00000092140	ENST00000552515	protein_coding	NOVEL	None	20338	367	121	31062798	31074771	1	KIAA1333	FLJ20333, PHF7B
14	G2E3	ENSG00000092140	ENST00000548934	nonsense_mediated_decay	KNOWN	None	20338	304	100	31067764	31084721	1	KIAA1333	FLJ20333, PHF7B
14	G2E3	ENSG00000092140	ENST00000547638	processed_transcript	PUTATIVE	None	20338	None	None	31071953	31077208	1	KIAA1333	FLJ20333, PHF7B
14	G2E3	ENSG00000092140	ENST00000549159	retained_intron	KNOWN	None	20338	None	None	31080508	31087438	1	KIAA1333	FLJ20333, PHF7B
4	None	ENSG00000269908	ENST00000602577	lincRNA	KNOWN	None	None	None	None	6241168	6241664	1	None	None
20	NTSR1	ENSG00000101188	ENST00000370501	protein_coding	KNOWN	CCDS13502	8039	1257	418	61340189	61394123	1	None	NTR
20	NTSR1	ENSG00000101188	ENST00000482259	processed_transcript	KNOWN	None	8039	None	None	61387983	61394123	1	None	NTR
17	GJC1	ENSG00000182963	ENST00000587113	protein_coding	PUTATIVE	None	4280	783	260	42875816	42882777	-1	GJA7	CX45
17	GJC1	ENSG00000182963	ENST00000330514	protein_coding	KNOWN	CCDS11487	4280	1191	396	42880402	42885252	-1	GJA7	CX45
17	GJC1	ENSG00000182963	ENST00000586347	protein_coding	PUTATIVE	None	4280	340	112	42881317	42882334	-1	GJA7	CX45
17	GJC1	ENSG00000182963	ENST00000590758	protein_coding	KNOWN	CCDS11487	4280	1191	396	42881585	42908181	-1	GJA7	CX45
17	GJC1	ENSG00000182963	ENST00000592524	protein_coding	KNOWN	CCDS11487	4280	1191	396	42881615	42907599	-1	GJA7	CX45
17	GJC1	ENSG00000182963	ENST00000591424	protein_coding	KNOWN	None	4280	311	102	42882875	42908184	-1	GJA7	CX45
17	GJC1	ENSG00000182963	ENST00000587239	protein_coding	KNOWN	None	4280	218	71	42882968	42890673	-1	GJA7	CX45
17	GJC1	ENSG00000182963	ENST00000586267	protein_coding	KNOWN	None	4280	210	69	42882976	42907062	-1	GJA7	CX45
17	GJC1	ENSG00000182963	ENST00000426548	protein_coding	KNOWN	CCDS11487	4280	1191	396	42875816	42908179	-1	GJA7	CX45
5	PCDHB12	ENSG00000120328	ENST00000239450	protein_coding	KNOWN	CCDS4254	8683	2388	795	140588291	140591696	1	None	PCDH-BETA12
5	PCDHB12	ENSG00000120328	ENST00000541609	protein_coding	KNOWN	None	8683	1377	458	140588269	140591109	1	None	PCDH-BETA12
4	None	ENSG00000251580	ENST00000515205	lincRNA	KNOWN	None	None	None	None	6672452	6675557	-1	None	None
4	None	ENSG00000251580	ENST00000513179	lincRNA	KNOWN	None	None	None	None	6672455	6675550	-1	None	None
15	ETFA	ENSG00000140374	ENST00000557943	protein_coding	KNOWN	CCDS32299	3481	1002	333	76507696	76603810	-1	None	GA2, EMA, MADD
15	ETFA	ENSG00000140374	ENST00000433983	protein_coding	KNOWN	CCDS45311	3481	855	284	76508425	76603745	-1	None	GA2, EMA, MADD
15	ETFA	ENSG00000140374	ENST00000557975	retained_intron	KNOWN	None	3481	None	None	76508471	76520590	-1	None	GA2, EMA, MADD
15	ETFA	ENSG00000140374	ENST00000267950	nonsense_mediated_decay	KNOWN	None	3481	195	64	76508591	76603789	-1	None	GA2, EMA, MADD
15	ETFA	ENSG00000140374	ENST00000565910	nonsense_mediated_decay	KNOWN	None	3481	141	46	76508662	76523739	-1	None	GA2, EMA, MADD
15	ETFA	ENSG00000140374	ENST00000560179	retained_intron	KNOWN	None	3481	None	None	76508776	76518676	-1	None	GA2, EMA, MADD
15	ETFA	ENSG00000140374	ENST00000560726	protein_coding	PUTATIVE	None	3481	222	73	76508809	76603807	-1	None	GA2, EMA, MADD
15	ETFA	ENSG00000140374	ENST00000559602	protein_coding	PUTATIVE	None	3481	690	229	76508824	76603755	-1	None	GA2, EMA, MADD
15	ETFA	ENSG00000140374	ENST00000559973	protein_coding	PUTATIVE	None	3481	763	253	76508900	76584832	-1	None	GA2, EMA, MADD
15	ETFA	ENSG00000140374	ENST00000560595	protein_coding	PUTATIVE	None	3481	909	302	76508924	76603737	-1	None	GA2, EMA, MADD
15	ETFA	ENSG00000140374	ENST00000560899	nonsense_mediated_decay	KNOWN	None	3481	120	39	76518246	76603755	-1	None	GA2, EMA, MADD
15	ETFA	ENSG00000140374	ENST00000559075	retained_intron	KNOWN	None	3481	None	None	76522845	76603753	-1	None	GA2, EMA, MADD
15	ETFA	ENSG00000140374	ENST00000560044	nonsense_mediated_decay	KNOWN	None	3481	138	45	76523719	76603813	-1	None	GA2, EMA, MADD
15	ETFA	ENSG00000140374	ENST00000560816	processed_transcript	PUTATIVE	None	3481	None	None	76537553	76578832	-1	None	GA2, EMA, MADD
15	ETFA	ENSG00000140374	ENST00000558803	retained_intron	KNOWN	None	3481	None	None	76566474	76576182	-1	None	GA2, EMA, MADD
15	ETFA	ENSG00000140374	ENST00000559758	retained_intron	KNOWN	None	3481	None	None	76566517	76584963	-1	None	GA2, EMA, MADD
15	ETFA	ENSG00000140374	ENST00000560345	protein_coding	PUTATIVE	None	3481	717	238	76566760	76585039	-1	None	GA2, EMA, MADD
15	ETFA	ENSG00000140374	ENST00000559386	protein_coding	PUTATIVE	None	3481	868	288	76566824	76603754	-1	None	GA2, EMA, MADD
15	ETFA	ENSG00000140374	ENST00000560309	nonsense_mediated_decay	KNOWN	None	3481	138	45	76578747	76603784	-1	None	GA2, EMA, MADD
15	ETFA	ENSG00000140374	ENST00000561092	retained_intron	KNOWN	None	3481	None	None	76580109	76603743	-1	None	GA2, EMA, MADD
9	ANAPC2	ENSG00000176248	ENST00000487917	processed_transcript	KNOWN	None	19989	None	None	140069236	140071524	-1	None	APC2, KIAA1406
9	ANAPC2	ENSG00000176248	ENST00000323927	protein_coding	KNOWN	CCDS7033	19989	2469	822	140069236	140082989	-1	None	APC2, KIAA1406
9	ANAPC2	ENSG00000176248	ENST00000493730	processed_transcript	KNOWN	None	19989	None	None	140069726	140070561	-1	None	APC2, KIAA1406
9	ANAPC2	ENSG00000176248	ENST00000483432	processed_transcript	KNOWN	None	19989	None	None	140069727	140074929	-1	None	APC2, KIAA1406
9	ANAPC2	ENSG00000176248	ENST00000485970	processed_transcript	KNOWN	None	19989	None	None	140069784	140070524	-1	None	APC2, KIAA1406
9	ANAPC2	ENSG00000176248	ENST00000471131	processed_transcript	KNOWN	None	19989	None	None	140076134	140078066	-1	None	APC2, KIAA1406
9	ANAPC2	ENSG00000176248	ENST00000495611	processed_transcript	KNOWN	None	19989	None	None	140076267	140080961	-1	None	APC2, KIAA1406
10	None	ENSG00000228330	ENST00000442900	processed_pseudogene	KNOWN	None	None	None	None	13184185	13184977	-1	None	None
HSCHR6_MHC_COX	HCG14	ENSG00000230004	ENST00000444715	processed_transcript	KNOWN	None	18323	None	None	28865131	28865921	1	None	dJ111M5.4
22	None	ENSG00000215464	ENST00000396982	processed_pseudogene	KNOWN	None	None	None	None	24665314	24666102	-1	None	None
6	PGK2	ENSG00000170950	ENST00000304801	protein_coding	KNOWN	CCDS4930	8898	1254	417	49753366	49755053	-1	None	PGKPS, PGK-2
19	AP2S1	ENSG00000042753	ENST00000352203	protein_coding	NOVEL	None	565	471	156	47341393	47354034	-1	CLAPS2	None
19	AP2S1	ENSG00000042753	ENST00000601498	protein_coding	PUTATIVE	None	565	477	158	47341415	47353573	-1	CLAPS2	None
19	AP2S1	ENSG00000042753	ENST00000599990	protein_coding	PUTATIVE	None	565	435	144	47341415	47354026	-1	CLAPS2	None
19	AP2S1	ENSG00000042753	ENST00000593442	protein_coding	NOVEL	None	565	279	92	47341415	47354091	-1	CLAPS2	None
19	AP2S1	ENSG00000042753	ENST00000263270	protein_coding	KNOWN	CCDS33062	565	429	142	47341424	47354249	-1	CLAPS2	None
19	AP2S1	ENSG00000042753	ENST00000600964	retained_intron	KNOWN	None	565	None	None	47341429	47342077	-1	CLAPS2	None
19	AP2S1	ENSG00000042753	ENST00000597020	protein_coding	PUTATIVE	None	565	369	122	47341429	47349405	-1	CLAPS2	None
19	AP2S1	ENSG00000042753	ENST00000598027	retained_intron	KNOWN	None	565	None	None	47341703	47342913	-1	CLAPS2	None
19	AP2S1	ENSG00000042753	ENST00000601649	protein_coding	KNOWN	CCDS12693	565	315	104	47341704	47354023	-1	CLAPS2	None
19	AP2S1	ENSG00000042753	ENST00000597421	retained_intron	KNOWN	None	565	None	None	47348908	47354082	-1	CLAPS2	None
10	BTBD7P1	ENSG00000203414	ENST00000447253	processed_pseudogene	KNOWN	None	44875	None	None	13198684	13200136	-1	None	None
HSCHR6_MHC_COX	RNU6-1173P	ENSG00000263937	ENST00000584076	snRNA	KNOWN	None	48136	None	None	28884244	28884343	1	None	None
Y	RBMY1J	ENSG00000226941	ENST00000470460	processed_transcript	KNOWN	None	23917	None	None	24549608	24564028	1	None	None
Y	RBMY1J	ENSG00000226941	ENST00000250831	protein_coding	KNOWN	CCDS35484	23917	1491	496	24549617	24564028	1	None	None
Y	RBMY1J	ENSG00000226941	ENST00000414629	protein_coding	KNOWN	CCDS35484	23917	1491	496	24454970	24564028	1	None	None
Y	RBMY1J	ENSG00000226941	ENST00000445779	protein_coding	KNOWN	None	23917	1380	459	24454970	24564028	1	None	None
12	HOXC9	ENSG00000180806	ENST00000504557	processed_transcript	KNOWN	None	5130	None	None	54388679	54396672	1	HOX3, HOX3B	None
12	HOXC9	ENSG00000180806	ENST00000508190	protein_coding	KNOWN	CCDS8869	5130	783	260	54389293	54397082	1	HOX3, HOX3B	None
12	HOXC9	ENSG00000180806	ENST00000303450	protein_coding	KNOWN	CCDS8869	5130	783	260	54393903	54397121	1	HOX3, HOX3B	None
5	PCDHB13	ENSG00000187372	ENST00000341948	protein_coding	KNOWN	CCDS4255	8684	2397	798	140593509	140596993	1	None	PCDH-BETA13
4	None	ENSG00000248926	ENST00000503825	processed_pseudogene	KNOWN	None	None	None	None	78879154	78879934	-1	None	None
8	DEFB130	ENSG00000232948	ENST00000400079	protein_coding	KNOWN	CCDS43714	18107	240	79	12168471	12175825	-1	None	DEFB-30
4	HMGB1P44	ENSG00000248956	ENST00000508597	processed_pseudogene	KNOWN	None	39275	None	None	78885094	78885665	1	None	None
4	HNRNPA1P56	ENSG00000248640	ENST00000505767	processed_pseudogene	KNOWN	None	48786	None	None	78909014	78909967	-1	None	None
4	None	ENSG00000248128	ENST00000512633	processed_pseudogene	KNOWN	None	None	None	None	78924297	78924593	1	None	None
6	RPL17P25	ENSG00000219547	ENST00000404330	processed_pseudogene	KNOWN	None	36844	None	None	81083732	81084286	-1	None	None
20	SIRPG	ENSG00000089012	ENST00000478145	processed_transcript	KNOWN	None	15757	None	None	1609798	1611482	-1	SIRPB2	bA77C3.1, SIRP-B2, SIRPgamma, CD172g
20	SIRPG	ENSG00000089012	ENST00000381580	protein_coding	KNOWN	None	15757	1065	354	1609798	1632023	-1	SIRPB2	bA77C3.1, SIRP-B2, SIRPgamma, CD172g
20	SIRPG	ENSG00000089012	ENST00000344103	protein_coding	KNOWN	CCDS13021	15757	513	170	1609798	1638402	-1	SIRPB2	bA77C3.1, SIRP-B2, SIRPgamma, CD172g
20	SIRPG	ENSG00000089012	ENST00000303415	protein_coding	KNOWN	CCDS13020	15757	1164	387	1609798	1638425	-1	SIRPB2	bA77C3.1, SIRP-B2, SIRPgamma, CD172g
20	SIRPG	ENSG00000089012	ENST00000497407	processed_transcript	KNOWN	None	15757	None	None	1610173	1611289	-1	SIRPB2	bA77C3.1, SIRP-B2, SIRPgamma, CD172g
20	SIRPG	ENSG00000089012	ENST00000216927	protein_coding	KNOWN	CCDS33434	15757	831	276	1610870	1638360	-1	SIRPB2	bA77C3.1, SIRP-B2, SIRPgamma, CD172g
20	SIRPG	ENSG00000089012	ENST00000381583	protein_coding	KNOWN	CCDS33434	15757	831	276	1609798	1638425	-1	SIRPB2	bA77C3.1, SIRP-B2, SIRPgamma, CD172g
4	None	ENSG00000249072	ENST00000510231	processed_pseudogene	KNOWN	None	None	None	None	78929666	78929842	-1	None	None
1	FGR	ENSG00000000938	ENST00000374005	protein_coding	KNOWN	CCDS305	3697	1590	529	27938575	27961788	-1	SRC2	c-fgr, p55c-fgr
1	FGR	ENSG00000000938	ENST00000374004	protein_coding	KNOWN	CCDS305	3697	1590	529	27938811	27950573	-1	SRC2	c-fgr, p55c-fgr
1	FGR	ENSG00000000938	ENST00000374003	protein_coding	KNOWN	CCDS305	3697	1590	529	27939180	27953080	-1	SRC2	c-fgr, p55c-fgr
1	FGR	ENSG00000000938	ENST00000457296	protein_coding	KNOWN	None	3697	938	311	27942025	27952646	-1	SRC2	c-fgr, p55c-fgr
1	FGR	ENSG00000000938	ENST00000475472	processed_transcript	KNOWN	None	3697	None	None	27949895	27961645	-1	SRC2	c-fgr, p55c-fgr
1	FGR	ENSG00000000938	ENST00000468038	processed_transcript	KNOWN	None	3697	None	None	27949918	27952751	-1	SRC2	c-fgr, p55c-fgr
1	FGR	ENSG00000000938	ENST00000545953	protein_coding	KNOWN	None	3697	1392	463	27938803	27961727	-1	SRC2	c-fgr, p55c-fgr
1	FGR	ENSG00000000938	ENST00000399173	protein_coding	KNOWN	CCDS305	3697	1590	529	27938803	27952751	-1	SRC2	c-fgr, p55c-fgr
19	LDLR	ENSG00000130164	ENST00000558518	protein_coding	KNOWN	CCDS12254	6547	2583	860	11200038	11242839	1	None	LDLCQ2
19	LDLR	ENSG00000130164	ENST00000557933	protein_coding	NOVEL	None	6547	2847	948	11200138	11242201	1	None	LDLCQ2
19	LDLR	ENSG00000130164	ENST00000560502	retained_intron	KNOWN	None	6547	None	None	11200139	11211254	1	None	LDLCQ2
19	LDLR	ENSG00000130164	ENST00000557958	retained_intron	KNOWN	None	6547	None	None	11200139	11214944	1	None	LDLCQ2
19	LDLR	ENSG00000130164	ENST00000455727	protein_coding	KNOWN	CCDS56084	6547	2079	692	11200139	11242160	1	None	LDLCQ2
19	LDLR	ENSG00000130164	ENST00000535915	protein_coding	KNOWN	CCDS56085	6547	2460	819	11200139	11242214	1	None	LDLCQ2
19	LDLR	ENSG00000130164	ENST00000545707	protein_coding	KNOWN	CCDS56083	6547	2049	682	11200139	11242286	1	None	LDLCQ2
19	LDLR	ENSG00000130164	ENST00000558013	protein_coding	KNOWN	CCDS58651	6547	2577	858	11200154	11242488	1	None	LDLCQ2
19	LDLR	ENSG00000130164	ENST00000252444	protein_coding	PUTATIVE	None	6547	2837	944	11201275	11244492	1	None	LDLCQ2
19	LDLR	ENSG00000130164	ENST00000560467	protein_coding	NOVEL	None	6547	928	308	11215983	11224300	1	None	LDLCQ2
19	LDLR	ENSG00000130164	ENST00000558528	retained_intron	KNOWN	None	6547	None	None	11217032	11218191	1	None	LDLCQ2
19	LDLR	ENSG00000130164	ENST00000560173	retained_intron	KNOWN	None	6547	None	None	11221389	11224157	1	None	LDLCQ2
19	LDLR	ENSG00000130164	ENST00000559340	nonsense_mediated_decay	KNOWN	None	6547	512	169	11224047	11231082	1	None	LDLCQ2
19	LDLR	ENSG00000130164	ENST00000560628	processed_transcript	PUTATIVE	None	6547	None	None	11238223	11244197	1	None	LDLCQ2
4	SERBP1P5	ENSG00000249565	ENST00000510079	processed_pseudogene	KNOWN	None	44632	None	None	79102020	79103200	-1	None	None
20	MRGBP	ENSG00000101189	ENST00000370487	protein_coding	KNOWN	CCDS13503	15866	615	204	61427805	61431945	1	C20orf20	FLJ10914, MRG15BP, Eaf7
4	None	ENSG00000221183	ENST00000408256	miRNA	NOVEL	None	None	None	None	79109490	79109577	1	None	None
4	MINOS1P4	ENSG00000248117	ENST00000515470	processed_pseudogene	KNOWN	None	44094	None	None	79300351	79300668	1	None	None
3	KIAA2018	ENSG00000176542	ENST00000491165	protein_coding	PUTATIVE	None	30494	267	88	113367232	113415493	-1	None	None
3	KIAA2018	ENSG00000176542	ENST00000496826	retained_intron	KNOWN	None	30494	None	None	113372086	113389080	-1	None	None
3	KIAA2018	ENSG00000176542	ENST00000478658	protein_coding	KNOWN	CCDS43133	30494	6738	2245	113372086	113393743	-1	None	None
3	KIAA2018	ENSG00000176542	ENST00000316407	protein_coding	KNOWN	CCDS43133	30494	6738	2245	113367232	113415493	-1	None	None
3	ASB14	ENSG00000239388	ENST00000487349	protein_coding	PUTATIVE	CCDS46856	19766	1764	587	57302375	57326710	-1	None	DKFZp313L0121
3	ASB14	ENSG00000239388	ENST00000515033	retained_intron	KNOWN	None	19766	None	None	57310578	57312980	-1	None	DKFZp313L0121
3	ASB14	ENSG00000239388	ENST00000389601	protein_coding	KNOWN	None	19766	1764	587	57302379	57326710	-1	None	DKFZp313L0121
10	HPS6	ENSG00000166189	ENST00000299238	protein_coding	KNOWN	CCDS7527	18817	2328	775	103825147	103827792	1	None	FLJ22501
4	None	ENSG00000200998	ENST00000364128	misc_RNA	NOVEL	None	None	None	None	79553427	79553539	-1	None	None
4	None	ENSG00000238816	ENST00000459422	snoRNA	NOVEL	None	None	None	None	79561254	79561356	1	None	None
9	IFT74	ENSG00000096872	ENST00000519968	protein_coding	KNOWN	None	21424	525	174	26947037	26988726	1	CCDC2	CMG1, CMG-1, FLJ22621
9	IFT74	ENSG00000096872	ENST00000517444	protein_coding	KNOWN	None	21424	380	125	26947298	26984329	1	CCDC2	CMG1, CMG-1, FLJ22621
9	IFT74	ENSG00000096872	ENST00000380062	protein_coding	KNOWN	CCDS43793	21424	1803	600	26956371	27062928	1	CCDC2	CMG1, CMG-1, FLJ22621
9	IFT74	ENSG00000096872	ENST00000518614	protein_coding	NOVEL	None	21424	439	145	26956410	26984274	1	CCDC2	CMG1, CMG-1, FLJ22621
9	IFT74	ENSG00000096872	ENST00000429045	protein_coding	KNOWN	CCDS47955	21424	1119	372	26956477	27036798	1	CCDC2	CMG1, CMG-1, FLJ22621
9	IFT74	ENSG00000096872	ENST00000517866	protein_coding	PUTATIVE	None	21424	442	146	26976565	26990162	1	CCDC2	CMG1, CMG-1, FLJ22621
9	IFT74	ENSG00000096872	ENST00000494236	retained_intron	KNOWN	None	21424	None	None	26983830	26988695	1	CCDC2	CMG1, CMG-1, FLJ22621
9	IFT74	ENSG00000096872	ENST00000482986	retained_intron	KNOWN	None	21424	None	None	27028806	27048270	1	CCDC2	CMG1, CMG-1, FLJ22621
9	IFT74	ENSG00000096872	ENST00000433700	protein_coding	KNOWN	CCDS43793	21424	1803	600	26947037	27062923	1	CCDC2	CMG1, CMG-1, FLJ22621
9	IFT74	ENSG00000096872	ENST00000443698	protein_coding	KNOWN	CCDS43793	21424	1803	600	26947310	27062923	1	CCDC2	CMG1, CMG-1, FLJ22621
16	None	ENSG00000225323	ENST00000438841	unprocessed_pseudogene	KNOWN	None	None	None	None	218678	219333	1	None	None
16	None	ENSG00000260927	ENST00000569580	antisense	KNOWN	None	None	None	None	58163433	58193037	1	None	None
6	CRISP1	ENSG00000124812	ENST00000507853	protein_coding	KNOWN	CCDS4932	304	537	178	49801970	49834212	-1	AEGL1	CRISP-1, ARP, HUMARP, HSCRISP1D, HSCRISP1G
6	CRISP1	ENSG00000124812	ENST00000335847	protein_coding	KNOWN	CCDS4931	304	750	249	49801970	49834241	-1	AEGL1	CRISP-1, ARP, HUMARP, HSCRISP1D, HSCRISP1G
6	CRISP1	ENSG00000124812	ENST00000505118	protein_coding	KNOWN	CCDS4931	304	750	249	49802573	49844809	-1	AEGL1	CRISP-1, ARP, HUMARP, HSCRISP1D, HSCRISP1G
6	CRISP1	ENSG00000124812	ENST00000355791	protein_coding	KNOWN	CCDS4931	304	750	249	49801984	49825116	-1	AEGL1	CRISP-1, ARP, HUMARP, HSCRISP1D, HSCRISP1G
6	CRISP1	ENSG00000124812	ENST00000329411	protein_coding	KNOWN	CCDS4932	304	537	178	49801984	49825116	-1	AEGL1	CRISP-1, ARP, HUMARP, HSCRISP1D, HSCRISP1G
6	CRISP1	ENSG00000124812	ENST00000536021	protein_coding	KNOWN	CCDS4932	304	537	178	49802576	49844809	-1	AEGL1	CRISP-1, ARP, HUMARP, HSCRISP1D, HSCRISP1G
16	None	ENSG00000260867	ENST00000561923	antisense	KNOWN	None	None	None	None	58231016	58251709	1	None	None
11	OR51I1	ENSG00000167359	ENST00000380211	protein_coding	KNOWN	CCDS31382	15200	945	314	5461800	5462744	-1	None	None
7	TAX1BP1	ENSG00000106052	ENST00000418691	protein_coding	KNOWN	None	11575	414	137	27778950	27805601	1	None	TXBP151, CALCOCO3
7	TAX1BP1	ENSG00000106052	ENST00000422800	protein_coding	KNOWN	None	11575	296	97	27779221	27805483	1	None	TXBP151, CALCOCO3
7	TAX1BP1	ENSG00000106052	ENST00000265393	protein_coding	KNOWN	CCDS43561	11575	2244	747	27779714	27868500	1	None	TXBP151, CALCOCO3
7	TAX1BP1	ENSG00000106052	ENST00000409980	protein_coding	NOVEL	None	11575	2442	813	27779761	27868500	1	None	TXBP151, CALCOCO3
7	TAX1BP1	ENSG00000106052	ENST00000416801	nonsense_mediated_decay	KNOWN	None	11575	276	91	27779766	27868483	1	None	TXBP151, CALCOCO3
7	TAX1BP1	ENSG00000106052	ENST00000490455	retained_intron	KNOWN	None	11575	None	None	27779788	27797970	1	None	TXBP151, CALCOCO3
7	TAX1BP1	ENSG00000106052	ENST00000396319	protein_coding	KNOWN	CCDS5415	11575	2370	789	27779808	27868880	1	None	TXBP151, CALCOCO3
7	TAX1BP1	ENSG00000106052	ENST00000494033	processed_transcript	PUTATIVE	None	11575	None	None	27809297	27812158	1	None	TXBP151, CALCOCO3
7	TAX1BP1	ENSG00000106052	ENST00000457186	protein_coding	NOVEL	None	11575	981	326	27832757	27868641	1	None	TXBP151, CALCOCO3
7	TAX1BP1	ENSG00000106052	ENST00000488564	processed_transcript	PUTATIVE	None	11575	None	None	27867420	27880938	1	None	TXBP151, CALCOCO3
7	TAX1BP1	ENSG00000106052	ENST00000460059	processed_transcript	PUTATIVE	None	11575	None	None	27868319	27872770	1	None	TXBP151, CALCOCO3
7	TAX1BP1	ENSG00000106052	ENST00000543117	protein_coding	KNOWN	CCDS43561	11575	2244	747	27778992	27868712	1	None	TXBP151, CALCOCO3
7	TAX1BP1	ENSG00000106052	ENST00000433216	protein_coding	KNOWN	CCDS56471	11575	1773	590	27779766	27868483	1	None	TXBP151, CALCOCO3
6	RPS6KA2	ENSG00000071242	ENST00000265678	protein_coding	KNOWN	CCDS5294	10431	2202	733	166822852	167040731	-1	None	RSK, RSK3, HU-2
6	RPS6KA2	ENSG00000071242	ENST00000510118	protein_coding	KNOWN	None	10431	2277	758	166822876	167275999	-1	None	RSK, RSK3, HU-2
6	RPS6KA2	ENSG00000071242	ENST00000503859	protein_coding	KNOWN	CCDS34570	10431	2226	741	166824720	167276039	-1	None	RSK, RSK3, HU-2
6	RPS6KA2	ENSG00000071242	ENST00000509742	processed_transcript	KNOWN	None	10431	None	None	166825784	166837472	-1	None	RSK, RSK3, HU-2
6	RPS6KA2	ENSG00000071242	ENST00000481261	protein_coding	PUTATIVE	None	10431	1935	644	166826147	166958178	-1	None	RSK, RSK3, HU-2
6	RPS6KA2	ENSG00000071242	ENST00000405189	protein_coding	PUTATIVE	None	10431	1935	644	166826236	166955938	-1	None	RSK, RSK3, HU-2
6	RPS6KA2	ENSG00000071242	ENST00000491836	processed_transcript	KNOWN	None	10431	None	None	166853377	166873039	-1	None	RSK, RSK3, HU-2
6	RPS6KA2	ENSG00000071242	ENST00000366865	processed_transcript	KNOWN	None	10431	None	None	166889214	166923798	-1	None	RSK, RSK3, HU-2
6	RPS6KA2	ENSG00000071242	ENST00000507350	protein_coding	PUTATIVE	None	10431	377	124	166912099	167041010	-1	None	RSK, RSK3, HU-2
6	RPS6KA2	ENSG00000071242	ENST00000512860	protein_coding	PUTATIVE	None	10431	290	95	166918003	167319939	-1	None	RSK, RSK3, HU-2
6	RPS6KA2	ENSG00000071242	ENST00000507371	protein_coding	PUTATIVE	None	10431	425	140	166918087	167171399	-1	None	RSK, RSK3, HU-2
6	RPS6KA2	ENSG00000071242	ENST00000506565	protein_coding	KNOWN	None	10431	514	170	166921711	167276158	-1	None	RSK, RSK3, HU-2
6	RPS6KA2	ENSG00000071242	ENST00000511034	protein_coding	PUTATIVE	None	10431	109	35	166923768	167041460	-1	None	RSK, RSK3, HU-2
6	RPS6KA2	ENSG00000071242	ENST00000366863	protein_coding	KNOWN	None	10431	501	166	166889272	167040725	-1	None	RSK, RSK3, HU-2
9	FAM74A6	ENSG00000234407	ENST00000419990	lincRNA	KNOWN	None	34036	None	None	41516046	41523018	1	None	None
9	FAM74A6	ENSG00000234407	ENST00000538713	lincRNA	KNOWN	None	34036	None	None	41516054	41521999	1	None	None
16	RN7SL645P	ENSG00000240863	ENST00000496148	misc_RNA	KNOWN	None	46661	None	None	58233474	58233740	-1	None	None
16	None	ENSG00000207243	ENST00000384514	misc_RNA	NOVEL	None	None	None	None	228553	228655	1	None	None
3	PCOLCE2	ENSG00000163710	ENST00000470310	nonsense_mediated_decay	KNOWN	None	8739	423	140	142534764	142548573	-1	None	PCPE2
3	PCOLCE2	ENSG00000163710	ENST00000295992	protein_coding	KNOWN	CCDS3127	8739	1248	415	142536711	142608045	-1	None	PCPE2
3	PCOLCE2	ENSG00000163710	ENST00000470795	retained_intron	KNOWN	None	8739	None	None	142536757	142548697	-1	None	PCPE2
3	PCOLCE2	ENSG00000163710	ENST00000485766	protein_coding	PUTATIVE	None	8739	912	303	142537101	142607741	-1	None	PCPE2
3	PCOLCE2	ENSG00000163710	ENST00000480473	nonsense_mediated_decay	KNOWN	None	8739	304	100	142539809	142567186	-1	None	PCPE2
3	PCOLCE2	ENSG00000163710	ENST00000483986	retained_intron	KNOWN	None	8739	None	None	142548519	142567164	-1	None	PCPE2
3	PCOLCE2	ENSG00000163710	ENST00000495732	processed_transcript	KNOWN	None	8739	None	None	142565494	142607903	-1	None	PCPE2
3	PCOLCE2	ENSG00000163710	ENST00000461818	processed_transcript	KNOWN	None	8739	None	None	142582731	142607864	-1	None	PCPE2
3	PCOLCE2	ENSG00000163710	ENST00000493733	processed_transcript	KNOWN	None	8739	None	None	142582952	142607587	-1	None	PCPE2
3	PCOLCE2	ENSG00000163710	ENST00000483454	retained_intron	KNOWN	None	8739	None	None	142606068	142607769	-1	None	PCPE2
13	VWA8	ENSG00000102763	ENST00000379310	protein_coding	KNOWN	CCDS41881	29071	5718	1905	42140973	42535220	-1	KIAA0564	None
13	VWA8	ENSG00000102763	ENST00000478987	processed_transcript	KNOWN	None	29071	None	None	42263569	42270255	-1	KIAA0564	None
13	VWA8	ENSG00000102763	ENST00000281496	protein_coding	KNOWN	CCDS31963	29071	3120	1039	42293473	42535256	-1	KIAA0564	None
13	VWA8	ENSG00000102763	ENST00000379302	retained_intron	KNOWN	None	29071	None	None	42439727	42442539	-1	KIAA0564	None
16	None	ENSG00000203343	ENST00000366168	pseudogene	NOVEL	None	None	None	None	58315593	58316079	1	None	None
16	None	ENSG00000268836	ENST00000595428	lincRNA	KNOWN	None	None	None	None	235747	236293	-1	None	None
11	OR51I2	ENSG00000187918	ENST00000341449	protein_coding	KNOWN	CCDS31383	15201	939	312	5474638	5475707	1	None	None
16	RNU6-269P	ENSG00000212379	ENST00000391077	snRNA	KNOWN	None	47232	None	None	58411956	58412052	-1	None	None
16	None	ENSG00000206168	ENST00000382990	processed_pseudogene	KNOWN	None	None	None	None	281133	281471	1	None	None
9	None	ENSG00000227084	ENST00000415013	lincRNA	KNOWN	None	None	None	None	41529583	41550381	-1	None	None
11	OR52D1	ENSG00000181609	ENST00000322641	protein_coding	KNOWN	CCDS31384	15212	957	318	5509915	5510979	1	None	None
16	None	ENSG00000236829	ENST00000412293	processed_transcript	KNOWN	None	None	None	None	432097	442960	1	None	None
16	None	ENSG00000236829	ENST00000457760	processed_transcript	KNOWN	None	None	None	None	432150	437242	1	None	None
16	None	ENSG00000236829	ENST00000544386	processed_transcript	KNOWN	None	None	None	None	436663	437323	1	None	None
9	ZNF658B	ENSG00000198566	ENST00000421476	unprocessed_pseudogene	KNOWN	None	32033	None	None	41591299	41602024	-1	None	None
9	ZNF658B	ENSG00000198566	ENST00000458742	unprocessed_pseudogene	KNOWN	None	32033	None	None	41588823	41609544	-1	None	None
2	STON1	ENSG00000243244	ENST00000484110	retained_intron	KNOWN	None	17003	None	None	48756522	48759056	1	None	SBLF, stoned-b1
2	STON1	ENSG00000243244	ENST00000404752	protein_coding	KNOWN	CCDS1841	17003	2208	735	48757310	48825651	1	None	SBLF, stoned-b1
2	STON1	ENSG00000243244	ENST00000406226	protein_coding	KNOWN	CCDS1841	17003	2208	735	48757325	48825652	1	None	SBLF, stoned-b1
2	STON1	ENSG00000243244	ENST00000444932	nonsense_mediated_decay	KNOWN	None	17003	282	93	48809435	48822993	1	None	SBLF, stoned-b1
2	STON1	ENSG00000243244	ENST00000309835	protein_coding	KNOWN	CCDS1841	17003	2208	735	48807763	48826025	1	None	SBLF, stoned-b1
1	AXDND1	ENSG00000162779	ENST00000509175	protein_coding	PUTATIVE	None	26564	455	150	179334855	179348617	1	C1orf125	FLJ32940
1	AXDND1	ENSG00000162779	ENST00000367618	protein_coding	KNOWN	CCDS30948	26564	3039	1012	179334855	179523870	1	C1orf125	FLJ32940
1	AXDND1	ENSG00000162779	ENST00000507383	protein_coding	PUTATIVE	None	26564	249	82	179334861	179339214	1	C1orf125	FLJ32940
1	AXDND1	ENSG00000162779	ENST00000508229	protein_coding	KNOWN	None	26564	236	77	179334873	179338073	1	C1orf125	FLJ32940
1	AXDND1	ENSG00000162779	ENST00000508285	protein_coding	KNOWN	None	26564	375	124	179335107	179339214	1	C1orf125	FLJ32940
1	AXDND1	ENSG00000162779	ENST00000511889	protein_coding	PUTATIVE	None	26564	369	122	179335107	179347892	1	C1orf125	FLJ32940
1	AXDND1	ENSG00000162779	ENST00000510593	processed_transcript	KNOWN	None	26564	None	None	179335107	179354437	1	C1orf125	FLJ32940
1	AXDND1	ENSG00000162779	ENST00000511157	nonsense_mediated_decay	KNOWN	None	26564	1590	529	179335107	179523870	1	C1orf125	FLJ32940
1	AXDND1	ENSG00000162779	ENST00000461179	processed_transcript	KNOWN	None	26564	None	None	179335112	179437852	1	C1orf125	FLJ32940
1	AXDND1	ENSG00000162779	ENST00000434088	protein_coding	NOVEL	None	26564	2619	872	179338036	179523870	1	C1orf125	FLJ32940
1	AXDND1	ENSG00000162779	ENST00000484883	processed_transcript	KNOWN	None	26564	None	None	179460838	179523870	1	C1orf125	FLJ32940
1	AXDND1	ENSG00000162779	ENST00000484455	processed_transcript	KNOWN	None	26564	None	None	179503628	179523848	1	C1orf125	FLJ32940
1	AXDND1	ENSG00000162779	ENST00000489080	processed_transcript	PUTATIVE	None	26564	None	None	179520202	179523868	1	C1orf125	FLJ32940
1	AXDND1	ENSG00000162779	ENST00000457238	protein_coding	KNOWN	None	26564	1968	655	179334876	179460786	1	C1orf125	FLJ32940
6	RPL12P1	ENSG00000204194	ENST00000374520	processed_pseudogene	KNOWN	None	13976	None	None	33367836	33368333	-1	None	RPL12-L, dJ570F3.5, CICK0721Q.1
3	CTNNB1	ENSG00000168036	ENST00000426215	protein_coding	PUTATIVE	None	2514	178	58	41236328	41266202	1	CTNNB	beta-catenin, armadillo
3	CTNNB1	ENSG00000168036	ENST00000405570	protein_coding	KNOWN	CCDS2694	2514	2346	781	41236401	41280844	1	CTNNB	beta-catenin, armadillo
3	CTNNB1	ENSG00000168036	ENST00000433400	protein_coding	KNOWN	None	2514	39	12	41236689	41266042	1	CTNNB	beta-catenin, armadillo
3	CTNNB1	ENSG00000168036	ENST00000431914	protein_coding	KNOWN	None	2514	449	148	41240136	41266652	1	CTNNB	beta-catenin, armadillo
3	CTNNB1	ENSG00000168036	ENST00000396183	protein_coding	KNOWN	CCDS2694	2514	2346	781	41240925	41281934	1	CTNNB	beta-catenin, armadillo
3	CTNNB1	ENSG00000168036	ENST00000349496	protein_coding	KNOWN	CCDS2694	2514	2346	781	41240930	41281936	1	CTNNB	beta-catenin, armadillo
3	CTNNB1	ENSG00000168036	ENST00000453024	protein_coding	PUTATIVE	None	2514	2325	774	41240936	41281227	1	CTNNB	beta-catenin, armadillo
3	CTNNB1	ENSG00000168036	ENST00000396185	protein_coding	KNOWN	CCDS2694	2514	2346	781	41240996	41281934	1	CTNNB	beta-catenin, armadillo
3	CTNNB1	ENSG00000168036	ENST00000450969	protein_coding	KNOWN	None	2514	326	107	41241602	41266529	1	CTNNB	beta-catenin, armadillo
3	CTNNB1	ENSG00000168036	ENST00000441708	protein_coding	KNOWN	None	2514	300	99	41263577	41266503	1	CTNNB	beta-catenin, armadillo
3	CTNNB1	ENSG00000168036	ENST00000488914	retained_intron	KNOWN	None	2514	None	None	41265918	41267047	1	CTNNB	beta-catenin, armadillo
3	CTNNB1	ENSG00000168036	ENST00000465552	retained_intron	KNOWN	None	2514	None	None	41275645	41278453	1	CTNNB	beta-catenin, armadillo
3	CTNNB1	ENSG00000168036	ENST00000482042	retained_intron	KNOWN	None	2514	None	None	41277088	41278958	1	CTNNB	beta-catenin, armadillo
3	CTNNB1	ENSG00000168036	ENST00000485265	retained_intron	KNOWN	None	2514	None	None	41277282	41278709	1	CTNNB	beta-catenin, armadillo
3	CTNNB1	ENSG00000168036	ENST00000471014	processed_transcript	PUTATIVE	None	2514	None	None	41280624	41301587	1	CTNNB	beta-catenin, armadillo
6	MIR5004	ENSG00000264085	ENST00000579078	miRNA	KNOWN	None	43532	None	None	33406108	33406214	1	None	hsa-mir-5004
11	UBQLN3	ENSG00000175520	ENST00000311659	protein_coding	KNOWN	CCDS7758	12510	1968	655	5528530	5531215	-1	None	TUP-1
11	UBQLN3	ENSG00000175520	ENST00000445998	protein_coding	KNOWN	None	12510	663	220	5530126	5531188	-1	None	TUP-1
16	None	ENSG00000241145	ENST00000435229	transcribed_processed_pseudogene	KNOWN	None	None	None	None	436763	437233	1	None	None
6	RN7SL26P	ENSG00000242014	ENST00000460792	misc_RNA	KNOWN	None	46042	None	None	33508471	33508774	1	None	None
8	FAM86B2	ENSG00000145002	ENST00000527331	protein_coding	KNOWN	None	32222	885	294	12283404	12293852	-1	None	None
8	FAM86B2	ENSG00000145002	ENST00000532480	protein_coding	KNOWN	None	32222	447	148	12285243	12293852	-1	None	None
8	FAM86B2	ENSG00000145002	ENST00000262365	protein_coding	KNOWN	CCDS59092	32222	993	330	12283123	12293852	-1	None	None
8	FAM86B2	ENSG00000145002	ENST00000351291	protein_coding	KNOWN	None	32222	891	296	12283123	12293852	-1	None	None
8	FAM86B2	ENSG00000145002	ENST00000393715	protein_coding	KNOWN	None	32222	390	129	12282913	12293915	-1	None	None
8	FAM86B2	ENSG00000145002	ENST00000309608	protein_coding	KNOWN	None	32222	462	153	12283123	12293852	-1	None	None
10	LDB1	ENSG00000198728	ENST00000361198	protein_coding	KNOWN	CCDS7528	6532	1128	375	103867317	103874703	-1	None	NLI, CLIM2
10	LDB1	ENSG00000198728	ENST00000461873	processed_transcript	KNOWN	None	6532	None	None	103870149	103870890	-1	None	NLI, CLIM2
10	LDB1	ENSG00000198728	ENST00000490751	processed_transcript	KNOWN	None	6532	None	None	103870387	103880205	-1	None	NLI, CLIM2
10	LDB1	ENSG00000198728	ENST00000425280	protein_coding	KNOWN	CCDS44472	6532	1236	411	103867340	103880210	-1	None	NLI, CLIM2
6	LINC00336	ENSG00000197251	ENST00000477984	antisense	KNOWN	None	33813	None	None	33553883	33561115	-1	C6orf227, NCRNA00336	FLJ43752
16	None	ENSG00000201034	ENST00000364164	misc_RNA	NOVEL	None	None	None	None	489297	489397	-1	None	None
16	None	ENSG00000230428	ENST00000430231	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	501404	503461	1	None	None
3	DPPA4	ENSG00000121570	ENST00000335658	protein_coding	KNOWN	CCDS33814	19200	915	304	109044988	109056419	-1	None	FLJ10713
3	DPPA4	ENSG00000121570	ENST00000475135	retained_intron	KNOWN	None	19200	None	None	109045700	109049607	-1	None	FLJ10713
3	DPPA4	ENSG00000121570	ENST00000463966	processed_transcript	KNOWN	None	19200	None	None	109046372	109056369	-1	None	FLJ10713
3	DPPA4	ENSG00000121570	ENST00000495679	nonsense_mediated_decay	KNOWN	None	19200	207	68	109047737	109056364	-1	None	FLJ10713
3	DPPA4	ENSG00000121570	ENST00000487299	retained_intron	KNOWN	None	19200	None	None	109047865	109051037	-1	None	FLJ10713
3	DPPA4	ENSG00000121570	ENST00000478791	processed_transcript	KNOWN	None	19200	None	None	109048823	109056362	-1	None	FLJ10713
3	DPPA4	ENSG00000121570	ENST00000477303	protein_coding	PUTATIVE	None	19200	107	34	109050794	109055278	-1	None	FLJ10713
3	DPPA4	ENSG00000121570	ENST00000489281	retained_intron	KNOWN	None	19200	None	None	109052243	109056392	-1	None	FLJ10713
20	PAK7	ENSG00000101349	ENST00000378423	protein_coding	KNOWN	CCDS13107	15916	2160	719	9518036	9819479	-1	None	KIAA1264, PAK5
20	PAK7	ENSG00000101349	ENST00000353224	protein_coding	KNOWN	CCDS13107	15916	2160	719	9518036	9819515	-1	None	KIAA1264, PAK5
20	PAK7	ENSG00000101349	ENST00000378429	protein_coding	KNOWN	CCDS13107	15916	2160	719	9518036	9819689	-1	None	KIAA1264, PAK5
16	None	ENSG00000256323	ENST00000546124	pseudogene	NOVEL	None	None	None	None	542366	542567	1	None	None
14	None	ENSG00000268466	ENST00000598233	protein_coding	NOVEL	None	None	162	53	58754751	58755865	1	None	None
16	MIR5587	ENSG00000266124	ENST00000581803	miRNA	KNOWN	None	43508	None	None	585316	585368	1	None	hsa-mir-5587
Y	None	ENSG00000270535	ENST00000604436	processed_pseudogene	KNOWN	None	None	None	None	27809047	27809373	1	None	None
5	MIR2277	ENSG00000251725	ENST00000515916	miRNA	KNOWN	None	37314	None	None	92956402	92956494	-1	None	hsa-mir-2277
17	KRT31	ENSG00000094796	ENST00000251645	protein_coding	KNOWN	CCDS11391	6448	1251	416	39549976	39553844	-1	KRTHA1	Ha-1
16	MIR3176	ENSG00000266235	ENST00000582210	miRNA	KNOWN	None	38345	None	None	593277	593366	1	None	hsa-mir-3176
Y	OFD1P13Y	ENSG00000225287	ENST00000431179	unprocessed_pseudogene	KNOWN	None	23885	None	None	27821207	27843493	-1	OFDYP13, OFD1P13, OFD1PY13	None
5	NPM1P27	ENSG00000249353	ENST00000502784	processed_pseudogene	KNOWN	None	45206	None	None	93018544	93019373	-1	None	None
16	None	ENSG00000261691	ENST00000565879	antisense	KNOWN	None	None	None	None	597185	603847	-1	None	None
7	ADCYAP1R1	ENSG00000078549	ENST00000304166	protein_coding	KNOWN	CCDS5433	242	1407	468	31092076	31151089	1	None	PAC1, PACAPR, PAC1R
7	ADCYAP1R1	ENSG00000078549	ENST00000409363	protein_coding	NOVEL	CCDS56481	242	1344	447	31092142	31146620	1	None	PAC1, PACAPR, PAC1R
7	ADCYAP1R1	ENSG00000078549	ENST00000431811	protein_coding	KNOWN	None	242	222	73	31096547	31117670	1	None	PAC1, PACAPR, PAC1R
7	ADCYAP1R1	ENSG00000078549	ENST00000396211	protein_coding	NOVEL	CCDS56480	242	1491	496	31102810	31146323	1	None	PAC1, PACAPR, PAC1R
7	ADCYAP1R1	ENSG00000078549	ENST00000409489	protein_coding	NOVEL	None	242	1575	524	31102855	31146458	1	None	PAC1, PACAPR, PAC1R
7	ADCYAP1R1	ENSG00000078549	ENST00000436116	protein_coding	PUTATIVE	None	242	441	146	31126585	31144513	1	None	PAC1, PACAPR, PAC1R
1	KAZN	ENSG00000189337	ENST00000491547	retained_intron	KNOWN	None	29173	None	None	14925200	15393056	1	None	KIAA1026, KAZRIN, FLJ43806
1	KAZN	ENSG00000189337	ENST00000376030	protein_coding	KNOWN	CCDS152	29173	2328	775	14925200	15444539	1	None	KIAA1026, KAZRIN, FLJ43806
1	KAZN	ENSG00000189337	ENST00000503743	protein_coding	KNOWN	CCDS41267	29173	1266	421	14925213	15392293	1	None	KIAA1026, KAZRIN, FLJ43806
1	KAZN	ENSG00000189337	ENST00000361144	protein_coding	KNOWN	CCDS30604	29173	1248	415	15250626	15394648	1	None	KIAA1026, KAZRIN, FLJ43806
1	KAZN	ENSG00000189337	ENST00000376028	protein_coding	KNOWN	None	29173	499	165	15256296	15382641	1	None	KIAA1026, KAZRIN, FLJ43806
1	KAZN	ENSG00000189337	ENST00000400797	protein_coding	KNOWN	CCDS41268	29173	984	327	15272415	15392293	1	None	KIAA1026, KAZRIN, FLJ43806
1	KAZN	ENSG00000189337	ENST00000422387	protein_coding	KNOWN	CCDS41267	29173	1266	421	14925213	15394651	1	None	KIAA1026, KAZRIN, FLJ43806
1	KAZN	ENSG00000189337	ENST00000400798	protein_coding	KNOWN	CCDS41268	29173	984	327	15256296	15394651	1	None	KIAA1026, KAZRIN, FLJ43806
5	None	ENSG00000272406	ENST00000606528	antisense	KNOWN	None	None	None	None	93077346	93079206	1	None	None
5	FTMT	ENSG00000181867	ENST00000321339	protein_coding	KNOWN	CCDS4128	17345	729	242	121187650	121188519	1	None	MtF
7	BRAT1	ENSG00000106009	ENST00000340611	protein_coding	KNOWN	CCDS5334	21701	2466	821	2577511	2595361	-1	C7orf27, BAAT1	MGC22916
7	BRAT1	ENSG00000106009	ENST00000493232	retained_intron	KNOWN	None	21701	None	None	2577515	2583886	-1	C7orf27, BAAT1	MGC22916
7	BRAT1	ENSG00000106009	ENST00000467558	retained_intron	KNOWN	None	21701	None	None	2577515	2594081	-1	C7orf27, BAAT1	MGC22916
7	BRAT1	ENSG00000106009	ENST00000469750	retained_intron	KNOWN	None	21701	None	None	2577515	2595328	-1	C7orf27, BAAT1	MGC22916
7	BRAT1	ENSG00000106009	ENST00000473879	processed_transcript	KNOWN	None	21701	None	None	2578046	2580658	-1	C7orf27, BAAT1	MGC22916
7	BRAT1	ENSG00000106009	ENST00000421712	nonsense_mediated_decay	KNOWN	None	21701	429	142	2581815	2594082	-1	C7orf27, BAAT1	MGC22916
16	None	ENSG00000196674	ENST00000354292	pseudogene	KNOWN	None	None	None	None	653555	653904	1	None	None
Y	TRAPPC2P5	ENSG00000225256	ENST00000426293	unprocessed_pseudogene	KNOWN	None	10714	None	None	27845598	27848709	1	SEDLP5	None
16	None	ENSG00000197727	ENST00000356631	pseudogene	KNOWN	None	None	None	None	691039	691688	-1	None	None
9	None	ENSG00000203321	ENST00000455609	antisense	KNOWN	None	None	None	None	77567884	77611209	1	None	None
5	None	ENSG00000251023	ENST00000505668	sense_intronic	KNOWN	None	None	None	None	93196375	93199531	-1	None	None
19	ELOF1	ENSG00000130165	ENST00000586683	protein_coding	PUTATIVE	None	28691	345	114	11661962	11670045	-1	None	MGC4549, ELF1
19	ELOF1	ENSG00000130165	ENST00000587806	protein_coding	PUTATIVE	None	28691	315	104	11663862	11666282	-1	None	MGC4549, ELF1
19	ELOF1	ENSG00000130165	ENST00000589171	protein_coding	PUTATIVE	None	28691	231	76	11664272	11669960	-1	None	MGC4549, ELF1
19	ELOF1	ENSG00000130165	ENST00000591674	protein_coding	PUTATIVE	None	28691	273	90	11664346	11666530	-1	None	MGC4549, ELF1
19	ELOF1	ENSG00000130165	ENST00000586120	protein_coding	KNOWN	CCDS12264	28691	252	83	11664379	11665609	-1	None	MGC4549, ELF1
19	ELOF1	ENSG00000130165	ENST00000590700	protein_coding	KNOWN	CCDS12264	28691	252	83	11664406	11670038	-1	None	MGC4549, ELF1
19	ELOF1	ENSG00000130165	ENST00000591912	protein_coding	PUTATIVE	None	28691	363	120	11664443	11666470	-1	None	MGC4549, ELF1
19	ELOF1	ENSG00000130165	ENST00000593077	protein_coding	PUTATIVE	None	28691	44	13	11665990	11670045	-1	None	MGC4549, ELF1
19	ELOF1	ENSG00000130165	ENST00000252445	protein_coding	KNOWN	CCDS12264	28691	252	83	11663858	11670051	-1	None	MGC4549, ELF1
9	None	ENSG00000229587	ENST00000455336	sense_intronic	KNOWN	None	None	None	None	77624744	77630952	-1	None	None
9	SLC46A2	ENSG00000119457	ENST00000374228	protein_coding	KNOWN	CCDS6786	16055	1428	475	115641200	115653193	-1	TSCOT	Ly110
9	SLC46A2	ENSG00000119457	ENST00000491462	nonsense_mediated_decay	KNOWN	None	16055	1026	341	115641537	115653090	-1	TSCOT	Ly110
16	None	ENSG00000228201	ENST00000455294	antisense	KNOWN	None	None	None	None	698473	699200	-1	None	None
6	MIR3934	ENSG00000266509	ENST00000579806	miRNA	KNOWN	None	38965	None	None	33665905	33666011	1	None	hsa-mir-3934
9	None	ENSG00000200041	ENST00000363171	misc_RNA	NOVEL	None	None	None	None	77796436	77796537	-1	None	None
19	AXL	ENSG00000167601	ENST00000301178	protein_coding	KNOWN	CCDS12575	905	2685	894	41725108	41767671	1	None	UFO, JTK11
19	AXL	ENSG00000167601	ENST00000359092	protein_coding	KNOWN	CCDS12574	905	2658	885	41725140	41766199	1	None	UFO, JTK11
19	AXL	ENSG00000167601	ENST00000599659	retained_intron	KNOWN	None	905	None	None	41725284	41749769	1	None	UFO, JTK11
19	AXL	ENSG00000167601	ENST00000594880	processed_transcript	KNOWN	None	905	None	None	41726305	41727901	1	None	UFO, JTK11
19	AXL	ENSG00000167601	ENST00000593513	protein_coding	PUTATIVE	None	905	1881	626	41732660	41766109	1	None	UFO, JTK11
HSCHR6_MHC_MANN	SFTA2	ENSG00000230072	ENST00000429290	protein_coding	KNOWN	None	18386	237	78	30943814	30944636	-1	SFTPG	None
HSCHR6_MHC_MANN	SFTA2	ENSG00000230072	ENST00000462574	retained_intron	KNOWN	None	18386	None	None	30943814	30944570	-1	SFTPG	None
9	RNU6-1228P	ENSG00000212316	ENST00000391014	snRNA	KNOWN	None	48191	None	None	77812987	77813093	1	None	None
9	None	ENSG00000235707	ENST00000426848	processed_pseudogene	KNOWN	None	None	None	None	78016805	78017908	-1	None	None
5	MTND5P12	ENSG00000251544	ENST00000502851	processed_pseudogene	KNOWN	None	42274	None	None	93903166	93904614	1	None	None
5	SRFBP1	ENSG00000151304	ENST00000339397	protein_coding	KNOWN	CCDS43354	26333	1290	429	121297656	121364314	1	None	FLJ25286, p49, STRAP, BUD22, Rlb1
5	SRFBP1	ENSG00000151304	ENST00000504881	processed_transcript	KNOWN	None	26333	None	None	121356225	121411265	1	None	FLJ25286, p49, STRAP, BUD22, Rlb1
6	None	ENSG00000249346	ENST00000525912	lincRNA	KNOWN	None	None	None	None	33835283	33861430	-1	None	None
6	None	ENSG00000249346	ENST00000506222	lincRNA	KNOWN	None	None	None	None	33857288	33864684	-1	None	None
6	None	ENSG00000249346	ENST00000531046	lincRNA	KNOWN	None	None	None	None	33859479	33860556	-1	None	None
6	None	ENSG00000249346	ENST00000525746	lincRNA	KNOWN	None	None	None	None	33859574	33860527	-1	None	None
6	None	ENSG00000249346	ENST00000533304	lincRNA	KNOWN	None	None	None	None	33860087	33864691	-1	None	None
9	None	ENSG00000236376	ENST00000455583	lincRNA	KNOWN	None	None	None	None	78194585	78203464	1	None	None
3	DUSP7	ENSG00000164086	ENST00000495880	protein_coding	NOVEL	CCDS33766	3073	1260	419	52082935	52090566	-1	None	MKP-X, PYST2
3	DUSP7	ENSG00000164086	ENST00000469623	protein_coding	PUTATIVE	None	3073	828	275	52085648	52090181	-1	None	MKP-X, PYST2
3	DUSP7	ENSG00000164086	ENST00000296483	protein_coding	KNOWN	None	3073	1107	368	52082939	52090461	-1	None	MKP-X, PYST2
12	A2M	ENSG00000175899	ENST00000543436	protein_coding	PUTATIVE	None	7	600	199	9220260	9244008	-1	None	FWP007, S863-7, CPAMD5
12	A2M	ENSG00000175899	ENST00000495442	retained_intron	KNOWN	None	7	None	None	9220308	9221551	-1	None	FWP007, S863-7, CPAMD5
12	A2M	ENSG00000175899	ENST00000495709	retained_intron	KNOWN	None	7	None	None	9220308	9221674	-1	None	FWP007, S863-7, CPAMD5
12	A2M	ENSG00000175899	ENST00000318602	protein_coding	KNOWN	CCDS44827	7	4425	1474	9220308	9268753	-1	None	FWP007, S863-7, CPAMD5
12	A2M	ENSG00000175899	ENST00000545828	processed_transcript	KNOWN	None	7	None	None	9225029	9258892	-1	None	FWP007, S863-7, CPAMD5
12	A2M	ENSG00000175899	ENST00000542567	processed_transcript	KNOWN	None	7	None	None	9230365	9232994	-1	None	FWP007, S863-7, CPAMD5
12	A2M	ENSG00000175899	ENST00000462568	retained_intron	KNOWN	None	7	None	None	9232577	9243126	-1	None	FWP007, S863-7, CPAMD5
12	A2M	ENSG00000175899	ENST00000546069	nonsense_mediated_decay	KNOWN	None	7	222	73	9243992	9254090	-1	None	FWP007, S863-7, CPAMD5
12	A2M	ENSG00000175899	ENST00000472360	retained_intron	KNOWN	None	7	None	None	9250978	9254152	-1	None	FWP007, S863-7, CPAMD5
12	A2M	ENSG00000175899	ENST00000539638	nonsense_mediated_decay	KNOWN	None	7	273	90	9261936	9268456	-1	None	FWP007, S863-7, CPAMD5
12	A2M	ENSG00000175899	ENST00000404455	protein_coding	KNOWN	None	7	504	167	9262910	9268825	-1	None	FWP007, S863-7, CPAMD5
12	A2M	ENSG00000175899	ENST00000467091	processed_transcript	KNOWN	None	7	None	None	9265235	9268657	-1	None	FWP007, S863-7, CPAMD5
12	A2M	ENSG00000175899	ENST00000497324	processed_transcript	KNOWN	None	7	None	None	9267754	9268613	-1	None	FWP007, S863-7, CPAMD5
HSCHR6_MHC_COX	KRT18P1	ENSG00000233505	ENST00000412958	processed_pseudogene	KNOWN	None	6434	None	None	28933441	28934771	-1	None	dJ25J6.3
10	None	ENSG00000237540	ENST00000418616	processed_pseudogene	KNOWN	None	None	None	None	13201477	13201777	-1	None	None
21	GABPA	ENSG00000154727	ENST00000354828	protein_coding	KNOWN	CCDS13575	4071	1365	454	27106881	27144771	1	None	E4TF1A, NFT2, NRF2, E4TF1-60, NRF2A
21	GABPA	ENSG00000154727	ENST00000400075	protein_coding	KNOWN	CCDS13575	4071	1365	454	27107695	27144771	1	None	E4TF1A, NFT2, NRF2, E4TF1-60, NRF2A
21	GABPA	ENSG00000154727	ENST00000487266	processed_transcript	PUTATIVE	None	4071	None	None	27107700	27124659	1	None	E4TF1A, NFT2, NRF2, E4TF1-60, NRF2A
21	PCNT	ENSG00000160299	ENST00000359568	protein_coding	KNOWN	CCDS33592	16068	10011	3336	47744036	47865682	1	PCNT2	KEN, KIAA0402, PCN, PCNTB, SCKL4
21	PCNT	ENSG00000160299	ENST00000490468	processed_transcript	KNOWN	None	16068	None	None	47744055	47769714	1	PCNT2	KEN, KIAA0402, PCN, PCNTB, SCKL4
21	PCNT	ENSG00000160299	ENST00000480896	processed_transcript	KNOWN	None	16068	None	None	47744802	47865682	1	PCNT2	KEN, KIAA0402, PCN, PCNTB, SCKL4
21	PCNT	ENSG00000160299	ENST00000466474	processed_transcript	KNOWN	None	16068	None	None	47766052	47773217	1	PCNT2	KEN, KIAA0402, PCN, PCNTB, SCKL4
21	PCNT	ENSG00000160299	ENST00000483844	processed_transcript	KNOWN	None	16068	None	None	47768153	47773240	1	PCNT2	KEN, KIAA0402, PCN, PCNTB, SCKL4
21	PCNT	ENSG00000160299	ENST00000482575	processed_transcript	KNOWN	None	16068	None	None	47851173	47851949	1	PCNT2	KEN, KIAA0402, PCN, PCNTB, SCKL4
21	PCNT	ENSG00000160299	ENST00000418394	protein_coding	PUTATIVE	None	16068	686	227	47856954	47865350	1	PCNT2	KEN, KIAA0402, PCN, PCNTB, SCKL4
21	PCNT	ENSG00000160299	ENST00000465356	retained_intron	KNOWN	None	16068	None	None	47860907	47863085	1	PCNT2	KEN, KIAA0402, PCN, PCNTB, SCKL4
Y	RAB9AP2	ENSG00000223856	ENST00000443911	unprocessed_pseudogene	KNOWN	None	38106	None	None	27856055	27859704	-1	None	None
Y	USP9YP30	ENSG00000235004	ENST00000430729	unprocessed_pseudogene	KNOWN	None	38766	None	None	27869163	27870333	1	None	None
17	KRT37	ENSG00000108417	ENST00000225550	protein_coding	KNOWN	CCDS32653	6455	1350	449	39577005	39580775	-1	KRTHA7	None
5	PCDHB14	ENSG00000120327	ENST00000239449	protein_coding	KNOWN	CCDS4256	8685	2397	798	140603078	140605858	1	None	PCDH-BETA14
5	PCDHB14	ENSG00000120327	ENST00000515856	protein_coding	KNOWN	None	8685	1938	645	140602931	140605665	1	None	PCDH-BETA14
2	DARS	ENSG00000115866	ENST00000264161	protein_coding	KNOWN	CCDS2180	2678	1506	501	136664247	136743254	-1	None	None
2	DARS	ENSG00000115866	ENST00000478212	retained_intron	KNOWN	None	2678	None	None	136664394	136669187	-1	None	None
2	DARS	ENSG00000115866	ENST00000489964	retained_intron	KNOWN	None	2678	None	None	136664814	136672436	-1	None	None
2	DARS	ENSG00000115866	ENST00000422708	protein_coding	NOVEL	None	2678	567	188	136664830	136678123	-1	None	None
2	DARS	ENSG00000115866	ENST00000491481	retained_intron	KNOWN	None	2678	None	None	136668418	136670129	-1	None	None
2	DARS	ENSG00000115866	ENST00000441323	protein_coding	NOVEL	None	2678	546	181	136681988	136743454	-1	None	None
2	DARS	ENSG00000115866	ENST00000456565	protein_coding	NOVEL	None	2678	527	174	136682007	136743670	-1	None	None
2	DARS	ENSG00000115866	ENST00000449218	protein_coding	NOVEL	None	2678	406	134	136691479	136743467	-1	None	None
2	DARS	ENSG00000115866	ENST00000435076	nonsense_mediated_decay	KNOWN	None	2678	539	178	136700749	136743133	-1	None	None
2	DARS	ENSG00000115866	ENST00000463008	processed_transcript	KNOWN	None	2678	None	None	136700956	136738121	-1	None	None
2	DARS	ENSG00000115866	ENST00000474184	retained_intron	KNOWN	None	2678	None	None	136736557	136741017	-1	None	None
2	DARS	ENSG00000115866	ENST00000537273	protein_coding	KNOWN	None	2678	1206	401	136664832	136743062	-1	None	None
Y	RNU1-107P	ENSG00000252426	ENST00000516617	snRNA	KNOWN	None	48449	None	None	27869489	27869642	1	None	None
Y	TTTY3	ENSG00000231141	ENST00000417334	lincRNA	KNOWN	None	16480	None	None	27874637	27879535	1	None	TTY3, TTTY3A, LINC00121
1	WDR47	ENSG00000085433	ENST00000400794	protein_coding	KNOWN	CCDS44186	29141	2784	927	109512836	109584608	-1	None	KIAA0893
1	WDR47	ENSG00000085433	ENST00000369962	protein_coding	KNOWN	CCDS44187	29141	2760	919	109512836	109584697	-1	None	KIAA0893
1	WDR47	ENSG00000085433	ENST00000361054	protein_coding	KNOWN	None	29141	2676	891	109512836	109584697	-1	None	KIAA0893
1	WDR47	ENSG00000085433	ENST00000369965	protein_coding	KNOWN	CCDS30787	29141	2763	920	109512836	109584735	-1	None	KIAA0893
1	WDR47	ENSG00000085433	ENST00000530772	protein_coding	KNOWN	None	29141	519	172	109554149	109584169	-1	None	KIAA0893
1	WDR47	ENSG00000085433	ENST00000529074	protein_coding	PUTATIVE	None	29141	281	92	109554168	109584727	-1	None	KIAA0893
1	WDR47	ENSG00000085433	ENST00000531337	protein_coding	PUTATIVE	None	29141	170	55	109554198	109584724	-1	None	KIAA0893
1	WDR47	ENSG00000085433	ENST00000528747	protein_coding	KNOWN	None	29141	318	105	109556472	109584608	-1	None	KIAA0893
1	WDR47	ENSG00000085433	ENST00000357672	protein_coding	KNOWN	None	29141	2676	891	109512840	109584850	-1	None	KIAA0893
3	LSM3	ENSG00000170860	ENST00000306024	protein_coding	KNOWN	CCDS2619	17874	309	102	14219858	14242619	1	None	YLR438C, SMX4, USS2
22	ADORA2A-AS1	ENSG00000178803	ENST00000326341	antisense	KNOWN	None	37122	None	None	24825178	24890768	-1	C22orf45	FLJ34651
22	ADORA2A-AS1	ENSG00000178803	ENST00000427813	antisense	KNOWN	None	37122	None	None	24834244	24891042	-1	C22orf45	FLJ34651
22	ADORA2A-AS1	ENSG00000178803	ENST00000412790	antisense	KNOWN	None	37122	None	None	24856465	24890763	-1	C22orf45	FLJ34651
22	ADORA2A-AS1	ENSG00000178803	ENST00000543438	antisense	KNOWN	None	37122	None	None	24825178	24890783	-1	C22orf45	FLJ34651
16	C16orf71	ENSG00000166246	ENST00000299320	protein_coding	KNOWN	CCDS10521	25081	1563	520	4784273	4799397	1	None	FLJ43261, DKFZp686H2240
16	C16orf71	ENSG00000166246	ENST00000586724	protein_coding	KNOWN	None	25081	469	155	4784345	4790346	1	None	FLJ43261, DKFZp686H2240
16	C16orf71	ENSG00000166246	ENST00000590191	protein_coding	NOVEL	None	25081	1614	537	4784481	4799396	1	None	FLJ43261, DKFZp686H2240
16	C16orf71	ENSG00000166246	ENST00000586256	retained_intron	KNOWN	None	25081	None	None	4784503	4799397	1	None	FLJ43261, DKFZp686H2240
7	SLC37A3	ENSG00000157800	ENST00000477571	nonsense_mediated_decay	KNOWN	None	20651	675	224	139993493	140098289	-1	None	DKFZp761N0624
7	SLC37A3	ENSG00000157800	ENST00000340308	protein_coding	KNOWN	CCDS5858	20651	1332	443	140033552	140098257	-1	None	DKFZp761N0624
7	SLC37A3	ENSG00000157800	ENST00000447932	protein_coding	KNOWN	None	20651	1437	478	140033552	140098302	-1	None	DKFZp761N0624
7	SLC37A3	ENSG00000157800	ENST00000326232	protein_coding	KNOWN	CCDS5859	20651	1485	494	140033552	140098349	-1	None	DKFZp761N0624
7	SLC37A3	ENSG00000157800	ENST00000473060	retained_intron	KNOWN	None	20651	None	None	140033554	140043886	-1	None	DKFZp761N0624
7	SLC37A3	ENSG00000157800	ENST00000469636	protein_coding	NOVEL	None	20651	171	56	140033591	140043289	-1	None	DKFZp761N0624
7	SLC37A3	ENSG00000157800	ENST00000498469	protein_coding	PUTATIVE	None	20651	486	161	140034670	140045711	-1	None	DKFZp761N0624
7	SLC37A3	ENSG00000157800	ENST00000491357	protein_coding	NOVEL	None	20651	369	122	140034691	140048486	-1	None	DKFZp761N0624
7	SLC37A3	ENSG00000157800	ENST00000485538	protein_coding	PUTATIVE	None	20651	296	97	140034789	140043330	-1	None	DKFZp761N0624
7	SLC37A3	ENSG00000157800	ENST00000492027	protein_coding	NOVEL	None	20651	244	80	140034905	140051157	-1	None	DKFZp761N0624
7	SLC37A3	ENSG00000157800	ENST00000477006	protein_coding	PUTATIVE	None	20651	452	149	140035090	140045707	-1	None	DKFZp761N0624
7	SLC37A3	ENSG00000157800	ENST00000460560	retained_intron	KNOWN	None	20651	None	None	140035121	140098308	-1	None	DKFZp761N0624
7	SLC37A3	ENSG00000157800	ENST00000485734	protein_coding	NOVEL	None	20651	578	191	140035255	140051900	-1	None	DKFZp761N0624
7	SLC37A3	ENSG00000157800	ENST00000485139	retained_intron	KNOWN	None	20651	None	None	140035272	140037625	-1	None	DKFZp761N0624
7	SLC37A3	ENSG00000157800	ENST00000487319	retained_intron	KNOWN	None	20651	None	None	140048258	140051205	-1	None	DKFZp761N0624
7	SLC37A3	ENSG00000157800	ENST00000485861	protein_coding	NOVEL	None	20651	534	177	140048426	140069454	-1	None	DKFZp761N0624
7	SLC37A3	ENSG00000157800	ENST00000484416	nonsense_mediated_decay	KNOWN	None	20651	378	125	140051161	140064291	-1	None	DKFZp761N0624
7	SLC37A3	ENSG00000157800	ENST00000490760	nonsense_mediated_decay	KNOWN	None	20651	165	54	140051231	140098281	-1	None	DKFZp761N0624
7	SLC37A3	ENSG00000157800	ENST00000464865	retained_intron	KNOWN	None	20651	None	None	140051320	140098304	-1	None	DKFZp761N0624
7	SLC37A3	ENSG00000157800	ENST00000473707	processed_transcript	KNOWN	None	20651	None	None	140051676	140069482	-1	None	DKFZp761N0624
7	SLC37A3	ENSG00000157800	ENST00000464834	nonsense_mediated_decay	KNOWN	None	20651	451	149	140051689	140069462	-1	None	DKFZp761N0624
7	SLC37A3	ENSG00000157800	ENST00000469193	protein_coding	NOVEL	None	20651	460	152	140051862	140098332	-1	None	DKFZp761N0624
7	SLC37A3	ENSG00000157800	ENST00000461089	processed_transcript	KNOWN	None	20651	None	None	140058440	140098350	-1	None	DKFZp761N0624
7	SLC37A3	ENSG00000157800	ENST00000462881	nonsense_mediated_decay	KNOWN	None	20651	201	66	140064259	140098278	-1	None	DKFZp761N0624
7	SLC37A3	ENSG00000157800	ENST00000495257	processed_transcript	KNOWN	None	20651	None	None	140079059	140098307	-1	None	DKFZp761N0624
7	SLC37A3	ENSG00000157800	ENST00000467233	retained_intron	KNOWN	None	20651	None	None	140079678	140082274	-1	None	DKFZp761N0624
7	SLC37A3	ENSG00000157800	ENST00000491505	protein_coding	KNOWN	None	20651	44	13	140082283	140104110	-1	None	DKFZp761N0624
7	SLC37A3	ENSG00000157800	ENST00000493423	retained_intron	KNOWN	None	20651	None	None	140100136	140104233	-1	None	DKFZp761N0624
7	SLC37A3	ENSG00000157800	ENST00000429996	protein_coding	KNOWN	None	20651	471	156	140045757	140098308	-1	None	DKFZp761N0624
19	ZNF227	ENSG00000131115	ENST00000590871	processed_transcript	KNOWN	None	13020	None	None	44711700	44717390	1	None	None
19	ZNF227	ENSG00000131115	ENST00000588567	retained_intron	KNOWN	None	13020	None	None	44716691	44717907	1	None	None
19	ZNF227	ENSG00000131115	ENST00000586228	protein_coding	PUTATIVE	None	13020	249	82	44716691	44738988	1	None	None
19	ZNF227	ENSG00000131115	ENST00000588219	protein_coding	PUTATIVE	None	13020	288	95	44716691	44739108	1	None	None
19	ZNF227	ENSG00000131115	ENST00000313040	protein_coding	KNOWN	CCDS12636	13020	2400	799	44716691	44741421	1	None	None
19	ZNF227	ENSG00000131115	ENST00000589707	protein_coding	PUTATIVE	None	13020	114	37	44716718	44738994	1	None	None
19	ZNF227	ENSG00000131115	ENST00000591019	retained_intron	KNOWN	None	13020	None	None	44716721	44733271	1	None	None
19	ZNF227	ENSG00000131115	ENST00000588394	protein_coding	PUTATIVE	None	13020	645	214	44716724	44739312	1	None	None
19	ZNF227	ENSG00000131115	ENST00000589005	protein_coding	PUTATIVE	None	13020	2247	748	44716728	44741420	1	None	None
19	ZNF227	ENSG00000131115	ENST00000586048	protein_coding	KNOWN	None	13020	247	81	44716776	44733945	1	None	None
19	ZNF227	ENSG00000131115	ENST00000589237	processed_transcript	KNOWN	None	13020	None	None	44731278	44732726	1	None	None
19	ZNF227	ENSG00000131115	ENST00000391961	protein_coding	KNOWN	None	13020	2247	748	44717239	44741420	1	None	None
HSCHR6_MHC_COX	RN7SL257P	ENSG00000263419	ENST00000577201	misc_RNA	KNOWN	None	46273	None	None	28941851	28942146	1	None	None
HSCHR6_MHC_COX	HCG15	ENSG00000227380	ENST00000423340	processed_transcript	KNOWN	None	18361	None	None	28950578	28951859	1	None	dJ25J6.6
6	None	ENSG00000271362	ENST00000603883	processed_pseudogene	KNOWN	None	None	None	None	33850947	33851188	1	None	None
16	None	ENSG00000261078	ENST00000566019	antisense	KNOWN	None	None	None	None	58416893	58417702	-1	None	None
10	RNU6-6P	ENSG00000272055	ENST00000606623	snRNA	KNOWN	None	10228	None	None	13259269	13259375	1	RNU6B, RNU6-6	U6-6
16	RNU6-1110P	ENSG00000252271	ENST00000516462	snRNA	KNOWN	None	48073	None	None	58418346	58418446	-1	None	None
11	MRGPRF	ENSG00000172935	ENST00000309099	protein_coding	KNOWN	CCDS8188	24828	1032	343	68771866	68780877	-1	GPR168, GPR140	MGC21621, mrgF
11	MRGPRF	ENSG00000172935	ENST00000320913	protein_coding	NOVEL	None	24828	315	104	68776885	68780714	-1	GPR168, GPR140	MGC21621, mrgF
11	MRGPRF	ENSG00000172935	ENST00000441623	protein_coding	KNOWN	CCDS8188	24828	1032	343	68771863	68780850	-1	GPR168, GPR140	MGC21621, mrgF
10	None	ENSG00000233256	ENST00000448272	antisense	KNOWN	None	None	None	None	13457202	13465133	1	None	None
16	None	ENSG00000260186	ENST00000562322	lincRNA	KNOWN	None	None	None	None	58455230	58470073	1	None	None
16	None	ENSG00000260186	ENST00000561906	lincRNA	KNOWN	None	None	None	None	58455243	58496374	1	None	None
16	None	ENSG00000260186	ENST00000567448	lincRNA	KNOWN	None	None	None	None	58455265	58484599	1	None	None
HSCHR6_MHC_COX	HCG16	ENSG00000239940	ENST00000415592	processed_transcript	KNOWN	None	20424	None	None	28951175	28952911	1	None	dJ25J6.7
5	MEF2C	ENSG00000081189	ENST00000340208	protein_coding	NOVEL	CCDS54878	6996	1452	483	88013975	88199899	-1	None	None
5	MEF2C	ENSG00000081189	ENST00000424173	protein_coding	KNOWN	CCDS47244	6996	1392	463	88014039	88199922	-1	None	None
5	MEF2C	ENSG00000081189	ENST00000514028	protein_coding	KNOWN	CCDS47245	6996	1422	473	88016166	88179031	-1	None	None
5	MEF2C	ENSG00000081189	ENST00000437473	protein_coding	KNOWN	CCDS47245	6996	1422	473	88016166	88179050	-1	None	None
5	MEF2C	ENSG00000081189	ENST00000510942	protein_coding	KNOWN	None	6996	1398	465	88016642	88178989	-1	None	None
5	MEF2C	ENSG00000081189	ENST00000506554	protein_coding	PUTATIVE	None	6996	1200	399	88016661	88178989	-1	None	None
5	MEF2C	ENSG00000081189	ENST00000508569	protein_coding	NOVEL	None	6996	1302	433	88018391	88178976	-1	None	None
5	MEF2C	ENSG00000081189	ENST00000514015	protein_coding	KNOWN	None	6996	1326	441	88018412	88179041	-1	None	None
5	MEF2C	ENSG00000081189	ENST00000510980	retained_intron	KNOWN	None	6996	None	None	88018654	88025336	-1	None	None
5	MEF2C	ENSG00000081189	ENST00000515715	retained_intron	KNOWN	None	6996	None	None	88027261	88044941	-1	None	None
5	MEF2C	ENSG00000081189	ENST00000513252	protein_coding	KNOWN	None	6996	726	241	88027624	88178964	-1	None	None
5	MEF2C	ENSG00000081189	ENST00000506716	protein_coding	KNOWN	None	6996	681	226	88027669	88120157	-1	None	None
5	MEF2C	ENSG00000081189	ENST00000503554	processed_transcript	KNOWN	None	6996	None	None	88027713	88081359	-1	None	None
5	MEF2C	ENSG00000081189	ENST00000507984	protein_coding	KNOWN	None	6996	361	119	88056840	88122975	-1	None	None
5	MEF2C	ENSG00000081189	ENST00000502983	protein_coding	KNOWN	None	6996	387	128	88057017	88180385	-1	None	None
5	MEF2C	ENSG00000081189	ENST00000508610	protein_coding	KNOWN	None	6996	378	125	88057026	88173794	-1	None	None
5	MEF2C	ENSG00000081189	ENST00000502831	protein_coding	KNOWN	None	6996	295	97	88057109	88199922	-1	None	None
5	MEF2C	ENSG00000081189	ENST00000503075	protein_coding	KNOWN	None	6996	262	86	88057142	88179044	-1	None	None
5	MEF2C	ENSG00000081189	ENST00000511086	retained_intron	KNOWN	None	6996	None	None	88100343	88178991	-1	None	None
5	MEF2C	ENSG00000081189	ENST00000509373	protein_coding	KNOWN	None	6996	86	27	88100587	88120092	-1	None	None
5	MEF2C	ENSG00000081189	ENST00000515093	processed_transcript	KNOWN	None	6996	None	None	88119613	88185141	-1	None	None
5	MEF2C	ENSG00000081189	ENST00000509349	processed_transcript	KNOWN	None	6996	None	None	88119678	88179041	-1	None	None
5	MEF2C	ENSG00000081189	ENST00000503955	retained_intron	KNOWN	None	6996	None	None	88183209	88199869	-1	None	None
5	MEF2C	ENSG00000081189	ENST00000504921	protein_coding	KNOWN	None	6996	1422	473	88014058	88179302	-1	None	None
5	MEF2C	ENSG00000081189	ENST00000539796	protein_coding	KNOWN	CCDS54877	6996	1254	417	88018421	88119605	-1	None	None
17	None	ENSG00000267261	ENST00000585562	nonsense_mediated_decay	KNOWN	None	None	84	27	40271692	40277884	-1	None	None
17	None	ENSG00000267261	ENST00000592248	nonsense_mediated_decay	KNOWN	None	None	486	161	40271692	40282582	-1	None	None
17	None	ENSG00000267261	ENST00000592574	protein_coding	PUTATIVE	None	None	846	281	40271692	40306934	-1	None	None
10	None	ENSG00000202508	ENST00000365638	misc_RNA	NOVEL	None	None	None	None	13553206	13553313	-1	None	None
7	ST7-OT4	ENSG00000214188	ENST00000397750	protein_coding	PUTATIVE	None	18835	510	169	116593953	116599871	1	ST7OT4	NCRNA00042
7	ST7-OT4	ENSG00000214188	ENST00000466018	processed_transcript	KNOWN	None	18835	None	None	116594293	116608628	1	ST7OT4	NCRNA00042
7	ST7-OT4	ENSG00000214188	ENST00000471110	processed_transcript	KNOWN	None	18835	None	None	116594517	116738860	1	ST7OT4	NCRNA00042
7	ST7-OT4	ENSG00000214188	ENST00000470996	processed_transcript	KNOWN	None	18835	None	None	116594674	116608628	1	ST7OT4	NCRNA00042
7	ST7-OT4	ENSG00000214188	ENST00000397751	protein_coding	PUTATIVE	None	18835	483	160	116595028	116608628	1	ST7OT4	NCRNA00042
7	ST7-OT4	ENSG00000214188	ENST00000597499	protein_coding	PUTATIVE	None	18835	82	26	116596704	116597176	1	ST7OT4	NCRNA00042
16	RNU6-103P	ENSG00000200556	ENST00000363686	snRNA	KNOWN	None	47066	None	None	58530812	58530918	1	None	None
16	SNORA46	ENSG00000207493	ENST00000384762	snoRNA	KNOWN	None	32639	None	None	58582403	58582537	-1	None	ACA46
22	RHBDD3	ENSG00000100263	ENST00000216085	protein_coding	KNOWN	CCDS13850	1308	1161	386	29655841	29663967	-1	C22orf3	PTAG
22	RHBDD3	ENSG00000100263	ENST00000413137	nonsense_mediated_decay	KNOWN	None	1308	270	89	29655893	29663934	-1	C22orf3	PTAG
22	RHBDD3	ENSG00000100263	ENST00000496342	retained_intron	KNOWN	None	1308	None	None	29656488	29660390	-1	C22orf3	PTAG
22	RHBDD3	ENSG00000100263	ENST00000414672	protein_coding	KNOWN	None	1308	585	194	29656801	29664198	-1	C22orf3	PTAG
22	RHBDD3	ENSG00000100263	ENST00000406335	protein_coding	KNOWN	None	1308	410	135	29659946	29663717	-1	C22orf3	PTAG
22	RHBDD3	ENSG00000100263	ENST00000493894	retained_intron	KNOWN	None	1308	None	None	29661024	29663949	-1	C22orf3	PTAG
22	RHBDD3	ENSG00000100263	ENST00000488106	retained_intron	KNOWN	None	1308	None	None	29661435	29663910	-1	C22orf3	PTAG
5	PCDHB15	ENSG00000113248	ENST00000231173	protein_coding	KNOWN	CCDS4257	8686	2364	787	140625147	140627799	1	None	PCDH-BETA15
7	GNG11	ENSG00000127920	ENST00000248564	protein_coding	KNOWN	CCDS5634	4403	222	73	93551011	93555831	1	None	GNGT11
3	GALNT15	ENSG00000131386	ENST00000339732	protein_coding	KNOWN	CCDS33711	21531	1920	639	16216156	16271253	1	GALNTL2	GALNT7, pp-GalNAc-T15
3	GALNT15	ENSG00000131386	ENST00000437509	protein_coding	PUTATIVE	None	21531	1854	617	16216216	16273499	1	GALNTL2	GALNT7, pp-GalNAc-T15
3	GALNT15	ENSG00000131386	ENST00000470031	processed_transcript	PUTATIVE	None	21531	None	None	16216924	16224760	1	GALNTL2	GALNT7, pp-GalNAc-T15
3	GALNT15	ENSG00000131386	ENST00000430410	nonsense_mediated_decay	KNOWN	None	21531	426	141	16217172	16250152	1	GALNTL2	GALNT7, pp-GalNAc-T15
3	GALNT15	ENSG00000131386	ENST00000489467	retained_intron	KNOWN	None	21531	None	None	16254205	16261756	1	GALNTL2	GALNT7, pp-GalNAc-T15
HSCHR6_MHC_COX	OR2AD1P	ENSG00000227626	ENST00000454657	unprocessed_pseudogene	KNOWN	None	14749	None	None	28991069	28991996	-1	None	OR2AD1, hs6M1-8P
HSCHR6_MHC_SSTO	DHX16	ENSG00000226171	ENST00000445379	protein_coding	KNOWN	None	2739	1683	560	30612310	30621206	-1	DDX16	DBP2, Prp2, PRPF2
HSCHR6_MHC_SSTO	DHX16	ENSG00000226171	ENST00000421095	protein_coding	KNOWN	None	2739	3126	1041	30612310	30632260	-1	DDX16	DBP2, Prp2, PRPF2
HSCHR6_MHC_SSTO	DHX16	ENSG00000226171	ENST00000481393	processed_transcript	KNOWN	None	2739	None	None	30618695	30619800	-1	DDX16	DBP2, Prp2, PRPF2
HSCHR6_MHC_SSTO	DHX16	ENSG00000226171	ENST00000436662	protein_coding	KNOWN	None	2739	886	294	30624353	30632211	-1	DDX16	DBP2, Prp2, PRPF2
10	None	ENSG00000227175	ENST00000438431	antisense	KNOWN	None	None	None	None	13570516	13572262	1	None	None
HSCHR6_MHC_COX	OR2P1P	ENSG00000225838	ENST00000437015	unprocessed_pseudogene	KNOWN	None	8272	None	None	29036212	29036984	-1	None	hs6M1-26
12	DHX37	ENSG00000150990	ENST00000542400	retained_intron	KNOWN	None	17210	None	None	125431371	125438286	-1	DDX37	KIAA1517, MGC4322, MGC2695
12	DHX37	ENSG00000150990	ENST00000539298	retained_intron	KNOWN	None	17210	None	None	125431372	125473668	-1	DDX37	KIAA1517, MGC4322, MGC2695
12	DHX37	ENSG00000150990	ENST00000544745	protein_coding	PUTATIVE	None	17210	2889	962	125431377	125465244	-1	DDX37	KIAA1517, MGC4322, MGC2695
12	DHX37	ENSG00000150990	ENST00000507267	retained_intron	KNOWN	None	17210	None	None	125432147	125433161	-1	DDX37	KIAA1517, MGC4322, MGC2695
12	DHX37	ENSG00000150990	ENST00000543962	protein_coding	PUTATIVE	None	17210	401	132	125448939	125451551	-1	DDX37	KIAA1517, MGC4322, MGC2695
12	DHX37	ENSG00000150990	ENST00000308736	protein_coding	KNOWN	CCDS9261	17210	3474	1157	125431373	125473667	-1	DDX37	KIAA1517, MGC4322, MGC2695
16	SNORA50	ENSG00000206952	ENST00000384225	snoRNA	KNOWN	None	32643	None	None	58593700	58593835	-1	None	ACA50
1	IFI6	ENSG00000126709	ENST00000361157	protein_coding	KNOWN	CCDS306	4054	393	130	27992572	27998729	-1	G1P3	IFI616, FAM14C, 6-16, IFI-6-16
1	IFI6	ENSG00000126709	ENST00000339145	protein_coding	KNOWN	CCDS308	4054	417	138	27992575	27998689	-1	G1P3	IFI616, FAM14C, 6-16, IFI-6-16
1	IFI6	ENSG00000126709	ENST00000362020	protein_coding	KNOWN	CCDS307	4054	405	134	27992577	27998709	-1	G1P3	IFI616, FAM14C, 6-16, IFI-6-16
16	None	ENSG00000260865	ENST00000566916	transcribed_processed_pseudogene	KNOWN	None	None	None	None	58631493	58631849	-1	None	None
16	CDH11	ENSG00000140937	ENST00000394156	protein_coding	KNOWN	None	1750	2082	693	64977656	65155939	-1	None	OB, CAD11
16	CDH11	ENSG00000140937	ENST00000268603	protein_coding	KNOWN	CCDS10803	1750	2391	796	64977656	65156101	-1	None	OB, CAD11
16	CDH11	ENSG00000140937	ENST00000566827	protein_coding	NOVEL	None	1750	2013	670	64981450	65155833	-1	None	OB, CAD11
16	CDH11	ENSG00000140937	ENST00000569095	processed_transcript	KNOWN	None	1750	None	None	65002337	65006852	-1	None	OB, CAD11
16	CDH11	ENSG00000140937	ENST00000569128	retained_intron	KNOWN	None	1750	None	None	65025246	65032532	-1	None	OB, CAD11
16	CDH11	ENSG00000140937	ENST00000567934	protein_coding	KNOWN	None	1750	666	221	65025816	65106163	-1	None	OB, CAD11
16	CDH11	ENSG00000140937	ENST00000569624	processed_transcript	PUTATIVE	None	1750	None	None	65038545	65158195	-1	None	OB, CAD11
16	CDH11	ENSG00000140937	ENST00000562998	protein_coding	KNOWN	None	1750	210	69	65038563	65155968	-1	None	OB, CAD11
16	CDH11	ENSG00000140937	ENST00000564317	protein_coding	KNOWN	None	1750	197	64	65038576	65156268	-1	None	OB, CAD11
16	CDH11	ENSG00000140937	ENST00000562712	protein_coding	KNOWN	None	1750	161	52	65038612	65093581	-1	None	OB, CAD11
16	CDH11	ENSG00000140937	ENST00000562882	protein_coding	KNOWN	None	1750	104	33	65038669	65106116	-1	None	OB, CAD11
16	CDH11	ENSG00000140937	ENST00000562325	protein_coding	KNOWN	None	1750	67	21	65038706	65155995	-1	None	OB, CAD11
16	CDH11	ENSG00000140937	ENST00000568340	processed_transcript	KNOWN	None	1750	None	None	65038756	65158189	-1	None	OB, CAD11
16	CDH11	ENSG00000140937	ENST00000565210	processed_transcript	PUTATIVE	None	1750	None	None	65040765	65155949	-1	None	OB, CAD11
16	CDH11	ENSG00000140937	ENST00000563492	processed_transcript	PUTATIVE	None	1750	None	None	65087707	65160015	-1	None	OB, CAD11
16	CDH11	ENSG00000140937	ENST00000563255	processed_transcript	PUTATIVE	None	1750	None	None	65087802	65158091	-1	None	OB, CAD11
16	CDH11	ENSG00000140937	ENST00000564770	processed_transcript	PUTATIVE	None	1750	None	None	65128510	65155918	-1	None	OB, CAD11
16	CDH11	ENSG00000140937	ENST00000569783	processed_transcript	PUTATIVE	None	1750	None	None	65152704	65155960	-1	None	OB, CAD11
10	None	ENSG00000227474	ENST00000445338	processed_pseudogene	KNOWN	None	None	None	None	13633460	13634323	-1	None	None
6	None	ENSG00000233967	ENST00000452402	lincRNA	KNOWN	None	None	None	None	81153061	81175644	1	None	None
6	None	ENSG00000233967	ENST00000427048	lincRNA	KNOWN	None	None	None	None	81153107	81172770	1	None	None
6	None	ENSG00000233967	ENST00000443221	lincRNA	KNOWN	None	None	None	None	81162916	81172924	1	None	None
6	None	ENSG00000233183	ENST00000526556	lincRNA	KNOWN	None	None	None	None	33861100	33882187	1	None	None
6	None	ENSG00000233183	ENST00000451317	lincRNA	KNOWN	None	None	None	None	33868132	33895408	1	None	None
6	None	ENSG00000233183	ENST00000530000	lincRNA	KNOWN	None	None	None	None	33878879	33885985	1	None	None
10	C10orf90	ENSG00000154493	ENST00000424927	protein_coding	NOVEL	None	26563	728	241	128113566	128192687	-1	None	FLJ32938, bA422P15.2, FATS
10	C10orf90	ENSG00000154493	ENST00000480379	protein_coding	PUTATIVE	None	26563	312	103	128114121	128151945	-1	None	FLJ32938, bA422P15.2, FATS
10	C10orf90	ENSG00000154493	ENST00000356858	protein_coding	KNOWN	None	26563	1983	660	128114337	128209428	-1	None	FLJ32938, bA422P15.2, FATS
10	C10orf90	ENSG00000154493	ENST00000432642	protein_coding	KNOWN	None	26563	1986	661	128114635	128210010	-1	None	FLJ32938, bA422P15.2, FATS
10	C10orf90	ENSG00000154493	ENST00000368674	processed_transcript	KNOWN	None	26563	None	None	128191229	128213392	-1	None	FLJ32938, bA422P15.2, FATS
10	C10orf90	ENSG00000154493	ENST00000488181	protein_coding	PUTATIVE	None	26563	627	208	128193001	128359015	-1	None	FLJ32938, bA422P15.2, FATS
10	C10orf90	ENSG00000154493	ENST00000463082	nonsense_mediated_decay	KNOWN	None	26563	120	39	128193443	128210035	-1	None	FLJ32938, bA422P15.2, FATS
10	C10orf90	ENSG00000154493	ENST00000544758	protein_coding	KNOWN	None	26563	2391	796	128114134	128359079	-1	None	FLJ32938, bA422P15.2, FATS
10	C10orf90	ENSG00000154493	ENST00000284694	protein_coding	KNOWN	CCDS31310	26563	2100	699	128113578	128210010	-1	None	FLJ32938, bA422P15.2, FATS
10	C10orf90	ENSG00000154493	ENST00000454341	protein_coding	KNOWN	None	26563	1809	602	128113578	128210010	-1	None	FLJ32938, bA422P15.2, FATS
10	C10orf90	ENSG00000154493	ENST00000392694	protein_coding	KNOWN	None	26563	1152	383	128191354	128210010	-1	None	FLJ32938, bA422P15.2, FATS
16	None	ENSG00000239121	ENST00000458921	snoRNA	NOVEL	None	None	None	None	58652579	58652668	1	None	None
8	None	ENSG00000253350	ENST00000521923	protein_coding	PUTATIVE	None	None	294	97	105602961	105907945	1	None	None
8	None	ENSG00000253350	ENST00000518180	nonsense_mediated_decay	KNOWN	None	None	120	39	105715947	106431488	1	None	None
16	None	ENSG00000245768	ENST00000568134	lincRNA	KNOWN	None	None	None	None	58767816	58896074	1	None	None
16	None	ENSG00000245768	ENST00000500117	lincRNA	KNOWN	None	None	None	None	58783542	59142878	1	None	None
16	None	ENSG00000245768	ENST00000565722	lincRNA	KNOWN	None	None	None	None	58783581	58895985	1	None	None
15	SHF	ENSG00000138606	ENST00000560540	protein_coding	PUTATIVE	None	25116	1104	367	45459412	45480154	-1	None	None
15	SHF	ENSG00000138606	ENST00000290894	protein_coding	KNOWN	CCDS10120	25116	1272	423	45459412	45493373	-1	None	None
15	SHF	ENSG00000138606	ENST00000560734	protein_coding	PUTATIVE	None	25116	873	290	45459449	45480150	-1	None	None
15	SHF	ENSG00000138606	ENST00000458022	protein_coding	PUTATIVE	None	25116	720	239	45459911	45473405	-1	None	None
15	SHF	ENSG00000138606	ENST00000558294	protein_coding	NOVEL	None	25116	491	162	45460032	45467524	-1	None	None
15	SHF	ENSG00000138606	ENST00000561239	protein_coding	PUTATIVE	None	25116	484	160	45462406	45465856	-1	None	None
15	SHF	ENSG00000138606	ENST00000560471	protein_coding	PUTATIVE	None	25116	1245	414	45462864	45480153	-1	None	None
15	SHF	ENSG00000138606	ENST00000559566	protein_coding	PUTATIVE	None	25116	599	198	45463792	45470458	-1	None	None
15	SHF	ENSG00000138606	ENST00000558685	protein_coding	PUTATIVE	None	25116	440	145	45464044	45467467	-1	None	None
15	SHF	ENSG00000138606	ENST00000561091	processed_transcript	KNOWN	None	25116	None	None	45466421	45479657	-1	None	None
15	SHF	ENSG00000138606	ENST00000561278	protein_coding	PUTATIVE	None	25116	80	25	45467578	45493314	-1	None	None
15	SHF	ENSG00000138606	ENST00000318390	protein_coding	KNOWN	None	25116	1302	433	45459428	45493069	-1	None	None
5	SLC25A2	ENSG00000120329	ENST00000239451	protein_coding	KNOWN	CCDS4258	22921	906	301	140682196	140683612	-1	None	ORNT2
6	None	ENSG00000260645	ENST00000569267	lincRNA	KNOWN	None	None	None	None	81176675	81178797	1	None	None
1	TMEM51	ENSG00000171729	ENST00000376014	protein_coding	KNOWN	CCDS154	25488	762	253	15479062	15546835	1	C1orf72	FLJ10199
1	TMEM51	ENSG00000171729	ENST00000451326	protein_coding	KNOWN	None	25488	365	120	15479073	15545842	1	C1orf72	FLJ10199
1	TMEM51	ENSG00000171729	ENST00000400796	protein_coding	KNOWN	CCDS154	25488	762	253	15480229	15546904	1	C1orf72	FLJ10199
1	TMEM51	ENSG00000171729	ENST00000434578	protein_coding	PUTATIVE	None	25488	408	135	15480264	15546889	1	C1orf72	FLJ10199
1	TMEM51	ENSG00000171729	ENST00000376008	protein_coding	KNOWN	CCDS154	25488	762	253	15480285	15546976	1	C1orf72	FLJ10199
1	TMEM51	ENSG00000171729	ENST00000428417	protein_coding	KNOWN	CCDS154	25488	762	253	15479028	15546973	1	C1orf72	FLJ10199
HSCHR6_MHC_COX	None	ENSG00000226657	ENST00000445789	processed_pseudogene	KNOWN	None	None	None	None	29040961	29041556	-1	None	None
16	None	ENSG00000262528	ENST00000573609	antisense	KNOWN	None	None	None	None	705034	706194	-1	None	None
11	FZD4	ENSG00000174804	ENST00000531380	protein_coding	KNOWN	CCDS8279	4042	1614	537	86656721	86666433	-1	EVR1	CD344
6	None	ENSG00000219361	ENST00000407020	processed_pseudogene	KNOWN	None	None	None	None	81179788	81180145	-1	None	None
X	KRBOX4	ENSG00000147121	ENST00000344302	protein_coding	KNOWN	CCDS48097	26007	516	171	46306292	46334074	1	ZNF673	FLJ20344
X	KRBOX4	ENSG00000147121	ENST00000298190	protein_coding	KNOWN	CCDS14267	26007	501	166	46306727	46333104	1	ZNF673	FLJ20344
X	KRBOX4	ENSG00000147121	ENST00000377919	protein_coding	KNOWN	CCDS48098	26007	297	98	46306729	46331961	1	ZNF673	FLJ20344
X	KRBOX4	ENSG00000147121	ENST00000464900	retained_intron	KNOWN	None	26007	None	None	46306732	46308103	1	ZNF673	FLJ20344
X	KRBOX4	ENSG00000147121	ENST00000476762	protein_coding	PUTATIVE	None	26007	394	130	46306732	46322884	1	ZNF673	FLJ20344
X	KRBOX4	ENSG00000147121	ENST00000478600	protein_coding	PUTATIVE	None	26007	282	93	46306732	46356857	1	ZNF673	FLJ20344
X	KRBOX4	ENSG00000147121	ENST00000487081	protein_coding	KNOWN	CCDS48098	26007	297	98	46307668	46333029	1	ZNF673	FLJ20344
X	KRBOX4	ENSG00000147121	ENST00000360017	protein_coding	KNOWN	CCDS48098	26007	297	98	46306624	46334073	1	ZNF673	FLJ20344
4	None	ENSG00000251442	ENST00000503259	lincRNA	KNOWN	None	None	None	None	79567057	79584458	1	None	None
4	None	ENSG00000251442	ENST00000507802	lincRNA	KNOWN	None	None	None	None	79567148	79602049	1	None	None
4	None	ENSG00000251442	ENST00000514130	lincRNA	KNOWN	None	None	None	None	79567243	79584298	1	None	None
4	None	ENSG00000251442	ENST00000503539	lincRNA	KNOWN	None	None	None	None	79567338	79603817	1	None	None
4	None	ENSG00000251442	ENST00000504675	lincRNA	KNOWN	None	None	None	None	79567340	79603546	1	None	None
4	None	ENSG00000251442	ENST00000512322	lincRNA	KNOWN	None	None	None	None	79567371	79603853	1	None	None
11	VWCE	ENSG00000167992	ENST00000301770	nonsense_mediated_decay	KNOWN	None	26487	660	219	61025762	61062563	-1	None	URG11, FLJ32009, VWC1
11	VWCE	ENSG00000167992	ENST00000335613	protein_coding	KNOWN	CCDS8002	26487	2868	955	61025762	61062896	-1	None	URG11, FLJ32009, VWC1
11	VWCE	ENSG00000167992	ENST00000535710	protein_coding	PUTATIVE	None	26487	1263	420	61026096	61041278	-1	None	URG11, FLJ32009, VWC1
11	VWCE	ENSG00000167992	ENST00000538438	retained_intron	KNOWN	None	26487	None	None	61026553	61036889	-1	None	URG11, FLJ32009, VWC1
11	VWCE	ENSG00000167992	ENST00000398808	retained_intron	KNOWN	None	26487	None	None	61038637	61040791	-1	None	URG11, FLJ32009, VWC1
11	VWCE	ENSG00000167992	ENST00000535599	nonsense_mediated_decay	KNOWN	None	26487	522	173	61049970	61062567	-1	None	URG11, FLJ32009, VWC1
11	VWCE	ENSG00000167992	ENST00000538579	retained_intron	KNOWN	None	26487	None	None	61053735	61062498	-1	None	URG11, FLJ32009, VWC1
HSCHR6_MHC_QBL	COL11A2	ENSG00000206290	ENST00000383219	protein_coding	KNOWN	None	2187	4953	1650	33059284	33089101	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_QBL	COL11A2	ENSG00000206290	ENST00000433947	protein_coding	KNOWN	None	2187	1001	332	33059298	33074496	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_QBL	COL11A2	ENSG00000206290	ENST00000420405	protein_coding	KNOWN	None	2187	1872	623	33074735	33089069	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_QBL	COL11A2	ENSG00000206290	ENST00000383088	protein_coding	KNOWN	None	2187	873	290	33083047	33089056	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_QBL	COL11A2	ENSG00000206290	ENST00000548739	protein_coding	KNOWN	None	2187	5133	1710	33059295	33089070	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_QBL	COL11A2	ENSG00000206290	ENST00000553240	protein_coding	KNOWN	None	2187	5148	1715	33059295	33089070	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_QBL	COL11A2	ENSG00000206290	ENST00000550101	protein_coding	KNOWN	None	2187	5070	1689	33059295	33089070	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_QBL	COL11A2	ENSG00000206290	ENST00000547561	protein_coding	KNOWN	None	2187	4968	1655	33059295	33089070	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_QBL	COL11A2	ENSG00000206290	ENST00000549491	protein_coding	KNOWN	None	2187	4890	1629	33059295	33089070	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_QBL	COL11A2	ENSG00000206290	ENST00000552971	protein_coding	KNOWN	None	2187	5031	1676	33059295	33089070	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_QBL	COL11A2	ENSG00000206290	ENST00000549836	protein_coding	KNOWN	None	2187	5211	1736	33059295	33089070	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_QBL	COL11A2	ENSG00000206290	ENST00000549290	protein_coding	KNOWN	None	2187	921	306	33059295	33074416	-1	DFNA13, DFNB53	HKE5
5	MTND6P3	ENSG00000254132	ENST00000520612	processed_pseudogene	KNOWN	None	39466	None	None	93904634	93905175	-1	None	None
17	FBXO39	ENSG00000177294	ENST00000321535	protein_coding	KNOWN	CCDS11082	28565	1329	442	6679542	6690965	1	None	MGC35179, Fbx39
17	FBXO39	ENSG00000177294	ENST00000572251	nonsense_mediated_decay	KNOWN	None	28565	151	49	6690134	6699954	1	None	MGC35179, Fbx39
17	FBXO39	ENSG00000177294	ENST00000575022	nonsense_mediated_decay	KNOWN	None	28565	111	36	6690189	6700420	1	None	MGC35179, Fbx39
5	TAF7	ENSG00000178913	ENST00000313368	protein_coding	KNOWN	CCDS4259	11541	1050	349	140698057	140700330	-1	TAF2F	TAFII55
17	HSPB9	ENSG00000197723	ENST00000355067	protein_coding	KNOWN	CCDS11418	30589	480	159	40274756	40275371	1	None	CT51
16	None	ENSG00000260394	ENST00000567091	antisense	KNOWN	None	None	None	None	728504	729777	-1	None	None
16	None	ENSG00000260394	ENST00000571933	antisense	KNOWN	None	None	None	None	728518	729737	-1	None	None
10	None	ENSG00000268549	ENST00000600850	antisense	KNOWN	None	None	None	None	13724521	13726874	1	None	None
4	None	ENSG00000250344	ENST00000507782	lincRNA	KNOWN	None	None	None	None	121992584	122001631	1	None	None
6	None	ENSG00000181705	ENST00000326971	processed_pseudogene	KNOWN	None	None	None	None	81208913	81209109	-1	None	None
20	OGFR	ENSG00000060491	ENST00000290291	protein_coding	KNOWN	CCDS13504	15768	2034	677	61436187	61445352	1	None	7-60
20	OGFR	ENSG00000060491	ENST00000370468	protein_coding	KNOWN	None	15768	1386	461	61436187	61445352	1	None	7-60
20	OGFR	ENSG00000060491	ENST00000370461	protein_coding	KNOWN	None	15768	1878	625	61437238	61445352	1	None	7-60
20	OGFR	ENSG00000060491	ENST00000450048	protein_coding	KNOWN	None	15768	283	93	61438625	61441912	1	None	7-60
19	ZNF418	ENSG00000196724	ENST00000595830	protein_coding	KNOWN	CCDS42642	20647	2031	676	58433252	58445331	-1	None	KIAA1956, FLJ31551
19	ZNF418	ENSG00000196724	ENST00000396147	protein_coding	KNOWN	CCDS42642	20647	2031	676	58433252	58446740	-1	None	KIAA1956, FLJ31551
19	ZNF418	ENSG00000196724	ENST00000599086	processed_transcript	PUTATIVE	None	20647	None	None	58433629	58437162	-1	None	KIAA1956, FLJ31551
19	ZNF418	ENSG00000196724	ENST00000598213	processed_transcript	KNOWN	None	20647	None	None	58433629	58446722	-1	None	KIAA1956, FLJ31551
19	ZNF418	ENSG00000196724	ENST00000425570	protein_coding	PUTATIVE	None	20647	2094	697	58433634	58446755	-1	None	KIAA1956, FLJ31551
19	ZNF418	ENSG00000196724	ENST00000600989	protein_coding	PUTATIVE	None	20647	387	128	58433799	58446544	-1	None	KIAA1956, FLJ31551
19	ZNF418	ENSG00000196724	ENST00000599852	protein_coding	PUTATIVE	None	20647	1776	591	58437138	58446751	-1	None	KIAA1956, FLJ31551
19	ZNF418	ENSG00000196724	ENST00000601593	protein_coding	KNOWN	None	20647	296	97	58439256	58446761	-1	None	KIAA1956, FLJ31551
19	ZNF418	ENSG00000196724	ENST00000593296	protein_coding	KNOWN	None	20647	279	92	58439273	58445605	-1	None	KIAA1956, FLJ31551
19	ZNF418	ENSG00000196724	ENST00000595569	protein_coding	KNOWN	None	20647	221	72	58439346	58446748	-1	None	KIAA1956, FLJ31551
19	ZNF418	ENSG00000196724	ENST00000600353	processed_transcript	KNOWN	None	20647	None	None	58446183	58446742	-1	None	KIAA1956, FLJ31551
4	None	ENSG00000271302	ENST00000603636	processed_pseudogene	KNOWN	None	None	None	None	122039454	122039889	1	None	None
6	None	ENSG00000216352	ENST00000403828	processed_pseudogene	KNOWN	None	None	None	None	81265558	81266906	-1	None	None
12	MANSC4	ENSG00000205693	ENST00000381273	protein_coding	NOVEL	CCDS53770	40023	1023	340	27915671	27924209	-1	None	None
9	ZFP37	ENSG00000136866	ENST00000374227	protein_coding	KNOWN	CCDS6787	12863	1893	630	115800660	115818996	-1	None	ZNF906
9	ZFP37	ENSG00000136866	ENST00000555206	protein_coding	KNOWN	None	12863	1896	631	115804521	115819039	-1	None	ZNF906
9	ZFP37	ENSG00000136866	ENST00000553380	protein_coding	KNOWN	None	12863	1938	645	115804974	115818968	-1	None	ZNF906
7	BET1	ENSG00000105829	ENST00000357520	nonsense_mediated_decay	KNOWN	None	14562	384	127	93592074	93633667	-1	None	hbet1
7	BET1	ENSG00000105829	ENST00000471446	processed_transcript	KNOWN	None	14562	None	None	93601695	93625633	-1	None	hbet1
7	BET1	ENSG00000105829	ENST00000222547	protein_coding	KNOWN	CCDS5635	14562	357	118	93622554	93633687	-1	None	hbet1
7	BET1	ENSG00000105829	ENST00000433727	protein_coding	PUTATIVE	None	14562	252	83	93622572	93633673	-1	None	hbet1
7	BET1	ENSG00000105829	ENST00000457139	protein_coding	NOVEL	None	14562	400	132	93622585	93629031	-1	None	hbet1
7	BET1	ENSG00000105829	ENST00000425626	protein_coding	PUTATIVE	None	14562	297	98	93625343	93633694	-1	None	hbet1
HSCHR6_MHC_COX	OR2J1	ENSG00000234804	ENST00000454687	unprocessed_pseudogene	KNOWN	None	8259	None	None	29065391	29066329	1	OR2J1P	OR6-5, hs6M1-4, dJ80I19.2
16	YPEL3	ENSG00000090238	ENST00000570099	nonsense_mediated_decay	KNOWN	None	18327	95	30	30103635	30106201	-1	None	MGC10500
16	YPEL3	ENSG00000090238	ENST00000398841	protein_coding	KNOWN	CCDS42147	18327	474	157	30103635	30107521	-1	None	MGC10500
16	YPEL3	ENSG00000090238	ENST00000565479	processed_transcript	KNOWN	None	18327	None	None	30103635	30107526	-1	None	MGC10500
16	YPEL3	ENSG00000090238	ENST00000566134	protein_coding	PUTATIVE	None	18327	228	75	30103661	30107491	-1	None	MGC10500
16	YPEL3	ENSG00000090238	ENST00000398838	protein_coding	KNOWN	CCDS45459	18327	360	119	30103670	30107565	-1	None	MGC10500
16	YPEL3	ENSG00000090238	ENST00000563788	protein_coding	KNOWN	CCDS45459	18327	360	119	30103898	30108236	-1	None	MGC10500
16	YPEL3	ENSG00000090238	ENST00000566595	protein_coding	KNOWN	CCDS45459	18327	360	119	30103958	30108233	-1	None	MGC10500
16	YPEL3	ENSG00000090238	ENST00000565110	protein_coding	KNOWN	None	18327	309	102	30104082	30107516	-1	None	MGC10500
16	YPEL3	ENSG00000090238	ENST00000568674	processed_transcript	KNOWN	None	18327	None	None	30104099	30107529	-1	None	MGC10500
16	YPEL3	ENSG00000090238	ENST00000568681	retained_intron	KNOWN	None	18327	None	None	30105066	30106909	-1	None	MGC10500
16	YPEL3	ENSG00000090238	ENST00000562641	protein_coding	PUTATIVE	None	18327	414	137	30105083	30107333	-1	None	MGC10500
16	YPEL3	ENSG00000090238	ENST00000566401	nonsense_mediated_decay	KNOWN	None	18327	165	54	30106174	30107562	-1	None	MGC10500
HSCHR6_MHC_DBB	FLOT1	ENSG00000206379	ENST00000493620	retained_intron	KNOWN	None	3757	None	None	30685747	30698892	-1	None	None
HSCHR6_MHC_DBB	FLOT1	ENSG00000206379	ENST00000383382	protein_coding	KNOWN	None	3757	1284	427	30685747	30700772	-1	None	None
HSCHR6_MHC_DBB	FLOT1	ENSG00000206379	ENST00000422636	protein_coding	KNOWN	None	3757	716	237	30688957	30700346	-1	None	None
HSCHR6_MHC_DBB	FLOT1	ENSG00000206379	ENST00000476576	retained_intron	KNOWN	None	3757	None	None	30689029	30698833	-1	None	None
HSCHR6_MHC_DBB	FLOT1	ENSG00000206379	ENST00000454249	protein_coding	KNOWN	None	3757	757	251	30689105	30700539	-1	None	None
HSCHR6_MHC_DBB	FLOT1	ENSG00000206379	ENST00000460694	processed_transcript	KNOWN	None	3757	None	None	30698197	30700771	-1	None	None
HSCHR6_MHC_DBB	FLOT1	ENSG00000206379	ENST00000438134	protein_coding	KNOWN	None	3757	435	144	30698200	30700396	-1	None	None
HSCHR6_MHC_DBB	FLOT1	ENSG00000206379	ENST00000421565	protein_coding	KNOWN	None	3757	705	234	30698215	30700315	-1	None	None
HSCHR6_MHC_DBB	FLOT1	ENSG00000206379	ENST00000482241	retained_intron	KNOWN	None	3757	None	None	30698293	30700745	-1	None	None
HSCHR6_MHC_DBB	FLOT1	ENSG00000206379	ENST00000416389	protein_coding	KNOWN	None	3757	578	191	30698294	30700242	-1	None	None
HSCHR6_MHC_DBB	FLOT1	ENSG00000206379	ENST00000439743	protein_coding	KNOWN	None	3757	557	184	30698548	30700563	-1	None	None
HSCHR6_MHC_DBB	FLOT1	ENSG00000206379	ENST00000481740	retained_intron	KNOWN	None	3757	None	None	30699393	30700716	-1	None	None
1	None	ENSG00000269064	ENST00000600581	protein_coding	NOVEL	None	None	129	42	179443716	179457805	-1	None	None
10	ASAH2B	ENSG00000204147	ENST00000374007	protein_coding	KNOWN	None	23456	483	160	52499078	52516948	1	None	bA449O16.3, ASAH2L
10	ASAH2B	ENSG00000204147	ENST00000374006	protein_coding	KNOWN	CCDS31203	23456	498	165	52499708	52514569	1	None	bA449O16.3, ASAH2L
10	ASAH2B	ENSG00000204147	ENST00000483649	processed_transcript	KNOWN	None	23456	None	None	52499712	52576255	1	None	bA449O16.3, ASAH2L
10	ASAH2B	ENSG00000204147	ENST00000185907	protein_coding	KNOWN	None	23456	483	160	52499696	52515125	1	None	bA449O16.3, ASAH2L
HSCHR6_MHC_MANN	PSMB8	ENSG00000236443	ENST00000469729	retained_intron	KNOWN	None	9545	None	None	32962293	32963610	-1	LMP7	RING10, D6S216E, PSMB5i, beta5i
HSCHR6_MHC_MANN	PSMB8	ENSG00000236443	ENST00000427919	protein_coding	KNOWN	None	9545	759	252	32962293	32965596	-1	LMP7	RING10, D6S216E, PSMB5i, beta5i
HSCHR6_MHC_MANN	PSMB8	ENSG00000236443	ENST00000421445	protein_coding	KNOWN	None	9545	831	276	32962293	32965623	-1	LMP7	RING10, D6S216E, PSMB5i, beta5i
HSCHR6_MHC_MANN	PSMB8	ENSG00000236443	ENST00000452573	protein_coding	KNOWN	None	9545	819	272	32962293	32966279	-1	LMP7	RING10, D6S216E, PSMB5i, beta5i
HSCHR6_MHC_MANN	PSMB8	ENSG00000236443	ENST00000460122	retained_intron	KNOWN	None	9545	None	None	32962597	32966227	-1	LMP7	RING10, D6S216E, PSMB5i, beta5i
5	KIF20A	ENSG00000112984	ENST00000513276	protein_coding	KNOWN	None	9787	478	158	137514408	137518114	1	RAB6KIFL	None
5	KIF20A	ENSG00000112984	ENST00000394894	protein_coding	KNOWN	CCDS4199	9787	2673	890	137514687	137523404	1	RAB6KIFL	None
5	KIF20A	ENSG00000112984	ENST00000508792	protein_coding	NOVEL	None	9787	2619	872	137514849	137523354	1	RAB6KIFL	None
5	KIF20A	ENSG00000112984	ENST00000511638	retained_intron	KNOWN	None	9787	None	None	137514857	137517393	1	RAB6KIFL	None
5	KIF20A	ENSG00000112984	ENST00000503417	retained_intron	KNOWN	None	9787	None	None	137514858	137517585	1	RAB6KIFL	None
5	KIF20A	ENSG00000112984	ENST00000504621	protein_coding	KNOWN	None	9787	676	224	137514910	137518436	1	RAB6KIFL	None
5	KIF20A	ENSG00000112984	ENST00000502338	nonsense_mediated_decay	KNOWN	None	9787	249	82	137520517	137522932	1	RAB6KIFL	None
20	ANKEF1	ENSG00000132623	ENST00000378392	protein_coding	KNOWN	CCDS13108	15803	2331	776	10015689	10036470	1	ANKRD5	FLJ21669, dJ839B4.6
20	ANKEF1	ENSG00000132623	ENST00000378380	protein_coding	KNOWN	CCDS13108	15803	2331	776	10015697	10037410	1	ANKRD5	FLJ21669, dJ839B4.6
20	ANKEF1	ENSG00000132623	ENST00000488991	processed_transcript	KNOWN	None	15803	None	None	10015765	10036475	1	ANKRD5	FLJ21669, dJ839B4.6
2	STON1-GTF2A1L	ENSG00000068781	ENST00000405008	protein_coding	KNOWN	CCDS1840	30651	3549	1182	48757064	48906742	1	None	SALF
2	STON1-GTF2A1L	ENSG00000068781	ENST00000402114	protein_coding	PUTATIVE	CCDS56118	30651	3477	1158	48757064	49003654	1	None	SALF
2	STON1-GTF2A1L	ENSG00000068781	ENST00000394754	protein_coding	KNOWN	CCDS1840	30651	3549	1182	48796159	48906742	1	None	SALF
2	STON1-GTF2A1L	ENSG00000068781	ENST00000463040	processed_transcript	PUTATIVE	None	30651	None	None	48996093	49003620	1	None	SALF
2	STON1-GTF2A1L	ENSG00000068781	ENST00000470560	processed_transcript	PUTATIVE	None	30651	None	None	48996101	49003620	1	None	SALF
2	STON1-GTF2A1L	ENSG00000068781	ENST00000309827	protein_coding	KNOWN	CCDS1840	30651	3549	1182	48807724	48906742	1	None	SALF
2	STON1-GTF2A1L	ENSG00000068781	ENST00000394751	protein_coding	KNOWN	CCDS56119	30651	3408	1135	48807746	48906680	1	None	SALF
5	PCDHGA1	ENSG00000204956	ENST00000517417	protein_coding	KNOWN	CCDS54922	8696	2796	931	140710252	140892546	1	None	PCDH-GAMMA-A1
5	PCDHGA1	ENSG00000204956	ENST00000378105	protein_coding	KNOWN	None	8696	2472	823	140710252	140712723	1	None	PCDH-GAMMA-A1
12	ANKRD52	ENSG00000139645	ENST00000548241	processed_transcript	KNOWN	None	26614	None	None	56631591	56638511	-1	None	FLJ34236, PP6-ARS-C
12	ANKRD52	ENSG00000139645	ENST00000267116	protein_coding	KNOWN	CCDS44920	26614	3231	1076	56631591	56652175	-1	None	FLJ34236, PP6-ARS-C
12	ANKRD52	ENSG00000139645	ENST00000548081	retained_intron	KNOWN	None	26614	None	None	56647871	56648868	-1	None	FLJ34236, PP6-ARS-C
12	ANKRD52	ENSG00000139645	ENST00000551023	processed_transcript	KNOWN	None	26614	None	None	56648014	56650852	-1	None	FLJ34236, PP6-ARS-C
1	NPHS2	ENSG00000116218	ENST00000367615	protein_coding	KNOWN	CCDS1331	13394	1152	383	179519674	179545068	-1	None	SRN1, PDCN
1	NPHS2	ENSG00000116218	ENST00000367616	protein_coding	KNOWN	None	13394	948	315	179519674	179545087	-1	None	SRN1, PDCN
1	C1orf195	ENSG00000204464	ENST00000376005	protein_coding	KNOWN	None	32332	381	126	15494970	15497813	-1	None	None
1	C1orf195	ENSG00000204464	ENST00000424792	protein_coding	KNOWN	None	32332	216	71	15490840	15497774	-1	None	None
8	ZFPM2	ENSG00000169946	ENST00000407775	protein_coding	KNOWN	CCDS47908	16700	3456	1151	106330920	106816760	1	None	FOG2, hFOG-2, ZNF89B, ZC2HC11B
8	ZFPM2	ENSG00000169946	ENST00000520492	protein_coding	PUTATIVE	None	16700	3060	1019	106331771	106816098	1	None	FOG2, hFOG-2, ZNF89B, ZC2HC11B
8	ZFPM2	ENSG00000169946	ENST00000520027	protein_coding	PUTATIVE	None	16700	78	25	106370706	106646527	1	None	FOG2, hFOG-2, ZNF89B, ZC2HC11B
8	ZFPM2	ENSG00000169946	ENST00000524235	processed_transcript	KNOWN	None	16700	None	None	106370745	106573650	1	None	FOG2, hFOG-2, ZNF89B, ZC2HC11B
8	ZFPM2	ENSG00000169946	ENST00000511341	processed_transcript	KNOWN	None	16700	None	None	106399374	106801255	1	None	FOG2, hFOG-2, ZNF89B, ZC2HC11B
8	ZFPM2	ENSG00000169946	ENST00000522160	processed_transcript	KNOWN	None	16700	None	None	106431372	106463992	1	None	FOG2, hFOG-2, ZNF89B, ZC2HC11B
8	ZFPM2	ENSG00000169946	ENST00000517361	protein_coding	PUTATIVE	None	16700	3060	1019	106541112	106815825	1	None	FOG2, hFOG-2, ZNF89B, ZC2HC11B
8	ZFPM2	ENSG00000169946	ENST00000522296	processed_transcript	KNOWN	None	16700	None	None	106703118	106815828	1	None	FOG2, hFOG-2, ZNF89B, ZC2HC11B
8	ZFPM2	ENSG00000169946	ENST00000378472	protein_coding	KNOWN	None	16700	2649	882	106800944	106815828	1	None	FOG2, hFOG-2, ZNF89B, ZC2HC11B
5	SLC36A3	ENSG00000186334	ENST00000335230	protein_coding	KNOWN	CCDS4314	19659	1413	470	150656323	150683327	-1	None	PAT3, TRAMD2, tramdorin2
5	SLC36A3	ENSG00000186334	ENST00000423071	retained_intron	KNOWN	None	19659	None	None	150656709	150677825	-1	None	PAT3, TRAMD2, tramdorin2
5	SLC36A3	ENSG00000186334	ENST00000377713	protein_coding	KNOWN	CCDS47316	19659	1536	511	150656912	150683057	-1	None	PAT3, TRAMD2, tramdorin2
10	None	ENSG00000222235	ENST00000410303	miRNA	NOVEL	None	None	None	None	13746978	13747072	1	None	None
9	SLC31A2	ENSG00000136867	ENST00000259392	protein_coding	KNOWN	CCDS6788	11017	432	143	115913222	115926417	1	COPT2	hCTR2, CTR2
9	SLC31A2	ENSG00000136867	ENST00000490809	processed_transcript	KNOWN	None	11017	None	None	115913256	115914596	1	COPT2	hCTR2, CTR2
9	SLC31A2	ENSG00000136867	ENST00000374220	nonsense_mediated_decay	KNOWN	None	11017	222	73	115913310	115926417	1	COPT2	hCTR2, CTR2
10	ADARB2	ENSG00000185736	ENST00000381312	protein_coding	KNOWN	CCDS7058	227	2220	739	1228073	1779670	-1	None	RED2, hRED2, ADAR3
10	ADARB2	ENSG00000185736	ENST00000381310	protein_coding	KNOWN	None	227	747	248	1228074	1246300	-1	None	RED2, hRED2, ADAR3
10	ADARB2	ENSG00000185736	ENST00000474762	processed_transcript	KNOWN	None	227	None	None	1228785	1232506	-1	None	RED2, hRED2, ADAR3
10	ADARB2	ENSG00000185736	ENST00000490172	processed_transcript	KNOWN	None	227	None	None	1228983	1234186	-1	None	RED2, hRED2, ADAR3
10	ADARB2	ENSG00000185736	ENST00000381305	protein_coding	KNOWN	None	227	426	141	1229091	1246325	-1	None	RED2, hRED2, ADAR3
10	ADARB2	ENSG00000185736	ENST00000477140	processed_transcript	KNOWN	None	227	None	None	1245386	1246311	-1	None	RED2, hRED2, ADAR3
10	ADARB2	ENSG00000185736	ENST00000469464	processed_transcript	KNOWN	None	227	None	None	1261616	1282593	-1	None	RED2, hRED2, ADAR3
17	RAB5C	ENSG00000108774	ENST00000346213	protein_coding	KNOWN	CCDS11419	9785	651	216	40276994	40307035	-1	RABL	RAB5CL
17	RAB5C	ENSG00000108774	ENST00000547517	protein_coding	PUTATIVE	CCDS58551	9785	750	249	40277685	40307006	-1	RABL	RAB5CL
17	RAB5C	ENSG00000108774	ENST00000551338	protein_coding	PUTATIVE	None	9785	453	150	40278541	40280777	-1	RABL	RAB5CL
17	RAB5C	ENSG00000108774	ENST00000552162	protein_coding	KNOWN	None	9785	372	123	40280348	40288449	-1	RABL	RAB5CL
17	RAB5C	ENSG00000108774	ENST00000546881	retained_intron	KNOWN	None	9785	None	None	40280569	40307010	-1	RABL	RAB5CL
17	RAB5C	ENSG00000108774	ENST00000550504	protein_coding	KNOWN	None	9785	275	90	40280710	40288502	-1	RABL	RAB5CL
17	RAB5C	ENSG00000108774	ENST00000550406	protein_coding	KNOWN	None	9785	223	73	40280762	40306982	-1	RABL	RAB5CL
17	RAB5C	ENSG00000108774	ENST00000550013	retained_intron	KNOWN	None	9785	None	None	40282179	40307035	-1	RABL	RAB5CL
17	RAB5C	ENSG00000108774	ENST00000393860	protein_coding	KNOWN	CCDS11419	9785	651	216	40276998	40307022	-1	RABL	RAB5CL
9	LCN1	ENSG00000160349	ENST00000263598	protein_coding	KNOWN	CCDS6991	6525	531	176	138413284	138418378	1	None	VEGP, TP, PMFA, MGC71975, TLC
9	LCN1	ENSG00000160349	ENST00000371781	protein_coding	KNOWN	CCDS6991	6525	531	176	138413301	138418378	1	None	VEGP, TP, PMFA, MGC71975, TLC
3	IQCB1	ENSG00000173226	ENST00000310864	protein_coding	KNOWN	CCDS33837	28949	1797	598	121488610	121553926	-1	None	KIAA0036, NPHP5
3	IQCB1	ENSG00000173226	ENST00000349820	protein_coding	KNOWN	CCDS33836	28949	1398	465	121488841	121553881	-1	None	KIAA0036, NPHP5
3	IQCB1	ENSG00000173226	ENST00000393650	nonsense_mediated_decay	KNOWN	None	28949	912	303	121488841	121553926	-1	None	KIAA0036, NPHP5
3	IQCB1	ENSG00000173226	ENST00000460108	protein_coding	PUTATIVE	None	28949	430	142	121514308	121553880	-1	None	KIAA0036, NPHP5
3	IQCB1	ENSG00000173226	ENST00000498104	protein_coding	PUTATIVE	None	28949	254	83	121516035	121553863	-1	None	KIAA0036, NPHP5
3	IQCB1	ENSG00000173226	ENST00000462442	protein_coding	KNOWN	None	28949	263	86	121547317	121553908	-1	None	KIAA0036, NPHP5
3	IQCB1	ENSG00000173226	ENST00000471726	retained_intron	KNOWN	None	28949	None	None	121552783	121553839	-1	None	KIAA0036, NPHP5
17	SOST	ENSG00000167941	ENST00000301691	protein_coding	KNOWN	CCDS11468	13771	642	213	41831099	41836156	-1	None	VBCH
11	ASCL3	ENSG00000176009	ENST00000531618	protein_coding	KNOWN	CCDS7795	740	546	181	8959126	8959758	-1	None	bHLHa42, HASH3, Sgn1
11	ASCL3	ENSG00000176009	ENST00000325884	protein_coding	KNOWN	CCDS7795	740	546	181	8959119	8964580	-1	None	bHLHa42, HASH3, Sgn1
6	EGFL8	ENSG00000241404	ENST00000333845	protein_coding	KNOWN	CCDS4743	13944	882	293	32132360	32136058	1	C6orf8	NG3
6	EGFL8	ENSG00000241404	ENST00000395512	protein_coding	KNOWN	CCDS4743	13944	882	293	32132382	32136058	1	C6orf8	NG3
6	EGFL8	ENSG00000241404	ENST00000432129	protein_coding	NOVEL	None	13944	775	257	32132437	32135433	1	C6orf8	NG3
6	EGFL8	ENSG00000241404	ENST00000466239	retained_intron	KNOWN	None	13944	None	None	32133013	32136058	1	C6orf8	NG3
6	EGFL8	ENSG00000241404	ENST00000482938	retained_intron	KNOWN	None	13944	None	None	32133970	32134946	1	C6orf8	NG3
6	EGFL8	ENSG00000241404	ENST00000489721	processed_transcript	KNOWN	None	13944	None	None	32135320	32136058	1	C6orf8	NG3
X	RENBP	ENSG00000102032	ENST00000393700	protein_coding	KNOWN	CCDS14738	9959	1284	427	153200716	153210143	-1	None	RNBP, RBP
X	RENBP	ENSG00000102032	ENST00000457282	nonsense_mediated_decay	KNOWN	None	9959	349	115	153200728	153207422	-1	None	RNBP, RBP
X	RENBP	ENSG00000102032	ENST00000369997	protein_coding	NOVEL	None	9959	1242	413	153200736	153210139	-1	None	RNBP, RBP
X	RENBP	ENSG00000102032	ENST00000423624	nonsense_mediated_decay	KNOWN	None	9959	183	60	153200739	153210078	-1	None	RNBP, RBP
X	RENBP	ENSG00000102032	ENST00000451114	protein_coding	NOVEL	None	9959	376	124	153200786	153205668	-1	None	RNBP, RBP
X	RENBP	ENSG00000102032	ENST00000442361	nonsense_mediated_decay	KNOWN	None	9959	480	159	153201452	153209395	-1	None	RNBP, RBP
X	RENBP	ENSG00000102032	ENST00000462086	processed_transcript	KNOWN	None	9959	None	None	153207698	153209084	-1	None	RNBP, RBP
X	RENBP	ENSG00000102032	ENST00000464227	retained_intron	KNOWN	None	9959	None	None	153208510	153209684	-1	None	RNBP, RBP
X	RENBP	ENSG00000102032	ENST00000471056	retained_intron	KNOWN	None	9959	None	None	153208987	153210063	-1	None	RNBP, RBP
X	RENBP	ENSG00000102032	ENST00000475904	retained_intron	KNOWN	None	9959	None	None	153209066	153210095	-1	None	RNBP, RBP
X	RENBP	ENSG00000102032	ENST00000412763	protein_coding	KNOWN	None	9959	765	254	153200723	153210232	-1	None	RNBP, RBP
16	RNU6-1155P	ENSG00000200424	ENST00000363554	snRNA	KNOWN	None	48118	None	None	58778155	58778261	-1	None	None
19	SIGLEC8	ENSG00000105366	ENST00000430817	protein_coding	NOVEL	None	10877	1173	390	51954101	51961706	-1	None	SIGLEC-8, SAF2, SIGLEC8L, MGC59785
19	SIGLEC8	ENSG00000105366	ENST00000321424	protein_coding	KNOWN	CCDS33086	10877	1500	499	51954251	51961708	-1	None	SIGLEC-8, SAF2, SIGLEC8L, MGC59785
19	SIGLEC8	ENSG00000105366	ENST00000597624	retained_intron	KNOWN	None	10877	None	None	51954254	51961701	-1	None	SIGLEC-8, SAF2, SIGLEC8L, MGC59785
19	SIGLEC8	ENSG00000105366	ENST00000340550	protein_coding	KNOWN	None	10877	1221	406	51955630	51961710	-1	None	SIGLEC-8, SAF2, SIGLEC8L, MGC59785
19	SIGLEC8	ENSG00000105366	ENST00000597352	retained_intron	KNOWN	None	10877	None	None	51958750	51961063	-1	None	SIGLEC-8, SAF2, SIGLEC8L, MGC59785
16	RN7SL143P	ENSG00000244003	ENST00000496780	misc_RNA	KNOWN	None	46159	None	None	58804428	58804722	1	None	None
19	LENG8	ENSG00000167615	ENST00000326764	protein_coding	KNOWN	CCDS12894	15500	2403	800	54960065	54973217	1	None	KIAA1932, MGC40108, pp13842
19	LENG8	ENSG00000167615	ENST00000439657	protein_coding	KNOWN	None	15500	901	299	54960368	54966622	1	None	KIAA1932, MGC40108, pp13842
19	LENG8	ENSG00000167615	ENST00000376526	protein_coding	PUTATIVE	None	15500	2514	837	54960402	54972580	1	None	KIAA1932, MGC40108, pp13842
19	LENG8	ENSG00000167615	ENST00000436479	protein_coding	PUTATIVE	None	15500	225	74	54960406	54963895	1	None	KIAA1932, MGC40108, pp13842
19	LENG8	ENSG00000167615	ENST00000443957	protein_coding	KNOWN	None	15500	275	90	54960790	54963891	1	None	KIAA1932, MGC40108, pp13842
19	LENG8	ENSG00000167615	ENST00000431846	protein_coding	PUTATIVE	None	15500	2625	874	54962467	54973195	1	None	KIAA1932, MGC40108, pp13842
19	LENG8	ENSG00000167615	ENST00000462541	retained_intron	KNOWN	None	15500	None	None	54963169	54964802	1	None	KIAA1932, MGC40108, pp13842
19	LENG8	ENSG00000167615	ENST00000421200	protein_coding	PUTATIVE	None	15500	336	111	54969594	54972892	1	None	KIAA1932, MGC40108, pp13842
19	LENG8	ENSG00000167615	ENST00000376514	protein_coding	KNOWN	None	15500	165	54	54960396	54972108	1	None	KIAA1932, MGC40108, pp13842
16	GEMIN8P2	ENSG00000260451	ENST00000569855	processed_pseudogene	KNOWN	None	37977	None	None	58810444	58811467	1	None	None
X	None	ENSG00000271005	ENST00000605383	processed_pseudogene	KNOWN	None	None	None	None	78432697	78433165	-1	None	None
11	UBQLNL	ENSG00000175518	ENST00000380184	protein_coding	PUTATIVE	CCDS31385	28294	1428	475	5535623	5537935	-1	None	MGC20470, MGC26958
16	None	ENSG00000242423	ENST00000470623	processed_pseudogene	KNOWN	None	None	None	None	58859795	58860272	1	None	None
9	None	ENSG00000238598	ENST00000459310	snoRNA	NOVEL	None	None	None	None	78291823	78291928	1	None	None
17	DUSP3	ENSG00000108861	ENST00000226004	protein_coding	KNOWN	CCDS11469	3069	558	185	41843489	41856356	-1	VHR	None
17	DUSP3	ENSG00000108861	ENST00000590753	protein_coding	NOVEL	None	3069	338	111	41843499	41852136	-1	VHR	None
17	DUSP3	ENSG00000108861	ENST00000590935	protein_coding	PUTATIVE	None	3069	397	131	41843880	41852306	-1	VHR	None
17	DUSP3	ENSG00000108861	ENST00000590342	nonsense_mediated_decay	KNOWN	None	3069	138	45	41845754	41856303	-1	VHR	None
17	DUSP3	ENSG00000108861	ENST00000591618	processed_transcript	KNOWN	None	3069	None	None	41852250	41855705	-1	VHR	None
17	DUSP3	ENSG00000108861	ENST00000397937	protein_coding	KNOWN	None	3069	435	144	41845760	41856305	-1	VHR	None
11	TMEM9B	ENSG00000175348	ENST00000309134	protein_coding	PUTATIVE	None	1168	375	124	8968841	8985988	-1	C11orf15	None
11	TMEM9B	ENSG00000175348	ENST00000534025	protein_coding	KNOWN	CCDS7796	1168	597	198	8968841	8986320	-1	C11orf15	None
11	TMEM9B	ENSG00000175348	ENST00000525069	protein_coding	PUTATIVE	None	1168	375	124	8969048	8986558	-1	C11orf15	None
11	TMEM9B	ENSG00000175348	ENST00000528117	protein_coding	PUTATIVE	None	1168	288	95	8974239	8985949	-1	C11orf15	None
11	TMEM9B	ENSG00000175348	ENST00000530136	protein_coding	PUTATIVE	None	1168	160	52	8974809	8985727	-1	C11orf15	None
9	None	ENSG00000264310	ENST00000408586	miRNA	NOVEL	None	None	None	None	78338661	78338746	-1	None	None
6	NUDT3	ENSG00000272325	ENST00000607016	protein_coding	KNOWN	CCDS4791	8050	519	172	34247456	34360451	-1	None	DIPP
9	None	ENSG00000234644	ENST00000450956	processed_pseudogene	KNOWN	None	None	None	None	78339138	78339491	-1	None	None
14	IGHG1	ENSG00000211896	ENST00000390548	IG_C_gene	KNOWN	None	5525	1200	399	106202680	106209408	-1	None	None
14	IGHG1	ENSG00000211896	ENST00000390549	IG_C_gene	KNOWN	None	5525	993	330	106207675	106209408	-1	None	None
14	IGHG1	ENSG00000211896	ENST00000390542	IG_C_gene	KNOWN	None	5525	888	295	106207676	106209408	-1	None	None
2	CXCR4	ENSG00000121966	ENST00000409817	protein_coding	KNOWN	CCDS33295	2561	1071	356	136871919	136873813	-1	None	LESTR, NPY3R, HM89, NPYY3R, D2S201E, fusin, HSY3RR, NPYR, CD184
2	CXCR4	ENSG00000121966	ENST00000241393	protein_coding	KNOWN	CCDS46420	2561	1059	352	136871921	136875735	-1	None	LESTR, NPY3R, HM89, NPYY3R, D2S201E, fusin, HSY3RR, NPYR, CD184
2	CXCR4	ENSG00000121966	ENST00000466288	processed_transcript	KNOWN	None	2561	None	None	136872207	136875307	-1	None	LESTR, NPY3R, HM89, NPYY3R, D2S201E, fusin, HSY3RR, NPYR, CD184
9	None	ENSG00000238826	ENST00000459505	miRNA	NOVEL	None	None	None	None	78527369	78527465	1	None	None
5	ZNF366	ENSG00000178175	ENST00000318442	protein_coding	KNOWN	CCDS4015	18316	2235	744	71738479	71803554	-1	None	FLJ39796
5	ZNF366	ENSG00000178175	ENST00000514477	nonsense_mediated_decay	KNOWN	None	18316	198	65	71756789	71803193	-1	None	FLJ39796
5	ZNF366	ENSG00000178175	ENST00000414109	protein_coding	NOVEL	None	18316	192	63	71757132	71803220	-1	None	FLJ39796
9	RBM22P5	ENSG00000231137	ENST00000449536	processed_pseudogene	KNOWN	None	39698	None	None	78901410	78902997	-1	None	None
16	SETD6	ENSG00000103037	ENST00000310682	protein_coding	KNOWN	CCDS10798	26116	1350	449	58549383	58553566	1	None	FLJ21148
16	SETD6	ENSG00000103037	ENST00000394266	protein_coding	NOVEL	None	26116	1215	404	58549386	58554431	1	None	FLJ21148
16	SETD6	ENSG00000103037	ENST00000219315	protein_coding	KNOWN	CCDS54013	26116	1422	473	58549392	58553014	1	None	FLJ21148
16	SETD6	ENSG00000103037	ENST00000427443	nonsense_mediated_decay	KNOWN	None	26116	789	262	58549400	58553419	1	None	FLJ21148
16	SETD6	ENSG00000103037	ENST00000470003	retained_intron	KNOWN	None	26116	None	None	58549404	58550398	1	None	FLJ21148
16	SETD6	ENSG00000103037	ENST00000492050	retained_intron	KNOWN	None	26116	None	None	58549416	58550431	1	None	FLJ21148
16	SETD6	ENSG00000103037	ENST00000447443	protein_coding	PUTATIVE	None	26116	551	182	58549417	58552776	1	None	FLJ21148
16	SETD6	ENSG00000103037	ENST00000468223	retained_intron	KNOWN	None	26116	None	None	58549434	58550121	1	None	FLJ21148
16	SETD6	ENSG00000103037	ENST00000418480	processed_transcript	KNOWN	None	26116	None	None	58549451	58552371	1	None	FLJ21148
16	SETD6	ENSG00000103037	ENST00000422445	nonsense_mediated_decay	KNOWN	None	26116	792	263	58549695	58553407	1	None	FLJ21148
16	SETD6	ENSG00000103037	ENST00000467320	retained_intron	KNOWN	None	26116	None	None	58550036	58551094	1	None	FLJ21148
16	SETD6	ENSG00000103037	ENST00000463954	retained_intron	KNOWN	None	26116	None	None	58551371	58552980	1	None	FLJ21148
16	SETD6	ENSG00000103037	ENST00000491587	retained_intron	KNOWN	None	26116	None	None	58552090	58552802	1	None	FLJ21148
9	RPSAP9	ENSG00000234618	ENST00000418207	processed_pseudogene	KNOWN	None	31463	None	None	79013615	79014502	1	LAMR1P9	None
7	None	ENSG00000201138	ENST00000364268	misc_RNA	KNOWN	None	None	None	None	75010915	75011015	1	None	None
6	None	ENSG00000226089	ENST00000435858	sense_intronic	KNOWN	None	None	None	None	82236819	82244630	-1	None	None
6	None	ENSG00000226089	ENST00000570612	sense_intronic	KNOWN	None	None	None	None	82237084	82244632	-1	None	None
9	None	ENSG00000233814	ENST00000448065	processed_pseudogene	KNOWN	None	None	None	None	79034850	79035547	1	None	None
9	None	ENSG00000219149	ENST00000441480	processed_pseudogene	KNOWN	None	None	None	None	79164198	79164687	-1	None	None
18	CIDEA	ENSG00000176194	ENST00000320477	protein_coding	KNOWN	CCDS11856	1976	660	219	12254318	12277372	1	None	CIDE-A
18	CIDEA	ENSG00000176194	ENST00000522713	nonsense_mediated_decay	KNOWN	None	1976	603	200	12254360	12277592	1	None	CIDE-A
18	CIDEA	ENSG00000176194	ENST00000521296	processed_transcript	KNOWN	None	1976	None	None	12254701	12277594	1	None	CIDE-A
18	CIDEA	ENSG00000176194	ENST00000520620	processed_transcript	KNOWN	None	1976	None	None	12254724	12277480	1	None	CIDE-A
6	RNA5SP210	ENSG00000212336	ENST00000391034	rRNA	KNOWN	None	43110	None	None	82331917	82332036	1	RN5S210	None
X	KIF4CP	ENSG00000225025	ENST00000422742	processed_pseudogene	KNOWN	None	13340	None	None	78578943	78580714	1	None	KIF4P1
9	None	ENSG00000241781	ENST00000463508	miRNA	NOVEL	None	None	None	None	79186731	79186787	1	None	None
6	None	ENSG00000232031	ENST00000457116	sense_intronic	KNOWN	None	None	None	None	82434439	82446070	-1	None	None
9	None	ENSG00000265488	ENST00000578375	miRNA	NOVEL	None	None	None	None	79281002	79281087	1	None	None
9	PCA3	ENSG00000225937	ENST00000412654	antisense	KNOWN	None	8637	None	None	79379352	79402485	1	None	DD3, NCRNA00019, PCAT3
6	None	ENSG00000206886	ENST00000384159	snoRNA	NOVEL	None	None	None	None	82473741	82473873	1	None	None
6	None	ENSG00000219702	ENST00000402075	processed_pseudogene	KNOWN	None	None	None	None	82473928	82474220	1	None	None
X	None	ENSG00000270268	ENST00000604895	processed_pseudogene	KNOWN	None	None	None	None	78624861	78625662	-1	None	None
1	TDRD5	ENSG00000162782	ENST00000367614	protein_coding	KNOWN	CCDS1332	20614	2946	981	179560748	179660405	1	None	FLJ34823, TUDOR3
1	TDRD5	ENSG00000162782	ENST00000294848	protein_coding	KNOWN	CCDS1332	20614	2946	981	179561025	179660407	1	None	FLJ34823, TUDOR3
1	TDRD5	ENSG00000162782	ENST00000417329	protein_coding	KNOWN	None	20614	1476	491	179609086	179660407	1	None	FLJ34823, TUDOR3
1	TDRD5	ENSG00000162782	ENST00000444136	protein_coding	KNOWN	CCDS55663	20614	3108	1035	179561025	179660398	1	None	FLJ34823, TUDOR3
1	TAF13	ENSG00000197780	ENST00000461096	nonsense_mediated_decay	KNOWN	CCDS30788	11546	375	124	109605108	109618593	-1	TAF2K	TAFII18
1	TAF13	ENSG00000197780	ENST00000338366	protein_coding	KNOWN	CCDS30788	11546	375	124	109606762	109618624	-1	TAF2K	TAFII18
9	None	ENSG00000230335	ENST00000454004	processed_pseudogene	KNOWN	None	None	None	None	79546177	79546982	-1	None	None
6	None	ENSG00000224995	ENST00000441949	lincRNA	KNOWN	None	None	None	None	82523003	82523874	-1	None	None
9	C9orf96	ENSG00000198870	ENST00000371957	protein_coding	KNOWN	CCDS35169	28669	2043	680	136243238	136271220	1	None	MGC43306
9	C9orf96	ENSG00000198870	ENST00000468046	processed_transcript	KNOWN	None	28669	None	None	136245909	136250339	1	None	MGC43306
9	C9orf96	ENSG00000198870	ENST00000475232	processed_transcript	KNOWN	None	28669	None	None	136245928	136250539	1	None	MGC43306
9	C9orf96	ENSG00000198870	ENST00000462310	processed_transcript	KNOWN	None	28669	None	None	136258998	136260931	1	None	MGC43306
9	C9orf96	ENSG00000198870	ENST00000477284	processed_transcript	KNOWN	None	28669	None	None	136259914	136261210	1	None	MGC43306
9	C9orf96	ENSG00000198870	ENST00000426926	protein_coding	KNOWN	None	28669	486	161	136243117	136254529	1	None	MGC43306
9	C9orf96	ENSG00000198870	ENST00000371955	protein_coding	KNOWN	None	28669	642	213	136243284	136271220	1	None	MGC43306
7	None	ENSG00000198580	ENST00000399484	protein_coding	KNOWN	None	None	1140	379	6713376	6715991	1	None	None
7	None	ENSG00000198580	ENST00000544825	protein_coding	KNOWN	None	None	1170	389	6713424	6715988	1	None	None
7	None	ENSG00000198580	ENST00000401847	protein_coding	KNOWN	None	None	1167	388	6713424	6715988	1	None	None
7	None	ENSG00000198580	ENST00000328239	protein_coding	KNOWN	None	None	609	202	6714599	6715988	1	None	None
7	None	ENSG00000198580	ENST00000542006	protein_coding	KNOWN	None	None	669	222	6714599	6715967	1	None	None
X	None	ENSG00000215104	ENST00000399581	unprocessed_pseudogene	KNOWN	None	None	None	None	79528830	79565669	-1	None	None
6	None	ENSG00000226453	ENST00000418567	lincRNA	KNOWN	None	None	None	None	82554902	82643197	-1	None	None
9	None	ENSG00000236604	ENST00000417429	processed_pseudogene	KNOWN	None	None	None	None	79585238	79585944	1	None	None
6	None	ENSG00000260574	ENST00000565962	lincRNA	KNOWN	None	None	None	None	82679170	82679256	-1	None	None
5	None	ENSG00000251340	ENST00000503630	processed_pseudogene	KNOWN	None	None	None	None	93905245	93906381	1	None	None
12	MON2	ENSG00000061987	ENST00000393632	protein_coding	KNOWN	CCDS31849	29177	5154	1717	62860597	62989390	1	None	KIAA1040
12	MON2	ENSG00000061987	ENST00000546600	protein_coding	KNOWN	None	29177	5028	1675	62860602	62987058	1	None	KIAA1040
12	MON2	ENSG00000061987	ENST00000549378	processed_transcript	KNOWN	None	29177	None	None	62860624	62902925	1	None	KIAA1040
12	MON2	ENSG00000061987	ENST00000547095	nonsense_mediated_decay	KNOWN	None	29177	132	43	62860628	62986645	1	None	KIAA1040
12	MON2	ENSG00000061987	ENST00000552738	protein_coding	NOVEL	None	29177	5067	1688	62860628	62986645	1	None	KIAA1040
12	MON2	ENSG00000061987	ENST00000393629	protein_coding	NOVEL	None	29177	5136	1711	62860628	62986645	1	None	KIAA1040
12	MON2	ENSG00000061987	ENST00000552115	protein_coding	PUTATIVE	None	29177	3219	1072	62860629	62947145	1	None	KIAA1040
12	MON2	ENSG00000061987	ENST00000549286	nonsense_mediated_decay	KNOWN	None	29177	180	59	62860842	62887716	1	None	KIAA1040
12	MON2	ENSG00000061987	ENST00000551307	retained_intron	KNOWN	None	29177	None	None	62953690	62986861	1	None	KIAA1040
12	MON2	ENSG00000061987	ENST00000547287	retained_intron	KNOWN	None	29177	None	None	62958753	62965203	1	None	KIAA1040
12	MON2	ENSG00000061987	ENST00000549539	retained_intron	KNOWN	None	29177	None	None	62959732	62965299	1	None	KIAA1040
12	MON2	ENSG00000061987	ENST00000546751	retained_intron	KNOWN	None	29177	None	None	62972234	62979525	1	None	KIAA1040
12	MON2	ENSG00000061987	ENST00000551397	protein_coding	PUTATIVE	None	29177	276	91	62981632	62986638	1	None	KIAA1040
12	MON2	ENSG00000061987	ENST00000393630	protein_coding	KNOWN	None	29177	5157	1718	62860597	62991363	1	None	KIAA1040
12	MON2	ENSG00000061987	ENST00000280379	protein_coding	KNOWN	None	29177	5031	1676	62860597	62982673	1	None	KIAA1040
9	None	ENSG00000229857	ENST00000451571	processed_pseudogene	KNOWN	None	None	None	None	79607015	79608024	1	None	None
6	RNU6-130P	ENSG00000223044	ENST00000411112	snRNA	KNOWN	None	47093	None	None	82920055	82920157	-1	None	None
3	TSEN2	ENSG00000154743	ENST00000446004	protein_coding	KNOWN	None	28422	1136	377	12525931	12570423	1	None	SEN2, SEN2L, MGC2776
3	TSEN2	ENSG00000154743	ENST00000454502	protein_coding	NOVEL	CCDS46758	28422	1221	406	12525942	12574816	1	None	SEN2, SEN2L, MGC2776
3	TSEN2	ENSG00000154743	ENST00000402228	protein_coding	KNOWN	CCDS2611	28422	1398	465	12525990	12574816	1	None	SEN2, SEN2L, MGC2776
3	TSEN2	ENSG00000154743	ENST00000284995	protein_coding	KNOWN	CCDS2611	28422	1398	465	12526010	12574816	1	None	SEN2, SEN2L, MGC2776
3	TSEN2	ENSG00000154743	ENST00000473755	retained_intron	KNOWN	None	28422	None	None	12526010	12581122	1	None	SEN2, SEN2L, MGC2776
3	TSEN2	ENSG00000154743	ENST00000415684	protein_coding	KNOWN	CCDS46757	28422	1320	439	12531279	12575158	1	None	SEN2, SEN2L, MGC2776
3	TSEN2	ENSG00000154743	ENST00000490981	retained_intron	KNOWN	None	28422	None	None	12544945	12547073	1	None	SEN2, SEN2L, MGC2776
3	TSEN2	ENSG00000154743	ENST00000455118	nonsense_mediated_decay	KNOWN	None	28422	245	80	12571278	12580787	1	None	SEN2, SEN2L, MGC2776
3	TSEN2	ENSG00000154743	ENST00000412698	protein_coding	PUTATIVE	None	28422	306	101	12571370	12581119	1	None	SEN2, SEN2L, MGC2776
3	TSEN2	ENSG00000154743	ENST00000475595	processed_transcript	PUTATIVE	None	28422	None	None	12572347	12574806	1	None	SEN2, SEN2L, MGC2776
3	TSEN2	ENSG00000154743	ENST00000314571	protein_coding	KNOWN	CCDS46757	28422	1320	439	12525931	12574820	1	None	SEN2, SEN2L, MGC2776
3	TSEN2	ENSG00000154743	ENST00000383797	protein_coding	KNOWN	None	28422	1347	448	12525942	12574809	1	None	SEN2, SEN2L, MGC2776
3	TSEN2	ENSG00000154743	ENST00000444864	protein_coding	KNOWN	CCDS46759	28422	1209	402	12526010	12572512	1	None	SEN2, SEN2L, MGC2776
14	IGHG3	ENSG00000211897	ENST00000390551	IG_C_gene	KNOWN	None	5527	1133	376	106235439	106237742	-1	None	None
6	None	ENSG00000220537	ENST00000401636	processed_pseudogene	KNOWN	None	None	None	None	82973713	82974691	-1	None	None
9	ATP5J2P3	ENSG00000232851	ENST00000451550	processed_pseudogene	KNOWN	None	21286	None	None	79655332	79655589	1	None	bA159H20.5
9	ATP5J2P3	ENSG00000232851	ENST00000542708	processed_pseudogene	KNOWN	None	21286	None	None	79655317	79655589	1	None	bA159H20.5
16	None	ENSG00000261004	ENST00000567405	3prime_overlapping_ncrna	KNOWN	None	None	None	None	731671	732551	1	None	None
5	None	ENSG00000211498	ENST00000390164	miRNA	NOVEL	None	None	None	None	93914474	93914555	1	None	None
9	None	ENSG00000233526	ENST00000454419	processed_pseudogene	KNOWN	None	None	None	None	79687016	79688211	1	None	None
6	MAP3K5	ENSG00000197442	ENST00000359015	protein_coding	KNOWN	CCDS5179	6857	4125	1374	136878185	137113656	-1	MEKK5	MAPKKK5, ASK1
6	MAP3K5	ENSG00000197442	ENST00000463140	processed_transcript	KNOWN	None	6857	None	None	136901472	136905645	-1	MEKK5	MAPKKK5, ASK1
6	MAP3K5	ENSG00000197442	ENST00000355845	protein_coding	KNOWN	None	6857	1866	621	136878363	136977599	-1	MEKK5	MAPKKK5, ASK1
10	NDST2	ENSG00000166507	ENST00000603027	nonsense_mediated_decay	KNOWN	None	7681	2448	815	75556272	75571409	-1	None	NST2, HSST2
10	NDST2	ENSG00000166507	ENST00000456638	processed_transcript	KNOWN	None	7681	None	None	75556276	75561157	-1	None	NST2, HSST2
10	NDST2	ENSG00000166507	ENST00000603706	processed_transcript	KNOWN	None	7681	None	None	75556887	75562835	-1	None	NST2, HSST2
10	NDST2	ENSG00000166507	ENST00000309979	protein_coding	KNOWN	CCDS7335	7681	2652	883	75561669	75571342	-1	None	NST2, HSST2
10	NDST2	ENSG00000166507	ENST00000429742	protein_coding	NOVEL	None	7681	447	148	75562354	75563102	-1	None	NST2, HSST2
10	NDST2	ENSG00000166507	ENST00000463410	processed_transcript	KNOWN	None	7681	None	None	75566634	75567282	-1	None	NST2, HSST2
10	NDST2	ENSG00000166507	ENST00000465929	processed_transcript	KNOWN	None	7681	None	None	75568225	75568834	-1	None	NST2, HSST2
10	NDST2	ENSG00000166507	ENST00000398701	processed_transcript	KNOWN	None	7681	None	None	75570442	75571556	-1	None	NST2, HSST2
10	NDST2	ENSG00000166507	ENST00000299641	protein_coding	KNOWN	None	7681	2283	760	75561674	75571589	-1	None	NST2, HSST2
5	None	ENSG00000232578	ENST00000506586	processed_pseudogene	KNOWN	None	None	None	None	93928476	93930496	1	None	None
5	None	ENSG00000232578	ENST00000416251	processed_pseudogene	KNOWN	None	None	None	None	93928473	93929222	1	None	None
9	None	ENSG00000229707	ENST00000429280	processed_pseudogene	KNOWN	None	None	None	None	41630397	41630883	1	None	None
14	IGHD	ENSG00000211898	ENST00000390556	IG_C_gene	KNOWN	None	5480	1292	429	106303099	106312010	-1	None	FLJ00382, FLJ46727, MGC29633
9	None	ENSG00000269692	ENST00000598909	processed_pseudogene	KNOWN	None	None	None	None	41776064	41777434	1	None	None
9	ZBTB43	ENSG00000169155	ENST00000373464	protein_coding	KNOWN	CCDS6867	17908	1404	467	129567294	129600489	1	ZNF297B	KIAA0414, ZNF-X, FLJ22470, ZBTB22B
9	ZBTB43	ENSG00000169155	ENST00000450858	protein_coding	KNOWN	None	17908	587	194	129567312	129595375	1	ZNF297B	KIAA0414, ZNF-X, FLJ22470, ZBTB22B
9	ZBTB43	ENSG00000169155	ENST00000373457	protein_coding	KNOWN	CCDS6867	17908	1404	467	129593688	129599382	1	ZNF297B	KIAA0414, ZNF-X, FLJ22470, ZBTB22B
9	ZBTB43	ENSG00000169155	ENST00000497064	processed_transcript	KNOWN	None	17908	None	None	129598499	129598691	1	ZNF297B	KIAA0414, ZNF-X, FLJ22470, ZBTB22B
9	ZBTB43	ENSG00000169155	ENST00000449886	protein_coding	KNOWN	CCDS6867	17908	1404	467	129567285	129600489	1	ZNF297B	KIAA0414, ZNF-X, FLJ22470, ZBTB22B
1	FAM76A	ENSG00000009780	ENST00000373954	protein_coding	KNOWN	CCDS309	28530	924	307	28052490	28089633	1	None	MGC34648
1	FAM76A	ENSG00000009780	ENST00000419687	protein_coding	KNOWN	CCDS44095	28530	684	227	28052507	28087984	1	None	MGC34648
1	FAM76A	ENSG00000009780	ENST00000530324	protein_coding	PUTATIVE	None	28530	867	288	28052539	28086275	1	None	MGC34648
1	FAM76A	ENSG00000009780	ENST00000234549	protein_coding	KNOWN	CCDS44093	28530	939	312	28052539	28087092	1	None	MGC34648
1	FAM76A	ENSG00000009780	ENST00000373949	protein_coding	KNOWN	CCDS44094	28530	837	278	28052539	28088475	1	None	MGC34648
1	FAM76A	ENSG00000009780	ENST00000010299	protein_coding	KNOWN	CCDS44092	28530	1026	341	28052568	28087092	1	None	MGC34648
1	FAM76A	ENSG00000009780	ENST00000446647	protein_coding	PUTATIVE	None	28530	375	124	28071285	28086696	1	None	MGC34648
9	VPS13A-AS1	ENSG00000232998	ENST00000415172	antisense	KNOWN	None	44167	None	None	79791672	79792910	-1	None	None
1	TMEM167B	ENSG00000215717	ENST00000338272	protein_coding	KNOWN	CCDS30789	30187	225	74	109633357	109639556	1	C1orf119	AD-020, FLJ90710
1	TMEM167B	ENSG00000215717	ENST00000479160	processed_transcript	KNOWN	None	30187	None	None	109633402	109637611	1	C1orf119	AD-020, FLJ90710
1	TMEM167B	ENSG00000215717	ENST00000473828	processed_transcript	KNOWN	None	30187	None	None	109633428	109636398	1	C1orf119	AD-020, FLJ90710
16	None	ENSG00000260964	ENST00000565813	3prime_overlapping_ncrna	KNOWN	None	None	None	None	732416	732870	1	None	None
7	GCC1	ENSG00000179562	ENST00000321407	protein_coding	KNOWN	CCDS5796	19095	2328	775	127220672	127225661	-1	None	FLJ22035, GCC88, GCC1P, MGC20706
7	GCC1	ENSG00000179562	ENST00000497650	processed_transcript	KNOWN	None	19095	None	None	127222874	127233660	-1	None	FLJ22035, GCC88, GCC1P, MGC20706
7	GCC1	ENSG00000179562	ENST00000473728	processed_transcript	KNOWN	None	19095	None	None	127231546	127233665	-1	None	FLJ22035, GCC88, GCC1P, MGC20706
9	None	ENSG00000231511	ENST00000450937	processed_pseudogene	KNOWN	None	None	None	None	41796924	41797395	-1	None	None
17	None	ENSG00000262003	ENST00000576252	protein_coding	PUTATIVE	None	None	180	59	812872	814452	1	None	None
16	None	ENSG00000261659	ENST00000575305	retained_intron	KNOWN	None	None	None	None	739001	742413	1	None	None
16	None	ENSG00000261659	ENST00000566927	antisense	KNOWN	None	None	None	None	739494	742554	1	None	None
11	EI24	ENSG00000149547	ENST00000530985	processed_transcript	KNOWN	None	13276	None	None	125439112	125454575	1	None	PIG8, TP53I8, EPG4
11	EI24	ENSG00000149547	ENST00000529812	protein_coding	PUTATIVE	None	13276	42	13	125439176	125442465	1	None	PIG8, TP53I8, EPG4
11	EI24	ENSG00000149547	ENST00000534546	retained_intron	KNOWN	None	13276	None	None	125439304	125450094	1	None	PIG8, TP53I8, EPG4
11	EI24	ENSG00000149547	ENST00000531636	processed_transcript	KNOWN	None	13276	None	None	125439354	125448058	1	None	PIG8, TP53I8, EPG4
11	EI24	ENSG00000149547	ENST00000524723	protein_coding	PUTATIVE	None	13276	651	216	125439354	125448925	1	None	PIG8, TP53I8, EPG4
11	EI24	ENSG00000149547	ENST00000531350	processed_transcript	KNOWN	None	13276	None	None	125439354	125453922	1	None	PIG8, TP53I8, EPG4
11	EI24	ENSG00000149547	ENST00000534430	processed_transcript	KNOWN	None	13276	None	None	125439354	125453955	1	None	PIG8, TP53I8, EPG4
11	EI24	ENSG00000149547	ENST00000525737	retained_intron	KNOWN	None	13276	None	None	125439354	125454104	1	None	PIG8, TP53I8, EPG4
11	EI24	ENSG00000149547	ENST00000527628	processed_transcript	KNOWN	None	13276	None	None	125439354	125454146	1	None	PIG8, TP53I8, EPG4
11	EI24	ENSG00000149547	ENST00000529765	retained_intron	KNOWN	None	13276	None	None	125439373	125447784	1	None	PIG8, TP53I8, EPG4
11	EI24	ENSG00000149547	ENST00000527842	protein_coding	PUTATIVE	None	13276	561	186	125439373	125448964	1	None	PIG8, TP53I8, EPG4
11	EI24	ENSG00000149547	ENST00000535422	processed_transcript	KNOWN	None	13276	None	None	125439385	125454137	1	None	PIG8, TP53I8, EPG4
11	EI24	ENSG00000149547	ENST00000527520	protein_coding	PUTATIVE	None	13276	274	90	125439736	125447466	1	None	PIG8, TP53I8, EPG4
11	EI24	ENSG00000149547	ENST00000527131	protein_coding	PUTATIVE	None	13276	375	124	125439755	125448087	1	None	PIG8, TP53I8, EPG4
11	EI24	ENSG00000149547	ENST00000527675	processed_transcript	KNOWN	None	13276	None	None	125442353	125453658	1	None	PIG8, TP53I8, EPG4
11	EI24	ENSG00000149547	ENST00000527235	nonsense_mediated_decay	KNOWN	None	13276	126	41	125442354	125447760	1	None	PIG8, TP53I8, EPG4
11	EI24	ENSG00000149547	ENST00000530540	retained_intron	KNOWN	None	13276	None	None	125450676	125452293	1	None	PIG8, TP53I8, EPG4
11	EI24	ENSG00000149547	ENST00000278903	protein_coding	KNOWN	None	13276	1020	339	125439298	125454574	1	None	PIG8, TP53I8, EPG4
11	EI24	ENSG00000149547	ENST00000343678	protein_coding	KNOWN	None	13276	786	261	125439298	125454574	1	None	PIG8, TP53I8, EPG4
19	OR7A5	ENSG00000188269	ENST00000601611	processed_transcript	KNOWN	None	8368	None	None	14903302	14946188	-1	None	HTPCR2
19	OR7A5	ENSG00000188269	ENST00000599549	processed_transcript	KNOWN	None	8368	None	None	14911343	14946006	-1	None	HTPCR2
19	OR7A5	ENSG00000188269	ENST00000595922	processed_transcript	KNOWN	None	8368	None	None	14911376	14945997	-1	None	HTPCR2
19	OR7A5	ENSG00000188269	ENST00000594432	protein_coding	KNOWN	CCDS12318	8368	960	319	14938083	14939111	-1	None	HTPCR2
19	OR7A5	ENSG00000188269	ENST00000322301	protein_coding	KNOWN	CCDS12318	8368	960	319	14938094	14945960	-1	None	HTPCR2
HSCHR6_MHC_QBL	CYP21A2	ENSG00000206338	ENST00000489833	processed_transcript	KNOWN	None	2600	None	None	31818406	31964891	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_QBL	CYP21A2	ENSG00000206338	ENST00000383322	protein_coding	KNOWN	None	2600	1488	495	31963732	31967076	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_QBL	CYP21A2	ENSG00000206338	ENST00000469664	processed_transcript	PUTATIVE	None	2600	None	None	31963750	31964881	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_QBL	CYP21A2	ENSG00000206338	ENST00000460689	retained_intron	KNOWN	None	2600	None	None	31963799	31967076	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_QBL	CYP21A2	ENSG00000206338	ENST00000496483	retained_intron	KNOWN	None	2600	None	None	31963799	31967076	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_QBL	CYP21A2	ENSG00000206338	ENST00000492024	retained_intron	KNOWN	None	2600	None	None	31963799	31967076	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_QBL	CYP21A2	ENSG00000206338	ENST00000467455	retained_intron	KNOWN	None	2600	None	None	31963804	31967076	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_QBL	CYP21A2	ENSG00000206338	ENST00000461324	retained_intron	KNOWN	None	2600	None	None	31963849	31964549	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_QBL	CYP21A2	ENSG00000206338	ENST00000465847	processed_transcript	KNOWN	None	2600	None	None	31963849	31964917	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_QBL	CYP21A2	ENSG00000206338	ENST00000383321	protein_coding	KNOWN	None	2600	1398	465	31963849	31967104	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
X	HNRNPH3P1	ENSG00000230247	ENST00000431935	processed_pseudogene	KNOWN	None	48750	None	None	79784536	79785526	1	None	None
9	ATP5A1P8	ENSG00000234720	ENST00000423669	processed_pseudogene	KNOWN	None	37666	None	None	41799259	41800556	-1	None	None
14	PTPN21	ENSG00000070778	ENST00000556564	protein_coding	KNOWN	CCDS9884	9651	3525	1174	88932125	89021077	-1	None	PTPD1, PTPRL10
14	PTPN21	ENSG00000070778	ENST00000553531	protein_coding	PUTATIVE	None	9651	387	128	88934114	88935960	-1	None	PTPD1, PTPRL10
14	PTPN21	ENSG00000070778	ENST00000536337	nonsense_mediated_decay	KNOWN	None	9651	186	61	88934299	89016874	-1	None	PTPD1, PTPRL10
14	PTPN21	ENSG00000070778	ENST00000554270	retained_intron	KNOWN	None	9651	None	None	88934299	89016874	-1	None	PTPD1, PTPRL10
14	PTPN21	ENSG00000070778	ENST00000557249	retained_intron	KNOWN	None	9651	None	None	88936309	88940276	-1	None	PTPD1, PTPRL10
14	PTPN21	ENSG00000070778	ENST00000554628	processed_transcript	KNOWN	None	9651	None	None	88959244	89017833	-1	None	PTPD1, PTPRL10
14	PTPN21	ENSG00000070778	ENST00000555243	protein_coding	KNOWN	None	9651	587	194	88970769	89017804	-1	None	PTPD1, PTPRL10
14	PTPN21	ENSG00000070778	ENST00000554178	processed_transcript	PUTATIVE	None	9651	None	None	88978662	89016963	-1	None	PTPD1, PTPRL10
14	PTPN21	ENSG00000070778	ENST00000328736	protein_coding	KNOWN	CCDS9884	9651	3525	1174	88932122	89016966	-1	None	PTPD1, PTPRL10
X	None	ENSG00000228051	ENST00000445455	processed_pseudogene	KNOWN	None	None	None	None	79815645	79817553	1	None	None
3	MUC20	ENSG00000176945	ENST00000447234	protein_coding	KNOWN	None	23282	2130	709	195447753	195460422	1	None	FLJ14408, KIAA1359
3	MUC20	ENSG00000176945	ENST00000436408	protein_coding	PUTATIVE	None	23282	2172	723	195447755	195461904	1	None	FLJ14408, KIAA1359
3	MUC20	ENSG00000176945	ENST00000485430	processed_transcript	PUTATIVE	None	23282	None	None	195447822	195451688	1	None	FLJ14408, KIAA1359
3	MUC20	ENSG00000176945	ENST00000480350	processed_transcript	PUTATIVE	None	23282	None	None	195447846	195451965	1	None	FLJ14408, KIAA1359
3	MUC20	ENSG00000176945	ENST00000445522	protein_coding	KNOWN	None	23282	2025	674	195451098	195460424	1	None	FLJ14408, KIAA1359
3	MUC20	ENSG00000176945	ENST00000498018	retained_intron	KNOWN	None	23282	None	None	195453052	195456993	1	None	FLJ14408, KIAA1359
3	MUC20	ENSG00000176945	ENST00000423938	protein_coding	PUTATIVE	None	23282	385	127	195453241	195467994	1	None	FLJ14408, KIAA1359
3	MUC20	ENSG00000176945	ENST00000320736	protein_coding	KNOWN	None	23282	1617	538	195447753	195464539	1	None	FLJ14408, KIAA1359
9	None	ENSG00000226108	ENST00000411517	processed_pseudogene	KNOWN	None	None	None	None	41879688	41880646	1	None	None
5	None	ENSG00000270133	ENST00000514061	sense_intronic	KNOWN	None	None	None	None	93947611	93953827	-1	None	None
19	LGI4	ENSG00000153902	ENST00000310123	protein_coding	KNOWN	CCDS12444	18712	1614	537	35615417	35626104	-1	None	None
19	LGI4	ENSG00000153902	ENST00000392225	protein_coding	PUTATIVE	None	18712	1485	494	35615417	35626104	-1	None	None
19	LGI4	ENSG00000153902	ENST00000493050	processed_transcript	KNOWN	None	18712	None	None	35615570	35633355	-1	None	None
19	LGI4	ENSG00000153902	ENST00000587780	protein_coding	NOVEL	None	18712	1136	377	35615578	35624645	-1	None	None
19	LGI4	ENSG00000153902	ENST00000591840	processed_transcript	KNOWN	None	18712	None	None	35615578	35625547	-1	None	None
19	LGI4	ENSG00000153902	ENST00000593248	retained_intron	KNOWN	None	18712	None	None	35617605	35624916	-1	None	None
19	LGI4	ENSG00000153902	ENST00000591633	protein_coding	NOVEL	None	18712	786	261	35621993	35625767	-1	None	None
19	LGI4	ENSG00000153902	ENST00000473160	retained_intron	KNOWN	None	18712	None	None	35622042	35625542	-1	None	None
19	LGI4	ENSG00000153902	ENST00000592346	processed_transcript	KNOWN	None	18712	None	None	35622436	35625532	-1	None	None
17	TIMM22	ENSG00000177370	ENST00000327158	protein_coding	KNOWN	CCDS32521	17317	585	194	900357	905407	1	TEX4	None
X	HK2P1	ENSG00000228612	ENST00000447818	processed_pseudogene	KNOWN	None	4924	None	None	79827370	79830106	-1	HK2P	None
3	TIPARP	ENSG00000163659	ENST00000486483	protein_coding	KNOWN	CCDS3177	23696	1974	657	156391024	156422928	1	None	DKFZP434J214, DKFZp686N0351, DDF1, PARP7, PARP-7, PARP-1, pART14, RM1
3	TIPARP	ENSG00000163659	ENST00000295924	protein_coding	KNOWN	CCDS3177	23696	1974	657	156392131	156424559	1	None	DKFZP434J214, DKFZp686N0351, DDF1, PARP7, PARP-7, PARP-1, pART14, RM1
3	TIPARP	ENSG00000163659	ENST00000461166	protein_coding	KNOWN	CCDS3177	23696	1974	657	156392634	156424539	1	None	DKFZP434J214, DKFZp686N0351, DDF1, PARP7, PARP-7, PARP-1, pART14, RM1
3	TIPARP	ENSG00000163659	ENST00000473702	protein_coding	KNOWN	None	23696	1519	505	156393358	156421484	1	None	DKFZP434J214, DKFZp686N0351, DDF1, PARP7, PARP-7, PARP-1, pART14, RM1
3	TIPARP	ENSG00000163659	ENST00000481853	protein_coding	KNOWN	None	23696	1963	653	156394453	156422909	1	None	DKFZP434J214, DKFZp686N0351, DDF1, PARP7, PARP-7, PARP-1, pART14, RM1
3	TIPARP	ENSG00000163659	ENST00000495891	protein_coding	PUTATIVE	None	23696	1081	359	156398955	156424539	1	None	DKFZP434J214, DKFZp686N0351, DDF1, PARP7, PARP-7, PARP-1, pART14, RM1
3	TIPARP	ENSG00000163659	ENST00000542783	protein_coding	KNOWN	CCDS3177	23696	1974	657	156394453	156424555	1	None	DKFZP434J214, DKFZp686N0351, DDF1, PARP7, PARP-7, PARP-1, pART14, RM1
9	RBPJP5	ENSG00000232239	ENST00000449433	processed_pseudogene	KNOWN	None	37485	None	None	41884765	41886211	-1	None	None
17	NUP88	ENSG00000108559	ENST00000573169	processed_transcript	KNOWN	None	8067	None	None	5264258	5289528	-1	None	MGC8530
17	NUP88	ENSG00000108559	ENST00000576708	nonsense_mediated_decay	KNOWN	None	8067	332	109	5265109	5292170	-1	None	MGC8530
17	NUP88	ENSG00000108559	ENST00000573584	protein_coding	KNOWN	CCDS11070	8067	2226	741	5289346	5323480	-1	None	MGC8530
17	NUP88	ENSG00000108559	ENST00000225696	protein_coding	NOVEL	None	8067	2090	695	5289422	5322786	-1	None	MGC8530
17	NUP88	ENSG00000108559	ENST00000574855	retained_intron	KNOWN	None	8067	None	None	5289424	5290452	-1	None	MGC8530
17	NUP88	ENSG00000108559	ENST00000574087	retained_intron	KNOWN	None	8067	None	None	5290007	5291232	-1	None	MGC8530
17	NUP88	ENSG00000108559	ENST00000576862	retained_intron	KNOWN	None	8067	None	None	5290404	5298299	-1	None	MGC8530
17	NUP88	ENSG00000108559	ENST00000575976	retained_intron	KNOWN	None	8067	None	None	5290864	5291570	-1	None	MGC8530
17	NUP88	ENSG00000108559	ENST00000574867	retained_intron	KNOWN	None	8067	None	None	5291696	5322982	-1	None	MGC8530
17	NUP88	ENSG00000108559	ENST00000570937	retained_intron	KNOWN	None	8067	None	None	5294795	5302953	-1	None	MGC8530
17	NUP88	ENSG00000108559	ENST00000572809	protein_coding	PUTATIVE	None	8067	460	152	5312057	5321549	-1	None	MGC8530
17	NUP88	ENSG00000108559	ENST00000572290	nonsense_mediated_decay	KNOWN	None	8067	387	128	5317420	5322981	-1	None	MGC8530
17	NUP88	ENSG00000108559	ENST00000572019	processed_transcript	KNOWN	None	8067	None	None	5319873	5322996	-1	None	MGC8530
14	IGHM	ENSG00000211899	ENST00000390559	IG_C_gene	KNOWN	None	5541	1362	453	106320349	106322323	-1	None	None
9	None	ENSG00000231373	ENST00000439145	antisense	KNOWN	None	None	None	None	80071211	80141613	1	None	None
9	None	ENSG00000229273	ENST00000443558	processed_pseudogene	KNOWN	None	None	None	None	41954580	41955037	1	None	None
X	SMC1A	ENSG00000072501	ENST00000322213	protein_coding	KNOWN	CCDS14352	11111	3702	1233	53401070	53449677	-1	SMC1L1	DXS423E, KIAA0178, SB1.8, Smcb
X	SMC1A	ENSG00000072501	ENST00000470241	processed_transcript	KNOWN	None	11111	None	None	53407092	53423298	-1	SMC1L1	DXS423E, KIAA0178, SB1.8, Smcb
X	SMC1A	ENSG00000072501	ENST00000469129	processed_transcript	KNOWN	None	11111	None	None	53408599	53409567	-1	SMC1L1	DXS423E, KIAA0178, SB1.8, Smcb
X	SMC1A	ENSG00000072501	ENST00000463684	processed_transcript	KNOWN	None	11111	None	None	53438945	53449618	-1	SMC1L1	DXS423E, KIAA0178, SB1.8, Smcb
X	SMC1A	ENSG00000072501	ENST00000428014	protein_coding	KNOWN	None	11111	868	288	53439850	53448967	-1	SMC1L1	DXS423E, KIAA0178, SB1.8, Smcb
X	SMC1A	ENSG00000072501	ENST00000375340	protein_coding	KNOWN	None	11111	1551	516	53431731	53449603	-1	SMC1L1	DXS423E, KIAA0178, SB1.8, Smcb
9	None	ENSG00000228248	ENST00000448540	processed_pseudogene	KNOWN	None	None	None	None	80195161	80195544	1	None	None
3	CMTM6	ENSG00000091317	ENST00000205636	protein_coding	KNOWN	CCDS2653	19177	552	183	32522804	32544900	-1	CKLFSF6	FLJ20396
3	CMTM6	ENSG00000091317	ENST00000478886	retained_intron	KNOWN	None	19177	None	None	32525231	32529873	-1	CKLFSF6	FLJ20396
3	CMTM6	ENSG00000091317	ENST00000495177	retained_intron	KNOWN	None	19177	None	None	32529225	32544288	-1	CKLFSF6	FLJ20396
9	RNU6-1303P	ENSG00000201711	ENST00000364841	snRNA	KNOWN	None	48266	None	None	80250119	80250225	-1	None	None
17	KRT38	ENSG00000171360	ENST00000246646	protein_coding	KNOWN	CCDS11392	6456	1371	456	39592698	39597173	-1	KRTHA8	None
16	PHKG2	ENSG00000156873	ENST00000563588	protein_coding	KNOWN	CCDS10690	8931	1221	406	30759591	30772490	1	None	None
16	PHKG2	ENSG00000156873	ENST00000565924	protein_coding	KNOWN	None	8931	764	253	30759614	30767804	1	None	None
16	PHKG2	ENSG00000156873	ENST00000424889	protein_coding	KNOWN	CCDS54002	8931	1125	374	30759620	30771712	1	None	None
16	PHKG2	ENSG00000156873	ENST00000564838	retained_intron	KNOWN	None	8931	None	None	30759723	30768686	1	None	None
16	PHKG2	ENSG00000156873	ENST00000328273	protein_coding	NOVEL	None	8931	1233	410	30759761	30768652	1	None	None
16	PHKG2	ENSG00000156873	ENST00000563913	retained_intron	KNOWN	None	8931	None	None	30759764	30768655	1	None	None
16	PHKG2	ENSG00000156873	ENST00000565897	protein_coding	KNOWN	None	8931	798	265	30759872	30767838	1	None	None
16	PHKG2	ENSG00000156873	ENST00000563607	nonsense_mediated_decay	KNOWN	None	8931	264	87	30759904	30764874	1	None	None
16	PHKG2	ENSG00000156873	ENST00000569762	retained_intron	KNOWN	None	8931	None	None	30760165	30763234	1	None	None
16	PHKG2	ENSG00000156873	ENST00000569684	retained_intron	KNOWN	None	8931	None	None	30763815	30767750	1	None	None
16	PHKG2	ENSG00000156873	ENST00000561712	protein_coding	PUTATIVE	None	8931	241	79	30764553	30766586	1	None	None
15	HERC2	ENSG00000128731	ENST00000261609	protein_coding	KNOWN	CCDS10021	4868	14505	4834	28356186	28567298	-1	None	jdf2, p528, D15F37S1
15	HERC2	ENSG00000128731	ENST00000566635	retained_intron	KNOWN	None	4868	None	None	28356425	28362697	-1	None	jdf2, p528, D15F37S1
15	HERC2	ENSG00000128731	ENST00000562136	retained_intron	KNOWN	None	4868	None	None	28356908	28358863	-1	None	jdf2, p528, D15F37S1
15	HERC2	ENSG00000128731	ENST00000568206	retained_intron	KNOWN	None	4868	None	None	28360427	28363567	-1	None	jdf2, p528, D15F37S1
15	HERC2	ENSG00000128731	ENST00000564519	retained_intron	KNOWN	None	4868	None	None	28386885	28387598	-1	None	jdf2, p528, D15F37S1
15	HERC2	ENSG00000128731	ENST00000569772	protein_coding	NOVEL	None	4868	598	198	28397905	28419569	-1	None	jdf2, p528, D15F37S1
15	HERC2	ENSG00000128731	ENST00000567869	retained_intron	KNOWN	None	4868	None	None	28435347	28449082	-1	None	jdf2, p528, D15F37S1
15	HERC2	ENSG00000128731	ENST00000569335	retained_intron	KNOWN	None	4868	None	None	28467294	28474662	-1	None	jdf2, p528, D15F37S1
15	HERC2	ENSG00000128731	ENST00000564734	nonsense_mediated_decay	KNOWN	None	4868	243	80	28499634	28567295	-1	None	jdf2, p528, D15F37S1
15	HERC2	ENSG00000128731	ENST00000563670	retained_intron	KNOWN	None	4868	None	None	28517190	28518314	-1	None	jdf2, p528, D15F37S1
15	HERC2	ENSG00000128731	ENST00000564383	retained_intron	KNOWN	None	4868	None	None	28525180	28544629	-1	None	jdf2, p528, D15F37S1
15	HERC2	ENSG00000128731	ENST00000563945	processed_transcript	KNOWN	None	4868	None	None	28565268	28567265	-1	None	jdf2, p528, D15F37S1
9	None	ENSG00000251184	ENST00000482796	protein_coding	PUTATIVE	None	None	378	125	131703757	131719300	1	None	None
2	THSD7B	ENSG00000144229	ENST00000472720	nonsense_mediated_decay	KNOWN	None	29348	153	50	137523115	137814085	1	None	KIAA1679
2	THSD7B	ENSG00000144229	ENST00000409968	protein_coding	NOVEL	None	29348	4821	1606	137523115	138435287	1	None	KIAA1679
2	THSD7B	ENSG00000144229	ENST00000485379	processed_transcript	KNOWN	None	29348	None	None	137913530	137928485	1	None	KIAA1679
2	THSD7B	ENSG00000144229	ENST00000480352	retained_intron	KNOWN	None	29348	None	None	138399813	138413210	1	None	KIAA1679
2	THSD7B	ENSG00000144229	ENST00000272643	protein_coding	KNOWN	None	29348	4830	1609	137639749	138435287	1	None	KIAA1679
2	THSD7B	ENSG00000144229	ENST00000413152	protein_coding	KNOWN	None	29348	4737	1578	137748462	138435287	1	None	KIAA1679
2	THSD7B	ENSG00000144229	ENST00000543459	protein_coding	KNOWN	None	29348	1002	333	137814274	138420992	1	None	KIAA1679
12	PMCH	ENSG00000183395	ENST00000329406	protein_coding	KNOWN	CCDS31885	9109	498	165	102590237	102591623	-1	None	MCH
4	None	ENSG00000170846	ENST00000307533	lincRNA	KNOWN	None	None	None	None	6675178	6677774	1	None	None
4	None	ENSG00000170846	ENST00000444232	lincRNA	KNOWN	None	None	None	None	6675178	6677774	1	None	None
6	MIR1275	ENSG00000221697	ENST00000408770	miRNA	KNOWN	None	35346	None	None	33967749	33967828	-1	MIRN1275	hsa-mir-1275
6	FAXC	ENSG00000146267	ENST00000389677	protein_coding	KNOWN	CCDS34500	20742	1230	409	99719045	99797531	-1	C6orf168	MGC2817, dJ273F20
6	FAXC	ENSG00000146267	ENST00000461803	processed_transcript	KNOWN	None	20742	None	None	99728611	99732088	-1	C6orf168	MGC2817, dJ273F20
6	FAXC	ENSG00000146267	ENST00000480148	processed_transcript	KNOWN	None	20742	None	None	99771359	99797938	-1	C6orf168	MGC2817, dJ273F20
6	FAXC	ENSG00000146267	ENST00000538471	protein_coding	KNOWN	None	20742	390	129	99728543	99790810	-1	C6orf168	MGC2817, dJ273F20
6	LAP3P1	ENSG00000220091	ENST00000403648	processed_pseudogene	KNOWN	None	42364	None	None	83634548	83634841	-1	None	None
17	DHRS7B	ENSG00000109016	ENST00000582161	protein_coding	KNOWN	None	24547	379	125	21026677	21086976	1	None	DKFZp566O084, MGC8916, CGI-93, SDR32C1
17	DHRS7B	ENSG00000109016	ENST00000395511	protein_coding	KNOWN	CCDS11215	24547	978	325	21029965	21095343	1	None	DKFZp566O084, MGC8916, CGI-93, SDR32C1
17	DHRS7B	ENSG00000109016	ENST00000579099	retained_intron	KNOWN	None	24547	None	None	21030260	21075729	1	None	DKFZp566O084, MGC8916, CGI-93, SDR32C1
17	DHRS7B	ENSG00000109016	ENST00000578426	nonsense_mediated_decay	KNOWN	None	24547	273	90	21030268	21094579	1	None	DKFZp566O084, MGC8916, CGI-93, SDR32C1
17	DHRS7B	ENSG00000109016	ENST00000581020	retained_intron	KNOWN	None	24547	None	None	21030277	21032186	1	None	DKFZp566O084, MGC8916, CGI-93, SDR32C1
17	DHRS7B	ENSG00000109016	ENST00000579303	protein_coding	PUTATIVE	None	24547	933	310	21030277	21094758	1	None	DKFZp566O084, MGC8916, CGI-93, SDR32C1
17	DHRS7B	ENSG00000109016	ENST00000577350	retained_intron	KNOWN	None	24547	None	None	21069467	21075756	1	None	DKFZp566O084, MGC8916, CGI-93, SDR32C1
17	DHRS7B	ENSG00000109016	ENST00000346603	retained_intron	KNOWN	None	24547	None	None	21074987	21094731	1	None	DKFZp566O084, MGC8916, CGI-93, SDR32C1
17	DHRS7B	ENSG00000109016	ENST00000583388	protein_coding	NOVEL	None	24547	376	124	21087047	21094758	1	None	DKFZp566O084, MGC8916, CGI-93, SDR32C1
17	DHRS7B	ENSG00000109016	ENST00000581463	protein_coding	PUTATIVE	None	24547	324	107	21087698	21096578	1	None	DKFZp566O084, MGC8916, CGI-93, SDR32C1
1	C1orf194	ENSG00000179902	ENST00000369948	protein_coding	KNOWN	None	32331	510	169	109648573	109655377	-1	None	None
1	C1orf194	ENSG00000179902	ENST00000462402	nonsense_mediated_decay	KNOWN	None	32331	111	36	109648573	109656466	-1	None	None
1	C1orf194	ENSG00000179902	ENST00000369949	protein_coding	KNOWN	CCDS41364	32331	474	157	109648573	109656479	-1	None	None
1	C1orf194	ENSG00000179902	ENST00000369945	protein_coding	NOVEL	None	32331	393	130	109648577	109655369	-1	None	None
1	C1orf194	ENSG00000179902	ENST00000460065	nonsense_mediated_decay	KNOWN	None	32331	147	48	109648577	109655369	-1	None	None
1	C1orf194	ENSG00000179902	ENST00000369942	retained_intron	KNOWN	None	32331	None	None	109648673	109656457	-1	None	None
12	TMTC3	ENSG00000139324	ENST00000549011	protein_coding	KNOWN	None	26899	445	147	88536073	88548101	1	None	FLJ90492, SMILE
12	TMTC3	ENSG00000139324	ENST00000547034	nonsense_mediated_decay	KNOWN	None	26899	1221	406	88536073	88582685	1	None	FLJ90492, SMILE
12	TMTC3	ENSG00000139324	ENST00000266712	protein_coding	KNOWN	CCDS9032	26899	2745	914	88536073	88593664	1	None	FLJ90492, SMILE
12	TMTC3	ENSG00000139324	ENST00000551088	protein_coding	NOVEL	None	26899	437	144	88536084	88554487	1	None	FLJ90492, SMILE
1	FAM163A	ENSG00000143340	ENST00000341785	protein_coding	KNOWN	CCDS1333	28274	504	167	179712298	179785333	1	C1orf76	MGC16664
6	None	ENSG00000227215	ENST00000451856	antisense	KNOWN	None	None	None	None	83642320	83648396	1	None	None
9	AIF1L	ENSG00000126878	ENST00000372314	nonsense_mediated_decay	KNOWN	None	28904	129	42	133971917	133998532	1	C9orf58	IBA2, FLJ12783
9	AIF1L	ENSG00000126878	ENST00000247291	protein_coding	KNOWN	CCDS6939	28904	453	150	133971929	133998532	1	C9orf58	IBA2, FLJ12783
9	AIF1L	ENSG00000126878	ENST00000372302	protein_coding	NOVEL	None	28904	429	142	133971929	133998532	1	C9orf58	IBA2, FLJ12783
9	AIF1L	ENSG00000126878	ENST00000372300	protein_coding	KNOWN	CCDS55349	28904	309	102	133971938	133998532	1	C9orf58	IBA2, FLJ12783
9	AIF1L	ENSG00000126878	ENST00000472942	processed_transcript	KNOWN	None	28904	None	None	133971943	133989664	1	C9orf58	IBA2, FLJ12783
9	AIF1L	ENSG00000126878	ENST00000372298	protein_coding	PUTATIVE	None	28904	294	97	133971943	133996990	1	C9orf58	IBA2, FLJ12783
9	AIF1L	ENSG00000126878	ENST00000478257	retained_intron	KNOWN	None	28904	None	None	133972232	133987844	1	C9orf58	IBA2, FLJ12783
9	AIF1L	ENSG00000126878	ENST00000372297	protein_coding	PUTATIVE	None	28904	141	46	133973536	133995730	1	C9orf58	IBA2, FLJ12783
9	AIF1L	ENSG00000126878	ENST00000372301	protein_coding	PUTATIVE	None	28904	285	94	133986789	133995825	1	C9orf58	IBA2, FLJ12783
9	AIF1L	ENSG00000126878	ENST00000372309	protein_coding	KNOWN	CCDS55348	28904	531	176	133971863	133998539	1	C9orf58	IBA2, FLJ12783
9	AIF1L	ENSG00000126878	ENST00000372312	protein_coding	KNOWN	None	28904	468	155	133978190	133996399	1	C9orf58	IBA2, FLJ12783
9	DOLK	ENSG00000175283	ENST00000372586	protein_coding	KNOWN	CCDS6915	23406	1617	538	131707809	131709898	-1	TMEM15	KIAA1094, DK1
10	TBC1D12	ENSG00000108239	ENST00000225235	protein_coding	KNOWN	CCDS41553	29082	2328	775	96162261	96295687	1	None	KIAA0608
10	TBC1D12	ENSG00000108239	ENST00000485048	processed_transcript	KNOWN	None	29082	None	None	96268199	96293054	1	None	KIAA0608
10	TBC1D12	ENSG00000108239	ENST00000457045	processed_transcript	PUTATIVE	None	29082	None	None	96294096	96295685	1	None	KIAA0608
19	OR7C1	ENSG00000127530	ENST00000248073	protein_coding	KNOWN	CCDS12317	8373	963	320	14909958	14911023	-1	OR7C4	OR19-5
9	None	ENSG00000224067	ENST00000424412	processed_pseudogene	KNOWN	None	None	None	None	114565260	114565715	1	None	None
21	C2CD2	ENSG00000157617	ENST00000449165	protein_coding	PUTATIVE	None	1266	547	181	43305221	43321761	-1	C21orf25	TMEM24L, DKFZP586F0422, C21orf258
21	C2CD2	ENSG00000157617	ENST00000329623	protein_coding	PUTATIVE	CCDS13677	1266	1626	541	43305221	43346799	-1	C21orf25	TMEM24L, DKFZP586F0422, C21orf258
21	C2CD2	ENSG00000157617	ENST00000380486	protein_coding	KNOWN	CCDS42933	1266	2091	696	43305221	43373999	-1	C21orf25	TMEM24L, DKFZP586F0422, C21orf258
21	C2CD2	ENSG00000157617	ENST00000482186	retained_intron	KNOWN	None	1266	None	None	43306782	43328911	-1	C21orf25	TMEM24L, DKFZP586F0422, C21orf258
21	C2CD2	ENSG00000157617	ENST00000482084	retained_intron	KNOWN	None	1266	None	None	43306782	43339142	-1	C21orf25	TMEM24L, DKFZP586F0422, C21orf258
21	C2CD2	ENSG00000157617	ENST00000467074	retained_intron	KNOWN	None	1266	None	None	43321062	43346781	-1	C21orf25	TMEM24L, DKFZP586F0422, C21orf258
21	C2CD2	ENSG00000157617	ENST00000490479	retained_intron	KNOWN	None	1266	None	None	43332269	43362269	-1	C21orf25	TMEM24L, DKFZP586F0422, C21orf258
21	C2CD2	ENSG00000157617	ENST00000478372	processed_transcript	KNOWN	None	1266	None	None	43373055	43373628	-1	C21orf25	TMEM24L, DKFZP586F0422, C21orf258
9	RNU6-1013P	ENSG00000206907	ENST00000384180	snRNA	KNOWN	None	47976	None	None	114602108	114602214	1	None	None
18	NOL4	ENSG00000101746	ENST00000261592	protein_coding	KNOWN	CCDS11907	7870	1917	638	31431064	31803515	-1	None	NOLP, HRIHFB2255, CT125
18	NOL4	ENSG00000101746	ENST00000535384	protein_coding	PUTATIVE	CCDS56058	7870	1062	353	31432254	31628558	-1	None	NOLP, HRIHFB2255, CT125
18	NOL4	ENSG00000101746	ENST00000586314	nonsense_mediated_decay	KNOWN	None	7870	210	69	31432414	31802282	-1	None	NOLP, HRIHFB2255, CT125
18	NOL4	ENSG00000101746	ENST00000589544	protein_coding	KNOWN	CCDS59308	7870	1611	536	31432414	31803435	-1	None	NOLP, HRIHFB2255, CT125
18	NOL4	ENSG00000101746	ENST00000538587	protein_coding	KNOWN	CCDS56059	7870	1695	564	31432553	31802056	-1	None	NOLP, HRIHFB2255, CT125
18	NOL4	ENSG00000101746	ENST00000590712	protein_coding	PUTATIVE	None	7870	1677	558	31432553	31803169	-1	None	NOLP, HRIHFB2255, CT125
18	NOL4	ENSG00000101746	ENST00000586553	protein_coding	PUTATIVE	None	7870	657	218	31463329	31603603	-1	None	NOLP, HRIHFB2255, CT125
18	NOL4	ENSG00000101746	ENST00000588280	processed_transcript	KNOWN	None	7870	None	None	31673425	31736657	-1	None	NOLP, HRIHFB2255, CT125
18	NOL4	ENSG00000101746	ENST00000591917	nonsense_mediated_decay	KNOWN	None	7870	210	69	31684016	31802074	-1	None	NOLP, HRIHFB2255, CT125
18	NOL4	ENSG00000101746	ENST00000587971	processed_transcript	KNOWN	None	7870	None	None	31684018	31802287	-1	None	NOLP, HRIHFB2255, CT125
18	NOL4	ENSG00000101746	ENST00000587953	processed_transcript	KNOWN	None	7870	None	None	31684088	31738593	-1	None	NOLP, HRIHFB2255, CT125
18	NOL4	ENSG00000101746	ENST00000586309	nonsense_mediated_decay	KNOWN	None	7870	75	24	31685089	31802253	-1	None	NOLP, HRIHFB2255, CT125
18	NOL4	ENSG00000101746	ENST00000590846	processed_transcript	KNOWN	None	7870	None	None	31803296	31804916	-1	None	NOLP, HRIHFB2255, CT125
18	NOL4	ENSG00000101746	ENST00000588355	processed_transcript	KNOWN	None	7870	None	None	31803899	31804874	-1	None	NOLP, HRIHFB2255, CT125
18	NOL4	ENSG00000101746	ENST00000269185	protein_coding	KNOWN	None	7870	1269	422	31431071	31803446	-1	None	NOLP, HRIHFB2255, CT125
18	NOL4	ENSG00000101746	ENST00000535475	protein_coding	KNOWN	None	7870	1260	419	31432414	31802282	-1	None	NOLP, HRIHFB2255, CT125
9	MIR4668	ENSG00000266315	ENST00000582284	miRNA	KNOWN	None	41545	None	None	114694380	114694449	1	None	hsa-mir-4668
HSCHR6_MHC_COX	MSH5-SAPCD1	ENSG00000254405	ENST00000480850	nonsense_mediated_decay	KNOWN	None	41994	2556	851	31695202	31720011	1	MSH5-C6orf26	None
HSCHR6_MHC_COX	MSH5-SAPCD1	ENSG00000254405	ENST00000469011	nonsense_mediated_decay	KNOWN	None	41994	793	263	31714604	31720011	1	MSH5-C6orf26	None
HSCHR6_MHC_COX	MSH5-SAPCD1	ENSG00000254405	ENST00000480223	processed_transcript	KNOWN	None	41994	None	None	31715879	31718303	1	MSH5-C6orf26	None
HSCHR6_MHC_COX	MSH5-SAPCD1	ENSG00000254405	ENST00000477722	nonsense_mediated_decay	KNOWN	None	41994	88	28	31717603	31720011	1	MSH5-C6orf26	None
HSCHR6_MHC_COX	MSH5-SAPCD1	ENSG00000254405	ENST00000548094	protein_coding	KNOWN	None	41994	816	271	31695130	31716947	1	MSH5-C6orf26	None
9	RNU6-710P	ENSG00000222356	ENST00000410424	snRNA	KNOWN	None	47673	None	None	114758915	114759019	-1	None	None
10	None	ENSG00000225112	ENST00000412388	antisense	KNOWN	None	None	None	None	13752415	13754054	1	None	None
20	PLTP	ENSG00000100979	ENST00000372420	protein_coding	NOVEL	CCDS56196	9093	1218	405	44527399	44539576	-1	None	BPIFE
20	PLTP	ENSG00000100979	ENST00000372431	protein_coding	KNOWN	CCDS13386	9093	1482	493	44527399	44540786	-1	None	BPIFE
20	PLTP	ENSG00000100979	ENST00000354050	protein_coding	KNOWN	CCDS13387	9093	1326	441	44527399	44540791	-1	None	BPIFE
20	PLTP	ENSG00000100979	ENST00000477313	protein_coding	KNOWN	CCDS13386	9093	1482	493	44527402	44540686	-1	None	BPIFE
20	PLTP	ENSG00000100979	ENST00000420868	protein_coding	NOVEL	CCDS56197	9093	1197	398	44527445	44540794	-1	None	BPIFE
20	PLTP	ENSG00000100979	ENST00000542937	protein_coding	KNOWN	None	9093	1542	513	44527402	44540686	-1	None	BPIFE
HSCHR6_MHC_COX	None	ENSG00000232272	ENST00000414502	processed_transcript	KNOWN	None	None	None	None	29088661	29093357	1	None	None
9	None	ENSG00000259953	ENST00000563434	sense_overlapping	KNOWN	None	None	None	None	114794835	114800010	-1	None	None
9	None	ENSG00000259953	ENST00000568421	sense_overlapping	KNOWN	None	None	None	None	114795674	114798590	-1	None	None
9	None	ENSG00000259953	ENST00000563249	sense_overlapping	KNOWN	None	None	None	None	114798141	114799395	-1	None	None
7	None	ENSG00000146722	ENST00000275590	processed_transcript	KNOWN	None	None	None	None	75021229	75024708	-1	None	None
7	None	ENSG00000146722	ENST00000416371	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	75022639	75024555	-1	None	None
19	ZNF256	ENSG00000152454	ENST00000282308	protein_coding	KNOWN	CCDS12966	13049	1884	627	58452201	58459039	-1	None	BMZF-3
19	ZNF256	ENSG00000152454	ENST00000598928	protein_coding	KNOWN	None	13049	171	56	58452292	58459043	-1	None	BMZF-3
19	USE1	ENSG00000053501	ENST00000601662	nonsense_mediated_decay	KNOWN	None	30882	117	38	17326155	17328426	1	None	p31, SLT1, MDS032
19	USE1	ENSG00000053501	ENST00000263897	protein_coding	KNOWN	CCDS46011	30882	780	259	17326168	17330638	1	None	p31, SLT1, MDS032
19	USE1	ENSG00000053501	ENST00000600970	nonsense_mediated_decay	KNOWN	None	30882	402	133	17326184	17330638	1	None	p31, SLT1, MDS032
19	USE1	ENSG00000053501	ENST00000595101	protein_coding	KNOWN	None	30882	408	135	17326197	17329635	1	None	p31, SLT1, MDS032
19	USE1	ENSG00000053501	ENST00000596136	protein_coding	KNOWN	None	30882	441	146	17326199	17330638	1	None	p31, SLT1, MDS032
19	USE1	ENSG00000053501	ENST00000601592	retained_intron	KNOWN	None	30882	None	None	17326201	17328298	1	None	p31, SLT1, MDS032
19	USE1	ENSG00000053501	ENST00000594724	nonsense_mediated_decay	KNOWN	None	30882	117	38	17326207	17330628	1	None	p31, SLT1, MDS032
19	USE1	ENSG00000053501	ENST00000593597	protein_coding	PUTATIVE	None	30882	484	160	17326529	17330449	1	None	p31, SLT1, MDS032
19	USE1	ENSG00000053501	ENST00000594399	retained_intron	KNOWN	None	30882	None	None	17326638	17328479	1	None	p31, SLT1, MDS032
19	USE1	ENSG00000053501	ENST00000445667	protein_coding	KNOWN	None	30882	780	259	17326155	17330638	1	None	p31, SLT1, MDS032
19	USE1	ENSG00000053501	ENST00000379776	protein_coding	KNOWN	None	30882	441	146	17326207	17330638	1	None	p31, SLT1, MDS032
Y	USP9YP9	ENSG00000232614	ENST00000429406	unprocessed_pseudogene	KNOWN	None	38435	None	None	27876158	27881307	-1	None	None
1	TOR1AIP2	ENSG00000169905	ENST00000367612	protein_coding	KNOWN	CCDS1334	24055	1413	470	179809102	179846934	-1	None	LULL1, NET9, IFRG15
1	TOR1AIP2	ENSG00000169905	ENST00000482587	processed_transcript	KNOWN	None	24055	None	None	179828165	179846934	-1	None	LULL1, NET9, IFRG15
1	TOR1AIP2	ENSG00000169905	ENST00000495650	processed_transcript	KNOWN	None	24055	None	None	179834200	179846925	-1	None	LULL1, NET9, IFRG15
1	TOR1AIP2	ENSG00000169905	ENST00000474318	processed_transcript	KNOWN	None	24055	None	None	179836662	179846917	-1	None	LULL1, NET9, IFRG15
1	TOR1AIP2	ENSG00000169905	ENST00000483123	processed_transcript	KNOWN	None	24055	None	None	179842841	179846907	-1	None	LULL1, NET9, IFRG15
16	ARHGDIG	ENSG00000242173	ENST00000412541	protein_coding	PUTATIVE	None	680	229	75	318726	332084	1	None	RHOGDI-3
16	ARHGDIG	ENSG00000242173	ENST00000435035	protein_coding	PUTATIVE	None	680	409	135	318726	332084	1	None	RHOGDI-3
16	ARHGDIG	ENSG00000242173	ENST00000464609	processed_transcript	PUTATIVE	None	680	None	None	318981	322182	1	None	RHOGDI-3
16	ARHGDIG	ENSG00000242173	ENST00000447871	protein_coding	NOVEL	None	680	534	177	330450	332688	1	None	RHOGDI-3
16	ARHGDIG	ENSG00000242173	ENST00000219409	protein_coding	KNOWN	CCDS10404	680	678	225	330606	333003	1	None	RHOGDI-3
16	ARHGDIG	ENSG00000242173	ENST00000414650	protein_coding	PUTATIVE	None	680	350	115	330855	332810	1	None	RHOGDI-3
16	ARHGDIG	ENSG00000242173	ENST00000477621	retained_intron	KNOWN	None	680	None	None	331082	332840	1	None	RHOGDI-3
12	None	ENSG00000268865	ENST00000599478	protein_coding	NOVEL	None	None	741	246	25055243	25057615	1	None	None
3	LINC00696	ENSG00000256097	ENST00000541313	protein_coding	KNOWN	None	34426	492	163	52097076	52097567	-1	C3orf74	None
17	C17orf105	ENSG00000231256	ENST00000449302	protein_coding	KNOWN	CCDS45695	37241	495	164	41857803	41864980	1	None	None
17	C17orf105	ENSG00000231256	ENST00000590148	nonsense_mediated_decay	KNOWN	None	37241	175	57	41860554	41862201	1	None	None
HSCHR6_MHC_COX	BAG6	ENSG00000229524	ENST00000494617	processed_transcript	PUTATIVE	None	13919	None	None	31594212	31594977	-1	BAT3	G3, D6S52E
HSCHR6_MHC_COX	BAG6	ENSG00000229524	ENST00000481469	processed_transcript	PUTATIVE	None	13919	None	None	31594212	31595728	-1	BAT3	G3, D6S52E
HSCHR6_MHC_COX	BAG6	ENSG00000229524	ENST00000442479	protein_coding	KNOWN	None	13919	3381	1126	31594212	31607585	-1	BAT3	G3, D6S52E
HSCHR6_MHC_COX	BAG6	ENSG00000229524	ENST00000449450	protein_coding	KNOWN	None	13919	3399	1132	31594212	31607827	-1	BAT3	G3, D6S52E
HSCHR6_MHC_COX	BAG6	ENSG00000229524	ENST00000417144	protein_coding	KNOWN	None	13919	3381	1126	31594212	31607897	-1	BAT3	G3, D6S52E
HSCHR6_MHC_COX	BAG6	ENSG00000229524	ENST00000433960	protein_coding	KNOWN	None	13919	410	135	31594319	31596126	-1	BAT3	G3, D6S52E
HSCHR6_MHC_COX	BAG6	ENSG00000229524	ENST00000457802	protein_coding	KNOWN	None	13919	680	225	31594319	31596417	-1	BAT3	G3, D6S52E
HSCHR6_MHC_COX	BAG6	ENSG00000229524	ENST00000485504	retained_intron	KNOWN	None	13919	None	None	31596014	31597334	-1	BAT3	G3, D6S52E
HSCHR6_MHC_COX	BAG6	ENSG00000229524	ENST00000497694	processed_transcript	PUTATIVE	None	13919	None	None	31597037	31599507	-1	BAT3	G3, D6S52E
HSCHR6_MHC_COX	BAG6	ENSG00000229524	ENST00000425568	protein_coding	KNOWN	None	13919	2228	741	31597408	31607870	-1	BAT3	G3, D6S52E
HSCHR6_MHC_COX	BAG6	ENSG00000229524	ENST00000488938	processed_transcript	PUTATIVE	None	13919	None	None	31597873	31599391	-1	BAT3	G3, D6S52E
HSCHR6_MHC_COX	BAG6	ENSG00000229524	ENST00000455101	protein_coding	KNOWN	None	13919	714	237	31598021	31600260	-1	BAT3	G3, D6S52E
HSCHR6_MHC_COX	BAG6	ENSG00000229524	ENST00000456828	protein_coding	KNOWN	None	13919	736	244	31598059	31600681	-1	BAT3	G3, D6S52E
HSCHR6_MHC_COX	BAG6	ENSG00000229524	ENST00000493297	processed_transcript	KNOWN	None	13919	None	None	31598148	31600752	-1	BAT3	G3, D6S52E
HSCHR6_MHC_COX	BAG6	ENSG00000229524	ENST00000445519	protein_coding	KNOWN	None	13919	554	183	31598302	31600694	-1	BAT3	G3, D6S52E
HSCHR6_MHC_COX	BAG6	ENSG00000229524	ENST00000421354	protein_coding	KNOWN	None	13919	1545	514	31599508	31607578	-1	BAT3	G3, D6S52E
HSCHR6_MHC_COX	BAG6	ENSG00000229524	ENST00000494220	processed_transcript	KNOWN	None	13919	None	None	31599685	31600376	-1	BAT3	G3, D6S52E
HSCHR6_MHC_COX	BAG6	ENSG00000229524	ENST00000429956	protein_coding	KNOWN	None	13919	734	243	31602782	31607112	-1	BAT3	G3, D6S52E
HSCHR6_MHC_COX	BAG6	ENSG00000229524	ENST00000422860	protein_coding	KNOWN	None	13919	788	261	31602782	31607350	-1	BAT3	G3, D6S52E
HSCHR6_MHC_COX	BAG6	ENSG00000229524	ENST00000421106	protein_coding	KNOWN	None	13919	734	243	31602782	31607550	-1	BAT3	G3, D6S52E
HSCHR6_MHC_COX	BAG6	ENSG00000229524	ENST00000440499	protein_coding	KNOWN	None	13919	786	261	31602784	31607345	-1	BAT3	G3, D6S52E
HSCHR6_MHC_COX	BAG6	ENSG00000229524	ENST00000442698	protein_coding	KNOWN	None	13919	731	242	31602785	31607840	-1	BAT3	G3, D6S52E
HSCHR6_MHC_COX	BAG6	ENSG00000229524	ENST00000425373	protein_coding	KNOWN	None	13919	779	258	31602791	31607167	-1	BAT3	G3, D6S52E
HSCHR6_MHC_COX	BAG6	ENSG00000229524	ENST00000441994	protein_coding	KNOWN	None	13919	775	257	31602795	31607859	-1	BAT3	G3, D6S52E
HSCHR6_MHC_COX	BAG6	ENSG00000229524	ENST00000453763	protein_coding	KNOWN	None	13919	645	214	31602871	31607515	-1	BAT3	G3, D6S52E
HSCHR6_MHC_COX	BAG6	ENSG00000229524	ENST00000444557	protein_coding	KNOWN	None	13919	698	231	31602890	31607837	-1	BAT3	G3, D6S52E
HSCHR6_MHC_COX	BAG6	ENSG00000229524	ENST00000416797	protein_coding	KNOWN	None	13919	619	205	31602897	31607637	-1	BAT3	G3, D6S52E
HSCHR6_MHC_COX	BAG6	ENSG00000229524	ENST00000438112	protein_coding	KNOWN	None	13919	591	196	31602979	31607171	-1	BAT3	G3, D6S52E
HSCHR6_MHC_COX	BAG6	ENSG00000229524	ENST00000459770	processed_transcript	PUTATIVE	None	13919	None	None	31603920	31607514	-1	BAT3	G3, D6S52E
HSCHR6_MHC_COX	BAG6	ENSG00000229524	ENST00000447798	protein_coding	KNOWN	None	13919	476	157	31604104	31607307	-1	BAT3	G3, D6S52E
HSCHR6_MHC_COX	BAG6	ENSG00000229524	ENST00000482550	processed_transcript	PUTATIVE	None	13919	None	None	31604422	31607830	-1	BAT3	G3, D6S52E
HSCHR6_MHC_COX	BAG6	ENSG00000229524	ENST00000551350	protein_coding	KNOWN	None	13919	3489	1162	31594213	31607892	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MANN	None	ENSG00000223590	ENST00000473531	processed_transcript	NOVEL	None	None	None	None	30996184	30998860	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000223590	ENST00000457728	protein_coding	NOVEL	None	None	1791	596	30996184	31002464	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000223590	ENST00000547599	protein_coding	KNOWN	None	None	1701	566	30996174	31002459	1	None	None
6	FYN	ENSG00000010810	ENST00000368682	protein_coding	KNOWN	CCDS5095	4037	1605	534	111981535	112194270	-1	None	SYN, SLK, MGC45350
6	FYN	ENSG00000010810	ENST00000354650	protein_coding	KNOWN	CCDS5094	4037	1614	537	111981535	112194655	-1	None	SYN, SLK, MGC45350
6	FYN	ENSG00000010810	ENST00000229471	protein_coding	KNOWN	CCDS5096	4037	1449	482	111982485	112080334	-1	None	SYN, SLK, MGC45350
6	FYN	ENSG00000010810	ENST00000368667	protein_coding	KNOWN	CCDS5094	4037	1614	537	111982485	112115089	-1	None	SYN, SLK, MGC45350
6	FYN	ENSG00000010810	ENST00000368678	protein_coding	KNOWN	CCDS5095	4037	1605	534	111982489	112194633	-1	None	SYN, SLK, MGC45350
6	FYN	ENSG00000010810	ENST00000491885	processed_transcript	KNOWN	None	4037	None	None	111982760	111997747	-1	None	SYN, SLK, MGC45350
6	FYN	ENSG00000010810	ENST00000467921	retained_intron	KNOWN	None	4037	None	None	111982963	112017727	-1	None	SYN, SLK, MGC45350
6	FYN	ENSG00000010810	ENST00000471959	retained_intron	KNOWN	None	4037	None	None	111995668	112018018	-1	None	SYN, SLK, MGC45350
6	FYN	ENSG00000010810	ENST00000496864	retained_intron	KNOWN	None	4037	None	None	112017485	112035695	-1	None	SYN, SLK, MGC45350
6	FYN	ENSG00000010810	ENST00000476769	processed_transcript	KNOWN	None	4037	None	None	112017503	112030267	-1	None	SYN, SLK, MGC45350
6	FYN	ENSG00000010810	ENST00000495935	retained_intron	KNOWN	None	4037	None	None	112021138	112024189	-1	None	SYN, SLK, MGC45350
6	FYN	ENSG00000010810	ENST00000467899	retained_intron	KNOWN	None	4037	None	None	112021390	112029430	-1	None	SYN, SLK, MGC45350
6	FYN	ENSG00000010810	ENST00000495927	retained_intron	KNOWN	None	4037	None	None	112023619	112029156	-1	None	SYN, SLK, MGC45350
6	FYN	ENSG00000010810	ENST00000523322	retained_intron	KNOWN	None	4037	None	None	112024081	112081128	-1	None	SYN, SLK, MGC45350
6	FYN	ENSG00000010810	ENST00000462856	protein_coding	KNOWN	None	4037	697	231	112024088	112080317	-1	None	SYN, SLK, MGC45350
6	FYN	ENSG00000010810	ENST00000520518	protein_coding	KNOWN	None	4037	559	185	112024226	112194240	-1	None	SYN, SLK, MGC45350
6	FYN	ENSG00000010810	ENST00000517419	protein_coding	KNOWN	None	4037	526	174	112025223	112081120	-1	None	SYN, SLK, MGC45350
6	FYN	ENSG00000010810	ENST00000518295	protein_coding	KNOWN	None	4037	459	152	112025290	112194484	-1	None	SYN, SLK, MGC45350
6	FYN	ENSG00000010810	ENST00000523238	protein_coding	KNOWN	None	4037	458	151	112025291	112194643	-1	None	SYN, SLK, MGC45350
6	FYN	ENSG00000010810	ENST00000524310	protein_coding	KNOWN	None	4037	435	144	112029133	112102283	-1	None	SYN, SLK, MGC45350
6	FYN	ENSG00000010810	ENST00000523574	protein_coding	KNOWN	None	4037	419	138	112029149	112119626	-1	None	SYN, SLK, MGC45350
6	FYN	ENSG00000010810	ENST00000462598	protein_coding	KNOWN	None	4037	360	119	112029208	112115115	-1	None	SYN, SLK, MGC45350
6	FYN	ENSG00000010810	ENST00000518630	protein_coding	KNOWN	None	4037	354	117	112029214	112179586	-1	None	SYN, SLK, MGC45350
6	FYN	ENSG00000010810	ENST00000523570	protein_coding	KNOWN	None	4037	348	115	112029220	112166147	-1	None	SYN, SLK, MGC45350
6	FYN	ENSG00000010810	ENST00000484067	protein_coding	KNOWN	None	4037	320	105	112035574	112194504	-1	None	SYN, SLK, MGC45350
6	FYN	ENSG00000010810	ENST00000521062	protein_coding	KNOWN	None	4037	309	102	112035585	112141281	-1	None	SYN, SLK, MGC45350
6	FYN	ENSG00000010810	ENST00000521361	retained_intron	KNOWN	None	4037	None	None	112040860	112141183	-1	None	SYN, SLK, MGC45350
6	FYN	ENSG00000010810	ENST00000487824	protein_coding	KNOWN	None	4037	194	63	112041061	112167818	-1	None	SYN, SLK, MGC45350
6	FYN	ENSG00000010810	ENST00000229470	protein_coding	KNOWN	None	4037	1458	485	111982497	112194627	-1	None	SYN, SLK, MGC45350
6	FYN	ENSG00000010810	ENST00000356013	protein_coding	KNOWN	CCDS5096	4037	1449	482	111982497	112194627	-1	None	SYN, SLK, MGC45350
6	FYN	ENSG00000010810	ENST00000538466	protein_coding	KNOWN	CCDS5095	4037	1605	534	111982497	112041265	-1	None	SYN, SLK, MGC45350
12	C12orf77	ENSG00000226397	ENST00000549828	protein_coding	KNOWN	CCDS44846	27282	438	145	25146358	25150373	-1	None	None
12	C12orf77	ENSG00000226397	ENST00000549262	protein_coding	PUTATIVE	None	27282	255	84	25147997	25150453	-1	None	None
12	C12orf77	ENSG00000226397	ENST00000434912	protein_coding	PUTATIVE	None	27282	255	84	25148604	25149853	-1	None	None
19	GADD45B	ENSG00000099860	ENST00000586759	retained_intron	KNOWN	None	4096	None	None	2476120	2476636	1	MYD118	GADD45BETA, DKFZP566B133
19	GADD45B	ENSG00000099860	ENST00000592937	retained_intron	KNOWN	None	4096	None	None	2476125	2478257	1	MYD118	GADD45BETA, DKFZP566B133
19	GADD45B	ENSG00000099860	ENST00000215631	protein_coding	KNOWN	CCDS32868	4096	483	160	2476125	2478257	1	MYD118	GADD45BETA, DKFZP566B133
19	GADD45B	ENSG00000099860	ENST00000585359	nonsense_mediated_decay	KNOWN	None	4096	183	60	2476144	2477655	1	MYD118	GADD45BETA, DKFZP566B133
19	GADD45B	ENSG00000099860	ENST00000587345	protein_coding	PUTATIVE	None	4096	531	176	2476146	2477434	1	MYD118	GADD45BETA, DKFZP566B133
19	GADD45B	ENSG00000099860	ENST00000587887	protein_coding	PUTATIVE	None	4096	199	65	2476354	2477124	1	MYD118	GADD45BETA, DKFZP566B133
19	GADD45B	ENSG00000099860	ENST00000593043	protein_coding	PUTATIVE	None	4096	199	65	2476354	2477124	1	MYD118	GADD45BETA, DKFZP566B133
3	ABHD5	ENSG00000011198	ENST00000456453	protein_coding	PUTATIVE	None	21396	380	125	43731605	43744076	1	None	CGI-58, NCIE2
3	ABHD5	ENSG00000011198	ENST00000458276	protein_coding	KNOWN	CCDS2711	21396	1050	349	43732362	43760541	1	None	CGI-58, NCIE2
3	ABHD5	ENSG00000011198	ENST00000486764	retained_intron	KNOWN	None	21396	None	None	43732384	43741237	1	None	CGI-58, NCIE2
3	ABHD5	ENSG00000011198	ENST00000013894	nonsense_mediated_decay	KNOWN	None	21396	135	44	43732443	43753356	1	None	CGI-58, NCIE2
3	ABHD5	ENSG00000011198	ENST00000454293	protein_coding	PUTATIVE	None	21396	135	44	43732749	43743831	1	None	CGI-58, NCIE2
3	ABHD5	ENSG00000011198	ENST00000413300	protein_coding	PUTATIVE	None	21396	468	155	43753199	43760098	1	None	CGI-58, NCIE2
3	ABHD5	ENSG00000011198	ENST00000463153	processed_transcript	KNOWN	None	21396	None	None	43759160	43775863	1	None	CGI-58, NCIE2
12	IGF1	ENSG00000017427	ENST00000337514	protein_coding	KNOWN	CCDS9091	5464	462	153	102789652	102874423	-1	None	IGF1A
12	IGF1	ENSG00000017427	ENST00000481539	processed_transcript	KNOWN	None	5464	None	None	102796025	102809524	-1	None	IGF1A
12	IGF1	ENSG00000017427	ENST00000392904	protein_coding	NOVEL	CCDS44961	5464	477	158	102796106	102874416	-1	None	IGF1A
12	IGF1	ENSG00000017427	ENST00000424202	protein_coding	NOVEL	CCDS44960	5464	414	137	102796237	102872429	-1	None	IGF1A
12	IGF1	ENSG00000017427	ENST00000392905	protein_coding	NOVEL	None	5464	420	139	102796295	102874102	-1	None	IGF1A
12	IGF1	ENSG00000017427	ENST00000307046	protein_coding	KNOWN	CCDS44962	5464	588	195	102811269	102874341	-1	None	IGF1A
12	IGF1	ENSG00000017427	ENST00000456098	protein_coding	KNOWN	CCDS44961	5464	477	158	102789645	102874378	-1	None	IGF1A
11	TPCN2	ENSG00000162341	ENST00000294309	protein_coding	KNOWN	CCDS8189	20820	2259	752	68816365	68855992	1	None	TPC2
11	TPCN2	ENSG00000162341	ENST00000535009	retained_intron	KNOWN	None	20820	None	None	68816402	68847315	1	None	TPC2
11	TPCN2	ENSG00000162341	ENST00000542467	protein_coding	NOVEL	None	20820	1713	570	68816429	68855671	1	None	TPC2
11	TPCN2	ENSG00000162341	ENST00000534832	processed_transcript	PUTATIVE	None	20820	None	None	68816498	68821858	1	None	TPC2
11	TPCN2	ENSG00000162341	ENST00000442692	processed_transcript	KNOWN	None	20820	None	None	68822630	68858072	1	None	TPC2
7	NSUN5P1	ENSG00000223705	ENST00000473960	processed_transcript	PUTATIVE	None	19146	None	None	75039605	75040822	1	NSUN5B	WBSCR20B
7	NSUN5P1	ENSG00000223705	ENST00000393633	processed_transcript	KNOWN	None	19146	None	None	75039633	75046065	1	NSUN5B	WBSCR20B
7	NSUN5P1	ENSG00000223705	ENST00000457988	processed_transcript	KNOWN	None	19146	None	None	75039645	75046066	1	NSUN5B	WBSCR20B
7	NSUN5P1	ENSG00000223705	ENST00000455158	processed_transcript	KNOWN	None	19146	None	None	75039646	75045404	1	NSUN5B	WBSCR20B
7	NSUN5P1	ENSG00000223705	ENST00000421140	transcribed_unprocessed_pseudogene	KNOWN	None	19146	None	None	75039651	75045876	1	NSUN5B	WBSCR20B
7	NSUN5P1	ENSG00000223705	ENST00000422386	processed_transcript	KNOWN	None	19146	None	None	75039678	75046066	1	NSUN5B	WBSCR20B
7	NSUN5P1	ENSG00000223705	ENST00000464979	processed_transcript	KNOWN	None	19146	None	None	75040957	75044302	1	NSUN5B	WBSCR20B
7	NSUN5P1	ENSG00000223705	ENST00000428392	processed_transcript	KNOWN	None	19146	None	None	75043758	75046066	1	NSUN5B	WBSCR20B
7	NSUN5P1	ENSG00000223705	ENST00000427550	unprocessed_pseudogene	KNOWN	None	19146	None	None	75045182	75045733	1	NSUN5B	WBSCR20B
2	GTF2A1L	ENSG00000242441	ENST00000448460	protein_coding	NOVEL	None	30727	494	163	48844937	48873799	1	None	ALF
2	GTF2A1L	ENSG00000242441	ENST00000437125	protein_coding	NOVEL	None	30727	1005	334	48844937	48874181	1	None	ALF
2	GTF2A1L	ENSG00000242441	ENST00000403751	protein_coding	KNOWN	CCDS46281	30727	1437	478	48844977	48906746	1	None	ALF
2	GTF2A1L	ENSG00000242441	ENST00000423675	nonsense_mediated_decay	KNOWN	None	30727	168	55	48844987	48873737	1	None	ALF
2	GTF2A1L	ENSG00000242441	ENST00000468326	processed_transcript	KNOWN	None	30727	None	None	48844995	48873692	1	None	ALF
2	GTF2A1L	ENSG00000242441	ENST00000508440	protein_coding	PUTATIVE	None	30727	309	102	48896936	48960287	1	None	ALF
2	GTF2A1L	ENSG00000242441	ENST00000430487	protein_coding	KNOWN	CCDS54359	30727	1335	444	48844937	48906742	1	None	ALF
Y	USP9YP19	ENSG00000225326	ENST00000412165	unprocessed_pseudogene	KNOWN	None	38755	None	None	27894743	27896353	-1	None	None
Y	XKRYP5	ENSG00000223406	ENST00000449659	unprocessed_pseudogene	KNOWN	None	23912	None	None	27898535	27899017	1	None	None
5	None	ENSG00000249175	ENST00000513849	antisense	KNOWN	None	None	None	None	94124494	94129304	1	None	None
1	STX12	ENSG00000117758	ENST00000373943	protein_coding	KNOWN	CCDS310	11430	831	276	28099694	28150963	1	None	STX13, STX14
1	STX12	ENSG00000117758	ENST00000440806	protein_coding	NOVEL	None	11430	645	214	28099746	28138779	1	None	STX13, STX14
1	STX12	ENSG00000117758	ENST00000468761	processed_transcript	KNOWN	None	11430	None	None	28099766	28128550	1	None	STX13, STX14
1	STX12	ENSG00000117758	ENST00000481874	processed_transcript	KNOWN	None	11430	None	None	28136434	28138745	1	None	STX13, STX14
1	STX12	ENSG00000117758	ENST00000472285	processed_transcript	KNOWN	None	11430	None	None	28136758	28144585	1	None	STX13, STX14
16	None	ENSG00000259840	ENST00000567096	lincRNA	KNOWN	None	None	None	None	760746	761277	-1	None	None
5	None	ENSG00000243806	ENST00000478965	processed_pseudogene	KNOWN	None	None	None	None	94161666	94162399	-1	None	None
16	MIR662	ENSG00000207579	ENST00000384847	miRNA	KNOWN	None	32918	None	None	820183	820277	1	MIRN662	hsa-mir-662
12	GRASP	ENSG00000161835	ENST00000293662	protein_coding	KNOWN	CCDS8817	18707	1188	395	52400724	52409648	1	None	None
12	GRASP	ENSG00000161835	ENST00000552963	processed_transcript	KNOWN	None	18707	None	None	52402972	52409673	1	None	None
12	GRASP	ENSG00000161835	ENST00000552049	protein_coding	KNOWN	None	18707	759	252	52404305	52409671	1	None	None
12	GRASP	ENSG00000161835	ENST00000546756	protein_coding	PUTATIVE	None	18707	664	220	52404311	52408849	1	None	None
12	GRASP	ENSG00000161835	ENST00000550809	retained_intron	KNOWN	None	18707	None	None	52404695	52405135	1	None	None
12	GRASP	ENSG00000161835	ENST00000547749	processed_transcript	PUTATIVE	None	18707	None	None	52404858	52407681	1	None	None
12	GRASP	ENSG00000161835	ENST00000552508	retained_intron	KNOWN	None	18707	None	None	52407280	52408966	1	None	None
12	GRASP	ENSG00000161835	ENST00000548505	retained_intron	KNOWN	None	18707	None	None	52407463	52408315	1	None	None
12	GRASP	ENSG00000161835	ENST00000380039	protein_coding	KNOWN	None	18707	759	252	52404967	52409648	1	None	None
5	None	ENSG00000249545	ENST00000503710	antisense	KNOWN	None	None	None	None	94314855	94316597	1	None	None
9	NUP188	ENSG00000095319	ENST00000372577	protein_coding	KNOWN	CCDS35156	17859	5250	1749	131709978	131769375	1	KIAA0169	None
9	NUP188	ENSG00000095319	ENST00000491990	processed_transcript	KNOWN	None	17859	None	None	131709986	131720333	1	KIAA0169	None
9	NUP188	ENSG00000095319	ENST00000550219	processed_transcript	KNOWN	None	17859	None	None	131710296	131719290	1	KIAA0169	None
9	NUP188	ENSG00000095319	ENST00000464729	retained_intron	KNOWN	None	17859	None	None	131711238	131715174	1	KIAA0169	None
9	NUP188	ENSG00000095319	ENST00000465344	processed_transcript	PUTATIVE	None	17859	None	None	131745793	131747541	1	KIAA0169	None
9	NUP188	ENSG00000095319	ENST00000477069	retained_intron	KNOWN	None	17859	None	None	131747250	131766272	1	KIAA0169	None
9	NUP188	ENSG00000095319	ENST00000491502	processed_transcript	KNOWN	None	17859	None	None	131748868	131755509	1	KIAA0169	None
9	NUP188	ENSG00000095319	ENST00000467044	processed_transcript	KNOWN	None	17859	None	None	131755374	131757169	1	KIAA0169	None
9	NUP188	ENSG00000095319	ENST00000485158	retained_intron	KNOWN	None	17859	None	None	131756675	131757479	1	KIAA0169	None
9	NUP188	ENSG00000095319	ENST00000495726	retained_intron	KNOWN	None	17859	None	None	131757415	131760875	1	KIAA0169	None
9	NUP188	ENSG00000095319	ENST00000487952	retained_intron	KNOWN	None	17859	None	None	131761880	131764170	1	KIAA0169	None
5	SRA1	ENSG00000213523	ENST00000602657	protein_coding	PUTATIVE	None	11281	226	74	139916925	139930713	-1	None	SRA, STRAA1
5	SRA1	ENSG00000213523	ENST00000602775	retained_intron	KNOWN	None	11281	None	None	139929653	139937041	-1	None	SRA, STRAA1
5	SRA1	ENSG00000213523	ENST00000336283	protein_coding	KNOWN	CCDS34245	11281	711	236	139929653	139937895	-1	None	SRA, STRAA1
5	SRA1	ENSG00000213523	ENST00000523259	retained_intron	KNOWN	None	11281	None	None	139930119	139937031	-1	None	SRA, STRAA1
5	SRA1	ENSG00000213523	ENST00000602875	retained_intron	KNOWN	None	11281	None	None	139930137	139937031	-1	None	SRA, STRAA1
5	SRA1	ENSG00000213523	ENST00000520427	processed_transcript	KNOWN	None	11281	None	None	139930267	139937262	-1	None	SRA, STRAA1
16	None	ENSG00000260022	ENST00000569106	antisense	KNOWN	None	None	None	None	933780	935090	1	None	None
3	SLC6A6	ENSG00000131389	ENST00000490683	processed_transcript	KNOWN	None	11052	None	None	14444076	14452831	1	None	TAUT
3	SLC6A6	ENSG00000131389	ENST00000427436	nonsense_mediated_decay	KNOWN	None	11052	1080	359	14444076	14520409	1	None	TAUT
3	SLC6A6	ENSG00000131389	ENST00000454876	protein_coding	KNOWN	CCDS33705	11052	1863	620	14444076	14530857	1	None	TAUT
3	SLC6A6	ENSG00000131389	ENST00000458124	nonsense_mediated_decay	KNOWN	None	11052	1080	359	14444076	14530857	1	None	TAUT
3	SLC6A6	ENSG00000131389	ENST00000416216	protein_coding	KNOWN	CCDS46765	11052	603	200	14444120	14489696	1	None	TAUT
3	SLC6A6	ENSG00000131389	ENST00000428884	retained_intron	KNOWN	None	11052	None	None	14444121	14485850	1	None	TAUT
3	SLC6A6	ENSG00000131389	ENST00000435095	nonsense_mediated_decay	KNOWN	None	11052	339	112	14444125	14499569	1	None	TAUT
3	SLC6A6	ENSG00000131389	ENST00000484191	processed_transcript	KNOWN	None	11052	None	None	14444148	14499534	1	None	TAUT
3	SLC6A6	ENSG00000131389	ENST00000452775	protein_coding	KNOWN	None	11052	329	108	14474178	14487324	1	None	TAUT
3	SLC6A6	ENSG00000131389	ENST00000452151	protein_coding	PUTATIVE	None	11052	284	93	14513750	14526411	1	None	TAUT
3	SLC6A6	ENSG00000131389	ENST00000360861	protein_coding	KNOWN	CCDS33705	11052	1863	620	14444106	14530855	1	None	TAUT
HSCHR6_MHC_MANN	C6orf15	ENSG00000231624	ENST00000412706	protein_coding	KNOWN	None	13927	978	325	31123949	31125285	-1	None	STG
12	ACTR6	ENSG00000075089	ENST00000551652	protein_coding	PUTATIVE	None	24025	577	191	100592900	100604098	1	None	ARP6, FLJ13433
12	ACTR6	ENSG00000075089	ENST00000553038	nonsense_mediated_decay	KNOWN	None	24025	384	127	100593643	100635643	1	None	ARP6, FLJ13433
12	ACTR6	ENSG00000075089	ENST00000188312	protein_coding	KNOWN	CCDS9074	24025	1191	396	100593865	100618201	1	None	ARP6, FLJ13433
12	ACTR6	ENSG00000075089	ENST00000551517	retained_intron	KNOWN	None	24025	None	None	100594589	100601699	1	None	ARP6, FLJ13433
12	ACTR6	ENSG00000075089	ENST00000546902	protein_coding	PUTATIVE	None	24025	945	314	100594594	100618202	1	None	ARP6, FLJ13433
12	ACTR6	ENSG00000075089	ENST00000550813	processed_transcript	PUTATIVE	None	24025	None	None	100594595	100600036	1	None	ARP6, FLJ13433
12	ACTR6	ENSG00000075089	ENST00000549977	retained_intron	KNOWN	None	24025	None	None	100594595	100601699	1	None	ARP6, FLJ13433
12	ACTR6	ENSG00000075089	ENST00000547458	nonsense_mediated_decay	KNOWN	None	24025	435	144	100594595	100603913	1	None	ARP6, FLJ13433
12	ACTR6	ENSG00000075089	ENST00000548180	nonsense_mediated_decay	KNOWN	None	24025	267	88	100594595	100618201	1	None	ARP6, FLJ13433
12	ACTR6	ENSG00000075089	ENST00000551440	retained_intron	KNOWN	None	24025	None	None	100594604	100599251	1	None	ARP6, FLJ13433
12	ACTR6	ENSG00000075089	ENST00000552064	nonsense_mediated_decay	KNOWN	None	24025	267	88	100594608	100612323	1	None	ARP6, FLJ13433
12	ACTR6	ENSG00000075089	ENST00000552376	protein_coding	NOVEL	None	24025	1131	376	100594608	100618199	1	None	ARP6, FLJ13433
12	ACTR6	ENSG00000075089	ENST00000551617	protein_coding	PUTATIVE	None	24025	885	294	100594629	100618135	1	None	ARP6, FLJ13433
17	TEKT1	ENSG00000167858	ENST00000571744	protein_coding	PUTATIVE	None	15534	195	64	6692452	6716335	-1	None	None
17	TEKT1	ENSG00000167858	ENST00000338694	protein_coding	KNOWN	CCDS11083	15534	1257	418	6701312	6735080	-1	None	None
17	TEKT1	ENSG00000167858	ENST00000575592	nonsense_mediated_decay	KNOWN	None	15534	243	80	6702980	6735080	-1	None	None
17	TEKT1	ENSG00000167858	ENST00000572291	protein_coding	PUTATIVE	None	15534	433	143	6703300	6718496	-1	None	None
17	TEKT1	ENSG00000167858	ENST00000573966	retained_intron	KNOWN	None	15534	None	None	6718254	6735077	-1	None	None
17	TEKT1	ENSG00000167858	ENST00000535086	protein_coding	KNOWN	None	15534	819	272	6702980	6735025	-1	None	None
Y	CDY22P	ENSG00000229343	ENST00000451423	unprocessed_pseudogene	KNOWN	None	23866	None	None	27959160	27960713	1	None	None
1	FHAD1	ENSG00000142621	ENST00000436024	nonsense_mediated_decay	KNOWN	None	29408	609	202	15573768	15726858	1	None	KIAA1937
1	FHAD1	ENSG00000142621	ENST00000433640	protein_coding	PUTATIVE	None	29408	570	189	15573776	15623258	1	None	KIAA1937
1	FHAD1	ENSG00000142621	ENST00000375998	protein_coding	PUTATIVE	None	29408	4239	1412	15578281	15724025	1	None	KIAA1937
1	FHAD1	ENSG00000142621	ENST00000462113	processed_transcript	PUTATIVE	None	29408	None	None	15613541	15616137	1	None	KIAA1937
1	FHAD1	ENSG00000142621	ENST00000375996	retained_intron	KNOWN	None	29408	None	None	15632257	15656555	1	None	KIAA1937
1	FHAD1	ENSG00000142621	ENST00000375997	protein_coding	PUTATIVE	None	29408	976	324	15632258	15656555	1	None	KIAA1937
1	FHAD1	ENSG00000142621	ENST00000524761	protein_coding	PUTATIVE	None	29408	378	125	15632265	15654925	1	None	KIAA1937
1	FHAD1	ENSG00000142621	ENST00000375995	protein_coding	PUTATIVE	None	29408	756	251	15632276	15656094	1	None	KIAA1937
1	FHAD1	ENSG00000142621	ENST00000483694	processed_transcript	KNOWN	None	29408	None	None	15638601	15641735	1	None	KIAA1937
1	FHAD1	ENSG00000142621	ENST00000459961	retained_intron	KNOWN	None	29408	None	None	15650965	15656504	1	None	KIAA1937
1	FHAD1	ENSG00000142621	ENST00000472131	retained_intron	KNOWN	None	29408	None	None	15653313	15656230	1	None	KIAA1937
1	FHAD1	ENSG00000142621	ENST00000471347	processed_transcript	KNOWN	None	29408	None	None	15653616	15724012	1	None	KIAA1937
1	FHAD1	ENSG00000142621	ENST00000444385	protein_coding	PUTATIVE	None	29408	2081	692	15668257	15711054	1	None	KIAA1937
1	FHAD1	ENSG00000142621	ENST00000529606	protein_coding	PUTATIVE	None	29408	2106	701	15671594	15724237	1	None	KIAA1937
1	FHAD1	ENSG00000142621	ENST00000314668	protein_coding	PUTATIVE	None	29408	1944	647	15671927	15724622	1	None	KIAA1937
1	FHAD1	ENSG00000142621	ENST00000532408	processed_transcript	KNOWN	None	29408	None	None	15671956	15687119	1	None	KIAA1937
1	FHAD1	ENSG00000142621	ENST00000483120	retained_intron	KNOWN	None	29408	None	None	15684287	15690813	1	None	KIAA1937
1	FHAD1	ENSG00000142621	ENST00000481324	nonsense_mediated_decay	KNOWN	None	29408	1411	469	15689193	15724623	1	None	KIAA1937
1	FHAD1	ENSG00000142621	ENST00000477846	processed_transcript	KNOWN	None	29408	None	None	15702196	15726779	1	None	KIAA1937
1	FHAD1	ENSG00000142621	ENST00000495195	processed_transcript	KNOWN	None	29408	None	None	15707776	15724025	1	None	KIAA1937
1	FHAD1	ENSG00000142621	ENST00000472086	processed_transcript	KNOWN	None	29408	None	None	15709873	15724025	1	None	KIAA1937
1	FHAD1	ENSG00000142621	ENST00000472449	processed_transcript	KNOWN	None	29408	None	None	15717643	15726779	1	None	KIAA1937
1	FHAD1	ENSG00000142621	ENST00000358897	protein_coding	KNOWN	None	29408	4239	1412	15573768	15724622	1	None	KIAA1937
1	FHAD1	ENSG00000142621	ENST00000417793	protein_coding	KNOWN	None	29408	4131	1376	15573768	15724622	1	None	KIAA1937
1	FHAD1	ENSG00000142621	ENST00000375999	protein_coding	KNOWN	None	29408	4362	1453	15573768	15714876	1	None	KIAA1937
1	FHAD1	ENSG00000142621	ENST00000401090	protein_coding	KNOWN	None	29408	951	316	15632283	15656114	1	None	KIAA1937
1	FHAD1	ENSG00000142621	ENST00000314740	protein_coding	KNOWN	None	29408	2052	683	15671594	15724237	1	None	KIAA1937
3	GXYLT2	ENSG00000172986	ENST00000389617	protein_coding	KNOWN	CCDS46870	33383	1332	443	72937224	73026077	1	GLT8D4	None
3	GXYLT2	ENSG00000172986	ENST00000498315	protein_coding	PUTATIVE	None	33383	306	101	72957173	73004332	1	GLT8D4	None
3	GXYLT2	ENSG00000172986	ENST00000491839	protein_coding	PUTATIVE	None	33383	494	163	73004366	73047289	1	GLT8D4	None
15	CHP1	ENSG00000187446	ENST00000558351	processed_transcript	KNOWN	None	17433	None	None	41523037	41571633	1	None	Sid470p, CHP, SLC9A1BP, p22, p24
15	CHP1	ENSG00000187446	ENST00000560411	nonsense_mediated_decay	KNOWN	None	17433	162	53	41523338	41571917	1	None	Sid470p, CHP, SLC9A1BP, p22, p24
15	CHP1	ENSG00000187446	ENST00000334660	protein_coding	KNOWN	CCDS10073	17433	588	195	41523341	41574043	1	None	Sid470p, CHP, SLC9A1BP, p22, p24
15	CHP1	ENSG00000187446	ENST00000560784	nonsense_mediated_decay	KNOWN	None	17433	372	123	41523420	41571038	1	None	Sid470p, CHP, SLC9A1BP, p22, p24
15	CHP1	ENSG00000187446	ENST00000561280	processed_transcript	KNOWN	None	17433	None	None	41523437	41555064	1	None	Sid470p, CHP, SLC9A1BP, p22, p24
15	CHP1	ENSG00000187446	ENST00000392151	nonsense_mediated_decay	KNOWN	None	17433	387	128	41523437	41571917	1	None	Sid470p, CHP, SLC9A1BP, p22, p24
15	CHP1	ENSG00000187446	ENST00000560397	protein_coding	NOVEL	None	17433	465	154	41523491	41571600	1	None	Sid470p, CHP, SLC9A1BP, p22, p24
15	CHP1	ENSG00000187446	ENST00000560633	processed_transcript	KNOWN	None	17433	None	None	41548882	41564573	1	None	Sid470p, CHP, SLC9A1BP, p22, p24
15	CHP1	ENSG00000187446	ENST00000560965	protein_coding	PUTATIVE	None	17433	274	90	41549108	41564573	1	None	Sid470p, CHP, SLC9A1BP, p22, p24
11	OR52H1	ENSG00000181616	ENST00000322653	protein_coding	KNOWN	CCDS31386	15218	963	320	5565719	5566779	-1	None	None
10	None	ENSG00000231398	ENST00000456509	processed_pseudogene	KNOWN	None	None	None	None	99034769	99037854	1	None	None
3	WDR49	ENSG00000174776	ENST00000308378	protein_coding	KNOWN	CCDS3201	26587	2094	697	167196472	167371289	-1	None	FLJ33620
3	WDR49	ENSG00000174776	ENST00000476376	protein_coding	PUTATIVE	None	26587	1569	522	167196475	167293019	-1	None	FLJ33620
3	WDR49	ENSG00000174776	ENST00000472600	protein_coding	PUTATIVE	None	26587	2024	673	167196475	167338345	-1	None	FLJ33620
3	WDR49	ENSG00000174776	ENST00000479765	protein_coding	PUTATIVE	None	26587	1557	518	167196475	167371771	-1	None	FLJ33620
3	WDR49	ENSG00000174776	ENST00000493061	protein_coding	PUTATIVE	None	26587	416	137	167240120	167248977	-1	None	FLJ33620
3	WDR49	ENSG00000174776	ENST00000460448	nonsense_mediated_decay	KNOWN	None	26587	186	61	167250671	167371713	-1	None	FLJ33620
3	WDR49	ENSG00000174776	ENST00000466760	protein_coding	PUTATIVE	None	26587	356	117	167272561	167371766	-1	None	FLJ33620
3	WDR49	ENSG00000174776	ENST00000488012	protein_coding	PUTATIVE	None	26587	340	112	167339257	167371728	-1	None	FLJ33620
3	WDR49	ENSG00000174776	ENST00000471198	nonsense_mediated_decay	KNOWN	None	26587	396	131	167344921	167371668	-1	None	FLJ33620
3	WDR49	ENSG00000174776	ENST00000453925	protein_coding	KNOWN	None	26587	1989	662	167196475	167338345	-1	None	FLJ33620
11	OR52B6	ENSG00000187747	ENST00000345043	protein_coding	KNOWN	CCDS41611	15211	1008	335	5602107	5603114	1	None	None
4	C4orf29	ENSG00000164074	ENST00000473040	nonsense_mediated_decay	KNOWN	None	26111	198	65	128886470	128957441	1	None	FLJ21106
4	C4orf29	ENSG00000164074	ENST00000444616	protein_coding	KNOWN	None	26111	1245	414	128886532	128952468	1	None	FLJ21106
4	C4orf29	ENSG00000164074	ENST00000480407	nonsense_mediated_decay	KNOWN	None	26111	483	160	128886561	128952471	1	None	FLJ21106
4	C4orf29	ENSG00000164074	ENST00000388795	protein_coding	PUTATIVE	None	26111	1149	382	128886566	128960866	1	None	FLJ21106
4	C4orf29	ENSG00000164074	ENST00000513371	protein_coding	KNOWN	None	26111	316	104	128886629	128930112	1	None	FLJ21106
4	C4orf29	ENSG00000164074	ENST00000398965	protein_coding	KNOWN	CCDS47131	26111	1245	414	128886461	128952445	1	None	FLJ21106
10	None	ENSG00000237169	ENST00000414870	processed_pseudogene	KNOWN	None	None	None	None	99068895	99069715	-1	None	None
HSCHR6_MHC_SSTO	LY6G6F	ENSG00000241822	ENST00000442105	protein_coding	KNOWN	None	13933	894	297	31664617	31668329	1	LY6G6D, C6orf21	G6f, NG32
HSCHR6_MHC_SSTO	LY6G6F	ENSG00000241822	ENST00000556331	protein_coding	KNOWN	None	13933	1149	382	31664595	31675540	1	LY6G6D, C6orf21	G6f, NG32
10	None	ENSG00000225850	ENST00000445808	antisense	KNOWN	None	None	None	None	99094321	99102770	1	None	None
7	AGBL3	ENSG00000146856	ENST00000436302	protein_coding	KNOWN	CCDS47718	27981	2763	920	134671259	134820530	1	None	MGC32955
7	AGBL3	ENSG00000146856	ENST00000275763	nonsense_mediated_decay	KNOWN	None	27981	1866	621	134671264	134800627	1	None	MGC32955
7	AGBL3	ENSG00000146856	ENST00000435976	protein_coding	PUTATIVE	None	27981	2115	704	134671264	134832715	1	None	MGC32955
7	AGBL3	ENSG00000146856	ENST00000455283	protein_coding	NOVEL	None	27981	280	92	134671281	134701958	1	None	MGC32955
7	AGBL3	ENSG00000146856	ENST00000476700	retained_intron	KNOWN	None	27981	None	None	134671299	134697262	1	None	MGC32955
7	AGBL3	ENSG00000146856	ENST00000494702	processed_transcript	KNOWN	None	27981	None	None	134671306	134680301	1	None	MGC32955
7	AGBL3	ENSG00000146856	ENST00000470839	retained_intron	KNOWN	None	27981	None	None	134671355	134673115	1	None	MGC32955
7	AGBL3	ENSG00000146856	ENST00000359383	protein_coding	KNOWN	None	27981	534	177	134671259	134695016	1	None	MGC32955
7	AGBL3	ENSG00000146856	ENST00000458078	protein_coding	KNOWN	None	27981	2928	975	134671259	134820521	1	None	MGC32955
9	None	ENSG00000204837	ENST00000454645	lincRNA	KNOWN	None	None	None	None	41961615	42019580	-1	None	None
HSCHR6_MHC_COX	HLA-A	ENSG00000224320	ENST00000443552	protein_coding	KNOWN	None	4931	1098	365	29898587	29903209	1	None	None
HSCHR6_MHC_COX	HLA-A	ENSG00000224320	ENST00000417978	protein_coding	KNOWN	None	4931	1116	371	29899569	29903209	1	None	None
HSCHR6_MHC_COX	HLA-A	ENSG00000224320	ENST00000484494	retained_intron	KNOWN	None	4931	None	None	29899872	29903209	1	None	None
HSCHR6_MHC_COX	HLA-A	ENSG00000224320	ENST00000442939	protein_coding	KNOWN	None	4931	900	299	29899873	29903209	1	None	None
HSCHR6_MHC_COX	HLA-A	ENSG00000224320	ENST00000490454	retained_intron	KNOWN	None	4931	None	None	29899876	29903209	1	None	None
HSCHR6_MHC_COX	HLA-A	ENSG00000224320	ENST00000479675	retained_intron	KNOWN	None	4931	None	None	29899878	29902606	1	None	None
HSCHR6_MHC_COX	HLA-A	ENSG00000224320	ENST00000479969	retained_intron	KNOWN	None	4931	None	None	29899878	29902606	1	None	None
HSCHR6_MHC_COX	HLA-A	ENSG00000224320	ENST00000549869	protein_coding	KNOWN	None	4931	1098	365	29899856	29903208	1	None	None
HSCHR6_MHC_COX	HLA-A	ENSG00000224320	ENST00000547112	protein_coding	KNOWN	None	4931	462	153	29899834	29900786	1	None	None
HSCHR6_MHC_COX	HLA-A	ENSG00000224320	ENST00000552498	protein_coding	KNOWN	None	4931	345	114	29899834	29903165	1	None	None
HSCHR6_MHC_MCF	EGFL8	ENSG00000240592	ENST00000455889	protein_coding	KNOWN	None	13944	882	293	32208792	32212490	1	C6orf8	NG3
HSCHR6_MHC_MCF	EGFL8	ENSG00000240592	ENST00000452290	protein_coding	KNOWN	None	13944	882	293	32208814	32212490	1	C6orf8	NG3
HSCHR6_MHC_MCF	EGFL8	ENSG00000240592	ENST00000423079	protein_coding	NOVEL	None	13944	775	257	32208869	32211865	1	C6orf8	NG3
HSCHR6_MHC_MCF	EGFL8	ENSG00000240592	ENST00000483183	retained_intron	KNOWN	None	13944	None	None	32209445	32212490	1	C6orf8	NG3
HSCHR6_MHC_MCF	EGFL8	ENSG00000240592	ENST00000495358	retained_intron	KNOWN	None	13944	None	None	32210402	32211378	1	C6orf8	NG3
HSCHR6_MHC_MCF	EGFL8	ENSG00000240592	ENST00000490907	processed_transcript	KNOWN	None	13944	None	None	32211752	32212490	1	C6orf8	NG3
1	TOR1AIP1	ENSG00000143337	ENST00000528443	protein_coding	NOVEL	None	29456	1245	414	179851177	179886864	1	None	LAP1B, FLJ13142
1	TOR1AIP1	ENSG00000143337	ENST00000271583	protein_coding	NOVEL	None	29456	1800	599	179851432	179888412	1	None	LAP1B, FLJ13142
1	TOR1AIP1	ENSG00000143337	ENST00000435319	protein_coding	KNOWN	CCDS1335	29456	1752	583	179851447	179889211	1	None	LAP1B, FLJ13142
1	TOR1AIP1	ENSG00000143337	ENST00000531630	nonsense_mediated_decay	KNOWN	None	29456	351	116	179851929	179877808	1	None	LAP1B, FLJ13142
1	TOR1AIP1	ENSG00000143337	ENST00000527391	protein_coding	NOVEL	None	29456	593	196	179852024	179883189	1	None	LAP1B, FLJ13142
1	TOR1AIP1	ENSG00000143337	ENST00000529091	nonsense_mediated_decay	KNOWN	None	29456	191	62	179852101	179873157	1	None	LAP1B, FLJ13142
1	TOR1AIP1	ENSG00000143337	ENST00000527867	processed_transcript	KNOWN	None	29456	None	None	179853072	179870522	1	None	LAP1B, FLJ13142
1	TOR1AIP1	ENSG00000143337	ENST00000474875	processed_transcript	KNOWN	None	29456	None	None	179853097	179886860	1	None	LAP1B, FLJ13142
1	TOR1AIP1	ENSG00000143337	ENST00000531726	processed_transcript	KNOWN	None	29456	None	None	179853103	179873876	1	None	LAP1B, FLJ13142
1	TOR1AIP1	ENSG00000143337	ENST00000524653	processed_transcript	KNOWN	None	29456	None	None	179853120	179877760	1	None	LAP1B, FLJ13142
1	TOR1AIP1	ENSG00000143337	ENST00000447964	protein_coding	NOVEL	None	29456	888	295	179873101	179887306	1	None	LAP1B, FLJ13142
4	HIGD1AP13	ENSG00000251019	ENST00000509878	processed_pseudogene	KNOWN	None	43008	None	None	79570108	79570396	-1	None	None
5	None	ENSG00000225165	ENST00000507713	processed_pseudogene	KNOWN	None	None	None	None	94775748	94776391	1	None	None
12	KLHL42	ENSG00000087448	ENST00000381271	protein_coding	KNOWN	CCDS31763	29252	1518	505	27932953	27955973	1	KLHDC5	KIAA1340, Ctb9
12	KLHL42	ENSG00000087448	ENST00000539176	nonsense_mediated_decay	KNOWN	None	29252	1110	369	27932981	27951089	1	KLHDC5	KIAA1340, Ctb9
12	KLHL42	ENSG00000087448	ENST00000543254	protein_coding	PUTATIVE	None	29252	538	178	27933800	27945076	1	KLHDC5	KIAA1340, Ctb9
12	KLHL42	ENSG00000087448	ENST00000540301	retained_intron	KNOWN	None	29252	None	None	27940568	27944859	1	KLHDC5	KIAA1340, Ctb9
2	HNMT	ENSG00000150540	ENST00000410115	protein_coding	KNOWN	CCDS2181	5028	879	292	138721590	138771823	1	None	None
2	HNMT	ENSG00000150540	ENST00000329366	protein_coding	KNOWN	CCDS33296	5028	381	126	138721880	138739248	1	None	None
2	HNMT	ENSG00000150540	ENST00000280097	protein_coding	KNOWN	CCDS2181	5028	879	292	138721880	138773930	1	None	None
2	HNMT	ENSG00000150540	ENST00000280096	protein_coding	KNOWN	CCDS33297	5028	156	51	138722043	138725014	1	None	None
2	HNMT	ENSG00000150540	ENST00000475675	nonsense_mediated_decay	KNOWN	CCDS33297	5028	156	51	138722049	138749504	1	None	None
2	HNMT	ENSG00000150540	ENST00000467390	processed_transcript	KNOWN	None	5028	None	None	138722050	138759944	1	None	None
2	HNMT	ENSG00000150540	ENST00000485653	processed_transcript	KNOWN	None	5028	None	None	138722077	138771564	1	None	None
2	HNMT	ENSG00000150540	ENST00000480534	processed_transcript	KNOWN	None	5028	None	None	138722084	138746305	1	None	None
9	RNU6-855P	ENSG00000222327	ENST00000410395	snRNA	KNOWN	None	47818	None	None	114900077	114900180	1	None	None
16	None	ENSG00000260316	ENST00000564460	sense_intronic	KNOWN	None	None	None	None	950520	955224	-1	None	None
4	None	ENSG00000239793	ENST00000478593	processed_pseudogene	KNOWN	None	None	None	None	79689653	79689904	1	None	None
4	None	ENSG00000260278	ENST00000564925	antisense	KNOWN	None	None	None	None	79694808	79697127	-1	None	None
5	RNU6-308P	ENSG00000212259	ENST00000390957	snRNA	KNOWN	None	47271	None	None	94857073	94857179	1	None	None
9	None	ENSG00000200261	ENST00000363391	misc_RNA	NOVEL	None	None	None	None	114931566	114931677	1	None	None
4	RNU6-948P	ENSG00000252183	ENST00000516374	snRNA	KNOWN	None	47911	None	None	122113952	122114058	-1	None	None
9	None	ENSG00000225513	ENST00000451825	processed_pseudogene	KNOWN	None	None	None	None	114935802	114936251	-1	None	None
4	None	ENSG00000207148	ENST00000384419	misc_RNA	NOVEL	None	None	None	None	122250224	122250325	-1	None	None
19	WDR88	ENSG00000166359	ENST00000592765	protein_coding	PUTATIVE	None	26999	495	164	33622996	33639710	1	PQWD	None
19	WDR88	ENSG00000166359	ENST00000361680	protein_coding	KNOWN	None	26999	1281	426	33622998	33666701	1	PQWD	None
19	WDR88	ENSG00000166359	ENST00000355868	protein_coding	KNOWN	CCDS12429	26999	1419	472	33623000	33666701	1	PQWD	None
16	None	ENSG00000260439	ENST00000567820	antisense	KNOWN	None	None	None	None	971033	984266	1	None	None
16	None	ENSG00000260439	ENST00000569574	antisense	KNOWN	None	None	None	None	971073	984495	1	None	None
4	MIR5096	ENSG00000266270	ENST00000583713	miRNA	KNOWN	None	41611	None	None	79741906	79741975	1	None	hsa-mir-5096
6	None	ENSG00000252309	ENST00000516500	miRNA	NOVEL	None	None	None	None	84077425	84077510	1	None	None
4	None	ENSG00000213480	ENST00000515076	processed_pseudogene	KNOWN	None	None	None	None	122290588	122291500	-1	None	None
9	RN7SL57P	ENSG00000242256	ENST00000493687	misc_RNA	KNOWN	None	46073	None	None	115004832	115005119	-1	None	None
9	RNA5SP295	ENSG00000199525	ENST00000362655	rRNA	KNOWN	None	43195	None	None	115014538	115014658	1	RN5S295	None
6	None	ENSG00000219951	ENST00000403475	processed_pseudogene	KNOWN	None	None	None	None	84102135	84103128	1	None	None
5	None	ENSG00000250240	ENST00000512486	antisense	KNOWN	None	None	None	None	95036953	95067999	-1	None	None
5	None	ENSG00000250240	ENST00000513235	antisense	KNOWN	None	None	None	None	95052686	95067991	-1	None	None
9	RN7SL430P	ENSG00000243911	ENST00000464176	misc_RNA	KNOWN	None	46446	None	None	115034876	115035111	-1	None	None
4	None	ENSG00000264927	ENST00000583825	miRNA	NOVEL	None	None	None	None	122323742	122323826	-1	None	None
4	TUBB4BP5	ENSG00000224062	ENST00000512282	processed_pseudogene	KNOWN	None	42335	None	None	122372696	122373122	1	None	None
9	None	ENSG00000230081	ENST00000443139	processed_pseudogene	KNOWN	None	None	None	None	115043258	115043615	-1	None	None
HSCHR6_MHC_MANN	PSORS1C1	ENSG00000231094	ENST00000490397	processed_transcript	KNOWN	None	17202	None	None	31127487	31131554	1	C6orf16	SEEK1
HSCHR6_MHC_MANN	PSORS1C1	ENSG00000231094	ENST00000483908	processed_transcript	KNOWN	None	17202	None	None	31127562	31130033	1	C6orf16	SEEK1
HSCHR6_MHC_MANN	PSORS1C1	ENSG00000231094	ENST00000441092	protein_coding	KNOWN	None	17202	459	152	31127568	31152786	1	C6orf16	SEEK1
HSCHR6_MHC_MANN	PSORS1C1	ENSG00000231094	ENST00000470548	processed_transcript	KNOWN	None	17202	None	None	31127568	31152786	1	C6orf16	SEEK1
HSCHR6_MHC_MANN	PSORS1C1	ENSG00000231094	ENST00000497309	processed_transcript	KNOWN	None	17202	None	None	31151107	31152786	1	C6orf16	SEEK1
10	RNA5SP301	ENSG00000199407	ENST00000362537	rRNA	KNOWN	None	43201	None	None	13769796	13769916	1	RN5S301	None
10	None	ENSG00000234091	ENST00000449462	antisense	KNOWN	None	None	None	None	13771383	13798200	1	None	None
5	HSPD1P11	ENSG00000251348	ENST00000508643	processed_pseudogene	KNOWN	None	35142	None	None	95104703	95106404	1	None	None
HSCHR6_MHC_COX	OR2N1P	ENSG00000224925	ENST00000434322	unprocessed_pseudogene	KNOWN	None	8271	None	None	29102326	29103262	-1	None	OR6-7
10	CHST15	ENSG00000182022	ENST00000346248	protein_coding	KNOWN	CCDS7638	18137	1686	561	125767184	125851970	-1	None	GALNAC4S-6ST, BRAG, KIAA0598
10	CHST15	ENSG00000182022	ENST00000476765	processed_transcript	KNOWN	None	18137	None	None	125780598	125798135	-1	None	GALNAC4S-6ST, BRAG, KIAA0598
10	CHST15	ENSG00000182022	ENST00000462406	processed_transcript	KNOWN	None	18137	None	None	125805529	125853098	-1	None	GALNAC4S-6ST, BRAG, KIAA0598
10	CHST15	ENSG00000182022	ENST00000435907	protein_coding	KNOWN	CCDS7638	18137	1686	561	125767186	125806241	-1	None	GALNAC4S-6ST, BRAG, KIAA0598
10	CHST15	ENSG00000182022	ENST00000421115	protein_coding	KNOWN	CCDS55731	18137	1521	506	125780598	125853206	-1	None	GALNAC4S-6ST, BRAG, KIAA0598
9	BARHL1	ENSG00000125492	ENST00000263610	protein_coding	KNOWN	CCDS6950	953	984	327	135457572	135465653	1	None	None
9	BARHL1	ENSG00000125492	ENST00000542090	protein_coding	KNOWN	CCDS6950	953	984	327	135458046	135465070	1	None	None
16	None	ENSG00000261638	ENST00000562304	lincRNA	KNOWN	None	None	None	None	58881711	58913940	-1	None	None
16	None	ENSG00000261638	ENST00000569328	lincRNA	KNOWN	None	None	None	None	58881712	58914117	-1	None	None
5	PCDHGA2	ENSG00000081853	ENST00000528330	retained_intron	KNOWN	None	8700	None	None	140718539	140721010	1	None	PCDH-GAMMA-A2
5	PCDHGA2	ENSG00000081853	ENST00000394576	protein_coding	KNOWN	CCDS47289	8700	2799	932	140718539	140892546	1	None	PCDH-GAMMA-A2
11	VSTM5	ENSG00000214376	ENST00000409977	protein_coding	KNOWN	CCDS44709	34443	603	200	93551398	93583697	-1	C11orf90	LOC387804
11	VSTM5	ENSG00000214376	ENST00000398221	nonsense_mediated_decay	KNOWN	None	34443	61	19	93551973	93553925	-1	C11orf90	LOC387804
11	VSTM5	ENSG00000214376	ENST00000414919	retained_intron	KNOWN	None	34443	None	None	93553730	93555239	-1	C11orf90	LOC387804
16	None	ENSG00000260807	ENST00000567961	lincRNA	KNOWN	None	None	None	None	1025761	1026912	-1	None	None
16	None	ENSG00000260807	ENST00000565139	lincRNA	KNOWN	None	None	None	None	1025761	1026926	-1	None	None
16	None	ENSG00000260807	ENST00000562570	lincRNA	KNOWN	None	None	None	None	1025761	1030913	-1	None	None
16	None	ENSG00000260807	ENST00000568394	lincRNA	KNOWN	None	None	None	None	1025761	1031590	-1	None	None
16	None	ENSG00000260807	ENST00000565467	lincRNA	KNOWN	None	None	None	None	1025761	1031596	-1	None	None
16	None	ENSG00000260807	ENST00000563863	lincRNA	KNOWN	None	None	None	None	1025764	1031298	-1	None	None
16	None	ENSG00000260807	ENST00000565069	lincRNA	KNOWN	None	None	None	None	1026521	1031298	-1	None	None
16	None	ENSG00000260807	ENST00000563837	lincRNA	KNOWN	None	None	None	None	1026787	1031293	-1	None	None
22	EWSR1	ENSG00000182944	ENST00000444626	protein_coding	PUTATIVE	None	3508	232	76	29663998	29674030	1	None	EWS
22	EWSR1	ENSG00000182944	ENST00000397938	protein_coding	KNOWN	CCDS13851	3508	1971	656	29664007	29696515	1	None	EWS
22	EWSR1	ENSG00000182944	ENST00000436425	protein_coding	PUTATIVE	None	3508	469	155	29664242	29678413	1	None	EWS
22	EWSR1	ENSG00000182944	ENST00000447973	protein_coding	PUTATIVE	None	3508	498	165	29664242	29678445	1	None	EWS
22	EWSR1	ENSG00000182944	ENST00000485037	retained_intron	KNOWN	None	3508	None	None	29664262	29670442	1	None	EWS
22	EWSR1	ENSG00000182944	ENST00000406548	protein_coding	NOVEL	CCDS54513	3508	1968	655	29664262	29696326	1	None	EWS
22	EWSR1	ENSG00000182944	ENST00000437155	protein_coding	NOVEL	None	3508	878	291	29664271	29684676	1	None	EWS
22	EWSR1	ENSG00000182944	ENST00000415761	protein_coding	KNOWN	None	3508	540	179	29664279	29683095	1	None	EWS
22	EWSR1	ENSG00000182944	ENST00000331029	protein_coding	NOVEL	None	3508	1857	618	29664280	29696515	1	None	EWS
22	EWSR1	ENSG00000182944	ENST00000483415	retained_intron	KNOWN	None	3508	None	None	29664302	29687008	1	None	EWS
22	EWSR1	ENSG00000182944	ENST00000414183	protein_coding	KNOWN	CCDS13852	3508	1986	661	29664305	29696333	1	None	EWS
22	EWSR1	ENSG00000182944	ENST00000333395	protein_coding	PUTATIVE	CCDS54512	3508	1065	354	29664307	29686673	1	None	EWS
22	EWSR1	ENSG00000182944	ENST00000455726	protein_coding	PUTATIVE	None	3508	699	232	29664315	29684668	1	None	EWS
22	EWSR1	ENSG00000182944	ENST00000332035	protein_coding	NOVEL	CCDS54514	3508	1803	600	29664315	29696326	1	None	EWS
22	EWSR1	ENSG00000182944	ENST00000493426	retained_intron	KNOWN	None	3508	None	None	29665212	29669781	1	None	EWS
22	EWSR1	ENSG00000182944	ENST00000479135	retained_intron	KNOWN	None	3508	None	None	29671618	29696515	1	None	EWS
22	EWSR1	ENSG00000182944	ENST00000469669	retained_intron	KNOWN	None	3508	None	None	29686819	29696515	1	None	EWS
22	EWSR1	ENSG00000182944	ENST00000483629	retained_intron	KNOWN	None	3508	None	None	29687918	29696515	1	None	EWS
22	EWSR1	ENSG00000182944	ENST00000360091	protein_coding	PUTATIVE	None	3508	925	307	29688148	29696515	1	None	EWS
22	EWSR1	ENSG00000182944	ENST00000490315	retained_intron	KNOWN	None	3508	None	None	29691515	29696326	1	None	EWS
22	EWSR1	ENSG00000182944	ENST00000332050	protein_coding	KNOWN	None	3508	1752	583	29663998	29696514	1	None	EWS
11	TRIM6	ENSG00000121236	ENST00000278302	protein_coding	KNOWN	CCDS31390	16277	1467	488	5617339	5634182	1	None	RNF89
11	TRIM6	ENSG00000121236	ENST00000424369	protein_coding	PUTATIVE	None	16277	294	97	5617340	5631420	1	None	RNF89
11	TRIM6	ENSG00000121236	ENST00000507320	protein_coding	PUTATIVE	CCDS55738	16277	942	313	5617343	5632930	1	None	RNF89
11	TRIM6	ENSG00000121236	ENST00000380107	protein_coding	NOVEL	None	16277	1389	462	5617359	5633653	1	None	RNF89
11	TRIM6	ENSG00000121236	ENST00000511284	processed_transcript	KNOWN	None	16277	None	None	5617884	5632334	1	None	RNF89
11	TRIM6	ENSG00000121236	ENST00000380097	protein_coding	KNOWN	CCDS31389	16277	1551	516	5617886	5634182	1	None	RNF89
11	TRIM6	ENSG00000121236	ENST00000445329	protein_coding	PUTATIVE	CCDS55738	16277	942	313	5617976	5634182	1	None	RNF89
11	TRIM6	ENSG00000121236	ENST00000515022	protein_coding	PUTATIVE	CCDS55738	16277	942	313	5618036	5632575	1	None	RNF89
11	TRIM6	ENSG00000121236	ENST00000506134	protein_coding	PUTATIVE	CCDS55738	16277	942	313	5618036	5632817	1	None	RNF89
11	TRIM6	ENSG00000121236	ENST00000469187	retained_intron	KNOWN	None	16277	None	None	5626402	5632509	1	None	RNF89
11	TRIM6	ENSG00000121236	ENST00000481603	processed_transcript	KNOWN	None	16277	None	None	5626779	5634188	1	None	RNF89
Y	TCEB1P17	ENSG00000232695	ENST00000414751	processed_pseudogene	KNOWN	None	38153	None	None	28007090	28007415	1	None	None
HSCHR6_MHC_COX	OR2J4P	ENSG00000226610	ENST00000423794	unprocessed_pseudogene	KNOWN	None	8262	None	None	29145974	29146909	1	None	OR6-9, hs6M1-5, dJ80I19.5
Y	OFD1P18Y	ENSG00000235511	ENST00000420889	unprocessed_pseudogene	KNOWN	None	2589	None	None	28018078	28044800	-1	CYorf1, OFD1P18, OFD1PY18	71-7A2
19	ARHGAP35	ENSG00000160007	ENST00000404338	protein_coding	KNOWN	CCDS46127	4591	4500	1499	47421933	47508334	1	GRLF1	GRF-1, p190ARhoGAP, P190A, KIAA1722, p190RhoGAP
19	ARHGAP35	ENSG00000160007	ENST00000595822	retained_intron	KNOWN	None	4591	None	None	47440577	47504682	1	GRLF1	GRF-1, p190ARhoGAP, P190A, KIAA1722, p190RhoGAP
19	ARHGAP35	ENSG00000160007	ENST00000596593	processed_transcript	KNOWN	None	4591	None	None	47492841	47501007	1	GRLF1	GRF-1, p190ARhoGAP, P190A, KIAA1722, p190RhoGAP
19	ARHGAP35	ENSG00000160007	ENST00000598548	processed_transcript	KNOWN	None	4591	None	None	47502342	47503072	1	GRLF1	GRF-1, p190ARhoGAP, P190A, KIAA1722, p190RhoGAP
19	ARHGAP35	ENSG00000160007	ENST00000599284	retained_intron	KNOWN	None	4591	None	None	47502355	47504206	1	GRLF1	GRF-1, p190ARhoGAP, P190A, KIAA1722, p190RhoGAP
1	PPP1R8	ENSG00000117751	ENST00000311772	protein_coding	KNOWN	CCDS311	9296	1056	351	28157289	28178187	1	None	ard-1, NIPP-1, PRO2047, ARD1, NIPP1
1	PPP1R8	ENSG00000117751	ENST00000236412	protein_coding	KNOWN	CCDS313	9296	384	127	28157325	28178039	1	None	ard-1, NIPP-1, PRO2047, ARD1, NIPP1
1	PPP1R8	ENSG00000117751	ENST00000373931	protein_coding	KNOWN	CCDS312	9296	630	209	28157333	28178183	1	None	ard-1, NIPP-1, PRO2047, ARD1, NIPP1
1	PPP1R8	ENSG00000117751	ENST00000431586	protein_coding	KNOWN	None	9296	616	204	28157835	28176943	1	None	ard-1, NIPP-1, PRO2047, ARD1, NIPP1
1	PPP1R8	ENSG00000117751	ENST00000486634	processed_transcript	PUTATIVE	None	9296	None	None	28173601	28178187	1	None	ard-1, NIPP-1, PRO2047, ARD1, NIPP1
10	None	ENSG00000215227	ENST00000475013	processed_pseudogene	KNOWN	None	None	None	None	13912797	13913175	1	None	None
4	None	ENSG00000261501	ENST00000567769	lincRNA	KNOWN	None	None	None	None	122791738	122794003	1	None	None
17	LASP1	ENSG00000002834	ENST00000318008	protein_coding	KNOWN	CCDS11331	6513	786	261	37026112	37078023	1	None	MLN50, Lasp-1
17	LASP1	ENSG00000002834	ENST00000585841	nonsense_mediated_decay	KNOWN	None	6513	216	71	37026284	37075579	1	None	MLN50, Lasp-1
17	LASP1	ENSG00000002834	ENST00000584106	retained_intron	KNOWN	None	6513	None	None	37026314	37055453	1	None	MLN50, Lasp-1
17	LASP1	ENSG00000002834	ENST00000443937	nonsense_mediated_decay	KNOWN	None	6513	276	91	37026314	37075428	1	None	MLN50, Lasp-1
17	LASP1	ENSG00000002834	ENST00000419929	protein_coding	PUTATIVE	None	6513	499	165	37030143	37071394	1	None	MLN50, Lasp-1
17	LASP1	ENSG00000002834	ENST00000581485	retained_intron	KNOWN	None	6513	None	None	37046487	37071382	1	None	MLN50, Lasp-1
17	LASP1	ENSG00000002834	ENST00000579123	protein_coding	PUTATIVE	None	6513	318	105	37070650	37073090	1	None	MLN50, Lasp-1
17	LASP1	ENSG00000002834	ENST00000435347	protein_coding	KNOWN	CCDS11331	6513	786	261	37026396	37078014	1	None	MLN50, Lasp-1
17	LASP1	ENSG00000002834	ENST00000433206	protein_coding	KNOWN	None	6513	618	205	37026284	37075579	1	None	MLN50, Lasp-1
10	None	ENSG00000231508	ENST00000442771	processed_pseudogene	KNOWN	None	None	None	None	99152954	99153304	-1	None	None
4	None	ENSG00000237868	ENST00000413478	processed_pseudogene	KNOWN	None	None	None	None	122998995	122999473	-1	None	None
17	SERPINF2	ENSG00000167711	ENST00000453066	protein_coding	KNOWN	None	9075	765	254	1646130	1651941	1	PLI	API, ALPHA-2-PI, A2AP, AAP
17	SERPINF2	ENSG00000167711	ENST00000450523	protein_coding	KNOWN	CCDS54064	9075	1284	427	1646137	1657936	1	PLI	API, ALPHA-2-PI, A2AP, AAP
17	SERPINF2	ENSG00000167711	ENST00000453723	protein_coding	PUTATIVE	None	9075	794	263	1646163	1657494	1	PLI	API, ALPHA-2-PI, A2AP, AAP
17	SERPINF2	ENSG00000167711	ENST00000382061	protein_coding	KNOWN	CCDS11011	9075	1476	491	1646320	1658562	1	PLI	API, ALPHA-2-PI, A2AP, AAP
17	SERPINF2	ENSG00000167711	ENST00000324015	protein_coding	KNOWN	CCDS11011	9075	1476	491	1646130	1658559	1	PLI	API, ALPHA-2-PI, A2AP, AAP
Y	TRAPPC2P4	ENSG00000232914	ENST00000421750	unprocessed_pseudogene	KNOWN	None	10713	None	None	28050665	28053397	1	SEDLP4	None
10	None	ENSG00000231970	ENST00000422848	antisense	KNOWN	None	None	None	None	99160872	99179281	1	None	None
4	RN7SL335P	ENSG00000241037	ENST00000482790	misc_RNA	KNOWN	None	46351	None	None	123008661	123008966	-1	None	None
20	SIRPA	ENSG00000198053	ENST00000400068	protein_coding	KNOWN	None	9662	1527	508	1875154	1920543	1	PTPNS1	SHPS1, SIRP, MYD-1, BIT, P84, SHPS-1, SIRPalpha, CD172a, SIRPalpha2, MFR, SIRP-ALPHA-1
20	SIRPA	ENSG00000198053	ENST00000356025	protein_coding	KNOWN	CCDS13022	9662	1515	504	1875429	1920543	1	PTPNS1	SHPS1, SIRP, MYD-1, BIT, P84, SHPS-1, SIRPalpha, CD172a, SIRPalpha2, MFR, SIRP-ALPHA-1
20	SIRPA	ENSG00000198053	ENST00000358771	protein_coding	KNOWN	CCDS13022	9662	1515	504	1875942	1920543	1	PTPNS1	SHPS1, SIRP, MYD-1, BIT, P84, SHPS-1, SIRPalpha, CD172a, SIRPalpha2, MFR, SIRP-ALPHA-1
10	None	ENSG00000200737	ENST00000363867	misc_RNA	NOVEL	None	None	None	None	99180952	99181064	-1	None	None
Y	RAB9AP3	ENSG00000223655	ENST00000412737	processed_pseudogene	KNOWN	None	38107	None	None	28064470	28065042	-1	None	None
10	None	ENSG00000264677	ENST00000577864	miRNA	NOVEL	None	None	None	None	99242426	99242530	1	None	None
3	POC1A	ENSG00000164087	ENST00000296484	protein_coding	KNOWN	CCDS2846	24488	1224	407	52109269	52188428	-1	WDR51A	DKFZP434C245
3	POC1A	ENSG00000164087	ENST00000394970	protein_coding	KNOWN	CCDS54592	24488	1080	359	52109302	52188706	-1	WDR51A	DKFZP434C245
3	POC1A	ENSG00000164087	ENST00000474012	protein_coding	PUTATIVE	CCDS54591	24488	1110	369	52109470	52188420	-1	WDR51A	DKFZP434C245
10	LINC00866	ENSG00000227356	ENST00000427379	lincRNA	KNOWN	None	45232	None	None	99588235	99609555	-1	None	None
5	None	ENSG00000251000	ENST00000514941	processed_pseudogene	KNOWN	None	None	None	None	95170128	95170750	-1	None	None
16	ZNF500	ENSG00000103199	ENST00000219478	protein_coding	KNOWN	CCDS32383	23716	1443	480	4798240	4817219	-1	None	ZKSCAN18, KIAA0557, ZSCAN50
16	ZNF500	ENSG00000103199	ENST00000588942	protein_coding	PUTATIVE	None	23716	220	72	4798245	4802631	-1	None	ZKSCAN18, KIAA0557, ZSCAN50
16	ZNF500	ENSG00000103199	ENST00000591026	processed_transcript	KNOWN	None	23716	None	None	4800793	4803189	-1	None	ZKSCAN18, KIAA0557, ZSCAN50
16	ZNF500	ENSG00000103199	ENST00000545009	protein_coding	PUTATIVE	None	23716	1326	441	4800815	4817217	-1	None	ZKSCAN18, KIAA0557, ZSCAN50
16	ZNF500	ENSG00000103199	ENST00000589422	nonsense_mediated_decay	KNOWN	None	23716	429	142	4801972	4816005	-1	None	ZKSCAN18, KIAA0557, ZSCAN50
16	ZNF500	ENSG00000103199	ENST00000592425	protein_coding	PUTATIVE	None	23716	276	91	4802728	4808576	-1	None	ZKSCAN18, KIAA0557, ZSCAN50
16	ZNF500	ENSG00000103199	ENST00000588602	protein_coding	KNOWN	None	23716	363	120	4815617	4816973	-1	None	ZKSCAN18, KIAA0557, ZSCAN50
16	ZNF500	ENSG00000103199	ENST00000585977	protein_coding	KNOWN	None	23716	77	24	4815903	4817625	-1	None	ZKSCAN18, KIAA0557, ZSCAN50
7	AGMO	ENSG00000187546	ENST00000342526	protein_coding	KNOWN	CCDS34604	33784	1338	445	15239943	15601640	-1	TMEM195	FLJ16237
7	AGMO	ENSG00000187546	ENST00000407277	protein_coding	PUTATIVE	None	33784	262	86	15345860	15405812	-1	TMEM195	FLJ16237
7	AGMO	ENSG00000187546	ENST00000418075	protein_coding	PUTATIVE	None	33784	225	74	15397839	15405847	-1	TMEM195	FLJ16237
7	AGMO	ENSG00000187546	ENST00000498264	processed_transcript	PUTATIVE	None	33784	None	None	15433738	15436219	-1	TMEM195	FLJ16237
5	None	ENSG00000251409	ENST00000509999	antisense	KNOWN	None	None	None	None	95171647	95188425	-1	None	None
10	None	ENSG00000265398	ENST00000583345	miRNA	NOVEL	None	None	None	None	99635569	99635654	-1	None	None
11	INS-IGF2	ENSG00000129965	ENST00000356578	nonsense_mediated_decay	KNOWN	CCDS41598	33527	603	200	2153768	2182439	-1	None	None
11	INS-IGF2	ENSG00000129965	ENST00000481781	processed_transcript	KNOWN	None	33527	None	None	2167853	2179888	-1	None	None
11	INS-IGF2	ENSG00000129965	ENST00000397270	protein_coding	KNOWN	CCDS41598	33527	603	200	2167856	2182439	-1	None	None
11	INS-IGF2	ENSG00000129965	ENST00000476874	retained_intron	KNOWN	None	33527	None	None	2170164	2179566	-1	None	None
18	TUBB6	ENSG00000176014	ENST00000590693	protein_coding	KNOWN	None	20776	392	129	12307668	12325180	1	None	MGC4083, HsT1601
18	TUBB6	ENSG00000176014	ENST00000317702	protein_coding	KNOWN	CCDS11858	20776	1341	446	12308058	12326618	1	None	MGC4083, HsT1601
18	TUBB6	ENSG00000176014	ENST00000590103	protein_coding	NOVEL	None	20776	1014	337	12308231	12325913	1	None	MGC4083, HsT1601
18	TUBB6	ENSG00000176014	ENST00000591909	protein_coding	PUTATIVE	None	20776	315	104	12308233	12329825	1	None	MGC4083, HsT1601
18	TUBB6	ENSG00000176014	ENST00000590388	nonsense_mediated_decay	KNOWN	None	20776	333	110	12308240	12325196	1	None	MGC4083, HsT1601
18	TUBB6	ENSG00000176014	ENST00000586653	protein_coding	PUTATIVE	None	20776	291	96	12308240	12325266	1	None	MGC4083, HsT1601
18	TUBB6	ENSG00000176014	ENST00000586810	nonsense_mediated_decay	KNOWN	None	20776	426	141	12308240	12325762	1	None	MGC4083, HsT1601
18	TUBB6	ENSG00000176014	ENST00000417736	retained_intron	KNOWN	None	20776	None	None	12308240	12326562	1	None	MGC4083, HsT1601
18	TUBB6	ENSG00000176014	ENST00000587204	retained_intron	KNOWN	None	20776	None	None	12308243	12311134	1	None	MGC4083, HsT1601
18	TUBB6	ENSG00000176014	ENST00000592683	protein_coding	PUTATIVE	None	20776	315	104	12308246	12325123	1	None	MGC4083, HsT1601
18	TUBB6	ENSG00000176014	ENST00000590967	protein_coding	PUTATIVE	None	20776	348	115	12308252	12337224	1	None	MGC4083, HsT1601
18	TUBB6	ENSG00000176014	ENST00000591208	protein_coding	PUTATIVE	None	20776	411	136	12308261	12326331	1	None	MGC4083, HsT1601
18	TUBB6	ENSG00000176014	ENST00000591463	protein_coding	PUTATIVE	None	20776	348	115	12308262	12325352	1	None	MGC4083, HsT1601
18	TUBB6	ENSG00000176014	ENST00000586691	protein_coding	PUTATIVE	None	20776	95	30	12310966	12344319	1	None	MGC4083, HsT1601
10	None	ENSG00000230928	ENST00000433374	antisense	KNOWN	None	None	None	None	100011780	100016332	1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000258880	ENST00000414847	protein_coding	PUTATIVE	None	None	1149	382	31664636	31675654	1	None	None
5	None	ENSG00000272021	ENST00000607856	lincRNA	KNOWN	None	None	None	None	95185013	95185559	1	None	None
17	KCNH4	ENSG00000089558	ENST00000607371	protein_coding	KNOWN	CCDS11420	6253	3054	1017	40308909	40333099	-1	None	Kv12.3, elk1
17	KCNH4	ENSG00000089558	ENST00000264661	protein_coding	KNOWN	CCDS11420	6253	3054	1017	40308913	40333296	-1	None	Kv12.3, elk1
5	None	ENSG00000250362	ENST00000503091	antisense	KNOWN	None	None	None	None	95197490	95210223	1	None	None
5	None	ENSG00000250362	ENST00000510343	retained_intron	KNOWN	None	None	None	None	95197510	95198800	1	None	None
19	C19orf18	ENSG00000177025	ENST00000314391	protein_coding	KNOWN	CCDS12967	28642	648	215	58469805	58485902	-1	None	MGC41906
Y	USP9YP20	ENSG00000230854	ENST00000419224	unprocessed_pseudogene	KNOWN	None	38767	None	None	28069535	28075973	1	None	None
4	GC	ENSG00000145321	ENST00000273951	protein_coding	KNOWN	CCDS3550	4187	1425	474	72607410	72650079	-1	None	DBP, VDBP, hDBP
4	GC	ENSG00000145321	ENST00000504199	protein_coding	PUTATIVE	CCDS56332	4187	1482	493	72607413	72669758	-1	None	DBP, VDBP, hDBP
4	GC	ENSG00000145321	ENST00000503364	processed_transcript	KNOWN	None	4187	None	None	72607425	72620195	-1	None	DBP, VDBP, hDBP
4	GC	ENSG00000145321	ENST00000513476	protein_coding	PUTATIVE	None	4187	1431	476	72607444	72649763	-1	None	DBP, VDBP, hDBP
4	GC	ENSG00000145321	ENST00000509740	nonsense_mediated_decay	KNOWN	None	4187	1047	348	72607445	72649782	-1	None	DBP, VDBP, hDBP
4	GC	ENSG00000145321	ENST00000503472	processed_transcript	KNOWN	None	4187	None	None	72607456	72635117	-1	None	DBP, VDBP, hDBP
4	GC	ENSG00000145321	ENST00000505234	retained_intron	KNOWN	None	4187	None	None	72629521	72635319	-1	None	DBP, VDBP, hDBP
4	GC	ENSG00000145321	ENST00000506245	protein_coding	KNOWN	None	4187	435	144	72631187	72651727	-1	None	DBP, VDBP, hDBP
9	RN7SL763P	ENSG00000264356	ENST00000584478	misc_RNA	KNOWN	None	46779	None	None	42031881	42032162	-1	None	None
17	TRIM47	ENSG00000132481	ENST00000254816	protein_coding	KNOWN	CCDS32737	19020	1917	638	73870242	73874656	-1	None	GOA, RNF100
17	TRIM47	ENSG00000132481	ENST00000585333	protein_coding	PUTATIVE	None	19020	551	182	73870245	73870973	-1	None	GOA, RNF100
17	TRIM47	ENSG00000132481	ENST00000587339	protein_coding	PUTATIVE	None	19020	1203	400	73870245	73874277	-1	None	GOA, RNF100
17	TRIM47	ENSG00000132481	ENST00000592942	retained_intron	KNOWN	None	19020	None	None	73870604	73871672	-1	None	GOA, RNF100
17	TRIM47	ENSG00000132481	ENST00000593089	retained_intron	KNOWN	None	19020	None	None	73871922	73872475	-1	None	GOA, RNF100
17	TRIM47	ENSG00000132481	ENST00000587774	retained_intron	KNOWN	None	19020	None	None	73872515	73874294	-1	None	GOA, RNF100
17	TRIM47	ENSG00000132481	ENST00000586495	protein_coding	PUTATIVE	None	19020	115	37	73872516	73873345	-1	None	GOA, RNF100
1	KIAA1324	ENSG00000116299	ENST00000533147	protein_coding	KNOWN	None	29618	274	90	109656301	109704636	1	None	maba1, EIG121
1	KIAA1324	ENSG00000116299	ENST00000531664	protein_coding	KNOWN	None	29618	615	204	109656533	109714635	1	None	maba1, EIG121
1	KIAA1324	ENSG00000116299	ENST00000534476	protein_coding	KNOWN	None	29618	457	151	109656551	109707303	1	None	maba1, EIG121
1	KIAA1324	ENSG00000116299	ENST00000526264	protein_coding	KNOWN	None	29618	467	154	109656585	109707313	1	None	maba1, EIG121
1	KIAA1324	ENSG00000116299	ENST00000369939	protein_coding	KNOWN	CCDS794	29618	3042	1013	109656623	109745851	1	None	maba1, EIG121
1	KIAA1324	ENSG00000116299	ENST00000457623	protein_coding	NOVEL	None	29618	2705	900	109656729	109743404	1	None	maba1, EIG121
1	KIAA1324	ENSG00000116299	ENST00000529753	protein_coding	KNOWN	CCDS58015	29618	2781	926	109656777	109745727	1	None	maba1, EIG121
1	KIAA1324	ENSG00000116299	ENST00000527996	nonsense_mediated_decay	KNOWN	None	29618	189	62	109656791	109745853	1	None	maba1, EIG121
1	KIAA1324	ENSG00000116299	ENST00000490758	retained_intron	KNOWN	None	29618	None	None	109656795	109734227	1	None	maba1, EIG121
1	KIAA1324	ENSG00000116299	ENST00000533374	retained_intron	KNOWN	None	29618	None	None	109704228	109707248	1	None	maba1, EIG121
1	KIAA1324	ENSG00000116299	ENST00000369938	processed_transcript	KNOWN	None	29618	None	None	109729171	109745853	1	None	maba1, EIG121
1	KIAA1324	ENSG00000116299	ENST00000369936	retained_intron	KNOWN	None	29618	None	None	109730601	109749401	1	None	maba1, EIG121
1	KIAA1324	ENSG00000116299	ENST00000464345	retained_intron	KNOWN	None	29618	None	None	109733994	109735283	1	None	maba1, EIG121
1	KIAA1324	ENSG00000116299	ENST00000527501	nonsense_mediated_decay	KNOWN	None	29618	249	82	109742813	109745745	1	None	maba1, EIG121
9	None	ENSG00000252724	ENST00000516915	snoRNA	NOVEL	None	None	None	None	42037464	42037558	1	None	None
16	RPS27P27	ENSG00000244043	ENST00000498779	processed_pseudogene	KNOWN	None	36043	None	None	59122741	59122995	1	None	None
9	None	ENSG00000232798	ENST00000436337	processed_pseudogene	KNOWN	None	None	None	None	42037568	42037913	1	None	None
HSCHR6_MHC_MANN	CDSN	ENSG00000237114	ENST00000445893	protein_coding	KNOWN	None	1802	1590	529	31127873	31133179	-1	None	D6S586E
19	None	ENSG00000234750	ENST00000428058	processed_pseudogene	KNOWN	None	None	None	None	12395152	12396000	1	None	None
16	None	ENSG00000261144	ENST00000569452	processed_pseudogene	KNOWN	None	None	None	None	59200855	59201056	-1	None	None
19	None	ENSG00000261280	ENST00000563695	lincRNA	KNOWN	None	None	None	None	12456763	12458752	-1	None	None
16	None	ENSG00000238601	ENST00000408434	miRNA	NOVEL	None	None	None	None	59448677	59448749	1	None	None
9	ANXA1	ENSG00000135046	ENST00000257497	protein_coding	KNOWN	CCDS6645	533	1041	346	75766673	75785309	1	ANX1, LPC1	None
9	ANXA1	ENSG00000135046	ENST00000468639	processed_transcript	KNOWN	None	533	None	None	75766781	75774795	1	ANX1, LPC1	None
9	ANXA1	ENSG00000135046	ENST00000456643	protein_coding	KNOWN	None	533	613	203	75766781	75778416	1	ANX1, LPC1	None
9	ANXA1	ENSG00000135046	ENST00000415424	protein_coding	KNOWN	None	533	346	114	75766818	75775254	1	ANX1, LPC1	None
9	ANXA1	ENSG00000135046	ENST00000376911	protein_coding	KNOWN	CCDS6645	533	1041	346	75772570	75785309	1	ANX1, LPC1	None
9	ANXA1	ENSG00000135046	ENST00000495713	processed_transcript	KNOWN	None	533	None	None	75775179	75782785	1	ANX1, LPC1	None
9	ANXA1	ENSG00000135046	ENST00000489109	processed_transcript	KNOWN	None	533	None	None	75775201	75780460	1	ANX1, LPC1	None
9	ANXA1	ENSG00000135046	ENST00000491192	processed_transcript	KNOWN	None	533	None	None	75783014	75785309	1	ANX1, LPC1	None
9	None	ENSG00000184961	ENST00000429522	processed_pseudogene	KNOWN	None	None	None	None	42128839	42129419	-1	None	None
2	SPOPL	ENSG00000144228	ENST00000280098	protein_coding	KNOWN	CCDS33298	27934	1179	392	139259371	139331117	1	None	BTBD33
2	SPOPL	ENSG00000144228	ENST00000430968	nonsense_mediated_decay	KNOWN	None	27934	219	72	139259502	139310152	1	None	BTBD33
2	SPOPL	ENSG00000144228	ENST00000420679	nonsense_mediated_decay	KNOWN	None	27934	573	190	139307727	139326700	1	None	BTBD33
2	SPOPL	ENSG00000144228	ENST00000467775	retained_intron	KNOWN	None	27934	None	None	139321958	139322589	1	None	BTBD33
16	RNU4-58P	ENSG00000200062	ENST00000363192	snRNA	KNOWN	None	46994	None	None	59574030	59574170	1	None	None
19	None	ENSG00000231361	ENST00000458635	processed_pseudogene	KNOWN	None	None	None	None	12484423	12484545	1	None	None
16	None	ENSG00000270222	ENST00000603858	processed_pseudogene	KNOWN	None	None	None	None	59689506	59690240	1	None	None
19	None	ENSG00000248406	ENST00000507003	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	12490560	12494501	-1	None	None
16	APOOP5	ENSG00000260013	ENST00000564761	processed_pseudogene	KNOWN	None	48743	None	None	59788365	59788930	-1	None	None
9	None	ENSG00000237846	ENST00000414297	processed_pseudogene	KNOWN	None	None	None	None	42250840	42251545	1	None	None
9	None	ENSG00000230804	ENST00000434123	unprocessed_pseudogene	KNOWN	None	None	None	None	42266980	42267558	1	None	None
19	None	ENSG00000234848	ENST00000420038	antisense	KNOWN	None	None	None	None	12561749	12571519	1	None	None
4	IL21-AS1	ENSG00000227145	ENST00000417927	antisense	KNOWN	None	40299	None	None	123540138	123610311	1	None	None
15	SLC28A2	ENSG00000137860	ENST00000347644	protein_coding	KNOWN	CCDS10121	11002	1977	658	45544428	45568133	1	None	CNT2, SPNT1, HCNT2, HsT17153
15	SLC28A2	ENSG00000137860	ENST00000560438	protein_coding	NOVEL	None	11002	581	192	45544432	45556881	1	None	CNT2, SPNT1, HCNT2, HsT17153
15	SLC28A2	ENSG00000137860	ENST00000559924	nonsense_mediated_decay	KNOWN	None	11002	215	70	45555259	45559950	1	None	CNT2, SPNT1, HCNT2, HsT17153
15	SLC28A2	ENSG00000137860	ENST00000560767	processed_transcript	KNOWN	None	11002	None	None	45563972	45568149	1	None	CNT2, SPNT1, HCNT2, HsT17153
17	ABR	ENSG00000159842	ENST00000302538	protein_coding	KNOWN	CCDS10999	81	2580	859	906758	1083168	-1	None	MDB
17	ABR	ENSG00000159842	ENST00000572585	retained_intron	KNOWN	None	81	None	None	906767	915829	-1	None	MDB
17	ABR	ENSG00000159842	ENST00000544583	protein_coding	KNOWN	CCDS54060	81	2442	813	906767	1090616	-1	None	MDB
17	ABR	ENSG00000159842	ENST00000572441	protein_coding	PUTATIVE	None	81	462	153	908250	935042	-1	None	MDB
17	ABR	ENSG00000159842	ENST00000571797	protein_coding	PUTATIVE	None	81	575	190	908975	915160	-1	None	MDB
17	ABR	ENSG00000159842	ENST00000574437	protein_coding	KNOWN	CCDS54060	81	2442	813	909031	1029090	-1	None	MDB
17	ABR	ENSG00000159842	ENST00000291107	protein_coding	KNOWN	CCDS11000	81	2469	822	909148	1012340	-1	None	MDB
17	ABR	ENSG00000159842	ENST00000543210	protein_coding	PUTATIVE	CCDS58497	81	933	310	909301	935078	-1	None	MDB
17	ABR	ENSG00000159842	ENST00000536794	protein_coding	NOVEL	None	81	1926	641	909320	982386	-1	None	MDB
17	ABR	ENSG00000159842	ENST00000573559	protein_coding	PUTATIVE	None	81	532	176	909358	914628	-1	None	MDB
17	ABR	ENSG00000159842	ENST00000572650	retained_intron	KNOWN	None	81	None	None	910478	914036	-1	None	MDB
17	ABR	ENSG00000159842	ENST00000570688	retained_intron	KNOWN	None	81	None	None	910509	913453	-1	None	MDB
17	ABR	ENSG00000159842	ENST00000571120	processed_transcript	KNOWN	None	81	None	None	912949	916434	-1	None	MDB
17	ABR	ENSG00000159842	ENST00000571383	processed_transcript	KNOWN	None	81	None	None	912956	916386	-1	None	MDB
17	ABR	ENSG00000159842	ENST00000571022	processed_transcript	KNOWN	None	81	None	None	912978	942837	-1	None	MDB
17	ABR	ENSG00000159842	ENST00000572152	nonsense_mediated_decay	KNOWN	None	81	353	116	914025	953808	-1	None	MDB
17	ABR	ENSG00000159842	ENST00000577052	processed_transcript	KNOWN	None	81	None	None	914816	935058	-1	None	MDB
17	ABR	ENSG00000159842	ENST00000574257	retained_intron	KNOWN	None	81	None	None	915502	953355	-1	None	MDB
17	ABR	ENSG00000159842	ENST00000576668	retained_intron	KNOWN	None	81	None	None	915636	935058	-1	None	MDB
17	ABR	ENSG00000159842	ENST00000574875	retained_intron	KNOWN	None	81	None	None	953220	953813	-1	None	MDB
17	ABR	ENSG00000159842	ENST00000575770	processed_transcript	KNOWN	None	81	None	None	953290	961287	-1	None	MDB
17	ABR	ENSG00000159842	ENST00000576964	processed_transcript	KNOWN	None	81	None	None	953334	986830	-1	None	MDB
17	ABR	ENSG00000159842	ENST00000574544	protein_coding	PUTATIVE	None	81	566	187	953794	973223	-1	None	MDB
17	ABR	ENSG00000159842	ENST00000573895	processed_transcript	KNOWN	None	81	None	None	958523	961287	-1	None	MDB
17	ABR	ENSG00000159842	ENST00000571945	protein_coding	PUTATIVE	None	81	497	164	970357	982362	-1	None	MDB
17	ABR	ENSG00000159842	ENST00000573667	retained_intron	KNOWN	None	81	None	None	973278	987011	-1	None	MDB
17	ABR	ENSG00000159842	ENST00000570441	protein_coding	PUTATIVE	None	81	505	167	975973	1018676	-1	None	MDB
17	ABR	ENSG00000159842	ENST00000573325	retained_intron	KNOWN	None	81	None	None	986509	995016	-1	None	MDB
17	ABR	ENSG00000159842	ENST00000575934	protein_coding	NOVEL	None	81	400	132	986762	1132298	-1	None	MDB
17	ABR	ENSG00000159842	ENST00000574139	protein_coding	KNOWN	None	81	389	128	994909	1132298	-1	None	MDB
17	ABR	ENSG00000159842	ENST00000570525	protein_coding	KNOWN	None	81	266	87	995032	1029880	-1	None	MDB
17	ABR	ENSG00000159842	ENST00000574266	protein_coding	KNOWN	None	81	259	85	995039	1083078	-1	None	MDB
17	ABR	ENSG00000159842	ENST00000574632	processed_transcript	PUTATIVE	None	81	None	None	1028659	1058101	-1	None	MDB
17	ABR	ENSG00000159842	ENST00000574048	processed_transcript	PUTATIVE	None	81	None	None	1057103	1058245	-1	None	MDB
17	ABR	ENSG00000159842	ENST00000571306	processed_transcript	PUTATIVE	None	81	None	None	1057106	1057912	-1	None	MDB
17	ABR	ENSG00000159842	ENST00000571543	processed_transcript	PUTATIVE	None	81	None	None	1131438	1132315	-1	None	MDB
9	None	ENSG00000228136	ENST00000425632	lincRNA	KNOWN	None	None	None	None	42275939	42298165	1	None	None
3	None	ENSG00000206532	ENST00000485473	protein_coding	PUTATIVE	None	None	321	106	110607231	110612059	-1	None	None
3	None	ENSG00000206532	ENST00000383686	protein_coding	KNOWN	None	None	600	199	110610970	110612323	-1	None	None
13	RASL11A	ENSG00000122035	ENST00000241463	protein_coding	KNOWN	CCDS9321	23802	729	242	27844464	27847827	1	None	None
13	RASL11A	ENSG00000122035	ENST00000475647	processed_transcript	KNOWN	None	23802	None	None	27845314	27847413	1	None	None
13	RASL11A	ENSG00000122035	ENST00000480803	processed_transcript	KNOWN	None	23802	None	None	27845723	27847537	1	None	None
19	None	ENSG00000236483	ENST00000436718	unprocessed_pseudogene	KNOWN	None	None	None	None	12613489	12614920	1	None	None
10	None	ENSG00000229751	ENST00000446193	antisense	KNOWN	None	None	None	None	14033815	14049525	1	None	None
HSCHR6_MHC_SSTO	LY6G6E	ENSG00000226187	ENST00000469626	protein_coding	KNOWN	None	13934	384	127	31670072	31671548	-1	C6orf22	G6e
HSCHR6_MHC_SSTO	LY6G6E	ENSG00000226187	ENST00000435051	protein_coding	PUTATIVE	None	13934	201	66	31670077	31671548	-1	C6orf22	G6e
HSCHR6_MHC_SSTO	LY6G6E	ENSG00000226187	ENST00000431420	protein_coding	NOVEL	None	13934	303	100	31670077	31671548	-1	C6orf22	G6e
HSCHR6_MHC_SSTO	LY6G6E	ENSG00000226187	ENST00000548848	protein_coding	KNOWN	None	13934	378	125	31670072	31671548	-1	C6orf22	G6e
HSCHR6_MHC_SSTO	VPS52	ENSG00000236014	ENST00000428608	protein_coding	KNOWN	None	10518	2172	723	33357416	33379015	-1	SACM2L	ARE1
HSCHR6_MHC_SSTO	VPS52	ENSG00000236014	ENST00000484649	processed_transcript	KNOWN	None	10518	None	None	33357416	33379168	-1	SACM2L	ARE1
HSCHR6_MHC_SSTO	VPS52	ENSG00000236014	ENST00000476725	nonsense_mediated_decay	KNOWN	None	10518	267	88	33357423	33378997	-1	SACM2L	ARE1
HSCHR6_MHC_SSTO	VPS52	ENSG00000236014	ENST00000487764	processed_transcript	PUTATIVE	None	10518	None	None	33357750	33370740	-1	SACM2L	ARE1
HSCHR6_MHC_SSTO	VPS52	ENSG00000236014	ENST00000473365	processed_transcript	PUTATIVE	None	10518	None	None	33357955	33371430	-1	SACM2L	ARE1
HSCHR6_MHC_SSTO	VPS52	ENSG00000236014	ENST00000475984	processed_transcript	KNOWN	None	10518	None	None	33359061	33371691	-1	SACM2L	ARE1
HSCHR6_MHC_SSTO	VPS52	ENSG00000236014	ENST00000466566	retained_intron	KNOWN	None	10518	None	None	33370675	33371349	-1	SACM2L	ARE1
HSCHR6_MHC_SSTO	VPS52	ENSG00000236014	ENST00000484169	retained_intron	KNOWN	None	10518	None	None	33371206	33374389	-1	SACM2L	ARE1
HSCHR6_MHC_SSTO	VPS52	ENSG00000236014	ENST00000463641	retained_intron	KNOWN	None	10518	None	None	33374590	33375277	-1	SACM2L	ARE1
HSCHR6_MHC_SSTO	VPS52	ENSG00000236014	ENST00000485847	processed_transcript	KNOWN	None	10518	None	None	33374994	33378898	-1	SACM2L	ARE1
HSCHR6_MHC_SSTO	VPS52	ENSG00000236014	ENST00000494064	processed_transcript	KNOWN	None	10518	None	None	33374995	33379005	-1	SACM2L	ARE1
HSCHR6_MHC_COX	OR2H4P	ENSG00000234092	ENST00000432013	unprocessed_pseudogene	KNOWN	None	8255	None	None	29179710	29180647	1	None	OR6-3, OR2H4, hs6M1-7, dJ80I19.6
19	None	ENSG00000232579	ENST00000448269	unprocessed_pseudogene	KNOWN	None	None	None	None	12615479	12615704	1	None	None
10	None	ENSG00000235410	ENST00000451617	antisense	KNOWN	None	None	None	None	14116283	14129604	1	None	None
19	None	ENSG00000230321	ENST00000420740	unprocessed_pseudogene	KNOWN	None	None	None	None	12615719	12616790	1	None	None
4	CETN4P	ENSG00000224786	ENST00000432407	unitary_pseudogene	KNOWN	None	35450	None	None	123651703	123653348	-1	None	None
16	None	ENSG00000261807	ENST00000568279	lincRNA	KNOWN	None	None	None	None	59889257	60087875	1	None	None
HSCHR6_MHC_COX	None	ENSG00000233950	ENST00000416315	processed_transcript	KNOWN	None	None	None	None	29188441	29231555	1	None	None
5	CAMK2A	ENSG00000070808	ENST00000348628	protein_coding	KNOWN	CCDS43386	1460	1437	478	149599054	149669854	-1	CAMKA	KIAA0968, CaMKIINalpha
5	CAMK2A	ENSG00000070808	ENST00000351010	processed_transcript	KNOWN	None	1460	None	None	149601337	149624891	-1	CAMKA	KIAA0968, CaMKIINalpha
5	CAMK2A	ENSG00000070808	ENST00000398376	protein_coding	KNOWN	CCDS43387	1460	1470	489	149602254	149669192	-1	CAMKA	KIAA0968, CaMKIINalpha
5	CAMK2A	ENSG00000070808	ENST00000508662	retained_intron	KNOWN	None	1460	None	None	149617852	149669336	-1	CAMKA	KIAA0968, CaMKIINalpha
5	CAMK2A	ENSG00000070808	ENST00000515758	protein_coding	NOVEL	None	1460	73	23	149633064	149644960	-1	CAMKA	KIAA0968, CaMKIINalpha
5	CAMK2A	ENSG00000070808	ENST00000510347	protein_coding	KNOWN	None	1460	272	89	149637126	149669627	-1	CAMKA	KIAA0968, CaMKIINalpha
5	CAMK2A	ENSG00000070808	ENST00000507995	processed_transcript	KNOWN	None	1460	None	None	149644705	149669350	-1	CAMKA	KIAA0968, CaMKIINalpha
3	PPP4R2	ENSG00000163605	ENST00000356692	protein_coding	KNOWN	CCDS2917	18296	1254	417	73045936	73118350	1	None	None
3	PPP4R2	ENSG00000163605	ENST00000482242	nonsense_mediated_decay	KNOWN	None	18296	351	116	73045954	73114133	1	None	None
3	PPP4R2	ENSG00000163605	ENST00000470976	retained_intron	KNOWN	None	18296	None	None	73045969	73110605	1	None	None
3	PPP4R2	ENSG00000163605	ENST00000488810	protein_coding	NOVEL	None	18296	678	225	73045990	73114117	1	None	None
3	PPP4R2	ENSG00000163605	ENST00000495566	protein_coding	PUTATIVE	None	18296	210	69	73046128	73065285	1	None	None
3	PPP4R2	ENSG00000163605	ENST00000476505	protein_coding	PUTATIVE	None	18296	188	61	73046509	73108202	1	None	None
3	PPP4R2	ENSG00000163605	ENST00000460360	protein_coding	PUTATIVE	None	18296	431	142	73113165	73114441	1	None	None
3	PPP4R2	ENSG00000163605	ENST00000394284	protein_coding	KNOWN	None	18296	1083	360	73045991	73116290	1	None	None
3	PPP4R2	ENSG00000163605	ENST00000295862	protein_coding	KNOWN	None	18296	1086	361	73045991	73116290	1	None	None
19	None	ENSG00000234003	ENST00000416987	unprocessed_pseudogene	KNOWN	None	None	None	None	12617063	12618844	1	None	None
Y	RNU1-40P	ENSG00000252625	ENST00000516816	snRNA	KNOWN	None	48382	None	None	28075126	28075289	1	None	None
10	MIR4293	ENSG00000266321	ENST00000584305	miRNA	KNOWN	None	38270	None	None	14425199	14425276	-1	None	hsa-mir-4293
22	None	ENSG00000228923	ENST00000432032	antisense	KNOWN	None	None	None	None	24912476	24914354	1	None	None
Y	USP9YP21	ENSG00000227635	ENST00000420603	unprocessed_pseudogene	KNOWN	None	38757	None	None	28079980	28082028	-1	None	None
10	MIR1265	ENSG00000221371	ENST00000408444	miRNA	KNOWN	None	35332	None	None	14478575	14478660	1	MIRN1265	hsa-mir-1265
6	None	ENSG00000237874	ENST00000443471	lincRNA	KNOWN	None	None	None	None	84437774	84446244	1	None	None
22	None	ENSG00000230947	ENST00000438893	sense_intronic	KNOWN	None	None	None	None	24994021	24995365	1	None	None
5	TNPO1	ENSG00000083312	ENST00000337273	protein_coding	KNOWN	CCDS43329	6401	2697	898	72112139	72212560	1	KPNB2	MIP, TRN, IPO2, MIP1
5	TNPO1	ENSG00000083312	ENST00000515483	processed_transcript	KNOWN	None	6401	None	None	72112451	72151743	1	KPNB2	MIP, TRN, IPO2, MIP1
5	TNPO1	ENSG00000083312	ENST00000520850	nonsense_mediated_decay	KNOWN	None	6401	411	136	72112476	72178924	1	KPNB2	MIP, TRN, IPO2, MIP1
5	TNPO1	ENSG00000083312	ENST00000523768	protein_coding	NOVEL	None	6401	2547	848	72112499	72201256	1	KPNB2	MIP, TRN, IPO2, MIP1
5	TNPO1	ENSG00000083312	ENST00000518279	processed_transcript	KNOWN	None	6401	None	None	72112620	72161520	1	KPNB2	MIP, TRN, IPO2, MIP1
5	TNPO1	ENSG00000083312	ENST00000513944	processed_transcript	KNOWN	None	6401	None	None	72143997	72157742	1	KPNB2	MIP, TRN, IPO2, MIP1
5	TNPO1	ENSG00000083312	ENST00000506351	protein_coding	NOVEL	CCDS4016	6401	2673	890	72144011	72204778	1	KPNB2	MIP, TRN, IPO2, MIP1
5	TNPO1	ENSG00000083312	ENST00000509030	processed_transcript	KNOWN	None	6401	None	None	72144212	72158223	1	KPNB2	MIP, TRN, IPO2, MIP1
5	TNPO1	ENSG00000083312	ENST00000511754	processed_transcript	KNOWN	None	6401	None	None	72144212	72161558	1	KPNB2	MIP, TRN, IPO2, MIP1
5	TNPO1	ENSG00000083312	ENST00000506528	processed_transcript	KNOWN	None	6401	None	None	72144212	72168547	1	KPNB2	MIP, TRN, IPO2, MIP1
5	TNPO1	ENSG00000083312	ENST00000508762	processed_transcript	KNOWN	None	6401	None	None	72167574	72178926	1	KPNB2	MIP, TRN, IPO2, MIP1
5	TNPO1	ENSG00000083312	ENST00000505082	processed_transcript	KNOWN	None	6401	None	None	72168495	72183037	1	KPNB2	MIP, TRN, IPO2, MIP1
5	TNPO1	ENSG00000083312	ENST00000605210	protein_coding	PUTATIVE	None	6401	582	193	72189503	72201407	1	KPNB2	MIP, TRN, IPO2, MIP1
5	TNPO1	ENSG00000083312	ENST00000503084	retained_intron	KNOWN	None	6401	None	None	72196701	72204740	1	KPNB2	MIP, TRN, IPO2, MIP1
5	TNPO1	ENSG00000083312	ENST00000454282	protein_coding	KNOWN	None	6401	2547	848	72112418	72210215	1	KPNB2	MIP, TRN, IPO2, MIP1
5	TNPO1	ENSG00000083312	ENST00000447967	protein_coding	KNOWN	None	6401	387	128	72112476	72178924	1	KPNB2	MIP, TRN, IPO2, MIP1
HSCHR6_MHC_COX	OR2G1P	ENSG00000225150	ENST00000425893	unprocessed_pseudogene	KNOWN	None	8251	None	None	29193695	29194625	-1	None	OST619, hs6M1-25
12	NUP107	ENSG00000111581	ENST00000229179	protein_coding	KNOWN	CCDS8985	29914	2778	925	69080514	69136785	1	None	NUP84
12	NUP107	ENSG00000111581	ENST00000540453	retained_intron	KNOWN	None	29914	None	None	69080751	69083690	1	None	NUP84
12	NUP107	ENSG00000111581	ENST00000535333	processed_transcript	KNOWN	None	29914	None	None	69080772	69094594	1	None	NUP84
12	NUP107	ENSG00000111581	ENST00000537598	processed_transcript	KNOWN	None	29914	None	None	69080780	69103045	1	None	NUP84
12	NUP107	ENSG00000111581	ENST00000535718	nonsense_mediated_decay	KNOWN	None	29914	312	103	69080786	69136468	1	None	NUP84
12	NUP107	ENSG00000111581	ENST00000539906	protein_coding	PUTATIVE	None	29914	2691	896	69081235	69136311	1	None	NUP84
12	NUP107	ENSG00000111581	ENST00000538549	protein_coding	PUTATIVE	None	29914	256	84	69081242	69090706	1	None	NUP84
12	NUP107	ENSG00000111581	ENST00000545140	retained_intron	KNOWN	None	29914	None	None	69084248	69090690	1	None	NUP84
12	NUP107	ENSG00000111581	ENST00000539373	retained_intron	KNOWN	None	29914	None	None	69084451	69085949	1	None	NUP84
12	NUP107	ENSG00000111581	ENST00000537662	retained_intron	KNOWN	None	29914	None	None	69103003	69108158	1	None	NUP84
12	NUP107	ENSG00000111581	ENST00000538993	nonsense_mediated_decay	KNOWN	None	29914	243	80	69114916	69127305	1	None	NUP84
12	NUP107	ENSG00000111581	ENST00000401003	processed_transcript	KNOWN	None	29914	None	None	69126353	69133998	1	None	NUP84
12	NUP107	ENSG00000111581	ENST00000378905	protein_coding	KNOWN	None	29914	2061	686	69080786	69136463	1	None	NUP84
6	None	ENSG00000228679	ENST00000420766	lincRNA	KNOWN	None	None	None	None	84693447	84717042	1	None	None
2	NXPH2	ENSG00000144227	ENST00000272641	protein_coding	KNOWN	CCDS46421	8076	795	264	139428342	139537918	-1	None	NPH2
HSCHR6_MHC_MANN	PSORS1C2	ENSG00000234605	ENST00000422316	protein_coding	KNOWN	None	17199	411	136	31150282	31152098	-1	C6orf17	SPR1
16	ABCC12	ENSG00000140798	ENST00000311303	protein_coding	KNOWN	CCDS10730	14640	4080	1359	48116884	48180681	-1	None	MRP9
16	ABCC12	ENSG00000140798	ENST00000534418	nonsense_mediated_decay	KNOWN	None	14640	2793	930	48117258	48180561	-1	None	MRP9
16	ABCC12	ENSG00000140798	ENST00000529084	nonsense_mediated_decay	KNOWN	None	14640	1902	633	48117258	48189929	-1	None	MRP9
16	ABCC12	ENSG00000140798	ENST00000497206	nonsense_mediated_decay	KNOWN	None	14640	3030	1009	48117607	48180341	-1	None	MRP9
16	ABCC12	ENSG00000140798	ENST00000532494	nonsense_mediated_decay	KNOWN	None	14640	3030	1009	48117607	48180341	-1	None	MRP9
16	ABCC12	ENSG00000140798	ENST00000529504	nonsense_mediated_decay	KNOWN	None	14640	2808	935	48117607	48180341	-1	None	MRP9
16	ABCC12	ENSG00000140798	ENST00000532355	processed_transcript	KNOWN	None	14640	None	None	48117966	48120551	-1	None	MRP9
16	ABCC12	ENSG00000140798	ENST00000526251	retained_intron	KNOWN	None	14640	None	None	48121077	48125149	-1	None	MRP9
16	ABCC12	ENSG00000140798	ENST00000533185	retained_intron	KNOWN	None	14640	None	None	48145359	48149344	-1	None	MRP9
16	ABCC12	ENSG00000140798	ENST00000528693	retained_intron	KNOWN	None	14640	None	None	48155151	48189904	-1	None	MRP9
16	ABCC12	ENSG00000140798	ENST00000533639	nonsense_mediated_decay	KNOWN	None	14640	858	285	48167680	48189904	-1	None	MRP9
16	ABCC12	ENSG00000140798	ENST00000527640	protein_coding	KNOWN	None	14640	318	105	48175222	48189904	-1	None	MRP9
16	ABCC12	ENSG00000140798	ENST00000448542	protein_coding	KNOWN	None	14640	2808	935	48117607	48180341	-1	None	MRP9
16	ABCC12	ENSG00000140798	ENST00000416054	protein_coding	KNOWN	None	14640	1902	633	48117607	48180341	-1	None	MRP9
17	TRIM65	ENSG00000141569	ENST00000591668	protein_coding	PUTATIVE	None	27316	412	136	73876416	73888384	-1	None	None
17	TRIM65	ENSG00000141569	ENST00000592642	protein_coding	PUTATIVE	None	27316	273	90	73876525	73888230	-1	None	None
17	TRIM65	ENSG00000141569	ENST00000269383	protein_coding	KNOWN	CCDS11732	27316	1554	517	73885041	73893084	-1	None	None
17	TRIM65	ENSG00000141569	ENST00000543309	protein_coding	NOVEL	None	27316	865	287	73887104	73892639	-1	None	None
17	TRIM65	ENSG00000141569	ENST00000540128	protein_coding	PUTATIVE	None	27316	733	243	73887261	73892992	-1	None	None
17	TRIM65	ENSG00000141569	ENST00000540812	retained_intron	KNOWN	None	27316	None	None	73888664	73892721	-1	None	None
19	CEACAM18	ENSG00000213822	ENST00000396477	protein_coding	PUTATIVE	None	31949	1155	384	51981876	51994206	1	None	None
19	CEACAM18	ENSG00000213822	ENST00000451626	protein_coding	KNOWN	CCDS46159	31949	1197	398	51979838	51986611	1	None	None
17	MPP3	ENSG00000161647	ENST00000398393	protein_coding	PUTATIVE	None	7221	1833	610	41878167	41909610	-1	DLG3	None
17	MPP3	ENSG00000161647	ENST00000496503	nonsense_mediated_decay	KNOWN	None	7221	948	315	41878786	41910538	-1	DLG3	None
17	MPP3	ENSG00000161647	ENST00000398389	protein_coding	KNOWN	CCDS42344	7221	1758	585	41878811	41910538	-1	DLG3	None
17	MPP3	ENSG00000161647	ENST00000486600	retained_intron	KNOWN	None	7221	None	None	41886368	41888939	-1	DLG3	None
17	MPP3	ENSG00000161647	ENST00000466083	retained_intron	KNOWN	None	7221	None	None	41888525	41891762	-1	DLG3	None
17	MPP3	ENSG00000161647	ENST00000475450	processed_transcript	PUTATIVE	None	7221	None	None	41891379	41892002	-1	DLG3	None
17	MPP3	ENSG00000161647	ENST00000479797	nonsense_mediated_decay	KNOWN	None	7221	63	20	41891379	41898282	-1	DLG3	None
17	MPP3	ENSG00000161647	ENST00000589375	retained_intron	KNOWN	None	7221	None	None	41895287	41910512	-1	DLG3	None
17	MPP3	ENSG00000161647	ENST00000480958	retained_intron	KNOWN	None	7221	None	None	41902409	41909001	-1	DLG3	None
22	BCRP3	ENSG00000215481	ENST00000382243	unprocessed_pseudogene	KNOWN	None	1016	None	None	25040704	25046799	1	BCR3, BCRL6, BCRL3	None
22	BCRP3	ENSG00000215481	ENST00000447261	unprocessed_pseudogene	KNOWN	None	1016	None	None	25028882	25043727	1	BCR3, BCRL6, BCRL3	None
5	PCDHGA3	ENSG00000254245	ENST00000253812	protein_coding	KNOWN	CCDS47290	8701	2799	932	140723601	140892546	1	None	PCDH-GAMMA-A3
Y	XKRYP6	ENSG00000237546	ENST00000440468	unprocessed_pseudogene	KNOWN	None	23913	None	None	28089415	28100299	1	None	None
6	None	ENSG00000221779	ENST00000408852	miRNA	NOVEL	None	None	None	None	34036934	34036995	-1	None	None
6	KRT18P9	ENSG00000271231	ENST00000604826	processed_pseudogene	KNOWN	None	17767	None	None	34157557	34158856	1	None	bA513I15.2
3	PAQR9	ENSG00000188582	ENST00000492509	protein_coding	PUTATIVE	None	30131	439	145	142668006	142681399	-1	None	FLJ41938
3	PAQR9	ENSG00000188582	ENST00000498470	protein_coding	PUTATIVE	None	30131	117	38	142670405	142681092	-1	None	FLJ41938
3	PAQR9	ENSG00000188582	ENST00000340634	protein_coding	KNOWN	CCDS3128	30131	1134	377	142680076	142682178	-1	None	FLJ41938
6	SLC35B2	ENSG00000157593	ENST00000495706	processed_transcript	KNOWN	None	16872	None	None	44221833	44225291	-1	None	UGTrel4
6	SLC35B2	ENSG00000157593	ENST00000393810	protein_coding	PUTATIVE	None	16872	285	94	44221833	44225291	-1	None	UGTrel4
6	SLC35B2	ENSG00000157593	ENST00000393812	protein_coding	KNOWN	CCDS34462	16872	1299	432	44221843	44225291	-1	None	UGTrel4
6	SLC35B2	ENSG00000157593	ENST00000538577	protein_coding	KNOWN	None	16872	1020	339	44222207	44225265	-1	None	UGTrel4
6	SLC35B2	ENSG00000157593	ENST00000537814	protein_coding	KNOWN	None	16872	900	299	44222087	44225275	-1	None	UGTrel4
HSCHR6_MHC_SSTO	LY6G6D	ENSG00000235302	ENST00000434515	protein_coding	KNOWN	None	13935	402	133	31673092	31675540	1	C6orf23	MEGT1, Ly6-D, G6D, LY6-D, NG25
HSCHR6_MHC_SSTO	LY6G6D	ENSG00000235302	ENST00000430137	protein_coding	PUTATIVE	None	13935	523	173	31673092	31675540	1	C6orf23	MEGT1, Ly6-D, G6D, LY6-D, NG25
HSCHR6_MHC_SSTO	LY6G6D	ENSG00000235302	ENST00000483624	retained_intron	KNOWN	None	13935	None	None	31673092	31675540	1	C6orf23	MEGT1, Ly6-D, G6D, LY6-D, NG25
19	None	ENSG00000268193	ENST00000596918	nonsense_mediated_decay	KNOWN	None	None	254	83	19017822	19045206	-1	None	None
19	None	ENSG00000268193	ENST00000593484	nonsense_mediated_decay	KNOWN	None	None	254	83	19017822	19045206	-1	None	None
4	UBE2D3	ENSG00000109332	ENST00000453744	protein_coding	KNOWN	CCDS3660	12476	444	147	103715540	103748969	-1	None	UbcH5C
4	UBE2D3	ENSG00000109332	ENST00000394801	protein_coding	KNOWN	CCDS3660	12476	444	147	103717133	103749105	-1	None	UbcH5C
4	UBE2D3	ENSG00000109332	ENST00000394803	protein_coding	KNOWN	CCDS3660	12476	444	147	103717133	103749316	-1	None	UbcH5C
4	UBE2D3	ENSG00000109332	ENST00000508474	retained_intron	KNOWN	None	12476	None	None	103717291	103734130	-1	None	UbcH5C
4	UBE2D3	ENSG00000109332	ENST00000343106	protein_coding	KNOWN	CCDS3661	12476	447	148	103717291	103748279	-1	None	UbcH5C
4	UBE2D3	ENSG00000109332	ENST00000503742	retained_intron	KNOWN	None	12476	None	None	103718308	103748723	-1	None	UbcH5C
4	UBE2D3	ENSG00000109332	ENST00000321805	protein_coding	KNOWN	CCDS3660	12476	444	147	103718392	103748710	-1	None	UbcH5C
4	UBE2D3	ENSG00000109332	ENST00000350435	protein_coding	PUTATIVE	None	12476	426	141	103718404	103747017	-1	None	UbcH5C
4	UBE2D3	ENSG00000109332	ENST00000338145	protein_coding	KNOWN	CCDS3660	12476	444	147	103718409	103790032	-1	None	UbcH5C
4	UBE2D3	ENSG00000109332	ENST00000349311	protein_coding	KNOWN	CCDS3660	12476	444	147	103718421	103749006	-1	None	UbcH5C
4	UBE2D3	ENSG00000109332	ENST00000504211	protein_coding	PUTATIVE	None	12476	357	118	103718479	103746699	-1	None	UbcH5C
4	UBE2D3	ENSG00000109332	ENST00000505009	retained_intron	KNOWN	None	12476	None	None	103718512	103723851	-1	None	UbcH5C
4	UBE2D3	ENSG00000109332	ENST00000357194	protein_coding	KNOWN	CCDS3659	12476	450	149	103718514	103790053	-1	None	UbcH5C
4	UBE2D3	ENSG00000109332	ENST00000505207	protein_coding	PUTATIVE	None	12476	357	118	103718524	103746937	-1	None	UbcH5C
4	UBE2D3	ENSG00000109332	ENST00000507845	protein_coding	PUTATIVE	None	12476	357	118	103718542	103746942	-1	None	UbcH5C
4	UBE2D3	ENSG00000109332	ENST00000502404	protein_coding	PUTATIVE	None	12476	357	118	103718556	103746937	-1	None	UbcH5C
4	UBE2D3	ENSG00000109332	ENST00000508635	nonsense_mediated_decay	KNOWN	None	12476	60	19	103718560	103746697	-1	None	UbcH5C
4	UBE2D3	ENSG00000109332	ENST00000505307	nonsense_mediated_decay	KNOWN	None	12476	147	48	103720564	103748708	-1	None	UbcH5C
4	UBE2D3	ENSG00000109332	ENST00000510129	nonsense_mediated_decay	KNOWN	None	12476	108	35	103720624	103748679	-1	None	UbcH5C
4	UBE2D3	ENSG00000109332	ENST00000508476	protein_coding	PUTATIVE	None	12476	217	71	103722611	103746716	-1	None	UbcH5C
4	UBE2D3	ENSG00000109332	ENST00000502563	nonsense_mediated_decay	KNOWN	None	12476	108	35	103722614	103748024	-1	None	UbcH5C
4	UBE2D3	ENSG00000109332	ENST00000508238	protein_coding	KNOWN	None	12476	289	95	103722626	103790018	-1	None	UbcH5C
4	UBE2D3	ENSG00000109332	ENST00000514755	nonsense_mediated_decay	KNOWN	None	12476	147	48	103722630	103749188	-1	None	UbcH5C
4	UBE2D3	ENSG00000109332	ENST00000508974	nonsense_mediated_decay	KNOWN	None	12476	168	55	103722666	103748657	-1	None	UbcH5C
4	UBE2D3	ENSG00000109332	ENST00000502690	protein_coding	KNOWN	None	12476	235	77	103722680	103749186	-1	None	UbcH5C
4	UBE2D3	ENSG00000109332	ENST00000510599	retained_intron	KNOWN	None	12476	None	None	103723506	103731110	-1	None	UbcH5C
4	UBE2D3	ENSG00000109332	ENST00000508818	retained_intron	KNOWN	None	12476	None	None	103723527	103749167	-1	None	UbcH5C
4	UBE2D3	ENSG00000109332	ENST00000503418	nonsense_mediated_decay	KNOWN	None	12476	147	48	103723718	103748992	-1	None	UbcH5C
4	UBE2D3	ENSG00000109332	ENST00000508249	protein_coding	KNOWN	None	12476	147	48	103723769	103749221	-1	None	UbcH5C
4	UBE2D3	ENSG00000109332	ENST00000513098	processed_transcript	KNOWN	None	12476	None	None	103730237	103748167	-1	None	UbcH5C
4	UBE2D3	ENSG00000109332	ENST00000503282	retained_intron	KNOWN	None	12476	None	None	103730587	103748677	-1	None	UbcH5C
4	UBE2D3	ENSG00000109332	ENST00000394804	protein_coding	KNOWN	CCDS3660	12476	444	147	103717134	103749105	-1	None	UbcH5C
3	TGM4	ENSG00000163810	ENST00000490928	retained_intron	KNOWN	None	11780	None	None	44916100	44930662	1	None	TGP
3	TGM4	ENSG00000163810	ENST00000296125	protein_coding	KNOWN	CCDS2723	11780	2055	684	44916103	44956482	1	None	TGP
3	TGM4	ENSG00000163810	ENST00000471637	processed_transcript	KNOWN	None	11780	None	None	44916115	44917982	1	None	TGP
3	TGM4	ENSG00000163810	ENST00000422219	nonsense_mediated_decay	KNOWN	None	11780	276	91	44916127	44943062	1	None	TGP
3	TGM4	ENSG00000163810	ENST00000495844	retained_intron	KNOWN	None	11780	None	None	44931831	44938231	1	None	TGP
3	TGM4	ENSG00000163810	ENST00000459830	retained_intron	KNOWN	None	11780	None	None	44945027	44948694	1	None	TGP
16	ATP2A1	ENSG00000196296	ENST00000357084	protein_coding	KNOWN	CCDS10643	811	3006	1001	28889726	28915785	1	ATP2A	SERCA1
16	ATP2A1	ENSG00000196296	ENST00000395503	protein_coding	KNOWN	CCDS42139	811	2985	994	28889809	28915830	1	ATP2A	SERCA1
16	ATP2A1	ENSG00000196296	ENST00000563975	protein_coding	PUTATIVE	None	811	341	112	28890182	28893872	1	ATP2A	SERCA1
16	ATP2A1	ENSG00000196296	ENST00000562185	protein_coding	PUTATIVE	None	811	79	25	28890564	28893901	1	ATP2A	SERCA1
16	ATP2A1	ENSG00000196296	ENST00000536376	protein_coding	KNOWN	None	811	2610	869	28891374	28915785	1	ATP2A	SERCA1
16	ATP2A1	ENSG00000196296	ENST00000564732	nonsense_mediated_decay	KNOWN	None	811	386	127	28898984	28911939	1	ATP2A	SERCA1
16	ATP2A1	ENSG00000196296	ENST00000565042	processed_transcript	KNOWN	None	811	None	None	28900218	28905540	1	ATP2A	SERCA1
16	ATP2A1	ENSG00000196296	ENST00000564470	nonsense_mediated_decay	KNOWN	None	811	126	41	28900218	28905540	1	ATP2A	SERCA1
16	ATP2A1	ENSG00000196296	ENST00000564112	protein_coding	KNOWN	None	811	73	23	28914694	28915147	1	ATP2A	SERCA1
19	SIGLEC12	ENSG00000254521	ENST00000596742	nonsense_mediated_decay	KNOWN	None	15482	465	154	51994611	52005026	-1	SIGLECL1	SLG, S2V, Siglec-XII, Siglec-12, Siglec-L1
19	SIGLEC12	ENSG00000254521	ENST00000291707	protein_coding	KNOWN	CCDS12833	15482	1788	595	51994618	52005043	-1	SIGLECL1	SLG, S2V, Siglec-XII, Siglec-12, Siglec-L1
19	SIGLEC12	ENSG00000254521	ENST00000598614	protein_coding	PUTATIVE	CCDS59416	15482	1434	477	51994895	52003627	-1	SIGLECL1	SLG, S2V, Siglec-XII, Siglec-12, Siglec-L1
Y	PRYP4	ENSG00000172283	ENST00000306589	unprocessed_pseudogene	KNOWN	None	34021	None	None	28121696	28134216	1	None	None
Y	PRYP4	ENSG00000172283	ENST00000338673	unprocessed_pseudogene	KNOWN	None	34021	None	None	28121660	28132811	1	None	None
20	PDYN	ENSG00000101327	ENST00000217305	protein_coding	KNOWN	CCDS13023	8820	765	254	1959405	1974703	-1	SCA23	PENKB, ADCA
20	PDYN	ENSG00000101327	ENST00000539905	protein_coding	KNOWN	CCDS13023	8820	765	254	1959403	1974732	-1	SCA23	PENKB, ADCA
20	PDYN	ENSG00000101327	ENST00000540134	protein_coding	KNOWN	CCDS13023	8820	765	254	1959403	1974394	-1	SCA23	PENKB, ADCA
17	CRLF3	ENSG00000176390	ENST00000585268	processed_transcript	KNOWN	None	17177	None	None	29096406	29111431	-1	None	CREME9, CYTOR4
17	CRLF3	ENSG00000176390	ENST00000583527	protein_coding	PUTATIVE	None	17177	356	117	29099381	29113011	-1	None	CREME9, CYTOR4
17	CRLF3	ENSG00000176390	ENST00000324238	protein_coding	KNOWN	CCDS32607	17177	1329	442	29109702	29151794	-1	None	CREME9, CYTOR4
17	CRLF3	ENSG00000176390	ENST00000578692	nonsense_mediated_decay	KNOWN	None	17177	291	96	29110954	29151689	-1	None	CREME9, CYTOR4
17	CRLF3	ENSG00000176390	ENST00000577725	processed_transcript	PUTATIVE	None	17177	None	None	29112125	29128438	-1	None	CREME9, CYTOR4
17	CRLF3	ENSG00000176390	ENST00000583805	processed_transcript	PUTATIVE	None	17177	None	None	29130945	29137004	-1	None	CREME9, CYTOR4
17	CRLF3	ENSG00000176390	ENST00000544695	protein_coding	KNOWN	None	17177	981	326	29110954	29151689	-1	None	CREME9, CYTOR4
13	GTF3A	ENSG00000122034	ENST00000381140	protein_coding	NOVEL	CCDS45019	4662	1098	365	27998681	28009825	1	None	TFIIIA, AP2
13	GTF3A	ENSG00000122034	ENST00000435781	nonsense_mediated_decay	KNOWN	None	4662	405	134	27998775	28008306	1	None	TFIIIA, AP2
13	GTF3A	ENSG00000122034	ENST00000419181	nonsense_mediated_decay	KNOWN	None	4662	567	188	27998799	28009825	1	None	TFIIIA, AP2
13	GTF3A	ENSG00000122034	ENST00000438571	nonsense_mediated_decay	KNOWN	None	4662	315	104	27998813	28006882	1	None	TFIIIA, AP2
13	GTF3A	ENSG00000122034	ENST00000466776	processed_transcript	KNOWN	None	4662	None	None	27998903	28008287	1	None	TFIIIA, AP2
13	GTF3A	ENSG00000122034	ENST00000470606	processed_transcript	KNOWN	None	4662	None	None	27999548	28009825	1	None	TFIIIA, AP2
13	GTF3A	ENSG00000122034	ENST00000493903	processed_transcript	KNOWN	None	4662	None	None	28003350	28009171	1	None	TFIIIA, AP2
13	GTF3A	ENSG00000122034	ENST00000439403	protein_coding	PUTATIVE	None	4662	537	178	28004095	28009825	1	None	TFIIIA, AP2
13	GTF3A	ENSG00000122034	ENST00000482655	retained_intron	KNOWN	None	4662	None	None	28008794	28009958	1	None	TFIIIA, AP2
10	None	ENSG00000236495	ENST00000443282	antisense	KNOWN	None	None	None	None	14694741	14703690	1	None	None
9	FKBP15	ENSG00000119321	ENST00000446284	protein_coding	KNOWN	None	23397	3735	1244	115923286	115983598	-1	KIAA0674	PPP1R76
9	FKBP15	ENSG00000119321	ENST00000489645	processed_transcript	KNOWN	None	23397	None	None	115946572	115950841	-1	KIAA0674	PPP1R76
9	FKBP15	ENSG00000119321	ENST00000414250	protein_coding	KNOWN	None	23397	1494	497	115948716	115983598	-1	KIAA0674	PPP1R76
9	FKBP15	ENSG00000119321	ENST00000493847	processed_transcript	KNOWN	None	23397	None	None	115968291	115969576	-1	KIAA0674	PPP1R76
9	FKBP15	ENSG00000119321	ENST00000462889	processed_transcript	KNOWN	None	23397	None	None	115969207	115983559	-1	KIAA0674	PPP1R76
9	FKBP15	ENSG00000119321	ENST00000238256	protein_coding	KNOWN	CCDS48007	23397	3660	1219	115927800	115983641	-1	KIAA0674	PPP1R76
12	PIP4K2C	ENSG00000166908	ENST00000422156	protein_coding	KNOWN	CCDS53808	23786	1122	373	57984957	57995709	1	PIP5K2C	FLJ22055
12	PIP4K2C	ENSG00000166908	ENST00000540759	protein_coding	KNOWN	CCDS8946	23786	1266	421	57984986	57997198	1	PIP5K2C	FLJ22055
12	PIP4K2C	ENSG00000166908	ENST00000551772	protein_coding	NOVEL	None	23786	480	159	57985005	57992877	1	PIP5K2C	FLJ22055
12	PIP4K2C	ENSG00000166908	ENST00000550465	protein_coding	KNOWN	CCDS55839	23786	1212	403	57985026	57995662	1	PIP5K2C	FLJ22055
12	PIP4K2C	ENSG00000166908	ENST00000550360	nonsense_mediated_decay	KNOWN	None	23786	153	50	57985029	57992927	1	PIP5K2C	FLJ22055
12	PIP4K2C	ENSG00000166908	ENST00000550095	nonsense_mediated_decay	KNOWN	None	23786	516	171	57985049	57994219	1	PIP5K2C	FLJ22055
12	PIP4K2C	ENSG00000166908	ENST00000354947	protein_coding	KNOWN	CCDS8946	23786	1266	421	57985057	57997031	1	PIP5K2C	FLJ22055
12	PIP4K2C	ENSG00000166908	ENST00000548264	protein_coding	NOVEL	None	23786	403	133	57992873	57994760	1	PIP5K2C	FLJ22055
HSCHR6_MHC_COX	OR2U1P	ENSG00000237366	ENST00000456321	unprocessed_pseudogene	KNOWN	None	8278	None	None	29227173	29228549	-1	OR2AU1P	hs6M1-24
12	HOXC8	ENSG00000037965	ENST00000040584	protein_coding	KNOWN	CCDS8870	5129	729	242	54402832	54407570	1	HOX3, HOX3A	None
19	ZNF627	ENSG00000198551	ENST00000593279	processed_transcript	KNOWN	None	30570	None	None	11670189	11715093	1	None	FLJ90365
19	ZNF627	ENSG00000198551	ENST00000585493	protein_coding	PUTATIVE	None	30570	51	16	11670263	11725658	1	None	FLJ90365
19	ZNF627	ENSG00000198551	ENST00000588651	processed_transcript	KNOWN	None	30570	None	None	11670276	11686382	1	None	FLJ90365
19	ZNF627	ENSG00000198551	ENST00000361113	protein_coding	KNOWN	CCDS42502	30570	1386	461	11708235	11729950	1	None	FLJ90365
19	ZNF627	ENSG00000198551	ENST00000587939	protein_coding	PUTATIVE	None	30570	174	57	11708277	11727588	1	None	FLJ90365
19	ZNF627	ENSG00000198551	ENST00000588174	protein_coding	PUTATIVE	None	30570	204	67	11708298	11729939	1	None	FLJ90365
1	CEP350	ENSG00000135837	ENST00000367607	protein_coding	KNOWN	CCDS1336	24238	9354	3117	179923873	180084015	1	None	KIAA0480, CAP350
1	CEP350	ENSG00000135837	ENST00000491495	protein_coding	NOVEL	None	24238	728	241	179923908	179966098	1	None	KIAA0480, CAP350
1	CEP350	ENSG00000135837	ENST00000357434	protein_coding	NOVEL	None	24238	392	129	179955317	179961356	1	None	KIAA0480, CAP350
1	CEP350	ENSG00000135837	ENST00000418229	protein_coding	NOVEL	None	24238	992	329	180010338	180022969	1	None	KIAA0480, CAP350
1	CEP350	ENSG00000135837	ENST00000490047	nonsense_mediated_decay	KNOWN	None	24238	174	57	180010797	180017840	1	None	KIAA0480, CAP350
1	CEP350	ENSG00000135837	ENST00000429851	protein_coding	NOVEL	None	24238	3877	1291	180042954	180082515	1	None	KIAA0480, CAP350
1	CEP350	ENSG00000135837	ENST00000437245	protein_coding	NOVEL	None	24238	333	110	180049652	180053415	1	None	KIAA0480, CAP350
1	CEP350	ENSG00000135837	ENST00000484356	processed_transcript	KNOWN	None	24238	None	None	180054715	180059883	1	None	KIAA0480, CAP350
1	CEP350	ENSG00000135837	ENST00000490141	processed_transcript	KNOWN	None	24238	None	None	180054739	180080327	1	None	KIAA0480, CAP350
1	CEP350	ENSG00000135837	ENST00000417046	protein_coding	KNOWN	None	24238	1746	581	180062849	180082515	1	None	KIAA0480, CAP350
1	CEP350	ENSG00000135837	ENST00000496440	processed_transcript	KNOWN	None	24238	None	None	180064282	180080166	1	None	KIAA0480, CAP350
12	HOXC4	ENSG00000198353	ENST00000303406	protein_coding	KNOWN	CCDS8873	5126	795	264	54410715	54449111	1	HOX3, HOX3E	None
12	HOXC4	ENSG00000198353	ENST00000507650	processed_transcript	PUTATIVE	None	5126	None	None	54431638	54447208	1	HOX3, HOX3E	None
12	HOXC4	ENSG00000198353	ENST00000430889	protein_coding	KNOWN	CCDS8873	5126	795	264	54447661	54449814	1	HOX3, HOX3E	None
9	OBP2A	ENSG00000122136	ENST00000537747	nonsense_mediated_decay	KNOWN	None	23380	258	85	138437985	138441802	1	None	hOBPIIa, OBP
9	OBP2A	ENSG00000122136	ENST00000340780	protein_coding	KNOWN	None	23380	687	228	138437985	138441802	1	None	hOBPIIa, OBP
9	OBP2A	ENSG00000122136	ENST00000471886	nonsense_mediated_decay	KNOWN	None	23380	441	146	138437985	138441802	1	None	hOBPIIa, OBP
9	OBP2A	ENSG00000122136	ENST00000342114	protein_coding	KNOWN	None	23380	444	147	138437985	138441802	1	None	hOBPIIa, OBP
9	OBP2A	ENSG00000122136	ENST00000371776	protein_coding	KNOWN	CCDS6992	23380	513	170	138437985	138441815	1	None	hOBPIIa, OBP
9	OBP2A	ENSG00000122136	ENST00000539850	protein_coding	KNOWN	CCDS6992	23380	513	170	138438001	138441792	1	None	hOBPIIa, OBP
1	None	ENSG00000268552	ENST00000601459	protein_coding	KNOWN	None	None	171	56	28177085	28177255	-1	None	None
22	YPEL1	ENSG00000100027	ENST00000339468	protein_coding	KNOWN	CCDS13794	12845	360	119	22051833	22090123	-1	None	None
22	YPEL1	ENSG00000100027	ENST00000477675	retained_intron	KNOWN	None	12845	None	None	22055154	22090050	-1	None	None
22	YPEL1	ENSG00000100027	ENST00000403503	protein_coding	PUTATIVE	None	12845	135	44	22058371	22090044	-1	None	None
12	PTHLH	ENSG00000087494	ENST00000539239	protein_coding	KNOWN	CCDS44853	9607	534	177	28111203	28122494	-1	None	PTHRP, HHM, PLP, PTHR
12	PTHLH	ENSG00000087494	ENST00000545234	protein_coding	KNOWN	CCDS44853	9607	534	177	28111353	28125638	-1	None	PTHRP, HHM, PLP, PTHR
12	PTHLH	ENSG00000087494	ENST00000538310	protein_coding	KNOWN	None	9607	630	209	28114601	28122427	-1	None	PTHRP, HHM, PLP, PTHR
12	PTHLH	ENSG00000087494	ENST00000535992	protein_coding	KNOWN	CCDS8715	9607	528	175	28115261	28123282	-1	None	PTHRP, HHM, PLP, PTHR
12	PTHLH	ENSG00000087494	ENST00000395868	protein_coding	KNOWN	CCDS8715	9607	528	175	28115520	28122980	-1	None	PTHRP, HHM, PLP, PTHR
12	PTHLH	ENSG00000087494	ENST00000542963	protein_coding	KNOWN	None	9607	516	171	28116289	28123210	-1	None	PTHRP, HHM, PLP, PTHR
12	PTHLH	ENSG00000087494	ENST00000534890	protein_coding	PUTATIVE	None	9607	333	110	28116496	28123067	-1	None	PTHRP, HHM, PLP, PTHR
12	PTHLH	ENSG00000087494	ENST00000395872	protein_coding	KNOWN	CCDS44853	9607	534	177	28111017	28124903	-1	None	PTHRP, HHM, PLP, PTHR
12	PTHLH	ENSG00000087494	ENST00000354417	protein_coding	KNOWN	None	9607	630	209	28114825	28124916	-1	None	PTHRP, HHM, PLP, PTHR
12	PTHLH	ENSG00000087494	ENST00000201015	protein_coding	KNOWN	CCDS8715	9607	528	175	28115255	28124916	-1	None	PTHRP, HHM, PLP, PTHR
17	MRPL38	ENSG00000204316	ENST00000309352	protein_coding	KNOWN	CCDS11733	14033	1143	380	73894724	73901494	-1	None	RPML3, MRP-L3, HSPC262, MGC4810
17	MRPL38	ENSG00000204316	ENST00000486101	retained_intron	KNOWN	None	14033	None	None	73894725	73895662	-1	None	RPML3, MRP-L3, HSPC262, MGC4810
17	MRPL38	ENSG00000204316	ENST00000480203	processed_transcript	KNOWN	None	14033	None	None	73895009	73896944	-1	None	RPML3, MRP-L3, HSPC262, MGC4810
17	MRPL38	ENSG00000204316	ENST00000588620	processed_transcript	KNOWN	None	14033	None	None	73895032	73896554	-1	None	RPML3, MRP-L3, HSPC262, MGC4810
17	MRPL38	ENSG00000204316	ENST00000483393	retained_intron	KNOWN	None	14033	None	None	73895033	73895949	-1	None	RPML3, MRP-L3, HSPC262, MGC4810
17	MRPL38	ENSG00000204316	ENST00000477371	retained_intron	KNOWN	None	14033	None	None	73895239	73897505	-1	None	RPML3, MRP-L3, HSPC262, MGC4810
17	MRPL38	ENSG00000204316	ENST00000477023	processed_transcript	KNOWN	None	14033	None	None	73895240	73897005	-1	None	RPML3, MRP-L3, HSPC262, MGC4810
17	MRPL38	ENSG00000204316	ENST00000471434	retained_intron	KNOWN	None	14033	None	None	73896876	73897598	-1	None	RPML3, MRP-L3, HSPC262, MGC4810
17	MRPL38	ENSG00000204316	ENST00000477736	retained_intron	KNOWN	None	14033	None	None	73896893	73900919	-1	None	RPML3, MRP-L3, HSPC262, MGC4810
17	MRPL38	ENSG00000204316	ENST00000493104	retained_intron	KNOWN	None	14033	None	None	73897264	73900952	-1	None	RPML3, MRP-L3, HSPC262, MGC4810
17	MRPL38	ENSG00000204316	ENST00000494179	retained_intron	KNOWN	None	14033	None	None	73897318	73900940	-1	None	RPML3, MRP-L3, HSPC262, MGC4810
17	MRPL38	ENSG00000204316	ENST00000585475	processed_transcript	KNOWN	None	14033	None	None	73897323	73900959	-1	None	RPML3, MRP-L3, HSPC262, MGC4810
17	MRPL38	ENSG00000204316	ENST00000493383	retained_intron	KNOWN	None	14033	None	None	73897636	73900939	-1	None	RPML3, MRP-L3, HSPC262, MGC4810
17	MRPL38	ENSG00000204316	ENST00000474548	retained_intron	KNOWN	None	14033	None	None	73897741	73898368	-1	None	RPML3, MRP-L3, HSPC262, MGC4810
17	MRPL38	ENSG00000204316	ENST00000461602	retained_intron	KNOWN	None	14033	None	None	73897825	73900963	-1	None	RPML3, MRP-L3, HSPC262, MGC4810
17	MRPL38	ENSG00000204316	ENST00000464758	retained_intron	KNOWN	None	14033	None	None	73897972	73900982	-1	None	RPML3, MRP-L3, HSPC262, MGC4810
17	MRPL38	ENSG00000204316	ENST00000410030	processed_transcript	KNOWN	None	14033	None	None	73900325	73901174	-1	None	RPML3, MRP-L3, HSPC262, MGC4810
17	MRPL38	ENSG00000204316	ENST00000409963	protein_coding	KNOWN	None	14033	591	196	73894726	73905899	-1	None	RPML3, MRP-L3, HSPC262, MGC4810
14	ARID4A	ENSG00000032219	ENST00000355431	protein_coding	KNOWN	CCDS9732	9885	3774	1257	58765103	58840451	1	RBBP1	RBP1, RBP-1
14	ARID4A	ENSG00000032219	ENST00000395168	protein_coding	KNOWN	CCDS45114	9885	3612	1203	58765274	58838944	1	RBBP1	RBP1, RBP-1
14	ARID4A	ENSG00000032219	ENST00000431612	nonsense_mediated_decay	KNOWN	None	9885	123	40	58765277	58772830	1	RBBP1	RBP1, RBP-1
14	ARID4A	ENSG00000032219	ENST00000445108	protein_coding	NOVEL	None	9885	795	264	58765306	58796887	1	RBBP1	RBP1, RBP-1
14	ARID4A	ENSG00000032219	ENST00000424658	protein_coding	KNOWN	None	9885	164	53	58766049	58771708	1	RBBP1	RBP1, RBP-1
14	ARID4A	ENSG00000032219	ENST00000431317	protein_coding	KNOWN	CCDS9733	9885	3567	1188	58766255	58840605	1	RBBP1	RBP1, RBP-1
14	ARID4A	ENSG00000032219	ENST00000417477	protein_coding	PUTATIVE	None	9885	2245	747	58798005	58832018	1	RBBP1	RBP1, RBP-1
14	ARID4A	ENSG00000032219	ENST00000553355	processed_transcript	KNOWN	None	9885	None	None	58818015	58825890	1	RBBP1	RBP1, RBP-1
14	ARID4A	ENSG00000032219	ENST00000469635	retained_intron	KNOWN	None	9885	None	None	58820172	58827709	1	RBBP1	RBP1, RBP-1
14	ARID4A	ENSG00000032219	ENST00000466065	retained_intron	KNOWN	None	9885	None	None	58832193	58838678	1	RBBP1	RBP1, RBP-1
14	ARID4A	ENSG00000032219	ENST00000348476	protein_coding	KNOWN	CCDS9733	9885	3567	1188	58765222	58840448	1	RBBP1	RBP1, RBP-1
11	TMPRSS5	ENSG00000166682	ENST00000536856	protein_coding	PUTATIVE	None	14908	444	147	113558272	113577028	-1	None	MGC141886, MGC148044
11	TMPRSS5	ENSG00000166682	ENST00000540540	protein_coding	PUTATIVE	None	14908	597	198	113558272	113577065	-1	None	MGC141886, MGC148044
11	TMPRSS5	ENSG00000166682	ENST00000299882	protein_coding	KNOWN	CCDS44735	14908	1374	457	113558273	113577095	-1	None	MGC141886, MGC148044
11	TMPRSS5	ENSG00000166682	ENST00000545579	protein_coding	PUTATIVE	None	14908	1347	448	113558419	113577068	-1	None	MGC141886, MGC148044
11	TMPRSS5	ENSG00000166682	ENST00000538955	protein_coding	PUTATIVE	None	14908	1242	413	113558419	113577068	-1	None	MGC141886, MGC148044
11	TMPRSS5	ENSG00000166682	ENST00000544634	protein_coding	NOVEL	None	14908	1167	388	113558703	113577024	-1	None	MGC141886, MGC148044
11	TMPRSS5	ENSG00000166682	ENST00000544476	protein_coding	PUTATIVE	None	14908	1035	344	113558810	113577030	-1	None	MGC141886, MGC148044
11	TMPRSS5	ENSG00000166682	ENST00000545265	processed_transcript	KNOWN	None	14908	None	None	113560952	113564459	-1	None	MGC141886, MGC148044
11	TMPRSS5	ENSG00000166682	ENST00000545412	processed_transcript	PUTATIVE	None	14908	None	None	113561674	113565136	-1	None	MGC141886, MGC148044
11	TMPRSS5	ENSG00000166682	ENST00000539732	protein_coding	PUTATIVE	None	14908	51	16	113563929	113577024	-1	None	MGC141886, MGC148044
11	TMPRSS5	ENSG00000166682	ENST00000538770	protein_coding	PUTATIVE	None	14908	32	9	113563948	113577024	-1	None	MGC141886, MGC148044
11	TMPRSS5	ENSG00000166682	ENST00000538091	nonsense_mediated_decay	KNOWN	None	14908	135	44	113569560	113577030	-1	None	MGC141886, MGC148044
X	ZNF674	ENSG00000251192	ENST00000523374	protein_coding	KNOWN	CCDS48099	17625	1746	581	46357162	46404876	-1	MRX92	ZNF673B
X	ZNF674	ENSG00000251192	ENST00000414387	protein_coding	KNOWN	CCDS55406	17625	1728	575	46358872	46404046	-1	MRX92	ZNF673B
X	ZNF674	ENSG00000251192	ENST00000518795	processed_transcript	KNOWN	None	17625	None	None	46360737	46383053	-1	MRX92	ZNF673B
X	ZNF674	ENSG00000251192	ENST00000521626	processed_transcript	KNOWN	None	17625	None	None	46382428	46404855	-1	MRX92	ZNF673B
X	ZNF674	ENSG00000251192	ENST00000522017	processed_transcript	KNOWN	None	17625	None	None	46382435	46404892	-1	MRX92	ZNF673B
X	ZNF674	ENSG00000251192	ENST00000518708	protein_coding	NOVEL	None	17625	299	98	46384813	46404859	-1	MRX92	ZNF673B
X	ZNF674	ENSG00000251192	ENST00000453909	retained_intron	KNOWN	None	17625	None	None	46387158	46389103	-1	MRX92	ZNF673B
7	ARF5	ENSG00000004059	ENST00000000233	protein_coding	KNOWN	CCDS34745	658	543	180	127228399	127231759	1	None	None
7	ARF5	ENSG00000004059	ENST00000463733	retained_intron	KNOWN	None	658	None	None	127228440	127231735	1	None	None
7	ARF5	ENSG00000004059	ENST00000415666	protein_coding	NOVEL	None	658	450	149	127228457	127231142	1	None	None
7	ARF5	ENSG00000004059	ENST00000467281	processed_transcript	KNOWN	None	658	None	None	127228459	127229628	1	None	None
7	ARF5	ENSG00000004059	ENST00000489673	retained_intron	KNOWN	None	658	None	None	127228467	127231166	1	None	None
7	ARF5	ENSG00000004059	ENST00000459680	retained_intron	KNOWN	None	658	None	None	127229099	127229885	1	None	None
8	TMEM64	ENSG00000180694	ENST00000458549	protein_coding	KNOWN	CCDS34920	25441	1143	380	91634223	91658311	-1	None	DKFZp762C1112
8	TMEM64	ENSG00000180694	ENST00000422900	protein_coding	NOVEL	None	25441	594	197	91637319	91657740	-1	None	DKFZp762C1112
8	TMEM64	ENSG00000180694	ENST00000519519	protein_coding	KNOWN	None	25441	360	119	91637899	91803859	-1	None	DKFZp762C1112
8	TMEM64	ENSG00000180694	ENST00000521852	protein_coding	KNOWN	None	25441	154	50	91643794	91803860	-1	None	DKFZp762C1112
8	TMEM64	ENSG00000180694	ENST00000523902	processed_transcript	KNOWN	None	25441	None	None	91696044	91721784	-1	None	DKFZp762C1112
8	TMEM64	ENSG00000180694	ENST00000521211	processed_transcript	KNOWN	None	25441	None	None	91696179	91803823	-1	None	DKFZp762C1112
8	TMEM64	ENSG00000180694	ENST00000418210	protein_coding	KNOWN	CCDS55260	25441	987	328	91634223	91658133	-1	None	DKFZp762C1112
9	DDX31	ENSG00000125485	ENST00000372155	retained_intron	KNOWN	None	16715	None	None	135468384	135487700	-1	None	FLJ13633, FLJ23349, FLJ14578, PPP1R25
9	DDX31	ENSG00000125485	ENST00000372159	protein_coding	KNOWN	CCDS6951	16715	2556	851	135468384	135545788	-1	None	FLJ13633, FLJ23349, FLJ14578, PPP1R25
9	DDX31	ENSG00000125485	ENST00000310532	protein_coding	KNOWN	CCDS6952	16715	1758	585	135513250	135545788	-1	None	FLJ13633, FLJ23349, FLJ14578, PPP1R25
9	DDX31	ENSG00000125485	ENST00000480876	processed_transcript	KNOWN	None	16715	None	None	135533506	135545788	-1	None	FLJ13633, FLJ23349, FLJ14578, PPP1R25
9	DDX31	ENSG00000125485	ENST00000482620	processed_transcript	KNOWN	None	16715	None	None	135536463	135545788	-1	None	FLJ13633, FLJ23349, FLJ14578, PPP1R25
9	DDX31	ENSG00000125485	ENST00000372153	protein_coding	KNOWN	None	16715	2337	778	135469676	135545788	-1	None	FLJ13633, FLJ23349, FLJ14578, PPP1R25
9	DDX31	ENSG00000125485	ENST00000438527	protein_coding	KNOWN	None	16715	2169	722	135470147	135538887	-1	None	FLJ13633, FLJ23349, FLJ14578, PPP1R25
9	DDX31	ENSG00000125485	ENST00000544003	protein_coding	KNOWN	None	16715	483	160	135535723	135545403	-1	None	FLJ13633, FLJ23349, FLJ14578, PPP1R25
11	TMEM135	ENSG00000166575	ENST00000340353	protein_coding	KNOWN	CCDS53692	26167	1311	436	86748886	87034800	1	None	FLJ22104
11	TMEM135	ENSG00000166575	ENST00000529023	retained_intron	KNOWN	None	26167	None	None	86748934	86868927	1	None	FLJ22104
11	TMEM135	ENSG00000166575	ENST00000526733	protein_coding	NOVEL	None	26167	371	122	86748963	86868450	1	None	FLJ22104
11	TMEM135	ENSG00000166575	ENST00000532959	protein_coding	PUTATIVE	None	26167	990	329	86748992	87032401	1	None	FLJ22104
11	TMEM135	ENSG00000166575	ENST00000525018	protein_coding	PUTATIVE	None	26167	692	229	86749027	86988490	1	None	FLJ22104
11	TMEM135	ENSG00000166575	ENST00000305494	protein_coding	KNOWN	CCDS8280	26167	1377	458	86749049	87033392	1	None	FLJ22104
11	TMEM135	ENSG00000166575	ENST00000531800	retained_intron	KNOWN	None	26167	None	None	86782559	86868450	1	None	FLJ22104
11	TMEM135	ENSG00000166575	ENST00000531643	retained_intron	KNOWN	None	26167	None	None	87029177	87033392	1	None	FLJ22104
11	TMEM135	ENSG00000166575	ENST00000528861	retained_intron	KNOWN	None	26167	None	None	87030109	87033077	1	None	FLJ22104
11	TMEM135	ENSG00000166575	ENST00000355734	protein_coding	KNOWN	None	26167	483	160	86749027	86890366	1	None	FLJ22104
11	TMEM135	ENSG00000166575	ENST00000535167	protein_coding	KNOWN	None	26167	960	319	86749082	87032528	1	None	FLJ22104
6	ARHGAP18	ENSG00000146376	ENST00000368149	protein_coding	KNOWN	CCDS34535	21035	1992	663	129897277	130031370	-1	None	MacGAP, bA307O14.2
6	ARHGAP18	ENSG00000146376	ENST00000483367	processed_transcript	KNOWN	None	21035	None	None	129899564	129918020	-1	None	MacGAP, bA307O14.2
6	ARHGAP18	ENSG00000146376	ENST00000463225	processed_transcript	KNOWN	None	21035	None	None	129899564	129920106	-1	None	MacGAP, bA307O14.2
16	C16orf74	ENSG00000154102	ENST00000602758	processed_transcript	KNOWN	None	23362	None	None	85723690	85784616	-1	None	MGC17624
16	C16orf74	ENSG00000154102	ENST00000602719	protein_coding	NOVEL	None	23362	231	76	85723776	85784735	-1	None	MGC17624
16	C16orf74	ENSG00000154102	ENST00000602583	protein_coding	NOVEL	None	23362	195	64	85741123	85744456	-1	None	MGC17624
16	C16orf74	ENSG00000154102	ENST00000602675	protein_coding	NOVEL	None	23362	90	29	85741123	85784557	-1	None	MGC17624
16	C16orf74	ENSG00000154102	ENST00000284245	protein_coding	KNOWN	CCDS45540	23362	231	76	85741123	85784697	-1	None	MGC17624
16	C16orf74	ENSG00000154102	ENST00000602914	protein_coding	NOVEL	None	23362	87	28	85741138	85784711	-1	None	MGC17624
16	C16orf74	ENSG00000154102	ENST00000602766	protein_coding	NOVEL	None	23362	90	29	85741260	85784718	-1	None	MGC17624
8	LONRF1	ENSG00000154359	ENST00000398246	protein_coding	KNOWN	CCDS5987	26302	2322	773	12579403	12612999	-1	None	FLJ23749, RNF191
8	LONRF1	ENSG00000154359	ENST00000526680	nonsense_mediated_decay	KNOWN	None	26302	180	59	12579415	12600752	-1	None	FLJ23749, RNF191
8	LONRF1	ENSG00000154359	ENST00000527055	retained_intron	KNOWN	None	26302	None	None	12580267	12583507	-1	None	FLJ23749, RNF191
8	LONRF1	ENSG00000154359	ENST00000525024	protein_coding	PUTATIVE	None	26302	600	199	12580453	12586896	-1	None	FLJ23749, RNF191
8	LONRF1	ENSG00000154359	ENST00000533751	protein_coding	PUTATIVE	None	26302	1251	416	12580480	12611851	-1	None	FLJ23749, RNF191
8	LONRF1	ENSG00000154359	ENST00000524526	protein_coding	NOVEL	None	26302	1131	376	12580490	12594604	-1	None	FLJ23749, RNF191
8	LONRF1	ENSG00000154359	ENST00000526610	retained_intron	KNOWN	None	26302	None	None	12586683	12593135	-1	None	FLJ23749, RNF191
8	LONRF1	ENSG00000154359	ENST00000534446	nonsense_mediated_decay	KNOWN	None	26302	180	59	12594208	12596275	-1	None	FLJ23749, RNF191
8	LONRF1	ENSG00000154359	ENST00000530693	processed_transcript	KNOWN	None	26302	None	None	12595538	12613582	-1	None	FLJ23749, RNF191
19	RINL	ENSG00000187994	ENST00000598904	protein_coding	KNOWN	CCDS12522	24795	1359	452	39359622	39367421	-1	None	FLJ45909
19	RINL	ENSG00000187994	ENST00000589111	retained_intron	KNOWN	None	24795	None	None	39359622	39368897	-1	None	FLJ45909
19	RINL	ENSG00000187994	ENST00000591812	protein_coding	KNOWN	CCDS59386	24795	1701	566	39359622	39368919	-1	None	FLJ45909
19	RINL	ENSG00000187994	ENST00000593424	protein_coding	PUTATIVE	None	24795	520	172	39359631	39360683	-1	None	FLJ45909
19	RINL	ENSG00000187994	ENST00000596961	retained_intron	KNOWN	None	24795	None	None	39359871	39360565	-1	None	FLJ45909
19	RINL	ENSG00000187994	ENST00000593809	protein_coding	PUTATIVE	None	24795	164	53	39359924	39360561	-1	None	FLJ45909
19	RINL	ENSG00000187994	ENST00000602238	processed_transcript	PUTATIVE	None	24795	None	None	39361210	39361491	-1	None	FLJ45909
19	RINL	ENSG00000187994	ENST00000596919	retained_intron	KNOWN	None	24795	None	None	39362106	39368906	-1	None	FLJ45909
19	RINL	ENSG00000187994	ENST00000599911	retained_intron	KNOWN	None	24795	None	None	39364391	39368904	-1	None	FLJ45909
19	RINL	ENSG00000187994	ENST00000598048	retained_intron	KNOWN	None	24795	None	None	39364526	39368913	-1	None	FLJ45909
19	RINL	ENSG00000187994	ENST00000340740	protein_coding	KNOWN	CCDS12522	24795	1359	452	39358470	39368894	-1	None	FLJ45909
3	DLEC1	ENSG00000008226	ENST00000440294	retained_intron	KNOWN	None	2899	None	None	38080696	38139289	1	None	DLC1
3	DLEC1	ENSG00000008226	ENST00000308059	protein_coding	KNOWN	CCDS2672	2899	5268	1755	38080696	38165040	1	None	DLC1
3	DLEC1	ENSG00000008226	ENST00000447130	nonsense_mediated_decay	KNOWN	None	2899	249	82	38104237	38137432	1	None	DLC1
3	DLEC1	ENSG00000008226	ENST00000469151	processed_transcript	KNOWN	None	2899	None	None	38104269	38127760	1	None	DLC1
3	DLEC1	ENSG00000008226	ENST00000477260	retained_intron	KNOWN	None	2899	None	None	38151301	38153228	1	None	DLC1
3	DLEC1	ENSG00000008226	ENST00000478428	retained_intron	KNOWN	None	2899	None	None	38158534	38165516	1	None	DLC1
3	DLEC1	ENSG00000008226	ENST00000346219	protein_coding	KNOWN	None	2899	5337	1778	38080696	38164229	1	None	DLC1
3	DLEC1	ENSG00000008226	ENST00000452631	protein_coding	KNOWN	None	2899	5277	1758	38080696	38164229	1	None	DLC1
1	THEMIS2	ENSG00000130775	ENST00000373925	protein_coding	KNOWN	CCDS30653	16839	783	260	28199055	28213196	1	C1orf38	ICB-1, Icb-1
1	THEMIS2	ENSG00000130775	ENST00000373927	protein_coding	KNOWN	CCDS30654	16839	372	123	28199060	28213044	1	C1orf38	ICB-1, Icb-1
1	THEMIS2	ENSG00000130775	ENST00000427466	protein_coding	KNOWN	None	16839	399	132	28199067	28206459	1	C1orf38	ICB-1, Icb-1
1	THEMIS2	ENSG00000130775	ENST00000442118	protein_coding	KNOWN	None	16839	740	245	28199069	28208986	1	C1orf38	ICB-1, Icb-1
1	THEMIS2	ENSG00000130775	ENST00000467258	processed_transcript	KNOWN	None	16839	None	None	28199069	28211928	1	C1orf38	ICB-1, Icb-1
1	THEMIS2	ENSG00000130775	ENST00000373921	protein_coding	KNOWN	CCDS41290	16839	1932	643	28199079	28213184	1	C1orf38	ICB-1, Icb-1
1	THEMIS2	ENSG00000130775	ENST00000466068	processed_transcript	KNOWN	None	16839	None	None	28199083	28209115	1	C1orf38	ICB-1, Icb-1
1	THEMIS2	ENSG00000130775	ENST00000482828	processed_transcript	KNOWN	None	16839	None	None	28203195	28209455	1	C1orf38	ICB-1, Icb-1
1	THEMIS2	ENSG00000130775	ENST00000456990	protein_coding	KNOWN	None	16839	1175	390	28206242	28213184	1	C1orf38	ICB-1, Icb-1
1	THEMIS2	ENSG00000130775	ENST00000492877	processed_transcript	KNOWN	None	16839	None	None	28209909	28213184	1	C1orf38	ICB-1, Icb-1
1	THEMIS2	ENSG00000130775	ENST00000328928	protein_coding	KNOWN	None	16839	1545	514	28199055	28213196	1	C1orf38	ICB-1, Icb-1
20	STK35	ENSG00000125834	ENST00000381482	protein_coding	KNOWN	CCDS13024	16254	1605	534	2082257	2129201	1	None	bA550O8.2, CLIK1
20	STK35	ENSG00000125834	ENST00000493263	nonsense_mediated_decay	KNOWN	None	16254	1188	395	2083537	2157684	1	None	bA550O8.2, CLIK1
20	STK35	ENSG00000125834	ENST00000246032	protein_coding	KNOWN	None	16254	1206	401	2082528	2129196	1	None	bA550O8.2, CLIK1
20	STK35	ENSG00000125834	ENST00000400064	protein_coding	KNOWN	None	16254	489	162	2083554	2125168	1	None	bA550O8.2, CLIK1
4	None	ENSG00000246526	ENST00000499502	lincRNA	KNOWN	None	None	None	None	6689175	6692246	-1	None	None
2	LRP1B	ENSG00000168702	ENST00000389484	protein_coding	KNOWN	CCDS2182	6693	13800	4599	140988992	142889270	-1	None	LRP-DIT, LRPDIT
2	LRP1B	ENSG00000168702	ENST00000437977	protein_coding	NOVEL	None	6693	2396	797	140989341	141115637	-1	None	LRP-DIT, LRPDIT
2	LRP1B	ENSG00000168702	ENST00000442974	protein_coding	NOVEL	None	6693	839	278	140995751	141055538	-1	None	LRP-DIT, LRPDIT
2	LRP1B	ENSG00000168702	ENST00000434794	protein_coding	NOVEL	None	6693	2345	780	141607700	142888574	-1	None	LRP-DIT, LRPDIT
2	LRP1B	ENSG00000168702	ENST00000486364	processed_transcript	KNOWN	None	6693	None	None	142562933	142567970	-1	None	LRP-DIT, LRPDIT
4	None	ENSG00000265953	ENST00000580502	miRNA	NOVEL	None	None	None	None	6955016	6955101	1	None	None
21	ZBTB21	ENSG00000173276	ENST00000398505	protein_coding	NOVEL	CCDS42934	13083	2598	865	43406940	43430466	-1	ZNF295	KIAA1227
21	ZBTB21	ENSG00000173276	ENST00000310826	protein_coding	KNOWN	CCDS13678	13083	3201	1066	43406940	43430466	-1	ZNF295	KIAA1227
21	ZBTB21	ENSG00000173276	ENST00000398499	protein_coding	KNOWN	CCDS13678	13083	3201	1066	43408746	43430475	-1	ZNF295	KIAA1227
21	ZBTB21	ENSG00000173276	ENST00000398511	protein_coding	KNOWN	CCDS13678	13083	3201	1066	43408746	43430496	-1	ZNF295	KIAA1227
21	ZBTB21	ENSG00000173276	ENST00000465968	processed_transcript	KNOWN	None	13083	None	None	43411515	43430442	-1	ZNF295	KIAA1227
21	ZBTB21	ENSG00000173276	ENST00000425521	protein_coding	KNOWN	None	13083	356	117	43413849	43428166	-1	ZNF295	KIAA1227
21	ZBTB21	ENSG00000173276	ENST00000449949	protein_coding	KNOWN	None	13083	148	48	43414057	43430466	-1	ZNF295	KIAA1227
21	ZBTB21	ENSG00000173276	ENST00000398497	protein_coding	KNOWN	None	13083	148	48	43414057	43430475	-1	ZNF295	KIAA1227
4	None	ENSG00000187904	ENST00000441093	sense_overlapping	KNOWN	None	None	None	None	6997068	7000685	1	None	None
4	RN7SKP292	ENSG00000202392	ENST00000365522	misc_RNA	KNOWN	None	46016	None	None	6998739	6999055	1	None	None
4	None	ENSG00000265550	ENST00000582243	miRNA	NOVEL	None	None	None	None	6999253	6999353	1	None	None
4	None	ENSG00000245748	ENST00000500031	antisense	KNOWN	None	None	None	None	7032281	7047958	-1	None	None
6	E2F3	ENSG00000112242	ENST00000346618	protein_coding	KNOWN	CCDS4545	3115	1398	465	20402398	20493941	1	None	None
6	E2F3	ENSG00000112242	ENST00000535432	protein_coding	KNOWN	None	3115	1005	334	20404034	20493789	1	None	None
1	EFHD2	ENSG00000142634	ENST00000375980	protein_coding	KNOWN	CCDS155	28670	723	240	15736391	15756839	1	None	MGC4342
1	EFHD2	ENSG00000142634	ENST00000445566	protein_coding	KNOWN	None	28670	538	178	15736761	15755577	1	None	MGC4342
10	RNA5SP302	ENSG00000201766	ENST00000364896	rRNA	KNOWN	None	43202	None	None	14705394	14705493	-1	RN5S302	None
10	None	ENSG00000237032	ENST00000456871	processed_pseudogene	KNOWN	None	None	None	None	14765170	14766054	-1	None	None
HSCHR6_MHC_COX	OR2U2P	ENSG00000226844	ENST00000458491	unprocessed_pseudogene	KNOWN	None	8279	None	None	29232932	29233891	-1	None	hs6M1-23
16	None	ENSG00000261278	ENST00000564443	processed_pseudogene	KNOWN	None	None	None	None	60058482	60059045	-1	None	None
6	None	ENSG00000270800	ENST00000605528	protein_coding	PUTATIVE	None	None	859	285	34256547	34393825	-1	None	None
3	NAA50	ENSG00000121579	ENST00000240922	protein_coding	KNOWN	CCDS2975	29533	510	169	113437841	113465121	-1	MAK3, NAT13	FLJ13194, NAT5, San
3	NAA50	ENSG00000121579	ENST00000477813	protein_coding	NOVEL	None	29533	390	129	113439162	113464906	-1	MAK3, NAT13	FLJ13194, NAT5, San
3	NAA50	ENSG00000121579	ENST00000497525	protein_coding	PUTATIVE	None	29533	288	95	113439777	113464641	-1	MAK3, NAT13	FLJ13194, NAT5, San
3	NAA50	ENSG00000121579	ENST00000497255	protein_coding	PUTATIVE	None	29533	177	58	113440276	113465077	-1	MAK3, NAT13	FLJ13194, NAT5, San
3	NAA50	ENSG00000121579	ENST00000493454	protein_coding	PUTATIVE	None	29533	288	95	113440304	113458434	-1	MAK3, NAT13	FLJ13194, NAT5, San
3	NAA50	ENSG00000121579	ENST00000481432	nonsense_mediated_decay	KNOWN	None	29533	147	48	113440437	113465096	-1	MAK3, NAT13	FLJ13194, NAT5, San
3	NAA50	ENSG00000121579	ENST00000493900	protein_coding	NOVEL	None	29533	507	168	113440503	113465147	-1	MAK3, NAT13	FLJ13194, NAT5, San
3	NAA50	ENSG00000121579	ENST00000478020	protein_coding	NOVEL	None	29533	173	56	113442334	113465096	-1	MAK3, NAT13	FLJ13194, NAT5, San
3	NAA50	ENSG00000121579	ENST00000467022	processed_transcript	PUTATIVE	None	29533	None	None	113442366	113465096	-1	MAK3, NAT13	FLJ13194, NAT5, San
10	MIR1287	ENSG00000221419	ENST00000408492	miRNA	KNOWN	None	35280	None	None	100154975	100155064	-1	MIRN1287	hsa-mir-1287
5	MCC	ENSG00000171444	ENST00000302475	protein_coding	KNOWN	CCDS4111	6935	2490	829	112357796	112630646	-1	None	None
5	MCC	ENSG00000171444	ENST00000514701	processed_transcript	KNOWN	None	6935	None	None	112357798	112630635	-1	None	None
5	MCC	ENSG00000171444	ENST00000515367	protein_coding	PUTATIVE	None	6935	2301	766	112361829	112570374	-1	None	None
5	MCC	ENSG00000171444	ENST00000408903	protein_coding	PUTATIVE	CCDS43351	6935	3060	1019	112362999	112824527	-1	None	None
5	MCC	ENSG00000171444	ENST00000502648	retained_intron	KNOWN	None	6935	None	None	112437197	112458527	-1	None	None
5	MCC	ENSG00000171444	ENST00000505604	retained_intron	KNOWN	None	6935	None	None	112437240	112440322	-1	None	None
5	MCC	ENSG00000171444	ENST00000506605	processed_transcript	KNOWN	None	6935	None	None	112437431	112539014	-1	None	None
5	MCC	ENSG00000171444	ENST00000511847	processed_transcript	KNOWN	None	6935	None	None	112437431	112540273	-1	None	None
5	MCC	ENSG00000171444	ENST00000511242	processed_transcript	PUTATIVE	None	6935	None	None	112783820	112824520	-1	None	None
10	MIR4685	ENSG00000264610	ENST00000578185	miRNA	KNOWN	None	41802	None	None	100191049	100191117	-1	None	hsa-mir-4685
19	SIGLEC6	ENSG00000105492	ENST00000346477	protein_coding	KNOWN	CCDS12835	10875	1314	437	52022779	52034971	-1	CD33L, CD33L1	OB-BP1, SIGLEC-6, CD327
19	SIGLEC6	ENSG00000105492	ENST00000359982	protein_coding	NOVEL	CCDS54308	10875	1170	389	52022984	52035048	-1	CD33L, CD33L1	OB-BP1, SIGLEC-6, CD327
19	SIGLEC6	ENSG00000105492	ENST00000436458	protein_coding	NOVEL	CCDS54307	10875	1206	401	52022984	52035057	-1	CD33L, CD33L1	OB-BP1, SIGLEC-6, CD327
19	SIGLEC6	ENSG00000105492	ENST00000343300	protein_coding	KNOWN	CCDS12836	10875	1062	353	52022984	52035110	-1	CD33L, CD33L1	OB-BP1, SIGLEC-6, CD327
19	SIGLEC6	ENSG00000105492	ENST00000425629	protein_coding	KNOWN	CCDS12834	10875	1362	453	52023001	52035057	-1	CD33L, CD33L1	OB-BP1, SIGLEC-6, CD327
19	SIGLEC6	ENSG00000105492	ENST00000474054	processed_transcript	KNOWN	None	10875	None	None	52023220	52031701	-1	CD33L, CD33L1	OB-BP1, SIGLEC-6, CD327
19	SIGLEC6	ENSG00000105492	ENST00000391797	protein_coding	KNOWN	CCDS59417	10875	1029	342	52023253	52035057	-1	CD33L, CD33L1	OB-BP1, SIGLEC-6, CD327
19	SIGLEC6	ENSG00000105492	ENST00000496422	retained_intron	KNOWN	None	10875	None	None	52032644	52035057	-1	CD33L, CD33L1	OB-BP1, SIGLEC-6, CD327
19	SIGLEC6	ENSG00000105492	ENST00000489837	retained_intron	KNOWN	None	10875	None	None	52032773	52035057	-1	CD33L, CD33L1	OB-BP1, SIGLEC-6, CD327
5	PCDHGB1	ENSG00000254221	ENST00000523390	protein_coding	KNOWN	CCDS54923	8708	2784	927	140729828	140892546	1	None	PCDH-GAMMA-B1
16	TPPP3	ENSG00000159713	ENST00000393957	protein_coding	KNOWN	CCDS10835	24162	531	176	67423712	67427438	-1	None	CGI-38, p25gamma, p20
16	TPPP3	ENSG00000159713	ENST00000564104	protein_coding	KNOWN	CCDS10835	24162	531	176	67423714	67425856	-1	None	CGI-38, p25gamma, p20
16	TPPP3	ENSG00000159713	ENST00000290942	protein_coding	KNOWN	CCDS10835	24162	531	176	67423728	67427421	-1	None	CGI-38, p25gamma, p20
16	TPPP3	ENSG00000159713	ENST00000562206	protein_coding	KNOWN	CCDS10835	24162	531	176	67423749	67427394	-1	None	CGI-38, p25gamma, p20
16	TPPP3	ENSG00000159713	ENST00000561537	retained_intron	KNOWN	None	24162	None	None	67424382	67427384	-1	None	CGI-38, p25gamma, p20
5	LOX	ENSG00000113083	ENST00000231004	protein_coding	KNOWN	CCDS4129	6664	1254	417	121398890	121413980	-1	None	None
5	LOX	ENSG00000113083	ENST00000513319	processed_transcript	KNOWN	None	6664	None	None	121401492	121412869	-1	None	None
5	LOX	ENSG00000113083	ENST00000505593	processed_transcript	KNOWN	None	6664	None	None	121401639	121411778	-1	None	None
5	LOX	ENSG00000113083	ENST00000503759	retained_intron	KNOWN	None	6664	None	None	121401640	121412918	-1	None	None
5	LOX	ENSG00000113083	ENST00000508067	nonsense_mediated_decay	KNOWN	None	6664	186	61	121406215	121413167	-1	None	None
22	MAPK1	ENSG00000100030	ENST00000215832	protein_coding	KNOWN	CCDS13795	6871	1083	360	22108789	22221919	-1	PRKM2, PRKM1	ERK, ERK2, p41mapk, MAPK2
22	MAPK1	ENSG00000100030	ENST00000491588	processed_transcript	PUTATIVE	None	6871	None	None	22118273	22123717	-1	PRKM2, PRKM1	ERK, ERK2, p41mapk, MAPK2
22	MAPK1	ENSG00000100030	ENST00000398822	protein_coding	KNOWN	CCDS13795	6871	1083	360	22123329	22221970	-1	PRKM2, PRKM1	ERK, ERK2, p41mapk, MAPK2
22	MAPK1	ENSG00000100030	ENST00000544786	protein_coding	KNOWN	None	6871	951	316	22123493	22221730	-1	PRKM2, PRKM1	ERK, ERK2, p41mapk, MAPK2
1	CTRC	ENSG00000162438	ENST00000375949	protein_coding	KNOWN	CCDS156	2523	807	268	15764935	15773149	1	None	CLCR, ELA4
1	CTRC	ENSG00000162438	ENST00000476813	processed_transcript	KNOWN	None	2523	None	None	15764949	15770035	1	None	CLCR, ELA4
1	CTRC	ENSG00000162438	ENST00000483406	processed_transcript	KNOWN	None	2523	None	None	15766846	15773149	1	None	CLCR, ELA4
1	CTRC	ENSG00000162438	ENST00000375943	protein_coding	KNOWN	None	2523	210	69	15764938	15775737	1	None	CLCR, ELA4
6	FAM8A1	ENSG00000137414	ENST00000259963	protein_coding	KNOWN	CCDS4540	16372	1242	413	17600586	17611950	1	None	AHCP
3	PVRL3	ENSG00000177707	ENST00000491525	protein_coding	PUTATIVE	None	17664	52	16	110788918	110837688	1	None	nectin-3, PPR3, PVRR3, DKFZP566B0846, CDw113, CD113
3	PVRL3	ENSG00000177707	ENST00000461477	protein_coding	PUTATIVE	None	17664	390	129	110788962	110837531	1	None	nectin-3, PPR3, PVRR3, DKFZP566B0846, CDw113, CD113
3	PVRL3	ENSG00000177707	ENST00000485303	protein_coding	KNOWN	CCDS2957	17664	1650	549	110790590	110854801	1	None	nectin-3, PPR3, PVRR3, DKFZP566B0846, CDw113, CD113
3	PVRL3	ENSG00000177707	ENST00000319792	protein_coding	KNOWN	CCDS58842	17664	1101	366	110790715	110852837	1	None	nectin-3, PPR3, PVRR3, DKFZP566B0846, CDw113, CD113
3	PVRL3	ENSG00000177707	ENST00000486596	protein_coding	NOVEL	None	17664	732	243	110790867	110845144	1	None	nectin-3, PPR3, PVRR3, DKFZP566B0846, CDw113, CD113
3	PVRL3	ENSG00000177707	ENST00000493615	protein_coding	PUTATIVE	CCDS58843	17664	1464	487	110791015	110912386	1	None	nectin-3, PPR3, PVRR3, DKFZP566B0846, CDw113, CD113
3	PVRL3	ENSG00000177707	ENST00000488016	processed_transcript	KNOWN	None	17664	None	None	110791341	110831211	1	None	nectin-3, PPR3, PVRR3, DKFZP566B0846, CDw113, CD113
3	PVRL3	ENSG00000177707	ENST00000470618	processed_transcript	PUTATIVE	None	17664	None	None	110792263	110837638	1	None	nectin-3, PPR3, PVRR3, DKFZP566B0846, CDw113, CD113
3	PVRL3	ENSG00000177707	ENST00000481766	protein_coding	PUTATIVE	None	17664	505	167	110793051	110837550	1	None	nectin-3, PPR3, PVRR3, DKFZP566B0846, CDw113, CD113
3	PVRL3	ENSG00000177707	ENST00000478327	processed_transcript	PUTATIVE	None	17664	None	None	110793742	110830964	1	None	nectin-3, PPR3, PVRR3, DKFZP566B0846, CDw113, CD113
3	PVRL3	ENSG00000177707	ENST00000485506	protein_coding	PUTATIVE	None	17664	96	31	110911198	110994410	1	None	nectin-3, PPR3, PVRR3, DKFZP566B0846, CDw113, CD113
19	ZNF606	ENSG00000166704	ENST00000341164	protein_coding	KNOWN	CCDS12968	25879	2379	792	58488421	58514717	-1	ZNF328	FLJ14260, KIAA1852
19	ZNF606	ENSG00000166704	ENST00000550599	nonsense_mediated_decay	KNOWN	None	25879	177	58	58489633	58514187	-1	ZNF328	FLJ14260, KIAA1852
19	ZNF606	ENSG00000166704	ENST00000551380	protein_coding	KNOWN	None	25879	1526	507	58490522	58514195	-1	ZNF328	FLJ14260, KIAA1852
19	ZNF606	ENSG00000166704	ENST00000552579	processed_transcript	KNOWN	None	25879	None	None	58500044	58514150	-1	ZNF328	FLJ14260, KIAA1852
19	ZNF606	ENSG00000166704	ENST00000547828	protein_coding	PUTATIVE	None	25879	210	69	58508764	58514187	-1	ZNF328	FLJ14260, KIAA1852
19	ZNF606	ENSG00000166704	ENST00000547121	protein_coding	PUTATIVE	None	25879	210	69	58510632	58514187	-1	ZNF328	FLJ14260, KIAA1852
19	ZNF606	ENSG00000166704	ENST00000546715	protein_coding	PUTATIVE	None	25879	267	88	58511592	58514185	-1	ZNF328	FLJ14260, KIAA1852
19	ZNF606	ENSG00000166704	ENST00000552184	protein_coding	PUTATIVE	None	25879	200	65	58511939	58514163	-1	ZNF328	FLJ14260, KIAA1852
19	ZNF606	ENSG00000166704	ENST00000550560	retained_intron	KNOWN	None	25879	None	None	58512525	58514114	-1	ZNF328	FLJ14260, KIAA1852
19	ZNF606	ENSG00000166704	ENST00000536132	protein_coding	KNOWN	None	25879	2109	702	58489633	58514187	-1	ZNF328	FLJ14260, KIAA1852
HSCHR6_MHC_DBB	PFDN6	ENSG00000224782	ENST00000412289	protein_coding	KNOWN	None	4926	390	129	33235008	33236639	1	HKE2	KE-2, H2-KE2, PFD6
HSCHR6_MHC_DBB	PFDN6	ENSG00000224782	ENST00000425878	protein_coding	KNOWN	None	4926	390	129	33235301	33236639	1	HKE2	KE-2, H2-KE2, PFD6
HSCHR6_MHC_DBB	PFDN6	ENSG00000224782	ENST00000432463	retained_intron	KNOWN	None	4926	None	None	33235302	33236581	1	HKE2	KE-2, H2-KE2, PFD6
HSCHR6_MHC_DBB	PFDN6	ENSG00000224782	ENST00000442285	protein_coding	KNOWN	None	4926	390	129	33235303	33236568	1	HKE2	KE-2, H2-KE2, PFD6
HSCHR6_MHC_DBB	PFDN6	ENSG00000224782	ENST00000476814	retained_intron	KNOWN	None	4926	None	None	33235333	33236574	1	HKE2	KE-2, H2-KE2, PFD6
HSCHR6_MHC_DBB	PFDN6	ENSG00000224782	ENST00000474406	protein_coding	KNOWN	None	4926	312	103	33235481	33244107	1	HKE2	KE-2, H2-KE2, PFD6
HSCHR6_MHC_DBB	PFDN6	ENSG00000224782	ENST00000552711	protein_coding	KNOWN	None	4926	390	129	33235307	33236627	1	HKE2	KE-2, H2-KE2, PFD6
HSCHR6_MHC_MANN	CCHCR1	ENSG00000223533	ENST00000419592	protein_coding	KNOWN	None	13930	769	255	31155177	31157974	-1	C6orf18	HCR
HSCHR6_MHC_MANN	CCHCR1	ENSG00000223533	ENST00000416392	protein_coding	KNOWN	None	13930	2349	782	31155177	31170971	-1	C6orf18	HCR
HSCHR6_MHC_MANN	CCHCR1	ENSG00000223533	ENST00000447252	protein_coding	KNOWN	None	13930	2349	782	31155177	31170547	-1	C6orf18	HCR
HSCHR6_MHC_MANN	CCHCR1	ENSG00000223533	ENST00000452333	protein_coding	KNOWN	None	13930	2190	729	31155177	31170959	-1	C6orf18	HCR
HSCHR6_MHC_MANN	CCHCR1	ENSG00000223533	ENST00000473836	retained_intron	KNOWN	None	13930	None	None	31155798	31158040	-1	C6orf18	HCR
HSCHR6_MHC_MANN	CCHCR1	ENSG00000223533	ENST00000491355	processed_transcript	KNOWN	None	13930	None	None	31155834	31157853	-1	C6orf18	HCR
HSCHR6_MHC_MANN	CCHCR1	ENSG00000223533	ENST00000493009	processed_transcript	KNOWN	None	13930	None	None	31161890	31170949	-1	C6orf18	HCR
HSCHR6_MHC_MANN	CCHCR1	ENSG00000223533	ENST00000456365	protein_coding	KNOWN	None	13930	948	315	31162835	31169844	-1	C6orf18	HCR
HSCHR6_MHC_MANN	CCHCR1	ENSG00000223533	ENST00000473623	retained_intron	KNOWN	None	13930	None	None	31163597	31167491	-1	C6orf18	HCR
HSCHR6_MHC_MANN	CCHCR1	ENSG00000223533	ENST00000447874	protein_coding	KNOWN	None	13930	565	187	31163822	31170840	-1	C6orf18	HCR
HSCHR6_MHC_MANN	CCHCR1	ENSG00000223533	ENST00000453360	protein_coding	KNOWN	None	13930	458	151	31167312	31170945	-1	C6orf18	HCR
HSCHR6_MHC_MANN	CCHCR1	ENSG00000223533	ENST00000457929	protein_coding	KNOWN	None	13930	514	170	31167334	31170827	-1	C6orf18	HCR
HSCHR6_MHC_MANN	CCHCR1	ENSG00000223533	ENST00000432736	protein_coding	KNOWN	None	13930	356	117	31167414	31170546	-1	C6orf18	HCR
HSCHR6_MHC_MANN	CCHCR1	ENSG00000223533	ENST00000416850	protein_coding	KNOWN	None	13930	380	125	31167468	31170963	-1	C6orf18	HCR
HSCHR6_MHC_MANN	CCHCR1	ENSG00000223533	ENST00000482198	retained_intron	KNOWN	None	13930	None	None	31168986	31169843	-1	C6orf18	HCR
HSCHR6_MHC_MANN	CCHCR1	ENSG00000223533	ENST00000467461	processed_transcript	KNOWN	None	13930	None	None	31169513	31170530	-1	C6orf18	HCR
6	COQ3	ENSG00000132423	ENST00000254759	protein_coding	KNOWN	CCDS5042	18175	1110	369	99817276	99842080	-1	None	bA9819.1
6	COQ3	ENSG00000132423	ENST00000369240	protein_coding	KNOWN	None	18175	426	141	99817280	99825330	-1	None	bA9819.1
6	COQ3	ENSG00000132423	ENST00000479163	processed_transcript	KNOWN	None	18175	None	None	99823994	99842067	-1	None	bA9819.1
6	COQ3	ENSG00000132423	ENST00000369242	protein_coding	KNOWN	None	18175	426	141	99817276	99842080	-1	None	bA9819.1
20	SOX18	ENSG00000203883	ENST00000340356	protein_coding	KNOWN	CCDS13552	11194	1155	384	62679076	62680994	-1	None	None
19	DDX49	ENSG00000105671	ENST00000247003	protein_coding	KNOWN	CCDS12390	18684	1452	483	19030484	19039436	1	None	FLJ10432
19	DDX49	ENSG00000105671	ENST00000599981	retained_intron	KNOWN	None	18684	None	None	19030524	19032788	1	None	FLJ10432
19	DDX49	ENSG00000105671	ENST00000599373	retained_intron	KNOWN	None	18684	None	None	19030524	19032901	1	None	FLJ10432
19	DDX49	ENSG00000105671	ENST00000594021	nonsense_mediated_decay	KNOWN	None	18684	357	118	19030524	19033316	1	None	FLJ10432
19	DDX49	ENSG00000105671	ENST00000595858	nonsense_mediated_decay	KNOWN	None	18684	501	166	19030536	19039435	1	None	FLJ10432
19	DDX49	ENSG00000105671	ENST00000593361	nonsense_mediated_decay	KNOWN	None	18684	126	41	19030537	19033225	1	None	FLJ10432
19	DDX49	ENSG00000105671	ENST00000598972	nonsense_mediated_decay	KNOWN	None	18684	339	112	19030538	19035091	1	None	FLJ10432
19	DDX49	ENSG00000105671	ENST00000602113	nonsense_mediated_decay	KNOWN	None	18684	126	41	19030547	19039431	1	None	FLJ10432
19	DDX49	ENSG00000105671	ENST00000601803	retained_intron	KNOWN	None	18684	None	None	19032556	19035997	1	None	FLJ10432
19	DDX49	ENSG00000105671	ENST00000599156	processed_transcript	KNOWN	None	18684	None	None	19033141	19038652	1	None	FLJ10432
19	DDX49	ENSG00000105671	ENST00000601772	processed_transcript	KNOWN	None	18684	None	None	19033519	19035994	1	None	FLJ10432
19	DDX49	ENSG00000105671	ENST00000598277	retained_intron	KNOWN	None	18684	None	None	19035462	19039144	1	None	FLJ10432
19	DDX49	ENSG00000105671	ENST00000596502	retained_intron	KNOWN	None	18684	None	None	19038553	19039347	1	None	FLJ10432
19	DDX49	ENSG00000105671	ENST00000438170	protein_coding	KNOWN	None	18684	765	254	19030536	19039435	1	None	FLJ10432
18	AFG3L2	ENSG00000141385	ENST00000269143	protein_coding	KNOWN	CCDS11859	315	2394	797	12328943	12377313	-1	SCA28	None
18	AFG3L2	ENSG00000141385	ENST00000588893	retained_intron	KNOWN	None	315	None	None	12340936	12348327	-1	SCA28	None
18	AFG3L2	ENSG00000141385	ENST00000590811	protein_coding	NOVEL	None	315	627	208	12358703	12377001	-1	SCA28	None
18	AFG3L2	ENSG00000141385	ENST00000591848	retained_intron	KNOWN	None	315	None	None	12358804	12360232	-1	SCA28	None
10	ARL5AP2	ENSG00000236818	ENST00000444698	processed_pseudogene	KNOWN	None	43937	None	None	100772860	100773709	-1	None	None
12	LRMP	ENSG00000118308	ENST00000557270	processed_transcript	KNOWN	None	6690	None	None	25173936	25189620	1	None	JAW1
12	LRMP	ENSG00000118308	ENST00000556485	processed_transcript	KNOWN	None	6690	None	None	25186693	25219437	1	None	JAW1
12	LRMP	ENSG00000118308	ENST00000555165	processed_transcript	KNOWN	None	6690	None	None	25188414	25190952	1	None	JAW1
12	LRMP	ENSG00000118308	ENST00000555141	processed_transcript	KNOWN	None	6690	None	None	25205189	25219343	1	None	JAW1
12	LRMP	ENSG00000118308	ENST00000550945	protein_coding	PUTATIVE	None	6690	356	117	25205205	25241074	1	None	JAW1
12	LRMP	ENSG00000118308	ENST00000361433	nonsense_mediated_decay	KNOWN	None	6690	1047	348	25205206	25261242	1	None	JAW1
12	LRMP	ENSG00000118308	ENST00000557489	protein_coding	PUTATIVE	None	6690	362	119	25205446	25241080	1	None	JAW1
12	LRMP	ENSG00000118308	ENST00000354454	protein_coding	KNOWN	CCDS8701	6690	1500	499	25205446	25261169	1	None	JAW1
12	LRMP	ENSG00000118308	ENST00000536173	protein_coding	PUTATIVE	None	6690	1341	446	25205521	25261268	1	None	JAW1
12	LRMP	ENSG00000118308	ENST00000548766	protein_coding	KNOWN	CCDS8701	6690	1500	499	25205576	25261139	1	None	JAW1
12	LRMP	ENSG00000118308	ENST00000556887	protein_coding	KNOWN	None	6690	24	7	25205599	25222365	1	None	JAW1
12	LRMP	ENSG00000118308	ENST00000554942	protein_coding	KNOWN	None	6690	230	75	25205634	25232683	1	None	JAW1
12	LRMP	ENSG00000118308	ENST00000549437	retained_intron	KNOWN	None	6690	None	None	25205674	25261182	1	None	JAW1
12	LRMP	ENSG00000118308	ENST00000547044	protein_coding	KNOWN	CCDS8701	6690	1500	499	25205674	25261182	1	None	JAW1
12	LRMP	ENSG00000118308	ENST00000554272	nonsense_mediated_decay	KNOWN	None	6690	189	62	25205879	25242611	1	None	JAW1
12	LRMP	ENSG00000118308	ENST00000557472	processed_transcript	KNOWN	None	6690	None	None	25228674	25243081	1	None	JAW1
12	LRMP	ENSG00000118308	ENST00000555885	protein_coding	PUTATIVE	None	6690	209	68	25242708	25244054	1	None	JAW1
12	LRMP	ENSG00000118308	ENST00000555877	nonsense_mediated_decay	KNOWN	None	6690	292	96	25249867	25260923	1	None	JAW1
12	LRMP	ENSG00000118308	ENST00000553398	retained_intron	KNOWN	None	6690	None	None	25249892	25255712	1	None	JAW1
12	LRMP	ENSG00000118308	ENST00000555194	retained_intron	KNOWN	None	6690	None	None	25257263	25260867	1	None	JAW1
16	FAM157C	ENSG00000260528	ENST00000563357	processed_transcript	KNOWN	None	34081	None	None	90168679	90204401	1	None	None
16	FAM157C	ENSG00000260528	ENST00000568070	processed_transcript	KNOWN	None	34081	None	None	90172869	90244014	1	None	None
16	FAM157C	ENSG00000260528	ENST00000570230	processed_transcript	KNOWN	None	34081	None	None	90224340	90244752	1	None	None
16	FAM157C	ENSG00000260528	ENST00000566898	processed_transcript	KNOWN	None	34081	None	None	90224580	90225984	1	None	None
10	RPL7P36	ENSG00000234109	ENST00000444633	processed_pseudogene	KNOWN	None	37045	None	None	100807396	100808076	1	None	None
11	IRF7	ENSG00000185507	ENST00000525445	protein_coding	PUTATIVE	None	6122	1194	397	612553	615626	-1	None	None
11	IRF7	ENSG00000185507	ENST00000348655	protein_coding	KNOWN	CCDS7704	6122	1425	474	612555	615650	-1	None	None
11	IRF7	ENSG00000185507	ENST00000397574	protein_coding	KNOWN	CCDS7703	6122	1512	503	612559	615999	-1	None	None
11	IRF7	ENSG00000185507	ENST00000533182	nonsense_mediated_decay	KNOWN	None	6122	495	164	612561	615950	-1	None	None
11	IRF7	ENSG00000185507	ENST00000528413	retained_intron	KNOWN	None	6122	None	None	612583	613854	-1	None	None
11	IRF7	ENSG00000185507	ENST00000469048	nonsense_mediated_decay	KNOWN	None	6122	495	164	612583	615650	-1	None	None
11	IRF7	ENSG00000185507	ENST00000531912	retained_intron	KNOWN	None	6122	None	None	612588	613591	-1	None	None
11	IRF7	ENSG00000185507	ENST00000330243	protein_coding	KNOWN	CCDS7705	6122	1551	516	612591	615970	-1	None	None
11	IRF7	ENSG00000185507	ENST00000532326	nonsense_mediated_decay	KNOWN	None	6122	558	185	612591	615983	-1	None	None
11	IRF7	ENSG00000185507	ENST00000525750	retained_intron	KNOWN	None	6122	None	None	613553	614397	-1	None	None
11	IRF7	ENSG00000185507	ENST00000532788	nonsense_mediated_decay	KNOWN	None	6122	534	177	613822	615979	-1	None	None
11	IRF7	ENSG00000185507	ENST00000527160	retained_intron	KNOWN	None	6122	None	None	614009	614887	-1	None	None
11	IRF7	ENSG00000185507	ENST00000532096	retained_intron	KNOWN	None	6122	None	None	614090	615650	-1	None	None
11	IRF7	ENSG00000185507	ENST00000533190	nonsense_mediated_decay	KNOWN	None	6122	408	135	614783	615938	-1	None	None
11	IRF7	ENSG00000185507	ENST00000397570	protein_coding	KNOWN	CCDS7704	6122	1425	474	612555	615999	-1	None	None
11	IRF7	ENSG00000185507	ENST00000397566	protein_coding	KNOWN	CCDS7705	6122	1551	516	612555	615728	-1	None	None
11	IRF7	ENSG00000185507	ENST00000397562	protein_coding	KNOWN	None	6122	633	210	612576	615950	-1	None	None
10	None	ENSG00000224934	ENST00000416191	lincRNA	KNOWN	None	None	None	None	101190948	101195542	1	None	None
8	EBF2	ENSG00000221818	ENST00000520164	protein_coding	KNOWN	CCDS43726	19090	1728	575	25699246	25902913	-1	None	FLJ11500, COE2
8	EBF2	ENSG00000221818	ENST00000408929	protein_coding	PUTATIVE	None	19090	1284	427	25701878	25899004	-1	None	FLJ11500, COE2
8	EBF2	ENSG00000221818	ENST00000517825	retained_intron	KNOWN	None	19090	None	None	25888966	25902694	-1	None	FLJ11500, COE2
8	EBF2	ENSG00000221818	ENST00000535548	protein_coding	KNOWN	None	19090	795	264	25702125	25745432	-1	None	FLJ11500, COE2
10	None	ENSG00000257582	ENST00000552096	antisense	KNOWN	None	None	None	None	101286107	101287200	-1	None	None
10	None	ENSG00000257582	ENST00000548010	antisense	KNOWN	None	None	None	None	101286107	101290934	-1	None	None
19	HRC	ENSG00000130528	ENST00000252825	protein_coding	KNOWN	CCDS12759	5178	2100	699	49654455	49658681	-1	None	MGC133236
19	HRC	ENSG00000130528	ENST00000598858	protein_coding	PUTATIVE	None	5178	289	95	49654456	49656692	-1	None	MGC133236
19	HRC	ENSG00000130528	ENST00000595625	protein_coding	NOVEL	None	5178	2031	676	49654546	49658500	-1	None	MGC133236
19	HRC	ENSG00000130528	ENST00000595167	retained_intron	KNOWN	None	5178	None	None	49655212	49656564	-1	None	MGC133236
17	HIGD1B	ENSG00000131097	ENST00000591513	protein_coding	KNOWN	CCDS11488	24318	300	99	42923721	42927844	1	None	CLST11240, CLST11240-15
17	HIGD1B	ENSG00000131097	ENST00000590423	processed_transcript	KNOWN	None	24318	None	None	42925266	42926581	1	None	CLST11240, CLST11240-15
17	HIGD1B	ENSG00000131097	ENST00000253410	protein_coding	KNOWN	CCDS11488	24318	300	99	42925270	42927848	1	None	CLST11240, CLST11240-15
17	HIGD1B	ENSG00000131097	ENST00000587021	protein_coding	NOVEL	None	24318	165	54	42925309	42927844	1	None	CLST11240, CLST11240-15
17	HIGD1B	ENSG00000131097	ENST00000586911	nonsense_mediated_decay	KNOWN	None	24318	122	39	42925579	42927844	1	None	CLST11240, CLST11240-15
3	DNAH12	ENSG00000174844	ENST00000462199	protein_coding	PUTATIVE	None	2943	2350	782	57327727	57386253	-1	DNHD2, DNAH12L, DNAH7L	DLP12, Dnahc3, HL-19, hdhc3, DHC3, FLJ40427, FLJ44290
3	DNAH12	ENSG00000174844	ENST00000462713	processed_transcript	KNOWN	None	2943	None	None	57327728	57331336	-1	DNHD2, DNAH12L, DNAH7L	DLP12, Dnahc3, HL-19, hdhc3, DHC3, FLJ40427, FLJ44290
3	DNAH12	ENSG00000174844	ENST00000494758	nonsense_mediated_decay	KNOWN	None	2943	165	54	57327728	57343273	-1	DNHD2, DNAH12L, DNAH7L	DLP12, Dnahc3, HL-19, hdhc3, DHC3, FLJ40427, FLJ44290
3	DNAH12	ENSG00000174844	ENST00000479363	retained_intron	KNOWN	None	2943	None	None	57327732	57331179	-1	DNHD2, DNAH12L, DNAH7L	DLP12, Dnahc3, HL-19, hdhc3, DHC3, FLJ40427, FLJ44290
3	DNAH12	ENSG00000174844	ENST00000466540	protein_coding	PUTATIVE	None	2943	2214	737	57327777	57386255	-1	DNHD2, DNAH12L, DNAH7L	DLP12, Dnahc3, HL-19, hdhc3, DHC3, FLJ40427, FLJ44290
3	DNAH12	ENSG00000174844	ENST00000495027	protein_coding	PUTATIVE	None	2943	6948	2315	57389036	57530071	-1	DNHD2, DNAH12L, DNAH7L	DLP12, Dnahc3, HL-19, hdhc3, DHC3, FLJ40427, FLJ44290
3	DNAH12	ENSG00000174844	ENST00000389536	protein_coding	KNOWN	None	2943	2355	784	57454380	57530071	-1	DNHD2, DNAH12L, DNAH7L	DLP12, Dnahc3, HL-19, hdhc3, DHC3, FLJ40427, FLJ44290
3	DNAH12	ENSG00000174844	ENST00000311202	protein_coding	KNOWN	CCDS33771	2943	1374	457	57483731	57530068	-1	DNHD2, DNAH12L, DNAH7L	DLP12, Dnahc3, HL-19, hdhc3, DHC3, FLJ40427, FLJ44290
3	DNAH12	ENSG00000174844	ENST00000351747	protein_coding	KNOWN	None	2943	9279	3092	57327727	57530071	-1	DNHD2, DNAH12L, DNAH7L	DLP12, Dnahc3, HL-19, hdhc3, DHC3, FLJ40427, FLJ44290
3	DNAH12	ENSG00000174844	ENST00000344804	protein_coding	KNOWN	None	2943	2040	679	57327777	57386264	-1	DNHD2, DNAH12L, DNAH7L	DLP12, Dnahc3, HL-19, hdhc3, DHC3, FLJ40427, FLJ44290
HSCHR6_MHC_APD	None	ENSG00000257217	ENST00000548600	protein_coding	NOVEL	None	None	99	32	33028357	33030736	-1	None	None
HSCHR6_MHC_APD	None	ENSG00000272314	ENST00000606651	miRNA	NOVEL	None	None	None	None	28743697	28743804	1	None	None
6	ZC2HC1B	ENSG00000118491	ENST00000416313	protein_coding	KNOWN	None	21174	461	152	144205441	144219828	1	FAM164B, C6orf94	dJ468K18.5
6	ZC2HC1B	ENSG00000118491	ENST00000454207	protein_coding	KNOWN	None	21174	348	115	144207931	144259483	1	FAM164B, C6orf94	dJ468K18.5
6	ZC2HC1B	ENSG00000118491	ENST00000237275	protein_coding	KNOWN	CCDS47495	21174	669	222	144185573	144259483	1	FAM164B, C6orf94	dJ468K18.5
6	ZC2HC1B	ENSG00000118491	ENST00000539295	protein_coding	KNOWN	None	21174	381	126	144185573	144259338	1	FAM164B, C6orf94	dJ468K18.5
19	LRP3	ENSG00000130881	ENST00000592484	processed_transcript	KNOWN	None	6695	None	None	33668509	33696197	1	None	LRP-3, hLRp105
19	LRP3	ENSG00000130881	ENST00000253193	protein_coding	KNOWN	CCDS12430	6695	2313	770	33685490	33698694	1	None	LRP-3, hLRp105
19	LRP3	ENSG00000130881	ENST00000590275	retained_intron	KNOWN	None	6695	None	None	33687642	33696440	1	None	LRP-3, hLRp105
19	LRP3	ENSG00000130881	ENST00000590278	retained_intron	KNOWN	None	6695	None	None	33694776	33698545	1	None	LRP-3, hLRp105
5	None	ENSG00000251314	ENST00000502645	antisense	KNOWN	None	None	None	None	95297705	95966789	1	None	None
5	None	ENSG00000251314	ENST00000511775	antisense	KNOWN	None	None	None	None	95297706	95654722	1	None	None
5	None	ENSG00000251314	ENST00000513158	antisense	KNOWN	None	None	None	None	95920197	95966704	1	None	None
HSCHR6_MHC_APD	None	ENSG00000272504	ENST00000607011	processed_pseudogene	NOVEL	None	None	None	None	28751414	28751785	-1	None	None
HSCHR6_MHC_APD	None	ENSG00000272364	ENST00000607534	miRNA	NOVEL	None	None	None	None	28763753	28763816	-1	None	None
HSCHR6_MHC_APD	None	ENSG00000271883	ENST00000605983	processed_transcript	PUTATIVE	None	None	None	None	28805650	28806787	-1	None	None
6	NUP153	ENSG00000124789	ENST00000262077	protein_coding	KNOWN	CCDS4541	8062	4428	1475	17615269	17706618	-1	None	HNUP153
6	NUP153	ENSG00000124789	ENST00000537253	protein_coding	KNOWN	None	8062	4521	1506	17616274	17706656	-1	None	HNUP153
1	CELA2A	ENSG00000142615	ENST00000459653	processed_transcript	KNOWN	None	24609	None	None	15783223	15789506	1	None	ELA2A
1	CELA2A	ENSG00000142615	ENST00000359621	protein_coding	KNOWN	CCDS157	24609	810	269	15783224	15798586	1	None	ELA2A
1	CELA2A	ENSG00000142615	ENST00000497590	processed_transcript	KNOWN	None	24609	None	None	15783242	15784118	1	None	ELA2A
14	GSC	ENSG00000133937	ENST00000238558	protein_coding	KNOWN	CCDS9930	4612	774	257	95234553	95236562	-1	None	None
1	RPA2	ENSG00000117748	ENST00000373912	protein_coding	KNOWN	CCDS314	10290	813	270	28218035	28241254	-1	None	None
1	RPA2	ENSG00000117748	ENST00000419958	protein_coding	KNOWN	None	10290	369	122	28218049	28223596	-1	None	None
1	RPA2	ENSG00000117748	ENST00000373909	protein_coding	KNOWN	None	10290	837	278	28218435	28241257	-1	None	None
1	RPA2	ENSG00000117748	ENST00000313433	protein_coding	KNOWN	None	10290	1077	358	28218584	28241024	-1	None	None
1	RPA2	ENSG00000117748	ENST00000444045	protein_coding	KNOWN	None	10290	537	178	28223516	28241099	-1	None	None
16	None	ENSG00000261590	ENST00000563482	processed_pseudogene	KNOWN	None	None	None	None	60391118	60391378	1	None	None
19	PPIAP20	ENSG00000235686	ENST00000449839	processed_pseudogene	KNOWN	None	38037	None	None	12618943	12619077	1	None	None
2	LHCGR	ENSG00000138039	ENST00000420913	processed_transcript	KNOWN	None	6585	None	None	48859428	48895804	-1	HHG	LHR, LCGR, LGR2, ULG5
2	LHCGR	ENSG00000138039	ENST00000294954	protein_coding	KNOWN	CCDS1842	6585	2100	699	48913914	48982832	-1	HHG	LHR, LCGR, LGR2, ULG5
2	LHCGR	ENSG00000138039	ENST00000405626	protein_coding	KNOWN	None	6585	2019	672	48914782	48982810	-1	HHG	LHR, LCGR, LGR2, ULG5
2	LHCGR	ENSG00000138039	ENST00000403273	protein_coding	NOVEL	None	6585	990	329	48914808	48982869	-1	HHG	LHR, LCGR, LGR2, ULG5
2	LHCGR	ENSG00000138039	ENST00000401907	protein_coding	KNOWN	None	6585	978	325	48914808	48982869	-1	HHG	LHR, LCGR, LGR2, ULG5
2	LHCGR	ENSG00000138039	ENST00000602369	nonsense_mediated_decay	KNOWN	None	6585	627	208	48921363	48982810	-1	HHG	LHR, LCGR, LGR2, ULG5
2	LHCGR	ENSG00000138039	ENST00000477576	processed_transcript	KNOWN	None	6585	None	None	48935909	48950653	-1	HHG	LHR, LCGR, LGR2, ULG5
2	LHCGR	ENSG00000138039	ENST00000428232	protein_coding	NOVEL	None	6585	528	175	48947179	48982708	-1	HHG	LHR, LCGR, LGR2, ULG5
2	LHCGR	ENSG00000138039	ENST00000344775	protein_coding	KNOWN	None	6585	1914	637	48913921	48982880	-1	HHG	LHR, LCGR, LGR2, ULG5
19	None	ENSG00000269560	ENST00000601420	sense_intronic	KNOWN	None	None	None	None	12640582	12643787	-1	None	None
19	None	ENSG00000230310	ENST00000414548	lincRNA	KNOWN	None	None	None	None	12663411	12664458	1	None	None
1	QSOX1	ENSG00000116260	ENST00000367602	protein_coding	KNOWN	CCDS1337	9756	2244	747	180123969	180173165	1	QSCN6	None
1	QSOX1	ENSG00000116260	ENST00000392029	nonsense_mediated_decay	KNOWN	None	9756	468	155	180124005	180158809	1	QSCN6	None
1	QSOX1	ENSG00000116260	ENST00000367600	protein_coding	PUTATIVE	CCDS30950	9756	1815	604	180124032	180167169	1	QSCN6	None
1	QSOX1	ENSG00000116260	ENST00000443059	protein_coding	PUTATIVE	None	9756	218	71	180165817	180167151	1	QSCN6	None
20	SNAP25	ENSG00000132639	ENST00000254976	protein_coding	KNOWN	CCDS13110	11132	621	206	10199478	10288066	1	SNAP	SNAP-25, RIC-4, RIC4, SEC9, bA416N4.2, dJ1068F16.2
20	SNAP25	ENSG00000132639	ENST00000304886	protein_coding	KNOWN	CCDS13109	11132	621	206	10199481	10288066	1	SNAP	SNAP-25, RIC-4, RIC4, SEC9, bA416N4.2, dJ1068F16.2
20	SNAP25	ENSG00000132639	ENST00000430336	protein_coding	KNOWN	None	11132	281	92	10199714	10273926	1	SNAP	SNAP-25, RIC-4, RIC4, SEC9, bA416N4.2, dJ1068F16.2
20	SNAP25	ENSG00000132639	ENST00000492814	processed_transcript	KNOWN	None	11132	None	None	10256167	10258717	1	SNAP	SNAP-25, RIC-4, RIC4, SEC9, bA416N4.2, dJ1068F16.2
20	SNAP25	ENSG00000132639	ENST00000495883	processed_transcript	KNOWN	None	11132	None	None	10276878	10288066	1	SNAP	SNAP-25, RIC-4, RIC4, SEC9, bA416N4.2, dJ1068F16.2
19	ZNF235	ENSG00000159917	ENST00000592844	nonsense_mediated_decay	KNOWN	None	12866	246	81	44732882	44807585	-1	ZNF270, ZFP93	HZF6, ANF270
19	ZNF235	ENSG00000159917	ENST00000589799	protein_coding	PUTATIVE	None	12866	252	83	44740263	44809172	-1	ZNF270, ZFP93	HZF6, ANF270
19	ZNF235	ENSG00000159917	ENST00000589248	protein_coding	PUTATIVE	None	12866	264	87	44778905	44809199	-1	ZNF270, ZFP93	HZF6, ANF270
19	ZNF235	ENSG00000159917	ENST00000587921	retained_intron	KNOWN	None	12866	None	None	44790501	44794719	-1	ZNF270, ZFP93	HZF6, ANF270
19	ZNF235	ENSG00000159917	ENST00000291182	protein_coding	KNOWN	CCDS33048	12866	2217	738	44790503	44809178	-1	ZNF270, ZFP93	HZF6, ANF270
19	ZNF235	ENSG00000159917	ENST00000591609	protein_coding	PUTATIVE	None	12866	885	294	44792958	44809121	-1	ZNF270, ZFP93	HZF6, ANF270
HSCHR6_MHC_MANN	RNF39	ENSG00000237733	ENST00000417541	protein_coding	KNOWN	None	18064	1065	354	30033239	30038822	-1	None	HZFw1, LIRF
HSCHR6_MHC_MANN	RNF39	ENSG00000237733	ENST00000449145	protein_coding	KNOWN	None	18064	1263	420	30033239	30038860	-1	None	HZFw1, LIRF
HSCHR6_MHC_MANN	RNF39	ENSG00000237733	ENST00000546586	protein_coding	KNOWN	None	18064	756	251	30033757	30038762	-1	None	HZFw1, LIRF
19	PGK1P2	ENSG00000213290	ENST00000431702	processed_pseudogene	KNOWN	None	8899	None	None	12670385	12671919	1	None	None
6	None	ENSG00000230852	ENST00000444796	lincRNA	KNOWN	None	None	None	None	84732774	84734272	1	None	None
19	None	ENSG00000221343	ENST00000408416	miRNA	NOVEL	None	None	None	None	12740548	12740599	1	None	None
20	TGM3	ENSG00000125780	ENST00000381458	protein_coding	KNOWN	CCDS33435	11779	2082	693	2276647	2321724	1	None	TGE
20	TGM3	ENSG00000125780	ENST00000463090	processed_transcript	KNOWN	None	11779	None	None	2293624	2306649	1	None	TGE
19	None	ENSG00000178464	ENST00000325000	processed_pseudogene	KNOWN	None	None	None	None	12754089	12754733	-1	None	None
6	None	ENSG00000231776	ENST00000454981	lincRNA	KNOWN	None	None	None	None	85130746	85180622	-1	None	None
6	None	ENSG00000231776	ENST00000454172	lincRNA	KNOWN	None	None	None	None	85130749	85265870	-1	None	None
6	None	ENSG00000231776	ENST00000428896	lincRNA	KNOWN	None	None	None	None	85130766	85184647	-1	None	None
10	None	ENSG00000228778	ENST00000452494	lincRNA	KNOWN	None	None	None	None	101286838	101288018	1	None	None
17	SPACA3	ENSG00000141316	ENST00000580599	protein_coding	PUTATIVE	None	16260	441	146	31297394	31324895	1	None	ALLP17, SLLP1, LYC3, LYZL3, CT54
17	SPACA3	ENSG00000141316	ENST00000269053	protein_coding	KNOWN	CCDS11275	16260	648	215	31318887	31324895	1	None	ALLP17, SLLP1, LYC3, LYZL3, CT54
17	SPACA3	ENSG00000141316	ENST00000394638	protein_coding	NOVEL	None	16260	339	112	31318887	31324895	1	None	ALLP17, SLLP1, LYC3, LYZL3, CT54
17	SPACA3	ENSG00000141316	ENST00000485015	processed_transcript	PUTATIVE	None	16260	None	None	31318907	31322735	1	None	ALLP17, SLLP1, LYC3, LYZL3, CT54
17	SPACA3	ENSG00000141316	ENST00000394637	processed_transcript	KNOWN	None	16260	None	None	31319869	31324895	1	None	ALLP17, SLLP1, LYC3, LYZL3, CT54
6	CYCSP55	ENSG00000214810	ENST00000399027	processed_pseudogene	KNOWN	None	21252	None	None	34187216	34187843	1	CYCSL1	bA513I15.3, HCP15
10	None	ENSG00000238588	ENST00000458776	snoRNA	NOVEL	None	None	None	None	101361537	101361637	1	None	None
10	None	ENSG00000260475	ENST00000566847	antisense	KNOWN	None	None	None	None	101380812	101381675	1	None	None
10	None	ENSG00000229278	ENST00000452391	antisense	KNOWN	None	None	None	None	101411746	101413662	-1	None	None
11	TBC1D10C	ENSG00000175463	ENST00000526387	protein_coding	NOVEL	CCDS58150	24702	933	310	67171386	67177560	1	None	FLJ00332, Carabin, EPI64C
11	TBC1D10C	ENSG00000175463	ENST00000530967	retained_intron	KNOWN	None	24702	None	None	67171594	67174403	1	None	FLJ00332, Carabin, EPI64C
11	TBC1D10C	ENSG00000175463	ENST00000529635	nonsense_mediated_decay	KNOWN	None	24702	660	219	67171600	67177560	1	None	FLJ00332, Carabin, EPI64C
11	TBC1D10C	ENSG00000175463	ENST00000542590	protein_coding	KNOWN	CCDS8162	24702	1341	446	67171660	67177529	1	None	FLJ00332, Carabin, EPI64C
11	TBC1D10C	ENSG00000175463	ENST00000533745	retained_intron	KNOWN	None	24702	None	None	67172402	67174132	1	None	FLJ00332, Carabin, EPI64C
11	TBC1D10C	ENSG00000175463	ENST00000529132	retained_intron	KNOWN	None	24702	None	None	67172517	67173559	1	None	FLJ00332, Carabin, EPI64C
11	TBC1D10C	ENSG00000175463	ENST00000526474	retained_intron	KNOWN	None	24702	None	None	67172719	67177559	1	None	FLJ00332, Carabin, EPI64C
11	TBC1D10C	ENSG00000175463	ENST00000524662	retained_intron	KNOWN	None	24702	None	None	67176338	67177560	1	None	FLJ00332, Carabin, EPI64C
11	TBC1D10C	ENSG00000175463	ENST00000312390	protein_coding	KNOWN	CCDS8162	24702	1341	446	67171412	67177557	1	None	FLJ00332, Carabin, EPI64C
3	LEKR1	ENSG00000197980	ENST00000465728	processed_transcript	PUTATIVE	None	33765	None	None	156543270	156570629	1	None	FLJ16641
3	LEKR1	ENSG00000197980	ENST00000498839	protein_coding	PUTATIVE	None	33765	333	110	156544089	156571003	1	None	FLJ16641
3	LEKR1	ENSG00000197980	ENST00000470811	protein_coding	KNOWN	None	33765	1167	388	156544096	156763918	1	None	FLJ16641
3	LEKR1	ENSG00000197980	ENST00000483177	protein_coding	PUTATIVE	None	33765	372	123	156544100	156606258	1	None	FLJ16641
3	LEKR1	ENSG00000197980	ENST00000477399	protein_coding	KNOWN	CCDS54660	33765	399	132	156544103	156642414	1	None	FLJ16641
3	LEKR1	ENSG00000197980	ENST00000489350	processed_transcript	KNOWN	None	33765	None	None	156544118	156697347	1	None	FLJ16641
3	LEKR1	ENSG00000197980	ENST00000467376	retained_intron	KNOWN	None	33765	None	None	156544123	156638828	1	None	FLJ16641
3	LEKR1	ENSG00000197980	ENST00000491763	protein_coding	KNOWN	CCDS54660	33765	399	132	156544148	156643045	1	None	FLJ16641
3	LEKR1	ENSG00000197980	ENST00000485017	processed_transcript	PUTATIVE	None	33765	None	None	156544471	156570762	1	None	FLJ16641
3	LEKR1	ENSG00000197980	ENST00000495252	retained_intron	KNOWN	None	33765	None	None	156638456	156660586	1	None	FLJ16641
3	LEKR1	ENSG00000197980	ENST00000356539	protein_coding	KNOWN	None	33765	2079	692	156544096	156763918	1	None	FLJ16641
10	EBAG9P1	ENSG00000233690	ENST00000418955	processed_pseudogene	KNOWN	None	45233	None	None	101457164	101457706	-1	None	None
17	KRT32	ENSG00000108759	ENST00000225899	protein_coding	KNOWN	CCDS11393	6449	1347	448	39616063	39623681	-1	KRTHA2	Ha-2
6	RPS10	ENSG00000124614	ENST00000344700	protein_coding	NOVEL	None	10383	519	172	34385231	34392998	-1	None	MGC88819, S10
6	RPS10	ENSG00000124614	ENST00000464218	processed_transcript	KNOWN	None	10383	None	None	34385231	34393357	-1	None	MGC88819, S10
6	RPS10	ENSG00000124614	ENST00000467531	processed_transcript	KNOWN	None	10383	None	None	34385231	34393561	-1	None	MGC88819, S10
6	RPS10	ENSG00000124614	ENST00000494077	processed_transcript	KNOWN	None	10383	None	None	34385231	34393803	-1	None	MGC88819, S10
6	RPS10	ENSG00000124614	ENST00000326199	protein_coding	KNOWN	CCDS4792	10383	498	165	34385231	34393902	-1	None	MGC88819, S10
6	RPS10	ENSG00000124614	ENST00000480942	processed_transcript	KNOWN	None	10383	None	None	34392053	34393827	-1	None	MGC88819, S10
17	FBXO47	ENSG00000204952	ENST00000378079	protein_coding	KNOWN	CCDS32639	31969	1359	452	37092685	37123655	-1	None	None
10	NANOGP6	ENSG00000227351	ENST00000429190	processed_pseudogene	KNOWN	None	23104	None	None	101548321	101549167	-1	None	None
20	TCEA2	ENSG00000171703	ENST00000475792	processed_transcript	KNOWN	None	11614	None	None	62681189	62694220	1	None	TFIIS
20	TCEA2	ENSG00000171703	ENST00000361317	protein_coding	KNOWN	CCDS13554	11614	819	272	62688646	62703699	1	None	TFIIS
20	TCEA2	ENSG00000171703	ENST00000343484	protein_coding	KNOWN	CCDS13553	11614	900	299	62694497	62703699	1	None	TFIIS
20	TCEA2	ENSG00000171703	ENST00000487164	processed_transcript	KNOWN	None	11614	None	None	62694511	62701562	1	None	TFIIS
20	TCEA2	ENSG00000171703	ENST00000476113	processed_transcript	KNOWN	None	11614	None	None	62694549	62695476	1	None	TFIIS
20	TCEA2	ENSG00000171703	ENST00000339217	protein_coding	KNOWN	None	11614	738	245	62694590	62701988	1	None	TFIIS
20	TCEA2	ENSG00000171703	ENST00000415602	protein_coding	KNOWN	None	11614	248	81	62694834	62699487	1	None	TFIIS
20	TCEA2	ENSG00000171703	ENST00000440819	protein_coding	KNOWN	None	11614	738	245	62695440	62701988	1	None	TFIIS
20	TCEA2	ENSG00000171703	ENST00000470559	processed_transcript	KNOWN	None	11614	None	None	62695679	62700725	1	None	TFIIS
20	TCEA2	ENSG00000171703	ENST00000465111	processed_transcript	KNOWN	None	11614	None	None	62696903	62703698	1	None	TFIIS
20	TCEA2	ENSG00000171703	ENST00000458442	protein_coding	KNOWN	None	11614	810	269	62697564	62703294	1	None	TFIIS
20	TCEA2	ENSG00000171703	ENST00000465433	processed_transcript	KNOWN	None	11614	None	None	62700817	62703700	1	None	TFIIS
20	TCEA2	ENSG00000171703	ENST00000477783	processed_transcript	KNOWN	None	11614	None	None	62701118	62703700	1	None	TFIIS
20	TCEA2	ENSG00000171703	ENST00000495168	processed_transcript	KNOWN	None	11614	None	None	62701567	62703700	1	None	TFIIS
20	TCEA2	ENSG00000171703	ENST00000461072	processed_transcript	KNOWN	None	11614	None	None	62701644	62703699	1	None	TFIIS
20	TCEA2	ENSG00000171703	ENST00000475236	processed_transcript	KNOWN	None	11614	None	None	62701681	62703699	1	None	TFIIS
20	TCEA2	ENSG00000171703	ENST00000395053	protein_coding	KNOWN	None	11614	729	242	62694511	62703699	1	None	TFIIS
17	MYH4	ENSG00000264424	ENST00000255381	protein_coding	KNOWN	CCDS11154	7574	5820	1939	10346607	10372876	-1	None	MYH2B, MyHC-2B, MyHC-IIb
5	None	ENSG00000250955	ENST00000506070	lincRNA	KNOWN	None	None	None	None	95300703	95322015	-1	None	None
11	HEPHL1	ENSG00000181333	ENST00000315765	protein_coding	KNOWN	CCDS44710	30477	3480	1159	93754527	93846917	1	None	DKFZp686F22190
5	FABP5P5	ENSG00000213716	ENST00000515537	processed_pseudogene	KNOWN	None	31068	None	None	95308745	95309150	-1	FABP5L5	None
12	VPS29	ENSG00000111237	ENST00000549578	protein_coding	KNOWN	CCDS41832	14340	549	182	110928902	110939922	-1	None	PEP11, DC7, DC15
12	VPS29	ENSG00000111237	ENST00000360579	protein_coding	NOVEL	CCDS53832	14340	561	186	110929328	110939904	-1	None	PEP11, DC7, DC15
12	VPS29	ENSG00000111237	ENST00000552130	protein_coding	PUTATIVE	None	14340	264	87	110929429	110937351	-1	None	PEP11, DC7, DC15
12	VPS29	ENSG00000111237	ENST00000546588	protein_coding	PUTATIVE	None	14340	645	214	110929496	110939897	-1	None	PEP11, DC7, DC15
12	VPS29	ENSG00000111237	ENST00000548539	retained_intron	KNOWN	None	14340	None	None	110929536	110934022	-1	None	PEP11, DC7, DC15
12	VPS29	ENSG00000111237	ENST00000549970	protein_coding	PUTATIVE	None	14340	264	87	110929691	110939916	-1	None	PEP11, DC7, DC15
12	VPS29	ENSG00000111237	ENST00000548259	processed_transcript	KNOWN	None	14340	None	None	110930726	110939913	-1	None	PEP11, DC7, DC15
12	VPS29	ENSG00000111237	ENST00000553128	processed_transcript	KNOWN	None	14340	None	None	110933851	110939912	-1	None	PEP11, DC7, DC15
12	VPS29	ENSG00000111237	ENST00000551655	processed_transcript	KNOWN	None	14340	None	None	110934103	110939914	-1	None	PEP11, DC7, DC15
12	VPS29	ENSG00000111237	ENST00000550267	retained_intron	KNOWN	None	14340	None	None	110936601	110939912	-1	None	PEP11, DC7, DC15
12	VPS29	ENSG00000111237	ENST00000447578	protein_coding	KNOWN	None	14340	264	87	110929430	110939883	-1	None	PEP11, DC7, DC15
6	RPL35P2	ENSG00000220583	ENST00000402419	processed_pseudogene	KNOWN	None	35789	None	None	34231088	34231450	-1	None	None
HSCHR6_MHC_APD	None	ENSG00000272224	ENST00000606917	processed_transcript	KNOWN	None	None	None	None	28827406	28831131	-1	None	None
16	None	ENSG00000260496	ENST00000565401	lincRNA	KNOWN	None	None	None	None	1046319	1047907	-1	None	None
16	None	ENSG00000260496	ENST00000599946	lincRNA	KNOWN	None	None	None	None	1041148	1050926	-1	None	None
10	PFKP	ENSG00000067057	ENST00000381125	protein_coding	KNOWN	CCDS7059	8878	2355	784	3109712	3178985	1	None	PFK-C, PFKF
10	PFKP	ENSG00000067057	ENST00000495715	processed_transcript	KNOWN	None	8878	None	None	3109864	3111572	1	None	PFK-C, PFKF
10	PFKP	ENSG00000067057	ENST00000381075	protein_coding	KNOWN	CCDS55698	8878	2331	776	3110819	3178985	1	None	PFK-C, PFKF
10	PFKP	ENSG00000067057	ENST00000421751	protein_coding	KNOWN	None	8878	499	165	3111425	3146129	1	None	PFK-C, PFKF
10	PFKP	ENSG00000067057	ENST00000407806	protein_coding	KNOWN	None	8878	632	209	3112437	3147665	1	None	PFK-C, PFKF
10	PFKP	ENSG00000067057	ENST00000415005	protein_coding	KNOWN	None	8878	721	239	3146916	3155708	1	None	PFK-C, PFKF
10	PFKP	ENSG00000067057	ENST00000468050	processed_transcript	KNOWN	None	8878	None	None	3146939	3151586	1	None	PFK-C, PFKF
10	PFKP	ENSG00000067057	ENST00000460445	processed_transcript	KNOWN	None	8878	None	None	3147071	3149425	1	None	PFK-C, PFKF
10	PFKP	ENSG00000067057	ENST00000413079	protein_coding	KNOWN	None	8878	496	164	3155650	3172133	1	None	PFK-C, PFKF
10	PFKP	ENSG00000067057	ENST00000381072	protein_coding	KNOWN	None	8878	609	202	3171199	3178985	1	None	PFK-C, PFKF
10	PFKP	ENSG00000067057	ENST00000433193	protein_coding	KNOWN	None	8878	311	102	3175427	3179904	1	None	PFK-C, PFKF
HSCHR6_MHC_DBB	RGL2	ENSG00000237825	ENST00000492317	processed_transcript	KNOWN	None	9769	None	None	33237360	33242809	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_DBB	RGL2	ENSG00000237825	ENST00000496031	retained_intron	KNOWN	None	9769	None	None	33237360	33244227	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_DBB	RGL2	ENSG00000237825	ENST00000492493	processed_transcript	KNOWN	None	9769	None	None	33237360	33244636	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_DBB	RGL2	ENSG00000237825	ENST00000473419	processed_transcript	PUTATIVE	None	9769	None	None	33237360	33244681	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_DBB	RGL2	ENSG00000237825	ENST00000452084	protein_coding	KNOWN	None	9769	2334	777	33237360	33245030	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_DBB	RGL2	ENSG00000237825	ENST00000495664	processed_transcript	PUTATIVE	None	9769	None	None	33237812	33239636	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_DBB	RGL2	ENSG00000237825	ENST00000493895	retained_intron	KNOWN	None	9769	None	None	33238801	33241329	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_DBB	RGL2	ENSG00000237825	ENST00000476445	retained_intron	KNOWN	None	9769	None	None	33241393	33243692	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_DBB	RGL2	ENSG00000237825	ENST00000490704	retained_intron	KNOWN	None	9769	None	None	33241512	33243699	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_DBB	RGL2	ENSG00000237825	ENST00000494256	processed_transcript	KNOWN	None	9769	None	None	33241805	33243398	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_DBB	RGL2	ENSG00000237825	ENST00000496209	retained_intron	KNOWN	None	9769	None	None	33241863	33243092	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_DBB	RGL2	ENSG00000237825	ENST00000431976	protein_coding	KNOWN	None	9769	440	145	33242150	33244516	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_DBB	RGL2	ENSG00000237825	ENST00000550374	protein_coding	KNOWN	None	9769	1977	658	33237753	33245105	-1	RAB2L	KE1.5, HKE1.5
HSCHR6_MHC_APD	RPL13P	ENSG00000272147	ENST00000606449	processed_pseudogene	KNOWN	None	13978	None	None	28829197	28829828	1	None	BBC1p, dJ111M5.1
6	None	ENSG00000225339	ENST00000429998	lincRNA	KNOWN	None	None	None	None	34247456	34254545	1	None	None
6	None	ENSG00000225339	ENST00000586726	lincRNA	KNOWN	None	None	None	None	34248729	34252045	1	None	None
6	None	ENSG00000225339	ENST00000586413	lincRNA	KNOWN	None	None	None	None	34249692	34252231	1	None	None
5	None	ENSG00000250551	ENST00000507997	lincRNA	KNOWN	None	None	None	None	95385819	95551223	1	None	None
HSCHR6_MHC_APD	ZNF90P2	ENSG00000236614	ENST00000445685	processed_pseudogene	KNOWN	None	21687	None	None	28856613	28857687	-1	ZNF463P	dJ111M5.3
7	COL1A2	ENSG00000164692	ENST00000297268	protein_coding	KNOWN	CCDS34682	2198	4101	1366	94023873	94060544	1	OI4	None
7	COL1A2	ENSG00000164692	ENST00000488298	retained_intron	KNOWN	None	2198	None	None	94043021	94046122	1	OI4	None
7	COL1A2	ENSG00000164692	ENST00000473573	retained_intron	KNOWN	None	2198	None	None	94043532	94051352	1	OI4	None
7	COL1A2	ENSG00000164692	ENST00000497316	retained_intron	KNOWN	None	2198	None	None	94046776	94052430	1	OI4	None
7	COL1A2	ENSG00000164692	ENST00000461525	retained_intron	KNOWN	None	2198	None	None	94047084	94050712	1	OI4	None
7	COL1A2	ENSG00000164692	ENST00000467931	retained_intron	KNOWN	None	2198	None	None	94048765	94050358	1	OI4	None
7	COL1A2	ENSG00000164692	ENST00000481570	retained_intron	KNOWN	None	2198	None	None	94051783	94060000	1	OI4	None
7	COL1A2	ENSG00000164692	ENST00000469732	retained_intron	KNOWN	None	2198	None	None	94053300	94055099	1	OI4	None
7	COL1A2	ENSG00000164692	ENST00000478215	retained_intron	KNOWN	None	2198	None	None	94054582	94056041	1	OI4	None
7	COL1A2	ENSG00000164692	ENST00000488121	retained_intron	KNOWN	None	2198	None	None	94055822	94056804	1	OI4	None
7	COL1A2	ENSG00000164692	ENST00000492110	retained_intron	KNOWN	None	2198	None	None	94056095	94056819	1	OI4	None
7	COL1A2	ENSG00000164692	ENST00000464916	retained_intron	KNOWN	None	2198	None	None	94056624	94059679	1	OI4	None
4	None	ENSG00000261672	ENST00000561655	lincRNA	KNOWN	None	None	None	None	174514823	174515707	1	None	None
6	None	ENSG00000221635	ENST00000408708	miRNA	NOVEL	None	None	None	None	34438567	34438706	-1	None	None
10	RNA5SP309	ENSG00000252479	ENST00000516670	rRNA	KNOWN	None	43209	None	None	31548528	31548633	1	RN5S309	None
5	MIR583	ENSG00000207578	ENST00000384846	miRNA	KNOWN	None	32839	None	None	95414842	95414916	1	MIRN583	hsa-mir-583
20	COL9A3	ENSG00000092758	ENST00000477612	processed_transcript	PUTATIVE	None	2219	None	None	61447596	61456382	1	None	IDD, MED, EDM3, FLJ90759, DJ885L7.4.1
20	COL9A3	ENSG00000092758	ENST00000343916	protein_coding	KNOWN	CCDS13505	2219	2055	684	61448414	61472511	1	None	IDD, MED, EDM3, FLJ90759, DJ885L7.4.1
20	COL9A3	ENSG00000092758	ENST00000489045	processed_transcript	KNOWN	None	2219	None	None	61448795	61458172	1	None	IDD, MED, EDM3, FLJ90759, DJ885L7.4.1
20	COL9A3	ENSG00000092758	ENST00000452372	protein_coding	PUTATIVE	None	2219	573	190	61449163	61457222	1	None	IDD, MED, EDM3, FLJ90759, DJ885L7.4.1
20	COL9A3	ENSG00000092758	ENST00000463487	processed_transcript	PUTATIVE	None	2219	None	None	61455774	61460851	1	None	IDD, MED, EDM3, FLJ90759, DJ885L7.4.1
20	COL9A3	ENSG00000092758	ENST00000466192	retained_intron	KNOWN	None	2219	None	None	61462492	61472496	1	None	IDD, MED, EDM3, FLJ90759, DJ885L7.4.1
20	COL9A3	ENSG00000092758	ENST00000469852	retained_intron	KNOWN	None	2219	None	None	61462923	61467509	1	None	IDD, MED, EDM3, FLJ90759, DJ885L7.4.1
20	COL9A3	ENSG00000092758	ENST00000490398	retained_intron	KNOWN	None	2219	None	None	61463010	61467603	1	None	IDD, MED, EDM3, FLJ90759, DJ885L7.4.1
20	COL9A3	ENSG00000092758	ENST00000481800	retained_intron	KNOWN	None	2219	None	None	61463080	61467479	1	None	IDD, MED, EDM3, FLJ90759, DJ885L7.4.1
20	COL9A3	ENSG00000092758	ENST00000472880	retained_intron	KNOWN	None	2219	None	None	61464197	61468011	1	None	IDD, MED, EDM3, FLJ90759, DJ885L7.4.1
20	COL9A3	ENSG00000092758	ENST00000469802	retained_intron	KNOWN	None	2219	None	None	61464202	61468520	1	None	IDD, MED, EDM3, FLJ90759, DJ885L7.4.1
20	COL9A3	ENSG00000092758	ENST00000462700	processed_transcript	PUTATIVE	None	2219	None	None	61464239	61472511	1	None	IDD, MED, EDM3, FLJ90759, DJ885L7.4.1
20	COL9A3	ENSG00000092758	ENST00000467819	processed_transcript	PUTATIVE	None	2219	None	None	61467771	61472511	1	None	IDD, MED, EDM3, FLJ90759, DJ885L7.4.1
20	COL9A3	ENSG00000092758	ENST00000466532	processed_transcript	PUTATIVE	None	2219	None	None	61468274	61472010	1	None	IDD, MED, EDM3, FLJ90759, DJ885L7.4.1
7	None	ENSG00000228368	ENST00000420664	protein_coding	PUTATIVE	None	None	159	52	116605900	116607526	-1	None	None
HSCHR6_MHC_APD	HCG14	ENSG00000234411	ENST00000413667	processed_transcript	KNOWN	None	18323	None	None	28864311	28865103	1	None	dJ111M5.4
16	ZDHHC1	ENSG00000159714	ENST00000348579	protein_coding	KNOWN	CCDS10836	17916	1458	485	67428322	67450377	-1	C16orf1	HSU90653, ZNF377
16	ZDHHC1	ENSG00000159714	ENST00000566075	processed_transcript	KNOWN	None	17916	None	None	67428328	67430160	-1	C16orf1	HSU90653, ZNF377
16	ZDHHC1	ENSG00000159714	ENST00000565726	protein_coding	NOVEL	None	17916	1056	351	67428424	67434894	-1	C16orf1	HSU90653, ZNF377
16	ZDHHC1	ENSG00000159714	ENST00000562122	processed_transcript	KNOWN	None	17916	None	None	67429408	67438456	-1	C16orf1	HSU90653, ZNF377
16	ZDHHC1	ENSG00000159714	ENST00000567311	processed_transcript	KNOWN	None	17916	None	None	67429469	67430190	-1	C16orf1	HSU90653, ZNF377
16	ZDHHC1	ENSG00000159714	ENST00000568650	retained_intron	KNOWN	None	17916	None	None	67438061	67450736	-1	C16orf1	HSU90653, ZNF377
4	MORF4	ENSG00000234801	ENST00000447135	processed_pseudogene	KNOWN	None	15773	None	None	174537087	174538057	-1	SEN, SEN1	None
4	MORF4	ENSG00000234801	ENST00000434007	processed_pseudogene	KNOWN	None	15773	None	None	174537087	174537794	-1	SEN, SEN1	None
1	CELA2B	ENSG00000215704	ENST00000494280	processed_transcript	KNOWN	None	29995	None	None	15792404	15809863	1	None	RP11-265F14.2, ELA2B
1	CELA2B	ENSG00000215704	ENST00000375910	protein_coding	KNOWN	CCDS30605	29995	810	269	15802596	15817895	1	None	RP11-265F14.2, ELA2B
1	CELA2B	ENSG00000215704	ENST00000422901	protein_coding	KNOWN	None	29995	377	124	15802960	15808852	1	None	RP11-265F14.2, ELA2B
1	CELA2B	ENSG00000215704	ENST00000488764	processed_transcript	KNOWN	None	29995	None	None	15812356	15817890	1	None	RP11-265F14.2, ELA2B
4	PPID	ENSG00000171497	ENST00000307720	protein_coding	KNOWN	CCDS3801	9257	1113	370	159630286	159644548	-1	None	CYP-40
4	PPID	ENSG00000171497	ENST00000512699	nonsense_mediated_decay	KNOWN	None	9257	59	18	159630913	159638207	-1	None	CYP-40
4	PPID	ENSG00000171497	ENST00000507213	protein_coding	PUTATIVE	None	9257	147	48	159631094	159631973	-1	None	CYP-40
16	SSTR5-AS1	ENSG00000261713	ENST00000569832	lincRNA	KNOWN	None	26502	None	None	1114093	1128673	-1	None	None
16	SSTR5-AS1	ENSG00000261713	ENST00000565992	lincRNA	KNOWN	None	26502	None	None	1116248	1123603	-1	None	None
16	SSTR5-AS1	ENSG00000261713	ENST00000569734	lincRNA	KNOWN	None	26502	None	None	1116376	1117236	-1	None	None
16	SSTR5-AS1	ENSG00000261713	ENST00000566499	lincRNA	KNOWN	None	26502	None	None	1116494	1128707	-1	None	None
10	SPTLC1P1	ENSG00000230397	ENST00000447199	transcribed_processed_pseudogene	KNOWN	None	39668	None	None	31649884	31650144	1	None	None
4	RANP6	ENSG00000213370	ENST00000413691	processed_pseudogene	KNOWN	None	39861	None	None	174554879	174555522	-1	None	None
HSCHR6_MHC_APD	None	ENSG00000264025	ENST00000580354	snRNA	NOVEL	None	None	None	None	28883427	28883526	1	None	None
4	RN7SL127P	ENSG00000242175	ENST00000494856	misc_RNA	KNOWN	None	46143	None	None	79820009	79820306	1	None	None
HSCHR6_MHC_APD	HCG15	ENSG00000224642	ENST00000414692	processed_transcript	KNOWN	None	18361	None	None	28953985	28955266	1	None	dJ25J6.6
4	None	ENSG00000250043	ENST00000515825	lincRNA	KNOWN	None	None	None	None	174798622	174834403	-1	None	None
4	None	ENSG00000250043	ENST00000502956	lincRNA	KNOWN	None	None	None	None	174817545	174833046	-1	None	None
15	OIP5	ENSG00000104147	ENST00000220514	protein_coding	KNOWN	CCDS10074	20300	690	229	41601466	41624819	-1	None	MIS18B, hMIS18beta, CT86
15	OIP5	ENSG00000104147	ENST00000560640	protein_coding	NOVEL	None	20300	485	160	41601960	41624685	-1	None	MIS18B, hMIS18beta, CT86
17	KRT35	ENSG00000197079	ENST00000246639	protein_coding	KNOWN	None	6453	1278	425	39632941	39637392	-1	KRTHA5	Ha-5
17	KRT35	ENSG00000197079	ENST00000393989	protein_coding	KNOWN	CCDS11394	6453	1368	455	39632942	39637392	-1	KRTHA5	Ha-5
HSCHR6_MHC_APD	HCG16	ENSG00000241408	ENST00000429554	processed_transcript	KNOWN	None	20424	None	None	28954582	28956357	1	None	dJ25J6.7
10	None	ENSG00000196960	ENST00000607134	antisense	KNOWN	None	None	None	None	31650356	31688682	-1	None	None
10	None	ENSG00000196960	ENST00000359888	antisense	KNOWN	None	None	None	None	31650356	31652937	-1	None	None
5	RNU6-524P	ENSG00000206997	ENST00000384270	snRNA	KNOWN	None	47487	None	None	95545825	95545931	-1	None	None
4	None	ENSG00000244083	ENST00000480069	processed_pseudogene	KNOWN	None	None	None	None	123736926	123737272	-1	None	None
5	None	ENSG00000249746	ENST00000502437	lincRNA	KNOWN	None	None	None	None	95549050	95550779	-1	None	None
1	SARS	ENSG00000031698	ENST00000234677	protein_coding	KNOWN	CCDS795	10537	1545	514	109756540	109780742	1	None	SERS
1	SARS	ENSG00000031698	ENST00000482384	processed_transcript	KNOWN	None	10537	None	None	109756554	109757775	1	None	SERS
1	SARS	ENSG00000031698	ENST00000477544	processed_transcript	KNOWN	None	10537	None	None	109756590	109778053	1	None	SERS
1	SARS	ENSG00000031698	ENST00000369923	protein_coding	KNOWN	None	10537	1611	536	109756604	109780770	1	None	SERS
1	SARS	ENSG00000031698	ENST00000471705	processed_transcript	KNOWN	None	10537	None	None	109773780	109778053	1	None	SERS
1	SARS	ENSG00000031698	ENST00000468588	processed_transcript	KNOWN	None	10537	None	None	109778853	109780791	1	None	SERS
HSCHR6_MHC_APD	OR2AD1P	ENSG00000236070	ENST00000414737	unprocessed_pseudogene	KNOWN	None	14749	None	None	28994502	28995429	-1	None	OR2AD1, hs6M1-8P
4	CLRN2	ENSG00000249581	ENST00000511148	protein_coding	KNOWN	CCDS47032	33939	699	232	17516788	17528727	1	None	None
9	None	ENSG00000233457	ENST00000428243	processed_pseudogene	KNOWN	None	None	None	None	80765448	80766109	-1	None	None
HSCHR6_MHC_APD	OR2J1	ENSG00000234305	ENST00000417908	unprocessed_pseudogene	KNOWN	None	8259	None	None	29068770	29069708	1	OR2J1P	OR6-5, hs6M1-4, dJ80I19.2
14	SCFD1	ENSG00000092108	ENST00000458591	protein_coding	KNOWN	CCDS9639	20726	1929	642	31091318	31205018	1	C14orf163	RA410, KIAA0917, STXBP1L2, SLY1
14	SCFD1	ENSG00000092108	ENST00000555259	nonsense_mediated_decay	KNOWN	None	20726	366	121	31091517	31185176	1	C14orf163	RA410, KIAA0917, STXBP1L2, SLY1
14	SCFD1	ENSG00000092108	ENST00000463622	nonsense_mediated_decay	KNOWN	None	20726	147	48	31091525	31204898	1	C14orf163	RA410, KIAA0917, STXBP1L2, SLY1
14	SCFD1	ENSG00000092108	ENST00000544052	protein_coding	KNOWN	CCDS45092	20726	1728	575	31091525	31204995	1	C14orf163	RA410, KIAA0917, STXBP1L2, SLY1
14	SCFD1	ENSG00000092108	ENST00000556768	nonsense_mediated_decay	KNOWN	None	20726	228	75	31091525	31204997	1	C14orf163	RA410, KIAA0917, STXBP1L2, SLY1
14	SCFD1	ENSG00000092108	ENST00000484733	nonsense_mediated_decay	KNOWN	None	20726	168	55	31091525	31205005	1	C14orf163	RA410, KIAA0917, STXBP1L2, SLY1
14	SCFD1	ENSG00000092108	ENST00000557713	nonsense_mediated_decay	KNOWN	None	20726	279	92	31091526	31107379	1	C14orf163	RA410, KIAA0917, STXBP1L2, SLY1
14	SCFD1	ENSG00000092108	ENST00000311943	nonsense_mediated_decay	KNOWN	None	20726	492	163	31091533	31204978	1	C14orf163	RA410, KIAA0917, STXBP1L2, SLY1
14	SCFD1	ENSG00000092108	ENST00000557076	protein_coding	PUTATIVE	None	20726	594	197	31091534	31118789	1	C14orf163	RA410, KIAA0917, STXBP1L2, SLY1
14	SCFD1	ENSG00000092108	ENST00000553693	protein_coding	PUTATIVE	None	20726	254	83	31091535	31119832	1	C14orf163	RA410, KIAA0917, STXBP1L2, SLY1
14	SCFD1	ENSG00000092108	ENST00000396629	protein_coding	PUTATIVE	CCDS58308	20726	1653	550	31091538	31204997	1	C14orf163	RA410, KIAA0917, STXBP1L2, SLY1
14	SCFD1	ENSG00000092108	ENST00000556413	retained_intron	KNOWN	None	20726	None	None	31097415	31100123	1	C14orf163	RA410, KIAA0917, STXBP1L2, SLY1
14	SCFD1	ENSG00000092108	ENST00000554776	nonsense_mediated_decay	KNOWN	None	20726	308	101	31097415	31122794	1	C14orf163	RA410, KIAA0917, STXBP1L2, SLY1
14	SCFD1	ENSG00000092108	ENST00000556534	retained_intron	KNOWN	None	20726	None	None	31107403	31123187	1	C14orf163	RA410, KIAA0917, STXBP1L2, SLY1
14	SCFD1	ENSG00000092108	ENST00000469043	protein_coding	PUTATIVE	None	20726	435	144	31108983	31127564	1	C14orf163	RA410, KIAA0917, STXBP1L2, SLY1
14	SCFD1	ENSG00000092108	ENST00000554819	processed_transcript	KNOWN	None	20726	None	None	31121544	31164064	1	C14orf163	RA410, KIAA0917, STXBP1L2, SLY1
14	SCFD1	ENSG00000092108	ENST00000553278	retained_intron	KNOWN	None	20726	None	None	31138969	31143200	1	C14orf163	RA410, KIAA0917, STXBP1L2, SLY1
14	SCFD1	ENSG00000092108	ENST00000555953	retained_intron	KNOWN	None	20726	None	None	31142479	31144537	1	C14orf163	RA410, KIAA0917, STXBP1L2, SLY1
14	SCFD1	ENSG00000092108	ENST00000554486	processed_transcript	KNOWN	None	20726	None	None	31145332	31175091	1	C14orf163	RA410, KIAA0917, STXBP1L2, SLY1
14	SCFD1	ENSG00000092108	ENST00000554437	nonsense_mediated_decay	KNOWN	None	20726	108	35	31175030	31205005	1	C14orf163	RA410, KIAA0917, STXBP1L2, SLY1
14	SCFD1	ENSG00000092108	ENST00000556486	retained_intron	KNOWN	None	20726	None	None	31184504	31204863	1	C14orf163	RA410, KIAA0917, STXBP1L2, SLY1
14	SCFD1	ENSG00000092108	ENST00000556256	retained_intron	KNOWN	None	20726	None	None	31190908	31204868	1	C14orf163	RA410, KIAA0917, STXBP1L2, SLY1
14	SCFD1	ENSG00000092108	ENST00000555550	retained_intron	KNOWN	None	20726	None	None	31190932	31192048	1	C14orf163	RA410, KIAA0917, STXBP1L2, SLY1
14	SCFD1	ENSG00000092108	ENST00000553280	retained_intron	KNOWN	None	20726	None	None	31203700	31205000	1	C14orf163	RA410, KIAA0917, STXBP1L2, SLY1
14	SCFD1	ENSG00000092108	ENST00000421551	protein_coding	KNOWN	None	20726	1752	583	31091525	31204898	1	C14orf163	RA410, KIAA0917, STXBP1L2, SLY1
14	SCFD1	ENSG00000092108	ENST00000541123	protein_coding	KNOWN	None	20726	1374	457	31091533	31204978	1	C14orf163	RA410, KIAA0917, STXBP1L2, SLY1
9	None	ENSG00000236966	ENST00000442149	processed_pseudogene	KNOWN	None	None	None	None	42276765	42277236	1	None	None
22	BIK	ENSG00000100290	ENST00000216115	protein_coding	KNOWN	CCDS14044	1051	483	160	43506754	43525718	1	None	NBK
6	None	ENSG00000196114	ENST00000339867	processed_pseudogene	KNOWN	None	None	None	None	34544035	34544433	-1	None	None
10	None	ENSG00000223834	ENST00000420945	lincRNA	KNOWN	None	None	None	None	31893528	31895146	1	None	None
9	None	ENSG00000225679	ENST00000417418	unprocessed_pseudogene	KNOWN	None	None	None	None	42312410	42316345	1	None	None
HSCHR6_MHC_APD	None	ENSG00000224229	ENST00000441737	processed_transcript	KNOWN	None	None	None	None	29092026	29096724	1	None	None
10	None	ENSG00000235623	ENST00000431186	processed_pseudogene	KNOWN	None	None	None	None	15028873	15031447	-1	None	None
4	None	ENSG00000245468	ENST00000504402	lincRNA	KNOWN	None	None	None	None	7096298	7105056	-1	None	None
4	None	ENSG00000245468	ENST00000499242	lincRNA	KNOWN	None	None	None	None	7099795	7105107	-1	None	None
4	None	ENSG00000245468	ENST00000501888	lincRNA	KNOWN	None	None	None	None	7102967	7105112	-1	None	None
11	MUC5AC	ENSG00000215182	ENST00000534821	protein_coding	KNOWN	None	7515	1870	622	1151580	1162361	1	None	MUC5
11	MUC5AC	ENSG00000215182	ENST00000358378	processed_transcript	PUTATIVE	None	7515	None	None	1212760	1222364	1	None	MUC5
11	MUC5AC	ENSG00000215182	ENST00000356191	protein_coding	KNOWN	None	7515	1860	619	1151627	1162360	1	None	MUC5
10	None	ENSG00000231855	ENST00000414627	unprocessed_pseudogene	KNOWN	None	None	None	None	31917468	31917527	-1	None	None
16	None	ENSG00000260507	ENST00000562203	lincRNA	KNOWN	None	None	None	None	90171503	90172724	-1	None	None
7	C7orf49	ENSG00000122783	ENST00000459937	processed_transcript	KNOWN	None	22432	None	None	134777115	134855447	-1	None	MGC5242, FLJ27285, FLJ22450, MRI
7	C7orf49	ENSG00000122783	ENST00000464070	processed_transcript	KNOWN	None	22432	None	None	134778131	134832915	-1	None	MGC5242, FLJ27285, FLJ22450, MRI
7	C7orf49	ENSG00000122783	ENST00000424142	protein_coding	KNOWN	CCDS59082	22432	309	102	134850537	134855413	-1	None	MGC5242, FLJ27285, FLJ22450, MRI
7	C7orf49	ENSG00000122783	ENST00000393114	protein_coding	KNOWN	CCDS5838	22432	474	157	134850537	134855447	-1	None	MGC5242, FLJ27285, FLJ22450, MRI
7	C7orf49	ENSG00000122783	ENST00000430372	protein_coding	NOVEL	None	22432	471	156	134850581	134855547	-1	None	MGC5242, FLJ27285, FLJ22450, MRI
7	C7orf49	ENSG00000122783	ENST00000481410	retained_intron	KNOWN	None	22432	None	None	134851096	134852931	-1	None	MGC5242, FLJ27285, FLJ22450, MRI
7	C7orf49	ENSG00000122783	ENST00000483029	protein_coding	KNOWN	CCDS59082	22432	309	102	134851220	134855427	-1	None	MGC5242, FLJ27285, FLJ22450, MRI
7	C7orf49	ENSG00000122783	ENST00000472428	processed_transcript	KNOWN	None	22432	None	None	134851327	134854211	-1	None	MGC5242, FLJ27285, FLJ22450, MRI
7	C7orf49	ENSG00000122783	ENST00000477820	processed_transcript	KNOWN	None	22432	None	None	134851352	134854226	-1	None	MGC5242, FLJ27285, FLJ22450, MRI
7	C7orf49	ENSG00000122783	ENST00000488161	processed_transcript	PUTATIVE	None	22432	None	None	134852115	134852561	-1	None	MGC5242, FLJ27285, FLJ22450, MRI
7	C7orf49	ENSG00000122783	ENST00000487774	retained_intron	KNOWN	None	22432	None	None	134853056	134855490	-1	None	MGC5242, FLJ27285, FLJ22450, MRI
7	C7orf49	ENSG00000122783	ENST00000486115	retained_intron	KNOWN	None	22432	None	None	134853348	134855263	-1	None	MGC5242, FLJ27285, FLJ22450, MRI
16	None	ENSG00000261172	ENST00000565965	lincRNA	KNOWN	None	None	None	None	90176982	90234633	-1	None	None
16	None	ENSG00000261172	ENST00000563515	lincRNA	KNOWN	None	None	None	None	90182608	90192430	-1	None	None
HSCHR6_MHC_COX	OR2B4P	ENSG00000231279	ENST00000443815	unprocessed_pseudogene	KNOWN	None	8239	None	None	29255202	29256144	1	None	hs6M1-22
4	RN7SKP36	ENSG00000200867	ENST00000363997	misc_RNA	KNOWN	None	45760	None	None	7113815	7114126	-1	None	None
17	None	ENSG00000267426	ENST00000590947	nonsense_mediated_decay	KNOWN	None	None	229	75	73894726	73905899	-1	None	None
17	None	ENSG00000267426	ENST00000593156	retained_intron	KNOWN	None	None	None	None	73895032	73926210	-1	None	None
17	None	ENSG00000267426	ENST00000587556	nonsense_mediated_decay	KNOWN	None	None	372	123	73900745	73909810	-1	None	None
4	MIR4798	ENSG00000264658	ENST00000578126	miRNA	KNOWN	None	41616	None	None	7312177	7312251	1	None	hsa-mir-4798
7	WNT2	ENSG00000105989	ENST00000265441	protein_coding	KNOWN	CCDS5771	12780	1083	360	116916685	116963343	-1	INT1L1	IRP
7	WNT2	ENSG00000105989	ENST00000449446	nonsense_mediated_decay	KNOWN	None	12780	333	110	116917585	116963168	-1	INT1L1	IRP
7	WNT2	ENSG00000105989	ENST00000491214	protein_coding	NOVEL	None	12780	461	152	116937780	116963095	-1	INT1L1	IRP
7	WNT2	ENSG00000105989	ENST00000461427	retained_intron	KNOWN	None	12780	None	None	116960523	116963206	-1	INT1L1	IRP
16	RNU6-355P	ENSG00000222359	ENST00000410427	snRNA	KNOWN	None	47318	None	None	90211000	90211103	1	None	None
4	MIR4274	ENSG00000266690	ENST00000579577	miRNA	KNOWN	None	38194	None	None	7461755	7461845	1	None	hsa-mir-4274
10	None	ENSG00000237797	ENST00000433770	lincRNA	KNOWN	None	None	None	None	31982012	31996316	-1	None	None
19	JUNB	ENSG00000171223	ENST00000302754	protein_coding	KNOWN	CCDS12280	6205	1044	347	12902310	12904124	1	None	None
4	MIR95	ENSG00000207807	ENST00000385072	miRNA	KNOWN	None	31647	None	None	8007028	8007108	-1	MIRN95	hsa-mir-95
4	None	ENSG00000251460	ENST00000510640	antisense	KNOWN	None	None	None	None	8068255	8069451	1	None	None
19	ACP5	ENSG00000102575	ENST00000218758	protein_coding	KNOWN	CCDS12265	124	978	325	11685475	11689800	-1	None	TRAP
19	ACP5	ENSG00000102575	ENST00000412435	protein_coding	KNOWN	CCDS12265	124	978	325	11685506	11689801	-1	None	TRAP
19	ACP5	ENSG00000102575	ENST00000592828	protein_coding	KNOWN	CCDS12265	124	978	325	11685507	11689794	-1	None	TRAP
19	ACP5	ENSG00000102575	ENST00000433365	protein_coding	KNOWN	CCDS12265	124	978	325	11685555	11688556	-1	None	TRAP
19	ACP5	ENSG00000102575	ENST00000590420	protein_coding	PUTATIVE	None	124	180	59	11685815	11688447	-1	None	TRAP
19	ACP5	ENSG00000102575	ENST00000588625	retained_intron	KNOWN	None	124	None	None	11687194	11687758	-1	None	TRAP
19	ACP5	ENSG00000102575	ENST00000588524	retained_intron	KNOWN	None	124	None	None	11687415	11689791	-1	None	TRAP
19	ACP5	ENSG00000102575	ENST00000590832	protein_coding	KNOWN	None	124	373	123	11687547	11688342	-1	None	TRAP
19	ACP5	ENSG00000102575	ENST00000588079	retained_intron	KNOWN	None	124	None	None	11687657	11688515	-1	None	TRAP
19	ACP5	ENSG00000102575	ENST00000589792	protein_coding	KNOWN	None	124	224	73	11687909	11688951	-1	None	TRAP
19	ACP5	ENSG00000102575	ENST00000591319	protein_coding	KNOWN	None	124	158	51	11687975	11689823	-1	None	TRAP
19	ACP5	ENSG00000102575	ENST00000592659	protein_coding	KNOWN	None	124	17	4	11688116	11689769	-1	None	TRAP
16	None	ENSG00000260923	ENST00000568418	lincRNA	KNOWN	None	None	None	None	90252405	90283343	1	None	None
16	None	ENSG00000260923	ENST00000568947	lincRNA	KNOWN	None	None	None	None	90281181	90281770	1	None	None
16	None	ENSG00000260923	ENST00000569162	lincRNA	KNOWN	None	None	None	None	90282234	90289074	1	None	None
16	None	ENSG00000260923	ENST00000568739	lincRNA	KNOWN	None	None	None	None	90282280	90289086	1	None	None
16	None	ENSG00000260923	ENST00000565635	lincRNA	KNOWN	None	None	None	None	90282436	90285872	1	None	None
16	None	ENSG00000260923	ENST00000566864	lincRNA	KNOWN	None	None	None	None	90287856	90288916	1	None	None
19	None	ENSG00000268945	ENST00000593554	lincRNA	KNOWN	None	None	None	None	12793507	12798093	-1	None	None
19	None	ENSG00000267791	ENST00000585742	antisense	KNOWN	None	None	None	None	12799736	12800052	1	None	None
4	GMPSP1	ENSG00000250471	ENST00000514075	processed_pseudogene	KNOWN	None	39428	None	None	8176148	8176726	1	None	None
12	COQ10A	ENSG00000135469	ENST00000308197	protein_coding	KNOWN	CCDS41796	26515	744	247	56660642	56664748	1	None	FLJ32452
12	COQ10A	ENSG00000135469	ENST00000551566	retained_intron	KNOWN	None	26515	None	None	56660674	56661868	1	None	FLJ32452
12	COQ10A	ENSG00000135469	ENST00000551911	retained_intron	KNOWN	None	26515	None	None	56660675	56664253	1	None	FLJ32452
12	COQ10A	ENSG00000135469	ENST00000433805	protein_coding	KNOWN	CCDS44921	26515	648	215	56661067	56664750	1	None	FLJ32452
12	COQ10A	ENSG00000135469	ENST00000550071	retained_intron	KNOWN	None	26515	None	None	56661069	56663211	1	None	FLJ32452
12	COQ10A	ENSG00000135469	ENST00000546614	retained_intron	KNOWN	None	26515	None	None	56661113	56662179	1	None	FLJ32452
12	COQ10A	ENSG00000135469	ENST00000546544	protein_coding	KNOWN	None	26515	693	230	56661466	56664748	1	None	FLJ32452
12	COQ10A	ENSG00000135469	ENST00000553234	protein_coding	NOVEL	None	26515	461	152	56661584	56664433	1	None	FLJ32452
12	COQ10A	ENSG00000135469	ENST00000549545	retained_intron	KNOWN	None	26515	None	None	56661901	56664242	1	None	FLJ32452
12	COQ10A	ENSG00000135469	ENST00000551814	protein_coding	KNOWN	None	26515	194	63	56663320	56664449	1	None	FLJ32452
10	None	ENSG00000222412	ENST00000410480	misc_RNA	NOVEL	None	None	None	None	32044970	32045064	-1	None	None
22	MCAT	ENSG00000100294	ENST00000327555	protein_coding	KNOWN	CCDS14045	29622	543	180	43528886	43539370	-1	None	MT, MCT, fabD, FASN2C, NET62
22	MCAT	ENSG00000100294	ENST00000290429	protein_coding	KNOWN	CCDS33660	29622	1173	390	43528889	43539400	-1	None	MT, MCT, fabD, FASN2C, NET62
22	MCAT	ENSG00000100294	ENST00000464244	processed_transcript	KNOWN	None	29622	None	None	43537062	43539286	-1	None	MT, MCT, fabD, FASN2C, NET62
3	DPH3	ENSG00000154813	ENST00000488423	protein_coding	KNOWN	CCDS2629	27717	249	82	16299485	16306479	-1	ZCSL2	DESR1, DELGIP1, MGC20197, KTI11, DELGIP, DPH3A
3	DPH3	ENSG00000154813	ENST00000383775	protein_coding	KNOWN	CCDS43058	27717	174	57	16299486	16306476	-1	ZCSL2	DESR1, DELGIP1, MGC20197, KTI11, DELGIP, DPH3A
3	DPH3	ENSG00000154813	ENST00000285082	processed_transcript	KNOWN	None	27717	None	None	16301417	16306284	-1	ZCSL2	DESR1, DELGIP1, MGC20197, KTI11, DELGIP, DPH3A
3	DPH3	ENSG00000154813	ENST00000462982	processed_transcript	KNOWN	None	27717	None	None	16301931	16306094	-1	ZCSL2	DESR1, DELGIP1, MGC20197, KTI11, DELGIP, DPH3A
10	HMGB1P7	ENSG00000231148	ENST00000450921	processed_pseudogene	KNOWN	None	39096	None	None	32202071	32202682	1	None	None
11	SERPINH1	ENSG00000149257	ENST00000533603	protein_coding	KNOWN	CCDS8239	1546	1257	418	75273101	75283828	1	CBP1, CBP2, SERPINH2	HSP47, colligen
11	SERPINH1	ENSG00000149257	ENST00000358171	protein_coding	KNOWN	CCDS8239	1546	1257	418	75273131	75283828	1	CBP1, CBP2, SERPINH2	HSP47, colligen
11	SERPINH1	ENSG00000149257	ENST00000526242	protein_coding	NOVEL	None	1546	257	84	75273182	75277726	1	CBP1, CBP2, SERPINH2	HSP47, colligen
11	SERPINH1	ENSG00000149257	ENST00000526397	protein_coding	KNOWN	None	1546	749	248	75273288	75280011	1	CBP1, CBP2, SERPINH2	HSP47, colligen
11	SERPINH1	ENSG00000149257	ENST00000529643	protein_coding	KNOWN	None	1546	500	165	75273298	75277894	1	CBP1, CBP2, SERPINH2	HSP47, colligen
11	SERPINH1	ENSG00000149257	ENST00000525492	protein_coding	NOVEL	None	1546	428	141	75273298	75277963	1	CBP1, CBP2, SERPINH2	HSP47, colligen
11	SERPINH1	ENSG00000149257	ENST00000530284	protein_coding	PUTATIVE	None	1546	975	324	75273298	75280475	1	CBP1, CBP2, SERPINH2	HSP47, colligen
11	SERPINH1	ENSG00000149257	ENST00000532356	protein_coding	KNOWN	None	1546	887	294	75273391	75280149	1	CBP1, CBP2, SERPINH2	HSP47, colligen
11	SERPINH1	ENSG00000149257	ENST00000524558	protein_coding	KNOWN	CCDS8239	1546	1257	418	75273415	75283827	1	CBP1, CBP2, SERPINH2	HSP47, colligen
11	SERPINH1	ENSG00000149257	ENST00000528990	protein_coding	KNOWN	None	1546	495	164	75273872	75277889	1	CBP1, CBP2, SERPINH2	HSP47, colligen
11	SERPINH1	ENSG00000149257	ENST00000533449	protein_coding	KNOWN	None	1546	452	149	75273878	75277846	1	CBP1, CBP2, SERPINH2	HSP47, colligen
11	SERPINH1	ENSG00000149257	ENST00000525611	protein_coding	KNOWN	None	1546	743	246	75273909	75280005	1	CBP1, CBP2, SERPINH2	HSP47, colligen
11	SERPINH1	ENSG00000149257	ENST00000528760	protein_coding	KNOWN	None	1546	610	202	75274467	75278004	1	CBP1, CBP2, SERPINH2	HSP47, colligen
11	SERPINH1	ENSG00000149257	ENST00000525876	protein_coding	PUTATIVE	None	1546	606	201	75278827	75283827	1	CBP1, CBP2, SERPINH2	HSP47, colligen
11	SERPINH1	ENSG00000149257	ENST00000526638	nonsense_mediated_decay	KNOWN	None	1546	170	55	75282959	75283828	1	CBP1, CBP2, SERPINH2	HSP47, colligen
5	SCGB3A1	ENSG00000161055	ENST00000292641	protein_coding	KNOWN	CCDS4456	18384	315	104	180017103	180018540	-1	None	UGRP2, HIN-1, HIN1, LU105, PnSP-2
5	SCGB3A1	ENSG00000161055	ENST00000512120	retained_intron	KNOWN	None	18384	None	None	180017105	180018163	-1	None	UGRP2, HIN-1, HIN1, LU105, PnSP-2
HSCHR6_MHC_MANN	TRIM31	ENSG00000225130	ENST00000453266	protein_coding	KNOWN	None	16289	1278	425	30065837	30076039	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_MANN	TRIM31	ENSG00000225130	ENST00000469791	processed_transcript	KNOWN	None	16289	None	None	30065837	30075823	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_MANN	TRIM31	ENSG00000225130	ENST00000475526	retained_intron	KNOWN	None	16289	None	None	30065837	30068597	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_MANN	TRIM31	ENSG00000225130	ENST00000482344	processed_transcript	KNOWN	None	16289	None	None	30066302	30073455	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_MANN	TRIM31	ENSG00000225130	ENST00000489810	retained_intron	KNOWN	None	16289	None	None	30066813	30071140	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_MANN	TRIM31	ENSG00000225130	ENST00000493823	retained_intron	KNOWN	None	16289	None	None	30066871	30068380	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_MANN	TRIM31	ENSG00000225130	ENST00000497819	processed_transcript	KNOWN	None	16289	None	None	30068136	30075119	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_MANN	TRIM31	ENSG00000225130	ENST00000468315	retained_intron	KNOWN	None	16289	None	None	30071681	30074639	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_MANN	TRIM31	ENSG00000225130	ENST00000485826	retained_intron	KNOWN	None	16289	None	None	30074151	30075408	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_MANN	TRIM31	ENSG00000225130	ENST00000546863	protein_coding	KNOWN	None	16289	1278	425	30065839	30076023	-1	None	RNF, HCGI, C6orf13, HCG1
12	SLCO1B3	ENSG00000111700	ENST00000540853	protein_coding	PUTATIVE	None	10961	874	290	20963636	21028315	1	SLC21A8	OATP8, OATP1B3
12	SLCO1B3	ENSG00000111700	ENST00000381545	protein_coding	KNOWN	CCDS8684	10961	2109	702	20963660	21069658	1	SLC21A8	OATP8, OATP1B3
12	SLCO1B3	ENSG00000111700	ENST00000545880	processed_transcript	KNOWN	None	10961	None	None	21008026	21013988	1	SLC21A8	OATP8, OATP1B3
12	SLCO1B3	ENSG00000111700	ENST00000544370	protein_coding	PUTATIVE	None	10961	1440	479	21015393	21055267	1	SLC21A8	OATP8, OATP1B3
12	SLCO1B3	ENSG00000111700	ENST00000553473	protein_coding	KNOWN	None	10961	2247	748	20968673	21243040	1	SLC21A8	OATP8, OATP1B3
12	SLCO1B3	ENSG00000111700	ENST00000261196	protein_coding	KNOWN	CCDS8684	10961	2109	702	20963638	21069658	1	SLC21A8	OATP8, OATP1B3
19	UBL5	ENSG00000198258	ENST00000586895	protein_coding	KNOWN	CCDS12219	13736	222	73	9938568	9940790	1	None	None
19	UBL5	ENSG00000198258	ENST00000358666	protein_coding	KNOWN	CCDS12219	13736	222	73	9938568	9940791	1	None	None
19	UBL5	ENSG00000198258	ENST00000590068	protein_coding	KNOWN	CCDS12219	13736	222	73	9938570	9940791	1	None	None
19	UBL5	ENSG00000198258	ENST00000589960	processed_transcript	KNOWN	None	13736	None	None	9938572	9940791	1	None	None
19	UBL5	ENSG00000198258	ENST00000593087	protein_coding	PUTATIVE	None	13736	111	36	9938591	9940789	1	None	None
19	UBL5	ENSG00000198258	ENST00000588595	retained_intron	KNOWN	None	13736	None	None	9938594	9939481	1	None	None
19	UBL5	ENSG00000198258	ENST00000588141	retained_intron	KNOWN	None	13736	None	None	9938594	9939669	1	None	None
19	UBL5	ENSG00000198258	ENST00000589372	retained_intron	KNOWN	None	13736	None	None	9938602	9940752	1	None	None
10	None	ENSG00000230240	ENST00000415903	processed_pseudogene	KNOWN	None	None	None	None	32272813	32273482	1	None	None
6	None	ENSG00000216636	ENST00000404151	processed_pseudogene	KNOWN	None	None	None	None	34584315	34585035	1	None	None
16	COQ7	ENSG00000167186	ENST00000321998	protein_coding	KNOWN	CCDS10574	2244	654	217	19078921	19091417	1	None	CLK-1, CAT5
16	COQ7	ENSG00000167186	ENST00000566049	nonsense_mediated_decay	KNOWN	None	2244	321	106	19078948	19089605	1	None	CLK-1, CAT5
16	COQ7	ENSG00000167186	ENST00000568985	protein_coding	KNOWN	CCDS10574	2244	654	217	19078963	19090484	1	None	CLK-1, CAT5
16	COQ7	ENSG00000167186	ENST00000566110	protein_coding	PUTATIVE	None	2244	310	102	19078965	19087099	1	None	CLK-1, CAT5
16	COQ7	ENSG00000167186	ENST00000564746	retained_intron	KNOWN	None	2244	None	None	19078968	19083723	1	None	CLK-1, CAT5
16	COQ7	ENSG00000167186	ENST00000569312	nonsense_mediated_decay	KNOWN	None	2244	411	136	19078983	19089600	1	None	CLK-1, CAT5
16	COQ7	ENSG00000167186	ENST00000544894	protein_coding	KNOWN	CCDS53993	2244	540	179	19079239	19089626	1	None	CLK-1, CAT5
16	COQ7	ENSG00000167186	ENST00000561858	protein_coding	KNOWN	None	2244	391	129	19079246	19087180	1	None	CLK-1, CAT5
16	COQ7	ENSG00000167186	ENST00000569127	protein_coding	PUTATIVE	None	2244	585	194	19079311	19090584	1	None	CLK-1, CAT5
16	COQ7	ENSG00000167186	ENST00000567314	processed_transcript	KNOWN	None	2244	None	None	19089914	19090584	1	None	CLK-1, CAT5
16	COQ7	ENSG00000167186	ENST00000569259	processed_transcript	KNOWN	None	2244	None	None	19090005	19090578	1	None	CLK-1, CAT5
19	OR7A10	ENSG00000127515	ENST00000248058	protein_coding	KNOWN	CCDS32936	8356	930	309	14951760	14952689	-1	None	None
6	None	ENSG00000239059	ENST00000459302	snoRNA	NOVEL	None	None	None	None	34650575	34650679	1	None	None
7	FIGNL1	ENSG00000132436	ENST00000356889	protein_coding	KNOWN	CCDS5510	13286	2025	674	50511831	50518022	-1	None	None
7	FIGNL1	ENSG00000132436	ENST00000395556	protein_coding	KNOWN	CCDS5510	13286	2025	674	50511831	50518048	-1	None	None
7	FIGNL1	ENSG00000132436	ENST00000433017	protein_coding	KNOWN	CCDS5510	13286	2025	674	50512175	50518088	-1	None	None
7	FIGNL1	ENSG00000132436	ENST00000419119	protein_coding	KNOWN	CCDS5510	13286	2025	674	50512840	50517422	-1	None	None
7	FIGNL1	ENSG00000132436	ENST00000435566	protein_coding	PUTATIVE	None	13286	204	67	50514485	50518086	-1	None	None
7	FIGNL1	ENSG00000132436	ENST00000436590	protein_coding	KNOWN	None	13286	376	124	50514610	50517788	-1	None	None
7	FIGNL1	ENSG00000132436	ENST00000422854	protein_coding	KNOWN	None	13286	307	101	50514679	50518066	-1	None	None
7	FIGNL1	ENSG00000132436	ENST00000440350	protein_coding	KNOWN	None	13286	293	96	50514693	50517393	-1	None	None
7	FIGNL1	ENSG00000132436	ENST00000420829	protein_coding	KNOWN	None	13286	160	52	50514826	50518034	-1	None	None
7	FIGNL1	ENSG00000132436	ENST00000448788	protein_coding	KNOWN	None	13286	105	34	50514881	50518034	-1	None	None
6	RN7SL200P	ENSG00000265123	ENST00000585129	misc_RNA	KNOWN	None	46216	None	None	34653134	34653419	-1	None	None
6	None	ENSG00000220643	ENST00000404133	processed_pseudogene	KNOWN	None	None	None	None	34654379	34654883	1	None	None
11	None	ENSG00000269042	ENST00000596081	protein_coding	NOVEL	None	None	51	16	108130255	108136480	-1	None	None
1	LHX4	ENSG00000121454	ENST00000263726	protein_coding	KNOWN	CCDS1338	21734	1173	390	180199421	180249380	1	None	Gsh4
1	LHX4	ENSG00000121454	ENST00000558139	retained_intron	KNOWN	None	21734	None	None	180199433	180217832	1	None	Gsh4
1	LHX4	ENSG00000121454	ENST00000561113	nonsense_mediated_decay	KNOWN	None	21734	454	150	180217420	180241029	1	None	Gsh4
19	PRDX2	ENSG00000167815	ENST00000334482	protein_coding	PUTATIVE	None	9353	411	136	12907634	12912601	-1	TDPX1	PRP, NKEFB, TSA, PRXII, PRX2, MGC4104
19	PRDX2	ENSG00000167815	ENST00000301522	protein_coding	KNOWN	CCDS12281	9353	597	198	12907634	12912673	-1	TDPX1	PRP, NKEFB, TSA, PRXII, PRX2, MGC4104
19	PRDX2	ENSG00000167815	ENST00000466174	retained_intron	KNOWN	None	9353	None	None	12907637	12912603	-1	TDPX1	PRP, NKEFB, TSA, PRXII, PRX2, MGC4104
19	PRDX2	ENSG00000167815	ENST00000498785	retained_intron	KNOWN	None	9353	None	None	12910370	12911061	-1	TDPX1	PRP, NKEFB, TSA, PRXII, PRX2, MGC4104
19	PRDX2	ENSG00000167815	ENST00000478908	retained_intron	KNOWN	None	9353	None	None	12910676	12911275	-1	TDPX1	PRP, NKEFB, TSA, PRXII, PRX2, MGC4104
19	PRDX2	ENSG00000167815	ENST00000477555	retained_intron	KNOWN	None	9353	None	None	12910730	12912602	-1	TDPX1	PRP, NKEFB, TSA, PRXII, PRX2, MGC4104
19	PRDX2	ENSG00000167815	ENST00000435703	protein_coding	KNOWN	None	9353	429	142	12911427	12912694	-1	TDPX1	PRP, NKEFB, TSA, PRXII, PRX2, MGC4104
12	TWF1	ENSG00000151239	ENST00000552521	protein_coding	PUTATIVE	None	9620	759	252	44187526	44200090	-1	PTK9	A6
12	TWF1	ENSG00000151239	ENST00000395510	protein_coding	KNOWN	CCDS31780	9620	1053	350	44187526	44200178	-1	PTK9	A6
12	TWF1	ENSG00000151239	ENST00000547459	nonsense_mediated_decay	KNOWN	None	9620	360	119	44187528	44200065	-1	PTK9	A6
12	TWF1	ENSG00000151239	ENST00000548315	protein_coding	KNOWN	CCDS55818	9620	1074	357	44189296	44200052	-1	PTK9	A6
12	TWF1	ENSG00000151239	ENST00000551789	retained_intron	KNOWN	None	9620	None	None	44189359	44191654	-1	PTK9	A6
12	TWF1	ENSG00000151239	ENST00000546662	protein_coding	NOVEL	None	9620	874	290	44191105	44200099	-1	PTK9	A6
12	TWF1	ENSG00000151239	ENST00000550371	nonsense_mediated_decay	KNOWN	None	9620	180	59	44193220	44200131	-1	PTK9	A6
12	TWF1	ENSG00000151239	ENST00000548403	protein_coding	NOVEL	None	9620	341	112	44193265	44200103	-1	PTK9	A6
12	TWF1	ENSG00000151239	ENST00000546506	protein_coding	PUTATIVE	None	9620	45	14	44194277	44200119	-1	PTK9	A6
12	TWF1	ENSG00000151239	ENST00000547564	processed_transcript	KNOWN	None	9620	None	None	44196087	44200085	-1	PTK9	A6
12	TWF1	ENSG00000151239	ENST00000547961	retained_intron	KNOWN	None	9620	None	None	44197956	44200058	-1	PTK9	A6
12	TWF1	ENSG00000151239	ENST00000325127	protein_coding	KNOWN	None	9620	1155	384	44187528	44200178	-1	PTK9	A6
13	COL4A2	ENSG00000134871	ENST00000400163	protein_coding	KNOWN	None	2203	315	104	110958159	111077215	1	None	FLJ22259, DKFZp686I14213
13	COL4A2	ENSG00000134871	ENST00000480771	processed_transcript	PUTATIVE	None	2203	None	None	110959614	110980896	1	None	FLJ22259, DKFZp686I14213
13	COL4A2	ENSG00000134871	ENST00000360467	protein_coding	KNOWN	CCDS41907	2203	5139	1712	110959614	111165374	1	None	FLJ22259, DKFZp686I14213
13	COL4A2	ENSG00000134871	ENST00000462309	processed_transcript	PUTATIVE	None	2203	None	None	111082398	111083230	1	None	FLJ22259, DKFZp686I14213
13	COL4A2	ENSG00000134871	ENST00000478681	processed_transcript	PUTATIVE	None	2203	None	None	111114369	111114796	1	None	FLJ22259, DKFZp686I14213
13	COL4A2	ENSG00000134871	ENST00000494852	processed_transcript	PUTATIVE	None	2203	None	None	111121564	111125941	1	None	FLJ22259, DKFZp686I14213
13	COL4A2	ENSG00000134871	ENST00000483683	processed_transcript	KNOWN	None	2203	None	None	111130270	111138007	1	None	FLJ22259, DKFZp686I14213
13	COL4A2	ENSG00000134871	ENST00000480609	processed_transcript	PUTATIVE	None	2203	None	None	111158815	111160677	1	None	FLJ22259, DKFZp686I14213
13	COL4A2	ENSG00000134871	ENST00000463084	processed_transcript	PUTATIVE	None	2203	None	None	111159791	111164480	1	None	FLJ22259, DKFZp686I14213
17	KRT36	ENSG00000126337	ENST00000328119	protein_coding	KNOWN	CCDS11395	6454	1404	467	39642388	39646116	-1	KRTHA6	None
17	KRT36	ENSG00000126337	ENST00000393986	protein_coding	KNOWN	None	6454	1254	417	39642388	39648798	-1	KRTHA6	None
4	None	ENSG00000250708	ENST00000509968	lincRNA	KNOWN	None	None	None	None	174818403	174850582	1	None	None
4	None	ENSG00000250708	ENST00000512263	lincRNA	KNOWN	None	None	None	None	174818424	174850676	1	None	None
22	TSPO	ENSG00000100300	ENST00000337554	protein_coding	KNOWN	CCDS33661	1158	510	169	43547520	43559248	1	BZRP	PBR, MBR, PKBS, mDRC, DBI, IBP, pk18
22	TSPO	ENSG00000100300	ENST00000583777	protein_coding	PUTATIVE	None	1158	198	65	43547553	43559247	1	BZRP	PBR, MBR, PKBS, mDRC, DBI, IBP, pk18
22	TSPO	ENSG00000100300	ENST00000472378	retained_intron	KNOWN	None	1158	None	None	43547579	43555678	1	BZRP	PBR, MBR, PKBS, mDRC, DBI, IBP, pk18
22	TSPO	ENSG00000100300	ENST00000428336	protein_coding	KNOWN	None	1158	321	106	43547905	43557196	1	BZRP	PBR, MBR, PKBS, mDRC, DBI, IBP, pk18
22	TSPO	ENSG00000100300	ENST00000329563	protein_coding	KNOWN	CCDS33661	1158	510	169	43547937	43559216	1	BZRP	PBR, MBR, PKBS, mDRC, DBI, IBP, pk18
22	TSPO	ENSG00000100300	ENST00000396265	protein_coding	KNOWN	None	1158	309	102	43547535	43559247	1	BZRP	PBR, MBR, PKBS, mDRC, DBI, IBP, pk18
1	SMPDL3B	ENSG00000130768	ENST00000373894	protein_coding	KNOWN	CCDS30655	21416	1368	455	28261504	28285668	1	None	ASML3B
1	SMPDL3B	ENSG00000130768	ENST00000548116	nonsense_mediated_decay	KNOWN	None	21416	309	102	28261540	28285668	1	None	ASML3B
1	SMPDL3B	ENSG00000130768	ENST00000411604	protein_coding	NOVEL	None	21416	808	268	28261550	28282222	1	None	ASML3B
1	SMPDL3B	ENSG00000130768	ENST00000373888	protein_coding	KNOWN	CCDS30656	21416	1122	373	28261550	28282991	1	None	ASML3B
1	SMPDL3B	ENSG00000130768	ENST00000466793	processed_transcript	KNOWN	None	21416	None	None	28261567	28271956	1	None	ASML3B
1	SMPDL3B	ENSG00000130768	ENST00000549094	protein_coding	NOVEL	None	21416	1224	407	28261621	28285662	1	None	ASML3B
16	SEPT12	ENSG00000140623	ENST00000588241	nonsense_mediated_decay	KNOWN	None	26348	55	17	4827670	4835837	-1	None	FLJ25410
16	SEPT12	ENSG00000140623	ENST00000396693	protein_coding	KNOWN	CCDS53987	26348	939	312	4827670	4838347	-1	None	FLJ25410
16	SEPT12	ENSG00000140623	ENST00000268231	protein_coding	KNOWN	CCDS10522	26348	1077	358	4827670	4838522	-1	None	FLJ25410
16	SEPT12	ENSG00000140623	ENST00000587603	nonsense_mediated_decay	KNOWN	None	26348	837	278	4827674	4838348	-1	None	FLJ25410
16	SEPT12	ENSG00000140623	ENST00000590741	nonsense_mediated_decay	KNOWN	None	26348	174	57	4833932	4838353	-1	None	FLJ25410
16	SEPT12	ENSG00000140623	ENST00000591861	processed_transcript	KNOWN	None	26348	None	None	4834240	4838399	-1	None	FLJ25410
16	SEPT12	ENSG00000140623	ENST00000590303	retained_intron	KNOWN	None	26348	None	None	4835710	4838349	-1	None	FLJ25410
16	SEPT12	ENSG00000140623	ENST00000591624	protein_coding	KNOWN	None	26348	194	63	4836079	4838255	-1	None	FLJ25410
11	C11orf65	ENSG00000166323	ENST00000525729	protein_coding	PUTATIVE	None	28519	741	246	108179246	108338258	-1	None	MGC33948
11	C11orf65	ENSG00000166323	ENST00000527531	nonsense_mediated_decay	KNOWN	CCDS8340	28519	942	313	108201926	108333368	-1	None	MGC33948
11	C11orf65	ENSG00000166323	ENST00000524755	protein_coding	PUTATIVE	None	28519	317	104	108202138	108276210	-1	None	MGC33948
11	C11orf65	ENSG00000166323	ENST00000526725	processed_transcript	PUTATIVE	None	28519	None	None	108210886	108276255	-1	None	MGC33948
11	C11orf65	ENSG00000166323	ENST00000529391	protein_coding	KNOWN	CCDS8340	28519	942	313	108253727	108332296	-1	None	MGC33948
11	C11orf65	ENSG00000166323	ENST00000533583	protein_coding	NOVEL	None	28519	572	189	108264040	108332296	-1	None	MGC33948
11	C11orf65	ENSG00000166323	ENST00000393084	protein_coding	KNOWN	CCDS8340	28519	942	313	108253727	108338258	-1	None	MGC33948
6	PLAGL1	ENSG00000118495	ENST00000360537	protein_coding	KNOWN	CCDS5202	9046	1392	463	144261437	144290115	-1	None	ZAC, LOT1
6	PLAGL1	ENSG00000118495	ENST00000354765	protein_coding	KNOWN	CCDS5202	9046	1392	463	144261439	144306311	-1	None	ZAC, LOT1
6	PLAGL1	ENSG00000118495	ENST00000367572	protein_coding	KNOWN	CCDS5203	9046	1236	411	144261475	144286005	-1	None	ZAC, LOT1
6	PLAGL1	ENSG00000118495	ENST00000367571	protein_coding	KNOWN	CCDS5202	9046	1392	463	144262421	144282549	-1	None	ZAC, LOT1
6	PLAGL1	ENSG00000118495	ENST00000417959	protein_coding	KNOWN	None	9046	528	175	144263269	144329367	-1	None	ZAC, LOT1
6	PLAGL1	ENSG00000118495	ENST00000493898	processed_transcript	KNOWN	None	9046	None	None	144289746	144385677	-1	None	ZAC, LOT1
6	PLAGL1	ENSG00000118495	ENST00000444202	protein_coding	KNOWN	CCDS5202	9046	1392	463	144261439	144385735	-1	None	ZAC, LOT1
6	PLAGL1	ENSG00000118495	ENST00000429150	protein_coding	KNOWN	CCDS5202	9046	1392	463	144261439	144329541	-1	None	ZAC, LOT1
6	PLAGL1	ENSG00000118495	ENST00000392309	protein_coding	KNOWN	CCDS5202	9046	1392	463	144261439	144329541	-1	None	ZAC, LOT1
6	PLAGL1	ENSG00000118495	ENST00000416623	protein_coding	KNOWN	CCDS5202	9046	1392	463	144261439	144329541	-1	None	ZAC, LOT1
6	PLAGL1	ENSG00000118495	ENST00000437412	protein_coding	KNOWN	CCDS5203	9046	1236	411	144261439	144385735	-1	None	ZAC, LOT1
6	PLAGL1	ENSG00000118495	ENST00000392307	protein_coding	KNOWN	CCDS5203	9046	1236	411	144261439	144329541	-1	None	ZAC, LOT1
9	None	ENSG00000213529	ENST00000448036	processed_pseudogene	KNOWN	None	None	None	None	115124994	115125396	1	None	None
21	UMODL1	ENSG00000177398	ENST00000400427	protein_coding	KNOWN	CCDS56215	12560	4125	1374	43483068	43563105	1	None	None
21	UMODL1	ENSG00000177398	ENST00000400424	protein_coding	KNOWN	CCDS56214	12560	3741	1246	43483068	43563105	1	None	None
21	UMODL1	ENSG00000177398	ENST00000408989	protein_coding	KNOWN	CCDS42935	12560	4341	1446	43491426	43563105	1	None	None
21	UMODL1	ENSG00000177398	ENST00000408910	protein_coding	KNOWN	CCDS42936	12560	3957	1318	43491426	43563105	1	None	None
21	UMODL1	ENSG00000177398	ENST00000491559	nonsense_mediated_decay	KNOWN	None	12560	416	137	43505413	43524167	1	None	None
21	UMODL1	ENSG00000177398	ENST00000468982	nonsense_mediated_decay	KNOWN	None	12560	329	108	43505413	43524167	1	None	None
21	UMODL1	ENSG00000177398	ENST00000497243	nonsense_mediated_decay	KNOWN	None	12560	341	112	43505413	43524167	1	None	None
21	UMODL1	ENSG00000177398	ENST00000400421	nonsense_mediated_decay	KNOWN	None	12560	728	241	43505413	43524167	1	None	None
21	UMODL1	ENSG00000177398	ENST00000466434	nonsense_mediated_decay	KNOWN	None	12560	524	173	43505413	43524167	1	None	None
21	UMODL1	ENSG00000177398	ENST00000485357	nonsense_mediated_decay	KNOWN	None	12560	236	77	43505413	43524167	1	None	None
21	UMODL1	ENSG00000177398	ENST00000475047	processed_transcript	KNOWN	None	12560	None	None	43531507	43536044	1	None	None
21	UMODL1	ENSG00000177398	ENST00000484174	processed_transcript	KNOWN	None	12560	None	None	43540629	43546506	1	None	None
21	UMODL1	ENSG00000177398	ENST00000400423	processed_transcript	KNOWN	None	12560	None	None	43540629	43563105	1	None	None
21	UMODL1	ENSG00000177398	ENST00000484712	processed_transcript	KNOWN	None	12560	None	None	43547788	43557741	1	None	None
4	None	ENSG00000249145	ENST00000509453	lincRNA	KNOWN	None	None	None	None	8321903	8325590	1	None	None
9	None	ENSG00000250068	ENST00000502685	unprocessed_pseudogene	KNOWN	None	None	None	None	115344059	115344870	-1	None	None
6	None	ENSG00000238484	ENST00000459226	snoRNA	NOVEL	None	None	None	None	34660557	34660660	1	None	None
9	None	ENSG00000226609	ENST00000440009	antisense	KNOWN	None	None	None	None	115511182	115512736	-1	None	None
6	None	ENSG00000272288	ENST00000606971	antisense	KNOWN	None	None	None	None	34664094	34665247	1	None	None
6	None	ENSG00000272288	ENST00000606496	antisense	KNOWN	None	None	None	None	34664722	34665247	1	None	None
3	LHFPL4	ENSG00000156959	ENST00000287585	protein_coding	KNOWN	CCDS33691	29568	744	247	9543481	9595486	-1	None	None
3	LHFPL4	ENSG00000156959	ENST00000495730	processed_transcript	KNOWN	None	29568	None	None	9592296	9593991	-1	None	None
3	LHFPL4	ENSG00000156959	ENST00000498277	processed_transcript	KNOWN	None	29568	None	None	9594256	9595479	-1	None	None
2	KYNU	ENSG00000115919	ENST00000264170	protein_coding	KNOWN	CCDS2183	6469	1398	465	143635067	143799890	1	None	None
2	KYNU	ENSG00000115919	ENST00000375773	protein_coding	KNOWN	CCDS33299	6469	924	307	143635226	143747106	1	None	None
2	KYNU	ENSG00000115919	ENST00000409512	protein_coding	KNOWN	CCDS2183	6469	1398	465	143635233	143799741	1	None	None
2	KYNU	ENSG00000115919	ENST00000410015	protein_coding	PUTATIVE	None	6469	447	148	143635235	143704990	1	None	None
2	KYNU	ENSG00000115919	ENST00000424385	nonsense_mediated_decay	KNOWN	None	6469	231	76	143635253	143712440	1	None	None
2	KYNU	ENSG00000115919	ENST00000460143	retained_intron	KNOWN	None	6469	None	None	143676248	143715644	1	None	None
9	None	ENSG00000271631	ENST00000605480	antisense	KNOWN	None	None	None	None	115647438	115648047	1	None	None
10	A1CF	ENSG00000148584	ENST00000373993	protein_coding	KNOWN	CCDS7242	24086	1785	594	52566322	52619745	-1	None	ACF, ASP, ACF64, ACF65, APOBEC1CF
10	A1CF	ENSG00000148584	ENST00000374001	protein_coding	KNOWN	CCDS7241	24086	1761	586	52566322	52645435	-1	None	ACF, ASP, ACF64, ACF65, APOBEC1CF
10	A1CF	ENSG00000148584	ENST00000373997	protein_coding	KNOWN	CCDS7241	24086	1761	586	52566322	52645435	-1	None	ACF, ASP, ACF64, ACF65, APOBEC1CF
10	A1CF	ENSG00000148584	ENST00000373995	protein_coding	KNOWN	CCDS7243	24086	1785	594	52566322	52645435	-1	None	ACF, ASP, ACF64, ACF65, APOBEC1CF
10	A1CF	ENSG00000148584	ENST00000493415	processed_transcript	KNOWN	None	24086	None	None	52570804	52588221	-1	None	ACF, ASP, ACF64, ACF65, APOBEC1CF
10	A1CF	ENSG00000148584	ENST00000473480	processed_transcript	KNOWN	None	24086	None	None	52587891	52645435	-1	None	ACF, ASP, ACF64, ACF65, APOBEC1CF
10	A1CF	ENSG00000148584	ENST00000414883	protein_coding	KNOWN	None	24086	604	200	52595834	52645435	-1	None	ACF, ASP, ACF64, ACF65, APOBEC1CF
10	A1CF	ENSG00000148584	ENST00000282641	protein_coding	KNOWN	CCDS7242	24086	1785	594	52566327	52645435	-1	None	ACF, ASP, ACF64, ACF65, APOBEC1CF
10	A1CF	ENSG00000148584	ENST00000395495	protein_coding	KNOWN	None	24086	1620	539	52566327	52645435	-1	None	ACF, ASP, ACF64, ACF65, APOBEC1CF
10	A1CF	ENSG00000148584	ENST00000395489	protein_coding	KNOWN	None	24086	1764	587	52566420	52645387	-1	None	ACF, ASP, ACF64, ACF65, APOBEC1CF
1	ACBD6	ENSG00000135847	ENST00000496993	processed_transcript	KNOWN	None	23339	None	None	180244515	180399397	-1	None	MGC2404
1	ACBD6	ENSG00000135847	ENST00000475338	processed_transcript	KNOWN	None	23339	None	None	180256118	180382523	-1	None	MGC2404
1	ACBD6	ENSG00000135847	ENST00000367595	protein_coding	KNOWN	CCDS1339	23339	849	282	180257365	180472089	-1	None	MGC2404
16	GDPD3	ENSG00000102886	ENST00000565704	retained_intron	KNOWN	None	28638	None	None	30116131	30119819	-1	None	MGC4171
16	GDPD3	ENSG00000102886	ENST00000360688	retained_intron	KNOWN	None	28638	None	None	30116131	30124858	-1	None	MGC4171
16	GDPD3	ENSG00000102886	ENST00000406256	protein_coding	KNOWN	CCDS10671	28638	957	318	30116131	30125177	-1	None	MGC4171
16	GDPD3	ENSG00000102886	ENST00000566434	nonsense_mediated_decay	KNOWN	None	28638	127	41	30116136	30122711	-1	None	MGC4171
16	GDPD3	ENSG00000102886	ENST00000566613	protein_coding	PUTATIVE	None	28638	142	46	30116165	30122717	-1	None	MGC4171
4	None	ENSG00000249307	ENST00000510667	antisense	KNOWN	None	None	None	None	79892902	80229626	1	None	None
4	None	ENSG00000249307	ENST00000509088	antisense	KNOWN	None	None	None	None	79892902	80229698	1	None	None
4	None	ENSG00000249307	ENST00000513153	antisense	KNOWN	None	None	None	None	80006393	80229807	1	None	None
4	None	ENSG00000249307	ENST00000515597	antisense	KNOWN	None	None	None	None	80116988	80220719	1	None	None
4	None	ENSG00000249307	ENST00000507761	antisense	KNOWN	None	None	None	None	80116990	80149110	1	None	None
4	None	ENSG00000249307	ENST00000507476	antisense	KNOWN	None	None	None	None	80116991	80229909	1	None	None
4	None	ENSG00000249307	ENST00000512130	antisense	KNOWN	None	None	None	None	80118695	80229809	1	None	None
4	None	ENSG00000249307	ENST00000437737	antisense	KNOWN	None	None	None	None	80132835	80166686	1	None	None
4	None	ENSG00000249307	ENST00000511895	antisense	KNOWN	None	None	None	None	80132839	80149040	1	None	None
4	None	ENSG00000249307	ENST00000511241	antisense	KNOWN	None	None	None	None	80179935	80229808	1	None	None
4	None	ENSG00000249307	ENST00000505149	antisense	KNOWN	None	None	None	None	80226277	80229952	1	None	None
9	None	ENSG00000237906	ENST00000438111	unitary_pseudogene	KNOWN	None	None	None	None	115721414	115724541	-1	None	None
2	FSHR	ENSG00000170820	ENST00000406846	protein_coding	KNOWN	CCDS1843	3969	2088	695	49189296	49381676	-1	ODG1	FSHRO, LGR1
2	FSHR	ENSG00000170820	ENST00000304421	protein_coding	KNOWN	CCDS1844	3969	2010	669	49189770	49381620	-1	ODG1	FSHRO, LGR1
2	FSHR	ENSG00000170820	ENST00000454032	protein_coding	PUTATIVE	None	3969	835	277	49190939	49381572	-1	ODG1	FSHRO, LGR1
2	FSHR	ENSG00000170820	ENST00000469138	processed_transcript	KNOWN	None	3969	None	None	49195904	49224452	-1	ODG1	FSHRO, LGR1
2	FSHR	ENSG00000170820	ENST00000419927	nonsense_mediated_decay	KNOWN	None	3969	459	152	49210255	49381666	-1	ODG1	FSHRO, LGR1
2	FSHR	ENSG00000170820	ENST00000346173	protein_coding	KNOWN	None	3969	1902	633	49189296	49381666	-1	ODG1	FSHRO, LGR1
2	FSHR	ENSG00000170820	ENST00000541117	protein_coding	KNOWN	None	3969	1296	431	49189854	49224452	-1	ODG1	FSHRO, LGR1
15	NUSAP1	ENSG00000137804	ENST00000558123	processed_transcript	KNOWN	None	18538	None	None	41624892	41672945	1	None	FLJ13421, LNP, ANKT, NuSAP1, SAPL, BM037, PRO0310p1, Q0310
15	NUSAP1	ENSG00000137804	ENST00000260359	protein_coding	NOVEL	CCDS58357	18538	1281	426	41624892	41673248	1	None	FLJ13421, LNP, ANKT, NuSAP1, SAPL, BM037, PRO0310p1, Q0310
15	NUSAP1	ENSG00000137804	ENST00000559046	nonsense_mediated_decay	KNOWN	None	18538	231	76	41625053	41643284	1	None	FLJ13421, LNP, ANKT, NuSAP1, SAPL, BM037, PRO0310p1, Q0310
15	NUSAP1	ENSG00000137804	ENST00000450592	protein_coding	NOVEL	CCDS58358	18538	1137	378	41625069	41672461	1	None	FLJ13421, LNP, ANKT, NuSAP1, SAPL, BM037, PRO0310p1, Q0310
15	NUSAP1	ENSG00000137804	ENST00000559596	protein_coding	KNOWN	CCDS45234	18538	1326	441	41625069	41672600	1	None	FLJ13421, LNP, ANKT, NuSAP1, SAPL, BM037, PRO0310p1, Q0310
15	NUSAP1	ENSG00000137804	ENST00000414849	protein_coding	KNOWN	CCDS45236	18538	1323	440	41625069	41673248	1	None	FLJ13421, LNP, ANKT, NuSAP1, SAPL, BM037, PRO0310p1, Q0310
15	NUSAP1	ENSG00000137804	ENST00000558582	processed_transcript	KNOWN	None	18538	None	None	41625081	41644184	1	None	FLJ13421, LNP, ANKT, NuSAP1, SAPL, BM037, PRO0310p1, Q0310
15	NUSAP1	ENSG00000137804	ENST00000560747	protein_coding	KNOWN	CCDS58356	18538	1320	439	41625084	41673248	1	None	FLJ13421, LNP, ANKT, NuSAP1, SAPL, BM037, PRO0310p1, Q0310
15	NUSAP1	ENSG00000137804	ENST00000559659	retained_intron	KNOWN	None	18538	None	None	41625097	41641603	1	None	FLJ13421, LNP, ANKT, NuSAP1, SAPL, BM037, PRO0310p1, Q0310
15	NUSAP1	ENSG00000137804	ENST00000560177	protein_coding	KNOWN	None	18538	1323	440	41625111	41673248	1	None	FLJ13421, LNP, ANKT, NuSAP1, SAPL, BM037, PRO0310p1, Q0310
15	NUSAP1	ENSG00000137804	ENST00000557840	nonsense_mediated_decay	KNOWN	None	18538	206	67	41634594	41667949	1	None	FLJ13421, LNP, ANKT, NuSAP1, SAPL, BM037, PRO0310p1, Q0310
15	NUSAP1	ENSG00000137804	ENST00000560898	nonsense_mediated_decay	KNOWN	None	18538	435	144	41643300	41669470	1	None	FLJ13421, LNP, ANKT, NuSAP1, SAPL, BM037, PRO0310p1, Q0310
15	NUSAP1	ENSG00000137804	ENST00000560318	retained_intron	KNOWN	None	18538	None	None	41657945	41669486	1	None	FLJ13421, LNP, ANKT, NuSAP1, SAPL, BM037, PRO0310p1, Q0310
15	NUSAP1	ENSG00000137804	ENST00000450318	protein_coding	KNOWN	None	18538	1209	402	41624926	41673245	1	None	FLJ13421, LNP, ANKT, NuSAP1, SAPL, BM037, PRO0310p1, Q0310
6	None	ENSG00000186328	ENST00000334441	processed_pseudogene	KNOWN	None	None	None	None	34683390	34683717	1	None	None
6	BTBD9	ENSG00000183826	ENST00000314100	protein_coding	KNOWN	CCDS43458	21228	1635	544	38136227	38563843	-1	None	KIAA1880, dJ322I12.1
6	BTBD9	ENSG00000183826	ENST00000481247	protein_coding	KNOWN	CCDS47418	21228	1839	612	38136227	38607700	-1	None	KIAA1880, dJ322I12.1
6	BTBD9	ENSG00000183826	ENST00000419706	protein_coding	PUTATIVE	CCDS54998	21228	1749	582	38142735	38563764	-1	None	KIAA1880, dJ322I12.1
6	BTBD9	ENSG00000183826	ENST00000328403	nonsense_mediated_decay	KNOWN	None	21228	957	318	38142735	38563764	-1	None	KIAA1880, dJ322I12.1
6	BTBD9	ENSG00000183826	ENST00000497373	protein_coding	NOVEL	None	21228	345	114	38561740	38607924	-1	None	KIAA1880, dJ322I12.1
6	BTBD9	ENSG00000183826	ENST00000498633	protein_coding	KNOWN	None	21228	277	91	38562012	38607644	-1	None	KIAA1880, dJ322I12.1
6	BTBD9	ENSG00000183826	ENST00000403056	protein_coding	KNOWN	CCDS47418	21228	1839	612	38142761	38565870	-1	None	KIAA1880, dJ322I12.1
6	BTBD9	ENSG00000183826	ENST00000408958	protein_coding	KNOWN	CCDS43458	21228	1635	544	38142761	38562084	-1	None	KIAA1880, dJ322I12.1
12	SCNN1A	ENSG00000111319	ENST00000360168	protein_coding	NOVEL	CCDS53738	10599	2187	728	6456009	6484390	-1	SCNN1	ENaCalpha
12	SCNN1A	ENSG00000111319	ENST00000540037	protein_coding	NOVEL	None	10599	1110	369	6456013	6473313	-1	SCNN1	ENaCalpha
12	SCNN1A	ENSG00000111319	ENST00000228916	protein_coding	KNOWN	CCDS8543	10599	2010	669	6456013	6484715	-1	SCNN1	ENaCalpha
12	SCNN1A	ENSG00000111319	ENST00000396966	protein_coding	NOVEL	None	10599	1536	511	6456675	6483969	-1	SCNN1	ENaCalpha
12	SCNN1A	ENSG00000111319	ENST00000338748	nonsense_mediated_decay	KNOWN	None	10599	738	245	6456675	6483969	-1	SCNN1	ENaCalpha
12	SCNN1A	ENSG00000111319	ENST00000543768	protein_coding	NOVEL	CCDS53739	10599	2079	692	6456850	6486525	-1	SCNN1	ENaCalpha
12	SCNN1A	ENSG00000111319	ENST00000539953	processed_transcript	PUTATIVE	None	10599	None	None	6457249	6458269	-1	SCNN1	ENaCalpha
12	SCNN1A	ENSG00000111319	ENST00000457871	processed_transcript	KNOWN	None	10599	None	None	6458116	6463715	-1	SCNN1	ENaCalpha
12	SCNN1A	ENSG00000111319	ENST00000366131	processed_transcript	KNOWN	None	10599	None	None	6462883	6464602	-1	SCNN1	ENaCalpha
12	SCNN1A	ENSG00000111319	ENST00000539030	processed_transcript	PUTATIVE	None	10599	None	None	6463571	6464502	-1	SCNN1	ENaCalpha
12	SCNN1A	ENSG00000111319	ENST00000538979	processed_transcript	KNOWN	None	10599	None	None	6463602	6484600	-1	SCNN1	ENaCalpha
12	SCNN1A	ENSG00000111319	ENST00000541249	processed_transcript	KNOWN	None	10599	None	None	6463916	6471338	-1	SCNN1	ENaCalpha
12	SCNN1A	ENSG00000111319	ENST00000542966	processed_transcript	KNOWN	None	10599	None	None	6464503	6472791	-1	SCNN1	ENaCalpha
12	SCNN1A	ENSG00000111319	ENST00000536087	processed_transcript	PUTATIVE	None	10599	None	None	6464558	6465459	-1	SCNN1	ENaCalpha
12	SCNN1A	ENSG00000111319	ENST00000544882	processed_transcript	PUTATIVE	None	10599	None	None	6472712	6484729	-1	SCNN1	ENaCalpha
12	SCNN1A	ENSG00000111319	ENST00000536176	processed_transcript	PUTATIVE	None	10599	None	None	6472799	6484545	-1	SCNN1	ENaCalpha
12	SCNN1A	ENSG00000111319	ENST00000543585	processed_transcript	PUTATIVE	None	10599	None	None	6483532	6484384	-1	SCNN1	ENaCalpha
12	SCNN1A	ENSG00000111319	ENST00000536788	protein_coding	PUTATIVE	None	10599	478	158	6483535	6486896	-1	SCNN1	ENaCalpha
12	SCNN1A	ENSG00000111319	ENST00000542260	processed_transcript	PUTATIVE	None	10599	None	None	6483614	6484729	-1	SCNN1	ENaCalpha
12	SCNN1A	ENSG00000111319	ENST00000542436	processed_transcript	PUTATIVE	None	10599	None	None	6483632	6484379	-1	SCNN1	ENaCalpha
12	SCNN1A	ENSG00000111319	ENST00000538957	processed_transcript	PUTATIVE	None	10599	None	None	6483656	6486854	-1	SCNN1	ENaCalpha
12	SCNN1A	ENSG00000111319	ENST00000545605	processed_transcript	KNOWN	None	10599	None	None	6483792	6486856	-1	SCNN1	ENaCalpha
12	SCNN1A	ENSG00000111319	ENST00000536411	processed_transcript	PUTATIVE	None	10599	None	None	6483935	6485194	-1	SCNN1	ENaCalpha
12	SCNN1A	ENSG00000111319	ENST00000358945	protein_coding	KNOWN	None	10599	2076	691	6456011	6484390	-1	SCNN1	ENaCalpha
6	None	ENSG00000217130	ENST00000408001	processed_pseudogene	KNOWN	None	None	None	None	34711953	34712450	1	None	None
5	None	ENSG00000250158	ENST00000513926	lincRNA	KNOWN	None	None	None	None	95583480	95614455	1	None	None
12	SMUG1	ENSG00000123415	ENST00000509864	nonsense_mediated_decay	KNOWN	None	17148	431	142	54558529	54577717	-1	None	UNG3, FDG, HMUDG
12	SMUG1	ENSG00000123415	ENST00000508394	protein_coding	KNOWN	CCDS8874	17148	813	270	54575059	54582778	-1	None	UNG3, FDG, HMUDG
12	SMUG1	ENSG00000123415	ENST00000511854	retained_intron	KNOWN	None	17148	None	None	54575237	54576543	-1	None	UNG3, FDG, HMUDG
12	SMUG1	ENSG00000123415	ENST00000506595	protein_coding	KNOWN	CCDS58239	17148	534	177	54575237	54582391	-1	None	UNG3, FDG, HMUDG
12	SMUG1	ENSG00000123415	ENST00000514685	protein_coding	KNOWN	CCDS58239	17148	534	177	54575237	54582724	-1	None	UNG3, FDG, HMUDG
12	SMUG1	ENSG00000123415	ENST00000505128	protein_coding	NOVEL	None	17148	381	126	54575241	54582756	-1	None	UNG3, FDG, HMUDG
12	SMUG1	ENSG00000123415	ENST00000337581	protein_coding	KNOWN	CCDS8874	17148	813	270	54575252	54582758	-1	None	UNG3, FDG, HMUDG
12	SMUG1	ENSG00000123415	ENST00000513838	protein_coding	KNOWN	CCDS58239	17148	534	177	54575255	54582741	-1	None	UNG3, FDG, HMUDG
12	SMUG1	ENSG00000123415	ENST00000243112	protein_coding	KNOWN	CCDS58239	17148	534	177	54575255	54582760	-1	None	UNG3, FDG, HMUDG
12	SMUG1	ENSG00000123415	ENST00000505662	processed_transcript	KNOWN	None	17148	None	None	54575269	54581690	-1	None	UNG3, FDG, HMUDG
12	SMUG1	ENSG00000123415	ENST00000401977	protein_coding	KNOWN	CCDS8874	17148	813	270	54575738	54582406	-1	None	UNG3, FDG, HMUDG
12	SMUG1	ENSG00000123415	ENST00000514196	protein_coding	PUTATIVE	None	17148	480	159	54575856	54582764	-1	None	UNG3, FDG, HMUDG
12	SMUG1	ENSG00000123415	ENST00000511522	retained_intron	KNOWN	None	17148	None	None	54575882	54582769	-1	None	UNG3, FDG, HMUDG
12	SMUG1	ENSG00000123415	ENST00000504338	protein_coding	KNOWN	None	17148	517	171	54576176	54582655	-1	None	UNG3, FDG, HMUDG
12	SMUG1	ENSG00000123415	ENST00000509078	retained_intron	KNOWN	None	17148	None	None	54576342	54578080	-1	None	UNG3, FDG, HMUDG
12	SMUG1	ENSG00000123415	ENST00000507904	protein_coding	KNOWN	None	17148	324	107	54576369	54582774	-1	None	UNG3, FDG, HMUDG
12	SMUG1	ENSG00000123415	ENST00000503447	retained_intron	KNOWN	None	17148	None	None	54577201	54582776	-1	None	UNG3, FDG, HMUDG
12	SMUG1	ENSG00000123415	ENST00000504797	protein_coding	KNOWN	None	17148	287	94	54577438	54582730	-1	None	UNG3, FDG, HMUDG
12	SMUG1	ENSG00000123415	ENST00000506169	protein_coding	KNOWN	None	17148	271	89	54577454	54582769	-1	None	UNG3, FDG, HMUDG
12	SMUG1	ENSG00000123415	ENST00000503306	protein_coding	KNOWN	None	17148	246	81	54577479	54582758	-1	None	UNG3, FDG, HMUDG
12	SMUG1	ENSG00000123415	ENST00000505597	processed_transcript	PUTATIVE	None	17148	None	None	54580767	54582741	-1	None	UNG3, FDG, HMUDG
12	SMUG1	ENSG00000123415	ENST00000503231	processed_transcript	PUTATIVE	None	17148	None	None	54580998	54582741	-1	None	UNG3, FDG, HMUDG
4	None	ENSG00000248986	ENST00000503186	lincRNA	KNOWN	None	None	None	None	8322006	8325692	1	None	None
6	None	ENSG00000206717	ENST00000383990	misc_RNA	NOVEL	None	None	None	None	34789222	34789319	1	None	None
1	CASP9	ENSG00000132906	ENST00000546424	protein_coding	PUTATIVE	None	1511	1266	421	15817327	15850940	-1	None	MCH6, ICE-LAP6, APAF-3, PPP1R56
1	CASP9	ENSG00000132906	ENST00000333868	protein_coding	KNOWN	CCDS158	1511	1251	416	15818765	15850790	-1	None	MCH6, ICE-LAP6, APAF-3, PPP1R56
1	CASP9	ENSG00000132906	ENST00000348549	protein_coding	KNOWN	None	1511	801	266	15818765	15850842	-1	None	MCH6, ICE-LAP6, APAF-3, PPP1R56
1	CASP9	ENSG00000132906	ENST00000400777	nonsense_mediated_decay	KNOWN	None	1511	457	151	15818861	15850687	-1	None	MCH6, ICE-LAP6, APAF-3, PPP1R56
1	CASP9	ENSG00000132906	ENST00000424908	protein_coding	NOVEL	None	1511	595	197	15819293	15833547	-1	None	MCH6, ICE-LAP6, APAF-3, PPP1R56
1	CASP9	ENSG00000132906	ENST00000375890	protein_coding	KNOWN	CCDS159	1511	1002	333	15819350	15851221	-1	None	MCH6, ICE-LAP6, APAF-3, PPP1R56
1	CASP9	ENSG00000132906	ENST00000474305	nonsense_mediated_decay	KNOWN	None	1511	288	95	15819438	15850695	-1	None	MCH6, ICE-LAP6, APAF-3, PPP1R56
1	CASP9	ENSG00000132906	ENST00000447522	protein_coding	KNOWN	None	1511	799	265	15821768	15851384	-1	None	MCH6, ICE-LAP6, APAF-3, PPP1R56
1	CASP9	ENSG00000132906	ENST00000440484	protein_coding	NOVEL	None	1511	764	253	15831120	15850712	-1	None	MCH6, ICE-LAP6, APAF-3, PPP1R56
1	CASP9	ENSG00000132906	ENST00000546969	retained_intron	KNOWN	None	1511	None	None	15834267	15850710	-1	None	MCH6, ICE-LAP6, APAF-3, PPP1R56
1	CASP9	ENSG00000132906	ENST00000469637	processed_transcript	KNOWN	None	1511	None	None	15844631	15853029	-1	None	MCH6, ICE-LAP6, APAF-3, PPP1R56
5	None	ENSG00000238518	ENST00000459177	miRNA	NOVEL	None	None	None	None	95925896	95925980	-1	None	None
5	None	ENSG00000264129	ENST00000580431	miRNA	NOVEL	None	None	None	None	96030235	96030335	1	None	None
5	None	ENSG00000249180	ENST00000502568	antisense	KNOWN	None	None	None	None	96076783	96078402	-1	None	None
3	PRR23B	ENSG00000184814	ENST00000329447	protein_coding	KNOWN	CCDS33868	33764	798	265	138737873	138739768	-1	None	FLJ46116
6	None	ENSG00000187762	ENST00000339579	processed_pseudogene	KNOWN	None	None	None	None	34991299	34991608	1	None	None
9	ZBTB34	ENSG00000177125	ENST00000319119	protein_coding	KNOWN	None	31446	1515	504	129622944	129648157	1	None	KIAA1993, MGC24652, ZNF918
9	ZBTB34	ENSG00000177125	ENST00000373452	protein_coding	KNOWN	CCDS48023	31446	1503	500	129641627	129648154	1	None	KIAA1993, MGC24652, ZNF918
HSCHR6_MHC_APD	OR2N1P	ENSG00000229040	ENST00000427384	unprocessed_pseudogene	KNOWN	None	8271	None	None	29105693	29106629	-1	None	OR6-7
HSCHR6_MHC_APD	None	ENSG00000226799	ENST00000455018	processed_transcript	KNOWN	None	None	None	None	29234762	29234916	1	None	None
16	RFWD3	ENSG00000168411	ENST00000361070	protein_coding	KNOWN	CCDS32486	25539	2325	774	74655292	74700779	-1	None	FLJ10520, RNF201
16	RFWD3	ENSG00000168411	ENST00000571750	protein_coding	KNOWN	CCDS32486	25539	2325	774	74657327	74700768	-1	None	FLJ10520, RNF201
16	RFWD3	ENSG00000168411	ENST00000575154	retained_intron	KNOWN	None	25539	None	None	74662406	74666631	-1	None	FLJ10520, RNF201
16	RFWD3	ENSG00000168411	ENST00000575281	retained_intron	KNOWN	None	25539	None	None	74671774	74683141	-1	None	FLJ10520, RNF201
16	RFWD3	ENSG00000168411	ENST00000572610	retained_intron	KNOWN	None	25539	None	None	74677877	74678535	-1	None	FLJ10520, RNF201
16	RFWD3	ENSG00000168411	ENST00000572337	protein_coding	PUTATIVE	None	25539	74	23	74678518	74700757	-1	None	FLJ10520, RNF201
16	RFWD3	ENSG00000168411	ENST00000571776	retained_intron	KNOWN	None	25539	None	None	74694498	74700767	-1	None	FLJ10520, RNF201
16	RFWD3	ENSG00000168411	ENST00000575397	retained_intron	KNOWN	None	25539	None	None	74694678	74700730	-1	None	FLJ10520, RNF201
16	RFWD3	ENSG00000168411	ENST00000572990	protein_coding	KNOWN	None	25539	452	149	74694896	74700772	-1	None	FLJ10520, RNF201
16	RFWD3	ENSG00000168411	ENST00000576652	protein_coding	KNOWN	None	25539	368	121	74694980	74700737	-1	None	FLJ10520, RNF201
16	RFWD3	ENSG00000168411	ENST00000575113	protein_coding	KNOWN	None	25539	349	115	74694999	74700435	-1	None	FLJ10520, RNF201
16	RFWD3	ENSG00000168411	ENST00000572840	retained_intron	KNOWN	None	25539	None	None	74698233	74700730	-1	None	FLJ10520, RNF201
HSCHR6_MHC_APD	OR2U2P	ENSG00000230754	ENST00000430753	unprocessed_pseudogene	KNOWN	None	8279	None	None	29236293	29237252	-1	None	hs6M1-23
HSCHR6_MHC_APD	OR2B4P	ENSG00000237690	ENST00000426168	unprocessed_pseudogene	KNOWN	None	8239	None	None	29258560	29259502	1	None	hs6M1-22
19	None	ENSG00000176593	ENST00000550135	protein_coding	PUTATIVE	None	None	1155	384	58513429	58522600	1	None	None
19	None	ENSG00000176593	ENST00000546949	protein_coding	PUTATIVE	None	None	322	106	58514258	58517777	1	None	None
19	None	ENSG00000176593	ENST00000313957	nonsense_mediated_decay	KNOWN	None	None	318	105	58514262	58518574	1	None	None
19	None	ENSG00000176593	ENST00000546956	retained_intron	KNOWN	None	None	None	None	58514270	58515529	1	None	None
19	None	ENSG00000176593	ENST00000553254	protein_coding	PUTATIVE	None	None	358	118	58514276	58521220	1	None	None
19	None	ENSG00000176593	ENST00000547364	protein_coding	PUTATIVE	None	None	372	123	58514289	58521298	1	None	None
22	TTLL12	ENSG00000100304	ENST00000216129	protein_coding	KNOWN	CCDS14047	28974	1935	644	43562628	43583139	-1	None	KIAA0153
22	TTLL12	ENSG00000100304	ENST00000484711	retained_intron	KNOWN	None	28974	None	None	43562629	43566280	-1	None	KIAA0153
22	TTLL12	ENSG00000100304	ENST00000494035	processed_transcript	KNOWN	None	28974	None	None	43563609	43567756	-1	None	KIAA0153
22	TTLL12	ENSG00000100304	ENST00000484118	processed_transcript	KNOWN	None	28974	None	None	43570299	43571684	-1	None	KIAA0153
HSCHR6_MHC_APD	None	ENSG00000257796	ENST00000549785	pseudogene	NOVEL	None	None	None	None	29267101	29267640	1	None	None
7	ZNF12	ENSG00000164631	ENST00000404360	protein_coding	PUTATIVE	None	12902	1872	623	6728064	6740545	-1	ZNF325	KOX3, GIOT-3
7	ZNF12	ENSG00000164631	ENST00000405858	protein_coding	KNOWN	CCDS47538	12902	2094	697	6728064	6746554	-1	ZNF325	KOX3, GIOT-3
7	ZNF12	ENSG00000164631	ENST00000342651	protein_coding	KNOWN	CCDS47539	12902	1980	659	6730080	6746554	-1	ZNF325	KOX3, GIOT-3
7	ZNF12	ENSG00000164631	ENST00000394917	protein_coding	NOVEL	None	12902	200	65	6737004	6746474	-1	ZNF325	KOX3, GIOT-3
7	ZNF12	ENSG00000164631	ENST00000491565	processed_transcript	KNOWN	None	12902	None	None	6743791	6746167	-1	ZNF325	KOX3, GIOT-3
HSCHR6_MHC_APD	OR5V1	ENSG00000242289	ENST00000451227	processed_transcript	KNOWN	None	13972	None	None	29390471	29399828	-1	None	hs6M1-21
HSCHR6_MHC_APD	OR12D3	ENSG00000229181	ENST00000442333	processed_transcript	KNOWN	None	13963	None	None	29412732	29417960	-1	None	hs6M1-27
8	OXR1	ENSG00000164830	ENST00000531443	protein_coding	KNOWN	CCDS47909	15822	2541	846	107371704	107764089	1	None	TLDC3
8	OXR1	ENSG00000164830	ENST00000517566	protein_coding	KNOWN	CCDS56547	15822	2622	873	107371704	107764910	1	None	TLDC3
8	OXR1	ENSG00000164830	ENST00000517686	protein_coding	PUTATIVE	None	15822	299	98	107593202	107696568	1	None	TLDC3
8	OXR1	ENSG00000164830	ENST00000521963	processed_transcript	KNOWN	None	15822	None	None	107593232	107617432	1	None	TLDC3
8	OXR1	ENSG00000164830	ENST00000497705	protein_coding	KNOWN	None	15822	1512	503	107630354	107719918	1	None	TLDC3
8	OXR1	ENSG00000164830	ENST00000435082	nonsense_mediated_decay	KNOWN	None	15822	264	87	107669896	107764089	1	None	TLDC3
8	OXR1	ENSG00000164830	ENST00000312046	protein_coding	KNOWN	CCDS6304	15822	2520	839	107670082	107764922	1	None	TLDC3
8	OXR1	ENSG00000164830	ENST00000438229	nonsense_mediated_decay	KNOWN	None	15822	123	40	107670119	107719210	1	None	TLDC3
8	OXR1	ENSG00000164830	ENST00000517455	processed_transcript	KNOWN	None	15822	None	None	107694721	107715315	1	None	TLDC3
8	OXR1	ENSG00000164830	ENST00000519415	protein_coding	PUTATIVE	None	15822	1556	517	107718609	107764089	1	None	TLDC3
8	OXR1	ENSG00000164830	ENST00000449762	protein_coding	PUTATIVE	CCDS56550	15822	651	216	107738240	107764907	1	None	TLDC3
8	OXR1	ENSG00000164830	ENST00000297447	protein_coding	KNOWN	CCDS56549	15822	732	243	107738335	107764244	1	None	TLDC3
8	OXR1	ENSG00000164830	ENST00000521592	protein_coding	PUTATIVE	None	15822	360	119	107738413	107763423	1	None	TLDC3
8	OXR1	ENSG00000164830	ENST00000521864	retained_intron	KNOWN	None	15822	None	None	107752471	107754712	1	None	TLDC3
8	OXR1	ENSG00000164830	ENST00000445937	protein_coding	KNOWN	CCDS47909	15822	2541	846	107282473	107764917	1	None	TLDC3
8	OXR1	ENSG00000164830	ENST00000442977	protein_coding	KNOWN	CCDS56548	15822	2625	874	107460152	107763401	1	None	TLDC3
8	OXR1	ENSG00000164830	ENST00000452423	protein_coding	KNOWN	None	15822	885	294	107371704	107764910	1	None	TLDC3
16	IL21R	ENSG00000103522	ENST00000337929	protein_coding	KNOWN	CCDS10630	6006	1617	538	27413483	27461879	1	None	CD360
16	IL21R	ENSG00000103522	ENST00000564089	protein_coding	KNOWN	CCDS10630	6006	1617	538	27413495	27461394	1	None	CD360
16	IL21R	ENSG00000103522	ENST00000395754	protein_coding	KNOWN	CCDS10630	6006	1617	538	27438565	27461806	1	None	CD360
16	IL21R	ENSG00000103522	ENST00000561953	retained_intron	KNOWN	None	6006	None	None	27453991	27456011	1	None	CD360
16	IL21R	ENSG00000103522	ENST00000564583	processed_transcript	KNOWN	None	6006	None	None	27455288	27459995	1	None	CD360
16	IL21R	ENSG00000103522	ENST00000395755	protein_coding	KNOWN	CCDS10630	6006	1617	538	27414423	27462115	1	None	CD360
HSCHR6_MHC_APD	UBDP1	ENSG00000237421	ENST00000454267	unprocessed_pseudogene	KNOWN	None	18796	None	None	29432454	29437664	-1	None	dJ994E9.3
14	DICER1	ENSG00000100697	ENST00000343455	protein_coding	KNOWN	CCDS9931	17098	5769	1922	95552565	95623759	-1	None	Dicer, KIAA0928, K12H4.8-LIKE, HERNA
14	DICER1	ENSG00000100697	ENST00000526495	protein_coding	KNOWN	CCDS9931	17098	5769	1922	95552565	95624347	-1	None	Dicer, KIAA0928, K12H4.8-LIKE, HERNA
14	DICER1	ENSG00000100697	ENST00000527416	processed_transcript	KNOWN	None	17098	None	None	95555002	95557659	-1	None	Dicer, KIAA0928, K12H4.8-LIKE, HERNA
14	DICER1	ENSG00000100697	ENST00000527414	protein_coding	KNOWN	CCDS9931	17098	5769	1922	95556658	95603147	-1	None	Dicer, KIAA0928, K12H4.8-LIKE, HERNA
14	DICER1	ENSG00000100697	ENST00000556045	protein_coding	PUTATIVE	None	17098	2463	820	95556805	95572418	-1	None	Dicer, KIAA0928, K12H4.8-LIKE, HERNA
14	DICER1	ENSG00000100697	ENST00000527554	retained_intron	KNOWN	None	17098	None	None	95557002	95557759	-1	None	Dicer, KIAA0928, K12H4.8-LIKE, HERNA
14	DICER1	ENSG00000100697	ENST00000532939	protein_coding	PUTATIVE	None	17098	1183	393	95561685	95569767	-1	None	Dicer, KIAA0928, K12H4.8-LIKE, HERNA
14	DICER1	ENSG00000100697	ENST00000554367	retained_intron	KNOWN	None	17098	None	None	95570045	95572573	-1	None	Dicer, KIAA0928, K12H4.8-LIKE, HERNA
14	DICER1	ENSG00000100697	ENST00000556681	retained_intron	KNOWN	None	17098	None	None	95572417	95574110	-1	None	Dicer, KIAA0928, K12H4.8-LIKE, HERNA
14	DICER1	ENSG00000100697	ENST00000532458	processed_transcript	KNOWN	None	17098	None	None	95579467	95590612	-1	None	Dicer, KIAA0928, K12H4.8-LIKE, HERNA
14	DICER1	ENSG00000100697	ENST00000529206	retained_intron	KNOWN	None	17098	None	None	95595398	95623823	-1	None	Dicer, KIAA0928, K12H4.8-LIKE, HERNA
14	DICER1	ENSG00000100697	ENST00000531162	protein_coding	KNOWN	None	17098	211	69	95598948	95623607	-1	None	Dicer, KIAA0928, K12H4.8-LIKE, HERNA
14	DICER1	ENSG00000100697	ENST00000529720	protein_coding	KNOWN	None	17098	211	69	95598948	95623607	-1	None	Dicer, KIAA0928, K12H4.8-LIKE, HERNA
14	DICER1	ENSG00000100697	ENST00000393063	protein_coding	KNOWN	CCDS9931	17098	5769	1922	95552566	95608055	-1	None	Dicer, KIAA0928, K12H4.8-LIKE, HERNA
14	DICER1	ENSG00000100697	ENST00000541352	protein_coding	KNOWN	CCDS55941	17098	5490	1829	95556829	95599804	-1	None	Dicer, KIAA0928, K12H4.8-LIKE, HERNA
7	IQCE	ENSG00000106012	ENST00000402050	protein_coding	KNOWN	CCDS43542	29171	2088	695	2598632	2654368	1	None	KIAA1023
7	IQCE	ENSG00000106012	ENST00000415271	protein_coding	NOVEL	None	29171	738	245	2598655	2618160	1	None	KIAA1023
7	IQCE	ENSG00000106012	ENST00000470731	retained_intron	KNOWN	None	29171	None	None	2598682	2641583	1	None	KIAA1023
7	IQCE	ENSG00000106012	ENST00000438376	protein_coding	KNOWN	CCDS47527	29171	2040	679	2598686	2649796	1	None	KIAA1023
7	IQCE	ENSG00000106012	ENST00000325997	nonsense_mediated_decay	KNOWN	None	29171	1893	630	2598691	2649912	1	None	KIAA1023
7	IQCE	ENSG00000106012	ENST00000476665	retained_intron	KNOWN	None	29171	None	None	2598713	2647189	1	None	KIAA1023
7	IQCE	ENSG00000106012	ENST00000325979	protein_coding	KNOWN	None	29171	1893	630	2599058	2649796	1	None	KIAA1023
7	IQCE	ENSG00000106012	ENST00000423395	protein_coding	KNOWN	None	29171	384	127	2599061	2617989	1	None	KIAA1023
7	IQCE	ENSG00000106012	ENST00000422276	protein_coding	KNOWN	None	29171	386	127	2606193	2618111	1	None	KIAA1023
7	IQCE	ENSG00000106012	ENST00000497572	processed_transcript	KNOWN	None	29171	None	None	2619744	2624300	1	None	KIAA1023
7	IQCE	ENSG00000106012	ENST00000427817	protein_coding	PUTATIVE	None	29171	580	192	2621661	2629655	1	None	KIAA1023
7	IQCE	ENSG00000106012	ENST00000490913	retained_intron	KNOWN	None	29171	None	None	2629539	2638370	1	None	KIAA1023
7	IQCE	ENSG00000106012	ENST00000423196	protein_coding	PUTATIVE	None	29171	807	268	2636533	2646959	1	None	KIAA1023
7	IQCE	ENSG00000106012	ENST00000486730	processed_transcript	KNOWN	None	29171	None	None	2637760	2646765	1	None	KIAA1023
7	IQCE	ENSG00000106012	ENST00000404984	protein_coding	KNOWN	None	29171	1935	644	2598632	2654367	1	None	KIAA1023
17	KRT13	ENSG00000171401	ENST00000246635	protein_coding	KNOWN	CCDS11396	6415	1377	458	39657233	39661849	-1	None	K13, CK13, MGC3781, MGC161462
17	KRT13	ENSG00000171401	ENST00000336861	protein_coding	KNOWN	CCDS11397	6415	1263	420	39657233	39661849	-1	None	K13, CK13, MGC3781, MGC161462
17	KRT13	ENSG00000171401	ENST00000475217	processed_transcript	KNOWN	None	6415	None	None	39657234	39658163	-1	None	K13, CK13, MGC3781, MGC161462
17	KRT13	ENSG00000171401	ENST00000468313	retained_intron	KNOWN	None	6415	None	None	39657242	39661849	-1	None	K13, CK13, MGC3781, MGC161462
17	KRT13	ENSG00000171401	ENST00000587544	protein_coding	PUTATIVE	None	6415	1248	415	39658477	39661865	-1	None	K13, CK13, MGC3781, MGC161462
17	KRT13	ENSG00000171401	ENST00000464634	nonsense_mediated_decay	KNOWN	None	6415	192	63	39658502	39661864	-1	None	K13, CK13, MGC3781, MGC161462
17	KRT13	ENSG00000171401	ENST00000590425	protein_coding	PUTATIVE	None	6415	495	164	39659270	39661957	-1	None	K13, CK13, MGC3781, MGC161462
17	KRT13	ENSG00000171401	ENST00000587435	protein_coding	NOVEL	None	6415	486	161	39659321	39661865	-1	None	K13, CK13, MGC3781, MGC161462
17	KRT13	ENSG00000171401	ENST00000587118	processed_transcript	KNOWN	None	6415	None	None	39659911	39660828	-1	None	K13, CK13, MGC3781, MGC161462
1	XPR1	ENSG00000143324	ENST00000367590	protein_coding	KNOWN	CCDS1340	12827	2091	696	180601140	180859387	1	None	SYG1, X3
1	XPR1	ENSG00000143324	ENST00000367589	protein_coding	KNOWN	CCDS44284	12827	1896	631	180601168	180855262	1	None	SYG1, X3
1	XPR1	ENSG00000143324	ENST00000498177	processed_transcript	KNOWN	None	12827	None	None	180805788	180843191	1	None	SYG1, X3
1	XPR1	ENSG00000143324	ENST00000464817	processed_transcript	KNOWN	None	12827	None	None	180832900	180847426	1	None	SYG1, X3
1	XPR1	ENSG00000143324	ENST00000467345	processed_transcript	KNOWN	None	12827	None	None	180856708	180857584	1	None	SYG1, X3
4	None	ENSG00000251216	ENST00000511291	lincRNA	KNOWN	None	None	None	None	174845358	174912002	-1	None	None
4	None	ENSG00000251216	ENST00000503325	lincRNA	KNOWN	None	None	None	None	174903770	174912012	-1	None	None
12	EFCAB4B	ENSG00000130038	ENST00000333750	nonsense_mediated_decay	KNOWN	None	28657	596	197	3715799	3782690	-1	None	MGC4266
12	EFCAB4B	ENSG00000130038	ENST00000440314	protein_coding	KNOWN	CCDS44803	28657	2196	731	3724494	3862268	-1	None	MGC4266
12	EFCAB4B	ENSG00000130038	ENST00000535292	protein_coding	KNOWN	None	28657	355	117	3749553	3763389	-1	None	MGC4266
12	EFCAB4B	ENSG00000130038	ENST00000252322	protein_coding	KNOWN	CCDS8522	28657	1188	395	3757109	3862263	-1	None	MGC4266
12	EFCAB4B	ENSG00000130038	ENST00000514026	processed_transcript	KNOWN	None	28657	None	None	3835078	3873985	-1	None	MGC4266
12	EFCAB4B	ENSG00000130038	ENST00000535507	processed_transcript	KNOWN	None	28657	None	None	3840052	3862366	-1	None	MGC4266
12	EFCAB4B	ENSG00000130038	ENST00000444507	protein_coding	KNOWN	None	28657	1389	462	3749561	3862366	-1	None	MGC4266
18	None	ENSG00000173213	ENST00000573909	protein_coding	PUTATIVE	None	None	1233	410	47225	50240	-1	None	None
18	None	ENSG00000173213	ENST00000594555	processed_transcript	KNOWN	None	None	None	None	47928	48882	-1	None	None
18	None	ENSG00000173213	ENST00000572530	processed_transcript	KNOWN	None	None	None	None	49815	73517	-1	None	None
18	None	ENSG00000173213	ENST00000575325	processed_transcript	KNOWN	None	None	None	None	49900	73545	-1	None	None
18	None	ENSG00000173213	ENST00000308911	protein_coding	KNOWN	None	None	1335	444	47390	49557	-1	None	None
1	XKR8	ENSG00000158156	ENST00000373884	protein_coding	KNOWN	CCDS315	25508	1188	395	28285973	28294607	1	None	FLJ10307
1	XKR8	ENSG00000158156	ENST00000481387	processed_transcript	KNOWN	None	25508	None	None	28290148	28293221	1	None	FLJ10307
12	TPI1	ENSG00000111669	ENST00000229270	protein_coding	KNOWN	CCDS53740	12009	861	286	6976283	6980112	1	None	None
12	TPI1	ENSG00000111669	ENST00000396705	protein_coding	KNOWN	CCDS8566	12009	750	249	6976695	6979992	1	None	None
12	TPI1	ENSG00000111669	ENST00000488464	protein_coding	KNOWN	CCDS58206	12009	504	167	6977264	6979547	1	None	None
12	TPI1	ENSG00000111669	ENST00000493987	protein_coding	KNOWN	None	12009	339	112	6977305	6979254	1	None	None
12	TPI1	ENSG00000111669	ENST00000462761	protein_coding	KNOWN	None	12009	116	37	6977361	6978459	1	None	None
12	TPI1	ENSG00000111669	ENST00000495834	protein_coding	KNOWN	None	12009	294	97	6977633	6978934	1	None	None
12	TPI1	ENSG00000111669	ENST00000482209	retained_intron	KNOWN	None	12009	None	None	6978712	6979301	1	None	None
12	TPI1	ENSG00000111669	ENST00000474253	retained_intron	KNOWN	None	12009	None	None	6979181	6979735	1	None	None
12	TPI1	ENSG00000111669	ENST00000535434	protein_coding	KNOWN	CCDS58206	12009	504	167	6977278	6979992	1	None	None
3	ATP6V1A	ENSG00000114573	ENST00000273398	protein_coding	KNOWN	CCDS2976	851	1854	617	113465866	113530903	1	VPP2, ATP6A1, ATP6V1A1	Vma1, VA68
3	ATP6V1A	ENSG00000114573	ENST00000462855	retained_intron	KNOWN	None	851	None	None	113465880	113498015	1	VPP2, ATP6A1, ATP6V1A1	Vma1, VA68
3	ATP6V1A	ENSG00000114573	ENST00000470455	nonsense_mediated_decay	KNOWN	None	851	150	49	113465884	113528544	1	VPP2, ATP6A1, ATP6V1A1	Vma1, VA68
3	ATP6V1A	ENSG00000114573	ENST00000496747	protein_coding	PUTATIVE	None	851	554	183	113465889	113505167	1	VPP2, ATP6A1, ATP6V1A1	Vma1, VA68
3	ATP6V1A	ENSG00000114573	ENST00000475322	protein_coding	KNOWN	None	851	663	220	113465897	113505177	1	VPP2, ATP6A1, ATP6V1A1	Vma1, VA68
3	ATP6V1A	ENSG00000114573	ENST00000461496	processed_transcript	KNOWN	None	851	None	None	113519986	113528316	1	VPP2, ATP6A1, ATP6V1A1	Vma1, VA68
3	ATP6V1A	ENSG00000114573	ENST00000538620	protein_coding	KNOWN	None	851	1755	584	113465884	113528544	1	VPP2, ATP6A1, ATP6V1A1	Vma1, VA68
HSCHR6_MHC_SSTO	C6orf25	ENSG00000231003	ENST00000466799	retained_intron	KNOWN	None	13937	None	None	31676330	31684446	1	None	G6b, NG31
HSCHR6_MHC_SSTO	C6orf25	ENSG00000231003	ENST00000428302	protein_coding	KNOWN	None	13937	714	237	31681109	31684446	1	None	G6b, NG31
HSCHR6_MHC_SSTO	C6orf25	ENSG00000231003	ENST00000436030	protein_coding	KNOWN	None	13937	726	241	31681120	31684446	1	None	G6b, NG31
HSCHR6_MHC_SSTO	C6orf25	ENSG00000231003	ENST00000435007	protein_coding	KNOWN	None	13937	654	217	31681120	31684446	1	None	G6b, NG31
HSCHR6_MHC_SSTO	C6orf25	ENSG00000231003	ENST00000437153	protein_coding	KNOWN	None	13937	582	193	31681120	31684446	1	None	G6b, NG31
HSCHR6_MHC_SSTO	C6orf25	ENSG00000231003	ENST00000449633	protein_coding	KNOWN	None	13937	594	197	31681120	31684446	1	None	G6b, NG31
HSCHR6_MHC_SSTO	C6orf25	ENSG00000231003	ENST00000481388	retained_intron	KNOWN	None	13937	None	None	31681120	31684446	1	None	G6b, NG31
HSCHR6_MHC_SSTO	C6orf25	ENSG00000231003	ENST00000477236	retained_intron	KNOWN	None	13937	None	None	31681120	31684446	1	None	G6b, NG31
19	TRPM4	ENSG00000130529	ENST00000598691	protein_coding	NOVEL	None	17993	468	155	49660998	49674630	1	None	FLJ20041
19	TRPM4	ENSG00000130529	ENST00000252826	protein_coding	KNOWN	CCDS33073	17993	3645	1214	49660998	49715093	1	None	FLJ20041
19	TRPM4	ENSG00000130529	ENST00000598697	nonsense_mediated_decay	KNOWN	None	17993	312	103	49661023	49715091	1	None	FLJ20041
19	TRPM4	ENSG00000130529	ENST00000599628	retained_intron	KNOWN	None	17993	None	None	49661049	49663178	1	None	FLJ20041
19	TRPM4	ENSG00000130529	ENST00000595519	nonsense_mediated_decay	KNOWN	None	17993	234	77	49661049	49715093	1	None	FLJ20041
19	TRPM4	ENSG00000130529	ENST00000427978	protein_coding	KNOWN	CCDS56098	17993	3210	1069	49661072	49714937	1	None	FLJ20041
19	TRPM4	ENSG00000130529	ENST00000598502	nonsense_mediated_decay	KNOWN	None	17993	651	216	49661089	49715006	1	None	FLJ20041
19	TRPM4	ENSG00000130529	ENST00000596338	retained_intron	KNOWN	None	17993	None	None	49661089	49715006	1	None	FLJ20041
19	TRPM4	ENSG00000130529	ENST00000594568	retained_intron	KNOWN	None	17993	None	None	49670901	49671594	1	None	FLJ20041
19	TRPM4	ENSG00000130529	ENST00000601347	processed_transcript	KNOWN	None	17993	None	None	49671884	49686012	1	None	FLJ20041
19	TRPM4	ENSG00000130529	ENST00000595071	retained_intron	KNOWN	None	17993	None	None	49685783	49715093	1	None	FLJ20041
19	TRPM4	ENSG00000130529	ENST00000595882	retained_intron	KNOWN	None	17993	None	None	49692125	49699973	1	None	FLJ20041
19	TRPM4	ENSG00000130529	ENST00000599459	retained_intron	KNOWN	None	17993	None	None	49713858	49714657	1	None	FLJ20041
19	TRPM4	ENSG00000130529	ENST00000597316	protein_coding	PUTATIVE	None	17993	155	50	49713991	49715091	1	None	FLJ20041
19	TRPM4	ENSG00000130529	ENST00000355712	protein_coding	KNOWN	None	17993	2583	860	49661099	49715091	1	None	FLJ20041
19	OR7A17	ENSG00000185385	ENST00000327462	protein_coding	KNOWN	CCDS12319	8363	930	309	14991138	14992264	-1	None	HTPCRX19
5	EIF4EBP3	ENSG00000243056	ENST00000310331	protein_coding	KNOWN	CCDS4226	3290	303	100	139927251	139929163	1	None	4E-BP3
7	PCLO	ENSG00000186472	ENST00000333891	protein_coding	KNOWN	CCDS47630	13406	15429	5142	82387442	82792246	-1	None	KIAA0559, DKFZp779G1236, ACZ
7	PCLO	ENSG00000186472	ENST00000432078	processed_transcript	PUTATIVE	None	13406	None	None	82430853	82451906	-1	None	KIAA0559, DKFZp779G1236, ACZ
7	PCLO	ENSG00000186472	ENST00000423517	protein_coding	KNOWN	CCDS47631	13406	14808	4935	82449796	82792246	-1	None	KIAA0559, DKFZp779G1236, ACZ
7	PCLO	ENSG00000186472	ENST00000426442	processed_transcript	KNOWN	None	13406	None	None	82451413	82523770	-1	None	KIAA0559, DKFZp779G1236, ACZ
7	PCLO	ENSG00000186472	ENST00000413807	nonsense_mediated_decay	KNOWN	None	13406	140	45	82467534	82508778	-1	None	KIAA0559, DKFZp779G1236, ACZ
7	PCLO	ENSG00000186472	ENST00000456006	nonsense_mediated_decay	KNOWN	None	13406	182	59	82474743	82508778	-1	None	KIAA0559, DKFZp779G1236, ACZ
7	PCLO	ENSG00000186472	ENST00000437081	protein_coding	PUTATIVE	None	13406	3654	1217	82543677	82580064	-1	None	KIAA0559, DKFZp779G1236, ACZ
7	PCLO	ENSG00000186472	ENST00000461143	processed_transcript	KNOWN	None	13406	None	None	82595737	82763926	-1	None	KIAA0559, DKFZp779G1236, ACZ
7	None	ENSG00000196295	ENST00000434399	antisense	KNOWN	None	None	None	None	30555925	30602441	-1	None	None
7	None	ENSG00000196295	ENST00000578293	antisense	KNOWN	None	None	None	None	30556591	30601132	-1	None	None
7	None	ENSG00000196295	ENST00000580902	antisense	KNOWN	None	None	None	None	30563591	30603614	-1	None	None
7	None	ENSG00000196295	ENST00000426529	retained_intron	KNOWN	None	None	None	None	30587975	30634359	-1	None	None
7	None	ENSG00000196295	ENST00000582838	retained_intron	KNOWN	None	None	None	None	30589934	30591836	-1	None	None
7	None	ENSG00000196295	ENST00000578245	retained_intron	KNOWN	None	None	None	None	30589937	30617375	-1	None	None
7	None	ENSG00000196295	ENST00000578572	antisense	KNOWN	None	None	None	None	30590075	30601319	-1	None	None
7	None	ENSG00000196295	ENST00000577889	retained_intron	KNOWN	None	None	None	None	30590184	30601135	-1	None	None
7	None	ENSG00000196295	ENST00000584621	antisense	KNOWN	None	None	None	None	30597712	30612704	-1	None	None
7	None	ENSG00000196295	ENST00000355837	retained_intron	KNOWN	None	None	None	None	30599604	30604233	-1	None	None
7	None	ENSG00000196295	ENST00000582145	antisense	KNOWN	None	None	None	None	30601178	30612716	-1	None	None
7	None	ENSG00000196295	ENST00000584199	antisense	KNOWN	None	None	None	None	30601693	30634385	-1	None	None
7	None	ENSG00000196295	ENST00000584108	antisense	KNOWN	None	None	None	None	30604129	30608618	-1	None	None
7	None	ENSG00000196295	ENST00000581794	retained_intron	KNOWN	None	None	None	None	30606020	30634385	-1	None	None
7	None	ENSG00000196295	ENST00000579024	antisense	KNOWN	None	None	None	None	30608104	30612629	-1	None	None
7	None	ENSG00000196295	ENST00000584372	antisense	KNOWN	None	None	None	None	30608293	30634379	-1	None	None
7	None	ENSG00000196295	ENST00000582733	retained_intron	KNOWN	None	None	None	None	30608418	30634411	-1	None	None
7	None	ENSG00000196295	ENST00000581665	antisense	KNOWN	None	None	None	None	30608449	30634376	-1	None	None
7	None	ENSG00000196295	ENST00000584023	retained_intron	KNOWN	None	None	None	None	30614039	30616358	-1	None	None
7	None	ENSG00000196295	ENST00000579174	antisense	KNOWN	None	None	None	None	30614320	30634424	-1	None	None
7	None	ENSG00000196295	ENST00000580440	antisense	KNOWN	None	None	None	None	30617201	30634376	-1	None	None
7	None	ENSG00000196295	ENST00000578994	antisense	KNOWN	None	None	None	None	30617520	30634425	-1	None	None
7	None	ENSG00000196295	ENST00000583664	antisense	KNOWN	None	None	None	None	30617684	30634376	-1	None	None
7	None	ENSG00000196295	ENST00000582549	antisense	KNOWN	None	None	None	None	30617686	30634374	-1	None	None
19	OR7C2	ENSG00000127529	ENST00000248072	protein_coding	KNOWN	CCDS12320	8374	960	319	15052301	15053260	1	OR7C3	OR19-18
6	YIPF3	ENSG00000137207	ENST00000372422	protein_coding	KNOWN	CCDS4899	21023	1053	350	43479565	43484728	-1	C6orf109	DKFZp566C243, KLIP1, dJ337H4.3, FinGER3
6	YIPF3	ENSG00000137207	ENST00000510102	nonsense_mediated_decay	KNOWN	None	21023	192	63	43479578	43484723	-1	C6orf109	DKFZp566C243, KLIP1, dJ337H4.3, FinGER3
6	YIPF3	ENSG00000137207	ENST00000506469	protein_coding	NOVEL	None	21023	1071	356	43479666	43484679	-1	C6orf109	DKFZp566C243, KLIP1, dJ337H4.3, FinGER3
6	YIPF3	ENSG00000137207	ENST00000490447	nonsense_mediated_decay	KNOWN	None	21023	195	64	43479897	43484710	-1	C6orf109	DKFZp566C243, KLIP1, dJ337H4.3, FinGER3
6	YIPF3	ENSG00000137207	ENST00000503147	retained_intron	KNOWN	None	21023	None	None	43479958	43480930	-1	C6orf109	DKFZp566C243, KLIP1, dJ337H4.3, FinGER3
6	YIPF3	ENSG00000137207	ENST00000503972	protein_coding	NOVEL	None	21023	787	261	43480193	43484691	-1	C6orf109	DKFZp566C243, KLIP1, dJ337H4.3, FinGER3
6	YIPF3	ENSG00000137207	ENST00000514627	retained_intron	KNOWN	None	21023	None	None	43480196	43481576	-1	C6orf109	DKFZp566C243, KLIP1, dJ337H4.3, FinGER3
6	YIPF3	ENSG00000137207	ENST00000460547	nonsense_mediated_decay	KNOWN	None	21023	192	63	43480204	43484671	-1	C6orf109	DKFZp566C243, KLIP1, dJ337H4.3, FinGER3
6	YIPF3	ENSG00000137207	ENST00000512713	retained_intron	KNOWN	None	21023	None	None	43480273	43480969	-1	C6orf109	DKFZp566C243, KLIP1, dJ337H4.3, FinGER3
6	YIPF3	ENSG00000137207	ENST00000455768	nonsense_mediated_decay	KNOWN	None	21023	138	45	43480499	43484657	-1	C6orf109	DKFZp566C243, KLIP1, dJ337H4.3, FinGER3
6	YIPF3	ENSG00000137207	ENST00000416380	nonsense_mediated_decay	KNOWN	None	21023	192	63	43480501	43484680	-1	C6orf109	DKFZp566C243, KLIP1, dJ337H4.3, FinGER3
6	YIPF3	ENSG00000137207	ENST00000372417	retained_intron	KNOWN	None	21023	None	None	43480566	43481459	-1	C6orf109	DKFZp566C243, KLIP1, dJ337H4.3, FinGER3
6	YIPF3	ENSG00000137207	ENST00000500090	protein_coding	NOVEL	None	21023	406	134	43480880	43483426	-1	C6orf109	DKFZp566C243, KLIP1, dJ337H4.3, FinGER3
6	YIPF3	ENSG00000137207	ENST00000488966	retained_intron	KNOWN	None	21023	None	None	43480952	43483385	-1	C6orf109	DKFZp566C243, KLIP1, dJ337H4.3, FinGER3
6	YIPF3	ENSG00000137207	ENST00000502714	retained_intron	KNOWN	None	21023	None	None	43481187	43484129	-1	C6orf109	DKFZp566C243, KLIP1, dJ337H4.3, FinGER3
6	YIPF3	ENSG00000137207	ENST00000511831	protein_coding	PUTATIVE	None	21023	328	108	43481334	43484352	-1	C6orf109	DKFZp566C243, KLIP1, dJ337H4.3, FinGER3
6	YIPF3	ENSG00000137207	ENST00000460903	retained_intron	KNOWN	None	21023	None	None	43483275	43484697	-1	C6orf109	DKFZp566C243, KLIP1, dJ337H4.3, FinGER3
X	None	ENSG00000225715	ENST00000415494	processed_pseudogene	KNOWN	None	None	None	None	79965427	79966204	1	None	None
22	None	ENSG00000240906	ENST00000344557	processed_pseudogene	NOVEL	None	None	None	None	25047814	25048364	1	None	None
11	TSPAN18	ENSG00000157570	ENST00000533786	protein_coding	KNOWN	None	20660	438	145	44748015	44940869	1	None	TSPAN
11	TSPAN18	ENSG00000157570	ENST00000533202	protein_coding	KNOWN	None	20660	239	78	44748361	44931431	1	None	TSPAN
11	TSPAN18	ENSG00000157570	ENST00000533080	protein_coding	NOVEL	None	20660	416	137	44748653	44941546	1	None	TSPAN
11	TSPAN18	ENSG00000157570	ENST00000520358	protein_coding	KNOWN	CCDS7910	20660	747	248	44748662	44952883	1	None	TSPAN
11	TSPAN18	ENSG00000157570	ENST00000520999	protein_coding	PUTATIVE	None	20660	471	156	44748724	44940872	1	None	TSPAN
11	TSPAN18	ENSG00000157570	ENST00000520837	protein_coding	PUTATIVE	None	20660	228	75	44881154	44931390	1	None	TSPAN
11	TSPAN18	ENSG00000157570	ENST00000518429	protein_coding	PUTATIVE	None	20660	814	270	44927958	44952887	1	None	TSPAN
11	TSPAN18	ENSG00000157570	ENST00000519051	retained_intron	KNOWN	None	20660	None	None	44931074	44941525	1	None	TSPAN
11	TSPAN18	ENSG00000157570	ENST00000520245	retained_intron	KNOWN	None	20660	None	None	44939133	44950831	1	None	TSPAN
11	TSPAN18	ENSG00000157570	ENST00000517621	retained_intron	KNOWN	None	20660	None	None	44941217	44951007	1	None	TSPAN
11	TSPAN18	ENSG00000157570	ENST00000521990	retained_intron	KNOWN	None	20660	None	None	44941225	44950971	1	None	TSPAN
11	TSPAN18	ENSG00000157570	ENST00000520278	retained_intron	KNOWN	None	20660	None	None	44947918	44951107	1	None	TSPAN
11	TSPAN18	ENSG00000157570	ENST00000340160	protein_coding	KNOWN	CCDS7910	20660	747	248	44785976	44953972	1	None	TSPAN
22	POM121L10P	ENSG00000224124	ENST00000436994	processed_pseudogene	KNOWN	None	35448	None	None	25053448	25054732	-1	None	None
22	POM121L10P	ENSG00000224124	ENST00000504931	processed_pseudogene	KNOWN	None	35448	None	None	25041133	25055114	-1	None	None
9	REXO4	ENSG00000148300	ENST00000453165	protein_coding	KNOWN	None	12820	1125	374	136271186	136282919	-1	XPMC2H	None
9	REXO4	ENSG00000148300	ENST00000371942	protein_coding	KNOWN	CCDS6969	12820	1269	422	136271186	136283164	-1	XPMC2H	None
9	REXO4	ENSG00000148300	ENST00000454825	protein_coding	KNOWN	None	12820	700	232	136272130	136283097	-1	XPMC2H	None
9	REXO4	ENSG00000148300	ENST00000494045	processed_transcript	KNOWN	None	12820	None	None	136276124	136283074	-1	XPMC2H	None
9	REXO4	ENSG00000148300	ENST00000478037	processed_transcript	KNOWN	None	12820	None	None	136277419	136283079	-1	XPMC2H	None
9	REXO4	ENSG00000148300	ENST00000445916	protein_coding	KNOWN	None	12820	567	188	136277483	136281020	-1	XPMC2H	None
9	REXO4	ENSG00000148300	ENST00000371935	protein_coding	KNOWN	None	12820	753	250	136271188	136283075	-1	XPMC2H	None
HSCHR6_MHC_MCF	PPP1R10	ENSG00000235291	ENST00000426299	protein_coding	KNOWN	None	9284	2823	940	30646635	30663480	-1	None	PNUTS, FB19, CAT53, p99
HSCHR6_MHC_MCF	PPP1R10	ENSG00000235291	ENST00000487636	retained_intron	KNOWN	None	9284	None	None	30649808	30650447	-1	None	PNUTS, FB19, CAT53, p99
HSCHR6_MHC_MCF	PPP1R10	ENSG00000235291	ENST00000493073	retained_intron	KNOWN	None	9284	None	None	30650847	30652233	-1	None	PNUTS, FB19, CAT53, p99
HSCHR6_MHC_MCF	PPP1R10	ENSG00000235291	ENST00000489362	retained_intron	KNOWN	None	9284	None	None	30651253	30652972	-1	None	PNUTS, FB19, CAT53, p99
HSCHR6_MHC_MCF	PPP1R10	ENSG00000235291	ENST00000477416	retained_intron	KNOWN	None	9284	None	None	30652044	30652478	-1	None	PNUTS, FB19, CAT53, p99
HSCHR6_MHC_MCF	PPP1R10	ENSG00000235291	ENST00000494003	processed_transcript	KNOWN	None	9284	None	None	30656182	30663480	-1	None	PNUTS, FB19, CAT53, p99
HSCHR6_MHC_MCF	PPP1R10	ENSG00000235291	ENST00000488517	processed_transcript	KNOWN	None	9284	None	None	30662820	30664848	-1	None	PNUTS, FB19, CAT53, p99
HSCHR6_MHC_MCF	PPP1R10	ENSG00000235291	ENST00000551493	protein_coding	KNOWN	None	9284	936	311	30651171	30663479	-1	None	PNUTS, FB19, CAT53, p99
11	None	ENSG00000256349	ENST00000419755	protein_coding	KNOWN	None	None	1893	630	66276550	66301084	1	None	None
9	ZNF883	ENSG00000228623	ENST00000427548	lincRNA	KNOWN	None	27271	None	None	115759495	115774507	-1	None	None
22	ARL5AP4	ENSG00000224806	ENST00000430731	processed_pseudogene	KNOWN	None	43936	None	None	25082135	25082646	1	None	None
20	MKKS	ENSG00000125863	ENST00000399054	protein_coding	KNOWN	CCDS13111	7108	1713	570	10385832	10412570	-1	BBS6	None
20	MKKS	ENSG00000125863	ENST00000347364	protein_coding	KNOWN	CCDS13111	7108	1713	570	10385832	10414870	-1	BBS6	None
22	None	ENSG00000224334	ENST00000409926	processed_pseudogene	KNOWN	None	None	None	None	25082890	25084054	1	None	None
4	None	ENSG00000251615	ENST00000505448	lincRNA	KNOWN	None	None	None	None	8356817	8359103	-1	None	None
10	ADK	ENSG00000156110	ENST00000286621	protein_coding	KNOWN	CCDS7343	257	1089	362	75910987	76468233	1	None	AK
10	ADK	ENSG00000156110	ENST00000478611	processed_transcript	KNOWN	None	257	None	None	75910993	75984351	1	None	AK
10	ADK	ENSG00000156110	ENST00000372734	protein_coding	KNOWN	CCDS7344	257	1038	345	75936444	76469061	1	None	AK
10	ADK	ENSG00000156110	ENST00000467840	processed_transcript	KNOWN	None	257	None	None	76285122	76288057	1	None	AK
10	ADK	ENSG00000156110	ENST00000539909	protein_coding	KNOWN	CCDS55716	257	918	305	75910960	76468457	1	None	AK
10	ADK	ENSG00000156110	ENST00000541550	protein_coding	KNOWN	CCDS55717	257	984	327	75936521	76468296	1	None	AK
3	CCNL1	ENSG00000163660	ENST00000461804	protein_coding	PUTATIVE	None	20569	1287	428	156864297	156878549	-1	None	ania-6a
3	CCNL1	ENSG00000163660	ENST00000295926	protein_coding	KNOWN	CCDS3178	20569	1581	526	156865342	156878002	-1	None	ania-6a
3	CCNL1	ENSG00000163660	ENST00000464316	retained_intron	KNOWN	None	20569	None	None	156865584	156872455	-1	None	ania-6a
3	CCNL1	ENSG00000163660	ENST00000471247	retained_intron	KNOWN	None	20569	None	None	156865585	156870290	-1	None	ania-6a
3	CCNL1	ENSG00000163660	ENST00000474539	retained_intron	KNOWN	None	20569	None	None	156865585	156871617	-1	None	ania-6a
3	CCNL1	ENSG00000163660	ENST00000475298	nonsense_mediated_decay	KNOWN	None	20569	519	172	156865585	156877944	-1	None	ania-6a
3	CCNL1	ENSG00000163660	ENST00000476744	retained_intron	KNOWN	None	20569	None	None	156865910	156867734	-1	None	ania-6a
3	CCNL1	ENSG00000163660	ENST00000470121	nonsense_mediated_decay	KNOWN	None	20569	699	232	156866030	156877883	-1	None	ania-6a
3	CCNL1	ENSG00000163660	ENST00000468977	nonsense_mediated_decay	KNOWN	None	20569	178	58	156866105	156867863	-1	None	ania-6a
3	CCNL1	ENSG00000163660	ENST00000467849	retained_intron	KNOWN	None	20569	None	None	156866738	156867422	-1	None	ania-6a
3	CCNL1	ENSG00000163660	ENST00000476367	retained_intron	KNOWN	None	20569	None	None	156866794	156877899	-1	None	ania-6a
3	CCNL1	ENSG00000163660	ENST00000477127	nonsense_mediated_decay	KNOWN	None	20569	519	172	156867076	156877967	-1	None	ania-6a
3	CCNL1	ENSG00000163660	ENST00000464679	retained_intron	KNOWN	None	20569	None	None	156867233	156869999	-1	None	ania-6a
3	CCNL1	ENSG00000163660	ENST00000495471	retained_intron	KNOWN	None	20569	None	None	156867730	156868588	-1	None	ania-6a
3	CCNL1	ENSG00000163660	ENST00000481173	retained_intron	KNOWN	None	20569	None	None	156867736	156868418	-1	None	ania-6a
3	CCNL1	ENSG00000163660	ENST00000479052	processed_transcript	KNOWN	None	20569	None	None	156867917	156871417	-1	None	ania-6a
3	CCNL1	ENSG00000163660	ENST00000483789	retained_intron	KNOWN	None	20569	None	None	156869189	156870895	-1	None	ania-6a
3	CCNL1	ENSG00000163660	ENST00000478454	retained_intron	KNOWN	None	20569	None	None	156869806	156876740	-1	None	ania-6a
3	CCNL1	ENSG00000163660	ENST00000479596	retained_intron	KNOWN	None	20569	None	None	156869871	156877924	-1	None	ania-6a
3	CCNL1	ENSG00000163660	ENST00000465947	nonsense_mediated_decay	KNOWN	None	20569	519	172	156869966	156877925	-1	None	ania-6a
3	CCNL1	ENSG00000163660	ENST00000467081	retained_intron	KNOWN	None	20569	None	None	156870529	156877230	-1	None	ania-6a
3	CCNL1	ENSG00000163660	ENST00000464575	retained_intron	KNOWN	None	20569	None	None	156870831	156877044	-1	None	ania-6a
3	CCNL1	ENSG00000163660	ENST00000471044	retained_intron	KNOWN	None	20569	None	None	156876454	156877947	-1	None	ania-6a
3	CCNL1	ENSG00000163660	ENST00000466101	retained_intron	KNOWN	None	20569	None	None	156876704	156877926	-1	None	ania-6a
3	CCNL1	ENSG00000163660	ENST00000295925	protein_coding	KNOWN	None	20569	519	172	156874842	156878482	-1	None	ania-6a
3	U2SURP	ENSG00000163714	ENST00000600150	protein_coding	PUTATIVE	None	30855	376	124	142683339	142735213	1	None	fSAPa, SR140
3	U2SURP	ENSG00000163714	ENST00000488497	nonsense_mediated_decay	KNOWN	None	30855	1278	425	142720010	142775342	1	None	fSAPa, SR140
3	U2SURP	ENSG00000163714	ENST00000493782	protein_coding	KNOWN	None	30855	483	160	142720366	142735730	1	None	fSAPa, SR140
3	U2SURP	ENSG00000163714	ENST00000473835	protein_coding	KNOWN	CCDS46928	30855	3090	1029	142720381	142779388	1	None	fSAPa, SR140
3	U2SURP	ENSG00000163714	ENST00000461591	retained_intron	KNOWN	None	30855	None	None	142720452	142742237	1	None	fSAPa, SR140
3	U2SURP	ENSG00000163714	ENST00000493598	protein_coding	KNOWN	None	30855	3087	1028	142720463	142775688	1	None	fSAPa, SR140
3	U2SURP	ENSG00000163714	ENST00000463563	nonsense_mediated_decay	KNOWN	None	30855	1320	439	142720465	142776495	1	None	fSAPa, SR140
3	U2SURP	ENSG00000163714	ENST00000470400	retained_intron	KNOWN	None	30855	None	None	142720469	142740427	1	None	fSAPa, SR140
3	U2SURP	ENSG00000163714	ENST00000465175	protein_coding	PUTATIVE	None	30855	392	129	142721070	142735729	1	None	fSAPa, SR140
3	U2SURP	ENSG00000163714	ENST00000485374	nonsense_mediated_decay	KNOWN	None	30855	283	93	142730781	142735702	1	None	fSAPa, SR140
3	U2SURP	ENSG00000163714	ENST00000491827	retained_intron	KNOWN	None	30855	None	None	142731095	142736192	1	None	fSAPa, SR140
3	U2SURP	ENSG00000163714	ENST00000488587	retained_intron	KNOWN	None	30855	None	None	142735734	142746112	1	None	fSAPa, SR140
3	U2SURP	ENSG00000163714	ENST00000480029	protein_coding	PUTATIVE	None	30855	1463	486	142744624	142772624	1	None	fSAPa, SR140
3	U2SURP	ENSG00000163714	ENST00000472373	retained_intron	KNOWN	None	30855	None	None	142745404	142753745	1	None	fSAPa, SR140
3	U2SURP	ENSG00000163714	ENST00000496100	retained_intron	KNOWN	None	30855	None	None	142753369	142754914	1	None	fSAPa, SR140
3	U2SURP	ENSG00000163714	ENST00000467348	protein_coding	NOVEL	None	30855	871	289	142754925	142775688	1	None	fSAPa, SR140
3	U2SURP	ENSG00000163714	ENST00000461844	retained_intron	KNOWN	None	30855	None	None	142755721	142757048	1	None	fSAPa, SR140
3	U2SURP	ENSG00000163714	ENST00000397933	protein_coding	KNOWN	None	30855	1863	620	142720372	142779567	1	None	fSAPa, SR140
18	USP14	ENSG00000101557	ENST00000582707	protein_coding	KNOWN	CCDS32781	12612	1380	459	158383	211391	1	None	TGT
18	USP14	ENSG00000101557	ENST00000400266	protein_coding	NOVEL	None	12612	1452	483	158536	211350	1	None	TGT
18	USP14	ENSG00000101557	ENST00000580410	protein_coding	PUTATIVE	None	12612	62	19	158557	163431	1	None	TGT
18	USP14	ENSG00000101557	ENST00000578942	retained_intron	KNOWN	None	12612	None	None	158561	212601	1	None	TGT
18	USP14	ENSG00000101557	ENST00000383589	protein_coding	NOVEL	None	12612	1347	448	158591	211997	1	None	TGT
18	USP14	ENSG00000101557	ENST00000261601	protein_coding	KNOWN	CCDS32780	12612	1485	494	158608	214622	1	None	TGT
18	USP14	ENSG00000101557	ENST00000581983	protein_coding	PUTATIVE	None	12612	85	27	158858	163454	1	None	TGT
18	USP14	ENSG00000101557	ENST00000583119	nonsense_mediated_decay	KNOWN	None	12612	100	32	163393	198110	1	None	TGT
18	USP14	ENSG00000101557	ENST00000578786	retained_intron	KNOWN	None	12612	None	None	196539	211268	1	None	TGT
22	SCUBE1	ENSG00000159307	ENST00000360835	protein_coding	KNOWN	CCDS14048	13441	2967	988	43599229	43739394	-1	None	None
22	SCUBE1	ENSG00000159307	ENST00000449304	protein_coding	KNOWN	None	13441	524	173	43627762	43658805	-1	None	None
22	SCUBE1	ENSG00000159307	ENST00000290460	protein_coding	KNOWN	None	13441	1044	347	43633582	43739329	-1	None	None
22	SCUBE1	ENSG00000159307	ENST00000477991	processed_transcript	KNOWN	None	13441	None	None	43666138	43668545	-1	None	None
22	SCUBE1	ENSG00000159307	ENST00000470433	processed_transcript	KNOWN	None	13441	None	None	43666143	43668520	-1	None	None
22	SCUBE1	ENSG00000159307	ENST00000461595	processed_transcript	KNOWN	None	13441	None	None	43712843	43716071	-1	None	None
22	SCUBE1	ENSG00000159307	ENST00000480833	processed_transcript	KNOWN	None	13441	None	None	43712964	43716071	-1	None	None
22	None	ENSG00000237601	ENST00000456260	processed_pseudogene	KNOWN	None	None	None	None	25099315	25099470	1	None	None
7	SRPK2	ENSG00000135250	ENST00000493638	processed_transcript	KNOWN	None	11306	None	None	104751151	104757926	-1	None	SFRSK2
7	SRPK2	ENSG00000135250	ENST00000465072	nonsense_mediated_decay	KNOWN	None	11306	444	147	104755716	104773240	-1	None	SFRSK2
7	SRPK2	ENSG00000135250	ENST00000393651	protein_coding	KNOWN	CCDS34724	11306	2100	699	104756823	105029341	-1	None	SFRSK2
7	SRPK2	ENSG00000135250	ENST00000357311	protein_coding	KNOWN	CCDS5735	11306	2067	688	104756824	104909462	-1	None	SFRSK2
7	SRPK2	ENSG00000135250	ENST00000466917	retained_intron	KNOWN	None	11306	None	None	104757743	104784513	-1	None	SFRSK2
7	SRPK2	ENSG00000135250	ENST00000485455	processed_transcript	PUTATIVE	None	11306	None	None	104757796	104844103	-1	None	SFRSK2
7	SRPK2	ENSG00000135250	ENST00000477925	protein_coding	NOVEL	None	11306	886	294	104757835	104782783	-1	None	SFRSK2
7	SRPK2	ENSG00000135250	ENST00000489828	protein_coding	KNOWN	CCDS5735	11306	2067	688	104757973	104939226	-1	None	SFRSK2
7	SRPK2	ENSG00000135250	ENST00000474770	protein_coding	NOVEL	None	11306	614	203	104758027	104773515	-1	None	SFRSK2
7	SRPK2	ENSG00000135250	ENST00000476117	retained_intron	KNOWN	None	11306	None	None	104800748	104844179	-1	None	SFRSK2
7	SRPK2	ENSG00000135250	ENST00000482897	protein_coding	PUTATIVE	None	11306	694	230	104800992	105029838	-1	None	SFRSK2
7	SRPK2	ENSG00000135250	ENST00000460391	protein_coding	KNOWN	None	11306	481	159	104807824	105029341	-1	None	SFRSK2
7	SRPK2	ENSG00000135250	ENST00000462282	processed_transcript	KNOWN	None	11306	None	None	104844074	105039755	-1	None	SFRSK2
7	SRPK2	ENSG00000135250	ENST00000465112	nonsense_mediated_decay	KNOWN	None	11306	207	68	104844141	105029345	-1	None	SFRSK2
7	SRPK2	ENSG00000135250	ENST00000482862	processed_transcript	KNOWN	None	11306	None	None	104844170	105029837	-1	None	SFRSK2
14	PARP2	ENSG00000129484	ENST00000429687	protein_coding	KNOWN	CCDS45077	272	1713	570	20811741	20826064	1	ADPRTL2	None
14	PARP2	ENSG00000129484	ENST00000250416	protein_coding	KNOWN	CCDS41910	272	1752	583	20811774	20826063	1	ADPRTL2	None
14	PARP2	ENSG00000129484	ENST00000529465	nonsense_mediated_decay	KNOWN	None	272	333	110	20811787	20823106	1	ADPRTL2	None
14	PARP2	ENSG00000129484	ENST00000527915	protein_coding	PUTATIVE	None	272	1596	531	20811796	20826062	1	ADPRTL2	None
14	PARP2	ENSG00000129484	ENST00000528465	retained_intron	KNOWN	None	272	None	None	20818858	20822267	1	ADPRTL2	None
14	PARP2	ENSG00000129484	ENST00000555140	processed_transcript	PUTATIVE	None	272	None	None	20820672	20822282	1	ADPRTL2	None
14	PARP2	ENSG00000129484	ENST00000527384	retained_intron	KNOWN	None	272	None	None	20822801	20824114	1	ADPRTL2	None
14	PARP2	ENSG00000129484	ENST00000532299	retained_intron	KNOWN	None	272	None	None	20823320	20824551	1	ADPRTL2	None
14	PARP2	ENSG00000129484	ENST00000539930	protein_coding	PUTATIVE	None	272	532	176	20823941	20825935	1	ADPRTL2	None
14	PARP2	ENSG00000129484	ENST00000530598	retained_intron	KNOWN	None	272	None	None	20823955	20825668	1	ADPRTL2	None
14	PARP2	ENSG00000129484	ENST00000534664	retained_intron	KNOWN	None	272	None	None	20824069	20824909	1	ADPRTL2	None
6	NFKBIE	ENSG00000146232	ENST00000275015	protein_coding	KNOWN	CCDS34463	7799	1503	500	44225903	44233500	-1	None	IKBE
6	NFKBIE	ENSG00000146232	ENST00000443607	protein_coding	KNOWN	None	7799	168	55	44226430	44227881	-1	None	IKBE
6	NFKBIE	ENSG00000146232	ENST00000477930	nonsense_mediated_decay	KNOWN	None	7799	673	223	44228211	44233330	-1	None	IKBE
22	CRIP1P4	ENSG00000182351	ENST00000442565	processed_pseudogene	KNOWN	None	44519	None	None	25108259	25108487	1	None	None
22	CRIP1P4	ENSG00000182351	ENST00000330974	processed_pseudogene	KNOWN	None	44519	None	None	25108259	25108489	1	None	None
16	None	ENSG00000261436	ENST00000565506	lincRNA	KNOWN	None	None	None	None	60393746	60399547	1	None	None
16	None	ENSG00000261436	ENST00000565133	lincRNA	KNOWN	None	None	None	None	60394446	60476149	1	None	None
3	PRR23C	ENSG00000233701	ENST00000413199	protein_coding	KNOWN	CCDS46924	37173	789	262	138760944	138763734	-1	None	FLJ46210
3	PRR23C	ENSG00000233701	ENST00000502927	protein_coding	KNOWN	CCDS46924	37173	789	262	138760944	138763734	-1	None	FLJ46210
6	DST	ENSG00000151914	ENST00000244364	protein_coding	KNOWN	CCDS47443	1090	15516	5171	56322785	56507794	-1	BPAG1	BP240, KIAA0728, FLJ21489, FLJ13425, FLJ32235, FLJ30627, CATX-15, BPA, MACF2
6	DST	ENSG00000151914	ENST00000370788	protein_coding	NOVEL	None	1090	16128	5375	56322794	56708463	-1	BPAG1	BP240, KIAA0728, FLJ21489, FLJ13425, FLJ32235, FLJ30627, CATX-15, BPA, MACF2
6	DST	ENSG00000151914	ENST00000523292	protein_coding	NOVEL	None	1090	779	258	56322858	56334754	-1	BPAG1	BP240, KIAA0728, FLJ21489, FLJ13425, FLJ32235, FLJ30627, CATX-15, BPA, MACF2
6	DST	ENSG00000151914	ENST00000518464	retained_intron	KNOWN	None	1090	None	None	56323037	56326866	-1	BPAG1	BP240, KIAA0728, FLJ21489, FLJ13425, FLJ32235, FLJ30627, CATX-15, BPA, MACF2
6	DST	ENSG00000151914	ENST00000466429	retained_intron	KNOWN	None	1090	None	None	56323037	56329114	-1	BPAG1	BP240, KIAA0728, FLJ21489, FLJ13425, FLJ32235, FLJ30627, CATX-15, BPA, MACF2
6	DST	ENSG00000151914	ENST00000482156	retained_intron	KNOWN	None	1090	None	None	56323043	56332274	-1	BPAG1	BP240, KIAA0728, FLJ21489, FLJ13425, FLJ32235, FLJ30627, CATX-15, BPA, MACF2
6	DST	ENSG00000151914	ENST00000361203	protein_coding	NOVEL	None	1090	22386	7461	56323766	56707951	-1	BPAG1	BP240, KIAA0728, FLJ21489, FLJ13425, FLJ32235, FLJ30627, CATX-15, BPA, MACF2
6	DST	ENSG00000151914	ENST00000523597	processed_transcript	KNOWN	None	1090	None	None	56324062	56331846	-1	BPAG1	BP240, KIAA0728, FLJ21489, FLJ13425, FLJ32235, FLJ30627, CATX-15, BPA, MACF2
6	DST	ENSG00000151914	ENST00000524216	retained_intron	KNOWN	None	1090	None	None	56329149	56330911	-1	BPAG1	BP240, KIAA0728, FLJ21489, FLJ13425, FLJ32235, FLJ30627, CATX-15, BPA, MACF2
6	DST	ENSG00000151914	ENST00000523943	protein_coding	PUTATIVE	None	1090	372	123	56336649	56338788	-1	BPAG1	BP240, KIAA0728, FLJ21489, FLJ13425, FLJ32235, FLJ30627, CATX-15, BPA, MACF2
6	DST	ENSG00000151914	ENST00000492944	retained_intron	KNOWN	None	1090	None	None	56336945	56339156	-1	BPAG1	BP240, KIAA0728, FLJ21489, FLJ13425, FLJ32235, FLJ30627, CATX-15, BPA, MACF2
6	DST	ENSG00000151914	ENST00000517840	retained_intron	KNOWN	None	1090	None	None	56340979	56347390	-1	BPAG1	BP240, KIAA0728, FLJ21489, FLJ13425, FLJ32235, FLJ30627, CATX-15, BPA, MACF2
6	DST	ENSG00000151914	ENST00000487754	retained_intron	KNOWN	None	1090	None	None	56348327	56357041	-1	BPAG1	BP240, KIAA0728, FLJ21489, FLJ13425, FLJ32235, FLJ30627, CATX-15, BPA, MACF2
6	DST	ENSG00000151914	ENST00000459869	retained_intron	KNOWN	None	1090	None	None	56357831	56362532	-1	BPAG1	BP240, KIAA0728, FLJ21489, FLJ13425, FLJ32235, FLJ30627, CATX-15, BPA, MACF2
6	DST	ENSG00000151914	ENST00000340834	processed_transcript	KNOWN	None	1090	None	None	56358863	56405458	-1	BPAG1	BP240, KIAA0728, FLJ21489, FLJ13425, FLJ32235, FLJ30627, CATX-15, BPA, MACF2
6	DST	ENSG00000151914	ENST00000524186	processed_transcript	KNOWN	None	1090	None	None	56399987	56407606	-1	BPAG1	BP240, KIAA0728, FLJ21489, FLJ13425, FLJ32235, FLJ30627, CATX-15, BPA, MACF2
6	DST	ENSG00000151914	ENST00000520144	retained_intron	KNOWN	None	1090	None	None	56420406	56425240	-1	BPAG1	BP240, KIAA0728, FLJ21489, FLJ13425, FLJ32235, FLJ30627, CATX-15, BPA, MACF2
6	DST	ENSG00000151914	ENST00000518398	nonsense_mediated_decay	KNOWN	None	1090	1346	447	56436898	56463311	-1	BPAG1	BP240, KIAA0728, FLJ21489, FLJ13425, FLJ32235, FLJ30627, CATX-15, BPA, MACF2
6	DST	ENSG00000151914	ENST00000439203	protein_coding	KNOWN	None	1090	9180	3059	56468635	56507586	-1	BPAG1	BP240, KIAA0728, FLJ21489, FLJ13425, FLJ32235, FLJ30627, CATX-15, BPA, MACF2
6	DST	ENSG00000151914	ENST00000520645	protein_coding	PUTATIVE	None	1090	4437	1478	56479262	56716749	-1	BPAG1	BP240, KIAA0728, FLJ21489, FLJ13425, FLJ32235, FLJ30627, CATX-15, BPA, MACF2
6	DST	ENSG00000151914	ENST00000370765	protein_coding	KNOWN	CCDS4959	1090	7950	2649	56479374	56507694	-1	BPAG1	BP240, KIAA0728, FLJ21489, FLJ13425, FLJ32235, FLJ30627, CATX-15, BPA, MACF2
6	DST	ENSG00000151914	ENST00000522360	protein_coding	NOVEL	None	1090	530	175	56481998	56492816	-1	BPAG1	BP240, KIAA0728, FLJ21489, FLJ13425, FLJ32235, FLJ30627, CATX-15, BPA, MACF2
6	DST	ENSG00000151914	ENST00000518935	protein_coding	PUTATIVE	None	1090	3432	1143	56489171	56507658	-1	BPAG1	BP240, KIAA0728, FLJ21489, FLJ13425, FLJ32235, FLJ30627, CATX-15, BPA, MACF2
6	DST	ENSG00000151914	ENST00000523967	retained_intron	KNOWN	None	1090	None	None	56503714	56716515	-1	BPAG1	BP240, KIAA0728, FLJ21489, FLJ13425, FLJ32235, FLJ30627, CATX-15, BPA, MACF2
6	DST	ENSG00000151914	ENST00000521104	retained_intron	KNOWN	None	1090	None	None	56503734	56558101	-1	BPAG1	BP240, KIAA0728, FLJ21489, FLJ13425, FLJ32235, FLJ30627, CATX-15, BPA, MACF2
6	DST	ENSG00000151914	ENST00000449297	protein_coding	NOVEL	None	1090	2067	688	56505265	56819426	-1	BPAG1	BP240, KIAA0728, FLJ21489, FLJ13425, FLJ32235, FLJ30627, CATX-15, BPA, MACF2
6	DST	ENSG00000151914	ENST00000518828	retained_intron	KNOWN	None	1090	None	None	56506985	56507687	-1	BPAG1	BP240, KIAA0728, FLJ21489, FLJ13425, FLJ32235, FLJ30627, CATX-15, BPA, MACF2
6	DST	ENSG00000151914	ENST00000521821	retained_intron	KNOWN	None	1090	None	None	56535286	56707944	-1	BPAG1	BP240, KIAA0728, FLJ21489, FLJ13425, FLJ32235, FLJ30627, CATX-15, BPA, MACF2
6	DST	ENSG00000151914	ENST00000522538	protein_coding	PUTATIVE	None	1090	400	132	56535473	56650677	-1	BPAG1	BP240, KIAA0728, FLJ21489, FLJ13425, FLJ32235, FLJ30627, CATX-15, BPA, MACF2
6	DST	ENSG00000151914	ENST00000523817	protein_coding	PUTATIVE	None	1090	462	153	56535537	56708013	-1	BPAG1	BP240, KIAA0728, FLJ21489, FLJ13425, FLJ32235, FLJ30627, CATX-15, BPA, MACF2
6	DST	ENSG00000151914	ENST00000517937	retained_intron	KNOWN	None	1090	None	None	56599856	56716699	-1	BPAG1	BP240, KIAA0728, FLJ21489, FLJ13425, FLJ32235, FLJ30627, CATX-15, BPA, MACF2
6	DST	ENSG00000151914	ENST00000524302	retained_intron	KNOWN	None	1090	None	None	56715897	56716656	-1	BPAG1	BP240, KIAA0728, FLJ21489, FLJ13425, FLJ32235, FLJ30627, CATX-15, BPA, MACF2
6	DST	ENSG00000151914	ENST00000370754	protein_coding	KNOWN	None	1090	23253	7750	56322787	56819385	-1	BPAG1	BP240, KIAA0728, FLJ21489, FLJ13425, FLJ32235, FLJ30627, CATX-15, BPA, MACF2
6	DST	ENSG00000151914	ENST00000370769	protein_coding	KNOWN	None	1090	22719	7572	56322787	56707943	-1	BPAG1	BP240, KIAA0728, FLJ21489, FLJ13425, FLJ32235, FLJ30627, CATX-15, BPA, MACF2
6	DST	ENSG00000151914	ENST00000421834	protein_coding	KNOWN	None	1090	16374	5457	56322787	56707943	-1	BPAG1	BP240, KIAA0728, FLJ21489, FLJ13425, FLJ32235, FLJ30627, CATX-15, BPA, MACF2
6	DST	ENSG00000151914	ENST00000446842	protein_coding	KNOWN	None	1090	21741	7246	56322787	56507694	-1	BPAG1	BP240, KIAA0728, FLJ21489, FLJ13425, FLJ32235, FLJ30627, CATX-15, BPA, MACF2
6	DST	ENSG00000151914	ENST00000312431	protein_coding	KNOWN	None	1090	12603	4200	56322787	56707943	-1	BPAG1	BP240, KIAA0728, FLJ21489, FLJ13425, FLJ32235, FLJ30627, CATX-15, BPA, MACF2
21	DIP2A	ENSG00000160305	ENST00000400274	protein_coding	KNOWN	CCDS54490	17217	4704	1567	47878812	47989621	1	C21orf106	Dip2, KIAA0184
21	DIP2A	ENSG00000160305	ENST00000457905	protein_coding	KNOWN	CCDS46656	17217	2670	889	47878863	47970023	1	C21orf106	Dip2, KIAA0184
21	DIP2A	ENSG00000160305	ENST00000466639	protein_coding	KNOWN	CCDS54491	17217	2397	798	47878890	47967118	1	C21orf106	Dip2, KIAA0184
21	DIP2A	ENSG00000160305	ENST00000435722	protein_coding	KNOWN	CCDS46657	17217	2526	841	47878970	47967118	1	C21orf106	Dip2, KIAA0184
21	DIP2A	ENSG00000160305	ENST00000417564	protein_coding	KNOWN	CCDS46655	17217	4716	1571	47879024	47989765	1	C21orf106	Dip2, KIAA0184
21	DIP2A	ENSG00000160305	ENST00000473752	processed_transcript	PUTATIVE	None	17217	None	None	47924226	47965118	1	C21orf106	Dip2, KIAA0184
21	DIP2A	ENSG00000160305	ENST00000494435	retained_intron	KNOWN	None	17217	None	None	47924293	47966217	1	C21orf106	Dip2, KIAA0184
21	DIP2A	ENSG00000160305	ENST00000480553	retained_intron	KNOWN	None	17217	None	None	47958648	47967118	1	C21orf106	Dip2, KIAA0184
21	DIP2A	ENSG00000160305	ENST00000472364	retained_intron	KNOWN	None	17217	None	None	47972824	47978651	1	C21orf106	Dip2, KIAA0184
21	DIP2A	ENSG00000160305	ENST00000481883	retained_intron	KNOWN	None	17217	None	None	47975432	47979019	1	C21orf106	Dip2, KIAA0184
21	DIP2A	ENSG00000160305	ENST00000478105	retained_intron	KNOWN	None	17217	None	None	47981198	47989621	1	C21orf106	Dip2, KIAA0184
21	DIP2A	ENSG00000160305	ENST00000479654	processed_transcript	PUTATIVE	None	17217	None	None	47983573	47989621	1	C21orf106	Dip2, KIAA0184
21	DIP2A	ENSG00000160305	ENST00000318711	protein_coding	KNOWN	None	17217	4719	1572	47878862	47989926	1	C21orf106	Dip2, KIAA0184
21	DIP2A	ENSG00000160305	ENST00000427143	protein_coding	KNOWN	CCDS54492	17217	3333	1110	47878855	47976432	1	C21orf106	Dip2, KIAA0184
6	None	ENSG00000264241	ENST00000583622	miRNA	NOVEL	None	None	None	None	35101231	35101315	1	None	None
3	DYNC1LI1	ENSG00000144635	ENST00000273130	protein_coding	KNOWN	CCDS2654	18745	1572	523	32567463	32612366	-1	DNCLI1	None
3	DYNC1LI1	ENSG00000144635	ENST00000481915	retained_intron	KNOWN	None	18745	None	None	32567592	32612185	-1	DNCLI1	None
3	DYNC1LI1	ENSG00000144635	ENST00000432458	protein_coding	NOVEL	None	18745	1224	407	32567776	32612350	-1	DNCLI1	None
3	DYNC1LI1	ENSG00000144635	ENST00000472985	retained_intron	KNOWN	None	18745	None	None	32571122	32578764	-1	DNCLI1	None
3	DYNC1LI1	ENSG00000144635	ENST00000413350	protein_coding	PUTATIVE	None	18745	570	189	32582544	32611745	-1	DNCLI1	None
3	DYNC1LI1	ENSG00000144635	ENST00000424991	protein_coding	PUTATIVE	None	18745	578	191	32586481	32612350	-1	DNCLI1	None
3	DYNC1LI1	ENSG00000144635	ENST00000475193	retained_intron	KNOWN	None	18745	None	None	32586919	32612317	-1	DNCLI1	None
3	DYNC1LI1	ENSG00000144635	ENST00000474077	retained_intron	KNOWN	None	18745	None	None	32587366	32612350	-1	DNCLI1	None
22	None	ENSG00000199783	ENST00000362913	snoRNA	NOVEL	None	None	None	None	25297114	25297181	-1	None	None
4	LINC00989	ENSG00000250334	ENST00000508174	lincRNA	KNOWN	None	48918	None	None	80413570	80497614	1	None	None
4	LINC00989	ENSG00000250334	ENST00000515544	lincRNA	KNOWN	None	48918	None	None	80413747	80497612	1	None	None
6	None	ENSG00000272374	ENST00000605896	lincRNA	KNOWN	None	None	None	None	35188147	35192407	-1	None	None
Y	TCEB1P11	ENSG00000227867	ENST00000436690	processed_pseudogene	KNOWN	None	38147	None	None	28137388	28137719	-1	None	None
22	None	ENSG00000203280	ENST00000366110	antisense	KNOWN	None	None	None	None	25498407	25508659	-1	None	None
1	CELSR2	ENSG00000143126	ENST00000271332	protein_coding	KNOWN	CCDS796	3231	8772	2923	109792641	109818372	1	EGFL2	KIAA0279, MEGF3, Flamingo1, CDHF10
1	CELSR2	ENSG00000143126	ENST00000459940	processed_transcript	KNOWN	None	3231	None	None	109807891	109809061	1	EGFL2	KIAA0279, MEGF3, Flamingo1, CDHF10
1	CELSR2	ENSG00000143126	ENST00000489018	processed_transcript	KNOWN	None	3231	None	None	109812349	109816931	1	EGFL2	KIAA0279, MEGF3, Flamingo1, CDHF10
1	CELSR2	ENSG00000143126	ENST00000498157	processed_transcript	KNOWN	None	3231	None	None	109813446	109818229	1	EGFL2	KIAA0279, MEGF3, Flamingo1, CDHF10
Y	CDY23P	ENSG00000231716	ENST00000451661	unprocessed_pseudogene	KNOWN	None	23867	None	None	28140831	28141844	-1	None	None
22	None	ENSG00000271181	ENST00000604037	processed_pseudogene	KNOWN	None	None	None	None	25575276	25575521	-1	None	None
17	EFTUD2	ENSG00000108883	ENST00000426333	protein_coding	KNOWN	CCDS11489	30858	2919	972	42927311	42977030	-1	None	U5-116KD, Snrp116, Snu114, SNRNP116
17	EFTUD2	ENSG00000108883	ENST00000586276	retained_intron	KNOWN	None	30858	None	None	42928178	42940963	-1	None	U5-116KD, Snrp116, Snu114, SNRNP116
17	EFTUD2	ENSG00000108883	ENST00000592576	protein_coding	NOVEL	CCDS59295	30858	2889	962	42928234	42976799	-1	None	U5-116KD, Snrp116, Snu114, SNRNP116
17	EFTUD2	ENSG00000108883	ENST00000590367	retained_intron	KNOWN	None	30858	None	None	42928284	42950535	-1	None	U5-116KD, Snrp116, Snu114, SNRNP116
17	EFTUD2	ENSG00000108883	ENST00000591382	protein_coding	KNOWN	CCDS11489	30858	2919	972	42928284	42976736	-1	None	U5-116KD, Snrp116, Snu114, SNRNP116
17	EFTUD2	ENSG00000108883	ENST00000590977	retained_intron	KNOWN	None	30858	None	None	42928285	42937017	-1	None	U5-116KD, Snrp116, Snu114, SNRNP116
17	EFTUD2	ENSG00000108883	ENST00000590124	protein_coding	NOVEL	None	30858	672	223	42928415	42934489	-1	None	U5-116KD, Snrp116, Snu114, SNRNP116
17	EFTUD2	ENSG00000108883	ENST00000402521	protein_coding	KNOWN	CCDS45707	30858	2814	937	42928488	42976813	-1	None	U5-116KD, Snrp116, Snu114, SNRNP116
17	EFTUD2	ENSG00000108883	ENST00000589769	nonsense_mediated_decay	KNOWN	None	30858	404	133	42928625	42932030	-1	None	U5-116KD, Snrp116, Snu114, SNRNP116
17	EFTUD2	ENSG00000108883	ENST00000588340	retained_intron	KNOWN	None	30858	None	None	42932343	42935007	-1	None	U5-116KD, Snrp116, Snu114, SNRNP116
17	EFTUD2	ENSG00000108883	ENST00000585616	processed_transcript	KNOWN	None	30858	None	None	42937822	42942636	-1	None	U5-116KD, Snrp116, Snu114, SNRNP116
17	EFTUD2	ENSG00000108883	ENST00000587914	retained_intron	KNOWN	None	30858	None	None	42940121	42941430	-1	None	U5-116KD, Snrp116, Snu114, SNRNP116
17	EFTUD2	ENSG00000108883	ENST00000585794	retained_intron	KNOWN	None	30858	None	None	42940128	42942600	-1	None	U5-116KD, Snrp116, Snu114, SNRNP116
17	EFTUD2	ENSG00000108883	ENST00000586654	retained_intron	KNOWN	None	30858	None	None	42940158	42945767	-1	None	U5-116KD, Snrp116, Snu114, SNRNP116
17	EFTUD2	ENSG00000108883	ENST00000591856	nonsense_mediated_decay	KNOWN	None	30858	117	38	42942338	42949894	-1	None	U5-116KD, Snrp116, Snu114, SNRNP116
17	EFTUD2	ENSG00000108883	ENST00000587957	retained_intron	KNOWN	None	30858	None	None	42953001	42956958	-1	None	U5-116KD, Snrp116, Snu114, SNRNP116
17	EFTUD2	ENSG00000108883	ENST00000593200	retained_intron	KNOWN	None	30858	None	None	42953307	42959203	-1	None	U5-116KD, Snrp116, Snu114, SNRNP116
17	EFTUD2	ENSG00000108883	ENST00000588374	nonsense_mediated_decay	KNOWN	None	30858	102	33	42953457	42971865	-1	None	U5-116KD, Snrp116, Snu114, SNRNP116
17	EFTUD2	ENSG00000108883	ENST00000589475	retained_intron	KNOWN	None	30858	None	None	42956884	42957998	-1	None	U5-116KD, Snrp116, Snu114, SNRNP116
17	EFTUD2	ENSG00000108883	ENST00000586875	retained_intron	KNOWN	None	30858	None	None	42957845	42959211	-1	None	U5-116KD, Snrp116, Snu114, SNRNP116
17	EFTUD2	ENSG00000108883	ENST00000593072	protein_coding	KNOWN	None	30858	445	147	42960508	42976771	-1	None	U5-116KD, Snrp116, Snu114, SNRNP116
17	EFTUD2	ENSG00000108883	ENST00000589825	retained_intron	KNOWN	None	30858	None	None	42960924	42976813	-1	None	U5-116KD, Snrp116, Snu114, SNRNP116
17	EFTUD2	ENSG00000108883	ENST00000592408	retained_intron	KNOWN	None	30858	None	None	42962624	42976771	-1	None	U5-116KD, Snrp116, Snu114, SNRNP116
17	EFTUD2	ENSG00000108883	ENST00000592701	protein_coding	KNOWN	None	30858	319	105	42962655	42976417	-1	None	U5-116KD, Snrp116, Snu114, SNRNP116
17	EFTUD2	ENSG00000108883	ENST00000589211	processed_transcript	KNOWN	None	30858	None	None	42964031	42969697	-1	None	U5-116KD, Snrp116, Snu114, SNRNP116
17	EFTUD2	ENSG00000108883	ENST00000590105	retained_intron	KNOWN	None	30858	None	None	42971502	42976771	-1	None	U5-116KD, Snrp116, Snu114, SNRNP116
Y	USP9YP26	ENSG00000234744	ENST00000421008	unprocessed_pseudogene	KNOWN	None	38762	None	None	28148401	28155003	1	None	None
12	LRTM2	ENSG00000166159	ENST00000545157	processed_transcript	PUTATIVE	None	32443	None	None	1929649	1936894	1	None	None
12	LRTM2	ENSG00000166159	ENST00000542529	processed_transcript	PUTATIVE	None	32443	None	None	1929676	1936963	1	None	None
12	LRTM2	ENSG00000166159	ENST00000543730	processed_transcript	PUTATIVE	None	32443	None	None	1929676	1945914	1	None	None
12	LRTM2	ENSG00000166159	ENST00000299194	protein_coding	KNOWN	CCDS31726	32443	1113	370	1929695	1945918	1	None	None
12	LRTM2	ENSG00000166159	ENST00000544489	processed_transcript	KNOWN	None	32443	None	None	1929738	1940134	1	None	None
12	LRTM2	ENSG00000166159	ENST00000540378	processed_transcript	PUTATIVE	None	32443	None	None	1929740	1940396	1	None	None
12	LRTM2	ENSG00000166159	ENST00000539859	processed_transcript	PUTATIVE	None	32443	None	None	1929750	1936982	1	None	None
12	LRTM2	ENSG00000166159	ENST00000535041	protein_coding	NOVEL	CCDS31726	32443	1113	370	1929797	1945565	1	None	None
12	LRTM2	ENSG00000166159	ENST00000546167	protein_coding	PUTATIVE	None	32443	279	92	1931248	1940312	1	None	None
12	LRTM2	ENSG00000166159	ENST00000543694	protein_coding	PUTATIVE	None	32443	287	94	1932402	1940320	1	None	None
12	LRTM2	ENSG00000166159	ENST00000546157	processed_transcript	PUTATIVE	None	32443	None	None	1936729	1940267	1	None	None
12	LRTM2	ENSG00000166159	ENST00000543818	protein_coding	KNOWN	CCDS31726	32443	1113	370	1929433	1945918	1	None	None
Y	HSFY8P	ENSG00000233156	ENST00000437934	unprocessed_pseudogene	KNOWN	None	38792	None	None	28157582	28158384	1	None	None
20	SLX4IP	ENSG00000149346	ENST00000334534	protein_coding	KNOWN	CCDS33439	16225	1227	408	10415951	10604027	1	C20orf94	dJ1099D15.3
20	SLX4IP	ENSG00000149346	ENST00000488816	nonsense_mediated_decay	KNOWN	None	16225	236	77	10579323	10617477	1	C20orf94	dJ1099D15.3
Y	OFD1P15Y	ENSG00000234888	ENST00000411536	unprocessed_pseudogene	KNOWN	None	23887	None	None	28201926	28234640	-1	OFDYP15, OFD1P15, OFD1PY15	None
X	CHST7	ENSG00000147119	ENST00000276055	protein_coding	KNOWN	CCDS14268	13817	1461	486	46433219	46457843	1	None	C6ST-2, C6ST2
2	ARHGAP15	ENSG00000075884	ENST00000409869	protein_coding	PUTATIVE	None	21030	417	138	143848931	143995921	1	None	BM046
2	ARHGAP15	ENSG00000075884	ENST00000295095	protein_coding	KNOWN	CCDS2184	21030	1428	475	143886883	144525921	1	None	BM046
2	ARHGAP15	ENSG00000075884	ENST00000552641	retained_intron	KNOWN	None	21030	None	None	143886982	144194926	1	None	BM046
2	ARHGAP15	ENSG00000075884	ENST00000460776	processed_transcript	KNOWN	None	21030	None	None	143950953	144193268	1	None	BM046
2	ARHGAP15	ENSG00000075884	ENST00000474474	processed_transcript	KNOWN	None	21030	None	None	143985667	144193268	1	None	BM046
2	ARHGAP15	ENSG00000075884	ENST00000469117	processed_transcript	KNOWN	None	21030	None	None	144004859	144194611	1	None	BM046
2	ARHGAP15	ENSG00000075884	ENST00000548800	retained_intron	KNOWN	None	21030	None	None	144192833	144194672	1	None	BM046
2	ARHGAP15	ENSG00000075884	ENST00000548242	processed_transcript	KNOWN	None	21030	None	None	144192835	144290886	1	None	BM046
2	ARHGAP15	ENSG00000075884	ENST00000548929	retained_intron	KNOWN	None	21030	None	None	144192883	144245048	1	None	BM046
2	ARHGAP15	ENSG00000075884	ENST00000552289	retained_intron	KNOWN	None	21030	None	None	144244932	144277054	1	None	BM046
2	ARHGAP15	ENSG00000075884	ENST00000549436	retained_intron	KNOWN	None	21030	None	None	144276847	144461529	1	None	BM046
2	ARHGAP15	ENSG00000075884	ENST00000419455	nonsense_mediated_decay	KNOWN	None	21030	170	55	144313977	144381836	1	None	BM046
2	ARHGAP15	ENSG00000075884	ENST00000473426	processed_transcript	KNOWN	None	21030	None	None	144359086	144366328	1	None	BM046
2	ARHGAP15	ENSG00000075884	ENST00000549060	processed_transcript	KNOWN	None	21030	None	None	144463980	144525917	1	None	BM046
9	FAM225B	ENSG00000225684	ENST00000439875	lincRNA	KNOWN	None	21865	None	None	115865618	115873753	-1	C9orf110, NCRNA00256B, LINC00256B	None
9	FAM225B	ENSG00000225684	ENST00000423546	lincRNA	KNOWN	None	21865	None	None	115867003	115873780	-1	C9orf110, NCRNA00256B, LINC00256B	None
10	DNMBP-AS1	ENSG00000227695	ENST00000427093	antisense	KNOWN	None	20431	None	None	101686767	101689595	1	NCRNA00093	FLJ40792, bA287G8.2
10	DNMBP-AS1	ENSG00000227695	ENST00000434409	antisense	KNOWN	None	20431	None	None	101686966	101718138	1	NCRNA00093	FLJ40792, bA287G8.2
9	FAM120A	ENSG00000048828	ENST00000277165	protein_coding	KNOWN	CCDS6706	13247	3357	1118	96214004	96328389	1	C9orf10	KIAA0183, DNAPTP1, OSSA
9	FAM120A	ENSG00000048828	ENST00000375389	protein_coding	KNOWN	None	13247	1887	628	96214173	96293688	1	C9orf10	KIAA0183, DNAPTP1, OSSA
9	FAM120A	ENSG00000048828	ENST00000446420	protein_coding	KNOWN	None	13247	1488	495	96214666	96294871	1	C9orf10	KIAA0183, DNAPTP1, OSSA
9	FAM120A	ENSG00000048828	ENST00000475933	processed_transcript	KNOWN	None	13247	None	None	96291752	96294866	1	C9orf10	KIAA0183, DNAPTP1, OSSA
9	FAM120A	ENSG00000048828	ENST00000427765	protein_coding	KNOWN	None	13247	1485	494	96294437	96327047	1	C9orf10	KIAA0183, DNAPTP1, OSSA
9	FAM120A	ENSG00000048828	ENST00000333936	protein_coding	KNOWN	None	13247	3441	1146	96214173	96328397	1	C9orf10	KIAA0183, DNAPTP1, OSSA
9	FAM120A	ENSG00000048828	ENST00000340893	protein_coding	KNOWN	None	13247	3219	1072	96214173	96328397	1	C9orf10	KIAA0183, DNAPTP1, OSSA
1	EYA3	ENSG00000158161	ENST00000373871	protein_coding	KNOWN	CCDS316	3521	1722	573	28296855	28415207	-1	None	DKFZp686C132
1	EYA3	ENSG00000158161	ENST00000373864	protein_coding	KNOWN	None	3521	1251	416	28299979	28384598	-1	None	DKFZp686C132
1	EYA3	ENSG00000158161	ENST00000373863	protein_coding	KNOWN	None	3521	1611	536	28303784	28415075	-1	None	DKFZp686C132
1	EYA3	ENSG00000158161	ENST00000495923	processed_transcript	KNOWN	None	3521	None	None	28314984	28337597	-1	None	DKFZp686C132
1	EYA3	ENSG00000158161	ENST00000471498	processed_transcript	KNOWN	None	3521	None	None	28314990	28415108	-1	None	DKFZp686C132
1	EYA3	ENSG00000158161	ENST00000468665	processed_transcript	KNOWN	None	3521	None	None	28337307	28362190	-1	None	DKFZp686C132
1	EYA3	ENSG00000158161	ENST00000540618	protein_coding	KNOWN	None	3521	1584	527	28300906	28415142	-1	None	DKFZp686C132
1	EYA3	ENSG00000158161	ENST00000545175	protein_coding	KNOWN	None	3521	1563	520	28300961	28415145	-1	None	DKFZp686C132
1	EYA3	ENSG00000158161	ENST00000436342	protein_coding	KNOWN	None	3521	1344	447	28296858	28415115	-1	None	DKFZp686C132
4	LAP3	ENSG00000002549	ENST00000226299	protein_coding	KNOWN	CCDS3422	18449	1560	519	17578815	17609591	1	PEPS	LAPEP, LAP
4	LAP3	ENSG00000002549	ENST00000508497	retained_intron	KNOWN	None	18449	None	None	17579049	17583775	1	PEPS	LAPEP, LAP
4	LAP3	ENSG00000002549	ENST00000512397	retained_intron	KNOWN	None	18449	None	None	17579075	17584312	1	PEPS	LAPEP, LAP
4	LAP3	ENSG00000002549	ENST00000606142	protein_coding	KNOWN	None	18449	1467	488	17579118	17609557	1	PEPS	LAPEP, LAP
4	LAP3	ENSG00000002549	ENST00000509583	nonsense_mediated_decay	KNOWN	None	18449	359	118	17579120	17587079	1	PEPS	LAPEP, LAP
4	LAP3	ENSG00000002549	ENST00000507960	processed_transcript	KNOWN	None	18449	None	None	17584003	17586674	1	PEPS	LAPEP, LAP
4	LAP3	ENSG00000002549	ENST00000508014	retained_intron	KNOWN	None	18449	None	None	17585054	17587690	1	PEPS	LAPEP, LAP
4	LAP3	ENSG00000002549	ENST00000513105	protein_coding	NOVEL	None	18449	626	207	17585225	17608507	1	PEPS	LAPEP, LAP
4	LAP3	ENSG00000002549	ENST00000504614	processed_transcript	KNOWN	None	18449	None	None	17586424	17606290	1	PEPS	LAPEP, LAP
4	LAP3	ENSG00000002549	ENST00000503467	processed_transcript	KNOWN	None	18449	None	None	17587392	17609595	1	PEPS	LAPEP, LAP
19	NPAS1	ENSG00000130751	ENST00000602212	protein_coding	KNOWN	CCDS12694	7894	1773	590	47523077	47549033	1	None	MOP5, PASD5, bHLHe11
19	NPAS1	ENSG00000130751	ENST00000602189	protein_coding	PUTATIVE	None	7894	1248	415	47523106	47548985	1	None	MOP5, PASD5, bHLHe11
19	NPAS1	ENSG00000130751	ENST00000449844	protein_coding	KNOWN	CCDS12694	7894	1773	590	47524143	47549017	1	None	MOP5, PASD5, bHLHe11
19	NPAS1	ENSG00000130751	ENST00000439365	protein_coding	PUTATIVE	None	7894	705	234	47538587	47549016	1	None	MOP5, PASD5, bHLHe11
19	NPAS1	ENSG00000130751	ENST00000601169	retained_intron	KNOWN	None	7894	None	None	47538590	47544016	1	None	MOP5, PASD5, bHLHe11
19	NPAS1	ENSG00000130751	ENST00000594670	protein_coding	PUTATIVE	None	7894	642	213	47538606	47544383	1	None	MOP5, PASD5, bHLHe11
19	NPAS1	ENSG00000130751	ENST00000594257	nonsense_mediated_decay	KNOWN	None	7894	288	95	47538608	47546135	1	None	MOP5, PASD5, bHLHe11
19	NPAS1	ENSG00000130751	ENST00000600352	retained_intron	KNOWN	None	7894	None	None	47539147	47543991	1	None	MOP5, PASD5, bHLHe11
7	ASZ1	ENSG00000154438	ENST00000284629	protein_coding	KNOWN	CCDS5772	1350	1428	475	117003276	117067577	-1	C7orf7, ANKL1	Orf3, GASZ, ALP1, CT1.19
7	ASZ1	ENSG00000154438	ENST00000463182	retained_intron	KNOWN	None	1350	None	None	117003362	117067552	-1	C7orf7, ANKL1	Orf3, GASZ, ALP1, CT1.19
7	ASZ1	ENSG00000154438	ENST00000479454	retained_intron	KNOWN	None	1350	None	None	117003362	117067557	-1	C7orf7, ANKL1	Orf3, GASZ, ALP1, CT1.19
7	ASZ1	ENSG00000154438	ENST00000465832	retained_intron	KNOWN	None	1350	None	None	117003369	117067559	-1	C7orf7, ANKL1	Orf3, GASZ, ALP1, CT1.19
7	ASZ1	ENSG00000154438	ENST00000450714	nonsense_mediated_decay	KNOWN	None	1350	447	148	117003590	117067561	-1	C7orf7, ANKL1	Orf3, GASZ, ALP1, CT1.19
7	ASZ1	ENSG00000154438	ENST00000428663	protein_coding	PUTATIVE	None	1350	134	43	117062326	117068177	-1	C7orf7, ANKL1	Orf3, GASZ, ALP1, CT1.19
HSCHR6_MHC_QBL	PPP1R18	ENSG00000206485	ENST00000494832	processed_transcript	KNOWN	None	29413	None	None	30633702	30644471	-1	KIAA1949	phostensin
HSCHR6_MHC_QBL	PPP1R18	ENSG00000206485	ENST00000465704	processed_transcript	KNOWN	None	29413	None	None	30633702	30644506	-1	KIAA1949	phostensin
HSCHR6_MHC_QBL	PPP1R18	ENSG00000206485	ENST00000383573	protein_coding	KNOWN	None	29413	1842	613	30633702	30644529	-1	KIAA1949	phostensin
HSCHR6_MHC_QBL	PPP1R18	ENSG00000206485	ENST00000400554	protein_coding	KNOWN	None	29413	1842	613	30633702	30645208	-1	KIAA1949	phostensin
HSCHR6_MHC_QBL	PPP1R18	ENSG00000206485	ENST00000550073	protein_coding	KNOWN	None	29413	1134	377	30634371	30643331	-1	KIAA1949	phostensin
4	None	ENSG00000253069	ENST00000517260	miRNA	NOVEL	None	None	None	None	123748169	123748245	1	None	None
4	None	ENSG00000240775	ENST00000468797	processed_pseudogene	KNOWN	None	None	None	None	123761498	123761845	1	None	None
4	None	ENSG00000216154	ENST00000401335	miRNA	NOVEL	None	None	None	None	123928727	123928818	-1	None	None
X	SLC9A7	ENSG00000065923	ENST00000328306	protein_coding	KNOWN	CCDS14269	17123	2178	725	46464753	46618490	-1	None	NHE7
X	SLC9A7	ENSG00000065923	ENST00000464933	processed_transcript	KNOWN	None	17123	None	None	46465696	46495069	-1	None	NHE7
X	SLC9A7	ENSG00000065923	ENST00000491894	processed_transcript	KNOWN	None	17123	None	None	46465730	46480451	-1	None	NHE7
X	SLC9A7	ENSG00000065923	ENST00000489574	processed_transcript	KNOWN	None	17123	None	None	46465730	46529121	-1	None	NHE7
19	SLC7A10	ENSG00000130876	ENST00000253188	protein_coding	KNOWN	CCDS12431	11058	1572	523	33699571	33716756	-1	None	asc-1
19	SLC7A10	ENSG00000130876	ENST00000590490	retained_intron	KNOWN	None	11058	None	None	33699682	33702595	-1	None	asc-1
19	SLC7A10	ENSG00000130876	ENST00000590036	nonsense_mediated_decay	KNOWN	None	11058	1170	389	33699726	33716704	-1	None	asc-1
19	SLC7A10	ENSG00000130876	ENST00000587064	nonsense_mediated_decay	KNOWN	None	11058	216	71	33702333	33716704	-1	None	asc-1
19	SLC7A10	ENSG00000130876	ENST00000592596	nonsense_mediated_decay	KNOWN	None	11058	216	71	33702445	33716704	-1	None	asc-1
17	FBF1	ENSG00000188878	ENST00000586717	protein_coding	KNOWN	None	24674	3402	1133	73905655	73937119	-1	None	FLJ00103, FBF-1, KIAA1863, ALB
17	FBF1	ENSG00000188878	ENST00000590264	protein_coding	KNOWN	None	24674	279	92	73905662	73909861	-1	None	FLJ00103, FBF-1, KIAA1863, ALB
17	FBF1	ENSG00000188878	ENST00000585990	retained_intron	KNOWN	None	24674	None	None	73905925	73937221	-1	None	FLJ00103, FBF-1, KIAA1863, ALB
17	FBF1	ENSG00000188878	ENST00000592193	protein_coding	NOVEL	None	24674	3445	1147	73906804	73933675	-1	None	FLJ00103, FBF-1, KIAA1863, ALB
17	FBF1	ENSG00000188878	ENST00000588283	nonsense_mediated_decay	KNOWN	None	24674	267	88	73908272	73913842	-1	None	FLJ00103, FBF-1, KIAA1863, ALB
17	FBF1	ENSG00000188878	ENST00000586112	retained_intron	KNOWN	None	24674	None	None	73909560	73910221	-1	None	FLJ00103, FBF-1, KIAA1863, ALB
17	FBF1	ENSG00000188878	ENST00000593076	retained_intron	KNOWN	None	24674	None	None	73910116	73911124	-1	None	FLJ00103, FBF-1, KIAA1863, ALB
17	FBF1	ENSG00000188878	ENST00000586838	nonsense_mediated_decay	KNOWN	None	24674	451	149	73916354	73919554	-1	None	FLJ00103, FBF-1, KIAA1863, ALB
17	FBF1	ENSG00000188878	ENST00000586631	protein_coding	PUTATIVE	None	24674	153	50	73933793	73937028	-1	None	FLJ00103, FBF-1, KIAA1863, ALB
17	FBF1	ENSG00000188878	ENST00000588478	processed_transcript	KNOWN	None	24674	None	None	73934254	73937137	-1	None	FLJ00103, FBF-1, KIAA1863, ALB
17	FBF1	ENSG00000188878	ENST00000389570	protein_coding	KNOWN	None	24674	3405	1134	73906618	73937119	-1	None	FLJ00103, FBF-1, KIAA1863, ALB
17	FBF1	ENSG00000188878	ENST00000319129	protein_coding	KNOWN	CCDS45779	24674	3402	1133	73906618	73937119	-1	None	FLJ00103, FBF-1, KIAA1863, ALB
X	REPS2	ENSG00000169891	ENST00000357277	protein_coding	KNOWN	CCDS14180	9963	1983	660	16964814	17171395	1	None	POB1
X	REPS2	ENSG00000169891	ENST00000303843	protein_coding	KNOWN	CCDS43919	9963	1980	659	16964985	17171395	1	None	POB1
X	REPS2	ENSG00000169891	ENST00000481792	processed_transcript	PUTATIVE	None	9963	None	None	16965193	17040494	1	None	POB1
X	REPS2	ENSG00000169891	ENST00000469714	processed_transcript	KNOWN	None	9963	None	None	17092636	17165752	1	None	POB1
X	REPS2	ENSG00000169891	ENST00000470686	retained_intron	KNOWN	None	9963	None	None	17153817	17165751	1	None	POB1
X	REPS2	ENSG00000169891	ENST00000380064	protein_coding	KNOWN	None	9963	1380	459	16996667	17165745	1	None	POB1
4	RNA5SP152	ENSG00000202054	ENST00000365184	rRNA	KNOWN	None	43052	None	None	8394742	8394851	1	RN5S152	None
4	None	ENSG00000251186	ENST00000515186	antisense	KNOWN	None	None	None	None	8455137	8456669	-1	None	None
4	LARP1B	ENSG00000138709	ENST00000326639	protein_coding	KNOWN	CCDS3738	24704	2745	914	128982423	129133143	1	LARP2	FLJ10378, DKFZp434K245, DKFZp686E0316
4	LARP1B	ENSG00000138709	ENST00000512292	protein_coding	PUTATIVE	None	24704	1557	518	128982441	129045024	1	LARP2	FLJ10378, DKFZp434K245, DKFZp686E0316
4	LARP1B	ENSG00000138709	ENST00000508819	protein_coding	NOVEL	None	24704	1724	573	128982467	129100565	1	LARP2	FLJ10378, DKFZp434K245, DKFZp686E0316
4	LARP1B	ENSG00000138709	ENST00000394288	protein_coding	KNOWN	None	24704	1008	335	128982490	129030056	1	LARP2	FLJ10378, DKFZp434K245, DKFZp686E0316
4	LARP1B	ENSG00000138709	ENST00000432347	protein_coding	KNOWN	CCDS47133	24704	1077	358	128982503	129030056	1	LARP2	FLJ10378, DKFZp434K245, DKFZp686E0316
4	LARP1B	ENSG00000138709	ENST00000507377	protein_coding	KNOWN	None	24704	1474	490	128998996	129043507	1	LARP2	FLJ10378, DKFZp434K245, DKFZp686E0316
4	LARP1B	ENSG00000138709	ENST00000507259	nonsense_mediated_decay	KNOWN	None	24704	78	25	129043272	129144081	1	LARP2	FLJ10378, DKFZp434K245, DKFZp686E0316
4	LARP1B	ENSG00000138709	ENST00000508648	processed_transcript	KNOWN	None	24704	None	None	129100469	129143750	1	LARP2	FLJ10378, DKFZp434K245, DKFZp686E0316
4	LARP1B	ENSG00000138709	ENST00000506199	processed_transcript	KNOWN	None	24704	None	None	129100469	129144086	1	LARP2	FLJ10378, DKFZp434K245, DKFZp686E0316
4	LARP1B	ENSG00000138709	ENST00000503725	processed_transcript	KNOWN	None	24704	None	None	129100502	129143750	1	LARP2	FLJ10378, DKFZp434K245, DKFZp686E0316
4	LARP1B	ENSG00000138709	ENST00000264584	protein_coding	KNOWN	None	24704	2568	855	128982503	129132287	1	LARP2	FLJ10378, DKFZp434K245, DKFZp686E0316
4	LARP1B	ENSG00000138709	ENST00000441387	protein_coding	KNOWN	None	24704	2364	787	128982503	129132287	1	LARP2	FLJ10378, DKFZp434K245, DKFZp686E0316
4	LARP1B	ENSG00000138709	ENST00000427266	protein_coding	KNOWN	CCDS47132	24704	1569	522	128982503	129043507	1	LARP2	FLJ10378, DKFZp434K245, DKFZp686E0316
4	LARP1B	ENSG00000138709	ENST00000354456	protein_coding	KNOWN	None	24704	846	281	128982503	129143545	1	LARP2	FLJ10378, DKFZp434K245, DKFZp686E0316
5	None	ENSG00000248734	ENST00000512856	antisense	KNOWN	None	None	None	None	96120481	96121703	1	None	None
5	None	ENSG00000248734	ENST00000602972	antisense	KNOWN	None	None	None	None	96120664	96121703	1	None	None
6	HLA-DMB	ENSG00000242574	ENST00000487996	retained_intron	KNOWN	None	4935	None	None	32902406	32904663	-1	None	D6S221E, RING7
6	HLA-DMB	ENSG00000242574	ENST00000477537	retained_intron	KNOWN	None	4935	None	None	32902406	32904678	-1	None	D6S221E, RING7
6	HLA-DMB	ENSG00000242574	ENST00000438510	protein_coding	KNOWN	None	4935	321	106	32902406	32905216	-1	None	D6S221E, RING7
6	HLA-DMB	ENSG00000242574	ENST00000414017	protein_coding	KNOWN	None	4935	424	140	32902406	32906465	-1	None	D6S221E, RING7
6	HLA-DMB	ENSG00000242574	ENST00000498020	retained_intron	KNOWN	None	4935	None	None	32902406	32908761	-1	None	D6S221E, RING7
6	HLA-DMB	ENSG00000242574	ENST00000418107	protein_coding	KNOWN	CCDS4760	4935	792	263	32902406	32908847	-1	None	D6S221E, RING7
6	HLA-DMB	ENSG00000242574	ENST00000416244	protein_coding	KNOWN	None	4935	651	216	32904341	32908779	-1	None	D6S221E, RING7
17	ATAD5	ENSG00000176208	ENST00000578295	non_stop_decay	KNOWN	None	25752	3673	1223	29158988	29203457	1	C17orf41	FLJ12735, FRAG1, ELG1
17	ATAD5	ENSG00000176208	ENST00000321990	protein_coding	KNOWN	CCDS11260	25752	5535	1844	29158988	29222887	1	C17orf41	FLJ12735, FRAG1, ELG1
17	ATAD5	ENSG00000176208	ENST00000585133	retained_intron	KNOWN	None	25752	None	None	29162227	29196870	1	C17orf41	FLJ12735, FRAG1, ELG1
20	JAG1	ENSG00000101384	ENST00000254958	protein_coding	KNOWN	CCDS13112	6188	3657	1218	10618332	10654694	-1	AGS, JAGL1	AHD, AWS, HJ1, CD339
20	JAG1	ENSG00000101384	ENST00000423891	protein_coding	KNOWN	None	6188	3180	1059	10618407	10643154	-1	AGS, JAGL1	AHD, AWS, HJ1, CD339
1	KIAA1614	ENSG00000135835	ENST00000496210	processed_transcript	KNOWN	None	29327	None	None	180882290	180883192	1	None	None
1	KIAA1614	ENSG00000135835	ENST00000367588	protein_coding	KNOWN	CCDS41442	29327	3573	1190	180882325	180920750	1	None	None
1	KIAA1614	ENSG00000135835	ENST00000367587	protein_coding	KNOWN	None	29327	2436	811	180897283	180915238	1	None	None
1	KIAA1614	ENSG00000135835	ENST00000483705	processed_transcript	KNOWN	None	29327	None	None	180897591	180913652	1	None	None
1	KIAA1614	ENSG00000135835	ENST00000461346	processed_transcript	KNOWN	None	29327	None	None	180910329	180920061	1	None	None
3	AP2M1	ENSG00000161203	ENST00000382456	protein_coding	KNOWN	CCDS43178	564	1302	433	183892477	183901879	1	CLAPM1	AP50, mu2
3	AP2M1	ENSG00000161203	ENST00000484469	retained_intron	KNOWN	None	564	None	None	183892634	183895657	1	CLAPM1	AP50, mu2
3	AP2M1	ENSG00000161203	ENST00000427072	protein_coding	NOVEL	None	564	409	135	183892643	183896910	1	CLAPM1	AP50, mu2
3	AP2M1	ENSG00000161203	ENST00000487958	retained_intron	KNOWN	None	564	None	None	183892643	183898264	1	CLAPM1	AP50, mu2
3	AP2M1	ENSG00000161203	ENST00000411763	protein_coding	NOVEL	None	564	1383	460	183892643	183901450	1	CLAPM1	AP50, mu2
3	AP2M1	ENSG00000161203	ENST00000292807	protein_coding	KNOWN	CCDS43177	564	1308	435	183892643	183901879	1	CLAPM1	AP50, mu2
3	AP2M1	ENSG00000161203	ENST00000448139	protein_coding	NOVEL	None	564	480	159	183892670	183898681	1	CLAPM1	AP50, mu2
3	AP2M1	ENSG00000161203	ENST00000466598	retained_intron	KNOWN	None	564	None	None	183892674	183897137	1	CLAPM1	AP50, mu2
3	AP2M1	ENSG00000161203	ENST00000460862	processed_transcript	KNOWN	None	564	None	None	183892693	183898000	1	CLAPM1	AP50, mu2
3	AP2M1	ENSG00000161203	ENST00000455925	protein_coding	KNOWN	None	564	340	112	183892737	183896910	1	CLAPM1	AP50, mu2
3	AP2M1	ENSG00000161203	ENST00000439647	protein_coding	KNOWN	CCDS43178	564	1302	433	183894566	183901836	1	CLAPM1	AP50, mu2
3	AP2M1	ENSG00000161203	ENST00000432591	protein_coding	NOVEL	None	564	757	251	183894737	183899842	1	CLAPM1	AP50, mu2
3	AP2M1	ENSG00000161203	ENST00000472560	retained_intron	KNOWN	None	564	None	None	183894739	183899074	1	CLAPM1	AP50, mu2
3	AP2M1	ENSG00000161203	ENST00000431779	protein_coding	NOVEL	None	564	587	194	183894767	183898703	1	CLAPM1	AP50, mu2
3	AP2M1	ENSG00000161203	ENST00000490151	retained_intron	KNOWN	None	564	None	None	183897852	183899581	1	CLAPM1	AP50, mu2
3	AP2M1	ENSG00000161203	ENST00000468048	retained_intron	KNOWN	None	564	None	None	183898004	183899473	1	CLAPM1	AP50, mu2
3	AP2M1	ENSG00000161203	ENST00000461733	processed_transcript	KNOWN	None	564	None	None	183898297	183901853	1	CLAPM1	AP50, mu2
3	AP2M1	ENSG00000161203	ENST00000476434	retained_intron	KNOWN	None	564	None	None	183898983	183899868	1	CLAPM1	AP50, mu2
3	AP2M1	ENSG00000161203	ENST00000463935	retained_intron	KNOWN	None	564	None	None	183899191	183899969	1	CLAPM1	AP50, mu2
3	AP2M1	ENSG00000161203	ENST00000480260	retained_intron	KNOWN	None	564	None	None	183899407	183900091	1	CLAPM1	AP50, mu2
3	AP2M1	ENSG00000161203	ENST00000442686	protein_coding	PUTATIVE	None	564	369	122	183899803	183901086	1	CLAPM1	AP50, mu2
4	None	ENSG00000248174	ENST00000515444	lincRNA	KNOWN	None	None	None	None	175015811	175141549	-1	None	None
4	None	ENSG00000248174	ENST00000503140	lincRNA	KNOWN	None	None	None	None	175018906	175041668	-1	None	None
1	DNAJC16	ENSG00000116138	ENST00000375838	protein_coding	KNOWN	None	29157	1788	595	15853308	15893090	1	None	KIAA0962
1	DNAJC16	ENSG00000116138	ENST00000375847	protein_coding	KNOWN	CCDS30606	29157	2349	782	15853308	15898228	1	None	KIAA0962
1	DNAJC16	ENSG00000116138	ENST00000475133	nonsense_mediated_decay	KNOWN	None	29157	1788	595	15853308	15898228	1	None	KIAA0962
1	DNAJC16	ENSG00000116138	ENST00000375849	protein_coding	KNOWN	None	29157	1968	655	15853308	15902587	1	None	KIAA0962
1	DNAJC16	ENSG00000116138	ENST00000483270	processed_transcript	KNOWN	None	29157	None	None	15886103	15918874	1	None	KIAA0962
1	DNAJC16	ENSG00000116138	ENST00000472665	nonsense_mediated_decay	KNOWN	None	29157	293	96	15890581	15893636	1	None	KIAA0962
1	DNAJC16	ENSG00000116138	ENST00000479655	processed_transcript	KNOWN	None	29157	None	None	15892313	15892904	1	None	KIAA0962
1	DNAJC16	ENSG00000116138	ENST00000490811	processed_transcript	KNOWN	None	29157	None	None	15893541	15894556	1	None	KIAA0962
1	DNAJC16	ENSG00000116138	ENST00000495523	processed_transcript	KNOWN	None	29157	None	None	15894654	15896776	1	None	KIAA0962
17	TMEM11	ENSG00000178307	ENST00000317635	protein_coding	KNOWN	CCDS11216	16823	579	192	21100593	21117937	-1	C17orf35	PMI, PM1
17	TMEM11	ENSG00000178307	ENST00000584432	processed_transcript	KNOWN	None	16823	None	None	21101267	21117234	-1	C17orf35	PMI, PM1
17	TMEM11	ENSG00000178307	ENST00000577419	processed_transcript	KNOWN	None	16823	None	None	21101271	21117474	-1	C17orf35	PMI, PM1
17	TMEM11	ENSG00000178307	ENST00000583264	processed_transcript	KNOWN	None	16823	None	None	21101569	21117476	-1	C17orf35	PMI, PM1
17	TMEM11	ENSG00000178307	ENST00000583929	processed_transcript	KNOWN	None	16823	None	None	21101853	21117489	-1	C17orf35	PMI, PM1
17	TMEM11	ENSG00000178307	ENST00000584732	processed_transcript	KNOWN	None	16823	None	None	21101891	21117164	-1	C17orf35	PMI, PM1
Y	RBMY2DP	ENSG00000215507	ENST00000448881	unprocessed_pseudogene	KNOWN	None	23259	None	None	28269821	28279455	1	None	None
Y	None	ENSG00000248451	ENST00000400476	processed_transcript	KNOWN	None	None	None	None	28269867	28275354	1	None	None
5	FLT4	ENSG00000037280	ENST00000261937	protein_coding	KNOWN	CCDS4457	3767	4092	1363	180028506	180076624	-1	None	VEGFR3, PCL
5	FLT4	ENSG00000037280	ENST00000502603	retained_intron	KNOWN	None	3767	None	None	180030089	180038716	-1	None	VEGFR3, PCL
5	FLT4	ENSG00000037280	ENST00000507059	retained_intron	KNOWN	None	3767	None	None	180034965	180056338	-1	None	VEGFR3, PCL
5	FLT4	ENSG00000037280	ENST00000393347	protein_coding	KNOWN	CCDS43412	3767	3897	1298	180034965	180076624	-1	None	VEGFR3, PCL
5	FLT4	ENSG00000037280	ENST00000502649	protein_coding	PUTATIVE	None	3767	3921	1306	180034968	180076600	-1	None	VEGFR3, PCL
5	FLT4	ENSG00000037280	ENST00000510000	retained_intron	KNOWN	None	3767	None	None	180039403	180040393	-1	None	VEGFR3, PCL
5	FLT4	ENSG00000037280	ENST00000514810	retained_intron	KNOWN	None	3767	None	None	180041076	180046137	-1	None	VEGFR3, PCL
5	FLT4	ENSG00000037280	ENST00000512795	protein_coding	PUTATIVE	None	3767	427	141	180041086	180046369	-1	None	VEGFR3, PCL
5	FLT4	ENSG00000037280	ENST00000424276	processed_transcript	KNOWN	None	3767	None	None	180047975	180076545	-1	None	VEGFR3, PCL
5	FLT4	ENSG00000037280	ENST00000502293	processed_transcript	KNOWN	None	3767	None	None	180055928	180076545	-1	None	VEGFR3, PCL
5	FLT4	ENSG00000037280	ENST00000513527	processed_transcript	KNOWN	None	3767	None	None	180056779	180076545	-1	None	VEGFR3, PCL
Y	REREP2Y	ENSG00000235014	ENST00000439103	unprocessed_pseudogene	KNOWN	None	38796	None	None	28344478	28354295	-1	None	None
HSCHR6_MHC_APD	MAS1LP1	ENSG00000229136	ENST00000421264	unprocessed_pseudogene	KNOWN	None	33448	None	None	29442883	29443929	-1	MAS1LP	OTTHUMG00000086553
6	AGPAT1	ENSG00000204310	ENST00000395496	protein_coding	KNOWN	CCDS4744	324	852	283	32135989	32140892	-1	None	LPAAT-alpha
6	AGPAT1	ENSG00000204310	ENST00000375107	protein_coding	KNOWN	CCDS4744	324	852	283	32135989	32143899	-1	None	LPAAT-alpha
6	AGPAT1	ENSG00000204310	ENST00000395499	protein_coding	KNOWN	CCDS4744	324	852	283	32135989	32144857	-1	None	LPAAT-alpha
6	AGPAT1	ENSG00000204310	ENST00000375104	protein_coding	KNOWN	CCDS4744	324	852	283	32135989	32145102	-1	None	LPAAT-alpha
6	AGPAT1	ENSG00000204310	ENST00000490711	processed_transcript	KNOWN	None	324	None	None	32135989	32145119	-1	None	LPAAT-alpha
6	AGPAT1	ENSG00000204310	ENST00000395497	protein_coding	KNOWN	CCDS4744	324	852	283	32135989	32145563	-1	None	LPAAT-alpha
6	AGPAT1	ENSG00000204310	ENST00000336984	protein_coding	KNOWN	CCDS4744	324	852	283	32135989	32145873	-1	None	LPAAT-alpha
6	AGPAT1	ENSG00000204310	ENST00000476663	processed_transcript	KNOWN	None	324	None	None	32137942	32143674	-1	None	LPAAT-alpha
6	AGPAT1	ENSG00000204310	ENST00000412465	protein_coding	KNOWN	None	324	516	171	32137035	32143836	-1	None	LPAAT-alpha
Y	None	ENSG00000225876	ENST00000426199	unprocessed_pseudogene	KNOWN	None	None	None	None	28390498	28390720	-1	None	None
HSCHR6_MHC_APD	RPS17P1	ENSG00000232974	ENST00000441213	processed_pseudogene	KNOWN	None	13982	None	None	29457130	29457535	-1	None	RPS17p, dJ994E9.1
HSCHR6_MHC_APD	RPS17P1	ENSG00000232974	ENST00000548114	pseudogene	KNOWN	None	13982	None	None	29457130	29457493	-1	None	RPS17p, dJ994E9.1
16	None	ENSG00000265167	ENST00000585035	miRNA	NOVEL	None	None	None	None	60463552	60463637	-1	None	None
22	MPPED1	ENSG00000186732	ENST00000417669	protein_coding	KNOWN	CCDS46723	1306	981	326	43807202	43902800	1	C22orf1	239AB, FAM1A
22	MPPED1	ENSG00000186732	ENST00000334209	protein_coding	KNOWN	None	1306	358	118	43808019	43831087	1	C22orf1	239AB, FAM1A
22	MPPED1	ENSG00000186732	ENST00000447567	protein_coding	KNOWN	None	1306	224	73	43812461	43821215	1	C22orf1	239AB, FAM1A
22	MPPED1	ENSG00000186732	ENST00000465861	processed_transcript	KNOWN	None	1306	None	None	43812622	43815206	1	C22orf1	239AB, FAM1A
22	MPPED1	ENSG00000186732	ENST00000480239	processed_transcript	KNOWN	None	1306	None	None	43812761	43821231	1	C22orf1	239AB, FAM1A
22	MPPED1	ENSG00000186732	ENST00000538182	protein_coding	KNOWN	None	1306	1080	359	43813761	43901913	1	C22orf1	239AB, FAM1A
22	MPPED1	ENSG00000186732	ENST00000443721	protein_coding	KNOWN	CCDS46723	1306	981	326	43808020	43902799	1	C22orf1	239AB, FAM1A
22	MPPED1	ENSG00000186732	ENST00000542779	protein_coding	KNOWN	CCDS46723	1306	981	326	43812875	43901774	1	C22orf1	239AB, FAM1A
22	MPPED1	ENSG00000186732	ENST00000414469	protein_coding	KNOWN	None	1306	663	220	43808020	43901543	1	C22orf1	239AB, FAM1A
22	MPPED1	ENSG00000186732	ENST00000439548	protein_coding	KNOWN	None	1306	507	168	43808020	43901850	1	C22orf1	239AB, FAM1A
16	None	ENSG00000261310	ENST00000567862	lincRNA	KNOWN	None	None	None	None	60520723	60557154	-1	None	None
HSCHR6_MHC_APD	None	ENSG00000224753	ENST00000416535	processed_transcript	KNOWN	None	None	None	None	29465368	29478414	1	None	None
16	GNPATP	ENSG00000259844	ENST00000567548	processed_pseudogene	KNOWN	None	34031	None	None	60688139	60690553	-1	None	None
HSCHR6_MHC_APD	None	ENSG00000235788	ENST00000453238	processed_transcript	KNOWN	None	None	None	None	29497284	29501432	1	None	None
HSCHR6_MHC_APD	None	ENSG00000235788	ENST00000418452	processed_transcript	KNOWN	None	None	None	None	29497340	29500021	1	None	None
16	None	ENSG00000265127	ENST00000584162	miRNA	NOVEL	None	None	None	None	60803883	60803987	1	None	None
16	None	ENSG00000261178	ENST00000563784	unprocessed_pseudogene	KNOWN	None	None	None	None	60959637	60962445	-1	None	None
1	None	ENSG00000234237	ENST00000457152	protein_coding	NOVEL	None	None	168	55	180941695	180949868	1	None	None
16	None	ENSG00000261720	ENST00000564390	lincRNA	KNOWN	None	None	None	None	1115240	1116502	1	None	None
10	None	ENSG00000238472	ENST00000458964	snoRNA	NOVEL	None	None	None	None	101779351	101779456	1	None	None
3	OXNAD1	ENSG00000154814	ENST00000285083	protein_coding	KNOWN	CCDS2630	25128	939	312	16306706	16347594	1	None	MGC15763
3	OXNAD1	ENSG00000154814	ENST00000605932	protein_coding	KNOWN	CCDS2630	25128	939	312	16306709	16378868	1	None	MGC15763
3	OXNAD1	ENSG00000154814	ENST00000442255	nonsense_mediated_decay	KNOWN	None	25128	216	71	16306714	16345490	1	None	MGC15763
3	OXNAD1	ENSG00000154814	ENST00000435829	protein_coding	PUTATIVE	None	25128	993	330	16306717	16378822	1	None	MGC15763
3	OXNAD1	ENSG00000154814	ENST00000486267	retained_intron	KNOWN	None	25128	None	None	16306739	16312702	1	None	MGC15763
3	OXNAD1	ENSG00000154814	ENST00000452581	nonsense_mediated_decay	KNOWN	None	25128	171	56	16306740	16343293	1	None	MGC15763
3	OXNAD1	ENSG00000154814	ENST00000606098	protein_coding	PUTATIVE	None	25128	936	311	16306973	16391806	1	None	MGC15763
3	OXNAD1	ENSG00000154814	ENST00000607329	processed_transcript	KNOWN	None	25128	None	None	16389104	16390770	1	None	MGC15763
3	OXNAD1	ENSG00000154814	ENST00000544043	protein_coding	KNOWN	None	25128	993	330	16310748	16378822	1	None	MGC15763
10	TPM4P1	ENSG00000232230	ENST00000436100	processed_pseudogene	KNOWN	None	45234	None	None	101874174	101874980	-1	None	None
10	HELLS	ENSG00000119969	ENST00000419900	protein_coding	KNOWN	None	4861	576	191	96305547	96333863	1	None	PASG, SMARCA6, LSH, Nbla10143
10	HELLS	ENSG00000119969	ENST00000348459	protein_coding	KNOWN	CCDS7434	4861	2517	838	96305574	96361856	1	None	PASG, SMARCA6, LSH, Nbla10143
10	HELLS	ENSG00000119969	ENST00000462057	processed_transcript	KNOWN	None	4861	None	None	96313881	96331037	1	None	PASG, SMARCA6, LSH, Nbla10143
10	HELLS	ENSG00000119969	ENST00000466552	retained_intron	KNOWN	None	4861	None	None	96328952	96334205	1	None	PASG, SMARCA6, LSH, Nbla10143
10	HELLS	ENSG00000119969	ENST00000371327	protein_coding	PUTATIVE	None	4861	933	310	96350456	96373662	1	None	PASG, SMARCA6, LSH, Nbla10143
10	HELLS	ENSG00000119969	ENST00000464030	retained_intron	KNOWN	None	4861	None	None	96350499	96352271	1	None	PASG, SMARCA6, LSH, Nbla10143
10	HELLS	ENSG00000119969	ENST00000475263	retained_intron	KNOWN	None	4861	None	None	96356637	96361728	1	None	PASG, SMARCA6, LSH, Nbla10143
10	HELLS	ENSG00000119969	ENST00000394045	protein_coding	KNOWN	None	4861	2223	740	96305574	96361855	1	None	PASG, SMARCA6, LSH, Nbla10143
10	HELLS	ENSG00000119969	ENST00000371332	protein_coding	KNOWN	None	4861	2655	884	96305679	96361379	1	None	PASG, SMARCA6, LSH, Nbla10143
10	HELLS	ENSG00000119969	ENST00000394044	protein_coding	KNOWN	None	4861	948	315	96305574	96336850	1	None	PASG, SMARCA6, LSH, Nbla10143
10	HELLS	ENSG00000119969	ENST00000394036	protein_coding	KNOWN	None	4861	390	129	96305574	96361855	1	None	PASG, SMARCA6, LSH, Nbla10143
10	HELLS	ENSG00000119969	ENST00000239026	protein_coding	KNOWN	None	4861	294	97	96305679	96361379	1	None	PASG, SMARCA6, LSH, Nbla10143
1	STX6	ENSG00000135823	ENST00000258301	protein_coding	KNOWN	CCDS1341	11441	768	255	180941861	180992047	-1	None	None
1	STX6	ENSG00000135823	ENST00000469135	processed_transcript	KNOWN	None	11441	None	None	180942175	180958513	-1	None	None
1	STX6	ENSG00000135823	ENST00000496476	processed_transcript	KNOWN	None	11441	None	None	180956861	180957437	-1	None	None
1	STX6	ENSG00000135823	ENST00000542060	protein_coding	KNOWN	None	11441	465	154	180945426	180992005	-1	None	None
Y	PRY	ENSG00000169789	ENST00000303728	protein_coding	KNOWN	CCDS14799	14024	444	147	24636544	24660784	1	None	PTPN13LY, PRY1
Y	PRY	ENSG00000169789	ENST00000477123	nonsense_mediated_decay	KNOWN	None	14024	216	71	24636544	24660784	1	None	PTPN13LY, PRY1
Y	PRY	ENSG00000169789	ENST00000338793	protein_coding	KNOWN	None	14024	216	71	24636544	24658815	1	None	PTPN13LY, PRY1
13	MTIF3	ENSG00000122033	ENST00000381116	protein_coding	KNOWN	CCDS9322	29788	837	278	28009780	28024701	-1	None	IF-3mt, IF3(mt)
13	MTIF3	ENSG00000122033	ENST00000381120	protein_coding	KNOWN	CCDS9322	29788	837	278	28009780	28024711	-1	None	IF-3mt, IF3(mt)
13	MTIF3	ENSG00000122033	ENST00000461838	processed_transcript	KNOWN	None	29788	None	None	28009821	28024268	-1	None	IF-3mt, IF3(mt)
13	MTIF3	ENSG00000122033	ENST00000460973	processed_transcript	KNOWN	None	29788	None	None	28011253	28024333	-1	None	IF-3mt, IF3(mt)
13	MTIF3	ENSG00000122033	ENST00000471771	processed_transcript	KNOWN	None	29788	None	None	28011254	28024178	-1	None	IF-3mt, IF3(mt)
13	MTIF3	ENSG00000122033	ENST00000493719	processed_transcript	KNOWN	None	29788	None	None	28011282	28024301	-1	None	IF-3mt, IF3(mt)
13	MTIF3	ENSG00000122033	ENST00000485650	processed_transcript	KNOWN	None	29788	None	None	28011287	28024728	-1	None	IF-3mt, IF3(mt)
13	MTIF3	ENSG00000122033	ENST00000485959	processed_transcript	KNOWN	None	29788	None	None	28011406	28024280	-1	None	IF-3mt, IF3(mt)
13	MTIF3	ENSG00000122033	ENST00000484342	processed_transcript	KNOWN	None	29788	None	None	28014343	28024724	-1	None	IF-3mt, IF3(mt)
13	MTIF3	ENSG00000122033	ENST00000483903	processed_transcript	KNOWN	None	29788	None	None	28014413	28015382	-1	None	IF-3mt, IF3(mt)
13	MTIF3	ENSG00000122033	ENST00000464753	processed_transcript	KNOWN	None	29788	None	None	28014418	28024336	-1	None	IF-3mt, IF3(mt)
13	MTIF3	ENSG00000122033	ENST00000431572	protein_coding	KNOWN	CCDS9322	29788	837	278	28009776	28024739	-1	None	IF-3mt, IF3(mt)
13	MTIF3	ENSG00000122033	ENST00000405591	protein_coding	KNOWN	CCDS9322	29788	837	278	28009776	28024326	-1	None	IF-3mt, IF3(mt)
10	None	ENSG00000270623	ENST00000603270	processed_pseudogene	KNOWN	None	None	None	None	101902822	101903752	-1	None	None
10	None	ENSG00000236308	ENST00000443919	antisense	KNOWN	None	None	None	None	101949793	101950504	1	None	None
4	None	ENSG00000250322	ENST00000513642	processed_pseudogene	KNOWN	None	None	None	None	124181104	124181273	-1	None	None
10	None	ENSG00000227492	ENST00000444359	antisense	KNOWN	None	None	None	None	101989424	101993757	1	None	None
14	IGHJ6	ENSG00000211900	ENST00000390560	IG_J_gene	KNOWN	None	5540	61	19	106329408	106329468	-1	None	None
21	APP	ENSG00000142192	ENST00000346798	protein_coding	KNOWN	CCDS13576	620	2313	770	27252861	27542972	-1	AD1	None
21	APP	ENSG00000142192	ENST00000354192	protein_coding	KNOWN	CCDS46638	620	1920	639	27252861	27543065	-1	AD1	None
21	APP	ENSG00000142192	ENST00000348990	protein_coding	KNOWN	CCDS13577	620	2088	695	27252861	27543085	-1	AD1	None
21	APP	ENSG00000142192	ENST00000357903	protein_coding	KNOWN	CCDS33523	620	2256	751	27252861	27543105	-1	AD1	None
21	APP	ENSG00000142192	ENST00000440126	protein_coding	KNOWN	CCDS56212	620	2241	746	27253642	27512778	-1	AD1	None
21	APP	ENSG00000142192	ENST00000439274	protein_coding	KNOWN	CCDS46639	620	2145	714	27253643	27542972	-1	AD1	None
21	APP	ENSG00000142192	ENST00000464867	retained_intron	KNOWN	None	620	None	None	27253825	27270295	-1	AD1	None
21	APP	ENSG00000142192	ENST00000456209	protein_coding	PUTATIVE	None	620	842	279	27264110	27348326	-1	AD1	None
21	APP	ENSG00000142192	ENST00000448850	protein_coding	PUTATIVE	None	620	1456	484	27317839	27462377	-1	AD1	None
21	APP	ENSG00000142192	ENST00000415997	protein_coding	PUTATIVE	None	620	541	179	27347503	27423348	-1	AD1	None
21	APP	ENSG00000142192	ENST00000491395	processed_transcript	PUTATIVE	None	620	None	None	27369503	27423334	-1	AD1	None
21	APP	ENSG00000142192	ENST00000474136	processed_transcript	KNOWN	None	620	None	None	27381911	27543064	-1	AD1	None
21	APP	ENSG00000142192	ENST00000463070	processed_transcript	PUTATIVE	None	620	None	None	27394238	27425818	-1	AD1	None
21	APP	ENSG00000142192	ENST00000548570	processed_transcript	KNOWN	None	620	None	None	27423476	27440654	-1	AD1	None
21	APP	ENSG00000142192	ENST00000462267	retained_intron	KNOWN	None	620	None	None	27461827	27484400	-1	AD1	None
21	APP	ENSG00000142192	ENST00000466453	processed_transcript	KNOWN	None	620	None	None	27484302	27541747	-1	AD1	None
21	APP	ENSG00000142192	ENST00000358918	protein_coding	KNOWN	CCDS56213	620	2259	752	27252862	27543138	-1	AD1	None
21	APP	ENSG00000142192	ENST00000359726	protein_coding	KNOWN	None	620	2145	714	27252862	27543138	-1	AD1	None
21	APP	ENSG00000142192	ENST00000448388	protein_coding	KNOWN	CCDS56211	620	1983	660	27253638	27543446	-1	AD1	None
X	None	ENSG00000239008	ENST00000459070	snoRNA	NOVEL	None	None	None	None	80112575	80112701	-1	None	None
X	RNU6-493P	ENSG00000212623	ENST00000391321	snRNA	KNOWN	None	47456	None	None	80156256	80156363	1	None	None
9	MEP1AP1	ENSG00000228871	ENST00000424841	unprocessed_pseudogene	KNOWN	None	7016	None	None	42332815	42338938	-1	MEP1AL1	None
9	MEP1AP1	ENSG00000228871	ENST00000536653	unprocessed_pseudogene	KNOWN	None	7016	None	None	42338591	42338869	-1	MEP1AL1	None
19	ZNF233	ENSG00000159915	ENST00000592581	protein_coding	PUTATIVE	None	30946	423	140	44764033	44779462	1	None	FLJ38032
19	ZNF233	ENSG00000159915	ENST00000590668	protein_coding	KNOWN	None	30946	488	161	44764039	44777301	1	None	FLJ38032
19	ZNF233	ENSG00000159915	ENST00000588489	protein_coding	PUTATIVE	None	30946	348	115	44764058	44771053	1	None	FLJ38032
19	ZNF233	ENSG00000159915	ENST00000391958	protein_coding	KNOWN	CCDS33047	30946	2013	670	44764076	44779470	1	None	FLJ38032
19	ZNF233	ENSG00000159915	ENST00000589522	protein_coding	PUTATIVE	None	30946	252	83	44768466	44772366	1	None	FLJ38032
19	ZNF233	ENSG00000159915	ENST00000334152	protein_coding	KNOWN	None	30946	1959	652	44754318	44778826	1	None	FLJ38032
3	CAMP	ENSG00000164047	ENST00000296435	protein_coding	KNOWN	CCDS2762	1472	522	173	48264837	48266981	1	None	CAP18, FALL39, FALL-39, LL37
3	CAMP	ENSG00000164047	ENST00000576243	protein_coding	KNOWN	None	1472	513	170	48264862	48266975	1	None	CAP18, FALL39, FALL-39, LL37
19	RFXANK	ENSG00000064490	ENST00000421262	protein_coding	KNOWN	None	9987	190	62	19303038	19307774	1	None	BLS, RFX-B, ANKRA1, F14150_1, MGC138628
19	RFXANK	ENSG00000064490	ENST00000303088	protein_coding	KNOWN	CCDS12395	9987	783	260	19303039	19312678	1	None	BLS, RFX-B, ANKRA1, F14150_1, MGC138628
19	RFXANK	ENSG00000064490	ENST00000456252	protein_coding	KNOWN	None	9987	717	238	19303052	19312675	1	None	BLS, RFX-B, ANKRA1, F14150_1, MGC138628
19	RFXANK	ENSG00000064490	ENST00000593273	protein_coding	NOVEL	None	9987	435	144	19303083	19308430	1	None	BLS, RFX-B, ANKRA1, F14150_1, MGC138628
19	RFXANK	ENSG00000064490	ENST00000407360	protein_coding	KNOWN	CCDS12395	9987	783	260	19303572	19312611	1	None	BLS, RFX-B, ANKRA1, F14150_1, MGC138628
19	RFXANK	ENSG00000064490	ENST00000540981	protein_coding	KNOWN	None	9987	564	187	19303650	19309531	1	None	BLS, RFX-B, ANKRA1, F14150_1, MGC138628
19	RFXANK	ENSG00000064490	ENST00000543157	retained_intron	KNOWN	None	9987	None	None	19303655	19308243	1	None	BLS, RFX-B, ANKRA1, F14150_1, MGC138628
19	RFXANK	ENSG00000064490	ENST00000392324	protein_coding	NOVEL	CCDS12396	9987	714	237	19303720	19312675	1	None	BLS, RFX-B, ANKRA1, F14150_1, MGC138628
19	RFXANK	ENSG00000064490	ENST00000541873	retained_intron	KNOWN	None	9987	None	None	19303722	19309710	1	None	BLS, RFX-B, ANKRA1, F14150_1, MGC138628
19	RFXANK	ENSG00000064490	ENST00000545522	retained_intron	KNOWN	None	9987	None	None	19303779	19308472	1	None	BLS, RFX-B, ANKRA1, F14150_1, MGC138628
19	RFXANK	ENSG00000064490	ENST00000535017	protein_coding	NOVEL	None	9987	546	181	19304861	19310004	1	None	BLS, RFX-B, ANKRA1, F14150_1, MGC138628
19	RFXANK	ENSG00000064490	ENST00000543118	retained_intron	KNOWN	None	9987	None	None	19308064	19308970	1	None	BLS, RFX-B, ANKRA1, F14150_1, MGC138628
19	RFXANK	ENSG00000064490	ENST00000540977	retained_intron	KNOWN	None	9987	None	None	19309446	19312678	1	None	BLS, RFX-B, ANKRA1, F14150_1, MGC138628
19	RFXANK	ENSG00000064490	ENST00000544923	protein_coding	PUTATIVE	None	9987	144	47	19309963	19312672	1	None	BLS, RFX-B, ANKRA1, F14150_1, MGC138628
19	RFXANK	ENSG00000064490	ENST00000536253	protein_coding	NOVEL	None	9987	126	41	19309963	19312675	1	None	BLS, RFX-B, ANKRA1, F14150_1, MGC138628
19	RFXANK	ENSG00000064490	ENST00000353145	protein_coding	KNOWN	CCDS12396	9987	714	237	19303008	19312678	1	None	BLS, RFX-B, ANKRA1, F14150_1, MGC138628
14	None	ENSG00000215306	ENST00000399979	protein_coding	NOVEL	None	None	66	21	23286463	23291750	-1	None	None
HSCHR6_MHC_APD	GPR53P	ENSG00000227576	ENST00000445598	unprocessed_pseudogene	KNOWN	None	4509	None	None	29505568	29506651	-1	None	PsiGPR53, dJ271M21.8
9	None	ENSG00000233207	ENST00000450520	antisense	KNOWN	None	None	None	None	42363048	42367092	-1	None	None
HSCHR6_MHC_APD	OR2I1P	ENSG00000226896	ENST00000428598	unprocessed_pseudogene	KNOWN	None	8258	None	None	29521110	29522057	1	OR2I1, OR2I3P, OR2I4P, OR2I2	HS6M1-14
11	INS	ENSG00000254647	ENST00000397262	protein_coding	KNOWN	CCDS7729	6081	333	110	2181009	2182434	-1	None	None
11	INS	ENSG00000254647	ENST00000250971	protein_coding	KNOWN	CCDS7729	6081	333	110	2181009	2182451	-1	None	None
11	INS	ENSG00000254647	ENST00000381330	protein_coding	KNOWN	CCDS7729	6081	333	110	2181009	2182571	-1	None	None
11	INS	ENSG00000254647	ENST00000421783	protein_coding	PUTATIVE	None	6081	277	91	2181013	2182388	-1	None	None
11	INS	ENSG00000254647	ENST00000512523	protein_coding	NOVEL	None	6081	297	98	2181082	2182201	-1	None	None
19	SIRT2	ENSG00000068903	ENST00000479290	retained_intron	KNOWN	None	10886	None	None	39369197	39384748	-1	SIR2L	None
19	SIRT2	ENSG00000068903	ENST00000462654	retained_intron	KNOWN	None	10886	None	None	39369197	39385050	-1	SIR2L	None
19	SIRT2	ENSG00000068903	ENST00000249396	protein_coding	KNOWN	CCDS12523	10886	1170	389	39369197	39390463	-1	SIR2L	None
19	SIRT2	ENSG00000068903	ENST00000392081	protein_coding	KNOWN	CCDS46069	10886	1059	352	39369197	39390502	-1	SIR2L	None
19	SIRT2	ENSG00000068903	ENST00000496069	retained_intron	KNOWN	None	10886	None	None	39369934	39370793	-1	SIR2L	None
19	SIRT2	ENSG00000068903	ENST00000414941	protein_coding	KNOWN	None	10886	713	236	39371461	39390463	-1	SIR2L	None
19	SIRT2	ENSG00000068903	ENST00000420440	nonsense_mediated_decay	KNOWN	None	10886	336	111	39371740	39390318	-1	SIR2L	None
19	SIRT2	ENSG00000068903	ENST00000443898	nonsense_mediated_decay	KNOWN	None	10886	291	96	39372072	39390351	-1	SIR2L	None
19	SIRT2	ENSG00000068903	ENST00000407552	protein_coding	KNOWN	None	10886	508	168	39374279	39390354	-1	SIR2L	None
19	SIRT2	ENSG00000068903	ENST00000381766	protein_coding	KNOWN	None	10886	390	129	39379727	39384917	-1	SIR2L	None
19	SIRT2	ENSG00000068903	ENST00000491960	retained_intron	KNOWN	None	10886	None	None	39379809	39390240	-1	SIR2L	None
19	SIRT2	ENSG00000068903	ENST00000476771	retained_intron	KNOWN	None	10886	None	None	39379871	39390158	-1	SIR2L	None
19	SIRT2	ENSG00000068903	ENST00000451193	nonsense_mediated_decay	KNOWN	None	10886	120	39	39380337	39390242	-1	SIR2L	None
19	SIRT2	ENSG00000068903	ENST00000423526	nonsense_mediated_decay	KNOWN	None	10886	159	52	39380500	39390221	-1	SIR2L	None
19	SIRT2	ENSG00000068903	ENST00000437828	protein_coding	KNOWN	None	10886	236	77	39380523	39390285	-1	SIR2L	None
19	SIRT2	ENSG00000068903	ENST00000447739	protein_coding	KNOWN	None	10886	220	72	39380539	39390351	-1	SIR2L	None
19	SIRT2	ENSG00000068903	ENST00000481381	processed_transcript	KNOWN	None	10886	None	None	39389020	39390228	-1	SIR2L	None
19	SIRT2	ENSG00000068903	ENST00000358931	protein_coding	KNOWN	None	10886	816	271	39369221	39390353	-1	SIR2L	None
19	ZSCAN1	ENSG00000152467	ENST00000391700	protein_coding	KNOWN	None	23712	537	178	58545400	58549812	1	None	FLJ33779, ZNF915
19	ZSCAN1	ENSG00000152467	ENST00000282326	protein_coding	KNOWN	CCDS12969	23712	1227	408	58545434	58565999	1	None	FLJ33779, ZNF915
19	ZSCAN1	ENSG00000152467	ENST00000601162	protein_coding	KNOWN	None	23712	537	178	58545474	58549810	1	None	FLJ33779, ZNF915
5	FBXL7	ENSG00000183580	ENST00000504595	protein_coding	KNOWN	CCDS54833	13604	1476	491	15500305	15939900	1	None	KIAA0840, FBL7, FBL6
5	FBXL7	ENSG00000183580	ENST00000510662	protein_coding	PUTATIVE	None	13604	1335	444	15501547	15937328	1	None	KIAA0840, FBL7, FBL6
5	FBXL7	ENSG00000183580	ENST00000329673	protein_coding	KNOWN	None	13604	1440	479	15616091	15937295	1	None	KIAA0840, FBL7, FBL6
HSCHR6_MHC_APD	OR2H5P	ENSG00000229469	ENST00000423964	unprocessed_pseudogene	KNOWN	None	8256	None	None	29541800	29542727	1	None	OR2H5, hs6M1-13, HS271M21
10	SNORA12	ENSG00000212464	ENST00000391162	snoRNA	KNOWN	None	32600	None	None	101996913	101997059	-1	None	U108
15	GATM	ENSG00000171766	ENST00000396659	protein_coding	KNOWN	CCDS10122	4175	1272	423	45653322	45670991	-1	None	AGAT
15	GATM	ENSG00000171766	ENST00000558362	retained_intron	KNOWN	None	4175	None	None	45653324	45670742	-1	None	AGAT
15	GATM	ENSG00000171766	ENST00000558336	protein_coding	KNOWN	None	4175	1176	391	45655829	45670745	-1	None	AGAT
15	GATM	ENSG00000171766	ENST00000561376	retained_intron	KNOWN	None	4175	None	None	45656522	45658268	-1	None	AGAT
15	GATM	ENSG00000171766	ENST00000558916	retained_intron	KNOWN	None	4175	None	None	45657022	45661905	-1	None	AGAT
15	GATM	ENSG00000171766	ENST00000558163	protein_coding	NOVEL	None	4175	503	166	45658660	45670717	-1	None	AGAT
15	GATM	ENSG00000171766	ENST00000558537	protein_coding	PUTATIVE	None	4175	96	31	45661525	45670273	-1	None	AGAT
15	GATM	ENSG00000171766	ENST00000561148	protein_coding	PUTATIVE	None	4175	94	30	45661527	45694416	-1	None	AGAT
15	GATM	ENSG00000171766	ENST00000559885	protein_coding	PUTATIVE	None	4175	45	14	45661576	45669233	-1	None	AGAT
15	GATM	ENSG00000171766	ENST00000558118	nonsense_mediated_decay	KNOWN	None	4175	291	96	45661581	45670682	-1	None	AGAT
15	GATM	ENSG00000171766	ENST00000560538	processed_transcript	PUTATIVE	None	4175	None	None	45668807	45689457	-1	None	AGAT
15	GATM	ENSG00000171766	ENST00000458245	processed_transcript	KNOWN	None	4175	None	None	45671400	45694525	-1	None	AGAT
15	GATM	ENSG00000171766	ENST00000527933	processed_transcript	KNOWN	None	4175	None	None	45672698	45689544	-1	None	AGAT
10	PHBP9	ENSG00000230224	ENST00000453578	processed_pseudogene	KNOWN	None	39288	None	None	102008028	102008852	1	None	None
19	SLC1A6	ENSG00000105143	ENST00000430939	protein_coding	PUTATIVE	None	10944	1503	500	15060846	15121432	-1	None	EAAT4
19	SLC1A6	ENSG00000105143	ENST00000221742	protein_coding	KNOWN	CCDS12321	10944	1695	564	15060991	15083730	-1	None	EAAT4
19	SLC1A6	ENSG00000105143	ENST00000600144	protein_coding	NOVEL	None	10944	1461	486	15061007	15087839	-1	None	EAAT4
19	SLC1A6	ENSG00000105143	ENST00000598504	protein_coding	PUTATIVE	None	10944	939	312	15072122	15090505	-1	None	EAAT4
19	SLC1A6	ENSG00000105143	ENST00000544886	protein_coding	PUTATIVE	None	10944	939	312	15072122	15091110	-1	None	EAAT4
19	SLC1A6	ENSG00000105143	ENST00000596697	retained_intron	KNOWN	None	10944	None	None	15074821	15086085	-1	None	EAAT4
19	SLC1A6	ENSG00000105143	ENST00000597262	protein_coding	PUTATIVE	None	10944	482	159	15079181	15090534	-1	None	EAAT4
19	SLC1A6	ENSG00000105143	ENST00000599636	protein_coding	PUTATIVE	None	10944	439	145	15079237	15121455	-1	None	EAAT4
19	SLC1A6	ENSG00000105143	ENST00000595863	protein_coding	KNOWN	None	10944	330	109	15082562	15133802	-1	None	EAAT4
19	SLC1A6	ENSG00000105143	ENST00000601761	protein_coding	KNOWN	None	10944	222	73	15083501	15088958	-1	None	EAAT4
19	SLC1A6	ENSG00000105143	ENST00000594383	protein_coding	KNOWN	None	10944	106	34	15083617	15090500	-1	None	EAAT4
X	VDAC1P1	ENSG00000073905	ENST00000439229	processed_pseudogene	KNOWN	None	12671	None	None	80184999	80185846	1	VDAC1P	None
10	RNU6-422P	ENSG00000207362	ENST00000384632	snRNA	KNOWN	None	47385	None	None	102018328	102018434	1	None	None
14	IGHJ5	ENSG00000242472	ENST00000488476	IG_J_gene	KNOWN	None	5539	49	15	106330024	106330072	-1	None	None
10	None	ENSG00000231188	ENST00000429420	antisense	KNOWN	None	None	None	None	102095320	102106147	-1	None	None
13	DGKH	ENSG00000102780	ENST00000337343	protein_coding	KNOWN	CCDS9381	2854	3663	1220	42622889	42803886	1	None	DGKeta
13	DGKH	ENSG00000102780	ENST00000261491	protein_coding	KNOWN	CCDS9382	2854	3495	1164	42622889	42803888	1	None	DGKeta
13	DGKH	ENSG00000102780	ENST00000498255	processed_transcript	KNOWN	None	2854	None	None	42714531	42830714	1	None	DGKeta
13	DGKH	ENSG00000102780	ENST00000489851	processed_transcript	KNOWN	None	2854	None	None	42788643	42790823	1	None	DGKeta
13	DGKH	ENSG00000102780	ENST00000540693	protein_coding	KNOWN	CCDS9382	2854	3495	1164	42614176	42803294	1	None	DGKeta
13	DGKH	ENSG00000102780	ENST00000379274	protein_coding	KNOWN	CCDS55898	2854	3303	1100	42622889	42803888	1	None	DGKeta
13	DGKH	ENSG00000102780	ENST00000536612	protein_coding	KNOWN	CCDS55899	2854	3255	1084	42712178	42803386	1	None	DGKeta
13	DGKH	ENSG00000102780	ENST00000538674	protein_coding	KNOWN	None	2854	2760	919	42729400	42803386	1	None	DGKeta
12	HCAR1	ENSG00000196917	ENST00000436083	protein_coding	KNOWN	CCDS9236	4532	1041	346	123212752	123215390	-1	GPR104, GPR81	HCA1, FKSG80, TA-GPCR, LACR1
12	HCAR1	ENSG00000196917	ENST00000356987	protein_coding	KNOWN	CCDS9236	4532	1041	346	123104824	123215390	-1	GPR104, GPR81	HCA1, FKSG80, TA-GPCR, LACR1
12	HCAR1	ENSG00000196917	ENST00000432564	protein_coding	KNOWN	CCDS9236	4532	1041	346	123210731	123215129	-1	GPR104, GPR81	HCA1, FKSG80, TA-GPCR, LACR1
5	None	ENSG00000272109	ENST00000606656	antisense	KNOWN	None	None	None	None	96140056	96141805	1	None	None
5	None	ENSG00000272109	ENST00000606346	antisense	KNOWN	None	None	None	None	96141370	96141808	1	None	None
10	None	ENSG00000256545	ENST00000537595	pseudogene	NOVEL	None	None	None	None	102121397	102123376	1	None	None
X	RNU6-995P	ENSG00000212546	ENST00000391244	snRNA	KNOWN	None	47958	None	None	80191933	80192039	1	None	None
X	None	ENSG00000264374	ENST00000581916	miRNA	NOVEL	None	None	None	None	80496319	80496400	1	None	None
10	OAT	ENSG00000065154	ENST00000368845	protein_coding	KNOWN	CCDS7639	8091	1320	439	126085876	126107505	-1	None	HOGA
10	OAT	ENSG00000065154	ENST00000471127	processed_transcript	KNOWN	None	8091	None	None	126086590	126091905	-1	None	HOGA
10	OAT	ENSG00000065154	ENST00000467675	processed_transcript	KNOWN	None	8091	None	None	126090300	126097360	-1	None	HOGA
10	OAT	ENSG00000065154	ENST00000483711	processed_transcript	KNOWN	None	8091	None	None	126092414	126094498	-1	None	HOGA
10	OAT	ENSG00000065154	ENST00000476917	processed_transcript	KNOWN	None	8091	None	None	126095925	126106762	-1	None	HOGA
10	OAT	ENSG00000065154	ENST00000490096	processed_transcript	KNOWN	None	8091	None	None	126097391	126103641	-1	None	HOGA
10	OAT	ENSG00000065154	ENST00000492376	processed_transcript	KNOWN	None	8091	None	None	126097462	126103005	-1	None	HOGA
10	OAT	ENSG00000065154	ENST00000539214	protein_coding	KNOWN	CCDS53586	8091	906	301	126085872	126107545	-1	None	HOGA
X	None	ENSG00000231875	ENST00000415786	processed_pseudogene	KNOWN	None	None	None	None	80618767	80619669	1	None	None
10	LINC00263	ENSG00000235823	ENST00000454935	processed_transcript	KNOWN	None	28060	None	None	102133372	102143125	1	C10orf75, NCRNA00263	bA34D15.5, FLJ12974
16	None	ENSG00000181791	ENST00000314015	pseudogene	NOVEL	None	None	None	None	1115299	1116349	-1	None	None
Y	BPY2	ENSG00000183753	ENST00000602732	protein_coding	KNOWN	None	13508	33	10	25119966	25138523	1	VCY2	BPY2A, VCY2A
Y	BPY2	ENSG00000183753	ENST00000331070	protein_coding	KNOWN	CCDS14800	13508	321	106	25130410	25151606	1	VCY2	BPY2A, VCY2A
Y	BPY2	ENSG00000183753	ENST00000602818	processed_transcript	KNOWN	None	13508	None	None	25130434	25151553	1	VCY2	BPY2A, VCY2A
Y	BPY2	ENSG00000183753	ENST00000382585	protein_coding	KNOWN	CCDS14800	13508	321	106	25130410	25151612	1	VCY2	BPY2A, VCY2A
14	IGHJ4	ENSG00000240041	ENST00000461719	IG_J_gene	KNOWN	None	5538	46	14	106330425	106330470	-1	None	None
16	None	ENSG00000260702	ENST00000564813	unprocessed_pseudogene	KNOWN	None	None	None	None	1153280	1155461	-1	None	None
5	None	ENSG00000227836	ENST00000427546	processed_pseudogene	KNOWN	None	None	None	None	96278003	96278888	1	None	None
16	None	ENSG00000260532	ENST00000561511	lincRNA	KNOWN	None	None	None	None	1161627	1163399	1	None	None
13	RAB20	ENSG00000139832	ENST00000267328	protein_coding	KNOWN	CCDS9512	18260	705	234	111175417	111214080	-1	None	FLJ20429
5	None	ENSG00000200884	ENST00000364014	misc_RNA	NOVEL	None	None	None	None	96298360	96298461	-1	None	None
X	None	ENSG00000224523	ENST00000412589	unprocessed_pseudogene	KNOWN	None	None	None	None	80664437	80682775	1	None	None
5	None	ENSG00000213702	ENST00000395768	pseudogene	NOVEL	None	None	None	None	96371586	96373214	1	None	None
16	None	ENSG00000260403	ENST00000568884	antisense	KNOWN	None	None	None	None	1206976	1207974	-1	None	None
22	None	ENSG00000236641	ENST00000454253	lincRNA	KNOWN	None	None	None	None	25608709	25609652	1	None	None
13	LNX2	ENSG00000139517	ENST00000316334	protein_coding	KNOWN	CCDS9323	20421	2073	690	28120050	28194541	-1	PDZRN1	MGC46315
1	MR1	ENSG00000153029	ENST00000486453	retained_intron	KNOWN	None	4975	None	None	181003108	181018833	1	HLALS	None
1	MR1	ENSG00000153029	ENST00000367579	protein_coding	KNOWN	CCDS53442	4975	891	296	181003139	181024659	1	HLALS	None
1	MR1	ENSG00000153029	ENST00000282990	protein_coding	NOVEL	CCDS53440	4975	750	249	181003139	181025689	1	HLALS	None
1	MR1	ENSG00000153029	ENST00000367580	protein_coding	KNOWN	CCDS1342	4975	1026	341	181003139	181031074	1	HLALS	None
1	MR1	ENSG00000153029	ENST00000438435	processed_transcript	KNOWN	None	4975	None	None	181003146	181024420	1	HLALS	None
1	MR1	ENSG00000153029	ENST00000367578	retained_intron	KNOWN	None	4975	None	None	181003158	181020409	1	HLALS	None
1	MR1	ENSG00000153029	ENST00000434571	protein_coding	KNOWN	CCDS53441	4975	645	214	181003067	181024725	1	HLALS	None
14	MRPL52	ENSG00000172590	ENST00000557543	retained_intron	KNOWN	None	16655	None	None	23299088	23301287	1	None	None
14	MRPL52	ENSG00000172590	ENST00000355151	protein_coding	KNOWN	CCDS41917	16655	372	123	23299092	23304246	1	None	None
14	MRPL52	ENSG00000172590	ENST00000556214	retained_intron	KNOWN	None	16655	None	None	23299096	23299750	1	None	None
14	MRPL52	ENSG00000172590	ENST00000553482	retained_intron	KNOWN	None	16655	None	None	23299096	23299878	1	None	None
14	MRPL52	ENSG00000172590	ENST00000556654	processed_transcript	KNOWN	None	16655	None	None	23299096	23303555	1	None	None
14	MRPL52	ENSG00000172590	ENST00000397496	protein_coding	KNOWN	CCDS9575	16655	369	122	23299096	23304246	1	None	None
14	MRPL52	ENSG00000172590	ENST00000555345	protein_coding	KNOWN	CCDS41918	16655	195	64	23299104	23303926	1	None	None
14	MRPL52	ENSG00000172590	ENST00000432849	protein_coding	NOVEL	None	16655	333	110	23299112	23303555	1	None	None
14	MRPL52	ENSG00000172590	ENST00000553711	protein_coding	KNOWN	CCDS41918	16655	195	64	23299115	23303554	1	None	None
14	MRPL52	ENSG00000172590	ENST00000556465	protein_coding	NOVEL	None	16655	217	71	23299119	23303443	1	None	None
14	MRPL52	ENSG00000172590	ENST00000397505	protein_coding	KNOWN	CCDS9576	16655	264	87	23299122	23303556	1	None	None
14	MRPL52	ENSG00000172590	ENST00000557221	protein_coding	PUTATIVE	None	16655	156	51	23299123	23304037	1	None	None
14	MRPL52	ENSG00000172590	ENST00000311892	protein_coding	PUTATIVE	None	16655	159	52	23299125	23304186	1	None	None
14	MRPL52	ENSG00000172590	ENST00000556840	protein_coding	KNOWN	CCDS41918	16655	195	64	23299130	23303556	1	None	None
14	MRPL52	ENSG00000172590	ENST00000461594	processed_transcript	KNOWN	None	16655	None	None	23299138	23302677	1	None	None
14	MRPL52	ENSG00000172590	ENST00000555536	protein_coding	NOVEL	None	16655	159	52	23299258	23303555	1	None	None
14	MRPL52	ENSG00000172590	ENST00000553965	retained_intron	KNOWN	None	16655	None	None	23302476	23303491	1	None	None
16	None	ENSG00000259910	ENST00000563593	antisense	KNOWN	None	None	None	None	1209548	1210176	-1	None	None
22	None	ENSG00000233577	ENST00000411511	processed_transcript	PUTATIVE	None	None	None	None	25675496	25678258	-1	None	None
22	None	ENSG00000233577	ENST00000432495	processed_transcript	PUTATIVE	None	None	None	None	25677253	25678641	-1	None	None
22	None	ENSG00000233577	ENST00000444383	processed_transcript	PUTATIVE	None	None	None	None	25677804	25679061	-1	None	None
5	SETP22	ENSG00000213701	ENST00000412243	processed_pseudogene	KNOWN	None	42941	None	None	96392106	96393062	-1	None	None
X	SAT1	ENSG00000130066	ENST00000379251	protein_coding	KNOWN	None	10540	453	150	23801290	23802330	1	SAT	SSAT
X	SAT1	ENSG00000130066	ENST00000379253	protein_coding	KNOWN	None	10540	363	120	23801290	23802528	1	SAT	SSAT
X	SAT1	ENSG00000130066	ENST00000379254	protein_coding	KNOWN	None	10540	432	143	23801290	23804230	1	SAT	SSAT
X	SAT1	ENSG00000130066	ENST00000379270	protein_coding	KNOWN	CCDS14207	10540	516	171	23801290	23804343	1	SAT	SSAT
X	SAT1	ENSG00000130066	ENST00000489394	processed_transcript	KNOWN	None	10540	None	None	23801314	23804327	1	SAT	SSAT
X	SAT1	ENSG00000130066	ENST00000463236	processed_transcript	KNOWN	None	10540	None	None	23801454	23804226	1	SAT	SSAT
X	SAT1	ENSG00000130066	ENST00000487713	processed_transcript	KNOWN	None	10540	None	None	23801625	23802146	1	SAT	SSAT
X	SAT1	ENSG00000130066	ENST00000474223	processed_transcript	KNOWN	None	10540	None	None	23802870	23804117	1	SAT	SSAT
X	SAT1	ENSG00000130066	ENST00000462639	processed_transcript	KNOWN	None	10540	None	None	23803377	23804327	1	SAT	SSAT
3	ZNF589	ENSG00000164048	ENST00000354698	protein_coding	KNOWN	CCDS43085	16747	1095	364	48282590	48312477	1	None	SZF1
3	ZNF589	ENSG00000164048	ENST00000427617	protein_coding	PUTATIVE	None	16747	291	96	48282590	48329117	1	None	SZF1
3	ZNF589	ENSG00000164048	ENST00000412564	protein_coding	PUTATIVE	None	16747	243	80	48282591	48340743	1	None	SZF1
3	ZNF589	ENSG00000164048	ENST00000440261	protein_coding	PUTATIVE	None	16747	534	177	48282596	48328120	1	None	SZF1
3	ZNF589	ENSG00000164048	ENST00000448461	nonsense_mediated_decay	KNOWN	CCDS43085	16747	1095	364	48282619	48329117	1	None	SZF1
3	ZNF589	ENSG00000164048	ENST00000457782	nonsense_mediated_decay	KNOWN	None	16747	270	89	48282645	48312480	1	None	SZF1
3	ZNF589	ENSG00000164048	ENST00000454212	processed_transcript	KNOWN	None	16747	None	None	48298077	48309471	1	None	SZF1
16	None	ENSG00000261294	ENST00000564700	antisense	KNOWN	None	None	None	None	1256560	1257124	-1	None	None
5	RNU1-73P	ENSG00000206698	ENST00000383971	snRNA	KNOWN	None	48415	None	None	96511654	96511817	-1	None	None
HSCHR6_MHC_APD	TMEM183AP1	ENSG00000225305	ENST00000430966	processed_pseudogene	KNOWN	None	33458	None	None	29545351	29545640	1	None	BPG126D10.10, OTTHUMG00000086663
4	None	ENSG00000249125	ENST00000503950	lincRNA	KNOWN	None	None	None	None	124411423	124443261	1	None	None
22	IGLL3P	ENSG00000206066	ENST00000412472	unprocessed_pseudogene	KNOWN	None	5872	None	None	25714223	25716047	1	IGLL3	16.1
11	KDELC2	ENSG00000178202	ENST00000323468	protein_coding	KNOWN	CCDS41711	28496	1524	507	108342832	108369159	-1	None	MGC33424
11	KDELC2	ENSG00000178202	ENST00000434945	protein_coding	KNOWN	None	28496	1356	451	108342839	108362231	-1	None	MGC33424
11	KDELC2	ENSG00000178202	ENST00000530529	nonsense_mediated_decay	KNOWN	None	28496	1230	409	108343802	108361944	-1	None	MGC33424
11	KDELC2	ENSG00000178202	ENST00000532730	processed_transcript	PUTATIVE	None	28496	None	None	108345277	108356964	-1	None	MGC33424
11	KDELC2	ENSG00000178202	ENST00000530318	protein_coding	NOVEL	None	28496	481	159	108345467	108352785	-1	None	MGC33424
11	KDELC2	ENSG00000178202	ENST00000524787	processed_transcript	PUTATIVE	None	28496	None	None	108352888	108357691	-1	None	MGC33424
11	KDELC2	ENSG00000178202	ENST00000375648	protein_coding	KNOWN	None	28496	1230	409	108348763	108362231	-1	None	MGC33424
4	None	ENSG00000251526	ENST00000508291	lincRNA	KNOWN	None	None	None	None	124426434	124448680	1	None	None
3	MTMR14	ENSG00000163719	ENST00000353332	protein_coding	KNOWN	CCDS43044	26190	1797	598	9691117	9744077	1	C3orf29	FLJ22405, FLJ90311, hJumpy, hEDTP
3	MTMR14	ENSG00000163719	ENST00000420925	protein_coding	NOVEL	None	26190	879	292	9691134	9744071	1	C3orf29	FLJ22405, FLJ90311, hJumpy, hEDTP
3	MTMR14	ENSG00000163719	ENST00000296003	protein_coding	KNOWN	CCDS43043	26190	1953	650	9691146	9744076	1	C3orf29	FLJ22405, FLJ90311, hJumpy, hEDTP
3	MTMR14	ENSG00000163719	ENST00000447144	nonsense_mediated_decay	KNOWN	None	26190	564	187	9691157	9743900	1	C3orf29	FLJ22405, FLJ90311, hJumpy, hEDTP
3	MTMR14	ENSG00000163719	ENST00000430020	nonsense_mediated_decay	KNOWN	None	26190	567	188	9691189	9725412	1	C3orf29	FLJ22405, FLJ90311, hJumpy, hEDTP
3	MTMR14	ENSG00000163719	ENST00000351233	protein_coding	KNOWN	CCDS43045	26190	1617	538	9691196	9744073	1	C3orf29	FLJ22405, FLJ90311, hJumpy, hEDTP
3	MTMR14	ENSG00000163719	ENST00000416864	nonsense_mediated_decay	KNOWN	None	26190	477	158	9691199	9724901	1	C3orf29	FLJ22405, FLJ90311, hJumpy, hEDTP
3	MTMR14	ENSG00000163719	ENST00000437997	nonsense_mediated_decay	KNOWN	None	26190	216	71	9691203	9710436	1	C3orf29	FLJ22405, FLJ90311, hJumpy, hEDTP
3	MTMR14	ENSG00000163719	ENST00000480578	retained_intron	KNOWN	None	26190	None	None	9691293	9695557	1	C3orf29	FLJ22405, FLJ90311, hJumpy, hEDTP
3	MTMR14	ENSG00000163719	ENST00000449543	nonsense_mediated_decay	KNOWN	None	26190	111	36	9701310	9719742	1	C3orf29	FLJ22405, FLJ90311, hJumpy, hEDTP
3	MTMR14	ENSG00000163719	ENST00000414996	nonsense_mediated_decay	KNOWN	None	26190	183	60	9710427	9744071	1	C3orf29	FLJ22405, FLJ90311, hJumpy, hEDTP
3	MTMR14	ENSG00000163719	ENST00000431250	protein_coding	PUTATIVE	None	26190	462	153	9717198	9726913	1	C3orf29	FLJ22405, FLJ90311, hJumpy, hEDTP
3	MTMR14	ENSG00000163719	ENST00000606184	retained_intron	KNOWN	None	26190	None	None	9741111	9744076	1	C3orf29	FLJ22405, FLJ90311, hJumpy, hEDTP
HSCHR6_MHC_APD	None	ENSG00000265634	ENST00000581263	snoRNA	KNOWN	None	None	None	None	29550140	29550223	1	None	None
9	RN7SKP59	ENSG00000222452	ENST00000410520	misc_RNA	KNOWN	None	45783	None	None	80780381	80780694	1	None	None
9	None	ENSG00000233947	ENST00000418694	processed_pseudogene	KNOWN	None	None	None	None	80793179	80794428	1	None	None
HSCHR6_MHC_APD	RPL13AP	ENSG00000224053	ENST00000441976	processed_pseudogene	KNOWN	None	13977	None	None	29550399	29550916	1	None	RPL13Ap, dJ271M21.3
4	None	ENSG00000249464	ENST00000514823	lincRNA	KNOWN	None	None	None	None	124571422	124587987	1	None	None
4	None	ENSG00000249464	ENST00000511919	lincRNA	KNOWN	None	None	None	None	124571446	124851509	1	None	None
4	None	ENSG00000249464	ENST00000508111	lincRNA	KNOWN	None	None	None	None	124571446	124851561	1	None	None
4	None	ENSG00000249464	ENST00000515769	lincRNA	KNOWN	None	None	None	None	124695419	124786728	1	None	None
9	None	ENSG00000228781	ENST00000433468	processed_pseudogene	KNOWN	None	None	None	None	80795130	80795609	-1	None	None
5	MARCH11	ENSG00000183654	ENST00000332432	protein_coding	KNOWN	CCDS47192	33609	1209	402	16067248	16179884	-1	None	MARCH-XI
5	MARCH11	ENSG00000183654	ENST00000507111	protein_coding	PUTATIVE	None	33609	164	53	16067423	16177938	-1	None	MARCH-XI
5	MARCH11	ENSG00000183654	ENST00000505509	processed_transcript	KNOWN	None	33609	None	None	16090996	16180871	-1	None	MARCH-XI
22	None	ENSG00000230637	ENST00000433457	unprocessed_pseudogene	KNOWN	None	None	None	None	25723219	25735942	1	None	None
HSCHR6_MHC_APD	SUMO2P1	ENSG00000236971	ENST00000417139	processed_pseudogene	KNOWN	None	13985	None	None	29603970	29604253	-1	SMT3H2P, SUMO2P	SMT3Bp, dJ271M21
HSCHR6_MHC_APD	SUMO2P1	ENSG00000236971	ENST00000548028	pseudogene	KNOWN	None	13985	None	None	29603970	29604253	-1	SMT3H2P, SUMO2P	SMT3Bp, dJ271M21
13	CARKD	ENSG00000213995	ENST00000470164	processed_transcript	KNOWN	None	25576	None	None	111267938	111292340	1	None	LP3298, FLJ10769
13	CARKD	ENSG00000213995	ENST00000309957	protein_coding	KNOWN	CCDS9513	25576	1173	390	111268008	111292340	1	None	LP3298, FLJ10769
13	CARKD	ENSG00000213995	ENST00000458711	protein_coding	KNOWN	None	25576	651	216	111267881	111291542	1	None	LP3298, FLJ10769
13	CARKD	ENSG00000213995	ENST00000424185	protein_coding	KNOWN	CCDS55903	25576	714	237	111267922	111291452	1	None	LP3298, FLJ10769
13	CARKD	ENSG00000213995	ENST00000397191	protein_coding	KNOWN	None	25576	366	121	111267931	111287876	1	None	LP3298, FLJ10769
3	COPB2	ENSG00000184432	ENST00000503326	protein_coding	PUTATIVE	None	2232	355	117	139074442	139077963	-1	None	beta'-COP, betaprime-COP
3	COPB2	ENSG00000184432	ENST00000333188	protein_coding	KNOWN	CCDS3108	2232	2721	906	139076248	139108574	-1	None	beta'-COP, betaprime-COP
3	COPB2	ENSG00000184432	ENST00000507777	protein_coding	PUTATIVE	None	2232	2634	877	139076435	139108518	-1	None	beta'-COP, betaprime-COP
3	COPB2	ENSG00000184432	ENST00000502734	retained_intron	KNOWN	None	2232	None	None	139076665	139077585	-1	None	beta'-COP, betaprime-COP
3	COPB2	ENSG00000184432	ENST00000512309	protein_coding	NOVEL	None	2232	534	177	139076674	139090638	-1	None	beta'-COP, betaprime-COP
3	COPB2	ENSG00000184432	ENST00000510181	retained_intron	KNOWN	None	2232	None	None	139093082	139108429	-1	None	beta'-COP, betaprime-COP
3	COPB2	ENSG00000184432	ENST00000515006	protein_coding	NOVEL	None	2232	458	151	139094440	139108482	-1	None	beta'-COP, betaprime-COP
3	COPB2	ENSG00000184432	ENST00000512153	protein_coding	PUTATIVE	None	2232	333	110	139096967	139108522	-1	None	beta'-COP, betaprime-COP
3	COPB2	ENSG00000184432	ENST00000513274	protein_coding	PUTATIVE	None	2232	268	88	139097889	139108490	-1	None	beta'-COP, betaprime-COP
3	COPB2	ENSG00000184432	ENST00000512242	protein_coding	PUTATIVE	None	2232	259	85	139097898	139108468	-1	None	beta'-COP, betaprime-COP
3	COPB2	ENSG00000184432	ENST00000510491	processed_transcript	KNOWN	None	2232	None	None	139097918	139108402	-1	None	beta'-COP, betaprime-COP
3	COPB2	ENSG00000184432	ENST00000514508	protein_coding	PUTATIVE	None	2232	231	76	139097926	139108512	-1	None	beta'-COP, betaprime-COP
3	COPB2	ENSG00000184432	ENST00000504295	retained_intron	KNOWN	None	2232	None	None	139098853	139108488	-1	None	beta'-COP, betaprime-COP
X	CXorf66	ENSG00000203933	ENST00000370540	protein_coding	KNOWN	CCDS35411	33743	1086	361	139037884	139047679	-1	None	RP11-35F15.2
17	PLXDC1	ENSG00000161381	ENST00000315392	protein_coding	KNOWN	CCDS11333	20945	1503	500	37219556	37307902	-1	None	TEM3, TEM7
17	PLXDC1	ENSG00000161381	ENST00000394318	retained_intron	KNOWN	None	20945	None	None	37223383	37307772	-1	None	TEM3, TEM7
17	PLXDC1	ENSG00000161381	ENST00000578390	nonsense_mediated_decay	KNOWN	None	20945	1014	337	37223383	37307772	-1	None	TEM3, TEM7
17	PLXDC1	ENSG00000161381	ENST00000578517	retained_intron	KNOWN	None	20945	None	None	37223383	37309280	-1	None	TEM3, TEM7
17	PLXDC1	ENSG00000161381	ENST00000493200	processed_transcript	KNOWN	None	20945	None	None	37223385	37288290	-1	None	TEM3, TEM7
17	PLXDC1	ENSG00000161381	ENST00000461225	retained_intron	KNOWN	None	20945	None	None	37223385	37309485	-1	None	TEM3, TEM7
17	PLXDC1	ENSG00000161381	ENST00000444911	protein_coding	PUTATIVE	None	20945	1383	460	37223413	37308952	-1	None	TEM3, TEM7
17	PLXDC1	ENSG00000161381	ENST00000578277	retained_intron	KNOWN	None	20945	None	None	37224175	37226724	-1	None	TEM3, TEM7
17	PLXDC1	ENSG00000161381	ENST00000582025	retained_intron	KNOWN	None	20945	None	None	37226234	37235523	-1	None	TEM3, TEM7
17	PLXDC1	ENSG00000161381	ENST00000579417	retained_intron	KNOWN	None	20945	None	None	37228267	37234261	-1	None	TEM3, TEM7
17	PLXDC1	ENSG00000161381	ENST00000579279	protein_coding	PUTATIVE	None	20945	547	181	37234202	37263740	-1	None	TEM3, TEM7
17	PLXDC1	ENSG00000161381	ENST00000578808	nonsense_mediated_decay	KNOWN	None	20945	300	99	37243861	37309285	-1	None	TEM3, TEM7
17	PLXDC1	ENSG00000161381	ENST00000441877	protein_coding	PUTATIVE	None	20945	666	221	37243882	37308865	-1	None	TEM3, TEM7
17	PLXDC1	ENSG00000161381	ENST00000444435	processed_transcript	KNOWN	None	20945	None	None	37253121	37263721	-1	None	TEM3, TEM7
17	PLXDC1	ENSG00000161381	ENST00000577838	processed_transcript	KNOWN	None	20945	None	None	37263660	37268430	-1	None	TEM3, TEM7
17	PLXDC1	ENSG00000161381	ENST00000415163	protein_coding	PUTATIVE	None	20945	373	123	37264376	37308824	-1	None	TEM3, TEM7
17	PLXDC1	ENSG00000161381	ENST00000579190	protein_coding	PUTATIVE	None	20945	294	97	37264455	37310647	-1	None	TEM3, TEM7
17	PLXDC1	ENSG00000161381	ENST00000580667	processed_transcript	KNOWN	None	20945	None	None	37264968	37309303	-1	None	TEM3, TEM7
17	PLXDC1	ENSG00000161381	ENST00000577941	processed_transcript	KNOWN	None	20945	None	None	37265501	37309286	-1	None	TEM3, TEM7
17	PLXDC1	ENSG00000161381	ENST00000583285	processed_transcript	KNOWN	None	20945	None	None	37283192	37309303	-1	None	TEM3, TEM7
17	PLXDC1	ENSG00000161381	ENST00000539608	protein_coding	KNOWN	None	20945	723	240	37223385	37309485	-1	None	TEM3, TEM7
17	PLXDC1	ENSG00000161381	ENST00000394316	protein_coding	KNOWN	None	20945	1014	337	37237678	37307902	-1	None	TEM3, TEM7
22	None	ENSG00000231466	ENST00000434827	processed_pseudogene	KNOWN	None	None	None	None	25745510	25746289	-1	None	None
22	IGLVIVOR22-1	ENSG00000271138	ENST00000603243	IG_V_pseudogene	KNOWN	None	15694	None	None	25833273	25833790	-1	None	IGLV(IV)/OR22-1
13	POLR1D	ENSG00000186184	ENST00000302979	protein_coding	KNOWN	CCDS9325	20422	402	133	28194903	28197589	1	None	RPAC2, RPA16, RPO1-3, RPA9, MGC9850
13	POLR1D	ENSG00000186184	ENST00000399697	protein_coding	NOVEL	CCDS9324	20422	369	122	28196003	28241548	1	None	RPAC2, RPA16, RPO1-3, RPA9, MGC9850
13	POLR1D	ENSG00000186184	ENST00000465887	processed_transcript	KNOWN	None	20422	None	None	28196012	28241547	1	None	RPAC2, RPA16, RPO1-3, RPA9, MGC9850
13	POLR1D	ENSG00000186184	ENST00000489647	processed_transcript	KNOWN	None	20422	None	None	28196023	28224846	1	None	RPAC2, RPA16, RPO1-3, RPA9, MGC9850
13	POLR1D	ENSG00000186184	ENST00000472179	processed_transcript	KNOWN	None	20422	None	None	28222147	28239890	1	None	RPAC2, RPA16, RPO1-3, RPA9, MGC9850
13	POLR1D	ENSG00000186184	ENST00000399696	protein_coding	KNOWN	CCDS9325	20422	402	133	28196029	28197583	1	None	RPAC2, RPA16, RPO1-3, RPA9, MGC9850
11	BBS1	ENSG00000174483	ENST00000526760	nonsense_mediated_decay	KNOWN	None	966	258	85	66278077	66301084	1	None	FLJ23590
11	BBS1	ENSG00000174483	ENST00000533644	nonsense_mediated_decay	KNOWN	None	966	495	164	66278080	66291002	1	None	FLJ23590
11	BBS1	ENSG00000174483	ENST00000318312	protein_coding	KNOWN	CCDS8142	966	1782	593	66278080	66301098	1	None	FLJ23590
11	BBS1	ENSG00000174483	ENST00000527251	nonsense_mediated_decay	KNOWN	None	966	168	55	66278087	66287215	1	None	FLJ23590
11	BBS1	ENSG00000174483	ENST00000526815	protein_coding	PUTATIVE	None	966	162	53	66278105	66281969	1	None	FLJ23590
11	BBS1	ENSG00000174483	ENST00000533557	nonsense_mediated_decay	KNOWN	None	966	258	85	66278106	66291002	1	None	FLJ23590
11	BBS1	ENSG00000174483	ENST00000525809	protein_coding	NOVEL	None	966	577	191	66278107	66290946	1	None	FLJ23590
11	BBS1	ENSG00000174483	ENST00000455748	protein_coding	NOVEL	None	966	1491	496	66278113	66299551	1	None	FLJ23590
11	BBS1	ENSG00000174483	ENST00000529955	retained_intron	KNOWN	None	966	None	None	66278113	66301074	1	None	FLJ23590
11	BBS1	ENSG00000174483	ENST00000526035	nonsense_mediated_decay	KNOWN	None	966	258	85	66278115	66290941	1	None	FLJ23590
11	BBS1	ENSG00000174483	ENST00000534730	retained_intron	KNOWN	None	966	None	None	66278119	66283299	1	None	FLJ23590
11	BBS1	ENSG00000174483	ENST00000532908	nonsense_mediated_decay	KNOWN	None	966	258	85	66278120	66291315	1	None	FLJ23590
11	BBS1	ENSG00000174483	ENST00000529766	processed_transcript	KNOWN	None	966	None	None	66278124	66295172	1	None	FLJ23590
11	BBS1	ENSG00000174483	ENST00000393994	protein_coding	PUTATIVE	None	966	1341	446	66278126	66299690	1	None	FLJ23590
11	BBS1	ENSG00000174483	ENST00000524907	retained_intron	KNOWN	None	966	None	None	66278141	66287228	1	None	FLJ23590
11	BBS1	ENSG00000174483	ENST00000524705	protein_coding	PUTATIVE	None	966	201	66	66278483	66283058	1	None	FLJ23590
11	BBS1	ENSG00000174483	ENST00000524458	nonsense_mediated_decay	KNOWN	None	966	168	55	66278490	66290993	1	None	FLJ23590
11	BBS1	ENSG00000174483	ENST00000533430	retained_intron	KNOWN	None	966	None	None	66281940	66289083	1	None	FLJ23590
11	BBS1	ENSG00000174483	ENST00000529953	processed_transcript	KNOWN	None	966	None	None	66282066	66288360	1	None	FLJ23590
11	BBS1	ENSG00000174483	ENST00000528543	retained_intron	KNOWN	None	966	None	None	66283163	66287358	1	None	FLJ23590
11	BBS1	ENSG00000174483	ENST00000532283	retained_intron	KNOWN	None	966	None	None	66287154	66288773	1	None	FLJ23590
11	BBS1	ENSG00000174483	ENST00000524884	retained_intron	KNOWN	None	966	None	None	66290322	66290983	1	None	FLJ23590
11	BBS1	ENSG00000174483	ENST00000529895	retained_intron	KNOWN	None	966	None	None	66290648	66291354	1	None	FLJ23590
11	BBS1	ENSG00000174483	ENST00000527959	retained_intron	KNOWN	None	966	None	None	66290953	66294529	1	None	FLJ23590
11	BBS1	ENSG00000174483	ENST00000537537	protein_coding	KNOWN	None	966	498	165	66278106	66290961	1	None	FLJ23590
11	CDCA5	ENSG00000146670	ENST00000529290	protein_coding	PUTATIVE	None	14626	763	253	64833772	64846861	-1	None	None
11	CDCA5	ENSG00000146670	ENST00000525464	protein_coding	PUTATIVE	None	14626	672	223	64833837	64846887	-1	None	None
11	CDCA5	ENSG00000146670	ENST00000533015	retained_intron	KNOWN	None	14626	None	None	64835516	64851372	-1	None	None
11	CDCA5	ENSG00000146670	ENST00000275517	protein_coding	KNOWN	CCDS8091	14626	759	252	64844924	64851623	-1	None	None
11	CDCA5	ENSG00000146670	ENST00000524733	nonsense_mediated_decay	KNOWN	None	14626	212	69	64846105	64851003	-1	None	None
11	CDCA5	ENSG00000146670	ENST00000404147	protein_coding	NOVEL	None	14626	924	307	64846560	64851519	-1	None	None
11	CDCA5	ENSG00000146670	ENST00000479032	retained_intron	KNOWN	None	14626	None	None	64846604	64851511	-1	None	None
11	CDCA5	ENSG00000146670	ENST00000531401	retained_intron	KNOWN	None	14626	None	None	64846613	64851636	-1	None	None
11	CDCA5	ENSG00000146670	ENST00000527430	nonsense_mediated_decay	KNOWN	None	14626	173	56	64846638	64851449	-1	None	None
11	CDCA5	ENSG00000146670	ENST00000462902	retained_intron	KNOWN	None	14626	None	None	64850722	64851368	-1	None	None
11	CDCA5	ENSG00000146670	ENST00000438878	protein_coding	KNOWN	None	14626	213	70	64834081	64835205	-1	None	None
1	AGMAT	ENSG00000116771	ENST00000375826	protein_coding	KNOWN	CCDS160	18407	1059	352	15898848	15911605	-1	None	FLJ23384
HSCHR6_MHC_APD	HLA-V	ENSG00000206507	ENST00000438390	processed_transcript	KNOWN	None	23482	None	None	29758890	29760777	1	HLA-75	dJ377H14.4
HSCHR6_MHC_APD	HLA-V	ENSG00000206507	ENST00000444492	processed_transcript	KNOWN	None	23482	None	None	29759382	29765609	1	HLA-75	dJ377H14.4
HSCHR6_MHC_APD	HLA-V	ENSG00000206507	ENST00000447679	processed_transcript	KNOWN	None	23482	None	None	29760251	29765609	1	HLA-75	dJ377H14.4
HSCHR6_MHC_APD	HLA-V	ENSG00000206507	ENST00000434021	transcribed_unprocessed_pseudogene	KNOWN	None	23482	None	None	29760262	29761143	1	HLA-75	dJ377H14.4
4	None	ENSG00000226655	ENST00000439565	lincRNA	KNOWN	None	None	None	None	124666078	124666828	-1	None	None
5	APBB3	ENSG00000113108	ENST00000515056	retained_intron	KNOWN	None	20708	None	None	139937853	139942492	-1	None	FE65L2
5	APBB3	ENSG00000113108	ENST00000509914	nonsense_mediated_decay	KNOWN	None	20708	645	214	139937854	139943917	-1	None	FE65L2
5	APBB3	ENSG00000113108	ENST00000510241	retained_intron	KNOWN	None	20708	None	None	139937854	139944181	-1	None	FE65L2
5	APBB3	ENSG00000113108	ENST00000467078	nonsense_mediated_decay	KNOWN	None	20708	738	245	139937857	139943830	-1	None	FE65L2
5	APBB3	ENSG00000113108	ENST00000356738	protein_coding	KNOWN	CCDS4228	20708	1476	491	139937857	139943845	-1	None	FE65L2
5	APBB3	ENSG00000113108	ENST00000354402	protein_coding	NOVEL	CCDS4227	20708	1482	493	139937857	139943845	-1	None	FE65L2
5	APBB3	ENSG00000113108	ENST00000357560	protein_coding	KNOWN	CCDS4229	20708	1461	486	139937857	139944274	-1	None	FE65L2
5	APBB3	ENSG00000113108	ENST00000511896	nonsense_mediated_decay	KNOWN	None	20708	492	163	139937979	139943956	-1	None	FE65L2
5	APBB3	ENSG00000113108	ENST00000412920	protein_coding	KNOWN	CCDS47279	20708	1455	484	139938170	139943830	-1	None	FE65L2
5	APBB3	ENSG00000113108	ENST00000511201	protein_coding	PUTATIVE	None	20708	1014	337	139939986	139943830	-1	None	FE65L2
5	APBB3	ENSG00000113108	ENST00000504872	retained_intron	KNOWN	None	20708	None	None	139940284	139941734	-1	None	FE65L2
5	APBB3	ENSG00000113108	ENST00000506289	retained_intron	KNOWN	None	20708	None	None	139940304	139944286	-1	None	FE65L2
5	APBB3	ENSG00000113108	ENST00000511463	retained_intron	KNOWN	None	20708	None	None	139941228	139942092	-1	None	FE65L2
5	APBB3	ENSG00000113108	ENST00000503979	retained_intron	KNOWN	None	20708	None	None	139941428	139942427	-1	None	FE65L2
5	APBB3	ENSG00000113108	ENST00000513507	retained_intron	KNOWN	None	20708	None	None	139941617	139943859	-1	None	FE65L2
5	APBB3	ENSG00000113108	ENST00000505617	processed_transcript	KNOWN	None	20708	None	None	139941758	139944366	-1	None	FE65L2
5	APBB3	ENSG00000113108	ENST00000506958	retained_intron	KNOWN	None	20708	None	None	139941954	139944054	-1	None	FE65L2
5	APBB3	ENSG00000113108	ENST00000507279	processed_transcript	KNOWN	None	20708	None	None	139942028	139971708	-1	None	FE65L2
5	APBB3	ENSG00000113108	ENST00000503850	retained_intron	KNOWN	None	20708	None	None	139942923	139943974	-1	None	FE65L2
5	APBB3	ENSG00000113108	ENST00000511459	retained_intron	KNOWN	None	20708	None	None	139942991	139944334	-1	None	FE65L2
5	APBB3	ENSG00000113108	ENST00000506165	retained_intron	KNOWN	None	20708	None	None	139943119	139943959	-1	None	FE65L2
5	APBB3	ENSG00000113108	ENST00000513766	processed_transcript	KNOWN	None	20708	None	None	139943475	139953782	-1	None	FE65L2
5	APBB3	ENSG00000113108	ENST00000510304	processed_transcript	KNOWN	None	20708	None	None	139956533	139973337	-1	None	FE65L2
5	APBB3	ENSG00000113108	ENST00000508496	protein_coding	KNOWN	None	20708	792	263	139937979	139943956	-1	None	FE65L2
5	APBB3	ENSG00000113108	ENST00000358580	protein_coding	KNOWN	None	20708	1020	339	139937854	139943917	-1	None	FE65L2
14	IGHJ3	ENSG00000242887	ENST00000463911	IG_J_gene	KNOWN	None	5536	49	15	106330797	106330845	-1	None	None
22	CRYBB2P1	ENSG00000100058	ENST00000382734	processed_transcript	KNOWN	None	2399	None	None	25844072	25857636	1	CRYB2B	None
22	CRYBB2P1	ENSG00000100058	ENST00000415709	transcribed_unprocessed_pseudogene	KNOWN	None	2399	None	None	25851679	25855648	1	CRYB2B	None
22	CRYBB2P1	ENSG00000100058	ENST00000354451	processed_transcript	KNOWN	None	2399	None	None	25851685	25907595	1	CRYB2B	None
22	CRYBB2P1	ENSG00000100058	ENST00000509460	processed_transcript	KNOWN	None	2399	None	None	25851763	25916821	1	CRYB2B	None
4	None	ENSG00000228489	ENST00000417698	processed_pseudogene	KNOWN	None	None	None	None	124666905	124667381	-1	None	None
4	None	ENSG00000250458	ENST00000504523	processed_pseudogene	KNOWN	None	None	None	None	124783015	124783170	-1	None	None
11	CARNS1	ENSG00000172508	ENST00000525907	processed_transcript	PUTATIVE	None	29268	None	None	67182439	67182957	1	ATPGD1	KIAA1394
11	CARNS1	ENSG00000172508	ENST00000529925	processed_transcript	KNOWN	None	29268	None	None	67182832	67185992	1	ATPGD1	KIAA1394
11	CARNS1	ENSG00000172508	ENST00000531040	protein_coding	KNOWN	None	29268	2775	924	67183149	67192155	1	ATPGD1	KIAA1394
11	CARNS1	ENSG00000172508	ENST00000531958	retained_intron	KNOWN	None	29268	None	None	67183149	67192708	1	ATPGD1	KIAA1394
11	CARNS1	ENSG00000172508	ENST00000307823	protein_coding	KNOWN	CCDS44658	29268	2484	827	67183149	67193078	1	ATPGD1	KIAA1394
11	CARNS1	ENSG00000172508	ENST00000531388	retained_intron	KNOWN	None	29268	None	None	67183667	67193076	1	ATPGD1	KIAA1394
11	CARNS1	ENSG00000172508	ENST00000524740	processed_transcript	KNOWN	None	29268	None	None	67188579	67191311	1	ATPGD1	KIAA1394
11	CARNS1	ENSG00000172508	ENST00000445895	protein_coding	KNOWN	CCDS53667	29268	2853	950	67183557	67193076	1	ATPGD1	KIAA1394
11	CARNS1	ENSG00000172508	ENST00000423745	protein_coding	KNOWN	CCDS44658	29268	2484	827	67183149	67193076	1	ATPGD1	KIAA1394
1	PTAFR	ENSG00000169403	ENST00000373857	protein_coding	KNOWN	CCDS318	9582	1029	342	28473677	28503699	-1	None	None
1	PTAFR	ENSG00000169403	ENST00000305392	protein_coding	KNOWN	CCDS318	9582	1029	342	28476184	28520384	-1	None	None
1	PTAFR	ENSG00000169403	ENST00000539896	protein_coding	KNOWN	CCDS318	9582	1029	342	28473677	28520447	-1	None	None
14	IGHJ2	ENSG00000211904	ENST00000390564	IG_J_gene	KNOWN	None	5534	52	16	106331409	106331460	-1	None	None
9	PAEP	ENSG00000122133	ENST00000371768	nonsense_mediated_decay	KNOWN	None	8573	510	169	138453602	138458622	1	None	PEP, PP14, GdA, GdS, GdF, PAEG, GD, MGC138509, MGC142288
9	PAEP	ENSG00000122133	ENST00000479141	protein_coding	KNOWN	CCDS35173	8573	543	180	138453604	138458801	1	None	PEP, PP14, GdA, GdS, GdF, PAEG, GD, MGC138509, MGC142288
9	PAEP	ENSG00000122133	ENST00000371766	protein_coding	KNOWN	CCDS35173	8573	543	180	138453613	138458622	1	None	PEP, PP14, GdA, GdS, GdF, PAEG, GD, MGC138509, MGC142288
9	PAEP	ENSG00000122133	ENST00000277508	protein_coding	KNOWN	CCDS35173	8573	543	180	138453623	138458622	1	None	PEP, PP14, GdA, GdS, GdF, PAEG, GD, MGC138509, MGC142288
9	PAEP	ENSG00000122133	ENST00000433563	protein_coding	KNOWN	None	8573	394	130	138453692	138458801	1	None	PEP, PP14, GdA, GdS, GdF, PAEG, GD, MGC138509, MGC142288
9	PAEP	ENSG00000122133	ENST00000418284	protein_coding	KNOWN	None	8573	399	132	138454188	138458074	1	None	PEP, PP14, GdA, GdS, GdF, PAEG, GD, MGC138509, MGC142288
9	PAEP	ENSG00000122133	ENST00000454923	protein_coding	KNOWN	None	8573	379	125	138454208	138458629	1	None	PEP, PP14, GdA, GdS, GdF, PAEG, GD, MGC138509, MGC142288
9	PAEP	ENSG00000122133	ENST00000457014	protein_coding	KNOWN	None	8573	100	32	138457278	138458512	1	None	PEP, PP14, GdA, GdS, GdF, PAEG, GD, MGC138509, MGC142288
4	None	ENSG00000250484	ENST00000424692	processed_pseudogene	KNOWN	None	None	None	None	124983617	124984145	1	None	None
14	IGHJ1	ENSG00000211905	ENST00000390565	IG_J_gene	KNOWN	None	5532	52	16	106331617	106331668	-1	None	None
11	TPH1	ENSG00000129167	ENST00000250018	protein_coding	KNOWN	CCDS7829	12008	1335	444	18039111	18062872	-1	TPRH, TPH	None
11	TPH1	ENSG00000129167	ENST00000417164	nonsense_mediated_decay	KNOWN	None	12008	621	206	18042538	18062309	-1	TPRH, TPH	None
11	TPH1	ENSG00000129167	ENST00000525406	processed_transcript	PUTATIVE	None	12008	None	None	18042624	18044716	-1	TPRH, TPH	None
11	TPH1	ENSG00000129167	ENST00000528338	protein_coding	PUTATIVE	None	12008	497	164	18051062	18063973	-1	TPRH, TPH	None
11	TPH1	ENSG00000129167	ENST00000341556	protein_coding	KNOWN	None	12008	1401	466	18041196	18062335	-1	TPRH, TPH	None
11	NRIP3	ENSG00000175352	ENST00000309166	protein_coding	KNOWN	CCDS31422	1167	726	241	9002123	9025596	-1	C11orf14	None
11	NRIP3	ENSG00000175352	ENST00000534759	protein_coding	PUTATIVE	None	1167	167	54	9004106	9005650	-1	C11orf14	None
11	NRIP3	ENSG00000175352	ENST00000531142	protein_coding	PUTATIVE	None	1167	198	65	9005065	9007303	-1	C11orf14	None
11	NRIP3	ENSG00000175352	ENST00000531090	protein_coding	PUTATIVE	None	1167	426	141	9005126	9025596	-1	C11orf14	None
11	NRIP3	ENSG00000175352	ENST00000525100	protein_coding	NOVEL	None	1167	481	159	9007318	9025548	-1	C11orf14	None
4	None	ENSG00000249837	ENST00000507299	lincRNA	KNOWN	None	None	None	None	125070532	125173199	-1	None	None
14	IGHD7-27	ENSG00000236597	ENST00000439842	IG_D_gene	KNOWN	None	5518	11	2	106331761	106331771	-1	None	IGHD727, DHQ52
14	IGHD1-26	ENSG00000211907	ENST00000390567	IG_D_gene	KNOWN	None	5485	20	5	106346892	106346911	-1	None	IGHD126
4	None	ENSG00000248506	ENST00000506481	processed_pseudogene	KNOWN	None	None	None	None	125356905	125358275	-1	None	None
X	None	ENSG00000233446	ENST00000440833	processed_pseudogene	KNOWN	None	None	None	None	80855571	80856805	1	None	None
HSCHR6_MHC_COX	ATAT1	ENSG00000223752	ENST00000423338	protein_coding	KNOWN	None	21186	903	300	30584468	30602303	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_COX	ATAT1	ENSG00000223752	ENST00000445486	protein_coding	KNOWN	None	21186	1266	421	30584482	30604447	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_COX	ATAT1	ENSG00000223752	ENST00000424121	protein_coding	KNOWN	None	21186	933	310	30584501	30602303	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_COX	ATAT1	ENSG00000223752	ENST00000457161	protein_coding	KNOWN	None	21186	972	323	30584502	30602303	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_COX	ATAT1	ENSG00000223752	ENST00000450003	protein_coding	KNOWN	None	21186	1002	333	30584512	30602303	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_COX	ATAT1	ENSG00000223752	ENST00000425448	protein_coding	KNOWN	None	21186	1230	409	30584512	30604447	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_COX	ATAT1	ENSG00000223752	ENST00000489189	processed_transcript	KNOWN	None	21186	None	None	30584519	30604447	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_COX	ATAT1	ENSG00000223752	ENST00000468199	retained_intron	KNOWN	None	21186	None	None	30584541	30598322	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_COX	ATAT1	ENSG00000223752	ENST00000467417	retained_intron	KNOWN	None	21186	None	None	30584546	30604447	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_COX	ATAT1	ENSG00000223752	ENST00000472887	processed_transcript	KNOWN	None	21186	None	None	30586026	30604026	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_COX	ATAT1	ENSG00000223752	ENST00000491312	retained_intron	KNOWN	None	21186	None	None	30599446	30604447	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_COX	ATAT1	ENSG00000223752	ENST00000497780	retained_intron	KNOWN	None	21186	None	None	30600543	30604447	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_COX	ATAT1	ENSG00000223752	ENST00000553093	protein_coding	KNOWN	None	21186	1197	398	30584482	30604426	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
13	GSX1	ENSG00000169840	ENST00000302945	protein_coding	KNOWN	CCDS9326	20374	795	264	28366780	28368905	1	GSH1	Gsh-1
14	IGHD6-25	ENSG00000225825	ENST00000452198	IG_D_gene	KNOWN	None	5516	18	5	106347397	106347414	-1	None	IGHD625
6	None	ENSG00000248993	ENST00000429234	protein_coding	PUTATIVE	None	None	526	174	32905141	32920899	-1	None	None
9	RNU6-1269P	ENSG00000212441	ENST00000391139	snRNA	KNOWN	None	48232	None	None	42378941	42379047	1	None	None
9	None	ENSG00000234812	ENST00000420308	processed_pseudogene	KNOWN	None	None	None	None	42436293	42436520	-1	None	None
1	IER5	ENSG00000162783	ENST00000367577	protein_coding	KNOWN	CCDS1343	5393	984	327	181057638	181059977	1	None	None
22	EFCAB6	ENSG00000186976	ENST00000461800	processed_transcript	KNOWN	None	24204	None	None	43924624	43966023	-1	None	FLJ23588, DJBP, HSCBCIP1, KIAA1672, dJ185D5.1
22	EFCAB6	ENSG00000186976	ENST00000396231	protein_coding	KNOWN	CCDS14050	24204	4050	1349	43924624	44208070	-1	None	FLJ23588, DJBP, HSCBCIP1, KIAA1672, dJ185D5.1
22	EFCAB6	ENSG00000186976	ENST00000262726	protein_coding	KNOWN	CCDS14049	24204	4506	1501	43924624	44208157	-1	None	FLJ23588, DJBP, HSCBCIP1, KIAA1672, dJ185D5.1
22	EFCAB6	ENSG00000186976	ENST00000483324	processed_transcript	KNOWN	None	24204	None	None	43924658	43929385	-1	None	FLJ23588, DJBP, HSCBCIP1, KIAA1672, dJ185D5.1
22	EFCAB6	ENSG00000186976	ENST00000477145	processed_transcript	KNOWN	None	24204	None	None	43924660	43927941	-1	None	FLJ23588, DJBP, HSCBCIP1, KIAA1672, dJ185D5.1
22	EFCAB6	ENSG00000186976	ENST00000468552	retained_intron	KNOWN	None	24204	None	None	43947726	44068150	-1	None	FLJ23588, DJBP, HSCBCIP1, KIAA1672, dJ185D5.1
22	EFCAB6	ENSG00000186976	ENST00000404038	retained_intron	KNOWN	None	24204	None	None	44079544	44208217	-1	None	FLJ23588, DJBP, HSCBCIP1, KIAA1672, dJ185D5.1
22	EFCAB6	ENSG00000186976	ENST00000356087	protein_coding	PUTATIVE	None	24204	603	200	44112551	44208185	-1	None	FLJ23588, DJBP, HSCBCIP1, KIAA1672, dJ185D5.1
22	EFCAB6	ENSG00000186976	ENST00000476600	processed_transcript	KNOWN	None	24204	None	None	44161185	44208133	-1	None	FLJ23588, DJBP, HSCBCIP1, KIAA1672, dJ185D5.1
22	EFCAB6	ENSG00000186976	ENST00000485142	processed_transcript	KNOWN	None	24204	None	None	44178090	44208154	-1	None	FLJ23588, DJBP, HSCBCIP1, KIAA1672, dJ185D5.1
22	EFCAB6	ENSG00000186976	ENST00000358439	protein_coding	KNOWN	None	24204	732	243	44073871	44208117	-1	None	FLJ23588, DJBP, HSCBCIP1, KIAA1672, dJ185D5.1
9	SNX18P8	ENSG00000231390	ENST00000455120	unprocessed_pseudogene	KNOWN	None	39616	None	None	42438100	42438973	1	None	None
5	ZNF622	ENSG00000173545	ENST00000308683	protein_coding	KNOWN	CCDS3886	30958	1434	477	16451628	16465901	-1	None	MGC2485, MGC17552, ZPR9
4	OR7E94P	ENSG00000249646	ENST00000601375	processed_transcript	KNOWN	None	14789	None	None	80508456	80509245	-1	None	None
4	OR7E94P	ENSG00000249646	ENST00000502331	transcribed_unprocessed_pseudogene	KNOWN	None	14789	None	None	80508911	80509284	-1	None	None
15	PARP6	ENSG00000137817	ENST00000569173	protein_coding	PUTATIVE	None	26921	242	79	72533522	72552964	-1	None	pART17
15	PARP6	ENSG00000137817	ENST00000569795	protein_coding	KNOWN	CCDS10241	26921	1893	630	72533522	72564962	-1	None	pART17
15	PARP6	ENSG00000137817	ENST00000413097	processed_transcript	KNOWN	None	26921	None	None	72533523	72559990	-1	None	pART17
15	PARP6	ENSG00000137817	ENST00000569972	retained_intron	KNOWN	None	26921	None	None	72533538	72542606	-1	None	pART17
15	PARP6	ENSG00000137817	ENST00000564610	nonsense_mediated_decay	KNOWN	None	26921	1354	450	72533540	72558270	-1	None	pART17
15	PARP6	ENSG00000137817	ENST00000567974	protein_coding	NOVEL	None	26921	1694	563	72533540	72558271	-1	None	pART17
15	PARP6	ENSG00000137817	ENST00000544520	processed_transcript	KNOWN	None	26921	None	None	72533540	72559369	-1	None	pART17
15	PARP6	ENSG00000137817	ENST00000565443	nonsense_mediated_decay	KNOWN	None	26921	1560	519	72533540	72563392	-1	None	pART17
15	PARP6	ENSG00000137817	ENST00000566991	retained_intron	KNOWN	None	26921	None	None	72533559	72538128	-1	None	pART17
15	PARP6	ENSG00000137817	ENST00000567440	nonsense_mediated_decay	KNOWN	None	26921	756	251	72533564	72563556	-1	None	pART17
15	PARP6	ENSG00000137817	ENST00000567263	nonsense_mediated_decay	KNOWN	None	26921	373	123	72533616	72549761	-1	None	pART17
15	PARP6	ENSG00000137817	ENST00000566831	retained_intron	KNOWN	None	26921	None	None	72533628	72543692	-1	None	pART17
15	PARP6	ENSG00000137817	ENST00000419739	protein_coding	NOVEL	None	26921	1659	552	72534547	72559877	-1	None	pART17
15	PARP6	ENSG00000137817	ENST00000567042	nonsense_mediated_decay	KNOWN	None	26921	54	17	72534961	72546822	-1	None	pART17
15	PARP6	ENSG00000137817	ENST00000569890	nonsense_mediated_decay	KNOWN	None	26921	220	72	72535015	72549776	-1	None	pART17
15	PARP6	ENSG00000137817	ENST00000568213	retained_intron	KNOWN	None	26921	None	None	72541469	72542789	-1	None	pART17
15	PARP6	ENSG00000137817	ENST00000565999	nonsense_mediated_decay	KNOWN	None	26921	230	75	72552935	72559123	-1	None	pART17
15	PARP6	ENSG00000137817	ENST00000568360	protein_coding	KNOWN	None	26921	221	72	72557770	72565340	-1	None	pART17
15	PARP6	ENSG00000137817	ENST00000566844	protein_coding	KNOWN	None	26921	79	25	72559088	72564912	-1	None	pART17
15	PARP6	ENSG00000137817	ENST00000567633	processed_transcript	KNOWN	None	26921	None	None	72559973	72564839	-1	None	pART17
15	PARP6	ENSG00000137817	ENST00000287196	protein_coding	KNOWN	CCDS10241	26921	1893	630	72533523	72563628	-1	None	pART17
15	PARP6	ENSG00000137817	ENST00000260376	protein_coding	KNOWN	None	26921	1557	518	72533523	72563628	-1	None	pART17
7	TMEM140	ENSG00000146859	ENST00000275767	protein_coding	KNOWN	CCDS5837	21870	558	185	134832824	134850650	1	None	FLJ11000
7	TMEM140	ENSG00000146859	ENST00000466307	processed_transcript	PUTATIVE	None	21870	None	None	134832947	134837885	1	None	FLJ11000
1	PSRC1	ENSG00000134222	ENST00000369904	protein_coding	KNOWN	CCDS30791	24472	933	310	109822178	109825737	-1	None	DDA3
1	PSRC1	ENSG00000134222	ENST00000409267	protein_coding	KNOWN	CCDS797	24472	1002	333	109822178	109825747	-1	None	DDA3
1	PSRC1	ENSG00000134222	ENST00000369907	protein_coding	KNOWN	CCDS797	24472	1002	333	109822178	109825769	-1	None	DDA3
1	PSRC1	ENSG00000134222	ENST00000409138	protein_coding	KNOWN	None	24472	1092	363	109822187	109825808	-1	None	DDA3
1	PSRC1	ENSG00000134222	ENST00000492431	retained_intron	KNOWN	None	24472	None	None	109822189	109825041	-1	None	DDA3
1	PSRC1	ENSG00000134222	ENST00000369903	protein_coding	KNOWN	CCDS797	24472	1002	333	109822207	109825744	-1	None	DDA3
1	PSRC1	ENSG00000134222	ENST00000474126	protein_coding	NOVEL	None	24472	366	121	109823431	109824301	-1	None	DDA3
1	PSRC1	ENSG00000134222	ENST00000429031	protein_coding	KNOWN	None	24472	695	230	109823608	109825744	-1	None	DDA3
1	PSRC1	ENSG00000134222	ENST00000418914	protein_coding	KNOWN	None	24472	616	204	109823777	109825744	-1	None	DDA3
1	PSRC1	ENSG00000134222	ENST00000459765	retained_intron	KNOWN	None	24472	None	None	109824026	109825767	-1	None	DDA3
1	PSRC1	ENSG00000134222	ENST00000471740	retained_intron	KNOWN	None	24472	None	None	109824241	109825766	-1	None	DDA3
1	PSRC1	ENSG00000134222	ENST00000438534	protein_coding	KNOWN	None	24472	1092	363	109822179	109825790	-1	None	DDA3
1	PSRC1	ENSG00000134222	ENST00000369909	protein_coding	KNOWN	CCDS797	24472	1002	333	109822179	109825790	-1	None	DDA3
8	KIAA1456	ENSG00000250305	ENST00000447063	protein_coding	PUTATIVE	None	26725	591	196	12803151	12889012	1	C8orf79	FLJ36980
8	KIAA1456	ENSG00000250305	ENST00000525249	processed_transcript	KNOWN	None	26725	None	None	12803183	12848448	1	C8orf79	FLJ36980
8	KIAA1456	ENSG00000250305	ENST00000524591	protein_coding	KNOWN	CCDS47808	26725	1365	454	12803186	12887286	1	C8orf79	FLJ36980
8	KIAA1456	ENSG00000250305	ENST00000528335	processed_transcript	KNOWN	None	26725	None	None	12808838	12863742	1	C8orf79	FLJ36980
8	KIAA1456	ENSG00000250305	ENST00000400069	protein_coding	PUTATIVE	None	26725	183	60	12808841	12865179	1	C8orf79	FLJ36980
8	KIAA1456	ENSG00000250305	ENST00000528753	protein_coding	PUTATIVE	None	26725	183	60	12809144	12865180	1	C8orf79	FLJ36980
8	KIAA1456	ENSG00000250305	ENST00000532376	protein_coding	KNOWN	None	26725	163	53	12809531	12870201	1	C8orf79	FLJ36980
8	KIAA1456	ENSG00000250305	ENST00000529706	retained_intron	KNOWN	None	26725	None	None	12867771	12878742	1	C8orf79	FLJ36980
8	KIAA1456	ENSG00000250305	ENST00000529978	retained_intron	KNOWN	None	26725	None	None	12869522	12883674	1	C8orf79	FLJ36980
5	None	ENSG00000251513	ENST00000504578	processed_transcript	PUTATIVE	None	None	None	None	96519303	96772921	1	None	None
17	RPAIN	ENSG00000129197	ENST00000536255	protein_coding	KNOWN	CCDS54079	28641	321	106	5322961	5336035	1	None	MGC4189, RIP, hRIP
17	RPAIN	ENSG00000129197	ENST00000573577	nonsense_mediated_decay	KNOWN	None	28641	324	107	5322961	5336196	1	None	MGC4189, RIP, hRIP
17	RPAIN	ENSG00000129197	ENST00000571558	nonsense_mediated_decay	KNOWN	None	28641	324	107	5322961	5336196	1	None	MGC4189, RIP, hRIP
17	RPAIN	ENSG00000129197	ENST00000575599	nonsense_mediated_decay	KNOWN	None	28641	321	106	5322961	5336196	1	None	MGC4189, RIP, hRIP
17	RPAIN	ENSG00000129197	ENST00000381209	protein_coding	KNOWN	CCDS32536	28641	660	219	5322961	5336196	1	None	MGC4189, RIP, hRIP
17	RPAIN	ENSG00000129197	ENST00000571043	retained_intron	KNOWN	None	28641	None	None	5322961	5336196	1	None	MGC4189, RIP, hRIP
17	RPAIN	ENSG00000129197	ENST00000571613	retained_intron	KNOWN	None	28641	None	None	5322961	5336196	1	None	MGC4189, RIP, hRIP
17	RPAIN	ENSG00000129197	ENST00000539417	nonsense_mediated_decay	KNOWN	None	28641	438	145	5322961	5336196	1	None	MGC4189, RIP, hRIP
17	RPAIN	ENSG00000129197	ENST00000381208	protein_coding	KNOWN	CCDS54076	28641	519	172	5322961	5336196	1	None	MGC4189, RIP, hRIP
17	RPAIN	ENSG00000129197	ENST00000327154	protein_coding	KNOWN	CCDS54077	28641	447	148	5323208	5335928	1	None	MGC4189, RIP, hRIP
17	RPAIN	ENSG00000129197	ENST00000572174	retained_intron	KNOWN	None	28641	None	None	5323487	5326389	1	None	MGC4189, RIP, hRIP
17	RPAIN	ENSG00000129197	ENST00000570883	retained_intron	KNOWN	None	28641	None	None	5323505	5331675	1	None	MGC4189, RIP, hRIP
17	RPAIN	ENSG00000129197	ENST00000575112	nonsense_mediated_decay	KNOWN	None	28641	324	107	5323505	5334804	1	None	MGC4189, RIP, hRIP
17	RPAIN	ENSG00000129197	ENST00000575711	retained_intron	KNOWN	None	28641	None	None	5323509	5325244	1	None	MGC4189, RIP, hRIP
17	RPAIN	ENSG00000129197	ENST00000405578	protein_coding	KNOWN	CCDS54075	28641	696	231	5323520	5331973	1	None	MGC4189, RIP, hRIP
17	RPAIN	ENSG00000129197	ENST00000573126	retained_intron	KNOWN	None	28641	None	None	5323520	5336024	1	None	MGC4189, RIP, hRIP
17	RPAIN	ENSG00000129197	ENST00000574003	protein_coding	PUTATIVE	None	28641	321	106	5323522	5331629	1	None	MGC4189, RIP, hRIP
1	DNAJC8	ENSG00000126698	ENST00000603289	protein_coding	PUTATIVE	None	15470	319	105	28525967	28531861	-1	None	SPF31
1	DNAJC8	ENSG00000126698	ENST00000263697	protein_coding	KNOWN	CCDS41292	15470	762	253	28527068	28559536	-1	None	SPF31
1	DNAJC8	ENSG00000126698	ENST00000489277	processed_transcript	KNOWN	None	15470	None	None	28527070	28559536	-1	None	SPF31
1	DNAJC8	ENSG00000126698	ENST00000470967	processed_transcript	KNOWN	None	15470	None	None	28531769	28535320	-1	None	SPF31
1	DNAJC8	ENSG00000126698	ENST00000482674	processed_transcript	KNOWN	None	15470	None	None	28536671	28559515	-1	None	SPF31
1	DNAJC8	ENSG00000126698	ENST00000488868	processed_transcript	KNOWN	None	15470	None	None	28536744	28559531	-1	None	SPF31
16	None	ENSG00000260182	ENST00000566997	sense_intronic	KNOWN	None	None	None	None	1307340	1308075	1	None	None
10	FAM188A	ENSG00000148481	ENST00000378036	protein_coding	PUTATIVE	None	23578	453	150	15820169	15860007	-1	C10orf97	FLJ13397, CARP, my042, DERP5
10	FAM188A	ENSG00000148481	ENST00000477891	processed_transcript	KNOWN	None	23578	None	None	15820169	15902497	-1	C10orf97	FLJ13397, CARP, my042, DERP5
10	FAM188A	ENSG00000148481	ENST00000277632	protein_coding	KNOWN	CCDS7110	23578	1338	445	15820169	15902519	-1	C10orf97	FLJ13397, CARP, my042, DERP5
10	FAM188A	ENSG00000148481	ENST00000476912	processed_transcript	KNOWN	None	23578	None	None	15820853	15824334	-1	C10orf97	FLJ13397, CARP, my042, DERP5
10	FAM188A	ENSG00000148481	ENST00000418767	protein_coding	PUTATIVE	None	23578	549	182	15830827	15879298	-1	C10orf97	FLJ13397, CARP, my042, DERP5
10	FAM188A	ENSG00000148481	ENST00000436829	protein_coding	KNOWN	None	23578	494	163	15838119	15880278	-1	C10orf97	FLJ13397, CARP, my042, DERP5
3	MUC4	ENSG00000145113	ENST00000308466	nonsense_mediated_decay	KNOWN	None	7514	524	173	195473636	195505681	-1	None	None
3	MUC4	ENSG00000145113	ENST00000448861	nonsense_mediated_decay	KNOWN	None	7514	494	163	195473636	195505681	-1	None	None
3	MUC4	ENSG00000145113	ENST00000339251	nonsense_mediated_decay	KNOWN	None	7514	434	143	195473636	195505681	-1	None	None
3	MUC4	ENSG00000145113	ENST00000415455	nonsense_mediated_decay	KNOWN	None	7514	434	143	195473636	195505681	-1	None	None
3	MUC4	ENSG00000145113	ENST00000392407	nonsense_mediated_decay	KNOWN	None	7514	434	143	195473636	195505681	-1	None	None
3	MUC4	ENSG00000145113	ENST00000349607	protein_coding	KNOWN	CCDS3311	7514	3378	1125	195473636	195538728	-1	None	None
3	MUC4	ENSG00000145113	ENST00000346145	protein_coding	KNOWN	CCDS3310	7514	3531	1176	195473636	195538728	-1	None	None
3	MUC4	ENSG00000145113	ENST00000478156	nonsense_mediated_decay	KNOWN	None	7514	15213	5070	195473636	195538760	-1	None	None
3	MUC4	ENSG00000145113	ENST00000463781	protein_coding	KNOWN	CCDS54700	7514	16239	5412	195473636	195539148	-1	None	None
3	MUC4	ENSG00000145113	ENST00000479406	nonsense_mediated_decay	KNOWN	None	7514	13293	4430	195473929	195538760	-1	None	None
3	MUC4	ENSG00000145113	ENST00000466475	nonsense_mediated_decay	KNOWN	None	7514	13293	4430	195473929	195538760	-1	None	None
3	MUC4	ENSG00000145113	ENST00000475231	protein_coding	KNOWN	None	7514	16083	5360	195473929	195538760	-1	None	None
3	MUC4	ENSG00000145113	ENST00000477086	nonsense_mediated_decay	KNOWN	None	7514	13203	4400	195473929	195538760	-1	None	None
3	MUC4	ENSG00000145113	ENST00000480843	nonsense_mediated_decay	KNOWN	None	7514	13377	4458	195473929	195538760	-1	None	None
3	MUC4	ENSG00000145113	ENST00000470451	nonsense_mediated_decay	KNOWN	None	7514	13335	4444	195473929	195538760	-1	None	None
3	MUC4	ENSG00000145113	ENST00000462323	nonsense_mediated_decay	KNOWN	None	7514	13329	4442	195473929	195538760	-1	None	None
3	MUC4	ENSG00000145113	ENST00000477756	nonsense_mediated_decay	KNOWN	None	7514	13533	4510	195473929	195538760	-1	None	None
3	MUC4	ENSG00000145113	ENST00000464234	retained_intron	KNOWN	None	7514	None	None	195474044	195480865	-1	None	None
3	MUC4	ENSG00000145113	ENST00000467235	retained_intron	KNOWN	None	7514	None	None	195476727	195479391	-1	None	None
3	MUC4	ENSG00000145113	ENST00000469992	retained_intron	KNOWN	None	7514	None	None	195477478	195479974	-1	None	None
3	MUC4	ENSG00000145113	ENST00000486425	processed_transcript	PUTATIVE	None	7514	None	None	195493533	195496559	-1	None	None
3	MUC4	ENSG00000145113	ENST00000478685	processed_transcript	PUTATIVE	None	7514	None	None	195536515	195538844	-1	None	None
6	EEF1A1	ENSG00000156508	ENST00000316292	protein_coding	KNOWN	CCDS4980	3189	1389	462	74225473	74230741	-1	EF1A, EEF1A, LENG7	EE1A1
6	EEF1A1	ENSG00000156508	ENST00000491404	processed_transcript	KNOWN	None	3189	None	None	74227238	74229140	-1	EF1A, EEF1A, LENG7	EE1A1
6	EEF1A1	ENSG00000156508	ENST00000309268	protein_coding	KNOWN	CCDS4980	3189	1389	462	74227238	74231311	-1	EF1A, EEF1A, LENG7	EE1A1
6	EEF1A1	ENSG00000156508	ENST00000490569	retained_intron	KNOWN	None	3189	None	None	74227242	74229782	-1	EF1A, EEF1A, LENG7	EE1A1
6	EEF1A1	ENSG00000156508	ENST00000331523	protein_coding	KNOWN	CCDS4980	3189	1389	462	74227244	74231444	-1	EF1A, EEF1A, LENG7	EE1A1
6	EEF1A1	ENSG00000156508	ENST00000495333	retained_intron	KNOWN	None	3189	None	None	74228289	74229782	-1	EF1A, EEF1A, LENG7	EE1A1
6	EEF1A1	ENSG00000156508	ENST00000488500	retained_intron	KNOWN	None	3189	None	None	74228517	74229782	-1	EF1A, EEF1A, LENG7	EE1A1
6	EEF1A1	ENSG00000156508	ENST00000356303	protein_coding	KNOWN	None	3189	436	144	74228840	74231623	-1	EF1A, EEF1A, LENG7	EE1A1
6	EEF1A1	ENSG00000156508	ENST00000455918	protein_coding	KNOWN	None	3189	320	105	74229064	74233520	-1	EF1A, EEF1A, LENG7	EE1A1
16	PRSS29P	ENSG00000196364	ENST00000568091	lincRNA	KNOWN	None	17542	None	None	1310953	1313846	-1	None	Isp2
16	PRSS29P	ENSG00000196364	ENST00000440800	lincRNA	KNOWN	None	17542	None	None	1310953	1312960	-1	None	Isp2
2	KLF11	ENSG00000172059	ENST00000401510	protein_coding	PUTATIVE	None	11811	382	126	10182976	10187897	1	TIEG2	Tieg3, MODY7
2	KLF11	ENSG00000172059	ENST00000305883	protein_coding	KNOWN	CCDS1668	11811	1539	512	10183682	10194963	1	TIEG2	Tieg3, MODY7
2	KLF11	ENSG00000172059	ENST00000448523	protein_coding	NOVEL	None	11811	491	162	10183956	10188006	1	TIEG2	Tieg3, MODY7
2	KLF11	ENSG00000172059	ENST00000440320	protein_coding	NOVEL	None	11811	367	121	10184302	10187882	1	TIEG2	Tieg3, MODY7
2	KLF11	ENSG00000172059	ENST00000540845	protein_coding	KNOWN	CCDS54333	11811	1488	495	10183956	10194963	1	TIEG2	Tieg3, MODY7
2	KLF11	ENSG00000172059	ENST00000535335	protein_coding	KNOWN	CCDS54333	11811	1488	495	10184372	10194963	1	TIEG2	Tieg3, MODY7
8	SLA	ENSG00000155926	ENST00000338087	protein_coding	KNOWN	CCDS6370	10902	831	276	134048973	134115298	-1	None	SLA1
8	SLA	ENSG00000155926	ENST00000427060	protein_coding	KNOWN	CCDS47923	10902	951	316	134049884	134072603	-1	None	SLA1
8	SLA	ENSG00000155926	ENST00000395352	protein_coding	KNOWN	CCDS47922	10902	882	293	134049898	134115156	-1	None	SLA1
8	SLA	ENSG00000155926	ENST00000517549	retained_intron	KNOWN	None	10902	None	None	134050505	134052586	-1	None	SLA1
8	SLA	ENSG00000155926	ENST00000524345	protein_coding	PUTATIVE	None	10902	507	168	134050612	134114872	-1	None	SLA1
8	SLA	ENSG00000155926	ENST00000517648	protein_coding	NOVEL	None	10902	750	249	134050672	134114856	-1	None	SLA1
8	SLA	ENSG00000155926	ENST00000522119	protein_coding	KNOWN	None	10902	476	157	134057237	134114721	-1	None	SLA1
8	SLA	ENSG00000155926	ENST00000523224	retained_intron	KNOWN	None	10902	None	None	134059350	134087204	-1	None	SLA1
8	SLA	ENSG00000155926	ENST00000521823	processed_transcript	KNOWN	None	10902	None	None	134060091	134114872	-1	None	SLA1
8	SLA	ENSG00000155926	ENST00000519341	protein_coding	KNOWN	None	10902	274	90	134060153	134114907	-1	None	SLA1
8	SLA	ENSG00000155926	ENST00000522002	processed_transcript	KNOWN	None	10902	None	None	134060824	134087198	-1	None	SLA1
8	SLA	ENSG00000155926	ENST00000518565	processed_transcript	KNOWN	None	10902	None	None	134060824	134115120	-1	None	SLA1
8	SLA	ENSG00000155926	ENST00000520106	retained_intron	KNOWN	None	10902	None	None	134061577	134087272	-1	None	SLA1
8	SLA	ENSG00000155926	ENST00000522432	nonsense_mediated_decay	KNOWN	None	10902	168	55	134062172	134087280	-1	None	SLA1
8	SLA	ENSG00000155926	ENST00000519504	retained_intron	KNOWN	None	10902	None	None	134062455	134072533	-1	None	SLA1
8	SLA	ENSG00000155926	ENST00000518594	retained_intron	KNOWN	None	10902	None	None	134062455	134087267	-1	None	SLA1
8	SLA	ENSG00000155926	ENST00000521302	protein_coding	KNOWN	None	10902	146	47	134063076	134114849	-1	None	SLA1
8	SLA	ENSG00000155926	ENST00000523610	protein_coding	KNOWN	None	10902	121	39	134063101	134114786	-1	None	SLA1
8	SLA	ENSG00000155926	ENST00000519747	protein_coding	NOVEL	None	10902	85	27	134063137	134114854	-1	None	SLA1
8	SLA	ENSG00000155926	ENST00000519558	protein_coding	KNOWN	None	10902	43	13	134072363	134114849	-1	None	SLA1
8	SLA	ENSG00000155926	ENST00000522946	processed_transcript	KNOWN	None	10902	None	None	134075919	134114786	-1	None	SLA1
8	SLA	ENSG00000155926	ENST00000517615	processed_transcript	KNOWN	None	10902	None	None	134085153	134088372	-1	None	SLA1
8	SLA	ENSG00000155926	ENST00000517932	processed_transcript	KNOWN	None	10902	None	None	134087120	134114856	-1	None	SLA1
6	SF3B5	ENSG00000169976	ENST00000367569	protein_coding	KNOWN	CCDS5204	21083	261	86	144416018	144416754	-1	None	SF3b10, MGC3133, Ysf3
1	DDI2	ENSG00000197312	ENST00000480945	protein_coding	KNOWN	CCDS30607	24578	1200	399	15943995	15995539	1	None	MGC14844
1	DDI2	ENSG00000197312	ENST00000486680	retained_intron	KNOWN	None	24578	None	None	15944038	15960801	1	None	MGC14844
1	DDI2	ENSG00000197312	ENST00000546927	retained_intron	KNOWN	None	24578	None	None	15944110	15953561	1	None	MGC14844
1	DDI2	ENSG00000197312	ENST00000320153	nonsense_mediated_decay	KNOWN	None	24578	300	99	15956897	15987552	1	None	MGC14844
1	DDI2	ENSG00000197312	ENST00000483899	nonsense_mediated_decay	KNOWN	None	24578	310	102	15956920	15976318	1	None	MGC14844
1	DDI2	ENSG00000197312	ENST00000548451	retained_intron	KNOWN	None	24578	None	None	15978331	15983480	1	None	MGC14844
13	C13orf45	ENSG00000178734	ENST00000318245	protein_coding	KNOWN	CCDS58298	44370	369	122	76445187	76457947	1	None	None
9	None	ENSG00000234819	ENST00000449661	processed_pseudogene	KNOWN	None	None	None	None	80834036	80834273	1	None	None
5	None	ENSG00000248758	ENST00000506562	antisense	KNOWN	None	None	None	None	96523794	96537584	-1	None	None
14	IGHD5-24	ENSG00000211909	ENST00000390569	IG_D_gene	KNOWN	None	5510	20	5	106349761	106349780	-1	None	IGHD524
6	STX11	ENSG00000135604	ENST00000367568	protein_coding	KNOWN	CCDS5205	11429	864	287	144471663	144509507	1	None	None
5	None	ENSG00000251054	ENST00000505796	lincRNA	KNOWN	None	None	None	None	96559075	96563661	-1	None	None
9	None	ENSG00000270627	ENST00000605266	processed_pseudogene	KNOWN	None	None	None	None	81204074	81204455	1	None	None
14	IGHD4-23	ENSG00000227196	ENST00000437320	IG_D_gene	KNOWN	None	5504	19	5	106350728	106350746	-1	None	IGHD423
X	RNU6-974P	ENSG00000206826	ENST00000384099	snRNA	KNOWN	None	47937	None	None	81256669	81256776	-1	None	None
3	EBLN2	ENSG00000255423	ENST00000533473	protein_coding	KNOWN	CCDS54608	25493	819	272	73110810	73112488	1	None	None
9	MTND2P8	ENSG00000237257	ENST00000450555	unprocessed_pseudogene	KNOWN	None	42109	None	None	81356636	81357660	-1	None	None
X	None	ENSG00000228041	ENST00000448435	processed_pseudogene	KNOWN	None	None	None	None	81753118	81753373	-1	None	None
5	None	ENSG00000249761	ENST00000515696	processed_pseudogene	KNOWN	None	None	None	None	96672562	96672744	-1	None	None
6	SMARCE1P2	ENSG00000226309	ENST00000442896	processed_pseudogene	KNOWN	None	39732	None	None	85139302	85140520	-1	None	None
17	CD300LG	ENSG00000161649	ENST00000377203	protein_coding	KNOWN	CCDS54132	30455	822	273	41924516	41935365	1	None	Trem4, CLM9
17	CD300LG	ENSG00000161649	ENST00000539718	protein_coding	KNOWN	CCDS54131	30455	924	307	41924516	41935602	1	None	Trem4, CLM9
17	CD300LG	ENSG00000161649	ENST00000588884	protein_coding	PUTATIVE	None	30455	453	150	41924521	41927277	1	None	Trem4, CLM9
17	CD300LG	ENSG00000161649	ENST00000293396	protein_coding	KNOWN	CCDS54133	30455	702	233	41924524	41935128	1	None	Trem4, CLM9
17	CD300LG	ENSG00000161649	ENST00000586233	protein_coding	NOVEL	None	30455	669	222	41924524	41935408	1	None	Trem4, CLM9
17	CD300LG	ENSG00000161649	ENST00000317310	protein_coding	KNOWN	CCDS11470	30455	999	332	41924544	41940997	1	None	Trem4, CLM9
17	CD300LG	ENSG00000161649	ENST00000589212	processed_transcript	PUTATIVE	None	30455	None	None	41932644	41933164	1	None	Trem4, CLM9
14	IGHD3-22	ENSG00000211911	ENST00000390571	IG_D_gene	KNOWN	None	5497	31	9	106351889	106351919	-1	None	IGHD322
6	None	ENSG00000219604	ENST00000405071	processed_pseudogene	KNOWN	None	None	None	None	85399010	85399147	-1	None	None
9	KRT18P24	ENSG00000226234	ENST00000344739	processed_pseudogene	KNOWN	None	33393	None	None	81651329	81652484	-1	None	None
X	RPL22P22	ENSG00000213653	ENST00000395439	processed_pseudogene	KNOWN	None	36109	None	None	81761883	81762261	-1	None	None
2	GTDC1	ENSG00000121964	ENST00000392869	protein_coding	KNOWN	CCDS33300	20887	1377	458	144703321	144993307	-1	None	FLJ11753, Hmat-Xa
2	GTDC1	ENSG00000121964	ENST00000409214	protein_coding	KNOWN	CCDS33300	20887	1377	458	144703321	145052060	-1	None	FLJ11753, Hmat-Xa
2	GTDC1	ENSG00000121964	ENST00000392867	protein_coding	KNOWN	CCDS2185	20887	1122	373	144703581	144994908	-1	None	FLJ11753, Hmat-Xa
2	GTDC1	ENSG00000121964	ENST00000409298	protein_coding	NOVEL	None	20887	1023	340	144703583	144993304	-1	None	FLJ11753, Hmat-Xa
2	GTDC1	ENSG00000121964	ENST00000392871	nonsense_mediated_decay	KNOWN	None	20887	1131	376	144703590	144969149	-1	None	FLJ11753, Hmat-Xa
2	GTDC1	ENSG00000121964	ENST00000415569	nonsense_mediated_decay	KNOWN	None	20887	201	66	144703600	144993306	-1	None	FLJ11753, Hmat-Xa
2	GTDC1	ENSG00000121964	ENST00000463875	protein_coding	PUTATIVE	None	20887	990	329	144704394	145090083	-1	None	FLJ11753, Hmat-Xa
2	GTDC1	ENSG00000121964	ENST00000482961	processed_transcript	KNOWN	None	20887	None	None	144708512	144709620	-1	None	FLJ11753, Hmat-Xa
2	GTDC1	ENSG00000121964	ENST00000491448	retained_intron	KNOWN	None	20887	None	None	144763318	144993304	-1	None	FLJ11753, Hmat-Xa
2	GTDC1	ENSG00000121964	ENST00000476958	processed_transcript	KNOWN	None	20887	None	None	144764901	144903472	-1	None	FLJ11753, Hmat-Xa
2	GTDC1	ENSG00000121964	ENST00000482601	processed_transcript	KNOWN	None	20887	None	None	144885491	144936503	-1	None	FLJ11753, Hmat-Xa
2	GTDC1	ENSG00000121964	ENST00000437114	protein_coding	KNOWN	None	20887	521	172	144899449	144993304	-1	None	FLJ11753, Hmat-Xa
2	GTDC1	ENSG00000121964	ENST00000417450	protein_coding	KNOWN	None	20887	299	98	144903187	145077437	-1	None	FLJ11753, Hmat-Xa
2	GTDC1	ENSG00000121964	ENST00000484303	retained_intron	KNOWN	None	20887	None	None	144935875	144993306	-1	None	FLJ11753, Hmat-Xa
2	GTDC1	ENSG00000121964	ENST00000429978	nonsense_mediated_decay	KNOWN	None	20887	201	66	144936401	145090135	-1	None	FLJ11753, Hmat-Xa
2	GTDC1	ENSG00000121964	ENST00000467352	processed_transcript	KNOWN	None	20887	None	None	144968402	145077437	-1	None	FLJ11753, Hmat-Xa
2	GTDC1	ENSG00000121964	ENST00000542155	protein_coding	KNOWN	CCDS33300	20887	1377	458	144703583	145090083	-1	None	FLJ11753, Hmat-Xa
2	GTDC1	ENSG00000121964	ENST00000241391	protein_coding	KNOWN	CCDS2185	20887	1122	373	144703583	145090083	-1	None	FLJ11753, Hmat-Xa
2	GTDC1	ENSG00000121964	ENST00000344850	protein_coding	KNOWN	CCDS33300	20887	1377	458	144703583	145052885	-1	None	FLJ11753, Hmat-Xa
5	MOCS2	ENSG00000164172	ENST00000361377	protein_coding	KNOWN	CCDS47205	7193	267	88	52391509	52405601	-1	None	MOCO1
5	MOCS2	ENSG00000164172	ENST00000396954	protein_coding	KNOWN	CCDS3958	7193	567	188	52393892	52405589	-1	None	MOCO1
5	MOCS2	ENSG00000164172	ENST00000502402	retained_intron	KNOWN	None	7193	None	None	52393897	52403927	-1	None	MOCO1
5	MOCS2	ENSG00000164172	ENST00000450852	protein_coding	KNOWN	CCDS47205	7193	267	88	52393898	52405608	-1	None	MOCO1
5	MOCS2	ENSG00000164172	ENST00000510818	protein_coding	KNOWN	CCDS47205	7193	267	88	52393901	52405572	-1	None	MOCO1
5	MOCS2	ENSG00000164172	ENST00000508922	protein_coding	KNOWN	CCDS47205	7193	267	88	52393929	52405592	-1	None	MOCO1
5	MOCS2	ENSG00000164172	ENST00000582677	protein_coding	KNOWN	CCDS47205	7193	267	88	52394214	52405607	-1	None	MOCO1
5	MOCS2	ENSG00000164172	ENST00000584946	protein_coding	KNOWN	CCDS47205	7193	267	88	52394370	52405607	-1	None	MOCO1
5	MOCS2	ENSG00000164172	ENST00000527216	nonsense_mediated_decay	KNOWN	None	7193	252	83	52396283	52405893	-1	None	MOCO1
5	MOCS2	ENSG00000164172	ENST00000514553	retained_intron	KNOWN	None	7193	None	None	52396956	52405557	-1	None	MOCO1
14	IGHD2-21	ENSG00000211912	ENST00000390572	IG_D_gene	KNOWN	None	5491	28	8	106354409	106354436	-1	None	IGHD221
4	PDE6B	ENSG00000133256	ENST00000255622	protein_coding	KNOWN	CCDS54703	8786	2562	853	619373	664571	1	PDEB	CSNB3, rd1, RP40
4	PDE6B	ENSG00000133256	ENST00000496514	protein_coding	KNOWN	CCDS33932	8786	2565	854	619395	664542	1	PDEB	CSNB3, rd1, RP40
4	PDE6B	ENSG00000133256	ENST00000465426	protein_coding	PUTATIVE	None	8786	125	40	645348	648647	1	PDEB	CSNB3, rd1, RP40
4	PDE6B	ENSG00000133256	ENST00000474251	retained_intron	KNOWN	None	8786	None	None	645774	648077	1	PDEB	CSNB3, rd1, RP40
4	PDE6B	ENSG00000133256	ENST00000487902	protein_coding	PUTATIVE	None	8786	292	96	645774	650732	1	PDEB	CSNB3, rd1, RP40
4	PDE6B	ENSG00000133256	ENST00000476034	retained_intron	KNOWN	None	8786	None	None	646062	648458	1	PDEB	CSNB3, rd1, RP40
4	PDE6B	ENSG00000133256	ENST00000488061	protein_coding	PUTATIVE	None	8786	20	5	646966	647873	1	PDEB	CSNB3, rd1, RP40
4	PDE6B	ENSG00000133256	ENST00000429163	protein_coding	PUTATIVE	CCDS46993	8786	1728	575	646969	664022	1	PDEB	CSNB3, rd1, RP40
4	PDE6B	ENSG00000133256	ENST00000467152	retained_intron	KNOWN	None	8786	None	None	647000	648163	1	PDEB	CSNB3, rd1, RP40
4	PDE6B	ENSG00000133256	ENST00000460119	retained_intron	KNOWN	None	8786	None	None	657512	658711	1	PDEB	CSNB3, rd1, RP40
4	PDE6B	ENSG00000133256	ENST00000471824	protein_coding	PUTATIVE	None	8786	435	144	657559	663982	1	PDEB	CSNB3, rd1, RP40
4	PDE6B	ENSG00000133256	ENST00000461490	protein_coding	PUTATIVE	None	8786	449	148	658699	664103	1	PDEB	CSNB3, rd1, RP40
6	None	ENSG00000228290	ENST00000589304	antisense	KNOWN	None	None	None	None	85399143	85419222	1	None	None
6	None	ENSG00000228290	ENST00000592681	antisense	KNOWN	None	None	None	None	85399167	85419211	1	None	None
6	None	ENSG00000228290	ENST00000586398	antisense	KNOWN	None	None	None	None	85399178	85419164	1	None	None
6	None	ENSG00000228290	ENST00000587281	antisense	KNOWN	None	None	None	None	85399178	85419214	1	None	None
6	None	ENSG00000228290	ENST00000591225	antisense	KNOWN	None	None	None	None	85399179	85417332	1	None	None
6	None	ENSG00000228290	ENST00000590270	antisense	KNOWN	None	None	None	None	85399179	85419211	1	None	None
6	None	ENSG00000228290	ENST00000423086	antisense	KNOWN	None	None	None	None	85399223	85419252	1	None	None
6	None	ENSG00000228290	ENST00000441863	antisense	KNOWN	None	None	None	None	85404705	85419245	1	None	None
6	None	ENSG00000228290	ENST00000586938	antisense	KNOWN	None	None	None	None	85407230	85419222	1	None	None
14	IGHD1-20	ENSG00000237020	ENST00000450276	IG_D_gene	KNOWN	None	5484	17	4	106357049	106357065	-1	None	IGHD120
14	IGHD6-19	ENSG00000211914	ENST00000390574	IG_D_gene	KNOWN	None	5515	21	6	106357557	106357577	-1	None	IGHD619
10	FAM45A	ENSG00000119979	ENST00000472379	retained_intron	KNOWN	None	31793	None	None	120863598	120865147	1	None	None
10	FAM45A	ENSG00000119979	ENST00000497903	processed_transcript	KNOWN	None	31793	None	None	120863604	120867608	1	None	None
10	FAM45A	ENSG00000119979	ENST00000493766	processed_transcript	KNOWN	None	31793	None	None	120863607	120871440	1	None	None
10	FAM45A	ENSG00000119979	ENST00000487888	processed_transcript	KNOWN	None	31793	None	None	120863616	120889124	1	None	None
10	FAM45A	ENSG00000119979	ENST00000448258	processed_transcript	KNOWN	None	31793	None	None	120863629	120889058	1	None	None
10	FAM45A	ENSG00000119979	ENST00000361432	protein_coding	KNOWN	CCDS7609	31793	1074	357	120863629	120896707	1	None	None
10	FAM45A	ENSG00000119979	ENST00000489988	processed_transcript	KNOWN	None	31793	None	None	120873617	120897496	1	None	None
10	FAM45A	ENSG00000119979	ENST00000498549	processed_transcript	KNOWN	None	31793	None	None	120879894	120896692	1	None	None
10	FAM45A	ENSG00000119979	ENST00000462327	processed_transcript	KNOWN	None	31793	None	None	120888987	120894692	1	None	None
10	FAM45A	ENSG00000119979	ENST00000489936	processed_transcript	KNOWN	None	31793	None	None	120896029	120896686	1	None	None
10	FAM45A	ENSG00000119979	ENST00000535029	protein_coding	KNOWN	None	31793	603	200	120863600	120896139	1	None	None
10	FAM45A	ENSG00000119979	ENST00000544016	protein_coding	KNOWN	None	31793	621	206	120863629	120896303	1	None	None
X	None	ENSG00000202183	ENST00000365313	snoRNA	NOVEL	None	None	None	None	81816650	81816796	1	None	None
22	None	ENSG00000265978	ENST00000581611	miRNA	NOVEL	None	None	None	None	25928687	25928776	-1	None	None
X	None	ENSG00000236365	ENST00000415528	processed_pseudogene	KNOWN	None	None	None	None	82130657	82130893	1	None	None
22	None	ENSG00000234884	ENST00000412773	antisense	KNOWN	None	None	None	None	25957084	25960429	-1	None	None
22	None	ENSG00000234884	ENST00000422876	antisense	KNOWN	None	None	None	None	25957091	25960117	-1	None	None
22	None	ENSG00000234884	ENST00000453811	antisense	KNOWN	None	None	None	None	25959068	25960226	-1	None	None
14	IGHD5-18	ENSG00000211915	ENST00000390575	IG_D_gene	KNOWN	None	5509	20	5	106359400	106359419	-1	None	IGHD518
18	THOC1	ENSG00000079134	ENST00000579232	retained_intron	KNOWN	None	19070	None	None	214520	268019	-1	None	P84, HPR1
18	THOC1	ENSG00000079134	ENST00000577429	retained_intron	KNOWN	None	19070	None	None	214521	215778	-1	None	P84, HPR1
18	THOC1	ENSG00000079134	ENST00000583228	retained_intron	KNOWN	None	19070	None	None	214521	245734	-1	None	P84, HPR1
18	THOC1	ENSG00000079134	ENST00000578529	retained_intron	KNOWN	None	19070	None	None	214521	261162	-1	None	P84, HPR1
18	THOC1	ENSG00000079134	ENST00000580038	nonsense_mediated_decay	KNOWN	None	19070	756	251	214521	268022	-1	None	P84, HPR1
18	THOC1	ENSG00000079134	ENST00000261600	protein_coding	KNOWN	CCDS45820	19070	1974	657	214521	268027	-1	None	P84, HPR1
18	THOC1	ENSG00000079134	ENST00000584470	retained_intron	KNOWN	None	19070	None	None	214522	226402	-1	None	P84, HPR1
18	THOC1	ENSG00000079134	ENST00000585307	retained_intron	KNOWN	None	19070	None	None	216209	219006	-1	None	P84, HPR1
18	THOC1	ENSG00000079134	ENST00000579891	protein_coding	NOVEL	None	19070	815	270	216486	246433	-1	None	P84, HPR1
18	THOC1	ENSG00000079134	ENST00000577552	retained_intron	KNOWN	None	19070	None	None	224084	247951	-1	None	P84, HPR1
18	THOC1	ENSG00000079134	ENST00000582313	processed_transcript	KNOWN	None	19070	None	None	244948	268027	-1	None	P84, HPR1
18	THOC1	ENSG00000079134	ENST00000584642	protein_coding	PUTATIVE	None	19070	286	94	246068	252577	-1	None	P84, HPR1
18	THOC1	ENSG00000079134	ENST00000581269	nonsense_mediated_decay	KNOWN	None	19070	366	121	254281	268050	-1	None	P84, HPR1
18	THOC1	ENSG00000079134	ENST00000581116	nonsense_mediated_decay	KNOWN	None	19070	261	86	259180	268045	-1	None	P84, HPR1
18	THOC1	ENSG00000079134	ENST00000581576	retained_intron	KNOWN	None	19070	None	None	259236	260218	-1	None	P84, HPR1
18	THOC1	ENSG00000079134	ENST00000578224	retained_intron	KNOWN	None	19070	None	None	263493	268019	-1	None	P84, HPR1
18	THOC1	ENSG00000079134	ENST00000580870	retained_intron	KNOWN	None	19070	None	None	264940	268019	-1	None	P84, HPR1
18	THOC1	ENSG00000079134	ENST00000580544	retained_intron	KNOWN	None	19070	None	None	265089	268019	-1	None	P84, HPR1
X	ATG4AP1	ENSG00000232735	ENST00000416893	processed_pseudogene	KNOWN	None	44081	None	None	82253707	82254244	1	None	None
14	IGHD4-17	ENSG00000227800	ENST00000431870	IG_D_gene	KNOWN	None	5503	16	4	106360366	106360381	-1	None	IGHD417
22	None	ENSG00000237387	ENST00000413494	antisense	KNOWN	None	None	None	None	25976208	25977349	-1	None	None
14	IGHD3-16	ENSG00000211917	ENST00000390577	IG_D_gene	KNOWN	None	5496	37	11	106361492	106361528	-1	None	IGHD316
8	NPM2	ENSG00000158806	ENST00000520125	protein_coding	PUTATIVE	None	7930	297	98	21881636	21890667	1	None	None
8	NPM2	ENSG00000158806	ENST00000521157	protein_coding	PUTATIVE	CCDS6018	7930	645	214	21881636	21894374	1	None	None
8	NPM2	ENSG00000158806	ENST00000397940	protein_coding	KNOWN	CCDS6018	7930	645	214	21881645	21894407	1	None	None
8	NPM2	ENSG00000158806	ENST00000522813	protein_coding	PUTATIVE	None	7930	411	136	21881648	21891666	1	None	None
8	NPM2	ENSG00000158806	ENST00000518119	protein_coding	PUTATIVE	CCDS6018	7930	645	214	21881945	21894408	1	None	None
8	NPM2	ENSG00000158806	ENST00000520180	processed_transcript	KNOWN	None	7930	None	None	21882271	21891659	1	None	None
8	NPM2	ENSG00000158806	ENST00000289820	protein_coding	PUTATIVE	CCDS6018	7930	645	214	21882354	21894408	1	None	None
8	NPM2	ENSG00000158806	ENST00000381530	protein_coding	PUTATIVE	None	7930	411	136	21882362	21894408	1	None	None
8	NPM2	ENSG00000158806	ENST00000522953	retained_intron	KNOWN	None	7930	None	None	21890612	21894051	1	None	None
8	NPM2	ENSG00000158806	ENST00000520456	retained_intron	KNOWN	None	7930	None	None	21891619	21894408	1	None	None
8	NPM2	ENSG00000158806	ENST00000519373	retained_intron	KNOWN	None	7930	None	None	21891730	21894407	1	None	None
8	NPM2	ENSG00000158806	ENST00000524322	retained_intron	KNOWN	None	7930	None	None	21894002	21894290	1	None	None
16	EMC8	ENSG00000131148	ENST00000595980	nonsense_mediated_decay	KNOWN	None	7864	303	100	85805364	85814864	-1	C16orf4, NOC4, C16orf2, COX4NB	FAM158B
16	EMC8	ENSG00000131148	ENST00000253457	protein_coding	KNOWN	CCDS10954	7864	633	210	85812230	85833146	-1	C16orf4, NOC4, C16orf2, COX4NB	FAM158B
16	EMC8	ENSG00000131148	ENST00000435200	protein_coding	NOVEL	CCDS45541	7864	381	126	85812230	85833214	-1	C16orf4, NOC4, C16orf2, COX4NB	FAM158B
16	EMC8	ENSG00000131148	ENST00000597291	retained_intron	KNOWN	None	7864	None	None	85813004	85814829	-1	C16orf4, NOC4, C16orf2, COX4NB	FAM158B
16	EMC8	ENSG00000131148	ENST00000600807	retained_intron	KNOWN	None	7864	None	None	85813268	85815366	-1	C16orf4, NOC4, C16orf2, COX4NB	FAM158B
16	EMC8	ENSG00000131148	ENST00000596852	retained_intron	KNOWN	None	7864	None	None	85822503	85833002	-1	C16orf4, NOC4, C16orf2, COX4NB	FAM158B
6	PACSIN1	ENSG00000124507	ENST00000244458	protein_coding	KNOWN	CCDS4793	8570	1335	444	34433916	34503006	1	None	SDPI
6	PACSIN1	ENSG00000124507	ENST00000374043	protein_coding	NOVEL	None	8570	1209	402	34433916	34503006	1	None	SDPI
6	PACSIN1	ENSG00000124507	ENST00000493633	processed_transcript	KNOWN	None	8570	None	None	34452847	34495491	1	None	SDPI
6	PACSIN1	ENSG00000124507	ENST00000486120	processed_transcript	KNOWN	None	8570	None	None	34482666	34497329	1	None	SDPI
6	PACSIN1	ENSG00000124507	ENST00000487760	processed_transcript	KNOWN	None	8570	None	None	34482667	34495471	1	None	SDPI
6	PACSIN1	ENSG00000124507	ENST00000538621	protein_coding	KNOWN	CCDS4793	8570	1335	444	34482664	34502998	1	None	SDPI
6	None	ENSG00000217004	ENST00000402490	unprocessed_pseudogene	KNOWN	None	None	None	None	35246954	35247596	-1	None	None
5	CDC23	ENSG00000094880	ENST00000394886	protein_coding	KNOWN	CCDS4200	1724	1794	597	137523339	137549032	-1	None	APC8, ANAPC8, CUT23
5	CDC23	ENSG00000094880	ENST00000464806	retained_intron	KNOWN	None	1724	None	None	137524676	137525796	-1	None	APC8, ANAPC8, CUT23
5	CDC23	ENSG00000094880	ENST00000475021	retained_intron	KNOWN	None	1724	None	None	137524803	137525759	-1	None	APC8, ANAPC8, CUT23
5	CDC23	ENSG00000094880	ENST00000471692	retained_intron	KNOWN	None	1724	None	None	137525359	137534312	-1	None	APC8, ANAPC8, CUT23
5	CDC23	ENSG00000094880	ENST00000482948	retained_intron	KNOWN	None	1724	None	None	137536616	137548904	-1	None	APC8, ANAPC8, CUT23
5	CDC23	ENSG00000094880	ENST00000483961	nonsense_mediated_decay	KNOWN	None	1724	330	109	137536796	137549012	-1	None	APC8, ANAPC8, CUT23
5	CDC23	ENSG00000094880	ENST00000511383	nonsense_mediated_decay	KNOWN	None	1724	403	133	137536854	137548993	-1	None	APC8, ANAPC8, CUT23
5	CDC23	ENSG00000094880	ENST00000394884	protein_coding	KNOWN	None	1724	456	151	137541560	137549032	-1	None	APC8, ANAPC8, CUT23
5	CDC23	ENSG00000094880	ENST00000505120	protein_coding	PUTATIVE	None	1724	372	123	137542160	137549012	-1	None	APC8, ANAPC8, CUT23
22	None	ENSG00000224003	ENST00000418510	processed_pseudogene	KNOWN	None	None	None	None	26043228	26045199	1	None	None
6	None	ENSG00000227154	ENST00000436521	unprocessed_pseudogene	KNOWN	None	None	None	None	35410821	35417643	1	None	None
6	None	ENSG00000227154	ENST00000421883	unprocessed_pseudogene	KNOWN	None	None	None	None	35410843	35417630	1	None	None
6	AKAP12	ENSG00000131016	ENST00000253332	protein_coding	KNOWN	CCDS5229	370	5349	1782	151561509	151677908	1	None	AKAP250, SSeCKS
6	AKAP12	ENSG00000131016	ENST00000354675	protein_coding	KNOWN	CCDS5230	370	5055	1684	151646823	151677908	1	None	AKAP250, SSeCKS
6	AKAP12	ENSG00000131016	ENST00000490177	processed_transcript	KNOWN	None	370	None	None	151662837	151670321	1	None	AKAP250, SSeCKS
6	AKAP12	ENSG00000131016	ENST00000402676	protein_coding	KNOWN	CCDS5229	370	5349	1782	151561134	151679692	1	None	AKAP250, SSeCKS
6	AKAP12	ENSG00000131016	ENST00000359755	protein_coding	KNOWN	None	370	5034	1677	151662821	151677908	1	None	AKAP250, SSeCKS
Y	DAZ1	ENSG00000188120	ENST00000405239	protein_coding	KNOWN	CCDS48209	2682	2235	744	25275502	25345241	-1	DAZ	SPGY
Y	DAZ1	ENSG00000188120	ENST00000466332	processed_transcript	KNOWN	None	2682	None	None	25275510	25286959	-1	DAZ	SPGY
Y	DAZ1	ENSG00000188120	ENST00000382510	protein_coding	KNOWN	None	2682	1842	613	25276010	25345070	-1	DAZ	SPGY
Y	DAZ1	ENSG00000188120	ENST00000426000	protein_coding	KNOWN	None	2682	1740	579	25275506	25345140	-1	DAZ	SPGY
Y	DAZ1	ENSG00000188120	ENST00000540248	protein_coding	KNOWN	None	2682	1173	390	25275509	25345157	-1	DAZ	SPGY
11	TH	ENSG00000180176	ENST00000381178	protein_coding	KNOWN	CCDS7731	11782	1587	528	2185159	2193035	-1	None	DYT5b
11	TH	ENSG00000180176	ENST00000381175	protein_coding	KNOWN	CCDS31338	11782	1575	524	2185159	2193035	-1	None	DYT5b
11	TH	ENSG00000180176	ENST00000352909	protein_coding	KNOWN	CCDS7730	11782	1494	497	2185159	2193107	-1	None	DYT5b
11	TH	ENSG00000180176	ENST00000324155	nonsense_mediated_decay	KNOWN	None	11782	135	44	2186524	2193035	-1	None	DYT5b
11	TH	ENSG00000180176	ENST00000479437	retained_intron	KNOWN	None	11782	None	None	2186902	2188506	-1	None	DYT5b
11	TH	ENSG00000180176	ENST00000416223	nonsense_mediated_decay	KNOWN	None	11782	136	44	2186909	2189336	-1	None	DYT5b
11	TH	ENSG00000180176	ENST00000412076	protein_coding	NOVEL	None	11782	347	114	2186909	2189336	-1	None	DYT5b
11	TH	ENSG00000180176	ENST00000461172	retained_intron	KNOWN	None	11782	None	None	2187083	2188004	-1	None	DYT5b
11	TH	ENSG00000180176	ENST00000381168	nonsense_mediated_decay	KNOWN	None	11782	147	48	2187237	2193035	-1	None	DYT5b
11	TH	ENSG00000180176	ENST00000469226	retained_intron	KNOWN	None	11782	None	None	2188124	2189956	-1	None	DYT5b
11	TH	ENSG00000180176	ENST00000333684	protein_coding	KNOWN	None	11782	1224	407	2185160	2193025	-1	None	DYT5b
19	SLC44A2	ENSG00000129353	ENST00000590382	protein_coding	NOVEL	None	17292	512	169	10713133	10742594	1	None	CTL2
19	SLC44A2	ENSG00000129353	ENST00000588465	retained_intron	KNOWN	None	17292	None	None	10713133	10747172	1	None	CTL2
19	SLC44A2	ENSG00000129353	ENST00000407327	protein_coding	KNOWN	CCDS54216	17292	2115	704	10713186	10755226	1	None	CTL2
19	SLC44A2	ENSG00000129353	ENST00000335757	protein_coding	KNOWN	CCDS12245	17292	2121	706	10735934	10755235	1	None	CTL2
19	SLC44A2	ENSG00000129353	ENST00000590857	protein_coding	PUTATIVE	None	17292	32	9	10736196	10742380	1	None	CTL2
19	SLC44A2	ENSG00000129353	ENST00000588688	protein_coding	NOVEL	None	17292	439	145	10736196	10742397	1	None	CTL2
19	SLC44A2	ENSG00000129353	ENST00000586078	protein_coding	NOVEL	None	17292	2136	711	10736201	10755233	1	None	CTL2
19	SLC44A2	ENSG00000129353	ENST00000592293	nonsense_mediated_decay	KNOWN	None	17292	129	42	10736270	10742832	1	None	CTL2
19	SLC44A2	ENSG00000129353	ENST00000588409	nonsense_mediated_decay	KNOWN	None	17292	288	95	10736270	10745910	1	None	CTL2
19	SLC44A2	ENSG00000129353	ENST00000588393	retained_intron	KNOWN	None	17292	None	None	10742382	10748378	1	None	CTL2
19	SLC44A2	ENSG00000129353	ENST00000589561	retained_intron	KNOWN	None	17292	None	None	10746480	10755231	1	None	CTL2
19	SLC44A2	ENSG00000129353	ENST00000588214	processed_transcript	KNOWN	None	17292	None	None	10747602	10753061	1	None	CTL2
19	SLC44A2	ENSG00000129353	ENST00000591194	protein_coding	PUTATIVE	None	17292	374	123	10748320	10754204	1	None	CTL2
19	SLC44A2	ENSG00000129353	ENST00000586549	protein_coding	NOVEL	None	17292	445	147	10748420	10754806	1	None	CTL2
19	SLC44A2	ENSG00000129353	ENST00000590475	retained_intron	KNOWN	None	17292	None	None	10753012	10754074	1	None	CTL2
1	RSC1A1	ENSG00000215695	ENST00000345034	protein_coding	KNOWN	CCDS161	10458	1854	617	15986364	15988217	1	None	RS1
1	None	ENSG00000215902	ENST00000321830	protein_coding	NOVEL	None	None	66	21	28527013	28527152	-1	None	None
1	None	ENSG00000269804	ENST00000596102	protein_coding	NOVEL	None	None	147	48	28527070	28527419	1	None	None
19	SNORD41	ENSG00000209702	ENST00000386967	snoRNA	KNOWN	None	10179	None	None	12817263	12817332	-1	RNU41	U41
19	None	ENSG00000267004	ENST00000591596	lincRNA	KNOWN	None	None	None	None	12836331	12836700	-1	None	None
19	None	ENSG00000267212	ENST00000590065	lincRNA	KNOWN	None	None	None	None	12895353	12895915	-1	None	None
8	PPP2R2A	ENSG00000221914	ENST00000380737	protein_coding	KNOWN	CCDS34867	9304	1344	447	26149007	26230196	1	None	PR52A, PR55A, B55A
8	PPP2R2A	ENSG00000221914	ENST00000518254	nonsense_mediated_decay	KNOWN	None	9304	156	51	26149044	26212146	1	None	PR52A, PR55A, B55A
8	PPP2R2A	ENSG00000221914	ENST00000520329	nonsense_mediated_decay	KNOWN	None	9304	102	33	26149044	26217797	1	None	PR52A, PR55A, B55A
8	PPP2R2A	ENSG00000221914	ENST00000524169	protein_coding	PUTATIVE	None	9304	592	196	26149055	26227840	1	None	PR52A, PR55A, B55A
8	PPP2R2A	ENSG00000221914	ENST00000518397	nonsense_mediated_decay	KNOWN	None	9304	399	132	26149130	26218528	1	None	PR52A, PR55A, B55A
8	PPP2R2A	ENSG00000221914	ENST00000522535	protein_coding	PUTATIVE	None	9304	10	2	26149351	26218517	1	None	PR52A, PR55A, B55A
8	PPP2R2A	ENSG00000221914	ENST00000522150	processed_transcript	KNOWN	None	9304	None	None	26149629	26197489	1	None	PR52A, PR55A, B55A
8	PPP2R2A	ENSG00000221914	ENST00000523473	processed_transcript	KNOWN	None	9304	None	None	26149633	26197489	1	None	PR52A, PR55A, B55A
8	PPP2R2A	ENSG00000221914	ENST00000521095	processed_transcript	KNOWN	None	9304	None	None	26149635	26212066	1	None	PR52A, PR55A, B55A
8	PPP2R2A	ENSG00000221914	ENST00000523925	protein_coding	PUTATIVE	None	9304	16	4	26150628	26218523	1	None	PR52A, PR55A, B55A
8	PPP2R2A	ENSG00000221914	ENST00000524099	processed_transcript	KNOWN	None	9304	None	None	26150722	26217753	1	None	PR52A, PR55A, B55A
8	PPP2R2A	ENSG00000221914	ENST00000519636	processed_transcript	KNOWN	None	9304	None	None	26150732	26217698	1	None	PR52A, PR55A, B55A
8	PPP2R2A	ENSG00000221914	ENST00000315985	protein_coding	PUTATIVE	CCDS55213	9304	1374	457	26150732	26228402	1	None	PR52A, PR55A, B55A
8	PPP2R2A	ENSG00000221914	ENST00000522482	processed_transcript	KNOWN	None	9304	None	None	26150733	26212153	1	None	PR52A, PR55A, B55A
8	PPP2R2A	ENSG00000221914	ENST00000521557	protein_coding	PUTATIVE	None	9304	42	13	26150999	26218549	1	None	PR52A, PR55A, B55A
8	PPP2R2A	ENSG00000221914	ENST00000519439	retained_intron	KNOWN	None	9304	None	None	26151088	26218601	1	None	PR52A, PR55A, B55A
8	PPP2R2A	ENSG00000221914	ENST00000521484	retained_intron	KNOWN	None	9304	None	None	26151106	26217754	1	None	PR52A, PR55A, B55A
8	PPP2R2A	ENSG00000221914	ENST00000523964	processed_transcript	KNOWN	None	9304	None	None	26156091	26218560	1	None	PR52A, PR55A, B55A
8	PPP2R2A	ENSG00000221914	ENST00000520438	processed_transcript	KNOWN	None	9304	None	None	26197435	26217751	1	None	PR52A, PR55A, B55A
8	PPP2R2A	ENSG00000221914	ENST00000518215	retained_intron	KNOWN	None	9304	None	None	26211935	26227879	1	None	PR52A, PR55A, B55A
8	PPP2R2A	ENSG00000221914	ENST00000518890	retained_intron	KNOWN	None	9304	None	None	26218116	26227907	1	None	PR52A, PR55A, B55A
8	PPP2R2A	ENSG00000221914	ENST00000517754	retained_intron	KNOWN	None	9304	None	None	26218606	26228645	1	None	PR52A, PR55A, B55A
8	PPP2R2A	ENSG00000221914	ENST00000518208	retained_intron	KNOWN	None	9304	None	None	26222614	26227830	1	None	PR52A, PR55A, B55A
19	MIR5684	ENSG00000263800	ENST00000585074	miRNA	KNOWN	None	43544	None	None	12897942	12898006	1	None	hsa-mir-5684
5	FAM134B	ENSG00000154153	ENST00000510362	nonsense_mediated_decay	KNOWN	None	25964	653	216	16473147	16478174	-1	None	FLJ20152
5	FAM134B	ENSG00000154153	ENST00000399793	protein_coding	KNOWN	CCDS43305	25964	1071	356	16473162	16509107	-1	None	FLJ20152
5	FAM134B	ENSG00000154153	ENST00000306320	protein_coding	KNOWN	CCDS43304	25964	1494	497	16473163	16617167	-1	None	FLJ20152
5	FAM134B	ENSG00000154153	ENST00000509977	processed_transcript	KNOWN	None	25964	None	None	16475340	16509545	-1	None	FLJ20152
5	FAM134B	ENSG00000154153	ENST00000506441	retained_intron	KNOWN	None	25964	None	None	16483106	16508795	-1	None	FLJ20152
5	FAM134B	ENSG00000154153	ENST00000509048	processed_transcript	KNOWN	None	25964	None	None	16616188	16617147	-1	None	FLJ20152
19	LENG9	ENSG00000182909	ENST00000333834	protein_coding	KNOWN	CCDS12895	16306	1506	501	54972981	54974894	-1	None	None
19	None	ENSG00000267062	ENST00000585496	antisense	KNOWN	None	None	None	None	12907637	12912663	1	None	None
10	XPNPEP1	ENSG00000108039	ENST00000488118	retained_intron	KNOWN	None	12822	None	None	111624524	111674833	-1	XPNPEP, XPNPEPL1, XPNPEPL	None
10	XPNPEP1	ENSG00000108039	ENST00000369683	protein_coding	NOVEL	None	12822	1659	552	111624524	111683269	-1	XPNPEP, XPNPEPL1, XPNPEPL	None
10	XPNPEP1	ENSG00000108039	ENST00000502935	protein_coding	KNOWN	CCDS7560	12822	2001	666	111624524	111683311	-1	XPNPEP, XPNPEPL1, XPNPEPL	None
10	XPNPEP1	ENSG00000108039	ENST00000369658	retained_intron	KNOWN	None	12822	None	None	111624812	111635426	-1	XPNPEP, XPNPEPL1, XPNPEPL	None
10	XPNPEP1	ENSG00000108039	ENST00000494499	processed_transcript	KNOWN	None	12822	None	None	111628394	111630790	-1	XPNPEP, XPNPEPL1, XPNPEPL	None
10	XPNPEP1	ENSG00000108039	ENST00000494564	processed_transcript	KNOWN	None	12822	None	None	111631547	111642367	-1	XPNPEP, XPNPEPL1, XPNPEPL	None
10	XPNPEP1	ENSG00000108039	ENST00000510988	processed_transcript	KNOWN	None	12822	None	None	111631554	111640651	-1	XPNPEP, XPNPEPL1, XPNPEPL	None
10	XPNPEP1	ENSG00000108039	ENST00000472336	retained_intron	KNOWN	None	12822	None	None	111635282	111644017	-1	XPNPEP, XPNPEPL1, XPNPEPL	None
10	XPNPEP1	ENSG00000108039	ENST00000513817	retained_intron	KNOWN	None	12822	None	None	111637312	111644030	-1	XPNPEP, XPNPEPL1, XPNPEPL	None
10	XPNPEP1	ENSG00000108039	ENST00000508525	retained_intron	KNOWN	None	12822	None	None	111637435	111638127	-1	XPNPEP, XPNPEPL1, XPNPEPL	None
10	XPNPEP1	ENSG00000108039	ENST00000460055	processed_transcript	KNOWN	None	12822	None	None	111637481	111642310	-1	XPNPEP, XPNPEPL1, XPNPEPL	None
10	XPNPEP1	ENSG00000108039	ENST00000507328	processed_transcript	KNOWN	None	12822	None	None	111640600	111643807	-1	XPNPEP, XPNPEPL1, XPNPEPL	None
10	XPNPEP1	ENSG00000108039	ENST00000512582	processed_transcript	KNOWN	None	12822	None	None	111640631	111644297	-1	XPNPEP, XPNPEPL1, XPNPEPL	None
10	XPNPEP1	ENSG00000108039	ENST00000509646	processed_transcript	KNOWN	None	12822	None	None	111640636	111674861	-1	XPNPEP, XPNPEPL1, XPNPEPL	None
10	XPNPEP1	ENSG00000108039	ENST00000460523	processed_transcript	KNOWN	None	12822	None	None	111642190	111683225	-1	XPNPEP, XPNPEPL1, XPNPEPL	None
10	XPNPEP1	ENSG00000108039	ENST00000403138	protein_coding	PUTATIVE	None	12822	909	302	111642193	111683248	-1	XPNPEP, XPNPEPL1, XPNPEPL	None
10	XPNPEP1	ENSG00000108039	ENST00000430337	processed_transcript	KNOWN	None	12822	None	None	111642282	111683228	-1	XPNPEP, XPNPEPL1, XPNPEPL	None
10	XPNPEP1	ENSG00000108039	ENST00000423625	protein_coding	PUTATIVE	None	12822	700	232	111642306	111667577	-1	XPNPEP, XPNPEPL1, XPNPEPL	None
10	XPNPEP1	ENSG00000108039	ENST00000443078	processed_transcript	KNOWN	None	12822	None	None	111642351	111683206	-1	XPNPEP, XPNPEPL1, XPNPEPL	None
10	XPNPEP1	ENSG00000108039	ENST00000508059	processed_transcript	KNOWN	None	12822	None	None	111642359	111651112	-1	XPNPEP, XPNPEPL1, XPNPEPL	None
10	XPNPEP1	ENSG00000108039	ENST00000506777	processed_transcript	KNOWN	None	12822	None	None	111643824	111683194	-1	XPNPEP, XPNPEPL1, XPNPEPL	None
10	XPNPEP1	ENSG00000108039	ENST00000505255	processed_transcript	KNOWN	None	12822	None	None	111643864	111652342	-1	XPNPEP, XPNPEPL1, XPNPEPL	None
10	XPNPEP1	ENSG00000108039	ENST00000490740	processed_transcript	KNOWN	None	12822	None	None	111646024	111683189	-1	XPNPEP, XPNPEPL1, XPNPEPL	None
10	XPNPEP1	ENSG00000108039	ENST00000451592	processed_transcript	KNOWN	None	12822	None	None	111646028	111683198	-1	XPNPEP, XPNPEPL1, XPNPEPL	None
10	XPNPEP1	ENSG00000108039	ENST00000502595	processed_transcript	KNOWN	None	12822	None	None	111647856	111653251	-1	XPNPEP, XPNPEPL1, XPNPEPL	None
10	XPNPEP1	ENSG00000108039	ENST00000508275	retained_intron	KNOWN	None	12822	None	None	111648254	111674937	-1	XPNPEP, XPNPEPL1, XPNPEPL	None
10	XPNPEP1	ENSG00000108039	ENST00000475123	processed_transcript	KNOWN	None	12822	None	None	111651337	111667576	-1	XPNPEP, XPNPEPL1, XPNPEPL	None
10	XPNPEP1	ENSG00000108039	ENST00000504664	retained_intron	KNOWN	None	12822	None	None	111651478	111653136	-1	XPNPEP, XPNPEPL1, XPNPEPL	None
10	XPNPEP1	ENSG00000108039	ENST00000322238	protein_coding	KNOWN	CCDS53576	12822	1929	642	111624524	111683311	-1	XPNPEP, XPNPEPL1, XPNPEPL	None
10	XPNPEP1	ENSG00000108039	ENST00000369680	protein_coding	KNOWN	None	12822	1872	623	111624524	111683311	-1	XPNPEP, XPNPEPL1, XPNPEPL	None
13	CARS2	ENSG00000134905	ENST00000541239	retained_intron	KNOWN	None	25695	None	None	111293759	111297980	-1	None	FLJ12118
13	CARS2	ENSG00000134905	ENST00000540006	retained_intron	KNOWN	None	25695	None	None	111293759	111316208	-1	None	FLJ12118
13	CARS2	ENSG00000134905	ENST00000375781	retained_intron	KNOWN	None	25695	None	None	111293764	111316122	-1	None	FLJ12118
13	CARS2	ENSG00000134905	ENST00000257347	protein_coding	KNOWN	CCDS9514	25695	1695	564	111293764	111358504	-1	None	FLJ12118
13	CARS2	ENSG00000134905	ENST00000535516	retained_intron	KNOWN	None	25695	None	None	111293766	111315877	-1	None	FLJ12118
13	CARS2	ENSG00000134905	ENST00000537802	retained_intron	KNOWN	None	25695	None	None	111293766	111318097	-1	None	FLJ12118
13	CARS2	ENSG00000134905	ENST00000481787	retained_intron	KNOWN	None	25695	None	None	111293790	111335486	-1	None	FLJ12118
13	CARS2	ENSG00000134905	ENST00000542774	processed_transcript	KNOWN	None	25695	None	None	111293931	111297028	-1	None	FLJ12118
13	CARS2	ENSG00000134905	ENST00000487253	nonsense_mediated_decay	KNOWN	None	25695	530	175	111293934	111315865	-1	None	FLJ12118
13	CARS2	ENSG00000134905	ENST00000471986	processed_transcript	KNOWN	None	25695	None	None	111294734	111298420	-1	None	FLJ12118
13	CARS2	ENSG00000134905	ENST00000480437	processed_transcript	KNOWN	None	25695	None	None	111294794	111298625	-1	None	FLJ12118
13	CARS2	ENSG00000134905	ENST00000535615	retained_intron	KNOWN	None	25695	None	None	111294858	111318077	-1	None	FLJ12118
13	CARS2	ENSG00000134905	ENST00000535398	processed_transcript	KNOWN	None	25695	None	None	111296303	111365950	-1	None	FLJ12118
13	CARS2	ENSG00000134905	ENST00000540215	retained_intron	KNOWN	None	25695	None	None	111296734	111298723	-1	None	FLJ12118
13	CARS2	ENSG00000134905	ENST00000543487	processed_transcript	KNOWN	None	25695	None	None	111298277	111330440	-1	None	FLJ12118
13	CARS2	ENSG00000134905	ENST00000541362	retained_intron	KNOWN	None	25695	None	None	111298814	111318084	-1	None	FLJ12118
13	CARS2	ENSG00000134905	ENST00000537386	retained_intron	KNOWN	None	25695	None	None	111299026	111315975	-1	None	FLJ12118
13	CARS2	ENSG00000134905	ENST00000545506	retained_intron	KNOWN	None	25695	None	None	111299198	111318138	-1	None	FLJ12118
13	CARS2	ENSG00000134905	ENST00000537404	retained_intron	KNOWN	None	25695	None	None	111299208	111303554	-1	None	FLJ12118
13	CARS2	ENSG00000134905	ENST00000539405	retained_intron	KNOWN	None	25695	None	None	111302594	111319805	-1	None	FLJ12118
13	CARS2	ENSG00000134905	ENST00000537743	protein_coding	PUTATIVE	None	25695	277	91	111315185	111329371	-1	None	FLJ12118
13	CARS2	ENSG00000134905	ENST00000465145	processed_transcript	KNOWN	None	25695	None	None	111319783	111358816	-1	None	FLJ12118
13	CARS2	ENSG00000134905	ENST00000539269	nonsense_mediated_decay	KNOWN	None	25695	359	118	111329321	111358400	-1	None	FLJ12118
13	CARS2	ENSG00000134905	ENST00000544488	processed_transcript	PUTATIVE	None	25695	None	None	111329346	111365869	-1	None	FLJ12118
13	CARS2	ENSG00000134905	ENST00000541443	processed_transcript	KNOWN	None	25695	None	None	111329443	111358852	-1	None	FLJ12118
13	CARS2	ENSG00000134905	ENST00000542126	processed_transcript	PUTATIVE	None	25695	None	None	111340068	111365869	-1	None	FLJ12118
13	CARS2	ENSG00000134905	ENST00000542709	protein_coding	PUTATIVE	None	25695	543	180	111340069	111358144	-1	None	FLJ12118
13	CARS2	ENSG00000134905	ENST00000537394	nonsense_mediated_decay	KNOWN	None	25695	465	154	111340079	111358480	-1	None	FLJ12118
13	CARS2	ENSG00000134905	ENST00000540629	processed_transcript	PUTATIVE	None	25695	None	None	111340139	111364833	-1	None	FLJ12118
13	CARS2	ENSG00000134905	ENST00000540785	retained_intron	KNOWN	None	25695	None	None	111353698	111357963	-1	None	FLJ12118
13	CARS2	ENSG00000134905	ENST00000537412	processed_transcript	PUTATIVE	None	25695	None	None	111353849	111365948	-1	None	FLJ12118
13	CARS2	ENSG00000134905	ENST00000485188	processed_transcript	PUTATIVE	None	25695	None	None	111357868	111365882	-1	None	FLJ12118
1	ATPIF1	ENSG00000130770	ENST00000497986	protein_coding	KNOWN	CCDS320	871	216	71	28562620	28564616	1	None	ATPI, IP, ATPIP, MGC1167, MGC8898
1	ATPIF1	ENSG00000130770	ENST00000335514	protein_coding	KNOWN	CCDS319	871	321	106	28562644	28564611	1	None	ATPI, IP, ATPIP, MGC1167, MGC8898
1	ATPIF1	ENSG00000130770	ENST00000468425	protein_coding	PUTATIVE	None	871	228	75	28562653	28573417	1	None	ATPI, IP, ATPIP, MGC1167, MGC8898
1	ATPIF1	ENSG00000130770	ENST00000465645	protein_coding	KNOWN	CCDS44096	871	183	60	28562665	28564609	1	None	ATPI, IP, ATPIP, MGC1167, MGC8898
19	None	ENSG00000267424	ENST00000588469	antisense	KNOWN	None	None	None	None	12936525	12943797	1	None	None
19	None	ENSG00000265759	ENST00000578125	miRNA	NOVEL	None	None	None	None	12983475	12983544	-1	None	None
19	CDC42EP5	ENSG00000167617	ENST00000301200	protein_coding	KNOWN	CCDS12896	17408	447	148	54976210	54984411	-1	None	CEP5, Borg3
19	CDC42EP5	ENSG00000167617	ENST00000472703	processed_transcript	KNOWN	None	17408	None	None	54982727	54984318	-1	None	CEP5, Borg3
19	None	ENSG00000267735	ENST00000592400	antisense	KNOWN	None	None	None	None	12991783	12994902	1	None	None
16	CPNE2	ENSG00000140848	ENST00000290776	protein_coding	KNOWN	CCDS10774	2315	1647	548	57126449	57181878	1	None	CPN2
16	CPNE2	ENSG00000140848	ENST00000535318	protein_coding	KNOWN	CCDS10774	2315	1647	548	57126519	57181878	1	None	CPN2
16	CPNE2	ENSG00000140848	ENST00000566259	protein_coding	KNOWN	None	2315	245	80	57139963	57147264	1	None	CPN2
16	CPNE2	ENSG00000140848	ENST00000565874	protein_coding	KNOWN	CCDS10774	2315	1647	548	57144463	57181707	1	None	CPN2
16	CPNE2	ENSG00000140848	ENST00000567487	protein_coding	PUTATIVE	None	2315	364	120	57146754	57153551	1	None	CPN2
16	CPNE2	ENSG00000140848	ENST00000565766	protein_coding	PUTATIVE	None	2315	844	280	57153111	57171160	1	None	CPN2
16	CPNE2	ENSG00000140848	ENST00000566042	retained_intron	KNOWN	None	2315	None	None	57157218	57181876	1	None	CPN2
16	CPNE2	ENSG00000140848	ENST00000565951	processed_transcript	KNOWN	None	2315	None	None	57158160	57181876	1	None	CPN2
16	CPNE2	ENSG00000140848	ENST00000566910	processed_transcript	KNOWN	None	2315	None	None	57162964	57181878	1	None	CPN2
16	CPNE2	ENSG00000140848	ENST00000567011	retained_intron	KNOWN	None	2315	None	None	57179552	57181681	1	None	CPN2
16	CPNE2	ENSG00000140848	ENST00000537605	protein_coding	KNOWN	None	2315	1341	446	57126506	57181876	1	None	CPN2
10	None	ENSG00000212325	ENST00000391023	misc_RNA	NOVEL	None	None	None	None	102158109	102158203	-1	None	None
10	None	ENSG00000222072	ENST00000410140	misc_RNA	NOVEL	None	None	None	None	102666931	102667037	-1	None	None
19	None	ENSG00000240616	ENST00000464444	processed_pseudogene	KNOWN	None	None	None	None	13004947	13005694	1	None	None
3	PDZRN3	ENSG00000121440	ENST00000494559	protein_coding	PUTATIVE	None	17704	1148	381	73431584	73450116	-1	None	KIAA1095, SEMACAP3, LNX3
3	PDZRN3	ENSG00000121440	ENST00000263666	protein_coding	KNOWN	CCDS33789	17704	3201	1066	73431584	73674091	-1	None	KIAA1095, SEMACAP3, LNX3
3	PDZRN3	ENSG00000121440	ENST00000462146	protein_coding	PUTATIVE	None	17704	2172	723	73432050	73523783	-1	None	KIAA1095, SEMACAP3, LNX3
3	PDZRN3	ENSG00000121440	ENST00000466780	protein_coding	PUTATIVE	None	17704	2172	723	73432230	73610769	-1	None	KIAA1095, SEMACAP3, LNX3
3	PDZRN3	ENSG00000121440	ENST00000479530	protein_coding	PUTATIVE	None	17704	2352	783	73432287	73483055	-1	None	KIAA1095, SEMACAP3, LNX3
3	PDZRN3	ENSG00000121440	ENST00000492909	protein_coding	PUTATIVE	None	17704	1477	491	73433334	73618612	-1	None	KIAA1095, SEMACAP3, LNX3
3	PDZRN3	ENSG00000121440	ENST00000478209	retained_intron	KNOWN	None	17704	None	None	73433621	73437297	-1	None	KIAA1095, SEMACAP3, LNX3
3	PDZRN3	ENSG00000121440	ENST00000466348	processed_transcript	KNOWN	None	17704	None	None	73434849	73451654	-1	None	KIAA1095, SEMACAP3, LNX3
3	PDZRN3	ENSG00000121440	ENST00000484487	retained_intron	KNOWN	None	17704	None	None	73437138	73450233	-1	None	KIAA1095, SEMACAP3, LNX3
3	PDZRN3	ENSG00000121440	ENST00000477434	retained_intron	KNOWN	None	17704	None	None	73440235	73453714	-1	None	KIAA1095, SEMACAP3, LNX3
3	PDZRN3	ENSG00000121440	ENST00000498048	processed_transcript	KNOWN	None	17704	None	None	73440253	73606089	-1	None	KIAA1095, SEMACAP3, LNX3
3	PDZRN3	ENSG00000121440	ENST00000308537	protein_coding	PUTATIVE	None	17704	1083	360	73457209	73673991	-1	None	KIAA1095, SEMACAP3, LNX3
3	PDZRN3	ENSG00000121440	ENST00000535920	protein_coding	KNOWN	None	17704	2367	788	73432050	73523783	-1	None	KIAA1095, SEMACAP3, LNX3
16	HSD11B2	ENSG00000176387	ENST00000567684	processed_transcript	KNOWN	None	5209	None	None	67464555	67470164	1	None	SDR9C3
16	HSD11B2	ENSG00000176387	ENST00000326152	protein_coding	KNOWN	CCDS10837	5209	1218	405	67465020	67471456	1	None	SDR9C3
16	HSD11B2	ENSG00000176387	ENST00000569303	retained_intron	KNOWN	None	5209	None	None	67465025	67467087	1	None	SDR9C3
16	HSD11B2	ENSG00000176387	ENST00000566606	nonsense_mediated_decay	KNOWN	None	5209	177	58	67465269	67470037	1	None	SDR9C3
19	GNG7	ENSG00000176533	ENST00000382159	protein_coding	KNOWN	CCDS12091	4410	207	68	2511217	2702707	-1	None	FLJ00058
19	GNG7	ENSG00000176533	ENST00000587867	nonsense_mediated_decay	KNOWN	None	4410	111	36	2514991	2683689	-1	None	FLJ00058
6	None	ENSG00000228559	ENST00000450618	lincRNA	KNOWN	None	None	None	None	35512409	35513446	1	None	None
6	None	ENSG00000219023	ENST00000403958	processed_pseudogene	KNOWN	None	None	None	None	35523650	35524041	1	None	None
1	PLEKHM2	ENSG00000116786	ENST00000375799	protein_coding	KNOWN	CCDS44063	29131	3060	1019	16010827	16061264	1	None	KIAA0842
1	PLEKHM2	ENSG00000116786	ENST00000375793	protein_coding	KNOWN	None	29131	3000	999	16010885	16061264	1	None	KIAA0842
1	PLEKHM2	ENSG00000116786	ENST00000462455	processed_transcript	KNOWN	None	29131	None	None	16011036	16046364	1	None	KIAA0842
1	PLEKHM2	ENSG00000116786	ENST00000477849	processed_transcript	KNOWN	None	29131	None	None	16056340	16060610	1	None	KIAA0842
6	None	ENSG00000218749	ENST00000407266	processed_pseudogene	KNOWN	None	None	None	None	35575405	35575711	1	None	None
11	MYEOV	ENSG00000172927	ENST00000441339	protein_coding	KNOWN	CCDS8190	7563	942	313	69061605	69064352	1	None	OCIM
11	MYEOV	ENSG00000172927	ENST00000544008	processed_transcript	PUTATIVE	None	7563	None	None	69061618	69156450	1	None	OCIM
11	MYEOV	ENSG00000172927	ENST00000539691	processed_transcript	KNOWN	None	7563	None	None	69061622	69063317	1	None	OCIM
11	MYEOV	ENSG00000172927	ENST00000308946	protein_coding	KNOWN	CCDS8190	7563	942	313	69061622	69064754	1	None	OCIM
11	MYEOV	ENSG00000172927	ENST00000535407	protein_coding	PUTATIVE	None	7563	768	255	69061625	69064754	1	None	OCIM
11	MYEOV	ENSG00000172927	ENST00000535653	retained_intron	KNOWN	None	7563	None	None	69061631	69064754	1	None	OCIM
11	MYEOV	ENSG00000172927	ENST00000540760	processed_transcript	PUTATIVE	None	7563	None	None	69061641	69063129	1	None	OCIM
11	MYEOV	ENSG00000172927	ENST00000535597	processed_transcript	PUTATIVE	None	7563	None	None	69063053	69063638	1	None	OCIM
11	MYEOV	ENSG00000172927	ENST00000544781	retained_intron	KNOWN	None	7563	None	None	69066741	69181771	1	None	OCIM
11	MYEOV	ENSG00000172927	ENST00000535660	processed_transcript	PUTATIVE	None	7563	None	None	69084299	69156445	1	None	OCIM
11	MYEOV	ENSG00000172927	ENST00000541137	processed_transcript	KNOWN	None	7563	None	None	69152128	69182494	1	None	OCIM
11	MYEOV	ENSG00000172927	ENST00000540356	processed_transcript	KNOWN	None	7563	None	None	69156324	69182183	1	None	OCIM
5	ZNF474	ENSG00000164185	ENST00000296600	protein_coding	KNOWN	CCDS4130	23245	1095	364	121465208	121489266	1	None	4933409D10Rik, FLJ32921
5	ZNF474	ENSG00000164185	ENST00000504912	protein_coding	KNOWN	None	23245	189	62	121465255	121487874	1	None	4933409D10Rik, FLJ32921
5	ZNF474	ENSG00000164185	ENST00000505843	protein_coding	KNOWN	None	23245	109	35	121465261	121487794	1	None	4933409D10Rik, FLJ32921
5	ZNF474	ENSG00000164185	ENST00000514925	processed_transcript	KNOWN	None	23245	None	None	121465317	121515312	1	None	4933409D10Rik, FLJ32921
19	ZNF135	ENSG00000176293	ENST00000359978	protein_coding	KNOWN	CCDS54330	12919	1173	390	58570607	58580773	1	ZNF61, ZNF78L1	pHZ-17
19	ZNF135	ENSG00000176293	ENST00000401053	protein_coding	KNOWN	CCDS54329	12919	2049	682	58570607	58581123	1	ZNF61, ZNF78L1	pHZ-17
19	ZNF135	ENSG00000176293	ENST00000313434	protein_coding	KNOWN	None	12919	1977	658	58570612	58580776	1	ZNF61, ZNF78L1	pHZ-17
19	ZNF135	ENSG00000176293	ENST00000511556	protein_coding	KNOWN	CCDS12970	12919	2013	670	58570637	58579998	1	ZNF61, ZNF78L1	pHZ-17
19	ZNF135	ENSG00000176293	ENST00000506786	protein_coding	KNOWN	None	12919	1851	616	58570648	58580773	1	ZNF61, ZNF78L1	pHZ-17
19	ZNF135	ENSG00000176293	ENST00000515535	nonsense_mediated_decay	KNOWN	None	12919	222	73	58571102	58597677	1	ZNF61, ZNF78L1	pHZ-17
19	ZNF135	ENSG00000176293	ENST00000439855	protein_coding	KNOWN	None	12919	1977	658	58570607	58579829	1	ZNF61, ZNF78L1	pHZ-17
19	LAIR2	ENSG00000167618	ENST00000412608	protein_coding	PUTATIVE	None	6478	268	88	55009100	55019321	1	None	CD306
19	LAIR2	ENSG00000167618	ENST00000301202	protein_coding	KNOWN	CCDS12897	6478	459	152	55014013	55021897	1	None	CD306
19	LAIR2	ENSG00000167618	ENST00000351841	protein_coding	KNOWN	CCDS12898	6478	408	135	55014123	55021897	1	None	CD306
1	SESN2	ENSG00000130766	ENST00000253063	protein_coding	KNOWN	CCDS321	20746	1443	480	28586038	28609002	1	None	SES2, DKFZp761M0212, HI95, SEST2
10	MIR608	ENSG00000207551	ENST00000384820	miRNA	KNOWN	None	32864	None	None	102734742	102734841	1	MIRN608	hsa-mir-608
18	SLMO1	ENSG00000141391	ENST00000590956	protein_coding	PUTATIVE	None	24639	249	82	12407895	12431462	1	C18orf43	HFL-EDDG1, FLJ31484, PRELID3A
18	SLMO1	ENSG00000141391	ENST00000336990	protein_coding	KNOWN	CCDS11860	24639	519	172	12407895	12432234	1	C18orf43	HFL-EDDG1, FLJ31484, PRELID3A
18	SLMO1	ENSG00000141391	ENST00000588729	protein_coding	NOVEL	None	24639	498	165	12407944	12427105	1	C18orf43	HFL-EDDG1, FLJ31484, PRELID3A
18	SLMO1	ENSG00000141391	ENST00000589565	nonsense_mediated_decay	KNOWN	None	24639	144	47	12407947	12431423	1	C18orf43	HFL-EDDG1, FLJ31484, PRELID3A
18	SLMO1	ENSG00000141391	ENST00000589952	protein_coding	PUTATIVE	None	24639	401	132	12419891	12427321	1	C18orf43	HFL-EDDG1, FLJ31484, PRELID3A
18	SLMO1	ENSG00000141391	ENST00000592149	protein_coding	PUTATIVE	None	24639	456	151	12419932	12432237	1	C18orf43	HFL-EDDG1, FLJ31484, PRELID3A
18	SLMO1	ENSG00000141391	ENST00000587862	protein_coding	PUTATIVE	None	24639	543	180	12420016	12429363	1	C18orf43	HFL-EDDG1, FLJ31484, PRELID3A
18	SLMO1	ENSG00000141391	ENST00000587735	protein_coding	PUTATIVE	None	24639	249	82	12421285	12432237	1	C18orf43	HFL-EDDG1, FLJ31484, PRELID3A
18	SLMO1	ENSG00000141391	ENST00000440960	protein_coding	KNOWN	CCDS11860	24639	519	172	12407895	12432232	1	C18orf43	HFL-EDDG1, FLJ31484, PRELID3A
10	None	ENSG00000236662	ENST00000447344	antisense	KNOWN	None	None	None	None	102740264	102745371	-1	None	None
10	None	ENSG00000226740	ENST00000411459	antisense	KNOWN	None	None	None	None	102896232	102899468	-1	None	None
1	MYBPHL	ENSG00000221986	ENST00000489706	processed_transcript	KNOWN	None	30434	None	None	109834987	109838975	-1	None	None
1	MYBPHL	ENSG00000221986	ENST00000357155	protein_coding	KNOWN	CCDS30793	30434	1065	354	109834987	109849663	-1	None	None
1	MYBPHL	ENSG00000221986	ENST00000477962	processed_transcript	KNOWN	None	30434	None	None	109835137	109849617	-1	None	None
10	None	ENSG00000237579	ENST00000434189	lincRNA	KNOWN	None	None	None	None	102936080	102953904	1	None	None
10	None	ENSG00000270973	ENST00000605515	processed_pseudogene	KNOWN	None	None	None	None	102940901	102941708	-1	None	None
10	TECTB	ENSG00000119913	ENST00000369422	protein_coding	KNOWN	CCDS7571	11721	990	329	114043493	114064793	1	None	None
10	TECTB	ENSG00000119913	ENST00000494328	processed_transcript	KNOWN	None	11721	None	None	114057969	114062238	1	None	None
10	LBX1-AS1	ENSG00000227128	ENST00000547077	antisense	KNOWN	None	48678	None	None	102989351	102992362	1	None	FLJ41350
10	LBX1-AS1	ENSG00000227128	ENST00000546988	antisense	KNOWN	None	48678	None	None	102989368	102992191	1	None	FLJ41350
10	LBX1-AS1	ENSG00000227128	ENST00000454527	antisense	KNOWN	None	48678	None	None	102992009	102998435	1	None	FLJ41350
10	LBX1-AS1	ENSG00000227128	ENST00000430651	antisense	KNOWN	None	48678	None	None	102995825	102998605	1	None	FLJ41350
10	LBX1-AS1	ENSG00000227128	ENST00000434878	antisense	KNOWN	None	48678	None	None	102997695	103029905	1	None	FLJ41350
10	LBX1-AS1	ENSG00000227128	ENST00000456391	antisense	KNOWN	None	48678	None	None	102997760	102998616	1	None	FLJ41350
6	UTRN	ENSG00000152818	ENST00000433557	protein_coding	KNOWN	None	12635	141	46	144606837	144724320	1	DMDL	DRP, DRP1
6	UTRN	ENSG00000152818	ENST00000367545	protein_coding	KNOWN	CCDS34547	12635	10302	3433	144612965	145174170	1	DMDL	DRP, DRP1
6	UTRN	ENSG00000152818	ENST00000421035	protein_coding	KNOWN	None	12635	459	152	144665237	144747464	1	DMDL	DRP, DRP1
6	UTRN	ENSG00000152818	ENST00000367526	protein_coding	KNOWN	None	12635	2967	988	144904346	145172139	1	DMDL	DRP, DRP1
6	UTRN	ENSG00000152818	ENST00000367525	protein_coding	KNOWN	None	12635	198	65	144980980	144999688	1	DMDL	DRP, DRP1
6	UTRN	ENSG00000152818	ENST00000480333	processed_transcript	KNOWN	None	12635	None	None	145075850	145079446	1	DMDL	DRP, DRP1
6	UTRN	ENSG00000152818	ENST00000367524	protein_coding	KNOWN	None	12635	753	250	145110365	145149987	1	DMDL	DRP, DRP1
6	UTRN	ENSG00000152818	ENST00000432686	protein_coding	KNOWN	None	12635	542	179	145118881	145149991	1	DMDL	DRP, DRP1
6	UTRN	ENSG00000152818	ENST00000417142	protein_coding	KNOWN	None	12635	554	183	145118881	145156966	1	DMDL	DRP, DRP1
6	UTRN	ENSG00000152818	ENST00000455022	protein_coding	KNOWN	None	12635	560	185	145120517	145157074	1	DMDL	DRP, DRP1
6	UTRN	ENSG00000152818	ENST00000465299	processed_transcript	KNOWN	None	12635	None	None	145157509	145158380	1	DMDL	DRP, DRP1
6	UTRN	ENSG00000152818	ENST00000460618	processed_transcript	KNOWN	None	12635	None	None	145160185	145167958	1	DMDL	DRP, DRP1
16	None	ENSG00000224631	ENST00000591758	processed_transcript	KNOWN	None	None	None	None	61089303	61089868	-1	None	None
16	None	ENSG00000224631	ENST00000492222	transcribed_processed_pseudogene	KNOWN	None	None	None	None	61089349	61089818	-1	None	None
16	None	ENSG00000224631	ENST00000444907	pseudogene	KNOWN	None	None	None	None	61089349	61089818	-1	None	None
8	FGF17	ENSG00000158815	ENST00000518533	protein_coding	KNOWN	None	3673	618	205	21899909	21906317	1	None	FGF-13
8	FGF17	ENSG00000158815	ENST00000359441	protein_coding	KNOWN	CCDS6019	3673	651	216	21899937	21906320	1	None	FGF-13
8	FGF17	ENSG00000158815	ENST00000521709	processed_transcript	PUTATIVE	None	3673	None	None	21902080	21905670	1	None	FGF-13
8	FGF17	ENSG00000158815	ENST00000524314	retained_intron	KNOWN	None	3673	None	None	21902183	21906317	1	None	FGF-13
6	None	ENSG00000212579	ENST00000391277	snoRNA	NOVEL	None	None	None	None	35619595	35619722	1	None	None
6	MIR5690	ENSG00000265527	ENST00000583739	miRNA	KNOWN	None	43490	None	None	35632494	35632566	-1	None	hsa-mir-5690
16	None	ENSG00000260600	ENST00000562568	sense_intronic	KNOWN	None	None	None	None	61725660	61727654	-1	None	None
6	None	ENSG00000223063	ENST00000411131	miRNA	NOVEL	None	None	None	None	35668780	35668915	-1	None	None
19	PPP1R12C	ENSG00000125503	ENST00000263433	protein_coding	KNOWN	CCDS12916	14947	2349	782	55602281	55628927	-1	LENG3	DKFZP434D0412, p84, MBS85, p85
19	PPP1R12C	ENSG00000125503	ENST00000591938	protein_coding	KNOWN	None	14947	704	233	55602282	55606164	-1	LENG3	DKFZP434D0412, p84, MBS85, p85
19	PPP1R12C	ENSG00000125503	ENST00000590268	retained_intron	KNOWN	None	14947	None	None	55602576	55603966	-1	LENG3	DKFZP434D0412, p84, MBS85, p85
19	PPP1R12C	ENSG00000125503	ENST00000435544	protein_coding	NOVEL	None	14947	2124	707	55602729	55624986	-1	LENG3	DKFZP434D0412, p84, MBS85, p85
19	PPP1R12C	ENSG00000125503	ENST00000592993	protein_coding	NOVEL	None	14947	2213	736	55602784	55628781	-1	LENG3	DKFZP434D0412, p84, MBS85, p85
19	PPP1R12C	ENSG00000125503	ENST00000592754	retained_intron	KNOWN	None	14947	None	None	55604144	55606529	-1	LENG3	DKFZP434D0412, p84, MBS85, p85
19	PPP1R12C	ENSG00000125503	ENST00000588277	retained_intron	KNOWN	None	14947	None	None	55604158	55606062	-1	LENG3	DKFZP434D0412, p84, MBS85, p85
19	PPP1R12C	ENSG00000125503	ENST00000586197	retained_intron	KNOWN	None	14947	None	None	55607445	55608432	-1	LENG3	DKFZP434D0412, p84, MBS85, p85
19	PPP1R12C	ENSG00000125503	ENST00000586992	retained_intron	KNOWN	None	14947	None	None	55622744	55626884	-1	LENG3	DKFZP434D0412, p84, MBS85, p85
19	PPP1R12C	ENSG00000125503	ENST00000376393	protein_coding	KNOWN	None	14947	2160	719	55602283	55628927	-1	LENG3	DKFZP434D0412, p84, MBS85, p85
16	RN7SKP76	ENSG00000201289	ENST00000364419	misc_RNA	KNOWN	None	45800	None	None	61777058	61777380	-1	None	None
6	None	ENSG00000232909	ENST00000452048	antisense	KNOWN	None	None	None	None	35701644	35704724	-1	None	None
5	ARSI	ENSG00000183876	ENST00000328668	protein_coding	KNOWN	CCDS34275	32521	1710	569	149675906	149682516	-1	None	FLJ16069
5	ARSI	ENSG00000183876	ENST00000515301	protein_coding	KNOWN	None	32521	1281	426	149676777	149718870	-1	None	FLJ16069
5	ARSI	ENSG00000183876	ENST00000509146	protein_coding	KNOWN	None	32521	260	85	149677798	149718856	-1	None	FLJ16069
16	None	ENSG00000260115	ENST00000562349	antisense	KNOWN	None	None	None	None	61952225	61974601	1	None	None
3	EAF2	ENSG00000145088	ENST00000490434	nonsense_mediated_decay	KNOWN	None	23115	207	68	121554030	121605315	1	None	BM040, TRAITS, U19
3	EAF2	ENSG00000145088	ENST00000465664	processed_transcript	KNOWN	None	23115	None	None	121554056	121556623	1	None	BM040, TRAITS, U19
3	EAF2	ENSG00000145088	ENST00000273668	protein_coding	KNOWN	CCDS3006	23115	783	260	121554062	121605373	1	None	BM040, TRAITS, U19
3	EAF2	ENSG00000145088	ENST00000451944	protein_coding	PUTATIVE	None	23115	792	263	121554084	121592010	1	None	BM040, TRAITS, U19
3	EAF2	ENSG00000145088	ENST00000490477	nonsense_mediated_decay	KNOWN	None	23115	108	35	121554124	121576003	1	None	BM040, TRAITS, U19
16	PDIA2	ENSG00000185615	ENST00000219406	protein_coding	KNOWN	CCDS42089	14180	1578	525	333152	337215	1	PDIP	PDA2, PDI, PDIR
16	PDIA2	ENSG00000185615	ENST00000467212	retained_intron	KNOWN	None	14180	None	None	333164	337214	1	PDIP	PDA2, PDI, PDIR
16	PDIA2	ENSG00000185615	ENST00000404312	protein_coding	KNOWN	None	14180	1569	522	333165	337114	1	PDIP	PDA2, PDI, PDIR
16	PDIA2	ENSG00000185615	ENST00000456379	protein_coding	NOVEL	None	14180	680	225	333180	335140	1	PDIP	PDA2, PDI, PDIR
16	PDIA2	ENSG00000185615	ENST00000482665	retained_intron	KNOWN	None	14180	None	None	334152	337208	1	PDIP	PDA2, PDI, PDIR
16	PDIA2	ENSG00000185615	ENST00000462950	processed_transcript	KNOWN	None	14180	None	None	334875	335576	1	PDIP	PDA2, PDI, PDIR
16	PDIA2	ENSG00000185615	ENST00000435833	protein_coding	NOVEL	None	14180	465	154	335680	337215	1	PDIP	PDA2, PDI, PDIR
6	None	ENSG00000220734	ENST00000403727	processed_pseudogene	KNOWN	None	None	None	None	35733685	35734704	1	None	None
16	RNU6-21P	ENSG00000207441	ENST00000384710	snRNA	KNOWN	None	34265	None	None	62221444	62221550	-1	RNU6-21	None
X	None	ENSG00000272066	ENST00000607095	antisense	KNOWN	None	None	None	None	82761031	82764222	-1	None	None
16	None	ENSG00000237901	ENST00000417306	processed_pseudogene	KNOWN	None	None	None	None	62391275	62391650	1	None	None
7	None	ENSG00000229974	ENST00000452718	protein_coding	NOVEL	None	None	120	39	134832797	134832916	-1	None	None
2	NRXN1	ENSG00000179915	ENST00000342183	protein_coding	KNOWN	CCDS1845	8008	1329	442	50145643	50574892	-1	None	KIAA0578, Hs.22998
2	NRXN1	ENSG00000179915	ENST00000484192	processed_transcript	KNOWN	None	8008	None	None	50147487	50201304	-1	None	KIAA0578, Hs.22998
2	NRXN1	ENSG00000179915	ENST00000412315	protein_coding	NOVEL	None	8008	632	209	50147487	50201341	-1	None	KIAA0578, Hs.22998
2	NRXN1	ENSG00000179915	ENST00000378262	protein_coding	NOVEL	None	8008	433	143	50147487	50246411	-1	None	KIAA0578, Hs.22998
2	NRXN1	ENSG00000179915	ENST00000401710	protein_coding	NOVEL	None	8008	1488	495	50147488	50723214	-1	None	KIAA0578, Hs.22998
2	NRXN1	ENSG00000179915	ENST00000404971	protein_coding	NOVEL	CCDS46282	8008	4644	1547	50147488	51259537	-1	None	KIAA0578, Hs.22998
2	NRXN1	ENSG00000179915	ENST00000406316	protein_coding	KNOWN	CCDS54360	8008	4434	1477	50147488	51259674	-1	None	KIAA0578, Hs.22998
2	NRXN1	ENSG00000179915	ENST00000405472	protein_coding	NOVEL	None	8008	4500	1499	50148907	51259250	-1	None	KIAA0578, Hs.22998
2	NRXN1	ENSG00000179915	ENST00000401669	protein_coding	NOVEL	None	8008	4524	1507	50148907	51259314	-1	None	KIAA0578, Hs.22998
2	NRXN1	ENSG00000179915	ENST00000331040	processed_transcript	KNOWN	None	8008	None	None	50426275	50883552	-1	None	KIAA0578, Hs.22998
2	NRXN1	ENSG00000179915	ENST00000474354	retained_intron	KNOWN	None	8008	None	None	50724713	50756073	-1	None	KIAA0578, Hs.22998
2	NRXN1	ENSG00000179915	ENST00000462791	processed_transcript	PUTATIVE	None	8008	None	None	50724809	50734078	-1	None	KIAA0578, Hs.22998
2	NRXN1	ENSG00000179915	ENST00000495871	processed_transcript	PUTATIVE	None	8008	None	None	50724817	50847190	-1	None	KIAA0578, Hs.22998
2	NRXN1	ENSG00000179915	ENST00000405581	protein_coding	PUTATIVE	None	8008	837	278	51143960	51259674	-1	None	KIAA0578, Hs.22998
2	NRXN1	ENSG00000179915	ENST00000496792	processed_transcript	PUTATIVE	None	8008	None	None	51149659	51254919	-1	None	KIAA0578, Hs.22998
2	NRXN1	ENSG00000179915	ENST00000402717	protein_coding	KNOWN	None	8008	4500	1499	50149082	51255411	-1	None	KIAA0578, Hs.22998
2	NRXN1	ENSG00000179915	ENST00000406859	protein_coding	KNOWN	None	8008	4434	1477	50149082	51255411	-1	None	KIAA0578, Hs.22998
16	None	ENSG00000238507	ENST00000459578	snoRNA	NOVEL	None	None	None	None	62438155	62438258	1	None	None
6	DPRXP2	ENSG00000271304	ENST00000605269	processed_pseudogene	KNOWN	None	32168	None	None	35957292	35958213	-1	None	None
16	None	ENSG00000231589	ENST00000415422	lincRNA	KNOWN	None	None	None	None	62630276	62632353	1	None	None
19	RNASEH2A	ENSG00000104889	ENST00000221486	protein_coding	KNOWN	CCDS12282	18518	900	299	12917394	12924451	1	None	RNASEHI, RNHIA, RNHL, AGS4
19	RNASEH2A	ENSG00000104889	ENST00000593017	retained_intron	KNOWN	None	18518	None	None	12917406	12924452	1	None	RNASEHI, RNHIA, RNHL, AGS4
19	RNASEH2A	ENSG00000104889	ENST00000590121	retained_intron	KNOWN	None	18518	None	None	12917491	12918771	1	None	RNASEHI, RNHIA, RNHL, AGS4
19	RNASEH2A	ENSG00000104889	ENST00000590279	retained_intron	KNOWN	None	18518	None	None	12917498	12918319	1	None	RNASEHI, RNHIA, RNHL, AGS4
16	None	ENSG00000260332	ENST00000569391	processed_pseudogene	KNOWN	None	None	None	None	62842126	62842610	-1	None	None
6	None	ENSG00000237719	ENST00000453556	processed_pseudogene	KNOWN	None	None	None	None	36059768	36060423	-1	None	None
16	None	ENSG00000223123	ENST00000411191	miRNA	NOVEL	None	None	None	None	62859865	62859952	-1	None	None
9	SSNA1	ENSG00000176101	ENST00000322310	protein_coding	KNOWN	CCDS7034	11321	360	119	140083099	140084822	1	None	NA14, N14
9	SSNA1	ENSG00000176101	ENST00000459860	processed_transcript	KNOWN	None	11321	None	None	140083112	140084822	1	None	NA14, N14
9	SSNA1	ENSG00000176101	ENST00000463511	processed_transcript	KNOWN	None	11321	None	None	140083151	140084375	1	None	NA14, N14
9	SSNA1	ENSG00000176101	ENST00000464553	processed_transcript	KNOWN	None	11321	None	None	140083158	140084822	1	None	NA14, N14
16	None	ENSG00000262394	ENST00000563003	lincRNA	KNOWN	None	None	None	None	63090690	63163558	-1	None	None
19	CEBPA	ENSG00000245848	ENST00000498907	protein_coding	KNOWN	CCDS54243	1833	1077	358	33790840	33793470	-1	CEBP	C/EBP-alpha
6	None	ENSG00000221743	ENST00000408816	miRNA	NOVEL	None	None	None	None	36108275	36108365	-1	None	None
16	None	ENSG00000261502	ENST00000568741	3prime_overlapping_ncrna	KNOWN	None	None	None	None	63091122	63093812	-1	None	None
6	None	ENSG00000246982	ENST00000526611	antisense	KNOWN	None	None	None	None	36114475	36164980	-1	None	None
6	None	ENSG00000246982	ENST00000499560	antisense	KNOWN	None	None	None	None	36125845	36164982	-1	None	None
1	MED18	ENSG00000130772	ENST00000479574	processed_transcript	KNOWN	None	25944	None	None	28655513	28661527	1	None	FLJ20045, p28b
1	MED18	ENSG00000130772	ENST00000373842	protein_coding	KNOWN	CCDS322	25944	627	208	28655549	28662476	1	None	FLJ20045, p28b
1	MED18	ENSG00000130772	ENST00000475655	processed_transcript	KNOWN	None	25944	None	None	28655573	28657303	1	None	FLJ20045, p28b
1	MED18	ENSG00000130772	ENST00000474683	processed_transcript	KNOWN	None	25944	None	None	28656794	28661096	1	None	FLJ20045, p28b
1	MED18	ENSG00000130772	ENST00000398997	protein_coding	KNOWN	CCDS322	25944	627	208	28655566	28662475	1	None	FLJ20045, p28b
16	None	ENSG00000269986	ENST00000602701	sense_intronic	KNOWN	None	None	None	None	63100430	63100894	-1	None	None
19	CEBPG	ENSG00000153879	ENST00000284000	protein_coding	KNOWN	CCDS12432	1837	453	150	33864236	33873591	1	None	GPE1BP, IG/EBP-1
19	CEBPG	ENSG00000153879	ENST00000585933	protein_coding	KNOWN	None	1837	293	96	33865218	33870438	1	None	GPE1BP, IG/EBP-1
12	KITLG	ENSG00000049130	ENST00000378535	processed_transcript	KNOWN	None	6343	None	None	88886570	88928539	-1	MGF	SCF, SF, Kitl, KL-1, FPH2
12	KITLG	ENSG00000049130	ENST00000228280	protein_coding	KNOWN	CCDS31868	6343	822	273	88890359	88974238	-1	MGF	SCF, SF, Kitl, KL-1, FPH2
12	KITLG	ENSG00000049130	ENST00000347404	protein_coding	KNOWN	CCDS31867	6343	738	245	88890359	88974628	-1	MGF	SCF, SF, Kitl, KL-1, FPH2
12	KITLG	ENSG00000049130	ENST00000357116	protein_coding	PUTATIVE	None	6343	171	56	88890857	88974248	-1	MGF	SCF, SF, Kitl, KL-1, FPH2
12	KITLG	ENSG00000049130	ENST00000552044	protein_coding	PUTATIVE	None	6343	74	23	88912610	88974246	-1	MGF	SCF, SF, Kitl, KL-1, FPH2
X	SOX3	ENSG00000134595	ENST00000370536	protein_coding	KNOWN	CCDS14669	11199	1341	446	139585152	139587225	-1	PHP	None
15	NOP10	ENSG00000182117	ENST00000328848	protein_coding	KNOWN	CCDS10037	14378	195	64	34633917	34635378	-1	NOLA3	NOP10P, MGC70651
15	NOP10	ENSG00000182117	ENST00000557912	protein_coding	PUTATIVE	None	14378	111	36	34633920	34635324	-1	NOLA3	NOP10P, MGC70651
9	FAM95B1	ENSG00000223839	ENST00000455995	lincRNA	KNOWN	None	32318	None	None	42466317	42474236	1	None	DKFZp686P0734
9	FAM95B1	ENSG00000223839	ENST00000592053	lincRNA	KNOWN	None	32318	None	None	42468589	42474236	1	None	DKFZp686P0734
9	FAM95B1	ENSG00000223839	ENST00000586172	lincRNA	KNOWN	None	32318	None	None	42468743	42469819	1	None	DKFZp686P0734
9	FAM95B1	ENSG00000223839	ENST00000586842	lincRNA	KNOWN	None	32318	None	None	42468743	42470547	1	None	DKFZp686P0734
9	FAM95B1	ENSG00000223839	ENST00000585417	lincRNA	KNOWN	None	32318	None	None	42468743	42470577	1	None	DKFZp686P0734
9	FAM95B1	ENSG00000223839	ENST00000588217	lincRNA	KNOWN	None	32318	None	None	42468743	42470652	1	None	DKFZp686P0734
9	FAM95B1	ENSG00000223839	ENST00000590254	lincRNA	KNOWN	None	32318	None	None	42468743	42470655	1	None	DKFZp686P0734
9	FAM95B1	ENSG00000223839	ENST00000592873	lincRNA	KNOWN	None	32318	None	None	42469548	42474239	1	None	DKFZp686P0734
9	FAM95B1	ENSG00000223839	ENST00000593216	lincRNA	KNOWN	None	32318	None	None	42469685	42470994	1	None	DKFZp686P0734
9	FAM95B1	ENSG00000223839	ENST00000586273	lincRNA	KNOWN	None	32318	None	None	42469884	42474075	1	None	DKFZp686P0734
9	FAM95B1	ENSG00000223839	ENST00000593047	lincRNA	KNOWN	None	32318	None	None	42469953	42474147	1	None	DKFZp686P0734
9	FAM95B1	ENSG00000223839	ENST00000591605	lincRNA	KNOWN	None	32318	None	None	42470244	42474045	1	None	DKFZp686P0734
9	FAM95B1	ENSG00000223839	ENST00000590863	lincRNA	KNOWN	None	32318	None	None	42470339	42474152	1	None	DKFZp686P0734
9	FAM95B1	ENSG00000223839	ENST00000589112	lincRNA	KNOWN	None	32318	None	None	42470500	42474129	1	None	DKFZp686P0734
5	IL13	ENSG00000169194	ENST00000468334	processed_transcript	KNOWN	None	5973	None	None	131991955	131996242	1	None	P600, IL-13, ALRH, BHR1, MGC116786, MGC116788, MGC116789
5	IL13	ENSG00000169194	ENST00000459878	processed_transcript	KNOWN	None	5973	None	None	131992216	131996306	1	None	P600, IL-13, ALRH, BHR1, MGC116786, MGC116788, MGC116789
5	IL13	ENSG00000169194	ENST00000487267	processed_transcript	KNOWN	None	5973	None	None	131992228	131996395	1	None	P600, IL-13, ALRH, BHR1, MGC116786, MGC116788, MGC116789
5	IL13	ENSG00000169194	ENST00000462480	retained_intron	KNOWN	None	5973	None	None	131993865	131996024	1	None	P600, IL-13, ALRH, BHR1, MGC116786, MGC116788, MGC116789
5	IL13	ENSG00000169194	ENST00000304506	protein_coding	KNOWN	CCDS4157	5973	441	146	131993865	131996802	1	None	P600, IL-13, ALRH, BHR1, MGC116786, MGC116788, MGC116789
X	RIBC1	ENSG00000158423	ENST00000329209	protein_coding	KNOWN	None	26537	544	180	53449639	53455575	1	None	FLJ32783
X	RIBC1	ENSG00000158423	ENST00000457095	protein_coding	KNOWN	CCDS14353	26537	579	192	53449839	53456776	1	None	FLJ32783
X	RIBC1	ENSG00000158423	ENST00000375327	protein_coding	KNOWN	CCDS35299	26537	1140	379	53449890	53458059	1	None	FLJ32783
X	RIBC1	ENSG00000158423	ENST00000490702	processed_transcript	KNOWN	None	26537	None	None	53455411	53456226	1	None	FLJ32783
X	RIBC1	ENSG00000158423	ENST00000414955	protein_coding	KNOWN	CCDS59168	26537	717	238	53449805	53457793	1	None	FLJ32783
4	None	ENSG00000205959	ENST00000528132	lincRNA	KNOWN	None	None	None	None	8483997	8510922	1	None	None
4	None	ENSG00000205959	ENST00000382488	lincRNA	KNOWN	None	None	None	None	8508555	8514337	1	None	None
X	LINC00632	ENSG00000203930	ENST00000607004	protein_coding	PUTATIVE	None	27865	51	16	139791932	139794394	1	None	None
X	LINC00632	ENSG00000203930	ENST00000370535	protein_coding	PUTATIVE	None	27865	312	103	139791932	139796987	1	None	None
X	LINC00632	ENSG00000203930	ENST00000498732	processed_transcript	KNOWN	None	27865	None	None	139791945	139854839	1	None	None
X	LINC00632	ENSG00000203930	ENST00000602830	processed_transcript	KNOWN	None	27865	None	None	139798211	139854508	1	None	None
X	LINC00632	ENSG00000203930	ENST00000602535	processed_transcript	KNOWN	None	27865	None	None	139846743	139854844	1	None	None
8	DLC1	ENSG00000164741	ENST00000276297	protein_coding	KNOWN	CCDS5989	2897	4587	1528	12940870	13372395	-1	None	HP, ARHGAP7, STARD12, DLC-1, p122-RhoGAP
8	DLC1	ENSG00000164741	ENST00000358919	protein_coding	KNOWN	CCDS5990	2897	3276	1091	12942698	12990983	-1	None	HP, ARHGAP7, STARD12, DLC-1, p122-RhoGAP
8	DLC1	ENSG00000164741	ENST00000510318	processed_transcript	KNOWN	None	2897	None	None	12943064	12953546	-1	None	HP, ARHGAP7, STARD12, DLC-1, p122-RhoGAP
8	DLC1	ENSG00000164741	ENST00000512044	protein_coding	PUTATIVE	None	2897	3378	1125	12943086	13134055	-1	None	HP, ARHGAP7, STARD12, DLC-1, p122-RhoGAP
8	DLC1	ENSG00000164741	ENST00000520226	protein_coding	PUTATIVE	CCDS55201	2897	3054	1017	12943102	12973753	-1	None	HP, ARHGAP7, STARD12, DLC-1, p122-RhoGAP
8	DLC1	ENSG00000164741	ENST00000521730	retained_intron	KNOWN	None	2897	None	None	12943741	12946248	-1	None	HP, ARHGAP7, STARD12, DLC-1, p122-RhoGAP
8	DLC1	ENSG00000164741	ENST00000513883	processed_transcript	PUTATIVE	None	2897	None	None	12952332	12953587	-1	None	HP, ARHGAP7, STARD12, DLC-1, p122-RhoGAP
8	DLC1	ENSG00000164741	ENST00000510250	retained_intron	KNOWN	None	2897	None	None	12952438	12958414	-1	None	HP, ARHGAP7, STARD12, DLC-1, p122-RhoGAP
8	DLC1	ENSG00000164741	ENST00000509922	processed_transcript	KNOWN	None	2897	None	None	12958069	13134293	-1	None	HP, ARHGAP7, STARD12, DLC-1, p122-RhoGAP
8	DLC1	ENSG00000164741	ENST00000503161	protein_coding	PUTATIVE	None	2897	146	47	12958115	13134382	-1	None	HP, ARHGAP7, STARD12, DLC-1, p122-RhoGAP
8	DLC1	ENSG00000164741	ENST00000515225	processed_transcript	KNOWN	None	2897	None	None	12958198	12990798	-1	None	HP, ARHGAP7, STARD12, DLC-1, p122-RhoGAP
8	DLC1	ENSG00000164741	ENST00000506171	processed_transcript	KNOWN	None	2897	None	None	13071776	13133819	-1	None	HP, ARHGAP7, STARD12, DLC-1, p122-RhoGAP
8	DLC1	ENSG00000164741	ENST00000316609	protein_coding	KNOWN	None	2897	1497	498	13072084	13372274	-1	None	HP, ARHGAP7, STARD12, DLC-1, p122-RhoGAP
8	DLC1	ENSG00000164741	ENST00000511869	protein_coding	NOVEL	CCDS5991	2897	1392	463	13162086	13372396	-1	None	HP, ARHGAP7, STARD12, DLC-1, p122-RhoGAP
8	DLC1	ENSG00000164741	ENST00000517868	protein_coding	PUTATIVE	None	2897	226	74	13356368	13356750	-1	None	HP, ARHGAP7, STARD12, DLC-1, p122-RhoGAP
8	DLC1	ENSG00000164741	ENST00000517333	processed_transcript	KNOWN	None	2897	None	None	13357331	13373167	-1	None	HP, ARHGAP7, STARD12, DLC-1, p122-RhoGAP
4	None	ENSG00000250915	ENST00000514043	lincRNA	KNOWN	None	None	None	None	8747123	8747759	-1	None	None
5	YTHDF1P1	ENSG00000251389	ENST00000515217	processed_pseudogene	KNOWN	None	31681	None	None	96704480	96706125	1	YTHDF1P	None
17	TOM1L2	ENSG00000175662	ENST00000581396	protein_coding	KNOWN	CCDS32584	11984	1374	457	17746828	17875724	-1	None	None
17	TOM1L2	ENSG00000175662	ENST00000478943	protein_coding	KNOWN	None	11984	723	240	17750139	17775378	-1	None	None
17	TOM1L2	ENSG00000175662	ENST00000379504	protein_coding	KNOWN	CCDS42270	11984	1524	507	17750139	17875711	-1	None	None
17	TOM1L2	ENSG00000175662	ENST00000318094	protein_coding	NOVEL	None	11984	1389	462	17750163	17875711	-1	None	None
17	TOM1L2	ENSG00000175662	ENST00000577794	retained_intron	KNOWN	None	11984	None	None	17750648	17752263	-1	None	None
17	TOM1L2	ENSG00000175662	ENST00000395739	protein_coding	KNOWN	None	11984	1389	462	17750663	17875718	-1	None	None
17	TOM1L2	ENSG00000175662	ENST00000535933	protein_coding	NOVEL	None	11984	1452	483	17750760	17875734	-1	None	None
17	TOM1L2	ENSG00000175662	ENST00000540946	protein_coding	NOVEL	None	11984	1170	389	17750783	17875711	-1	None	None
17	TOM1L2	ENSG00000175662	ENST00000486413	retained_intron	KNOWN	None	11984	None	None	17750866	17754617	-1	None	None
17	TOM1L2	ENSG00000175662	ENST00000542206	protein_coding	NOVEL	None	11984	1167	388	17750883	17875714	-1	None	None
17	TOM1L2	ENSG00000175662	ENST00000468944	protein_coding	PUTATIVE	None	11984	120	39	17765217	17766094	-1	None	None
17	TOM1L2	ENSG00000175662	ENST00000577517	processed_transcript	KNOWN	None	11984	None	None	17766588	17775372	-1	None	None
17	TOM1L2	ENSG00000175662	ENST00000537091	retained_intron	KNOWN	None	11984	None	None	17772279	17875711	-1	None	None
17	TOM1L2	ENSG00000175662	ENST00000579586	protein_coding	PUTATIVE	None	11984	250	82	17796992	17875736	-1	None	None
4	None	ENSG00000258507	ENST00000557144	sense_intronic	KNOWN	None	None	None	None	8860441	8862553	-1	None	None
9	None	ENSG00000260995	ENST00000566873	lincRNA	KNOWN	None	None	None	None	81750337	81760589	-1	None	None
4	None	ENSG00000197468	ENST00000508957	unprocessed_pseudogene	KNOWN	None	None	None	None	8951356	8952285	1	None	None
4	None	ENSG00000197468	ENST00000360245	unprocessed_pseudogene	KNOWN	None	None	None	None	8951477	8952127	1	None	None
3	PDCD10	ENSG00000114209	ENST00000392750	protein_coding	KNOWN	CCDS3202	8761	639	212	167401086	167452614	-1	CCM3	TFAR15
3	PDCD10	ENSG00000114209	ENST00000473645	protein_coding	KNOWN	CCDS3202	8761	639	212	167401698	167452727	-1	CCM3	TFAR15
3	PDCD10	ENSG00000114209	ENST00000497056	protein_coding	KNOWN	CCDS3202	8761	639	212	167401700	167452718	-1	CCM3	TFAR15
3	PDCD10	ENSG00000114209	ENST00000492396	protein_coding	PUTATIVE	None	8761	450	149	167401902	167443265	-1	CCM3	TFAR15
3	PDCD10	ENSG00000114209	ENST00000461494	protein_coding	KNOWN	CCDS3202	8761	639	212	167402030	167452332	-1	CCM3	TFAR15
3	PDCD10	ENSG00000114209	ENST00000470131	protein_coding	KNOWN	CCDS3202	8761	639	212	167402044	167452680	-1	CCM3	TFAR15
3	PDCD10	ENSG00000114209	ENST00000475915	protein_coding	KNOWN	None	8761	608	201	167402127	167452298	-1	CCM3	TFAR15
3	PDCD10	ENSG00000114209	ENST00000487947	protein_coding	KNOWN	None	8761	561	186	167405003	167452270	-1	CCM3	TFAR15
3	PDCD10	ENSG00000114209	ENST00000471885	protein_coding	PUTATIVE	None	8761	561	186	167405010	167452639	-1	CCM3	TFAR15
3	PDCD10	ENSG00000114209	ENST00000479121	protein_coding	PUTATIVE	None	8761	367	121	167405011	167437886	-1	CCM3	TFAR15
3	PDCD10	ENSG00000114209	ENST00000462725	protein_coding	KNOWN	None	8761	440	145	167405437	167452305	-1	CCM3	TFAR15
3	PDCD10	ENSG00000114209	ENST00000492139	protein_coding	KNOWN	None	8761	402	133	167405475	167452624	-1	CCM3	TFAR15
3	PDCD10	ENSG00000114209	ENST00000483451	retained_intron	KNOWN	None	8761	None	None	167413384	167452609	-1	CCM3	TFAR15
3	PDCD10	ENSG00000114209	ENST00000494502	nonsense_mediated_decay	KNOWN	None	8761	180	59	167413397	167452651	-1	CCM3	TFAR15
3	PDCD10	ENSG00000114209	ENST00000462830	processed_transcript	PUTATIVE	None	8761	None	None	167414795	167415743	-1	CCM3	TFAR15
3	PDCD10	ENSG00000114209	ENST00000464360	protein_coding	KNOWN	None	8761	237	78	167414828	167452620	-1	CCM3	TFAR15
3	PDCD10	ENSG00000114209	ENST00000481136	retained_intron	KNOWN	None	8761	None	None	167422346	167452717	-1	CCM3	TFAR15
3	PDCD10	ENSG00000114209	ENST00000487678	processed_transcript	PUTATIVE	None	8761	None	None	167437993	167448764	-1	CCM3	TFAR15
7	WDR91	ENSG00000105875	ENST00000423565	protein_coding	NOVEL	None	24997	2139	712	134868591	134895651	-1	None	HSPC049
7	WDR91	ENSG00000105875	ENST00000354475	protein_coding	KNOWN	CCDS34758	24997	2244	747	134868591	134896286	-1	None	HSPC049
7	WDR91	ENSG00000105875	ENST00000466182	retained_intron	KNOWN	None	24997	None	None	134870534	134896286	-1	None	HSPC049
7	WDR91	ENSG00000105875	ENST00000497853	retained_intron	KNOWN	None	24997	None	None	134873165	134878421	-1	None	HSPC049
7	WDR91	ENSG00000105875	ENST00000462707	retained_intron	KNOWN	None	24997	None	None	134873202	134878310	-1	None	HSPC049
7	WDR91	ENSG00000105875	ENST00000474411	retained_intron	KNOWN	None	24997	None	None	134877967	134878625	-1	None	HSPC049
7	WDR91	ENSG00000105875	ENST00000479698	retained_intron	KNOWN	None	24997	None	None	134877967	134881069	-1	None	HSPC049
7	WDR91	ENSG00000105875	ENST00000476775	processed_transcript	PUTATIVE	None	24997	None	None	134880972	134882021	-1	None	HSPC049
7	WDR91	ENSG00000105875	ENST00000485942	processed_transcript	KNOWN	None	24997	None	None	134881025	134891900	-1	None	HSPC049
7	WDR91	ENSG00000105875	ENST00000344400	protein_coding	KNOWN	None	24997	1911	636	134868590	134896316	-1	None	HSPC049
4	None	ENSG00000251399	ENST00000513155	lincRNA	KNOWN	None	None	None	None	80517696	80518327	1	None	None
1	SORT1	ENSG00000134243	ENST00000256637	protein_coding	KNOWN	CCDS798	11186	2496	831	109852192	109940573	-1	None	Gp95, NT3
1	SORT1	ENSG00000134243	ENST00000485149	processed_transcript	KNOWN	None	11186	None	None	109856423	109859549	-1	None	Gp95, NT3
1	SORT1	ENSG00000134243	ENST00000466471	retained_intron	KNOWN	None	11186	None	None	109869428	109878924	-1	None	Gp95, NT3
1	SORT1	ENSG00000134243	ENST00000493736	processed_transcript	KNOWN	None	11186	None	None	109893569	109932521	-1	None	Gp95, NT3
1	SORT1	ENSG00000134243	ENST00000482236	processed_transcript	KNOWN	None	11186	None	None	109897107	109935979	-1	None	Gp95, NT3
1	SORT1	ENSG00000134243	ENST00000483508	retained_intron	KNOWN	None	11186	None	None	109909405	109912211	-1	None	Gp95, NT3
1	SORT1	ENSG00000134243	ENST00000495777	processed_transcript	KNOWN	None	11186	None	None	109911100	109912211	-1	None	Gp95, NT3
1	SORT1	ENSG00000134243	ENST00000471996	processed_transcript	KNOWN	None	11186	None	None	109912152	109940483	-1	None	Gp95, NT3
1	SORT1	ENSG00000134243	ENST00000538502	protein_coding	KNOWN	CCDS55618	11186	2085	694	109856527	109935979	-1	None	Gp95, NT3
4	UNC93B8	ENSG00000249272	ENST00000511903	unprocessed_pseudogene	KNOWN	None	44037	None	None	8961354	8965707	1	None	None
17	C17orf103	ENSG00000154035	ENST00000468196	protein_coding	KNOWN	None	30770	258	85	21142188	21156722	-1	None	MGC33894, Gtlf3b
17	C17orf103	ENSG00000154035	ENST00000399011	protein_coding	KNOWN	None	30770	339	112	21142183	21156578	-1	None	MGC33894, Gtlf3b
16	MT4	ENSG00000102891	ENST00000219162	protein_coding	KNOWN	CCDS42165	18705	189	62	56598961	56602869	1	None	MTIV
4	None	ENSG00000250804	ENST00000504939	unprocessed_pseudogene	KNOWN	None	None	None	None	8983162	8984086	1	None	None
4	None	ENSG00000249347	ENST00000510116	processed_pseudogene	KNOWN	None	None	None	None	8992181	8992532	1	None	None
17	ASIC2	ENSG00000108684	ENST00000225823	protein_coding	KNOWN	CCDS11276	99	1692	563	31340105	31620006	-1	ACCN, ACCN1	ASIC2a, BNC1, BNaC1, hBNaC1, MDEG
17	ASIC2	ENSG00000108684	ENST00000359872	protein_coding	KNOWN	CCDS42296	99	1539	512	31340105	32484313	-1	ACCN, ACCN1	ASIC2a, BNC1, BNaC1, hBNaC1, MDEG
17	ASIC2	ENSG00000108684	ENST00000448983	processed_transcript	KNOWN	None	99	None	None	31350883	31618459	-1	ACCN, ACCN1	ASIC2a, BNC1, BNaC1, hBNaC1, MDEG
17	ASIC2	ENSG00000108684	ENST00000579816	processed_transcript	PUTATIVE	None	99	None	None	31438959	31618125	-1	ACCN, ACCN1	ASIC2a, BNC1, BNaC1, hBNaC1, MDEG
17	ASIC2	ENSG00000108684	ENST00000583395	processed_transcript	PUTATIVE	None	99	None	None	32484200	32501983	-1	ACCN, ACCN1	ASIC2a, BNC1, BNaC1, hBNaC1, MDEG
4	None	ENSG00000271057	ENST00000603502	processed_pseudogene	KNOWN	None	None	None	None	9022583	9022887	-1	None	None
HSCHR6_MHC_COX	SLC44A4	ENSG00000231479	ENST00000453831	protein_coding	KNOWN	None	13941	2133	710	31818512	31834328	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_COX	SLC44A4	ENSG00000231479	ENST00000497541	processed_transcript	PUTATIVE	None	13941	None	None	31818897	31820000	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_COX	SLC44A4	ENSG00000231479	ENST00000433046	protein_coding	KNOWN	None	13941	1233	410	31821010	31834294	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_COX	SLC44A4	ENSG00000231479	ENST00000474603	retained_intron	KNOWN	None	13941	None	None	31821379	31826529	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_COX	SLC44A4	ENSG00000231479	ENST00000491622	retained_intron	KNOWN	None	13941	None	None	31824923	31826571	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_COX	SLC44A4	ENSG00000231479	ENST00000495620	processed_transcript	KNOWN	None	13941	None	None	31829852	31834324	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_COX	SLC44A4	ENSG00000231479	ENST00000482758	processed_transcript	KNOWN	None	13941	None	None	31830149	31834324	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_COX	SLC44A4	ENSG00000231479	ENST00000551168	protein_coding	KNOWN	None	13941	2007	668	31818515	31834373	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_COX	SLC44A4	ENSG00000231479	ENST00000546461	protein_coding	KNOWN	None	13941	1905	634	31818515	31832998	-1	C6orf29	NG22, CTL4, FLJ14491
4	None	ENSG00000238726	ENST00000408553	miRNA	NOVEL	None	None	None	None	9025059	9025206	-1	None	None
4	MGARP	ENSG00000137463	ENST00000398955	protein_coding	KNOWN	CCDS43269	29969	723	240	140187317	140201492	-1	C4orf49	OSAP, CESP-1, HUMMR
19	KIR3DX1	ENSG00000104970	ENST00000446586	nonsense_mediated_decay	KNOWN	None	25043	402	133	55043909	55055024	1	LENG12	FLJ00060
19	KIR3DX1	ENSG00000104970	ENST00000447145	nonsense_mediated_decay	KNOWN	None	25043	420	139	55043909	55055024	1	LENG12	FLJ00060
19	KIR3DX1	ENSG00000104970	ENST00000434659	nonsense_mediated_decay	KNOWN	None	25043	402	133	55043909	55055024	1	LENG12	FLJ00060
19	KIR3DX1	ENSG00000104970	ENST00000465702	retained_intron	KNOWN	None	25043	None	None	55043909	55055024	1	LENG12	FLJ00060
19	KIR3DX1	ENSG00000104970	ENST00000471931	retained_intron	KNOWN	None	25043	None	None	55043909	55055024	1	LENG12	FLJ00060
19	KIR3DX1	ENSG00000104970	ENST00000335056	protein_coding	KNOWN	None	25043	1098	365	55043977	55057053	1	LENG12	FLJ00060
19	KIR3DX1	ENSG00000104970	ENST00000221567	nonsense_mediated_decay	KNOWN	None	25043	1059	352	55044008	55054941	1	LENG12	FLJ00060
19	KIR3DX1	ENSG00000104970	ENST00000482404	processed_transcript	KNOWN	None	25043	None	None	55046497	55057022	1	LENG12	FLJ00060
4	None	ENSG00000251313	ENST00000442655	processed_pseudogene	KNOWN	None	None	None	None	9032012	9032792	1	None	None
1	SLC25A34	ENSG00000162461	ENST00000294454	protein_coding	KNOWN	CCDS162	27653	915	304	16062900	16067891	1	None	DKFZp781A10161
1	SLC25A34	ENSG00000162461	ENST00000489568	processed_transcript	KNOWN	None	27653	None	None	16064278	16065830	1	None	DKFZp781A10161
1	SLC25A34	ENSG00000162461	ENST00000465495	processed_transcript	KNOWN	None	27653	None	None	16065530	16066057	1	None	DKFZp781A10161
X	RP2	ENSG00000102218	ENST00000218340	protein_coding	KNOWN	CCDS14270	10274	1053	350	46696375	46741793	1	None	TBCCD2, NME10, NM23-H10
4	None	ENSG00000250342	ENST00000506029	processed_pseudogene	KNOWN	None	None	None	None	9053568	9053777	-1	None	None
4	ENPP7P10	ENSG00000249767	ENST00000504828	unprocessed_pseudogene	KNOWN	None	48693	None	None	9080749	9143334	1	None	None
15	NUTM1	ENSG00000184507	ENST00000537011	protein_coding	PUTATIVE	None	29919	3483	1160	34635516	34649929	1	C15orf55	NUT, DKFZp434O192, FAM22H
15	NUTM1	ENSG00000184507	ENST00000438749	protein_coding	PUTATIVE	None	29919	3453	1150	34635611	34649938	1	C15orf55	NUT, DKFZp434O192, FAM22H
15	NUTM1	ENSG00000184507	ENST00000333756	protein_coding	KNOWN	CCDS32190	29919	3399	1132	34638066	34649933	1	C15orf55	NUT, DKFZp434O192, FAM22H
1	PHACTR4	ENSG00000204138	ENST00000373839	protein_coding	KNOWN	CCDS41293	25793	2109	702	28696114	28826881	1	None	FLJ13171
1	PHACTR4	ENSG00000204138	ENST00000463428	processed_transcript	KNOWN	None	25793	None	None	28696250	28793752	1	None	FLJ13171
1	PHACTR4	ENSG00000204138	ENST00000493669	processed_transcript	KNOWN	None	25793	None	None	28696255	28823668	1	None	FLJ13171
1	PHACTR4	ENSG00000204138	ENST00000373836	protein_coding	KNOWN	CCDS41294	25793	2139	712	28764682	28826820	1	None	FLJ13171
9	FAM221B	ENSG00000204930	ENST00000388950	nonsense_mediated_decay	KNOWN	None	30762	1023	340	35816388	35828744	-1	C9orf128	None
9	FAM221B	ENSG00000204930	ENST00000423537	protein_coding	KNOWN	CCDS43799	30762	1209	402	35817014	35828729	-1	C9orf128	None
9	FAM221B	ENSG00000204930	ENST00000377984	protein_coding	KNOWN	None	30762	904	300	35819341	35828576	-1	C9orf128	None
9	FAM221B	ENSG00000204930	ENST00000472182	protein_coding	KNOWN	None	30762	271	89	35825888	35828729	-1	C9orf128	None
3	CD96	ENSG00000153283	ENST00000460744	protein_coding	KNOWN	None	16892	54	17	111011566	111261149	1	None	TACTILE
3	CD96	ENSG00000153283	ENST00000352690	protein_coding	KNOWN	CCDS2958	16892	1710	569	111260856	111371219	1	None	TACTILE
3	CD96	ENSG00000153283	ENST00000283285	protein_coding	KNOWN	CCDS2959	16892	1758	585	111260965	111371088	1	None	TACTILE
3	CD96	ENSG00000153283	ENST00000438817	protein_coding	PUTATIVE	None	16892	1209	402	111260997	111325925	1	None	TACTILE
3	CD96	ENSG00000153283	ENST00000488054	nonsense_mediated_decay	KNOWN	None	16892	357	118	111261031	111296387	1	None	TACTILE
3	CD96	ENSG00000153283	ENST00000494798	nonsense_mediated_decay	KNOWN	None	16892	1707	568	111261040	111384597	1	None	TACTILE
3	CD96	ENSG00000153283	ENST00000465428	protein_coding	PUTATIVE	None	16892	439	145	111286428	111298306	1	None	TACTILE
16	C16orf93	ENSG00000196118	ENST00000544613	protein_coding	PUTATIVE	None	28078	275	90	30768744	30771740	-1	None	MGC104706
16	C16orf93	ENSG00000196118	ENST00000546006	retained_intron	KNOWN	None	28078	None	None	30768744	30773486	-1	None	MGC104706
16	C16orf93	ENSG00000196118	ENST00000544643	retained_intron	KNOWN	None	28078	None	None	30768745	30773304	-1	None	MGC104706
16	C16orf93	ENSG00000196118	ENST00000535476	protein_coding	PUTATIVE	None	28078	437	144	30768746	30771045	-1	None	MGC104706
16	C16orf93	ENSG00000196118	ENST00000543128	retained_intron	KNOWN	None	28078	None	None	30768752	30773542	-1	None	MGC104706
16	C16orf93	ENSG00000196118	ENST00000537986	retained_intron	KNOWN	None	28078	None	None	30768756	30771880	-1	None	MGC104706
16	C16orf93	ENSG00000196118	ENST00000544487	retained_intron	KNOWN	None	28078	None	None	30768757	30773519	-1	None	MGC104706
16	C16orf93	ENSG00000196118	ENST00000433909	retained_intron	KNOWN	None	28078	None	None	30768788	30773069	-1	None	MGC104706
16	C16orf93	ENSG00000196118	ENST00000541260	protein_coding	NOVEL	None	28078	1191	396	30768788	30773400	-1	None	MGC104706
16	C16orf93	ENSG00000196118	ENST00000543610	protein_coding	KNOWN	CCDS32434	28078	996	331	30768788	30774031	-1	None	MGC104706
16	C16orf93	ENSG00000196118	ENST00000545825	protein_coding	PUTATIVE	CCDS55993	28078	534	177	30771358	30773399	-1	None	MGC104706
16	C16orf93	ENSG00000196118	ENST00000545809	nonsense_mediated_decay	KNOWN	None	28078	216	71	30771614	30773406	-1	None	MGC104706
10	DOCK1	ENSG00000150760	ENST00000280333	protein_coding	KNOWN	None	2987	5598	1865	128593978	129250781	1	None	DOCK180, ced5
10	DOCK1	ENSG00000150760	ENST00000473861	processed_transcript	KNOWN	None	2987	None	None	128908509	128926360	1	None	DOCK180, ced5
10	DOCK1	ENSG00000150760	ENST00000484400	processed_transcript	KNOWN	None	2987	None	None	129046272	129142864	1	None	DOCK180, ced5
10	DOCK1	ENSG00000150760	ENST00000495574	processed_transcript	KNOWN	None	2987	None	None	129046289	129056052	1	None	DOCK180, ced5
10	DOCK1	ENSG00000150760	ENST00000464466	processed_transcript	KNOWN	None	2987	None	None	129046332	129070460	1	None	DOCK180, ced5
20	PCIF1	ENSG00000100982	ENST00000372409	protein_coding	KNOWN	CCDS13388	16200	2115	704	44563267	44576662	1	C20orf67	bA465L10.1
20	PCIF1	ENSG00000100982	ENST00000479348	processed_transcript	KNOWN	None	16200	None	None	44573646	44576662	1	C20orf67	bA465L10.1
12	NR4A1	ENSG00000123358	ENST00000548977	protein_coding	KNOWN	None	7980	357	118	52416616	52448430	1	HMR, GFRP1	TR3, N10, NAK-1, NGFIB, NUR77
12	NR4A1	ENSG00000123358	ENST00000546842	protein_coding	KNOWN	None	7980	908	301	52430961	52448981	1	HMR, GFRP1	TR3, N10, NAK-1, NGFIB, NUR77
12	NR4A1	ENSG00000123358	ENST00000553200	protein_coding	KNOWN	None	7980	236	77	52431026	52439352	1	HMR, GFRP1	TR3, N10, NAK-1, NGFIB, NUR77
12	NR4A1	ENSG00000123358	ENST00000545748	protein_coding	KNOWN	None	7980	1959	652	52431499	52453285	1	HMR, GFRP1	TR3, N10, NAK-1, NGFIB, NUR77
12	NR4A1	ENSG00000123358	ENST00000550082	protein_coding	KNOWN	CCDS55828	7980	1836	611	52435589	52452833	1	HMR, GFRP1	TR3, N10, NAK-1, NGFIB, NUR77
12	NR4A1	ENSG00000123358	ENST00000549102	retained_intron	KNOWN	None	7980	None	None	52437209	52448223	1	HMR, GFRP1	TR3, N10, NAK-1, NGFIB, NUR77
12	NR4A1	ENSG00000123358	ENST00000478250	retained_intron	KNOWN	None	7980	None	None	52437511	52449745	1	HMR, GFRP1	TR3, N10, NAK-1, NGFIB, NUR77
12	NR4A1	ENSG00000123358	ENST00000547206	processed_transcript	PUTATIVE	None	7980	None	None	52437623	52448457	1	HMR, GFRP1	TR3, N10, NAK-1, NGFIB, NUR77
12	NR4A1	ENSG00000123358	ENST00000550763	protein_coding	PUTATIVE	None	7980	445	147	52445226	52449935	1	HMR, GFRP1	TR3, N10, NAK-1, NGFIB, NUR77
12	NR4A1	ENSG00000123358	ENST00000394824	protein_coding	NOVEL	CCDS8818	7980	1797	598	52445226	52453291	1	HMR, GFRP1	TR3, N10, NAK-1, NGFIB, NUR77
12	NR4A1	ENSG00000123358	ENST00000548232	protein_coding	NOVEL	None	7980	978	325	52445232	52449090	1	HMR, GFRP1	TR3, N10, NAK-1, NGFIB, NUR77
12	NR4A1	ENSG00000123358	ENST00000562373	protein_coding	PUTATIVE	None	7980	452	149	52445243	52448666	1	HMR, GFRP1	TR3, N10, NAK-1, NGFIB, NUR77
12	NR4A1	ENSG00000123358	ENST00000548733	processed_transcript	KNOWN	None	7980	None	None	52445247	52451209	1	HMR, GFRP1	TR3, N10, NAK-1, NGFIB, NUR77
12	NR4A1	ENSG00000123358	ENST00000550557	retained_intron	KNOWN	None	7980	None	None	52447202	52453287	1	HMR, GFRP1	TR3, N10, NAK-1, NGFIB, NUR77
12	NR4A1	ENSG00000123358	ENST00000564201	retained_intron	KNOWN	None	7980	None	None	52449505	52450588	1	HMR, GFRP1	TR3, N10, NAK-1, NGFIB, NUR77
12	NR4A1	ENSG00000123358	ENST00000550339	retained_intron	KNOWN	None	7980	None	None	52449806	52450639	1	HMR, GFRP1	TR3, N10, NAK-1, NGFIB, NUR77
12	NR4A1	ENSG00000123358	ENST00000567890	retained_intron	KNOWN	None	7980	None	None	52449929	52450923	1	HMR, GFRP1	TR3, N10, NAK-1, NGFIB, NUR77
12	NR4A1	ENSG00000123358	ENST00000550582	protein_coding	PUTATIVE	None	7980	361	119	52450388	52452487	1	HMR, GFRP1	TR3, N10, NAK-1, NGFIB, NUR77
12	NR4A1	ENSG00000123358	ENST00000565848	retained_intron	KNOWN	None	7980	None	None	52450473	52451255	1	HMR, GFRP1	TR3, N10, NAK-1, NGFIB, NUR77
12	NR4A1	ENSG00000123358	ENST00000360284	protein_coding	KNOWN	CCDS55828	7980	1836	611	52416616	52452833	1	HMR, GFRP1	TR3, N10, NAK-1, NGFIB, NUR77
12	NR4A1	ENSG00000123358	ENST00000243050	protein_coding	KNOWN	CCDS8818	7980	1797	598	52445191	52453285	1	HMR, GFRP1	TR3, N10, NAK-1, NGFIB, NUR77
12	NR4A1	ENSG00000123358	ENST00000394825	protein_coding	KNOWN	CCDS8818	7980	1797	598	52445191	52453285	1	HMR, GFRP1	TR3, N10, NAK-1, NGFIB, NUR77
1	CACNA1E	ENSG00000198216	ENST00000524607	protein_coding	KNOWN	None	1392	1315	437	181382238	181685265	1	CACNL1A6	Cav2.3, BII, CACH6
1	CACNA1E	ENSG00000198216	ENST00000533229	retained_intron	KNOWN	None	1392	None	None	181452447	181621230	1	CACNL1A6	Cav2.3, BII, CACH6
1	CACNA1E	ENSG00000198216	ENST00000367570	protein_coding	KNOWN	CCDS53443	1392	6813	2270	181452716	181770716	1	CACNL1A6	Cav2.3, BII, CACH6
1	CACNA1E	ENSG00000198216	ENST00000526775	protein_coding	KNOWN	CCDS55665	1392	6756	2251	181452716	181777219	1	CACNL1A6	Cav2.3, BII, CACH6
1	CACNA1E	ENSG00000198216	ENST00000360108	protein_coding	NOVEL	None	1392	6885	2294	181452874	181768048	1	CACNL1A6	Cav2.3, BII, CACH6
1	CACNA1E	ENSG00000198216	ENST00000367573	protein_coding	KNOWN	CCDS55664	1392	6942	2313	181452881	181768095	1	CACNL1A6	Cav2.3, BII, CACH6
1	CACNA1E	ENSG00000198216	ENST00000357570	protein_coding	KNOWN	None	1392	6795	2264	181452716	181770711	1	CACNL1A6	Cav2.3, BII, CACH6
1	CACNA1E	ENSG00000198216	ENST00000358338	protein_coding	KNOWN	None	1392	6609	2202	181452716	181770711	1	CACNL1A6	Cav2.3, BII, CACH6
1	CACNA1E	ENSG00000198216	ENST00000367567	protein_coding	KNOWN	None	1392	5634	1877	181452716	181770711	1	CACNL1A6	Cav2.3, BII, CACH6
1	TMEM82	ENSG00000162460	ENST00000375782	protein_coding	KNOWN	CCDS30608	32350	1032	343	16068917	16074477	1	None	None
1	TMEM82	ENSG00000162460	ENST00000465575	processed_transcript	KNOWN	None	32350	None	None	16069042	16071075	1	None	None
HSCHR6_MHC_MANN	PSMB9	ENSG00000239836	ENST00000420182	protein_coding	KNOWN	None	9546	591	196	32965712	32981162	1	LMP2	RING12, beta1i, PSMB6i
HSCHR6_MHC_MANN	PSMB9	ENSG00000239836	ENST00000413480	protein_coding	KNOWN	None	9546	395	130	32966412	32980014	1	LMP2	RING12, beta1i, PSMB6i
HSCHR6_MHC_MANN	PSMB9	ENSG00000239836	ENST00000465469	retained_intron	KNOWN	None	9546	None	None	32975724	32980477	1	LMP2	RING12, beta1i, PSMB6i
HSCHR6_MHC_MANN	PSMB9	ENSG00000239836	ENST00000444284	protein_coding	KNOWN	None	9546	660	219	32975737	32981162	1	LMP2	RING12, beta1i, PSMB6i
HSCHR6_MHC_MANN	PSMB9	ENSG00000239836	ENST00000448066	protein_coding	KNOWN	None	9546	537	178	32975804	33001163	1	LMP2	RING12, beta1i, PSMB6i
HSCHR6_MHC_MANN	PSMB9	ENSG00000239836	ENST00000471670	retained_intron	KNOWN	None	9546	None	None	32977673	32980299	1	LMP2	RING12, beta1i, PSMB6i
HSCHR6_MHC_MANN	PSMB9	ENSG00000239836	ENST00000546747	protein_coding	KNOWN	None	9546	465	154	32975737	32980147	1	LMP2	RING12, beta1i, PSMB6i
11	TP53I11	ENSG00000175274	ENST00000354556	nonsense_mediated_decay	KNOWN	None	16842	711	236	44907454	44972840	-1	None	PIG11
11	TP53I11	ENSG00000175274	ENST00000395648	protein_coding	KNOWN	CCDS7911	16842	570	189	44953899	44972396	-1	None	PIG11
11	TP53I11	ENSG00000175274	ENST00000533940	protein_coding	KNOWN	CCDS7911	16842	570	189	44953907	44971711	-1	None	PIG11
11	TP53I11	ENSG00000175274	ENST00000525680	protein_coding	KNOWN	CCDS7911	16842	570	189	44954587	44972425	-1	None	PIG11
11	TP53I11	ENSG00000175274	ENST00000532253	nonsense_mediated_decay	KNOWN	None	16842	195	64	44955034	44972329	-1	None	PIG11
11	TP53I11	ENSG00000175274	ENST00000524774	retained_intron	KNOWN	None	16842	None	None	44956499	44957607	-1	None	PIG11
11	TP53I11	ENSG00000175274	ENST00000528473	protein_coding	KNOWN	None	16842	474	157	44956531	44972303	-1	None	PIG11
11	TP53I11	ENSG00000175274	ENST00000528290	protein_coding	NOVEL	None	16842	273	90	44957119	44972425	-1	None	PIG11
11	TP53I11	ENSG00000175274	ENST00000533955	processed_transcript	KNOWN	None	16842	None	None	44957129	44972384	-1	None	PIG11
11	TP53I11	ENSG00000175274	ENST00000531130	processed_transcript	KNOWN	None	16842	None	None	44957171	44972396	-1	None	PIG11
11	TP53I11	ENSG00000175274	ENST00000531928	protein_coding	PUTATIVE	None	16842	465	154	44957769	44972417	-1	None	PIG11
11	TP53I11	ENSG00000175274	ENST00000525667	retained_intron	KNOWN	None	16842	None	None	44958007	44958801	-1	None	PIG11
11	TP53I11	ENSG00000175274	ENST00000532921	retained_intron	KNOWN	None	16842	None	None	44958219	44972384	-1	None	PIG11
11	TP53I11	ENSG00000175274	ENST00000525145	nonsense_mediated_decay	KNOWN	None	16842	381	126	44958355	44972388	-1	None	PIG11
11	TP53I11	ENSG00000175274	ENST00000525683	protein_coding	KNOWN	None	16842	294	97	44958394	44964742	-1	None	PIG11
11	TP53I11	ENSG00000175274	ENST00000525138	protein_coding	PUTATIVE	None	16842	371	122	44958401	44968770	-1	None	PIG11
11	TP53I11	ENSG00000175274	ENST00000533443	protein_coding	KNOWN	None	16842	280	92	44958408	44968804	-1	None	PIG11
11	TP53I11	ENSG00000175274	ENST00000530035	protein_coding	KNOWN	None	16842	237	78	44958855	44972445	-1	None	PIG11
11	TP53I11	ENSG00000175274	ENST00000527685	protein_coding	KNOWN	None	16842	220	72	44958872	44972593	-1	None	PIG11
11	TP53I11	ENSG00000175274	ENST00000533937	protein_coding	KNOWN	None	16842	188	61	44959106	44971759	-1	None	PIG11
11	TP53I11	ENSG00000175274	ENST00000308212	protein_coding	KNOWN	CCDS7911	16842	570	189	44953899	44972608	-1	None	PIG11
9	TPRN	ENSG00000176058	ENST00000333046	protein_coding	NOVEL	None	26894	1614	537	140086069	140094557	-1	C9orf75, DFNB79	FLJ90254
9	TPRN	ENSG00000176058	ENST00000409012	protein_coding	KNOWN	CCDS56594	26894	2136	711	140086069	140095250	-1	C9orf75, DFNB79	FLJ90254
9	TPRN	ENSG00000176058	ENST00000477345	retained_intron	KNOWN	None	26894	None	None	140086071	140089589	-1	C9orf75, DFNB79	FLJ90254
9	TPRN	ENSG00000176058	ENST00000541945	processed_transcript	KNOWN	None	26894	None	None	140087104	140098645	-1	C9orf75, DFNB79	FLJ90254
9	TPRN	ENSG00000176058	ENST00000321773	protein_coding	KNOWN	None	26894	2037	678	140086069	140094980	-1	C9orf75, DFNB79	FLJ90254
19	PIN1	ENSG00000127445	ENST00000592184	processed_transcript	KNOWN	None	8988	None	None	9945933	9947401	1	None	dod
19	PIN1	ENSG00000127445	ENST00000587625	protein_coding	PUTATIVE	None	8988	438	145	9945999	9959290	1	None	dod
19	PIN1	ENSG00000127445	ENST00000247970	protein_coding	KNOWN	CCDS12220	8988	492	163	9945999	9960358	1	None	dod
19	PIN1	ENSG00000127445	ENST00000586025	retained_intron	KNOWN	None	8988	None	None	9946007	9960358	1	None	dod
19	PIN1	ENSG00000127445	ENST00000590540	processed_transcript	KNOWN	None	8988	None	None	9946016	9960358	1	None	dod
19	PIN1	ENSG00000127445	ENST00000588695	protein_coding	KNOWN	CCDS12220	8988	492	163	9946017	9960358	1	None	dod
19	PIN1	ENSG00000127445	ENST00000586352	nonsense_mediated_decay	KNOWN	None	8988	152	49	9946022	9960075	1	None	dod
19	PIN1	ENSG00000127445	ENST00000585442	processed_transcript	KNOWN	None	8988	None	None	9946023	9959950	1	None	dod
19	PIN1	ENSG00000127445	ENST00000589058	processed_transcript	KNOWN	None	8988	None	None	9946045	9959890	1	None	dod
19	PIN1	ENSG00000127445	ENST00000380889	processed_transcript	KNOWN	None	8988	None	None	9946119	9960357	1	None	dod
19	PIN1	ENSG00000127445	ENST00000591777	nonsense_mediated_decay	KNOWN	None	8988	271	89	9949275	9960358	1	None	dod
19	ZNF112	ENSG00000062370	ENST00000354340	protein_coding	KNOWN	CCDS12637	12892	2724	907	44830708	44860826	-1	ZFP112, ZNF228	None
19	ZNF112	ENSG00000062370	ENST00000337401	protein_coding	KNOWN	CCDS54276	12892	2742	913	44831096	44860832	-1	ZFP112, ZNF228	None
19	ZNF112	ENSG00000062370	ENST00000587909	protein_coding	PUTATIVE	None	12892	453	150	44833674	44860834	-1	ZFP112, ZNF228	None
19	ZNF112	ENSG00000062370	ENST00000590687	protein_coding	KNOWN	None	12892	449	148	44833861	44871365	-1	ZFP112, ZNF228	None
19	ZNF112	ENSG00000062370	ENST00000592151	nonsense_mediated_decay	KNOWN	None	12892	165	54	44833873	44860826	-1	ZFP112, ZNF228	None
19	ZNF112	ENSG00000062370	ENST00000588057	protein_coding	PUTATIVE	None	12892	438	145	44833941	44871377	-1	ZFP112, ZNF228	None
19	ZNF112	ENSG00000062370	ENST00000536500	protein_coding	KNOWN	None	12892	2793	930	44831325	44871377	-1	ZFP112, ZNF228	None
13	PDX1	ENSG00000139515	ENST00000381033	protein_coding	KNOWN	CCDS9327	6107	852	283	28494157	28500368	1	IPF1	IDX-1, STF-1, PDX-1, MODY4
Y	None	ENSG00000251796	ENST00000515987	snoRNA	NOVEL	None	None	None	None	28393531	28393668	1	None	None
Y	PPP1R12BP1	ENSG00000229238	ENST00000367272	unprocessed_pseudogene	KNOWN	None	18498	None	None	28424070	28500565	-1	PPP1R12BP	PPP1R12BPY1
6	None	ENSG00000224666	ENST00000411643	antisense	KNOWN	None	None	None	None	36354608	36359771	1	None	None
6	RN7SL502P	ENSG00000240733	ENST00000481857	misc_RNA	KNOWN	None	46518	None	None	36418692	36418978	-1	None	None
5	ERAP1	ENSG00000164307	ENST00000296754	protein_coding	KNOWN	CCDS4085	18173	2847	948	96096521	96143803	-1	None	ARTS-1, A-LAP, PILS-AP, KIAA0525, ERAAP1
5	ERAP1	ENSG00000164307	ENST00000443439	protein_coding	KNOWN	CCDS47250	18173	2826	941	96110188	96143612	-1	None	ARTS-1, A-LAP, PILS-AP, KIAA0525, ERAAP1
5	ERAP1	ENSG00000164307	ENST00000512852	protein_coding	PUTATIVE	None	18173	434	143	96111621	96116885	-1	None	ARTS-1, A-LAP, PILS-AP, KIAA0525, ERAAP1
5	ERAP1	ENSG00000164307	ENST00000514604	processed_transcript	KNOWN	None	18173	None	None	96117398	96122464	-1	None	ARTS-1, A-LAP, PILS-AP, KIAA0525, ERAAP1
5	ERAP1	ENSG00000164307	ENST00000507859	retained_intron	KNOWN	None	18173	None	None	96121343	96126329	-1	None	ARTS-1, A-LAP, PILS-AP, KIAA0525, ERAAP1
5	ERAP1	ENSG00000164307	ENST00000503311	retained_intron	KNOWN	None	18173	None	None	96126288	96129374	-1	None	ARTS-1, A-LAP, PILS-AP, KIAA0525, ERAAP1
5	ERAP1	ENSG00000164307	ENST00000503921	protein_coding	PUTATIVE	None	18173	3	0	96132950	96143625	-1	None	ARTS-1, A-LAP, PILS-AP, KIAA0525, ERAAP1
5	ERAP1	ENSG00000164307	ENST00000508227	protein_coding	PUTATIVE	None	18173	27	8	96136637	96143625	-1	None	ARTS-1, A-LAP, PILS-AP, KIAA0525, ERAAP1
5	ERAP1	ENSG00000164307	ENST00000507154	protein_coding	KNOWN	None	18173	387	128	96139243	96143625	-1	None	ARTS-1, A-LAP, PILS-AP, KIAA0525, ERAAP1
X	HSD17B10	ENSG00000072506	ENST00000477706	processed_transcript	KNOWN	None	4800	None	None	53458206	53459270	-1	HADH2, MRXS10	ERAB, MHBD, 17b-HSD10, ABAD, SDR5C1, MRPP2, CAMR
X	HSD17B10	ENSG00000072506	ENST00000375304	protein_coding	KNOWN	CCDS35300	4800	759	252	53458206	53461303	-1	HADH2, MRXS10	ERAB, MHBD, 17b-HSD10, ABAD, SDR5C1, MRPP2, CAMR
X	HSD17B10	ENSG00000072506	ENST00000168216	protein_coding	KNOWN	CCDS14354	4800	786	261	53458206	53461320	-1	HADH2, MRXS10	ERAB, MHBD, 17b-HSD10, ABAD, SDR5C1, MRPP2, CAMR
X	HSD17B10	ENSG00000072506	ENST00000375298	protein_coding	KNOWN	None	4800	510	169	53458211	53461297	-1	HADH2, MRXS10	ERAB, MHBD, 17b-HSD10, ABAD, SDR5C1, MRPP2, CAMR
X	HSD17B10	ENSG00000072506	ENST00000495986	processed_transcript	KNOWN	None	4800	None	None	53458807	53461283	-1	HADH2, MRXS10	ERAB, MHBD, 17b-HSD10, ABAD, SDR5C1, MRPP2, CAMR
6	None	ENSG00000264878	ENST00000583113	miRNA	NOVEL	None	None	None	None	36478294	36478375	-1	None	None
10	KIAA1462	ENSG00000165757	ENST00000375377	protein_coding	KNOWN	CCDS41500	29283	4080	1359	30301729	30348453	-1	None	JCAD
10	KIAA1462	ENSG00000165757	ENST00000464386	processed_transcript	KNOWN	None	29283	None	None	30301732	30302847	-1	None	JCAD
10	KIAA1462	ENSG00000165757	ENST00000465712	processed_transcript	KNOWN	None	29283	None	None	30336461	30404423	-1	None	JCAD
Y	RNU6-1314P	ENSG00000252948	ENST00000517139	snRNA	KNOWN	None	48277	None	None	28507136	28507239	1	None	None
Y	CYCSP48	ENSG00000233843	ENST00000417124	processed_pseudogene	KNOWN	None	23942	None	None	28546758	28547377	1	None	HCP48
14	MMP14	ENSG00000157227	ENST00000311852	protein_coding	KNOWN	CCDS9577	7160	1749	582	23305766	23316970	1	None	MT1-MMP
14	MMP14	ENSG00000157227	ENST00000547074	retained_intron	KNOWN	None	7160	None	None	23305769	23310893	1	None	MT1-MMP
14	MMP14	ENSG00000157227	ENST00000548162	processed_transcript	KNOWN	None	7160	None	None	23305785	23318236	1	None	MT1-MMP
14	MMP14	ENSG00000157227	ENST00000547279	protein_coding	PUTATIVE	None	7160	214	70	23305829	23306495	1	None	MT1-MMP
14	MMP14	ENSG00000157227	ENST00000548761	protein_coding	PUTATIVE	None	7160	582	193	23306521	23311802	1	None	MT1-MMP
14	MMP14	ENSG00000157227	ENST00000547596	retained_intron	KNOWN	None	7160	None	None	23310830	23311677	1	None	MT1-MMP
13	ATP5EP2	ENSG00000180389	ENST00000381026	protein_coding	KNOWN	None	34026	156	51	28519343	28519727	1	None	None
Y	ANKRD36P1	ENSG00000188399	ENST00000344424	unprocessed_pseudogene	KNOWN	None	37759	None	None	28555962	28566682	1	None	None
HSCHR6_MHC_SSTO	PPP1R18	ENSG00000236428	ENST00000435006	protein_coding	KNOWN	None	29413	231	76	30635612	30638612	-1	KIAA1949	phostensin
HSCHR6_MHC_SSTO	PPP1R18	ENSG00000236428	ENST00000455026	protein_coding	KNOWN	None	29413	231	76	30635612	30638612	-1	KIAA1949	phostensin
HSCHR6_MHC_SSTO	PPP1R18	ENSG00000236428	ENST00000487859	processed_transcript	KNOWN	None	29413	None	None	30635612	30638612	-1	KIAA1949	phostensin
HSCHR6_MHC_SSTO	PPP1R18	ENSG00000236428	ENST00000496173	processed_transcript	KNOWN	None	29413	None	None	30635612	30638612	-1	KIAA1949	phostensin
X	APOO	ENSG00000184831	ENST00000379226	protein_coding	KNOWN	CCDS14208	28727	597	198	23851470	23926051	-1	FAM121B	MGC4825, My025
X	APOO	ENSG00000184831	ENST00000476598	processed_transcript	KNOWN	None	28727	None	None	23851477	23858522	-1	FAM121B	MGC4825, My025
X	APOO	ENSG00000184831	ENST00000439528	protein_coding	KNOWN	None	28727	537	178	23851480	23899018	-1	FAM121B	MGC4825, My025
X	APOO	ENSG00000184831	ENST00000490078	nonsense_mediated_decay	KNOWN	None	28727	345	114	23851484	23926020	-1	FAM121B	MGC4825, My025
X	APOO	ENSG00000184831	ENST00000379220	protein_coding	KNOWN	None	28727	540	179	23851481	23926057	-1	FAM121B	MGC4825, My025
HSCHR6_MHC_SSTO	LY6G6C	ENSG00000235925	ENST00000479794	processed_transcript	KNOWN	None	13936	None	None	31676384	31679442	-1	C6orf24	G6c, NG24
HSCHR6_MHC_SSTO	LY6G6C	ENSG00000235925	ENST00000448386	protein_coding	KNOWN	None	13936	378	125	31676384	31679581	-1	C6orf24	G6c, NG24
13	CDX2	ENSG00000165556	ENST00000381020	protein_coding	KNOWN	CCDS9328	1806	942	313	28536274	28545276	-1	CDX3	None
13	CDX2	ENSG00000165556	ENST00000548877	processed_transcript	KNOWN	None	1806	None	None	28537141	28541462	-1	CDX3	None
2	ZEB2	ENSG00000169554	ENST00000558170	protein_coding	KNOWN	CCDS2186	14881	3645	1214	145141648	145278621	-1	ZFHX1B	KIAA0569, SIP-1, SIP1
2	ZEB2	ENSG00000169554	ENST00000409487	protein_coding	KNOWN	CCDS2186	14881	3645	1214	145145568	145275297	-1	ZFHX1B	KIAA0569, SIP-1, SIP1
2	ZEB2	ENSG00000169554	ENST00000419938	protein_coding	PUTATIVE	None	14881	590	195	145145580	145187593	-1	ZFHX1B	KIAA0569, SIP-1, SIP1
2	ZEB2	ENSG00000169554	ENST00000303660	protein_coding	KNOWN	CCDS2186	14881	3645	1214	145145581	145277569	-1	ZFHX1B	KIAA0569, SIP-1, SIP1
2	ZEB2	ENSG00000169554	ENST00000539609	protein_coding	KNOWN	CCDS54403	14881	3573	1190	145145584	145277686	-1	ZFHX1B	KIAA0569, SIP-1, SIP1
2	ZEB2	ENSG00000169554	ENST00000427902	protein_coding	KNOWN	None	14881	2107	701	145156647	145275285	-1	ZFHX1B	KIAA0569, SIP-1, SIP1
2	ZEB2	ENSG00000169554	ENST00000392861	protein_coding	KNOWN	None	14881	1317	438	145157437	145275828	-1	ZFHX1B	KIAA0569, SIP-1, SIP1
2	ZEB2	ENSG00000169554	ENST00000497268	retained_intron	KNOWN	None	14881	None	None	145161562	145162940	-1	ZFHX1B	KIAA0569, SIP-1, SIP1
2	ZEB2	ENSG00000169554	ENST00000440875	protein_coding	NOVEL	None	14881	519	172	145162436	145188137	-1	ZFHX1B	KIAA0569, SIP-1, SIP1
2	ZEB2	ENSG00000169554	ENST00000409211	protein_coding	KNOWN	None	14881	407	134	145182359	145275973	-1	ZFHX1B	KIAA0569, SIP-1, SIP1
2	ZEB2	ENSG00000169554	ENST00000431672	protein_coding	KNOWN	None	14881	382	126	145182384	145275115	-1	ZFHX1B	KIAA0569, SIP-1, SIP1
2	ZEB2	ENSG00000169554	ENST00000472146	retained_intron	KNOWN	None	14881	None	None	145184372	145277686	-1	ZFHX1B	KIAA0569, SIP-1, SIP1
2	ZEB2	ENSG00000169554	ENST00000465308	retained_intron	KNOWN	None	14881	None	None	145185614	145277907	-1	ZFHX1B	KIAA0569, SIP-1, SIP1
2	ZEB2	ENSG00000169554	ENST00000461784	retained_intron	KNOWN	None	14881	None	None	145187123	145275124	-1	ZFHX1B	KIAA0569, SIP-1, SIP1
2	ZEB2	ENSG00000169554	ENST00000560384	retained_intron	KNOWN	None	14881	None	None	145187123	145275257	-1	ZFHX1B	KIAA0569, SIP-1, SIP1
2	ZEB2	ENSG00000169554	ENST00000476394	retained_intron	KNOWN	None	14881	None	None	145187170	145277953	-1	ZFHX1B	KIAA0569, SIP-1, SIP1
2	ZEB2	ENSG00000169554	ENST00000434448	processed_transcript	KNOWN	None	14881	None	None	145187336	145275973	-1	ZFHX1B	KIAA0569, SIP-1, SIP1
2	ZEB2	ENSG00000169554	ENST00000479735	processed_transcript	KNOWN	None	14881	None	None	145187355	145274328	-1	ZFHX1B	KIAA0569, SIP-1, SIP1
2	ZEB2	ENSG00000169554	ENST00000435831	protein_coding	KNOWN	None	14881	274	90	145187393	145275464	-1	ZFHX1B	KIAA0569, SIP-1, SIP1
2	ZEB2	ENSG00000169554	ENST00000453352	processed_transcript	KNOWN	None	14881	None	None	145187393	145277686	-1	ZFHX1B	KIAA0569, SIP-1, SIP1
2	ZEB2	ENSG00000169554	ENST00000444559	protein_coding	KNOWN	None	14881	189	62	145187478	145277966	-1	ZFHX1B	KIAA0569, SIP-1, SIP1
2	ZEB2	ENSG00000169554	ENST00000484313	processed_transcript	KNOWN	None	14881	None	None	145219750	145274986	-1	ZFHX1B	KIAA0569, SIP-1, SIP1
2	ZEB2	ENSG00000169554	ENST00000493689	processed_transcript	KNOWN	None	14881	None	None	145262008	145275572	-1	ZFHX1B	KIAA0569, SIP-1, SIP1
2	ZEB2	ENSG00000169554	ENST00000470879	protein_coding	PUTATIVE	None	14881	177	58	145268956	145275322	-1	ZFHX1B	KIAA0569, SIP-1, SIP1
2	ZEB2	ENSG00000169554	ENST00000465070	protein_coding	PUTATIVE	None	14881	177	58	145268956	145277899	-1	ZFHX1B	KIAA0569, SIP-1, SIP1
2	ZEB2	ENSG00000169554	ENST00000462355	protein_coding	PUTATIVE	None	14881	177	58	145270990	145275216	-1	ZFHX1B	KIAA0569, SIP-1, SIP1
2	ZEB2	ENSG00000169554	ENST00000464380	processed_transcript	KNOWN	None	14881	None	None	145274918	145278216	-1	ZFHX1B	KIAA0569, SIP-1, SIP1
2	ZEB2	ENSG00000169554	ENST00000475115	processed_transcript	KNOWN	None	14881	None	None	145274918	145282147	-1	ZFHX1B	KIAA0569, SIP-1, SIP1
10	RN7SL825P	ENSG00000239731	ENST00000471327	misc_RNA	KNOWN	None	46841	None	None	32281018	32281309	-1	None	None
6	HLA-DMA	ENSG00000204257	ENST00000480785	retained_intron	KNOWN	None	4934	None	None	32916390	32917448	-1	None	D6S222E, RING6
6	HLA-DMA	ENSG00000204257	ENST00000395305	protein_coding	KNOWN	None	4934	501	166	32916390	32920838	-1	None	D6S222E, RING6
6	HLA-DMA	ENSG00000204257	ENST00000395303	protein_coding	KNOWN	None	4934	684	227	32916390	32920885	-1	None	D6S222E, RING6
6	HLA-DMA	ENSG00000204257	ENST00000477541	retained_intron	KNOWN	None	4934	None	None	32916390	32920885	-1	None	D6S222E, RING6
6	HLA-DMA	ENSG00000204257	ENST00000374843	protein_coding	KNOWN	CCDS4761	4934	786	261	32916390	32920899	-1	None	D6S222E, RING6
6	HLA-DMA	ENSG00000204257	ENST00000464392	processed_transcript	KNOWN	None	4934	None	None	32916548	32936221	-1	None	D6S222E, RING6
6	HLA-DMA	ENSG00000204257	ENST00000456800	protein_coding	KNOWN	None	4934	871	289	32917048	32920238	-1	None	D6S222E, RING6
6	HLA-DMA	ENSG00000204257	ENST00000422832	protein_coding	KNOWN	None	4934	507	168	32917434	32936871	-1	None	D6S222E, RING6
6	HLA-DMA	ENSG00000204257	ENST00000475627	retained_intron	KNOWN	None	4934	None	None	32917861	32920811	-1	None	D6S222E, RING6
5	None	ENSG00000249977	ENST00000454801	processed_pseudogene	KNOWN	None	None	None	None	96785062	96785445	-1	None	None
16	None	ENSG00000261564	ENST00000562876	unprocessed_pseudogene	KNOWN	None	None	None	None	1323752	1326523	-1	None	None
10	None	ENSG00000206660	ENST00000383933	misc_RNA	NOVEL	None	None	None	None	32345674	32345767	1	None	None
6	ZBTB2	ENSG00000181472	ENST00000325144	protein_coding	KNOWN	CCDS5231	20868	1545	514	151685252	151712683	-1	None	KIAA1483, ZNF437, bA351K16.2
5	None	ENSG00000250331	ENST00000504012	lincRNA	KNOWN	None	None	None	None	96840400	97006750	1	None	None
17	KRT15	ENSG00000171346	ENST00000254043	protein_coding	KNOWN	CCDS11398	6421	1371	456	39669995	39678665	-1	None	K15, CK15, K1CO
17	KRT15	ENSG00000171346	ENST00000393974	protein_coding	PUTATIVE	None	6421	876	291	39669997	39677271	-1	None	K15, CK15, K1CO
17	KRT15	ENSG00000171346	ENST00000393976	protein_coding	KNOWN	CCDS11398	6421	1371	456	39669998	39677971	-1	None	K15, CK15, K1CO
17	KRT15	ENSG00000171346	ENST00000474031	retained_intron	KNOWN	None	6421	None	None	39669998	39678026	-1	None	K15, CK15, K1CO
17	KRT15	ENSG00000171346	ENST00000586794	retained_intron	KNOWN	None	6421	None	None	39670009	39671006	-1	None	K15, CK15, K1CO
17	KRT15	ENSG00000171346	ENST00000458290	protein_coding	PUTATIVE	None	6421	662	219	39671814	39678781	-1	None	K15, CK15, K1CO
17	KRT15	ENSG00000171346	ENST00000463447	retained_intron	KNOWN	None	6421	None	None	39672137	39678035	-1	None	K15, CK15, K1CO
17	KRT15	ENSG00000171346	ENST00000497016	nonsense_mediated_decay	KNOWN	None	6421	246	81	39672356	39678153	-1	None	K15, CK15, K1CO
17	KRT15	ENSG00000171346	ENST00000470004	nonsense_mediated_decay	KNOWN	None	6421	150	49	39673060	39678071	-1	None	K15, CK15, K1CO
17	KRT15	ENSG00000171346	ENST00000393981	protein_coding	KNOWN	None	6421	756	251	39669998	39674716	-1	None	K15, CK15, K1CO
13	URAD	ENSG00000183463	ENST00000332715	protein_coding	KNOWN	CCDS45020	17785	522	173	28552243	28562774	-1	PRHOXNB	None
HSCHR6_MHC_APD	HCG4	ENSG00000236225	ENST00000425313	unprocessed_pseudogene	KNOWN	None	21241	None	None	29759783	29760757	-1	HCG4P10	HCGIV-10, HCGIV.9
16	None	ENSG00000260991	ENST00000561757	unprocessed_pseudogene	KNOWN	None	None	None	None	1330162	1330545	-1	None	None
4	FAM86KP	ENSG00000163612	ENST00000509817	unprocessed_pseudogene	KNOWN	None	44098	None	None	9155022	9167177	1	None	None
5	None	ENSG00000248931	ENST00000509390	processed_pseudogene	KNOWN	None	None	None	None	97013251	97014385	-1	None	None
9	RALGPS1	ENSG00000136828	ENST00000259351	protein_coding	KNOWN	CCDS35143	16851	1674	557	129677053	129985443	1	None	RALGPS1A, RALGEF2, KIAA0351
9	RALGPS1	ENSG00000136828	ENST00000394022	protein_coding	KNOWN	None	16851	1155	384	129677065	129946615	1	None	RALGPS1A, RALGEF2, KIAA0351
9	RALGPS1	ENSG00000136828	ENST00000373439	retained_intron	KNOWN	None	16851	None	None	129677069	129832279	1	None	RALGPS1A, RALGEF2, KIAA0351
9	RALGPS1	ENSG00000136828	ENST00000394011	protein_coding	KNOWN	None	16851	327	108	129677085	129752502	1	None	RALGPS1A, RALGEF2, KIAA0351
9	RALGPS1	ENSG00000136828	ENST00000319107	protein_coding	KNOWN	None	16851	519	172	129677106	129831634	1	None	RALGPS1A, RALGEF2, KIAA0351
9	RALGPS1	ENSG00000136828	ENST00000472427	processed_transcript	KNOWN	None	16851	None	None	129677111	129779240	1	None	RALGPS1A, RALGEF2, KIAA0351
9	RALGPS1	ENSG00000136828	ENST00000373436	protein_coding	KNOWN	CCDS55344	16851	918	305	129677130	129940705	1	None	RALGPS1A, RALGEF2, KIAA0351
9	RALGPS1	ENSG00000136828	ENST00000480993	processed_transcript	KNOWN	None	16851	None	None	129677729	129740585	1	None	RALGPS1A, RALGEF2, KIAA0351
9	RALGPS1	ENSG00000136828	ENST00000373434	protein_coding	KNOWN	CCDS55346	16851	1590	529	129724504	129980091	1	None	RALGPS1A, RALGEF2, KIAA0351
9	RALGPS1	ENSG00000136828	ENST00000477700	processed_transcript	KNOWN	None	16851	None	None	129812335	129842132	1	None	RALGPS1A, RALGEF2, KIAA0351
9	RALGPS1	ENSG00000136828	ENST00000467325	processed_transcript	KNOWN	None	16851	None	None	129972782	129975246	1	None	RALGPS1A, RALGEF2, KIAA0351
9	RALGPS1	ENSG00000136828	ENST00000438723	protein_coding	KNOWN	None	16851	461	152	129973024	129985445	1	None	RALGPS1A, RALGEF2, KIAA0351
9	RALGPS1	ENSG00000136828	ENST00000471643	processed_transcript	KNOWN	None	16851	None	None	129974955	129979623	1	None	RALGPS1A, RALGEF2, KIAA0351
9	RALGPS1	ENSG00000136828	ENST00000424082	protein_coding	KNOWN	CCDS55345	16851	1614	537	129677053	129979724	1	None	RALGPS1A, RALGEF2, KIAA0351
12	EPS8	ENSG00000151491	ENST00000543468	nonsense_mediated_decay	KNOWN	None	3420	603	200	15773092	15942304	-1	None	None
12	EPS8	ENSG00000151491	ENST00000543523	protein_coding	KNOWN	CCDS31753	3420	2469	822	15773092	15942322	-1	None	None
12	EPS8	ENSG00000151491	ENST00000281172	protein_coding	KNOWN	CCDS31753	3420	2469	822	15773096	15942510	-1	None	None
12	EPS8	ENSG00000151491	ENST00000543612	protein_coding	KNOWN	CCDS31753	3420	2469	822	15773917	15865927	-1	None	None
12	EPS8	ENSG00000151491	ENST00000540613	protein_coding	PUTATIVE	None	3420	1689	562	15774137	15815626	-1	None	None
12	EPS8	ENSG00000151491	ENST00000542903	protein_coding	PUTATIVE	None	3420	1689	562	15774208	15815208	-1	None	None
12	EPS8	ENSG00000151491	ENST00000545610	retained_intron	KNOWN	None	3420	None	None	15776154	15784696	-1	None	None
12	EPS8	ENSG00000151491	ENST00000541465	retained_intron	KNOWN	None	3420	None	None	15800084	15807364	-1	None	None
12	EPS8	ENSG00000151491	ENST00000535734	retained_intron	KNOWN	None	3420	None	None	15810828	15815049	-1	None	None
12	EPS8	ENSG00000151491	ENST00000546261	nonsense_mediated_decay	KNOWN	None	3420	205	67	15811010	15819439	-1	None	None
12	EPS8	ENSG00000151491	ENST00000508018	retained_intron	KNOWN	None	3420	None	None	15818283	15822401	-1	None	None
12	EPS8	ENSG00000151491	ENST00000536956	nonsense_mediated_decay	KNOWN	None	3420	126	41	15822400	15942334	-1	None	None
12	EPS8	ENSG00000151491	ENST00000546311	protein_coding	KNOWN	None	3420	384	127	15822453	15881199	-1	None	None
12	EPS8	ENSG00000151491	ENST00000535752	protein_coding	KNOWN	None	3420	362	119	15822602	16035263	-1	None	None
12	EPS8	ENSG00000151491	ENST00000543363	protein_coding	KNOWN	None	3420	204	67	15823790	15933661	-1	None	None
12	EPS8	ENSG00000151491	ENST00000536793	protein_coding	KNOWN	None	3420	204	67	15823790	15942322	-1	None	None
12	EPS8	ENSG00000151491	ENST00000544064	protein_coding	KNOWN	None	3420	201	66	15823793	15942315	-1	None	None
HSCHR6_MHC_APD	HLA-P	ENSG00000260538	ENST00000563373	unprocessed_pseudogene	KNOWN	None	21196	None	None	29768235	29770242	1	C6orf101, HLA-90	dJ377H14.3
20	C20orf187	ENSG00000125899	ENST00000378252	protein_coding	KNOWN	None	16180	153	50	11008408	11010014	1	None	dJ727I10.1
20	C20orf187	ENSG00000125899	ENST00000537362	protein_coding	KNOWN	None	16180	126	41	11008811	11008936	1	None	dJ727I10.1
16	TPSP2	ENSG00000260284	ENST00000561760	unprocessed_pseudogene	KNOWN	None	14136	None	None	1336352	1338838	-1	None	Mastin
18	SPIRE1	ENSG00000134278	ENST00000409402	protein_coding	KNOWN	CCDS45829	30622	2271	756	12446511	12658133	-1	None	spir-1, KIAA1135
18	SPIRE1	ENSG00000134278	ENST00000410092	protein_coding	KNOWN	CCDS32790	30622	2229	742	12446512	12658044	-1	None	spir-1, KIAA1135
18	SPIRE1	ENSG00000134278	ENST00000309836	protein_coding	PUTATIVE	None	30622	1638	545	12449503	12656731	-1	None	spir-1, KIAA1135
18	SPIRE1	ENSG00000134278	ENST00000440472	nonsense_mediated_decay	KNOWN	None	30622	1377	458	12449505	12636339	-1	None	spir-1, KIAA1135
18	SPIRE1	ENSG00000134278	ENST00000453447	protein_coding	KNOWN	CCDS45830	30622	1869	622	12449508	12656735	-1	None	spir-1, KIAA1135
18	SPIRE1	ENSG00000134278	ENST00000498803	retained_intron	KNOWN	None	30622	None	None	12449572	12452609	-1	None	spir-1, KIAA1135
18	SPIRE1	ENSG00000134278	ENST00000464481	processed_transcript	KNOWN	None	30622	None	None	12449665	12493148	-1	None	spir-1, KIAA1135
18	SPIRE1	ENSG00000134278	ENST00000592156	nonsense_mediated_decay	KNOWN	None	30622	367	121	12449667	12506518	-1	None	spir-1, KIAA1135
18	SPIRE1	ENSG00000134278	ENST00000588236	retained_intron	KNOWN	None	30622	None	None	12449809	12454505	-1	None	spir-1, KIAA1135
18	SPIRE1	ENSG00000134278	ENST00000487491	processed_transcript	KNOWN	None	30622	None	None	12493138	12516224	-1	None	spir-1, KIAA1135
18	SPIRE1	ENSG00000134278	ENST00000449797	protein_coding	KNOWN	None	30622	593	196	12506495	12653084	-1	None	spir-1, KIAA1135
18	SPIRE1	ENSG00000134278	ENST00000497844	protein_coding	PUTATIVE	None	30622	442	146	12512512	12656727	-1	None	spir-1, KIAA1135
18	SPIRE1	ENSG00000134278	ENST00000462226	protein_coding	KNOWN	None	30622	367	121	12535477	12656719	-1	None	spir-1, KIAA1135
18	SPIRE1	ENSG00000134278	ENST00000383356	protein_coding	KNOWN	None	30622	1377	458	12452394	12657912	-1	None	spir-1, KIAA1135
16	CCDC135	ENSG00000159625	ENST00000569375	protein_coding	KNOWN	None	25289	282	93	57728705	57732840	1	C16orf50	DKFZp434I099, FAP50
16	CCDC135	ENSG00000159625	ENST00000360716	protein_coding	KNOWN	CCDS10787	25289	2625	874	57728712	57765365	1	C16orf50	DKFZp434I099, FAP50
16	CCDC135	ENSG00000159625	ENST00000569167	protein_coding	PUTATIVE	None	25289	159	52	57728713	57735913	1	C16orf50	DKFZp434I099, FAP50
16	CCDC135	ENSG00000159625	ENST00000394337	protein_coding	KNOWN	CCDS10787	25289	2625	874	57728718	57765367	1	C16orf50	DKFZp434I099, FAP50
16	CCDC135	ENSG00000159625	ENST00000563126	protein_coding	NOVEL	None	25289	510	169	57728723	57734179	1	C16orf50	DKFZp434I099, FAP50
16	CCDC135	ENSG00000159625	ENST00000564297	nonsense_mediated_decay	KNOWN	None	25289	213	70	57728729	57735944	1	C16orf50	DKFZp434I099, FAP50
16	CCDC135	ENSG00000159625	ENST00000336825	protein_coding	NOVEL	None	25289	2430	809	57728748	57765366	1	C16orf50	DKFZp434I099, FAP50
16	CCDC135	ENSG00000159625	ENST00000564132	protein_coding	PUTATIVE	None	25289	479	158	57738819	57741773	1	C16orf50	DKFZp434I099, FAP50
16	CCDC135	ENSG00000159625	ENST00000562250	protein_coding	PUTATIVE	None	25289	1283	426	57755604	57765717	1	C16orf50	DKFZp434I099, FAP50
16	CCDC135	ENSG00000159625	ENST00000565609	retained_intron	KNOWN	None	25289	None	None	57759386	57765365	1	C16orf50	DKFZp434I099, FAP50
6	None	ENSG00000269048	ENST00000598601	protein_coding	KNOWN	None	None	405	134	166945369	166947709	1	None	None
1	FBLIM1	ENSG00000162458	ENST00000496928	protein_coding	KNOWN	None	24686	90	29	16083102	16091568	1	None	FBLP-1, CAL, migfilin
1	FBLIM1	ENSG00000162458	ENST00000508310	protein_coding	KNOWN	None	24686	103	33	16083112	16091581	1	None	FBLP-1, CAL, migfilin
1	FBLIM1	ENSG00000162458	ENST00000510393	protein_coding	KNOWN	None	24686	234	77	16083136	16091712	1	None	FBLP-1, CAL, migfilin
1	FBLIM1	ENSG00000162458	ENST00000430076	protein_coding	KNOWN	None	24686	52	16	16083139	16091530	1	None	FBLP-1, CAL, migfilin
1	FBLIM1	ENSG00000162458	ENST00000375771	protein_coding	KNOWN	CCDS163	24686	1122	373	16083154	16113089	1	None	FBLP-1, CAL, migfilin
1	FBLIM1	ENSG00000162458	ENST00000510929	protein_coding	KNOWN	None	24686	44	13	16084441	16091522	1	None	FBLP-1, CAL, migfilin
1	FBLIM1	ENSG00000162458	ENST00000502638	protein_coding	KNOWN	None	24686	93	30	16084442	16091571	1	None	FBLP-1, CAL, migfilin
1	FBLIM1	ENSG00000162458	ENST00000375766	protein_coding	KNOWN	CCDS163	24686	1122	373	16084914	16113089	1	None	FBLP-1, CAL, migfilin
1	FBLIM1	ENSG00000162458	ENST00000483633	protein_coding	KNOWN	None	24686	434	143	16085279	16094054	1	None	FBLP-1, CAL, migfilin
1	FBLIM1	ENSG00000162458	ENST00000502739	protein_coding	KNOWN	None	24686	434	143	16085288	16101126	1	None	FBLP-1, CAL, migfilin
1	FBLIM1	ENSG00000162458	ENST00000431771	protein_coding	KNOWN	None	24686	312	103	16085292	16093932	1	None	FBLP-1, CAL, migfilin
1	FBLIM1	ENSG00000162458	ENST00000441801	protein_coding	KNOWN	CCDS44064	24686	1125	374	16090994	16101737	1	None	FBLP-1, CAL, migfilin
1	FBLIM1	ENSG00000162458	ENST00000332305	protein_coding	KNOWN	CCDS30609	24686	831	276	16091448	16111824	1	None	FBLP-1, CAL, migfilin
1	FBLIM1	ENSG00000162458	ENST00000514156	processed_transcript	KNOWN	None	24686	None	None	16103510	16111180	1	None	FBLP-1, CAL, migfilin
1	FBLIM1	ENSG00000162458	ENST00000509138	processed_transcript	PUTATIVE	None	24686	None	None	16103568	16111333	1	None	FBLP-1, CAL, migfilin
1	FBLIM1	ENSG00000162458	ENST00000400773	protein_coding	KNOWN	CCDS30609	24686	831	276	16085255	16113084	1	None	FBLP-1, CAL, migfilin
5	None	ENSG00000251193	ENST00000506315	processed_pseudogene	KNOWN	None	None	None	None	97073598	97074617	1	None	None
4	ALG1L14P	ENSG00000250268	ENST00000514230	unprocessed_pseudogene	KNOWN	None	44383	None	None	9168023	9171996	-1	None	None
4	ALG1L14P	ENSG00000250268	ENST00000538518	unprocessed_pseudogene	KNOWN	None	44383	None	None	9168023	9170252	-1	None	None
6	None	ENSG00000249141	ENST00000507747	protein_coding	PUTATIVE	None	None	557	184	167271582	167369612	-1	None	None
X	CXorf31	ENSG00000204904	ENST00000377879	protein_coding	KNOWN	None	17986	240	79	46746852	46759138	-1	None	OTTHUMG00000021429
17	HCRT	ENSG00000161610	ENST00000293330	protein_coding	KNOWN	CCDS11421	4847	396	131	40336078	40337470	-1	None	PPOX, OX
HSCHR6_MHC_QBL	NRM	ENSG00000206484	ENST00000491032	processed_transcript	KNOWN	None	8003	None	None	30645360	30647666	-1	None	NRM29
HSCHR6_MHC_QBL	NRM	ENSG00000206484	ENST00000430286	protein_coding	KNOWN	None	8003	787	261	30645360	30648036	-1	None	NRM29
HSCHR6_MHC_QBL	NRM	ENSG00000206484	ENST00000497353	processed_transcript	KNOWN	None	8003	None	None	30645360	30648280	-1	None	NRM29
HSCHR6_MHC_QBL	NRM	ENSG00000206484	ENST00000474673	processed_transcript	KNOWN	None	8003	None	None	30645360	30648287	-1	None	NRM29
HSCHR6_MHC_QBL	NRM	ENSG00000206484	ENST00000383570	protein_coding	KNOWN	None	8003	612	203	30645360	30648289	-1	None	NRM29
HSCHR6_MHC_QBL	NRM	ENSG00000206484	ENST00000477164	processed_transcript	KNOWN	None	8003	None	None	30645360	30648299	-1	None	NRM29
HSCHR6_MHC_QBL	NRM	ENSG00000206484	ENST00000467989	processed_transcript	KNOWN	None	8003	None	None	30645360	30648315	-1	None	NRM29
HSCHR6_MHC_QBL	NRM	ENSG00000206484	ENST00000383571	protein_coding	KNOWN	None	8003	789	262	30645360	30648733	-1	None	NRM29
9	CHCHD2P9	ENSG00000186940	ENST00000461726	processed_pseudogene	KNOWN	None	23676	None	None	82006219	82006674	1	C9orf49, CHCHD9	None
16	UBE2FP2	ENSG00000261199	ENST00000566646	processed_pseudogene	KNOWN	None	44536	None	None	63214514	63214975	-1	None	None
HSCHR6_MHC_MANN	TRIM40	ENSG00000237046	ENST00000434151	protein_coding	KNOWN	None	18736	777	258	30149053	30161680	1	None	RNF35
HSCHR6_MHC_MANN	TRIM40	ENSG00000237046	ENST00000462556	processed_transcript	KNOWN	None	18736	None	None	30149069	30150143	1	None	RNF35
HSCHR6_MHC_MANN	TRIM40	ENSG00000237046	ENST00000421981	protein_coding	KNOWN	None	18736	690	229	30149955	30161680	1	None	RNF35
HSCHR6_MHC_MANN	TRIM40	ENSG00000237046	ENST00000549728	protein_coding	KNOWN	None	18736	777	258	30149678	30161680	1	None	RNF35
X	None	ENSG00000272294	ENST00000607789	lincRNA	KNOWN	None	None	None	None	82766304	82767135	1	None	None
9	None	ENSG00000233086	ENST00000424980	lincRNA	KNOWN	None	None	None	None	82120719	82147257	-1	None	None
9	None	ENSG00000233086	ENST00000413352	lincRNA	KNOWN	None	None	None	None	82131702	82147257	-1	None	None
16	None	ENSG00000260658	ENST00000568932	lincRNA	KNOWN	None	None	None	None	63348168	63651950	-1	None	None
16	None	ENSG00000260658	ENST00000564290	lincRNA	KNOWN	None	None	None	None	63564992	63651950	-1	None	None
16	None	ENSG00000260658	ENST00000563855	lincRNA	KNOWN	None	None	None	None	63565137	63651948	-1	None	None
14	IGHD2-15	ENSG00000211918	ENST00000390578	IG_D_gene	KNOWN	None	5489	31	9	106363815	106363845	-1	None	IGHD215, D2
17	P2RX1	ENSG00000108405	ENST00000572418	retained_intron	KNOWN	None	8533	None	None	3799886	3819746	-1	None	P2X1
17	P2RX1	ENSG00000108405	ENST00000225538	protein_coding	KNOWN	CCDS11040	8533	1200	399	3799886	3819794	-1	None	P2X1
17	P2RX1	ENSG00000108405	ENST00000576764	retained_intron	KNOWN	None	8533	None	None	3807206	3808037	-1	None	P2X1
17	P2RX1	ENSG00000108405	ENST00000571637	nonsense_mediated_decay	KNOWN	None	8533	174	57	3808557	3819770	-1	None	P2X1
14	IGHD1-14	ENSG00000227108	ENST00000451044	IG_D_gene	KNOWN	None	5483	17	4	106366496	106366512	-1	None	IGHD114, DM2
19	DIRAS1	ENSG00000176490	ENST00000323469	protein_coding	KNOWN	CCDS12092	19127	597	198	2714565	2721416	-1	None	Di-Ras1, GBTS1, RIG
19	DIRAS1	ENSG00000176490	ENST00000585334	protein_coding	KNOWN	CCDS12092	19127	597	198	2717130	2717903	-1	None	Di-Ras1, GBTS1, RIG
19	DIRAS1	ENSG00000176490	ENST00000588128	protein_coding	KNOWN	None	19127	408	135	2717397	2721339	-1	None	Di-Ras1, GBTS1, RIG
19	TMEM160	ENSG00000130748	ENST00000253047	protein_coding	KNOWN	CCDS12695	26042	567	188	47549165	47551888	-1	None	FLJ20512
16	RPS15AP34	ENSG00000241808	ENST00000487776	processed_pseudogene	KNOWN	None	35609	None	None	63384667	63385053	-1	None	None
8	NECAB1	ENSG00000123119	ENST00000417640	protein_coding	KNOWN	CCDS47889	20983	1056	351	91803778	91971636	1	EFCBP1	None
8	NECAB1	ENSG00000123119	ENST00000522729	retained_intron	KNOWN	None	20983	None	None	91803969	91837330	1	EFCBP1	None
8	NECAB1	ENSG00000123119	ENST00000523962	retained_intron	KNOWN	None	20983	None	None	91804038	91884707	1	EFCBP1	None
8	NECAB1	ENSG00000123119	ENST00000521954	processed_transcript	KNOWN	None	20983	None	None	91804038	91916149	1	EFCBP1	None
8	NECAB1	ENSG00000123119	ENST00000522820	protein_coding	KNOWN	None	20983	303	100	91952420	91968046	1	EFCBP1	None
8	NECAB1	ENSG00000123119	ENST00000521366	protein_coding	KNOWN	None	20983	303	100	91952750	91970075	1	EFCBP1	None
X	TMEM35	ENSG00000126950	ENST00000372930	protein_coding	KNOWN	CCDS14478	25864	504	167	100333709	100351353	1	None	FLJ14084
X	TMEM35	ENSG00000126950	ENST00000478351	processed_transcript	KNOWN	None	25864	None	None	100336486	100349928	1	None	FLJ14084
20	BTBD3	ENSG00000132640	ENST00000254977	protein_coding	KNOWN	CCDS13114	15854	1386	461	11871371	11907257	1	None	KIAA0952, dJ742J24.1
20	BTBD3	ENSG00000132640	ENST00000399006	protein_coding	KNOWN	CCDS13114	15854	1386	461	11871465	11907257	1	None	KIAA0952, dJ742J24.1
20	BTBD3	ENSG00000132640	ENST00000405977	protein_coding	KNOWN	CCDS13113	15854	1569	522	11871476	11907257	1	None	KIAA0952, dJ742J24.1
20	BTBD3	ENSG00000132640	ENST00000449299	nonsense_mediated_decay	KNOWN	None	15854	153	50	11871518	11903658	1	None	KIAA0952, dJ742J24.1
20	BTBD3	ENSG00000132640	ENST00000450368	protein_coding	KNOWN	None	15854	5	0	11871975	11899111	1	None	KIAA0952, dJ742J24.1
20	BTBD3	ENSG00000132640	ENST00000422390	protein_coding	KNOWN	None	15854	407	134	11873141	11903335	1	None	KIAA0952, dJ742J24.1
20	BTBD3	ENSG00000132640	ENST00000455911	protein_coding	PUTATIVE	None	15854	419	138	11899458	11903497	1	None	KIAA0952, dJ742J24.1
20	BTBD3	ENSG00000132640	ENST00000430557	protein_coding	PUTATIVE	None	15854	299	98	11899499	11903377	1	None	KIAA0952, dJ742J24.1
20	BTBD3	ENSG00000132640	ENST00000488503	processed_transcript	KNOWN	None	15854	None	None	11899925	11903633	1	None	KIAA0952, dJ742J24.1
20	BTBD3	ENSG00000132640	ENST00000471120	processed_transcript	KNOWN	None	15854	None	None	11899925	11903683	1	None	KIAA0952, dJ742J24.1
20	BTBD3	ENSG00000132640	ENST00000473416	processed_transcript	KNOWN	None	15854	None	None	11900189	11903537	1	None	KIAA0952, dJ742J24.1
20	BTBD3	ENSG00000132640	ENST00000473180	processed_transcript	KNOWN	None	15854	None	None	11902214	11903778	1	None	KIAA0952, dJ742J24.1
20	BTBD3	ENSG00000132640	ENST00000378226	protein_coding	KNOWN	CCDS13113	15854	1569	522	11898565	11907243	1	None	KIAA0952, dJ742J24.1
X	PHF16	ENSG00000102221	ENST00000424392	protein_coding	KNOWN	None	22982	560	185	46771711	46887378	1	None	KIAA0215
X	PHF16	ENSG00000102221	ENST00000218343	protein_coding	KNOWN	CCDS14271	22982	2472	823	46771868	46920640	1	None	KIAA0215
X	PHF16	ENSG00000102221	ENST00000455411	protein_coding	KNOWN	None	22982	344	113	46772231	46884185	1	None	KIAA0215
X	PHF16	ENSG00000102221	ENST00000397189	protein_coding	KNOWN	CCDS14271	22982	2472	823	46771736	46920641	1	None	KIAA0215
3	TRA2B	ENSG00000136527	ENST00000453386	protein_coding	KNOWN	CCDS33905	10781	867	288	185633694	185655924	-1	SFRS10	Htra2-beta
3	TRA2B	ENSG00000136527	ENST00000492417	retained_intron	KNOWN	None	10781	None	None	185634532	185646861	-1	SFRS10	Htra2-beta
3	TRA2B	ENSG00000136527	ENST00000463328	retained_intron	KNOWN	None	10781	None	None	185634537	185643052	-1	SFRS10	Htra2-beta
3	TRA2B	ENSG00000136527	ENST00000259043	protein_coding	NOVEL	None	10781	383	126	185634943	185641681	-1	SFRS10	Htra2-beta
3	TRA2B	ENSG00000136527	ENST00000414862	protein_coding	NOVEL	None	10781	323	106	185635116	185639895	-1	SFRS10	Htra2-beta
3	TRA2B	ENSG00000136527	ENST00000466832	retained_intron	KNOWN	None	10781	None	None	185635117	185641597	-1	SFRS10	Htra2-beta
3	TRA2B	ENSG00000136527	ENST00000487615	retained_intron	KNOWN	None	10781	None	None	185635117	185655208	-1	SFRS10	Htra2-beta
3	TRA2B	ENSG00000136527	ENST00000456380	nonsense_mediated_decay	KNOWN	None	10781	117	38	185635118	185655817	-1	SFRS10	Htra2-beta
3	TRA2B	ENSG00000136527	ENST00000382191	protein_coding	KNOWN	CCDS58872	10781	567	188	185635503	185655891	-1	SFRS10	Htra2-beta
3	TRA2B	ENSG00000136527	ENST00000465245	processed_transcript	KNOWN	None	10781	None	None	185639831	185655786	-1	SFRS10	Htra2-beta
3	TRA2B	ENSG00000136527	ENST00000485530	retained_intron	KNOWN	None	10781	None	None	185642873	185655775	-1	SFRS10	Htra2-beta
3	TRA2B	ENSG00000136527	ENST00000493864	retained_intron	KNOWN	None	10781	None	None	185643018	185644558	-1	SFRS10	Htra2-beta
3	TRA2B	ENSG00000136527	ENST00000477939	retained_intron	KNOWN	None	10781	None	None	185643061	185649406	-1	SFRS10	Htra2-beta
3	TRA2B	ENSG00000136527	ENST00000471134	processed_transcript	KNOWN	None	10781	None	None	185644515	185654388	-1	SFRS10	Htra2-beta
3	TRA2B	ENSG00000136527	ENST00000480461	retained_intron	KNOWN	None	10781	None	None	185649303	185655812	-1	SFRS10	Htra2-beta
3	TRA2B	ENSG00000136527	ENST00000342294	protein_coding	KNOWN	None	10781	117	38	185649542	185655801	-1	SFRS10	Htra2-beta
12	DCP1B	ENSG00000151065	ENST00000280665	protein_coding	KNOWN	CCDS31727	24451	1854	617	2055220	2113677	-1	None	FLJ31638
12	DCP1B	ENSG00000151065	ENST00000543381	nonsense_mediated_decay	KNOWN	None	24451	360	119	2055318	2113636	-1	None	FLJ31638
12	DCP1B	ENSG00000151065	ENST00000540622	protein_coding	NOVEL	None	24451	1173	390	2059202	2077076	-1	None	FLJ31638
12	DCP1B	ENSG00000151065	ENST00000536665	processed_transcript	KNOWN	None	24451	None	None	2061943	2075307	-1	None	FLJ31638
12	DCP1B	ENSG00000151065	ENST00000541700	processed_transcript	KNOWN	None	24451	None	None	2061943	2113633	-1	None	FLJ31638
12	DCP1B	ENSG00000151065	ENST00000537725	processed_transcript	KNOWN	None	24451	None	None	2070482	2113593	-1	None	FLJ31638
12	DCP1B	ENSG00000151065	ENST00000535873	retained_intron	KNOWN	None	24451	None	None	2101660	2113701	-1	None	FLJ31638
12	DCP1B	ENSG00000151065	ENST00000397173	protein_coding	KNOWN	None	24451	1548	515	2055318	2113636	-1	None	FLJ31638
6	RN7SL748P	ENSG00000239964	ENST00000483066	misc_RNA	KNOWN	None	46764	None	None	36489968	36490275	1	None	None
16	None	ENSG00000261743	ENST00000561595	lincRNA	KNOWN	None	None	None	None	63402748	63403360	1	None	None
HSCHR6_MHC_COX	None	ENSG00000254778	ENST00000467760	nonsense_mediated_decay	KNOWN	None	None	906	301	32070086	32084535	1	None	None
HSCHR6_MHC_COX	None	ENSG00000254778	ENST00000468814	nonsense_mediated_decay	KNOWN	None	None	906	301	32070463	32088232	1	None	None
HSCHR6_MHC_COX	None	ENSG00000254778	ENST00000459973	retained_intron	KNOWN	None	None	None	None	32073356	32080909	1	None	None
HSCHR6_MHC_COX	None	ENSG00000254778	ENST00000460446	nonsense_mediated_decay	KNOWN	None	None	383	126	32073888	32083259	1	None	None
6	MIR3925	ENSG00000263894	ENST00000584674	miRNA	KNOWN	None	38996	None	None	36590213	36590289	-1	None	hsa-mir-3925
3	SLC15A2	ENSG00000163406	ENST00000489711	protein_coding	KNOWN	CCDS3007	10921	2190	729	121612936	121662949	1	None	PEPT2
3	SLC15A2	ENSG00000163406	ENST00000295605	protein_coding	NOVEL	CCDS54631	10921	2097	698	121613287	121660099	1	None	PEPT2
3	SLC15A2	ENSG00000163406	ENST00000469013	protein_coding	PUTATIVE	None	10921	457	151	121614186	121634486	1	None	PEPT2
3	SLC15A2	ENSG00000163406	ENST00000489886	processed_transcript	KNOWN	None	10921	None	None	121633772	121641977	1	None	PEPT2
3	SLC15A2	ENSG00000163406	ENST00000489957	processed_transcript	KNOWN	None	10921	None	None	121646506	121647385	1	None	PEPT2
3	SLC15A2	ENSG00000163406	ENST00000465060	processed_transcript	KNOWN	None	10921	None	None	121647139	121649796	1	None	PEPT2
3	SLC15A2	ENSG00000163406	ENST00000469422	processed_transcript	KNOWN	None	10921	None	None	121658038	121659829	1	None	PEPT2
10	INA	ENSG00000148798	ENST00000369849	protein_coding	KNOWN	CCDS7545	6057	1500	499	105036920	105050108	1	NEF5	NF-66
16	None	ENSG00000259864	ENST00000568231	processed_pseudogene	KNOWN	None	None	None	None	63737387	63737569	1	None	None
6	RNU1-88P	ENSG00000238554	ENST00000459274	snRNA	KNOWN	None	48430	None	None	36607322	36607449	-1	None	None
6	None	ENSG00000251864	ENST00000516055	misc_RNA	NOVEL	None	None	None	None	36640615	36640721	1	None	None
13	FLT3	ENSG00000122025	ENST00000241453	protein_coding	KNOWN	CCDS31953	3765	2982	993	28577411	28674729	-1	None	STK1, FLK2, CD135
13	FLT3	ENSG00000122025	ENST00000380987	nonsense_mediated_decay	KNOWN	None	3765	2220	739	28577751	28674729	-1	None	STK1, FLK2, CD135
13	FLT3	ENSG00000122025	ENST00000469894	processed_transcript	KNOWN	None	3765	None	None	28578084	28588649	-1	None	STK1, FLK2, CD135
13	FLT3	ENSG00000122025	ENST00000380982	protein_coding	KNOWN	None	3765	2991	996	28577414	28674729	-1	None	STK1, FLK2, CD135
13	FLT3	ENSG00000122025	ENST00000537084	protein_coding	KNOWN	None	3765	2859	952	28577930	28674707	-1	None	STK1, FLK2, CD135
X	HCFC1	ENSG00000172534	ENST00000310441	protein_coding	KNOWN	CCDS44020	4839	6108	2035	153213004	153237258	-1	HFC1	HCF-1, HCF1, CFF, VCAF, MGC70925
X	HCFC1	ENSG00000172534	ENST00000444191	protein_coding	NOVEL	None	4839	1834	610	153213008	153219572	-1	HFC1	HCF-1, HCF1, CFF, VCAF, MGC70925
X	HCFC1	ENSG00000172534	ENST00000369984	protein_coding	NOVEL	None	4839	6243	2080	153213010	153236635	-1	HFC1	HCF-1, HCF1, CFF, VCAF, MGC70925
X	HCFC1	ENSG00000172534	ENST00000461098	processed_transcript	KNOWN	None	4839	None	None	153225460	153227718	-1	HFC1	HCF-1, HCF1, CFF, VCAF, MGC70925
X	HCFC1	ENSG00000172534	ENST00000354233	protein_coding	KNOWN	None	4839	5901	1966	153213014	153236819	-1	HFC1	HCF-1, HCF1, CFF, VCAF, MGC70925
HSCHR6_MHC_MCF	AGPAT1	ENSG00000235758	ENST00000434614	protein_coding	KNOWN	None	324	852	283	32212421	32217324	-1	None	LPAAT-alpha
HSCHR6_MHC_MCF	AGPAT1	ENSG00000235758	ENST00000452427	protein_coding	KNOWN	None	324	852	283	32212421	32220331	-1	None	LPAAT-alpha
HSCHR6_MHC_MCF	AGPAT1	ENSG00000235758	ENST00000430226	protein_coding	KNOWN	None	324	852	283	32212421	32221289	-1	None	LPAAT-alpha
HSCHR6_MHC_MCF	AGPAT1	ENSG00000235758	ENST00000425572	protein_coding	KNOWN	None	324	852	283	32212421	32221534	-1	None	LPAAT-alpha
HSCHR6_MHC_MCF	AGPAT1	ENSG00000235758	ENST00000490267	processed_transcript	KNOWN	None	324	None	None	32212421	32221551	-1	None	LPAAT-alpha
HSCHR6_MHC_MCF	AGPAT1	ENSG00000235758	ENST00000436149	protein_coding	KNOWN	None	324	852	283	32212421	32221995	-1	None	LPAAT-alpha
HSCHR6_MHC_MCF	AGPAT1	ENSG00000235758	ENST00000448196	protein_coding	KNOWN	None	324	852	283	32212421	32222305	-1	None	LPAAT-alpha
HSCHR6_MHC_MCF	AGPAT1	ENSG00000235758	ENST00000469621	processed_transcript	KNOWN	None	324	None	None	32214374	32220106	-1	None	LPAAT-alpha
11	SCUBE2	ENSG00000175356	ENST00000309263	protein_coding	KNOWN	None	30425	3000	999	9041938	9113148	-1	None	Cegf1, Cegb1, FLJ16792
11	SCUBE2	ENSG00000175356	ENST00000524317	retained_intron	KNOWN	None	30425	None	None	9041992	9048737	-1	None	Cegf1, Cegb1, FLJ16792
11	SCUBE2	ENSG00000175356	ENST00000450649	protein_coding	KNOWN	CCDS53599	30425	2424	807	9042122	9113093	-1	None	Cegf1, Cegb1, FLJ16792
11	SCUBE2	ENSG00000175356	ENST00000520467	protein_coding	NOVEL	CCDS7797	30425	2916	971	9042431	9113146	-1	None	Cegf1, Cegb1, FLJ16792
11	SCUBE2	ENSG00000175356	ENST00000518447	retained_intron	KNOWN	None	30425	None	None	9042437	9043576	-1	None	Cegf1, Cegb1, FLJ16792
11	SCUBE2	ENSG00000175356	ENST00000532532	processed_transcript	PUTATIVE	None	30425	None	None	9044099	9047368	-1	None	Cegf1, Cegb1, FLJ16792
11	SCUBE2	ENSG00000175356	ENST00000528651	protein_coding	PUTATIVE	None	30425	337	111	9045754	9049086	-1	None	Cegf1, Cegb1, FLJ16792
11	SCUBE2	ENSG00000175356	ENST00000519202	protein_coding	PUTATIVE	None	30425	359	118	9047027	9049072	-1	None	Cegf1, Cegb1, FLJ16792
11	SCUBE2	ENSG00000175356	ENST00000519535	retained_intron	KNOWN	None	30425	None	None	9049036	9052807	-1	None	Cegf1, Cegb1, FLJ16792
11	SCUBE2	ENSG00000175356	ENST00000530265	processed_transcript	PUTATIVE	None	30425	None	None	9069620	9071944	-1	None	Cegf1, Cegb1, FLJ16792
11	SCUBE2	ENSG00000175356	ENST00000519788	protein_coding	NOVEL	None	30425	575	190	9074686	9087458	-1	None	Cegf1, Cegb1, FLJ16792
11	SCUBE2	ENSG00000175356	ENST00000531429	protein_coding	NOVEL	None	30425	514	170	9074750	9088297	-1	None	Cegf1, Cegb1, FLJ16792
11	SCUBE2	ENSG00000175356	ENST00000534295	processed_transcript	KNOWN	None	30425	None	None	9101018	9159661	-1	None	Cegf1, Cegb1, FLJ16792
11	SCUBE2	ENSG00000175356	ENST00000457346	protein_coding	KNOWN	None	30425	3087	1028	9041071	9113150	-1	None	Cegf1, Cegb1, FLJ16792
4	TECRP2	ENSG00000248565	ENST00000503270	processed_pseudogene	KNOWN	None	44051	None	None	125384018	125384945	-1	None	None
4	None	ENSG00000261083	ENST00000563724	lincRNA	KNOWN	None	None	None	None	125421097	125479589	-1	None	None
3	ALAS1	ENSG00000023330	ENST00000469224	protein_coding	KNOWN	CCDS2847	396	1923	640	52232102	52248196	1	ALAS3, ALAS	None
3	ALAS1	ENSG00000023330	ENST00000394965	protein_coding	KNOWN	CCDS2847	396	1923	640	52232110	52248343	1	ALAS3, ALAS	None
3	ALAS1	ENSG00000023330	ENST00000310271	protein_coding	KNOWN	CCDS2847	396	1923	640	52232148	52248340	1	ALAS3, ALAS	None
3	ALAS1	ENSG00000023330	ENST00000484952	protein_coding	KNOWN	CCDS2847	396	1923	640	52232160	52248308	1	ALAS3, ALAS	None
3	ALAS1	ENSG00000023330	ENST00000493402	protein_coding	NOVEL	None	396	713	236	52240648	52248241	1	ALAS3, ALAS	None
3	ALAS1	ENSG00000023330	ENST00000459884	protein_coding	PUTATIVE	None	396	350	115	52245468	52246523	1	ALAS3, ALAS	None
20	ZNF335	ENSG00000198026	ENST00000322927	protein_coding	KNOWN	CCDS13389	15807	4029	1342	44577292	44600811	-1	None	bA465L10.2, NIF-1
20	ZNF335	ENSG00000198026	ENST00000475002	processed_transcript	KNOWN	None	15807	None	None	44590145	44593155	-1	None	bA465L10.2, NIF-1
20	ZNF335	ENSG00000198026	ENST00000476822	processed_transcript	KNOWN	None	15807	None	None	44594332	44598864	-1	None	bA465L10.2, NIF-1
20	ZNF335	ENSG00000198026	ENST00000494955	processed_transcript	KNOWN	None	15807	None	None	44595506	44597497	-1	None	bA465L10.2, NIF-1
20	ZNF335	ENSG00000198026	ENST00000426788	protein_coding	KNOWN	None	15807	3564	1187	44577293	44600833	-1	None	bA465L10.2, NIF-1
4	None	ENSG00000201297	ENST00000364427	misc_RNA	NOVEL	None	None	None	None	126283974	126284084	1	None	None
9	None	ENSG00000240979	ENST00000440700	processed_pseudogene	KNOWN	None	None	None	None	82340984	82341236	1	None	None
19	ZC3H4	ENSG00000130749	ENST00000253048	protein_coding	KNOWN	CCDS42582	17808	3912	1303	47567444	47617009	-1	C19orf7	KIAA1064
19	ZC3H4	ENSG00000130749	ENST00000601973	protein_coding	NOVEL	None	17808	2731	909	47567449	47588612	-1	C19orf7	KIAA1064
19	ZC3H4	ENSG00000130749	ENST00000594019	processed_transcript	KNOWN	None	17808	None	None	47568116	47615486	-1	C19orf7	KIAA1064
19	ZC3H4	ENSG00000130749	ENST00000597069	processed_transcript	KNOWN	None	17808	None	None	47593276	47615504	-1	C19orf7	KIAA1064
19	ZC3H4	ENSG00000130749	ENST00000595341	retained_intron	KNOWN	None	17808	None	None	47597006	47597744	-1	C19orf7	KIAA1064
9	None	ENSG00000270691	ENST00000605404	processed_pseudogene	KNOWN	None	None	None	None	82465786	82466413	1	None	None
6	RNASET2	ENSG00000026297	ENST00000366855	protein_coding	PUTATIVE	None	21686	657	218	167342992	167370099	-1	None	RNASE6PL, FLJ10907, bA514O12.3
6	RNASET2	ENSG00000026297	ENST00000508775	protein_coding	KNOWN	CCDS5295	21686	771	256	167342992	167370190	-1	None	RNASE6PL, FLJ10907, bA514O12.3
6	RNASET2	ENSG00000026297	ENST00000421787	nonsense_mediated_decay	KNOWN	None	21686	366	121	167343004	167370031	-1	None	RNASE6PL, FLJ10907, bA514O12.3
6	RNASET2	ENSG00000026297	ENST00000510083	retained_intron	KNOWN	None	21686	None	None	167343006	167346537	-1	None	RNASE6PL, FLJ10907, bA514O12.3
6	RNASET2	ENSG00000026297	ENST00000476238	protein_coding	KNOWN	CCDS5295	21686	771	256	167343028	167370672	-1	None	RNASE6PL, FLJ10907, bA514O12.3
6	RNASET2	ENSG00000026297	ENST00000028008	nonsense_mediated_decay	KNOWN	None	21686	216	71	167343033	167370072	-1	None	RNASE6PL, FLJ10907, bA514O12.3
6	RNASET2	ENSG00000026297	ENST00000478180	protein_coding	KNOWN	None	21686	761	252	167343086	167370629	-1	None	RNASE6PL, FLJ10907, bA514O12.3
6	RNASET2	ENSG00000026297	ENST00000467705	processed_transcript	KNOWN	None	21686	None	None	167343121	167357541	-1	None	RNASE6PL, FLJ10907, bA514O12.3
6	RNASET2	ENSG00000026297	ENST00000499370	retained_intron	KNOWN	None	21686	None	None	167346853	167367068	-1	None	RNASE6PL, FLJ10907, bA514O12.3
6	RNASET2	ENSG00000026297	ENST00000358165	retained_intron	KNOWN	None	21686	None	None	167346863	167370679	-1	None	RNASE6PL, FLJ10907, bA514O12.3
6	RNASET2	ENSG00000026297	ENST00000496851	processed_transcript	KNOWN	None	21686	None	None	167346913	167366022	-1	None	RNASE6PL, FLJ10907, bA514O12.3
6	RNASET2	ENSG00000026297	ENST00000509073	processed_transcript	KNOWN	None	21686	None	None	167347527	167356727	-1	None	RNASE6PL, FLJ10907, bA514O12.3
15	SPATA5L1	ENSG00000171763	ENST00000305560	protein_coding	KNOWN	CCDS10123	28762	2262	753	45694529	45713617	1	None	MGC5347, FLJ12286
15	SPATA5L1	ENSG00000171763	ENST00000559860	protein_coding	PUTATIVE	None	28762	1863	620	45694568	45708103	1	None	MGC5347, FLJ12286
15	SPATA5L1	ENSG00000171763	ENST00000531970	nonsense_mediated_decay	KNOWN	None	28762	1863	620	45694573	45713525	1	None	MGC5347, FLJ12286
15	SPATA5L1	ENSG00000171763	ENST00000525552	nonsense_mediated_decay	KNOWN	None	28762	59	18	45697657	45702689	1	None	MGC5347, FLJ12286
15	SPATA5L1	ENSG00000171763	ENST00000531624	protein_coding	NOVEL	None	28762	776	257	45702571	45713576	1	None	MGC5347, FLJ12286
15	SPATA5L1	ENSG00000171763	ENST00000533199	retained_intron	KNOWN	None	28762	None	None	45709052	45710791	1	None	MGC5347, FLJ12286
15	SPATA5L1	ENSG00000171763	ENST00000533841	processed_transcript	PUTATIVE	None	28762	None	None	45709893	45713535	1	None	MGC5347, FLJ12286
9	NPAP1P6	ENSG00000238002	ENST00000440671	processed_pseudogene	KNOWN	None	45023	None	None	82477934	82481790	1	None	None
9	None	ENSG00000232494	ENST00000448475	lincRNA	KNOWN	None	None	None	None	82489611	82501593	-1	None	None
11	EXPH5	ENSG00000110723	ENST00000265843	protein_coding	KNOWN	CCDS8341	30578	5970	1989	108376158	108464374	-1	None	SLAC2-B
11	EXPH5	ENSG00000110723	ENST00000525344	protein_coding	KNOWN	None	30578	5949	1982	108379676	108464465	-1	None	SLAC2-B
11	EXPH5	ENSG00000110723	ENST00000526312	protein_coding	PUTATIVE	None	30578	5200	1732	108380806	108422932	-1	None	SLAC2-B
11	EXPH5	ENSG00000110723	ENST00000533052	protein_coding	PUTATIVE	None	30578	3576	1191	108382094	108408934	-1	None	SLAC2-B
11	EXPH5	ENSG00000110723	ENST00000524840	processed_transcript	PUTATIVE	None	30578	None	None	108384134	108408914	-1	None	SLAC2-B
11	EXPH5	ENSG00000110723	ENST00000531386	protein_coding	PUTATIVE	None	30578	237	78	108398890	108438853	-1	None	SLAC2-B
11	EXPH5	ENSG00000110723	ENST00000428840	protein_coding	KNOWN	None	30578	5742	1913	108376159	108422932	-1	None	SLAC2-B
11	EXPH5	ENSG00000110723	ENST00000443411	protein_coding	KNOWN	None	30578	5406	1801	108376159	108408934	-1	None	SLAC2-B
9	None	ENSG00000260564	ENST00000565707	lincRNA	KNOWN	None	None	None	None	82503916	82506922	1	None	None
19	MIR5695	ENSG00000266721	ENST00000579717	miRNA	KNOWN	None	43548	None	None	13031134	13031218	1	None	hsa-mir-5695
12	DEPDC4	ENSG00000166153	ENST00000378244	nonsense_mediated_decay	KNOWN	CCDS9075	22952	885	294	100597447	100660857	-1	None	DEP.4, FLJ33505
12	DEPDC4	ENSG00000166153	ENST00000549100	processed_transcript	KNOWN	None	22952	None	None	100631578	100646057	-1	None	DEP.4, FLJ33505
12	DEPDC4	ENSG00000166153	ENST00000547823	processed_transcript	KNOWN	None	22952	None	None	100635513	100646083	-1	None	DEP.4, FLJ33505
12	DEPDC4	ENSG00000166153	ENST00000416321	protein_coding	KNOWN	CCDS9075	22952	885	294	100646041	100660857	-1	None	DEP.4, FLJ33505
12	DEPDC4	ENSG00000166153	ENST00000548313	protein_coding	NOVEL	None	22952	317	104	100646236	100656134	-1	None	DEP.4, FLJ33505
12	DEPDC4	ENSG00000166153	ENST00000550587	protein_coding	PUTATIVE	None	22952	1162	386	100646258	100660857	-1	None	DEP.4, FLJ33505
12	DEPDC4	ENSG00000166153	ENST00000549249	protein_coding	PUTATIVE	None	22952	1000	332	100646258	100660857	-1	None	DEP.4, FLJ33505
12	DEPDC4	ENSG00000166153	ENST00000299185	nonsense_mediated_decay	KNOWN	None	22952	174	57	100646258	100660857	-1	None	DEP.4, FLJ33505
12	DEPDC4	ENSG00000166153	ENST00000549341	nonsense_mediated_decay	KNOWN	None	22952	174	57	100646258	100660857	-1	None	DEP.4, FLJ33505
12	DEPDC4	ENSG00000166153	ENST00000551642	protein_coding	PUTATIVE	None	22952	861	286	100649651	100660833	-1	None	DEP.4, FLJ33505
19	None	ENSG00000266975	ENST00000592636	antisense	KNOWN	None	None	None	None	13041336	13044110	1	None	None
15	TM2D3	ENSG00000184277	ENST00000560883	processed_transcript	KNOWN	None	24128	None	None	102161847	102173900	-1	None	BLP2, FLJ22604
15	TM2D3	ENSG00000184277	ENST00000428002	protein_coding	PUTATIVE	None	24128	552	183	102173180	102192579	-1	None	BLP2, FLJ22604
15	TM2D3	ENSG00000184277	ENST00000559107	protein_coding	PUTATIVE	None	24128	630	209	102173180	102192587	-1	None	BLP2, FLJ22604
15	TM2D3	ENSG00000184277	ENST00000560390	retained_intron	KNOWN	None	24128	None	None	102173460	102176561	-1	None	BLP2, FLJ22604
15	TM2D3	ENSG00000184277	ENST00000558129	protein_coding	PUTATIVE	None	24128	485	160	102176683	102190364	-1	None	BLP2, FLJ22604
15	TM2D3	ENSG00000184277	ENST00000347970	protein_coding	KNOWN	CCDS10392	24128	666	221	102182049	102192594	-1	None	BLP2, FLJ22604
15	TM2D3	ENSG00000184277	ENST00000559891	retained_intron	KNOWN	None	24128	None	None	102182051	102186625	-1	None	BLP2, FLJ22604
15	TM2D3	ENSG00000184277	ENST00000333202	protein_coding	KNOWN	CCDS10393	24128	744	247	102182051	102192570	-1	None	BLP2, FLJ22604
15	TM2D3	ENSG00000184277	ENST00000561373	protein_coding	PUTATIVE	None	24128	549	182	102182054	102190895	-1	None	BLP2, FLJ22604
15	TM2D3	ENSG00000184277	ENST00000560013	nonsense_mediated_decay	KNOWN	None	24128	129	42	102182085	102192594	-1	None	BLP2, FLJ22604
15	TM2D3	ENSG00000184277	ENST00000558677	nonsense_mediated_decay	KNOWN	None	24128	65	20	102185291	102192500	-1	None	BLP2, FLJ22604
15	TM2D3	ENSG00000184277	ENST00000559024	retained_intron	KNOWN	None	24128	None	None	102186588	102192585	-1	None	BLP2, FLJ22604
15	TM2D3	ENSG00000184277	ENST00000560910	retained_intron	KNOWN	None	24128	None	None	102186818	102192584	-1	None	BLP2, FLJ22604
15	TM2D3	ENSG00000184277	ENST00000560212	processed_transcript	PUTATIVE	None	24128	None	None	102190273	102192201	-1	None	BLP2, FLJ22604
15	TM2D3	ENSG00000184277	ENST00000561356	retained_intron	KNOWN	None	24128	None	None	102191219	102192584	-1	None	BLP2, FLJ22604
9	None	ENSG00000230945	ENST00000417801	lincRNA	KNOWN	None	None	None	None	82645494	82649470	1	None	None
19	None	ENSG00000267458	ENST00000589120	antisense	KNOWN	None	None	None	None	13054932	13055301	-1	None	None
9	NPAP1P4	ENSG00000236521	ENST00000443325	processed_pseudogene	KNOWN	None	45021	None	None	82971944	82975253	-1	None	None
9	None	ENSG00000232981	ENST00000427672	unprocessed_pseudogene	KNOWN	None	None	None	None	83178486	83179545	-1	None	None
19	None	ENSG00000222492	ENST00000410560	miRNA	NOVEL	None	None	None	None	13069669	13069761	1	None	None
19	None	ENSG00000267417	ENST00000586630	antisense	KNOWN	None	None	None	None	13124476	13125325	-1	None	None
9	MTND2P9	ENSG00000225901	ENST00000422293	unprocessed_pseudogene	KNOWN	None	42110	None	None	83179947	83180877	-1	None	None
19	None	ENSG00000267610	ENST00000588095	antisense	KNOWN	None	None	None	None	13180610	13182188	-1	None	None
1	RCC1	ENSG00000180198	ENST00000427469	protein_coding	KNOWN	None	1913	690	229	28832502	28862411	1	CHC1	None
1	RCC1	ENSG00000180198	ENST00000434290	protein_coding	PUTATIVE	None	1913	818	271	28832568	28862431	1	CHC1	None
1	RCC1	ENSG00000180198	ENST00000373833	protein_coding	KNOWN	CCDS323	1913	1266	421	28832569	28865812	1	CHC1	None
1	RCC1	ENSG00000180198	ENST00000419074	protein_coding	PUTATIVE	None	1913	817	271	28836589	28862538	1	CHC1	None
1	RCC1	ENSG00000180198	ENST00000373832	protein_coding	KNOWN	CCDS323	1913	1266	421	28844648	28865495	1	CHC1	None
1	RCC1	ENSG00000180198	ENST00000373831	protein_coding	KNOWN	CCDS41295	1913	1359	452	28844769	28864676	1	CHC1	None
1	RCC1	ENSG00000180198	ENST00000411533	protein_coding	NOVEL	None	1913	1117	371	28844778	28863387	1	CHC1	None
1	RCC1	ENSG00000180198	ENST00000486790	protein_coding	PUTATIVE	None	1913	446	147	28845138	28858330	1	CHC1	None
1	RCC1	ENSG00000180198	ENST00000430407	protein_coding	KNOWN	None	1913	849	282	28845207	28862805	1	CHC1	None
1	RCC1	ENSG00000180198	ENST00000429051	processed_transcript	KNOWN	None	1913	None	None	28858447	28862417	1	CHC1	None
1	RCC1	ENSG00000180198	ENST00000478232	retained_intron	KNOWN	None	1913	None	None	28862605	28864410	1	CHC1	None
1	RCC1	ENSG00000180198	ENST00000398958	protein_coding	KNOWN	CCDS323	1913	1266	421	28832455	28865708	1	CHC1	None
19	None	ENSG00000266897	ENST00000591837	lincRNA	KNOWN	None	None	None	None	13242385	13243224	1	None	None
17	MAP2K3	ENSG00000034152	ENST00000395491	nonsense_mediated_decay	KNOWN	None	6843	141	46	21187984	21218525	1	PRKMK3	MEK3, MKK3, MAPKK3
17	MAP2K3	ENSG00000034152	ENST00000342679	protein_coding	KNOWN	CCDS11217	6843	1044	347	21187984	21218552	1	PRKMK3	MEK3, MKK3, MAPKK3
17	MAP2K3	ENSG00000034152	ENST00000534743	processed_transcript	KNOWN	None	6843	None	None	21188022	21195029	1	PRKMK3	MEK3, MKK3, MAPKK3
17	MAP2K3	ENSG00000034152	ENST00000529517	protein_coding	NOVEL	None	6843	303	100	21188022	21199455	1	PRKMK3	MEK3, MKK3, MAPKK3
17	MAP2K3	ENSG00000034152	ENST00000483928	nonsense_mediated_decay	KNOWN	None	6843	141	46	21188023	21201756	1	PRKMK3	MEK3, MKK3, MAPKK3
17	MAP2K3	ENSG00000034152	ENST00000479129	nonsense_mediated_decay	KNOWN	None	6843	141	46	21188023	21203960	1	PRKMK3	MEK3, MKK3, MAPKK3
17	MAP2K3	ENSG00000034152	ENST00000583508	retained_intron	KNOWN	None	6843	None	None	21188023	21204229	1	PRKMK3	MEK3, MKK3, MAPKK3
17	MAP2K3	ENSG00000034152	ENST00000496046	nonsense_mediated_decay	KNOWN	None	6843	522	173	21188134	21218540	1	PRKMK3	MEK3, MKK3, MAPKK3
17	MAP2K3	ENSG00000034152	ENST00000526076	protein_coding	KNOWN	None	6843	481	159	21191348	21206546	1	PRKMK3	MEK3, MKK3, MAPKK3
17	MAP2K3	ENSG00000034152	ENST00000316920	protein_coding	KNOWN	CCDS11218	6843	957	318	21191358	21217622	1	PRKMK3	MEK3, MKK3, MAPKK3
17	MAP2K3	ENSG00000034152	ENST00000477540	retained_intron	KNOWN	None	6843	None	None	21214999	21217744	1	PRKMK3	MEK3, MKK3, MAPKK3
17	MAP2K3	ENSG00000034152	ENST00000527123	protein_coding	PUTATIVE	None	6843	411	136	21215454	21217198	1	PRKMK3	MEK3, MKK3, MAPKK3
17	MAP2K3	ENSG00000034152	ENST00000361818	protein_coding	KNOWN	CCDS11218	6843	957	318	21191348	21218525	1	PRKMK3	MEK3, MKK3, MAPKK3
Y	TPTE2P4	ENSG00000215506	ENST00000258589	unprocessed_pseudogene	KNOWN	None	38077	None	None	28654360	28725837	1	None	None
19	None	ENSG00000267512	ENST00000591825	antisense	KNOWN	None	None	None	None	13250431	13251961	-1	None	None
17	GHDC	ENSG00000167925	ENST00000593209	protein_coding	PUTATIVE	None	24438	1440	479	40340817	40346477	-1	None	LGP1
17	GHDC	ENSG00000167925	ENST00000301671	protein_coding	KNOWN	CCDS11422	24438	1593	530	40341106	40346213	-1	None	LGP1
17	GHDC	ENSG00000167925	ENST00000414034	protein_coding	PUTATIVE	CCDS45682	24438	1425	474	40341106	40346512	-1	None	LGP1
17	GHDC	ENSG00000167925	ENST00000587427	protein_coding	KNOWN	CCDS11422	24438	1593	530	40341107	40346502	-1	None	LGP1
17	GHDC	ENSG00000167925	ENST00000585735	retained_intron	KNOWN	None	24438	None	None	40341961	40343088	-1	None	LGP1
17	GHDC	ENSG00000167925	ENST00000588762	nonsense_mediated_decay	KNOWN	None	24438	339	112	40344563	40346496	-1	None	LGP1
17	GHDC	ENSG00000167925	ENST00000590249	protein_coding	KNOWN	None	24438	438	145	40344710	40346520	-1	None	LGP1
17	GHDC	ENSG00000167925	ENST00000588352	protein_coding	KNOWN	None	24438	391	129	40344757	40346505	-1	None	LGP1
17	GHDC	ENSG00000167925	ENST00000586692	processed_transcript	KNOWN	None	24438	None	None	40344949	40346531	-1	None	LGP1
17	GHDC	ENSG00000167925	ENST00000590520	processed_transcript	KNOWN	None	24438	None	None	40344970	40346326	-1	None	LGP1
17	GHDC	ENSG00000167925	ENST00000585375	retained_intron	KNOWN	None	24438	None	None	40345207	40346512	-1	None	LGP1
17	GHDC	ENSG00000167925	ENST00000428494	protein_coding	KNOWN	CCDS45681	24438	1476	491	40341108	40346255	-1	None	LGP1
17	GHDC	ENSG00000167925	ENST00000436923	protein_coding	KNOWN	CCDS45682	24438	1425	474	40342241	40346255	-1	None	LGP1
Y	CYCSP49	ENSG00000224240	ENST00000420810	processed_pseudogene	KNOWN	None	23943	None	None	28695572	28695890	1	CYCSP54	HCP49
19	None	ENSG00000267598	ENST00000586483	antisense	KNOWN	None	None	None	None	13263885	13264526	-1	None	None
19	None	ENSG00000267598	ENST00000592882	antisense	KNOWN	None	None	None	None	13263910	13265007	-1	None	None
4	None	ENSG00000264372	ENST00000583856	miRNA	NOVEL	None	None	None	None	9169955	9170020	-1	None	None
4	USP17L14P	ENSG00000249482	ENST00000504838	unprocessed_pseudogene	KNOWN	None	44442	None	None	9231367	9232959	1	None	None
Y	SLC25A15P1	ENSG00000227629	ENST00000456738	unprocessed_pseudogene	KNOWN	None	18497	None	None	28732789	28737748	-1	SLC25A15P	SLC25A15PY1
9	LRRC19	ENSG00000184434	ENST00000380055	protein_coding	KNOWN	CCDS6518	23379	1113	370	26993134	27005691	-1	None	FLJ21302
9	LRRC19	ENSG00000184434	ENST00000482770	processed_transcript	KNOWN	None	23379	None	None	26995539	26997767	-1	None	FLJ21302
19	None	ENSG00000213253	ENST00000481802	processed_pseudogene	KNOWN	None	None	None	None	13268773	13269602	-1	None	None
1	PSMA5	ENSG00000143106	ENST00000271308	protein_coding	KNOWN	CCDS799	9534	726	241	109941653	109968973	-1	None	ZETA
1	PSMA5	ENSG00000143106	ENST00000490870	processed_transcript	KNOWN	None	9534	None	None	109944472	109968754	-1	None	ZETA
1	PSMA5	ENSG00000143106	ENST00000477897	processed_transcript	KNOWN	None	9534	None	None	109954492	109954907	-1	None	ZETA
1	PSMA5	ENSG00000143106	ENST00000484563	processed_transcript	KNOWN	None	9534	None	None	109954575	109969049	-1	None	ZETA
1	PSMA5	ENSG00000143106	ENST00000491287	processed_transcript	KNOWN	None	9534	None	None	109957431	109957987	-1	None	ZETA
1	PSMA5	ENSG00000143106	ENST00000538610	protein_coding	KNOWN	CCDS55619	9534	552	183	109944419	109969062	-1	None	ZETA
4	USP17L16P	ENSG00000250231	ENST00000507155	unprocessed_pseudogene	KNOWN	None	44444	None	None	9240856	9242448	1	None	None
4	None	ENSG00000248408	ENST00000506460	lincRNA	KNOWN	None	None	None	None	80584915	80617991	1	None	None
15	NDUFAF1	ENSG00000137806	ENST00000260361	protein_coding	KNOWN	CCDS10075	18828	984	327	41679551	41694642	-1	None	CIA30, CGI-65
15	NDUFAF1	ENSG00000137806	ENST00000559127	nonsense_mediated_decay	KNOWN	None	18828	786	261	41679692	41694657	-1	None	CIA30, CGI-65
15	NDUFAF1	ENSG00000137806	ENST00000560978	protein_coding	KNOWN	None	18828	627	208	41687189	41694717	-1	None	CIA30, CGI-65
15	NDUFAF1	ENSG00000137806	ENST00000558719	protein_coding	KNOWN	None	18828	573	190	41688685	41694640	-1	None	CIA30, CGI-65
4	PCAT4	ENSG00000251321	ENST00000504263	lincRNA	KNOWN	None	24853	None	None	80748625	80784401	1	None	GDEP, PCAN1, PCA4
4	PCAT4	ENSG00000251321	ENST00000514836	lincRNA	KNOWN	None	24853	None	None	80748689	80798924	1	None	GDEP, PCAN1, PCA4
19	None	ENSG00000252177	ENST00000516368	miRNA	NOVEL	None	None	None	None	13486743	13486827	-1	None	None
19	None	ENSG00000267633	ENST00000586894	antisense	KNOWN	None	None	None	None	13882932	13884447	-1	None	None
19	None	ENSG00000267633	ENST00000586297	antisense	KNOWN	None	None	None	None	13883220	13884445	-1	None	None
19	None	ENSG00000267633	ENST00000591826	antisense	KNOWN	None	None	None	None	13883287	13884932	-1	None	None
16	CDIPT	ENSG00000103502	ENST00000219789	protein_coding	KNOWN	CCDS10657	1769	642	213	29869678	29875057	-1	None	PIS1, PIS
16	CDIPT	ENSG00000103502	ENST00000567459	processed_transcript	KNOWN	None	1769	None	None	29869679	29870790	-1	None	PIS1, PIS
16	CDIPT	ENSG00000103502	ENST00000563893	retained_intron	KNOWN	None	1769	None	None	29869679	29874526	-1	None	PIS1, PIS
16	CDIPT	ENSG00000103502	ENST00000561555	protein_coding	PUTATIVE	None	1769	714	237	29869683	29873015	-1	None	PIS1, PIS
16	CDIPT	ENSG00000103502	ENST00000566113	protein_coding	NOVEL	None	1769	507	168	29869693	29874525	-1	None	PIS1, PIS
16	CDIPT	ENSG00000103502	ENST00000569956	protein_coding	KNOWN	CCDS10657	1769	642	213	29869706	29874526	-1	None	PIS1, PIS
16	CDIPT	ENSG00000103502	ENST00000570016	protein_coding	KNOWN	CCDS10657	1769	642	213	29870049	29874526	-1	None	PIS1, PIS
16	CDIPT	ENSG00000103502	ENST00000563415	protein_coding	PUTATIVE	None	1769	474	157	29870056	29874211	-1	None	PIS1, PIS
16	CDIPT	ENSG00000103502	ENST00000564296	nonsense_mediated_decay	KNOWN	None	1769	126	41	29870471	29874597	-1	None	PIS1, PIS
16	CDIPT	ENSG00000103502	ENST00000562041	retained_intron	KNOWN	None	1769	None	None	29870781	29874735	-1	None	PIS1, PIS
10	RPS4XP11	ENSG00000234335	ENST00000446897	processed_pseudogene	KNOWN	None	37013	None	None	32391450	32392221	-1	RPS4P11	None
3	FANCD2OS	ENSG00000163705	ENST00000431315	processed_transcript	KNOWN	None	28623	None	None	10123001	10149768	-1	C3orf24	MGC40179
3	FANCD2OS	ENSG00000163705	ENST00000450616	processed_transcript	KNOWN	None	28623	None	None	10123004	10127512	-1	C3orf24	MGC40179
3	FANCD2OS	ENSG00000163705	ENST00000436517	processed_transcript	KNOWN	None	28623	None	None	10123004	10137031	-1	C3orf24	MGC40179
3	FANCD2OS	ENSG00000163705	ENST00000524279	protein_coding	KNOWN	CCDS2596	28623	534	177	10123004	10149915	-1	C3orf24	MGC40179
3	FANCD2OS	ENSG00000163705	ENST00000453223	protein_coding	PUTATIVE	None	28623	294	97	10144587	10146452	-1	C3orf24	MGC40179
3	FANCD2OS	ENSG00000163705	ENST00000450660	protein_coding	KNOWN	CCDS2596	28623	534	177	10145621	10149907	-1	C3orf24	MGC40179
8	None	ENSG00000253250	ENST00000517562	protein_coding	PUTATIVE	CCDS59105	None	354	117	91970865	91997485	-1	None	None
17	ACOX1	ENSG00000161533	ENST00000293217	protein_coding	KNOWN	CCDS11734	119	1983	660	73937588	73975444	-1	None	PALMCOX
17	ACOX1	ENSG00000161533	ENST00000588968	protein_coding	PUTATIVE	None	119	461	152	73938677	73945613	-1	None	PALMCOX
17	ACOX1	ENSG00000161533	ENST00000587927	protein_coding	KNOWN	None	119	398	131	73938959	73945440	-1	None	PALMCOX
17	ACOX1	ENSG00000161533	ENST00000591963	processed_transcript	KNOWN	None	119	None	None	73938960	73939657	-1	None	PALMCOX
17	ACOX1	ENSG00000161533	ENST00000572047	nonsense_mediated_decay	KNOWN	None	119	216	71	73942545	73975154	-1	None	PALMCOX
17	ACOX1	ENSG00000161533	ENST00000573078	nonsense_mediated_decay	KNOWN	None	119	672	223	73942611	73975209	-1	None	PALMCOX
17	ACOX1	ENSG00000161533	ENST00000301608	protein_coding	KNOWN	CCDS11735	119	1983	660	73942658	73975215	-1	None	PALMCOX
17	ACOX1	ENSG00000161533	ENST00000589744	retained_intron	KNOWN	None	119	None	None	73949330	73951670	-1	None	PALMCOX
17	ACOX1	ENSG00000161533	ENST00000591857	processed_transcript	KNOWN	None	119	None	None	73951942	73975172	-1	None	PALMCOX
17	ACOX1	ENSG00000161533	ENST00000588176	protein_coding	NOVEL	None	119	470	155	73951989	73975258	-1	None	PALMCOX
17	ACOX1	ENSG00000161533	ENST00000589301	nonsense_mediated_decay	KNOWN	None	119	216	71	73953596	73975209	-1	None	PALMCOX
17	ACOX1	ENSG00000161533	ENST00000576743	protein_coding	PUTATIVE	None	119	326	107	73969390	73974774	-1	None	PALMCOX
17	ACOX1	ENSG00000161533	ENST00000592329	retained_intron	KNOWN	None	119	None	None	73974548	73975126	-1	None	PALMCOX
17	ACOX1	ENSG00000161533	ENST00000537812	protein_coding	KNOWN	None	119	1869	622	73937596	73975515	-1	None	PALMCOX
HSCHR6_MHC_SSTO	MDC1	ENSG00000231135	ENST00000435664	protein_coding	KNOWN	None	21163	6270	2089	30659033	30677115	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_SSTO	MDC1	ENSG00000231135	ENST00000489486	retained_intron	KNOWN	None	21163	None	None	30659541	30663307	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_SSTO	MDC1	ENSG00000231135	ENST00000447192	protein_coding	KNOWN	None	21163	916	304	30664674	30671139	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_SSTO	MDC1	ENSG00000231135	ENST00000487918	retained_intron	KNOWN	None	21163	None	None	30664808	30666910	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_SSTO	MDC1	ENSG00000231135	ENST00000467476	processed_transcript	KNOWN	None	21163	None	None	30670697	30671156	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_SSTO	MDC1	ENSG00000231135	ENST00000412395	protein_coding	KNOWN	None	21163	487	161	30673058	30676401	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_SSTO	MDC1	ENSG00000231135	ENST00000416368	protein_coding	KNOWN	None	21163	380	125	30673165	30676673	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_SSTO	MDC1	ENSG00000231135	ENST00000430358	protein_coding	KNOWN	None	21163	340	112	30673205	30676347	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_SSTO	MDC1	ENSG00000231135	ENST00000548433	protein_coding	KNOWN	None	21163	5409	1802	30659034	30676907	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_SSTO	MDC1	ENSG00000231135	ENST00000551740	protein_coding	KNOWN	None	21163	735	244	30659621	30676907	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_SSTO	MDC1	ENSG00000231135	ENST00000546539	protein_coding	KNOWN	None	21163	732	243	30672433	30676907	-1	None	NFBD1, KIAA0170, Em:AB023051.5
1	SPEN	ENSG00000065526	ENST00000375759	protein_coding	KNOWN	CCDS164	17575	10995	3664	16174359	16266955	1	None	KIAA0929, MINT, SHARP, RBM15C
1	SPEN	ENSG00000065526	ENST00000471538	processed_transcript	KNOWN	None	17575	None	None	16199997	16203206	1	None	KIAA0929, MINT, SHARP, RBM15C
1	SPEN	ENSG00000065526	ENST00000438066	protein_coding	KNOWN	None	17575	1120	372	16199997	16237796	1	None	KIAA0929, MINT, SHARP, RBM15C
1	SPEN	ENSG00000065526	ENST00000442985	protein_coding	KNOWN	None	17575	891	296	16203071	16247401	1	None	KIAA0929, MINT, SHARP, RBM15C
1	SPEN	ENSG00000065526	ENST00000487496	processed_transcript	KNOWN	None	17575	None	None	16265078	16266039	1	None	KIAA0929, MINT, SHARP, RBM15C
HSCHR6_MHC_COX	HLA-DOA	ENSG00000232962	ENST00000434335	protein_coding	KNOWN	None	4936	753	250	32894248	32899682	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
HSCHR6_MHC_COX	HLA-DOA	ENSG00000232962	ENST00000487893	processed_transcript	KNOWN	None	4936	None	None	32896677	32897454	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
HSCHR6_MHC_COX	HLA-DOA	ENSG00000232962	ENST00000474803	retained_intron	KNOWN	None	4936	None	None	32896871	32898124	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
HSCHR6_MHC_COX	HLA-DOA	ENSG00000232962	ENST00000466497	processed_transcript	KNOWN	None	4936	None	None	32897515	32898194	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
HSCHR6_MHC_COX	HLA-DOA	ENSG00000232962	ENST00000457663	protein_coding	KNOWN	None	4936	260	85	32897567	32899649	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
HSCHR6_MHC_COX	HLA-DOA	ENSG00000232962	ENST00000490045	processed_transcript	KNOWN	None	4936	None	None	32898131	32899652	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
HSCHR6_MHC_COX	HLA-DOA	ENSG00000232962	ENST00000547284	protein_coding	KNOWN	None	4936	186	61	32896816	32899630	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
4	ATP5I	ENSG00000169020	ENST00000515202	retained_intron	KNOWN	None	846	None	None	666225	667910	-1	None	None
4	ATP5I	ENSG00000169020	ENST00000304312	protein_coding	KNOWN	CCDS3337	846	210	69	666225	668127	-1	None	None
4	ATP5I	ENSG00000169020	ENST00000506525	processed_transcript	KNOWN	None	846	None	None	666227	667610	-1	None	None
4	ATP5I	ENSG00000169020	ENST00000505852	processed_transcript	KNOWN	None	846	None	None	666227	668119	-1	None	None
4	ATP5I	ENSG00000169020	ENST00000515116	retained_intron	KNOWN	None	846	None	None	666283	667312	-1	None	None
16	MT3	ENSG00000087250	ENST00000561640	protein_coding	PUTATIVE	None	7408	342	113	56622986	56624987	1	None	GIF
16	MT3	ENSG00000087250	ENST00000565838	protein_coding	PUTATIVE	None	7408	246	81	56622986	56624990	1	None	GIF
16	MT3	ENSG00000087250	ENST00000200691	protein_coding	KNOWN	CCDS10762	7408	207	68	56623280	56625000	1	None	GIF
16	MT3	ENSG00000087250	ENST00000566451	retained_intron	KNOWN	None	7408	None	None	56623448	56624997	1	None	GIF
16	MT3	ENSG00000087250	ENST00000570176	protein_coding	PUTATIVE	None	7408	279	92	56623452	56624278	1	None	GIF
16	MT3	ENSG00000087250	ENST00000566576	processed_transcript	PUTATIVE	None	7408	None	None	56623457	56625000	1	None	GIF
11	SAAL1	ENSG00000166788	ENST00000532403	processed_transcript	KNOWN	None	25158	None	None	18091482	18102982	-1	None	FLJ41463
11	SAAL1	ENSG00000166788	ENST00000524803	protein_coding	KNOWN	CCDS31439	25158	1425	474	18101839	18127638	-1	None	FLJ41463
11	SAAL1	ENSG00000166788	ENST00000300013	protein_coding	NOVEL	None	25158	1422	473	18101891	18127629	-1	None	FLJ41463
11	SAAL1	ENSG00000166788	ENST00000534721	processed_transcript	KNOWN	None	25158	None	None	18101892	18108507	-1	None	FLJ41463
11	SAAL1	ENSG00000166788	ENST00000530436	protein_coding	PUTATIVE	None	25158	450	149	18101892	18111821	-1	None	FLJ41463
11	SAAL1	ENSG00000166788	ENST00000531751	protein_coding	PUTATIVE	None	25158	795	264	18101892	18113871	-1	None	FLJ41463
11	SAAL1	ENSG00000166788	ENST00000531581	nonsense_mediated_decay	KNOWN	None	25158	1062	353	18101892	18127634	-1	None	FLJ41463
11	SAAL1	ENSG00000166788	ENST00000530237	retained_intron	KNOWN	None	25158	None	None	18101895	18103284	-1	None	FLJ41463
11	SAAL1	ENSG00000166788	ENST00000532452	protein_coding	NOVEL	None	25158	401	132	18101896	18127566	-1	None	FLJ41463
11	SAAL1	ENSG00000166788	ENST00000529318	protein_coding	NOVEL	None	25158	1431	476	18101920	18127634	-1	None	FLJ41463
11	SAAL1	ENSG00000166788	ENST00000531216	retained_intron	KNOWN	None	25158	None	None	18104762	18108753	-1	None	FLJ41463
11	SAAL1	ENSG00000166788	ENST00000533851	processed_transcript	KNOWN	None	25158	None	None	18110899	18127618	-1	None	FLJ41463
11	SAAL1	ENSG00000166788	ENST00000530180	protein_coding	NOVEL	None	25158	629	208	18110985	18127616	-1	None	FLJ41463
11	SAAL1	ENSG00000166788	ENST00000528002	retained_intron	KNOWN	None	25158	None	None	18111043	18112483	-1	None	FLJ41463
11	SAAL1	ENSG00000166788	ENST00000530736	processed_transcript	KNOWN	None	25158	None	None	18115347	18127632	-1	None	FLJ41463
6	LAP3P2	ENSG00000213500	ENST00000454686	processed_pseudogene	KNOWN	None	42365	None	None	36641594	36643047	1	None	None
12	DTX3	ENSG00000178498	ENST00000548804	protein_coding	KNOWN	CCDS41800	24457	1044	347	57998405	58003583	1	None	FLJ34766, RNF154
12	DTX3	ENSG00000178498	ENST00000550596	protein_coding	KNOWN	None	24457	22	6	57998406	58000294	1	None	FLJ34766, RNF154
12	DTX3	ENSG00000178498	ENST00000551835	protein_coding	KNOWN	None	24457	146	47	57998406	58000792	1	None	FLJ34766, RNF154
12	DTX3	ENSG00000178498	ENST00000549583	protein_coding	KNOWN	None	24457	613	203	57998422	58001250	1	None	FLJ34766, RNF154
12	DTX3	ENSG00000178498	ENST00000337737	protein_coding	KNOWN	CCDS41800	24457	1044	347	57998604	58003583	1	None	FLJ34766, RNF154
12	DTX3	ENSG00000178498	ENST00000548198	protein_coding	KNOWN	CCDS41800	24457	1044	347	57998607	58003586	1	None	FLJ34766, RNF154
12	DTX3	ENSG00000178498	ENST00000551632	protein_coding	KNOWN	None	24457	1053	350	57998617	58003587	1	None	FLJ34766, RNF154
12	DTX3	ENSG00000178498	ENST00000548478	protein_coding	PUTATIVE	None	24457	582	193	57998790	58001249	1	None	FLJ34766, RNF154
12	DTX3	ENSG00000178498	ENST00000550300	protein_coding	PUTATIVE	None	24457	519	172	58001283	58002979	1	None	FLJ34766, RNF154
4	None	ENSG00000212620	ENST00000391318	snoRNA	NOVEL	None	None	None	None	80764256	80764382	1	None	None
4	None	ENSG00000236530	ENST00000458289	processed_pseudogene	KNOWN	None	None	None	None	81000686	81002276	1	None	None
2	ACVR2A	ENSG00000121989	ENST00000487959	processed_transcript	KNOWN	None	173	None	None	148602086	148654016	1	ACVR2	ACTRII
2	ACVR2A	ENSG00000121989	ENST00000241416	protein_coding	KNOWN	CCDS33301	173	1542	513	148602086	148688393	1	ACVR2	ACTRII
2	ACVR2A	ENSG00000121989	ENST00000462659	processed_transcript	KNOWN	None	173	None	None	148602093	148657467	1	ACVR2	ACTRII
2	ACVR2A	ENSG00000121989	ENST00000404590	protein_coding	KNOWN	CCDS33301	173	1542	513	148602185	148685498	1	ACVR2	ACTRII
2	ACVR2A	ENSG00000121989	ENST00000465329	retained_intron	KNOWN	None	173	None	None	148602598	148654683	1	ACVR2	ACTRII
2	ACVR2A	ENSG00000121989	ENST00000495775	processed_transcript	KNOWN	None	173	None	None	148683256	148685073	1	ACVR2	ACTRII
2	ACVR2A	ENSG00000121989	ENST00000535787	protein_coding	KNOWN	None	173	1218	405	148602086	148685185	1	ACVR2	ACTRII
HSCHR6_MHC_SSTO	DDAH2	ENSG00000228128	ENST00000446426	protein_coding	KNOWN	None	2716	565	187	31684774	31686613	-1	None	None
HSCHR6_MHC_SSTO	DDAH2	ENSG00000228128	ENST00000479982	retained_intron	KNOWN	None	2716	None	None	31684774	31687243	-1	None	None
HSCHR6_MHC_SSTO	DDAH2	ENSG00000228128	ENST00000427126	protein_coding	KNOWN	None	2716	858	285	31684774	31687528	-1	None	None
HSCHR6_MHC_SSTO	DDAH2	ENSG00000228128	ENST00000473167	processed_transcript	KNOWN	None	2716	None	None	31684774	31687963	-1	None	None
HSCHR6_MHC_SSTO	DDAH2	ENSG00000228128	ENST00000469161	processed_transcript	KNOWN	None	2716	None	None	31684774	31687998	-1	None	None
HSCHR6_MHC_SSTO	DDAH2	ENSG00000228128	ENST00000426149	protein_coding	KNOWN	None	2716	858	285	31684774	31687999	-1	None	None
HSCHR6_MHC_SSTO	DDAH2	ENSG00000228128	ENST00000434464	protein_coding	KNOWN	None	2716	858	285	31684774	31688353	-1	None	None
HSCHR6_MHC_SSTO	DDAH2	ENSG00000228128	ENST00000457271	protein_coding	KNOWN	None	2716	709	235	31685311	31687532	-1	None	None
HSCHR6_MHC_SSTO	DDAH2	ENSG00000228128	ENST00000434279	protein_coding	KNOWN	None	2716	678	225	31685342	31687237	-1	None	None
HSCHR6_MHC_SSTO	DDAH2	ENSG00000228128	ENST00000474516	retained_intron	KNOWN	None	2716	None	None	31685917	31687981	-1	None	None
6	None	ENSG00000220349	ENST00000494644	processed_pseudogene	KNOWN	None	None	None	None	36704827	36705763	1	None	None
15	RTF1	ENSG00000137815	ENST00000558298	processed_transcript	KNOWN	None	28996	None	None	41700606	41745140	1	KIAA0252	None
15	RTF1	ENSG00000137815	ENST00000389629	protein_coding	KNOWN	CCDS32200	28996	2133	710	41709302	41775761	1	KIAA0252	None
15	RTF1	ENSG00000137815	ENST00000462276	processed_transcript	KNOWN	None	28996	None	None	41709330	41745192	1	KIAA0252	None
15	RTF1	ENSG00000137815	ENST00000473214	retained_intron	KNOWN	None	28996	None	None	41766785	41769447	1	KIAA0252	None
15	RTF1	ENSG00000137815	ENST00000560447	protein_coding	PUTATIVE	None	28996	515	170	41766867	41769776	1	KIAA0252	None
15	RTF1	ENSG00000137815	ENST00000558117	retained_intron	KNOWN	None	28996	None	None	41769387	41771141	1	KIAA0252	None
15	RTF1	ENSG00000137815	ENST00000561076	retained_intron	KNOWN	None	28996	None	None	41770683	41772488	1	KIAA0252	None
6	None	ENSG00000232598	ENST00000427609	lincRNA	KNOWN	None	None	None	None	36907847	36912451	-1	None	None
22	RNA5SP494	ENSG00000222585	ENST00000410653	rRNA	KNOWN	None	43394	None	None	26111008	26111136	-1	RN5S494	None
22	None	ENSG00000264925	ENST00000582362	miRNA	NOVEL	None	None	None	None	26279041	26279128	-1	None	None
6	RPL12P2	ENSG00000216412	ENST00000424565	processed_pseudogene	KNOWN	None	16070	None	None	37059090	37059582	1	None	dJ441G21.1
6	RPL12P2	ENSG00000216412	ENST00000406939	processed_pseudogene	KNOWN	None	16070	None	None	37059088	37059582	1	None	dJ441G21.1
22	None	ENSG00000231933	ENST00000600211	antisense	KNOWN	None	None	None	None	26279363	26297017	-1	None	None
22	None	ENSG00000231933	ENST00000453457	antisense	KNOWN	None	None	None	None	26280748	26295787	-1	None	None
22	None	ENSG00000231933	ENST00000597284	antisense	KNOWN	None	None	None	None	26288193	26297000	-1	None	None
22	None	ENSG00000231933	ENST00000595102	antisense	KNOWN	None	None	None	None	26288330	26294965	-1	None	None
22	None	ENSG00000231933	ENST00000593715	antisense	KNOWN	None	None	None	None	26288365	26291562	-1	None	None
22	None	ENSG00000231933	ENST00000594585	antisense	KNOWN	None	None	None	None	26288365	26296589	-1	None	None
22	None	ENSG00000231933	ENST00000597614	antisense	KNOWN	None	None	None	None	26288367	26292768	-1	None	None
22	None	ENSG00000231933	ENST00000599080	antisense	KNOWN	None	None	None	None	26288367	26297034	-1	None	None
22	None	ENSG00000231933	ENST00000597548	antisense	KNOWN	None	None	None	None	26288372	26296597	-1	None	None
22	None	ENSG00000231933	ENST00000596813	antisense	KNOWN	None	None	None	None	26288381	26291610	-1	None	None
22	None	ENSG00000231933	ENST00000594542	antisense	KNOWN	None	None	None	None	26288432	26294883	-1	None	None
22	None	ENSG00000231933	ENST00000600269	antisense	KNOWN	None	None	None	None	26290661	26295787	-1	None	None
22	None	ENSG00000231933	ENST00000599792	antisense	KNOWN	None	None	None	None	26290817	26295794	-1	None	None
22	None	ENSG00000231933	ENST00000594856	antisense	KNOWN	None	None	None	None	26291109	26294719	-1	None	None
22	None	ENSG00000231933	ENST00000600903	antisense	KNOWN	None	None	None	None	26293431	26294600	-1	None	None
22	None	ENSG00000231933	ENST00000595093	antisense	KNOWN	None	None	None	None	26294900	26295794	-1	None	None
6	PNISR	ENSG00000132424	ENST00000369239	protein_coding	KNOWN	CCDS5043	21222	2418	805	99845927	99873184	-1	C6orf111, SFRS18	FLJ14752, bA98I9.2, DKFZp564B0769, SRrp130
6	PNISR	ENSG00000132424	ENST00000481229	processed_transcript	KNOWN	None	21222	None	None	99847851	99850473	-1	C6orf111, SFRS18	FLJ14752, bA98I9.2, DKFZp564B0769, SRrp130
6	PNISR	ENSG00000132424	ENST00000460600	processed_transcript	KNOWN	None	21222	None	None	99849336	99852422	-1	C6orf111, SFRS18	FLJ14752, bA98I9.2, DKFZp564B0769, SRrp130
6	PNISR	ENSG00000132424	ENST00000478777	nonsense_mediated_decay	KNOWN	None	21222	1242	413	99849337	99873184	-1	C6orf111, SFRS18	FLJ14752, bA98I9.2, DKFZp564B0769, SRrp130
6	PNISR	ENSG00000132424	ENST00000476159	processed_transcript	KNOWN	None	21222	None	None	99849338	99854003	-1	C6orf111, SFRS18	FLJ14752, bA98I9.2, DKFZp564B0769, SRrp130
6	PNISR	ENSG00000132424	ENST00000463021	processed_transcript	KNOWN	None	21222	None	None	99856029	99858868	-1	C6orf111, SFRS18	FLJ14752, bA98I9.2, DKFZp564B0769, SRrp130
6	PNISR	ENSG00000132424	ENST00000492294	processed_transcript	KNOWN	None	21222	None	None	99858817	99873151	-1	C6orf111, SFRS18	FLJ14752, bA98I9.2, DKFZp564B0769, SRrp130
6	PNISR	ENSG00000132424	ENST00000498075	processed_transcript	KNOWN	None	21222	None	None	99859612	99873146	-1	C6orf111, SFRS18	FLJ14752, bA98I9.2, DKFZp564B0769, SRrp130
6	PNISR	ENSG00000132424	ENST00000466057	processed_transcript	KNOWN	None	21222	None	None	99859667	99873134	-1	C6orf111, SFRS18	FLJ14752, bA98I9.2, DKFZp564B0769, SRrp130
6	PNISR	ENSG00000132424	ENST00000438806	protein_coding	KNOWN	CCDS5043	21222	2418	805	99847840	99873207	-1	C6orf111, SFRS18	FLJ14752, bA98I9.2, DKFZp564B0769, SRrp130
11	RAB38	ENSG00000123892	ENST00000243662	protein_coding	KNOWN	CCDS8281	9776	636	211	87846410	87908635	-1	None	NY-MEL-1
11	RAB38	ENSG00000123892	ENST00000531138	protein_coding	NOVEL	None	9776	268	88	87846632	87908601	-1	None	NY-MEL-1
11	RAB38	ENSG00000123892	ENST00000526372	protein_coding	PUTATIVE	None	9776	631	209	87846780	87908602	-1	None	NY-MEL-1
12	RAD9B	ENSG00000151164	ENST00000433301	processed_transcript	KNOWN	None	21700	None	None	110939460	110956511	1	None	FLJ40346
12	RAD9B	ENSG00000151164	ENST00000409246	protein_coding	KNOWN	None	21700	1038	345	110940005	110969889	1	None	FLJ40346
12	RAD9B	ENSG00000151164	ENST00000392672	protein_coding	KNOWN	CCDS9148	21700	1290	429	110940044	110969891	1	None	FLJ40346
12	RAD9B	ENSG00000151164	ENST00000409300	protein_coding	PUTATIVE	None	21700	1254	417	110940096	110969889	1	None	FLJ40346
12	RAD9B	ENSG00000151164	ENST00000409425	protein_coding	KNOWN	None	21700	1038	345	110940096	110969891	1	None	FLJ40346
12	RAD9B	ENSG00000151164	ENST00000409778	protein_coding	NOVEL	None	21700	1026	341	110940119	110969809	1	None	FLJ40346
12	RAD9B	ENSG00000151164	ENST00000409461	processed_transcript	KNOWN	None	21700	None	None	110940133	110945946	1	None	FLJ40346
12	RAD9B	ENSG00000151164	ENST00000358071	nonsense_mediated_decay	KNOWN	None	21700	264	87	110940136	110969891	1	None	FLJ40346
12	RAD9B	ENSG00000151164	ENST00000447044	processed_transcript	KNOWN	None	21700	None	None	110940148	110949299	1	None	FLJ40346
10	PPRC1	ENSG00000148840	ENST00000278070	protein_coding	KNOWN	CCDS7529	30025	4995	1664	103892787	103910082	1	None	PRC, KIAA0595, MGC74642
10	PPRC1	ENSG00000148840	ENST00000370012	protein_coding	PUTATIVE	None	30025	1896	631	103901249	103909937	1	None	PRC, KIAA0595, MGC74642
10	PPRC1	ENSG00000148840	ENST00000489648	processed_transcript	KNOWN	None	30025	None	None	103901512	103908977	1	None	PRC, KIAA0595, MGC74642
10	PPRC1	ENSG00000148840	ENST00000462933	processed_transcript	KNOWN	None	30025	None	None	103902712	103904591	1	None	PRC, KIAA0595, MGC74642
10	PPRC1	ENSG00000148840	ENST00000495914	processed_transcript	KNOWN	None	30025	None	None	103908150	103909074	1	None	PRC, KIAA0595, MGC74642
10	PPRC1	ENSG00000148840	ENST00000413464	protein_coding	KNOWN	None	30025	4203	1400	103892797	103909977	1	None	PRC, KIAA0595, MGC74642
X	None	ENSG00000236870	ENST00000422893	processed_pseudogene	KNOWN	None	None	None	None	82814904	82815320	-1	None	None
19	ZSCAN18	ENSG00000121413	ENST00000433686	protein_coding	NOVEL	None	21037	1224	407	58595205	58601328	-1	ZNF447	FLJ12895
19	ZSCAN18	ENSG00000121413	ENST00000240727	protein_coding	KNOWN	CCDS12971	21037	1533	510	58595206	58609577	-1	ZNF447	FLJ12895
19	ZSCAN18	ENSG00000121413	ENST00000598497	retained_intron	KNOWN	None	21037	None	None	58595210	58601965	-1	ZNF447	FLJ12895
19	ZSCAN18	ENSG00000121413	ENST00000596372	retained_intron	KNOWN	None	21037	None	None	58595226	58599394	-1	ZNF447	FLJ12895
19	ZSCAN18	ENSG00000121413	ENST00000601144	protein_coding	KNOWN	CCDS12971	21037	1533	510	58595704	58609730	-1	ZNF447	FLJ12895
19	ZSCAN18	ENSG00000121413	ENST00000421612	protein_coding	KNOWN	CCDS46215	21037	1125	374	58595805	58609595	-1	ZNF447	FLJ12895
19	ZSCAN18	ENSG00000121413	ENST00000600404	protein_coding	KNOWN	CCDS46214	21037	1701	566	58595849	58629793	-1	ZNF447	FLJ12895
19	ZSCAN18	ENSG00000121413	ENST00000600522	protein_coding	PUTATIVE	None	21037	155	50	58597541	58598744	-1	ZNF447	FLJ12895
19	ZSCAN18	ENSG00000121413	ENST00000595784	retained_intron	KNOWN	None	21037	None	None	58597947	58598820	-1	ZNF447	FLJ12895
19	ZSCAN18	ENSG00000121413	ENST00000594191	retained_intron	KNOWN	None	21037	None	None	58598460	58609598	-1	ZNF447	FLJ12895
19	ZSCAN18	ENSG00000121413	ENST00000600318	retained_intron	KNOWN	None	21037	None	None	58599004	58609577	-1	ZNF447	FLJ12895
19	ZSCAN18	ENSG00000121413	ENST00000600897	protein_coding	KNOWN	None	21037	556	184	58600052	58609581	-1	ZNF447	FLJ12895
19	ZSCAN18	ENSG00000121413	ENST00000600845	protein_coding	KNOWN	None	21037	553	183	58600055	58609570	-1	ZNF447	FLJ12895
19	ZSCAN18	ENSG00000121413	ENST00000595721	protein_coding	NOVEL	None	21037	341	112	58601543	58629764	-1	ZNF447	FLJ12895
19	ZSCAN18	ENSG00000121413	ENST00000601063	protein_coding	KNOWN	None	21037	35	10	58601600	58609595	-1	ZNF447	FLJ12895
19	ZSCAN18	ENSG00000121413	ENST00000595944	protein_coding	PUTATIVE	None	21037	120	39	58618983	58629794	-1	ZNF447	FLJ12895
19	ZSCAN18	ENSG00000121413	ENST00000594567	processed_transcript	KNOWN	None	21037	None	None	58620169	58629733	-1	ZNF447	FLJ12895
14	IGHD6-13	ENSG00000211920	ENST00000390580	IG_D_gene	KNOWN	None	5514	21	6	106367000	106367020	-1	None	IGHD613, DN1
X	TERF1P4	ENSG00000215102	ENST00000399580	processed_pseudogene	KNOWN	None	38500	None	None	83003833	83004947	-1	None	None
16	None	ENSG00000261014	ENST00000563061	lincRNA	KNOWN	None	None	None	None	63764181	63788661	1	None	None
16	None	ENSG00000261653	ENST00000568699	lincRNA	KNOWN	None	None	None	None	63969682	63970810	1	None	None
6	GSTA1	ENSG00000243955	ENST00000493331	processed_transcript	KNOWN	None	4626	None	None	52656462	52664095	-1	None	None
6	GSTA1	ENSG00000243955	ENST00000334575	protein_coding	KNOWN	CCDS4945	4626	669	222	52656462	52668708	-1	None	None
6	GSTA1	ENSG00000243955	ENST00000476213	processed_transcript	KNOWN	None	4626	None	None	52658931	52668658	-1	None	None
9	FAM225A	ENSG00000231528	ENST00000453010	lincRNA	KNOWN	None	27855	None	None	115875353	115882126	1	C9orf109, NCRNA00256A, LINC00256A	DKFZp686A0127
9	FAM225A	ENSG00000231528	ENST00000434051	lincRNA	KNOWN	None	27855	None	None	115875353	115882208	1	C9orf109, NCRNA00256A, LINC00256A	DKFZp686A0127
14	IGHD5-12	ENSG00000211921	ENST00000390581	IG_D_gene	KNOWN	None	5508	23	6	106368507	106368529	-1	None	IGHD512, DK1
16	None	ENSG00000260715	ENST00000565257	lincRNA	KNOWN	None	None	None	None	64189073	64190478	1	None	None
18	CXXC1	ENSG00000154832	ENST00000412036	protein_coding	KNOWN	CCDS45866	24343	1983	660	47808713	47814006	-1	None	HsT2645, PCCX1, hCGBP, PHF18, CGBP, SPP1, CFP1, ZCGPC1
18	CXXC1	ENSG00000154832	ENST00000285106	protein_coding	KNOWN	CCDS11945	24343	1971	656	47808713	47814674	-1	None	HsT2645, PCCX1, hCGBP, PHF18, CGBP, SPP1, CFP1, ZCGPC1
18	CXXC1	ENSG00000154832	ENST00000589940	protein_coding	NOVEL	None	24343	1842	613	47808717	47814021	-1	None	HsT2645, PCCX1, hCGBP, PHF18, CGBP, SPP1, CFP1, ZCGPC1
18	CXXC1	ENSG00000154832	ENST00000590901	retained_intron	KNOWN	None	24343	None	None	47808719	47813485	-1	None	HsT2645, PCCX1, hCGBP, PHF18, CGBP, SPP1, CFP1, ZCGPC1
18	CXXC1	ENSG00000154832	ENST00000587342	retained_intron	KNOWN	None	24343	None	None	47808903	47809818	-1	None	HsT2645, PCCX1, hCGBP, PHF18, CGBP, SPP1, CFP1, ZCGPC1
18	CXXC1	ENSG00000154832	ENST00000587170	retained_intron	KNOWN	None	24343	None	None	47808950	47809797	-1	None	HsT2645, PCCX1, hCGBP, PHF18, CGBP, SPP1, CFP1, ZCGPC1
18	CXXC1	ENSG00000154832	ENST00000586144	retained_intron	KNOWN	None	24343	None	None	47809277	47810161	-1	None	HsT2645, PCCX1, hCGBP, PHF18, CGBP, SPP1, CFP1, ZCGPC1
18	CXXC1	ENSG00000154832	ENST00000586568	retained_intron	KNOWN	None	24343	None	None	47809450	47810393	-1	None	HsT2645, PCCX1, hCGBP, PHF18, CGBP, SPP1, CFP1, ZCGPC1
18	CXXC1	ENSG00000154832	ENST00000586502	retained_intron	KNOWN	None	24343	None	None	47809476	47810169	-1	None	HsT2645, PCCX1, hCGBP, PHF18, CGBP, SPP1, CFP1, ZCGPC1
18	CXXC1	ENSG00000154832	ENST00000590234	retained_intron	KNOWN	None	24343	None	None	47810023	47811413	-1	None	HsT2645, PCCX1, hCGBP, PHF18, CGBP, SPP1, CFP1, ZCGPC1
18	CXXC1	ENSG00000154832	ENST00000591190	retained_intron	KNOWN	None	24343	None	None	47810755	47812700	-1	None	HsT2645, PCCX1, hCGBP, PHF18, CGBP, SPP1, CFP1, ZCGPC1
18	CXXC1	ENSG00000154832	ENST00000591474	protein_coding	NOVEL	None	24343	750	249	47810759	47814054	-1	None	HsT2645, PCCX1, hCGBP, PHF18, CGBP, SPP1, CFP1, ZCGPC1
18	CXXC1	ENSG00000154832	ENST00000592078	retained_intron	KNOWN	None	24343	None	None	47810799	47811815	-1	None	HsT2645, PCCX1, hCGBP, PHF18, CGBP, SPP1, CFP1, ZCGPC1
18	CXXC1	ENSG00000154832	ENST00000589548	protein_coding	NOVEL	None	24343	758	251	47811499	47814050	-1	None	HsT2645, PCCX1, hCGBP, PHF18, CGBP, SPP1, CFP1, ZCGPC1
18	CXXC1	ENSG00000154832	ENST00000586837	protein_coding	KNOWN	None	24343	693	230	47811591	47813940	-1	None	HsT2645, PCCX1, hCGBP, PHF18, CGBP, SPP1, CFP1, ZCGPC1
18	CXXC1	ENSG00000154832	ENST00000586365	retained_intron	KNOWN	None	24343	None	None	47812174	47814071	-1	None	HsT2645, PCCX1, hCGBP, PHF18, CGBP, SPP1, CFP1, ZCGPC1
18	CXXC1	ENSG00000154832	ENST00000587396	processed_transcript	KNOWN	None	24343	None	None	47812551	47814049	-1	None	HsT2645, PCCX1, hCGBP, PHF18, CGBP, SPP1, CFP1, ZCGPC1
X	MIR548I4	ENSG00000221494	ENST00000408567	miRNA	KNOWN	None	35355	None	None	83480760	83480836	-1	MIRN548I4	hsa-mir-548i-4
19	OCEL1	ENSG00000099330	ENST00000215061	protein_coding	KNOWN	CCDS12351	26221	795	264	17337013	17340028	1	None	FLJ22709
19	OCEL1	ENSG00000099330	ENST00000602236	processed_transcript	PUTATIVE	None	26221	None	None	17337022	17338008	1	None	FLJ22709
19	OCEL1	ENSG00000099330	ENST00000601576	processed_transcript	KNOWN	None	26221	None	None	17337031	17338752	1	None	FLJ22709
19	OCEL1	ENSG00000099330	ENST00000601529	protein_coding	PUTATIVE	None	26221	498	165	17337034	17340024	1	None	FLJ22709
19	OCEL1	ENSG00000099330	ENST00000599588	retained_intron	KNOWN	None	26221	None	None	17337035	17340022	1	None	FLJ22709
19	OCEL1	ENSG00000099330	ENST00000594283	retained_intron	KNOWN	None	26221	None	None	17337052	17340011	1	None	FLJ22709
19	OCEL1	ENSG00000099330	ENST00000600232	protein_coding	PUTATIVE	None	26221	733	243	17337062	17340028	1	None	FLJ22709
19	OCEL1	ENSG00000099330	ENST00000597836	protein_coding	PUTATIVE	None	26221	627	208	17337424	17339974	1	None	FLJ22709
19	OCEL1	ENSG00000099330	ENST00000598068	protein_coding	PUTATIVE	None	26221	739	245	17337549	17340024	1	None	FLJ22709
19	OCEL1	ENSG00000099330	ENST00000596279	retained_intron	KNOWN	None	26221	None	None	17337591	17339322	1	None	FLJ22709
19	OCEL1	ENSG00000099330	ENST00000598172	nonsense_mediated_decay	KNOWN	None	26221	254	83	17337648	17339514	1	None	FLJ22709
19	OCEL1	ENSG00000099330	ENST00000599286	nonsense_mediated_decay	KNOWN	None	26221	159	52	17337852	17340027	1	None	FLJ22709
19	OCEL1	ENSG00000099330	ENST00000595769	retained_intron	KNOWN	None	26221	None	None	17337967	17339752	1	None	FLJ22709
19	OCEL1	ENSG00000099330	ENST00000595573	protein_coding	PUTATIVE	None	26221	287	94	17339063	17340024	1	None	FLJ22709
19	OCEL1	ENSG00000099330	ENST00000600826	protein_coding	PUTATIVE	None	26221	207	68	17339065	17340024	1	None	FLJ22709
16	None	ENSG00000261028	ENST00000561657	lincRNA	KNOWN	None	None	None	None	64276512	64377813	-1	None	None
X	None	ENSG00000233484	ENST00000447509	transcribed_processed_pseudogene	KNOWN	None	None	None	None	83658906	83659032	-1	None	None
6	None	ENSG00000216523	ENST00000401925	processed_pseudogene	KNOWN	None	None	None	None	85676115	85676343	-1	None	None
1	SYPL2	ENSG00000143028	ENST00000369872	protein_coding	KNOWN	CCDS41365	27638	819	272	110009250	110024759	1	None	Mg29
1	SYPL2	ENSG00000143028	ENST00000475497	processed_transcript	KNOWN	None	27638	None	None	110017864	110019465	1	None	Mg29
1	SYPL2	ENSG00000143028	ENST00000401021	protein_coding	KNOWN	None	27638	627	208	110009180	110022410	1	None	Mg29
5	SNCAIP	ENSG00000064692	ENST00000514467	protein_coding	KNOWN	None	11139	405	134	121647049	121758837	1	None	SYPH1
5	SNCAIP	ENSG00000064692	ENST00000510658	nonsense_mediated_decay	KNOWN	None	11139	201	66	121647386	121799649	1	None	SYPH1
5	SNCAIP	ENSG00000064692	ENST00000506272	protein_coding	PUTATIVE	None	11139	482	159	121647435	121758773	1	None	SYPH1
5	SNCAIP	ENSG00000064692	ENST00000508681	protein_coding	KNOWN	None	11139	295	97	121647455	121758727	1	None	SYPH1
5	SNCAIP	ENSG00000064692	ENST00000509154	protein_coding	NOVEL	None	11139	2574	857	121647464	121787296	1	None	SYPH1
5	SNCAIP	ENSG00000064692	ENST00000261368	protein_coding	KNOWN	CCDS4131	11139	2760	919	121647764	121799914	1	None	SYPH1
5	SNCAIP	ENSG00000064692	ENST00000512385	nonsense_mediated_decay	KNOWN	None	11139	201	66	121647820	121799770	1	None	SYPH1
5	SNCAIP	ENSG00000064692	ENST00000514497	protein_coding	PUTATIVE	None	11139	203	66	121647878	121739492	1	None	SYPH1
5	SNCAIP	ENSG00000064692	ENST00000261367	protein_coding	PUTATIVE	None	11139	3051	1016	121647902	121799777	1	None	SYPH1
5	SNCAIP	ENSG00000064692	ENST00000510003	retained_intron	KNOWN	None	11139	None	None	121647932	121776972	1	None	SYPH1
5	SNCAIP	ENSG00000064692	ENST00000509023	nonsense_mediated_decay	KNOWN	None	11139	189	62	121647932	121799475	1	None	SYPH1
5	SNCAIP	ENSG00000064692	ENST00000508017	nonsense_mediated_decay	KNOWN	None	11139	201	66	121647944	121799811	1	None	SYPH1
5	SNCAIP	ENSG00000064692	ENST00000509652	protein_coding	KNOWN	None	11139	42	13	121648262	121726871	1	None	SYPH1
5	SNCAIP	ENSG00000064692	ENST00000512146	nonsense_mediated_decay	KNOWN	None	11139	342	113	121726830	121799191	1	None	SYPH1
5	SNCAIP	ENSG00000064692	ENST00000395469	nonsense_mediated_decay	KNOWN	None	11139	1767	588	121726830	121799191	1	None	SYPH1
5	SNCAIP	ENSG00000064692	ENST00000395466	nonsense_mediated_decay	KNOWN	None	11139	267	88	121726830	121799191	1	None	SYPH1
5	SNCAIP	ENSG00000064692	ENST00000515215	nonsense_mediated_decay	KNOWN	None	11139	201	66	121726830	121799191	1	None	SYPH1
5	SNCAIP	ENSG00000064692	ENST00000513719	retained_intron	KNOWN	None	11139	None	None	121779851	121799749	1	None	SYPH1
5	SNCAIP	ENSG00000064692	ENST00000379533	protein_coding	KNOWN	None	11139	3051	1016	121647820	121799794	1	None	SYPH1
5	SNCAIP	ENSG00000064692	ENST00000379536	protein_coding	KNOWN	None	11139	2580	859	121647820	121799794	1	None	SYPH1
5	SNCAIP	ENSG00000064692	ENST00000503116	protein_coding	KNOWN	None	11139	1767	588	121726830	121787299	1	None	SYPH1
5	SNCAIP	ENSG00000064692	ENST00000504884	protein_coding	KNOWN	None	11139	267	88	121726830	121787299	1	None	SYPH1
5	SNCAIP	ENSG00000064692	ENST00000414317	protein_coding	KNOWN	None	11139	1566	521	121647932	121799475	1	None	SYPH1
5	SNCAIP	ENSG00000064692	ENST00000379538	protein_coding	KNOWN	CCDS58964	11139	1812	603	121647820	121799794	1	None	SYPH1
5	SNCAIP	ENSG00000064692	ENST00000542191	protein_coding	KNOWN	None	11139	1434	477	121647386	121799649	1	None	SYPH1
19	CCDC105	ENSG00000160994	ENST00000292574	protein_coding	KNOWN	CCDS12322	26866	1500	499	15121556	15134081	1	None	FLJ40365
6	None	ENSG00000220291	ENST00000403057	unprocessed_pseudogene	KNOWN	None	None	None	None	85865385	85877467	1	None	None
16	None	ENSG00000260668	ENST00000569153	processed_pseudogene	KNOWN	None	None	None	None	64294474	64295143	-1	None	None
14	IGHD4-11	ENSG00000232543	ENST00000431440	IG_D_gene	KNOWN	None	5502	16	4	106369474	106369489	-1	None	IGHD411, DA1
1	ZNF648	ENSG00000179930	ENST00000339948	protein_coding	NOVEL	CCDS30952	18190	1707	568	182023705	182030847	-1	None	FLJ46813
9	None	ENSG00000237073	ENST00000428429	antisense	KNOWN	None	None	None	None	116332470	116352299	-1	None	None
14	IGHD3-10	ENSG00000211923	ENST00000390583	IG_D_gene	KNOWN	None	5495	30	9	106370355	106370385	-1	None	IGHD310, DXP'1
9	None	ENSG00000233817	ENST00000437712	lincRNA	KNOWN	None	None	None	None	116381508	116384914	1	None	None
X	None	ENSG00000259640	ENST00000465509	sense_overlapping	KNOWN	None	None	None	None	83755033	83757461	-1	None	None
16	None	ENSG00000259846	ENST00000564046	lincRNA	KNOWN	None	None	None	None	64398684	64634150	1	None	None
9	None	ENSG00000227482	ENST00000428292	lincRNA	KNOWN	None	None	None	None	116413236	116445135	1	None	None
10	MTPAP	ENSG00000107951	ENST00000263063	protein_coding	KNOWN	CCDS7165	25532	1749	582	30601759	30638248	-1	PAPD1	FLJ10486, mtPAP
10	MTPAP	ENSG00000107951	ENST00000488290	processed_transcript	KNOWN	None	25532	None	None	30601939	30663370	-1	PAPD1	FLJ10486, mtPAP
10	MTPAP	ENSG00000107951	ENST00000417581	protein_coding	KNOWN	None	25532	657	218	30615493	30637906	-1	PAPD1	FLJ10486, mtPAP
10	MTPAP	ENSG00000107951	ENST00000421701	protein_coding	KNOWN	None	25532	453	150	30628901	30638090	-1	PAPD1	FLJ10486, mtPAP
10	MTPAP	ENSG00000107951	ENST00000471055	processed_transcript	KNOWN	None	25532	None	None	30653256	30663377	-1	PAPD1	FLJ10486, mtPAP
10	MTPAP	ENSG00000107951	ENST00000358107	protein_coding	KNOWN	None	25532	2139	712	30598730	30654262	-1	PAPD1	FLJ10486, mtPAP
16	None	ENSG00000259859	ENST00000564293	lincRNA	KNOWN	None	None	None	None	64769828	64770707	1	None	None
9	None	ENSG00000214669	ENST00000398764	processed_pseudogene	KNOWN	None	None	None	None	116521274	116521699	-1	None	None
14	IGHD3-9	ENSG00000211924	ENST00000390584	IG_D_gene	KNOWN	None	5499	30	9	106370539	106370569	-1	None	IGHD39, DXP1
4	None	ENSG00000250957	ENST00000511346	lincRNA	KNOWN	None	None	None	None	175056206	175075788	-1	None	None
16	None	ENSG00000260187	ENST00000564851	transcribed_processed_pseudogene	KNOWN	None	None	None	None	64770691	64771183	1	None	None
X	SETP4	ENSG00000237211	ENST00000455717	processed_pseudogene	KNOWN	None	42923	None	None	84010144	84011011	1	None	None
X	NHS	ENSG00000188158	ENST00000380060	protein_coding	KNOWN	CCDS14181	7820	4893	1630	17393543	17754114	1	None	None
X	NHS	ENSG00000188158	ENST00000398097	protein_coding	KNOWN	CCDS48087	7820	4425	1474	17653413	17754098	1	None	None
X	NHS	ENSG00000188158	ENST00000485305	processed_transcript	PUTATIVE	None	7820	None	None	17737383	17742490	1	None	None
16	None	ENSG00000260068	ENST00000568135	processed_pseudogene	KNOWN	None	None	None	None	64772226	64772467	1	None	None
4	None	ENSG00000251213	ENST00000504167	lincRNA	KNOWN	None	None	None	None	175085592	175090064	-1	None	None
14	IGHD2-8	ENSG00000211925	ENST00000390585	IG_D_gene	KNOWN	None	5492	31	9	106373069	106373099	-1	None	IGHD28, DLR1
10	CAMK2G	ENSG00000148660	ENST00000351293	protein_coding	KNOWN	CCDS7336	1463	1488	495	75572259	75634277	-1	CAMKG	None
10	CAMK2G	ENSG00000148660	ENST00000322635	protein_coding	KNOWN	CCDS7337	1463	1584	527	75572259	75634338	-1	CAMKG	None
10	CAMK2G	ENSG00000148660	ENST00000433289	protein_coding	KNOWN	None	1463	1362	453	75574020	75620612	-1	CAMKG	None
10	CAMK2G	ENSG00000148660	ENST00000305762	protein_coding	KNOWN	None	1463	1590	529	75574046	75634219	-1	CAMKG	None
10	CAMK2G	ENSG00000148660	ENST00000372765	protein_coding	KNOWN	None	1463	1551	516	75574046	75634260	-1	CAMKG	None
10	CAMK2G	ENSG00000148660	ENST00000441192	protein_coding	KNOWN	None	1463	1006	334	75574058	75607776	-1	CAMKG	None
10	CAMK2G	ENSG00000148660	ENST00000472912	processed_transcript	KNOWN	None	1463	None	None	75574174	75634312	-1	CAMKG	None
10	CAMK2G	ENSG00000148660	ENST00000474131	processed_transcript	KNOWN	None	1463	None	None	75574959	75601969	-1	CAMKG	None
10	CAMK2G	ENSG00000148660	ENST00000477205	processed_transcript	KNOWN	None	1463	None	None	75576680	75577540	-1	CAMKG	None
10	CAMK2G	ENSG00000148660	ENST00000492020	processed_transcript	KNOWN	None	1463	None	None	75596772	75607770	-1	CAMKG	None
10	CAMK2G	ENSG00000148660	ENST00000477652	processed_transcript	KNOWN	None	1463	None	None	75606983	75612574	-1	CAMKG	None
10	CAMK2G	ENSG00000148660	ENST00000423381	protein_coding	KNOWN	None	1463	1767	588	75572259	75634343	-1	CAMKG	None
10	CAMK2G	ENSG00000148660	ENST00000322680	protein_coding	KNOWN	CCDS7338	1463	1671	556	75572259	75634343	-1	CAMKG	None
10	CAMK2G	ENSG00000148660	ENST00000394762	protein_coding	KNOWN	None	1463	1602	533	75572259	75634343	-1	CAMKG	None
10	CAMK2G	ENSG00000148660	ENST00000444854	protein_coding	KNOWN	None	1463	543	180	75578323	75634340	-1	CAMKG	None
4	FNIP2	ENSG00000052795	ENST00000264433	protein_coding	KNOWN	CCDS47155	29280	3345	1114	159690290	159829201	1	None	KIAA1450, FNIPL, MAPO1
4	FNIP2	ENSG00000052795	ENST00000504704	retained_intron	KNOWN	None	29280	None	None	159690346	159757810	1	None	KIAA1450, FNIPL, MAPO1
4	FNIP2	ENSG00000052795	ENST00000505445	processed_transcript	KNOWN	None	29280	None	None	159717006	159750294	1	None	KIAA1450, FNIPL, MAPO1
4	FNIP2	ENSG00000052795	ENST00000512986	protein_coding	KNOWN	None	29280	2019	672	159727246	159789738	1	None	KIAA1450, FNIPL, MAPO1
4	FNIP2	ENSG00000052795	ENST00000504715	protein_coding	NOVEL	None	29280	724	240	159753232	159780799	1	None	KIAA1450, FNIPL, MAPO1
4	FNIP2	ENSG00000052795	ENST00000505130	processed_transcript	KNOWN	None	29280	None	None	159791511	159811340	1	None	KIAA1450, FNIPL, MAPO1
4	FNIP2	ENSG00000052795	ENST00000379346	protein_coding	KNOWN	None	29280	3414	1137	159727400	159827952	1	None	KIAA1450, FNIPL, MAPO1
4	None	ENSG00000249875	ENST00000508815	lincRNA	KNOWN	None	None	None	None	175276005	175297596	-1	None	None
16	None	ENSG00000259847	ENST00000563754	lincRNA	KNOWN	None	None	None	None	65175659	65210476	-1	None	None
16	None	ENSG00000259847	ENST00000562742	lincRNA	KNOWN	None	None	None	None	65210054	65210616	-1	None	None
21	C21orf128	ENSG00000184385	ENST00000329015	protein_coding	PUTATIVE	None	23821	489	162	43522244	43528644	-1	None	FLJ33471
X	UBE2DNL	ENSG00000229547	ENST00000602536	processed_transcript	KNOWN	None	28656	None	None	84189157	84189896	1	None	MGC42638
X	UBE2DNL	ENSG00000229547	ENST00000442533	processed_transcript	KNOWN	None	28656	None	None	84189248	84189825	1	None	MGC42638
X	UBE2DNL	ENSG00000229547	ENST00000451386	processed_transcript	KNOWN	None	28656	None	None	84189266	84189875	1	None	MGC42638
X	UBE2DNL	ENSG00000229547	ENST00000474922	transcribed_processed_pseudogene	KNOWN	None	28656	None	None	84189546	84189767	1	None	MGC42638
4	MIR4276	ENSG00000265846	ENST00000584832	miRNA	KNOWN	None	38232	None	None	175344946	175345015	1	None	hsa-mir-4276
HSCHR6_MHC_MANN	TAP1	ENSG00000226173	ENST00000470332	retained_intron	KNOWN	None	43	None	None	32966785	32971718	-1	ABCB2	PSF1, RING4, D6S114E
HSCHR6_MHC_MANN	TAP1	ENSG00000226173	ENST00000414467	protein_coding	KNOWN	None	43	2427	808	32966785	32975554	-1	ABCB2	PSF1, RING4, D6S114E
HSCHR6_MHC_MANN	TAP1	ENSG00000226173	ENST00000486849	retained_intron	KNOWN	None	43	None	None	32967251	32969806	-1	ABCB2	PSF1, RING4, D6S114E
6	GLO1	ENSG00000124767	ENST00000373365	protein_coding	KNOWN	CCDS4837	4323	555	184	38643701	38670917	-1	None	GLOD1
6	GLO1	ENSG00000124767	ENST00000470973	processed_transcript	KNOWN	None	4323	None	None	38643719	38650991	-1	None	GLOD1
HSCHR6_MHC_DBB	TAPBP	ENSG00000236490	ENST00000480059	processed_transcript	PUTATIVE	None	11566	None	None	33245400	33259947	-1	None	TAPA
HSCHR6_MHC_DBB	TAPBP	ENSG00000236490	ENST00000437315	protein_coding	KNOWN	None	11566	1401	466	33245400	33259954	-1	None	TAPA
HSCHR6_MHC_DBB	TAPBP	ENSG00000236490	ENST00000417059	protein_coding	KNOWN	None	11566	1347	448	33245400	33260090	-1	None	TAPA
HSCHR6_MHC_DBB	TAPBP	ENSG00000236490	ENST00000464230	processed_transcript	PUTATIVE	None	11566	None	None	33245437	33259759	-1	None	TAPA
HSCHR6_MHC_DBB	TAPBP	ENSG00000236490	ENST00000456807	protein_coding	KNOWN	None	11566	1515	504	33249352	33259915	-1	None	TAPA
HSCHR6_MHC_DBB	TAPBP	ENSG00000236490	ENST00000493108	retained_intron	KNOWN	None	11566	None	None	33249378	33259752	-1	None	TAPA
HSCHR6_MHC_DBB	TAPBP	ENSG00000236490	ENST00000494466	processed_transcript	PUTATIVE	None	11566	None	None	33249983	33259744	-1	None	TAPA
HSCHR6_MHC_DBB	TAPBP	ENSG00000236490	ENST00000432848	protein_coding	KNOWN	None	11566	607	201	33250704	33259749	-1	None	TAPA
HSCHR6_MHC_DBB	TAPBP	ENSG00000236490	ENST00000492687	processed_transcript	PUTATIVE	None	11566	None	None	33258718	33259658	-1	None	TAPA
HSCHR6_MHC_DBB	TAPBP	ENSG00000236490	ENST00000549949	protein_coding	KNOWN	None	11566	1347	448	33249490	33260062	-1	None	TAPA
HSCHR6_MHC_DBB	TAPBP	ENSG00000236490	ENST00000553235	protein_coding	KNOWN	None	11566	1086	361	33249490	33260062	-1	None	TAPA
4	None	ENSG00000250596	ENST00000515178	lincRNA	KNOWN	None	None	None	None	175444852	175461495	-1	None	None
7	None	ENSG00000242073	ENST00000415277	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	75103973	75115385	-1	None	None
4	None	ENSG00000251584	ENST00000507483	lincRNA	KNOWN	None	None	None	None	175457791	175461935	1	None	None
16	None	ENSG00000260834	ENST00000567058	lincRNA	KNOWN	None	None	None	None	65224876	65268817	-1	None	None
16	None	ENSG00000260834	ENST00000565901	lincRNA	KNOWN	None	None	None	None	65261798	65268807	-1	None	None
14	IGHD1-7	ENSG00000237197	ENST00000430425	IG_D_gene	KNOWN	None	5486	17	4	106375766	106375782	-1	None	DM1, IGHD17
4	None	ENSG00000250760	ENST00000502691	transcribed_processed_pseudogene	KNOWN	None	None	None	None	175460340	175461406	-1	None	None
7	None	ENSG00000170092	ENST00000455862	unprocessed_pseudogene	KNOWN	None	None	None	None	75123401	75131261	1	None	None
7	None	ENSG00000170092	ENST00000450699	unprocessed_pseudogene	KNOWN	None	None	None	None	75124299	75133628	1	None	None
14	IGHD6-6	ENSG00000228131	ENST00000454691	IG_D_gene	KNOWN	None	5517	18	5	106376269	106376286	-1	None	IGHD66, D(N4)
16	None	ENSG00000260364	ENST00000562656	lincRNA	KNOWN	None	None	None	None	65266959	65466723	1	None	None
4	None	ENSG00000250200	ENST00000511798	processed_pseudogene	KNOWN	None	None	None	None	175844964	175845189	-1	None	None
Y	PARP4P1	ENSG00000237917	ENST00000435945	unprocessed_pseudogene	KNOWN	None	18500	None	None	28740998	28780799	-1	ADPRTL1P, PARP4P	PARP4PY1
14	IGHD5-5	ENSG00000211928	ENST00000390588	IG_D_gene	KNOWN	None	5511	20	5	106378116	106378135	-1	None	IGHD55, DK4
19	ZNF175	ENSG00000105497	ENST00000545217	protein_coding	NOVEL	None	12964	156	51	52074551	52077463	1	None	OTK18
19	ZNF175	ENSG00000105497	ENST00000262259	protein_coding	KNOWN	CCDS12837	12964	2136	711	52074551	52092968	1	None	OTK18
19	ZNF175	ENSG00000105497	ENST00000596504	protein_coding	PUTATIVE	None	12964	213	70	52074557	52084799	1	None	OTK18
19	ZNF175	ENSG00000105497	ENST00000436511	protein_coding	PUTATIVE	None	12964	339	112	52076581	52092991	1	None	OTK18
19	ZNF175	ENSG00000105497	ENST00000600460	protein_coding	PUTATIVE	None	12964	982	326	52084621	52090615	1	None	OTK18
4	None	ENSG00000265493	ENST00000585179	miRNA	NOVEL	None	None	None	None	175848458	175848542	-1	None	None
19	HNRNPUL1	ENSG00000105323	ENST00000352456	protein_coding	NOVEL	None	17011	2301	766	41768401	41813503	1	HNRPUL1	E1B-AP5, E1BAP5, FLJ12944
19	HNRNPUL1	ENSG00000105323	ENST00000595018	protein_coding	KNOWN	CCDS12577	17011	2271	756	41768424	41812924	1	HNRPUL1	E1B-AP5, E1BAP5, FLJ12944
19	HNRNPUL1	ENSG00000105323	ENST00000597725	protein_coding	PUTATIVE	None	17011	518	171	41768435	41787119	1	HNRPUL1	E1B-AP5, E1BAP5, FLJ12944
19	HNRNPUL1	ENSG00000105323	ENST00000599719	protein_coding	KNOWN	None	17011	1113	370	41768567	41800486	1	HNRPUL1	E1B-AP5, E1BAP5, FLJ12944
19	HNRNPUL1	ENSG00000105323	ENST00000601309	protein_coding	KNOWN	None	17011	356	117	41768576	41782073	1	HNRPUL1	E1B-AP5, E1BAP5, FLJ12944
19	HNRNPUL1	ENSG00000105323	ENST00000392006	protein_coding	KNOWN	CCDS12576	17011	2571	856	41770236	41813281	1	HNRPUL1	E1B-AP5, E1BAP5, FLJ12944
19	HNRNPUL1	ENSG00000105323	ENST00000378215	protein_coding	KNOWN	None	17011	2259	752	41770277	41812943	1	HNRPUL1	E1B-AP5, E1BAP5, FLJ12944
19	HNRNPUL1	ENSG00000105323	ENST00000595196	nonsense_mediated_decay	KNOWN	None	17011	318	105	41770316	41812955	1	HNRPUL1	E1B-AP5, E1BAP5, FLJ12944
19	HNRNPUL1	ENSG00000105323	ENST00000602130	protein_coding	KNOWN	None	17011	2415	804	41770356	41812934	1	HNRPUL1	E1B-AP5, E1BAP5, FLJ12944
19	HNRNPUL1	ENSG00000105323	ENST00000601336	protein_coding	KNOWN	None	17011	474	157	41770752	41782191	1	HNRPUL1	E1B-AP5, E1BAP5, FLJ12944
19	HNRNPUL1	ENSG00000105323	ENST00000593587	protein_coding	KNOWN	CCDS12577	17011	2271	756	41770984	41812830	1	HNRPUL1	E1B-AP5, E1BAP5, FLJ12944
19	HNRNPUL1	ENSG00000105323	ENST00000594207	processed_transcript	KNOWN	None	17011	None	None	41771006	41787033	1	HNRPUL1	E1B-AP5, E1BAP5, FLJ12944
19	HNRNPUL1	ENSG00000105323	ENST00000263367	protein_coding	PUTATIVE	None	17011	2304	767	41771027	41812924	1	HNRPUL1	E1B-AP5, E1BAP5, FLJ12944
19	HNRNPUL1	ENSG00000105323	ENST00000595336	protein_coding	KNOWN	None	17011	243	80	41773983	41778111	1	HNRPUL1	E1B-AP5, E1BAP5, FLJ12944
19	HNRNPUL1	ENSG00000105323	ENST00000599521	retained_intron	KNOWN	None	17011	None	None	41774204	41778275	1	HNRPUL1	E1B-AP5, E1BAP5, FLJ12944
19	HNRNPUL1	ENSG00000105323	ENST00000599614	protein_coding	NOVEL	None	17011	1925	640	41778023	41812992	1	HNRPUL1	E1B-AP5, E1BAP5, FLJ12944
19	HNRNPUL1	ENSG00000105323	ENST00000600596	nonsense_mediated_decay	KNOWN	None	17011	271	89	41779938	41800293	1	HNRPUL1	E1B-AP5, E1BAP5, FLJ12944
19	HNRNPUL1	ENSG00000105323	ENST00000600332	nonsense_mediated_decay	KNOWN	None	17011	80	25	41782175	41784348	1	HNRPUL1	E1B-AP5, E1BAP5, FLJ12944
19	HNRNPUL1	ENSG00000105323	ENST00000600493	processed_transcript	KNOWN	None	17011	None	None	41804395	41807551	1	HNRPUL1	E1B-AP5, E1BAP5, FLJ12944
19	HNRNPUL1	ENSG00000105323	ENST00000595806	retained_intron	KNOWN	None	17011	None	None	41808298	41812943	1	HNRPUL1	E1B-AP5, E1BAP5, FLJ12944
4	None	ENSG00000250149	ENST00000507203	lincRNA	KNOWN	None	None	None	None	126597873	126673948	1	None	None
4	None	ENSG00000250431	ENST00000507525	antisense	KNOWN	None	None	None	None	175898722	175900532	-1	None	None
6	RMND1	ENSG00000155906	ENST00000336451	protein_coding	KNOWN	None	21176	717	238	151725989	151765760	-1	C6orf96	bA351K16.3, FLJ20627, RMD1
6	RMND1	ENSG00000155906	ENST00000367303	protein_coding	KNOWN	CCDS5232	21176	1350	449	151725989	151773259	-1	C6orf96	bA351K16.3, FLJ20627, RMD1
6	RMND1	ENSG00000155906	ENST00000444024	protein_coding	KNOWN	None	21176	633	210	151738471	151773254	-1	C6orf96	bA351K16.3, FLJ20627, RMD1
6	RMND1	ENSG00000155906	ENST00000491268	processed_transcript	KNOWN	None	21176	None	None	151757370	151766960	-1	C6orf96	bA351K16.3, FLJ20627, RMD1
4	None	ENSG00000244002	ENST00000467439	processed_pseudogene	KNOWN	None	None	None	None	81082283	81083165	1	None	None
14	IGHD4-4	ENSG00000233655	ENST00000414852	IG_D_gene	KNOWN	None	5505	16	4	106379081	106379096	-1	None	IGHD44, DA4
16	GTF3C1	ENSG00000077235	ENST00000567806	processed_transcript	KNOWN	None	4664	None	None	27470876	27472301	-1	None	TFIIIC220
16	GTF3C1	ENSG00000077235	ENST00000561623	protein_coding	KNOWN	None	4664	6255	2084	27471934	27561234	-1	None	TFIIIC220
16	GTF3C1	ENSG00000077235	ENST00000564747	retained_intron	KNOWN	None	4664	None	None	27471997	27474794	-1	None	TFIIIC220
16	GTF3C1	ENSG00000077235	ENST00000356183	protein_coding	KNOWN	CCDS32414	4664	6330	2109	27471999	27561227	-1	None	TFIIIC220
16	GTF3C1	ENSG00000077235	ENST00000569653	protein_coding	NOVEL	None	4664	644	213	27472418	27514237	-1	None	TFIIIC220
16	GTF3C1	ENSG00000077235	ENST00000562609	retained_intron	KNOWN	None	4664	None	None	27472617	27477648	-1	None	TFIIIC220
16	GTF3C1	ENSG00000077235	ENST00000567843	processed_transcript	KNOWN	None	4664	None	None	27480723	27482040	-1	None	TFIIIC220
16	GTF3C1	ENSG00000077235	ENST00000571886	nonsense_mediated_decay	KNOWN	None	4664	255	84	27481430	27487849	-1	None	TFIIIC220
16	GTF3C1	ENSG00000077235	ENST00000569394	retained_intron	KNOWN	None	4664	None	None	27481544	27489915	-1	None	TFIIIC220
16	GTF3C1	ENSG00000077235	ENST00000564664	nonsense_mediated_decay	KNOWN	None	4664	420	139	27483112	27500444	-1	None	TFIIIC220
16	GTF3C1	ENSG00000077235	ENST00000566779	retained_intron	KNOWN	None	4664	None	None	27492037	27495618	-1	None	TFIIIC220
16	GTF3C1	ENSG00000077235	ENST00000568569	protein_coding	NOVEL	None	4664	540	179	27492436	27499552	-1	None	TFIIIC220
16	GTF3C1	ENSG00000077235	ENST00000570129	processed_transcript	KNOWN	None	4664	None	None	27494459	27497384	-1	None	TFIIIC220
12	PAH	ENSG00000171759	ENST00000553106	protein_coding	KNOWN	CCDS9092	8582	1359	452	103230663	103311381	-1	None	PH
12	PAH	ENSG00000171759	ENST00000307000	protein_coding	PUTATIVE	None	8582	1344	447	103232099	103311032	-1	None	PH
12	PAH	ENSG00000171759	ENST00000549247	retained_intron	KNOWN	None	8582	None	None	103237424	103247193	-1	None	PH
12	PAH	ENSG00000171759	ENST00000551114	retained_intron	KNOWN	None	8582	None	None	103237492	103246038	-1	None	PH
12	PAH	ENSG00000171759	ENST00000549111	retained_intron	KNOWN	None	8582	None	None	103248464	103311004	-1	None	PH
12	PAH	ENSG00000171759	ENST00000551988	processed_transcript	KNOWN	None	8582	None	None	103249057	103310997	-1	None	PH
12	PAH	ENSG00000171759	ENST00000550978	retained_intron	KNOWN	None	8582	None	None	103271064	103310892	-1	None	PH
12	PAH	ENSG00000171759	ENST00000551337	protein_coding	KNOWN	None	8582	408	135	103271273	103352144	-1	None	PH
12	PAH	ENSG00000171759	ENST00000548928	processed_transcript	KNOWN	None	8582	None	None	103279823	103306658	-1	None	PH
12	PAH	ENSG00000171759	ENST00000546844	protein_coding	KNOWN	None	8582	352	116	103288513	103344624	-1	None	PH
12	PAH	ENSG00000171759	ENST00000548677	processed_transcript	KNOWN	None	8582	None	None	103288581	103308970	-1	None	PH
12	PAH	ENSG00000171759	ENST00000547319	processed_transcript	KNOWN	None	8582	None	None	103310351	103352188	-1	None	PH
12	PAH	ENSG00000171759	ENST00000546708	processed_transcript	KNOWN	None	8582	None	None	103310950	103344628	-1	None	PH
12	PAH	ENSG00000171759	ENST00000552251	processed_transcript	KNOWN	None	8582	None	None	103338866	103344646	-1	None	PH
12	PAH	ENSG00000171759	ENST00000550405	retained_intron	KNOWN	None	8582	None	None	103340360	103344623	-1	None	PH
4	None	ENSG00000248719	ENST00000503589	antisense	KNOWN	None	None	None	None	81104434	81111323	-1	None	None
16	LINC00922	ENSG00000261742	ENST00000569736	lincRNA	KNOWN	None	27545	None	None	65318402	65610203	-1	None	None
16	LINC00922	ENSG00000261742	ENST00000564041	lincRNA	KNOWN	None	27545	None	None	65318927	65605692	-1	None	None
16	LINC00922	ENSG00000261742	ENST00000568492	lincRNA	KNOWN	None	27545	None	None	65318927	65605692	-1	None	None
4	None	ENSG00000249411	ENST00000502748	processed_pseudogene	KNOWN	None	None	None	None	175938167	175940365	1	None	None
4	None	ENSG00000232327	ENST00000506637	processed_pseudogene	KNOWN	None	None	None	None	81307332	81309870	-1	None	None
8	BNIP3L	ENSG00000104765	ENST00000380629	protein_coding	KNOWN	CCDS6050	1085	660	219	26240414	26270645	1	None	Nix, BNIP3a
8	BNIP3L	ENSG00000104765	ENST00000520077	nonsense_mediated_decay	KNOWN	None	1085	183	60	26240570	26268370	1	None	Nix, BNIP3a
8	BNIP3L	ENSG00000104765	ENST00000523949	protein_coding	PUTATIVE	None	1085	558	185	26240713	26363152	1	None	Nix, BNIP3a
8	BNIP3L	ENSG00000104765	ENST00000523515	protein_coding	NOVEL	None	1085	540	179	26240894	26268182	1	None	Nix, BNIP3a
8	BNIP3L	ENSG00000104765	ENST00000520409	protein_coding	NOVEL	None	1085	540	179	26240931	26268025	1	None	Nix, BNIP3a
8	BNIP3L	ENSG00000104765	ENST00000518611	protein_coding	NOVEL	None	1085	540	179	26247878	26268564	1	None	Nix, BNIP3a
8	BNIP3L	ENSG00000104765	ENST00000521254	processed_transcript	KNOWN	None	1085	None	None	26253133	26268035	1	None	Nix, BNIP3a
9	None	ENSG00000221581	ENST00000408654	miRNA	NOVEL	None	None	None	None	83349157	83349244	-1	None	None
4	None	ENSG00000249284	ENST00000510748	processed_pseudogene	KNOWN	None	None	None	None	176207756	176211918	1	None	None
17	SERPINF1	ENSG00000132386	ENST00000254722	protein_coding	KNOWN	CCDS11012	8824	1257	418	1665253	1680868	1	PEDF	EPC-1, PIG35
17	SERPINF1	ENSG00000132386	ENST00000571360	protein_coding	NOVEL	None	8824	385	127	1665323	1674463	1	PEDF	EPC-1, PIG35
17	SERPINF1	ENSG00000132386	ENST00000571870	processed_transcript	KNOWN	None	8824	None	None	1665355	1675224	1	PEDF	EPC-1, PIG35
17	SERPINF1	ENSG00000132386	ENST00000573770	nonsense_mediated_decay	KNOWN	None	8824	345	114	1665362	1675266	1	PEDF	EPC-1, PIG35
17	SERPINF1	ENSG00000132386	ENST00000576406	protein_coding	PUTATIVE	None	8824	272	89	1665362	1679872	1	PEDF	EPC-1, PIG35
17	SERPINF1	ENSG00000132386	ENST00000571149	protein_coding	KNOWN	None	8824	261	86	1665406	1673322	1	PEDF	EPC-1, PIG35
17	SERPINF1	ENSG00000132386	ENST00000570731	protein_coding	KNOWN	None	8824	396	131	1666123	1674435	1	PEDF	EPC-1, PIG35
17	SERPINF1	ENSG00000132386	ENST00000577053	protein_coding	KNOWN	None	8824	335	110	1669568	1674374	1	PEDF	EPC-1, PIG35
17	SERPINF1	ENSG00000132386	ENST00000570820	retained_intron	KNOWN	None	8824	None	None	1673820	1675326	1	PEDF	EPC-1, PIG35
17	SERPINF1	ENSG00000132386	ENST00000572048	protein_coding	PUTATIVE	None	8824	298	98	1675013	1679898	1	PEDF	EPC-1, PIG35
17	SERPINF1	ENSG00000132386	ENST00000573763	protein_coding	PUTATIVE	None	8824	414	137	1675013	1680503	1	PEDF	EPC-1, PIG35
17	SERPINF1	ENSG00000132386	ENST00000572517	retained_intron	KNOWN	None	8824	None	None	1679744	1680859	1	PEDF	EPC-1, PIG35
4	None	ENSG00000248551	ENST00000502661	lincRNA	KNOWN	None	None	None	None	176267509	176324261	-1	None	None
4	None	ENSG00000251059	ENST00000512502	antisense	KNOWN	None	None	None	None	82086094	82114549	1	None	None
4	None	ENSG00000251059	ENST00000505175	antisense	KNOWN	None	None	None	None	82095029	82114334	1	None	None
HSCHR6_MHC_DBB	IER3	ENSG00000227231	ENST00000429592	protein_coding	KNOWN	None	5392	417	138	30701238	30702587	-1	None	IEX-1, DIF-2, PRG1, IEX-1L
HSCHR6_MHC_DBB	IER3	ENSG00000227231	ENST00000416884	protein_coding	KNOWN	None	5392	471	156	30701238	30702593	-1	None	IEX-1, DIF-2, PRG1, IEX-1L
8	DMTN	ENSG00000158856	ENST00000522148	protein_coding	PUTATIVE	None	3382	215	70	21906506	21926567	1	EPB49	DMT
8	DMTN	ENSG00000158856	ENST00000523300	protein_coding	PUTATIVE	None	3382	453	150	21906660	21927803	1	EPB49	DMT
8	DMTN	ENSG00000158856	ENST00000519959	retained_intron	KNOWN	None	3382	None	None	21911066	21924330	1	EPB49	DMT
8	DMTN	ENSG00000158856	ENST00000519850	protein_coding	PUTATIVE	None	3382	332	109	21911081	21926967	1	EPB49	DMT
8	DMTN	ENSG00000158856	ENST00000443491	protein_coding	KNOWN	CCDS47821	3382	1077	358	21912413	21940035	1	EPB49	DMT
8	DMTN	ENSG00000158856	ENST00000518816	retained_intron	KNOWN	None	3382	None	None	21912418	21927816	1	EPB49	DMT
8	DMTN	ENSG00000158856	ENST00000517600	protein_coding	PUTATIVE	None	3382	1098	365	21912442	21939197	1	EPB49	DMT
8	DMTN	ENSG00000158856	ENST00000523782	protein_coding	KNOWN	CCDS47821	3382	1077	358	21912454	21940029	1	EPB49	DMT
8	DMTN	ENSG00000158856	ENST00000520856	retained_intron	KNOWN	None	3382	None	None	21912464	21926773	1	EPB49	DMT
8	DMTN	ENSG00000158856	ENST00000523623	protein_coding	PUTATIVE	None	3382	444	147	21912968	21927760	1	EPB49	DMT
8	DMTN	ENSG00000158856	ENST00000520174	protein_coding	PUTATIVE	None	3382	567	188	21914416	21927883	1	EPB49	DMT
8	DMTN	ENSG00000158856	ENST00000517804	protein_coding	PUTATIVE	None	3382	628	208	21914477	21927869	1	EPB49	DMT
8	DMTN	ENSG00000158856	ENST00000265800	protein_coding	KNOWN	CCDS6020	3382	1218	405	21915376	21940038	1	EPB49	DMT
8	DMTN	ENSG00000158856	ENST00000517418	protein_coding	PUTATIVE	None	3382	633	210	21915399	21927874	1	EPB49	DMT
8	DMTN	ENSG00000158856	ENST00000523266	protein_coding	PUTATIVE	CCDS6020	3382	1218	405	21916717	21940029	1	EPB49	DMT
8	DMTN	ENSG00000158856	ENST00000519907	protein_coding	KNOWN	CCDS47820	3382	1152	383	21916734	21940035	1	EPB49	DMT
8	DMTN	ENSG00000158856	ENST00000517305	nonsense_mediated_decay	KNOWN	None	3382	979	325	21916859	21940029	1	EPB49	DMT
8	DMTN	ENSG00000158856	ENST00000522340	retained_intron	KNOWN	None	3382	None	None	21924009	21925159	1	EPB49	DMT
8	DMTN	ENSG00000158856	ENST00000519333	retained_intron	KNOWN	None	3382	None	None	21924027	21926574	1	EPB49	DMT
8	DMTN	ENSG00000158856	ENST00000381470	protein_coding	KNOWN	CCDS47820	3382	1152	383	21911081	21940035	1	EPB49	DMT
8	DMTN	ENSG00000158856	ENST00000432128	protein_coding	KNOWN	None	3382	1218	405	21912328	21940035	1	EPB49	DMT
8	DMTN	ENSG00000158856	ENST00000358242	protein_coding	KNOWN	None	3382	1218	405	21916686	21940035	1	EPB49	DMT
8	DMTN	ENSG00000158856	ENST00000415253	protein_coding	KNOWN	CCDS47820	3382	1152	383	21916686	21940035	1	EPB49	DMT
4	None	ENSG00000249945	ENST00000506984	lincRNA	KNOWN	None	None	None	None	176379440	176387848	-1	None	None
X	CENPI	ENSG00000102384	ENST00000403304	protein_coding	KNOWN	None	3968	225	74	100353207	100356284	1	FSHPRH1	LRPR1, CENP-I, Mis6
X	CENPI	ENSG00000102384	ENST00000435570	protein_coding	KNOWN	None	3968	135	44	100353210	100356194	1	FSHPRH1	LRPR1, CENP-I, Mis6
X	CENPI	ENSG00000102384	ENST00000372926	protein_coding	KNOWN	None	3968	1569	522	100355426	100396282	1	FSHPRH1	LRPR1, CENP-I, Mis6
X	CENPI	ENSG00000102384	ENST00000372927	protein_coding	KNOWN	CCDS14479	3968	2271	756	100355426	100418670	1	FSHPRH1	LRPR1, CENP-I, Mis6
X	CENPI	ENSG00000102384	ENST00000423383	protein_coding	KNOWN	CCDS14479	3968	2271	756	100353178	100418425	1	FSHPRH1	LRPR1, CENP-I, Mis6
X	CENPI	ENSG00000102384	ENST00000218507	protein_coding	KNOWN	None	3968	2229	742	100353178	100418425	1	FSHPRH1	LRPR1, CENP-I, Mis6
4	None	ENSG00000221136	ENST00000408209	miRNA	NOVEL	None	None	None	None	176394153	176394259	1	None	None
4	TSEN2P1	ENSG00000251174	ENST00000513552	processed_pseudogene	KNOWN	None	43965	None	None	176415765	176417151	1	None	None
1	GLUL	ENSG00000135821	ENST00000331872	protein_coding	KNOWN	CCDS1344	4341	1122	373	182350839	182361341	-1	GLNS	None
1	GLUL	ENSG00000135821	ENST00000491322	processed_transcript	KNOWN	None	4341	None	None	182352029	182359439	-1	GLNS	None
1	GLUL	ENSG00000135821	ENST00000339526	protein_coding	KNOWN	CCDS1344	4341	1122	373	182352029	182360927	-1	GLNS	None
1	GLUL	ENSG00000135821	ENST00000463851	processed_transcript	KNOWN	None	4341	None	None	182353331	182360894	-1	GLNS	None
1	GLUL	ENSG00000135821	ENST00000461447	processed_transcript	KNOWN	None	4341	None	None	182353550	182355074	-1	GLNS	None
1	GLUL	ENSG00000135821	ENST00000484996	processed_transcript	KNOWN	None	4341	None	None	182354538	182360908	-1	GLNS	None
1	GLUL	ENSG00000135821	ENST00000489818	processed_transcript	KNOWN	None	4341	None	None	182354834	182360925	-1	GLNS	None
1	GLUL	ENSG00000135821	ENST00000475808	processed_transcript	KNOWN	None	4341	None	None	182355330	182358204	-1	GLNS	None
1	GLUL	ENSG00000135821	ENST00000480604	processed_transcript	KNOWN	None	4341	None	None	182355408	182360894	-1	GLNS	None
1	GLUL	ENSG00000135821	ENST00000462444	processed_transcript	KNOWN	None	4341	None	None	182355910	182360909	-1	GLNS	None
1	GLUL	ENSG00000135821	ENST00000311223	protein_coding	KNOWN	CCDS1344	4341	1122	373	182350840	182361341	-1	GLNS	None
1	GLUL	ENSG00000135821	ENST00000417584	protein_coding	KNOWN	CCDS1344	4341	1122	373	182350840	182360539	-1	GLNS	None
1	ATXN7L2	ENSG00000162650	ENST00000463678	nonsense_mediated_decay	KNOWN	None	28713	312	103	110026101	110035326	1	None	MGC46534, FLJ00381
1	ATXN7L2	ENSG00000162650	ENST00000369870	protein_coding	KNOWN	CCDS30794	28713	2169	722	110026561	110035356	1	None	MGC46534, FLJ00381
1	ATXN7L2	ENSG00000162650	ENST00000497545	retained_intron	KNOWN	None	28713	None	None	110028168	110035349	1	None	MGC46534, FLJ00381
1	ATXN7L2	ENSG00000162650	ENST00000604728	processed_transcript	KNOWN	None	28713	None	None	110031962	110033581	1	None	MGC46534, FLJ00381
1	ATXN7L2	ENSG00000162650	ENST00000369869	retained_intron	KNOWN	None	28713	None	None	110032173	110035426	1	None	MGC46534, FLJ00381
1	ATXN7L2	ENSG00000162650	ENST00000459635	processed_transcript	KNOWN	None	28713	None	None	110033638	110035356	1	None	MGC46534, FLJ00381
4	ADAM20P2	ENSG00000248574	ENST00000515830	processed_pseudogene	KNOWN	None	43901	None	None	176496019	176497291	1	None	None
1	TRNAU1AP	ENSG00000180098	ENST00000373830	protein_coding	KNOWN	CCDS324	30813	864	287	28879597	28905051	1	TRSPAP1	SECP43, FLJ20503
1	TRNAU1AP	ENSG00000180098	ENST00000495995	processed_transcript	KNOWN	None	30813	None	None	28879599	28892302	1	TRSPAP1	SECP43, FLJ20503
1	TRNAU1AP	ENSG00000180098	ENST00000411406	processed_transcript	KNOWN	None	30813	None	None	28879609	28880560	1	TRSPAP1	SECP43, FLJ20503
1	TRNAU1AP	ENSG00000180098	ENST00000480930	processed_transcript	KNOWN	None	30813	None	None	28879611	28904256	1	TRSPAP1	SECP43, FLJ20503
1	TRNAU1AP	ENSG00000180098	ENST00000491577	processed_transcript	KNOWN	None	30813	None	None	28879618	28904276	1	TRSPAP1	SECP43, FLJ20503
1	TRNAU1AP	ENSG00000180098	ENST00000464880	processed_transcript	KNOWN	None	30813	None	None	28879619	28887759	1	TRSPAP1	SECP43, FLJ20503
1	TRNAU1AP	ENSG00000180098	ENST00000497790	processed_transcript	KNOWN	None	30813	None	None	28879745	28887544	1	TRSPAP1	SECP43, FLJ20503
1	TRNAU1AP	ENSG00000180098	ENST00000495215	processed_transcript	KNOWN	None	30813	None	None	28879759	28893844	1	TRSPAP1	SECP43, FLJ20503
1	TRNAU1AP	ENSG00000180098	ENST00000464093	processed_transcript	KNOWN	None	30813	None	None	28880184	28892014	1	TRSPAP1	SECP43, FLJ20503
1	TRNAU1AP	ENSG00000180098	ENST00000484775	processed_transcript	KNOWN	None	30813	None	None	28887145	28904287	1	TRSPAP1	SECP43, FLJ20503
10	PCGF6	ENSG00000156374	ENST00000337211	protein_coding	KNOWN	CCDS7546	21156	828	275	105062553	105110836	-1	RNF134	MBLR
10	PCGF6	ENSG00000156374	ENST00000369847	protein_coding	KNOWN	CCDS31275	21156	1053	350	105062553	105110891	-1	RNF134	MBLR
10	PCGF6	ENSG00000156374	ENST00000490296	processed_transcript	KNOWN	None	21156	None	None	105062884	105110838	-1	RNF134	MBLR
10	PCGF6	ENSG00000156374	ENST00000492755	retained_intron	KNOWN	None	21156	None	None	105108112	105108696	-1	RNF134	MBLR
19	None	ENSG00000167765	ENST00000301439	protein_coding	NOVEL	None	None	789	262	52095036	52097633	-1	None	None
4	None	ENSG00000249106	ENST00000514864	antisense	KNOWN	None	None	None	None	176711458	176733340	1	None	None
22	SULT4A1	ENSG00000130540	ENST00000330884	protein_coding	KNOWN	CCDS14051	14903	855	284	44220389	44258383	-1	None	SULTX3, hBR-STL-1
22	SULT4A1	ENSG00000130540	ENST00000432404	nonsense_mediated_decay	KNOWN	None	14903	228	75	44220390	44258286	-1	None	SULTX3, hBR-STL-1
22	SULT4A1	ENSG00000130540	ENST00000422525	nonsense_mediated_decay	KNOWN	None	14903	783	260	44220390	44258350	-1	None	SULTX3, hBR-STL-1
22	SULT4A1	ENSG00000130540	ENST00000475131	retained_intron	KNOWN	None	14903	None	None	44224686	44234793	-1	None	SULTX3, hBR-STL-1
22	SULT4A1	ENSG00000130540	ENST00000540422	protein_coding	KNOWN	None	14903	516	171	44221349	44258314	-1	None	SULTX3, hBR-STL-1
22	SULT4A1	ENSG00000130540	ENST00000249130	protein_coding	KNOWN	None	14903	783	260	44223480	44258398	-1	None	SULTX3, hBR-STL-1
19	COLGALT1	ENSG00000130309	ENST00000252599	protein_coding	KNOWN	CCDS12363	26182	1869	622	17666403	17693968	1	GLT25D1	FLJ22329
19	COLGALT1	ENSG00000130309	ENST00000600474	protein_coding	PUTATIVE	None	26182	414	137	17667370	17679386	1	GLT25D1	FLJ22329
19	COLGALT1	ENSG00000130309	ENST00000601354	processed_transcript	KNOWN	None	26182	None	None	17676842	17682733	1	GLT25D1	FLJ22329
19	COLGALT1	ENSG00000130309	ENST00000597147	protein_coding	NOVEL	None	26182	654	217	17679422	17691615	1	GLT25D1	FLJ22329
19	COLGALT1	ENSG00000130309	ENST00000597075	retained_intron	KNOWN	None	26182	None	None	17687884	17691679	1	GLT25D1	FLJ22329
19	COLGALT1	ENSG00000130309	ENST00000593832	retained_intron	KNOWN	None	26182	None	None	17690760	17693971	1	GLT25D1	FLJ22329
3	GRAMD1C	ENSG00000178075	ENST00000479212	processed_transcript	KNOWN	None	25252	None	None	113547029	113664407	1	None	DKFZp434C0328
3	GRAMD1C	ENSG00000178075	ENST00000358160	protein_coding	KNOWN	CCDS33826	25252	1989	662	113557265	113666021	1	None	DKFZp434C0328
3	GRAMD1C	ENSG00000178075	ENST00000498183	retained_intron	KNOWN	None	25252	None	None	113557665	113594714	1	None	DKFZp434C0328
3	GRAMD1C	ENSG00000178075	ENST00000486457	processed_transcript	KNOWN	None	25252	None	None	113557721	113619892	1	None	DKFZp434C0328
3	GRAMD1C	ENSG00000178075	ENST00000472384	nonsense_mediated_decay	KNOWN	None	25252	621	206	113557728	113653303	1	None	DKFZp434C0328
3	GRAMD1C	ENSG00000178075	ENST00000463760	processed_transcript	KNOWN	None	25252	None	None	113557747	113619982	1	None	DKFZp434C0328
3	GRAMD1C	ENSG00000178075	ENST00000484714	nonsense_mediated_decay	KNOWN	None	25252	270	89	113557752	113634685	1	None	DKFZp434C0328
3	GRAMD1C	ENSG00000178075	ENST00000467895	processed_transcript	PUTATIVE	None	25252	None	None	113563350	113563812	1	None	DKFZp434C0328
3	GRAMD1C	ENSG00000178075	ENST00000472026	protein_coding	PUTATIVE	None	25252	1488	495	113609472	113664617	1	None	DKFZp434C0328
3	GRAMD1C	ENSG00000178075	ENST00000462838	protein_coding	KNOWN	None	25252	1141	379	113609512	113658797	1	None	DKFZp434C0328
3	GRAMD1C	ENSG00000178075	ENST00000440446	protein_coding	KNOWN	CCDS54625	25252	1374	457	113616317	113666007	1	None	DKFZp434C0328
3	GRAMD1C	ENSG00000178075	ENST00000488680	protein_coding	PUTATIVE	None	25252	133	43	113616339	113634629	1	None	DKFZp434C0328
3	GRAMD1C	ENSG00000178075	ENST00000471031	retained_intron	KNOWN	None	25252	None	None	113653334	113655770	1	None	DKFZp434C0328
3	GRAMD1C	ENSG00000178075	ENST00000466898	retained_intron	KNOWN	None	25252	None	None	113657173	113666021	1	None	DKFZp434C0328
3	GRAMD1C	ENSG00000178075	ENST00000491038	retained_intron	KNOWN	None	25252	None	None	113658573	113664607	1	None	DKFZp434C0328
3	GRAMD1C	ENSG00000178075	ENST00000452134	protein_coding	KNOWN	None	25252	1176	391	113563346	113664413	1	None	DKFZp434C0328
Y	FAM58CP	ENSG00000231514	ENST00000435741	processed_pseudogene	KNOWN	None	38436	None	None	28772667	28773306	-1	FAM58AP1	FAM58Y
7	CFTR	ENSG00000001626	ENST00000546407	processed_transcript	KNOWN	None	1884	None	None	117105838	117144362	1	CF, ABCC7	MRP7, ABC35, TNR-CFTR, dJ760C5.1, CFTR/MRP
7	CFTR	ENSG00000001626	ENST00000446805	protein_coding	PUTATIVE	None	1884	110	35	117119358	117171032	1	CF, ABCC7	MRP7, ABC35, TNR-CFTR, dJ760C5.1, CFTR/MRP
7	CFTR	ENSG00000001626	ENST00000003084	protein_coding	KNOWN	CCDS5773	1884	4443	1480	117120017	117308715	1	CF, ABCC7	MRP7, ABC35, TNR-CFTR, dJ760C5.1, CFTR/MRP
7	CFTR	ENSG00000001626	ENST00000426809	protein_coding	NOVEL	None	1884	4316	1437	117120149	117307125	1	CF, ABCC7	MRP7, ABC35, TNR-CFTR, dJ760C5.1, CFTR/MRP
7	CFTR	ENSG00000001626	ENST00000472848	processed_transcript	KNOWN	None	1884	None	None	117199692	117227803	1	CF, ABCC7	MRP7, ABC35, TNR-CFTR, dJ760C5.1, CFTR/MRP
7	CFTR	ENSG00000001626	ENST00000468795	protein_coding	PUTATIVE	None	1884	572	189	117251671	117267964	1	CF, ABCC7	MRP7, ABC35, TNR-CFTR, dJ760C5.1, CFTR/MRP
7	CFTR	ENSG00000001626	ENST00000600166	nonsense_mediated_decay	KNOWN	None	1884	470	155	117292897	117356002	1	CF, ABCC7	MRP7, ABC35, TNR-CFTR, dJ760C5.1, CFTR/MRP
7	CFTR	ENSG00000001626	ENST00000429014	processed_transcript	PUTATIVE	None	1884	None	None	117329767	117356025	1	CF, ABCC7	MRP7, ABC35, TNR-CFTR, dJ760C5.1, CFTR/MRP
7	CFTR	ENSG00000001626	ENST00000454343	protein_coding	KNOWN	None	1884	4260	1419	117120017	117308719	1	CF, ABCC7	MRP7, ABC35, TNR-CFTR, dJ760C5.1, CFTR/MRP
16	None	ENSG00000260710	ENST00000561649	lincRNA	KNOWN	None	None	None	None	1344552	1349167	-1	None	None
HSCHR6_MHC_APD	RPL7AP7	ENSG00000237554	ENST00000430506	processed_pseudogene	KNOWN	None	21395	None	None	29771014	29771810	-1	None	RPL7B, dJ377H14.2
HSCHR6_MHC_APD	RPL7AP7	ENSG00000237554	ENST00000546403	pseudogene	KNOWN	None	21395	None	None	29771014	29771810	-1	None	RPL7B, dJ377H14.2
Y	CTBP2P1	ENSG00000235857	ENST00000431853	processed_pseudogene	KNOWN	None	23940	None	None	59001391	59001635	1	None	None
7	PMS2P3	ENSG00000127957	ENST00000529061	transcribed_unprocessed_pseudogene	KNOWN	None	9128	None	None	75132254	75157139	-1	PMS2L9, PMS2L3	PMS5, PMSR3
7	PMS2P3	ENSG00000127957	ENST00000394921	processed_transcript	KNOWN	None	9128	None	None	75137069	75157381	-1	PMS2L9, PMS2L3	PMS5, PMSR3
7	PMS2P3	ENSG00000127957	ENST00000430602	processed_transcript	KNOWN	None	9128	None	None	75137072	75157166	-1	PMS2L9, PMS2L3	PMS5, PMSR3
7	PMS2P3	ENSG00000127957	ENST00000418756	processed_transcript	KNOWN	None	9128	None	None	75137075	75157453	-1	PMS2L9, PMS2L3	PMS5, PMSR3
7	PMS2P3	ENSG00000127957	ENST00000533167	processed_transcript	KNOWN	None	9128	None	None	75140339	75156909	-1	PMS2L9, PMS2L3	PMS5, PMSR3
7	PMS2P3	ENSG00000127957	ENST00000437568	processed_transcript	KNOWN	None	9128	None	None	75140339	75157418	-1	PMS2L9, PMS2L3	PMS5, PMSR3
7	PMS2P3	ENSG00000127957	ENST00000422064	processed_transcript	KNOWN	None	9128	None	None	75141913	75157478	-1	PMS2L9, PMS2L3	PMS5, PMSR3
7	PMS2P3	ENSG00000127957	ENST00000438326	retained_intron	KNOWN	None	9128	None	None	75145369	75155284	-1	PMS2L9, PMS2L3	PMS5, PMSR3
7	PMS2P3	ENSG00000127957	ENST00000434405	unprocessed_pseudogene	KNOWN	None	9128	None	None	75137157	75156909	-1	PMS2L9, PMS2L3	PMS5, PMSR3
7	PMS2P3	ENSG00000127957	ENST00000275580	unprocessed_pseudogene	KNOWN	None	9128	None	None	75140339	75156909	-1	PMS2L9, PMS2L3	PMS5, PMSR3
7	PMS2P3	ENSG00000127957	ENST00000301956	unprocessed_pseudogene	KNOWN	None	9128	None	None	75140359	75157139	-1	PMS2L9, PMS2L3	PMS5, PMSR3
6	PEX7	ENSG00000112357	ENST00000367756	protein_coding	KNOWN	None	8860	369	122	137143717	137151398	1	None	PTS2R, RD
6	PEX7	ENSG00000112357	ENST00000318471	protein_coding	KNOWN	CCDS5180	8860	972	323	137143723	137235075	1	None	PTS2R, RD
6	PEX7	ENSG00000112357	ENST00000541292	protein_coding	KNOWN	None	8860	843	280	137143718	137235037	1	None	PTS2R, RD
5	None	ENSG00000248202	ENST00000502324	lincRNA	KNOWN	None	None	None	None	97217124	97235457	1	None	None
5	None	ENSG00000248202	ENST00000513288	lincRNA	KNOWN	None	None	None	None	97217132	97258399	1	None	None
HSCHR6_MHC_APD	MICG	ENSG00000235714	ENST00000456598	unprocessed_pseudogene	KNOWN	None	16802	None	None	29780382	29780513	-1	None	None
HSCHR6_MHC_APD	HCG4P7	ENSG00000228490	ENST00000430856	unprocessed_pseudogene	KNOWN	None	22926	None	None	29793554	29794520	-1	None	HCGIV-07, HCGIV.C, HCGIV-7
9	None	ENSG00000224681	ENST00000416024	unprocessed_pseudogene	KNOWN	None	None	None	None	42478013	42478478	-1	None	None
16	None	ENSG00000261505	ENST00000567829	antisense	KNOWN	None	None	None	None	1367892	1372846	-1	None	None
16	None	ENSG00000261505	ENST00000568106	antisense	KNOWN	None	None	None	None	1369256	1372828	-1	None	None
1	ZBTB17	ENSG00000116809	ENST00000462525	processed_transcript	KNOWN	None	12936	None	None	16268364	16269217	-1	ZNF151, ZNF60	MIZ1, pHZ-67
1	ZBTB17	ENSG00000116809	ENST00000440560	protein_coding	KNOWN	None	12936	631	209	16268364	16269584	-1	ZNF151, ZNF60	MIZ1, pHZ-67
1	ZBTB17	ENSG00000116809	ENST00000375743	protein_coding	KNOWN	CCDS165	12936	2412	803	16268364	16302621	-1	ZNF151, ZNF60	MIZ1, pHZ-67
1	ZBTB17	ENSG00000116809	ENST00000444358	protein_coding	KNOWN	None	12936	722	239	16268902	16270923	-1	ZNF151, ZNF60	MIZ1, pHZ-67
1	ZBTB17	ENSG00000116809	ENST00000488008	processed_transcript	KNOWN	None	12936	None	None	16269251	16269879	-1	ZNF151, ZNF60	MIZ1, pHZ-67
1	ZBTB17	ENSG00000116809	ENST00000471805	processed_transcript	KNOWN	None	12936	None	None	16269735	16270853	-1	ZNF151, ZNF60	MIZ1, pHZ-67
1	ZBTB17	ENSG00000116809	ENST00000472658	processed_transcript	KNOWN	None	12936	None	None	16269752	16270421	-1	ZNF151, ZNF60	MIZ1, pHZ-67
1	ZBTB17	ENSG00000116809	ENST00000474511	processed_transcript	KNOWN	None	12936	None	None	16269924	16270888	-1	ZNF151, ZNF60	MIZ1, pHZ-67
1	ZBTB17	ENSG00000116809	ENST00000487785	processed_transcript	KNOWN	None	12936	None	None	16270094	16270898	-1	ZNF151, ZNF60	MIZ1, pHZ-67
1	ZBTB17	ENSG00000116809	ENST00000492834	processed_transcript	KNOWN	None	12936	None	None	16270912	16272579	-1	ZNF151, ZNF60	MIZ1, pHZ-67
1	ZBTB17	ENSG00000116809	ENST00000490899	processed_transcript	KNOWN	None	12936	None	None	16271483	16273600	-1	ZNF151, ZNF60	MIZ1, pHZ-67
1	ZBTB17	ENSG00000116809	ENST00000464719	processed_transcript	KNOWN	None	12936	None	None	16272216	16273787	-1	ZNF151, ZNF60	MIZ1, pHZ-67
1	ZBTB17	ENSG00000116809	ENST00000479282	processed_transcript	KNOWN	None	12936	None	None	16272341	16302599	-1	ZNF151, ZNF60	MIZ1, pHZ-67
1	ZBTB17	ENSG00000116809	ENST00000494020	processed_transcript	KNOWN	None	12936	None	None	16272428	16279468	-1	ZNF151, ZNF60	MIZ1, pHZ-67
1	ZBTB17	ENSG00000116809	ENST00000375733	protein_coding	KNOWN	None	12936	2433	810	16268366	16302627	-1	ZNF151, ZNF60	MIZ1, pHZ-67
1	ZBTB17	ENSG00000116809	ENST00000537142	protein_coding	KNOWN	CCDS55576	12936	2166	721	16268366	16302574	-1	ZNF151, ZNF60	MIZ1, pHZ-67
1	ZBTB17	ENSG00000116809	ENST00000448462	protein_coding	KNOWN	None	12936	1530	509	16270322	16302584	-1	ZNF151, ZNF60	MIZ1, pHZ-67
9	CNN2P2	ENSG00000227069	ENST00000443536	processed_pseudogene	KNOWN	None	39527	None	None	42491162	42492070	-1	None	None
19	SIGLEC5	ENSG00000105501	ENST00000534261	protein_coding	PUTATIVE	CCDS33088	10874	1656	551	52115184	52148798	-1	CD33L2	OB-BP2, SIGLEC-5, CD170
19	SIGLEC5	ENSG00000105501	ENST00000222107	protein_coding	KNOWN	None	10874	1656	551	52114781	52150151	-1	CD33L2	OB-BP2, SIGLEC-5, CD170
19	SIGLEC5	ENSG00000105501	ENST00000570106	protein_coding	KNOWN	CCDS33088	10874	1656	551	52114781	52133588	-1	CD33L2	OB-BP2, SIGLEC-5, CD170
HSCHR6_MHC_APD	HLA-H	ENSG00000231904	ENST00000437287	unprocessed_pseudogene	KNOWN	None	4965	None	None	29794010	29796732	1	None	None
5	None	ENSG00000249101	ENST00000511612	processed_pseudogene	KNOWN	None	None	None	None	97361669	97361843	1	None	None
9	None	ENSG00000232433	ENST00000453058	processed_pseudogene	KNOWN	None	None	None	None	42493617	42494809	1	None	None
19	ZNF823	ENSG00000197933	ENST00000341191	protein_coding	KNOWN	CCDS45981	30936	1833	610	11832080	11849788	-1	None	HSZFP36
19	ZNF823	ENSG00000197933	ENST00000431998	protein_coding	PUTATIVE	None	30936	1409	468	11832808	11849760	-1	None	HSZFP36
19	ZNF823	ENSG00000197933	ENST00000586121	protein_coding	PUTATIVE	None	30936	277	91	11833526	11849697	-1	None	HSZFP36
19	ZNF823	ENSG00000197933	ENST00000440527	protein_coding	PUTATIVE	None	30936	204	67	11833928	11849824	-1	None	HSZFP36
19	ZNF823	ENSG00000197933	ENST00000545749	protein_coding	KNOWN	None	30936	1287	428	11832081	11849788	-1	None	HSZFP36
16	RPS20P2	ENSG00000219274	ENST00000402520	processed_pseudogene	KNOWN	None	14195	None	None	1379079	1379778	1	None	None
19	None	ENSG00000267582	ENST00000591242	antisense	KNOWN	None	None	None	None	13907388	13907747	-1	None	None
19	RN7SL619P	ENSG00000266770	ENST00000581753	misc_RNA	KNOWN	None	46635	None	None	13925880	13926133	-1	None	None
3	BRK1	ENSG00000254999	ENST00000530758	protein_coding	KNOWN	CCDS54553	23057	228	75	10157276	10168874	1	C3orf10	MDS027, HSPC300
3	BRK1	ENSG00000254999	ENST00000256463	protein_coding	KNOWN	None	23057	318	105	10157376	10168601	1	C3orf10	MDS027, HSPC300
19	MIR24-2	ENSG00000267519	ENST00000587762	lincRNA	KNOWN	None	31608	None	None	13945330	13947103	-1	MIRN24-2	hsa-mir-24-2
19	MIR24-2	ENSG00000267519	ENST00000386972	miRNA	KNOWN	None	31608	None	None	13947101	13947173	-1	MIRN24-2	hsa-mir-24-2
5	None	ENSG00000248901	ENST00000505908	lincRNA	KNOWN	None	None	None	None	97421964	97496897	-1	None	None
19	MIR27A	ENSG00000207808	ENST00000385073	miRNA	KNOWN	None	31613	None	None	13947254	13947331	-1	MIRN27A	hsa-mir-27a
19	MIR23A	ENSG00000207980	ENST00000385245	miRNA	KNOWN	None	31605	None	None	13947401	13947473	-1	MIRN23A	hsa-mir-23a
16	None	ENSG00000260425	ENST00000569831	antisense	KNOWN	None	None	None	None	1408901	1411406	-1	None	None
5	None	ENSG00000249135	ENST00000514912	processed_pseudogene	KNOWN	None	None	None	None	97538763	97540897	1	None	None
19	MIR181C	ENSG00000207613	ENST00000384881	miRNA	KNOWN	None	31552	None	None	13985513	13985622	1	MIRN181C	hsa-mir-181c
19	MIR181D	ENSG00000207585	ENST00000384853	miRNA	KNOWN	None	32089	None	None	13985689	13985825	1	MIRN181D	hsa-mir-181d
16	None	ENSG00000265529	ENST00000581279	miRNA	NOVEL	None	None	None	None	1429290	1429424	-1	None	None
18	DTNA	ENSG00000134769	ENST00000596745	protein_coding	PUTATIVE	CCDS59313	3057	963	320	32073268	32446333	1	None	D18S892E, DTN, DTN-1, DTN-2, DTN-3, DRP3
18	DTNA	ENSG00000134769	ENST00000315456	protein_coding	KNOWN	CCDS42426	3057	1125	374	32073281	32409292	1	None	D18S892E, DTN, DTN-1, DTN-2, DTN-3, DRP3
18	DTNA	ENSG00000134769	ENST00000588771	processed_transcript	KNOWN	None	3057	None	None	32073335	32093812	1	None	D18S892E, DTN, DTN-1, DTN-2, DTN-3, DRP3
18	DTNA	ENSG00000134769	ENST00000588506	processed_transcript	KNOWN	None	3057	None	None	32073374	32093901	1	None	D18S892E, DTN, DTN-1, DTN-2, DTN-3, DRP3
18	DTNA	ENSG00000134769	ENST00000590412	protein_coding	KNOWN	None	3057	359	118	32073867	32374211	1	None	D18S892E, DTN, DTN-1, DTN-2, DTN-3, DRP3
18	DTNA	ENSG00000134769	ENST00000590598	protein_coding	KNOWN	None	3057	399	132	32137943	32386219	1	None	D18S892E, DTN, DTN-1, DTN-2, DTN-3, DRP3
18	DTNA	ENSG00000134769	ENST00000591816	protein_coding	KNOWN	None	3057	101	32	32173282	32345991	1	None	D18S892E, DTN, DTN-1, DTN-2, DTN-3, DRP3
18	DTNA	ENSG00000134769	ENST00000588125	protein_coding	KNOWN	None	3057	130	42	32173299	32345987	1	None	D18S892E, DTN, DTN-1, DTN-2, DTN-3, DRP3
18	DTNA	ENSG00000134769	ENST00000598334	protein_coding	PUTATIVE	CCDS59312	3057	2175	724	32173303	32471104	1	None	D18S892E, DTN, DTN-1, DTN-2, DTN-3, DRP3
18	DTNA	ENSG00000134769	ENST00000588684	protein_coding	KNOWN	None	3057	56	17	32173322	32335996	1	None	D18S892E, DTN, DTN-1, DTN-2, DTN-3, DRP3
18	DTNA	ENSG00000134769	ENST00000554864	protein_coding	KNOWN	CCDS56060	3057	1116	371	32173322	32409292	1	None	D18S892E, DTN, DTN-1, DTN-2, DTN-3, DRP3
18	DTNA	ENSG00000134769	ENST00000399121	protein_coding	KNOWN	CCDS56061	3057	2073	690	32173322	32471808	1	None	D18S892E, DTN, DTN-1, DTN-2, DTN-3, DRP3
18	DTNA	ENSG00000134769	ENST00000595022	protein_coding	PUTATIVE	CCDS59311	3057	2052	683	32173329	32471362	1	None	D18S892E, DTN, DTN-1, DTN-2, DTN-3, DRP3
18	DTNA	ENSG00000134769	ENST00000598774	protein_coding	PUTATIVE	CCDS59309	3057	1542	513	32259501	32446944	1	None	D18S892E, DTN, DTN-1, DTN-2, DTN-3, DRP3
18	DTNA	ENSG00000134769	ENST00000598142	protein_coding	PUTATIVE	CCDS45848	3057	2061	686	32259501	32468089	1	None	D18S892E, DTN, DTN-1, DTN-2, DTN-3, DRP3
18	DTNA	ENSG00000134769	ENST00000585446	processed_transcript	KNOWN	None	3057	None	None	32289320	32392020	1	None	D18S892E, DTN, DTN-1, DTN-2, DTN-3, DRP3
18	DTNA	ENSG00000134769	ENST00000348997	protein_coding	KNOWN	CCDS11908	3057	1704	567	32290248	32448776	1	None	D18S892E, DTN, DTN-1, DTN-2, DTN-3, DRP3
18	DTNA	ENSG00000134769	ENST00000588949	protein_coding	PUTATIVE	None	3057	303	100	32290261	32374149	1	None	D18S892E, DTN, DTN-1, DTN-2, DTN-3, DRP3
18	DTNA	ENSG00000134769	ENST00000597599	protein_coding	PUTATIVE	CCDS59310	3057	1533	510	32290261	32446311	1	None	D18S892E, DTN, DTN-1, DTN-2, DTN-3, DRP3
18	DTNA	ENSG00000134769	ENST00000399113	protein_coding	PUTATIVE	None	3057	2232	743	32335941	32464709	1	None	D18S892E, DTN, DTN-1, DTN-2, DTN-3, DRP3
18	DTNA	ENSG00000134769	ENST00000592114	processed_transcript	KNOWN	None	3057	None	None	32395571	32400832	1	None	D18S892E, DTN, DTN-1, DTN-2, DTN-3, DRP3
18	DTNA	ENSG00000134769	ENST00000590727	protein_coding	PUTATIVE	None	3057	313	103	32397926	32407618	1	None	D18S892E, DTN, DTN-1, DTN-2, DTN-3, DRP3
18	DTNA	ENSG00000134769	ENST00000601125	protein_coding	PUTATIVE	None	3057	1098	365	32397926	32468084	1	None	D18S892E, DTN, DTN-1, DTN-2, DTN-3, DRP3
18	DTNA	ENSG00000134769	ENST00000601632	processed_transcript	KNOWN	None	3057	None	None	32398226	32438279	1	None	D18S892E, DTN, DTN-1, DTN-2, DTN-3, DRP3
18	DTNA	ENSG00000134769	ENST00000601895	processed_transcript	KNOWN	None	3057	None	None	32398226	32438279	1	None	D18S892E, DTN, DTN-1, DTN-2, DTN-3, DRP3
18	DTNA	ENSG00000134769	ENST00000269192	protein_coding	PUTATIVE	CCDS56062	3057	1359	452	32398345	32467958	1	None	D18S892E, DTN, DTN-1, DTN-2, DTN-3, DRP3
18	DTNA	ENSG00000134769	ENST00000591182	protein_coding	KNOWN	CCDS11909	3057	1176	391	32398355	32467974	1	None	D18S892E, DTN, DTN-1, DTN-2, DTN-3, DRP3
18	DTNA	ENSG00000134769	ENST00000597674	protein_coding	PUTATIVE	CCDS59314	3057	579	192	32398356	32446944	1	None	D18S892E, DTN, DTN-1, DTN-2, DTN-3, DRP3
18	DTNA	ENSG00000134769	ENST00000556414	protein_coding	PUTATIVE	CCDS56063	3057	1188	395	32398356	32467802	1	None	D18S892E, DTN, DTN-1, DTN-2, DTN-3, DRP3
18	DTNA	ENSG00000134769	ENST00000599844	protein_coding	PUTATIVE	None	3057	489	162	32398412	32446125	1	None	D18S892E, DTN, DTN-1, DTN-2, DTN-3, DRP3
18	DTNA	ENSG00000134769	ENST00000587723	protein_coding	PUTATIVE	None	3057	328	108	32402326	32438328	1	None	D18S892E, DTN, DTN-1, DTN-2, DTN-3, DRP3
18	DTNA	ENSG00000134769	ENST00000590831	protein_coding	PUTATIVE	None	3057	510	169	32455201	32470507	1	None	D18S892E, DTN, DTN-1, DTN-2, DTN-3, DRP3
18	DTNA	ENSG00000134769	ENST00000592449	processed_transcript	KNOWN	None	3057	None	None	32462053	32471104	1	None	D18S892E, DTN, DTN-1, DTN-2, DTN-3, DRP3
18	DTNA	ENSG00000134769	ENST00000283365	protein_coding	KNOWN	CCDS45848	3057	2061	686	32073254	32471808	1	None	D18S892E, DTN, DTN-1, DTN-2, DTN-3, DRP3
18	DTNA	ENSG00000134769	ENST00000269190	protein_coding	KNOWN	None	3057	2235	744	32173329	32471362	1	None	D18S892E, DTN, DTN-1, DTN-2, DTN-3, DRP3
18	DTNA	ENSG00000134769	ENST00000444659	protein_coding	KNOWN	None	3057	2232	743	32335940	32471808	1	None	D18S892E, DTN, DTN-1, DTN-2, DTN-3, DRP3
18	DTNA	ENSG00000134769	ENST00000269191	protein_coding	KNOWN	None	3057	1713	570	32335940	32448774	1	None	D18S892E, DTN, DTN-1, DTN-2, DTN-3, DRP3
18	DTNA	ENSG00000134769	ENST00000399097	protein_coding	KNOWN	CCDS11909	3057	1176	391	32173329	32471362	1	None	D18S892E, DTN, DTN-1, DTN-2, DTN-3, DRP3
5	None	ENSG00000238000	ENST00000442824	processed_pseudogene	KNOWN	None	None	None	None	97549106	97549825	1	None	None
19	None	ENSG00000267670	ENST00000590528	antisense	KNOWN	None	None	None	None	14141667	14142369	-1	None	None
10	PRKG1	ENSG00000185532	ENST00000373985	protein_coding	KNOWN	None	9414	1980	659	52751118	54058110	1	PRKGR1B, PRKG1B	PGK, PKG
10	PRKG1	ENSG00000185532	ENST00000373980	protein_coding	KNOWN	CCDS7244	9414	2061	686	52833934	54058110	1	PRKGR1B, PRKG1B	PGK, PKG
10	PRKG1	ENSG00000185532	ENST00000373976	protein_coding	KNOWN	None	9414	546	181	52913039	53822622	1	PRKGR1B, PRKG1B	PGK, PKG
10	PRKG1	ENSG00000185532	ENST00000373975	protein_coding	PUTATIVE	None	9414	1170	389	53806537	54053936	1	PRKGR1B, PRKG1B	PGK, PKG
10	PRKG1	ENSG00000185532	ENST00000401604	protein_coding	KNOWN	CCDS44399	9414	2016	671	52750945	54055274	1	PRKGR1B, PRKG1B	PGK, PKG
19	EEF1DP1	ENSG00000228887	ENST00000585891	processed_pseudogene	KNOWN	None	32474	None	None	14181154	14182049	1	None	None
19	EEF1DP1	ENSG00000228887	ENST00000430596	processed_pseudogene	KNOWN	None	32474	None	None	14181210	14182052	1	None	None
16	None	ENSG00000260132	ENST00000568554	antisense	KNOWN	None	None	None	None	1458835	1462249	1	None	None
17	MYH1	ENSG00000109061	ENST00000226207	protein_coding	KNOWN	CCDS11155	7567	5820	1939	10395624	10421860	-1	None	MYHSA1, MYHa, MyHC-2X/D, MGC133384
4	RNU5A-2P	ENSG00000207065	ENST00000384337	snRNA	KNOWN	None	42515	None	None	82255457	82255572	1	None	None
11	CCND1	ENSG00000110092	ENST00000227507	protein_coding	KNOWN	CCDS8191	1582	888	295	69455855	69469242	1	BCL1, D11S287E, PRAD1	U21B31
11	CCND1	ENSG00000110092	ENST00000539241	retained_intron	KNOWN	None	1582	None	None	69455933	69458956	1	BCL1, D11S287E, PRAD1	U21B31
11	CCND1	ENSG00000110092	ENST00000536559	protein_coding	PUTATIVE	None	1582	204	67	69455974	69463008	1	BCL1, D11S287E, PRAD1	U21B31
11	CCND1	ENSG00000110092	ENST00000535993	retained_intron	KNOWN	None	1582	None	None	69455999	69458085	1	BCL1, D11S287E, PRAD1	U21B31
11	CCND1	ENSG00000110092	ENST00000545484	retained_intron	KNOWN	None	1582	None	None	69458480	69462911	1	BCL1, D11S287E, PRAD1	U21B31
11	CCND1	ENSG00000110092	ENST00000542367	retained_intron	KNOWN	None	1582	None	None	69462725	69466175	1	BCL1, D11S287E, PRAD1	U21B31
5	IL4	ENSG00000113520	ENST00000231449	protein_coding	KNOWN	CCDS4158	6014	462	153	132009678	132018368	1	None	BSF1, IL-4, BCGF1, BCGF-1, MGC79402
5	IL4	ENSG00000113520	ENST00000350025	protein_coding	KNOWN	CCDS4159	6014	414	137	132009743	132018279	1	None	BSF1, IL-4, BCGF1, BCGF-1, MGC79402
5	IL4	ENSG00000113520	ENST00000495905	processed_transcript	PUTATIVE	None	6014	None	None	132010050	132015561	1	None	BSF1, IL-4, BCGF1, BCGF-1, MGC79402
19	None	ENSG00000267783	ENST00000590715	antisense	KNOWN	None	None	None	None	14229918	14230349	1	None	None
4	None	ENSG00000251331	ENST00000514050	lincRNA	KNOWN	None	None	None	None	82523951	82965397	-1	None	None
4	None	ENSG00000251331	ENST00000512343	lincRNA	KNOWN	None	None	None	None	82524025	82965397	-1	None	None
4	None	ENSG00000251331	ENST00000510780	lincRNA	KNOWN	None	None	None	None	82524028	82965397	-1	None	None
4	None	ENSG00000251331	ENST00000508294	lincRNA	KNOWN	None	None	None	None	82556977	82965397	-1	None	None
6	TMEM244	ENSG00000203756	ENST00000368143	protein_coding	KNOWN	CCDS34536	21571	387	128	130152389	130182416	-1	C6orf191	bA174C7.4
6	TMEM244	ENSG00000203756	ENST00000438392	protein_coding	KNOWN	CCDS34536	21571	387	128	130152464	130182692	-1	C6orf191	bA174C7.4
14	PSEN1	ENSG00000080815	ENST00000557356	protein_coding	KNOWN	None	9508	405	134	73603126	73640352	1	AD3	FAD, S182, PS1
14	PSEN1	ENSG00000080815	ENST00000556864	protein_coding	KNOWN	None	9508	191	62	73603143	73637620	1	AD3	FAD, S182, PS1
14	PSEN1	ENSG00000080815	ENST00000556533	protein_coding	KNOWN	None	9508	277	91	73603143	73637706	1	AD3	FAD, S182, PS1
14	PSEN1	ENSG00000080815	ENST00000556951	protein_coding	KNOWN	None	9508	273	90	73603144	73637702	1	AD3	FAD, S182, PS1
14	PSEN1	ENSG00000080815	ENST00000557293	protein_coding	KNOWN	None	9508	298	98	73603145	73637715	1	AD3	FAD, S182, PS1
14	PSEN1	ENSG00000080815	ENST00000553719	protein_coding	KNOWN	None	9508	441	146	73603152	73640388	1	AD3	FAD, S182, PS1
14	PSEN1	ENSG00000080815	ENST00000553599	protein_coding	KNOWN	None	9508	275	90	73603153	73637704	1	AD3	FAD, S182, PS1
14	PSEN1	ENSG00000080815	ENST00000556011	protein_coding	NOVEL	None	9508	128	41	73603155	73626757	1	AD3	FAD, S182, PS1
14	PSEN1	ENSG00000080815	ENST00000394157	protein_coding	KNOWN	None	9508	555	184	73603155	73640912	1	AD3	FAD, S182, PS1
14	PSEN1	ENSG00000080815	ENST00000357710	protein_coding	KNOWN	CCDS9813	9508	1392	463	73603155	73687109	1	AD3	FAD, S182, PS1
14	PSEN1	ENSG00000080815	ENST00000324501	protein_coding	KNOWN	CCDS9812	9508	1404	467	73603155	73690399	1	AD3	FAD, S182, PS1
14	PSEN1	ENSG00000080815	ENST00000560005	protein_coding	KNOWN	None	9508	329	108	73603159	73637758	1	AD3	FAD, S182, PS1
14	PSEN1	ENSG00000080815	ENST00000555254	protein_coding	KNOWN	None	9508	467	154	73603164	73640402	1	AD3	FAD, S182, PS1
14	PSEN1	ENSG00000080815	ENST00000553447	processed_transcript	KNOWN	None	9508	None	None	73603185	73637592	1	AD3	FAD, S182, PS1
14	PSEN1	ENSG00000080815	ENST00000554131	protein_coding	KNOWN	None	9508	327	108	73603204	73637744	1	AD3	FAD, S182, PS1
14	PSEN1	ENSG00000080815	ENST00000559361	nonsense_mediated_decay	KNOWN	None	9508	174	57	73603226	73640415	1	AD3	FAD, S182, PS1
14	PSEN1	ENSG00000080815	ENST00000557037	protein_coding	KNOWN	None	9508	188	61	73603249	73637617	1	AD3	FAD, S182, PS1
14	PSEN1	ENSG00000080815	ENST00000394164	protein_coding	KNOWN	CCDS9813	9508	1392	463	73603525	73687109	1	AD3	FAD, S182, PS1
14	PSEN1	ENSG00000080815	ENST00000556066	protein_coding	KNOWN	None	9508	174	57	73614200	73637603	1	AD3	FAD, S182, PS1
14	PSEN1	ENSG00000080815	ENST00000553855	nonsense_mediated_decay	KNOWN	None	9508	1137	378	73614728	73683866	1	AD3	FAD, S182, PS1
14	PSEN1	ENSG00000080815	ENST00000555386	nonsense_mediated_decay	KNOWN	None	9508	1125	374	73614728	73685997	1	AD3	FAD, S182, PS1
14	PSEN1	ENSG00000080815	ENST00000557511	protein_coding	PUTATIVE	None	9508	1230	409	73614728	73685997	1	AD3	FAD, S182, PS1
14	PSEN1	ENSG00000080815	ENST00000406768	protein_coding	PUTATIVE	None	9508	1128	375	73634537	73687109	1	AD3	FAD, S182, PS1
14	PSEN1	ENSG00000080815	ENST00000554995	retained_intron	KNOWN	None	9508	None	None	73664418	73678561	1	AD3	FAD, S182, PS1
14	PSEN1	ENSG00000080815	ENST00000555867	retained_intron	KNOWN	None	9508	None	None	73672861	73686104	1	AD3	FAD, S182, PS1
14	PSEN1	ENSG00000080815	ENST00000261970	protein_coding	KNOWN	None	9508	1230	409	73603179	73687109	1	AD3	FAD, S182, PS1
14	PSEN1	ENSG00000080815	ENST00000344094	protein_coding	KNOWN	None	9508	1137	378	73603179	73687109	1	AD3	FAD, S182, PS1
11	MAP6	ENSG00000171533	ENST00000304771	protein_coding	KNOWN	CCDS31641	6868	2442	813	75297963	75380165	-1	None	KIAA1878, STOP, FLJ41346
11	MAP6	ENSG00000171533	ENST00000526740	protein_coding	PUTATIVE	None	6868	1455	484	75297964	75379652	-1	None	KIAA1878, STOP, FLJ41346
11	MAP6	ENSG00000171533	ENST00000526689	processed_transcript	PUTATIVE	None	6868	None	None	75299035	75310081	-1	None	KIAA1878, STOP, FLJ41346
11	MAP6	ENSG00000171533	ENST00000434603	protein_coding	KNOWN	CCDS44686	6868	1320	439	75313905	75379479	-1	None	KIAA1878, STOP, FLJ41346
HSCHR6_MHC_MANN	TRIM10	ENSG00000235025	ENST00000431258	protein_coding	KNOWN	None	10072	1446	481	30164890	30173878	-1	RNF9	RFB30, HERF1
HSCHR6_MHC_MANN	TRIM10	ENSG00000235025	ENST00000447465	protein_coding	KNOWN	None	10072	1188	395	30164890	30173878	-1	RNF9	RFB30, HERF1
HSCHR6_MHC_MANN	TRIM10	ENSG00000235025	ENST00000551591	protein_coding	KNOWN	None	10072	1446	481	30166914	30173878	-1	RNF9	RFB30, HERF1
1	CYB561D1	ENSG00000174151	ENST00000393709	protein_coding	KNOWN	CCDS44189	26804	519	172	110036674	110038894	1	None	FLJ39035, FLJ44753
1	CYB561D1	ENSG00000174151	ENST00000496961	protein_coding	PUTATIVE	None	26804	195	64	110036701	110041477	1	None	FLJ39035, FLJ44753
1	CYB561D1	ENSG00000174151	ENST00000533024	protein_coding	NOVEL	None	26804	165	54	110036702	110039177	1	None	FLJ39035, FLJ44753
1	CYB561D1	ENSG00000174151	ENST00000310611	protein_coding	KNOWN	CCDS44190	26804	402	133	110036721	110043055	1	None	FLJ39035, FLJ44753
1	CYB561D1	ENSG00000174151	ENST00000527072	protein_coding	PUTATIVE	None	26804	168	55	110036722	110039081	1	None	FLJ39035, FLJ44753
1	CYB561D1	ENSG00000174151	ENST00000420578	protein_coding	KNOWN	CCDS800	26804	690	229	110036722	110041477	1	None	FLJ39035, FLJ44753
1	CYB561D1	ENSG00000174151	ENST00000528785	protein_coding	PUTATIVE	None	26804	696	231	110036727	110045554	1	None	FLJ39035, FLJ44753
1	CYB561D1	ENSG00000174151	ENST00000369868	protein_coding	KNOWN	CCDS44188	26804	756	251	110036736	110039184	1	None	FLJ39035, FLJ44753
1	CYB561D1	ENSG00000174151	ENST00000430195	protein_coding	KNOWN	CCDS44191	26804	387	128	110036737	110043062	1	None	FLJ39035, FLJ44753
2	ORC4	ENSG00000115947	ENST00000392857	protein_coding	KNOWN	CCDS2187	8490	1311	436	148691981	148778292	-1	ORC4L	HsORC4, Orc4p
2	ORC4	ENSG00000115947	ENST00000488761	processed_transcript	KNOWN	None	8490	None	None	148693882	148695749	-1	ORC4L	HsORC4, Orc4p
2	ORC4	ENSG00000115947	ENST00000481488	retained_intron	KNOWN	None	8490	None	None	148695546	148696219	-1	ORC4L	HsORC4, Orc4p
2	ORC4	ENSG00000115947	ENST00000483608	retained_intron	KNOWN	None	8490	None	None	148705244	148710082	-1	ORC4L	HsORC4, Orc4p
2	ORC4	ENSG00000115947	ENST00000478904	retained_intron	KNOWN	None	8490	None	None	148705620	148716064	-1	ORC4L	HsORC4, Orc4p
2	ORC4	ENSG00000115947	ENST00000461711	processed_transcript	KNOWN	None	8490	None	None	148705758	148778330	-1	ORC4L	HsORC4, Orc4p
2	ORC4	ENSG00000115947	ENST00000496670	processed_transcript	KNOWN	None	8490	None	None	148709017	148730398	-1	ORC4L	HsORC4, Orc4p
2	ORC4	ENSG00000115947	ENST00000490200	processed_transcript	KNOWN	None	8490	None	None	148710041	148778332	-1	ORC4L	HsORC4, Orc4p
2	ORC4	ENSG00000115947	ENST00000416719	protein_coding	KNOWN	None	8490	436	144	148712916	148779134	-1	ORC4L	HsORC4, Orc4p
2	ORC4	ENSG00000115947	ENST00000457954	protein_coding	KNOWN	None	8490	384	127	148715870	148778293	-1	ORC4L	HsORC4, Orc4p
2	ORC4	ENSG00000115947	ENST00000440042	protein_coding	KNOWN	None	8490	382	126	148715872	148778329	-1	ORC4L	HsORC4, Orc4p
2	ORC4	ENSG00000115947	ENST00000495601	retained_intron	KNOWN	None	8490	None	None	148716161	148778295	-1	ORC4L	HsORC4, Orc4p
2	ORC4	ENSG00000115947	ENST00000264169	protein_coding	KNOWN	CCDS2187	8490	1311	436	148691732	148779147	-1	ORC4L	HsORC4, Orc4p
2	ORC4	ENSG00000115947	ENST00000535373	protein_coding	KNOWN	CCDS2187	8490	1311	436	148691732	148778463	-1	ORC4L	HsORC4, Orc4p
2	ORC4	ENSG00000115947	ENST00000392858	protein_coding	KNOWN	CCDS2187	8490	1311	436	148691732	148778319	-1	ORC4L	HsORC4, Orc4p
2	ORC4	ENSG00000115947	ENST00000540442	protein_coding	KNOWN	CCDS54405	8490	1089	362	148691732	148778463	-1	ORC4L	HsORC4, Orc4p
2	ORC4	ENSG00000115947	ENST00000536575	protein_coding	KNOWN	CCDS54404	8490	1059	352	148691732	148778463	-1	ORC4L	HsORC4, Orc4p
2	ORC4	ENSG00000115947	ENST00000542387	protein_coding	KNOWN	None	8490	660	219	148692856	148778319	-1	ORC4L	HsORC4, Orc4p
16	None	ENSG00000261641	ENST00000566287	antisense	KNOWN	None	None	None	None	1495344	1496520	1	None	None
16	AXIN1	ENSG00000103126	ENST00000461023	retained_intron	KNOWN	None	903	None	None	337440	396322	-1	None	PPP1R49
16	AXIN1	ENSG00000103126	ENST00000262320	protein_coding	KNOWN	CCDS10405	903	2589	862	337440	402659	-1	None	PPP1R49
16	AXIN1	ENSG00000103126	ENST00000354866	protein_coding	KNOWN	CCDS10406	903	2481	826	337441	402449	-1	None	PPP1R49
16	AXIN1	ENSG00000103126	ENST00000457798	protein_coding	PUTATIVE	None	903	308	101	338190	343536	-1	None	PPP1R49
16	AXIN1	ENSG00000103126	ENST00000481769	processed_transcript	KNOWN	None	903	None	None	347844	402673	-1	None	PPP1R49
14	LRP10	ENSG00000197324	ENST00000359591	protein_coding	KNOWN	CCDS9578	14553	2142	713	23340822	23350789	1	None	DKFZP564C1940, MGC8675, LRP9, MST087, MSTP087
14	LRP10	ENSG00000197324	ENST00000546834	protein_coding	KNOWN	None	14553	1671	556	23341513	23348519	1	None	DKFZP564C1940, MGC8675, LRP9, MST087, MSTP087
14	LRP10	ENSG00000197324	ENST00000553002	retained_intron	KNOWN	None	14553	None	None	23342294	23345075	1	None	DKFZP564C1940, MGC8675, LRP9, MST087, MSTP087
14	LRP10	ENSG00000197324	ENST00000551466	protein_coding	PUTATIVE	None	14553	1375	457	23344345	23349601	1	None	DKFZP564C1940, MGC8675, LRP9, MST087, MSTP087
14	LRP10	ENSG00000197324	ENST00000470660	processed_transcript	KNOWN	None	14553	None	None	23345926	23347292	1	None	DKFZP564C1940, MGC8675, LRP9, MST087, MSTP087
5	None	ENSG00000176183	ENST00000512165	processed_pseudogene	KNOWN	None	None	None	None	97674448	97675536	1	None	None
1	TAF12	ENSG00000120656	ENST00000471683	processed_transcript	KNOWN	None	11545	None	None	28915835	28944542	-1	TAF2J	TAFII20
1	TAF12	ENSG00000120656	ENST00000373824	protein_coding	KNOWN	CCDS326	11545	486	161	28929362	28969578	-1	TAF2J	TAFII20
1	TAF12	ENSG00000120656	ENST00000263974	protein_coding	KNOWN	CCDS326	11545	486	161	28929613	28969517	-1	TAF2J	TAFII20
1	TAF12	ENSG00000120656	ENST00000495422	processed_transcript	KNOWN	None	11545	None	None	28939759	28969597	-1	TAF2J	TAFII20
16	None	ENSG00000260051	ENST00000563610	antisense	KNOWN	None	None	None	None	1501761	1502654	1	None	None
15	GOLGA8F	ENSG00000153684	ENST00000564114	retained_intron	KNOWN	None	32378	None	None	28623767	28627688	1	None	DKFZp434P162
15	GOLGA8F	ENSG00000153684	ENST00000568250	retained_intron	KNOWN	None	32378	None	None	28623790	28628209	1	None	DKFZp434P162
15	GOLGA8F	ENSG00000153684	ENST00000565126	retained_intron	KNOWN	None	32378	None	None	28623810	28626599	1	None	DKFZp434P162
15	GOLGA8F	ENSG00000153684	ENST00000532622	protein_coding	NOVEL	None	32378	1947	648	28623810	28634209	1	None	DKFZp434P162
15	GOLGA8F	ENSG00000153684	ENST00000568913	retained_intron	KNOWN	None	32378	None	None	28624550	28627652	1	None	DKFZp434P162
15	GOLGA8F	ENSG00000153684	ENST00000526619	protein_coding	KNOWN	None	32378	1305	434	28623784	28637170	1	None	DKFZp434P162
15	GOLGA8F	ENSG00000153684	ENST00000337838	protein_coding	KNOWN	None	32378	852	283	28623784	28637170	1	None	DKFZp434P162
15	GOLGA8F	ENSG00000153684	ENST00000450328	protein_coding	KNOWN	None	32378	1293	430	28624878	28634804	1	None	DKFZp434P162
5	TCOF1	ENSG00000070814	ENST00000445265	protein_coding	KNOWN	CCDS47306	11654	4239	1412	149737229	149779855	1	None	treacle
5	TCOF1	ENSG00000070814	ENST00000323668	protein_coding	KNOWN	CCDS4306	11654	4236	1411	149737235	149779871	1	None	treacle
5	TCOF1	ENSG00000070814	ENST00000439160	protein_coding	KNOWN	CCDS47305	11654	4356	1451	149737277	149779605	1	None	treacle
5	TCOF1	ENSG00000070814	ENST00000394269	protein_coding	KNOWN	CCDS47307	11654	2877	958	149737281	149763812	1	None	treacle
5	TCOF1	ENSG00000070814	ENST00000427724	protein_coding	KNOWN	None	11654	4244	1413	149737282	149777932	1	None	treacle
5	TCOF1	ENSG00000070814	ENST00000504761	protein_coding	KNOWN	CCDS54936	11654	4467	1488	149737310	149778611	1	None	treacle
5	TCOF1	ENSG00000070814	ENST00000513346	protein_coding	NOVEL	None	11654	4467	1488	149737310	149779529	1	None	treacle
5	TCOF1	ENSG00000070814	ENST00000515516	protein_coding	NOVEL	None	11654	567	188	149737346	149779444	1	None	treacle
5	TCOF1	ENSG00000070814	ENST00000515035	retained_intron	KNOWN	None	11654	None	None	149747136	149760422	1	None	treacle
5	TCOF1	ENSG00000070814	ENST00000514442	retained_intron	KNOWN	None	11654	None	None	149754297	149774479	1	None	treacle
5	TCOF1	ENSG00000070814	ENST00000506063	processed_transcript	KNOWN	None	11654	None	None	149758173	149759207	1	None	treacle
5	TCOF1	ENSG00000070814	ENST00000506767	nonsense_mediated_decay	KNOWN	None	11654	445	147	149758839	149771358	1	None	treacle
5	TCOF1	ENSG00000070814	ENST00000513538	protein_coding	PUTATIVE	None	11654	203	66	149759219	149763816	1	None	treacle
5	TCOF1	ENSG00000070814	ENST00000506630	retained_intron	KNOWN	None	11654	None	None	149769510	149772454	1	None	treacle
5	TCOF1	ENSG00000070814	ENST00000451292	protein_coding	KNOWN	None	11654	4578	1525	149737202	149779870	1	None	treacle
5	TCOF1	ENSG00000070814	ENST00000377797	protein_coding	KNOWN	None	11654	4470	1489	149737202	149779870	1	None	treacle
16	None	ENSG00000261430	ENST00000563223	sense_intronic	KNOWN	None	None	None	None	1517674	1522685	-1	None	None
11	ZW10	ENSG00000086827	ENST00000200135	protein_coding	KNOWN	CCDS8363	13194	2340	779	113603909	113644533	-1	None	KNTC1AP
11	ZW10	ENSG00000086827	ENST00000535142	nonsense_mediated_decay	KNOWN	None	13194	2019	672	113603997	113644413	-1	None	KNTC1AP
11	ZW10	ENSG00000086827	ENST00000538209	nonsense_mediated_decay	KNOWN	None	13194	408	135	113618362	113644457	-1	None	KNTC1AP
4	NUPL1P1	ENSG00000251436	ENST00000502546	processed_pseudogene	KNOWN	None	44052	None	None	126602332	126604823	-1	None	None
5	KRT8P32	ENSG00000250221	ENST00000512863	processed_pseudogene	KNOWN	None	39866	None	None	97727774	97729234	-1	None	None
11	PANX1	ENSG00000110218	ENST00000227638	protein_coding	KNOWN	CCDS8296	8599	1281	426	93862094	93915138	1	None	MRS1, UNQ2529, PX1
11	PANX1	ENSG00000110218	ENST00000436171	protein_coding	KNOWN	None	8599	1269	422	93862095	93915132	1	None	MRS1, UNQ2529, PX1
4	TMEM248P1	ENSG00000249555	ENST00000510579	processed_pseudogene	KNOWN	None	44053	None	None	126644422	126645372	-1	None	None
2	UBXN2A	ENSG00000173960	ENST00000446425	processed_transcript	KNOWN	None	27265	None	None	24150155	24223690	1	UBXD4	None
2	UBXN2A	ENSG00000173960	ENST00000404924	protein_coding	KNOWN	CCDS1704	27265	780	259	24150182	24223073	1	UBXD4	None
2	UBXN2A	ENSG00000173960	ENST00000309033	protein_coding	KNOWN	CCDS1704	27265	780	259	24163289	24227779	1	UBXD4	None
2	UBXN2A	ENSG00000173960	ENST00000479859	retained_intron	KNOWN	None	27265	None	None	24194234	24200190	1	UBXD4	None
2	UBXN2A	ENSG00000173960	ENST00000535786	protein_coding	KNOWN	None	27265	621	206	24163476	24222807	1	UBXD4	None
4	None	ENSG00000251649	ENST00000505741	lincRNA	KNOWN	None	None	None	None	126991863	126993159	1	None	None
4	None	ENSG00000251005	ENST00000506038	processed_pseudogene	KNOWN	None	None	None	None	127027294	127028078	-1	None	None
21	ABCG1	ENSG00000160179	ENST00000398457	protein_coding	KNOWN	CCDS42937	73	2007	668	43619799	43717354	1	None	ABC8
21	ABCG1	ENSG00000160179	ENST00000462050	processed_transcript	KNOWN	None	73	None	None	43619922	43717354	1	None	ABC8
21	ABCG1	ENSG00000160179	ENST00000347800	protein_coding	KNOWN	CCDS13681	73	1992	663	43636187	43717354	1	None	ABC8
21	ABCG1	ENSG00000160179	ENST00000450121	protein_coding	NOVEL	None	73	772	256	43639227	43704758	1	None	ABC8
21	ABCG1	ENSG00000160179	ENST00000398449	protein_coding	KNOWN	CCDS42938	73	2001	666	43639228	43717354	1	None	ABC8
21	ABCG1	ENSG00000160179	ENST00000361802	protein_coding	KNOWN	CCDS13682	73	2037	678	43639228	43717354	1	None	ABC8
21	ABCG1	ENSG00000160179	ENST00000343687	protein_coding	KNOWN	CCDS13683	73	2034	677	43639931	43717354	1	None	ABC8
21	ABCG1	ENSG00000160179	ENST00000398437	protein_coding	KNOWN	None	73	2475	824	43676194	43717354	1	None	ABC8
21	ABCG1	ENSG00000160179	ENST00000472587	retained_intron	KNOWN	None	73	None	None	43696454	43717354	1	None	ABC8
21	ABCG1	ENSG00000160179	ENST00000467818	retained_intron	KNOWN	None	73	None	None	43696796	43706251	1	None	ABC8
21	ABCG1	ENSG00000160179	ENST00000496783	retained_intron	KNOWN	None	73	None	None	43706044	43715462	1	None	ABC8
21	ABCG1	ENSG00000160179	ENST00000340588	protein_coding	KNOWN	None	73	2361	786	43676459	43717352	1	None	ABC8
20	MMP9	ENSG00000100985	ENST00000372330	protein_coding	KNOWN	CCDS13390	7176	2124	707	44637547	44645200	1	CLG4B	None
19	ACSBG2	ENSG00000130377	ENST00000591738	protein_coding	KNOWN	None	24174	388	128	6135258	6151808	1	None	BGR, PRTD-NY3, DKFZp434K1635
19	ACSBG2	ENSG00000130377	ENST00000588304	protein_coding	KNOWN	None	24174	1851	616	6135646	6193105	1	None	BGR, PRTD-NY3, DKFZp434K1635
19	ACSBG2	ENSG00000130377	ENST00000588485	protein_coding	KNOWN	None	24174	1440	479	6135651	6193100	1	None	BGR, PRTD-NY3, DKFZp434K1635
19	ACSBG2	ENSG00000130377	ENST00000588722	protein_coding	KNOWN	None	24174	427	141	6135658	6156482	1	None	BGR, PRTD-NY3, DKFZp434K1635
19	ACSBG2	ENSG00000130377	ENST00000591403	protein_coding	KNOWN	CCDS12159	24174	2001	666	6135680	6193105	1	None	BGR, PRTD-NY3, DKFZp434K1635
19	ACSBG2	ENSG00000130377	ENST00000586696	protein_coding	KNOWN	CCDS12159	24174	2001	666	6135685	6193105	1	None	BGR, PRTD-NY3, DKFZp434K1635
19	ACSBG2	ENSG00000130377	ENST00000592677	nonsense_mediated_decay	KNOWN	None	24174	405	134	6135692	6166030	1	None	BGR, PRTD-NY3, DKFZp434K1635
19	ACSBG2	ENSG00000130377	ENST00000589401	protein_coding	KNOWN	None	24174	228	75	6135694	6147617	1	None	BGR, PRTD-NY3, DKFZp434K1635
19	ACSBG2	ENSG00000130377	ENST00000587617	nonsense_mediated_decay	KNOWN	None	24174	405	134	6135712	6166003	1	None	BGR, PRTD-NY3, DKFZp434K1635
19	ACSBG2	ENSG00000130377	ENST00000587227	nonsense_mediated_decay	KNOWN	None	24174	354	117	6156461	6177372	1	None	BGR, PRTD-NY3, DKFZp434K1635
19	ACSBG2	ENSG00000130377	ENST00000585526	processed_transcript	KNOWN	None	24174	None	None	6160571	6177379	1	None	BGR, PRTD-NY3, DKFZp434K1635
19	ACSBG2	ENSG00000130377	ENST00000591741	processed_transcript	KNOWN	None	24174	None	None	6161491	6193102	1	None	BGR, PRTD-NY3, DKFZp434K1635
19	ACSBG2	ENSG00000130377	ENST00000590132	nonsense_mediated_decay	KNOWN	None	24174	113	36	6187342	6193102	1	None	BGR, PRTD-NY3, DKFZp434K1635
19	ACSBG2	ENSG00000130377	ENST00000252669	protein_coding	KNOWN	CCDS12159	24174	2001	666	6135710	6193112	1	None	BGR, PRTD-NY3, DKFZp434K1635
1	TEDDM1	ENSG00000203730	ENST00000367565	protein_coding	KNOWN	CCDS30953	30233	822	273	182367252	182369751	-1	None	HE9, Epdd1, TMEM45C, EDDM9
4	RBM48P1	ENSG00000223620	ENST00000509661	processed_pseudogene	KNOWN	None	44054	None	None	127484664	127485931	1	None	None
12	PARP11	ENSG00000111224	ENST00000416739	nonsense_mediated_decay	KNOWN	None	1186	720	239	3900213	3982602	-1	C12orf6	None
12	PARP11	ENSG00000111224	ENST00000427057	protein_coding	KNOWN	None	1186	774	257	3918027	3982521	-1	C12orf6	None
12	PARP11	ENSG00000111224	ENST00000458162	nonsense_mediated_decay	KNOWN	None	1186	153	50	3918027	3982536	-1	C12orf6	None
12	PARP11	ENSG00000111224	ENST00000228820	protein_coding	KNOWN	CCDS8523	1186	1017	338	3918027	3982540	-1	C12orf6	None
12	PARP11	ENSG00000111224	ENST00000476985	processed_transcript	KNOWN	None	1186	None	None	3920903	3931140	-1	C12orf6	None
12	PARP11	ENSG00000111224	ENST00000453942	nonsense_mediated_decay	KNOWN	None	1186	558	185	3921289	3982516	-1	C12orf6	None
12	PARP11	ENSG00000111224	ENST00000450737	protein_coding	KNOWN	None	1186	140	45	3938140	3982608	-1	C12orf6	None
12	PARP11	ENSG00000111224	ENST00000397096	protein_coding	KNOWN	None	1186	699	232	3916250	3982608	-1	C12orf6	None
12	PARP11	ENSG00000111224	ENST00000447133	protein_coding	KNOWN	None	1186	774	257	3918027	3982608	-1	C12orf6	None
17	MPP2	ENSG00000108852	ENST00000377184	protein_coding	PUTATIVE	None	7220	1710	569	41952725	41977966	-1	DLG2	DKFZp761D0712
17	MPP2	ENSG00000108852	ENST00000269095	protein_coding	KNOWN	CCDS11471	7220	1659	552	41952725	41985113	-1	DLG2	DKFZp761D0712
17	MPP2	ENSG00000108852	ENST00000461854	protein_coding	KNOWN	None	7220	1731	576	41953530	41984894	-1	DLG2	DKFZp761D0712
17	MPP2	ENSG00000108852	ENST00000520305	protein_coding	PUTATIVE	None	7220	1242	413	41954700	41984904	-1	DLG2	DKFZp761D0712
17	MPP2	ENSG00000108852	ENST00000523501	protein_coding	NOVEL	None	7220	1626	541	41954745	41984904	-1	DLG2	DKFZp761D0712
17	MPP2	ENSG00000108852	ENST00000518766	protein_coding	PUTATIVE	None	7220	1794	597	41955130	41987068	-1	DLG2	DKFZp761D0712
17	MPP2	ENSG00000108852	ENST00000523220	protein_coding	NOVEL	None	7220	569	188	41959713	41985127	-1	DLG2	DKFZp761D0712
17	MPP2	ENSG00000108852	ENST00000473246	processed_transcript	KNOWN	None	7220	None	None	41959742	41978932	-1	DLG2	DKFZp761D0712
17	MPP2	ENSG00000108852	ENST00000520319	retained_intron	KNOWN	None	7220	None	None	41959811	41984674	-1	DLG2	DKFZp761D0712
17	MPP2	ENSG00000108852	ENST00000520406	protein_coding	KNOWN	None	7220	453	150	41960271	41984835	-1	DLG2	DKFZp761D0712
17	MPP2	ENSG00000108852	ENST00000523762	protein_coding	NOVEL	None	7220	420	139	41960271	41987051	-1	DLG2	DKFZp761D0712
17	MPP2	ENSG00000108852	ENST00000523934	protein_coding	KNOWN	None	7220	446	147	41960278	41984601	-1	DLG2	DKFZp761D0712
17	MPP2	ENSG00000108852	ENST00000520241	protein_coding	NOVEL	None	7220	431	142	41960311	41984911	-1	DLG2	DKFZp761D0712
17	MPP2	ENSG00000108852	ENST00000521178	protein_coding	KNOWN	None	7220	378	125	41960346	41984903	-1	DLG2	DKFZp761D0712
17	MPP2	ENSG00000108852	ENST00000524294	processed_transcript	KNOWN	None	7220	None	None	41960387	41982957	-1	DLG2	DKFZp761D0712
17	MPP2	ENSG00000108852	ENST00000522172	protein_coding	KNOWN	None	7220	220	72	41960654	41984843	-1	DLG2	DKFZp761D0712
17	MPP2	ENSG00000108852	ENST00000518478	protein_coding	KNOWN	None	7220	95	30	41975685	41984839	-1	DLG2	DKFZp761D0712
17	MPP2	ENSG00000108852	ENST00000536246	protein_coding	KNOWN	None	7220	1626	541	41954807	41978930	-1	DLG2	DKFZp761D0712
4	None	ENSG00000199862	ENST00000362992	misc_RNA	NOVEL	None	None	None	None	127949262	127949374	-1	None	None
4	None	ENSG00000250945	ENST00000506852	lincRNA	KNOWN	None	None	None	None	127964585	127998917	-1	None	None
12	SLC35E3	ENSG00000175782	ENST00000398004	protein_coding	KNOWN	CCDS41808	20864	942	313	69139886	69162470	1	None	BLOV1
12	SLC35E3	ENSG00000175782	ENST00000319429	processed_transcript	KNOWN	None	20864	None	None	69141767	69153976	1	None	BLOV1
12	SLC35E3	ENSG00000175782	ENST00000431174	protein_coding	PUTATIVE	None	20864	378	125	69145869	69161025	1	None	BLOV1
12	SLC35E3	ENSG00000175782	ENST00000538043	processed_transcript	PUTATIVE	None	20864	None	None	69145931	69187508	1	None	BLOV1
4	None	ENSG00000248491	ENST00000513519	lincRNA	KNOWN	None	None	None	None	128018046	128027926	-1	None	None
4	None	ENSG00000248491	ENST00000504050	lincRNA	KNOWN	None	None	None	None	128018253	128391707	-1	None	None
4	None	ENSG00000248491	ENST00000509671	lincRNA	KNOWN	None	None	None	None	128322881	128391724	-1	None	None
2	GPR75-ASB3	ENSG00000115239	ENST00000406053	protein_coding	PUTATIVE	None	40043	1432	476	53759810	53992686	-1	None	None
2	GPR75-ASB3	ENSG00000115239	ENST00000482339	processed_transcript	KNOWN	None	40043	None	None	53808341	53833215	-1	None	None
2	GPR75-ASB3	ENSG00000115239	ENST00000490794	processed_transcript	PUTATIVE	None	40043	None	None	53831784	53833596	-1	None	None
2	GPR75-ASB3	ENSG00000115239	ENST00000263634	protein_coding	KNOWN	CCDS1846	40043	1557	518	53897118	54014079	-1	None	None
2	GPR75-ASB3	ENSG00000115239	ENST00000482829	processed_transcript	KNOWN	None	40043	None	None	53897435	53995383	-1	None	None
2	GPR75-ASB3	ENSG00000115239	ENST00000406687	protein_coding	KNOWN	CCDS1847	40043	1338	445	53897456	54014081	-1	None	None
2	GPR75-ASB3	ENSG00000115239	ENST00000394717	protein_coding	KNOWN	CCDS1847	40043	1338	445	53897456	54014146	-1	None	None
2	GPR75-ASB3	ENSG00000115239	ENST00000470707	retained_intron	KNOWN	None	40043	None	None	53897743	53921699	-1	None	None
2	GPR75-ASB3	ENSG00000115239	ENST00000470916	processed_transcript	KNOWN	None	40043	None	None	53941713	54013986	-1	None	None
2	GPR75-ASB3	ENSG00000115239	ENST00000480522	processed_transcript	KNOWN	None	40043	None	None	53955909	53992698	-1	None	None
2	GPR75-ASB3	ENSG00000115239	ENST00000489508	processed_transcript	KNOWN	None	40043	None	None	53956598	53994663	-1	None	None
2	GPR75-ASB3	ENSG00000115239	ENST00000482134	processed_transcript	KNOWN	None	40043	None	None	53977921	53994664	-1	None	None
2	GPR75-ASB3	ENSG00000115239	ENST00000414369	processed_transcript	KNOWN	None	40043	None	None	53984008	54014747	-1	None	None
2	GPR75-ASB3	ENSG00000115239	ENST00000352846	protein_coding	KNOWN	CCDS54361	40043	1671	556	53897456	54087170	-1	None	None
4	None	ENSG00000248209	ENST00000514125	processed_pseudogene	KNOWN	None	None	None	None	128414660	128414983	1	None	None
HSCHR6_MHC_COX	EGFL8	ENSG00000242038	ENST00000447331	protein_coding	KNOWN	None	13944	882	293	32080837	32084535	1	C6orf8	NG3
HSCHR6_MHC_COX	EGFL8	ENSG00000242038	ENST00000399648	protein_coding	KNOWN	None	13944	882	293	32080859	32084535	1	C6orf8	NG3
HSCHR6_MHC_COX	EGFL8	ENSG00000242038	ENST00000422193	protein_coding	KNOWN	None	13944	775	257	32080914	32083910	1	C6orf8	NG3
HSCHR6_MHC_COX	EGFL8	ENSG00000242038	ENST00000482296	retained_intron	KNOWN	None	13944	None	None	32081490	32084535	1	C6orf8	NG3
HSCHR6_MHC_COX	EGFL8	ENSG00000242038	ENST00000488043	retained_intron	KNOWN	None	13944	None	None	32082447	32083423	1	C6orf8	NG3
HSCHR6_MHC_COX	EGFL8	ENSG00000242038	ENST00000466627	processed_transcript	KNOWN	None	13944	None	None	32083797	32084535	1	C6orf8	NG3
1	AMIGO1	ENSG00000181754	ENST00000369864	protein_coding	KNOWN	CCDS30795	20824	1482	493	110046797	110052304	-1	None	AMIGO, KIAA1163
1	AMIGO1	ENSG00000181754	ENST00000369862	protein_coding	KNOWN	CCDS30795	20824	1482	493	110049690	110052360	-1	None	AMIGO, KIAA1163
4	None	ENSG00000249795	ENST00000504623	processed_pseudogene	KNOWN	None	None	None	None	128419482	128419962	1	None	None
6	None	ENSG00000216902	ENST00000403365	processed_pseudogene	KNOWN	None	None	None	None	85967046	85967412	1	None	None
19	CASP14	ENSG00000105141	ENST00000427043	protein_coding	KNOWN	CCDS12323	1502	729	242	15160195	15169104	1	None	MICE, MGC119078, MGC119079
19	CASP14	ENSG00000105141	ENST00000598738	retained_intron	KNOWN	None	1502	None	None	15165713	15167089	1	None	MICE, MGC119078, MGC119079
19	CASP14	ENSG00000105141	ENST00000221740	protein_coding	KNOWN	CCDS12323	1502	729	242	15163015	15166900	1	None	MICE, MGC119078, MGC119079
4	None	ENSG00000244021	ENST00000491435	processed_pseudogene	KNOWN	None	None	None	None	128733875	128734355	-1	None	None
4	None	ENSG00000244021	ENST00000602033	processed_pseudogene	KNOWN	None	None	None	None	128733873	128734355	-1	None	None
11	SOX6	ENSG00000110693	ENST00000316399	protein_coding	KNOWN	CCDS7821	16421	2427	808	15987995	16362815	-1	None	None
11	SOX6	ENSG00000110693	ENST00000528252	protein_coding	KNOWN	CCDS53604	16421	2406	801	15994245	16430430	-1	None	None
11	SOX6	ENSG00000110693	ENST00000527619	protein_coding	PUTATIVE	CCDS53605	16421	2415	804	15994254	16424392	-1	None	None
11	SOX6	ENSG00000110693	ENST00000528429	protein_coding	KNOWN	None	16421	2487	828	15994254	16424409	-1	None	None
11	SOX6	ENSG00000110693	ENST00000527840	processed_transcript	KNOWN	None	16421	None	None	16007811	16036873	-1	None	None
11	SOX6	ENSG00000110693	ENST00000524650	processed_transcript	KNOWN	None	16421	None	None	16071328	16133415	-1	None	None
11	SOX6	ENSG00000110693	ENST00000531297	processed_transcript	KNOWN	None	16421	None	None	16208327	16274082	-1	None	None
11	SOX6	ENSG00000110693	ENST00000533411	protein_coding	KNOWN	None	16421	477	158	16256186	16419108	-1	None	None
11	SOX6	ENSG00000110693	ENST00000530378	nonsense_mediated_decay	KNOWN	None	16421	480	159	16285995	16760190	-1	None	None
11	SOX6	ENSG00000110693	ENST00000533870	retained_intron	KNOWN	None	16421	None	None	16332791	16362815	-1	None	None
11	SOX6	ENSG00000110693	ENST00000533658	processed_transcript	KNOWN	None	16421	None	None	16339576	16627538	-1	None	None
11	SOX6	ENSG00000110693	ENST00000526673	protein_coding	KNOWN	None	16421	419	138	16340018	16403944	-1	None	None
11	SOX6	ENSG00000110693	ENST00000529469	protein_coding	KNOWN	None	16421	238	78	16362557	16455997	-1	None	None
11	SOX6	ENSG00000110693	ENST00000525835	processed_transcript	KNOWN	None	16421	None	None	16487328	16629274	-1	None	None
11	SOX6	ENSG00000110693	ENST00000524520	processed_transcript	KNOWN	None	16421	None	None	16487338	16760190	-1	None	None
11	SOX6	ENSG00000110693	ENST00000525259	processed_transcript	KNOWN	None	16421	None	None	16497885	16761138	-1	None	None
11	SOX6	ENSG00000110693	ENST00000352083	protein_coding	KNOWN	None	16421	2487	828	15987995	16497935	-1	None	None
11	SOX6	ENSG00000110693	ENST00000396356	protein_coding	KNOWN	CCDS7821	16421	2427	808	15987995	16497935	-1	None	None
1	RAB42	ENSG00000188060	ENST00000373826	protein_coding	KNOWN	CCDS325	28702	318	105	28918712	28921955	1	None	MGC45806
1	RAB42	ENSG00000188060	ENST00000465518	processed_transcript	KNOWN	None	28702	None	None	28919027	28920812	1	None	MGC45806
11	ZFPL1	ENSG00000162300	ENST00000525509	protein_coding	PUTATIVE	None	12868	198	65	64851695	64852484	1	None	D11S750, MCG4
11	ZFPL1	ENSG00000162300	ENST00000531761	nonsense_mediated_decay	KNOWN	None	12868	243	80	64851702	64854256	1	None	D11S750, MCG4
11	ZFPL1	ENSG00000162300	ENST00000453524	nonsense_mediated_decay	KNOWN	None	12868	330	109	64851707	64854261	1	None	D11S750, MCG4
11	ZFPL1	ENSG00000162300	ENST00000294258	protein_coding	KNOWN	CCDS8092	12868	933	310	64851707	64855870	1	None	D11S750, MCG4
11	ZFPL1	ENSG00000162300	ENST00000526289	retained_intron	KNOWN	None	12868	None	None	64851713	64853336	1	None	D11S750, MCG4
11	ZFPL1	ENSG00000162300	ENST00000533216	retained_intron	KNOWN	None	12868	None	None	64851714	64853485	1	None	D11S750, MCG4
11	ZFPL1	ENSG00000162300	ENST00000526440	retained_intron	KNOWN	None	12868	None	None	64851714	64853911	1	None	D11S750, MCG4
11	ZFPL1	ENSG00000162300	ENST00000526334	protein_coding	KNOWN	None	12868	565	187	64851714	64854483	1	None	D11S750, MCG4
11	ZFPL1	ENSG00000162300	ENST00000526791	protein_coding	PUTATIVE	None	12868	198	65	64851762	64852475	1	None	D11S750, MCG4
11	ZFPL1	ENSG00000162300	ENST00000526945	protein_coding	NOVEL	None	12868	518	171	64851801	64854454	1	None	D11S750, MCG4
11	ZFPL1	ENSG00000162300	ENST00000532200	protein_coding	KNOWN	None	12868	622	206	64851991	64854540	1	None	D11S750, MCG4
11	ZFPL1	ENSG00000162300	ENST00000530488	protein_coding	NOVEL	None	12868	158	51	64852625	64854261	1	None	D11S750, MCG4
11	ZFPL1	ENSG00000162300	ENST00000530744	nonsense_mediated_decay	KNOWN	None	12868	32	9	64852759	64854882	1	None	D11S750, MCG4
11	ZFPL1	ENSG00000162300	ENST00000528123	retained_intron	KNOWN	None	12868	None	None	64853811	64854888	1	None	D11S750, MCG4
6	None	ENSG00000217060	ENST00000402742	unprocessed_pseudogene	KNOWN	None	None	None	None	85995794	86000567	1	None	None
4	NDUFC1	ENSG00000109390	ENST00000503997	nonsense_mediated_decay	KNOWN	CCDS3746	7705	231	76	140188034	140216969	-1	None	KFYI
4	NDUFC1	ENSG00000109390	ENST00000394228	protein_coding	KNOWN	CCDS3746	7705	231	76	140211071	140223705	-1	None	KFYI
4	NDUFC1	ENSG00000109390	ENST00000505036	protein_coding	KNOWN	CCDS3746	7705	231	76	140211092	140222358	-1	None	KFYI
4	NDUFC1	ENSG00000109390	ENST00000503453	processed_transcript	KNOWN	None	7705	None	None	140211107	140222574	-1	None	KFYI
4	NDUFC1	ENSG00000109390	ENST00000394225	processed_transcript	KNOWN	None	7705	None	None	140211107	140223680	-1	None	KFYI
4	NDUFC1	ENSG00000109390	ENST00000394223	protein_coding	KNOWN	CCDS3746	7705	231	76	140211185	140223633	-1	None	KFYI
4	NDUFC1	ENSG00000109390	ENST00000513022	processed_transcript	KNOWN	None	7705	None	None	140216272	140222387	-1	None	KFYI
4	NDUFC1	ENSG00000109390	ENST00000507764	processed_transcript	KNOWN	None	7705	None	None	140216886	140222364	-1	None	KFYI
4	NDUFC1	ENSG00000109390	ENST00000539387	protein_coding	KNOWN	CCDS3746	7705	231	76	140211071	140223705	-1	None	KFYI
4	NDUFC1	ENSG00000109390	ENST00000544855	protein_coding	KNOWN	CCDS3746	7705	231	76	140211071	140222364	-1	None	KFYI
4	NDUFC1	ENSG00000109390	ENST00000539002	protein_coding	KNOWN	CCDS3746	7705	231	76	140211071	140222364	-1	None	KFYI
4	NDUFC1	ENSG00000109390	ENST00000265500	protein_coding	KNOWN	CCDS3746	7705	231	76	140211092	140216957	-1	None	KFYI
3	C3orf83	ENSG00000225526	ENST00000567514	processed_transcript	KNOWN	None	40375	None	None	12556433	12602558	-1	MKRN2-AS1	None
3	C3orf83	ENSG00000225526	ENST00000561645	nonsense_mediated_decay	KNOWN	None	40375	231	76	12581471	12587021	-1	MKRN2-AS1	None
3	C3orf83	ENSG00000225526	ENST00000564146	protein_coding	NOVEL	CCDS58816	40375	672	223	12581471	12587055	-1	MKRN2-AS1	None
3	C3orf83	ENSG00000225526	ENST00000447550	processed_transcript	KNOWN	None	40375	None	None	12595267	12602519	-1	MKRN2-AS1	None
7	PUS7	ENSG00000091127	ENST00000481939	nonsense_mediated_decay	KNOWN	None	26033	1347	448	105080108	105162714	-1	None	FLJ20485
7	PUS7	ENSG00000091127	ENST00000356362	protein_coding	KNOWN	CCDS34725	26033	1986	661	105096958	105162705	-1	None	FLJ20485
7	PUS7	ENSG00000091127	ENST00000469408	protein_coding	KNOWN	CCDS34725	26033	1986	661	105098106	105162705	-1	None	FLJ20485
7	PUS7	ENSG00000091127	ENST00000478208	retained_intron	KNOWN	None	26033	None	None	105110733	105112635	-1	None	FLJ20485
7	PUS7	ENSG00000091127	ENST00000487277	retained_intron	KNOWN	None	26033	None	None	105131996	105135794	-1	None	FLJ20485
7	PUS7	ENSG00000091127	ENST00000482157	protein_coding	NOVEL	None	26033	395	130	105132033	105148582	-1	None	FLJ20485
7	RSPH10B2	ENSG00000169402	ENST00000403107	protein_coding	KNOWN	CCDS43552	34385	2613	870	6793740	6838394	1	None	None
7	RSPH10B2	ENSG00000169402	ENST00000404077	protein_coding	KNOWN	CCDS43552	34385	2613	870	6793740	6838396	1	None	None
7	RSPH10B2	ENSG00000169402	ENST00000435395	protein_coding	KNOWN	None	34385	29	8	6793748	6797337	1	None	None
7	RSPH10B2	ENSG00000169402	ENST00000418406	protein_coding	KNOWN	None	34385	177	58	6793748	6797485	1	None	None
7	RSPH10B2	ENSG00000169402	ENST00000485129	processed_transcript	KNOWN	None	34385	None	None	6793755	6816093	1	None	None
7	RSPH10B2	ENSG00000169402	ENST00000489190	processed_transcript	KNOWN	None	34385	None	None	6800926	6813054	1	None	None
7	RSPH10B2	ENSG00000169402	ENST00000463354	processed_transcript	KNOWN	None	34385	None	None	6800945	6836561	1	None	None
7	RSPH10B2	ENSG00000169402	ENST00000497737	processed_transcript	KNOWN	None	34385	None	None	6801068	6808298	1	None	None
7	RSPH10B2	ENSG00000169402	ENST00000485920	nonsense_mediated_decay	KNOWN	None	34385	972	323	6805337	6838996	1	None	None
7	RSPH10B2	ENSG00000169402	ENST00000493745	retained_intron	KNOWN	None	34385	None	None	6810814	6813045	1	None	None
7	RSPH10B2	ENSG00000169402	ENST00000297186	protein_coding	KNOWN	CCDS43552	34385	2613	870	6796986	6838396	1	None	None
7	RSPH10B2	ENSG00000169402	ENST00000433859	protein_coding	KNOWN	CCDS43552	34385	2613	870	6797288	6838215	1	None	None
7	RSPH10B2	ENSG00000169402	ENST00000359718	protein_coding	KNOWN	None	34385	843	280	6797288	6838215	1	None	None
6	KRT18P64	ENSG00000213211	ENST00000434946	processed_pseudogene	KNOWN	None	48891	None	None	85997507	85998725	1	None	None
HSCHR6_MHC_QBL	RXRB	ENSG00000206289	ENST00000383217	protein_coding	KNOWN	None	10478	1602	533	33090190	33097291	-1	None	NR2B2, H-2RIIBP, RCoR-1
HSCHR6_MHC_QBL	RXRB	ENSG00000206289	ENST00000383216	protein_coding	KNOWN	None	10478	1614	537	33090205	33097217	-1	None	NR2B2, H-2RIIBP, RCoR-1
HSCHR6_MHC_QBL	RXRB	ENSG00000206289	ENST00000485267	nonsense_mediated_decay	KNOWN	None	10478	240	79	33090823	33097240	-1	None	NR2B2, H-2RIIBP, RCoR-1
HSCHR6_MHC_QBL	RXRB	ENSG00000206289	ENST00000486581	retained_intron	KNOWN	None	10478	None	None	33091267	33091963	-1	None	NR2B2, H-2RIIBP, RCoR-1
HSCHR6_MHC_QBL	RXRB	ENSG00000206289	ENST00000441299	protein_coding	KNOWN	None	10478	287	94	33091652	33093041	-1	None	NR2B2, H-2RIIBP, RCoR-1
HSCHR6_MHC_QBL	RXRB	ENSG00000206289	ENST00000472425	retained_intron	KNOWN	None	10478	None	None	33092388	33095238	-1	None	NR2B2, H-2RIIBP, RCoR-1
HSCHR6_MHC_QBL	RXRB	ENSG00000206289	ENST00000546468	protein_coding	KNOWN	None	10478	1179	392	33090191	33097258	-1	None	NR2B2, H-2RIIBP, RCoR-1
HSCHR6_MHC_QBL	RXRB	ENSG00000206289	ENST00000552454	protein_coding	KNOWN	None	10478	1170	389	33090191	33097258	-1	None	NR2B2, H-2RIIBP, RCoR-1
6	None	ENSG00000234155	ENST00000455071	lincRNA	KNOWN	None	None	None	None	86096937	86099904	-1	None	None
1	GPR61	ENSG00000156097	ENST00000404129	nonsense_mediated_decay	KNOWN	CCDS801	13300	1356	451	110082494	110088466	1	None	BALGR
1	GPR61	ENSG00000156097	ENST00000527748	protein_coding	KNOWN	CCDS801	13300	1356	451	110082494	110089882	1	None	BALGR
1	GPR61	ENSG00000156097	ENST00000469383	nonsense_mediated_decay	KNOWN	CCDS801	13300	1356	451	110082543	110091028	1	None	BALGR
1	GPR61	ENSG00000156097	ENST00000533959	processed_transcript	PUTATIVE	None	13300	None	None	110082550	110085498	1	None	BALGR
1	GPR61	ENSG00000156097	ENST00000526744	processed_transcript	PUTATIVE	None	13300	None	None	110087933	110089881	1	None	BALGR
HSCHR6_MHC_APD	HLA-T	ENSG00000232988	ENST00000419153	unprocessed_pseudogene	KNOWN	None	23478	None	None	29802806	29803937	1	HLA-16	None
6	DUTP5	ENSG00000216439	ENST00000406790	processed_pseudogene	KNOWN	None	39518	None	None	86136375	86136843	-1	None	None
HSCHR6_MHC_APD	DDX39BP1	ENSG00000235697	ENST00000452321	unprocessed_pseudogene	KNOWN	None	33450	None	None	29812771	29813137	1	BAT1P1	None
HSCHR6_MHC_APD	MCCD1P1	ENSG00000224538	ENST00000436853	unprocessed_pseudogene	KNOWN	None	33449	None	None	29814010	29814872	-1	None	OTTHUMG00000130506
19	SAE1	ENSG00000142230	ENST00000594144	protein_coding	PUTATIVE	None	30660	471	156	47616531	47673110	1	None	AOS1, FLJ3091, Sua1
19	SAE1	ENSG00000142230	ENST00000594526	protein_coding	PUTATIVE	None	30660	295	97	47616698	47656257	1	None	AOS1, FLJ3091, Sua1
19	SAE1	ENSG00000142230	ENST00000597808	protein_coding	PUTATIVE	None	30660	399	132	47634039	47658434	1	None	AOS1, FLJ3091, Sua1
19	SAE1	ENSG00000142230	ENST00000413379	protein_coding	KNOWN	CCDS54285	30660	900	299	47634086	47713886	1	None	AOS1, FLJ3091, Sua1
19	SAE1	ENSG00000142230	ENST00000600706	protein_coding	PUTATIVE	None	30660	616	204	47634087	47673159	1	None	AOS1, FLJ3091, Sua1
19	SAE1	ENSG00000142230	ENST00000598840	protein_coding	NOVEL	None	30660	798	265	47634095	47713448	1	None	AOS1, FLJ3091, Sua1
19	SAE1	ENSG00000142230	ENST00000414294	nonsense_mediated_decay	KNOWN	None	30660	900	299	47634116	47713448	1	None	AOS1, FLJ3091, Sua1
19	SAE1	ENSG00000142230	ENST00000600753	protein_coding	PUTATIVE	None	30660	213	70	47634118	47656295	1	None	AOS1, FLJ3091, Sua1
19	SAE1	ENSG00000142230	ENST00000270225	protein_coding	KNOWN	CCDS12696	30660	1041	346	47634120	47713448	1	None	AOS1, FLJ3091, Sua1
19	SAE1	ENSG00000142230	ENST00000596995	nonsense_mediated_decay	KNOWN	None	30660	153	50	47634146	47713447	1	None	AOS1, FLJ3091, Sua1
19	SAE1	ENSG00000142230	ENST00000392776	protein_coding	KNOWN	CCDS54284	30660	801	266	47634152	47713427	1	None	AOS1, FLJ3091, Sua1
19	SAE1	ENSG00000142230	ENST00000540850	protein_coding	KNOWN	None	30660	519	172	47634092	47712625	1	None	AOS1, FLJ3091, Sua1
12	BRI3BP	ENSG00000184992	ENST00000341446	protein_coding	KNOWN	CCDS9262	14251	756	251	125478246	125515777	1	None	BNAS1, KG19, HCCR-2
HSCHR6_MHC_APD	HCG4B	ENSG00000231287	ENST00000421242	unprocessed_pseudogene	KNOWN	None	22919	None	None	29832179	29833169	-1	HCG4P6	HCGIV-6, HCGIV.5, HCGIV-06, bCX67J3.3, Em:AB023056.16, bPG309N1.1, bQB90C11.3
22	GAS2L1	ENSG00000185340	ENST00000407647	protein_coding	KNOWN	None	16955	1614	537	29702572	29708774	1	None	GAR22
22	GAS2L1	ENSG00000185340	ENST00000416823	protein_coding	KNOWN	None	16955	415	137	29702608	29704510	1	None	GAR22
22	GAS2L1	ENSG00000185340	ENST00000428622	protein_coding	KNOWN	None	16955	430	142	29702640	29704525	1	None	GAR22
22	GAS2L1	ENSG00000185340	ENST00000406549	protein_coding	PUTATIVE	None	16955	1365	454	29703013	29708774	1	None	GAR22
22	GAS2L1	ENSG00000185340	ENST00000341313	protein_coding	KNOWN	CCDS13853	16955	1014	337	29703031	29708083	1	None	GAR22
22	GAS2L1	ENSG00000185340	ENST00000403764	protein_coding	KNOWN	None	16955	1614	537	29703042	29708774	1	None	GAR22
22	GAS2L1	ENSG00000185340	ENST00000487341	retained_intron	KNOWN	None	16955	None	None	29703048	29703789	1	None	GAR22
22	GAS2L1	ENSG00000185340	ENST00000471961	protein_coding	KNOWN	None	16955	1614	537	29703048	29708774	1	None	GAR22
22	GAS2L1	ENSG00000185340	ENST00000407854	protein_coding	KNOWN	None	16955	1614	537	29703048	29708774	1	None	GAR22
22	GAS2L1	ENSG00000185340	ENST00000491016	retained_intron	KNOWN	None	16955	None	None	29706269	29707097	1	None	GAR22
22	GAS2L1	ENSG00000185340	ENST00000360113	protein_coding	KNOWN	None	16955	990	329	29703013	29708771	1	None	GAR22
HSCHR6_MHC_APD	HLA-K	ENSG00000233964	ENST00000455932	unprocessed_pseudogene	KNOWN	None	4969	None	None	29832655	29835432	1	HLAK, HLA70	HLA-70
HSCHR6_MHC_QBL	SLC44A4	ENSG00000206378	ENST00000383379	protein_coding	KNOWN	None	13941	2133	710	31821363	31837173	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_QBL	SLC44A4	ENSG00000206378	ENST00000458130	protein_coding	KNOWN	None	13941	1233	410	31823862	31837139	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_QBL	SLC44A4	ENSG00000206378	ENST00000494147	retained_intron	KNOWN	None	13941	None	None	31824231	31829371	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_QBL	SLC44A4	ENSG00000206378	ENST00000486317	retained_intron	KNOWN	None	13941	None	None	31827765	31829413	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_QBL	SLC44A4	ENSG00000206378	ENST00000497745	processed_transcript	KNOWN	None	13941	None	None	31832697	31837169	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_QBL	SLC44A4	ENSG00000206378	ENST00000487790	processed_transcript	KNOWN	None	13941	None	None	31832994	31837169	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_QBL	SLC44A4	ENSG00000206378	ENST00000549677	protein_coding	KNOWN	None	13941	2007	668	31821366	31837218	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_QBL	SLC44A4	ENSG00000206378	ENST00000547684	protein_coding	KNOWN	None	13941	1905	634	31821366	31835843	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_APD	HLA-U	ENSG00000227366	ENST00000445948	unprocessed_pseudogene	KNOWN	None	23477	None	None	29838543	29838728	1	HLA-21	Em:AB023056.13
11	FOLR4	ENSG00000183560	ENST00000440961	protein_coding	NOVEL	None	32565	732	243	94038759	94040887	1	None	Folbp3
11	FOLR4	ENSG00000183560	ENST00000328458	protein_coding	NOVEL	None	32565	583	193	94038822	94040707	1	None	Folbp3
10	None	ENSG00000236787	ENST00000453154	processed_pseudogene	KNOWN	None	None	None	None	51339438	51339770	1	None	None
5	C5orf30	ENSG00000181751	ENST00000319933	protein_coding	KNOWN	CCDS4095	25052	621	206	102594403	102614361	1	None	FLJ25291
5	C5orf30	ENSG00000181751	ENST00000515669	protein_coding	KNOWN	CCDS4095	25052	621	206	102594737	102612929	1	None	FLJ25291
5	C5orf30	ENSG00000181751	ENST00000510890	protein_coding	KNOWN	CCDS4095	25052	621	206	102595125	102614072	1	None	FLJ25291
12	HCAR2	ENSG00000182782	ENST00000328880	protein_coding	KNOWN	CCDS9235	24827	1092	363	123185840	123187890	-1	GPR109A	HCA2, HM74A, PUMAG, Puma-g, NIACR1
1	GMEB1	ENSG00000162419	ENST00000373816	protein_coding	KNOWN	CCDS328	4370	1692	563	28995244	29045865	1	None	P96PIF, PIF96
1	GMEB1	ENSG00000162419	ENST00000361872	protein_coding	KNOWN	CCDS328	4370	1692	563	28995290	29041398	1	None	P96PIF, PIF96
1	GMEB1	ENSG00000162419	ENST00000294409	protein_coding	KNOWN	CCDS327	4370	1722	573	28995292	29041385	1	None	P96PIF, PIF96
1	GMEB1	ENSG00000162419	ENST00000480454	processed_transcript	KNOWN	None	4370	None	None	29010076	29041577	1	None	P96PIF, PIF96
HSCHR6_MHC_APD	HCG4P5	ENSG00000234831	ENST00000417944	unprocessed_pseudogene	KNOWN	None	22925	None	None	29846341	29847333	-1	None	HCGIV-05, HCGIV.4, HCGIV-5
10	None	ENSG00000223182	ENST00000411250	snoRNA	NOVEL	None	None	None	None	51383526	51383726	1	None	None
6	None	ENSG00000252687	ENST00000516878	snoRNA	NOVEL	None	None	None	None	37151373	37151444	-1	None	None
6	None	ENSG00000238375	ENST00000459447	snoRNA	NOVEL	None	None	None	None	37218980	37219082	-1	None	None
HSCHR6_MHC_APD	HLA-W	ENSG00000235144	ENST00000419856	unprocessed_pseudogene	KNOWN	None	23425	None	None	29860828	29862802	1	HLA-80	None
10	None	ENSG00000228326	ENST00000439573	processed_pseudogene	KNOWN	None	None	None	None	51532102	51532572	-1	None	None
6	RN7SL273P	ENSG00000239953	ENST00000481561	misc_RNA	KNOWN	None	46289	None	None	37328961	37329256	1	None	None
6	None	ENSG00000204110	ENST00000570443	lincRNA	KNOWN	None	None	None	None	37475124	37503392	1	None	None
10	None	ENSG00000230553	ENST00000449598	processed_pseudogene	KNOWN	None	None	None	None	51535126	51535474	1	None	None
X	RGN	ENSG00000130988	ENST00000352078	protein_coding	KNOWN	CCDS14272	9989	900	299	46937779	46952712	1	None	SMP30, RC
X	RGN	ENSG00000130988	ENST00000469346	processed_transcript	KNOWN	None	9989	None	None	46937824	46944360	1	None	SMP30, RC
X	RGN	ENSG00000130988	ENST00000336169	protein_coding	KNOWN	CCDS14272	9989	900	299	46940258	46952709	1	None	SMP30, RC
X	RGN	ENSG00000130988	ENST00000475448	processed_transcript	KNOWN	None	9989	None	None	46943937	46952707	1	None	SMP30, RC
X	RGN	ENSG00000130988	ENST00000397180	protein_coding	KNOWN	CCDS14272	9989	900	299	46937775	46952712	1	None	SMP30, RC
X	RGN	ENSG00000130988	ENST00000457380	protein_coding	KNOWN	None	9989	684	227	46937775	46952712	1	None	SMP30, RC
X	None	ENSG00000230781	ENST00000456978	unitary_pseudogene	KNOWN	None	None	None	None	84228223	84232835	1	None	None
1	RGSL1	ENSG00000121446	ENST00000426890	processed_transcript	KNOWN	None	18636	None	None	182419256	182441535	1	RGSL2	None
1	RGSL1	ENSG00000121446	ENST00000367561	retained_intron	KNOWN	None	18636	None	None	182419257	182457883	1	RGSL2	None
1	RGSL1	ENSG00000121446	ENST00000427189	processed_transcript	KNOWN	None	18636	None	None	182419268	182429262	1	RGSL2	None
1	RGSL1	ENSG00000121446	ENST00000443996	nonsense_mediated_decay	KNOWN	None	18636	2955	984	182419281	182529693	1	RGSL2	None
1	RGSL1	ENSG00000121446	ENST00000294854	protein_coding	KNOWN	CCDS58049	18636	3231	1076	182419281	182529693	1	RGSL2	None
1	RGSL1	ENSG00000121446	ENST00000416676	nonsense_mediated_decay	KNOWN	None	18636	483	160	182419284	182458196	1	RGSL2	None
1	RGSL1	ENSG00000121446	ENST00000422241	nonsense_mediated_decay	KNOWN	None	18636	465	154	182419284	182458243	1	RGSL2	None
1	RGSL1	ENSG00000121446	ENST00000447374	protein_coding	PUTATIVE	None	18636	89	28	182422517	182440510	1	RGSL2	None
1	RGSL1	ENSG00000121446	ENST00000437548	protein_coding	PUTATIVE	None	18636	192	63	182422519	182441622	1	RGSL2	None
1	RGSL1	ENSG00000121446	ENST00000444367	retained_intron	KNOWN	None	18636	None	None	182423105	182441740	1	RGSL2	None
1	RGSL1	ENSG00000121446	ENST00000415960	nonsense_mediated_decay	KNOWN	None	18636	90	29	182443657	182529734	1	RGSL2	None
1	RGSL1	ENSG00000121446	ENST00000436031	retained_intron	KNOWN	None	18636	None	None	182462090	182529734	1	RGSL2	None
1	RGSL1	ENSG00000121446	ENST00000456971	processed_transcript	KNOWN	None	18636	None	None	182490287	182501926	1	RGSL2	None
1	RGSL1	ENSG00000121446	ENST00000542961	protein_coding	KNOWN	None	18636	2955	984	182419281	182523785	1	RGSL2	None
11	TRIM6-TRIM34	ENSG00000258588	ENST00000354852	protein_coding	KNOWN	CCDS31388	33440	2529	842	5617955	5665628	1	None	None
11	TRIM6-TRIM34	ENSG00000258588	ENST00000457787	protein_coding	KNOWN	CCDS31391	33440	1467	488	5653562	5665623	1	None	None
14	IGHD3-3	ENSG00000211930	ENST00000390590	IG_D_gene	KNOWN	None	5498	31	9	106380218	106380248	-1	None	IGHD33, DXP4
6	None	ENSG00000214460	ENST00000458298	processed_pseudogene	KNOWN	None	None	None	None	86137171	86137684	-1	None	None
16	MAPK3	ENSG00000102882	ENST00000263025	protein_coding	KNOWN	CCDS10672	6877	1140	379	30125426	30134615	-1	PRKM3	ERK1, p44mapk, p44erk1
16	MAPK3	ENSG00000102882	ENST00000466521	nonsense_mediated_decay	KNOWN	None	6877	951	316	30125426	30134615	-1	PRKM3	ERK1, p44mapk, p44erk1
16	MAPK3	ENSG00000102882	ENST00000484663	protein_coding	PUTATIVE	None	6877	798	265	30125427	30134289	-1	PRKM3	ERK1, p44mapk, p44erk1
16	MAPK3	ENSG00000102882	ENST00000490298	nonsense_mediated_decay	KNOWN	None	6877	1020	339	30125441	30134548	-1	PRKM3	ERK1, p44mapk, p44erk1
16	MAPK3	ENSG00000102882	ENST00000485579	retained_intron	KNOWN	None	6877	None	None	30125523	30128188	-1	PRKM3	ERK1, p44mapk, p44erk1
16	MAPK3	ENSG00000102882	ENST00000461737	nonsense_mediated_decay	KNOWN	None	6877	366	121	30125867	30128607	-1	PRKM3	ERK1, p44mapk, p44erk1
16	MAPK3	ENSG00000102882	ENST00000494643	processed_transcript	PUTATIVE	None	6877	None	None	30125937	30127320	-1	PRKM3	ERK1, p44mapk, p44erk1
16	MAPK3	ENSG00000102882	ENST00000473431	retained_intron	KNOWN	None	6877	None	None	30127956	30128426	-1	PRKM3	ERK1, p44mapk, p44erk1
16	MAPK3	ENSG00000102882	ENST00000395200	protein_coding	PUTATIVE	None	6877	936	311	30127956	30134471	-1	PRKM3	ERK1, p44mapk, p44erk1
16	MAPK3	ENSG00000102882	ENST00000395202	protein_coding	KNOWN	CCDS42148	6877	1008	335	30127989	30134530	-1	PRKM3	ERK1, p44mapk, p44erk1
16	MAPK3	ENSG00000102882	ENST00000478356	protein_coding	PUTATIVE	None	6877	408	135	30128010	30134311	-1	PRKM3	ERK1, p44mapk, p44erk1
16	MAPK3	ENSG00000102882	ENST00000395199	protein_coding	NOVEL	CCDS42149	6877	1074	357	30128158	30134530	-1	PRKM3	ERK1, p44mapk, p44erk1
16	MAPK3	ENSG00000102882	ENST00000483869	retained_intron	KNOWN	None	6877	None	None	30129219	30134426	-1	PRKM3	ERK1, p44mapk, p44erk1
16	MAPK3	ENSG00000102882	ENST00000481230	protein_coding	PUTATIVE	None	6877	262	86	30129424	30134827	-1	PRKM3	ERK1, p44mapk, p44erk1
16	MAPK3	ENSG00000102882	ENST00000322266	protein_coding	KNOWN	CCDS42148	6877	1008	335	30125427	30134630	-1	PRKM3	ERK1, p44mapk, p44erk1
16	MAPK3	ENSG00000102882	ENST00000403394	protein_coding	KNOWN	CCDS42149	6877	1074	357	30125427	30134630	-1	PRKM3	ERK1, p44mapk, p44erk1
4	None	ENSG00000261668	ENST00000565254	antisense	KNOWN	None	None	None	None	128761353	128765195	-1	None	None
19	None	ENSG00000267169	ENST00000588387	antisense	KNOWN	None	None	None	None	14247991	14282076	1	None	None
19	None	ENSG00000267169	ENST00000588658	antisense	KNOWN	None	None	None	None	14248000	14266613	1	None	None
19	None	ENSG00000267169	ENST00000592086	antisense	KNOWN	None	None	None	None	14265985	14282079	1	None	None
HSCHR6_MHC_MCF	MRPS18B	ENSG00000229861	ENST00000426945	protein_coding	KNOWN	None	14516	777	258	30663945	30672631	1	None	MRPS18-2, PTD017, C6orf14, HSPC183
HSCHR6_MHC_MCF	MRPS18B	ENSG00000229861	ENST00000473020	retained_intron	KNOWN	None	14516	None	None	30664079	30666360	1	None	MRPS18-2, PTD017, C6orf14, HSPC183
HSCHR6_MHC_MCF	MRPS18B	ENSG00000229861	ENST00000460640	retained_intron	KNOWN	None	14516	None	None	30664088	30672631	1	None	MRPS18-2, PTD017, C6orf14, HSPC183
HSCHR6_MHC_MCF	MRPS18B	ENSG00000229861	ENST00000412843	protein_coding	KNOWN	None	14516	648	215	30664096	30672631	1	None	MRPS18-2, PTD017, C6orf14, HSPC183
HSCHR6_MHC_MCF	MRPS18B	ENSG00000229861	ENST00000468755	processed_transcript	KNOWN	None	14516	None	None	30664096	30672631	1	None	MRPS18-2, PTD017, C6orf14, HSPC183
9	None	ENSG00000234637	ENST00000441327	processed_pseudogene	KNOWN	None	None	None	None	83397253	83397685	-1	None	None
1	GNAI3	ENSG00000065135	ENST00000369851	protein_coding	KNOWN	CCDS802	4387	1065	354	110091233	110136975	1	None	87U6
16	RPS3AP2	ENSG00000219027	ENST00000407190	processed_pseudogene	KNOWN	None	14196	None	None	1527831	1528584	1	None	None
19	RN7SL231P	ENSG00000240803	ENST00000461840	misc_RNA	KNOWN	None	46247	None	None	14323864	14324131	1	None	None
19	None	ENSG00000267723	ENST00000592263	lincRNA	KNOWN	None	None	None	None	14365001	14404017	-1	None	None
11	ORAOV1	ENSG00000149716	ENST00000542515	processed_transcript	KNOWN	None	17589	None	None	69467844	69473198	-1	None	TAOS1
11	ORAOV1	ENSG00000149716	ENST00000569105	processed_transcript	KNOWN	None	17589	None	None	69467941	69488063	-1	None	TAOS1
11	ORAOV1	ENSG00000149716	ENST00000538554	protein_coding	NOVEL	None	17589	451	149	69469127	69490112	-1	None	TAOS1
11	ORAOV1	ENSG00000149716	ENST00000279147	protein_coding	KNOWN	CCDS8192	17589	414	137	69480331	69490115	-1	None	TAOS1
11	ORAOV1	ENSG00000149716	ENST00000544096	retained_intron	KNOWN	None	17589	None	None	69480334	69488152	-1	None	TAOS1
11	ORAOV1	ENSG00000149716	ENST00000536870	protein_coding	KNOWN	None	17589	237	78	69480334	69490091	-1	None	TAOS1
11	ORAOV1	ENSG00000149716	ENST00000537272	protein_coding	PUTATIVE	None	17589	187	61	69480417	69482780	-1	None	TAOS1
11	ORAOV1	ENSG00000149716	ENST00000535657	protein_coding	PUTATIVE	CCDS8192	17589	414	137	69481435	69490089	-1	None	TAOS1
11	ORAOV1	ENSG00000149716	ENST00000542470	retained_intron	KNOWN	None	17589	None	None	69481810	69486690	-1	None	TAOS1
11	ORAOV1	ENSG00000149716	ENST00000535542	nonsense_mediated_decay	KNOWN	None	17589	111	36	69482032	69490073	-1	None	TAOS1
11	ORAOV1	ENSG00000149716	ENST00000543863	processed_transcript	KNOWN	None	17589	None	None	69482213	69489519	-1	None	TAOS1
11	ORAOV1	ENSG00000149716	ENST00000543562	nonsense_mediated_decay	KNOWN	None	17589	132	43	69482262	69490118	-1	None	TAOS1
11	ORAOV1	ENSG00000149716	ENST00000539414	protein_coding	PUTATIVE	None	17589	375	124	69482274	69490090	-1	None	TAOS1
11	ORAOV1	ENSG00000149716	ENST00000441922	nonsense_mediated_decay	KNOWN	None	17589	213	70	69482279	69490015	-1	None	TAOS1
11	ORAOV1	ENSG00000149716	ENST00000537324	processed_transcript	PUTATIVE	None	17589	None	None	69482377	69483166	-1	None	TAOS1
11	ORAOV1	ENSG00000149716	ENST00000542341	protein_coding	NOVEL	None	17589	231	76	69486146	69490184	-1	None	TAOS1
11	ORAOV1	ENSG00000149716	ENST00000355486	retained_intron	KNOWN	None	17589	None	None	69487638	69490079	-1	None	TAOS1
11	ORAOV1	ENSG00000149716	ENST00000543023	retained_intron	KNOWN	None	17589	None	None	69487990	69490063	-1	None	TAOS1
12	HCAR3	ENSG00000255398	ENST00000528880	protein_coding	KNOWN	CCDS53842	16824	1164	387	123199303	123201439	-1	GPR109B	HCA3, HM74
19	None	ENSG00000267406	ENST00000589512	lincRNA	KNOWN	None	None	None	None	14378619	14380189	-1	None	None
19	None	ENSG00000267173	ENST00000588212	protein_coding	NOVEL	None	None	477	158	44833848	44905774	-1	None	None
6	None	ENSG00000223998	ENST00000429706	sense_intronic	KNOWN	None	None	None	None	86270033	86270928	-1	None	None
19	None	ENSG00000266913	ENST00000586698	lincRNA	KNOWN	None	None	None	None	14416270	14474802	-1	None	None
19	None	ENSG00000266913	ENST00000588438	lincRNA	KNOWN	None	None	None	None	14436164	14481008	-1	None	None
12	PZP	ENSG00000126838	ENST00000261336	protein_coding	KNOWN	CCDS8600	9750	4449	1482	9301436	9360966	-1	None	CPAMD6
12	PZP	ENSG00000126838	ENST00000535230	nonsense_mediated_decay	KNOWN	None	9750	435	144	9301528	9360961	-1	None	CPAMD6
12	PZP	ENSG00000126838	ENST00000539983	processed_transcript	KNOWN	None	9750	None	None	9313029	9320093	-1	None	CPAMD6
12	PZP	ENSG00000126838	ENST00000546197	processed_transcript	KNOWN	None	9750	None	None	9313629	9322693	-1	None	CPAMD6
12	PZP	ENSG00000126838	ENST00000540995	processed_transcript	KNOWN	None	9750	None	None	9316313	9320129	-1	None	CPAMD6
12	PZP	ENSG00000126838	ENST00000543108	processed_transcript	KNOWN	None	9750	None	None	9316344	9320127	-1	None	CPAMD6
12	PZP	ENSG00000126838	ENST00000546116	processed_transcript	KNOWN	None	9750	None	None	9321052	9322714	-1	None	CPAMD6
12	PZP	ENSG00000126838	ENST00000381997	protein_coding	KNOWN	None	9750	3807	1268	9301437	9355001	-1	None	CPAMD6
5	MRPS35P2	ENSG00000250830	ENST00000508242	processed_pseudogene	KNOWN	None	29769	None	None	97738246	97738436	-1	None	None
9	PHF2	ENSG00000197724	ENST00000359246	protein_coding	KNOWN	CCDS35069	8920	3291	1096	96338689	96441865	1	None	KIAA0662, JHDM1E, CENP-35
9	PHF2	ENSG00000197724	ENST00000375376	protein_coding	KNOWN	None	8920	984	327	96338909	96441869	1	None	KIAA0662, JHDM1E, CENP-35
16	None	ENSG00000260646	ENST00000566922	lincRNA	KNOWN	None	None	None	None	1562980	1564676	1	None	None
1	C1orf64	ENSG00000183888	ENST00000329454	protein_coding	KNOWN	CCDS166	28339	510	169	16330731	16335302	1	None	MGC24047, ERRF
19	None	ENSG00000267147	ENST00000588275	lincRNA	KNOWN	None	None	None	None	14444555	14454725	1	None	None
6	None	ENSG00000236016	ENST00000592359	antisense	KNOWN	None	None	None	None	86340080	86340995	1	None	None
6	None	ENSG00000236016	ENST00000421594	antisense	KNOWN	None	None	None	None	86340107	86340841	1	None	None
19	None	ENSG00000267379	ENST00000590626	antisense	KNOWN	None	None	None	None	14513529	14519535	-1	None	None
12	None	ENSG00000257046	ENST00000381541	protein_coding	NOVEL	None	None	2064	687	20968608	21243179	1	None	None
12	None	ENSG00000257046	ENST00000540229	protein_coding	NOVEL	None	None	2247	748	20968608	21243179	1	None	None
19	SPC24	ENSG00000161888	ENST00000585567	protein_coding	KNOWN	None	26913	627	208	11242196	11266458	-1	SPBC24	FLJ90806
19	SPC24	ENSG00000161888	ENST00000592540	protein_coding	KNOWN	CCDS45974	26913	594	197	11256170	11266484	-1	SPBC24	FLJ90806
19	SPC24	ENSG00000161888	ENST00000591396	protein_coding	PUTATIVE	None	26913	516	171	11256599	11266440	-1	SPBC24	FLJ90806
19	SPC24	ENSG00000161888	ENST00000592967	protein_coding	PUTATIVE	None	26913	517	171	11256698	11266441	-1	SPBC24	FLJ90806
19	SPC24	ENSG00000161888	ENST00000423327	nonsense_mediated_decay	KNOWN	None	26913	405	134	11257757	11266483	-1	SPBC24	FLJ90806
19	SPC24	ENSG00000161888	ENST00000586708	protein_coding	PUTATIVE	None	26913	378	125	11257810	11266437	-1	SPBC24	FLJ90806
19	SPC24	ENSG00000161888	ENST00000585486	protein_coding	PUTATIVE	None	26913	506	167	11258275	11266445	-1	SPBC24	FLJ90806
19	None	ENSG00000267474	ENST00000589702	sense_intronic	KNOWN	None	None	None	None	14569213	14570178	1	None	None
HSCHR6_MHC_DBB	DDR1	ENSG00000230456	ENST00000490817	processed_transcript	KNOWN	None	2730	None	None	30839458	30850693	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_DBB	DDR1	ENSG00000230456	ENST00000412329	protein_coding	KNOWN	None	2730	2742	913	30839511	30858654	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_DBB	DDR1	ENSG00000230456	ENST00000495855	processed_transcript	KNOWN	None	2730	None	None	30839778	30843189	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_DBB	DDR1	ENSG00000230456	ENST00000445017	protein_coding	KNOWN	None	2730	443	146	30841573	30849480	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_DBB	DDR1	ENSG00000230456	ENST00000449518	protein_coding	KNOWN	None	2730	2742	913	30842261	30858654	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_DBB	DDR1	ENSG00000230456	ENST00000427053	protein_coding	KNOWN	None	2730	2631	876	30842545	30858654	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_DBB	DDR1	ENSG00000230456	ENST00000414794	protein_coding	KNOWN	None	2730	417	138	30842835	30847912	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_DBB	DDR1	ENSG00000230456	ENST00000452052	protein_coding	KNOWN	None	2730	190	62	30842940	30847494	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_DBB	DDR1	ENSG00000230456	ENST00000462241	processed_transcript	KNOWN	None	2730	None	None	30843038	30858654	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_DBB	DDR1	ENSG00000230456	ENST00000415092	protein_coding	KNOWN	None	2730	2631	876	30843048	30858654	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_DBB	DDR1	ENSG00000230456	ENST00000420929	protein_coding	KNOWN	None	2730	628	208	30843708	30849924	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_DBB	DDR1	ENSG00000230456	ENST00000453510	protein_coding	KNOWN	None	2730	2631	876	30846871	30858654	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_DBB	DDR1	ENSG00000230456	ENST00000474440	retained_intron	KNOWN	None	2730	None	None	30849624	30850676	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_DBB	DDR1	ENSG00000230456	ENST00000433244	protein_coding	KNOWN	None	2730	1479	492	30849909	30856637	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_DBB	DDR1	ENSG00000230456	ENST00000482588	processed_transcript	KNOWN	None	2730	None	None	30851853	30855544	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_DBB	DDR1	ENSG00000230456	ENST00000452093	protein_coding	KNOWN	None	2730	1136	377	30855119	30858654	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_DBB	DDR1	ENSG00000230456	ENST00000472079	retained_intron	KNOWN	None	2730	None	None	30855573	30857902	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_DBB	DDR1	ENSG00000230456	ENST00000548133	protein_coding	KNOWN	None	2730	2760	919	30842566	30858650	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_DBB	DDR1	ENSG00000230456	ENST00000548962	protein_coding	KNOWN	None	2730	732	243	30842566	30858650	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_DBB	DDR1	ENSG00000230456	ENST00000550666	protein_coding	KNOWN	None	2730	513	170	30849909	30858652	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
19	None	ENSG00000224543	ENST00000600149	processed_pseudogene	KNOWN	None	None	None	None	14600200	14600421	1	None	None
19	None	ENSG00000224543	ENST00000418788	processed_pseudogene	KNOWN	None	None	None	None	14599758	14600691	1	None	None
19	LILRA2	ENSG00000239998	ENST00000495786	processed_transcript	KNOWN	None	6603	None	None	55084387	55086377	1	None	LIR-7, ILT1, CD85h, LIR7
19	LILRA2	ENSG00000239998	ENST00000439534	protein_coding	KNOWN	None	6603	982	326	55084495	55087303	1	None	LIR-7, ILT1, CD85h, LIR7
19	LILRA2	ENSG00000239998	ENST00000251377	protein_coding	KNOWN	CCDS46179	6603	1452	483	55084818	55099027	1	None	LIR-7, ILT1, CD85h, LIR7
19	LILRA2	ENSG00000239998	ENST00000251376	protein_coding	KNOWN	CCDS12900	6603	1401	466	55085259	55099027	1	None	LIR-7, ILT1, CD85h, LIR7
19	LILRA2	ENSG00000239998	ENST00000391737	protein_coding	NOVEL	None	6603	1365	454	55085308	55098862	1	None	LIR-7, ILT1, CD85h, LIR7
19	LILRA2	ENSG00000239998	ENST00000472992	processed_transcript	KNOWN	None	6603	None	None	55087539	55099014	1	None	LIR-7, ILT1, CD85h, LIR7
19	LILRA2	ENSG00000239998	ENST00000391738	protein_coding	KNOWN	CCDS46179	6603	1452	483	55085257	55099025	1	None	LIR-7, ILT1, CD85h, LIR7
19	MIR639	ENSG00000207707	ENST00000384974	miRNA	KNOWN	None	32895	None	None	14640355	14640452	1	MIRN639	hsa-mir-639
19	RN7SL337P	ENSG00000243488	ENST00000462468	misc_RNA	KNOWN	None	46353	None	None	14694907	14695204	1	None	None
19	RN7SL842P	ENSG00000243066	ENST00000477654	misc_RNA	KNOWN	None	46858	None	None	14699169	14699465	1	None	None
11	GPR83	ENSG00000123901	ENST00000243673	protein_coding	KNOWN	CCDS8297	4523	1272	423	94110477	94134585	-1	GPR72	None
11	GPR83	ENSG00000123901	ENST00000539203	protein_coding	PUTATIVE	None	4523	1146	381	94112697	94134558	-1	GPR72	None
19	ITGB1P1	ENSG00000269378	ENST00000596032	processed_pseudogene	KNOWN	None	3781	None	None	14732446	14733054	-1	FNRBL	ITGB1L
19	None	ENSG00000256210	ENST00000593748	processed_pseudogene	KNOWN	None	None	None	None	14903130	14903345	1	None	None
19	None	ENSG00000256210	ENST00000510342	processed_pseudogene	KNOWN	None	None	None	None	14903121	14903589	1	None	None
19	None	ENSG00000269552	ENST00000595427	unprocessed_pseudogene	KNOWN	None	None	None	None	14962844	14963756	-1	None	None
9	None	ENSG00000226798	ENST00000397864	lincRNA	KNOWN	None	None	None	None	83484673	83486210	-1	None	None
19	None	ENSG00000172148	ENST00000304105	unprocessed_pseudogene	KNOWN	None	None	None	None	14974598	14975527	-1	None	None
9	None	ENSG00000228375	ENST00000412447	processed_pseudogene	KNOWN	None	None	None	None	84025194	84025545	1	None	None
19	OR7A18P	ENSG00000269678	ENST00000600416	unprocessed_pseudogene	KNOWN	None	15399	None	None	14997651	14997927	-1	None	None
22	PNPLA5	ENSG00000100341	ENST00000597664	protein_coding	KNOWN	None	24888	1290	429	44275558	44287890	-1	None	dJ388M5.4, GS2L
22	PNPLA5	ENSG00000100341	ENST00000381198	protein_coding	KNOWN	None	24888	948	315	44275756	44287893	-1	None	dJ388M5.4, GS2L
22	PNPLA5	ENSG00000100341	ENST00000438734	protein_coding	KNOWN	None	24888	806	267	44280093	44287875	-1	None	dJ388M5.4, GS2L
22	PNPLA5	ENSG00000100341	ENST00000216177	protein_coding	KNOWN	CCDS14053	24888	1290	429	44275559	44287893	-1	None	dJ388M5.4, GS2L
22	PNPLA5	ENSG00000100341	ENST00000593866	protein_coding	KNOWN	CCDS54537	24888	948	315	44275559	44287893	-1	None	dJ388M5.4, GS2L
9	None	ENSG00000237072	ENST00000457409	processed_pseudogene	KNOWN	None	None	None	None	84103223	84103752	1	None	None
19	OR7A1P	ENSG00000268834	ENST00000601206	unprocessed_pseudogene	KNOWN	None	8364	None	None	15002707	15003616	-1	OR7A6P	OR19-3, OLF4p, hg513
9	None	ENSG00000233926	ENST00000437181	lincRNA	KNOWN	None	None	None	None	84304628	84391815	1	None	None
9	None	ENSG00000233926	ENST00000413050	lincRNA	KNOWN	None	None	None	None	84362858	84370367	1	None	None
9	RNU6-1035P	ENSG00000207206	ENST00000384477	snRNA	KNOWN	None	47998	None	None	84340158	84340264	-1	None	None
19	OR7A3P	ENSG00000269787	ENST00000595284	unprocessed_pseudogene	KNOWN	None	8366	None	None	15014044	15014950	-1	OR7A12P, OR7A14P, OR7A14, OR7A13P	OR11-7b, OR19-12, OR14-59, OR14-11
19	OR7A3P	ENSG00000269787	ENST00000598431	unprocessed_pseudogene	KNOWN	None	8366	None	None	15014512	15014985	-1	OR7A12P, OR7A14P, OR7A14, OR7A13P	OR11-7b, OR19-12, OR14-59, OR14-11
1	HSPB7	ENSG00000173641	ENST00000411503	protein_coding	NOVEL	None	5249	498	165	16340523	16344536	-1	None	cvHSP
1	HSPB7	ENSG00000173641	ENST00000442459	retained_intron	KNOWN	None	5249	None	None	16340523	16344538	-1	None	cvHSP
1	HSPB7	ENSG00000173641	ENST00000311890	protein_coding	KNOWN	CCDS30611	5249	513	170	16340523	16345285	-1	None	cvHSP
1	HSPB7	ENSG00000173641	ENST00000375718	protein_coding	NOVEL	None	5249	738	245	16340523	16346089	-1	None	cvHSP
1	HSPB7	ENSG00000173641	ENST00000463576	protein_coding	NOVEL	None	5249	375	124	16341869	16344320	-1	None	cvHSP
1	HSPB7	ENSG00000173641	ENST00000487046	protein_coding	KNOWN	None	5249	528	175	16341869	16344568	-1	None	cvHSP
1	HSPB7	ENSG00000173641	ENST00000406363	protein_coding	NOVEL	None	5249	525	174	16341994	16344500	-1	None	cvHSP
1	HSPB7	ENSG00000173641	ENST00000545268	protein_coding	KNOWN	None	5249	207	68	16343831	16344538	-1	None	cvHSP
9	None	ENSG00000263404	ENST00000581036	miRNA	NOVEL	None	None	None	None	84420911	84420996	-1	None	None
19	None	ENSG00000268500	ENST00000599649	protein_coding	NOVEL	None	None	1656	551	52115344	52150053	-1	None	None
19	None	ENSG00000268500	ENST00000429354	protein_coding	NOVEL	None	None	1656	551	52115344	52150142	-1	None	None
16	ITPRIPL2	ENSG00000205730	ENST00000566735	protein_coding	PUTATIVE	None	27257	384	127	19125254	19127777	1	None	FLJ22994, MGC126798, MGC126800, LOC162073
16	ITPRIPL2	ENSG00000205730	ENST00000381440	protein_coding	KNOWN	CCDS32395	27257	1608	535	19125254	19132946	1	None	FLJ22994, MGC126798, MGC126800, LOC162073
4	USP17L9P	ENSG00000251694	ENST00000508843	unprocessed_pseudogene	KNOWN	None	12615	None	None	9360109	9361701	1	USP17	RS447
6	PKMP3	ENSG00000220563	ENST00000405497	processed_pseudogene	KNOWN	None	44245	None	None	86369610	86370324	-1	None	None
4	RNU6-583P	ENSG00000251821	ENST00000516012	snRNA	KNOWN	None	47546	None	None	128813146	128813237	1	None	None
4	USP17L6P	ENSG00000205946	ENST00000382470	unprocessed_pseudogene	KNOWN	None	37179	None	None	9369600	9370796	1	None	DUB4, vDUB4, USP17L6
20	SPTLC3	ENSG00000172296	ENST00000476791	processed_transcript	KNOWN	None	16253	None	None	12989627	13031666	1	C20orf38, SPTLC2L	LCB2B, FLJ11112, hLCB2b
20	SPTLC3	ENSG00000172296	ENST00000434210	protein_coding	KNOWN	None	16253	419	138	12989635	13053019	1	C20orf38, SPTLC2L	LCB2B, FLJ11112, hLCB2b
20	SPTLC3	ENSG00000172296	ENST00000399002	protein_coding	KNOWN	CCDS13115	16253	1659	552	12989642	13147411	1	C20orf38, SPTLC2L	LCB2B, FLJ11112, hLCB2b
20	SPTLC3	ENSG00000172296	ENST00000450297	protein_coding	KNOWN	None	16253	645	214	12989997	13060515	1	C20orf38, SPTLC2L	LCB2B, FLJ11112, hLCB2b
20	SPTLC3	ENSG00000172296	ENST00000431275	protein_coding	KNOWN	None	16253	365	120	13107293	13145118	1	C20orf38, SPTLC2L	LCB2B, FLJ11112, hLCB2b
20	SPTLC3	ENSG00000172296	ENST00000485952	processed_transcript	KNOWN	None	16253	None	None	13107302	13113689	1	C20orf38, SPTLC2L	LCB2B, FLJ11112, hLCB2b
20	SPTLC3	ENSG00000172296	ENST00000378194	protein_coding	KNOWN	None	16253	990	329	12989822	13140975	1	C20orf38, SPTLC2L	LCB2B, FLJ11112, hLCB2b
7	DDC	ENSG00000132437	ENST00000357936	protein_coding	KNOWN	CCDS5511	2719	1443	480	50526134	50628751	-1	None	AADC
7	DDC	ENSG00000132437	ENST00000431062	protein_coding	NOVEL	CCDS56486	2719	1164	387	50526138	50611817	-1	None	AADC
7	DDC	ENSG00000132437	ENST00000444733	nonsense_mediated_decay	KNOWN	None	2719	690	229	50526138	50628751	-1	None	AADC
7	DDC	ENSG00000132437	ENST00000426377	protein_coding	NOVEL	CCDS56485	2719	1209	402	50526138	50628751	-1	None	AADC
7	DDC	ENSG00000132437	ENST00000495320	processed_transcript	PUTATIVE	None	2719	None	None	50526140	50527382	-1	None	AADC
7	DDC	ENSG00000132437	ENST00000444124	protein_coding	KNOWN	CCDS5511	2719	1443	480	50526163	50633154	-1	None	AADC
7	DDC	ENSG00000132437	ENST00000430300	protein_coding	NOVEL	None	2719	1085	360	50526175	50611680	-1	None	AADC
7	DDC	ENSG00000132437	ENST00000494914	retained_intron	KNOWN	None	2719	None	None	50526268	50547661	-1	None	AADC
7	DDC	ENSG00000132437	ENST00000380984	protein_coding	PUTATIVE	CCDS56487	2719	1017	338	50560345	50628745	-1	None	AADC
7	DDC	ENSG00000132437	ENST00000489162	processed_transcript	KNOWN	None	2719	None	None	50595390	50607726	-1	None	AADC
7	DDC	ENSG00000132437	ENST00000420203	protein_coding	KNOWN	None	2719	92	29	50611692	50632031	-1	None	AADC
19	OR7A11P	ENSG00000198367	ENST00000597719	unprocessed_pseudogene	KNOWN	None	8357	None	None	15027240	15028192	1	OR7A11	OST527
19	OR7A11P	ENSG00000198367	ENST00000358601	pseudogene	KNOWN	None	8357	None	None	15027228	15027679	1	OR7A11	OST527
14	REM2	ENSG00000139890	ENST00000267396	protein_coding	KNOWN	CCDS45082	20248	1023	340	23352374	23356895	1	None	FLJ38964
14	REM2	ENSG00000139890	ENST00000536884	protein_coding	PUTATIVE	None	20248	666	221	23352431	23356052	1	None	FLJ38964
16	COX4I1	ENSG00000131143	ENST00000565078	protein_coding	KNOWN	None	2265	129	42	85832239	85838598	1	COX4	COX4-1
16	COX4I1	ENSG00000131143	ENST00000570123	processed_transcript	KNOWN	None	2265	None	None	85833218	85839348	1	COX4	COX4-1
16	COX4I1	ENSG00000131143	ENST00000568339	retained_intron	KNOWN	None	2265	None	None	85833228	85840608	1	COX4	COX4-1
16	COX4I1	ENSG00000131143	ENST00000566115	nonsense_mediated_decay	KNOWN	None	2265	129	42	85833244	85838702	1	COX4	COX4-1
16	COX4I1	ENSG00000131143	ENST00000567241	retained_intron	KNOWN	None	2265	None	None	85833260	85838934	1	COX4	COX4-1
16	COX4I1	ENSG00000131143	ENST00000568794	protein_coding	PUTATIVE	None	2265	420	139	85833289	85840411	1	COX4	COX4-1
16	COX4I1	ENSG00000131143	ENST00000253452	protein_coding	KNOWN	CCDS10955	2265	510	169	85833290	85840608	1	COX4	COX4-1
16	COX4I1	ENSG00000131143	ENST00000562336	protein_coding	KNOWN	CCDS10955	2265	510	169	85833299	85840650	1	COX4	COX4-1
16	COX4I1	ENSG00000131143	ENST00000563774	retained_intron	KNOWN	None	2265	None	None	85833302	85838956	1	COX4	COX4-1
16	COX4I1	ENSG00000131143	ENST00000567266	retained_intron	KNOWN	None	2265	None	None	85833303	85839032	1	COX4	COX4-1
16	COX4I1	ENSG00000131143	ENST00000561569	protein_coding	KNOWN	CCDS10955	2265	510	169	85833303	85840608	1	COX4	COX4-1
16	COX4I1	ENSG00000131143	ENST00000566405	protein_coding	PUTATIVE	None	2265	324	107	85833304	85840408	1	COX4	COX4-1
16	COX4I1	ENSG00000131143	ENST00000564544	nonsense_mediated_decay	KNOWN	None	2265	252	83	85833314	85840581	1	COX4	COX4-1
16	COX4I1	ENSG00000131143	ENST00000566617	retained_intron	KNOWN	None	2265	None	None	85833366	85838915	1	COX4	COX4-1
16	COX4I1	ENSG00000131143	ENST00000564648	retained_intron	KNOWN	None	2265	None	None	85834808	85840573	1	COX4	COX4-1
16	COX4I1	ENSG00000131143	ENST00000564903	protein_coding	PUTATIVE	None	2265	381	126	85834808	85840574	1	COX4	COX4-1
16	COX4I1	ENSG00000131143	ENST00000569997	retained_intron	KNOWN	None	2265	None	None	85836663	85840608	1	COX4	COX4-1
16	COX4I1	ENSG00000131143	ENST00000562929	processed_transcript	KNOWN	None	2265	None	None	85838675	85840637	1	COX4	COX4-1
11	EHF	ENSG00000135373	ENST00000527001	processed_transcript	KNOWN	None	3246	None	None	34642640	34668098	1	None	ESE3, ESEJ
11	EHF	ENSG00000135373	ENST00000257831	protein_coding	KNOWN	CCDS7894	3246	903	300	34642658	34682604	1	None	ESE3, ESEJ
11	EHF	ENSG00000135373	ENST00000450654	protein_coding	NOVEL	CCDS55753	3246	834	277	34642682	34682066	1	None	ESE3, ESEJ
11	EHF	ENSG00000135373	ENST00000530286	protein_coding	KNOWN	CCDS7894	3246	903	300	34643600	34680715	1	None	ESE3, ESEJ
11	EHF	ENSG00000135373	ENST00000533754	protein_coding	NOVEL	CCDS7894	3246	903	300	34643750	34680859	1	None	ESE3, ESEJ
11	EHF	ENSG00000135373	ENST00000529527	protein_coding	PUTATIVE	None	3246	499	165	34645807	34678478	1	None	ESE3, ESEJ
11	EHF	ENSG00000135373	ENST00000531728	protein_coding	PUTATIVE	None	3246	381	126	34645813	34668318	1	None	ESE3, ESEJ
11	EHF	ENSG00000135373	ENST00000525253	protein_coding	NOVEL	None	3246	519	172	34645823	34673327	1	None	ESE3, ESEJ
11	EHF	ENSG00000135373	ENST00000531794	protein_coding	NOVEL	CCDS55752	3246	969	322	34654011	34680864	1	None	ESE3, ESEJ
11	EHF	ENSG00000135373	ENST00000529161	processed_transcript	PUTATIVE	None	3246	None	None	34663724	34668215	1	None	ESE3, ESEJ
11	EHF	ENSG00000135373	ENST00000532302	protein_coding	PUTATIVE	None	3246	475	157	34663932	34673157	1	None	ESE3, ESEJ
11	EHF	ENSG00000135373	ENST00000527935	protein_coding	PUTATIVE	None	3246	381	126	34664174	34668441	1	None	ESE3, ESEJ
16	None	ENSG00000261427	ENST00000564808	nonsense_mediated_decay	KNOWN	None	None	314	103	19125324	19184900	1	None	None
16	None	ENSG00000261427	ENST00000568526	nonsense_mediated_decay	KNOWN	None	None	229	75	19125381	19184788	1	None	None
HSCHR6_MHC_APD	DDX39BP2	ENSG00000235809	ENST00000445354	unprocessed_pseudogene	KNOWN	None	33461	None	None	29897440	29897836	1	BAT1P2	BPG309N1.15
19	OR7A15P	ENSG00000176923	ENST00000449848	unprocessed_pseudogene	KNOWN	None	8361	None	None	15037870	15038836	1	OR7A4P, OR7A16P, OR7A20P	OR19-134, OR19-1, OR19-146
HSCHR6_MHC_APD	MCCD1P2	ENSG00000236203	ENST00000413950	unprocessed_pseudogene	KNOWN	None	33462	None	None	29898668	29899545	-1	None	BPG309N1.16
1	YTHDF2	ENSG00000198492	ENST00000474884	protein_coding	KNOWN	None	31675	601	199	29063133	29069383	1	None	HGRG8, NY-REN-2
1	YTHDF2	ENSG00000198492	ENST00000373812	protein_coding	KNOWN	CCDS41296	31675	1740	579	29063271	29096287	1	None	HGRG8, NY-REN-2
1	YTHDF2	ENSG00000198492	ENST00000478283	processed_transcript	KNOWN	None	31675	None	None	29063462	29095637	1	None	HGRG8, NY-REN-2
1	YTHDF2	ENSG00000198492	ENST00000496288	protein_coding	NOVEL	None	31675	723	240	29063477	29069514	1	None	HGRG8, NY-REN-2
1	YTHDF2	ENSG00000198492	ENST00000475796	processed_transcript	KNOWN	None	31675	None	None	29064262	29069144	1	None	HGRG8, NY-REN-2
1	YTHDF2	ENSG00000198492	ENST00000476976	processed_transcript	KNOWN	None	31675	None	None	29064262	29069411	1	None	HGRG8, NY-REN-2
1	YTHDF2	ENSG00000198492	ENST00000468863	processed_transcript	KNOWN	None	31675	None	None	29065603	29069395	1	None	HGRG8, NY-REN-2
1	YTHDF2	ENSG00000198492	ENST00000542507	protein_coding	KNOWN	CCDS41296	31675	1740	579	29063133	29096286	1	None	HGRG8, NY-REN-2
1	YTHDF2	ENSG00000198492	ENST00000541996	protein_coding	KNOWN	CCDS53287	31675	1590	529	29063452	29096286	1	None	HGRG8, NY-REN-2
12	SLCO1B7	ENSG00000205754	ENST00000421593	protein_coding	KNOWN	CCDS44843	32934	1923	640	21168630	21243040	1	None	LST3, SLC21A21
12	SLCO1B7	ENSG00000205754	ENST00000545916	protein_coding	PUTATIVE	None	32934	300	99	21207503	21245679	1	None	LST3, SLC21A21
12	SLCO1B7	ENSG00000205754	ENST00000541784	processed_transcript	KNOWN	None	32934	None	None	21220285	21228718	1	None	LST3, SLC21A21
12	SLCO1B7	ENSG00000205754	ENST00000554957	protein_coding	KNOWN	None	32934	2064	687	20968673	21243040	1	None	LST3, SLC21A21
4	C4orf45	ENSG00000164123	ENST00000434826	protein_coding	KNOWN	CCDS47156	26342	561	186	159814286	159956333	-1	None	FLJ25371
4	C4orf45	ENSG00000164123	ENST00000508011	processed_transcript	KNOWN	None	26342	None	None	159814696	159959912	-1	None	FLJ25371
4	C4orf45	ENSG00000164123	ENST00000505647	processed_transcript	KNOWN	None	26342	None	None	159836332	159894283	-1	None	FLJ25371
11	CLDN25	ENSG00000228607	ENST00000453129	protein_coding	KNOWN	CCDS44736	37218	690	229	113650469	113651222	1	None	None
22	None	ENSG00000232464	ENST00000436423	antisense	KNOWN	None	None	None	None	26355040	26379492	-1	None	None
1	GNAT2	ENSG00000134183	ENST00000351050	protein_coding	KNOWN	CCDS803	4394	1065	354	110145889	110155679	-1	None	ACHM4
12	DUSP6	ENSG00000139318	ENST00000279488	protein_coding	KNOWN	CCDS9033	3072	1146	381	89741009	89747048	-1	None	MKP-3, PYST1
12	DUSP6	ENSG00000139318	ENST00000308385	protein_coding	KNOWN	CCDS9034	3072	708	235	89742146	89746182	-1	None	MKP-3, PYST1
12	DUSP6	ENSG00000139318	ENST00000547291	protein_coding	PUTATIVE	None	3072	771	256	89742849	89744948	-1	None	MKP-3, PYST1
12	DUSP6	ENSG00000139318	ENST00000547140	processed_transcript	KNOWN	None	3072	None	None	89743259	89745359	-1	None	MKP-3, PYST1
12	DUSP6	ENSG00000139318	ENST00000548755	protein_coding	KNOWN	None	3072	351	116	89745466	89746274	-1	None	MKP-3, PYST1
6	SNHG5	ENSG00000203875	ENST00000589187	lincRNA	KNOWN	None	21026	None	None	86370710	86388451	-1	C6orf160	MGC16362, bA33E24.2, U50HG, NCRNA00044, LINC00044
6	SNHG5	ENSG00000203875	ENST00000587692	lincRNA	KNOWN	None	21026	None	None	86375570	86388438	-1	C6orf160	MGC16362, bA33E24.2, U50HG, NCRNA00044, LINC00044
6	SNHG5	ENSG00000203875	ENST00000369605	lincRNA	KNOWN	None	21026	None	None	86386725	86388420	-1	C6orf160	MGC16362, bA33E24.2, U50HG, NCRNA00044, LINC00044
6	SNHG5	ENSG00000203875	ENST00000427501	retained_intron	KNOWN	None	21026	None	None	86386800	86387711	-1	C6orf160	MGC16362, bA33E24.2, U50HG, NCRNA00044, LINC00044
6	SNHG5	ENSG00000203875	ENST00000435947	lincRNA	KNOWN	None	21026	None	None	86386800	86388370	-1	C6orf160	MGC16362, bA33E24.2, U50HG, NCRNA00044, LINC00044
6	SNHG5	ENSG00000203875	ENST00000428833	lincRNA	KNOWN	None	21026	None	None	86386802	86388238	-1	C6orf160	MGC16362, bA33E24.2, U50HG, NCRNA00044, LINC00044
6	SNHG5	ENSG00000203875	ENST00000453754	lincRNA	KNOWN	None	21026	None	None	86386802	86388291	-1	C6orf160	MGC16362, bA33E24.2, U50HG, NCRNA00044, LINC00044
6	SNHG5	ENSG00000203875	ENST00000420199	retained_intron	KNOWN	None	21026	None	None	86386802	86388440	-1	C6orf160	MGC16362, bA33E24.2, U50HG, NCRNA00044, LINC00044
6	SNHG5	ENSG00000203875	ENST00000414002	lincRNA	KNOWN	None	21026	None	None	86386802	86388451	-1	C6orf160	MGC16362, bA33E24.2, U50HG, NCRNA00044, LINC00044
6	SNHG5	ENSG00000203875	ENST00000431043	retained_intron	KNOWN	None	21026	None	None	86386846	86388451	-1	C6orf160	MGC16362, bA33E24.2, U50HG, NCRNA00044, LINC00044
6	SNHG5	ENSG00000203875	ENST00000433843	lincRNA	KNOWN	None	21026	None	None	86387047	86387917	-1	C6orf160	MGC16362, bA33E24.2, U50HG, NCRNA00044, LINC00044
6	SNHG5	ENSG00000203875	ENST00000425170	retained_intron	KNOWN	None	21026	None	None	86387187	86387977	-1	C6orf160	MGC16362, bA33E24.2, U50HG, NCRNA00044, LINC00044
6	SNHG5	ENSG00000203875	ENST00000384338	snoRNA	KNOWN	None	21026	None	None	86387012	86387086	-1	C6orf160	MGC16362, bA33E24.2, U50HG, NCRNA00044, LINC00044
6	SNHG5	ENSG00000203875	ENST00000364995	snoRNA	KNOWN	None	21026	None	None	86387307	86387376	-1	C6orf160	MGC16362, bA33E24.2, U50HG, NCRNA00044, LINC00044
22	RN7SKP169	ENSG00000223056	ENST00000411124	misc_RNA	KNOWN	None	45893	None	None	26359949	26360239	-1	None	None
12	DENR	ENSG00000139726	ENST00000280557	protein_coding	KNOWN	CCDS45003	2769	597	198	123237321	123255611	1	None	DRP, DRP1, SMAP-3
12	DENR	ENSG00000139726	ENST00000455982	protein_coding	PUTATIVE	None	2769	483	160	123237371	123254617	1	None	DRP, DRP1, SMAP-3
12	DENR	ENSG00000139726	ENST00000539463	retained_intron	KNOWN	None	2769	None	None	123237374	123247803	1	None	DRP, DRP1, SMAP-3
12	DENR	ENSG00000139726	ENST00000537955	retained_intron	KNOWN	None	2769	None	None	123237394	123238834	1	None	DRP, DRP1, SMAP-3
12	ARHGEF25	ENSG00000240771	ENST00000333972	protein_coding	KNOWN	CCDS44931	30275	1860	619	58003963	58011026	1	None	GEFT, p63RhoGEF
12	ARHGEF25	ENSG00000240771	ENST00000286494	protein_coding	KNOWN	CCDS8947	30275	1743	580	58005218	58011026	1	None	GEFT, p63RhoGEF
12	ARHGEF25	ENSG00000240771	ENST00000471370	retained_intron	KNOWN	None	30275	None	None	58007777	58011000	1	None	GEFT, p63RhoGEF
12	ARHGEF25	ENSG00000240771	ENST00000469072	retained_intron	KNOWN	None	30275	None	None	58008220	58009797	1	None	GEFT, p63RhoGEF
12	ARHGEF25	ENSG00000240771	ENST00000466399	retained_intron	KNOWN	None	30275	None	None	58008276	58009676	1	None	GEFT, p63RhoGEF
12	ARHGEF25	ENSG00000240771	ENST00000484357	retained_intron	KNOWN	None	30275	None	None	58008356	58008814	1	None	GEFT, p63RhoGEF
12	ARHGEF25	ENSG00000240771	ENST00000477314	processed_transcript	KNOWN	None	30275	None	None	58010166	58013162	1	None	GEFT, p63RhoGEF
11	MUC5B	ENSG00000117983	ENST00000525715	retained_intron	KNOWN	None	7516	None	None	1244296	1260771	1	MUC5	MG1
11	MUC5B	ENSG00000117983	ENST00000529681	protein_coding	NOVEL	CCDS44515	7516	17289	5762	1244296	1283402	1	MUC5	MG1
11	MUC5B	ENSG00000117983	ENST00000531082	processed_transcript	PUTATIVE	None	7516	None	None	1249750	1250993	1	MUC5	MG1
11	MUC5B	ENSG00000117983	ENST00000526859	protein_coding	PUTATIVE	None	7516	461	152	1278856	1283273	1	MUC5	MG1
11	MUC5B	ENSG00000117983	ENST00000527802	processed_transcript	PUTATIVE	None	7516	None	None	1280753	1281315	1	MUC5	MG1
11	MUC5B	ENSG00000117983	ENST00000447027	protein_coding	KNOWN	None	7516	17298	5765	1244296	1283406	1	MUC5	MG1
22	None	ENSG00000232050	ENST00000440996	processed_pseudogene	KNOWN	None	None	None	None	26402355	26402498	-1	None	None
9	None	ENSG00000266353	ENST00000584750	miRNA	NOVEL	None	None	None	None	42579907	42579973	-1	None	None
14	IGHD2-2	ENSG00000211931	ENST00000390591	IG_D_gene	KNOWN	None	5490	31	9	106382685	106382715	-1	None	IGHD22
HSCHR6_MHC_APD	None	ENSG00000236598	ENST00000418506	processed_transcript	KNOWN	None	None	None	None	29940009	29965806	-1	None	None
HSCHR6_MHC_APD	None	ENSG00000236598	ENST00000420884	processed_transcript	KNOWN	None	None	None	None	29961370	29965596	-1	None	None
HSCHR6_MHC_APD	None	ENSG00000236598	ENST00000455907	processed_transcript	KNOWN	None	None	None	None	29924016	29966257	-1	None	None
HSCHR6_MHC_APD	None	ENSG00000236598	ENST00000444667	processed_transcript	KNOWN	None	None	None	None	29905242	29965801	-1	None	None
HSCHR6_MHC_APD	None	ENSG00000236598	ENST00000450861	processed_transcript	KNOWN	None	None	None	None	29959218	29965796	-1	None	None
HSCHR6_MHC_APD	None	ENSG00000236598	ENST00000426916	processed_transcript	KNOWN	None	None	None	None	29905242	29965761	-1	None	None
HSCHR6_MHC_APD	None	ENSG00000236598	ENST00000446215	processed_transcript	KNOWN	None	None	None	None	29905242	29965760	-1	None	None
HSCHR6_MHC_APD	None	ENSG00000236598	ENST00000419485	processed_transcript	KNOWN	None	None	None	None	29916327	29939594	-1	None	None
HSCHR6_MHC_APD	None	ENSG00000236598	ENST00000452390	processed_transcript	KNOWN	None	None	None	None	29905242	29965545	-1	None	None
HSCHR6_MHC_APD	None	ENSG00000236598	ENST00000450484	processed_transcript	KNOWN	None	None	None	None	29939514	29963364	-1	None	None
6	None	ENSG00000244255	ENST00000456570	protein_coding	NOVEL	None	None	3801	1266	31895475	31919825	1	None	None
6	None	ENSG00000244255	ENST00000477310	protein_coding	NOVEL	None	None	3348	1115	31895501	31919807	1	None	None
22	None	ENSG00000236464	ENST00000420391	lincRNA	KNOWN	None	None	None	None	26557800	26560269	1	None	None
9	None	ENSG00000225380	ENST00000431378	IG_V_pseudogene	KNOWN	None	None	None	None	42751727	42752003	1	None	None
9	None	ENSG00000225380	ENST00000543725	IG_V_pseudogene	KNOWN	None	None	None	None	42751734	42752381	1	None	None
X	None	ENSG00000235461	ENST00000443247	lincRNA	KNOWN	None	None	None	None	84465712	84474704	1	None	None
HSCHR6_MHC_MCF	RNF5	ENSG00000225452	ENST00000413786	protein_coding	KNOWN	None	10068	543	180	32222563	32225000	1	None	NG2, G16, RING5, RMA1
HSCHR6_MHC_MCF	RNF5	ENSG00000225452	ENST00000496147	processed_transcript	KNOWN	None	10068	None	None	32222646	32223980	1	None	NG2, G16, RING5, RMA1
11	RPS6KB2	ENSG00000175634	ENST00000530623	nonsense_mediated_decay	KNOWN	None	10437	96	31	67195931	67199053	1	None	p70S6Kb, P70-BETA, STK14B, KLS
11	RPS6KB2	ENSG00000175634	ENST00000556575	nonsense_mediated_decay	KNOWN	None	10437	462	153	67195954	67200456	1	None	p70S6Kb, P70-BETA, STK14B, KLS
11	RPS6KB2	ENSG00000175634	ENST00000524934	protein_coding	PUTATIVE	None	10437	414	137	67195965	67198874	1	None	p70S6Kb, P70-BETA, STK14B, KLS
11	RPS6KB2	ENSG00000175634	ENST00000524814	processed_transcript	KNOWN	None	10437	None	None	67195965	67200452	1	None	p70S6Kb, P70-BETA, STK14B, KLS
11	RPS6KB2	ENSG00000175634	ENST00000420069	nonsense_mediated_decay	KNOWN	None	10437	96	31	67195969	67200466	1	None	p70S6Kb, P70-BETA, STK14B, KLS
11	RPS6KB2	ENSG00000175634	ENST00000312629	protein_coding	KNOWN	CCDS41677	10437	1449	482	67195972	67202872	1	None	p70S6Kb, P70-BETA, STK14B, KLS
11	RPS6KB2	ENSG00000175634	ENST00000528964	nonsense_mediated_decay	KNOWN	None	10437	465	154	67195975	67202815	1	None	p70S6Kb, P70-BETA, STK14B, KLS
11	RPS6KB2	ENSG00000175634	ENST00000525088	retained_intron	KNOWN	None	10437	None	None	67195976	67202872	1	None	p70S6Kb, P70-BETA, STK14B, KLS
11	RPS6KB2	ENSG00000175634	ENST00000525996	nonsense_mediated_decay	KNOWN	None	10437	324	107	67196998	67202489	1	None	p70S6Kb, P70-BETA, STK14B, KLS
11	RPS6KB2	ENSG00000175634	ENST00000525726	retained_intron	KNOWN	None	10437	None	None	67199711	67200286	1	None	p70S6Kb, P70-BETA, STK14B, KLS
11	RPS6KB2	ENSG00000175634	ENST00000526268	retained_intron	KNOWN	None	10437	None	None	67200247	67202115	1	None	p70S6Kb, P70-BETA, STK14B, KLS
11	RPS6KB2	ENSG00000175634	ENST00000531765	retained_intron	KNOWN	None	10437	None	None	67200915	67202425	1	None	p70S6Kb, P70-BETA, STK14B, KLS
11	RPS6KB2	ENSG00000175634	ENST00000539188	protein_coding	KNOWN	None	10437	465	154	67195969	67200536	1	None	p70S6Kb, P70-BETA, STK14B, KLS
22	None	ENSG00000229770	ENST00000434510	antisense	KNOWN	None	None	None	None	26557876	26559180	-1	None	None
9	None	ENSG00000224567	ENST00000426062	processed_pseudogene	KNOWN	None	None	None	None	42779314	42779707	1	None	None
22	None	ENSG00000224192	ENST00000414989	antisense	KNOWN	None	None	None	None	26637297	26650058	-1	None	None
7	CNPY4	ENSG00000166997	ENST00000262932	protein_coding	KNOWN	CCDS34701	28631	747	248	99717236	99723134	1	None	MGC40499, PRAT4B
7	CNPY4	ENSG00000166997	ENST00000470153	processed_transcript	KNOWN	None	28631	None	None	99717578	99719022	1	None	MGC40499, PRAT4B
7	CNPY4	ENSG00000166997	ENST00000483756	processed_transcript	KNOWN	None	28631	None	None	99717649	99720529	1	None	MGC40499, PRAT4B
7	CNPY4	ENSG00000166997	ENST00000480692	processed_transcript	KNOWN	None	28631	None	None	99719675	99722699	1	None	MGC40499, PRAT4B
7	CNPY4	ENSG00000166997	ENST00000462193	retained_intron	KNOWN	None	28631	None	None	99719882	99722803	1	None	MGC40499, PRAT4B
17	TEN1	ENSG00000257949	ENST00000397640	protein_coding	KNOWN	CCDS45780	37242	372	123	73975301	73996667	1	C17orf106	FLJ39785
17	TEN1	ENSG00000257949	ENST00000588202	protein_coding	PUTATIVE	None	37242	222	73	73975322	73996602	1	C17orf106	FLJ39785
17	TEN1	ENSG00000257949	ENST00000590676	protein_coding	KNOWN	None	37242	167	54	73975349	73987621	1	C17orf106	FLJ39785
17	TEN1	ENSG00000257949	ENST00000586891	protein_coding	PUTATIVE	None	37242	303	100	73975352	73987649	1	C17orf106	FLJ39785
17	TEN1	ENSG00000257949	ENST00000585710	retained_intron	KNOWN	None	37242	None	None	73982218	73987653	1	C17orf106	FLJ39785
17	TEN1	ENSG00000257949	ENST00000416485	protein_coding	KNOWN	None	37242	369	122	73975301	73996665	1	C17orf106	FLJ39785
14	KIAA0125	ENSG00000226777	ENST00000482999	processed_transcript	KNOWN	None	19955	None	None	106383838	106391825	1	FAM30A, C14orf110	HSPC053
14	KIAA0125	ENSG00000226777	ENST00000449410	protein_coding	PUTATIVE	None	19955	405	134	106384295	106388525	1	FAM30A, C14orf110	HSPC053
14	KIAA0125	ENSG00000226777	ENST00000429431	protein_coding	PUTATIVE	None	19955	411	136	106384297	106388531	1	FAM30A, C14orf110	HSPC053
14	KIAA0125	ENSG00000226777	ENST00000489911	processed_transcript	KNOWN	None	19955	None	None	106387347	106388531	1	FAM30A, C14orf110	HSPC053
14	KIAA0125	ENSG00000226777	ENST00000484511	processed_transcript	KNOWN	None	19955	None	None	106387977	106388531	1	FAM30A, C14orf110	HSPC053
6	None	ENSG00000229559	ENST00000445172	processed_transcript	KNOWN	None	None	None	None	37511329	37514531	-1	None	None
6	None	ENSG00000229559	ENST00000434901	transcribed_processed_pseudogene	KNOWN	None	None	None	None	37514367	37515056	-1	None	None
1	OPRD1	ENSG00000116329	ENST00000234961	protein_coding	KNOWN	CCDS329	8153	1119	372	29138654	29190208	1	None	None
8	PNMA2	ENSG00000240694	ENST00000522362	protein_coding	KNOWN	CCDS34868	9159	1095	364	26362202	26371608	-1	None	MA2, RGAG2
8	PNMA2	ENSG00000240694	ENST00000521740	processed_transcript	KNOWN	None	9159	None	None	26366329	26371399	-1	None	MA2, RGAG2
8	PNMA2	ENSG00000240694	ENST00000518212	processed_transcript	KNOWN	None	9159	None	None	26366375	26371416	-1	None	MA2, RGAG2
8	PNMA2	ENSG00000240694	ENST00000521875	processed_transcript	KNOWN	None	9159	None	None	26366381	26370531	-1	None	MA2, RGAG2
8	PNMA2	ENSG00000240694	ENST00000523244	processed_transcript	KNOWN	None	9159	None	None	26366405	26370483	-1	None	MA2, RGAG2
8	PNMA2	ENSG00000240694	ENST00000522450	processed_transcript	KNOWN	None	9159	None	None	26366477	26371388	-1	None	MA2, RGAG2
8	PNMA2	ENSG00000240694	ENST00000522764	processed_transcript	KNOWN	None	9159	None	None	26366528	26371608	-1	None	MA2, RGAG2
8	PNMA2	ENSG00000240694	ENST00000523616	retained_intron	KNOWN	None	9159	None	None	26366688	26371388	-1	None	MA2, RGAG2
9	None	ENSG00000211556	ENST00000390130	miRNA	NOVEL	None	None	None	None	116554638	116554719	-1	None	None
9	None	ENSG00000232905	ENST00000437852	processed_pseudogene	KNOWN	None	None	None	None	116612967	116613912	-1	None	None
9	MIR455	ENSG00000207726	ENST00000384993	miRNA	KNOWN	None	32344	None	None	116971714	116971809	1	MIRN455	hsa-mir-455
20	TCFL5	ENSG00000101190	ENST00000335351	protein_coding	KNOWN	CCDS13506	11646	1503	500	61472467	61493115	-1	None	Figlb, E2BP-1, CHA, bHLHe82
20	TCFL5	ENSG00000101190	ENST00000217162	protein_coding	KNOWN	None	11646	1452	483	61476490	61493115	-1	None	Figlb, E2BP-1, CHA, bHLHe82
12	FOXN4	ENSG00000139445	ENST00000468516	protein_coding	PUTATIVE	None	21399	253	83	109715784	109724528	-1	None	None
12	FOXN4	ENSG00000139445	ENST00000355216	protein_coding	KNOWN	None	21399	1014	337	109715784	109747025	-1	None	None
12	FOXN4	ENSG00000139445	ENST00000299162	protein_coding	KNOWN	CCDS9126	21399	1554	517	109715785	109747025	-1	None	None
12	FOXN4	ENSG00000139445	ENST00000423960	nonsense_mediated_decay	KNOWN	None	21399	657	218	109717566	109728057	-1	None	None
9	TEK	ENSG00000120156	ENST00000519097	protein_coding	NOVEL	None	11724	2931	976	27109139	27229685	1	VMCM	TIE2, TIE-2, VMCM1, CD202b
9	TEK	ENSG00000120156	ENST00000380036	protein_coding	KNOWN	CCDS6519	11724	3375	1124	27109147	27230173	1	VMCM	TIE2, TIE-2, VMCM1, CD202b
9	TEK	ENSG00000120156	ENST00000406359	protein_coding	NOVEL	None	11724	3246	1081	27109414	27229744	1	VMCM	TIE2, TIE-2, VMCM1, CD202b
9	TEK	ENSG00000120156	ENST00000519080	protein_coding	NOVEL	None	11724	1405	467	27109451	27202883	1	VMCM	TIE2, TIE-2, VMCM1, CD202b
9	RNA5SP287	ENSG00000252167	ENST00000516358	rRNA	KNOWN	None	43187	None	None	84500411	84500513	1	RN5S287	None
11	EIF3M	ENSG00000149100	ENST00000531921	nonsense_mediated_decay	KNOWN	None	24460	372	123	32605344	32617561	1	PCID1	hfl-B5, FLJ29030, GA17, eIF3m, TANGO7
11	EIF3M	ENSG00000149100	ENST00000531120	protein_coding	KNOWN	CCDS7880	24460	1125	374	32605371	32627808	1	PCID1	hfl-B5, FLJ29030, GA17, eIF3m, TANGO7
11	EIF3M	ENSG00000149100	ENST00000531186	retained_intron	KNOWN	None	24460	None	None	32605378	32610473	1	PCID1	hfl-B5, FLJ29030, GA17, eIF3m, TANGO7
11	EIF3M	ENSG00000149100	ENST00000525782	nonsense_mediated_decay	KNOWN	None	24460	225	74	32605378	32623047	1	PCID1	hfl-B5, FLJ29030, GA17, eIF3m, TANGO7
11	EIF3M	ENSG00000149100	ENST00000524896	protein_coding	NOVEL	None	24460	729	242	32605380	32624369	1	PCID1	hfl-B5, FLJ29030, GA17, eIF3m, TANGO7
11	EIF3M	ENSG00000149100	ENST00000532444	nonsense_mediated_decay	KNOWN	None	24460	93	30	32605384	32616462	1	PCID1	hfl-B5, FLJ29030, GA17, eIF3m, TANGO7
11	EIF3M	ENSG00000149100	ENST00000323213	protein_coding	PUTATIVE	None	24460	573	190	32605385	32617556	1	PCID1	hfl-B5, FLJ29030, GA17, eIF3m, TANGO7
11	EIF3M	ENSG00000149100	ENST00000524711	nonsense_mediated_decay	KNOWN	None	24460	180	59	32605394	32622339	1	PCID1	hfl-B5, FLJ29030, GA17, eIF3m, TANGO7
11	EIF3M	ENSG00000149100	ENST00000530026	retained_intron	KNOWN	None	24460	None	None	32605430	32615643	1	PCID1	hfl-B5, FLJ29030, GA17, eIF3m, TANGO7
11	EIF3M	ENSG00000149100	ENST00000532054	processed_transcript	KNOWN	None	24460	None	None	32605522	32610227	1	PCID1	hfl-B5, FLJ29030, GA17, eIF3m, TANGO7
11	EIF3M	ENSG00000149100	ENST00000533439	protein_coding	PUTATIVE	None	24460	306	101	32605615	32611149	1	PCID1	hfl-B5, FLJ29030, GA17, eIF3m, TANGO7
11	EIF3M	ENSG00000149100	ENST00000526267	protein_coding	NOVEL	None	24460	662	219	32611132	32623923	1	PCID1	hfl-B5, FLJ29030, GA17, eIF3m, TANGO7
11	EIF3M	ENSG00000149100	ENST00000525054	retained_intron	KNOWN	None	24460	None	None	32615315	32623848	1	PCID1	hfl-B5, FLJ29030, GA17, eIF3m, TANGO7
6	None	ENSG00000227920	ENST00000414875	lincRNA	KNOWN	None	None	None	None	37512921	37518636	1	None	None
9	None	ENSG00000200969	ENST00000364099	snoRNA	NOVEL	None	None	None	None	84503833	84503900	1	None	None
X	None	ENSG00000264517	ENST00000584664	miRNA	NOVEL	None	None	None	None	84499101	84499177	1	None	None
13	PAN3	ENSG00000152520	ENST00000503791	retained_intron	KNOWN	None	29991	None	None	28712643	28846450	1	None	None
13	PAN3	ENSG00000152520	ENST00000380958	protein_coding	KNOWN	CCDS9329	29991	2664	887	28712643	28866676	1	None	None
13	PAN3	ENSG00000152520	ENST00000399613	protein_coding	KNOWN	None	29991	2064	687	28713170	28869472	1	None	None
13	PAN3	ENSG00000152520	ENST00000483842	processed_transcript	PUTATIVE	None	29991	None	None	28813694	28830676	1	None	None
13	PAN3	ENSG00000152520	ENST00000282391	protein_coding	KNOWN	None	29991	1728	575	28813770	28869475	1	None	None
6	MRPL2	ENSG00000112651	ENST00000388752	protein_coding	KNOWN	CCDS34454	14056	918	305	43021767	43027544	-1	None	MRP-L14, RPML14, CGI-22
6	MRPL2	ENSG00000112651	ENST00000485654	retained_intron	KNOWN	None	14056	None	None	43021970	43023455	-1	None	MRP-L14, RPML14, CGI-22
6	MRPL2	ENSG00000112651	ENST00000230413	protein_coding	PUTATIVE	None	14056	678	225	43021970	43027132	-1	None	MRP-L14, RPML14, CGI-22
6	MRPL2	ENSG00000112651	ENST00000489623	protein_coding	PUTATIVE	None	14056	312	103	43021973	43027172	-1	None	MRP-L14, RPML14, CGI-22
6	MRPL2	ENSG00000112651	ENST00000470667	retained_intron	KNOWN	None	14056	None	None	43023283	43027106	-1	None	MRP-L14, RPML14, CGI-22
6	MRPL2	ENSG00000112651	ENST00000491898	retained_intron	KNOWN	None	14056	None	None	43023354	43027154	-1	None	MRP-L14, RPML14, CGI-22
6	MRPL2	ENSG00000112651	ENST00000480286	retained_intron	KNOWN	None	14056	None	None	43023630	43027144	-1	None	MRP-L14, RPML14, CGI-22
6	MRPL2	ENSG00000112651	ENST00000487429	protein_coding	PUTATIVE	None	14056	285	94	43025309	43027159	-1	None	MRP-L14, RPML14, CGI-22
6	MRPL2	ENSG00000112651	ENST00000468957	protein_coding	PUTATIVE	None	14056	291	96	43025436	43027176	-1	None	MRP-L14, RPML14, CGI-22
X	HUWE1	ENSG00000086758	ENST00000426907	protein_coding	KNOWN	None	30892	3592	1196	53559057	53576466	-1	None	Ib772, KIAA0312, UREB1
X	HUWE1	ENSG00000086758	ENST00000427052	protein_coding	KNOWN	None	30892	10225	3407	53559057	53630331	-1	None	Ib772, KIAA0312, UREB1
X	HUWE1	ENSG00000086758	ENST00000342160	protein_coding	KNOWN	CCDS35301	30892	13125	4374	53559057	53711114	-1	None	Ib772, KIAA0312, UREB1
X	HUWE1	ENSG00000086758	ENST00000488459	processed_transcript	KNOWN	None	30892	None	None	53560503	53561620	-1	None	Ib772, KIAA0312, UREB1
X	HUWE1	ENSG00000086758	ENST00000474971	processed_transcript	KNOWN	None	30892	None	None	53562888	53563612	-1	None	Ib772, KIAA0312, UREB1
X	HUWE1	ENSG00000086758	ENST00000480438	processed_transcript	KNOWN	None	30892	None	None	53564225	53565428	-1	None	Ib772, KIAA0312, UREB1
X	HUWE1	ENSG00000086758	ENST00000463852	processed_transcript	KNOWN	None	30892	None	None	53566618	53569833	-1	None	Ib772, KIAA0312, UREB1
X	HUWE1	ENSG00000086758	ENST00000468322	processed_transcript	KNOWN	None	30892	None	None	53569404	53574770	-1	None	Ib772, KIAA0312, UREB1
X	HUWE1	ENSG00000086758	ENST00000474288	processed_transcript	KNOWN	None	30892	None	None	53570671	53575013	-1	None	Ib772, KIAA0312, UREB1
X	HUWE1	ENSG00000086758	ENST00000218328	protein_coding	KNOWN	None	30892	5019	1672	53611171	53713673	-1	None	Ib772, KIAA0312, UREB1
X	HUWE1	ENSG00000086758	ENST00000489876	processed_transcript	KNOWN	None	30892	None	None	53642731	53652439	-1	None	Ib772, KIAA0312, UREB1
X	HUWE1	ENSG00000086758	ENST00000424562	protein_coding	KNOWN	None	30892	682	226	53651581	53655477	-1	None	Ib772, KIAA0312, UREB1
X	HUWE1	ENSG00000086758	ENST00000471676	processed_transcript	KNOWN	None	30892	None	None	53657825	53658704	-1	None	Ib772, KIAA0312, UREB1
X	HUWE1	ENSG00000086758	ENST00000446750	protein_coding	KNOWN	None	30892	278	91	53674384	53711114	-1	None	Ib772, KIAA0312, UREB1
X	HUWE1	ENSG00000086758	ENST00000262854	protein_coding	KNOWN	CCDS35301	30892	13125	4374	53559105	53713673	-1	None	Ib772, KIAA0312, UREB1
X	None	ENSG00000223707	ENST00000421841	processed_pseudogene	KNOWN	None	None	None	None	85104415	85105144	-1	None	None
6	TMEM151B	ENSG00000178233	ENST00000451188	protein_coding	KNOWN	CCDS47437	21315	1701	566	44238203	44247181	1	C6orf137, TMEM193	bA444E17.5
X	MIR361	ENSG00000199051	ENST00000362181	miRNA	KNOWN	None	31867	None	None	85158641	85158712	-1	MIRN361	hsa-mir-361
6	L3MBTL3	ENSG00000198945	ENST00000529410	protein_coding	KNOWN	CCDS34537	23035	2343	780	130334844	130462594	1	None	KIAA1798
6	L3MBTL3	ENSG00000198945	ENST00000526087	protein_coding	NOVEL	None	23035	489	162	130339728	130372488	1	None	KIAA1798
6	L3MBTL3	ENSG00000198945	ENST00000533560	protein_coding	KNOWN	CCDS34538	23035	2268	755	130339734	130461625	1	None	KIAA1798
6	L3MBTL3	ENSG00000198945	ENST00000528385	protein_coding	KNOWN	None	23035	571	189	130340512	130374125	1	None	KIAA1798
6	L3MBTL3	ENSG00000198945	ENST00000368139	protein_coding	KNOWN	CCDS34538	23035	2268	755	130341636	130462585	1	None	KIAA1798
6	L3MBTL3	ENSG00000198945	ENST00000526019	protein_coding	KNOWN	CCDS34538	23035	2268	755	130341665	130461630	1	None	KIAA1798
6	L3MBTL3	ENSG00000198945	ENST00000368136	protein_coding	KNOWN	CCDS34537	23035	2343	780	130341702	130462584	1	None	KIAA1798
6	L3MBTL3	ENSG00000198945	ENST00000531313	retained_intron	KNOWN	None	23035	None	None	130376232	130389516	1	None	KIAA1798
6	L3MBTL3	ENSG00000198945	ENST00000533890	retained_intron	KNOWN	None	23035	None	None	130391992	130413906	1	None	KIAA1798
6	L3MBTL3	ENSG00000198945	ENST00000361794	protein_coding	KNOWN	CCDS34537	23035	2343	780	130339734	130462582	1	None	KIAA1798
9	SPATA31D5P	ENSG00000240632	ENST00000527857	processed_transcript	KNOWN	None	38602	None	None	84528352	84534841	1	FAM75D5	FLJ43950, FAM75D5P
9	SPATA31D5P	ENSG00000240632	ENST00000376459	transcribed_unprocessed_pseudogene	KNOWN	None	38602	None	None	84528381	84534791	1	FAM75D5	FLJ43950, FAM75D5P
7	PRKAG2	ENSG00000106617	ENST00000287878	protein_coding	KNOWN	CCDS5928	9386	1710	569	151253197	151574210	-1	None	AAKG, AAKG2, H91620p, WPWS, CMH6
7	PRKAG2	ENSG00000106617	ENST00000418337	protein_coding	PUTATIVE	CCDS47752	9386	987	328	151253210	151329439	-1	None	AAKG, AAKG2, H91620p, WPWS, CMH6
7	PRKAG2	ENSG00000106617	ENST00000492843	protein_coding	PUTATIVE	None	9386	1338	445	151253247	151433400	-1	None	AAKG, AAKG2, H91620p, WPWS, CMH6
7	PRKAG2	ENSG00000106617	ENST00000392801	protein_coding	PUTATIVE	CCDS43683	9386	1578	525	151254027	151511926	-1	None	AAKG, AAKG2, H91620p, WPWS, CMH6
7	PRKAG2	ENSG00000106617	ENST00000479461	retained_intron	KNOWN	None	9386	None	None	151254079	151261399	-1	None	AAKG, AAKG2, H91620p, WPWS, CMH6
7	PRKAG2	ENSG00000106617	ENST00000485183	retained_intron	KNOWN	None	9386	None	None	151257461	151261400	-1	None	AAKG, AAKG2, H91620p, WPWS, CMH6
7	PRKAG2	ENSG00000106617	ENST00000478989	nonsense_mediated_decay	KNOWN	None	9386	357	118	151261281	151272037	-1	None	AAKG, AAKG2, H91620p, WPWS, CMH6
7	PRKAG2	ENSG00000106617	ENST00000488258	nonsense_mediated_decay	KNOWN	None	9386	690	229	151265780	151573933	-1	None	AAKG, AAKG2, H91620p, WPWS, CMH6
7	PRKAG2	ENSG00000106617	ENST00000476632	protein_coding	PUTATIVE	None	9386	489	162	151265823	151330251	-1	None	AAKG, AAKG2, H91620p, WPWS, CMH6
7	PRKAG2	ENSG00000106617	ENST00000493872	nonsense_mediated_decay	KNOWN	None	9386	159	52	151267276	151329263	-1	None	AAKG, AAKG2, H91620p, WPWS, CMH6
7	PRKAG2	ENSG00000106617	ENST00000491938	retained_intron	KNOWN	None	9386	None	None	151269494	151329254	-1	None	AAKG, AAKG2, H91620p, WPWS, CMH6
7	PRKAG2	ENSG00000106617	ENST00000483775	retained_intron	KNOWN	None	9386	None	None	151273269	151329313	-1	None	AAKG, AAKG2, H91620p, WPWS, CMH6
7	PRKAG2	ENSG00000106617	ENST00000481434	retained_intron	KNOWN	None	9386	None	None	151372025	151574210	-1	None	AAKG, AAKG2, H91620p, WPWS, CMH6
7	PRKAG2	ENSG00000106617	ENST00000487375	processed_transcript	PUTATIVE	None	9386	None	None	151372505	151433264	-1	None	AAKG, AAKG2, H91620p, WPWS, CMH6
7	PRKAG2	ENSG00000106617	ENST00000461529	processed_transcript	KNOWN	None	9386	None	None	151372634	151487718	-1	None	AAKG, AAKG2, H91620p, WPWS, CMH6
7	PRKAG2	ENSG00000106617	ENST00000474383	processed_transcript	PUTATIVE	None	9386	None	None	151534354	151573873	-1	None	AAKG, AAKG2, H91620p, WPWS, CMH6
7	PRKAG2	ENSG00000106617	ENST00000433631	protein_coding	KNOWN	None	9386	1335	444	151253247	151433349	-1	None	AAKG, AAKG2, H91620p, WPWS, CMH6
X	None	ENSG00000199567	ENST00000362697	misc_RNA	NOVEL	None	None	None	None	85274612	85274719	1	None	None
13	AKAP11	ENSG00000023516	ENST00000025301	protein_coding	KNOWN	CCDS9383	369	5706	1901	42846289	42897396	1	None	KIAA0629, AKAP220, PRKA11, FLJ11304, DKFZp781I12161, PPP1R44
X	NDUFA5P7	ENSG00000234039	ENST00000452914	processed_pseudogene	KNOWN	None	48849	None	None	85321231	85321472	-1	None	None
16	SYT17	ENSG00000103528	ENST00000570264	protein_coding	PUTATIVE	None	24119	238	78	19179293	19194939	1	None	None
16	SYT17	ENSG00000103528	ENST00000566261	protein_coding	PUTATIVE	None	24119	280	92	19179346	19194981	1	None	None
16	SYT17	ENSG00000103528	ENST00000355377	protein_coding	KNOWN	CCDS10575	24119	1425	474	19179571	19279652	1	None	None
16	SYT17	ENSG00000103528	ENST00000568115	protein_coding	PUTATIVE	None	24119	1179	392	19179582	19261400	1	None	None
16	SYT17	ENSG00000103528	ENST00000562034	protein_coding	PUTATIVE	None	24119	1242	413	19181104	19278450	1	None	None
16	SYT17	ENSG00000103528	ENST00000562711	protein_coding	PUTATIVE	None	24119	1413	470	19183676	19278429	1	None	None
16	SYT17	ENSG00000103528	ENST00000562274	retained_intron	KNOWN	None	24119	None	None	19191494	19195350	1	None	None
16	SYT17	ENSG00000103528	ENST00000565183	nonsense_mediated_decay	KNOWN	None	24119	427	141	19195226	19261292	1	None	None
16	SYT17	ENSG00000103528	ENST00000568433	protein_coding	PUTATIVE	None	24119	507	168	19222479	19278440	1	None	None
4	None	ENSG00000188438	ENST00000344638	unprocessed_pseudogene	KNOWN	None	None	None	None	9400930	9405291	1	None	None
11	MOGAT2	ENSG00000166391	ENST00000198801	protein_coding	KNOWN	CCDS8240	23248	1005	334	75428864	75442660	1	None	MGAT2, DGAT2L5, FLJ22644
11	MOGAT2	ENSG00000166391	ENST00000525093	nonsense_mediated_decay	KNOWN	None	23248	855	284	75428934	75442331	1	None	MGAT2, DGAT2L5, FLJ22644
11	MOGAT2	ENSG00000166391	ENST00000526712	protein_coding	KNOWN	None	23248	759	252	75430419	75444003	1	None	MGAT2, DGAT2L5, FLJ22644
HSCHR6_MHC_SSTO	RPS18	ENSG00000227794	ENST00000440980	protein_coding	KNOWN	None	10401	102	33	33379131	33379847	1	D6S218E	KE3, KE-3, HKE3, S18
HSCHR6_MHC_SSTO	RPS18	ENSG00000227794	ENST00000497078	processed_transcript	KNOWN	None	10401	None	None	33379196	33379847	1	D6S218E	KE3, KE-3, HKE3, S18
HSCHR6_MHC_SSTO	RPS18	ENSG00000227794	ENST00000473705	retained_intron	KNOWN	None	10401	None	None	33379253	33379847	1	D6S218E	KE3, KE-3, HKE3, S18
HSCHR6_MHC_SSTO	RPS18	ENSG00000227794	ENST00000482819	retained_intron	KNOWN	None	10401	None	None	33382446	33382651	1	D6S218E	KE3, KE-3, HKE3, S18
HSCHR6_MHC_APD	HCG4P3	ENSG00000223798	ENST00000420073	unprocessed_pseudogene	KNOWN	None	22922	None	None	29910349	29911344	-1	None	HCGIV-03, HCGIV.2, HCGIV-3
22	RASL10A	ENSG00000100276	ENST00000401450	protein_coding	PUTATIVE	None	16954	348	115	29708922	29711681	-1	None	RRP22
22	RASL10A	ENSG00000100276	ENST00000216101	protein_coding	KNOWN	CCDS13854	16954	612	203	29708922	29711745	-1	None	RRP22
22	RASL10A	ENSG00000100276	ENST00000474590	processed_transcript	KNOWN	None	16954	None	None	29709524	29710295	-1	None	RRP22
4	RNA5SP153	ENSG00000252307	ENST00000516498	rRNA	KNOWN	None	43053	None	None	9412904	9412979	-1	RN5S153	None
X	None	ENSG00000225536	ENST00000394563	processed_pseudogene	KNOWN	None	None	None	None	85339720	85341343	-1	None	None
4	None	ENSG00000232773	ENST00000426866	unprocessed_pseudogene	KNOWN	None	None	None	None	9424039	9431428	1	None	None
17	None	ENSG00000268024	ENST00000601918	protein_coding	NOVEL	None	None	69	22	32581900	32582306	-1	None	None
17	CDK3	ENSG00000250506	ENST00000588812	protein_coding	KNOWN	None	1772	494	163	73996987	73998599	1	None	None
17	CDK3	ENSG00000250506	ENST00000425876	protein_coding	KNOWN	CCDS11736	1772	918	305	73997419	74002080	1	None	None
17	CDK3	ENSG00000250506	ENST00000586261	protein_coding	PUTATIVE	None	1772	640	212	73997796	73999447	1	None	None
17	CDK3	ENSG00000250506	ENST00000448471	protein_coding	KNOWN	CCDS11736	1772	918	305	73996987	74002078	1	None	None
9	None	ENSG00000230846	ENST00000427387	lincRNA	KNOWN	None	None	None	None	84542936	84546283	-1	None	None
HSCHR6_MHC_APD	HLA-J	ENSG00000228524	ENST00000486252	processed_transcript	KNOWN	None	4967	None	None	29910811	29914184	1	HLA-CDA12, D6S203	CDA12, HLA-59
HSCHR6_MHC_APD	HLA-J	ENSG00000228524	ENST00000490987	processed_transcript	KNOWN	None	4967	None	None	29910815	29914184	1	HLA-CDA12, D6S203	CDA12, HLA-59
HSCHR6_MHC_APD	HLA-J	ENSG00000228524	ENST00000469837	processed_transcript	KNOWN	None	4967	None	None	29910824	29914184	1	HLA-CDA12, D6S203	CDA12, HLA-59
HSCHR6_MHC_APD	HLA-J	ENSG00000228524	ENST00000478141	transcribed_unprocessed_pseudogene	KNOWN	None	4967	None	None	29910834	29913767	1	HLA-CDA12, D6S203	CDA12, HLA-59
4	OR7E86P	ENSG00000248364	ENST00000505858	unprocessed_pseudogene	KNOWN	None	14694	None	None	9460981	9461970	1	None	None
4	OR7E84P	ENSG00000215323	ENST00000510480	unprocessed_pseudogene	KNOWN	None	14690	None	None	9470746	9471694	1	OR7E54P	OST185
14	IGHD1-1	ENSG00000236170	ENST00000454908	IG_D_gene	KNOWN	None	5482	17	4	106385361	106385377	-1	None	IGHD11
9	TMEM203	ENSG00000187713	ENST00000343666	protein_coding	KNOWN	CCDS35185	28217	411	136	140098534	140100090	-1	None	MGC14327, HBEBP1
9	TMEM203	ENSG00000187713	ENST00000537254	protein_coding	KNOWN	CCDS35185	28217	411	136	140099327	140100089	-1	None	MGC14327, HBEBP1
22	RNA5SP495	ENSG00000252267	ENST00000516458	rRNA	KNOWN	None	43395	None	None	26786633	26786742	-1	RN5S495	None
4	None	ENSG00000266246	ENST00000579255	miRNA	NOVEL	None	None	None	None	9472697	9472784	1	None	None
9	SPATA31D4	ENSG00000189357	ENST00000341875	processed_transcript	KNOWN	None	38601	None	None	84543398	84549913	1	FAM75D4	FLJ43859
9	SPATA31D4	ENSG00000189357	ENST00000419782	transcribed_unprocessed_pseudogene	KNOWN	None	38601	None	None	84543429	84549863	1	FAM75D4	FLJ43859
4	OR7E85P	ENSG00000250884	ENST00000512164	unprocessed_pseudogene	KNOWN	None	14692	None	None	9485365	9486349	1	OR7E88P	None
14	IGHV6-1	ENSG00000211933	ENST00000390593	IG_V_gene	KNOWN	None	5662	363	120	106405611	106406108	-1	None	None
22	None	ENSG00000230203	ENST00000450463	processed_pseudogene	KNOWN	None	None	None	None	26818037	26819159	-1	None	None
11	CSRP3	ENSG00000129170	ENST00000533783	protein_coding	KNOWN	CCDS7848	2472	585	194	19203587	19232120	-1	None	CLP, MLP, CMD1M
11	CSRP3	ENSG00000129170	ENST00000265968	protein_coding	KNOWN	CCDS7848	2472	585	194	19203578	19223589	-1	None	CLP, MLP, CMD1M
12	AACS	ENSG00000081760	ENST00000316519	protein_coding	KNOWN	CCDS9263	21298	2019	672	125549925	125627866	1	None	FLJ12389, SUR-5, ACSF1
12	AACS	ENSG00000081760	ENST00000536752	protein_coding	PUTATIVE	None	21298	428	141	125549980	125562711	1	None	FLJ12389, SUR-5, ACSF1
12	AACS	ENSG00000081760	ENST00000418937	nonsense_mediated_decay	KNOWN	None	21298	657	218	125549980	125591708	1	None	FLJ12389, SUR-5, ACSF1
12	AACS	ENSG00000081760	ENST00000537477	protein_coding	PUTATIVE	None	21298	294	97	125575559	125591700	1	None	FLJ12389, SUR-5, ACSF1
12	AACS	ENSG00000081760	ENST00000537564	protein_coding	PUTATIVE	None	21298	259	85	125577026	125591815	1	None	FLJ12389, SUR-5, ACSF1
12	AACS	ENSG00000081760	ENST00000441247	protein_coding	PUTATIVE	None	21298	778	258	125585440	125609582	1	None	FLJ12389, SUR-5, ACSF1
12	AACS	ENSG00000081760	ENST00000316543	protein_coding	PUTATIVE	None	21298	813	270	125589697	125627862	1	None	FLJ12389, SUR-5, ACSF1
12	AACS	ENSG00000081760	ENST00000539251	protein_coding	PUTATIVE	None	21298	362	119	125598967	125626723	1	None	FLJ12389, SUR-5, ACSF1
12	AACS	ENSG00000081760	ENST00000538851	protein_coding	PUTATIVE	None	21298	674	223	125602113	125619399	1	None	FLJ12389, SUR-5, ACSF1
12	AACS	ENSG00000081760	ENST00000545511	protein_coding	PUTATIVE	None	21298	555	184	125604404	125627873	1	None	FLJ12389, SUR-5, ACSF1
12	AACS	ENSG00000081760	ENST00000536118	protein_coding	PUTATIVE	None	21298	477	158	125610288	125621341	1	None	FLJ12389, SUR-5, ACSF1
12	AACS	ENSG00000081760	ENST00000543665	protein_coding	PUTATIVE	None	21298	315	104	125613092	125627865	1	None	FLJ12389, SUR-5, ACSF1
12	AACS	ENSG00000081760	ENST00000398953	processed_transcript	PUTATIVE	None	21298	None	None	125620336	125621286	1	None	FLJ12389, SUR-5, ACSF1
12	AACS	ENSG00000081760	ENST00000261686	protein_coding	KNOWN	None	21298	1800	599	125549987	125627861	1	None	FLJ12389, SUR-5, ACSF1
4	UNC93B7	ENSG00000251624	ENST00000509439	unprocessed_pseudogene	KNOWN	None	44036	None	None	9495380	9499710	1	None	None
20	SLC12A5	ENSG00000124140	ENST00000372315	protein_coding	KNOWN	None	13818	858	285	44657835	44669799	1	None	KIAA1176, KCC2
20	SLC12A5	ENSG00000124140	ENST00000243964	protein_coding	KNOWN	CCDS13391	13818	3351	1116	44657886	44688784	1	None	KIAA1176, KCC2
20	SLC12A5	ENSG00000124140	ENST00000454036	protein_coding	KNOWN	CCDS46610	13818	3420	1139	44650329	44688789	1	None	KIAA1176, KCC2
20	SLC12A5	ENSG00000124140	ENST00000539566	protein_coding	KNOWN	None	13818	561	186	44657863	44678292	1	None	KIAA1176, KCC2
HSCHR6_MHC_DBB	ZBTB12	ENSG00000234852	ENST00000458242	protein_coding	KNOWN	None	19066	1380	459	31849569	31851954	-1	C6orf46	G10, NG35, D6S59E
17	CCL2	ENSG00000108691	ENST00000580907	protein_coding	PUTATIVE	None	10618	198	65	32582304	32583835	1	SCYA2	MCP1, MCP-1, MCAF, SMC-CF, GDCF-2, HC11, MGC9434
17	CCL2	ENSG00000108691	ENST00000225831	protein_coding	KNOWN	CCDS11277	10618	300	99	32582304	32584222	1	SCYA2	MCP1, MCP-1, MCAF, SMC-CF, GDCF-2, HC11, MGC9434
17	CCL2	ENSG00000108691	ENST00000582017	retained_intron	KNOWN	None	10618	None	None	32583227	32584222	1	SCYA2	MCP1, MCP-1, MCAF, SMC-CF, GDCF-2, HC11, MGC9434
22	None	ENSG00000261188	ENST00000566814	antisense	KNOWN	None	None	None	None	26908503	26910534	1	None	None
22	None	ENSG00000261188	ENST00000565764	antisense	KNOWN	None	None	None	None	26908521	26909878	1	None	None
X	TPMTP4	ENSG00000223574	ENST00000450749	processed_pseudogene	KNOWN	None	44567	None	None	85383897	85384574	-1	None	None
19	OR1I1	ENSG00000094661	ENST00000209540	protein_coding	KNOWN	CCDS32937	8207	1068	355	15197791	15199032	1	None	OR1I1P, OR19-20, OR1I1Q
2	MBD5	ENSG00000204406	ENST00000488372	processed_transcript	KNOWN	None	20444	None	None	148778580	149216066	1	None	FLJ11113, KIAA1461
2	MBD5	ENSG00000204406	ENST00000407073	protein_coding	KNOWN	CCDS33302	20444	4485	1494	148778580	149271020	1	None	FLJ11113, KIAA1461
2	MBD5	ENSG00000204406	ENST00000496158	processed_transcript	KNOWN	None	20444	None	None	148778596	149215927	1	None	FLJ11113, KIAA1461
2	MBD5	ENSG00000204406	ENST00000478190	processed_transcript	KNOWN	None	20444	None	None	148778807	148782627	1	None	FLJ11113, KIAA1461
2	MBD5	ENSG00000204406	ENST00000473478	processed_transcript	KNOWN	None	20444	None	None	148779008	148990896	1	None	FLJ11113, KIAA1461
2	MBD5	ENSG00000204406	ENST00000470063	processed_transcript	KNOWN	None	20444	None	None	148779033	148936362	1	None	FLJ11113, KIAA1461
2	MBD5	ENSG00000204406	ENST00000469438	processed_transcript	PUTATIVE	None	20444	None	None	148779162	148798934	1	None	FLJ11113, KIAA1461
2	MBD5	ENSG00000204406	ENST00000478804	processed_transcript	KNOWN	None	20444	None	None	148826141	149215886	1	None	FLJ11113, KIAA1461
2	MBD5	ENSG00000204406	ENST00000404807	protein_coding	NOVEL	None	20444	5184	1727	149216199	149271020	1	None	FLJ11113, KIAA1461
2	MBD5	ENSG00000204406	ENST00000416015	protein_coding	NOVEL	None	20444	3194	1063	149226294	149275805	1	None	FLJ11113, KIAA1461
2	MBD5	ENSG00000204406	ENST00000496893	retained_intron	KNOWN	None	20444	None	None	149242685	149271046	1	None	FLJ11113, KIAA1461
4	OR7E83P	ENSG00000249866	ENST00000511021	unprocessed_pseudogene	KNOWN	None	14688	None	None	9514554	9515523	1	OR7E134P	None
15	ITPKA	ENSG00000137825	ENST00000425927	protein_coding	PUTATIVE	None	6178	780	259	41785591	41794686	1	None	IP3KA, IP3-3KA
15	ITPKA	ENSG00000137825	ENST00000260386	protein_coding	KNOWN	CCDS10076	6178	1386	461	41786073	41795747	1	None	IP3KA, IP3-3KA
15	ITPKA	ENSG00000137825	ENST00000462816	retained_intron	KNOWN	None	6178	None	None	41793637	41795297	1	None	IP3KA, IP3-3KA
15	ITPKA	ENSG00000137825	ENST00000491007	retained_intron	KNOWN	None	6178	None	None	41793992	41794843	1	None	IP3KA, IP3-3KA
4	None	ENSG00000249443	ENST00000509725	processed_pseudogene	KNOWN	None	None	None	None	9523555	9523921	1	None	None
1	RNASEL	ENSG00000135828	ENST00000367559	protein_coding	KNOWN	CCDS1347	10050	2226	741	182542769	182558391	-1	RNS4, PRCA1	None
1	RNASEL	ENSG00000135828	ENST00000444138	protein_coding	KNOWN	CCDS1347	10050	2226	741	182542772	182556108	-1	RNS4, PRCA1	None
1	RNASEL	ENSG00000135828	ENST00000539397	protein_coding	KNOWN	None	10050	1959	652	182547256	182558391	-1	RNS4, PRCA1	None
HSCHR6_MHC_DBB	None	ENSG00000257600	ENST00000547537	protein_coding	NOVEL	None	None	246	81	31860976	31861221	-1	None	None
4	None	ENSG00000242034	ENST00000463958	processed_pseudogene	KNOWN	None	None	None	None	9555234	9555605	-1	None	None
14	IGHV1-2	ENSG00000211934	ENST00000390594	IG_V_gene	KNOWN	None	5550	351	116	106452671	106453170	-1	None	V35
4	MIR548I2	ENSG00000221275	ENST00000408348	miRNA	KNOWN	None	35353	None	None	9557789	9557937	-1	MIRN548I2	hsa-mir-548i-2
6	BRD2	ENSG00000204256	ENST00000374825	protein_coding	KNOWN	CCDS4762	1103	2406	801	32936437	32949282	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
6	BRD2	ENSG00000204256	ENST00000496118	protein_coding	PUTATIVE	None	1103	489	162	32936942	32939918	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
6	BRD2	ENSG00000204256	ENST00000456339	protein_coding	PUTATIVE	None	1103	887	294	32937096	32944395	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
6	BRD2	ENSG00000204256	ENST00000580234	processed_transcript	KNOWN	None	1103	None	None	32938015	32939893	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
6	BRD2	ENSG00000204256	ENST00000584808	processed_transcript	KNOWN	None	1103	None	None	32938482	32939825	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
6	BRD2	ENSG00000204256	ENST00000374831	protein_coding	KNOWN	CCDS4762	1103	2406	801	32938665	32949282	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
6	BRD2	ENSG00000204256	ENST00000581002	processed_transcript	KNOWN	None	1103	None	None	32938679	32939828	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
6	BRD2	ENSG00000204256	ENST00000495733	nonsense_mediated_decay	KNOWN	None	1103	1206	401	32938707	32945974	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
6	BRD2	ENSG00000204256	ENST00000482914	nonsense_mediated_decay	KNOWN	None	1103	444	147	32938730	32949282	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
6	BRD2	ENSG00000204256	ENST00000607833	protein_coding	KNOWN	None	1103	1656	551	32939994	32945980	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
6	BRD2	ENSG00000204256	ENST00000395287	protein_coding	NOVEL	CCDS56420	1103	2511	836	32940507	32949282	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
6	BRD2	ENSG00000204256	ENST00000449025	protein_coding	PUTATIVE	None	1103	2423	806	32940861	32949282	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
6	BRD2	ENSG00000204256	ENST00000464592	retained_intron	KNOWN	None	1103	None	None	32943919	32945991	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
6	BRD2	ENSG00000204256	ENST00000606059	protein_coding	PUTATIVE	None	1103	478	158	32944190	32944851	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
6	BRD2	ENSG00000204256	ENST00000481259	nonsense_mediated_decay	KNOWN	None	1103	413	136	32944346	32945678	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
6	BRD2	ENSG00000204256	ENST00000463639	retained_intron	KNOWN	None	1103	None	None	32945327	32946578	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
6	BRD2	ENSG00000204256	ENST00000469132	retained_intron	KNOWN	None	1103	None	None	32947319	32949063	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
6	BRD2	ENSG00000204256	ENST00000482838	retained_intron	KNOWN	None	1103	None	None	32947459	32948543	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
6	BRD2	ENSG00000204256	ENST00000395289	protein_coding	KNOWN	CCDS56420	1103	2511	836	32938678	32949281	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
6	BRD2	ENSG00000204256	ENST00000449085	protein_coding	KNOWN	CCDS56421	1103	2265	754	32940861	32949085	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
6	BRD2	ENSG00000204256	ENST00000443797	protein_coding	KNOWN	None	1103	2046	681	32938730	32949085	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
X	EEF1A1P29	ENSG00000215093	ENST00000416082	processed_pseudogene	KNOWN	None	37904	None	None	85415268	85416363	-1	None	None
10	None	ENSG00000223111	ENST00000411179	snoRNA	NOVEL	None	None	None	None	51611024	51611224	-1	None	None
19	SIGLEC14	ENSG00000254415	ENST00000360844	protein_coding	KNOWN	CCDS42604	32926	1191	396	52145806	52150054	-1	None	None
19	SIGLEC14	ENSG00000254415	ENST00000533866	retained_intron	KNOWN	None	32926	None	None	52146076	52148830	-1	None	None
11	CTSC	ENSG00000109861	ENST00000227266	protein_coding	KNOWN	CCDS8282	2528	1392	463	88026760	88070955	-1	PLS, PALS	DPP1
11	CTSC	ENSG00000109861	ENST00000533897	retained_intron	KNOWN	None	2528	None	None	88026956	88032923	-1	PLS, PALS	DPP1
11	CTSC	ENSG00000109861	ENST00000527018	protein_coding	PUTATIVE	None	2528	733	243	88029327	88070917	-1	PLS, PALS	DPP1
11	CTSC	ENSG00000109861	ENST00000533865	processed_transcript	KNOWN	None	2528	None	None	88042452	88070908	-1	PLS, PALS	DPP1
11	CTSC	ENSG00000109861	ENST00000524463	protein_coding	KNOWN	CCDS31654	2528	414	137	88053979	88070929	-1	PLS, PALS	DPP1
11	CTSC	ENSG00000109861	ENST00000528020	protein_coding	PUTATIVE	None	2528	110	35	88059254	88061366	-1	PLS, PALS	DPP1
11	CTSC	ENSG00000109861	ENST00000529974	protein_coding	KNOWN	CCDS44693	2528	426	141	88059285	88070901	-1	PLS, PALS	DPP1
11	CTSC	ENSG00000109861	ENST00000393301	processed_transcript	KNOWN	None	2528	None	None	88059533	88070868	-1	PLS, PALS	DPP1
11	CTSC	ENSG00000109861	ENST00000534131	retained_intron	KNOWN	None	2528	None	None	88067904	88070904	-1	PLS, PALS	DPP1
10	PARGP1	ENSG00000214982	ENST00000456092	unprocessed_pseudogene	KNOWN	None	45008	None	None	51623583	51707661	1	None	None
10	PARGP1	ENSG00000214982	ENST00000431974	unprocessed_pseudogene	KNOWN	None	45008	None	None	51623417	51732824	1	None	None
10	FAM196A	ENSG00000188916	ENST00000522781	protein_coding	KNOWN	CCDS31312	33859	1440	479	128933694	128994422	-1	C10orf141	FLJ45557
10	FAM196A	ENSG00000188916	ENST00000424811	protein_coding	NOVEL	None	33859	1368	455	128934458	128975273	-1	C10orf141	FLJ45557
11	SLC22A8	ENSG00000149452	ENST00000539841	retained_intron	KNOWN	None	10972	None	None	62756626	62766971	-1	None	OAT3
11	SLC22A8	ENSG00000149452	ENST00000336232	protein_coding	KNOWN	CCDS8042	10972	1629	542	62760296	62783311	-1	None	OAT3
11	SLC22A8	ENSG00000149452	ENST00000451262	retained_intron	KNOWN	None	10972	None	None	62760297	62762929	-1	None	OAT3
11	SLC22A8	ENSG00000149452	ENST00000545207	protein_coding	PUTATIVE	CCDS53644	10972	1356	451	62760555	62783287	-1	None	OAT3
11	SLC22A8	ENSG00000149452	ENST00000535878	protein_coding	PUTATIVE	CCDS53643	10972	1260	419	62760700	62783282	-1	None	OAT3
11	SLC22A8	ENSG00000149452	ENST00000311438	protein_coding	NOVEL	None	10972	1602	533	62760709	62782430	-1	None	OAT3
11	SLC22A8	ENSG00000149452	ENST00000430500	protein_coding	KNOWN	CCDS8042	10972	1629	542	62760709	62783311	-1	None	OAT3
11	SLC22A8	ENSG00000149452	ENST00000542795	processed_transcript	KNOWN	None	10972	None	None	62763564	62768467	-1	None	OAT3
11	SLC22A8	ENSG00000149452	ENST00000542904	retained_intron	KNOWN	None	10972	None	None	62763578	62768468	-1	None	OAT3
11	SLC22A8	ENSG00000149452	ENST00000544707	retained_intron	KNOWN	None	10972	None	None	62782046	62783311	-1	None	OAT3
16	None	ENSG00000261818	ENST00000563811	lincRNA	KNOWN	None	None	None	None	65614571	65680850	1	None	None
10	ACSL5	ENSG00000197142	ENST00000354655	protein_coding	KNOWN	CCDS7573	16526	2052	683	114133776	114188134	1	FACL5	ACS5, ACS2
10	ACSL5	ENSG00000197142	ENST00000479936	processed_transcript	KNOWN	None	16526	None	None	114134993	114168279	1	FACL5	ACS5, ACS2
10	ACSL5	ENSG00000197142	ENST00000354273	protein_coding	KNOWN	CCDS7573	16526	2052	683	114135957	114188138	1	FACL5	ACS5, ACS2
10	ACSL5	ENSG00000197142	ENST00000495539	processed_transcript	KNOWN	None	16526	None	None	114169291	114181384	1	FACL5	ACS5, ACS2
10	ACSL5	ENSG00000197142	ENST00000467340	processed_transcript	KNOWN	None	16526	None	None	114171141	114177696	1	FACL5	ACS5, ACS2
10	ACSL5	ENSG00000197142	ENST00000496328	processed_transcript	KNOWN	None	16526	None	None	114181739	114186366	1	FACL5	ACS5, ACS2
10	ACSL5	ENSG00000197142	ENST00000356116	protein_coding	KNOWN	CCDS7572	16526	2220	739	114135956	114188137	1	FACL5	ACS5, ACS2
10	ACSL5	ENSG00000197142	ENST00000393081	protein_coding	KNOWN	CCDS7573	16526	2052	683	114135023	114188137	1	FACL5	ACS5, ACS2
10	ACSL5	ENSG00000197142	ENST00000433418	protein_coding	KNOWN	None	16526	1980	659	114135956	114188137	1	FACL5	ACS5, ACS2
10	ACSL5	ENSG00000197142	ENST00000369410	protein_coding	KNOWN	None	16526	1398	465	114169305	114187137	1	FACL5	ACS5, ACS2
16	None	ENSG00000260004	ENST00000568659	lincRNA	KNOWN	None	None	None	None	65635004	65635601	-1	None	None
HSCHR6_MHC_MANN	TRIM15	ENSG00000233599	ENST00000431059	protein_coding	KNOWN	None	16284	1398	465	30176141	30185621	1	ZNF178	ZNFB7, RNF93
HSCHR6_MHC_MANN	TRIM15	ENSG00000233599	ENST00000426765	protein_coding	KNOWN	None	16284	491	162	30181238	30184880	1	ZNF178	ZNFB7, RNF93
HSCHR6_MHC_MANN	TRIM15	ENSG00000233599	ENST00000490570	processed_transcript	KNOWN	None	16284	None	None	30181282	30185621	1	ZNF178	ZNFB7, RNF93
HSCHR6_MHC_MANN	TRIM15	ENSG00000233599	ENST00000474092	retained_intron	KNOWN	None	16284	None	None	30183238	30184022	1	ZNF178	ZNFB7, RNF93
HSCHR6_MHC_MANN	TRIM15	ENSG00000233599	ENST00000550400	protein_coding	KNOWN	None	16284	348	115	30176610	30185532	1	ZNF178	ZNFB7, RNF93
HSCHR6_MHC_MANN	TRIM15	ENSG00000233599	ENST00000548653	protein_coding	KNOWN	None	16284	1191	396	30176131	30185614	1	ZNF178	ZNFB7, RNF93
16	None	ENSG00000260695	ENST00000568767	lincRNA	KNOWN	None	None	None	None	65895015	65897687	-1	None	None
16	None	ENSG00000261234	ENST00000567026	processed_pseudogene	KNOWN	None	None	None	None	65972092	65972356	-1	None	None
16	RNA5SP428	ENSG00000201999	ENST00000365129	rRNA	KNOWN	None	43328	None	None	66335712	66335843	1	RN5S428	None
9	None	ENSG00000235119	ENST00000448674	lincRNA	KNOWN	None	None	None	None	117159004	117160783	-1	None	None
9	MTND1P12	ENSG00000225433	ENST00000455231	processed_pseudogene	KNOWN	None	42061	None	None	42779843	42779998	1	None	None
16	LINC00920	ENSG00000246898	ENST00000499966	lincRNA	KNOWN	None	48611	None	None	66442427	66446038	1	None	None
11	DDX10	ENSG00000178105	ENST00000322536	protein_coding	KNOWN	CCDS8342	2735	2628	875	108535752	108811657	1	None	HRH-J8
11	DDX10	ENSG00000178105	ENST00000534774	retained_intron	KNOWN	None	2735	None	None	108535809	108546521	1	None	HRH-J8
11	DDX10	ENSG00000178105	ENST00000526794	protein_coding	PUTATIVE	None	2735	2508	835	108535849	108792970	1	None	HRH-J8
11	DDX10	ENSG00000178105	ENST00000534439	processed_transcript	PUTATIVE	None	2735	None	None	108638041	108712203	1	None	HRH-J8
11	DDX10	ENSG00000178105	ENST00000533198	retained_intron	KNOWN	None	2735	None	None	108709083	108712203	1	None	HRH-J8
11	DDX10	ENSG00000178105	ENST00000530116	processed_transcript	PUTATIVE	None	2735	None	None	108731302	108788651	1	None	HRH-J8
11	DDX10	ENSG00000178105	ENST00000524979	processed_transcript	PUTATIVE	None	2735	None	None	108738975	108811535	1	None	HRH-J8
11	DDX10	ENSG00000178105	ENST00000534221	processed_transcript	PUTATIVE	None	2735	None	None	108800246	108811652	1	None	HRH-J8
6	C6orf211	ENSG00000146476	ENST00000367294	protein_coding	KNOWN	CCDS5233	17872	1326	441	151773422	151791236	1	None	FLJ12910
6	C6orf211	ENSG00000146476	ENST00000494826	nonsense_mediated_decay	KNOWN	None	17872	171	56	151773621	151789677	1	None	FLJ12910
6	C6orf211	ENSG00000146476	ENST00000483931	processed_transcript	KNOWN	None	17872	None	None	151773659	151785701	1	None	FLJ12910
6	C6orf211	ENSG00000146476	ENST00000545879	protein_coding	KNOWN	None	17872	969	322	151773606	151790389	1	None	FLJ12910
1	CLCNKA	ENSG00000186510	ENST00000464764	processed_transcript	KNOWN	None	2026	None	None	16345370	16360545	1	None	hClC-Ka
1	CLCNKA	ENSG00000186510	ENST00000477360	processed_transcript	KNOWN	None	2026	None	None	16347525	16348232	1	None	hClC-Ka
1	CLCNKA	ENSG00000186510	ENST00000375692	protein_coding	KNOWN	CCDS41269	2026	2061	686	16348366	16360545	1	None	hClC-Ka
1	CLCNKA	ENSG00000186510	ENST00000495784	processed_transcript	KNOWN	None	2026	None	None	16348408	16353091	1	None	hClC-Ka
1	CLCNKA	ENSG00000186510	ENST00000439316	protein_coding	KNOWN	CCDS57973	2026	1935	644	16348509	16360158	1	None	hClC-Ka
1	CLCNKA	ENSG00000186510	ENST00000331433	protein_coding	KNOWN	CCDS167	2026	2064	687	16348547	16360545	1	None	hClC-Ka
1	CLCNKA	ENSG00000186510	ENST00000491433	processed_transcript	KNOWN	None	2026	None	None	16353334	16356570	1	None	hClC-Ka
1	CLCNKA	ENSG00000186510	ENST00000420078	protein_coding	KNOWN	CCDS41269	2026	2061	686	16348486	16360542	1	None	hClC-Ka
9	None	ENSG00000271214	ENST00000603019	processed_pseudogene	KNOWN	None	None	None	None	117253844	117254021	1	None	None
16	None	ENSG00000260146	ENST00000566896	processed_pseudogene	KNOWN	None	None	None	None	66484901	66485254	-1	None	None
13	TNFSF11	ENSG00000120659	ENST00000358545	protein_coding	KNOWN	CCDS9385	11926	735	244	43136872	43181310	1	None	TRANCE, RANKL, OPGL, ODF, CD254
13	TNFSF11	ENSG00000120659	ENST00000239849	protein_coding	KNOWN	CCDS9384	11926	954	317	43148289	43182144	1	None	TRANCE, RANKL, OPGL, ODF, CD254
13	TNFSF11	ENSG00000120659	ENST00000405262	protein_coding	KNOWN	CCDS9385	11926	735	244	43140753	43182149	1	None	TRANCE, RANKL, OPGL, ODF, CD254
13	TNFSF11	ENSG00000120659	ENST00000398795	protein_coding	KNOWN	CCDS9385	11926	735	244	43148291	43182149	1	None	TRANCE, RANKL, OPGL, ODF, CD254
13	TNFSF11	ENSG00000120659	ENST00000544862	protein_coding	KNOWN	CCDS9385	11926	735	244	43148360	43181054	1	None	TRANCE, RANKL, OPGL, ODF, CD254
X	SCML1	ENSG00000047634	ENST00000380045	protein_coding	KNOWN	CCDS35211	10580	627	208	17755588	17773105	1	None	None
X	SCML1	ENSG00000047634	ENST00000380041	protein_coding	KNOWN	CCDS35210	10580	990	329	17755589	17772191	1	None	None
X	SCML1	ENSG00000047634	ENST00000380043	protein_coding	KNOWN	CCDS14182	10580	909	302	17755589	17773105	1	None	None
X	SCML1	ENSG00000047634	ENST00000427362	retained_intron	KNOWN	None	10580	None	None	17755671	17768070	1	None	None
X	SCML1	ENSG00000047634	ENST00000419185	protein_coding	KNOWN	None	10580	443	146	17755845	17768234	1	None	None
X	SCML1	ENSG00000047634	ENST00000487842	retained_intron	KNOWN	None	10580	None	None	17761989	17773105	1	None	None
X	SCML1	ENSG00000047634	ENST00000398080	protein_coding	KNOWN	CCDS35211	10580	627	208	17755592	17773104	1	None	None
16	MT2A	ENSG00000125148	ENST00000245185	protein_coding	KNOWN	CCDS10763	7406	186	61	56642111	56643409	1	MT2	None
16	MT2A	ENSG00000125148	ENST00000563985	processed_transcript	PUTATIVE	None	7406	None	None	56642496	56643388	1	MT2	None
16	MT2A	ENSG00000125148	ENST00000562017	retained_intron	KNOWN	None	7406	None	None	56642507	56643409	1	MT2	None
16	MT2A	ENSG00000125148	ENST00000561491	protein_coding	PUTATIVE	None	7406	222	73	56642518	56643406	1	MT2	None
16	MT2A	ENSG00000125148	ENST00000567300	processed_transcript	PUTATIVE	None	7406	None	None	56642602	56643409	1	MT2	None
3	ZBED2	ENSG00000177494	ENST00000317012	protein_coding	KNOWN	CCDS2960	20710	657	218	111311747	111314290	-1	None	MGC10796
12	YARS2	ENSG00000139131	ENST00000551673	processed_transcript	KNOWN	None	24249	None	None	32880424	32903041	-1	None	FLJ13995, CGI-04, mt-TyrRS
12	YARS2	ENSG00000139131	ENST00000324868	protein_coding	KNOWN	CCDS31770	24249	1434	477	32899478	32908836	-1	None	FLJ13995, CGI-04, mt-TyrRS
12	YARS2	ENSG00000139131	ENST00000548490	nonsense_mediated_decay	KNOWN	None	24249	876	291	32900138	32908730	-1	None	FLJ13995, CGI-04, mt-TyrRS
4	None	ENSG00000248249	ENST00000505816	processed_pseudogene	KNOWN	None	None	None	None	176883212	176883636	1	None	None
1	RGS16	ENSG00000143333	ENST00000367558	protein_coding	KNOWN	CCDS1348	9997	609	202	182567758	182573543	-1	None	A28-RGS14, RGS-r
4	MARK2P4	ENSG00000250372	ENST00000503381	processed_pseudogene	KNOWN	None	39795	None	None	176933189	176935568	-1	None	None
12	None	ENSG00000257062	ENST00000543498	nonsense_mediated_decay	KNOWN	None	None	284	93	21200113	21329829	1	None	None
12	None	ENSG00000257062	ENST00000593147	nonsense_mediated_decay	KNOWN	None	None	291	96	21207521	21284170	1	None	None
12	None	ENSG00000257062	ENST00000585342	nonsense_mediated_decay	KNOWN	None	None	270	89	21207524	21294557	1	None	None
12	None	ENSG00000257062	ENST00000590779	nonsense_mediated_decay	KNOWN	None	None	236	77	21207528	21294557	1	None	None
12	None	ENSG00000257062	ENST00000592513	nonsense_mediated_decay	KNOWN	None	None	190	62	21220253	21294557	1	None	None
9	NDOR1	ENSG00000188566	ENST00000371521	protein_coding	KNOWN	CCDS48061	29838	1821	606	140100147	140111461	1	None	NR1, bA350O14.9
9	NDOR1	ENSG00000188566	ENST00000344894	protein_coding	KNOWN	CCDS7036	29838	1794	597	140100147	140111461	1	None	NR1, bA350O14.9
9	NDOR1	ENSG00000188566	ENST00000427047	protein_coding	KNOWN	CCDS48063	29838	1566	521	140100158	140111441	1	None	NR1, bA350O14.9
9	NDOR1	ENSG00000188566	ENST00000458322	protein_coding	KNOWN	CCDS48062	29838	1773	590	140100202	140110896	1	None	NR1, bA350O14.9
16	None	ENSG00000261656	ENST00000564618	antisense	KNOWN	None	None	None	None	66503699	66509770	-1	None	None
16	None	ENSG00000261656	ENST00000567528	antisense	KNOWN	None	None	None	None	66503704	66510305	-1	None	None
16	None	ENSG00000261656	ENST00000569125	antisense	KNOWN	None	None	None	None	66503878	66515133	-1	None	None
4	None	ENSG00000264130	ENST00000584039	miRNA	NOVEL	None	None	None	None	176959234	176959339	-1	None	None
11	USP28	ENSG00000048028	ENST00000003302	protein_coding	KNOWN	CCDS31680	12625	3234	1077	113668596	113746292	-1	None	KIAA1515
11	USP28	ENSG00000048028	ENST00000544967	protein_coding	PUTATIVE	None	12625	2262	753	113668814	113700189	-1	None	KIAA1515
11	USP28	ENSG00000048028	ENST00000545540	protein_coding	PUTATIVE	None	12625	2763	920	113669527	113746292	-1	None	KIAA1515
11	USP28	ENSG00000048028	ENST00000544272	retained_intron	KNOWN	None	12625	None	None	113669701	113672423	-1	None	KIAA1515
11	USP28	ENSG00000048028	ENST00000540438	nonsense_mediated_decay	KNOWN	None	12625	585	194	113669784	113746288	-1	None	KIAA1515
11	USP28	ENSG00000048028	ENST00000538224	protein_coding	NOVEL	None	12625	582	193	113675650	113679897	-1	None	KIAA1515
11	USP28	ENSG00000048028	ENST00000538475	protein_coding	NOVEL	None	12625	1081	359	113683001	113704192	-1	None	KIAA1515
11	USP28	ENSG00000048028	ENST00000537706	protein_coding	PUTATIVE	None	12625	1752	583	113684477	113746250	-1	None	KIAA1515
11	USP28	ENSG00000048028	ENST00000545608	nonsense_mediated_decay	KNOWN	None	12625	154	50	113685986	113704274	-1	None	KIAA1515
11	USP28	ENSG00000048028	ENST00000535607	nonsense_mediated_decay	KNOWN	None	12625	122	39	113688428	113704239	-1	None	KIAA1515
11	USP28	ENSG00000048028	ENST00000537490	nonsense_mediated_decay	KNOWN	None	12625	274	90	113688553	113701698	-1	None	KIAA1515
11	USP28	ENSG00000048028	ENST00000537642	protein_coding	NOVEL	None	12625	732	243	113699943	113746218	-1	None	KIAA1515
11	USP28	ENSG00000048028	ENST00000542033	processed_transcript	KNOWN	None	12625	None	None	113701605	113746255	-1	None	KIAA1515
11	USP28	ENSG00000048028	ENST00000540925	protein_coding	PUTATIVE	None	12625	233	76	113723249	113746258	-1	None	KIAA1515
11	USP28	ENSG00000048028	ENST00000544750	protein_coding	PUTATIVE	None	12625	138	45	113723344	113746255	-1	None	KIAA1515
11	USP28	ENSG00000048028	ENST00000260188	protein_coding	KNOWN	None	12625	3138	1045	113668598	113746256	-1	None	KIAA1515
4	None	ENSG00000201516	ENST00000364646	snoRNA	NOVEL	None	None	None	None	177019314	177019436	1	None	None
15	AKAP13	ENSG00000170776	ENST00000560571	processed_transcript	PUTATIVE	None	371	None	None	85923802	85925401	1	LBC	Ht31, BRX, AKAP-Lbc, c-lbc, PROTO-LB, HA-3, ARHGEF13
15	AKAP13	ENSG00000170776	ENST00000559362	protein_coding	KNOWN	None	371	5236	1744	85923818	86228105	1	LBC	Ht31, BRX, AKAP-Lbc, c-lbc, PROTO-LB, HA-3, ARHGEF13
15	AKAP13	ENSG00000170776	ENST00000560302	protein_coding	KNOWN	None	371	540	179	85923871	86080228	1	LBC	Ht31, BRX, AKAP-Lbc, c-lbc, PROTO-LB, HA-3, ARHGEF13
15	AKAP13	ENSG00000170776	ENST00000394518	protein_coding	KNOWN	CCDS32319	371	8442	2813	85923946	86292586	1	LBC	Ht31, BRX, AKAP-Lbc, c-lbc, PROTO-LB, HA-3, ARHGEF13
15	AKAP13	ENSG00000170776	ENST00000361243	protein_coding	KNOWN	CCDS32320	371	8454	2817	85923960	86288841	1	LBC	Ht31, BRX, AKAP-Lbc, c-lbc, PROTO-LB, HA-3, ARHGEF13
15	AKAP13	ENSG00000170776	ENST00000560256	protein_coding	KNOWN	None	371	114	37	85923987	86064739	1	LBC	Ht31, BRX, AKAP-Lbc, c-lbc, PROTO-LB, HA-3, ARHGEF13
15	AKAP13	ENSG00000170776	ENST00000558166	protein_coding	NOVEL	None	371	558	185	86087271	86122415	1	LBC	Ht31, BRX, AKAP-Lbc, c-lbc, PROTO-LB, HA-3, ARHGEF13
15	AKAP13	ENSG00000170776	ENST00000558811	protein_coding	NOVEL	None	371	447	148	86098677	86122362	1	LBC	Ht31, BRX, AKAP-Lbc, c-lbc, PROTO-LB, HA-3, ARHGEF13
15	AKAP13	ENSG00000170776	ENST00000561337	processed_transcript	KNOWN	None	371	None	None	86124971	86182680	1	LBC	Ht31, BRX, AKAP-Lbc, c-lbc, PROTO-LB, HA-3, ARHGEF13
15	AKAP13	ENSG00000170776	ENST00000560340	processed_transcript	KNOWN	None	371	None	None	86126141	86189148	1	LBC	Ht31, BRX, AKAP-Lbc, c-lbc, PROTO-LB, HA-3, ARHGEF13
15	AKAP13	ENSG00000170776	ENST00000560676	processed_transcript	KNOWN	None	371	None	None	86162927	86270645	1	LBC	Ht31, BRX, AKAP-Lbc, c-lbc, PROTO-LB, HA-3, ARHGEF13
15	AKAP13	ENSG00000170776	ENST00000560579	processed_transcript	KNOWN	None	371	None	None	86178328	86287908	1	LBC	Ht31, BRX, AKAP-Lbc, c-lbc, PROTO-LB, HA-3, ARHGEF13
15	AKAP13	ENSG00000170776	ENST00000559486	protein_coding	KNOWN	None	371	827	274	86189150	86213059	1	LBC	Ht31, BRX, AKAP-Lbc, c-lbc, PROTO-LB, HA-3, ARHGEF13
15	AKAP13	ENSG00000170776	ENST00000560957	retained_intron	KNOWN	None	371	None	None	86225399	86228677	1	LBC	Ht31, BRX, AKAP-Lbc, c-lbc, PROTO-LB, HA-3, ARHGEF13
15	AKAP13	ENSG00000170776	ENST00000558092	processed_transcript	PUTATIVE	None	371	None	None	86226758	86228186	1	LBC	Ht31, BRX, AKAP-Lbc, c-lbc, PROTO-LB, HA-3, ARHGEF13
15	AKAP13	ENSG00000170776	ENST00000557852	processed_transcript	KNOWN	None	371	None	None	86233100	86259132	1	LBC	Ht31, BRX, AKAP-Lbc, c-lbc, PROTO-LB, HA-3, ARHGEF13
15	AKAP13	ENSG00000170776	ENST00000560482	retained_intron	KNOWN	None	371	None	None	86236330	86260579	1	LBC	Ht31, BRX, AKAP-Lbc, c-lbc, PROTO-LB, HA-3, ARHGEF13
15	AKAP13	ENSG00000170776	ENST00000559278	retained_intron	KNOWN	None	371	None	None	86253674	86260622	1	LBC	Ht31, BRX, AKAP-Lbc, c-lbc, PROTO-LB, HA-3, ARHGEF13
15	AKAP13	ENSG00000170776	ENST00000558644	retained_intron	KNOWN	None	371	None	None	86260383	86270480	1	LBC	Ht31, BRX, AKAP-Lbc, c-lbc, PROTO-LB, HA-3, ARHGEF13
15	AKAP13	ENSG00000170776	ENST00000559820	processed_transcript	PUTATIVE	None	371	None	None	86262032	86262553	1	LBC	Ht31, BRX, AKAP-Lbc, c-lbc, PROTO-LB, HA-3, ARHGEF13
15	AKAP13	ENSG00000170776	ENST00000558009	retained_intron	KNOWN	None	371	None	None	86262443	86265533	1	LBC	Ht31, BRX, AKAP-Lbc, c-lbc, PROTO-LB, HA-3, ARHGEF13
15	AKAP13	ENSG00000170776	ENST00000559391	retained_intron	KNOWN	None	371	None	None	86278830	86283793	1	LBC	Ht31, BRX, AKAP-Lbc, c-lbc, PROTO-LB, HA-3, ARHGEF13
15	AKAP13	ENSG00000170776	ENST00000560185	processed_transcript	PUTATIVE	None	371	None	None	86290835	86292387	1	LBC	Ht31, BRX, AKAP-Lbc, c-lbc, PROTO-LB, HA-3, ARHGEF13
15	AKAP13	ENSG00000170776	ENST00000394510	protein_coding	KNOWN	None	371	3177	1058	86220268	86292586	1	LBC	Ht31, BRX, AKAP-Lbc, c-lbc, PROTO-LB, HA-3, ARHGEF13
17	EVPL	ENSG00000167880	ENST00000589231	protein_coding	KNOWN	None	3503	339	112	74000583	74003522	-1	None	EVPK
17	EVPL	ENSG00000167880	ENST00000301607	protein_coding	KNOWN	CCDS11737	3503	6102	2033	74002926	74023533	-1	None	EVPK
17	EVPL	ENSG00000167880	ENST00000586740	protein_coding	NOVEL	None	3503	6168	2055	74003162	74023312	-1	None	EVPK
17	EVPL	ENSG00000167880	ENST00000587569	retained_intron	KNOWN	None	3503	None	None	74003163	74023312	-1	None	EVPK
17	EVPL	ENSG00000167880	ENST00000593037	retained_intron	KNOWN	None	3503	None	None	74007602	74008372	-1	None	EVPK
19	HAS1	ENSG00000105509	ENST00000601714	protein_coding	NOVEL	None	4818	1758	585	52216365	52223194	-1	HAS	None
19	HAS1	ENSG00000105509	ENST00000222115	protein_coding	KNOWN	CCDS12838	4818	1737	578	52216365	52227221	-1	HAS	None
19	HAS1	ENSG00000105509	ENST00000540069	protein_coding	NOVEL	None	4818	1734	577	52216365	52227247	-1	HAS	None
19	HAS1	ENSG00000105509	ENST00000601667	protein_coding	NOVEL	None	4818	421	139	52217145	52222516	-1	HAS	None
19	HAS1	ENSG00000105509	ENST00000594621	protein_coding	PUTATIVE	None	4818	645	214	52217145	52222722	-1	HAS	None
HSCHR6_MHC_DBB	CFB	ENSG00000241534	ENST00000455591	protein_coding	KNOWN	None	1037	2295	764	31895618	31902052	1	BFD, BF	H2-Bf
HSCHR6_MHC_DBB	CFB	ENSG00000241534	ENST00000433503	protein_coding	KNOWN	None	1037	2295	764	31895962	31902052	1	BFD, BF	H2-Bf
HSCHR6_MHC_DBB	CFB	ENSG00000241534	ENST00000494049	retained_intron	KNOWN	None	1037	None	None	31896065	31896836	1	BFD, BF	H2-Bf
HSCHR6_MHC_DBB	CFB	ENSG00000241534	ENST00000474621	processed_transcript	PUTATIVE	None	1037	None	None	31896094	31897811	1	BFD, BF	H2-Bf
HSCHR6_MHC_DBB	CFB	ENSG00000241534	ENST00000477655	retained_intron	KNOWN	None	1037	None	None	31896190	31900613	1	BFD, BF	H2-Bf
HSCHR6_MHC_DBB	CFB	ENSG00000241534	ENST00000475203	retained_intron	KNOWN	None	1037	None	None	31897249	31899519	1	BFD, BF	H2-Bf
HSCHR6_MHC_DBB	CFB	ENSG00000241534	ENST00000487665	processed_transcript	KNOWN	None	1037	None	None	31897765	31899566	1	BFD, BF	H2-Bf
HSCHR6_MHC_DBB	CFB	ENSG00000241534	ENST00000469094	processed_transcript	KNOWN	None	1037	None	None	31898326	31899566	1	BFD, BF	H2-Bf
HSCHR6_MHC_DBB	CFB	ENSG00000241534	ENST00000465106	retained_intron	KNOWN	None	1037	None	None	31898966	31899566	1	BFD, BF	H2-Bf
HSCHR6_MHC_DBB	CFB	ENSG00000241534	ENST00000481375	retained_intron	KNOWN	None	1037	None	None	31899699	31901212	1	BFD, BF	H2-Bf
HSCHR6_MHC_DBB	CFB	ENSG00000241534	ENST00000494916	retained_intron	KNOWN	None	1037	None	None	31900842	31902052	1	BFD, BF	H2-Bf
HSCHR6_MHC_DBB	CFB	ENSG00000241534	ENST00000476879	retained_intron	KNOWN	None	1037	None	None	31901383	31902052	1	BFD, BF	H2-Bf
10	None	ENSG00000229464	ENST00000429323	processed_pseudogene	KNOWN	None	None	None	None	51654977	51655307	-1	None	None
9	None	ENSG00000230455	ENST00000416720	unprocessed_pseudogene	KNOWN	None	None	None	None	42808660	42812274	1	None	None
12	None	ENSG00000251695	ENST00000399333	protein_coding	NOVEL	None	None	255	84	69186125	69187743	1	None	None
9	None	ENSG00000267559	ENST00000585776	lincRNA	KNOWN	None	None	None	None	84545141	84592004	-1	None	None
9	None	ENSG00000267559	ENST00000592744	lincRNA	KNOWN	None	None	None	None	84561353	84591721	-1	None	None
2	CYS1	ENSG00000205795	ENST00000381813	protein_coding	KNOWN	CCDS33145	18525	477	158	10196907	10220538	-1	None	None
2	CYS1	ENSG00000205795	ENST00000477304	processed_transcript	KNOWN	None	18525	None	None	10198741	10221071	-1	None	None
3	PLCXD2	ENSG00000240891	ENST00000393934	protein_coding	KNOWN	CCDS2961	26462	915	304	111393523	111565294	1	None	FLJ31579
3	PLCXD2	ENSG00000240891	ENST00000477665	protein_coding	KNOWN	CCDS54619	26462	918	305	111393769	111565113	1	None	FLJ31579
3	PLCXD2	ENSG00000240891	ENST00000468174	protein_coding	PUTATIVE	None	26462	219	72	111410195	111427098	1	None	FLJ31579
3	PLCXD2	ENSG00000240891	ENST00000472215	processed_transcript	PUTATIVE	None	26462	None	None	111432774	111439796	1	None	FLJ31579
3	PLCXD2	ENSG00000240891	ENST00000474484	retained_intron	KNOWN	None	26462	None	None	111451308	111497305	1	None	FLJ31579
14	TEP1	ENSG00000129566	ENST00000553365	nonsense_mediated_decay	KNOWN	None	11726	753	250	20833826	20841259	-1	None	TP1, TLP1, VAULT2, p240, TROVE1
14	TEP1	ENSG00000129566	ENST00000262715	protein_coding	KNOWN	CCDS9548	11726	7884	2627	20833826	20881580	-1	None	TP1, TLP1, VAULT2, p240, TROVE1
14	TEP1	ENSG00000129566	ENST00000555008	nonsense_mediated_decay	KNOWN	None	11726	5715	1904	20835790	20859904	-1	None	TP1, TLP1, VAULT2, p240, TROVE1
14	TEP1	ENSG00000129566	ENST00000555727	nonsense_mediated_decay	KNOWN	None	11726	4446	1481	20836553	20881578	-1	None	TP1, TLP1, VAULT2, p240, TROVE1
14	TEP1	ENSG00000129566	ENST00000556935	protein_coding	NOVEL	None	11726	7560	2519	20836553	20881579	-1	None	TP1, TLP1, VAULT2, p240, TROVE1
14	TEP1	ENSG00000129566	ENST00000553984	protein_coding	NOVEL	None	11726	602	199	20837526	20841239	-1	None	TP1, TLP1, VAULT2, p240, TROVE1
14	TEP1	ENSG00000129566	ENST00000557314	nonsense_mediated_decay	KNOWN	None	11726	212	69	20839677	20850421	-1	None	TP1, TLP1, VAULT2, p240, TROVE1
14	TEP1	ENSG00000129566	ENST00000556488	nonsense_mediated_decay	KNOWN	None	11726	309	102	20841666	20846368	-1	None	TP1, TLP1, VAULT2, p240, TROVE1
14	TEP1	ENSG00000129566	ENST00000471684	nonsense_mediated_decay	KNOWN	None	11726	235	77	20841943	20846203	-1	None	TP1, TLP1, VAULT2, p240, TROVE1
14	TEP1	ENSG00000129566	ENST00000557627	retained_intron	KNOWN	None	11726	None	None	20868826	20872016	-1	None	TP1, TLP1, VAULT2, p240, TROVE1
14	TEP1	ENSG00000129566	ENST00000556549	protein_coding	KNOWN	None	11726	498	165	20876101	20881588	-1	None	TP1, TLP1, VAULT2, p240, TROVE1
14	TEP1	ENSG00000129566	ENST00000545983	protein_coding	KNOWN	None	11726	2031	676	20839677	20850421	-1	None	TP1, TLP1, VAULT2, p240, TROVE1
19	KIAA1683	ENSG00000130518	ENST00000392413	protein_coding	KNOWN	CCDS46017	29350	4104	1367	18367906	18385319	-1	None	None
19	KIAA1683	ENSG00000130518	ENST00000599638	retained_intron	KNOWN	None	29350	None	None	18367908	18373428	-1	None	None
19	KIAA1683	ENSG00000130518	ENST00000600328	protein_coding	KNOWN	CCDS32958	29350	3543	1180	18367908	18385235	-1	None	None
19	KIAA1683	ENSG00000130518	ENST00000600359	protein_coding	KNOWN	CCDS46018	29350	3405	1134	18367909	18385232	-1	None	None
19	KIAA1683	ENSG00000130518	ENST00000595654	protein_coding	KNOWN	None	29350	276	91	18377936	18385240	-1	None	None
19	KIAA1683	ENSG00000130518	ENST00000593659	protein_coding	KNOWN	None	29350	66	21	18378146	18385240	-1	None	None
19	KIAA1683	ENSG00000130518	ENST00000599528	protein_coding	KNOWN	None	29350	23	6	18378189	18385240	-1	None	None
7	None	ENSG00000214871	ENST00000366347	protein_coding	NOVEL	None	None	258	85	23210760	23234503	1	None	None
HSCHR6_MHC_DBB	ZBTB22	ENSG00000227780	ENST00000418540	protein_coding	KNOWN	None	13085	1905	634	33260121	33263439	-1	ZNF297	BING1, ZNF297A, fruitless, fru, ZBTB22A
HSCHR6_MHC_DBB	ZBTB22	ENSG00000227780	ENST00000448500	protein_coding	KNOWN	None	13085	448	148	33262172	33263645	-1	ZNF297	BING1, ZNF297A, fruitless, fru, ZBTB22A
HSCHR6_MHC_DBB	ZBTB22	ENSG00000227780	ENST00000547592	protein_coding	KNOWN	None	13085	1905	634	33260109	33263646	-1	ZNF297	BING1, ZNF297A, fruitless, fru, ZBTB22A
9	None	ENSG00000184906	ENST00000454768	processed_transcript	KNOWN	None	None	None	None	42845768	42853794	-1	None	None
9	None	ENSG00000184906	ENST00000452436	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	42853631	42856292	-1	None	None
9	None	ENSG00000184906	ENST00000412301	processed_transcript	KNOWN	None	None	None	None	42853720	42857852	-1	None	None
9	None	ENSG00000184906	ENST00000398522	unprocessed_pseudogene	KNOWN	None	None	None	None	42848992	42859085	-1	None	None
5	ZNF346	ENSG00000113761	ENST00000506693	protein_coding	NOVEL	None	16403	591	196	176449697	176492242	1	None	JAZ, Zfp346
5	ZNF346	ENSG00000113761	ENST00000358149	protein_coding	KNOWN	CCDS4409	16403	885	294	176449697	176492986	1	None	JAZ, Zfp346
5	ZNF346	ENSG00000113761	ENST00000512315	protein_coding	NOVEL	None	16403	357	118	176449697	176507555	1	None	JAZ, Zfp346
5	ZNF346	ENSG00000113761	ENST00000503425	protein_coding	NOVEL	None	16403	789	262	176449705	176491967	1	None	JAZ, Zfp346
5	ZNF346	ENSG00000113761	ENST00000508155	nonsense_mediated_decay	KNOWN	None	16403	396	131	176449717	176492459	1	None	JAZ, Zfp346
5	ZNF346	ENSG00000113761	ENST00000511834	protein_coding	KNOWN	None	16403	933	310	176449733	176492966	1	None	JAZ, Zfp346
5	ZNF346	ENSG00000113761	ENST00000513587	nonsense_mediated_decay	KNOWN	None	16403	408	135	176449736	176492019	1	None	JAZ, Zfp346
5	ZNF346	ENSG00000113761	ENST00000503039	protein_coding	KNOWN	None	16403	960	319	176449736	176508190	1	None	JAZ, Zfp346
5	ZNF346	ENSG00000113761	ENST00000510933	retained_intron	KNOWN	None	16403	None	None	176449905	176469250	1	None	JAZ, Zfp346
5	ZNF346	ENSG00000113761	ENST00000504600	retained_intron	KNOWN	None	16403	None	None	176471328	176477893	1	None	JAZ, Zfp346
5	ZNF346	ENSG00000113761	ENST00000261948	protein_coding	KNOWN	None	16403	960	319	176449726	176492975	1	None	JAZ, Zfp346
11	MRE11A	ENSG00000020922	ENST00000323929	protein_coding	KNOWN	CCDS8299	7230	2127	708	94152895	94227074	-1	MRE11	ATLD
11	MRE11A	ENSG00000020922	ENST00000407439	protein_coding	PUTATIVE	None	7230	2136	711	94153032	94227009	-1	MRE11	ATLD
11	MRE11A	ENSG00000020922	ENST00000323977	protein_coding	KNOWN	CCDS8298	7230	2043	680	94153042	94227040	-1	MRE11	ATLD
11	MRE11A	ENSG00000020922	ENST00000393241	protein_coding	PUTATIVE	None	7230	2124	707	94153044	94227014	-1	MRE11	ATLD
11	MRE11A	ENSG00000020922	ENST00000535120	retained_intron	KNOWN	None	7230	None	None	94178905	94180466	-1	MRE11	ATLD
11	MRE11A	ENSG00000020922	ENST00000540013	protein_coding	PUTATIVE	None	7230	666	221	94208382	94227000	-1	MRE11	ATLD
11	MRE11A	ENSG00000020922	ENST00000541157	processed_transcript	KNOWN	None	7230	None	None	94211927	94227015	-1	MRE11	ATLD
11	MRE11A	ENSG00000020922	ENST00000536754	protein_coding	KNOWN	None	7230	381	126	94212861	94227051	-1	MRE11	ATLD
11	MRE11A	ENSG00000020922	ENST00000538923	protein_coding	KNOWN	None	7230	333	110	94212909	94226978	-1	MRE11	ATLD
11	MRE11A	ENSG00000020922	ENST00000536144	processed_transcript	KNOWN	None	7230	None	None	94216936	94226979	-1	MRE11	ATLD
9	AQP7P3	ENSG00000156750	ENST00000428759	unprocessed_pseudogene	KNOWN	None	31976	None	None	42858072	42876505	1	None	AQPap-3
9	AQP7P3	ENSG00000156750	ENST00000331259	unprocessed_pseudogene	KNOWN	None	31976	None	None	42873281	42875170	1	None	AQPap-3
11	CDHR5	ENSG00000099834	ENST00000358353	protein_coding	KNOWN	CCDS7707	7521	2538	845	616577	626078	-1	MUCDHL, MUPCDH	FLJ20219, MU-PCDH
11	CDHR5	ENSG00000099834	ENST00000531177	nonsense_mediated_decay	KNOWN	None	7521	321	106	617256	624932	-1	MUCDHL, MUPCDH	FLJ20219, MU-PCDH
11	CDHR5	ENSG00000099834	ENST00000349570	protein_coding	KNOWN	CCDS7708	7521	1956	651	617256	625169	-1	MUCDHL, MUPCDH	FLJ20219, MU-PCDH
11	CDHR5	ENSG00000099834	ENST00000531899	retained_intron	KNOWN	None	7521	None	None	619416	624955	-1	MUCDHL, MUPCDH	FLJ20219, MU-PCDH
11	CDHR5	ENSG00000099834	ENST00000532949	processed_transcript	KNOWN	None	7521	None	None	619688	621137	-1	MUCDHL, MUPCDH	FLJ20219, MU-PCDH
11	CDHR5	ENSG00000099834	ENST00000526077	protein_coding	PUTATIVE	None	7521	572	189	621217	624955	-1	MUCDHL, MUPCDH	FLJ20219, MU-PCDH
11	CDHR5	ENSG00000099834	ENST00000534311	protein_coding	PUTATIVE	None	7521	497	164	621397	624955	-1	MUCDHL, MUPCDH	FLJ20219, MU-PCDH
11	CDHR5	ENSG00000099834	ENST00000531088	protein_coding	PUTATIVE	None	7521	45	14	621420	624955	-1	MUCDHL, MUPCDH	FLJ20219, MU-PCDH
11	CDHR5	ENSG00000099834	ENST00000529337	processed_transcript	KNOWN	None	7521	None	None	624213	625169	-1	MUCDHL, MUPCDH	FLJ20219, MU-PCDH
11	CDHR5	ENSG00000099834	ENST00000397542	protein_coding	KNOWN	CCDS7707	7521	2538	845	616565	625067	-1	MUCDHL, MUPCDH	FLJ20219, MU-PCDH
17	TEFM	ENSG00000172171	ENST00000579183	processed_transcript	PUTATIVE	None	26223	None	None	29224354	29226133	-1	C17orf42	FLJ22729
17	TEFM	ENSG00000172171	ENST00000581216	protein_coding	KNOWN	CCDS42291	26223	1083	360	29226001	29233838	-1	C17orf42	FLJ22729
17	TEFM	ENSG00000172171	ENST00000306049	nonsense_mediated_decay	KNOWN	None	26223	516	171	29226004	29233253	-1	C17orf42	FLJ22729
17	TEFM	ENSG00000172171	ENST00000580840	protein_coding	PUTATIVE	None	26223	681	226	29226004	29233253	-1	C17orf42	FLJ22729
17	TEFM	ENSG00000172171	ENST00000541382	retained_intron	KNOWN	None	26223	None	None	29231057	29233253	-1	C17orf42	FLJ22729
4	RAPGEF2	ENSG00000109756	ENST00000505478	protein_coding	PUTATIVE	None	16854	838	278	160025330	160235920	1	PDZGEF1	PDZ-GEF1, RA-GEF, DKFZP586O1422, KIAA0313
4	RAPGEF2	ENSG00000109756	ENST00000504604	processed_transcript	KNOWN	None	16854	None	None	160149406	160243515	1	PDZGEF1	PDZ-GEF1, RA-GEF, DKFZP586O1422, KIAA0313
4	RAPGEF2	ENSG00000109756	ENST00000503328	processed_transcript	KNOWN	None	16854	None	None	160150489	160162515	1	PDZGEF1	PDZ-GEF1, RA-GEF, DKFZP586O1422, KIAA0313
4	RAPGEF2	ENSG00000109756	ENST00000511336	protein_coding	PUTATIVE	None	16854	348	115	160188033	160244667	1	PDZGEF1	PDZ-GEF1, RA-GEF, DKFZP586O1422, KIAA0313
4	RAPGEF2	ENSG00000109756	ENST00000510510	protein_coding	PUTATIVE	None	16854	467	154	160188313	160243601	1	PDZGEF1	PDZ-GEF1, RA-GEF, DKFZP586O1422, KIAA0313
4	RAPGEF2	ENSG00000109756	ENST00000264431	protein_coding	KNOWN	CCDS43277	16854	4500	1499	160188889	160281321	1	PDZGEF1	PDZ-GEF1, RA-GEF, DKFZP586O1422, KIAA0313
4	RAPGEF2	ENSG00000109756	ENST00000514565	protein_coding	PUTATIVE	None	16854	462	153	160203656	160244622	1	PDZGEF1	PDZ-GEF1, RA-GEF, DKFZP586O1422, KIAA0313
4	RAPGEF2	ENSG00000109756	ENST00000513816	retained_intron	KNOWN	None	16854	None	None	160247813	160251805	1	PDZGEF1	PDZ-GEF1, RA-GEF, DKFZP586O1422, KIAA0313
4	RAPGEF2	ENSG00000109756	ENST00000512056	protein_coding	PUTATIVE	None	16854	568	188	160252778	160254008	1	PDZGEF1	PDZ-GEF1, RA-GEF, DKFZP586O1422, KIAA0313
4	RAPGEF2	ENSG00000109756	ENST00000502485	protein_coding	PUTATIVE	None	16854	545	180	160264446	160268150	1	PDZGEF1	PDZ-GEF1, RA-GEF, DKFZP586O1422, KIAA0313
4	RAPGEF2	ENSG00000109756	ENST00000510253	protein_coding	PUTATIVE	None	16854	796	264	160266368	160274656	1	PDZGEF1	PDZ-GEF1, RA-GEF, DKFZP586O1422, KIAA0313
4	RAPGEF2	ENSG00000109756	ENST00000505026	protein_coding	PUTATIVE	None	16854	970	322	160271380	160275197	1	PDZGEF1	PDZ-GEF1, RA-GEF, DKFZP586O1422, KIAA0313
4	RAPGEF2	ENSG00000109756	ENST00000509891	retained_intron	KNOWN	None	16854	None	None	160273609	160274721	1	PDZGEF1	PDZ-GEF1, RA-GEF, DKFZP586O1422, KIAA0313
16	None	ENSG00000260755	ENST00000568560	lincRNA	KNOWN	None	None	None	None	66543340	66543951	1	None	None
13	FAM216B	ENSG00000179813	ENST00000313851	protein_coding	KNOWN	CCDS9386	26883	420	139	43355751	43365683	1	C13orf30	FLJ40919
13	FAM216B	ENSG00000179813	ENST00000537894	protein_coding	KNOWN	CCDS9386	26883	420	139	43355686	43365683	1	C13orf30	FLJ40919
16	None	ENSG00000261519	ENST00000563151	lincRNA	KNOWN	None	None	None	None	66583183	66585092	1	None	None
16	None	ENSG00000261519	ENST00000411222	misc_RNA	KNOWN	None	None	None	None	66584360	66584470	1	None	None
8	TMEM55A	ENSG00000155099	ENST00000285419	protein_coding	KNOWN	CCDS6252	25452	774	257	92006024	92053292	-1	None	DKFZp762O076
8	TMEM55A	ENSG00000155099	ENST00000520709	nonsense_mediated_decay	KNOWN	None	25452	174	57	92007752	92053079	-1	None	DKFZp762O076
8	TMEM55A	ENSG00000155099	ENST00000518359	nonsense_mediated_decay	KNOWN	None	25452	501	166	92007821	92053039	-1	None	DKFZp762O076
8	TMEM55A	ENSG00000155099	ENST00000520014	protein_coding	NOVEL	None	25452	752	249	92007945	92053063	-1	None	DKFZp762O076
8	TMEM55A	ENSG00000155099	ENST00000518869	nonsense_mediated_decay	KNOWN	None	25452	171	56	92008039	92053100	-1	None	DKFZp762O076
16	MT1E	ENSG00000169715	ENST00000306061	protein_coding	KNOWN	CCDS10764	7397	186	61	56659387	56661024	1	MT1	MTD
16	MT1E	ENSG00000169715	ENST00000568293	protein_coding	PUTATIVE	None	7397	120	39	56659693	56661024	1	MT1	MTD
16	MT1E	ENSG00000169715	ENST00000330439	protein_coding	PUTATIVE	None	7397	384	127	56659710	56661024	1	MT1	MTD
16	None	ENSG00000260650	ENST00000568430	antisense	KNOWN	None	None	None	None	66613886	66614619	-1	None	None
16	None	ENSG00000260465	ENST00000569274	antisense	KNOWN	None	None	None	None	66754800	66765688	1	None	None
1	EPB41	ENSG00000159023	ENST00000482464	processed_transcript	KNOWN	None	3377	None	None	29213633	29319968	1	EL1	4.1R
1	EPB41	ENSG00000159023	ENST00000373800	protein_coding	KNOWN	CCDS331	3377	1767	588	29213636	29443626	1	EL1	4.1R
1	EPB41	ENSG00000159023	ENST00000349460	protein_coding	KNOWN	CCDS332	3377	1926	641	29213636	29443626	1	EL1	4.1R
1	EPB41	ENSG00000159023	ENST00000347529	protein_coding	KNOWN	CCDS330	3377	2328	775	29213684	29443626	1	EL1	4.1R
1	EPB41	ENSG00000159023	ENST00000373798	protein_coding	KNOWN	CCDS53288	3377	2595	864	29220253	29446553	1	EL1	4.1R
1	EPB41	ENSG00000159023	ENST00000373797	protein_coding	KNOWN	CCDS53289	3377	2163	720	29241091	29391733	1	EL1	4.1R
1	EPB41	ENSG00000159023	ENST00000488277	processed_transcript	KNOWN	None	3377	None	None	29385116	29424361	1	EL1	4.1R
1	EPB41	ENSG00000159023	ENST00000490308	processed_transcript	KNOWN	None	3377	None	None	29391469	29435870	1	EL1	4.1R
1	EPB41	ENSG00000159023	ENST00000460378	processed_transcript	KNOWN	None	3377	None	None	29422744	29446550	1	EL1	4.1R
1	EPB41	ENSG00000159023	ENST00000462032	processed_transcript	KNOWN	None	3377	None	None	29424099	29436250	1	EL1	4.1R
1	EPB41	ENSG00000159023	ENST00000343067	protein_coding	KNOWN	CCDS53288	3377	2595	864	29213603	29446532	1	EL1	4.1R
1	EPB41	ENSG00000159023	ENST00000356093	protein_coding	KNOWN	None	3377	2496	831	29213603	29446532	1	EL1	4.1R
1	EPB41	ENSG00000159023	ENST00000398863	protein_coding	KNOWN	None	3377	2304	767	29213603	29446532	1	EL1	4.1R
1	RGS8	ENSG00000135824	ENST00000483095	protein_coding	KNOWN	CCDS41443	16810	543	180	182615239	182641064	-1	None	MGC119067, MGC119068, MGC119069
1	RGS8	ENSG00000135824	ENST00000258302	protein_coding	KNOWN	CCDS1349	16810	597	198	182615792	182642049	-1	None	MGC119067, MGC119068, MGC119069
1	RGS8	ENSG00000135824	ENST00000367557	protein_coding	KNOWN	CCDS41443	16810	543	180	182615821	182642043	-1	None	MGC119067, MGC119068, MGC119069
1	RGS8	ENSG00000135824	ENST00000367556	protein_coding	KNOWN	CCDS41443	16810	543	180	182615870	182640988	-1	None	MGC119067, MGC119068, MGC119069
1	RGS8	ENSG00000135824	ENST00000491420	processed_transcript	KNOWN	None	16810	None	None	182627504	182642067	-1	None	MGC119067, MGC119068, MGC119069
1	RGS8	ENSG00000135824	ENST00000508450	protein_coding	KNOWN	None	16810	171	56	182635126	182641386	-1	None	MGC119067, MGC119068, MGC119069
1	RGS8	ENSG00000135824	ENST00000515211	processed_transcript	KNOWN	None	16810	None	None	182636081	182653711	-1	None	MGC119067, MGC119068, MGC119069
16	None	ENSG00000260558	ENST00000565082	lincRNA	KNOWN	None	None	None	None	66772166	66773229	1	None	None
11	DGAT2	ENSG00000062282	ENST00000603276	protein_coding	PUTATIVE	None	16940	480	159	75470557	75508321	1	None	None
11	DGAT2	ENSG00000062282	ENST00000604935	protein_coding	PUTATIVE	None	16940	337	111	75479576	75507553	1	None	None
11	DGAT2	ENSG00000062282	ENST00000228027	protein_coding	KNOWN	CCDS31642	16940	1167	388	75479777	75512579	1	None	None
11	DGAT2	ENSG00000062282	ENST00000605608	processed_transcript	KNOWN	None	16940	None	None	75479844	75485087	1	None	None
11	DGAT2	ENSG00000062282	ENST00000604733	protein_coding	NOVEL	None	16940	885	294	75480046	75511409	1	None	None
11	DGAT2	ENSG00000062282	ENST00000605099	protein_coding	PUTATIVE	None	16940	340	112	75495441	75507556	1	None	None
11	DGAT2	ENSG00000062282	ENST00000603363	retained_intron	KNOWN	None	16940	None	None	75503204	75512572	1	None	None
11	DGAT2	ENSG00000062282	ENST00000603865	retained_intron	KNOWN	None	16940	None	None	75506182	75511677	1	None	None
11	DGAT2	ENSG00000062282	ENST00000376262	protein_coding	KNOWN	CCDS58162	16940	1038	345	75479899	75512579	1	None	None
13	KCTD12	ENSG00000178695	ENST00000377474	protein_coding	KNOWN	CCDS9455	14678	978	325	77454312	77460525	-1	C13orf2	KIAA1778, PFET1
13	KCTD12	ENSG00000178695	ENST00000317765	protein_coding	KNOWN	CCDS9455	14678	978	325	77455988	77460540	-1	C13orf2	KIAA1778, PFET1
16	None	ENSG00000246777	ENST00000501143	lincRNA	KNOWN	None	None	None	None	66785655	66788643	1	None	None
1	AMPD2	ENSG00000116337	ENST00000531734	protein_coding	KNOWN	None	469	311	102	110158726	110168820	1	None	None
1	AMPD2	ENSG00000116337	ENST00000526301	processed_transcript	KNOWN	None	469	None	None	110162126	110173028	1	None	None
1	AMPD2	ENSG00000116337	ENST00000342115	protein_coding	KNOWN	CCDS804	469	2397	798	110162459	110174673	1	None	None
1	AMPD2	ENSG00000116337	ENST00000469039	protein_coding	KNOWN	None	469	4	0	110162468	110163733	1	None	None
1	AMPD2	ENSG00000116337	ENST00000474459	protein_coding	PUTATIVE	None	469	4	0	110162469	110169420	1	None	None
1	AMPD2	ENSG00000116337	ENST00000528667	protein_coding	KNOWN	CCDS805	469	2640	879	110162507	110173774	1	None	None
1	AMPD2	ENSG00000116337	ENST00000531203	protein_coding	PUTATIVE	None	469	261	86	110163230	110168971	1	None	None
1	AMPD2	ENSG00000116337	ENST00000256578	protein_coding	KNOWN	CCDS805	469	2640	879	110163276	110174673	1	None	None
1	AMPD2	ENSG00000116337	ENST00000358729	protein_coding	KNOWN	None	469	2415	804	110163696	110174163	1	None	None
1	AMPD2	ENSG00000116337	ENST00000369840	protein_coding	NOVEL	None	469	2584	860	110163725	110174320	1	None	None
1	AMPD2	ENSG00000116337	ENST00000486282	retained_intron	KNOWN	None	469	None	None	110163737	110169080	1	None	None
1	AMPD2	ENSG00000116337	ENST00000528270	nonsense_mediated_decay	KNOWN	None	469	252	83	110163774	110168823	1	None	None
1	AMPD2	ENSG00000116337	ENST00000527846	protein_coding	NOVEL	None	469	585	194	110163891	110169040	1	None	None
1	AMPD2	ENSG00000116337	ENST00000528454	protein_coding	PUTATIVE	CCDS58016	469	2286	761	110166436	110173839	1	None	None
1	AMPD2	ENSG00000116337	ENST00000459643	processed_transcript	KNOWN	None	469	None	None	110166461	110169039	1	None	None
1	AMPD2	ENSG00000116337	ENST00000393688	protein_coding	KNOWN	CCDS30796	469	2283	760	110168220	110174671	1	None	None
1	AMPD2	ENSG00000116337	ENST00000534144	retained_intron	KNOWN	None	469	None	None	110168693	110169534	1	None	None
1	AMPD2	ENSG00000116337	ENST00000525415	retained_intron	KNOWN	None	469	None	None	110168820	110169787	1	None	None
1	AMPD2	ENSG00000116337	ENST00000524975	retained_intron	KNOWN	None	469	None	None	110169545	110170477	1	None	None
1	AMPD2	ENSG00000116337	ENST00000529299	retained_intron	KNOWN	None	469	None	None	110170391	110171157	1	None	None
1	AMPD2	ENSG00000116337	ENST00000532851	retained_intron	KNOWN	None	469	None	None	110171001	110172314	1	None	None
1	AMPD2	ENSG00000116337	ENST00000533132	retained_intron	KNOWN	None	469	None	None	110171156	110172174	1	None	None
1	AMPD2	ENSG00000116337	ENST00000467071	retained_intron	KNOWN	None	469	None	None	110171336	110171982	1	None	None
1	AMPD2	ENSG00000116337	ENST00000479919	retained_intron	KNOWN	None	469	None	None	110171715	110173662	1	None	None
1	AMPD2	ENSG00000116337	ENST00000476688	protein_coding	NOVEL	None	469	695	230	110171832	110174190	1	None	None
1	AMPD2	ENSG00000116337	ENST00000528958	retained_intron	KNOWN	None	469	None	None	110173260	110174122	1	None	None
2	EPC2	ENSG00000135999	ENST00000457184	protein_coding	PUTATIVE	None	24543	481	159	149402009	149511589	1	None	DKFZP566F2124
2	EPC2	ENSG00000135999	ENST00000258484	protein_coding	KNOWN	CCDS46422	24543	2424	807	149402553	149545130	1	None	DKFZP566F2124
2	EPC2	ENSG00000135999	ENST00000409654	protein_coding	PUTATIVE	None	24543	366	121	149402568	149450402	1	None	DKFZP566F2124
2	EPC2	ENSG00000135999	ENST00000397424	protein_coding	PUTATIVE	None	24543	481	159	149402989	149519378	1	None	DKFZP566F2124
2	EPC2	ENSG00000135999	ENST00000449013	protein_coding	PUTATIVE	None	24543	381	126	149447783	149449817	1	None	DKFZP566F2124
2	EPC2	ENSG00000135999	ENST00000491099	retained_intron	KNOWN	None	24543	None	None	149511464	149519784	1	None	DKFZP566F2124
6	TAPBP	ENSG00000231925	ENST00000434618	protein_coding	KNOWN	CCDS34426	11566	1347	448	33267471	33282164	-1	None	TAPA
6	TAPBP	ENSG00000231925	ENST00000475304	protein_coding	NOVEL	None	11566	1401	466	33269462	33282028	-1	None	TAPA
6	TAPBP	ENSG00000231925	ENST00000489157	protein_coding	NOVEL	CCDS34427	11566	1086	361	33269537	33282031	-1	None	TAPA
6	TAPBP	ENSG00000231925	ENST00000426633	protein_coding	KNOWN	CCDS34428	11566	1515	504	33271350	33281989	-1	None	TAPA
6	TAPBP	ENSG00000231925	ENST00000480730	retained_intron	KNOWN	None	11566	None	None	33271440	33281826	-1	None	TAPA
6	TAPBP	ENSG00000231925	ENST00000437116	retained_intron	KNOWN	None	11566	None	None	33272045	33281818	-1	None	TAPA
6	TAPBP	ENSG00000231925	ENST00000467025	protein_coding	NOVEL	None	11566	577	191	33272886	33281992	-1	None	TAPA
6	TAPBP	ENSG00000231925	ENST00000476333	retained_intron	KNOWN	None	11566	None	None	33280791	33281732	-1	None	TAPA
6	TAPBP	ENSG00000231925	ENST00000456592	protein_coding	KNOWN	None	11566	1347	448	33271552	33282164	-1	None	TAPA
16	ATP6V0D1	ENSG00000159720	ENST00000568620	retained_intron	KNOWN	None	13724	None	None	67471917	67475635	-1	ATP6D	ATP6DV, VATX, VPATPD, P39, Vma6
16	ATP6V0D1	ENSG00000159720	ENST00000290949	protein_coding	KNOWN	CCDS10838	13724	1056	351	67471922	67515140	-1	ATP6D	ATP6DV, VATX, VPATPD, P39, Vma6
16	ATP6V0D1	ENSG00000159720	ENST00000563305	retained_intron	KNOWN	None	13724	None	None	67471940	67473721	-1	ATP6D	ATP6DV, VATX, VPATPD, P39, Vma6
16	ATP6V0D1	ENSG00000159720	ENST00000565835	protein_coding	NOVEL	None	13724	698	231	67472224	67514982	-1	ATP6D	ATP6DV, VATX, VPATPD, P39, Vma6
16	ATP6V0D1	ENSG00000159720	ENST00000426604	nonsense_mediated_decay	KNOWN	None	13724	176	57	67472316	67493128	-1	ATP6D	ATP6DV, VATX, VPATPD, P39, Vma6
16	ATP6V0D1	ENSG00000159720	ENST00000540149	protein_coding	NOVEL	None	13724	1179	392	67472379	67515020	-1	ATP6D	ATP6DV, VATX, VPATPD, P39, Vma6
16	ATP6V0D1	ENSG00000159720	ENST00000567694	processed_transcript	KNOWN	None	13724	None	None	67472444	67475295	-1	ATP6D	ATP6DV, VATX, VPATPD, P39, Vma6
16	ATP6V0D1	ENSG00000159720	ENST00000561852	nonsense_mediated_decay	KNOWN	None	13724	144	47	67472712	67515051	-1	ATP6D	ATP6DV, VATX, VPATPD, P39, Vma6
16	ATP6V0D1	ENSG00000159720	ENST00000563064	nonsense_mediated_decay	KNOWN	None	13724	174	57	67472725	67515084	-1	ATP6D	ATP6DV, VATX, VPATPD, P39, Vma6
16	ATP6V0D1	ENSG00000159720	ENST00000564615	protein_coding	NOVEL	None	13724	680	225	67472728	67487618	-1	ATP6D	ATP6DV, VATX, VPATPD, P39, Vma6
16	ATP6V0D1	ENSG00000159720	ENST00000567170	retained_intron	KNOWN	None	13724	None	None	67472748	67477310	-1	ATP6D	ATP6DV, VATX, VPATPD, P39, Vma6
16	ATP6V0D1	ENSG00000159720	ENST00000566322	nonsense_mediated_decay	KNOWN	None	13724	215	70	67472956	67493083	-1	ATP6D	ATP6DV, VATX, VPATPD, P39, Vma6
16	ATP6V0D1	ENSG00000159720	ENST00000564191	nonsense_mediated_decay	KNOWN	None	13724	348	115	67472991	67514989	-1	ATP6D	ATP6DV, VATX, VPATPD, P39, Vma6
16	ATP6V0D1	ENSG00000159720	ENST00000564788	nonsense_mediated_decay	KNOWN	None	13724	342	113	67473011	67515071	-1	ATP6D	ATP6DV, VATX, VPATPD, P39, Vma6
16	ATP6V0D1	ENSG00000159720	ENST00000568101	nonsense_mediated_decay	KNOWN	None	13724	121	39	67477003	67493122	-1	ATP6D	ATP6DV, VATX, VPATPD, P39, Vma6
16	ATP6V0D1	ENSG00000159720	ENST00000561658	processed_transcript	KNOWN	None	13724	None	None	67486147	67515060	-1	ATP6D	ATP6DV, VATX, VPATPD, P39, Vma6
16	ATP6V0D1	ENSG00000159720	ENST00000568298	retained_intron	KNOWN	None	13724	None	None	67488482	67515060	-1	ATP6D	ATP6DV, VATX, VPATPD, P39, Vma6
16	ATP6V0D1	ENSG00000159720	ENST00000602876	protein_coding	KNOWN	None	13724	825	274	67472316	67493125	-1	ATP6D	ATP6DV, VATX, VPATPD, P39, Vma6
2	None	ENSG00000233502	ENST00000425235	protein_coding	PUTATIVE	None	None	312	103	10223908	10226228	1	None	None
16	None	ENSG00000258122	ENST00000551187	antisense	KNOWN	None	None	None	None	66875336	66887351	-1	None	None
9	None	ENSG00000238530	ENST00000459142	snoRNA	NOVEL	None	None	None	None	117327530	117327632	-1	None	None
9	None	ENSG00000235797	ENST00000423876	processed_pseudogene	KNOWN	None	None	None	None	117335181	117335651	1	None	None
16	None	ENSG00000261705	ENST00000561475	lincRNA	KNOWN	None	None	None	None	66921918	66922834	1	None	None
12	CBX5	ENSG00000094916	ENST00000209875	protein_coding	KNOWN	CCDS8875	1555	576	191	54624724	54673886	-1	None	HP1Hs-alpha, HP1, HP1-ALPHA
12	CBX5	ENSG00000094916	ENST00000439541	protein_coding	NOVEL	CCDS8875	1555	576	191	54634409	54653376	-1	None	HP1Hs-alpha, HP1, HP1-ALPHA
12	CBX5	ENSG00000094916	ENST00000547872	retained_intron	KNOWN	None	1555	None	None	54635531	54646309	-1	None	HP1Hs-alpha, HP1, HP1-ALPHA
12	CBX5	ENSG00000094916	ENST00000550411	protein_coding	KNOWN	CCDS8875	1555	576	191	54635539	54653329	-1	None	HP1Hs-alpha, HP1, HP1-ALPHA
12	CBX5	ENSG00000094916	ENST00000552562	protein_coding	KNOWN	None	1555	274	90	54645875	54652211	-1	None	HP1Hs-alpha, HP1, HP1-ALPHA
HSCHR6_MHC_DBB	DAXX	ENSG00000206206	ENST00000399060	protein_coding	KNOWN	None	2681	2223	740	33264261	33268717	-1	None	DAP6
HSCHR6_MHC_DBB	DAXX	ENSG00000206206	ENST00000383062	protein_coding	KNOWN	None	2681	2223	740	33264261	33268721	-1	None	DAP6
HSCHR6_MHC_DBB	DAXX	ENSG00000206206	ENST00000484131	processed_transcript	KNOWN	None	2681	None	None	33265238	33268637	-1	None	DAP6
HSCHR6_MHC_DBB	DAXX	ENSG00000206206	ENST00000461796	processed_transcript	KNOWN	None	2681	None	None	33265290	33267574	-1	None	DAP6
HSCHR6_MHC_DBB	DAXX	ENSG00000206206	ENST00000482810	retained_intron	KNOWN	None	2681	None	None	33265369	33266165	-1	None	DAP6
HSCHR6_MHC_DBB	DAXX	ENSG00000206206	ENST00000459766	processed_transcript	KNOWN	None	2681	None	None	33266574	33268625	-1	None	DAP6
HSCHR6_MHC_DBB	DAXX	ENSG00000206206	ENST00000428268	protein_coding	KNOWN	None	2681	535	177	33266945	33268652	-1	None	DAP6
HSCHR6_MHC_DBB	DAXX	ENSG00000206206	ENST00000414272	protein_coding	KNOWN	None	2681	389	128	33267091	33274938	-1	None	DAP6
HSCHR6_MHC_DBB	DAXX	ENSG00000206206	ENST00000474819	retained_intron	KNOWN	None	2681	None	None	33267316	33268664	-1	None	DAP6
HSCHR6_MHC_DBB	DAXX	ENSG00000206206	ENST00000457553	protein_coding	KNOWN	None	2681	144	47	33267487	33268510	-1	None	DAP6
HSCHR6_MHC_DBB	DAXX	ENSG00000206206	ENST00000478948	processed_transcript	KNOWN	None	2681	None	None	33269335	33274971	-1	None	DAP6
6	SLC35D3	ENSG00000182747	ENST00000331858	protein_coding	KNOWN	CCDS34544	15621	1251	416	137243402	137246777	1	FRCL1	None
11	RNF26	ENSG00000173456	ENST00000311413	protein_coding	KNOWN	CCDS8419	14646	1302	433	119205237	119208023	1	None	MGC2642
7	NUPL2	ENSG00000136243	ENST00000258742	protein_coding	KNOWN	CCDS5379	17010	1272	423	23221446	23240628	1	None	NLP_1, CG1, hCG1, H_RG271G13.9
7	NUPL2	ENSG00000136243	ENST00000485250	retained_intron	KNOWN	None	17010	None	None	23221460	23240574	1	None	NLP_1, CG1, hCG1, H_RG271G13.9
7	NUPL2	ENSG00000136243	ENST00000438012	nonsense_mediated_decay	KNOWN	None	17010	675	224	23221643	23240625	1	None	NLP_1, CG1, hCG1, H_RG271G13.9
7	NUPL2	ENSG00000136243	ENST00000497500	retained_intron	KNOWN	None	17010	None	None	23221657	23227011	1	None	NLP_1, CG1, hCG1, H_RG271G13.9
7	NUPL2	ENSG00000136243	ENST00000410002	protein_coding	PUTATIVE	None	17010	468	155	23221657	23227838	1	None	NLP_1, CG1, hCG1, H_RG271G13.9
7	NUPL2	ENSG00000136243	ENST00000487595	processed_transcript	KNOWN	None	17010	None	None	23221668	23236061	1	None	NLP_1, CG1, hCG1, H_RG271G13.9
7	NUPL2	ENSG00000136243	ENST00000413919	protein_coding	NOVEL	None	17010	1307	434	23221683	23240324	1	None	NLP_1, CG1, hCG1, H_RG271G13.9
7	NUPL2	ENSG00000136243	ENST00000437140	nonsense_mediated_decay	KNOWN	None	17010	135	44	23221685	23240586	1	None	NLP_1, CG1, hCG1, H_RG271G13.9
7	NUPL2	ENSG00000136243	ENST00000486136	retained_intron	KNOWN	None	17010	None	None	23226692	23236903	1	None	NLP_1, CG1, hCG1, H_RG271G13.9
7	NUPL2	ENSG00000136243	ENST00000477844	retained_intron	KNOWN	None	17010	None	None	23234022	23240630	1	None	NLP_1, CG1, hCG1, H_RG271G13.9
7	NUPL2	ENSG00000136243	ENST00000489145	retained_intron	KNOWN	None	17010	None	None	23239043	23240443	1	None	NLP_1, CG1, hCG1, H_RG271G13.9
6	None	ENSG00000272442	ENST00000438774	protein_coding	PUTATIVE	None	None	669	222	44238480	44275243	1	None	None
6	None	ENSG00000272442	ENST00000505802	nonsense_mediated_decay	KNOWN	None	None	406	134	44240931	44346694	1	None	None
13	IRG1	ENSG00000102794	ENST00000377462	protein_coding	KNOWN	CCDS58299	33904	1446	481	77522632	77532777	1	None	None
13	IRG1	ENSG00000102794	ENST00000449753	protein_coding	KNOWN	None	33904	1446	481	77526612	77532120	1	None	None
22	AP1B1	ENSG00000100280	ENST00000482818	retained_intron	KNOWN	None	554	None	None	29723669	29728310	-1	ADTB1, CLAPB2	BAM22, AP105A
22	AP1B1	ENSG00000100280	ENST00000405198	protein_coding	KNOWN	CCDS13855	554	2850	949	29723854	29763264	-1	ADTB1, CLAPB2	BAM22, AP105A
22	AP1B1	ENSG00000100280	ENST00000317368	protein_coding	NOVEL	CCDS54515	554	2760	919	29723854	29784572	-1	ADTB1, CLAPB2	BAM22, AP105A
22	AP1B1	ENSG00000100280	ENST00000402502	protein_coding	KNOWN	CCDS13856	554	2820	939	29724727	29763264	-1	ADTB1, CLAPB2	BAM22, AP105A
22	AP1B1	ENSG00000100280	ENST00000472057	processed_transcript	KNOWN	None	554	None	None	29727446	29736826	-1	ADTB1, CLAPB2	BAM22, AP105A
22	AP1B1	ENSG00000100280	ENST00000421126	protein_coding	KNOWN	None	554	1734	577	29737552	29766648	-1	ADTB1, CLAPB2	BAM22, AP105A
22	AP1B1	ENSG00000100280	ENST00000415756	protein_coding	PUTATIVE	None	554	519	172	29745262	29747736	-1	ADTB1, CLAPB2	BAM22, AP105A
22	AP1B1	ENSG00000100280	ENST00000473606	retained_intron	KNOWN	None	554	None	None	29755662	29784518	-1	ADTB1, CLAPB2	BAM22, AP105A
22	AP1B1	ENSG00000100280	ENST00000415447	protein_coding	KNOWN	None	554	2820	939	29724810	29819168	-1	ADTB1, CLAPB2	BAM22, AP105A
22	AP1B1	ENSG00000100280	ENST00000357586	protein_coding	KNOWN	CCDS13855	554	2850	949	29723671	29784572	-1	ADTB1, CLAPB2	BAM22, AP105A
22	AP1B1	ENSG00000100280	ENST00000356015	protein_coding	KNOWN	None	554	2829	942	29723671	29784572	-1	ADTB1, CLAPB2	BAM22, AP105A
22	AP1B1	ENSG00000100280	ENST00000432560	protein_coding	KNOWN	CCDS13856	554	2820	939	29723671	29784572	-1	ADTB1, CLAPB2	BAM22, AP105A
9	None	ENSG00000201749	ENST00000364879	misc_RNA	NOVEL	None	None	None	None	117377735	117377848	-1	None	None
9	None	ENSG00000272241	ENST00000606438	miRNA	NOVEL	None	None	None	None	117378827	117378895	1	None	None
10	NKX1-2	ENSG00000229544	ENST00000451024	protein_coding	PUTATIVE	CCDS59221	31652	933	310	126135592	126138753	-1	C10orf121	bB238F13.2
10	NKX1-2	ENSG00000229544	ENST00000440536	protein_coding	KNOWN	None	31652	999	332	126135998	126138550	-1	C10orf121	bB238F13.2
22	None	ENSG00000260065	ENST00000564772	lincRNA	KNOWN	None	None	None	None	26917949	26921002	-1	None	None
13	CLN5	ENSG00000102805	ENST00000377453	protein_coding	KNOWN	CCDS9456	2076	1224	407	77564795	77576652	1	None	None
13	CLN5	ENSG00000102805	ENST00000485938	processed_transcript	KNOWN	None	2076	None	None	77566251	77570419	1	None	None
HSCHR6_MHC_COX	AGPAT1	ENSG00000226467	ENST00000457923	protein_coding	KNOWN	None	324	852	283	32084466	32089369	-1	None	LPAAT-alpha
HSCHR6_MHC_COX	AGPAT1	ENSG00000226467	ENST00000446463	protein_coding	KNOWN	None	324	852	283	32084466	32092376	-1	None	LPAAT-alpha
HSCHR6_MHC_COX	AGPAT1	ENSG00000226467	ENST00000449776	protein_coding	KNOWN	None	324	852	283	32084466	32093334	-1	None	LPAAT-alpha
HSCHR6_MHC_COX	AGPAT1	ENSG00000226467	ENST00000427763	protein_coding	KNOWN	None	324	852	283	32084466	32093579	-1	None	LPAAT-alpha
HSCHR6_MHC_COX	AGPAT1	ENSG00000226467	ENST00000474349	processed_transcript	KNOWN	None	324	None	None	32084466	32093596	-1	None	LPAAT-alpha
HSCHR6_MHC_COX	AGPAT1	ENSG00000226467	ENST00000446323	protein_coding	KNOWN	None	324	852	283	32084466	32094040	-1	None	LPAAT-alpha
HSCHR6_MHC_COX	AGPAT1	ENSG00000226467	ENST00000425204	protein_coding	KNOWN	None	324	852	283	32084466	32094350	-1	None	LPAAT-alpha
HSCHR6_MHC_COX	AGPAT1	ENSG00000226467	ENST00000476469	processed_transcript	KNOWN	None	324	None	None	32086419	32092151	-1	None	LPAAT-alpha
9	None	ENSG00000230054	ENST00000423632	lincRNA	KNOWN	None	None	None	None	117418584	117420052	-1	None	None
9	None	ENSG00000230054	ENST00000415101	lincRNA	KNOWN	None	None	None	None	117418584	117424654	-1	None	None
11	C1QTNF5	ENSG00000223953	ENST00000525657	processed_transcript	KNOWN	None	14344	None	None	119209652	119211508	-1	None	CTRP5, DKFZp586B0621, LORD
11	C1QTNF5	ENSG00000223953	ENST00000528368	protein_coding	KNOWN	CCDS8420	14344	732	243	119209652	119211593	-1	None	CTRP5, DKFZp586B0621, LORD
11	C1QTNF5	ENSG00000223953	ENST00000445041	protein_coding	KNOWN	CCDS8420	14344	732	243	119209652	119217383	-1	None	CTRP5, DKFZp586B0621, LORD
22	MIR548J	ENSG00000221760	ENST00000408833	miRNA	KNOWN	None	35276	None	None	26951178	26951289	-1	MIRN548J	hsa-mir-548j
22	HMGB1P10	ENSG00000213707	ENST00000395823	processed_pseudogene	KNOWN	None	4994	None	None	26956492	26957054	1	HMG1L10, HMGB1L10	None
13	EPSTI1	ENSG00000133106	ENST00000313640	protein_coding	KNOWN	CCDS31964	16465	1233	410	43460524	43566366	-1	None	BRESI1, MGC29634
13	EPSTI1	ENSG00000133106	ENST00000313624	protein_coding	KNOWN	CCDS9387	16465	924	307	43460524	43566385	-1	None	BRESI1, MGC29634
13	EPSTI1	ENSG00000133106	ENST00000540470	retained_intron	KNOWN	None	16465	None	None	43460524	43566407	-1	None	BRESI1, MGC29634
13	EPSTI1	ENSG00000133106	ENST00000398762	protein_coding	PUTATIVE	None	16465	957	318	43462630	43566301	-1	None	BRESI1, MGC29634
13	EPSTI1	ENSG00000133106	ENST00000535677	processed_transcript	KNOWN	None	16465	None	None	43469145	43537719	-1	None	BRESI1, MGC29634
13	EPSTI1	ENSG00000133106	ENST00000476830	processed_transcript	KNOWN	None	16465	None	None	43493440	43566316	-1	None	BRESI1, MGC29634
13	EPSTI1	ENSG00000133106	ENST00000537828	protein_coding	PUTATIVE	None	16465	235	77	43500513	43565367	-1	None	BRESI1, MGC29634
13	EPSTI1	ENSG00000133106	ENST00000538562	nonsense_mediated_decay	KNOWN	None	16465	243	80	43528084	43566371	-1	None	BRESI1, MGC29634
13	EPSTI1	ENSG00000133106	ENST00000542706	processed_transcript	KNOWN	None	16465	None	None	43537438	43565393	-1	None	BRESI1, MGC29634
13	EPSTI1	ENSG00000133106	ENST00000536042	processed_transcript	KNOWN	None	16465	None	None	43543610	43566375	-1	None	BRESI1, MGC29634
9	None	ENSG00000269225	ENST00000598212	processed_pseudogene	KNOWN	None	None	None	None	43007105	43008297	-1	None	None
4	None	ENSG00000241651	ENST00000475247	processed_pseudogene	KNOWN	None	None	None	None	128990169	128990767	-1	None	None
4	None	ENSG00000241651	ENST00000544812	processed_pseudogene	KNOWN	None	None	None	None	128990172	128990729	-1	None	None
19	CCDC114	ENSG00000105479	ENST00000315396	protein_coding	KNOWN	CCDS12714	26560	2013	670	48799714	48823332	-1	None	FLJ32926, CILD20
19	CCDC114	ENSG00000105479	ENST00000474199	retained_intron	KNOWN	None	26560	None	None	48799719	48823642	-1	None	FLJ32926, CILD20
19	CCDC114	ENSG00000105479	ENST00000497273	retained_intron	KNOWN	None	26560	None	None	48799721	48806658	-1	None	FLJ32926, CILD20
19	CCDC114	ENSG00000105479	ENST00000497803	processed_transcript	KNOWN	None	26560	None	None	48821722	48825130	-1	None	FLJ32926, CILD20
19	CCDC114	ENSG00000105479	ENST00000483610	retained_intron	KNOWN	None	26560	None	None	48823117	48824053	-1	None	FLJ32926, CILD20
22	ISCA2P1	ENSG00000226912	ENST00000425548	processed_pseudogene	KNOWN	None	38022	None	None	27040853	27041300	-1	None	None
9	None	ENSG00000269788	ENST00000596103	processed_pseudogene	KNOWN	None	None	None	None	43009842	43010747	1	None	None
2	None	ENSG00000270898	ENST00000406625	protein_coding	KNOWN	None	None	1662	553	53897430	54087297	-1	None	None
2	None	ENSG00000270898	ENST00000498475	processed_transcript	NOVEL	None	None	None	None	53941573	54087127	-1	None	None
2	None	ENSG00000270898	ENST00000459916	processed_transcript	NOVEL	None	None	None	None	53978052	54087057	-1	None	None
4	FOSL1P1	ENSG00000248394	ENST00000511041	processed_pseudogene	KNOWN	None	44055	None	None	129076544	129077359	1	None	None
19	DOT1L	ENSG00000104885	ENST00000398665	protein_coding	KNOWN	CCDS42460	24948	4614	1537	2164148	2232577	1	None	KIAA1814, DOT1, KMT4
19	DOT1L	ENSG00000104885	ENST00000478937	retained_intron	KNOWN	None	24948	None	None	2164170	2191304	1	None	KIAA1814, DOT1, KMT4
19	DOT1L	ENSG00000104885	ENST00000452696	protein_coding	NOVEL	None	24948	624	207	2164184	2199927	1	None	KIAA1814, DOT1, KMT4
19	DOT1L	ENSG00000104885	ENST00000440640	protein_coding	NOVEL	None	24948	3632	1209	2194566	2230022	1	None	KIAA1814, DOT1, KMT4
19	DOT1L	ENSG00000104885	ENST00000591498	processed_transcript	KNOWN	None	24948	None	None	2212236	2214571	1	None	KIAA1814, DOT1, KMT4
19	DOT1L	ENSG00000104885	ENST00000586024	processed_transcript	KNOWN	None	24948	None	None	2213589	2215866	1	None	KIAA1814, DOT1, KMT4
19	DOT1L	ENSG00000104885	ENST00000472540	retained_intron	KNOWN	None	24948	None	None	2213905	2214748	1	None	KIAA1814, DOT1, KMT4
19	DOT1L	ENSG00000104885	ENST00000482433	retained_intron	KNOWN	None	24948	None	None	2216165	2222881	1	None	KIAA1814, DOT1, KMT4
19	DOT1L	ENSG00000104885	ENST00000457590	protein_coding	NOVEL	None	24948	1962	653	2222529	2230692	1	None	KIAA1814, DOT1, KMT4
19	DOT1L	ENSG00000104885	ENST00000446286	protein_coding	NOVEL	None	24948	376	124	2226916	2227900	1	None	KIAA1814, DOT1, KMT4
22	PNPLA3	ENSG00000100344	ENST00000216180	protein_coding	KNOWN	CCDS14054	18590	1446	481	44319619	44343448	1	C22orf20, ADPN	dJ796I17.1, FLJ22012, adiponutrin, iPLA2epsilon
22	PNPLA3	ENSG00000100344	ENST00000406117	nonsense_mediated_decay	KNOWN	None	18590	363	120	44319672	44360368	1	C22orf20, ADPN	dJ796I17.1, FLJ22012, adiponutrin, iPLA2epsilon
22	PNPLA3	ENSG00000100344	ENST00000423180	protein_coding	PUTATIVE	None	18590	1434	477	44319683	44342941	1	C22orf20, ADPN	dJ796I17.1, FLJ22012, adiponutrin, iPLA2epsilon
22	PNPLA3	ENSG00000100344	ENST00000478713	processed_transcript	KNOWN	None	18590	None	None	44319994	44328967	1	C22orf20, ADPN	dJ796I17.1, FLJ22012, adiponutrin, iPLA2epsilon
22	PNPLA3	ENSG00000100344	ENST00000497129	processed_transcript	KNOWN	None	18590	None	None	44328887	44335273	1	C22orf20, ADPN	dJ796I17.1, FLJ22012, adiponutrin, iPLA2epsilon
HSCHR6_MHC_COX	HLA-DPA1	ENSG00000224103	ENST00000415247	protein_coding	KNOWN	None	4938	783	260	32954322	32963375	-1	HLA-DP1A	None
HSCHR6_MHC_COX	HLA-DPA1	ENSG00000224103	ENST00000486369	retained_intron	KNOWN	None	4938	None	None	32954760	32963368	-1	HLA-DP1A	None
HSCHR6_MHC_COX	HLA-DPA1	ENSG00000224103	ENST00000414003	protein_coding	KNOWN	None	4938	385	127	32957413	32959001	-1	HLA-DP1A	None
HSCHR6_MHC_COX	HLA-DPA1	ENSG00000224103	ENST00000439393	protein_coding	KNOWN	None	4938	636	211	32958451	32963390	-1	HLA-DP1A	None
HSCHR6_MHC_COX	HLA-DPA1	ENSG00000224103	ENST00000425105	protein_coding	KNOWN	None	4938	628	208	32958772	32970519	-1	HLA-DP1A	None
HSCHR6_MHC_COX	HLA-DPA1	ENSG00000224103	ENST00000497834	processed_transcript	KNOWN	None	4938	None	None	32958857	32970507	-1	HLA-DP1A	None
HSCHR6_MHC_COX	HLA-DPA1	ENSG00000224103	ENST00000484255	processed_transcript	KNOWN	None	4938	None	None	32958915	32963386	-1	HLA-DP1A	None
HSCHR6_MHC_COX	HLA-DPA1	ENSG00000224103	ENST00000448742	protein_coding	KNOWN	None	4938	69	22	32963255	32970527	-1	HLA-DP1A	None
3	PDE12	ENSG00000174840	ENST00000487257	protein_coding	KNOWN	None	25386	1419	472	57542003	57546664	1	None	DKFZp667B1218, 2'-PDE
3	PDE12	ENSG00000174840	ENST00000311180	protein_coding	KNOWN	CCDS33772	25386	1830	609	57542004	57552571	1	None	DKFZp667B1218, 2'-PDE
10	LHPP	ENSG00000107902	ENST00000392757	protein_coding	PUTATIVE	None	30042	639	212	126150403	126187083	1	None	HDHD2B
10	LHPP	ENSG00000107902	ENST00000368842	protein_coding	KNOWN	CCDS7640	30042	813	270	126150404	126302710	1	None	HDHD2B
10	LHPP	ENSG00000107902	ENST00000368839	protein_coding	KNOWN	CCDS53587	30042	633	210	126150412	126302710	1	None	HDHD2B
10	LHPP	ENSG00000107902	ENST00000487190	processed_transcript	KNOWN	None	30042	None	None	126176998	126182446	1	None	HDHD2B
10	LHPP	ENSG00000107902	ENST00000481452	processed_transcript	KNOWN	None	30042	None	None	126177032	126205945	1	None	HDHD2B
10	LHPP	ENSG00000107902	ENST00000493240	processed_transcript	KNOWN	None	30042	None	None	126234553	126301949	1	None	HDHD2B
10	LHPP	ENSG00000107902	ENST00000482963	processed_transcript	KNOWN	None	30042	None	None	126234594	126306457	1	None	HDHD2B
10	LHPP	ENSG00000107902	ENST00000486535	processed_transcript	KNOWN	None	30042	None	None	126293769	126301994	1	None	HDHD2B
10	LHPP	ENSG00000107902	ENST00000492187	processed_transcript	KNOWN	None	30042	None	None	126301402	126301953	1	None	HDHD2B
3	MKRN2	ENSG00000075975	ENST00000170447	protein_coding	KNOWN	CCDS33702	7113	1251	416	12598513	12625212	1	None	RNF62, HSPC070
3	MKRN2	ENSG00000075975	ENST00000411987	protein_coding	NOVEL	None	7113	1122	373	12598586	12624002	1	None	RNF62, HSPC070
3	MKRN2	ENSG00000075975	ENST00000448482	protein_coding	NOVEL	None	7113	1245	414	12598589	12624125	1	None	RNF62, HSPC070
19	SYDE1	ENSG00000105137	ENST00000342784	protein_coding	KNOWN	CCDS12324	25824	2208	735	15218214	15225799	1	None	7h3, FLJ13511
19	SYDE1	ENSG00000105137	ENST00000597977	protein_coding	PUTATIVE	None	25824	510	169	15218216	15220288	1	None	7h3, FLJ13511
19	SYDE1	ENSG00000105137	ENST00000600440	protein_coding	KNOWN	None	25824	2007	668	15218216	15225796	1	None	7h3, FLJ13511
19	SYDE1	ENSG00000105137	ENST00000600252	protein_coding	PUTATIVE	None	25824	1179	392	15219644	15225785	1	None	7h3, FLJ13511
19	SYDE1	ENSG00000105137	ENST00000602203	protein_coding	PUTATIVE	None	25824	571	189	15221392	15224433	1	None	7h3, FLJ13511
10	None	ENSG00000235113	ENST00000435436	processed_pseudogene	KNOWN	None	None	None	None	32398789	32400594	1	None	None
20	TGM6	ENSG00000166948	ENST00000202625	protein_coding	KNOWN	CCDS13025	16255	2121	706	2361554	2413399	1	TGM3L	dJ734P14.3, TGY, SCA35
20	TGM6	ENSG00000166948	ENST00000381423	protein_coding	KNOWN	CCDS58761	16255	1878	625	2361554	2413399	1	TGM3L	dJ734P14.3, TGY, SCA35
20	TGM6	ENSG00000166948	ENST00000477505	processed_transcript	KNOWN	None	16255	None	None	2375098	2381090	1	TGM3L	dJ734P14.3, TGY, SCA35
HSCHR6_MHC_MCF	ATP6V1G2	ENSG00000230900	ENST00000454889	protein_coding	KNOWN	None	862	357	118	31588589	31590730	-1	ATP6G, ATP6G2	Vma10, NG38, Em:AC004181.3
HSCHR6_MHC_MCF	ATP6V1G2	ENSG00000230900	ENST00000447174	protein_coding	KNOWN	None	862	237	78	31588589	31590760	-1	ATP6G, ATP6G2	Vma10, NG38, Em:AC004181.3
HSCHR6_MHC_MCF	ATP6V1G2	ENSG00000230900	ENST00000471441	processed_transcript	KNOWN	None	862	None	None	31589411	31590878	-1	ATP6G, ATP6G2	Vma10, NG38, Em:AC004181.3
HSCHR6_MHC_MCF	ATP6V1G2	ENSG00000230900	ENST00000487261	processed_transcript	KNOWN	None	862	None	None	31589544	31590971	-1	ATP6G, ATP6G2	Vma10, NG38, Em:AC004181.3
HSCHR6_MHC_MCF	ATP6V1G2	ENSG00000230900	ENST00000552135	protein_coding	KNOWN	None	862	348	115	31588589	31602936	-1	ATP6G, ATP6G2	Vma10, NG38, Em:AC004181.3
1	CLCNKB	ENSG00000184908	ENST00000375679	protein_coding	KNOWN	CCDS168	2027	2064	687	16370272	16383803	1	None	hClC-Kb
1	CLCNKB	ENSG00000184908	ENST00000375667	protein_coding	KNOWN	CCDS57974	2027	1554	517	16375284	16383803	1	None	hClC-Kb
1	CLCNKB	ENSG00000184908	ENST00000431772	protein_coding	KNOWN	None	2027	441	146	16378818	16383803	1	None	hClC-Kb
11	MFRP	ENSG00000235718	ENST00000449574	protein_coding	KNOWN	CCDS8421	18121	1740	579	119211878	119217383	-1	None	FLJ30570, rd6, NNO2, C1QTNF5
11	MFRP	ENSG00000235718	ENST00000360167	protein_coding	NOVEL	None	18121	1386	461	119212133	119217375	-1	None	FLJ30570, rd6, NNO2, C1QTNF5
11	MFRP	ENSG00000235718	ENST00000529147	processed_transcript	KNOWN	None	18121	None	None	119215634	119217218	-1	None	FLJ30570, rd6, NNO2, C1QTNF5
11	MFRP	ENSG00000235718	ENST00000526059	retained_intron	KNOWN	None	18121	None	None	119216487	119217327	-1	None	FLJ30570, rd6, NNO2, C1QTNF5
11	MFRP	ENSG00000235718	ENST00000555262	protein_coding	KNOWN	CCDS8421	18121	1740	579	119209652	119217383	-1	None	FLJ30570, rd6, NNO2, C1QTNF5
8	OTUD6B	ENSG00000155100	ENST00000285420	protein_coding	KNOWN	CCDS6253	24281	972	323	92082424	92099323	1	None	CGI-77, DUBA5
8	OTUD6B	ENSG00000155100	ENST00000522894	nonsense_mediated_decay	KNOWN	None	24281	387	128	92082553	92097645	1	None	CGI-77, DUBA5
8	OTUD6B	ENSG00000155100	ENST00000524027	retained_intron	KNOWN	None	24281	None	None	92082590	92091435	1	None	CGI-77, DUBA5
8	OTUD6B	ENSG00000155100	ENST00000404789	protein_coding	KNOWN	None	24281	579	192	92082553	92097645	1	None	CGI-77, DUBA5
16	CLEC19A	ENSG00000261210	ENST00000493231	protein_coding	PUTATIVE	None	34522	261	86	19297061	19333467	1	None	None
16	CLEC19A	ENSG00000261210	ENST00000465414	protein_coding	KNOWN	None	34522	411	136	19297101	19315722	1	None	None
16	CLEC19A	ENSG00000261210	ENST00000476906	nonsense_mediated_decay	KNOWN	None	34522	198	65	19297105	19315716	1	None	None
6	MIR4462	ENSG00000263926	ENST00000579627	miRNA	KNOWN	None	41549	None	None	37523141	37523198	-1	None	hsa-mir-4462
6	None	ENSG00000225945	ENST00000415890	antisense	KNOWN	None	None	None	None	37783553	37786994	-1	None	None
16	IRF8	ENSG00000140968	ENST00000268638	protein_coding	KNOWN	CCDS10956	5358	1281	426	85932409	85956215	1	ICSBP1	IRF-8, ICSBP
16	IRF8	ENSG00000140968	ENST00000565552	protein_coding	KNOWN	None	5358	141	46	85932769	85936762	1	ICSBP1	IRF-8, ICSBP
16	IRF8	ENSG00000140968	ENST00000570088	retained_intron	KNOWN	None	5358	None	None	85932794	85937137	1	ICSBP1	IRF-8, ICSBP
16	IRF8	ENSG00000140968	ENST00000563180	protein_coding	PUTATIVE	None	5358	381	126	85936295	85943488	1	ICSBP1	IRF-8, ICSBP
16	IRF8	ENSG00000140968	ENST00000564617	protein_coding	KNOWN	None	5358	477	158	85936421	85946766	1	ICSBP1	IRF-8, ICSBP
16	IRF8	ENSG00000140968	ENST00000564803	protein_coding	KNOWN	None	5358	985	327	85936444	85952406	1	ICSBP1	IRF-8, ICSBP
16	IRF8	ENSG00000140968	ENST00000564056	retained_intron	KNOWN	None	5358	None	None	85936737	85946918	1	ICSBP1	IRF-8, ICSBP
16	IRF8	ENSG00000140968	ENST00000566369	protein_coding	PUTATIVE	None	5358	458	151	85942594	85955902	1	ICSBP1	IRF-8, ICSBP
16	IRF8	ENSG00000140968	ENST00000569145	protein_coding	PUTATIVE	None	5358	43	13	85947580	85952095	1	ICSBP1	IRF-8, ICSBP
16	IRF8	ENSG00000140968	ENST00000562492	protein_coding	PUTATIVE	None	5358	669	222	85947649	85954977	1	ICSBP1	IRF-8, ICSBP
16	IRF8	ENSG00000140968	ENST00000569607	protein_coding	PUTATIVE	None	5358	661	219	85947919	85954880	1	ICSBP1	IRF-8, ICSBP
6	TCTE1	ENSG00000146221	ENST00000371505	protein_coding	KNOWN	CCDS4910	11693	1506	501	44246480	44265425	-1	None	D6S46, MGC33600
6	TCTE1	ENSG00000146221	ENST00000371504	protein_coding	KNOWN	None	11693	597	198	44247902	44254090	-1	None	D6S46, MGC33600
6	TCTE1	ENSG00000146221	ENST00000371503	protein_coding	KNOWN	None	11693	597	198	44247897	44265458	-1	None	D6S46, MGC33600
16	MLKL	ENSG00000168404	ENST00000306247	protein_coding	KNOWN	CCDS45528	26617	792	263	74705753	74734688	-1	None	FLJ34389
16	MLKL	ENSG00000168404	ENST00000575695	retained_intron	KNOWN	None	26617	None	None	74705755	74710949	-1	None	FLJ34389
16	MLKL	ENSG00000168404	ENST00000570846	retained_intron	KNOWN	None	26617	None	None	74705755	74712311	-1	None	FLJ34389
16	MLKL	ENSG00000168404	ENST00000308807	protein_coding	KNOWN	CCDS32487	26617	1416	471	74705759	74734812	-1	None	FLJ34389
16	MLKL	ENSG00000168404	ENST00000576529	protein_coding	PUTATIVE	None	26617	307	101	74706251	74712846	-1	None	FLJ34389
16	MLKL	ENSG00000168404	ENST00000571303	nonsense_mediated_decay	KNOWN	None	26617	527	174	74709516	74725367	-1	None	FLJ34389
16	MLKL	ENSG00000168404	ENST00000573267	protein_coding	KNOWN	None	26617	634	210	74725263	74734858	-1	None	FLJ34389
16	MLKL	ENSG00000168404	ENST00000575686	protein_coding	PUTATIVE	None	26617	186	61	74729410	74734707	-1	None	FLJ34389
6	SPDEF	ENSG00000124664	ENST00000374037	protein_coding	KNOWN	CCDS4794	17257	1008	335	34505579	34524091	-1	None	PDEF, bA375E1.3
6	SPDEF	ENSG00000124664	ENST00000544425	protein_coding	KNOWN	CCDS59013	17257	960	319	34505768	34524110	-1	None	PDEF, bA375E1.3
12	POC1B	ENSG00000139323	ENST00000549591	retained_intron	KNOWN	None	30836	None	None	89813495	89823237	-1	WDR51B	TUWD12, FLJ14923
12	POC1B	ENSG00000139323	ENST00000393179	protein_coding	PUTATIVE	None	30836	1047	348	89813495	89919392	-1	WDR51B	TUWD12, FLJ14923
12	POC1B	ENSG00000139323	ENST00000313546	protein_coding	KNOWN	CCDS31869	30836	1437	478	89813495	89919801	-1	WDR51B	TUWD12, FLJ14923
12	POC1B	ENSG00000139323	ENST00000546740	processed_transcript	KNOWN	None	30836	None	None	89814564	89855619	-1	WDR51B	TUWD12, FLJ14923
12	POC1B	ENSG00000139323	ENST00000549035	protein_coding	PUTATIVE	CCDS55859	30836	1311	436	89814673	89919340	-1	WDR51B	TUWD12, FLJ14923
12	POC1B	ENSG00000139323	ENST00000547496	nonsense_mediated_decay	KNOWN	None	30836	153	50	89814931	89919777	-1	WDR51B	TUWD12, FLJ14923
12	POC1B	ENSG00000139323	ENST00000548715	nonsense_mediated_decay	KNOWN	None	30836	153	50	89818944	89919774	-1	WDR51B	TUWD12, FLJ14923
12	POC1B	ENSG00000139323	ENST00000549504	protein_coding	PUTATIVE	None	30836	282	93	89819064	89918982	-1	WDR51B	TUWD12, FLJ14923
12	POC1B	ENSG00000139323	ENST00000549304	processed_transcript	KNOWN	None	30836	None	None	89853448	89866472	-1	WDR51B	TUWD12, FLJ14923
12	POC1B	ENSG00000139323	ENST00000539190	retained_intron	KNOWN	None	30836	None	None	89854487	89919770	-1	WDR51B	TUWD12, FLJ14923
12	POC1B	ENSG00000139323	ENST00000551819	retained_intron	KNOWN	None	30836	None	None	89860450	89864182	-1	WDR51B	TUWD12, FLJ14923
12	POC1B	ENSG00000139323	ENST00000552563	retained_intron	KNOWN	None	30836	None	None	89860545	89919192	-1	WDR51B	TUWD12, FLJ14923
12	POC1B	ENSG00000139323	ENST00000547274	nonsense_mediated_decay	KNOWN	None	30836	153	50	89879046	89919797	-1	WDR51B	TUWD12, FLJ14923
12	POC1B	ENSG00000139323	ENST00000546830	nonsense_mediated_decay	KNOWN	None	30836	276	91	89885852	89919777	-1	WDR51B	TUWD12, FLJ14923
12	POC1B	ENSG00000139323	ENST00000541909	protein_coding	KNOWN	None	30836	687	228	89814931	89919777	-1	WDR51B	TUWD12, FLJ14923
12	POC1B	ENSG00000139323	ENST00000378528	protein_coding	KNOWN	None	30836	390	129	89813500	89891034	-1	WDR51B	TUWD12, FLJ14923
3	RBP2	ENSG00000114113	ENST00000232217	protein_coding	KNOWN	CCDS3109	9920	405	134	139171726	139195358	-1	None	CRBP2, RBPC2, CRBPII, CRABP-II
3	RBP2	ENSG00000114113	ENST00000511956	protein_coding	KNOWN	None	9920	311	102	139173614	139199565	-1	None	CRBP2, RBPC2, CRBPII, CRABP-II
3	RBP2	ENSG00000114113	ENST00000506825	protein_coding	KNOWN	None	9920	73	23	139195229	139199589	-1	None	CRBP2, RBPC2, CRBPII, CRABP-II
3	VEPH1	ENSG00000197415	ENST00000392833	protein_coding	KNOWN	CCDS54662	25735	2367	788	156977531	157221128	-1	None	FLJ12604, KIAA1692
3	VEPH1	ENSG00000197415	ENST00000362010	protein_coding	KNOWN	CCDS3179	25735	2502	833	156977531	157221216	-1	None	FLJ12604, KIAA1692
3	VEPH1	ENSG00000197415	ENST00000392832	protein_coding	KNOWN	CCDS3179	25735	2502	833	156978698	157217343	-1	None	FLJ12604, KIAA1692
3	VEPH1	ENSG00000197415	ENST00000472419	retained_intron	KNOWN	None	25735	None	None	157081082	157082270	-1	None	FLJ12604, KIAA1692
3	VEPH1	ENSG00000197415	ENST00000488772	processed_transcript	KNOWN	None	25735	None	None	157081481	157099462	-1	None	FLJ12604, KIAA1692
3	VEPH1	ENSG00000197415	ENST00000482685	processed_transcript	KNOWN	None	25735	None	None	157099062	157154742	-1	None	FLJ12604, KIAA1692
3	VEPH1	ENSG00000197415	ENST00000469007	processed_transcript	KNOWN	None	25735	None	None	157127458	157146216	-1	None	FLJ12604, KIAA1692
3	VEPH1	ENSG00000197415	ENST00000479987	protein_coding	PUTATIVE	None	25735	360	119	157146111	157251408	-1	None	FLJ12604, KIAA1692
3	VEPH1	ENSG00000197415	ENST00000494677	protein_coding	KNOWN	CCDS54661	25735	642	213	157177308	157221363	-1	None	FLJ12604, KIAA1692
3	VEPH1	ENSG00000197415	ENST00000490235	processed_transcript	PUTATIVE	None	25735	None	None	157177411	157188318	-1	None	FLJ12604, KIAA1692
3	VEPH1	ENSG00000197415	ENST00000468233	protein_coding	KNOWN	CCDS54661	25735	642	213	157177411	157221415	-1	None	FLJ12604, KIAA1692
3	VEPH1	ENSG00000197415	ENST00000482434	retained_intron	KNOWN	None	25735	None	None	157177884	157207145	-1	None	FLJ12604, KIAA1692
3	VEPH1	ENSG00000197415	ENST00000487753	protein_coding	KNOWN	None	25735	495	164	157178004	157251395	-1	None	FLJ12604, KIAA1692
3	VEPH1	ENSG00000197415	ENST00000473907	nonsense_mediated_decay	KNOWN	None	25735	210	69	157188208	157251397	-1	None	FLJ12604, KIAA1692
3	VEPH1	ENSG00000197415	ENST00000475050	nonsense_mediated_decay	KNOWN	None	25735	159	52	157188241	157251404	-1	None	FLJ12604, KIAA1692
3	VEPH1	ENSG00000197415	ENST00000461299	protein_coding	KNOWN	None	25735	188	61	157188269	157251405	-1	None	FLJ12604, KIAA1692
3	VEPH1	ENSG00000197415	ENST00000489602	protein_coding	KNOWN	None	25735	166	54	157188291	157251403	-1	None	FLJ12604, KIAA1692
3	VEPH1	ENSG00000197415	ENST00000483440	processed_transcript	PUTATIVE	None	25735	None	None	157206850	157217344	-1	None	FLJ12604, KIAA1692
3	VEPH1	ENSG00000197415	ENST00000543418	protein_coding	KNOWN	CCDS54662	25735	2367	788	156977531	157217445	-1	None	FLJ12604, KIAA1692
3	VEPH1	ENSG00000197415	ENST00000537559	protein_coding	KNOWN	CCDS54663	25735	534	177	157177410	157213295	-1	None	FLJ12604, KIAA1692
18	COLEC12	ENSG00000158270	ENST00000400256	protein_coding	KNOWN	CCDS32782	16016	2229	742	319361	500722	-1	None	SRCL, CL-P1, SCARA4
18	COLEC12	ENSG00000158270	ENST00000582147	retained_intron	KNOWN	None	16016	None	None	319361	500722	-1	None	SRCL, CL-P1, SCARA4
1	NPL	ENSG00000135838	ENST00000488424	processed_transcript	KNOWN	None	16781	None	None	182758428	182799519	1	C1orf13	NPL1, DHDPS1
1	NPL	ENSG00000135838	ENST00000460690	processed_transcript	KNOWN	None	16781	None	None	182758584	182781325	1	C1orf13	NPL1, DHDPS1
1	NPL	ENSG00000135838	ENST00000463899	processed_transcript	KNOWN	None	16781	None	None	182758872	182796155	1	C1orf13	NPL1, DHDPS1
1	NPL	ENSG00000135838	ENST00000367555	protein_coding	KNOWN	CCDS55666	16781	723	240	182758904	182799519	1	C1orf13	NPL1, DHDPS1
1	NPL	ENSG00000135838	ENST00000479721	processed_transcript	KNOWN	None	16781	None	None	182758908	182785882	1	C1orf13	NPL1, DHDPS1
1	NPL	ENSG00000135838	ENST00000471010	processed_transcript	PUTATIVE	None	16781	None	None	182761366	182775667	1	C1orf13	NPL1, DHDPS1
1	NPL	ENSG00000135838	ENST00000367553	protein_coding	KNOWN	CCDS1350	16781	963	320	182761394	182799267	1	C1orf13	NPL1, DHDPS1
1	NPL	ENSG00000135838	ENST00000460179	processed_transcript	KNOWN	None	16781	None	None	182787773	182799044	1	C1orf13	NPL1, DHDPS1
1	NPL	ENSG00000135838	ENST00000367552	protein_coding	KNOWN	CCDS55666	16781	723	240	182763485	182798814	1	C1orf13	NPL1, DHDPS1
1	NPL	ENSG00000135838	ENST00000258317	protein_coding	KNOWN	CCDS1350	16781	963	320	182763485	182798588	1	C1orf13	NPL1, DHDPS1
1	NPL	ENSG00000135838	ENST00000367550	protein_coding	KNOWN	None	16781	330	109	182763485	182778419	1	C1orf13	NPL1, DHDPS1
1	NPL	ENSG00000135838	ENST00000367554	protein_coding	KNOWN	CCDS55667	16781	906	301	182758911	182799237	1	C1orf13	NPL1, DHDPS1
14	RBM23	ENSG00000100461	ENST00000555209	protein_coding	PUTATIVE	None	20155	570	189	23369854	23388338	-1	RNPC4	FLJ10482
14	RBM23	ENSG00000100461	ENST00000359890	protein_coding	KNOWN	CCDS41921	20155	1320	439	23369854	23388393	-1	RNPC4	FLJ10482
14	RBM23	ENSG00000100461	ENST00000557667	retained_intron	KNOWN	None	20155	None	None	23369975	23388345	-1	RNPC4	FLJ10482
14	RBM23	ENSG00000100461	ENST00000399922	protein_coding	KNOWN	CCDS41920	20155	1272	423	23369975	23388391	-1	RNPC4	FLJ10482
14	RBM23	ENSG00000100461	ENST00000346528	protein_coding	KNOWN	CCDS41919	20155	1218	405	23369986	23388387	-1	RNPC4	FLJ10482
14	RBM23	ENSG00000100461	ENST00000542016	protein_coding	PUTATIVE	None	20155	810	269	23370545	23388387	-1	RNPC4	FLJ10482
14	RBM23	ENSG00000100461	ENST00000553884	protein_coding	PUTATIVE	None	20155	643	213	23370774	23374355	-1	RNPC4	FLJ10482
14	RBM23	ENSG00000100461	ENST00000556838	retained_intron	KNOWN	None	20155	None	None	23370789	23371641	-1	RNPC4	FLJ10482
14	RBM23	ENSG00000100461	ENST00000557245	protein_coding	PUTATIVE	None	20155	249	82	23370881	23371450	-1	RNPC4	FLJ10482
14	RBM23	ENSG00000100461	ENST00000557127	processed_transcript	KNOWN	None	20155	None	None	23371027	23373293	-1	RNPC4	FLJ10482
14	RBM23	ENSG00000100461	ENST00000307814	retained_intron	KNOWN	None	20155	None	None	23372171	23388358	-1	RNPC4	FLJ10482
14	RBM23	ENSG00000100461	ENST00000556186	retained_intron	KNOWN	None	20155	None	None	23373455	23374775	-1	RNPC4	FLJ10482
14	RBM23	ENSG00000100461	ENST00000557403	protein_coding	PUTATIVE	None	20155	344	113	23374094	23388347	-1	RNPC4	FLJ10482
14	RBM23	ENSG00000100461	ENST00000553738	retained_intron	KNOWN	None	20155	None	None	23374303	23375162	-1	RNPC4	FLJ10482
14	RBM23	ENSG00000100461	ENST00000555722	protein_coding	PUTATIVE	None	20155	152	49	23374367	23388374	-1	RNPC4	FLJ10482
14	RBM23	ENSG00000100461	ENST00000553920	processed_transcript	KNOWN	None	20155	None	None	23374543	23388345	-1	RNPC4	FLJ10482
14	RBM23	ENSG00000100461	ENST00000557227	protein_coding	PUTATIVE	None	20155	63	20	23374545	23388391	-1	RNPC4	FLJ10482
14	RBM23	ENSG00000100461	ENST00000555714	processed_transcript	KNOWN	None	20155	None	None	23374605	23388358	-1	RNPC4	FLJ10482
14	RBM23	ENSG00000100461	ENST00000554256	protein_coding	KNOWN	None	20155	432	143	23374632	23388346	-1	RNPC4	FLJ10482
14	RBM23	ENSG00000100461	ENST00000556687	retained_intron	KNOWN	None	20155	None	None	23374794	23388358	-1	RNPC4	FLJ10482
14	RBM23	ENSG00000100461	ENST00000553902	retained_intron	KNOWN	None	20155	None	None	23375224	23388358	-1	RNPC4	FLJ10482
14	RBM23	ENSG00000100461	ENST00000554955	retained_intron	KNOWN	None	20155	None	None	23375237	23388319	-1	RNPC4	FLJ10482
14	RBM23	ENSG00000100461	ENST00000556984	processed_transcript	KNOWN	None	20155	None	None	23375410	23388358	-1	RNPC4	FLJ10482
14	RBM23	ENSG00000100461	ENST00000557549	protein_coding	KNOWN	None	20155	303	100	23375454	23388358	-1	RNPC4	FLJ10482
14	RBM23	ENSG00000100461	ENST00000555676	protein_coding	KNOWN	None	20155	300	99	23375457	23388358	-1	RNPC4	FLJ10482
14	RBM23	ENSG00000100461	ENST00000557571	protein_coding	KNOWN	None	20155	273	90	23375484	23388358	-1	RNPC4	FLJ10482
14	RBM23	ENSG00000100461	ENST00000556862	protein_coding	KNOWN	None	20155	278	91	23375527	23388366	-1	RNPC4	FLJ10482
14	RBM23	ENSG00000100461	ENST00000557464	protein_coding	KNOWN	None	20155	198	65	23375559	23388358	-1	RNPC4	FLJ10482
14	RBM23	ENSG00000100461	ENST00000554618	protein_coding	KNOWN	None	20155	227	74	23377542	23388358	-1	RNPC4	FLJ10482
14	RBM23	ENSG00000100461	ENST00000556365	processed_transcript	KNOWN	None	20155	None	None	23377741	23388358	-1	RNPC4	FLJ10482
14	RBM23	ENSG00000100461	ENST00000553876	protein_coding	KNOWN	None	20155	180	59	23378691	23386765	-1	RNPC4	FLJ10482
14	RBM23	ENSG00000100461	ENST00000555691	protein_coding	KNOWN	None	20155	172	56	23378699	23381001	-1	RNPC4	FLJ10482
14	RBM23	ENSG00000100461	ENST00000553777	processed_transcript	PUTATIVE	None	20155	None	None	23386773	23388296	-1	RNPC4	FLJ10482
4	None	ENSG00000251432	ENST00000505133	lincRNA	KNOWN	None	None	None	None	129213906	129387816	1	None	None
4	None	ENSG00000251432	ENST00000509834	lincRNA	KNOWN	None	None	None	None	129214088	129396151	1	None	None
4	None	ENSG00000251432	ENST00000511497	lincRNA	KNOWN	None	None	None	None	129349225	129440549	1	None	None
4	None	ENSG00000251432	ENST00000504984	lincRNA	KNOWN	None	None	None	None	129376324	129391802	1	None	None
4	None	ENSG00000251432	ENST00000513851	lincRNA	KNOWN	None	None	None	None	129391661	129392235	1	None	None
17	SRP68	ENSG00000167881	ENST00000307877	protein_coding	KNOWN	CCDS11738	11302	1884	627	74035184	74068734	-1	None	None
17	SRP68	ENSG00000167881	ENST00000588643	retained_intron	KNOWN	None	11302	None	None	74035185	74037709	-1	None	None
17	SRP68	ENSG00000167881	ENST00000542536	processed_transcript	KNOWN	None	11302	None	None	74035187	74049737	-1	None	None
17	SRP68	ENSG00000167881	ENST00000539137	protein_coding	NOVEL	CCDS58601	11302	1770	589	74035187	74068588	-1	None	None
17	SRP68	ENSG00000167881	ENST00000592704	nonsense_mediated_decay	KNOWN	None	11302	165	54	74035632	74068578	-1	None	None
17	SRP68	ENSG00000167881	ENST00000586859	retained_intron	KNOWN	None	11302	None	None	74039456	74042142	-1	None	None
17	SRP68	ENSG00000167881	ENST00000588736	retained_intron	KNOWN	None	11302	None	None	74040835	74045728	-1	None	None
17	SRP68	ENSG00000167881	ENST00000590833	retained_intron	KNOWN	None	11302	None	None	74053478	74056823	-1	None	None
17	SRP68	ENSG00000167881	ENST00000587864	retained_intron	KNOWN	None	11302	None	None	74057231	74060208	-1	None	None
17	SRP68	ENSG00000167881	ENST00000585539	processed_transcript	KNOWN	None	11302	None	None	74057256	74060103	-1	None	None
17	SRP68	ENSG00000167881	ENST00000591272	nonsense_mediated_decay	KNOWN	None	11302	192	63	74060119	74068588	-1	None	None
17	SRP68	ENSG00000167881	ENST00000355113	protein_coding	KNOWN	None	11302	1581	526	74035632	74068578	-1	None	None
17	SRP68	ENSG00000167881	ENST00000602720	protein_coding	KNOWN	CCDS58600	11302	867	288	74035187	74049729	-1	None	None
9	None	ENSG00000230601	ENST00000436752	lincRNA	KNOWN	None	None	None	None	117428716	117434029	-1	None	None
9	None	ENSG00000233244	ENST00000453998	lincRNA	KNOWN	None	None	None	None	43027748	43032877	-1	None	None
11	MRGPRG	ENSG00000182170	ENST00000332314	protein_coding	KNOWN	CCDS44520	24829	870	289	3239174	3240043	-1	GPR169	mrgG
X	DRP2	ENSG00000102385	ENST00000402866	protein_coding	KNOWN	CCDS14480	3032	2874	957	100474758	100519486	1	None	None
X	DRP2	ENSG00000102385	ENST00000395209	protein_coding	KNOWN	CCDS14480	3032	2874	957	100474775	100519486	1	None	None
X	DRP2	ENSG00000102385	ENST00000372916	nonsense_mediated_decay	KNOWN	None	3032	1062	353	100474984	100506809	1	None	None
X	DRP2	ENSG00000102385	ENST00000538510	protein_coding	KNOWN	CCDS14480	3032	2874	957	100486534	100519485	1	None	None
X	DRP2	ENSG00000102385	ENST00000541709	protein_coding	KNOWN	CCDS55465	3032	2640	879	100474933	100519485	1	None	None
11	None	ENSG00000259159	ENST00000530681	nonsense_mediated_decay	KNOWN	CCDS8421	None	1740	579	119209652	119217368	-1	None	None
9	SNX18P4	ENSG00000234416	ENST00000422895	unprocessed_pseudogene	KNOWN	None	39612	None	None	43062929	43063757	-1	None	None
3	PHLDB2	ENSG00000144824	ENST00000393923	protein_coding	KNOWN	CCDS46885	29573	3714	1237	111451344	111695114	1	None	LL5beta, FLJ21791, LL5b
3	PHLDB2	ENSG00000144824	ENST00000431670	protein_coding	KNOWN	CCDS46886	29573	3762	1253	111578027	111695364	1	None	LL5beta, FLJ21791, LL5b
3	PHLDB2	ENSG00000144824	ENST00000498699	protein_coding	KNOWN	None	29573	3346	1114	111578138	111688696	1	None	LL5beta, FLJ21791, LL5b
3	PHLDB2	ENSG00000144824	ENST00000478922	protein_coding	PUTATIVE	None	29573	1560	519	111578597	111604642	1	None	LL5beta, FLJ21791, LL5b
3	PHLDB2	ENSG00000144824	ENST00000477695	protein_coding	PUTATIVE	None	29573	1746	581	111578607	111636510	1	None	LL5beta, FLJ21791, LL5b
3	PHLDB2	ENSG00000144824	ENST00000393925	protein_coding	KNOWN	CCDS46886	29573	3762	1253	111578643	111695094	1	None	LL5beta, FLJ21791, LL5b
3	PHLDB2	ENSG00000144824	ENST00000481953	protein_coding	KNOWN	CCDS2962	29573	3633	1210	111602810	111695136	1	None	LL5beta, FLJ21791, LL5b
3	PHLDB2	ENSG00000144824	ENST00000495180	protein_coding	PUTATIVE	None	29573	2235	744	111630457	111695312	1	None	LL5beta, FLJ21791, LL5b
3	PHLDB2	ENSG00000144824	ENST00000478733	processed_transcript	KNOWN	None	29573	None	None	111651214	111668596	1	None	LL5beta, FLJ21791, LL5b
3	PHLDB2	ENSG00000144824	ENST00000491694	retained_intron	KNOWN	None	29573	None	None	111658374	111664287	1	None	LL5beta, FLJ21791, LL5b
3	PHLDB2	ENSG00000144824	ENST00000478584	retained_intron	KNOWN	None	29573	None	None	111672619	111686600	1	None	LL5beta, FLJ21791, LL5b
3	PHLDB2	ENSG00000144824	ENST00000460365	retained_intron	KNOWN	None	29573	None	None	111672674	111676091	1	None	LL5beta, FLJ21791, LL5b
3	PHLDB2	ENSG00000144824	ENST00000470699	processed_transcript	KNOWN	None	29573	None	None	111676886	111685550	1	None	LL5beta, FLJ21791, LL5b
3	PHLDB2	ENSG00000144824	ENST00000486886	retained_intron	KNOWN	None	29573	None	None	111680792	111695300	1	None	LL5beta, FLJ21791, LL5b
3	PHLDB2	ENSG00000144824	ENST00000412622	protein_coding	KNOWN	CCDS2962	29573	3633	1210	111578027	111695362	1	None	LL5beta, FLJ21791, LL5b
4	None	ENSG00000248980	ENST00000512634	antisense	KNOWN	None	None	None	None	177229419	177241609	-1	None	None
10	LINC00843	ENSG00000178440	ENST00000429104	lincRNA	KNOWN	None	45009	None	None	51732523	51741130	1	None	None
10	LINC00843	ENSG00000178440	ENST00000444438	lincRNA	KNOWN	None	45009	None	None	51732595	51741813	1	None	None
9	None	ENSG00000230284	ENST00000412010	processed_pseudogene	KNOWN	None	None	None	None	117458202	117458595	-1	None	None
9	None	ENSG00000232863	ENST00000420727	processed_pseudogene	KNOWN	None	None	None	None	43065382	43065609	1	None	None
6	RN7SL285P	ENSG00000243313	ENST00000496478	misc_RNA	KNOWN	None	46301	None	None	37800698	37800961	-1	None	None
9	None	ENSG00000221734	ENST00000408807	miRNA	NOVEL	None	None	None	None	117554474	117554546	1	None	None
6	RNU1-87P	ENSG00000200597	ENST00000363727	snRNA	KNOWN	None	48429	None	None	37883349	37883518	1	None	None
9	None	ENSG00000237587	ENST00000439245	antisense	KNOWN	None	None	None	None	43102670	43113375	1	None	None
9	None	ENSG00000237587	ENST00000453946	antisense	KNOWN	None	None	None	None	43102670	43113526	1	None	None
10	RNA5SP317	ENSG00000222108	ENST00000410176	rRNA	KNOWN	None	43217	None	None	51739425	51739540	-1	RN5S317	None
9	None	ENSG00000229817	ENST00000380194	processed_pseudogene	KNOWN	None	None	None	None	117607874	117610865	1	None	None
HSCHR6_MHC_SSTO	KIFC1	ENSG00000233450	ENST00000448818	protein_coding	KNOWN	None	6389	2022	673	33498671	33517062	1	KNSL2	HSET
HSCHR6_MHC_SSTO	KIFC1	ENSG00000233450	ENST00000426791	protein_coding	KNOWN	None	6389	609	202	33498996	33510997	1	KNSL2	HSET
HSCHR6_MHC_SSTO	KIFC1	ENSG00000233450	ENST00000467671	processed_transcript	KNOWN	None	6389	None	None	33507230	33511004	1	KNSL2	HSET
HSCHR6_MHC_SSTO	KIFC1	ENSG00000233450	ENST00000492385	retained_intron	KNOWN	None	6389	None	None	33513359	33514228	1	KNSL2	HSET
9	NUP214	ENSG00000126883	ENST00000359428	protein_coding	KNOWN	CCDS6940	8064	6273	2090	134000948	134110057	1	None	CAIN, CAN, D9S46E, N214
9	NUP214	ENSG00000126883	ENST00000411637	protein_coding	KNOWN	None	8064	6243	2080	134000973	134110050	1	None	CAIN, CAN, D9S46E, N214
9	NUP214	ENSG00000126883	ENST00000531584	protein_coding	PUTATIVE	None	8064	156	51	134001467	134004698	1	None	CAIN, CAN, D9S46E, N214
9	NUP214	ENSG00000126883	ENST00000526412	processed_transcript	KNOWN	None	8064	None	None	134003915	134006223	1	None	CAIN, CAN, D9S46E, N214
9	NUP214	ENSG00000126883	ENST00000525561	retained_intron	KNOWN	None	8064	None	None	134008033	134010653	1	None	CAIN, CAN, D9S46E, N214
9	NUP214	ENSG00000126883	ENST00000530843	processed_transcript	KNOWN	None	8064	None	None	134008584	134014736	1	None	CAIN, CAN, D9S46E, N214
9	NUP214	ENSG00000126883	ENST00000530863	protein_coding	NOVEL	None	8064	560	185	134011375	134021580	1	None	CAIN, CAN, D9S46E, N214
9	NUP214	ENSG00000126883	ENST00000525980	retained_intron	KNOWN	None	8064	None	None	134020089	134071045	1	None	CAIN, CAN, D9S46E, N214
9	NUP214	ENSG00000126883	ENST00000530630	processed_transcript	KNOWN	None	8064	None	None	134025338	134027271	1	None	CAIN, CAN, D9S46E, N214
9	NUP214	ENSG00000126883	ENST00000489260	retained_intron	KNOWN	None	8064	None	None	134038487	134039936	1	None	CAIN, CAN, D9S46E, N214
9	NUP214	ENSG00000126883	ENST00000526346	nonsense_mediated_decay	KNOWN	None	8064	423	140	134049555	134067679	1	None	CAIN, CAN, D9S46E, N214
9	NUP214	ENSG00000126883	ENST00000531929	processed_transcript	KNOWN	None	8064	None	None	134051107	134072717	1	None	CAIN, CAN, D9S46E, N214
9	NUP214	ENSG00000126883	ENST00000524578	retained_intron	KNOWN	None	8064	None	None	134062501	134070728	1	None	CAIN, CAN, D9S46E, N214
9	NUP214	ENSG00000126883	ENST00000453861	nonsense_mediated_decay	KNOWN	None	8064	2903	966	134062699	134109088	1	None	CAIN, CAN, D9S46E, N214
9	NUP214	ENSG00000126883	ENST00000470765	processed_transcript	KNOWN	None	8064	None	None	134062745	134073074	1	None	CAIN, CAN, D9S46E, N214
9	NUP214	ENSG00000126883	ENST00000483497	protein_coding	PUTATIVE	None	8064	2751	916	134065508	134109090	1	None	CAIN, CAN, D9S46E, N214
9	NUP214	ENSG00000126883	ENST00000465486	processed_transcript	KNOWN	None	8064	None	None	134065513	134073230	1	None	CAIN, CAN, D9S46E, N214
9	NUP214	ENSG00000126883	ENST00000531600	protein_coding	PUTATIVE	None	8064	1485	494	134065526	134074035	1	None	CAIN, CAN, D9S46E, N214
9	NUP214	ENSG00000126883	ENST00000528114	processed_transcript	KNOWN	None	8064	None	None	134065530	134073000	1	None	CAIN, CAN, D9S46E, N214
9	NUP214	ENSG00000126883	ENST00000525384	retained_intron	KNOWN	None	8064	None	None	134067511	134073273	1	None	CAIN, CAN, D9S46E, N214
9	NUP214	ENSG00000126883	ENST00000529286	processed_transcript	PUTATIVE	None	8064	None	None	134072725	134073719	1	None	CAIN, CAN, D9S46E, N214
9	NUP214	ENSG00000126883	ENST00000530491	retained_intron	KNOWN	None	8064	None	None	134097885	134103615	1	None	CAIN, CAN, D9S46E, N214
9	NUP214	ENSG00000126883	ENST00000498010	protein_coding	PUTATIVE	None	8064	342	113	134103562	134107856	1	None	CAIN, CAN, D9S46E, N214
9	NUP214	ENSG00000126883	ENST00000476004	protein_coding	PUTATIVE	None	8064	436	144	134103611	134109094	1	None	CAIN, CAN, D9S46E, N214
9	NUP214	ENSG00000126883	ENST00000528406	protein_coding	KNOWN	None	8064	237	78	134103681	134109091	1	None	CAIN, CAN, D9S46E, N214
9	NUP214	ENSG00000126883	ENST00000496921	retained_intron	KNOWN	None	8064	None	None	134103905	134108395	1	None	CAIN, CAN, D9S46E, N214
9	NUP214	ENSG00000126883	ENST00000451030	protein_coding	KNOWN	None	8064	6276	2091	134000981	134109088	1	None	CAIN, CAN, D9S46E, N214
11	MRGPRE	ENSG00000184350	ENST00000389832	protein_coding	KNOWN	None	30694	939	312	3248928	3253616	-1	GPR167	mrgE
11	MRGPRE	ENSG00000184350	ENST00000436689	protein_coding	KNOWN	CCDS41603	30694	936	311	3249041	3253616	-1	GPR167	mrgE
9	RNU6-538P	ENSG00000238415	ENST00000459237	snRNA	KNOWN	None	47501	None	None	43122799	43122905	-1	None	None
21	TFF3	ENSG00000160180	ENST00000518498	protein_coding	KNOWN	CCDS33565	11757	285	94	43731777	43735761	-1	None	HITF, ITF
21	TFF3	ENSG00000160180	ENST00000489676	processed_transcript	PUTATIVE	None	11757	None	None	43732163	43733796	-1	None	HITF, ITF
21	TFF3	ENSG00000160180	ENST00000398431	protein_coding	NOVEL	None	11757	376	124	43732163	43735446	-1	None	HITF, ITF
21	TFF3	ENSG00000160180	ENST00000291525	protein_coding	KNOWN	None	11757	393	130	43731777	43735706	-1	None	HITF, ITF
19	None	ENSG00000223201	ENST00000411269	miRNA	NOVEL	None	None	None	None	15163741	15163885	1	None	None
9	None	ENSG00000233074	ENST00000453939	lincRNA	KNOWN	None	None	None	None	43140537	43142739	-1	None	None
9	None	ENSG00000224303	ENST00000447613	lincRNA	KNOWN	None	None	None	None	43144980	43160008	-1	None	None
13	FBXL3	ENSG00000005812	ENST00000485797	processed_transcript	KNOWN	None	13599	None	None	77566740	77589716	-1	FBXL3A	FBL3, FBL3A
13	FBXL3	ENSG00000005812	ENST00000477982	processed_transcript	KNOWN	None	13599	None	None	77575696	77592821	-1	FBXL3A	FBL3, FBL3A
13	FBXL3	ENSG00000005812	ENST00000355619	protein_coding	KNOWN	CCDS9457	13599	1287	428	77579389	77601285	-1	FBXL3A	FBL3, FBL3A
13	FBXL3	ENSG00000005812	ENST00000417323	protein_coding	PUTATIVE	None	13599	723	240	77581700	77601330	-1	FBXL3A	FBL3, FBL3A
13	FBXL3	ENSG00000005812	ENST00000470210	processed_transcript	KNOWN	None	13599	None	None	77589300	77592879	-1	FBXL3A	FBL3, FBL3A
13	FBXL3	ENSG00000005812	ENST00000472949	processed_transcript	KNOWN	None	13599	None	None	77589646	77601220	-1	FBXL3A	FBL3, FBL3A
4	None	ENSG00000248480	ENST00000503966	processed_pseudogene	KNOWN	None	None	None	None	177552543	177554382	-1	None	None
22	SAMM50	ENSG00000100347	ENST00000350028	protein_coding	KNOWN	CCDS14055	24276	1410	469	44351301	44392413	1	None	CGI-51, TRG-3, YNL026W, OMP85, TOB55
22	SAMM50	ENSG00000100347	ENST00000493161	processed_transcript	KNOWN	None	24276	None	None	44351322	44369202	1	None	CGI-51, TRG-3, YNL026W, OMP85, TOB55
22	SAMM50	ENSG00000100347	ENST00000474323	retained_intron	KNOWN	None	24276	None	None	44370475	44392409	1	None	CGI-51, TRG-3, YNL026W, OMP85, TOB55
22	SAMM50	ENSG00000100347	ENST00000494795	retained_intron	KNOWN	None	24276	None	None	44382224	44392409	1	None	CGI-51, TRG-3, YNL026W, OMP85, TOB55
22	SAMM50	ENSG00000100347	ENST00000465768	processed_transcript	KNOWN	None	24276	None	None	44386208	44406411	1	None	CGI-51, TRG-3, YNL026W, OMP85, TOB55
22	SAMM50	ENSG00000100347	ENST00000493621	processed_transcript	KNOWN	None	24276	None	None	44391271	44392256	1	None	CGI-51, TRG-3, YNL026W, OMP85, TOB55
22	SAMM50	ENSG00000100347	ENST00000396202	protein_coding	KNOWN	None	24276	780	259	44351426	44392405	1	None	CGI-51, TRG-3, YNL026W, OMP85, TOB55
5	NUDT12	ENSG00000112874	ENST00000230792	protein_coding	KNOWN	CCDS4096	18826	1389	462	102884556	102898494	-1	None	DKFZP761I172
5	NUDT12	ENSG00000112874	ENST00000507423	protein_coding	NOVEL	None	18826	1335	444	102886209	102898490	-1	None	DKFZP761I172
5	NUDT12	ENSG00000112874	ENST00000515407	processed_transcript	KNOWN	None	18826	None	None	102890203	102891790	-1	None	DKFZP761I172
5	NUDT12	ENSG00000112874	ENST00000508889	retained_intron	KNOWN	None	18826	None	None	102895106	102898491	-1	None	DKFZP761I172
16	None	ENSG00000268317	ENST00000600389	protein_coding	NOVEL	None	None	54	17	56662971	56666150	-1	None	None
12	PPTC7	ENSG00000196850	ENST00000354300	protein_coding	KNOWN	CCDS9149	30695	915	304	110969120	111021125	-1	None	TA-PP2C
12	PPTC7	ENSG00000196850	ENST00000548721	retained_intron	KNOWN	None	30695	None	None	110974574	110984574	-1	None	TA-PP2C
9	SLC31A1	ENSG00000136868	ENST00000374212	protein_coding	KNOWN	CCDS6789	11016	573	190	115983842	116026772	1	COPT1	hCTR1, CTR1
9	SLC31A1	ENSG00000136868	ENST00000496650	processed_transcript	KNOWN	None	11016	None	None	115983867	115989940	1	COPT1	hCTR1, CTR1
9	SLC31A1	ENSG00000136868	ENST00000374210	protein_coding	KNOWN	None	11016	567	188	115983808	116028674	1	COPT1	hCTR1, CTR1
4	None	ENSG00000248388	ENST00000504017	antisense	KNOWN	None	None	None	None	177590772	177627223	1	None	None
4	None	ENSG00000248388	ENST00000509194	antisense	KNOWN	None	None	None	None	177590772	177627299	1	None	None
17	KRT19	ENSG00000171345	ENST00000361566	protein_coding	KNOWN	CCDS11399	6436	1203	400	39679869	39684560	-1	None	K19, CK19, K1CS, MGC15366
17	KRT19	ENSG00000171345	ENST00000468880	retained_intron	KNOWN	None	6436	None	None	39679966	39681245	-1	None	K19, CK19, K1CS, MGC15366
17	KRT19	ENSG00000171345	ENST00000593096	protein_coding	PUTATIVE	None	6436	543	180	39680127	39681697	-1	None	K19, CK19, K1CS, MGC15366
17	KRT19	ENSG00000171345	ENST00000471565	retained_intron	KNOWN	None	6436	None	None	39680240	39681003	-1	None	K19, CK19, K1CS, MGC15366
17	KRT19	ENSG00000171345	ENST00000479031	retained_intron	KNOWN	None	6436	None	None	39680745	39681473	-1	None	K19, CK19, K1CS, MGC15366
17	KRT19	ENSG00000171345	ENST00000455635	protein_coding	NOVEL	None	6436	589	195	39680771	39684551	-1	None	K19, CK19, K1CS, MGC15366
17	KRT19	ENSG00000171345	ENST00000462611	retained_intron	KNOWN	None	6436	None	None	39681230	39681924	-1	None	K19, CK19, K1CS, MGC15366
9	MEP1AP3	ENSG00000234344	ENST00000447493	unprocessed_pseudogene	KNOWN	None	39137	None	None	43162901	43169024	1	None	None
19	ZNF90	ENSG00000213988	ENST00000469078	nonsense_mediated_decay	KNOWN	None	13165	339	112	20188803	20237827	1	None	HTF9
19	ZNF90	ENSG00000213988	ENST00000474284	processed_transcript	KNOWN	None	13165	None	None	20188803	20237885	1	None	HTF9
19	ZNF90	ENSG00000213988	ENST00000473524	nonsense_mediated_decay	KNOWN	None	13165	231	76	20188814	20228853	1	None	HTF9
19	ZNF90	ENSG00000213988	ENST00000418063	protein_coding	KNOWN	CCDS46028	13165	1806	601	20188830	20230561	1	None	HTF9
19	ZNF90	ENSG00000213988	ENST00000492328	processed_transcript	KNOWN	None	13165	None	None	20188846	20191128	1	None	HTF9
19	ZNF90	ENSG00000213988	ENST00000484032	retained_intron	KNOWN	None	13165	None	None	20231633	20235952	1	None	HTF9
9	SPATA31D3	ENSG00000186788	ENST00000334208	processed_transcript	KNOWN	None	38603	None	None	84558474	84565009	1	FAM75D3	FLJ44082
9	SPATA31D3	ENSG00000186788	ENST00000445385	transcribed_unprocessed_pseudogene	KNOWN	None	38603	None	None	84558501	84564953	1	FAM75D3	FLJ44082
12	CS	ENSG00000062485	ENST00000549143	nonsense_mediated_decay	KNOWN	None	2422	150	49	56665483	56694102	-1	None	None
12	CS	ENSG00000062485	ENST00000548567	protein_coding	PUTATIVE	None	2422	1203	400	56665485	56694175	-1	None	None
12	CS	ENSG00000062485	ENST00000351328	protein_coding	KNOWN	CCDS8913	2422	1401	466	56665485	56694176	-1	None	None
12	CS	ENSG00000062485	ENST00000548746	protein_coding	PUTATIVE	None	2422	372	123	56665487	56668599	-1	None	None
12	CS	ENSG00000062485	ENST00000542324	protein_coding	PUTATIVE	None	2422	1362	453	56666592	56694114	-1	None	None
12	CS	ENSG00000062485	ENST00000546621	retained_intron	KNOWN	None	2422	None	None	56666980	56679875	-1	None	None
12	CS	ENSG00000062485	ENST00000546891	nonsense_mediated_decay	KNOWN	None	2422	573	190	56667530	56679792	-1	None	None
12	CS	ENSG00000062485	ENST00000546585	retained_intron	KNOWN	None	2422	None	None	56667800	56669725	-1	None	None
12	CS	ENSG00000062485	ENST00000548849	nonsense_mediated_decay	KNOWN	None	2422	396	131	56668785	56694160	-1	None	None
12	CS	ENSG00000062485	ENST00000552331	retained_intron	KNOWN	None	2422	None	None	56669545	56676294	-1	None	None
12	CS	ENSG00000062485	ENST00000549221	protein_coding	NOVEL	None	2422	421	139	56669922	56694117	-1	None	None
12	CS	ENSG00000062485	ENST00000546930	protein_coding	NOVEL	None	2422	439	145	56669931	56694114	-1	None	None
12	CS	ENSG00000062485	ENST00000548041	protein_coding	NOVEL	None	2422	447	148	56669932	56694099	-1	None	None
12	CS	ENSG00000062485	ENST00000551936	protein_coding	PUTATIVE	None	2422	434	143	56669936	56693790	-1	None	None
12	CS	ENSG00000062485	ENST00000550734	protein_coding	PUTATIVE	None	2422	434	143	56669936	56694125	-1	None	None
12	CS	ENSG00000062485	ENST00000551253	protein_coding	PUTATIVE	None	2422	422	139	56669948	56693807	-1	None	None
12	CS	ENSG00000062485	ENST00000547449	retained_intron	KNOWN	None	2422	None	None	56676121	56677605	-1	None	None
12	CS	ENSG00000062485	ENST00000547912	retained_intron	KNOWN	None	2422	None	None	56676169	56677642	-1	None	None
12	CS	ENSG00000062485	ENST00000552688	protein_coding	NOVEL	None	2422	473	156	56676211	56694092	-1	None	None
12	CS	ENSG00000062485	ENST00000551473	protein_coding	PUTATIVE	None	2422	362	119	56676232	56693807	-1	None	None
12	CS	ENSG00000062485	ENST00000547298	protein_coding	PUTATIVE	None	2422	353	116	56676241	56693758	-1	None	None
12	CS	ENSG00000062485	ENST00000551137	protein_coding	PUTATIVE	None	2422	344	113	56676250	56694100	-1	None	None
12	CS	ENSG00000062485	ENST00000550655	protein_coding	KNOWN	None	2422	536	177	56676256	56694163	-1	None	None
12	CS	ENSG00000062485	ENST00000551968	protein_coding	NOVEL	None	2422	427	141	56676281	56694100	-1	None	None
12	CS	ENSG00000062485	ENST00000550159	protein_coding	PUTATIVE	None	2422	242	79	56676352	56694118	-1	None	None
12	CS	ENSG00000062485	ENST00000551430	protein_coding	PUTATIVE	None	2422	200	65	56676645	56694175	-1	None	None
12	CS	ENSG00000062485	ENST00000552222	nonsense_mediated_decay	KNOWN	None	2422	228	75	56676704	56694101	-1	None	None
12	CS	ENSG00000062485	ENST00000547283	retained_intron	KNOWN	None	2422	None	None	56677576	56694175	-1	None	None
12	CS	ENSG00000062485	ENST00000550996	retained_intron	KNOWN	None	2422	None	None	56679944	56694175	-1	None	None
12	CS	ENSG00000062485	ENST00000551155	retained_intron	KNOWN	None	2422	None	None	56679975	56685542	-1	None	None
12	CS	ENSG00000062485	ENST00000550700	retained_intron	KNOWN	None	2422	None	None	56680023	56694120	-1	None	None
12	CS	ENSG00000062485	ENST00000551441	retained_intron	KNOWN	None	2422	None	None	56680051	56694117	-1	None	None
12	CS	ENSG00000062485	ENST00000550044	retained_intron	KNOWN	None	2422	None	None	56680066	56694067	-1	None	None
18	CETN1	ENSG00000177143	ENST00000327228	protein_coding	KNOWN	CCDS11820	1866	519	172	580367	581524	1	CETN	CEN1
4	None	ENSG00000244004	ENST00000468675	processed_pseudogene	KNOWN	None	None	None	None	9564791	9565570	1	None	None
X	XIAP	ENSG00000101966	ENST00000422098	protein_coding	KNOWN	None	592	49	15	122993574	123019561	1	API3, BIRC4	hILP
X	XIAP	ENSG00000101966	ENST00000481776	processed_transcript	KNOWN	None	592	None	None	122993614	123040870	1	API3, BIRC4	hILP
X	XIAP	ENSG00000101966	ENST00000497906	processed_transcript	KNOWN	None	592	None	None	122993677	123034416	1	API3, BIRC4	hILP
X	XIAP	ENSG00000101966	ENST00000468691	processed_transcript	KNOWN	None	592	None	None	122993727	123041101	1	API3, BIRC4	hILP
X	XIAP	ENSG00000101966	ENST00000430625	protein_coding	KNOWN	None	592	468	155	122993728	123019980	1	API3, BIRC4	hILP
X	XIAP	ENSG00000101966	ENST00000371199	protein_coding	KNOWN	CCDS14606	592	1494	497	122993877	123047829	1	API3, BIRC4	hILP
X	XIAP	ENSG00000101966	ENST00000497640	processed_transcript	KNOWN	None	592	None	None	122994045	123040848	1	API3, BIRC4	hILP
X	XIAP	ENSG00000101966	ENST00000355640	protein_coding	KNOWN	CCDS14606	592	1494	497	122994122	123047815	1	API3, BIRC4	hILP
X	XIAP	ENSG00000101966	ENST00000468503	processed_transcript	PUTATIVE	None	592	None	None	122994304	123022533	1	API3, BIRC4	hILP
X	XIAP	ENSG00000101966	ENST00000496602	processed_transcript	PUTATIVE	None	592	None	None	123046610	123047465	1	API3, BIRC4	hILP
X	XIAP	ENSG00000101966	ENST00000434753	protein_coding	KNOWN	CCDS14606	592	1494	497	122993662	123041031	1	API3, BIRC4	hILP
4	None	ENSG00000249799	ENST00000505417	processed_pseudogene	KNOWN	None	None	None	None	9585566	9585755	-1	None	None
18	None	ENSG00000215527	ENST00000585853	processed_transcript	PUTATIVE	None	None	None	None	12658042	12658712	1	None	None
18	None	ENSG00000215527	ENST00000400514	protein_coding	PUTATIVE	None	None	159	52	12658192	12658892	1	None	None
18	None	ENSG00000215527	ENST00000400512	protein_coding	PUTATIVE	None	None	84	27	12658245	12658712	1	None	None
11	E2F8	ENSG00000129173	ENST00000527884	protein_coding	KNOWN	CCDS7849	24727	2604	867	19245610	19263167	-1	None	FLJ23311
11	E2F8	ENSG00000129173	ENST00000250024	protein_coding	KNOWN	CCDS7849	24727	2604	867	19246082	19262498	-1	None	FLJ23311
11	E2F8	ENSG00000129173	ENST00000529188	processed_transcript	PUTATIVE	None	24727	None	None	19247067	19247625	-1	None	FLJ23311
11	E2F8	ENSG00000129173	ENST00000532666	protein_coding	NOVEL	None	24727	418	138	19258894	19263145	-1	None	FLJ23311
17	STAT5B	ENSG00000173757	ENST00000293328	protein_coding	KNOWN	CCDS11423	11367	2364	787	40351186	40428424	-1	None	None
17	STAT5B	ENSG00000173757	ENST00000498674	retained_intron	KNOWN	None	11367	None	None	40354121	40354971	-1	None	None
17	STAT5B	ENSG00000173757	ENST00000481253	retained_intron	KNOWN	None	11367	None	None	40359577	40362610	-1	None	None
17	STAT5B	ENSG00000173757	ENST00000468496	retained_intron	KNOWN	None	11367	None	None	40359600	40369300	-1	None	None
17	STAT5B	ENSG00000173757	ENST00000481517	retained_intron	KNOWN	None	11367	None	None	40362435	40369889	-1	None	None
17	STAT5B	ENSG00000173757	ENST00000468312	retained_intron	KNOWN	None	11367	None	None	40369708	40428424	-1	None	None
17	STAT5B	ENSG00000173757	ENST00000415845	protein_coding	KNOWN	None	11367	469	155	40375481	40428725	-1	None	None
1	FAM131C	ENSG00000185519	ENST00000375662	protein_coding	KNOWN	CCDS41270	26717	843	280	16384264	16400121	-1	C1orf117	FLJ36766
1	FAM131C	ENSG00000185519	ENST00000494078	processed_transcript	KNOWN	None	26717	None	None	16384774	16400127	-1	C1orf117	FLJ36766
16	MT1M	ENSG00000205364	ENST00000379818	protein_coding	KNOWN	CCDS42166	14296	186	61	56666145	56667898	1	MT1, MT1K	None
16	MT1M	ENSG00000205364	ENST00000570233	protein_coding	PUTATIVE	None	14296	207	68	56666619	56667430	1	MT1, MT1K	None
HSCHR6_MHC_MCF	ATAT1	ENSG00000231257	ENST00000417183	protein_coding	KNOWN	None	21186	903	300	30673078	30690917	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_MCF	ATAT1	ENSG00000231257	ENST00000420586	protein_coding	KNOWN	None	21186	1266	421	30673092	30693061	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_MCF	ATAT1	ENSG00000231257	ENST00000445973	protein_coding	KNOWN	None	21186	933	310	30673111	30690917	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_MCF	ATAT1	ENSG00000231257	ENST00000418248	protein_coding	KNOWN	None	21186	972	323	30673112	30690917	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_MCF	ATAT1	ENSG00000231257	ENST00000432643	protein_coding	KNOWN	None	21186	1230	409	30673122	30693061	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_MCF	ATAT1	ENSG00000231257	ENST00000450220	protein_coding	KNOWN	None	21186	1002	333	30673122	30690917	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_MCF	ATAT1	ENSG00000231257	ENST00000490845	processed_transcript	KNOWN	None	21186	None	None	30673129	30693061	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_MCF	ATAT1	ENSG00000231257	ENST00000493986	retained_intron	KNOWN	None	21186	None	None	30673151	30686934	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_MCF	ATAT1	ENSG00000231257	ENST00000466585	retained_intron	KNOWN	None	21186	None	None	30673156	30693061	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_MCF	ATAT1	ENSG00000231257	ENST00000463945	processed_transcript	KNOWN	None	21186	None	None	30674636	30692640	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_MCF	ATAT1	ENSG00000231257	ENST00000475404	retained_intron	KNOWN	None	21186	None	None	30688060	30693061	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_MCF	ATAT1	ENSG00000231257	ENST00000473441	retained_intron	KNOWN	None	21186	None	None	30689157	30693061	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_MCF	ATAT1	ENSG00000231257	ENST00000546440	protein_coding	KNOWN	None	21186	1197	398	30673092	30693040	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
19	None	ENSG00000268564	ENST00000598450	antisense	KNOWN	None	None	None	None	15234971	15236985	1	None	None
2	KIF5C	ENSG00000168280	ENST00000435030	protein_coding	KNOWN	None	6325	2874	957	149632819	149883273	1	None	None
2	KIF5C	ENSG00000168280	ENST00000450621	protein_coding	PUTATIVE	None	6325	228	75	149803811	149818593	1	None	None
2	KIF5C	ENSG00000168280	ENST00000464066	processed_transcript	KNOWN	None	6325	None	None	149804414	149880024	1	None	None
2	KIF5C	ENSG00000168280	ENST00000460377	retained_intron	KNOWN	None	6325	None	None	149835444	149855350	1	None	None
2	KIF5C	ENSG00000168280	ENST00000482151	retained_intron	KNOWN	None	6325	None	None	149856449	149883273	1	None	None
2	KIF5C	ENSG00000168280	ENST00000414838	protein_coding	KNOWN	None	6325	2589	862	149791569	149883273	1	None	None
2	KIF5C	ENSG00000168280	ENST00000397413	protein_coding	KNOWN	None	6325	2178	725	149804457	149883273	1	None	None
4	None	ENSG00000248187	ENST00000514265	lincRNA	KNOWN	None	None	None	None	129489127	129491686	-1	None	None
3	ARF4	ENSG00000168374	ENST00000303436	protein_coding	KNOWN	CCDS2884	655	543	180	57557090	57583135	-1	ARF2	None
3	ARF4	ENSG00000168374	ENST00000496292	protein_coding	NOVEL	None	655	462	153	57557119	57583052	-1	ARF2	None
3	ARF4	ENSG00000168374	ENST00000489843	protein_coding	PUTATIVE	None	655	216	71	57557125	57583061	-1	ARF2	None
3	ARF4	ENSG00000168374	ENST00000486310	nonsense_mediated_decay	KNOWN	None	655	180	59	57557132	57583093	-1	ARF2	None
3	ARF4	ENSG00000168374	ENST00000483848	processed_transcript	KNOWN	None	655	None	None	57561275	57582925	-1	ARF2	None
3	ARF4	ENSG00000168374	ENST00000463880	protein_coding	KNOWN	None	655	381	126	57561350	57583235	-1	ARF2	None
3	ARF4	ENSG00000168374	ENST00000493378	processed_transcript	KNOWN	None	655	None	None	57569652	57583131	-1	ARF2	None
3	ARF4	ENSG00000168374	ENST00000495354	processed_transcript	PUTATIVE	None	655	None	None	57582333	57583095	-1	ARF2	None
3	ARF4	ENSG00000168374	ENST00000488156	protein_coding	KNOWN	None	655	67	21	57582801	57583947	-1	ARF2	None
19	OR10B1P	ENSG00000267961	ENST00000601666	unprocessed_pseudogene	KNOWN	None	8163	None	None	15251943	15252849	-1	OR10B2	None
9	CDC26	ENSG00000176386	ENST00000490408	processed_transcript	KNOWN	None	17839	None	None	116018115	116037829	-1	C9orf17	APC12, ANAPC12
9	CDC26	ENSG00000176386	ENST00000374206	protein_coding	KNOWN	CCDS6790	17839	258	85	116029288	116037869	-1	C9orf17	APC12, ANAPC12
4	None	ENSG00000248802	ENST00000487657	lincRNA	KNOWN	None	None	None	None	129504154	129522555	-1	None	None
4	None	ENSG00000248802	ENST00000509360	lincRNA	KNOWN	None	None	None	None	129520594	129522562	-1	None	None
17	ADAP2	ENSG00000184060	ENST00000583688	processed_transcript	PUTATIVE	None	16487	None	None	29233362	29248778	1	CENTA2	None
17	ADAP2	ENSG00000184060	ENST00000585130	nonsense_mediated_decay	KNOWN	None	16487	321	106	29248698	29285757	1	CENTA2	None
17	ADAP2	ENSG00000184060	ENST00000330889	protein_coding	KNOWN	CCDS11261	16487	1146	381	29248698	29286340	1	CENTA2	None
17	ADAP2	ENSG00000184060	ENST00000581548	protein_coding	PUTATIVE	None	16487	343	113	29248935	29276356	1	CENTA2	None
17	ADAP2	ENSG00000184060	ENST00000580525	protein_coding	NOVEL	None	16487	1164	387	29248950	29285238	1	CENTA2	None
17	ADAP2	ENSG00000184060	ENST00000581285	protein_coding	NOVEL	None	16487	1000	332	29248953	29283460	1	CENTA2	None
17	ADAP2	ENSG00000184060	ENST00000580526	nonsense_mediated_decay	KNOWN	None	16487	255	84	29248966	29276348	1	CENTA2	None
17	ADAP2	ENSG00000184060	ENST00000584828	protein_coding	NOVEL	None	16487	437	144	29272046	29285357	1	CENTA2	None
17	ADAP2	ENSG00000184060	ENST00000584989	protein_coding	NOVEL	None	16487	296	97	29272060	29283380	1	CENTA2	None
17	ADAP2	ENSG00000184060	ENST00000480980	retained_intron	KNOWN	None	16487	None	None	29281258	29283746	1	CENTA2	None
17	ADAP2	ENSG00000184060	ENST00000470962	retained_intron	KNOWN	None	16487	None	None	29281272	29285159	1	CENTA2	None
6	None	ENSG00000218521	ENST00000405398	processed_pseudogene	KNOWN	None	None	None	None	37970608	37971089	-1	None	None
HSCHR6_MHC_QBL	MDC1	ENSG00000206481	ENST00000383566	protein_coding	KNOWN	None	21163	6270	2089	30657119	30675200	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_QBL	MDC1	ENSG00000206481	ENST00000448895	protein_coding	KNOWN	None	21163	916	304	30662761	30669225	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_QBL	MDC1	ENSG00000206481	ENST00000492197	retained_intron	KNOWN	None	21163	None	None	30662895	30664996	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_QBL	MDC1	ENSG00000206481	ENST00000481547	processed_transcript	KNOWN	None	21163	None	None	30668783	30669242	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_QBL	MDC1	ENSG00000206481	ENST00000431441	protein_coding	KNOWN	None	21163	487	161	30671144	30674486	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_QBL	MDC1	ENSG00000206481	ENST00000432998	protein_coding	KNOWN	None	21163	380	125	30671251	30674758	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_QBL	MDC1	ENSG00000206481	ENST00000450033	protein_coding	KNOWN	None	21163	340	112	30671291	30674432	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_QBL	MDC1	ENSG00000206481	ENST00000552349	protein_coding	KNOWN	None	21163	5478	1825	30657120	30674992	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_QBL	MDC1	ENSG00000206481	ENST00000548827	protein_coding	KNOWN	None	21163	5409	1802	30657120	30674992	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_QBL	MDC1	ENSG00000206481	ENST00000550408	protein_coding	KNOWN	None	21163	735	244	30657707	30674992	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_QBL	MDC1	ENSG00000206481	ENST00000550688	protein_coding	KNOWN	None	21163	732	243	30670519	30674992	-1	None	NFBD1, KIAA0170, Em:AB023051.5
3	NME6	ENSG00000172113	ENST00000421967	protein_coding	KNOWN	CCDS2763	20567	585	194	48334754	48342848	-1	None	NM23-H6, IPIA-ALPHA
3	NME6	ENSG00000172113	ENST00000452211	protein_coding	NOVEL	None	20567	561	186	48335573	48342795	-1	None	NM23-H6, IPIA-ALPHA
3	NME6	ENSG00000172113	ENST00000444069	processed_transcript	KNOWN	None	20567	None	None	48335649	48342828	-1	None	NM23-H6, IPIA-ALPHA
3	NME6	ENSG00000172113	ENST00000415644	protein_coding	NOVEL	None	20567	360	119	48335687	48342884	-1	None	NM23-H6, IPIA-ALPHA
3	NME6	ENSG00000172113	ENST00000415053	protein_coding	NOVEL	None	20567	561	186	48335937	48342815	-1	None	NM23-H6, IPIA-ALPHA
3	NME6	ENSG00000172113	ENST00000442597	protein_coding	NOVEL	None	20567	561	186	48336009	48342913	-1	None	NM23-H6, IPIA-ALPHA
3	NME6	ENSG00000172113	ENST00000447314	protein_coding	PUTATIVE	None	20567	426	141	48336012	48342877	-1	None	NM23-H6, IPIA-ALPHA
3	NME6	ENSG00000172113	ENST00000418431	nonsense_mediated_decay	KNOWN	None	20567	249	82	48336014	48342877	-1	None	NM23-H6, IPIA-ALPHA
3	NME6	ENSG00000172113	ENST00000451657	protein_coding	PUTATIVE	None	20567	492	163	48336117	48343175	-1	None	NM23-H6, IPIA-ALPHA
3	NME6	ENSG00000172113	ENST00000435684	protein_coding	PUTATIVE	None	20567	492	163	48336145	48342857	-1	None	NM23-H6, IPIA-ALPHA
3	NME6	ENSG00000172113	ENST00000425930	protein_coding	NOVEL	None	20567	522	173	48336166	48342843	-1	None	NM23-H6, IPIA-ALPHA
3	NME6	ENSG00000172113	ENST00000456495	protein_coding	NOVEL	None	20567	334	110	48336625	48342852	-1	None	NM23-H6, IPIA-ALPHA
3	NME6	ENSG00000172113	ENST00000454531	nonsense_mediated_decay	KNOWN	None	20567	249	82	48336635	48342877	-1	None	NM23-H6, IPIA-ALPHA
3	NME6	ENSG00000172113	ENST00000494209	retained_intron	KNOWN	None	20567	None	None	48336695	48342878	-1	None	NM23-H6, IPIA-ALPHA
3	NME6	ENSG00000172113	ENST00000447724	protein_coding	PUTATIVE	None	20567	185	60	48338246	48342809	-1	None	NM23-H6, IPIA-ALPHA
3	NME6	ENSG00000172113	ENST00000484959	retained_intron	KNOWN	None	20567	None	None	48338967	48342886	-1	None	NM23-H6, IPIA-ALPHA
3	NME6	ENSG00000172113	ENST00000302378	retained_intron	KNOWN	None	20567	None	None	48339597	48342858	-1	None	NM23-H6, IPIA-ALPHA
3	NME6	ENSG00000172113	ENST00000495734	retained_intron	KNOWN	None	20567	None	None	48339746	48342901	-1	None	NM23-H6, IPIA-ALPHA
3	NME6	ENSG00000172113	ENST00000426689	protein_coding	KNOWN	None	20567	561	186	48335487	48340014	-1	None	NM23-H6, IPIA-ALPHA
3	NME6	ENSG00000172113	ENST00000426723	protein_coding	KNOWN	None	20567	360	119	48335591	48342848	-1	None	NM23-H6, IPIA-ALPHA
3	NME6	ENSG00000172113	ENST00000450160	protein_coding	KNOWN	None	20567	492	163	48335591	48342848	-1	None	NM23-H6, IPIA-ALPHA
10	None	ENSG00000235618	ENST00000456967	processed_transcript	KNOWN	None	None	None	None	51780942	51827563	-1	None	None
10	None	ENSG00000235618	ENST00000417804	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	51807962	51823136	-1	None	None
20	DIDO1	ENSG00000101191	ENST00000395343	protein_coding	KNOWN	CCDS33506	2680	6723	2240	61509095	61557855	-1	C20orf158, DATF1	DIO1, dJ885L7.8, FLJ11265, KIAA0333, DIO-1, BYE1
20	DIDO1	ENSG00000101191	ENST00000395340	protein_coding	KNOWN	CCDS13508	2680	3570	1189	61518566	61557855	-1	C20orf158, DATF1	DIO1, dJ885L7.8, FLJ11265, KIAA0333, DIO-1, BYE1
20	DIDO1	ENSG00000101191	ENST00000370371	protein_coding	KNOWN	CCDS13509	2680	1689	562	61536350	61569304	-1	C20orf158, DATF1	DIO1, dJ885L7.8, FLJ11265, KIAA0333, DIO-1, BYE1
20	DIDO1	ENSG00000101191	ENST00000370368	protein_coding	KNOWN	CCDS13509	2680	1689	562	61536355	61557823	-1	C20orf158, DATF1	DIO1, dJ885L7.8, FLJ11265, KIAA0333, DIO-1, BYE1
20	DIDO1	ENSG00000101191	ENST00000354665	protein_coding	KNOWN	CCDS13509	2680	1689	562	61536357	61557821	-1	C20orf158, DATF1	DIO1, dJ885L7.8, FLJ11265, KIAA0333, DIO-1, BYE1
20	DIDO1	ENSG00000101191	ENST00000370366	protein_coding	KNOWN	None	2680	1635	544	61536358	61545758	-1	C20orf158, DATF1	DIO1, dJ885L7.8, FLJ11265, KIAA0333, DIO-1, BYE1
20	DIDO1	ENSG00000101191	ENST00000266070	protein_coding	KNOWN	CCDS33506	2680	6723	2240	61509090	61569274	-1	C20orf158, DATF1	DIO1, dJ885L7.8, FLJ11265, KIAA0333, DIO-1, BYE1
20	DIDO1	ENSG00000101191	ENST00000395335	protein_coding	KNOWN	CCDS13508	2680	3570	1189	61518569	61569274	-1	C20orf158, DATF1	DIO1, dJ885L7.8, FLJ11265, KIAA0333, DIO-1, BYE1
20	DIDO1	ENSG00000101191	ENST00000266071	protein_coding	KNOWN	None	2680	1635	544	61536907	61569274	-1	C20orf158, DATF1	DIO1, dJ885L7.8, FLJ11265, KIAA0333, DIO-1, BYE1
5	MYO10	ENSG00000145555	ENST00000513610	protein_coding	KNOWN	CCDS54834	7593	6177	2058	16665395	16936372	-1	None	KIAA0799
5	MYO10	ENSG00000145555	ENST00000515803	protein_coding	PUTATIVE	None	7593	4194	1397	16666489	16738523	-1	None	KIAA0799
5	MYO10	ENSG00000145555	ENST00000505695	protein_coding	PUTATIVE	None	7593	4194	1397	16666671	16742337	-1	None	KIAA0799
5	MYO10	ENSG00000145555	ENST00000513882	protein_coding	PUTATIVE	None	7593	2491	829	16703086	16916636	-1	None	KIAA0799
5	MYO10	ENSG00000145555	ENST00000506343	processed_transcript	KNOWN	None	7593	None	None	16703108	16742019	-1	None	KIAA0799
5	MYO10	ENSG00000145555	ENST00000512061	processed_transcript	KNOWN	None	7593	None	None	16703109	16741989	-1	None	KIAA0799
5	MYO10	ENSG00000145555	ENST00000510401	processed_transcript	KNOWN	None	7593	None	None	16704688	16758335	-1	None	KIAA0799
5	MYO10	ENSG00000145555	ENST00000508318	retained_intron	KNOWN	None	7593	None	None	16710781	16742018	-1	None	KIAA0799
5	MYO10	ENSG00000145555	ENST00000511972	retained_intron	KNOWN	None	7593	None	None	16710813	16713577	-1	None	KIAA0799
5	MYO10	ENSG00000145555	ENST00000502436	protein_coding	PUTATIVE	None	7593	644	213	16780716	16936047	-1	None	KIAA0799
5	MYO10	ENSG00000145555	ENST00000507288	protein_coding	PUTATIVE	None	7593	294	97	16814626	16936368	-1	None	KIAA0799
5	MYO10	ENSG00000145555	ENST00000274203	protein_coding	KNOWN	None	7593	4248	1415	16666489	16738496	-1	None	KIAA0799
5	MYO10	ENSG00000145555	ENST00000427430	protein_coding	KNOWN	None	7593	4248	1415	16666671	16742337	-1	None	KIAA0799
19	RTBDN	ENSG00000132026	ENST00000592204	protein_coding	PUTATIVE	CCDS59355	30310	720	239	12936292	12945390	-1	None	FLJ36353
19	RTBDN	ENSG00000132026	ENST00000589272	protein_coding	PUTATIVE	CCDS59356	30310	618	205	12936293	12946242	-1	None	FLJ36353
19	RTBDN	ENSG00000132026	ENST00000322912	protein_coding	KNOWN	CCDS12283	30310	786	261	12936296	12946230	-1	None	FLJ36353
19	RTBDN	ENSG00000132026	ENST00000458671	protein_coding	KNOWN	CCDS45994	30310	690	229	12936297	12941230	-1	None	FLJ36353
19	RTBDN	ENSG00000132026	ENST00000586969	protein_coding	PUTATIVE	None	30310	642	213	12936568	12941469	-1	None	FLJ36353
19	RTBDN	ENSG00000132026	ENST00000589681	protein_coding	PUTATIVE	None	30310	580	192	12936612	12941476	-1	None	FLJ36353
19	RTBDN	ENSG00000132026	ENST00000589808	protein_coding	PUTATIVE	None	30310	559	185	12936651	12941489	-1	None	FLJ36353
19	RTBDN	ENSG00000132026	ENST00000590404	protein_coding	PUTATIVE	None	30310	572	189	12936656	12945362	-1	None	FLJ36353
19	RTBDN	ENSG00000132026	ENST00000585384	protein_coding	PUTATIVE	None	30310	522	173	12937604	12941477	-1	None	FLJ36353
19	RTBDN	ENSG00000132026	ENST00000589567	protein_coding	KNOWN	None	30310	391	129	12937660	12941163	-1	None	FLJ36353
19	RTBDN	ENSG00000132026	ENST00000591512	protein_coding	PUTATIVE	None	30310	212	69	12939707	12946229	-1	None	FLJ36353
19	RTBDN	ENSG00000132026	ENST00000587549	protein_coding	PUTATIVE	None	30310	341	112	12939767	12946229	-1	None	FLJ36353
19	RTBDN	ENSG00000132026	ENST00000393233	protein_coding	KNOWN	None	30310	675	224	12936293	12946242	-1	None	FLJ36353
19	OLFM2	ENSG00000105088	ENST00000264833	protein_coding	KNOWN	CCDS12221	17189	1365	454	9964394	10047228	-1	None	OlfC, NOE2
19	OLFM2	ENSG00000105088	ENST00000590841	protein_coding	PUTATIVE	None	17189	1131	376	9964421	9968844	-1	None	OlfC, NOE2
19	OLFM2	ENSG00000105088	ENST00000592448	nonsense_mediated_decay	KNOWN	None	17189	237	78	9965227	9968822	-1	None	OlfC, NOE2
19	OLFM2	ENSG00000105088	ENST00000593091	protein_coding	PUTATIVE	None	17189	1007	334	9965292	10024512	-1	None	OlfC, NOE2
19	OLFM2	ENSG00000105088	ENST00000590410	retained_intron	KNOWN	None	17189	None	None	9967884	10047000	-1	None	OlfC, NOE2
11	USP2	ENSG00000036672	ENST00000455332	protein_coding	PUTATIVE	CCDS58189	12618	1089	362	119225925	119252421	-1	None	UBP41
11	USP2	ENSG00000036672	ENST00000260187	protein_coding	KNOWN	CCDS8422	12618	1818	605	119225926	119252436	-1	None	UBP41
11	USP2	ENSG00000036672	ENST00000525735	protein_coding	KNOWN	CCDS8423	12618	1191	396	119227244	119234917	-1	None	UBP41
11	USP2	ENSG00000036672	ENST00000525189	retained_intron	KNOWN	None	12618	None	None	119228745	119230924	-1	None	UBP41
11	USP2	ENSG00000036672	ENST00000532613	retained_intron	KNOWN	None	12618	None	None	119229375	119234624	-1	None	UBP41
11	USP2	ENSG00000036672	ENST00000531070	protein_coding	KNOWN	None	12618	503	166	119243688	119247066	-1	None	UBP41
11	USP2	ENSG00000036672	ENST00000527843	protein_coding	PUTATIVE	None	12618	413	136	119243778	119249825	-1	None	UBP41
20	ISM1	ENSG00000101230	ENST00000447521	protein_coding	KNOWN	None	16213	1257	418	13251151	13281298	1	C20orf82	bA149I18.1
20	ISM1	ENSG00000101230	ENST00000262487	protein_coding	KNOWN	CCDS46579	16213	1395	464	13202418	13281297	1	C20orf82	bA149I18.1
17	EIF4A1	ENSG00000161960	ENST00000580888	nonsense_mediated_decay	KNOWN	None	3282	153	50	7476024	7480433	1	EIF4A	DDX2A, EIF-4A
17	EIF4A1	ENSG00000161960	ENST00000584054	retained_intron	KNOWN	None	3282	None	None	7476142	7478489	1	EIF4A	DDX2A, EIF-4A
17	EIF4A1	ENSG00000161960	ENST00000580886	retained_intron	KNOWN	None	3282	None	None	7476144	7478100	1	EIF4A	DDX2A, EIF-4A
17	EIF4A1	ENSG00000161960	ENST00000580461	nonsense_mediated_decay	KNOWN	None	3282	225	74	7476144	7478976	1	EIF4A	DDX2A, EIF-4A
17	EIF4A1	ENSG00000161960	ENST00000584712	retained_intron	KNOWN	None	3282	None	None	7476144	7478997	1	EIF4A	DDX2A, EIF-4A
17	EIF4A1	ENSG00000161960	ENST00000578476	nonsense_mediated_decay	KNOWN	None	3282	225	74	7476144	7479905	1	EIF4A	DDX2A, EIF-4A
17	EIF4A1	ENSG00000161960	ENST00000582169	protein_coding	PUTATIVE	None	3282	404	133	7476144	7480008	1	EIF4A	DDX2A, EIF-4A
17	EIF4A1	ENSG00000161960	ENST00000578754	protein_coding	PUTATIVE	None	3282	351	116	7476144	7481000	1	EIF4A	DDX2A, EIF-4A
17	EIF4A1	ENSG00000161960	ENST00000578495	protein_coding	NOVEL	None	3282	900	299	7476144	7481024	1	EIF4A	DDX2A, EIF-4A
17	EIF4A1	ENSG00000161960	ENST00000396527	retained_intron	KNOWN	None	3282	None	None	7476144	7481719	1	EIF4A	DDX2A, EIF-4A
17	EIF4A1	ENSG00000161960	ENST00000293831	protein_coding	KNOWN	CCDS11113	3282	1221	406	7476144	7482323	1	EIF4A	DDX2A, EIF-4A
17	EIF4A1	ENSG00000161960	ENST00000579139	nonsense_mediated_decay	KNOWN	None	3282	258	85	7476145	7478638	1	EIF4A	DDX2A, EIF-4A
17	EIF4A1	ENSG00000161960	ENST00000579085	retained_intron	KNOWN	None	3282	None	None	7476146	7478395	1	EIF4A	DDX2A, EIF-4A
17	EIF4A1	ENSG00000161960	ENST00000582213	retained_intron	KNOWN	None	3282	None	None	7476146	7478826	1	EIF4A	DDX2A, EIF-4A
17	EIF4A1	ENSG00000161960	ENST00000583899	retained_intron	KNOWN	None	3282	None	None	7476146	7480050	1	EIF4A	DDX2A, EIF-4A
17	EIF4A1	ENSG00000161960	ENST00000582848	retained_intron	KNOWN	None	3282	None	None	7476146	7480079	1	EIF4A	DDX2A, EIF-4A
17	EIF4A1	ENSG00000161960	ENST00000585024	protein_coding	NOVEL	None	3282	563	186	7476146	7480428	1	EIF4A	DDX2A, EIF-4A
17	EIF4A1	ENSG00000161960	ENST00000583802	protein_coding	PUTATIVE	None	3282	490	162	7476146	7480457	1	EIF4A	DDX2A, EIF-4A
17	EIF4A1	ENSG00000161960	ENST00000584901	retained_intron	KNOWN	None	3282	None	None	7476146	7480681	1	EIF4A	DDX2A, EIF-4A
17	EIF4A1	ENSG00000161960	ENST00000581544	nonsense_mediated_decay	KNOWN	None	3282	288	95	7476146	7481785	1	EIF4A	DDX2A, EIF-4A
17	EIF4A1	ENSG00000161960	ENST00000577269	protein_coding	NOVEL	CCDS58511	3282	1044	347	7476155	7481959	1	EIF4A	DDX2A, EIF-4A
17	EIF4A1	ENSG00000161960	ENST00000584784	protein_coding	NOVEL	None	3282	814	270	7476156	7481022	1	EIF4A	DDX2A, EIF-4A
17	EIF4A1	ENSG00000161960	ENST00000582746	protein_coding	PUTATIVE	None	3282	1026	341	7476160	7482308	1	EIF4A	DDX2A, EIF-4A
17	EIF4A1	ENSG00000161960	ENST00000584860	protein_coding	PUTATIVE	None	3282	771	256	7476553	7480937	1	EIF4A	DDX2A, EIF-4A
17	EIF4A1	ENSG00000161960	ENST00000581770	protein_coding	PUTATIVE	None	3282	255	84	7476634	7478483	1	EIF4A	DDX2A, EIF-4A
17	EIF4A1	ENSG00000161960	ENST00000577738	retained_intron	KNOWN	None	3282	None	None	7476751	7478670	1	EIF4A	DDX2A, EIF-4A
17	EIF4A1	ENSG00000161960	ENST00000581384	protein_coding	PUTATIVE	None	3282	642	213	7477040	7480469	1	EIF4A	DDX2A, EIF-4A
17	EIF4A1	ENSG00000161960	ENST00000577929	protein_coding	PUTATIVE	None	3282	255	84	7477162	7478534	1	EIF4A	DDX2A, EIF-4A
17	EIF4A1	ENSG00000161960	ENST00000578324	retained_intron	KNOWN	None	3282	None	None	7477577	7481934	1	EIF4A	DDX2A, EIF-4A
17	EIF4A1	ENSG00000161960	ENST00000584798	retained_intron	KNOWN	None	3282	None	None	7478064	7479503	1	EIF4A	DDX2A, EIF-4A
17	EIF4A1	ENSG00000161960	ENST00000577731	retained_intron	KNOWN	None	3282	None	None	7478506	7480885	1	EIF4A	DDX2A, EIF-4A
17	EIF4A1	ENSG00000161960	ENST00000583389	protein_coding	PUTATIVE	None	3282	691	229	7479850	7481949	1	EIF4A	DDX2A, EIF-4A
17	EIF4A1	ENSG00000161960	ENST00000578569	retained_intron	KNOWN	None	3282	None	None	7480466	7481249	1	EIF4A	DDX2A, EIF-4A
17	EIF4A1	ENSG00000161960	ENST00000583217	retained_intron	KNOWN	None	3282	None	None	7480525	7481204	1	EIF4A	DDX2A, EIF-4A
17	EIF4A1	ENSG00000161960	ENST00000581841	retained_intron	KNOWN	None	3282	None	None	7480884	7481624	1	EIF4A	DDX2A, EIF-4A
17	EIF4A1	ENSG00000161960	ENST00000582050	nonsense_mediated_decay	KNOWN	None	3282	207	68	7480953	7481948	1	EIF4A	DDX2A, EIF-4A
17	EIF4A1	ENSG00000161960	ENST00000581808	processed_transcript	PUTATIVE	None	3282	None	None	7481005	7481513	1	EIF4A	DDX2A, EIF-4A
17	EIF4A1	ENSG00000161960	ENST00000380512	protein_coding	KNOWN	None	3282	441	146	7476144	7478976	1	EIF4A	DDX2A, EIF-4A
12	MDM2	ENSG00000135679	ENST00000462284	protein_coding	KNOWN	CCDS8986	6973	1494	497	69201956	69239214	1	None	HDM2, HDMX, MGC5370
12	MDM2	ENSG00000135679	ENST00000311420	nonsense_mediated_decay	KNOWN	None	6973	255	84	69202053	69233647	1	None	HDM2, HDMX, MGC5370
12	MDM2	ENSG00000135679	ENST00000493419	retained_intron	KNOWN	None	6973	None	None	69202062	69210798	1	None	HDM2, HDMX, MGC5370
12	MDM2	ENSG00000135679	ENST00000393417	nonsense_mediated_decay	KNOWN	None	6973	213	70	69202163	69233636	1	None	HDM2, HDMX, MGC5370
12	MDM2	ENSG00000135679	ENST00000258148	protein_coding	NOVEL	None	6973	1329	442	69202244	69233647	1	None	HDM2, HDMX, MGC5370
12	MDM2	ENSG00000135679	ENST00000539479	protein_coding	NOVEL	None	6973	771	256	69202797	69229713	1	None	HDM2, HDMX, MGC5370
12	MDM2	ENSG00000135679	ENST00000393415	protein_coding	NOVEL	None	6973	768	255	69202797	69233062	1	None	HDM2, HDMX, MGC5370
12	MDM2	ENSG00000135679	ENST00000523991	protein_coding	NOVEL	None	6973	431	142	69202797	69233094	1	None	HDM2, HDMX, MGC5370
12	MDM2	ENSG00000135679	ENST00000543323	protein_coding	NOVEL	None	6973	353	116	69202797	69233094	1	None	HDM2, HDMX, MGC5370
12	MDM2	ENSG00000135679	ENST00000393416	protein_coding	NOVEL	None	6973	687	228	69202804	69222639	1	None	HDM2, HDMX, MGC5370
12	MDM2	ENSG00000135679	ENST00000544561	protein_coding	PUTATIVE	None	6973	213	70	69202992	69233571	1	None	HDM2, HDMX, MGC5370
12	MDM2	ENSG00000135679	ENST00000393410	protein_coding	NOVEL	None	6973	732	243	69202992	69233629	1	None	HDM2, HDMX, MGC5370
12	MDM2	ENSG00000135679	ENST00000496959	nonsense_mediated_decay	KNOWN	None	6973	183	60	69202992	69233629	1	None	HDM2, HDMX, MGC5370
12	MDM2	ENSG00000135679	ENST00000299252	protein_coding	NOVEL	None	6973	966	321	69202992	69233629	1	None	HDM2, HDMX, MGC5370
12	MDM2	ENSG00000135679	ENST00000481186	nonsense_mediated_decay	KNOWN	None	6973	108	35	69202992	69233629	1	None	HDM2, HDMX, MGC5370
12	MDM2	ENSG00000135679	ENST00000360430	protein_coding	KNOWN	None	6973	891	296	69202992	69233629	1	None	HDM2, HDMX, MGC5370
12	MDM2	ENSG00000135679	ENST00000517852	protein_coding	NOVEL	None	6973	393	130	69202992	69233629	1	None	HDM2, HDMX, MGC5370
12	MDM2	ENSG00000135679	ENST00000545204	protein_coding	PUTATIVE	None	6973	156	51	69202992	69233629	1	None	HDM2, HDMX, MGC5370
12	MDM2	ENSG00000135679	ENST00000546048	nonsense_mediated_decay	KNOWN	None	6973	237	78	69202992	69233629	1	None	HDM2, HDMX, MGC5370
12	MDM2	ENSG00000135679	ENST00000540352	nonsense_mediated_decay	KNOWN	None	6973	513	170	69202992	69233629	1	None	HDM2, HDMX, MGC5370
12	MDM2	ENSG00000135679	ENST00000542502	nonsense_mediated_decay	KNOWN	None	6973	255	84	69202992	69233629	1	None	HDM2, HDMX, MGC5370
12	MDM2	ENSG00000135679	ENST00000537182	nonsense_mediated_decay	KNOWN	None	6973	237	78	69202992	69233629	1	None	HDM2, HDMX, MGC5370
12	MDM2	ENSG00000135679	ENST00000536089	nonsense_mediated_decay	KNOWN	None	6973	237	78	69202992	69233629	1	None	HDM2, HDMX, MGC5370
12	MDM2	ENSG00000135679	ENST00000393413	protein_coding	KNOWN	None	6973	657	218	69202992	69233629	1	None	HDM2, HDMX, MGC5370
12	MDM2	ENSG00000135679	ENST00000350057	protein_coding	NOVEL	None	6973	1401	466	69202992	69233629	1	None	HDM2, HDMX, MGC5370
12	MDM2	ENSG00000135679	ENST00000348801	protein_coding	PUTATIVE	None	6973	798	265	69203007	69233629	1	None	HDM2, HDMX, MGC5370
12	MDM2	ENSG00000135679	ENST00000478070	protein_coding	PUTATIVE	None	6973	150	49	69203007	69233629	1	None	HDM2, HDMX, MGC5370
12	MDM2	ENSG00000135679	ENST00000471946	retained_intron	KNOWN	None	6973	None	None	69207382	69214194	1	None	HDM2, HDMX, MGC5370
12	MDM2	ENSG00000135679	ENST00000543046	retained_intron	KNOWN	None	6973	None	None	69217983	69218538	1	None	HDM2, HDMX, MGC5370
12	MDM2	ENSG00000135679	ENST00000540709	processed_transcript	PUTATIVE	None	6973	None	None	69236221	69237961	1	None	HDM2, HDMX, MGC5370
12	MDM2	ENSG00000135679	ENST00000544125	processed_transcript	PUTATIVE	None	6973	None	None	69236846	69237970	1	None	HDM2, HDMX, MGC5370
12	MDM2	ENSG00000135679	ENST00000400501	processed_transcript	PUTATIVE	None	6973	None	None	69237469	69237975	1	None	HDM2, HDMX, MGC5370
12	MDM2	ENSG00000135679	ENST00000258149	protein_coding	KNOWN	None	6973	1311	436	69201971	69239211	1	None	HDM2, HDMX, MGC5370
12	MDM2	ENSG00000135679	ENST00000356290	protein_coding	KNOWN	None	6973	966	321	69201971	69239211	1	None	HDM2, HDMX, MGC5370
12	MDM2	ENSG00000135679	ENST00000540827	protein_coding	KNOWN	None	6973	891	296	69201971	69239211	1	None	HDM2, HDMX, MGC5370
12	MDM2	ENSG00000135679	ENST00000428863	protein_coding	KNOWN	None	6973	813	270	69201971	69239211	1	None	HDM2, HDMX, MGC5370
12	MDM2	ENSG00000135679	ENST00000393412	protein_coding	KNOWN	None	6973	657	218	69202002	69233869	1	None	HDM2, HDMX, MGC5370
2	MFSD2B	ENSG00000205639	ENST00000406420	protein_coding	NOVEL	CCDS46228	37207	1494	497	24232951	24247163	1	None	None
2	MFSD2B	ENSG00000205639	ENST00000495018	retained_intron	KNOWN	None	37207	None	None	24235769	24241603	1	None	None
2	MFSD2B	ENSG00000205639	ENST00000469562	retained_intron	KNOWN	None	37207	None	None	24240360	24249645	1	None	None
2	MFSD2B	ENSG00000205639	ENST00000453731	nonsense_mediated_decay	KNOWN	None	37207	135	44	24247023	24286191	1	None	None
2	MFSD2B	ENSG00000205639	ENST00000338315	protein_coding	KNOWN	None	37207	1515	504	24232967	24249645	1	None	None
10	TAF5	ENSG00000148835	ENST00000369839	protein_coding	KNOWN	CCDS7547	11539	2403	800	105127724	105148822	1	TAF2D	TAFII100
10	TAF5	ENSG00000148835	ENST00000351396	protein_coding	KNOWN	None	11539	2238	745	105127724	105148818	1	TAF2D	TAFII100
22	PPM1F	ENSG00000100034	ENST00000263212	protein_coding	KNOWN	CCDS13796	19388	1365	454	22273793	22307209	-1	None	FEM-2, KIAA0015, POPX2, CaMKPase, CAMKP
22	PPM1F	ENSG00000100034	ENST00000407142	protein_coding	PUTATIVE	None	19388	861	286	22273800	22292956	-1	None	FEM-2, KIAA0015, POPX2, CaMKPase, CAMKP
22	PPM1F	ENSG00000100034	ENST00000496143	processed_transcript	KNOWN	None	19388	None	None	22277498	22280435	-1	None	FEM-2, KIAA0015, POPX2, CaMKPase, CAMKP
22	PPM1F	ENSG00000100034	ENST00000484588	processed_transcript	KNOWN	None	19388	None	None	22279249	22285620	-1	None	FEM-2, KIAA0015, POPX2, CaMKPase, CAMKP
22	PPM1F	ENSG00000100034	ENST00000397495	protein_coding	NOVEL	None	19388	1086	361	22279249	22307203	-1	None	FEM-2, KIAA0015, POPX2, CaMKPase, CAMKP
22	PPM1F	ENSG00000100034	ENST00000445205	protein_coding	PUTATIVE	None	19388	269	88	22285638	22295029	-1	None	FEM-2, KIAA0015, POPX2, CaMKPase, CAMKP
22	PPM1F	ENSG00000100034	ENST00000424647	protein_coding	PUTATIVE	None	19388	246	81	22288396	22292948	-1	None	FEM-2, KIAA0015, POPX2, CaMKPase, CAMKP
22	PPM1F	ENSG00000100034	ENST00000486259	processed_transcript	KNOWN	None	19388	None	None	22291334	22292903	-1	None	FEM-2, KIAA0015, POPX2, CaMKPase, CAMKP
22	PPM1F	ENSG00000100034	ENST00000497072	processed_transcript	KNOWN	None	19388	None	None	22306392	22307193	-1	None	FEM-2, KIAA0015, POPX2, CaMKPase, CAMKP
22	PPM1F	ENSG00000100034	ENST00000538191	protein_coding	KNOWN	None	19388	1053	350	22277200	22292934	-1	None	FEM-2, KIAA0015, POPX2, CaMKPase, CAMKP
18	CLUL1	ENSG00000079101	ENST00000579912	protein_coding	PUTATIVE	None	2096	247	81	596988	619320	1	None	None
18	CLUL1	ENSG00000079101	ENST00000582020	processed_transcript	KNOWN	None	2096	None	None	596998	618087	1	None	None
18	CLUL1	ENSG00000079101	ENST00000580436	processed_transcript	KNOWN	None	2096	None	None	596998	627220	1	None	None
18	CLUL1	ENSG00000079101	ENST00000400606	protein_coding	KNOWN	CCDS42405	2096	1401	466	596998	650298	1	None	None
18	CLUL1	ENSG00000079101	ENST00000579443	processed_transcript	KNOWN	None	2096	None	None	597002	614797	1	None	None
18	CLUL1	ENSG00000079101	ENST00000540035	protein_coding	PUTATIVE	None	2096	1557	518	597023	650334	1	None	None
18	CLUL1	ENSG00000079101	ENST00000581619	protein_coding	PUTATIVE	None	2096	1476	491	597674	645227	1	None	None
18	CLUL1	ENSG00000079101	ENST00000584370	processed_transcript	KNOWN	None	2096	None	None	598391	624907	1	None	None
18	CLUL1	ENSG00000079101	ENST00000338387	protein_coding	KNOWN	CCDS42405	2096	1401	466	616672	650298	1	None	None
18	CLUL1	ENSG00000079101	ENST00000579494	protein_coding	KNOWN	CCDS42405	2096	1401	466	616718	650182	1	None	None
18	CLUL1	ENSG00000079101	ENST00000584046	retained_intron	KNOWN	None	2096	None	None	624956	627572	1	None	None
18	CLUL1	ENSG00000079101	ENST00000585155	protein_coding	PUTATIVE	None	2096	103	33	641472	650175	1	None	None
3	SERPINI1	ENSG00000163536	ENST00000472941	protein_coding	KNOWN	None	8943	481	159	167453031	167508390	1	PI12	neuroserpin
3	SERPINI1	ENSG00000163536	ENST00000446050	protein_coding	KNOWN	CCDS3203	8943	1233	410	167453218	167543356	1	PI12	neuroserpin
3	SERPINI1	ENSG00000163536	ENST00000295777	protein_coding	KNOWN	CCDS3203	8943	1233	410	167453511	167543354	1	PI12	neuroserpin
3	SERPINI1	ENSG00000163536	ENST00000472747	protein_coding	KNOWN	None	8943	736	244	167453513	167512467	1	PI12	neuroserpin
3	SERPINI1	ENSG00000163536	ENST00000488374	processed_transcript	KNOWN	None	8943	None	None	167517834	167543350	1	PI12	neuroserpin
3	SERPINI1	ENSG00000163536	ENST00000466865	protein_coding	NOVEL	None	8943	358	118	167525026	167543348	1	PI12	neuroserpin
3	SERPINI1	ENSG00000163536	ENST00000494666	retained_intron	KNOWN	None	8943	None	None	167540724	167543348	1	PI12	neuroserpin
5	KIAA0141	ENSG00000081791	ENST00000432126	protein_coding	KNOWN	CCDS4268	28969	1548	515	141303373	141321612	1	None	DELE
5	KIAA0141	ENSG00000081791	ENST00000194118	protein_coding	KNOWN	CCDS4268	28969	1548	515	141303420	141319685	1	None	DELE
5	KIAA0141	ENSG00000081791	ENST00000508751	protein_coding	NOVEL	None	28969	966	321	141303475	141313891	1	None	DELE
5	KIAA0141	ENSG00000081791	ENST00000502729	retained_intron	KNOWN	None	28969	None	None	141309812	141314561	1	None	DELE
5	KIAA0141	ENSG00000081791	ENST00000506775	processed_transcript	KNOWN	None	28969	None	None	141310784	141313447	1	None	DELE
5	KIAA0141	ENSG00000081791	ENST00000507481	protein_coding	KNOWN	None	28969	653	216	141312965	141319711	1	None	DELE
5	KIAA0141	ENSG00000081791	ENST00000509110	retained_intron	KNOWN	None	28969	None	None	141316639	141318513	1	None	DELE
1	TMEM200B	ENSG00000253304	ENST00000521452	protein_coding	KNOWN	CCDS30658	33785	924	307	29445940	29450447	-1	None	TTMB
1	TMEM200B	ENSG00000253304	ENST00000420504	protein_coding	KNOWN	CCDS30658	33785	924	307	29445946	29449013	-1	None	TTMB
1	EPHA2	ENSG00000142627	ENST00000358432	protein_coding	KNOWN	CCDS169	3386	2931	976	16450832	16482582	-1	ECK	None
1	EPHA2	ENSG00000142627	ENST00000462805	processed_transcript	KNOWN	None	3386	None	None	16459508	16460057	-1	ECK	None
1	EPHA2	ENSG00000142627	ENST00000480202	processed_transcript	KNOWN	None	3386	None	None	16461055	16472945	-1	ECK	None
1	EPHA2	ENSG00000142627	ENST00000461614	processed_transcript	KNOWN	None	3386	None	None	16474873	16482547	-1	ECK	None
9	None	ENSG00000236461	ENST00000423637	lincRNA	KNOWN	None	None	None	None	117881818	117900688	-1	None	None
18	CEP76	ENSG00000101624	ENST00000590143	nonsense_mediated_decay	KNOWN	None	25727	225	74	12661832	12702638	-1	C18orf9	HsT1705, FLJ12542
18	CEP76	ENSG00000101624	ENST00000262127	protein_coding	KNOWN	CCDS11861	25727	1980	659	12672631	12702773	-1	C18orf9	HsT1705, FLJ12542
18	CEP76	ENSG00000101624	ENST00000423709	protein_coding	KNOWN	None	25727	1755	584	12673096	12702721	-1	C18orf9	HsT1705, FLJ12542
18	CEP76	ENSG00000101624	ENST00000589490	processed_transcript	PUTATIVE	None	25727	None	None	12674535	12679289	-1	C18orf9	HsT1705, FLJ12542
18	CEP76	ENSG00000101624	ENST00000587666	protein_coding	NOVEL	None	25727	534	177	12678330	12695318	-1	C18orf9	HsT1705, FLJ12542
18	CEP76	ENSG00000101624	ENST00000593250	nonsense_mediated_decay	KNOWN	None	25727	225	74	12684295	12702666	-1	C18orf9	HsT1705, FLJ12542
18	CEP76	ENSG00000101624	ENST00000591034	protein_coding	PUTATIVE	None	25727	305	100	12691232	12697287	-1	C18orf9	HsT1705, FLJ12542
18	CEP76	ENSG00000101624	ENST00000585751	protein_coding	PUTATIVE	None	25727	576	191	12691232	12699122	-1	C18orf9	HsT1705, FLJ12542
18	CEP76	ENSG00000101624	ENST00000592660	processed_transcript	KNOWN	None	25727	None	None	12691432	12700366	-1	C18orf9	HsT1705, FLJ12542
18	CEP76	ENSG00000101624	ENST00000589875	processed_transcript	KNOWN	None	25727	None	None	12697311	12700365	-1	C18orf9	HsT1705, FLJ12542
18	CEP76	ENSG00000101624	ENST00000587929	nonsense_mediated_decay	KNOWN	None	25727	339	112	12697311	12702755	-1	C18orf9	HsT1705, FLJ12542
18	CEP76	ENSG00000101624	ENST00000586887	processed_transcript	KNOWN	None	25727	None	None	12698792	12702776	-1	C18orf9	HsT1705, FLJ12542
4	None	ENSG00000265901	ENST00000459267	miRNA	NOVEL	None	None	None	None	9601952	9602051	-1	None	None
4	ENPP7P11	ENSG00000250942	ENST00000505915	processed_pseudogene	KNOWN	None	48694	None	None	9678932	9679558	1	None	None
2	RRM2	ENSG00000171848	ENST00000360566	protein_coding	KNOWN	CCDS54334	10452	1350	449	10262455	10271545	1	None	None
2	RRM2	ENSG00000171848	ENST00000459969	retained_intron	KNOWN	None	10452	None	None	10262839	10264244	1	None	None
2	RRM2	ENSG00000171848	ENST00000304567	protein_coding	KNOWN	CCDS1669	10452	1170	389	10262857	10271545	1	None	None
2	RRM2	ENSG00000171848	ENST00000498343	retained_intron	KNOWN	None	10452	None	None	10262866	10263839	1	None	None
2	RRM2	ENSG00000171848	ENST00000461327	retained_intron	KNOWN	None	10452	None	None	10262866	10263979	1	None	None
2	RRM2	ENSG00000171848	ENST00000491447	retained_intron	KNOWN	None	10452	None	None	10262879	10265005	1	None	None
2	RRM2	ENSG00000171848	ENST00000474701	protein_coding	PUTATIVE	None	10452	868	288	10263298	10269282	1	None	None
2	RRM2	ENSG00000171848	ENST00000487591	retained_intron	KNOWN	None	10452	None	None	10266639	10267347	1	None	None
2	RRM2	ENSG00000171848	ENST00000462343	retained_intron	KNOWN	None	10452	None	None	10266918	10267488	1	None	None
2	RRM2	ENSG00000171848	ENST00000485717	retained_intron	KNOWN	None	10452	None	None	10266957	10269440	1	None	None
4	FAM86MP	ENSG00000186234	ENST00000340703	unprocessed_pseudogene	KNOWN	None	44100	None	None	9694119	9704578	1	None	None
1	GSTM4	ENSG00000168765	ENST00000369836	protein_coding	KNOWN	CCDS807	4636	657	218	110198703	110204322	1	None	None
1	GSTM4	ENSG00000168765	ENST00000464733	processed_transcript	KNOWN	None	4636	None	None	110198739	110200293	1	None	None
1	GSTM4	ENSG00000168765	ENST00000461767	processed_transcript	KNOWN	None	4636	None	None	110198740	110200256	1	None	None
1	GSTM4	ENSG00000168765	ENST00000479578	processed_transcript	KNOWN	None	4636	None	None	110198743	110200593	1	None	None
1	GSTM4	ENSG00000168765	ENST00000326729	protein_coding	KNOWN	CCDS806	4636	588	195	110198744	110208118	1	None	None
1	GSTM4	ENSG00000168765	ENST00000495742	processed_transcript	KNOWN	None	4636	None	None	110198874	110204322	1	None	None
1	GSTM4	ENSG00000168765	ENST00000369833	protein_coding	KNOWN	None	4636	609	202	110198958	110204364	1	None	None
1	GSTM4	ENSG00000168765	ENST00000485640	processed_transcript	KNOWN	None	4636	None	None	110198969	110203967	1	None	None
1	GSTM4	ENSG00000168765	ENST00000478397	processed_transcript	KNOWN	None	4636	None	None	110199343	110201946	1	None	None
1	GSTM4	ENSG00000168765	ENST00000493171	processed_transcript	KNOWN	None	4636	None	None	110200896	110203960	1	None	None
1	GSTM4	ENSG00000168765	ENST00000493395	processed_transcript	KNOWN	None	4636	None	None	110201436	110204322	1	None	None
1	GSTM4	ENSG00000168765	ENST00000336075	protein_coding	KNOWN	None	4636	474	157	110198727	110204235	1	None	None
12	PKP2	ENSG00000057294	ENST00000340811	protein_coding	KNOWN	CCDS31771	9024	2514	837	32943679	33049774	-1	None	None
12	PKP2	ENSG00000057294	ENST00000070846	protein_coding	KNOWN	CCDS8731	9024	2646	881	32943788	33049690	-1	None	None
12	PKP2	ENSG00000057294	ENST00000546769	retained_intron	KNOWN	None	9024	None	None	32944877	32945809	-1	None	None
12	PKP2	ENSG00000057294	ENST00000549461	retained_intron	KNOWN	None	9024	None	None	32955384	32974748	-1	None	None
12	PKP2	ENSG00000057294	ENST00000552612	retained_intron	KNOWN	None	9024	None	None	32973823	32977073	-1	None	None
12	PKP2	ENSG00000057294	ENST00000546498	retained_intron	KNOWN	None	9024	None	None	32974401	32977339	-1	None	None
12	PKP2	ENSG00000057294	ENST00000546741	processed_transcript	KNOWN	None	9024	None	None	33047217	33049535	-1	None	None
8	LRRC69	ENSG00000214954	ENST00000518304	protein_coding	KNOWN	None	34303	152	49	92114060	92115041	1	None	None
8	LRRC69	ENSG00000214954	ENST00000520099	nonsense_mediated_decay	KNOWN	None	34303	210	69	92114847	92231464	1	None	None
8	LRRC69	ENSG00000214954	ENST00000343709	protein_coding	KNOWN	None	34303	576	191	92114873	92231355	1	None	None
8	LRRC69	ENSG00000214954	ENST00000448384	protein_coding	NOVEL	None	34303	1044	347	92114890	92231228	1	None	None
8	LRRC69	ENSG00000214954	ENST00000522144	processed_transcript	PUTATIVE	None	34303	None	None	92114949	92137011	1	None	None
8	LRRC69	ENSG00000214954	ENST00000518487	retained_intron	KNOWN	None	34303	None	None	92142582	92145592	1	None	None
8	LRRC69	ENSG00000214954	ENST00000521519	processed_transcript	PUTATIVE	None	34303	None	None	92147909	92151423	1	None	None
15	LPCAT4	ENSG00000176454	ENST00000314891	protein_coding	KNOWN	CCDS32191	30059	1575	524	34651106	34659479	-1	AYTL3, AGPAT7	FLJ10257, LPAAT-eta, LPEAT2
15	LPCAT4	ENSG00000176454	ENST00000563748	retained_intron	KNOWN	None	30059	None	None	34651110	34654856	-1	AYTL3, AGPAT7	FLJ10257, LPAAT-eta, LPEAT2
15	LPCAT4	ENSG00000176454	ENST00000567507	nonsense_mediated_decay	KNOWN	None	30059	255	84	34651297	34654856	-1	AYTL3, AGPAT7	FLJ10257, LPAAT-eta, LPEAT2
15	LPCAT4	ENSG00000176454	ENST00000563240	retained_intron	KNOWN	None	30059	None	None	34653113	34655091	-1	AYTL3, AGPAT7	FLJ10257, LPAAT-eta, LPEAT2
15	LPCAT4	ENSG00000176454	ENST00000562404	retained_intron	KNOWN	None	30059	None	None	34654780	34655941	-1	AYTL3, AGPAT7	FLJ10257, LPAAT-eta, LPEAT2
15	LPCAT4	ENSG00000176454	ENST00000566581	retained_intron	KNOWN	None	30059	None	None	34656147	34659377	-1	AYTL3, AGPAT7	FLJ10257, LPAAT-eta, LPEAT2
15	LPCAT4	ENSG00000176454	ENST00000569804	retained_intron	KNOWN	None	30059	None	None	34657209	34658195	-1	AYTL3, AGPAT7	FLJ10257, LPAAT-eta, LPEAT2
15	LPCAT4	ENSG00000176454	ENST00000562431	processed_transcript	PUTATIVE	None	30059	None	None	34657300	34659182	-1	AYTL3, AGPAT7	FLJ10257, LPAAT-eta, LPEAT2
6	AARS2	ENSG00000124608	ENST00000244571	protein_coding	KNOWN	CCDS34464	21022	2958	985	44267391	44281063	-1	AARSL	KIAA1270, bA444E17.1
6	AARS2	ENSG00000124608	ENST00000491573	processed_transcript	KNOWN	None	21022	None	None	44268309	44269157	-1	AARSL	KIAA1270, bA444E17.1
1	SRSF4	ENSG00000116350	ENST00000373795	protein_coding	KNOWN	CCDS333	10786	1485	494	29474255	29508499	-1	SFRS4	SRP75
1	SRSF4	ENSG00000116350	ENST00000466448	processed_transcript	KNOWN	None	10786	None	None	29475183	29508394	-1	SFRS4	SRP75
1	SRSF4	ENSG00000116350	ENST00000497015	processed_transcript	KNOWN	None	10786	None	None	29481209	29487075	-1	SFRS4	SRP75
1	SRSF4	ENSG00000116350	ENST00000605204	nonsense_mediated_decay	KNOWN	None	10786	483	160	29481248	29508402	-1	SFRS4	SRP75
1	SRSF4	ENSG00000116350	ENST00000477193	processed_transcript	KNOWN	None	10786	None	None	29481384	29486052	-1	SFRS4	SRP75
1	SRSF4	ENSG00000116350	ENST00000489898	processed_transcript	KNOWN	None	10786	None	None	29485896	29486981	-1	SFRS4	SRP75
1	SRSF4	ENSG00000116350	ENST00000472353	processed_transcript	KNOWN	None	10786	None	None	29486894	29495151	-1	SFRS4	SRP75
1	SRSF4	ENSG00000116350	ENST00000546138	protein_coding	KNOWN	None	10786	477	158	29474657	29508410	-1	SFRS4	SRP75
16	TMC5	ENSG00000103534	ENST00000563675	processed_transcript	KNOWN	None	22999	None	None	19421818	19441962	1	None	FLJ13593
16	TMC5	ENSG00000103534	ENST00000541464	protein_coding	NOVEL	None	22999	2865	954	19421861	19509462	1	None	FLJ13593
16	TMC5	ENSG00000103534	ENST00000381414	protein_coding	KNOWN	CCDS42126	22999	2847	948	19422045	19510435	1	None	FLJ13593
16	TMC5	ENSG00000103534	ENST00000542583	protein_coding	KNOWN	CCDS45431	22999	3021	1006	19429018	19510435	1	None	FLJ13593
16	TMC5	ENSG00000103534	ENST00000219821	protein_coding	KNOWN	CCDS10577	22999	2283	760	19467772	19510435	1	None	FLJ13593
16	TMC5	ENSG00000103534	ENST00000561503	protein_coding	PUTATIVE	None	22999	1944	647	19467806	19509540	1	None	FLJ13593
16	TMC5	ENSG00000103534	ENST00000567478	retained_intron	KNOWN	None	22999	None	None	19467809	19503639	1	None	FLJ13593
16	TMC5	ENSG00000103534	ENST00000564959	protein_coding	PUTATIVE	None	22999	2070	689	19467839	19509462	1	None	FLJ13593
16	TMC5	ENSG00000103534	ENST00000572147	nonsense_mediated_decay	KNOWN	None	22999	128	41	19485487	19492748	1	None	FLJ13593
16	TMC5	ENSG00000103534	ENST00000574033	nonsense_mediated_decay	KNOWN	None	22999	98	31	19498263	19509599	1	None	FLJ13593
16	TMC5	ENSG00000103534	ENST00000396229	protein_coding	KNOWN	CCDS45431	22999	3021	1006	19422057	19510435	1	None	FLJ13593
2	CHAC2	ENSG00000143942	ENST00000295304	protein_coding	KNOWN	CCDS33196	32363	555	184	53994929	54002333	1	None	None
4	None	ENSG00000238802	ENST00000459599	snoRNA	NOVEL	None	None	None	None	129677181	129677284	1	None	None
4	None	ENSG00000251345	ENST00000508655	processed_pseudogene	KNOWN	None	None	None	None	130054261	130055253	1	None	None
6	FGFR1OP	ENSG00000213066	ENST00000366847	protein_coding	KNOWN	CCDS5296	17012	1200	399	167412670	167455906	1	None	FOP
6	FGFR1OP	ENSG00000213066	ENST00000349556	protein_coding	KNOWN	CCDS5297	17012	1140	379	167412896	167453805	1	None	FOP
6	FGFR1OP	ENSG00000213066	ENST00000494781	processed_transcript	KNOWN	None	17012	None	None	167412945	167425179	1	None	FOP
6	FGFR1OP	ENSG00000213066	ENST00000476078	processed_transcript	KNOWN	None	17012	None	None	167413105	167417792	1	None	FOP
6	FGFR1OP	ENSG00000213066	ENST00000496181	processed_transcript	KNOWN	None	17012	None	None	167435914	167438699	1	None	FOP
6	FGFR1OP	ENSG00000213066	ENST00000488525	processed_transcript	KNOWN	None	17012	None	None	167438278	167447370	1	None	FOP
7	STRA8	ENSG00000146857	ENST00000275764	protein_coding	KNOWN	CCDS5839	30653	993	330	134916731	134943244	1	None	None
11	ST14	ENSG00000149418	ENST00000278742	protein_coding	KNOWN	CCDS8487	11344	2568	855	130029457	130080271	1	PRSS14	SNC19, HAI, MT-SP1, TMPRSS14
11	ST14	ENSG00000149418	ENST00000530532	retained_intron	KNOWN	None	11344	None	None	130059220	130066331	1	PRSS14	SNC19, HAI, MT-SP1, TMPRSS14
11	ST14	ENSG00000149418	ENST00000524718	retained_intron	KNOWN	None	11344	None	None	130059936	130066689	1	PRSS14	SNC19, HAI, MT-SP1, TMPRSS14
11	ST14	ENSG00000149418	ENST00000530376	retained_intron	KNOWN	None	11344	None	None	130060118	130066505	1	PRSS14	SNC19, HAI, MT-SP1, TMPRSS14
19	RNU6-782P	ENSG00000252661	ENST00000516852	snRNA	KNOWN	None	47745	None	None	15256026	15256129	1	None	None
12	ASCL1	ENSG00000139352	ENST00000266744	protein_coding	KNOWN	CCDS31886	738	711	236	103351464	103354294	1	None	ASH1, HASH1, bHLHa46
20	TASP1	ENSG00000089123	ENST00000480436	processed_transcript	KNOWN	None	15859	None	None	13370039	13619550	-1	C20orf13	FLJ20212, dJ585I14.2
20	TASP1	ENSG00000089123	ENST00000337743	protein_coding	KNOWN	CCDS13116	15859	1263	420	13370039	13619587	-1	C20orf13	FLJ20212, dJ585I14.2
20	TASP1	ENSG00000089123	ENST00000465381	processed_transcript	KNOWN	None	15859	None	None	13415691	13619550	-1	C20orf13	FLJ20212, dJ585I14.2
20	TASP1	ENSG00000089123	ENST00000455532	protein_coding	KNOWN	None	15859	916	304	13463874	13619550	-1	C20orf13	FLJ20212, dJ585I14.2
20	TASP1	ENSG00000089123	ENST00000476108	processed_transcript	KNOWN	None	15859	None	None	13567897	13619550	-1	C20orf13	FLJ20212, dJ585I14.2
20	TASP1	ENSG00000089123	ENST00000483898	processed_transcript	KNOWN	None	15859	None	None	13567897	13619550	-1	C20orf13	FLJ20212, dJ585I14.2
20	TASP1	ENSG00000089123	ENST00000434275	protein_coding	KNOWN	None	15859	332	109	13595314	13610658	-1	C20orf13	FLJ20212, dJ585I14.2
20	TASP1	ENSG00000089123	ENST00000539805	protein_coding	KNOWN	None	15859	438	145	13246709	13619575	-1	C20orf13	FLJ20212, dJ585I14.2
20	TASP1	ENSG00000089123	ENST00000544472	protein_coding	KNOWN	None	15859	390	129	13597251	13619564	-1	C20orf13	FLJ20212, dJ585I14.2
6	CDKAL1	ENSG00000145996	ENST00000378610	protein_coding	KNOWN	CCDS4546	21050	1740	579	20546572	21232635	1	None	FLJ20342
6	CDKAL1	ENSG00000145996	ENST00000476517	processed_transcript	KNOWN	None	21050	None	None	21201043	21231672	1	None	FLJ20342
6	CDKAL1	ENSG00000145996	ENST00000274695	protein_coding	KNOWN	CCDS4546	21050	1740	579	20534688	21232635	1	None	FLJ20342
6	CDKAL1	ENSG00000145996	ENST00000378624	protein_coding	KNOWN	None	21050	1467	488	20534688	21232635	1	None	FLJ20342
19	None	ENSG00000269635	ENST00000593588	lincRNA	KNOWN	None	None	None	None	15331826	15333108	-1	None	None
19	None	ENSG00000270143	ENST00000602793	lincRNA	KNOWN	None	None	None	None	15346330	15346819	-1	None	None
16	None	ENSG00000261088	ENST00000561811	lincRNA	KNOWN	None	None	None	None	66923072	66924664	1	None	None
16	None	ENSG00000261088	ENST00000563086	lincRNA	KNOWN	None	None	None	None	66923094	66924996	1	None	None
19	None	ENSG00000270802	ENST00000603164	processed_pseudogene	KNOWN	None	None	None	None	15449742	15450048	1	None	None
12	None	ENSG00000257860	ENST00000547418	protein_coding	PUTATIVE	None	None	198	65	103545620	103562012	1	None	None
12	None	ENSG00000257860	ENST00000552759	processed_transcript	KNOWN	None	None	None	None	103545633	103555420	1	None	None
12	None	ENSG00000257860	ENST00000549568	processed_transcript	KNOWN	None	None	None	None	103556634	103562087	1	None	None
12	None	ENSG00000257860	ENST00000550664	processed_transcript	KNOWN	None	None	None	None	103556689	103562087	1	None	None
3	CNOT10	ENSG00000182973	ENST00000331889	protein_coding	KNOWN	CCDS58821	23817	2154	717	32726637	32815206	1	None	FLJ12890, FLJ13165
3	CNOT10	ENSG00000182973	ENST00000328834	protein_coding	KNOWN	CCDS2655	23817	2235	744	32726637	32815367	1	None	FLJ12890, FLJ13165
3	CNOT10	ENSG00000182973	ENST00000435630	nonsense_mediated_decay	KNOWN	None	23817	1830	609	32726712	32815108	1	None	FLJ12890, FLJ13165
3	CNOT10	ENSG00000182973	ENST00000556853	processed_transcript	KNOWN	None	23817	None	None	32726811	32757803	1	None	FLJ12890, FLJ13165
3	CNOT10	ENSG00000182973	ENST00000494439	processed_transcript	KNOWN	None	23817	None	None	32726811	32757803	1	None	FLJ12890, FLJ13165
3	CNOT10	ENSG00000182973	ENST00000463006	processed_transcript	KNOWN	None	23817	None	None	32737033	32750309	1	None	FLJ12890, FLJ13165
3	CNOT10	ENSG00000182973	ENST00000485136	retained_intron	KNOWN	None	23817	None	None	32745283	32754841	1	None	FLJ12890, FLJ13165
3	CNOT10	ENSG00000182973	ENST00000466103	processed_transcript	KNOWN	None	23817	None	None	32745355	32750267	1	None	FLJ12890, FLJ13165
3	CNOT10	ENSG00000182973	ENST00000416457	nonsense_mediated_decay	KNOWN	None	23817	632	209	32746310	32815206	1	None	FLJ12890, FLJ13165
3	CNOT10	ENSG00000182973	ENST00000455381	nonsense_mediated_decay	KNOWN	None	23817	132	43	32750189	32769366	1	None	FLJ12890, FLJ13165
3	CNOT10	ENSG00000182973	ENST00000463697	processed_transcript	KNOWN	None	23817	None	None	32757488	32769300	1	None	FLJ12890, FLJ13165
3	CNOT10	ENSG00000182973	ENST00000430408	protein_coding	PUTATIVE	None	23817	687	228	32776314	32811456	1	None	FLJ12890, FLJ13165
3	CNOT10	ENSG00000182973	ENST00000471003	processed_transcript	KNOWN	None	23817	None	None	32794753	32811452	1	None	FLJ12890, FLJ13165
3	CNOT10	ENSG00000182973	ENST00000481526	retained_intron	KNOWN	None	23817	None	None	32805624	32811456	1	None	FLJ12890, FLJ13165
3	CNOT10	ENSG00000182973	ENST00000479397	retained_intron	KNOWN	None	23817	None	None	32805713	32811454	1	None	FLJ12890, FLJ13165
3	CNOT10	ENSG00000182973	ENST00000468599	retained_intron	KNOWN	None	23817	None	None	32805740	32806796	1	None	FLJ12890, FLJ13165
3	CNOT10	ENSG00000182973	ENST00000473064	processed_transcript	KNOWN	None	23817	None	None	32810515	32811456	1	None	FLJ12890, FLJ13165
3	CNOT10	ENSG00000182973	ENST00000476967	retained_intron	KNOWN	None	23817	None	None	32811157	32815004	1	None	FLJ12890, FLJ13165
3	CNOT10	ENSG00000182973	ENST00000454516	protein_coding	KNOWN	CCDS58822	23817	2415	804	32737041	32815204	1	None	FLJ12890, FLJ13165
3	CNOT10	ENSG00000182973	ENST00000538368	protein_coding	KNOWN	None	23817	1161	386	32726856	32804803	1	None	FLJ12890, FLJ13165
19	None	ENSG00000268189	ENST00000597549	retained_intron	KNOWN	None	None	None	None	15489887	15491657	1	None	None
19	None	ENSG00000268189	ENST00000597164	antisense	KNOWN	None	None	None	None	15490123	15492004	1	None	None
11	ZNF195	ENSG00000005801	ENST00000528796	protein_coding	PUTATIVE	None	12986	240	79	3360491	3400363	-1	None	None
11	ZNF195	ENSG00000005801	ENST00000354599	protein_coding	KNOWN	CCDS41604	12986	1674	557	3379157	3400375	-1	None	None
11	ZNF195	ENSG00000005801	ENST00000399602	protein_coding	KNOWN	CCDS44522	12986	1890	629	3379996	3400397	-1	None	None
11	ZNF195	ENSG00000005801	ENST00000429541	protein_coding	KNOWN	CCDS55736	12986	1686	561	3380175	3400448	-1	None	None
11	ZNF195	ENSG00000005801	ENST00000005082	protein_coding	KNOWN	CCDS44521	12986	1821	606	3380224	3400346	-1	None	None
11	ZNF195	ENSG00000005801	ENST00000526601	protein_coding	KNOWN	CCDS55737	12986	1833	610	3380347	3400376	-1	None	None
11	ZNF195	ENSG00000005801	ENST00000438262	protein_coding	PUTATIVE	CCDS58111	12986	273	90	3381227	3400356	-1	None	None
11	ZNF195	ENSG00000005801	ENST00000528410	protein_coding	NOVEL	None	12986	834	277	3381269	3400369	-1	None	None
11	ZNF195	ENSG00000005801	ENST00000528218	nonsense_mediated_decay	KNOWN	CCDS58111	12986	273	90	3381513	3400368	-1	None	None
11	ZNF195	ENSG00000005801	ENST00000529789	retained_intron	KNOWN	None	12986	None	None	3381546	3392377	-1	None	None
11	ZNF195	ENSG00000005801	ENST00000525313	nonsense_mediated_decay	KNOWN	None	12986	240	79	3381550	3400339	-1	None	None
11	ZNF195	ENSG00000005801	ENST00000533036	protein_coding	NOVEL	None	12986	652	216	3381574	3400382	-1	None	None
11	ZNF195	ENSG00000005801	ENST00000529228	nonsense_mediated_decay	KNOWN	None	12986	159	52	3381580	3392301	-1	None	None
11	ZNF195	ENSG00000005801	ENST00000526540	retained_intron	KNOWN	None	12986	None	None	3381615	3383950	-1	None	None
11	ZNF195	ENSG00000005801	ENST00000529678	protein_coding	KNOWN	None	12986	393	130	3381641	3400369	-1	None	None
11	ZNF195	ENSG00000005801	ENST00000526598	retained_intron	KNOWN	None	12986	None	None	3381646	3384061	-1	None	None
11	ZNF195	ENSG00000005801	ENST00000528636	processed_transcript	PUTATIVE	None	12986	None	None	3381683	3388349	-1	None	None
11	ZNF195	ENSG00000005801	ENST00000427810	protein_coding	PUTATIVE	None	12986	359	118	3381708	3400330	-1	None	None
11	ZNF195	ENSG00000005801	ENST00000534569	protein_coding	KNOWN	None	12986	345	114	3383013	3400353	-1	None	None
11	ZNF195	ENSG00000005801	ENST00000524857	processed_transcript	KNOWN	None	12986	None	None	3383039	3400355	-1	None	None
11	ZNF195	ENSG00000005801	ENST00000530643	nonsense_mediated_decay	KNOWN	None	12986	243	80	3383248	3400360	-1	None	None
11	ZNF195	ENSG00000005801	ENST00000330692	processed_transcript	KNOWN	None	12986	None	None	3384548	3400376	-1	None	None
11	ZNF195	ENSG00000005801	ENST00000525502	protein_coding	PUTATIVE	None	12986	440	145	3388074	3400376	-1	None	None
11	ZNF195	ENSG00000005801	ENST00000526501	nonsense_mediated_decay	KNOWN	None	12986	243	80	3388176	3400332	-1	None	None
11	ZNF195	ENSG00000005801	ENST00000532539	protein_coding	PUTATIVE	None	12986	273	90	3390051	3400448	-1	None	None
11	ZNF195	ENSG00000005801	ENST00000529085	retained_intron	KNOWN	None	12986	None	None	3390471	3400364	-1	None	None
11	ZNF195	ENSG00000005801	ENST00000527386	processed_transcript	KNOWN	None	12986	None	None	3392210	3400384	-1	None	None
11	ZNF195	ENSG00000005801	ENST00000343338	protein_coding	KNOWN	CCDS55736	12986	1686	561	3380011	3394821	-1	None	None
6	None	ENSG00000217334	ENST00000406187	processed_pseudogene	KNOWN	None	None	None	None	86441089	86441729	1	None	None
1	DHX9	ENSG00000135829	ENST00000367549	protein_coding	KNOWN	CCDS41444	2750	3813	1270	182808504	182856886	1	LKP, DDX9	RHA
1	DHX9	ENSG00000135829	ENST00000483416	processed_transcript	KNOWN	None	2750	None	None	182808869	182823277	1	LKP, DDX9	RHA
1	DHX9	ENSG00000135829	ENST00000479271	processed_transcript	KNOWN	None	2750	None	None	182823176	182825707	1	LKP, DDX9	RHA
1	DHX9	ENSG00000135829	ENST00000477802	processed_transcript	KNOWN	None	2750	None	None	182827965	182829440	1	LKP, DDX9	RHA
1	DHX9	ENSG00000135829	ENST00000490519	processed_transcript	PUTATIVE	None	2750	None	None	182845264	182845884	1	LKP, DDX9	RHA
1	DHX9	ENSG00000135829	ENST00000474446	processed_transcript	KNOWN	None	2750	None	None	182846049	182850780	1	LKP, DDX9	RHA
1	DHX9	ENSG00000135829	ENST00000485081	processed_transcript	KNOWN	None	2750	None	None	182846553	182856882	1	LKP, DDX9	RHA
1	DHX9	ENSG00000135829	ENST00000473076	processed_transcript	KNOWN	None	2750	None	None	182850420	182856882	1	LKP, DDX9	RHA
6	SMIM11P1	ENSG00000198738	ENST00000369586	processed_pseudogene	KNOWN	None	21400	None	None	86445462	86445639	-1	C6orf161, FAM165A	bA33E24.4
19	UNC13A	ENSG00000130477	ENST00000519716	protein_coding	KNOWN	CCDS46013	23150	5112	1703	17712137	17799008	-1	None	KIAA1032, Munc13-1
19	UNC13A	ENSG00000130477	ENST00000551649	protein_coding	NOVEL	None	23150	5169	1722	17716130	17799158	-1	None	KIAA1032, Munc13-1
19	UNC13A	ENSG00000130477	ENST00000552293	protein_coding	NOVEL	None	23150	5094	1697	17716770	17799135	-1	None	KIAA1032, Munc13-1
19	UNC13A	ENSG00000130477	ENST00000550896	protein_coding	NOVEL	None	23150	5031	1676	17716860	17799174	-1	None	KIAA1032, Munc13-1
19	UNC13A	ENSG00000130477	ENST00000523229	retained_intron	KNOWN	None	23150	None	None	17717123	17722969	-1	None	KIAA1032, Munc13-1
19	UNC13A	ENSG00000130477	ENST00000517497	retained_intron	KNOWN	None	23150	None	None	17720784	17729851	-1	None	KIAA1032, Munc13-1
19	UNC13A	ENSG00000130477	ENST00000601528	retained_intron	KNOWN	None	23150	None	None	17737097	17739146	-1	None	KIAA1032, Munc13-1
19	UNC13A	ENSG00000130477	ENST00000428389	protein_coding	KNOWN	None	23150	5376	1791	17712138	17799401	-1	None	KIAA1032, Munc13-1
19	UNC13A	ENSG00000130477	ENST00000252773	protein_coding	KNOWN	None	23150	5112	1703	17712138	17786978	-1	None	KIAA1032, Munc13-1
HSCHR6_MHC_QBL	SLC39A7	ENSG00000206288	ENST00000414916	protein_coding	KNOWN	None	4927	662	219	33097048	33099295	1	HKE4	H2-KE4, D6S2244E, KE4, RING5, ZIP7
HSCHR6_MHC_QBL	SLC39A7	ENSG00000206288	ENST00000383214	protein_coding	KNOWN	None	4927	1410	469	33097429	33101042	1	HKE4	H2-KE4, D6S2244E, KE4, RING5, ZIP7
HSCHR6_MHC_QBL	SLC39A7	ENSG00000206288	ENST00000383213	protein_coding	KNOWN	None	4927	1410	469	33097476	33101042	1	HKE4	H2-KE4, D6S2244E, KE4, RING5, ZIP7
HSCHR6_MHC_QBL	SLC39A7	ENSG00000206288	ENST00000486373	processed_transcript	PUTATIVE	None	4927	None	None	33097528	33101042	1	HKE4	H2-KE4, D6S2244E, KE4, RING5, ZIP7
HSCHR6_MHC_QBL	SLC39A7	ENSG00000206288	ENST00000491702	processed_transcript	PUTATIVE	None	4927	None	None	33097849	33101042	1	HKE4	H2-KE4, D6S2244E, KE4, RING5, ZIP7
HSCHR6_MHC_QBL	SLC39A7	ENSG00000206288	ENST00000478834	retained_intron	KNOWN	None	4927	None	None	33098858	33101042	1	HKE4	H2-KE4, D6S2244E, KE4, RING5, ZIP7
6	IL20RA	ENSG00000016402	ENST00000316649	protein_coding	KNOWN	CCDS5181	6003	1662	553	137321108	137366101	-1	None	ZCYTOR7, IL-20R1
6	IL20RA	ENSG00000016402	ENST00000468393	processed_transcript	KNOWN	None	6003	None	None	137325758	137366101	-1	None	ZCYTOR7, IL-20R1
6	IL20RA	ENSG00000016402	ENST00000367746	protein_coding	KNOWN	None	6003	630	209	137330025	137366101	-1	None	ZCYTOR7, IL-20R1
6	IL20RA	ENSG00000016402	ENST00000461799	processed_transcript	KNOWN	None	6003	None	None	137359064	137365385	-1	None	ZCYTOR7, IL-20R1
6	IL20RA	ENSG00000016402	ENST00000460306	processed_transcript	KNOWN	None	6003	None	None	137359112	137366101	-1	None	ZCYTOR7, IL-20R1
6	IL20RA	ENSG00000016402	ENST00000541547	protein_coding	KNOWN	None	6003	1515	504	137322429	137365411	-1	None	ZCYTOR7, IL-20R1
6	IL20RA	ENSG00000016402	ENST00000367748	protein_coding	KNOWN	None	6003	1329	442	137321108	137366298	-1	None	ZCYTOR7, IL-20R1
7	FSCN3	ENSG00000106328	ENST00000478328	processed_transcript	KNOWN	None	3961	None	None	127231463	127235522	1	None	None
7	FSCN3	ENSG00000106328	ENST00000265825	protein_coding	KNOWN	CCDS34746	3961	1497	498	127233689	127242198	1	None	None
7	FSCN3	ENSG00000106328	ENST00000478821	protein_coding	PUTATIVE	None	3961	442	146	127233782	127236384	1	None	None
7	FSCN3	ENSG00000106328	ENST00000421705	nonsense_mediated_decay	KNOWN	None	3961	240	79	127233796	127235539	1	None	None
7	FSCN3	ENSG00000106328	ENST00000469242	retained_intron	KNOWN	None	3961	None	None	127235495	127236672	1	None	None
7	FSCN3	ENSG00000106328	ENST00000420086	protein_coding	KNOWN	None	3961	1056	351	127233756	127240446	1	None	None
9	None	ENSG00000234692	ENST00000444701	lincRNA	KNOWN	None	None	None	None	118014817	118016530	-1	None	None
9	None	ENSG00000228714	ENST00000433546	lincRNA	KNOWN	None	None	None	None	118501942	118506518	-1	None	None
9	LINC00474	ENSG00000204148	ENST00000374014	lincRNA	KNOWN	None	23367	None	None	118650448	118687486	-1	C9orf27	EST-YD1
20	NCOA5	ENSG00000124160	ENST00000290231	protein_coding	KNOWN	CCDS13392	15909	1740	579	44689624	44718591	-1	None	bA465L10.6, CIA
20	NCOA5	ENSG00000124160	ENST00000372291	protein_coding	KNOWN	None	15909	314	103	44695694	44718591	-1	None	bA465L10.6, CIA
19	KANK2	ENSG00000197256	ENST00000586659	protein_coding	KNOWN	CCDS12255	29300	2556	851	11274943	11308197	-1	MXRA3, ANKRD25	KIAA1518
19	KANK2	ENSG00000197256	ENST00000588787	protein_coding	NOVEL	None	29300	664	220	11274946	11286623	-1	MXRA3, ANKRD25	KIAA1518
19	KANK2	ENSG00000197256	ENST00000587317	processed_transcript	KNOWN	None	29300	None	None	11276985	11281091	-1	MXRA3, ANKRD25	KIAA1518
19	KANK2	ENSG00000197256	ENST00000589359	protein_coding	KNOWN	CCDS54219	29300	2580	859	11277234	11308223	-1	MXRA3, ANKRD25	KIAA1518
19	KANK2	ENSG00000197256	ENST00000589894	protein_coding	NOVEL	None	29300	2526	841	11280352	11305187	-1	MXRA3, ANKRD25	KIAA1518
19	KANK2	ENSG00000197256	ENST00000590400	retained_intron	KNOWN	None	29300	None	None	11303108	11308467	-1	MXRA3, ANKRD25	KIAA1518
19	KANK2	ENSG00000197256	ENST00000592675	protein_coding	PUTATIVE	None	29300	368	121	11303557	11306361	-1	MXRA3, ANKRD25	KIAA1518
19	KANK2	ENSG00000197256	ENST00000590685	protein_coding	KNOWN	None	29300	443	146	11304313	11305868	-1	MXRA3, ANKRD25	KIAA1518
19	KANK2	ENSG00000197256	ENST00000588724	protein_coding	KNOWN	None	29300	134	43	11304622	11308224	-1	MXRA3, ANKRD25	KIAA1518
19	KANK2	ENSG00000197256	ENST00000592903	protein_coding	KNOWN	None	29300	8	1	11305180	11308206	-1	MXRA3, ANKRD25	KIAA1518
19	KANK2	ENSG00000197256	ENST00000592215	processed_transcript	KNOWN	None	29300	None	None	11305229	11306905	-1	MXRA3, ANKRD25	KIAA1518
19	KANK2	ENSG00000197256	ENST00000590095	processed_transcript	KNOWN	None	29300	None	None	11306299	11306903	-1	MXRA3, ANKRD25	KIAA1518
19	KANK2	ENSG00000197256	ENST00000589427	retained_intron	KNOWN	None	29300	None	None	11306734	11307859	-1	MXRA3, ANKRD25	KIAA1518
19	KANK2	ENSG00000197256	ENST00000432929	protein_coding	KNOWN	CCDS54219	29300	2580	859	11274944	11308243	-1	MXRA3, ANKRD25	KIAA1518
19	KANK2	ENSG00000197256	ENST00000355150	protein_coding	KNOWN	CCDS12255	29300	2556	851	11274944	11305266	-1	MXRA3, ANKRD25	KIAA1518
9	RORB	ENSG00000198963	ENST00000376896	protein_coding	KNOWN	CCDS6646	10259	1380	459	77112281	77302109	1	None	RZRB, NR1F2, ROR-BETA
9	RORB	ENSG00000198963	ENST00000396204	protein_coding	KNOWN	None	10259	1413	470	77230516	77302117	1	None	RZRB, NR1F2, ROR-BETA
2	ERLEC1	ENSG00000068912	ENST00000494373	processed_transcript	PUTATIVE	None	25222	None	None	54014181	54021514	1	C2orf30	CL25084, XTP3TPB, XTP3-B, ERLECTIN
2	ERLEC1	ENSG00000068912	ENST00000405123	protein_coding	NOVEL	CCDS46283	25222	1374	457	54014217	54045357	1	C2orf30	CL25084, XTP3TPB, XTP3-B, ERLECTIN
2	ERLEC1	ENSG00000068912	ENST00000185150	protein_coding	KNOWN	CCDS1848	25222	1452	483	54014217	54045956	1	C2orf30	CL25084, XTP3TPB, XTP3-B, ERLECTIN
2	ERLEC1	ENSG00000068912	ENST00000378239	protein_coding	KNOWN	CCDS46284	25222	1290	429	54014217	54045956	1	C2orf30	CL25084, XTP3TPB, XTP3-B, ERLECTIN
3	RFTN1	ENSG00000131378	ENST00000607320	nonsense_mediated_decay	KNOWN	None	30278	267	88	16355081	16368374	-1	None	MIG2, KIAA0084, FLJ23866, Raftlin
3	RFTN1	ENSG00000131378	ENST00000432519	protein_coding	PUTATIVE	None	30278	1629	542	16357352	16524372	-1	None	MIG2, KIAA0084, FLJ23866, Raftlin
3	RFTN1	ENSG00000131378	ENST00000334133	protein_coding	KNOWN	CCDS33712	30278	1737	578	16357363	16555213	-1	None	MIG2, KIAA0084, FLJ23866, Raftlin
3	RFTN1	ENSG00000131378	ENST00000483671	processed_transcript	KNOWN	None	30278	None	None	16358037	16412473	-1	None	MIG2, KIAA0084, FLJ23866, Raftlin
3	RFTN1	ENSG00000131378	ENST00000451036	protein_coding	KNOWN	None	30278	825	274	16419226	16554881	-1	None	MIG2, KIAA0084, FLJ23866, Raftlin
3	RFTN1	ENSG00000131378	ENST00000495666	processed_transcript	PUTATIVE	None	30278	None	None	16419400	16476277	-1	None	MIG2, KIAA0084, FLJ23866, Raftlin
3	RFTN1	ENSG00000131378	ENST00000484752	processed_transcript	PUTATIVE	None	30278	None	None	16419560	16526342	-1	None	MIG2, KIAA0084, FLJ23866, Raftlin
3	RFTN1	ENSG00000131378	ENST00000470458	processed_transcript	PUTATIVE	None	30278	None	None	16419579	16514106	-1	None	MIG2, KIAA0084, FLJ23866, Raftlin
3	RFTN1	ENSG00000131378	ENST00000449415	protein_coding	KNOWN	None	30278	449	148	16419602	16554411	-1	None	MIG2, KIAA0084, FLJ23866, Raftlin
3	RFTN1	ENSG00000131378	ENST00000441460	protein_coding	KNOWN	None	30278	449	148	16419602	16554429	-1	None	MIG2, KIAA0084, FLJ23866, Raftlin
3	RFTN1	ENSG00000131378	ENST00000453536	nonsense_mediated_decay	KNOWN	None	30278	354	117	16450935	16555029	-1	None	MIG2, KIAA0084, FLJ23866, Raftlin
3	RFTN1	ENSG00000131378	ENST00000431547	protein_coding	KNOWN	None	30278	343	113	16450980	16555533	-1	None	MIG2, KIAA0084, FLJ23866, Raftlin
HSCHR6_MHC_MCF	NFKBIL1	ENSG00000235125	ENST00000430961	protein_coding	KNOWN	None	7800	1077	358	31590993	31602942	1	NFKBIL	IKBL
HSCHR6_MHC_MCF	NFKBIL1	ENSG00000235125	ENST00000442947	protein_coding	KNOWN	None	7800	1146	381	31591703	31602942	1	NFKBIL	IKBL
HSCHR6_MHC_MCF	NFKBIL1	ENSG00000235125	ENST00000421396	protein_coding	KNOWN	None	7800	1101	366	31591735	31602942	1	NFKBIL	IKBL
HSCHR6_MHC_MCF	NFKBIL1	ENSG00000235125	ENST00000464328	processed_transcript	KNOWN	None	7800	None	None	31591762	31601819	1	NFKBIL	IKBL
HSCHR6_MHC_MCF	NFKBIL1	ENSG00000235125	ENST00000472313	retained_intron	KNOWN	None	7800	None	None	31591783	31602073	1	NFKBIL	IKBL
19	PEPD	ENSG00000124299	ENST00000593085	retained_intron	KNOWN	None	8840	None	None	33877856	33880026	-1	None	None
19	PEPD	ENSG00000124299	ENST00000589598	processed_transcript	KNOWN	None	8840	None	None	33877861	33878629	-1	None	None
19	PEPD	ENSG00000124299	ENST00000591968	processed_transcript	KNOWN	None	8840	None	None	33877861	33886054	-1	None	None
19	PEPD	ENSG00000124299	ENST00000244137	protein_coding	KNOWN	CCDS42544	8840	1482	493	33877865	34012700	-1	None	None
19	PEPD	ENSG00000124299	ENST00000397032	protein_coding	NOVEL	CCDS54245	8840	1359	452	33877886	34012697	-1	None	None
19	PEPD	ENSG00000124299	ENST00000436370	protein_coding	NOVEL	CCDS54244	8840	1290	429	33877930	34012694	-1	None	None
19	PEPD	ENSG00000124299	ENST00000588328	protein_coding	PUTATIVE	None	8840	581	192	33882329	33968990	-1	None	None
19	PEPD	ENSG00000124299	ENST00000590731	processed_transcript	KNOWN	None	8840	None	None	33892712	33977986	-1	None	None
19	PEPD	ENSG00000124299	ENST00000593163	protein_coding	PUTATIVE	None	8840	559	185	33892714	34002427	-1	None	None
19	PEPD	ENSG00000124299	ENST00000588719	processed_transcript	KNOWN	None	8840	None	None	33892745	33978293	-1	None	None
19	PEPD	ENSG00000124299	ENST00000590755	retained_intron	KNOWN	None	8840	None	None	33953852	33984245	-1	None	None
19	PEPD	ENSG00000124299	ENST00000590408	retained_intron	KNOWN	None	8840	None	None	33953857	34002044	-1	None	None
7	SMURF1	ENSG00000198742	ENST00000361368	protein_coding	KNOWN	CCDS34689	16807	2196	731	98625061	98741642	-1	None	KIAA1625
7	SMURF1	ENSG00000198742	ENST00000361125	protein_coding	KNOWN	CCDS34690	16807	2274	757	98625064	98741723	-1	None	KIAA1625
7	SMURF1	ENSG00000198742	ENST00000480055	processed_transcript	KNOWN	None	16807	None	None	98649835	98679050	-1	None	KIAA1625
7	SMURF1	ENSG00000198742	ENST00000472627	processed_transcript	KNOWN	None	16807	None	None	98654828	98741642	-1	None	KIAA1625
1	ARHGEF19	ENSG00000142632	ENST00000478117	processed_transcript	KNOWN	None	26604	None	None	16524349	16533506	-1	None	FLJ33962, WGEF
1	ARHGEF19	ENSG00000142632	ENST00000270747	protein_coding	KNOWN	CCDS170	26604	2409	802	16524599	16539104	-1	None	FLJ33962, WGEF
1	ARHGEF19	ENSG00000142632	ENST00000421561	protein_coding	NOVEL	None	26604	1509	502	16524599	16539140	-1	None	FLJ33962, WGEF
1	ARHGEF19	ENSG00000142632	ENST00000449495	protein_coding	KNOWN	None	26604	921	306	16531306	16533038	-1	None	FLJ33962, WGEF
1	ARHGEF19	ENSG00000142632	ENST00000478210	processed_transcript	KNOWN	None	26604	None	None	16531395	16533021	-1	None	FLJ33962, WGEF
1	ARHGEF19	ENSG00000142632	ENST00000471928	processed_transcript	KNOWN	None	26604	None	None	16532122	16533477	-1	None	FLJ33962, WGEF
1	ARHGEF19	ENSG00000142632	ENST00000441785	protein_coding	KNOWN	None	26604	504	167	16532344	16533021	-1	None	FLJ33962, WGEF
10	SLC9A3P3	ENSG00000226631	ENST00000457608	processed_pseudogene	KNOWN	None	33492	None	None	51784895	51787123	-1	None	None
1	MECR	ENSG00000116353	ENST00000373791	protein_coding	KNOWN	CCDS30660	19691	894	297	29519385	29557436	-1	None	CGI-63, NRBF1, FASN2B
1	MECR	ENSG00000116353	ENST00000475773	processed_transcript	KNOWN	None	19691	None	None	29520323	29529713	-1	None	CGI-63, NRBF1, FASN2B
1	MECR	ENSG00000116353	ENST00000483435	processed_transcript	KNOWN	None	19691	None	None	29520329	29527101	-1	None	CGI-63, NRBF1, FASN2B
1	MECR	ENSG00000116353	ENST00000263702	protein_coding	KNOWN	CCDS30659	19691	1122	373	29520329	29557444	-1	None	CGI-63, NRBF1, FASN2B
1	MECR	ENSG00000116353	ENST00000473030	processed_transcript	KNOWN	None	19691	None	None	29520386	29543125	-1	None	CGI-63, NRBF1, FASN2B
1	MECR	ENSG00000116353	ENST00000463412	nonsense_mediated_decay	KNOWN	None	19691	639	212	29520544	29542541	-1	None	CGI-63, NRBF1, FASN2B
1	MECR	ENSG00000116353	ENST00000453185	processed_transcript	KNOWN	None	19691	None	None	29522456	29533340	-1	None	CGI-63, NRBF1, FASN2B
1	MECR	ENSG00000116353	ENST00000478505	processed_transcript	KNOWN	None	19691	None	None	29522459	29547424	-1	None	CGI-63, NRBF1, FASN2B
1	MECR	ENSG00000116353	ENST00000490529	processed_transcript	KNOWN	None	19691	None	None	29522654	29557406	-1	None	CGI-63, NRBF1, FASN2B
1	MECR	ENSG00000116353	ENST00000464511	processed_transcript	KNOWN	None	19691	None	None	29526836	29529682	-1	None	CGI-63, NRBF1, FASN2B
1	MECR	ENSG00000116353	ENST00000463052	processed_transcript	KNOWN	None	19691	None	None	29528529	29557413	-1	None	CGI-63, NRBF1, FASN2B
1	MECR	ENSG00000116353	ENST00000489248	processed_transcript	KNOWN	None	19691	None	None	29529654	29557418	-1	None	CGI-63, NRBF1, FASN2B
1	MECR	ENSG00000116353	ENST00000475861	processed_transcript	KNOWN	None	19691	None	None	29529728	29557409	-1	None	CGI-63, NRBF1, FASN2B
1	MECR	ENSG00000116353	ENST00000474946	processed_transcript	KNOWN	None	19691	None	None	29533286	29557427	-1	None	CGI-63, NRBF1, FASN2B
1	MECR	ENSG00000116353	ENST00000464915	processed_transcript	KNOWN	None	19691	None	None	29542549	29550061	-1	None	CGI-63, NRBF1, FASN2B
1	MECR	ENSG00000116353	ENST00000482610	processed_transcript	KNOWN	None	19691	None	None	29542605	29557403	-1	None	CGI-63, NRBF1, FASN2B
1	MECR	ENSG00000116353	ENST00000484012	processed_transcript	KNOWN	None	19691	None	None	29543113	29557454	-1	None	CGI-63, NRBF1, FASN2B
1	MECR	ENSG00000116353	ENST00000493928	processed_transcript	KNOWN	None	19691	None	None	29547395	29557454	-1	None	CGI-63, NRBF1, FASN2B
10	SLC9A3P1	ENSG00000233011	ENST00000426317	processed_pseudogene	KNOWN	None	11074	None	None	51910363	51912047	1	NHE3P, SLC9A3P	None
10	DYNC1I2P1	ENSG00000225137	ENST00000435916	processed_pseudogene	KNOWN	None	45012	None	None	52024738	52026575	1	None	None
1	GSTM2	ENSG00000213366	ENST00000369831	protein_coding	PUTATIVE	None	4634	663	220	110210644	110252171	1	None	GST4
1	GSTM2	ENSG00000213366	ENST00000460717	protein_coding	KNOWN	CCDS44192	4634	576	191	110210673	110245064	1	None	GST4
1	GSTM2	ENSG00000213366	ENST00000464206	processed_transcript	KNOWN	None	4634	None	None	110210676	110212645	1	None	GST4
1	GSTM2	ENSG00000213366	ENST00000481656	retained_intron	KNOWN	None	4634	None	None	110210679	110211470	1	None	GST4
1	GSTM2	ENSG00000213366	ENST00000476040	retained_intron	KNOWN	None	4634	None	None	110210683	110212721	1	None	GST4
1	GSTM2	ENSG00000213366	ENST00000241337	protein_coding	KNOWN	CCDS808	4634	657	218	110210688	110217908	1	None	GST4
1	GSTM2	ENSG00000213366	ENST00000467579	protein_coding	NOVEL	None	4634	443	146	110210705	110214108	1	None	GST4
1	GSTM2	ENSG00000213366	ENST00000414179	protein_coding	PUTATIVE	None	4634	264	87	110210710	110226206	1	None	GST4
1	GSTM2	ENSG00000213366	ENST00000369829	protein_coding	PUTATIVE	None	4634	582	193	110210714	110216147	1	None	GST4
1	GSTM2	ENSG00000213366	ENST00000568786	retained_intron	KNOWN	None	4634	None	None	110210735	110212098	1	None	GST4
1	GSTM2	ENSG00000213366	ENST00000472225	retained_intron	KNOWN	None	4634	None	None	110212169	110217486	1	None	GST4
1	GSTM2	ENSG00000213366	ENST00000496578	retained_intron	KNOWN	None	4634	None	None	110213281	110217701	1	None	GST4
1	GSTM2	ENSG00000213366	ENST00000442650	protein_coding	KNOWN	CCDS44192	4634	576	191	110210644	110226619	1	None	GST4
1	GSTM2	ENSG00000213366	ENST00000369827	protein_coding	KNOWN	None	4634	540	179	110210644	110217905	1	None	GST4
6	NELFE	ENSG00000204356	ENST00000375429	protein_coding	KNOWN	CCDS4730	13974	1143	380	31919864	31926887	-1	RDBP	RD, D6S45, NELF-E, RDP
6	NELFE	ENSG00000204356	ENST00000492185	retained_intron	KNOWN	None	13974	None	None	31920004	31926815	-1	RDBP	RD, D6S45, NELF-E, RDP
6	NELFE	ENSG00000204356	ENST00000488426	retained_intron	KNOWN	None	13974	None	None	31920005	31926696	-1	RDBP	RD, D6S45, NELF-E, RDP
6	NELFE	ENSG00000204356	ENST00000481121	retained_intron	KNOWN	None	13974	None	None	31920005	31926739	-1	RDBP	RD, D6S45, NELF-E, RDP
6	NELFE	ENSG00000204356	ENST00000375425	protein_coding	PUTATIVE	None	13974	1164	387	31920006	31926629	-1	RDBP	RD, D6S45, NELF-E, RDP
6	NELFE	ENSG00000204356	ENST00000444811	protein_coding	NOVEL	None	13974	1053	350	31920006	31926737	-1	RDBP	RD, D6S45, NELF-E, RDP
6	NELFE	ENSG00000204356	ENST00000441998	protein_coding	NOVEL	None	13974	1001	332	31921535	31926734	-1	RDBP	RD, D6S45, NELF-E, RDP
6	NELFE	ENSG00000204356	ENST00000454913	protein_coding	KNOWN	None	13974	881	292	31922081	31926256	-1	RDBP	RD, D6S45, NELF-E, RDP
6	NELFE	ENSG00000204356	ENST00000436289	protein_coding	NOVEL	None	13974	781	259	31922166	31926348	-1	RDBP	RD, D6S45, NELF-E, RDP
6	NELFE	ENSG00000204356	ENST00000492539	nonsense_mediated_decay	KNOWN	None	13974	174	57	31922550	31926745	-1	RDBP	RD, D6S45, NELF-E, RDP
6	NELFE	ENSG00000204356	ENST00000426722	protein_coding	KNOWN	None	13974	477	158	31922597	31926636	-1	RDBP	RD, D6S45, NELF-E, RDP
6	NELFE	ENSG00000204356	ENST00000491139	retained_intron	KNOWN	None	13974	None	None	31922842	31926742	-1	RDBP	RD, D6S45, NELF-E, RDP
6	NELFE	ENSG00000204356	ENST00000494956	nonsense_mediated_decay	KNOWN	None	13974	111	36	31922861	31926731	-1	RDBP	RD, D6S45, NELF-E, RDP
11	DDB1	ENSG00000167986	ENST00000301764	protein_coding	KNOWN	CCDS31576	2717	3423	1140	61066923	61100838	-1	None	XPE
11	DDB1	ENSG00000167986	ENST00000451943	protein_coding	PUTATIVE	None	2717	384	127	61067028	61070386	-1	None	XPE
11	DDB1	ENSG00000167986	ENST00000545894	retained_intron	KNOWN	None	2717	None	None	61067153	61070023	-1	None	XPE
11	DDB1	ENSG00000167986	ENST00000540166	nonsense_mediated_decay	KNOWN	None	2717	3279	1092	61067523	61110068	-1	None	XPE
11	DDB1	ENSG00000167986	ENST00000538470	protein_coding	PUTATIVE	None	2717	564	187	61067543	61070829	-1	None	XPE
11	DDB1	ENSG00000167986	ENST00000539332	protein_coding	PUTATIVE	None	2717	611	202	61070053	61078821	-1	None	XPE
11	DDB1	ENSG00000167986	ENST00000543658	protein_coding	NOVEL	None	2717	486	161	61077281	61100525	-1	None	XPE
11	DDB1	ENSG00000167986	ENST00000535147	protein_coding	PUTATIVE	None	2717	801	266	61077768	61083757	-1	None	XPE
11	DDB1	ENSG00000167986	ENST00000537877	protein_coding	PUTATIVE	None	2717	722	239	61081010	61089636	-1	None	XPE
11	DDB1	ENSG00000167986	ENST00000414411	retained_intron	KNOWN	None	2717	None	None	61081145	61083222	-1	None	XPE
11	DDB1	ENSG00000167986	ENST00000535967	protein_coding	PUTATIVE	None	2717	816	271	61081332	61090430	-1	None	XPE
11	DDB1	ENSG00000167986	ENST00000539739	protein_coding	PUTATIVE	None	2717	910	302	61081519	61091358	-1	None	XPE
11	DDB1	ENSG00000167986	ENST00000540784	retained_intron	KNOWN	None	2717	None	None	61081520	61091738	-1	None	XPE
11	DDB1	ENSG00000167986	ENST00000538280	processed_transcript	PUTATIVE	None	2717	None	None	61081810	61084041	-1	None	XPE
11	DDB1	ENSG00000167986	ENST00000545930	processed_transcript	KNOWN	None	2717	None	None	61081925	61095023	-1	None	XPE
11	DDB1	ENSG00000167986	ENST00000535174	protein_coding	PUTATIVE	None	2717	763	253	61083753	61094396	-1	None	XPE
11	DDB1	ENSG00000167986	ENST00000539712	retained_intron	KNOWN	None	2717	None	None	61088727	61094369	-1	None	XPE
11	DDB1	ENSG00000167986	ENST00000541513	protein_coding	PUTATIVE	None	2717	546	181	61089789	61093701	-1	None	XPE
11	DDB1	ENSG00000167986	ENST00000537120	retained_intron	KNOWN	None	2717	None	None	61091230	61100513	-1	None	XPE
11	DDB1	ENSG00000167986	ENST00000543162	processed_transcript	KNOWN	None	2717	None	None	61091556	61100538	-1	None	XPE
11	DDB1	ENSG00000167986	ENST00000539426	protein_coding	PUTATIVE	None	2717	496	164	61094251	61100307	-1	None	XPE
11	DDB1	ENSG00000167986	ENST00000535283	protein_coding	PUTATIVE	None	2717	418	138	61096798	61099858	-1	None	XPE
11	DDB1	ENSG00000167986	ENST00000538129	retained_intron	KNOWN	None	2717	None	None	61096834	61097681	-1	None	XPE
11	DDB1	ENSG00000167986	ENST00000542337	protein_coding	KNOWN	None	2717	438	145	61096946	61100696	-1	None	XPE
11	DDB1	ENSG00000167986	ENST00000543627	protein_coding	KNOWN	None	2717	328	108	61097429	61101247	-1	None	XPE
11	DDB1	ENSG00000167986	ENST00000450997	protein_coding	KNOWN	None	2717	1356	451	61067248	61100525	-1	None	XPE
10	None	ENSG00000225303	ENST00000437213	antisense	KNOWN	None	None	None	None	52232574	52234006	1	None	None
10	RMRPP4	ENSG00000251950	ENST00000516141	misc_RNA	KNOWN	None	47034	None	None	52345310	52345463	-1	None	None
16	None	ENSG00000265408	ENST00000566869	processed_transcript	KNOWN	None	None	None	None	66976615	66997159	1	None	None
10	RNU7-107P	ENSG00000238523	ENST00000459121	snRNA	KNOWN	None	45641	None	None	52350412	52350472	-1	None	None
10	None	ENSG00000230036	ENST00000456511	pseudogene	KNOWN	None	None	None	None	52365750	52365953	-1	None	None
16	RN7SL543P	ENSG00000265918	ENST00000580506	misc_RNA	KNOWN	None	46559	None	None	67053422	67053718	1	None	None
7	CNOT4	ENSG00000080802	ENST00000451834	protein_coding	NOVEL	CCDS55167	7880	2133	710	135046549	135194828	-1	NOT4	CLONE243, NOT4H
7	CNOT4	ENSG00000080802	ENST00000423368	protein_coding	KNOWN	CCDS55164	7880	1929	642	135046550	135194825	-1	NOT4	CLONE243, NOT4H
7	CNOT4	ENSG00000080802	ENST00000361528	protein_coding	KNOWN	CCDS43650	7880	1920	639	135047637	135194839	-1	NOT4	CLONE243, NOT4H
7	CNOT4	ENSG00000080802	ENST00000473470	processed_transcript	PUTATIVE	None	7880	None	None	135047751	135072639	-1	NOT4	CLONE243, NOT4H
7	CNOT4	ENSG00000080802	ENST00000414802	protein_coding	KNOWN	None	7880	1302	433	135069042	135123079	-1	NOT4	CLONE243, NOT4H
7	CNOT4	ENSG00000080802	ENST00000428680	protein_coding	KNOWN	CCDS47719	7880	1719	572	135070903	135194824	-1	NOT4	CLONE243, NOT4H
7	CNOT4	ENSG00000080802	ENST00000491203	processed_transcript	KNOWN	None	7880	None	None	135106970	135194441	-1	NOT4	CLONE243, NOT4H
7	CNOT4	ENSG00000080802	ENST00000498534	processed_transcript	KNOWN	None	7880	None	None	135107025	135194686	-1	NOT4	CLONE243, NOT4H
7	CNOT4	ENSG00000080802	ENST00000465721	processed_transcript	KNOWN	None	7880	None	None	135107063	135194465	-1	NOT4	CLONE243, NOT4H
7	CNOT4	ENSG00000080802	ENST00000541284	protein_coding	KNOWN	CCDS55165	7880	2142	713	135046547	135194875	-1	NOT4	CLONE243, NOT4H
7	CNOT4	ENSG00000080802	ENST00000356162	protein_coding	KNOWN	None	7880	1302	433	135069427	135194851	-1	NOT4	CLONE243, NOT4H
7	CNOT4	ENSG00000080802	ENST00000315544	protein_coding	KNOWN	CCDS55166	7880	1728	575	135070923	135194824	-1	NOT4	CLONE243, NOT4H
10	None	ENSG00000226200	ENST00000443374	antisense	KNOWN	None	None	None	None	52388910	52391396	1	None	None
16	MIR328	ENSG00000207948	ENST00000385213	miRNA	KNOWN	None	31770	None	None	67236224	67236298	-1	MIRN328	hsa-mir-328
10	None	ENSG00000231588	ENST00000437111	processed_pseudogene	KNOWN	None	None	None	None	52389292	52390835	-1	None	None
16	None	ENSG00000262691	ENST00000573063	retained_intron	KNOWN	None	None	None	None	67295011	67297687	1	None	None
16	RN7SKP118	ENSG00000201201	ENST00000364331	misc_RNA	KNOWN	None	45842	None	None	67355561	67355890	-1	None	None
21	TFF2	ENSG00000160181	ENST00000291526	protein_coding	KNOWN	CCDS13684	11756	390	129	43766466	43771237	-1	SML1	None
21	TFF2	ENSG00000160181	ENST00000463771	processed_transcript	KNOWN	None	11756	None	None	43766483	43771106	-1	SML1	None
21	TFF2	ENSG00000160181	ENST00000475297	processed_transcript	KNOWN	None	11756	None	None	43766531	43771103	-1	SML1	None
16	RNU1-123P	ENSG00000239194	ENST00000458950	snRNA	KNOWN	None	48465	None	None	67424594	67424753	-1	None	None
16	None	ENSG00000261320	ENST00000567261	lincRNA	KNOWN	None	None	None	None	67464570	67465367	-1	None	None
17	TAC4	ENSG00000176358	ENST00000352793	protein_coding	KNOWN	CCDS42358	16641	231	76	47915671	47925379	-1	None	HK-1, Pptc, PPT-C
17	TAC4	ENSG00000176358	ENST00000334568	protein_coding	KNOWN	CCDS42357	16641	342	113	47915671	47925379	-1	None	HK-1, Pptc, PPT-C
17	TAC4	ENSG00000176358	ENST00000398154	protein_coding	KNOWN	CCDS42359	16641	291	96	47915671	47925379	-1	None	HK-1, Pptc, PPT-C
17	TAC4	ENSG00000176358	ENST00000436235	protein_coding	KNOWN	CCDS45727	16641	324	107	47915671	47925379	-1	None	HK-1, Pptc, PPT-C
17	TAC4	ENSG00000176358	ENST00000326219	protein_coding	KNOWN	CCDS42360	16641	264	87	47915671	47925379	-1	None	HK-1, Pptc, PPT-C
17	TAC4	ENSG00000176358	ENST00000503603	nonsense_mediated_decay	KNOWN	None	16641	162	53	47921422	47925379	-1	None	HK-1, Pptc, PPT-C
16	None	ENSG00000203401	ENST00000366223	pseudogene	NOVEL	None	None	None	None	67466595	67468931	1	None	None
19	ZNF486	ENSG00000256229	ENST00000597083	protein_coding	PUTATIVE	None	20807	387	128	20278037	20299585	1	KRBO2	MGC2396
19	ZNF486	ENSG00000256229	ENST00000335117	protein_coding	KNOWN	CCDS46029	20807	1392	463	20278083	20311299	1	KRBO2	MGC2396
22	MIAT	ENSG00000225783	ENST00000421867	processed_transcript	KNOWN	None	33425	None	None	27042392	27061841	1	C22orf35	FLJ25967, Rncr2, gomafu, NCRNA00066, LINC00066
22	MIAT	ENSG00000225783	ENST00000418918	processed_transcript	KNOWN	None	33425	None	None	27042604	27061603	1	C22orf35	FLJ25967, Rncr2, gomafu, NCRNA00066, LINC00066
22	MIAT	ENSG00000225783	ENST00000440347	processed_transcript	KNOWN	None	33425	None	None	27043175	27061701	1	C22orf35	FLJ25967, Rncr2, gomafu, NCRNA00066, LINC00066
22	MIAT	ENSG00000225783	ENST00000450203	processed_transcript	KNOWN	None	33425	None	None	27043188	27061873	1	C22orf35	FLJ25967, Rncr2, gomafu, NCRNA00066, LINC00066
22	MIAT	ENSG00000225783	ENST00000430483	processed_transcript	KNOWN	None	33425	None	None	27043192	27061773	1	C22orf35	FLJ25967, Rncr2, gomafu, NCRNA00066, LINC00066
22	MIAT	ENSG00000225783	ENST00000439738	processed_transcript	KNOWN	None	33425	None	None	27053190	27061836	1	C22orf35	FLJ25967, Rncr2, gomafu, NCRNA00066, LINC00066
22	MIAT	ENSG00000225783	ENST00000422403	processed_transcript	KNOWN	None	33425	None	None	27053220	27061733	1	C22orf35	FLJ25967, Rncr2, gomafu, NCRNA00066, LINC00066
22	MIAT	ENSG00000225783	ENST00000436238	processed_transcript	KNOWN	None	33425	None	None	27053220	27062159	1	C22orf35	FLJ25967, Rncr2, gomafu, NCRNA00066, LINC00066
22	MIAT	ENSG00000225783	ENST00000425476	processed_transcript	KNOWN	None	33425	None	None	27053231	27061779	1	C22orf35	FLJ25967, Rncr2, gomafu, NCRNA00066, LINC00066
22	MIAT	ENSG00000225783	ENST00000455640	processed_transcript	KNOWN	None	33425	None	None	27053244	27061882	1	C22orf35	FLJ25967, Rncr2, gomafu, NCRNA00066, LINC00066
22	MIAT	ENSG00000225783	ENST00000451141	processed_transcript	KNOWN	None	33425	None	None	27053244	27061913	1	C22orf35	FLJ25967, Rncr2, gomafu, NCRNA00066, LINC00066
22	MIAT	ENSG00000225783	ENST00000452429	processed_transcript	KNOWN	None	33425	None	None	27053248	27061987	1	C22orf35	FLJ25967, Rncr2, gomafu, NCRNA00066, LINC00066
22	MIAT	ENSG00000225783	ENST00000423278	processed_transcript	KNOWN	None	33425	None	None	27053336	27072438	1	C22orf35	FLJ25967, Rncr2, gomafu, NCRNA00066, LINC00066
22	MIAT	ENSG00000225783	ENST00000413665	processed_transcript	KNOWN	None	33425	None	None	27053422	27062144	1	C22orf35	FLJ25967, Rncr2, gomafu, NCRNA00066, LINC00066
22	MIAT	ENSG00000225783	ENST00000421151	processed_transcript	KNOWN	None	33425	None	None	27053432	27072438	1	C22orf35	FLJ25967, Rncr2, gomafu, NCRNA00066, LINC00066
22	MIAT	ENSG00000225783	ENST00000456129	processed_transcript	KNOWN	None	33425	None	None	27053484	27072438	1	C22orf35	FLJ25967, Rncr2, gomafu, NCRNA00066, LINC00066
22	MIAT	ENSG00000225783	ENST00000430080	processed_transcript	KNOWN	None	33425	None	None	27053484	27072438	1	C22orf35	FLJ25967, Rncr2, gomafu, NCRNA00066, LINC00066
22	MIAT	ENSG00000225783	ENST00000458302	processed_transcript	KNOWN	None	33425	None	None	27053552	27061816	1	C22orf35	FLJ25967, Rncr2, gomafu, NCRNA00066, LINC00066
22	MIAT	ENSG00000225783	ENST00000419237	processed_transcript	KNOWN	None	33425	None	None	27053553	27062002	1	C22orf35	FLJ25967, Rncr2, gomafu, NCRNA00066, LINC00066
22	MIAT	ENSG00000225783	ENST00000449717	processed_transcript	KNOWN	None	33425	None	None	27053575	27061643	1	C22orf35	FLJ25967, Rncr2, gomafu, NCRNA00066, LINC00066
22	MIAT	ENSG00000225783	ENST00000453023	processed_transcript	KNOWN	None	33425	None	None	27053578	27061757	1	C22orf35	FLJ25967, Rncr2, gomafu, NCRNA00066, LINC00066
16	None	ENSG00000270049	ENST00000602592	retained_intron	KNOWN	None	None	None	None	67515217	67515859	1	None	None
16	None	ENSG00000270049	ENST00000602596	antisense	KNOWN	None	None	None	None	67515287	67518572	1	None	None
16	None	ENSG00000270049	ENST00000602476	processed_transcript	KNOWN	None	None	None	None	67518145	67521153	1	None	None
20	RGS19	ENSG00000171700	ENST00000332298	protein_coding	KNOWN	CCDS13555	13735	654	217	62704537	62711323	-1	None	GAIP, RGSGAIP
20	RGS19	ENSG00000171700	ENST00000493165	processed_transcript	KNOWN	None	13735	None	None	62705820	62711164	-1	None	GAIP, RGSGAIP
20	RGS19	ENSG00000171700	ENST00000479996	processed_transcript	KNOWN	None	13735	None	None	62707917	62710778	-1	None	GAIP, RGSGAIP
20	RGS19	ENSG00000171700	ENST00000395042	protein_coding	KNOWN	CCDS13555	13735	654	217	62704534	62710845	-1	None	GAIP, RGSGAIP
7	None	ENSG00000200874	ENST00000364004	misc_RNA	NOVEL	None	None	None	None	75142349	75142450	-1	None	None
7	RN7SL642P	ENSG00000264312	ENST00000581382	misc_RNA	KNOWN	None	46658	None	None	75209959	75210221	-1	None	None
4	None	ENSG00000249458	ENST00000510203	lincRNA	KNOWN	None	None	None	None	177787768	177796611	-1	None	None
7	None	ENSG00000219039	ENST00000403118	processed_pseudogene	KNOWN	None	None	None	None	75464981	75465459	1	None	None
10	None	ENSG00000231345	ENST00000449695	processed_transcript	KNOWN	None	None	None	None	52415727	52420028	1	None	None
10	None	ENSG00000231345	ENST00000421591	transcribed_processed_pseudogene	KNOWN	None	None	None	None	52418289	52420232	1	None	None
7	MIR4651	ENSG00000265020	ENST00000582622	miRNA	KNOWN	None	41647	None	None	75544515	75544587	1	None	hsa-mir-4651
20	CD40	ENSG00000101017	ENST00000372285	protein_coding	KNOWN	CCDS13393	11919	834	277	44746911	44758502	1	TNFRSF5	p50, Bp50
20	CD40	ENSG00000101017	ENST00000372276	protein_coding	KNOWN	CCDS13394	11919	612	203	44746955	44758502	1	TNFRSF5	p50, Bp50
20	CD40	ENSG00000101017	ENST00000466205	nonsense_mediated_decay	KNOWN	None	11919	479	158	44746987	44757765	1	TNFRSF5	p50, Bp50
20	CD40	ENSG00000101017	ENST00000489304	processed_transcript	KNOWN	None	11919	None	None	44746990	44758502	1	TNFRSF5	p50, Bp50
20	CD40	ENSG00000101017	ENST00000477696	processed_transcript	KNOWN	None	11919	None	None	44747012	44757643	1	TNFRSF5	p50, Bp50
20	CD40	ENSG00000101017	ENST00000461171	processed_transcript	KNOWN	None	11919	None	None	44750957	44755800	1	TNFRSF5	p50, Bp50
18	SKA1	ENSG00000154839	ENST00000285116	protein_coding	KNOWN	CCDS11946	28109	768	255	47901365	47920543	1	C18orf24	MGC10200
18	SKA1	ENSG00000154839	ENST00000398452	protein_coding	KNOWN	CCDS11946	28109	768	255	47901410	47918617	1	C18orf24	MGC10200
18	SKA1	ENSG00000154839	ENST00000417656	protein_coding	KNOWN	None	28109	630	209	47901413	47918919	1	C18orf24	MGC10200
18	SKA1	ENSG00000154839	ENST00000488454	protein_coding	PUTATIVE	None	28109	315	104	47901416	47918621	1	C18orf24	MGC10200
18	SKA1	ENSG00000154839	ENST00000494518	protein_coding	PUTATIVE	None	28109	273	90	47901431	47918530	1	C18orf24	MGC10200
10	NUTM2HP	ENSG00000232706	ENST00000442076	unprocessed_pseudogene	KNOWN	None	45017	None	None	52436503	52446086	1	FAM22HP	None
13	DNAJC15	ENSG00000120675	ENST00000474320	processed_transcript	KNOWN	None	20325	None	None	43597339	43653013	1	DNAJD1	MCJ
13	DNAJC15	ENSG00000120675	ENST00000379221	protein_coding	KNOWN	CCDS9388	20325	453	150	43597339	43683045	1	DNAJD1	MCJ
2	LYPD6B	ENSG00000150556	ENST00000473800	processed_transcript	KNOWN	None	27018	None	None	149894621	149958097	1	None	CT116, LYPD7
2	LYPD6B	ENSG00000150556	ENST00000409642	protein_coding	KNOWN	CCDS46423	27018	624	207	149894981	150071776	1	None	CT116, LYPD7
2	LYPD6B	ENSG00000150556	ENST00000409876	protein_coding	KNOWN	None	27018	552	183	149895232	150071770	1	None	CT116, LYPD7
2	LYPD6B	ENSG00000150556	ENST00000409029	protein_coding	KNOWN	None	27018	552	183	149934036	150071776	1	None	CT116, LYPD7
2	LYPD6B	ENSG00000150556	ENST00000480545	processed_transcript	KNOWN	None	27018	None	None	149974688	149988102	1	None	CT116, LYPD7
2	LYPD6B	ENSG00000150556	ENST00000473975	processed_transcript	KNOWN	None	27018	None	None	149974688	150061836	1	None	CT116, LYPD7
2	LYPD6B	ENSG00000150556	ENST00000437627	nonsense_mediated_decay	KNOWN	None	27018	153	50	149974695	150057222	1	None	CT116, LYPD7
2	LYPD6B	ENSG00000150556	ENST00000450639	protein_coding	PUTATIVE	None	27018	225	74	149974710	150044149	1	None	CT116, LYPD7
2	LYPD6B	ENSG00000150556	ENST00000442722	nonsense_mediated_decay	KNOWN	None	27018	165	54	149975617	150064881	1	None	CT116, LYPD7
2	LYPD6B	ENSG00000150556	ENST00000498249	processed_transcript	KNOWN	None	27018	None	None	149998550	150071776	1	None	CT116, LYPD7
2	LYPD6B	ENSG00000150556	ENST00000280115	protein_coding	KNOWN	None	27018	624	207	150016990	150071772	1	None	CT116, LYPD7
19	ZNF441	ENSG00000197044	ENST00000462251	retained_intron	KNOWN	None	20875	None	None	11877815	11888788	1	None	FLJ38637
19	ZNF441	ENSG00000197044	ENST00000409902	nonsense_mediated_decay	KNOWN	None	20875	135	44	11877907	11893301	1	None	FLJ38637
19	ZNF441	ENSG00000197044	ENST00000357901	protein_coding	KNOWN	CCDS12266	20875	2082	693	11877907	11894893	1	None	FLJ38637
19	ZNF441	ENSG00000197044	ENST00000454339	protein_coding	KNOWN	None	20875	1881	626	11877907	11893301	1	None	FLJ38637
8	WISP1	ENSG00000104415	ENST00000377862	nonsense_mediated_decay	KNOWN	None	12769	111	36	134203282	134240603	1	None	CCN4
8	WISP1	ENSG00000104415	ENST00000250160	protein_coding	KNOWN	CCDS6371	12769	1104	367	134203282	134242587	1	None	CCN4
8	WISP1	ENSG00000104415	ENST00000519433	protein_coding	NOVEL	CCDS56556	12769	369	122	134203312	134240053	1	None	CCN4
8	WISP1	ENSG00000104415	ENST00000517423	protein_coding	PUTATIVE	CCDS56555	12769	468	155	134203327	134239959	1	None	CCN4
8	WISP1	ENSG00000104415	ENST00000220856	protein_coding	KNOWN	CCDS6372	12769	843	280	134203380	134240307	1	None	CCN4
8	WISP1	ENSG00000104415	ENST00000377863	protein_coding	KNOWN	None	12769	588	195	134203327	134239959	1	None	CCN4
10	TUBGCP2	ENSG00000130640	ENST00000252936	protein_coding	KNOWN	CCDS7676	18599	2709	902	135093135	135116485	-1	None	GCP2, Spc97p, SPBC97
10	TUBGCP2	ENSG00000130640	ENST00000477923	processed_transcript	KNOWN	None	18599	None	None	135093144	135095026	-1	None	GCP2, Spc97p, SPBC97
10	TUBGCP2	ENSG00000130640	ENST00000368562	protein_coding	KNOWN	None	18599	1488	495	135093145	135104538	-1	None	GCP2, Spc97p, SPBC97
10	TUBGCP2	ENSG00000130640	ENST00000482278	nonsense_mediated_decay	KNOWN	None	18599	2166	721	135093146	135125841	-1	None	GCP2, Spc97p, SPBC97
10	TUBGCP2	ENSG00000130640	ENST00000487796	nonsense_mediated_decay	KNOWN	None	18599	237	78	135111491	135122364	-1	None	GCP2, Spc97p, SPBC97
10	TUBGCP2	ENSG00000130640	ENST00000470829	processed_transcript	KNOWN	None	18599	None	None	135112939	135122638	-1	None	GCP2, Spc97p, SPBC97
10	TUBGCP2	ENSG00000130640	ENST00000480198	retained_intron	KNOWN	None	18599	None	None	135115205	135122352	-1	None	GCP2, Spc97p, SPBC97
10	TUBGCP2	ENSG00000130640	ENST00000368563	protein_coding	KNOWN	CCDS7676	18599	2709	902	135093138	135122644	-1	None	GCP2, Spc97p, SPBC97
10	TUBGCP2	ENSG00000130640	ENST00000543663	protein_coding	KNOWN	CCDS58105	18599	2793	930	135093233	135116485	-1	None	GCP2, Spc97p, SPBC97
10	TUBGCP2	ENSG00000130640	ENST00000417178	protein_coding	KNOWN	CCDS58104	18599	2319	772	135093136	135122382	-1	None	GCP2, Spc97p, SPBC97
10	None	ENSG00000234811	ENST00000437408	processed_pseudogene	KNOWN	None	None	None	None	32400572	32400717	-1	None	None
X	CXorf58	ENSG00000165182	ENST00000379211	protein_coding	KNOWN	CCDS14209	26356	999	332	23925918	23957624	1	None	FLJ25444
X	CXorf58	ENSG00000165182	ENST00000435707	protein_coding	KNOWN	None	26356	379	125	23928500	23934618	1	None	FLJ25444
21	TFF1	ENSG00000160182	ENST00000291527	protein_coding	KNOWN	CCDS13685	11755	255	84	43782391	43786703	-1	BCEI	D21S21, HPS2, pS2, pNR-2, HP1.A
19	ZNF285	ENSG00000267508	ENST00000330997	protein_coding	KNOWN	CCDS12638	13079	1773	590	44886459	44905755	-1	ZNF285A	None
19	ZNF285	ENSG00000267508	ENST00000544719	protein_coding	KNOWN	CCDS12638	13079	1773	590	44889811	44905742	-1	ZNF285A	None
19	ZNF285	ENSG00000267508	ENST00000591679	protein_coding	NOVEL	None	13079	1794	597	44890091	44905741	-1	ZNF285A	None
19	ZNF285	ENSG00000267508	ENST00000585868	protein_coding	PUTATIVE	None	13079	118	38	44891824	44905774	-1	ZNF285A	None
19	ZNF285	ENSG00000267508	ENST00000589738	nonsense_mediated_decay	KNOWN	None	13079	171	56	44892084	44905767	-1	ZNF285A	None
19	ZNF285	ENSG00000267508	ENST00000589885	retained_intron	KNOWN	None	13079	None	None	44900827	44905767	-1	ZNF285A	None
4	None	ENSG00000250263	ENST00000508790	lincRNA	KNOWN	None	None	None	None	177796856	177801759	1	None	None
2	C2orf44	ENSG00000163026	ENST00000295148	protein_coding	KNOWN	CCDS1705	26157	2166	721	24252210	24270223	-1	None	FLJ21945
2	C2orf44	ENSG00000163026	ENST00000406895	protein_coding	NOVEL	CCDS46229	26157	1869	622	24252217	24270231	-1	None	FLJ21945
2	C2orf44	ENSG00000163026	ENST00000443232	protein_coding	KNOWN	None	26157	522	173	24261843	24272445	-1	None	FLJ21945
4	None	ENSG00000248282	ENST00000514835	processed_pseudogene	KNOWN	None	None	None	None	82654539	82655361	-1	None	None
5	TSSK1B	ENSG00000212122	ENST00000390666	protein_coding	KNOWN	CCDS4112	14968	1104	367	112768251	112770728	-1	STK22D, TSSK1	SPOGA4, FKSG81
4	ZSWIM5P3	ENSG00000248958	ENST00000511265	processed_pseudogene	KNOWN	None	43770	None	None	130057081	130060895	-1	None	None
10	RNU7-22P	ENSG00000252482	ENST00000516673	snRNA	KNOWN	None	34118	None	None	32462612	32462672	1	None	U7.22
12	SLC26A10	ENSG00000135502	ENST00000474359	nonsense_mediated_decay	KNOWN	None	14470	1563	520	58013310	58019923	1	None	None
12	SLC26A10	ENSG00000135502	ENST00000320442	protein_coding	KNOWN	CCDS8949	14470	1692	563	58013693	58019914	1	None	None
12	SLC26A10	ENSG00000135502	ENST00000440686	nonsense_mediated_decay	KNOWN	None	14470	1237	411	58014132	58019933	1	None	None
12	SLC26A10	ENSG00000135502	ENST00000497297	retained_intron	KNOWN	None	14470	None	None	58014686	58015480	1	None	None
12	SLC26A10	ENSG00000135502	ENST00000463802	retained_intron	KNOWN	None	14470	None	None	58014830	58016554	1	None	None
12	SLC26A10	ENSG00000135502	ENST00000487816	retained_intron	KNOWN	None	14470	None	None	58017469	58019934	1	None	None
12	SLC26A10	ENSG00000135502	ENST00000474791	retained_intron	KNOWN	None	14470	None	None	58018049	58019332	1	None	None
12	SLC26A10	ENSG00000135502	ENST00000490243	processed_transcript	KNOWN	None	14470	None	None	58018297	58019933	1	None	None
12	SLC26A10	ENSG00000135502	ENST00000483647	processed_transcript	KNOWN	None	14470	None	None	58018679	58019934	1	None	None
12	SLC26A10	ENSG00000135502	ENST00000379218	protein_coding	KNOWN	None	14470	1365	454	58013693	58019933	1	None	None
1	C1orf134	ENSG00000204377	ENST00000375605	protein_coding	KNOWN	None	32021	252	83	16555368	16556038	-1	None	None
4	COX5BP1	ENSG00000248448	ENST00000507622	processed_pseudogene	KNOWN	None	2270	None	None	82841148	82841540	-1	COX5BL1	None
4	None	ENSG00000251195	ENST00000514691	processed_pseudogene	KNOWN	None	None	None	None	130098541	130100249	1	None	None
4	RN7SKP136	ENSG00000222859	ENST00000410927	misc_RNA	KNOWN	None	45860	None	None	178102596	178102895	1	None	None
22	None	ENSG00000206028	ENST00000382641	processed_transcript	KNOWN	None	None	None	None	27063656	27068617	-1	None	None
4	None	ENSG00000249084	ENST00000506895	antisense	KNOWN	None	None	None	None	178264158	178278186	-1	None	None
HSCHR6_MHC_SSTO	CLIC1	ENSG00000223639	ENST00000425464	protein_coding	KNOWN	None	2062	726	241	31688317	31694309	-1	None	NCC27, p64CLCP
HSCHR6_MHC_SSTO	CLIC1	ENSG00000223639	ENST00000423143	protein_coding	KNOWN	None	2062	726	241	31688317	31694314	-1	None	NCC27, p64CLCP
HSCHR6_MHC_SSTO	CLIC1	ENSG00000223639	ENST00000438750	protein_coding	KNOWN	None	2062	726	241	31688317	31695060	-1	None	NCC27, p64CLCP
HSCHR6_MHC_SSTO	CLIC1	ENSG00000223639	ENST00000451546	protein_coding	KNOWN	None	2062	726	241	31688317	31697500	-1	None	NCC27, p64CLCP
4	None	ENSG00000250131	ENST00000507023	antisense	KNOWN	None	None	None	None	178366133	178598280	1	None	None
1	RSG1	ENSG00000132881	ENST00000375599	protein_coding	KNOWN	CCDS171	28127	777	258	16558195	16563657	-1	C1orf89	MGC10731
1	RSG1	ENSG00000132881	ENST00000434014	protein_coding	PUTATIVE	None	28127	336	111	16558776	16563154	-1	C1orf89	MGC10731
10	PPIAP31	ENSG00000217094	ENST00000405422	processed_pseudogene	KNOWN	None	44962	None	None	32477251	32477745	-1	None	None
13	FLT1	ENSG00000102755	ENST00000282397	protein_coding	KNOWN	CCDS9330	3763	4017	1338	28874489	29069232	-1	FLT	VEGFR1
13	FLT1	ENSG00000102755	ENST00000540678	protein_coding	KNOWN	None	3763	1671	556	28877281	28920426	-1	FLT	VEGFR1
13	FLT1	ENSG00000102755	ENST00000543394	protein_coding	KNOWN	None	3763	1086	361	28877271	28896770	-1	FLT	VEGFR1
13	FLT1	ENSG00000102755	ENST00000541932	protein_coding	KNOWN	CCDS53860	3763	2202	733	28942234	29069265	-1	FLT	VEGFR1
13	FLT1	ENSG00000102755	ENST00000539099	protein_coding	KNOWN	CCDS53861	3763	1626	541	28973181	29069265	-1	FLT	VEGFR1
3	VHL	ENSG00000134086	ENST00000256474	protein_coding	KNOWN	CCDS2597	12687	642	213	10182692	10193904	1	None	VHL1
3	VHL	ENSG00000134086	ENST00000345392	protein_coding	KNOWN	CCDS2598	12687	519	172	10183472	10193766	1	None	VHL1
3	VHL	ENSG00000134086	ENST00000477538	processed_transcript	KNOWN	None	12687	None	None	10184230	10191829	1	None	VHL1
5	None	ENSG00000249990	ENST00000515611	processed_pseudogene	KNOWN	None	None	None	None	97745379	97745804	-1	None	None
HSCHR6_MHC_QBL	EHMT2	ENSG00000206376	ENST00000470058	processed_transcript	KNOWN	None	14129	None	None	31837931	31842977	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_QBL	EHMT2	ENSG00000206376	ENST00000465456	retained_intron	KNOWN	None	14129	None	None	31837931	31843312	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_QBL	EHMT2	ENSG00000206376	ENST00000466693	processed_transcript	KNOWN	None	14129	None	None	31837931	31844608	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_QBL	EHMT2	ENSG00000206376	ENST00000400006	protein_coding	PUTATIVE	None	14129	3804	1267	31837931	31855373	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_QBL	EHMT2	ENSG00000206376	ENST00000469681	processed_transcript	KNOWN	None	14129	None	None	31837931	31855377	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_QBL	EHMT2	ENSG00000206376	ENST00000400008	protein_coding	PUTATIVE	None	14129	3702	1233	31837931	31855393	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_QBL	EHMT2	ENSG00000206376	ENST00000383372	protein_coding	KNOWN	None	14129	3531	1176	31837931	31855848	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_QBL	EHMT2	ENSG00000206376	ENST00000383373	protein_coding	KNOWN	None	14129	3633	1210	31837931	31855870	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_QBL	EHMT2	ENSG00000206376	ENST00000419454	protein_coding	KNOWN	None	14129	894	297	31841990	31845235	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_QBL	EHMT2	ENSG00000206376	ENST00000465594	retained_intron	KNOWN	None	14129	None	None	31842844	31845290	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_QBL	EHMT2	ENSG00000206376	ENST00000497867	retained_intron	KNOWN	None	14129	None	None	31850589	31851357	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_QBL	EHMT2	ENSG00000206376	ENST00000494285	retained_intron	KNOWN	None	14129	None	None	31853572	31855858	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_QBL	EHMT2	ENSG00000206376	ENST00000550866	protein_coding	KNOWN	None	14129	3096	1031	31837937	31851556	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
22	None	ENSG00000244625	ENST00000444388	processed_transcript	KNOWN	None	None	None	None	27068730	27130418	1	None	None
22	None	ENSG00000244625	ENST00000450963	processed_transcript	KNOWN	None	None	None	None	27068740	27172811	1	None	None
22	None	ENSG00000244625	ENST00000449017	processed_transcript	KNOWN	None	None	None	None	27068754	27113422	1	None	None
22	None	ENSG00000244625	ENST00000435162	processed_transcript	KNOWN	None	None	None	None	27068768	27174598	1	None	None
22	None	ENSG00000244625	ENST00000437071	processed_transcript	KNOWN	None	None	None	None	27068768	27176170	1	None	None
22	None	ENSG00000244625	ENST00000440816	processed_transcript	KNOWN	None	None	None	None	27068777	27172845	1	None	None
22	None	ENSG00000244625	ENST00000421253	processed_transcript	KNOWN	None	None	None	None	27068819	27114355	1	None	None
22	None	ENSG00000244625	ENST00000446336	processed_transcript	KNOWN	None	None	None	None	27113215	27138801	1	None	None
22	None	ENSG00000244625	ENST00000417083	processed_transcript	KNOWN	None	None	None	None	27113332	27118135	1	None	None
12	SIRT4	ENSG00000089163	ENST00000536460	protein_coding	PUTATIVE	None	14932	320	105	120740119	120741861	1	None	SIR2L4
12	SIRT4	ENSG00000089163	ENST00000202967	protein_coding	KNOWN	CCDS9194	14932	945	314	120740124	120751052	1	None	SIR2L4
12	SIRT4	ENSG00000089163	ENST00000537892	processed_transcript	KNOWN	None	14932	None	None	120741683	120751044	1	None	SIR2L4
16	None	ENSG00000260954	ENST00000568149	sense_intronic	KNOWN	None	None	None	None	1629243	1630309	-1	None	None
5	EFNA5	ENSG00000184349	ENST00000333274	protein_coding	KNOWN	CCDS4097	3225	687	228	106712590	107006596	-1	EPLG7	AF1, LERK7
5	EFNA5	ENSG00000184349	ENST00000510359	processed_transcript	KNOWN	None	3225	None	None	106716685	106724254	-1	EPLG7	AF1, LERK7
5	EFNA5	ENSG00000184349	ENST00000509503	protein_coding	NOVEL	None	3225	606	201	106716939	107006328	-1	EPLG7	AF1, LERK7
5	EFNA5	ENSG00000184349	ENST00000504941	retained_intron	KNOWN	None	3225	None	None	106762677	107006586	-1	EPLG7	AF1, LERK7
5	EFNA5	ENSG00000184349	ENST00000505499	processed_transcript	KNOWN	None	3225	None	None	106762918	106841892	-1	EPLG7	AF1, LERK7
22	POTEH	ENSG00000198062	ENST00000452800	nonsense_mediated_decay	KNOWN	None	133	912	303	16256441	16287717	-1	ACTBL1, A26C3	POTE22, CT104.7
22	POTEH	ENSG00000198062	ENST00000343518	protein_coding	KNOWN	CCDS46658	133	1638	545	16256441	16287937	-1	ACTBL1, A26C3	POTE22, CT104.7
5	DPYSL3	ENSG00000113657	ENST00000398514	protein_coding	KNOWN	CCDS43381	3015	1713	570	146770374	146833522	-1	None	DRP-3, ULIP, CRMP4
5	DPYSL3	ENSG00000113657	ENST00000343218	protein_coding	PUTATIVE	CCDS56387	3015	2055	684	146770375	146889619	-1	None	DRP-3, ULIP, CRMP4
5	DPYSL3	ENSG00000113657	ENST00000520473	protein_coding	NOVEL	None	3015	628	208	146773388	146781165	-1	None	DRP-3, ULIP, CRMP4
5	DPYSL3	ENSG00000113657	ENST00000507309	processed_transcript	KNOWN	None	3015	None	None	146775217	146833251	-1	None	DRP-3, ULIP, CRMP4
5	DPYSL3	ENSG00000113657	ENST00000523458	nonsense_mediated_decay	KNOWN	None	3015	228	75	146775240	146785203	-1	None	DRP-3, ULIP, CRMP4
5	DPYSL3	ENSG00000113657	ENST00000508042	retained_intron	KNOWN	None	3015	None	None	146781103	146785761	-1	None	DRP-3, ULIP, CRMP4
5	DPYSL3	ENSG00000113657	ENST00000519672	processed_transcript	KNOWN	None	3015	None	None	146788291	146833228	-1	None	DRP-3, ULIP, CRMP4
5	DPYSL3	ENSG00000113657	ENST00000512722	protein_coding	KNOWN	None	3015	277	91	146798046	146833829	-1	None	DRP-3, ULIP, CRMP4
5	DPYSL3	ENSG00000113657	ENST00000504965	processed_transcript	KNOWN	None	3015	None	None	146852195	146889098	-1	None	DRP-3, ULIP, CRMP4
5	DPYSL3	ENSG00000113657	ENST00000534907	protein_coding	KNOWN	None	3015	591	196	146773253	146833251	-1	None	DRP-3, ULIP, CRMP4
5	None	ENSG00000249448	ENST00000515438	processed_pseudogene	KNOWN	None	None	None	None	97745939	97747496	-1	None	None
19	MLLT1	ENSG00000130382	ENST00000252674	protein_coding	KNOWN	CCDS12160	7134	1680	559	6212966	6279959	-1	None	ENL, LTG19, YEATS1
19	MLLT1	ENSG00000130382	ENST00000585588	processed_transcript	KNOWN	None	7134	None	None	6213131	6216979	-1	None	ENL, LTG19, YEATS1
16	None	ENSG00000260989	ENST00000563162	antisense	KNOWN	None	None	None	None	1630528	1660329	1	None	None
16	None	ENSG00000226890	ENST00000415176	antisense	KNOWN	None	None	None	None	1675629	1676161	-1	None	None
7	RPL7L1P3	ENSG00000235090	ENST00000455249	processed_pseudogene	KNOWN	None	39485	None	None	75552073	75552761	1	None	None
12	C12orf61	ENSG00000221949	ENST00000408887	protein_coding	KNOWN	CCDS8964	26364	396	131	62995531	62997214	-1	None	FLJ25590
13	ING1	ENSG00000153487	ENST00000338450	protein_coding	KNOWN	CCDS9515	6062	708	235	111365083	111372522	1	None	p33ING1, p33ING1b, p24ING1c, p33, p47, p47ING1a
13	ING1	ENSG00000153487	ENST00000333219	protein_coding	KNOWN	CCDS9516	6062	840	279	111365625	111373421	1	None	p33ING1, p33ING1b, p24ING1c, p33, p47, p47ING1a
13	ING1	ENSG00000153487	ENST00000375775	protein_coding	KNOWN	CCDS9518	6062	633	210	111365807	111372522	1	None	p33ING1, p33ING1b, p24ING1c, p33, p47, p47ING1a
13	ING1	ENSG00000153487	ENST00000375774	protein_coding	KNOWN	CCDS9517	6062	1269	422	111367329	111373418	1	None	p33ING1, p33ING1b, p24ING1c, p33, p47, p47ING1a
13	ING1	ENSG00000153487	ENST00000464141	processed_transcript	KNOWN	None	6062	None	None	111367784	111371823	1	None	p33ING1, p33ING1b, p24ING1c, p33, p47, p47ING1a
20	OPRL1	ENSG00000125510	ENST00000336866	protein_coding	KNOWN	CCDS13556	8155	1113	370	62711526	62731996	1	None	NOCIR, ORL1, OOR, KOR-3
20	OPRL1	ENSG00000125510	ENST00000355631	protein_coding	KNOWN	CCDS13556	8155	1113	370	62711549	62731996	1	None	NOCIR, ORL1, OOR, KOR-3
20	OPRL1	ENSG00000125510	ENST00000349451	protein_coding	KNOWN	CCDS13556	8155	1113	370	62716369	62731996	1	None	NOCIR, ORL1, OOR, KOR-3
6	PTK7	ENSG00000112655	ENST00000230419	protein_coding	KNOWN	CCDS4884	9618	3213	1070	43044006	43129457	1	None	CCK4
6	PTK7	ENSG00000112655	ENST00000476760	protein_coding	PUTATIVE	None	9618	420	139	43044045	43097355	1	None	CCK4
6	PTK7	ENSG00000112655	ENST00000470019	nonsense_mediated_decay	KNOWN	None	9618	474	157	43044071	43129457	1	None	CCK4
6	PTK7	ENSG00000112655	ENST00000471863	protein_coding	PUTATIVE	None	9618	1380	459	43044077	43101459	1	None	CCK4
6	PTK7	ENSG00000112655	ENST00000349241	protein_coding	KNOWN	CCDS4886	9618	2823	940	43044080	43129450	1	None	CCK4
6	PTK7	ENSG00000112655	ENST00000352931	protein_coding	KNOWN	CCDS4887	9618	3045	1014	43044080	43129450	1	None	CCK4
6	PTK7	ENSG00000112655	ENST00000345201	protein_coding	KNOWN	CCDS4885	9618	3093	1030	43044080	43129450	1	None	CCK4
6	PTK7	ENSG00000112655	ENST00000230418	nonsense_mediated_decay	KNOWN	None	9618	2451	816	43044080	43129450	1	None	CCK4
6	PTK7	ENSG00000112655	ENST00000487673	retained_intron	KNOWN	None	9618	None	None	43044107	43129451	1	None	CCK4
6	PTK7	ENSG00000112655	ENST00000481273	protein_coding	PUTATIVE	CCDS59021	9618	3237	1078	43044552	43128748	1	None	CCK4
6	PTK7	ENSG00000112655	ENST00000481946	protein_coding	KNOWN	None	9618	807	268	43098329	43106981	1	None	CCK4
6	PTK7	ENSG00000112655	ENST00000490710	retained_intron	KNOWN	None	9618	None	None	43099452	43100289	1	None	CCK4
6	PTK7	ENSG00000112655	ENST00000489707	protein_coding	NOVEL	None	9618	1097	364	43100264	43129457	1	None	CCK4
6	PTK7	ENSG00000112655	ENST00000470471	retained_intron	KNOWN	None	9618	None	None	43106291	43109686	1	None	CCK4
6	PTK7	ENSG00000112655	ENST00000493339	retained_intron	KNOWN	None	9618	None	None	43110086	43113902	1	None	CCK4
6	PTK7	ENSG00000112655	ENST00000461100	nonsense_mediated_decay	KNOWN	None	9618	78	25	43110115	43112997	1	None	CCK4
6	PTK7	ENSG00000112655	ENST00000494146	nonsense_mediated_decay	KNOWN	None	9618	78	25	43110115	43112999	1	None	CCK4
6	PTK7	ENSG00000112655	ENST00000497957	nonsense_mediated_decay	KNOWN	None	9618	76	24	43110117	43113170	1	None	CCK4
6	PTK7	ENSG00000112655	ENST00000473339	protein_coding	PUTATIVE	None	9618	773	256	43112037	43127621	1	None	CCK4
6	PTK7	ENSG00000112655	ENST00000461389	nonsense_mediated_decay	KNOWN	None	9618	255	84	43112038	43128774	1	None	CCK4
2	GPR75	ENSG00000119737	ENST00000394705	protein_coding	KNOWN	CCDS1849	4526	1623	540	54080050	54087126	-1	None	WI-31133
7	SNORA14A	ENSG00000201643	ENST00000364773	snoRNA	KNOWN	None	32602	None	None	75573100	75573234	1	None	ACA14a
4	None	ENSG00000252762	ENST00000516953	snoRNA	NOVEL	None	None	None	None	82849466	82849592	1	None	None
7	None	ENSG00000230882	ENST00000421546	processed_pseudogene	KNOWN	None	None	None	None	75700787	75704281	-1	None	None
10	None	ENSG00000233190	ENST00000442520	processed_pseudogene	KNOWN	None	None	None	None	32520777	32521173	-1	None	None
4	NPM1P41	ENSG00000248543	ENST00000512920	processed_pseudogene	KNOWN	None	45220	None	None	82931818	82934248	-1	None	None
6	KIF13A	ENSG00000137177	ENST00000378814	protein_coding	KNOWN	CCDS47380	14566	5250	1749	17759414	17987694	-1	None	bA500C11.2
6	KIF13A	ENSG00000137177	ENST00000502297	protein_coding	NOVEL	None	14566	2406	801	17759485	17794928	-1	None	bA500C11.2
6	KIF13A	ENSG00000137177	ENST00000259711	protein_coding	KNOWN	CCDS47381	14566	5418	1805	17763924	17987800	-1	None	bA500C11.2
6	KIF13A	ENSG00000137177	ENST00000378843	protein_coding	KNOWN	CCDS54967	14566	5274	1757	17763926	17987712	-1	None	bA500C11.2
6	KIF13A	ENSG00000137177	ENST00000378826	protein_coding	KNOWN	CCDS54968	14566	5313	1770	17763926	17987713	-1	None	bA500C11.2
6	KIF13A	ENSG00000137177	ENST00000358380	protein_coding	PUTATIVE	None	14566	2669	888	17770596	17817431	-1	None	bA500C11.2
6	KIF13A	ENSG00000137177	ENST00000506044	protein_coding	NOVEL	None	14566	810	269	17780991	17797021	-1	None	bA500C11.2
6	KIF13A	ENSG00000137177	ENST00000514714	processed_transcript	KNOWN	None	14566	None	None	17785824	17795263	-1	None	bA500C11.2
6	KIF13A	ENSG00000137177	ENST00000503342	processed_transcript	KNOWN	None	14566	None	None	17812275	17817421	-1	None	bA500C11.2
6	KIF13A	ENSG00000137177	ENST00000507576	processed_transcript	KNOWN	None	14566	None	None	17855708	17987782	-1	None	bA500C11.2
6	KIF13A	ENSG00000137177	ENST00000505588	retained_intron	KNOWN	None	14566	None	None	17873494	17987308	-1	None	bA500C11.2
6	KIF13A	ENSG00000137177	ENST00000502704	protein_coding	PUTATIVE	CCDS58998	14566	213	70	17950640	17987854	-1	None	bA500C11.2
6	KIF13A	ENSG00000137177	ENST00000378816	protein_coding	KNOWN	None	14566	5313	1770	17763928	17987799	-1	None	bA500C11.2
12	TCTN1	ENSG00000204852	ENST00000550703	protein_coding	PUTATIVE	None	26113	738	245	111051832	111068092	1	None	FLJ21127, TECT1, JBTS13
12	TCTN1	ENSG00000204852	ENST00000551590	protein_coding	KNOWN	CCDS41835	26113	1764	587	111051832	111087235	1	None	FLJ21127, TECT1, JBTS13
12	TCTN1	ENSG00000204852	ENST00000552318	nonsense_mediated_decay	KNOWN	None	26113	267	88	111051868	111066723	1	None	FLJ21127, TECT1, JBTS13
12	TCTN1	ENSG00000204852	ENST00000498072	nonsense_mediated_decay	KNOWN	None	26113	228	75	111051907	111057728	1	None	FLJ21127, TECT1, JBTS13
12	TCTN1	ENSG00000204852	ENST00000490514	nonsense_mediated_decay	KNOWN	None	26113	252	83	111051907	111086931	1	None	FLJ21127, TECT1, JBTS13
12	TCTN1	ENSG00000204852	ENST00000397656	nonsense_mediated_decay	KNOWN	None	26113	540	179	111051911	111086930	1	None	FLJ21127, TECT1, JBTS13
12	TCTN1	ENSG00000204852	ENST00000495659	nonsense_mediated_decay	KNOWN	None	26113	303	100	111051912	111086933	1	None	FLJ21127, TECT1, JBTS13
12	TCTN1	ENSG00000204852	ENST00000481720	nonsense_mediated_decay	KNOWN	None	26113	321	106	111051918	111064187	1	None	FLJ21127, TECT1, JBTS13
12	TCTN1	ENSG00000204852	ENST00000397655	protein_coding	KNOWN	CCDS41833	26113	1722	573	111051918	111086933	1	None	FLJ21127, TECT1, JBTS13
12	TCTN1	ENSG00000204852	ENST00000546643	nonsense_mediated_decay	KNOWN	None	26113	267	88	111051929	111067087	1	None	FLJ21127, TECT1, JBTS13
12	TCTN1	ENSG00000204852	ENST00000471804	protein_coding	PUTATIVE	None	26113	489	162	111051931	111065923	1	None	FLJ21127, TECT1, JBTS13
12	TCTN1	ENSG00000204852	ENST00000478122	nonsense_mediated_decay	KNOWN	None	26113	303	100	111051931	111067900	1	None	FLJ21127, TECT1, JBTS13
12	TCTN1	ENSG00000204852	ENST00000547868	retained_intron	KNOWN	None	26113	None	None	111051944	111070392	1	None	FLJ21127, TECT1, JBTS13
12	TCTN1	ENSG00000204852	ENST00000397659	protein_coding	KNOWN	CCDS41834	26113	1779	592	111051969	111086933	1	None	FLJ21127, TECT1, JBTS13
12	TCTN1	ENSG00000204852	ENST00000464809	nonsense_mediated_decay	KNOWN	None	26113	303	100	111051970	111086931	1	None	FLJ21127, TECT1, JBTS13
12	TCTN1	ENSG00000204852	ENST00000480648	nonsense_mediated_decay	KNOWN	None	26113	792	263	111051973	111086890	1	None	FLJ21127, TECT1, JBTS13
12	TCTN1	ENSG00000204852	ENST00000552762	processed_transcript	KNOWN	None	26113	None	None	111057641	111066631	1	None	FLJ21127, TECT1, JBTS13
12	TCTN1	ENSG00000204852	ENST00000551555	processed_transcript	KNOWN	None	26113	None	None	111057641	111078308	1	None	FLJ21127, TECT1, JBTS13
12	TCTN1	ENSG00000204852	ENST00000482281	retained_intron	KNOWN	None	26113	None	None	111073472	111079391	1	None	FLJ21127, TECT1, JBTS13
12	TCTN1	ENSG00000204852	ENST00000463313	retained_intron	KNOWN	None	26113	None	None	111074175	111085067	1	None	FLJ21127, TECT1, JBTS13
12	TCTN1	ENSG00000204852	ENST00000547461	nonsense_mediated_decay	KNOWN	None	26113	285	94	111078251	111085562	1	None	FLJ21127, TECT1, JBTS13
12	TCTN1	ENSG00000204852	ENST00000549123	protein_coding	PUTATIVE	None	26113	218	71	111078854	111086933	1	None	FLJ21127, TECT1, JBTS13
12	TCTN1	ENSG00000204852	ENST00000552038	retained_intron	KNOWN	None	26113	None	None	111079757	111086935	1	None	FLJ21127, TECT1, JBTS13
12	TCTN1	ENSG00000204852	ENST00000460357	retained_intron	KNOWN	None	26113	None	None	111081161	111086930	1	None	FLJ21127, TECT1, JBTS13
12	TCTN1	ENSG00000204852	ENST00000485445	retained_intron	KNOWN	None	26113	None	None	111082461	111085613	1	None	FLJ21127, TECT1, JBTS13
12	TCTN1	ENSG00000204852	ENST00000491068	retained_intron	KNOWN	None	26113	None	None	111082513	111086931	1	None	FLJ21127, TECT1, JBTS13
12	TCTN1	ENSG00000204852	ENST00000481093	retained_intron	KNOWN	None	26113	None	None	111085098	111086931	1	None	FLJ21127, TECT1, JBTS13
12	TCTN1	ENSG00000204852	ENST00000377654	protein_coding	KNOWN	None	26113	783	260	111051942	111086930	1	None	FLJ21127, TECT1, JBTS13
14	TOMM20L	ENSG00000196860	ENST00000360945	protein_coding	KNOWN	CCDS9734	33752	459	152	58862634	58875419	1	None	UNQ9438
14	TOMM20L	ENSG00000196860	ENST00000557754	nonsense_mediated_decay	KNOWN	None	33752	225	74	58862646	58875331	1	None	UNQ9438
9	GLT6D1	ENSG00000204007	ENST00000371763	protein_coding	KNOWN	CCDS43900	23671	831	276	138515502	138531386	-1	GLTDC1	None
7	RNU6-863P	ENSG00000251798	ENST00000515989	snRNA	KNOWN	None	47826	None	None	75716762	75716865	1	None	None
17	CCL7	ENSG00000108688	ENST00000378569	protein_coding	KNOWN	CCDS11278	10634	300	99	32597240	32599261	1	SCYA6, SCYA7	MCP-3, NC28, FIC, MARC, MCP3
17	CCL7	ENSG00000108688	ENST00000394627	protein_coding	PUTATIVE	None	10634	246	81	32597243	32599097	1	SCYA6, SCYA7	MCP-3, NC28, FIC, MARC, MCP3
17	CCL7	ENSG00000108688	ENST00000394630	protein_coding	PUTATIVE	None	10634	144	47	32597243	32599259	1	SCYA6, SCYA7	MCP-3, NC28, FIC, MARC, MCP3
17	CCL7	ENSG00000108688	ENST00000200307	protein_coding	KNOWN	None	10634	330	109	32597241	32599260	1	SCYA6, SCYA7	MCP-3, NC28, FIC, MARC, MCP3
9	GTF3C4	ENSG00000125484	ENST00000483873	protein_coding	PUTATIVE	None	4667	450	149	135545422	135554697	1	None	TFIIIC90, KAT12
9	GTF3C4	ENSG00000125484	ENST00000372146	protein_coding	KNOWN	CCDS6953	4667	2469	822	135545422	135570342	1	None	TFIIIC90, KAT12
10	MAP3K8	ENSG00000107968	ENST00000263056	protein_coding	KNOWN	CCDS7166	6860	1404	467	30722866	30750761	1	COT, ESTF	Tpl-2, EST, c-COT, MEKK8
10	MAP3K8	ENSG00000107968	ENST00000415139	protein_coding	KNOWN	None	6860	765	254	30723070	30739447	1	COT, ESTF	Tpl-2, EST, c-COT, MEKK8
10	MAP3K8	ENSG00000107968	ENST00000375322	protein_coding	KNOWN	None	6860	399	132	30723173	30728410	1	COT, ESTF	Tpl-2, EST, c-COT, MEKK8
10	MAP3K8	ENSG00000107968	ENST00000413724	protein_coding	KNOWN	None	6860	669	222	30723594	30739351	1	COT, ESTF	Tpl-2, EST, c-COT, MEKK8
10	MAP3K8	ENSG00000107968	ENST00000375321	protein_coding	KNOWN	CCDS7166	6860	1404	467	30727751	30750762	1	COT, ESTF	Tpl-2, EST, c-COT, MEKK8
10	MAP3K8	ENSG00000107968	ENST00000430603	retained_intron	KNOWN	None	6860	None	None	30728106	30739567	1	COT, ESTF	Tpl-2, EST, c-COT, MEKK8
10	MAP3K8	ENSG00000107968	ENST00000542547	protein_coding	KNOWN	CCDS7166	6860	1404	467	30723053	30749765	1	COT, ESTF	Tpl-2, EST, c-COT, MEKK8
4	HNRNPA3P13	ENSG00000250826	ENST00000512222	processed_pseudogene	KNOWN	None	48759	None	None	83049688	83050809	1	None	None
12	PPM1H	ENSG00000111110	ENST00000228705	protein_coding	KNOWN	CCDS44934	18583	1545	514	63037762	63328817	-1	ARHCL1	KIAA1157, FLJ13253, NERPP-2C
12	PPM1H	ENSG00000111110	ENST00000551214	processed_transcript	KNOWN	None	18583	None	None	63042354	63114800	-1	ARHCL1	KIAA1157, FLJ13253, NERPP-2C
12	PPM1H	ENSG00000111110	ENST00000551519	retained_intron	KNOWN	None	18583	None	None	63083530	63182264	-1	ARHCL1	KIAA1157, FLJ13253, NERPP-2C
12	PPM1H	ENSG00000111110	ENST00000548414	processed_transcript	KNOWN	None	18583	None	None	63195711	63327828	-1	ARHCL1	KIAA1157, FLJ13253, NERPP-2C
12	PPM1H	ENSG00000111110	ENST00000547857	processed_transcript	KNOWN	None	18583	None	None	63195721	63234008	-1	ARHCL1	KIAA1157, FLJ13253, NERPP-2C
2	LYPD6	ENSG00000187123	ENST00000409381	protein_coding	KNOWN	CCDS2188	28751	516	171	150186499	150330137	1	None	MGC52057
2	LYPD6	ENSG00000187123	ENST00000334166	protein_coding	KNOWN	CCDS2188	28751	516	171	150187051	150330662	1	None	MGC52057
2	LYPD6	ENSG00000187123	ENST00000418762	nonsense_mediated_decay	KNOWN	None	28751	231	76	150187177	150327609	1	None	MGC52057
2	LYPD6	ENSG00000187123	ENST00000414420	protein_coding	KNOWN	None	28751	160	52	150224215	150305604	1	None	MGC52057
2	LYPD6	ENSG00000187123	ENST00000392854	nonsense_mediated_decay	KNOWN	None	28751	231	76	150224226	150327624	1	None	MGC52057
7	None	ENSG00000227038	ENST00000434037	processed_transcript	KNOWN	None	None	None	None	75719749	75738097	-1	None	None
7	None	ENSG00000227038	ENST00000436677	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	75728758	75730726	-1	None	None
4	RNU6-499P	ENSG00000202485	ENST00000365615	snRNA	KNOWN	None	47462	None	None	83095700	83095806	1	None	None
10	None	ENSG00000227253	ENST00000415731	antisense	KNOWN	None	None	None	None	32555217	32558402	1	None	None
4	BIN2P1	ENSG00000234568	ENST00000504996	processed_pseudogene	KNOWN	None	43660	None	None	83196224	83197753	1	None	None
15	C15orf48	ENSG00000166920	ENST00000396650	protein_coding	KNOWN	CCDS10124	29898	252	83	45722727	45725540	1	None	NMES1
15	C15orf48	ENSG00000166920	ENST00000558435	protein_coding	PUTATIVE	None	29898	396	131	45722777	45740959	1	None	NMES1
15	C15orf48	ENSG00000166920	ENST00000344300	protein_coding	KNOWN	CCDS10124	29898	252	83	45722805	45725647	1	None	NMES1
15	C15orf48	ENSG00000166920	ENST00000558632	retained_intron	KNOWN	None	29898	None	None	45722809	45723523	1	None	NMES1
9	LCN9	ENSG00000148386	ENST00000277526	protein_coding	KNOWN	CCDS56593	17442	531	176	138555168	138557949	1	None	None
9	LCN9	ENSG00000148386	ENST00000430290	processed_transcript	KNOWN	None	17442	None	None	138555182	138557754	1	None	None
9	LCN9	ENSG00000148386	ENST00000554343	retained_intron	KNOWN	None	17442	None	None	138557068	138558268	1	None	None
7	None	ENSG00000241778	ENST00000443068	unprocessed_pseudogene	KNOWN	None	None	None	None	75737752	75738081	-1	None	None
10	None	ENSG00000229649	ENST00000422661	lincRNA	KNOWN	None	None	None	None	103012578	103023307	-1	None	None
HSCHR6_MHC_APD	ETF1P1	ENSG00000235372	ENST00000421220	processed_pseudogene	KNOWN	None	3478	None	None	29936292	29937582	1	SUP45L2	HCGVII
7	None	ENSG00000238935	ENST00000459018	snoRNA	NOVEL	None	None	None	None	75742116	75742214	1	None	None
10	None	ENSG00000252844	ENST00000517035	snoRNA	NOVEL	None	None	None	None	103027694	103027765	-1	None	None
7	None	ENSG00000213549	ENST00000449226	processed_pseudogene	KNOWN	None	None	None	None	75742344	75742718	-1	None	None
4	OCIAD1	ENSG00000109180	ENST00000504654	protein_coding	PUTATIVE	None	16074	331	109	48807229	48852053	1	None	FLJ20455, TPA018, OCIA, Asrij
4	OCIAD1	ENSG00000109180	ENST00000509122	protein_coding	KNOWN	None	16074	657	218	48833015	48863266	1	None	FLJ20455, TPA018, OCIA, Asrij
4	OCIAD1	ENSG00000109180	ENST00000509664	protein_coding	PUTATIVE	None	16074	219	72	48833026	48850441	1	None	FLJ20455, TPA018, OCIA, Asrij
4	OCIAD1	ENSG00000109180	ENST00000505922	protein_coding	PUTATIVE	None	16074	506	167	48833026	48859269	1	None	FLJ20455, TPA018, OCIA, Asrij
4	OCIAD1	ENSG00000109180	ENST00000514981	protein_coding	KNOWN	None	16074	336	111	48833061	48852100	1	None	FLJ20455, TPA018, OCIA, Asrij
4	OCIAD1	ENSG00000109180	ENST00000512981	processed_transcript	KNOWN	None	16074	None	None	48833076	48854521	1	None	FLJ20455, TPA018, OCIA, Asrij
4	OCIAD1	ENSG00000109180	ENST00000511662	protein_coding	KNOWN	None	16074	87	28	48833080	48835446	1	None	FLJ20455, TPA018, OCIA, Asrij
4	OCIAD1	ENSG00000109180	ENST00000508996	protein_coding	KNOWN	None	16074	241	79	48833080	48850463	1	None	FLJ20455, TPA018, OCIA, Asrij
4	OCIAD1	ENSG00000109180	ENST00000507210	protein_coding	KNOWN	None	16074	291	96	48833080	48852013	1	None	FLJ20455, TPA018, OCIA, Asrij
4	OCIAD1	ENSG00000109180	ENST00000264312	protein_coding	KNOWN	CCDS3484	16074	738	245	48833082	48863265	1	None	FLJ20455, TPA018, OCIA, Asrij
4	OCIAD1	ENSG00000109180	ENST00000396448	protein_coding	KNOWN	CCDS43228	16074	564	187	48833082	48863265	1	None	FLJ20455, TPA018, OCIA, Asrij
4	OCIAD1	ENSG00000109180	ENST00000512236	protein_coding	KNOWN	None	16074	513	170	48833083	48853958	1	None	FLJ20455, TPA018, OCIA, Asrij
4	OCIAD1	ENSG00000109180	ENST00000509164	protein_coding	KNOWN	None	16074	241	79	48833099	48850463	1	None	FLJ20455, TPA018, OCIA, Asrij
4	OCIAD1	ENSG00000109180	ENST00000511102	protein_coding	NOVEL	None	16074	517	171	48833101	48853962	1	None	FLJ20455, TPA018, OCIA, Asrij
4	OCIAD1	ENSG00000109180	ENST00000381473	protein_coding	KNOWN	CCDS3484	16074	738	245	48833101	48863217	1	None	FLJ20455, TPA018, OCIA, Asrij
4	OCIAD1	ENSG00000109180	ENST00000444354	protein_coding	KNOWN	CCDS47052	16074	585	194	48833125	48863803	1	None	FLJ20455, TPA018, OCIA, Asrij
4	OCIAD1	ENSG00000109180	ENST00000509963	protein_coding	NOVEL	None	16074	291	96	48833135	48852013	1	None	FLJ20455, TPA018, OCIA, Asrij
4	OCIAD1	ENSG00000109180	ENST00000509246	protein_coding	NOVEL	None	16074	359	118	48833154	48853966	1	None	FLJ20455, TPA018, OCIA, Asrij
4	OCIAD1	ENSG00000109180	ENST00000506801	protein_coding	NOVEL	None	16074	423	140	48833170	48862807	1	None	FLJ20455, TPA018, OCIA, Asrij
4	OCIAD1	ENSG00000109180	ENST00000503016	protein_coding	NOVEL	None	16074	538	178	48833189	48859382	1	None	FLJ20455, TPA018, OCIA, Asrij
4	OCIAD1	ENSG00000109180	ENST00000513641	nonsense_mediated_decay	KNOWN	None	16074	141	46	48833240	48850427	1	None	FLJ20455, TPA018, OCIA, Asrij
4	OCIAD1	ENSG00000109180	ENST00000507546	retained_intron	KNOWN	None	16074	None	None	48833240	48850686	1	None	FLJ20455, TPA018, OCIA, Asrij
4	OCIAD1	ENSG00000109180	ENST00000510824	protein_coding	NOVEL	None	16074	309	102	48833240	48853916	1	None	FLJ20455, TPA018, OCIA, Asrij
4	OCIAD1	ENSG00000109180	ENST00000508293	protein_coding	KNOWN	CCDS3484	16074	738	245	48833323	48863233	1	None	FLJ20455, TPA018, OCIA, Asrij
4	OCIAD1	ENSG00000109180	ENST00000513391	protein_coding	KNOWN	CCDS3484	16074	738	245	48833359	48863267	1	None	FLJ20455, TPA018, OCIA, Asrij
4	OCIAD1	ENSG00000109180	ENST00000508329	processed_transcript	PUTATIVE	None	16074	None	None	48854209	48862876	1	None	FLJ20455, TPA018, OCIA, Asrij
4	OCIAD1	ENSG00000109180	ENST00000502972	retained_intron	KNOWN	None	16074	None	None	48857989	48863263	1	None	FLJ20455, TPA018, OCIA, Asrij
4	OCIAD1	ENSG00000109180	ENST00000425583	protein_coding	KNOWN	CCDS47052	16074	585	194	48833244	48863834	1	None	FLJ20455, TPA018, OCIA, Asrij
10	RNU2-43P	ENSG00000222238	ENST00000410306	snRNA	KNOWN	None	48536	None	None	103067286	103067475	1	None	None
HSCHR6_MHC_APD	None	ENSG00000266557	ENST00000583999	miRNA	NOVEL	None	None	None	None	29993432	29993564	-1	None	None
10	None	ENSG00000225208	ENST00000442188	lincRNA	KNOWN	None	None	None	None	103070775	103071262	1	None	None
HSCHR6_MHC_APD	TRIM31-AS1	ENSG00000235722	ENST00000433585	processed_transcript	KNOWN	None	39761	None	None	30016327	30019333	1	None	None
10	None	ENSG00000230967	ENST00000450669	lincRNA	KNOWN	None	None	None	None	103082242	103083151	-1	None	None
17	ZACN	ENSG00000186919	ENST00000591500	retained_intron	KNOWN	None	29504	None	None	74068042	74075859	1	LGICZ1	LGICZ, L2, ZAC, ZAC1
17	ZACN	ENSG00000186919	ENST00000524242	retained_intron	KNOWN	None	29504	None	None	74075263	74076127	1	LGICZ1	LGICZ, L2, ZAC, ZAC1
17	ZACN	ENSG00000186919	ENST00000334586	protein_coding	KNOWN	CCDS11740	29504	1239	412	74075263	74078747	1	LGICZ1	LGICZ, L2, ZAC, ZAC1
17	ZACN	ENSG00000186919	ENST00000425015	nonsense_mediated_decay	KNOWN	None	29504	801	266	74075263	74078885	1	LGICZ1	LGICZ, L2, ZAC, ZAC1
17	ZACN	ENSG00000186919	ENST00000421794	nonsense_mediated_decay	KNOWN	None	29504	381	126	74075309	74078747	1	LGICZ1	LGICZ, L2, ZAC, ZAC1
17	ZACN	ENSG00000186919	ENST00000590045	retained_intron	KNOWN	None	29504	None	None	74077097	74079747	1	LGICZ1	LGICZ, L2, ZAC, ZAC1
17	ZACN	ENSG00000186919	ENST00000392503	protein_coding	KNOWN	None	29504	381	126	74075263	74076979	1	LGICZ1	LGICZ, L2, ZAC, ZAC1
HSCHR6_MHC_APD	None	ENSG00000265674	ENST00000581614	snoRNA	NOVEL	None	None	None	None	30037417	30037578	-1	None	None
5	YTHDC2	ENSG00000047188	ENST00000161863	protein_coding	KNOWN	CCDS4113	24721	4293	1430	112849380	112930981	1	None	FLJ2194, FLJ10053, DKFZp564A186
5	YTHDC2	ENSG00000047188	ENST00000503857	nonsense_mediated_decay	KNOWN	None	24721	297	98	112849391	112896893	1	None	FLJ2194, FLJ10053, DKFZp564A186
5	YTHDC2	ENSG00000047188	ENST00000515883	protein_coding	PUTATIVE	None	24721	2220	739	112849406	112892057	1	None	FLJ2194, FLJ10053, DKFZp564A186
5	YTHDC2	ENSG00000047188	ENST00000514720	protein_coding	PUTATIVE	None	24721	413	136	112849843	112862400	1	None	FLJ2194, FLJ10053, DKFZp564A186
5	YTHDC2	ENSG00000047188	ENST00000506333	retained_intron	KNOWN	None	24721	None	None	112901416	112915363	1	None	FLJ2194, FLJ10053, DKFZp564A186
5	YTHDC2	ENSG00000047188	ENST00000512600	retained_intron	KNOWN	None	24721	None	None	112916963	112930982	1	None	FLJ2194, FLJ10053, DKFZp564A186
5	YTHDC2	ENSG00000047188	ENST00000507567	retained_intron	KNOWN	None	24721	None	None	112926855	112928298	1	None	FLJ2194, FLJ10053, DKFZp564A186
7	RINT1	ENSG00000135249	ENST00000257700	protein_coding	KNOWN	CCDS34726	21876	2379	792	105172532	105208124	1	None	FLJ11785, RINT-1
7	RINT1	ENSG00000135249	ENST00000467392	nonsense_mediated_decay	KNOWN	None	21876	165	54	105172616	105187768	1	None	FLJ11785, RINT-1
7	RINT1	ENSG00000135249	ENST00000482041	nonsense_mediated_decay	KNOWN	None	21876	126	41	105172628	105182904	1	None	FLJ11785, RINT-1
7	RINT1	ENSG00000135249	ENST00000493041	protein_coding	NOVEL	None	21876	431	142	105172631	105187365	1	None	FLJ11785, RINT-1
7	RINT1	ENSG00000135249	ENST00000497979	nonsense_mediated_decay	KNOWN	None	21876	174	57	105172659	105208123	1	None	FLJ11785, RINT-1
7	RINT1	ENSG00000135249	ENST00000477285	processed_transcript	PUTATIVE	None	21876	None	None	105182048	105183003	1	None	FLJ11785, RINT-1
7	RINT1	ENSG00000135249	ENST00000493258	retained_intron	KNOWN	None	21876	None	None	105182687	105187443	1	None	FLJ11785, RINT-1
7	RINT1	ENSG00000135249	ENST00000474123	retained_intron	KNOWN	None	21876	None	None	105190502	105195810	1	None	FLJ11785, RINT-1
HSCHR6_MHC_APD	PAIP1P1	ENSG00000236798	ENST00000420521	processed_pseudogene	KNOWN	None	18240	None	None	30091368	30093191	-1	None	bQB44E15.5, bPG254M11.3, bCX300M20.3
4	None	ENSG00000250193	ENST00000503542	lincRNA	KNOWN	None	None	None	None	130220330	130226177	-1	None	None
3	IRAK2	ENSG00000134070	ENST00000256458	protein_coding	KNOWN	CCDS33697	6113	1878	625	10206549	10285427	1	None	None
12	HNRNPA1	ENSG00000135486	ENST00000546500	protein_coding	KNOWN	CCDS41793	5031	963	320	54673977	54680871	1	HNRPA1	hnRNPA1, hnRNP-A1
12	HNRNPA1	ENSG00000135486	ENST00000547708	protein_coding	NOVEL	None	5031	470	155	54674532	54677662	1	HNRPA1	hnRNPA1, hnRNP-A1
12	HNRNPA1	ENSG00000135486	ENST00000547566	nonsense_mediated_decay	KNOWN	CCDS41793	5031	963	320	54674532	54680872	1	HNRPA1	hnRNPA1, hnRNP-A1
12	HNRNPA1	ENSG00000135486	ENST00000547870	retained_intron	KNOWN	None	5031	None	None	54674533	54676256	1	HNRPA1	hnRNPA1, hnRNP-A1
12	HNRNPA1	ENSG00000135486	ENST00000340913	protein_coding	KNOWN	CCDS44909	5031	1119	372	54674539	54678998	1	HNRPA1	hnRNPA1, hnRNP-A1
12	HNRNPA1	ENSG00000135486	ENST00000551702	protein_coding	NOVEL	None	5031	436	144	54674547	54676270	1	HNRPA1	hnRNPA1, hnRNP-A1
12	HNRNPA1	ENSG00000135486	ENST00000330752	protein_coding	PUTATIVE	None	5031	924	307	54674559	54678665	1	HNRPA1	hnRNPA1, hnRNP-A1
12	HNRNPA1	ENSG00000135486	ENST00000547276	protein_coding	KNOWN	None	5031	804	267	54674564	54679035	1	HNRPA1	hnRNPA1, hnRNP-A1
12	HNRNPA1	ENSG00000135486	ENST00000548688	protein_coding	PUTATIVE	None	5031	694	230	54674790	54676410	1	HNRPA1	hnRNPA1, hnRNP-A1
12	HNRNPA1	ENSG00000135486	ENST00000550994	protein_coding	PUTATIVE	None	5031	339	112	54674970	54676068	1	HNRPA1	hnRNPA1, hnRNP-A1
12	HNRNPA1	ENSG00000135486	ENST00000550482	protein_coding	KNOWN	None	5031	576	191	54675982	54678353	1	HNRPA1	hnRNPA1, hnRNP-A1
12	HNRNPA1	ENSG00000135486	ENST00000551679	retained_intron	KNOWN	None	5031	None	None	54677507	54678155	1	HNRPA1	hnRNPA1, hnRNP-A1
12	HNRNPA1	ENSG00000135486	ENST00000551665	retained_intron	KNOWN	None	5031	None	None	54679691	54680835	1	HNRPA1	hnRNPA1, hnRNP-A1
12	HNRNPA1	ENSG00000135486	ENST00000551803	processed_transcript	KNOWN	None	5031	None	None	54679731	54680871	1	HNRPA1	hnRNPA1, hnRNP-A1
X	KLHL15	ENSG00000174010	ENST00000328046	protein_coding	KNOWN	CCDS35217	29347	1815	604	24001837	24045303	-1	None	KIAA1677
4	None	ENSG00000246876	ENST00000500092	lincRNA	KNOWN	None	None	None	None	130645326	130692633	-1	None	None
4	None	ENSG00000246876	ENST00000509105	lincRNA	KNOWN	None	None	None	None	130669272	130692636	-1	None	None
HSCHR6_MHC_APD	HCG17	ENSG00000236729	ENST00000435219	processed_transcript	PUTATIVE	None	31339	None	None	30138607	30139045	-1	None	NCRNA00046, LINC00046
HSCHR6_MHC_APD	HCG17	ENSG00000236729	ENST00000419861	processed_transcript	KNOWN	None	31339	None	None	30138607	30146877	-1	None	NCRNA00046, LINC00046
HSCHR6_MHC_APD	HCG17	ENSG00000236729	ENST00000439166	processed_transcript	KNOWN	None	31339	None	None	30302018	30302143	-1	None	NCRNA00046, LINC00046
10	None	ENSG00000226842	ENST00000419441	antisense	KNOWN	None	None	None	None	32570614	32571757	1	None	None
7	MBLAC1	ENSG00000214309	ENST00000398075	protein_coding	KNOWN	CCDS43620	22180	801	266	99724317	99726118	1	None	MGC49416
7	MBLAC1	ENSG00000214309	ENST00000421390	protein_coding	KNOWN	None	22180	341	112	99724408	99725359	1	None	MGC49416
16	None	ENSG00000261396	ENST00000567122	antisense	KNOWN	None	None	None	None	67572460	67574009	-1	None	None
4	None	ENSG00000249618	ENST00000513875	lincRNA	KNOWN	None	None	None	None	130692814	130876523	1	None	None
4	None	ENSG00000249618	ENST00000508724	lincRNA	KNOWN	None	None	None	None	130692819	130712815	1	None	None
4	None	ENSG00000249618	ENST00000514892	lincRNA	KNOWN	None	None	None	None	130710114	130719804	1	None	None
4	None	ENSG00000249618	ENST00000507099	lincRNA	KNOWN	None	None	None	None	130758516	130849871	1	None	None
7	GALNTL5	ENSG00000106648	ENST00000431418	protein_coding	KNOWN	CCDS5929	21725	1332	443	151653464	151717011	1	GALNT15	None
7	GALNTL5	ENSG00000106648	ENST00000392800	protein_coding	KNOWN	CCDS5929	21725	1332	443	151653480	151717019	1	GALNT15	None
7	GALNTL5	ENSG00000106648	ENST00000416062	nonsense_mediated_decay	KNOWN	None	21725	402	133	151653487	151716941	1	GALNT15	None
7	GALNTL5	ENSG00000106648	ENST00000448366	nonsense_mediated_decay	KNOWN	None	21725	402	133	151653494	151716927	1	GALNT15	None
7	GALNTL5	ENSG00000106648	ENST00000426341	nonsense_mediated_decay	KNOWN	None	21725	393	130	151653507	151716886	1	GALNT15	None
7	GALNTL5	ENSG00000106648	ENST00000416269	nonsense_mediated_decay	KNOWN	None	21725	393	130	151653511	151717013	1	GALNT15	None
7	GALNTL5	ENSG00000106648	ENST00000414073	nonsense_mediated_decay	KNOWN	None	21725	393	130	151653534	151717014	1	GALNT15	None
7	GALNTL5	ENSG00000106648	ENST00000482845	processed_transcript	PUTATIVE	None	21725	None	None	151653547	151657771	1	GALNT15	None
7	GALNTL5	ENSG00000106648	ENST00000468278	processed_transcript	PUTATIVE	None	21725	None	None	151667700	151680191	1	GALNT15	None
7	GALNTL5	ENSG00000106648	ENST00000483959	processed_transcript	PUTATIVE	None	21725	None	None	151692024	151705029	1	GALNT15	None
HSCHR6_MHC_APD	TRIM26BP	ENSG00000249434	ENST00000509875	unprocessed_pseudogene	KNOWN	None	31338	None	None	30142869	30146845	1	TRIM26P	Em:AB023053.1, TRIM26P1
22	PARVB	ENSG00000188677	ENST00000406477	protein_coding	KNOWN	CCDS46724	14653	1194	397	44395091	44564803	1	None	CGI-56
22	PARVB	ENSG00000188677	ENST00000338758	protein_coding	KNOWN	CCDS14056	14653	1095	364	44420157	44565106	1	None	CGI-56
22	PARVB	ENSG00000188677	ENST00000402876	protein_coding	PUTATIVE	None	14653	429	142	44420182	44515814	1	None	CGI-56
22	PARVB	ENSG00000188677	ENST00000444029	protein_coding	PUTATIVE	None	14653	583	193	44427245	44528845	1	None	CGI-56
22	PARVB	ENSG00000188677	ENST00000404989	protein_coding	PUTATIVE	CCDS58808	14653	984	327	44464941	44565064	1	None	CGI-56
22	PARVB	ENSG00000188677	ENST00000477795	processed_transcript	KNOWN	None	14653	None	None	44482564	44495969	1	None	CGI-56
22	PARVB	ENSG00000188677	ENST00000495824	processed_transcript	KNOWN	None	14653	None	None	44532344	44535004	1	None	CGI-56
22	PARVB	ENSG00000188677	ENST00000484345	processed_transcript	KNOWN	None	14653	None	None	44558614	44564123	1	None	CGI-56
22	PARVB	ENSG00000188677	ENST00000477438	processed_transcript	KNOWN	None	14653	None	None	44564059	44564807	1	None	CGI-56
11	PTPRCAP	ENSG00000213402	ENST00000326294	protein_coding	KNOWN	CCDS8163	9667	621	206	67202981	67205538	-1	None	LPAP, CD45-AP
6	C6orf106	ENSG00000196821	ENST00000374023	protein_coding	KNOWN	CCDS4796	21215	897	298	34555065	34664624	-1	None	FLJ22195, dJ391O22.4
6	C6orf106	ENSG00000196821	ENST00000374026	protein_coding	KNOWN	CCDS4795	21215	699	232	34555065	34664636	-1	None	FLJ22195, dJ391O22.4
6	C6orf106	ENSG00000196821	ENST00000374021	protein_coding	KNOWN	None	21215	675	224	34558286	34639733	-1	None	FLJ22195, dJ391O22.4
13	ENOX1	ENSG00000120658	ENST00000261488	protein_coding	KNOWN	CCDS9389	25474	1932	643	43787654	44361044	-1	None	FLJ10094, PIG38, CNOX, cCNOX
13	ENOX1	ENSG00000120658	ENST00000482207	processed_transcript	KNOWN	None	25474	None	None	43933868	43935501	-1	None	FLJ10094, PIG38, CNOX, cCNOX
13	ENOX1	ENSG00000120658	ENST00000412891	protein_coding	KNOWN	CCDS9389	25474	1932	643	43787704	44184056	-1	None	FLJ10094, PIG38, CNOX, cCNOX
13	ENOX1	ENSG00000120658	ENST00000540032	protein_coding	KNOWN	None	25474	708	235	43894987	43935213	-1	None	FLJ10094, PIG38, CNOX, cCNOX
18	MAPK4	ENSG00000141639	ENST00000400384	protein_coding	KNOWN	CCDS42437	6878	1764	587	48086448	48258194	1	PRKM4	Erk3-related, Erk4
18	MAPK4	ENSG00000141639	ENST00000540640	protein_coding	PUTATIVE	None	6878	1131	376	48086503	48256471	1	PRKM4	Erk3-related, Erk4
18	MAPK4	ENSG00000141639	ENST00000592595	protein_coding	NOVEL	None	6878	702	233	48086512	48258194	1	PRKM4	Erk3-related, Erk4
18	MAPK4	ENSG00000141639	ENST00000588540	protein_coding	PUTATIVE	None	6878	846	281	48087012	48232509	1	PRKM4	Erk3-related, Erk4
18	MAPK4	ENSG00000141639	ENST00000586735	processed_transcript	KNOWN	None	6878	None	None	48155788	48189569	1	PRKM4	Erk3-related, Erk4
18	MAPK4	ENSG00000141639	ENST00000587823	processed_transcript	KNOWN	None	6878	None	None	48190669	48196212	1	PRKM4	Erk3-related, Erk4
1	GSTM1	ENSG00000134184	ENST00000490021	processed_transcript	KNOWN	None	4632	None	None	110230436	110251661	1	GST1	MU, H-B
1	GSTM1	ENSG00000134184	ENST00000309851	protein_coding	KNOWN	CCDS809	4632	657	218	110230442	110236367	1	GST1	MU, H-B
1	GSTM1	ENSG00000134184	ENST00000369823	protein_coding	NOVEL	None	4632	714	237	110230451	110236010	1	GST1	MU, H-B
1	GSTM1	ENSG00000134184	ENST00000349334	protein_coding	KNOWN	CCDS810	4632	546	181	110230462	110236365	1	GST1	MU, H-B
1	GSTM1	ENSG00000134184	ENST00000476065	protein_coding	PUTATIVE	None	4632	307	101	110230467	110232941	1	GST1	MU, H-B
1	GSTM1	ENSG00000134184	ENST00000483399	protein_coding	PUTATIVE	None	4632	258	85	110230467	110251307	1	GST1	MU, H-B
1	GSTM1	ENSG00000134184	ENST00000490171	retained_intron	KNOWN	None	4632	None	None	110230478	110231608	1	GST1	MU, H-B
1	GSTM1	ENSG00000134184	ENST00000369819	protein_coding	NOVEL	None	4632	450	149	110230480	110236241	1	GST1	MU, H-B
10	None	ENSG00000226168	ENST00000424971	processed_pseudogene	KNOWN	None	None	None	None	52455352	52455741	1	None	None
10	None	ENSG00000233825	ENST00000412085	antisense	KNOWN	None	None	None	None	32635427	32636107	1	None	None
16	FAM192A	ENSG00000172775	ENST00000309137	protein_coding	KNOWN	CCDS42168	29856	765	254	57186378	57219976	-1	C16orf94	NIP30
16	FAM192A	ENSG00000172775	ENST00000566403	nonsense_mediated_decay	KNOWN	None	29856	246	81	57187648	57209602	-1	C16orf94	NIP30
16	FAM192A	ENSG00000172775	ENST00000565956	protein_coding	NOVEL	None	29856	463	153	57188047	57207700	-1	C16orf94	NIP30
16	FAM192A	ENSG00000172775	ENST00000566077	protein_coding	PUTATIVE	None	29856	534	177	57188055	57219944	-1	C16orf94	NIP30
16	FAM192A	ENSG00000172775	ENST00000569266	protein_coding	KNOWN	CCDS42168	29856	765	254	57188057	57212469	-1	C16orf94	NIP30
16	FAM192A	ENSG00000172775	ENST00000567439	protein_coding	KNOWN	CCDS42168	29856	765	254	57188112	57219952	-1	C16orf94	NIP30
16	FAM192A	ENSG00000172775	ENST00000564108	protein_coding	KNOWN	CCDS42168	29856	765	254	57188191	57219944	-1	C16orf94	NIP30
16	FAM192A	ENSG00000172775	ENST00000562324	protein_coding	KNOWN	None	29856	496	164	57197964	57220028	-1	C16orf94	NIP30
16	FAM192A	ENSG00000172775	ENST00000567044	protein_coding	KNOWN	None	29856	482	159	57201005	57219734	-1	C16orf94	NIP30
16	FAM192A	ENSG00000172775	ENST00000565458	protein_coding	KNOWN	None	29856	444	147	57201043	57219951	-1	C16orf94	NIP30
16	FAM192A	ENSG00000172775	ENST00000562406	protein_coding	KNOWN	None	29856	422	139	57201065	57219729	-1	C16orf94	NIP30
16	FAM192A	ENSG00000172775	ENST00000566584	protein_coding	KNOWN	None	29856	390	129	57201097	57219934	-1	C16orf94	NIP30
16	FAM192A	ENSG00000172775	ENST00000568671	protein_coding	KNOWN	None	29856	320	105	57206191	57219729	-1	C16orf94	NIP30
16	FAM192A	ENSG00000172775	ENST00000565760	protein_coding	KNOWN	None	29856	290	95	57206221	57219967	-1	C16orf94	NIP30
16	FAM192A	ENSG00000172775	ENST00000566481	protein_coding	KNOWN	None	29856	265	87	57206246	57219943	-1	C16orf94	NIP30
16	FAM192A	ENSG00000172775	ENST00000570184	protein_coding	KNOWN	None	29856	193	63	57206721	57219976	-1	C16orf94	NIP30
16	FAM192A	ENSG00000172775	ENST00000566681	protein_coding	KNOWN	None	29856	82	26	57207685	57219951	-1	C16orf94	NIP30
16	FAM192A	ENSG00000172775	ENST00000564424	protein_coding	KNOWN	None	29856	74	23	57207693	57208798	-1	C16orf94	NIP30
16	FAM192A	ENSG00000172775	ENST00000565353	processed_transcript	PUTATIVE	None	29856	None	None	57212426	57219874	-1	C16orf94	NIP30
16	FAM192A	ENSG00000172775	ENST00000562400	processed_transcript	PUTATIVE	None	29856	None	None	57212438	57215702	-1	C16orf94	NIP30
16	FAM192A	ENSG00000172775	ENST00000389447	protein_coding	KNOWN	CCDS42168	29856	765	254	57187649	57207793	-1	C16orf94	NIP30
12	MYO1H	ENSG00000174527	ENST00000310903	protein_coding	PUTATIVE	CCDS53826	13879	3069	1022	109785708	109886176	1	None	FLJ37587
12	MYO1H	ENSG00000174527	ENST00000542883	processed_transcript	KNOWN	None	13879	None	None	109839210	109845686	1	None	FLJ37587
12	MYO1H	ENSG00000174527	ENST00000542268	retained_intron	KNOWN	None	13879	None	None	109877342	109885260	1	None	FLJ37587
12	MYO1H	ENSG00000174527	ENST00000457826	retained_intron	KNOWN	None	13879	None	None	109878372	109881475	1	None	FLJ37587
12	MYO1H	ENSG00000174527	ENST00000543960	nonsense_mediated_decay	KNOWN	None	13879	381	126	109881367	109893328	1	None	FLJ37587
12	MYO1H	ENSG00000174527	ENST00000431443	protein_coding	KNOWN	None	13879	3099	1032	109826524	109886176	1	None	FLJ37587
19	BBC3	ENSG00000105327	ENST00000601438	retained_intron	KNOWN	None	17868	None	None	47724081	47725825	-1	None	JFY1, PUMA
19	BBC3	ENSG00000105327	ENST00000449228	protein_coding	KNOWN	CCDS46129	17868	786	261	47724081	47736023	-1	None	JFY1, PUMA
19	BBC3	ENSG00000105327	ENST00000300880	protein_coding	KNOWN	CCDS46128	17868	306	101	47724081	47736023	-1	None	JFY1, PUMA
19	BBC3	ENSG00000105327	ENST00000341983	protein_coding	KNOWN	CCDS46130	17868	396	131	47724081	47736023	-1	None	JFY1, PUMA
19	BBC3	ENSG00000105327	ENST00000439096	protein_coding	KNOWN	CCDS12697	17868	582	193	47724084	47734451	-1	None	JFY1, PUMA
19	BBC3	ENSG00000105327	ENST00000598636	retained_intron	KNOWN	None	17868	None	None	47724902	47730446	-1	None	JFY1, PUMA
4	FSTL5	ENSG00000168843	ENST00000306100	protein_coding	KNOWN	CCDS3802	21386	2544	847	162305049	163085187	-1	None	DKFZp566D234, KIAA1263
4	FSTL5	ENSG00000168843	ENST00000379164	protein_coding	KNOWN	CCDS47158	21386	2541	846	162305051	163085118	-1	None	DKFZp566D234, KIAA1263
4	FSTL5	ENSG00000168843	ENST00000427802	protein_coding	KNOWN	CCDS47157	21386	2514	837	162306899	163085156	-1	None	DKFZp566D234, KIAA1263
4	FSTL5	ENSG00000168843	ENST00000511999	processed_transcript	PUTATIVE	None	21386	None	None	162416288	162421226	-1	None	DKFZp566D234, KIAA1263
4	FSTL5	ENSG00000168843	ENST00000511170	processed_transcript	KNOWN	None	21386	None	None	162463755	162586056	-1	None	DKFZp566D234, KIAA1263
4	FSTL5	ENSG00000168843	ENST00000536695	protein_coding	KNOWN	CCDS47158	21386	2541	846	162306899	163032548	-1	None	DKFZp566D234, KIAA1263
2	FKBP1B	ENSG00000119782	ENST00000380991	protein_coding	KNOWN	CCDS33153	3712	243	80	24272571	24286551	1	FKBP1L	OTK4, FKBP12.6, PPIase, FKBP9
2	FKBP1B	ENSG00000119782	ENST00000380986	protein_coding	KNOWN	CCDS1706	3712	327	108	24272584	24286551	1	FKBP1L	OTK4, FKBP12.6, PPIase, FKBP9
2	FKBP1B	ENSG00000119782	ENST00000438630	nonsense_mediated_decay	KNOWN	None	3712	174	57	24272601	24286551	1	FKBP1L	OTK4, FKBP12.6, PPIase, FKBP9
2	FKBP1B	ENSG00000119782	ENST00000496149	retained_intron	KNOWN	None	3712	None	None	24272622	24286526	1	FKBP1L	OTK4, FKBP12.6, PPIase, FKBP9
2	FKBP1B	ENSG00000119782	ENST00000452109	protein_coding	PUTATIVE	None	3712	240	79	24272641	24286541	1	FKBP1L	OTK4, FKBP12.6, PPIase, FKBP9
2	FKBP1B	ENSG00000119782	ENST00000421839	nonsense_mediated_decay	KNOWN	None	3712	128	41	24276781	24286551	1	FKBP1L	OTK4, FKBP12.6, PPIase, FKBP9
X	EIF2S3	ENSG00000130741	ENST00000253039	protein_coding	KNOWN	CCDS14210	3267	1419	472	24072833	24096088	1	EIF2G	EIF2gamma, EIF2
X	EIF2S3	ENSG00000130741	ENST00000487075	processed_transcript	KNOWN	None	3267	None	None	24073063	24080743	1	EIF2G	EIF2gamma, EIF2
X	EIF2S3	ENSG00000130741	ENST00000423068	protein_coding	KNOWN	None	3267	550	182	24073088	24078596	1	EIF2G	EIF2gamma, EIF2
X	EIF2S3	ENSG00000130741	ENST00000460032	processed_transcript	KNOWN	None	3267	None	None	24089830	24091645	1	EIF2G	EIF2gamma, EIF2
HSCHR6_MHC_APD	HCG18	ENSG00000235727	ENST00000453219	processed_transcript	KNOWN	None	31337	None	None	30266817	30302396	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
HSCHR6_MHC_APD	HCG18	ENSG00000235727	ENST00000417148	processed_transcript	KNOWN	None	31337	None	None	30267029	30272260	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
HSCHR6_MHC_APD	HCG18	ENSG00000235727	ENST00000423157	processed_transcript	KNOWN	None	31337	None	None	30267029	30272260	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
HSCHR6_MHC_APD	HCG18	ENSG00000235727	ENST00000429862	processed_transcript	KNOWN	None	31337	None	None	30267029	30272260	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
HSCHR6_MHC_APD	HCG18	ENSG00000235727	ENST00000438668	processed_transcript	KNOWN	None	31337	None	None	30267029	30302356	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
HSCHR6_MHC_APD	HCG18	ENSG00000235727	ENST00000414569	processed_transcript	KNOWN	None	31337	None	None	30267029	30302385	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
HSCHR6_MHC_APD	HCG18	ENSG00000235727	ENST00000448291	processed_transcript	KNOWN	None	31337	None	None	30267029	30302395	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
HSCHR6_MHC_APD	HCG18	ENSG00000235727	ENST00000421520	processed_transcript	KNOWN	None	31337	None	None	30267029	30303159	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
HSCHR6_MHC_APD	HCG18	ENSG00000235727	ENST00000420711	processed_transcript	KNOWN	None	31337	None	None	30302018	30302343	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
HSCHR6_MHC_APD	HCG18	ENSG00000235727	ENST00000443257	processed_transcript	KNOWN	None	31337	None	None	30302363	30302860	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
HSCHR6_MHC_APD	HCG18	ENSG00000235727	ENST00000416577	processed_transcript	KNOWN	None	31337	None	None	30302869	30302906	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
6	CCDC170	ENSG00000120262	ENST00000239374	protein_coding	KNOWN	CCDS43515	21177	2148	715	151815165	151942328	1	C6orf97	FLJ23305, bA282P11.1
6	CCDC170	ENSG00000120262	ENST00000544131	processed_transcript	KNOWN	None	21177	None	None	151857406	151865829	1	C6orf97	FLJ23305, bA282P11.1
6	CCDC170	ENSG00000120262	ENST00000537358	retained_intron	KNOWN	None	21177	None	None	151914163	151936655	1	C6orf97	FLJ23305, bA282P11.1
6	CCDC170	ENSG00000120262	ENST00000367290	protein_coding	KNOWN	None	21177	2169	722	151815175	151942328	1	C6orf97	FLJ23305, bA282P11.1
8	SFRP1	ENSG00000104332	ENST00000220772	protein_coding	KNOWN	CCDS34886	10776	945	314	41119481	41167016	-1	None	SARP2, FRP, FRP-1
8	SFRP1	ENSG00000104332	ENST00000379845	protein_coding	PUTATIVE	None	10776	537	178	41119483	41164509	-1	None	SARP2, FRP, FRP-1
10	None	ENSG00000222309	ENST00000410377	miRNA	NOVEL	None	None	None	None	32635792	32635874	-1	None	None
1	SHCBP1L	ENSG00000157060	ENST00000483655	processed_transcript	KNOWN	None	16788	None	None	182869000	182922158	-1	C1orf14	None
1	SHCBP1L	ENSG00000157060	ENST00000367547	protein_coding	KNOWN	CCDS30955	16788	1962	653	182869000	182922505	-1	C1orf14	None
1	SHCBP1L	ENSG00000157060	ENST00000488956	processed_transcript	KNOWN	None	16788	None	None	182869000	182922660	-1	C1orf14	None
1	SHCBP1L	ENSG00000157060	ENST00000467208	processed_transcript	KNOWN	None	16788	None	None	182908609	182921884	-1	C1orf14	None
1	SHCBP1L	ENSG00000157060	ENST00000497549	processed_transcript	KNOWN	None	16788	None	None	182919495	182922282	-1	C1orf14	None
1	SHCBP1L	ENSG00000157060	ENST00000423786	protein_coding	KNOWN	None	16788	1605	534	182869001	182921119	-1	C1orf14	None
9	None	ENSG00000228707	ENST00000416507	lincRNA	KNOWN	None	None	None	None	118774640	118775244	1	None	None
19	EMP3	ENSG00000142227	ENST00000599704	protein_coding	KNOWN	None	3335	269	88	48824766	48832696	1	None	YMP
19	EMP3	ENSG00000142227	ENST00000270221	protein_coding	KNOWN	CCDS12715	3335	492	163	48828582	48833810	1	None	YMP
19	EMP3	ENSG00000142227	ENST00000596315	protein_coding	PUTATIVE	None	3335	285	94	48828604	48833810	1	None	YMP
19	EMP3	ENSG00000142227	ENST00000594198	protein_coding	PUTATIVE	None	3335	170	55	48828801	48833612	1	None	YMP
19	EMP3	ENSG00000142227	ENST00000597529	retained_intron	KNOWN	None	3335	None	None	48828804	48831057	1	None	YMP
19	EMP3	ENSG00000142227	ENST00000599255	nonsense_mediated_decay	KNOWN	None	3335	192	63	48828818	48833796	1	None	YMP
19	EMP3	ENSG00000142227	ENST00000597279	protein_coding	KNOWN	CCDS12715	3335	492	163	48828838	48833810	1	None	YMP
19	EMP3	ENSG00000142227	ENST00000593437	protein_coding	PUTATIVE	None	3335	484	160	48828865	48833781	1	None	YMP
19	EMP3	ENSG00000142227	ENST00000597057	retained_intron	KNOWN	None	3335	None	None	48832527	48833740	1	None	YMP
19	ZNF737	ENSG00000237440	ENST00000596530	protein_coding	PUTATIVE	None	32468	160	52	20718631	20727515	-1	None	ZNF102
19	ZNF737	ENSG00000237440	ENST00000427401	protein_coding	KNOWN	CCDS54238	32468	1611	536	20726237	20748541	-1	None	ZNF102
19	ZNF737	ENSG00000237440	ENST00000594419	protein_coding	PUTATIVE	None	32468	701	232	20728116	20748552	-1	None	ZNF102
19	ZNF737	ENSG00000237440	ENST00000597940	nonsense_mediated_decay	KNOWN	None	32468	132	43	20728702	20748585	-1	None	ZNF102
19	ZNF737	ENSG00000237440	ENST00000596797	protein_coding	PUTATIVE	None	32468	396	131	20733891	20748615	-1	None	ZNF102
4	IGBP1P4	ENSG00000250325	ENST00000503202	processed_pseudogene	KNOWN	None	43613	None	None	83322731	83323609	-1	None	None
4	None	ENSG00000202440	ENST00000365570	snoRNA	NOVEL	None	None	None	None	83323791	83323859	-1	None	None
4	RPL7AP26	ENSG00000214988	ENST00000488538	processed_pseudogene	KNOWN	None	36815	None	None	83411976	83412788	-1	None	None
19	TNNT1	ENSG00000105048	ENST00000587758	protein_coding	KNOWN	CCDS46185	11948	756	251	55644162	55660561	-1	None	ANM, STNT, TNT, TNTS, FLJ98147, MGC104241, NEM5
19	TNNT1	ENSG00000105048	ENST00000356783	protein_coding	KNOWN	CCDS46185	11948	756	251	55644162	55660574	-1	None	ANM, STNT, TNT, TNTS, FLJ98147, MGC104241, NEM5
19	TNNT1	ENSG00000105048	ENST00000291901	protein_coding	NOVEL	CCDS59421	11948	789	262	55644162	55660574	-1	None	ANM, STNT, TNT, TNTS, FLJ98147, MGC104241, NEM5
19	TNNT1	ENSG00000105048	ENST00000588426	protein_coding	NOVEL	None	11948	480	159	55644162	55660574	-1	None	ANM, STNT, TNT, TNTS, FLJ98147, MGC104241, NEM5
19	TNNT1	ENSG00000105048	ENST00000588981	protein_coding	KNOWN	CCDS12917	11948	837	278	55644162	55660722	-1	None	ANM, STNT, TNT, TNTS, FLJ98147, MGC104241, NEM5
19	TNNT1	ENSG00000105048	ENST00000593194	protein_coding	PUTATIVE	None	11948	632	209	55644194	55653259	-1	None	ANM, STNT, TNT, TNTS, FLJ98147, MGC104241, NEM5
19	TNNT1	ENSG00000105048	ENST00000589745	protein_coding	PUTATIVE	None	11948	442	146	55644196	55652290	-1	None	ANM, STNT, TNT, TNTS, FLJ98147, MGC104241, NEM5
19	TNNT1	ENSG00000105048	ENST00000587465	protein_coding	PUTATIVE	None	11948	579	192	55644203	55658317	-1	None	ANM, STNT, TNT, TNTS, FLJ98147, MGC104241, NEM5
19	TNNT1	ENSG00000105048	ENST00000585321	protein_coding	PUTATIVE	None	11948	579	192	55644233	55658310	-1	None	ANM, STNT, TNT, TNTS, FLJ98147, MGC104241, NEM5
19	TNNT1	ENSG00000105048	ENST00000587089	nonsense_mediated_decay	KNOWN	None	11948	203	66	55644244	55657822	-1	None	ANM, STNT, TNT, TNTS, FLJ98147, MGC104241, NEM5
19	TNNT1	ENSG00000105048	ENST00000586649	protein_coding	PUTATIVE	None	11948	313	103	55644318	55648545	-1	None	ANM, STNT, TNT, TNTS, FLJ98147, MGC104241, NEM5
19	TNNT1	ENSG00000105048	ENST00000593046	protein_coding	KNOWN	None	11948	611	202	55648471	55658714	-1	None	ANM, STNT, TNT, TNTS, FLJ98147, MGC104241, NEM5
19	TNNT1	ENSG00000105048	ENST00000589226	protein_coding	KNOWN	None	11948	453	150	55649344	55658676	-1	None	ANM, STNT, TNT, TNTS, FLJ98147, MGC104241, NEM5
19	TNNT1	ENSG00000105048	ENST00000592920	processed_transcript	KNOWN	None	11948	None	None	55649373	55660574	-1	None	ANM, STNT, TNT, TNTS, FLJ98147, MGC104241, NEM5
19	TNNT1	ENSG00000105048	ENST00000588147	protein_coding	NOVEL	None	11948	432	143	55649386	55660574	-1	None	ANM, STNT, TNT, TNTS, FLJ98147, MGC104241, NEM5
19	TNNT1	ENSG00000105048	ENST00000586282	retained_intron	KNOWN	None	11948	None	None	55656768	55660574	-1	None	ANM, STNT, TNT, TNTS, FLJ98147, MGC104241, NEM5
19	TNNT1	ENSG00000105048	ENST00000536926	protein_coding	KNOWN	None	11948	756	251	55644162	55660606	-1	None	ANM, STNT, TNT, TNTS, FLJ98147, MGC104241, NEM5
19	JUND	ENSG00000130522	ENST00000600972	protein_coding	NOVEL	None	6206	269	88	18390829	18391739	-1	None	AP-1
19	JUND	ENSG00000130522	ENST00000252818	protein_coding	KNOWN	CCDS32959	6206	1044	347	18390563	18392432	-1	None	AP-1
10	None	ENSG00000229327	ENST00000417447	antisense	KNOWN	None	None	None	None	32636325	32663416	1	None	None
15	GOLGA8G	ENSG00000183629	ENST00000382949	retained_intron	KNOWN	None	25328	None	None	28764757	28778117	-1	None	DKFZp434K052
15	GOLGA8G	ENSG00000183629	ENST00000562627	retained_intron	KNOWN	None	25328	None	None	28764761	28778116	-1	None	DKFZp434K052
15	GOLGA8G	ENSG00000183629	ENST00000524859	retained_intron	KNOWN	None	25328	None	None	28764761	28778117	-1	None	DKFZp434K052
15	GOLGA8G	ENSG00000183629	ENST00000569308	retained_intron	KNOWN	None	25328	None	None	28765909	28775558	-1	None	DKFZp434K052
15	GOLGA8G	ENSG00000183629	ENST00000525590	protein_coding	NOVEL	None	25328	1947	648	28767719	28778117	-1	None	DKFZp434K052
15	GOLGA8G	ENSG00000183629	ENST00000561497	retained_intron	KNOWN	None	25328	None	None	28774148	28778160	-1	None	DKFZp434K052
15	GOLGA8G	ENSG00000183629	ENST00000570018	retained_intron	KNOWN	None	25328	None	None	28774275	28777370	-1	None	DKFZp434K052
15	GOLGA8G	ENSG00000183629	ENST00000568534	retained_intron	KNOWN	None	25328	None	None	28775328	28778117	-1	None	DKFZp434K052
15	GOLGA8G	ENSG00000183629	ENST00000329523	protein_coding	KNOWN	None	25328	852	283	28764758	28778143	-1	None	DKFZp434K052
4	ALG1L3P	ENSG00000251087	ENST00000503331	unprocessed_pseudogene	KNOWN	None	44372	None	None	9705378	9712436	-1	None	None
4	ALG1L3P	ENSG00000251087	ENST00000546127	unprocessed_pseudogene	KNOWN	None	44372	None	None	9705374	9707623	-1	None	None
9	None	ENSG00000221772	ENST00000408845	miRNA	NOVEL	None	None	None	None	118961269	118961358	-1	None	None
HSCHR6_MHC_MCF	LTA	ENSG00000226275	ENST00000456789	protein_coding	KNOWN	None	6709	618	205	31616138	31618410	1	TNFB	TNFSF1, LT
HSCHR6_MHC_MCF	LTA	ENSG00000226275	ENST00000466460	retained_intron	KNOWN	None	6709	None	None	31616354	31618410	1	TNFB	TNFSF1, LT
HSCHR6_MHC_MCF	LTA	ENSG00000226275	ENST00000448630	protein_coding	KNOWN	None	6709	618	205	31616367	31618410	1	TNFB	TNFSF1, LT
HSCHR6_MHC_MCF	LTA	ENSG00000226275	ENST00000468015	retained_intron	KNOWN	None	6709	None	None	31616378	31618410	1	TNFB	TNFSF1, LT
HSCHR6_MHC_MCF	LTA	ENSG00000226275	ENST00000549694	protein_coding	KNOWN	None	6709	414	137	31616400	31617936	1	TNFB	TNFSF1, LT
9	PAPPA-AS2	ENSG00000226604	ENST00000438048	antisense	KNOWN	None	35160	None	None	119048108	119051048	-1	None	AGU1
9	None	ENSG00000244757	ENST00000451100	antisense	KNOWN	None	None	None	None	119050897	119080968	-1	None	None
13	LINC00346	ENSG00000255874	ENST00000538077	protein_coding	KNOWN	None	27492	495	164	111521578	111522162	-1	C13orf29, NCRNA00346	None
9	SOHLH1	ENSG00000165643	ENST00000298466	protein_coding	KNOWN	CCDS35174	27845	987	328	138585253	138591374	-1	C9orf157	NOHLH, TEB2, bA100C15.3, bHLHe80, SPATA27
9	SOHLH1	ENSG00000165643	ENST00000425225	protein_coding	KNOWN	CCDS48054	27845	1164	387	138585257	138591374	-1	C9orf157	NOHLH, TEB2, bA100C15.3, bHLHe80, SPATA27
10	RNU6-1244P	ENSG00000200484	ENST00000363614	snRNA	KNOWN	None	48207	None	None	32683486	32683593	-1	None	None
2	MMADHC	ENSG00000168288	ENST00000303319	protein_coding	KNOWN	CCDS2189	25221	891	296	150426148	150444330	-1	C2orf25	CL25022, cblD
2	MMADHC	ENSG00000168288	ENST00000428879	protein_coding	KNOWN	CCDS2189	25221	891	296	150426158	150444116	-1	C2orf25	CL25022, cblD
2	MMADHC	ENSG00000168288	ENST00000422782	protein_coding	NOVEL	None	25221	993	330	150426186	150444292	-1	C2orf25	CL25022, cblD
2	MMADHC	ENSG00000168288	ENST00000460311	processed_transcript	PUTATIVE	None	25221	None	None	150443403	150444240	-1	C2orf25	CL25022, cblD
10	CTSLP4	ENSG00000230011	ENST00000454614	unprocessed_pseudogene	KNOWN	None	23645	None	None	52465140	52468666	-1	CTSLL4, CTSL1P4	bA564C4.3, OTTHUMG00000018237
10	C1DP1	ENSG00000231245	ENST00000426049	processed_pseudogene	KNOWN	None	31465	None	None	32800264	32800665	-1	None	bA195O1.1
7	None	ENSG00000224273	ENST00000449786	unprocessed_pseudogene	KNOWN	None	None	None	None	75747043	75761505	-1	None	None
12	AVPR1A	ENSG00000166148	ENST00000550940	protein_coding	PUTATIVE	None	895	561	186	63539014	63543959	-1	AVPR1	None
12	AVPR1A	ENSG00000166148	ENST00000299178	protein_coding	KNOWN	CCDS8965	895	1257	418	63540977	63544722	-1	AVPR1	None
10	AK3P5	ENSG00000228816	ENST00000432033	processed_pseudogene	KNOWN	None	39064	None	None	33233409	33233927	1	None	None
13	ANKRD10	ENSG00000088448	ENST00000267339	protein_coding	KNOWN	CCDS9520	20265	1263	420	111530887	111567416	-1	None	FLJ20093
13	ANKRD10	ENSG00000088448	ENST00000485844	processed_transcript	KNOWN	None	20265	None	None	111532115	111545429	-1	None	FLJ20093
13	ANKRD10	ENSG00000088448	ENST00000603993	protein_coding	PUTATIVE	None	20265	365	120	111535542	111545479	-1	None	FLJ20093
13	ANKRD10	ENSG00000088448	ENST00000489973	processed_transcript	KNOWN	None	20265	None	None	111536056	111563093	-1	None	FLJ20093
13	ANKRD10	ENSG00000088448	ENST00000310847	protein_coding	PUTATIVE	None	20265	663	220	111545045	111567353	-1	None	FLJ20093
13	ANKRD10	ENSG00000088448	ENST00000465753	nonsense_mediated_decay	KNOWN	None	20265	486	161	111545304	111567384	-1	None	FLJ20093
13	ANKRD10	ENSG00000088448	ENST00000475809	processed_transcript	KNOWN	None	20265	None	None	111545375	111553086	-1	None	FLJ20093
13	ANKRD10	ENSG00000088448	ENST00000494859	processed_transcript	KNOWN	None	20265	None	None	111545544	111566964	-1	None	FLJ20093
13	ANKRD10	ENSG00000088448	ENST00000464579	processed_transcript	KNOWN	None	20265	None	None	111555822	111558442	-1	None	FLJ20093
13	ANKRD10	ENSG00000088448	ENST00000463156	processed_transcript	KNOWN	None	20265	None	None	111556378	111558462	-1	None	FLJ20093
13	ANKRD10	ENSG00000088448	ENST00000460846	processed_transcript	KNOWN	None	20265	None	None	111557370	111567150	-1	None	FLJ20093
13	ANKRD10	ENSG00000088448	ENST00000375758	protein_coding	KNOWN	None	20265	663	220	111530888	111567416	-1	None	FLJ20093
19	FPR1	ENSG00000171051	ENST00000595042	protein_coding	KNOWN	CCDS12839	3826	1053	350	52248425	52255146	-1	None	FPR, FMLP
19	FPR1	ENSG00000171051	ENST00000304748	protein_coding	KNOWN	CCDS12839	3826	1053	350	52248425	52255162	-1	None	FPR, FMLP
19	FPR1	ENSG00000171051	ENST00000600815	protein_coding	KNOWN	None	3826	575	190	52249673	52254064	-1	None	FPR, FMLP
19	FPR1	ENSG00000171051	ENST00000594900	protein_coding	KNOWN	None	3826	119	38	52250129	52307363	-1	None	FPR, FMLP
7	CASD1	ENSG00000127995	ENST00000447923	protein_coding	PUTATIVE	None	16014	377	124	94138531	94163070	1	None	FLJ21213, FLJ21879, C7orf12
7	CASD1	ENSG00000127995	ENST00000297273	protein_coding	KNOWN	CCDS5636	16014	2394	797	94139110	94186331	1	None	FLJ21213, FLJ21879, C7orf12
7	CASD1	ENSG00000127995	ENST00000443644	nonsense_mediated_decay	KNOWN	None	16014	138	45	94139380	94164834	1	None	FLJ21213, FLJ21879, C7orf12
7	CASD1	ENSG00000127995	ENST00000417387	nonsense_mediated_decay	KNOWN	None	16014	312	103	94139383	94157562	1	None	FLJ21213, FLJ21879, C7orf12
7	CASD1	ENSG00000127995	ENST00000471944	retained_intron	KNOWN	None	16014	None	None	94181045	94186278	1	None	FLJ21213, FLJ21879, C7orf12
7	CASD1	ENSG00000127995	ENST00000489196	retained_intron	KNOWN	None	16014	None	None	94183164	94186278	1	None	FLJ21213, FLJ21879, C7orf12
13	MYCBP2	ENSG00000005810	ENST00000544440	protein_coding	KNOWN	None	23386	13923	4640	77618792	77900814	-1	None	PAM, KIAA0916, FLJ10106
13	MYCBP2	ENSG00000005810	ENST00000429715	protein_coding	NOVEL	None	23386	3184	1060	77619037	77661649	-1	None	PAM, KIAA0916, FLJ10106
13	MYCBP2	ENSG00000005810	ENST00000485061	processed_transcript	KNOWN	None	23386	None	None	77667421	77671781	-1	None	PAM, KIAA0916, FLJ10106
13	MYCBP2	ENSG00000005810	ENST00000482517	processed_transcript	KNOWN	None	23386	None	None	77672203	77700651	-1	None	PAM, KIAA0916, FLJ10106
13	MYCBP2	ENSG00000005810	ENST00000462987	processed_transcript	KNOWN	None	23386	None	None	77672911	77692597	-1	None	PAM, KIAA0916, FLJ10106
13	MYCBP2	ENSG00000005810	ENST00000498073	processed_transcript	KNOWN	None	23386	None	None	77673020	77715078	-1	None	PAM, KIAA0916, FLJ10106
13	MYCBP2	ENSG00000005810	ENST00000466564	processed_transcript	KNOWN	None	23386	None	None	77695360	77699563	-1	None	PAM, KIAA0916, FLJ10106
13	MYCBP2	ENSG00000005810	ENST00000486679	processed_transcript	KNOWN	None	23386	None	None	77718252	77724913	-1	None	PAM, KIAA0916, FLJ10106
13	MYCBP2	ENSG00000005810	ENST00000474882	processed_transcript	KNOWN	None	23386	None	None	77844166	77847646	-1	None	PAM, KIAA0916, FLJ10106
13	MYCBP2	ENSG00000005810	ENST00000491491	processed_transcript	KNOWN	None	23386	None	None	77870738	77901185	-1	None	PAM, KIAA0916, FLJ10106
13	MYCBP2	ENSG00000005810	ENST00000407578	protein_coding	KNOWN	None	23386	14037	4678	77618792	77901177	-1	None	PAM, KIAA0916, FLJ10106
13	MYCBP2	ENSG00000005810	ENST00000357337	protein_coding	KNOWN	None	23386	13923	4640	77618793	77901179	-1	None	PAM, KIAA0916, FLJ10106
13	MYCBP2	ENSG00000005810	ENST00000360084	protein_coding	KNOWN	None	23386	1539	512	77672203	77901179	-1	None	PAM, KIAA0916, FLJ10106
11	TRIM34	ENSG00000258659	ENST00000514226	protein_coding	KNOWN	CCDS31391	10063	1467	488	5640994	5665628	1	RNF21	None
11	TRIM34	ENSG00000258659	ENST00000429814	protein_coding	KNOWN	CCDS31391	10063	1467	488	5646213	5665628	1	RNF21	None
11	TRIM34	ENSG00000258659	ENST00000491385	retained_intron	KNOWN	None	10063	None	None	5653511	5662528	1	RNF21	None
11	TRIM34	ENSG00000258659	ENST00000495668	processed_transcript	KNOWN	None	10063	None	None	5656068	5665039	1	RNF21	None
14	IGHV1-3	ENSG00000211935	ENST00000390595	IG_V_gene	KNOWN	None	5552	351	116	106471246	106471723	-1	None	VI-3B
12	PLA2G1B	ENSG00000170890	ENST00000308366	protein_coding	KNOWN	CCDS9195	9030	447	148	120759914	120765592	-1	PLA2, PPLA2, PLA2A	None
12	PLA2G1B	ENSG00000170890	ENST00000423423	protein_coding	NOVEL	None	9030	213	70	120759918	120765582	-1	PLA2, PPLA2, PLA2A	None
12	PLA2G1B	ENSG00000170890	ENST00000549767	protein_coding	PUTATIVE	None	9030	360	119	120759920	120763896	-1	PLA2, PPLA2, PLA2A	None
7	LAMTOR4	ENSG00000188186	ENST00000341942	protein_coding	KNOWN	CCDS34702	33772	300	99	99746530	99751826	1	C7orf59	None
7	LAMTOR4	ENSG00000188186	ENST00000474141	processed_transcript	KNOWN	None	33772	None	None	99746535	99751826	1	C7orf59	None
7	LAMTOR4	ENSG00000188186	ENST00000460732	processed_transcript	KNOWN	None	33772	None	None	99746536	99751826	1	C7orf59	None
7	LAMTOR4	ENSG00000188186	ENST00000474831	processed_transcript	KNOWN	None	33772	None	None	99746557	99751826	1	C7orf59	None
7	LAMTOR4	ENSG00000188186	ENST00000494136	retained_intron	KNOWN	None	33772	None	None	99746561	99747510	1	C7orf59	None
7	LAMTOR4	ENSG00000188186	ENST00000441173	protein_coding	PUTATIVE	None	33772	414	137	99746561	99751633	1	C7orf59	None
7	LAMTOR4	ENSG00000188186	ENST00000468582	processed_transcript	KNOWN	None	33772	None	None	99746601	99751832	1	C7orf59	None
7	LAMTOR4	ENSG00000188186	ENST00000488241	processed_transcript	KNOWN	None	33772	None	None	99746617	99751826	1	C7orf59	None
7	LAMTOR4	ENSG00000188186	ENST00000473459	retained_intron	KNOWN	None	33772	None	None	99746980	99751826	1	C7orf59	None
7	LAMTOR4	ENSG00000188186	ENST00000466498	processed_transcript	KNOWN	None	33772	None	None	99746982	99751521	1	C7orf59	None
7	LAMTOR4	ENSG00000188186	ENST00000488338	retained_intron	KNOWN	None	33772	None	None	99750303	99751826	1	C7orf59	None
7	LAMTOR4	ENSG00000188186	ENST00000490633	processed_transcript	KNOWN	None	33772	None	None	99751109	99753567	1	C7orf59	None
HSCHR6_MHC_MANN	None	ENSG00000257260	ENST00000550250	protein_coding	NOVEL	None	None	39	12	31163493	31163610	1	None	None
X	GEMIN8P3	ENSG00000223772	ENST00000445417	processed_pseudogene	KNOWN	None	37978	None	None	85559370	85560089	1	None	None
4	MED28	ENSG00000118579	ENST00000237380	protein_coding	KNOWN	CCDS33963	24628	537	178	17616254	17627254	1	None	EG1, DKFZP434N185, magicin
4	MED28	ENSG00000118579	ENST00000506409	retained_intron	KNOWN	None	24628	None	None	17616271	17621704	1	None	EG1, DKFZP434N185, magicin
4	MED28	ENSG00000118579	ENST00000503945	protein_coding	PUTATIVE	None	24628	540	179	17616287	17627477	1	None	EG1, DKFZP434N185, magicin
5	KIF3A	ENSG00000131437	ENST00000378746	protein_coding	KNOWN	CCDS34235	6319	2100	699	132028320	132073330	-1	None	FLA10, KLP-20
5	KIF3A	ENSG00000131437	ENST00000378735	protein_coding	KNOWN	None	6319	2109	702	132031322	132073264	-1	None	FLA10, KLP-20
5	KIF3A	ENSG00000131437	ENST00000450441	protein_coding	NOVEL	None	6319	558	185	132032146	132038726	-1	None	FLA10, KLP-20
5	KIF3A	ENSG00000131437	ENST00000488471	processed_transcript	PUTATIVE	None	6319	None	None	132032240	132035172	-1	None	FLA10, KLP-20
5	KIF3A	ENSG00000131437	ENST00000403231	protein_coding	NOVEL	None	6319	2181	726	132032326	132073111	-1	None	FLA10, KLP-20
5	KIF3A	ENSG00000131437	ENST00000487055	processed_transcript	KNOWN	None	6319	None	None	132036228	132039302	-1	None	FLA10, KLP-20
5	KIF3A	ENSG00000131437	ENST00000428744	protein_coding	PUTATIVE	None	6319	507	168	132061820	132072620	-1	None	FLA10, KLP-20
19	ZNF329	ENSG00000181894	ENST00000597186	nonsense_mediated_decay	KNOWN	CCDS12972	14209	1626	541	58637619	58662154	-1	None	FLJ12586
19	ZNF329	ENSG00000181894	ENST00000598312	protein_coding	KNOWN	CCDS12972	14209	1626	541	58637695	58662145	-1	None	FLJ12586
19	ZNF329	ENSG00000181894	ENST00000500161	nonsense_mediated_decay	KNOWN	CCDS12972	14209	1626	541	58637702	58666477	-1	None	FLJ12586
19	ZNF329	ENSG00000181894	ENST00000601887	protein_coding	KNOWN	None	14209	128	41	58640743	58666434	-1	None	FLJ12586
19	ZNF329	ENSG00000181894	ENST00000358067	protein_coding	KNOWN	CCDS12972	14209	1626	541	58637697	58654565	-1	None	FLJ12586
HSCHR6_MHC_MCF	TNF	ENSG00000223952	ENST00000448781	protein_coding	KNOWN	None	11892	702	233	31619653	31622422	1	TNFA	TNFSF2, DIF, TNF-alpha
4	MYL5	ENSG00000215375	ENST00000506838	protein_coding	KNOWN	None	7586	399	132	667369	675816	1	None	None
4	MYL5	ENSG00000215375	ENST00000505477	protein_coding	KNOWN	None	7586	399	132	667730	675811	1	None	None
4	MYL5	ENSG00000215375	ENST00000503300	nonsense_mediated_decay	KNOWN	None	7586	195	64	668292	675816	1	None	None
4	MYL5	ENSG00000215375	ENST00000502720	retained_intron	KNOWN	None	7586	None	None	668331	670270	1	None	None
4	MYL5	ENSG00000215375	ENST00000511290	protein_coding	KNOWN	None	7586	399	132	668349	675817	1	None	None
4	MYL5	ENSG00000215375	ENST00000400159	protein_coding	KNOWN	CCDS43197	7586	522	173	671711	675822	1	None	None
4	MYL5	ENSG00000215375	ENST00000513662	nonsense_mediated_decay	KNOWN	None	7586	318	105	671743	675779	1	None	None
4	MYL5	ENSG00000215375	ENST00000507804	protein_coding	PUTATIVE	None	7586	378	125	671978	674368	1	None	None
4	MYL5	ENSG00000215375	ENST00000503612	retained_intron	KNOWN	None	7586	None	None	674535	675817	1	None	None
20	C20orf201	ENSG00000171695	ENST00000308906	protein_coding	KNOWN	CCDS33509	33718	723	240	62714733	62715712	-1	None	None
20	C20orf201	ENSG00000171695	ENST00000302096	protein_coding	PUTATIVE	None	33718	585	194	62714752	62715712	-1	None	None
16	RRAD	ENSG00000166592	ENST00000299759	protein_coding	KNOWN	CCDS10824	10446	927	308	66955588	66959547	-1	None	REM3, RAD
16	RRAD	ENSG00000166592	ENST00000567791	retained_intron	KNOWN	None	10446	None	None	66955590	66957801	-1	None	REM3, RAD
16	RRAD	ENSG00000166592	ENST00000568915	protein_coding	PUTATIVE	None	10446	409	135	66955653	66958877	-1	None	REM3, RAD
16	RRAD	ENSG00000166592	ENST00000566577	protein_coding	PUTATIVE	None	10446	484	160	66955735	66958855	-1	None	REM3, RAD
16	RRAD	ENSG00000166592	ENST00000420652	protein_coding	KNOWN	CCDS10824	10446	927	308	66955582	66959439	-1	None	REM3, RAD
10	NPS	ENSG00000214285	ENST00000398023	protein_coding	KNOWN	CCDS41577	33940	270	89	129347613	129350935	1	None	None
1	GSTM5	ENSG00000134201	ENST00000256593	protein_coding	KNOWN	CCDS811	4637	657	218	110254877	110260888	1	None	None
1	GSTM5	ENSG00000134201	ENST00000369813	protein_coding	KNOWN	None	4637	609	202	110254878	110260883	1	None	None
1	GSTM5	ENSG00000134201	ENST00000429410	processed_transcript	KNOWN	None	4637	None	None	110254889	110318050	1	None	None
1	GSTM5	ENSG00000134201	ENST00000492718	processed_transcript	KNOWN	None	4637	None	None	110256166	110260460	1	None	None
1	GSTM5	ENSG00000134201	ENST00000483153	processed_transcript	KNOWN	None	4637	None	None	110257238	110260253	1	None	None
1	GSTM5	ENSG00000134201	ENST00000369812	protein_coding	KNOWN	None	4637	714	237	110254864	110260888	1	None	None
9	SPATA31D2P	ENSG00000237770	ENST00000429999	processed_pseudogene	KNOWN	None	38607	None	None	84583753	84586985	1	FAM75D2P	None
HSCHR6_MHC_DBB	None	ENSG00000265299	ENST00000577976	miRNA	NOVEL	None	None	None	None	28743704	28743811	1	None	None
19	FPR2	ENSG00000171049	ENST00000600258	protein_coding	KNOWN	None	3827	265	87	52255279	52272176	1	FPRL1	LXA4R, HM63, FPRH2, FMLPX, FPR2A, FMLP-R-II, ALXR
19	FPR2	ENSG00000171049	ENST00000340023	protein_coding	KNOWN	CCDS12840	3827	1056	351	52264104	52273779	1	FPRL1	LXA4R, HM63, FPRH2, FMLPX, FPR2A, FMLP-R-II, ALXR
19	FPR2	ENSG00000171049	ENST00000599326	protein_coding	KNOWN	None	3827	410	135	52264451	52272321	1	FPRL1	LXA4R, HM63, FPRH2, FMLPX, FPR2A, FMLP-R-II, ALXR
19	FPR2	ENSG00000171049	ENST00000598953	protein_coding	KNOWN	CCDS12840	3827	1056	351	52264465	52273266	1	FPRL1	LXA4R, HM63, FPRH2, FMLPX, FPR2A, FMLP-R-II, ALXR
19	FPR2	ENSG00000171049	ENST00000598776	protein_coding	KNOWN	CCDS12840	3827	1056	351	52266013	52273760	1	FPRL1	LXA4R, HM63, FPRH2, FMLPX, FPR2A, FMLP-R-II, ALXR
19	FPR2	ENSG00000171049	ENST00000600722	protein_coding	KNOWN	None	3827	374	123	52271631	52272285	1	FPRL1	LXA4R, HM63, FPRH2, FMLPX, FPR2A, FMLP-R-II, ALXR
20	NPBWR2	ENSG00000125522	ENST00000369768	protein_coding	KNOWN	CCDS13557	4530	1002	333	62737173	62738524	-1	GPR8	None
HSCHR6_MHC_DBB	None	ENSG00000230511	ENST00000441789	processed_pseudogene	KNOWN	None	None	None	None	28751414	28751785	-1	None	None
3	RAF1	ENSG00000132155	ENST00000251849	protein_coding	KNOWN	CCDS2612	9829	1947	648	12625100	12705725	-1	None	Raf-1, c-Raf, CRAF
3	RAF1	ENSG00000132155	ENST00000442415	protein_coding	KNOWN	None	9829	2007	668	12625297	12705647	-1	None	Raf-1, c-Raf, CRAF
3	RAF1	ENSG00000132155	ENST00000432427	protein_coding	NOVEL	None	9829	1584	527	12625766	12653504	-1	None	Raf-1, c-Raf, CRAF
3	RAF1	ENSG00000132155	ENST00000423275	nonsense_mediated_decay	KNOWN	None	9829	210	69	12625832	12705624	-1	None	Raf-1, c-Raf, CRAF
3	RAF1	ENSG00000132155	ENST00000471449	retained_intron	KNOWN	None	9829	None	None	12625845	12627404	-1	None	Raf-1, c-Raf, CRAF
3	RAF1	ENSG00000132155	ENST00000465826	retained_intron	KNOWN	None	9829	None	None	12628346	12645712	-1	None	Raf-1, c-Raf, CRAF
3	RAF1	ENSG00000132155	ENST00000475353	retained_intron	KNOWN	None	9829	None	None	12629076	12633567	-1	None	Raf-1, c-Raf, CRAF
3	RAF1	ENSG00000132155	ENST00000494557	retained_intron	KNOWN	None	9829	None	None	12629478	12633415	-1	None	Raf-1, c-Raf, CRAF
3	RAF1	ENSG00000132155	ENST00000460610	retained_intron	KNOWN	None	9829	None	None	12632140	12641254	-1	None	Raf-1, c-Raf, CRAF
3	RAF1	ENSG00000132155	ENST00000491290	retained_intron	KNOWN	None	9829	None	None	12641698	12650366	-1	None	Raf-1, c-Raf, CRAF
3	RAF1	ENSG00000132155	ENST00000416093	nonsense_mediated_decay	KNOWN	None	9829	210	69	12645634	12705624	-1	None	Raf-1, c-Raf, CRAF
3	RAF1	ENSG00000132155	ENST00000492690	retained_intron	KNOWN	None	9829	None	None	12649945	12653500	-1	None	Raf-1, c-Raf, CRAF
3	RAF1	ENSG00000132155	ENST00000542177	protein_coding	KNOWN	None	9829	1704	567	12625832	12705616	-1	None	Raf-1, c-Raf, CRAF
3	RAF1	ENSG00000132155	ENST00000534997	protein_coding	KNOWN	None	9829	1302	433	12625766	12650745	-1	None	Raf-1, c-Raf, CRAF
3	ULK4	ENSG00000168038	ENST00000489118	processed_transcript	KNOWN	None	15784	None	None	41288090	41319642	-1	None	FLJ20574, REC01035, FAM7C1
3	ULK4	ENSG00000168038	ENST00000301831	protein_coding	KNOWN	CCDS43071	15784	3828	1275	41288098	42003922	-1	None	FLJ20574, REC01035, FAM7C1
3	ULK4	ENSG00000168038	ENST00000460406	processed_transcript	KNOWN	None	15784	None	None	41841625	41896403	-1	None	FLJ20574, REC01035, FAM7C1
3	ULK4	ENSG00000168038	ENST00000420927	protein_coding	NOVEL	None	15784	1743	580	41923642	42003486	-1	None	FLJ20574, REC01035, FAM7C1
3	ULK4	ENSG00000168038	ENST00000481226	processed_transcript	KNOWN	None	15784	None	None	41949412	41956966	-1	None	FLJ20574, REC01035, FAM7C1
3	ULK4	ENSG00000168038	ENST00000484323	retained_intron	KNOWN	None	15784	None	None	41953044	41954696	-1	None	FLJ20574, REC01035, FAM7C1
3	ULK4	ENSG00000168038	ENST00000459802	processed_transcript	KNOWN	None	15784	None	None	41961212	42003569	-1	None	FLJ20574, REC01035, FAM7C1
3	ULK4	ENSG00000168038	ENST00000497684	retained_intron	KNOWN	None	15784	None	None	41973243	41996290	-1	None	FLJ20574, REC01035, FAM7C1
3	ULK4	ENSG00000168038	ENST00000453224	nonsense_mediated_decay	KNOWN	None	15784	255	84	41977354	42003607	-1	None	FLJ20574, REC01035, FAM7C1
3	ULK4	ENSG00000168038	ENST00000431379	nonsense_mediated_decay	KNOWN	None	15784	255	84	41977387	42003594	-1	None	FLJ20574, REC01035, FAM7C1
3	ULK4	ENSG00000168038	ENST00000414606	protein_coding	PUTATIVE	None	15784	255	84	41978587	42003622	-1	None	FLJ20574, REC01035, FAM7C1
3	ULK4	ENSG00000168038	ENST00000460978	retained_intron	KNOWN	None	15784	None	None	41979351	42003547	-1	None	FLJ20574, REC01035, FAM7C1
10	FOXI2	ENSG00000186766	ENST00000388920	protein_coding	KNOWN	CCDS7655	32448	957	318	129535499	129539450	1	None	FLJ46831
HSCHR6_MHC_DBB	None	ENSG00000264228	ENST00000584242	miRNA	NOVEL	None	None	None	None	28763751	28763814	-1	None	None
10	NOLC1	ENSG00000166197	ENST00000605788	protein_coding	KNOWN	CCDS7530	15608	2100	699	103911933	103923623	1	None	P130, KIAA0035, NOPP140, NOPP130
10	NOLC1	ENSG00000166197	ENST00000464969	nonsense_mediated_decay	KNOWN	None	15608	222	73	103912152	103922356	1	None	P130, KIAA0035, NOPP140, NOPP130
10	NOLC1	ENSG00000166197	ENST00000488254	protein_coding	KNOWN	None	15608	2103	700	103912161	103922357	1	None	P130, KIAA0035, NOPP140, NOPP130
10	NOLC1	ENSG00000166197	ENST00000603946	nonsense_mediated_decay	KNOWN	None	15608	141	46	103912161	103923623	1	None	P130, KIAA0035, NOPP140, NOPP130
10	NOLC1	ENSG00000166197	ENST00000461421	protein_coding	NOVEL	None	15608	775	257	103912166	103920316	1	None	P130, KIAA0035, NOPP140, NOPP130
10	NOLC1	ENSG00000166197	ENST00000476468	protein_coding	NOVEL	None	15608	844	280	103912170	103919695	1	None	P130, KIAA0035, NOPP140, NOPP130
10	NOLC1	ENSG00000166197	ENST00000370007	protein_coding	KNOWN	None	15608	2126	707	103912172	103923627	1	None	P130, KIAA0035, NOPP140, NOPP130
10	NOLC1	ENSG00000166197	ENST00000477977	processed_transcript	KNOWN	None	15608	None	None	103920487	103923623	1	None	P130, KIAA0035, NOPP140, NOPP130
10	NOLC1	ENSG00000166197	ENST00000405356	protein_coding	KNOWN	None	15608	2130	709	103911933	103923627	1	None	P130, KIAA0035, NOPP140, NOPP130
10	NOLC1	ENSG00000166197	ENST00000603742	protein_coding	KNOWN	None	15608	1257	418	103912152	103922356	1	None	P130, KIAA0035, NOPP140, NOPP130
HSCHR6_MHC_DBB	None	ENSG00000235460	ENST00000419878	processed_transcript	PUTATIVE	None	None	None	None	28805659	28806796	-1	None	None
HSCHR6_MHC_DBB	None	ENSG00000225604	ENST00000435625	processed_transcript	KNOWN	None	None	None	None	28827415	28831140	-1	None	None
9	SPATA31B1	ENSG00000231649	ENST00000434692	unprocessed_pseudogene	KNOWN	None	31411	None	None	84672562	84678597	-1	C9orf36B, FAM75B	bA388B24.2
9	SPATA31B1	ENSG00000231649	ENST00000376458	unprocessed_pseudogene	KNOWN	None	31411	None	None	84675876	84677001	-1	C9orf36B, FAM75B	bA388B24.2
11	CORO1B	ENSG00000172725	ENST00000341356	protein_coding	KNOWN	CCDS8164	2253	1470	489	67205547	67210983	-1	None	coronin-2
11	CORO1B	ENSG00000172725	ENST00000537042	nonsense_mediated_decay	KNOWN	None	2253	849	282	67205553	67210927	-1	None	coronin-2
11	CORO1B	ENSG00000172725	ENST00000539724	processed_transcript	KNOWN	None	2253	None	None	67205754	67207670	-1	None	coronin-2
11	CORO1B	ENSG00000172725	ENST00000539970	processed_transcript	PUTATIVE	None	2253	None	None	67207702	67207992	-1	None	coronin-2
11	CORO1B	ENSG00000172725	ENST00000453768	protein_coding	KNOWN	None	2253	870	289	67208262	67210943	-1	None	coronin-2
11	CORO1B	ENSG00000172725	ENST00000545016	protein_coding	KNOWN	None	2253	552	183	67208707	67210958	-1	None	coronin-2
11	CORO1B	ENSG00000172725	ENST00000545736	processed_transcript	KNOWN	None	2253	None	None	67209240	67211292	-1	None	coronin-2
11	CORO1B	ENSG00000172725	ENST00000537010	processed_transcript	KNOWN	None	2253	None	None	67209465	67211152	-1	None	coronin-2
11	CORO1B	ENSG00000172725	ENST00000393893	protein_coding	KNOWN	CCDS8164	2253	1470	489	67205519	67211263	-1	None	coronin-2
HSCHR6_MHC_DBB	RPL13P	ENSG00000224158	ENST00000440069	processed_pseudogene	KNOWN	None	13978	None	None	28829206	28829837	1	None	BBC1p, dJ111M5.1
17	DLX4	ENSG00000108813	ENST00000503410	processed_transcript	KNOWN	None	2917	None	None	48046334	48050555	1	DLX7, DLX9	DLX8, BP1
17	DLX4	ENSG00000108813	ENST00000240306	protein_coding	KNOWN	CCDS11555	2917	723	240	48046538	48052321	1	DLX7, DLX9	DLX8, BP1
17	DLX4	ENSG00000108813	ENST00000505318	protein_coding	PUTATIVE	None	2917	291	96	48046694	48049761	1	DLX7, DLX9	DLX8, BP1
17	DLX4	ENSG00000108813	ENST00000503276	retained_intron	KNOWN	None	2917	None	None	48049328	48051117	1	DLX7, DLX9	DLX8, BP1
17	DLX4	ENSG00000108813	ENST00000411890	protein_coding	KNOWN	CCDS45728	2917	507	168	48050130	48051959	1	DLX7, DLX9	DLX8, BP1
HSCHR6_MHC_MANN	TCF19	ENSG00000224941	ENST00000441405	protein_coding	KNOWN	None	11629	1038	345	31171310	31176939	1	None	SC1
HSCHR6_MHC_MANN	TCF19	ENSG00000224941	ENST00000428957	protein_coding	KNOWN	None	11629	1038	345	31171352	31176939	1	None	SC1
HSCHR6_MHC_MANN	TCF19	ENSG00000224941	ENST00000476101	processed_transcript	PUTATIVE	None	11629	None	None	31174207	31175730	1	None	SC1
9	DDX10P2	ENSG00000230360	ENST00000417796	processed_pseudogene	KNOWN	None	44961	None	None	84701070	84703683	-1	None	None
HSCHR6_MHC_DBB	None	ENSG00000263491	ENST00000581053	misc_RNA	NOVEL	None	None	None	None	28945266	28945561	1	None	None
6	FAM135A	ENSG00000082269	ENST00000514185	processed_transcript	KNOWN	None	21084	None	None	71122644	71138047	1	KIAA1411	FLJ20176
6	FAM135A	ENSG00000082269	ENST00000418814	protein_coding	KNOWN	CCDS55028	21084	4548	1515	71123011	71270877	1	KIAA1411	FLJ20176
6	FAM135A	ENSG00000082269	ENST00000505769	protein_coding	NOVEL	None	21084	3288	1095	71123124	71270735	1	KIAA1411	FLJ20176
6	FAM135A	ENSG00000082269	ENST00000515323	protein_coding	KNOWN	None	21084	1515	504	71123128	71234302	1	KIAA1411	FLJ20176
6	FAM135A	ENSG00000082269	ENST00000508844	processed_transcript	KNOWN	None	21084	None	None	71123217	71136474	1	KIAA1411	FLJ20176
6	FAM135A	ENSG00000082269	ENST00000515280	protein_coding	KNOWN	None	21084	93	30	71123218	71162210	1	KIAA1411	FLJ20176
6	FAM135A	ENSG00000082269	ENST00000507085	protein_coding	KNOWN	None	21084	151	49	71123253	71162268	1	KIAA1411	FLJ20176
6	FAM135A	ENSG00000082269	ENST00000457062	protein_coding	KNOWN	CCDS34481	21084	3909	1302	71123269	71270727	1	KIAA1411	FLJ20176
6	FAM135A	ENSG00000082269	ENST00000361499	protein_coding	KNOWN	CCDS47448	21084	3960	1319	71123281	71270362	1	KIAA1411	FLJ20176
6	FAM135A	ENSG00000082269	ENST00000194672	nonsense_mediated_decay	KNOWN	None	21084	444	147	71136231	71270874	1	KIAA1411	FLJ20176
6	FAM135A	ENSG00000082269	ENST00000505868	protein_coding	PUTATIVE	None	21084	4410	1469	71138046	71267397	1	KIAA1411	FLJ20176
6	FAM135A	ENSG00000082269	ENST00000393299	retained_intron	KNOWN	None	21084	None	None	71138089	71234311	1	KIAA1411	FLJ20176
6	FAM135A	ENSG00000082269	ENST00000425415	retained_intron	KNOWN	None	21084	None	None	71191836	71214663	1	KIAA1411	FLJ20176
6	FAM135A	ENSG00000082269	ENST00000507049	retained_intron	KNOWN	None	21084	None	None	71245610	71248049	1	KIAA1411	FLJ20176
6	FAM135A	ENSG00000082269	ENST00000505675	retained_intron	KNOWN	None	21084	None	None	71266401	71270874	1	KIAA1411	FLJ20176
6	FAM135A	ENSG00000082269	ENST00000370479	protein_coding	KNOWN	CCDS34481	21084	3909	1302	71123107	71270873	1	KIAA1411	FLJ20176
19	None	ENSG00000267001	ENST00000586572	protein_coding	PUTATIVE	None	None	317	104	2717767	2740046	-1	None	None
HSCHR6_MHC_DBB	HCG15	ENSG00000235405	ENST00000433739	processed_transcript	KNOWN	None	18361	None	None	28953994	28955275	1	None	dJ25J6.6
21	TMPRSS3	ENSG00000160183	ENST00000476848	retained_intron	KNOWN	None	11877	None	None	43791999	43803860	-1	DFNB10, DFNB8	None
21	TMPRSS3	ENSG00000160183	ENST00000474596	processed_transcript	PUTATIVE	None	11877	None	None	43791999	43809227	-1	DFNB10, DFNB8	None
21	TMPRSS3	ENSG00000160183	ENST00000482761	retained_intron	KNOWN	None	11877	None	None	43791999	43810527	-1	DFNB10, DFNB8	None
21	TMPRSS3	ENSG00000160183	ENST00000398405	protein_coding	NOVEL	None	11877	1356	451	43791999	43816052	-1	DFNB10, DFNB8	None
21	TMPRSS3	ENSG00000160183	ENST00000433957	protein_coding	KNOWN	CCDS58790	11877	1362	453	43791999	43816168	-1	DFNB10, DFNB8	None
21	TMPRSS3	ENSG00000160183	ENST00000291532	protein_coding	KNOWN	CCDS13686	11877	1365	454	43791999	43816955	-1	DFNB10, DFNB8	None
21	TMPRSS3	ENSG00000160183	ENST00000398397	protein_coding	KNOWN	CCDS42939	11877	1035	344	43801985	43816200	-1	DFNB10, DFNB8	None
21	TMPRSS3	ENSG00000160183	ENST00000478680	processed_transcript	KNOWN	None	11877	None	None	43801987	43802862	-1	DFNB10, DFNB8	None
21	TMPRSS3	ENSG00000160183	ENST00000380399	protein_coding	KNOWN	None	11877	1617	538	43792000	43816955	-1	DFNB10, DFNB8	None
1	LAMC1	ENSG00000135862	ENST00000258341	protein_coding	KNOWN	CCDS1351	6492	4830	1609	182992595	183114727	1	LAMB2	None
1	LAMC1	ENSG00000135862	ENST00000484114	protein_coding	PUTATIVE	None	6492	113	36	183065679	183079766	1	LAMB2	None
1	LAMC1	ENSG00000135862	ENST00000479499	processed_transcript	KNOWN	None	6492	None	None	183079716	183086121	1	LAMB2	None
1	LAMC1	ENSG00000135862	ENST00000466964	processed_transcript	KNOWN	None	6492	None	None	183094323	183097863	1	LAMB2	None
1	LAMC1	ENSG00000135862	ENST00000478064	processed_transcript	PUTATIVE	None	6492	None	None	183097731	183102673	1	LAMB2	None
1	LAMC1	ENSG00000135862	ENST00000495918	processed_transcript	KNOWN	None	6492	None	None	183103825	183107040	1	LAMB2	None
17	CCL11	ENSG00000172156	ENST00000305869	protein_coding	KNOWN	CCDS11279	10610	294	97	32612687	32615353	1	SCYA11	eotaxin, MGC22554
HSCHR6_MHC_DBB	HCG16	ENSG00000239675	ENST00000412771	processed_transcript	KNOWN	None	20424	None	None	28954591	28956327	1	None	dJ25J6.7
12	SPSB2	ENSG00000111671	ENST00000523102	protein_coding	KNOWN	CCDS8567	29522	792	263	6980099	6982449	-1	None	GRCC9, SSB-2
12	SPSB2	ENSG00000111671	ENST00000524270	protein_coding	KNOWN	CCDS8567	29522	792	263	6980099	6982500	-1	None	GRCC9, SSB-2
12	SPSB2	ENSG00000111671	ENST00000519357	protein_coding	PUTATIVE	None	29522	804	267	6980757	6982500	-1	None	GRCC9, SSB-2
12	SPSB2	ENSG00000111671	ENST00000432205	protein_coding	KNOWN	None	29522	247	81	6981819	6991451	-1	None	GRCC9, SSB-2
12	SPSB2	ENSG00000111671	ENST00000437851	processed_transcript	KNOWN	None	29522	None	None	6984928	6998522	-1	None	GRCC9, SSB-2
1	PTPRU	ENSG00000060656	ENST00000345512	protein_coding	KNOWN	CCDS334	9683	4341	1446	29563028	29652173	1	None	PTPRO, hPTP-J, PCP-2, FMI, PTP
1	PTPRU	ENSG00000060656	ENST00000373779	protein_coding	KNOWN	CCDS335	9683	4311	1436	29563028	29653312	1	None	PTPRO, hPTP-J, PCP-2, FMI, PTP
1	PTPRU	ENSG00000060656	ENST00000428026	protein_coding	KNOWN	CCDS53290	9683	4302	1433	29563061	29653325	1	None	PTPRO, hPTP-J, PCP-2, FMI, PTP
1	PTPRU	ENSG00000060656	ENST00000460170	protein_coding	NOVEL	CCDS44098	9683	4323	1440	29563151	29653181	1	None	PTPRO, hPTP-J, PCP-2, FMI, PTP
1	PTPRU	ENSG00000060656	ENST00000527027	processed_transcript	KNOWN	None	9683	None	None	29586693	29602197	1	None	PTPRO, hPTP-J, PCP-2, FMI, PTP
1	PTPRU	ENSG00000060656	ENST00000415600	processed_transcript	KNOWN	None	9683	None	None	29606063	29639218	1	None	PTPRO, hPTP-J, PCP-2, FMI, PTP
1	PTPRU	ENSG00000060656	ENST00000531385	retained_intron	KNOWN	None	9683	None	None	29610235	29630552	1	None	PTPRO, hPTP-J, PCP-2, FMI, PTP
1	PTPRU	ENSG00000060656	ENST00000526080	retained_intron	KNOWN	None	9683	None	None	29637858	29639171	1	None	PTPRO, hPTP-J, PCP-2, FMI, PTP
1	PTPRU	ENSG00000060656	ENST00000493601	processed_transcript	KNOWN	None	9683	None	None	29644272	29651810	1	None	PTPRO, hPTP-J, PCP-2, FMI, PTP
1	PTPRU	ENSG00000060656	ENST00000465525	retained_intron	KNOWN	None	9683	None	None	29646722	29652724	1	None	PTPRO, hPTP-J, PCP-2, FMI, PTP
1	PTPRU	ENSG00000060656	ENST00000492954	retained_intron	KNOWN	None	9683	None	None	29649730	29652162	1	None	PTPRO, hPTP-J, PCP-2, FMI, PTP
1	PTPRU	ENSG00000060656	ENST00000356870	protein_coding	KNOWN	None	9683	4329	1442	29563047	29653313	1	None	PTPRO, hPTP-J, PCP-2, FMI, PTP
1	PTPRU	ENSG00000060656	ENST00000323874	protein_coding	KNOWN	None	9683	4329	1442	29563047	29653313	1	None	PTPRO, hPTP-J, PCP-2, FMI, PTP
HSCHR6_MHC_DBB	OR2AD1P	ENSG00000225048	ENST00000436125	unprocessed_pseudogene	KNOWN	None	14749	None	None	28994471	28995398	-1	None	OR2AD1, hs6M1-8P
7	None	ENSG00000244480	ENST00000419639	processed_pseudogene	KNOWN	None	None	None	None	30562759	30564151	-1	None	None
22	RFPL1	ENSG00000128250	ENST00000354373	protein_coding	KNOWN	CCDS13857	9977	954	317	29834572	29838444	1	None	RNF78
HSCHR6_MHC_DBB	OR2P1P	ENSG00000237608	ENST00000414137	unprocessed_pseudogene	KNOWN	None	8272	None	None	29039613	29040388	-1	None	hs6M1-26
17	RAD51C	ENSG00000108384	ENST00000461271	protein_coding	PUTATIVE	None	9820	407	134	56769934	56787272	1	None	RAD51L2, FANCO
17	RAD51C	ENSG00000108384	ENST00000583539	protein_coding	PUTATIVE	None	9820	1041	346	56769934	56810127	1	None	RAD51L2, FANCO
17	RAD51C	ENSG00000108384	ENST00000337432	protein_coding	KNOWN	CCDS11611	9820	1131	376	56769934	56811703	1	None	RAD51L2, FANCO
17	RAD51C	ENSG00000108384	ENST00000487921	processed_transcript	KNOWN	None	9820	None	None	56769937	56783274	1	None	RAD51L2, FANCO
17	RAD51C	ENSG00000108384	ENST00000476741	processed_transcript	PUTATIVE	None	9820	None	None	56769963	56771082	1	None	RAD51L2, FANCO
17	RAD51C	ENSG00000108384	ENST00000475762	nonsense_mediated_decay	KNOWN	None	9820	159	52	56769963	56811692	1	None	RAD51L2, FANCO
17	RAD51C	ENSG00000108384	ENST00000486827	nonsense_mediated_decay	KNOWN	None	9820	159	52	56769967	56772694	1	None	RAD51L2, FANCO
17	RAD51C	ENSG00000108384	ENST00000487525	nonsense_mediated_decay	KNOWN	None	9820	405	134	56769967	56811686	1	None	RAD51L2, FANCO
17	RAD51C	ENSG00000108384	ENST00000482007	nonsense_mediated_decay	KNOWN	None	9820	405	134	56769976	56811688	1	None	RAD51L2, FANCO
17	RAD51C	ENSG00000108384	ENST00000421782	protein_coding	PUTATIVE	CCDS45745	9820	408	135	56769989	56772695	1	None	RAD51L2, FANCO
17	RAD51C	ENSG00000108384	ENST00000584617	nonsense_mediated_decay	KNOWN	None	9820	143	46	56770024	56809880	1	None	RAD51L2, FANCO
17	RAD51C	ENSG00000108384	ENST00000425173	protein_coding	NOVEL	None	9820	639	212	56772351	56787237	1	None	RAD51L2, FANCO
17	RAD51C	ENSG00000108384	ENST00000413590	protein_coding	NOVEL	None	9820	772	256	56772509	56811590	1	None	RAD51L2, FANCO
17	RAD51C	ENSG00000108384	ENST00000581221	retained_intron	KNOWN	None	9820	None	None	56787000	56811688	1	None	RAD51L2, FANCO
17	RAD51C	ENSG00000108384	ENST00000578151	retained_intron	KNOWN	None	9820	None	None	56787180	56811703	1	None	RAD51L2, FANCO
17	RAD51C	ENSG00000108384	ENST00000584804	protein_coding	PUTATIVE	None	9820	324	107	56787220	56811692	1	None	RAD51L2, FANCO
17	RAD51C	ENSG00000108384	ENST00000461706	retained_intron	KNOWN	None	9820	None	None	56809693	56811692	1	None	RAD51L2, FANCO
20	CDH22	ENSG00000149654	ENST00000372262	protein_coding	KNOWN	CCDS13395	13251	2487	828	44802372	44880334	-1	C20orf25	dJ998H6.1
20	CDH22	ENSG00000149654	ENST00000474438	processed_transcript	KNOWN	None	13251	None	None	44838460	44849488	-1	C20orf25	dJ998H6.1
20	CDH22	ENSG00000149654	ENST00000537909	protein_coding	KNOWN	CCDS13395	13251	2487	828	44803026	44937137	-1	C20orf25	dJ998H6.1
HSCHR6_MHC_DBB	None	ENSG00000229179	ENST00000456449	processed_pseudogene	NOVEL	None	None	None	None	29044362	29044957	-1	None	None
12	SLCO1B1	ENSG00000134538	ENST00000256958	protein_coding	KNOWN	CCDS8685	10959	2076	691	21284136	21392180	1	SLC21A6	OATP-C, LST-1, OATP1B1
HSCHR6_MHC_DBB	OR2J1	ENSG00000226192	ENST00000428451	unprocessed_pseudogene	KNOWN	None	8259	None	None	29068739	29069677	1	OR2J1P	OR6-5, hs6M1-4, dJ80I19.2
11	FGF19	ENSG00000162344	ENST00000294312	protein_coding	KNOWN	CCDS8193	3675	651	216	69513000	69519410	-1	None	None
19	ZNF626	ENSG00000188171	ENST00000601440	protein_coding	KNOWN	CCDS42535	30461	1587	528	20802867	20844399	-1	None	None
19	ZNF626	ENSG00000188171	ENST00000595405	protein_coding	PUTATIVE	None	30461	405	134	20808050	20844343	-1	None	None
19	ZNF626	ENSG00000188171	ENST00000291750	protein_coding	KNOWN	CCDS32976	30461	279	92	20827508	20844402	-1	None	None
19	ZNF274	ENSG00000171606	ENST00000599438	processed_transcript	KNOWN	None	13068	None	None	58694396	58724928	1	None	ZKSCAN19, ZSCAN51
19	ZNF274	ENSG00000171606	ENST00000599081	retained_intron	KNOWN	None	13068	None	None	58694430	58721808	1	None	ZKSCAN19, ZSCAN51
19	ZNF274	ENSG00000171606	ENST00000600704	processed_transcript	KNOWN	None	13068	None	None	58694439	58698409	1	None	ZKSCAN19, ZSCAN51
19	ZNF274	ENSG00000171606	ENST00000601777	processed_transcript	KNOWN	None	13068	None	None	58694466	58718506	1	None	ZKSCAN19, ZSCAN51
19	ZNF274	ENSG00000171606	ENST00000601156	retained_intron	KNOWN	None	13068	None	None	58694476	58722075	1	None	ZKSCAN19, ZSCAN51
19	ZNF274	ENSG00000171606	ENST00000594248	retained_intron	KNOWN	None	13068	None	None	58694761	58697543	1	None	ZKSCAN19, ZSCAN51
19	ZNF274	ENSG00000171606	ENST00000598143	retained_intron	KNOWN	None	13068	None	None	58694767	58721758	1	None	ZKSCAN19, ZSCAN51
19	ZNF274	ENSG00000171606	ENST00000597818	processed_transcript	KNOWN	None	13068	None	None	58694821	58724918	1	None	ZKSCAN19, ZSCAN51
19	ZNF274	ENSG00000171606	ENST00000597528	protein_coding	KNOWN	None	13068	237	78	58694861	58698390	1	None	ZKSCAN19, ZSCAN51
19	ZNF274	ENSG00000171606	ENST00000594839	protein_coding	KNOWN	None	13068	402	133	58694863	58718232	1	None	ZKSCAN19, ZSCAN51
19	ZNF274	ENSG00000171606	ENST00000595772	processed_transcript	KNOWN	None	13068	None	None	58695288	58718455	1	None	ZKSCAN19, ZSCAN51
19	ZNF274	ENSG00000171606	ENST00000601995	processed_transcript	KNOWN	None	13068	None	None	58698314	58713835	1	None	ZKSCAN19, ZSCAN51
19	ZNF274	ENSG00000171606	ENST00000595146	retained_intron	KNOWN	None	13068	None	None	58719464	58724789	1	None	ZKSCAN19, ZSCAN51
19	ZNF274	ENSG00000171606	ENST00000326804	protein_coding	KNOWN	None	13068	1959	652	58694396	58724927	1	None	ZKSCAN19, ZSCAN51
19	ZNF274	ENSG00000171606	ENST00000345813	protein_coding	KNOWN	None	13068	1863	620	58694396	58724927	1	None	ZKSCAN19, ZSCAN51
19	ZNF274	ENSG00000171606	ENST00000424679	protein_coding	KNOWN	None	13068	1644	547	58694396	58724927	1	None	ZKSCAN19, ZSCAN51
2	RND3	ENSG00000115963	ENST00000375734	protein_coding	KNOWN	CCDS2190	671	735	244	151324709	151344181	-1	ARHE	RhoE, Rho8
2	RND3	ENSG00000115963	ENST00000263895	protein_coding	KNOWN	CCDS2190	671	735	244	151324709	151344208	-1	ARHE	RhoE, Rho8
2	RND3	ENSG00000115963	ENST00000409557	protein_coding	PUTATIVE	None	671	348	115	151324723	151341896	-1	ARHE	RhoE, Rho8
2	RND3	ENSG00000115963	ENST00000497865	retained_intron	KNOWN	None	671	None	None	151326291	151343380	-1	ARHE	RhoE, Rho8
2	RND3	ENSG00000115963	ENST00000473639	retained_intron	KNOWN	None	671	None	None	151326655	151328474	-1	ARHE	RhoE, Rho8
2	RND3	ENSG00000115963	ENST00000466334	retained_intron	KNOWN	None	671	None	None	151326733	151331618	-1	ARHE	RhoE, Rho8
2	RND3	ENSG00000115963	ENST00000472416	processed_transcript	KNOWN	None	671	None	None	151328152	151343614	-1	ARHE	RhoE, Rho8
2	RND3	ENSG00000115963	ENST00000454202	protein_coding	KNOWN	None	671	348	115	151331389	151344243	-1	ARHE	RhoE, Rho8
2	RND3	ENSG00000115963	ENST00000439275	protein_coding	KNOWN	None	671	348	115	151331389	151395525	-1	ARHE	RhoE, Rho8
20	MYT1	ENSG00000196132	ENST00000328439	protein_coding	KNOWN	CCDS13558	7622	3366	1121	62795827	62873604	1	PLPB1	MTF1, MYTI, ZC2HC4A
20	MYT1	ENSG00000196132	ENST00000536311	protein_coding	KNOWN	None	7622	3447	1148	62795827	62873604	1	PLPB1	MTF1, MYTI, ZC2HC4A
20	MYT1	ENSG00000196132	ENST00000360149	protein_coding	KNOWN	None	7622	1776	591	62783144	62859453	1	PLPB1	MTF1, MYTI, ZC2HC4A
HSCHR6_MHC_QBL	HSD17B8	ENSG00000112474	ENST00000230236	protein_coding	KNOWN	None	3554	786	261	33101245	33103438	1	FABGL	HKE6, D6S2245E, RING2, KE6, H2-KE6, SDR30C1
HSCHR6_MHC_QBL	HSD17B8	ENSG00000112474	ENST00000480183	processed_transcript	KNOWN	None	3554	None	None	33101289	33103056	1	FABGL	HKE6, D6S2245E, RING2, KE6, H2-KE6, SDR30C1
20	ESF1	ENSG00000089048	ENST00000202816	protein_coding	KNOWN	CCDS13117	15898	2556	851	13694969	13765532	-1	C20orf6	bA526K24.1
15	SLC30A4	ENSG00000104154	ENST00000261867	protein_coding	KNOWN	CCDS10125	11015	1290	429	45771809	45815005	-1	ZNT4	None
15	SLC30A4	ENSG00000104154	ENST00000559667	processed_transcript	PUTATIVE	None	11015	None	None	45795029	45814434	-1	ZNT4	None
12	MSI1	ENSG00000135097	ENST00000257552	protein_coding	KNOWN	CCDS9196	7330	1089	362	120779133	120806983	-1	None	None
12	MSI1	ENSG00000135097	ENST00000546985	protein_coding	NOVEL	None	7330	698	231	120784025	120805872	-1	None	None
12	MSI1	ENSG00000135097	ENST00000546622	processed_transcript	KNOWN	None	7330	None	None	120791126	120799311	-1	None	None
6	FLOT1	ENSG00000137312	ENST00000487376	retained_intron	KNOWN	None	3757	None	None	30695486	30708630	-1	None	None
6	FLOT1	ENSG00000137312	ENST00000376389	protein_coding	KNOWN	CCDS4688	3757	1284	427	30695486	30710510	-1	None	None
6	FLOT1	ENSG00000137312	ENST00000413165	protein_coding	KNOWN	None	3757	716	237	30698696	30710084	-1	None	None
6	FLOT1	ENSG00000137312	ENST00000476729	retained_intron	KNOWN	None	3757	None	None	30698768	30708571	-1	None	None
6	FLOT1	ENSG00000137312	ENST00000438162	protein_coding	KNOWN	None	3757	757	251	30698844	30710277	-1	None	None
6	FLOT1	ENSG00000137312	ENST00000470643	processed_transcript	KNOWN	None	3757	None	None	30707935	30710509	-1	None	None
6	FLOT1	ENSG00000137312	ENST00000418160	protein_coding	KNOWN	None	3757	435	144	30707938	30710134	-1	None	None
6	FLOT1	ENSG00000137312	ENST00000445853	protein_coding	KNOWN	None	3757	705	234	30707953	30710053	-1	None	None
6	FLOT1	ENSG00000137312	ENST00000484168	retained_intron	KNOWN	None	3757	None	None	30708031	30710483	-1	None	None
6	FLOT1	ENSG00000137312	ENST00000416018	protein_coding	KNOWN	None	3757	578	191	30708032	30709980	-1	None	None
6	FLOT1	ENSG00000137312	ENST00000454845	protein_coding	KNOWN	None	3757	557	184	30708286	30710301	-1	None	None
6	FLOT1	ENSG00000137312	ENST00000484693	retained_intron	KNOWN	None	3757	None	None	30709131	30710454	-1	None	None
6	FLOT1	ENSG00000137312	ENST00000456573	protein_coding	KNOWN	None	3757	1140	379	30695826	30710462	-1	None	None
7	None	ENSG00000264520	ENST00000583191	lincRNA	KNOWN	None	None	None	None	30565347	30573229	1	None	None
3	TLR9	ENSG00000239732	ENST00000360658	protein_coding	KNOWN	CCDS2848	15633	3099	1032	52255096	52260179	-1	None	CD289
3	TLR9	ENSG00000239732	ENST00000597542	protein_coding	KNOWN	None	15633	3171	1056	52255233	52273183	-1	None	CD289
17	CCL8	ENSG00000108700	ENST00000394620	protein_coding	KNOWN	CCDS11280	10635	300	99	32646055	32648421	1	SCYA8	MCP-2, HC14
16	None	ENSG00000259945	ENST00000563083	antisense	KNOWN	None	None	None	None	67576026	67576866	-1	None	None
16	None	ENSG00000260894	ENST00000564717	antisense	KNOWN	None	None	None	None	67576207	67576475	-1	None	None
2	PSME4	ENSG00000068878	ENST00000404125	protein_coding	KNOWN	CCDS33197	20635	5532	1843	54091204	54197977	-1	None	PA200, KIAA0077
2	PSME4	ENSG00000068878	ENST00000389993	nonsense_mediated_decay	KNOWN	None	20635	1716	571	54091571	54197977	-1	None	PA200, KIAA0077
2	PSME4	ENSG00000068878	ENST00000476586	processed_transcript	KNOWN	None	20635	None	None	54091998	54114453	-1	None	PA200, KIAA0077
2	PSME4	ENSG00000068878	ENST00000488687	retained_intron	KNOWN	None	20635	None	None	54092007	54098097	-1	None	PA200, KIAA0077
2	PSME4	ENSG00000068878	ENST00000466539	processed_transcript	KNOWN	None	20635	None	None	54093285	54108645	-1	None	PA200, KIAA0077
2	PSME4	ENSG00000068878	ENST00000478731	retained_intron	KNOWN	None	20635	None	None	54114554	54115457	-1	None	PA200, KIAA0077
2	PSME4	ENSG00000068878	ENST00000461810	retained_intron	KNOWN	None	20635	None	None	54135110	54135980	-1	None	PA200, KIAA0077
2	PSME4	ENSG00000068878	ENST00000475694	retained_intron	KNOWN	None	20635	None	None	54159193	54160306	-1	None	PA200, KIAA0077
2	PSME4	ENSG00000068878	ENST00000481518	processed_transcript	KNOWN	None	20635	None	None	54163232	54197915	-1	None	PA200, KIAA0077
2	PSME4	ENSG00000068878	ENST00000421748	protein_coding	KNOWN	None	20635	2964	987	54091204	54176406	-1	None	PA200, KIAA0077
16	None	ENSG00000261386	ENST00000605277	lincRNA	KNOWN	None	None	None	None	67583117	67597861	-1	None	None
16	None	ENSG00000261386	ENST00000565929	lincRNA	KNOWN	None	None	None	None	67583122	67583636	-1	None	None
11	UVRAG	ENSG00000198382	ENST00000356136	protein_coding	KNOWN	CCDS8241	12640	2100	699	75526212	75854239	1	None	VPS38
11	UVRAG	ENSG00000198382	ENST00000528420	protein_coding	PUTATIVE	None	12640	1797	598	75549989	75852838	1	None	VPS38
11	UVRAG	ENSG00000198382	ENST00000528264	protein_coding	PUTATIVE	None	12640	396	131	75589448	75672593	1	None	VPS38
11	UVRAG	ENSG00000198382	ENST00000525872	processed_transcript	PUTATIVE	None	12640	None	None	75623023	75627828	1	None	VPS38
11	UVRAG	ENSG00000198382	ENST00000533454	protein_coding	PUTATIVE	None	12640	984	327	75641904	75852544	1	None	VPS38
11	UVRAG	ENSG00000198382	ENST00000530501	retained_intron	KNOWN	None	12640	None	None	75672507	75694868	1	None	VPS38
11	UVRAG	ENSG00000198382	ENST00000531818	protein_coding	PUTATIVE	None	12640	984	327	75690570	75853695	1	None	VPS38
11	UVRAG	ENSG00000198382	ENST00000532130	protein_coding	PUTATIVE	None	12640	984	327	75691104	75852827	1	None	VPS38
11	UVRAG	ENSG00000198382	ENST00000525183	nonsense_mediated_decay	KNOWN	None	12640	273	90	75826944	75852704	1	None	VPS38
11	UVRAG	ENSG00000198382	ENST00000539288	protein_coding	KNOWN	None	12640	984	327	75694480	75852544	1	None	VPS38
11	UVRAG	ENSG00000198382	ENST00000538870	protein_coding	KNOWN	None	12640	768	255	75826957	75852704	1	None	VPS38
HSCHR6_MHC_SSTO	TUBB	ENSG00000232421	ENST00000432462	protein_coding	KNOWN	None	20778	1335	444	30679427	30684652	1	None	OK/SW-cl.56, MGC16435, M40, Tubb5
HSCHR6_MHC_SSTO	TUBB	ENSG00000232421	ENST00000427480	protein_coding	KNOWN	None	20778	1119	372	30680800	30684652	1	None	OK/SW-cl.56, MGC16435, M40, Tubb5
HSCHR6_MHC_SSTO	TUBB	ENSG00000232421	ENST00000424734	protein_coding	KNOWN	None	20778	1281	426	30680893	30684652	1	None	OK/SW-cl.56, MGC16435, M40, Tubb5
HSCHR6_MHC_SSTO	TUBB	ENSG00000232421	ENST00000420618	protein_coding	KNOWN	None	20778	1119	372	30680925	30684652	1	None	OK/SW-cl.56, MGC16435, M40, Tubb5
HSCHR6_MHC_SSTO	TUBB	ENSG00000232421	ENST00000549654	protein_coding	KNOWN	None	20778	1305	434	30679583	30683754	1	None	OK/SW-cl.56, MGC16435, M40, Tubb5
1	GSTM3	ENSG00000134202	ENST00000361066	protein_coding	KNOWN	CCDS812	4635	678	225	110279124	110283660	-1	None	GST5
1	GSTM3	ENSG00000134202	ENST00000486823	processed_transcript	KNOWN	None	4635	None	None	110279552	110282949	-1	None	GST5
1	GSTM3	ENSG00000134202	ENST00000476321	processed_transcript	KNOWN	None	4635	None	None	110279597	110280765	-1	None	GST5
1	GSTM3	ENSG00000134202	ENST00000488824	processed_transcript	KNOWN	None	4635	None	None	110279598	110282923	-1	None	GST5
1	GSTM3	ENSG00000134202	ENST00000540225	protein_coding	KNOWN	CCDS812	4635	678	225	110276554	110284384	-1	None	GST5
1	GSTM3	ENSG00000134202	ENST00000256594	protein_coding	KNOWN	CCDS812	4635	678	225	110276554	110283138	-1	None	GST5
7	None	ENSG00000226874	ENST00000438110	processed_pseudogene	KNOWN	None	None	None	None	30583669	30584047	1	None	None
17	TIAF1	ENSG00000221995	ENST00000359450	protein_coding	KNOWN	CCDS32599	11803	348	115	27400539	27405875	-1	None	None
17	TIAF1	ENSG00000221995	ENST00000408971	protein_coding	KNOWN	CCDS32599	11803	348	115	27400537	27418537	-1	None	None
18	C18orf56	ENSG00000176912	ENST00000585033	protein_coding	PUTATIVE	None	29553	372	123	641320	658269	-1	None	None
18	C18orf56	ENSG00000176912	ENST00000323813	protein_coding	PUTATIVE	None	29553	372	123	649620	658340	-1	None	None
HSCHR6_MHC_DBB	None	ENSG00000227448	ENST00000450464	processed_transcript	KNOWN	None	None	None	None	29091999	29096697	1	None	None
11	APIP	ENSG00000149089	ENST00000532428	nonsense_mediated_decay	KNOWN	None	17581	588	195	34874641	34912288	-1	None	CGI-29, Mmrp19, APIP2
11	APIP	ENSG00000149089	ENST00000395787	protein_coding	KNOWN	CCDS7895	17581	729	242	34903842	34938046	-1	None	CGI-29, Mmrp19, APIP2
11	APIP	ENSG00000149089	ENST00000527830	processed_transcript	KNOWN	None	17581	None	None	34903917	34937898	-1	None	CGI-29, Mmrp19, APIP2
11	APIP	ENSG00000149089	ENST00000278359	protein_coding	KNOWN	None	17581	780	259	34896736	34937883	-1	None	CGI-29, Mmrp19, APIP2
HSCHR6_MHC_DBB	OR2N1P	ENSG00000236771	ENST00000429971	unprocessed_pseudogene	KNOWN	None	8271	None	None	29105666	29106602	-1	None	OR6-7
10	CLRN3	ENSG00000180745	ENST00000368671	protein_coding	KNOWN	CCDS7656	20795	681	226	129676105	129691211	-1	TMEM12	MGC32871, USH3AL1
17	DLX3	ENSG00000064195	ENST00000434704	protein_coding	KNOWN	CCDS11556	2916	864	287	48067369	48072588	-1	None	None
17	DLX3	ENSG00000064195	ENST00000512495	protein_coding	PUTATIVE	None	2916	504	167	48068699	48071067	-1	None	None
HSCHR6_MHC_SSTO	MSH5	ENSG00000237333	ENST00000424681	protein_coding	PUTATIVE	None	7328	271	89	31697728	31699023	1	None	None
HSCHR6_MHC_SSTO	MSH5	ENSG00000237333	ENST00000480377	protein_coding	NOVEL	None	7328	271	89	31697754	31699023	1	None	None
HSCHR6_MHC_SSTO	MSH5	ENSG00000237333	ENST00000416964	protein_coding	NOVEL	None	7328	271	89	31697758	31699023	1	None	None
HSCHR6_MHC_SSTO	MSH5	ENSG00000237333	ENST00000432714	protein_coding	NOVEL	None	7328	271	89	31697758	31699023	1	None	None
HSCHR6_MHC_SSTO	MSH5	ENSG00000237333	ENST00000471718	protein_coding	NOVEL	None	7328	271	89	31697758	31699023	1	None	None
HSCHR6_MHC_SSTO	MSH5	ENSG00000237333	ENST00000483419	retained_intron	KNOWN	None	7328	None	None	31698983	31699023	1	None	None
HSCHR6_MHC_SSTO	MSH5	ENSG00000237333	ENST00000448169	protein_coding	PUTATIVE	None	7328	1527	508	31714324	31720408	1	None	None
HSCHR6_MHC_SSTO	MSH5	ENSG00000237333	ENST00000462922	nonsense_mediated_decay	KNOWN	None	7328	144	47	31715897	31716866	1	None	None
HSCHR6_MHC_SSTO	MSH5	ENSG00000237333	ENST00000422428	protein_coding	PUTATIVE	None	7328	475	157	31715897	31717223	1	None	None
HSCHR6_MHC_SSTO	MSH5	ENSG00000237333	ENST00000437726	protein_coding	PUTATIVE	None	7328	1491	496	31715897	31720408	1	None	None
HSCHR6_MHC_SSTO	MSH5	ENSG00000237333	ENST00000414514	protein_coding	PUTATIVE	None	7328	1491	496	31715897	31720408	1	None	None
HSCHR6_MHC_SSTO	MSH5	ENSG00000237333	ENST00000426512	protein_coding	PUTATIVE	None	7328	1494	497	31715897	31720408	1	None	None
HSCHR6_MHC_SSTO	MSH5	ENSG00000237333	ENST00000444225	protein_coding	KNOWN	None	7328	1404	467	31715897	31720408	1	None	None
HSCHR6_MHC_SSTO	MSH5	ENSG00000237333	ENST00000489823	retained_intron	KNOWN	None	7328	None	None	31715927	31717234	1	None	None
HSCHR6_MHC_SSTO	MSH5	ENSG00000237333	ENST00000492052	nonsense_mediated_decay	KNOWN	None	7328	150	49	31717649	31720408	1	None	None
HSCHR6_MHC_SSTO	MSH5	ENSG00000237333	ENST00000412630	protein_coding	KNOWN	None	7328	471	156	31718944	31720408	1	None	None
HSCHR6_MHC_SSTO	MSH5	ENSG00000237333	ENST00000464487	retained_intron	KNOWN	None	7328	None	None	31719655	31720408	1	None	None
9	None	ENSG00000235377	ENST00000445918	processed_pseudogene	KNOWN	None	None	None	None	84745667	84746547	1	None	None
16	None	ENSG00000259804	ENST00000562846	antisense	KNOWN	None	None	None	None	67595314	67596212	-1	None	None
2	None	ENSG00000222031	ENST00000409243	protein_coding	PUTATIVE	None	None	276	91	151857734	151905288	-1	None	None
4	None	ENSG00000227304	ENST00000488045	processed_transcript	KNOWN	None	None	None	None	83415939	83417431	-1	None	None
4	None	ENSG00000227304	ENST00000471756	transcribed_processed_pseudogene	KNOWN	None	None	None	None	83415990	83417046	-1	None	None
16	None	ENSG00000237718	ENST00000388909	antisense	KNOWN	None	None	None	None	67648284	67649245	-1	None	None
1	LAMC2	ENSG00000058085	ENST00000493293	protein_coding	KNOWN	CCDS44285	6493	3336	1111	183155373	183210396	1	EBR2, LAMB2T, LAMNB2, EBR2A	nicein-100kDa, kalinin-105kDa, BM600-100kDa
1	LAMC2	ENSG00000058085	ENST00000264144	protein_coding	KNOWN	CCDS1352	6493	3582	1193	183155423	183214035	1	EBR2, LAMB2T, LAMNB2, EBR2A	nicein-100kDa, kalinin-105kDa, BM600-100kDa
1	LAMC2	ENSG00000058085	ENST00000461729	processed_transcript	KNOWN	None	6493	None	None	183208636	183209514	1	EBR2, LAMB2T, LAMNB2, EBR2A	nicein-100kDa, kalinin-105kDa, BM600-100kDa
1	LAMC2	ENSG00000058085	ENST00000476255	processed_transcript	KNOWN	None	6493	None	None	183212569	183213041	1	EBR2, LAMB2T, LAMNB2, EBR2A	nicein-100kDa, kalinin-105kDa, BM600-100kDa
16	None	ENSG00000270165	ENST00000602844	sense_intronic	KNOWN	None	None	None	None	67772491	67773825	-1	None	None
4	None	ENSG00000249960	ENST00000512025	processed_pseudogene	KNOWN	None	None	None	None	83492290	83492967	1	None	None
7	None	ENSG00000228829	ENST00000449614	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	75803051	75804891	1	None	None
7	None	ENSG00000228829	ENST00000437494	processed_transcript	KNOWN	None	None	None	None	75803627	75806523	1	None	None
4	None	ENSG00000248113	ENST00000506227	processed_pseudogene	KNOWN	None	None	None	None	83501270	83502537	-1	None	None
2	RBM43	ENSG00000184898	ENST00000331426	protein_coding	KNOWN	CCDS2191	24790	1074	357	152104454	152118393	-1	C2orf38	FLJ45645
2	RBM43	ENSG00000184898	ENST00000409092	protein_coding	PUTATIVE	None	24790	207	68	152117499	152118292	-1	C2orf38	FLJ45645
11	C11orf87	ENSG00000185742	ENST00000327419	protein_coding	KNOWN	CCDS31672	33788	594	197	109292846	109299840	1	None	LOH11CR1A, LOC399947
9	None	ENSG00000228430	ENST00000585998	lincRNA	KNOWN	None	None	None	None	84887671	84892042	1	None	None
9	None	ENSG00000228430	ENST00000457558	lincRNA	KNOWN	None	None	None	None	84888322	85043202	1	None	None
9	None	ENSG00000228430	ENST00000590667	lincRNA	KNOWN	None	None	None	None	84888374	85066638	1	None	None
9	None	ENSG00000228430	ENST00000586214	lincRNA	KNOWN	None	None	None	None	84888374	85068358	1	None	None
9	None	ENSG00000228430	ENST00000590250	lincRNA	KNOWN	None	None	None	None	84888374	85068644	1	None	None
9	None	ENSG00000228430	ENST00000590903	lincRNA	KNOWN	None	None	None	None	84888374	85068718	1	None	None
9	None	ENSG00000228430	ENST00000588492	lincRNA	KNOWN	None	None	None	None	84888374	85068718	1	None	None
9	None	ENSG00000228430	ENST00000585454	lincRNA	KNOWN	None	None	None	None	84888374	85068718	1	None	None
9	None	ENSG00000228430	ENST00000591117	lincRNA	KNOWN	None	None	None	None	84888374	85068914	1	None	None
9	None	ENSG00000228430	ENST00000591257	lincRNA	KNOWN	None	None	None	None	84888374	85151147	1	None	None
9	None	ENSG00000228430	ENST00000590298	lincRNA	KNOWN	None	None	None	None	84888374	85179056	1	None	None
9	None	ENSG00000228430	ENST00000588368	lincRNA	KNOWN	None	None	None	None	84888375	85064700	1	None	None
9	None	ENSG00000228430	ENST00000585511	lincRNA	KNOWN	None	None	None	None	84891964	85043395	1	None	None
9	None	ENSG00000228430	ENST00000586399	lincRNA	KNOWN	None	None	None	None	84891964	85135855	1	None	None
9	None	ENSG00000228430	ENST00000590791	lincRNA	KNOWN	None	None	None	None	84891964	85139570	1	None	None
9	None	ENSG00000228430	ENST00000589973	lincRNA	KNOWN	None	None	None	None	85106867	85179347	1	None	None
7	RN7SL212P	ENSG00000263569	ENST00000583729	misc_RNA	KNOWN	None	46228	None	None	75918108	75918371	1	None	None
4	LINC00575	ENSG00000231782	ENST00000426551	lincRNA	KNOWN	None	21342	None	None	83534266	83542590	-1	C4orf11	None
4	LINC00575	ENSG00000231782	ENST00000515811	lincRNA	KNOWN	None	21342	None	None	83534266	83542590	-1	C4orf11	None
X	RAI2	ENSG00000131831	ENST00000415486	protein_coding	KNOWN	CCDS55374	9835	1443	480	17818169	17879418	-1	None	None
X	RAI2	ENSG00000131831	ENST00000360011	protein_coding	KNOWN	CCDS14183	9835	1593	530	17818171	17878827	-1	None	None
X	RAI2	ENSG00000131831	ENST00000331511	protein_coding	KNOWN	CCDS14183	9835	1593	530	17818171	17879356	-1	None	None
X	RAI2	ENSG00000131831	ENST00000545871	protein_coding	KNOWN	CCDS14183	9835	1593	530	17818171	17879457	-1	None	None
X	RAI2	ENSG00000131831	ENST00000451717	protein_coding	KNOWN	CCDS14183	9835	1593	530	17818171	17879457	-1	None	None
18	TYMS	ENSG00000176890	ENST00000323274	protein_coding	KNOWN	CCDS11821	12441	942	313	657604	673578	1	TS	Tsase, TMS, HsT422
18	TYMS	ENSG00000176890	ENST00000579128	retained_intron	KNOWN	None	12441	None	None	657665	669464	1	TS	Tsase, TMS, HsT422
18	TYMS	ENSG00000176890	ENST00000323250	protein_coding	NOVEL	None	12441	693	230	657743	672997	1	TS	Tsase, TMS, HsT422
18	TYMS	ENSG00000176890	ENST00000323224	protein_coding	NOVEL	None	12441	840	279	657743	673484	1	TS	Tsase, TMS, HsT422
18	TYMS	ENSG00000176890	ENST00000584122	processed_transcript	KNOWN	None	12441	None	None	658264	659689	1	TS	Tsase, TMS, HsT422
18	TYMS	ENSG00000176890	ENST00000581920	processed_transcript	KNOWN	None	12441	None	None	667721	673363	1	TS	Tsase, TMS, HsT422
7	None	ENSG00000213548	ENST00000395416	processed_pseudogene	KNOWN	None	None	None	None	75991085	75991430	1	None	None
11	ZDHHC24	ENSG00000174165	ENST00000534073	nonsense_mediated_decay	KNOWN	None	27387	609	202	66288108	66313507	-1	None	None
11	ZDHHC24	ENSG00000174165	ENST00000526986	protein_coding	PUTATIVE	None	27387	786	261	66288553	66313706	-1	None	None
11	ZDHHC24	ENSG00000174165	ENST00000310442	protein_coding	KNOWN	CCDS8143	27387	855	284	66306149	66313709	-1	None	None
11	ZDHHC24	ENSG00000174165	ENST00000525925	processed_transcript	PUTATIVE	None	27387	None	None	66309955	66313477	-1	None	None
22	NEFH	ENSG00000100285	ENST00000310624	protein_coding	KNOWN	CCDS13858	7737	3063	1020	29876219	29887379	1	None	None
4	None	ENSG00000270480	ENST00000603927	processed_pseudogene	KNOWN	None	None	None	None	83612890	83613621	1	None	None
7	FDPSP2	ENSG00000233980	ENST00000453932	processed_pseudogene	KNOWN	None	3633	None	None	76099479	76100375	-1	FPSL2, FDPSL2, FDPSL2A	TCAG_1641456
4	MIR575	ENSG00000207746	ENST00000385013	miRNA	KNOWN	None	32831	None	None	83674490	83674583	-1	MIRN575	hsa-mir-575
7	None	ENSG00000250614	ENST00000479299	antisense	KNOWN	None	None	None	None	76103904	76108173	-1	None	None
4	None	ENSG00000270842	ENST00000604332	processed_pseudogene	KNOWN	None	None	None	None	83696614	83697254	1	None	None
15	BLOC1S6	ENSG00000104164	ENST00000220531	protein_coding	KNOWN	CCDS10126	8549	519	172	45879321	45901909	1	PA, PLDN	HPS9
15	BLOC1S6	ENSG00000104164	ENST00000567740	processed_transcript	PUTATIVE	None	8549	None	None	45879412	45899244	1	PA, PLDN	HPS9
15	BLOC1S6	ENSG00000104164	ENST00000567461	protein_coding	PUTATIVE	None	8549	228	75	45879434	45899179	1	PA, PLDN	HPS9
15	BLOC1S6	ENSG00000104164	ENST00000562384	protein_coding	PUTATIVE	None	8549	228	75	45879550	45898725	1	PA, PLDN	HPS9
15	BLOC1S6	ENSG00000104164	ENST00000568963	nonsense_mediated_decay	KNOWN	None	8549	132	43	45879550	45898727	1	PA, PLDN	HPS9
15	BLOC1S6	ENSG00000104164	ENST00000569076	protein_coding	PUTATIVE	None	8549	341	112	45879551	45898684	1	PA, PLDN	HPS9
15	BLOC1S6	ENSG00000104164	ENST00000566753	protein_coding	PUTATIVE	None	8549	258	85	45879553	45891760	1	PA, PLDN	HPS9
15	BLOC1S6	ENSG00000104164	ENST00000568597	nonsense_mediated_decay	KNOWN	None	8549	261	86	45879574	45898805	1	PA, PLDN	HPS9
15	BLOC1S6	ENSG00000104164	ENST00000566184	retained_intron	KNOWN	None	8549	None	None	45879577	45897971	1	PA, PLDN	HPS9
15	BLOC1S6	ENSG00000104164	ENST00000567523	nonsense_mediated_decay	KNOWN	None	8549	243	80	45879577	45899971	1	PA, PLDN	HPS9
15	BLOC1S6	ENSG00000104164	ENST00000565216	protein_coding	NOVEL	None	8549	396	131	45879622	45898869	1	PA, PLDN	HPS9
15	BLOC1S6	ENSG00000104164	ENST00000563000	processed_transcript	PUTATIVE	None	8549	None	None	45879758	45898890	1	PA, PLDN	HPS9
15	BLOC1S6	ENSG00000104164	ENST00000566801	protein_coding	PUTATIVE	None	8549	64	20	45879788	45897668	1	PA, PLDN	HPS9
15	BLOC1S6	ENSG00000104164	ENST00000568816	protein_coding	PUTATIVE	None	8549	228	75	45879789	45901908	1	PA, PLDN	HPS9
15	BLOC1S6	ENSG00000104164	ENST00000565323	protein_coding	PUTATIVE	None	8549	534	177	45879815	45898783	1	PA, PLDN	HPS9
15	BLOC1S6	ENSG00000104164	ENST00000563160	processed_transcript	KNOWN	None	8549	None	None	45879944	45898893	1	PA, PLDN	HPS9
15	BLOC1S6	ENSG00000104164	ENST00000565727	processed_transcript	PUTATIVE	None	8549	None	None	45879970	45898999	1	PA, PLDN	HPS9
15	BLOC1S6	ENSG00000104164	ENST00000565409	protein_coding	PUTATIVE	None	8549	228	75	45879983	45898799	1	PA, PLDN	HPS9
15	BLOC1S6	ENSG00000104164	ENST00000564765	protein_coding	NOVEL	None	8549	141	46	45880023	45899016	1	PA, PLDN	HPS9
15	BLOC1S6	ENSG00000104164	ENST00000564310	nonsense_mediated_decay	KNOWN	None	8549	172	56	45884322	45908197	1	PA, PLDN	HPS9
7	None	ENSG00000250778	ENST00000513375	unprocessed_pseudogene	KNOWN	None	None	None	None	76150928	76151391	1	None	None
12	DPY19L2	ENSG00000177990	ENST00000324472	protein_coding	KNOWN	CCDS31851	19414	2277	758	63952693	64062357	-1	None	FLJ32949, SPATA34
12	DPY19L2	ENSG00000177990	ENST00000541911	retained_intron	KNOWN	None	19414	None	None	63953839	63963249	-1	None	FLJ32949, SPATA34
12	DPY19L2	ENSG00000177990	ENST00000413230	protein_coding	PUTATIVE	None	19414	618	205	63953976	63977942	-1	None	FLJ32949, SPATA34
12	DPY19L2	ENSG00000177990	ENST00000439061	nonsense_mediated_decay	KNOWN	None	19414	449	148	63954131	64002454	-1	None	FLJ32949, SPATA34
12	DPY19L2	ENSG00000177990	ENST00000306389	nonsense_mediated_decay	KNOWN	None	19414	429	142	63987867	64062322	-1	None	FLJ32949, SPATA34
12	DPY19L2	ENSG00000177990	ENST00000541083	protein_coding	PUTATIVE	None	19414	374	123	63991674	64014002	-1	None	FLJ32949, SPATA34
12	DPY19L2	ENSG00000177990	ENST00000536494	retained_intron	KNOWN	None	19414	None	None	64054675	64062719	-1	None	FLJ32949, SPATA34
12	DPY19L2	ENSG00000177990	ENST00000538147	protein_coding	PUTATIVE	None	19414	142	46	64055141	64062315	-1	None	FLJ32949, SPATA34
12	DPY19L2	ENSG00000177990	ENST00000542209	protein_coding	KNOWN	None	19414	272	89	64061902	64062629	-1	None	FLJ32949, SPATA34
16	SMIM22	ENSG00000267795	ENST00000589721	protein_coding	PUTATIVE	CCDS59258	48329	252	83	4838398	4846282	1	None	None
16	SMIM22	ENSG00000267795	ENST00000591004	retained_intron	KNOWN	None	48329	None	None	4838414	4845337	1	None	None
16	SMIM22	ENSG00000267795	ENST00000589327	protein_coding	PUTATIVE	CCDS59259	48329	267	88	4838457	4846282	1	None	None
16	SMIM22	ENSG00000267795	ENST00000588606	protein_coding	PUTATIVE	CCDS59258	48329	252	83	4845379	4846282	1	None	None
16	SMIM22	ENSG00000267795	ENST00000586005	protein_coding	PUTATIVE	CCDS59259	48329	267	88	4845422	4846282	1	None	None
16	SMIM22	ENSG00000267795	ENST00000591870	protein_coding	PUTATIVE	CCDS59258	48329	252	83	4845681	4846280	1	None	None
16	SMIM22	ENSG00000267795	ENST00000588894	retained_intron	KNOWN	None	48329	None	None	4845704	4846312	1	None	None
16	SMIM22	ENSG00000267795	ENST00000588500	protein_coding	PUTATIVE	None	48329	408	135	4845704	4846317	1	None	None
16	SMIM22	ENSG00000267795	ENST00000586440	protein_coding	PUTATIVE	CCDS59259	48329	267	88	4845714	4846492	1	None	None
8	TOX	ENSG00000198846	ENST00000361421	protein_coding	KNOWN	CCDS34897	18988	1581	526	59717977	60031767	-1	None	KIAA0808, TOX1
7	None	ENSG00000238560	ENST00000362637	misc_RNA	NOVEL	None	None	None	None	76152922	76153023	1	None	None
22	None	ENSG00000223704	ENST00000434868	lincRNA	KNOWN	None	None	None	None	27254597	27261749	1	None	None
7	None	ENSG00000230305	ENST00000447046	unprocessed_pseudogene	KNOWN	None	None	None	None	76153832	76162009	1	None	None
12	C12orf44	ENSG00000123395	ENST00000547409	processed_transcript	PUTATIVE	None	25679	None	None	52463030	52464199	1	None	FLJ11773, ATG101
12	C12orf44	ENSG00000123395	ENST00000336854	protein_coding	KNOWN	CCDS8820	25679	657	218	52463755	52471278	1	None	FLJ11773, ATG101
12	C12orf44	ENSG00000123395	ENST00000552544	retained_intron	KNOWN	None	25679	None	None	52463760	52467687	1	None	FLJ11773, ATG101
12	C12orf44	ENSG00000123395	ENST00000550604	protein_coding	KNOWN	None	25679	253	83	52463771	52467687	1	None	FLJ11773, ATG101
12	C12orf44	ENSG00000123395	ENST00000553049	protein_coding	KNOWN	None	25679	571	189	52463787	52470888	1	None	FLJ11773, ATG101
12	C12orf44	ENSG00000123395	ENST00000552947	retained_intron	KNOWN	None	25679	None	None	52463796	52465218	1	None	FLJ11773, ATG101
12	C12orf44	ENSG00000123395	ENST00000548915	protein_coding	KNOWN	None	25679	423	140	52463804	52470740	1	None	FLJ11773, ATG101
11	MRGPRX3	ENSG00000179826	ENST00000396275	protein_coding	KNOWN	CCDS7830	17980	969	322	18142502	18160027	1	None	MRGX3
11	MRGPRX3	ENSG00000179826	ENST00000531264	protein_coding	KNOWN	None	17980	738	245	18154059	18159487	1	None	MRGX3
22	None	ENSG00000231369	ENST00000422915	processed_pseudogene	KNOWN	None	None	None	None	27282872	27283511	-1	None	None
11	ZC3H12C	ENSG00000149289	ENST00000278590	protein_coding	KNOWN	CCDS44727	29362	2652	883	109964087	110042566	1	None	KIAA1726, MCPIP3
11	ZC3H12C	ENSG00000149289	ENST00000528673	protein_coding	PUTATIVE	None	29362	2655	884	110001729	110036659	1	None	KIAA1726, MCPIP3
11	ZC3H12C	ENSG00000149289	ENST00000453089	protein_coding	PUTATIVE	None	29362	2559	852	110006579	110042564	1	None	KIAA1726, MCPIP3
19	NR2F6	ENSG00000160113	ENST00000291442	protein_coding	KNOWN	CCDS12352	7977	1215	404	17342692	17356749	-1	ERBAL2	EAR-2
19	NR2F6	ENSG00000160113	ENST00000596878	protein_coding	PUTATIVE	None	7977	377	124	17346511	17355313	-1	ERBAL2	EAR-2
16	None	ENSG00000262141	ENST00000573092	processed_pseudogene	KNOWN	None	None	None	None	67889858	67890014	-1	None	None
22	None	ENSG00000235271	ENST00000447149	lincRNA	KNOWN	None	None	None	None	27299255	27304076	1	None	None
22	None	ENSG00000235271	ENST00000438113	lincRNA	KNOWN	None	None	None	None	27299303	27316574	1	None	None
7	None	ENSG00000185040	ENST00000515340	unprocessed_pseudogene	KNOWN	None	None	None	None	76163020	76169707	-1	None	None
7	None	ENSG00000185040	ENST00000338590	unprocessed_pseudogene	KNOWN	None	None	None	None	76163011	76170884	-1	None	None
19	SLC39A3	ENSG00000141873	ENST00000545664	protein_coding	NOVEL	None	17128	972	323	2732202	2740015	-1	None	ZIP3
19	SLC39A3	ENSG00000141873	ENST00000269740	protein_coding	KNOWN	CCDS12093	17128	945	314	2732522	2740150	-1	None	ZIP3
19	SLC39A3	ENSG00000141873	ENST00000589363	protein_coding	KNOWN	None	17128	408	135	2733286	2740015	-1	None	ZIP3
19	SLC39A3	ENSG00000141873	ENST00000589166	protein_coding	KNOWN	None	17128	323	106	2733371	2739473	-1	None	ZIP3
19	SLC39A3	ENSG00000141873	ENST00000455372	protein_coding	KNOWN	CCDS45909	17128	318	105	2734522	2740026	-1	None	ZIP3
19	SLC39A3	ENSG00000141873	ENST00000590875	processed_transcript	KNOWN	None	17128	None	None	2737276	2740015	-1	None	ZIP3
2	NMI	ENSG00000123609	ENST00000243346	protein_coding	KNOWN	CCDS2192	7854	924	307	152126979	152146571	-1	None	None
2	NMI	ENSG00000123609	ENST00000491771	retained_intron	KNOWN	None	7854	None	None	152133769	152146377	-1	None	None
2	NMI	ENSG00000123609	ENST00000414946	protein_coding	KNOWN	None	7854	86	27	152138553	152146408	-1	None	None
2	NMI	ENSG00000123609	ENST00000477072	retained_intron	KNOWN	None	7854	None	None	152139285	152146377	-1	None	None
22	RNU6-1066P	ENSG00000200443	ENST00000363573	snRNA	KNOWN	None	48029	None	None	27431850	27431954	1	None	None
9	TRPM6	ENSG00000119121	ENST00000360774	protein_coding	KNOWN	CCDS6647	17995	6069	2022	77337411	77503010	-1	HOMG, HSH	CHAK2, FLJ22628
9	TRPM6	ENSG00000119121	ENST00000483186	processed_transcript	KNOWN	None	17995	None	None	77435148	77448973	-1	HOMG, HSH	CHAK2, FLJ22628
9	TRPM6	ENSG00000119121	ENST00000359047	protein_coding	KNOWN	None	17995	912	303	77441673	77503010	-1	HOMG, HSH	CHAK2, FLJ22628
9	TRPM6	ENSG00000119121	ENST00000451710	protein_coding	KNOWN	None	17995	6081	2026	77337411	77503010	-1	HOMG, HSH	CHAK2, FLJ22628
9	TRPM6	ENSG00000119121	ENST00000376872	protein_coding	KNOWN	None	17995	2934	977	77337411	77503010	-1	HOMG, HSH	CHAK2, FLJ22628
9	TRPM6	ENSG00000119121	ENST00000376871	protein_coding	KNOWN	None	17995	2580	859	77337411	77503010	-1	HOMG, HSH	CHAK2, FLJ22628
9	TRPM6	ENSG00000119121	ENST00000449912	protein_coding	KNOWN	CCDS55319	17995	6054	2017	77337411	77502636	-1	HOMG, HSH	CHAK2, FLJ22628
9	TRPM6	ENSG00000119121	ENST00000361255	protein_coding	KNOWN	CCDS55318	17995	6054	2017	77337411	77502263	-1	HOMG, HSH	CHAK2, FLJ22628
9	TRPM6	ENSG00000119121	ENST00000376864	protein_coding	KNOWN	None	17995	5844	1947	77352311	77503010	-1	HOMG, HSH	CHAK2, FLJ22628
4	THAP9-AS1	ENSG00000251022	ENST00000504520	antisense	KNOWN	None	44172	None	None	83814162	83822113	-1	None	None
4	THAP9-AS1	ENSG00000251022	ENST00000504792	antisense	KNOWN	None	44172	None	None	83814698	83821661	-1	None	None
4	THAP9-AS1	ENSG00000251022	ENST00000512932	antisense	KNOWN	None	44172	None	None	83815403	83821712	-1	None	None
4	THAP9-AS1	ENSG00000251022	ENST00000511271	antisense	KNOWN	None	44172	None	None	83815948	83821719	-1	None	None
4	THAP9-AS1	ENSG00000251022	ENST00000508772	antisense	KNOWN	None	44172	None	None	83816844	83821722	-1	None	None
4	THAP9-AS1	ENSG00000251022	ENST00000513581	antisense	KNOWN	None	44172	None	None	83818916	83821722	-1	None	None
4	THAP9-AS1	ENSG00000251022	ENST00000504718	antisense	KNOWN	None	44172	None	None	83818946	83821655	-1	None	None
4	THAP9-AS1	ENSG00000251022	ENST00000505028	antisense	KNOWN	None	44172	None	None	83819009	83821722	-1	None	None
4	THAP9-AS1	ENSG00000251022	ENST00000507660	antisense	KNOWN	None	44172	None	None	83819076	83821724	-1	None	None
4	THAP9-AS1	ENSG00000251022	ENST00000509007	antisense	KNOWN	None	44172	None	None	83820698	83821712	-1	None	None
4	THAP9-AS1	ENSG00000251022	ENST00000504869	antisense	KNOWN	None	44172	None	None	83820846	83821719	-1	None	None
4	THAP9-AS1	ENSG00000251022	ENST00000503704	antisense	KNOWN	None	44172	None	None	83820976	83821722	-1	None	None
X	None	ENSG00000248906	ENST00000509491	protein_coding	NOVEL	None	None	245	80	17819784	17855850	-1	None	None
19	None	ENSG00000269589	ENST00000599183	antisense	KNOWN	None	None	None	None	15509507	15511167	1	None	None
19	MIR1470	ENSG00000269782	ENST00000600745	lincRNA	KNOWN	None	35379	None	None	15560359	15560419	1	MIRN1470	hsa-mir-1470
20	SLC35C2	ENSG00000080189	ENST00000493599	processed_transcript	KNOWN	None	17117	None	None	44978167	44981836	-1	C20orf5, OVCOV1	CGI-15, bA394O2.1
20	SLC35C2	ENSG00000080189	ENST00000372227	protein_coding	KNOWN	CCDS13396	17117	1098	365	44978167	44991813	-1	C20orf5, OVCOV1	CGI-15, bA394O2.1
20	SLC35C2	ENSG00000080189	ENST00000372229	protein_coding	KNOWN	None	17117	699	232	44978167	44993026	-1	C20orf5, OVCOV1	CGI-15, bA394O2.1
20	SLC35C2	ENSG00000080189	ENST00000372230	protein_coding	KNOWN	CCDS13396	17117	1098	365	44978167	44993034	-1	C20orf5, OVCOV1	CGI-15, bA394O2.1
20	SLC35C2	ENSG00000080189	ENST00000243896	protein_coding	KNOWN	CCDS13396	17117	1098	365	44978167	44993040	-1	C20orf5, OVCOV1	CGI-15, bA394O2.1
20	SLC35C2	ENSG00000080189	ENST00000317734	protein_coding	KNOWN	CCDS13397	17117	1035	344	44978167	44993043	-1	C20orf5, OVCOV1	CGI-15, bA394O2.1
20	SLC35C2	ENSG00000080189	ENST00000480329	processed_transcript	KNOWN	None	17117	None	None	44978994	44983834	-1	C20orf5, OVCOV1	CGI-15, bA394O2.1
20	SLC35C2	ENSG00000080189	ENST00000487729	processed_transcript	KNOWN	None	17117	None	None	44979410	44986340	-1	C20orf5, OVCOV1	CGI-15, bA394O2.1
20	SLC35C2	ENSG00000080189	ENST00000484318	processed_transcript	KNOWN	None	17117	None	None	44980762	44993029	-1	C20orf5, OVCOV1	CGI-15, bA394O2.1
20	SLC35C2	ENSG00000080189	ENST00000481809	processed_transcript	KNOWN	None	17117	None	None	44980789	44993020	-1	C20orf5, OVCOV1	CGI-15, bA394O2.1
20	SLC35C2	ENSG00000080189	ENST00000420518	protein_coding	KNOWN	None	17117	588	195	44980803	44987145	-1	C20orf5, OVCOV1	CGI-15, bA394O2.1
20	SLC35C2	ENSG00000080189	ENST00000424568	protein_coding	KNOWN	None	17117	473	156	44983743	44987403	-1	C20orf5, OVCOV1	CGI-15, bA394O2.1
20	SLC35C2	ENSG00000080189	ENST00000484188	processed_transcript	KNOWN	None	17117	None	None	44987066	44993000	-1	C20orf5, OVCOV1	CGI-15, bA394O2.1
20	SLC35C2	ENSG00000080189	ENST00000543605	protein_coding	KNOWN	None	17117	1185	394	44978832	44993039	-1	C20orf5, OVCOV1	CGI-15, bA394O2.1
8	SLC26A7	ENSG00000147606	ENST00000522181	nonsense_mediated_decay	KNOWN	None	14467	810	269	92221722	92407877	1	None	SUT2
8	SLC26A7	ENSG00000147606	ENST00000522862	protein_coding	KNOWN	None	14467	621	206	92221723	92330587	1	None	SUT2
8	SLC26A7	ENSG00000147606	ENST00000523719	protein_coding	KNOWN	CCDS6254	14467	1971	656	92221728	92407984	1	None	SUT2
8	SLC26A7	ENSG00000147606	ENST00000276609	protein_coding	KNOWN	CCDS6254	14467	1971	656	92261516	92410378	1	None	SUT2
8	SLC26A7	ENSG00000147606	ENST00000309536	protein_coding	KNOWN	CCDS6255	14467	1992	663	92261535	92406946	1	None	SUT2
8	SLC26A7	ENSG00000147606	ENST00000520818	protein_coding	PUTATIVE	None	14467	713	236	92307852	92352886	1	None	SUT2
8	SLC26A7	ENSG00000147606	ENST00000520249	processed_transcript	KNOWN	None	14467	None	None	92355258	92410366	1	None	SUT2
8	SLC26A7	ENSG00000147606	ENST00000517930	processed_transcript	KNOWN	None	14467	None	None	92369476	92406064	1	None	SUT2
22	None	ENSG00000236858	ENST00000453934	lincRNA	KNOWN	None	None	None	None	27444106	27456480	-1	None	None
19	None	ENSG00000269765	ENST00000600023	unprocessed_pseudogene	KNOWN	None	None	None	None	15626154	15627646	-1	None	None
7	None	ENSG00000205485	ENST00000418663	processed_transcript	KNOWN	None	None	None	None	76178677	76257299	1	None	None
7	None	ENSG00000205485	ENST00000450661	processed_transcript	KNOWN	None	None	None	None	76178678	76255595	1	None	None
7	None	ENSG00000205485	ENST00000423084	processed_transcript	KNOWN	None	None	None	None	76178728	76250705	1	None	None
7	None	ENSG00000205485	ENST00000429707	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	76178935	76180837	1	None	None
7	GALNT11	ENSG00000178234	ENST00000482812	processed_transcript	PUTATIVE	None	19875	None	None	151722759	151800362	1	None	FLJ21634
7	GALNT11	ENSG00000178234	ENST00000430044	protein_coding	KNOWN	CCDS5930	19875	1827	608	151722778	151819425	1	None	FLJ21634
7	GALNT11	ENSG00000178234	ENST00000431668	protein_coding	KNOWN	None	19875	295	97	151722799	151791607	1	None	FLJ21634
7	GALNT11	ENSG00000178234	ENST00000446096	protein_coding	NOVEL	None	19875	340	112	151722827	151800241	1	None	FLJ21634
7	GALNT11	ENSG00000178234	ENST00000447778	nonsense_mediated_decay	KNOWN	None	19875	402	133	151722861	151810458	1	None	FLJ21634
7	GALNT11	ENSG00000178234	ENST00000423337	protein_coding	NOVEL	None	19875	455	150	151722883	151800259	1	None	FLJ21634
7	GALNT11	ENSG00000178234	ENST00000434507	protein_coding	KNOWN	CCDS5930	19875	1827	608	151771383	151819245	1	None	FLJ21634
7	GALNT11	ENSG00000178234	ENST00000415421	protein_coding	KNOWN	None	19875	609	202	151772071	151801977	1	None	FLJ21634
7	GALNT11	ENSG00000178234	ENST00000419245	protein_coding	KNOWN	None	19875	560	185	151791051	151800337	1	None	FLJ21634
7	GALNT11	ENSG00000178234	ENST00000447796	protein_coding	KNOWN	None	19875	480	159	151791076	151800257	1	None	FLJ21634
7	GALNT11	ENSG00000178234	ENST00000491061	retained_intron	KNOWN	None	19875	None	None	151804335	151816795	1	None	FLJ21634
7	GALNT11	ENSG00000178234	ENST00000431940	nonsense_mediated_decay	KNOWN	None	19875	196	64	151810330	151815854	1	None	FLJ21634
7	GALNT11	ENSG00000178234	ENST00000452146	protein_coding	KNOWN	None	19875	1584	527	151722836	151818832	1	None	FLJ21634
7	GALNT11	ENSG00000178234	ENST00000320311	protein_coding	KNOWN	CCDS5930	19875	1827	608	151776360	151819245	1	None	FLJ21634
7	GALNT11	ENSG00000178234	ENST00000422997	protein_coding	KNOWN	None	19875	402	133	151791101	151805376	1	None	FLJ21634
10	PGGT1BP1	ENSG00000213667	ENST00000455321	processed_pseudogene	KNOWN	None	45024	None	None	52486707	52487729	-1	None	None
19	CYP4F23P	ENSG00000269516	ENST00000593402	transcribed_unprocessed_pseudogene	KNOWN	None	39944	None	None	15674884	15695530	1	None	None
19	CYP4F23P	ENSG00000269516	ENST00000600439	processed_transcript	KNOWN	None	39944	None	None	15682573	15684461	1	None	None
10	None	ENSG00000229711	ENST00000438919	sense_intronic	KNOWN	None	None	None	None	52582452	52584285	-1	None	None
19	FPR3	ENSG00000187474	ENST00000339223	protein_coding	KNOWN	CCDS12841	3828	1062	353	52298416	52329442	1	FPRL2	FPRH1, FMLPY, RMLP-R-I
19	FPR3	ENSG00000187474	ENST00000595991	protein_coding	KNOWN	CCDS12841	3828	1062	353	52320937	52329061	1	FPRL2	FPRH1, FMLPY, RMLP-R-I
9	ADAMTS13	ENSG00000160323	ENST00000485925	processed_transcript	KNOWN	None	1366	None	None	136279478	136324508	1	C9orf8	VWFCP, TTP, vWF-CP, FLJ42993, MGC118899, MGC118900, DKFZp434C2322
9	ADAMTS13	ENSG00000160323	ENST00000371929	protein_coding	KNOWN	CCDS6970	1366	4284	1427	136287120	136324508	1	C9orf8	VWFCP, TTP, vWF-CP, FLJ42993, MGC118899, MGC118900, DKFZp434C2322
9	ADAMTS13	ENSG00000160323	ENST00000495234	nonsense_mediated_decay	KNOWN	None	1366	1035	344	136287444	136315077	1	C9orf8	VWFCP, TTP, vWF-CP, FLJ42993, MGC118899, MGC118900, DKFZp434C2322
9	ADAMTS13	ENSG00000160323	ENST00000355699	protein_coding	KNOWN	CCDS6972	1366	4116	1371	136287444	136324508	1	C9orf8	VWFCP, TTP, vWF-CP, FLJ42993, MGC118899, MGC118900, DKFZp434C2322
9	ADAMTS13	ENSG00000160323	ENST00000356589	protein_coding	KNOWN	CCDS6971	1366	4023	1340	136287444	136324508	1	C9orf8	VWFCP, TTP, vWF-CP, FLJ42993, MGC118899, MGC118900, DKFZp434C2322
9	ADAMTS13	ENSG00000160323	ENST00000474918	nonsense_mediated_decay	KNOWN	None	1366	831	276	136287445	136313730	1	C9orf8	VWFCP, TTP, vWF-CP, FLJ42993, MGC118899, MGC118900, DKFZp434C2322
9	ADAMTS13	ENSG00000160323	ENST00000371910	protein_coding	KNOWN	None	1366	672	223	136320770	136324508	1	C9orf8	VWFCP, TTP, vWF-CP, FLJ42993, MGC118899, MGC118900, DKFZp434C2322
9	ADAMTS13	ENSG00000160323	ENST00000371916	protein_coding	KNOWN	None	1366	831	276	136287120	136324507	1	C9orf8	VWFCP, TTP, vWF-CP, FLJ42993, MGC118899, MGC118900, DKFZp434C2322
9	ADAMTS13	ENSG00000160323	ENST00000371911	protein_coding	KNOWN	None	1366	1035	344	136287444	136295030	1	C9orf8	VWFCP, TTP, vWF-CP, FLJ42993, MGC118899, MGC118900, DKFZp434C2322
9	ADAMTS13	ENSG00000160323	ENST00000536611	protein_coding	KNOWN	None	1366	1095	364	136293751	136315077	1	C9orf8	VWFCP, TTP, vWF-CP, FLJ42993, MGC118899, MGC118900, DKFZp434C2322
22	OR11H1	ENSG00000130538	ENST00000252835	protein_coding	KNOWN	CCDS33594	15404	981	326	16448824	16449805	-1	None	OR22-1
10	CCDC58P2	ENSG00000236944	ENST00000417131	processed_pseudogene	KNOWN	None	45025	None	None	52722753	52723118	-1	None	None
6	IL22RA2	ENSG00000164485	ENST00000349184	protein_coding	KNOWN	CCDS5183	14901	696	231	137464968	137494785	-1	None	CRF2-S1, IL-22BP
6	IL22RA2	ENSG00000164485	ENST00000296980	protein_coding	KNOWN	CCDS5182	14901	792	263	137464968	137494785	-1	None	CRF2-S1, IL-22BP
6	IL22RA2	ENSG00000164485	ENST00000339602	protein_coding	KNOWN	CCDS5184	14901	393	130	137464968	137494785	-1	None	CRF2-S1, IL-22BP
10	None	ENSG00000261368	ENST00000561565	lincRNA	KNOWN	None	None	None	None	52724030	52724980	1	None	None
17	SMYD4	ENSG00000186532	ENST00000305513	protein_coding	KNOWN	CCDS11013	21067	2415	804	1682779	1733175	-1	None	KIAA1936, ZMYND21
17	SMYD4	ENSG00000186532	ENST00000491788	protein_coding	PUTATIVE	None	21067	1677	558	1684986	1704099	-1	None	KIAA1936, ZMYND21
17	SMYD4	ENSG00000186532	ENST00000476292	retained_intron	KNOWN	None	21067	None	None	1686404	1687157	-1	None	KIAA1936, ZMYND21
17	SMYD4	ENSG00000186532	ENST00000570368	protein_coding	KNOWN	None	21067	670	222	1704018	1732753	-1	None	KIAA1936, ZMYND21
17	SMYD4	ENSG00000186532	ENST00000571854	protein_coding	KNOWN	None	21067	532	176	1704156	1733928	-1	None	KIAA1936, ZMYND21
17	SMYD4	ENSG00000186532	ENST00000573937	retained_intron	KNOWN	None	21067	None	None	1707640	1733104	-1	None	KIAA1936, ZMYND21
17	SMYD4	ENSG00000186532	ENST00000576633	nonsense_mediated_decay	KNOWN	None	21067	219	72	1715356	1733104	-1	None	KIAA1936, ZMYND21
5	FST	ENSG00000134363	ENST00000256759	protein_coding	KNOWN	CCDS3959	3971	1035	344	52776239	52782964	1	None	FS
5	FST	ENSG00000134363	ENST00000396947	protein_coding	KNOWN	CCDS43315	3971	954	317	52776456	52782936	1	None	FS
5	FST	ENSG00000134363	ENST00000491717	retained_intron	KNOWN	None	3971	None	None	52778524	52779941	1	None	FS
5	FST	ENSG00000134363	ENST00000504226	protein_coding	NOVEL	None	3971	648	215	52779441	52781920	1	None	FS
5	FST	ENSG00000134363	ENST00000497789	protein_coding	NOVEL	None	3971	308	101	52780046	52781922	1	None	FS
10	None	ENSG00000223502	ENST00000343087	antisense	KNOWN	None	None	None	None	52822339	52828313	-1	None	None
15	GOLGA8A	ENSG00000175265	ENST00000473125	retained_intron	KNOWN	None	31972	None	None	34671269	34699888	-1	None	GM88, GOLGIN-67
15	GOLGA8A	ENSG00000175265	ENST00000359187	protein_coding	KNOWN	CCDS10038	31972	1812	603	34673612	34681957	-1	None	GM88, GOLGIN-67
15	GOLGA8A	ENSG00000175265	ENST00000569781	processed_transcript	PUTATIVE	None	31972	None	None	34697171	34729667	-1	None	GM88, GOLGIN-67
15	GOLGA8A	ENSG00000175265	ENST00000565885	processed_transcript	PUTATIVE	None	31972	None	None	34698878	34721126	-1	None	GM88, GOLGIN-67
15	GOLGA8A	ENSG00000175265	ENST00000360553	protein_coding	KNOWN	CCDS10038	31972	1812	603	34671272	34699888	-1	None	GM88, GOLGIN-67
15	GOLGA8A	ENSG00000175265	ENST00000432566	protein_coding	KNOWN	None	31972	1902	633	34671272	34679240	-1	None	GM88, GOLGIN-67
15	GOLGA8A	ENSG00000175265	ENST00000543376	protein_coding	KNOWN	None	31972	1383	460	34671272	34880704	-1	None	GM88, GOLGIN-67
14	ZC3H14	ENSG00000100722	ENST00000251038	protein_coding	KNOWN	CCDS32133	20509	2211	736	89029253	89079853	1	None	FLJ11806, UKp68, NY-REN-37
14	ZC3H14	ENSG00000100722	ENST00000302216	protein_coding	KNOWN	CCDS32134	20509	1740	579	89029314	89078751	1	None	FLJ11806, UKp68, NY-REN-37
14	ZC3H14	ENSG00000100722	ENST00000554602	protein_coding	KNOWN	None	20509	217	71	89029326	89038457	1	None	FLJ11806, UKp68, NY-REN-37
14	ZC3H14	ENSG00000100722	ENST00000553495	nonsense_mediated_decay	KNOWN	None	20509	195	64	89029352	89038982	1	None	FLJ11806, UKp68, NY-REN-37
14	ZC3H14	ENSG00000100722	ENST00000556945	protein_coding	NOVEL	None	20509	1818	605	89029354	89078228	1	None	FLJ11806, UKp68, NY-REN-37
14	ZC3H14	ENSG00000100722	ENST00000556158	protein_coding	PUTATIVE	None	20509	629	208	89029356	89039158	1	None	FLJ11806, UKp68, NY-REN-37
14	ZC3H14	ENSG00000100722	ENST00000557607	protein_coding	NOVEL	None	20509	1263	420	89029358	89078345	1	None	FLJ11806, UKp68, NY-REN-37
14	ZC3H14	ENSG00000100722	ENST00000555799	protein_coding	KNOWN	None	20509	646	214	89029370	89039238	1	None	FLJ11806, UKp68, NY-REN-37
14	ZC3H14	ENSG00000100722	ENST00000555755	protein_coding	PUTATIVE	CCDS55938	20509	2193	730	89029382	89078335	1	None	FLJ11806, UKp68, NY-REN-37
14	ZC3H14	ENSG00000100722	ENST00000393514	protein_coding	KNOWN	None	20509	2136	711	89029478	89078154	1	None	FLJ11806, UKp68, NY-REN-37
14	ZC3H14	ENSG00000100722	ENST00000336693	protein_coding	KNOWN	CCDS32135	20509	1716	571	89029691	89078211	1	None	FLJ11806, UKp68, NY-REN-37
14	ZC3H14	ENSG00000100722	ENST00000557693	protein_coding	KNOWN	None	20509	398	131	89029866	89038990	1	None	FLJ11806, UKp68, NY-REN-37
14	ZC3H14	ENSG00000100722	ENST00000555120	protein_coding	KNOWN	None	20509	283	93	89029945	89038523	1	None	FLJ11806, UKp68, NY-REN-37
14	ZC3H14	ENSG00000100722	ENST00000556000	protein_coding	KNOWN	None	20509	1955	650	89038392	89078232	1	None	FLJ11806, UKp68, NY-REN-37
14	ZC3H14	ENSG00000100722	ENST00000557605	processed_transcript	KNOWN	None	20509	None	None	89040037	89044485	1	None	FLJ11806, UKp68, NY-REN-37
14	ZC3H14	ENSG00000100722	ENST00000556110	nonsense_mediated_decay	KNOWN	None	20509	246	81	89041133	89068353	1	None	FLJ11806, UKp68, NY-REN-37
14	ZC3H14	ENSG00000100722	ENST00000557047	processed_transcript	KNOWN	None	20509	None	None	89041157	89053079	1	None	FLJ11806, UKp68, NY-REN-37
14	ZC3H14	ENSG00000100722	ENST00000318308	protein_coding	KNOWN	CCDS32136	20509	921	306	89060743	89078230	1	None	FLJ11806, UKp68, NY-REN-37
14	ZC3H14	ENSG00000100722	ENST00000555900	protein_coding	NOVEL	None	20509	1317	438	89060759	89078228	1	None	FLJ11806, UKp68, NY-REN-37
14	ZC3H14	ENSG00000100722	ENST00000406216	protein_coding	KNOWN	None	20509	849	282	89060779	89078295	1	None	FLJ11806, UKp68, NY-REN-37
14	ZC3H14	ENSG00000100722	ENST00000557737	protein_coding	NOVEL	None	20509	618	205	89060781	89069244	1	None	FLJ11806, UKp68, NY-REN-37
14	ZC3H14	ENSG00000100722	ENST00000554020	retained_intron	KNOWN	None	20509	None	None	89068379	89078234	1	None	FLJ11806, UKp68, NY-REN-37
14	ZC3H14	ENSG00000100722	ENST00000555792	protein_coding	NOVEL	None	20509	456	151	89073628	89078216	1	None	FLJ11806, UKp68, NY-REN-37
14	ZC3H14	ENSG00000100722	ENST00000555851	processed_transcript	KNOWN	None	20509	None	None	89074456	89078227	1	None	FLJ11806, UKp68, NY-REN-37
14	ZC3H14	ENSG00000100722	ENST00000557491	retained_intron	KNOWN	None	20509	None	None	89074766	89079323	1	None	FLJ11806, UKp68, NY-REN-37
14	ZC3H14	ENSG00000100722	ENST00000359301	protein_coding	KNOWN	CCDS32135	20509	1716	571	89029253	89079852	1	None	FLJ11806, UKp68, NY-REN-37
10	None	ENSG00000231132	ENST00000435271	antisense	KNOWN	None	None	None	None	53004654	53005566	-1	None	None
9	None	ENSG00000236322	ENST00000450911	lincRNA	KNOWN	None	None	None	None	43184068	43189411	-1	None	None
12	C12orf42	ENSG00000179088	ENST00000547347	nonsense_mediated_decay	KNOWN	None	24729	324	107	103631369	103889746	-1	None	FLJ25323
12	C12orf42	ENSG00000179088	ENST00000547470	processed_transcript	KNOWN	None	24729	None	None	103656045	103661670	-1	None	FLJ25323
12	C12orf42	ENSG00000179088	ENST00000549927	processed_transcript	KNOWN	None	24729	None	None	103656048	103663631	-1	None	FLJ25323
12	C12orf42	ENSG00000179088	ENST00000551303	processed_transcript	KNOWN	None	24729	None	None	103657086	103661703	-1	None	FLJ25323
12	C12orf42	ENSG00000179088	ENST00000550650	processed_transcript	KNOWN	None	24729	None	None	103661387	103835369	-1	None	FLJ25323
12	C12orf42	ENSG00000179088	ENST00000546526	processed_transcript	KNOWN	None	24729	None	None	103662320	103889736	-1	None	FLJ25323
12	C12orf42	ENSG00000179088	ENST00000552977	processed_transcript	KNOWN	None	24729	None	None	103663598	103835373	-1	None	FLJ25323
12	C12orf42	ENSG00000179088	ENST00000548883	protein_coding	KNOWN	CCDS44963	24729	1083	360	103695721	103889746	-1	None	FLJ25323
12	C12orf42	ENSG00000179088	ENST00000548048	protein_coding	PUTATIVE	None	24729	882	293	103695733	103889744	-1	None	FLJ25323
12	C12orf42	ENSG00000179088	ENST00000551134	nonsense_mediated_decay	KNOWN	None	24729	273	90	103695733	103889749	-1	None	FLJ25323
12	C12orf42	ENSG00000179088	ENST00000548789	processed_transcript	KNOWN	None	24729	None	None	103699752	103889724	-1	None	FLJ25323
12	C12orf42	ENSG00000179088	ENST00000552578	protein_coding	KNOWN	None	24729	623	206	103699760	103889731	-1	None	FLJ25323
12	C12orf42	ENSG00000179088	ENST00000550497	processed_transcript	KNOWN	None	24729	None	None	103742901	103889703	-1	None	FLJ25323
12	C12orf42	ENSG00000179088	ENST00000552372	processed_transcript	KNOWN	None	24729	None	None	103790271	103850053	-1	None	FLJ25323
12	C12orf42	ENSG00000179088	ENST00000548196	processed_transcript	KNOWN	None	24729	None	None	103870678	103889749	-1	None	FLJ25323
12	C12orf42	ENSG00000179088	ENST00000315192	protein_coding	KNOWN	None	24729	324	107	103670924	103889746	-1	None	FLJ25323
12	C12orf42	ENSG00000179088	ENST00000378113	protein_coding	KNOWN	CCDS44963	24729	1083	360	103695733	103889749	-1	None	FLJ25323
10	None	ENSG00000266591	ENST00000578721	miRNA	NOVEL	None	None	None	None	53025085	53025212	1	None	None
X	BEND2	ENSG00000177324	ENST00000380033	protein_coding	KNOWN	CCDS14184	28509	2400	799	18181051	18239003	-1	CXorf20	MGC33653
X	BEND2	ENSG00000177324	ENST00000380030	protein_coding	KNOWN	CCDS55375	28509	1938	645	18189095	18239024	-1	CXorf20	MGC33653
10	RNU2-59P	ENSG00000222414	ENST00000410482	snRNA	KNOWN	None	48552	None	None	103124602	103124792	-1	None	None
19	None	ENSG00000267135	ENST00000592379	processed_pseudogene	KNOWN	None	None	None	None	15722437	15722720	-1	None	None
10	None	ENSG00000239091	ENST00000459510	snoRNA	NOVEL	None	None	None	None	103131609	103131709	-1	None	None
10	MIR3158-1	ENSG00000263436	ENST00000583596	miRNA	KNOWN	None	38196	None	None	103361174	103361254	1	None	hsa-mir-3158-1
10	MIR3158-2	ENSG00000263436	ENST00000583596	miRNA	KNOWN	None	38279	None	None	103361174	103361254	1	None	hsa-mir-3158-2
13	CCDC122	ENSG00000151773	ENST00000470137	processed_transcript	KNOWN	None	26478	None	None	44398045	44449062	-1	None	FLJ31846
13	CCDC122	ENSG00000151773	ENST00000444614	protein_coding	PUTATIVE	CCDS9390	26478	822	273	44410488	44453826	-1	None	FLJ31846
13	CCDC122	ENSG00000151773	ENST00000476570	processed_transcript	KNOWN	None	26478	None	None	44428224	44453827	-1	None	FLJ31846
13	CCDC122	ENSG00000151773	ENST00000281508	protein_coding	KNOWN	None	26478	855	284	44430329	44449043	-1	None	FLJ31846
10	RNU6-1165P	ENSG00000222051	ENST00000410119	snRNA	KNOWN	None	48128	None	None	103382616	103382722	1	None	None
17	ARL5C	ENSG00000141748	ENST00000269586	protein_coding	KNOWN	CCDS45664	31111	540	179	37313147	37322013	-1	ARL12	None
17	ARL5C	ENSG00000141748	ENST00000578912	nonsense_mediated_decay	KNOWN	None	31111	300	99	37316451	37318987	-1	ARL12	None
17	ARL5C	ENSG00000141748	ENST00000583123	processed_transcript	KNOWN	None	31111	None	None	37320332	37323318	-1	ARL12	None
17	ARL5C	ENSG00000141748	ENST00000581255	retained_intron	KNOWN	None	31111	None	None	37321228	37322414	-1	ARL12	None
17	ARL5C	ENSG00000141748	ENST00000581554	retained_intron	KNOWN	None	31111	None	None	37321326	37323737	-1	ARL12	None
17	ARL5C	ENSG00000141748	ENST00000444555	protein_coding	KNOWN	CCDS45664	31111	540	179	37313147	37323318	-1	ARL12	None
6	ESR1	ENSG00000091831	ENST00000473497	processed_transcript	KNOWN	None	3467	None	None	151977826	152128992	1	ESR	NR3A1, Era
6	ESR1	ENSG00000091831	ENST00000404742	protein_coding	KNOWN	None	3467	254	83	152011631	152129301	1	ESR	NR3A1, Era
6	ESR1	ENSG00000091831	ENST00000338799	protein_coding	KNOWN	CCDS5234	3467	1788	595	152125566	152420188	1	ESR	NR3A1, Era
6	ESR1	ENSG00000091831	ENST00000446550	protein_coding	KNOWN	None	3467	347	114	152128331	152129394	1	ESR	NR3A1, Era
6	ESR1	ENSG00000091831	ENST00000206249	protein_coding	KNOWN	CCDS5234	3467	1788	595	152128686	152424406	1	ESR	NR3A1, Era
6	ESR1	ENSG00000091831	ENST00000406599	protein_coding	KNOWN	None	3467	1005	334	152128814	152420113	1	ESR	NR3A1, Era
6	ESR1	ENSG00000091831	ENST00000488573	processed_transcript	KNOWN	None	3467	None	None	152129240	152132413	1	ESR	NR3A1, Era
6	ESR1	ENSG00000091831	ENST00000427531	protein_coding	PUTATIVE	None	3467	1166	387	152130242	152450754	1	ESR	NR3A1, Era
6	ESR1	ENSG00000091831	ENST00000415488	protein_coding	PUTATIVE	None	3467	323	106	152201792	152382194	1	ESR	NR3A1, Era
6	ESR1	ENSG00000091831	ENST00000482101	processed_transcript	KNOWN	None	3467	None	None	152265307	152305300	1	ESR	NR3A1, Era
6	ESR1	ENSG00000091831	ENST00000440973	protein_coding	KNOWN	CCDS5234	3467	1788	595	152011631	152424409	1	ESR	NR3A1, Era
6	ESR1	ENSG00000091831	ENST00000456483	protein_coding	KNOWN	None	3467	1452	483	152126808	152424409	1	ESR	NR3A1, Era
6	ESR1	ENSG00000091831	ENST00000443427	protein_coding	KNOWN	CCDS5234	3467	1788	595	152128454	152424409	1	ESR	NR3A1, Era
6	ESR1	ENSG00000091831	ENST00000544394	protein_coding	KNOWN	None	3467	933	310	152130242	152450736	1	ESR	NR3A1, Era
2	None	ENSG00000115128	ENST00000233468	protein_coding	KNOWN	CCDS1707	None	378	125	24290454	24299313	-1	None	None
2	None	ENSG00000115128	ENST00000478050	retained_intron	KNOWN	None	None	None	None	24296519	24299243	-1	None	None
HSCHR6_MHC_MCF	LTB	ENSG00000236237	ENST00000456113	protein_coding	KNOWN	None	6711	735	244	31624641	31626511	-1	TNFC	p33, TNFSF3
HSCHR6_MHC_MCF	LTB	ENSG00000236237	ENST00000471690	processed_transcript	KNOWN	None	6711	None	None	31624641	31626513	-1	TNFC	p33, TNFSF3
HSCHR6_MHC_MCF	LTB	ENSG00000236237	ENST00000461335	processed_transcript	KNOWN	None	6711	None	None	31624641	31626608	-1	TNFC	p33, TNFSF3
16	FAM96B	ENSG00000166595	ENST00000422424	protein_coding	KNOWN	CCDS45506	24261	492	163	66965959	66968303	-1	None	CGI-128
16	FAM96B	ENSG00000166595	ENST00000568572	protein_coding	PUTATIVE	None	24261	321	106	66965968	66968153	-1	None	CGI-128
16	FAM96B	ENSG00000166595	ENST00000562362	nonsense_mediated_decay	KNOWN	None	24261	111	36	66965969	66968285	-1	None	CGI-128
16	FAM96B	ENSG00000166595	ENST00000567511	protein_coding	PUTATIVE	None	24261	484	160	66965970	66968265	-1	None	CGI-128
16	FAM96B	ENSG00000166595	ENST00000563490	retained_intron	KNOWN	None	24261	None	None	66966089	66968320	-1	None	CGI-128
16	FAM96B	ENSG00000166595	ENST00000569299	retained_intron	KNOWN	None	24261	None	None	66967372	66968326	-1	None	CGI-128
18	MRO	ENSG00000134042	ENST00000585524	nonsense_mediated_decay	KNOWN	None	24121	333	110	48324574	48346389	-1	C18orf3	B29, FLJ30140
18	MRO	ENSG00000134042	ENST00000428869	protein_coding	KNOWN	CCDS11947	24121	747	248	48324747	48351772	-1	C18orf3	B29, FLJ30140
18	MRO	ENSG00000134042	ENST00000431965	protein_coding	KNOWN	CCDS45867	24121	633	210	48324832	48346434	-1	C18orf3	B29, FLJ30140
18	MRO	ENSG00000134042	ENST00000256425	protein_coding	KNOWN	CCDS11947	24121	747	248	48325500	48351754	-1	C18orf3	B29, FLJ30140
18	MRO	ENSG00000134042	ENST00000588444	protein_coding	KNOWN	CCDS45869	24121	591	196	48325508	48351750	-1	C18orf3	B29, FLJ30140
18	MRO	ENSG00000134042	ENST00000436348	protein_coding	KNOWN	CCDS45868	24121	789	262	48325520	48346434	-1	C18orf3	B29, FLJ30140
18	MRO	ENSG00000134042	ENST00000398439	protein_coding	KNOWN	CCDS11947	24121	747	248	48325661	48346298	-1	C18orf3	B29, FLJ30140
18	MRO	ENSG00000134042	ENST00000592966	protein_coding	KNOWN	None	24121	537	178	48326406	48346206	-1	C18orf3	B29, FLJ30140
18	MRO	ENSG00000134042	ENST00000587291	processed_transcript	KNOWN	None	24121	None	None	48326417	48345996	-1	C18orf3	B29, FLJ30140
18	MRO	ENSG00000134042	ENST00000590988	nonsense_mediated_decay	KNOWN	None	24121	144	47	48326417	48346383	-1	C18orf3	B29, FLJ30140
5	GFRA3	ENSG00000146013	ENST00000274721	protein_coding	KNOWN	CCDS4201	4245	1203	400	137588068	137610360	-1	None	GFRa-3
5	GFRA3	ENSG00000146013	ENST00000378362	protein_coding	KNOWN	None	4245	1110	369	137588071	137610254	-1	None	GFRa-3
12	CCND2	ENSG00000118971	ENST00000261254	protein_coding	KNOWN	CCDS8524	1583	870	289	4382938	4414516	1	None	None
12	CCND2	ENSG00000118971	ENST00000536537	protein_coding	PUTATIVE	None	1583	511	169	4385230	4407134	1	None	None
12	CCND2	ENSG00000118971	ENST00000536795	retained_intron	KNOWN	None	1583	None	None	4387834	4398327	1	None	None
12	CCND2	ENSG00000118971	ENST00000541542	processed_transcript	PUTATIVE	None	1583	None	None	4387966	4394642	1	None	None
1	EPS8L3	ENSG00000198758	ENST00000361852	protein_coding	KNOWN	CCDS813	21297	1692	563	110292702	110306546	-1	None	FLJ21522, MGC16817
1	EPS8L3	ENSG00000198758	ENST00000369805	protein_coding	KNOWN	CCDS815	21297	1785	594	110292703	110306649	-1	None	FLJ21522, MGC16817
1	EPS8L3	ENSG00000198758	ENST00000361965	protein_coding	KNOWN	CCDS814	21297	1782	593	110292931	110306526	-1	None	FLJ21522, MGC16817
1	EPS8L3	ENSG00000198758	ENST00000498743	processed_transcript	KNOWN	None	21297	None	None	110292978	110294168	-1	None	FLJ21522, MGC16817
1	EPS8L3	ENSG00000198758	ENST00000489465	processed_transcript	KNOWN	None	21297	None	None	110293910	110294562	-1	None	FLJ21522, MGC16817
1	EPS8L3	ENSG00000198758	ENST00000475725	processed_transcript	KNOWN	None	21297	None	None	110294017	110294696	-1	None	FLJ21522, MGC16817
1	EPS8L3	ENSG00000198758	ENST00000482453	processed_transcript	KNOWN	None	21297	None	None	110294381	110294945	-1	None	FLJ21522, MGC16817
1	EPS8L3	ENSG00000198758	ENST00000494151	processed_transcript	KNOWN	None	21297	None	None	110300977	110302213	-1	None	FLJ21522, MGC16817
1	EPS8L3	ENSG00000198758	ENST00000472325	processed_transcript	KNOWN	None	21297	None	None	110301903	110306539	-1	None	FLJ21522, MGC16817
1	EPS8L3	ENSG00000198758	ENST00000477568	processed_transcript	KNOWN	None	21297	None	None	110303846	110306545	-1	None	FLJ21522, MGC16817
3	GOLIM4	ENSG00000173905	ENST00000470487	protein_coding	KNOWN	CCDS3204	15448	2091	696	167726465	167813763	-1	GOLPH4	GPP130, GIMPC, P138
3	GOLIM4	ENSG00000173905	ENST00000309027	protein_coding	NOVEL	None	15448	2007	668	167728023	167813132	-1	GOLPH4	GPP130, GIMPC, P138
3	GOLIM4	ENSG00000173905	ENST00000479415	retained_intron	KNOWN	None	15448	None	None	167758906	167762669	-1	GOLPH4	GPP130, GIMPC, P138
12	TMEM117	ENSG00000139173	ENST00000546387	retained_intron	KNOWN	None	25308	None	None	44229770	44238787	1	None	DKFZp434K2435
12	TMEM117	ENSG00000139173	ENST00000551577	protein_coding	PUTATIVE	None	25308	807	268	44229886	44783541	1	None	DKFZp434K2435
12	TMEM117	ENSG00000139173	ENST00000266534	protein_coding	KNOWN	CCDS8745	25308	1545	514	44229901	44783541	1	None	DKFZp434K2435
12	TMEM117	ENSG00000139173	ENST00000546868	nonsense_mediated_decay	KNOWN	None	25308	423	140	44229956	44783545	1	None	DKFZp434K2435
12	TMEM117	ENSG00000139173	ENST00000550495	protein_coding	PUTATIVE	None	25308	476	157	44238654	44781818	1	None	DKFZp434K2435
12	TMEM117	ENSG00000139173	ENST00000553253	processed_transcript	KNOWN	None	25308	None	None	44467315	44770507	1	None	DKFZp434K2435
12	TMEM117	ENSG00000139173	ENST00000550623	processed_transcript	KNOWN	None	25308	None	None	44467454	44770439	1	None	DKFZp434K2435
12	TMEM117	ENSG00000139173	ENST00000546978	processed_transcript	KNOWN	None	25308	None	None	44712078	44783543	1	None	DKFZp434K2435
12	TMEM117	ENSG00000139173	ENST00000536799	protein_coding	KNOWN	None	25308	1233	410	44238667	44782455	1	None	DKFZp434K2435
12	KCTD10	ENSG00000110906	ENST00000228495	protein_coding	KNOWN	CCDS9128	23236	942	313	109886461	109915349	-1	None	MSTP028, BTBD28
12	KCTD10	ENSG00000110906	ENST00000540089	protein_coding	PUTATIVE	None	23236	399	132	109887766	109896790	-1	None	MSTP028, BTBD28
12	KCTD10	ENSG00000110906	ENST00000545759	retained_intron	KNOWN	None	23236	None	None	109887776	109897434	-1	None	MSTP028, BTBD28
12	KCTD10	ENSG00000110906	ENST00000440541	nonsense_mediated_decay	KNOWN	None	23236	234	77	109887776	109915164	-1	None	MSTP028, BTBD28
12	KCTD10	ENSG00000110906	ENST00000537165	nonsense_mediated_decay	KNOWN	None	23236	195	64	109889092	109915105	-1	None	MSTP028, BTBD28
12	KCTD10	ENSG00000110906	ENST00000538161	processed_transcript	KNOWN	None	23236	None	None	109889209	109902700	-1	None	MSTP028, BTBD28
12	KCTD10	ENSG00000110906	ENST00000540411	protein_coding	KNOWN	None	23236	864	287	109889400	109907529	-1	None	MSTP028, BTBD28
12	KCTD10	ENSG00000110906	ENST00000542954	protein_coding	PUTATIVE	None	23236	364	120	109889435	109898200	-1	None	MSTP028, BTBD28
12	KCTD10	ENSG00000110906	ENST00000535546	protein_coding	PUTATIVE	None	23236	360	119	109889439	109896787	-1	None	MSTP028, BTBD28
12	KCTD10	ENSG00000110906	ENST00000540402	retained_intron	KNOWN	None	23236	None	None	109889446	109895780	-1	None	MSTP028, BTBD28
12	KCTD10	ENSG00000110906	ENST00000540355	protein_coding	PUTATIVE	None	23236	312	103	109889487	109896676	-1	None	MSTP028, BTBD28
12	KCTD10	ENSG00000110906	ENST00000541077	nonsense_mediated_decay	KNOWN	None	23236	114	37	109894027	109915094	-1	None	MSTP028, BTBD28
12	KCTD10	ENSG00000110906	ENST00000542262	protein_coding	PUTATIVE	None	23236	511	169	109894048	109915110	-1	None	MSTP028, BTBD28
12	KCTD10	ENSG00000110906	ENST00000542858	protein_coding	PUTATIVE	None	23236	526	174	109894090	109915105	-1	None	MSTP028, BTBD28
12	KCTD10	ENSG00000110906	ENST00000535747	retained_intron	KNOWN	None	23236	None	None	109898131	109915105	-1	None	MSTP028, BTBD28
12	KCTD10	ENSG00000110906	ENST00000538377	retained_intron	KNOWN	None	23236	None	None	109906867	109915105	-1	None	MSTP028, BTBD28
12	KCTD10	ENSG00000110906	ENST00000424763	protein_coding	KNOWN	None	23236	399	132	109887776	109915138	-1	None	MSTP028, BTBD28
2	TNFAIP6	ENSG00000123610	ENST00000243347	protein_coding	KNOWN	CCDS2193	11898	834	277	152214106	152236560	1	None	TSG6, TSG-6
2	TNFAIP6	ENSG00000123610	ENST00000460812	retained_intron	KNOWN	None	11898	None	None	152222656	152230258	1	None	TSG6, TSG-6
22	CCT8L2	ENSG00000198445	ENST00000359963	protein_coding	KNOWN	CCDS13738	15553	1674	557	17071667	17073700	-1	None	CESK1
22	None	ENSG00000231405	ENST00000430468	lincRNA	KNOWN	None	None	None	None	27539439	27555840	1	None	None
HSCHR6_MHC_DBB	OR2J4P	ENSG00000228483	ENST00000448929	unprocessed_pseudogene	KNOWN	None	8262	None	None	29149313	29150248	1	None	OR6-9, hs6M1-5, dJ80I19.5
16	None	ENSG00000266937	ENST00000587481	3prime_overlapping_ncrna	KNOWN	None	None	None	None	67903863	67906470	1	None	None
HSCHR6_MHC_DBB	OR2H4P	ENSG00000229441	ENST00000432719	unprocessed_pseudogene	KNOWN	None	8255	None	None	29183062	29184005	1	None	OR6-3, OR2H4, hs6M1-7, dJ80I19.6
16	None	ENSG00000221526	ENST00000408599	miRNA	NOVEL	None	None	None	None	67911560	67911643	1	None	None
1	MATN1	ENSG00000162510	ENST00000373765	protein_coding	KNOWN	CCDS336	6907	1491	496	31184124	31196434	-1	CRTM, CMP	None
1	MATN1	ENSG00000162510	ENST00000494561	processed_transcript	KNOWN	None	6907	None	None	31186614	31188982	-1	CRTM, CMP	None
1	MATN1	ENSG00000162510	ENST00000477320	processed_transcript	KNOWN	None	6907	None	None	31188873	31192098	-1	CRTM, CMP	None
9	KCNT1	ENSG00000107147	ENST00000487664	protein_coding	NOVEL	None	18865	3636	1211	138594031	138684992	1	None	KCa4.1, KIAA1422
9	KCNT1	ENSG00000107147	ENST00000371757	protein_coding	NOVEL	CCDS35175	18865	3708	1235	138594038	138684949	1	None	KCa4.1, KIAA1422
9	KCNT1	ENSG00000107147	ENST00000460750	nonsense_mediated_decay	KNOWN	None	18865	369	122	138594059	138684949	1	None	KCa4.1, KIAA1422
9	KCNT1	ENSG00000107147	ENST00000473941	protein_coding	PUTATIVE	None	18865	856	284	138606304	138651685	1	None	KCa4.1, KIAA1422
9	KCNT1	ENSG00000107147	ENST00000486577	protein_coding	PUTATIVE	None	18865	3642	1213	138606400	138684007	1	None	KCa4.1, KIAA1422
9	KCNT1	ENSG00000107147	ENST00000491806	protein_coding	NOVEL	None	18865	3666	1221	138628365	138684010	1	None	KCa4.1, KIAA1422
9	KCNT1	ENSG00000107147	ENST00000488444	protein_coding	NOVEL	None	18865	3708	1235	138628471	138684010	1	None	KCa4.1, KIAA1422
9	KCNT1	ENSG00000107147	ENST00000490355	protein_coding	NOVEL	None	18865	3705	1234	138628479	138684010	1	None	KCa4.1, KIAA1422
9	KCNT1	ENSG00000107147	ENST00000490363	retained_intron	KNOWN	None	18865	None	None	138645597	138678245	1	None	KCa4.1, KIAA1422
9	KCNT1	ENSG00000107147	ENST00000475008	retained_intron	KNOWN	None	18865	None	None	138680835	138684992	1	None	KCa4.1, KIAA1422
9	KCNT1	ENSG00000107147	ENST00000298480	protein_coding	KNOWN	None	18865	3771	1256	138594031	138684992	1	None	KCa4.1, KIAA1422
9	KCNT1	ENSG00000107147	ENST00000263604	protein_coding	KNOWN	None	18865	3693	1230	138628479	138684992	1	None	KCa4.1, KIAA1422
9	None	ENSG00000216182	ENST00000401363	miRNA	NOVEL	None	None	None	None	119155868	119155955	-1	None	None
9	ANGPTL2	ENSG00000136859	ENST00000373425	protein_coding	KNOWN	CCDS6868	490	1482	493	129849611	129885162	-1	None	ARP2, HARP
9	ANGPTL2	ENSG00000136859	ENST00000373417	protein_coding	KNOWN	None	490	576	191	129849628	129884913	-1	None	ARP2, HARP
9	ANGPTL2	ENSG00000136859	ENST00000491991	processed_transcript	KNOWN	None	490	None	None	129869204	129870323	-1	None	ARP2, HARP
9	ANGPTL2	ENSG00000136859	ENST00000470194	processed_transcript	KNOWN	None	490	None	None	129869204	129870326	-1	None	ARP2, HARP
8	C8orf48	ENSG00000164743	ENST00000297324	protein_coding	KNOWN	CCDS47809	26345	960	319	13424352	13425796	1	None	FLJ25402
16	None	ENSG00000263126	ENST00000572067	3prime_overlapping_ncrna	KNOWN	None	None	None	None	67916364	67920270	1	None	None
22	XKR3	ENSG00000172967	ENST00000331428	protein_coding	KNOWN	CCDS42975	28778	1380	459	17264302	17302589	-1	None	MGC57211, XTES
HSCHR6_MHC_DBB	None	ENSG00000235273	ENST00000411485	processed_transcript	KNOWN	None	None	None	None	29191799	29234885	1	None	None
16	None	ENSG00000267660	ENST00000590594	3prime_overlapping_ncrna	KNOWN	None	None	None	None	67977450	67978423	-1	None	None
16	KARSP3	ENSG00000262962	ENST00000571212	unprocessed_pseudogene	KNOWN	None	39209	None	None	68036335	68038855	-1	None	None
HSCHR6_MHC_DBB	OR2G1P	ENSG00000224990	ENST00000433737	unprocessed_pseudogene	KNOWN	None	8251	None	None	29197053	29197983	-1	None	OST619, hs6M1-25
7	None	ENSG00000214243	ENST00000423648	processed_pseudogene	KNOWN	None	None	None	None	76279718	76280214	-1	None	None
22	None	ENSG00000238195	ENST00000427360	lincRNA	KNOWN	None	None	None	None	27600173	27601088	1	None	None
7	None	ENSG00000221249	ENST00000408322	miRNA	NOVEL	None	None	None	None	76326819	76326971	-1	None	None
22	None	ENSG00000233521	ENST00000444114	lincRNA	KNOWN	None	None	None	None	27617310	27620688	-1	None	None
22	None	ENSG00000233521	ENST00000418271	lincRNA	KNOWN	None	None	None	None	27619258	27620618	-1	None	None
HSCHR6_MHC_DBB	OR2U1P	ENSG00000233168	ENST00000454067	unprocessed_pseudogene	KNOWN	None	8278	None	None	29230503	29231879	-1	OR2AU1P	hs6M1-24
16	None	ENSG00000263201	ENST00000574912	antisense	KNOWN	None	None	None	None	68047339	68049814	-1	None	None
1	NMNAT2	ENSG00000157064	ENST00000294868	protein_coding	KNOWN	CCDS1354	16789	909	302	183217372	183274009	-1	C1orf15	KIAA0479, PNAT2
1	NMNAT2	ENSG00000157064	ENST00000287713	protein_coding	KNOWN	CCDS1353	16789	924	307	183217372	183387737	-1	C1orf15	KIAA0479, PNAT2
1	NMNAT2	ENSG00000157064	ENST00000464047	processed_transcript	KNOWN	None	16789	None	None	183221559	183247820	-1	C1orf15	KIAA0479, PNAT2
1	NMNAT2	ENSG00000157064	ENST00000473046	processed_transcript	KNOWN	None	16789	None	None	183252001	183259878	-1	C1orf15	KIAA0479, PNAT2
19	LSM4	ENSG00000130520	ENST00000593829	protein_coding	KNOWN	CCDS12374	17259	420	139	18417040	18434084	-1	None	YER112W
19	LSM4	ENSG00000130520	ENST00000252816	protein_coding	PUTATIVE	None	17259	378	125	18417718	18433885	-1	None	YER112W
19	LSM4	ENSG00000130520	ENST00000600289	nonsense_mediated_decay	KNOWN	None	17259	210	69	18417982	18433870	-1	None	YER112W
19	LSM4	ENSG00000130520	ENST00000594828	retained_intron	KNOWN	None	17259	None	None	18420131	18433922	-1	None	YER112W
19	LSM4	ENSG00000130520	ENST00000597776	protein_coding	PUTATIVE	None	17259	327	108	18420561	18427069	-1	None	YER112W
19	LSM4	ENSG00000130520	ENST00000593564	retained_intron	KNOWN	None	17259	None	None	18422767	18433907	-1	None	YER112W
11	SLC22A24	ENSG00000197658	ENST00000417740	protein_coding	PUTATIVE	None	28542	1656	551	62847412	62911693	-1	None	MGC34821, NET46
11	SLC22A24	ENSG00000197658	ENST00000326192	protein_coding	KNOWN	None	28542	969	322	62885993	62911693	-1	None	MGC34821, NET46
HSCHR6_MHC_QBL	RING1	ENSG00000206287	ENST00000383212	protein_coding	KNOWN	None	10018	1221	406	33105102	33109329	1	None	RNF1
HSCHR6_MHC_QBL	RING1	ENSG00000206287	ENST00000498835	processed_transcript	PUTATIVE	None	10018	None	None	33106167	33109329	1	None	RNF1
9	PRPF4	ENSG00000136875	ENST00000374199	protein_coding	KNOWN	CCDS59142	17349	1566	521	116037623	116055185	1	None	Prp4p, HPRP4, HPRP4P, PRP4, SNRNP60
9	PRPF4	ENSG00000136875	ENST00000374198	protein_coding	KNOWN	CCDS6791	17349	1569	522	116037922	116055056	1	None	Prp4p, HPRP4, HPRP4P, PRP4, SNRNP60
9	PRPF4	ENSG00000136875	ENST00000488937	processed_transcript	KNOWN	None	17349	None	None	116041376	116045456	1	None	Prp4p, HPRP4, HPRP4P, PRP4, SNRNP60
22	GAB4	ENSG00000215568	ENST00000400588	protein_coding	KNOWN	CCDS42976	18325	1725	574	17442826	17489112	-1	None	None
22	GAB4	ENSG00000215568	ENST00000465611	nonsense_mediated_decay	KNOWN	None	18325	575	190	17443350	17488889	-1	None	None
22	GAB4	ENSG00000215568	ENST00000520505	processed_transcript	PUTATIVE	None	18325	None	None	17446990	17449273	-1	None	None
22	GAB4	ENSG00000215568	ENST00000523144	processed_transcript	KNOWN	None	18325	None	None	17448191	17488889	-1	None	None
10	PTPRE	ENSG00000132334	ENST00000254667	protein_coding	KNOWN	CCDS7657	9669	2103	700	129705325	129884119	1	None	PTPE
10	PTPRE	ENSG00000132334	ENST00000442830	protein_coding	KNOWN	None	9669	420	139	129705416	129847930	1	None	PTPE
10	PTPRE	ENSG00000132334	ENST00000471218	protein_coding	KNOWN	None	9669	450	149	129785608	129854434	1	None	PTPE
10	PTPRE	ENSG00000132334	ENST00000455661	protein_coding	KNOWN	None	9669	461	152	129796390	129854427	1	None	PTPE
10	PTPRE	ENSG00000132334	ENST00000467366	protein_coding	PUTATIVE	None	9669	324	107	129845670	129854435	1	None	PTPE
10	PTPRE	ENSG00000132334	ENST00000306042	protein_coding	KNOWN	CCDS7658	9669	1929	642	129845834	129884119	1	None	PTPE
10	PTPRE	ENSG00000132334	ENST00000487428	retained_intron	KNOWN	None	9669	None	None	129845883	129847899	1	None	PTPE
10	PTPRE	ENSG00000132334	ENST00000495530	nonsense_mediated_decay	KNOWN	None	9669	357	118	129845893	129868639	1	None	PTPE
10	PTPRE	ENSG00000132334	ENST00000479896	nonsense_mediated_decay	KNOWN	None	9669	1611	536	129845895	129884119	1	None	PTPE
10	PTPRE	ENSG00000132334	ENST00000492479	retained_intron	KNOWN	None	9669	None	None	129861183	129869105	1	None	PTPE
10	PTPRE	ENSG00000132334	ENST00000463727	retained_intron	KNOWN	None	9669	None	None	129866646	129870946	1	None	PTPE
10	PTPRE	ENSG00000132334	ENST00000419012	protein_coding	KNOWN	CCDS7657	9669	2103	700	129785544	129883369	1	None	PTPE
10	PTPRE	ENSG00000132334	ENST00000430713	protein_coding	KNOWN	None	9669	438	145	129785577	129866472	1	None	PTPE
6	RNU4-72P	ENSG00000222686	ENST00000410754	snRNA	KNOWN	None	47008	None	None	86461299	86461471	1	None	None
6	None	ENSG00000200427	ENST00000363557	misc_RNA	NOVEL	None	None	None	None	86487357	86487473	-1	None	None
8	SGCZ	ENSG00000185053	ENST00000382080	protein_coding	KNOWN	CCDS5992	14075	939	312	13947373	15095848	-1	None	ZSG1
8	SGCZ	ENSG00000185053	ENST00000421524	protein_coding	PUTATIVE	None	14075	798	265	13947883	14412435	-1	None	ZSG1
6	None	ENSG00000218766	ENST00000407987	processed_pseudogene	KNOWN	None	None	None	None	86578671	86579182	1	None	None
7	KPNA7	ENSG00000185467	ENST00000327442	protein_coding	KNOWN	CCDS47651	21839	1551	516	98771197	98805129	-1	None	None
19	ZNF66	ENSG00000160229	ENST00000360204	protein_coding	PUTATIVE	None	13135	174	57	20959110	20977403	1	ZNF66P	FLJ16537
19	ZNF66	ENSG00000160229	ENST00000594534	protein_coding	PUTATIVE	None	13135	618	205	20959116	20982199	1	ZNF66P	FLJ16537
19	ZNF66	ENSG00000160229	ENST00000344519	protein_coding	KNOWN	None	13135	1722	573	20959231	20990128	1	ZNF66P	FLJ16537
19	ZNF66	ENSG00000160229	ENST00000425625	protein_coding	KNOWN	None	13135	1338	445	20973438	20991922	1	ZNF66P	FLJ16537
17	MYH2	ENSG00000125414	ENST00000532183	protein_coding	NOVEL	None	7572	2127	708	10424465	10452734	-1	None	MYH2A, MYHSA2, MyHC-IIa, MYHas8, MyHC-2A
17	MYH2	ENSG00000125414	ENST00000245503	protein_coding	KNOWN	CCDS11156	7572	5826	1941	10424469	10453274	-1	None	MYH2A, MYHSA2, MyHC-IIa, MYHas8, MyHC-2A
17	MYH2	ENSG00000125414	ENST00000578017	protein_coding	PUTATIVE	None	7572	465	154	10447067	10451009	-1	None	MYH2A, MYHSA2, MyHC-IIa, MYHas8, MyHC-2A
17	MYH2	ENSG00000125414	ENST00000420805	protein_coding	PUTATIVE	None	7572	547	181	10447320	10452940	-1	None	MYH2A, MYHSA2, MyHC-IIa, MYHas8, MyHC-2A
17	MYH2	ENSG00000125414	ENST00000431502	protein_coding	KNOWN	None	7572	402	133	10448766	10452940	-1	None	MYH2A, MYHSA2, MyHC-IIa, MYHas8, MyHC-2A
17	MYH2	ENSG00000125414	ENST00000397183	protein_coding	KNOWN	CCDS11156	7572	5826	1941	10424473	10452940	-1	None	MYH2A, MYHSA2, MyHC-IIa, MYHas8, MyHC-2A
9	None	ENSG00000197805	ENST00000425262	processed_pseudogene	KNOWN	None	None	None	None	43313699	43314502	1	None	None
19	CCDC9	ENSG00000105321	ENST00000601154	processed_transcript	PUTATIVE	None	24560	None	None	47759237	47759854	1	None	DKFZP586M1019
19	CCDC9	ENSG00000105321	ENST00000221922	protein_coding	KNOWN	CCDS12698	24560	1596	531	47759716	47775210	1	None	DKFZP586M1019
19	CCDC9	ENSG00000105321	ENST00000599398	protein_coding	KNOWN	None	24560	385	127	47760789	47764019	1	None	DKFZP586M1019
19	CCDC9	ENSG00000105321	ENST00000595659	protein_coding	KNOWN	None	24560	170	55	47760797	47763639	1	None	DKFZP586M1019
19	CCDC9	ENSG00000105321	ENST00000596938	protein_coding	KNOWN	None	24560	145	47	47761346	47763614	1	None	DKFZP586M1019
19	CCDC9	ENSG00000105321	ENST00000600117	retained_intron	KNOWN	None	24560	None	None	47769552	47773844	1	None	DKFZP586M1019
10	None	ENSG00000224817	ENST00000458489	lincRNA	KNOWN	None	None	None	None	103464409	103468158	-1	None	None
HSCHR6_MHC_MCF	AGER	ENSG00000230514	ENST00000484341	retained_intron	KNOWN	None	320	None	None	32225175	32225842	-1	None	RAGE
HSCHR6_MHC_MCF	AGER	ENSG00000230514	ENST00000476747	retained_intron	KNOWN	None	320	None	None	32225175	32227138	-1	None	RAGE
HSCHR6_MHC_MCF	AGER	ENSG00000230514	ENST00000485739	retained_intron	KNOWN	None	320	None	None	32225175	32227138	-1	None	RAGE
HSCHR6_MHC_MCF	AGER	ENSG00000230514	ENST00000448768	protein_coding	KNOWN	None	320	1029	342	32225175	32228444	-1	None	RAGE
HSCHR6_MHC_MCF	AGER	ENSG00000230514	ENST00000452945	protein_coding	KNOWN	None	320	1044	347	32225175	32228453	-1	None	RAGE
HSCHR6_MHC_MCF	AGER	ENSG00000230514	ENST00000467684	retained_intron	KNOWN	None	320	None	None	32225175	32228453	-1	None	RAGE
HSCHR6_MHC_MCF	AGER	ENSG00000230514	ENST00000426138	protein_coding	KNOWN	None	320	1215	404	32225175	32228531	-1	None	RAGE
HSCHR6_MHC_MCF	AGER	ENSG00000230514	ENST00000436653	protein_coding	KNOWN	None	320	703	233	32227075	32228442	-1	None	RAGE
HSCHR6_MHC_MCF	AGER	ENSG00000230514	ENST00000412794	protein_coding	KNOWN	None	320	700	232	32227087	32228444	-1	None	RAGE
HSCHR6_MHC_MCF	AGER	ENSG00000230514	ENST00000552209	protein_coding	KNOWN	None	320	462	153	32225329	32228439	-1	None	RAGE
HSCHR6_MHC_MCF	AGER	ENSG00000230514	ENST00000546535	protein_coding	KNOWN	None	320	885	294	32225350	32228429	-1	None	RAGE
HSCHR6_MHC_MCF	AGER	ENSG00000230514	ENST00000550441	protein_coding	KNOWN	None	320	402	133	32225350	32228429	-1	None	RAGE
HSCHR6_MHC_MCF	AGER	ENSG00000230514	ENST00000552891	protein_coding	KNOWN	None	320	1092	363	32225329	32228439	-1	None	RAGE
HSCHR6_MHC_MCF	AGER	ENSG00000230514	ENST00000549227	protein_coding	KNOWN	None	320	366	121	32225329	32228439	-1	None	RAGE
HSCHR6_MHC_MCF	AGER	ENSG00000230514	ENST00000548009	protein_coding	KNOWN	None	320	387	128	32227616	32228429	-1	None	RAGE
10	KCNIP2-AS1	ENSG00000226009	ENST00000412353	antisense	KNOWN	None	48680	None	None	103578835	103588536	1	None	None
10	None	ENSG00000222430	ENST00000410498	misc_RNA	NOVEL	None	None	None	None	103712362	103712461	-1	None	None
10	None	ENSG00000224302	ENST00000448532	processed_pseudogene	KNOWN	None	None	None	None	103845233	103845487	-1	None	None
1	LAPTM5	ENSG00000162511	ENST00000294507	protein_coding	KNOWN	CCDS337	29612	789	262	31205316	31230667	-1	None	None
1	LAPTM5	ENSG00000162511	ENST00000464569	processed_transcript	KNOWN	None	29612	None	None	31206736	31219076	-1	None	None
1	LAPTM5	ENSG00000162511	ENST00000476492	processed_transcript	KNOWN	None	29612	None	None	31214536	31230604	-1	None	None
6	RNU4-12P	ENSG00000202103	ENST00000365233	snRNA	KNOWN	None	46948	None	None	86702739	86702877	-1	None	None
16	MT1A	ENSG00000205362	ENST00000290705	protein_coding	KNOWN	CCDS32454	7393	186	61	56672578	56673999	1	MT1, MT1S	None
10	None	ENSG00000229629	ENST00000454105	processed_pseudogene	KNOWN	None	None	None	None	103849725	103849819	1	None	None
6	None	ENSG00000220069	ENST00000403775	processed_pseudogene	KNOWN	None	None	None	None	86796133	86796852	-1	None	None
10	None	ENSG00000253068	ENST00000517259	snoRNA	NOVEL	None	None	None	None	103862019	103862089	1	None	None
10	MIR605	ENSG00000207813	ENST00000385078	miRNA	KNOWN	None	32861	None	None	53059333	53059415	1	MIRN605	hsa-mir-605
10	None	ENSG00000251989	ENST00000516180	miRNA	NOVEL	None	None	None	None	104020987	104021063	1	None	None
6	None	ENSG00000217272	ENST00000401856	processed_pseudogene	KNOWN	None	None	None	None	86880165	86880736	-1	None	None
19	ZNF577	ENSG00000161551	ENST00000485702	processed_transcript	KNOWN	None	28673	None	None	52359055	52391233	-1	None	MGC4400
19	ZNF577	ENSG00000161551	ENST00000586437	processed_transcript	KNOWN	None	28673	None	None	52359057	52375100	-1	None	MGC4400
19	ZNF577	ENSG00000161551	ENST00000477228	retained_intron	KNOWN	None	28673	None	None	52359057	52382095	-1	None	MGC4400
19	ZNF577	ENSG00000161551	ENST00000588129	retained_intron	KNOWN	None	28673	None	None	52359063	52364332	-1	None	MGC4400
19	ZNF577	ENSG00000161551	ENST00000412216	protein_coding	PUTATIVE	None	28673	336	111	52359063	52391204	-1	None	MGC4400
19	ZNF577	ENSG00000161551	ENST00000301399	protein_coding	KNOWN	CCDS12842	28673	1458	485	52374535	52391204	-1	None	MGC4400
19	ZNF577	ENSG00000161551	ENST00000420592	protein_coding	KNOWN	CCDS46160	28673	1281	426	52375252	52391189	-1	None	MGC4400
19	ZNF577	ENSG00000161551	ENST00000451628	protein_coding	KNOWN	CCDS46160	28673	1281	426	52375710	52391189	-1	None	MGC4400
19	ZNF577	ENSG00000161551	ENST00000458390	protein_coding	KNOWN	None	28673	1440	479	52375803	52391173	-1	None	MGC4400
19	ZNF577	ENSG00000161551	ENST00000453272	protein_coding	KNOWN	None	28673	187	61	52381642	52394203	-1	None	MGC4400
19	ZNF577	ENSG00000161551	ENST00000592321	protein_coding	KNOWN	None	28673	179	58	52381650	52391195	-1	None	MGC4400
19	ZNF577	ENSG00000161551	ENST00000446514	protein_coding	KNOWN	None	28673	175	57	52381654	52391142	-1	None	MGC4400
19	ZNF577	ENSG00000161551	ENST00000419138	protein_coding	KNOWN	None	28673	133	43	52381696	52391229	-1	None	MGC4400
19	ZNF577	ENSG00000161551	ENST00000591320	protein_coding	KNOWN	None	28673	44	13	52383592	52391195	-1	None	MGC4400
19	ZNF577	ENSG00000161551	ENST00000588878	processed_transcript	KNOWN	None	28673	None	None	52383932	52391188	-1	None	MGC4400
19	ZNF577	ENSG00000161551	ENST00000484095	processed_transcript	KNOWN	None	28673	None	None	52383951	52389718	-1	None	MGC4400
19	ZNF577	ENSG00000161551	ENST00000589784	processed_transcript	KNOWN	None	28673	None	None	52383971	52391144	-1	None	MGC4400
10	MIR146B	ENSG00000202569	ENST00000365699	miRNA	KNOWN	None	32079	None	None	104196269	104196341	1	MIRN146B	hsa-mir-146b
3	TATDN2	ENSG00000157014	ENST00000287652	protein_coding	KNOWN	CCDS33698	28988	2286	761	10289707	10322900	1	None	KIAA0218
3	TATDN2	ENSG00000157014	ENST00000448281	protein_coding	KNOWN	CCDS33698	28988	2286	761	10290596	10322902	1	None	KIAA0218
3	TATDN2	ENSG00000157014	ENST00000426850	protein_coding	PUTATIVE	None	28988	549	182	10312604	10320849	1	None	KIAA0218
3	TATDN2	ENSG00000157014	ENST00000496355	processed_transcript	KNOWN	None	28988	None	None	10318061	10321817	1	None	KIAA0218
10	None	ENSG00000235279	ENST00000419889	sense_intronic	KNOWN	None	None	None	None	53062326	53066469	1	None	None
6	NDUFA5P9	ENSG00000220831	ENST00000472609	processed_pseudogene	KNOWN	None	48851	None	None	86923955	86924294	-1	None	None
6	NDUFA5P9	ENSG00000220831	ENST00000402104	processed_pseudogene	KNOWN	None	48851	None	None	86923965	86924297	-1	None	None
10	RSU1P3	ENSG00000213659	ENST00000412878	processed_pseudogene	KNOWN	None	44392	None	None	53079586	53080420	1	None	None
6	None	ENSG00000219500	ENST00000404100	processed_pseudogene	KNOWN	None	None	None	None	87141962	87142387	1	None	None
10	None	ENSG00000269609	ENST00000494270	antisense	KNOWN	None	None	None	None	104209574	104211516	1	None	None
10	None	ENSG00000269609	ENST00000473970	antisense	KNOWN	None	None	None	None	104209588	104216054	1	None	None
10	None	ENSG00000269609	ENST00000492465	antisense	KNOWN	None	None	None	None	104209610	104216050	1	None	None
10	None	ENSG00000269609	ENST00000594818	antisense	KNOWN	None	None	None	None	104209950	104220863	1	None	None
10	None	ENSG00000269609	ENST00000596366	antisense	KNOWN	None	None	None	None	104210311	104215640	1	None	None
10	None	ENSG00000269609	ENST00000596045	antisense	KNOWN	None	None	None	None	104210388	104211198	1	None	None
10	None	ENSG00000269609	ENST00000597488	retained_intron	KNOWN	None	None	None	None	104211359	104213296	1	None	None
10	None	ENSG00000269609	ENST00000598368	retained_intron	KNOWN	None	None	None	None	104213597	104216049	1	None	None
6	RN7SL643P	ENSG00000243124	ENST00000471845	misc_RNA	KNOWN	None	46659	None	None	87145570	87145854	1	None	None
4	MFSD7	ENSG00000169026	ENST00000512400	retained_intron	KNOWN	None	26177	None	None	675618	678890	-1	None	FLJ22269, LP2561
4	MFSD7	ENSG00000169026	ENST00000347950	protein_coding	KNOWN	None	26177	1326	441	675618	683060	-1	None	FLJ22269, LP2561
4	MFSD7	ENSG00000169026	ENST00000322224	protein_coding	KNOWN	CCDS3338	26177	1680	559	675618	683230	-1	None	FLJ22269, LP2561
4	MFSD7	ENSG00000169026	ENST00000404286	protein_coding	KNOWN	None	26177	1683	560	675620	682932	-1	None	FLJ22269, LP2561
4	MFSD7	ENSG00000169026	ENST00000515118	protein_coding	NOVEL	None	26177	1392	463	675647	682980	-1	None	FLJ22269, LP2561
4	MFSD7	ENSG00000169026	ENST00000503156	protein_coding	PUTATIVE	None	26177	1263	420	675651	681114	-1	None	FLJ22269, LP2561
4	MFSD7	ENSG00000169026	ENST00000512249	protein_coding	NOVEL	None	26177	597	198	677007	682972	-1	None	FLJ22269, LP2561
4	MFSD7	ENSG00000169026	ENST00000507165	protein_coding	PUTATIVE	None	26177	651	216	678272	682769	-1	None	FLJ22269, LP2561
4	MFSD7	ENSG00000169026	ENST00000513740	processed_transcript	KNOWN	None	26177	None	None	679878	682812	-1	None	FLJ22269, LP2561
6	None	ENSG00000221101	ENST00000408174	miRNA	NOVEL	None	None	None	None	87183205	87183313	-1	None	None
6	None	ENSG00000218561	ENST00000407695	processed_pseudogene	KNOWN	None	None	None	None	87439426	87439826	-1	None	None
22	None	ENSG00000233574	ENST00000449126	lincRNA	KNOWN	None	None	None	None	27672201	27682310	1	None	None
6	None	ENSG00000219190	ENST00000402173	processed_pseudogene	KNOWN	None	None	None	None	87478240	87478650	-1	None	None
9	None	ENSG00000224828	ENST00000451552	processed_pseudogene	KNOWN	None	None	None	None	43318619	43319576	-1	None	None
6	None	ENSG00000217769	ENST00000468100	processed_pseudogene	KNOWN	None	None	None	None	87606836	87607139	1	None	None
HSCHR6_MHC_DBB	OR2U2P	ENSG00000234351	ENST00000412338	unprocessed_pseudogene	KNOWN	None	8279	None	None	29236262	29237221	-1	None	hs6M1-23
9	None	ENSG00000229105	ENST00000418250	antisense	KNOWN	None	None	None	None	119266562	119324572	1	None	None
11	SLC22A10	ENSG00000184999	ENST00000525620	processed_transcript	KNOWN	None	18057	None	None	62905339	63137190	1	None	OAT5, hOAT5
11	SLC22A10	ENSG00000184999	ENST00000533483	nonsense_mediated_decay	KNOWN	None	18057	1119	372	63057372	63079243	1	None	OAT5, hOAT5
11	SLC22A10	ENSG00000184999	ENST00000533176	processed_transcript	PUTATIVE	None	18057	None	None	63057564	63059094	1	None	OAT5, hOAT5
11	SLC22A10	ENSG00000184999	ENST00000332793	protein_coding	KNOWN	CCDS41661	18057	1626	541	63057636	63078904	1	None	OAT5, hOAT5
11	SLC22A10	ENSG00000184999	ENST00000532724	nonsense_mediated_decay	KNOWN	None	18057	795	264	63057771	63072223	1	None	OAT5, hOAT5
11	SLC22A10	ENSG00000184999	ENST00000526800	protein_coding	PUTATIVE	None	18057	618	205	63057780	63078573	1	None	OAT5, hOAT5
11	SLC22A10	ENSG00000184999	ENST00000544661	protein_coding	KNOWN	None	18057	810	269	63057419	63079237	1	None	OAT5, hOAT5
11	SLC22A10	ENSG00000184999	ENST00000535888	protein_coding	KNOWN	None	18057	444	147	62921972	63137190	1	None	OAT5, hOAT5
6	None	ENSG00000220240	ENST00000258070	unprocessed_pseudogene	KNOWN	None	None	None	None	87607265	87607401	1	None	None
19	RPL23AP2	ENSG00000225067	ENST00000471227	processed_pseudogene	KNOWN	None	10319	None	None	15722467	15722932	1	None	None
19	RPL23AP2	ENSG00000225067	ENST00000455510	processed_pseudogene	KNOWN	None	10319	None	None	15722467	15722934	1	None	None
HSCHR6_MHC_MANN	POU5F1	ENSG00000230336	ENST00000454714	protein_coding	KNOWN	None	9221	1083	360	31177061	31183436	-1	OTF3	OCT3, Oct4, MGC22487
HSCHR6_MHC_MANN	POU5F1	ENSG00000230336	ENST00000433348	protein_coding	KNOWN	None	9221	798	265	31177061	31179002	-1	OTF3	OCT3, Oct4, MGC22487
HSCHR6_MHC_MANN	POU5F1	ENSG00000230336	ENST00000497367	processed_transcript	KNOWN	None	9221	None	None	31177061	31178018	-1	OTF3	OCT3, Oct4, MGC22487
HSCHR6_MHC_MANN	POU5F1	ENSG00000230336	ENST00000472089	retained_intron	KNOWN	None	9221	None	None	31178426	31183401	-1	OTF3	OCT3, Oct4, MGC22487
HSCHR6_MHC_MANN	POU5F1	ENSG00000230336	ENST00000546505	protein_coding	KNOWN	None	9221	369	122	31172166	31183363	-1	OTF3	OCT3, Oct4, MGC22487
HSCHR6_MHC_MANN	POU5F1	ENSG00000230336	ENST00000549294	protein_coding	KNOWN	None	9221	558	185	31177062	31183417	-1	OTF3	OCT3, Oct4, MGC22487
HSCHR6_MHC_DBB	OR2B4P	ENSG00000232469	ENST00000432726	unprocessed_pseudogene	KNOWN	None	8239	None	None	29258528	29259470	1	None	hs6M1-22
9	ATP5A1P5	ENSG00000229489	ENST00000433223	processed_pseudogene	KNOWN	None	825	None	None	43399987	43401315	1	ATP5AL1	None
6	RPL7P29	ENSG00000214457	ENST00000437151	processed_pseudogene	KNOWN	None	35700	None	None	87680184	87680911	1	None	None
20	GID8	ENSG00000101193	ENST00000266069	protein_coding	KNOWN	CCDS13510	15857	687	228	61569471	61576996	1	C20orf11	FLJ20602, bA305P22.1, TWA1
20	GID8	ENSG00000101193	ENST00000497101	processed_transcript	KNOWN	None	15857	None	None	61569505	61570176	1	C20orf11	FLJ20602, bA305P22.1, TWA1
6	MTHFD2P2	ENSG00000217169	ENST00000407725	processed_pseudogene	KNOWN	None	48860	None	None	87709763	87710009	-1	None	None
13	LACC1	ENSG00000179630	ENST00000425906	protein_coding	KNOWN	None	26789	494	163	44453694	44455615	1	C13orf31	FLJ38725
13	LACC1	ENSG00000179630	ENST00000325686	protein_coding	KNOWN	CCDS9391	26789	1293	430	44453969	44468068	1	C13orf31	FLJ38725
13	LACC1	ENSG00000179630	ENST00000441843	protein_coding	KNOWN	CCDS9391	26789	1293	430	44453420	44468067	1	C13orf31	FLJ38725
10	RN7SL21P	ENSG00000242311	ENST00000483160	misc_RNA	KNOWN	None	46037	None	None	104285722	104286001	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000258069	ENST00000550234	pseudogene	NOVEL	None	None	None	None	29267069	29267608	1	None	None
9	None	ENSG00000223512	ENST00000442075	processed_pseudogene	KNOWN	None	None	None	None	43403148	43403646	1	None	None
19	ACER1	ENSG00000167769	ENST00000301452	protein_coding	KNOWN	CCDS12161	18356	795	264	6306153	6333640	-1	ASAH3	None
10	None	ENSG00000228657	ENST00000440453	processed_pseudogene	KNOWN	None	None	None	None	104332514	104332982	-1	None	None
HSCHR6_MHC_DBB	DDX6P1	ENSG00000228197	ENST00000440720	processed_pseudogene	KNOWN	None	13948	None	None	29297458	29298893	-1	DDX6P	DDX6-Lp, bA150A6.3
10	RNU6-43P	ENSG00000207029	ENST00000384302	snRNA	KNOWN	None	34287	None	None	104351281	104351387	1	RNU6-43	None
19	None	ENSG00000269095	ENST00000594059	protein_coding	NOVEL	None	None	139	45	17346749	17366257	-1	None	None
10	RNU6-1231P	ENSG00000252994	ENST00000517185	snRNA	KNOWN	None	48194	None	None	104563686	104563788	1	None	None
5	SLC36A2	ENSG00000186335	ENST00000335244	protein_coding	KNOWN	CCDS4315	18762	1452	483	150694539	150727151	-1	None	PAT2, tramdorin, TRAMD1
5	SLC36A2	ENSG00000186335	ENST00000518617	nonsense_mediated_decay	KNOWN	None	18762	444	147	150695754	150727089	-1	None	PAT2, tramdorin, TRAMD1
5	SLC36A2	ENSG00000186335	ENST00000518280	nonsense_mediated_decay	KNOWN	None	18762	444	147	150695754	150727089	-1	None	PAT2, tramdorin, TRAMD1
5	SLC36A2	ENSG00000186335	ENST00000521967	protein_coding	PUTATIVE	None	18762	1188	395	150701446	150727151	-1	None	PAT2, tramdorin, TRAMD1
5	SLC36A2	ENSG00000186335	ENST00000523044	protein_coding	PUTATIVE	None	18762	323	106	150704712	150712885	-1	None	PAT2, tramdorin, TRAMD1
5	SLC36A2	ENSG00000186335	ENST00000522829	retained_intron	KNOWN	None	18762	None	None	150718174	150727117	-1	None	PAT2, tramdorin, TRAMD1
5	SLC36A2	ENSG00000186335	ENST00000450886	protein_coding	KNOWN	None	18762	624	207	150694543	150712004	-1	None	PAT2, tramdorin, TRAMD1
10	CYP17A1-AS1	ENSG00000203886	ENST00000369884	antisense	KNOWN	None	31671	None	None	104592478	104594273	1	CYP17A1OS	bA753C18.3
HSCHR6_MHC_DBB	OR5V1	ENSG00000230742	ENST00000458123	processed_transcript	KNOWN	None	13972	None	None	29390325	29399677	-1	None	hs6M1-21
HSCHR6_MHC_DBB	OR5V1	ENSG00000230742	ENST00000429005	processed_transcript	KNOWN	None	13972	None	None	29374189	29374257	-1	None	hs6M1-21
9	None	ENSG00000269474	ENST00000597277	processed_pseudogene	KNOWN	None	None	None	None	43425713	43427044	-1	None	None
10	PFN1P11	ENSG00000213061	ENST00000445829	processed_pseudogene	KNOWN	None	42994	None	None	104597768	104605230	-1	None	None
HSCHR6_MHC_DBB	OR12D1P	ENSG00000249103	ENST00000509790	unprocessed_pseudogene	KNOWN	None	8177	None	None	29384982	29385944	1	OR12D1P	hs6M1-19
7	RAB19	ENSG00000146955	ENST00000495590	protein_coding	KNOWN	None	19982	447	148	140103843	140125743	1	None	RAB19B
7	RAB19	ENSG00000146955	ENST00000356407	protein_coding	KNOWN	CCDS34762	19982	654	217	140107379	140126050	1	None	RAB19B
7	RAB19	ENSG00000146955	ENST00000275874	protein_coding	KNOWN	None	19982	795	264	140103843	140126050	1	None	RAB19B
7	RAB19	ENSG00000146955	ENST00000537763	protein_coding	KNOWN	CCDS34762	19982	654	217	140103843	140126050	1	None	RAB19B
HSCHR6_MHC_DBB	UBDP1	ENSG00000233989	ENST00000447229	unprocessed_pseudogene	KNOWN	None	18796	None	None	29432307	29437517	-1	None	dJ994E9.3
12	SYT10	ENSG00000110975	ENST00000228567	protein_coding	KNOWN	CCDS8732	19266	1572	523	33527173	33592754	-1	None	None
12	SYT10	ENSG00000110975	ENST00000539102	nonsense_mediated_decay	KNOWN	None	19266	585	194	33529208	33592581	-1	None	None
12	SYT10	ENSG00000110975	ENST00000567656	processed_transcript	PUTATIVE	None	19266	None	None	33560733	33579095	-1	None	None
12	SYT10	ENSG00000110975	ENST00000535526	protein_coding	KNOWN	None	19266	1029	342	33529208	33592581	-1	None	None
1	SDC3	ENSG00000162512	ENST00000336798	protein_coding	KNOWN	None	10660	1155	384	31342314	31351587	-1	None	N-syndecan, SYND3
1	SDC3	ENSG00000162512	ENST00000339394	protein_coding	KNOWN	CCDS30661	10660	1329	442	31345982	31381608	-1	None	N-syndecan, SYND3
1	SDC3	ENSG00000162512	ENST00000471567	processed_transcript	KNOWN	None	10660	None	None	31349614	31354276	-1	None	N-syndecan, SYND3
1	SDC3	ENSG00000162512	ENST00000487984	processed_transcript	KNOWN	None	10660	None	None	31351523	31353616	-1	None	N-syndecan, SYND3
HSCHR6_MHC_DBB	MAS1LP1	ENSG00000229889	ENST00000427228	unprocessed_pseudogene	KNOWN	None	33448	None	None	29442736	29443782	-1	MAS1LP	OTTHUMG00000086553
16	MT1B	ENSG00000169688	ENST00000334346	protein_coding	KNOWN	CCDS10765	7394	186	61	56685811	56687116	1	MT1, MT1Q	None
16	MT1B	ENSG00000169688	ENST00000562399	protein_coding	NOVEL	None	7394	213	70	56685838	56687116	1	MT1, MT1Q	None
22	None	ENSG00000223726	ENST00000454387	lincRNA	KNOWN	None	None	None	None	27703444	27714499	-1	None	None
5	None	ENSG00000247121	ENST00000501338	processed_transcript	KNOWN	None	None	None	None	96149731	96271513	-1	None	None
5	None	ENSG00000247121	ENST00000504056	protein_coding	PUTATIVE	None	None	201	66	96149735	96209315	-1	None	None
5	None	ENSG00000247121	ENST00000502262	nonsense_mediated_decay	KNOWN	None	None	195	64	96149877	96209376	-1	None	None
5	None	ENSG00000247121	ENST00000504967	processed_transcript	KNOWN	None	None	None	None	96184395	96209355	-1	None	None
HSCHR6_MHC_DBB	RPS17P1	ENSG00000223769	ENST00000458120	processed_pseudogene	KNOWN	None	13982	None	None	29456982	29457387	-1	None	RPS17p, dJ994E9.1
HSCHR6_MHC_DBB	RPS17P1	ENSG00000223769	ENST00000550523	pseudogene	KNOWN	None	13982	None	None	29456982	29457345	-1	None	RPS17p, dJ994E9.1
22	None	ENSG00000226741	ENST00000426467	lincRNA	KNOWN	None	None	None	None	27706612	27713417	1	None	None
16	SEZ6L2	ENSG00000174938	ENST00000346932	protein_coding	KNOWN	CCDS45458	30844	2430	809	29882480	29910385	-1	None	PSK-1, FLJ90517
16	SEZ6L2	ENSG00000174938	ENST00000350527	protein_coding	KNOWN	CCDS10658	30844	2562	853	29882480	29910411	-1	None	PSK-1, FLJ90517
16	SEZ6L2	ENSG00000174938	ENST00000308713	protein_coding	KNOWN	CCDS10659	30844	2733	910	29882480	29910868	-1	None	PSK-1, FLJ90517
16	SEZ6L2	ENSG00000174938	ENST00000563118	protein_coding	PUTATIVE	None	30844	909	302	29888086	29899914	-1	None	PSK-1, FLJ90517
16	SEZ6L2	ENSG00000174938	ENST00000568407	retained_intron	KNOWN	None	30844	None	None	29888175	29897340	-1	None	PSK-1, FLJ90517
16	SEZ6L2	ENSG00000174938	ENST00000562159	processed_transcript	KNOWN	None	30844	None	None	29899861	29909249	-1	None	PSK-1, FLJ90517
16	SEZ6L2	ENSG00000174938	ENST00000568380	protein_coding	NOVEL	None	30844	242	79	29908280	29910430	-1	None	PSK-1, FLJ90517
16	SEZ6L2	ENSG00000174938	ENST00000537485	protein_coding	KNOWN	CCDS58447	30844	2640	879	29882831	29910430	-1	None	PSK-1, FLJ90517
HSCHR6_MHC_QBL	None	ENSG00000272413	ENST00000596129	protein_coding	NOVEL	None	None	108	35	28730486	28730593	1	None	None
22	None	ENSG00000230051	ENST00000413244	lincRNA	KNOWN	None	None	None	None	27727748	27775226	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000258213	ENST00000549200	protein_coding	NOVEL	None	None	150	49	33130642	33142541	1	None	None
9	EQTN	ENSG00000120160	ENST00000380032	protein_coding	KNOWN	CCDS35001	1359	885	294	27284659	27297137	-1	C9orf11	AFAF, SPACA8, equatorin
9	EQTN	ENSG00000120160	ENST00000380031	protein_coding	KNOWN	None	1359	384	127	27292133	27297134	-1	C9orf11	AFAF, SPACA8, equatorin
9	EQTN	ENSG00000120160	ENST00000484994	processed_transcript	KNOWN	None	1359	None	None	27292411	27296738	-1	C9orf11	AFAF, SPACA8, equatorin
9	EQTN	ENSG00000120160	ENST00000537675	protein_coding	KNOWN	CCDS55300	1359	798	265	27284656	27297137	-1	C9orf11	AFAF, SPACA8, equatorin
22	None	ENSG00000227880	ENST00000440477	lincRNA	KNOWN	None	None	None	None	27853208	27856021	-1	None	None
19	None	ENSG00000226104	ENST00000430975	protein_coding	NOVEL	None	None	81	26	10751715	10752093	1	None	None
19	None	ENSG00000266951	ENST00000589196	lincRNA	KNOWN	None	None	None	None	15724066	15725364	-1	None	None
19	TMEM143	ENSG00000161558	ENST00000293261	protein_coding	KNOWN	CCDS12716	25603	1380	459	48835613	48867494	-1	None	FLJ10922
19	TMEM143	ENSG00000161558	ENST00000377431	protein_coding	KNOWN	None	25603	1080	359	48835614	48867195	-1	None	FLJ10922
19	TMEM143	ENSG00000161558	ENST00000435956	protein_coding	NOVEL	None	25603	1275	424	48835618	48867316	-1	None	FLJ10922
19	TMEM143	ENSG00000161558	ENST00000600816	retained_intron	KNOWN	None	25603	None	None	48836533	48846248	-1	None	FLJ10922
19	TMEM143	ENSG00000161558	ENST00000595720	retained_intron	KNOWN	None	25603	None	None	48846004	48867197	-1	None	FLJ10922
19	TMEM143	ENSG00000161558	ENST00000598926	protein_coding	NOVEL	None	25603	512	169	48846055	48866933	-1	None	FLJ10922
19	TMEM143	ENSG00000161558	ENST00000601332	retained_intron	KNOWN	None	25603	None	None	48846134	48867195	-1	None	FLJ10922
19	TMEM143	ENSG00000161558	ENST00000598258	processed_transcript	KNOWN	None	25603	None	None	48846602	48867197	-1	None	FLJ10922
19	TMEM143	ENSG00000161558	ENST00000597370	nonsense_mediated_decay	KNOWN	None	25603	282	93	48846671	48867178	-1	None	FLJ10922
19	TMEM143	ENSG00000161558	ENST00000599220	nonsense_mediated_decay	KNOWN	None	25603	309	102	48848526	48867195	-1	None	FLJ10922
19	TMEM143	ENSG00000161558	ENST00000601522	protein_coding	PUTATIVE	None	25603	406	134	48848530	48866931	-1	None	FLJ10922
19	TMEM143	ENSG00000161558	ENST00000593914	retained_intron	KNOWN	None	25603	None	None	48863133	48867195	-1	None	FLJ10922
19	TMEM143	ENSG00000161558	ENST00000598012	processed_transcript	KNOWN	None	25603	None	None	48863544	48867195	-1	None	FLJ10922
19	TMEM143	ENSG00000161558	ENST00000541566	protein_coding	KNOWN	None	25603	1050	349	48836363	48867195	-1	None	FLJ10922
19	TMEM143	ENSG00000161558	ENST00000436660	protein_coding	KNOWN	None	25603	1185	394	48836198	48867195	-1	None	FLJ10922
22	IL17RA	ENSG00000177663	ENST00000477874	processed_transcript	PUTATIVE	None	5985	None	None	17565844	17581359	1	IL17R	hIL-17R, IL-17RA, CDw217, CD217
22	IL17RA	ENSG00000177663	ENST00000319363	protein_coding	KNOWN	CCDS13739	5985	2601	866	17565849	17596583	1	IL17R	hIL-17R, IL-17RA, CDw217, CD217
22	IL17RA	ENSG00000177663	ENST00000459971	retained_intron	KNOWN	None	5985	None	None	17565947	17578399	1	IL17R	hIL-17R, IL-17RA, CDw217, CD217
11	ACTN3	ENSG00000248746	ENST00000502692	polymorphic_pseudogene	KNOWN	None	165	2835	944	66313866	66330797	1	None	None
11	ACTN3	ENSG00000248746	ENST00000513398	polymorphic_pseudogene	KNOWN	None	165	2706	901	66314312	66330800	1	None	None
11	ACTN3	ENSG00000248746	ENST00000511191	nonsense_mediated_decay	KNOWN	None	165	219	72	66314386	66322032	1	None	None
7	JAZF1	ENSG00000153814	ENST00000427814	protein_coding	PUTATIVE	None	28917	692	229	27870192	28031675	-1	None	TIP27, DKFZp761K2222, ZNF802
7	JAZF1	ENSG00000153814	ENST00000283928	protein_coding	KNOWN	CCDS5416	28917	732	243	27870192	28220362	-1	None	TIP27, DKFZp761K2222, ZNF802
7	JAZF1	ENSG00000153814	ENST00000466516	processed_transcript	KNOWN	None	28917	None	None	27872424	27903699	-1	None	TIP27, DKFZp761K2222, ZNF802
7	JAZF1	ENSG00000153814	ENST00000430432	protein_coding	PUTATIVE	None	28917	520	172	27872532	28111303	-1	None	TIP27, DKFZp761K2222, ZNF802
7	JAZF1	ENSG00000153814	ENST00000447620	protein_coding	PUTATIVE	None	28917	545	180	27872534	28031871	-1	None	TIP27, DKFZp761K2222, ZNF802
7	JAZF1	ENSG00000153814	ENST00000452993	nonsense_mediated_decay	KNOWN	None	28917	243	80	27880388	28220197	-1	None	TIP27, DKFZp761K2222, ZNF802
7	JAZF1	ENSG00000153814	ENST00000420835	protein_coding	PUTATIVE	None	28917	475	157	27886122	28060418	-1	None	TIP27, DKFZp761K2222, ZNF802
7	JAZF1	ENSG00000153814	ENST00000454041	nonsense_mediated_decay	KNOWN	None	28917	201	66	27934838	28220251	-1	None	TIP27, DKFZp761K2222, ZNF802
11	ZBTB44	ENSG00000196323	ENST00000445008	nonsense_mediated_decay	KNOWN	None	25001	1404	467	130096572	130184507	-1	BTBD15	HSPC063, ZNF851
11	ZBTB44	ENSG00000196323	ENST00000525842	protein_coding	KNOWN	CCDS44776	25001	1362	453	130096573	130184581	-1	BTBD15	HSPC063, ZNF851
11	ZBTB44	ENSG00000196323	ENST00000357899	protein_coding	KNOWN	None	25001	1713	570	130100864	130184486	-1	BTBD15	HSPC063, ZNF851
11	ZBTB44	ENSG00000196323	ENST00000530205	protein_coding	KNOWN	None	25001	1425	474	130100874	130131784	-1	BTBD15	HSPC063, ZNF851
11	ZBTB44	ENSG00000196323	ENST00000529982	protein_coding	PUTATIVE	None	25001	986	327	130101561	130131329	-1	BTBD15	HSPC063, ZNF851
11	ZBTB44	ENSG00000196323	ENST00000527478	protein_coding	PUTATIVE	None	25001	1786	594	130102587	130131757	-1	BTBD15	HSPC063, ZNF851
11	ZBTB44	ENSG00000196323	ENST00000525623	retained_intron	KNOWN	None	25001	None	None	130106526	130108486	-1	BTBD15	HSPC063, ZNF851
11	ZBTB44	ENSG00000196323	ENST00000528448	protein_coding	PUTATIVE	None	25001	539	178	130106905	130131007	-1	BTBD15	HSPC063, ZNF851
11	ZBTB44	ENSG00000196323	ENST00000529348	retained_intron	KNOWN	None	25001	None	None	130108710	130131826	-1	BTBD15	HSPC063, ZNF851
11	ZBTB44	ENSG00000196323	ENST00000397753	protein_coding	KNOWN	None	25001	1713	570	130096579	130184507	-1	BTBD15	HSPC063, ZNF851
10	None	ENSG00000216022	ENST00000401203	miRNA	NOVEL	None	None	None	None	53399503	53399592	-1	None	None
10	PRKG1-AS1	ENSG00000236671	ENST00000452247	antisense	KNOWN	None	45029	None	None	53990502	54061062	-1	None	None
10	PRKG1-AS1	ENSG00000236671	ENST00000426785	antisense	KNOWN	None	45029	None	None	54011725	54057675	-1	None	None
10	PRKG1-AS1	ENSG00000236671	ENST00000420193	antisense	KNOWN	None	45029	None	None	54060563	54073888	-1	None	None
17	ITGA3	ENSG00000005884	ENST00000506401	nonsense_mediated_decay	KNOWN	None	6139	429	142	48133332	48154359	1	MSK18	CD49c, VLA3a, VCA-2, GAP-B3
17	ITGA3	ENSG00000005884	ENST00000505306	retained_intron	KNOWN	None	6139	None	None	48133432	48167844	1	MSK18	CD49c, VLA3a, VCA-2, GAP-B3
17	ITGA3	ENSG00000005884	ENST00000320031	protein_coding	KNOWN	CCDS11558	6139	3156	1051	48133474	48167844	1	MSK18	CD49c, VLA3a, VCA-2, GAP-B3
17	ITGA3	ENSG00000005884	ENST00000007722	protein_coding	NOVEL	CCDS11557	6139	3201	1066	48133804	48167093	1	MSK18	CD49c, VLA3a, VCA-2, GAP-B3
17	ITGA3	ENSG00000005884	ENST00000508100	retained_intron	KNOWN	None	6139	None	None	48133851	48142153	1	MSK18	CD49c, VLA3a, VCA-2, GAP-B3
17	ITGA3	ENSG00000005884	ENST00000570989	retained_intron	KNOWN	None	6139	None	None	48140902	48143396	1	MSK18	CD49c, VLA3a, VCA-2, GAP-B3
17	ITGA3	ENSG00000005884	ENST00000512553	protein_coding	NOVEL	None	6139	351	116	48148237	48151878	1	MSK18	CD49c, VLA3a, VCA-2, GAP-B3
17	ITGA3	ENSG00000005884	ENST00000505552	retained_intron	KNOWN	None	6139	None	None	48149104	48151575	1	MSK18	CD49c, VLA3a, VCA-2, GAP-B3
17	ITGA3	ENSG00000005884	ENST00000510809	nonsense_mediated_decay	KNOWN	None	6139	253	83	48149524	48153064	1	MSK18	CD49c, VLA3a, VCA-2, GAP-B3
17	ITGA3	ENSG00000005884	ENST00000505612	retained_intron	KNOWN	None	6139	None	None	48152824	48154097	1	MSK18	CD49c, VLA3a, VCA-2, GAP-B3
17	ITGA3	ENSG00000005884	ENST00000506827	protein_coding	PUTATIVE	None	6139	664	220	48153989	48167845	1	MSK18	CD49c, VLA3a, VCA-2, GAP-B3
17	ITGA3	ENSG00000005884	ENST00000507771	retained_intron	KNOWN	None	6139	None	None	48154764	48156380	1	MSK18	CD49c, VLA3a, VCA-2, GAP-B3
17	ITGA3	ENSG00000005884	ENST00000515147	retained_intron	KNOWN	None	6139	None	None	48155368	48156847	1	MSK18	CD49c, VLA3a, VCA-2, GAP-B3
17	ITGA3	ENSG00000005884	ENST00000504417	nonsense_mediated_decay	KNOWN	None	6139	89	28	48157681	48158744	1	MSK18	CD49c, VLA3a, VCA-2, GAP-B3
17	ITGA3	ENSG00000005884	ENST00000506437	retained_intron	KNOWN	None	6139	None	None	48163693	48167845	1	MSK18	CD49c, VLA3a, VCA-2, GAP-B3
17	ITGA3	ENSG00000005884	ENST00000514834	retained_intron	KNOWN	None	6139	None	None	48165577	48167179	1	MSK18	CD49c, VLA3a, VCA-2, GAP-B3
17	ITGA3	ENSG00000005884	ENST00000544892	protein_coding	KNOWN	None	6139	885	294	48133339	48154359	1	MSK18	CD49c, VLA3a, VCA-2, GAP-B3
HSCHR6_MHC_QBL	TRIM27	ENSG00000215641	ENST00000400720	protein_coding	KNOWN	None	9975	1542	513	28870783	28891770	-1	RFP	RNF76
HSCHR6_MHC_QBL	TRIM27	ENSG00000215641	ENST00000417660	protein_coding	KNOWN	None	9975	1077	358	28870783	28891769	-1	RFP	RNF76
HSCHR6_MHC_QBL	TRIM27	ENSG00000215641	ENST00000430208	protein_coding	KNOWN	None	9975	745	247	28870783	28876770	-1	RFP	RNF76
HSCHR6_MHC_QBL	TRIM27	ENSG00000215641	ENST00000495323	processed_transcript	KNOWN	None	9975	None	None	28870784	28891694	-1	RFP	RNF76
HSCHR6_MHC_QBL	TRIM27	ENSG00000215641	ENST00000487609	processed_transcript	KNOWN	None	9975	None	None	28872255	28875365	-1	RFP	RNF76
HSCHR6_MHC_QBL	TRIM27	ENSG00000215641	ENST00000486244	processed_transcript	KNOWN	None	9975	None	None	28879088	28889757	-1	RFP	RNF76
HSCHR6_MHC_QBL	TRIM27	ENSG00000215641	ENST00000471067	processed_transcript	KNOWN	None	9975	None	None	28882557	28887964	-1	RFP	RNF76
16	THAP11	ENSG00000168286	ENST00000303596	protein_coding	KNOWN	CCDS10847	23194	945	314	67876213	67878097	1	None	HRIHFB2206, CTG-B45d, CTG-B43a
HSCHR6_MHC_COX	HLA-DPB1	ENSG00000230708	ENST00000383102	protein_coding	KNOWN	None	4940	777	258	32965679	32976889	1	HLA-DP1B	None
HSCHR6_MHC_COX	HLA-DPB1	ENSG00000230708	ENST00000441857	protein_coding	KNOWN	None	4940	687	228	32965725	32976889	1	HLA-DP1B	None
HSCHR6_MHC_COX	HLA-DPB1	ENSG00000230708	ENST00000476677	retained_intron	KNOWN	None	4940	None	None	32965763	32970984	1	HLA-DP1B	None
HSCHR6_MHC_COX	HLA-DPB1	ENSG00000230708	ENST00000492916	processed_transcript	KNOWN	None	4940	None	None	32970138	32973754	1	HLA-DP1B	None
HSCHR6_MHC_COX	HLA-DPB1	ENSG00000230708	ENST00000487685	processed_transcript	KNOWN	None	4940	None	None	32970138	32974645	1	HLA-DP1B	None
HSCHR6_MHC_COX	HLA-DPB1	ENSG00000230708	ENST00000488413	processed_transcript	KNOWN	None	4940	None	None	32970195	32974919	1	HLA-DP1B	None
HSCHR6_MHC_COX	HLA-DPB1	ENSG00000230708	ENST00000450474	protein_coding	KNOWN	None	4940	688	228	32970239	32975577	1	HLA-DP1B	None
HSCHR6_MHC_COX	HLA-DPB1	ENSG00000230708	ENST00000434121	protein_coding	KNOWN	None	4940	707	234	32970424	32976889	1	HLA-DP1B	None
HSCHR6_MHC_COX	HLA-DPB1	ENSG00000230708	ENST00000478786	processed_transcript	KNOWN	None	4940	None	None	32970693	32973642	1	HLA-DP1B	None
HSCHR6_MHC_COX	HLA-DPB1	ENSG00000230708	ENST00000548608	protein_coding	KNOWN	None	4940	750	249	32965744	32976887	1	HLA-DP1B	None
HSCHR6_MHC_COX	HLA-DPB1	ENSG00000230708	ENST00000551599	protein_coding	KNOWN	None	4940	249	82	32965744	32976887	1	HLA-DP1B	None
7	EFCAB10	ENSG00000185055	ENST00000469099	processed_transcript	KNOWN	None	34531	None	None	105205567	105231967	-1	None	None
7	EFCAB10	ENSG00000185055	ENST00000480514	protein_coding	KNOWN	None	34531	384	127	105205575	105221947	-1	None	None
7	EFCAB10	ENSG00000185055	ENST00000485614	protein_coding	PUTATIVE	None	34531	450	149	105205680	105221943	-1	None	None
7	EFCAB10	ENSG00000185055	ENST00000486180	protein_coding	NOVEL	None	34531	396	131	105206770	105221933	-1	None	None
7	EFCAB10	ENSG00000185055	ENST00000490493	processed_transcript	KNOWN	None	34531	None	None	105207549	105241322	-1	None	None
7	EFCAB10	ENSG00000185055	ENST00000460135	protein_coding	NOVEL	None	34531	231	76	105207642	105222137	-1	None	None
X	SCML2	ENSG00000102098	ENST00000420857	protein_coding	KNOWN	None	10581	377	124	18257434	18266005	-1	None	None
X	SCML2	ENSG00000102098	ENST00000251900	protein_coding	KNOWN	CCDS14185	10581	2103	700	18257434	18372847	-1	None	None
X	SCML2	ENSG00000102098	ENST00000491988	processed_transcript	KNOWN	None	10581	None	None	18257505	18259345	-1	None	None
X	SCML2	ENSG00000102098	ENST00000398048	protein_coding	KNOWN	None	10581	1038	345	18259243	18306985	-1	None	None
19	CYP4F8	ENSG00000186526	ENST00000592615	processed_transcript	KNOWN	None	2648	None	None	15726029	15733122	1	None	None
19	CYP4F8	ENSG00000186526	ENST00000443973	processed_transcript	KNOWN	None	2648	None	None	15726029	15740035	1	None	None
19	CYP4F8	ENSG00000186526	ENST00000325723	processed_transcript	KNOWN	None	2648	None	None	15726029	15740282	1	None	None
19	CYP4F8	ENSG00000186526	ENST00000590209	retained_intron	KNOWN	None	2648	None	None	15726030	15729608	1	None	None
19	CYP4F8	ENSG00000186526	ENST00000589019	processed_transcript	KNOWN	None	2648	None	None	15726032	15740168	1	None	None
19	CYP4F8	ENSG00000186526	ENST00000589787	retained_intron	KNOWN	None	2648	None	None	15726032	15740262	1	None	None
19	CYP4F8	ENSG00000186526	ENST00000589778	processed_transcript	KNOWN	None	2648	None	None	15726058	15740398	1	None	None
19	CYP4F8	ENSG00000186526	ENST00000587680	retained_intron	KNOWN	None	2648	None	None	15732393	15734185	1	None	None
19	CYP4F8	ENSG00000186526	ENST00000589927	retained_intron	KNOWN	None	2648	None	None	15733763	15739246	1	None	None
19	CYP4F8	ENSG00000186526	ENST00000585349	retained_intron	KNOWN	None	2648	None	None	15734362	15740259	1	None	None
19	CYP4F8	ENSG00000186526	ENST00000590745	retained_intron	KNOWN	None	2648	None	None	15737983	15741448	1	None	None
19	CYP4F8	ENSG00000186526	ENST00000589722	processed_transcript	KNOWN	None	2648	None	None	15739159	15740445	1	None	None
19	CYP4F8	ENSG00000186526	ENST00000441682	processed_transcript	KNOWN	None	2648	None	None	15726029	15740448	1	None	None
3	DENND6A	ENSG00000174839	ENST00000311128	protein_coding	KNOWN	CCDS33773	26635	1827	608	57611184	57678816	-1	FAM116A	FLJ34969, AFI1A
3	DENND6A	ENSG00000174839	ENST00000471531	protein_coding	PUTATIVE	None	26635	376	124	57616076	57619058	-1	FAM116A	FLJ34969, AFI1A
3	DENND6A	ENSG00000174839	ENST00000480710	retained_intron	KNOWN	None	26635	None	None	57616466	57616911	-1	FAM116A	FLJ34969, AFI1A
3	DENND6A	ENSG00000174839	ENST00000477344	protein_coding	NOVEL	None	26635	503	166	57620431	57646553	-1	FAM116A	FLJ34969, AFI1A
3	DENND6A	ENSG00000174839	ENST00000487662	retained_intron	KNOWN	None	26635	None	None	57643378	57651921	-1	FAM116A	FLJ34969, AFI1A
3	DENND6A	ENSG00000174839	ENST00000464875	retained_intron	KNOWN	None	26635	None	None	57651688	57678571	-1	FAM116A	FLJ34969, AFI1A
10	PTGES3P4	ENSG00000236937	ENST00000426243	processed_pseudogene	KNOWN	None	43825	None	None	104605352	104605707	1	None	None
12	CCDC62	ENSG00000130783	ENST00000253079	protein_coding	KNOWN	CCDS9238	30723	2055	684	123258874	123312075	1	None	TSP-NY, FLJ40344, CT109, ERAP75
12	CCDC62	ENSG00000130783	ENST00000392441	protein_coding	KNOWN	None	30723	2049	682	123259073	123311758	1	None	TSP-NY, FLJ40344, CT109, ERAP75
12	CCDC62	ENSG00000130783	ENST00000341952	nonsense_mediated_decay	KNOWN	None	30723	2049	682	123259075	123311931	1	None	TSP-NY, FLJ40344, CT109, ERAP75
12	CCDC62	ENSG00000130783	ENST00000539171	protein_coding	PUTATIVE	None	30723	192	63	123259079	123273358	1	None	TSP-NY, FLJ40344, CT109, ERAP75
12	CCDC62	ENSG00000130783	ENST00000537566	protein_coding	PUTATIVE	None	30723	1338	445	123261105	123311925	1	None	TSP-NY, FLJ40344, CT109, ERAP75
12	CCDC62	ENSG00000130783	ENST00000392440	protein_coding	KNOWN	None	30723	1338	445	123265787	123311929	1	None	TSP-NY, FLJ40344, CT109, ERAP75
HSCHR6_MHC_QBL	VPS52	ENSG00000206286	ENST00000497240	nonsense_mediated_decay	KNOWN	None	10518	267	88	33146871	33168492	-1	SACM2L	ARE1
HSCHR6_MHC_QBL	VPS52	ENSG00000206286	ENST00000383210	protein_coding	KNOWN	None	10518	2172	723	33146871	33168510	-1	SACM2L	ARE1
HSCHR6_MHC_QBL	VPS52	ENSG00000206286	ENST00000489236	processed_transcript	KNOWN	None	10518	None	None	33146871	33168663	-1	SACM2L	ARE1
HSCHR6_MHC_QBL	VPS52	ENSG00000206286	ENST00000462081	processed_transcript	PUTATIVE	None	10518	None	None	33147205	33160242	-1	SACM2L	ARE1
HSCHR6_MHC_QBL	VPS52	ENSG00000206286	ENST00000463476	processed_transcript	PUTATIVE	None	10518	None	None	33147410	33160932	-1	SACM2L	ARE1
HSCHR6_MHC_QBL	VPS52	ENSG00000206286	ENST00000470823	processed_transcript	KNOWN	None	10518	None	None	33148516	33161193	-1	SACM2L	ARE1
HSCHR6_MHC_QBL	VPS52	ENSG00000206286	ENST00000474439	retained_intron	KNOWN	None	10518	None	None	33160177	33160851	-1	SACM2L	ARE1
HSCHR6_MHC_QBL	VPS52	ENSG00000206286	ENST00000461168	retained_intron	KNOWN	None	10518	None	None	33160708	33163894	-1	SACM2L	ARE1
HSCHR6_MHC_QBL	VPS52	ENSG00000206286	ENST00000473509	retained_intron	KNOWN	None	10518	None	None	33164095	33164782	-1	SACM2L	ARE1
HSCHR6_MHC_QBL	VPS52	ENSG00000206286	ENST00000472296	processed_transcript	KNOWN	None	10518	None	None	33164499	33168393	-1	SACM2L	ARE1
HSCHR6_MHC_QBL	VPS52	ENSG00000206286	ENST00000497193	processed_transcript	KNOWN	None	10518	None	None	33164500	33168500	-1	SACM2L	ARE1
10	RNU6-372P	ENSG00000201080	ENST00000364210	snRNA	KNOWN	None	47335	None	None	104628178	104628276	1	None	None
13	SMIM2	ENSG00000139656	ENST00000400419	protein_coding	KNOWN	None	28776	258	85	44717679	44735393	-1	C13orf44	MGC5590
16	NUTF2	ENSG00000102898	ENST00000219169	protein_coding	KNOWN	CCDS10848	13722	384	127	67880635	67906470	1	None	NTF2, PP15
16	NUTF2	ENSG00000102898	ENST00000568390	retained_intron	KNOWN	None	13722	None	None	67880826	67902644	1	None	NTF2, PP15
16	NUTF2	ENSG00000102898	ENST00000568233	retained_intron	KNOWN	None	13722	None	None	67880838	67902741	1	None	NTF2, PP15
16	NUTF2	ENSG00000102898	ENST00000567105	protein_coding	KNOWN	None	13722	323	106	67880838	67904755	1	None	NTF2, PP15
16	NUTF2	ENSG00000102898	ENST00000569436	protein_coding	KNOWN	CCDS10848	13722	384	127	67881064	67905226	1	None	NTF2, PP15
16	NUTF2	ENSG00000102898	ENST00000568396	protein_coding	KNOWN	CCDS10848	13722	384	127	67881114	67905226	1	None	NTF2, PP15
16	NUTF2	ENSG00000102898	ENST00000570026	retained_intron	KNOWN	None	13722	None	None	67881245	67902399	1	None	NTF2, PP15
5	FCHO2	ENSG00000157107	ENST00000430046	protein_coding	KNOWN	CCDS47230	25180	2433	810	72251808	72386349	1	None	None
5	FCHO2	ENSG00000157107	ENST00000507345	protein_coding	NOVEL	None	25180	695	230	72251893	72313109	1	None	None
5	FCHO2	ENSG00000157107	ENST00000512348	protein_coding	NOVEL	CCDS54868	25180	2334	777	72251896	72384255	1	None	None
5	FCHO2	ENSG00000157107	ENST00000287761	protein_coding	KNOWN	None	25180	1137	378	72251898	72333941	1	None	None
5	FCHO2	ENSG00000157107	ENST00000511264	retained_intron	KNOWN	None	25180	None	None	72330295	72333019	1	None	None
5	FCHO2	ENSG00000157107	ENST00000503302	retained_intron	KNOWN	None	25180	None	None	72346927	72348683	1	None	None
5	FCHO2	ENSG00000157107	ENST00000508431	retained_intron	KNOWN	None	25180	None	None	72354248	72373267	1	None	None
5	FCHO2	ENSG00000157107	ENST00000341845	protein_coding	KNOWN	None	25180	2433	810	72251808	72386348	1	None	None
10	None	ENSG00000235266	ENST00000438729	processed_pseudogene	KNOWN	None	None	None	None	104647631	104647945	-1	None	None
10	None	ENSG00000237827	ENST00000445539	processed_pseudogene	KNOWN	None	None	None	None	104884774	104885173	-1	None	None
14	TIMM9	ENSG00000100575	ENST00000395159	protein_coding	KNOWN	CCDS9735	11819	270	89	58875212	58894332	-1	None	TIM9A
14	TIMM9	ENSG00000100575	ENST00000216463	processed_transcript	KNOWN	None	11819	None	None	58875321	58894245	-1	None	TIM9A
14	TIMM9	ENSG00000100575	ENST00000555593	protein_coding	KNOWN	CCDS9735	11819	270	89	58875366	58894223	-1	None	TIM9A
14	TIMM9	ENSG00000100575	ENST00000556007	protein_coding	PUTATIVE	None	11819	201	66	58875382	58893832	-1	None	TIM9A
14	TIMM9	ENSG00000100575	ENST00000557397	processed_transcript	KNOWN	None	11819	None	None	58875530	58893889	-1	None	TIM9A
14	TIMM9	ENSG00000100575	ENST00000555061	protein_coding	KNOWN	CCDS9735	11819	270	89	58875592	58878831	-1	None	TIM9A
14	TIMM9	ENSG00000100575	ENST00000556367	processed_transcript	KNOWN	None	11819	None	None	58875598	58893892	-1	None	TIM9A
14	TIMM9	ENSG00000100575	ENST00000555930	processed_transcript	KNOWN	None	11819	None	None	58875697	58893864	-1	None	TIM9A
14	TIMM9	ENSG00000100575	ENST00000555404	protein_coding	KNOWN	CCDS9735	11819	270	89	58875752	58893905	-1	None	TIM9A
14	TIMM9	ENSG00000100575	ENST00000555097	protein_coding	KNOWN	None	11819	133	43	58877563	58893879	-1	None	TIM9A
16	ROGDI	ENSG00000067836	ENST00000322048	protein_coding	KNOWN	CCDS10523	29478	864	287	4846969	4852951	-1	None	FLJ22386
16	ROGDI	ENSG00000067836	ENST00000591292	retained_intron	KNOWN	None	29478	None	None	4846970	4852163	-1	None	FLJ22386
16	ROGDI	ENSG00000067836	ENST00000587843	nonsense_mediated_decay	KNOWN	None	29478	207	68	4846970	4852634	-1	None	FLJ22386
16	ROGDI	ENSG00000067836	ENST00000587377	nonsense_mediated_decay	KNOWN	None	29478	693	230	4846988	4852616	-1	None	FLJ22386
16	ROGDI	ENSG00000067836	ENST00000588201	nonsense_mediated_decay	KNOWN	None	29478	360	119	4847248	4852674	-1	None	FLJ22386
16	ROGDI	ENSG00000067836	ENST00000592019	protein_coding	PUTATIVE	None	29478	220	72	4847310	4850553	-1	None	FLJ22386
16	ROGDI	ENSG00000067836	ENST00000586504	protein_coding	NOVEL	None	29478	651	216	4847404	4851302	-1	None	FLJ22386
16	ROGDI	ENSG00000067836	ENST00000591392	protein_coding	NOVEL	None	29478	761	252	4847704	4852622	-1	None	FLJ22386
16	ROGDI	ENSG00000067836	ENST00000587711	protein_coding	PUTATIVE	None	29478	514	170	4847708	4852628	-1	None	FLJ22386
16	ROGDI	ENSG00000067836	ENST00000586153	protein_coding	PUTATIVE	None	29478	366	121	4847722	4850579	-1	None	FLJ22386
16	ROGDI	ENSG00000067836	ENST00000586336	processed_transcript	KNOWN	None	29478	None	None	4847743	4852185	-1	None	FLJ22386
16	ROGDI	ENSG00000067836	ENST00000589543	retained_intron	KNOWN	None	29478	None	None	4847781	4851660	-1	None	FLJ22386
16	ROGDI	ENSG00000067836	ENST00000585653	retained_intron	KNOWN	None	29478	None	None	4848505	4852631	-1	None	FLJ22386
16	ROGDI	ENSG00000067836	ENST00000585871	retained_intron	KNOWN	None	29478	None	None	4851030	4852881	-1	None	FLJ22386
16	ROGDI	ENSG00000067836	ENST00000590198	retained_intron	KNOWN	None	29478	None	None	4851334	4852666	-1	None	FLJ22386
16	ROGDI	ENSG00000067836	ENST00000592112	retained_intron	KNOWN	None	29478	None	None	4851817	4852857	-1	None	FLJ22386
22	THOC5	ENSG00000100296	ENST00000490103	protein_coding	KNOWN	CCDS13859	19074	2052	683	29901868	29949771	-1	C22orf19	PK1.3, KIAA0983, Fmip, fSAP79
22	THOC5	ENSG00000100296	ENST00000442555	nonsense_mediated_decay	KNOWN	None	19074	1032	343	29904316	29950243	-1	C22orf19	PK1.3, KIAA0983, Fmip, fSAP79
22	THOC5	ENSG00000100296	ENST00000472164	retained_intron	KNOWN	None	19074	None	None	29904318	29907431	-1	C22orf19	PK1.3, KIAA0983, Fmip, fSAP79
22	THOC5	ENSG00000100296	ENST00000358079	nonsense_mediated_decay	KNOWN	None	19074	384	127	29904320	29945146	-1	C22orf19	PK1.3, KIAA0983, Fmip, fSAP79
22	THOC5	ENSG00000100296	ENST00000397873	protein_coding	KNOWN	CCDS13859	19074	2052	683	29904347	29949755	-1	C22orf19	PK1.3, KIAA0983, Fmip, fSAP79
22	THOC5	ENSG00000100296	ENST00000484924	retained_intron	KNOWN	None	19074	None	None	29914995	29932727	-1	C22orf19	PK1.3, KIAA0983, Fmip, fSAP79
22	THOC5	ENSG00000100296	ENST00000443089	protein_coding	PUTATIVE	None	19074	786	261	29921827	29938877	-1	C22orf19	PK1.3, KIAA0983, Fmip, fSAP79
22	THOC5	ENSG00000100296	ENST00000492707	retained_intron	KNOWN	None	19074	None	None	29924372	29935458	-1	C22orf19	PK1.3, KIAA0983, Fmip, fSAP79
22	THOC5	ENSG00000100296	ENST00000488052	retained_intron	KNOWN	None	19074	None	None	29927542	29932727	-1	C22orf19	PK1.3, KIAA0983, Fmip, fSAP79
22	THOC5	ENSG00000100296	ENST00000475187	retained_intron	KNOWN	None	19074	None	None	29930527	29945133	-1	C22orf19	PK1.3, KIAA0983, Fmip, fSAP79
22	THOC5	ENSG00000100296	ENST00000440771	protein_coding	KNOWN	None	19074	671	222	29932656	29949644	-1	C22orf19	PK1.3, KIAA0983, Fmip, fSAP79
22	THOC5	ENSG00000100296	ENST00000455450	protein_coding	PUTATIVE	None	19074	579	192	29935327	29941133	-1	C22orf19	PK1.3, KIAA0983, Fmip, fSAP79
22	THOC5	ENSG00000100296	ENST00000428374	protein_coding	KNOWN	None	19074	485	160	29935433	29949669	-1	C22orf19	PK1.3, KIAA0983, Fmip, fSAP79
22	THOC5	ENSG00000100296	ENST00000414902	nonsense_mediated_decay	KNOWN	None	19074	132	43	29939418	29949730	-1	C22orf19	PK1.3, KIAA0983, Fmip, fSAP79
22	THOC5	ENSG00000100296	ENST00000418021	protein_coding	KNOWN	None	19074	280	92	29939492	29951205	-1	C22orf19	PK1.3, KIAA0983, Fmip, fSAP79
22	THOC5	ENSG00000100296	ENST00000397872	protein_coding	KNOWN	CCDS13859	19074	2052	683	29904157	29949644	-1	C22orf19	PK1.3, KIAA0983, Fmip, fSAP79
22	THOC5	ENSG00000100296	ENST00000397871	protein_coding	KNOWN	CCDS13859	19074	2052	683	29904157	29949644	-1	C22orf19	PK1.3, KIAA0983, Fmip, fSAP79
11	None	ENSG00000268351	ENST00000602104	protein_coding	NOVEL	None	None	465	154	69587254	69587718	-1	None	None
19	USHBP1	ENSG00000130307	ENST00000252597	protein_coding	KNOWN	CCDS12353	24058	2112	703	17359985	17375605	-1	None	MCC2, AIEBP, FLJ38709
19	USHBP1	ENSG00000130307	ENST00000431146	protein_coding	PUTATIVE	None	24058	1920	639	17360963	17375533	-1	None	MCC2, AIEBP, FLJ38709
19	USHBP1	ENSG00000130307	ENST00000597928	nonsense_mediated_decay	KNOWN	None	24058	207	68	17360967	17375523	-1	None	MCC2, AIEBP, FLJ38709
19	USHBP1	ENSG00000130307	ENST00000324554	nonsense_mediated_decay	KNOWN	None	24058	1152	383	17360968	17375537	-1	None	MCC2, AIEBP, FLJ38709
19	USHBP1	ENSG00000130307	ENST00000598570	processed_transcript	PUTATIVE	None	24058	None	None	17373393	17375558	-1	None	MCC2, AIEBP, FLJ38709
19	USHBP1	ENSG00000130307	ENST00000595993	processed_transcript	KNOWN	None	24058	None	None	17373593	17375562	-1	None	MCC2, AIEBP, FLJ38709
19	USHBP1	ENSG00000130307	ENST00000594190	protein_coding	KNOWN	None	24058	365	120	17373638	17375533	-1	None	MCC2, AIEBP, FLJ38709
19	USHBP1	ENSG00000130307	ENST00000596436	retained_intron	KNOWN	None	24058	None	None	17374642	17375546	-1	None	MCC2, AIEBP, FLJ38709
19	USHBP1	ENSG00000130307	ENST00000600286	retained_intron	KNOWN	None	24058	None	None	17374649	17375554	-1	None	MCC2, AIEBP, FLJ38709
19	USHBP1	ENSG00000130307	ENST00000598309	protein_coding	KNOWN	None	24058	98	31	17374916	17393595	-1	None	MCC2, AIEBP, FLJ38709
11	FGF4	ENSG00000075388	ENST00000168712	protein_coding	KNOWN	CCDS8194	3682	621	206	69587797	69590171	-1	HSTF1	K-FGF, HBGF-4, HST, HST-1, KFGF
11	FGF4	ENSG00000075388	ENST00000538040	processed_transcript	PUTATIVE	None	3682	None	None	69588117	69589932	-1	HSTF1	K-FGF, HBGF-4, HST, HST-1, KFGF
17	CRYBA1	ENSG00000108255	ENST00000225387	protein_coding	KNOWN	CCDS11249	2394	648	215	27573881	27581501	1	CRYB1	None
17	CRYBA1	ENSG00000108255	ENST00000484605	nonsense_mediated_decay	KNOWN	None	2394	227	74	27573892	27581512	1	CRYB1	None
6	DNAH8	ENSG00000124721	ENST00000449981	protein_coding	KNOWN	None	2952	12567	4188	38683117	38939856	1	None	hdhc9
6	DNAH8	ENSG00000124721	ENST00000373278	protein_coding	PUTATIVE	None	2952	651	216	38684337	38702290	1	None	hdhc9
6	DNAH8	ENSG00000124721	ENST00000327475	protein_coding	PUTATIVE	None	2952	14088	4695	38690622	38998295	1	None	hdhc9
6	DNAH8	ENSG00000124721	ENST00000359357	protein_coding	KNOWN	None	2952	13473	4490	38690898	38998301	1	None	hdhc9
6	DNAH8	ENSG00000124721	ENST00000394393	protein_coding	NOVEL	None	2952	404	133	38831745	38838266	1	None	hdhc9
6	DNAH8	ENSG00000124721	ENST00000441566	protein_coding	KNOWN	None	2952	13365	4454	38702291	38998168	1	None	hdhc9
X	ZFX	ENSG00000005889	ENST00000497813	processed_transcript	KNOWN	None	12869	None	None	24167290	24168936	1	None	ZNF926
X	ZFX	ENSG00000005889	ENST00000428571	protein_coding	KNOWN	None	12869	406	134	24167746	24197647	1	None	ZNF926
X	ZFX	ENSG00000005889	ENST00000419690	protein_coding	KNOWN	None	12869	95	30	24167846	24197336	1	None	ZNF926
X	ZFX	ENSG00000005889	ENST00000379177	protein_coding	KNOWN	CCDS14211	12869	2418	805	24167862	24234206	1	None	ZNF926
X	ZFX	ENSG00000005889	ENST00000304543	protein_coding	KNOWN	CCDS14211	12869	2418	805	24167907	24229817	1	None	ZNF926
X	ZFX	ENSG00000005889	ENST00000459724	processed_transcript	KNOWN	None	12869	None	None	24167971	24227118	1	None	ZNF926
X	ZFX	ENSG00000005889	ENST00000480195	processed_transcript	KNOWN	None	12869	None	None	24169543	24191031	1	None	ZNF926
X	ZFX	ENSG00000005889	ENST00000338565	protein_coding	KNOWN	None	12869	2268	755	24190832	24230103	1	None	ZNF926
X	ZFX	ENSG00000005889	ENST00000474385	processed_transcript	KNOWN	None	12869	None	None	24190873	24197667	1	None	ZNF926
X	ZFX	ENSG00000005889	ENST00000379188	protein_coding	KNOWN	CCDS14211	12869	2418	805	24167841	24234372	1	None	ZNF926
X	ZFX	ENSG00000005889	ENST00000540034	protein_coding	KNOWN	None	12869	2535	844	24169879	24229716	1	None	ZNF926
X	ZFX	ENSG00000005889	ENST00000539115	protein_coding	KNOWN	CCDS55390	12869	1731	576	24167762	24234372	1	None	ZNF926
22	PARVG	ENSG00000138964	ENST00000453888	processed_transcript	KNOWN	None	14654	None	None	44568864	44583052	1	None	None
22	PARVG	ENSG00000138964	ENST00000444313	protein_coding	KNOWN	CCDS14057	14654	996	331	44576770	44602535	1	None	None
22	PARVG	ENSG00000138964	ENST00000416291	protein_coding	KNOWN	None	14654	79	25	44576902	44579288	1	None	None
22	PARVG	ENSG00000138964	ENST00000475485	retained_intron	KNOWN	None	14654	None	None	44577216	44602502	1	None	None
22	PARVG	ENSG00000138964	ENST00000417767	protein_coding	KNOWN	None	14654	90	29	44577278	44579299	1	None	None
22	PARVG	ENSG00000138964	ENST00000356909	nonsense_mediated_decay	KNOWN	None	14654	564	187	44577280	44602515	1	None	None
22	PARVG	ENSG00000138964	ENST00000471836	retained_intron	KNOWN	None	14654	None	None	44577630	44581994	1	None	None
22	PARVG	ENSG00000138964	ENST00000466375	protein_coding	PUTATIVE	None	14654	105	34	44577741	44580141	1	None	None
22	PARVG	ENSG00000138964	ENST00000468564	retained_intron	KNOWN	None	14654	None	None	44581406	44603038	1	None	None
22	PARVG	ENSG00000138964	ENST00000472551	processed_transcript	KNOWN	None	14654	None	None	44591978	44615413	1	None	None
22	PARVG	ENSG00000138964	ENST00000422871	protein_coding	KNOWN	CCDS14057	14654	996	331	44568836	44603034	1	None	None
22	PARVG	ENSG00000138964	ENST00000415224	protein_coding	KNOWN	CCDS14057	14654	996	331	44577257	44603034	1	None	None
18	PSMG2	ENSG00000128789	ENST00000317615	protein_coding	KNOWN	CCDS11862	24929	795	264	12702425	12725739	1	TNFSF5IP1	HCCA3, MDS003, MGC15092, CLAST3, HsT1707, PAC2
18	PSMG2	ENSG00000128789	ENST00000590217	protein_coding	PUTATIVE	None	24929	723	240	12703022	12724867	1	TNFSF5IP1	HCCA3, MDS003, MGC15092, CLAST3, HsT1707, PAC2
18	PSMG2	ENSG00000128789	ENST00000586587	nonsense_mediated_decay	KNOWN	None	24929	297	98	12703025	12725657	1	TNFSF5IP1	HCCA3, MDS003, MGC15092, CLAST3, HsT1707, PAC2
18	PSMG2	ENSG00000128789	ENST00000588824	retained_intron	KNOWN	None	24929	None	None	12724127	12725739	1	TNFSF5IP1	HCCA3, MDS003, MGC15092, CLAST3, HsT1707, PAC2
11	RDX	ENSG00000137710	ENST00000530749	nonsense_mediated_decay	KNOWN	CCDS58174	9944	1815	604	110045605	110167437	-1	DFNB24	None
11	RDX	ENSG00000137710	ENST00000528498	protein_coding	PUTATIVE	CCDS58174	9944	1815	604	110045605	110167437	-1	DFNB24	None
11	RDX	ENSG00000137710	ENST00000405097	protein_coding	PUTATIVE	CCDS58174	9944	1815	604	110066286	110167437	-1	DFNB24	None
11	RDX	ENSG00000137710	ENST00000528900	protein_coding	PUTATIVE	CCDS58171	9944	774	257	110066286	110167437	-1	DFNB24	None
11	RDX	ENSG00000137710	ENST00000530301	protein_coding	PUTATIVE	CCDS58173	9944	603	200	110066286	110167437	-1	DFNB24	None
11	RDX	ENSG00000137710	ENST00000527537	retained_intron	KNOWN	None	9944	None	None	110100172	110107396	-1	DFNB24	None
11	RDX	ENSG00000137710	ENST00000532461	retained_intron	KNOWN	None	9944	None	None	110100175	110108582	-1	DFNB24	None
11	RDX	ENSG00000137710	ENST00000343115	protein_coding	KNOWN	CCDS8343	9944	1752	583	110100175	110167447	-1	DFNB24	None
11	RDX	ENSG00000137710	ENST00000533961	retained_intron	KNOWN	None	9944	None	None	110102275	110104248	-1	DFNB24	None
11	RDX	ENSG00000137710	ENST00000530131	nonsense_mediated_decay	KNOWN	None	9944	159	52	110102276	110167339	-1	DFNB24	None
11	RDX	ENSG00000137710	ENST00000530085	protein_coding	NOVEL	None	9944	762	253	110102563	110108611	-1	DFNB24	None
11	RDX	ENSG00000137710	ENST00000529774	retained_intron	KNOWN	None	9944	None	None	110124670	110128933	-1	DFNB24	None
11	RDX	ENSG00000137710	ENST00000534683	protein_coding	PUTATIVE	None	9944	155	50	110126031	110167337	-1	DFNB24	None
11	RDX	ENSG00000137710	ENST00000532118	protein_coding	PUTATIVE	None	9944	445	147	110128904	110159116	-1	DFNB24	None
11	RDX	ENSG00000137710	ENST00000528556	nonsense_mediated_decay	KNOWN	None	9944	153	50	110134685	110167322	-1	DFNB24	None
11	RDX	ENSG00000137710	ENST00000533991	protein_coding	PUTATIVE	None	9944	349	115	110134770	110167365	-1	DFNB24	None
11	RDX	ENSG00000137710	ENST00000533678	nonsense_mediated_decay	KNOWN	None	9944	135	44	110135504	110167343	-1	DFNB24	None
11	RDX	ENSG00000137710	ENST00000544551	protein_coding	KNOWN	CCDS58172	9944	1344	447	110102276	110150443	-1	DFNB24	None
22	None	ENSG00000224027	ENST00000415655	lincRNA	KNOWN	None	None	None	None	27959800	27969534	-1	None	None
14	COCH	ENSG00000100473	ENST00000555117	retained_intron	KNOWN	None	2180	None	None	31343720	31344421	1	DFNA31, DFNA9	COCH-5B2
14	COCH	ENSG00000100473	ENST00000216361	protein_coding	KNOWN	CCDS9640	2180	1653	550	31343749	31359345	1	DFNA31, DFNA9	COCH-5B2
14	COCH	ENSG00000100473	ENST00000553772	nonsense_mediated_decay	KNOWN	None	2180	243	80	31343765	31353824	1	DFNA31, DFNA9	COCH-5B2
14	COCH	ENSG00000100473	ENST00000396618	protein_coding	KNOWN	CCDS9640	2180	1653	550	31343765	31359824	1	DFNA31, DFNA9	COCH-5B2
14	COCH	ENSG00000100473	ENST00000475087	protein_coding	PUTATIVE	None	2180	1485	494	31343778	31364271	1	DFNA31, DFNA9	COCH-5B2
14	COCH	ENSG00000100473	ENST00000556908	protein_coding	NOVEL	None	2180	581	192	31343951	31349940	1	DFNA31, DFNA9	COCH-5B2
14	COCH	ENSG00000100473	ENST00000555881	protein_coding	NOVEL	None	2180	606	201	31343969	31354826	1	DFNA31, DFNA9	COCH-5B2
14	COCH	ENSG00000100473	ENST00000460581	protein_coding	PUTATIVE	None	2180	1317	438	31343970	31359822	1	DFNA31, DFNA9	COCH-5B2
14	COCH	ENSG00000100473	ENST00000553833	retained_intron	KNOWN	None	2180	None	None	31346542	31349702	1	DFNA31, DFNA9	COCH-5B2
14	COCH	ENSG00000100473	ENST00000557065	nonsense_mediated_decay	KNOWN	None	2180	168	55	31346780	31354738	1	DFNA31, DFNA9	COCH-5B2
14	COCH	ENSG00000100473	ENST00000468826	protein_coding	NOVEL	None	2180	1304	433	31349793	31359822	1	DFNA31, DFNA9	COCH-5B2
14	COCH	ENSG00000100473	ENST00000382493	protein_coding	KNOWN	None	2180	1206	401	31349791	31359822	1	DFNA31, DFNA9	COCH-5B2
17	GALR2	ENSG00000182687	ENST00000329003	protein_coding	KNOWN	CCDS11739	4133	1164	387	74070875	74073622	1	None	GALNR2
7	None	ENSG00000231183	ENST00000472463	lincRNA	KNOWN	None	None	None	None	76531808	76540535	1	None	None
7	None	ENSG00000231183	ENST00000439318	sense_intronic	KNOWN	None	None	None	None	76540422	76548508	1	None	None
1	CSF1	ENSG00000184371	ENST00000527192	protein_coding	PUTATIVE	None	2432	451	149	110452864	110464502	1	None	M-CSF, MCSF, MGC31930
1	CSF1	ENSG00000184371	ENST00000525659	protein_coding	PUTATIVE	None	2432	340	112	110453128	110464535	1	None	M-CSF, MCSF, MGC31930
1	CSF1	ENSG00000184371	ENST00000357302	protein_coding	KNOWN	None	2432	358	118	110453227	110460047	1	None	M-CSF, MCSF, MGC31930
1	CSF1	ENSG00000184371	ENST00000329608	protein_coding	KNOWN	CCDS816	2432	1665	554	110453255	110473614	1	None	M-CSF, MCSF, MGC31930
1	CSF1	ENSG00000184371	ENST00000488198	protein_coding	NOVEL	None	2432	855	284	110453492	110466221	1	None	M-CSF, MCSF, MGC31930
1	CSF1	ENSG00000184371	ENST00000369802	protein_coding	KNOWN	CCDS816	2432	1665	554	110453521	110469365	1	None	M-CSF, MCSF, MGC31930
1	CSF1	ENSG00000184371	ENST00000420111	protein_coding	KNOWN	CCDS30797	2432	771	256	110453530	110471656	1	None	M-CSF, MCSF, MGC31930
1	CSF1	ENSG00000184371	ENST00000369801	protein_coding	KNOWN	CCDS817	2432	1317	438	110453608	110467820	1	None	M-CSF, MCSF, MGC31930
1	CSF1	ENSG00000184371	ENST00000526001	processed_transcript	KNOWN	None	2432	None	None	110458279	110465171	1	None	M-CSF, MCSF, MGC31930
1	CSF1	ENSG00000184371	ENST00000344188	protein_coding	KNOWN	CCDS817	2432	1317	438	110453233	110472355	1	None	M-CSF, MCSF, MGC31930
17	CACNB1	ENSG00000067191	ENST00000394303	protein_coding	KNOWN	CCDS42311	1401	1797	598	37329709	37353956	-1	CACNLB1	None
17	CACNB1	ENSG00000067191	ENST00000539338	retained_intron	KNOWN	None	1401	None	None	37330054	37350136	-1	CACNLB1	None
17	CACNB1	ENSG00000067191	ENST00000394310	protein_coding	KNOWN	CCDS45665	1401	1437	478	37333389	37353955	-1	CACNLB1	None
17	CACNB1	ENSG00000067191	ENST00000344140	protein_coding	KNOWN	CCDS11334	1401	1572	523	37333389	37353956	-1	CACNLB1	None
17	CACNB1	ENSG00000067191	ENST00000582544	retained_intron	KNOWN	None	1401	None	None	37333670	37334523	-1	CACNLB1	None
17	CACNB1	ENSG00000067191	ENST00000577582	processed_transcript	KNOWN	None	1401	None	None	37340578	37343692	-1	CACNLB1	None
17	CACNB1	ENSG00000067191	ENST00000536613	retained_intron	KNOWN	None	1401	None	None	37342676	37349746	-1	CACNLB1	None
17	CACNB1	ENSG00000067191	ENST00000492737	processed_transcript	KNOWN	None	1401	None	None	37342795	37350077	-1	CACNLB1	None
17	CACNB1	ENSG00000067191	ENST00000582877	processed_transcript	KNOWN	None	1401	None	None	37342795	37351324	-1	CACNLB1	None
17	CACNB1	ENSG00000067191	ENST00000582414	retained_intron	KNOWN	None	1401	None	None	37347868	37349746	-1	CACNLB1	None
17	CACNB1	ENSG00000067191	ENST00000577926	processed_transcript	KNOWN	None	1401	None	None	37348277	37351522	-1	CACNLB1	None
7	FDPSP7	ENSG00000231087	ENST00000429043	processed_pseudogene	KNOWN	None	33487	None	None	76597514	76598567	-1	FDPSL2B	None
17	RNF135	ENSG00000181481	ENST00000582674	processed_transcript	PUTATIVE	None	21158	None	None	29295803	29297325	1	None	MGC13061
17	RNF135	ENSG00000181481	ENST00000328381	protein_coding	KNOWN	CCDS11262	21158	1299	432	29297219	29326929	1	None	MGC13061
17	RNF135	ENSG00000181481	ENST00000443677	protein_coding	NOVEL	None	21158	489	162	29298002	29326388	1	None	MGC13061
17	RNF135	ENSG00000181481	ENST00000324689	protein_coding	KNOWN	CCDS11263	21158	633	210	29298041	29326927	1	None	MGC13061
17	RNF135	ENSG00000181481	ENST00000535306	protein_coding	KNOWN	CCDS54104	21158	861	286	29298078	29326929	1	None	MGC13061
17	RNF135	ENSG00000181481	ENST00000580444	protein_coding	NOVEL	None	21158	475	157	29298159	29324266	1	None	MGC13061
17	RNF135	ENSG00000181481	ENST00000434242	protein_coding	PUTATIVE	None	21158	257	84	29315095	29324546	1	None	MGC13061
16	FA2H	ENSG00000103089	ENST00000562145	retained_intron	KNOWN	None	21197	None	None	74746853	74751004	-1	FAXDC1, SPG35	FAAH, FLJ25287
16	FA2H	ENSG00000103089	ENST00000219368	protein_coding	KNOWN	CCDS10911	21197	1119	372	74746853	74808723	-1	FAXDC1, SPG35	FAAH, FLJ25287
16	FA2H	ENSG00000103089	ENST00000567683	nonsense_mediated_decay	KNOWN	None	21197	471	156	74747496	74808729	-1	FAXDC1, SPG35	FAAH, FLJ25287
16	FA2H	ENSG00000103089	ENST00000569949	protein_coding	PUTATIVE	None	21197	577	191	74752897	74775167	-1	FAXDC1, SPG35	FAAH, FLJ25287
16	FA2H	ENSG00000103089	ENST00000544337	protein_coding	KNOWN	None	21197	480	159	74747496	74808729	-1	FAXDC1, SPG35	FAAH, FLJ25287
7	None	ENSG00000236280	ENST00000421583	processed_pseudogene	KNOWN	None	None	None	None	76597663	76597835	1	None	None
3	ILDR1	ENSG00000145103	ENST00000273691	protein_coding	KNOWN	CCDS3008	28741	1509	502	121706170	121741030	-1	DFNB42	MGC50831
3	ILDR1	ENSG00000145103	ENST00000344209	protein_coding	KNOWN	CCDS56271	28741	1641	546	121706756	121741051	-1	DFNB42	MGC50831
3	ILDR1	ENSG00000145103	ENST00000393631	protein_coding	KNOWN	CCDS56270	28741	1374	457	121707177	121740969	-1	DFNB42	MGC50831
3	ILDR1	ENSG00000145103	ENST00000462014	protein_coding	KNOWN	None	28741	1545	514	121707193	121726148	-1	DFNB42	MGC50831
3	ILDR1	ENSG00000145103	ENST00000460554	processed_transcript	KNOWN	None	28741	None	None	121711996	121741045	-1	DFNB42	MGC50831
7	None	ENSG00000225703	ENST00000434531	lincRNA	KNOWN	None	None	None	None	76601996	76606278	-1	None	None
16	RNU6-359P	ENSG00000202336	ENST00000365466	snRNA	KNOWN	None	47322	None	None	68051613	68051720	-1	None	None
17	None	ENSG00000215067	ENST00000572385	nonsense_mediated_decay	KNOWN	None	None	111	36	6779954	6915650	-1	None	None
17	None	ENSG00000215067	ENST00000570562	nonsense_mediated_decay	KNOWN	None	None	111	36	6780030	6915657	-1	None	None
17	None	ENSG00000215067	ENST00000575889	protein_coding	PUTATIVE	None	None	320	105	6780107	6915636	-1	None	None
17	None	ENSG00000215067	ENST00000399541	protein_coding	PUTATIVE	None	None	177	58	6888428	6915653	-1	None	None
17	None	ENSG00000215067	ENST00000574377	protein_coding	PUTATIVE	None	None	270	89	6902466	6915650	-1	None	None
17	None	ENSG00000215067	ENST00000571010	nonsense_mediated_decay	KNOWN	None	None	54	17	6902629	6915657	-1	None	None
17	None	ENSG00000215067	ENST00000575727	protein_coding	PUTATIVE	None	None	234	77	6902718	6915668	-1	None	None
17	None	ENSG00000215067	ENST00000399540	protein_coding	PUTATIVE	None	None	234	77	6904451	6915661	-1	None	None
17	None	ENSG00000215067	ENST00000573939	protein_coding	PUTATIVE	None	None	54	17	6905599	6915668	-1	None	None
16	None	ENSG00000221789	ENST00000408862	miRNA	NOVEL	None	None	None	None	68089682	68089787	-1	None	None
16	None	ENSG00000261864	ENST00000548144	processed_transcript	KNOWN	None	None	None	None	68111243	68156174	1	None	None
5	OR2Y1	ENSG00000174339	ENST00000307832	protein_coding	KNOWN	CCDS34323	14837	936	311	180166042	180167099	-1	None	None
16	None	ENSG00000201850	ENST00000364980	misc_RNA	NOVEL	None	None	None	None	68123352	68123446	-1	None	None
16	None	ENSG00000212445	ENST00000391143	snoRNA	NOVEL	None	None	None	None	68223190	68223324	1	None	None
16	None	ENSG00000262514	ENST00000575953	sense_intronic	KNOWN	None	None	None	None	68233698	68234884	1	None	None
17	STAT5A	ENSG00000126561	ENST00000345506	protein_coding	KNOWN	CCDS11424	11366	2385	794	40439565	40463961	1	STAT5	MGF
17	STAT5A	ENSG00000126561	ENST00000590949	protein_coding	KNOWN	CCDS11424	11366	2385	794	40439885	40462878	1	STAT5	MGF
17	STAT5A	ENSG00000126561	ENST00000546010	protein_coding	NOVEL	None	11366	2295	764	40440094	40462945	1	STAT5	MGF
17	STAT5A	ENSG00000126561	ENST00000590726	protein_coding	PUTATIVE	None	11366	425	140	40440487	40452299	1	STAT5	MGF
17	STAT5A	ENSG00000126561	ENST00000469124	retained_intron	KNOWN	None	11366	None	None	40440507	40442197	1	STAT5	MGF
17	STAT5A	ENSG00000126561	ENST00000444283	protein_coding	KNOWN	None	11366	375	124	40440519	40444079	1	STAT5	MGF
17	STAT5A	ENSG00000126561	ENST00000588868	protein_coding	NOVEL	None	11366	2292	763	40440561	40463958	1	STAT5	MGF
17	STAT5A	ENSG00000126561	ENST00000478897	retained_intron	KNOWN	None	11366	None	None	40441231	40444055	1	STAT5	MGF
17	STAT5A	ENSG00000126561	ENST00000479417	retained_intron	KNOWN	None	11366	None	None	40456197	40458344	1	STAT5	MGF
17	STAT5A	ENSG00000126561	ENST00000468096	retained_intron	KNOWN	None	11366	None	None	40458132	40462541	1	STAT5	MGF
17	STAT5A	ENSG00000126561	ENST00000591556	retained_intron	KNOWN	None	11366	None	None	40458134	40460777	1	STAT5	MGF
17	STAT5A	ENSG00000126561	ENST00000587646	protein_coding	PUTATIVE	None	11366	690	229	40458188	40461704	1	STAT5	MGF
17	STAT5A	ENSG00000126561	ENST00000452307	protein_coding	KNOWN	None	11366	2376	791	40440517	40463956	1	STAT5	MGF
11	None	ENSG00000255470	ENST00000527671	protein_coding	NOVEL	None	None	477	158	18161733	18211042	-1	None	None
16	RPS12P27	ENSG00000240435	ENST00000465542	processed_pseudogene	KNOWN	None	35892	None	None	68243345	68243681	1	None	None
20	SLC17A9	ENSG00000101194	ENST00000370351	protein_coding	KNOWN	CCDS42901	16192	1311	436	61584052	61599949	1	C20orf59	FLJ23412, VNUT
20	SLC17A9	ENSG00000101194	ENST00000370349	protein_coding	KNOWN	None	16192	1293	430	61584059	61599949	1	C20orf59	FLJ23412, VNUT
20	SLC17A9	ENSG00000101194	ENST00000488738	processed_transcript	KNOWN	None	16192	None	None	61584063	61599949	1	C20orf59	FLJ23412, VNUT
20	SLC17A9	ENSG00000101194	ENST00000411611	protein_coding	KNOWN	None	16192	457	151	61584398	61588932	1	C20orf59	FLJ23412, VNUT
20	SLC17A9	ENSG00000101194	ENST00000459704	processed_transcript	KNOWN	None	16192	None	None	61593634	61599949	1	C20orf59	FLJ23412, VNUT
20	SLC17A9	ENSG00000101194	ENST00000487303	processed_transcript	KNOWN	None	16192	None	None	61594481	61595201	1	C20orf59	FLJ23412, VNUT
20	SLC17A9	ENSG00000101194	ENST00000483113	processed_transcript	KNOWN	None	16192	None	None	61596358	61599949	1	C20orf59	FLJ23412, VNUT
11	MRGPRX4	ENSG00000179817	ENST00000314254	protein_coding	KNOWN	CCDS7831	17617	969	322	18194384	18195827	1	None	MRGX4
20	SNRPB	ENSG00000125835	ENST00000381342	protein_coding	KNOWN	CCDS13027	11153	696	231	2442280	2451499	-1	SNRPB1	COD, SmB/SmB', Sm-B/B', snRNP-B
20	SNRPB	ENSG00000125835	ENST00000438552	protein_coding	KNOWN	CCDS13026	11153	723	240	2442280	2451499	-1	SNRPB1	COD, SmB/SmB', Sm-B/B', snRNP-B
20	SNRPB	ENSG00000125835	ENST00000474384	nonsense_mediated_decay	KNOWN	None	11153	213	70	2442306	2451378	-1	SNRPB1	COD, SmB/SmB', Sm-B/B', snRNP-B
20	SNRPB	ENSG00000125835	ENST00000339610	protein_coding	KNOWN	None	11153	468	155	2442736	2451431	-1	SNRPB1	COD, SmB/SmB', Sm-B/B', snRNP-B
5	JAKMIP2	ENSG00000176049	ENST00000507386	protein_coding	KNOWN	CCDS59495	29067	2400	799	146967990	147162105	-1	None	JAMIP2, KIAA0555
5	JAKMIP2	ENSG00000176049	ENST00000265272	protein_coding	KNOWN	CCDS4285	29067	2433	810	146968129	147162338	-1	None	JAMIP2, KIAA0555
5	JAKMIP2	ENSG00000176049	ENST00000333010	protein_coding	KNOWN	None	29067	2337	778	146970925	147162331	-1	None	JAMIP2, KIAA0555
5	JAKMIP2	ENSG00000176049	ENST00000504845	retained_intron	KNOWN	None	29067	None	None	147012242	147023762	-1	None	JAMIP2, KIAA0555
5	JAKMIP2	ENSG00000176049	ENST00000507343	retained_intron	KNOWN	None	29067	None	None	147027939	147041009	-1	None	JAMIP2, KIAA0555
16	MRPL28	ENSG00000086504	ENST00000199706	protein_coding	KNOWN	CCDS32349	14484	771	256	417384	420527	-1	MAAT1	p15
16	MRPL28	ENSG00000086504	ENST00000483764	retained_intron	KNOWN	None	14484	None	None	417394	420509	-1	MAAT1	p15
16	MRPL28	ENSG00000086504	ENST00000481453	retained_intron	KNOWN	None	14484	None	None	417394	420526	-1	MAAT1	p15
16	MRPL28	ENSG00000086504	ENST00000429738	protein_coding	PUTATIVE	None	14484	147	48	417396	419803	-1	MAAT1	p15
16	MRPL28	ENSG00000086504	ENST00000461550	retained_intron	KNOWN	None	14484	None	None	417398	420225	-1	MAAT1	p15
16	MRPL28	ENSG00000086504	ENST00000469744	retained_intron	KNOWN	None	14484	None	None	417427	420234	-1	MAAT1	p15
16	MRPL28	ENSG00000086504	ENST00000389675	protein_coding	KNOWN	CCDS32349	14484	771	256	417613	420509	-1	MAAT1	p15
16	MRPL28	ENSG00000086504	ENST00000441883	protein_coding	KNOWN	None	14484	722	239	417724	420432	-1	MAAT1	p15
16	MRPL28	ENSG00000086504	ENST00000447696	protein_coding	KNOWN	None	14484	656	217	418335	420502	-1	MAAT1	p15
16	MRPL28	ENSG00000086504	ENST00000450882	protein_coding	KNOWN	None	14484	583	193	418408	420338	-1	MAAT1	p15
11	None	ENSG00000189332	ENST00000340135	protein_coding	NOVEL	None	None	465	154	18230685	18235109	1	None	None
11	None	ENSG00000189332	ENST00000534640	protein_coding	NOVEL	None	None	465	154	18230690	18233055	1	None	None
11	None	ENSG00000189332	ENST00000527059	protein_coding	NOVEL	None	None	465	154	18230755	18236109	1	None	None
7	NEUROD6	ENSG00000164600	ENST00000297142	protein_coding	KNOWN	CCDS5434	13804	1014	337	31377075	31380508	-1	None	Atoh2, NEX1M, Math-2, bHLHa2, Nex1
HSCHR6_MHC_MANN	TRIM26	ENSG00000231002	ENST00000469107	retained_intron	KNOWN	None	12962	None	None	30197334	30203281	-1	ZNF173	RNF95
HSCHR6_MHC_MANN	TRIM26	ENSG00000231002	ENST00000450392	protein_coding	KNOWN	None	12962	1620	539	30197334	30217643	-1	ZNF173	RNF95
HSCHR6_MHC_MANN	TRIM26	ENSG00000231002	ENST00000415923	protein_coding	KNOWN	None	12962	1620	539	30197334	30226242	-1	ZNF173	RNF95
HSCHR6_MHC_MANN	TRIM26	ENSG00000231002	ENST00000428486	protein_coding	KNOWN	None	12962	1620	539	30197334	30226303	-1	ZNF173	RNF95
HSCHR6_MHC_MANN	TRIM26	ENSG00000231002	ENST00000446540	protein_coding	KNOWN	None	12962	745	247	30209415	30226295	-1	ZNF173	RNF95
HSCHR6_MHC_MANN	TRIM26	ENSG00000231002	ENST00000450103	protein_coding	KNOWN	None	12962	477	158	30209458	30217599	-1	ZNF173	RNF95
HSCHR6_MHC_MANN	TRIM26	ENSG00000231002	ENST00000433361	protein_coding	KNOWN	None	12962	472	156	30211370	30226261	-1	ZNF173	RNF95
HSCHR6_MHC_MANN	TRIM26	ENSG00000231002	ENST00000431641	protein_coding	KNOWN	None	12962	366	121	30211617	30226242	-1	ZNF173	RNF95
HSCHR6_MHC_MANN	TRIM26	ENSG00000231002	ENST00000477569	processed_transcript	KNOWN	None	12962	None	None	30211643	30226241	-1	ZNF173	RNF95
2	FAM228B	ENSG00000219626	ENST00000469867	processed_transcript	KNOWN	None	24736	None	None	24299396	24320338	1	None	None
2	FAM228B	ENSG00000219626	ENST00000461972	processed_transcript	KNOWN	None	24736	None	None	24299728	24320322	1	None	None
2	FAM228B	ENSG00000219626	ENST00000468799	processed_transcript	KNOWN	None	24736	None	None	24299752	24392507	1	None	None
2	FAM228B	ENSG00000219626	ENST00000486967	processed_transcript	KNOWN	None	24736	None	None	24299798	24369671	1	None	None
2	FAM228B	ENSG00000219626	ENST00000460686	processed_transcript	KNOWN	None	24736	None	None	24301775	24303825	1	None	None
2	FAM228B	ENSG00000219626	ENST00000407625	protein_coding	NOVEL	None	24736	960	319	24346350	24392506	1	None	None
2	FAM228B	ENSG00000219626	ENST00000417898	nonsense_mediated_decay	KNOWN	None	24736	225	74	24347033	24392365	1	None	None
2	FAM228B	ENSG00000219626	ENST00000457370	nonsense_mediated_decay	KNOWN	None	24736	348	115	24369808	24392509	1	None	None
2	FAM228B	ENSG00000219626	ENST00000448919	protein_coding	PUTATIVE	None	24736	123	40	24387126	24392506	1	None	None
2	FAM228B	ENSG00000219626	ENST00000420135	protein_coding	KNOWN	None	24736	972	323	24346350	24392506	1	None	None
9	None	ENSG00000230894	ENST00000423715	antisense	KNOWN	None	None	None	None	119330728	119348607	1	None	None
9	None	ENSG00000225085	ENST00000436084	lincRNA	KNOWN	None	None	None	None	85020103	85021154	1	None	None
9	None	ENSG00000265662	ENST00000583553	miRNA	NOVEL	None	None	None	None	119861286	119861385	1	None	None
9	RPL10P3	ENSG00000230734	ENST00000431607	processed_pseudogene	KNOWN	None	23300	None	None	119942907	119943374	-1	None	bA567J2.2
3	None	ENSG00000173366	ENST00000494383	protein_coding	PUTATIVE	None	None	3559	1185	52255097	52265206	-1	None	None
3	None	ENSG00000173366	ENST00000478201	nonsense_mediated_decay	KNOWN	None	None	167	54	52257936	52263789	-1	None	None
9	None	ENSG00000228046	ENST00000392516	processed_pseudogene	KNOWN	None	None	None	None	85042265	85042940	-1	None	None
9	SNORA70C	ENSG00000207268	ENST00000384538	snoRNA	KNOWN	None	33619	None	None	119943345	119943479	-1	None	None
9	RN7SKP128	ENSG00000201140	ENST00000364270	misc_RNA	KNOWN	None	45852	None	None	119959397	119959699	1	None	None
9	None	ENSG00000228123	ENST00000438986	processed_pseudogene	KNOWN	None	None	None	None	85046804	85047820	-1	None	None
9	RN7SKP125	ENSG00000222413	ENST00000410481	misc_RNA	KNOWN	None	45849	None	None	120039264	120039565	1	None	None
9	None	ENSG00000233516	ENST00000436524	lincRNA	KNOWN	None	None	None	None	120224572	120228538	-1	None	None
9	None	ENSG00000232749	ENST00000422010	lincRNA	KNOWN	None	None	None	None	85068260	85070140	1	None	None
13	SERP2	ENSG00000151778	ENST00000474333	nonsense_mediated_decay	KNOWN	None	20607	240	79	44947801	44971577	1	C13orf21	bA269C23.1
13	SERP2	ENSG00000151778	ENST00000379179	protein_coding	KNOWN	CCDS31965	20607	198	65	44947978	44971850	1	C13orf21	bA269C23.1
13	SERP2	ENSG00000151778	ENST00000493476	nonsense_mediated_decay	KNOWN	None	20607	255	84	44948018	44971846	1	C13orf21	bA269C23.1
5	MGAT1	ENSG00000131446	ENST00000333055	protein_coding	KNOWN	CCDS4458	7044	1338	445	180217541	180242541	-1	MGAT, GLYT1	GNT-1, GLCNAC-TI
5	MGAT1	ENSG00000131446	ENST00000307826	protein_coding	KNOWN	CCDS4458	7044	1338	445	180217543	180229885	-1	MGAT, GLYT1	GNT-1, GLCNAC-TI
5	MGAT1	ENSG00000131446	ENST00000446023	protein_coding	KNOWN	CCDS4458	7044	1338	445	180217548	180236829	-1	MGAT, GLYT1	GNT-1, GLCNAC-TI
5	MGAT1	ENSG00000131446	ENST00000427865	protein_coding	KNOWN	CCDS4458	7044	1338	445	180218482	180230904	-1	MGAT, GLYT1	GNT-1, GLCNAC-TI
5	MGAT1	ENSG00000131446	ENST00000504671	protein_coding	KNOWN	None	7044	599	198	180219373	180229794	-1	MGAT, GLYT1	GNT-1, GLCNAC-TI
5	MGAT1	ENSG00000131446	ENST00000506889	protein_coding	KNOWN	None	7044	461	152	180219511	180237127	-1	MGAT, GLYT1	GNT-1, GLCNAC-TI
5	MGAT1	ENSG00000131446	ENST00000514283	protein_coding	KNOWN	None	7044	382	126	180219590	180230923	-1	MGAT, GLYT1	GNT-1, GLCNAC-TI
5	MGAT1	ENSG00000131446	ENST00000512695	protein_coding	KNOWN	None	7044	347	114	180219625	180230481	-1	MGAT, GLYT1	GNT-1, GLCNAC-TI
5	MGAT1	ENSG00000131446	ENST00000506269	protein_coding	KNOWN	None	7044	334	110	180219638	180230399	-1	MGAT, GLYT1	GNT-1, GLCNAC-TI
5	MGAT1	ENSG00000131446	ENST00000514438	protein_coding	KNOWN	None	7044	314	103	180219658	180242580	-1	MGAT, GLYT1	GNT-1, GLCNAC-TI
5	MGAT1	ENSG00000131446	ENST00000502678	protein_coding	KNOWN	None	7044	310	102	180219662	180235758	-1	MGAT, GLYT1	GNT-1, GLCNAC-TI
5	MGAT1	ENSG00000131446	ENST00000513431	protein_coding	KNOWN	None	7044	286	94	180219686	180242567	-1	MGAT, GLYT1	GNT-1, GLCNAC-TI
5	MGAT1	ENSG00000131446	ENST00000507384	protein_coding	KNOWN	None	7044	102	33	180219870	180229803	-1	MGAT, GLYT1	GNT-1, GLCNAC-TI
5	MGAT1	ENSG00000131446	ENST00000504385	processed_transcript	KNOWN	None	7044	None	None	180220062	180236850	-1	MGAT, GLYT1	GNT-1, GLCNAC-TI
5	MGAT1	ENSG00000131446	ENST00000514760	processed_transcript	PUTATIVE	None	7044	None	None	180222406	180242567	-1	MGAT, GLYT1	GNT-1, GLCNAC-TI
5	MGAT1	ENSG00000131446	ENST00000505682	processed_transcript	PUTATIVE	None	7044	None	None	180222430	180229767	-1	MGAT, GLYT1	GNT-1, GLCNAC-TI
5	MGAT1	ENSG00000131446	ENST00000512080	processed_transcript	PUTATIVE	None	7044	None	None	180235526	180237920	-1	MGAT, GLYT1	GNT-1, GLCNAC-TI
5	MGAT1	ENSG00000131446	ENST00000510341	processed_transcript	PUTATIVE	None	7044	None	None	180235836	180237503	-1	MGAT, GLYT1	GNT-1, GLCNAC-TI
5	MGAT1	ENSG00000131446	ENST00000508702	processed_transcript	PUTATIVE	None	7044	None	None	180235838	180237505	-1	MGAT, GLYT1	GNT-1, GLCNAC-TI
5	MGAT1	ENSG00000131446	ENST00000513149	processed_transcript	PUTATIVE	None	7044	None	None	180235839	180242541	-1	MGAT, GLYT1	GNT-1, GLCNAC-TI
5	MGAT1	ENSG00000131446	ENST00000510962	processed_transcript	PUTATIVE	None	7044	None	None	180235841	180237938	-1	MGAT, GLYT1	GNT-1, GLCNAC-TI
5	MGAT1	ENSG00000131446	ENST00000508090	processed_transcript	PUTATIVE	None	7044	None	None	180235841	180242652	-1	MGAT, GLYT1	GNT-1, GLCNAC-TI
5	MGAT1	ENSG00000131446	ENST00000506708	processed_transcript	PUTATIVE	None	7044	None	None	180235844	180236875	-1	MGAT, GLYT1	GNT-1, GLCNAC-TI
5	MGAT1	ENSG00000131446	ENST00000506033	processed_transcript	PUTATIVE	None	7044	None	None	180236014	180237440	-1	MGAT, GLYT1	GNT-1, GLCNAC-TI
5	MGAT1	ENSG00000131446	ENST00000393340	protein_coding	KNOWN	CCDS4458	7044	1338	445	180217548	180237456	-1	MGAT, GLYT1	GNT-1, GLCNAC-TI
20	PCMTD2	ENSG00000203880	ENST00000308824	protein_coding	KNOWN	CCDS13559	15882	1086	361	62887121	62907583	1	C20orf36	FLJ10883
20	PCMTD2	ENSG00000203880	ENST00000299468	protein_coding	KNOWN	None	15882	849	282	62887097	62926855	1	C20orf36	FLJ10883
20	PCMTD2	ENSG00000203880	ENST00000369758	protein_coding	KNOWN	CCDS46631	15882	1005	334	62887048	62907578	1	C20orf36	FLJ10883
20	PCMTD2	ENSG00000203880	ENST00000266078	protein_coding	KNOWN	None	15882	414	137	62903550	62907578	1	C20orf36	FLJ10883
11	SAA4	ENSG00000148965	ENST00000278222	protein_coding	KNOWN	CCDS7832	10516	393	130	18252896	18258440	-1	None	C-SAA, CSAA
16	RNF40	ENSG00000103549	ENST00000563909	protein_coding	KNOWN	None	16867	333	110	30773066	30774771	1	None	KIAA0661, RBP95, BRE1B, STARING
16	RNF40	ENSG00000103549	ENST00000324685	protein_coding	KNOWN	CCDS10691	16867	3006	1001	30773318	30787628	1	None	KIAA0661, RBP95, BRE1B, STARING
16	RNF40	ENSG00000103549	ENST00000566811	protein_coding	KNOWN	None	16867	388	128	30773610	30774826	1	None	KIAA0661, RBP95, BRE1B, STARING
16	RNF40	ENSG00000103549	ENST00000565995	protein_coding	PUTATIVE	None	16867	523	173	30773643	30777565	1	None	KIAA0661, RBP95, BRE1B, STARING
16	RNF40	ENSG00000103549	ENST00000563683	protein_coding	NOVEL	None	16867	2886	961	30773643	30786502	1	None	KIAA0661, RBP95, BRE1B, STARING
16	RNF40	ENSG00000103549	ENST00000357890	protein_coding	KNOWN	CCDS55994	16867	2706	901	30773643	30786536	1	None	KIAA0661, RBP95, BRE1B, STARING
16	RNF40	ENSG00000103549	ENST00000565931	protein_coding	PUTATIVE	None	16867	432	143	30773644	30774870	1	None	KIAA0661, RBP95, BRE1B, STARING
16	RNF40	ENSG00000103549	ENST00000493683	retained_intron	KNOWN	None	16867	None	None	30773657	30787628	1	None	KIAA0661, RBP95, BRE1B, STARING
16	RNF40	ENSG00000103549	ENST00000566703	retained_intron	KNOWN	None	16867	None	None	30776322	30778106	1	None	KIAA0661, RBP95, BRE1B, STARING
16	RNF40	ENSG00000103549	ENST00000564260	retained_intron	KNOWN	None	16867	None	None	30778998	30779852	1	None	KIAA0661, RBP95, BRE1B, STARING
16	RNF40	ENSG00000103549	ENST00000567365	processed_transcript	KNOWN	None	16867	None	None	30780660	30785303	1	None	KIAA0661, RBP95, BRE1B, STARING
16	RNF40	ENSG00000103549	ENST00000602784	nonsense_mediated_decay	KNOWN	None	16867	45	14	30785391	30786509	1	None	KIAA0661, RBP95, BRE1B, STARING
16	RNF40	ENSG00000103549	ENST00000402121	protein_coding	KNOWN	None	16867	2082	693	30773641	30785837	1	None	KIAA0661, RBP95, BRE1B, STARING
2	RIF1	ENSG00000080345	ENST00000444746	protein_coding	KNOWN	CCDS2194	23207	7419	2472	152266397	152331902	1	None	FLJ12870, FLJ10599
2	RIF1	ENSG00000080345	ENST00000453091	protein_coding	KNOWN	CCDS54406	23207	7341	2446	152266397	152332136	1	None	FLJ12870, FLJ10599
2	RIF1	ENSG00000080345	ENST00000428287	protein_coding	NOVEL	CCDS54406	23207	7341	2446	152266400	152331902	1	None	FLJ12870, FLJ10599
2	RIF1	ENSG00000080345	ENST00000494333	processed_transcript	KNOWN	None	23207	None	None	152266414	152276893	1	None	FLJ12870, FLJ10599
2	RIF1	ENSG00000080345	ENST00000420714	protein_coding	KNOWN	None	23207	263	86	152266426	152271416	1	None	FLJ12870, FLJ10599
2	RIF1	ENSG00000080345	ENST00000243326	protein_coding	KNOWN	CCDS2194	23207	7419	2472	152266455	152333863	1	None	FLJ12870, FLJ10599
2	RIF1	ENSG00000080345	ENST00000414861	protein_coding	NOVEL	None	23207	2534	843	152266470	152311624	1	None	FLJ12870, FLJ10599
2	RIF1	ENSG00000080345	ENST00000430328	protein_coding	KNOWN	CCDS54406	23207	7341	2446	152266604	152331902	1	None	FLJ12870, FLJ10599
2	RIF1	ENSG00000080345	ENST00000498041	processed_transcript	PUTATIVE	None	23207	None	None	152276739	152280274	1	None	FLJ12870, FLJ10599
2	RIF1	ENSG00000080345	ENST00000454583	nonsense_mediated_decay	KNOWN	None	23207	2240	745	152321214	152364527	1	None	FLJ12870, FLJ10599
2	RIF1	ENSG00000080345	ENST00000457745	processed_transcript	KNOWN	None	23207	None	None	152342791	152354727	1	None	FLJ12870, FLJ10599
2	RIF1	ENSG00000080345	ENST00000484077	processed_transcript	PUTATIVE	None	23207	None	None	152351489	152354729	1	None	FLJ12870, FLJ10599
2	RIF1	ENSG00000080345	ENST00000467762	processed_transcript	KNOWN	None	23207	None	None	152362462	152363626	1	None	FLJ12870, FLJ10599
2	RIF1	ENSG00000080345	ENST00000433166	protein_coding	KNOWN	None	23207	1026	341	152266414	152299804	1	None	FLJ12870, FLJ10599
4	RNA5SP172	ENSG00000201931	ENST00000365061	rRNA	KNOWN	None	43072	None	None	178378265	178378382	-1	RN5S172	None
7	MKRN1	ENSG00000133606	ENST00000255977	protein_coding	KNOWN	CCDS5860	7112	1449	482	140152840	140179369	-1	None	RNF61
7	MKRN1	ENSG00000133606	ENST00000475010	retained_intron	KNOWN	None	7112	None	None	140152847	140179136	-1	None	RNF61
7	MKRN1	ENSG00000133606	ENST00000495305	nonsense_mediated_decay	KNOWN	None	7112	528	175	140153943	140179168	-1	None	RNF61
7	MKRN1	ENSG00000133606	ENST00000474576	protein_coding	PUTATIVE	None	7112	1257	418	140154068	140178784	-1	None	RNF61
7	MKRN1	ENSG00000133606	ENST00000463142	protein_coding	PUTATIVE	None	7112	339	112	140154264	140155711	-1	None	RNF61
7	MKRN1	ENSG00000133606	ENST00000468447	retained_intron	KNOWN	None	7112	None	None	140154465	140156719	-1	None	RNF61
7	MKRN1	ENSG00000133606	ENST00000480552	protein_coding	PUTATIVE	None	7112	336	111	140155980	140178726	-1	None	RNF61
7	MKRN1	ENSG00000133606	ENST00000496169	nonsense_mediated_decay	KNOWN	None	7112	282	93	140155986	140179155	-1	None	RNF61
7	MKRN1	ENSG00000133606	ENST00000443720	protein_coding	PUTATIVE	CCDS47725	7112	990	329	140155992	140179299	-1	None	RNF61
7	MKRN1	ENSG00000133606	ENST00000471104	protein_coding	PUTATIVE	None	7112	579	192	140158807	140178866	-1	None	RNF61
7	MKRN1	ENSG00000133606	ENST00000467513	protein_coding	PUTATIVE	None	7112	495	164	140158891	140178456	-1	None	RNF61
7	MKRN1	ENSG00000133606	ENST00000494939	protein_coding	PUTATIVE	None	7112	408	135	140158978	140178303	-1	None	RNF61
7	MKRN1	ENSG00000133606	ENST00000498535	nonsense_mediated_decay	KNOWN	None	7112	327	108	140159572	140179154	-1	None	RNF61
7	MKRN1	ENSG00000133606	ENST00000473444	protein_coding	PUTATIVE	None	7112	306	101	140159598	140178837	-1	None	RNF61
7	MKRN1	ENSG00000133606	ENST00000475180	nonsense_mediated_decay	KNOWN	None	7112	120	39	140159641	140178982	-1	None	RNF61
7	MKRN1	ENSG00000133606	ENST00000481705	processed_transcript	KNOWN	None	7112	None	None	140159729	140179336	-1	None	RNF61
7	MKRN1	ENSG00000133606	ENST00000437223	protein_coding	KNOWN	None	7112	651	216	140153943	140179168	-1	None	RNF61
4	None	ENSG00000221499	ENST00000408572	miRNA	NOVEL	None	None	None	None	178465631	178465718	-1	None	None
9	None	ENSG00000233309	ENST00000432491	processed_pseudogene	KNOWN	None	None	None	None	85358982	85359707	-1	None	None
4	None	ENSG00000251416	ENST00000503093	lincRNA	KNOWN	None	None	None	None	178607827	178612222	-1	None	None
4	None	ENSG00000251504	ENST00000507011	lincRNA	KNOWN	None	None	None	None	178650792	178829016	-1	None	None
4	None	ENSG00000251504	ENST00000512527	lincRNA	KNOWN	None	None	None	None	178733770	178829032	-1	None	None
4	None	ENSG00000251504	ENST00000514736	lincRNA	KNOWN	None	None	None	None	178824538	178829090	-1	None	None
19	FXYD1	ENSG00000266964	ENST00000351325	protein_coding	KNOWN	CCDS12445	4025	279	92	35629712	35634013	1	PLM	None
19	FXYD1	ENSG00000266964	ENST00000592818	retained_intron	KNOWN	None	4025	None	None	35629745	35633939	1	PLM	None
19	FXYD1	ENSG00000266964	ENST00000589209	protein_coding	KNOWN	CCDS12445	4025	279	92	35630022	35633676	1	PLM	None
19	FXYD1	ENSG00000266964	ENST00000455515	protein_coding	KNOWN	CCDS12445	4025	279	92	35630345	35633954	1	PLM	None
19	FXYD1	ENSG00000266964	ENST00000588715	protein_coding	KNOWN	CCDS12445	4025	279	92	35630630	35633952	1	PLM	None
19	FXYD1	ENSG00000266964	ENST00000588607	protein_coding	KNOWN	CCDS12445	4025	279	92	35630642	35633940	1	PLM	None
19	FXYD1	ENSG00000266964	ENST00000587056	retained_intron	KNOWN	None	4025	None	None	35630817	35632153	1	PLM	None
19	FXYD1	ENSG00000266964	ENST00000588081	protein_coding	KNOWN	CCDS12445	4025	279	92	35630926	35633954	1	PLM	None
19	FXYD1	ENSG00000266964	ENST00000589121	protein_coding	PUTATIVE	None	4025	347	114	35631009	35633956	1	PLM	None
19	FXYD1	ENSG00000266964	ENST00000590462	retained_intron	KNOWN	None	4025	None	None	35631769	35633959	1	PLM	None
12	NELL2	ENSG00000184613	ENST00000429094	protein_coding	KNOWN	CCDS8746	7751	2451	816	44902061	45270157	-1	None	NRP2
12	NELL2	ENSG00000184613	ENST00000551601	protein_coding	NOVEL	None	7751	2307	768	44902065	45270098	-1	None	NRP2
12	NELL2	ENSG00000184613	ENST00000452445	protein_coding	KNOWN	CCDS8746	7751	2451	816	44902065	45270138	-1	None	NRP2
12	NELL2	ENSG00000184613	ENST00000549027	protein_coding	KNOWN	CCDS44864	7751	2448	815	44902318	45270098	-1	None	NRP2
12	NELL2	ENSG00000184613	ENST00000333837	protein_coding	PUTATIVE	CCDS53781	7751	2520	839	44902386	45307711	-1	None	NRP2
12	NELL2	ENSG00000184613	ENST00000437801	protein_coding	KNOWN	CCDS44863	7751	2601	866	44902411	45270880	-1	None	NRP2
12	NELL2	ENSG00000184613	ENST00000547636	retained_intron	KNOWN	None	7751	None	None	44915745	44917418	-1	None	NRP2
12	NELL2	ENSG00000184613	ENST00000550139	protein_coding	PUTATIVE	None	7751	259	85	44916560	44926404	-1	None	NRP2
12	NELL2	ENSG00000184613	ENST00000549668	retained_intron	KNOWN	None	7751	None	None	44926298	45097563	-1	None	NRP2
12	NELL2	ENSG00000184613	ENST00000550313	protein_coding	NOVEL	None	7751	736	244	45004693	45170832	-1	None	NRP2
12	NELL2	ENSG00000184613	ENST00000547751	retained_intron	KNOWN	None	7751	None	None	45059219	45270098	-1	None	NRP2
12	NELL2	ENSG00000184613	ENST00000550462	protein_coding	PUTATIVE	None	7751	369	122	45168392	45170905	-1	None	NRP2
12	NELL2	ENSG00000184613	ENST00000552993	protein_coding	KNOWN	None	7751	963	320	45168561	45315631	-1	None	NRP2
12	NELL2	ENSG00000184613	ENST00000547172	processed_transcript	KNOWN	None	7751	None	None	45173471	45245630	-1	None	NRP2
12	NELL2	ENSG00000184613	ENST00000553120	protein_coding	PUTATIVE	None	7751	500	165	45173632	45269251	-1	None	NRP2
12	NELL2	ENSG00000184613	ENST00000548826	protein_coding	PUTATIVE	None	7751	339	112	45209692	45269799	-1	None	NRP2
12	NELL2	ENSG00000184613	ENST00000548531	protein_coding	KNOWN	None	7751	332	109	45209769	45269595	-1	None	NRP2
12	NELL2	ENSG00000184613	ENST00000546415	retained_intron	KNOWN	None	7751	None	None	45268782	45270069	-1	None	NRP2
12	NELL2	ENSG00000184613	ENST00000551949	protein_coding	KNOWN	None	7751	67	21	45269125	45307922	-1	None	NRP2
12	NELL2	ENSG00000184613	ENST00000395487	protein_coding	KNOWN	CCDS44864	7751	2448	815	44902058	45269437	-1	None	NRP2
7	DTX2P1	ENSG00000186704	ENST00000425797	transcribed_unprocessed_pseudogene	KNOWN	None	42352	None	None	76607934	76633625	1	None	None
7	DTX2P1	ENSG00000186704	ENST00000162863	unprocessed_pseudogene	KNOWN	None	42352	None	None	76610419	76673092	1	None	None
7	DTX2P1	ENSG00000186704	ENST00000440837	unprocessed_pseudogene	KNOWN	None	42352	None	None	76624771	76653074	1	None	None
19	CLPP	ENSG00000125656	ENST00000245816	protein_coding	KNOWN	CCDS12162	2084	834	277	6361463	6368919	1	None	None
19	CLPP	ENSG00000125656	ENST00000596070	retained_intron	KNOWN	None	2084	None	None	6361576	6368718	1	None	None
19	CLPP	ENSG00000125656	ENST00000594780	retained_intron	KNOWN	None	2084	None	None	6361685	6365201	1	None	None
19	CLPP	ENSG00000125656	ENST00000597326	protein_coding	PUTATIVE	None	2084	480	159	6361758	6368556	1	None	None
19	CLPP	ENSG00000125656	ENST00000596149	protein_coding	PUTATIVE	None	2084	573	190	6361815	6368765	1	None	None
19	CLPP	ENSG00000125656	ENST00000596605	protein_coding	PUTATIVE	None	2084	171	56	6361874	6368913	1	None	None
7	C7orf43	ENSG00000146826	ENST00000394035	protein_coding	PUTATIVE	None	25604	471	156	99752043	99754063	-1	None	FLJ10925
7	C7orf43	ENSG00000146826	ENST00000457641	protein_coding	PUTATIVE	None	25604	936	311	99752043	99755643	-1	None	FLJ10925
7	C7orf43	ENSG00000146826	ENST00000419037	nonsense_mediated_decay	KNOWN	None	25604	510	169	99752043	99756282	-1	None	FLJ10925
7	C7orf43	ENSG00000146826	ENST00000316937	protein_coding	KNOWN	CCDS5687	25604	1743	580	99752043	99756308	-1	None	FLJ10925
7	C7orf43	ENSG00000146826	ENST00000448720	nonsense_mediated_decay	KNOWN	None	25604	452	149	99752047	99754762	-1	None	FLJ10925
7	C7orf43	ENSG00000146826	ENST00000456769	protein_coding	PUTATIVE	None	25604	1459	485	99752047	99756338	-1	None	FLJ10925
7	C7orf43	ENSG00000146826	ENST00000470260	retained_intron	KNOWN	None	25604	None	None	99752098	99753297	-1	None	FLJ10925
7	C7orf43	ENSG00000146826	ENST00000419841	protein_coding	PUTATIVE	None	25604	1047	348	99752447	99755382	-1	None	FLJ10925
7	C7orf43	ENSG00000146826	ENST00000498638	processed_transcript	KNOWN	None	25604	None	None	99753888	99754822	-1	None	FLJ10925
7	C7orf43	ENSG00000146826	ENST00000472061	processed_transcript	KNOWN	None	25604	None	None	99754562	99755075	-1	None	FLJ10925
20	None	ENSG00000255743	ENST00000544961	pseudogene	NOVEL	None	None	None	None	172864	172940	-1	None	None
20	None	ENSG00000247315	ENST00000500893	pseudogene	KNOWN	None	None	None	None	278214	280961	1	None	None
9	None	ENSG00000239986	ENST00000431451	processed_pseudogene	KNOWN	None	None	None	None	43617727	43618056	1	None	None
13	TSC22D1	ENSG00000102804	ENST00000458659	protein_coding	KNOWN	CCDS31966	16826	3222	1073	45007655	45150701	-1	TGFB1I4	TSC22, MGC17597
13	TSC22D1	ENSG00000102804	ENST00000261489	protein_coding	KNOWN	CCDS9392	16826	435	144	45007665	45010981	-1	TGFB1I4	TSC22, MGC17597
13	TSC22D1	ENSG00000102804	ENST00000496314	processed_transcript	KNOWN	None	16826	None	None	45008703	45009420	-1	TGFB1I4	TSC22, MGC17597
13	TSC22D1	ENSG00000102804	ENST00000487881	processed_transcript	KNOWN	None	16826	None	None	45008845	45010732	-1	TGFB1I4	TSC22, MGC17597
13	TSC22D1	ENSG00000102804	ENST00000496838	retained_intron	KNOWN	None	16826	None	None	45008852	45010562	-1	TGFB1I4	TSC22, MGC17597
13	TSC22D1	ENSG00000102804	ENST00000472477	protein_coding	KNOWN	None	16826	125	40	45010640	45048386	-1	TGFB1I4	TSC22, MGC17597
13	TSC22D1	ENSG00000102804	ENST00000460842	processed_transcript	KNOWN	None	16826	None	None	45112462	45147481	-1	TGFB1I4	TSC22, MGC17597
13	TSC22D1	ENSG00000102804	ENST00000486464	nonsense_mediated_decay	KNOWN	None	16826	448	148	45112462	45147658	-1	TGFB1I4	TSC22, MGC17597
13	TSC22D1	ENSG00000102804	ENST00000437455	processed_transcript	PUTATIVE	None	16826	None	None	45112858	45114169	-1	TGFB1I4	TSC22, MGC17597
13	TSC22D1	ENSG00000102804	ENST00000493016	protein_coding	KNOWN	None	16826	427	141	45149784	45151283	-1	TGFB1I4	TSC22, MGC17597
13	TSC22D1	ENSG00000102804	ENST00000501704	protein_coding	KNOWN	CCDS58291	16826	1713	570	45007661	45150392	-1	TGFB1I4	TSC22, MGC17597
9	RN7SL343P	ENSG00000266425	ENST00000580329	misc_RNA	KNOWN	None	46359	None	None	43802781	43803039	-1	None	None
20	None	ENSG00000225377	ENST00000414676	antisense	KNOWN	None	None	None	None	300957	305878	-1	None	None
20	None	ENSG00000225377	ENST00000442637	antisense	KNOWN	None	None	None	None	300977	328868	-1	None	None
19	ZNF491	ENSG00000177599	ENST00000479762	processed_transcript	KNOWN	None	23706	None	None	11908482	11910094	1	None	FLJ34791
19	ZNF491	ENSG00000177599	ENST00000323169	protein_coding	KNOWN	CCDS12267	23706	1314	437	11909345	11918908	1	None	FLJ34791
19	ZNF491	ENSG00000177599	ENST00000450087	protein_coding	KNOWN	None	23706	419	138	11909391	11917187	1	None	FLJ34791
19	ZNF491	ENSG00000177599	ENST00000492230	processed_transcript	KNOWN	None	23706	None	None	11909403	11920437	1	None	FLJ34791
20	None	ENSG00000206797	ENST00000384070	misc_RNA	NOVEL	None	None	None	None	431307	431406	1	None	None
10	None	ENSG00000258539	ENST00000494792	nonsense_mediated_decay	KNOWN	None	None	605	200	126305649	126480296	-1	None	None
20	None	ENSG00000101278	ENST00000492704	processed_pseudogene	KNOWN	None	None	None	None	820090	820620	-1	None	None
5	FBXL17	ENSG00000145743	ENST00000359660	protein_coding	KNOWN	None	13615	912	303	107194736	107717111	-1	FBXO13	DKFZP434C1715, Fbx13, Fbl17
5	FBXL17	ENSG00000145743	ENST00000496714	protein_coding	KNOWN	None	13615	945	314	107213938	107703655	-1	FBXO13	DKFZP434C1715, Fbx13, Fbl17
5	FBXL17	ENSG00000145743	ENST00000481160	retained_intron	KNOWN	None	13615	None	None	107356500	107700468	-1	FBXO13	DKFZP434C1715, Fbx13, Fbl17
5	FBXL17	ENSG00000145743	ENST00000518486	retained_intron	KNOWN	None	13615	None	None	107700524	107716664	-1	FBXO13	DKFZP434C1715, Fbx13, Fbl17
5	FBXL17	ENSG00000145743	ENST00000542267	protein_coding	KNOWN	CCDS54886	13615	2106	701	107194746	107717799	-1	FBXO13	DKFZP434C1715, Fbx13, Fbl17
19	PLEKHJ1	ENSG00000104886	ENST00000587394	protein_coding	PUTATIVE	None	18211	834	277	2230093	2236255	-1	None	FLJ10297
19	PLEKHJ1	ENSG00000104886	ENST00000592552	protein_coding	PUTATIVE	None	18211	192	63	2233153	2234186	-1	None	FLJ10297
19	PLEKHJ1	ENSG00000104886	ENST00000588450	retained_intron	KNOWN	None	18211	None	None	2233153	2236262	-1	None	FLJ10297
19	PLEKHJ1	ENSG00000104886	ENST00000589097	protein_coding	KNOWN	CCDS12083	18211	450	149	2233153	2237703	-1	None	FLJ10297
19	PLEKHJ1	ENSG00000104886	ENST00000589791	processed_transcript	KNOWN	None	18211	None	None	2233155	2236664	-1	None	FLJ10297
19	PLEKHJ1	ENSG00000104886	ENST00000588633	processed_transcript	KNOWN	None	18211	None	None	2233320	2233831	-1	None	FLJ10297
19	PLEKHJ1	ENSG00000104886	ENST00000588545	protein_coding	NOVEL	None	18211	393	130	2233389	2236325	-1	None	FLJ10297
19	PLEKHJ1	ENSG00000104886	ENST00000587962	protein_coding	PUTATIVE	None	18211	525	174	2233406	2236325	-1	None	FLJ10297
19	PLEKHJ1	ENSG00000104886	ENST00000586608	protein_coding	NOVEL	None	18211	453	150	2233471	2236297	-1	None	FLJ10297
19	PLEKHJ1	ENSG00000104886	ENST00000591099	protein_coding	NOVEL	None	18211	285	94	2233545	2236292	-1	None	FLJ10297
19	PLEKHJ1	ENSG00000104886	ENST00000585423	retained_intron	KNOWN	None	18211	None	None	2233852	2236140	-1	None	FLJ10297
19	PLEKHJ1	ENSG00000104886	ENST00000586497	retained_intron	KNOWN	None	18211	None	None	2233963	2236238	-1	None	FLJ10297
19	PLEKHJ1	ENSG00000104886	ENST00000588356	retained_intron	KNOWN	None	18211	None	None	2235462	2236329	-1	None	FLJ10297
19	PLEKHJ1	ENSG00000104886	ENST00000326631	protein_coding	KNOWN	CCDS12083	18211	450	149	2233155	2236319	-1	None	FLJ10297
7	ARPC1A	ENSG00000241685	ENST00000441989	nonsense_mediated_decay	KNOWN	None	703	162	53	98923521	98985787	1	None	SOP2Hs, SOP2L, Arc40
7	ARPC1A	ENSG00000241685	ENST00000262942	protein_coding	KNOWN	CCDS5660	703	1113	370	98923533	98963880	1	None	SOP2Hs, SOP2L, Arc40
7	ARPC1A	ENSG00000241685	ENST00000432786	nonsense_mediated_decay	KNOWN	None	703	840	279	98923550	98963849	1	None	SOP2Hs, SOP2L, Arc40
7	ARPC1A	ENSG00000241685	ENST00000471960	processed_transcript	KNOWN	None	703	None	None	98951558	98957865	1	None	SOP2Hs, SOP2L, Arc40
7	ARPC1A	ENSG00000241685	ENST00000463009	processed_transcript	KNOWN	None	703	None	None	98956289	98963837	1	None	SOP2Hs, SOP2L, Arc40
7	ARPC1A	ENSG00000241685	ENST00000477240	retained_intron	KNOWN	None	703	None	None	98961088	98963885	1	None	SOP2Hs, SOP2L, Arc40
7	ARPC1A	ENSG00000241685	ENST00000432884	protein_coding	KNOWN	None	703	1038	345	98923521	98985787	1	None	SOP2Hs, SOP2L, Arc40
22	None	ENSG00000227838	ENST00000440255	lincRNA	KNOWN	None	None	None	None	28072556	28110959	-1	None	None
9	None	ENSG00000270909	ENST00000603931	processed_pseudogene	KNOWN	None	None	None	None	43830636	43835037	-1	None	None
1	SMG7	ENSG00000116698	ENST00000440812	nonsense_mediated_decay	KNOWN	None	16792	555	184	183441351	183498149	1	C1orf16	KIAA0250, EST1C, SGA56M, SMG-7
1	SMG7	ENSG00000116698	ENST00000367537	protein_coding	PUTATIVE	None	16792	3513	1170	183441613	183523328	1	C1orf16	KIAA0250, EST1C, SGA56M, SMG-7
1	SMG7	ENSG00000116698	ENST00000507691	protein_coding	PUTATIVE	None	16792	239	78	183441635	183495781	1	C1orf16	KIAA0250, EST1C, SGA56M, SMG-7
1	SMG7	ENSG00000116698	ENST00000508461	protein_coding	PUTATIVE	CCDS53445	16792	3438	1145	183441635	183521398	1	C1orf16	KIAA0250, EST1C, SGA56M, SMG-7
1	SMG7	ENSG00000116698	ENST00000444547	nonsense_mediated_decay	KNOWN	None	16792	222	73	183441637	183495817	1	C1orf16	KIAA0250, EST1C, SGA56M, SMG-7
1	SMG7	ENSG00000116698	ENST00000419169	protein_coding	PUTATIVE	None	16792	2270	755	183441637	183515264	1	C1orf16	KIAA0250, EST1C, SGA56M, SMG-7
1	SMG7	ENSG00000116698	ENST00000347615	protein_coding	KNOWN	CCDS1355	16792	3414	1137	183441637	183523321	1	C1orf16	KIAA0250, EST1C, SGA56M, SMG-7
1	SMG7	ENSG00000116698	ENST00000507469	protein_coding	KNOWN	CCDS41445	16792	3537	1178	183441638	183523323	1	C1orf16	KIAA0250, EST1C, SGA56M, SMG-7
1	SMG7	ENSG00000116698	ENST00000515829	protein_coding	KNOWN	CCDS53444	16792	3276	1091	183441662	183523325	1	C1orf16	KIAA0250, EST1C, SGA56M, SMG-7
1	SMG7	ENSG00000116698	ENST00000367538	retained_intron	KNOWN	None	16792	None	None	183441702	183485221	1	C1orf16	KIAA0250, EST1C, SGA56M, SMG-7
1	SMG7	ENSG00000116698	ENST00000502375	protein_coding	PUTATIVE	None	16792	169	55	183442067	183485029	1	C1orf16	KIAA0250, EST1C, SGA56M, SMG-7
1	SMG7	ENSG00000116698	ENST00000493609	retained_intron	KNOWN	None	16792	None	None	183471423	183482491	1	C1orf16	KIAA0250, EST1C, SGA56M, SMG-7
1	SMG7	ENSG00000116698	ENST00000507406	processed_transcript	KNOWN	None	16792	None	None	183487751	183498652	1	C1orf16	KIAA0250, EST1C, SGA56M, SMG-7
1	SMG7	ENSG00000116698	ENST00000493045	retained_intron	KNOWN	None	16792	None	None	183518076	183519223	1	C1orf16	KIAA0250, EST1C, SGA56M, SMG-7
1	SMG7	ENSG00000116698	ENST00000495321	processed_transcript	KNOWN	None	16792	None	None	183519970	183567381	1	C1orf16	KIAA0250, EST1C, SGA56M, SMG-7
1	SMG7	ENSG00000116698	ENST00000456731	protein_coding	KNOWN	None	16792	3150	1049	183441506	183521066	1	C1orf16	KIAA0250, EST1C, SGA56M, SMG-7
7	DTX2P1-UPK3BP1-PMS2P11	ENSG00000265479	ENST00000584900	processed_transcript	KNOWN	None	42360	None	None	76610266	76653078	1	None	None
7	DTX2P1-UPK3BP1-PMS2P11	ENSG00000265479	ENST00000579700	processed_transcript	KNOWN	None	42360	None	None	76610419	76673092	1	None	None
9	None	ENSG00000237207	ENST00000417687	processed_pseudogene	KNOWN	None	None	None	None	43838621	43840027	-1	None	None
4	None	ENSG00000252388	ENST00000516579	snoRNA	NOVEL	None	None	None	None	178752503	178752589	1	None	None
4	RNU1-45P	ENSG00000253000	ENST00000517191	snRNA	KNOWN	None	48387	None	None	179037875	179038015	-1	None	None
HSCHR6_MHC_DBB	None	ENSG00000232356	ENST00000412655	processed_transcript	KNOWN	None	None	None	None	29465220	29478267	1	None	None
4	None	ENSG00000241877	ENST00000472309	processed_pseudogene	KNOWN	None	None	None	None	179207849	179208439	1	None	None
4	RNA5SP173	ENSG00000201727	ENST00000364857	rRNA	KNOWN	None	43073	None	None	179327849	179327984	1	RN5S173	None
HSCHR6_MHC_DBB	None	ENSG00000224446	ENST00000457219	processed_transcript	KNOWN	None	None	None	None	29497135	29501283	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000224446	ENST00000453948	processed_transcript	KNOWN	None	None	None	None	29497191	29499872	1	None	None
4	None	ENSG00000212191	ENST00000390889	snoRNA	NOVEL	None	None	None	None	179607040	179607110	-1	None	None
4	PCGF3	ENSG00000185619	ENST00000419774	protein_coding	KNOWN	None	10066	122	39	699537	728732	1	RNF3	FLJ36550, DONG1, RNF3A, MGC40413
4	PCGF3	ENSG00000185619	ENST00000362003	protein_coding	KNOWN	CCDS3339	10066	729	242	699554	764428	1	RNF3	FLJ36550, DONG1, RNF3A, MGC40413
4	PCGF3	ENSG00000185619	ENST00000475288	retained_intron	KNOWN	None	10066	None	None	699571	725134	1	RNF3	FLJ36550, DONG1, RNF3A, MGC40413
4	PCGF3	ENSG00000185619	ENST00000400151	protein_coding	PUTATIVE	None	10066	522	173	699573	728268	1	RNF3	FLJ36550, DONG1, RNF3A, MGC40413
4	PCGF3	ENSG00000185619	ENST00000482726	processed_transcript	KNOWN	None	10066	None	None	699573	728631	1	RNF3	FLJ36550, DONG1, RNF3A, MGC40413
4	PCGF3	ENSG00000185619	ENST00000427463	protein_coding	KNOWN	None	10066	188	61	699573	728798	1	RNF3	FLJ36550, DONG1, RNF3A, MGC40413
4	PCGF3	ENSG00000185619	ENST00000470161	protein_coding	KNOWN	CCDS3339	10066	729	242	699573	760396	1	RNF3	FLJ36550, DONG1, RNF3A, MGC40413
4	PCGF3	ENSG00000185619	ENST00000430644	nonsense_mediated_decay	KNOWN	None	10066	345	114	699621	760387	1	RNF3	FLJ36550, DONG1, RNF3A, MGC40413
4	PCGF3	ENSG00000185619	ENST00000484141	retained_intron	KNOWN	None	10066	None	None	699664	731329	1	RNF3	FLJ36550, DONG1, RNF3A, MGC40413
4	PCGF3	ENSG00000185619	ENST00000440452	nonsense_mediated_decay	KNOWN	None	10066	345	114	699732	761652	1	RNF3	FLJ36550, DONG1, RNF3A, MGC40413
4	PCGF3	ENSG00000185619	ENST00000433814	protein_coding	KNOWN	None	10066	327	108	718896	737326	1	RNF3	FLJ36550, DONG1, RNF3A, MGC40413
4	PCGF3	ENSG00000185619	ENST00000488032	processed_transcript	KNOWN	None	10066	None	None	737653	755152	1	RNF3	FLJ36550, DONG1, RNF3A, MGC40413
4	PCGF3	ENSG00000185619	ENST00000505655	protein_coding	KNOWN	CCDS3339	10066	729	242	724865	760819	1	RNF3	FLJ36550, DONG1, RNF3A, MGC40413
4	PCGF3	ENSG00000185619	ENST00000521023	protein_coding	KNOWN	None	10066	627	208	699732	761652	1	RNF3	FLJ36550, DONG1, RNF3A, MGC40413
16	FOXF1	ENSG00000103241	ENST00000262426	protein_coding	KNOWN	CCDS10957	3809	1140	379	86544133	86548076	1	FKHL5	FREAC1
HSCHR6_MHC_DBB	GPR53P	ENSG00000225274	ENST00000424172	unprocessed_pseudogene	KNOWN	None	4509	None	None	29505419	29506502	-1	None	PsiGPR53, dJ271M21.8
HSCHR6_MHC_DBB	OR2I1P	ENSG00000237725	ENST00000452965	unprocessed_pseudogene	KNOWN	None	8258	None	None	29520950	29521897	1	OR2I1, OR2I3P, OR2I4P, OR2I2	HS6M1-14
4	NAF1	ENSG00000145414	ENST00000509434	protein_coding	PUTATIVE	None	25126	129	42	164031225	164061489	-1	None	None
4	NAF1	ENSG00000145414	ENST00000422287	protein_coding	KNOWN	CCDS47159	25126	1170	389	164047860	164088042	-1	None	None
4	NAF1	ENSG00000145414	ENST00000274054	protein_coding	KNOWN	CCDS3803	25126	1485	494	164049821	164088073	-1	None	None
4	NAF1	ENSG00000145414	ENST00000509884	retained_intron	KNOWN	None	25126	None	None	164050272	164054794	-1	None	None
4	NAF1	ENSG00000145414	ENST00000509232	retained_intron	KNOWN	None	25126	None	None	164056178	164087983	-1	None	None
4	NAF1	ENSG00000145414	ENST00000502973	retained_intron	KNOWN	None	25126	None	None	164078116	164087904	-1	None	None
HSCHR6_MHC_DBB	OR2H5P	ENSG00000225955	ENST00000418550	unprocessed_pseudogene	KNOWN	None	8256	None	None	29541646	29542573	1	None	OR2H5, hs6M1-13, HS271M21
17	PPM1E	ENSG00000175175	ENST00000308249	protein_coding	KNOWN	CCDS11613	19322	2268	755	56833230	57058983	1	None	POPX1, KIAA1072, PP2CH, CaMKP-N
HSCHR6_MHC_DBB	TMEM183AP1	ENSG00000232189	ENST00000415370	processed_pseudogene	KNOWN	None	33458	None	None	29545196	29545485	1	None	BPG126D10.10, OTTHUMG00000086663
HSCHR6_MHC_DBB	None	ENSG00000265926	ENST00000580950	snoRNA	KNOWN	None	None	None	None	29549986	29550069	1	None	None
3	CCDC174	ENSG00000154781	ENST00000463438	retained_intron	KNOWN	None	28033	None	None	14693271	14703407	1	C3orf19	FLJ33839
3	CCDC174	ENSG00000154781	ENST00000383794	protein_coding	KNOWN	CCDS2620	28033	1404	467	14693271	14714166	1	C3orf19	FLJ33839
3	CCDC174	ENSG00000154781	ENST00000303688	protein_coding	NOVEL	None	28033	1176	391	14693271	14714166	1	C3orf19	FLJ33839
3	CCDC174	ENSG00000154781	ENST00000465759	retained_intron	KNOWN	None	28033	None	None	14693280	14708805	1	C3orf19	FLJ33839
3	CCDC174	ENSG00000154781	ENST00000476763	processed_transcript	PUTATIVE	None	28033	None	None	14709509	14712534	1	C3orf19	FLJ33839
12	STRAP	ENSG00000023734	ENST00000541731	nonsense_mediated_decay	KNOWN	None	30796	141	46	16035325	16056376	1	None	UNRIP, pt-wd, MAWD
12	STRAP	ENSG00000023734	ENST00000025399	protein_coding	KNOWN	None	30796	1092	363	16035328	16055948	1	None	UNRIP, pt-wd, MAWD
12	STRAP	ENSG00000023734	ENST00000419869	protein_coding	KNOWN	CCDS8676	30796	1053	350	16035329	16056412	1	None	UNRIP, pt-wd, MAWD
12	STRAP	ENSG00000023734	ENST00000536737	retained_intron	KNOWN	None	30796	None	None	16048388	16051206	1	None	UNRIP, pt-wd, MAWD
12	STRAP	ENSG00000023734	ENST00000538718	protein_coding	NOVEL	None	30796	286	94	16050879	16056274	1	None	UNRIP, pt-wd, MAWD
12	STRAP	ENSG00000023734	ENST00000539887	retained_intron	KNOWN	None	30796	None	None	16053833	16056412	1	None	UNRIP, pt-wd, MAWD
12	STRAP	ENSG00000023734	ENST00000538352	protein_coding	KNOWN	None	30796	771	256	16035325	16056042	1	None	UNRIP, pt-wd, MAWD
HSCHR6_MHC_DBB	RPL13AP	ENSG00000227961	ENST00000424801	processed_pseudogene	KNOWN	None	13977	None	None	29550245	29550762	1	None	RPL13Ap, dJ271M21.3
8	FAM160B2	ENSG00000158863	ENST00000498344	retained_intron	KNOWN	None	16492	None	None	21946670	21954545	1	RAI16	FLJ21801
8	FAM160B2	ENSG00000158863	ENST00000427751	nonsense_mediated_decay	KNOWN	None	16492	156	51	21946695	21955821	1	RAI16	FLJ21801
8	FAM160B2	ENSG00000158863	ENST00000488968	retained_intron	KNOWN	None	16492	None	None	21946714	21954556	1	RAI16	FLJ21801
8	FAM160B2	ENSG00000158863	ENST00000450006	nonsense_mediated_decay	KNOWN	CCDS6021	16492	2232	743	21946719	21961893	1	RAI16	FLJ21801
8	FAM160B2	ENSG00000158863	ENST00000289921	protein_coding	KNOWN	CCDS6021	16492	2232	743	21946719	21962409	1	RAI16	FLJ21801
8	FAM160B2	ENSG00000158863	ENST00000464226	retained_intron	KNOWN	None	16492	None	None	21955077	21956635	1	RAI16	FLJ21801
8	FAM160B2	ENSG00000158863	ENST00000474579	retained_intron	KNOWN	None	16492	None	None	21955446	21955988	1	RAI16	FLJ21801
8	FAM160B2	ENSG00000158863	ENST00000462914	retained_intron	KNOWN	None	16492	None	None	21957330	21958692	1	RAI16	FLJ21801
8	FAM160B2	ENSG00000158863	ENST00000491733	retained_intron	KNOWN	None	16492	None	None	21957649	21958598	1	RAI16	FLJ21801
8	FAM160B2	ENSG00000158863	ENST00000477614	retained_intron	KNOWN	None	16492	None	None	21958701	21959464	1	RAI16	FLJ21801
8	FAM160B2	ENSG00000158863	ENST00000496599	retained_intron	KNOWN	None	16492	None	None	21958994	21961890	1	RAI16	FLJ21801
8	FAM160B2	ENSG00000158863	ENST00000523633	retained_intron	KNOWN	None	16492	None	None	21960038	21960828	1	RAI16	FLJ21801
HSCHR6_MHC_DBB	SUMO2P1	ENSG00000229210	ENST00000428065	processed_pseudogene	KNOWN	None	13985	None	None	29603795	29604078	-1	SMT3H2P, SUMO2P	SMT3Bp, dJ271M21
HSCHR6_MHC_DBB	SUMO2P1	ENSG00000229210	ENST00000546920	pseudogene	KNOWN	None	13985	None	None	29603795	29604078	-1	SMT3H2P, SUMO2P	SMT3Bp, dJ271M21
6	XPO5	ENSG00000124571	ENST00000265351	protein_coding	KNOWN	CCDS47430	17675	3615	1204	43490072	43543812	-1	None	KIAA1291
6	XPO5	ENSG00000124571	ENST00000455854	retained_intron	KNOWN	None	17675	None	None	43490075	43494363	-1	None	KIAA1291
6	XPO5	ENSG00000124571	ENST00000488195	retained_intron	KNOWN	None	17675	None	None	43492215	43494802	-1	None	KIAA1291
6	XPO5	ENSG00000124571	ENST00000486936	nonsense_mediated_decay	KNOWN	None	17675	182	59	43492272	43495942	-1	None	KIAA1291
6	XPO5	ENSG00000124571	ENST00000455285	protein_coding	NOVEL	None	17675	758	251	43492272	43496651	-1	None	KIAA1291
6	XPO5	ENSG00000124571	ENST00000450462	retained_intron	KNOWN	None	17675	None	None	43494924	43496605	-1	None	KIAA1291
6	XPO5	ENSG00000124571	ENST00000398835	nonsense_mediated_decay	KNOWN	None	17675	74	23	43495897	43515412	-1	None	KIAA1291
6	XPO5	ENSG00000124571	ENST00000515657	retained_intron	KNOWN	None	17675	None	None	43501091	43515418	-1	None	KIAA1291
6	XPO5	ENSG00000124571	ENST00000513451	retained_intron	KNOWN	None	17675	None	None	43515423	43516207	-1	None	KIAA1291
6	XPO5	ENSG00000124571	ENST00000496341	nonsense_mediated_decay	KNOWN	None	17675	324	107	43517271	43530070	-1	None	KIAA1291
6	XPO5	ENSG00000124571	ENST00000424378	processed_transcript	KNOWN	None	17675	None	None	43519061	43526799	-1	None	KIAA1291
6	XPO5	ENSG00000124571	ENST00000398799	nonsense_mediated_decay	KNOWN	None	17675	231	76	43538667	43543722	-1	None	KIAA1291
6	None	ENSG00000217776	ENST00000402666	processed_pseudogene	KNOWN	None	None	None	None	87779874	87780179	-1	None	None
6	RN7SKP209	ENSG00000252697	ENST00000516888	misc_RNA	KNOWN	None	45933	None	None	87792951	87793254	1	None	None
22	CECR6	ENSG00000183307	ENST00000399875	protein_coding	PUTATIVE	CCDS54494	1844	672	223	17597189	17602257	-1	None	None
22	CECR6	ENSG00000183307	ENST00000331437	protein_coding	KNOWN	CCDS13740	1844	1737	578	17597190	17602143	-1	None	None
6	RCN1P1	ENSG00000215477	ENST00000400413	processed_pseudogene	KNOWN	None	39205	None	None	87831411	87832406	-1	None	None
6	None	ENSG00000272008	ENST00000606274	antisense	KNOWN	None	None	None	None	87860877	87865003	-1	None	None
7	UPK3BP1	ENSG00000242435	ENST00000428678	transcribed_unprocessed_pseudogene	KNOWN	None	42353	None	None	76633979	76635091	1	None	None
17	CCL13	ENSG00000181374	ENST00000225844	protein_coding	KNOWN	CCDS11281	10611	297	98	32683471	32685629	1	SCYA13	MCP-4, NCC-1, SCYL1, CKb10, MGC17134
17	CCL13	ENSG00000181374	ENST00000577681	protein_coding	NOVEL	None	10611	190	62	32684504	32685629	1	SCYA13	MCP-4, NCC-1, SCYL1, CKb10, MGC17134
13	POMP	ENSG00000132963	ENST00000380842	protein_coding	KNOWN	CCDS9331	20330	426	141	29233241	29253062	1	C13orf12	HSPC014, UMP1
13	POMP	ENSG00000132963	ENST00000460403	processed_transcript	KNOWN	None	20330	None	None	29233241	29253062	1	C13orf12	HSPC014, UMP1
9	AK8	ENSG00000165695	ENST00000298545	protein_coding	KNOWN	CCDS6954	26526	1440	479	135600965	135754164	-1	C9orf98	FLJ32704
9	AK8	ENSG00000165695	ENST00000477396	processed_transcript	KNOWN	None	26526	None	None	135600965	135754164	-1	C9orf98	FLJ32704
9	AK8	ENSG00000165695	ENST00000476719	processed_transcript	KNOWN	None	26526	None	None	135600965	135754164	-1	C9orf98	FLJ32704
9	AK8	ENSG00000165695	ENST00000467161	processed_transcript	KNOWN	None	26526	None	None	135600970	135602985	-1	C9orf98	FLJ32704
9	AK8	ENSG00000165695	ENST00000482422	processed_transcript	KNOWN	None	26526	None	None	135736783	135739099	-1	C9orf98	FLJ32704
6	None	ENSG00000218313	ENST00000402374	processed_pseudogene	KNOWN	None	None	None	None	87883086	87884021	-1	None	None
7	PMS2P11	ENSG00000241350	ENST00000451831	transcribed_unprocessed_pseudogene	KNOWN	None	9125	None	None	76640868	76645170	1	PMS2L11	PMSR6
22	None	ENSG00000235478	ENST00000428078	nonsense_mediated_decay	KNOWN	None	None	198	65	17602476	17611333	1	None	None
22	None	ENSG00000235478	ENST00000441544	protein_coding	PUTATIVE	None	None	321	106	17602485	17612994	1	None	None
6	USP45	ENSG00000123552	ENST00000500704	protein_coding	KNOWN	CCDS34501	20080	2445	814	99880255	99963301	-1	None	MGC14793
6	USP45	ENSG00000123552	ENST00000496518	nonsense_mediated_decay	KNOWN	None	20080	628	208	99880312	99956657	-1	None	MGC14793
6	USP45	ENSG00000123552	ENST00000327681	protein_coding	KNOWN	CCDS34501	20080	2445	814	99880315	99963252	-1	None	MGC14793
6	USP45	ENSG00000123552	ENST00000369233	protein_coding	NOVEL	None	20080	2301	766	99883420	99963298	-1	None	MGC14793
6	USP45	ENSG00000123552	ENST00000513344	retained_intron	KNOWN	None	20080	None	None	99893838	99912778	-1	None	MGC14793
6	USP45	ENSG00000123552	ENST00000506871	nonsense_mediated_decay	KNOWN	None	20080	1038	345	99910340	99958106	-1	None	MGC14793
6	USP45	ENSG00000123552	ENST00000511403	protein_coding	PUTATIVE	None	20080	408	135	99910472	99930741	-1	None	MGC14793
6	USP45	ENSG00000123552	ENST00000496090	protein_coding	PUTATIVE	None	20080	446	147	99910474	99924083	-1	None	MGC14793
6	USP45	ENSG00000123552	ENST00000507717	nonsense_mediated_decay	KNOWN	None	20080	575	190	99912512	99951649	-1	None	MGC14793
6	USP45	ENSG00000123552	ENST00000329966	protein_coding	KNOWN	None	20080	870	289	99930137	99963365	-1	None	MGC14793
6	USP45	ENSG00000123552	ENST00000472914	protein_coding	KNOWN	None	20080	870	289	99930390	99963252	-1	None	MGC14793
6	USP45	ENSG00000123552	ENST00000369232	processed_transcript	KNOWN	None	20080	None	None	99949619	99963294	-1	None	MGC14793
6	USP45	ENSG00000123552	ENST00000508908	protein_coding	KNOWN	None	20080	157	51	99956602	99969604	-1	None	MGC14793
6	USP45	ENSG00000123552	ENST00000392738	protein_coding	KNOWN	None	20080	1485	494	99880190	99963252	-1	None	MGC14793
6	USP45	ENSG00000123552	ENST00000539675	protein_coding	KNOWN	None	20080	324	107	99880317	99912512	-1	None	MGC14793
6	USP45	ENSG00000123552	ENST00000369231	protein_coding	KNOWN	None	20080	549	182	99949815	99958116	-1	None	MGC14793
1	AHCYL1	ENSG00000168710	ENST00000369799	protein_coding	KNOWN	CCDS818	344	1593	530	110527308	110566357	1	None	XPVKONA, IRBIT
1	AHCYL1	ENSG00000168710	ENST00000475081	processed_transcript	KNOWN	None	344	None	None	110527637	110558153	1	None	XPVKONA, IRBIT
1	AHCYL1	ENSG00000168710	ENST00000359172	protein_coding	KNOWN	CCDS55620	344	1452	483	110546753	110565011	1	None	XPVKONA, IRBIT
1	AHCYL1	ENSG00000168710	ENST00000481423	processed_transcript	KNOWN	None	344	None	None	110560117	110564667	1	None	XPVKONA, IRBIT
1	AHCYL1	ENSG00000168710	ENST00000469401	processed_transcript	KNOWN	None	344	None	None	110561054	110561712	1	None	XPVKONA, IRBIT
1	AHCYL1	ENSG00000168710	ENST00000393614	protein_coding	KNOWN	CCDS55620	344	1452	483	110546755	110564319	1	None	XPVKONA, IRBIT
11	FGF3	ENSG00000186895	ENST00000334134	protein_coding	KNOWN	CCDS8195	3681	720	239	69624992	69633792	-1	INT2	HBGF-3
HSCHR6_MHC_MANN	HLA-DMB	ENSG00000239329	ENST00000472082	retained_intron	KNOWN	None	4935	None	None	33056220	33058477	-1	None	D6S221E, RING7
HSCHR6_MHC_MANN	HLA-DMB	ENSG00000239329	ENST00000462635	retained_intron	KNOWN	None	4935	None	None	33056220	33058492	-1	None	D6S221E, RING7
HSCHR6_MHC_MANN	HLA-DMB	ENSG00000239329	ENST00000421456	protein_coding	KNOWN	None	4935	321	106	33056220	33059030	-1	None	D6S221E, RING7
HSCHR6_MHC_MANN	HLA-DMB	ENSG00000239329	ENST00000413038	protein_coding	KNOWN	None	4935	424	140	33056220	33060279	-1	None	D6S221E, RING7
HSCHR6_MHC_MANN	HLA-DMB	ENSG00000239329	ENST00000487546	retained_intron	KNOWN	None	4935	None	None	33056220	33062575	-1	None	D6S221E, RING7
HSCHR6_MHC_MANN	HLA-DMB	ENSG00000239329	ENST00000452407	protein_coding	KNOWN	None	4935	774	257	33056220	33062612	-1	None	D6S221E, RING7
HSCHR6_MHC_MANN	HLA-DMB	ENSG00000239329	ENST00000428420	protein_coding	KNOWN	None	4935	792	263	33056220	33062661	-1	None	D6S221E, RING7
HSCHR6_MHC_MANN	HLA-DMB	ENSG00000239329	ENST00000415927	protein_coding	KNOWN	None	4935	526	174	33058955	33074714	-1	None	D6S221E, RING7
HSCHR6_MHC_MANN	HLA-DMB	ENSG00000239329	ENST00000549556	protein_coding	KNOWN	None	4935	288	95	33056229	33062631	-1	None	D6S221E, RING7
HSCHR6_MHC_MANN	HLA-DMB	ENSG00000239329	ENST00000550052	protein_coding	KNOWN	None	4935	207	68	33056229	33062631	-1	None	D6S221E, RING7
HSCHR6_MHC_MANN	HLA-DMB	ENSG00000239329	ENST00000547313	protein_coding	KNOWN	None	4935	171	56	33056562	33062398	-1	None	D6S221E, RING7
9	CNN2P4	ENSG00000213816	ENST00000396461	processed_pseudogene	KNOWN	None	39529	None	None	43997830	43998733	1	None	None
7	LIMK1	ENSG00000106683	ENST00000418310	protein_coding	PUTATIVE	None	6613	2034	677	73497263	73536855	1	None	LIMK
7	LIMK1	ENSG00000106683	ENST00000336180	protein_coding	KNOWN	CCDS5563	6613	1944	647	73498270	73536855	1	None	LIMK
7	LIMK1	ENSG00000106683	ENST00000435201	nonsense_mediated_decay	KNOWN	None	6613	918	305	73498321	73535631	1	None	LIMK
7	LIMK1	ENSG00000106683	ENST00000538333	protein_coding	KNOWN	CCDS56491	6613	1842	613	73507409	73535788	1	None	LIMK
7	LIMK1	ENSG00000106683	ENST00000486361	processed_transcript	KNOWN	None	6613	None	None	73508286	73511519	1	None	LIMK
7	LIMK1	ENSG00000106683	ENST00000491052	processed_transcript	KNOWN	None	6613	None	None	73508563	73520235	1	None	LIMK
7	LIMK1	ENSG00000106683	ENST00000483414	retained_intron	KNOWN	None	6613	None	None	73511433	73525770	1	None	LIMK
7	LIMK1	ENSG00000106683	ENST00000476792	retained_intron	KNOWN	None	6613	None	None	73529698	73535359	1	None	LIMK
7	ATXN7L1	ENSG00000146776	ENST00000419735	protein_coding	KNOWN	CCDS47682	22210	2586	861	105245514	105517050	-1	ATXN7L4	KIAA1218, MGC33190
7	ATXN7L1	ENSG00000146776	ENST00000477775	protein_coding	PUTATIVE	CCDS47683	22210	2217	738	105248218	105319609	-1	ATXN7L4	KIAA1218, MGC33190
7	ATXN7L1	ENSG00000146776	ENST00000484475	protein_coding	PUTATIVE	None	22210	1725	574	105253921	105264713	-1	ATXN7L4	KIAA1218, MGC33190
7	ATXN7L1	ENSG00000146776	ENST00000474433	nonsense_mediated_decay	KNOWN	None	22210	207	68	105253921	105318465	-1	ATXN7L4	KIAA1218, MGC33190
7	ATXN7L1	ENSG00000146776	ENST00000472195	protein_coding	PUTATIVE	None	22210	2229	742	105254180	105332084	-1	ATXN7L4	KIAA1218, MGC33190
7	ATXN7L1	ENSG00000146776	ENST00000472910	processed_transcript	KNOWN	None	22210	None	None	105260680	105318470	-1	ATXN7L4	KIAA1218, MGC33190
7	ATXN7L1	ENSG00000146776	ENST00000485652	processed_transcript	KNOWN	None	22210	None	None	105278816	105319653	-1	ATXN7L4	KIAA1218, MGC33190
7	ATXN7L1	ENSG00000146776	ENST00000318724	protein_coding	KNOWN	CCDS34727	22210	441	146	105400819	105517028	-1	ATXN7L4	KIAA1218, MGC33190
7	ATXN7L1	ENSG00000146776	ENST00000478915	protein_coding	NOVEL	None	22210	288	95	105401000	105516923	-1	ATXN7L4	KIAA1218, MGC33190
7	ATXN7L1	ENSG00000146776	ENST00000481880	retained_intron	KNOWN	None	22210	None	None	105428569	105517038	-1	ATXN7L4	KIAA1218, MGC33190
7	ATXN7L1	ENSG00000146776	ENST00000464874	processed_transcript	KNOWN	None	22210	None	None	105515537	105517020	-1	ATXN7L4	KIAA1218, MGC33190
7	ATXN7L1	ENSG00000146776	ENST00000388807	protein_coding	KNOWN	None	22210	1602	533	105253923	105264713	-1	ATXN7L4	KIAA1218, MGC33190
7	PAX4	ENSG00000106331	ENST00000341640	protein_coding	KNOWN	CCDS5797	8618	1032	343	127250346	127255780	-1	None	MODY9
7	PAX4	ENSG00000106331	ENST00000378740	protein_coding	PUTATIVE	None	8618	1023	340	127250865	127255982	-1	None	MODY9
7	PAX4	ENSG00000106331	ENST00000483494	nonsense_mediated_decay	KNOWN	None	8618	774	257	127250991	127255724	-1	None	MODY9
7	PAX4	ENSG00000106331	ENST00000463946	protein_coding	PUTATIVE	None	8618	1026	341	127250992	127255724	-1	None	MODY9
7	PAX4	ENSG00000106331	ENST00000477423	retained_intron	KNOWN	None	8618	None	None	127251805	127255263	-1	None	MODY9
7	PAX4	ENSG00000106331	ENST00000338516	protein_coding	KNOWN	None	8618	822	273	127250346	127255982	-1	None	MODY9
5	NDUFS4	ENSG00000164258	ENST00000507026	nonsense_mediated_decay	KNOWN	None	7711	150	49	52856463	52979049	1	None	AQDQ, CI-18
5	NDUFS4	ENSG00000164258	ENST00000502423	nonsense_mediated_decay	KNOWN	None	7711	222	73	52856465	52978968	1	None	AQDQ, CI-18
5	NDUFS4	ENSG00000164258	ENST00000296684	protein_coding	KNOWN	CCDS3960	7711	528	175	52856465	52979168	1	None	AQDQ, CI-18
5	NDUFS4	ENSG00000164258	ENST00000506974	nonsense_mediated_decay	KNOWN	None	7711	396	131	52856477	52979168	1	None	AQDQ, CI-18
5	NDUFS4	ENSG00000164258	ENST00000506765	protein_coding	NOVEL	None	7711	351	116	52856505	52979168	1	None	AQDQ, CI-18
5	NDUFS4	ENSG00000164258	ENST00000509443	retained_intron	KNOWN	None	7711	None	None	52942025	52954619	1	None	AQDQ, CI-18
11	THY1	ENSG00000154096	ENST00000284240	protein_coding	KNOWN	CCDS8424	11801	486	161	119288090	119294838	-1	None	CD90
11	THY1	ENSG00000154096	ENST00000584021	retained_intron	KNOWN	None	11801	None	None	119289530	119291956	-1	None	CD90
11	THY1	ENSG00000154096	ENST00000528522	protein_coding	KNOWN	CCDS8424	11801	486	161	119289530	119293272	-1	None	CD90
11	THY1	ENSG00000154096	ENST00000528295	nonsense_mediated_decay	KNOWN	None	11801	114	37	119289783	119293882	-1	None	CD90
11	THY1	ENSG00000154096	ENST00000527590	processed_transcript	KNOWN	None	11801	None	None	119290018	119293882	-1	None	CD90
11	THY1	ENSG00000154096	ENST00000524970	protein_coding	KNOWN	None	11801	497	164	119290018	119293882	-1	None	CD90
11	THY1	ENSG00000154096	ENST00000580275	protein_coding	NOVEL	None	11801	435	144	119290085	119293908	-1	None	CD90
11	THY1	ENSG00000154096	ENST00000524659	protein_coding	KNOWN	None	11801	458	151	119290146	119295695	-1	None	CD90
11	THY1	ENSG00000154096	ENST00000532974	retained_intron	KNOWN	None	11801	None	None	119290175	119293909	-1	None	CD90
11	THY1	ENSG00000154096	ENST00000533840	retained_intron	KNOWN	None	11801	None	None	119291119	119293911	-1	None	CD90
2	TP53I3	ENSG00000115129	ENST00000335934	protein_coding	KNOWN	CCDS1708	19373	999	332	24300303	24308085	-1	None	PIG3
2	TP53I3	ENSG00000115129	ENST00000238721	protein_coding	KNOWN	CCDS1708	19373	999	332	24300305	24308051	-1	None	PIG3
2	TP53I3	ENSG00000115129	ENST00000407482	protein_coding	PUTATIVE	CCDS56112	19373	747	248	24300504	24307196	-1	None	PIG3
2	TP53I3	ENSG00000115129	ENST00000417886	processed_transcript	KNOWN	None	19373	None	None	24302372	24307381	-1	None	PIG3
2	TP53I3	ENSG00000115129	ENST00000413037	protein_coding	KNOWN	None	19373	651	216	24303616	24307181	-1	None	PIG3
2	TP53I3	ENSG00000115129	ENST00000470636	processed_transcript	PUTATIVE	None	19373	None	None	24307619	24308731	-1	None	PIG3
2	TP53I3	ENSG00000115129	ENST00000313482	protein_coding	KNOWN	CCDS56112	19373	747	248	24300306	24307655	-1	None	PIG3
4	None	ENSG00000250839	ENST00000506509	unprocessed_pseudogene	KNOWN	None	None	None	None	179990591	179990748	1	None	None
17	EXOC7	ENSG00000182473	ENST00000591724	processed_transcript	KNOWN	None	23214	None	None	74077098	74079095	-1	None	EXO70, KIAA1067, YJL085W, Exo70p
17	EXOC7	ENSG00000182473	ENST00000332065	protein_coding	KNOWN	CCDS11741	23214	1962	653	74077098	74099776	-1	None	EXO70, KIAA1067, YJL085W, Exo70p
17	EXOC7	ENSG00000182473	ENST00000465252	retained_intron	KNOWN	None	23214	None	None	74077099	74080797	-1	None	EXO70, KIAA1067, YJL085W, Exo70p
17	EXOC7	ENSG00000182473	ENST00000589210	protein_coding	KNOWN	CCDS32738	23214	2055	684	74077099	74099839	-1	None	EXO70, KIAA1067, YJL085W, Exo70p
17	EXOC7	ENSG00000182473	ENST00000335146	protein_coding	KNOWN	CCDS45782	23214	2208	735	74078472	74099827	-1	None	EXO70, KIAA1067, YJL085W, Exo70p
17	EXOC7	ENSG00000182473	ENST00000467929	protein_coding	PUTATIVE	None	23214	1971	656	74079600	74099604	-1	None	EXO70, KIAA1067, YJL085W, Exo70p
17	EXOC7	ENSG00000182473	ENST00000405575	protein_coding	NOVEL	None	23214	2082	693	74079657	74099827	-1	None	EXO70, KIAA1067, YJL085W, Exo70p
17	EXOC7	ENSG00000182473	ENST00000467586	retained_intron	KNOWN	None	23214	None	None	74079658	74085889	-1	None	EXO70, KIAA1067, YJL085W, Exo70p
17	EXOC7	ENSG00000182473	ENST00000357231	protein_coding	NOVEL	None	23214	1853	616	74079658	74097934	-1	None	EXO70, KIAA1067, YJL085W, Exo70p
17	EXOC7	ENSG00000182473	ENST00000411744	protein_coding	KNOWN	CCDS45781	23214	2031	676	74079729	74099773	-1	None	EXO70, KIAA1067, YJL085W, Exo70p
17	EXOC7	ENSG00000182473	ENST00000494787	retained_intron	KNOWN	None	23214	None	None	74081191	74083789	-1	None	EXO70, KIAA1067, YJL085W, Exo70p
17	EXOC7	ENSG00000182473	ENST00000460476	retained_intron	KNOWN	None	23214	None	None	74081450	74084022	-1	None	EXO70, KIAA1067, YJL085W, Exo70p
17	EXOC7	ENSG00000182473	ENST00000592559	nonsense_mediated_decay	KNOWN	None	23214	102	33	74081758	74090570	-1	None	EXO70, KIAA1067, YJL085W, Exo70p
17	EXOC7	ENSG00000182473	ENST00000486053	retained_intron	KNOWN	None	23214	None	None	74083358	74084196	-1	None	EXO70, KIAA1067, YJL085W, Exo70p
17	EXOC7	ENSG00000182473	ENST00000405068	retained_intron	KNOWN	None	23214	None	None	74088396	74099824	-1	None	EXO70, KIAA1067, YJL085W, Exo70p
17	EXOC7	ENSG00000182473	ENST00000420116	protein_coding	PUTATIVE	None	23214	366	121	74090592	74099307	-1	None	EXO70, KIAA1067, YJL085W, Exo70p
17	EXOC7	ENSG00000182473	ENST00000442951	protein_coding	PUTATIVE	None	23214	363	120	74093995	74099351	-1	None	EXO70, KIAA1067, YJL085W, Exo70p
17	EXOC7	ENSG00000182473	ENST00000589507	protein_coding	PUTATIVE	None	23214	504	167	74094070	74117657	-1	None	EXO70, KIAA1067, YJL085W, Exo70p
17	EXOC7	ENSG00000182473	ENST00000406660	protein_coding	PUTATIVE	None	23214	480	159	74097093	74099815	-1	None	EXO70, KIAA1067, YJL085W, Exo70p
17	EXOC7	ENSG00000182473	ENST00000607838	protein_coding	KNOWN	CCDS45783	23214	2124	707	74077087	74099868	-1	None	EXO70, KIAA1067, YJL085W, Exo70p
10	FAM53B	ENSG00000189319	ENST00000337318	protein_coding	KNOWN	CCDS7641	28968	1269	422	126307861	126432619	-1	KIAA0140	bA12J10.2
10	FAM53B	ENSG00000189319	ENST00000392754	protein_coding	KNOWN	CCDS7641	28968	1269	422	126310240	126431539	-1	KIAA0140	bA12J10.2
10	FAM53B	ENSG00000189319	ENST00000280780	protein_coding	NOVEL	None	28968	918	305	126355759	126432838	-1	KIAA0140	bA12J10.2
4	None	ENSG00000250993	ENST00000512036	lincRNA	KNOWN	None	None	None	None	180310288	180386459	-1	None	None
7	None	ENSG00000234133	ENST00000440438	lincRNA	KNOWN	None	None	None	None	30586782	30590397	-1	None	None
22	CECR5	ENSG00000069998	ENST00000155674	protein_coding	KNOWN	CCDS13741	1843	1182	393	17618401	17646177	-1	None	None
22	CECR5	ENSG00000069998	ENST00000336737	protein_coding	KNOWN	CCDS33595	1843	1272	423	17618410	17640167	-1	None	None
22	CECR5	ENSG00000069998	ENST00000477157	retained_intron	KNOWN	None	1843	None	None	17618412	17624537	-1	None	None
22	CECR5	ENSG00000069998	ENST00000399852	protein_coding	NOVEL	None	1843	672	223	17618469	17640145	-1	None	None
22	CECR5	ENSG00000069998	ENST00000486462	retained_intron	KNOWN	None	1843	None	None	17618472	17622733	-1	None	None
22	CECR5	ENSG00000069998	ENST00000463033	processed_transcript	KNOWN	None	1843	None	None	17629338	17639876	-1	None	None
22	CECR5	ENSG00000069998	ENST00000480451	processed_transcript	KNOWN	None	1843	None	None	17629339	17640058	-1	None	None
4	None	ENSG00000248921	ENST00000511607	processed_pseudogene	KNOWN	None	None	None	None	180778006	180778734	1	None	None
4	None	ENSG00000251025	ENST00000508134	processed_pseudogene	KNOWN	None	None	None	None	181494617	181495180	-1	None	None
15	None	ENSG00000260170	ENST00000564080	protein_coding	NOVEL	None	None	868	288	45879549	45968512	1	None	None
HSCHR6_MHC_QBL	TUBB	ENSG00000183311	ENST00000383564	protein_coding	KNOWN	None	20778	1335	444	30677512	30682738	1	None	OK/SW-cl.56, MGC16435, M40, Tubb5
HSCHR6_MHC_QBL	TUBB	ENSG00000183311	ENST00000400531	protein_coding	KNOWN	None	20778	1119	372	30678885	30682738	1	None	OK/SW-cl.56, MGC16435, M40, Tubb5
HSCHR6_MHC_QBL	TUBB	ENSG00000183311	ENST00000400534	protein_coding	KNOWN	None	20778	1281	426	30678978	30682738	1	None	OK/SW-cl.56, MGC16435, M40, Tubb5
HSCHR6_MHC_QBL	TUBB	ENSG00000183311	ENST00000400530	protein_coding	KNOWN	None	20778	1119	372	30679010	30682738	1	None	OK/SW-cl.56, MGC16435, M40, Tubb5
HSCHR6_MHC_QBL	TUBB	ENSG00000183311	ENST00000551208	protein_coding	KNOWN	None	20778	1308	435	30677668	30681841	1	None	OK/SW-cl.56, MGC16435, M40, Tubb5
4	RNY5P4	ENSG00000222861	ENST00000410929	misc_RNA	KNOWN	None	34085	None	None	130781577	130781655	-1	None	None
7	None	ENSG00000263683	ENST00000579437	lincRNA	KNOWN	None	None	None	None	30589833	30591185	1	None	None
3	ZDHHC23	ENSG00000184307	ENST00000330212	protein_coding	KNOWN	CCDS33827	28654	1230	409	113666748	113681829	1	None	MGC42530
3	ZDHHC23	ENSG00000184307	ENST00000498275	protein_coding	PUTATIVE	None	28654	1212	403	113666822	113680161	1	None	MGC42530
3	ZDHHC23	ENSG00000184307	ENST00000478793	nonsense_mediated_decay	KNOWN	None	28654	1239	412	113666912	113681825	1	None	MGC42530
3	ZDHHC23	ENSG00000184307	ENST00000491556	protein_coding	KNOWN	None	28654	444	147	113667354	113672829	1	None	MGC42530
3	ZDHHC23	ENSG00000184307	ENST00000488129	processed_transcript	PUTATIVE	None	28654	None	None	113676421	113682211	1	None	MGC42530
3	ZDHHC23	ENSG00000184307	ENST00000496083	protein_coding	PUTATIVE	None	28654	228	75	113677301	113684248	1	None	MGC42530
7	CCDC129	ENSG00000180347	ENST00000409717	protein_coding	KNOWN	None	27363	427	141	31553704	31614185	1	None	FLJ38344
7	CCDC129	ENSG00000180347	ENST00000456011	protein_coding	KNOWN	None	27363	504	167	31553704	31614262	1	None	FLJ38344
7	CCDC129	ENSG00000180347	ENST00000319386	protein_coding	KNOWN	None	27363	2691	896	31556978	31693303	1	None	FLJ38344
7	CCDC129	ENSG00000180347	ENST00000407970	protein_coding	KNOWN	CCDS5435	27363	3135	1044	31557933	31692539	1	None	FLJ38344
7	CCDC129	ENSG00000180347	ENST00000482748	processed_transcript	KNOWN	None	27363	None	None	31569076	31614232	1	None	FLJ38344
7	CCDC129	ENSG00000180347	ENST00000454513	protein_coding	KNOWN	None	27363	491	162	31569370	31614249	1	None	FLJ38344
7	CCDC129	ENSG00000180347	ENST00000409210	protein_coding	PUTATIVE	None	27363	2859	952	31594018	31696116	1	None	FLJ38344
7	CCDC129	ENSG00000180347	ENST00000471139	retained_intron	KNOWN	None	27363	None	None	31594086	31594957	1	None	FLJ38344
7	CCDC129	ENSG00000180347	ENST00000463693	processed_transcript	PUTATIVE	None	27363	None	None	31691596	31696116	1	None	FLJ38344
7	CCDC129	ENSG00000180347	ENST00000451887	protein_coding	KNOWN	CCDS59050	27363	3189	1062	31569371	31698334	1	None	FLJ38344
19	ZNF85	ENSG00000105750	ENST00000597314	protein_coding	PUTATIVE	None	13160	189	62	21106028	21131721	1	None	HPF4, HTF1
19	ZNF85	ENSG00000105750	ENST00000601924	protein_coding	NOVEL	None	13160	358	118	21106059	21131699	1	None	HPF4, HTF1
19	ZNF85	ENSG00000105750	ENST00000300540	protein_coding	PUTATIVE	CCDS58657	13160	264	87	21106082	21126783	1	None	HPF4, HTF1
19	ZNF85	ENSG00000105750	ENST00000595854	protein_coding	PUTATIVE	None	13160	440	145	21106091	21128515	1	None	HPF4, HTF1
19	ZNF85	ENSG00000105750	ENST00000601284	protein_coding	NOVEL	None	13160	367	121	21106091	21131597	1	None	HPF4, HTF1
19	ZNF85	ENSG00000105750	ENST00000328178	protein_coding	KNOWN	CCDS32977	13160	1788	595	21106094	21133503	1	None	HPF4, HTF1
19	ZNF85	ENSG00000105750	ENST00000599885	protein_coding	PUTATIVE	None	13160	387	128	21106110	21131899	1	None	HPF4, HTF1
19	ZNF85	ENSG00000105750	ENST00000596476	protein_coding	PUTATIVE	None	13160	168	55	21106116	21126532	1	None	HPF4, HTF1
19	ZNF85	ENSG00000105750	ENST00000345030	protein_coding	NOVEL	None	13160	1689	562	21106207	21133108	1	None	HPF4, HTF1
19	ZNF85	ENSG00000105750	ENST00000599064	protein_coding	PUTATIVE	None	13160	704	233	21119398	21132255	1	None	HPF4, HTF1
19	ZNF85	ENSG00000105750	ENST00000596534	protein_coding	PUTATIVE	None	13160	1527	508	21119402	21133003	1	None	HPF4, HTF1
19	ZNF85	ENSG00000105750	ENST00000598862	protein_coding	PUTATIVE	None	13160	424	140	21119412	21131975	1	None	HPF4, HTF1
19	ZNF85	ENSG00000105750	ENST00000595742	protein_coding	PUTATIVE	None	13160	694	230	21119412	21132170	1	None	HPF4, HTF1
19	ZNF85	ENSG00000105750	ENST00000601023	protein_coding	PUTATIVE	None	13160	1611	536	21119470	21133503	1	None	HPF4, HTF1
20	None	ENSG00000251390	ENST00000505691	processed_transcript	PUTATIVE	None	None	None	None	825767	838106	1	None	None
7	None	ENSG00000236455	ENST00000454922	antisense	KNOWN	None	None	None	None	30617128	30625588	-1	None	None
19	ZNF440	ENSG00000171295	ENST00000304060	protein_coding	KNOWN	CCDS42503	20874	1788	595	11925099	11946016	1	None	FLJ37933
19	ZNF440	ENSG00000171295	ENST00000457526	protein_coding	PUTATIVE	None	20874	159	52	11925102	11942516	1	None	FLJ37933
19	ZNF440	ENSG00000171295	ENST00000427505	protein_coding	NOVEL	None	20874	816	271	11925159	11942798	1	None	FLJ37933
19	ZNF440	ENSG00000171295	ENST00000588954	protein_coding	PUTATIVE	None	20874	148	48	11926624	11942235	1	None	FLJ37933
19	ZNF440	ENSG00000171295	ENST00000587795	retained_intron	KNOWN	None	20874	None	None	11926832	11928490	1	None	FLJ37933
19	ZNF440	ENSG00000171295	ENST00000414255	protein_coding	PUTATIVE	None	20874	508	168	11940801	11942493	1	None	FLJ37933
20	ACTG1P3	ENSG00000215388	ENST00000431775	processed_pseudogene	KNOWN	None	148	None	None	1141228	1142341	1	ACTGP3	None
22	TOP3B	ENSG00000100038	ENST00000357179	protein_coding	KNOWN	CCDS13797	11993	2589	862	22311397	22337213	-1	None	None
22	TOP3B	ENSG00000100038	ENST00000457270	protein_coding	PUTATIVE	None	11993	1577	524	22311399	22323112	-1	None	None
22	TOP3B	ENSG00000100038	ENST00000457179	nonsense_mediated_decay	KNOWN	None	11993	390	129	22311399	22337187	-1	None	None
22	TOP3B	ENSG00000100038	ENST00000398793	protein_coding	KNOWN	CCDS13797	11993	2589	862	22311403	22337147	-1	None	None
22	TOP3B	ENSG00000100038	ENST00000444502	nonsense_mediated_decay	KNOWN	None	11993	390	129	22311403	22337187	-1	None	None
22	TOP3B	ENSG00000100038	ENST00000436282	nonsense_mediated_decay	KNOWN	None	11993	507	168	22311404	22322022	-1	None	None
22	TOP3B	ENSG00000100038	ENST00000470338	retained_intron	KNOWN	None	11993	None	None	22316500	22317267	-1	None	None
22	TOP3B	ENSG00000100038	ENST00000424393	protein_coding	KNOWN	None	11993	738	245	22322991	22337177	-1	None	None
22	TOP3B	ENSG00000100038	ENST00000487485	retained_intron	KNOWN	None	11993	None	None	22324707	22326004	-1	None	None
22	TOP3B	ENSG00000100038	ENST00000437929	protein_coding	KNOWN	None	11993	366	121	22326267	22337163	-1	None	None
22	TOP3B	ENSG00000100038	ENST00000430142	protein_coding	KNOWN	None	11993	364	120	22326269	22337210	-1	None	None
22	TOP3B	ENSG00000100038	ENST00000489581	retained_intron	KNOWN	None	11993	None	None	22326591	22330168	-1	None	None
22	TOP3B	ENSG00000100038	ENST00000456075	protein_coding	KNOWN	None	11993	183	60	22328748	22337163	-1	None	None
22	TOP3B	ENSG00000100038	ENST00000449704	protein_coding	KNOWN	None	11993	180	59	22328751	22337184	-1	None	None
22	TOP3B	ENSG00000100038	ENST00000442653	protein_coding	KNOWN	None	11993	140	45	22328791	22330341	-1	None	None
22	TOP3B	ENSG00000100038	ENST00000437103	protein_coding	KNOWN	None	11993	126	41	22328805	22337190	-1	None	None
22	TOP3B	ENSG00000100038	ENST00000434517	protein_coding	KNOWN	None	11993	64	20	22330018	22337170	-1	None	None
22	TOP3B	ENSG00000100038	ENST00000413067	protein_coding	KNOWN	None	11993	849	282	22313894	22337163	-1	None	None
15	LTK	ENSG00000062524	ENST00000355166	protein_coding	KNOWN	CCDS10078	6721	2412	803	41795836	41806077	-1	None	TYK1
15	LTK	ENSG00000062524	ENST00000263800	protein_coding	KNOWN	CCDS10077	6721	2595	864	41795840	41806004	-1	None	TYK1
15	LTK	ENSG00000062524	ENST00000563518	retained_intron	KNOWN	None	6721	None	None	41795840	41806058	-1	None	TYK1
15	LTK	ENSG00000062524	ENST00000561619	protein_coding	NOVEL	None	6721	1689	562	41796149	41805994	-1	None	TYK1
15	LTK	ENSG00000062524	ENST00000453182	protein_coding	KNOWN	CCDS45237	6721	2205	734	41796165	41806085	-1	None	TYK1
15	LTK	ENSG00000062524	ENST00000569283	retained_intron	KNOWN	None	6721	None	None	41797456	41800434	-1	None	TYK1
1	PUM1	ENSG00000134644	ENST00000424085	protein_coding	NOVEL	None	14957	2835	944	31404353	31538542	-1	None	PUMH1, KIAA0099
1	PUM1	ENSG00000134644	ENST00000257075	protein_coding	KNOWN	CCDS338	14957	3561	1186	31404353	31538545	-1	None	PUMH1, KIAA0099
1	PUM1	ENSG00000134644	ENST00000373747	protein_coding	NOVEL	None	14957	3570	1189	31404353	31538551	-1	None	PUMH1, KIAA0099
1	PUM1	ENSG00000134644	ENST00000525843	protein_coding	PUTATIVE	None	14957	3376	1124	31404906	31538573	-1	None	PUMH1, KIAA0099
1	PUM1	ENSG00000134644	ENST00000426105	protein_coding	KNOWN	CCDS44099	14957	3567	1188	31405673	31538542	-1	None	PUMH1, KIAA0099
1	PUM1	ENSG00000134644	ENST00000498419	protein_coding	NOVEL	None	14957	2701	899	31405691	31467906	-1	None	PUMH1, KIAA0099
1	PUM1	ENSG00000134644	ENST00000440538	protein_coding	KNOWN	None	14957	3489	1162	31405691	31538531	-1	None	PUMH1, KIAA0099
1	PUM1	ENSG00000134644	ENST00000373741	protein_coding	PUTATIVE	None	14957	3675	1224	31405697	31538838	-1	None	PUMH1, KIAA0099
1	PUM1	ENSG00000134644	ENST00000373742	protein_coding	PUTATIVE	None	14957	3384	1127	31405927	31538632	-1	None	PUMH1, KIAA0099
1	PUM1	ENSG00000134644	ENST00000530669	nonsense_mediated_decay	KNOWN	None	14957	231	76	31406152	31418219	-1	None	PUMH1, KIAA0099
1	PUM1	ENSG00000134644	ENST00000529846	protein_coding	NOVEL	None	14957	683	226	31409569	31426604	-1	None	PUMH1, KIAA0099
1	PUM1	ENSG00000134644	ENST00000525997	protein_coding	NOVEL	None	14957	650	215	31409571	31426591	-1	None	PUMH1, KIAA0099
1	PUM1	ENSG00000134644	ENST00000527498	nonsense_mediated_decay	KNOWN	None	14957	273	90	31418248	31437719	-1	None	PUMH1, KIAA0099
1	PUM1	ENSG00000134644	ENST00000498627	retained_intron	KNOWN	None	14957	None	None	31437735	31439227	-1	None	PUMH1, KIAA0099
1	PUM1	ENSG00000134644	ENST00000471894	retained_intron	KNOWN	None	14957	None	None	31438863	31447706	-1	None	PUMH1, KIAA0099
1	PUM1	ENSG00000134644	ENST00000490546	processed_transcript	KNOWN	None	14957	None	None	31438994	31452980	-1	None	PUMH1, KIAA0099
1	PUM1	ENSG00000134644	ENST00000532678	protein_coding	NOVEL	None	14957	793	263	31440072	31467951	-1	None	PUMH1, KIAA0099
1	PUM1	ENSG00000134644	ENST00000526128	processed_transcript	KNOWN	None	14957	None	None	31447496	31454992	-1	None	PUMH1, KIAA0099
1	PUM1	ENSG00000134644	ENST00000526215	nonsense_mediated_decay	KNOWN	None	14957	285	94	31454185	31538523	-1	None	PUMH1, KIAA0099
1	PUM1	ENSG00000134644	ENST00000525948	nonsense_mediated_decay	KNOWN	None	14957	285	94	31465288	31538542	-1	None	PUMH1, KIAA0099
1	PUM1	ENSG00000134644	ENST00000480602	nonsense_mediated_decay	KNOWN	None	14957	375	124	31468029	31538530	-1	None	PUMH1, KIAA0099
1	PUM1	ENSG00000134644	ENST00000524516	retained_intron	KNOWN	None	14957	None	None	31501605	31538542	-1	None	PUMH1, KIAA0099
1	PUM1	ENSG00000134644	ENST00000531867	protein_coding	KNOWN	None	14957	288	95	31532126	31534763	-1	None	PUMH1, KIAA0099
1	PUM1	ENSG00000134644	ENST00000423018	protein_coding	KNOWN	None	14957	3135	1044	31405710	31538540	-1	None	PUMH1, KIAA0099
7	None	ENSG00000223419	ENST00000425261	processed_pseudogene	KNOWN	None	None	None	None	30782047	30782434	-1	None	None
10	MARCKSL1P1	ENSG00000213277	ENST00000412473	processed_pseudogene	KNOWN	None	45239	None	None	104935311	104935851	1	None	None
4	PGRMC2	ENSG00000164040	ENST00000296425	protein_coding	KNOWN	None	16089	672	223	129190397	129208966	-1	None	PMBP, DG6
4	PGRMC2	ENSG00000164040	ENST00000520121	protein_coding	KNOWN	CCDS3739	16089	744	247	129190397	129209984	-1	None	PMBP, DG6
4	PGRMC2	ENSG00000164040	ENST00000394276	protein_coding	PUTATIVE	None	16089	135	44	129190411	129194216	-1	None	PMBP, DG6
4	PGRMC2	ENSG00000164040	ENST00000512483	protein_coding	PUTATIVE	None	16089	135	44	129191767	129209358	-1	None	PMBP, DG6
4	PGRMC2	ENSG00000164040	ENST00000503872	protein_coding	PUTATIVE	None	16089	135	44	129191860	129208033	-1	None	PMBP, DG6
4	PGRMC2	ENSG00000164040	ENST00000503588	protein_coding	PUTATIVE	None	16089	276	91	129192026	129207942	-1	None	PMBP, DG6
4	PGRMC2	ENSG00000164040	ENST00000509070	nonsense_mediated_decay	KNOWN	None	16089	180	59	129192514	129208543	-1	None	PMBP, DG6
6	SNRPC	ENSG00000124562	ENST00000244520	protein_coding	KNOWN	CCDS34436	11157	480	159	34725183	34741571	1	None	U1-C, Yhc1
6	SNRPC	ENSG00000124562	ENST00000374018	protein_coding	KNOWN	None	11157	357	118	34725302	34741491	1	None	U1-C, Yhc1
6	SNRPC	ENSG00000124562	ENST00000374017	protein_coding	KNOWN	None	11157	543	180	34725331	34741571	1	None	U1-C, Yhc1
6	SNRPC	ENSG00000124562	ENST00000474635	processed_transcript	KNOWN	None	11157	None	None	34725689	34741309	1	None	U1-C, Yhc1
10	ST13P13	ENSG00000229256	ENST00000417082	processed_pseudogene	KNOWN	None	38788	None	None	104975466	104976557	1	None	None
12	COX6A1	ENSG00000111775	ENST00000550009	retained_intron	KNOWN	None	2277	None	None	120875893	120876613	1	COX6A	None
12	COX6A1	ENSG00000111775	ENST00000229379	protein_coding	KNOWN	CCDS9197	2277	330	109	120875893	120878545	1	COX6A	None
12	COX6A1	ENSG00000111775	ENST00000549525	retained_intron	KNOWN	None	2277	None	None	120877774	120878540	1	COX6A	None
6	HSPD1P10	ENSG00000216990	ENST00000404829	processed_pseudogene	KNOWN	None	35131	None	None	88008490	88010165	1	None	HSPD1-4P
4	None	ENSG00000249883	ENST00000506917	lincRNA	KNOWN	None	None	None	None	181652317	181680191	-1	None	None
X	PDK3	ENSG00000067992	ENST00000379162	protein_coding	KNOWN	CCDS14212	8811	1221	406	24483338	24552542	1	None	None
X	PDK3	ENSG00000067992	ENST00000441463	protein_coding	KNOWN	CCDS48088	8811	1248	415	24483573	24557954	1	None	None
X	PDK3	ENSG00000067992	ENST00000493226	processed_transcript	KNOWN	None	8811	None	None	24512858	24517198	1	None	None
4	LINC00290	ENSG00000248197	ENST00000512487	lincRNA	KNOWN	None	38515	None	None	181985242	182080302	-1	NCRNA00290	None
7	None	ENSG00000229263	ENST00000440376	antisense	KNOWN	None	None	None	None	30836307	30843026	-1	None	None
11	GPR152	ENSG00000175514	ENST00000312457	protein_coding	KNOWN	CCDS8165	23622	1413	470	67218772	67220200	-1	None	PGR5
4	None	ENSG00000248770	ENST00000503847	unprocessed_pseudogene	KNOWN	None	None	None	None	182158511	182158717	-1	None	None
4	None	ENSG00000249460	ENST00000512547	lincRNA	KNOWN	None	None	None	None	182182314	182186182	-1	None	None
Y	DAZ2	ENSG00000205944	ENST00000382449	protein_coding	KNOWN	None	15964	1605	534	25365594	25437503	1	None	pDP1678, MGC126442
Y	DAZ2	ENSG00000205944	ENST00000382440	protein_coding	KNOWN	None	15964	1965	654	25365622	25437499	1	None	pDP1678, MGC126442
Y	DAZ2	ENSG00000205944	ENST00000382433	protein_coding	KNOWN	None	15964	1677	558	25365695	25436146	1	None	pDP1678, MGC126442
Y	DAZ2	ENSG00000205944	ENST00000382306	protein_coding	KNOWN	CCDS48210	15964	1605	534	25365622	25437496	1	None	pDP1678, MGC126442
Y	DAZ2	ENSG00000205944	ENST00000449947	protein_coding	KNOWN	None	15964	1173	390	25365678	25437499	1	None	pDP1678, MGC126442
Y	DAZ2	ENSG00000205944	ENST00000382294	protein_coding	KNOWN	None	15964	1101	366	25365680	25437497	1	None	pDP1678, MGC126442
Y	DAZ2	ENSG00000205944	ENST00000382424	protein_coding	KNOWN	CCDS35485	15964	1677	558	25365695	25437497	1	None	pDP1678, MGC126442
Y	DAZ2	ENSG00000205944	ENST00000400493	protein_coding	KNOWN	None	15964	1317	438	25365701	25437497	1	None	pDP1678, MGC126442
Y	DAZ2	ENSG00000205944	ENST00000382431	protein_coding	KNOWN	None	15964	1461	486	25365701	25435854	1	None	pDP1678, MGC126442
Y	DAZ2	ENSG00000205944	ENST00000382434	protein_coding	KNOWN	None	15964	1086	361	25365622	25395738	1	None	pDP1678, MGC126442
12	LTBR	ENSG00000111321	ENST00000546296	processed_transcript	PUTATIVE	None	6718	None	None	6484211	6494323	1	D12S370	TNFCR, TNFR-RP, TNFR2-RP, TNF-R-III, TNFRSF3
12	LTBR	ENSG00000111321	ENST00000542830	processed_transcript	KNOWN	None	6718	None	None	6484390	6494443	1	D12S370	TNFCR, TNFR-RP, TNFR2-RP, TNF-R-III, TNFRSF3
12	LTBR	ENSG00000111321	ENST00000539925	protein_coding	NOVEL	CCDS59233	6718	1251	416	6484595	6500390	1	D12S370	TNFCR, TNFR-RP, TNFR2-RP, TNF-R-III, TNFRSF3
12	LTBR	ENSG00000111321	ENST00000228918	protein_coding	KNOWN	CCDS8544	6718	1308	435	6493199	6500729	1	D12S370	TNFCR, TNFR-RP, TNFR2-RP, TNF-R-III, TNFRSF3
12	LTBR	ENSG00000111321	ENST00000536876	protein_coding	PUTATIVE	None	6718	653	216	6493336	6495611	1	D12S370	TNFCR, TNFR-RP, TNFR2-RP, TNF-R-III, TNFRSF3
12	LTBR	ENSG00000111321	ENST00000535739	retained_intron	KNOWN	None	6718	None	None	6493342	6495609	1	D12S370	TNFCR, TNFR-RP, TNFR2-RP, TNF-R-III, TNFRSF3
12	LTBR	ENSG00000111321	ENST00000543190	protein_coding	PUTATIVE	None	6718	225	74	6493419	6497672	1	D12S370	TNFCR, TNFR-RP, TNFR2-RP, TNF-R-III, TNFRSF3
12	LTBR	ENSG00000111321	ENST00000545445	retained_intron	KNOWN	None	6718	None	None	6494164	6494621	1	D12S370	TNFCR, TNFR-RP, TNFR2-RP, TNF-R-III, TNFRSF3
12	LTBR	ENSG00000111321	ENST00000544454	nonsense_mediated_decay	KNOWN	None	6718	447	148	6494277	6497991	1	D12S370	TNFCR, TNFR-RP, TNFR2-RP, TNF-R-III, TNFRSF3
12	LTBR	ENSG00000111321	ENST00000541102	protein_coding	PUTATIVE	None	6718	879	292	6494285	6500277	1	D12S370	TNFCR, TNFR-RP, TNFR2-RP, TNF-R-III, TNFRSF3
12	LTBR	ENSG00000111321	ENST00000440421	retained_intron	KNOWN	None	6718	None	None	6494625	6495537	1	D12S370	TNFCR, TNFR-RP, TNFR2-RP, TNF-R-III, TNFRSF3
12	LTBR	ENSG00000111321	ENST00000444814	retained_intron	KNOWN	None	6718	None	None	6495006	6496742	1	D12S370	TNFCR, TNFR-RP, TNFR2-RP, TNF-R-III, TNFRSF3
12	LTBR	ENSG00000111321	ENST00000541005	processed_transcript	KNOWN	None	6718	None	None	6497420	6499901	1	D12S370	TNFCR, TNFR-RP, TNFR2-RP, TNF-R-III, TNFRSF3
12	LTBR	ENSG00000111321	ENST00000543542	processed_transcript	PUTATIVE	None	6718	None	None	6497558	6498218	1	D12S370	TNFCR, TNFR-RP, TNFR2-RP, TNF-R-III, TNFRSF3
12	LTBR	ENSG00000111321	ENST00000441074	retained_intron	KNOWN	None	6718	None	None	6498092	6500733	1	D12S370	TNFCR, TNFR-RP, TNFR2-RP, TNF-R-III, TNFRSF3
4	None	ENSG00000225356	ENST00000511599	processed_pseudogene	KNOWN	None	None	None	None	182443819	182444154	1	None	None
4	None	ENSG00000225356	ENST00000423200	processed_pseudogene	KNOWN	None	None	None	None	182443813	182444154	1	None	None
7	None	ENSG00000201885	ENST00000365015	misc_RNA	NOVEL	None	None	None	None	76642900	76643001	1	None	None
12	None	ENSG00000111780	ENST00000551806	protein_coding	PUTATIVE	None	None	505	167	120876001	120897809	1	None	None
15	SQRDL	ENSG00000137767	ENST00000568606	protein_coding	KNOWN	CCDS10127	20390	1353	450	45923346	45983478	1	None	CGI-44
15	SQRDL	ENSG00000137767	ENST00000565227	protein_coding	KNOWN	None	20390	219	72	45923776	45951340	1	None	CGI-44
15	SQRDL	ENSG00000137767	ENST00000563296	protein_coding	KNOWN	None	20390	114	37	45923782	45951235	1	None	CGI-44
15	SQRDL	ENSG00000137767	ENST00000561735	protein_coding	KNOWN	None	20390	422	139	45926919	45962142	1	None	CGI-44
15	SQRDL	ENSG00000137767	ENST00000260324	protein_coding	KNOWN	CCDS10127	20390	1353	450	45926938	45983492	1	None	CGI-44
15	SQRDL	ENSG00000137767	ENST00000561493	protein_coding	KNOWN	None	20390	424	140	45938079	45962144	1	None	CGI-44
15	SQRDL	ENSG00000137767	ENST00000566934	protein_coding	PUTATIVE	None	20390	545	180	45951279	45966215	1	None	CGI-44
15	SQRDL	ENSG00000137767	ENST00000565997	protein_coding	PUTATIVE	None	20390	373	123	45974738	45981612	1	None	CGI-44
8	TUSC3	ENSG00000104723	ENST00000503191	processed_transcript	KNOWN	None	30242	None	None	15274724	15531345	1	None	MGC13453, N33, OST3A, MRT7
8	TUSC3	ENSG00000104723	ENST00000382020	protein_coding	KNOWN	CCDS5993	30242	1044	347	15397732	15624158	1	None	MGC13453, N33, OST3A, MRT7
8	TUSC3	ENSG00000104723	ENST00000515859	nonsense_mediated_decay	KNOWN	None	30242	831	276	15397736	15622170	1	None	MGC13453, N33, OST3A, MRT7
8	TUSC3	ENSG00000104723	ENST00000506802	protein_coding	PUTATIVE	None	30242	945	314	15397742	15622122	1	None	MGC13453, N33, OST3A, MRT7
8	TUSC3	ENSG00000104723	ENST00000510836	nonsense_mediated_decay	KNOWN	None	30242	831	276	15397788	15622138	1	None	MGC13453, N33, OST3A, MRT7
8	TUSC3	ENSG00000104723	ENST00000509380	protein_coding	PUTATIVE	None	30242	870	289	15397790	15591154	1	None	MGC13453, N33, OST3A, MRT7
8	TUSC3	ENSG00000104723	ENST00000503731	protein_coding	KNOWN	CCDS5994	30242	1047	348	15397792	15621968	1	None	MGC13453, N33, OST3A, MRT7
8	TUSC3	ENSG00000104723	ENST00000507400	processed_transcript	KNOWN	None	30242	None	None	15419128	15531345	1	None	MGC13453, N33, OST3A, MRT7
8	TUSC3	ENSG00000104723	ENST00000509177	retained_intron	KNOWN	None	30242	None	None	15480587	15508526	1	None	MGC13453, N33, OST3A, MRT7
8	TUSC3	ENSG00000104723	ENST00000511783	protein_coding	PUTATIVE	None	30242	909	302	15480589	15615786	1	None	MGC13453, N33, OST3A, MRT7
8	TUSC3	ENSG00000104723	ENST00000508446	processed_transcript	KNOWN	None	30242	None	None	15531272	15621927	1	None	MGC13453, N33, OST3A, MRT7
8	TUSC3	ENSG00000104723	ENST00000507316	retained_intron	KNOWN	None	30242	None	None	15600953	15615786	1	None	MGC13453, N33, OST3A, MRT7
8	TUSC3	ENSG00000104723	ENST00000511342	retained_intron	KNOWN	None	30242	None	None	15601039	15606355	1	None	MGC13453, N33, OST3A, MRT7
4	None	ENSG00000251336	ENST00000510211	lincRNA	KNOWN	None	None	None	None	182741172	182751126	-1	None	None
7	None	ENSG00000232887	ENST00000438721	processed_pseudogene	KNOWN	None	None	None	None	31158898	31159186	-1	None	None
7	SPDYE9P	ENSG00000186645	ENST00000412399	unprocessed_pseudogene	KNOWN	None	45034	None	None	76654008	76659889	-1	None	None
7	SPDYE9P	ENSG00000186645	ENST00000340073	unprocessed_pseudogene	KNOWN	None	45034	None	None	76651635	76661674	-1	None	None
4	RN7SKP13	ENSG00000251742	ENST00000515933	misc_RNA	KNOWN	None	45737	None	None	182756018	182756261	-1	None	None
12	TRIAP1	ENSG00000170855	ENST00000546954	protein_coding	KNOWN	CCDS9198	26937	231	76	120881764	120884215	-1	None	P53CSV, WF-1, HSPC132, p53CSV, MDM35
12	TRIAP1	ENSG00000170855	ENST00000302432	processed_transcript	PUTATIVE	None	26937	None	None	120882011	120884173	-1	None	P53CSV, WF-1, HSPC132, p53CSV, MDM35
10	None	ENSG00000213657	ENST00000447680	processed_pseudogene	KNOWN	None	None	None	None	54148872	54149248	-1	None	None
11	CABP4	ENSG00000175544	ENST00000538060	processed_transcript	PUTATIVE	None	1386	None	None	67219877	67223170	1	None	CSNB2B
11	CABP4	ENSG00000175544	ENST00000438189	protein_coding	KNOWN	None	1386	513	170	67219886	67226699	1	None	CSNB2B
11	CABP4	ENSG00000175544	ENST00000542025	processed_transcript	PUTATIVE	None	1386	None	None	67219890	67223261	1	None	CSNB2B
11	CABP4	ENSG00000175544	ENST00000545040	retained_intron	KNOWN	None	1386	None	None	67219907	67220911	1	None	CSNB2B
11	CABP4	ENSG00000175544	ENST00000542233	processed_transcript	PUTATIVE	None	1386	None	None	67220209	67221140	1	None	CSNB2B
11	CABP4	ENSG00000175544	ENST00000325656	protein_coding	KNOWN	CCDS8166	1386	828	275	67222818	67226524	1	None	CSNB2B
11	CABP4	ENSG00000175544	ENST00000545777	nonsense_mediated_decay	KNOWN	None	1386	387	128	67222874	67225120	1	None	CSNB2B
17	C1QBP	ENSG00000108561	ENST00000225698	protein_coding	KNOWN	CCDS11071	1243	849	282	5336097	5342475	-1	HABP1	gC1Q-R, gC1qR, p32, SF2p32
17	C1QBP	ENSG00000108561	ENST00000574444	protein_coding	PUTATIVE	None	1243	537	178	5336121	5342098	-1	HABP1	gC1Q-R, gC1qR, p32, SF2p32
17	C1QBP	ENSG00000108561	ENST00000570805	protein_coding	PUTATIVE	None	1243	533	176	5336339	5352150	-1	HABP1	gC1Q-R, gC1qR, p32, SF2p32
17	C1QBP	ENSG00000108561	ENST00000573204	retained_intron	KNOWN	None	1243	None	None	5336392	5337430	-1	HABP1	gC1Q-R, gC1qR, p32, SF2p32
17	C1QBP	ENSG00000108561	ENST00000573421	retained_intron	KNOWN	None	1243	None	None	5336463	5337173	-1	HABP1	gC1Q-R, gC1qR, p32, SF2p32
17	C1QBP	ENSG00000108561	ENST00000573406	retained_intron	KNOWN	None	1243	None	None	5337985	5342475	-1	HABP1	gC1Q-R, gC1qR, p32, SF2p32
17	C1QBP	ENSG00000108561	ENST00000576122	protein_coding	PUTATIVE	None	1243	27	8	5341487	5342087	-1	HABP1	gC1Q-R, gC1qR, p32, SF2p32
X	TAF7L	ENSG00000102387	ENST00000372907	protein_coding	KNOWN	CCDS35347	11548	1389	462	100523241	100548045	-1	TAF2Q	CT40
X	TAF7L	ENSG00000102387	ENST00000324762	protein_coding	KNOWN	None	11548	909	302	100523245	100542793	-1	TAF2Q	CT40
X	TAF7L	ENSG00000102387	ENST00000356784	protein_coding	KNOWN	CCDS55466	11548	1131	376	100523848	100546324	-1	TAF2Q	CT40
X	TAF7L	ENSG00000102387	ENST00000372905	protein_coding	KNOWN	None	11548	909	302	100523242	100548059	-1	TAF2Q	CT40
7	None	ENSG00000221751	ENST00000408824	miRNA	NOVEL	None	None	None	None	31356612	31356738	1	None	None
19	ILF3	ENSG00000129351	ENST00000587928	retained_intron	KNOWN	None	6038	None	None	10764980	10800523	1	None	NF90, MPHOSPH4, MPP4, DRBP76, NFAR-1
19	ILF3	ENSG00000129351	ENST00000407004	protein_coding	KNOWN	CCDS45967	6038	2121	706	10765004	10796441	1	None	NF90, MPHOSPH4, MPP4, DRBP76, NFAR-1
19	ILF3	ENSG00000129351	ENST00000589998	protein_coding	KNOWN	CCDS12247	6038	2109	702	10765037	10795437	1	None	NF90, MPHOSPH4, MPP4, DRBP76, NFAR-1
19	ILF3	ENSG00000129351	ENST00000589600	protein_coding	KNOWN	None	6038	485	160	10765058	10787912	1	None	NF90, MPHOSPH4, MPP4, DRBP76, NFAR-1
19	ILF3	ENSG00000129351	ENST00000589283	protein_coding	KNOWN	None	6038	299	98	10765614	10782099	1	None	NF90, MPHOSPH4, MPP4, DRBP76, NFAR-1
19	ILF3	ENSG00000129351	ENST00000590009	protein_coding	KNOWN	None	6038	763	253	10765700	10790507	1	None	NF90, MPHOSPH4, MPP4, DRBP76, NFAR-1
19	ILF3	ENSG00000129351	ENST00000593199	protein_coding	KNOWN	None	6038	233	76	10766172	10781879	1	None	NF90, MPHOSPH4, MPP4, DRBP76, NFAR-1
19	ILF3	ENSG00000129351	ENST00000587505	nonsense_mediated_decay	KNOWN	None	6038	240	79	10781188	10791704	1	None	NF90, MPHOSPH4, MPP4, DRBP76, NFAR-1
19	ILF3	ENSG00000129351	ENST00000589052	nonsense_mediated_decay	KNOWN	None	6038	240	79	10781192	10789846	1	None	NF90, MPHOSPH4, MPP4, DRBP76, NFAR-1
19	ILF3	ENSG00000129351	ENST00000250241	protein_coding	KNOWN	CCDS45966	6038	2073	690	10781213	10796441	1	None	NF90, MPHOSPH4, MPP4, DRBP76, NFAR-1
19	ILF3	ENSG00000129351	ENST00000592763	protein_coding	NOVEL	None	6038	2097	698	10781282	10796441	1	None	NF90, MPHOSPH4, MPP4, DRBP76, NFAR-1
19	ILF3	ENSG00000129351	ENST00000588657	protein_coding	KNOWN	CCDS45965	6038	2697	898	10781282	10799988	1	None	NF90, MPHOSPH4, MPP4, DRBP76, NFAR-1
19	ILF3	ENSG00000129351	ENST00000590261	protein_coding	KNOWN	CCDS12246	6038	2685	894	10781282	10800522	1	None	NF90, MPHOSPH4, MPP4, DRBP76, NFAR-1
19	ILF3	ENSG00000129351	ENST00000587941	protein_coding	PUTATIVE	None	6038	368	121	10781491	10782177	1	None	NF90, MPHOSPH4, MPP4, DRBP76, NFAR-1
19	ILF3	ENSG00000129351	ENST00000587840	nonsense_mediated_decay	KNOWN	None	6038	168	55	10781713	10791982	1	None	NF90, MPHOSPH4, MPP4, DRBP76, NFAR-1
19	ILF3	ENSG00000129351	ENST00000589416	nonsense_mediated_decay	KNOWN	None	6038	476	157	10781846	10791987	1	None	NF90, MPHOSPH4, MPP4, DRBP76, NFAR-1
19	ILF3	ENSG00000129351	ENST00000585835	nonsense_mediated_decay	KNOWN	None	6038	541	179	10782157	10792791	1	None	NF90, MPHOSPH4, MPP4, DRBP76, NFAR-1
19	ILF3	ENSG00000129351	ENST00000589485	nonsense_mediated_decay	KNOWN	None	6038	222	73	10787881	10791990	1	None	NF90, MPHOSPH4, MPP4, DRBP76, NFAR-1
19	ILF3	ENSG00000129351	ENST00000589173	retained_intron	KNOWN	None	6038	None	None	10789861	10792232	1	None	NF90, MPHOSPH4, MPP4, DRBP76, NFAR-1
19	ILF3	ENSG00000129351	ENST00000593061	protein_coding	PUTATIVE	None	6038	340	112	10794194	10795839	1	None	NF90, MPHOSPH4, MPP4, DRBP76, NFAR-1
19	ILF3	ENSG00000129351	ENST00000590869	protein_coding	NOVEL	None	6038	351	116	10794432	10800168	1	None	NF90, MPHOSPH4, MPP4, DRBP76, NFAR-1
19	ILF3	ENSG00000129351	ENST00000591649	retained_intron	KNOWN	None	6038	None	None	10796604	10800523	1	None	NF90, MPHOSPH4, MPP4, DRBP76, NFAR-1
19	ILF3	ENSG00000129351	ENST00000586544	processed_transcript	KNOWN	None	6038	None	None	10798281	10803074	1	None	NF90, MPHOSPH4, MPP4, DRBP76, NFAR-1
19	ILF3	ENSG00000129351	ENST00000449870	protein_coding	KNOWN	CCDS45965	6038	2697	898	10764937	10803093	1	None	NF90, MPHOSPH4, MPP4, DRBP76, NFAR-1
19	ILF3	ENSG00000129351	ENST00000318511	protein_coding	KNOWN	CCDS12246	6038	2685	894	10764937	10803093	1	None	NF90, MPHOSPH4, MPP4, DRBP76, NFAR-1
19	ILF3	ENSG00000129351	ENST00000420083	protein_coding	KNOWN	CCDS45966	6038	2073	690	10764937	10796443	1	None	NF90, MPHOSPH4, MPP4, DRBP76, NFAR-1
4	None	ENSG00000177822	ENST00000509012	antisense	KNOWN	None	None	None	None	182795591	183065348	-1	None	None
4	None	ENSG00000177822	ENST00000507869	antisense	KNOWN	None	None	None	None	182896309	183006289	-1	None	None
4	None	ENSG00000177822	ENST00000505537	antisense	KNOWN	None	None	None	None	183000782	183006237	-1	None	None
4	None	ENSG00000177822	ENST00000513752	antisense	KNOWN	None	None	None	None	183062339	183065653	-1	None	None
4	None	ENSG00000177822	ENST00000315302	antisense	KNOWN	None	None	None	None	183062803	183065619	-1	None	None
4	None	ENSG00000177822	ENST00000505873	antisense	KNOWN	None	None	None	None	183063536	183064929	-1	None	None
4	None	ENSG00000177822	ENST00000511052	antisense	KNOWN	None	None	None	None	183064331	183065041	-1	None	None
4	None	ENSG00000177822	ENST00000508968	antisense	KNOWN	None	None	None	None	183064644	183066402	-1	None	None
7	None	ENSG00000271027	ENST00000603598	processed_pseudogene	KNOWN	None	None	None	None	31370325	31370510	1	None	None
19	ILVBL	ENSG00000105135	ENST00000533086	retained_intron	KNOWN	None	6041	None	None	15225795	15234845	-1	None	209L8, AHAS, ILV2H, MGC1269, FLJ39061, MGC19535
19	ILVBL	ENSG00000105135	ENST00000263383	protein_coding	KNOWN	CCDS12325	6041	1899	632	15225798	15236596	-1	None	209L8, AHAS, ILV2H, MGC1269, FLJ39061, MGC19535
19	ILVBL	ENSG00000105135	ENST00000534378	protein_coding	NOVEL	None	6041	1578	525	15225827	15236533	-1	None	209L8, AHAS, ILV2H, MGC1269, FLJ39061, MGC19535
19	ILVBL	ENSG00000105135	ENST00000534806	retained_intron	KNOWN	None	6041	None	None	15226083	15227593	-1	None	209L8, AHAS, ILV2H, MGC1269, FLJ39061, MGC19535
19	ILVBL	ENSG00000105135	ENST00000524779	retained_intron	KNOWN	None	6041	None	None	15226369	15228742	-1	None	209L8, AHAS, ILV2H, MGC1269, FLJ39061, MGC19535
19	ILVBL	ENSG00000105135	ENST00000596093	retained_intron	KNOWN	None	6041	None	None	15226671	15227491	-1	None	209L8, AHAS, ILV2H, MGC1269, FLJ39061, MGC19535
19	ILVBL	ENSG00000105135	ENST00000525880	retained_intron	KNOWN	None	6041	None	None	15226696	15228826	-1	None	209L8, AHAS, ILV2H, MGC1269, FLJ39061, MGC19535
19	ILVBL	ENSG00000105135	ENST00000598709	protein_coding	PUTATIVE	None	6041	689	228	15227094	15236477	-1	None	209L8, AHAS, ILV2H, MGC1269, FLJ39061, MGC19535
19	ILVBL	ENSG00000105135	ENST00000533148	nonsense_mediated_decay	KNOWN	None	6041	159	52	15227273	15236444	-1	None	209L8, AHAS, ILV2H, MGC1269, FLJ39061, MGC19535
19	ILVBL	ENSG00000105135	ENST00000531635	processed_transcript	KNOWN	None	6041	None	None	15230057	15236583	-1	None	209L8, AHAS, ILV2H, MGC1269, FLJ39061, MGC19535
19	ILVBL	ENSG00000105135	ENST00000600984	protein_coding	PUTATIVE	None	6041	497	164	15230791	15235906	-1	None	209L8, AHAS, ILV2H, MGC1269, FLJ39061, MGC19535
19	ILVBL	ENSG00000105135	ENST00000527093	protein_coding	KNOWN	None	6041	787	261	15230822	15236173	-1	None	209L8, AHAS, ILV2H, MGC1269, FLJ39061, MGC19535
19	ILVBL	ENSG00000105135	ENST00000533747	protein_coding	KNOWN	None	6041	498	165	15233809	15236470	-1	None	209L8, AHAS, ILV2H, MGC1269, FLJ39061, MGC19535
19	ILVBL	ENSG00000105135	ENST00000599324	retained_intron	KNOWN	None	6041	None	None	15235374	15236527	-1	None	209L8, AHAS, ILV2H, MGC1269, FLJ39061, MGC19535
5	ARL15	ENSG00000185305	ENST00000502271	protein_coding	PUTATIVE	None	25945	78	25	53179775	53606412	-1	ARFRP2	FLJ20051
5	ARL15	ENSG00000185305	ENST00000504924	protein_coding	KNOWN	CCDS54850	25945	615	204	53180614	53606403	-1	ARFRP2	FLJ20051
5	ARL15	ENSG00000185305	ENST00000510591	processed_transcript	KNOWN	None	25945	None	None	53182275	53606245	-1	ARFRP2	FLJ20051
5	ARL15	ENSG00000185305	ENST00000507646	protein_coding	PUTATIVE	None	25945	477	158	53183195	53606406	-1	ARFRP2	FLJ20051
5	ARL15	ENSG00000185305	ENST00000505630	retained_intron	KNOWN	None	25945	None	None	53408963	53606406	-1	ARFRP2	FLJ20051
5	ARL15	ENSG00000185305	ENST00000505383	retained_intron	KNOWN	None	25945	None	None	53450221	53606403	-1	ARFRP2	FLJ20051
3	CHST2	ENSG00000175040	ENST00000309575	protein_coding	KNOWN	CCDS3129	1970	1593	530	142838173	142841800	1	None	C6ST
9	GARNL3	ENSG00000136895	ENST00000439286	protein_coding	PUTATIVE	None	25425	803	266	129986544	130095365	1	None	DKFZp761J1523, bA356B19.1
9	GARNL3	ENSG00000136895	ENST00000444677	protein_coding	PUTATIVE	None	25425	418	138	129986750	130075749	1	None	DKFZp761J1523, bA356B19.1
9	GARNL3	ENSG00000136895	ENST00000429629	nonsense_mediated_decay	KNOWN	None	25425	267	88	129986818	130083057	1	None	DKFZp761J1523, bA356B19.1
9	GARNL3	ENSG00000136895	ENST00000453030	nonsense_mediated_decay	KNOWN	None	25425	147	48	129986905	130075839	1	None	DKFZp761J1523, bA356B19.1
9	GARNL3	ENSG00000136895	ENST00000446764	protein_coding	PUTATIVE	None	25425	330	109	129987518	130073956	1	None	DKFZp761J1523, bA356B19.1
9	GARNL3	ENSG00000136895	ENST00000441134	nonsense_mediated_decay	KNOWN	None	25425	147	48	129987634	130080406	1	None	DKFZp761J1523, bA356B19.1
9	GARNL3	ENSG00000136895	ENST00000478702	processed_transcript	KNOWN	None	25425	None	None	130007616	130083057	1	None	DKFZp761J1523, bA356B19.1
9	GARNL3	ENSG00000136895	ENST00000425970	protein_coding	PUTATIVE	None	25425	501	166	130025941	130083057	1	None	DKFZp761J1523, bA356B19.1
9	GARNL3	ENSG00000136895	ENST00000498801	processed_transcript	KNOWN	None	25425	None	None	130026515	130083047	1	None	DKFZp761J1523, bA356B19.1
9	GARNL3	ENSG00000136895	ENST00000487565	processed_transcript	KNOWN	None	25425	None	None	130026792	130073955	1	None	DKFZp761J1523, bA356B19.1
9	GARNL3	ENSG00000136895	ENST00000373387	protein_coding	KNOWN	CCDS6869	25425	3042	1013	130026805	130155939	1	None	DKFZp761J1523, bA356B19.1
9	GARNL3	ENSG00000136895	ENST00000373386	nonsense_mediated_decay	KNOWN	None	25425	2409	802	130027202	130155818	1	None	DKFZp761J1523, bA356B19.1
9	GARNL3	ENSG00000136895	ENST00000464616	processed_transcript	KNOWN	None	25425	None	None	130027281	130102029	1	None	DKFZp761J1523, bA356B19.1
9	GARNL3	ENSG00000136895	ENST00000495172	retained_intron	KNOWN	None	25425	None	None	130075632	130098501	1	None	DKFZp761J1523, bA356B19.1
9	GARNL3	ENSG00000136895	ENST00000460176	nonsense_mediated_decay	KNOWN	None	25425	245	80	130104594	130117728	1	None	DKFZp761J1523, bA356B19.1
9	GARNL3	ENSG00000136895	ENST00000481875	retained_intron	KNOWN	None	25425	None	None	130115797	130117670	1	None	DKFZp761J1523, bA356B19.1
9	GARNL3	ENSG00000136895	ENST00000478696	processed_transcript	KNOWN	None	25425	None	None	130117587	130131397	1	None	DKFZp761J1523, bA356B19.1
9	GARNL3	ENSG00000136895	ENST00000496711	processed_transcript	KNOWN	None	25425	None	None	130117635	130155818	1	None	DKFZp761J1523, bA356B19.1
9	GARNL3	ENSG00000136895	ENST00000481242	retained_intron	KNOWN	None	25425	None	None	130123995	130155817	1	None	DKFZp761J1523, bA356B19.1
9	GARNL3	ENSG00000136895	ENST00000497703	retained_intron	KNOWN	None	25425	None	None	130149409	130151284	1	None	DKFZp761J1523, bA356B19.1
9	GARNL3	ENSG00000136895	ENST00000463005	retained_intron	KNOWN	None	25425	None	None	130150691	130155413	1	None	DKFZp761J1523, bA356B19.1
9	GARNL3	ENSG00000136895	ENST00000435213	protein_coding	KNOWN	None	25425	2976	991	130025941	130155685	1	None	DKFZp761J1523, bA356B19.1
9	GARNL3	ENSG00000136895	ENST00000314904	protein_coding	KNOWN	None	25425	2463	820	130026756	130155826	1	None	DKFZp761J1523, bA356B19.1
7	None	ENSG00000231418	ENST00000433356	lincRNA	KNOWN	None	None	None	None	31454259	31460900	-1	None	None
12	POC1B-GALNT4	ENSG00000259075	ENST00000548729	protein_coding	KNOWN	CCDS55860	42957	1728	575	89913185	89919975	-1	None	None
12	POC1B-GALNT4	ENSG00000259075	ENST00000547474	protein_coding	KNOWN	None	42957	129	42	89915711	89920039	-1	None	None
12	POC1B-GALNT4	ENSG00000259075	ENST00000413530	protein_coding	KNOWN	CCDS55861	42957	1221	406	89916432	89920039	-1	None	None
20	None	ENSG00000243473	ENST00000418246	processed_transcript	KNOWN	None	None	None	None	1146924	1160596	1	None	None
12	GATC	ENSG00000257218	ENST00000551765	protein_coding	KNOWN	CCDS31911	25068	411	136	120884241	120899389	1	None	FLJ37000, 15E1.2, gatC
12	GATC	ENSG00000257218	ENST00000548171	nonsense_mediated_decay	KNOWN	None	25068	366	121	120884247	120898147	1	None	FLJ37000, 15E1.2, gatC
12	GATC	ENSG00000257218	ENST00000229384	protein_coding	PUTATIVE	None	25068	142	46	120884380	120897724	1	None	FLJ37000, 15E1.2, gatC
7	None	ENSG00000223070	ENST00000411138	miRNA	NOVEL	None	None	None	None	31833862	31833959	1	None	None
14	KLHL33	ENSG00000185271	ENST00000344581	protein_coding	KNOWN	CCDS53882	31952	1602	533	20896970	20903801	-1	None	None
7	SNX2P2	ENSG00000236460	ENST00000424553	processed_pseudogene	KNOWN	None	41515	None	None	31980874	31981196	1	None	None
12	LPAR5	ENSG00000184574	ENST00000329858	protein_coding	KNOWN	CCDS8553	13307	1119	372	6728001	6745613	-1	GPR93, GPR92	KPG_010, LPA5
12	LPAR5	ENSG00000184574	ENST00000540335	processed_transcript	PUTATIVE	None	13307	None	None	6729599	6745126	-1	GPR93, GPR92	KPG_010, LPA5
12	LPAR5	ENSG00000184574	ENST00000431922	protein_coding	KNOWN	CCDS8553	13307	1119	372	6728001	6740815	-1	GPR93, GPR92	KPG_010, LPA5
HSCHR6_MHC_SSTO	PHF1	ENSG00000225553	ENST00000421466	protein_coding	KNOWN	None	8919	436	144	33517537	33520461	1	None	MTF2L2, TDRD19C
HSCHR6_MHC_SSTO	PHF1	ENSG00000225553	ENST00000495185	nonsense_mediated_decay	KNOWN	None	8919	1182	393	33517857	33523036	1	None	MTF2L2, TDRD19C
HSCHR6_MHC_SSTO	PHF1	ENSG00000225553	ENST00000447305	protein_coding	KNOWN	None	8919	683	226	33517918	33520998	1	None	MTF2L2, TDRD19C
HSCHR6_MHC_SSTO	PHF1	ENSG00000225553	ENST00000465760	processed_transcript	KNOWN	None	8919	None	None	33517925	33519946	1	None	MTF2L2, TDRD19C
HSCHR6_MHC_SSTO	PHF1	ENSG00000225553	ENST00000454914	protein_coding	KNOWN	None	8919	1374	457	33518128	33523618	1	None	MTF2L2, TDRD19C
HSCHR6_MHC_SSTO	PHF1	ENSG00000225553	ENST00000427869	protein_coding	KNOWN	None	8919	1704	567	33518128	33523618	1	None	MTF2L2, TDRD19C
HSCHR6_MHC_SSTO	PHF1	ENSG00000225553	ENST00000487460	processed_transcript	PUTATIVE	None	8919	None	None	33518195	33523604	1	None	MTF2L2, TDRD19C
HSCHR6_MHC_SSTO	PHF1	ENSG00000225553	ENST00000496666	retained_intron	KNOWN	None	8919	None	None	33520151	33521111	1	None	MTF2L2, TDRD19C
HSCHR6_MHC_SSTO	PHF1	ENSG00000225553	ENST00000475137	protein_coding	PUTATIVE	None	8919	165	54	33520936	33523379	1	None	MTF2L2, TDRD19C
HSCHR6_MHC_SSTO	PHF1	ENSG00000225553	ENST00000480565	retained_intron	KNOWN	None	8919	None	None	33521503	33523378	1	None	MTF2L2, TDRD19C
HSCHR6_MHC_SSTO	PHF1	ENSG00000225553	ENST00000419154	protein_coding	KNOWN	None	8919	728	241	33521683	33523216	1	None	MTF2L2, TDRD19C
HSCHR6_MHC_SSTO	PHF1	ENSG00000225553	ENST00000423868	protein_coding	KNOWN	None	8919	546	181	33522230	33523579	1	None	MTF2L2, TDRD19C
HSCHR6_MHC_SSTO	PHF1	ENSG00000225553	ENST00000482971	retained_intron	KNOWN	None	8919	None	None	33522406	33523477	1	None	MTF2L2, TDRD19C
20	SDCBP2-AS1	ENSG00000234684	ENST00000446423	processed_transcript	KNOWN	None	44314	None	None	1306065	1358827	1	None	None
17	ALOX12	ENSG00000108839	ENST00000251535	protein_coding	KNOWN	CCDS11084	429	1992	663	6899384	6914055	1	None	12S-LOX
17	ALOX12	ENSG00000108839	ENST00000480801	protein_coding	NOVEL	None	429	443	146	6900301	6903788	1	None	12S-LOX
17	ALOX12	ENSG00000108839	ENST00000406228	retained_intron	KNOWN	None	429	None	None	6912808	6914055	1	None	12S-LOX
6	CCR6	ENSG00000112486	ENST00000341935	protein_coding	KNOWN	CCDS5298	1607	1125	374	167536257	167553184	1	STRL22	CKR-L3, GPR-CY4, CMKBR6, GPR29, DRY-6, DCR2, BN-1, CD196
6	CCR6	ENSG00000112486	ENST00000349984	protein_coding	KNOWN	CCDS5298	1607	1125	374	167536259	167552434	1	STRL22	CKR-L3, GPR-CY4, CMKBR6, GPR29, DRY-6, DCR2, BN-1, CD196
6	CCR6	ENSG00000112486	ENST00000400926	protein_coding	KNOWN	CCDS5298	1607	1125	374	167525295	167552629	1	STRL22	CKR-L3, GPR-CY4, CMKBR6, GPR29, DRY-6, DCR2, BN-1, CD196
10	None	ENSG00000235376	ENST00000474152	processed_pseudogene	KNOWN	None	None	None	None	105005754	105006440	1	None	None
10	None	ENSG00000235376	ENST00000441178	processed_pseudogene	KNOWN	None	None	None	None	105005644	105007773	1	None	None
8	NDRG1	ENSG00000104419	ENST00000323851	protein_coding	KNOWN	CCDS34945	7679	1185	394	134249414	134309480	-1	CAP43	DRG1, RTP, TDD5, NDR1
8	NDRG1	ENSG00000104419	ENST00000521438	retained_intron	KNOWN	None	7679	None	None	134249419	134253770	-1	CAP43	DRG1, RTP, TDD5, NDR1
8	NDRG1	ENSG00000104419	ENST00000521026	retained_intron	KNOWN	None	7679	None	None	134249419	134256746	-1	CAP43	DRG1, RTP, TDD5, NDR1
8	NDRG1	ENSG00000104419	ENST00000521414	processed_transcript	KNOWN	None	7679	None	None	134249419	134261731	-1	CAP43	DRG1, RTP, TDD5, NDR1
8	NDRG1	ENSG00000104419	ENST00000519278	retained_intron	KNOWN	None	7679	None	None	134249419	134268471	-1	CAP43	DRG1, RTP, TDD5, NDR1
8	NDRG1	ENSG00000104419	ENST00000517599	nonsense_mediated_decay	KNOWN	None	7679	288	95	134249419	134309495	-1	CAP43	DRG1, RTP, TDD5, NDR1
8	NDRG1	ENSG00000104419	ENST00000414097	protein_coding	KNOWN	CCDS34945	7679	1185	394	134249419	134309829	-1	CAP43	DRG1, RTP, TDD5, NDR1
8	NDRG1	ENSG00000104419	ENST00000518176	protein_coding	NOVEL	None	7679	426	141	134250781	134309480	-1	CAP43	DRG1, RTP, TDD5, NDR1
8	NDRG1	ENSG00000104419	ENST00000522476	protein_coding	PUTATIVE	CCDS59113	7679	987	328	134250941	134309495	-1	CAP43	DRG1, RTP, TDD5, NDR1
8	NDRG1	ENSG00000104419	ENST00000518066	protein_coding	PUTATIVE	None	7679	312	103	134251010	134309495	-1	CAP43	DRG1, RTP, TDD5, NDR1
8	NDRG1	ENSG00000104419	ENST00000523642	retained_intron	KNOWN	None	7679	None	None	134254117	134256903	-1	CAP43	DRG1, RTP, TDD5, NDR1
8	NDRG1	ENSG00000104419	ENST00000522665	retained_intron	KNOWN	None	7679	None	None	134254121	134262703	-1	CAP43	DRG1, RTP, TDD5, NDR1
8	NDRG1	ENSG00000104419	ENST00000517331	processed_transcript	KNOWN	None	7679	None	None	134256623	134271689	-1	CAP43	DRG1, RTP, TDD5, NDR1
8	NDRG1	ENSG00000104419	ENST00000522377	nonsense_mediated_decay	KNOWN	None	7679	651	216	134258866	134309482	-1	CAP43	DRG1, RTP, TDD5, NDR1
8	NDRG1	ENSG00000104419	ENST00000521664	retained_intron	KNOWN	None	7679	None	None	134258870	134267125	-1	CAP43	DRG1, RTP, TDD5, NDR1
8	NDRG1	ENSG00000104419	ENST00000520230	protein_coding	PUTATIVE	None	7679	580	192	134269028	134314265	-1	CAP43	DRG1, RTP, TDD5, NDR1
8	NDRG1	ENSG00000104419	ENST00000518010	processed_transcript	KNOWN	None	7679	None	None	134269052	134309495	-1	CAP43	DRG1, RTP, TDD5, NDR1
8	NDRG1	ENSG00000104419	ENST00000518480	protein_coding	PUTATIVE	None	7679	300	99	134269059	134309499	-1	CAP43	DRG1, RTP, TDD5, NDR1
8	NDRG1	ENSG00000104419	ENST00000519228	protein_coding	KNOWN	None	7679	495	164	134269062	134310201	-1	CAP43	DRG1, RTP, TDD5, NDR1
8	NDRG1	ENSG00000104419	ENST00000519580	protein_coding	KNOWN	None	7679	474	157	134269083	134308798	-1	CAP43	DRG1, RTP, TDD5, NDR1
8	NDRG1	ENSG00000104419	ENST00000522890	protein_coding	KNOWN	None	7679	474	157	134269083	134309335	-1	CAP43	DRG1, RTP, TDD5, NDR1
8	NDRG1	ENSG00000104419	ENST00000520943	protein_coding	PUTATIVE	None	7679	470	155	134270622	134310701	-1	CAP43	DRG1, RTP, TDD5, NDR1
8	NDRG1	ENSG00000104419	ENST00000521544	protein_coding	KNOWN	None	7679	400	132	134270659	134309495	-1	CAP43	DRG1, RTP, TDD5, NDR1
8	NDRG1	ENSG00000104419	ENST00000517745	retained_intron	KNOWN	None	7679	None	None	134271239	134276824	-1	CAP43	DRG1, RTP, TDD5, NDR1
8	NDRG1	ENSG00000104419	ENST00000518094	retained_intron	KNOWN	None	7679	None	None	134271338	134274500	-1	CAP43	DRG1, RTP, TDD5, NDR1
8	NDRG1	ENSG00000104419	ENST00000522738	protein_coding	PUTATIVE	None	7679	501	166	134271461	134308779	-1	CAP43	DRG1, RTP, TDD5, NDR1
8	NDRG1	ENSG00000104419	ENST00000523892	protein_coding	PUTATIVE	None	7679	128	41	134274290	134309499	-1	CAP43	DRG1, RTP, TDD5, NDR1
8	NDRG1	ENSG00000104419	ENST00000523931	retained_intron	KNOWN	None	7679	None	None	134274303	134277235	-1	CAP43	DRG1, RTP, TDD5, NDR1
8	NDRG1	ENSG00000104419	ENST00000354944	protein_coding	KNOWN	None	7679	975	324	134249415	134309495	-1	CAP43	DRG1, RTP, TDD5, NDR1
8	NDRG1	ENSG00000104419	ENST00000537882	protein_coding	KNOWN	CCDS59112	7679	942	313	134249419	134309495	-1	CAP43	DRG1, RTP, TDD5, NDR1
20	None	ENSG00000229728	ENST00000412497	antisense	KNOWN	None	None	None	None	1342266	1343229	1	None	None
10	RNU11-3P	ENSG00000212413	ENST00000391111	snRNA	KNOWN	None	46943	None	None	105072193	105072325	-1	None	None
21	UBASH3A	ENSG00000160185	ENST00000291535	protein_coding	KNOWN	CCDS33566	12462	1872	623	43824008	43867353	1	None	STS-2, TULA, CLIP4
21	UBASH3A	ENSG00000160185	ENST00000319294	protein_coding	KNOWN	CCDS13687	12462	1986	661	43824024	43867791	1	None	STS-2, TULA, CLIP4
21	UBASH3A	ENSG00000160185	ENST00000398367	protein_coding	NOVEL	CCDS58791	12462	1581	526	43824026	43867353	1	None	STS-2, TULA, CLIP4
21	UBASH3A	ENSG00000160185	ENST00000473381	retained_intron	KNOWN	None	12462	None	None	43824026	43867640	1	None	STS-2, TULA, CLIP4
21	UBASH3A	ENSG00000160185	ENST00000450356	protein_coding	KNOWN	None	12462	369	122	43824011	43830697	1	None	STS-2, TULA, CLIP4
9	RNF183	ENSG00000165188	ENST00000441031	protein_coding	KNOWN	CCDS43866	28721	579	192	116059373	116061476	-1	None	MGC4734
9	RNF183	ENSG00000165188	ENST00000416588	protein_coding	KNOWN	CCDS43866	28721	579	192	116059723	116061145	-1	None	MGC4734
9	RNF183	ENSG00000165188	ENST00000478815	protein_coding	KNOWN	CCDS43866	28721	579	192	116059734	116062045	-1	None	MGC4734
9	RNF183	ENSG00000165188	ENST00000297894	protein_coding	KNOWN	CCDS43866	28721	579	192	116059734	116065551	-1	None	MGC4734
9	RNF183	ENSG00000165188	ENST00000478493	processed_transcript	KNOWN	None	28721	None	None	116061927	116065395	-1	None	MGC4734
9	RNF183	ENSG00000165188	ENST00000489339	processed_transcript	KNOWN	None	28721	None	None	116061928	116065554	-1	None	MGC4734
9	RNF183	ENSG00000165188	ENST00000443976	processed_transcript	KNOWN	None	28721	None	None	116064381	116065656	-1	None	MGC4734
7	None	ENSG00000226468	ENST00000435950	processed_pseudogene	KNOWN	None	None	None	None	32496575	32497370	-1	None	None
11	ANO1	ENSG00000131620	ENST00000355303	protein_coding	KNOWN	CCDS44663	21625	2961	986	69924408	70035634	1	ORAOV2, TMEM16A	TAOS2, FLJ10261, DOG1
11	ANO1	ENSG00000131620	ENST00000531604	protein_coding	NOVEL	None	21625	755	250	69924679	69957867	1	ORAOV2, TMEM16A	TAOS2, FLJ10261, DOG1
11	ANO1	ENSG00000131620	ENST00000316296	protein_coding	KNOWN	None	21625	1929	642	69931520	70009683	1	ORAOV2, TMEM16A	TAOS2, FLJ10261, DOG1
11	ANO1	ENSG00000131620	ENST00000530676	protein_coding	KNOWN	None	21625	2523	840	69931528	70035358	1	ORAOV2, TMEM16A	TAOS2, FLJ10261, DOG1
11	ANO1	ENSG00000131620	ENST00000530480	protein_coding	NOVEL	None	21625	806	267	69949203	69978139	1	ORAOV2, TMEM16A	TAOS2, FLJ10261, DOG1
11	ANO1	ENSG00000131620	ENST00000529913	retained_intron	KNOWN	None	21625	None	None	69950235	69962685	1	ORAOV2, TMEM16A	TAOS2, FLJ10261, DOG1
11	ANO1	ENSG00000131620	ENST00000531349	protein_coding	PUTATIVE	None	21625	2088	695	69954291	70035358	1	ORAOV2, TMEM16A	TAOS2, FLJ10261, DOG1
11	ANO1	ENSG00000131620	ENST00000531300	protein_coding	PUTATIVE	None	21625	454	150	69987700	70007748	1	ORAOV2, TMEM16A	TAOS2, FLJ10261, DOG1
11	ANO1	ENSG00000131620	ENST00000529636	retained_intron	KNOWN	None	21625	None	None	70011468	70026151	1	ORAOV2, TMEM16A	TAOS2, FLJ10261, DOG1
11	ANO1	ENSG00000131620	ENST00000525494	processed_transcript	KNOWN	None	21625	None	None	70016071	70034172	1	ORAOV2, TMEM16A	TAOS2, FLJ10261, DOG1
11	ANO1	ENSG00000131620	ENST00000538023	protein_coding	KNOWN	None	21625	2961	986	69924664	70035633	1	ORAOV2, TMEM16A	TAOS2, FLJ10261, DOG1
11	ANO1	ENSG00000131620	ENST00000398543	protein_coding	KNOWN	None	21625	2523	840	69924664	70035633	1	ORAOV2, TMEM16A	TAOS2, FLJ10261, DOG1
19	ZNF439	ENSG00000171291	ENST00000592495	retained_intron	KNOWN	None	20873	None	None	11959541	11961925	1	None	DKFZp571K0837
19	ZNF439	ENSG00000171291	ENST00000455282	protein_coding	PUTATIVE	None	20873	1092	363	11959576	11980297	1	None	DKFZp571K0837
19	ZNF439	ENSG00000171291	ENST00000592534	processed_transcript	PUTATIVE	None	20873	None	None	11959627	11994565	1	None	DKFZp571K0837
19	ZNF439	ENSG00000171291	ENST00000442091	protein_coding	PUTATIVE	None	20873	354	117	11959878	11978277	1	None	DKFZp571K0837
19	ZNF439	ENSG00000171291	ENST00000304030	protein_coding	KNOWN	CCDS12268	20873	1500	499	11976772	11980306	1	None	DKFZp571K0837
3	KIAA1407	ENSG00000163617	ENST00000295878	protein_coding	KNOWN	CCDS2977	29272	2811	936	113682984	113775460	-1	None	None
3	KIAA1407	ENSG00000163617	ENST00000460813	nonsense_mediated_decay	KNOWN	None	29272	246	81	113697156	113775396	-1	None	None
3	KIAA1407	ENSG00000163617	ENST00000527855	retained_intron	KNOWN	None	29272	None	None	113697342	113720618	-1	None	None
3	KIAA1407	ENSG00000163617	ENST00000481358	retained_intron	KNOWN	None	29272	None	None	113722921	113775386	-1	None	None
3	KIAA1407	ENSG00000163617	ENST00000491000	protein_coding	NOVEL	None	29272	1829	608	113724355	113775441	-1	None	None
3	KIAA1407	ENSG00000163617	ENST00000483766	protein_coding	PUTATIVE	None	29272	591	196	113753891	113775386	-1	None	None
3	KIAA1407	ENSG00000163617	ENST00000463695	nonsense_mediated_decay	KNOWN	None	29272	117	38	113753941	113775334	-1	None	None
3	KIAA1407	ENSG00000163617	ENST00000480588	processed_transcript	KNOWN	None	29272	None	None	113761657	113775335	-1	None	None
3	KIAA1407	ENSG00000163617	ENST00000545063	protein_coding	KNOWN	None	29272	1545	514	113697156	113775396	-1	None	None
12	GALNT4	ENSG00000257594	ENST00000529983	protein_coding	KNOWN	CCDS53817	4126	1737	578	89913185	89918583	-1	None	GalNAc-T4
18	ENOSF1	ENSG00000132199	ENST00000584259	retained_intron	KNOWN	None	30365	None	None	672543	693277	-1	None	HSRTSBETA, rTS, TYMSAS
18	ENOSF1	ENSG00000132199	ENST00000251101	protein_coding	KNOWN	CCDS11822	30365	1332	443	673859	712676	-1	None	HSRTSBETA, rTS, TYMSAS
18	ENOSF1	ENSG00000132199	ENST00000581475	nonsense_mediated_decay	KNOWN	None	30365	615	204	673914	712607	-1	None	HSRTSBETA, rTS, TYMSAS
18	ENOSF1	ENSG00000132199	ENST00000584646	retained_intron	KNOWN	None	30365	None	None	674001	677906	-1	None	HSRTSBETA, rTS, TYMSAS
18	ENOSF1	ENSG00000132199	ENST00000581906	retained_intron	KNOWN	None	30365	None	None	674028	675560	-1	None	HSRTSBETA, rTS, TYMSAS
18	ENOSF1	ENSG00000132199	ENST00000340116	protein_coding	KNOWN	CCDS11823	30365	1353	450	674038	712544	-1	None	HSRTSBETA, rTS, TYMSAS
18	ENOSF1	ENSG00000132199	ENST00000582745	retained_intron	KNOWN	None	30365	None	None	674039	686159	-1	None	HSRTSBETA, rTS, TYMSAS
18	ENOSF1	ENSG00000132199	ENST00000580982	protein_coding	NOVEL	None	30365	1104	367	674040	712615	-1	None	HSRTSBETA, rTS, TYMSAS
18	ENOSF1	ENSG00000132199	ENST00000583973	processed_transcript	KNOWN	None	30365	None	None	674161	688010	-1	None	HSRTSBETA, rTS, TYMSAS
18	ENOSF1	ENSG00000132199	ENST00000585128	nonsense_mediated_decay	KNOWN	None	30365	290	95	674161	712523	-1	None	HSRTSBETA, rTS, TYMSAS
18	ENOSF1	ENSG00000132199	ENST00000581928	processed_transcript	KNOWN	None	30365	None	None	674181	683380	-1	None	HSRTSBETA, rTS, TYMSAS
18	ENOSF1	ENSG00000132199	ENST00000584453	nonsense_mediated_decay	KNOWN	None	30365	540	179	674371	712624	-1	None	HSRTSBETA, rTS, TYMSAS
18	ENOSF1	ENSG00000132199	ENST00000584706	retained_intron	KNOWN	None	30365	None	None	678309	685972	-1	None	HSRTSBETA, rTS, TYMSAS
18	ENOSF1	ENSG00000132199	ENST00000578651	retained_intron	KNOWN	None	30365	None	None	682969	712611	-1	None	HSRTSBETA, rTS, TYMSAS
18	ENOSF1	ENSG00000132199	ENST00000578647	retained_intron	KNOWN	None	30365	None	None	683217	686447	-1	None	HSRTSBETA, rTS, TYMSAS
18	ENOSF1	ENSG00000132199	ENST00000577334	retained_intron	KNOWN	None	30365	None	None	683331	690800	-1	None	HSRTSBETA, rTS, TYMSAS
18	ENOSF1	ENSG00000132199	ENST00000585004	retained_intron	KNOWN	None	30365	None	None	687673	712650	-1	None	HSRTSBETA, rTS, TYMSAS
18	ENOSF1	ENSG00000132199	ENST00000579053	retained_intron	KNOWN	None	30365	None	None	688574	706789	-1	None	HSRTSBETA, rTS, TYMSAS
18	ENOSF1	ENSG00000132199	ENST00000583771	protein_coding	PUTATIVE	None	30365	294	97	690567	712648	-1	None	HSRTSBETA, rTS, TYMSAS
18	ENOSF1	ENSG00000132199	ENST00000580605	processed_transcript	KNOWN	None	30365	None	None	692923	712610	-1	None	HSRTSBETA, rTS, TYMSAS
18	ENOSF1	ENSG00000132199	ENST00000581332	processed_transcript	KNOWN	None	30365	None	None	697267	712630	-1	None	HSRTSBETA, rTS, TYMSAS
18	ENOSF1	ENSG00000132199	ENST00000383578	protein_coding	KNOWN	CCDS45821	30365	1086	361	672546	712662	-1	None	HSRTSBETA, rTS, TYMSAS
18	ENOSF1	ENSG00000132199	ENST00000319815	protein_coding	KNOWN	None	30365	642	213	672746	688004	-1	None	HSRTSBETA, rTS, TYMSAS
18	ENOSF1	ENSG00000132199	ENST00000539164	protein_coding	KNOWN	None	30365	429	142	691243	712610	-1	None	HSRTSBETA, rTS, TYMSAS
11	PRDM11	ENSG00000019485	ENST00000530656	protein_coding	KNOWN	None	13996	1536	511	45117357	45246459	1	None	PFM8
11	PRDM11	ENSG00000019485	ENST00000526442	protein_coding	PUTATIVE	None	13996	553	183	45168226	45226328	1	None	PFM8
11	PRDM11	ENSG00000019485	ENST00000424263	protein_coding	PUTATIVE	CCDS58130	13996	1434	477	45168894	45246638	1	None	PFM8
11	PRDM11	ENSG00000019485	ENST00000534751	protein_coding	PUTATIVE	None	13996	1441	479	45203428	45236264	1	None	PFM8
11	PRDM11	ENSG00000019485	ENST00000528980	processed_transcript	KNOWN	None	13996	None	None	45204468	45247734	1	None	PFM8
11	PRDM11	ENSG00000019485	ENST00000263765	protein_coding	KNOWN	None	13996	1536	511	45115564	45246903	1	None	PFM8
11	PVRL1	ENSG00000110400	ENST00000531468	processed_transcript	PUTATIVE	None	9706	None	None	119494120	119508910	-1	HVEC, ED4	PRR, PRR1, PVRR1, SK-12, HIgR, CLPED1, CD111, OFC7
11	PVRL1	ENSG00000110400	ENST00000341398	protein_coding	KNOWN	CCDS8425	9706	1377	458	119508808	119599263	-1	HVEC, ED4	PRR, PRR1, PVRR1, SK-12, HIgR, CLPED1, CD111, OFC7
11	PVRL1	ENSG00000110400	ENST00000264025	protein_coding	KNOWN	CCDS8426	9706	1554	517	119531702	119599794	-1	HVEC, ED4	PRR, PRR1, PVRR1, SK-12, HIgR, CLPED1, CD111, OFC7
11	PVRL1	ENSG00000110400	ENST00000524429	retained_intron	KNOWN	None	9706	None	None	119545092	119546379	-1	HVEC, ED4	PRR, PRR1, PVRR1, SK-12, HIgR, CLPED1, CD111, OFC7
11	PVRL1	ENSG00000110400	ENST00000340882	protein_coding	KNOWN	CCDS8427	9706	1059	352	119545302	119599263	-1	HVEC, ED4	PRR, PRR1, PVRR1, SK-12, HIgR, CLPED1, CD111, OFC7
11	PVRL1	ENSG00000110400	ENST00000532197	retained_intron	KNOWN	None	9706	None	None	119547525	119548311	-1	HVEC, ED4	PRR, PRR1, PVRR1, SK-12, HIgR, CLPED1, CD111, OFC7
11	PVRL1	ENSG00000110400	ENST00000524510	processed_transcript	KNOWN	None	9706	None	None	119547805	119558067	-1	HVEC, ED4	PRR, PRR1, PVRR1, SK-12, HIgR, CLPED1, CD111, OFC7
12	LRRC23	ENSG00000010626	ENST00000433346	protein_coding	PUTATIVE	None	19138	693	230	6982733	7016897	1	None	B7, LRPB7
12	LRRC23	ENSG00000010626	ENST00000449039	processed_transcript	PUTATIVE	None	19138	None	None	6982846	7015678	1	None	B7, LRPB7
12	LRRC23	ENSG00000010626	ENST00000007969	protein_coding	KNOWN	CCDS8569	19138	1032	343	7013897	7023407	1	None	B7, LRPB7
12	LRRC23	ENSG00000010626	ENST00000451681	nonsense_mediated_decay	KNOWN	None	19138	189	62	7013955	7023358	1	None	B7, LRPB7
12	LRRC23	ENSG00000010626	ENST00000428946	nonsense_mediated_decay	KNOWN	None	19138	189	62	7013998	7023393	1	None	B7, LRPB7
12	LRRC23	ENSG00000010626	ENST00000323702	protein_coding	KNOWN	CCDS8568	19138	939	312	7014005	7023392	1	None	B7, LRPB7
12	LRRC23	ENSG00000010626	ENST00000457146	processed_transcript	PUTATIVE	None	19138	None	None	7014027	7015782	1	None	B7, LRPB7
12	LRRC23	ENSG00000010626	ENST00000486401	retained_intron	KNOWN	None	19138	None	None	7014038	7015919	1	None	B7, LRPB7
12	LRRC23	ENSG00000010626	ENST00000431207	nonsense_mediated_decay	KNOWN	None	19138	189	62	7014054	7021975	1	None	B7, LRPB7
12	LRRC23	ENSG00000010626	ENST00000443597	protein_coding	KNOWN	CCDS8569	19138	1032	343	7014070	7023407	1	None	B7, LRPB7
12	LRRC23	ENSG00000010626	ENST00000415834	protein_coding	KNOWN	None	19138	283	93	7014175	7015619	1	None	B7, LRPB7
12	LRRC23	ENSG00000010626	ENST00000436789	protein_coding	NOVEL	None	19138	651	216	7014192	7023132	1	None	B7, LRPB7
12	LRRC23	ENSG00000010626	ENST00000429740	protein_coding	PUTATIVE	None	19138	609	202	7014798	7023235	1	None	B7, LRPB7
12	LRRC23	ENSG00000010626	ENST00000472633	processed_transcript	KNOWN	None	19138	None	None	7022266	7023392	1	None	B7, LRPB7
4	EEF1GP8	ENSG00000234125	ENST00000506566	processed_pseudogene	KNOWN	None	44563	None	None	130824165	130825318	1	None	None
4	EEF1GP8	ENSG00000234125	ENST00000596344	processed_pseudogene	KNOWN	None	44563	None	None	130824297	130824737	1	None	None
7	SLC25A5P5	ENSG00000226421	ENST00000435239	processed_pseudogene	KNOWN	None	511	None	None	32511125	32512021	1	ANTP5	TCAG_29001
4	None	ENSG00000251326	ENST00000508942	lincRNA	KNOWN	None	None	None	None	131297384	131307526	1	None	None
1	STRIP1	ENSG00000143093	ENST00000369796	protein_coding	KNOWN	CCDS59197	25916	2229	742	110574199	110597261	1	FAM40A	FLJ14743, KIAA1761, FAR11A
1	STRIP1	ENSG00000143093	ENST00000369795	protein_coding	KNOWN	CCDS30798	25916	2514	837	110577238	110597263	1	FAM40A	FLJ14743, KIAA1761, FAR11A
1	STRIP1	ENSG00000143093	ENST00000489059	processed_transcript	KNOWN	None	25916	None	None	110577248	110580866	1	FAM40A	FLJ14743, KIAA1761, FAR11A
1	STRIP1	ENSG00000143093	ENST00000485775	nonsense_mediated_decay	KNOWN	None	25916	639	212	110577254	110597263	1	FAM40A	FLJ14743, KIAA1761, FAR11A
1	STRIP1	ENSG00000143093	ENST00000540970	retained_intron	KNOWN	None	25916	None	None	110581716	110582339	1	FAM40A	FLJ14743, KIAA1761, FAR11A
1	STRIP1	ENSG00000143093	ENST00000473429	retained_intron	KNOWN	None	25916	None	None	110583793	110617263	1	FAM40A	FLJ14743, KIAA1761, FAR11A
1	STRIP1	ENSG00000143093	ENST00000535003	retained_intron	KNOWN	None	25916	None	None	110585496	110589366	1	FAM40A	FLJ14743, KIAA1761, FAR11A
1	STRIP1	ENSG00000143093	ENST00000539541	retained_intron	KNOWN	None	25916	None	None	110586334	110588119	1	FAM40A	FLJ14743, KIAA1761, FAR11A
1	STRIP1	ENSG00000143093	ENST00000461054	processed_transcript	KNOWN	None	25916	None	None	110590195	110590926	1	FAM40A	FLJ14743, KIAA1761, FAR11A
1	STRIP1	ENSG00000143093	ENST00000369794	protein_coding	KNOWN	None	25916	639	212	110577241	110582503	1	FAM40A	FLJ14743, KIAA1761, FAR11A
4	PGBD4P4	ENSG00000248877	ENST00000509673	processed_pseudogene	KNOWN	None	44076	None	None	131415828	131416440	1	None	None
4	GAPDHP56	ENSG00000249018	ENST00000506031	processed_pseudogene	KNOWN	None	38562	None	None	131424512	131425499	-1	None	None
7	GPNMB	ENSG00000136235	ENST00000465673	processed_transcript	KNOWN	None	4462	None	None	23275586	23299672	1	None	NMB, HGFIN
7	GPNMB	ENSG00000136235	ENST00000492858	processed_transcript	KNOWN	None	4462	None	None	23275627	23296662	1	None	NMB, HGFIN
7	GPNMB	ENSG00000136235	ENST00000258733	protein_coding	KNOWN	CCDS5380	4462	1683	560	23286182	23314727	1	None	NMB, HGFIN
7	GPNMB	ENSG00000136235	ENST00000381990	protein_coding	KNOWN	CCDS34610	4462	1719	572	23286316	23314726	1	None	NMB, HGFIN
7	GPNMB	ENSG00000136235	ENST00000409458	protein_coding	NOVEL	None	4462	621	206	23286328	23297667	1	None	NMB, HGFIN
7	GPNMB	ENSG00000136235	ENST00000459927	processed_transcript	KNOWN	None	4462	None	None	23286385	23292986	1	None	NMB, HGFIN
7	GPNMB	ENSG00000136235	ENST00000487890	processed_transcript	KNOWN	None	4462	None	None	23286387	23296529	1	None	NMB, HGFIN
7	GPNMB	ENSG00000136235	ENST00000474157	processed_transcript	PUTATIVE	None	4462	None	None	23286393	23286986	1	None	NMB, HGFIN
7	GPNMB	ENSG00000136235	ENST00000492512	retained_intron	KNOWN	None	4462	None	None	23290332	23293931	1	None	NMB, HGFIN
7	GPNMB	ENSG00000136235	ENST00000479625	retained_intron	KNOWN	None	4462	None	None	23305759	23309794	1	None	NMB, HGFIN
7	GPNMB	ENSG00000136235	ENST00000470994	processed_transcript	PUTATIVE	None	4462	None	None	23309662	23313544	1	None	NMB, HGFIN
7	GPNMB	ENSG00000136235	ENST00000463011	processed_transcript	PUTATIVE	None	4462	None	None	23312700	23313871	1	None	NMB, HGFIN
7	GPNMB	ENSG00000136235	ENST00000478451	processed_transcript	PUTATIVE	None	4462	None	None	23312888	23314348	1	None	NMB, HGFIN
7	GPNMB	ENSG00000136235	ENST00000468723	retained_intron	KNOWN	None	4462	None	None	23312912	23314169	1	None	NMB, HGFIN
7	GPNMB	ENSG00000136235	ENST00000539136	protein_coding	KNOWN	None	4462	1386	461	23286394	23314253	1	None	NMB, HGFIN
7	GPNMB	ENSG00000136235	ENST00000453162	protein_coding	KNOWN	None	4462	1545	514	23286394	23314370	1	None	NMB, HGFIN
16	MTHFSD	ENSG00000103248	ENST00000360900	protein_coding	KNOWN	CCDS54047	25778	1152	383	86563782	86588816	-1	None	FLJ12998
16	MTHFSD	ENSG00000103248	ENST00000546093	protein_coding	PUTATIVE	None	25778	663	220	86564439	86588841	-1	None	FLJ12998
16	MTHFSD	ENSG00000103248	ENST00000543303	protein_coding	NOVEL	CCDS58490	25778	1149	382	86565578	86588809	-1	None	FLJ12998
16	MTHFSD	ENSG00000103248	ENST00000381214	protein_coding	KNOWN	CCDS54048	25778	1152	383	86565578	86588809	-1	None	FLJ12998
16	MTHFSD	ENSG00000103248	ENST00000566050	nonsense_mediated_decay	KNOWN	None	25778	255	84	86565578	86588809	-1	None	FLJ12998
16	MTHFSD	ENSG00000103248	ENST00000567539	nonsense_mediated_decay	KNOWN	None	25778	171	56	86565942	86588841	-1	None	FLJ12998
16	MTHFSD	ENSG00000103248	ENST00000562096	retained_intron	KNOWN	None	25778	None	None	86565968	86576151	-1	None	FLJ12998
16	MTHFSD	ENSG00000103248	ENST00000562940	protein_coding	PUTATIVE	None	25778	672	223	86574326	86588355	-1	None	FLJ12998
16	MTHFSD	ENSG00000103248	ENST00000566469	protein_coding	PUTATIVE	None	25778	701	232	86575141	86588354	-1	None	FLJ12998
16	MTHFSD	ENSG00000103248	ENST00000569000	protein_coding	NOVEL	None	25778	522	173	86575345	86588841	-1	None	FLJ12998
16	MTHFSD	ENSG00000103248	ENST00000568798	nonsense_mediated_decay	KNOWN	None	25778	321	106	86575716	86588841	-1	None	FLJ12998
16	MTHFSD	ENSG00000103248	ENST00000562994	protein_coding	PUTATIVE	None	25778	55	17	86575718	86588841	-1	None	FLJ12998
16	MTHFSD	ENSG00000103248	ENST00000561522	protein_coding	PUTATIVE	None	25778	50	15	86575723	86588841	-1	None	FLJ12998
16	MTHFSD	ENSG00000103248	ENST00000564364	protein_coding	PUTATIVE	None	25778	336	111	86580211	86588760	-1	None	FLJ12998
16	MTHFSD	ENSG00000103248	ENST00000568037	processed_transcript	KNOWN	None	25778	None	None	86580946	86588784	-1	None	FLJ12998
16	MTHFSD	ENSG00000103248	ENST00000561989	protein_coding	PUTATIVE	None	25778	336	111	86581673	86588775	-1	None	FLJ12998
16	MTHFSD	ENSG00000103248	ENST00000565482	protein_coding	PUTATIVE	None	25778	267	88	86582094	86588627	-1	None	FLJ12998
16	MTHFSD	ENSG00000103248	ENST00000561848	processed_transcript	KNOWN	None	25778	None	None	86585644	86587327	-1	None	FLJ12998
16	MTHFSD	ENSG00000103248	ENST00000322911	protein_coding	KNOWN	CCDS42211	25778	1149	382	86563783	86588841	-1	None	FLJ12998
4	None	ENSG00000250503	ENST00000509166	lincRNA	KNOWN	None	None	None	None	131802182	131806796	-1	None	None
17	ATP2A3	ENSG00000074370	ENST00000397041	protein_coding	KNOWN	CCDS45579	813	3000	999	3827169	3867713	-1	None	SERCA3
17	ATP2A3	ENSG00000074370	ENST00000397035	protein_coding	KNOWN	CCDS42234	813	3090	1029	3827169	3867713	-1	None	SERCA3
17	ATP2A3	ENSG00000074370	ENST00000574999	retained_intron	KNOWN	None	813	None	None	3828341	3831914	-1	None	SERCA3
17	ATP2A3	ENSG00000074370	ENST00000570773	retained_intron	KNOWN	None	813	None	None	3828554	3834165	-1	None	SERCA3
17	ATP2A3	ENSG00000074370	ENST00000570845	protein_coding	NOVEL	None	813	462	153	3828585	3833665	-1	None	SERCA3
17	ATP2A3	ENSG00000074370	ENST00000359983	protein_coding	KNOWN	CCDS11042	813	3159	1052	3828585	3867585	-1	None	SERCA3
17	ATP2A3	ENSG00000074370	ENST00000352011	protein_coding	KNOWN	CCDS11041	813	3132	1043	3828585	3867640	-1	None	SERCA3
17	ATP2A3	ENSG00000074370	ENST00000397043	protein_coding	KNOWN	CCDS45580	813	2997	998	3828640	3867709	-1	None	SERCA3
17	ATP2A3	ENSG00000074370	ENST00000572116	protein_coding	NOVEL	None	813	429	142	3828672	3833665	-1	None	SERCA3
17	ATP2A3	ENSG00000074370	ENST00000571245	retained_intron	KNOWN	None	813	None	None	3831452	3833721	-1	None	SERCA3
17	ATP2A3	ENSG00000074370	ENST00000576957	retained_intron	KNOWN	None	813	None	None	3832622	3840381	-1	None	SERCA3
17	ATP2A3	ENSG00000074370	ENST00000572176	retained_intron	KNOWN	None	813	None	None	3838230	3839646	-1	None	SERCA3
17	ATP2A3	ENSG00000074370	ENST00000572694	retained_intron	KNOWN	None	813	None	None	3844733	3848670	-1	None	SERCA3
17	ATP2A3	ENSG00000074370	ENST00000574202	retained_intron	KNOWN	None	813	None	None	3856575	3867530	-1	None	SERCA3
17	ATP2A3	ENSG00000074370	ENST00000397039	protein_coding	KNOWN	None	813	651	216	3827169	3867736	-1	None	SERCA3
17	ATP2A3	ENSG00000074370	ENST00000309890	protein_coding	KNOWN	CCDS42234	813	3090	1029	3827169	3867736	-1	None	SERCA3
14	OSGEP	ENSG00000092094	ENST00000555656	protein_coding	PUTATIVE	None	18028	411	136	20914570	20919038	-1	None	PRSMG1, GCPL1, OSGEP1, KAE1
14	OSGEP	ENSG00000092094	ENST00000206542	protein_coding	KNOWN	CCDS9549	18028	1008	335	20914827	20923264	-1	None	PRSMG1, GCPL1, OSGEP1, KAE1
14	OSGEP	ENSG00000092094	ENST00000556124	retained_intron	KNOWN	None	18028	None	None	20915222	20917716	-1	None	PRSMG1, GCPL1, OSGEP1, KAE1
14	OSGEP	ENSG00000092094	ENST00000553292	retained_intron	KNOWN	None	18028	None	None	20915224	20915847	-1	None	PRSMG1, GCPL1, OSGEP1, KAE1
14	OSGEP	ENSG00000092094	ENST00000554249	protein_coding	PUTATIVE	None	18028	462	153	20915298	20917557	-1	None	PRSMG1, GCPL1, OSGEP1, KAE1
14	OSGEP	ENSG00000092094	ENST00000555223	protein_coding	PUTATIVE	None	18028	307	101	20915790	20920611	-1	None	PRSMG1, GCPL1, OSGEP1, KAE1
14	OSGEP	ENSG00000092094	ENST00000555785	protein_coding	PUTATIVE	None	18028	209	68	20915837	20917432	-1	None	PRSMG1, GCPL1, OSGEP1, KAE1
14	OSGEP	ENSG00000092094	ENST00000554915	retained_intron	KNOWN	None	18028	None	None	20916183	20917329	-1	None	PRSMG1, GCPL1, OSGEP1, KAE1
14	OSGEP	ENSG00000092094	ENST00000553640	protein_coding	NOVEL	None	18028	449	148	20917367	20922971	-1	None	PRSMG1, GCPL1, OSGEP1, KAE1
14	OSGEP	ENSG00000092094	ENST00000554699	processed_transcript	KNOWN	None	18028	None	None	20917381	20922952	-1	None	PRSMG1, GCPL1, OSGEP1, KAE1
14	OSGEP	ENSG00000092094	ENST00000488532	protein_coding	NOVEL	None	18028	553	183	20919470	20922971	-1	None	PRSMG1, GCPL1, OSGEP1, KAE1
14	OSGEP	ENSG00000092094	ENST00000556439	retained_intron	KNOWN	None	18028	None	None	20920118	20923248	-1	None	PRSMG1, GCPL1, OSGEP1, KAE1
14	OSGEP	ENSG00000092094	ENST00000556252	processed_transcript	PUTATIVE	None	18028	None	None	20920137	20923212	-1	None	PRSMG1, GCPL1, OSGEP1, KAE1
7	None	ENSG00000229358	ENST00000417811	unprocessed_pseudogene	KNOWN	None	None	None	None	32660019	32801399	-1	None	None
10	MIR1307	ENSG00000221767	ENST00000408840	miRNA	KNOWN	None	35372	None	None	105154010	105154158	-1	MIRN1307	hsa-mir-1307
12	STAB2	ENSG00000136011	ENST00000388887	protein_coding	KNOWN	CCDS31888	18629	7656	2551	103981051	104160505	1	None	DKFZP434E0321, FELL, STAB-2, HARE, FEEL-2
12	STAB2	ENSG00000136011	ENST00000549474	nonsense_mediated_decay	KNOWN	None	18629	102	33	104097013	104099473	1	None	DKFZP434E0321, FELL, STAB-2, HARE, FEEL-2
12	STAB2	ENSG00000136011	ENST00000549798	retained_intron	KNOWN	None	18629	None	None	104105071	104106221	1	None	DKFZP434E0321, FELL, STAB-2, HARE, FEEL-2
12	STAB2	ENSG00000136011	ENST00000548073	retained_intron	KNOWN	None	18629	None	None	104148870	104152065	1	None	DKFZP434E0321, FELL, STAB-2, HARE, FEEL-2
12	STAB2	ENSG00000136011	ENST00000548579	retained_intron	KNOWN	None	18629	None	None	104151703	104155132	1	None	DKFZP434E0321, FELL, STAB-2, HARE, FEEL-2
12	STAB2	ENSG00000136011	ENST00000552777	protein_coding	PUTATIVE	None	18629	408	135	104157276	104160194	1	None	DKFZP434E0321, FELL, STAB-2, HARE, FEEL-2
10	None	ENSG00000234699	ENST00000411906	antisense	KNOWN	None	None	None	None	105212603	105222452	1	None	None
1	NCF2	ENSG00000116701	ENST00000367536	protein_coding	KNOWN	CCDS1356	7661	1581	526	183524698	183560011	-1	None	p67phox, NOXA2
1	NCF2	ENSG00000116701	ENST00000367535	protein_coding	KNOWN	CCDS1356	7661	1581	526	183524860	183559716	-1	None	p67phox, NOXA2
1	NCF2	ENSG00000116701	ENST00000469280	processed_transcript	KNOWN	None	7661	None	None	183529381	183533186	-1	None	p67phox, NOXA2
1	NCF2	ENSG00000116701	ENST00000420553	protein_coding	KNOWN	None	7661	169	55	183532404	183538360	-1	None	p67phox, NOXA2
1	NCF2	ENSG00000116701	ENST00000419402	protein_coding	KNOWN	None	7661	430	142	183532407	183538360	-1	None	p67phox, NOXA2
1	NCF2	ENSG00000116701	ENST00000413720	protein_coding	KNOWN	CCDS53447	7661	1446	481	183524698	183559739	-1	None	p67phox, NOXA2
1	NCF2	ENSG00000116701	ENST00000418089	protein_coding	KNOWN	CCDS53446	7661	1338	445	183524698	183559739	-1	None	p67phox, NOXA2
X	STAG2	ENSG00000101972	ENST00000394477	protein_coding	KNOWN	None	11355	211	69	123094062	123164898	1	None	SA-2, SCC3B
X	STAG2	ENSG00000101972	ENST00000455404	protein_coding	KNOWN	None	11355	1644	547	123094369	123196757	1	None	SA-2, SCC3B
X	STAG2	ENSG00000101972	ENST00000218089	protein_coding	KNOWN	CCDS43990	11355	3807	1268	123094369	123235348	1	None	SA-2, SCC3B
X	STAG2	ENSG00000101972	ENST00000483575	processed_transcript	PUTATIVE	None	11355	None	None	123094410	123196844	1	None	SA-2, SCC3B
X	STAG2	ENSG00000101972	ENST00000469481	processed_transcript	KNOWN	None	11355	None	None	123094545	123556514	1	None	SA-2, SCC3B
X	STAG2	ENSG00000101972	ENST00000458700	protein_coding	KNOWN	None	11355	120	39	123094714	123159765	1	None	SA-2, SCC3B
X	STAG2	ENSG00000101972	ENST00000371160	protein_coding	KNOWN	CCDS14607	11355	3696	1231	123095164	123236506	1	None	SA-2, SCC3B
X	STAG2	ENSG00000101972	ENST00000435103	protein_coding	KNOWN	None	11355	462	153	123095168	123176495	1	None	SA-2, SCC3B
X	STAG2	ENSG00000101972	ENST00000371157	protein_coding	KNOWN	CCDS14607	11355	3696	1231	123095568	123236506	1	None	SA-2, SCC3B
X	STAG2	ENSG00000101972	ENST00000371145	protein_coding	KNOWN	CCDS43990	11355	3807	1268	123095588	123234752	1	None	SA-2, SCC3B
X	STAG2	ENSG00000101972	ENST00000458176	nonsense_mediated_decay	KNOWN	None	11355	177	58	123095589	123179058	1	None	SA-2, SCC3B
X	STAG2	ENSG00000101972	ENST00000371144	protein_coding	KNOWN	CCDS14607	11355	3696	1231	123095589	123234752	1	None	SA-2, SCC3B
X	STAG2	ENSG00000101972	ENST00000466748	processed_transcript	PUTATIVE	None	11355	None	None	123095625	123197841	1	None	SA-2, SCC3B
X	STAG2	ENSG00000101972	ENST00000471107	processed_transcript	PUTATIVE	None	11355	None	None	123095673	123197055	1	None	SA-2, SCC3B
X	STAG2	ENSG00000101972	ENST00000428941	protein_coding	KNOWN	None	11355	507	168	123095883	123179058	1	None	SA-2, SCC3B
X	STAG2	ENSG00000101972	ENST00000435215	protein_coding	KNOWN	None	11355	623	206	123095944	123179174	1	None	SA-2, SCC3B
X	STAG2	ENSG00000101972	ENST00000394478	protein_coding	KNOWN	None	11355	347	114	123097020	123171435	1	None	SA-2, SCC3B
X	STAG2	ENSG00000101972	ENST00000475602	processed_transcript	PUTATIVE	None	11355	None	None	123227763	123229345	1	None	SA-2, SCC3B
X	STAG2	ENSG00000101972	ENST00000354548	protein_coding	KNOWN	None	11355	3489	1162	123094672	123234447	1	None	SA-2, SCC3B
10	None	ENSG00000235470	ENST00000453753	antisense	KNOWN	None	None	None	None	105239360	105277150	-1	None	None
10	None	ENSG00000235470	ENST00000447820	antisense	KNOWN	None	None	None	None	105271536	105275159	-1	None	None
10	USMG5	ENSG00000173915	ENST00000369825	protein_coding	KNOWN	CCDS7548	30889	177	58	105148798	105155780	-1	None	MGC14697, bA792D24.4, DAPIT
10	USMG5	ENSG00000173915	ENST00000369811	protein_coding	KNOWN	CCDS7548	30889	177	58	105148807	105155831	-1	None	MGC14697, bA792D24.4, DAPIT
10	USMG5	ENSG00000173915	ENST00000369815	protein_coding	KNOWN	CCDS7548	30889	177	58	105148807	105156198	-1	None	MGC14697, bA792D24.4, DAPIT
10	USMG5	ENSG00000173915	ENST00000309579	protein_coding	KNOWN	CCDS7548	30889	177	58	105148807	105156223	-1	None	MGC14697, bA792D24.4, DAPIT
10	USMG5	ENSG00000173915	ENST00000337003	protein_coding	KNOWN	CCDS7548	30889	177	58	105148807	105156223	-1	None	MGC14697, bA792D24.4, DAPIT
10	None	ENSG00000226431	ENST00000457120	sense_intronic	KNOWN	None	None	None	None	105308832	105310721	1	None	None
10	None	ENSG00000222503	ENST00000410571	misc_RNA	NOVEL	None	None	None	None	105432916	105433023	1	None	None
3	SPINK8	ENSG00000229453	ENST00000434006	protein_coding	KNOWN	CCDS46822	33160	294	97	48348336	48369831	-1	None	None
12	ACRBP	ENSG00000111644	ENST00000540513	processed_transcript	PUTATIVE	None	17195	None	None	6747241	6748017	-1	None	SP32, OY-TES-1, CT23
12	ACRBP	ENSG00000111644	ENST00000229243	protein_coding	KNOWN	CCDS8554	17195	1632	543	6747241	6756626	-1	None	SP32, OY-TES-1, CT23
12	ACRBP	ENSG00000111644	ENST00000414226	protein_coding	NOVEL	None	17195	1533	510	6747326	6756577	-1	None	SP32, OY-TES-1, CT23
12	ACRBP	ENSG00000111644	ENST00000542357	processed_transcript	KNOWN	None	17195	None	None	6747676	6752834	-1	None	SP32, OY-TES-1, CT23
12	ACRBP	ENSG00000111644	ENST00000536350	protein_coding	PUTATIVE	None	17195	960	319	6753221	6756559	-1	None	SP32, OY-TES-1, CT23
12	ACRBP	ENSG00000111644	ENST00000535884	nonsense_mediated_decay	KNOWN	None	17195	303	100	6753406	6756577	-1	None	SP32, OY-TES-1, CT23
12	ACRBP	ENSG00000111644	ENST00000544352	retained_intron	KNOWN	None	17195	None	None	6753664	6756449	-1	None	SP32, OY-TES-1, CT23
12	ACRBP	ENSG00000111644	ENST00000546114	protein_coding	PUTATIVE	None	17195	521	172	6753720	6756599	-1	None	SP32, OY-TES-1, CT23
12	ACRBP	ENSG00000111644	ENST00000538524	retained_intron	KNOWN	None	17195	None	None	6755745	6756594	-1	None	SP32, OY-TES-1, CT23
10	None	ENSG00000260461	ENST00000568017	sense_overlapping	KNOWN	None	None	None	None	105637132	105639519	-1	None	None
9	RN7SKP242	ENSG00000251776	ENST00000515967	misc_RNA	KNOWN	None	45966	None	None	85815855	85816143	-1	None	None
3	UQCRC1	ENSG00000010256	ENST00000471189	retained_intron	KNOWN	None	12585	None	None	48636435	48638858	-1	None	D3S3191, QCR1, UQCR1
3	UQCRC1	ENSG00000010256	ENST00000203407	protein_coding	KNOWN	CCDS2774	12585	1443	480	48636436	48647470	-1	None	D3S3191, QCR1, UQCR1
3	UQCRC1	ENSG00000010256	ENST00000480561	retained_intron	KNOWN	None	12585	None	None	48636467	48638274	-1	None	D3S3191, QCR1, UQCR1
3	UQCRC1	ENSG00000010256	ENST00000415995	nonsense_mediated_decay	KNOWN	None	12585	366	121	48636487	48647059	-1	None	D3S3191, QCR1, UQCR1
3	UQCRC1	ENSG00000010256	ENST00000460105	retained_intron	KNOWN	None	12585	None	None	48637551	48641077	-1	None	D3S3191, QCR1, UQCR1
3	UQCRC1	ENSG00000010256	ENST00000472438	retained_intron	KNOWN	None	12585	None	None	48638839	48642219	-1	None	D3S3191, QCR1, UQCR1
3	UQCRC1	ENSG00000010256	ENST00000412343	nonsense_mediated_decay	KNOWN	None	12585	207	68	48640996	48647069	-1	None	D3S3191, QCR1, UQCR1
3	UQCRC1	ENSG00000010256	ENST00000467690	retained_intron	KNOWN	None	12585	None	None	48641431	48647068	-1	None	D3S3191, QCR1, UQCR1
3	UQCRC1	ENSG00000010256	ENST00000463708	retained_intron	KNOWN	None	12585	None	None	48641696	48647064	-1	None	D3S3191, QCR1, UQCR1
3	UQCRC1	ENSG00000010256	ENST00000493806	processed_transcript	KNOWN	None	12585	None	None	48647029	48648409	-1	None	D3S3191, QCR1, UQCR1
9	None	ENSG00000229109	ENST00000416473	antisense	KNOWN	None	None	None	None	85834246	85849157	1	None	None
17	TRIM37	ENSG00000108395	ENST00000585287	protein_coding	NOVEL	None	7523	354	117	57059999	57092978	-1	MUL	KIAA0898, POB1, TEF3
17	TRIM37	ENSG00000108395	ENST00000583945	protein_coding	NOVEL	None	7523	163	53	57060012	57089768	-1	MUL	KIAA0898, POB1, TEF3
17	TRIM37	ENSG00000108395	ENST00000393066	protein_coding	KNOWN	CCDS45746	7523	2895	964	57060012	57184282	-1	MUL	KIAA0898, POB1, TEF3
17	TRIM37	ENSG00000108395	ENST00000577554	nonsense_mediated_decay	KNOWN	None	7523	204	67	57075561	57184101	-1	MUL	KIAA0898, POB1, TEF3
17	TRIM37	ENSG00000108395	ENST00000262294	protein_coding	KNOWN	CCDS32694	7523	2895	964	57075563	57184082	-1	MUL	KIAA0898, POB1, TEF3
17	TRIM37	ENSG00000108395	ENST00000393065	protein_coding	NOVEL	None	7523	2793	930	57076348	57184187	-1	MUL	KIAA0898, POB1, TEF3
17	TRIM37	ENSG00000108395	ENST00000581468	protein_coding	NOVEL	None	7523	584	193	57138450	57158523	-1	MUL	KIAA0898, POB1, TEF3
17	TRIM37	ENSG00000108395	ENST00000582852	retained_intron	KNOWN	None	7523	None	None	57141513	57157168	-1	MUL	KIAA0898, POB1, TEF3
17	TRIM37	ENSG00000108395	ENST00000580973	nonsense_mediated_decay	KNOWN	None	7523	177	58	57153045	57184076	-1	MUL	KIAA0898, POB1, TEF3
17	TRIM37	ENSG00000108395	ENST00000580122	nonsense_mediated_decay	KNOWN	None	7523	340	112	57157159	57183820	-1	MUL	KIAA0898, POB1, TEF3
17	TRIM37	ENSG00000108395	ENST00000580620	retained_intron	KNOWN	None	7523	None	None	57165340	57184025	-1	MUL	KIAA0898, POB1, TEF3
17	TRIM37	ENSG00000108395	ENST00000583387	retained_intron	KNOWN	None	7523	None	None	57165341	57184072	-1	MUL	KIAA0898, POB1, TEF3
17	TRIM37	ENSG00000108395	ENST00000584889	protein_coding	PUTATIVE	None	7523	312	103	57165587	57183829	-1	MUL	KIAA0898, POB1, TEF3
17	TRIM37	ENSG00000108395	ENST00000376149	protein_coding	KNOWN	None	7523	2412	803	57075569	57184266	-1	MUL	KIAA0898, POB1, TEF3
9	RNU4-29P	ENSG00000251752	ENST00000515943	snRNA	KNOWN	None	46965	None	None	85890856	85891029	1	None	None
16	AGRP	ENSG00000159723	ENST00000290953	protein_coding	KNOWN	CCDS10839	330	399	132	67516474	67517716	-1	None	Agrt, ART, ASIP2
4	None	ENSG00000250213	ENST00000505641	processed_pseudogene	KNOWN	None	None	None	None	132033903	132034410	1	None	None
12	SRSF9	ENSG00000111786	ENST00000229390	protein_coding	KNOWN	CCDS9199	10791	666	221	120899471	120907596	-1	SFRS9	SRp30c
12	SRSF9	ENSG00000111786	ENST00000548326	retained_intron	KNOWN	None	10791	None	None	120899496	120901199	-1	SFRS9	SRp30c
12	SRSF9	ENSG00000111786	ENST00000548792	retained_intron	KNOWN	None	10791	None	None	120899514	120902746	-1	SFRS9	SRp30c
12	SRSF9	ENSG00000111786	ENST00000603963	nonsense_mediated_decay	KNOWN	None	10791	360	119	120899565	120907442	-1	SFRS9	SRp30c
12	SRSF9	ENSG00000111786	ENST00000550458	protein_coding	PUTATIVE	None	10791	327	108	120901781	120907374	-1	SFRS9	SRp30c
12	SRSF9	ENSG00000111786	ENST00000546942	retained_intron	KNOWN	None	10791	None	None	120902942	120907521	-1	SFRS9	SRp30c
14	STRN3	ENSG00000196792	ENST00000355683	protein_coding	KNOWN	CCDS9641	15720	2142	713	31363005	31495607	-1	None	SG2NA
14	STRN3	ENSG00000196792	ENST00000357479	protein_coding	KNOWN	CCDS41938	15720	2394	797	31364409	31495588	-1	None	SG2NA
14	STRN3	ENSG00000196792	ENST00000555358	nonsense_mediated_decay	KNOWN	None	15720	999	332	31364551	31495525	-1	None	SG2NA
14	STRN3	ENSG00000196792	ENST00000554124	retained_intron	KNOWN	None	15720	None	None	31374623	31381517	-1	None	SG2NA
14	STRN3	ENSG00000196792	ENST00000366206	processed_transcript	PUTATIVE	None	15720	None	None	31381272	31401604	-1	None	SG2NA
14	STRN3	ENSG00000196792	ENST00000554991	protein_coding	NOVEL	None	15720	417	138	31382730	31404510	-1	None	SG2NA
14	STRN3	ENSG00000196792	ENST00000556577	protein_coding	NOVEL	None	15720	514	170	31382730	31405827	-1	None	SG2NA
14	STRN3	ENSG00000196792	ENST00000555152	protein_coding	PUTATIVE	None	15720	337	111	31416318	31433715	-1	None	SG2NA
4	RNU6-224P	ENSG00000206782	ENST00000384055	snRNA	KNOWN	None	47187	None	None	132194397	132194503	1	None	None
4	PHF17	ENSG00000077684	ENST00000511647	protein_coding	KNOWN	CCDS47134	30027	1530	509	129730858	129785236	1	None	JADE1
4	PHF17	ENSG00000077684	ENST00000452328	protein_coding	KNOWN	None	30027	2493	830	129730970	129796379	1	None	JADE1
4	PHF17	ENSG00000077684	ENST00000504089	protein_coding	KNOWN	None	30027	410	135	129730999	129770248	1	None	JADE1
4	PHF17	ENSG00000077684	ENST00000512960	protein_coding	KNOWN	CCDS34062	30027	2529	842	129731074	129793489	1	None	JADE1
4	PHF17	ENSG00000077684	ENST00000503785	protein_coding	KNOWN	None	30027	389	128	129731075	129770227	1	None	JADE1
4	PHF17	ENSG00000077684	ENST00000514740	protein_coding	KNOWN	None	30027	53	16	129731186	129752966	1	None	JADE1
4	PHF17	ENSG00000077684	ENST00000510308	protein_coding	KNOWN	None	30027	429	142	129732443	129770267	1	None	JADE1
4	PHF17	ENSG00000077684	ENST00000511925	nonsense_mediated_decay	KNOWN	None	30027	150	49	129732447	129773283	1	None	JADE1
4	PHF17	ENSG00000077684	ENST00000413543	protein_coding	KNOWN	CCDS47134	30027	1530	509	129732481	129785785	1	None	JADE1
4	PHF17	ENSG00000077684	ENST00000507833	protein_coding	KNOWN	None	30027	395	130	129732999	129770233	1	None	JADE1
4	PHF17	ENSG00000077684	ENST00000508997	protein_coding	KNOWN	None	30027	357	118	129752588	129770195	1	None	JADE1
4	PHF17	ENSG00000077684	ENST00000226319	protein_coding	KNOWN	CCDS34062	30027	2529	842	129730779	129796379	1	None	JADE1
4	None	ENSG00000250102	ENST00000500169	lincRNA	KNOWN	None	None	None	None	132301168	132449276	1	None	None
4	None	ENSG00000250102	ENST00000505436	lincRNA	KNOWN	None	None	None	None	132407112	132462552	1	None	None
7	ZNRF2P1	ENSG00000237004	ENST00000441407	processed_pseudogene	KNOWN	None	42792	None	None	32768181	32768623	1	None	None
HSCHR6_MHC_COX	None	ENSG00000257562	ENST00000552450	protein_coding	NOVEL	None	None	35	10	30007503	30067212	-1	None	None
4	None	ENSG00000248715	ENST00000514583	processed_pseudogene	KNOWN	None	None	None	None	132461436	132461644	1	None	None
4	RN7SL205P	ENSG00000241392	ENST00000490174	misc_RNA	KNOWN	None	46221	None	None	132641417	132641698	-1	None	None
HSCHR6_MHC_APD	HLA-N	ENSG00000232232	ENST00000457978	unprocessed_pseudogene	KNOWN	None	19406	None	None	30327431	30327565	1	None	HLA-30
4	None	ENSG00000252014	ENST00000516205	snoRNA	NOVEL	None	None	None	None	132689295	132689404	1	None	None
20	None	ENSG00000256566	ENST00000461548	nonsense_mediated_decay	KNOWN	None	None	342	113	2447858	2489553	-1	None	None
4	None	ENSG00000249416	ENST00000512403	processed_pseudogene	KNOWN	None	None	None	None	132689388	132689733	1	None	None
HSCHR6_MHC_MCF	LST1	ENSG00000234514	ENST00000423107	protein_coding	KNOWN	None	14189	201	66	31630207	31632990	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MCF	LST1	ENSG00000234514	ENST00000455901	protein_coding	KNOWN	None	14189	294	97	31630262	31632990	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MCF	LST1	ENSG00000234514	ENST00000497405	retained_intron	KNOWN	None	14189	None	None	31630277	31632990	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MCF	LST1	ENSG00000234514	ENST00000458456	protein_coding	KNOWN	None	14189	42	13	31630300	31632990	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MCF	LST1	ENSG00000234514	ENST00000453586	protein_coding	KNOWN	None	14189	87	28	31630300	31632990	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MCF	LST1	ENSG00000234514	ENST00000438349	protein_coding	KNOWN	None	14189	156	51	31630303	31632990	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MCF	LST1	ENSG00000234514	ENST00000473803	retained_intron	KNOWN	None	14189	None	None	31630318	31632990	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MCF	LST1	ENSG00000234514	ENST00000420785	protein_coding	KNOWN	None	14189	201	66	31630782	31632990	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MCF	LST1	ENSG00000234514	ENST00000419521	protein_coding	KNOWN	None	14189	87	28	31630931	31632990	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MCF	LST1	ENSG00000234514	ENST00000436969	protein_coding	KNOWN	None	14189	109	35	31630978	31631813	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MCF	LST1	ENSG00000234514	ENST00000430818	protein_coding	KNOWN	None	14189	87	28	31631092	31632990	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MCF	LST1	ENSG00000234514	ENST00000453830	protein_coding	KNOWN	None	14189	87	28	31631105	31632990	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MCF	LST1	ENSG00000234514	ENST00000426938	protein_coding	KNOWN	None	14189	294	97	31631115	31632990	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MCF	LST1	ENSG00000234514	ENST00000455052	protein_coding	KNOWN	None	14189	201	66	31631149	31632990	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MCF	LST1	ENSG00000234514	ENST00000428227	protein_coding	KNOWN	None	14189	201	66	31631163	31632990	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MCF	LST1	ENSG00000234514	ENST00000442915	protein_coding	KNOWN	None	14189	138	45	31631169	31631924	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MCF	LST1	ENSG00000234514	ENST00000449273	protein_coding	KNOWN	None	14189	180	59	31631180	31632990	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MCF	LST1	ENSG00000234514	ENST00000449799	protein_coding	KNOWN	None	14189	249	82	31631200	31632990	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MCF	LST1	ENSG00000234514	ENST00000454168	protein_coding	KNOWN	None	14189	222	73	31631283	31632990	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MCF	LST1	ENSG00000234514	ENST00000415490	protein_coding	KNOWN	None	14189	108	35	31631283	31632990	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MCF	LST1	ENSG00000234514	ENST00000436037	protein_coding	KNOWN	None	14189	315	104	31631283	31632990	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MCF	LST1	ENSG00000234514	ENST00000481404	retained_intron	KNOWN	None	14189	None	None	31631338	31632990	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MCF	LST1	ENSG00000234514	ENST00000415262	protein_coding	KNOWN	None	14189	131	42	31631387	31632990	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MCF	LST1	ENSG00000234514	ENST00000551498	protein_coding	KNOWN	None	14189	108	35	31630262	31632666	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MCF	LST1	ENSG00000234514	ENST00000546906	protein_coding	KNOWN	None	14189	276	91	31631283	31632989	1	None	LST-1, B144, D6S49E
7	MIR550A2	ENSG00000207573	ENST00000384841	miRNA	KNOWN	None	32805	None	None	32772593	32772689	1	MIRN550-2, MIR550-2	hsa-mir-550-2, hsa-mir-550a-2
4	None	ENSG00000251676	ENST00000507933	lincRNA	KNOWN	None	None	None	None	132694457	132695847	1	None	None
4	None	ENSG00000251676	ENST00000514222	lincRNA	KNOWN	None	None	None	None	132694702	132696191	1	None	None
4	None	ENSG00000251676	ENST00000507332	lincRNA	KNOWN	None	None	None	None	132694720	132712637	1	None	None
10	SFXN4	ENSG00000183605	ENST00000490417	retained_intron	KNOWN	None	16088	None	None	120900279	120916268	-1	None	None
10	SFXN4	ENSG00000183605	ENST00000484960	processed_transcript	KNOWN	None	16088	None	None	120900425	120914635	-1	None	None
10	SFXN4	ENSG00000183605	ENST00000355697	protein_coding	KNOWN	CCDS7610	16088	1014	337	120900425	120925179	-1	None	None
10	SFXN4	ENSG00000183605	ENST00000461438	processed_transcript	KNOWN	None	16088	None	None	120900768	120925166	-1	None	None
10	SFXN4	ENSG00000183605	ENST00000369131	protein_coding	KNOWN	None	16088	534	177	120905802	120925075	-1	None	None
10	SFXN4	ENSG00000183605	ENST00000466218	processed_transcript	KNOWN	None	16088	None	None	120907290	120925135	-1	None	None
10	SFXN4	ENSG00000183605	ENST00000419372	protein_coding	KNOWN	None	16088	188	61	120917181	120925054	-1	None	None
10	SFXN4	ENSG00000183605	ENST00000462913	processed_transcript	KNOWN	None	16088	None	None	120917519	120923708	-1	None	None
10	SFXN4	ENSG00000183605	ENST00000330036	protein_coding	KNOWN	None	16088	987	328	120900442	120925175	-1	None	None
5	FGFR4	ENSG00000160867	ENST00000292408	protein_coding	KNOWN	CCDS4410	3691	2409	802	176513887	176525145	1	None	JTK2, CD334
5	FGFR4	ENSG00000160867	ENST00000503708	protein_coding	KNOWN	None	3691	603	200	176513906	176518105	1	None	JTK2, CD334
5	FGFR4	ENSG00000160867	ENST00000393648	protein_coding	NOVEL	None	3691	2205	734	176513906	176525023	1	None	JTK2, CD334
5	FGFR4	ENSG00000160867	ENST00000514472	protein_coding	KNOWN	None	3691	343	113	176513915	176517642	1	None	JTK2, CD334
5	FGFR4	ENSG00000160867	ENST00000502906	protein_coding	KNOWN	CCDS4410	3691	2409	802	176513915	176524733	1	None	JTK2, CD334
5	FGFR4	ENSG00000160867	ENST00000510911	protein_coding	KNOWN	None	3691	262	86	176513917	176517561	1	None	JTK2, CD334
5	FGFR4	ENSG00000160867	ENST00000507708	processed_transcript	KNOWN	None	3691	None	None	176513917	176517564	1	None	JTK2, CD334
5	FGFR4	ENSG00000160867	ENST00000513166	protein_coding	KNOWN	None	3691	324	107	176514420	176517623	1	None	JTK2, CD334
5	FGFR4	ENSG00000160867	ENST00000393637	protein_coding	KNOWN	CCDS4411	3691	2289	762	176516568	176524770	1	None	JTK2, CD334
5	FGFR4	ENSG00000160867	ENST00000430285	nonsense_mediated_decay	KNOWN	None	3691	219	72	176516577	176518105	1	None	JTK2, CD334
5	FGFR4	ENSG00000160867	ENST00000426612	retained_intron	KNOWN	None	3691	None	None	176516599	176518097	1	None	JTK2, CD334
5	FGFR4	ENSG00000160867	ENST00000509511	retained_intron	KNOWN	None	3691	None	None	176516604	176520069	1	None	JTK2, CD334
5	FGFR4	ENSG00000160867	ENST00000508139	retained_intron	KNOWN	None	3691	None	None	176518779	176520497	1	None	JTK2, CD334
5	FGFR4	ENSG00000160867	ENST00000511076	protein_coding	NOVEL	None	3691	838	278	176520176	176523180	1	None	JTK2, CD334
5	FGFR4	ENSG00000160867	ENST00000483872	retained_intron	KNOWN	None	3691	None	None	176521826	176522580	1	None	JTK2, CD334
5	FGFR4	ENSG00000160867	ENST00000513423	retained_intron	KNOWN	None	3691	None	None	176524192	176524765	1	None	JTK2, CD334
5	FGFR4	ENSG00000160867	ENST00000292410	protein_coding	KNOWN	CCDS4411	3691	2289	762	176513915	176525143	1	None	JTK2, CD334
7	None	ENSG00000250756	ENST00000505003	unprocessed_pseudogene	KNOWN	None	None	None	None	32827946	32828054	1	None	None
3	FBXW12	ENSG00000164049	ENST00000296438	protein_coding	KNOWN	CCDS2764	20729	1395	464	48413709	48436190	1	FBXO35	Fbw12
3	FBXW12	ENSG00000164049	ENST00000436231	protein_coding	PUTATIVE	None	20729	924	307	48413765	48436152	1	FBXO35	Fbw12
3	FBXW12	ENSG00000164049	ENST00000445170	protein_coding	NOVEL	CCDS54577	20729	1338	445	48413765	48436152	1	FBXO35	Fbw12
3	FBXW12	ENSG00000164049	ENST00000415155	protein_coding	NOVEL	CCDS54578	20729	1185	394	48413765	48436152	1	FBXO35	Fbw12
3	FBXW12	ENSG00000164049	ENST00000477542	retained_intron	KNOWN	None	20729	None	None	48413765	48436152	1	FBXO35	Fbw12
3	FBXW12	ENSG00000164049	ENST00000468158	processed_transcript	KNOWN	None	20729	None	None	48421227	48442666	1	FBXO35	Fbw12
12	ATP2B1	ENSG00000070961	ENST00000359142	protein_coding	KNOWN	CCDS41817	814	3531	1176	89981833	90049888	-1	None	PMCA1
12	ATP2B1	ENSG00000070961	ENST00000428670	protein_coding	KNOWN	CCDS9035	814	3663	1220	89981849	90102608	-1	None	PMCA1
12	ATP2B1	ENSG00000070961	ENST00000393164	protein_coding	PUTATIVE	None	814	2892	963	89984619	90024531	-1	None	PMCA1
12	ATP2B1	ENSG00000070961	ENST00000550716	protein_coding	PUTATIVE	None	814	486	161	89984880	89996929	-1	None	PMCA1
12	ATP2B1	ENSG00000070961	ENST00000552275	retained_intron	KNOWN	None	814	None	None	89995181	89997543	-1	None	PMCA1
12	ATP2B1	ENSG00000070961	ENST00000551009	retained_intron	KNOWN	None	814	None	None	89997573	90004482	-1	None	PMCA1
12	ATP2B1	ENSG00000070961	ENST00000549727	retained_intron	KNOWN	None	814	None	None	89997615	90005924	-1	None	PMCA1
12	ATP2B1	ENSG00000070961	ENST00000549585	retained_intron	KNOWN	None	814	None	None	90035600	90049796	-1	None	PMCA1
12	ATP2B1	ENSG00000070961	ENST00000551310	protein_coding	KNOWN	None	814	304	100	90049360	90103077	-1	None	PMCA1
12	ATP2B1	ENSG00000070961	ENST00000261173	protein_coding	KNOWN	CCDS9035	814	3663	1220	89981828	90049844	-1	None	PMCA1
12	ATP2B1	ENSG00000070961	ENST00000348959	protein_coding	KNOWN	None	814	3555	1184	89981828	90049844	-1	None	PMCA1
20	ZNF343	ENSG00000088876	ENST00000465019	retained_intron	KNOWN	None	16017	None	None	2462463	2473676	-1	None	MGC10715
20	ZNF343	ENSG00000088876	ENST00000278772	protein_coding	KNOWN	CCDS13028	16017	1800	599	2462463	2489778	-1	None	MGC10715
20	ZNF343	ENSG00000088876	ENST00000445484	protein_coding	KNOWN	None	16017	434	143	2465173	2505348	-1	None	MGC10715
20	ZNF343	ENSG00000088876	ENST00000381253	protein_coding	PUTATIVE	None	16017	357	118	2472487	2489561	-1	None	MGC10715
20	ZNF343	ENSG00000088876	ENST00000421216	protein_coding	KNOWN	None	16017	304	100	2473345	2489547	-1	None	MGC10715
20	ZNF343	ENSG00000088876	ENST00000358413	protein_coding	KNOWN	None	16017	357	118	2472678	2505165	-1	None	MGC10715
HSCHR6_MHC_COX	ZNRD1	ENSG00000224859	ENST00000481657	retained_intron	KNOWN	None	13182	None	None	30016578	30022582	1	None	hZR14, HTEX-6, tctex-6, RPA12
HSCHR6_MHC_COX	ZNRD1	ENSG00000224859	ENST00000455948	protein_coding	KNOWN	None	13182	381	126	30018933	30022582	1	None	hZR14, HTEX-6, tctex-6, RPA12
HSCHR6_MHC_COX	ZNRD1	ENSG00000224859	ENST00000428913	protein_coding	KNOWN	None	13182	381	126	30018936	30022582	1	None	hZR14, HTEX-6, tctex-6, RPA12
HSCHR6_MHC_COX	ZNRD1	ENSG00000224859	ENST00000446493	protein_coding	KNOWN	None	13182	381	126	30018938	30022582	1	None	hZR14, HTEX-6, tctex-6, RPA12
HSCHR6_MHC_COX	ZNRD1	ENSG00000224859	ENST00000451875	protein_coding	KNOWN	None	13182	381	126	30018942	30022582	1	None	hZR14, HTEX-6, tctex-6, RPA12
HSCHR6_MHC_COX	ZNRD1	ENSG00000224859	ENST00000472459	processed_transcript	KNOWN	None	13182	None	None	30019009	30022582	1	None	hZR14, HTEX-6, tctex-6, RPA12
HSCHR6_MHC_MANN	HLA-DMA	ENSG00000243189	ENST00000495512	retained_intron	KNOWN	None	4934	None	None	33070204	33071265	-1	None	D6S222E, RING6
HSCHR6_MHC_MANN	HLA-DMA	ENSG00000243189	ENST00000420299	protein_coding	KNOWN	None	4934	501	166	33070204	33074653	-1	None	D6S222E, RING6
HSCHR6_MHC_MANN	HLA-DMA	ENSG00000243189	ENST00000432991	protein_coding	KNOWN	None	4934	684	227	33070204	33074700	-1	None	D6S222E, RING6
HSCHR6_MHC_MANN	HLA-DMA	ENSG00000243189	ENST00000489001	retained_intron	KNOWN	None	4934	None	None	33070204	33074700	-1	None	D6S222E, RING6
HSCHR6_MHC_MANN	HLA-DMA	ENSG00000243189	ENST00000452615	protein_coding	KNOWN	None	4934	786	261	33070204	33074714	-1	None	D6S222E, RING6
HSCHR6_MHC_MANN	HLA-DMA	ENSG00000243189	ENST00000485999	processed_transcript	KNOWN	None	4934	None	None	33070332	33092323	-1	None	D6S222E, RING6
HSCHR6_MHC_MANN	HLA-DMA	ENSG00000243189	ENST00000494230	processed_transcript	KNOWN	None	4934	None	None	33070365	33090051	-1	None	D6S222E, RING6
HSCHR6_MHC_MANN	HLA-DMA	ENSG00000243189	ENST00000440717	protein_coding	KNOWN	None	4934	871	289	33070865	33074053	-1	None	D6S222E, RING6
HSCHR6_MHC_MANN	HLA-DMA	ENSG00000243189	ENST00000426176	protein_coding	KNOWN	None	4934	507	168	33071251	33090701	-1	None	D6S222E, RING6
HSCHR6_MHC_MANN	HLA-DMA	ENSG00000243189	ENST00000475844	retained_intron	KNOWN	None	4934	None	None	33071678	33074626	-1	None	D6S222E, RING6
20	None	ENSG00000258950	ENST00000553571	processed_transcript	KNOWN	None	None	None	None	1433765	1454487	-1	None	None
X	CDR1	ENSG00000184258	ENST00000370532	protein_coding	KNOWN	CCDS14670	1798	789	262	139865425	139866723	-1	CDR	CDR62A, CDR34
5	FER	ENSG00000151422	ENST00000281092	protein_coding	KNOWN	CCDS4098	3655	2469	822	108083523	108532542	1	None	TYK3, PPP1R74
5	FER	ENSG00000151422	ENST00000509035	processed_transcript	KNOWN	None	3655	None	None	108083542	108168625	1	None	TYK3, PPP1R74
5	FER	ENSG00000151422	ENST00000513676	processed_transcript	PUTATIVE	None	3655	None	None	108084100	108168521	1	None	TYK3, PPP1R74
5	FER	ENSG00000151422	ENST00000504143	nonsense_mediated_decay	KNOWN	None	3655	255	84	108084663	108523976	1	None	TYK3, PPP1R74
5	FER	ENSG00000151422	ENST00000502752	processed_transcript	KNOWN	None	3655	None	None	108084668	108178702	1	None	TYK3, PPP1R74
5	FER	ENSG00000151422	ENST00000505323	processed_transcript	KNOWN	None	3655	None	None	108260309	108380527	1	None	TYK3, PPP1R74
5	FER	ENSG00000151422	ENST00000513777	processed_transcript	KNOWN	None	3655	None	None	108513218	108523368	1	None	TYK3, PPP1R74
5	FER	ENSG00000151422	ENST00000536402	protein_coding	KNOWN	None	3655	981	326	108083523	108295018	1	None	TYK3, PPP1R74
5	FER	ENSG00000151422	ENST00000438717	protein_coding	KNOWN	None	3655	1944	647	108133815	108523934	1	None	TYK3, PPP1R74
20	None	ENSG00000266085	ENST00000580848	miRNA	NOVEL	None	None	None	None	1469195	1469292	1	None	None
20	None	ENSG00000242324	ENST00000453770	unprocessed_pseudogene	KNOWN	None	None	None	None	1497405	1538299	-1	None	None
1	ARPC5	ENSG00000162704	ENST00000367534	protein_coding	KNOWN	None	708	408	135	183592401	183604817	-1	None	p16-Arc, ARC16, dJ127C7.3
1	ARPC5	ENSG00000162704	ENST00000462965	processed_transcript	KNOWN	None	708	None	None	183595329	183603093	-1	None	p16-Arc, ARC16, dJ127C7.3
1	ARPC5	ENSG00000162704	ENST00000359856	protein_coding	KNOWN	CCDS1357	708	456	151	183595352	183604861	-1	None	p16-Arc, ARC16, dJ127C7.3
1	ARPC5	ENSG00000162704	ENST00000294742	protein_coding	KNOWN	CCDS58050	708	465	154	183595593	183604892	-1	None	p16-Arc, ARC16, dJ127C7.3
1	ARPC5	ENSG00000162704	ENST00000602490	retained_intron	KNOWN	None	708	None	None	183599460	183602444	-1	None	p16-Arc, ARC16, dJ127C7.3
12	SLCO1A2	ENSG00000084453	ENST00000307378	protein_coding	KNOWN	CCDS8686	10956	2013	670	21417534	21548371	-1	SLC21A3	OATP, OATP1A2, OATP-A
12	SLCO1A2	ENSG00000084453	ENST00000544020	nonsense_mediated_decay	KNOWN	None	10956	282	93	21422272	21487605	-1	SLC21A3	OATP, OATP1A2, OATP-A
12	SLCO1A2	ENSG00000084453	ENST00000458504	protein_coding	PUTATIVE	None	10956	1617	538	21422348	21487834	-1	SLC21A3	OATP, OATP1A2, OATP-A
12	SLCO1A2	ENSG00000084453	ENST00000544290	nonsense_mediated_decay	KNOWN	None	10956	288	95	21422393	21548195	-1	SLC21A3	OATP, OATP1A2, OATP-A
12	SLCO1A2	ENSG00000084453	ENST00000480394	retained_intron	KNOWN	None	10956	None	None	21426876	21477615	-1	SLC21A3	OATP, OATP1A2, OATP-A
12	SLCO1A2	ENSG00000084453	ENST00000463718	retained_intron	KNOWN	None	10956	None	None	21427837	21477670	-1	SLC21A3	OATP, OATP1A2, OATP-A
12	SLCO1A2	ENSG00000084453	ENST00000413682	protein_coding	PUTATIVE	None	10956	97	31	21457457	21570950	-1	SLC21A3	OATP, OATP1A2, OATP-A
12	SLCO1A2	ENSG00000084453	ENST00000422327	protein_coding	KNOWN	None	10956	442	146	21459816	21487841	-1	SLC21A3	OATP, OATP1A2, OATP-A
12	SLCO1A2	ENSG00000084453	ENST00000453443	protein_coding	KNOWN	None	10956	410	135	21459848	21556597	-1	SLC21A3	OATP, OATP1A2, OATP-A
12	SLCO1A2	ENSG00000084453	ENST00000473830	processed_transcript	KNOWN	None	10956	None	None	21464561	21572528	-1	SLC21A3	OATP, OATP1A2, OATP-A
12	SLCO1A2	ENSG00000084453	ENST00000421294	protein_coding	KNOWN	None	10956	299	98	21467519	21487847	-1	SLC21A3	OATP, OATP1A2, OATP-A
12	SLCO1A2	ENSG00000084453	ENST00000450590	protein_coding	KNOWN	None	10956	273	90	21467545	21556591	-1	SLC21A3	OATP, OATP1A2, OATP-A
12	SLCO1A2	ENSG00000084453	ENST00000435179	protein_coding	KNOWN	None	10956	264	87	21467554	21572518	-1	SLC21A3	OATP, OATP1A2, OATP-A
12	SLCO1A2	ENSG00000084453	ENST00000445053	protein_coding	PUTATIVE	None	10956	214	70	21467598	21487829	-1	SLC21A3	OATP, OATP1A2, OATP-A
12	SLCO1A2	ENSG00000084453	ENST00000421287	protein_coding	KNOWN	None	10956	153	50	21471765	21548331	-1	SLC21A3	OATP, OATP1A2, OATP-A
12	SLCO1A2	ENSG00000084453	ENST00000416627	protein_coding	KNOWN	None	10956	39	12	21487543	21548331	-1	SLC21A3	OATP, OATP1A2, OATP-A
12	SLCO1A2	ENSG00000084453	ENST00000430803	protein_coding	KNOWN	None	10956	5	0	21487577	21548331	-1	SLC21A3	OATP, OATP1A2, OATP-A
12	SLCO1A2	ENSG00000084453	ENST00000452078	protein_coding	KNOWN	CCDS8686	10956	2013	670	21417535	21487832	-1	SLC21A3	OATP, OATP1A2, OATP-A
12	SLCO1A2	ENSG00000084453	ENST00000537524	protein_coding	KNOWN	None	10956	1617	538	21422393	21548195	-1	SLC21A3	OATP, OATP1A2, OATP-A
12	SLCO1A2	ENSG00000084453	ENST00000390670	protein_coding	KNOWN	None	10956	1740	579	21428223	21487605	-1	SLC21A3	OATP, OATP1A2, OATP-A
20	RNU6-917P	ENSG00000252103	ENST00000516294	snRNA	KNOWN	None	47880	None	None	1509702	1509805	-1	None	None
13	ARHGEF7	ENSG00000102606	ENST00000483540	processed_transcript	KNOWN	None	15607	None	None	111766906	111806309	1	None	KIAA0142, PIXB, DKFZp761K1021, Nbla10314, DKFZp686C12170, BETA-PIX, COOL1, P85SPR, P85, P85COOL1, P50BP, PAK3, P50
13	ARHGEF7	ENSG00000102606	ENST00000317133	protein_coding	KNOWN	CCDS32009	15607	2349	782	111766966	111945783	1	None	KIAA0142, PIXB, DKFZp761K1021, Nbla10314, DKFZp686C12170, BETA-PIX, COOL1, P85SPR, P85, P85COOL1, P50BP, PAK3, P50
13	ARHGEF7	ENSG00000102606	ENST00000422836	processed_transcript	KNOWN	None	15607	None	None	111767766	111768922	1	None	KIAA0142, PIXB, DKFZp761K1021, Nbla10314, DKFZp686C12170, BETA-PIX, COOL1, P85SPR, P85, P85COOL1, P50BP, PAK3, P50
13	ARHGEF7	ENSG00000102606	ENST00000449979	protein_coding	KNOWN	None	15607	199	65	111767775	111870227	1	None	KIAA0142, PIXB, DKFZp761K1021, Nbla10314, DKFZp686C12170, BETA-PIX, COOL1, P85SPR, P85, P85COOL1, P50BP, PAK3, P50
13	ARHGEF7	ENSG00000102606	ENST00000491775	protein_coding	KNOWN	None	15607	119	38	111805994	111870147	1	None	KIAA0142, PIXB, DKFZp761K1021, Nbla10314, DKFZp686C12170, BETA-PIX, COOL1, P85SPR, P85, P85COOL1, P50BP, PAK3, P50
13	ARHGEF7	ENSG00000102606	ENST00000466143	protein_coding	KNOWN	None	15607	1342	446	111806036	111935573	1	None	KIAA0142, PIXB, DKFZp761K1021, Nbla10314, DKFZp686C12170, BETA-PIX, COOL1, P85SPR, P85, P85COOL1, P50BP, PAK3, P50
13	ARHGEF7	ENSG00000102606	ENST00000469877	nonsense_mediated_decay	KNOWN	None	15607	456	151	111806036	111935645	1	None	KIAA0142, PIXB, DKFZp761K1021, Nbla10314, DKFZp686C12170, BETA-PIX, COOL1, P85SPR, P85, P85COOL1, P50BP, PAK3, P50
13	ARHGEF7	ENSG00000102606	ENST00000218789	protein_coding	NOVEL	None	15607	2118	705	111806061	111958078	1	None	KIAA0142, PIXB, DKFZp761K1021, Nbla10314, DKFZp686C12170, BETA-PIX, COOL1, P85SPR, P85, P85COOL1, P50BP, PAK3, P50
13	ARHGEF7	ENSG00000102606	ENST00000375736	protein_coding	KNOWN	CCDS9521	15607	1941	646	111806085	111958078	1	None	KIAA0142, PIXB, DKFZp761K1021, Nbla10314, DKFZp686C12170, BETA-PIX, COOL1, P85SPR, P85, P85COOL1, P50BP, PAK3, P50
13	ARHGEF7	ENSG00000102606	ENST00000467053	protein_coding	KNOWN	None	15607	184	60	111837285	111870212	1	None	KIAA0142, PIXB, DKFZp761K1021, Nbla10314, DKFZp686C12170, BETA-PIX, COOL1, P85SPR, P85, P85COOL1, P50BP, PAK3, P50
13	ARHGEF7	ENSG00000102606	ENST00000426073	protein_coding	KNOWN	CCDS9521	15607	1941	646	111839201	111958084	1	None	KIAA0142, PIXB, DKFZp761K1021, Nbla10314, DKFZp686C12170, BETA-PIX, COOL1, P85SPR, P85, P85COOL1, P50BP, PAK3, P50
13	ARHGEF7	ENSG00000102606	ENST00000426768	protein_coding	PUTATIVE	None	15607	429	142	111855407	111870232	1	None	KIAA0142, PIXB, DKFZp761K1021, Nbla10314, DKFZp686C12170, BETA-PIX, COOL1, P85SPR, P85, P85COOL1, P50BP, PAK3, P50
13	ARHGEF7	ENSG00000102606	ENST00000375723	protein_coding	NOVEL	None	15607	1878	625	111857636	111947539	1	None	KIAA0142, PIXB, DKFZp761K1021, Nbla10314, DKFZp686C12170, BETA-PIX, COOL1, P85SPR, P85, P85COOL1, P50BP, PAK3, P50
13	ARHGEF7	ENSG00000102606	ENST00000483189	processed_transcript	KNOWN	None	15607	None	None	111893492	111928378	1	None	KIAA0142, PIXB, DKFZp761K1021, Nbla10314, DKFZp686C12170, BETA-PIX, COOL1, P85SPR, P85, P85COOL1, P50BP, PAK3, P50
13	ARHGEF7	ENSG00000102606	ENST00000478679	protein_coding	PUTATIVE	None	15607	1644	547	111893567	111944805	1	None	KIAA0142, PIXB, DKFZp761K1021, Nbla10314, DKFZp686C12170, BETA-PIX, COOL1, P85SPR, P85, P85COOL1, P50BP, PAK3, P50
13	ARHGEF7	ENSG00000102606	ENST00000491688	processed_transcript	KNOWN	None	15607	None	None	111935175	111938583	1	None	KIAA0142, PIXB, DKFZp761K1021, Nbla10314, DKFZp686C12170, BETA-PIX, COOL1, P85SPR, P85, P85COOL1, P50BP, PAK3, P50
13	ARHGEF7	ENSG00000102606	ENST00000370623	protein_coding	KNOWN	None	15607	2196	731	111767874	111958078	1	None	KIAA0142, PIXB, DKFZp761K1021, Nbla10314, DKFZp686C12170, BETA-PIX, COOL1, P85SPR, P85, P85COOL1, P50BP, PAK3, P50
13	ARHGEF7	ENSG00000102606	ENST00000375741	protein_coding	KNOWN	CCDS45068	15607	2412	803	111767624	111947542	1	None	KIAA0142, PIXB, DKFZp761K1021, Nbla10314, DKFZp686C12170, BETA-PIX, COOL1, P85SPR, P85, P85COOL1, P50BP, PAK3, P50
13	ARHGEF7	ENSG00000102606	ENST00000375739	protein_coding	KNOWN	CCDS45069	15607	2262	753	111767624	111947542	1	None	KIAA0142, PIXB, DKFZp761K1021, Nbla10314, DKFZp686C12170, BETA-PIX, COOL1, P85SPR, P85, P85COOL1, P50BP, PAK3, P50
13	ARHGEF7	ENSG00000102606	ENST00000375737	protein_coding	KNOWN	None	15607	2166	721	111855415	111955650	1	None	KIAA0142, PIXB, DKFZp761K1021, Nbla10314, DKFZp686C12170, BETA-PIX, COOL1, P85SPR, P85, P85COOL1, P50BP, PAK3, P50
13	ARHGEF7	ENSG00000102606	ENST00000544132	protein_coding	KNOWN	None	15607	546	181	111806036	111935645	1	None	KIAA0142, PIXB, DKFZp761K1021, Nbla10314, DKFZp686C12170, BETA-PIX, COOL1, P85SPR, P85, P85COOL1, P50BP, PAK3, P50
20	None	ENSG00000271523	ENST00000604968	processed_pseudogene	KNOWN	None	None	None	None	1572038	1572494	1	None	None
1	ALX3	ENSG00000156150	ENST00000369792	protein_coding	KNOWN	CCDS819	449	1032	343	110602616	110613322	-1	None	None
20	None	ENSG00000237914	ENST00000456177	processed_transcript	KNOWN	None	None	None	None	1614154	1629118	1	None	None
20	None	ENSG00000237914	ENST00000437384	processed_transcript	KNOWN	None	None	None	None	1614272	1619100	1	None	None
10	RN7SL524P	ENSG00000266754	ENST00000581152	misc_RNA	KNOWN	None	46540	None	None	105734277	105734572	-1	None	None
10	MIR936	ENSG00000216083	ENST00000401264	miRNA	KNOWN	None	33679	None	None	105807847	105807944	-1	MIRN936	hsa-mir-936
19	ZNF69	ENSG00000198429	ENST00000429654	protein_coding	KNOWN	None	13138	1701	566	11998599	12017082	1	None	Cos5
19	ZNF69	ENSG00000198429	ENST00000445911	protein_coding	NOVEL	None	13138	463	153	11998633	12015717	1	None	Cos5
19	ZNF69	ENSG00000198429	ENST00000340180	protein_coding	KNOWN	CCDS32914	13138	450	149	11998670	12025144	1	None	Cos5
20	None	ENSG00000223750	ENST00000340424	unprocessed_pseudogene	KNOWN	None	None	None	None	1645929	1688846	-1	None	None
19	ALKBH7	ENSG00000125652	ENST00000245812	protein_coding	KNOWN	CCDS12163	21306	666	221	6372444	6375040	1	SPATA11	MGC10974
19	ALKBH7	ENSG00000125652	ENST00000596657	protein_coding	PUTATIVE	None	21306	240	79	6373482	6375038	1	SPATA11	MGC10974
19	ALKBH7	ENSG00000125652	ENST00000599849	protein_coding	PUTATIVE	None	21306	483	160	6373715	6375042	1	SPATA11	MGC10974
20	TMC2	ENSG00000149488	ENST00000358864	protein_coding	KNOWN	CCDS13029	16527	2721	906	2517253	2622430	1	C20orf145	dJ686C3.3
20	TMC2	ENSG00000149488	ENST00000496948	processed_transcript	KNOWN	None	16527	None	None	2582812	2598916	1	C20orf145	dJ686C3.3
X	SPANXB2	ENSG00000227234	ENST00000449283	protein_coding	KNOWN	CCDS48177	14330	312	103	140084756	140085871	1	None	None
18	PTPN2	ENSG00000175354	ENST00000589444	retained_intron	KNOWN	None	9650	None	None	12785477	12787740	-1	PTPT	TCELLPTP, TC-PTP, TCPTP
18	PTPN2	ENSG00000175354	ENST00000327283	protein_coding	KNOWN	CCDS11863	9650	1164	387	12785477	12884337	-1	PTPT	TCELLPTP, TC-PTP, TCPTP
18	PTPN2	ENSG00000175354	ENST00000591901	protein_coding	PUTATIVE	None	9650	338	111	12785480	12802152	-1	PTPT	TCELLPTP, TC-PTP, TCPTP
18	PTPN2	ENSG00000175354	ENST00000591115	protein_coding	NOVEL	CCDS59306	9650	1233	410	12785480	12884213	-1	PTPT	TCELLPTP, TC-PTP, TCPTP
18	PTPN2	ENSG00000175354	ENST00000353319	protein_coding	NOVEL	CCDS11864	9650	1062	353	12785482	12884280	-1	PTPT	TCELLPTP, TC-PTP, TCPTP
18	PTPN2	ENSG00000175354	ENST00000585666	protein_coding	PUTATIVE	None	9650	454	150	12785505	12814304	-1	PTPT	TCELLPTP, TC-PTP, TCPTP
18	PTPN2	ENSG00000175354	ENST00000587703	protein_coding	NOVEL	None	9650	439	145	12785684	12836823	-1	PTPT	TCELLPTP, TC-PTP, TCPTP
18	PTPN2	ENSG00000175354	ENST00000309660	protein_coding	KNOWN	CCDS11865	9650	1248	415	12792152	12884234	-1	PTPT	TCELLPTP, TC-PTP, TCPTP
18	PTPN2	ENSG00000175354	ENST00000591497	protein_coding	PUTATIVE	None	9650	1161	386	12792301	12843980	-1	PTPT	TCELLPTP, TC-PTP, TCPTP
18	PTPN2	ENSG00000175354	ENST00000591305	nonsense_mediated_decay	KNOWN	None	9650	129	42	12801988	12884221	-1	PTPT	TCELLPTP, TC-PTP, TCPTP
18	PTPN2	ENSG00000175354	ENST00000587497	processed_transcript	PUTATIVE	None	9650	None	None	12814196	12818999	-1	PTPT	TCELLPTP, TC-PTP, TCPTP
18	PTPN2	ENSG00000175354	ENST00000592776	nonsense_mediated_decay	KNOWN	None	9650	498	165	12814324	12884276	-1	PTPT	TCELLPTP, TC-PTP, TCPTP
18	PTPN2	ENSG00000175354	ENST00000589216	nonsense_mediated_decay	KNOWN	None	9650	129	42	12817180	12884197	-1	PTPT	TCELLPTP, TC-PTP, TCPTP
18	PTPN2	ENSG00000175354	ENST00000592059	protein_coding	PUTATIVE	None	9650	204	67	12825803	12929642	-1	PTPT	TCELLPTP, TC-PTP, TCPTP
18	PTPN2	ENSG00000175354	ENST00000589086	processed_transcript	PUTATIVE	None	9650	None	None	12836823	12862472	-1	PTPT	TCELLPTP, TC-PTP, TCPTP
2	ACYP2	ENSG00000170634	ENST00000606082	protein_coding	PUTATIVE	None	180	123	40	54197975	54202513	1	None	None
2	ACYP2	ENSG00000170634	ENST00000458030	processed_transcript	KNOWN	None	180	None	None	54197975	54307601	1	None	None
2	ACYP2	ENSG00000170634	ENST00000607452	protein_coding	PUTATIVE	None	180	519	172	54198240	54531996	1	None	None
2	ACYP2	ENSG00000170634	ENST00000422521	protein_coding	PUTATIVE	None	180	351	116	54198245	54293184	1	None	None
2	ACYP2	ENSG00000170634	ENST00000406041	protein_coding	KNOWN	None	180	294	97	54342540	54370451	1	None	None
2	ACYP2	ENSG00000170634	ENST00000303536	protein_coding	PUTATIVE	None	180	297	98	54342641	54532163	1	None	None
2	ACYP2	ENSG00000170634	ENST00000394666	protein_coding	KNOWN	CCDS1850	180	300	99	54342641	54532437	1	None	None
2	ACYP2	ENSG00000170634	ENST00000494922	nonsense_mediated_decay	KNOWN	None	180	200	65	54342843	54532388	1	None	None
2	ACYP2	ENSG00000170634	ENST00000606865	protein_coding	PUTATIVE	None	180	252	83	54350316	54532156	1	None	None
20	RN7SL561P	ENSG00000242348	ENST00000488553	misc_RNA	KNOWN	None	46577	None	None	1647006	1647284	1	None	None
1	UBL4B	ENSG00000186150	ENST00000334179	protein_coding	KNOWN	CCDS820	32309	525	174	110655062	110656569	1	None	FLJ25690
20	None	ENSG00000236550	ENST00000456875	unprocessed_pseudogene	KNOWN	None	None	None	None	1657308	1657553	-1	None	None
17	CCL1	ENSG00000108702	ENST00000225842	protein_coding	KNOWN	CCDS11282	10609	291	96	32687347	32690250	-1	SCYA1	I-309, TCA3, P500, SISe
20	None	ENSG00000234282	ENST00000455216	unprocessed_pseudogene	KNOWN	None	None	None	None	1702691	1703183	-1	None	None
20	None	ENSG00000271461	ENST00000603520	processed_pseudogene	KNOWN	None	None	None	None	1737402	1739586	-1	None	None
10	PRKRIRP3	ENSG00000227972	ENST00000456373	processed_pseudogene	KNOWN	None	39567	None	None	54170895	54173252	1	None	None
20	ELMO2	ENSG00000062598	ENST00000290246	protein_coding	KNOWN	CCDS13398	17233	2163	720	44994688	45035256	-1	None	CED12, ELMO-2, CED-12, KIAA1834, FLJ11656
20	ELMO2	ENSG00000062598	ENST00000467800	nonsense_mediated_decay	KNOWN	None	17233	1325	440	44994689	45004410	-1	None	CED12, ELMO-2, CED-12, KIAA1834, FLJ11656
20	ELMO2	ENSG00000062598	ENST00000372176	protein_coding	KNOWN	None	17233	1899	632	44994689	45035198	-1	None	CED12, ELMO-2, CED-12, KIAA1834, FLJ11656
20	ELMO2	ENSG00000062598	ENST00000452857	protein_coding	KNOWN	None	17233	852	283	44994693	45002154	-1	None	CED12, ELMO-2, CED-12, KIAA1834, FLJ11656
20	ELMO2	ENSG00000062598	ENST00000352077	protein_coding	KNOWN	None	17233	2157	718	44995999	45023121	-1	None	CED12, ELMO-2, CED-12, KIAA1834, FLJ11656
20	ELMO2	ENSG00000062598	ENST00000464448	processed_transcript	KNOWN	None	17233	None	None	44999082	45002134	-1	None	CED12, ELMO-2, CED-12, KIAA1834, FLJ11656
20	ELMO2	ENSG00000062598	ENST00000425546	protein_coding	KNOWN	None	17233	804	267	45001474	45014803	-1	None	CED12, ELMO-2, CED-12, KIAA1834, FLJ11656
20	ELMO2	ENSG00000062598	ENST00000462491	processed_transcript	KNOWN	None	17233	None	None	45001880	45014803	-1	None	CED12, ELMO-2, CED-12, KIAA1834, FLJ11656
20	ELMO2	ENSG00000062598	ENST00000481852	processed_transcript	KNOWN	None	17233	None	None	45002990	45005606	-1	None	CED12, ELMO-2, CED-12, KIAA1834, FLJ11656
20	ELMO2	ENSG00000062598	ENST00000488853	processed_transcript	KNOWN	None	17233	None	None	45003077	45035238	-1	None	CED12, ELMO-2, CED-12, KIAA1834, FLJ11656
20	ELMO2	ENSG00000062598	ENST00000450812	protein_coding	KNOWN	None	17233	1015	337	45003925	45035243	-1	None	CED12, ELMO-2, CED-12, KIAA1834, FLJ11656
20	ELMO2	ENSG00000062598	ENST00000480042	processed_transcript	KNOWN	None	17233	None	None	45008558	45014804	-1	None	CED12, ELMO-2, CED-12, KIAA1834, FLJ11656
20	ELMO2	ENSG00000062598	ENST00000469801	processed_transcript	KNOWN	None	17233	None	None	45012055	45035254	-1	None	CED12, ELMO-2, CED-12, KIAA1834, FLJ11656
20	ELMO2	ENSG00000062598	ENST00000460474	processed_transcript	KNOWN	None	17233	None	None	45012107	45035254	-1	None	CED12, ELMO-2, CED-12, KIAA1834, FLJ11656
20	ELMO2	ENSG00000062598	ENST00000497412	processed_transcript	KNOWN	None	17233	None	None	45014763	45035263	-1	None	CED12, ELMO-2, CED-12, KIAA1834, FLJ11656
20	ELMO2	ENSG00000062598	ENST00000487583	processed_transcript	KNOWN	None	17233	None	None	45016066	45061624	-1	None	CED12, ELMO-2, CED-12, KIAA1834, FLJ11656
20	ELMO2	ENSG00000062598	ENST00000462593	processed_transcript	KNOWN	None	17233	None	None	45016144	45023076	-1	None	CED12, ELMO-2, CED-12, KIAA1834, FLJ11656
20	ELMO2	ENSG00000062598	ENST00000396391	protein_coding	KNOWN	CCDS13398	17233	2163	720	44994694	45035271	-1	None	CED12, ELMO-2, CED-12, KIAA1834, FLJ11656
20	ELMO2	ENSG00000062598	ENST00000439931	protein_coding	KNOWN	None	17233	2199	732	44995767	45035265	-1	None	CED12, ELMO-2, CED-12, KIAA1834, FLJ11656
20	ELMO2	ENSG00000062598	ENST00000445496	protein_coding	KNOWN	None	17233	1614	537	44995800	45061704	-1	None	CED12, ELMO-2, CED-12, KIAA1834, FLJ11656
20	ELMO2	ENSG00000062598	ENST00000454865	protein_coding	KNOWN	None	17233	1359	452	44995850	45005578	-1	None	CED12, ELMO-2, CED-12, KIAA1834, FLJ11656
20	None	ENSG00000232528	ENST00000418979	unitary_pseudogene	KNOWN	None	None	None	None	1748603	1760641	-1	None	None
20	None	ENSG00000232528	ENST00000458670	processed_transcript	KNOWN	None	None	None	None	1754011	1760392	-1	None	None
1	NKAIN1	ENSG00000084628	ENST00000373736	protein_coding	KNOWN	CCDS339	25743	624	207	31652592	31712401	-1	FAM77C	FLJ12650
1	NKAIN1	ENSG00000084628	ENST00000528449	processed_transcript	KNOWN	None	25743	None	None	31653387	31654523	-1	FAM77C	FLJ12650
1	NKAIN1	ENSG00000084628	ENST00000526106	protein_coding	NOVEL	None	25743	455	150	31654436	31661000	-1	FAM77C	FLJ12650
1	NKAIN1	ENSG00000084628	ENST00000530145	protein_coding	PUTATIVE	None	25743	379	125	31655398	31666767	-1	FAM77C	FLJ12650
1	NKAIN1	ENSG00000084628	ENST00000533581	retained_intron	KNOWN	None	25743	None	None	31658010	31661243	-1	FAM77C	FLJ12650
1	NKAIN1	ENSG00000084628	ENST00000263693	protein_coding	KNOWN	None	25743	492	163	31652593	31661000	-1	FAM77C	FLJ12650
1	NKAIN1	ENSG00000084628	ENST00000398657	protein_coding	KNOWN	None	25743	411	136	31653559	31661000	-1	FAM77C	FLJ12650
1	SLC6A17	ENSG00000197106	ENST00000331565	protein_coding	KNOWN	CCDS30799	31399	2184	727	110693108	110744824	1	None	None
1	SLC6A17	ENSG00000197106	ENST00000465159	processed_transcript	KNOWN	None	31399	None	None	110735190	110737610	1	None	None
19	PSPN	ENSG00000125650	ENST00000597721	protein_coding	PUTATIVE	None	9579	495	164	6375159	6379069	-1	None	PSP
19	PSPN	ENSG00000125650	ENST00000245810	protein_coding	KNOWN	CCDS12164	9579	471	156	6375305	6375860	-1	None	PSP
HSCHR6_MHC_APD	None	ENSG00000258374	ENST00000548996	pseudogene	NOVEL	None	None	None	None	30332249	30332336	-1	None	None
17	C17orf102	ENSG00000197322	ENST00000357754	protein_coding	KNOWN	CCDS42297	34412	504	167	32901142	32906388	-1	None	FLJ44815
HSCHR6_MHC_APD	HCG19P	ENSG00000229149	ENST00000423190	processed_pseudogene	KNOWN	None	31336	None	None	30335294	30335927	-1	None	AB014085.4
3	TMIE	ENSG00000181585	ENST00000326431	protein_coding	KNOWN	CCDS43081	30800	471	156	46742823	46752376	1	DFNB6	None
HSCHR6_MHC_APD	UBQLN1P1	ENSG00000223560	ENST00000417446	processed_pseudogene	KNOWN	None	21633	None	None	30339126	30340294	-1	UBQLN1P	None
11	TRIM5	ENSG00000132256	ENST00000380034	protein_coding	KNOWN	CCDS31393	16276	1482	493	5684787	5706293	-1	None	RNF88, TRIM5alpha
11	TRIM5	ENSG00000132256	ENST00000380027	protein_coding	KNOWN	CCDS31392	16276	981	326	5684793	5893588	-1	None	RNF88, TRIM5alpha
11	TRIM5	ENSG00000132256	ENST00000433961	nonsense_mediated_decay	KNOWN	None	16276	816	271	5684794	5701462	-1	None	RNF88, TRIM5alpha
11	TRIM5	ENSG00000132256	ENST00000396847	protein_coding	KNOWN	CCDS31394	16276	1044	347	5684847	5706272	-1	None	RNF88, TRIM5alpha
11	TRIM5	ENSG00000132256	ENST00000438025	protein_coding	PUTATIVE	None	16276	563	186	5685061	5701037	-1	None	RNF88, TRIM5alpha
11	TRIM5	ENSG00000132256	ENST00000483835	processed_transcript	KNOWN	None	16276	None	None	5685288	5701087	-1	None	RNF88, TRIM5alpha
11	TRIM5	ENSG00000132256	ENST00000492086	processed_transcript	KNOWN	None	16276	None	None	5686650	5700370	-1	None	RNF88, TRIM5alpha
11	TRIM5	ENSG00000132256	ENST00000465634	processed_transcript	KNOWN	None	16276	None	None	5687110	5701063	-1	None	RNF88, TRIM5alpha
11	TRIM5	ENSG00000132256	ENST00000487241	retained_intron	KNOWN	None	16276	None	None	5699176	5701161	-1	None	RNF88, TRIM5alpha
11	TRIM5	ENSG00000132256	ENST00000412903	protein_coding	KNOWN	None	16276	628	208	5699550	5959849	-1	None	RNF88, TRIM5alpha
11	TRIM5	ENSG00000132256	ENST00000419850	protein_coding	KNOWN	None	16276	216	71	5701192	5706273	-1	None	RNF88, TRIM5alpha
11	TRIM5	ENSG00000132256	ENST00000396855	protein_coding	KNOWN	CCDS31392	16276	981	326	5684425	5706339	-1	None	RNF88, TRIM5alpha
11	TRIM5	ENSG00000132256	ENST00000396853	protein_coding	KNOWN	None	16276	984	327	5685318	5706339	-1	None	RNF88, TRIM5alpha
11	TRIM5	ENSG00000132256	ENST00000305836	protein_coding	KNOWN	None	16276	1482	493	5684425	5706339	-1	None	RNF88, TRIM5alpha
HSCHR6_MHC_APD	None	ENSG00000257249	ENST00000551853	pseudogene	NOVEL	None	None	None	None	30340493	30340616	1	None	None
4	CPLX1	ENSG00000168993	ENST00000304062	protein_coding	KNOWN	CCDS46995	2309	405	134	778745	819986	-1	None	CPX-I
4	CPLX1	ENSG00000168993	ENST00000505203	protein_coding	NOVEL	None	2309	342	113	778746	819880	-1	None	CPX-I
4	CPLX1	ENSG00000168993	ENST00000506404	retained_intron	KNOWN	None	2309	None	None	780178	786480	-1	None	CPX-I
4	CPLX1	ENSG00000168993	ENST00000504062	protein_coding	PUTATIVE	None	2309	330	109	780319	798696	-1	None	CPX-I
6	WISP3	ENSG00000112761	ENST00000368666	protein_coding	KNOWN	CCDS5098	12771	1065	354	112375275	112390889	1	None	CCN6
6	WISP3	ENSG00000112761	ENST00000604763	protein_coding	KNOWN	CCDS5098	12771	1065	354	112375278	112390889	1	None	CCN6
6	WISP3	ENSG00000112761	ENST00000454589	nonsense_mediated_decay	KNOWN	None	12771	660	219	112375278	112390889	1	None	CCN6
6	WISP3	ENSG00000112761	ENST00000483439	processed_transcript	KNOWN	None	12771	None	None	112375387	112376093	1	None	CCN6
6	WISP3	ENSG00000112761	ENST00000368664	nonsense_mediated_decay	KNOWN	None	12771	714	237	112375423	112390861	1	None	CCN6
6	WISP3	ENSG00000112761	ENST00000368663	protein_coding	PUTATIVE	None	12771	996	331	112381216	112390889	1	None	CCN6
6	WISP3	ENSG00000112761	ENST00000409166	protein_coding	PUTATIVE	None	12771	393	130	112382482	112390861	1	None	CCN6
6	WISP3	ENSG00000112761	ENST00000361714	protein_coding	KNOWN	CCDS5097	12771	1119	372	112375462	112392171	1	None	CCN6
6	WISP3	ENSG00000112761	ENST00000230529	protein_coding	KNOWN	CCDS5098	12771	1065	354	112375278	112390883	1	None	CCN6
3	MECOM	ENSG00000085276	ENST00000464456	protein_coding	NOVEL	CCDS54669	3498	3129	1042	168801295	168865522	-1	MDS1, EVI1	MDS1-EVI1, PRDM3
3	MECOM	ENSG00000085276	ENST00000472280	protein_coding	NOVEL	None	3498	3159	1052	168802532	168864093	-1	MDS1, EVI1	MDS1-EVI1, PRDM3
3	MECOM	ENSG00000085276	ENST00000494292	protein_coding	KNOWN	None	3498	3693	1230	168802549	169381258	-1	MDS1, EVI1	MDS1-EVI1, PRDM3
3	MECOM	ENSG00000085276	ENST00000468789	protein_coding	KNOWN	CCDS3205	3498	3156	1051	168802550	168864463	-1	MDS1, EVI1	MDS1-EVI1, PRDM3
3	MECOM	ENSG00000085276	ENST00000460814	protein_coding	PUTATIVE	None	3498	3012	1003	168802618	168851758	-1	MDS1, EVI1	MDS1-EVI1, PRDM3
3	MECOM	ENSG00000085276	ENST00000433243	protein_coding	NOVEL	None	3498	3159	1052	168802662	168864076	-1	MDS1, EVI1	MDS1-EVI1, PRDM3
3	MECOM	ENSG00000085276	ENST00000492586	protein_coding	PUTATIVE	None	3498	965	320	168830576	168845822	-1	MDS1, EVI1	MDS1-EVI1, PRDM3
3	MECOM	ENSG00000085276	ENST00000461430	retained_intron	KNOWN	None	3498	None	None	168838676	168840460	-1	MDS1, EVI1	MDS1-EVI1, PRDM3
3	MECOM	ENSG00000085276	ENST00000484519	protein_coding	PUTATIVE	None	3498	376	124	168840406	168864356	-1	MDS1, EVI1	MDS1-EVI1, PRDM3
3	MECOM	ENSG00000085276	ENST00000460890	protein_coding	KNOWN	None	3498	311	102	168840471	168864076	-1	MDS1, EVI1	MDS1-EVI1, PRDM3
3	MECOM	ENSG00000085276	ENST00000487503	protein_coding	KNOWN	None	3498	311	102	168840471	168864076	-1	MDS1, EVI1	MDS1-EVI1, PRDM3
3	MECOM	ENSG00000085276	ENST00000494597	protein_coding	KNOWN	None	3498	311	102	168840471	168864076	-1	MDS1, EVI1	MDS1-EVI1, PRDM3
3	MECOM	ENSG00000085276	ENST00000475754	protein_coding	KNOWN	None	3498	203	66	168845695	168864327	-1	MDS1, EVI1	MDS1-EVI1, PRDM3
3	MECOM	ENSG00000085276	ENST00000481315	protein_coding	KNOWN	None	3498	86	27	168845812	168987026	-1	MDS1, EVI1	MDS1-EVI1, PRDM3
3	MECOM	ENSG00000085276	ENST00000466623	protein_coding	KNOWN	None	3498	65	20	168845833	168849668	-1	MDS1, EVI1	MDS1-EVI1, PRDM3
3	MECOM	ENSG00000085276	ENST00000485957	processed_transcript	KNOWN	None	3498	None	None	168867270	169381406	-1	MDS1, EVI1	MDS1-EVI1, PRDM3
3	MECOM	ENSG00000085276	ENST00000486748	protein_coding	PUTATIVE	None	3498	375	124	169099047	169381178	-1	MDS1, EVI1	MDS1-EVI1, PRDM3
3	MECOM	ENSG00000085276	ENST00000264674	protein_coding	KNOWN	CCDS54670	3498	3351	1116	168801287	168864093	-1	MDS1, EVI1	MDS1-EVI1, PRDM3
3	MECOM	ENSG00000085276	ENST00000392736	protein_coding	KNOWN	CCDS3205	3498	3156	1051	168801287	168864093	-1	MDS1, EVI1	MDS1-EVI1, PRDM3
HSCHR6_MHC_APD	None	ENSG00000257690	ENST00000548854	pseudogene	NOVEL	None	None	None	None	30344193	30344910	-1	None	None
HSCHR6_MHC_APD	None	ENSG00000258149	ENST00000552095	pseudogene	NOVEL	None	None	None	None	30358535	30358619	-1	None	None
10	None	ENSG00000231131	ENST00000435813	lincRNA	KNOWN	None	None	None	None	54210634	54215032	-1	None	None
10	None	ENSG00000231131	ENST00000422763	lincRNA	KNOWN	None	None	None	None	54211074	54230293	-1	None	None
HSCHR6_MHC_APD	None	ENSG00000257535	ENST00000551410	pseudogene	NOVEL	None	None	None	None	30368502	30368589	1	None	None
17	TMEM132E	ENSG00000181291	ENST00000321639	protein_coding	KNOWN	CCDS11283	26991	2955	984	32907768	32966337	1	None	None
17	TMEM132E	ENSG00000181291	ENST00000577271	retained_intron	KNOWN	None	26991	None	None	32962812	32964525	1	None	None
X	SPANXB1	ENSG00000235604	ENST00000370530	protein_coding	KNOWN	CCDS44006	14329	312	103	140096761	140097876	1	None	CT11.2
21	S100B	ENSG00000160307	ENST00000291700	protein_coding	KNOWN	CCDS13736	10500	279	92	48018875	48025121	-1	None	S100beta
21	S100B	ENSG00000160307	ENST00000367071	protein_coding	PUTATIVE	None	10500	285	94	48018875	48025121	-1	None	S100beta
21	S100B	ENSG00000160307	ENST00000397648	protein_coding	KNOWN	CCDS13736	10500	279	92	48019194	48022806	-1	None	S100beta
4	NPY1R	ENSG00000164128	ENST00000296533	protein_coding	KNOWN	CCDS34089	7956	1155	384	164245113	164254014	-1	NPYR	None
4	NPY1R	ENSG00000164128	ENST00000509586	protein_coding	PUTATIVE	None	7956	426	141	164246126	164253748	-1	NPYR	None
4	NPY1R	ENSG00000164128	ENST00000504391	protein_coding	PUTATIVE	None	7956	193	63	164246688	164253748	-1	NPYR	None
4	NPY1R	ENSG00000164128	ENST00000512819	protein_coding	PUTATIVE	None	7956	298	98	164246778	164253748	-1	NPYR	None
4	NPY1R	ENSG00000164128	ENST00000504790	protein_coding	KNOWN	None	7956	185	60	164247522	164254170	-1	NPYR	None
4	NPY1R	ENSG00000164128	ENST00000515701	protein_coding	KNOWN	None	7956	181	59	164247526	164252318	-1	NPYR	None
4	NPY1R	ENSG00000164128	ENST00000511901	protein_coding	KNOWN	None	7956	74	23	164247633	164265984	-1	NPYR	None
HSCHR6_MHC_APD	None	ENSG00000257901	ENST00000546980	pseudogene	NOVEL	None	None	None	None	30369017	30369104	-1	None	None
HSCHR6_MHC_SSTO	MSH5-SAPCD1	ENSG00000255419	ENST00000495073	nonsense_mediated_decay	KNOWN	None	41994	1491	496	31715897	31722583	1	MSH5-C6orf26	None
HSCHR6_MHC_SSTO	MSH5-SAPCD1	ENSG00000255419	ENST00000480622	nonsense_mediated_decay	KNOWN	None	41994	793	263	31717177	31722583	1	MSH5-C6orf26	None
HSCHR6_MHC_SSTO	MSH5-SAPCD1	ENSG00000255419	ENST00000485553	processed_transcript	KNOWN	None	41994	None	None	31718452	31720876	1	MSH5-C6orf26	None
HSCHR6_MHC_SSTO	MSH5-SAPCD1	ENSG00000255419	ENST00000490634	nonsense_mediated_decay	KNOWN	None	41994	88	28	31720176	31722583	1	MSH5-C6orf26	None
X	PCYT1B	ENSG00000102230	ENST00000379145	protein_coding	KNOWN	CCDS55392	8755	1056	351	24576204	24690794	-1	None	CCT-beta, CTB
X	PCYT1B	ENSG00000102230	ENST00000356768	protein_coding	KNOWN	CCDS55391	8755	993	330	24579959	24665275	-1	None	CCT-beta, CTB
X	PCYT1B	ENSG00000102230	ENST00000379144	protein_coding	KNOWN	CCDS14213	8755	1110	369	24579959	24665353	-1	None	CCT-beta, CTB
X	PCYT1B	ENSG00000102230	ENST00000492876	processed_transcript	KNOWN	None	8755	None	None	24579960	24608293	-1	None	CCT-beta, CTB
X	PCYT1B	ENSG00000102230	ENST00000496020	nonsense_mediated_decay	KNOWN	None	8755	534	177	24580518	24665155	-1	None	CCT-beta, CTB
HSCHR6_MHC_APD	MICC	ENSG00000236727	ENST00000430706	unprocessed_pseudogene	KNOWN	None	7092	None	None	30390730	30395334	1	None	PERB11.3
17	FOXJ1	ENSG00000129654	ENST00000322957	protein_coding	KNOWN	CCDS32739	3816	1266	421	74132414	74137380	-1	FKHL13	HFH-4, HFH4
4	None	ENSG00000184139	ENST00000464513	processed_pseudogene	KNOWN	None	None	None	None	132778498	132779068	-1	None	None
HSCHR6_MHC_DBB	ZDHHC20P1	ENSG00000238053	ENST00000424103	processed_pseudogene	KNOWN	None	33456	None	None	29675843	29676265	-1	None	OTTHUMG00000086707
3	None	ENSG00000272410	ENST00000437082	nonsense_mediated_decay	KNOWN	None	None	1998	665	10291056	10327480	1	None	None
3	None	ENSG00000272410	ENST00000450534	nonsense_mediated_decay	KNOWN	None	None	336	111	10291056	10327480	1	None	None
3	C3orf20	ENSG00000131379	ENST00000253697	protein_coding	KNOWN	CCDS33706	25320	2715	904	14716606	14814541	1	None	DKFZP434N1817
3	C3orf20	ENSG00000131379	ENST00000435614	protein_coding	KNOWN	CCDS54555	25320	2349	782	14716648	14814512	1	None	DKFZP434N1817
3	C3orf20	ENSG00000131379	ENST00000412910	protein_coding	KNOWN	CCDS54555	25320	2349	782	14716686	14814541	1	None	DKFZP434N1817
3	C3orf20	ENSG00000131379	ENST00000495387	processed_transcript	KNOWN	None	25320	None	None	14745862	14763746	1	None	DKFZP434N1817
HSCHR6_MHC_DBB	HCG4P11	ENSG00000233617	ENST00000446955	unprocessed_pseudogene	KNOWN	None	22930	None	None	29688243	29689233	-1	None	HCGIV-11, HCGIV.10
3	ACAA1	ENSG00000060971	ENST00000451419	processed_transcript	KNOWN	None	82	None	None	38144620	38164574	-1	None	None
3	ACAA1	ENSG00000060971	ENST00000333167	protein_coding	KNOWN	CCDS2673	82	1275	424	38164201	38178699	-1	None	None
3	ACAA1	ENSG00000060971	ENST00000301810	protein_coding	NOVEL	CCDS46794	82	996	331	38164201	38178733	-1	None	None
3	ACAA1	ENSG00000060971	ENST00000411549	nonsense_mediated_decay	KNOWN	None	82	462	153	38164201	38178733	-1	None	None
3	ACAA1	ENSG00000060971	ENST00000469559	retained_intron	KNOWN	None	82	None	None	38164207	38174043	-1	None	None
3	ACAA1	ENSG00000060971	ENST00000480865	processed_transcript	KNOWN	None	82	None	None	38164210	38175073	-1	None	None
3	ACAA1	ENSG00000060971	ENST00000450296	protein_coding	NOVEL	None	82	1152	383	38164210	38178616	-1	None	None
3	ACAA1	ENSG00000060971	ENST00000452171	protein_coding	NOVEL	None	82	713	236	38164324	38173437	-1	None	None
3	ACAA1	ENSG00000060971	ENST00000469600	retained_intron	KNOWN	None	82	None	None	38164401	38167833	-1	None	None
3	ACAA1	ENSG00000060971	ENST00000421218	protein_coding	NOVEL	None	82	869	288	38167055	38178115	-1	None	None
3	ACAA1	ENSG00000060971	ENST00000440176	nonsense_mediated_decay	KNOWN	None	82	366	121	38167552	38178587	-1	None	None
3	ACAA1	ENSG00000060971	ENST00000423611	nonsense_mediated_decay	KNOWN	None	82	342	113	38167942	38178628	-1	None	None
3	ACAA1	ENSG00000060971	ENST00000447223	nonsense_mediated_decay	KNOWN	None	82	366	121	38167984	38178563	-1	None	None
3	ACAA1	ENSG00000060971	ENST00000418880	nonsense_mediated_decay	KNOWN	None	82	342	113	38169122	38178583	-1	None	None
3	ACAA1	ENSG00000060971	ENST00000465181	retained_intron	KNOWN	None	82	None	None	38170820	38175958	-1	None	None
3	ACAA1	ENSG00000060971	ENST00000484284	retained_intron	KNOWN	None	82	None	None	38175271	38178611	-1	None	None
3	ACAA1	ENSG00000060971	ENST00000460424	retained_intron	KNOWN	None	82	None	None	38175364	38178618	-1	None	None
3	ACAA1	ENSG00000060971	ENST00000489559	retained_intron	KNOWN	None	82	None	None	38175887	38178572	-1	None	None
3	ACAA1	ENSG00000060971	ENST00000544624	protein_coding	KNOWN	None	82	381	126	38167552	38178527	-1	None	None
3	ACAA1	ENSG00000060971	ENST00000444607	protein_coding	KNOWN	None	82	462	153	38167823	38178583	-1	None	None
HSCHR6_MHC_APD	None	ENSG00000257651	ENST00000547251	pseudogene	NOVEL	None	None	None	None	30403283	30403496	1	None	None
9	RNF208	ENSG00000212864	ENST00000392827	protein_coding	KNOWN	CCDS7037	25420	786	261	140114707	140116033	-1	None	DKFZP761H1710
9	RNF208	ENSG00000212864	ENST00000391553	protein_coding	KNOWN	CCDS7037	25420	786	261	140114707	140115775	-1	None	DKFZP761H1710
HSCHR6_MHC_APD	None	ENSG00000258070	ENST00000548189	pseudogene	NOVEL	None	None	None	None	30432997	30433120	1	None	None
7	CREB5	ENSG00000146592	ENST00000396299	protein_coding	KNOWN	CCDS43562	16844	1428	475	28338940	28859617	1	None	H_GS165L15.1, CRE-BPA
7	CREB5	ENSG00000146592	ENST00000469531	processed_transcript	KNOWN	None	16844	None	None	28448954	28553456	1	None	H_GS165L15.1, CRE-BPA
7	CREB5	ENSG00000146592	ENST00000478078	retained_intron	KNOWN	None	16844	None	None	28448986	28450060	1	None	H_GS165L15.1, CRE-BPA
7	CREB5	ENSG00000146592	ENST00000482692	processed_transcript	PUTATIVE	None	16844	None	None	28448995	28450372	1	None	H_GS165L15.1, CRE-BPA
7	CREB5	ENSG00000146592	ENST00000424599	protein_coding	KNOWN	None	16844	345	114	28449006	28610057	1	None	H_GS165L15.1, CRE-BPA
7	CREB5	ENSG00000146592	ENST00000357727	protein_coding	KNOWN	CCDS5417	16844	1527	508	28452144	28865511	1	None	H_GS165L15.1, CRE-BPA
7	CREB5	ENSG00000146592	ENST00000396300	protein_coding	KNOWN	CCDS5418	16844	1506	501	28475234	28859617	1	None	H_GS165L15.1, CRE-BPA
7	CREB5	ENSG00000146592	ENST00000409603	protein_coding	KNOWN	CCDS43562	16844	1428	475	28530748	28859254	1	None	H_GS165L15.1, CRE-BPA
7	CREB5	ENSG00000146592	ENST00000461921	processed_transcript	KNOWN	None	16844	None	None	28610056	28789162	1	None	H_GS165L15.1, CRE-BPA
7	CREB5	ENSG00000146592	ENST00000426500	protein_coding	PUTATIVE	None	16844	635	210	28648678	28848934	1	None	H_GS165L15.1, CRE-BPA
7	CREB5	ENSG00000146592	ENST00000396298	protein_coding	KNOWN	CCDS43563	16844	1110	369	28725598	28859617	1	None	H_GS165L15.1, CRE-BPA
7	CREB5	ENSG00000146592	ENST00000468391	retained_intron	KNOWN	None	16844	None	None	28725754	28764293	1	None	H_GS165L15.1, CRE-BPA
7	CREB5	ENSG00000146592	ENST00000484383	processed_transcript	KNOWN	None	16844	None	None	28725754	28818845	1	None	H_GS165L15.1, CRE-BPA
7	CREB5	ENSG00000146592	ENST00000468813	processed_transcript	PUTATIVE	None	16844	None	None	28763917	28766348	1	None	H_GS165L15.1, CRE-BPA
7	CREB5	ENSG00000146592	ENST00000498316	protein_coding	PUTATIVE	None	16844	120	39	28849026	28859176	1	None	H_GS165L15.1, CRE-BPA
HSCHR6_MHC_APD	None	ENSG00000257686	ENST00000552617	pseudogene	NOVEL	None	None	None	None	30485727	30485799	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000230017	ENST00000422960	processed_transcript	KNOWN	None	None	None	None	29691865	29714307	-1	None	None
HSCHR6_MHC_DBB	None	ENSG00000230017	ENST00000442989	processed_transcript	KNOWN	None	None	None	None	29700297	29714251	-1	None	None
HSCHR6_MHC_DBB	None	ENSG00000230017	ENST00000434173	processed_transcript	KNOWN	None	None	None	None	29703020	29703705	-1	None	None
HSCHR6_MHC_APD	None	ENSG00000257659	ENST00000546372	pseudogene	NOVEL	None	None	None	None	30487452	30487536	-1	None	None
1	SNRNP40	ENSG00000060688	ENST00000263694	protein_coding	KNOWN	CCDS340	30857	1074	357	31732417	31769617	-1	WDR57	PRP8BP, SPF38, PRPF8BP, HPRP8BP
1	SNRNP40	ENSG00000060688	ENST00000486941	processed_transcript	KNOWN	None	30857	None	None	31732520	31734669	-1	WDR57	PRP8BP, SPF38, PRPF8BP, HPRP8BP
1	SNRNP40	ENSG00000060688	ENST00000489853	processed_transcript	KNOWN	None	30857	None	None	31732521	31755330	-1	WDR57	PRP8BP, SPF38, PRPF8BP, HPRP8BP
1	SNRNP40	ENSG00000060688	ENST00000373720	protein_coding	KNOWN	None	30857	384	127	31732557	31742513	-1	WDR57	PRP8BP, SPF38, PRPF8BP, HPRP8BP
1	SNRNP40	ENSG00000060688	ENST00000491106	processed_transcript	KNOWN	None	30857	None	None	31732633	31733924	-1	WDR57	PRP8BP, SPF38, PRPF8BP, HPRP8BP
1	SNRNP40	ENSG00000060688	ENST00000474025	processed_transcript	KNOWN	None	30857	None	None	31744055	31762266	-1	WDR57	PRP8BP, SPF38, PRPF8BP, HPRP8BP
1	SNRNP40	ENSG00000060688	ENST00000463988	processed_transcript	KNOWN	None	30857	None	None	31765691	31769629	-1	WDR57	PRP8BP, SPF38, PRPF8BP, HPRP8BP
1	SNRNP40	ENSG00000060688	ENST00000446633	protein_coding	KNOWN	None	30857	1230	409	31732796	31769662	-1	WDR57	PRP8BP, SPF38, PRPF8BP, HPRP8BP
HSCHR6_MHC_APD	None	ENSG00000258025	ENST00000548502	pseudogene	NOVEL	None	None	None	None	30488552	30488639	-1	None	None
10	KAT6B	ENSG00000156650	ENST00000372725	protein_coding	NOVEL	CCDS58084	17582	5346	1781	76585340	76792051	1	MYST4	querkopf, qkf, Morf, MOZ2, ZC2HC6B
10	KAT6B	ENSG00000156650	ENST00000372724	protein_coding	KNOWN	CCDS58084	17582	5346	1781	76586358	76792050	1	MYST4	querkopf, qkf, Morf, MOZ2, ZC2HC6B
10	KAT6B	ENSG00000156650	ENST00000287239	protein_coding	KNOWN	CCDS7345	17582	6222	2073	76586383	76792380	1	MYST4	querkopf, qkf, Morf, MOZ2, ZC2HC6B
10	KAT6B	ENSG00000156650	ENST00000372714	protein_coding	NOVEL	CCDS58084	17582	5346	1781	76586400	76790948	1	MYST4	querkopf, qkf, Morf, MOZ2, ZC2HC6B
10	KAT6B	ENSG00000156650	ENST00000604130	processed_transcript	KNOWN	None	17582	None	None	76586895	76602682	1	MYST4	querkopf, qkf, Morf, MOZ2, ZC2HC6B
10	KAT6B	ENSG00000156650	ENST00000372711	protein_coding	NOVEL	CCDS58085	17582	5673	1890	76598458	76792380	1	MYST4	querkopf, qkf, Morf, MOZ2, ZC2HC6B
10	KAT6B	ENSG00000156650	ENST00000490365	processed_transcript	KNOWN	None	17582	None	None	76736279	76785922	1	MYST4	querkopf, qkf, Morf, MOZ2, ZC2HC6B
HSCHR6_MHC_APD	None	ENSG00000225382	ENST00000417317	processed_transcript	PUTATIVE	None	None	None	None	30492289	30495243	1	None	None
HSCHR6_MHC_DBB	NELFE	ENSG00000206268	ENST00000383174	protein_coding	KNOWN	None	13974	1143	380	31902055	31909055	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_DBB	NELFE	ENSG00000206268	ENST00000472314	retained_intron	KNOWN	None	13974	None	None	31902196	31908882	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_DBB	NELFE	ENSG00000206268	ENST00000485872	retained_intron	KNOWN	None	13974	None	None	31902196	31908907	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_DBB	NELFE	ENSG00000206268	ENST00000440478	protein_coding	KNOWN	None	13974	1001	332	31903726	31908920	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_DBB	NELFE	ENSG00000206268	ENST00000411745	protein_coding	KNOWN	None	13974	881	292	31904272	31908442	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_DBB	NELFE	ENSG00000206268	ENST00000456281	protein_coding	KNOWN	None	13974	722	239	31904528	31908534	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_DBB	NELFE	ENSG00000206268	ENST00000471024	retained_intron	KNOWN	None	13974	None	None	31904718	31909001	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_DBB	NELFE	ENSG00000206268	ENST00000463036	processed_transcript	KNOWN	None	13974	None	None	31904741	31908931	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_DBB	NELFE	ENSG00000206268	ENST00000458622	protein_coding	KNOWN	None	13974	477	158	31904788	31908822	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_DBB	NELFE	ENSG00000206268	ENST00000482909	retained_intron	KNOWN	None	13974	None	None	31905033	31908928	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_DBB	NELFE	ENSG00000206268	ENST00000467338	processed_transcript	KNOWN	None	13974	None	None	31905187	31908917	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_APD	None	ENSG00000257416	ENST00000548008	pseudogene	NOVEL	None	None	None	None	30506512	30507598	1	None	None
6	RNF5	ENSG00000204308	ENST00000375094	protein_coding	KNOWN	CCDS4745	10068	543	180	32146131	32148570	1	None	NG2, G16, RING5, RMA1
6	RNF5	ENSG00000204308	ENST00000487940	processed_transcript	KNOWN	None	10068	None	None	32146214	32147550	1	None	NG2, G16, RING5, RMA1
6	RNF5	ENSG00000204308	ENST00000427134	protein_coding	KNOWN	None	10068	549	182	32146274	32151930	1	None	NG2, G16, RING5, RMA1
5	SLC36A1	ENSG00000123643	ENST00000520111	protein_coding	NOVEL	None	18761	299	98	150816607	150844139	1	None	LYAAT-1, PAT1, TRAMD3
5	SLC36A1	ENSG00000123643	ENST00000520701	protein_coding	KNOWN	CCDS4316	18761	1431	476	150816608	150868251	1	None	LYAAT-1, PAT1, TRAMD3
5	SLC36A1	ENSG00000123643	ENST00000429484	protein_coding	PUTATIVE	None	18761	732	243	150816647	150850520	1	None	LYAAT-1, PAT1, TRAMD3
5	SLC36A1	ENSG00000123643	ENST00000243389	protein_coding	KNOWN	CCDS4316	18761	1431	476	150827157	150871942	1	None	LYAAT-1, PAT1, TRAMD3
5	SLC36A1	ENSG00000123643	ENST00000517945	protein_coding	KNOWN	None	18761	211	69	150827188	150843181	1	None	LYAAT-1, PAT1, TRAMD3
5	SLC36A1	ENSG00000123643	ENST00000521925	protein_coding	PUTATIVE	None	18761	1167	388	150827188	150859320	1	None	LYAAT-1, PAT1, TRAMD3
5	SLC36A1	ENSG00000123643	ENST00000521351	processed_transcript	KNOWN	None	18761	None	None	150827362	150844710	1	None	LYAAT-1, PAT1, TRAMD3
5	SLC36A1	ENSG00000123643	ENST00000519829	protein_coding	KNOWN	None	18761	215	70	150829575	150843185	1	None	LYAAT-1, PAT1, TRAMD3
5	SLC36A1	ENSG00000123643	ENST00000517628	protein_coding	PUTATIVE	None	18761	438	145	150853234	150859705	1	None	LYAAT-1, PAT1, TRAMD3
5	SLC36A1	ENSG00000123643	ENST00000522185	nonsense_mediated_decay	KNOWN	None	18761	268	88	150856150	150867830	1	None	LYAAT-1, PAT1, TRAMD3
HSCHR6_MHC_APD	None	ENSG00000258243	ENST00000552088	pseudogene	NOVEL	None	None	None	None	30508918	30509042	1	None	None
HSCHR6_MHC_SSTO	SAPCD1	ENSG00000237918	ENST00000449925	protein_coding	KNOWN	None	13938	444	147	31720531	31722583	1	C6orf26	NG23
HSCHR6_MHC_SSTO	SAPCD1	ENSG00000237918	ENST00000449857	protein_coding	KNOWN	None	13938	537	178	31720728	31722583	1	C6orf26	NG23
HSCHR6_MHC_SSTO	SAPCD1	ENSG00000237918	ENST00000489292	retained_intron	KNOWN	None	13938	None	None	31721352	31722018	1	C6orf26	NG23
HSCHR6_MHC_SSTO	SAPCD1	ENSG00000237918	ENST00000548003	protein_coding	KNOWN	None	13938	447	148	31720728	31722577	1	C6orf26	NG23
9	OR13J1	ENSG00000168828	ENST00000377981	protein_coding	KNOWN	CCDS35011	15108	939	312	35869375	35870461	-1	None	None
HSCHR6_MHC_APD	None	ENSG00000257945	ENST00000549170	pseudogene	NOVEL	None	None	None	None	30514699	30514919	1	None	None
1	KCNC4	ENSG00000116396	ENST00000489935	retained_intron	KNOWN	None	6236	None	None	110753965	110766705	1	C1orf30	Kv3.4, HKSHIIIC
1	KCNC4	ENSG00000116396	ENST00000469655	nonsense_mediated_decay	KNOWN	CCDS821	6236	1908	635	110753965	110776666	1	C1orf30	Kv3.4, HKSHIIIC
1	KCNC4	ENSG00000116396	ENST00000369787	protein_coding	KNOWN	CCDS821	6236	1908	635	110754095	110776666	1	C1orf30	Kv3.4, HKSHIIIC
1	KCNC4	ENSG00000116396	ENST00000413138	protein_coding	NOVEL	None	6236	1875	624	110754114	110776661	1	C1orf30	Kv3.4, HKSHIIIC
1	KCNC4	ENSG00000116396	ENST00000438661	protein_coding	KNOWN	CCDS44193	6236	1881	626	110754122	110776666	1	C1orf30	Kv3.4, HKSHIIIC
1	KCNC4	ENSG00000116396	ENST00000412512	processed_transcript	PUTATIVE	None	6236	None	None	110754770	110825722	1	C1orf30	Kv3.4, HKSHIIIC
1	KCNC4	ENSG00000116396	ENST00000459877	retained_intron	KNOWN	None	6236	None	None	110762338	110776666	1	C1orf30	Kv3.4, HKSHIIIC
1	RGL1	ENSG00000143344	ENST00000367531	protein_coding	KNOWN	CCDS1359	30281	2412	803	183605220	183897665	1	None	RGL
1	RGL1	ENSG00000143344	ENST00000360851	protein_coding	KNOWN	None	30281	2307	768	183774254	183897665	1	None	RGL
1	RGL1	ENSG00000143344	ENST00000304685	protein_coding	KNOWN	CCDS1359	30281	2412	803	183605208	183897666	1	None	RGL
1	RGL1	ENSG00000143344	ENST00000536277	protein_coding	KNOWN	None	30281	2301	766	183605244	183895793	1	None	RGL
1	RGL1	ENSG00000143344	ENST00000539189	protein_coding	KNOWN	None	30281	2220	739	183774290	183895752	1	None	RGL
7	PMS2P9	ENSG00000233448	ENST00000441237	transcribed_unprocessed_pseudogene	KNOWN	None	9135	None	None	76669261	76673093	1	PMS2LP1, PMS2L17	PMSR5
7	None	ENSG00000201959	ENST00000365089	misc_RNA	NOVEL	None	None	None	None	76670964	76671065	1	None	None
7	None	ENSG00000259628	ENST00000459742	processed_transcript	PUTATIVE	None	None	None	None	76673038	76827943	1	None	None
11	WNT11	ENSG00000085741	ENST00000322563	protein_coding	KNOWN	CCDS8242	12776	1065	354	75897369	75917576	-1	None	None
11	WNT11	ENSG00000085741	ENST00000529461	protein_coding	KNOWN	None	12776	16	4	75917436	75921780	-1	None	None
11	WNT11	ENSG00000085741	ENST00000532150	processed_transcript	PUTATIVE	None	12776	None	None	75917466	75921774	-1	None	None
13	SLC46A3	ENSG00000139508	ENST00000475385	processed_transcript	KNOWN	None	27501	None	None	29274201	29278694	-1	None	DKFZp686A1775, FLJ42613
13	SLC46A3	ENSG00000139508	ENST00000266943	protein_coding	KNOWN	CCDS9332	27501	1386	461	29274212	29292978	-1	None	DKFZp686A1775, FLJ42613
13	SLC46A3	ENSG00000139508	ENST00000380814	protein_coding	NOVEL	CCDS45021	27501	1392	463	29274854	29293107	-1	None	DKFZp686A1775, FLJ42613
9	HRCT1	ENSG00000196196	ENST00000354323	protein_coding	KNOWN	CCDS35012	33872	348	115	35906189	35907138	1	None	LGLL338, PRO537, UNQ338
7	None	ENSG00000205482	ENST00000510091	unprocessed_pseudogene	KNOWN	None	None	None	None	76682102	76688757	-1	None	None
7	None	ENSG00000205482	ENST00000445314	unprocessed_pseudogene	KNOWN	None	None	None	None	76682095	76688755	-1	None	None
4	FAM184B	ENSG00000047662	ENST00000265018	protein_coding	KNOWN	CCDS47033	29235	3183	1060	17630929	17783135	-1	None	KIAA1276
9	None	ENSG00000237529	ENST00000458111	antisense	KNOWN	None	None	None	None	85891291	85894414	1	None	None
9	None	ENSG00000238608	ENST00000459355	snoRNA	NOVEL	None	None	None	None	86067188	86067290	1	None	None
X	TMEM187	ENSG00000177854	ENST00000369982	protein_coding	KNOWN	CCDS14739	13705	786	261	153237778	153248646	1	CXorf12	ITBA1, DXS9878E
X	TMEM187	ENSG00000177854	ENST00000425274	protein_coding	KNOWN	None	13705	198	65	153238309	153247711	1	CXorf12	ITBA1, DXS9878E
X	TMEM187	ENSG00000177854	ENST00000431598	protein_coding	KNOWN	None	13705	99	32	153246057	153247612	1	CXorf12	ITBA1, DXS9878E
16	CES2	ENSG00000172831	ENST00000417689	protein_coding	KNOWN	CCDS45507	1864	1824	607	66968347	66978972	1	None	CE-2, iCE, CES2A1
16	CES2	ENSG00000172831	ENST00000561697	protein_coding	PUTATIVE	None	1864	376	124	66968359	66974437	1	None	CE-2, iCE, CES2A1
16	CES2	ENSG00000172831	ENST00000317091	protein_coding	KNOWN	CCDS10825	1864	1872	623	66968363	66978999	1	None	CE-2, iCE, CES2A1
16	CES2	ENSG00000172831	ENST00000568470	nonsense_mediated_decay	KNOWN	None	1864	369	122	66968374	66978209	1	None	CE-2, iCE, CES2A1
16	CES2	ENSG00000172831	ENST00000566182	protein_coding	KNOWN	None	1864	65	20	66968378	66969411	1	None	CE-2, iCE, CES2A1
16	CES2	ENSG00000172831	ENST00000570032	nonsense_mediated_decay	KNOWN	None	1864	369	122	66969238	66972137	1	None	CE-2, iCE, CES2A1
16	CES2	ENSG00000172831	ENST00000566359	retained_intron	KNOWN	None	1864	None	None	66969467	66972291	1	None	CE-2, iCE, CES2A1
16	CES2	ENSG00000172831	ENST00000561843	retained_intron	KNOWN	None	1864	None	None	66974495	66975659	1	None	CE-2, iCE, CES2A1
16	CES2	ENSG00000172831	ENST00000564420	protein_coding	PUTATIVE	None	1864	605	200	66975055	66977535	1	None	CE-2, iCE, CES2A1
16	CES2	ENSG00000172831	ENST00000567128	retained_intron	KNOWN	None	1864	None	None	66975789	66976626	1	None	CE-2, iCE, CES2A1
16	CES2	ENSG00000172831	ENST00000568347	retained_intron	KNOWN	None	1864	None	None	66975890	66977282	1	None	CE-2, iCE, CES2A1
16	CES2	ENSG00000172831	ENST00000563988	retained_intron	KNOWN	None	1864	None	None	66976475	66977873	1	None	CE-2, iCE, CES2A1
3	CD86	ENSG00000114013	ENST00000469710	protein_coding	PUTATIVE	CCDS56273	1705	744	247	121774213	121838921	1	CD28LG2	B7.2, B7-2
3	CD86	ENSG00000114013	ENST00000493101	protein_coding	NOVEL	CCDS56272	1705	654	217	121774213	121839175	1	CD28LG2	B7.2, B7-2
3	CD86	ENSG00000114013	ENST00000330540	protein_coding	KNOWN	CCDS3009	1705	990	329	121774221	121839983	1	CD28LG2	B7.2, B7-2
3	CD86	ENSG00000114013	ENST00000478390	retained_intron	KNOWN	None	1705	None	None	121774224	121811009	1	CD28LG2	B7.2, B7-2
3	CD86	ENSG00000114013	ENST00000483949	processed_transcript	KNOWN	None	1705	None	None	121796691	121822504	1	CD28LG2	B7.2, B7-2
3	CD86	ENSG00000114013	ENST00000482356	protein_coding	KNOWN	None	1705	503	166	121796704	121825165	1	CD28LG2	B7.2, B7-2
3	CD86	ENSG00000114013	ENST00000393627	protein_coding	KNOWN	CCDS43138	1705	972	323	121796750	121838667	1	CD28LG2	B7.2, B7-2
3	CD86	ENSG00000114013	ENST00000478741	protein_coding	NOVEL	None	1705	832	276	121810448	121838440	1	CD28LG2	B7.2, B7-2
3	CD86	ENSG00000114013	ENST00000264468	protein_coding	KNOWN	None	1705	351	116	121774221	121839982	1	CD28LG2	B7.2, B7-2
10	PDCD11	ENSG00000148843	ENST00000369797	protein_coding	KNOWN	CCDS31276	13408	5616	1871	105156405	105206049	1	None	KIAA0185, ALG-4, RRP5
10	PDCD11	ENSG00000148843	ENST00000493610	nonsense_mediated_decay	KNOWN	None	13408	117	38	105156407	105164832	1	None	KIAA0185, ALG-4, RRP5
10	PDCD11	ENSG00000148843	ENST00000471061	retained_intron	KNOWN	None	13408	None	None	105162984	105165129	1	None	KIAA0185, ALG-4, RRP5
10	PDCD11	ENSG00000148843	ENST00000490787	processed_transcript	KNOWN	None	13408	None	None	105184741	105184841	1	None	KIAA0185, ALG-4, RRP5
10	PDCD11	ENSG00000148843	ENST00000466959	retained_intron	KNOWN	None	13408	None	None	105193750	105194459	1	None	KIAA0185, ALG-4, RRP5
10	PDCD11	ENSG00000148843	ENST00000478543	retained_intron	KNOWN	None	13408	None	None	105204070	105205481	1	None	KIAA0185, ALG-4, RRP5
20	None	ENSG00000230839	ENST00000447206	lincRNA	KNOWN	None	None	None	None	1784662	1798252	-1	None	None
20	None	ENSG00000233896	ENST00000446562	processed_transcript	KNOWN	None	None	None	None	1927892	1988163	1	None	None
19	GTF2F1	ENSG00000125651	ENST00000394456	protein_coding	KNOWN	CCDS12165	4652	1554	517	6379580	6393471	-1	None	TFIIF, BTF4, RAP74, TF2F1
19	GTF2F1	ENSG00000125651	ENST00000593678	protein_coding	NOVEL	None	4652	1302	433	6379889	6391963	-1	None	TFIIF, BTF4, RAP74, TF2F1
19	GTF2F1	ENSG00000125651	ENST00000594213	retained_intron	KNOWN	None	4652	None	None	6380201	6381831	-1	None	TFIIF, BTF4, RAP74, TF2F1
19	GTF2F1	ENSG00000125651	ENST00000594965	retained_intron	KNOWN	None	4652	None	None	6380402	6381786	-1	None	TFIIF, BTF4, RAP74, TF2F1
19	GTF2F1	ENSG00000125651	ENST00000595047	protein_coding	PUTATIVE	None	4652	1144	380	6381424	6393216	-1	None	TFIIF, BTF4, RAP74, TF2F1
19	GTF2F1	ENSG00000125651	ENST00000598607	protein_coding	KNOWN	None	4652	381	126	6387516	6393992	-1	None	TFIIF, BTF4, RAP74, TF2F1
19	GTF2F1	ENSG00000125651	ENST00000429701	protein_coding	KNOWN	None	4652	1299	432	6379889	6391963	-1	None	TFIIF, BTF4, RAP74, TF2F1
X	NDUFB11	ENSG00000147123	ENST00000377811	protein_coding	KNOWN	CCDS48100	20372	462	153	47001615	47004903	-1	None	ESSS, NP17.3, Np15
X	NDUFB11	ENSG00000147123	ENST00000276062	protein_coding	KNOWN	CCDS14273	20372	492	163	47001619	47004437	-1	None	ESSS, NP17.3, Np15
10	LYZL2	ENSG00000151033	ENST00000375318	protein_coding	KNOWN	CCDS7167	29613	585	194	30900718	30918691	-1	None	None
12	C12orf5	ENSG00000078237	ENST00000179259	protein_coding	KNOWN	CCDS8525	1185	813	270	4430371	4462338	1	None	TIGAR
12	C12orf5	ENSG00000078237	ENST00000539671	processed_transcript	PUTATIVE	None	1185	None	None	4433809	4440484	1	None	TIGAR
12	C12orf5	ENSG00000078237	ENST00000537251	processed_transcript	KNOWN	None	1185	None	None	4444699	4461522	1	None	TIGAR
11	ADAMTS8	ENSG00000134917	ENST00000531752	retained_intron	KNOWN	None	224	None	None	130274820	130282008	-1	None	METH2, FLJ41712, ADAM-TS8
11	ADAMTS8	ENSG00000134917	ENST00000257359	protein_coding	KNOWN	CCDS41732	224	2670	889	130274820	130298888	-1	None	METH2, FLJ41712, ADAM-TS8
3	TWF2	ENSG00000247596	ENST00000305533	protein_coding	KNOWN	CCDS2849	9621	1050	349	52262626	52273276	-1	PTK9L	A6RP, A6r
3	TWF2	ENSG00000247596	ENST00000499914	protein_coding	PUTATIVE	None	9621	765	254	52262664	52273158	-1	PTK9L	A6RP, A6r
3	TWF2	ENSG00000247596	ENST00000472755	retained_intron	KNOWN	None	9621	None	None	52264914	52266244	-1	PTK9L	A6RP, A6r
17	RNF157	ENSG00000141576	ENST00000269391	protein_coding	KNOWN	CCDS32740	29402	2040	679	74138534	74236454	-1	None	KIAA1917
17	RNF157	ENSG00000141576	ENST00000589912	processed_transcript	KNOWN	None	29402	None	None	74138714	74140815	-1	None	KIAA1917
17	RNF157	ENSG00000141576	ENST00000319945	protein_coding	KNOWN	None	29402	1974	657	74140421	74236389	-1	None	KIAA1917
17	RNF157	ENSG00000141576	ENST00000589317	retained_intron	KNOWN	None	29402	None	None	74141096	74148664	-1	None	KIAA1917
17	RNF157	ENSG00000141576	ENST00000591355	protein_coding	PUTATIVE	None	29402	484	160	74141360	74152337	-1	None	KIAA1917
17	RNF157	ENSG00000141576	ENST00000592869	retained_intron	KNOWN	None	29402	None	None	74150383	74154604	-1	None	KIAA1917
17	RNF157	ENSG00000141576	ENST00000593155	retained_intron	KNOWN	None	29402	None	None	74157643	74158226	-1	None	KIAA1917
17	RNF157	ENSG00000141576	ENST00000591615	protein_coding	PUTATIVE	None	29402	245	80	74158842	74163163	-1	None	KIAA1917
17	RNF157	ENSG00000141576	ENST00000592271	protein_coding	PUTATIVE	None	29402	219	72	74207958	74236382	-1	None	KIAA1917
X	LDOC1	ENSG00000182195	ENST00000460721	processed_transcript	KNOWN	None	6548	None	None	140269934	140271201	-1	BCUR1	Mar7, Mart7
X	LDOC1	ENSG00000182195	ENST00000370526	protein_coding	KNOWN	CCDS14672	6548	441	146	140269941	140271310	-1	BCUR1	Mar7, Mart7
11	SAA2	ENSG00000134339	ENST00000414546	protein_coding	KNOWN	CCDS44548	10514	252	83	18260770	18270190	-1	None	None
11	SAA2	ENSG00000134339	ENST00000530400	protein_coding	PUTATIVE	None	10514	243	80	18261750	18269566	-1	None	None
11	SAA2	ENSG00000134339	ENST00000528349	protein_coding	PUTATIVE	None	10514	342	113	18263686	18270182	-1	None	None
11	SAA2	ENSG00000134339	ENST00000256733	protein_coding	KNOWN	CCDS7833	10514	369	122	18266775	18270190	-1	None	None
11	SAA2	ENSG00000134339	ENST00000529528	protein_coding	KNOWN	CCDS7833	10514	369	122	18266785	18270186	-1	None	None
11	SAA2	ENSG00000134339	ENST00000526900	protein_coding	KNOWN	CCDS7833	10514	369	122	18266790	18270182	-1	None	None
13	NUFIP1	ENSG00000083635	ENST00000379161	protein_coding	KNOWN	CCDS9393	8057	1488	495	45513384	45563618	-1	None	NUFIP
HSCHR6_MHC_DBB	RPL23AP1	ENSG00000240845	ENST00000430582	processed_pseudogene	KNOWN	None	10318	None	None	29691933	29692403	-1	None	None
19	ZNF649	ENSG00000198093	ENST00000354957	protein_coding	KNOWN	CCDS12843	25741	1518	505	52392477	52408264	-1	None	FLJ12644
19	ZNF649	ENSG00000198093	ENST00000600738	protein_coding	PUTATIVE	None	25741	1434	477	52393307	52408264	-1	None	FLJ12644
19	ZNF649	ENSG00000198093	ENST00000599671	retained_intron	KNOWN	None	25741	None	None	52399363	52400472	-1	None	FLJ12644
19	ZNF649	ENSG00000198093	ENST00000597882	retained_intron	KNOWN	None	25741	None	None	52399977	52408270	-1	None	FLJ12644
19	ZNF649	ENSG00000198093	ENST00000595418	protein_coding	KNOWN	None	25741	142	46	52400105	52408270	-1	None	FLJ12644
19	ZNF649	ENSG00000198093	ENST00000599530	protein_coding	PUTATIVE	None	25741	130	42	52400105	52408272	-1	None	FLJ12644
19	ZNF649	ENSG00000198093	ENST00000596690	protein_coding	PUTATIVE	None	25741	123	40	52400112	52408293	-1	None	FLJ12644
4	None	ENSG00000251433	ENST00000513311	processed_pseudogene	KNOWN	None	None	None	None	182826943	182827620	-1	None	None
4	None	ENSG00000248266	ENST00000505389	sense_intronic	KNOWN	None	None	None	None	183066005	183111535	1	None	None
HSCHR6_MHC_DBB	HLA-F-AS1	ENSG00000248230	ENST00000505039	unprocessed_pseudogene	KNOWN	None	26645	None	None	29706991	29714227	-1	None	None
20	NOP56	ENSG00000101361	ENST00000329276	protein_coding	KNOWN	CCDS13030	15911	1785	594	2632791	2639039	1	NOL5A	SCA36
20	NOP56	ENSG00000101361	ENST00000494697	processed_transcript	KNOWN	None	15911	None	None	2633278	2636158	1	NOL5A	SCA36
20	NOP56	ENSG00000101361	ENST00000470143	processed_transcript	KNOWN	None	15911	None	None	2633279	2634466	1	NOL5A	SCA36
20	NOP56	ENSG00000101361	ENST00000469588	processed_transcript	KNOWN	None	15911	None	None	2633292	2636158	1	NOL5A	SCA36
20	NOP56	ENSG00000101361	ENST00000445139	protein_coding	KNOWN	None	15911	844	280	2633295	2636158	1	NOL5A	SCA36
20	NOP56	ENSG00000101361	ENST00000460258	processed_transcript	KNOWN	None	15911	None	None	2633647	2636158	1	NOL5A	SCA36
20	NOP56	ENSG00000101361	ENST00000496775	processed_transcript	KNOWN	None	15911	None	None	2634880	2636158	1	NOL5A	SCA36
20	NOP56	ENSG00000101361	ENST00000480992	processed_transcript	KNOWN	None	15911	None	None	2635435	2637195	1	NOL5A	SCA36
20	NOP56	ENSG00000101361	ENST00000484998	processed_transcript	KNOWN	None	15911	None	None	2635743	2637195	1	NOL5A	SCA36
20	NOP56	ENSG00000101361	ENST00000467196	nonsense_mediated_decay	KNOWN	None	15911	757	251	2636082	2639039	1	NOL5A	SCA36
20	NOP56	ENSG00000101361	ENST00000415272	protein_coding	KNOWN	None	15911	659	218	2636262	2638296	1	NOL5A	SCA36
20	NOP56	ENSG00000101361	ENST00000492135	processed_transcript	KNOWN	None	15911	None	None	2636592	2639039	1	NOL5A	SCA36
20	NOP56	ENSG00000101361	ENST00000466447	processed_transcript	KNOWN	None	15911	None	None	2636757	2639039	1	NOL5A	SCA36
20	NOP56	ENSG00000101361	ENST00000480447	processed_transcript	KNOWN	None	15911	None	None	2636805	2637864	1	NOL5A	SCA36
20	NOP56	ENSG00000101361	ENST00000490753	processed_transcript	KNOWN	None	15911	None	None	2637047	2638095	1	NOL5A	SCA36
20	NOP56	ENSG00000101361	ENST00000471023	processed_transcript	KNOWN	None	15911	None	None	2637056	2637871	1	NOL5A	SCA36
20	NOP56	ENSG00000101361	ENST00000462630	processed_transcript	KNOWN	None	15911	None	None	2637286	2639039	1	NOL5A	SCA36
20	NOP56	ENSG00000101361	ENST00000467857	processed_transcript	KNOWN	None	15911	None	None	2637595	2639039	1	NOL5A	SCA36
4	MIR1305	ENSG00000221227	ENST00000408300	miRNA	KNOWN	None	35303	None	None	183090446	183090531	1	MIRN1305	hsa-mir-1305
1	RBM15	ENSG00000162775	ENST00000369784	protein_coding	KNOWN	CCDS822	14959	2934	977	110881128	110889299	1	None	OTT, OTT1
1	RBM15	ENSG00000162775	ENST00000602849	protein_coding	KNOWN	None	14959	2874	957	110881945	110885312	1	None	OTT, OTT1
1	RBM15	ENSG00000162775	ENST00000487146	protein_coding	KNOWN	CCDS59198	14959	2910	969	110881945	110889299	1	None	OTT, OTT1
4	RNU2-34P	ENSG00000252343	ENST00000516534	snRNA	KNOWN	None	48527	None	None	183469812	183469932	1	None	None
4	RN7SKP67	ENSG00000251714	ENST00000515905	misc_RNA	KNOWN	None	45791	None	None	183552607	183552841	-1	None	None
4	GAK	ENSG00000178950	ENST00000502799	retained_intron	KNOWN	None	4113	None	None	843064	845461	-1	None	DNAJC26
4	GAK	ENSG00000178950	ENST00000504668	nonsense_mediated_decay	KNOWN	None	4113	210	69	843065	845709	-1	None	DNAJC26
4	GAK	ENSG00000178950	ENST00000511345	retained_intron	KNOWN	None	4113	None	None	843066	847616	-1	None	DNAJC26
4	GAK	ENSG00000178950	ENST00000515868	retained_intron	KNOWN	None	4113	None	None	843066	863745	-1	None	DNAJC26
4	GAK	ENSG00000178950	ENST00000509566	processed_transcript	KNOWN	None	4113	None	None	843066	866561	-1	None	DNAJC26
4	GAK	ENSG00000178950	ENST00000314167	protein_coding	KNOWN	CCDS3340	4113	3936	1311	843066	926086	-1	None	DNAJC26
4	GAK	ENSG00000178950	ENST00000511163	protein_coding	NOVEL	None	4113	3699	1232	843066	926161	-1	None	DNAJC26
4	GAK	ENSG00000178950	ENST00000511980	protein_coding	NOVEL	None	4113	1403	466	843096	860950	-1	None	DNAJC26
4	GAK	ENSG00000178950	ENST00000510799	protein_coding	NOVEL	None	4113	763	253	845641	861006	-1	None	DNAJC26
4	GAK	ENSG00000178950	ENST00000504947	retained_intron	KNOWN	None	4113	None	None	876556	878178	-1	None	DNAJC26
4	GAK	ENSG00000178950	ENST00000504435	retained_intron	KNOWN	None	4113	None	None	879571	888615	-1	None	DNAJC26
4	GAK	ENSG00000178950	ENST00000505819	nonsense_mediated_decay	KNOWN	None	4113	357	118	887207	926153	-1	None	DNAJC26
4	GAK	ENSG00000178950	ENST00000507580	nonsense_mediated_decay	KNOWN	None	4113	150	49	887731	926105	-1	None	DNAJC26
4	GAK	ENSG00000178950	ENST00000502656	protein_coding	NOVEL	None	4113	414	137	890257	926115	-1	None	DNAJC26
4	GAK	ENSG00000178950	ENST00000507991	retained_intron	KNOWN	None	4113	None	None	891764	898569	-1	None	DNAJC26
4	GAK	ENSG00000178950	ENST00000512325	nonsense_mediated_decay	KNOWN	None	4113	228	75	891850	926105	-1	None	DNAJC26
4	GAK	ENSG00000178950	ENST00000510022	processed_transcript	KNOWN	None	4113	None	None	898441	909544	-1	None	DNAJC26
4	GAK	ENSG00000178950	ENST00000511229	protein_coding	PUTATIVE	None	4113	211	69	898475	909523	-1	None	DNAJC26
4	GAK	ENSG00000178950	ENST00000511983	processed_transcript	KNOWN	None	4113	None	None	905461	909466	-1	None	DNAJC26
4	GAK	ENSG00000178950	ENST00000507124	retained_intron	KNOWN	None	4113	None	None	905507	907817	-1	None	DNAJC26
4	GAK	ENSG00000178950	ENST00000513935	retained_intron	KNOWN	None	4113	None	None	906250	926008	-1	None	DNAJC26
4	None	ENSG00000248816	ENST00000509283	antisense	KNOWN	None	None	None	None	183619055	183629195	-1	None	None
3	SLC9A9	ENSG00000181804	ENST00000316549	protein_coding	KNOWN	CCDS33872	20653	1938	645	142984064	143567373	-1	None	FLJ35613, NHE9
3	SLC9A9	ENSG00000181804	ENST00000483124	processed_transcript	KNOWN	None	20653	None	None	143271261	143416991	-1	None	FLJ35613, NHE9
3	SLC9A9	ENSG00000181804	ENST00000474727	nonsense_mediated_decay	KNOWN	None	20653	186	61	143412052	143567327	-1	None	FLJ35613, NHE9
3	SLC9A9	ENSG00000181804	ENST00000474151	protein_coding	NOVEL	None	20653	443	146	143513855	143567300	-1	None	FLJ35613, NHE9
3	SLC9A9	ENSG00000181804	ENST00000498717	processed_transcript	KNOWN	None	20653	None	None	143566436	143567311	-1	None	FLJ35613, NHE9
HSCHR6_MHC_DBB	HCG9P5	ENSG00000235458	ENST00000412346	unprocessed_pseudogene	KNOWN	None	30983	None	None	29713547	29713771	1	None	HCGIX-5, dJ377H14.6
HSCHR6_MHC_DBB	GTF2H4	ENSG00000226384	ENST00000440824	protein_coding	KNOWN	None	4658	1389	462	30866676	30872598	1	None	TFB2, TFIIH, P52
HSCHR6_MHC_DBB	GTF2H4	ENSG00000226384	ENST00000438348	protein_coding	KNOWN	None	4658	1389	462	30866713	30872598	1	None	TFB2, TFIIH, P52
HSCHR6_MHC_DBB	GTF2H4	ENSG00000226384	ENST00000430576	protein_coding	KNOWN	None	4658	414	137	30866715	30869126	1	None	TFB2, TFIIH, P52
HSCHR6_MHC_DBB	GTF2H4	ENSG00000226384	ENST00000494704	retained_intron	KNOWN	None	4658	None	None	30867934	30870885	1	None	TFB2, TFIIH, P52
HSCHR6_MHC_DBB	GTF2H4	ENSG00000226384	ENST00000496881	retained_intron	KNOWN	None	4658	None	None	30870443	30872598	1	None	TFB2, TFIIH, P52
HSCHR6_MHC_DBB	GTF2H4	ENSG00000226384	ENST00000486591	retained_intron	KNOWN	None	4658	None	None	30870715	30872598	1	None	TFB2, TFIIH, P52
4	None	ENSG00000248694	ENST00000513255	antisense	KNOWN	None	None	None	None	183693718	183695084	-1	None	None
HSCHR6_MHC_DBB	None	ENSG00000264218	ENST00000580486	misc_RNA	NOVEL	None	None	None	None	29715628	29715729	1	None	None
HSCHR6_MHC_DBB	IFITM4P	ENSG00000228102	ENST00000443869	processed_pseudogene	KNOWN	None	21669	None	None	29715984	29716404	-1	None	dJ377H14.5
9	OR2S2	ENSG00000122718	ENST00000341959	protein_coding	KNOWN	CCDS6596	8276	960	319	35957105	35958151	-1	None	None
7	None	ENSG00000237815	ENST00000452058	processed_pseudogene	KNOWN	None	None	None	None	76689662	76689796	-1	None	None
7	None	ENSG00000225726	ENST00000442564	processed_pseudogene	KNOWN	None	None	None	None	76701068	76701554	-1	None	None
10	MIR609	ENSG00000208033	ENST00000385298	miRNA	KNOWN	None	32865	None	None	105978547	105978641	-1	MIRN609	hsa-mir-609
7	FAM185BP	ENSG00000214439	ENST00000443595	unprocessed_pseudogene	KNOWN	None	21813	None	None	76713203	76751433	-1	FAM185B	None
11	DENND5A	ENSG00000184014	ENST00000328194	protein_coding	KNOWN	CCDS31423	19344	3864	1287	9160372	9286937	-1	RAB6IP1	KIAA1091, FLJ22354, FLJ33829, FLJ43455
11	DENND5A	ENSG00000184014	ENST00000529977	retained_intron	KNOWN	None	19344	None	None	9160377	9167007	-1	RAB6IP1	KIAA1091, FLJ22354, FLJ33829, FLJ43455
11	DENND5A	ENSG00000184014	ENST00000530044	protein_coding	PUTATIVE	CCDS58119	19344	3726	1241	9161006	9286634	-1	RAB6IP1	KIAA1091, FLJ22354, FLJ33829, FLJ43455
11	DENND5A	ENSG00000184014	ENST00000528725	protein_coding	NOVEL	None	19344	560	185	9161050	9165726	-1	RAB6IP1	KIAA1091, FLJ22354, FLJ33829, FLJ43455
11	DENND5A	ENSG00000184014	ENST00000527700	protein_coding	PUTATIVE	None	19344	1893	630	9161051	9193792	-1	RAB6IP1	KIAA1091, FLJ22354, FLJ33829, FLJ43455
11	DENND5A	ENSG00000184014	ENST00000533737	protein_coding	NOVEL	None	19344	587	194	9161062	9164999	-1	RAB6IP1	KIAA1091, FLJ22354, FLJ33829, FLJ43455
11	DENND5A	ENSG00000184014	ENST00000525784	protein_coding	NOVEL	None	19344	782	259	9161236	9167362	-1	RAB6IP1	KIAA1091, FLJ22354, FLJ33829, FLJ43455
11	DENND5A	ENSG00000184014	ENST00000531747	nonsense_mediated_decay	KNOWN	None	19344	190	62	9163488	9171720	-1	RAB6IP1	KIAA1091, FLJ22354, FLJ33829, FLJ43455
11	DENND5A	ENSG00000184014	ENST00000524446	protein_coding	NOVEL	None	19344	566	187	9166609	9173954	-1	RAB6IP1	KIAA1091, FLJ22354, FLJ33829, FLJ43455
11	DENND5A	ENSG00000184014	ENST00000526707	nonsense_mediated_decay	KNOWN	None	19344	2424	807	9167260	9286674	-1	RAB6IP1	KIAA1091, FLJ22354, FLJ33829, FLJ43455
11	DENND5A	ENSG00000184014	ENST00000531580	retained_intron	KNOWN	None	19344	None	None	9168344	9172306	-1	RAB6IP1	KIAA1091, FLJ22354, FLJ33829, FLJ43455
11	DENND5A	ENSG00000184014	ENST00000527896	nonsense_mediated_decay	KNOWN	None	19344	315	104	9191470	9200464	-1	RAB6IP1	KIAA1091, FLJ22354, FLJ33829, FLJ43455
11	DENND5A	ENSG00000184014	ENST00000526523	processed_transcript	PUTATIVE	None	19344	None	None	9196787	9199795	-1	RAB6IP1	KIAA1091, FLJ22354, FLJ33829, FLJ43455
11	DENND5A	ENSG00000184014	ENST00000530867	retained_intron	KNOWN	None	19344	None	None	9199477	9200496	-1	RAB6IP1	KIAA1091, FLJ22354, FLJ33829, FLJ43455
11	DENND5A	ENSG00000184014	ENST00000532696	retained_intron	KNOWN	None	19344	None	None	9225079	9228265	-1	RAB6IP1	KIAA1091, FLJ22354, FLJ33829, FLJ43455
11	DENND5A	ENSG00000184014	ENST00000530780	nonsense_mediated_decay	KNOWN	None	19344	210	69	9225613	9286648	-1	RAB6IP1	KIAA1091, FLJ22354, FLJ33829, FLJ43455
19	ZNF700	ENSG00000196757	ENST00000254321	protein_coding	KNOWN	CCDS32915	25292	2229	742	12035883	12061578	1	None	DKFZp434I1610
19	ZNF700	ENSG00000196757	ENST00000482090	protein_coding	PUTATIVE	None	25292	2175	724	12057569	12061588	1	None	DKFZp434I1610
10	MIR4482-1	ENSG00000266852	ENST00000583050	miRNA	KNOWN	None	41792	None	None	106028080	106028177	-1	MIR4482	hsa-mir-4482
HSCHR6_MHC_DBB	HLA-V	ENSG00000223606	ENST00000452871	processed_transcript	KNOWN	None	23482	None	None	29756033	29757943	1	HLA-75	dJ377H14.4
HSCHR6_MHC_DBB	HLA-V	ENSG00000223606	ENST00000450738	processed_transcript	KNOWN	None	23482	None	None	29756127	29758274	1	HLA-75	dJ377H14.4
HSCHR6_MHC_DBB	HLA-V	ENSG00000223606	ENST00000413957	processed_transcript	KNOWN	None	23482	None	None	29756525	29762814	1	HLA-75	dJ377H14.4
HSCHR6_MHC_DBB	HLA-V	ENSG00000223606	ENST00000482137	processed_transcript	KNOWN	None	23482	None	None	29757079	29762814	1	HLA-75	dJ377H14.4
HSCHR6_MHC_DBB	HLA-V	ENSG00000223606	ENST00000455917	processed_transcript	KNOWN	None	23482	None	None	29757396	29762814	1	HLA-75	dJ377H14.4
HSCHR6_MHC_DBB	HLA-V	ENSG00000223606	ENST00000415840	transcribed_unprocessed_pseudogene	KNOWN	None	23482	None	None	29757407	29758309	1	HLA-75	dJ377H14.4
1	ZCCHC17	ENSG00000121766	ENST00000344147	protein_coding	KNOWN	CCDS341	30246	726	241	31769842	31837783	1	None	PS1D, HSPC251, pNO40
1	ZCCHC17	ENSG00000121766	ENST00000479629	processed_transcript	KNOWN	None	30246	None	None	31769845	31821815	1	None	PS1D, HSPC251, pNO40
1	ZCCHC17	ENSG00000121766	ENST00000373714	protein_coding	KNOWN	CCDS341	30246	726	241	31769855	31837783	1	None	PS1D, HSPC251, pNO40
1	ZCCHC17	ENSG00000121766	ENST00000490049	processed_transcript	KNOWN	None	30246	None	None	31769894	31811808	1	None	PS1D, HSPC251, pNO40
1	ZCCHC17	ENSG00000121766	ENST00000546109	protein_coding	KNOWN	None	30246	702	233	31769879	31837105	1	None	PS1D, HSPC251, pNO40
1	ZCCHC17	ENSG00000121766	ENST00000422613	protein_coding	KNOWN	None	30246	732	243	31769883	31837399	1	None	PS1D, HSPC251, pNO40
9	None	ENSG00000252256	ENST00000516447	snoRNA	NOVEL	None	None	None	None	86096182	86096252	1	None	None
9	RNU4-15P	ENSG00000199483	ENST00000362613	snRNA	KNOWN	None	46951	None	None	86211359	86211499	-1	None	None
13	KIAA1704	ENSG00000133114	ENST00000379151	protein_coding	KNOWN	CCDS9394	20298	1023	340	45563687	45602405	1	KIAA1704	bA245H20.2, AD029, LSR7
13	KIAA1704	ENSG00000133114	ENST00000479068	processed_transcript	KNOWN	None	20298	None	None	45563750	45576175	1	KIAA1704	bA245H20.2, AD029, LSR7
13	KIAA1704	ENSG00000133114	ENST00000497558	nonsense_mediated_decay	KNOWN	CCDS9394	20298	1023	340	45563755	45607737	1	KIAA1704	bA245H20.2, AD029, LSR7
13	KIAA1704	ENSG00000133114	ENST00000357537	protein_coding	PUTATIVE	None	20298	513	170	45579245	45607742	1	KIAA1704	bA245H20.2, AD029, LSR7
13	KIAA1704	ENSG00000133114	ENST00000473119	processed_transcript	KNOWN	None	20298	None	None	45605339	45607746	1	KIAA1704	bA245H20.2, AD029, LSR7
13	KIAA1704	ENSG00000133114	ENST00000361121	protein_coding	KNOWN	CCDS9394	20298	1023	340	45563755	45607742	1	KIAA1704	bA245H20.2, AD029, LSR7
9	None	ENSG00000254473	ENST00000524818	antisense	KNOWN	None	None	None	None	86322509	86327784	1	None	None
9	None	ENSG00000254473	ENST00000531661	antisense	KNOWN	None	None	None	None	86323233	86328293	1	None	None
3	ETV5	ENSG00000244405	ENST00000306376	protein_coding	KNOWN	CCDS33906	3494	1533	510	185764097	185826901	-1	None	ERM
3	ETV5	ENSG00000244405	ENST00000434744	protein_coding	KNOWN	CCDS33906	3494	1533	510	185766041	185826464	-1	None	ERM
3	ETV5	ENSG00000244405	ENST00000480706	processed_transcript	KNOWN	None	3494	None	None	185766371	185782349	-1	None	ERM
3	ETV5	ENSG00000244405	ENST00000433149	nonsense_mediated_decay	KNOWN	None	3494	268	88	185766604	185783759	-1	None	ERM
3	ETV5	ENSG00000244405	ENST00000489830	processed_transcript	KNOWN	None	3494	None	None	185782002	185797695	-1	None	ERM
3	ETV5	ENSG00000244405	ENST00000484223	processed_transcript	KNOWN	None	3494	None	None	185782232	185796894	-1	None	ERM
3	ETV5	ENSG00000244405	ENST00000472868	processed_transcript	KNOWN	None	3494	None	None	185783794	185823731	-1	None	ERM
3	ETV5	ENSG00000244405	ENST00000440773	protein_coding	KNOWN	None	3494	450	149	185797806	185828107	-1	None	ERM
3	ETV5	ENSG00000244405	ENST00000421809	protein_coding	KNOWN	None	3494	420	139	185797836	185826788	-1	None	ERM
3	ETV5	ENSG00000244405	ENST00000413301	protein_coding	KNOWN	None	3494	397	131	185797859	185826718	-1	None	ERM
3	ETV5	ENSG00000244405	ENST00000422039	protein_coding	NOVEL	None	3494	396	131	185798913	185826339	-1	None	ERM
3	ETV5	ENSG00000244405	ENST00000476890	processed_transcript	KNOWN	None	3494	None	None	185812909	185826870	-1	None	ERM
3	ETV5	ENSG00000244405	ENST00000475484	retained_intron	KNOWN	None	3494	None	None	185822715	185823279	-1	None	ERM
3	ETV5	ENSG00000244405	ENST00000495808	retained_intron	KNOWN	None	3494	None	None	185823199	185823513	-1	None	ERM
3	ETV5	ENSG00000244405	ENST00000537818	protein_coding	KNOWN	None	3494	1659	552	185766264	185826333	-1	None	ERM
6	TCP10L2	ENSG00000166984	ENST00000539001	processed_transcript	KNOWN	None	21254	None	None	167559902	167578796	1	None	bA517H2.3
6	TCP10L2	ENSG00000166984	ENST00000486697	protein_coding	NOVEL	None	21254	133	43	167562968	167585765	1	None	bA517H2.3
6	TCP10L2	ENSG00000166984	ENST00000366832	protein_coding	NOVEL	CCDS47514	21254	1062	353	167584081	167596396	1	None	bA517H2.3
6	TCP10L2	ENSG00000166984	ENST00000283507	nonsense_mediated_decay	KNOWN	None	21254	924	307	167584136	167610401	1	None	bA517H2.3
6	TCP10L2	ENSG00000166984	ENST00000382669	retained_intron	KNOWN	None	21254	None	None	167584146	167586297	1	None	bA517H2.3
6	TCP10L2	ENSG00000166984	ENST00000464222	retained_intron	KNOWN	None	21254	None	None	167584159	167592248	1	None	bA517H2.3
6	TCP10L2	ENSG00000166984	ENST00000473271	processed_transcript	KNOWN	None	21254	None	None	167607116	167610393	1	None	bA517H2.3
15	GOLGA8B	ENSG00000215252	ENST00000342314	protein_coding	KNOWN	CCDS45211	31973	1812	603	34817408	34828211	-1	None	None
15	GOLGA8B	ENSG00000215252	ENST00000569100	retained_intron	KNOWN	None	31973	None	None	34817483	34880704	-1	None	None
15	GOLGA8B	ENSG00000215252	ENST00000484716	retained_intron	KNOWN	None	31973	None	None	34817855	34875061	-1	None	None
15	GOLGA8B	ENSG00000215252	ENST00000568555	retained_intron	KNOWN	None	31973	None	None	34819160	34825177	-1	None	None
15	GOLGA8B	ENSG00000215252	ENST00000562282	processed_transcript	PUTATIVE	None	31973	None	None	34837059	34844599	-1	None	None
15	GOLGA8B	ENSG00000215252	ENST00000564575	processed_transcript	PUTATIVE	None	31973	None	None	34837589	34875852	-1	None	None
15	GOLGA8B	ENSG00000215252	ENST00000566091	processed_transcript	PUTATIVE	None	31973	None	None	34843392	34873700	-1	None	None
15	GOLGA8B	ENSG00000215252	ENST00000567956	processed_transcript	PUTATIVE	None	31973	None	None	34845108	34875852	-1	None	None
15	GOLGA8B	ENSG00000215252	ENST00000566258	processed_transcript	PUTATIVE	None	31973	None	None	34845174	34875835	-1	None	None
15	GOLGA8B	ENSG00000215252	ENST00000569811	processed_transcript	PUTATIVE	None	31973	None	None	34858091	34875061	-1	None	None
15	GOLGA8B	ENSG00000215252	ENST00000267731	protein_coding	KNOWN	CCDS45211	31973	1812	603	34817483	34875771	-1	None	None
15	GOLGA8B	ENSG00000215252	ENST00000438958	protein_coding	KNOWN	None	31973	1902	633	34817483	34825461	-1	None	None
11	ARHGAP1	ENSG00000175220	ENST00000311956	protein_coding	KNOWN	CCDS7922	673	1320	439	46698630	46722149	-1	None	RhoGAP, p50rhoGAP, CDC42GAP, Cdc42GAP
11	ARHGAP1	ENSG00000175220	ENST00000526423	retained_intron	KNOWN	None	673	None	None	46700273	46703066	-1	None	RhoGAP, p50rhoGAP, CDC42GAP, Cdc42GAP
11	ARHGAP1	ENSG00000175220	ENST00000528837	protein_coding	NOVEL	None	673	1000	332	46700767	46717649	-1	None	RhoGAP, p50rhoGAP, CDC42GAP, Cdc42GAP
11	ARHGAP1	ENSG00000175220	ENST00000525488	protein_coding	KNOWN	None	673	577	191	46702619	46718834	-1	None	RhoGAP, p50rhoGAP, CDC42GAP, Cdc42GAP
11	ARHGAP1	ENSG00000175220	ENST00000527588	retained_intron	KNOWN	None	673	None	None	46708297	46719122	-1	None	RhoGAP, p50rhoGAP, CDC42GAP, Cdc42GAP
11	ARHGAP1	ENSG00000175220	ENST00000529960	retained_intron	KNOWN	None	673	None	None	46709241	46722153	-1	None	RhoGAP, p50rhoGAP, CDC42GAP, Cdc42GAP
11	ARHGAP1	ENSG00000175220	ENST00000524594	retained_intron	KNOWN	None	673	None	None	46716633	46722165	-1	None	RhoGAP, p50rhoGAP, CDC42GAP, Cdc42GAP
9	None	ENSG00000226877	ENST00000458016	antisense	KNOWN	None	None	None	None	86444571	86452502	1	None	None
9	None	ENSG00000226877	ENST00000439378	antisense	KNOWN	None	None	None	None	86446478	86452776	1	None	None
9	None	ENSG00000226877	ENST00000417672	antisense	KNOWN	None	None	None	None	86446480	86452500	1	None	None
9	None	ENSG00000226877	ENST00000412069	antisense	KNOWN	None	None	None	None	86451967	86452498	1	None	None
HSCHR6_MHC_MANN	TRIM39	ENSG00000226437	ENST00000411711	protein_coding	KNOWN	None	10065	434	143	30338927	30342200	1	RNF23	None
HSCHR6_MHC_MANN	TRIM39	ENSG00000226437	ENST00000418057	protein_coding	KNOWN	None	10065	222	73	30339283	30341988	1	RNF23	None
HSCHR6_MHC_MANN	TRIM39	ENSG00000226437	ENST00000438859	protein_coding	KNOWN	None	10065	1467	488	30339292	30356183	1	RNF23	None
HSCHR6_MHC_MANN	TRIM39	ENSG00000226437	ENST00000442914	protein_coding	KNOWN	None	10065	782	259	30339353	30348431	1	RNF23	None
HSCHR6_MHC_MANN	TRIM39	ENSG00000226437	ENST00000451132	protein_coding	KNOWN	None	10065	1467	488	30339368	30356183	1	RNF23	None
HSCHR6_MHC_MANN	TRIM39	ENSG00000226437	ENST00000424074	protein_coding	KNOWN	None	10065	178	58	30339405	30341944	1	RNF23	None
HSCHR6_MHC_MANN	TRIM39	ENSG00000226437	ENST00000450778	protein_coding	KNOWN	None	10065	1467	488	30339707	30356183	1	RNF23	None
HSCHR6_MHC_MANN	TRIM39	ENSG00000226437	ENST00000450170	protein_coding	KNOWN	None	10065	145	47	30339971	30341911	1	RNF23	None
HSCHR6_MHC_MANN	TRIM39	ENSG00000226437	ENST00000445206	protein_coding	KNOWN	None	10065	1557	518	30341338	30356183	1	RNF23	None
HSCHR6_MHC_MANN	TRIM39	ENSG00000226437	ENST00000425693	protein_coding	KNOWN	None	10065	683	226	30341978	30353924	1	RNF23	None
HSCHR6_MHC_MANN	TRIM39	ENSG00000226437	ENST00000552337	protein_coding	KNOWN	None	10065	1557	518	30339292	30356182	1	RNF23	None
HSCHR6_MHC_MANN	TRIM39	ENSG00000226437	ENST00000552047	protein_coding	KNOWN	None	10065	1557	518	30339292	30356182	1	RNF23	None
HSCHR6_MHC_MANN	TRIM39	ENSG00000226437	ENST00000547462	protein_coding	KNOWN	None	10065	1467	488	30339292	30356182	1	RNF23	None
HSCHR6_MHC_MANN	TRIM39	ENSG00000226437	ENST00000548540	protein_coding	KNOWN	None	10065	1236	411	30339292	30354516	1	RNF23	None
HSCHR6_MHC_MANN	TRIM39	ENSG00000226437	ENST00000552136	protein_coding	KNOWN	None	10065	1254	417	30339292	30359267	1	RNF23	None
7	KMT2C	ENSG00000055609	ENST00000360104	protein_coding	NOVEL	None	13726	7324	2440	151832010	151875053	-1	MLL3	KIAA1506, HALR
7	KMT2C	ENSG00000055609	ENST00000558084	nonsense_mediated_decay	KNOWN	None	13726	2480	825	151832010	152133090	-1	MLL3	KIAA1506, HALR
7	KMT2C	ENSG00000055609	ENST00000262189	protein_coding	KNOWN	CCDS5931	13726	14736	4911	151832010	152133090	-1	MLL3	KIAA1506, HALR
7	KMT2C	ENSG00000055609	ENST00000424877	protein_coding	NOVEL	None	13726	4575	1524	151832618	151860419	-1	MLL3	KIAA1506, HALR
7	KMT2C	ENSG00000055609	ENST00000473186	retained_intron	KNOWN	None	13726	None	None	151833669	151936154	-1	MLL3	KIAA1506, HALR
7	KMT2C	ENSG00000055609	ENST00000485241	processed_transcript	KNOWN	None	13726	None	None	151849974	151852090	-1	MLL3	KIAA1506, HALR
7	KMT2C	ENSG00000055609	ENST00000418061	protein_coding	PUTATIVE	None	13726	710	235	151849984	151859249	-1	MLL3	KIAA1506, HALR
7	KMT2C	ENSG00000055609	ENST00000558665	protein_coding	NOVEL	None	13726	538	178	151874914	151879304	-1	MLL3	KIAA1506, HALR
7	KMT2C	ENSG00000055609	ENST00000489110	retained_intron	KNOWN	None	13726	None	None	151917127	151919152	-1	MLL3	KIAA1506, HALR
7	KMT2C	ENSG00000055609	ENST00000418673	protein_coding	NOVEL	None	13726	682	226	151921207	151945104	-1	MLL3	KIAA1506, HALR
7	KMT2C	ENSG00000055609	ENST00000490130	retained_intron	KNOWN	None	13726	None	None	152007019	152009381	-1	MLL3	KIAA1506, HALR
7	KMT2C	ENSG00000055609	ENST00000452749	protein_coding	NOVEL	None	13726	466	154	152012350	152132884	-1	MLL3	KIAA1506, HALR
7	KMT2C	ENSG00000055609	ENST00000355193	protein_coding	KNOWN	None	13726	14907	4968	151832014	152133090	-1	MLL3	KIAA1506, HALR
7	KMT2C	ENSG00000055609	ENST00000485655	protein_coding	KNOWN	None	13726	351	116	151832014	151839884	-1	MLL3	KIAA1506, HALR
6	ZBTB22	ENSG00000236104	ENST00000431845	protein_coding	KNOWN	CCDS4775	13085	1905	634	33282195	33285512	-1	ZNF297	BING1, ZNF297A, fruitless, fru, ZBTB22A
6	ZBTB22	ENSG00000236104	ENST00000441117	protein_coding	KNOWN	None	13085	448	148	33284246	33285718	-1	ZNF297	BING1, ZNF297A, fruitless, fru, ZBTB22A
6	ZBTB22	ENSG00000236104	ENST00000418724	protein_coding	KNOWN	CCDS4775	13085	1905	634	33282183	33285719	-1	ZNF297	BING1, ZNF297A, fruitless, fru, ZBTB22A
X	SPANXC	ENSG00000198573	ENST00000358993	protein_coding	KNOWN	CCDS14673	14331	294	97	140335596	140336629	-1	None	CTp11, CT11.3
12	TMEM132B	ENSG00000139364	ENST00000418253	processed_transcript	KNOWN	None	29397	None	None	125671382	125834524	1	None	KIAA1906, KIAA1786
12	TMEM132B	ENSG00000139364	ENST00000535330	processed_transcript	KNOWN	None	29397	None	None	125811097	125834324	1	None	KIAA1906, KIAA1786
12	TMEM132B	ENSG00000139364	ENST00000299308	protein_coding	KNOWN	CCDS41859	29397	3237	1078	125811162	126146917	1	None	KIAA1906, KIAA1786
12	TMEM132B	ENSG00000139364	ENST00000534945	retained_intron	KNOWN	None	29397	None	None	125833995	126072957	1	None	KIAA1906, KIAA1786
12	TMEM132B	ENSG00000139364	ENST00000535886	protein_coding	PUTATIVE	None	29397	1773	590	126107042	126139363	1	None	KIAA1906, KIAA1786
17	LRRC48	ENSG00000171962	ENST00000582416	protein_coding	KNOWN	None	25384	251	82	17876127	17887172	1	None	DKFZP586M1120
17	LRRC48	ENSG00000171962	ENST00000581264	protein_coding	KNOWN	None	25384	395	130	17876187	17891363	1	None	DKFZP586M1120
17	LRRC48	ENSG00000171962	ENST00000399187	protein_coding	KNOWN	CCDS45622	25384	1572	523	17876199	17920203	1	None	DKFZP586M1120
17	LRRC48	ENSG00000171962	ENST00000479684	protein_coding	KNOWN	None	25384	155	50	17876201	17881067	1	None	DKFZP586M1120
17	LRRC48	ENSG00000171962	ENST00000584166	protein_coding	KNOWN	None	25384	1374	457	17876203	17911035	1	None	DKFZP586M1120
17	LRRC48	ENSG00000171962	ENST00000490517	retained_intron	KNOWN	None	25384	None	None	17876217	17920173	1	None	DKFZP586M1120
17	LRRC48	ENSG00000171962	ENST00000585108	protein_coding	KNOWN	None	25384	416	137	17876232	17891384	1	None	DKFZP586M1120
17	LRRC48	ENSG00000171962	ENST00000399182	protein_coding	KNOWN	CCDS45623	25384	1374	457	17876251	17911142	1	None	DKFZP586M1120
17	LRRC48	ENSG00000171962	ENST00000579977	protein_coding	KNOWN	None	25384	307	101	17876276	17891275	1	None	DKFZP586M1120
17	LRRC48	ENSG00000171962	ENST00000585008	processed_transcript	PUTATIVE	None	25384	None	None	17876281	17877197	1	None	DKFZP586M1120
17	LRRC48	ENSG00000171962	ENST00000583171	nonsense_mediated_decay	KNOWN	None	25384	234	77	17896079	17919965	1	None	DKFZP586M1120
17	LRRC48	ENSG00000171962	ENST00000577202	processed_transcript	KNOWN	None	25384	None	None	17896168	17897662	1	None	DKFZP586M1120
17	LRRC48	ENSG00000171962	ENST00000496293	nonsense_mediated_decay	KNOWN	None	25384	202	66	17897669	17907765	1	None	DKFZP586M1120
17	LRRC48	ENSG00000171962	ENST00000470048	retained_intron	KNOWN	None	25384	None	None	17910194	17911248	1	None	DKFZP586M1120
17	LRRC48	ENSG00000171962	ENST00000579376	protein_coding	PUTATIVE	None	25384	172	56	17910338	17911141	1	None	DKFZP586M1120
17	LRRC48	ENSG00000171962	ENST00000583995	processed_transcript	KNOWN	None	25384	None	None	17919041	17920203	1	None	DKFZP586M1120
17	LRRC48	ENSG00000171962	ENST00000577477	retained_intron	KNOWN	None	25384	None	None	17919125	17920173	1	None	DKFZP586M1120
17	LRRC48	ENSG00000171962	ENST00000313838	protein_coding	KNOWN	CCDS45622	25384	1572	523	17876127	17920185	1	None	DKFZP586M1120
17	LRRC48	ENSG00000171962	ENST00000411504	protein_coding	KNOWN	CCDS45623	25384	1374	457	17876127	17911141	1	None	DKFZP586M1120
1	APOBEC4	ENSG00000173627	ENST00000308641	protein_coding	KNOWN	CCDS1358	32152	1104	367	183615541	183622448	-1	C1orf169	MGC26594, FLJ25691, RP1-127C7.4
1	APOBEC4	ENSG00000173627	ENST00000481562	processed_transcript	KNOWN	None	32152	None	None	183616702	183622451	-1	C1orf169	MGC26594, FLJ25691, RP1-127C7.4
4	None	ENSG00000221186	ENST00000408259	miRNA	NOVEL	None	None	None	None	183747381	183747518	1	None	None
4	None	ENSG00000250636	ENST00000506678	processed_pseudogene	KNOWN	None	None	None	None	183949754	183950873	-1	None	None
4	FAM92A1P2	ENSG00000230219	ENST00000502308	processed_transcript	KNOWN	None	32287	None	None	183958818	183961272	1	FAM92A3	MGC71735, MGC102964
4	FAM92A1P2	ENSG00000230219	ENST00000504766	transcribed_processed_pseudogene	KNOWN	None	32287	None	None	183958920	183960291	1	FAM92A3	MGC71735, MGC102964
4	NPY5R	ENSG00000164129	ENST00000338566	protein_coding	KNOWN	CCDS3804	7958	1338	445	164265091	164273086	1	None	NPYR5
4	NPY5R	ENSG00000164129	ENST00000515560	protein_coding	KNOWN	CCDS3804	7958	1338	445	164265254	164273086	1	None	NPYR5
4	NPY5R	ENSG00000164129	ENST00000506953	protein_coding	KNOWN	CCDS3804	7958	1338	445	164271371	164272788	1	None	NPYR5
4	WWC2-AS2	ENSG00000251359	ENST00000578387	lincRNA	KNOWN	None	26390	None	None	184018170	184020352	-1	C4orf38	FLJ30277
4	WWC2-AS2	ENSG00000251359	ENST00000506413	lincRNA	KNOWN	None	26390	None	None	184018188	184020352	-1	C4orf38	FLJ30277
19	MAST1	ENSG00000105613	ENST00000591495	protein_coding	PUTATIVE	None	19034	1428	475	12944765	12969678	1	None	SAST, KIAA0973
19	MAST1	ENSG00000105613	ENST00000590883	retained_intron	KNOWN	None	19034	None	None	12949287	12959793	1	None	SAST, KIAA0973
19	MAST1	ENSG00000105613	ENST00000251472	protein_coding	KNOWN	CCDS32921	19034	4713	1570	12949348	12985765	1	None	SAST, KIAA0973
19	MAST1	ENSG00000105613	ENST00000588379	protein_coding	PUTATIVE	None	19034	1300	432	12951317	12969735	1	None	SAST, KIAA0973
19	MAST1	ENSG00000105613	ENST00000592713	retained_intron	KNOWN	None	19034	None	None	12958049	12958615	1	None	SAST, KIAA0973
19	MAST1	ENSG00000105613	ENST00000590204	protein_coding	PUTATIVE	None	19034	398	131	12958633	12962985	1	None	SAST, KIAA0973
19	MAST1	ENSG00000105613	ENST00000589040	retained_intron	KNOWN	None	19034	None	None	12963000	12976282	1	None	SAST, KIAA0973
19	MAST1	ENSG00000105613	ENST00000590553	retained_intron	KNOWN	None	19034	None	None	12979415	12984454	1	None	SAST, KIAA0973
19	MAST1	ENSG00000105613	ENST00000585791	retained_intron	KNOWN	None	19034	None	None	12984068	12985163	1	None	SAST, KIAA0973
5	ERAP2	ENSG00000164308	ENST00000437043	protein_coding	KNOWN	CCDS4086	29499	2883	960	96211643	96255420	1	None	L-RAP, LRAP
5	ERAP2	ENSG00000164308	ENST00000510373	protein_coding	KNOWN	None	29499	2082	693	96211690	96244734	1	None	L-RAP, LRAP
5	ERAP2	ENSG00000164308	ENST00000513084	nonsense_mediated_decay	KNOWN	None	29499	1599	532	96212204	96253609	1	None	L-RAP, LRAP
5	ERAP2	ENSG00000164308	ENST00000379904	protein_coding	KNOWN	None	29499	2748	915	96212210	96253636	1	None	L-RAP, LRAP
5	ERAP2	ENSG00000164308	ENST00000510309	protein_coding	KNOWN	None	29499	1053	350	96215268	96225192	1	None	L-RAP, LRAP
5	ERAP2	ENSG00000164308	ENST00000507346	protein_coding	PUTATIVE	None	29499	87	28	96216637	96219529	1	None	L-RAP, LRAP
5	ERAP2	ENSG00000164308	ENST00000508077	protein_coding	NOVEL	None	29499	489	162	96224921	96232566	1	None	L-RAP, LRAP
5	ERAP2	ENSG00000164308	ENST00000515095	processed_transcript	KNOWN	None	29499	None	None	96228122	96238520	1	None	L-RAP, LRAP
5	ERAP2	ENSG00000164308	ENST00000515387	retained_intron	KNOWN	None	29499	None	None	96232107	96245984	1	None	L-RAP, LRAP
5	ERAP2	ENSG00000164308	ENST00000513368	retained_intron	KNOWN	None	29499	None	None	96232276	96235946	1	None	L-RAP, LRAP
5	ERAP2	ENSG00000164308	ENST00000512869	protein_coding	PUTATIVE	None	29499	238	78	96249042	96251553	1	None	L-RAP, LRAP
7	FSCN1	ENSG00000075618	ENST00000382361	protein_coding	KNOWN	CCDS5342	11148	1482	493	5632454	5646286	1	SNL	p55, FLJ38511
7	FSCN1	ENSG00000075618	ENST00000444748	protein_coding	PUTATIVE	None	11148	398	131	5633479	5643614	1	SNL	p55, FLJ38511
7	FSCN1	ENSG00000075618	ENST00000447103	protein_coding	PUTATIVE	None	11148	361	119	5634178	5643577	1	SNL	p55, FLJ38511
7	FSCN1	ENSG00000075618	ENST00000405801	protein_coding	PUTATIVE	None	11148	413	136	5634317	5643629	1	SNL	p55, FLJ38511
7	FSCN1	ENSG00000075618	ENST00000473330	retained_intron	KNOWN	None	11148	None	None	5642503	5646285	1	SNL	p55, FLJ38511
7	FSCN1	ENSG00000075618	ENST00000340250	protein_coding	KNOWN	None	11148	1419	472	5632439	5646279	1	SNL	p55, FLJ38511
11	PRKRIR	ENSG00000137492	ENST00000529901	retained_intron	KNOWN	None	9440	None	None	76061000	76070617	-1	None	P52rIPK, DAP4, THAP12
11	PRKRIR	ENSG00000137492	ENST00000260045	protein_coding	KNOWN	CCDS8243	9440	2286	761	76061000	76091986	-1	None	P52rIPK, DAP4, THAP12
11	PRKRIR	ENSG00000137492	ENST00000528993	nonsense_mediated_decay	KNOWN	None	9440	240	79	76063542	76092015	-1	None	P52rIPK, DAP4, THAP12
11	PRKRIR	ENSG00000137492	ENST00000525277	retained_intron	KNOWN	None	9440	None	None	76063669	76072413	-1	None	P52rIPK, DAP4, THAP12
11	PRKRIR	ENSG00000137492	ENST00000531878	processed_transcript	KNOWN	None	9440	None	None	76063741	76079687	-1	None	P52rIPK, DAP4, THAP12
4	TKTL2	ENSG00000151005	ENST00000280605	protein_coding	KNOWN	CCDS3805	25313	1881	626	164392257	164395047	-1	None	FLJ32975, DKFZP434L1717
13	GTF2F2	ENSG00000188342	ENST00000340473	protein_coding	KNOWN	CCDS9395	4653	750	249	45694650	45858237	1	None	TFIIF, BTF4, RAP30
13	GTF2F2	ENSG00000188342	ENST00000494087	processed_transcript	KNOWN	None	4653	None	None	45780490	45841468	1	None	TFIIF, BTF4, RAP30
13	GTF2F2	ENSG00000188342	ENST00000461904	processed_transcript	KNOWN	None	4653	None	None	45793488	45841498	1	None	TFIIF, BTF4, RAP30
7	None	ENSG00000213542	ENST00000453064	processed_pseudogene	KNOWN	None	None	None	None	76744716	76745509	-1	None	None
10	None	ENSG00000228651	ENST00000448017	antisense	KNOWN	None	None	None	None	54316462	54320865	-1	None	None
10	None	ENSG00000228651	ENST00000443523	antisense	KNOWN	None	None	None	None	54316743	54515169	-1	None	None
17	CCT6B	ENSG00000132141	ENST00000421975	protein_coding	KNOWN	CCDS54106	1621	1482	493	33254878	33288421	-1	None	Cctz2, TSA303
17	CCT6B	ENSG00000132141	ENST00000314144	protein_coding	KNOWN	CCDS32617	1621	1593	530	33254938	33288528	-1	None	Cctz2, TSA303
17	CCT6B	ENSG00000132141	ENST00000577307	retained_intron	KNOWN	None	1621	None	None	33254949	33276734	-1	None	Cctz2, TSA303
17	CCT6B	ENSG00000132141	ENST00000436961	protein_coding	KNOWN	CCDS54105	1621	1458	485	33254951	33288477	-1	None	Cctz2, TSA303
17	CCT6B	ENSG00000132141	ENST00000585073	protein_coding	PUTATIVE	None	1621	384	127	33269578	33308097	-1	None	Cctz2, TSA303
7	None	ENSG00000250990	ENST00000476561	antisense	KNOWN	None	None	None	None	76875657	76887440	-1	None	None
1	COLGALT2	ENSG00000198756	ENST00000486375	processed_transcript	KNOWN	None	16790	None	None	183898988	183909865	-1	C1orf17, GLT25D2	KIAA0584
1	COLGALT2	ENSG00000198756	ENST00000367521	protein_coding	KNOWN	None	16790	705	234	183904971	183915752	-1	C1orf17, GLT25D2	KIAA0584
1	COLGALT2	ENSG00000198756	ENST00000361927	protein_coding	KNOWN	CCDS1360	16790	1881	626	183904971	184006863	-1	C1orf17, GLT25D2	KIAA0584
1	COLGALT2	ENSG00000198756	ENST00000367520	protein_coding	KNOWN	None	16790	1092	363	183907099	183933634	-1	C1orf17, GLT25D2	KIAA0584
1	COLGALT2	ENSG00000198756	ENST00000546159	protein_coding	KNOWN	None	16790	1665	554	183898796	184006611	-1	C1orf17, GLT25D2	KIAA0584
7	None	ENSG00000238453	ENST00000459554	snoRNA	NOVEL	None	None	None	None	77053000	77053105	-1	None	None
13	MTUS2	ENSG00000132938	ENST00000431530	protein_coding	KNOWN	CCDS45022	20595	4140	1379	29598748	30077892	1	KIAA0774	TIP150, CAZIP, ICIS
13	MTUS2	ENSG00000132938	ENST00000255289	processed_transcript	KNOWN	None	20595	None	None	29646121	29855907	1	KIAA0774	TIP150, CAZIP, ICIS
13	MTUS2	ENSG00000132938	ENST00000380808	protein_coding	KNOWN	CCDS41874	20595	1047	348	30002764	30077873	1	KIAA0774	TIP150, CAZIP, ICIS
13	MTUS2	ENSG00000132938	ENST00000400542	processed_transcript	KNOWN	None	20595	None	None	30070484	30077277	1	KIAA0774	TIP150, CAZIP, ICIS
13	MTUS2	ENSG00000132938	ENST00000467990	retained_intron	KNOWN	None	20595	None	None	30070553	30071926	1	KIAA0774	TIP150, CAZIP, ICIS
13	MTUS2	ENSG00000132938	ENST00000542829	protein_coding	KNOWN	None	20595	777	258	30002846	30077394	1	KIAA0774	TIP150, CAZIP, ICIS
2	TSPYL6	ENSG00000178021	ENST00000317802	protein_coding	KNOWN	CCDS42682	14521	1233	410	54480315	54483409	-1	None	None
2	PFN4	ENSG00000176732	ENST00000313213	protein_coding	KNOWN	CCDS1709	31103	390	129	24338241	24346347	-1	None	None
2	PFN4	ENSG00000176732	ENST00000465360	processed_transcript	KNOWN	None	31103	None	None	24338267	24346189	-1	None	None
2	PFN4	ENSG00000176732	ENST00000436622	protein_coding	KNOWN	None	31103	29	8	24345377	24346334	-1	None	None
19	ZNF763	ENSG00000197054	ENST00000592625	protein_coding	PUTATIVE	None	27614	141	46	12075852	12089210	1	None	ZNF440L
19	ZNF763	ENSG00000197054	ENST00000586494	protein_coding	PUTATIVE	None	27614	240	79	12075869	12089345	1	None	ZNF440L
19	ZNF763	ENSG00000197054	ENST00000343949	protein_coding	NOVEL	CCDS45982	27614	1194	397	12075869	12091196	1	None	ZNF440L
19	ZNF763	ENSG00000197054	ENST00000358987	protein_coding	KNOWN	None	27614	1185	394	12075897	12090130	1	None	ZNF440L
19	ZNF763	ENSG00000197054	ENST00000481745	protein_coding	PUTATIVE	None	27614	444	147	12087637	12089090	1	None	ZNF440L
19	ZNF763	ENSG00000197054	ENST00000538752	protein_coding	KNOWN	None	27614	1245	414	12035890	12090105	1	None	ZNF440L
19	ZNF763	ENSG00000197054	ENST00000545530	protein_coding	KNOWN	None	27614	819	272	12075869	12090295	1	None	ZNF440L
X	IRAK1	ENSG00000184216	ENST00000369980	protein_coding	KNOWN	CCDS14740	6112	2139	712	153275951	153285431	-1	None	IRAK, pelle
X	IRAK1	ENSG00000184216	ENST00000369974	protein_coding	NOVEL	CCDS35443	6112	1902	633	153275957	153285327	-1	None	IRAK, pelle
X	IRAK1	ENSG00000184216	ENST00000444230	protein_coding	PUTATIVE	None	6112	705	234	153275971	153285251	-1	None	IRAK, pelle
X	IRAK1	ENSG00000184216	ENST00000477274	processed_transcript	KNOWN	None	6112	None	None	153276173	153284098	-1	None	IRAK, pelle
X	IRAK1	ENSG00000184216	ENST00000455690	protein_coding	PUTATIVE	None	6112	639	212	153277014	153281524	-1	None	IRAK, pelle
X	IRAK1	ENSG00000184216	ENST00000369973	nonsense_mediated_decay	KNOWN	None	6112	1020	339	153277139	153285348	-1	None	IRAK, pelle
X	IRAK1	ENSG00000184216	ENST00000444254	protein_coding	NOVEL	None	6112	655	217	153277182	153279697	-1	None	IRAK, pelle
X	IRAK1	ENSG00000184216	ENST00000437278	protein_coding	NOVEL	None	6112	830	275	153277278	153282445	-1	None	IRAK, pelle
X	IRAK1	ENSG00000184216	ENST00000393687	protein_coding	KNOWN	CCDS35444	6112	2049	682	153277310	153285263	-1	None	IRAK, pelle
X	IRAK1	ENSG00000184216	ENST00000429936	protein_coding	KNOWN	None	6112	2127	708	153277310	153285263	-1	None	IRAK, pelle
X	IRAK1	ENSG00000184216	ENST00000443220	protein_coding	NOVEL	None	6112	1175	390	153278494	153284089	-1	None	IRAK, pelle
X	IRAK1	ENSG00000184216	ENST00000467236	processed_transcript	PUTATIVE	None	6112	None	None	153278787	153279828	-1	None	IRAK, pelle
X	IRAK1	ENSG00000184216	ENST00000463031	retained_intron	KNOWN	None	6112	None	None	153283797	153284396	-1	None	IRAK, pelle
X	IRAK1	ENSG00000184216	ENST00000393682	protein_coding	KNOWN	None	6112	2082	693	153275960	153285263	-1	None	IRAK, pelle
1	SLC16A4	ENSG00000168679	ENST00000369779	protein_coding	KNOWN	CCDS823	10925	1464	487	110905470	110933704	-1	None	MCT4, MCT5
1	SLC16A4	ENSG00000168679	ENST00000472422	protein_coding	NOVEL	CCDS55623	10925	1320	439	110905482	110933648	-1	None	MCT4, MCT5
1	SLC16A4	ENSG00000168679	ENST00000369781	protein_coding	NOVEL	CCDS55624	10925	960	319	110905482	110933670	-1	None	MCT4, MCT5
1	SLC16A4	ENSG00000168679	ENST00000461647	nonsense_mediated_decay	KNOWN	None	10925	174	57	110905482	110933683	-1	None	MCT4, MCT5
1	SLC16A4	ENSG00000168679	ENST00000528649	nonsense_mediated_decay	KNOWN	None	10925	129	42	110906248	110933669	-1	None	MCT4, MCT5
1	SLC16A4	ENSG00000168679	ENST00000492412	nonsense_mediated_decay	KNOWN	None	10925	174	57	110906384	110933670	-1	None	MCT4, MCT5
1	SLC16A4	ENSG00000168679	ENST00000467986	protein_coding	PUTATIVE	None	10925	660	219	110917658	110921805	-1	None	MCT4, MCT5
1	SLC16A4	ENSG00000168679	ENST00000497687	processed_transcript	KNOWN	None	10925	None	None	110921566	110933644	-1	None	MCT4, MCT5
1	SLC16A4	ENSG00000168679	ENST00000541986	protein_coding	KNOWN	CCDS55622	10925	1278	425	110906384	110933670	-1	None	MCT4, MCT5
1	SLC16A4	ENSG00000168679	ENST00000437429	protein_coding	KNOWN	CCDS55621	10925	1149	382	110906248	110933648	-1	None	MCT4, MCT5
6	None	ENSG00000226524	ENST00000448282	lincRNA	KNOWN	None	None	None	None	88081311	88102519	1	None	None
3	PRSS50	ENSG00000206549	ENST00000460241	protein_coding	KNOWN	CCDS2745	17910	1158	385	46753607	46854064	-1	None	TSP50, CT20
3	PRSS50	ENSG00000206549	ENST00000315170	protein_coding	KNOWN	CCDS2745	17910	1158	385	46753605	46759314	-1	None	TSP50, CT20
4	TMA16	ENSG00000198498	ENST00000509657	protein_coding	PUTATIVE	None	25638	727	241	164415594	164440872	1	C4orf43	FLJ11184
4	TMA16	ENSG00000198498	ENST00000358572	protein_coding	KNOWN	CCDS43278	25638	612	203	164415613	164441691	1	C4orf43	FLJ11184
4	TMA16	ENSG00000198498	ENST00000513272	protein_coding	PUTATIVE	None	25638	267	88	164415819	164440871	1	C4orf43	FLJ11184
4	TMA16	ENSG00000198498	ENST00000511562	processed_transcript	KNOWN	None	25638	None	None	164415820	164436613	1	C4orf43	FLJ11184
4	TMA16	ENSG00000198498	ENST00000508652	retained_intron	KNOWN	None	25638	None	None	164415820	164437254	1	C4orf43	FLJ11184
4	TMA16	ENSG00000198498	ENST00000513134	protein_coding	PUTATIVE	None	25638	306	101	164415840	164441527	1	C4orf43	FLJ11184
4	TMA16	ENSG00000198498	ENST00000508268	protein_coding	PUTATIVE	None	25638	435	144	164415860	164438711	1	C4orf43	FLJ11184
4	TMA16	ENSG00000198498	ENST00000506214	retained_intron	KNOWN	None	25638	None	None	164433576	164440615	1	C4orf43	FLJ11184
4	TMA16	ENSG00000198498	ENST00000503148	retained_intron	KNOWN	None	25638	None	None	164438224	164440710	1	C4orf43	FLJ11184
7	GCNT1P5	ENSG00000237620	ENST00000449274	processed_pseudogene	KNOWN	None	37975	None	None	77090775	77091456	1	None	None
2	C2orf73	ENSG00000177994	ENST00000486488	protein_coding	PUTATIVE	None	26861	670	222	54557171	54587487	1	None	FLJ40298
2	C2orf73	ENSG00000177994	ENST00000405749	protein_coding	PUTATIVE	None	26861	342	113	54558039	54610331	1	None	FLJ40298
2	C2orf73	ENSG00000177994	ENST00000398634	protein_coding	KNOWN	CCDS46285	26861	864	287	54558071	54588714	1	None	FLJ40298
2	C2orf73	ENSG00000177994	ENST00000317627	nonsense_mediated_decay	KNOWN	None	26861	180	59	54558071	54588714	1	None	FLJ40298
2	C2orf73	ENSG00000177994	ENST00000447328	protein_coding	NOVEL	None	26861	635	210	54558092	54587644	1	None	FLJ40298
2	C2orf73	ENSG00000177994	ENST00000414747	nonsense_mediated_decay	KNOWN	None	26861	247	81	54558124	54610331	1	None	FLJ40298
2	C2orf73	ENSG00000177994	ENST00000491538	processed_transcript	KNOWN	None	26861	None	None	54558124	54610879	1	None	FLJ40298
7	RSBN1L-AS1	ENSG00000214293	ENST00000440088	processed_transcript	PUTATIVE	None	44173	None	None	77286977	77325582	-1	None	None
7	RSBN1L-AS1	ENSG00000214293	ENST00000430801	processed_transcript	PUTATIVE	None	44173	None	None	77288410	77325582	-1	None	None
7	RSBN1L-AS1	ENSG00000214293	ENST00000416650	processed_transcript	PUTATIVE	None	44173	None	None	77313260	77325579	-1	None	None
7	RSBN1L-AS1	ENSG00000214293	ENST00000398043	processed_transcript	PUTATIVE	None	44173	None	None	77313538	77325582	-1	None	None
7	RSBN1L-AS1	ENSG00000214293	ENST00000447009	processed_transcript	PUTATIVE	None	44173	None	None	77314102	77325570	-1	None	None
9	None	ENSG00000231616	ENST00000591217	antisense	KNOWN	None	None	None	None	86446501	86482721	1	None	None
9	None	ENSG00000231616	ENST00000590368	antisense	KNOWN	None	None	None	None	86463723	86482715	1	None	None
9	None	ENSG00000231616	ENST00000590813	antisense	KNOWN	None	None	None	None	86463725	86474069	1	None	None
9	None	ENSG00000231616	ENST00000586206	antisense	KNOWN	None	None	None	None	86463801	86474240	1	None	None
9	None	ENSG00000231616	ENST00000589817	antisense	KNOWN	None	None	None	None	86463825	86482723	1	None	None
9	None	ENSG00000231616	ENST00000589233	antisense	KNOWN	None	None	None	None	86473216	86483154	1	None	None
9	None	ENSG00000231616	ENST00000586211	antisense	KNOWN	None	None	None	None	86473754	86482797	1	None	None
9	None	ENSG00000231616	ENST00000592283	antisense	KNOWN	None	None	None	None	86473756	86474795	1	None	None
9	None	ENSG00000231616	ENST00000590417	antisense	KNOWN	None	None	None	None	86473893	86475013	1	None	None
9	None	ENSG00000231616	ENST00000421734	antisense	KNOWN	None	None	None	None	86473893	86483335	1	None	None
11	ANKRD49	ENSG00000168876	ENST00000544612	protein_coding	KNOWN	CCDS8300	25970	720	239	94226795	94232749	1	None	FLJ20189, FGIF, GBIF
11	ANKRD49	ENSG00000168876	ENST00000540349	protein_coding	PUTATIVE	None	25970	378	125	94227145	94231278	1	None	FLJ20189, FGIF, GBIF
11	ANKRD49	ENSG00000168876	ENST00000534911	nonsense_mediated_decay	KNOWN	None	25970	378	125	94227150	94231429	1	None	FLJ20189, FGIF, GBIF
11	ANKRD49	ENSG00000168876	ENST00000535502	protein_coding	PUTATIVE	None	25970	392	129	94227169	94231493	1	None	FLJ20189, FGIF, GBIF
11	ANKRD49	ENSG00000168876	ENST00000545130	protein_coding	PUTATIVE	None	25970	440	145	94227170	94231313	1	None	FLJ20189, FGIF, GBIF
11	ANKRD49	ENSG00000168876	ENST00000544514	nonsense_mediated_decay	KNOWN	None	25970	261	86	94227170	94231380	1	None	FLJ20189, FGIF, GBIF
11	ANKRD49	ENSG00000168876	ENST00000544253	protein_coding	PUTATIVE	None	25970	378	125	94227174	94232743	1	None	FLJ20189, FGIF, GBIF
11	ANKRD49	ENSG00000168876	ENST00000541144	protein_coding	PUTATIVE	None	25970	335	110	94227195	94230194	1	None	FLJ20189, FGIF, GBIF
11	ANKRD49	ENSG00000168876	ENST00000302755	protein_coding	KNOWN	CCDS8300	25970	720	239	94229766	94232728	1	None	FLJ20189, FGIF, GBIF
11	ANKRD49	ENSG00000168876	ENST00000539883	processed_transcript	PUTATIVE	None	25970	None	None	94229921	94231509	1	None	FLJ20189, FGIF, GBIF
11	ANKRD49	ENSG00000168876	ENST00000538535	processed_transcript	KNOWN	None	25970	None	None	94230489	94232743	1	None	FLJ20189, FGIF, GBIF
17	NF1	ENSG00000196712	ENST00000487476	retained_intron	KNOWN	None	7765	None	None	29421945	29546377	1	None	None
17	NF1	ENSG00000196712	ENST00000358273	protein_coding	KNOWN	CCDS42292	7765	8520	2839	29421945	29704695	1	None	None
17	NF1	ENSG00000196712	ENST00000356175	protein_coding	KNOWN	CCDS11264	7765	8457	2818	29421945	29704695	1	None	None
17	NF1	ENSG00000196712	ENST00000431387	protein_coding	PUTATIVE	CCDS45645	7765	1782	593	29421995	29549782	1	None	None
17	NF1	ENSG00000196712	ENST00000579081	nonsense_mediated_decay	KNOWN	None	7765	4971	1656	29422226	29701305	1	None	None
17	NF1	ENSG00000196712	ENST00000489712	protein_coding	PUTATIVE	None	7765	352	116	29455476	29496982	1	None	None
17	NF1	ENSG00000196712	ENST00000495910	nonsense_mediated_decay	KNOWN	None	7765	374	123	29483059	29581310	1	None	None
17	NF1	ENSG00000196712	ENST00000490416	retained_intron	KNOWN	None	7765	None	None	29486083	29510045	1	None	None
17	NF1	ENSG00000196712	ENST00000456735	protein_coding	NOVEL	None	7765	7509	2502	29527554	29701451	1	None	None
17	NF1	ENSG00000196712	ENST00000493220	retained_intron	KNOWN	None	7765	None	None	29552101	29658922	1	None	None
17	NF1	ENSG00000196712	ENST00000466819	nonsense_mediated_decay	KNOWN	None	7765	682	226	29560048	29588812	1	None	None
17	NF1	ENSG00000196712	ENST00000479614	nonsense_mediated_decay	KNOWN	None	7765	619	205	29560048	29588812	1	None	None
17	NF1	ENSG00000196712	ENST00000581113	processed_transcript	KNOWN	None	7765	None	None	29645431	29663491	1	None	None
17	NF1	ENSG00000196712	ENST00000479536	nonsense_mediated_decay	KNOWN	None	7765	244	80	29657347	29663891	1	None	None
17	NF1	ENSG00000196712	ENST00000584328	retained_intron	KNOWN	None	7765	None	None	29664781	29670116	1	None	None
17	NF1	ENSG00000196712	ENST00000581790	nonsense_mediated_decay	KNOWN	None	7765	619	205	29664835	29687615	1	None	None
17	NF1	ENSG00000196712	ENST00000471572	nonsense_mediated_decay	KNOWN	None	7765	1921	639	29664835	29708905	1	None	None
17	NF1	ENSG00000196712	ENST00000582892	retained_intron	KNOWN	None	7765	None	None	29667298	29676168	1	None	None
17	NF1	ENSG00000196712	ENST00000577967	retained_intron	KNOWN	None	7765	None	None	29682822	29688620	1	None	None
17	NF1	ENSG00000196712	ENST00000468273	protein_coding	PUTATIVE	None	7765	347	114	29685566	29687974	1	None	None
17	NF1	ENSG00000196712	ENST00000498569	processed_transcript	PUTATIVE	None	7765	None	None	29705666	29709134	1	None	None
17	NF1	ENSG00000196712	ENST00000422121	nonsense_mediated_decay	KNOWN	None	7765	41	12	29705909	29709124	1	None	None
17	NF1	ENSG00000196712	ENST00000488981	processed_transcript	PUTATIVE	None	7765	None	None	29707159	29709134	1	None	None
17	NF1	ENSG00000196712	ENST00000444181	protein_coding	KNOWN	None	7765	1917	638	29664835	29708905	1	None	None
17	NF1	ENSG00000196712	ENST00000417592	protein_coding	KNOWN	None	7765	615	204	29664835	29687615	1	None	None
1	FABP3	ENSG00000121769	ENST00000373713	protein_coding	KNOWN	CCDS342	3557	402	133	31838472	31845923	-1	MDGI, FABP11	H-FABP, O-FABP
1	FABP3	ENSG00000121769	ENST00000497275	processed_transcript	KNOWN	None	3557	None	None	31838560	31842437	-1	MDGI, FABP11	H-FABP, O-FABP
1	FABP3	ENSG00000121769	ENST00000498148	nonsense_mediated_decay	KNOWN	None	3557	270	89	31838568	31845920	-1	MDGI, FABP11	H-FABP, O-FABP
1	FABP3	ENSG00000121769	ENST00000482018	protein_coding	KNOWN	None	3557	397	131	31838738	31849697	-1	MDGI, FABP11	H-FABP, O-FABP
19	ZNF613	ENSG00000176024	ENST00000593395	processed_transcript	KNOWN	None	25827	None	None	52430400	52439378	1	None	FLJ13590
19	ZNF613	ENSG00000176024	ENST00000293471	protein_coding	KNOWN	CCDS33089	25827	1854	617	52430473	52449167	1	None	FLJ13590
19	ZNF613	ENSG00000176024	ENST00000391794	protein_coding	KNOWN	CCDS12844	25827	1746	581	52430688	52449005	1	None	FLJ13590
19	ZNF613	ENSG00000176024	ENST00000599683	protein_coding	KNOWN	None	25827	255	84	52430701	52447499	1	None	FLJ13590
19	ZNF613	ENSG00000176024	ENST00000600853	protein_coding	KNOWN	None	25827	282	93	52430727	52447418	1	None	FLJ13590
19	ZNF613	ENSG00000176024	ENST00000593379	processed_transcript	KNOWN	None	25827	None	None	52430737	52446073	1	None	FLJ13590
19	ZNF613	ENSG00000176024	ENST00000601794	processed_transcript	KNOWN	None	25827	None	None	52448138	52452012	1	None	FLJ13590
4	None	ENSG00000251555	ENST00000510592	lincRNA	KNOWN	None	None	None	None	132851186	132897107	-1	None	None
4	None	ENSG00000251598	ENST00000420721	lincRNA	KNOWN	None	None	None	None	132925965	133045186	-1	None	None
12	ALG10	ENSG00000139133	ENST00000266483	protein_coding	KNOWN	CCDS41769	23162	1422	473	34175216	34180502	1	None	FLJ14751, DIE2, ALG10A
12	ALG10	ENSG00000139133	ENST00000538927	protein_coding	PUTATIVE	None	23162	381	126	34175403	34182629	1	None	FLJ14751, DIE2, ALG10A
12	ALG10	ENSG00000139133	ENST00000541178	retained_intron	KNOWN	None	23162	None	None	34175408	34179087	1	None	FLJ14751, DIE2, ALG10A
12	ALG10	ENSG00000139133	ENST00000541875	nonsense_mediated_decay	KNOWN	None	23162	234	77	34175408	34179964	1	None	FLJ14751, DIE2, ALG10A
11	ADAMTS15	ENSG00000166106	ENST00000299164	protein_coding	KNOWN	CCDS8488	16305	2853	950	130318869	130346532	1	None	None
1	TSEN15	ENSG00000198860	ENST00000361641	protein_coding	KNOWN	CCDS1361	16791	516	171	184020811	184043346	1	C1orf19	None
1	TSEN15	ENSG00000198860	ENST00000485209	nonsense_mediated_decay	KNOWN	None	16791	360	119	184020813	184042114	1	C1orf19	None
1	TSEN15	ENSG00000198860	ENST00000533373	protein_coding	PUTATIVE	None	16791	405	134	184020860	184042157	1	C1orf19	None
1	TSEN15	ENSG00000198860	ENST00000367518	retained_intron	KNOWN	None	16791	None	None	184020867	184039946	1	C1orf19	None
1	TSEN15	ENSG00000198860	ENST00000423085	protein_coding	KNOWN	CCDS44286	16791	390	129	184020880	184043340	1	C1orf19	None
1	TSEN15	ENSG00000198860	ENST00000462677	nonsense_mediated_decay	KNOWN	None	16791	410	135	184020894	184042980	1	C1orf19	None
1	TSEN15	ENSG00000198860	ENST00000457455	retained_intron	KNOWN	None	16791	None	None	184023495	184024203	1	C1orf19	None
11	ASCL2	ENSG00000183734	ENST00000331289	protein_coding	KNOWN	CCDS7732	739	582	193	2289725	2292182	-1	None	ASH2, HASH2, bHLHa45
17	CCDC103	ENSG00000167131	ENST00000577339	protein_coding	KNOWN	None	32700	178	58	42976510	42978922	1	None	FLJ13094, FLJ34211, PR46b, CILD17
17	CCDC103	ENSG00000167131	ENST00000410006	protein_coding	KNOWN	CCDS11490	32700	729	242	42977080	42980250	1	None	FLJ13094, FLJ34211, PR46b, CILD17
17	CCDC103	ENSG00000167131	ENST00000357776	protein_coding	KNOWN	None	32700	712	236	42977084	42980168	1	None	FLJ13094, FLJ34211, PR46b, CILD17
17	CCDC103	ENSG00000167131	ENST00000410027	protein_coding	PUTATIVE	CCDS58554	32700	297	98	42977107	42979850	1	None	FLJ13094, FLJ34211, PR46b, CILD17
17	CCDC103	ENSG00000167131	ENST00000417826	protein_coding	KNOWN	CCDS11490	32700	729	242	42977142	42982758	1	None	FLJ13094, FLJ34211, PR46b, CILD17
4	None	ENSG00000249463	ENST00000510967	lincRNA	KNOWN	None	None	None	None	132948330	132949589	-1	None	None
HSCHR6_MHC_APD	None	ENSG00000258094	ENST00000549693	pseudogene	NOVEL	None	None	None	None	30515142	30515229	-1	None	None
HSCHR6_MHC_MANN	BRD2	ENSG00000234704	ENST00000414731	protein_coding	KNOWN	None	1103	2406	801	33090267	33103106	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_MANN	BRD2	ENSG00000234704	ENST00000487377	processed_transcript	KNOWN	None	1103	None	None	33090865	33093748	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_MANN	BRD2	ENSG00000234704	ENST00000433783	protein_coding	KNOWN	None	1103	887	294	33090926	33098221	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_MANN	BRD2	ENSG00000234704	ENST00000449118	protein_coding	KNOWN	None	1103	2406	801	33092495	33103106	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_MANN	BRD2	ENSG00000234704	ENST00000479973	processed_transcript	KNOWN	None	1103	None	None	33092537	33099800	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_MANN	BRD2	ENSG00000234704	ENST00000479699	nonsense_mediated_decay	KNOWN	None	1103	444	147	33092560	33103106	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_MANN	BRD2	ENSG00000234704	ENST00000450320	protein_coding	KNOWN	None	1103	2511	836	33094337	33103106	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_MANN	BRD2	ENSG00000234704	ENST00000427021	protein_coding	KNOWN	None	1103	2423	806	33094691	33103106	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_MANN	BRD2	ENSG00000234704	ENST00000485239	retained_intron	KNOWN	None	1103	None	None	33097744	33099817	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_MANN	BRD2	ENSG00000234704	ENST00000461924	processed_transcript	KNOWN	None	1103	None	None	33098172	33099504	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_MANN	BRD2	ENSG00000234704	ENST00000492825	retained_intron	KNOWN	None	1103	None	None	33099153	33100404	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_MANN	BRD2	ENSG00000234704	ENST00000460359	retained_intron	KNOWN	None	1103	None	None	33101141	33102887	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_MANN	BRD2	ENSG00000234704	ENST00000484497	processed_transcript	PUTATIVE	None	1103	None	None	33101283	33102367	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_MANN	BRD2	ENSG00000234704	ENST00000550598	protein_coding	KNOWN	None	1103	2511	836	33092508	33103105	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_MANN	BRD2	ENSG00000234704	ENST00000547286	protein_coding	KNOWN	None	1103	2265	754	33094691	33102909	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_MANN	BRD2	ENSG00000234704	ENST00000546777	protein_coding	KNOWN	None	1103	2046	681	33092560	33102909	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_DBB	UBD	ENSG00000231968	ENST00000421519	protein_coding	KNOWN	None	18795	498	165	29523343	29527656	-1	None	FAT10
7	None	ENSG00000222432	ENST00000410500	misc_RNA	NOVEL	None	None	None	None	77525197	77525309	1	None	None
16	EDC4	ENSG00000038358	ENST00000358933	protein_coding	KNOWN	CCDS10849	17157	4206	1401	67906926	67918406	1	None	RCD-8, Ge-1, HEDLS
16	EDC4	ENSG00000038358	ENST00000572221	retained_intron	KNOWN	None	17157	None	None	67906955	67918398	1	None	RCD-8, Ge-1, HEDLS
16	EDC4	ENSG00000038358	ENST00000536072	retained_intron	KNOWN	None	17157	None	None	67907275	67914392	1	None	RCD-8, Ge-1, HEDLS
16	EDC4	ENSG00000038358	ENST00000574770	processed_transcript	KNOWN	None	17157	None	None	67910388	67913682	1	None	RCD-8, Ge-1, HEDLS
16	EDC4	ENSG00000038358	ENST00000573992	retained_intron	KNOWN	None	17157	None	None	67911392	67918400	1	None	RCD-8, Ge-1, HEDLS
16	EDC4	ENSG00000038358	ENST00000572031	retained_intron	KNOWN	None	17157	None	None	67912775	67913642	1	None	RCD-8, Ge-1, HEDLS
16	EDC4	ENSG00000038358	ENST00000577028	retained_intron	KNOWN	None	17157	None	None	67914252	67915083	1	None	RCD-8, Ge-1, HEDLS
16	EDC4	ENSG00000038358	ENST00000576972	retained_intron	KNOWN	None	17157	None	None	67914650	67915699	1	None	RCD-8, Ge-1, HEDLS
16	EDC4	ENSG00000038358	ENST00000572724	retained_intron	KNOWN	None	17157	None	None	67914652	67915252	1	None	RCD-8, Ge-1, HEDLS
16	EDC4	ENSG00000038358	ENST00000575514	retained_intron	KNOWN	None	17157	None	None	67914819	67916419	1	None	RCD-8, Ge-1, HEDLS
16	EDC4	ENSG00000038358	ENST00000575507	retained_intron	KNOWN	None	17157	None	None	67915970	67916826	1	None	RCD-8, Ge-1, HEDLS
16	EDC4	ENSG00000038358	ENST00000577105	protein_coding	PUTATIVE	None	17157	406	134	67916352	67918225	1	None	RCD-8, Ge-1, HEDLS
16	EDC4	ENSG00000038358	ENST00000573985	protein_coding	PUTATIVE	None	17157	465	154	67916390	67918068	1	None	RCD-8, Ge-1, HEDLS
16	EDC4	ENSG00000038358	ENST00000575033	protein_coding	PUTATIVE	None	17157	530	175	67916683	67918026	1	None	RCD-8, Ge-1, HEDLS
7	None	ENSG00000232756	ENST00000431722	antisense	KNOWN	None	None	None	None	77619701	77624259	1	None	None
7	None	ENSG00000232756	ENST00000454234	antisense	KNOWN	None	None	None	None	77619734	77621940	1	None	None
7	None	ENSG00000232756	ENST00000438324	antisense	KNOWN	None	None	None	None	77619737	77624488	1	None	None
6	IER3	ENSG00000137331	ENST00000376377	protein_coding	KNOWN	None	5392	417	138	30710976	30712325	-1	None	IEX-1, DIF-2, PRG1, IEX-1L
6	IER3	ENSG00000137331	ENST00000259874	protein_coding	KNOWN	CCDS4689	5392	471	156	30710976	30712331	-1	None	IEX-1, DIF-2, PRG1, IEX-1L
6	None	ENSG00000216324	ENST00000403708	processed_pseudogene	KNOWN	None	None	None	None	88135513	88135806	-1	None	None
6	None	ENSG00000218793	ENST00000406493	processed_pseudogene	KNOWN	None	None	None	None	88150883	88151864	-1	None	None
6	GPR31	ENSG00000120436	ENST00000366834	protein_coding	KNOWN	CCDS5299	4486	960	319	167569759	167571817	-1	None	HETER1, 12-HETER
9	C9orf9	ENSG00000165698	ENST00000372136	protein_coding	KNOWN	None	1367	669	222	135753414	135765418	1	None	None
9	C9orf9	ENSG00000165698	ENST00000356311	protein_coding	KNOWN	None	1367	669	222	135754285	135765418	1	None	None
9	C9orf9	ENSG00000165698	ENST00000350499	protein_coding	KNOWN	CCDS6955	1367	507	168	135754285	135765588	1	None	None
HSCHR6_MHC_APD	None	ENSG00000257693	ENST00000552073	pseudogene	NOVEL	None	None	None	None	30525031	30525152	1	None	None
3	SCN10A	ENSG00000185313	ENST00000449082	protein_coding	KNOWN	CCDS33736	10582	5871	1956	38738293	38835501	-1	None	Nav1.8, hPN3, SNS, PN3
20	RPL7P2	ENSG00000227663	ENST00000427639	processed_pseudogene	KNOWN	None	16336	None	None	2056201	2056468	1	None	bA550O8.1
6	ST13P16	ENSG00000218698	ENST00000401760	processed_pseudogene	KNOWN	None	38851	None	None	88154113	88154893	-1	None	None
2	None	ENSG00000266118	ENST00000584973	nonsense_mediated_decay	KNOWN	None	None	612	203	24347236	24413305	1	None	None
10	None	ENSG00000201196	ENST00000364326	misc_RNA	NOVEL	None	None	None	None	54612367	54612463	1	None	None
22	CECR1	ENSG00000093072	ENST00000399839	protein_coding	KNOWN	CCDS13742	1839	1536	511	17660194	17702879	-1	IDGFL	ADGF
22	CECR1	ENSG00000093072	ENST00000330232	protein_coding	KNOWN	CCDS13743	1839	813	270	17660196	17680673	-1	IDGFL	ADGF
22	CECR1	ENSG00000093072	ENST00000262607	protein_coding	KNOWN	CCDS13742	1839	1536	511	17660196	17690779	-1	IDGFL	ADGF
22	CECR1	ENSG00000093072	ENST00000469063	processed_transcript	PUTATIVE	None	1839	None	None	17663531	17669617	-1	IDGFL	ADGF
22	CECR1	ENSG00000093072	ENST00000480276	processed_transcript	PUTATIVE	None	1839	None	None	17670674	17679681	-1	IDGFL	ADGF
22	CECR1	ENSG00000093072	ENST00000543038	protein_coding	KNOWN	None	1839	456	151	17688047	17700325	-1	IDGFL	ADGF
22	CECR1	ENSG00000093072	ENST00000441548	protein_coding	PUTATIVE	None	1839	407	134	17688096	17702744	-1	IDGFL	ADGF
22	CECR1	ENSG00000093072	ENST00000399837	protein_coding	KNOWN	CCDS13742	1839	1536	511	17662373	17700266	-1	IDGFL	ADGF
22	CECR1	ENSG00000093072	ENST00000449907	protein_coding	KNOWN	None	1839	1410	469	17661880	17702738	-1	IDGFL	ADGF
20	None	ENSG00000263452	ENST00000580351	miRNA	NOVEL	None	None	None	None	2137858	2137927	-1	None	None
6	RNU6-444P	ENSG00000206715	ENST00000383988	snRNA	KNOWN	None	47407	None	None	88198163	88198270	1	None	None
10	None	ENSG00000227121	ENST00000444155	lincRNA	KNOWN	None	None	None	None	54733248	54735575	-1	None	None
6	DAXX	ENSG00000204209	ENST00000266000	protein_coding	KNOWN	CCDS4776	2681	2223	740	33286335	33290787	-1	None	DAP6
6	DAXX	ENSG00000204209	ENST00000374542	protein_coding	KNOWN	CCDS4776	2681	2223	740	33286335	33290791	-1	None	DAP6
6	DAXX	ENSG00000204209	ENST00000468536	processed_transcript	KNOWN	None	2681	None	None	33287310	33290707	-1	None	DAP6
6	DAXX	ENSG00000204209	ENST00000477162	processed_transcript	KNOWN	None	2681	None	None	33287362	33289646	-1	None	DAP6
6	DAXX	ENSG00000204209	ENST00000490173	retained_intron	KNOWN	None	2681	None	None	33287441	33288237	-1	None	DAP6
6	DAXX	ENSG00000204209	ENST00000477370	processed_transcript	KNOWN	None	2681	None	None	33288646	33290695	-1	None	DAP6
6	DAXX	ENSG00000204209	ENST00000446403	protein_coding	KNOWN	None	2681	535	177	33289017	33290722	-1	None	DAP6
6	DAXX	ENSG00000204209	ENST00000453407	protein_coding	KNOWN	None	2681	389	128	33289163	33297013	-1	None	DAP6
6	DAXX	ENSG00000204209	ENST00000498030	retained_intron	KNOWN	None	2681	None	None	33289388	33290734	-1	None	DAP6
6	DAXX	ENSG00000204209	ENST00000446511	protein_coding	KNOWN	None	2681	144	47	33289559	33290580	-1	None	DAP6
6	DAXX	ENSG00000204209	ENST00000494082	processed_transcript	KNOWN	None	2681	None	None	33291405	33297046	-1	None	DAP6
6	DAXX	ENSG00000204209	ENST00000414083	protein_coding	KNOWN	CCDS59008	2681	1998	665	33286496	33290750	-1	None	DAP6
HSCHR6_MHC_APD	RPL7P4	ENSG00000236100	ENST00000446707	processed_pseudogene	KNOWN	None	21634	None	None	30672830	30673559	-1	None	Em:AB023049.2
20	None	ENSG00000226644	ENST00000447956	lincRNA	KNOWN	None	None	None	None	2187863	2193797	1	None	None
20	None	ENSG00000226644	ENST00000411839	lincRNA	KNOWN	None	None	None	None	2187873	2193797	1	None	None
20	NDUFAF5	ENSG00000101247	ENST00000378106	protein_coding	KNOWN	CCDS13118	15899	1038	345	13765596	13799067	1	C20orf7	dJ842G6.1
20	NDUFAF5	ENSG00000101247	ENST00000378081	nonsense_mediated_decay	KNOWN	None	15899	804	267	13765653	13799067	1	C20orf7	dJ842G6.1
20	NDUFAF5	ENSG00000101247	ENST00000463598	protein_coding	KNOWN	CCDS33441	15899	954	317	13765696	13797874	1	C20orf7	dJ842G6.1
20	NDUFAF5	ENSG00000101247	ENST00000485738	processed_transcript	KNOWN	None	15899	None	None	13765716	13789511	1	C20orf7	dJ842G6.1
20	NDUFAF5	ENSG00000101247	ENST00000477732	processed_transcript	KNOWN	None	15899	None	None	13765732	13789537	1	C20orf7	dJ842G6.1
20	NDUFAF5	ENSG00000101247	ENST00000481249	processed_transcript	KNOWN	None	15899	None	None	13765734	13795084	1	C20orf7	dJ842G6.1
20	NDUFAF5	ENSG00000101247	ENST00000475968	processed_transcript	KNOWN	None	15899	None	None	13765734	13797874	1	C20orf7	dJ842G6.1
20	NDUFAF5	ENSG00000101247	ENST00000476536	processed_transcript	KNOWN	None	15899	None	None	13767796	13793641	1	C20orf7	dJ842G6.1
20	NDUFAF5	ENSG00000101247	ENST00000469177	processed_transcript	KNOWN	None	15899	None	None	13767798	13775496	1	C20orf7	dJ842G6.1
20	NDUFAF5	ENSG00000101247	ENST00000464269	processed_transcript	KNOWN	None	15899	None	None	13773826	13789647	1	C20orf7	dJ842G6.1
20	NDUFAF5	ENSG00000101247	ENST00000479716	processed_transcript	KNOWN	None	15899	None	None	13779107	13797874	1	C20orf7	dJ842G6.1
20	NDUFAF5	ENSG00000101247	ENST00000487478	processed_transcript	KNOWN	None	15899	None	None	13782189	13797874	1	C20orf7	dJ842G6.1
20	NDUFAF5	ENSG00000101247	ENST00000476124	processed_transcript	KNOWN	None	15899	None	None	13782214	13784067	1	C20orf7	dJ842G6.1
20	NDUFAF5	ENSG00000101247	ENST00000476200	processed_transcript	KNOWN	None	15899	None	None	13794723	13797874	1	C20orf7	dJ842G6.1
20	NDUFAF5	ENSG00000101247	ENST00000479682	processed_transcript	KNOWN	None	15899	None	None	13796711	13797874	1	C20orf7	dJ842G6.1
20	NDUFAF5	ENSG00000101247	ENST00000486772	processed_transcript	KNOWN	None	15899	None	None	13797304	13797874	1	C20orf7	dJ842G6.1
9	C9orf169	ENSG00000197191	ENST00000409414	protein_coding	NOVEL	None	30529	555	184	140119087	140120763	1	None	MGC59937
9	C9orf169	ENSG00000197191	ENST00000359069	protein_coding	KNOWN	CCDS48064	30529	435	144	140119644	140120762	1	None	MGC59937
HSCHR6_MHC_APD	MDC1-AS1	ENSG00000231860	ENST00000421805	processed_transcript	KNOWN	None	39764	None	None	30679091	30689207	1	None	None
1	C1orf21	ENSG00000116667	ENST00000235307	protein_coding	KNOWN	CCDS1362	15494	366	121	184356192	184598154	1	None	PIG13
1	C1orf21	ENSG00000116667	ENST00000489143	processed_transcript	KNOWN	None	15494	None	None	184509127	184561377	1	None	PIG13
1	C1orf21	ENSG00000116667	ENST00000367514	processed_transcript	KNOWN	None	15494	None	None	184537533	184589070	1	None	PIG13
1	C1orf21	ENSG00000116667	ENST00000477517	processed_transcript	KNOWN	None	15494	None	None	184559882	184568743	1	None	PIG13
7	RPL13AP17	ENSG00000231322	ENST00000450028	processed_transcript	KNOWN	None	36167	None	None	77976459	77988775	1	None	None
7	RPL13AP17	ENSG00000231322	ENST00000414782	retained_intron	KNOWN	None	36167	None	None	77976531	77979873	1	None	None
7	RPL13AP17	ENSG00000231322	ENST00000428436	retained_intron	KNOWN	None	36167	None	None	77976553	77979846	1	None	None
7	RPL13AP17	ENSG00000231322	ENST00000421208	transcribed_processed_pseudogene	KNOWN	None	36167	None	None	77987609	77988189	1	None	None
HSCHR6_MHC_DBB	HCG4	ENSG00000235317	ENST00000440044	unprocessed_pseudogene	KNOWN	None	21241	None	None	29756926	29757923	-1	HCG4P10	HCGIV-10, HCGIV.9
HSCHR6_MHC_DBB	HCG4	ENSG00000235317	ENST00000550801	pseudogene	KNOWN	None	21241	None	None	29756212	29758246	-1	HCG4P10	HCGIV-10, HCGIV.9
20	None	ENSG00000207305	ENST00000384575	misc_RNA	NOVEL	None	None	None	None	2433656	2433763	-1	None	None
HSCHR6_MHC_QBL	C6orf100	ENSG00000206526	ENST00000383656	protein_coding	KNOWN	None	21195	189	62	28911657	28912317	1	None	dJ25J6.5
20	SNORD119	ENSG00000251806	ENST00000515997	snoRNA	KNOWN	None	33558	None	None	2443608	2443683	-1	None	None
19	None	ENSG00000266948	ENST00000588886	3prime_overlapping_ncrna	KNOWN	None	None	None	None	15771258	15772103	1	None	None
9	RECK	ENSG00000122707	ENST00000377966	protein_coding	KNOWN	CCDS6597	11345	2916	971	36036430	36124448	1	ST15	hRECK
9	RECK	ENSG00000122707	ENST00000475774	processed_transcript	KNOWN	None	11345	None	None	36036921	36086178	1	ST15	hRECK
9	RECK	ENSG00000122707	ENST00000479053	processed_transcript	KNOWN	None	11345	None	None	36036937	36086192	1	ST15	hRECK
9	RNF224	ENSG00000233198	ENST00000445101	protein_coding	KNOWN	CCDS55356	41912	471	156	140122018	140124090	1	None	None
20	MIR1292	ENSG00000221062	ENST00000408135	miRNA	KNOWN	None	35364	None	None	2633423	2633488	1	MIRN1292	hsa-mir-1292
6	UHRF1BP1	ENSG00000065060	ENST00000192788	protein_coding	KNOWN	CCDS43455	21216	4323	1440	34759857	34845291	1	C6orf107	FLJ20302, dJ349A12.1, ICBP90
6	UHRF1BP1	ENSG00000065060	ENST00000452449	protein_coding	KNOWN	None	21216	4203	1400	34759964	34850915	1	C6orf107	FLJ20302, dJ349A12.1, ICBP90
4	ELL2P2	ENSG00000251051	ENST00000515135	processed_pseudogene	KNOWN	None	39344	None	None	133288941	133289634	-1	None	None
HSCHR6_MHC_APD	None	ENSG00000237108	ENST00000426735	processed_transcript	PUTATIVE	None	None	None	None	31006269	31011068	1	None	None
HSCHR6_MHC_SSTO	VWA7	ENSG00000234433	ENST00000430726	protein_coding	KNOWN	None	13939	2676	891	31723322	31735025	-1	C6orf27	G7c, NG37
HSCHR6_MHC_SSTO	VWA7	ENSG00000234433	ENST00000498741	retained_intron	KNOWN	None	13939	None	None	31723769	31725419	-1	C6orf27	G7c, NG37
HSCHR6_MHC_SSTO	VWA7	ENSG00000234433	ENST00000488460	processed_transcript	KNOWN	None	13939	None	None	31724021	31735003	-1	C6orf27	G7c, NG37
HSCHR6_MHC_SSTO	VWA7	ENSG00000234433	ENST00000483607	processed_transcript	KNOWN	None	13939	None	None	31729002	31730738	-1	C6orf27	G7c, NG37
HSCHR6_MHC_SSTO	VWA7	ENSG00000234433	ENST00000480800	processed_transcript	PUTATIVE	None	13939	None	None	31733790	31734650	-1	C6orf27	G7c, NG37
HSCHR6_MHC_SSTO	VWA7	ENSG00000234433	ENST00000550381	protein_coding	KNOWN	None	13939	2559	852	31723326	31735062	-1	C6orf27	G7c, NG37
HSCHR6_MHC_SSTO	VWA7	ENSG00000234433	ENST00000552452	protein_coding	KNOWN	None	13939	2067	688	31724292	31735062	-1	C6orf27	G7c, NG37
HSCHR6_MHC_DBB	HLA-P	ENSG00000261814	ENST00000567293	unprocessed_pseudogene	KNOWN	None	21196	None	None	29765418	29767426	1	C6orf101, HLA-90	dJ377H14.3
1	SERINC2	ENSG00000168528	ENST00000373710	protein_coding	KNOWN	CCDS55583	23231	1395	464	31882412	31907524	1	TDE2L	FKSG84, PRO0899, TDE2
1	SERINC2	ENSG00000168528	ENST00000487207	processed_transcript	KNOWN	None	23231	None	None	31883064	31898705	1	TDE2L	FKSG84, PRO0899, TDE2
1	SERINC2	ENSG00000168528	ENST00000373709	protein_coding	KNOWN	CCDS30662	23231	1368	455	31885963	31907525	1	TDE2L	FKSG84, PRO0899, TDE2
1	SERINC2	ENSG00000168528	ENST00000491976	processed_transcript	KNOWN	None	23231	None	None	31886660	31907524	1	TDE2L	FKSG84, PRO0899, TDE2
1	SERINC2	ENSG00000168528	ENST00000536859	protein_coding	KNOWN	CCDS55584	23231	1380	459	31883048	31907437	1	TDE2L	FKSG84, PRO0899, TDE2
1	SERINC2	ENSG00000168528	ENST00000536384	protein_coding	KNOWN	CCDS55585	23231	1380	459	31886660	31907521	1	TDE2L	FKSG84, PRO0899, TDE2
20	SNORD110	ENSG00000221116	ENST00000408189	snoRNA	KNOWN	None	32775	None	None	2634858	2634932	1	None	HBII-55
4	None	ENSG00000251398	ENST00000513270	lincRNA	KNOWN	None	None	None	None	133512244	133599658	1	None	None
19	CYP4F10P	ENSG00000267241	ENST00000589560	unprocessed_pseudogene	KNOWN	None	39943	None	None	15774931	15780635	1	None	None
HSCHR6_MHC_APD	HCG22	ENSG00000228147	ENST00000431426	processed_transcript	KNOWN	None	27780	None	None	31033296	31038966	1	None	FLJ37114, PBMUCL2
20	SNORA51	ENSG00000271798	ENST00000606420	snoRNA	KNOWN	None	32644	None	None	2635713	2635844	1	None	ACA51
4	None	ENSG00000249038	ENST00000514795	processed_pseudogene	KNOWN	None	None	None	None	133513239	133513691	1	None	None
6	UNC93A	ENSG00000112494	ENST00000503433	protein_coding	KNOWN	None	12570	434	143	167684657	167709684	1	None	dJ366N23.2, dJ366N23.1
6	UNC93A	ENSG00000112494	ENST00000230256	protein_coding	KNOWN	CCDS5300	12570	1374	457	167704803	167729507	1	None	dJ366N23.2, dJ366N23.1
6	UNC93A	ENSG00000112494	ENST00000366830	processed_transcript	KNOWN	None	12570	None	None	167704829	167709680	1	None	dJ366N23.2, dJ366N23.1
6	UNC93A	ENSG00000112494	ENST00000366829	protein_coding	KNOWN	CCDS47515	12570	1248	415	167704952	167729476	1	None	dJ366N23.2, dJ366N23.1
6	UNC93A	ENSG00000112494	ENST00000504706	retained_intron	KNOWN	None	12570	None	None	167708005	167711851	1	None	dJ366N23.2, dJ366N23.1
4	None	ENSG00000251488	ENST00000509628	lincRNA	KNOWN	None	None	None	None	133757927	133902832	-1	None	None
5	TMEM171	ENSG00000157111	ENST00000454765	protein_coding	KNOWN	CCDS4017	27031	975	324	72416119	72427644	1	None	PRP2
5	TMEM171	ENSG00000157111	ENST00000287773	protein_coding	KNOWN	CCDS54869	27031	972	323	72416396	72427636	1	None	PRP2
HSCHR6_MHC_DBB	RPL7AP7	ENSG00000227030	ENST00000430732	processed_pseudogene	KNOWN	None	21395	None	None	29768198	29768994	-1	None	RPL7B, dJ377H14.2
11	SLC22A25	ENSG00000196600	ENST00000306494	protein_coding	KNOWN	CCDS31592	32935	1644	547	62931248	62997124	-1	None	UST6, HIMTP, MGC120420
11	SLC22A25	ENSG00000196600	ENST00000527057	nonsense_mediated_decay	KNOWN	None	32935	1198	398	62931299	62997119	-1	None	UST6, HIMTP, MGC120420
11	SLC22A25	ENSG00000196600	ENST00000528239	nonsense_mediated_decay	KNOWN	None	32935	607	201	62931299	62997122	-1	None	UST6, HIMTP, MGC120420
11	SLC22A25	ENSG00000196600	ENST00000525295	nonsense_mediated_decay	KNOWN	None	32935	471	156	62931302	62997124	-1	None	UST6, HIMTP, MGC120420
11	SLC22A25	ENSG00000196600	ENST00000403374	protein_coding	KNOWN	None	32935	705	234	62933986	62995986	-1	None	UST6, HIMTP, MGC120420
HSCHR6_MHC_DBB	MICG	ENSG00000225763	ENST00000454458	unprocessed_pseudogene	KNOWN	None	16802	None	None	29777570	29777701	-1	None	None
16	FAM65A	ENSG00000039523	ENST00000562116	protein_coding	KNOWN	None	25836	25	7	67552321	67572374	1	None	FLJ13725
16	FAM65A	ENSG00000039523	ENST00000562755	protein_coding	KNOWN	None	25836	289	95	67562191	67572924	1	None	FLJ13725
16	FAM65A	ENSG00000039523	ENST00000379312	protein_coding	KNOWN	CCDS54028	25836	3672	1223	67562720	67580689	1	None	FLJ13725
16	FAM65A	ENSG00000039523	ENST00000566522	processed_transcript	KNOWN	None	25836	None	None	67562770	67574607	1	None	FLJ13725
16	FAM65A	ENSG00000039523	ENST00000042381	protein_coding	KNOWN	CCDS10840	25836	3660	1219	67562773	67580689	1	None	FLJ13725
16	FAM65A	ENSG00000039523	ENST00000540839	protein_coding	KNOWN	None	25836	3717	1238	67562784	67580689	1	None	FLJ13725
16	FAM65A	ENSG00000039523	ENST00000566907	protein_coding	KNOWN	None	25836	158	51	67563250	67572447	1	None	FLJ13725
16	FAM65A	ENSG00000039523	ENST00000566920	protein_coding	KNOWN	None	25836	258	85	67563694	67572728	1	None	FLJ13725
16	FAM65A	ENSG00000039523	ENST00000565176	protein_coding	KNOWN	None	25836	456	151	67565451	67573997	1	None	FLJ13725
16	FAM65A	ENSG00000039523	ENST00000428437	protein_coding	KNOWN	CCDS54027	25836	3702	1233	67571357	67580691	1	None	FLJ13725
16	FAM65A	ENSG00000039523	ENST00000569253	protein_coding	NOVEL	None	25836	1768	588	67571376	67576568	1	None	FLJ13725
16	FAM65A	ENSG00000039523	ENST00000566559	protein_coding	KNOWN	None	25836	1882	626	67571981	67576571	1	None	FLJ13725
16	FAM65A	ENSG00000039523	ENST00000566815	nonsense_mediated_decay	KNOWN	None	25836	607	201	67572367	67575481	1	None	FLJ13725
16	FAM65A	ENSG00000039523	ENST00000561534	retained_intron	KNOWN	None	25836	None	None	67572868	67575481	1	None	FLJ13725
16	FAM65A	ENSG00000039523	ENST00000569474	retained_intron	KNOWN	None	25836	None	None	67573768	67575661	1	None	FLJ13725
16	FAM65A	ENSG00000039523	ENST00000566730	retained_intron	KNOWN	None	25836	None	None	67574028	67575480	1	None	FLJ13725
16	FAM65A	ENSG00000039523	ENST00000569179	protein_coding	NOVEL	None	25836	418	138	67574256	67575616	1	None	FLJ13725
16	FAM65A	ENSG00000039523	ENST00000569733	retained_intron	KNOWN	None	25836	None	None	67575250	67580689	1	None	FLJ13725
16	FAM65A	ENSG00000039523	ENST00000564616	retained_intron	KNOWN	None	25836	None	None	67576902	67577729	1	None	FLJ13725
16	FAM65A	ENSG00000039523	ENST00000568959	protein_coding	NOVEL	None	25836	467	154	67578297	67579700	1	None	FLJ13725
16	FAM65A	ENSG00000039523	ENST00000565190	retained_intron	KNOWN	None	25836	None	None	67579275	67579970	1	None	FLJ13725
16	FAM65A	ENSG00000039523	ENST00000565679	retained_intron	KNOWN	None	25836	None	None	67579440	67579908	1	None	FLJ13725
16	FAM65A	ENSG00000039523	ENST00000422602	protein_coding	KNOWN	CCDS54026	25836	3720	1239	67563630	67580540	1	None	FLJ13725
2	FAM228A	ENSG00000186453	ENST00000456591	nonsense_mediated_decay	KNOWN	None	34418	321	106	24397938	24413381	1	C2orf84	FLJ30851
2	FAM228A	ENSG00000186453	ENST00000295150	protein_coding	KNOWN	CCDS42659	34418	621	206	24397972	24414567	1	C2orf84	FLJ30851
2	FAM228A	ENSG00000186453	ENST00000432434	protein_coding	NOVEL	None	34418	630	209	24398354	24413396	1	C2orf84	FLJ30851
2	FAM228A	ENSG00000186453	ENST00000415196	protein_coding	NOVEL	None	34418	411	136	24406411	24423718	1	C2orf84	FLJ30851
HSCHR6_MHC_DBB	HCG4P8	ENSG00000231430	ENST00000426520	unprocessed_pseudogene	KNOWN	None	22927	None	None	29792386	29793365	-1	None	HCGIV-08, HCGIV.7, HCGIV-8
HSCHR6_MHC_QBL	ZNF311	ENSG00000169260	ENST00000474196	processed_transcript	KNOWN	None	13847	None	None	28962562	28973093	-1	None	None
HSCHR6_MHC_QBL	ZNF311	ENSG00000169260	ENST00000383655	protein_coding	KNOWN	None	13847	2001	666	28962562	28973007	-1	None	None
11	C11orf21	ENSG00000110665	ENST00000381153	protein_coding	KNOWN	None	13231	399	132	2316875	2323290	-1	None	None
11	C11orf21	ENSG00000110665	ENST00000456145	protein_coding	KNOWN	CCDS44518	13231	537	178	2318403	2323143	-1	None	None
11	C11orf21	ENSG00000110665	ENST00000495467	processed_transcript	PUTATIVE	None	13231	None	None	2319054	2324279	-1	None	None
11	C11orf21	ENSG00000110665	ENST00000470369	processed_transcript	KNOWN	None	13231	None	None	2320655	2323102	-1	None	None
HSCHR6_MHC_DBB	MICF	ENSG00000235536	ENST00000444019	unprocessed_pseudogene	KNOWN	None	16801	None	None	29817347	29817475	-1	None	None
22	KIAA1644	ENSG00000138944	ENST00000381176	protein_coding	PUTATIVE	CCDS43025	29335	600	199	44639547	44708731	-1	None	None
7	GAL3ST4	ENSG00000197093	ENST00000413800	protein_coding	PUTATIVE	CCDS5688	24145	1461	486	99756867	99764907	-1	None	FLJ12116
7	GAL3ST4	ENSG00000197093	ENST00000495882	retained_intron	KNOWN	None	24145	None	None	99756867	99765735	-1	None	FLJ12116
7	GAL3ST4	ENSG00000197093	ENST00000360039	protein_coding	KNOWN	CCDS5688	24145	1461	486	99756868	99766373	-1	None	FLJ12116
7	GAL3ST4	ENSG00000197093	ENST00000423751	protein_coding	NOVEL	None	24145	663	220	99757269	99766236	-1	None	FLJ12116
7	GAL3ST4	ENSG00000197093	ENST00000411994	protein_coding	PUTATIVE	None	24145	663	220	99757439	99764853	-1	None	FLJ12116
7	GAL3ST4	ENSG00000197093	ENST00000498000	processed_transcript	PUTATIVE	None	24145	None	None	99758352	99765765	-1	None	FLJ12116
7	GAL3ST4	ENSG00000197093	ENST00000482469	processed_transcript	KNOWN	None	24145	None	None	99764156	99765692	-1	None	FLJ12116
7	GAL3ST4	ENSG00000197093	ENST00000460995	processed_transcript	PUTATIVE	None	24145	None	None	99764222	99765758	-1	None	FLJ12116
7	GAL3ST4	ENSG00000197093	ENST00000426974	protein_coding	KNOWN	None	24145	1275	424	99757439	99764853	-1	None	FLJ12116
8	NUDT18	ENSG00000173566	ENST00000522405	protein_coding	KNOWN	None	26194	741	246	21964383	21966910	-1	None	FLJ22494, MTH3
8	NUDT18	ENSG00000173566	ENST00000521807	protein_coding	KNOWN	None	26194	180	59	21964385	21966932	-1	None	FLJ22494, MTH3
8	NUDT18	ENSG00000173566	ENST00000522379	protein_coding	PUTATIVE	None	26194	865	287	21965024	21966917	-1	None	FLJ22494, MTH3
8	NUDT18	ENSG00000173566	ENST00000309188	protein_coding	KNOWN	None	26194	972	323	21964383	21966932	-1	None	FLJ22494, MTH3
9	SLC34A3	ENSG00000198569	ENST00000361134	protein_coding	KNOWN	CCDS7038	20305	1800	599	140125385	140131006	1	None	NPTIIc, FLJ38680
9	SLC34A3	ENSG00000198569	ENST00000538474	protein_coding	KNOWN	CCDS7038	20305	1800	599	140125209	140131006	1	None	NPTIIc, FLJ38680
HSCHR6_MHC_DBB	HCG4P7	ENSG00000226517	ENST00000446873	unprocessed_pseudogene	KNOWN	None	22926	None	None	29846690	29847658	-1	None	HCGIV-07, HCGIV.C, HCGIV-7
15	None	ENSG00000259752	ENST00000557832	protein_coding	NOVEL	None	None	375	124	47425693	47426320	-1	None	None
HSCHR6_MHC_DBB	HLA-H	ENSG00000227669	ENST00000449501	unprocessed_pseudogene	KNOWN	None	4965	None	None	29847148	29849870	1	None	None
17	FAM187A	ENSG00000214447	ENST00000331733	protein_coding	KNOWN	None	35153	1242	413	42977142	42982758	1	None	None
17	FAM187A	ENSG00000214447	ENST00000412523	protein_coding	KNOWN	None	35153	1242	413	42977135	42982758	1	None	None
HSCHR6_MHC_DBB	HLA-T	ENSG00000229293	ENST00000440821	unprocessed_pseudogene	KNOWN	None	23478	None	None	29855954	29857085	1	HLA-16	None
11	NAV2	ENSG00000166833	ENST00000360655	protein_coding	NOVEL	CCDS53612	15997	7098	2365	19372271	20143144	1	None	FLJ10633, FLJ11030, HELAD1, KIAA1419, POMFIL2, RAINB1, FLJ23707
11	NAV2	ENSG00000166833	ENST00000396085	protein_coding	KNOWN	CCDS7851	15997	7299	2432	19734881	20143144	1	None	FLJ10633, FLJ11030, HELAD1, KIAA1419, POMFIL2, RAINB1, FLJ23707
11	NAV2	ENSG00000166833	ENST00000349880	protein_coding	KNOWN	CCDS7850	15997	7290	2429	19734912	20143144	1	None	FLJ10633, FLJ11030, HELAD1, KIAA1419, POMFIL2, RAINB1, FLJ23707
11	NAV2	ENSG00000166833	ENST00000396087	protein_coding	KNOWN	CCDS58126	15997	7467	2488	19735143	20140120	1	None	FLJ10633, FLJ11030, HELAD1, KIAA1419, POMFIL2, RAINB1, FLJ23707
11	NAV2	ENSG00000166833	ENST00000534229	processed_transcript	KNOWN	None	15997	None	None	19799348	19901673	1	None	FLJ10633, FLJ11030, HELAD1, KIAA1419, POMFIL2, RAINB1, FLJ23707
11	NAV2	ENSG00000166833	ENST00000528008	processed_transcript	KNOWN	None	15997	None	None	19953311	19955265	1	None	FLJ10633, FLJ11030, HELAD1, KIAA1419, POMFIL2, RAINB1, FLJ23707
11	NAV2	ENSG00000166833	ENST00000533917	protein_coding	KNOWN	CCDS44552	15997	4482	1493	20044102	20140149	1	None	FLJ10633, FLJ11030, HELAD1, KIAA1419, POMFIL2, RAINB1, FLJ23707
11	NAV2	ENSG00000166833	ENST00000525322	protein_coding	NOVEL	None	15997	2447	814	20044384	20101730	1	None	FLJ10633, FLJ11030, HELAD1, KIAA1419, POMFIL2, RAINB1, FLJ23707
11	NAV2	ENSG00000166833	ENST00000530408	protein_coding	KNOWN	None	15997	481	159	20044391	20066537	1	None	FLJ10633, FLJ11030, HELAD1, KIAA1419, POMFIL2, RAINB1, FLJ23707
11	NAV2	ENSG00000166833	ENST00000534299	processed_transcript	KNOWN	None	15997	None	None	20048801	20066537	1	None	FLJ10633, FLJ11030, HELAD1, KIAA1419, POMFIL2, RAINB1, FLJ23707
11	NAV2	ENSG00000166833	ENST00000526675	processed_transcript	KNOWN	None	15997	None	None	20049100	20066541	1	None	FLJ10633, FLJ11030, HELAD1, KIAA1419, POMFIL2, RAINB1, FLJ23707
11	NAV2	ENSG00000166833	ENST00000533746	retained_intron	KNOWN	None	15997	None	None	20125757	20140127	1	None	FLJ10633, FLJ11030, HELAD1, KIAA1419, POMFIL2, RAINB1, FLJ23707
11	NAV2	ENSG00000166833	ENST00000525025	retained_intron	KNOWN	None	15997	None	None	20128791	20136226	1	None	FLJ10633, FLJ11030, HELAD1, KIAA1419, POMFIL2, RAINB1, FLJ23707
11	NAV2	ENSG00000166833	ENST00000528923	retained_intron	KNOWN	None	15997	None	None	20135929	20139828	1	None	FLJ10633, FLJ11030, HELAD1, KIAA1419, POMFIL2, RAINB1, FLJ23707
11	NAV2	ENSG00000166833	ENST00000527559	protein_coding	KNOWN	None	15997	7254	2417	19799013	20143144	1	None	FLJ10633, FLJ11030, HELAD1, KIAA1419, POMFIL2, RAINB1, FLJ23707
11	NAV2	ENSG00000166833	ENST00000540292	protein_coding	KNOWN	None	15997	7260	2419	19799472	20143144	1	None	FLJ10633, FLJ11030, HELAD1, KIAA1419, POMFIL2, RAINB1, FLJ23707
11	NAV2	ENSG00000166833	ENST00000311043	protein_coding	KNOWN	CCDS44552	15997	4482	1493	20044636	20143144	1	None	FLJ10633, FLJ11030, HELAD1, KIAA1419, POMFIL2, RAINB1, FLJ23707
22	None	ENSG00000220702	ENST00000406912	protein_coding	PUTATIVE	None	None	228	75	44761431	44762164	1	None	None
HSCHR6_MHC_DBB	DDX39BP1	ENSG00000228891	ENST00000437975	unprocessed_pseudogene	KNOWN	None	33450	None	None	29865925	29866291	1	BAT1P1	None
4	None	ENSG00000249513	ENST00000511916	lincRNA	KNOWN	None	None	None	None	133906665	133909832	-1	None	None
9	None	ENSG00000229079	ENST00000424918	processed_pseudogene	KNOWN	None	None	None	None	44011053	44011839	1	None	None
HSCHR6_MHC_DBB	MCCD1P1	ENSG00000230357	ENST00000429165	unprocessed_pseudogene	KNOWN	None	33449	None	None	29867164	29868026	-1	None	OTTHUMG00000130506
HSCHR6_MHC_DBB	HCG4B	ENSG00000231941	ENST00000428321	unprocessed_pseudogene	KNOWN	None	22919	None	None	29885325	29886315	-1	HCG4P6	HCGIV-6, HCGIV.5, HCGIV-06, bCX67J3.3, Em:AB023056.16, bPG309N1.1, bQB90C11.3
4	None	ENSG00000250241	ENST00000506897	lincRNA	KNOWN	None	None	None	None	133996466	134017981	-1	None	None
4	None	ENSG00000250241	ENST00000505289	lincRNA	KNOWN	None	None	None	None	134015015	134070268	-1	None	None
4	None	ENSG00000250241	ENST00000509715	lincRNA	KNOWN	None	None	None	None	134061736	134070271	-1	None	None
22	LDOC1L	ENSG00000188636	ENST00000341255	protein_coding	KNOWN	CCDS33662	13343	720	239	44888452	44894178	-1	None	dJ1033E15.2, DKFZp761O17121, Mart6, Mar6
HSCHR6_MHC_DBB	HLA-K	ENSG00000232708	ENST00000435780	unprocessed_pseudogene	KNOWN	None	4969	None	None	29885801	29888576	1	HLAK, HLA70	HLA-70
20	SNORD86	ENSG00000212498	ENST00000391196	snoRNA	KNOWN	None	32745	None	None	2636743	2636828	1	None	U86
20	SNORD56	ENSG00000229686	ENST00000413522	processed_transcript	KNOWN	None	10206	None	None	2637270	2637340	1	RNU56	U56
19	CYP4F24P	ENSG00000267594	ENST00000587443	processed_transcript	KNOWN	None	39945	None	None	15870144	15890797	-1	None	None
19	CYP4F24P	ENSG00000267594	ENST00000589193	processed_transcript	KNOWN	None	39945	None	None	15870986	15872186	-1	None	None
19	CYP4F24P	ENSG00000267594	ENST00000586049	transcribed_unprocessed_pseudogene	KNOWN	None	39945	None	None	15871057	15890721	-1	None	None
16	GDE1	ENSG00000006007	ENST00000353258	protein_coding	KNOWN	CCDS10578	29644	996	331	19513015	19533467	-1	None	MIR16
16	GDE1	ENSG00000006007	ENST00000564172	nonsense_mediated_decay	KNOWN	None	29644	327	108	19513705	19533445	-1	None	MIR16
16	GDE1	ENSG00000006007	ENST00000563645	retained_intron	KNOWN	None	29644	None	None	19514423	19516454	-1	None	MIR16
16	GDE1	ENSG00000006007	ENST00000569899	protein_coding	PUTATIVE	None	29644	390	129	19515183	19528490	-1	None	MIR16
16	GDE1	ENSG00000006007	ENST00000569773	protein_coding	PUTATIVE	None	29644	308	101	19519007	19532910	-1	None	MIR16
20	SNORD57	ENSG00000226572	ENST00000448188	processed_transcript	KNOWN	None	10207	None	None	2637585	2637656	1	RNU57	U57
1	None	ENSG00000268950	ENST00000596131	protein_coding	NOVEL	None	None	423	140	31902192	31902614	-1	None	None
11	PDHX	ENSG00000110435	ENST00000533550	protein_coding	PUTATIVE	None	21350	454	150	34937376	34982058	1	None	E3BP, proX, PDX1, OPDX, DLDBP
11	PDHX	ENSG00000110435	ENST00000448838	protein_coding	KNOWN	CCDS44569	21350	1461	486	34937677	35017669	1	None	E3BP, proX, PDX1, OPDX, DLDBP
11	PDHX	ENSG00000110435	ENST00000227868	protein_coding	KNOWN	CCDS7896	21350	1506	501	34938119	35017518	1	None	E3BP, proX, PDX1, OPDX, DLDBP
11	PDHX	ENSG00000110435	ENST00000430469	protein_coding	NOVEL	CCDS53616	21350	825	274	34938179	35016822	1	None	E3BP, proX, PDX1, OPDX, DLDBP
11	PDHX	ENSG00000110435	ENST00000533262	protein_coding	NOVEL	None	21350	546	181	34938188	34982051	1	None	E3BP, proX, PDX1, OPDX, DLDBP
11	PDHX	ENSG00000110435	ENST00000526309	protein_coding	NOVEL	None	21350	569	188	34999331	35016724	1	None	E3BP, proX, PDX1, OPDX, DLDBP
11	PDHX	ENSG00000110435	ENST00000532159	retained_intron	KNOWN	None	21350	None	None	34999482	35006428	1	None	E3BP, proX, PDX1, OPDX, DLDBP
11	PDHX	ENSG00000110435	ENST00000477173	processed_transcript	PUTATIVE	None	21350	None	None	35006180	35042138	1	None	E3BP, proX, PDX1, OPDX, DLDBP
20	None	ENSG00000228293	ENST00000418739	antisense	KNOWN	None	None	None	None	2644998	2646520	1	None	None
20	None	ENSG00000180344	ENST00000315011	pseudogene	KNOWN	None	None	None	None	2677351	2677781	1	None	None
HSCHR6_MHC_DBB	OR2H2	ENSG00000229680	ENST00000411574	protein_coding	KNOWN	None	8253	939	312	29555643	29556705	1	None	hs6M1-12
12	TMEM132C	ENSG00000181234	ENST00000315208	protein_coding	PUTATIVE	None	25436	2175	724	129028500	129192454	1	None	DKFZp761O2018
12	TMEM132C	ENSG00000181234	ENST00000537538	protein_coding	PUTATIVE	None	25436	1482	493	129178451	129192456	1	None	DKFZp761O2018
12	TMEM132C	ENSG00000181234	ENST00000435159	protein_coding	KNOWN	None	25436	3327	1108	128751948	129192460	1	None	DKFZp761O2018
20	RPL19P1	ENSG00000226217	ENST00000411635	processed_pseudogene	KNOWN	None	16595	None	None	2761260	2761687	1	None	dJ860F19.2
20	RN7SL555P	ENSG00000263905	ENST00000584742	misc_RNA	KNOWN	None	46571	None	None	3074861	3075153	1	None	None
11	None	ENSG00000179240	ENST00000531207	processed_transcript	KNOWN	None	None	None	None	76092357	76125663	1	None	None
11	None	ENSG00000179240	ENST00000530460	protein_coding	NOVEL	None	None	633	210	76092360	76094821	1	None	None
11	None	ENSG00000179240	ENST00000321844	protein_coding	NOVEL	None	None	765	254	76092369	76119180	1	None	None
11	None	ENSG00000179240	ENST00000529331	protein_coding	PUTATIVE	None	None	564	187	76092849	76114914	1	None	None
11	None	ENSG00000179240	ENST00000531785	processed_transcript	PUTATIVE	None	None	None	None	76092856	76106143	1	None	None
11	None	ENSG00000179240	ENST00000534586	processed_transcript	PUTATIVE	None	None	None	None	76093829	76122350	1	None	None
HSCHR6_MHC_APD	None	ENSG00000258103	ENST00000550622	pseudogene	NOVEL	None	None	None	None	31039064	31039247	1	None	None
12	KLRB1	ENSG00000111796	ENST00000229402	protein_coding	KNOWN	CCDS8601	6373	678	225	9747147	9760482	-1	NKR	CD161, NKR-P1, NKR-P1A, hNKR-P1A, CLEC5B
1	EDEM3	ENSG00000116406	ENST00000318130	protein_coding	KNOWN	CCDS1363	16787	2799	932	184659365	184724047	-1	C1orf22	None
1	EDEM3	ENSG00000116406	ENST00000439962	nonsense_mediated_decay	KNOWN	None	16787	1143	380	184659637	184680891	-1	C1orf22	None
1	EDEM3	ENSG00000116406	ENST00000466392	processed_transcript	KNOWN	None	16787	None	None	184663602	184679603	-1	C1orf22	None
1	EDEM3	ENSG00000116406	ENST00000474725	retained_intron	KNOWN	None	16787	None	None	184689644	184724007	-1	C1orf22	None
1	EDEM3	ENSG00000116406	ENST00000466606	retained_intron	KNOWN	None	16787	None	None	184701917	184706870	-1	C1orf22	None
1	EDEM3	ENSG00000116406	ENST00000367512	protein_coding	KNOWN	None	16787	2718	905	184662957	184723701	-1	C1orf22	None
HSCHR6_MHC_APD	None	ENSG00000266548	ENST00000578117	misc_RNA	NOVEL	None	None	None	None	31475776	31475877	-1	None	None
20	UBOX5-AS1	ENSG00000235958	ENST00000446537	processed_transcript	KNOWN	None	44111	None	None	3087559	3131513	1	None	None
20	UBOX5-AS1	ENSG00000235958	ENST00000454019	processed_transcript	KNOWN	None	44111	None	None	3091283	3097369	1	None	None
2	SPTBN1	ENSG00000115306	ENST00000356805	protein_coding	KNOWN	CCDS33198	11275	7095	2364	54683422	54896812	1	None	None
2	SPTBN1	ENSG00000115306	ENST00000389980	protein_coding	KNOWN	None	11275	2070	689	54684398	54856341	1	None	None
2	SPTBN1	ENSG00000115306	ENST00000602898	retained_intron	KNOWN	None	11275	None	None	54742881	54755852	1	None	None
2	SPTBN1	ENSG00000115306	ENST00000333896	protein_coding	KNOWN	CCDS33199	11275	6468	2155	54785531	54889445	1	None	None
2	SPTBN1	ENSG00000115306	ENST00000496323	retained_intron	KNOWN	None	11275	None	None	54879655	54887427	1	None	None
2	SPTBN1	ENSG00000115306	ENST00000467371	retained_intron	KNOWN	None	11275	None	None	54890038	54896811	1	None	None
1	LAMTOR5	ENSG00000134248	ENST00000483260	protein_coding	PUTATIVE	None	17955	273	90	110943871	110950290	-1	HBXIP	XIP, MGC71071
1	LAMTOR5	ENSG00000134248	ENST00000474861	protein_coding	PUTATIVE	None	17955	273	90	110943871	110950293	-1	HBXIP	XIP, MGC71071
1	LAMTOR5	ENSG00000134248	ENST00000464240	retained_intron	KNOWN	None	17955	None	None	110943871	110950316	-1	HBXIP	XIP, MGC71071
1	LAMTOR5	ENSG00000134248	ENST00000602318	protein_coding	NOVEL	None	17955	276	91	110943875	110950330	-1	HBXIP	XIP, MGC71071
1	LAMTOR5	ENSG00000134248	ENST00000256644	protein_coding	KNOWN	CCDS824	17955	522	173	110943875	110950564	-1	HBXIP	XIP, MGC71071
1	LAMTOR5	ENSG00000134248	ENST00000602858	protein_coding	NOVEL	None	17955	240	79	110943879	110949047	-1	HBXIP	XIP, MGC71071
1	LAMTOR5	ENSG00000134248	ENST00000531779	retained_intron	KNOWN	None	17955	None	None	110946231	110950286	-1	HBXIP	XIP, MGC71071
HSCHR6_MHC_APD	PPIAP9	ENSG00000230616	ENST00000440658	processed_pseudogene	KNOWN	None	9272	None	None	31498549	31499360	-1	PPIP9	Em:AC006046.3
HSCHR6_MHC_APD	PPIAP9	ENSG00000230616	ENST00000550294	processed_pseudogene	KNOWN	None	9272	None	None	31498549	31499360	-1	PPIP9	Em:AC006046.3
5	PAIP2	ENSG00000120727	ENST00000507755	protein_coding	KNOWN	None	17970	279	92	138677276	138700393	1	None	PAIP2A
5	PAIP2	ENSG00000120727	ENST00000265192	protein_coding	KNOWN	CCDS4211	17970	384	127	138677521	138705387	1	None	PAIP2A
5	PAIP2	ENSG00000120727	ENST00000510409	retained_intron	KNOWN	None	17970	None	None	138677546	138700779	1	None	PAIP2A
5	PAIP2	ENSG00000120727	ENST00000511381	processed_transcript	KNOWN	None	17970	None	None	138677551	138704487	1	None	PAIP2A
5	PAIP2	ENSG00000120727	ENST00000511706	protein_coding	NOVEL	None	17970	204	67	138677567	138704622	1	None	PAIP2A
5	PAIP2	ENSG00000120727	ENST00000507415	retained_intron	KNOWN	None	17970	None	None	138677608	138699731	1	None	PAIP2A
5	PAIP2	ENSG00000120727	ENST00000394795	protein_coding	KNOWN	CCDS4211	17970	384	127	138678131	138705406	1	None	PAIP2A
5	PAIP2	ENSG00000120727	ENST00000510080	protein_coding	KNOWN	CCDS4211	17970	384	127	138678140	138704769	1	None	PAIP2A
5	PAIP2	ENSG00000120727	ENST00000503553	processed_transcript	KNOWN	None	17970	None	None	138700366	138705406	1	None	PAIP2A
5	CCNI2	ENSG00000205089	ENST00000378731	protein_coding	NOVEL	CCDS34236	33869	1110	369	132083137	132089856	1	None	FLJ16793
5	CCNI2	ENSG00000205089	ENST00000492179	retained_intron	KNOWN	None	33869	None	None	132085062	132086985	1	None	FLJ16793
5	CCNI2	ENSG00000205089	ENST00000468733	processed_transcript	PUTATIVE	None	33869	None	None	132086632	132087703	1	None	FLJ16793
3	GHRL	ENSG00000157017	ENST00000335542	protein_coding	KNOWN	CCDS33700	18129	354	117	10327359	10334631	-1	None	MTLRP, ghrelin, obestatin
3	GHRL	ENSG00000157017	ENST00000481287	retained_intron	KNOWN	None	18129	None	None	10327434	10332041	-1	None	MTLRP, ghrelin, obestatin
3	GHRL	ENSG00000157017	ENST00000491589	processed_transcript	KNOWN	None	18129	None	None	10327434	10332598	-1	None	MTLRP, ghrelin, obestatin
3	GHRL	ENSG00000157017	ENST00000430179	protein_coding	KNOWN	CCDS46750	18129	351	116	10327434	10334601	-1	None	MTLRP, ghrelin, obestatin
3	GHRL	ENSG00000157017	ENST00000422159	protein_coding	KNOWN	None	18129	276	91	10327435	10331896	-1	None	MTLRP, ghrelin, obestatin
3	GHRL	ENSG00000157017	ENST00000449238	protein_coding	KNOWN	CCDS46749	18129	315	104	10327438	10334601	-1	None	MTLRP, ghrelin, obestatin
3	GHRL	ENSG00000157017	ENST00000437422	protein_coding	KNOWN	CCDS46748	18129	318	105	10327438	10334601	-1	None	MTLRP, ghrelin, obestatin
3	GHRL	ENSG00000157017	ENST00000287656	protein_coding	KNOWN	CCDS46750	18129	351	116	10327438	10334601	-1	None	MTLRP, ghrelin, obestatin
3	GHRL	ENSG00000157017	ENST00000457360	protein_coding	KNOWN	CCDS33700	18129	354	117	10327438	10334601	-1	None	MTLRP, ghrelin, obestatin
3	GHRL	ENSG00000157017	ENST00000439975	protein_coding	KNOWN	CCDS46747	18129	201	66	10327438	10334601	-1	None	MTLRP, ghrelin, obestatin
3	GHRL	ENSG00000157017	ENST00000446937	protein_coding	NOVEL	None	18129	123	40	10327438	10334601	-1	None	MTLRP, ghrelin, obestatin
3	GHRL	ENSG00000157017	ENST00000429122	protein_coding	KNOWN	CCDS33700	18129	354	117	10327438	10334617	-1	None	MTLRP, ghrelin, obestatin
3	GHRL	ENSG00000157017	ENST00000475759	processed_transcript	KNOWN	None	18129	None	None	10327497	10331491	-1	None	MTLRP, ghrelin, obestatin
3	GHRL	ENSG00000157017	ENST00000476283	processed_transcript	KNOWN	None	18129	None	None	10327497	10331491	-1	None	MTLRP, ghrelin, obestatin
3	GHRL	ENSG00000157017	ENST00000425479	protein_coding	PUTATIVE	None	18129	101	32	10331764	10334622	-1	None	MTLRP, ghrelin, obestatin
3	GHRL	ENSG00000157017	ENST00000450603	protein_coding	KNOWN	CCDS33700	18129	354	117	10327435	10332419	-1	None	MTLRP, ghrelin, obestatin
3	GHRL	ENSG00000157017	ENST00000449554	protein_coding	KNOWN	CCDS46750	18129	351	116	10327435	10332419	-1	None	MTLRP, ghrelin, obestatin
21	ATP5O	ENSG00000241837	ENST00000431254	nonsense_mediated_decay	KNOWN	None	850	223	73	35275757	35288065	-1	None	OSCP, ATPO
21	ATP5O	ENSG00000241837	ENST00000491703	retained_intron	KNOWN	None	850	None	None	35275757	35288072	-1	None	OSCP, ATPO
21	ATP5O	ENSG00000241837	ENST00000290299	protein_coding	KNOWN	CCDS13634	850	642	213	35275757	35288284	-1	None	OSCP, ATPO
21	ATP5O	ENSG00000241837	ENST00000417181	nonsense_mediated_decay	KNOWN	None	850	123	40	35275760	35279716	-1	None	OSCP, ATPO
21	ATP5O	ENSG00000241837	ENST00000418933	protein_coding	PUTATIVE	None	850	259	85	35275760	35281399	-1	None	OSCP, ATPO
21	ATP5O	ENSG00000241837	ENST00000429064	nonsense_mediated_decay	KNOWN	None	850	79	25	35275761	35279720	-1	None	OSCP, ATPO
21	ATP5O	ENSG00000241837	ENST00000495005	retained_intron	KNOWN	None	850	None	None	35281118	35288057	-1	None	OSCP, ATPO
21	ATP5O	ENSG00000241837	ENST00000496044	processed_transcript	KNOWN	None	850	None	None	35284671	35288028	-1	None	OSCP, ATPO
21	ATP5O	ENSG00000241837	ENST00000484627	processed_transcript	KNOWN	None	850	None	None	35284671	35288028	-1	None	OSCP, ATPO
21	ATP5O	ENSG00000241837	ENST00000487374	processed_transcript	KNOWN	None	850	None	None	35284682	35288083	-1	None	OSCP, ATPO
21	RSPH1	ENSG00000160188	ENST00000493019	retained_intron	KNOWN	None	12371	None	None	43892596	43916356	-1	TSGA2	FLJ32753, RSP44, RSPH10A
21	RSPH1	ENSG00000160188	ENST00000291536	protein_coding	KNOWN	CCDS13688	12371	930	309	43892596	43916464	-1	TSGA2	FLJ32753, RSP44, RSPH10A
21	RSPH1	ENSG00000160188	ENST00000398352	protein_coding	NOVEL	None	12371	816	271	43892807	43916296	-1	TSGA2	FLJ32753, RSP44, RSPH10A
19	ZNF350	ENSG00000256683	ENST00000243644	protein_coding	KNOWN	CCDS12845	16656	1599	532	52467596	52490079	-1	None	ZBRK1, ZFQR
19	ZNF350	ENSG00000256683	ENST00000601430	protein_coding	PUTATIVE	None	16656	489	162	52469109	52490109	-1	None	ZBRK1, ZFQR
19	ZNF350	ENSG00000256683	ENST00000600703	processed_transcript	KNOWN	None	16656	None	None	52470541	52490079	-1	None	ZBRK1, ZFQR
19	ZNF350	ENSG00000256683	ENST00000598254	retained_intron	KNOWN	None	16656	None	None	52471732	52490043	-1	None	ZBRK1, ZFQR
19	ZNF350	ENSG00000256683	ENST00000594929	protein_coding	KNOWN	None	16656	202	66	52471867	52490080	-1	None	ZBRK1, ZFQR
19	ZNF350	ENSG00000256683	ENST00000597788	protein_coding	KNOWN	None	16656	186	61	52471883	52478106	-1	None	ZBRK1, ZFQR
19	ZNF350	ENSG00000256683	ENST00000593596	protein_coding	KNOWN	None	16656	157	51	52471912	52489923	-1	None	ZBRK1, ZFQR
19	ZNF350	ENSG00000256683	ENST00000597555	retained_intron	KNOWN	None	16656	None	None	52476220	52490058	-1	None	ZBRK1, ZFQR
19	ZNF350	ENSG00000256683	ENST00000599258	processed_transcript	KNOWN	None	16656	None	None	52485178	52490080	-1	None	ZBRK1, ZFQR
19	SLC6A16	ENSG00000063127	ENST00000335875	protein_coding	KNOWN	CCDS42590	13622	2211	736	49792895	49828482	-1	None	NTT5
19	SLC6A16	ENSG00000063127	ENST00000454748	protein_coding	PUTATIVE	None	13622	1980	659	49793022	49828442	-1	None	NTT5
19	SLC6A16	ENSG00000063127	ENST00000598828	protein_coding	PUTATIVE	None	13622	490	162	49793948	49828472	-1	None	NTT5
19	SLC6A16	ENSG00000063127	ENST00000598221	retained_intron	KNOWN	None	13622	None	None	49796407	49828389	-1	None	NTT5
19	SLC6A16	ENSG00000063127	ENST00000594180	protein_coding	PUTATIVE	None	13622	102	33	49809014	49812209	-1	None	NTT5
19	SLC6A16	ENSG00000063127	ENST00000597969	protein_coding	PUTATIVE	None	13622	442	146	49809142	49813403	-1	None	NTT5
19	SLC6A16	ENSG00000063127	ENST00000594917	protein_coding	PUTATIVE	None	13622	410	135	49809342	49813668	-1	None	NTT5
4	RNU7-158P	ENSG00000252702	ENST00000516893	snRNA	KNOWN	None	45692	None	None	184090501	184090570	-1	None	None
14	CLMN	ENSG00000165959	ENST00000298912	protein_coding	KNOWN	CCDS9933	19972	3009	1002	95648277	95786243	-1	None	FLJ12383, KIAA1188, KIAA0500
14	CLMN	ENSG00000165959	ENST00000557215	processed_transcript	KNOWN	None	19972	None	None	95657864	95660732	-1	None	FLJ12383, KIAA1188, KIAA0500
14	CLMN	ENSG00000165959	ENST00000557696	retained_intron	KNOWN	None	19972	None	None	95657864	95662921	-1	None	FLJ12383, KIAA1188, KIAA0500
14	CLMN	ENSG00000165959	ENST00000556454	retained_intron	KNOWN	None	19972	None	None	95657867	95677188	-1	None	FLJ12383, KIAA1188, KIAA0500
14	CLMN	ENSG00000165959	ENST00000556441	protein_coding	PUTATIVE	None	19972	204	67	95657868	95660637	-1	None	FLJ12383, KIAA1188, KIAA0500
14	CLMN	ENSG00000165959	ENST00000556416	retained_intron	KNOWN	None	19972	None	None	95658050	95660254	-1	None	FLJ12383, KIAA1188, KIAA0500
14	CLMN	ENSG00000165959	ENST00000555336	protein_coding	PUTATIVE	None	19972	398	131	95679562	95762580	-1	None	FLJ12383, KIAA1188, KIAA0500
14	CLMN	ENSG00000165959	ENST00000555615	protein_coding	PUTATIVE	None	19972	303	100	95679657	95774110	-1	None	FLJ12383, KIAA1188, KIAA0500
14	CLMN	ENSG00000165959	ENST00000553733	nonsense_mediated_decay	KNOWN	None	19972	294	97	95688070	95786215	-1	None	FLJ12383, KIAA1188, KIAA0500
4	None	ENSG00000252048	ENST00000516239	snoRNA	NOVEL	None	None	None	None	184097914	184098084	-1	None	None
21	PRMT2	ENSG00000160310	ENST00000355680	protein_coding	KNOWN	CCDS13737	5186	1302	433	48055079	48084863	1	HRMT1L1	MGC111373
21	PRMT2	ENSG00000160310	ENST00000397638	protein_coding	KNOWN	CCDS13737	5186	1302	433	48055527	48084863	1	HRMT1L1	MGC111373
21	PRMT2	ENSG00000160310	ENST00000397637	protein_coding	KNOWN	CCDS13737	5186	1302	433	48055562	48084863	1	HRMT1L1	MGC111373
21	PRMT2	ENSG00000160310	ENST00000334494	protein_coding	NOVEL	CCDS56219	5186	855	284	48055565	48072230	1	HRMT1L1	MGC111373
21	PRMT2	ENSG00000160310	ENST00000397628	protein_coding	PUTATIVE	None	5186	762	253	48055586	48069805	1	HRMT1L1	MGC111373
21	PRMT2	ENSG00000160310	ENST00000440086	protein_coding	NOVEL	CCDS56220	5186	996	331	48055593	48085036	1	HRMT1L1	MGC111373
21	PRMT2	ENSG00000160310	ENST00000482508	retained_intron	KNOWN	None	5186	None	None	48063198	48081182	1	HRMT1L1	MGC111373
21	PRMT2	ENSG00000160310	ENST00000481861	retained_intron	KNOWN	None	5186	None	None	48063447	48079342	1	HRMT1L1	MGC111373
21	PRMT2	ENSG00000160310	ENST00000455177	protein_coding	PUTATIVE	None	5186	581	192	48064255	48072864	1	HRMT1L1	MGC111373
21	PRMT2	ENSG00000160310	ENST00000491389	processed_transcript	PUTATIVE	None	5186	None	None	48068230	48069800	1	HRMT1L1	MGC111373
21	PRMT2	ENSG00000160310	ENST00000498151	processed_transcript	KNOWN	None	5186	None	None	48068420	48069805	1	HRMT1L1	MGC111373
21	PRMT2	ENSG00000160310	ENST00000486520	retained_intron	KNOWN	None	5186	None	None	48076735	48084863	1	HRMT1L1	MGC111373
21	PRMT2	ENSG00000160310	ENST00000458387	protein_coding	KNOWN	None	5186	906	301	48055557	48084857	1	HRMT1L1	MGC111373
21	PRMT2	ENSG00000160310	ENST00000451211	protein_coding	KNOWN	None	5186	870	289	48055557	48084857	1	HRMT1L1	MGC111373
21	PRMT2	ENSG00000160310	ENST00000291705	protein_coding	KNOWN	None	5186	687	228	48055557	48084857	1	HRMT1L1	MGC111373
4	WWC2-AS1	ENSG00000251128	ENST00000511846	antisense	KNOWN	None	41041	None	None	184154781	184161787	-1	None	None
3	DAZL	ENSG00000092345	ENST00000250863	protein_coding	NOVEL	CCDS54556	2685	948	315	16628299	16646297	-1	DAZLA	DAZH, SPGYLA, MGC26406, DAZL1
3	DAZL	ENSG00000092345	ENST00000399444	protein_coding	KNOWN	CCDS43059	2685	888	295	16628299	16647006	-1	DAZLA	DAZH, SPGYLA, MGC26406, DAZL1
3	DAZL	ENSG00000092345	ENST00000454457	protein_coding	PUTATIVE	None	2685	612	203	16638257	16711813	-1	DAZLA	DAZH, SPGYLA, MGC26406, DAZL1
1	TINAGL1	ENSG00000142910	ENST00000476960	processed_transcript	KNOWN	None	19168	None	None	32042136	32050941	1	LCN7	P3ECSL, LIECG3, ARG1, TINAGRP
1	TINAGL1	ENSG00000142910	ENST00000271064	protein_coding	KNOWN	CCDS343	19168	1404	467	32042136	32053287	1	LCN7	P3ECSL, LIECG3, ARG1, TINAGRP
1	TINAGL1	ENSG00000142910	ENST00000461030	processed_transcript	KNOWN	None	19168	None	None	32042143	32050637	1	LCN7	P3ECSL, LIECG3, ARG1, TINAGRP
1	TINAGL1	ENSG00000142910	ENST00000466998	processed_transcript	KNOWN	None	19168	None	None	32042146	32043363	1	LCN7	P3ECSL, LIECG3, ARG1, TINAGRP
1	TINAGL1	ENSG00000142910	ENST00000478398	processed_transcript	KNOWN	None	19168	None	None	32042169	32050941	1	LCN7	P3ECSL, LIECG3, ARG1, TINAGRP
1	TINAGL1	ENSG00000142910	ENST00000481165	processed_transcript	KNOWN	None	19168	None	None	32042635	32053285	1	LCN7	P3ECSL, LIECG3, ARG1, TINAGRP
1	TINAGL1	ENSG00000142910	ENST00000468635	processed_transcript	KNOWN	None	19168	None	None	32043746	32051086	1	LCN7	P3ECSL, LIECG3, ARG1, TINAGRP
1	TINAGL1	ENSG00000142910	ENST00000498429	processed_transcript	KNOWN	None	19168	None	None	32045354	32051477	1	LCN7	P3ECSL, LIECG3, ARG1, TINAGRP
1	TINAGL1	ENSG00000142910	ENST00000463112	processed_transcript	KNOWN	None	19168	None	None	32049114	32053287	1	LCN7	P3ECSL, LIECG3, ARG1, TINAGRP
1	TINAGL1	ENSG00000142910	ENST00000480586	processed_transcript	KNOWN	None	19168	None	None	32050752	32052043	1	LCN7	P3ECSL, LIECG3, ARG1, TINAGRP
1	TINAGL1	ENSG00000142910	ENST00000457433	protein_coding	KNOWN	CCDS55586	19168	1311	436	32042116	32053288	1	LCN7	P3ECSL, LIECG3, ARG1, TINAGRP
1	TINAGL1	ENSG00000142910	ENST00000537531	protein_coding	KNOWN	None	19168	375	124	32042139	32050635	1	LCN7	P3ECSL, LIECG3, ARG1, TINAGRP
1	TINAGL1	ENSG00000142910	ENST00000441210	protein_coding	KNOWN	None	19168	825	274	32042116	32046561	1	LCN7	P3ECSL, LIECG3, ARG1, TINAGRP
4	None	ENSG00000238319	ENST00000459437	snoRNA	NOVEL	None	None	None	None	184195614	184195717	-1	None	None
4	None	ENSG00000238596	ENST00000458784	snoRNA	NOVEL	None	None	None	None	184250451	184250554	1	None	None
4	None	ENSG00000250292	ENST00000514910	processed_pseudogene	KNOWN	None	None	None	None	184301498	184302858	1	None	None
4	None	ENSG00000263395	ENST00000582041	miRNA	NOVEL	None	None	None	None	184305706	184305773	1	None	None
1	PROK1	ENSG00000143125	ENST00000271331	protein_coding	KNOWN	CCDS825	18454	318	105	110993822	110999976	1	None	PK1, PRK1, EGVEGF
21	CYYR1	ENSG00000166265	ENST00000299340	protein_coding	KNOWN	CCDS13578	16274	465	154	27838528	27945603	-1	C21orf95	None
21	CYYR1	ENSG00000166265	ENST00000400043	protein_coding	PUTATIVE	None	16274	399	132	27850290	27945495	-1	C21orf95	None
21	CYYR1	ENSG00000166265	ENST00000435845	protein_coding	KNOWN	None	16274	519	172	27840487	27945603	-1	C21orf95	None
4	None	ENSG00000248376	ENST00000510299	processed_pseudogene	KNOWN	None	None	None	None	184340043	184340958	-1	None	None
7	GRB10	ENSG00000106070	ENST00000402578	protein_coding	KNOWN	CCDS43583	4564	1611	536	50657765	50794815	-1	None	None
7	GRB10	ENSG00000106070	ENST00000403097	protein_coding	KNOWN	None	4564	1767	588	50657765	50860666	-1	None	None
7	GRB10	ENSG00000106070	ENST00000406641	protein_coding	KNOWN	CCDS43583	4564	1611	536	50660045	50823761	-1	None	None
7	GRB10	ENSG00000106070	ENST00000357271	protein_coding	KNOWN	CCDS47586	4564	1647	548	50660277	50800050	-1	None	None
7	GRB10	ENSG00000106070	ENST00000407526	protein_coding	KNOWN	CCDS43583	4564	1611	536	50660277	50823756	-1	None	None
7	GRB10	ENSG00000106070	ENST00000401949	protein_coding	KNOWN	CCDS43582	4564	1785	594	50660277	50850264	-1	None	None
7	GRB10	ENSG00000106070	ENST00000402497	protein_coding	KNOWN	CCDS43583	4564	1611	536	50660307	50861133	-1	None	None
7	GRB10	ENSG00000106070	ENST00000461886	retained_intron	KNOWN	None	4564	None	None	50660576	50663537	-1	None	None
7	GRB10	ENSG00000106070	ENST00000473696	retained_intron	KNOWN	None	4564	None	None	50663167	50674765	-1	None	None
7	GRB10	ENSG00000106070	ENST00000482397	retained_intron	KNOWN	None	4564	None	None	50672606	50674110	-1	None	None
7	GRB10	ENSG00000106070	ENST00000428711	protein_coding	PUTATIVE	None	4564	327	108	50685578	50694627	-1	None	None
7	GRB10	ENSG00000106070	ENST00000439044	protein_coding	KNOWN	None	4564	344	113	50742133	50861129	-1	None	None
7	GRB10	ENSG00000106070	ENST00000465602	processed_transcript	KNOWN	None	4564	None	None	50795490	50815361	-1	None	None
7	GRB10	ENSG00000106070	ENST00000483819	processed_transcript	PUTATIVE	None	4564	None	None	50823584	50850607	-1	None	None
7	GRB10	ENSG00000106070	ENST00000470992	retained_intron	KNOWN	None	4564	None	None	50823589	50849197	-1	None	None
7	GRB10	ENSG00000106070	ENST00000483157	processed_transcript	KNOWN	None	4564	None	None	50824813	50849098	-1	None	None
7	GRB10	ENSG00000106070	ENST00000492265	processed_transcript	KNOWN	None	4564	None	None	50829355	50847267	-1	None	None
7	GRB10	ENSG00000106070	ENST00000467386	processed_transcript	KNOWN	None	4564	None	None	50847154	50849168	-1	None	None
7	GRB10	ENSG00000106070	ENST00000478162	processed_transcript	KNOWN	None	4564	None	None	50847318	50849123	-1	None	None
7	GRB10	ENSG00000106070	ENST00000490051	retained_intron	KNOWN	None	4564	None	None	50847415	50849127	-1	None	None
7	GRB10	ENSG00000106070	ENST00000398812	protein_coding	KNOWN	CCDS43582	4564	1785	594	50657760	50800050	-1	None	None
7	GRB10	ENSG00000106070	ENST00000439599	protein_coding	KNOWN	None	4564	1767	588	50657760	50778604	-1	None	None
7	GRB10	ENSG00000106070	ENST00000335866	protein_coding	KNOWN	CCDS43583	4564	1611	536	50657760	50861159	-1	None	None
7	GRB10	ENSG00000106070	ENST00000398810	protein_coding	KNOWN	CCDS43583	4564	1611	536	50657760	50772998	-1	None	None
HSCHR6_MHC_COX	RNF5	ENSG00000228405	ENST00000456167	protein_coding	KNOWN	None	10068	543	180	32094614	32097047	1	None	NG2, G16, RING5, RMA1
HSCHR6_MHC_COX	RNF5	ENSG00000228405	ENST00000488204	processed_transcript	KNOWN	None	10068	None	None	32094691	32096027	1	None	NG2, G16, RING5, RMA1
8	HR	ENSG00000168453	ENST00000381418	protein_coding	KNOWN	CCDS6022	5172	3570	1189	21971928	21989381	-1	ALUNC	AU
8	HR	ENSG00000168453	ENST00000312841	protein_coding	KNOWN	CCDS6023	5172	3405	1134	21971932	21988565	-1	ALUNC	AU
8	HR	ENSG00000168453	ENST00000522016	retained_intron	KNOWN	None	5172	None	None	21972582	21975958	-1	ALUNC	AU
8	HR	ENSG00000168453	ENST00000522039	retained_intron	KNOWN	None	5172	None	None	21976245	21977381	-1	ALUNC	AU
8	HR	ENSG00000168453	ENST00000517699	protein_coding	PUTATIVE	None	5172	500	165	21977632	21980364	-1	ALUNC	AU
8	HR	ENSG00000168453	ENST00000518461	retained_intron	KNOWN	None	5172	None	None	21978356	21980203	-1	ALUNC	AU
8	HR	ENSG00000168453	ENST00000519619	processed_transcript	PUTATIVE	None	5172	None	None	21984999	21985629	-1	ALUNC	AU
8	HR	ENSG00000168453	ENST00000522759	retained_intron	KNOWN	None	5172	None	None	21985599	21988194	-1	ALUNC	AU
8	HR	ENSG00000168453	ENST00000518377	processed_transcript	KNOWN	None	5172	None	None	21987984	21990897	-1	ALUNC	AU
10	CYP2C18	ENSG00000108242	ENST00000285979	protein_coding	KNOWN	CCDS7435	2620	1473	490	96443378	96495947	1	CYP2C17	P450IIC17, CPCI, CYP2C
10	CYP2C18	ENSG00000108242	ENST00000339022	protein_coding	KNOWN	CCDS44460	2620	1296	431	96443251	96495945	1	CYP2C17	P450IIC17, CPCI, CYP2C
13	KCTD4	ENSG00000180332	ENST00000379108	protein_coding	KNOWN	CCDS9396	23227	780	259	45766988	45768852	-1	None	bA321C24.3
13	KCTD4	ENSG00000180332	ENST00000405872	protein_coding	KNOWN	CCDS9396	23227	780	259	45766992	45775175	-1	None	bA321C24.3
10	SNRPEP8	ENSG00000231399	ENST00000442866	processed_pseudogene	KNOWN	None	43573	None	None	54798045	54798304	1	None	None
1	KCNA10	ENSG00000143105	ENST00000369771	protein_coding	KNOWN	CCDS826	6219	1536	511	111059839	111061797	-1	None	Kv1.8
10	None	ENSG00000226296	ENST00000449272	lincRNA	KNOWN	None	None	None	None	55050832	55070825	-1	None	None
11	ART5	ENSG00000167311	ENST00000397068	protein_coding	KNOWN	CCDS7743	24049	876	291	3659733	3663485	-1	None	None
11	ART5	ENSG00000167311	ENST00000397067	protein_coding	KNOWN	None	24049	720	239	3659742	3663222	-1	None	None
11	ART5	ENSG00000167311	ENST00000359918	protein_coding	KNOWN	CCDS7743	24049	876	291	3659744	3663546	-1	None	None
11	ART5	ENSG00000167311	ENST00000453353	protein_coding	PUTATIVE	None	24049	793	263	3659995	3661527	-1	None	None
11	ART5	ENSG00000167311	ENST00000425767	protein_coding	PUTATIVE	None	24049	455	150	3660241	3661595	-1	None	None
10	RNA5SP318	ENSG00000252161	ENST00000516352	rRNA	KNOWN	None	43218	None	None	55217957	55218048	1	RN5S318	None
22	PRR5	ENSG00000186654	ENST00000432186	protein_coding	KNOWN	None	31682	802	266	45064593	45132789	1	None	PP610, FLJ20185k, Protor-1
22	PRR5	ENSG00000186654	ENST00000492475	processed_transcript	KNOWN	None	31682	None	None	45072861	45132754	1	None	PP610, FLJ20185k, Protor-1
22	PRR5	ENSG00000186654	ENST00000006251	protein_coding	KNOWN	CCDS14059	31682	1140	379	45072937	45133560	1	None	PP610, FLJ20185k, Protor-1
22	PRR5	ENSG00000186654	ENST00000459857	processed_transcript	KNOWN	None	31682	None	None	45072965	45125288	1	None	PP610, FLJ20185k, Protor-1
22	PRR5	ENSG00000186654	ENST00000403581	protein_coding	PUTATIVE	CCDS56232	31682	1236	411	45072965	45133561	1	None	PP610, FLJ20185k, Protor-1
22	PRR5	ENSG00000186654	ENST00000492289	processed_transcript	KNOWN	None	31682	None	None	45073014	45126812	1	None	PP610, FLJ20185k, Protor-1
22	PRR5	ENSG00000186654	ENST00000336985	protein_coding	KNOWN	CCDS14058	31682	1167	388	45098078	45133561	1	None	PP610, FLJ20185k, Protor-1
22	PRR5	ENSG00000186654	ENST00000403696	protein_coding	NOVEL	None	31682	532	176	45098098	45128197	1	None	PP610, FLJ20185k, Protor-1
22	PRR5	ENSG00000186654	ENST00000457960	protein_coding	KNOWN	None	31682	679	225	45098098	45132666	1	None	PP610, FLJ20185k, Protor-1
22	PRR5	ENSG00000186654	ENST00000431834	nonsense_mediated_decay	KNOWN	None	31682	369	122	45098099	45133321	1	None	PP610, FLJ20185k, Protor-1
22	PRR5	ENSG00000186654	ENST00000432916	nonsense_mediated_decay	KNOWN	None	31682	342	113	45098366	45133542	1	None	PP610, FLJ20185k, Protor-1
22	PRR5	ENSG00000186654	ENST00000477331	processed_transcript	KNOWN	None	31682	None	None	45098400	45133095	1	None	PP610, FLJ20185k, Protor-1
22	PRR5	ENSG00000186654	ENST00000455389	protein_coding	NOVEL	None	31682	1046	347	45126684	45133512	1	None	PP610, FLJ20185k, Protor-1
22	PRR5	ENSG00000186654	ENST00000495017	retained_intron	KNOWN	None	31682	None	None	45126764	45133561	1	None	PP610, FLJ20185k, Protor-1
22	PRR5	ENSG00000186654	ENST00000475850	retained_intron	KNOWN	None	31682	None	None	45129988	45133561	1	None	PP610, FLJ20185k, Protor-1
3	PRSS46	ENSG00000261603	ENST00000463091	protein_coding	PUTATIVE	CCDS54576	37325	525	174	46761073	46777919	-1	None	TESSP6
18	ME2	ENSG00000082212	ENST00000321341	protein_coding	KNOWN	CCDS11948	6984	1755	584	48405419	48474691	1	None	None
18	ME2	ENSG00000082212	ENST00000382927	protein_coding	KNOWN	CCDS54187	6984	1440	479	48405490	48474260	1	None	None
18	ME2	ENSG00000082212	ENST00000589330	retained_intron	KNOWN	None	6984	None	None	48443612	48447081	1	None	None
18	ME2	ENSG00000082212	ENST00000585680	processed_transcript	KNOWN	None	6984	None	None	48452230	48473815	1	None	None
18	ME2	ENSG00000082212	ENST00000591925	retained_intron	KNOWN	None	6984	None	None	48466500	48473524	1	None	None
10	PITRM1	ENSG00000107959	ENST00000490510	processed_transcript	KNOWN	None	17663	None	None	3179920	3180807	-1	None	MP1, KIAA1104, hMP1, PreP
10	PITRM1	ENSG00000107959	ENST00000464395	processed_transcript	KNOWN	None	17663	None	None	3179920	3191591	-1	None	MP1, KIAA1104, hMP1, PreP
10	PITRM1	ENSG00000107959	ENST00000224949	protein_coding	KNOWN	CCDS59208	17663	3114	1037	3179922	3214999	-1	None	MP1, KIAA1104, hMP1, PreP
10	PITRM1	ENSG00000107959	ENST00000380994	protein_coding	KNOWN	None	17663	1788	595	3179926	3200279	-1	None	MP1, KIAA1104, hMP1, PreP
10	PITRM1	ENSG00000107959	ENST00000455371	protein_coding	KNOWN	None	17663	555	184	3180883	3186558	-1	None	MP1, KIAA1104, hMP1, PreP
10	PITRM1	ENSG00000107959	ENST00000451454	protein_coding	KNOWN	None	17663	778	258	3183700	3190247	-1	None	MP1, KIAA1104, hMP1, PreP
10	PITRM1	ENSG00000107959	ENST00000424714	protein_coding	KNOWN	None	17663	261	86	3185675	3187901	-1	None	MP1, KIAA1104, hMP1, PreP
10	PITRM1	ENSG00000107959	ENST00000430362	protein_coding	KNOWN	None	17663	700	232	3193368	3201150	-1	None	MP1, KIAA1104, hMP1, PreP
10	PITRM1	ENSG00000107959	ENST00000488065	processed_transcript	KNOWN	None	17663	None	None	3205324	3207526	-1	None	MP1, KIAA1104, hMP1, PreP
10	PITRM1	ENSG00000107959	ENST00000451104	protein_coding	KNOWN	CCDS55700	17663	2820	939	3180016	3214974	-1	None	MP1, KIAA1104, hMP1, PreP
10	PITRM1	ENSG00000107959	ENST00000380989	protein_coding	KNOWN	CCDS55699	17663	3117	1038	3179922	3215003	-1	None	MP1, KIAA1104, hMP1, PreP
8	DPYSL2	ENSG00000092964	ENST00000521913	protein_coding	KNOWN	CCDS59096	3014	1611	536	26371791	26515689	1	None	DRP-2, DHPRP2, CRMP2, DRP2
8	DPYSL2	ENSG00000092964	ENST00000493789	protein_coding	PUTATIVE	None	3014	511	169	26434578	26441481	1	None	DRP-2, DHPRP2, CRMP2, DRP2
8	DPYSL2	ENSG00000092964	ENST00000311151	protein_coding	KNOWN	CCDS6051	3014	1719	572	26435359	26515694	1	None	DRP-2, DHPRP2, CRMP2, DRP2
8	DPYSL2	ENSG00000092964	ENST00000523027	protein_coding	KNOWN	CCDS59096	3014	1611	536	26435921	26513543	1	None	DRP-2, DHPRP2, CRMP2, DRP2
8	DPYSL2	ENSG00000092964	ENST00000523690	processed_transcript	PUTATIVE	None	3014	None	None	26477024	26481689	1	None	DRP-2, DHPRP2, CRMP2, DRP2
8	DPYSL2	ENSG00000092964	ENST00000523093	retained_intron	KNOWN	None	3014	None	None	26481365	26492352	1	None	DRP-2, DHPRP2, CRMP2, DRP2
8	DPYSL2	ENSG00000092964	ENST00000521983	processed_transcript	KNOWN	None	3014	None	None	26484731	26500661	1	None	DRP-2, DHPRP2, CRMP2, DRP2
8	DPYSL2	ENSG00000092964	ENST00000474808	processed_transcript	PUTATIVE	None	3014	None	None	26495046	26501038	1	None	DRP-2, DHPRP2, CRMP2, DRP2
1	KCNA2	ENSG00000177301	ENST00000369770	protein_coding	PUTATIVE	CCDS55625	6220	1071	356	111136202	111174096	-1	None	Kv1.2, HK4
1	KCNA2	ENSG00000177301	ENST00000485317	protein_coding	KNOWN	CCDS827	6220	1500	499	111144633	111150051	-1	None	Kv1.2, HK4
1	KCNA2	ENSG00000177301	ENST00000316361	protein_coding	KNOWN	CCDS827	6220	1500	499	111145876	111148975	-1	None	Kv1.2, HK4
1	KCNA2	ENSG00000177301	ENST00000525120	processed_transcript	KNOWN	None	6220	None	None	111146618	111148986	-1	None	Kv1.2, HK4
1	KCNA2	ENSG00000177301	ENST00000440270	protein_coding	KNOWN	CCDS827	6220	1500	499	111145777	111148345	-1	None	Kv1.2, HK4
10	None	ENSG00000233805	ENST00000426885	processed_pseudogene	KNOWN	None	None	None	None	55526160	55526374	1	None	None
10	None	ENSG00000263921	ENST00000583830	miRNA	NOVEL	None	None	None	None	56107723	56107774	-1	None	None
10	RNU6-687P	ENSG00000252252	ENST00000516443	snRNA	KNOWN	None	47650	None	None	56212183	56212271	-1	None	None
7	None	ENSG00000251999	ENST00000516190	snoRNA	NOVEL	None	None	None	None	32831426	32831558	1	None	None
12	CLEC2D	ENSG00000069493	ENST00000479410	protein_coding	PUTATIVE	None	14351	209	68	9809270	9840660	1	None	LLT1, CLAX, OCIL
12	CLEC2D	ENSG00000069493	ENST00000536355	nonsense_mediated_decay	KNOWN	None	14351	243	80	9817565	9845479	1	None	LLT1, CLAX, OCIL
12	CLEC2D	ENSG00000069493	ENST00000487752	processed_transcript	KNOWN	None	14351	None	None	9821233	9833646	1	None	LLT1, CLAX, OCIL
12	CLEC2D	ENSG00000069493	ENST00000261340	protein_coding	KNOWN	CCDS31741	14351	585	194	9822309	9847725	1	None	LLT1, CLAX, OCIL
12	CLEC2D	ENSG00000069493	ENST00000290855	protein_coding	KNOWN	CCDS8602	14351	576	191	9822309	9847731	1	None	LLT1, CLAX, OCIL
12	CLEC2D	ENSG00000069493	ENST00000325960	nonsense_mediated_decay	KNOWN	None	14351	369	122	9822309	9847734	1	None	LLT1, CLAX, OCIL
12	CLEC2D	ENSG00000069493	ENST00000492359	nonsense_mediated_decay	KNOWN	None	14351	165	54	9822313	9845527	1	None	LLT1, CLAX, OCIL
12	CLEC2D	ENSG00000069493	ENST00000444971	nonsense_mediated_decay	KNOWN	None	14351	369	122	9822313	9848413	1	None	LLT1, CLAX, OCIL
12	CLEC2D	ENSG00000069493	ENST00000479877	nonsense_mediated_decay	KNOWN	None	14351	465	154	9822324	9847725	1	None	LLT1, CLAX, OCIL
12	CLEC2D	ENSG00000069493	ENST00000545918	protein_coding	PUTATIVE	CCDS55802	14351	288	95	9822331	9847397	1	None	LLT1, CLAX, OCIL
12	CLEC2D	ENSG00000069493	ENST00000543300	protein_coding	KNOWN	CCDS55800	14351	399	132	9822331	9847397	1	None	LLT1, CLAX, OCIL
12	CLEC2D	ENSG00000069493	ENST00000261339	protein_coding	KNOWN	CCDS55801	14351	465	154	9822331	9847470	1	None	LLT1, CLAX, OCIL
12	CLEC2D	ENSG00000069493	ENST00000466035	protein_coding	PUTATIVE	None	14351	423	140	9822349	9846075	1	None	LLT1, CLAX, OCIL
12	CLEC2D	ENSG00000069493	ENST00000476198	nonsense_mediated_decay	KNOWN	None	14351	243	80	9826604	9845932	1	None	LLT1, CLAX, OCIL
12	CLEC2D	ENSG00000069493	ENST00000430909	protein_coding	PUTATIVE	None	14351	522	173	9833521	9847725	1	None	LLT1, CLAX, OCIL
12	CLEC2D	ENSG00000069493	ENST00000544322	protein_coding	PUTATIVE	None	14351	321	106	9833536	9847465	1	None	LLT1, CLAX, OCIL
12	CLEC2D	ENSG00000069493	ENST00000460309	protein_coding	PUTATIVE	None	14351	402	133	9840497	9847702	1	None	LLT1, CLAX, OCIL
10	None	ENSG00000234173	ENST00000422842	antisense	KNOWN	None	None	None	None	56245990	56415811	1	None	None
4	VTI1BP2	ENSG00000213434	ENST00000394154	processed_pseudogene	KNOWN	None	43728	None	None	184404643	184405338	1	None	None
5	CDC25C	ENSG00000158402	ENST00000323760	protein_coding	KNOWN	CCDS4202	1727	1422	473	137620954	137667524	-1	CDC25	PPP1R60
5	CDC25C	ENSG00000158402	ENST00000415130	protein_coding	KNOWN	CCDS4203	1727	1203	400	137621262	137667483	-1	CDC25	PPP1R60
5	CDC25C	ENSG00000158402	ENST00000513970	protein_coding	KNOWN	CCDS4202	1727	1422	473	137621269	137674044	-1	CDC25	PPP1R60
5	CDC25C	ENSG00000158402	ENST00000514555	protein_coding	PUTATIVE	None	1727	1332	443	137621381	137666869	-1	CDC25	PPP1R60
5	CDC25C	ENSG00000158402	ENST00000514017	protein_coding	NOVEL	None	1727	774	257	137621433	137627803	-1	CDC25	PPP1R60
5	CDC25C	ENSG00000158402	ENST00000503022	protein_coding	KNOWN	None	1727	747	248	137627674	137667561	-1	CDC25	PPP1R60
5	CDC25C	ENSG00000158402	ENST00000510119	protein_coding	PUTATIVE	None	1727	510	169	137661504	137674014	-1	CDC25	PPP1R60
5	CDC25C	ENSG00000158402	ENST00000504831	retained_intron	KNOWN	None	1727	None	None	137661607	137664571	-1	CDC25	PPP1R60
5	CDC25C	ENSG00000158402	ENST00000356505	protein_coding	KNOWN	None	1727	1332	443	137620959	137667516	-1	CDC25	PPP1R60
5	CDC25C	ENSG00000158402	ENST00000357274	protein_coding	KNOWN	None	1727	1293	430	137620959	137667516	-1	CDC25	PPP1R60
5	CDC25C	ENSG00000158402	ENST00000348983	protein_coding	KNOWN	CCDS4203	1727	1203	400	137620959	137667516	-1	CDC25	PPP1R60
17	GFAP	ENSG00000131095	ENST00000592065	processed_transcript	KNOWN	None	4235	None	None	42982376	42985482	-1	None	FLJ45472
17	GFAP	ENSG00000131095	ENST00000253408	protein_coding	KNOWN	CCDS11491	4235	1299	432	42982994	42992920	-1	None	FLJ45472
17	GFAP	ENSG00000131095	ENST00000589701	retained_intron	KNOWN	None	4235	None	None	42984253	42985590	-1	None	FLJ45472
17	GFAP	ENSG00000131095	ENST00000592706	processed_transcript	KNOWN	None	4235	None	None	42984307	42987120	-1	None	FLJ45472
17	GFAP	ENSG00000131095	ENST00000588735	protein_coding	PUTATIVE	None	4235	177	58	42984342	42992868	-1	None	FLJ45472
17	GFAP	ENSG00000131095	ENST00000585543	retained_intron	KNOWN	None	4235	None	None	42984596	42988883	-1	None	FLJ45472
17	GFAP	ENSG00000131095	ENST00000591880	protein_coding	PUTATIVE	None	4235	306	101	42985018	42988019	-1	None	FLJ45472
17	GFAP	ENSG00000131095	ENST00000586125	protein_coding	PUTATIVE	None	4235	193	63	42985467	42988004	-1	None	FLJ45472
17	GFAP	ENSG00000131095	ENST00000588640	processed_transcript	KNOWN	None	4235	None	None	42985503	42990302	-1	None	FLJ45472
17	GFAP	ENSG00000131095	ENST00000435360	protein_coding	KNOWN	CCDS45708	4235	1296	431	42987035	42992862	-1	None	FLJ45472
17	GFAP	ENSG00000131095	ENST00000586793	protein_coding	NOVEL	CCDS59296	4235	1317	438	42987717	42992862	-1	None	FLJ45472
17	GFAP	ENSG00000131095	ENST00000592320	protein_coding	PUTATIVE	None	4235	744	247	42987987	42992872	-1	None	FLJ45472
17	GFAP	ENSG00000131095	ENST00000587997	protein_coding	PUTATIVE	None	4235	571	189	42988636	42991064	-1	None	FLJ45472
17	GFAP	ENSG00000131095	ENST00000376990	nonsense_mediated_decay	KNOWN	None	4235	540	179	42988671	42992868	-1	None	FLJ45472
17	GFAP	ENSG00000131095	ENST00000591719	processed_transcript	KNOWN	None	4235	None	None	42988780	42990135	-1	None	FLJ45472
17	GFAP	ENSG00000131095	ENST00000590922	retained_intron	KNOWN	None	4235	None	None	42989040	42991066	-1	None	FLJ45472
17	GFAP	ENSG00000131095	ENST00000588957	protein_coding	PUTATIVE	None	4235	172	56	42989042	42993319	-1	None	FLJ45472
17	GFAP	ENSG00000131095	ENST00000588316	protein_coding	NOVEL	None	4235	785	260	42989065	42992856	-1	None	FLJ45472
17	GFAP	ENSG00000131095	ENST00000585728	nonsense_mediated_decay	KNOWN	None	4235	186	61	42990681	42992868	-1	None	FLJ45472
17	GFAP	ENSG00000131095	ENST00000586127	protein_coding	PUTATIVE	None	4235	36	11	42990720	42991744	-1	None	FLJ45472
17	GFAP	ENSG00000131095	ENST00000591327	processed_transcript	KNOWN	None	4235	None	None	42990774	42992868	-1	None	FLJ45472
17	GFAP	ENSG00000131095	ENST00000588037	protein_coding	PUTATIVE	None	4235	568	188	42991167	42992871	-1	None	FLJ45472
17	GFAP	ENSG00000131095	ENST00000593179	protein_coding	KNOWN	None	4235	26	7	42992829	42994305	-1	None	FLJ45472
12	DYNLL1	ENSG00000088986	ENST00000392509	protein_coding	KNOWN	CCDS9200	15476	270	89	120907653	120936296	1	DNCL1	hdlc1, DLC1, PIN, LC8, DLC8
12	DYNLL1	ENSG00000088986	ENST00000549649	protein_coding	KNOWN	None	15476	126	41	120907660	120934350	1	DNCL1	hdlc1, DLC1, PIN, LC8, DLC8
12	DYNLL1	ENSG00000088986	ENST00000548342	protein_coding	KNOWN	CCDS9200	15476	270	89	120907686	120936040	1	DNCL1	hdlc1, DLC1, PIN, LC8, DLC8
12	DYNLL1	ENSG00000088986	ENST00000242577	protein_coding	KNOWN	CCDS9200	15476	270	89	120933859	120936296	1	DNCL1	hdlc1, DLC1, PIN, LC8, DLC8
12	DYNLL1	ENSG00000088986	ENST00000548214	protein_coding	PUTATIVE	None	15476	204	67	120933885	120934699	1	DNCL1	hdlc1, DLC1, PIN, LC8, DLC8
12	DYNLL1	ENSG00000088986	ENST00000392508	protein_coding	KNOWN	CCDS9200	15476	270	89	120933894	120936294	1	DNCL1	hdlc1, DLC1, PIN, LC8, DLC8
12	DYNLL1	ENSG00000088986	ENST00000550178	protein_coding	PUTATIVE	None	15476	204	67	120933904	120934484	1	DNCL1	hdlc1, DLC1, PIN, LC8, DLC8
12	DYNLL1	ENSG00000088986	ENST00000550845	protein_coding	PUTATIVE	None	15476	204	67	120933916	120935476	1	DNCL1	hdlc1, DLC1, PIN, LC8, DLC8
12	DYNLL1	ENSG00000088986	ENST00000549989	protein_coding	KNOWN	CCDS9200	15476	270	89	120933916	120936153	1	DNCL1	hdlc1, DLC1, PIN, LC8, DLC8
12	DYNLL1	ENSG00000088986	ENST00000552870	protein_coding	PUTATIVE	None	15476	144	47	120933916	120936275	1	DNCL1	hdlc1, DLC1, PIN, LC8, DLC8
12	DYNLL1	ENSG00000088986	ENST00000552316	processed_transcript	PUTATIVE	None	15476	None	None	120935627	120936296	1	DNCL1	hdlc1, DLC1, PIN, LC8, DLC8
7	GPC2	ENSG00000213420	ENST00000292377	protein_coding	KNOWN	CCDS5689	4450	1740	579	99767229	99774990	-1	None	cerebroglycan, FLJ38962, DKFZp547M109
7	GPC2	ENSG00000213420	ENST00000471050	processed_transcript	KNOWN	None	4450	None	None	99767252	99772347	-1	None	cerebroglycan, FLJ38962, DKFZp547M109
7	GPC2	ENSG00000213420	ENST00000486702	retained_intron	KNOWN	None	4450	None	None	99768692	99769841	-1	None	cerebroglycan, FLJ38962, DKFZp547M109
7	GPC2	ENSG00000213420	ENST00000490629	retained_intron	KNOWN	None	4450	None	None	99769274	99773408	-1	None	cerebroglycan, FLJ38962, DKFZp547M109
7	GPC2	ENSG00000213420	ENST00000480087	processed_transcript	KNOWN	None	4450	None	None	99769813	99774992	-1	None	cerebroglycan, FLJ38962, DKFZp547M109
7	GPC2	ENSG00000213420	ENST00000471717	retained_intron	KNOWN	None	4450	None	None	99771081	99774995	-1	None	cerebroglycan, FLJ38962, DKFZp547M109
7	GPC2	ENSG00000213420	ENST00000482569	processed_transcript	KNOWN	None	4450	None	None	99773852	99774992	-1	None	cerebroglycan, FLJ38962, DKFZp547M109
19	DOCK6	ENSG00000130158	ENST00000586702	processed_transcript	KNOWN	None	19189	None	None	11309971	11313989	-1	None	KIAA1395, ZIR1
19	DOCK6	ENSG00000130158	ENST00000294618	protein_coding	KNOWN	CCDS45975	19189	6144	2047	11309971	11373128	-1	None	KIAA1395, ZIR1
19	DOCK6	ENSG00000130158	ENST00000587734	protein_coding	PUTATIVE	None	19189	297	98	11309979	11312639	-1	None	KIAA1395, ZIR1
19	DOCK6	ENSG00000130158	ENST00000587656	protein_coding	NOVEL	None	19189	4009	1335	11310173	11347173	-1	None	KIAA1395, ZIR1
19	DOCK6	ENSG00000130158	ENST00000588666	protein_coding	NOVEL	None	19189	444	147	11312758	11319620	-1	None	KIAA1395, ZIR1
19	DOCK6	ENSG00000130158	ENST00000592463	processed_transcript	KNOWN	None	19189	None	None	11316857	11319434	-1	None	KIAA1395, ZIR1
19	DOCK6	ENSG00000130158	ENST00000588429	retained_intron	KNOWN	None	19189	None	None	11326287	11327972	-1	None	KIAA1395, ZIR1
19	DOCK6	ENSG00000130158	ENST00000592403	retained_intron	KNOWN	None	19189	None	None	11327352	11327944	-1	None	KIAA1395, ZIR1
19	DOCK6	ENSG00000130158	ENST00000592550	retained_intron	KNOWN	None	19189	None	None	11332662	11333000	-1	None	KIAA1395, ZIR1
19	DOCK6	ENSG00000130158	ENST00000590680	protein_coding	NOVEL	None	19189	1391	462	11338013	11348966	-1	None	KIAA1395, ZIR1
19	DOCK6	ENSG00000130158	ENST00000590452	retained_intron	KNOWN	None	19189	None	None	11339516	11340008	-1	None	KIAA1395, ZIR1
19	DOCK6	ENSG00000130158	ENST00000585904	protein_coding	NOVEL	None	19189	554	183	11339677	11346430	-1	None	KIAA1395, ZIR1
19	DOCK6	ENSG00000130158	ENST00000591750	retained_intron	KNOWN	None	19189	None	None	11346575	11349597	-1	None	KIAA1395, ZIR1
19	DOCK6	ENSG00000130158	ENST00000585609	retained_intron	KNOWN	None	19189	None	None	11357934	11373157	-1	None	KIAA1395, ZIR1
19	DOCK6	ENSG00000130158	ENST00000586482	retained_intron	KNOWN	None	19189	None	None	11363080	11364343	-1	None	KIAA1395, ZIR1
19	DOCK6	ENSG00000130158	ENST00000587572	retained_intron	KNOWN	None	19189	None	None	11363558	11364724	-1	None	KIAA1395, ZIR1
19	DOCK6	ENSG00000130158	ENST00000319867	protein_coding	KNOWN	None	19189	4161	1386	11309973	11348763	-1	None	KIAA1395, ZIR1
19	DNASE2	ENSG00000105612	ENST00000222219	protein_coding	KNOWN	CCDS12284	2960	1083	360	12986025	12992282	-1	DNL, DNL2	None
19	DNASE2	ENSG00000105612	ENST00000588777	retained_intron	KNOWN	None	2960	None	None	12986750	12989494	-1	DNL, DNL2	None
19	DNASE2	ENSG00000105612	ENST00000592506	protein_coding	NOVEL	None	2960	654	217	12987068	12992280	-1	DNL, DNL2	None
19	DNASE2	ENSG00000105612	ENST00000586547	retained_intron	KNOWN	None	2960	None	None	12988852	12989648	-1	DNL, DNL2	None
19	DNASE2	ENSG00000105612	ENST00000538460	protein_coding	KNOWN	None	2960	918	305	12986759	12992263	-1	DNL, DNL2	None
7	None	ENSG00000231952	ENST00000426647	unprocessed_pseudogene	KNOWN	None	None	None	None	32852369	32878182	1	None	None
1	FAM129A	ENSG00000135842	ENST00000417056	protein_coding	KNOWN	None	16784	301	99	184759858	184775119	-1	C1orf24	NIBAN, GIG39
1	FAM129A	ENSG00000135842	ENST00000367511	protein_coding	KNOWN	CCDS1364	16784	2787	928	184760164	184943682	-1	C1orf24	NIBAN, GIG39
1	FAM129A	ENSG00000135842	ENST00000487074	processed_transcript	KNOWN	None	16784	None	None	184763252	184837175	-1	C1orf24	NIBAN, GIG39
1	FAM129A	ENSG00000135842	ENST00000461167	processed_transcript	KNOWN	None	16784	None	None	184792784	184837692	-1	C1orf24	NIBAN, GIG39
1	FAM129A	ENSG00000135842	ENST00000496299	processed_transcript	KNOWN	None	16784	None	None	184856873	184859319	-1	C1orf24	NIBAN, GIG39
3	PRSS45	ENSG00000188086	ENST00000423292	nonsense_mediated_decay	KNOWN	None	30717	333	110	46783582	46854048	-1	None	TESSP5
3	PRSS45	ENSG00000188086	ENST00000442359	protein_coding	KNOWN	CCDS46815	30717	687	228	46783840	46786245	-1	None	TESSP5
11	C11orf44	ENSG00000175728	ENST00000317019	protein_coding	PUTATIVE	None	26805	369	122	130542851	130587247	1	None	FLJ39058
HSCHR6_MHC_DBB	HLA-U	ENSG00000233239	ENST00000426349	unprocessed_pseudogene	KNOWN	None	23477	None	None	29891686	29891871	1	HLA-21	Em:AB023056.13
7	None	ENSG00000226230	ENST00000442074	processed_pseudogene	KNOWN	None	None	None	None	78115847	78116345	1	None	None
1	KCNA3	ENSG00000177272	ENST00000369769	protein_coding	KNOWN	CCDS828	6221	1728	575	111214310	111217655	-1	None	Kv1.3, MK3, HLK3, HPCN3
HSCHR6_MHC_DBB	HCG4P5	ENSG00000225114	ENST00000428199	unprocessed_pseudogene	KNOWN	None	22925	None	None	29899816	29900808	-1	None	HCGIV-05, HCGIV.4, HCGIV-5
HSCHR6_MHC_QBL	FLOT1	ENSG00000206480	ENST00000481843	retained_intron	KNOWN	None	3757	None	None	30685021	30698162	-1	None	None
HSCHR6_MHC_QBL	FLOT1	ENSG00000206480	ENST00000383562	protein_coding	KNOWN	None	3757	1284	427	30685021	30700042	-1	None	None
HSCHR6_MHC_QBL	FLOT1	ENSG00000206480	ENST00000456042	protein_coding	KNOWN	None	3757	716	237	30688232	30699616	-1	None	None
HSCHR6_MHC_QBL	FLOT1	ENSG00000206480	ENST00000463572	retained_intron	KNOWN	None	3757	None	None	30688304	30698103	-1	None	None
HSCHR6_MHC_QBL	FLOT1	ENSG00000206480	ENST00000442932	protein_coding	KNOWN	None	3757	757	251	30688380	30699809	-1	None	None
HSCHR6_MHC_QBL	FLOT1	ENSG00000206480	ENST00000496175	processed_transcript	KNOWN	None	3757	None	None	30697467	30700041	-1	None	None
HSCHR6_MHC_QBL	FLOT1	ENSG00000206480	ENST00000455034	protein_coding	KNOWN	None	3757	435	144	30697470	30699666	-1	None	None
HSCHR6_MHC_QBL	FLOT1	ENSG00000206480	ENST00000454773	protein_coding	KNOWN	None	3757	705	234	30697485	30699585	-1	None	None
HSCHR6_MHC_QBL	FLOT1	ENSG00000206480	ENST00000465796	retained_intron	KNOWN	None	3757	None	None	30697563	30700015	-1	None	None
HSCHR6_MHC_QBL	FLOT1	ENSG00000206480	ENST00000411944	protein_coding	KNOWN	None	3757	578	191	30697564	30699512	-1	None	None
HSCHR6_MHC_QBL	FLOT1	ENSG00000206480	ENST00000428438	protein_coding	KNOWN	None	3757	557	184	30697818	30699833	-1	None	None
HSCHR6_MHC_QBL	FLOT1	ENSG00000206480	ENST00000488811	retained_intron	KNOWN	None	3757	None	None	30698663	30699986	-1	None	None
HSCHR6_MHC_DBB	HLA-W	ENSG00000234849	ENST00000451878	unprocessed_pseudogene	KNOWN	None	23425	None	None	29914324	29916298	1	HLA-80	None
5	KCNN2	ENSG00000080709	ENST00000512097	protein_coding	KNOWN	CCDS4114	6291	1740	579	113696642	113832337	1	None	KCa2.2, hSK2
5	KCNN2	ENSG00000080709	ENST00000507750	processed_transcript	KNOWN	None	6291	None	None	113698804	113831643	1	None	KCa2.2, hSK2
5	KCNN2	ENSG00000080709	ENST00000503706	protein_coding	KNOWN	CCDS43352	6291	696	231	113769227	113832213	1	None	KCa2.2, hSK2
5	KCNN2	ENSG00000080709	ENST00000505491	nonsense_mediated_decay	KNOWN	None	6291	288	95	113769275	113829139	1	None	KCa2.2, hSK2
5	KCNN2	ENSG00000080709	ENST00000506812	retained_intron	KNOWN	None	6291	None	None	113822368	113831755	1	None	KCa2.2, hSK2
5	KCNN2	ENSG00000080709	ENST00000264773	protein_coding	KNOWN	CCDS4114	6291	1740	579	113698016	113832197	1	None	KCa2.2, hSK2
16	RSPRY1	ENSG00000159579	ENST00000562439	protein_coding	KNOWN	None	29420	438	145	57220049	57243021	1	None	KIAA1972
16	RSPRY1	ENSG00000159579	ENST00000564435	protein_coding	KNOWN	None	29420	439	145	57220193	57243022	1	None	KIAA1972
16	RSPRY1	ENSG00000159579	ENST00000562959	protein_coding	PUTATIVE	None	29420	136	44	57220196	57243091	1	None	KIAA1972
16	RSPRY1	ENSG00000159579	ENST00000394420	protein_coding	KNOWN	CCDS10775	29420	1731	576	57220203	57274387	1	None	KIAA1972
16	RSPRY1	ENSG00000159579	ENST00000568505	protein_coding	KNOWN	None	29420	363	120	57220219	57241982	1	None	KIAA1972
16	RSPRY1	ENSG00000159579	ENST00000566352	retained_intron	KNOWN	None	29420	None	None	57220223	57239181	1	None	KIAA1972
16	RSPRY1	ENSG00000159579	ENST00000537866	protein_coding	KNOWN	CCDS10775	29420	1731	576	57220245	57273869	1	None	KIAA1972
16	RSPRY1	ENSG00000159579	ENST00000561641	protein_coding	NOVEL	None	29420	517	171	57238509	57243007	1	None	KIAA1972
16	RSPRY1	ENSG00000159579	ENST00000562768	retained_intron	KNOWN	None	29420	None	None	57241962	57254736	1	None	KIAA1972
16	RSPRY1	ENSG00000159579	ENST00000568920	retained_intron	KNOWN	None	29420	None	None	57246915	57250414	1	None	KIAA1972
16	RSPRY1	ENSG00000159579	ENST00000564530	retained_intron	KNOWN	None	29420	None	None	57253584	57274358	1	None	KIAA1972
16	RSPRY1	ENSG00000159579	ENST00000563073	processed_transcript	KNOWN	None	29420	None	None	57258334	57272958	1	None	KIAA1972
HSCHR6_MHC_DBB	MICD	ENSG00000226713	ENST00000458131	unprocessed_pseudogene	KNOWN	None	7093	None	None	29928530	29930192	-1	None	PERB11.4
10	NEFMP1	ENSG00000224697	ENST00000443423	processed_pseudogene	KNOWN	None	45030	None	None	56359438	56360443	1	None	None
HSCHR6_MHC_DBB	HCG9	ENSG00000234313	ENST00000422999	processed_transcript	KNOWN	None	21243	None	None	29932826	29936125	1	None	PERB11, HCGIX, HCGIX4, HCGIX-4
10	MIR548F1	ENSG00000221594	ENST00000408667	miRNA	KNOWN	None	35305	None	None	56367634	56367717	-1	MIRN548F1	hsa-mir-548f-1
HSCHR6_MHC_SSTO	CUTA	ENSG00000226492	ENST00000480120	retained_intron	KNOWN	None	21101	None	None	33523607	33525054	-1	C6orf82, ACHAP	None
HSCHR6_MHC_SSTO	CUTA	ENSG00000226492	ENST00000487148	protein_coding	PUTATIVE	None	21101	471	156	33523607	33525208	-1	C6orf82, ACHAP	None
HSCHR6_MHC_SSTO	CUTA	ENSG00000226492	ENST00000461913	nonsense_mediated_decay	KNOWN	None	21101	129	42	33523607	33525258	-1	C6orf82, ACHAP	None
HSCHR6_MHC_SSTO	CUTA	ENSG00000226492	ENST00000440930	protein_coding	KNOWN	None	21101	540	179	33523607	33525287	-1	C6orf82, ACHAP	None
HSCHR6_MHC_SSTO	CUTA	ENSG00000226492	ENST00000435267	protein_coding	NOVEL	None	21101	597	198	33523607	33525482	-1	C6orf82, ACHAP	None
HSCHR6_MHC_SSTO	CUTA	ENSG00000226492	ENST00000480677	retained_intron	KNOWN	None	21101	None	None	33523707	33524708	-1	C6orf82, ACHAP	None
HSCHR6_MHC_SSTO	CUTA	ENSG00000226492	ENST00000467431	retained_intron	KNOWN	None	21101	None	None	33523715	33525223	-1	C6orf82, ACHAP	None
HSCHR6_MHC_SSTO	CUTA	ENSG00000226492	ENST00000464657	nonsense_mediated_decay	KNOWN	None	21101	335	110	33523715	33525307	-1	C6orf82, ACHAP	None
HSCHR6_MHC_SSTO	CUTA	ENSG00000226492	ENST00000486590	retained_intron	KNOWN	None	21101	None	None	33523726	33525273	-1	C6orf82, ACHAP	None
HSCHR6_MHC_SSTO	CUTA	ENSG00000226492	ENST00000468782	retained_intron	KNOWN	None	21101	None	None	33523784	33525235	-1	C6orf82, ACHAP	None
HSCHR6_MHC_SSTO	CUTA	ENSG00000226492	ENST00000485890	processed_transcript	KNOWN	None	21101	None	None	33525149	33525352	-1	C6orf82, ACHAP	None
10	None	ENSG00000236958	ENST00000414295	sense_intronic	KNOWN	None	None	None	None	56624434	56628882	-1	None	None
HSCHR6_MHC_DBB	DDX39BP2	ENSG00000228458	ENST00000449256	unprocessed_pseudogene	KNOWN	None	33461	None	None	29950935	29951331	1	BAT1P2	BPG309N1.15
13	TPT1	ENSG00000133112	ENST00000379056	protein_coding	PUTATIVE	None	12022	417	138	45911008	45915347	-1	None	TCTP, fortilin
13	TPT1	ENSG00000133112	ENST00000528619	protein_coding	NOVEL	None	12022	232	76	45911034	45913668	-1	None	TCTP, fortilin
13	TPT1	ENSG00000133112	ENST00000529421	processed_transcript	KNOWN	None	12022	None	None	45911188	45914537	-1	None	TCTP, fortilin
13	TPT1	ENSG00000133112	ENST00000484604	retained_intron	KNOWN	None	12022	None	None	45911199	45913983	-1	None	TCTP, fortilin
13	TPT1	ENSG00000133112	ENST00000533567	retained_intron	KNOWN	None	12022	None	None	45911312	45914393	-1	None	TCTP, fortilin
13	TPT1	ENSG00000133112	ENST00000490277	retained_intron	KNOWN	None	12022	None	None	45911312	45915290	-1	None	TCTP, fortilin
13	TPT1	ENSG00000133112	ENST00000530245	protein_coding	NOVEL	None	12022	232	76	45911313	45913668	-1	None	TCTP, fortilin
13	TPT1	ENSG00000133112	ENST00000530705	protein_coding	KNOWN	CCDS9397	12022	519	172	45911313	45915505	-1	None	TCTP, fortilin
13	TPT1	ENSG00000133112	ENST00000379060	protein_coding	NOVEL	None	12022	483	160	45911333	45915257	-1	None	TCTP, fortilin
13	TPT1	ENSG00000133112	ENST00000379055	protein_coding	PUTATIVE	None	12022	417	138	45911437	45915293	-1	None	TCTP, fortilin
13	TPT1	ENSG00000133112	ENST00000309246	protein_coding	PUTATIVE	None	12022	567	188	45912320	45915221	-1	None	TCTP, fortilin
13	TPT1	ENSG00000133112	ENST00000527226	protein_coding	NOVEL	None	12022	486	161	45912822	45915293	-1	None	TCTP, fortilin
13	TPT1	ENSG00000133112	ENST00000442760	retained_intron	KNOWN	None	12022	None	None	45914161	45915318	-1	None	TCTP, fortilin
1	CD53	ENSG00000143119	ENST00000271324	protein_coding	KNOWN	CCDS829	1686	660	219	111415776	111442550	1	MOX44	TSPAN25
1	CD53	ENSG00000143119	ENST00000471220	processed_transcript	KNOWN	None	1686	None	None	111415805	111435477	1	MOX44	TSPAN25
1	CD53	ENSG00000143119	ENST00000476408	processed_transcript	KNOWN	None	1686	None	None	111422859	111442136	1	MOX44	TSPAN25
1	CD53	ENSG00000143119	ENST00000497404	processed_transcript	KNOWN	None	1686	None	None	111436931	111442473	1	MOX44	TSPAN25
1	CD53	ENSG00000143119	ENST00000464329	processed_transcript	KNOWN	None	1686	None	None	111440292	111441938	1	MOX44	TSPAN25
1	CD53	ENSG00000143119	ENST00000429072	protein_coding	KNOWN	None	1686	483	160	111415775	111442198	1	MOX44	TSPAN25
20	RN7SL839P	ENSG00000266792	ENST00000582912	misc_RNA	KNOWN	None	46855	None	None	3261065	3261355	1	None	None
7	CDHR3	ENSG00000128536	ENST00000487084	processed_transcript	PUTATIVE	None	26308	None	None	105517242	105551044	1	None	FLJ44366, FLJ23834, CDH28
7	CDHR3	ENSG00000128536	ENST00000474330	processed_transcript	KNOWN	None	26308	None	None	105517264	105530549	1	None	FLJ44366, FLJ23834, CDH28
7	CDHR3	ENSG00000128536	ENST00000470188	processed_transcript	KNOWN	None	26308	None	None	105517267	105672911	1	None	FLJ44366, FLJ23834, CDH28
7	CDHR3	ENSG00000128536	ENST00000488386	nonsense_mediated_decay	KNOWN	None	26308	186	61	105517550	105645042	1	None	FLJ44366, FLJ23834, CDH28
7	CDHR3	ENSG00000128536	ENST00000472116	processed_transcript	KNOWN	None	26308	None	None	105551485	105564629	1	None	FLJ44366, FLJ23834, CDH28
7	CDHR3	ENSG00000128536	ENST00000317716	protein_coding	KNOWN	CCDS47684	26308	2658	885	105603685	105674218	1	None	FLJ44366, FLJ23834, CDH28
7	CDHR3	ENSG00000128536	ENST00000478080	protein_coding	PUTATIVE	None	26308	2394	797	105603705	105673261	1	None	FLJ44366, FLJ23834, CDH28
7	CDHR3	ENSG00000128536	ENST00000461766	processed_transcript	KNOWN	None	26308	None	None	105603728	105645132	1	None	FLJ44366, FLJ23834, CDH28
7	CDHR3	ENSG00000128536	ENST00000496633	nonsense_mediated_decay	KNOWN	None	26308	450	149	105603742	105653477	1	None	FLJ44366, FLJ23834, CDH28
7	CDHR3	ENSG00000128536	ENST00000466045	protein_coding	KNOWN	None	26308	957	318	105641921	105674219	1	None	FLJ44366, FLJ23834, CDH28
7	CDHR3	ENSG00000128536	ENST00000471910	retained_intron	KNOWN	None	26308	None	None	105641993	105645271	1	None	FLJ44366, FLJ23834, CDH28
7	CDHR3	ENSG00000128536	ENST00000466351	retained_intron	KNOWN	None	26308	None	None	105641994	105645270	1	None	FLJ44366, FLJ23834, CDH28
7	CDHR3	ENSG00000128536	ENST00000468477	protein_coding	NOVEL	None	26308	482	159	105655570	105662894	1	None	FLJ44366, FLJ23834, CDH28
7	CDHR3	ENSG00000128536	ENST00000468143	retained_intron	KNOWN	None	26308	None	None	105668874	105673209	1	None	FLJ44366, FLJ23834, CDH28
7	CDHR3	ENSG00000128536	ENST00000542731	protein_coding	KNOWN	None	26308	2658	885	105603657	105676877	1	None	FLJ44366, FLJ23834, CDH28
7	CDHR3	ENSG00000128536	ENST00000541203	protein_coding	KNOWN	None	26308	450	149	105603742	105655578	1	None	FLJ44366, FLJ23834, CDH28
7	CDHR3	ENSG00000128536	ENST00000343407	protein_coding	KNOWN	None	26308	840	279	105603657	105676877	1	None	FLJ44366, FLJ23834, CDH28
20	RNU6-1019P	ENSG00000201294	ENST00000364424	snRNA	KNOWN	None	47982	None	None	3340683	3340789	1	None	None
6	TAF11	ENSG00000064995	ENST00000361288	protein_coding	KNOWN	CCDS4797	11544	636	211	34845555	34855866	-1	TAF2I	TAFII28
6	TAF11	ENSG00000064995	ENST00000420584	protein_coding	KNOWN	CCDS59014	11544	465	154	34845750	34855819	-1	TAF2I	TAFII28
10	None	ENSG00000270075	ENST00000472915	antisense	KNOWN	None	None	None	None	106071899	106073639	1	None	None
10	None	ENSG00000228261	ENST00000434792	lincRNA	KNOWN	None	None	None	None	106083127	106086762	1	None	None
22	NIPSNAP1	ENSG00000184117	ENST00000216121	protein_coding	KNOWN	CCDS13860	7827	855	284	29950797	29977326	-1	None	None
22	NIPSNAP1	ENSG00000184117	ENST00000415100	protein_coding	NOVEL	None	7827	661	219	29957159	29977063	-1	None	None
22	NIPSNAP1	ENSG00000184117	ENST00000437094	protein_coding	PUTATIVE	None	7827	207	68	29957159	29977316	-1	None	None
22	NIPSNAP1	ENSG00000184117	ENST00000455496	nonsense_mediated_decay	KNOWN	None	7827	387	128	29957619	29977082	-1	None	None
22	NIPSNAP1	ENSG00000184117	ENST00000496944	retained_intron	KNOWN	None	7827	None	None	29965855	29977089	-1	None	None
22	NIPSNAP1	ENSG00000184117	ENST00000494966	processed_transcript	KNOWN	None	7827	None	None	29975746	29977015	-1	None	None
1	HCRTR1	ENSG00000121764	ENST00000485464	processed_transcript	KNOWN	None	4848	None	None	32083287	32089350	1	None	OX1R
1	HCRTR1	ENSG00000121764	ENST00000468521	processed_transcript	KNOWN	None	4848	None	None	32083287	32093214	1	None	OX1R
1	HCRTR1	ENSG00000121764	ENST00000373706	protein_coding	KNOWN	CCDS344	4848	1278	425	32084641	32092792	1	None	OX1R
1	HCRTR1	ENSG00000121764	ENST00000373705	protein_coding	KNOWN	None	4848	1170	389	32084794	32098119	1	None	OX1R
1	HCRTR1	ENSG00000121764	ENST00000403528	protein_coding	KNOWN	CCDS344	4848	1278	425	32083301	32092919	1	None	OX1R
HSCHR6_MHC_QBL	RPS18	ENSG00000096150	ENST00000211372	protein_coding	KNOWN	None	10401	459	152	33168626	33173129	1	D6S218E	KE3, KE-3, HKE3, S18
HSCHR6_MHC_QBL	RPS18	ENSG00000096150	ENST00000477055	protein_coding	KNOWN	None	10401	249	82	33168626	33173129	1	D6S218E	KE3, KE-3, HKE3, S18
HSCHR6_MHC_QBL	RPS18	ENSG00000096150	ENST00000481330	retained_intron	KNOWN	None	10401	None	None	33168704	33173124	1	D6S218E	KE3, KE-3, HKE3, S18
HSCHR6_MHC_QBL	RPS18	ENSG00000096150	ENST00000476288	protein_coding	KNOWN	None	10401	249	82	33168712	33173129	1	D6S218E	KE3, KE-3, HKE3, S18
HSCHR6_MHC_QBL	RPS18	ENSG00000096150	ENST00000464447	retained_intron	KNOWN	None	10401	None	None	33168715	33173124	1	D6S218E	KE3, KE-3, HKE3, S18
HSCHR6_MHC_QBL	RPS18	ENSG00000096150	ENST00000470852	retained_intron	KNOWN	None	10401	None	None	33168748	33173129	1	D6S218E	KE3, KE-3, HKE3, S18
HSCHR6_MHC_QBL	RPS18	ENSG00000096150	ENST00000489474	retained_intron	KNOWN	None	10401	None	None	33171940	33173129	1	D6S218E	KE3, KE-3, HKE3, S18
HSCHR6_MHC_QBL	RPS18	ENSG00000096150	ENST00000477733	retained_intron	KNOWN	None	10401	None	None	33172485	33173129	1	D6S218E	KE3, KE-3, HKE3, S18
19	ZNF430	ENSG00000118620	ENST00000261560	protein_coding	KNOWN	CCDS32978	20808	1713	570	21203426	21242856	1	None	FLJ13659
19	ZNF430	ENSG00000118620	ENST00000599548	protein_coding	PUTATIVE	None	20808	342	113	21203440	21236350	1	None	FLJ13659
19	ZNF430	ENSG00000118620	ENST00000594110	protein_coding	PUTATIVE	None	20808	385	127	21203456	21232373	1	None	FLJ13659
19	ZNF430	ENSG00000118620	ENST00000595833	retained_intron	KNOWN	None	20808	None	None	21203463	21216523	1	None	FLJ13659
19	ZNF430	ENSG00000118620	ENST00000595401	protein_coding	PUTATIVE	None	20808	327	108	21203523	21219608	1	None	FLJ13659
19	ZNF430	ENSG00000118620	ENST00000597922	protein_coding	PUTATIVE	None	20808	220	72	21240611	21241252	1	None	FLJ13659
4	None	ENSG00000232648	ENST00000457303	antisense	KNOWN	None	None	None	None	184416091	184425647	-1	None	None
4	None	ENSG00000239116	ENST00000459504	snoRNA	NOVEL	None	None	None	None	184503348	184503454	-1	None	None
4	RNU6-479P	ENSG00000252157	ENST00000516348	snRNA	KNOWN	None	47442	None	None	184574725	184574829	-1	None	None
4	RNU6-335P	ENSG00000201433	ENST00000364563	snRNA	KNOWN	None	47298	None	None	184596756	184596868	-1	None	None
4	RNU6-1053P	ENSG00000251739	ENST00000515930	snRNA	KNOWN	None	48016	None	None	184627084	184627184	1	None	None
9	TUBB4B	ENSG00000188229	ENST00000340384	protein_coding	KNOWN	CCDS7039	20771	1338	445	140135665	140138159	1	TUBB2C	Beta2
9	TUBB4B	ENSG00000188229	ENST00000604929	retained_intron	KNOWN	None	20771	None	None	140135740	140138158	1	TUBB2C	Beta2
19	CHST8	ENSG00000124302	ENST00000591231	protein_coding	KNOWN	None	15993	535	177	34112861	34263228	1	None	GALNAC-4-ST1
19	CHST8	ENSG00000124302	ENST00000438847	protein_coding	KNOWN	CCDS12433	15993	1275	424	34112877	34264408	1	None	GALNAC-4-ST1
19	CHST8	ENSG00000124302	ENST00000604556	protein_coding	PUTATIVE	None	15993	219	72	34112890	34235389	1	None	GALNAC-4-ST1
19	CHST8	ENSG00000124302	ENST00000262622	protein_coding	KNOWN	CCDS12433	15993	1275	424	34175434	34264413	1	None	GALNAC-4-ST1
19	CHST8	ENSG00000124302	ENST00000434302	protein_coding	KNOWN	CCDS12433	15993	1275	424	34112861	34264413	1	None	GALNAC-4-ST1
22	IGLV4-69	ENSG00000211637	ENST00000390282	IG_V_gene	KNOWN	None	5921	359	118	22385332	22385870	1	None	None
1	RNF2	ENSG00000121481	ENST00000367510	protein_coding	KNOWN	CCDS1365	10061	1011	336	185014496	185071740	1	None	BAP-1, BAP1, DING, HIPI3, RING1B, RING2
1	RNF2	ENSG00000121481	ENST00000367509	protein_coding	KNOWN	None	10061	795	264	185014658	185070189	1	None	BAP-1, BAP1, DING, HIPI3, RING1B, RING2
1	RNF2	ENSG00000121481	ENST00000498201	retained_intron	KNOWN	None	10061	None	None	185014668	185061138	1	None	BAP-1, BAP1, DING, HIPI3, RING1B, RING2
1	RNF2	ENSG00000121481	ENST00000453650	protein_coding	KNOWN	None	10061	740	245	185015228	185068925	1	None	BAP-1, BAP1, DING, HIPI3, RING1B, RING2
3	CASR	ENSG00000036828	ENST00000490131	protein_coding	KNOWN	CCDS3010	1514	3237	1078	121902530	122004212	1	HHC, HHC1	FHH, NSHPT, GPRC2A
3	CASR	ENSG00000036828	ENST00000498619	protein_coding	KNOWN	CCDS54632	1514	3267	1088	121903181	122005342	1	HHC, HHC1	FHH, NSHPT, GPRC2A
3	CASR	ENSG00000036828	ENST00000490186	retained_intron	KNOWN	None	1514	None	None	121973178	121976485	1	HHC, HHC1	FHH, NSHPT, GPRC2A
3	CASR	ENSG00000036828	ENST00000296154	protein_coding	KNOWN	CCDS3010	1514	3237	1078	121973009	122004134	1	HHC, HHC1	FHH, NSHPT, GPRC2A
22	IGLV8-61	ENSG00000211638	ENST00000390283	IG_V_gene	KNOWN	None	5931	368	121	22453110	22453622	1	None	None
7	RP9P	ENSG00000205763	ENST00000450133	transcribed_unprocessed_pseudogene	KNOWN	None	33969	None	None	32956427	32982650	-1	None	None
7	RP9P	ENSG00000205763	ENST00000381639	processed_transcript	KNOWN	None	33969	None	None	32956427	32982788	-1	None	None
7	RP9P	ENSG00000205763	ENST00000443264	unprocessed_pseudogene	KNOWN	None	33969	None	None	32956428	32982575	-1	None	None
10	None	ENSG00000236744	ENST00000457975	sense_intronic	KNOWN	None	None	None	None	57007515	57356993	-1	None	None
22	IGLV4-60	ENSG00000211639	ENST00000390284	IG_V_gene	KNOWN	None	5920	362	119	22516592	22517074	1	None	None
10	None	ENSG00000223800	ENST00000453639	lincRNA	KNOWN	None	None	None	None	57228087	57228982	1	None	None
10	ZNF438	ENSG00000183621	ENST00000331737	protein_coding	KNOWN	CCDS44369	21029	2457	818	31133563	31273355	-1	None	bA330O11.1
10	ZNF438	ENSG00000183621	ENST00000361310	protein_coding	KNOWN	CCDS7168	21029	2487	828	31133563	31273355	-1	None	bA330O11.1
10	ZNF438	ENSG00000183621	ENST00000375311	protein_coding	KNOWN	None	21029	1179	392	31133710	31320854	-1	None	bA330O11.1
10	ZNF438	ENSG00000183621	ENST00000436087	protein_coding	KNOWN	CCDS7168	21029	2487	828	31133567	31320866	-1	None	bA330O11.1
10	ZNF438	ENSG00000183621	ENST00000442986	protein_coding	KNOWN	CCDS7168	21029	2487	828	31133567	31320866	-1	None	bA330O11.1
10	ZNF438	ENSG00000183621	ENST00000413025	protein_coding	KNOWN	CCDS7168	21029	2487	828	31133567	31320866	-1	None	bA330O11.1
10	ZNF438	ENSG00000183621	ENST00000452305	protein_coding	KNOWN	CCDS44369	21029	2457	818	31133567	31320866	-1	None	bA330O11.1
10	ZNF438	ENSG00000183621	ENST00000444692	protein_coding	KNOWN	CCDS44369	21029	2457	818	31133567	31146615	-1	None	bA330O11.1
10	ZNF438	ENSG00000183621	ENST00000538351	protein_coding	KNOWN	CCDS53504	21029	2340	779	31133567	31288446	-1	None	bA330O11.1
22	PRR5-ARHGAP8	ENSG00000248405	ENST00000361473	protein_coding	PUTATIVE	None	34512	1695	564	45098113	45258551	1	None	None
22	PRR5-ARHGAP8	ENSG00000248405	ENST00000352766	protein_coding	PUTATIVE	None	34512	1932	643	45098355	45258586	1	None	None
22	PRR5-ARHGAP8	ENSG00000248405	ENST00000495250	retained_intron	KNOWN	None	34512	None	None	45121126	45205681	1	None	None
22	PRR5-ARHGAP8	ENSG00000248405	ENST00000515632	protein_coding	PUTATIVE	None	34512	1514	503	45121141	45258551	1	None	None
22	IGLV6-57	ENSG00000211640	ENST00000390285	IG_V_gene	KNOWN	None	5927	363	120	22550113	22550686	1	None	None
1	PEF1	ENSG00000162517	ENST00000373703	protein_coding	KNOWN	CCDS345	30009	855	284	32095463	32110488	-1	None	PEF1A
1	PEF1	ENSG00000162517	ENST00000461006	processed_transcript	KNOWN	None	30009	None	None	32095941	32100861	-1	None	PEF1A
1	PEF1	ENSG00000162517	ENST00000478502	processed_transcript	KNOWN	None	30009	None	None	32096050	32110497	-1	None	PEF1A
1	PEF1	ENSG00000162517	ENST00000489164	processed_transcript	KNOWN	None	30009	None	None	32096390	32110190	-1	None	PEF1A
1	PEF1	ENSG00000162517	ENST00000492061	processed_transcript	KNOWN	None	30009	None	None	32098760	32110202	-1	None	PEF1A
1	PEF1	ENSG00000162517	ENST00000496805	processed_transcript	KNOWN	None	30009	None	None	32098841	32110156	-1	None	PEF1A
1	PEF1	ENSG00000162517	ENST00000472443	processed_transcript	KNOWN	None	30009	None	None	32098865	32110197	-1	None	PEF1A
1	PEF1	ENSG00000162517	ENST00000471219	processed_transcript	KNOWN	None	30009	None	None	32098876	32101073	-1	None	PEF1A
1	PEF1	ENSG00000162517	ENST00000440872	protein_coding	KNOWN	None	30009	423	140	32099887	32110474	-1	None	PEF1A
17	UBALD2	ENSG00000185262	ENST00000327490	protein_coding	KNOWN	CCDS11742	28438	495	164	74261283	74267375	1	FAM100B	MGC29814
17	UBALD2	ENSG00000185262	ENST00000587913	protein_coding	PUTATIVE	None	28438	193	63	74261452	74266464	1	FAM100B	MGC29814
17	UBALD2	ENSG00000185262	ENST00000589240	protein_coding	PUTATIVE	None	28438	315	104	74261784	74266667	1	FAM100B	MGC29814
22	IGLV11-55	ENSG00000211641	ENST00000390286	IG_V_gene	KNOWN	None	5886	414	137	22556057	22556600	1	None	None
11	SNX19	ENSG00000120451	ENST00000265909	protein_coding	KNOWN	CCDS31721	21532	2979	992	130745331	130786404	-1	None	KIAA0254, CHET8
11	SNX19	ENSG00000120451	ENST00000527116	retained_intron	KNOWN	None	21532	None	None	130747735	130751036	-1	None	KIAA0254, CHET8
11	SNX19	ENSG00000120451	ENST00000526579	processed_transcript	KNOWN	None	21532	None	None	130747808	130775894	-1	None	KIAA0254, CHET8
11	SNX19	ENSG00000120451	ENST00000534726	protein_coding	PUTATIVE	None	21532	699	232	130747853	130778241	-1	None	KIAA0254, CHET8
11	SNX19	ENSG00000120451	ENST00000426933	protein_coding	PUTATIVE	None	21532	483	160	130747946	130763769	-1	None	KIAA0254, CHET8
11	SNX19	ENSG00000120451	ENST00000533318	processed_transcript	KNOWN	None	21532	None	None	130748091	130786339	-1	None	KIAA0254, CHET8
11	SNX19	ENSG00000120451	ENST00000530330	processed_transcript	KNOWN	None	21532	None	None	130748152	130762954	-1	None	KIAA0254, CHET8
11	SNX19	ENSG00000120451	ENST00000528555	protein_coding	PUTATIVE	None	21532	1119	372	130748288	130786346	-1	None	KIAA0254, CHET8
11	SNX19	ENSG00000120451	ENST00000530356	protein_coding	PUTATIVE	None	21532	1119	372	130748288	130786346	-1	None	KIAA0254, CHET8
11	SNX19	ENSG00000120451	ENST00000524460	processed_transcript	KNOWN	None	21532	None	None	130771706	130780266	-1	None	KIAA0254, CHET8
11	SNX19	ENSG00000120451	ENST00000527451	retained_intron	KNOWN	None	21532	None	None	130772964	130776029	-1	None	KIAA0254, CHET8
11	SNX19	ENSG00000120451	ENST00000533214	protein_coding	PUTATIVE	None	21532	2412	803	130775550	130786344	-1	None	KIAA0254, CHET8
11	SNX19	ENSG00000120451	ENST00000531608	retained_intron	KNOWN	None	21532	None	None	130780203	130786374	-1	None	KIAA0254, CHET8
11	SNX19	ENSG00000120451	ENST00000539184	protein_coding	KNOWN	None	21532	1308	435	130748288	130786346	-1	None	KIAA0254, CHET8
11	SNX19	ENSG00000120451	ENST00000545537	protein_coding	KNOWN	None	21532	699	232	130747925	130780268	-1	None	KIAA0254, CHET8
1	LRIF1	ENSG00000121931	ENST00000369763	protein_coding	KNOWN	CCDS30800	30299	2310	769	111489807	111506701	-1	C1orf103	RIF1, FLJ11269
1	LRIF1	ENSG00000121931	ENST00000494675	protein_coding	KNOWN	CCDS41366	30299	702	233	111489813	111495583	-1	C1orf103	RIF1, FLJ11269
1	LRIF1	ENSG00000121931	ENST00000485275	protein_coding	KNOWN	CCDS41366	30299	702	233	111489844	111506587	-1	C1orf103	RIF1, FLJ11269
11	SYT13	ENSG00000019505	ENST00000020926	protein_coding	KNOWN	CCDS31470	14962	1281	426	45261852	45307870	-1	None	KIAA1427
11	SYT13	ENSG00000019505	ENST00000533332	nonsense_mediated_decay	KNOWN	None	14962	61	19	45265252	45307618	-1	None	KIAA1427
11	SYT13	ENSG00000019505	ENST00000528101	protein_coding	NOVEL	None	14962	557	184	45274140	45307475	-1	None	KIAA1427
22	IGLV10-54	ENSG00000211642	ENST00000390287	IG_V_gene	KNOWN	None	5884	352	116	22569184	22569660	1	None	None
HSCHR6_MHC_DBB	MOG	ENSG00000234623	ENST00000432271	protein_coding	KNOWN	None	7197	744	247	29624732	29640106	1	None	None
HSCHR6_MHC_DBB	MOG	ENSG00000234623	ENST00000462016	processed_transcript	KNOWN	None	7197	None	None	29624781	29633989	1	None	None
HSCHR6_MHC_DBB	MOG	ENSG00000234623	ENST00000425145	protein_coding	KNOWN	None	7197	888	295	29624825	29640106	1	None	None
HSCHR6_MHC_DBB	MOG	ENSG00000234623	ENST00000489187	processed_transcript	KNOWN	None	7197	None	None	29624863	29627656	1	None	None
HSCHR6_MHC_DBB	MOG	ENSG00000234623	ENST00000452233	protein_coding	KNOWN	None	7197	396	131	29624943	29640106	1	None	None
HSCHR6_MHC_DBB	MOG	ENSG00000234623	ENST00000427061	protein_coding	KNOWN	None	7197	759	252	29624943	29640106	1	None	None
HSCHR6_MHC_DBB	MOG	ENSG00000234623	ENST00000434177	protein_coding	KNOWN	None	7197	642	213	29624943	29640106	1	None	None
HSCHR6_MHC_DBB	MOG	ENSG00000234623	ENST00000430264	protein_coding	KNOWN	None	7197	690	229	29624943	29640106	1	None	None
HSCHR6_MHC_DBB	MOG	ENSG00000234623	ENST00000414889	protein_coding	KNOWN	None	7197	675	224	29624943	29640106	1	None	None
HSCHR6_MHC_DBB	MOG	ENSG00000234623	ENST00000442629	protein_coding	KNOWN	None	7197	615	204	29624949	29640106	1	None	None
HSCHR6_MHC_DBB	MOG	ENSG00000234623	ENST00000417635	protein_coding	KNOWN	None	7197	539	178	29627051	29640106	1	None	None
HSCHR6_MHC_DBB	MOG	ENSG00000234623	ENST00000470893	processed_transcript	KNOWN	None	7197	None	None	29627051	29640106	1	None	None
HSCHR6_MHC_DBB	MOG	ENSG00000234623	ENST00000497074	processed_transcript	KNOWN	None	7197	None	None	29627051	29640106	1	None	None
HSCHR6_MHC_DBB	MOG	ENSG00000234623	ENST00000548042	protein_coding	KNOWN	None	7197	621	206	29624714	29640104	1	None	None
HSCHR6_MHC_DBB	MOG	ENSG00000234623	ENST00000551175	protein_coding	KNOWN	None	7197	627	208	29624714	29640104	1	None	None
HSCHR6_MHC_DBB	MOG	ENSG00000234623	ENST00000549339	protein_coding	KNOWN	None	7197	174	57	29624795	29632464	1	None	None
HSCHR6_MHC_DBB	MOG	ENSG00000234623	ENST00000550349	protein_coding	KNOWN	None	7197	516	171	29624714	29640104	1	None	None
HSCHR6_MHC_DBB	MCCD1P2	ENSG00000231719	ENST00000439265	unprocessed_pseudogene	KNOWN	None	33462	None	None	29952163	29953040	-1	None	BPG309N1.16
11	SAA1	ENSG00000173432	ENST00000356524	protein_coding	KNOWN	CCDS7835	10513	369	122	18287721	18291521	1	SAA	PIG4, TP53I4
11	SAA1	ENSG00000173432	ENST00000532858	protein_coding	KNOWN	CCDS7835	10513	369	122	18287807	18291514	1	SAA	PIG4, TP53I4
11	SAA1	ENSG00000173432	ENST00000405158	protein_coding	KNOWN	CCDS7835	10513	369	122	18287811	18291524	1	SAA	PIG4, TP53I4
12	ALG10B	ENSG00000175548	ENST00000308742	protein_coding	KNOWN	CCDS31772	31088	1422	473	38710380	38716388	1	None	KCR1
12	ALG10B	ENSG00000175548	ENST00000551464	protein_coding	PUTATIVE	None	31088	381	126	38710564	38717784	1	None	KCR1
12	ALG10B	ENSG00000175548	ENST00000553138	retained_intron	KNOWN	None	31088	None	None	38710569	38714252	1	None	KCR1
12	ALG10B	ENSG00000175548	ENST00000548240	nonsense_mediated_decay	KNOWN	None	31088	234	77	38710641	38715129	1	None	KCR1
22	VPREB1	ENSG00000169575	ENST00000403807	protein_coding	KNOWN	CCDS13798	12709	438	145	22599087	22599927	1	None	VpreB, CD179A
22	VPREB1	ENSG00000169575	ENST00000302273	protein_coding	NOVEL	None	12709	435	144	22599192	22599917	1	None	VpreB, CD179A
18	ELAC1	ENSG00000141642	ENST00000588577	protein_coding	NOVEL	None	14197	267	88	48494361	48513316	1	None	D29
18	ELAC1	ENSG00000141642	ENST00000269466	protein_coding	KNOWN	CCDS11949	14197	1092	363	48494386	48514491	1	None	D29
18	ELAC1	ENSG00000141642	ENST00000586966	processed_transcript	KNOWN	None	14197	None	None	48494415	48495632	1	None	D29
18	ELAC1	ENSG00000141642	ENST00000591429	protein_coding	PUTATIVE	None	14197	672	223	48494418	48511208	1	None	D29
22	IGLV5-52	ENSG00000211643	ENST00000390289	IG_V_gene	KNOWN	None	5926	374	123	22673082	22673581	1	None	None
22	IGLV1-51	ENSG00000211644	ENST00000390290	IG_V_gene	KNOWN	None	5882	364	120	22676828	22677336	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000225618	ENST00000456201	processed_transcript	KNOWN	None	None	None	None	29958737	30019038	-1	None	None
HSCHR6_MHC_DBB	None	ENSG00000225618	ENST00000436343	processed_transcript	KNOWN	None	None	None	None	29958737	30019253	-1	None	None
HSCHR6_MHC_DBB	None	ENSG00000225618	ENST00000454932	processed_transcript	KNOWN	None	None	None	None	29958737	30019254	-1	None	None
HSCHR6_MHC_DBB	None	ENSG00000225618	ENST00000423521	processed_transcript	KNOWN	None	None	None	None	29958737	30019294	-1	None	None
HSCHR6_MHC_DBB	None	ENSG00000225618	ENST00000421774	processed_transcript	KNOWN	None	None	None	None	29969822	29993089	-1	None	None
HSCHR6_MHC_DBB	None	ENSG00000225618	ENST00000425957	processed_transcript	KNOWN	None	None	None	None	29977511	30019750	-1	None	None
HSCHR6_MHC_DBB	None	ENSG00000225618	ENST00000448474	processed_transcript	KNOWN	None	None	None	None	29993009	30016857	-1	None	None
HSCHR6_MHC_DBB	None	ENSG00000225618	ENST00000448229	processed_transcript	KNOWN	None	None	None	None	29993504	30019299	-1	None	None
HSCHR6_MHC_DBB	None	ENSG00000225618	ENST00000428435	processed_transcript	KNOWN	None	None	None	None	30012711	30019289	-1	None	None
HSCHR6_MHC_DBB	None	ENSG00000225618	ENST00000442600	processed_transcript	KNOWN	None	None	None	None	30014863	30019089	-1	None	None
22	IGLV1-50	ENSG00000211645	ENST00000390291	IG_V_gene	KNOWN	None	5881	354	117	22681658	22682172	1	None	None
17	RNASEK	ENSG00000219200	ENST00000548577	protein_coding	KNOWN	CCDS45594	33911	414	137	6915736	6917851	1	None	MGC71993
17	RNASEK	ENSG00000219200	ENST00000546395	nonsense_mediated_decay	KNOWN	None	33911	198	65	6915780	6917839	1	None	MGC71993
17	RNASEK	ENSG00000219200	ENST00000570898	protein_coding	PUTATIVE	None	33911	209	68	6915941	6917649	1	None	MGC71993
17	RNASEK	ENSG00000219200	ENST00000552039	nonsense_mediated_decay	KNOWN	None	33911	130	42	6915951	6917851	1	None	MGC71993
17	RNASEK	ENSG00000219200	ENST00000552842	protein_coding	PUTATIVE	None	33911	179	58	6915965	6917849	1	None	MGC71993
17	RNASEK	ENSG00000219200	ENST00000575822	retained_intron	KNOWN	None	33911	None	None	6915967	6917136	1	None	MGC71993
17	RNASEK	ENSG00000219200	ENST00000549393	nonsense_mediated_decay	KNOWN	None	33911	117	38	6915967	6917838	1	None	MGC71993
17	RNASEK	ENSG00000219200	ENST00000552321	protein_coding	PUTATIVE	None	33911	291	96	6916550	6917839	1	None	MGC71993
17	RNASEK	ENSG00000219200	ENST00000402093	protein_coding	KNOWN	None	33911	297	98	6915798	6917850	1	None	MGC71993
22	IGLV9-49	ENSG00000223350	ENST00000427632	IG_V_gene	KNOWN	None	5933	372	123	22697539	22698084	1	None	None
14	APEX1	ENSG00000100823	ENST00000555414	protein_coding	KNOWN	CCDS9550	587	957	318	20923350	20925927	1	APEX	APE, REF1, HAP1, APX, APEN, REF-1, APE-1
14	APEX1	ENSG00000100823	ENST00000216714	protein_coding	KNOWN	CCDS9550	587	957	318	20923354	20925926	1	APEX	APE, REF1, HAP1, APX, APEN, REF-1, APE-1
14	APEX1	ENSG00000100823	ENST00000553681	protein_coding	KNOWN	None	587	791	262	20923360	20925501	1	APEX	APE, REF1, HAP1, APX, APEN, REF-1, APE-1
14	APEX1	ENSG00000100823	ENST00000554813	processed_transcript	KNOWN	None	587	None	None	20923374	20925298	1	APEX	APE, REF1, HAP1, APX, APEN, REF-1, APE-1
14	APEX1	ENSG00000100823	ENST00000556296	processed_transcript	PUTATIVE	None	587	None	None	20923378	20924046	1	APEX	APE, REF1, HAP1, APX, APEN, REF-1, APE-1
14	APEX1	ENSG00000100823	ENST00000557344	protein_coding	KNOWN	None	587	439	145	20923385	20925019	1	APEX	APE, REF1, HAP1, APX, APEN, REF-1, APE-1
14	APEX1	ENSG00000100823	ENST00000555306	retained_intron	KNOWN	None	587	None	None	20923385	20925161	1	APEX	APE, REF1, HAP1, APX, APEN, REF-1, APE-1
14	APEX1	ENSG00000100823	ENST00000553555	retained_intron	KNOWN	None	587	None	None	20923385	20925893	1	APEX	APE, REF1, HAP1, APX, APEN, REF-1, APE-1
14	APEX1	ENSG00000100823	ENST00000398030	protein_coding	KNOWN	CCDS9550	587	957	318	20923385	20925926	1	APEX	APE, REF1, HAP1, APX, APEN, REF-1, APE-1
14	APEX1	ENSG00000100823	ENST00000554325	nonsense_mediated_decay	KNOWN	None	587	150	49	20923386	20924842	1	APEX	APE, REF1, HAP1, APX, APEN, REF-1, APE-1
14	APEX1	ENSG00000100823	ENST00000557181	protein_coding	KNOWN	None	587	323	106	20923386	20924903	1	APEX	APE, REF1, HAP1, APX, APEN, REF-1, APE-1
14	APEX1	ENSG00000100823	ENST00000555839	protein_coding	NOVEL	None	587	728	241	20923398	20925525	1	APEX	APE, REF1, HAP1, APX, APEN, REF-1, APE-1
14	APEX1	ENSG00000100823	ENST00000557159	retained_intron	KNOWN	None	587	None	None	20923399	20925897	1	APEX	APE, REF1, HAP1, APX, APEN, REF-1, APE-1
14	APEX1	ENSG00000100823	ENST00000553368	protein_coding	PUTATIVE	None	587	125	40	20923404	20924190	1	APEX	APE, REF1, HAP1, APX, APEN, REF-1, APE-1
14	APEX1	ENSG00000100823	ENST00000556054	protein_coding	KNOWN	None	587	523	173	20923406	20925233	1	APEX	APE, REF1, HAP1, APX, APEN, REF-1, APE-1
14	APEX1	ENSG00000100823	ENST00000557054	protein_coding	PUTATIVE	None	587	45	14	20923406	20925926	1	APEX	APE, REF1, HAP1, APX, APEN, REF-1, APE-1
14	APEX1	ENSG00000100823	ENST00000557592	protein_coding	PUTATIVE	None	587	517	171	20923407	20925278	1	APEX	APE, REF1, HAP1, APX, APEN, REF-1, APE-1
14	APEX1	ENSG00000100823	ENST00000557365	processed_transcript	KNOWN	None	587	None	None	20923416	20925461	1	APEX	APE, REF1, HAP1, APX, APEN, REF-1, APE-1
14	APEX1	ENSG00000100823	ENST00000557150	protein_coding	PUTATIVE	None	587	487	161	20923424	20925248	1	APEX	APE, REF1, HAP1, APX, APEN, REF-1, APE-1
14	APEX1	ENSG00000100823	ENST00000438886	protein_coding	NOVEL	None	587	451	149	20924166	20925381	1	APEX	APE, REF1, HAP1, APX, APEN, REF-1, APE-1
11	TRIM29	ENSG00000137699	ENST00000341846	protein_coding	KNOWN	CCDS8428	17274	1767	588	119981983	120009161	-1	None	ATDC, FLJ36085
11	TRIM29	ENSG00000137699	ENST00000524816	protein_coding	PUTATIVE	None	17274	465	154	119982006	119993979	-1	None	ATDC, FLJ36085
11	TRIM29	ENSG00000137699	ENST00000526161	retained_intron	KNOWN	None	17274	None	None	119983118	119987814	-1	None	ATDC, FLJ36085
11	TRIM29	ENSG00000137699	ENST00000530919	retained_intron	KNOWN	None	17274	None	None	119983118	119988749	-1	None	ATDC, FLJ36085
11	TRIM29	ENSG00000137699	ENST00000524664	processed_transcript	KNOWN	None	17274	None	None	119983118	119989575	-1	None	ATDC, FLJ36085
11	TRIM29	ENSG00000137699	ENST00000525887	processed_transcript	KNOWN	None	17274	None	None	119983118	119992701	-1	None	ATDC, FLJ36085
11	TRIM29	ENSG00000137699	ENST00000533302	protein_coding	PUTATIVE	None	17274	510	169	119983118	119993740	-1	None	ATDC, FLJ36085
11	TRIM29	ENSG00000137699	ENST00000531555	nonsense_mediated_decay	KNOWN	None	17274	358	118	119983118	119993741	-1	None	ATDC, FLJ36085
11	TRIM29	ENSG00000137699	ENST00000525327	protein_coding	PUTATIVE	None	17274	544	180	119983118	119994150	-1	None	ATDC, FLJ36085
11	TRIM29	ENSG00000137699	ENST00000528870	protein_coding	PUTATIVE	None	17274	366	121	119983118	119996286	-1	None	ATDC, FLJ36085
11	TRIM29	ENSG00000137699	ENST00000529044	protein_coding	PUTATIVE	None	17274	984	327	119983118	119999621	-1	None	ATDC, FLJ36085
11	TRIM29	ENSG00000137699	ENST00000475051	nonsense_mediated_decay	KNOWN	None	17274	510	169	119983118	120008822	-1	None	ATDC, FLJ36085
11	TRIM29	ENSG00000137699	ENST00000524956	protein_coding	PUTATIVE	None	17274	314	103	119986048	119992688	-1	None	ATDC, FLJ36085
11	TRIM29	ENSG00000137699	ENST00000526881	protein_coding	PUTATIVE	None	17274	283	93	119986072	119991608	-1	None	ATDC, FLJ36085
11	TRIM29	ENSG00000137699	ENST00000530470	retained_intron	KNOWN	None	17274	None	None	119993660	119997065	-1	None	ATDC, FLJ36085
11	TRIM29	ENSG00000137699	ENST00000532195	retained_intron	KNOWN	None	17274	None	None	119998116	119999618	-1	None	ATDC, FLJ36085
11	TRIM29	ENSG00000137699	ENST00000529011	protein_coding	KNOWN	None	17274	292	96	120008448	120009161	-1	None	ATDC, FLJ36085
11	TRIM29	ENSG00000137699	ENST00000529495	protein_coding	KNOWN	None	17274	285	94	120008455	120010530	-1	None	ATDC, FLJ36085
11	TRIM29	ENSG00000137699	ENST00000532833	protein_coding	KNOWN	None	17274	267	88	120008473	120056131	-1	None	ATDC, FLJ36085
11	TRIM29	ENSG00000137699	ENST00000529040	protein_coding	KNOWN	None	17274	115	37	120008625	120056237	-1	None	ATDC, FLJ36085
11	TRIM29	ENSG00000137699	ENST00000541857	protein_coding	KNOWN	None	17274	966	321	119982713	119999577	-1	None	ATDC, FLJ36085
12	ENO2	ENSG00000111674	ENST00000537688	protein_coding	PUTATIVE	None	3353	310	102	7022909	7026271	1	None	None
12	ENO2	ENSG00000111674	ENST00000541477	protein_coding	KNOWN	CCDS8570	3353	1305	434	7023491	7032859	1	None	None
12	ENO2	ENSG00000111674	ENST00000537838	retained_intron	KNOWN	None	3353	None	None	7023702	7025899	1	None	None
12	ENO2	ENSG00000111674	ENST00000536199	retained_intron	KNOWN	None	3353	None	None	7023721	7025976	1	None	None
12	ENO2	ENSG00000111674	ENST00000538763	protein_coding	NOVEL	None	3353	1176	391	7023753	7032347	1	None	None
12	ENO2	ENSG00000111674	ENST00000539713	retained_intron	KNOWN	None	3353	None	None	7023758	7026423	1	None	None
12	ENO2	ENSG00000111674	ENST00000542509	retained_intron	KNOWN	None	3353	None	None	7023761	7026873	1	None	None
12	ENO2	ENSG00000111674	ENST00000545045	protein_coding	NOVEL	None	3353	948	315	7023774	7032861	1	None	None
12	ENO2	ENSG00000111674	ENST00000535366	protein_coding	KNOWN	CCDS8570	3353	1305	434	7024371	7032859	1	None	None
12	ENO2	ENSG00000111674	ENST00000441285	retained_intron	KNOWN	None	3353	None	None	7026493	7027314	1	None	None
12	ENO2	ENSG00000111674	ENST00000535275	nonsense_mediated_decay	KNOWN	None	3353	222	73	7028738	7031973	1	None	None
12	ENO2	ENSG00000111674	ENST00000543975	protein_coding	PUTATIVE	None	3353	260	85	7030744	7032048	1	None	None
12	ENO2	ENSG00000111674	ENST00000534977	processed_transcript	PUTATIVE	None	3353	None	None	7031152	7032081	1	None	None
12	ENO2	ENSG00000111674	ENST00000229277	protein_coding	KNOWN	CCDS8570	3353	1305	434	7023614	7032859	1	None	None
12	ENO2	ENSG00000111674	ENST00000544774	protein_coding	KNOWN	None	3353	1176	391	7023753	7032347	1	None	None
22	IGLV5-48	ENSG00000211647	ENST00000390293	IG_V_gene	KNOWN	None	5925	369	122	22707289	22707781	1	None	None
3	PRSS42	ENSG00000178055	ENST00000447340	protein_coding	PUTATIVE	None	30716	303	100	46871032	46875313	-1	None	TESSP2
3	PRSS42	ENSG00000178055	ENST00000429665	protein_coding	KNOWN	CCDS46816	30716	882	293	46871894	46875585	-1	None	TESSP2
18	None	ENSG00000267699	ENST00000590722	nonsense_mediated_decay	KNOWN	None	None	261	86	48494389	48584514	1	None	None
18	None	ENSG00000267699	ENST00000588256	processed_transcript	KNOWN	None	None	None	None	48494393	48573481	1	None	None
22	IGLV1-47	ENSG00000211648	ENST00000390294	IG_V_gene	KNOWN	None	5880	351	116	22712087	22712608	1	None	None
11	HTR3B	ENSG00000149305	ENST00000260191	protein_coding	KNOWN	CCDS8364	5298	1326	441	113775399	113817287	1	None	5-HT3B
11	HTR3B	ENSG00000149305	ENST00000537778	protein_coding	KNOWN	None	5298	1293	430	113779714	113816974	1	None	5-HT3B
11	HTR3B	ENSG00000149305	ENST00000543092	protein_coding	PUTATIVE	None	5298	527	174	113802107	113815424	1	None	5-HT3B
9	MIR7-1	ENSG00000207603	ENST00000384871	miRNA	KNOWN	None	31638	None	None	86584663	86584772	-1	MIRN7-1	hsa-mir-7-1
22	IGLV7-46	ENSG00000211649	ENST00000390295	IG_V_gene	KNOWN	None	5930	350	115	22723982	22724454	1	None	None
9	None	ENSG00000235298	ENST00000448389	antisense	KNOWN	None	None	None	None	86587148	86590692	1	None	None
17	QRICH2	ENSG00000129646	ENST00000262765	protein_coding	KNOWN	CCDS32741	25326	4992	1663	74270130	74303761	-1	None	DKFZP434P0316
17	QRICH2	ENSG00000129646	ENST00000447564	protein_coding	PUTATIVE	None	25326	1488	495	74270132	74287333	-1	None	DKFZP434P0316
17	QRICH2	ENSG00000129646	ENST00000524722	nonsense_mediated_decay	KNOWN	None	25326	327	108	74270212	74303646	-1	None	DKFZP434P0316
17	QRICH2	ENSG00000129646	ENST00000532549	protein_coding	PUTATIVE	None	25326	839	278	74270265	74276438	-1	None	DKFZP434P0316
9	None	ENSG00000202523	ENST00000365653	misc_RNA	NOVEL	None	None	None	None	86607847	86607948	1	None	None
10	None	ENSG00000228048	ENST00000427182	lincRNA	KNOWN	None	None	None	None	57265979	57272977	1	None	None
22	IGLV5-45	ENSG00000211650	ENST00000390296	IG_V_gene	KNOWN	None	5924	369	122	22730355	22730874	1	None	None
9	None	ENSG00000227463	ENST00000423515	lincRNA	KNOWN	None	None	None	None	86678358	86709492	1	None	None
7	TTYH3	ENSG00000136295	ENST00000258796	protein_coding	KNOWN	CCDS34588	22222	1572	523	2671585	2704436	1	None	KIAA1691
7	TTYH3	ENSG00000136295	ENST00000407643	protein_coding	KNOWN	None	22222	1476	491	2671790	2704434	1	None	KIAA1691
7	TTYH3	ENSG00000136295	ENST00000400376	protein_coding	PUTATIVE	None	22222	349	115	2685166	2686810	1	None	KIAA1691
7	TTYH3	ENSG00000136295	ENST00000403167	protein_coding	KNOWN	None	22222	1059	352	2687337	2704434	1	None	KIAA1691
7	TTYH3	ENSG00000136295	ENST00000477439	processed_transcript	KNOWN	None	22222	None	None	2687590	2689621	1	None	KIAA1691
7	TTYH3	ENSG00000136295	ENST00000498454	retained_intron	KNOWN	None	22222	None	None	2692459	2698090	1	None	KIAA1691
7	TTYH3	ENSG00000136295	ENST00000429448	protein_coding	PUTATIVE	None	22222	561	186	2695726	2701476	1	None	KIAA1691
10	None	ENSG00000238355	ENST00000459340	snoRNA	NOVEL	None	None	None	None	57327499	57327602	1	None	None
10	GAPDHP21	ENSG00000236993	ENST00000450301	processed_pseudogene	KNOWN	None	37773	None	None	57427101	57428110	-1	None	None
7	None	ENSG00000224573	ENST00000438811	processed_pseudogene	KNOWN	None	None	None	None	32991038	32991268	1	None	None
22	IGLV1-44	ENSG00000211651	ENST00000390297	IG_V_gene	KNOWN	None	5879	352	116	22735135	22735715	1	None	None
22	IGLV7-43	ENSG00000211652	ENST00000390298	IG_V_gene	KNOWN	None	5929	351	116	22749356	22749827	1	None	None
3	SLMAP	ENSG00000163681	ENST00000481846	processed_transcript	PUTATIVE	None	16643	None	None	57741177	57742794	1	None	SLAP, KIAA1601
3	SLMAP	ENSG00000163681	ENST00000295951	protein_coding	KNOWN	CCDS33774	16643	2436	811	57741957	57914895	1	None	SLAP, KIAA1601
3	SLMAP	ENSG00000163681	ENST00000467901	retained_intron	KNOWN	None	16643	None	None	57743028	57876933	1	None	SLAP, KIAA1601
3	SLMAP	ENSG00000163681	ENST00000383718	protein_coding	KNOWN	None	16643	1521	506	57743281	57887872	1	None	SLAP, KIAA1601
3	SLMAP	ENSG00000163681	ENST00000428312	protein_coding	KNOWN	None	16643	2487	828	57743285	57914666	1	None	SLAP, KIAA1601
3	SLMAP	ENSG00000163681	ENST00000449503	protein_coding	KNOWN	None	16643	2373	790	57743285	57914675	1	None	SLAP, KIAA1601
3	SLMAP	ENSG00000163681	ENST00000465203	protein_coding	NOVEL	None	16643	511	169	57847727	57882318	1	None	SLAP, KIAA1601
3	SLMAP	ENSG00000163681	ENST00000475055	processed_transcript	KNOWN	None	16643	None	None	57850284	57882317	1	None	SLAP, KIAA1601
3	SLMAP	ENSG00000163681	ENST00000416658	protein_coding	PUTATIVE	None	16643	1300	432	57850313	57913286	1	None	SLAP, KIAA1601
3	SLMAP	ENSG00000163681	ENST00000459654	retained_intron	KNOWN	None	16643	None	None	57875718	57898245	1	None	SLAP, KIAA1601
3	SLMAP	ENSG00000163681	ENST00000472546	processed_transcript	KNOWN	None	16643	None	None	57875718	57898415	1	None	SLAP, KIAA1601
3	SLMAP	ENSG00000163681	ENST00000417128	protein_coding	KNOWN	None	16643	1229	408	57875768	57914853	1	None	SLAP, KIAA1601
3	SLMAP	ENSG00000163681	ENST00000438794	protein_coding	KNOWN	None	16643	949	315	57875784	57904207	1	None	SLAP, KIAA1601
3	SLMAP	ENSG00000163681	ENST00000495364	protein_coding	PUTATIVE	None	16643	1089	362	57881966	57913187	1	None	SLAP, KIAA1601
3	SLMAP	ENSG00000163681	ENST00000494088	protein_coding	PUTATIVE	None	16643	957	318	57882037	57913213	1	None	SLAP, KIAA1601
3	SLMAP	ENSG00000163681	ENST00000461354	protein_coding	PUTATIVE	None	16643	305	100	57882067	57898162	1	None	SLAP, KIAA1601
3	SLMAP	ENSG00000163681	ENST00000466255	protein_coding	PUTATIVE	None	16643	328	108	57882068	57898308	1	None	SLAP, KIAA1601
3	SLMAP	ENSG00000163681	ENST00000476471	retained_intron	KNOWN	None	16643	None	None	57898022	57902698	1	None	SLAP, KIAA1601
3	SLMAP	ENSG00000163681	ENST00000460223	protein_coding	NOVEL	None	16643	197	64	57902692	57913674	1	None	SLAP, KIAA1601
3	SLMAP	ENSG00000163681	ENST00000497084	retained_intron	KNOWN	None	16643	None	None	57902708	57912017	1	None	SLAP, KIAA1601
3	SLMAP	ENSG00000163681	ENST00000295952	protein_coding	KNOWN	CCDS33774	16643	2436	811	57743174	57914894	1	None	SLAP, KIAA1601
3	SLMAP	ENSG00000163681	ENST00000442599	protein_coding	KNOWN	None	16643	891	296	57875718	57913392	1	None	SLAP, KIAA1601
3	SLMAP	ENSG00000163681	ENST00000416870	protein_coding	KNOWN	None	16643	816	271	57743174	57902882	1	None	SLAP, KIAA1601
22	IGLV1-40	ENSG00000211653	ENST00000390299	IG_V_gene	KNOWN	None	5877	356	117	22764098	22764614	1	None	None
12	KRT80	ENSG00000167767	ENST00000313234	protein_coding	KNOWN	CCDS41784	27056	1269	422	52562780	52585784	-1	None	KB20
12	KRT80	ENSG00000167767	ENST00000394815	protein_coding	KNOWN	CCDS8821	27056	1359	452	52562780	52585784	-1	None	KB20
12	KRT80	ENSG00000167767	ENST00000466011	retained_intron	KNOWN	None	27056	None	None	52563307	52579533	-1	None	KB20
21	ADAMTS1	ENSG00000154734	ENST00000464589	retained_intron	KNOWN	None	217	None	None	28208606	28214030	-1	None	C3-C5, METH1, KIAA1346
21	ADAMTS1	ENSG00000154734	ENST00000284984	protein_coding	KNOWN	CCDS33524	217	2904	967	28208606	28217728	-1	None	C3-C5, METH1, KIAA1346
21	ADAMTS1	ENSG00000154734	ENST00000492656	retained_intron	KNOWN	None	217	None	None	28210412	28212808	-1	None	C3-C5, METH1, KIAA1346
21	ADAMTS1	ENSG00000154734	ENST00000517777	protein_coding	PUTATIVE	None	217	513	170	28213396	28215337	-1	None	C3-C5, METH1, KIAA1346
21	ADAMTS1	ENSG00000154734	ENST00000451462	protein_coding	PUTATIVE	None	217	601	199	28213439	28215859	-1	None	C3-C5, METH1, KIAA1346
21	ADAMTS1	ENSG00000154734	ENST00000517452	protein_coding	PUTATIVE	None	217	385	127	28214288	28216096	-1	None	C3-C5, METH1, KIAA1346
22	IGLV5-37	ENSG00000211654	ENST00000390300	IG_V_gene	KNOWN	None	5922	369	122	22781876	22782371	1	None	None
13	SLC7A1	ENSG00000139514	ENST00000380752	protein_coding	KNOWN	CCDS9333	11057	1890	629	30083547	30169825	-1	ERR, ATRC1	CAT-1, HCAT1, REC1L
13	SLC7A1	ENSG00000139514	ENST00000473577	processed_transcript	PUTATIVE	None	11057	None	None	30091004	30093647	-1	ERR, ATRC1	CAT-1, HCAT1, REC1L
13	SLC7A1	ENSG00000139514	ENST00000450494	protein_coding	PUTATIVE	None	11057	365	120	30109961	30160929	-1	ERR, ATRC1	CAT-1, HCAT1, REC1L
22	IGLV1-36	ENSG00000211655	ENST00000390301	IG_V_gene	KNOWN	None	5876	352	116	22786296	22786802	1	None	None
15	SEMA6D	ENSG00000137872	ENST00000558014	protein_coding	KNOWN	CCDS32224	16770	3036	1011	47476298	48066418	1	None	KIAA1479, FLJ11598
15	SEMA6D	ENSG00000137872	ENST00000559184	protein_coding	KNOWN	None	16770	66	21	47477860	48052061	1	None	KIAA1479, FLJ11598
15	SEMA6D	ENSG00000137872	ENST00000560636	protein_coding	KNOWN	None	16770	4	0	47631264	48051999	1	None	KIAA1479, FLJ11598
15	SEMA6D	ENSG00000137872	ENST00000561133	protein_coding	KNOWN	None	16770	444	147	48009195	48053625	1	None	KIAA1479, FLJ11598
15	SEMA6D	ENSG00000137872	ENST00000536845	protein_coding	KNOWN	CCDS32225	16770	3222	1073	48009560	48064130	1	None	KIAA1479, FLJ11598
15	SEMA6D	ENSG00000137872	ENST00000561106	retained_intron	KNOWN	None	16770	None	None	48009599	48052180	1	None	KIAA1479, FLJ11598
15	SEMA6D	ENSG00000137872	ENST00000558816	protein_coding	KNOWN	CCDS32228	16770	1794	597	48009654	48065079	1	None	KIAA1479, FLJ11598
15	SEMA6D	ENSG00000137872	ENST00000389425	protein_coding	KNOWN	CCDS32229	16770	1431	476	48010658	48057677	1	None	KIAA1479, FLJ11598
15	SEMA6D	ENSG00000137872	ENST00000316364	protein_coding	KNOWN	CCDS32225	16770	3222	1073	48010686	48066420	1	None	KIAA1479, FLJ11598
15	SEMA6D	ENSG00000137872	ENST00000354744	protein_coding	KNOWN	CCDS32226	16770	3054	1017	48010686	48066420	1	None	KIAA1479, FLJ11598
15	SEMA6D	ENSG00000137872	ENST00000358066	protein_coding	KNOWN	CCDS32224	16770	3036	1011	48010686	48066420	1	None	KIAA1479, FLJ11598
15	SEMA6D	ENSG00000137872	ENST00000389428	protein_coding	KNOWN	CCDS32227	16770	2997	998	48010686	48066420	1	None	KIAA1479, FLJ11598
15	SEMA6D	ENSG00000137872	ENST00000559196	protein_coding	KNOWN	None	16770	658	218	48051920	48054516	1	None	KIAA1479, FLJ11598
15	SEMA6D	ENSG00000137872	ENST00000558431	retained_intron	KNOWN	None	16770	None	None	48058019	48059500	1	None	KIAA1479, FLJ11598
15	SEMA6D	ENSG00000137872	ENST00000559064	protein_coding	PUTATIVE	None	16770	163	53	48058774	48059712	1	None	KIAA1479, FLJ11598
15	SEMA6D	ENSG00000137872	ENST00000560006	protein_coding	NOVEL	None	16770	592	196	48058777	48062962	1	None	KIAA1479, FLJ11598
15	SEMA6D	ENSG00000137872	ENST00000537942	protein_coding	KNOWN	CCDS32224	16770	3036	1011	47704587	48066417	1	None	KIAA1479, FLJ11598
15	SEMA6D	ENSG00000137872	ENST00000389433	protein_coding	KNOWN	None	16770	3165	1054	48010686	48066417	1	None	KIAA1479, FLJ11598
15	SEMA6D	ENSG00000137872	ENST00000389432	protein_coding	KNOWN	None	16770	3093	1030	48010686	48066417	1	None	KIAA1479, FLJ11598
15	SEMA6D	ENSG00000137872	ENST00000355997	protein_coding	KNOWN	CCDS32228	16770	1794	597	48010686	48066417	1	None	KIAA1479, FLJ11598
X	SPANXA1	ENSG00000198021	ENST00000370519	protein_coding	KNOWN	CCDS14674	11218	294	97	140671796	140673133	-1	SPANX	NAP-X, SPAN-Xa, SPAN-Xb, CT11.1
17	MED11	ENSG00000161920	ENST00000575284	protein_coding	PUTATIVE	None	32687	258	85	4634723	4636607	1	None	HSPC296, MGC88387
17	MED11	ENSG00000161920	ENST00000573708	protein_coding	NOVEL	None	32687	282	93	4634726	4635728	1	None	HSPC296, MGC88387
17	MED11	ENSG00000161920	ENST00000293777	protein_coding	KNOWN	CCDS32533	32687	354	117	4634729	4636905	1	None	HSPC296, MGC88387
11	ZNF408	ENSG00000175213	ENST00000311764	protein_coding	KNOWN	CCDS7923	20041	2163	720	46722368	46727462	1	None	FLJ12827
11	ZNF408	ENSG00000175213	ENST00000531866	retained_intron	KNOWN	None	20041	None	None	46722580	46723453	1	None	FLJ12827
11	ZNF408	ENSG00000175213	ENST00000526410	retained_intron	KNOWN	None	20041	None	None	46722581	46724445	1	None	FLJ12827
11	ZNF408	ENSG00000175213	ENST00000534481	retained_intron	KNOWN	None	20041	None	None	46722758	46724313	1	None	FLJ12827
11	ZNF408	ENSG00000175213	ENST00000527008	retained_intron	KNOWN	None	20041	None	None	46724265	46726072	1	None	FLJ12827
1	TRMT1L	ENSG00000121486	ENST00000367506	protein_coding	KNOWN	CCDS1366	16782	2202	733	185087230	185126113	-1	C1orf25	None
1	TRMT1L	ENSG00000121486	ENST00000465827	processed_transcript	KNOWN	None	16782	None	None	185089185	185090001	-1	C1orf25	None
1	TRMT1L	ENSG00000121486	ENST00000458395	protein_coding	KNOWN	None	16782	639	212	185093972	185108692	-1	C1orf25	None
1	TRMT1L	ENSG00000121486	ENST00000487028	processed_transcript	KNOWN	None	16782	None	None	185113052	185126204	-1	C1orf25	None
1	TRMT1L	ENSG00000121486	ENST00000367504	protein_coding	KNOWN	None	16782	1173	390	185087220	185126116	-1	C1orf25	None
22	ZNF280B	ENSG00000198477	ENST00000406426	protein_coding	KNOWN	CCDS13799	23022	1632	543	22838767	22863472	-1	ZNF279, SUHW2	5'OY11.1, ZNF632
22	ZNF280B	ENSG00000198477	ENST00000360412	protein_coding	KNOWN	CCDS13799	23022	1632	543	22838774	22863505	-1	ZNF279, SUHW2	5'OY11.1, ZNF632
16	TMEM8A	ENSG00000129925	ENST00000431232	protein_coding	KNOWN	CCDS10407	17205	2316	771	420773	431982	-1	TMEM6, TMEM8	M83
16	TMEM8A	ENSG00000129925	ENST00000424078	protein_coding	NOVEL	None	17205	719	238	421862	424851	-1	TMEM6, TMEM8	M83
16	TMEM8A	ENSG00000129925	ENST00000250930	protein_coding	PUTATIVE	None	17205	1737	578	421864	431978	-1	TMEM6, TMEM8	M83
16	TMEM8A	ENSG00000129925	ENST00000448854	protein_coding	PUTATIVE	None	17205	732	243	422416	425215	-1	TMEM6, TMEM8	M83
16	TMEM8A	ENSG00000129925	ENST00000467452	retained_intron	KNOWN	None	17205	None	None	424005	425075	-1	TMEM6, TMEM8	M83
16	TMEM8A	ENSG00000129925	ENST00000475348	retained_intron	KNOWN	None	17205	None	None	424809	426475	-1	TMEM6, TMEM8	M83
16	TMEM8A	ENSG00000129925	ENST00000427313	protein_coding	PUTATIVE	None	17205	63	20	426806	436999	-1	TMEM6, TMEM8	M83
16	TMEM8A	ENSG00000129925	ENST00000476735	processed_transcript	KNOWN	None	17205	None	None	427108	437113	-1	TMEM6, TMEM8	M83
19	CD37	ENSG00000104894	ENST00000391859	nonsense_mediated_decay	KNOWN	None	1666	471	156	49838428	49843859	1	None	TSPAN26
19	CD37	ENSG00000104894	ENST00000597033	processed_transcript	KNOWN	None	1666	None	None	49838462	49840939	1	None	TSPAN26
19	CD37	ENSG00000104894	ENST00000598095	protein_coding	PUTATIVE	None	1666	609	202	49838653	49843389	1	None	TSPAN26
19	CD37	ENSG00000104894	ENST00000426897	protein_coding	KNOWN	CCDS46139	1666	642	213	49838653	49843832	1	None	TSPAN26
19	CD37	ENSG00000104894	ENST00000595725	nonsense_mediated_decay	KNOWN	None	1666	366	121	49838657	49843723	1	None	TSPAN26
19	CD37	ENSG00000104894	ENST00000323906	protein_coding	KNOWN	CCDS12760	1666	846	281	49838657	49843863	1	None	TSPAN26
19	CD37	ENSG00000104894	ENST00000593512	retained_intron	KNOWN	None	1666	None	None	49838663	49841218	1	None	TSPAN26
19	CD37	ENSG00000104894	ENST00000597852	retained_intron	KNOWN	None	1666	None	None	49838675	49843863	1	None	TSPAN26
19	CD37	ENSG00000104894	ENST00000535669	protein_coding	PUTATIVE	None	1666	813	270	49838684	49843462	1	None	TSPAN26
19	CD37	ENSG00000104894	ENST00000596426	processed_transcript	KNOWN	None	1666	None	None	49838691	49841458	1	None	TSPAN26
19	CD37	ENSG00000104894	ENST00000598134	retained_intron	KNOWN	None	1666	None	None	49838703	49840503	1	None	TSPAN26
19	CD37	ENSG00000104894	ENST00000597602	protein_coding	KNOWN	None	1666	80	25	49838714	49840420	1	None	TSPAN26
19	CD37	ENSG00000104894	ENST00000595660	protein_coding	PUTATIVE	None	1666	482	159	49838721	49840474	1	None	TSPAN26
19	CD37	ENSG00000104894	ENST00000594743	protein_coding	PUTATIVE	None	1666	763	253	49840472	49843284	1	None	TSPAN26
19	CD37	ENSG00000104894	ENST00000600121	processed_transcript	KNOWN	None	1666	None	None	49843852	49846592	1	None	TSPAN26
10	None	ENSG00000270541	ENST00000605671	processed_pseudogene	KNOWN	None	None	None	None	57506311	57506668	1	None	None
HSCHR6_MHC_MCF	NCR3	ENSG00000225211	ENST00000493712	processed_transcript	KNOWN	None	19077	None	None	31632976	31636893	-1	LY117	1C7, NKp30, CD337
HSCHR6_MHC_MCF	NCR3	ENSG00000225211	ENST00000459657	processed_transcript	KNOWN	None	19077	None	None	31632976	31637040	-1	LY117	1C7, NKp30, CD337
HSCHR6_MHC_MCF	NCR3	ENSG00000225211	ENST00000435674	protein_coding	KNOWN	None	19077	606	201	31632976	31637066	-1	LY117	1C7, NKp30, CD337
HSCHR6_MHC_MCF	NCR3	ENSG00000225211	ENST00000455825	protein_coding	KNOWN	None	19077	534	177	31632976	31637066	-1	LY117	1C7, NKp30, CD337
HSCHR6_MHC_MCF	NCR3	ENSG00000225211	ENST00000412603	protein_coding	KNOWN	None	19077	573	190	31633355	31637066	-1	LY117	1C7, NKp30, CD337
HSCHR6_MHC_MCF	NCR3	ENSG00000225211	ENST00000438663	protein_coding	KNOWN	None	19077	498	165	31633378	31636830	-1	LY117	1C7, NKp30, CD337
HSCHR6_MHC_MCF	NCR3	ENSG00000225211	ENST00000463064	nonsense_mediated_decay	KNOWN	None	19077	348	115	31633378	31636830	-1	LY117	1C7, NKp30, CD337
10	None	ENSG00000238707	ENST00000458762	snoRNA	NOVEL	None	None	None	None	58355723	58355791	-1	None	None
10	MIR3924	ENSG00000264747	ENST00000583084	miRNA	KNOWN	None	38984	None	None	59064239	59064319	-1	None	hsa-mir-3924
21	SLC37A1	ENSG00000160190	ENST00000419522	protein_coding	KNOWN	None	11024	56	17	43916128	43938620	1	None	None
21	SLC37A1	ENSG00000160190	ENST00000398341	protein_coding	KNOWN	CCDS13689	11024	1602	533	43919742	44001550	1	None	None
21	SLC37A1	ENSG00000160190	ENST00000484887	processed_transcript	KNOWN	None	11024	None	None	43919817	43923084	1	None	None
21	SLC37A1	ENSG00000160190	ENST00000471277	processed_transcript	KNOWN	None	11024	None	None	43934002	43946148	1	None	None
21	SLC37A1	ENSG00000160190	ENST00000352133	protein_coding	KNOWN	CCDS13689	11024	1602	533	43934024	44001550	1	None	None
21	SLC37A1	ENSG00000160190	ENST00000398343	protein_coding	KNOWN	None	11024	56	17	43934634	43938620	1	None	None
21	SLC37A1	ENSG00000160190	ENST00000487951	retained_intron	KNOWN	None	11024	None	None	43963627	43967827	1	None	None
21	SLC37A1	ENSG00000160190	ENST00000496416	processed_transcript	KNOWN	None	11024	None	None	43985937	43996057	1	None	None
1	DRAM2	ENSG00000156171	ENST00000286692	protein_coding	KNOWN	CCDS30801	28769	801	266	111659955	111682662	-1	TMEM77	MGC54289, PRO180, WWFQ154, RP5-1180E21.1
1	DRAM2	ENSG00000156171	ENST00000484310	processed_transcript	KNOWN	None	28769	None	None	111659955	111682825	-1	TMEM77	MGC54289, PRO180, WWFQ154, RP5-1180E21.1
1	DRAM2	ENSG00000156171	ENST00000461449	processed_transcript	KNOWN	None	28769	None	None	111660746	111670649	-1	TMEM77	MGC54289, PRO180, WWFQ154, RP5-1180E21.1
1	DRAM2	ENSG00000156171	ENST00000496430	nonsense_mediated_decay	KNOWN	None	28769	201	66	111660835	111682717	-1	TMEM77	MGC54289, PRO180, WWFQ154, RP5-1180E21.1
1	DRAM2	ENSG00000156171	ENST00000477588	processed_transcript	KNOWN	None	28769	None	None	111661182	111663218	-1	TMEM77	MGC54289, PRO180, WWFQ154, RP5-1180E21.1
1	DRAM2	ENSG00000156171	ENST00000477769	processed_transcript	KNOWN	None	28769	None	None	111661487	111663222	-1	TMEM77	MGC54289, PRO180, WWFQ154, RP5-1180E21.1
1	DRAM2	ENSG00000156171	ENST00000480600	processed_transcript	KNOWN	None	28769	None	None	111663138	111682142	-1	TMEM77	MGC54289, PRO180, WWFQ154, RP5-1180E21.1
1	DRAM2	ENSG00000156171	ENST00000462092	processed_transcript	KNOWN	None	28769	None	None	111663174	111682736	-1	TMEM77	MGC54289, PRO180, WWFQ154, RP5-1180E21.1
1	DRAM2	ENSG00000156171	ENST00000490780	processed_transcript	KNOWN	None	28769	None	None	111668000	111682712	-1	TMEM77	MGC54289, PRO180, WWFQ154, RP5-1180E21.1
1	DRAM2	ENSG00000156171	ENST00000463682	processed_transcript	KNOWN	None	28769	None	None	111668011	111682684	-1	TMEM77	MGC54289, PRO180, WWFQ154, RP5-1180E21.1
1	DRAM2	ENSG00000156171	ENST00000539140	protein_coding	KNOWN	CCDS30801	28769	801	266	111659957	111682838	-1	TMEM77	MGC54289, PRO180, WWFQ154, RP5-1180E21.1
20	SEL1L2	ENSG00000101251	ENST00000482196	processed_transcript	KNOWN	None	15897	None	None	13829893	13832065	-1	C20orf50	DKFZp434C1826
20	SEL1L2	ENSG00000101251	ENST00000475649	nonsense_mediated_decay	KNOWN	None	15897	134	43	13830044	13850830	-1	C20orf50	DKFZp434C1826
20	SEL1L2	ENSG00000101251	ENST00000284951	protein_coding	KNOWN	None	15897	2067	688	13830049	13971255	-1	C20orf50	DKFZp434C1826
20	SEL1L2	ENSG00000101251	ENST00000423870	nonsense_mediated_decay	KNOWN	None	15897	537	178	13830049	13971258	-1	C20orf50	DKFZp434C1826
20	SEL1L2	ENSG00000101251	ENST00000378072	protein_coding	NOVEL	CCDS59443	15897	1728	575	13830049	13971262	-1	C20orf50	DKFZp434C1826
20	SEL1L2	ENSG00000101251	ENST00000486903	processed_transcript	KNOWN	None	15897	None	None	13830049	13975979	-1	C20orf50	DKFZp434C1826
20	SEL1L2	ENSG00000101251	ENST00000492548	processed_transcript	KNOWN	None	15897	None	None	13830657	13850860	-1	C20orf50	DKFZp434C1826
20	SEL1L2	ENSG00000101251	ENST00000476952	processed_transcript	KNOWN	None	15897	None	None	13894110	13899769	-1	C20orf50	DKFZp434C1826
20	SEL1L2	ENSG00000101251	ENST00000473203	protein_coding	PUTATIVE	None	15897	133	43	13894508	13977089	-1	C20orf50	DKFZp434C1826
20	SEL1L2	ENSG00000101251	ENST00000495437	processed_transcript	KNOWN	None	15897	None	None	13908630	13912420	-1	C20orf50	DKFZp434C1826
20	SEL1L2	ENSG00000101251	ENST00000477435	processed_transcript	KNOWN	None	15897	None	None	13908685	13912409	-1	C20orf50	DKFZp434C1826
11	TMEM134	ENSG00000172663	ENST00000545682	nonsense_mediated_decay	KNOWN	None	26142	579	192	67231824	67236710	-1	None	FLJ21749
11	TMEM134	ENSG00000172663	ENST00000543661	retained_intron	KNOWN	None	26142	None	None	67231829	67232579	-1	None	FLJ21749
11	TMEM134	ENSG00000172663	ENST00000535813	processed_transcript	KNOWN	None	26142	None	None	67231829	67235064	-1	None	FLJ21749
11	TMEM134	ENSG00000172663	ENST00000393877	protein_coding	KNOWN	CCDS41678	26142	543	180	67231863	67236721	-1	None	FLJ21749
11	TMEM134	ENSG00000172663	ENST00000308022	protein_coding	PUTATIVE	CCDS8167	26142	588	195	67231908	67236705	-1	None	FLJ21749
11	TMEM134	ENSG00000172663	ENST00000535175	retained_intron	KNOWN	None	26142	None	None	67231935	67232804	-1	None	FLJ21749
11	TMEM134	ENSG00000172663	ENST00000541059	processed_transcript	KNOWN	None	26142	None	None	67231976	67235005	-1	None	FLJ21749
11	TMEM134	ENSG00000172663	ENST00000536020	nonsense_mediated_decay	KNOWN	None	26142	333	110	67232008	67236739	-1	None	FLJ21749
11	TMEM134	ENSG00000172663	ENST00000537601	retained_intron	KNOWN	None	26142	None	None	67232094	67235670	-1	None	FLJ21749
11	TMEM134	ENSG00000172663	ENST00000501408	retained_intron	KNOWN	None	26142	None	None	67233378	67236707	-1	None	FLJ21749
11	TMEM134	ENSG00000172663	ENST00000535585	retained_intron	KNOWN	None	26142	None	None	67234279	67236639	-1	None	FLJ21749
11	TMEM134	ENSG00000172663	ENST00000540133	nonsense_mediated_decay	KNOWN	None	26142	360	119	67234519	67236704	-1	None	FLJ21749
11	TMEM134	ENSG00000172663	ENST00000452789	protein_coding	PUTATIVE	None	26142	393	130	67234769	67236743	-1	None	FLJ21749
11	TMEM134	ENSG00000172663	ENST00000541598	retained_intron	KNOWN	None	26142	None	None	67234770	67236707	-1	None	FLJ21749
11	TMEM134	ENSG00000172663	ENST00000544903	protein_coding	PUTATIVE	None	26142	502	166	67234810	67236704	-1	None	FLJ21749
11	TMEM134	ENSG00000172663	ENST00000536773	retained_intron	KNOWN	None	26142	None	None	67234955	67236714	-1	None	FLJ21749
11	TMEM134	ENSG00000172663	ENST00000538561	retained_intron	KNOWN	None	26142	None	None	67235235	67236743	-1	None	FLJ21749
7	MAGI2-IT1	ENSG00000235751	ENST00000440555	sense_intronic	KNOWN	None	30058	None	None	78530591	78629614	-1	MAGI2-IT	PR47, MAGI2IT
9	MOB3B	ENSG00000120162	ENST00000262244	protein_coding	KNOWN	CCDS6520	23825	651	216	27325207	27529779	-1	MOBKL2B, C9orf35	MOB1D, FLJ13204
9	MOB3B	ENSG00000120162	ENST00000603061	processed_transcript	KNOWN	None	23825	None	None	27359022	27421712	-1	MOBKL2B, C9orf35	MOB1D, FLJ13204
3	MYL3	ENSG00000160808	ENST00000395869	protein_coding	KNOWN	CCDS2746	7584	588	195	46899362	46904932	-1	None	CMH8, VLC1, MLC1V, MLC1SB
3	MYL3	ENSG00000160808	ENST00000292327	protein_coding	KNOWN	CCDS2746	7584	588	195	46899362	46904973	-1	None	CMH8, VLC1, MLC1V, MLC1SB
3	MYL3	ENSG00000160808	ENST00000431168	protein_coding	KNOWN	None	7584	138	45	46902469	46923659	-1	None	CMH8, VLC1, MLC1V, MLC1SB
19	FXYD7	ENSG00000221946	ENST00000586063	protein_coding	PUTATIVE	None	4034	234	77	35634154	35644957	1	None	None
19	FXYD7	ENSG00000221946	ENST00000270310	protein_coding	KNOWN	CCDS12446	4034	243	80	35634154	35645204	1	None	None
19	FXYD7	ENSG00000221946	ENST00000439441	retained_intron	KNOWN	None	4034	None	None	35634160	35640598	1	None	None
19	FXYD7	ENSG00000221946	ENST00000588265	protein_coding	PUTATIVE	None	4034	354	117	35634183	35645046	1	None	None
X	SPANXA2	ENSG00000203926	ENST00000370518	protein_coding	KNOWN	CCDS44007	14328	294	97	140677562	140678899	1	SPANX	None
HSCHR6_MHC_DBB	HCG4P3	ENSG00000227025	ENST00000425509	unprocessed_pseudogene	KNOWN	None	22922	None	None	29963844	29964839	-1	None	HCGIV-03, HCGIV.2, HCGIV-3
9	TSC1	ENSG00000165699	ENST00000298552	protein_coding	KNOWN	CCDS6956	12362	3495	1164	135766735	135820008	-1	TSC	KIAA0243, LAM, hamartin
9	TSC1	ENSG00000165699	ENST00000493467	retained_intron	KNOWN	None	12362	None	None	135785198	135819982	-1	TSC	KIAA0243, LAM, hamartin
9	TSC1	ENSG00000165699	ENST00000403810	protein_coding	KNOWN	None	12362	1101	366	135786596	135820020	-1	TSC	KIAA0243, LAM, hamartin
9	TSC1	ENSG00000165699	ENST00000461879	processed_transcript	KNOWN	None	12362	None	None	135797206	135799071	-1	TSC	KIAA0243, LAM, hamartin
9	TSC1	ENSG00000165699	ENST00000475903	processed_transcript	KNOWN	None	12362	None	None	135797206	135820006	-1	TSC	KIAA0243, LAM, hamartin
9	TSC1	ENSG00000165699	ENST00000490179	processed_transcript	KNOWN	None	12362	None	None	135800974	135820008	-1	TSC	KIAA0243, LAM, hamartin
9	TSC1	ENSG00000165699	ENST00000440111	protein_coding	KNOWN	CCDS6956	12362	3495	1164	135766737	135804342	-1	TSC	KIAA0243, LAM, hamartin
9	TSC1	ENSG00000165699	ENST00000545250	protein_coding	KNOWN	CCDS55350	12362	3342	1113	135766737	135804342	-1	TSC	KIAA0243, LAM, hamartin
7	RNF216	ENSG00000011275	ENST00000425013	protein_coding	KNOWN	CCDS34595	21698	2601	866	5659678	5821327	-1	None	TRIAD3, UBCE7IP1, ZIN
7	RNF216	ENSG00000011275	ENST00000389902	protein_coding	KNOWN	CCDS34594	21698	2772	923	5662238	5821370	-1	None	TRIAD3, UBCE7IP1, ZIN
7	RNF216	ENSG00000011275	ENST00000389900	nonsense_mediated_decay	KNOWN	None	21698	981	326	5662326	5800769	-1	None	TRIAD3, UBCE7IP1, ZIN
7	RNF216	ENSG00000011275	ENST00000469375	processed_transcript	KNOWN	None	21698	None	None	5662558	5689646	-1	None	TRIAD3, UBCE7IP1, ZIN
7	RNF216	ENSG00000011275	ENST00000484458	processed_transcript	KNOWN	None	21698	None	None	5680979	5753072	-1	None	TRIAD3, UBCE7IP1, ZIN
7	RNF216	ENSG00000011275	ENST00000479541	retained_intron	KNOWN	None	21698	None	None	5769161	5779123	-1	None	TRIAD3, UBCE7IP1, ZIN
7	RNF216	ENSG00000011275	ENST00000411812	nonsense_mediated_decay	KNOWN	None	21698	150	49	5781210	5821277	-1	None	TRIAD3, UBCE7IP1, ZIN
7	RNF216	ENSG00000011275	ENST00000416985	protein_coding	KNOWN	None	21698	59	18	5800642	5821251	-1	None	TRIAD3, UBCE7IP1, ZIN
7	RNF216	ENSG00000011275	ENST00000476345	processed_transcript	KNOWN	None	21698	None	None	5800719	5819923	-1	None	TRIAD3, UBCE7IP1, ZIN
HSCHR6_MHC_DBB	HLA-J	ENSG00000234074	ENST00000468687	processed_transcript	KNOWN	None	4967	None	None	29964306	29967679	1	HLA-CDA12, D6S203	CDA12, HLA-59
HSCHR6_MHC_DBB	HLA-J	ENSG00000234074	ENST00000473928	processed_transcript	KNOWN	None	4967	None	None	29964310	29967679	1	HLA-CDA12, D6S203	CDA12, HLA-59
HSCHR6_MHC_DBB	HLA-J	ENSG00000234074	ENST00000474460	processed_transcript	KNOWN	None	4967	None	None	29964319	29967679	1	HLA-CDA12, D6S203	CDA12, HLA-59
HSCHR6_MHC_DBB	HLA-J	ENSG00000234074	ENST00000473825	transcribed_unprocessed_pseudogene	KNOWN	None	4967	None	None	29964329	29967262	1	HLA-CDA12, D6S203	CDA12, HLA-59
16	MT1F	ENSG00000198417	ENST00000334350	protein_coding	KNOWN	CCDS32456	7398	186	61	56691606	56693215	1	MT1	None
16	MT1F	ENSG00000198417	ENST00000564295	retained_intron	KNOWN	None	7398	None	None	56691643	56693215	1	MT1	None
16	MT1F	ENSG00000198417	ENST00000568475	protein_coding	PUTATIVE	None	7398	135	44	56691924	56693217	1	MT1	None
16	MT1F	ENSG00000198417	ENST00000567672	processed_transcript	PUTATIVE	None	7398	None	None	56693146	56694610	1	MT1	None
16	MT1F	ENSG00000198417	ENST00000394501	protein_coding	KNOWN	None	7398	189	62	56691855	56693214	1	MT1	None
5	SEPT8	ENSG00000164402	ENST00000378719	protein_coding	KNOWN	CCDS43358	16511	1452	483	132086509	132113067	-1	None	KIAA0202, SEP2
5	SEPT8	ENSG00000164402	ENST00000481030	processed_transcript	KNOWN	None	16511	None	None	132087151	132096563	-1	None	KIAA0202, SEP2
5	SEPT8	ENSG00000164402	ENST00000378721	protein_coding	PUTATIVE	None	16511	1383	460	132089871	132112930	-1	None	KIAA0202, SEP2
5	SEPT8	ENSG00000164402	ENST00000296873	protein_coding	NOVEL	CCDS43360	16511	1290	429	132091697	132113113	-1	None	KIAA0202, SEP2
5	SEPT8	ENSG00000164402	ENST00000378706	protein_coding	NOVEL	None	16511	1293	430	132092025	132113036	-1	None	KIAA0202, SEP2
5	SEPT8	ENSG00000164402	ENST00000378699	protein_coding	PUTATIVE	CCDS47262	16511	1110	369	132093835	132113908	-1	None	KIAA0202, SEP2
5	SEPT8	ENSG00000164402	ENST00000378701	protein_coding	NOVEL	None	16511	1323	440	132093836	132112953	-1	None	KIAA0202, SEP2
5	SEPT8	ENSG00000164402	ENST00000458488	protein_coding	NOVEL	CCDS43359	16511	1329	442	132093892	132112912	-1	None	KIAA0202, SEP2
5	SEPT8	ENSG00000164402	ENST00000371478	processed_transcript	KNOWN	None	16511	None	None	132097193	132101166	-1	None	KIAA0202, SEP2
5	SEPT8	ENSG00000164402	ENST00000453480	protein_coding	PUTATIVE	None	16511	391	129	132098295	132111658	-1	None	KIAA0202, SEP2
5	SEPT8	ENSG00000164402	ENST00000414594	protein_coding	PUTATIVE	None	16511	291	96	132099461	132113701	-1	None	KIAA0202, SEP2
5	SEPT8	ENSG00000164402	ENST00000371493	protein_coding	PUTATIVE	None	16511	236	77	132099516	132142933	-1	None	KIAA0202, SEP2
5	SEPT8	ENSG00000164402	ENST00000481794	retained_intron	KNOWN	None	16511	None	None	132099653	132112913	-1	None	KIAA0202, SEP2
5	SEPT8	ENSG00000164402	ENST00000492490	processed_transcript	KNOWN	None	16511	None	None	132100083	132112940	-1	None	KIAA0202, SEP2
5	SEPT8	ENSG00000164402	ENST00000448933	protein_coding	KNOWN	CCDS47262	16511	1110	369	132091697	132113561	-1	None	KIAA0202, SEP2
10	None	ENSG00000235810	ENST00000434711	processed_pseudogene	KNOWN	None	None	None	None	59272917	59273185	1	None	None
10	None	ENSG00000223841	ENST00000435086	processed_pseudogene	KNOWN	None	None	None	None	59715055	59716938	1	None	None
3	PLCL2	ENSG00000154822	ENST00000460467	processed_transcript	KNOWN	None	9064	None	None	16844159	17052576	1	PLCE2	KIAA1092
3	PLCL2	ENSG00000154822	ENST00000418129	protein_coding	KNOWN	CCDS33713	9064	3006	1001	16926452	17132086	1	PLCE2	KIAA1092
3	PLCL2	ENSG00000154822	ENST00000432376	protein_coding	KNOWN	CCDS33713	9064	3006	1001	16974582	17132085	1	PLCE2	KIAA1092
3	PLCL2	ENSG00000154822	ENST00000419842	protein_coding	PUTATIVE	None	9064	2114	703	17051986	17123038	1	PLCE2	KIAA1092
3	PLCL2	ENSG00000154822	ENST00000396755	protein_coding	KNOWN	None	9064	2883	960	16926452	17122736	1	PLCE2	KIAA1092
10	MRPS35P3	ENSG00000270192	ENST00000603189	processed_pseudogene	KNOWN	None	29770	None	None	59742045	59742753	1	None	None
HSCHR6_MHC_QBL	B3GALT4	ENSG00000206285	ENST00000383209	protein_coding	KNOWN	None	919	1137	378	33173759	33175444	1	None	beta3Gal-T4, GalT4
22	ZNF280A	ENSG00000169548	ENST00000302097	protein_coding	KNOWN	CCDS13800	18597	1629	542	22868060	22874613	-1	ZNF280, SUHW1	3'OY11.1, ZNF636
HSCHR6_MHC_DBB	ETF1P1	ENSG00000235764	ENST00000452822	processed_pseudogene	KNOWN	None	3478	None	None	29989787	29991077	1	SUP45L2	HCGVII
22	ARHGAP8	ENSG00000241484	ENST00000389774	protein_coding	KNOWN	CCDS33664	677	1395	464	45148438	45258664	1	None	FLJ20185, BPGAP1
22	ARHGAP8	ENSG00000241484	ENST00000460809	retained_intron	KNOWN	None	677	None	None	45148454	45246843	1	None	FLJ20185, BPGAP1
22	ARHGAP8	ENSG00000241484	ENST00000396119	protein_coding	KNOWN	None	677	392	129	45148466	45204978	1	None	FLJ20185, BPGAP1
22	ARHGAP8	ENSG00000241484	ENST00000447333	nonsense_mediated_decay	KNOWN	None	677	492	163	45148466	45221471	1	None	FLJ20185, BPGAP1
22	ARHGAP8	ENSG00000241484	ENST00000336963	protein_coding	PUTATIVE	CCDS56233	677	918	305	45148483	45258665	1	None	FLJ20185, BPGAP1
22	ARHGAP8	ENSG00000241484	ENST00000356099	protein_coding	KNOWN	CCDS14060	677	1302	433	45148486	45258664	1	None	FLJ20185, BPGAP1
22	ARHGAP8	ENSG00000241484	ENST00000412433	protein_coding	KNOWN	None	677	346	114	45148585	45210598	1	None	FLJ20185, BPGAP1
22	ARHGAP8	ENSG00000241484	ENST00000469872	processed_transcript	KNOWN	None	677	None	None	45161109	45182388	1	None	FLJ20185, BPGAP1
22	ARHGAP8	ENSG00000241484	ENST00000389772	nonsense_mediated_decay	KNOWN	None	677	87	28	45182337	45258664	1	None	FLJ20185, BPGAP1
22	ARHGAP8	ENSG00000241484	ENST00000495219	retained_intron	KNOWN	None	677	None	None	45182432	45204689	1	None	FLJ20185, BPGAP1
22	ARHGAP8	ENSG00000241484	ENST00000498310	retained_intron	KNOWN	None	677	None	None	45197700	45221431	1	None	FLJ20185, BPGAP1
22	ARHGAP8	ENSG00000241484	ENST00000469342	retained_intron	KNOWN	None	677	None	None	45255541	45258343	1	None	FLJ20185, BPGAP1
22	ARHGAP8	ENSG00000241484	ENST00000517296	protein_coding	KNOWN	None	677	1932	643	45098355	45258586	1	None	FLJ20185, BPGAP1
22	ARHGAP8	ENSG00000241484	ENST00000389773	protein_coding	KNOWN	CCDS54538	677	1668	555	45098382	45258664	1	None	FLJ20185, BPGAP1
X	SPANXD	ENSG00000196406	ENST00000370515	protein_coding	KNOWN	CCDS14675	14332	294	97	140785568	140786896	-1	None	CT11.4
9	CYP4F60P	ENSG00000230635	ENST00000439449	unprocessed_pseudogene	KNOWN	None	42468	None	None	44019596	44020591	-1	None	CYP4F-se15[6:7:8]
17	CXCL16	ENSG00000161921	ENST00000293778	protein_coding	KNOWN	CCDS11052	16642	822	273	4636821	4643114	-1	None	SR-PSOX, CXCLG16, SRPSOX
17	CXCL16	ENSG00000161921	ENST00000576153	processed_transcript	KNOWN	None	16642	None	None	4636870	4639675	-1	None	SR-PSOX, CXCLG16, SRPSOX
17	CXCL16	ENSG00000161921	ENST00000574412	protein_coding	KNOWN	CCDS11052	16642	822	273	4637581	4643217	-1	None	SR-PSOX, CXCLG16, SRPSOX
17	CXCL16	ENSG00000161921	ENST00000575168	retained_intron	KNOWN	None	16642	None	None	4637878	4641834	-1	None	SR-PSOX, CXCLG16, SRPSOX
17	CXCL16	ENSG00000161921	ENST00000573123	protein_coding	PUTATIVE	None	16642	281	92	4638662	4642440	-1	None	SR-PSOX, CXCLG16, SRPSOX
HSCHR6_MHC_APD	RPL15P4	ENSG00000233965	ENST00000450413	processed_pseudogene	KNOWN	None	21663	None	None	31507182	31507761	1	None	Em:AC006046.2
HSCHR6_MHC_SSTO	VARS	ENSG00000231945	ENST00000425144	protein_coding	KNOWN	None	12651	3551	1182	31735249	31752704	-1	VARS2	None
HSCHR6_MHC_SSTO	VARS	ENSG00000231945	ENST00000446350	protein_coding	KNOWN	None	12651	863	286	31738186	31740320	-1	VARS2	None
HSCHR6_MHC_SSTO	VARS	ENSG00000231945	ENST00000474299	processed_transcript	KNOWN	None	12651	None	None	31738282	31739925	-1	VARS2	None
HSCHR6_MHC_SSTO	VARS	ENSG00000231945	ENST00000459794	retained_intron	KNOWN	None	12651	None	None	31738608	31739656	-1	VARS2	None
HSCHR6_MHC_SSTO	VARS	ENSG00000231945	ENST00000476714	retained_intron	KNOWN	None	12651	None	None	31738609	31739481	-1	VARS2	None
HSCHR6_MHC_SSTO	VARS	ENSG00000231945	ENST00000497172	retained_intron	KNOWN	None	12651	None	None	31739089	31740151	-1	VARS2	None
HSCHR6_MHC_SSTO	VARS	ENSG00000231945	ENST00000473729	retained_intron	KNOWN	None	12651	None	None	31739424	31740970	-1	VARS2	None
HSCHR6_MHC_SSTO	VARS	ENSG00000231945	ENST00000470738	processed_transcript	KNOWN	None	12651	None	None	31739431	31740160	-1	VARS2	None
HSCHR6_MHC_SSTO	VARS	ENSG00000231945	ENST00000489089	retained_intron	KNOWN	None	12651	None	None	31740143	31742167	-1	VARS2	None
HSCHR6_MHC_SSTO	VARS	ENSG00000231945	ENST00000461732	retained_intron	KNOWN	None	12651	None	None	31742330	31750691	-1	VARS2	None
HSCHR6_MHC_SSTO	VARS	ENSG00000231945	ENST00000473547	retained_intron	KNOWN	None	12651	None	None	31742978	31750009	-1	VARS2	None
HSCHR6_MHC_SSTO	VARS	ENSG00000231945	ENST00000455956	protein_coding	KNOWN	None	12651	284	93	31750717	31752710	-1	VARS2	None
5	FAT2	ENSG00000086570	ENST00000520200	protein_coding	NOVEL	None	3596	3367	1121	150883654	150911533	-1	None	MEGF1, CDHF8, HFAT2, CDHR9
5	FAT2	ENSG00000086570	ENST00000261800	protein_coding	KNOWN	CCDS4317	3596	13050	4349	150883655	150948505	-1	None	MEGF1, CDHF8, HFAT2, CDHR9
11	C11orf58	ENSG00000110696	ENST00000527893	processed_transcript	KNOWN	None	16990	None	None	16634679	16769968	1	None	SMAP
11	C11orf58	ENSG00000110696	ENST00000228136	protein_coding	KNOWN	CCDS7822	16990	552	183	16759948	16777770	1	None	SMAP
11	C11orf58	ENSG00000110696	ENST00000524439	protein_coding	NOVEL	None	16990	270	89	16760191	16776453	1	None	SMAP
11	C11orf58	ENSG00000110696	ENST00000528634	protein_coding	PUTATIVE	None	16990	470	155	16760205	16775582	1	None	SMAP
11	C11orf58	ENSG00000110696	ENST00000525684	protein_coding	PUTATIVE	None	16990	261	86	16760205	16776614	1	None	SMAP
11	C11orf58	ENSG00000110696	ENST00000525256	retained_intron	KNOWN	None	16990	None	None	16760206	16770138	1	None	SMAP
11	C11orf58	ENSG00000110696	ENST00000525106	retained_intron	KNOWN	None	16990	None	None	16765783	16769743	1	None	SMAP
11	C11orf58	ENSG00000110696	ENST00000524461	retained_intron	KNOWN	None	16990	None	None	16768251	16776893	1	None	SMAP
11	C11orf58	ENSG00000110696	ENST00000531658	retained_intron	KNOWN	None	16990	None	None	16770661	16776894	1	None	SMAP
11	C11orf58	ENSG00000110696	ENST00000524508	processed_transcript	KNOWN	None	16990	None	None	16777572	16778428	1	None	SMAP
11	C11orf58	ENSG00000110696	ENST00000422258	protein_coding	KNOWN	None	16990	420	139	16760194	16777436	1	None	SMAP
9	None	ENSG00000233569	ENST00000450938	lincRNA	KNOWN	None	None	None	None	120410884	120419305	1	None	None
HSCHR6_MHC_DBB	SKIV2L	ENSG00000223493	ENST00000429465	protein_coding	KNOWN	None	10898	3741	1246	31909043	31919714	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_DBB	SKIV2L	ENSG00000223493	ENST00000460033	processed_transcript	KNOWN	None	10898	None	None	31909080	31911349	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_DBB	SKIV2L	ENSG00000223493	ENST00000465225	processed_transcript	KNOWN	None	10898	None	None	31909102	31912546	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_DBB	SKIV2L	ENSG00000223493	ENST00000497600	retained_intron	KNOWN	None	10898	None	None	31909111	31919714	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_DBB	SKIV2L	ENSG00000223493	ENST00000494416	retained_intron	KNOWN	None	10898	None	None	31909154	31909921	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_DBB	SKIV2L	ENSG00000223493	ENST00000471708	processed_transcript	KNOWN	None	10898	None	None	31911460	31912973	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_DBB	SKIV2L	ENSG00000223493	ENST00000473816	processed_transcript	PUTATIVE	None	10898	None	None	31916791	31918407	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_DBB	SKIV2L	ENSG00000223493	ENST00000463549	retained_intron	KNOWN	None	10898	None	None	31916984	31918411	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_DBB	SKIV2L	ENSG00000223493	ENST00000488660	retained_intron	KNOWN	None	10898	None	None	31917066	31918949	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_DBB	SKIV2L	ENSG00000223493	ENST00000479139	processed_transcript	PUTATIVE	None	10898	None	None	31918286	31919714	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_DBB	SKIV2L	ENSG00000223493	ENST00000485243	retained_intron	KNOWN	None	10898	None	None	31918417	31919371	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_DBB	SKIV2L	ENSG00000223493	ENST00000494671	retained_intron	KNOWN	None	10898	None	None	31918438	31919714	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_DBB	SKIV2L	ENSG00000223493	ENST00000476338	processed_transcript	KNOWN	None	10898	None	None	31918443	31919714	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_DBB	SKIV2L	ENSG00000223493	ENST00000490271	processed_transcript	KNOWN	None	10898	None	None	31918649	31919714	1	SKIV2	HLP, DDX13, SKI2W, 170A
12	TMEM5	ENSG00000118600	ENST00000261234	protein_coding	KNOWN	CCDS8966	13530	1332	443	64173583	64203300	1	None	HP10481
12	TMEM5	ENSG00000118600	ENST00000536219	retained_intron	KNOWN	None	13530	None	None	64173622	64179169	1	None	HP10481
12	TMEM5	ENSG00000118600	ENST00000543342	nonsense_mediated_decay	KNOWN	None	13530	363	120	64173646	64202880	1	None	HP10481
12	TMEM5	ENSG00000118600	ENST00000537982	processed_transcript	KNOWN	None	13530	None	None	64173897	64195983	1	None	HP10481
12	TMEM5	ENSG00000118600	ENST00000537373	protein_coding	PUTATIVE	None	13530	552	183	64173906	64203338	1	None	HP10481
12	TMEM5	ENSG00000118600	ENST00000535963	processed_transcript	PUTATIVE	None	13530	None	None	64178750	64184333	1	None	HP10481
12	TMEM5	ENSG00000118600	ENST00000433461	retained_intron	KNOWN	None	13530	None	None	64197485	64202756	1	None	HP10481
16	WDR59	ENSG00000103091	ENST00000262144	protein_coding	KNOWN	CCDS32488	25706	2925	974	74907468	75019046	-1	None	FLJ12270
16	WDR59	ENSG00000103091	ENST00000569183	retained_intron	KNOWN	None	25706	None	None	74907977	74920133	-1	None	FLJ12270
16	WDR59	ENSG00000103091	ENST00000569968	retained_intron	KNOWN	None	25706	None	None	74908293	74920367	-1	None	FLJ12270
16	WDR59	ENSG00000103091	ENST00000563797	protein_coding	NOVEL	None	25706	652	216	74908324	74937918	-1	None	FLJ12270
16	WDR59	ENSG00000103091	ENST00000567018	retained_intron	KNOWN	None	25706	None	None	74922109	74927838	-1	None	FLJ12270
16	WDR59	ENSG00000103091	ENST00000569788	retained_intron	KNOWN	None	25706	None	None	74922142	74938244	-1	None	FLJ12270
16	WDR59	ENSG00000103091	ENST00000563381	retained_intron	KNOWN	None	25706	None	None	74923558	74938055	-1	None	FLJ12270
16	WDR59	ENSG00000103091	ENST00000569229	protein_coding	NOVEL	None	25706	901	299	74923601	74946133	-1	None	FLJ12270
16	WDR59	ENSG00000103091	ENST00000566924	nonsense_mediated_decay	KNOWN	None	25706	144	47	74923621	74943504	-1	None	FLJ12270
16	WDR59	ENSG00000103091	ENST00000570070	retained_intron	KNOWN	None	25706	None	None	74927605	74943633	-1	None	FLJ12270
16	WDR59	ENSG00000103091	ENST00000569115	retained_intron	KNOWN	None	25706	None	None	74942632	74943523	-1	None	FLJ12270
16	WDR59	ENSG00000103091	ENST00000562371	retained_intron	KNOWN	None	25706	None	None	74943423	74949935	-1	None	FLJ12270
16	WDR59	ENSG00000103091	ENST00000569549	retained_intron	KNOWN	None	25706	None	None	74943645	74964690	-1	None	FLJ12270
16	WDR59	ENSG00000103091	ENST00000536050	retained_intron	KNOWN	None	25706	None	None	74945903	75018724	-1	None	FLJ12270
16	WDR59	ENSG00000103091	ENST00000562539	retained_intron	KNOWN	None	25706	None	None	74946016	74950058	-1	None	FLJ12270
16	WDR59	ENSG00000103091	ENST00000562854	processed_transcript	KNOWN	None	25706	None	None	74949358	74949865	-1	None	FLJ12270
16	WDR59	ENSG00000103091	ENST00000561717	retained_intron	KNOWN	None	25706	None	None	74949578	74955858	-1	None	FLJ12270
16	WDR59	ENSG00000103091	ENST00000568462	processed_transcript	KNOWN	None	25706	None	None	74957848	74999708	-1	None	FLJ12270
16	WDR59	ENSG00000103091	ENST00000568323	processed_transcript	KNOWN	None	25706	None	None	74972149	75034071	-1	None	FLJ12270
16	WDR59	ENSG00000103091	ENST00000563111	protein_coding	PUTATIVE	None	25706	469	155	74976638	75013014	-1	None	FLJ12270
16	WDR59	ENSG00000103091	ENST00000562331	processed_transcript	KNOWN	None	25706	None	None	74983750	75031071	-1	None	FLJ12270
16	WDR59	ENSG00000103091	ENST00000564859	nonsense_mediated_decay	KNOWN	None	25706	108	35	74990382	75018929	-1	None	FLJ12270
16	WDR59	ENSG00000103091	ENST00000569421	processed_transcript	KNOWN	None	25706	None	None	74996718	74999720	-1	None	FLJ12270
X	POLA1	ENSG00000101868	ENST00000379068	protein_coding	KNOWN	None	9173	4407	1468	24712036	25015103	1	POLA	p180
X	POLA1	ENSG00000101868	ENST00000379059	protein_coding	KNOWN	CCDS14214	9173	4389	1462	24712064	25015103	1	POLA	p180
X	POLA1	ENSG00000101868	ENST00000493342	processed_transcript	KNOWN	None	9173	None	None	24745050	24752470	1	POLA	p180
X	POLA1	ENSG00000101868	ENST00000480125	processed_transcript	KNOWN	None	9173	None	None	24763620	24828898	1	POLA	p180
X	POLA1	ENSG00000101868	ENST00000494204	processed_transcript	KNOWN	None	9173	None	None	24830947	24860100	1	POLA	p180
12	COQ5	ENSG00000110871	ENST00000288532	protein_coding	KNOWN	CCDS31912	28722	984	327	120941077	120966985	-1	None	MGC4767
12	COQ5	ENSG00000110871	ENST00000445328	protein_coding	NOVEL	None	28722	762	253	120941377	120966964	-1	None	MGC4767
12	COQ5	ENSG00000110871	ENST00000552443	protein_coding	PUTATIVE	None	28722	640	212	120941772	120966943	-1	None	MGC4767
12	COQ5	ENSG00000110871	ENST00000546838	retained_intron	KNOWN	None	28722	None	None	120947654	120954487	-1	None	MGC4767
12	COQ5	ENSG00000110871	ENST00000547943	protein_coding	NOVEL	None	28722	528	175	120947823	120966968	-1	None	MGC4767
12	COQ5	ENSG00000110871	ENST00000551769	protein_coding	PUTATIVE	None	28722	392	129	120947866	120972237	-1	None	MGC4767
12	COQ5	ENSG00000110871	ENST00000547736	protein_coding	PUTATIVE	None	28722	274	90	120960017	120966958	-1	None	MGC4767
12	COQ5	ENSG00000110871	ENST00000547448	retained_intron	KNOWN	None	28722	None	None	120964696	120966957	-1	None	MGC4767
7	DENND2A	ENSG00000146966	ENST00000275884	protein_coding	KNOWN	CCDS43659	22212	3030	1009	140218220	140340576	-1	KIAA1277	FAM31D
7	DENND2A	ENSG00000146966	ENST00000461883	nonsense_mediated_decay	KNOWN	None	22212	2595	864	140218260	140302312	-1	KIAA1277	FAM31D
7	DENND2A	ENSG00000146966	ENST00000496613	protein_coding	KNOWN	CCDS43659	22212	3030	1009	140218264	140340345	-1	KIAA1277	FAM31D
7	DENND2A	ENSG00000146966	ENST00000469373	protein_coding	NOVEL	None	22212	490	162	140227116	140255513	-1	KIAA1277	FAM31D
7	DENND2A	ENSG00000146966	ENST00000492720	protein_coding	KNOWN	None	22212	2388	795	140243378	140305606	-1	KIAA1277	FAM31D
7	DENND2A	ENSG00000146966	ENST00000475837	protein_coding	PUTATIVE	None	22212	316	104	140269445	140340586	-1	KIAA1277	FAM31D
7	DENND2A	ENSG00000146966	ENST00000491728	protein_coding	KNOWN	None	22212	473	156	140301725	140341285	-1	KIAA1277	FAM31D
7	DENND2A	ENSG00000146966	ENST00000489552	protein_coding	KNOWN	None	22212	272	89	140301926	140373793	-1	KIAA1277	FAM31D
7	DENND2A	ENSG00000146966	ENST00000477488	protein_coding	KNOWN	None	22212	236	77	140301962	140340098	-1	KIAA1277	FAM31D
7	DENND2A	ENSG00000146966	ENST00000537639	protein_coding	KNOWN	CCDS43659	22212	3030	1009	140218230	140302342	-1	KIAA1277	FAM31D
18	SEH1L	ENSG00000085415	ENST00000592170	protein_coding	PUTATIVE	None	30379	232	76	12947132	12955609	1	None	SEH1A, SEH1B, Seh1, SEC13L
18	SEH1L	ENSG00000085415	ENST00000262124	protein_coding	KNOWN	CCDS45832	30379	1083	360	12947994	12987535	1	None	SEH1A, SEH1B, Seh1, SEC13L
18	SEH1L	ENSG00000085415	ENST00000585730	protein_coding	NOVEL	None	30379	474	157	12948013	12971251	1	None	SEH1A, SEH1B, Seh1, SEC13L
18	SEH1L	ENSG00000085415	ENST00000399892	protein_coding	KNOWN	CCDS32791	30379	1266	421	12948020	12987535	1	None	SEH1A, SEH1B, Seh1, SEC13L
18	SEH1L	ENSG00000085415	ENST00000589446	protein_coding	NOVEL	None	30379	569	188	12948035	12971250	1	None	SEH1A, SEH1B, Seh1, SEC13L
18	SEH1L	ENSG00000085415	ENST00000587761	protein_coding	NOVEL	None	30379	789	262	12948047	12978859	1	None	SEH1A, SEH1B, Seh1, SEC13L
18	SEH1L	ENSG00000085415	ENST00000588251	processed_transcript	KNOWN	None	30379	None	None	12948504	12971248	1	None	SEH1A, SEH1B, Seh1, SEC13L
18	SEH1L	ENSG00000085415	ENST00000592582	processed_transcript	KNOWN	None	30379	None	None	12971562	12985717	1	None	SEH1A, SEH1B, Seh1, SEC13L
18	SEH1L	ENSG00000085415	ENST00000590843	retained_intron	KNOWN	None	30379	None	None	12976287	12987530	1	None	SEH1A, SEH1B, Seh1, SEC13L
18	SEH1L	ENSG00000085415	ENST00000590032	retained_intron	KNOWN	None	30379	None	None	12978828	12983216	1	None	SEH1A, SEH1B, Seh1, SEC13L
10	None	ENSG00000229656	ENST00000450890	lincRNA	KNOWN	None	None	None	None	33247773	33371030	1	None	None
10	None	ENSG00000229656	ENST00000414157	lincRNA	KNOWN	None	None	None	None	33271469	33371030	1	None	None
HSCHR6_MHC_COX	PPP1R11	ENSG00000234058	ENST00000430828	protein_coding	KNOWN	None	9285	225	74	30024382	30028006	1	TCTE5	HCGV, Tctex5, HCG-V
HSCHR6_MHC_COX	PPP1R11	ENSG00000234058	ENST00000436591	protein_coding	KNOWN	None	9285	381	126	30024761	30028006	1	TCTE5	HCGV, Tctex5, HCG-V
HSCHR6_MHC_COX	PPP1R11	ENSG00000234058	ENST00000448210	protein_coding	KNOWN	None	9285	225	74	30024878	30028006	1	TCTE5	HCGV, Tctex5, HCG-V
HSCHR6_MHC_COX	PPP1R11	ENSG00000234058	ENST00000444994	protein_coding	KNOWN	None	9285	225	74	30025216	30028006	1	TCTE5	HCGV, Tctex5, HCG-V
HSCHR6_MHC_COX	PPP1R11	ENSG00000234058	ENST00000412077	protein_coding	KNOWN	None	9285	225	74	30025249	30028006	1	TCTE5	HCGV, Tctex5, HCG-V
HSCHR6_MHC_COX	PPP1R11	ENSG00000234058	ENST00000422273	protein_coding	KNOWN	None	9285	225	74	30025879	30028006	1	TCTE5	HCGV, Tctex5, HCG-V
3	CSTA	ENSG00000121552	ENST00000264474	protein_coding	KNOWN	CCDS3011	2481	297	98	122044091	122060819	1	STF1, STFA	None
3	CSTA	ENSG00000121552	ENST00000479204	protein_coding	PUTATIVE	None	2481	192	63	122044109	122057117	1	STF1, STFA	None
HSCHR6_MHC_QBL	WDR46	ENSG00000206284	ENST00000383208	protein_coding	KNOWN	None	13923	1833	610	33175727	33186150	-1	C6orf11	BING4, UTP7
HSCHR6_MHC_QBL	WDR46	ENSG00000206284	ENST00000479787	processed_transcript	KNOWN	None	13923	None	None	33175727	33177470	-1	C6orf11	BING4, UTP7
HSCHR6_MHC_QBL	WDR46	ENSG00000206284	ENST00000490155	processed_transcript	KNOWN	None	13923	None	None	33175727	33177530	-1	C6orf11	BING4, UTP7
HSCHR6_MHC_QBL	WDR46	ENSG00000206284	ENST00000469633	processed_transcript	PUTATIVE	None	13923	None	None	33175727	33177141	-1	C6orf11	BING4, UTP7
HSCHR6_MHC_QBL	WDR46	ENSG00000206284	ENST00000466751	retained_intron	KNOWN	None	13923	None	None	33176190	33184052	-1	C6orf11	BING4, UTP7
HSCHR6_MHC_QBL	WDR46	ENSG00000206284	ENST00000416777	protein_coding	KNOWN	None	13923	968	321	33177535	33185510	-1	C6orf11	BING4, UTP7
HSCHR6_MHC_QBL	WDR46	ENSG00000206284	ENST00000486835	retained_intron	KNOWN	None	13923	None	None	33183866	33184649	-1	C6orf11	BING4, UTP7
HSCHR6_MHC_QBL	WDR46	ENSG00000206284	ENST00000476418	processed_transcript	KNOWN	None	13923	None	None	33184115	33185870	-1	C6orf11	BING4, UTP7
HSCHR6_MHC_QBL	WDR46	ENSG00000206284	ENST00000470783	processed_transcript	KNOWN	None	13923	None	None	33184287	33185825	-1	C6orf11	BING4, UTP7
HSCHR6_MHC_QBL	WDR46	ENSG00000206284	ENST00000492000	retained_intron	KNOWN	None	13923	None	None	33184679	33185635	-1	C6orf11	BING4, UTP7
17	None	ENSG00000269871	ENST00000593646	protein_coding	NOVEL	None	None	522	173	6915928	6917755	-1	None	None
17	PRPSAP1	ENSG00000161542	ENST00000446526	protein_coding	KNOWN	CCDS11743	9466	1158	385	74305567	74350230	-1	None	PAP39
17	PRPSAP1	ENSG00000161542	ENST00000324684	protein_coding	PUTATIVE	None	9466	849	282	74307015	74350279	-1	None	PAP39
17	PRPSAP1	ENSG00000161542	ENST00000588364	processed_transcript	KNOWN	None	9466	None	None	74307467	74309821	-1	None	PAP39
17	PRPSAP1	ENSG00000161542	ENST00000592474	retained_intron	KNOWN	None	9466	None	None	74308874	74310771	-1	None	PAP39
17	PRPSAP1	ENSG00000161542	ENST00000488339	retained_intron	KNOWN	None	9466	None	None	74308874	74324945	-1	None	PAP39
17	PRPSAP1	ENSG00000161542	ENST00000435555	protein_coding	PUTATIVE	None	9466	690	229	74308951	74351010	-1	None	PAP39
17	PRPSAP1	ENSG00000161542	ENST00000472686	retained_intron	KNOWN	None	9466	None	None	74309682	74325067	-1	None	PAP39
17	PRPSAP1	ENSG00000161542	ENST00000586137	retained_intron	KNOWN	None	9466	None	None	74309905	74326382	-1	None	PAP39
17	PRPSAP1	ENSG00000161542	ENST00000436498	protein_coding	PUTATIVE	None	9466	472	156	74324798	74349533	-1	None	PAP39
17	PRPSAP1	ENSG00000161542	ENST00000494662	retained_intron	KNOWN	None	9466	None	None	74326564	74349709	-1	None	PAP39
17	PRPSAP1	ENSG00000161542	ENST00000423915	protein_coding	PUTATIVE	None	9466	269	88	74326633	74380602	-1	None	PAP39
17	PRPSAP1	ENSG00000161542	ENST00000442767	protein_coding	PUTATIVE	None	9466	313	103	74328368	74380565	-1	None	PAP39
22	PRAME	ENSG00000185686	ENST00000398743	protein_coding	KNOWN	CCDS13801	9336	1530	509	22890123	22901747	-1	MAPE	CT130
22	PRAME	ENSG00000185686	ENST00000492657	retained_intron	KNOWN	None	9336	None	None	22890123	22901768	-1	MAPE	CT130
22	PRAME	ENSG00000185686	ENST00000405655	protein_coding	KNOWN	CCDS13801	9336	1530	509	22890126	22901550	-1	MAPE	CT130
22	PRAME	ENSG00000185686	ENST00000402697	protein_coding	KNOWN	CCDS13801	9336	1530	509	22890189	22901695	-1	MAPE	CT130
22	PRAME	ENSG00000185686	ENST00000439106	protein_coding	KNOWN	None	9336	605	200	22892496	22901686	-1	MAPE	CT130
22	PRAME	ENSG00000185686	ENST00000438888	protein_coding	PUTATIVE	None	9336	566	187	22892605	22898347	-1	MAPE	CT130
22	PRAME	ENSG00000185686	ENST00000420709	protein_coding	KNOWN	None	9336	458	151	22892643	22901490	-1	MAPE	CT130
22	PRAME	ENSG00000185686	ENST00000476336	processed_transcript	KNOWN	None	9336	None	None	22892668	22900141	-1	MAPE	CT130
22	PRAME	ENSG00000185686	ENST00000485532	processed_transcript	KNOWN	None	9336	None	None	22892721	22896600	-1	MAPE	CT130
22	PRAME	ENSG00000185686	ENST00000406503	protein_coding	KNOWN	None	9336	348	115	22893176	22901674	-1	MAPE	CT130
22	PRAME	ENSG00000185686	ENST00000442481	nonsense_mediated_decay	KNOWN	None	9336	195	64	22893241	22900012	-1	MAPE	CT130
22	PRAME	ENSG00000185686	ENST00000403441	protein_coding	KNOWN	None	9336	259	85	22893274	22900174	-1	MAPE	CT130
22	PRAME	ENSG00000185686	ENST00000543184	protein_coding	KNOWN	CCDS13801	9336	1530	509	22890124	22901696	-1	MAPE	CT130
22	PRAME	ENSG00000185686	ENST00000398741	protein_coding	KNOWN	CCDS13801	9336	1530	509	22890124	22901550	-1	MAPE	CT130
22	PRAME	ENSG00000185686	ENST00000539862	protein_coding	KNOWN	None	9336	1482	493	22890128	22896603	-1	MAPE	CT130
22	PRAME	ENSG00000185686	ENST00000424204	protein_coding	KNOWN	None	9336	1482	493	22890323	22898347	-1	MAPE	CT130
17	ZNF830	ENSG00000198783	ENST00000578339	nonsense_mediated_decay	KNOWN	None	28291	321	106	33289384	33290205	1	CCDC16	MGC20398, SEL13, OMCG1
17	ZNF830	ENSG00000198783	ENST00000361952	protein_coding	KNOWN	CCDS32618	28291	1119	372	33288549	33290205	1	CCDC16	MGC20398, SEL13, OMCG1
9	SNX18P5	ENSG00000229146	ENST00000456554	processed_pseudogene	KNOWN	None	39613	None	None	44046989	44047817	-1	None	None
1	CEPT1	ENSG00000134255	ENST00000498239	processed_transcript	KNOWN	None	24289	None	None	111682249	111727430	1	None	None
1	CEPT1	ENSG00000134255	ENST00000480324	processed_transcript	KNOWN	None	24289	None	None	111682277	111703592	1	None	None
1	CEPT1	ENSG00000134255	ENST00000476865	processed_transcript	KNOWN	None	24289	None	None	111682356	111703818	1	None	None
1	CEPT1	ENSG00000134255	ENST00000357172	protein_coding	KNOWN	CCDS830	24289	1251	416	111682848	111727724	1	None	None
1	CEPT1	ENSG00000134255	ENST00000460443	processed_transcript	KNOWN	None	24289	None	None	111683167	111717585	1	None	None
1	CEPT1	ENSG00000134255	ENST00000478042	processed_transcript	KNOWN	None	24289	None	None	111686104	111727724	1	None	None
1	CEPT1	ENSG00000134255	ENST00000473474	processed_transcript	KNOWN	None	24289	None	None	111715760	111726953	1	None	None
1	CEPT1	ENSG00000134255	ENST00000467362	processed_transcript	KNOWN	None	24289	None	None	111720836	111727722	1	None	None
1	CEPT1	ENSG00000134255	ENST00000483427	processed_transcript	KNOWN	None	24289	None	None	111725159	111726173	1	None	None
1	CEPT1	ENSG00000134255	ENST00000545121	protein_coding	KNOWN	CCDS830	24289	1251	416	111682249	111727724	1	None	None
9	None	ENSG00000170165	ENST00000442354	unprocessed_pseudogene	KNOWN	None	None	None	None	44051024	44069881	-1	None	None
16	KATNB1	ENSG00000140854	ENST00000379661	protein_coding	KNOWN	CCDS10788	6217	1968	655	57769642	57791162	1	None	None
16	KATNB1	ENSG00000140854	ENST00000562592	protein_coding	KNOWN	None	6217	632	209	57769651	57785967	1	None	None
16	KATNB1	ENSG00000140854	ENST00000566726	protein_coding	PUTATIVE	None	6217	625	207	57769703	57785948	1	None	None
16	KATNB1	ENSG00000140854	ENST00000566611	retained_intron	KNOWN	None	6217	None	None	57769776	57790797	1	None	None
16	KATNB1	ENSG00000140854	ENST00000566785	protein_coding	KNOWN	None	6217	237	78	57770675	57778371	1	None	None
16	KATNB1	ENSG00000140854	ENST00000569627	protein_coding	NOVEL	None	6217	351	116	57770885	57785572	1	None	None
16	KATNB1	ENSG00000140854	ENST00000563127	retained_intron	KNOWN	None	6217	None	None	57771104	57786016	1	None	None
16	KATNB1	ENSG00000140854	ENST00000563462	protein_coding	NOVEL	None	6217	827	274	57787369	57790780	1	None	None
16	KATNB1	ENSG00000140854	ENST00000569018	retained_intron	KNOWN	None	6217	None	None	57789058	57790807	1	None	None
16	KATNB1	ENSG00000140854	ENST00000562542	retained_intron	KNOWN	None	6217	None	None	57789360	57790796	1	None	None
4	R3HDM2P1	ENSG00000248735	ENST00000505381	processed_pseudogene	KNOWN	None	44056	None	None	134045259	134047218	1	None	None
4	None	ENSG00000221637	ENST00000408710	miRNA	NOVEL	None	None	None	None	134482011	134482089	-1	None	None
9	ANKRD20A7P	ENSG00000236816	ENST00000402318	unprocessed_pseudogene	KNOWN	None	31980	None	None	44076368	44118444	-1	None	None
1	COL16A1	ENSG00000084636	ENST00000373672	protein_coding	KNOWN	CCDS41297	2193	4815	1604	32117848	32169920	-1	None	None
1	COL16A1	ENSG00000084636	ENST00000489280	protein_coding	NOVEL	None	2193	456	151	32118101	32121031	-1	None	None
1	COL16A1	ENSG00000084636	ENST00000488128	retained_intron	KNOWN	None	2193	None	None	32118112	32136203	-1	None	None
1	COL16A1	ENSG00000084636	ENST00000488897	retained_intron	KNOWN	None	2193	None	None	32118189	32129057	-1	None	None
1	COL16A1	ENSG00000084636	ENST00000461217	processed_transcript	KNOWN	None	2193	None	None	32119205	32121449	-1	None	None
1	COL16A1	ENSG00000084636	ENST00000440437	protein_coding	NOVEL	None	2193	672	223	32122001	32131682	-1	None	None
1	COL16A1	ENSG00000084636	ENST00000466829	processed_transcript	PUTATIVE	None	2193	None	None	32126186	32127361	-1	None	None
1	COL16A1	ENSG00000084636	ENST00000470799	retained_intron	KNOWN	None	2193	None	None	32126186	32131986	-1	None	None
1	COL16A1	ENSG00000084636	ENST00000482910	retained_intron	KNOWN	None	2193	None	None	32126189	32131760	-1	None	None
1	COL16A1	ENSG00000084636	ENST00000468459	processed_transcript	KNOWN	None	2193	None	None	32131638	32138753	-1	None	None
1	COL16A1	ENSG00000084636	ENST00000479100	retained_intron	KNOWN	None	2193	None	None	32133183	32138827	-1	None	None
1	COL16A1	ENSG00000084636	ENST00000458715	protein_coding	NOVEL	None	2193	706	234	32138031	32149349	-1	None	None
1	COL16A1	ENSG00000084636	ENST00000373668	protein_coding	PUTATIVE	None	2193	2901	966	32144831	32169920	-1	None	None
1	COL16A1	ENSG00000084636	ENST00000474000	processed_transcript	KNOWN	None	2193	None	None	32149309	32155102	-1	None	None
1	COL16A1	ENSG00000084636	ENST00000482478	processed_transcript	KNOWN	None	2193	None	None	32149711	32155168	-1	None	None
1	COL16A1	ENSG00000084636	ENST00000529928	processed_transcript	KNOWN	None	2193	None	None	32151283	32155569	-1	None	None
1	COL16A1	ENSG00000084636	ENST00000373667	protein_coding	NOVEL	None	2193	924	307	32154462	32162611	-1	None	None
1	COL16A1	ENSG00000084636	ENST00000532877	processed_transcript	KNOWN	None	2193	None	None	32164091	32169661	-1	None	None
1	COL16A1	ENSG00000084636	ENST00000271069	protein_coding	KNOWN	None	2193	4815	1604	32117848	32169768	-1	None	None
17	RNASEK-C17orf49	ENSG00000161939	ENST00000549775	retained_intron	KNOWN	None	44419	None	None	6915954	6920821	1	None	None
17	RNASEK-C17orf49	ENSG00000161939	ENST00000552176	retained_intron	KNOWN	None	44419	None	None	6915965	6917851	1	None	None
17	RNASEK-C17orf49	ENSG00000161939	ENST00000547863	retained_intron	KNOWN	None	44419	None	None	6915979	6920839	1	None	None
17	RNASEK-C17orf49	ENSG00000161939	ENST00000607564	retained_intron	KNOWN	None	44419	None	None	6916916	6918392	1	None	None
17	RNASEK-C17orf49	ENSG00000161939	ENST00000547302	protein_coding	PUTATIVE	None	44419	701	232	6917052	6920723	1	None	None
17	RNASEK-C17orf49	ENSG00000161939	ENST00000607129	protein_coding	KNOWN	CCDS32542	44419	519	172	6918073	6920838	1	None	None
17	RNASEK-C17orf49	ENSG00000161939	ENST00000606880	protein_coding	KNOWN	CCDS45596	44419	417	138	6918073	6920838	1	None	None
12	CPNE8	ENSG00000139117	ENST00000552259	processed_transcript	KNOWN	None	23498	None	None	39040624	39073424	-1	None	None
12	CPNE8	ENSG00000139117	ENST00000331366	protein_coding	KNOWN	CCDS8733	23498	1695	564	39045987	39299433	-1	None	None
12	CPNE8	ENSG00000139117	ENST00000538596	protein_coding	PUTATIVE	None	23498	702	233	39046160	39115024	-1	None	None
12	CPNE8	ENSG00000139117	ENST00000546603	processed_transcript	KNOWN	None	23498	None	None	39047173	39073480	-1	None	None
12	CPNE8	ENSG00000139117	ENST00000360449	protein_coding	PUTATIVE	None	23498	1659	552	39047636	39301232	-1	None	None
12	CPNE8	ENSG00000139117	ENST00000547417	processed_transcript	KNOWN	None	23498	None	None	39047764	39064797	-1	None	None
12	CPNE8	ENSG00000139117	ENST00000549842	processed_transcript	KNOWN	None	23498	None	None	39064559	39079496	-1	None	None
12	CPNE8	ENSG00000139117	ENST00000551855	processed_transcript	KNOWN	None	23498	None	None	39120161	39161519	-1	None	None
12	CPNE8	ENSG00000139117	ENST00000550863	protein_coding	PUTATIVE	None	23498	36	11	39161493	39300071	-1	None	None
HSCHR6_MHC_APD	None	ENSG00000265849	ENST00000580417	snoRNA	KNOWN	None	None	None	None	31515442	31515517	-1	None	None
HSCHR6_MHC_APD	UQCRHP1	ENSG00000238126	ENST00000447476	processed_pseudogene	KNOWN	None	31341	None	None	31590211	31590484	-1	UQCRHP5	Em:AF129756.18
HSCHR6_MHC_APD	None	ENSG00000266231	ENST00000578738	snRNA	NOVEL	None	None	None	None	31736082	31736184	-1	None	None
19	SYNGR4	ENSG00000105467	ENST00000344846	protein_coding	KNOWN	CCDS12717	11502	705	234	48867652	48879620	1	None	None
19	SYNGR4	ENSG00000105467	ENST00000600863	protein_coding	PUTATIVE	None	11502	273	90	48876300	48878958	1	None	None
19	SYNGR4	ENSG00000105467	ENST00000601610	protein_coding	PUTATIVE	None	11502	441	146	48876360	48879633	1	None	None
19	SYNGR4	ENSG00000105467	ENST00000595322	protein_coding	PUTATIVE	None	11502	225	74	48876365	48879528	1	None	None
HSCHR6_MHC_APD	SAPCD1-AS1	ENSG00000236912	ENST00000424498	processed_transcript	PUTATIVE	None	39824	None	None	31743441	31744719	-1	C6orf26-AS1	None
5	SNX2	ENSG00000205302	ENST00000379516	protein_coding	KNOWN	CCDS34217	11173	1560	519	122110691	122165803	1	None	None
5	SNX2	ENSG00000205302	ENST00000512394	nonsense_mediated_decay	KNOWN	None	11173	231	76	122110774	122152713	1	None	None
5	SNX2	ENSG00000205302	ENST00000506874	processed_transcript	KNOWN	None	11173	None	None	122110777	122111371	1	None	None
5	SNX2	ENSG00000205302	ENST00000505934	protein_coding	NOVEL	None	11173	797	264	122110777	122151668	1	None	None
5	SNX2	ENSG00000205302	ENST00000505854	retained_intron	KNOWN	None	11173	None	None	122110790	122139564	1	None	None
5	SNX2	ENSG00000205302	ENST00000514949	protein_coding	PUTATIVE	None	11173	1209	402	122110898	122165450	1	None	None
5	SNX2	ENSG00000205302	ENST00000510372	processed_transcript	KNOWN	None	11173	None	None	122131231	122165366	1	None	None
5	SNX2	ENSG00000205302	ENST00000511365	retained_intron	KNOWN	None	11173	None	None	122139189	122144406	1	None	None
5	SNX2	ENSG00000205302	ENST00000509281	retained_intron	KNOWN	None	11173	None	None	122151263	122153035	1	None	None
5	SNX2	ENSG00000205302	ENST00000506847	processed_transcript	KNOWN	None	11173	None	None	122152618	122165468	1	None	None
5	SNX2	ENSG00000205302	ENST00000514030	retained_intron	KNOWN	None	11173	None	None	122152970	122163447	1	None	None
5	SNX2	ENSG00000205302	ENST00000507321	retained_intron	KNOWN	None	11173	None	None	122163016	122165450	1	None	None
5	SNX2	ENSG00000205302	ENST00000507852	retained_intron	KNOWN	None	11173	None	None	122163129	122163741	1	None	None
HSCHR6_MHC_APD	None	ENSG00000264393	ENST00000463759	misc_RNA	NOVEL	None	None	None	None	31757947	31758035	-1	None	None
HSCHR6_MHC_APD	None	ENSG00000263864	ENST00000578807	snoRNA	KNOWN	None	None	None	None	31814397	31814459	1	None	None
HSCHR6_MHC_APD	None	ENSG00000266300	ENST00000583619	snoRNA	KNOWN	None	None	None	None	31816211	31816277	1	None	None
X	MAGEC3	ENSG00000165509	ENST00000298296	protein_coding	KNOWN	CCDS14676	23798	1932	643	140926102	140985618	1	None	HCA2, MAGE-C3, CT7.2
X	MAGEC3	ENSG00000165509	ENST00000483584	processed_transcript	KNOWN	None	23798	None	None	140982452	140984925	1	None	HCA2, MAGE-C3, CT7.2
X	MAGEC3	ENSG00000165509	ENST00000409007	protein_coding	PUTATIVE	CCDS14677	23798	1041	346	140984021	140985618	1	None	HCA2, MAGE-C3, CT7.2
X	MAGEC3	ENSG00000165509	ENST00000448920	protein_coding	KNOWN	None	23798	381	126	140968160	140983522	1	None	HCA2, MAGE-C3, CT7.2
X	MAGEC3	ENSG00000165509	ENST00000536088	protein_coding	KNOWN	CCDS14677	23798	1041	346	140968348	140985618	1	None	HCA2, MAGE-C3, CT7.2
X	MAGEC3	ENSG00000165509	ENST00000544766	protein_coding	KNOWN	CCDS14677	23798	1041	346	140982452	140985618	1	None	HCA2, MAGE-C3, CT7.2
X	MAGEC3	ENSG00000165509	ENST00000443323	protein_coding	KNOWN	None	23798	801	266	140968348	140985618	1	None	HCA2, MAGE-C3, CT7.2
10	METTL10	ENSG00000203791	ENST00000495711	nonsense_mediated_decay	KNOWN	None	33787	95	30	126436718	126449072	-1	C10orf138	Em:AC068896.3
10	METTL10	ENSG00000203791	ENST00000466270	nonsense_mediated_decay	KNOWN	None	33787	315	104	126446400	126480437	-1	C10orf138	Em:AC068896.3
10	METTL10	ENSG00000203791	ENST00000368836	protein_coding	KNOWN	CCDS31307	33787	876	291	126448523	126480439	-1	C10orf138	Em:AC068896.3
10	METTL10	ENSG00000203791	ENST00000464099	nonsense_mediated_decay	KNOWN	None	33787	315	104	126448715	126480437	-1	C10orf138	Em:AC068896.3
10	METTL10	ENSG00000203791	ENST00000498770	retained_intron	KNOWN	None	33787	None	None	126448985	126463466	-1	C10orf138	Em:AC068896.3
10	METTL10	ENSG00000203791	ENST00000468738	retained_intron	KNOWN	None	33787	None	None	126449043	126454360	-1	C10orf138	Em:AC068896.3
HSCHR6_MHC_QBL	OR2W1	ENSG00000206525	ENST00000383654	protein_coding	KNOWN	None	8281	963	320	29011990	29013017	-1	None	hs6M1-15
HSCHR6_MHC_APD	None	ENSG00000232266	ENST00000441686	processed_transcript	PUTATIVE	None	None	None	None	31862895	31863188	1	None	None
HSCHR6_MHC_APD	None	ENSG00000266653	ENST00000581845	rRNA	NOVEL	None	None	None	None	32057628	32057748	-1	None	None
1	SWT1	ENSG00000116668	ENST00000367501	protein_coding	KNOWN	CCDS1367	16785	2703	900	185126212	185260139	1	C1orf26	FLJ20121, HsSwt1
1	SWT1	ENSG00000116668	ENST00000367500	protein_coding	KNOWN	CCDS1367	16785	2703	900	185126291	185260897	1	C1orf26	FLJ20121, HsSwt1
1	SWT1	ENSG00000116668	ENST00000450350	protein_coding	KNOWN	None	16785	479	158	185126614	185143758	1	C1orf26	FLJ20121, HsSwt1
HSCHR6_MHC_QBL	OR2B3	ENSG00000206524	ENST00000383653	protein_coding	KNOWN	None	8238	942	313	29053987	29055092	-1	OR2B3P	OR6-4
19	KDELR1	ENSG00000105438	ENST00000330720	protein_coding	KNOWN	CCDS12718	6304	639	212	48885827	48894810	-1	None	ERD2.1, ERD2, HDEL
19	KDELR1	ENSG00000105438	ENST00000597017	protein_coding	PUTATIVE	None	6304	453	150	48885835	48894112	-1	None	ERD2.1, ERD2, HDEL
19	KDELR1	ENSG00000105438	ENST00000600980	protein_coding	PUTATIVE	None	6304	662	219	48887496	48894768	-1	None	ERD2.1, ERD2, HDEL
19	KDELR1	ENSG00000105438	ENST00000599084	retained_intron	KNOWN	None	6304	None	None	48892739	48894775	-1	None	ERD2.1, ERD2, HDEL
19	KDELR1	ENSG00000105438	ENST00000594643	retained_intron	KNOWN	None	6304	None	None	48893456	48894759	-1	None	ERD2.1, ERD2, HDEL
HSCHR6_MHC_APD	HNRNPA1P2	ENSG00000234216	ENST00000446999	processed_pseudogene	KNOWN	None	13958	None	None	32304328	32305287	1	HNRPA1P2	dJ372B18.1
7	PPP1R17	ENSG00000106341	ENST00000342032	protein_coding	KNOWN	CCDS5436	16973	468	155	31726329	31748069	1	C7orf16	GSBS
7	PPP1R17	ENSG00000106341	ENST00000409146	protein_coding	NOVEL	CCDS47570	16973	315	104	31726829	31747023	1	C7orf16	GSBS
7	PPP1R17	ENSG00000106341	ENST00000498609	processed_transcript	KNOWN	None	16973	None	None	31735577	31747210	1	C7orf16	GSBS
19	SGTA	ENSG00000104969	ENST00000221566	protein_coding	KNOWN	CCDS12094	10819	942	313	2754712	2783369	-1	SGT	None
19	SGTA	ENSG00000104969	ENST00000591984	retained_intron	KNOWN	None	10819	None	None	2755547	2759540	-1	SGT	None
19	SGTA	ENSG00000104969	ENST00000589251	protein_coding	KNOWN	None	10819	487	161	2763661	2783268	-1	SGT	None
19	SGTA	ENSG00000104969	ENST00000587866	protein_coding	KNOWN	None	10819	205	67	2767580	2770779	-1	SGT	None
19	SGTA	ENSG00000104969	ENST00000586711	processed_transcript	KNOWN	None	10819	None	None	2777491	2783280	-1	SGT	None
HSCHR6_MHC_APD	None	ENSG00000266435	ENST00000584237	snRNA	NOVEL	None	None	None	None	32331634	32331740	1	None	None
11	C11orf30	ENSG00000158636	ENST00000427574	retained_intron	KNOWN	None	18071	None	None	76155967	76208275	1	None	EMSY
11	C11orf30	ENSG00000158636	ENST00000533988	protein_coding	PUTATIVE	None	18071	249	82	76156066	76164975	1	None	EMSY
11	C11orf30	ENSG00000158636	ENST00000524490	protein_coding	NOVEL	None	18071	3675	1224	76156069	76261387	1	None	EMSY
11	C11orf30	ENSG00000158636	ENST00000525959	processed_transcript	KNOWN	None	18071	None	None	76156086	76169291	1	None	EMSY
11	C11orf30	ENSG00000158636	ENST00000533972	protein_coding	NOVEL	None	18071	328	108	76156088	76227293	1	None	EMSY
11	C11orf30	ENSG00000158636	ENST00000528826	retained_intron	KNOWN	None	18071	None	None	76156091	76172059	1	None	EMSY
11	C11orf30	ENSG00000158636	ENST00000524767	protein_coding	NOVEL	None	18071	4014	1337	76157944	76261253	1	None	EMSY
11	C11orf30	ENSG00000158636	ENST00000533248	protein_coding	NOVEL	None	18071	3696	1231	76157944	76261253	1	None	EMSY
11	C11orf30	ENSG00000158636	ENST00000525919	protein_coding	NOVEL	None	18071	3972	1323	76157944	76261253	1	None	EMSY
11	C11orf30	ENSG00000158636	ENST00000525038	protein_coding	NOVEL	None	18071	3972	1323	76157944	76261555	1	None	EMSY
11	C11orf30	ENSG00000158636	ENST00000529032	protein_coding	KNOWN	CCDS8244	18071	3969	1322	76157983	76264069	1	None	EMSY
11	C11orf30	ENSG00000158636	ENST00000531998	protein_coding	PUTATIVE	None	18071	324	107	76224441	76227886	1	None	EMSY
11	C11orf30	ENSG00000158636	ENST00000524451	protein_coding	NOVEL	None	18071	653	216	76237506	76255430	1	None	EMSY
11	C11orf30	ENSG00000158636	ENST00000531641	retained_intron	KNOWN	None	18071	None	None	76237523	76255912	1	None	EMSY
11	C11orf30	ENSG00000158636	ENST00000534573	retained_intron	KNOWN	None	18071	None	None	76253095	76255527	1	None	EMSY
11	C11orf30	ENSG00000158636	ENST00000532719	protein_coding	NOVEL	None	18071	888	295	76253283	76261407	1	None	EMSY
11	C11orf30	ENSG00000158636	ENST00000531793	protein_coding	NOVEL	None	18071	478	158	76256992	76261050	1	None	EMSY
11	C11orf30	ENSG00000158636	ENST00000334736	protein_coding	KNOWN	CCDS8244	18071	3969	1322	76156069	76262586	1	None	EMSY
11	C11orf30	ENSG00000158636	ENST00000343878	protein_coding	KNOWN	None	18071	3468	1155	76156069	76262586	1	None	EMSY
9	RNU6-599P	ENSG00000238529	ENST00000459383	snRNA	KNOWN	None	47562	None	None	44107813	44107919	-1	None	None
HSCHR6_MHC_QBL	OR2J3	ENSG00000206522	ENST00000383651	protein_coding	KNOWN	None	8261	936	311	29079675	29080610	1	None	OR6-6
HSCHR6_MHC_MCF	AIF1	ENSG00000235985	ENST00000413349	protein_coding	KNOWN	None	352	444	147	31659258	31661095	1	None	IRT-1, AIF-1, Em:AF129756.17, IBA1
HSCHR6_MHC_MCF	AIF1	ENSG00000235985	ENST00000489150	retained_intron	KNOWN	None	352	None	None	31659291	31660414	1	None	IRT-1, AIF-1, Em:AF129756.17, IBA1
HSCHR6_MHC_MCF	AIF1	ENSG00000235985	ENST00000437985	protein_coding	KNOWN	None	352	486	161	31659301	31661095	1	None	IRT-1, AIF-1, Em:AF129756.17, IBA1
HSCHR6_MHC_MCF	AIF1	ENSG00000235985	ENST00000468277	retained_intron	KNOWN	None	352	None	None	31659354	31661095	1	None	IRT-1, AIF-1, Em:AF129756.17, IBA1
HSCHR6_MHC_MCF	AIF1	ENSG00000235985	ENST00000494099	retained_intron	KNOWN	None	352	None	None	31659700	31661095	1	None	IRT-1, AIF-1, Em:AF129756.17, IBA1
HSCHR6_MHC_MCF	AIF1	ENSG00000235985	ENST00000415830	protein_coding	KNOWN	None	352	282	93	31660065	31661095	1	None	IRT-1, AIF-1, Em:AF129756.17, IBA1
9	MEP1AP4	ENSG00000224537	ENST00000423244	unprocessed_pseudogene	KNOWN	None	39138	None	None	44147906	44154014	1	None	None
HSCHR6_MHC_APD	HCG23	ENSG00000235135	ENST00000433741	processed_transcript	KNOWN	None	19713	None	None	32369260	32372436	1	None	dJ1077I5.3
HSCHR6_MHC_APD	HLA-DRB9	ENSG00000227384	ENST00000458158	unprocessed_pseudogene	KNOWN	None	4957	None	None	32438582	32452263	-1	HLA-DRB1L, HLA-DR1BL	D6S206, D6S206E
HSCHR6_MHC_QBL	OR2J2	ENSG00000234746	ENST00000427744	protein_coding	KNOWN	None	8260	939	312	29141323	29142363	1	None	OR6-8, hs6M1-6, dJ80I19.4
20	UBE2V1P1	ENSG00000226632	ENST00000430836	processed_pseudogene	KNOWN	None	16581	None	None	3342527	3342971	-1	None	dJ687F11.3
HSCHR6_MHC_APD	None	ENSG00000264998	ENST00000580281	snRNA	NOVEL	None	None	None	None	32468460	32468608	-1	None	None
8	GOLGA7	ENSG00000147533	ENST00000518270	protein_coding	PUTATIVE	CCDS34887	24876	414	137	41347915	41367288	1	None	GCP16, HSPC041, GOLGA3AP1, GOLGA7A
8	GOLGA7	ENSG00000147533	ENST00000520817	protein_coding	KNOWN	CCDS34887	24876	414	137	41348001	41368499	1	None	GCP16, HSPC041, GOLGA3AP1, GOLGA7A
8	GOLGA7	ENSG00000147533	ENST00000523420	processed_transcript	KNOWN	None	24876	None	None	41348131	41367192	1	None	GCP16, HSPC041, GOLGA3AP1, GOLGA7A
8	GOLGA7	ENSG00000147533	ENST00000357743	protein_coding	PUTATIVE	CCDS34887	24876	414	137	41348173	41368499	1	None	GCP16, HSPC041, GOLGA3AP1, GOLGA7A
8	GOLGA7	ENSG00000147533	ENST00000521417	processed_transcript	KNOWN	None	24876	None	None	41360088	41367658	1	None	GCP16, HSPC041, GOLGA3AP1, GOLGA7A
8	GOLGA7	ENSG00000147533	ENST00000523128	retained_intron	KNOWN	None	24876	None	None	41363334	41367350	1	None	GCP16, HSPC041, GOLGA3AP1, GOLGA7A
8	GOLGA7	ENSG00000147533	ENST00000405786	protein_coding	KNOWN	CCDS55226	24876	405	134	41348081	41368493	1	None	GCP16, HSPC041, GOLGA3AP1, GOLGA7A
20	None	ENSG00000201346	ENST00000364476	snoRNA	NOVEL	None	None	None	None	3364876	3365086	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000258138	ENST00000546423	protein_coding	NOVEL	None	None	45	14	29143289	29163375	1	None	None
20	None	ENSG00000266355	ENST00000584552	miRNA	NOVEL	None	None	None	None	3384863	3384932	1	None	None
20	None	ENSG00000225116	ENST00000421444	processed_pseudogene	KNOWN	None	None	None	None	3445824	3446091	-1	None	None
HSCHR6_MHC_APD	None	ENSG00000237577	ENST00000454985	processed_transcript	KNOWN	None	None	None	None	32670372	32671194	1	None	None
HSCHR6_MHC_APD	None	ENSG00000237577	ENST00000446925	processed_transcript	PUTATIVE	None	None	None	None	32670397	32671199	1	None	None
HSCHR6_MHC_APD	None	ENSG00000237577	ENST00000412018	processed_transcript	PUTATIVE	None	None	None	None	32670752	32671202	1	None	None
20	SF3A3P1	ENSG00000230568	ENST00000446317	processed_pseudogene	KNOWN	None	16576	None	None	3470176	3471652	-1	SF3A3P	dJ581P3.1
11	TSPAN32	ENSG00000064201	ENST00000437313	nonsense_mediated_decay	KNOWN	None	13410	414	137	2323227	2331248	1	TSSC6, PHEMX	None
11	TSPAN32	ENSG00000064201	ENST00000461200	retained_intron	KNOWN	None	13410	None	None	2323239	2339430	1	TSSC6, PHEMX	None
11	TSPAN32	ENSG00000064201	ENST00000182290	protein_coding	KNOWN	CCDS7733	13410	963	320	2323243	2339372	1	TSSC6, PHEMX	None
11	TSPAN32	ENSG00000064201	ENST00000446063	nonsense_mediated_decay	KNOWN	None	13410	777	258	2323243	2339372	1	TSSC6, PHEMX	None
11	TSPAN32	ENSG00000064201	ENST00000493924	retained_intron	KNOWN	None	13410	None	None	2323256	2339372	1	TSSC6, PHEMX	None
11	TSPAN32	ENSG00000064201	ENST00000484104	retained_intron	KNOWN	None	13410	None	None	2323261	2335864	1	TSSC6, PHEMX	None
11	TSPAN32	ENSG00000064201	ENST00000479508	processed_transcript	KNOWN	None	13410	None	None	2323270	2337186	1	TSSC6, PHEMX	None
11	TSPAN32	ENSG00000064201	ENST00000498313	retained_intron	KNOWN	None	13410	None	None	2323371	2337894	1	TSSC6, PHEMX	None
11	TSPAN32	ENSG00000064201	ENST00000483227	processed_transcript	KNOWN	None	13410	None	None	2323377	2336890	1	TSSC6, PHEMX	None
11	TSPAN32	ENSG00000064201	ENST00000381121	protein_coding	KNOWN	None	13410	762	253	2323380	2339372	1	TSSC6, PHEMX	None
11	TSPAN32	ENSG00000064201	ENST00000493948	retained_intron	KNOWN	None	13410	None	None	2323384	2335896	1	TSSC6, PHEMX	None
11	TSPAN32	ENSG00000064201	ENST00000339046	nonsense_mediated_decay	KNOWN	None	13410	432	143	2323938	2339372	1	TSSC6, PHEMX	None
11	TSPAN32	ENSG00000064201	ENST00000451520	protein_coding	PUTATIVE	None	13410	930	309	2323953	2339372	1	TSSC6, PHEMX	None
11	TSPAN32	ENSG00000064201	ENST00000381117	protein_coding	NOVEL	None	13410	798	265	2324098	2339154	1	TSSC6, PHEMX	None
11	TSPAN32	ENSG00000064201	ENST00000484523	processed_transcript	KNOWN	None	13410	None	None	2328175	2337417	1	TSSC6, PHEMX	None
11	TSPAN32	ENSG00000064201	ENST00000486011	processed_transcript	PUTATIVE	None	13410	None	None	2337866	2339372	1	TSSC6, PHEMX	None
20	None	ENSG00000264957	ENST00000579046	miRNA	NOVEL	None	None	None	None	3487654	3487759	1	None	None
20	ZNF334	ENSG00000198185	ENST00000457685	protein_coding	PUTATIVE	None	15806	1929	642	45129701	45142198	-1	None	bA179N14.1
20	ZNF334	ENSG00000198185	ENST00000593880	protein_coding	PUTATIVE	None	15806	2112	703	45129707	45135277	-1	None	bA179N14.1
20	ZNF334	ENSG00000198185	ENST00000347606	protein_coding	KNOWN	CCDS33480	15806	2043	680	45129731	45142193	-1	None	bA179N14.1
20	ZNF334	ENSG00000198185	ENST00000596323	protein_coding	PUTATIVE	None	15806	520	172	45131344	45135009	-1	None	bA179N14.1
20	None	ENSG00000229539	ENST00000451507	antisense	KNOWN	None	None	None	None	3868886	3869515	-1	None	None
20	MIR103A2	ENSG00000199024	ENST00000362154	miRNA	KNOWN	None	31491	None	None	3898141	3898218	1	MIRN103-2, MIR103-2	hsa-mir-103-2, hsa-mir-103a-2
12	TSPAN11	ENSG00000110900	ENST00000545802	protein_coding	PUTATIVE	None	30795	126	41	31079362	31108194	1	None	None
12	TSPAN11	ENSG00000110900	ENST00000546076	protein_coding	KNOWN	CCDS31765	30795	762	253	31079682	31145086	1	None	None
12	TSPAN11	ENSG00000110900	ENST00000535215	protein_coding	PUTATIVE	None	30795	549	182	31079838	31145058	1	None	None
12	TSPAN11	ENSG00000110900	ENST00000261177	protein_coding	KNOWN	CCDS31765	30795	762	253	31079892	31149534	1	None	None
12	TSPAN11	ENSG00000110900	ENST00000544427	protein_coding	KNOWN	None	30795	732	243	31079838	31145058	1	None	None
19	NOTCH3	ENSG00000074181	ENST00000263388	protein_coding	KNOWN	CCDS12326	7883	6966	2321	15270444	15311792	-1	CADASIL	CASIL
19	NOTCH3	ENSG00000074181	ENST00000595514	nonsense_mediated_decay	KNOWN	None	7883	353	116	15272436	15280961	-1	CADASIL	CASIL
19	NOTCH3	ENSG00000074181	ENST00000597756	protein_coding	PUTATIVE	None	7883	532	176	15273144	15276778	-1	CADASIL	CASIL
19	NOTCH3	ENSG00000074181	ENST00000601011	protein_coding	NOVEL	None	7883	3858	1285	15288722	15311713	-1	CADASIL	CASIL
19	NOTCH3	ENSG00000074181	ENST00000600841	retained_intron	KNOWN	None	7883	None	None	15289201	15290031	-1	CADASIL	CASIL
19	NOTCH3	ENSG00000074181	ENST00000595045	retained_intron	KNOWN	None	7883	None	None	15289749	15290470	-1	CADASIL	CASIL
19	None	ENSG00000268673	ENST00000595525	lincRNA	KNOWN	None	None	None	None	15871185	15881638	1	None	None
19	None	ENSG00000268673	ENST00000603684	lincRNA	KNOWN	None	None	None	None	15871423	15871667	1	None	None
20	FTLP3	ENSG00000226608	ENST00000427242	processed_pseudogene	KNOWN	None	4000	None	None	4004564	4005091	1	FTLL1	dJ681N20.2
20	FTLP3	ENSG00000226608	ENST00000544072	processed_pseudogene	KNOWN	None	4000	None	None	4004552	4004814	1	FTLL1	dJ681N20.2
14	PAPLN	ENSG00000100767	ENST00000340738	protein_coding	KNOWN	CCDS32114	19262	3756	1251	73704205	73741348	1	None	MGC50452
14	PAPLN	ENSG00000100767	ENST00000555123	nonsense_mediated_decay	KNOWN	None	19262	2790	929	73704287	73740073	1	None	MGC50452
14	PAPLN	ENSG00000100767	ENST00000216658	nonsense_mediated_decay	KNOWN	None	19262	2427	808	73704288	73740073	1	None	MGC50452
14	PAPLN	ENSG00000100767	ENST00000554301	protein_coding	KNOWN	None	19262	3837	1278	73706324	73739462	1	None	MGC50452
14	PAPLN	ENSG00000100767	ENST00000555445	protein_coding	KNOWN	None	19262	3789	1262	73706333	73739711	1	None	MGC50452
14	PAPLN	ENSG00000100767	ENST00000555035	retained_intron	KNOWN	None	19262	None	None	73716484	73717726	1	None	MGC50452
14	PAPLN	ENSG00000100767	ENST00000557061	nonsense_mediated_decay	KNOWN	None	19262	645	214	73727864	73741328	1	None	MGC50452
14	PAPLN	ENSG00000100767	ENST00000554314	processed_transcript	KNOWN	None	19262	None	None	73727874	73731284	1	None	MGC50452
14	PAPLN	ENSG00000100767	ENST00000555700	retained_intron	KNOWN	None	19262	None	None	73728758	73741331	1	None	MGC50452
14	PAPLN	ENSG00000100767	ENST00000559759	protein_coding	PUTATIVE	None	19262	935	310	73729208	73741328	1	None	MGC50452
14	PAPLN	ENSG00000100767	ENST00000554527	retained_intron	KNOWN	None	19262	None	None	73735087	73739641	1	None	MGC50452
14	PAPLN	ENSG00000100767	ENST00000427855	protein_coding	KNOWN	None	19262	3837	1278	73704205	73741345	1	None	MGC50452
14	PAPLN	ENSG00000100767	ENST00000381166	protein_coding	KNOWN	None	19262	3330	1109	73704205	73741345	1	None	MGC50452
HSCHR6_MHC_QBL	OR10C1	ENSG00000220550	ENST00000503212	protein_coding	KNOWN	None	8165	939	312	29406974	29408622	1	OR10C2	hs6M1-17, OR10C1P
HSCHR6_MHC_QBL	OR10C1	ENSG00000220550	ENST00000552782	protein_coding	KNOWN	None	8165	885	294	29384966	29408589	1	OR10C2	hs6M1-17, OR10C1P
20	RPL21P2	ENSG00000215063	ENST00000440049	processed_pseudogene	KNOWN	None	16539	None	None	4040280	4040760	-1	None	bA352D3.1
19	ZNF861P	ENSG00000267235	ENST00000588126	unprocessed_pseudogene	KNOWN	None	34514	None	None	15932607	15934614	-1	None	None
19	MAP1S	ENSG00000130479	ENST00000594625	protein_coding	PUTATIVE	None	15715	569	188	17830051	17836762	1	C19orf5, VCY2IP1, BPY2IP1	FLJ10669, MAP8
19	MAP1S	ENSG00000130479	ENST00000324096	protein_coding	KNOWN	CCDS32954	15715	3180	1059	17830161	17845325	1	C19orf5, VCY2IP1, BPY2IP1	FLJ10669, MAP8
19	MAP1S	ENSG00000130479	ENST00000600608	nonsense_mediated_decay	KNOWN	None	15715	282	93	17830289	17835859	1	C19orf5, VCY2IP1, BPY2IP1	FLJ10669, MAP8
19	MAP1S	ENSG00000130479	ENST00000600186	protein_coding	NOVEL	None	15715	564	187	17830289	17836859	1	C19orf5, VCY2IP1, BPY2IP1	FLJ10669, MAP8
19	MAP1S	ENSG00000130479	ENST00000594212	nonsense_mediated_decay	KNOWN	None	15715	249	82	17830289	17837352	1	C19orf5, VCY2IP1, BPY2IP1	FLJ10669, MAP8
19	MAP1S	ENSG00000130479	ENST00000597735	protein_coding	NOVEL	None	15715	557	184	17830289	17844147	1	C19orf5, VCY2IP1, BPY2IP1	FLJ10669, MAP8
19	MAP1S	ENSG00000130479	ENST00000601544	processed_transcript	KNOWN	None	15715	None	None	17830293	17836753	1	C19orf5, VCY2IP1, BPY2IP1	FLJ10669, MAP8
19	MAP1S	ENSG00000130479	ENST00000597681	processed_transcript	PUTATIVE	None	15715	None	None	17830306	17838920	1	C19orf5, VCY2IP1, BPY2IP1	FLJ10669, MAP8
19	MAP1S	ENSG00000130479	ENST00000594340	processed_transcript	KNOWN	None	15715	None	None	17830580	17836773	1	C19orf5, VCY2IP1, BPY2IP1	FLJ10669, MAP8
19	MAP1S	ENSG00000130479	ENST00000597067	processed_transcript	KNOWN	None	15715	None	None	17830590	17836664	1	C19orf5, VCY2IP1, BPY2IP1	FLJ10669, MAP8
19	MAP1S	ENSG00000130479	ENST00000599494	processed_transcript	KNOWN	None	15715	None	None	17830945	17836859	1	C19orf5, VCY2IP1, BPY2IP1	FLJ10669, MAP8
19	MAP1S	ENSG00000130479	ENST00000544059	protein_coding	PUTATIVE	None	15715	3102	1033	17830965	17845299	1	C19orf5, VCY2IP1, BPY2IP1	FLJ10669, MAP8
19	MAP1S	ENSG00000130479	ENST00000594365	nonsense_mediated_decay	KNOWN	None	15715	240	79	17830970	17836809	1	C19orf5, VCY2IP1, BPY2IP1	FLJ10669, MAP8
19	MAP1S	ENSG00000130479	ENST00000593593	nonsense_mediated_decay	KNOWN	None	15715	246	81	17830973	17835898	1	C19orf5, VCY2IP1, BPY2IP1	FLJ10669, MAP8
19	MAP1S	ENSG00000130479	ENST00000596637	nonsense_mediated_decay	KNOWN	None	15715	204	67	17831000	17835004	1	C19orf5, VCY2IP1, BPY2IP1	FLJ10669, MAP8
19	MAP1S	ENSG00000130479	ENST00000595338	processed_transcript	KNOWN	None	15715	None	None	17831010	17836726	1	C19orf5, VCY2IP1, BPY2IP1	FLJ10669, MAP8
19	MAP1S	ENSG00000130479	ENST00000598769	retained_intron	KNOWN	None	15715	None	None	17831533	17836816	1	C19orf5, VCY2IP1, BPY2IP1	FLJ10669, MAP8
19	MAP1S	ENSG00000130479	ENST00000598916	processed_transcript	KNOWN	None	15715	None	None	17831561	17836784	1	C19orf5, VCY2IP1, BPY2IP1	FLJ10669, MAP8
19	MAP1S	ENSG00000130479	ENST00000597000	protein_coding	NOVEL	None	15715	363	120	17838247	17845322	1	C19orf5, VCY2IP1, BPY2IP1	FLJ10669, MAP8
19	MAP1S	ENSG00000130479	ENST00000598756	processed_transcript	KNOWN	None	15715	None	None	17838957	17845159	1	C19orf5, VCY2IP1, BPY2IP1	FLJ10669, MAP8
19	MAP1S	ENSG00000130479	ENST00000601097	retained_intron	KNOWN	None	15715	None	None	17843829	17845322	1	C19orf5, VCY2IP1, BPY2IP1	FLJ10669, MAP8
9	None	ENSG00000235133	ENST00000436855	processed_pseudogene	KNOWN	None	None	None	None	120447532	120447866	-1	None	None
20	None	ENSG00000230176	ENST00000419003	antisense	KNOWN	None	None	None	None	4173712	4176590	1	None	None
9	RNU6-1082P	ENSG00000201444	ENST00000364574	snRNA	KNOWN	None	48045	None	None	120470274	120470380	-1	None	None
20	None	ENSG00000236387	ENST00000448825	lincRNA	KNOWN	None	None	None	None	4411808	4412320	-1	None	None
HSCHR6_MHC_DBB	None	ENSG00000265988	ENST00000580692	miRNA	NOVEL	None	None	None	None	30046926	30047058	-1	None	None
9	None	ENSG00000251847	ENST00000516038	snoRNA	NOVEL	None	None	None	None	120493653	120493749	-1	None	None
HSCHR6_MHC_DBB	TRIM31-AS1	ENSG00000232510	ENST00000417739	processed_transcript	KNOWN	None	39761	None	None	30063345	30072822	1	None	None
11	F2	ENSG00000180210	ENST00000311907	protein_coding	KNOWN	CCDS31476	3535	1869	622	46740730	46761056	1	None	None
11	F2	ENSG00000180210	ENST00000469189	retained_intron	KNOWN	None	3535	None	None	46740746	46741742	1	None	None
11	F2	ENSG00000180210	ENST00000530231	protein_coding	NOVEL	None	3535	1752	583	46740781	46761050	1	None	None
11	F2	ENSG00000180210	ENST00000442468	protein_coding	PUTATIVE	None	3535	973	323	46740859	46748176	1	None	None
11	F2	ENSG00000180210	ENST00000490274	retained_intron	KNOWN	None	3535	None	None	46744730	46747614	1	None	None
9	None	ENSG00000228512	ENST00000421509	lincRNA	KNOWN	None	None	None	None	120545726	120630349	1	None	None
20	None	ENSG00000238282	ENST00000419863	lincRNA	KNOWN	None	None	None	None	4456285	4505846	1	None	None
19	None	ENSG00000267308	ENST00000589310	lincRNA	KNOWN	None	None	None	None	15937855	15946597	-1	None	None
19	None	ENSG00000267308	ENST00000587970	lincRNA	KNOWN	None	None	None	None	15945916	15946663	-1	None	None
HSCHR6_MHC_DBB	None	ENSG00000265138	ENST00000582550	snoRNA	NOVEL	None	None	None	None	30090906	30091067	-1	None	None
9	None	ENSG00000231901	ENST00000449730	lincRNA	KNOWN	None	None	None	None	120602600	120659534	-1	None	None
20	None	ENSG00000228210	ENST00000429405	processed_pseudogene	KNOWN	None	None	None	None	4571639	4571946	-1	None	None
HSCHR6_MHC_DBB	PAIP1P1	ENSG00000225109	ENST00000428949	processed_pseudogene	KNOWN	None	18240	None	None	30144858	30146681	-1	None	bQB44E15.5, bPG254M11.3, bCX300M20.3
22	CECR2	ENSG00000099954	ENST00000400585	protein_coding	NOVEL	None	1840	3903	1300	17840839	18033032	1	None	KIAA1740
22	CECR2	ENSG00000099954	ENST00000497534	processed_transcript	PUTATIVE	None	1840	None	None	17907318	17978490	1	None	KIAA1740
22	CECR2	ENSG00000099954	ENST00000400573	protein_coding	NOVEL	None	1840	4329	1442	17956135	18033034	1	None	KIAA1740
22	CECR2	ENSG00000099954	ENST00000355219	nonsense_mediated_decay	KNOWN	None	1840	657	218	18028689	18033833	1	None	KIAA1740
22	CECR2	ENSG00000099954	ENST00000262608	protein_coding	KNOWN	None	1840	4332	1443	17956627	18033845	1	None	KIAA1740
22	CECR2	ENSG00000099954	ENST00000342247	protein_coding	KNOWN	None	1840	1371	456	17840837	18018834	1	None	KIAA1740
20	RPS4XP2	ENSG00000226948	ENST00000458402	processed_pseudogene	KNOWN	None	16563	None	None	4610073	4610865	-1	RPS4L2, RPS4P2	dJ189G13.2
19	UCA1	ENSG00000214049	ENST00000397381	lincRNA	KNOWN	None	37126	None	None	15939757	15947130	1	None	LINC00178, CUDR, UCAT1
19	UCA1	ENSG00000214049	ENST00000589333	lincRNA	KNOWN	None	37126	None	None	15945619	15946629	1	None	LINC00178, CUDR, UCAT1
19	UCA1	ENSG00000214049	ENST00000600160	lincRNA	KNOWN	None	37126	None	None	15945698	15946229	1	None	LINC00178, CUDR, UCAT1
20	OCSTAMP	ENSG00000149635	ENST00000279028	protein_coding	KNOWN	CCDS54468	16116	1701	566	45169585	45179213	-1	C20orf123	dJ257E24.3
HSCHR6_MHC_QBL	OR11A1	ENSG00000206517	ENST00000383645	protein_coding	KNOWN	None	8176	948	315	29393173	29396135	-1	OR11A2	hs6M1-18
HSCHR6_MHC_QBL	OR11A1	ENSG00000206517	ENST00000400715	protein_coding	KNOWN	None	8176	948	315	29393173	29424735	-1	OR11A2	hs6M1-18
HSCHR6_MHC_QBL	OR11A1	ENSG00000206517	ENST00000547506	protein_coding	KNOWN	None	8176	948	315	29393173	29395401	-1	OR11A2	hs6M1-18
13	UBL3	ENSG00000122042	ENST00000380680	protein_coding	KNOWN	CCDS9334	12504	354	117	30338508	30424821	-1	PNSC1	HCG-1, DKFZP434K151, FLJ32018
20	None	ENSG00000231071	ENST00000432048	processed_pseudogene	KNOWN	None	None	None	None	4716315	4717319	-1	None	None
6	TUBE1	ENSG00000074935	ENST00000368662	protein_coding	KNOWN	CCDS5100	20775	1428	475	112391980	112408716	-1	None	dJ142L7.2, FLJ22589, TUBE
6	TUBE1	ENSG00000074935	ENST00000604814	processed_transcript	KNOWN	None	20775	None	None	112392468	112406897	-1	None	dJ142L7.2, FLJ22589, TUBE
6	TUBE1	ENSG00000074935	ENST00000605457	nonsense_mediated_decay	KNOWN	None	20775	663	220	112392532	112408712	-1	None	dJ142L7.2, FLJ22589, TUBE
6	TUBE1	ENSG00000074935	ENST00000603651	retained_intron	KNOWN	None	20775	None	None	112393985	112396354	-1	None	dJ142L7.2, FLJ22589, TUBE
6	TUBE1	ENSG00000074935	ENST00000604743	nonsense_mediated_decay	KNOWN	None	20775	162	53	112395913	112408701	-1	None	dJ142L7.2, FLJ22589, TUBE
6	TUBE1	ENSG00000074935	ENST00000604689	retained_intron	KNOWN	None	20775	None	None	112396288	112399897	-1	None	dJ142L7.2, FLJ22589, TUBE
6	TUBE1	ENSG00000074935	ENST00000441191	processed_transcript	KNOWN	None	20775	None	None	112397202	112406904	-1	None	dJ142L7.2, FLJ22589, TUBE
6	TUBE1	ENSG00000074935	ENST00000604967	nonsense_mediated_decay	KNOWN	None	20775	165	54	112397638	112408669	-1	None	dJ142L7.2, FLJ22589, TUBE
6	TUBE1	ENSG00000074935	ENST00000368657	retained_intron	KNOWN	None	20775	None	None	112400603	112408682	-1	None	dJ142L7.2, FLJ22589, TUBE
6	TUBE1	ENSG00000074935	ENST00000603621	retained_intron	KNOWN	None	20775	None	None	112405119	112408701	-1	None	dJ142L7.2, FLJ22589, TUBE
6	TUBE1	ENSG00000074935	ENST00000603722	retained_intron	KNOWN	None	20775	None	None	112408017	112408732	-1	None	dJ142L7.2, FLJ22589, TUBE
HSCHR6_MHC_APD	HLA-DQB3	ENSG00000226343	ENST00000440418	unprocessed_pseudogene	KNOWN	None	4946	None	None	32683098	32684035	-1	HLA-DVB	D6S205, D6S205E, DVB, DQB3
20	None	ENSG00000252096	ENST00000516287	snoRNA	NOVEL	None	None	None	None	4849630	4849764	1	None	None
7	ARPC1B	ENSG00000130429	ENST00000443222	protein_coding	KNOWN	None	704	326	107	98971872	98985818	1	None	ARC41, p40-ARC, p41-ARC
7	ARPC1B	ENSG00000130429	ENST00000414376	protein_coding	KNOWN	None	704	306	101	98971882	98985798	1	None	ARC41, p40-ARC, p41-ARC
7	ARPC1B	ENSG00000130429	ENST00000252725	protein_coding	KNOWN	CCDS5661	704	1119	372	98972298	98992424	1	None	ARC41, p40-ARC, p41-ARC
7	ARPC1B	ENSG00000130429	ENST00000455009	protein_coding	KNOWN	None	704	386	127	98972330	98985878	1	None	ARC41, p40-ARC, p41-ARC
7	ARPC1B	ENSG00000130429	ENST00000484375	retained_intron	KNOWN	None	704	None	None	98972330	98988723	1	None	ARC41, p40-ARC, p41-ARC
7	ARPC1B	ENSG00000130429	ENST00000418347	protein_coding	KNOWN	None	704	248	81	98972352	98985740	1	None	ARC41, p40-ARC, p41-ARC
7	ARPC1B	ENSG00000130429	ENST00000429246	protein_coding	KNOWN	None	704	64	20	98972353	98983401	1	None	ARC41, p40-ARC, p41-ARC
7	ARPC1B	ENSG00000130429	ENST00000417330	protein_coding	KNOWN	None	704	392	129	98972353	98985884	1	None	ARC41, p40-ARC, p41-ARC
7	ARPC1B	ENSG00000130429	ENST00000431816	protein_coding	KNOWN	None	704	398	131	98972353	98985890	1	None	ARC41, p40-ARC, p41-ARC
7	ARPC1B	ENSG00000130429	ENST00000427217	protein_coding	KNOWN	None	704	398	131	98972353	98985890	1	None	ARC41, p40-ARC, p41-ARC
7	ARPC1B	ENSG00000130429	ENST00000458033	protein_coding	KNOWN	None	704	398	131	98972353	98985890	1	None	ARC41, p40-ARC, p41-ARC
7	ARPC1B	ENSG00000130429	ENST00000484600	retained_intron	KNOWN	None	704	None	None	98972353	98987652	1	None	ARC41, p40-ARC, p41-ARC
7	ARPC1B	ENSG00000130429	ENST00000451682	protein_coding	KNOWN	CCDS5661	704	1119	372	98972353	98992399	1	None	ARC41, p40-ARC, p41-ARC
7	ARPC1B	ENSG00000130429	ENST00000474880	processed_transcript	KNOWN	None	704	None	None	98983323	98986579	1	None	ARC41, p40-ARC, p41-ARC
7	ARPC1B	ENSG00000130429	ENST00000445924	nonsense_mediated_decay	KNOWN	None	704	99	32	98983323	98988629	1	None	ARC41, p40-ARC, p41-ARC
7	ARPC1B	ENSG00000130429	ENST00000432343	nonsense_mediated_decay	KNOWN	None	704	64	20	98983323	98988650	1	None	ARC41, p40-ARC, p41-ARC
7	ARPC1B	ENSG00000130429	ENST00000493403	processed_transcript	KNOWN	None	704	None	None	98983992	98985866	1	None	ARC41, p40-ARC, p41-ARC
7	ARPC1B	ENSG00000130429	ENST00000468337	retained_intron	KNOWN	None	704	None	None	98986717	98987606	1	None	ARC41, p40-ARC, p41-ARC
7	ARPC1B	ENSG00000130429	ENST00000481997	retained_intron	KNOWN	None	704	None	None	98988495	98992417	1	None	ARC41, p40-ARC, p41-ARC
7	ARPC1B	ENSG00000130429	ENST00000491294	retained_intron	KNOWN	None	704	None	None	98988801	98992420	1	None	ARC41, p40-ARC, p41-ARC
7	ARPC1B	ENSG00000130429	ENST00000463078	processed_transcript	KNOWN	None	704	None	None	98991665	98992424	1	None	ARC41, p40-ARC, p41-ARC
18	MAPRE2	ENSG00000166974	ENST00000591734	protein_coding	PUTATIVE	None	6891	582	193	32556892	32707012	1	None	RP1, EB1, EB2
18	MAPRE2	ENSG00000166974	ENST00000589180	protein_coding	PUTATIVE	None	6891	403	133	32557015	32706986	1	None	RP1, EB1, EB2
18	MAPRE2	ENSG00000166974	ENST00000590793	processed_transcript	KNOWN	None	6891	None	None	32557019	32568803	1	None	RP1, EB1, EB2
18	MAPRE2	ENSG00000166974	ENST00000587359	protein_coding	PUTATIVE	None	6891	234	77	32557019	32677522	1	None	RP1, EB1, EB2
18	MAPRE2	ENSG00000166974	ENST00000436190	protein_coding	KNOWN	CCDS45850	6891	948	315	32558208	32723434	1	None	RP1, EB1, EB2
18	MAPRE2	ENSG00000166974	ENST00000588349	protein_coding	PUTATIVE	None	6891	381	126	32558390	32682023	1	None	RP1, EB1, EB2
18	MAPRE2	ENSG00000166974	ENST00000300249	protein_coding	KNOWN	CCDS11910	6891	984	327	32621324	32723434	1	None	RP1, EB1, EB2
18	MAPRE2	ENSG00000166974	ENST00000538170	protein_coding	NOVEL	CCDS58619	6891	825	274	32621368	32723434	1	None	RP1, EB1, EB2
18	MAPRE2	ENSG00000166974	ENST00000588910	protein_coding	KNOWN	None	6891	780	259	32621395	32707581	1	None	RP1, EB1, EB2
18	MAPRE2	ENSG00000166974	ENST00000585592	retained_intron	KNOWN	None	6891	None	None	32621454	32650608	1	None	RP1, EB1, EB2
18	MAPRE2	ENSG00000166974	ENST00000589699	protein_coding	KNOWN	CCDS45851	6891	855	284	32621614	32723434	1	None	RP1, EB1, EB2
18	MAPRE2	ENSG00000166974	ENST00000588085	retained_intron	KNOWN	None	6891	None	None	32711882	32720461	1	None	RP1, EB1, EB2
18	MAPRE2	ENSG00000166974	ENST00000413393	protein_coding	KNOWN	CCDS45851	6891	855	284	32556892	32722378	1	None	RP1, EB1, EB2
20	None	ENSG00000252058	ENST00000516249	snoRNA	NOVEL	None	None	None	None	4863030	4863122	1	None	None
20	None	ENSG00000234573	ENST00000435457	processed_pseudogene	KNOWN	None	None	None	None	4994166	4994370	-1	None	None
12	RNF10	ENSG00000022840	ENST00000539486	protein_coding	KNOWN	None	10055	25	7	120971283	120972639	1	None	KIAA0262, RIE2
12	RNF10	ENSG00000022840	ENST00000325954	protein_coding	KNOWN	CCDS9201	10055	2436	811	120972154	121015397	1	None	KIAA0262, RIE2
12	RNF10	ENSG00000022840	ENST00000542438	protein_coding	PUTATIVE	None	10055	356	117	120972159	121000785	1	None	KIAA0262, RIE2
12	RNF10	ENSG00000022840	ENST00000538796	nonsense_mediated_decay	KNOWN	None	10055	255	84	120972391	120995399	1	None	KIAA0262, RIE2
12	RNF10	ENSG00000022840	ENST00000413266	protein_coding	KNOWN	None	10055	2451	816	120972615	121014689	1	None	KIAA0262, RIE2
12	RNF10	ENSG00000022840	ENST00000551139	processed_transcript	KNOWN	None	10055	None	None	120972657	120991803	1	None	KIAA0262, RIE2
12	RNF10	ENSG00000022840	ENST00000536869	nonsense_mediated_decay	KNOWN	None	10055	315	104	120972675	120995422	1	None	KIAA0262, RIE2
12	RNF10	ENSG00000022840	ENST00000537997	protein_coding	PUTATIVE	None	10055	372	123	120973229	120990469	1	None	KIAA0262, RIE2
12	RNF10	ENSG00000022840	ENST00000543578	processed_transcript	KNOWN	None	10055	None	None	120984260	120995207	1	None	KIAA0262, RIE2
12	RNF10	ENSG00000022840	ENST00000535417	retained_intron	KNOWN	None	10055	None	None	120992153	120995171	1	None	KIAA0262, RIE2
12	RNF10	ENSG00000022840	ENST00000542207	protein_coding	PUTATIVE	None	10055	548	181	120992574	121001176	1	None	KIAA0262, RIE2
12	RNF10	ENSG00000022840	ENST00000543675	processed_transcript	KNOWN	None	10055	None	None	120995347	121001293	1	None	KIAA0262, RIE2
12	RNF10	ENSG00000022840	ENST00000537740	protein_coding	PUTATIVE	None	10055	412	136	120998529	121001259	1	None	KIAA0262, RIE2
12	RNF10	ENSG00000022840	ENST00000537376	retained_intron	KNOWN	None	10055	None	None	120998642	121001027	1	None	KIAA0262, RIE2
12	RNF10	ENSG00000022840	ENST00000546262	protein_coding	PUTATIVE	None	10055	299	98	120998647	121004697	1	None	KIAA0262, RIE2
12	RNF10	ENSG00000022840	ENST00000544124	retained_intron	KNOWN	None	10055	None	None	121001075	121001708	1	None	KIAA0262, RIE2
12	RNF10	ENSG00000022840	ENST00000540046	protein_coding	PUTATIVE	None	10055	635	210	121001258	121004745	1	None	KIAA0262, RIE2
12	RNF10	ENSG00000022840	ENST00000545419	nonsense_mediated_decay	KNOWN	None	10055	786	261	121001288	121014691	1	None	KIAA0262, RIE2
12	RNF10	ENSG00000022840	ENST00000535395	retained_intron	KNOWN	None	10055	None	None	121001551	121003330	1	None	KIAA0262, RIE2
12	RNF10	ENSG00000022840	ENST00000366112	retained_intron	KNOWN	None	10055	None	None	121002899	121012741	1	None	KIAA0262, RIE2
12	RNF10	ENSG00000022840	ENST00000535470	processed_transcript	KNOWN	None	10055	None	None	121003239	121014685	1	None	KIAA0262, RIE2
12	RNF10	ENSG00000022840	ENST00000538254	protein_coding	PUTATIVE	None	10055	441	146	121003287	121014689	1	None	KIAA0262, RIE2
12	RNF10	ENSG00000022840	ENST00000543757	processed_transcript	KNOWN	None	10055	None	None	121004756	121013753	1	None	KIAA0262, RIE2
12	RNF10	ENSG00000022840	ENST00000542701	processed_transcript	KNOWN	None	10055	None	None	121008006	121015050	1	None	KIAA0262, RIE2
12	RNF10	ENSG00000022840	ENST00000544805	retained_intron	KNOWN	None	10055	None	None	121013404	121014681	1	None	KIAA0262, RIE2
20	RN7SL514P	ENSG00000266199	ENST00000579176	misc_RNA	KNOWN	None	46530	None	None	5006365	5006628	1	None	None
20	RNA5SP474	ENSG00000212536	ENST00000391234	rRNA	KNOWN	None	43374	None	None	5079033	5079122	-1	RN5S474	None
6	SPATS1	ENSG00000249481	ENST00000515220	protein_coding	KNOWN	None	22957	354	117	44310397	44328249	1	None	SPATA8, FLJ25442, SRSP1
6	SPATS1	ENSG00000249481	ENST00000288390	protein_coding	KNOWN	CCDS4911	22957	903	300	44310486	44344904	1	None	SPATA8, FLJ25442, SRSP1
6	SPATS1	ENSG00000249481	ENST00000506468	nonsense_mediated_decay	KNOWN	None	22957	216	71	44310677	44344901	1	None	SPATA8, FLJ25442, SRSP1
6	SPATS1	ENSG00000249481	ENST00000323108	protein_coding	KNOWN	CCDS4911	22957	903	300	44310397	44344903	1	None	SPATA8, FLJ25442, SRSP1
20	None	ENSG00000252367	ENST00000516558	misc_RNA	NOVEL	None	None	None	None	5094639	5094729	-1	None	None
20	None	ENSG00000212517	ENST00000391215	snoRNA	NOVEL	None	None	None	None	5102063	5102185	-1	None	None
7	C7orf25	ENSG00000136197	ENST00000350427	protein_coding	KNOWN	CCDS5466	21703	1266	421	42948325	42951768	-1	None	MGC2821
7	C7orf25	ENSG00000136197	ENST00000431882	protein_coding	KNOWN	CCDS47576	21703	1440	479	42949052	42951689	-1	None	MGC2821
7	C7orf25	ENSG00000136197	ENST00000438029	protein_coding	KNOWN	CCDS5466	21703	1266	421	42949221	42951509	-1	None	MGC2821
7	C7orf25	ENSG00000136197	ENST00000425683	protein_coding	KNOWN	None	21703	534	177	42949966	42951904	-1	None	MGC2821
7	C7orf25	ENSG00000136197	ENST00000432637	protein_coding	KNOWN	None	21703	255	84	42950245	42951543	-1	None	MGC2821
7	C7orf25	ENSG00000136197	ENST00000447342	protein_coding	KNOWN	CCDS5466	21703	1266	421	42948874	42951689	-1	None	MGC2821
19	ZNF714	ENSG00000160352	ENST00000597424	protein_coding	PUTATIVE	None	27124	86	27	21264965	21300018	1	None	None
19	ZNF714	ENSG00000160352	ENST00000596053	protein_coding	PUTATIVE	None	27124	333	110	21264980	21308073	1	None	None
19	ZNF714	ENSG00000160352	ENST00000597086	protein_coding	PUTATIVE	None	27124	71	22	21265005	21300003	1	None	None
19	ZNF714	ENSG00000160352	ENST00000596143	protein_coding	KNOWN	CCDS54239	27124	1665	554	21265006	21305954	1	None	None
19	ZNF714	ENSG00000160352	ENST00000596367	protein_coding	PUTATIVE	None	27124	501	166	21265009	21299887	1	None	None
19	ZNF714	ENSG00000160352	ENST00000601416	protein_coding	PUTATIVE	None	27124	255	84	21265009	21301688	1	None	None
19	ZNF714	ENSG00000160352	ENST00000600770	nonsense_mediated_decay	KNOWN	None	27124	255	84	21265009	21307897	1	None	None
19	ZNF714	ENSG00000160352	ENST00000600435	nonsense_mediated_decay	KNOWN	CCDS54239	27124	1665	554	21265015	21307897	1	None	None
19	ZNF714	ENSG00000160352	ENST00000291770	protein_coding	PUTATIVE	None	27124	168	55	21265056	21301280	1	None	None
19	ZNF714	ENSG00000160352	ENST00000600535	processed_transcript	PUTATIVE	None	27124	None	None	21266826	21274564	1	None	None
2	ITSN2	ENSG00000198399	ENST00000478720	retained_intron	KNOWN	None	6184	None	None	24425733	24428562	-1	SH3D1B	KIAA1256, SWAP, SH3P18, SWA, PRO2015
2	ITSN2	ENSG00000198399	ENST00000361999	protein_coding	KNOWN	CCDS1711	6184	5013	1670	24425733	24583178	-1	SH3D1B	KIAA1256, SWAP, SH3P18, SWA, PRO2015
2	ITSN2	ENSG00000198399	ENST00000355123	protein_coding	KNOWN	CCDS1710	6184	5094	1697	24425733	24583583	-1	SH3D1B	KIAA1256, SWAP, SH3P18, SWA, PRO2015
2	ITSN2	ENSG00000198399	ENST00000427234	nonsense_mediated_decay	KNOWN	None	6184	167	54	24426151	24432817	-1	SH3D1B	KIAA1256, SWAP, SH3P18, SWA, PRO2015
2	ITSN2	ENSG00000198399	ENST00000449392	nonsense_mediated_decay	KNOWN	None	6184	109	35	24427232	24431185	-1	SH3D1B	KIAA1256, SWAP, SH3P18, SWA, PRO2015
2	ITSN2	ENSG00000198399	ENST00000479575	retained_intron	KNOWN	None	6184	None	None	24428135	24433198	-1	SH3D1B	KIAA1256, SWAP, SH3P18, SWA, PRO2015
2	ITSN2	ENSG00000198399	ENST00000406921	protein_coding	PUTATIVE	CCDS46230	6184	3750	1249	24443193	24583377	-1	SH3D1B	KIAA1256, SWAP, SH3P18, SWA, PRO2015
2	ITSN2	ENSG00000198399	ENST00000416160	protein_coding	PUTATIVE	None	6184	362	119	24461802	24471568	-1	SH3D1B	KIAA1256, SWAP, SH3P18, SWA, PRO2015
2	ITSN2	ENSG00000198399	ENST00000412011	protein_coding	NOVEL	None	6184	1827	608	24509192	24583378	-1	SH3D1B	KIAA1256, SWAP, SH3P18, SWA, PRO2015
2	ITSN2	ENSG00000198399	ENST00000469848	retained_intron	KNOWN	None	6184	None	None	24516130	24518580	-1	SH3D1B	KIAA1256, SWAP, SH3P18, SWA, PRO2015
2	ITSN2	ENSG00000198399	ENST00000443927	protein_coding	PUTATIVE	None	6184	551	182	24533213	24583359	-1	SH3D1B	KIAA1256, SWAP, SH3P18, SWA, PRO2015
2	ITSN2	ENSG00000198399	ENST00000407704	processed_transcript	KNOWN	None	6184	None	None	24534489	24583341	-1	SH3D1B	KIAA1256, SWAP, SH3P18, SWA, PRO2015
20	UBE2D3P1	ENSG00000225022	ENST00000436669	processed_pseudogene	KNOWN	None	33349	None	None	5273034	5273477	-1	UBE2D5P, UBE2D3P	RP4-680N4
HSCHR6_MHC_DBB	HCG17	ENSG00000241053	ENST00000414460	processed_transcript	PUTATIVE	None	31339	None	None	30192097	30192535	-1	None	NCRNA00046, LINC00046
HSCHR6_MHC_DBB	HCG17	ENSG00000241053	ENST00000426984	processed_transcript	KNOWN	None	31339	None	None	30192097	30284162	-1	None	NCRNA00046, LINC00046
1	DENND2D	ENSG00000162777	ENST00000468692	processed_transcript	KNOWN	None	26192	None	None	111729796	111731950	-1	None	FLJ22457, RP5-1180E21.2
1	DENND2D	ENSG00000162777	ENST00000357640	protein_coding	KNOWN	CCDS831	26192	1416	471	111729796	111743311	-1	None	FLJ22457, RP5-1180E21.2
1	DENND2D	ENSG00000162777	ENST00000369752	protein_coding	KNOWN	None	26192	1407	468	111729796	111747031	-1	None	FLJ22457, RP5-1180E21.2
1	DENND2D	ENSG00000162777	ENST00000473682	processed_transcript	KNOWN	None	26192	None	None	111737761	111743168	-1	None	FLJ22457, RP5-1180E21.2
1	DENND2D	ENSG00000162777	ENST00000463713	processed_transcript	KNOWN	None	26192	None	None	111738536	111746924	-1	None	FLJ22457, RP5-1180E21.2
1	DENND2D	ENSG00000162777	ENST00000477586	processed_transcript	KNOWN	None	26192	None	None	111738592	111742743	-1	None	FLJ22457, RP5-1180E21.2
1	DENND2D	ENSG00000162777	ENST00000473822	processed_transcript	KNOWN	None	26192	None	None	111740541	111747157	-1	None	FLJ22457, RP5-1180E21.2
1	DENND2D	ENSG00000162777	ENST00000488786	processed_transcript	KNOWN	None	26192	None	None	111740542	111742865	-1	None	FLJ22457, RP5-1180E21.2
3	PPM1M	ENSG00000164088	ENST00000457454	protein_coding	PUTATIVE	None	26506	770	255	52279902	52283079	1	None	PP2Ceta, FLJ32332
3	PPM1M	ENSG00000164088	ENST00000467471	retained_intron	KNOWN	None	26506	None	None	52279914	52284611	1	None	PP2Ceta, FLJ32332
3	PPM1M	ENSG00000164088	ENST00000296487	protein_coding	KNOWN	None	26506	813	270	52280186	52284611	1	None	PP2Ceta, FLJ32332
3	PPM1M	ENSG00000164088	ENST00000409502	protein_coding	KNOWN	CCDS46840	26506	744	247	52280225	52284613	1	None	PP2Ceta, FLJ32332
3	PPM1M	ENSG00000164088	ENST00000489606	retained_intron	KNOWN	None	26506	None	None	52280462	52284613	1	None	PP2Ceta, FLJ32332
3	PPM1M	ENSG00000164088	ENST00000472955	retained_intron	KNOWN	None	26506	None	None	52281343	52282260	1	None	PP2Ceta, FLJ32332
3	PPM1M	ENSG00000164088	ENST00000482724	retained_intron	KNOWN	None	26506	None	None	52282442	52284611	1	None	PP2Ceta, FLJ32332
3	PPM1M	ENSG00000164088	ENST00000443681	protein_coding	PUTATIVE	None	26506	364	120	52282977	52283806	1	None	PP2Ceta, FLJ32332
3	PPM1M	ENSG00000164088	ENST00000457351	protein_coding	KNOWN	None	26506	1380	459	52279841	52283830	1	None	PP2Ceta, FLJ32332
3	PPM1M	ENSG00000164088	ENST00000323588	protein_coding	KNOWN	None	26506	897	298	52280225	52284609	1	None	PP2Ceta, FLJ32332
12	HIP1R	ENSG00000130787	ENST00000535831	retained_intron	KNOWN	None	18415	None	None	123319000	123342564	1	None	KIAA0655, HIP3, HIP12, FLJ14000, ILWEQ
12	HIP1R	ENSG00000130787	ENST00000253083	protein_coding	KNOWN	CCDS31922	18415	3207	1068	123319973	123347507	1	None	KIAA0655, HIP3, HIP12, FLJ14000, ILWEQ
12	HIP1R	ENSG00000130787	ENST00000452196	retained_intron	KNOWN	None	18415	None	None	123320028	123341931	1	None	KIAA0655, HIP3, HIP12, FLJ14000, ILWEQ
12	HIP1R	ENSG00000130787	ENST00000536772	retained_intron	KNOWN	None	18415	None	None	123335353	123339906	1	None	KIAA0655, HIP3, HIP12, FLJ14000, ILWEQ
12	HIP1R	ENSG00000130787	ENST00000536847	retained_intron	KNOWN	None	18415	None	None	123338030	123340648	1	None	KIAA0655, HIP3, HIP12, FLJ14000, ILWEQ
12	HIP1R	ENSG00000130787	ENST00000541712	retained_intron	KNOWN	None	18415	None	None	123343372	123344876	1	None	KIAA0655, HIP3, HIP12, FLJ14000, ILWEQ
12	HIP1R	ENSG00000130787	ENST00000536617	retained_intron	KNOWN	None	18415	None	None	123343969	123346930	1	None	KIAA0655, HIP3, HIP12, FLJ14000, ILWEQ
12	HIP1R	ENSG00000130787	ENST00000538236	retained_intron	KNOWN	None	18415	None	None	123344585	123346194	1	None	KIAA0655, HIP3, HIP12, FLJ14000, ILWEQ
12	HIP1R	ENSG00000130787	ENST00000535012	protein_coding	PUTATIVE	None	18415	593	196	123344712	123346631	1	None	KIAA0655, HIP3, HIP12, FLJ14000, ILWEQ
12	HIP1R	ENSG00000130787	ENST00000537322	processed_transcript	KNOWN	None	18415	None	None	123346263	123347033	1	None	KIAA0655, HIP3, HIP12, FLJ14000, ILWEQ
20	RNA5-8SP7	ENSG00000200313	ENST00000363443	rRNA	KNOWN	None	41962	None	None	5326652	5326806	-1	RN5-8S7	None
2	EML6	ENSG00000214595	ENST00000496970	retained_intron	KNOWN	None	35412	None	None	54950636	54951868	1	None	FLJ42562
2	EML6	ENSG00000214595	ENST00000491655	processed_transcript	KNOWN	None	35412	None	None	54950802	55043999	1	None	FLJ42562
2	EML6	ENSG00000214595	ENST00000356458	protein_coding	NOVEL	CCDS46286	35412	5877	1958	54951679	55199154	1	None	FLJ42562
2	EML6	ENSG00000214595	ENST00000493997	retained_intron	KNOWN	None	35412	None	None	55080988	55110015	1	None	FLJ42562
2	EML6	ENSG00000214595	ENST00000481376	processed_transcript	KNOWN	None	35412	None	None	55176019	55187374	1	None	FLJ42562
2	EML6	ENSG00000214595	ENST00000490828	processed_transcript	KNOWN	None	35412	None	None	55181171	55198454	1	None	FLJ42562
2	EML6	ENSG00000214595	ENST00000472965	processed_transcript	PUTATIVE	None	35412	None	None	55191164	55195371	1	None	FLJ42562
2	EML6	ENSG00000214595	ENST00000488611	processed_transcript	PUTATIVE	None	35412	None	None	55194168	55197468	1	None	FLJ42562
2	EML6	ENSG00000214595	ENST00000466608	processed_transcript	PUTATIVE	None	35412	None	None	55197791	55199157	1	None	FLJ42562
10	ZEB1	ENSG00000148516	ENST00000488625	retained_intron	KNOWN	None	11642	None	None	31607424	31818130	1	TCF8, PPCD3	BZP, ZEB, AREB6, NIL-2-A, Zfhep, Zfhx1a
10	ZEB1	ENSG00000148516	ENST00000560196	retained_intron	KNOWN	None	11642	None	None	31607712	31791375	1	TCF8, PPCD3	BZP, ZEB, AREB6, NIL-2-A, Zfhep, Zfhx1a
10	ZEB1	ENSG00000148516	ENST00000542879	retained_intron	KNOWN	None	11642	None	None	31607747	31816204	1	TCF8, PPCD3	BZP, ZEB, AREB6, NIL-2-A, Zfhep, Zfhx1a
10	ZEB1	ENSG00000148516	ENST00000561304	retained_intron	KNOWN	None	11642	None	None	31607766	31803609	1	TCF8, PPCD3	BZP, ZEB, AREB6, NIL-2-A, Zfhep, Zfhx1a
10	ZEB1	ENSG00000148516	ENST00000320985	protein_coding	KNOWN	CCDS7169	11642	3375	1124	31608054	31818130	1	TCF8, PPCD3	BZP, ZEB, AREB6, NIL-2-A, Zfhep, Zfhx1a
10	ZEB1	ENSG00000148516	ENST00000483752	processed_transcript	KNOWN	None	11642	None	None	31608141	31676198	1	TCF8, PPCD3	BZP, ZEB, AREB6, NIL-2-A, Zfhep, Zfhx1a
10	ZEB1	ENSG00000148516	ENST00000559858	processed_transcript	KNOWN	None	11642	None	None	31608141	31812935	1	TCF8, PPCD3	BZP, ZEB, AREB6, NIL-2-A, Zfhep, Zfhx1a
10	ZEB1	ENSG00000148516	ENST00000560721	protein_coding	KNOWN	CCDS53506	11642	3315	1104	31608141	31816222	1	TCF8, PPCD3	BZP, ZEB, AREB6, NIL-2-A, Zfhep, Zfhx1a
10	ZEB1	ENSG00000148516	ENST00000558440	protein_coding	NOVEL	None	11642	864	287	31608142	31809349	1	TCF8, PPCD3	BZP, ZEB, AREB6, NIL-2-A, Zfhep, Zfhx1a
10	ZEB1	ENSG00000148516	ENST00000424869	protein_coding	KNOWN	None	11642	868	288	31608145	31809128	1	TCF8, PPCD3	BZP, ZEB, AREB6, NIL-2-A, Zfhep, Zfhx1a
10	ZEB1	ENSG00000148516	ENST00000437844	nonsense_mediated_decay	KNOWN	None	11642	162	53	31608145	31818742	1	TCF8, PPCD3	BZP, ZEB, AREB6, NIL-2-A, Zfhep, Zfhx1a
10	ZEB1	ENSG00000148516	ENST00000542815	protein_coding	KNOWN	CCDS53507	11642	3174	1057	31608151	31816222	1	TCF8, PPCD3	BZP, ZEB, AREB6, NIL-2-A, Zfhep, Zfhx1a
10	ZEB1	ENSG00000148516	ENST00000558863	retained_intron	KNOWN	None	11642	None	None	31609042	31809739	1	TCF8, PPCD3	BZP, ZEB, AREB6, NIL-2-A, Zfhep, Zfhx1a
10	ZEB1	ENSG00000148516	ENST00000561212	protein_coding	NOVEL	None	11642	1500	499	31609055	31809739	1	TCF8, PPCD3	BZP, ZEB, AREB6, NIL-2-A, Zfhep, Zfhx1a
10	ZEB1	ENSG00000148516	ENST00000558655	retained_intron	KNOWN	None	11642	None	None	31609476	31812935	1	TCF8, PPCD3	BZP, ZEB, AREB6, NIL-2-A, Zfhep, Zfhx1a
10	ZEB1	ENSG00000148516	ENST00000561061	nonsense_mediated_decay	KNOWN	None	11642	196	64	31609535	31803635	1	TCF8, PPCD3	BZP, ZEB, AREB6, NIL-2-A, Zfhep, Zfhx1a
10	ZEB1	ENSG00000148516	ENST00000559496	retained_intron	KNOWN	None	11642	None	None	31610064	31803585	1	TCF8, PPCD3	BZP, ZEB, AREB6, NIL-2-A, Zfhep, Zfhx1a
10	ZEB1	ENSG00000148516	ENST00000559476	protein_coding	KNOWN	None	11642	831	276	31610081	31809142	1	TCF8, PPCD3	BZP, ZEB, AREB6, NIL-2-A, Zfhep, Zfhx1a
10	ZEB1	ENSG00000148516	ENST00000557827	retained_intron	KNOWN	None	11642	None	None	31610403	31803579	1	TCF8, PPCD3	BZP, ZEB, AREB6, NIL-2-A, Zfhep, Zfhx1a
10	ZEB1	ENSG00000148516	ENST00000606671	processed_transcript	KNOWN	None	11642	None	None	31610550	31791351	1	TCF8, PPCD3	BZP, ZEB, AREB6, NIL-2-A, Zfhep, Zfhx1a
10	ZEB1	ENSG00000148516	ENST00000606161	processed_transcript	KNOWN	None	11642	None	None	31610619	31791334	1	TCF8, PPCD3	BZP, ZEB, AREB6, NIL-2-A, Zfhep, Zfhx1a
10	ZEB1	ENSG00000148516	ENST00000558832	processed_transcript	KNOWN	None	11642	None	None	31610939	31647519	1	TCF8, PPCD3	BZP, ZEB, AREB6, NIL-2-A, Zfhep, Zfhx1a
10	ZEB1	ENSG00000148516	ENST00000493835	processed_transcript	KNOWN	None	11642	None	None	31644073	31750165	1	TCF8, PPCD3	BZP, ZEB, AREB6, NIL-2-A, Zfhep, Zfhx1a
10	ZEB1	ENSG00000148516	ENST00000560909	retained_intron	KNOWN	None	11642	None	None	31676052	31678638	1	TCF8, PPCD3	BZP, ZEB, AREB6, NIL-2-A, Zfhep, Zfhx1a
10	ZEB1	ENSG00000148516	ENST00000361642	protein_coding	KNOWN	CCDS53505	11642	3378	1125	31608101	31818741	1	TCF8, PPCD3	BZP, ZEB, AREB6, NIL-2-A, Zfhep, Zfhx1a
10	ZEB1	ENSG00000148516	ENST00000446923	protein_coding	KNOWN	CCDS44370	11642	3327	1108	31610064	31818741	1	TCF8, PPCD3	BZP, ZEB, AREB6, NIL-2-A, Zfhep, Zfhx1a
HSCHR6_MHC_COX	RNF39	ENSG00000227171	ENST00000425956	protein_coding	KNOWN	None	18064	1263	420	30027939	30033560	-1	None	HZFw1, LIRF
HSCHR6_MHC_COX	RNF39	ENSG00000227171	ENST00000442378	protein_coding	KNOWN	None	18064	1065	354	30027939	30033522	-1	None	HZFw1, LIRF
HSCHR6_MHC_COX	RNF39	ENSG00000227171	ENST00000551453	protein_coding	KNOWN	None	18064	756	251	30028457	30033462	-1	None	HZFw1, LIRF
20	LINC00658	ENSG00000226995	ENST00000599273	lincRNA	KNOWN	None	44315	None	None	5407541	5413135	-1	None	None
20	LINC00658	ENSG00000226995	ENST00000593667	lincRNA	KNOWN	None	44315	None	None	5412596	5413135	-1	None	None
20	LINC00658	ENSG00000226995	ENST00000414677	lincRNA	KNOWN	None	44315	None	None	5412638	5413249	-1	None	None
20	LINC00658	ENSG00000226995	ENST00000420529	lincRNA	KNOWN	None	44315	None	None	5412638	5426332	-1	None	None
20	LINC00658	ENSG00000226995	ENST00000422352	lincRNA	KNOWN	None	44315	None	None	5414519	5426392	-1	None	None
20	LINC00658	ENSG00000226995	ENST00000600157	lincRNA	KNOWN	None	44315	None	None	5414917	5451740	-1	None	None
HSCHR6_MHC_MANN	HLA-DOA	ENSG00000231558	ENST00000426070	protein_coding	KNOWN	None	4936	753	250	33125750	33131183	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
HSCHR6_MHC_MANN	HLA-DOA	ENSG00000231558	ENST00000486900	processed_transcript	KNOWN	None	4936	None	None	33128178	33128955	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
HSCHR6_MHC_MANN	HLA-DOA	ENSG00000231558	ENST00000487110	retained_intron	KNOWN	None	4936	None	None	33128372	33129625	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
HSCHR6_MHC_MANN	HLA-DOA	ENSG00000231558	ENST00000474779	processed_transcript	KNOWN	None	4936	None	None	33129016	33129695	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
HSCHR6_MHC_MANN	HLA-DOA	ENSG00000231558	ENST00000455325	protein_coding	KNOWN	None	4936	260	85	33129068	33131150	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
HSCHR6_MHC_MANN	HLA-DOA	ENSG00000231558	ENST00000460054	processed_transcript	KNOWN	None	4936	None	None	33129632	33131153	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
HSCHR6_MHC_MANN	HLA-DOA	ENSG00000231558	ENST00000546375	protein_coding	KNOWN	None	4936	186	61	33128317	33131131	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
21	MRPS6	ENSG00000243927	ENST00000488492	processed_transcript	KNOWN	None	14051	None	None	35445524	35515334	1	C21orf101	MRP-S6, RPMS6
21	MRPS6	ENSG00000243927	ENST00000399312	protein_coding	KNOWN	CCDS33548	14051	378	125	35445823	35515334	1	C21orf101	MRP-S6, RPMS6
21	MRPS6	ENSG00000243927	ENST00000477091	processed_transcript	KNOWN	None	14051	None	None	35445849	35515334	1	C21orf101	MRP-S6, RPMS6
21	MRPS6	ENSG00000243927	ENST00000483977	retained_intron	KNOWN	None	14051	None	None	35494474	35515334	1	C21orf101	MRP-S6, RPMS6
21	MRPS6	ENSG00000243927	ENST00000482679	processed_transcript	KNOWN	None	14051	None	None	35496253	35515334	1	C21orf101	MRP-S6, RPMS6
7	STAG3	ENSG00000066923	ENST00000426455	protein_coding	KNOWN	CCDS34703	11356	3678	1225	99775186	99812003	1	None	None
7	STAG3	ENSG00000066923	ENST00000394018	protein_coding	NOVEL	None	11356	3504	1167	99775366	99812003	1	None	None
7	STAG3	ENSG00000066923	ENST00000416412	protein_coding	KNOWN	None	11356	434	143	99775489	99783920	1	None	None
7	STAG3	ENSG00000066923	ENST00000317296	protein_coding	KNOWN	CCDS34703	11356	3678	1225	99775539	99812004	1	None	None
7	STAG3	ENSG00000066923	ENST00000422690	protein_coding	KNOWN	None	11356	336	111	99775552	99780462	1	None	None
7	STAG3	ENSG00000066923	ENST00000496157	retained_intron	KNOWN	None	11356	None	None	99775558	99812010	1	None	None
7	STAG3	ENSG00000066923	ENST00000439782	protein_coding	KNOWN	None	11356	565	187	99775559	99787091	1	None	None
7	STAG3	ENSG00000066923	ENST00000482546	retained_intron	KNOWN	None	11356	None	None	99775560	99778518	1	None	None
7	STAG3	ENSG00000066923	ENST00000459699	processed_transcript	KNOWN	None	11356	None	None	99779001	99787219	1	None	None
7	STAG3	ENSG00000066923	ENST00000491498	processed_transcript	KNOWN	None	11356	None	None	99795065	99812004	1	None	None
7	STAG3	ENSG00000066923	ENST00000440830	processed_transcript	KNOWN	None	11356	None	None	99795097	99812006	1	None	None
7	STAG3	ENSG00000066923	ENST00000477469	retained_intron	KNOWN	None	11356	None	None	99795425	99797225	1	None	None
7	STAG3	ENSG00000066923	ENST00000476057	retained_intron	KNOWN	None	11356	None	None	99797761	99798569	1	None	None
7	STAG3	ENSG00000066923	ENST00000479359	retained_intron	KNOWN	None	11356	None	None	99797770	99799638	1	None	None
7	STAG3	ENSG00000066923	ENST00000412190	protein_coding	NOVEL	None	11356	555	184	99802896	99812003	1	None	None
7	STAG3	ENSG00000066923	ENST00000451963	nonsense_mediated_decay	KNOWN	None	11356	519	172	99802980	99819111	1	None	None
7	STAG3	ENSG00000066923	ENST00000492674	retained_intron	KNOWN	None	11356	None	None	99809282	99812005	1	None	None
9	None	ENSG00000234782	ENST00000413759	processed_pseudogene	KNOWN	None	None	None	None	120845147	120845660	-1	None	None
9	None	ENSG00000234782	ENST00000398368	processed_pseudogene	KNOWN	None	None	None	None	120845142	120845558	-1	None	None
9	None	ENSG00000225050	ENST00000450292	lincRNA	KNOWN	None	None	None	None	121450030	121468238	-1	None	None
HSCHR6_MHC_DBB	TRIM26BP	ENSG00000225659	ENST00000421860	unprocessed_pseudogene	KNOWN	None	31338	None	None	30196359	30200335	1	TRIM26P	Em:AB023053.1, TRIM26P1
10	None	ENSG00000232115	ENST00000418296	processed_pseudogene	KNOWN	None	None	None	None	59866184	59866640	-1	None	None
1	IVNS1ABP	ENSG00000116679	ENST00000480769	retained_intron	KNOWN	None	16951	None	None	185265520	185275632	-1	None	NS1-BP, HSPC068, NS-1, KIAA0850, ND1, KLHL39
1	IVNS1ABP	ENSG00000116679	ENST00000367498	protein_coding	KNOWN	CCDS1368	16951	1929	642	185265520	185286461	-1	None	NS1-BP, HSPC068, NS-1, KIAA0850, ND1, KLHL39
1	IVNS1ABP	ENSG00000116679	ENST00000459929	processed_transcript	KNOWN	None	16951	None	None	185266147	185286405	-1	None	NS1-BP, HSPC068, NS-1, KIAA0850, ND1, KLHL39
1	IVNS1ABP	ENSG00000116679	ENST00000475046	retained_intron	KNOWN	None	16951	None	None	185266903	185270846	-1	None	NS1-BP, HSPC068, NS-1, KIAA0850, ND1, KLHL39
1	IVNS1ABP	ENSG00000116679	ENST00000494880	processed_transcript	KNOWN	None	16951	None	None	185267537	185270770	-1	None	NS1-BP, HSPC068, NS-1, KIAA0850, ND1, KLHL39
1	IVNS1ABP	ENSG00000116679	ENST00000468217	retained_intron	KNOWN	None	16951	None	None	185269229	185270050	-1	None	NS1-BP, HSPC068, NS-1, KIAA0850, ND1, KLHL39
1	IVNS1ABP	ENSG00000116679	ENST00000491112	retained_intron	KNOWN	None	16951	None	None	185269378	185270381	-1	None	NS1-BP, HSPC068, NS-1, KIAA0850, ND1, KLHL39
1	IVNS1ABP	ENSG00000116679	ENST00000422754	protein_coding	KNOWN	None	16951	354	117	185275882	185276794	-1	None	NS1-BP, HSPC068, NS-1, KIAA0850, ND1, KLHL39
1	IVNS1ABP	ENSG00000116679	ENST00000367497	protein_coding	KNOWN	None	16951	408	135	185276812	185280259	-1	None	NS1-BP, HSPC068, NS-1, KIAA0850, ND1, KLHL39
1	IVNS1ABP	ENSG00000116679	ENST00000392007	protein_coding	KNOWN	None	16951	1275	424	185266898	185280439	-1	None	NS1-BP, HSPC068, NS-1, KIAA0850, ND1, KLHL39
10	None	ENSG00000180221	ENST00000312966	processed_pseudogene	KNOWN	None	None	None	None	59972302	59972797	-1	None	None
HSCHR6_MHC_APD	MIR3135B	ENSG00000264180	ENST00000584005	miRNA	KNOWN	None	41783	None	None	32702571	32702638	-1	None	hsa-mir-3135b
14	AP4S1	ENSG00000100478	ENST00000557346	protein_coding	KNOWN	None	575	399	132	31494312	31562205	1	None	CLA20, AP47B, SPG52
14	AP4S1	ENSG00000100478	ENST00000542754	protein_coding	KNOWN	CCDS45093	575	435	144	31494672	31562818	1	None	CLA20, AP47B, SPG52
14	AP4S1	ENSG00000100478	ENST00000556232	protein_coding	KNOWN	None	575	294	97	31494853	31542179	1	None	CLA20, AP47B, SPG52
14	AP4S1	ENSG00000100478	ENST00000216366	protein_coding	KNOWN	CCDS9642	575	480	159	31494857	31555656	1	None	CLA20, AP47B, SPG52
14	AP4S1	ENSG00000100478	ENST00000334725	protein_coding	PUTATIVE	CCDS58309	575	450	149	31494874	31554417	1	None	CLA20, AP47B, SPG52
14	AP4S1	ENSG00000100478	ENST00000554609	protein_coding	PUTATIVE	None	575	309	102	31494877	31562638	1	None	CLA20, AP47B, SPG52
14	AP4S1	ENSG00000100478	ENST00000554345	protein_coding	NOVEL	CCDS58310	575	408	135	31494889	31554995	1	None	CLA20, AP47B, SPG52
14	AP4S1	ENSG00000100478	ENST00000555417	protein_coding	KNOWN	None	575	23	6	31495849	31535425	1	None	CLA20, AP47B, SPG52
14	AP4S1	ENSG00000100478	ENST00000556480	protein_coding	PUTATIVE	None	575	252	83	31535502	31542391	1	None	CLA20, AP47B, SPG52
14	AP4S1	ENSG00000100478	ENST00000313566	protein_coding	KNOWN	None	575	435	144	31494683	31562241	1	None	CLA20, AP47B, SPG52
15	ISL2	ENSG00000159556	ENST00000290759	protein_coding	KNOWN	CCDS10290	18524	1080	359	76629065	76634817	1	None	FLJ10160
15	ISL2	ENSG00000159556	ENST00000558656	nonsense_mediated_decay	KNOWN	None	18524	588	195	76629149	76634729	1	None	FLJ10160
15	ISL2	ENSG00000159556	ENST00000558437	retained_intron	KNOWN	None	18524	None	None	76629779	76630855	1	None	FLJ10160
10	None	ENSG00000238970	ENST00000458829	snoRNA	NOVEL	None	None	None	None	59998418	59998521	-1	None	None
10	None	ENSG00000228527	ENST00000440189	lincRNA	KNOWN	None	None	None	None	60064313	60065381	1	None	None
HSCHR6_MHC_DBB	HLA-L	ENSG00000241166	ENST00000476982	processed_transcript	KNOWN	None	4970	None	None	30217654	30225008	1	HLA92, HLAL	HLA-92
HSCHR6_MHC_DBB	HLA-L	ENSG00000241166	ENST00000492699	transcribed_unprocessed_pseudogene	KNOWN	None	4970	None	None	30217672	30220392	1	HLA92, HLAL	HLA-92
HSCHR6_MHC_DBB	HLA-L	ENSG00000241166	ENST00000547215	unprocessed_pseudogene	KNOWN	None	4970	None	None	30217641	30251055	1	HLA92, HLAL	HLA-92
HSCHR6_MHC_APD	None	ENSG00000233089	ENST00000455129	processed_transcript	KNOWN	None	None	None	None	32795470	32797879	1	None	None
HSCHR6_MHC_APD	None	ENSG00000233089	ENST00000429668	processed_transcript	KNOWN	None	None	None	None	32795492	32797203	1	None	None
HSCHR6_MHC_APD	None	ENSG00000233089	ENST00000442671	processed_transcript	KNOWN	None	None	None	None	32795517	32797370	1	None	None
HSCHR6_MHC_APD	None	ENSG00000233089	ENST00000446913	processed_transcript	KNOWN	None	None	None	None	32795517	32797594	1	None	None
HSCHR6_MHC_APD	None	ENSG00000233089	ENST00000453957	processed_transcript	KNOWN	None	None	None	None	32795518	32797079	1	None	None
HSCHR6_MHC_APD	None	ENSG00000233089	ENST00000431024	processed_transcript	KNOWN	None	None	None	None	32795522	32797462	1	None	None
10	None	ENSG00000261076	ENST00000562575	lincRNA	KNOWN	None	None	None	None	60085374	60086790	-1	None	None
4	None	ENSG00000250191	ENST00000503089	unprocessed_pseudogene	KNOWN	None	None	None	None	134495721	134496363	-1	None	None
10	FAM133CP	ENSG00000183055	ENST00000332869	processed_pseudogene	KNOWN	None	44190	None	None	60475314	60476017	1	None	None
11	None	ENSG00000269766	ENST00000598940	protein_coding	NOVEL	None	None	30	9	35150091	35150215	-1	None	None
21	None	ENSG00000238411	ENST00000459169	miRNA	NOVEL	None	None	None	None	9683191	9683272	1	None	None
6	TTLL2	ENSG00000120440	ENST00000239587	protein_coding	KNOWN	CCDS5301	21211	1779	592	167738574	167755375	1	C6orf104	NYD-TSPG, dJ366N23.3
6	TTLL2	ENSG00000120440	ENST00000515138	nonsense_mediated_decay	KNOWN	CCDS5301	21211	1779	592	167738586	167772991	1	C6orf104	NYD-TSPG, dJ366N23.3
6	TTLL2	ENSG00000120440	ENST00000512917	nonsense_mediated_decay	KNOWN	None	21211	153	50	167738593	167752174	1	C6orf104	NYD-TSPG, dJ366N23.3
10	ZDHHC6	ENSG00000023041	ENST00000369405	protein_coding	KNOWN	CCDS7574	19160	1242	413	114190058	114206672	-1	None	ZNF376, FLJ21952
10	ZDHHC6	ENSG00000023041	ENST00000369404	protein_coding	KNOWN	None	19160	1230	409	114190482	114206659	-1	None	ZNF376, FLJ21952
10	ZDHHC6	ENSG00000023041	ENST00000482410	processed_transcript	KNOWN	None	19160	None	None	114190567	114193243	-1	None	ZNF376, FLJ21952
10	ZDHHC6	ENSG00000023041	ENST00000471035	processed_transcript	KNOWN	None	19160	None	None	114190582	114193328	-1	None	ZNF376, FLJ21952
21	ADAMTS5	ENSG00000154736	ENST00000284987	protein_coding	KNOWN	CCDS13579	221	2793	930	28290231	28338832	-1	None	ADMP-2, ADAMTS11
6	HLA-DOA	ENSG00000204252	ENST00000229829	protein_coding	KNOWN	CCDS4763	4936	753	250	32971955	32977389	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
6	HLA-DOA	ENSG00000204252	ENST00000490305	processed_transcript	KNOWN	None	4936	None	None	32974384	32975161	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
6	HLA-DOA	ENSG00000204252	ENST00000485901	retained_intron	KNOWN	None	4936	None	None	32974578	32975831	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
6	HLA-DOA	ENSG00000204252	ENST00000495532	processed_transcript	KNOWN	None	4936	None	None	32975222	32975901	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
6	HLA-DOA	ENSG00000204252	ENST00000374813	protein_coding	KNOWN	None	4936	260	85	32975274	32977356	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
6	HLA-DOA	ENSG00000204252	ENST00000467465	processed_transcript	KNOWN	None	4936	None	None	32975838	32977359	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
6	HLA-DOA	ENSG00000204252	ENST00000450833	protein_coding	KNOWN	None	4936	615	204	32974107	32977352	-1	HLA-DZA, HLA-DNA	HLA-D0-alpha
9	None	ENSG00000270166	ENST00000602394	processed_pseudogene	KNOWN	None	None	None	None	86693499	86693772	1	None	None
9	None	ENSG00000233262	ENST00000419815	antisense	KNOWN	None	None	None	None	86893134	86905046	1	None	None
9	None	ENSG00000228095	ENST00000423044	processed_pseudogene	KNOWN	None	None	None	None	87219026	87219340	-1	None	None
9	None	ENSG00000228095	ENST00000419515	pseudogene	KNOWN	None	None	None	None	87219026	87219344	-1	None	None
8	REEP4	ENSG00000168476	ENST00000334530	protein_coding	KNOWN	None	26176	522	173	21995533	21999366	-1	C8orf20	FLJ22246, FLJ22277, PP432
8	REEP4	ENSG00000168476	ENST00000306306	protein_coding	KNOWN	CCDS6024	26176	774	257	21995533	21999464	-1	C8orf20	FLJ22246, FLJ22277, PP432
8	REEP4	ENSG00000168476	ENST00000523293	protein_coding	PUTATIVE	None	26176	756	251	21995764	21999053	-1	C8orf20	FLJ22246, FLJ22277, PP432
8	REEP4	ENSG00000168476	ENST00000518664	protein_coding	PUTATIVE	None	26176	576	191	21996416	21999415	-1	C8orf20	FLJ22246, FLJ22277, PP432
8	REEP4	ENSG00000168476	ENST00000519074	retained_intron	KNOWN	None	26176	None	None	21996420	21999281	-1	C8orf20	FLJ22246, FLJ22277, PP432
8	REEP4	ENSG00000168476	ENST00000519875	retained_intron	KNOWN	None	26176	None	None	21997315	21999282	-1	C8orf20	FLJ22246, FLJ22277, PP432
8	REEP4	ENSG00000168476	ENST00000521744	protein_coding	PUTATIVE	None	26176	166	54	21997719	21999464	-1	C8orf20	FLJ22246, FLJ22277, PP432
19	PGPEP1	ENSG00000130517	ENST00000269919	protein_coding	KNOWN	CCDS12375	13568	630	209	18451397	18480757	1	None	PGP-I, Pcp, PGP, PGPI
19	PGPEP1	ENSG00000130517	ENST00000600283	nonsense_mediated_decay	KNOWN	None	13568	270	89	18451408	18475028	1	None	PGP-I, Pcp, PGP, PGPI
19	PGPEP1	ENSG00000130517	ENST00000595066	protein_coding	PUTATIVE	None	13568	441	146	18451409	18468667	1	None	PGP-I, Pcp, PGP, PGPI
19	PGPEP1	ENSG00000130517	ENST00000595552	protein_coding	PUTATIVE	None	13568	231	76	18451411	18480726	1	None	PGP-I, Pcp, PGP, PGPI
19	PGPEP1	ENSG00000130517	ENST00000598267	nonsense_mediated_decay	KNOWN	None	13568	96	31	18451419	18475152	1	None	PGP-I, Pcp, PGP, PGPI
19	PGPEP1	ENSG00000130517	ENST00000596962	nonsense_mediated_decay	KNOWN	None	13568	270	89	18451421	18474808	1	None	PGP-I, Pcp, PGP, PGPI
19	PGPEP1	ENSG00000130517	ENST00000604499	protein_coding	NOVEL	None	13568	621	206	18451450	18474512	1	None	PGP-I, Pcp, PGP, PGPI
19	PGPEP1	ENSG00000130517	ENST00000597663	protein_coding	PUTATIVE	None	13568	615	204	18451469	18480693	1	None	PGP-I, Pcp, PGP, PGPI
19	PGPEP1	ENSG00000130517	ENST00000597431	protein_coding	NOVEL	None	13568	302	99	18453669	18474498	1	None	PGP-I, Pcp, PGP, PGPI
19	PGPEP1	ENSG00000130517	ENST00000252813	protein_coding	KNOWN	None	13568	399	132	18451419	18475152	1	None	PGP-I, Pcp, PGP, PGPI
19	GRIN2D	ENSG00000105464	ENST00000263269	protein_coding	KNOWN	CCDS12719	4588	4011	1336	48898132	48948188	1	NMDAR2D	GluN2D, EB11, NR2D
9	UBE2V1P10	ENSG00000226590	ENST00000414685	processed_pseudogene	KNOWN	None	44895	None	None	87774597	87774865	1	None	None
9	STK33P1	ENSG00000227412	ENST00000423835	processed_pseudogene	KNOWN	None	26871	None	None	88107494	88109009	1	STK33P	STK33ps
9	None	ENSG00000234424	ENST00000422653	unprocessed_pseudogene	KNOWN	None	None	None	None	88368221	88401490	1	None	None
9	None	ENSG00000234424	ENST00000418135	unprocessed_pseudogene	KNOWN	None	None	None	None	88388756	88401092	1	None	None
HSCHR6_MHC_COX	None	ENSG00000258097	ENST00000546574	protein_coding	NOVEL	None	None	285	94	31618146	31649536	1	None	None
HSCHR6_MHC_QBL	OR2H1	ENSG00000206516	ENST00000400714	protein_coding	KNOWN	None	8252	951	316	29424845	29431993	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_QBL	OR2H1	ENSG00000206516	ENST00000400713	protein_coding	KNOWN	None	8252	951	316	29424852	29431993	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_QBL	OR2H1	ENSG00000206516	ENST00000478632	processed_transcript	KNOWN	None	8252	None	None	29424867	29428751	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_QBL	OR2H1	ENSG00000206516	ENST00000383644	protein_coding	KNOWN	None	8252	951	316	29427435	29431993	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_QBL	OR2H1	ENSG00000206516	ENST00000400712	protein_coding	KNOWN	None	8252	951	316	29429105	29430398	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_QBL	OR2H1	ENSG00000206516	ENST00000461453	processed_transcript	KNOWN	None	8252	None	None	29429160	29430385	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_QBL	OR2H1	ENSG00000206516	ENST00000460440	processed_transcript	KNOWN	None	8252	None	None	29429160	29430385	1	OR2H6, OR2H8	OR6-2
HSCHR6_MHC_QBL	OR2H1	ENSG00000206516	ENST00000548244	protein_coding	KNOWN	None	8252	951	316	29426117	29431985	1	OR2H6, OR2H8	OR6-2
13	KATNAL1	ENSG00000102781	ENST00000380615	protein_coding	KNOWN	CCDS31956	28361	1473	490	30776767	30881621	-1	None	MGC2599
13	KATNAL1	ENSG00000102781	ENST00000380617	protein_coding	KNOWN	CCDS31956	28361	1473	490	30782617	30881163	-1	None	MGC2599
13	KATNAL1	ENSG00000102781	ENST00000480854	retained_intron	KNOWN	None	28361	None	None	30782862	30784801	-1	None	MGC2599
13	KATNAL1	ENSG00000102781	ENST00000414289	protein_coding	KNOWN	None	28361	459	152	30829617	30880993	-1	None	MGC2599
13	KATNAL1	ENSG00000102781	ENST00000441394	protein_coding	KNOWN	None	28361	451	149	30829625	30881181	-1	None	MGC2599
12	KRT7	ENSG00000135480	ENST00000552400	processed_transcript	PUTATIVE	None	6445	None	None	52626304	52626932	1	None	K7, CK7, K2C7, SCL
12	KRT7	ENSG00000135480	ENST00000546666	processed_transcript	PUTATIVE	None	6445	None	None	52626449	52627224	1	None	K7, CK7, K2C7, SCL
12	KRT7	ENSG00000135480	ENST00000331817	protein_coding	KNOWN	CCDS8822	6445	1410	469	52626898	52642705	1	None	K7, CK7, K2C7, SCL
12	KRT7	ENSG00000135480	ENST00000547613	processed_transcript	KNOWN	None	6445	None	None	52627376	52635292	1	None	K7, CK7, K2C7, SCL
12	KRT7	ENSG00000135480	ENST00000548088	retained_intron	KNOWN	None	6445	None	None	52632472	52635755	1	None	K7, CK7, K2C7, SCL
12	KRT7	ENSG00000135480	ENST00000546856	processed_transcript	KNOWN	None	6445	None	None	52632503	52637325	1	None	K7, CK7, K2C7, SCL
12	KRT7	ENSG00000135480	ENST00000552183	processed_transcript	PUTATIVE	None	6445	None	None	52635312	52638361	1	None	K7, CK7, K2C7, SCL
12	KRT7	ENSG00000135480	ENST00000551130	retained_intron	KNOWN	None	6445	None	None	52635329	52637195	1	None	K7, CK7, K2C7, SCL
12	KRT7	ENSG00000135480	ENST00000549127	processed_transcript	KNOWN	None	6445	None	None	52636869	52642472	1	None	K7, CK7, K2C7, SCL
12	KRT7	ENSG00000135480	ENST00000552322	processed_transcript	KNOWN	None	6445	None	None	52638162	52642639	1	None	K7, CK7, K2C7, SCL
12	KRT7	ENSG00000135480	ENST00000548657	processed_transcript	PUTATIVE	None	6445	None	None	52639223	52645970	1	None	K7, CK7, K2C7, SCL
12	KRT7	ENSG00000135480	ENST00000550153	processed_transcript	PUTATIVE	None	6445	None	None	52641442	52642705	1	None	K7, CK7, K2C7, SCL
12	KRT7	ENSG00000135480	ENST00000549638	retained_intron	KNOWN	None	6445	None	None	52641702	52642709	1	None	K7, CK7, K2C7, SCL
5	ZFP62	ENSG00000196670	ENST00000506377	processed_transcript	KNOWN	None	23241	None	None	180274611	180288285	-1	None	FLJ34231, ZET, ZNF755
5	ZFP62	ENSG00000196670	ENST00000512132	protein_coding	KNOWN	CCDS47357	23241	2604	867	180274615	180288276	-1	None	FLJ34231, ZET, ZNF755
5	ZFP62	ENSG00000196670	ENST00000507843	retained_intron	KNOWN	None	23241	None	None	180274928	180276516	-1	None	FLJ34231, ZET, ZNF755
5	ZFP62	ENSG00000196670	ENST00000502412	protein_coding	PUTATIVE	CCDS54955	23241	2703	900	180275138	180288277	-1	None	FLJ34231, ZET, ZNF755
5	ZFP62	ENSG00000196670	ENST00000504225	protein_coding	KNOWN	None	23241	481	159	180277915	180287697	-1	None	FLJ34231, ZET, ZNF755
5	ZFP62	ENSG00000196670	ENST00000506439	protein_coding	KNOWN	None	23241	311	102	180278085	180288276	-1	None	FLJ34231, ZET, ZNF755
5	ZFP62	ENSG00000196670	ENST00000509066	protein_coding	KNOWN	None	23241	235	77	180278161	180287663	-1	None	FLJ34231, ZET, ZNF755
5	ZFP62	ENSG00000196670	ENST00000359141	protein_coding	KNOWN	None	23241	2523	840	180274615	180288286	-1	None	FLJ34231, ZET, ZNF755
11	HTR3A	ENSG00000166736	ENST00000504030	protein_coding	KNOWN	None	5297	1437	478	113845603	113861035	1	HTR3	5-HT3R, 5-HT3A
11	HTR3A	ENSG00000166736	ENST00000506841	protein_coding	KNOWN	None	5297	1533	510	113845910	113861035	1	HTR3	5-HT3R, 5-HT3A
11	HTR3A	ENSG00000166736	ENST00000510849	nonsense_mediated_decay	KNOWN	None	5297	717	238	113846008	113860554	1	HTR3	5-HT3R, 5-HT3A
11	HTR3A	ENSG00000166736	ENST00000299961	protein_coding	PUTATIVE	CCDS53710	5297	1392	463	113848222	113861032	1	HTR3	5-HT3R, 5-HT3A
11	HTR3A	ENSG00000166736	ENST00000502622	retained_intron	KNOWN	None	5297	None	None	113851758	113857633	1	HTR3	5-HT3R, 5-HT3A
11	HTR3A	ENSG00000166736	ENST00000355556	protein_coding	KNOWN	CCDS8366	5297	1551	516	113845797	113861032	1	HTR3	5-HT3R, 5-HT3A
11	HTR3A	ENSG00000166736	ENST00000375498	protein_coding	KNOWN	CCDS8365	5297	1455	484	113845797	113861032	1	HTR3	5-HT3R, 5-HT3A
11	HTR3A	ENSG00000166736	ENST00000535865	protein_coding	KNOWN	None	5297	669	222	113846008	113860554	1	HTR3	5-HT3R, 5-HT3A
4	None	ENSG00000251388	ENST00000507844	lincRNA	KNOWN	None	None	None	None	134792401	134931845	-1	None	None
4	None	ENSG00000266277	ENST00000582089	miRNA	NOVEL	None	None	None	None	134964622	134964708	-1	None	None
19	FXYD5	ENSG00000089327	ENST00000392218	protein_coding	NOVEL	None	4029	291	96	35645633	35650902	1	None	OIT2
19	FXYD5	ENSG00000089327	ENST00000543307	protein_coding	NOVEL	None	4029	585	194	35645633	35657664	1	None	OIT2
19	FXYD5	ENSG00000089327	ENST00000392219	protein_coding	KNOWN	CCDS12447	4029	537	178	35645646	35660786	1	None	OIT2
19	FXYD5	ENSG00000089327	ENST00000592290	nonsense_mediated_decay	KNOWN	None	4029	372	123	35645650	35660685	1	None	OIT2
19	FXYD5	ENSG00000089327	ENST00000541435	protein_coding	KNOWN	CCDS12447	4029	537	178	35645656	35660762	1	None	OIT2
19	FXYD5	ENSG00000089327	ENST00000590686	protein_coding	KNOWN	CCDS12447	4029	537	178	35645656	35660768	1	None	OIT2
19	FXYD5	ENSG00000089327	ENST00000496493	nonsense_mediated_decay	KNOWN	None	4029	204	67	35645670	35660536	1	None	OIT2
19	FXYD5	ENSG00000089327	ENST00000342879	protein_coding	KNOWN	CCDS12447	4029	537	178	35645676	35660783	1	None	OIT2
19	FXYD5	ENSG00000089327	ENST00000588699	protein_coding	NOVEL	None	4029	585	194	35645690	35660782	1	None	OIT2
19	FXYD5	ENSG00000089327	ENST00000423817	protein_coding	KNOWN	CCDS12447	4029	537	178	35645845	35660782	1	None	OIT2
19	FXYD5	ENSG00000089327	ENST00000591716	processed_transcript	KNOWN	None	4029	None	None	35651612	35660783	1	None	OIT2
19	FXYD5	ENSG00000089327	ENST00000586925	processed_transcript	PUTATIVE	None	4029	None	None	35651666	35660783	1	None	OIT2
19	FXYD5	ENSG00000089327	ENST00000392217	protein_coding	KNOWN	None	4029	324	107	35654938	35660784	1	None	OIT2
3	ASTE1	ENSG00000034533	ENST00000514044	protein_coding	NOVEL	None	25021	2115	704	130732719	130745636	-1	None	HT001
3	ASTE1	ENSG00000034533	ENST00000264992	protein_coding	KNOWN	CCDS3068	25021	2040	679	130732719	130745646	-1	None	HT001
3	ASTE1	ENSG00000034533	ENST00000507978	nonsense_mediated_decay	KNOWN	None	25021	1563	520	130732826	130745698	-1	None	HT001
3	ASTE1	ENSG00000034533	ENST00000505290	protein_coding	PUTATIVE	None	25021	292	96	130735135	130743294	-1	None	HT001
3	ASTE1	ENSG00000034533	ENST00000504964	nonsense_mediated_decay	KNOWN	None	25021	219	72	130737349	130744383	-1	None	HT001
3	ASTE1	ENSG00000034533	ENST00000505545	protein_coding	KNOWN	None	25021	149	48	130744002	130746493	-1	None	HT001
3	ASTE1	ENSG00000034533	ENST00000504725	protein_coding	KNOWN	None	25021	145	47	130744006	130745430	-1	None	HT001
3	ASTE1	ENSG00000034533	ENST00000509060	protein_coding	KNOWN	None	25021	21	6	130744130	130745453	-1	None	HT001
4	None	ENSG00000251199	ENST00000504728	lincRNA	KNOWN	None	None	None	None	135176328	135248625	-1	None	None
4	None	ENSG00000251199	ENST00000515491	lincRNA	KNOWN	None	None	None	None	135226557	135248604	-1	None	None
4	None	ENSG00000251199	ENST00000506638	lincRNA	KNOWN	None	None	None	None	135228719	135248628	-1	None	None
22	NF2	ENSG00000186575	ENST00000338641	protein_coding	KNOWN	CCDS13861	7773	1788	595	29999547	30094587	1	None	merlin
22	NF2	ENSG00000186575	ENST00000403435	protein_coding	KNOWN	None	7773	1686	561	29999577	30080151	1	None	merlin
22	NF2	ENSG00000186575	ENST00000361452	protein_coding	KNOWN	CCDS13864	7773	1650	549	29999606	30094583	1	None	merlin
22	NF2	ENSG00000186575	ENST00000403999	protein_coding	KNOWN	CCDS13862	7773	1773	590	29999622	30079904	1	None	merlin
22	NF2	ENSG00000186575	ENST00000334961	protein_coding	KNOWN	CCDS13865	7773	1524	507	29999716	30079904	1	None	merlin
22	NF2	ENSG00000186575	ENST00000353887	protein_coding	KNOWN	CCDS13865	7773	1524	507	29999736	30090800	1	None	merlin
22	NF2	ENSG00000186575	ENST00000432151	nonsense_mediated_decay	KNOWN	None	7773	663	220	29999938	30090934	1	None	merlin
22	NF2	ENSG00000186575	ENST00000361166	protein_coding	KNOWN	CCDS13862	7773	1773	590	29999988	30090795	1	None	merlin
22	NF2	ENSG00000186575	ENST00000361676	protein_coding	KNOWN	CCDS13863	7773	1647	548	29999988	30090800	1	None	merlin
22	NF2	ENSG00000186575	ENST00000397789	protein_coding	KNOWN	CCDS13862	7773	1773	590	29999988	30090800	1	None	merlin
22	NF2	ENSG00000186575	ENST00000413209	protein_coding	KNOWN	CCDS54516	7773	498	165	29999545	30094583	1	None	merlin
22	NF2	ENSG00000186575	ENST00000347330	protein_coding	KNOWN	None	7773	663	220	29999545	30094583	1	None	merlin
14	KIAA0586	ENSG00000100578	ENST00000354386	protein_coding	PUTATIVE	CCDS58320	19960	4935	1644	58894103	59014741	1	None	Talpid3
14	KIAA0586	ENSG00000100578	ENST00000556134	protein_coding	KNOWN	CCDS58321	19960	4602	1533	58894120	59014838	1	None	Talpid3
14	KIAA0586	ENSG00000100578	ENST00000423743	protein_coding	PUTATIVE	CCDS58322	19960	4515	1504	58894154	59015216	1	None	Talpid3
14	KIAA0586	ENSG00000100578	ENST00000555203	nonsense_mediated_decay	KNOWN	None	19960	270	89	58894402	58910748	1	None	Talpid3
14	KIAA0586	ENSG00000100578	ENST00000557192	processed_transcript	KNOWN	None	19960	None	None	58894440	58907998	1	None	Talpid3
14	KIAA0586	ENSG00000100578	ENST00000554463	protein_coding	PUTATIVE	None	19960	396	131	58894446	58910737	1	None	Talpid3
14	KIAA0586	ENSG00000100578	ENST00000555833	protein_coding	PUTATIVE	None	19960	704	233	58894446	58915209	1	None	Talpid3
14	KIAA0586	ENSG00000100578	ENST00000261244	protein_coding	KNOWN	CCDS45115	19960	4419	1472	58894708	59014763	1	None	Talpid3
14	KIAA0586	ENSG00000100578	ENST00000557590	retained_intron	KNOWN	None	19960	None	None	58907689	58910765	1	None	Talpid3
14	KIAA0586	ENSG00000100578	ENST00000538571	processed_transcript	KNOWN	None	19960	None	None	58909424	59003937	1	None	Talpid3
14	KIAA0586	ENSG00000100578	ENST00000555397	protein_coding	NOVEL	None	19960	627	208	58956923	59014837	1	None	Talpid3
14	KIAA0586	ENSG00000100578	ENST00000557392	processed_transcript	KNOWN	None	19960	None	None	58975289	58987918	1	None	Talpid3
14	KIAA0586	ENSG00000100578	ENST00000556235	retained_intron	KNOWN	None	19960	None	None	59006585	59014772	1	None	Talpid3
6	EPM2A	ENSG00000112425	ENST00000450221	protein_coding	KNOWN	None	3413	512	169	145822719	146007432	-1	None	LDE, LD
6	EPM2A	ENSG00000112425	ENST00000367519	protein_coding	KNOWN	CCDS5206	3413	996	331	145946441	146057160	-1	None	LDE, LD
6	EPM2A	ENSG00000112425	ENST00000435470	protein_coding	KNOWN	None	3413	713	236	145946507	146056393	-1	None	LDE, LD
6	EPM2A	ENSG00000112425	ENST00000496228	processed_transcript	KNOWN	None	3413	None	None	145954855	146008013	-1	None	LDE, LD
6	EPM2A	ENSG00000112425	ENST00000489412	processed_transcript	KNOWN	None	3413	None	None	145956221	145992495	-1	None	LDE, LD
6	EPM2A	ENSG00000112425	ENST00000461700	processed_transcript	KNOWN	None	3413	None	None	145992441	146008058	-1	None	LDE, LD
9	None	ENSG00000235201	ENST00000456032	lincRNA	KNOWN	None	None	None	None	121502841	121507590	1	None	None
4	PES1P1	ENSG00000248191	ENST00000508165	processed_pseudogene	KNOWN	None	44058	None	None	135248218	135249953	1	None	None
9	TUBB4BP6	ENSG00000231166	ENST00000437576	processed_pseudogene	KNOWN	None	42336	None	None	121526145	121526623	1	None	None
4	None	ENSG00000251291	ENST00000503009	lincRNA	KNOWN	None	None	None	None	135345022	135379007	1	None	None
HSCHR6_MHC_APD	PPP1R2P1	ENSG00000234642	ENST00000454566	processed_transcript	KNOWN	None	9289	None	None	32830521	32831197	-1	PPP1R2P	IPP-2P
HSCHR6_MHC_APD	PPP1R2P1	ENSG00000234642	ENST00000437792	transcribed_processed_pseudogene	KNOWN	None	9289	None	None	32830566	32831182	-1	PPP1R2P	IPP-2P
HSCHR6_MHC_APD	PPP1R2P1	ENSG00000234642	ENST00000550364	pseudogene	KNOWN	None	9289	None	None	32830566	32831182	-1	PPP1R2P	IPP-2P
4	None	ENSG00000249000	ENST00000504882	lincRNA	KNOWN	None	None	None	None	135680554	135738444	1	None	None
HSCHR6_MHC_APD	HLA-Z	ENSG00000237334	ENST00000425337	unprocessed_pseudogene	KNOWN	None	19394	None	None	32847757	32847831	1	None	HLA-Z1
HSCHR6_MHC_APD	None	ENSG00000263423	ENST00000578166	miRNA	NOVEL	None	None	None	None	32888280	32888374	-1	None	None
HSCHR6_MHC_APD	RPL32P1	ENSG00000231580	ENST00000425426	processed_pseudogene	KNOWN	None	10339	None	None	33030638	33031047	1	RPL32P	RPL32-L
12	CD27	ENSG00000139193	ENST00000266557	protein_coding	KNOWN	CCDS8545	11922	783	260	6554033	6560884	1	TNFRSF7	S152, Tp55
12	CD27	ENSG00000139193	ENST00000541233	processed_transcript	KNOWN	None	11922	None	None	6554518	6560884	1	TNFRSF7	S152, Tp55
9	IFNK	ENSG00000147896	ENST00000276943	protein_coding	KNOWN	CCDS6521	21714	624	207	27524312	27526496	1	None	None
5	SLC23A1	ENSG00000170482	ENST00000353963	protein_coding	KNOWN	CCDS4213	10974	1809	602	138702885	138718981	-1	SLC23A2	YSPL3, SVCT1
5	SLC23A1	ENSG00000170482	ENST00000348729	protein_coding	KNOWN	CCDS4212	10974	1797	598	138702885	138718989	-1	SLC23A2	YSPL3, SVCT1
5	SLC23A1	ENSG00000170482	ENST00000504513	protein_coding	NOVEL	None	10974	406	134	138714280	138716296	-1	SLC23A2	YSPL3, SVCT1
5	SLC23A1	ENSG00000170482	ENST00000506512	retained_intron	KNOWN	None	10974	None	None	138715020	138715902	-1	SLC23A2	YSPL3, SVCT1
5	SLC23A1	ENSG00000170482	ENST00000503919	processed_transcript	KNOWN	None	10974	None	None	138716287	138718990	-1	SLC23A2	YSPL3, SVCT1
5	SLC23A1	ENSG00000170482	ENST00000502863	retained_intron	KNOWN	None	10974	None	None	138716515	138718102	-1	SLC23A2	YSPL3, SVCT1
5	SLC23A1	ENSG00000170482	ENST00000508270	protein_coding	PUTATIVE	None	10974	509	168	138717602	138720242	-1	SLC23A2	YSPL3, SVCT1
HSCHR6_MHC_APD	HLA-DPA2	ENSG00000234260	ENST00000423657	unprocessed_pseudogene	KNOWN	None	4939	None	None	33042924	33048466	-1	HLA-DP2A	None
20	IDH3B	ENSG00000101365	ENST00000466494	processed_transcript	KNOWN	None	5385	None	None	2639041	2640954	-1	None	RP46
20	IDH3B	ENSG00000101365	ENST00000492240	processed_transcript	KNOWN	None	5385	None	None	2639041	2641005	-1	None	RP46
20	IDH3B	ENSG00000101365	ENST00000488299	processed_transcript	KNOWN	None	5385	None	None	2639041	2644834	-1	None	RP46
20	IDH3B	ENSG00000101365	ENST00000474315	processed_transcript	KNOWN	None	5385	None	None	2639041	2644835	-1	None	RP46
20	IDH3B	ENSG00000101365	ENST00000380851	protein_coding	KNOWN	CCDS13031	5385	1152	383	2639041	2644865	-1	None	RP46
20	IDH3B	ENSG00000101365	ENST00000380843	protein_coding	KNOWN	CCDS13032	5385	1158	385	2639041	2644865	-1	None	RP46
20	IDH3B	ENSG00000101365	ENST00000477689	processed_transcript	KNOWN	None	5385	None	None	2639188	2640955	-1	None	RP46
20	IDH3B	ENSG00000101365	ENST00000466999	processed_transcript	KNOWN	None	5385	None	None	2639929	2640562	-1	None	RP46
20	IDH3B	ENSG00000101365	ENST00000479376	processed_transcript	KNOWN	None	5385	None	None	2640678	2641199	-1	None	RP46
20	IDH3B	ENSG00000101365	ENST00000462967	processed_transcript	KNOWN	None	5385	None	None	2640942	2644861	-1	None	RP46
20	IDH3B	ENSG00000101365	ENST00000491065	processed_transcript	KNOWN	None	5385	None	None	2641151	2644855	-1	None	RP46
2	NEB	ENSG00000183091	ENST00000409198	protein_coding	KNOWN	CCDS46424	7720	20010	6669	152341850	152591001	-1	NEM2	NEB177D
2	NEB	ENSG00000183091	ENST00000397337	protein_coding	NOVEL	None	7720	1979	658	152341853	152364556	-1	NEM2	NEB177D
2	NEB	ENSG00000183091	ENST00000413693	protein_coding	NOVEL	None	7720	9024	3007	152341855	152440133	-1	NEM2	NEB177D
2	NEB	ENSG00000183091	ENST00000434685	protein_coding	NOVEL	None	7720	2300	765	152342274	152382500	-1	NEM2	NEB177D
2	NEB	ENSG00000183091	ENST00000604864	protein_coding	KNOWN	CCDS54408	7720	25578	8525	152342274	152589670	-1	NEM2	NEB177D
2	NEB	ENSG00000183091	ENST00000603639	protein_coding	KNOWN	CCDS54407	7720	25578	8525	152342274	152589670	-1	NEM2	NEB177D
2	NEB	ENSG00000183091	ENST00000497809	retained_intron	KNOWN	None	7720	None	None	152347721	152349810	-1	NEM2	NEB177D
2	NEB	ENSG00000183091	ENST00000498015	processed_transcript	KNOWN	None	7720	None	None	152348613	152363461	-1	NEM2	NEB177D
2	NEB	ENSG00000183091	ENST00000421461	protein_coding	NOVEL	None	7720	1201	399	152349867	152363507	-1	NEM2	NEB177D
2	NEB	ENSG00000183091	ENST00000424585	protein_coding	NOVEL	None	7720	766	254	152352819	152370120	-1	NEM2	NEB177D
2	NEB	ENSG00000183091	ENST00000483418	retained_intron	KNOWN	None	7720	None	None	152372973	152376499	-1	NEM2	NEB177D
2	NEB	ENSG00000183091	ENST00000480784	retained_intron	KNOWN	None	7720	None	None	152387155	152388677	-1	NEM2	NEB177D
2	NEB	ENSG00000183091	ENST00000420924	protein_coding	NOVEL	None	7720	751	249	152388341	152397261	-1	NEM2	NEB177D
2	NEB	ENSG00000183091	ENST00000486320	retained_intron	KNOWN	None	7720	None	None	152472393	152473999	-1	NEM2	NEB177D
2	NEB	ENSG00000183091	ENST00000484968	retained_intron	KNOWN	None	7720	None	None	152524349	152527894	-1	NEM2	NEB177D
2	NEB	ENSG00000183091	ENST00000489048	retained_intron	KNOWN	None	7720	None	None	152545712	152563445	-1	NEM2	NEB177D
2	NEB	ENSG00000183091	ENST00000397345	protein_coding	KNOWN	CCDS54407	7720	25578	8525	152341853	152591001	-1	NEM2	NEB177D
2	NEB	ENSG00000183091	ENST00000427231	protein_coding	KNOWN	CCDS54408	7720	25578	8525	152341853	152591001	-1	NEM2	NEB177D
2	NEB	ENSG00000183091	ENST00000172853	protein_coding	KNOWN	None	7720	20010	6669	152341855	152590946	-1	NEM2	NEB177D
2	NEB	ENSG00000183091	ENST00000509223	protein_coding	KNOWN	None	7720	1317	438	152342141	152363475	-1	NEM2	NEB177D
2	NEB	ENSG00000183091	ENST00000397336	protein_coding	KNOWN	None	7720	1503	500	152341855	152359943	-1	NEM2	NEB177D
16	ABCC11	ENSG00000121270	ENST00000565329	processed_transcript	KNOWN	None	14639	None	None	48200821	48221301	-1	None	MRP8
16	ABCC11	ENSG00000121270	ENST00000353782	protein_coding	KNOWN	CCDS10733	14639	4035	1344	48200821	48269088	-1	None	MRP8
16	ABCC11	ENSG00000121270	ENST00000356608	protein_coding	KNOWN	CCDS10732	14639	4149	1382	48200821	48281305	-1	None	MRP8
16	ABCC11	ENSG00000121270	ENST00000394747	protein_coding	KNOWN	CCDS10732	14639	4149	1382	48200822	48266182	-1	None	MRP8
16	ABCC11	ENSG00000121270	ENST00000569172	processed_transcript	KNOWN	None	14639	None	None	48221301	48232161	-1	None	MRP8
16	ABCC11	ENSG00000121270	ENST00000567385	retained_intron	KNOWN	None	14639	None	None	48243264	48278499	-1	None	MRP8
16	ABCC11	ENSG00000121270	ENST00000565487	processed_transcript	KNOWN	None	14639	None	None	48249143	48257618	-1	None	MRP8
16	ABCC11	ENSG00000121270	ENST00000569991	protein_coding	KNOWN	None	14639	477	158	48258259	48281479	-1	None	MRP8
16	ABCC11	ENSG00000121270	ENST00000394748	protein_coding	KNOWN	CCDS10732	14639	4149	1382	48200822	48269088	-1	None	MRP8
16	ABCC11	ENSG00000121270	ENST00000537808	protein_coding	KNOWN	None	14639	2268	755	48221111	48281479	-1	None	MRP8
HSCHR6_MHC_QBL	MAS1L	ENSG00000206515	ENST00000383643	protein_coding	KNOWN	None	13961	1137	378	29454362	29455626	-1	None	MAS-L, MRG, dJ994E9.2
11	SLC22A9	ENSG00000149742	ENST00000536333	nonsense_mediated_decay	KNOWN	None	16261	717	238	63137261	63177430	1	None	OAT4, FLJ23666, UST3, OAT7
11	SLC22A9	ENSG00000149742	ENST00000279178	protein_coding	KNOWN	CCDS8043	16261	1662	553	63137280	63177766	1	None	OAT4, FLJ23666, UST3, OAT7
11	SLC22A9	ENSG00000149742	ENST00000310969	protein_coding	KNOWN	None	16261	717	238	63137261	63177710	1	None	OAT4, FLJ23666, UST3, OAT7
4	None	ENSG00000249847	ENST00000514293	lincRNA	KNOWN	None	None	None	None	135854044	135855286	-1	None	None
4	None	ENSG00000251228	ENST00000510773	processed_pseudogene	KNOWN	None	None	None	None	135865430	135865678	1	None	None
4	None	ENSG00000241411	ENST00000459634	processed_pseudogene	KNOWN	None	None	None	None	135873414	135874044	-1	None	None
6	ANKS1A	ENSG00000064999	ENST00000360359	protein_coding	KNOWN	CCDS4798	20961	3405	1134	34857042	35059179	1	ANKS1	KIAA0229
6	ANKS1A	ENSG00000064999	ENST00000470698	processed_transcript	KNOWN	None	20961	None	None	35026025	35048830	1	ANKS1	KIAA0229
6	ANKS1A	ENSG00000064999	ENST00000535627	protein_coding	KNOWN	None	20961	963	320	34857080	35058513	1	ANKS1	KIAA0229
4	None	ENSG00000250144	ENST00000509116	processed_pseudogene	KNOWN	None	None	None	None	135966619	135968005	1	None	None
17	RPA1	ENSG00000132383	ENST00000571058	protein_coding	PUTATIVE	None	10289	372	123	1732996	1775777	1	None	REPA1, RPA70, HSSB, RF-A, RP-A
17	RPA1	ENSG00000132383	ENST00000570451	protein_coding	PUTATIVE	None	10289	460	152	1733265	1778999	1	None	REPA1, RPA70, HSSB, RF-A, RP-A
17	RPA1	ENSG00000132383	ENST00000254719	protein_coding	KNOWN	CCDS11014	10289	1851	616	1733278	1802848	1	None	REPA1, RPA70, HSSB, RF-A, RP-A
17	RPA1	ENSG00000132383	ENST00000571725	processed_transcript	KNOWN	None	10289	None	None	1747214	1757568	1	None	REPA1, RPA70, HSSB, RF-A, RP-A
17	RPA1	ENSG00000132383	ENST00000573924	processed_transcript	KNOWN	None	10289	None	None	1775421	1782599	1	None	REPA1, RPA70, HSSB, RF-A, RP-A
17	RPA1	ENSG00000132383	ENST00000574049	protein_coding	PUTATIVE	None	10289	942	313	1782329	1803376	1	None	REPA1, RPA70, HSSB, RF-A, RP-A
17	RPA1	ENSG00000132383	ENST00000573994	retained_intron	KNOWN	None	10289	None	None	1794944	1800830	1	None	REPA1, RPA70, HSSB, RF-A, RP-A
4	None	ENSG00000248434	ENST00000508605	lincRNA	KNOWN	None	None	None	None	135988388	135992533	1	None	None
4	None	ENSG00000248434	ENST00000514526	lincRNA	KNOWN	None	None	None	None	135988388	136018813	1	None	None
4	None	ENSG00000248434	ENST00000509713	lincRNA	KNOWN	None	None	None	None	136013549	136018804	1	None	None
20	SLC13A3	ENSG00000158296	ENST00000279027	protein_coding	KNOWN	CCDS13400	14430	1809	602	45186472	45280079	-1	None	NADC3, SDCT2
20	SLC13A3	ENSG00000158296	ENST00000472148	protein_coding	NOVEL	CCDS54469	14430	1563	520	45187068	45298778	-1	None	NADC3, SDCT2
20	SLC13A3	ENSG00000158296	ENST00000413164	protein_coding	KNOWN	CCDS54470	14430	1659	552	45188350	45280098	-1	None	NADC3, SDCT2
20	SLC13A3	ENSG00000158296	ENST00000495082	protein_coding	KNOWN	CCDS42886	14430	1668	555	45188633	45242525	-1	None	NADC3, SDCT2
20	SLC13A3	ENSG00000158296	ENST00000468915	protein_coding	KNOWN	None	14430	1226	407	45194995	45304714	-1	None	NADC3, SDCT2
20	SLC13A3	ENSG00000158296	ENST00000464518	processed_transcript	KNOWN	None	14430	None	None	45211550	45216730	-1	None	NADC3, SDCT2
20	SLC13A3	ENSG00000158296	ENST00000450298	protein_coding	PUTATIVE	None	14430	707	234	45212211	45229255	-1	None	NADC3, SDCT2
20	SLC13A3	ENSG00000158296	ENST00000420568	protein_coding	PUTATIVE	None	14430	906	301	45213987	45242364	-1	None	NADC3, SDCT2
20	SLC13A3	ENSG00000158296	ENST00000417157	protein_coding	PUTATIVE	None	14430	558	185	45237348	45298778	-1	None	NADC3, SDCT2
20	SLC13A3	ENSG00000158296	ENST00000290317	protein_coding	KNOWN	CCDS42886	14430	1668	555	45186463	45298778	-1	None	NADC3, SDCT2
20	SLC13A3	ENSG00000158296	ENST00000396360	protein_coding	KNOWN	CCDS54469	14430	1563	520	45186463	45280098	-1	None	NADC3, SDCT2
20	SLC13A3	ENSG00000158296	ENST00000435032	protein_coding	KNOWN	None	14430	564	187	45186463	45280098	-1	None	NADC3, SDCT2
20	SLC13A3	ENSG00000158296	ENST00000372121	protein_coding	KNOWN	None	14430	1017	338	45214337	45280098	-1	None	NADC3, SDCT2
20	SLC13A3	ENSG00000158296	ENST00000339636	protein_coding	KNOWN	None	14430	699	232	45237539	45280098	-1	None	NADC3, SDCT2
21	SLC5A3	ENSG00000198743	ENST00000381151	protein_coding	KNOWN	CCDS33549	11038	2157	718	35445870	35478559	1	None	SMIT, SMIT1
9	C9orf72	ENSG00000147894	ENST00000380003	protein_coding	KNOWN	CCDS6522	28337	1446	481	27546544	27573448	-1	None	MGC23980
9	C9orf72	ENSG00000147894	ENST00000488117	processed_transcript	KNOWN	None	28337	None	None	27546553	27573446	-1	None	MGC23980
9	C9orf72	ENSG00000147894	ENST00000379997	protein_coding	KNOWN	CCDS6523	28337	669	222	27560499	27573864	-1	None	MGC23980
9	C9orf72	ENSG00000147894	ENST00000379995	protein_coding	KNOWN	CCDS6523	28337	669	222	27561547	27573753	-1	None	MGC23980
9	C9orf72	ENSG00000147894	ENST00000461679	processed_transcript	KNOWN	None	28337	None	None	27561588	27573864	-1	None	MGC23980
4	None	ENSG00000248456	ENST00000511899	lincRNA	KNOWN	None	None	None	None	136034060	136044892	-1	None	None
4	None	ENSG00000248456	ENST00000506412	lincRNA	KNOWN	None	None	None	None	136042423	136044934	-1	None	None
X	RBM10	ENSG00000182872	ENST00000377604	protein_coding	KNOWN	CCDS14274	9896	2793	930	47004268	47046210	1	None	DXS8237E, KIAA0122, GPATC9, ZRANB5, GPATCH9
X	RBM10	ENSG00000182872	ENST00000468791	processed_transcript	KNOWN	None	9896	None	None	47004628	47046211	1	None	DXS8237E, KIAA0122, GPATC9, ZRANB5, GPATCH9
X	RBM10	ENSG00000182872	ENST00000345781	protein_coding	KNOWN	CCDS56600	9896	2562	853	47004678	47046212	1	None	DXS8237E, KIAA0122, GPATC9, ZRANB5, GPATCH9
X	RBM10	ENSG00000182872	ENST00000496012	processed_transcript	KNOWN	None	9896	None	None	47034411	47046040	1	None	DXS8237E, KIAA0122, GPATC9, ZRANB5, GPATCH9
X	RBM10	ENSG00000182872	ENST00000478410	processed_transcript	KNOWN	None	9896	None	None	47038714	47040942	1	None	DXS8237E, KIAA0122, GPATC9, ZRANB5, GPATCH9
X	RBM10	ENSG00000182872	ENST00000329236	protein_coding	KNOWN	CCDS55407	9896	2559	852	47004631	47046211	1	None	DXS8237E, KIAA0122, GPATC9, ZRANB5, GPATCH9
17	SPHK1	ENSG00000176170	ENST00000591651	protein_coding	KNOWN	None	11240	17	4	74372665	74382072	1	None	SPHK
17	SPHK1	ENSG00000176170	ENST00000545180	protein_coding	KNOWN	CCDS45785	11240	1155	384	74372742	74383941	1	None	SPHK
17	SPHK1	ENSG00000176170	ENST00000588682	protein_coding	KNOWN	None	11240	456	151	74377852	74382968	1	None	SPHK
17	SPHK1	ENSG00000176170	ENST00000591762	retained_intron	KNOWN	None	11240	None	None	74379058	74383937	1	None	SPHK
17	SPHK1	ENSG00000176170	ENST00000590379	protein_coding	KNOWN	None	11240	335	110	74380000	74382550	1	None	SPHK
17	SPHK1	ENSG00000176170	ENST00000592299	protein_coding	KNOWN	CCDS45785	11240	1155	384	74380690	74383941	1	None	SPHK
17	SPHK1	ENSG00000176170	ENST00000590959	protein_coding	KNOWN	CCDS59297	11240	1197	398	74380702	74383941	1	None	SPHK
17	SPHK1	ENSG00000176170	ENST00000323374	protein_coding	KNOWN	CCDS11744	11240	1413	470	74380731	74383936	1	None	SPHK
17	SPHK1	ENSG00000176170	ENST00000392496	protein_coding	KNOWN	CCDS45785	11240	1155	384	74381373	74383938	1	None	SPHK
17	SPHK1	ENSG00000176170	ENST00000587167	retained_intron	KNOWN	None	11240	None	None	74382104	74382642	1	None	SPHK
3	PTH1R	ENSG00000160801	ENST00000449590	protein_coding	KNOWN	CCDS2747	9608	1782	593	46919236	46945284	1	PTHR, PTHR1	None
3	PTH1R	ENSG00000160801	ENST00000418619	protein_coding	KNOWN	CCDS2747	9608	1782	593	46921735	46945285	1	PTHR, PTHR1	None
3	PTH1R	ENSG00000160801	ENST00000427125	protein_coding	KNOWN	None	9608	1581	526	46923670	46944945	1	PTHR, PTHR1	None
3	PTH1R	ENSG00000160801	ENST00000313049	protein_coding	KNOWN	CCDS2747	9608	1782	593	46924847	46945284	1	PTHR, PTHR1	None
3	PTH1R	ENSG00000160801	ENST00000428220	nonsense_mediated_decay	KNOWN	None	9608	1002	333	46924847	46945285	1	PTHR, PTHR1	None
3	PTH1R	ENSG00000160801	ENST00000490109	processed_transcript	KNOWN	None	9608	None	None	46934211	46940224	1	PTHR, PTHR1	None
3	PTH1R	ENSG00000160801	ENST00000422115	protein_coding	NOVEL	None	9608	549	182	46944089	46945287	1	PTHR, PTHR1	None
3	PTH1R	ENSG00000160801	ENST00000430002	protein_coding	KNOWN	CCDS2747	9608	1782	593	46923739	46945245	1	PTHR, PTHR1	None
HSCHR6_MHC_COX	TRIM31	ENSG00000226402	ENST00000455349	protein_coding	KNOWN	None	16289	1278	425	30060592	30070807	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_COX	TRIM31	ENSG00000226402	ENST00000486092	processed_transcript	KNOWN	None	16289	None	None	30060592	30070595	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_COX	TRIM31	ENSG00000226402	ENST00000470813	processed_transcript	KNOWN	None	16289	None	None	30060592	30063352	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_COX	TRIM31	ENSG00000226402	ENST00000471539	processed_transcript	KNOWN	None	16289	None	None	30061057	30068215	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_COX	TRIM31	ENSG00000226402	ENST00000477887	retained_intron	KNOWN	None	16289	None	None	30061568	30065895	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_COX	TRIM31	ENSG00000226402	ENST00000494522	retained_intron	KNOWN	None	16289	None	None	30061626	30063135	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_COX	TRIM31	ENSG00000226402	ENST00000492228	processed_transcript	KNOWN	None	16289	None	None	30062891	30069891	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_COX	TRIM31	ENSG00000226402	ENST00000460146	retained_intron	KNOWN	None	16289	None	None	30066437	30069411	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_COX	TRIM31	ENSG00000226402	ENST00000485342	retained_intron	KNOWN	None	16289	None	None	30068923	30070180	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_COX	TRIM31	ENSG00000226402	ENST00000550336	protein_coding	KNOWN	None	16289	1278	425	30060594	30070791	-1	None	RNF, HCGI, C6orf13, HCG1
3	QTRTD1	ENSG00000151576	ENST00000472599	protein_coding	PUTATIVE	None	25771	501	166	113724680	113789598	1	None	FLJ12960
3	QTRTD1	ENSG00000151576	ENST00000485050	protein_coding	PUTATIVE	CCDS58844	25771	1284	427	113775582	113807196	1	None	FLJ12960
3	QTRTD1	ENSG00000151576	ENST00000281273	protein_coding	KNOWN	CCDS33828	25771	1248	415	113775584	113807269	1	None	FLJ12960
3	QTRTD1	ENSG00000151576	ENST00000466050	processed_transcript	KNOWN	None	25771	None	None	113775587	113789653	1	None	FLJ12960
3	QTRTD1	ENSG00000151576	ENST00000488665	retained_intron	KNOWN	None	25771	None	None	113775598	113776395	1	None	FLJ12960
3	QTRTD1	ENSG00000151576	ENST00000479882	protein_coding	PUTATIVE	CCDS58846	25771	879	292	113775604	113804826	1	None	FLJ12960
3	QTRTD1	ENSG00000151576	ENST00000493014	protein_coding	PUTATIVE	CCDS58845	25771	930	309	113775629	113804799	1	None	FLJ12960
3	QTRTD1	ENSG00000151576	ENST00000490183	retained_intron	KNOWN	None	25771	None	None	113775651	113785191	1	None	FLJ12960
3	QTRTD1	ENSG00000151576	ENST00000460163	retained_intron	KNOWN	None	25771	None	None	113775814	113785412	1	None	FLJ12960
3	QTRTD1	ENSG00000151576	ENST00000482307	protein_coding	NOVEL	None	25771	435	144	113784091	113795691	1	None	FLJ12960
3	QTRTD1	ENSG00000151576	ENST00000466870	retained_intron	KNOWN	None	25771	None	None	113784177	113787171	1	None	FLJ12960
3	QTRTD1	ENSG00000151576	ENST00000467703	retained_intron	KNOWN	None	25771	None	None	113785092	113798397	1	None	FLJ12960
3	QTRTD1	ENSG00000151576	ENST00000462869	processed_transcript	PUTATIVE	None	25771	None	None	113795686	113801542	1	None	FLJ12960
3	QTRTD1	ENSG00000151576	ENST00000483272	retained_intron	KNOWN	None	25771	None	None	113798714	113804785	1	None	FLJ12960
3	QTRTD1	ENSG00000151576	ENST00000495782	retained_intron	KNOWN	None	25771	None	None	113801400	113805100	1	None	FLJ12960
3	QTRTD1	ENSG00000151576	ENST00000462966	protein_coding	PUTATIVE	None	25771	30	9	113801616	113805333	1	None	FLJ12960
HSCHR6_MHC_DBB	HCG18	ENSG00000224705	ENST00000429688	processed_transcript	KNOWN	None	31337	None	None	30248843	30284415	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
HSCHR6_MHC_DBB	HCG18	ENSG00000224705	ENST00000412668	processed_transcript	KNOWN	None	31337	None	None	30249055	30284362	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
HSCHR6_MHC_DBB	HCG18	ENSG00000224705	ENST00000445302	processed_transcript	KNOWN	None	31337	None	None	30249055	30284375	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
HSCHR6_MHC_DBB	HCG18	ENSG00000224705	ENST00000436512	processed_transcript	KNOWN	None	31337	None	None	30249055	30284404	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
HSCHR6_MHC_DBB	HCG18	ENSG00000224705	ENST00000421772	processed_transcript	KNOWN	None	31337	None	None	30249055	30284414	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
HSCHR6_MHC_DBB	HCG18	ENSG00000224705	ENST00000436536	processed_transcript	KNOWN	None	31337	None	None	30249055	30284879	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
HSCHR6_MHC_DBB	HCG18	ENSG00000224705	ENST00000444625	processed_transcript	KNOWN	None	31337	None	None	30249055	30284925	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
HSCHR6_MHC_DBB	HCG18	ENSG00000224705	ENST00000458584	processed_transcript	KNOWN	None	31337	None	None	30249055	30285178	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
3	TMEM89	ENSG00000183396	ENST00000330862	protein_coding	KNOWN	CCDS33751	32372	480	159	48658192	48659288	-1	None	None
19	NFKBIB	ENSG00000104825	ENST00000576510	protein_coding	PUTATIVE	None	7798	701	232	39390340	39398289	1	None	IKBB, TRIP9
19	NFKBIB	ENSG00000104825	ENST00000572515	protein_coding	KNOWN	None	7798	1017	338	39390592	39399178	1	None	IKBB, TRIP9
19	NFKBIB	ENSG00000104825	ENST00000575359	protein_coding	PUTATIVE	None	7798	448	148	39390618	39397917	1	None	IKBB, TRIP9
19	NFKBIB	ENSG00000104825	ENST00000509705	nonsense_mediated_decay	KNOWN	None	7798	198	65	39390620	39399533	1	None	IKBB, TRIP9
19	NFKBIB	ENSG00000104825	ENST00000313582	protein_coding	KNOWN	CCDS12524	7798	1071	356	39390639	39399526	1	None	IKBB, TRIP9
19	NFKBIB	ENSG00000104825	ENST00000392079	protein_coding	KNOWN	None	7798	921	306	39390615	39399531	1	None	IKBB, TRIP9
7	EIF4H	ENSG00000106682	ENST00000265753	protein_coding	KNOWN	CCDS5564	12741	747	248	73588575	73611431	1	WBSCR1	WSCR1, KIAA0038
7	EIF4H	ENSG00000106682	ENST00000489484	retained_intron	KNOWN	None	12741	None	None	73588661	73604617	1	WBSCR1	WSCR1, KIAA0038
7	EIF4H	ENSG00000106682	ENST00000353999	protein_coding	KNOWN	CCDS5565	12741	687	228	73588686	73611426	1	WBSCR1	WSCR1, KIAA0038
7	EIF4H	ENSG00000106682	ENST00000479338	retained_intron	KNOWN	None	12741	None	None	73588689	73604303	1	WBSCR1	WSCR1, KIAA0038
7	EIF4H	ENSG00000106682	ENST00000495187	processed_transcript	KNOWN	None	12741	None	None	73598152	73609135	1	WBSCR1	WSCR1, KIAA0038
1	CHI3L2	ENSG00000064886	ENST00000445067	protein_coding	KNOWN	CCDS30802	1933	1173	390	111743393	111786061	1	None	YKL-39, YKL39
1	CHI3L2	ENSG00000064886	ENST00000528451	protein_coding	KNOWN	None	1933	662	219	111769638	111778702	1	None	YKL-39, YKL39
1	CHI3L2	ENSG00000064886	ENST00000486561	protein_coding	KNOWN	None	1933	605	200	111769690	111778385	1	None	YKL-39, YKL39
1	CHI3L2	ENSG00000064886	ENST00000369744	protein_coding	KNOWN	CCDS30803	1933	1143	380	111770232	111786062	1	None	YKL-39, YKL39
1	CHI3L2	ENSG00000064886	ENST00000474304	protein_coding	NOVEL	None	1933	548	181	111770300	111778385	1	None	YKL-39, YKL39
1	CHI3L2	ENSG00000064886	ENST00000466741	protein_coding	KNOWN	CCDS41367	1933	936	311	111772314	111786061	1	None	YKL-39, YKL39
1	CHI3L2	ENSG00000064886	ENST00000477185	protein_coding	KNOWN	None	1933	508	168	111772328	111781381	1	None	YKL-39, YKL39
1	CHI3L2	ENSG00000064886	ENST00000467038	protein_coding	NOVEL	None	1933	436	144	111772375	111778770	1	None	YKL-39, YKL39
1	CHI3L2	ENSG00000064886	ENST00000497587	protein_coding	KNOWN	None	1933	368	121	111772379	111778385	1	None	YKL-39, YKL39
1	CHI3L2	ENSG00000064886	ENST00000526684	retained_intron	KNOWN	None	1933	None	None	111772400	111774094	1	None	YKL-39, YKL39
1	CHI3L2	ENSG00000064886	ENST00000530597	retained_intron	KNOWN	None	1933	None	None	111772410	111773736	1	None	YKL-39, YKL39
1	CHI3L2	ENSG00000064886	ENST00000524472	protein_coding	KNOWN	CCDS41367	1933	936	311	111772442	111785256	1	None	YKL-39, YKL39
1	CHI3L2	ENSG00000064886	ENST00000533831	protein_coding	NOVEL	None	1933	482	159	111773388	111781488	1	None	YKL-39, YKL39
1	CHI3L2	ENSG00000064886	ENST00000497220	protein_coding	NOVEL	None	1933	552	183	111777638	111786062	1	None	YKL-39, YKL39
1	CHI3L2	ENSG00000064886	ENST00000472825	protein_coding	PUTATIVE	None	1933	129	42	111781549	111786054	1	None	YKL-39, YKL39
1	CHI3L2	ENSG00000064886	ENST00000529459	processed_transcript	KNOWN	None	1933	None	None	111781928	111786060	1	None	YKL-39, YKL39
1	CHI3L2	ENSG00000064886	ENST00000369748	protein_coding	KNOWN	CCDS30802	1933	1173	390	111770281	111786060	1	None	YKL-39, YKL39
20	None	ENSG00000230563	ENST00000430097	processed_transcript	KNOWN	None	None	None	None	5451853	5455828	1	None	None
20	None	ENSG00000230563	ENST00000456714	processed_transcript	KNOWN	None	None	None	None	5453353	5454621	1	None	None
19	ZNF615	ENSG00000197619	ENST00000602063	protein_coding	KNOWN	CCDS12846	24740	2196	731	52494585	52511334	-1	None	FLJ33710
19	ZNF615	ENSG00000197619	ENST00000594083	protein_coding	KNOWN	CCDS59418	24740	2229	742	52494587	52511449	-1	None	FLJ33710
19	ZNF615	ENSG00000197619	ENST00000599177	nonsense_mediated_decay	KNOWN	None	24740	297	98	52494591	52511468	-1	None	FLJ33710
19	ZNF615	ENSG00000197619	ENST00000376716	protein_coding	KNOWN	CCDS12846	24740	2196	731	52494598	52511483	-1	None	FLJ33710
19	ZNF615	ENSG00000197619	ENST00000391795	protein_coding	PUTATIVE	None	24740	2211	736	52495706	52511483	-1	None	FLJ33710
19	ZNF615	ENSG00000197619	ENST00000598071	protein_coding	KNOWN	CCDS59418	24740	2229	742	52495997	52511455	-1	None	FLJ33710
19	ZNF615	ENSG00000197619	ENST00000593650	protein_coding	PUTATIVE	None	24740	482	159	52497868	52511453	-1	None	FLJ33710
19	ZNF615	ENSG00000197619	ENST00000599115	nonsense_mediated_decay	KNOWN	None	24740	312	103	52497960	52511454	-1	None	FLJ33710
19	ZNF615	ENSG00000197619	ENST00000601178	protein_coding	NOVEL	None	24740	289	95	52498061	52511476	-1	None	FLJ33710
19	ZNF615	ENSG00000197619	ENST00000597747	protein_coding	PUTATIVE	None	24740	297	98	52503378	52511416	-1	None	FLJ33710
19	ZNF615	ENSG00000197619	ENST00000599631	protein_coding	KNOWN	None	24740	24	7	52505526	52511454	-1	None	FLJ33710
19	ZNF615	ENSG00000197619	ENST00000597905	processed_transcript	KNOWN	None	24740	None	None	52507035	52511470	-1	None	FLJ33710
19	ZNF615	ENSG00000197619	ENST00000595114	processed_transcript	KNOWN	None	24740	None	None	52507102	52511454	-1	None	FLJ33710
19	KLF1	ENSG00000105610	ENST00000264834	protein_coding	KNOWN	CCDS12285	6345	1089	362	12995237	12997995	-1	None	EKLF
15	GJD2	ENSG00000159248	ENST00000290374	protein_coding	KNOWN	CCDS10040	19154	966	321	35043233	35047166	-1	GJA9	CX36
HSCHR6_MHC_DBB	None	ENSG00000230985	ENST00000464084	retained_intron	KNOWN	None	None	None	None	30866734	30884964	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000230985	ENST00000428577	protein_coding	KNOWN	None	None	3192	1063	30872697	30884964	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000230985	ENST00000425563	protein_coding	KNOWN	None	None	978	325	30872744	30876289	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000230985	ENST00000476017	processed_transcript	KNOWN	None	None	None	None	30872758	30876296	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000230985	ENST00000443384	protein_coding	KNOWN	None	None	345	114	30872874	30873908	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000230985	ENST00000461175	retained_intron	KNOWN	None	None	None	None	30874912	30876251	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000230985	ENST00000464843	retained_intron	KNOWN	None	None	None	None	30877254	30884964	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000230985	ENST00000482947	processed_transcript	KNOWN	None	None	None	None	30878316	30884964	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000230985	ENST00000463160	processed_transcript	KNOWN	None	None	None	None	30880637	30884180	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000230985	ENST00000497478	retained_intron	KNOWN	None	None	None	None	30881090	30882012	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000230985	ENST00000498621	retained_intron	KNOWN	None	None	None	None	30881715	30884964	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000230985	ENST00000548165	protein_coding	KNOWN	None	None	3282	1093	30872823	30884961	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000230985	ENST00000548842	protein_coding	KNOWN	None	None	2772	923	30872697	30884961	1	None	None
9	None	ENSG00000261432	ENST00000561476	lincRNA	KNOWN	None	None	None	None	122697331	122700110	1	None	None
17	PDK2	ENSG00000005882	ENST00000007708	protein_coding	PUTATIVE	CCDS56039	8810	1032	343	48172101	48188422	1	None	PDHK2
17	PDK2	ENSG00000005882	ENST00000508030	protein_coding	PUTATIVE	None	8810	389	128	48172148	48184221	1	None	PDHK2
17	PDK2	ENSG00000005882	ENST00000503176	protein_coding	KNOWN	CCDS11559	8810	1224	407	48172639	48189516	1	None	PDHK2
17	PDK2	ENSG00000005882	ENST00000503614	protein_coding	PUTATIVE	None	8810	777	258	48172649	48186083	1	None	PDHK2
17	PDK2	ENSG00000005882	ENST00000508960	retained_intron	KNOWN	None	8810	None	None	48172739	48175160	1	None	PDHK2
17	PDK2	ENSG00000005882	ENST00000505897	retained_intron	KNOWN	None	8810	None	None	48172751	48183732	1	None	PDHK2
17	PDK2	ENSG00000005882	ENST00000505440	protein_coding	PUTATIVE	None	8810	425	140	48173059	48184449	1	None	PDHK2
17	PDK2	ENSG00000005882	ENST00000511026	processed_transcript	PUTATIVE	None	8810	None	None	48173101	48174813	1	None	PDHK2
17	PDK2	ENSG00000005882	ENST00000512238	protein_coding	PUTATIVE	None	8810	295	97	48173338	48183403	1	None	PDHK2
17	PDK2	ENSG00000005882	ENST00000515040	retained_intron	KNOWN	None	8810	None	None	48174877	48185609	1	None	PDHK2
17	PDK2	ENSG00000005882	ENST00000510219	protein_coding	PUTATIVE	None	8810	481	159	48181688	48185686	1	None	PDHK2
17	PDK2	ENSG00000005882	ENST00000506242	retained_intron	KNOWN	None	8810	None	None	48182643	48184517	1	None	PDHK2
17	PDK2	ENSG00000005882	ENST00000503076	retained_intron	KNOWN	None	8810	None	None	48183805	48185558	1	None	PDHK2
17	PDK2	ENSG00000005882	ENST00000512204	retained_intron	KNOWN	None	8810	None	None	48185365	48187573	1	None	PDHK2
17	PDK2	ENSG00000005882	ENST00000506647	retained_intron	KNOWN	None	8810	None	None	48185372	48187348	1	None	PDHK2
9	None	ENSG00000225960	ENST00000454204	lincRNA	KNOWN	None	None	None	None	122735372	122736600	1	None	None
9	MIR147A	ENSG00000207814	ENST00000385079	miRNA	KNOWN	None	31534	None	None	123007257	123007328	-1	MIRN147, MIR147	hsa-mir-147
19	None	ENSG00000248453	ENST00000512134	processed_pseudogene	KNOWN	None	None	None	None	15947287	15947865	-1	None	None
HSCHR6_MHC_QBL	C2	ENSG00000206372	ENST00000489229	processed_transcript	PUTATIVE	None	1248	None	None	31855958	31903846	1	None	None
HSCHR6_MHC_QBL	C2	ENSG00000206372	ENST00000411885	protein_coding	KNOWN	None	1248	508	168	31859171	31897424	1	None	None
HSCHR6_MHC_QBL	C2	ENSG00000206372	ENST00000439426	protein_coding	KNOWN	None	1248	476	157	31859176	31892468	1	None	None
HSCHR6_MHC_QBL	C2	ENSG00000206372	ENST00000464303	processed_transcript	KNOWN	None	1248	None	None	31878114	31895632	1	None	None
HSCHR6_MHC_QBL	C2	ENSG00000206372	ENST00000411830	protein_coding	KNOWN	None	1248	419	138	31878157	31887067	1	None	None
HSCHR6_MHC_QBL	C2	ENSG00000206372	ENST00000495226	processed_transcript	KNOWN	None	1248	None	None	31878269	31894163	1	None	None
HSCHR6_MHC_QBL	C2	ENSG00000206372	ENST00000383362	protein_coding	KNOWN	None	1248	2259	752	31885665	31903846	1	None	None
HSCHR6_MHC_QBL	C2	ENSG00000206372	ENST00000440861	protein_coding	KNOWN	None	1248	377	124	31885698	31891903	1	None	None
HSCHR6_MHC_QBL	C2	ENSG00000206372	ENST00000428349	protein_coding	KNOWN	None	1248	1059	352	31885704	31901493	1	None	None
HSCHR6_MHC_QBL	C2	ENSG00000206372	ENST00000486419	retained_intron	KNOWN	None	1248	None	None	31885876	31893231	1	None	None
HSCHR6_MHC_QBL	C2	ENSG00000206372	ENST00000383367	protein_coding	KNOWN	None	1248	1578	525	31885936	31903846	1	None	None
HSCHR6_MHC_QBL	C2	ENSG00000206372	ENST00000466537	processed_transcript	PUTATIVE	None	1248	None	None	31890521	31892455	1	None	None
HSCHR6_MHC_QBL	C2	ENSG00000206372	ENST00000490080	processed_transcript	KNOWN	None	1248	None	None	31892456	31901932	1	None	None
HSCHR6_MHC_QBL	C2	ENSG00000206372	ENST00000486761	retained_intron	KNOWN	None	1248	None	None	31894228	31903846	1	None	None
HSCHR6_MHC_QBL	C2	ENSG00000206372	ENST00000466838	processed_transcript	KNOWN	None	1248	None	None	31901847	31903846	1	None	None
HSCHR6_MHC_QBL	C2	ENSG00000206372	ENST00000548973	protein_coding	KNOWN	None	1248	1863	620	31885662	31903843	1	None	None
HSCHR6_MHC_QBL	C2	ENSG00000206372	ENST00000547984	protein_coding	KNOWN	None	1248	1134	377	31885662	31903843	1	None	None
14	HECTD1	ENSG00000092148	ENST00000554882	protein_coding	NOVEL	None	20157	2930	975	31569318	31597074	-1	None	KIAA1131
14	HECTD1	ENSG00000092148	ENST00000555843	retained_intron	KNOWN	None	20157	None	None	31569324	31592876	-1	None	KIAA1131
14	HECTD1	ENSG00000092148	ENST00000553700	protein_coding	KNOWN	CCDS41939	20157	7833	2610	31569324	31677010	-1	None	KIAA1131
14	HECTD1	ENSG00000092148	ENST00000556281	retained_intron	KNOWN	None	20157	None	None	31569803	31570598	-1	None	KIAA1131
14	HECTD1	ENSG00000092148	ENST00000557695	retained_intron	KNOWN	None	20157	None	None	31571994	31574833	-1	None	KIAA1131
14	HECTD1	ENSG00000092148	ENST00000555311	retained_intron	KNOWN	None	20157	None	None	31578330	31581649	-1	None	KIAA1131
14	HECTD1	ENSG00000092148	ENST00000553957	protein_coding	NOVEL	None	20157	4395	1464	31582346	31637547	-1	None	KIAA1131
14	HECTD1	ENSG00000092148	ENST00000557321	retained_intron	KNOWN	None	20157	None	None	31582637	31583599	-1	None	KIAA1131
14	HECTD1	ENSG00000092148	ENST00000554027	retained_intron	KNOWN	None	20157	None	None	31585527	31590849	-1	None	KIAA1131
14	HECTD1	ENSG00000092148	ENST00000555915	nonsense_mediated_decay	KNOWN	None	20157	368	121	31588976	31597907	-1	None	KIAA1131
14	HECTD1	ENSG00000092148	ENST00000556004	retained_intron	KNOWN	None	20157	None	None	31596725	31597924	-1	None	KIAA1131
14	HECTD1	ENSG00000092148	ENST00000557369	protein_coding	NOVEL	None	20157	554	183	31597072	31604146	-1	None	KIAA1131
14	HECTD1	ENSG00000092148	ENST00000554850	retained_intron	KNOWN	None	20157	None	None	31604748	31606044	-1	None	KIAA1131
14	HECTD1	ENSG00000092148	ENST00000556224	protein_coding	KNOWN	None	20157	2778	925	31613317	31676689	-1	None	KIAA1131
14	HECTD1	ENSG00000092148	ENST00000554471	retained_intron	KNOWN	None	20157	None	None	31642252	31644180	-1	None	KIAA1131
14	HECTD1	ENSG00000092148	ENST00000553616	retained_intron	KNOWN	None	20157	None	None	31647271	31675382	-1	None	KIAA1131
14	HECTD1	ENSG00000092148	ENST00000556474	processed_transcript	KNOWN	None	20157	None	None	31672277	31676915	-1	None	KIAA1131
14	HECTD1	ENSG00000092148	ENST00000399332	protein_coding	KNOWN	CCDS41939	20157	7833	2610	31569324	31676689	-1	None	KIAA1131
19	None	ENSG00000267453	ENST00000588182	lincRNA	KNOWN	None	None	None	None	15962803	15973785	-1	None	None
19	None	ENSG00000267453	ENST00000589345	lincRNA	KNOWN	None	None	None	None	15962861	15975714	-1	None	None
19	None	ENSG00000267453	ENST00000590529	lincRNA	KNOWN	None	None	None	None	15974635	15975734	-1	None	None
9	AHCYP2	ENSG00000238181	ENST00000430630	processed_pseudogene	KNOWN	None	44994	None	None	123482951	123484250	1	None	None
21	KCNE2	ENSG00000159197	ENST00000290310	protein_coding	KNOWN	CCDS13635	6242	372	123	35736323	35743440	1	None	MiRP1, LQT6
15	ACTC1	ENSG00000159251	ENST00000290378	protein_coding	KNOWN	CCDS10041	143	1134	377	35080297	35088340	-1	ACTC	CMD1R
15	ACTC1	ENSG00000159251	ENST00000557860	processed_transcript	KNOWN	None	143	None	None	35083359	35085052	-1	ACTC	CMD1R
15	ACTC1	ENSG00000159251	ENST00000560563	retained_intron	KNOWN	None	143	None	None	35083902	35084723	-1	ACTC	CMD1R
19	None	ENSG00000267218	ENST00000593183	processed_pseudogene	KNOWN	None	None	None	None	16013133	16014048	-1	None	None
19	None	ENSG00000267164	ENST00000592835	lincRNA	KNOWN	None	None	None	None	16015366	16018044	1	None	None
19	None	ENSG00000267056	ENST00000585431	processed_pseudogene	KNOWN	None	None	None	None	16021393	16022634	-1	None	None
21	SMIM11	ENSG00000205670	ENST00000481710	processed_transcript	KNOWN	None	1293	None	None	35747779	35775075	1	C21orf51, FAM165B	None
21	SMIM11	ENSG00000205670	ENST00000399292	protein_coding	KNOWN	CCDS33550	1293	177	58	35747799	35761452	1	C21orf51, FAM165B	None
21	SMIM11	ENSG00000205670	ENST00000399299	protein_coding	PUTATIVE	None	1293	207	68	35747799	35775075	1	C21orf51, FAM165B	None
21	SMIM11	ENSG00000205670	ENST00000489469	retained_intron	KNOWN	None	1293	None	None	35747808	35772473	1	C21orf51, FAM165B	None
21	SMIM11	ENSG00000205670	ENST00000495363	processed_transcript	KNOWN	None	1293	None	None	35747860	35780164	1	C21orf51, FAM165B	None
21	SMIM11	ENSG00000205670	ENST00000474455	retained_intron	KNOWN	None	1293	None	None	35747867	35758931	1	C21orf51, FAM165B	None
21	SMIM11	ENSG00000205670	ENST00000399295	protein_coding	KNOWN	CCDS33550	1293	177	58	35747903	35761451	1	C21orf51, FAM165B	None
14	SYNE3	ENSG00000176438	ENST00000334258	protein_coding	KNOWN	CCDS9935	19861	2928	975	95883831	95942173	-1	C14orf49	FLJ25605, NET53, Nesprin-3, Nesp3
14	SYNE3	ENSG00000176438	ENST00000554873	protein_coding	PUTATIVE	None	19861	2199	732	95883941	95922526	-1	C14orf49	FLJ25605, NET53, Nesprin-3, Nesp3
14	SYNE3	ENSG00000176438	ENST00000557275	protein_coding	KNOWN	None	19861	2913	970	95883953	95942173	-1	C14orf49	FLJ25605, NET53, Nesprin-3, Nesp3
14	SYNE3	ENSG00000176438	ENST00000555759	retained_intron	KNOWN	None	19861	None	None	95904139	95934193	-1	C14orf49	FLJ25605, NET53, Nesprin-3, Nesp3
14	SYNE3	ENSG00000176438	ENST00000553340	protein_coding	KNOWN	None	19861	1791	596	95909998	95942173	-1	C14orf49	FLJ25605, NET53, Nesprin-3, Nesp3
19	CYP4F9P	ENSG00000267392	ENST00000589847	unprocessed_pseudogene	KNOWN	None	39940	None	None	16090611	16109846	-1	None	None
7	MAGI2-AS1	ENSG00000251276	ENST00000428298	antisense	KNOWN	None	40860	None	None	78569166	78570211	1	None	None
HSCHR6_MHC_APD	COL11A2P1	ENSG00000227577	ENST00000419518	unprocessed_pseudogene	KNOWN	None	13947	None	None	33054938	33058474	-1	COL11A2P	cD0826Q1.1
20	LINC00654	ENSG00000205181	ENST00000379053	lincRNA	KNOWN	None	27154	None	None	5476713	5485259	-1	None	None
20	LINC00654	ENSG00000205181	ENST00000589201	lincRNA	KNOWN	None	27154	None	None	5482342	5485173	-1	None	None
19	TGFB1	ENSG00000105329	ENST00000598758	protein_coding	PUTATIVE	None	11766	362	119	41807492	41847935	-1	TGFB, DPD1	CED, TGFbeta
19	TGFB1	ENSG00000105329	ENST00000221930	protein_coding	KNOWN	CCDS33031	11766	1173	390	41836228	41859816	-1	TGFB, DPD1	CED, TGFbeta
19	TGFB1	ENSG00000105329	ENST00000600196	retained_intron	KNOWN	None	11766	None	None	41837960	41850745	-1	TGFB, DPD1	CED, TGFbeta
19	TGFB1	ENSG00000105329	ENST00000597453	retained_intron	KNOWN	None	11766	None	None	41847926	41854246	-1	TGFB, DPD1	CED, TGFbeta
20	None	ENSG00000266908	ENST00000587737	lincRNA	KNOWN	None	None	None	None	5479762	5483527	1	None	None
9	FAM166A	ENSG00000188163	ENST00000471784	nonsense_mediated_decay	KNOWN	None	33818	816	271	140138036	140142222	-1	None	None
9	FAM166A	ENSG00000188163	ENST00000344774	protein_coding	KNOWN	CCDS35186	33818	954	317	140138037	140142222	-1	None	None
9	FAM166A	ENSG00000188163	ENST00000484720	protein_coding	NOVEL	None	33818	670	222	140139604	140142202	-1	None	None
9	FAM166A	ENSG00000188163	ENST00000388932	protein_coding	KNOWN	None	33818	816	271	140139267	140142222	-1	None	None
6	TCP10	ENSG00000203690	ENST00000508373	retained_intron	KNOWN	None	11656	None	None	167770521	167797998	-1	None	None
6	TCP10	ENSG00000203690	ENST00000366827	protein_coding	PUTATIVE	None	11656	897	298	167770654	167797998	-1	None	None
6	TCP10	ENSG00000203690	ENST00000397829	protein_coding	KNOWN	CCDS43527	11656	981	326	167785665	167797954	-1	None	None
6	TCP10	ENSG00000203690	ENST00000514083	retained_intron	KNOWN	None	11656	None	None	167786578	167789289	-1	None	None
6	TCP10	ENSG00000203690	ENST00000460930	protein_coding	PUTATIVE	None	11656	624	207	167787379	167797920	-1	None	None
6	TCP10	ENSG00000203690	ENST00000463894	retained_intron	KNOWN	None	11656	None	None	167787384	167797993	-1	None	None
6	TCP10	ENSG00000203690	ENST00000491085	retained_intron	KNOWN	None	11656	None	None	167791347	167797998	-1	None	None
6	TCP10	ENSG00000203690	ENST00000476779	protein_coding	PUTATIVE	None	11656	324	107	167794393	167797887	-1	None	None
6	TCP10	ENSG00000203690	ENST00000485157	protein_coding	PUTATIVE	None	11656	287	94	167794601	167796448	-1	None	None
20	None	ENSG00000225640	ENST00000450640	lincRNA	KNOWN	None	None	None	None	5488521	5490648	-1	None	None
11	TRIM22	ENSG00000132274	ENST00000379965	protein_coding	KNOWN	CCDS41612	16379	1497	498	5710919	5732093	1	None	STAF50, GPSTAF50, RNF94
11	TRIM22	ENSG00000132274	ENST00000425490	protein_coding	KNOWN	None	16379	611	202	5710927	5719636	1	None	STAF50, GPSTAF50, RNF94
11	TRIM22	ENSG00000132274	ENST00000460454	retained_intron	KNOWN	None	16379	None	None	5711051	5718243	1	None	STAF50, GPSTAF50, RNF94
11	TRIM22	ENSG00000132274	ENST00000454828	protein_coding	NOVEL	None	16379	916	304	5711110	5730393	1	None	STAF50, GPSTAF50, RNF94
11	TRIM22	ENSG00000132274	ENST00000414641	protein_coding	KNOWN	None	16379	681	226	5712257	5719706	1	None	STAF50, GPSTAF50, RNF94
11	TRIM22	ENSG00000132274	ENST00000480395	retained_intron	KNOWN	None	16379	None	None	5717722	5730677	1	None	STAF50, GPSTAF50, RNF94
11	TRIM22	ENSG00000132274	ENST00000414897	nonsense_mediated_decay	KNOWN	None	16379	430	142	5717732	5730367	1	None	STAF50, GPSTAF50, RNF94
11	TRIM22	ENSG00000132274	ENST00000493494	retained_intron	KNOWN	None	16379	None	None	5727780	5730547	1	None	STAF50, GPSTAF50, RNF94
11	TRIM22	ENSG00000132274	ENST00000450670	protein_coding	PUTATIVE	None	16379	192	63	5727824	5736273	1	None	STAF50, GPSTAF50, RNF94
11	TRIM22	ENSG00000132274	ENST00000429063	protein_coding	PUTATIVE	None	16379	113	36	5729438	5758319	1	None	STAF50, GPSTAF50, RNF94
11	TRIM22	ENSG00000132274	ENST00000444844	protein_coding	PUTATIVE	None	16379	116	37	5729438	5758319	1	None	STAF50, GPSTAF50, RNF94
19	LINC00661	ENSG00000205396	ENST00000546512	lincRNA	KNOWN	None	27002	None	None	16126097	16129763	1	None	None
19	LINC00661	ENSG00000205396	ENST00000549718	lincRNA	KNOWN	None	27002	None	None	16126444	16133398	1	None	None
19	LINC00661	ENSG00000205396	ENST00000549354	lincRNA	KNOWN	None	27002	None	None	16126444	16138272	1	None	None
19	LINC00661	ENSG00000205396	ENST00000549131	lincRNA	KNOWN	None	27002	None	None	16127715	16129565	1	None	None
19	LINC00661	ENSG00000205396	ENST00000552608	lincRNA	KNOWN	None	27002	None	None	16132736	16138270	1	None	None
19	LINC00661	ENSG00000205396	ENST00000547102	lincRNA	KNOWN	None	27002	None	None	16132799	16137846	1	None	None
19	LINC00661	ENSG00000205396	ENST00000552685	lincRNA	KNOWN	None	27002	None	None	16133468	16135989	1	None	None
17	MYH3	ENSG00000109063	ENST00000583535	protein_coding	KNOWN	CCDS11157	7573	5823	1940	10531844	10560626	-1	None	MYHC-EMB, MYHSE1, HEMHC, SMHCE
17	MYH3	ENSG00000109063	ENST00000577963	retained_intron	KNOWN	None	7573	None	None	10531849	10533251	-1	None	MYHC-EMB, MYHSE1, HEMHC, SMHCE
17	MYH3	ENSG00000109063	ENST00000579928	retained_intron	KNOWN	None	7573	None	None	10531849	10533346	-1	None	MYHC-EMB, MYHSE1, HEMHC, SMHCE
17	MYH3	ENSG00000109063	ENST00000579489	retained_intron	KNOWN	None	7573	None	None	10551952	10555285	-1	None	MYHC-EMB, MYHSE1, HEMHC, SMHCE
17	MYH3	ENSG00000109063	ENST00000582580	retained_intron	KNOWN	None	7573	None	None	10555590	10560626	-1	None	MYHC-EMB, MYHSE1, HEMHC, SMHCE
17	MYH3	ENSG00000109063	ENST00000226209	protein_coding	KNOWN	CCDS11157	7573	5823	1940	10531843	10559467	-1	None	MYHC-EMB, MYHSE1, HEMHC, SMHCE
21	MIR3648	ENSG00000264462	ENST00000581792	miRNA	KNOWN	None	38941	None	None	9825832	9826011	1	None	hsa-mir-3648
7	CCZ1B	ENSG00000146574	ENST00000429267	processed_transcript	PUTATIVE	None	21717	None	None	6833765	6836573	-1	C7orf28B	DKFZP586I1023, H_NH0577018.2, MGC19819
7	CCZ1B	ENSG00000146574	ENST00000597208	processed_transcript	PUTATIVE	None	21717	None	None	6833772	6836567	-1	C7orf28B	DKFZP586I1023, H_NH0577018.2, MGC19819
7	CCZ1B	ENSG00000146574	ENST00000481830	processed_transcript	KNOWN	None	21717	None	None	6836440	6840632	-1	C7orf28B	DKFZP586I1023, H_NH0577018.2, MGC19819
7	CCZ1B	ENSG00000146574	ENST00000472464	processed_transcript	KNOWN	None	21717	None	None	6836467	6841134	-1	C7orf28B	DKFZP586I1023, H_NH0577018.2, MGC19819
7	CCZ1B	ENSG00000146574	ENST00000316731	protein_coding	KNOWN	CCDS5354	21717	1449	482	6837992	6866401	-1	C7orf28B	DKFZP586I1023, H_NH0577018.2, MGC19819
7	CCZ1B	ENSG00000146574	ENST00000467004	retained_intron	KNOWN	None	21717	None	None	6838572	6846809	-1	C7orf28B	DKFZP586I1023, H_NH0577018.2, MGC19819
7	CCZ1B	ENSG00000146574	ENST00000468078	retained_intron	KNOWN	None	21717	None	None	6838826	6841226	-1	C7orf28B	DKFZP586I1023, H_NH0577018.2, MGC19819
7	CCZ1B	ENSG00000146574	ENST00000462378	retained_intron	KNOWN	None	21717	None	None	6845635	6852141	-1	C7orf28B	DKFZP586I1023, H_NH0577018.2, MGC19819
7	CCZ1B	ENSG00000146574	ENST00000485620	retained_intron	KNOWN	None	21717	None	None	6851172	6854459	-1	C7orf28B	DKFZP586I1023, H_NH0577018.2, MGC19819
7	CCZ1B	ENSG00000146574	ENST00000411858	nonsense_mediated_decay	KNOWN	None	21717	237	78	6852654	6865874	-1	C7orf28B	DKFZP586I1023, H_NH0577018.2, MGC19819
7	CCZ1B	ENSG00000146574	ENST00000490178	retained_intron	KNOWN	None	21717	None	None	6854275	6862060	-1	C7orf28B	DKFZP586I1023, H_NH0577018.2, MGC19819
7	CCZ1B	ENSG00000146574	ENST00000496187	retained_intron	KNOWN	None	21717	None	None	6863487	6865836	-1	C7orf28B	DKFZP586I1023, H_NH0577018.2, MGC19819
7	CCZ1B	ENSG00000146574	ENST00000464543	retained_intron	KNOWN	None	21717	None	None	6863669	6865847	-1	C7orf28B	DKFZP586I1023, H_NH0577018.2, MGC19819
7	CCZ1B	ENSG00000146574	ENST00000486840	retained_intron	KNOWN	None	21717	None	None	6864019	6865903	-1	C7orf28B	DKFZP586I1023, H_NH0577018.2, MGC19819
7	CCZ1B	ENSG00000146574	ENST00000538180	protein_coding	KNOWN	None	21717	1020	339	6838572	6865826	-1	C7orf28B	DKFZP586I1023, H_NH0577018.2, MGC19819
21	MIR3687	ENSG00000264063	ENST00000577708	miRNA	KNOWN	None	38946	None	None	9826203	9826263	1	None	hsa-mir-3687
12	SLC15A4	ENSG00000139370	ENST00000266771	protein_coding	KNOWN	CCDS9264	23090	1734	577	129277739	129308528	-1	None	PHT1, PTR4
12	SLC15A4	ENSG00000139370	ENST00000376744	nonsense_mediated_decay	KNOWN	None	23090	715	237	129277740	129308324	-1	None	PHT1, PTR4
12	SLC15A4	ENSG00000139370	ENST00000545031	protein_coding	PUTATIVE	None	23090	285	94	129278440	129286246	-1	None	PHT1, PTR4
12	SLC15A4	ENSG00000139370	ENST00000544112	protein_coding	KNOWN	None	23090	723	240	129278718	129294903	-1	None	PHT1, PTR4
12	SLC15A4	ENSG00000139370	ENST00000366292	retained_intron	KNOWN	None	23090	None	None	129285352	129300473	-1	None	PHT1, PTR4
12	SLC15A4	ENSG00000139370	ENST00000376740	protein_coding	PUTATIVE	None	23090	340	112	129293351	129308067	-1	None	PHT1, PTR4
12	SLC15A4	ENSG00000139370	ENST00000539703	processed_transcript	KNOWN	None	23090	None	None	129293626	129308138	-1	None	PHT1, PTR4
12	SLC15A4	ENSG00000139370	ENST00000535272	processed_transcript	KNOWN	None	23090	None	None	129299505	129304412	-1	None	PHT1, PTR4
17	LIG3	ENSG00000005156	ENST00000378526	protein_coding	KNOWN	CCDS11284	6600	3030	1009	33307513	33332083	1	LIG2	None
17	LIG3	ENSG00000005156	ENST00000585941	protein_coding	PUTATIVE	None	6600	1636	544	33307531	33321448	1	LIG2	None
17	LIG3	ENSG00000005156	ENST00000262327	protein_coding	KNOWN	CCDS11285	6600	2850	949	33307565	33330191	1	LIG2	None
17	LIG3	ENSG00000005156	ENST00000592690	protein_coding	PUTATIVE	None	6600	622	206	33307577	33316676	1	LIG2	None
17	LIG3	ENSG00000005156	ENST00000585740	protein_coding	PUTATIVE	None	6600	557	184	33307578	33319626	1	LIG2	None
17	LIG3	ENSG00000005156	ENST00000590181	retained_intron	KNOWN	None	6600	None	None	33307596	33316899	1	LIG2	None
17	LIG3	ENSG00000005156	ENST00000586407	processed_transcript	KNOWN	None	6600	None	None	33307659	33316559	1	LIG2	None
17	LIG3	ENSG00000005156	ENST00000588109	nonsense_mediated_decay	KNOWN	None	6600	115	37	33310471	33318084	1	LIG2	None
17	LIG3	ENSG00000005156	ENST00000586435	retained_intron	KNOWN	None	6600	None	None	33313113	33318333	1	LIG2	None
17	LIG3	ENSG00000005156	ENST00000590630	retained_intron	KNOWN	None	6600	None	None	33318656	33324844	1	LIG2	None
17	LIG3	ENSG00000005156	ENST00000586058	retained_intron	KNOWN	None	6600	None	None	33321206	33325273	1	LIG2	None
17	LIG3	ENSG00000005156	ENST00000588713	retained_intron	KNOWN	None	6600	None	None	33321294	33323392	1	LIG2	None
17	LIG3	ENSG00000005156	ENST00000593099	retained_intron	KNOWN	None	6600	None	None	33324053	33331823	1	LIG2	None
17	LIG3	ENSG00000005156	ENST00000586119	retained_intron	KNOWN	None	6600	None	None	33324737	33328312	1	LIG2	None
17	LIG3	ENSG00000005156	ENST00000585370	nonsense_mediated_decay	KNOWN	None	6600	109	35	33324775	33325690	1	LIG2	None
17	LIG3	ENSG00000005156	ENST00000592244	retained_intron	KNOWN	None	6600	None	None	33329853	33331391	1	LIG2	None
21	TEKT4P2	ENSG00000188681	ENST00000416067	processed_transcript	KNOWN	None	40046	None	None	9907194	9968585	-1	MAFIPL	None
21	TEKT4P2	ENSG00000188681	ENST00000559466	transcribed_unprocessed_pseudogene	KNOWN	None	40046	None	None	9907247	9912442	-1	MAFIPL	None
21	TEKT4P2	ENSG00000188681	ENST00000400754	unprocessed_pseudogene	KNOWN	None	40046	None	None	9907190	9968548	-1	MAFIPL	None
18	YES1	ENSG00000176105	ENST00000577961	protein_coding	PUTATIVE	None	12841	1647	548	721588	775267	-1	None	Yes, c-yes, HsT441
18	YES1	ENSG00000176105	ENST00000584307	protein_coding	KNOWN	CCDS11824	12841	1632	543	721588	812547	-1	None	Yes, c-yes, HsT441
18	YES1	ENSG00000176105	ENST00000314574	protein_coding	KNOWN	CCDS11824	12841	1632	543	721748	812239	-1	None	Yes, c-yes, HsT441
18	YES1	ENSG00000176105	ENST00000577611	processed_transcript	KNOWN	None	12841	None	None	751724	812267	-1	None	Yes, c-yes, HsT441
18	YES1	ENSG00000176105	ENST00000581960	processed_transcript	KNOWN	None	12841	None	None	756677	812358	-1	None	Yes, c-yes, HsT441
9	C9orf173	ENSG00000197768	ENST00000388931	protein_coding	KNOWN	CCDS59156	37285	1161	386	140145713	140147934	1	None	FLJ40246
9	C9orf173	ENSG00000197768	ENST00000412566	protein_coding	KNOWN	CCDS48065	37285	927	308	140145730	140147934	1	None	FLJ40246
12	SRGAP1	ENSG00000196935	ENST00000355086	protein_coding	KNOWN	CCDS8967	17382	3258	1085	64238073	64541613	1	None	KIAA1304, ARHGAP13
12	SRGAP1	ENSG00000196935	ENST00000537556	retained_intron	KNOWN	None	17382	None	None	64238583	64475704	1	None	KIAA1304, ARHGAP13
12	SRGAP1	ENSG00000196935	ENST00000543397	protein_coding	PUTATIVE	None	17382	3069	1022	64376305	64537560	1	None	KIAA1304, ARHGAP13
12	SRGAP1	ENSG00000196935	ENST00000542381	retained_intron	KNOWN	None	17382	None	None	64436574	64437407	1	None	KIAA1304, ARHGAP13
12	SRGAP1	ENSG00000196935	ENST00000537585	retained_intron	KNOWN	None	17382	None	None	64505591	64509785	1	None	KIAA1304, ARHGAP13
12	SRGAP1	ENSG00000196935	ENST00000542841	retained_intron	KNOWN	None	17382	None	None	64521417	64536346	1	None	KIAA1304, ARHGAP13
12	SRGAP1	ENSG00000196935	ENST00000357825	protein_coding	KNOWN	None	17382	3189	1062	64238541	64541613	1	None	KIAA1304, ARHGAP13
19	None	ENSG00000267527	ENST00000592886	lincRNA	KNOWN	None	None	None	None	16130531	16131643	1	None	None
3	ZDHHC3	ENSG00000163812	ENST00000339420	protein_coding	PUTATIVE	None	18470	588	195	44956749	44986688	-1	None	ZNF373, GODZ
3	ZDHHC3	ENSG00000163812	ENST00000466084	processed_transcript	KNOWN	None	18470	None	None	44958901	44960830	-1	None	ZNF373, GODZ
3	ZDHHC3	ENSG00000163812	ENST00000443879	protein_coding	PUTATIVE	None	18470	182	59	44961470	44970844	-1	None	ZNF373, GODZ
3	ZDHHC3	ENSG00000163812	ENST00000296127	protein_coding	KNOWN	CCDS2724	18470	984	327	44966338	45017674	-1	None	ZNF373, GODZ
3	ZDHHC3	ENSG00000163812	ENST00000424952	protein_coding	KNOWN	CCDS46811	18470	900	299	44966663	45017669	-1	None	ZNF373, GODZ
3	ZDHHC3	ENSG00000163812	ENST00000479314	retained_intron	KNOWN	None	18470	None	None	44968015	44974941	-1	None	ZNF373, GODZ
3	ZDHHC3	ENSG00000163812	ENST00000342790	protein_coding	NOVEL	None	18470	1002	333	44968105	45017658	-1	None	ZNF373, GODZ
3	ZDHHC3	ENSG00000163812	ENST00000433512	protein_coding	PUTATIVE	None	18470	285	94	44970798	44986821	-1	None	ZNF373, GODZ
3	ZDHHC3	ENSG00000163812	ENST00000455235	protein_coding	PUTATIVE	None	18470	134	43	44974630	45017677	-1	None	ZNF373, GODZ
3	ZDHHC3	ENSG00000163812	ENST00000419642	nonsense_mediated_decay	KNOWN	None	18470	335	110	44974680	45000924	-1	None	ZNF373, GODZ
3	ZDHHC3	ENSG00000163812	ENST00000478669	processed_transcript	PUTATIVE	None	18470	None	None	44986660	45011423	-1	None	ZNF373, GODZ
14	TMEM55B	ENSG00000165782	ENST00000250489	protein_coding	KNOWN	CCDS9551	19299	834	277	20925878	20929771	-1	C14orf9	MGC26684
14	TMEM55B	ENSG00000165782	ENST00000553460	protein_coding	PUTATIVE	None	19299	337	111	20926017	20927850	-1	C14orf9	MGC26684
14	TMEM55B	ENSG00000165782	ENST00000557041	retained_intron	KNOWN	None	19299	None	None	20926017	20929560	-1	C14orf9	MGC26684
14	TMEM55B	ENSG00000165782	ENST00000398020	protein_coding	KNOWN	CCDS41911	19299	855	284	20926017	20929624	-1	C14orf9	MGC26684
14	TMEM55B	ENSG00000165782	ENST00000554028	protein_coding	PUTATIVE	None	19299	333	110	20926545	20928901	-1	C14orf9	MGC26684
14	TMEM55B	ENSG00000165782	ENST00000553602	retained_intron	KNOWN	None	19299	None	None	20926776	20927751	-1	C14orf9	MGC26684
14	TMEM55B	ENSG00000165782	ENST00000556093	protein_coding	PUTATIVE	None	19299	131	42	20928420	20929052	-1	C14orf9	MGC26684
21	None	ENSG00000239179	ENST00000458847	miRNA	NOVEL	None	None	None	None	9937696	9937777	-1	None	None
19	LINC00905	ENSG00000167459	ENST00000602744	lincRNA	KNOWN	None	26334	None	None	16142117	16145658	1	None	FLJ25328
19	LINC00905	ENSG00000167459	ENST00000602466	lincRNA	KNOWN	None	26334	None	None	16142382	16145696	1	None	FLJ25328
19	LINC00905	ENSG00000167459	ENST00000602372	lincRNA	KNOWN	None	26334	None	None	16142440	16145598	1	None	FLJ25328
19	LINC00905	ENSG00000167459	ENST00000602814	lincRNA	KNOWN	None	26334	None	None	16142552	16146457	1	None	FLJ25328
19	LINC00905	ENSG00000167459	ENST00000397365	lincRNA	KNOWN	None	26334	None	None	16144127	16146437	1	None	FLJ25328
19	LINC00905	ENSG00000167459	ENST00000588117	lincRNA	KNOWN	None	26334	None	None	16144523	16152945	1	None	FLJ25328
19	LINC00905	ENSG00000167459	ENST00000588838	lincRNA	KNOWN	None	26334	None	None	16144930	16152921	1	None	FLJ25328
19	LINC00905	ENSG00000167459	ENST00000589071	retained_intron	KNOWN	None	26334	None	None	16145821	16147295	1	None	FLJ25328
11	None	ENSG00000176984	ENST00000530303	protein_coding	PUTATIVE	None	None	344	113	120039685	120040861	1	None	None
11	None	ENSG00000176984	ENST00000319763	protein_coding	PUTATIVE	None	None	972	323	120039685	120042387	1	None	None
21	None	ENSG00000239107	ENST00000459307	miRNA	NOVEL	None	None	None	None	9937936	9938018	-1	None	None
21	None	ENSG00000263839	ENST00000580016	miRNA	NOVEL	None	None	None	None	10199943	10200025	1	None	None
21	RN7SL52P	ENSG00000264002	ENST00000584271	misc_RNA	KNOWN	None	46068	None	None	10380380	10380661	-1	None	None
21	None	ENSG00000252199	ENST00000516390	snoRNA	NOVEL	None	None	None	None	10385953	10386047	1	None	None
21	None	ENSG00000270533	ENST00000604687	processed_pseudogene	KNOWN	None	None	None	None	10475515	10476061	-1	None	None
11	OAF	ENSG00000184232	ENST00000328965	protein_coding	KNOWN	CCDS8430	28752	822	273	120081475	120101041	1	None	MGC52117
11	OAF	ENSG00000184232	ENST00000531220	protein_coding	PUTATIVE	None	28752	474	157	120082009	120099949	1	None	MGC52117
11	OAF	ENSG00000184232	ENST00000534735	processed_transcript	PUTATIVE	None	28752	None	None	120084444	120088221	1	None	MGC52117
HSCHR6_MHC_DBB	HLA-N	ENSG00000230509	ENST00000457173	unprocessed_pseudogene	KNOWN	None	19406	None	None	30309450	30309584	1	None	HLA-30
HSCHR6_MHC_DBB	None	ENSG00000257334	ENST00000551335	pseudogene	NOVEL	None	None	None	None	30314268	30314355	-1	None	None
HSCHR6_MHC_DBB	HCG19P	ENSG00000235561	ENST00000454640	processed_pseudogene	KNOWN	None	31336	None	None	30317313	30317946	-1	None	AB014085.4
17	RPL19	ENSG00000108298	ENST00000225430	protein_coding	KNOWN	CCDS42312	10312	591	196	37356536	37360980	1	None	FLJ27452, MGC71997, DKFZp779D216, L19
17	RPL19	ENSG00000108298	ENST00000579374	protein_coding	PUTATIVE	None	10312	582	193	37356569	37360980	1	None	FLJ27452, MGC71997, DKFZp779D216, L19
17	RPL19	ENSG00000108298	ENST00000580333	retained_intron	KNOWN	None	10312	None	None	37356570	37359006	1	None	FLJ27452, MGC71997, DKFZp779D216, L19
17	RPL19	ENSG00000108298	ENST00000579260	protein_coding	PUTATIVE	None	10312	585	194	37356595	37360964	1	None	FLJ27452, MGC71997, DKFZp779D216, L19
17	RPL19	ENSG00000108298	ENST00000582193	protein_coding	PUTATIVE	None	10312	585	194	37356598	37360973	1	None	FLJ27452, MGC71997, DKFZp779D216, L19
17	RPL19	ENSG00000108298	ENST00000585199	protein_coding	PUTATIVE	None	10312	386	127	37357385	37359332	1	None	FLJ27452, MGC71997, DKFZp779D216, L19
17	RPL19	ENSG00000108298	ENST00000577741	retained_intron	KNOWN	None	10312	None	None	37358295	37360901	1	None	FLJ27452, MGC71997, DKFZp779D216, L19
17	RPL19	ENSG00000108298	ENST00000577759	retained_intron	KNOWN	None	10312	None	None	37360417	37360980	1	None	FLJ27452, MGC71997, DKFZp779D216, L19
HSCHR6_MHC_DBB	UBQLN1P1	ENSG00000232473	ENST00000418792	processed_pseudogene	KNOWN	None	21633	None	None	30321145	30322313	-1	UBQLN1P	None
HSCHR6_MHC_DBB	None	ENSG00000257394	ENST00000552084	pseudogene	NOVEL	None	None	None	None	30322512	30322635	1	None	None
7	MAGI2-AS2	ENSG00000226978	ENST00000411616	antisense	KNOWN	None	40861	None	None	78638304	78641593	1	None	None
5	BTNL8	ENSG00000113303	ENST00000231229	protein_coding	KNOWN	CCDS4459	26131	1044	347	180326077	180377906	1	None	FLJ21458
5	BTNL8	ENSG00000113303	ENST00000340184	protein_coding	KNOWN	CCDS43413	26131	1503	500	180326105	180377906	1	None	FLJ21458
5	BTNL8	ENSG00000113303	ENST00000400707	protein_coding	NOVEL	CCDS54958	26131	1128	375	180326122	180377661	1	None	FLJ21458
5	BTNL8	ENSG00000113303	ENST00000508408	protein_coding	NOVEL	CCDS54956	26131	1023	340	180326274	180377612	1	None	FLJ21458
5	BTNL8	ENSG00000113303	ENST00000511704	protein_coding	NOVEL	CCDS54957	26131	1155	384	180326274	180377612	1	None	FLJ21458
5	BTNL8	ENSG00000113303	ENST00000505126	protein_coding	PUTATIVE	None	26131	882	293	180336564	180377598	1	None	FLJ21458
5	BTNL8	ENSG00000113303	ENST00000514448	retained_intron	KNOWN	None	26131	None	None	180336573	180375353	1	None	FLJ21458
5	BTNL8	ENSG00000113303	ENST00000513442	retained_intron	KNOWN	None	26131	None	None	180336579	180375921	1	None	FLJ21458
5	BTNL8	ENSG00000113303	ENST00000503543	nonsense_mediated_decay	KNOWN	None	26131	126	41	180338489	180376633	1	None	FLJ21458
5	BTNL8	ENSG00000113303	ENST00000533815	protein_coding	KNOWN	CCDS54959	26131	951	316	180336564	180377904	1	None	FLJ21458
21	None	ENSG00000222018	ENST00000410005	protein_coding	PUTATIVE	None	None	756	251	35772615	35773370	-1	None	None
7	RNU6-337P	ENSG00000212545	ENST00000391243	snRNA	KNOWN	None	47300	None	None	78659556	78659661	1	None	None
7	None	ENSG00000229110	ENST00000440982	processed_pseudogene	KNOWN	None	None	None	None	78754055	78755066	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000257862	ENST00000548037	pseudogene	NOVEL	None	None	None	None	30326212	30326320	-1	None	None
7	RNU6-530P	ENSG00000212482	ENST00000391180	snRNA	KNOWN	None	47493	None	None	78972582	78972688	-1	None	None
16	NME4	ENSG00000103202	ENST00000397722	protein_coding	PUTATIVE	None	7852	354	117	446725	450746	1	None	nm23-H4, NM23H4, NDPKD
16	NME4	ENSG00000103202	ENST00000454619	protein_coding	PUTATIVE	None	7852	111	36	446769	449474	1	None	nm23-H4, NM23H4, NDPKD
16	NME4	ENSG00000103202	ENST00000448828	nonsense_mediated_decay	KNOWN	None	7852	135	44	447199	450734	1	None	nm23-H4, NM23H4, NDPKD
16	NME4	ENSG00000103202	ENST00000444498	nonsense_mediated_decay	KNOWN	None	7852	702	233	447200	460367	1	None	nm23-H4, NM23H4, NDPKD
16	NME4	ENSG00000103202	ENST00000460297	retained_intron	KNOWN	None	7852	None	None	447208	450633	1	None	nm23-H4, NM23H4, NDPKD
16	NME4	ENSG00000103202	ENST00000382940	protein_coding	NOVEL	None	7852	588	195	447209	450506	1	None	nm23-H4, NM23H4, NDPKD
16	NME4	ENSG00000103202	ENST00000219479	protein_coding	KNOWN	CCDS10408	7852	564	187	447209	450759	1	None	nm23-H4, NM23H4, NDPKD
16	NME4	ENSG00000103202	ENST00000433358	protein_coding	PUTATIVE	None	7852	508	168	447237	450648	1	None	nm23-H4, NM23H4, NDPKD
16	NME4	ENSG00000103202	ENST00000450036	protein_coding	PUTATIVE	None	7852	354	117	447742	450416	1	None	nm23-H4, NM23H4, NDPKD
16	NME4	ENSG00000103202	ENST00000468031	retained_intron	KNOWN	None	7852	None	None	448410	450749	1	None	nm23-H4, NM23H4, NDPKD
1	HMCN1	ENSG00000143341	ENST00000271588	protein_coding	KNOWN	CCDS30956	19194	16908	5635	185703683	186160081	1	ARMD1	FBLN6, FIBL6, FIBL-6
1	HMCN1	ENSG00000143341	ENST00000485744	processed_transcript	KNOWN	None	19194	None	None	185926201	185962569	1	ARMD1	FBLN6, FIBL6, FIBL-6
1	HMCN1	ENSG00000143341	ENST00000493413	processed_transcript	KNOWN	None	19194	None	None	185932940	185947277	1	ARMD1	FBLN6, FIBL6, FIBL-6
1	HMCN1	ENSG00000143341	ENST00000475585	processed_transcript	KNOWN	None	19194	None	None	186122958	186141250	1	ARMD1	FBLN6, FIBL6, FIBL-6
1	HMCN1	ENSG00000143341	ENST00000414277	protein_coding	KNOWN	None	19194	720	239	186140519	186158797	1	ARMD1	FBLN6, FIBL6, FIBL-6
1	HMCN1	ENSG00000143341	ENST00000367492	protein_coding	KNOWN	None	19194	16557	5518	185703683	186160085	1	ARMD1	FBLN6, FIBL6, FIBL-6
7	None	ENSG00000222024	ENST00000416738	processed_pseudogene	KNOWN	None	None	None	None	78982726	78983708	1	None	None
HSCHR6_MHC_COX	AGER	ENSG00000234729	ENST00000488823	retained_intron	KNOWN	None	320	None	None	32097222	32097889	-1	None	RAGE
HSCHR6_MHC_COX	AGER	ENSG00000234729	ENST00000460764	retained_intron	KNOWN	None	320	None	None	32097222	32099185	-1	None	RAGE
HSCHR6_MHC_COX	AGER	ENSG00000234729	ENST00000468685	retained_intron	KNOWN	None	320	None	None	32097222	32099185	-1	None	RAGE
HSCHR6_MHC_COX	AGER	ENSG00000234729	ENST00000441180	protein_coding	KNOWN	None	320	1029	342	32097222	32100491	-1	None	RAGE
HSCHR6_MHC_COX	AGER	ENSG00000234729	ENST00000453588	protein_coding	KNOWN	None	320	1044	347	32097222	32100500	-1	None	RAGE
HSCHR6_MHC_COX	AGER	ENSG00000234729	ENST00000490281	retained_intron	KNOWN	None	320	None	None	32097222	32100500	-1	None	RAGE
HSCHR6_MHC_COX	AGER	ENSG00000234729	ENST00000436456	protein_coding	KNOWN	None	320	1215	404	32097222	32100578	-1	None	RAGE
HSCHR6_MHC_COX	AGER	ENSG00000234729	ENST00000455471	protein_coding	KNOWN	None	320	703	233	32099122	32100489	-1	None	RAGE
HSCHR6_MHC_COX	AGER	ENSG00000234729	ENST00000434502	protein_coding	KNOWN	None	320	700	232	32099134	32100491	-1	None	RAGE
HSCHR6_MHC_COX	AGER	ENSG00000234729	ENST00000552991	protein_coding	KNOWN	None	320	462	153	32097376	32100486	-1	None	RAGE
HSCHR6_MHC_COX	AGER	ENSG00000234729	ENST00000552621	protein_coding	KNOWN	None	320	885	294	32097397	32100476	-1	None	RAGE
HSCHR6_MHC_COX	AGER	ENSG00000234729	ENST00000547770	protein_coding	KNOWN	None	320	402	133	32097397	32100476	-1	None	RAGE
HSCHR6_MHC_COX	AGER	ENSG00000234729	ENST00000550562	protein_coding	KNOWN	None	320	1092	363	32097376	32100486	-1	None	RAGE
HSCHR6_MHC_COX	AGER	ENSG00000234729	ENST00000548464	protein_coding	KNOWN	None	320	366	121	32097376	32100486	-1	None	RAGE
HSCHR6_MHC_COX	AGER	ENSG00000234729	ENST00000548959	protein_coding	KNOWN	None	320	387	128	32099663	32100476	-1	None	RAGE
10	PRDX3	ENSG00000165672	ENST00000298510	protein_coding	KNOWN	CCDS7611	9354	771	256	120927222	120938345	-1	AOP1	MER5, AOP-1, SP-22
10	PRDX3	ENSG00000165672	ENST00000494433	processed_transcript	KNOWN	None	9354	None	None	120927581	120930500	-1	AOP1	MER5, AOP-1, SP-22
10	PRDX3	ENSG00000165672	ENST00000463322	processed_transcript	KNOWN	None	9354	None	None	120933257	120934284	-1	AOP1	MER5, AOP-1, SP-22
10	PRDX3	ENSG00000165672	ENST00000356951	protein_coding	KNOWN	CCDS44484	9354	717	238	120927215	120938345	-1	AOP1	MER5, AOP-1, SP-22
20	RPS18P1	ENSG00000225831	ENST00000447840	processed_pseudogene	KNOWN	None	16550	None	None	5513524	5513981	1	None	dJ1022P6.1
20	None	ENSG00000235820	ENST00000413249	antisense	KNOWN	None	None	None	None	5514274	5516535	1	None	None
20	None	ENSG00000233578	ENST00000422311	processed_pseudogene	KNOWN	None	None	None	None	5529486	5530127	1	None	None
7	ADCK2	ENSG00000133597	ENST00000072869	protein_coding	KNOWN	CCDS5861	19039	1881	626	140372953	140394921	1	None	MGC20727
7	ADCK2	ENSG00000133597	ENST00000476491	protein_coding	PUTATIVE	None	19039	1773	590	140372953	140395745	1	None	MGC20727
7	ADCK2	ENSG00000133597	ENST00000483369	protein_coding	PUTATIVE	None	19039	1411	469	140373619	140396061	1	None	MGC20727
7	ADCK2	ENSG00000133597	ENST00000498423	retained_intron	KNOWN	None	19039	None	None	140374284	140386953	1	None	MGC20727
7	ADCK2	ENSG00000133597	ENST00000473512	protein_coding	NOVEL	None	19039	672	223	140378955	140394881	1	None	MGC20727
7	MAGI2-AS3	ENSG00000234456	ENST00000429408	antisense	KNOWN	None	40862	None	None	79082198	79089022	1	None	None
7	MAGI2-AS3	ENSG00000234456	ENST00000426835	antisense	KNOWN	None	40862	None	None	79082427	79100516	1	None	None
7	MAGI2-AS3	ENSG00000234456	ENST00000446159	antisense	KNOWN	None	40862	None	None	79082474	79100512	1	None	None
7	MAGI2-AS3	ENSG00000234456	ENST00000414797	antisense	KNOWN	None	40862	None	None	79083276	79100524	1	None	None
7	MAGI2-AS3	ENSG00000234456	ENST00000422093	antisense	KNOWN	None	40862	None	None	79083308	79089085	1	None	None
7	MAGI2-AS3	ENSG00000234456	ENST00000451809	antisense	KNOWN	None	40862	None	None	79083326	79089028	1	None	None
7	MAGI2-AS3	ENSG00000234456	ENST00000448195	antisense	KNOWN	None	40862	None	None	79083328	79100364	1	None	None
7	MAGI2-AS3	ENSG00000234456	ENST00000424477	antisense	KNOWN	None	40862	None	None	79083331	79088941	1	None	None
7	MAGI2-AS3	ENSG00000234456	ENST00000435749	retained_intron	KNOWN	None	40862	None	None	79084149	79088256	1	None	None
7	MAGI2-AS3	ENSG00000234456	ENST00000448636	antisense	KNOWN	None	40862	None	None	79087967	79089155	1	None	None
7	MAGI2-AS3	ENSG00000234456	ENST00000452320	retained_intron	KNOWN	None	40862	None	None	79088021	79093061	1	None	None
7	MAGI2-AS3	ENSG00000234456	ENST00000442765	retained_intron	KNOWN	None	40862	None	None	79099743	79100524	1	None	None
19	GRWD1	ENSG00000105447	ENST00000253237	protein_coding	KNOWN	CCDS12720	21270	1341	446	48949030	48960279	1	None	WDR28, GRWD, RRB1
19	GRWD1	ENSG00000105447	ENST00000598711	protein_coding	PUTATIVE	None	21270	685	227	48949098	48954459	1	None	WDR28, GRWD, RRB1
19	GRWD1	ENSG00000105447	ENST00000599949	retained_intron	KNOWN	None	21270	None	None	48949249	48949944	1	None	WDR28, GRWD, RRB1
12	TUBA1B	ENSG00000123416	ENST00000336023	protein_coding	KNOWN	CCDS31792	18809	1356	451	49521565	49525178	-1	None	K-ALPHA-1
12	TUBA1B	ENSG00000123416	ENST00000332858	retained_intron	KNOWN	None	18809	None	None	49521569	49525178	-1	None	K-ALPHA-1
12	TUBA1B	ENSG00000123416	ENST00000547765	nonsense_mediated_decay	KNOWN	None	18809	150	49	49521601	49525178	-1	None	K-ALPHA-1
12	TUBA1B	ENSG00000123416	ENST00000550367	protein_coding	NOVEL	None	18809	740	245	49522237	49525178	-1	None	K-ALPHA-1
12	TUBA1B	ENSG00000123416	ENST00000551324	retained_intron	KNOWN	None	18809	None	None	49522764	49525178	-1	None	K-ALPHA-1
12	TUBA1B	ENSG00000123416	ENST00000549870	protein_coding	PUTATIVE	None	18809	244	80	49523051	49523896	-1	None	K-ALPHA-1
12	TUBA1B	ENSG00000123416	ENST00000547476	protein_coding	PUTATIVE	None	18809	226	74	49523069	49525180	-1	None	K-ALPHA-1
12	TUBA1B	ENSG00000123416	ENST00000552984	protein_coding	PUTATIVE	None	18809	148	48	49523147	49525178	-1	None	K-ALPHA-1
20	RNU1-55P	ENSG00000202380	ENST00000365510	snRNA	KNOWN	None	48397	None	None	5870701	5870858	1	None	None
20	None	ENSG00000215589	ENST00000400619	processed_pseudogene	KNOWN	None	None	None	None	5908731	5909964	-1	None	None
11	POU2F3	ENSG00000137709	ENST00000260264	protein_coding	KNOWN	CCDS58190	19864	1317	438	120107349	120190653	1	None	OCT11, PLA-1, Skn-1a, Epoc-1
11	POU2F3	ENSG00000137709	ENST00000543440	protein_coding	KNOWN	CCDS8431	19864	1311	436	120110903	120189592	1	None	OCT11, PLA-1, Skn-1a, Epoc-1
11	POU2F3	ENSG00000137709	ENST00000533620	nonsense_mediated_decay	KNOWN	None	19864	381	126	120110970	120189148	1	None	OCT11, PLA-1, Skn-1a, Epoc-1
11	POU2F3	ENSG00000137709	ENST00000606153	retained_intron	KNOWN	None	19864	None	None	120171612	120175039	1	None	OCT11, PLA-1, Skn-1a, Epoc-1
11	POU2F3	ENSG00000137709	ENST00000532638	retained_intron	KNOWN	None	19864	None	None	120176197	120190040	1	None	OCT11, PLA-1, Skn-1a, Epoc-1
11	POU2F3	ENSG00000137709	ENST00000532663	protein_coding	NOVEL	None	19864	482	159	120176353	120188073	1	None	OCT11, PLA-1, Skn-1a, Epoc-1
11	POU2F3	ENSG00000137709	ENST00000529039	retained_intron	KNOWN	None	19864	None	None	120187875	120189896	1	None	OCT11, PLA-1, Skn-1a, Epoc-1
X	ARX	ENSG00000004848	ENST00000379044	protein_coding	KNOWN	CCDS14215	18060	1689	562	25021811	25034065	-1	MRXS1, PRTS, MRX76, MRX54, MRX43, MRX36, MRX29, MRX32, MRX33, MRX38, MRX87	ISSX, CT121, EIEE1
3	WDR82	ENSG00000164091	ENST00000296490	protein_coding	KNOWN	CCDS2851	28826	942	313	52288437	52312659	-1	TMEM113	PRO2730, MST107, MSTP107, PRO34047, WDR82A, SWD2
3	WDR82	ENSG00000164091	ENST00000487402	retained_intron	KNOWN	None	28826	None	None	52288976	52302154	-1	TMEM113	PRO2730, MST107, MSTP107, PRO34047, WDR82A, SWD2
3	WDR82	ENSG00000164091	ENST00000469000	protein_coding	PUTATIVE	None	28826	224	73	52293866	52312337	-1	TMEM113	PRO2730, MST107, MSTP107, PRO34047, WDR82A, SWD2
3	WDR82	ENSG00000164091	ENST00000463624	protein_coding	PUTATIVE	None	28826	141	46	52294461	52322036	-1	TMEM113	PRO2730, MST107, MSTP107, PRO34047, WDR82A, SWD2
20	None	ENSG00000207380	ENST00000384650	misc_RNA	NOVEL	None	None	None	None	5945184	5945296	1	None	None
20	None	ENSG00000231961	ENST00000421490	processed_pseudogene	KNOWN	None	None	None	None	5945826	5946157	1	None	None
22	PHF21B	ENSG00000056487	ENST00000403565	protein_coding	PUTATIVE	None	25161	984	327	45277042	45404874	-1	PHF4	BHC80L, FLJ34161
22	PHF21B	ENSG00000056487	ENST00000313237	protein_coding	KNOWN	CCDS14061	25161	1596	531	45277042	45405581	-1	PHF4	BHC80L, FLJ34161
22	PHF21B	ENSG00000056487	ENST00000414269	protein_coding	PUTATIVE	None	25161	413	136	45285653	45405880	-1	PHF4	BHC80L, FLJ34161
22	PHF21B	ENSG00000056487	ENST00000420689	protein_coding	PUTATIVE	None	25161	575	190	45309796	45404867	-1	PHF4	BHC80L, FLJ34161
22	PHF21B	ENSG00000056487	ENST00000490679	processed_transcript	KNOWN	None	25161	None	None	45312201	45405202	-1	PHF4	BHC80L, FLJ34161
22	PHF21B	ENSG00000056487	ENST00000460507	processed_transcript	KNOWN	None	25161	None	None	45312335	45364963	-1	PHF4	BHC80L, FLJ34161
22	PHF21B	ENSG00000056487	ENST00000474327	processed_transcript	KNOWN	None	25161	None	None	45312475	45405473	-1	PHF4	BHC80L, FLJ34161
22	PHF21B	ENSG00000056487	ENST00000462631	processed_transcript	KNOWN	None	25161	None	None	45364868	45367350	-1	PHF4	BHC80L, FLJ34161
22	PHF21B	ENSG00000056487	ENST00000495348	processed_transcript	KNOWN	None	25161	None	None	45385002	45405428	-1	PHF4	BHC80L, FLJ34161
22	PHF21B	ENSG00000056487	ENST00000491522	retained_intron	KNOWN	None	25161	None	None	45404034	45405493	-1	PHF4	BHC80L, FLJ34161
22	PHF21B	ENSG00000056487	ENST00000396103	protein_coding	KNOWN	CCDS46727	25161	1470	489	45277045	45405499	-1	PHF4	BHC80L, FLJ34161
22	PHF21B	ENSG00000056487	ENST00000404079	protein_coding	KNOWN	CCDS56234	25161	1434	477	45278761	45404867	-1	PHF4	BHC80L, FLJ34161
22	PHF21B	ENSG00000056487	ENST00000447824	protein_coding	KNOWN	None	25161	873	290	45283924	45404830	-1	PHF4	BHC80L, FLJ34161
20	RN7SL498P	ENSG00000263755	ENST00000583650	misc_RNA	KNOWN	None	46514	None	None	5982379	5982674	1	None	None
7	None	ENSG00000226285	ENST00000416748	processed_pseudogene	KNOWN	None	None	None	None	79173227	79174169	-1	None	None
20	TARDBPP1	ENSG00000233402	ENST00000442013	processed_pseudogene	KNOWN	None	16536	None	None	6181636	6182838	-1	TARDBPL	bA318P23.1
12	CCER1	ENSG00000197651	ENST00000548187	processed_transcript	KNOWN	None	28373	None	None	91299399	91348951	-1	C12orf12	MGC26598
12	CCER1	ENSG00000197651	ENST00000549707	nonsense_mediated_decay	KNOWN	None	28373	175	57	91346272	91347473	-1	C12orf12	MGC26598
12	CCER1	ENSG00000197651	ENST00000358859	protein_coding	KNOWN	CCDS9036	28373	1221	406	91345993	91348953	-1	C12orf12	MGC26598
7	RNA5SP234	ENSG00000200786	ENST00000363916	rRNA	KNOWN	None	43134	None	None	79283425	79283543	1	RN5S234	None
20	None	ENSG00000234241	ENST00000434910	processed_pseudogene	KNOWN	None	None	None	None	6194346	6196028	1	None	None
1	CHIA	ENSG00000134216	ENST00000422815	protein_coding	PUTATIVE	None	17432	1263	420	111833484	111863179	1	None	AMCase, TSA1902, CHIT2
1	CHIA	ENSG00000134216	ENST00000483391	protein_coding	KNOWN	CCDS58017	17432	948	315	111833484	111863179	1	None	AMCase, TSA1902, CHIT2
1	CHIA	ENSG00000134216	ENST00000369740	protein_coding	KNOWN	CCDS41368	17432	1431	476	111833538	111863179	1	None	AMCase, TSA1902, CHIT2
1	CHIA	ENSG00000134216	ENST00000352594	nonsense_mediated_decay	KNOWN	None	17432	306	101	111853067	111863179	1	None	AMCase, TSA1902, CHIT2
1	CHIA	ENSG00000134216	ENST00000477918	retained_intron	KNOWN	None	17432	None	None	111853083	111863184	1	None	AMCase, TSA1902, CHIT2
1	CHIA	ENSG00000134216	ENST00000353665	protein_coding	KNOWN	CCDS58017	17432	948	315	111853087	111863097	1	None	AMCase, TSA1902, CHIT2
1	CHIA	ENSG00000134216	ENST00000489524	protein_coding	KNOWN	None	17432	862	286	111853090	111863002	1	None	AMCase, TSA1902, CHIT2
1	CHIA	ENSG00000134216	ENST00000430615	protein_coding	KNOWN	CCDS832	17432	1107	368	111853099	111863188	1	None	AMCase, TSA1902, CHIT2
1	CHIA	ENSG00000134216	ENST00000343320	protein_coding	KNOWN	CCDS41368	17432	1431	476	111852996	111863185	1	None	AMCase, TSA1902, CHIT2
1	CHIA	ENSG00000134216	ENST00000451398	protein_coding	KNOWN	CCDS58017	17432	948	315	111853067	111863179	1	None	AMCase, TSA1902, CHIT2
6	CDC5L	ENSG00000096401	ENST00000371477	protein_coding	KNOWN	CCDS4912	1743	2409	802	44355262	44418163	1	None	PCDC5RP, hCDC5, CEF1, CDC5
6	FBXO30	ENSG00000118496	ENST00000237281	protein_coding	KNOWN	CCDS5208	15600	2238	745	146114638	146135889	-1	None	MGC21674, Fbx30
7	RNU6-849P	ENSG00000206818	ENST00000384091	snRNA	KNOWN	None	47812	None	None	79541420	79541524	-1	None	None
HSCHR6_MHC_COX	CSNK2B	ENSG00000228875	ENST00000439572	protein_coding	KNOWN	None	2460	705	234	31620429	31625263	1	None	None
HSCHR6_MHC_COX	CSNK2B	ENSG00000228875	ENST00000452985	protein_coding	KNOWN	None	2460	648	215	31621257	31625263	1	None	None
HSCHR6_MHC_COX	CSNK2B	ENSG00000228875	ENST00000465367	retained_intron	KNOWN	None	2460	None	None	31621274	31625536	1	None	None
HSCHR6_MHC_COX	CSNK2B	ENSG00000228875	ENST00000476055	retained_intron	KNOWN	None	2460	None	None	31621280	31623434	1	None	None
HSCHR6_MHC_COX	CSNK2B	ENSG00000228875	ENST00000465631	retained_intron	KNOWN	None	2460	None	None	31621287	31624657	1	None	None
HSCHR6_MHC_COX	CSNK2B	ENSG00000228875	ENST00000488020	processed_transcript	KNOWN	None	2460	None	None	31621291	31625263	1	None	None
HSCHR6_MHC_COX	CSNK2B	ENSG00000228875	ENST00000413083	protein_coding	KNOWN	None	2460	687	228	31621295	31628739	1	None	None
HSCHR6_MHC_COX	CSNK2B	ENSG00000228875	ENST00000418230	protein_coding	KNOWN	None	2460	648	215	31621485	31625263	1	None	None
HSCHR6_MHC_COX	CSNK2B	ENSG00000228875	ENST00000458330	protein_coding	KNOWN	None	2460	648	215	31621548	31625263	1	None	None
X	MAGEB18	ENSG00000176774	ENST00000325250	protein_coding	KNOWN	CCDS14216	28515	1032	343	26156460	26158852	1	None	MGC33889
7	None	ENSG00000230853	ENST00000414541	processed_pseudogene	KNOWN	None	None	None	None	79725916	79726531	-1	None	None
7	RN7SL869P	ENSG00000244392	ENST00000497032	misc_RNA	KNOWN	None	46885	None	None	79875242	79875538	1	None	None
7	None	ENSG00000234223	ENST00000447198	lincRNA	KNOWN	None	None	None	None	79875725	79941772	-1	None	None
13	HMGB1	ENSG00000189403	ENST00000405805	protein_coding	KNOWN	CCDS9335	4983	648	215	31032884	31191734	-1	HMG1	HMG3, SBP-1, DKFZp686A04236
13	HMGB1	ENSG00000189403	ENST00000339872	protein_coding	KNOWN	CCDS9335	4983	648	215	31033987	31038447	-1	HMG1	HMG3, SBP-1, DKFZp686A04236
13	HMGB1	ENSG00000189403	ENST00000341423	protein_coding	KNOWN	CCDS9335	4983	648	215	31033987	31040102	-1	HMG1	HMG3, SBP-1, DKFZp686A04236
13	HMGB1	ENSG00000189403	ENST00000399489	protein_coding	PUTATIVE	None	4983	477	158	31035032	31038384	-1	HMG1	HMG3, SBP-1, DKFZp686A04236
13	HMGB1	ENSG00000189403	ENST00000399494	protein_coding	KNOWN	CCDS9335	4983	648	215	31035044	31039379	-1	HMG1	HMG3, SBP-1, DKFZp686A04236
13	HMGB1	ENSG00000189403	ENST00000326004	protein_coding	PUTATIVE	None	4983	477	158	31035633	31040075	-1	HMG1	HMG3, SBP-1, DKFZp686A04236
13	HMGB1	ENSG00000189403	ENST00000490788	processed_transcript	KNOWN	None	4983	None	None	31036483	31037401	-1	HMG1	HMG3, SBP-1, DKFZp686A04236
13	HMGB1	ENSG00000189403	ENST00000398908	protein_coding	PUTATIVE	None	4983	292	96	31037348	31040651	-1	HMG1	HMG3, SBP-1, DKFZp686A04236
13	HMGB1	ENSG00000189403	ENST00000468384	processed_transcript	KNOWN	None	4983	None	None	31037448	31040051	-1	HMG1	HMG3, SBP-1, DKFZp686A04236
14	None	ENSG00000258572	ENST00000554161	protein_coding	PUTATIVE	None	None	291	96	95982473	95984248	1	None	None
18	SMAD4	ENSG00000141646	ENST00000588860	protein_coding	KNOWN	None	6770	380	125	48554764	48575186	1	MADH4	DPC4
18	SMAD4	ENSG00000141646	ENST00000398417	protein_coding	KNOWN	CCDS11950	6770	1659	552	48555984	48611415	1	MADH4	DPC4
18	SMAD4	ENSG00000141646	ENST00000589076	protein_coding	KNOWN	None	6770	272	89	48556470	48575078	1	MADH4	DPC4
18	SMAD4	ENSG00000141646	ENST00000590061	protein_coding	KNOWN	None	6770	421	139	48556583	48575227	1	MADH4	DPC4
18	SMAD4	ENSG00000141646	ENST00000591914	protein_coding	KNOWN	None	6770	454	150	48556583	48575694	1	MADH4	DPC4
18	SMAD4	ENSG00000141646	ENST00000592911	processed_transcript	KNOWN	None	6770	None	None	48556967	48584524	1	MADH4	DPC4
18	SMAD4	ENSG00000141646	ENST00000589941	protein_coding	KNOWN	None	6770	362	119	48571329	48575168	1	MADH4	DPC4
18	SMAD4	ENSG00000141646	ENST00000588745	protein_coding	NOVEL	None	6770	1371	456	48573417	48604837	1	MADH4	DPC4
18	SMAD4	ENSG00000141646	ENST00000592186	nonsense_mediated_decay	KNOWN	None	6770	963	320	48573417	48604837	1	MADH4	DPC4
18	SMAD4	ENSG00000141646	ENST00000589706	retained_intron	KNOWN	None	6770	None	None	48573549	48575935	1	MADH4	DPC4
18	SMAD4	ENSG00000141646	ENST00000585448	retained_intron	KNOWN	None	6770	None	None	48577463	48581286	1	MADH4	DPC4
18	SMAD4	ENSG00000141646	ENST00000591126	retained_intron	KNOWN	None	6770	None	None	48578696	48606147	1	MADH4	DPC4
18	SMAD4	ENSG00000141646	ENST00000590499	retained_intron	KNOWN	None	6770	None	None	48593192	48603661	1	MADH4	DPC4
18	SMAD4	ENSG00000141646	ENST00000593223	protein_coding	PUTATIVE	None	6770	249	82	48593483	48603500	1	MADH4	DPC4
18	SMAD4	ENSG00000141646	ENST00000586253	processed_transcript	KNOWN	None	6770	None	None	48603621	48605240	1	MADH4	DPC4
18	SMAD4	ENSG00000141646	ENST00000342988	protein_coding	KNOWN	CCDS11950	6770	1659	552	48556583	48611409	1	MADH4	DPC4
18	SMAD4	ENSG00000141646	ENST00000452201	protein_coding	KNOWN	None	6770	534	177	48494410	48584514	1	MADH4	DPC4
1	BAI2	ENSG00000121753	ENST00000465239	processed_transcript	KNOWN	None	944	None	None	32192718	32196906	-1	None	None
1	BAI2	ENSG00000121753	ENST00000398556	protein_coding	PUTATIVE	None	944	4503	1500	32192718	32225024	-1	None	None
1	BAI2	ENSG00000121753	ENST00000398547	protein_coding	NOVEL	None	944	4500	1499	32192718	32229523	-1	None	None
1	BAI2	ENSG00000121753	ENST00000373655	protein_coding	KNOWN	None	944	4755	1584	32192718	32229636	-1	None	None
1	BAI2	ENSG00000121753	ENST00000373658	protein_coding	KNOWN	CCDS346	944	4758	1585	32192718	32229636	-1	None	None
1	BAI2	ENSG00000121753	ENST00000398542	protein_coding	PUTATIVE	None	944	4401	1466	32192718	32229941	-1	None	None
1	BAI2	ENSG00000121753	ENST00000465256	processed_transcript	KNOWN	None	944	None	None	32192719	32202280	-1	None	None
1	BAI2	ENSG00000121753	ENST00000530999	retained_intron	KNOWN	None	944	None	None	32192771	32200948	-1	None	None
1	BAI2	ENSG00000121753	ENST00000525655	retained_intron	KNOWN	None	944	None	None	32192779	32201270	-1	None	None
1	BAI2	ENSG00000121753	ENST00000527361	protein_coding	KNOWN	None	944	4656	1551	32192796	32222860	-1	None	None
1	BAI2	ENSG00000121753	ENST00000398538	protein_coding	NOVEL	None	944	4665	1554	32193012	32222402	-1	None	None
1	BAI2	ENSG00000121753	ENST00000484002	processed_transcript	KNOWN	None	944	None	None	32196819	32202200	-1	None	None
1	BAI2	ENSG00000121753	ENST00000466109	retained_intron	KNOWN	None	944	None	None	32203801	32204811	-1	None	None
1	BAI2	ENSG00000121753	ENST00000420125	protein_coding	NOVEL	None	944	2541	846	32203846	32222416	-1	None	None
1	BAI2	ENSG00000121753	ENST00000530134	processed_transcript	KNOWN	None	944	None	None	32205116	32221865	-1	None	None
1	BAI2	ENSG00000121753	ENST00000533175	protein_coding	PUTATIVE	None	944	1522	506	32207401	32230494	-1	None	None
1	BAI2	ENSG00000121753	ENST00000468430	processed_transcript	KNOWN	None	944	None	None	32207709	32209274	-1	None	None
1	BAI2	ENSG00000121753	ENST00000473952	processed_transcript	KNOWN	None	944	None	None	32207730	32221679	-1	None	None
1	BAI2	ENSG00000121753	ENST00000436464	protein_coding	KNOWN	None	944	5	0	32222818	32226627	-1	None	None
1	BAI2	ENSG00000121753	ENST00000257070	protein_coding	KNOWN	None	944	4656	1551	32192719	32229648	-1	None	None
1	BAI2	ENSG00000121753	ENST00000440175	protein_coding	KNOWN	None	944	3528	1175	32192919	32210333	-1	None	None
19	None	ENSG00000262484	ENST00000571845	protein_coding	PUTATIVE	None	None	369	122	39399620	39401514	-1	None	None
19	None	ENSG00000262484	ENST00000571838	protein_coding	KNOWN	CCDS58661	None	801	266	39399620	39402798	-1	None	None
3	CCDC58	ENSG00000160124	ENST00000291458	protein_coding	KNOWN	CCDS33838	31136	435	144	122078438	122102078	-1	None	FLJ33273
3	CCDC58	ENSG00000160124	ENST00000497726	protein_coding	PUTATIVE	None	31136	162	53	122078447	122102078	-1	None	FLJ33273
3	CCDC58	ENSG00000160124	ENST00000466854	processed_transcript	KNOWN	None	31136	None	None	122078476	122085609	-1	None	FLJ33273
3	CCDC58	ENSG00000160124	ENST00000460810	processed_transcript	KNOWN	None	31136	None	None	122078493	122084421	-1	None	FLJ33273
3	CCDC58	ENSG00000160124	ENST00000479899	protein_coding	PUTATIVE	None	31136	393	130	122078635	122102074	-1	None	FLJ33273
3	CCDC58	ENSG00000160124	ENST00000479414	protein_coding	PUTATIVE	None	31136	424	140	122078709	122091869	-1	None	FLJ33273
3	CCDC58	ENSG00000160124	ENST00000498466	retained_intron	KNOWN	None	31136	None	None	122086671	122102078	-1	None	FLJ33273
7	XRCC2	ENSG00000196584	ENST00000495707	processed_transcript	KNOWN	None	12829	None	None	152341864	152361089	-1	None	None
7	XRCC2	ENSG00000196584	ENST00000359321	protein_coding	KNOWN	CCDS5933	12829	843	280	152343589	152373250	-1	None	None
11	AIP	ENSG00000110711	ENST00000528641	protein_coding	PUTATIVE	None	358	599	198	67250512	67257929	1	None	XAP2, ARA9, FKBP16
11	AIP	ENSG00000110711	ENST00000279146	protein_coding	KNOWN	CCDS8168	358	993	330	67250512	67258574	1	None	XAP2, ARA9, FKBP16
11	AIP	ENSG00000110711	ENST00000529797	protein_coding	PUTATIVE	None	358	691	229	67250520	67257149	1	None	XAP2, ARA9, FKBP16
11	AIP	ENSG00000110711	ENST00000525341	processed_transcript	KNOWN	None	358	None	None	67256807	67258124	1	None	XAP2, ARA9, FKBP16
3	SLC26A6	ENSG00000225697	ENST00000420764	protein_coding	KNOWN	CCDS46825	14472	2277	758	48663156	48672916	-1	None	DKFZp586E1422
3	SLC26A6	ENSG00000225697	ENST00000489483	retained_intron	KNOWN	None	14472	None	None	48663158	48671760	-1	None	DKFZp586E1422
3	SLC26A6	ENSG00000225697	ENST00000395550	protein_coding	KNOWN	CCDS43087	14472	2280	759	48663158	48672874	-1	None	DKFZp586E1422
3	SLC26A6	ENSG00000225697	ENST00000383733	protein_coding	KNOWN	CCDS46824	14472	2223	740	48663158	48672887	-1	None	DKFZp586E1422
3	SLC26A6	ENSG00000225697	ENST00000307364	nonsense_mediated_decay	KNOWN	None	14472	363	120	48663158	48672887	-1	None	DKFZp586E1422
3	SLC26A6	ENSG00000225697	ENST00000337000	protein_coding	NOVEL	None	14472	1956	651	48663158	48672926	-1	None	DKFZp586E1422
3	SLC26A6	ENSG00000225697	ENST00000480524	retained_intron	KNOWN	None	14472	None	None	48663160	48671279	-1	None	DKFZp586E1422
3	SLC26A6	ENSG00000225697	ENST00000455886	protein_coding	NOVEL	None	14472	2172	723	48663179	48672874	-1	None	DKFZp586E1422
3	SLC26A6	ENSG00000225697	ENST00000466257	retained_intron	KNOWN	None	14472	None	None	48664327	48665925	-1	None	DKFZp586E1422
3	SLC26A6	ENSG00000225697	ENST00000462009	retained_intron	KNOWN	None	14472	None	None	48664962	48667188	-1	None	DKFZp586E1422
3	SLC26A6	ENSG00000225697	ENST00000469693	retained_intron	KNOWN	None	14472	None	None	48665602	48667182	-1	None	DKFZp586E1422
3	SLC26A6	ENSG00000225697	ENST00000496469	retained_intron	KNOWN	None	14472	None	None	48665902	48668780	-1	None	DKFZp586E1422
3	SLC26A6	ENSG00000225697	ENST00000421649	protein_coding	PUTATIVE	None	14472	910	302	48667348	48669800	-1	None	DKFZp586E1422
3	SLC26A6	ENSG00000225697	ENST00000444531	nonsense_mediated_decay	KNOWN	None	14472	654	217	48667885	48669770	-1	None	DKFZp586E1422
3	SLC26A6	ENSG00000225697	ENST00000414944	nonsense_mediated_decay	KNOWN	None	14472	583	193	48667896	48669718	-1	None	DKFZp586E1422
3	SLC26A6	ENSG00000225697	ENST00000485361	retained_intron	KNOWN	None	14472	None	None	48668147	48668833	-1	None	DKFZp586E1422
3	SLC26A6	ENSG00000225697	ENST00000494717	retained_intron	KNOWN	None	14472	None	None	48668359	48668725	-1	None	DKFZp586E1422
3	SLC26A6	ENSG00000225697	ENST00000482282	processed_transcript	KNOWN	None	14472	None	None	48669082	48671264	-1	None	DKFZp586E1422
3	SLC26A6	ENSG00000225697	ENST00000431213	nonsense_mediated_decay	KNOWN	None	14472	267	88	48669178	48670813	-1	None	DKFZp586E1422
3	SLC26A6	ENSG00000225697	ENST00000431739	protein_coding	PUTATIVE	None	14472	540	179	48669371	48672874	-1	None	DKFZp586E1422
3	SLC26A6	ENSG00000225697	ENST00000426599	protein_coding	PUTATIVE	None	14472	507	168	48669452	48672874	-1	None	DKFZp586E1422
3	SLC26A6	ENSG00000225697	ENST00000358747	protein_coding	KNOWN	CCDS46826	14472	2217	738	48663158	48671279	-1	None	DKFZp586E1422
11	HRASLS5	ENSG00000168004	ENST00000536887	nonsense_mediated_decay	KNOWN	None	24978	148	48	63228876	63258411	-1	None	HRLP5
11	HRASLS5	ENSG00000168004	ENST00000540857	protein_coding	NOVEL	CCDS53646	24978	810	269	63228886	63258639	-1	None	HRLP5
11	HRASLS5	ENSG00000168004	ENST00000539221	protein_coding	PUTATIVE	CCDS53647	24978	762	253	63230732	63258640	-1	None	HRLP5
11	HRASLS5	ENSG00000168004	ENST00000301790	protein_coding	KNOWN	CCDS8044	24978	840	279	63230809	63258666	-1	None	HRLP5
11	HRASLS5	ENSG00000168004	ENST00000394615	nonsense_mediated_decay	KNOWN	None	24978	114	37	63230948	63258437	-1	None	HRLP5
11	HRASLS5	ENSG00000168004	ENST00000538712	protein_coding	PUTATIVE	None	24978	57	18	63233618	63258004	-1	None	HRLP5
12	HVCN1	ENSG00000122986	ENST00000548312	protein_coding	PUTATIVE	None	28240	768	255	111065646	111127222	-1	None	MGC15619, Hv1, VSOP
12	HVCN1	ENSG00000122986	ENST00000242607	protein_coding	KNOWN	CCDS31900	28240	822	273	111086584	111126962	-1	None	MGC15619, Hv1, VSOP
12	HVCN1	ENSG00000122986	ENST00000356742	protein_coding	KNOWN	CCDS31900	28240	822	273	111086602	111126514	-1	None	MGC15619, Hv1, VSOP
12	HVCN1	ENSG00000122986	ENST00000439744	protein_coding	PUTATIVE	CCDS58278	28240	762	253	111086938	111127583	-1	None	MGC15619, Hv1, VSOP
12	HVCN1	ENSG00000122986	ENST00000549442	protein_coding	PUTATIVE	None	28240	642	213	111089023	111127614	-1	None	MGC15619, Hv1, VSOP
12	HVCN1	ENSG00000122986	ENST00000547887	nonsense_mediated_decay	KNOWN	None	28240	240	79	111089130	111121072	-1	None	MGC15619, Hv1, VSOP
12	HVCN1	ENSG00000122986	ENST00000546713	protein_coding	KNOWN	None	28240	235	77	111099040	111142755	-1	None	MGC15619, Hv1, VSOP
12	HVCN1	ENSG00000122986	ENST00000546425	retained_intron	KNOWN	None	28240	None	None	111120460	111127624	-1	None	MGC15619, Hv1, VSOP
19	GCDH	ENSG00000105607	ENST00000222214	protein_coding	KNOWN	CCDS12286	4189	1317	438	13001840	13010783	1	None	ACAD5
19	GCDH	ENSG00000105607	ENST00000589039	protein_coding	PUTATIVE	None	4189	446	147	13001974	13006809	1	None	ACAD5
19	GCDH	ENSG00000105607	ENST00000421816	retained_intron	KNOWN	None	4189	None	None	13001974	13008291	1	None	ACAD5
19	GCDH	ENSG00000105607	ENST00000591470	protein_coding	KNOWN	CCDS12286	4189	1317	438	13001974	13010760	1	None	ACAD5
19	GCDH	ENSG00000105607	ENST00000590445	nonsense_mediated_decay	KNOWN	None	4189	261	86	13001978	13002943	1	None	ACAD5
19	GCDH	ENSG00000105607	ENST00000590530	nonsense_mediated_decay	KNOWN	None	4189	615	204	13001980	13010783	1	None	ACAD5
19	GCDH	ENSG00000105607	ENST00000588905	protein_coding	PUTATIVE	None	4189	493	163	13001982	13006829	1	None	ACAD5
19	GCDH	ENSG00000105607	ENST00000587072	protein_coding	PUTATIVE	None	4189	393	130	13001991	13004307	1	None	ACAD5
19	GCDH	ENSG00000105607	ENST00000590627	retained_intron	KNOWN	None	4189	None	None	13001994	13004648	1	None	ACAD5
19	GCDH	ENSG00000105607	ENST00000587832	retained_intron	KNOWN	None	4189	None	None	13001994	13004696	1	None	ACAD5
19	GCDH	ENSG00000105607	ENST00000585420	retained_intron	KNOWN	None	4189	None	None	13001994	13010438	1	None	ACAD5
19	GCDH	ENSG00000105607	ENST00000585760	retained_intron	KNOWN	None	4189	None	None	13002083	13003097	1	None	ACAD5
19	GCDH	ENSG00000105607	ENST00000591043	retained_intron	KNOWN	None	4189	None	None	13002083	13010492	1	None	ACAD5
19	GCDH	ENSG00000105607	ENST00000590472	protein_coding	PUTATIVE	None	4189	349	115	13007825	13009197	1	None	ACAD5
19	GCDH	ENSG00000105607	ENST00000591050	protein_coding	PUTATIVE	None	4189	308	101	13008194	13025021	1	None	ACAD5
19	GCDH	ENSG00000105607	ENST00000588242	processed_transcript	KNOWN	None	4189	None	None	13010385	13011484	1	None	ACAD5
19	GCDH	ENSG00000105607	ENST00000457854	protein_coding	KNOWN	None	4189	1287	428	13001974	13010782	1	None	ACAD5
19	GCDH	ENSG00000105607	ENST00000422947	protein_coding	KNOWN	None	4189	1185	394	13001980	13010783	1	None	ACAD5
15	AQR	ENSG00000021776	ENST00000156471	protein_coding	KNOWN	CCDS42013	29513	4458	1485	35147732	35262040	-1	None	KIAA0560, fSAP164, IBP160
15	AQR	ENSG00000021776	ENST00000543879	nonsense_mediated_decay	KNOWN	None	29513	1941	646	35148552	35261934	-1	None	KIAA0560, fSAP164, IBP160
15	AQR	ENSG00000021776	ENST00000559090	retained_intron	KNOWN	None	29513	None	None	35148701	35162465	-1	None	KIAA0560, fSAP164, IBP160
15	AQR	ENSG00000021776	ENST00000559767	retained_intron	KNOWN	None	29513	None	None	35149028	35155425	-1	None	KIAA0560, fSAP164, IBP160
15	AQR	ENSG00000021776	ENST00000560117	protein_coding	PUTATIVE	None	29513	542	179	35236505	35256654	-1	None	KIAA0560, fSAP164, IBP160
15	AQR	ENSG00000021776	ENST00000558202	retained_intron	KNOWN	None	29513	None	None	35240335	35256603	-1	None	KIAA0560, fSAP164, IBP160
HSCHR6_MHC_MANN	None	ENSG00000257215	ENST00000552607	protein_coding	NOVEL	None	None	120	39	31183305	31199405	1	None	None
9	NELFB	ENSG00000188986	ENST00000343053	protein_coding	KNOWN	CCDS7040	24324	1743	580	140149625	140167998	1	COBRA1	KIAA1182, NELF-B
2	RTN4	ENSG00000115310	ENST00000394609	protein_coding	KNOWN	CCDS42685	14085	600	199	55199325	55237585	-1	None	NSP-CL, KIAA0886, NOGO, ASY
2	RTN4	ENSG00000115310	ENST00000405240	protein_coding	KNOWN	CCDS1852	14085	2961	986	55199325	55274022	-1	None	NSP-CL, KIAA0886, NOGO, ASY
2	RTN4	ENSG00000115310	ENST00000357376	protein_coding	KNOWN	CCDS1852	14085	2961	986	55199325	55276334	-1	None	NSP-CL, KIAA0886, NOGO, ASY
2	RTN4	ENSG00000115310	ENST00000337526	protein_coding	KNOWN	CCDS42684	14085	3579	1192	55199325	55277680	-1	None	NSP-CL, KIAA0886, NOGO, ASY
2	RTN4	ENSG00000115310	ENST00000317610	protein_coding	KNOWN	CCDS1851	14085	1122	373	55199325	55277680	-1	None	NSP-CL, KIAA0886, NOGO, ASY
2	RTN4	ENSG00000115310	ENST00000357732	protein_coding	NOVEL	CCDS42683	14085	1179	392	55199325	55277680	-1	None	NSP-CL, KIAA0886, NOGO, ASY
2	RTN4	ENSG00000115310	ENST00000394611	protein_coding	KNOWN	CCDS1852	14085	2961	986	55199325	55277734	-1	None	NSP-CL, KIAA0886, NOGO, ASY
2	RTN4	ENSG00000115310	ENST00000404909	protein_coding	KNOWN	CCDS1852	14085	2961	986	55199325	55277964	-1	None	NSP-CL, KIAA0886, NOGO, ASY
2	RTN4	ENSG00000115310	ENST00000486085	processed_transcript	KNOWN	None	14085	None	None	55199721	55214769	-1	None	NSP-CL, KIAA0886, NOGO, ASY
2	RTN4	ENSG00000115310	ENST00000491592	processed_transcript	KNOWN	None	14085	None	None	55199932	55201155	-1	None	NSP-CL, KIAA0886, NOGO, ASY
2	RTN4	ENSG00000115310	ENST00000485749	processed_transcript	KNOWN	None	14085	None	None	55199933	55201327	-1	None	NSP-CL, KIAA0886, NOGO, ASY
2	RTN4	ENSG00000115310	ENST00000438462	protein_coding	PUTATIVE	None	14085	610	202	55200649	55276776	-1	None	NSP-CL, KIAA0886, NOGO, ASY
2	RTN4	ENSG00000115310	ENST00000427710	protein_coding	KNOWN	None	14085	274	90	55254343	55339757	-1	None	NSP-CL, KIAA0886, NOGO, ASY
2	RTN4	ENSG00000115310	ENST00000461004	processed_transcript	KNOWN	None	14085	None	None	55283619	55339703	-1	None	NSP-CL, KIAA0886, NOGO, ASY
2	RTN4	ENSG00000115310	ENST00000402434	protein_coding	KNOWN	None	14085	1038	345	55199950	55277512	-1	None	NSP-CL, KIAA0886, NOGO, ASY
2	RTN4	ENSG00000115310	ENST00000354474	protein_coding	KNOWN	None	14085	2883	960	55199950	55277436	-1	None	NSP-CL, KIAA0886, NOGO, ASY
12	GLT1D1	ENSG00000151948	ENST00000441390	nonsense_mediated_decay	KNOWN	None	26483	459	152	129337972	129469501	1	None	FLJ31978
12	GLT1D1	ENSG00000151948	ENST00000442111	protein_coding	KNOWN	None	26483	1041	346	129338039	129469501	1	None	FLJ31978
12	GLT1D1	ENSG00000151948	ENST00000281703	protein_coding	KNOWN	CCDS9265	26483	801	266	129338081	129469509	1	None	FLJ31978
12	GLT1D1	ENSG00000151948	ENST00000539044	nonsense_mediated_decay	KNOWN	None	26483	458	151	129338127	129415006	1	None	FLJ31978
12	GLT1D1	ENSG00000151948	ENST00000413816	nonsense_mediated_decay	KNOWN	None	26483	363	120	129338148	129468845	1	None	FLJ31978
12	GLT1D1	ENSG00000151948	ENST00000537468	protein_coding	PUTATIVE	None	26483	1056	351	129348681	129468284	1	None	FLJ31978
12	GLT1D1	ENSG00000151948	ENST00000542193	protein_coding	KNOWN	None	26483	792	263	129348681	129468284	1	None	FLJ31978
19	KCNJ14	ENSG00000182324	ENST00000342291	protein_coding	KNOWN	CCDS12721	6260	1311	436	48958766	48969278	1	None	Kir2.4, IRK4
19	KCNJ14	ENSG00000182324	ENST00000391884	protein_coding	KNOWN	CCDS12721	6260	1311	436	48964506	48969367	1	None	Kir2.4, IRK4
13	SCEL	ENSG00000136155	ENST00000471491	nonsense_mediated_decay	KNOWN	None	10573	852	283	78109859	78187075	1	None	FLJ21667, MGC22531
13	SCEL	ENSG00000136155	ENST00000377246	protein_coding	KNOWN	CCDS9458	10573	2007	668	78109894	78219398	1	None	FLJ21667, MGC22531
13	SCEL	ENSG00000136155	ENST00000349847	protein_coding	KNOWN	CCDS9459	10573	2067	688	78109895	78218644	1	None	FLJ21667, MGC22531
13	SCEL	ENSG00000136155	ENST00000469982	processed_transcript	KNOWN	None	10573	None	None	78171163	78191776	1	None	FLJ21667, MGC22531
13	SCEL	ENSG00000136155	ENST00000535157	protein_coding	KNOWN	CCDS53877	10573	1941	646	78109809	78219394	1	None	FLJ21667, MGC22531
HSCHR6_MHC_SSTO	SYNGAP1	ENSG00000227460	ENST00000461459	processed_transcript	PUTATIVE	None	11497	None	None	33527235	33546274	1	None	SYNGAP, RASA5, KIAA1938
HSCHR6_MHC_SSTO	SYNGAP1	ENSG00000227460	ENST00000455687	protein_coding	KNOWN	None	11497	4032	1343	33527329	33560852	1	None	SYNGAP, RASA5, KIAA1938
HSCHR6_MHC_SSTO	SYNGAP1	ENSG00000227460	ENST00000395071	protein_coding	KNOWN	None	11497	3900	1299	33527430	33559558	1	None	SYNGAP, RASA5, KIAA1938
HSCHR6_MHC_SSTO	SYNGAP1	ENSG00000227460	ENST00000414753	protein_coding	KNOWN	None	11497	3855	1284	33538896	33559373	1	None	SYNGAP, RASA5, KIAA1938
HSCHR6_MHC_SSTO	SYNGAP1	ENSG00000227460	ENST00000490978	processed_transcript	PUTATIVE	None	11497	None	None	33545637	33547740	1	None	SYNGAP, RASA5, KIAA1938
HSCHR6_MHC_SSTO	SYNGAP1	ENSG00000227460	ENST00000355818	protein_coding	KNOWN	None	11497	1461	486	33548351	33551629	1	None	SYNGAP, RASA5, KIAA1938
HSCHR6_MHC_SSTO	SYNGAP1	ENSG00000227460	ENST00000484671	processed_transcript	PUTATIVE	None	11497	None	None	33553827	33556216	1	None	SYNGAP, RASA5, KIAA1938
HSCHR6_MHC_SSTO	SYNGAP1	ENSG00000227460	ENST00000481000	retained_intron	KNOWN	None	11497	None	None	33553874	33555323	1	None	SYNGAP, RASA5, KIAA1938
HSCHR6_MHC_SSTO	SYNGAP1	ENSG00000227460	ENST00000551507	protein_coding	KNOWN	None	11497	3900	1299	33527235	33555966	1	None	SYNGAP, RASA5, KIAA1938
HSCHR6_MHC_DBB	None	ENSG00000258110	ENST00000551575	pseudogene	NOVEL	None	None	None	None	30340558	30340642	-1	None	None
19	CCDC97	ENSG00000142039	ENST00000269967	protein_coding	KNOWN	CCDS12578	28289	1032	343	41816094	41830788	1	None	FLJ40267, MGC20255
19	CCDC97	ENSG00000142039	ENST00000596882	protein_coding	PUTATIVE	None	28289	49	15	41816706	41822486	1	None	FLJ40267, MGC20255
19	CCDC97	ENSG00000142039	ENST00000600918	protein_coding	PUTATIVE	None	28289	464	153	41825638	41826659	1	None	FLJ40267, MGC20255
6	DDR1	ENSG00000204580	ENST00000502955	protein_coding	KNOWN	None	2730	165	54	30844198	30856764	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000505066	protein_coding	KNOWN	None	2730	398	131	30844221	30857188	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000460944	protein_coding	KNOWN	None	2730	860	285	30848557	30860080	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000324771	protein_coding	KNOWN	CCDS34385	2730	2742	913	30848626	30867931	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000505534	protein_coding	KNOWN	None	2730	302	99	30848747	30857092	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000513749	nonsense_mediated_decay	KNOWN	None	2730	108	35	30848764	30858764	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000503180	protein_coding	KNOWN	None	2730	154	50	30848812	30856753	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000508317	protein_coding	KNOWN	None	2730	380	125	30848843	30857170	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000482050	processed_transcript	KNOWN	None	2730	None	None	30849072	30852484	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000418800	protein_coding	KNOWN	CCDS4690	2730	2631	876	30850390	30867617	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000509639	protein_coding	KNOWN	None	2730	344	113	30850705	30857134	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000515529	processed_transcript	KNOWN	None	2730	None	None	30850711	30852604	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000412274	protein_coding	KNOWN	None	2730	175	57	30850711	30856774	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000507901	protein_coding	KNOWN	None	2730	234	77	30850711	30857024	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000507046	protein_coding	KNOWN	None	2730	210	69	30850732	30857000	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000437124	protein_coding	KNOWN	None	2730	460	152	30850732	30858792	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000454612	protein_coding	KNOWN	CCDS4690	2730	2631	876	30850732	30867933	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000396342	protein_coding	KNOWN	None	2730	443	146	30850753	30858775	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000504651	protein_coding	KNOWN	None	2730	219	72	30850862	30857009	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000512694	protein_coding	KNOWN	None	2730	510	169	30850948	30858842	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000503628	nonsense_mediated_decay	KNOWN	None	2730	108	35	30850958	30858828	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000515233	protein_coding	KNOWN	None	2730	415	137	30850978	30857205	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000506573	processed_transcript	KNOWN	None	2730	None	None	30851178	30851855	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000515881	protein_coding	KNOWN	None	2730	256	84	30851222	30857046	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000513043	protein_coding	KNOWN	None	2730	154	50	30851486	30856753	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000511510	protein_coding	KNOWN	None	2730	428	141	30851846	30858760	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000376569	protein_coding	KNOWN	CCDS4690	2730	2631	876	30851846	30867933	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000504927	protein_coding	KNOWN	None	2730	481	159	30851881	30858813	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000428153	protein_coding	KNOWN	None	2730	801	266	30852130	30859914	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000376568	protein_coding	KNOWN	CCDS34385	2730	2742	913	30852235	30867930	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000513243	retained_intron	KNOWN	None	2730	None	None	30852324	30856984	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000515219	protein_coding	PUTATIVE	None	2730	208	68	30852328	30859795	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000482873	nonsense_mediated_decay	KNOWN	None	2730	732	243	30852333	30867018	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000504152	retained_intron	KNOWN	None	2730	None	None	30852428	30857192	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000508312	protein_coding	PUTATIVE	CCDS56411	2730	2685	894	30852745	30867209	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000512336	protein_coding	KNOWN	None	2730	336	111	30852757	30857126	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000421124	protein_coding	KNOWN	None	2730	628	208	30853002	30859219	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000512725	protein_coding	KNOWN	None	2730	416	137	30853085	30857206	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000504679	protein_coding	KNOWN	None	2730	367	121	30853490	30857157	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000503495	protein_coding	PUTATIVE	None	2730	589	195	30853506	30858843	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000431373	retained_intron	KNOWN	None	2730	None	None	30853524	30859111	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000503670	protein_coding	KNOWN	None	2730	125	40	30854436	30856724	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000376567	protein_coding	KNOWN	CCDS4690	2730	2631	876	30856166	30867933	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000513240	protein_coding	PUTATIVE	CCDS47396	2730	2760	919	30856507	30867195	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000424544	protein_coding	NOVEL	None	2730	587	194	30856527	30859228	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000508472	processed_transcript	KNOWN	None	2730	None	None	30858185	30860091	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000507533	retained_intron	KNOWN	None	2730	None	None	30858537	30859862	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000485023	retained_intron	KNOWN	None	2730	None	None	30858919	30859955	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000417521	protein_coding	NOVEL	None	2730	1479	492	30859204	30865916	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000514534	retained_intron	KNOWN	None	2730	None	None	30860397	30861070	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000465966	processed_transcript	KNOWN	None	2730	None	None	30861132	30864823	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000513514	processed_transcript	KNOWN	None	2730	None	None	30861132	30864823	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000514434	protein_coding	NOVEL	None	2730	514	170	30862351	30865180	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000484556	protein_coding	PUTATIVE	None	2730	833	276	30864852	30867181	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000376575	protein_coding	KNOWN	CCDS47396	2730	2760	919	30851861	30867929	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000376570	protein_coding	KNOWN	CCDS4690	2730	2631	876	30851861	30867929	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000452441	protein_coding	KNOWN	CCDS34385	2730	2742	913	30852327	30867929	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000446312	protein_coding	KNOWN	None	2730	732	243	30851861	30867929	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
6	DDR1	ENSG00000204580	ENST00000361741	protein_coding	KNOWN	None	2730	1326	441	30859204	30867931	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
21	None	ENSG00000243627	ENST00000450895	protein_coding	PUTATIVE	None	None	420	139	35791013	35796264	-1	None	None
14	GLRX5	ENSG00000182512	ENST00000553672	processed_transcript	KNOWN	None	20134	None	None	95999840	96010894	1	C14orf87	PR01238, GRX5
14	GLRX5	ENSG00000182512	ENST00000331334	protein_coding	KNOWN	CCDS9936	20134	474	157	96000930	96011055	1	C14orf87	PR01238, GRX5
14	GLRX5	ENSG00000182512	ENST00000557731	protein_coding	PUTATIVE	None	20134	412	136	96001611	96011061	1	C14orf87	PR01238, GRX5
18	MEX3C	ENSG00000176624	ENST00000406189	protein_coding	KNOWN	CCDS11951	28040	1980	659	48700920	48723690	-1	RKHD2	FLJ38871, RNF194
18	MEX3C	ENSG00000176624	ENST00000591040	processed_transcript	KNOWN	None	28040	None	None	48703191	48744674	-1	RKHD2	FLJ38871, RNF194
18	MEX3C	ENSG00000176624	ENST00000592416	protein_coding	PUTATIVE	None	28040	348	115	48719280	48723129	-1	RKHD2	FLJ38871, RNF194
HSCHR6_MHC_DBB	None	ENSG00000257369	ENST00000549160	pseudogene	NOVEL	None	None	None	None	30350525	30350612	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000257485	ENST00000546635	pseudogene	NOVEL	None	None	None	None	30351040	30351127	-1	None	None
16	FOXC2	ENSG00000176692	ENST00000320354	protein_coding	KNOWN	CCDS10958	3801	1506	501	86600857	86602539	1	FKHL14	MFH-1
7	ACTR3B	ENSG00000133627	ENST00000377776	protein_coding	KNOWN	CCDS34782	17256	1047	348	152456834	152552023	1	None	ARP11, ARP3beta
7	ACTR3B	ENSG00000133627	ENST00000256001	protein_coding	KNOWN	CCDS5934	17256	1257	418	152456834	152552463	1	None	ARP11, ARP3beta
7	ACTR3B	ENSG00000133627	ENST00000397282	protein_coding	PUTATIVE	None	17256	993	330	152456873	152552034	1	None	ARP11, ARP3beta
7	ACTR3B	ENSG00000133627	ENST00000488782	processed_transcript	KNOWN	None	17256	None	None	152497708	152513607	1	None	ARP11, ARP3beta
7	ACTR3B	ENSG00000133627	ENST00000479402	retained_intron	KNOWN	None	17256	None	None	152507827	152552456	1	None	ARP11, ARP3beta
7	ACTR3B	ENSG00000133627	ENST00000537264	protein_coding	KNOWN	None	17256	993	330	152456914	152551973	1	None	ARP11, ARP3beta
8	GINS4	ENSG00000147536	ENST00000520354	nonsense_mediated_decay	KNOWN	None	28226	315	104	41386737	41399758	1	None	MGC14799, SLD5
8	GINS4	ENSG00000147536	ENST00000520710	protein_coding	KNOWN	None	28226	303	100	41386740	41395555	1	None	MGC14799, SLD5
8	GINS4	ENSG00000147536	ENST00000520631	retained_intron	KNOWN	None	28226	None	None	41386746	41394820	1	None	MGC14799, SLD5
8	GINS4	ENSG00000147536	ENST00000520736	retained_intron	KNOWN	None	28226	None	None	41386749	41393971	1	None	MGC14799, SLD5
8	GINS4	ENSG00000147536	ENST00000518671	protein_coding	KNOWN	CCDS6116	28226	672	223	41386756	41399921	1	None	MGC14799, SLD5
8	GINS4	ENSG00000147536	ENST00000523277	protein_coding	PUTATIVE	None	28226	579	192	41386768	41402549	1	None	MGC14799, SLD5
8	GINS4	ENSG00000147536	ENST00000522642	retained_intron	KNOWN	None	28226	None	None	41393877	41397523	1	None	MGC14799, SLD5
8	GINS4	ENSG00000147536	ENST00000518430	retained_intron	KNOWN	None	28226	None	None	41399323	41399928	1	None	MGC14799, SLD5
8	GINS4	ENSG00000147536	ENST00000276533	protein_coding	KNOWN	CCDS6116	28226	672	223	41386725	41402565	1	None	MGC14799, SLD5
12	CLECL1	ENSG00000184293	ENST00000540988	protein_coding	PUTATIVE	None	24462	108	35	9868456	9875257	-1	None	DCAL1
12	CLECL1	ENSG00000184293	ENST00000542530	protein_coding	PUTATIVE	None	24462	359	118	9869157	9885715	-1	None	DCAL1
12	CLECL1	ENSG00000184293	ENST00000327839	protein_coding	KNOWN	CCDS8603	24462	504	167	9875091	9885895	-1	None	DCAL1
16	FOXL1	ENSG00000176678	ENST00000593625	protein_coding	KNOWN	None	3817	343	113	86609974	86612672	1	FKHL11	FREAC7, FKH6
16	FOXL1	ENSG00000176678	ENST00000320241	protein_coding	KNOWN	CCDS10959	3817	1038	345	86612115	86615303	1	FKHL11	FREAC7, FKH6
21	KCNE1	ENSG00000180509	ENST00000399289	protein_coding	KNOWN	CCDS13636	6240	390	129	35818988	35831902	-1	None	minK, ISK, JLNS2, LQT5
21	KCNE1	ENSG00000180509	ENST00000399286	protein_coding	KNOWN	CCDS13636	6240	390	129	35821354	35884573	-1	None	minK, ISK, JLNS2, LQT5
21	KCNE1	ENSG00000180509	ENST00000416357	protein_coding	KNOWN	CCDS13636	6240	390	129	35821543	35828039	-1	None	minK, ISK, JLNS2, LQT5
21	KCNE1	ENSG00000180509	ENST00000399284	protein_coding	KNOWN	CCDS13636	6240	390	129	35821543	35883541	-1	None	minK, ISK, JLNS2, LQT5
21	KCNE1	ENSG00000180509	ENST00000489175	processed_transcript	KNOWN	None	6240	None	None	35881754	35884505	-1	None	minK, ISK, JLNS2, LQT5
21	KCNE1	ENSG00000180509	ENST00000337385	protein_coding	KNOWN	CCDS13636	6240	390	129	35818989	35883613	-1	None	minK, ISK, JLNS2, LQT5
21	KCNE1	ENSG00000180509	ENST00000432085	protein_coding	KNOWN	CCDS13636	6240	390	129	35818989	35831902	-1	None	minK, ISK, JLNS2, LQT5
1	PIFO	ENSG00000173947	ENST00000369738	protein_coding	KNOWN	CCDS833	27009	576	191	111888910	111895635	1	C1orf88	FLJ23853, pitchfork
1	PIFO	ENSG00000173947	ENST00000484512	processed_transcript	KNOWN	None	27009	None	None	111889222	111895635	1	C1orf88	FLJ23853, pitchfork
1	PIFO	ENSG00000173947	ENST00000369737	protein_coding	KNOWN	None	27009	477	158	111889242	111894185	1	C1orf88	FLJ23853, pitchfork
1	PIFO	ENSG00000173947	ENST00000468395	processed_transcript	KNOWN	None	27009	None	None	111890963	111894135	1	C1orf88	FLJ23853, pitchfork
16	C16orf95	ENSG00000260456	ENST00000562840	processed_transcript	KNOWN	None	40033	None	None	87117168	87336368	-1	None	None
16	C16orf95	ENSG00000260456	ENST00000564821	processed_transcript	KNOWN	None	40033	None	None	87326617	87336679	-1	None	None
16	C16orf95	ENSG00000260456	ENST00000565212	processed_transcript	KNOWN	None	40033	None	None	87336420	87339731	-1	None	None
16	C16orf95	ENSG00000260456	ENST00000253461	protein_coding	KNOWN	CCDS54049	40033	477	158	87336420	87351022	-1	None	None
16	C16orf95	ENSG00000260456	ENST00000567970	protein_coding	KNOWN	CCDS58491	40033	720	239	87336490	87350986	-1	None	None
4	DCAF16	ENSG00000163257	ENST00000382247	protein_coding	KNOWN	CCDS3423	25987	651	216	17802278	17812381	-1	C4orf30	FLJ20280
4	DCAF16	ENSG00000163257	ENST00000507768	processed_transcript	KNOWN	None	25987	None	None	17805935	17812381	-1	C4orf30	FLJ20280
4	DCAF16	ENSG00000163257	ENST00000507731	processed_transcript	KNOWN	None	25987	None	None	17811048	17812334	-1	C4orf30	FLJ20280
4	DCAF16	ENSG00000163257	ENST00000536863	protein_coding	KNOWN	CCDS3423	25987	651	216	17802772	17812381	-1	C4orf30	FLJ20280
8	RUNX1T1	ENSG00000079102	ENST00000523629	protein_coding	KNOWN	CCDS6256	1535	1815	604	92967203	93115454	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
8	RUNX1T1	ENSG00000079102	ENST00000396218	protein_coding	KNOWN	CCDS47891	1535	1734	577	92971152	93075191	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
8	RUNX1T1	ENSG00000079102	ENST00000360348	protein_coding	KNOWN	CCDS6257	1535	1704	567	92972015	93107443	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
8	RUNX1T1	ENSG00000079102	ENST00000422361	protein_coding	KNOWN	CCDS6257	1535	1704	567	92972021	93029865	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
8	RUNX1T1	ENSG00000079102	ENST00000520724	protein_coding	KNOWN	CCDS6257	1535	1704	567	92972359	93107839	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
8	RUNX1T1	ENSG00000079102	ENST00000521078	retained_intron	KNOWN	None	1535	None	None	92972468	92983388	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
8	RUNX1T1	ENSG00000079102	ENST00000518844	protein_coding	KNOWN	CCDS47891	1535	1734	577	92972470	93107841	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
8	RUNX1T1	ENSG00000079102	ENST00000521751	nonsense_mediated_decay	KNOWN	None	1535	383	126	92972669	93003956	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
8	RUNX1T1	ENSG00000079102	ENST00000520978	nonsense_mediated_decay	KNOWN	None	1535	92	29	92982999	93017402	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
8	RUNX1T1	ENSG00000079102	ENST00000518361	nonsense_mediated_decay	KNOWN	None	1535	96	31	92999145	93017388	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
8	RUNX1T1	ENSG00000079102	ENST00000520047	retained_intron	KNOWN	None	1535	None	None	93003899	93018996	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
8	RUNX1T1	ENSG00000079102	ENST00000521553	protein_coding	PUTATIVE	None	1535	633	210	93016650	93029591	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
8	RUNX1T1	ENSG00000079102	ENST00000522316	processed_transcript	PUTATIVE	None	1535	None	None	93017394	93115456	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
8	RUNX1T1	ENSG00000079102	ENST00000518992	protein_coding	KNOWN	None	1535	688	228	93017396	93107458	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
8	RUNX1T1	ENSG00000079102	ENST00000521054	protein_coding	KNOWN	None	1535	514	170	93017459	93031403	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
8	RUNX1T1	ENSG00000079102	ENST00000523290	retained_intron	KNOWN	None	1535	None	None	93021874	93107490	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
8	RUNX1T1	ENSG00000079102	ENST00000519847	protein_coding	KNOWN	None	1535	507	168	93023281	93107882	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
8	RUNX1T1	ENSG00000079102	ENST00000517792	protein_coding	KNOWN	None	1535	361	119	93023316	93083615	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
8	RUNX1T1	ENSG00000079102	ENST00000522467	protein_coding	KNOWN	None	1535	468	155	93026807	93111884	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
8	RUNX1T1	ENSG00000079102	ENST00000517919	protein_coding	KNOWN	None	1535	406	134	93026869	93107865	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
8	RUNX1T1	ENSG00000079102	ENST00000521733	protein_coding	KNOWN	None	1535	305	100	93026889	93075851	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
8	RUNX1T1	ENSG00000079102	ENST00000520556	protein_coding	KNOWN	None	1535	275	90	93026889	93107463	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
8	RUNX1T1	ENSG00000079102	ENST00000521319	protein_coding	KNOWN	None	1535	266	87	93026898	93107464	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
8	RUNX1T1	ENSG00000079102	ENST00000520583	protein_coding	KNOWN	None	1535	361	119	93026914	93107706	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
8	RUNX1T1	ENSG00000079102	ENST00000523168	protein_coding	KNOWN	None	1535	359	118	93026916	93111916	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
8	RUNX1T1	ENSG00000079102	ENST00000519577	nonsense_mediated_decay	KNOWN	None	1535	111	36	93026953	93115135	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
8	RUNX1T1	ENSG00000079102	ENST00000518823	protein_coding	KNOWN	None	1535	238	78	93026956	93107644	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
8	RUNX1T1	ENSG00000079102	ENST00000521897	nonsense_mediated_decay	KNOWN	None	1535	111	36	93026975	93107678	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
8	RUNX1T1	ENSG00000079102	ENST00000518317	protein_coding	KNOWN	None	1535	209	68	93026985	93107463	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
8	RUNX1T1	ENSG00000079102	ENST00000521375	protein_coding	KNOWN	None	1535	281	92	93026994	93107485	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
8	RUNX1T1	ENSG00000079102	ENST00000519422	nonsense_mediated_decay	KNOWN	None	1535	111	36	93026994	93107710	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
8	RUNX1T1	ENSG00000079102	ENST00000524215	nonsense_mediated_decay	KNOWN	None	1535	207	68	93027016	93115141	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
8	RUNX1T1	ENSG00000079102	ENST00000520974	protein_coding	KNOWN	None	1535	255	84	93027020	93107738	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
8	RUNX1T1	ENSG00000079102	ENST00000518832	protein_coding	KNOWN	None	1535	138	45	93027026	93115514	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
8	RUNX1T1	ENSG00000079102	ENST00000520172	processed_transcript	KNOWN	None	1535	None	None	93029476	93107458	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
8	RUNX1T1	ENSG00000079102	ENST00000517493	nonsense_mediated_decay	KNOWN	None	1535	207	68	93029491	93107700	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
8	RUNX1T1	ENSG00000079102	ENST00000522065	processed_transcript	PUTATIVE	None	1535	None	None	93029494	93107458	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
8	RUNX1T1	ENSG00000079102	ENST00000518954	protein_coding	KNOWN	None	1535	162	53	93029518	93107671	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
8	RUNX1T1	ENSG00000079102	ENST00000519061	protein_coding	KNOWN	None	1535	78	25	93029521	93107710	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
8	RUNX1T1	ENSG00000079102	ENST00000518256	processed_transcript	KNOWN	None	1535	None	None	93029532	93107457	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
8	RUNX1T1	ENSG00000079102	ENST00000520428	protein_coding	KNOWN	None	1535	145	47	93029535	93107456	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
8	RUNX1T1	ENSG00000079102	ENST00000522163	processed_transcript	KNOWN	None	1535	None	None	93029574	93107463	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
8	RUNX1T1	ENSG00000079102	ENST00000521902	nonsense_mediated_decay	KNOWN	None	1535	111	36	93029574	93107706	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
8	RUNX1T1	ENSG00000079102	ENST00000522860	processed_transcript	KNOWN	None	1535	None	None	93029628	93107712	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
8	RUNX1T1	ENSG00000079102	ENST00000518449	protein_coding	KNOWN	None	1535	174	57	93074852	93107489	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
8	RUNX1T1	ENSG00000079102	ENST00000436581	protein_coding	KNOWN	CCDS56544	1535	1848	615	92972359	93107706	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
8	RUNX1T1	ENSG00000079102	ENST00000265814	protein_coding	KNOWN	CCDS6256	1535	1815	604	92971152	93088364	-1	AML1T1, CBFA2T1	CDR, ETO, MTG8, ZMYND2
22	NUP50	ENSG00000093000	ENST00000347635	protein_coding	KNOWN	CCDS14062	8065	1407	468	45559722	45583892	1	NPAP60L	None
22	NUP50	ENSG00000093000	ENST00000407019	protein_coding	KNOWN	CCDS14063	8065	1323	440	45559867	45580711	1	NPAP60L	None
22	NUP50	ENSG00000093000	ENST00000424634	protein_coding	KNOWN	None	8065	137	44	45559868	45567548	1	NPAP60L	None
22	NUP50	ENSG00000093000	ENST00000417702	protein_coding	KNOWN	None	8065	25	7	45559878	45567520	1	NPAP60L	None
22	NUP50	ENSG00000093000	ENST00000497960	retained_intron	KNOWN	None	8065	None	None	45559878	45568087	1	NPAP60L	None
22	NUP50	ENSG00000093000	ENST00000461437	processed_transcript	KNOWN	None	8065	None	None	45559880	45566900	1	NPAP60L	None
22	NUP50	ENSG00000093000	ENST00000434760	nonsense_mediated_decay	KNOWN	None	8065	93	30	45559881	45571887	1	NPAP60L	None
22	NUP50	ENSG00000093000	ENST00000430547	protein_coding	PUTATIVE	None	8065	230	75	45559881	45574195	1	NPAP60L	None
22	NUP50	ENSG00000093000	ENST00000484186	processed_transcript	KNOWN	None	8065	None	None	45560163	45567627	1	NPAP60L	None
22	NUP50	ENSG00000093000	ENST00000445721	protein_coding	KNOWN	None	8065	30	9	45560489	45564088	1	NPAP60L	None
22	NUP50	ENSG00000093000	ENST00000493456	processed_transcript	KNOWN	None	8065	None	None	45560516	45580385	1	NPAP60L	None
22	NUP50	ENSG00000093000	ENST00000396096	protein_coding	KNOWN	CCDS14063	8065	1323	440	45560527	45580711	1	NPAP60L	None
22	NUP50	ENSG00000093000	ENST00000461194	processed_transcript	KNOWN	None	8065	None	None	45560547	45567024	1	NPAP60L	None
22	NUP50	ENSG00000093000	ENST00000432340	protein_coding	KNOWN	None	8065	13	3	45560561	45564071	1	NPAP60L	None
22	NUP50	ENSG00000093000	ENST00000419387	nonsense_mediated_decay	KNOWN	None	8065	93	30	45564047	45574781	1	NPAP60L	None
22	NUP50	ENSG00000093000	ENST00000422489	protein_coding	PUTATIVE	None	8065	536	177	45564052	45579396	1	NPAP60L	None
22	NUP50	ENSG00000093000	ENST00000486184	processed_transcript	KNOWN	None	8065	None	None	45566931	45574311	1	NPAP60L	None
22	NUP50	ENSG00000093000	ENST00000491860	processed_transcript	KNOWN	None	8065	None	None	45571699	45574348	1	NPAP60L	None
22	NUP50	ENSG00000093000	ENST00000469163	retained_intron	KNOWN	None	8065	None	None	45573580	45581505	1	NPAP60L	None
22	NUP50	ENSG00000093000	ENST00000425733	protein_coding	KNOWN	None	8065	657	218	45559880	45581038	1	NPAP60L	None
19	SNX33P1	ENSG00000267609	ENST00000592116	processed_pseudogene	KNOWN	None	48590	None	None	16145639	16146905	-1	None	None
19	EPHX3	ENSG00000105131	ENST00000221730	protein_coding	KNOWN	CCDS12327	23760	1083	360	15337730	15343243	-1	ABHD9	FLJ22408
19	EPHX3	ENSG00000105131	ENST00000602233	protein_coding	KNOWN	CCDS12327	23760	1083	360	15337736	15344246	-1	ABHD9	FLJ22408
19	EPHX3	ENSG00000105131	ENST00000594042	protein_coding	KNOWN	None	23760	377	124	15342160	15343858	-1	ABHD9	FLJ22408
19	EPHX3	ENSG00000105131	ENST00000435261	protein_coding	KNOWN	CCDS12327	23760	1083	360	15337733	15343858	-1	ABHD9	FLJ22408
19	None	ENSG00000267495	ENST00000586862	unprocessed_pseudogene	KNOWN	None	None	None	None	16147837	16148428	-1	None	None
19	None	ENSG00000267450	ENST00000585564	processed_pseudogene	KNOWN	None	None	None	None	16162739	16163499	1	None	None
X	MECP2	ENSG00000169057	ENST00000303391	protein_coding	KNOWN	CCDS14741	6990	1461	486	153287024	153363212	-1	RTT, MRX16, MRX79	None
X	MECP2	ENSG00000169057	ENST00000453960	protein_coding	NOVEL	CCDS48193	6990	1497	498	153295685	153363177	-1	RTT, MRX16, MRX79	None
X	MECP2	ENSG00000169057	ENST00000407218	protein_coding	NOVEL	None	6990	519	172	153296464	153363148	-1	RTT, MRX16, MRX79	None
X	MECP2	ENSG00000169057	ENST00000486506	processed_transcript	KNOWN	None	6990	None	None	153296720	153323221	-1	RTT, MRX16, MRX79	None
X	MECP2	ENSG00000169057	ENST00000369957	nonsense_mediated_decay	KNOWN	None	6990	103	33	153296821	153363120	-1	RTT, MRX16, MRX79	None
X	MECP2	ENSG00000169057	ENST00000496908	processed_transcript	KNOWN	None	6990	None	None	153297824	153362436	-1	RTT, MRX16, MRX79	None
X	MECP2	ENSG00000169057	ENST00000464075	processed_transcript	KNOWN	None	6990	None	None	153297824	153402578	-1	RTT, MRX16, MRX79	None
X	MECP2	ENSG00000169057	ENST00000495474	processed_transcript	PUTATIVE	None	6990	None	None	153297884	153353509	-1	RTT, MRX16, MRX79	None
X	MECP2	ENSG00000169057	ENST00000480620	processed_transcript	PUTATIVE	None	6990	None	None	153297885	153299629	-1	RTT, MRX16, MRX79	None
X	MECP2	ENSG00000169057	ENST00000481807	processed_transcript	KNOWN	None	6990	None	None	153297885	153305554	-1	RTT, MRX16, MRX79	None
X	MECP2	ENSG00000169057	ENST00000488293	processed_transcript	KNOWN	None	6990	None	None	153297885	153314932	-1	RTT, MRX16, MRX79	None
X	MECP2	ENSG00000169057	ENST00000463644	processed_transcript	KNOWN	None	6990	None	None	153297885	153314932	-1	RTT, MRX16, MRX79	None
X	MECP2	ENSG00000169057	ENST00000460227	processed_transcript	KNOWN	None	6990	None	None	153297885	153314932	-1	RTT, MRX16, MRX79	None
X	MECP2	ENSG00000169057	ENST00000415944	protein_coding	KNOWN	None	6990	150	49	153297885	153362436	-1	RTT, MRX16, MRX79	None
HSCHR6_MHC_DBB	MICC	ENSG00000229651	ENST00000441596	unprocessed_pseudogene	KNOWN	None	7092	None	None	30372753	30377357	1	None	PERB11.3
HSCHR6_MHC_DBB	None	ENSG00000257340	ENST00000549082	pseudogene	NOVEL	None	None	None	None	30415019	30415142	1	None	None
HSCHR6_MHC_MANN	HLA-C	ENSG00000237022	ENST00000487551	retained_intron	KNOWN	None	4933	None	None	31280024	31280939	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_MANN	HLA-C	ENSG00000237022	ENST00000459694	retained_intron	KNOWN	None	4933	None	None	31280024	31281691	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_MANN	HLA-C	ENSG00000237022	ENST00000465497	retained_intron	KNOWN	None	4933	None	None	31280024	31283315	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_MANN	HLA-C	ENSG00000237022	ENST00000453809	protein_coding	KNOWN	None	4933	1119	372	31280024	31283351	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_MANN	HLA-C	ENSG00000237022	ENST00000414249	protein_coding	KNOWN	None	4933	1194	397	31280024	31283351	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_MANN	HLA-C	ENSG00000237022	ENST00000419590	protein_coding	KNOWN	None	4933	1020	339	31280024	31283358	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_MANN	HLA-C	ENSG00000237022	ENST00000488273	nonsense_mediated_decay	KNOWN	None	4933	396	131	31280024	31283370	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_MANN	HLA-C	ENSG00000237022	ENST00000438171	protein_coding	KNOWN	None	4933	1101	366	31280024	31283395	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_MANN	HLA-C	ENSG00000237022	ENST00000495898	processed_transcript	KNOWN	None	4933	None	None	31281479	31283338	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_MANN	HLA-C	ENSG00000237022	ENST00000437368	protein_coding	KNOWN	None	4933	782	259	31281483	31283334	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_MANN	HLA-C	ENSG00000237022	ENST00000480429	retained_intron	KNOWN	None	4933	None	None	31281490	31283395	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_MANN	HLA-C	ENSG00000237022	ENST00000495207	retained_intron	KNOWN	None	4933	None	None	31282368	31283355	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_MANN	HLA-C	ENSG00000237022	ENST00000552865	protein_coding	KNOWN	None	4933	981	326	31280028	31283341	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_DBB	TMPOP1	ENSG00000236369	ENST00000423447	processed_pseudogene	KNOWN	None	21364	None	None	30424510	30426052	1	TMPOL1	Em:AB014080.3
20	MACROD2	ENSG00000172264	ENST00000217246	protein_coding	KNOWN	CCDS13120	16126	1278	425	13976015	16033842	1	C20orf133	dJ631M13.5
20	MACROD2	ENSG00000172264	ENST00000477147	processed_transcript	KNOWN	None	16126	None	None	13976141	14474733	1	C20orf133	dJ631M13.5
20	MACROD2	ENSG00000172264	ENST00000483997	processed_transcript	KNOWN	None	16126	None	None	13976148	14034325	1	C20orf133	dJ631M13.5
20	MACROD2	ENSG00000172264	ENST00000492055	processed_transcript	KNOWN	None	16126	None	None	13976149	14032506	1	C20orf133	dJ631M13.5
20	MACROD2	ENSG00000172264	ENST00000462552	processed_transcript	KNOWN	None	16126	None	None	13976327	14034325	1	C20orf133	dJ631M13.5
20	MACROD2	ENSG00000172264	ENST00000494602	processed_transcript	KNOWN	None	16126	None	None	13976383	14547579	1	C20orf133	dJ631M13.5
20	MACROD2	ENSG00000172264	ENST00000490428	processed_transcript	KNOWN	None	16126	None	None	13976419	14665725	1	C20orf133	dJ631M13.5
20	MACROD2	ENSG00000172264	ENST00000463861	processed_transcript	KNOWN	None	16126	None	None	14474125	14869314	1	C20orf133	dJ631M13.5
20	MACROD2	ENSG00000172264	ENST00000464883	processed_transcript	KNOWN	None	16126	None	None	14504037	14876227	1	C20orf133	dJ631M13.5
20	MACROD2	ENSG00000172264	ENST00000497992	processed_transcript	KNOWN	None	16126	None	None	14504044	14831152	1	C20orf133	dJ631M13.5
20	MACROD2	ENSG00000172264	ENST00000402914	protein_coding	PUTATIVE	CCDS33443	16126	642	213	15177504	16033842	1	C20orf133	dJ631M13.5
20	MACROD2	ENSG00000172264	ENST00000486914	processed_transcript	KNOWN	None	16126	None	None	15913921	16025237	1	C20orf133	dJ631M13.5
20	MACROD2	ENSG00000172264	ENST00000407045	protein_coding	PUTATIVE	None	16126	297	98	15966433	16030714	1	C20orf133	dJ631M13.5
20	MACROD2	ENSG00000172264	ENST00000310348	protein_coding	KNOWN	None	16126	1347	448	13976410	16030521	1	C20orf133	dJ631M13.5
20	MACROD2	ENSG00000172264	ENST00000378058	protein_coding	KNOWN	CCDS33443	16126	642	213	15843450	16030583	1	C20orf133	dJ631M13.5
7	RN7SL35P	ENSG00000240347	ENST00000466169	misc_RNA	KNOWN	None	46051	None	None	79947569	79947857	1	None	None
5	NSD1	ENSG00000165671	ENST00000512992	retained_intron	KNOWN	None	14234	None	None	176560026	176562427	1	STO	ARA267, FLJ22263, KMT3B
5	NSD1	ENSG00000165671	ENST00000510954	protein_coding	KNOWN	None	14234	373	123	176560080	176631237	1	STO	ARA267, FLJ22263, KMT3B
5	NSD1	ENSG00000165671	ENST00000508896	protein_coding	KNOWN	None	14234	466	154	176560601	176636673	1	STO	ARA267, FLJ22263, KMT3B
5	NSD1	ENSG00000165671	ENST00000602285	retained_intron	KNOWN	None	14234	None	None	176560799	176563346	1	STO	ARA267, FLJ22263, KMT3B
5	NSD1	ENSG00000165671	ENST00000439151	protein_coding	KNOWN	CCDS4412	14234	8091	2696	176560926	176727216	1	STO	ARA267, FLJ22263, KMT3B
5	NSD1	ENSG00000165671	ENST00000511258	protein_coding	PUTATIVE	None	14234	204	67	176561174	176564405	1	STO	ARA267, FLJ22263, KMT3B
5	NSD1	ENSG00000165671	ENST00000347982	protein_coding	KNOWN	CCDS4413	14234	7284	2427	176561230	176722763	1	STO	ARA267, FLJ22263, KMT3B
5	NSD1	ENSG00000165671	ENST00000375350	nonsense_mediated_decay	KNOWN	None	14234	195	64	176639112	176666866	1	STO	ARA267, FLJ22263, KMT3B
5	NSD1	ENSG00000165671	ENST00000508029	protein_coding	PUTATIVE	None	14234	102	33	176692466	176696759	1	STO	ARA267, FLJ22263, KMT3B
5	NSD1	ENSG00000165671	ENST00000503056	protein_coding	PUTATIVE	None	14234	283	93	176692728	176707584	1	STO	ARA267, FLJ22263, KMT3B
5	NSD1	ENSG00000165671	ENST00000504457	protein_coding	PUTATIVE	None	14234	28	8	176693338	176696685	1	STO	ARA267, FLJ22263, KMT3B
5	NSD1	ENSG00000165671	ENST00000505395	protein_coding	PUTATIVE	None	14234	15	4	176693381	176696672	1	STO	ARA267, FLJ22263, KMT3B
5	NSD1	ENSG00000165671	ENST00000515735	protein_coding	PUTATIVE	None	14234	158	51	176693588	176700679	1	STO	ARA267, FLJ22263, KMT3B
5	NSD1	ENSG00000165671	ENST00000513736	retained_intron	KNOWN	None	14234	None	None	176715527	176719128	1	STO	ARA267, FLJ22263, KMT3B
5	NSD1	ENSG00000165671	ENST00000361032	protein_coding	KNOWN	None	14234	7782	2593	176562105	176727211	1	STO	ARA267, FLJ22263, KMT3B
5	NSD1	ENSG00000165671	ENST00000354179	protein_coding	KNOWN	CCDS4413	14234	7284	2427	176560080	176727211	1	STO	ARA267, FLJ22263, KMT3B
17	ATPAF2	ENSG00000171953	ENST00000584205	nonsense_mediated_decay	KNOWN	None	18802	324	107	17880723	17942482	-1	None	Atp12p, ATP12, LP3663, MGC29736
17	ATPAF2	ENSG00000171953	ENST00000462733	nonsense_mediated_decay	KNOWN	None	18802	324	107	17918373	17942389	-1	None	Atp12p, ATP12, LP3663, MGC29736
17	ATPAF2	ENSG00000171953	ENST00000585101	protein_coding	PUTATIVE	None	18802	324	107	17919521	17942482	-1	None	Atp12p, ATP12, LP3663, MGC29736
17	ATPAF2	ENSG00000171953	ENST00000474627	protein_coding	KNOWN	CCDS32585	18802	870	289	17921324	17942482	-1	None	Atp12p, ATP12, LP3663, MGC29736
17	ATPAF2	ENSG00000171953	ENST00000467560	retained_intron	KNOWN	None	18802	None	None	17921576	17924578	-1	None	Atp12p, ATP12, LP3663, MGC29736
17	ATPAF2	ENSG00000171953	ENST00000496852	retained_intron	KNOWN	None	18802	None	None	17921576	17928945	-1	None	Atp12p, ATP12, LP3663, MGC29736
17	ATPAF2	ENSG00000171953	ENST00000581698	protein_coding	PUTATIVE	None	18802	178	58	17921578	17927985	-1	None	Atp12p, ATP12, LP3663, MGC29736
17	ATPAF2	ENSG00000171953	ENST00000469327	processed_transcript	KNOWN	None	18802	None	None	17921962	17928654	-1	None	Atp12p, ATP12, LP3663, MGC29736
17	ATPAF2	ENSG00000171953	ENST00000465337	retained_intron	KNOWN	None	18802	None	None	17924010	17925108	-1	None	Atp12p, ATP12, LP3663, MGC29736
17	ATPAF2	ENSG00000171953	ENST00000488753	retained_intron	KNOWN	None	18802	None	None	17924044	17929849	-1	None	Atp12p, ATP12, LP3663, MGC29736
17	ATPAF2	ENSG00000171953	ENST00000444058	protein_coding	KNOWN	None	18802	616	204	17925059	17942523	-1	None	Atp12p, ATP12, LP3663, MGC29736
17	ATPAF2	ENSG00000171953	ENST00000577586	processed_transcript	KNOWN	None	18802	None	None	17931285	17942478	-1	None	Atp12p, ATP12, LP3663, MGC29736
17	ATPAF2	ENSG00000171953	ENST00000497871	retained_intron	KNOWN	None	18802	None	None	17931425	17942515	-1	None	Atp12p, ATP12, LP3663, MGC29736
12	CD69	ENSG00000110848	ENST00000228434	protein_coding	KNOWN	CCDS8604	1694	600	199	9905082	9913497	-1	None	CLEC2C
12	CD69	ENSG00000110848	ENST00000536709	protein_coding	PUTATIVE	None	1694	495	164	9906735	9913497	-1	None	CLEC2C
12	CD69	ENSG00000110848	ENST00000416624	retained_intron	KNOWN	None	1694	None	None	9907164	9913497	-1	None	CLEC2C
12	CD69	ENSG00000110848	ENST00000543147	retained_intron	KNOWN	None	1694	None	None	9908556	9913497	-1	None	CLEC2C
20	None	ENSG00000271565	ENST00000605527	processed_pseudogene	KNOWN	None	None	None	None	6199846	6200090	1	None	None
20	None	ENSG00000221449	ENST00000408522	miRNA	NOVEL	None	None	None	None	6209441	6209595	-1	None	None
1	OVGP1	ENSG00000085465	ENST00000369732	protein_coding	KNOWN	CCDS834	8524	2037	678	111956936	111970399	-1	MUC9	CHIT5
1	OVGP1	ENSG00000085465	ENST00000494622	processed_transcript	PUTATIVE	None	8524	None	None	111957842	111959301	-1	MUC9	CHIT5
1	OVGP1	ENSG00000085465	ENST00000481495	processed_transcript	KNOWN	None	8524	None	None	111962232	111965673	-1	MUC9	CHIT5
1	OVGP1	ENSG00000085465	ENST00000540696	protein_coding	KNOWN	None	8524	558	185	111957920	111970134	-1	MUC9	CHIT5
9	None	ENSG00000229454	ENST00000447148	lincRNA	KNOWN	None	None	None	None	88370957	88380027	-1	None	None
12	CASC1	ENSG00000118307	ENST00000556006	protein_coding	PUTATIVE	None	29599	1646	547	25261354	25311497	-1	None	LAS1, FLJ10921, PPP1R54
12	CASC1	ENSG00000118307	ENST00000354189	protein_coding	KNOWN	CCDS41763	29599	2073	690	25261354	25348032	-1	None	LAS1, FLJ10921, PPP1R54
12	CASC1	ENSG00000118307	ENST00000395987	protein_coding	KNOWN	CCDS31759	29599	2169	722	25261354	25348078	-1	None	LAS1, FLJ10921, PPP1R54
12	CASC1	ENSG00000118307	ENST00000320267	protein_coding	KNOWN	CCDS41762	29599	2151	716	25261354	25348094	-1	None	LAS1, FLJ10921, PPP1R54
12	CASC1	ENSG00000118307	ENST00000395990	protein_coding	KNOWN	CCDS55810	29599	2031	676	25261354	25348094	-1	None	LAS1, FLJ10921, PPP1R54
12	CASC1	ENSG00000118307	ENST00000554533	nonsense_mediated_decay	KNOWN	None	29599	108	35	25261355	25348096	-1	None	LAS1, FLJ10921, PPP1R54
12	CASC1	ENSG00000118307	ENST00000545133	protein_coding	NOVEL	CCDS55811	29599	1974	657	25261358	25348060	-1	None	LAS1, FLJ10921, PPP1R54
12	CASC1	ENSG00000118307	ENST00000555554	processed_transcript	PUTATIVE	None	29599	None	None	25264751	25302626	-1	None	LAS1, FLJ10921, PPP1R54
12	CASC1	ENSG00000118307	ENST00000557684	processed_transcript	KNOWN	None	29599	None	None	25267591	25348060	-1	None	LAS1, FLJ10921, PPP1R54
12	CASC1	ENSG00000118307	ENST00000556547	retained_intron	KNOWN	None	29599	None	None	25302562	25348091	-1	None	LAS1, FLJ10921, PPP1R54
12	CASC1	ENSG00000118307	ENST00000556467	nonsense_mediated_decay	KNOWN	None	29599	138	45	25302696	25348094	-1	None	LAS1, FLJ10921, PPP1R54
12	CASC1	ENSG00000118307	ENST00000554347	protein_coding	KNOWN	None	29599	278	91	25307275	25348064	-1	None	LAS1, FLJ10921, PPP1R54
12	CASC1	ENSG00000118307	ENST00000555240	retained_intron	KNOWN	None	29599	None	None	25307309	25348061	-1	None	LAS1, FLJ10921, PPP1R54
12	CASC1	ENSG00000118307	ENST00000537577	protein_coding	KNOWN	None	29599	1545	514	25261355	25348096	-1	None	LAS1, FLJ10921, PPP1R54
18	ADCYAP1	ENSG00000141433	ENST00000450565	protein_coding	KNOWN	CCDS11825	241	531	176	904944	909904	1	None	PACAP
18	ADCYAP1	ENSG00000141433	ENST00000579794	protein_coding	KNOWN	CCDS11825	241	531	176	905110	912173	1	None	PACAP
18	ADCYAP1	ENSG00000141433	ENST00000269200	retained_intron	KNOWN	None	241	None	None	907552	909671	1	None	PACAP
18	ADCYAP1	ENSG00000141433	ENST00000581602	retained_intron	KNOWN	None	241	None	None	908033	911026	1	None	PACAP
9	None	ENSG00000230303	ENST00000418478	lincRNA	KNOWN	None	None	None	None	88400637	88406454	-1	None	None
9	None	ENSG00000230303	ENST00000439544	lincRNA	KNOWN	None	None	None	None	88400914	88408395	-1	None	None
9	None	ENSG00000230303	ENST00000443630	lincRNA	KNOWN	None	None	None	None	88400916	88406449	-1	None	None
9	None	ENSG00000230303	ENST00000456242	lincRNA	KNOWN	None	None	None	None	88400918	88401444	-1	None	None
17	SKA2	ENSG00000182628	ENST00000330137	protein_coding	KNOWN	CCDS45747	28006	366	121	57187312	57232630	-1	FAM33A	FLJ12758
17	SKA2	ENSG00000182628	ENST00000580541	protein_coding	NOVEL	None	28006	141	46	57189247	57232545	-1	FAM33A	FLJ12758
17	SKA2	ENSG00000182628	ENST00000578105	protein_coding	NOVEL	None	28006	279	92	57189249	57232545	-1	FAM33A	FLJ12758
17	SKA2	ENSG00000182628	ENST00000578519	nonsense_mediated_decay	KNOWN	None	28006	186	61	57189251	57232543	-1	FAM33A	FLJ12758
17	SKA2	ENSG00000182628	ENST00000583927	processed_transcript	KNOWN	None	28006	None	None	57189304	57232621	-1	FAM33A	FLJ12758
17	SKA2	ENSG00000182628	ENST00000581068	protein_coding	NOVEL	None	28006	189	62	57189317	57232609	-1	FAM33A	FLJ12758
17	SKA2	ENSG00000182628	ENST00000437036	protein_coding	KNOWN	CCDS45748	28006	228	75	57189408	57232555	-1	FAM33A	FLJ12758
17	SKA2	ENSG00000182628	ENST00000583380	protein_coding	NOVEL	None	28006	330	109	57189452	57232535	-1	FAM33A	FLJ12758
17	SKA2	ENSG00000182628	ENST00000583976	nonsense_mediated_decay	KNOWN	None	28006	237	78	57189623	57232538	-1	FAM33A	FLJ12758
17	SKA2	ENSG00000182628	ENST00000584089	protein_coding	PUTATIVE	None	28006	199	65	57196748	57229162	-1	FAM33A	FLJ12758
21	None	ENSG00000235476	ENST00000411878	unprocessed_pseudogene	KNOWN	None	None	None	None	10872119	10872429	1	None	None
21	SLC25A15P4	ENSG00000223925	ENST00000456889	unprocessed_pseudogene	KNOWN	None	39845	None	None	10899082	10900005	1	None	None
HSCHR6_MHC_DBB	SUCLA2P1	ENSG00000231157	ENST00000416225	processed_pseudogene	KNOWN	None	21632	None	None	30426944	30428313	1	SUCLA2P	Em:AB014080.4
HSCHR6_MHC_DBB	SUCLA2P1	ENSG00000231157	ENST00000548026	pseudogene	KNOWN	None	21632	None	None	30427685	30428313	1	SUCLA2P	Em:AB014080.4
14	TCL1B	ENSG00000213231	ENST00000340722	protein_coding	KNOWN	CCDS32151	11649	387	128	96152754	96158980	1	None	TML1
14	TCL1B	ENSG00000213231	ENST00000464815	retained_intron	KNOWN	None	11649	None	None	96152775	96158965	1	None	TML1
14	TCL1B	ENSG00000213231	ENST00000556665	retained_intron	KNOWN	None	11649	None	None	96155622	96157693	1	None	TML1
22	None	ENSG00000220891	ENST00000407120	protein_coding	PUTATIVE	None	None	300	99	22901750	22909007	1	None	None
4	NAA15	ENSG00000164134	ENST00000296543	protein_coding	KNOWN	CCDS43270	30782	2601	866	140222609	140312536	1	NARG1	TBDN100, NATH, FLJ13340
4	NAA15	ENSG00000164134	ENST00000398947	protein_coding	KNOWN	None	30782	2598	865	140222742	140312522	1	NARG1	TBDN100, NATH, FLJ13340
4	NAA15	ENSG00000164134	ENST00000482087	processed_transcript	KNOWN	None	30782	None	None	140223138	140262227	1	NARG1	TBDN100, NATH, FLJ13340
4	NAA15	ENSG00000164134	ENST00000480277	processed_transcript	KNOWN	None	30782	None	None	140258027	140272767	1	NARG1	TBDN100, NATH, FLJ13340
4	NAA15	ENSG00000164134	ENST00000468029	processed_transcript	KNOWN	None	30782	None	None	140272689	140281011	1	NARG1	TBDN100, NATH, FLJ13340
4	NAA15	ENSG00000164134	ENST00000496716	retained_intron	KNOWN	None	30782	None	None	140297531	140300489	1	NARG1	TBDN100, NATH, FLJ13340
4	NAA15	ENSG00000164134	ENST00000485905	retained_intron	KNOWN	None	30782	None	None	140305990	140307701	1	NARG1	TBDN100, NATH, FLJ13340
4	NAA15	ENSG00000164134	ENST00000515576	protein_coding	PUTATIVE	None	30782	297	98	140307322	140341187	1	NARG1	TBDN100, NATH, FLJ13340
21	CYCSP41	ENSG00000227691	ENST00000451532	processed_pseudogene	KNOWN	None	2580	None	None	10935976	10936167	-1	CYC1LP4	HCP41
13	TEX29	ENSG00000153495	ENST00000497241	nonsense_mediated_decay	KNOWN	None	20370	255	84	111968531	111996596	1	C13orf16	bA474D23.1, MGC35169
13	TEX29	ENSG00000153495	ENST00000283547	protein_coding	KNOWN	CCDS9522	20370	456	151	111973015	111996594	1	C13orf16	bA474D23.1, MGC35169
22	IGLV2-33	ENSG00000211656	ENST00000390302	IG_V_gene	KNOWN	None	5892	340	112	22930626	22931145	1	None	None
17	KIF18B	ENSG00000186185	ENST00000587309	protein_coding	PUTATIVE	CCDS58555	27102	2502	833	43002077	43025005	-1	None	None
17	KIF18B	ENSG00000186185	ENST00000593135	protein_coding	PUTATIVE	CCDS45709	27102	2559	852	43003360	43025079	-1	None	None
17	KIF18B	ENSG00000186185	ENST00000590129	protein_coding	KNOWN	None	27102	2529	842	43003728	43013739	-1	None	None
17	KIF18B	ENSG00000186185	ENST00000585687	retained_intron	KNOWN	None	27102	None	None	43009690	43011344	-1	None	None
17	KIF18B	ENSG00000186185	ENST00000339151	protein_coding	KNOWN	None	27102	2568	855	43003448	43025082	-1	None	None
17	KIF18B	ENSG00000186185	ENST00000438933	protein_coding	KNOWN	CCDS58555	27102	2502	833	43003360	43013728	-1	None	None
6	FAM229B	ENSG00000203778	ENST00000368656	protein_coding	KNOWN	CCDS34513	33858	243	80	112408802	112423993	1	C6orf225	DKFZp586F0922, LOC619208
6	FAM229B	ENSG00000203778	ENST00000604268	protein_coding	KNOWN	CCDS34513	33858	243	80	112408841	112422098	1	C6orf225	DKFZp586F0922, LOC619208
11	TMEM41B	ENSG00000166471	ENST00000299596	nonsense_mediated_decay	KNOWN	CCDS31424	28948	876	291	9302201	9336114	-1	None	KIAA0033
11	TMEM41B	ENSG00000166471	ENST00000524543	nonsense_mediated_decay	KNOWN	None	28948	579	192	9302201	9336183	-1	None	KIAA0033
11	TMEM41B	ENSG00000166471	ENST00000528080	protein_coding	KNOWN	CCDS31424	28948	876	291	9302218	9336327	-1	None	KIAA0033
11	TMEM41B	ENSG00000166471	ENST00000533867	retained_intron	KNOWN	None	28948	None	None	9304686	9309620	-1	None	KIAA0033
11	TMEM41B	ENSG00000166471	ENST00000527813	protein_coding	PUTATIVE	None	28948	591	196	9305094	9336177	-1	None	KIAA0033
11	TMEM41B	ENSG00000166471	ENST00000533723	protein_coding	PUTATIVE	CCDS53600	28948	384	127	9316643	9336180	-1	None	KIAA0033
7	None	ENSG00000232667	ENST00000598433	antisense	KNOWN	None	None	None	None	79959508	80001545	-1	None	None
7	None	ENSG00000232667	ENST00000601205	antisense	KNOWN	None	None	None	None	79968064	80003203	-1	None	None
7	None	ENSG00000232667	ENST00000437763	antisense	KNOWN	None	None	None	None	80000502	80003755	-1	None	None
7	None	ENSG00000232667	ENST00000605580	antisense	KNOWN	None	None	None	None	80001237	80003785	-1	None	None
HSCHR6_MHC_QBL	PFDN6	ENSG00000206283	ENST00000399385	protein_coding	KNOWN	None	4926	390	129	33185925	33187556	1	HKE2	KE-2, H2-KE2, PFD6
HSCHR6_MHC_QBL	PFDN6	ENSG00000206283	ENST00000399383	protein_coding	KNOWN	None	4926	390	129	33186218	33187556	1	HKE2	KE-2, H2-KE2, PFD6
HSCHR6_MHC_QBL	PFDN6	ENSG00000206283	ENST00000399388	retained_intron	KNOWN	None	4926	None	None	33186219	33187498	1	HKE2	KE-2, H2-KE2, PFD6
HSCHR6_MHC_QBL	PFDN6	ENSG00000206283	ENST00000383207	protein_coding	KNOWN	None	4926	390	129	33186220	33187485	1	HKE2	KE-2, H2-KE2, PFD6
HSCHR6_MHC_QBL	PFDN6	ENSG00000206283	ENST00000492831	retained_intron	KNOWN	None	4926	None	None	33186250	33187491	1	HKE2	KE-2, H2-KE2, PFD6
HSCHR6_MHC_QBL	PFDN6	ENSG00000206283	ENST00000482292	protein_coding	KNOWN	None	4926	312	103	33186396	33195021	1	HKE2	KE-2, H2-KE2, PFD6
HSCHR6_MHC_QBL	PFDN6	ENSG00000206283	ENST00000548040	protein_coding	KNOWN	None	4926	390	129	33186224	33187544	1	HKE2	KE-2, H2-KE2, PFD6
17	SAMD14	ENSG00000167100	ENST00000330175	protein_coding	KNOWN	CCDS58562	27312	1254	417	48187404	48207186	-1	None	FLJ36890
17	SAMD14	ENSG00000167100	ENST00000285206	protein_coding	PUTATIVE	None	27312	1290	429	48188673	48201526	-1	None	FLJ36890
17	SAMD14	ENSG00000167100	ENST00000508892	retained_intron	KNOWN	None	27312	None	None	48188700	48195163	-1	None	FLJ36890
17	SAMD14	ENSG00000167100	ENST00000573376	retained_intron	KNOWN	None	27312	None	None	48190033	48192388	-1	None	FLJ36890
17	SAMD14	ENSG00000167100	ENST00000503131	protein_coding	KNOWN	CCDS11560	27312	1338	445	48190035	48207246	-1	None	FLJ36890
17	SAMD14	ENSG00000167100	ENST00000515816	retained_intron	KNOWN	None	27312	None	None	48191592	48193651	-1	None	FLJ36890
17	SAMD14	ENSG00000167100	ENST00000503734	processed_transcript	KNOWN	None	27312	None	None	48193367	48200962	-1	None	FLJ36890
17	SAMD14	ENSG00000167100	ENST00000507043	retained_intron	KNOWN	None	27312	None	None	48195417	48207160	-1	None	FLJ36890
17	SAMD14	ENSG00000167100	ENST00000511964	protein_coding	KNOWN	None	27312	40	12	48202284	48207118	-1	None	FLJ36890
17	SAMD14	ENSG00000167100	ENST00000513474	processed_transcript	PUTATIVE	None	27312	None	None	48202481	48207178	-1	None	FLJ36890
HSCHR6_MHC_COX	NCR3	ENSG00000237808	ENST00000470233	processed_transcript	KNOWN	None	19077	None	None	31544080	31547997	-1	LY117	1C7, NKp30, CD337
HSCHR6_MHC_COX	NCR3	ENSG00000237808	ENST00000498490	processed_transcript	KNOWN	None	19077	None	None	31544080	31548144	-1	LY117	1C7, NKp30, CD337
HSCHR6_MHC_COX	NCR3	ENSG00000237808	ENST00000447248	protein_coding	KNOWN	None	19077	606	201	31544080	31548170	-1	LY117	1C7, NKp30, CD337
HSCHR6_MHC_COX	NCR3	ENSG00000237808	ENST00000433654	protein_coding	KNOWN	None	19077	534	177	31544080	31548170	-1	LY117	1C7, NKp30, CD337
HSCHR6_MHC_COX	NCR3	ENSG00000237808	ENST00000418936	protein_coding	KNOWN	None	19077	573	190	31544460	31548170	-1	LY117	1C7, NKp30, CD337
HSCHR6_MHC_COX	NCR3	ENSG00000237808	ENST00000420485	protein_coding	KNOWN	None	19077	498	165	31544482	31547934	-1	LY117	1C7, NKp30, CD337
HSCHR6_MHC_COX	NCR3	ENSG00000237808	ENST00000488139	nonsense_mediated_decay	KNOWN	None	19077	348	115	31544482	31547934	-1	LY117	1C7, NKp30, CD337
21	BAGE2	ENSG00000187172	ENST00000496773	transcribed_unprocessed_pseudogene	KNOWN	None	15723	None	None	10996026	11058323	-1	None	CT2.2
21	BAGE2	ENSG00000187172	ENST00000470054	processed_transcript	KNOWN	None	15723	None	None	11020842	11098925	-1	None	CT2.2
21	BAGE2	ENSG00000187172	ENST00000474011	processed_transcript	KNOWN	None	15723	None	None	11059928	11098980	-1	None	CT2.2
6	SHPRH	ENSG00000146414	ENST00000417762	protein_coding	PUTATIVE	None	19336	390	129	146185381	146214490	-1	None	FLJ90837, KIAA2023, bA545I5.2
6	SHPRH	ENSG00000146414	ENST00000367505	protein_coding	KNOWN	CCDS43513	19336	5052	1683	146205943	146285525	-1	None	FLJ90837, KIAA2023, bA545I5.2
6	SHPRH	ENSG00000146414	ENST00000438092	protein_coding	KNOWN	CCDS47496	19336	4980	1659	146205949	146285233	-1	None	FLJ90837, KIAA2023, bA545I5.2
6	SHPRH	ENSG00000146414	ENST00000275233	protein_coding	KNOWN	CCDS43513	19336	5052	1683	146206629	146285233	-1	None	FLJ90837, KIAA2023, bA545I5.2
6	SHPRH	ENSG00000146414	ENST00000433355	nonsense_mediated_decay	KNOWN	None	19336	1350	449	146224392	146276392	-1	None	FLJ90837, KIAA2023, bA545I5.2
6	SHPRH	ENSG00000146414	ENST00000519632	nonsense_mediated_decay	KNOWN	None	19336	2790	929	146238249	146285559	-1	None	FLJ90837, KIAA2023, bA545I5.2
6	SHPRH	ENSG00000146414	ENST00000523276	retained_intron	KNOWN	None	19336	None	None	146239553	146248472	-1	None	FLJ90837, KIAA2023, bA545I5.2
6	SHPRH	ENSG00000146414	ENST00000520752	retained_intron	KNOWN	None	19336	None	None	146256044	146256978	-1	None	FLJ90837, KIAA2023, bA545I5.2
6	SHPRH	ENSG00000146414	ENST00000521977	nonsense_mediated_decay	KNOWN	None	19336	292	96	146266696	146275853	-1	None	FLJ90837, KIAA2023, bA545I5.2
6	SHPRH	ENSG00000146414	ENST00000367503	protein_coding	KNOWN	None	19336	5064	1687	146205947	146285233	-1	None	FLJ90837, KIAA2023, bA545I5.2
14	TCL1A	ENSG00000100721	ENST00000554012	protein_coding	KNOWN	CCDS9941	11648	345	114	96176304	96180533	-1	None	TCL1
14	TCL1A	ENSG00000100721	ENST00000556450	protein_coding	KNOWN	CCDS9941	11648	345	114	96176393	96180435	-1	None	TCL1
14	TCL1A	ENSG00000100721	ENST00000557043	protein_coding	NOVEL	None	11648	268	88	96176513	96179059	-1	None	TCL1
14	TCL1A	ENSG00000100721	ENST00000554119	nonsense_mediated_decay	KNOWN	None	11648	141	46	96177004	96180426	-1	None	TCL1
14	TCL1A	ENSG00000100721	ENST00000555886	nonsense_mediated_decay	KNOWN	None	11648	141	46	96177042	96180464	-1	None	TCL1
14	TCL1A	ENSG00000100721	ENST00000553467	retained_intron	KNOWN	None	11648	None	None	96177060	96178299	-1	None	TCL1
14	TCL1A	ENSG00000100721	ENST00000556156	nonsense_mediated_decay	KNOWN	None	11648	141	46	96177104	96180441	-1	None	TCL1
14	TCL1A	ENSG00000100721	ENST00000555202	protein_coding	KNOWN	CCDS9941	11648	345	114	96177784	96180467	-1	None	TCL1
14	TCL1A	ENSG00000100721	ENST00000402399	protein_coding	KNOWN	CCDS9941	11648	345	114	96176305	96180533	-1	None	TCL1
X	TIMM8A	ENSG00000126953	ENST00000372902	protein_coding	KNOWN	CCDS14481	11817	294	97	100600649	100604184	-1	DFN1	DDP, MTS
X	TIMM8A	ENSG00000126953	ENST00000480575	processed_transcript	KNOWN	None	11817	None	None	100602425	100603737	-1	DFN1	DDP, MTS
HSCHR6_MHC_QBL	GABBR1	ENSG00000206511	ENST00000383639	protein_coding	KNOWN	None	4070	2535	844	29523310	29595750	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_QBL	GABBR1	ENSG00000206511	ENST00000383638	protein_coding	KNOWN	None	4070	2886	961	29569941	29600872	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_QBL	GABBR1	ENSG00000206511	ENST00000383636	protein_coding	KNOWN	None	4070	2535	844	29569941	29595725	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_QBL	GABBR1	ENSG00000206511	ENST00000383637	protein_coding	KNOWN	None	4070	2700	899	29569941	29600847	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_QBL	GABBR1	ENSG00000206511	ENST00000495153	processed_transcript	KNOWN	None	4070	None	None	29569941	29600646	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_QBL	GABBR1	ENSG00000206511	ENST00000483838	processed_transcript	KNOWN	None	4070	None	None	29569941	29576444	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_QBL	GABBR1	ENSG00000206511	ENST00000486760	processed_transcript	KNOWN	None	4070	None	None	29571025	29572860	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_QBL	GABBR1	ENSG00000206511	ENST00000466873	processed_transcript	KNOWN	None	4070	None	None	29572624	29600097	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_QBL	GABBR1	ENSG00000206511	ENST00000476629	processed_transcript	KNOWN	None	4070	None	None	29573121	29574300	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_QBL	GABBR1	ENSG00000206511	ENST00000490214	processed_transcript	KNOWN	None	4070	None	None	29576165	29580310	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_QBL	GABBR1	ENSG00000206511	ENST00000473906	processed_transcript	KNOWN	None	4070	None	None	29589516	29591973	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_QBL	GABBR1	ENSG00000206511	ENST00000475370	processed_transcript	KNOWN	None	4070	None	None	29597611	29600779	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_QBL	GABBR1	ENSG00000206511	ENST00000551423	protein_coding	KNOWN	None	4070	1737	578	29569940	29600897	-1	None	hGB1a, GPRC3A
HSCHR6_MHC_SSTO	None	ENSG00000203544	ENST00000366356	protein_coding	NOVEL	None	None	249	82	31745551	31818230	-1	None	None
1	PRG4	ENSG00000116690	ENST00000533951	protein_coding	NOVEL	None	9364	486	161	186265411	186275610	1	CACP	JCAP, SZP, MSF, HAPO, bG174L6.2, FLJ32635
1	PRG4	ENSG00000116690	ENST00000367482	protein_coding	NOVEL	None	9364	2561	852	186265411	186277814	1	CACP	JCAP, SZP, MSF, HAPO, bG174L6.2, FLJ32635
1	PRG4	ENSG00000116690	ENST00000367483	protein_coding	KNOWN	CCDS44288	9364	4092	1363	186265411	186283694	1	CACP	JCAP, SZP, MSF, HAPO, bG174L6.2, FLJ32635
1	PRG4	ENSG00000116690	ENST00000367485	protein_coding	KNOWN	CCDS44287	9364	3936	1311	186265411	186283694	1	CACP	JCAP, SZP, MSF, HAPO, bG174L6.2, FLJ32635
1	PRG4	ENSG00000116690	ENST00000445192	protein_coding	KNOWN	CCDS1369	9364	4215	1404	186265411	186283694	1	CACP	JCAP, SZP, MSF, HAPO, bG174L6.2, FLJ32635
1	PRG4	ENSG00000116690	ENST00000367486	protein_coding	KNOWN	None	9364	4086	1361	186265405	186283686	1	CACP	JCAP, SZP, MSF, HAPO, bG174L6.2, FLJ32635
1	PRG4	ENSG00000116690	ENST00000367484	protein_coding	KNOWN	None	9364	2802	933	186265405	186283686	1	CACP	JCAP, SZP, MSF, HAPO, bG174L6.2, FLJ32635
10	None	ENSG00000234163	ENST00000422184	processed_pseudogene	KNOWN	None	None	None	None	33312296	33312575	-1	None	None
3	NEK11	ENSG00000114670	ENST00000510769	protein_coding	NOVEL	None	18593	1623	540	130745694	131068893	1	None	FLJ23495
3	NEK11	ENSG00000114670	ENST00000506695	retained_intron	KNOWN	None	18593	None	None	130745723	130853122	1	None	FLJ23495
3	NEK11	ENSG00000114670	ENST00000510688	protein_coding	NOVEL	CCDS54639	18593	1800	599	130745723	131069309	1	None	FLJ23495
3	NEK11	ENSG00000114670	ENST00000511262	protein_coding	KNOWN	CCDS46915	18593	1413	470	130745727	130893974	1	None	FLJ23495
3	NEK11	ENSG00000114670	ENST00000383366	protein_coding	KNOWN	CCDS3069	18593	1938	645	130745727	131069303	1	None	FLJ23495
3	NEK11	ENSG00000114670	ENST00000513550	processed_transcript	PUTATIVE	None	18593	None	None	130745756	130748657	1	None	FLJ23495
3	NEK11	ENSG00000114670	ENST00000514915	nonsense_mediated_decay	KNOWN	None	18593	639	212	130745767	131069286	1	None	FLJ23495
3	NEK11	ENSG00000114670	ENST00000510474	nonsense_mediated_decay	KNOWN	None	18593	240	79	130745779	131069125	1	None	FLJ23495
3	NEK11	ENSG00000114670	ENST00000507967	processed_transcript	PUTATIVE	None	18593	None	None	130745795	130748722	1	None	FLJ23495
3	NEK11	ENSG00000114670	ENST00000507910	protein_coding	KNOWN	None	18593	1449	482	130746573	130903617	1	None	FLJ23495
3	NEK11	ENSG00000114670	ENST00000508196	protein_coding	NOVEL	CCDS3069	18593	1938	645	130748553	131068620	1	None	FLJ23495
3	NEK11	ENSG00000114670	ENST00000602792	non_stop_decay	KNOWN	None	18593	659	218	130799267	130871413	1	None	FLJ23495
3	NEK11	ENSG00000114670	ENST00000426022	processed_transcript	KNOWN	None	18593	None	None	130806851	130871547	1	None	FLJ23495
3	NEK11	ENSG00000114670	ENST00000510926	processed_transcript	KNOWN	None	18593	None	None	130828244	130873911	1	None	FLJ23495
3	NEK11	ENSG00000114670	ENST00000515636	retained_intron	KNOWN	None	18593	None	None	130873714	130884367	1	None	FLJ23495
3	NEK11	ENSG00000114670	ENST00000510823	retained_intron	KNOWN	None	18593	None	None	130884121	130947439	1	None	FLJ23495
3	NEK11	ENSG00000114670	ENST00000429253	protein_coding	KNOWN	CCDS3069	18593	1938	645	130745694	131069308	1	None	FLJ23495
3	NEK11	ENSG00000114670	ENST00000356918	protein_coding	KNOWN	None	18593	1449	482	130745694	130903595	1	None	FLJ23495
3	NEK11	ENSG00000114670	ENST00000412440	protein_coding	KNOWN	None	18593	1386	461	130745779	131069125	1	None	FLJ23495
HSCHR6_MHC_DBB	RANP1	ENSG00000227652	ENST00000411454	processed_pseudogene	KNOWN	None	21631	None	None	30443964	30444614	1	None	Em:AB014080.2
HSCHR6_MHC_DBB	RANP1	ENSG00000227652	ENST00000551605	processed_pseudogene	KNOWN	None	21631	None	None	30443964	30444293	1	None	Em:AB014080.2
22	IGLV3-32	ENSG00000211657	ENST00000390303	IG_V_gene	KNOWN	None	5914	319	105	22936998	22937501	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000258075	ENST00000551822	pseudogene	NOVEL	None	None	None	None	30446324	30446408	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000258165	ENST00000549371	pseudogene	NOVEL	None	None	None	None	30446745	30446871	-1	None	None
HSCHR6_MHC_DBB	None	ENSG00000258147	ENST00000551011	pseudogene	NOVEL	None	None	None	None	30449860	30449944	1	None	None
9	TOR4A	ENSG00000198113	ENST00000357503	protein_coding	KNOWN	CCDS7041	25981	1272	423	140172201	140177093	1	C9orf167	FLJ20245
HSCHR6_MHC_DBB	None	ENSG00000257206	ENST00000546454	pseudogene	NOVEL	None	None	None	None	30456386	30456976	1	None	None
1	WDR77	ENSG00000116455	ENST00000235090	protein_coding	KNOWN	CCDS835	29652	1029	342	111982512	111991998	-1	None	MEP50
1	WDR77	ENSG00000116455	ENST00000449340	protein_coding	KNOWN	None	29652	875	290	111983850	111991351	-1	None	MEP50
1	WDR77	ENSG00000116455	ENST00000497278	processed_transcript	KNOWN	None	29652	None	None	111983920	111990154	-1	None	MEP50
1	WDR77	ENSG00000116455	ENST00000459665	processed_transcript	KNOWN	None	29652	None	None	111985971	111991513	-1	None	MEP50
1	WDR77	ENSG00000116455	ENST00000411751	protein_coding	KNOWN	None	29652	837	278	111983796	111991874	-1	None	MEP50
HSCHR6_MHC_DBB	None	ENSG00000258218	ENST00000551586	pseudogene	NOVEL	None	None	None	None	30461940	30462061	-1	None	None
HSCHR6_MHC_DBB	None	ENSG00000257630	ENST00000549886	pseudogene	NOVEL	None	None	None	None	30467712	30467784	1	None	None
22	GGTLC2	ENSG00000100121	ENST00000417145	retained_intron	KNOWN	None	18596	None	None	22988780	22990368	1	GGTL4	None
22	GGTLC2	ENSG00000100121	ENST00000480559	protein_coding	KNOWN	CCDS13802	18596	657	218	22988816	22990211	1	GGTL4	None
22	GGTLC2	ENSG00000100121	ENST00000448514	protein_coding	KNOWN	None	18596	678	225	22988816	22990211	1	GGTL4	None
17	C17orf49	ENSG00000258315	ENST00000546495	protein_coding	KNOWN	CCDS45595	28737	579	192	6917814	6920694	1	None	MGC49942, BAP18, HEPIS
17	C17orf49	ENSG00000258315	ENST00000546760	protein_coding	NOVEL	None	28737	474	157	6918072	6920825	1	None	MGC49942, BAP18, HEPIS
17	C17orf49	ENSG00000258315	ENST00000549857	retained_intron	KNOWN	None	28737	None	None	6918073	6920844	1	None	MGC49942, BAP18, HEPIS
17	C17orf49	ENSG00000258315	ENST00000552402	protein_coding	KNOWN	CCDS45596	28737	417	138	6918088	6920838	1	None	MGC49942, BAP18, HEPIS
17	C17orf49	ENSG00000258315	ENST00000439424	protein_coding	KNOWN	CCDS32542	28737	519	172	6918101	6920839	1	None	MGC49942, BAP18, HEPIS
17	C17orf49	ENSG00000258315	ENST00000552775	protein_coding	PUTATIVE	None	28737	501	166	6918359	6920839	1	None	MGC49942, BAP18, HEPIS
17	C17orf49	ENSG00000258315	ENST00000550038	processed_transcript	KNOWN	None	28737	None	None	6919136	6920623	1	None	MGC49942, BAP18, HEPIS
17	C17orf49	ENSG00000258315	ENST00000547747	nonsense_mediated_decay	KNOWN	None	28737	70	22	6919162	6920840	1	None	MGC49942, BAP18, HEPIS
17	C17orf49	ENSG00000258315	ENST00000547709	processed_transcript	KNOWN	None	28737	None	None	6919484	6920839	1	None	MGC49942, BAP18, HEPIS
7	RNU6-388P	ENSG00000252821	ENST00000517012	snRNA	KNOWN	None	47351	None	None	33041562	33041666	-1	None	None
HSCHR6_MHC_SSTO	NEU1	ENSG00000234846	ENST00000472801	retained_intron	KNOWN	None	7758	None	None	31817326	31822463	-1	NEU	None
HSCHR6_MHC_SSTO	NEU1	ENSG00000234846	ENST00000478758	retained_intron	KNOWN	None	7758	None	None	31818719	31822472	-1	NEU	None
HSCHR6_MHC_SSTO	NEU1	ENSG00000234846	ENST00000465061	nonsense_mediated_decay	KNOWN	None	7758	219	72	31818719	31822483	-1	NEU	None
HSCHR6_MHC_SSTO	NEU1	ENSG00000234846	ENST00000475767	nonsense_mediated_decay	KNOWN	None	7758	804	267	31818719	31822489	-1	NEU	None
HSCHR6_MHC_SSTO	NEU1	ENSG00000234846	ENST00000411774	protein_coding	KNOWN	None	7758	1248	415	31818719	31822599	-1	NEU	None
HSCHR6_MHC_SSTO	NEU1	ENSG00000234846	ENST00000532196	retained_intron	KNOWN	None	7758	None	None	31819709	31821686	-1	NEU	None
3	TRIM71	ENSG00000206557	ENST00000383763	protein_coding	KNOWN	CCDS43060	32669	2607	868	32859510	32938323	1	None	LIN41, LIN-41
10	RN7SL847P	ENSG00000265319	ENST00000582819	misc_RNA	KNOWN	None	46863	None	None	33323585	33323852	-1	None	None
3	ACTRT3	ENSG00000184378	ENST00000330368	protein_coding	KNOWN	CCDS3206	24022	1119	372	169484709	169487683	-1	None	ARPM1
3	TBC1D5	ENSG00000131374	ENST00000253692	protein_coding	KNOWN	CCDS33714	19166	2388	795	17198654	17782399	-1	None	KIAA0210
3	TBC1D5	ENSG00000131374	ENST00000429383	protein_coding	KNOWN	CCDS33714	19166	2388	795	17201864	17783990	-1	None	KIAA0210
3	TBC1D5	ENSG00000131374	ENST00000414318	processed_transcript	KNOWN	None	19166	None	None	17201864	18486309	-1	None	KIAA0210
3	TBC1D5	ENSG00000131374	ENST00000446818	protein_coding	NOVEL	CCDS46770	19166	2454	817	17202049	17741512	-1	None	KIAA0210
3	TBC1D5	ENSG00000131374	ENST00000429924	protein_coding	NOVEL	None	19166	1782	593	17226069	17448212	-1	None	KIAA0210
3	TBC1D5	ENSG00000131374	ENST00000465884	processed_transcript	KNOWN	None	19166	None	None	17378881	17413626	-1	None	KIAA0210
3	TBC1D5	ENSG00000131374	ENST00000415814	protein_coding	KNOWN	None	19166	551	182	17425466	17784144	-1	None	KIAA0210
3	TBC1D5	ENSG00000131374	ENST00000452492	nonsense_mediated_decay	KNOWN	None	19166	123	40	17444693	17784099	-1	None	KIAA0210
3	TBC1D5	ENSG00000131374	ENST00000412981	nonsense_mediated_decay	KNOWN	None	19166	123	40	17446186	17784093	-1	None	KIAA0210
3	TBC1D5	ENSG00000131374	ENST00000428355	protein_coding	PUTATIVE	None	19166	428	141	17446199	17784107	-1	None	KIAA0210
3	TBC1D5	ENSG00000131374	ENST00000425944	protein_coding	PUTATIVE	None	19166	421	139	17446206	17784107	-1	None	KIAA0210
3	TBC1D5	ENSG00000131374	ENST00000430169	nonsense_mediated_decay	KNOWN	None	19166	123	40	17446224	17784096	-1	None	KIAA0210
3	TBC1D5	ENSG00000131374	ENST00000445294	protein_coding	PUTATIVE	None	19166	388	128	17446239	17784107	-1	None	KIAA0210
3	TBC1D5	ENSG00000131374	ENST00000414349	protein_coding	PUTATIVE	None	19166	332	109	17446398	17784086	-1	None	KIAA0210
3	TBC1D5	ENSG00000131374	ENST00000443499	processed_transcript	KNOWN	None	19166	None	None	17446402	17784107	-1	None	KIAA0210
3	TBC1D5	ENSG00000131374	ENST00000443386	processed_transcript	KNOWN	None	19166	None	None	17447910	17780971	-1	None	KIAA0210
3	TBC1D5	ENSG00000131374	ENST00000497531	processed_transcript	KNOWN	None	19166	None	None	17447910	17784056	-1	None	KIAA0210
3	TBC1D5	ENSG00000131374	ENST00000444756	processed_transcript	KNOWN	None	19166	None	None	17447910	17784093	-1	None	KIAA0210
3	TBC1D5	ENSG00000131374	ENST00000507877	protein_coding	KNOWN	None	19166	264	87	17447922	17741498	-1	None	KIAA0210
3	TBC1D5	ENSG00000131374	ENST00000446863	protein_coding	PUTATIVE	None	19166	238	78	17447948	17784067	-1	None	KIAA0210
3	TBC1D5	ENSG00000131374	ENST00000434420	protein_coding	PUTATIVE	None	19166	222	73	17447964	17665408	-1	None	KIAA0210
3	TBC1D5	ENSG00000131374	ENST00000486224	processed_transcript	KNOWN	None	19166	None	None	17549966	17665405	-1	None	KIAA0210
3	TBC1D5	ENSG00000131374	ENST00000444471	protein_coding	PUTATIVE	None	19166	97	31	17549966	17784107	-1	None	KIAA0210
3	TBC1D5	ENSG00000131374	ENST00000433533	protein_coding	PUTATIVE	None	19166	90	29	17549973	17743846	-1	None	KIAA0210
3	TBC1D5	ENSG00000131374	ENST00000481396	processed_transcript	KNOWN	None	19166	None	None	17550041	17784136	-1	None	KIAA0210
3	TBC1D5	ENSG00000131374	ENST00000480435	processed_transcript	KNOWN	None	19166	None	None	17616695	17741506	-1	None	KIAA0210
3	TBC1D5	ENSG00000131374	ENST00000423331	processed_transcript	KNOWN	None	19166	None	None	17617974	17784104	-1	None	KIAA0210
3	TBC1D5	ENSG00000131374	ENST00000485432	processed_transcript	KNOWN	None	19166	None	None	17627844	17784240	-1	None	KIAA0210
3	TBC1D5	ENSG00000131374	ENST00000473612	processed_transcript	KNOWN	None	19166	None	None	17665207	17714167	-1	None	KIAA0210
3	TBC1D5	ENSG00000131374	ENST00000471679	processed_transcript	KNOWN	None	19166	None	None	17685533	17784231	-1	None	KIAA0210
20	TP53RK	ENSG00000172315	ENST00000372114	protein_coding	KNOWN	CCDS13401	16197	762	253	45313004	45318418	-1	C20orf64	dJ101A2.2, prpk, Nori-2p, BUD32
20	TP53RK	ENSG00000172315	ENST00000372102	protein_coding	KNOWN	None	16197	366	121	45314173	45318079	-1	C20orf64	dJ101A2.2, prpk, Nori-2p, BUD32
19	None	ENSG00000267517	ENST00000585520	lincRNA	KNOWN	None	None	None	None	16176547	16177122	1	None	None
10	None	ENSG00000229878	ENST00000423444	processed_pseudogene	KNOWN	None	None	None	None	33324397	33324592	-1	None	None
2	C2orf48	ENSG00000163009	ENST00000381786	protein_coding	KNOWN	CCDS1670	26322	480	159	10281509	10351851	1	None	FLJ25102
HSCHR6_MHC_COX	TUBB	ENSG00000227739	ENST00000422674	protein_coding	KNOWN	None	20778	1335	444	30677842	30683067	1	None	OK/SW-cl.56, MGC16435, M40, Tubb5
HSCHR6_MHC_COX	TUBB	ENSG00000227739	ENST00000435546	protein_coding	KNOWN	None	20778	1119	372	30679215	30683067	1	None	OK/SW-cl.56, MGC16435, M40, Tubb5
HSCHR6_MHC_COX	TUBB	ENSG00000227739	ENST00000420400	protein_coding	KNOWN	None	20778	1281	426	30679308	30683067	1	None	OK/SW-cl.56, MGC16435, M40, Tubb5
HSCHR6_MHC_COX	TUBB	ENSG00000227739	ENST00000453350	protein_coding	KNOWN	None	20778	1119	372	30679340	30683067	1	None	OK/SW-cl.56, MGC16435, M40, Tubb5
HSCHR6_MHC_COX	TUBB	ENSG00000227739	ENST00000548023	protein_coding	KNOWN	None	20778	1305	434	30677998	30682169	1	None	OK/SW-cl.56, MGC16435, M40, Tubb5
11	HPS5	ENSG00000110756	ENST00000396253	protein_coding	KNOWN	CCDS7837	17022	3048	1015	18300223	18343721	-1	None	None
11	HPS5	ENSG00000110756	ENST00000349215	protein_coding	KNOWN	CCDS7836	17022	3390	1129	18300606	18343721	-1	None	None
11	HPS5	ENSG00000110756	ENST00000438420	protein_coding	KNOWN	CCDS7837	17022	3048	1015	18300606	18343721	-1	None	None
11	HPS5	ENSG00000110756	ENST00000537258	protein_coding	PUTATIVE	None	17022	792	263	18301165	18308461	-1	None	None
11	HPS5	ENSG00000110756	ENST00000352460	processed_transcript	KNOWN	None	17022	None	None	18303461	18317648	-1	None	None
11	HPS5	ENSG00000110756	ENST00000545561	retained_intron	KNOWN	None	17022	None	None	18305340	18313489	-1	None	None
11	HPS5	ENSG00000110756	ENST00000544218	protein_coding	PUTATIVE	None	17022	482	159	18306920	18317592	-1	None	None
11	HPS5	ENSG00000110756	ENST00000543728	processed_transcript	KNOWN	None	17022	None	None	18309438	18317592	-1	None	None
11	HPS5	ENSG00000110756	ENST00000531848	protein_coding	PUTATIVE	None	17022	1203	400	18317709	18343745	-1	None	None
11	HPS5	ENSG00000110756	ENST00000399287	retained_intron	KNOWN	None	17022	None	None	18333064	18343725	-1	None	None
11	HPS5	ENSG00000110756	ENST00000589545	processed_transcript	PUTATIVE	None	17022	None	None	18333503	18343635	-1	None	None
17	UBE2O	ENSG00000175931	ENST00000319380	protein_coding	KNOWN	CCDS32742	29554	3879	1292	74385532	74449288	-1	None	E2-230K
17	UBE2O	ENSG00000175931	ENST00000587127	protein_coding	NOVEL	None	29554	2423	806	74385878	74395698	-1	None	E2-230K
17	UBE2O	ENSG00000175931	ENST00000586409	retained_intron	KNOWN	None	29554	None	None	74391439	74449223	-1	None	E2-230K
17	UBE2O	ENSG00000175931	ENST00000587581	processed_transcript	KNOWN	None	29554	None	None	74393889	74395455	-1	None	E2-230K
17	UBE2O	ENSG00000175931	ENST00000590658	protein_coding	NOVEL	None	29554	567	188	74395870	74398722	-1	None	E2-230K
17	UBE2O	ENSG00000175931	ENST00000586505	retained_intron	KNOWN	None	29554	None	None	74397812	74401313	-1	None	E2-230K
11	TMEM136	ENSG00000181264	ENST00000375095	protein_coding	PUTATIVE	CCDS55793	28280	738	245	120195838	120204388	1	None	MGC17839
11	TMEM136	ENSG00000181264	ENST00000314475	protein_coding	KNOWN	CCDS55792	28280	804	267	120196005	120201527	1	None	MGC17839
11	TMEM136	ENSG00000181264	ENST00000531346	processed_transcript	PUTATIVE	None	28280	None	None	120196005	120204388	1	None	MGC17839
11	TMEM136	ENSG00000181264	ENST00000529187	protein_coding	KNOWN	CCDS8432	28280	447	148	120196016	120204391	1	None	MGC17839
11	TMEM136	ENSG00000181264	ENST00000524680	processed_transcript	PUTATIVE	None	28280	None	None	120197829	120198350	1	None	MGC17839
19	BCKDHA	ENSG00000248098	ENST00000604424	retained_intron	KNOWN	None	986	None	None	41856758	41916758	1	OVD1A	MSU
19	BCKDHA	ENSG00000248098	ENST00000269980	protein_coding	KNOWN	CCDS12581	986	1338	445	41903365	41930910	1	OVD1A	MSU
19	BCKDHA	ENSG00000248098	ENST00000538423	retained_intron	KNOWN	None	986	None	None	41903713	41928112	1	OVD1A	MSU
19	BCKDHA	ENSG00000248098	ENST00000542943	protein_coding	NOVEL	None	986	986	327	41903725	41928980	1	OVD1A	MSU
19	BCKDHA	ENSG00000248098	ENST00000457836	protein_coding	NOVEL	None	986	1347	448	41903728	41930906	1	OVD1A	MSU
19	BCKDHA	ENSG00000248098	ENST00000541315	protein_coding	NOVEL	None	986	632	209	41916627	41928154	1	OVD1A	MSU
19	BCKDHA	ENSG00000248098	ENST00000535632	processed_transcript	KNOWN	None	986	None	None	41921287	41928666	1	OVD1A	MSU
19	BCKDHA	ENSG00000248098	ENST00000545787	retained_intron	KNOWN	None	986	None	None	41924928	41928639	1	OVD1A	MSU
19	BCKDHA	ENSG00000248098	ENST00000544905	protein_coding	PUTATIVE	None	986	283	93	41929014	41930907	1	OVD1A	MSU
19	BCKDHA	ENSG00000248098	ENST00000595085	protein_coding	KNOWN	None	986	1440	479	41884215	41930906	1	OVD1A	MSU
9	None	ENSG00000214654	ENST00000437707	processed_transcript	KNOWN	None	None	None	None	123555829	123560910	1	None	None
9	None	ENSG00000214654	ENST00000464488	transcribed_processed_pseudogene	KNOWN	None	None	None	None	123560832	123561848	1	None	None
9	None	ENSG00000214654	ENST00000540063	processed_pseudogene	KNOWN	None	None	None	None	123560546	123561845	1	None	None
18	DCC	ENSG00000187323	ENST00000442544	protein_coding	KNOWN	CCDS11952	2701	4344	1447	49866542	51057784	1	None	IGDCC1
18	DCC	ENSG00000187323	ENST00000578080	protein_coding	PUTATIVE	None	2701	545	180	50278430	50285462	1	None	IGDCC1
18	DCC	ENSG00000187323	ENST00000580024	processed_transcript	KNOWN	None	2701	None	None	50278529	50432637	1	None	IGDCC1
18	DCC	ENSG00000187323	ENST00000582875	protein_coding	PUTATIVE	None	2701	267	88	50278531	50343259	1	None	IGDCC1
18	DCC	ENSG00000187323	ENST00000304775	nonsense_mediated_decay	KNOWN	None	2701	2318	771	50278532	50942927	1	None	IGDCC1
18	DCC	ENSG00000187323	ENST00000579349	nonsense_mediated_decay	KNOWN	None	2701	223	73	50278536	50432656	1	None	IGDCC1
18	DCC	ENSG00000187323	ENST00000581559	nonsense_mediated_decay	KNOWN	None	2701	213	70	50278537	50432626	1	None	IGDCC1
18	DCC	ENSG00000187323	ENST00000579666	processed_transcript	KNOWN	None	2701	None	None	50278544	50283651	1	None	IGDCC1
18	DCC	ENSG00000187323	ENST00000582595	processed_transcript	KNOWN	None	2701	None	None	50278600	50280626	1	None	IGDCC1
18	DCC	ENSG00000187323	ENST00000584710	processed_transcript	KNOWN	None	2701	None	None	50450154	50458320	1	None	IGDCC1
18	DCC	ENSG00000187323	ENST00000579883	retained_intron	KNOWN	None	2701	None	None	50450169	50589983	1	None	IGDCC1
18	DCC	ENSG00000187323	ENST00000581580	protein_coding	PUTATIVE	None	2701	3231	1076	50461142	51056962	1	None	IGDCC1
18	DCC	ENSG00000187323	ENST00000578949	protein_coding	PUTATIVE	None	2701	306	101	50461173	50683805	1	None	IGDCC1
18	DCC	ENSG00000187323	ENST00000580146	processed_transcript	KNOWN	None	2701	None	None	50467299	50683776	1	None	IGDCC1
18	DCC	ENSG00000187323	ENST00000579941	protein_coding	PUTATIVE	None	2701	626	207	50918154	50942811	1	None	IGDCC1
18	DCC	ENSG00000187323	ENST00000579702	retained_intron	KNOWN	None	2701	None	None	51025685	51053318	1	None	IGDCC1
18	DCC	ENSG00000187323	ENST00000577224	processed_transcript	KNOWN	None	2701	None	None	51056667	51056821	1	None	IGDCC1
18	DCC	ENSG00000187323	ENST00000412726	protein_coding	KNOWN	None	2701	2694	897	50278537	50942785	1	None	IGDCC1
1	SPOCD1	ENSG00000134668	ENST00000257100	protein_coding	KNOWN	None	26338	2091	696	32256023	32281623	-1	None	FLJ25348
1	SPOCD1	ENSG00000134668	ENST00000360482	protein_coding	KNOWN	CCDS347	26338	3651	1216	32256025	32281652	-1	None	FLJ25348
1	SPOCD1	ENSG00000134668	ENST00000473361	retained_intron	KNOWN	None	26338	None	None	32256029	32264216	-1	None	FLJ25348
1	SPOCD1	ENSG00000134668	ENST00000452755	protein_coding	PUTATIVE	None	26338	1920	639	32256078	32264440	-1	None	FLJ25348
1	SPOCD1	ENSG00000134668	ENST00000533231	protein_coding	KNOWN	None	26338	3612	1203	32256084	32280976	-1	None	FLJ25348
1	SPOCD1	ENSG00000134668	ENST00000528579	protein_coding	PUTATIVE	None	26338	765	254	32258920	32264317	-1	None	FLJ25348
1	SPOCD1	ENSG00000134668	ENST00000532604	retained_intron	KNOWN	None	26338	None	None	32259619	32264232	-1	None	FLJ25348
1	SPOCD1	ENSG00000134668	ENST00000531039	retained_intron	KNOWN	None	26338	None	None	32259828	32265493	-1	None	FLJ25348
1	SPOCD1	ENSG00000134668	ENST00000468720	retained_intron	KNOWN	None	26338	None	None	32260097	32264372	-1	None	FLJ25348
1	SPOCD1	ENSG00000134668	ENST00000460061	retained_intron	KNOWN	None	26338	None	None	32260117	32264232	-1	None	FLJ25348
1	SPOCD1	ENSG00000134668	ENST00000485944	retained_intron	KNOWN	None	26338	None	None	32260117	32279730	-1	None	FLJ25348
1	SPOCD1	ENSG00000134668	ENST00000529396	protein_coding	PUTATIVE	None	26338	130	42	32265003	32281603	-1	None	FLJ25348
1	SPOCD1	ENSG00000134668	ENST00000528791	protein_coding	KNOWN	None	26338	262	86	32265410	32281623	-1	None	FLJ25348
1	SPOCD1	ENSG00000134668	ENST00000525930	protein_coding	KNOWN	None	26338	62	19	32266061	32281621	-1	None	FLJ25348
1	SPOCD1	ENSG00000134668	ENST00000373648	protein_coding	KNOWN	None	26338	1635	544	32256025	32281580	-1	None	FLJ25348
9	None	ENSG00000270917	ENST00000603920	processed_pseudogene	KNOWN	None	None	None	None	123574753	123575123	-1	None	None
2	ARL5A	ENSG00000162980	ENST00000495604	processed_transcript	PUTATIVE	None	696	None	None	152645498	152648304	-1	ARL5	None
2	ARL5A	ENSG00000162980	ENST00000446896	nonsense_mediated_decay	KNOWN	CCDS46425	696	429	142	152645592	152684955	-1	ARL5	None
2	ARL5A	ENSG00000162980	ENST00000487818	processed_transcript	PUTATIVE	None	696	None	None	152646149	152648600	-1	ARL5	None
2	ARL5A	ENSG00000162980	ENST00000295087	protein_coding	KNOWN	CCDS2195	696	540	179	152655316	152685002	-1	ARL5	None
2	ARL5A	ENSG00000162980	ENST00000458140	nonsense_mediated_decay	KNOWN	None	696	234	77	152659496	152685006	-1	ARL5	None
2	ARL5A	ENSG00000162980	ENST00000428992	protein_coding	KNOWN	CCDS46425	696	429	142	152659617	152684982	-1	ARL5	None
2	ARL5A	ENSG00000162980	ENST00000487723	processed_transcript	PUTATIVE	None	696	None	None	152683994	152684979	-1	ARL5	None
9	PSMD5-AS1	ENSG00000226752	ENST00000589026	antisense	KNOWN	None	27367	None	None	123587106	123613633	1	None	None
9	PSMD5-AS1	ENSG00000226752	ENST00000586907	antisense	KNOWN	None	27367	None	None	123605274	123613718	1	None	None
9	PSMD5-AS1	ENSG00000226752	ENST00000442982	antisense	KNOWN	None	27367	None	None	123605378	123614881	1	None	None
9	PSMD5-AS1	ENSG00000226752	ENST00000458394	retained_intron	KNOWN	None	27367	None	None	123606578	123607554	1	None	None
9	PSMD5-AS1	ENSG00000226752	ENST00000588973	antisense	KNOWN	None	27367	None	None	123606991	123613802	1	None	None
9	PSMD5-AS1	ENSG00000226752	ENST00000447891	antisense	KNOWN	None	27367	None	None	123607152	123616651	1	None	None
9	PSMD5-AS1	ENSG00000226752	ENST00000432640	antisense	KNOWN	None	27367	None	None	123607927	123613996	1	None	None
9	PSMD5-AS1	ENSG00000226752	ENST00000586423	antisense	KNOWN	None	27367	None	None	123608877	123613802	1	None	None
9	PSMD5-AS1	ENSG00000226752	ENST00000450803	antisense	KNOWN	None	27367	None	None	123608960	123614245	1	None	None
9	PSMD5-AS1	ENSG00000226752	ENST00000587916	retained_intron	KNOWN	None	27367	None	None	123609011	123613557	1	None	None
16	DECR2	ENSG00000242612	ENST00000219481	protein_coding	KNOWN	CCDS10409	2754	879	292	451826	462487	1	None	PDCR, SDR17C1
16	DECR2	ENSG00000242612	ENST00000424398	protein_coding	NOVEL	None	2754	843	280	451882	461976	1	None	PDCR, SDR17C1
16	DECR2	ENSG00000242612	ENST00000439661	nonsense_mediated_decay	KNOWN	None	2754	636	211	451893	462370	1	None	PDCR, SDR17C1
16	DECR2	ENSG00000242612	ENST00000437024	nonsense_mediated_decay	KNOWN	None	2754	246	81	451915	462487	1	None	PDCR, SDR17C1
16	DECR2	ENSG00000242612	ENST00000445291	nonsense_mediated_decay	KNOWN	None	2754	246	81	451926	461471	1	None	PDCR, SDR17C1
16	DECR2	ENSG00000242612	ENST00000461802	processed_transcript	KNOWN	None	2754	None	None	452005	457171	1	None	PDCR, SDR17C1
16	DECR2	ENSG00000242612	ENST00000461947	processed_transcript	KNOWN	None	2754	None	None	456895	462487	1	None	PDCR, SDR17C1
16	DECR2	ENSG00000242612	ENST00000465166	retained_intron	KNOWN	None	2754	None	None	456946	460295	1	None	PDCR, SDR17C1
16	DECR2	ENSG00000242612	ENST00000429116	nonsense_mediated_decay	KNOWN	None	2754	283	93	457427	461928	1	None	PDCR, SDR17C1
16	DECR2	ENSG00000242612	ENST00000461749	retained_intron	KNOWN	None	2754	None	None	459599	462481	1	None	PDCR, SDR17C1
16	DECR2	ENSG00000242612	ENST00000469922	retained_intron	KNOWN	None	2754	None	None	460112	461050	1	None	PDCR, SDR17C1
16	DECR2	ENSG00000242612	ENST00000397710	protein_coding	KNOWN	None	2754	636	211	451858	460354	1	None	PDCR, SDR17C1
18	ZNF397	ENSG00000186812	ENST00000589630	retained_intron	KNOWN	None	18818	None	None	32820994	32822964	1	ZNF47	ZSCAN15, MGC13250
18	ZNF397	ENSG00000186812	ENST00000601719	protein_coding	KNOWN	None	18818	416	137	32821000	32822850	1	ZNF47	ZSCAN15, MGC13250
18	ZNF397	ENSG00000186812	ENST00000591206	protein_coding	KNOWN	None	18818	624	207	32821001	32824064	1	ZNF47	ZSCAN15, MGC13250
18	ZNF397	ENSG00000186812	ENST00000330501	protein_coding	KNOWN	CCDS45852	18818	1605	534	32821001	32827153	1	ZNF47	ZSCAN15, MGC13250
18	ZNF397	ENSG00000186812	ENST00000589420	processed_transcript	KNOWN	None	18818	None	None	32821015	32847097	1	ZNF47	ZSCAN15, MGC13250
18	ZNF397	ENSG00000186812	ENST00000261333	protein_coding	KNOWN	CCDS32814	18818	828	275	32821019	32838358	1	ZNF47	ZSCAN15, MGC13250
18	ZNF397	ENSG00000186812	ENST00000355632	protein_coding	PUTATIVE	None	18818	738	245	32821019	32839191	1	ZNF47	ZSCAN15, MGC13250
18	ZNF397	ENSG00000186812	ENST00000585800	protein_coding	KNOWN	None	18818	624	207	32821021	32824033	1	ZNF47	ZSCAN15, MGC13250
18	ZNF397	ENSG00000186812	ENST00000592264	protein_coding	PUTATIVE	None	18818	567	188	32822354	32838358	1	ZNF47	ZSCAN15, MGC13250
18	ZNF397	ENSG00000186812	ENST00000588119	protein_coding	PUTATIVE	None	18818	602	199	32822437	32823248	1	ZNF47	ZSCAN15, MGC13250
18	ZNF397	ENSG00000186812	ENST00000590470	processed_transcript	KNOWN	None	18818	None	None	32822759	32823202	1	ZNF47	ZSCAN15, MGC13250
18	ZNF397	ENSG00000186812	ENST00000591505	retained_intron	KNOWN	None	18818	None	None	32834161	32838243	1	ZNF47	ZSCAN15, MGC13250
20	SLC2A10	ENSG00000197496	ENST00000359271	protein_coding	KNOWN	CCDS13402	13444	1626	541	45338126	45364965	1	None	GLUT10
20	SLC2A10	ENSG00000197496	ENST00000486000	processed_transcript	KNOWN	None	13444	None	None	45338338	45339075	1	None	GLUT10
9	LINGO2	ENSG00000174482	ENST00000379992	protein_coding	KNOWN	CCDS6524	21207	1821	606	27948076	28670283	-1	LRRN6C	LERN3
9	LINGO2	ENSG00000174482	ENST00000493941	processed_transcript	KNOWN	None	21207	None	None	28080603	28295329	-1	LRRN6C	LERN3
9	LINGO2	ENSG00000174482	ENST00000308675	protein_coding	KNOWN	CCDS6524	21207	1821	606	27948560	28026318	-1	LRRN6C	LERN3
7	None	ENSG00000229054	ENST00000431518	processed_pseudogene	KNOWN	None	None	None	None	33075824	33075994	-1	None	None
11	ZBTB16	ENSG00000109906	ENST00000335953	protein_coding	KNOWN	CCDS8367	12930	2022	673	113930315	114121398	1	ZNF145	PLZF
11	ZBTB16	ENSG00000109906	ENST00000541602	retained_intron	KNOWN	None	12930	None	None	113930447	114060486	1	ZNF145	PLZF
11	ZBTB16	ENSG00000109906	ENST00000544220	protein_coding	KNOWN	None	12930	346	114	113930459	113934368	1	ZNF145	PLZF
11	ZBTB16	ENSG00000109906	ENST00000535700	protein_coding	KNOWN	None	12930	444	147	113930979	113934466	1	ZNF145	PLZF
11	ZBTB16	ENSG00000109906	ENST00000392996	protein_coding	KNOWN	CCDS8367	12930	2022	673	113931229	114121374	1	ZNF145	PLZF
11	ZBTB16	ENSG00000109906	ENST00000539918	nonsense_mediated_decay	KNOWN	None	12930	167	54	113935134	114118066	1	ZNF145	PLZF
11	ZBTB16	ENSG00000109906	ENST00000545851	processed_transcript	KNOWN	None	12930	None	None	114051488	114118018	1	ZNF145	PLZF
11	ZBTB16	ENSG00000109906	ENST00000535379	processed_transcript	KNOWN	None	12930	None	None	114107929	114121279	1	ZNF145	PLZF
11	ZBTB16	ENSG00000109906	ENST00000535509	retained_intron	KNOWN	None	12930	None	None	114117512	114121198	1	ZNF145	PLZF
21	RCAN1	ENSG00000159200	ENST00000487434	processed_transcript	KNOWN	None	3040	None	None	35885440	35893881	-1	DSCR1	None
21	RCAN1	ENSG00000159200	ENST00000482533	protein_coding	KNOWN	CCDS42921	3040	354	117	35888782	35896587	-1	DSCR1	None
21	RCAN1	ENSG00000159200	ENST00000481448	protein_coding	PUTATIVE	None	3040	729	242	35888782	35899148	-1	DSCR1	None
21	RCAN1	ENSG00000159200	ENST00000381132	protein_coding	KNOWN	CCDS33551	3040	594	197	35888782	35899261	-1	DSCR1	None
21	RCAN1	ENSG00000159200	ENST00000487990	protein_coding	KNOWN	CCDS42921	3040	354	117	35888782	35932477	-1	DSCR1	None
21	RCAN1	ENSG00000159200	ENST00000399272	protein_coding	PUTATIVE	None	3040	516	171	35888782	35986142	-1	DSCR1	None
21	RCAN1	ENSG00000159200	ENST00000489903	processed_transcript	KNOWN	None	3040	None	None	35888782	35986745	-1	DSCR1	None
21	RCAN1	ENSG00000159200	ENST00000313806	protein_coding	KNOWN	CCDS13637	3040	759	252	35888782	35987441	-1	DSCR1	None
21	RCAN1	ENSG00000159200	ENST00000492600	retained_intron	KNOWN	None	3040	None	None	35893358	35899122	-1	DSCR1	None
21	RCAN1	ENSG00000159200	ENST00000463276	processed_transcript	KNOWN	None	3040	None	None	35895844	35987382	-1	DSCR1	None
21	RCAN1	ENSG00000159200	ENST00000381135	protein_coding	KNOWN	None	3040	729	242	35888786	35897686	-1	DSCR1	None
21	RCAN1	ENSG00000159200	ENST00000443408	protein_coding	KNOWN	CCDS42921	3040	354	117	35888788	35986745	-1	DSCR1	None
HSCHR6_MHC_QBL	IER3	ENSG00000206478	ENST00000400509	protein_coding	KNOWN	None	5392	417	138	30700508	30701857	-1	None	IEX-1, DIF-2, PRG1, IEX-1L
HSCHR6_MHC_QBL	IER3	ENSG00000206478	ENST00000383560	protein_coding	KNOWN	None	5392	471	156	30700508	30701863	-1	None	IEX-1, DIF-2, PRG1, IEX-1L
19	SARS2	ENSG00000104835	ENST00000594259	retained_intron	KNOWN	None	17697	None	None	39405906	39406686	-1	SARSM	FLJ20450, mtSerRS, SerRSmt, SARS, SERS, SYS
19	SARS2	ENSG00000104835	ENST00000221431	protein_coding	KNOWN	CCDS33017	17697	1557	518	39405906	39421536	-1	SARSM	FLJ20450, mtSerRS, SerRSmt, SARS, SERS, SYS
19	SARS2	ENSG00000104835	ENST00000594171	protein_coding	PUTATIVE	None	17697	987	328	39405909	39420773	-1	SARSM	FLJ20450, mtSerRS, SerRSmt, SARS, SERS, SYS
19	SARS2	ENSG00000104835	ENST00000430193	protein_coding	NOVEL	None	17697	1557	518	39405939	39421398	-1	SARSM	FLJ20450, mtSerRS, SerRSmt, SARS, SERS, SYS
19	SARS2	ENSG00000104835	ENST00000598831	protein_coding	PUTATIVE	None	17697	564	187	39405958	39408467	-1	SARSM	FLJ20450, mtSerRS, SerRSmt, SARS, SERS, SYS
19	SARS2	ENSG00000104835	ENST00000600042	protein_coding	KNOWN	CCDS54265	17697	1563	520	39406204	39421401	-1	SARSM	FLJ20450, mtSerRS, SerRSmt, SARS, SERS, SYS
19	SARS2	ENSG00000104835	ENST00000597490	retained_intron	KNOWN	None	17697	None	None	39406848	39408564	-1	SARSM	FLJ20450, mtSerRS, SerRSmt, SARS, SERS, SYS
19	SARS2	ENSG00000104835	ENST00000455102	nonsense_mediated_decay	KNOWN	None	17697	711	236	39408366	39421400	-1	SARSM	FLJ20450, mtSerRS, SerRSmt, SARS, SERS, SYS
19	SARS2	ENSG00000104835	ENST00000598563	retained_intron	KNOWN	None	17697	None	None	39408454	39410424	-1	SARSM	FLJ20450, mtSerRS, SerRSmt, SARS, SERS, SYS
19	SARS2	ENSG00000104835	ENST00000602034	retained_intron	KNOWN	None	17697	None	None	39408677	39410639	-1	SARSM	FLJ20450, mtSerRS, SerRSmt, SARS, SERS, SYS
19	SARS2	ENSG00000104835	ENST00000600448	retained_intron	KNOWN	None	17697	None	None	39410439	39412514	-1	SARSM	FLJ20450, mtSerRS, SerRSmt, SARS, SERS, SYS
19	SARS2	ENSG00000104835	ENST00000598343	nonsense_mediated_decay	KNOWN	None	17697	408	135	39412032	39421399	-1	SARSM	FLJ20450, mtSerRS, SerRSmt, SARS, SERS, SYS
19	SARS2	ENSG00000104835	ENST00000598598	retained_intron	KNOWN	None	17697	None	None	39412276	39421403	-1	SARSM	FLJ20450, mtSerRS, SerRSmt, SARS, SERS, SYS
19	SARS2	ENSG00000104835	ENST00000593754	nonsense_mediated_decay	KNOWN	None	17697	273	90	39412652	39421399	-1	SARSM	FLJ20450, mtSerRS, SerRSmt, SARS, SERS, SYS
19	SARS2	ENSG00000104835	ENST00000448145	protein_coding	KNOWN	None	17697	1557	518	39406044	39440495	-1	SARSM	FLJ20450, mtSerRS, SerRSmt, SARS, SERS, SYS
19	GDF15	ENSG00000130513	ENST00000597765	protein_coding	KNOWN	None	30142	19	5	18485541	18497018	1	None	PLAB, MIC-1, PDF, MIC1, NAG-1, PTGFB
19	GDF15	ENSG00000130513	ENST00000604609	processed_transcript	KNOWN	None	30142	None	None	18485554	18496882	1	None	PLAB, MIC-1, PDF, MIC1, NAG-1, PTGFB
19	GDF15	ENSG00000130513	ENST00000595973	protein_coding	KNOWN	CCDS12376	30142	927	308	18492980	18499987	1	None	PLAB, MIC-1, PDF, MIC1, NAG-1, PTGFB
19	GDF15	ENSG00000130513	ENST00000594925	processed_transcript	KNOWN	None	30142	None	None	18497730	18499294	1	None	PLAB, MIC-1, PDF, MIC1, NAG-1, PTGFB
19	GDF15	ENSG00000130513	ENST00000252809	protein_coding	KNOWN	CCDS12376	30142	927	308	18496968	18499986	1	None	PLAB, MIC-1, PDF, MIC1, NAG-1, PTGFB
7	RN7SL505P	ENSG00000241420	ENST00000482644	misc_RNA	KNOWN	None	46521	None	None	33085412	33085702	-1	None	None
19	BRD4	ENSG00000141867	ENST00000263377	protein_coding	KNOWN	CCDS12328	13575	4089	1362	15347647	15391262	-1	None	HUNKI, MCAP, CAP, HUNK1
19	BRD4	ENSG00000141867	ENST00000594066	retained_intron	KNOWN	None	13575	None	None	15355334	15357429	-1	None	HUNKI, MCAP, CAP, HUNK1
19	BRD4	ENSG00000141867	ENST00000371835	protein_coding	KNOWN	CCDS46004	13575	2169	722	15357868	15391262	-1	None	HUNKI, MCAP, CAP, HUNK1
19	BRD4	ENSG00000141867	ENST00000360016	protein_coding	KNOWN	None	13575	2385	794	15363803	15443356	-1	None	HUNKI, MCAP, CAP, HUNK1
19	BRD4	ENSG00000141867	ENST00000595926	retained_intron	KNOWN	None	13575	None	None	15364562	15366177	-1	None	HUNKI, MCAP, CAP, HUNK1
19	BRD4	ENSG00000141867	ENST00000594841	protein_coding	KNOWN	None	13575	1716	571	15366910	15442717	-1	None	HUNKI, MCAP, CAP, HUNK1
19	BRD4	ENSG00000141867	ENST00000602230	processed_transcript	KNOWN	None	13575	None	None	15366946	15375211	-1	None	HUNKI, MCAP, CAP, HUNK1
19	BRD4	ENSG00000141867	ENST00000594842	retained_intron	KNOWN	None	13575	None	None	15367019	15368126	-1	None	HUNKI, MCAP, CAP, HUNK1
19	BRD4	ENSG00000141867	ENST00000597315	nonsense_mediated_decay	KNOWN	None	13575	441	146	15376438	15443254	-1	None	HUNKI, MCAP, CAP, HUNK1
19	BRD4	ENSG00000141867	ENST00000601071	processed_transcript	KNOWN	None	13575	None	None	15378325	15383792	-1	None	HUNKI, MCAP, CAP, HUNK1
19	BRD4	ENSG00000141867	ENST00000601941	protein_coding	KNOWN	None	13575	315	104	15379824	15442718	-1	None	HUNKI, MCAP, CAP, HUNK1
7	None	ENSG00000252706	ENST00000516897	snoRNA	NOVEL	None	None	None	None	33155178	33155242	-1	None	None
12	POP5	ENSG00000167272	ENST00000341039	protein_coding	KNOWN	CCDS9203	17689	342	113	121016567	121019182	-1	None	None
12	POP5	ENSG00000167272	ENST00000357500	protein_coding	KNOWN	CCDS9202	17689	492	163	121016848	121019201	-1	None	None
12	POP5	ENSG00000167272	ENST00000542568	retained_intron	KNOWN	None	17689	None	None	121016851	121017428	-1	None	None
12	POP5	ENSG00000167272	ENST00000542776	processed_transcript	KNOWN	None	17689	None	None	121016851	121019139	-1	None	None
12	POP5	ENSG00000167272	ENST00000543355	processed_transcript	KNOWN	None	17689	None	None	121016957	121019184	-1	None	None
12	POP5	ENSG00000167272	ENST00000541834	retained_intron	KNOWN	None	17689	None	None	121017045	121017798	-1	None	None
12	POP5	ENSG00000167272	ENST00000535245	retained_intron	KNOWN	None	17689	None	None	121017155	121019054	-1	None	None
12	POP5	ENSG00000167272	ENST00000511394	retained_intron	KNOWN	None	17689	None	None	121017172	121017942	-1	None	None
12	POP5	ENSG00000167272	ENST00000539716	retained_intron	KNOWN	None	17689	None	None	121018399	121019201	-1	None	None
5	PCDH12	ENSG00000113555	ENST00000231484	protein_coding	KNOWN	CCDS4269	8657	3555	1184	141323150	141338627	-1	None	VE-cadherin-2
5	PCDH12	ENSG00000113555	ENST00000510041	protein_coding	KNOWN	None	8657	71	22	141337346	141338377	-1	None	VE-cadherin-2
5	PCDH12	ENSG00000113555	ENST00000512221	processed_transcript	KNOWN	None	8657	None	None	141337602	141349304	-1	None	VE-cadherin-2
22	IGLV3-27	ENSG00000211658	ENST00000390304	IG_V_gene	KNOWN	None	5910	339	112	23010758	23011276	1	None	None
9	RN7SL181P	ENSG00000243738	ENST00000462921	misc_RNA	KNOWN	None	46197	None	None	123965437	123965712	1	None	None
7	None	ENSG00000228015	ENST00000416825	processed_pseudogene	KNOWN	None	None	None	None	33168600	33168755	-1	None	None
9	None	ENSG00000214651	ENST00000455437	processed_pseudogene	KNOWN	None	None	None	None	124000395	124002367	-1	None	None
22	IGLV3-25	ENSG00000211659	ENST00000390305	IG_V_gene	KNOWN	None	5908	337	111	23029190	23029735	1	None	None
X	PHF8	ENSG00000172943	ENST00000338154	protein_coding	KNOWN	CCDS14355	20672	3075	1024	53963109	54070607	-1	None	ZNF422, KIAA1111, JHDM1F
X	PHF8	ENSG00000172943	ENST00000357988	protein_coding	KNOWN	CCDS55420	20672	3183	1060	53963109	54071682	-1	None	ZNF422, KIAA1111, JHDM1F
X	PHF8	ENSG00000172943	ENST00000396282	protein_coding	NOVEL	None	20672	2861	952	53963931	54048695	-1	None	ZNF422, KIAA1111, JHDM1F
X	PHF8	ENSG00000172943	ENST00000470103	retained_intron	KNOWN	None	20672	None	None	53966802	53970997	-1	None	ZNF422, KIAA1111, JHDM1F
X	PHF8	ENSG00000172943	ENST00000443302	protein_coding	NOVEL	None	20672	1978	658	53969051	54040882	-1	None	ZNF422, KIAA1111, JHDM1F
X	PHF8	ENSG00000172943	ENST00000322659	protein_coding	NOVEL	CCDS55419	20672	2637	878	53969689	54069627	-1	None	ZNF422, KIAA1111, JHDM1F
X	PHF8	ENSG00000172943	ENST00000494928	retained_intron	KNOWN	None	20672	None	None	54014220	54019442	-1	None	ZNF422, KIAA1111, JHDM1F
X	PHF8	ENSG00000172943	ENST00000413386	nonsense_mediated_decay	KNOWN	None	20672	525	174	54019227	54037636	-1	None	ZNF422, KIAA1111, JHDM1F
X	PHF8	ENSG00000172943	ENST00000448003	protein_coding	PUTATIVE	None	20672	403	133	54019235	54029103	-1	None	ZNF422, KIAA1111, JHDM1F
X	PHF8	ENSG00000172943	ENST00000490635	retained_intron	KNOWN	None	20672	None	None	54025920	54040926	-1	None	ZNF422, KIAA1111, JHDM1F
X	PHF8	ENSG00000172943	ENST00000425862	protein_coding	KNOWN	None	20672	378	125	54044170	54069419	-1	None	ZNF422, KIAA1111, JHDM1F
X	PHF8	ENSG00000172943	ENST00000437224	protein_coding	KNOWN	None	20672	345	114	54044203	54075391	-1	None	ZNF422, KIAA1111, JHDM1F
X	PHF8	ENSG00000172943	ENST00000415025	protein_coding	KNOWN	None	20672	344	113	54044204	54070495	-1	None	ZNF422, KIAA1111, JHDM1F
X	PHF8	ENSG00000172943	ENST00000453905	protein_coding	KNOWN	None	20672	444	147	54044212	54075368	-1	None	ZNF422, KIAA1111, JHDM1F
X	PHF8	ENSG00000172943	ENST00000433120	protein_coding	KNOWN	None	20672	293	96	54048692	54069423	-1	None	ZNF422, KIAA1111, JHDM1F
X	PHF8	ENSG00000172943	ENST00000445025	protein_coding	KNOWN	None	20672	293	96	54048692	54069580	-1	None	ZNF422, KIAA1111, JHDM1F
X	PHF8	ENSG00000172943	ENST00000462182	processed_transcript	KNOWN	None	20672	None	None	54066063	54069149	-1	None	ZNF422, KIAA1111, JHDM1F
X	PHF8	ENSG00000172943	ENST00000338946	protein_coding	KNOWN	CCDS55418	20672	2847	948	53963115	54070607	-1	None	ZNF422, KIAA1111, JHDM1F
17	AANAT	ENSG00000129673	ENST00000250615	protein_coding	KNOWN	CCDS54169	19	759	252	74449433	74466199	1	None	SNAT
17	AANAT	ENSG00000129673	ENST00000392492	protein_coding	KNOWN	CCDS11745	19	624	207	74463651	74466199	1	None	SNAT
17	AANAT	ENSG00000129673	ENST00000587798	nonsense_mediated_decay	KNOWN	None	19	279	92	74463800	74466083	1	None	SNAT
17	AANAT	ENSG00000129673	ENST00000585649	protein_coding	PUTATIVE	None	19	455	150	74464692	74465769	1	None	SNAT
1	ATP5F1	ENSG00000116459	ENST00000493119	processed_transcript	KNOWN	None	840	None	None	111991486	111998767	1	None	None
1	ATP5F1	ENSG00000116459	ENST00000369722	protein_coding	KNOWN	CCDS836	840	771	256	111991558	112005395	1	None	None
1	ATP5F1	ENSG00000116459	ENST00000369721	processed_transcript	KNOWN	None	840	None	None	111992087	112003954	1	None	None
1	ATP5F1	ENSG00000116459	ENST00000483994	protein_coding	KNOWN	None	840	588	195	111992106	112003648	1	None	None
1	ATP5F1	ENSG00000116459	ENST00000468818	processed_transcript	KNOWN	None	840	None	None	111992107	112003934	1	None	None
1	ATP5F1	ENSG00000116459	ENST00000464154	processed_transcript	KNOWN	None	840	None	None	111992304	111999370	1	None	None
22	IGLV2-23	ENSG00000211660	ENST00000390306	IG_V_gene	KNOWN	None	5890	340	112	23040274	23040892	1	None	None
19	LRRC25	ENSG00000175489	ENST00000339007	protein_coding	KNOWN	CCDS12377	29806	918	305	18501954	18508427	-1	None	MAPA, FLJ38116
19	LRRC25	ENSG00000175489	ENST00000595840	protein_coding	KNOWN	CCDS12377	29806	918	305	18501959	18508421	-1	None	MAPA, FLJ38116
19	LRRC25	ENSG00000175489	ENST00000607438	protein_coding	KNOWN	None	29806	252	83	18507522	18508394	-1	None	MAPA, FLJ38116
21	VN1R7P	ENSG00000231962	ENST00000414133	processed_pseudogene	KNOWN	None	8496	None	None	11153837	11155057	-1	ORLP1	None
1	TPR	ENSG00000047410	ENST00000367478	protein_coding	KNOWN	CCDS41446	12017	7092	2363	186282954	186344457	-1	None	None
1	TPR	ENSG00000047410	ENST00000467810	processed_transcript	KNOWN	None	12017	None	None	186287637	186291833	-1	None	None
1	TPR	ENSG00000047410	ENST00000492973	retained_intron	KNOWN	None	12017	None	None	186294651	186295352	-1	None	None
1	TPR	ENSG00000047410	ENST00000481347	retained_intron	KNOWN	None	12017	None	None	186307319	186313222	-1	None	None
1	TPR	ENSG00000047410	ENST00000491783	retained_intron	KNOWN	None	12017	None	None	186320555	186325670	-1	None	None
1	TPR	ENSG00000047410	ENST00000469463	retained_intron	KNOWN	None	12017	None	None	186321084	186323080	-1	None	None
1	TPR	ENSG00000047410	ENST00000474852	processed_transcript	KNOWN	None	12017	None	None	186321147	186344457	-1	None	None
1	TPR	ENSG00000047410	ENST00000451586	protein_coding	KNOWN	None	12017	450	149	186342525	186344825	-1	None	None
19	None	ENSG00000267373	ENST00000587693	lincRNA	KNOWN	None	None	None	None	16214571	16215064	-1	None	None
19	None	ENSG00000268465	ENST00000595676	protein_coding	PUTATIVE	None	None	293	96	48969094	48975688	1	None	None
22	IGLV3-22	ENSG00000211661	ENST00000390307	IG_V_gene	KNOWN	None	5906	345	114	23046750	23047307	1	None	None
21	None	ENSG00000271308	ENST00000604142	lincRNA	KNOWN	None	None	None	None	11169720	11183521	1	None	None
21	None	ENSG00000271308	ENST00000603265	lincRNA	KNOWN	None	None	None	None	11169788	11184046	1	None	None
17	RTN4RL1	ENSG00000185924	ENST00000331238	protein_coding	KNOWN	CCDS45569	21329	1326	441	1839299	1928178	-1	None	NGRH2, NgR3, DKFZp547J144
3	TNK2	ENSG00000061938	ENST00000416152	protein_coding	NOVEL	None	19297	1824	607	195590235	195599253	-1	None	p21cdc42Hs, ACK, ACK1
3	TNK2	ENSG00000061938	ENST00000381916	protein_coding	KNOWN	CCDS33927	19297	3261	1086	195590235	195622432	-1	None	p21cdc42Hs, ACK, ACK1
3	TNK2	ENSG00000061938	ENST00000333602	protein_coding	KNOWN	CCDS33928	19297	3117	1038	195590235	195635955	-1	None	p21cdc42Hs, ACK, ACK1
3	TNK2	ENSG00000061938	ENST00000420716	retained_intron	KNOWN	None	19297	None	None	195590236	195596561	-1	None	p21cdc42Hs, ACK, ACK1
3	TNK2	ENSG00000061938	ENST00000428187	protein_coding	PUTATIVE	None	19297	3123	1040	195590236	195619655	-1	None	p21cdc42Hs, ACK, ACK1
3	TNK2	ENSG00000061938	ENST00000495247	processed_transcript	KNOWN	None	19297	None	None	195594955	195597039	-1	None	p21cdc42Hs, ACK, ACK1
3	TNK2	ENSG00000061938	ENST00000464041	retained_intron	KNOWN	None	19297	None	None	195595088	195619646	-1	None	p21cdc42Hs, ACK, ACK1
3	TNK2	ENSG00000061938	ENST00000439230	nonsense_mediated_decay	KNOWN	None	19297	1587	528	195595094	195622804	-1	None	p21cdc42Hs, ACK, ACK1
3	TNK2	ENSG00000061938	ENST00000481865	retained_intron	KNOWN	None	19297	None	None	195595096	195613144	-1	None	p21cdc42Hs, ACK, ACK1
3	TNK2	ENSG00000061938	ENST00000424563	protein_coding	NOVEL	None	19297	726	241	195595227	195603566	-1	None	p21cdc42Hs, ACK, ACK1
3	TNK2	ENSG00000061938	ENST00000478623	processed_transcript	KNOWN	None	19297	None	None	195595377	195603521	-1	None	p21cdc42Hs, ACK, ACK1
3	TNK2	ENSG00000061938	ENST00000411741	protein_coding	NOVEL	None	19297	600	199	195595459	195603607	-1	None	p21cdc42Hs, ACK, ACK1
3	TNK2	ENSG00000061938	ENST00000489628	retained_intron	KNOWN	None	19297	None	None	195595501	195606357	-1	None	p21cdc42Hs, ACK, ACK1
3	TNK2	ENSG00000061938	ENST00000478715	retained_intron	KNOWN	None	19297	None	None	195596330	195599274	-1	None	p21cdc42Hs, ACK, ACK1
3	TNK2	ENSG00000061938	ENST00000468680	retained_intron	KNOWN	None	19297	None	None	195597044	195599677	-1	None	p21cdc42Hs, ACK, ACK1
3	TNK2	ENSG00000061938	ENST00000486523	processed_transcript	PUTATIVE	None	19297	None	None	195599151	195623032	-1	None	p21cdc42Hs, ACK, ACK1
3	TNK2	ENSG00000061938	ENST00000438207	protein_coding	NOVEL	None	19297	870	289	195605382	195615455	-1	None	p21cdc42Hs, ACK, ACK1
3	TNK2	ENSG00000061938	ENST00000430929	nonsense_mediated_decay	KNOWN	None	19297	432	143	195605954	195611904	-1	None	p21cdc42Hs, ACK, ACK1
3	TNK2	ENSG00000061938	ENST00000468819	processed_transcript	KNOWN	None	19297	None	None	195605993	195638816	-1	None	p21cdc42Hs, ACK, ACK1
3	TNK2	ENSG00000061938	ENST00000447060	nonsense_mediated_decay	KNOWN	None	19297	261	86	195611716	195619472	-1	None	p21cdc42Hs, ACK, ACK1
3	TNK2	ENSG00000061938	ENST00000433111	protein_coding	KNOWN	None	19297	293	96	195611846	195621601	-1	None	p21cdc42Hs, ACK, ACK1
3	TNK2	ENSG00000061938	ENST00000427576	protein_coding	PUTATIVE	None	19297	429	142	195613845	195623654	-1	None	p21cdc42Hs, ACK, ACK1
3	TNK2	ENSG00000061938	ENST00000392400	protein_coding	KNOWN	CCDS33928	19297	3117	1038	195590236	195622432	-1	None	p21cdc42Hs, ACK, ACK1
3	TNK2	ENSG00000061938	ENST00000316664	protein_coding	KNOWN	None	19297	1587	528	195597140	195622432	-1	None	p21cdc42Hs, ACK, ACK1
22	IGLV3-21	ENSG00000211662	ENST00000390308	IG_V_gene	KNOWN	None	5905	351	116	23054174	23055688	1	None	None
13	None	ENSG00000204398	ENST00000607406	processed_transcript	KNOWN	None	None	None	None	112240548	112242288	1	None	None
13	None	ENSG00000204398	ENST00000375713	protein_coding	PUTATIVE	None	None	198	65	112240638	112324955	1	None	None
9	None	ENSG00000239593	ENST00000437135	antisense	KNOWN	None	None	None	None	124042141	124045008	-1	None	None
21	EIF3FP1	ENSG00000234643	ENST00000414503	processed_pseudogene	KNOWN	None	3276	None	None	11180920	11181815	-1	EIF3S5P, EIF3FP	None
6	None	ENSG00000267849	ENST00000595057	protein_coding	NOVEL	None	None	249	82	44400472	44400720	-1	None	None
21	None	ENSG00000229306	ENST00000457565	lincRNA	KNOWN	None	None	None	None	14371997	14389013	-1	None	None
9	C9orf40	ENSG00000135045	ENST00000376854	protein_coding	KNOWN	CCDS6648	23433	585	194	77561497	77567802	-1	None	FLJ10110
12	EPYC	ENSG00000083782	ENST00000261172	protein_coding	KNOWN	CCDS31870	3053	969	322	91357456	91398803	-1	DSPG3	Pg-Lb, SLRR3B
12	EPYC	ENSG00000083782	ENST00000551767	protein_coding	KNOWN	None	3053	702	233	91365577	91398803	-1	DSPG3	Pg-Lb, SLRR3B
12	EPYC	ENSG00000083782	ENST00000550203	retained_intron	KNOWN	None	3053	None	None	91366333	91396246	-1	DSPG3	Pg-Lb, SLRR3B
9	GSN-AS1	ENSG00000235865	ENST00000414544	antisense	KNOWN	None	23372	None	None	124043046	124047808	-1	C9orf31	MOST2
15	CELF6	ENSG00000140488	ENST00000569547	nonsense_mediated_decay	KNOWN	CCDS10242	14059	1446	481	72559087	72612287	-1	BRUNOL6	None
15	CELF6	ENSG00000140488	ENST00000287202	protein_coding	NOVEL	CCDS10242	14059	1446	481	72577068	72612470	-1	BRUNOL6	None
15	CELF6	ENSG00000140488	ENST00000437872	nonsense_mediated_decay	KNOWN	None	14059	402	133	72577525	72612128	-1	BRUNOL6	None
15	CELF6	ENSG00000140488	ENST00000543764	protein_coding	NOVEL	CCDS53955	14059	1035	344	72578246	72598656	-1	BRUNOL6	None
15	CELF6	ENSG00000140488	ENST00000567083	protein_coding	NOVEL	CCDS53956	14059	1365	454	72578589	72612223	-1	BRUNOL6	None
15	CELF6	ENSG00000140488	ENST00000569311	processed_transcript	KNOWN	None	14059	None	None	72581970	72598656	-1	BRUNOL6	None
15	CELF6	ENSG00000140488	ENST00000395258	protein_coding	KNOWN	None	14059	1107	368	72577068	72584593	-1	BRUNOL6	None
15	CELF6	ENSG00000140488	ENST00000539635	protein_coding	KNOWN	None	14059	1029	342	72577525	72612128	-1	BRUNOL6	None
13	SOX1	ENSG00000182968	ENST00000330949	protein_coding	KNOWN	CCDS9523	11189	1176	391	112721913	112726020	1	None	None
22	IGLV3-19	ENSG00000211663	ENST00000390309	IG_V_gene	KNOWN	None	5903	337	111	23063108	23063630	1	None	None
7	PDE1C	ENSG00000154678	ENST00000396193	protein_coding	NOVEL	CCDS55100	8776	2310	769	31790793	32338941	-1	None	Hcam3
7	PDE1C	ENSG00000154678	ENST00000396191	protein_coding	KNOWN	CCDS55099	8776	2130	709	31792632	32110461	-1	None	Hcam3
7	PDE1C	ENSG00000154678	ENST00000321453	protein_coding	KNOWN	CCDS55099	8776	2130	709	31792690	32111048	-1	None	Hcam3
7	PDE1C	ENSG00000154678	ENST00000396184	protein_coding	KNOWN	CCDS5437	8776	1905	634	31823118	32111020	-1	None	Hcam3
7	PDE1C	ENSG00000154678	ENST00000479980	processed_transcript	KNOWN	None	8776	None	None	31829785	31860533	-1	None	Hcam3
7	PDE1C	ENSG00000154678	ENST00000396182	protein_coding	KNOWN	CCDS5437	8776	1905	634	31829814	32110474	-1	None	Hcam3
7	PDE1C	ENSG00000154678	ENST00000478736	retained_intron	KNOWN	None	8776	None	None	31887478	31890516	-1	None	Hcam3
7	PDE1C	ENSG00000154678	ENST00000482681	retained_intron	KNOWN	None	8776	None	None	31904631	31918897	-1	None	Hcam3
7	PDE1C	ENSG00000154678	ENST00000464881	processed_transcript	KNOWN	None	8776	None	None	31912945	32117622	-1	None	Hcam3
7	PDE1C	ENSG00000154678	ENST00000396189	protein_coding	KNOWN	None	8776	140	45	31920462	32111045	-1	None	Hcam3
7	PDE1C	ENSG00000154678	ENST00000495221	processed_transcript	PUTATIVE	None	8776	None	None	32110096	32110983	-1	None	Hcam3
20	EYA2	ENSG00000064655	ENST00000327619	protein_coding	KNOWN	CCDS13403	3520	1617	538	45523263	45817492	1	None	EAB1
20	EYA2	ENSG00000064655	ENST00000357410	protein_coding	KNOWN	CCDS54471	3520	1380	459	45523263	45817492	1	None	EAB1
20	EYA2	ENSG00000064655	ENST00000497062	nonsense_mediated_decay	KNOWN	None	3520	766	254	45523509	45817492	1	None	EAB1
20	EYA2	ENSG00000064655	ENST00000497428	processed_transcript	KNOWN	None	3520	None	None	45606874	45618709	1	None	EAB1
20	EYA2	ENSG00000064655	ENST00000479843	processed_transcript	KNOWN	None	3520	None	None	45608122	45618664	1	None	EAB1
20	EYA2	ENSG00000064655	ENST00000471081	processed_transcript	KNOWN	None	3520	None	None	45608331	45618664	1	None	EAB1
20	EYA2	ENSG00000064655	ENST00000317304	protein_coding	KNOWN	None	3520	1527	508	45618640	45816784	1	None	EAB1
20	EYA2	ENSG00000064655	ENST00000458636	protein_coding	PUTATIVE	None	3520	592	196	45630099	45771788	1	None	EAB1
20	EYA2	ENSG00000064655	ENST00000475856	processed_transcript	KNOWN	None	3520	None	None	45717878	45724719	1	None	EAB1
HSCHR6_MHC_DBB	None	ENSG00000257850	ENST00000549087	pseudogene	NOVEL	None	None	None	None	30469437	30469521	-1	None	None
HSCHR6_MHC_DBB	None	ENSG00000258141	ENST00000546773	pseudogene	NOVEL	None	None	None	None	30470537	30470624	-1	None	None
21	ANKRD30BP2	ENSG00000224309	ENST00000447861	retained_intron	KNOWN	None	16620	None	None	14410481	14424439	1	C21orf99	CT85, CTSP-1
21	ANKRD30BP2	ENSG00000224309	ENST00000435744	transcribed_unprocessed_pseudogene	KNOWN	None	16620	None	None	14410529	14439354	1	C21orf99	CT85, CTSP-1
21	ANKRD30BP2	ENSG00000224309	ENST00000507941	processed_transcript	KNOWN	None	16620	None	None	14410651	14418742	1	C21orf99	CT85, CTSP-1
21	ANKRD30BP2	ENSG00000224309	ENST00000471407	processed_transcript	KNOWN	None	16620	None	None	14415105	14424439	1	C21orf99	CT85, CTSP-1
HSCHR6_MHC_DBB	None	ENSG00000233315	ENST00000425738	processed_transcript	PUTATIVE	None	None	None	None	30474278	30477232	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000258356	ENST00000549909	pseudogene	NOVEL	None	None	None	None	30488500	30489586	1	None	None
6	C6orf123	ENSG00000146521	ENST00000495520	nonsense_mediated_decay	KNOWN	None	21235	174	57	168185217	168197539	-1	None	HGC6.2, dJ431P23.4
6	C6orf123	ENSG00000146521	ENST00000366822	protein_coding	PUTATIVE	None	21235	174	57	168187500	168197526	-1	None	HGC6.2, dJ431P23.4
15	KLHL25	ENSG00000183655	ENST00000337975	protein_coding	KNOWN	CCDS10339	25732	1770	589	86302554	86338261	-1	None	FLJ12587, ENC2, ENC-2
15	KLHL25	ENSG00000183655	ENST00000559131	processed_transcript	PUTATIVE	None	25732	None	None	86303848	86338149	-1	None	FLJ12587, ENC2, ENC-2
15	KLHL25	ENSG00000183655	ENST00000536947	protein_coding	KNOWN	CCDS10339	25732	1770	589	86302577	86338100	-1	None	FLJ12587, ENC2, ENC-2
13	SPACA7	ENSG00000153498	ENST00000283550	protein_coding	KNOWN	CCDS9524	29575	588	195	113030633	113089003	1	C13orf28	None
13	SPACA7	ENSG00000153498	ENST00000414180	protein_coding	PUTATIVE	None	29575	313	103	113030669	113053487	1	C13orf28	None
13	SPACA7	ENSG00000153498	ENST00000443541	protein_coding	PUTATIVE	None	29575	335	110	113030702	113055410	1	C13orf28	None
13	SPACA7	ENSG00000153498	ENST00000375699	protein_coding	PUTATIVE	None	29575	495	164	113036592	113089003	1	C13orf28	None
11	LGALS12	ENSG00000133317	ENST00000255684	protein_coding	KNOWN	CCDS53648	15788	984	327	63273556	63284239	1	None	GRIP1
11	LGALS12	ENSG00000133317	ENST00000394618	protein_coding	KNOWN	CCDS8045	15788	1011	336	63273574	63284181	1	None	GRIP1
11	LGALS12	ENSG00000133317	ENST00000340246	protein_coding	KNOWN	CCDS44633	15788	1014	337	63273835	63284246	1	None	GRIP1
11	LGALS12	ENSG00000133317	ENST00000415491	protein_coding	KNOWN	CCDS44634	15788	828	275	63275459	63284239	1	None	GRIP1
11	LGALS12	ENSG00000133317	ENST00000425950	protein_coding	KNOWN	CCDS44635	15788	801	266	63275459	63284239	1	None	GRIP1
9	NRARP	ENSG00000198435	ENST00000356628	protein_coding	KNOWN	CCDS35188	33843	345	114	140194083	140196703	-1	None	MGC61598
22	IGLV2-18	ENSG00000211664	ENST00000390310	IG_V_gene	KNOWN	None	5889	361	119	23077095	23077584	1	None	None
22	IGLV3-16	ENSG00000211665	ENST00000390311	IG_V_gene	KNOWN	None	5901	337	111	23089870	23090398	1	None	None
1	C1orf162	ENSG00000143110	ENST00000343534	protein_coding	KNOWN	CCDS837	28344	468	155	112016414	112021134	1	None	MGC24133
1	C1orf162	ENSG00000143110	ENST00000369718	protein_coding	KNOWN	None	28344	393	130	112016491	112021094	1	None	MGC24133
1	C1orf162	ENSG00000143110	ENST00000464591	processed_transcript	KNOWN	None	28344	None	None	112017190	112021133	1	None	MGC24133
22	IGLV2-14	ENSG00000211666	ENST00000390312	IG_V_gene	KNOWN	None	5888	361	119	23101189	23101707	1	None	None
14	C14orf132	ENSG00000227051	ENST00000555004	protein_coding	KNOWN	None	20346	522	173	96505661	96560417	1	C14orf88	None
14	C14orf132	ENSG00000227051	ENST00000553764	processed_transcript	PUTATIVE	None	20346	None	None	96505699	96553144	1	C14orf88	None
14	C14orf132	ENSG00000227051	ENST00000556728	processed_transcript	PUTATIVE	None	20346	None	None	96505709	96560224	1	C14orf88	None
14	C14orf132	ENSG00000227051	ENST00000553782	processed_transcript	PUTATIVE	None	20346	None	None	96505721	96553146	1	C14orf88	None
14	C14orf132	ENSG00000227051	ENST00000421193	protein_coding	KNOWN	None	20346	522	173	96556596	96557403	1	C14orf88	None
19	ZNF614	ENSG00000142556	ENST00000356322	protein_coding	PUTATIVE	None	24722	597	198	52516018	52531602	-1	None	FLJ21941
19	ZNF614	ENSG00000142556	ENST00000270649	protein_coding	KNOWN	CCDS12847	24722	1758	585	52516578	52531823	-1	None	FLJ21941
19	ZNF614	ENSG00000142556	ENST00000595189	nonsense_mediated_decay	KNOWN	None	24722	243	80	52520254	52531590	-1	None	FLJ21941
19	ZNF614	ENSG00000142556	ENST00000597952	protein_coding	KNOWN	None	24722	117	38	52521646	52533493	-1	None	FLJ21941
22	IGLV3-12	ENSG00000211667	ENST00000390313	IG_V_gene	KNOWN	None	5898	351	116	23114317	23115079	1	None	None
3	MYNN	ENSG00000085274	ENST00000349841	protein_coding	KNOWN	CCDS3207	14955	1833	610	169490619	169506969	1	None	SBBIZ1, ZBTB31, ZNF902
3	MYNN	ENSG00000085274	ENST00000602751	nonsense_mediated_decay	KNOWN	None	14955	276	91	169491193	169505290	1	None	SBBIZ1, ZBTB31, ZNF902
3	MYNN	ENSG00000085274	ENST00000356716	protein_coding	KNOWN	CCDS3207	14955	1833	610	169491215	169505332	1	None	SBBIZ1, ZBTB31, ZNF902
3	MYNN	ENSG00000085274	ENST00000602391	nonsense_mediated_decay	KNOWN	None	14955	716	237	169497077	169502464	1	None	SBBIZ1, ZBTB31, ZNF902
3	MYNN	ENSG00000085274	ENST00000544106	protein_coding	KNOWN	CCDS54671	14955	1746	581	169492053	169507504	1	None	SBBIZ1, ZBTB31, ZNF902
3	MYNN	ENSG00000085274	ENST00000392733	protein_coding	KNOWN	None	14955	1503	500	169490853	169501537	1	None	SBBIZ1, ZBTB31, ZNF902
21	RNU6-614P	ENSG00000207097	ENST00000384369	snRNA	KNOWN	None	47577	None	None	14419904	14420010	1	None	None
22	IGLV2-11	ENSG00000211668	ENST00000390314	IG_V_gene	KNOWN	None	5887	358	118	23134980	23135496	1	None	None
19	CYTH2	ENSG00000105443	ENST00000452733	protein_coding	KNOWN	CCDS12722	9502	1200	399	48972289	48982639	1	PSCD2L, PSCD2	CTS18.1, Sec7p-L, ARNO, Sec7p-like
19	CYTH2	ENSG00000105443	ENST00000460595	retained_intron	KNOWN	None	9502	None	None	48972563	48977532	1	PSCD2L, PSCD2	CTS18.1, Sec7p-L, ARNO, Sec7p-like
19	CYTH2	ENSG00000105443	ENST00000391881	nonsense_mediated_decay	KNOWN	None	9502	879	292	48972578	48982622	1	PSCD2L, PSCD2	CTS18.1, Sec7p-L, ARNO, Sec7p-like
19	CYTH2	ENSG00000105443	ENST00000493260	retained_intron	KNOWN	None	9502	None	None	48972604	48982639	1	PSCD2L, PSCD2	CTS18.1, Sec7p-L, ARNO, Sec7p-like
19	CYTH2	ENSG00000105443	ENST00000462117	retained_intron	KNOWN	None	9502	None	None	48972608	48975797	1	PSCD2L, PSCD2	CTS18.1, Sec7p-L, ARNO, Sec7p-like
19	CYTH2	ENSG00000105443	ENST00000474049	retained_intron	KNOWN	None	9502	None	None	48972622	48975780	1	PSCD2L, PSCD2	CTS18.1, Sec7p-L, ARNO, Sec7p-like
19	CYTH2	ENSG00000105443	ENST00000325139	protein_coding	PUTATIVE	None	9502	762	253	48972891	48977587	1	PSCD2L, PSCD2	CTS18.1, Sec7p-L, ARNO, Sec7p-like
19	CYTH2	ENSG00000105443	ENST00000595765	protein_coding	PUTATIVE	None	9502	645	214	48975609	48978405	1	PSCD2L, PSCD2	CTS18.1, Sec7p-L, ARNO, Sec7p-like
19	CYTH2	ENSG00000105443	ENST00000474209	retained_intron	KNOWN	None	9502	None	None	48975978	48977266	1	PSCD2L, PSCD2	CTS18.1, Sec7p-L, ARNO, Sec7p-like
19	CYTH2	ENSG00000105443	ENST00000467412	retained_intron	KNOWN	None	9502	None	None	48975978	48979533	1	PSCD2L, PSCD2	CTS18.1, Sec7p-L, ARNO, Sec7p-like
19	CYTH2	ENSG00000105443	ENST00000427476	protein_coding	KNOWN	None	9502	1203	400	48972465	48985571	1	PSCD2L, PSCD2	CTS18.1, Sec7p-L, ARNO, Sec7p-like
21	ZNF355P	ENSG00000168122	ENST00000427301	unprocessed_pseudogene	KNOWN	None	17218	None	None	14467626	14486111	-1	ZNF834	PRED65
1	PTP4A2	ENSG00000184007	ENST00000602725	protein_coding	KNOWN	CCDS348	9635	504	167	32372022	32385084	-1	PTP4A	HU-PP-1, PTPCAAX2, OV-1, ptp-IV1a, PRL-2
1	PTP4A2	ENSG00000184007	ENST00000457805	protein_coding	KNOWN	CCDS53292	9635	411	136	32374135	32384969	-1	PTP4A	HU-PP-1, PTPCAAX2, OV-1, ptp-IV1a, PRL-2
1	PTP4A2	ENSG00000184007	ENST00000489313	retained_intron	KNOWN	None	9635	None	None	32374254	32376881	-1	PTP4A	HU-PP-1, PTPCAAX2, OV-1, ptp-IV1a, PRL-2
1	PTP4A2	ENSG00000184007	ENST00000602683	protein_coding	KNOWN	CCDS59193	9635	429	142	32374259	32384710	-1	PTP4A	HU-PP-1, PTPCAAX2, OV-1, ptp-IV1a, PRL-2
1	PTP4A2	ENSG00000184007	ENST00000470404	protein_coding	PUTATIVE	None	9635	222	73	32374309	32384724	-1	PTP4A	HU-PP-1, PTPCAAX2, OV-1, ptp-IV1a, PRL-2
1	PTP4A2	ENSG00000184007	ENST00000532001	nonsense_mediated_decay	KNOWN	None	9635	201	66	32374440	32384960	-1	PTP4A	HU-PP-1, PTPCAAX2, OV-1, ptp-IV1a, PRL-2
1	PTP4A2	ENSG00000184007	ENST00000528253	nonsense_mediated_decay	KNOWN	None	9635	210	69	32375670	32385065	-1	PTP4A	HU-PP-1, PTPCAAX2, OV-1, ptp-IV1a, PRL-2
1	PTP4A2	ENSG00000184007	ENST00000484483	retained_intron	KNOWN	None	9635	None	None	32381141	32384773	-1	PTP4A	HU-PP-1, PTPCAAX2, OV-1, ptp-IV1a, PRL-2
1	PTP4A2	ENSG00000184007	ENST00000468531	protein_coding	KNOWN	None	9635	189	62	32381496	32408177	-1	PTP4A	HU-PP-1, PTPCAAX2, OV-1, ptp-IV1a, PRL-2
1	PTP4A2	ENSG00000184007	ENST00000534796	protein_coding	KNOWN	None	9635	66	21	32384601	32403386	-1	PTP4A	HU-PP-1, PTPCAAX2, OV-1, ptp-IV1a, PRL-2
1	PTP4A2	ENSG00000184007	ENST00000532289	processed_transcript	KNOWN	None	9635	None	None	32384695	32403487	-1	PTP4A	HU-PP-1, PTPCAAX2, OV-1, ptp-IV1a, PRL-2
1	PTP4A2	ENSG00000184007	ENST00000526960	processed_transcript	PUTATIVE	None	9635	None	None	32384731	32410457	-1	PTP4A	HU-PP-1, PTPCAAX2, OV-1, ptp-IV1a, PRL-2
1	PTP4A2	ENSG00000184007	ENST00000524384	processed_transcript	KNOWN	None	9635	None	None	32384830	32403401	-1	PTP4A	HU-PP-1, PTPCAAX2, OV-1, ptp-IV1a, PRL-2
1	PTP4A2	ENSG00000184007	ENST00000528840	processed_transcript	PUTATIVE	None	9635	None	None	32384845	32403419	-1	PTP4A	HU-PP-1, PTPCAAX2, OV-1, ptp-IV1a, PRL-2
1	PTP4A2	ENSG00000184007	ENST00000494444	processed_transcript	KNOWN	None	9635	None	None	32384848	32403643	-1	PTP4A	HU-PP-1, PTPCAAX2, OV-1, ptp-IV1a, PRL-2
1	PTP4A2	ENSG00000184007	ENST00000529477	processed_transcript	KNOWN	None	9635	None	None	32384861	32403959	-1	PTP4A	HU-PP-1, PTPCAAX2, OV-1, ptp-IV1a, PRL-2
1	PTP4A2	ENSG00000184007	ENST00000533408	processed_transcript	KNOWN	None	9635	None	None	32385025	32403787	-1	PTP4A	HU-PP-1, PTPCAAX2, OV-1, ptp-IV1a, PRL-2
1	PTP4A2	ENSG00000184007	ENST00000475464	processed_transcript	KNOWN	None	9635	None	None	32385170	32403383	-1	PTP4A	HU-PP-1, PTPCAAX2, OV-1, ptp-IV1a, PRL-2
1	PTP4A2	ENSG00000184007	ENST00000344035	protein_coding	KNOWN	CCDS348	9635	504	167	32372022	32403988	-1	PTP4A	HU-PP-1, PTPCAAX2, OV-1, ptp-IV1a, PRL-2
1	PTP4A2	ENSG00000184007	ENST00000356536	protein_coding	KNOWN	None	9635	249	82	32373793	32403988	-1	PTP4A	HU-PP-1, PTPCAAX2, OV-1, ptp-IV1a, PRL-2
22	IGLV3-10	ENSG00000211669	ENST00000390315	IG_V_gene	KNOWN	None	5897	351	116	23154244	23154782	1	None	None
15	SCAPER	ENSG00000140386	ENST00000538941	protein_coding	KNOWN	CCDS53961	13081	3465	1154	76640526	77154285	-1	ZNF291	Zfp291
15	SCAPER	ENSG00000140386	ENST00000563290	protein_coding	KNOWN	CCDS53962	13081	4203	1400	76640526	77197676	-1	ZNF291	Zfp291
15	SCAPER	ENSG00000140386	ENST00000562948	retained_intron	KNOWN	None	13081	None	None	76640538	76646992	-1	ZNF291	Zfp291
15	SCAPER	ENSG00000140386	ENST00000563246	processed_transcript	PUTATIVE	None	13081	None	None	76640794	76646888	-1	ZNF291	Zfp291
15	SCAPER	ENSG00000140386	ENST00000303521	retained_intron	KNOWN	None	13081	None	None	76672050	77197744	-1	ZNF291	Zfp291
15	SCAPER	ENSG00000140386	ENST00000567601	processed_transcript	PUTATIVE	None	13081	None	None	76673905	76677592	-1	ZNF291	Zfp291
15	SCAPER	ENSG00000140386	ENST00000569395	processed_transcript	PUTATIVE	None	13081	None	None	76726474	76790938	-1	ZNF291	Zfp291
15	SCAPER	ENSG00000140386	ENST00000568428	processed_transcript	KNOWN	None	13081	None	None	76726522	76869292	-1	ZNF291	Zfp291
15	SCAPER	ENSG00000140386	ENST00000564757	nonsense_mediated_decay	KNOWN	None	13081	298	98	76726601	76957999	-1	ZNF291	Zfp291
15	SCAPER	ENSG00000140386	ENST00000563688	retained_intron	KNOWN	None	13081	None	None	76763437	76914170	-1	ZNF291	Zfp291
15	SCAPER	ENSG00000140386	ENST00000569784	processed_transcript	PUTATIVE	None	13081	None	None	76763603	76869326	-1	ZNF291	Zfp291
15	SCAPER	ENSG00000140386	ENST00000565507	nonsense_mediated_decay	KNOWN	None	13081	228	75	76995307	77197678	-1	ZNF291	Zfp291
15	SCAPER	ENSG00000140386	ENST00000564590	protein_coding	KNOWN	None	13081	2302	766	76995307	77197785	-1	ZNF291	Zfp291
15	SCAPER	ENSG00000140386	ENST00000565970	protein_coding	KNOWN	None	13081	2242	746	76998267	77197620	-1	ZNF291	Zfp291
15	SCAPER	ENSG00000140386	ENST00000564022	protein_coding	PUTATIVE	None	13081	574	190	77059321	77067405	-1	ZNF291	Zfp291
15	SCAPER	ENSG00000140386	ENST00000568549	nonsense_mediated_decay	KNOWN	None	13081	189	62	77064154	77092608	-1	ZNF291	Zfp291
15	SCAPER	ENSG00000140386	ENST00000567618	processed_transcript	PUTATIVE	None	13081	None	None	77064224	77089949	-1	ZNF291	Zfp291
15	SCAPER	ENSG00000140386	ENST00000562890	processed_transcript	PUTATIVE	None	13081	None	None	77067273	77089884	-1	ZNF291	Zfp291
15	SCAPER	ENSG00000140386	ENST00000568382	protein_coding	PUTATIVE	None	13081	346	114	77087645	77197692	-1	ZNF291	Zfp291
15	SCAPER	ENSG00000140386	ENST00000565372	protein_coding	PUTATIVE	None	13081	462	153	77087733	77197690	-1	ZNF291	Zfp291
15	SCAPER	ENSG00000140386	ENST00000564177	protein_coding	PUTATIVE	None	13081	182	59	77092616	77197690	-1	ZNF291	Zfp291
15	SCAPER	ENSG00000140386	ENST00000563919	protein_coding	KNOWN	None	13081	335	110	77134133	77197708	-1	ZNF291	Zfp291
15	SCAPER	ENSG00000140386	ENST00000324767	protein_coding	KNOWN	CCDS53962	13081	4203	1400	76640529	77176217	-1	ZNF291	Zfp291
12	KERA	ENSG00000139330	ENST00000266719	protein_coding	KNOWN	CCDS9037	6309	1059	352	91444268	91451760	-1	CNA2	SLRR2B
22	IGLV3-9	ENSG00000211670	ENST00000390316	IG_V_gene	KNOWN	None	5918	346	114	23161507	23162253	1	None	None
22	IGLV2-8	ENSG00000211671	ENST00000390317	IG_V_gene	KNOWN	None	5895	358	118	23165153	23165787	1	None	None
6	None	ENSG00000269155	ENST00000597278	protein_coding	KNOWN	None	None	567	188	168196210	168198927	1	None	None
9	C9orf41	ENSG00000156017	ENST00000376834	protein_coding	KNOWN	CCDS6649	23435	1230	409	77595936	77643310	-1	None	FLJ25795
9	C9orf41	ENSG00000156017	ENST00000451153	protein_coding	KNOWN	None	23435	715	237	77613526	77642015	-1	None	FLJ25795
9	C9orf41	ENSG00000156017	ENST00000376830	protein_coding	KNOWN	None	23435	462	153	77631765	77643339	-1	None	FLJ25795
9	C9orf41	ENSG00000156017	ENST00000376837	protein_coding	KNOWN	None	23435	591	196	77599832	77643189	-1	None	FLJ25795
9	CAMSAP1	ENSG00000130559	ENST00000389532	protein_coding	KNOWN	CCDS35176	19946	4809	1602	138700333	138799070	-1	None	FLJ31228, DKFZp434F195
9	CAMSAP1	ENSG00000130559	ENST00000312405	protein_coding	KNOWN	None	19946	3975	1324	138701427	138774743	-1	None	FLJ31228, DKFZp434F195
9	CAMSAP1	ENSG00000130559	ENST00000483991	processed_transcript	KNOWN	None	19946	None	None	138702269	138718255	-1	None	FLJ31228, DKFZp434F195
9	CAMSAP1	ENSG00000130559	ENST00000409386	protein_coding	KNOWN	None	19946	4842	1613	138702336	138799074	-1	None	FLJ31228, DKFZp434F195
9	CAMSAP1	ENSG00000130559	ENST00000482664	retained_intron	KNOWN	None	19946	None	None	138703359	138710493	-1	None	FLJ31228, DKFZp434F195
9	CAMSAP1	ENSG00000130559	ENST00000487868	retained_intron	KNOWN	None	19946	None	None	138703361	138710017	-1	None	FLJ31228, DKFZp434F195
9	CAMSAP1	ENSG00000130559	ENST00000493088	processed_transcript	KNOWN	None	19946	None	None	138709634	138710912	-1	None	FLJ31228, DKFZp434F195
9	CAMSAP1	ENSG00000130559	ENST00000492174	processed_transcript	KNOWN	None	19946	None	None	138741703	138754407	-1	None	FLJ31228, DKFZp434F195
9	CAMSAP1	ENSG00000130559	ENST00000468150	processed_transcript	KNOWN	None	19946	None	None	138757094	138773564	-1	None	FLJ31228, DKFZp434F195
9	CAMSAP1	ENSG00000130559	ENST00000460094	processed_transcript	KNOWN	None	19946	None	None	138758225	138774712	-1	None	FLJ31228, DKFZp434F195
21	N6AMT1	ENSG00000156239	ENST00000303775	protein_coding	KNOWN	CCDS33526	16021	645	214	30244513	30257693	-1	C21orf127, HEMK2	PRED28, N6AMT, MTQ2
21	N6AMT1	ENSG00000156239	ENST00000351429	protein_coding	KNOWN	CCDS33525	16021	561	186	30244513	30257693	-1	C21orf127, HEMK2	PRED28, N6AMT, MTQ2
21	N6AMT1	ENSG00000156239	ENST00000460212	nonsense_mediated_decay	KNOWN	CCDS33526	16021	645	214	30244513	30257693	-1	C21orf127, HEMK2	PRED28, N6AMT, MTQ2
17	DPH1	ENSG00000108963	ENST00000263083	protein_coding	KNOWN	CCDS42228	3003	1332	443	1933404	1946724	1	DPH2L, DPH2L1	OVCA1
17	DPH1	ENSG00000108963	ENST00000575667	nonsense_mediated_decay	KNOWN	None	3003	644	213	1933453	1946318	1	DPH2L, DPH2L1	OVCA1
17	DPH1	ENSG00000108963	ENST00000571418	protein_coding	KNOWN	None	3003	1295	430	1933453	1946318	1	DPH2L, DPH2L1	OVCA1
17	DPH1	ENSG00000108963	ENST00000572819	retained_intron	KNOWN	None	3003	None	None	1933461	1940475	1	DPH2L, DPH2L1	OVCA1
17	DPH1	ENSG00000108963	ENST00000576129	retained_intron	KNOWN	None	3003	None	None	1933480	1940577	1	DPH2L, DPH2L1	OVCA1
17	DPH1	ENSG00000108963	ENST00000570477	protein_coding	KNOWN	None	3003	1092	363	1936687	1946259	1	DPH2L, DPH2L1	OVCA1
17	DPH1	ENSG00000108963	ENST00000570833	nonsense_mediated_decay	KNOWN	None	3003	150	49	1937114	1943081	1	DPH2L, DPH2L1	OVCA1
17	DPH1	ENSG00000108963	ENST00000576891	processed_transcript	KNOWN	None	3003	None	None	1938180	1940250	1	DPH2L, DPH2L1	OVCA1
17	DPH1	ENSG00000108963	ENST00000572214	retained_intron	KNOWN	None	3003	None	None	1940189	1945997	1	DPH2L, DPH2L1	OVCA1
17	DPH1	ENSG00000108963	ENST00000570867	retained_intron	KNOWN	None	3003	None	None	1942259	1946718	1	DPH2L, DPH2L1	OVCA1
17	DPH1	ENSG00000108963	ENST00000575998	retained_intron	KNOWN	None	3003	None	None	1942847	1943775	1	DPH2L, DPH2L1	OVCA1
17	DPH1	ENSG00000108963	ENST00000571710	protein_coding	NOVEL	None	3003	446	147	1943634	1946718	1	DPH2L, DPH2L1	OVCA1
17	DPH1	ENSG00000108963	ENST00000572684	retained_intron	KNOWN	None	3003	None	None	1943966	1946718	1	DPH2L, DPH2L1	OVCA1
17	DPH1	ENSG00000108963	ENST00000607788	protein_coding	PUTATIVE	None	3003	311	102	1944396	1946715	1	DPH2L, DPH2L1	OVCA1
17	DPH1	ENSG00000108963	ENST00000572248	retained_intron	KNOWN	None	3003	None	None	1944575	1945984	1	DPH2L, DPH2L1	OVCA1
17	DPH1	ENSG00000108963	ENST00000575162	retained_intron	KNOWN	None	3003	None	None	1944828	1946213	1	DPH2L, DPH2L1	OVCA1
17	DPH1	ENSG00000108963	ENST00000263084	retained_intron	KNOWN	None	3003	None	None	1944847	1945922	1	DPH2L, DPH2L1	OVCA1
17	RHBDF2	ENSG00000129667	ENST00000590168	retained_intron	KNOWN	None	20788	None	None	74466973	74473813	-1	RHBDL6	FLJ22341, RHBDL5
17	RHBDF2	ENSG00000129667	ENST00000313080	protein_coding	KNOWN	CCDS32743	20788	2571	856	74466978	74497489	-1	RHBDL6	FLJ22341, RHBDL5
17	RHBDF2	ENSG00000129667	ENST00000591885	protein_coding	KNOWN	CCDS32744	20788	2484	827	74467151	74497872	-1	RHBDL6	FLJ22341, RHBDL5
17	RHBDF2	ENSG00000129667	ENST00000591860	protein_coding	PUTATIVE	None	20788	261	86	74467896	74469157	-1	RHBDL6	FLJ22341, RHBDL5
17	RHBDF2	ENSG00000129667	ENST00000589582	retained_intron	KNOWN	None	20788	None	None	74470286	74477629	-1	RHBDL6	FLJ22341, RHBDL5
17	RHBDF2	ENSG00000129667	ENST00000587640	retained_intron	KNOWN	None	20788	None	None	74472005	74477609	-1	RHBDL6	FLJ22341, RHBDL5
17	RHBDF2	ENSG00000129667	ENST00000592123	protein_coding	KNOWN	None	20788	555	184	74475164	74497494	-1	RHBDL6	FLJ22341, RHBDL5
17	RHBDF2	ENSG00000129667	ENST00000592378	processed_transcript	KNOWN	None	20788	None	None	74475228	74497466	-1	RHBDL6	FLJ22341, RHBDL5
17	RHBDF2	ENSG00000129667	ENST00000585989	protein_coding	KNOWN	None	20788	338	111	74475294	74497503	-1	RHBDL6	FLJ22341, RHBDL5
17	RHBDF2	ENSG00000129667	ENST00000589526	protein_coding	KNOWN	None	20788	269	88	74475818	74489284	-1	RHBDL6	FLJ22341, RHBDL5
17	RHBDF2	ENSG00000129667	ENST00000591697	protein_coding	KNOWN	None	20788	222	73	74475865	74497505	-1	RHBDL6	FLJ22341, RHBDL5
17	RHBDF2	ENSG00000129667	ENST00000591879	protein_coding	KNOWN	None	20788	219	72	74475868	74477976	-1	RHBDL6	FLJ22341, RHBDL5
17	RHBDF2	ENSG00000129667	ENST00000585701	protein_coding	KNOWN	None	20788	142	46	74477465	74489236	-1	RHBDL6	FLJ22341, RHBDL5
17	RHBDF2	ENSG00000129667	ENST00000591192	protein_coding	KNOWN	None	20788	141	46	74477466	74489236	-1	RHBDL6	FLJ22341, RHBDL5
17	RHBDF2	ENSG00000129667	ENST00000590322	protein_coding	KNOWN	None	20788	86	27	74477521	74484260	-1	RHBDL6	FLJ22341, RHBDL5
17	RHBDF2	ENSG00000129667	ENST00000590288	protein_coding	KNOWN	None	20788	79	25	74477528	74497453	-1	RHBDL6	FLJ22341, RHBDL5
17	RHBDF2	ENSG00000129667	ENST00000591255	protein_coding	KNOWN	None	20788	40	12	74477567	74497497	-1	RHBDL6	FLJ22341, RHBDL5
17	RHBDF2	ENSG00000129667	ENST00000593103	retained_intron	KNOWN	None	20788	None	None	74483493	74497497	-1	RHBDL6	FLJ22341, RHBDL5
17	RHBDF2	ENSG00000129667	ENST00000389760	protein_coding	KNOWN	CCDS32744	20788	2484	827	74466976	74497508	-1	RHBDL6	FLJ22341, RHBDL5
8	ADRA1A	ENSG00000120907	ENST00000380586	protein_coding	KNOWN	CCDS34869	277	1428	475	26605667	26722922	-1	ADRA1C	ADRA1L1
8	ADRA1A	ENSG00000120907	ENST00000519096	nonsense_mediated_decay	KNOWN	None	277	975	324	26605667	26722922	-1	ADRA1C	ADRA1L1
8	ADRA1A	ENSG00000120907	ENST00000380582	protein_coding	KNOWN	CCDS6052	277	1290	429	26613913	26722922	-1	ADRA1C	ADRA1L1
8	ADRA1A	ENSG00000120907	ENST00000521711	nonsense_mediated_decay	KNOWN	None	277	975	324	26613913	26722922	-1	ADRA1C	ADRA1L1
8	ADRA1A	ENSG00000120907	ENST00000519229	protein_coding	PUTATIVE	None	277	1284	427	26614077	26722493	-1	ADRA1C	ADRA1L1
8	ADRA1A	ENSG00000120907	ENST00000354550	protein_coding	KNOWN	CCDS6053	277	1368	455	26623371	26722686	-1	ADRA1C	ADRA1L1
8	ADRA1A	ENSG00000120907	ENST00000276393	protein_coding	KNOWN	CCDS6054	277	1401	466	26627222	26722922	-1	ADRA1C	ADRA1L1
8	ADRA1A	ENSG00000120907	ENST00000380573	protein_coding	KNOWN	CCDS6054	277	1401	466	26627543	26724790	-1	ADRA1C	ADRA1L1
8	ADRA1A	ENSG00000120907	ENST00000518621	processed_transcript	KNOWN	None	277	None	None	26627727	26712091	-1	ADRA1C	ADRA1L1
8	ADRA1A	ENSG00000120907	ENST00000380572	protein_coding	KNOWN	None	277	1029	342	26636570	26722922	-1	ADRA1C	ADRA1L1
8	ADRA1A	ENSG00000120907	ENST00000518810	processed_transcript	PUTATIVE	None	277	None	None	26711247	26712168	-1	ADRA1C	ADRA1L1
8	ADRA1A	ENSG00000120907	ENST00000380587	protein_coding	KNOWN	None	277	1113	370	26605667	26722922	-1	ADRA1C	ADRA1L1
8	ADRA1A	ENSG00000120907	ENST00000380581	protein_coding	KNOWN	None	277	1119	372	26614061	26722922	-1	ADRA1C	ADRA1L1
8	ADRA1A	ENSG00000120907	ENST00000358857	protein_coding	KNOWN	None	277	975	324	26716631	26722922	-1	ADRA1C	ADRA1L1
1	ADORA3	ENSG00000121933	ENST00000414219	protein_coding	KNOWN	None	268	623	206	112025970	112032284	-1	None	AD026
1	ADORA3	ENSG00000121933	ENST00000369716	protein_coding	KNOWN	CCDS838	268	1044	347	112025970	112046110	-1	None	AD026
1	ADORA3	ENSG00000121933	ENST00000369717	protein_coding	KNOWN	CCDS41369	268	801	266	112025970	112106584	-1	None	AD026
1	ADORA3	ENSG00000121933	ENST00000443498	protein_coding	KNOWN	None	268	519	172	112026191	112106556	-1	None	AD026
1	ADORA3	ENSG00000121933	ENST00000472933	processed_transcript	KNOWN	None	268	None	None	112027937	112031446	-1	None	AD026
1	ADORA3	ENSG00000121933	ENST00000442484	protein_coding	KNOWN	None	268	345	114	112028428	112033329	-1	None	AD026
1	ADORA3	ENSG00000121933	ENST00000463993	processed_transcript	KNOWN	None	268	None	None	112029261	112032312	-1	None	AD026
1	ADORA3	ENSG00000121933	ENST00000241356	protein_coding	KNOWN	CCDS839	268	957	318	112042051	112046382	-1	None	AD026
1	ADORA3	ENSG00000121933	ENST00000495493	processed_transcript	PUTATIVE	None	268	None	None	112042553	112046255	-1	None	AD026
1	ADORA3	ENSG00000121933	ENST00000486342	processed_transcript	PUTATIVE	None	268	None	None	112043132	112045709	-1	None	AD026
9	EXD3	ENSG00000187609	ENST00000491734	nonsense_mediated_decay	KNOWN	None	26023	423	140	140201348	140261084	-1	None	LOC54932, FLJ20433, mut-7
9	EXD3	ENSG00000187609	ENST00000340951	protein_coding	KNOWN	CCDS48066	26023	2631	876	140201357	140317714	-1	None	LOC54932, FLJ20433, mut-7
9	EXD3	ENSG00000187609	ENST00000487745	retained_intron	KNOWN	None	26023	None	None	140201369	140247436	-1	None	LOC54932, FLJ20433, mut-7
9	EXD3	ENSG00000187609	ENST00000478344	nonsense_mediated_decay	KNOWN	None	26023	110	35	140237611	140260993	-1	None	LOC54932, FLJ20433, mut-7
9	EXD3	ENSG00000187609	ENST00000484392	processed_transcript	KNOWN	None	26023	None	None	140243833	140248210	-1	None	LOC54932, FLJ20433, mut-7
9	EXD3	ENSG00000187609	ENST00000478350	processed_transcript	KNOWN	None	26023	None	None	140245928	140248223	-1	None	LOC54932, FLJ20433, mut-7
9	EXD3	ENSG00000187609	ENST00000472958	retained_intron	KNOWN	None	26023	None	None	140247085	140251749	-1	None	LOC54932, FLJ20433, mut-7
9	EXD3	ENSG00000187609	ENST00000490886	processed_transcript	KNOWN	None	26023	None	None	140248352	140289860	-1	None	LOC54932, FLJ20433, mut-7
9	EXD3	ENSG00000187609	ENST00000479452	protein_coding	PUTATIVE	None	26023	741	246	140260597	140317607	-1	None	LOC54932, FLJ20433, mut-7
9	EXD3	ENSG00000187609	ENST00000460390	nonsense_mediated_decay	KNOWN	None	26023	123	40	140260597	140317663	-1	None	LOC54932, FLJ20433, mut-7
9	EXD3	ENSG00000187609	ENST00000475006	processed_transcript	KNOWN	None	26023	None	None	140262017	140317611	-1	None	LOC54932, FLJ20433, mut-7
9	EXD3	ENSG00000187609	ENST00000465160	protein_coding	PUTATIVE	None	26023	171	56	140286254	140317614	-1	None	LOC54932, FLJ20433, mut-7
9	EXD3	ENSG00000187609	ENST00000342129	protein_coding	KNOWN	None	26023	1545	514	140201348	140317714	-1	None	LOC54932, FLJ20433, mut-7
2	CACNB4	ENSG00000182389	ENST00000539935	protein_coding	KNOWN	CCDS46426	1404	1563	520	152689290	152955593	-1	None	EJM4
2	CACNB4	ENSG00000182389	ENST00000439467	protein_coding	PUTATIVE	None	1404	1548	515	152695128	152954975	-1	None	EJM4
2	CACNB4	ENSG00000182389	ENST00000534999	protein_coding	KNOWN	CCDS46428	1404	1461	486	152695140	152830454	-1	None	EJM4
2	CACNB4	ENSG00000182389	ENST00000397327	protein_coding	PUTATIVE	None	1404	1422	473	152695198	152830454	-1	None	EJM4
2	CACNB4	ENSG00000182389	ENST00000427385	protein_coding	NOVEL	CCDS46427	1404	1509	502	152695328	152955235	-1	None	EJM4
2	CACNB4	ENSG00000182389	ENST00000201943	protein_coding	NOVEL	CCDS54409	1404	1377	458	152695628	152955537	-1	None	EJM4
2	CACNB4	ENSG00000182389	ENST00000470066	retained_intron	KNOWN	None	1404	None	None	152722275	152830234	-1	None	EJM4
2	CACNB4	ENSG00000182389	ENST00000434468	protein_coding	PUTATIVE	None	1404	326	107	152732994	152828502	-1	None	EJM4
2	CACNB4	ENSG00000182389	ENST00000475848	processed_transcript	KNOWN	None	1404	None	None	152739811	152830485	-1	None	EJM4
2	CACNB4	ENSG00000182389	ENST00000360283	protein_coding	KNOWN	None	1404	1464	487	152689300	152830485	-1	None	EJM4
2	HPCAL1	ENSG00000115756	ENST00000423674	protein_coding	KNOWN	None	5145	90	29	10443015	10559973	1	None	BDR1, HLP2, VILIP-3
2	HPCAL1	ENSG00000115756	ENST00000307845	protein_coding	KNOWN	CCDS1671	5145	582	193	10443033	10567735	1	None	BDR1, HLP2, VILIP-3
2	HPCAL1	ENSG00000115756	ENST00000381765	protein_coding	KNOWN	CCDS1671	5145	582	193	10443826	10567743	1	None	BDR1, HLP2, VILIP-3
2	HPCAL1	ENSG00000115756	ENST00000419810	nonsense_mediated_decay	KNOWN	None	5145	528	175	10464473	10567478	1	None	BDR1, HLP2, VILIP-3
2	HPCAL1	ENSG00000115756	ENST00000422133	protein_coding	PUTATIVE	None	5145	310	102	10560147	10567126	1	None	BDR1, HLP2, VILIP-3
13	TUBGCP3	ENSG00000126216	ENST00000261965	protein_coding	KNOWN	CCDS9525	18598	2724	907	113139325	113242481	-1	None	GCP3, Spc98p, SPBC98
13	TUBGCP3	ENSG00000126216	ENST00000469302	processed_transcript	KNOWN	None	18598	None	None	113140158	113144137	-1	None	GCP3, Spc98p, SPBC98
13	TUBGCP3	ENSG00000126216	ENST00000375669	protein_coding	PUTATIVE	None	18598	2475	824	113153123	113242439	-1	None	GCP3, Spc98p, SPBC98
13	TUBGCP3	ENSG00000126216	ENST00000462580	processed_transcript	KNOWN	None	18598	None	None	113176634	113200517	-1	None	GCP3, Spc98p, SPBC98
13	TUBGCP3	ENSG00000126216	ENST00000464139	retained_intron	KNOWN	None	18598	None	None	113200796	113242449	-1	None	GCP3, Spc98p, SPBC98
13	TUBGCP3	ENSG00000126216	ENST00000483532	processed_transcript	KNOWN	None	18598	None	None	113212510	113241660	-1	None	GCP3, Spc98p, SPBC98
HSCHR6_MHC_MCF	PRRC2A	ENSG00000225748	ENST00000454306	protein_coding	KNOWN	None	13918	6474	2157	31664790	31681839	1	BAT2	G2, D6S51E
HSCHR6_MHC_MCF	PRRC2A	ENSG00000225748	ENST00000468994	processed_transcript	KNOWN	None	13918	None	None	31664794	31670930	1	BAT2	G2, D6S51E
HSCHR6_MHC_MCF	PRRC2A	ENSG00000225748	ENST00000432252	protein_coding	KNOWN	None	13918	6474	2157	31664795	31681839	1	BAT2	G2, D6S51E
HSCHR6_MHC_MCF	PRRC2A	ENSG00000225748	ENST00000496475	retained_intron	KNOWN	None	13918	None	None	31668970	31669565	1	BAT2	G2, D6S51E
HSCHR6_MHC_MCF	PRRC2A	ENSG00000225748	ENST00000465869	retained_intron	KNOWN	None	13918	None	None	31669822	31671142	1	BAT2	G2, D6S51E
HSCHR6_MHC_MCF	PRRC2A	ENSG00000225748	ENST00000495051	retained_intron	KNOWN	None	13918	None	None	31672708	31673836	1	BAT2	G2, D6S51E
HSCHR6_MHC_MCF	PRRC2A	ENSG00000225748	ENST00000496033	retained_intron	KNOWN	None	13918	None	None	31678022	31678824	1	BAT2	G2, D6S51E
HSCHR6_MHC_MCF	PRRC2A	ENSG00000225748	ENST00000498585	retained_intron	KNOWN	None	13918	None	None	31678475	31679384	1	BAT2	G2, D6S51E
HSCHR6_MHC_MCF	PRRC2A	ENSG00000225748	ENST00000483111	retained_intron	KNOWN	None	13918	None	None	31679310	31679777	1	BAT2	G2, D6S51E
HSCHR6_MHC_MCF	PRRC2A	ENSG00000225748	ENST00000479603	retained_intron	KNOWN	None	13918	None	None	31679428	31680318	1	BAT2	G2, D6S51E
HSCHR6_MHC_MCF	PRRC2A	ENSG00000225748	ENST00000487457	retained_intron	KNOWN	None	13918	None	None	31679444	31680879	1	BAT2	G2, D6S51E
HSCHR6_MHC_MCF	PRRC2A	ENSG00000225748	ENST00000468007	retained_intron	KNOWN	None	13918	None	None	31680315	31681839	1	BAT2	G2, D6S51E
HSCHR6_MHC_MCF	PRRC2A	ENSG00000225748	ENST00000496185	retained_intron	KNOWN	None	13918	None	None	31680604	31681839	1	BAT2	G2, D6S51E
HSCHR6_MHC_MCF	PRRC2A	ENSG00000225748	ENST00000479277	retained_intron	KNOWN	None	13918	None	None	31680903	31681839	1	BAT2	G2, D6S51E
HSCHR6_MHC_MCF	PRRC2A	ENSG00000225748	ENST00000550609	protein_coding	KNOWN	None	13918	6450	2149	31664743	31681828	1	BAT2	G2, D6S51E
HSCHR6_MHC_MCF	PRRC2A	ENSG00000225748	ENST00000550109	protein_coding	KNOWN	None	13918	6417	2138	31664743	31681828	1	BAT2	G2, D6S51E
7	SNRPBP1	ENSG00000223550	ENST00000443634	processed_pseudogene	KNOWN	None	38665	None	None	80006870	80007151	-1	None	None
1	None	ENSG00000212673	ENST00000391369	protein_coding	KNOWN	None	None	318	105	32379174	32380745	1	None	None
7	None	ENSG00000229436	ENST00000449243	processed_pseudogene	KNOWN	None	None	None	None	80291647	80291901	-1	None	None
7	None	ENSG00000226671	ENST00000456151	processed_pseudogene	KNOWN	None	None	None	None	80820714	80821325	1	None	None
18	ZSCAN30	ENSG00000186814	ENST00000333206	protein_coding	KNOWN	CCDS42427	33517	1485	494	32831032	32870172	-1	ZNF397OS	ZNF917
18	ZSCAN30	ENSG00000186814	ENST00000420878	protein_coding	KNOWN	CCDS42427	33517	1485	494	32831032	32870196	-1	ZNF397OS	ZNF917
18	ZSCAN30	ENSG00000186814	ENST00000590777	retained_intron	KNOWN	None	33517	None	None	32832558	32834585	-1	ZNF397OS	ZNF917
18	ZSCAN30	ENSG00000186814	ENST00000589178	protein_coding	KNOWN	None	33517	666	221	32840607	32870161	-1	ZNF397OS	ZNF917
18	ZSCAN30	ENSG00000186814	ENST00000588448	protein_coding	PUTATIVE	None	33517	276	91	32843260	32844010	-1	ZNF397OS	ZNF917
18	ZSCAN30	ENSG00000186814	ENST00000601405	protein_coding	PUTATIVE	None	33517	156	51	32843260	32844348	-1	ZNF397OS	ZNF917
18	ZSCAN30	ENSG00000186814	ENST00000592278	protein_coding	PUTATIVE	None	33517	438	145	32843549	32870185	-1	ZNF397OS	ZNF917
18	ZSCAN30	ENSG00000186814	ENST00000592598	protein_coding	KNOWN	None	33517	207	68	32844110	32847912	-1	ZNF397OS	ZNF917
18	ZSCAN30	ENSG00000186814	ENST00000592211	protein_coding	KNOWN	None	33517	143	46	32844174	32870193	-1	ZNF397OS	ZNF917
18	ZSCAN30	ENSG00000186814	ENST00000588832	processed_transcript	KNOWN	None	33517	None	None	32869309	32870196	-1	ZNF397OS	ZNF917
18	ZSCAN30	ENSG00000186814	ENST00000383091	protein_coding	KNOWN	None	33517	666	221	32843092	32870196	-1	ZNF397OS	ZNF917
7	None	ENSG00000223514	ENST00000411748	processed_pseudogene	KNOWN	None	None	None	None	80964422	80964499	1	None	None
7	None	ENSG00000224134	ENST00000438285	unprocessed_pseudogene	KNOWN	None	None	None	None	81061047	81062112	1	None	None
7	None	ENSG00000232968	ENST00000424916	processed_pseudogene	KNOWN	None	None	None	None	81092352	81092929	-1	None	None
7	None	ENSG00000234113	ENST00000412900	lincRNA	KNOWN	None	None	None	None	81157719	81191099	-1	None	None
19	None	ENSG00000269243	ENST00000597983	antisense	KNOWN	None	None	None	None	16234471	16250702	-1	None	None
19	None	ENSG00000269243	ENST00000599676	antisense	KNOWN	None	None	None	None	16243381	16250631	-1	None	None
6	GSTA5	ENSG00000182793	ENST00000475052	processed_transcript	KNOWN	None	19662	None	None	52696453	52705641	-1	None	None
6	GSTA5	ENSG00000182793	ENST00000370989	protein_coding	KNOWN	CCDS4946	19662	669	222	52696453	52710986	-1	None	None
6	GSTA5	ENSG00000182793	ENST00000284562	protein_coding	KNOWN	CCDS4946	19662	669	222	52696540	52710893	-1	None	None
7	None	ENSG00000233491	ENST00000455420	processed_transcript	KNOWN	None	None	None	None	81205702	81255532	-1	None	None
7	None	ENSG00000233491	ENST00000413944	processed_transcript	KNOWN	None	None	None	None	81205703	81254542	-1	None	None
3	SCN11A	ENSG00000168356	ENST00000302328	protein_coding	KNOWN	CCDS33737	10583	5376	1791	38887260	38992052	-1	SCN12A	Nav1.9, NaN, SNS-2
3	SCN11A	ENSG00000168356	ENST00000456224	protein_coding	PUTATIVE	None	10583	5262	1753	38888185	38991853	-1	SCN12A	Nav1.9, NaN, SNS-2
3	SCN11A	ENSG00000168356	ENST00000444237	protein_coding	KNOWN	None	10583	4335	1444	38890769	38992052	-1	SCN12A	Nav1.9, NaN, SNS-2
3	SCN11A	ENSG00000168356	ENST00000450244	protein_coding	KNOWN	None	10583	5376	1791	38887260	38992052	-1	SCN12A	Nav1.9, NaN, SNS-2
19	KHSRP	ENSG00000088247	ENST00000398148	protein_coding	KNOWN	CCDS45936	6316	2136	711	6413359	6424805	-1	None	KSRP, FBP2, FUBP2
19	KHSRP	ENSG00000088247	ENST00000594745	protein_coding	PUTATIVE	None	6316	344	113	6413422	6415706	-1	None	KSRP, FBP2, FUBP2
19	KHSRP	ENSG00000088247	ENST00000597656	protein_coding	PUTATIVE	None	6316	239	78	6413652	6415459	-1	None	KSRP, FBP2, FUBP2
19	KHSRP	ENSG00000088247	ENST00000595223	protein_coding	PUTATIVE	None	6316	809	268	6413976	6416823	-1	None	KSRP, FBP2, FUBP2
19	KHSRP	ENSG00000088247	ENST00000594496	protein_coding	PUTATIVE	None	6316	432	143	6414468	6415695	-1	None	KSRP, FBP2, FUBP2
19	KHSRP	ENSG00000088247	ENST00000600480	protein_coding	PUTATIVE	None	6316	530	175	6414714	6415718	-1	None	KSRP, FBP2, FUBP2
19	KHSRP	ENSG00000088247	ENST00000599642	retained_intron	KNOWN	None	6316	None	None	6415227	6415732	-1	None	KSRP, FBP2, FUBP2
19	KHSRP	ENSG00000088247	ENST00000595112	retained_intron	KNOWN	None	6316	None	None	6417750	6421709	-1	None	KSRP, FBP2, FUBP2
19	KHSRP	ENSG00000088247	ENST00000599395	protein_coding	PUTATIVE	None	6316	837	278	6417750	6424540	-1	None	KSRP, FBP2, FUBP2
19	KHSRP	ENSG00000088247	ENST00000595548	protein_coding	PUTATIVE	None	6316	507	168	6418031	6424338	-1	None	KSRP, FBP2, FUBP2
19	KHSRP	ENSG00000088247	ENST00000595258	protein_coding	PUTATIVE	None	6316	349	115	6418712	6424288	-1	None	KSRP, FBP2, FUBP2
19	KHSRP	ENSG00000088247	ENST00000597704	retained_intron	KNOWN	None	6316	None	None	6421012	6422368	-1	None	KSRP, FBP2, FUBP2
1	KHDRBS1	ENSG00000121774	ENST00000327300	protein_coding	KNOWN	CCDS350	18116	1332	443	32479430	32509483	1	None	Sam68, p62, FLJ34027
1	KHDRBS1	ENSG00000121774	ENST00000484270	processed_transcript	KNOWN	None	18116	None	None	32479467	32526451	1	None	Sam68, p62, FLJ34027
1	KHDRBS1	ENSG00000121774	ENST00000307714	processed_transcript	KNOWN	None	18116	None	None	32479527	32509478	1	None	Sam68, p62, FLJ34027
1	KHDRBS1	ENSG00000121774	ENST00000492989	protein_coding	KNOWN	None	18116	1215	404	32479597	32508225	1	None	Sam68, p62, FLJ34027
7	None	ENSG00000230196	ENST00000441064	processed_pseudogene	KNOWN	None	None	None	None	81240200	81240642	-1	None	None
7	None	ENSG00000263416	ENST00000579035	miRNA	NOVEL	None	None	None	None	81549519	81549586	-1	None	None
21	None	ENSG00000237202	ENST00000424255	processed_pseudogene	KNOWN	None	None	None	None	14492565	14493128	1	None	None
7	MIR1255B1	ENSG00000223770	ENST00000439234	antisense	KNOWN	None	35366	None	None	81638493	81659271	1	MIRN1255B1	hsa-mir-1255b-1
7	MIR1255B1	ENSG00000223770	ENST00000454066	antisense	KNOWN	None	35366	None	None	81638508	81657659	1	MIRN1255B1	hsa-mir-1255b-1
22	IGLV4-3	ENSG00000211672	ENST00000390318	IG_V_gene	KNOWN	None	5919	369	122	23213686	23214214	1	None	None
21	FGF7P2	ENSG00000185390	ENST00000332473	unprocessed_pseudogene	KNOWN	None	17193	None	None	14721586	14722969	1	FGF7L	None
9	ACO1	ENSG00000122729	ENST00000309951	protein_coding	KNOWN	CCDS6525	117	2670	889	32384618	32450834	1	IREB1	IRP1, IREBP
9	ACO1	ENSG00000122729	ENST00000379923	protein_coding	KNOWN	CCDS6525	117	2670	889	32384618	32450834	1	IREB1	IRP1, IREBP
9	ACO1	ENSG00000122729	ENST00000541043	protein_coding	KNOWN	None	117	2373	790	32384618	32450830	1	IREB1	IRP1, IREBP
22	IGLV3-1	ENSG00000211673	ENST00000390319	IG_V_gene	KNOWN	None	5896	346	114	23222886	23223576	1	None	None
4	NCAPG	ENSG00000109805	ENST00000251496	protein_coding	KNOWN	CCDS3424	24304	3048	1015	17812525	17846485	1	None	FLJ12450, hCAP-G, CAP-G
4	NCAPG	ENSG00000109805	ENST00000514176	nonsense_mediated_decay	KNOWN	None	24304	699	232	17812645	17845071	1	None	FLJ12450, hCAP-G, CAP-G
4	NCAPG	ENSG00000109805	ENST00000513226	retained_intron	KNOWN	None	24304	None	None	17812651	17814969	1	None	FLJ12450, hCAP-G, CAP-G
4	NCAPG	ENSG00000109805	ENST00000509719	retained_intron	KNOWN	None	24304	None	None	17818855	17824770	1	None	FLJ12450, hCAP-G, CAP-G
4	NCAPG	ENSG00000109805	ENST00000510063	protein_coding	NOVEL	None	24304	807	268	17825322	17838784	1	None	FLJ12450, hCAP-G, CAP-G
21	ANKRD30BP1	ENSG00000175302	ENST00000451052	unprocessed_pseudogene	KNOWN	None	19722	None	None	14756570	14800094	-1	C21orf110, ANKRD30BP	PRED4
21	ANKRD30BP1	ENSG00000175302	ENST00000309142	unprocessed_pseudogene	KNOWN	None	19722	None	None	14756570	14760261	-1	C21orf110, ANKRD30BP	PRED4
5	SPARC	ENSG00000113140	ENST00000231061	protein_coding	KNOWN	CCDS4318	11219	912	303	151040657	151066726	-1	ON	None
5	SPARC	ENSG00000113140	ENST00000520687	retained_intron	KNOWN	None	11219	None	None	151042049	151047215	-1	ON	None
5	SPARC	ENSG00000113140	ENST00000538026	protein_coding	PUTATIVE	None	11219	449	148	151045934	151066524	-1	ON	None
5	SPARC	ENSG00000113140	ENST00000537849	processed_transcript	KNOWN	None	11219	None	None	151045986	151047145	-1	ON	None
5	SPARC	ENSG00000113140	ENST00000521569	protein_coding	PUTATIVE	None	11219	345	114	151046038	151066529	-1	ON	None
5	SPARC	ENSG00000113140	ENST00000524277	retained_intron	KNOWN	None	11219	None	None	151047035	151051390	-1	ON	None
5	SPARC	ENSG00000113140	ENST00000539687	protein_coding	KNOWN	None	11219	333	110	151051131	151064791	-1	ON	None
5	SPARC	ENSG00000113140	ENST00000521327	retained_intron	KNOWN	None	11219	None	None	151052158	151066536	-1	ON	None
5	SPARC	ENSG00000113140	ENST00000522348	protein_coding	KNOWN	None	11219	159	52	151052739	151066524	-1	ON	None
11	CD44	ENSG00000026508	ENST00000263398	protein_coding	KNOWN	CCDS31457	1681	1086	361	35160417	35253949	1	MIC4, MDU2, MDU3	IN, MC56, Pgp1, CD44R, HCELL, CSPG8
11	CD44	ENSG00000026508	ENST00000526025	protein_coding	PUTATIVE	None	1681	237	78	35160429	35198684	1	MIC4, MDU2, MDU3	IN, MC56, Pgp1, CD44R, HCELL, CSPG8
11	CD44	ENSG00000026508	ENST00000415148	protein_coding	KNOWN	CCDS31455	1681	2100	699	35160717	35251015	1	MIC4, MDU2, MDU3	IN, MC56, Pgp1, CD44R, HCELL, CSPG8
11	CD44	ENSG00000026508	ENST00000528086	processed_transcript	KNOWN	None	1681	None	None	35160718	35231521	1	MIC4, MDU2, MDU3	IN, MC56, Pgp1, CD44R, HCELL, CSPG8
11	CD44	ENSG00000026508	ENST00000428726	protein_coding	KNOWN	CCDS7897	1681	2229	742	35160728	35251574	1	MIC4, MDU2, MDU3	IN, MC56, Pgp1, CD44R, HCELL, CSPG8
11	CD44	ENSG00000026508	ENST00000526669	protein_coding	NOVEL	None	1681	621	206	35160729	35251007	1	MIC4, MDU2, MDU3	IN, MC56, Pgp1, CD44R, HCELL, CSPG8
11	CD44	ENSG00000026508	ENST00000425428	nonsense_mediated_decay	KNOWN	None	1681	243	80	35160729	35251574	1	MIC4, MDU2, MDU3	IN, MC56, Pgp1, CD44R, HCELL, CSPG8
11	CD44	ENSG00000026508	ENST00000433892	protein_coding	KNOWN	CCDS31456	1681	1482	493	35160735	35251574	1	MIC4, MDU2, MDU3	IN, MC56, Pgp1, CD44R, HCELL, CSPG8
11	CD44	ENSG00000026508	ENST00000278386	protein_coding	KNOWN	CCDS31458	1681	420	139	35160833	35250880	1	MIC4, MDU2, MDU3	IN, MC56, Pgp1, CD44R, HCELL, CSPG8
11	CD44	ENSG00000026508	ENST00000434472	protein_coding	KNOWN	CCDS55754	1681	1290	429	35160840	35251213	1	MIC4, MDU2, MDU3	IN, MC56, Pgp1, CD44R, HCELL, CSPG8
11	CD44	ENSG00000026508	ENST00000352818	protein_coding	NOVEL	CCDS55755	1681	1023	340	35160851	35250880	1	MIC4, MDU2, MDU3	IN, MC56, Pgp1, CD44R, HCELL, CSPG8
11	CD44	ENSG00000026508	ENST00000442151	protein_coding	PUTATIVE	None	1681	883	293	35160853	35244867	1	MIC4, MDU2, MDU3	IN, MC56, Pgp1, CD44R, HCELL, CSPG8
11	CD44	ENSG00000026508	ENST00000525211	protein_coding	NOVEL	None	1681	747	248	35198118	35227801	1	MIC4, MDU2, MDU3	IN, MC56, Pgp1, CD44R, HCELL, CSPG8
11	CD44	ENSG00000026508	ENST00000526000	protein_coding	NOVEL	None	1681	722	239	35198121	35236408	1	MIC4, MDU2, MDU3	IN, MC56, Pgp1, CD44R, HCELL, CSPG8
11	CD44	ENSG00000026508	ENST00000279452	protein_coding	NOVEL	None	1681	862	286	35198175	35250869	1	MIC4, MDU2, MDU3	IN, MC56, Pgp1, CD44R, HCELL, CSPG8
11	CD44	ENSG00000026508	ENST00000527889	protein_coding	NOVEL	None	1681	543	180	35198188	35229753	1	MIC4, MDU2, MDU3	IN, MC56, Pgp1, CD44R, HCELL, CSPG8
11	CD44	ENSG00000026508	ENST00000531118	retained_intron	KNOWN	None	1681	None	None	35198209	35211976	1	MIC4, MDU2, MDU3	IN, MC56, Pgp1, CD44R, HCELL, CSPG8
11	CD44	ENSG00000026508	ENST00000528455	protein_coding	NOVEL	None	1681	687	228	35198246	35223314	1	MIC4, MDU2, MDU3	IN, MC56, Pgp1, CD44R, HCELL, CSPG8
11	CD44	ENSG00000026508	ENST00000531873	protein_coding	NOVEL	None	1681	584	193	35201826	35232857	1	MIC4, MDU2, MDU3	IN, MC56, Pgp1, CD44R, HCELL, CSPG8
11	CD44	ENSG00000026508	ENST00000525209	processed_transcript	KNOWN	None	1681	None	None	35201905	35222183	1	MIC4, MDU2, MDU3	IN, MC56, Pgp1, CD44R, HCELL, CSPG8
11	CD44	ENSG00000026508	ENST00000531110	protein_coding	NOVEL	None	1681	749	248	35208390	35231608	1	MIC4, MDU2, MDU3	IN, MC56, Pgp1, CD44R, HCELL, CSPG8
11	CD44	ENSG00000026508	ENST00000525685	protein_coding	NOVEL	None	1681	728	241	35208409	35231612	1	MIC4, MDU2, MDU3	IN, MC56, Pgp1, CD44R, HCELL, CSPG8
11	CD44	ENSG00000026508	ENST00000534296	retained_intron	KNOWN	None	1681	None	None	35211382	35226456	1	MIC4, MDU2, MDU3	IN, MC56, Pgp1, CD44R, HCELL, CSPG8
11	CD44	ENSG00000026508	ENST00000525688	protein_coding	NOVEL	None	1681	560	185	35211429	35250711	1	MIC4, MDU2, MDU3	IN, MC56, Pgp1, CD44R, HCELL, CSPG8
11	CD44	ENSG00000026508	ENST00000278385	protein_coding	NOVEL	None	1681	697	231	35211438	35250791	1	MIC4, MDU2, MDU3	IN, MC56, Pgp1, CD44R, HCELL, CSPG8
11	CD44	ENSG00000026508	ENST00000533222	protein_coding	NOVEL	None	1681	581	192	35211447	35232889	1	MIC4, MDU2, MDU3	IN, MC56, Pgp1, CD44R, HCELL, CSPG8
11	CD44	ENSG00000026508	ENST00000525241	retained_intron	KNOWN	None	1681	None	None	35211473	35226358	1	MIC4, MDU2, MDU3	IN, MC56, Pgp1, CD44R, HCELL, CSPG8
11	CD44	ENSG00000026508	ENST00000524922	protein_coding	NOVEL	None	1681	352	116	35211557	35223300	1	MIC4, MDU2, MDU3	IN, MC56, Pgp1, CD44R, HCELL, CSPG8
11	CD44	ENSG00000026508	ENST00000528922	processed_transcript	PUTATIVE	None	1681	None	None	35218709	35220102	1	MIC4, MDU2, MDU3	IN, MC56, Pgp1, CD44R, HCELL, CSPG8
11	CD44	ENSG00000026508	ENST00000525348	retained_intron	KNOWN	None	1681	None	None	35219404	35223278	1	MIC4, MDU2, MDU3	IN, MC56, Pgp1, CD44R, HCELL, CSPG8
11	CD44	ENSG00000026508	ENST00000526553	protein_coding	NOVEL	None	1681	571	189	35222630	35231609	1	MIC4, MDU2, MDU3	IN, MC56, Pgp1, CD44R, HCELL, CSPG8
11	CD44	ENSG00000026508	ENST00000534082	retained_intron	KNOWN	None	1681	None	None	35222691	35227594	1	MIC4, MDU2, MDU3	IN, MC56, Pgp1, CD44R, HCELL, CSPG8
11	CD44	ENSG00000026508	ENST00000525293	retained_intron	KNOWN	None	1681	None	None	35223168	35243263	1	MIC4, MDU2, MDU3	IN, MC56, Pgp1, CD44R, HCELL, CSPG8
11	CD44	ENSG00000026508	ENST00000528672	protein_coding	NOVEL	None	1681	586	194	35223226	35232948	1	MIC4, MDU2, MDU3	IN, MC56, Pgp1, CD44R, HCELL, CSPG8
11	CD44	ENSG00000026508	ENST00000532339	retained_intron	KNOWN	None	1681	None	None	35227262	35229711	1	MIC4, MDU2, MDU3	IN, MC56, Pgp1, CD44R, HCELL, CSPG8
11	CD44	ENSG00000026508	ENST00000527326	retained_intron	KNOWN	None	1681	None	None	35236213	35250993	1	MIC4, MDU2, MDU3	IN, MC56, Pgp1, CD44R, HCELL, CSPG8
11	CD44	ENSG00000026508	ENST00000531141	retained_intron	KNOWN	None	1681	None	None	35240476	35243278	1	MIC4, MDU2, MDU3	IN, MC56, Pgp1, CD44R, HCELL, CSPG8
11	CD44	ENSG00000026508	ENST00000525469	protein_coding	NOVEL	None	1681	249	82	35240891	35251336	1	MIC4, MDU2, MDU3	IN, MC56, Pgp1, CD44R, HCELL, CSPG8
11	CD44	ENSG00000026508	ENST00000433354	protein_coding	KNOWN	None	1681	2145	714	35160717	35251015	1	MIC4, MDU2, MDU3	IN, MC56, Pgp1, CD44R, HCELL, CSPG8
11	CD44	ENSG00000026508	ENST00000449691	protein_coding	KNOWN	None	1681	2100	699	35160717	35251015	1	MIC4, MDU2, MDU3	IN, MC56, Pgp1, CD44R, HCELL, CSPG8
11	CD44	ENSG00000026508	ENST00000437706	protein_coding	KNOWN	None	1681	2025	674	35160717	35251015	1	MIC4, MDU2, MDU3	IN, MC56, Pgp1, CD44R, HCELL, CSPG8
11	CD44	ENSG00000026508	ENST00000360158	protein_coding	KNOWN	None	1681	1191	396	35160717	35251015	1	MIC4, MDU2, MDU3	IN, MC56, Pgp1, CD44R, HCELL, CSPG8
HSCHR6_MHC_MCF	PBX2	ENSG00000236353	ENST00000420432	protein_coding	KNOWN	None	8633	1293	430	32228948	32234390	-1	None	G17, HOX12, PBX2MHC
HSCHR6_MHC_MCF	PBX2	ENSG00000236353	ENST00000479667	retained_intron	KNOWN	None	8633	None	None	32230460	32231719	-1	None	G17, HOX12, PBX2MHC
HSCHR6_MHC_MCF	PBX2	ENSG00000236353	ENST00000461385	retained_intron	KNOWN	None	8633	None	None	32231177	32234146	-1	None	G17, HOX12, PBX2MHC
HSCHR6_MHC_MCF	PBX2	ENSG00000236353	ENST00000497588	retained_intron	KNOWN	None	8633	None	None	32231437	32233020	-1	None	G17, HOX12, PBX2MHC
HSCHR6_MHC_MCF	PBX2	ENSG00000236353	ENST00000460101	retained_intron	KNOWN	None	8633	None	None	32232484	32233281	-1	None	G17, HOX12, PBX2MHC
HSCHR6_MHC_MCF	PBX2	ENSG00000236353	ENST00000553184	protein_coding	KNOWN	None	8633	1332	443	32229906	32234160	-1	None	G17, HOX12, PBX2MHC
HSCHR6_MHC_MCF	PBX2	ENSG00000236353	ENST00000550085	protein_coding	KNOWN	None	8633	1380	459	32229906	32234380	-1	None	G17, HOX12, PBX2MHC
12	C12orf66	ENSG00000174206	ENST00000311915	protein_coding	PUTATIVE	None	26517	1407	468	64580096	64616045	-1	None	FLJ32549
12	C12orf66	ENSG00000174206	ENST00000544871	protein_coding	NOVEL	None	26517	1179	392	64586419	64616076	-1	None	FLJ32549
12	C12orf66	ENSG00000174206	ENST00000398055	protein_coding	KNOWN	CCDS41803	26517	1338	445	64586421	64616071	-1	None	FLJ32549
12	C12orf66	ENSG00000174206	ENST00000540673	processed_transcript	PUTATIVE	None	26517	None	None	64615277	64616043	-1	None	FLJ32549
22	IGLL5	ENSG00000254709	ENST00000532223	protein_coding	KNOWN	None	38476	648	215	23229960	23238005	1	None	None
22	IGLL5	ENSG00000254709	ENST00000526893	protein_coding	KNOWN	CCDS54506	38476	645	214	23229960	23238005	1	None	None
22	IGLL5	ENSG00000254709	ENST00000531372	protein_coding	PUTATIVE	None	38476	255	84	23230009	23238005	1	None	None
15	AGBL1	ENSG00000166748	ENST00000441037	protein_coding	KNOWN	CCDS58398	26504	3201	1066	86685227	87572283	1	None	FLJ32310
15	AGBL1	ENSG00000166748	ENST00000568785	retained_intron	KNOWN	None	26504	None	None	86805856	86838742	1	None	FLJ32310
15	AGBL1	ENSG00000166748	ENST00000567715	retained_intron	KNOWN	None	26504	None	None	86805856	86839446	1	None	FLJ32310
15	AGBL1	ENSG00000166748	ENST00000421325	protein_coding	KNOWN	None	26504	3189	1062	86686953	87531323	1	None	FLJ32310
15	AGBL1	ENSG00000166748	ENST00000389298	protein_coding	KNOWN	None	26504	2382	793	86805875	87531323	1	None	FLJ32310
1	RAP1A	ENSG00000116473	ENST00000356415	protein_coding	KNOWN	CCDS840	9855	555	184	112084840	112255735	1	None	KREV-1, SMGP21
1	RAP1A	ENSG00000116473	ENST00000433097	protein_coding	KNOWN	None	9855	387	128	112162399	112247027	1	None	KREV-1, SMGP21
1	RAP1A	ENSG00000116473	ENST00000369709	protein_coding	KNOWN	CCDS840	9855	555	184	112162405	112259313	1	None	KREV-1, SMGP21
1	RAP1A	ENSG00000116473	ENST00000494982	processed_transcript	KNOWN	None	9855	None	None	112170091	112255318	1	None	KREV-1, SMGP21
1	RAP1A	ENSG00000116473	ENST00000436150	protein_coding	KNOWN	CCDS840	9855	555	184	112162405	112256101	1	None	KREV-1, SMGP21
1	RAP1A	ENSG00000116473	ENST00000545460	protein_coding	KNOWN	CCDS840	9855	555	184	112162769	112255109	1	None	KREV-1, SMGP21
7	NDUFB2	ENSG00000090266	ENST00000482954	protein_coding	PUTATIVE	None	7697	126	41	140390577	140406446	1	None	AGGG, CI-AGGG
7	NDUFB2	ENSG00000090266	ENST00000476279	protein_coding	KNOWN	CCDS5862	7697	318	105	140396471	140422590	1	None	AGGG, CI-AGGG
7	NDUFB2	ENSG00000090266	ENST00000247866	protein_coding	KNOWN	CCDS5862	7697	318	105	140396472	140406446	1	None	AGGG, CI-AGGG
7	NDUFB2	ENSG00000090266	ENST00000461457	protein_coding	PUTATIVE	None	7697	291	96	140396488	140421755	1	None	AGGG, CI-AGGG
7	NDUFB2	ENSG00000090266	ENST00000465506	protein_coding	KNOWN	CCDS5862	7697	318	105	140396490	140405462	1	None	AGGG, CI-AGGG
7	NDUFB2	ENSG00000090266	ENST00000464564	processed_transcript	KNOWN	None	7697	None	None	140396509	140404763	1	None	AGGG, CI-AGGG
7	NDUFB2	ENSG00000090266	ENST00000476181	nonsense_mediated_decay	KNOWN	None	7697	105	34	140396510	140406446	1	None	AGGG, CI-AGGG
7	NDUFB2	ENSG00000090266	ENST00000464566	protein_coding	KNOWN	None	7697	315	104	140396548	140406300	1	None	AGGG, CI-AGGG
7	NDUFB2	ENSG00000090266	ENST00000460088	protein_coding	PUTATIVE	None	7697	126	41	140396788	140406446	1	None	AGGG, CI-AGGG
7	NDUFB2	ENSG00000090266	ENST00000472695	protein_coding	PUTATIVE	None	7697	126	41	140396792	140406443	1	None	AGGG, CI-AGGG
7	NDUFB2	ENSG00000090266	ENST00000476470	protein_coding	PUTATIVE	None	7697	126	41	140396957	140406440	1	None	AGGG, CI-AGGG
7	NDUFB2	ENSG00000090266	ENST00000471136	protein_coding	PUTATIVE	None	7697	282	93	140397024	140406444	1	None	AGGG, CI-AGGG
7	NDUFB2	ENSG00000090266	ENST00000462847	processed_transcript	PUTATIVE	None	7697	None	None	140399993	140400904	1	None	AGGG, CI-AGGG
7	NDUFB2	ENSG00000090266	ENST00000475276	protein_coding	PUTATIVE	None	7697	237	78	140401645	140406442	1	None	AGGG, CI-AGGG
7	NDUFB2	ENSG00000090266	ENST00000479181	retained_intron	KNOWN	None	7697	None	None	140402323	140406435	1	None	AGGG, CI-AGGG
7	NDUFB2	ENSG00000090266	ENST00000204307	protein_coding	KNOWN	None	7697	288	95	140396510	140406442	1	None	AGGG, CI-AGGG
7	LAT2	ENSG00000086730	ENST00000465116	protein_coding	KNOWN	None	12749	175	57	73613982	73634114	1	WBSCR15, WBSCR5	WSCR5, HSPC046, LAB, NTAL
7	LAT2	ENSG00000086730	ENST00000344995	protein_coding	KNOWN	CCDS5566	12749	732	243	73623726	73644161	1	WBSCR15, WBSCR5	WSCR5, HSPC046, LAB, NTAL
7	LAT2	ENSG00000086730	ENST00000460943	protein_coding	KNOWN	CCDS5566	12749	732	243	73623748	73644161	1	WBSCR15, WBSCR5	WSCR5, HSPC046, LAB, NTAL
7	LAT2	ENSG00000086730	ENST00000491595	retained_intron	KNOWN	None	12749	None	None	73624257	73629607	1	WBSCR15, WBSCR5	WSCR5, HSPC046, LAB, NTAL
7	LAT2	ENSG00000086730	ENST00000475494	protein_coding	KNOWN	None	12749	301	99	73624284	73634949	1	WBSCR15, WBSCR5	WSCR5, HSPC046, LAB, NTAL
7	LAT2	ENSG00000086730	ENST00000398475	protein_coding	KNOWN	CCDS5566	12749	732	243	73624311	73640838	1	WBSCR15, WBSCR5	WSCR5, HSPC046, LAB, NTAL
7	LAT2	ENSG00000086730	ENST00000361082	protein_coding	KNOWN	None	12749	191	62	73624336	73634302	1	WBSCR15, WBSCR5	WSCR5, HSPC046, LAB, NTAL
7	LAT2	ENSG00000086730	ENST00000488266	nonsense_mediated_decay	KNOWN	None	12749	336	111	73624336	73644161	1	WBSCR15, WBSCR5	WSCR5, HSPC046, LAB, NTAL
7	LAT2	ENSG00000086730	ENST00000275635	protein_coding	KNOWN	CCDS5566	12749	732	243	73624336	73644161	1	WBSCR15, WBSCR5	WSCR5, HSPC046, LAB, NTAL
7	LAT2	ENSG00000086730	ENST00000470709	protein_coding	NOVEL	None	12749	302	99	73624353	73635064	1	WBSCR15, WBSCR5	WSCR5, HSPC046, LAB, NTAL
7	LAT2	ENSG00000086730	ENST00000490586	retained_intron	KNOWN	None	12749	None	None	73634788	73643402	1	WBSCR15, WBSCR5	WSCR5, HSPC046, LAB, NTAL
11	FNBP4	ENSG00000109920	ENST00000263773	protein_coding	KNOWN	CCDS41644	19752	3054	1017	47738072	47788853	-1	None	KIAA1014
11	FNBP4	ENSG00000109920	ENST00000526109	processed_transcript	KNOWN	None	19752	None	None	47738779	47746103	-1	None	KIAA1014
11	FNBP4	ENSG00000109920	ENST00000532646	processed_transcript	KNOWN	None	19752	None	None	47744528	47746452	-1	None	KIAA1014
11	FNBP4	ENSG00000109920	ENST00000530207	retained_intron	KNOWN	None	19752	None	None	47744534	47748456	-1	None	KIAA1014
11	FNBP4	ENSG00000109920	ENST00000525792	processed_transcript	KNOWN	None	19752	None	None	47746024	47755687	-1	None	KIAA1014
11	FNBP4	ENSG00000109920	ENST00000531394	processed_transcript	PUTATIVE	None	19752	None	None	47746056	47753810	-1	None	KIAA1014
11	FNBP4	ENSG00000109920	ENST00000525316	processed_transcript	KNOWN	None	19752	None	None	47751520	47753114	-1	None	KIAA1014
11	FNBP4	ENSG00000109920	ENST00000529156	processed_transcript	PUTATIVE	None	19752	None	None	47752836	47753734	-1	None	KIAA1014
11	FNBP4	ENSG00000109920	ENST00000524696	processed_transcript	PUTATIVE	None	19752	None	None	47753385	47753949	-1	None	KIAA1014
11	FNBP4	ENSG00000109920	ENST00000528388	processed_transcript	KNOWN	None	19752	None	None	47753385	47765567	-1	None	KIAA1014
11	FNBP4	ENSG00000109920	ENST00000534003	processed_transcript	KNOWN	None	19752	None	None	47753392	47788838	-1	None	KIAA1014
11	FNBP4	ENSG00000109920	ENST00000527894	processed_transcript	KNOWN	None	19752	None	None	47754034	47765695	-1	None	KIAA1014
11	FNBP4	ENSG00000109920	ENST00000544590	retained_intron	KNOWN	None	19752	None	None	47765369	47767751	-1	None	KIAA1014
11	FNBP4	ENSG00000109920	ENST00000533707	retained_intron	KNOWN	None	19752	None	None	47774272	47776168	-1	None	KIAA1014
11	FNBP4	ENSG00000109920	ENST00000540172	protein_coding	PUTATIVE	None	19752	429	142	47774539	47788993	-1	None	KIAA1014
11	FNBP4	ENSG00000109920	ENST00000542975	processed_transcript	PUTATIVE	None	19752	None	None	47774590	47788995	-1	None	KIAA1014
22	IGLJ1	ENSG00000211674	ENST00000390320	IG_J_gene	KNOWN	None	5863	127	41	23235872	23235998	1	None	None
HSCHR6_MHC_APD	HLA-DPB2	ENSG00000226071	ENST00000424653	processed_transcript	KNOWN	None	4941	None	None	33063595	33070292	1	HLA-DP2B	DP2B, DPB2
HSCHR6_MHC_APD	HLA-DPB2	ENSG00000226071	ENST00000487800	transcribed_unprocessed_pseudogene	KNOWN	None	4941	None	None	33063660	33080224	1	HLA-DP2B	DP2B, DPB2
1	C1orf27	ENSG00000157181	ENST00000419367	protein_coding	KNOWN	CCDS53450	24299	1269	422	186344955	186388683	1	None	FLJ20505, odr-4, TTG1
1	C1orf27	ENSG00000157181	ENST00000287859	protein_coding	KNOWN	CCDS53448	24299	1365	454	186345001	186390510	1	None	FLJ20505, odr-4, TTG1
1	C1orf27	ENSG00000157181	ENST00000432021	protein_coding	KNOWN	CCDS53449	24299	1296	431	186348918	186388208	1	None	FLJ20505, odr-4, TTG1
1	C1orf27	ENSG00000157181	ENST00000478571	processed_transcript	KNOWN	None	24299	None	None	186367552	186381025	1	None	FLJ20505, odr-4, TTG1
1	C1orf27	ENSG00000157181	ENST00000461662	processed_transcript	PUTATIVE	None	24299	None	None	186386509	186388365	1	None	FLJ20505, odr-4, TTG1
1	C1orf27	ENSG00000157181	ENST00000367470	protein_coding	KNOWN	CCDS53449	24299	1296	431	186344890	186390499	1	None	FLJ20505, odr-4, TTG1
22	IGLC1	ENSG00000211675	ENST00000390321	IG_C_gene	KNOWN	None	5855	320	105	23237555	23238014	1	IGLC	None
21	MIR3156-3	ENSG00000266211	ENST00000580304	miRNA	KNOWN	None	38229	None	None	14778705	14778781	-1	None	hsa-mir-3156-3
22	KIAA0930	ENSG00000100364	ENST00000336156	protein_coding	KNOWN	CCDS33665	1314	1215	404	45588114	45636650	-1	C22orf9	bK268H5.C22.1
22	KIAA0930	ENSG00000100364	ENST00000423262	protein_coding	PUTATIVE	None	1314	870	289	45591709	45601730	-1	C22orf9	bK268H5.C22.1
22	KIAA0930	ENSG00000100364	ENST00000251993	protein_coding	KNOWN	CCDS33666	1314	1230	409	45591709	45608369	-1	C22orf9	bK268H5.C22.1
22	KIAA0930	ENSG00000100364	ENST00000391627	protein_coding	PUTATIVE	None	1314	1113	370	45591709	45622784	-1	C22orf9	bK268H5.C22.1
22	KIAA0930	ENSG00000100364	ENST00000488038	retained_intron	KNOWN	None	1314	None	None	45591919	45608338	-1	C22orf9	bK268H5.C22.1
22	KIAA0930	ENSG00000100364	ENST00000483374	retained_intron	KNOWN	None	1314	None	None	45592583	45593914	-1	C22orf9	bK268H5.C22.1
22	KIAA0930	ENSG00000100364	ENST00000498418	retained_intron	KNOWN	None	1314	None	None	45592630	45596090	-1	C22orf9	bK268H5.C22.1
22	KIAA0930	ENSG00000100364	ENST00000474515	processed_transcript	KNOWN	None	1314	None	None	45592845	45598565	-1	C22orf9	bK268H5.C22.1
22	KIAA0930	ENSG00000100364	ENST00000493003	processed_transcript	KNOWN	None	1314	None	None	45592987	45598596	-1	C22orf9	bK268H5.C22.1
22	KIAA0930	ENSG00000100364	ENST00000440039	nonsense_mediated_decay	KNOWN	None	1314	213	70	45599012	45607962	-1	C22orf9	bK268H5.C22.1
22	KIAA0930	ENSG00000100364	ENST00000414854	protein_coding	PUTATIVE	None	1314	410	135	45601102	45632158	-1	C22orf9	bK268H5.C22.1
22	KIAA0930	ENSG00000100364	ENST00000424508	protein_coding	PUTATIVE	None	1314	456	151	45601104	45609380	-1	C22orf9	bK268H5.C22.1
22	KIAA0930	ENSG00000100364	ENST00000486640	processed_transcript	KNOWN	None	1314	None	None	45601141	45631294	-1	C22orf9	bK268H5.C22.1
22	KIAA0930	ENSG00000100364	ENST00000417906	nonsense_mediated_decay	KNOWN	None	1314	255	84	45601765	45636623	-1	C22orf9	bK268H5.C22.1
22	KIAA0930	ENSG00000100364	ENST00000496226	retained_intron	KNOWN	None	1314	None	None	45607215	45608326	-1	C22orf9	bK268H5.C22.1
22	KIAA0930	ENSG00000100364	ENST00000492273	processed_transcript	KNOWN	None	1314	None	None	45607216	45608298	-1	C22orf9	bK268H5.C22.1
22	KIAA0930	ENSG00000100364	ENST00000443310	protein_coding	KNOWN	None	1314	1161	386	45592959	45609315	-1	C22orf9	bK268H5.C22.1
10	VTI1A	ENSG00000151532	ENST00000483122	processed_transcript	KNOWN	None	17792	None	None	114206756	114210484	1	None	MVti1, Vti1a, Vti1-rp2
10	VTI1A	ENSG00000151532	ENST00000472892	processed_transcript	KNOWN	None	17792	None	None	114206757	114209417	1	None	MVti1, Vti1a, Vti1-rp2
10	VTI1A	ENSG00000151532	ENST00000489142	processed_transcript	KNOWN	None	17792	None	None	114206992	114245050	1	None	MVti1, Vti1a, Vti1-rp2
10	VTI1A	ENSG00000151532	ENST00000432306	protein_coding	NOVEL	None	17792	612	203	114207016	114497543	1	None	MVti1, Vti1a, Vti1-rp2
10	VTI1A	ENSG00000151532	ENST00000393077	protein_coding	KNOWN	CCDS7575	17792	654	217	114207016	114578503	1	None	MVti1, Vti1a, Vti1-rp2
10	VTI1A	ENSG00000151532	ENST00000496445	processed_transcript	KNOWN	None	17792	None	None	114207022	114298405	1	None	MVti1, Vti1a, Vti1-rp2
10	VTI1A	ENSG00000151532	ENST00000494728	processed_transcript	KNOWN	None	17792	None	None	114207034	114224517	1	None	MVti1, Vti1a, Vti1-rp2
10	VTI1A	ENSG00000151532	ENST00000489357	processed_transcript	KNOWN	None	17792	None	None	114207107	114298060	1	None	MVti1, Vti1a, Vti1-rp2
10	VTI1A	ENSG00000151532	ENST00000480057	processed_transcript	KNOWN	None	17792	None	None	114207117	114287164	1	None	MVti1, Vti1a, Vti1-rp2
3	CCR4	ENSG00000183813	ENST00000330953	protein_coding	KNOWN	CCDS2656	1605	1083	360	32993066	32997841	1	None	CC-CKR-4, CMKBR4, CKR4, k5-5, ChemR13, CD194
22	IGLJ2	ENSG00000211676	ENST00000390322	IG_J_gene	KNOWN	None	5864	142	46	23241661	23241835	1	None	None
Y	None	ENSG00000267935	ENST00000601700	protein_coding	NOVEL	None	None	63	20	25847479	25850592	1	None	None
21	GTF2IP2	ENSG00000226930	ENST00000424290	unprocessed_pseudogene	KNOWN	None	16082	None	None	14815694	14861497	-1	None	None
22	IGLC2	ENSG00000211677	ENST00000390323	IG_C_gene	KNOWN	None	5856	320	105	23243156	23243617	1	IGLC	None
Y	CDY1B	ENSG00000172352	ENST00000306882	protein_coding	KNOWN	CCDS35486	23920	1665	554	26191376	26194116	-1	None	None
Y	CDY1B	ENSG00000172352	ENST00000382407	protein_coding	KNOWN	CCDS35487	23920	1623	540	26191940	26194166	-1	None	None
17	PRR11	ENSG00000068489	ENST00000262293	protein_coding	KNOWN	CCDS11614	25619	1083	360	57232860	57279929	1	None	FLJ11029
17	PRR11	ENSG00000068489	ENST00000578777	protein_coding	KNOWN	None	25619	597	198	57233093	57271047	1	None	FLJ11029
17	PRR11	ENSG00000068489	ENST00000577457	protein_coding	KNOWN	None	25619	67	21	57233106	57247180	1	None	FLJ11029
17	PRR11	ENSG00000068489	ENST00000582995	protein_coding	PUTATIVE	None	25619	434	143	57233107	57262874	1	None	FLJ11029
17	PRR11	ENSG00000068489	ENST00000578542	nonsense_mediated_decay	KNOWN	CCDS11614	25619	1083	360	57233107	57282066	1	None	FLJ11029
17	PRR11	ENSG00000068489	ENST00000581182	retained_intron	KNOWN	None	25619	None	None	57233114	57262923	1	None	FLJ11029
17	PRR11	ENSG00000068489	ENST00000580177	nonsense_mediated_decay	KNOWN	CCDS11614	25619	1083	360	57233118	57281213	1	None	FLJ11029
17	PRR11	ENSG00000068489	ENST00000582004	protein_coding	PUTATIVE	None	25619	160	52	57274914	57275234	1	None	FLJ11029
22	IGLJ3	ENSG00000211678	ENST00000390324	IG_J_gene	KNOWN	None	5865	151	49	23247030	23247205	1	None	None
4	TMEM175	ENSG00000127419	ENST00000507319	protein_coding	NOVEL	None	28709	340	112	926175	945047	1	None	MGC4618
4	TMEM175	ENSG00000127419	ENST00000264771	protein_coding	KNOWN	CCDS3341	28709	1515	504	926175	952444	1	None	MGC4618
4	TMEM175	ENSG00000127419	ENST00000513952	nonsense_mediated_decay	KNOWN	None	28709	219	72	926192	952444	1	None	MGC4618
4	TMEM175	ENSG00000127419	ENST00000514453	protein_coding	NOVEL	None	28709	537	178	926214	947091	1	None	MGC4618
4	TMEM175	ENSG00000127419	ENST00000505734	retained_intron	KNOWN	None	28709	None	None	926220	942377	1	None	MGC4618
4	TMEM175	ENSG00000127419	ENST00000515492	protein_coding	PUTATIVE	None	28709	636	211	926232	951651	1	None	MGC4618
4	TMEM175	ENSG00000127419	ENST00000504744	nonsense_mediated_decay	KNOWN	None	28709	219	72	926234	946224	1	None	MGC4618
4	TMEM175	ENSG00000127419	ENST00000509508	protein_coding	PUTATIVE	None	28709	486	161	926248	949604	1	None	MGC4618
4	TMEM175	ENSG00000127419	ENST00000452360	retained_intron	KNOWN	None	28709	None	None	926248	950680	1	None	MGC4618
4	TMEM175	ENSG00000127419	ENST00000515876	retained_intron	KNOWN	None	28709	None	None	926249	949732	1	None	MGC4618
4	TMEM175	ENSG00000127419	ENST00000513682	nonsense_mediated_decay	KNOWN	None	28709	234	77	926250	945493	1	None	MGC4618
4	TMEM175	ENSG00000127419	ENST00000515740	protein_coding	KNOWN	None	28709	1167	388	926253	952363	1	None	MGC4618
4	TMEM175	ENSG00000127419	ENST00000438836	retained_intron	KNOWN	None	28709	None	None	926260	952444	1	None	MGC4618
4	TMEM175	ENSG00000127419	ENST00000504505	retained_intron	KNOWN	None	28709	None	None	926263	944279	1	None	MGC4618
4	TMEM175	ENSG00000127419	ENST00000508204	protein_coding	PUTATIVE	None	28709	1269	422	926266	952297	1	None	MGC4618
4	TMEM175	ENSG00000127419	ENST00000510493	protein_coding	PUTATIVE	None	28709	852	283	926268	951867	1	None	MGC4618
4	TMEM175	ENSG00000127419	ENST00000514546	protein_coding	KNOWN	None	28709	401	132	926270	946177	1	None	MGC4618
4	TMEM175	ENSG00000127419	ENST00000504850	retained_intron	KNOWN	None	28709	None	None	926275	942298	1	None	MGC4618
4	TMEM175	ENSG00000127419	ENST00000504180	processed_transcript	KNOWN	None	28709	None	None	942199	947142	1	None	MGC4618
4	TMEM175	ENSG00000127419	ENST00000502513	retained_intron	KNOWN	None	28709	None	None	944239	945761	1	None	MGC4618
4	TMEM175	ENSG00000127419	ENST00000506669	retained_intron	KNOWN	None	28709	None	None	946199	949279	1	None	MGC4618
21	VN1R8P	ENSG00000219280	ENST00000407739	processed_pseudogene	KNOWN	None	8497	None	None	14848692	14849584	1	ORLP2	None
22	IGLC3	ENSG00000211679	ENST00000390325	IG_C_gene	KNOWN	None	5857	320	105	23248512	23248973	1	IGLC	None
21	SNX19P1	ENSG00000228184	ENST00000444901	processed_pseudogene	KNOWN	None	16765	None	None	14897920	14900900	1	SNX19P	None
20	FLRT3	ENSG00000125848	ENST00000378053	protein_coding	KNOWN	CCDS13121	3762	1950	649	14303634	14318254	-1	None	None
20	FLRT3	ENSG00000125848	ENST00000341420	protein_coding	KNOWN	CCDS13121	3762	1950	649	14304641	14318262	-1	None	None
20	FLRT3	ENSG00000125848	ENST00000462077	processed_transcript	KNOWN	None	3762	None	None	14309568	14318260	-1	None	None
12	KLRF1	ENSG00000150045	ENST00000354855	protein_coding	KNOWN	None	13342	195	64	9980077	9997606	1	None	CLEC5C, NKp80
12	KLRF1	ENSG00000150045	ENST00000324214	protein_coding	KNOWN	None	13342	549	182	9980077	9997606	1	None	CLEC5C, NKp80
12	KLRF1	ENSG00000150045	ENST00000279544	protein_coding	KNOWN	CCDS41750	13342	699	232	9980077	9997606	1	None	CLEC5C, NKp80
12	KLRF1	ENSG00000150045	ENST00000279545	nonsense_mediated_decay	KNOWN	None	13342	237	78	9980077	9997606	1	None	CLEC5C, NKp80
12	KLRF1	ENSG00000150045	ENST00000545196	nonsense_mediated_decay	KNOWN	None	13342	375	124	9980117	9997256	1	None	CLEC5C, NKp80
12	KLRF1	ENSG00000150045	ENST00000537723	protein_coding	PUTATIVE	None	13342	345	114	9980117	9997256	1	None	CLEC5C, NKp80
12	KLRF1	ENSG00000150045	ENST00000535631	nonsense_mediated_decay	KNOWN	None	13342	213	70	9994410	9997591	1	None	CLEC5C, NKp80
6	SUPT3H	ENSG00000196284	ENST00000475057	nonsense_mediated_decay	KNOWN	CCDS34465	11466	954	317	44777054	45345690	-1	None	SPT3, SPT3L
6	SUPT3H	ENSG00000196284	ENST00000371460	protein_coding	KNOWN	CCDS34466	11466	987	328	44796469	45345670	-1	None	SPT3, SPT3L
6	SUPT3H	ENSG00000196284	ENST00000371459	protein_coding	KNOWN	CCDS34465	11466	954	317	44796582	45345670	-1	None	SPT3, SPT3L
6	SUPT3H	ENSG00000196284	ENST00000371458	protein_coding	KNOWN	None	11466	327	108	44797504	44923247	-1	None	SPT3, SPT3L
6	SUPT3H	ENSG00000196284	ENST00000459689	processed_transcript	KNOWN	None	11466	None	None	45218692	45345160	-1	None	SPT3, SPT3L
6	SUPT3H	ENSG00000196284	ENST00000306867	protein_coding	KNOWN	CCDS34465	11466	954	317	44797553	45333038	-1	None	SPT3, SPT3L
6	SUPT3H	ENSG00000196284	ENST00000371461	protein_coding	KNOWN	CCDS34466	11466	987	328	44797553	45290653	-1	None	SPT3, SPT3L
9	None	ENSG00000165121	ENST00000431724	unprocessed_pseudogene	KNOWN	None	None	None	None	88430881	88464426	1	None	None
1	FAM212B	ENSG00000197852	ENST00000527570	processed_transcript	PUTATIVE	None	28045	None	None	112223252	112282025	-1	C1orf183	FLJ31105
1	FAM212B	ENSG00000197852	ENST00000357260	protein_coding	KNOWN	CCDS841	28045	894	297	112264686	112282046	-1	C1orf183	FLJ31105
1	FAM212B	ENSG00000197852	ENST00000534365	protein_coding	PUTATIVE	None	28045	345	114	112264973	112281985	-1	C1orf183	FLJ31105
1	FAM212B	ENSG00000197852	ENST00000444059	protein_coding	KNOWN	CCDS44195	28045	849	282	112269128	112298446	-1	C1orf183	FLJ31105
1	FAM212B	ENSG00000197852	ENST00000527621	protein_coding	NOVEL	None	28045	545	180	112269966	112281875	-1	C1orf183	FLJ31105
1	FAM212B	ENSG00000197852	ENST00000412270	processed_transcript	KNOWN	None	28045	None	None	112287921	112298131	-1	C1orf183	FLJ31105
1	FAM212B	ENSG00000197852	ENST00000527660	processed_transcript	PUTATIVE	None	28045	None	None	112289331	112290321	-1	C1orf183	FLJ31105
19	None	ENSG00000267033	ENST00000591038	antisense	KNOWN	None	None	None	None	16297087	16300269	-1	None	None
16	ZNF629	ENSG00000102870	ENST00000262525	protein_coding	KNOWN	CCDS45463	29008	2610	869	30789778	30798523	-1	ZNF65	KIAA0326
4	MARCH1	ENSG00000145416	ENST00000503008	protein_coding	KNOWN	CCDS54814	26077	870	289	164445870	165305202	-1	None	FLJ20668, MARCH-I, RNF171
4	MARCH1	ENSG00000145416	ENST00000514618	protein_coding	NOVEL	None	26077	1638	545	164448123	165305187	-1	None	FLJ20668, MARCH-I, RNF171
4	MARCH1	ENSG00000145416	ENST00000339875	protein_coding	KNOWN	CCDS3806	26077	819	272	164448273	164534686	-1	None	FLJ20668, MARCH-I, RNF171
4	MARCH1	ENSG00000145416	ENST00000510786	nonsense_mediated_decay	KNOWN	None	26077	435	144	164449802	164534665	-1	None	FLJ20668, MARCH-I, RNF171
4	MARCH1	ENSG00000145416	ENST00000512214	retained_intron	KNOWN	None	26077	None	None	164504805	164534057	-1	None	FLJ20668, MARCH-I, RNF171
4	MARCH1	ENSG00000145416	ENST00000505517	retained_intron	KNOWN	None	26077	None	None	164506744	164534685	-1	None	FLJ20668, MARCH-I, RNF171
4	MARCH1	ENSG00000145416	ENST00000507270	protein_coding	KNOWN	None	26077	423	140	164506901	165305141	-1	None	FLJ20668, MARCH-I, RNF171
4	MARCH1	ENSG00000145416	ENST00000511245	retained_intron	KNOWN	None	26077	None	None	164533834	164534662	-1	None	FLJ20668, MARCH-I, RNF171
4	MARCH1	ENSG00000145416	ENST00000510696	retained_intron	KNOWN	None	26077	None	None	164534519	164910073	-1	None	FLJ20668, MARCH-I, RNF171
4	MARCH1	ENSG00000145416	ENST00000503104	processed_transcript	KNOWN	None	26077	None	None	164621988	165056649	-1	None	FLJ20668, MARCH-I, RNF171
4	MARCH1	ENSG00000145416	ENST00000508725	processed_transcript	KNOWN	None	26077	None	None	164909695	165304669	-1	None	FLJ20668, MARCH-I, RNF171
4	MARCH1	ENSG00000145416	ENST00000505391	processed_transcript	KNOWN	None	26077	None	None	164909698	165305105	-1	None	FLJ20668, MARCH-I, RNF171
4	MARCH1	ENSG00000145416	ENST00000515471	processed_transcript	KNOWN	None	26077	None	None	164909733	165304718	-1	None	FLJ20668, MARCH-I, RNF171
4	MARCH1	ENSG00000145416	ENST00000510075	processed_transcript	KNOWN	None	26077	None	None	164976329	165304669	-1	None	FLJ20668, MARCH-I, RNF171
4	MARCH1	ENSG00000145416	ENST00000274056	protein_coding	KNOWN	CCDS54814	26077	870	289	164445450	164775330	-1	None	FLJ20668, MARCH-I, RNF171
19	None	ENSG00000267275	ENST00000588799	antisense	KNOWN	None	None	None	None	16394170	16435325	-1	None	None
19	None	ENSG00000267275	ENST00000588945	antisense	KNOWN	None	None	None	None	16394172	16404386	-1	None	None
9	PHBP7	ENSG00000213711	ENST00000415677	processed_pseudogene	KNOWN	None	39286	None	None	88513818	88514631	1	None	None
1	None	ENSG00000268662	ENST00000598663	protein_coding	NOVEL	None	None	135	44	186364123	186365908	-1	None	None
9	None	ENSG00000231741	ENST00000442109	processed_pseudogene	KNOWN	None	None	None	None	88549503	88551514	1	None	None
19	RN7SL844P	ENSG00000243745	ENST00000473320	misc_RNA	KNOWN	None	46860	None	None	16509477	16509770	-1	None	None
1	OCLM	ENSG00000262180	ENST00000574641	protein_coding	KNOWN	CCDS58051	8103	135	44	186369704	186370587	1	None	None
9	None	ENSG00000233713	ENST00000427811	processed_pseudogene	KNOWN	None	None	None	None	88747537	88747766	1	None	None
19	None	ENSG00000240418	ENST00000494084	processed_pseudogene	KNOWN	None	None	None	None	16523495	16524387	1	None	None
17	BHLHA9	ENSG00000205899	ENST00000391429	protein_coding	KNOWN	CCDS45560	35126	708	235	1173853	1174754	1	None	bHLHa9, BHLHF42
10	None	ENSG00000235962	ENST00000468834	processed_pseudogene	KNOWN	None	None	None	None	33346543	33347335	-1	None	None
10	None	ENSG00000235962	ENST00000393401	processed_pseudogene	KNOWN	None	None	None	None	33346558	33347343	-1	None	None
HSCHR6_MHC_MANN	RPP21	ENSG00000239865	ENST00000411515	protein_coding	KNOWN	None	21300	489	162	30357586	30359314	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_MANN	RPP21	ENSG00000239865	ENST00000473319	processed_transcript	KNOWN	None	21300	None	None	30357589	30358950	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_MANN	RPP21	ENSG00000239865	ENST00000468883	retained_intron	KNOWN	None	21300	None	None	30357597	30359314	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_MANN	RPP21	ENSG00000239865	ENST00000464725	processed_transcript	KNOWN	None	21300	None	None	30357608	30359314	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_MANN	RPP21	ENSG00000239865	ENST00000465470	processed_transcript	KNOWN	None	21300	None	None	30357610	30359341	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_MANN	RPP21	ENSG00000239865	ENST00000490988	retained_intron	KNOWN	None	21300	None	None	30357612	30359314	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_MANN	RPP21	ENSG00000239865	ENST00000418043	protein_coding	KNOWN	None	21300	465	154	30357616	30359314	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_MANN	RPP21	ENSG00000239865	ENST00000413228	protein_coding	KNOWN	None	21300	534	177	30357616	30359314	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_MANN	RPP21	ENSG00000239865	ENST00000435318	protein_coding	KNOWN	None	21300	435	144	30357626	30359314	1	C6orf135	FLJ22638, Em:AB014085.3
2	STAM2	ENSG00000115145	ENST00000263904	protein_coding	KNOWN	CCDS2196	11358	1578	525	152973315	153032506	-1	None	Hbp
2	STAM2	ENSG00000115145	ENST00000489389	retained_intron	KNOWN	None	11358	None	None	152976946	152981200	-1	None	Hbp
2	STAM2	ENSG00000115145	ENST00000482997	retained_intron	KNOWN	None	11358	None	None	152982518	153032243	-1	None	Hbp
2	STAM2	ENSG00000115145	ENST00000463854	retained_intron	KNOWN	None	11358	None	None	152988396	153032263	-1	None	Hbp
2	STAM2	ENSG00000115145	ENST00000465460	processed_transcript	KNOWN	None	11358	None	None	153000411	153006720	-1	None	Hbp
2	STAM2	ENSG00000115145	ENST00000494589	retained_intron	KNOWN	None	11358	None	None	153000503	153032255	-1	None	Hbp
9	None	ENSG00000270688	ENST00000604767	processed_pseudogene	KNOWN	None	None	None	None	88843730	88843898	1	None	None
8	ST3GAL1	ENSG00000008513	ENST00000521180	protein_coding	KNOWN	CCDS6373	10862	1023	340	134467096	134584168	-1	SIAT4A	ST3O, SIATFL, ST3GalA.1
8	ST3GAL1	ENSG00000008513	ENST00000522652	protein_coding	KNOWN	CCDS6373	10862	1023	340	134471188	134584092	-1	SIAT4A	ST3O, SIATFL, ST3GalA.1
8	ST3GAL1	ENSG00000008513	ENST00000523854	protein_coding	PUTATIVE	None	10862	293	96	134477021	134511626	-1	SIAT4A	ST3O, SIATFL, ST3GalA.1
8	ST3GAL1	ENSG00000008513	ENST00000517668	protein_coding	PUTATIVE	None	10862	140	45	134477174	134584168	-1	SIAT4A	ST3O, SIATFL, ST3GalA.1
8	ST3GAL1	ENSG00000008513	ENST00000522204	retained_intron	KNOWN	None	10862	None	None	134477885	134488177	-1	SIAT4A	ST3O, SIATFL, ST3GalA.1
8	ST3GAL1	ENSG00000008513	ENST00000523634	protein_coding	KNOWN	None	10862	216	71	134488052	134501883	-1	SIAT4A	ST3O, SIATFL, ST3GalA.1
8	ST3GAL1	ENSG00000008513	ENST00000519924	protein_coding	KNOWN	None	10862	148	48	134488120	134501943	-1	SIAT4A	ST3O, SIATFL, ST3GalA.1
8	ST3GAL1	ENSG00000008513	ENST00000523855	protein_coding	KNOWN	None	10862	141	46	134488127	134511604	-1	SIAT4A	ST3O, SIATFL, ST3GalA.1
8	ST3GAL1	ENSG00000008513	ENST00000519435	processed_transcript	KNOWN	None	10862	None	None	134488272	134582622	-1	SIAT4A	ST3O, SIATFL, ST3GalA.1
8	ST3GAL1	ENSG00000008513	ENST00000518298	processed_transcript	KNOWN	None	10862	None	None	134488272	134584131	-1	SIAT4A	ST3O, SIATFL, ST3GalA.1
8	ST3GAL1	ENSG00000008513	ENST00000520020	processed_transcript	KNOWN	None	10862	None	None	134488386	134511664	-1	SIAT4A	ST3O, SIATFL, ST3GalA.1
8	ST3GAL1	ENSG00000008513	ENST00000522873	processed_transcript	KNOWN	None	10862	None	None	134488766	134584169	-1	SIAT4A	ST3O, SIATFL, ST3GalA.1
8	ST3GAL1	ENSG00000008513	ENST00000521627	processed_transcript	KNOWN	None	10862	None	None	134500325	134501876	-1	SIAT4A	ST3O, SIATFL, ST3GalA.1
8	ST3GAL1	ENSG00000008513	ENST00000522285	processed_transcript	KNOWN	None	10862	None	None	134579225	134583989	-1	SIAT4A	ST3O, SIATFL, ST3GalA.1
8	ST3GAL1	ENSG00000008513	ENST00000319914	protein_coding	KNOWN	CCDS6373	10862	1023	340	134467091	134584183	-1	SIAT4A	ST3O, SIATFL, ST3GalA.1
8	ST3GAL1	ENSG00000008513	ENST00000399640	protein_coding	KNOWN	CCDS6373	10862	1023	340	134467091	134488847	-1	SIAT4A	ST3O, SIATFL, ST3GalA.1
19	None	ENSG00000267703	ENST00000587343	antisense	KNOWN	None	None	None	None	16551757	16554395	1	None	None
19	RN7SL146P	ENSG00000240106	ENST00000472338	misc_RNA	KNOWN	None	46162	None	None	16650499	16650795	-1	None	None
17	TUSC5	ENSG00000184811	ENST00000333813	protein_coding	KNOWN	CCDS42225	29592	534	177	1182957	1204281	1	None	LOST1, IFITMD3
19	None	ENSG00000269399	ENST00000596487	lincRNA	KNOWN	None	None	None	None	16653434	16655625	-1	None	None
19	None	ENSG00000269399	ENST00000595909	lincRNA	KNOWN	None	None	None	None	16653557	16655487	-1	None	None
1	PDC	ENSG00000116703	ENST00000391997	protein_coding	KNOWN	CCDS1370	8759	741	246	186412698	186430254	-1	None	MEKA
1	PDC	ENSG00000116703	ENST00000497198	protein_coding	KNOWN	CCDS41447	8759	585	194	186412714	186417856	-1	None	MEKA
1	PDC	ENSG00000116703	ENST00000340129	protein_coding	KNOWN	CCDS1370	8759	741	246	186413111	186418591	-1	None	MEKA
1	PDC	ENSG00000116703	ENST00000456239	protein_coding	KNOWN	CCDS41447	8759	585	194	186413020	186415637	-1	None	MEKA
19	None	ENSG00000268309	ENST00000597357	antisense	KNOWN	None	None	None	None	16662584	16663139	1	None	None
16	BCL7C	ENSG00000099385	ENST00000380317	protein_coding	KNOWN	None	1006	729	242	30844947	30905623	-1	None	None
16	BCL7C	ENSG00000099385	ENST00000574418	nonsense_mediated_decay	KNOWN	None	1006	315	104	30845906	30905521	-1	None	None
16	BCL7C	ENSG00000099385	ENST00000576194	processed_transcript	PUTATIVE	None	1006	None	None	30845976	30852075	-1	None	None
16	BCL7C	ENSG00000099385	ENST00000572628	protein_coding	PUTATIVE	None	1006	880	292	30862567	30905263	-1	None	None
16	BCL7C	ENSG00000099385	ENST00000215115	protein_coding	KNOWN	CCDS10693	1006	654	217	30899116	30906281	-1	None	None
9	RN7SKP264	ENSG00000223012	ENST00000411080	misc_RNA	KNOWN	None	45988	None	None	88873273	88873561	-1	None	None
19	None	ENSG00000269085	ENST00000597851	antisense	KNOWN	None	None	None	None	16676362	16677141	1	None	None
9	None	ENSG00000214908	ENST00000422735	processed_pseudogene	KNOWN	None	None	None	None	88989881	88990621	-1	None	None
HSCHR6_MHC_MANN	HLA-DPA1	ENSG00000228163	ENST00000422504	protein_coding	KNOWN	None	4938	783	260	33186489	33202636	-1	HLA-DP1A	None
HSCHR6_MHC_MANN	HLA-DPA1	ENSG00000228163	ENST00000472997	retained_intron	KNOWN	None	4938	None	None	33186927	33195535	-1	HLA-DP1A	None
HSCHR6_MHC_MANN	HLA-DPA1	ENSG00000228163	ENST00000455869	protein_coding	KNOWN	None	4938	385	127	33189580	33191168	-1	HLA-DP1A	None
HSCHR6_MHC_MANN	HLA-DPA1	ENSG00000228163	ENST00000452619	protein_coding	KNOWN	None	4938	636	211	33190618	33195557	-1	HLA-DP1A	None
HSCHR6_MHC_MANN	HLA-DPA1	ENSG00000228163	ENST00000456525	protein_coding	KNOWN	None	4938	628	208	33190939	33202693	-1	HLA-DP1A	None
HSCHR6_MHC_MANN	HLA-DPA1	ENSG00000228163	ENST00000495074	processed_transcript	KNOWN	None	4938	None	None	33191024	33202681	-1	HLA-DP1A	None
HSCHR6_MHC_MANN	HLA-DPA1	ENSG00000228163	ENST00000494775	processed_transcript	KNOWN	None	4938	None	None	33191082	33195553	-1	HLA-DP1A	None
HSCHR6_MHC_MANN	HLA-DPA1	ENSG00000228163	ENST00000427518	protein_coding	KNOWN	None	4938	69	22	33195422	33202701	-1	HLA-DP1A	None
HSCHR6_MHC_MANN	HLA-DPA1	ENSG00000228163	ENST00000550806	protein_coding	KNOWN	None	4938	783	260	33186937	33195521	-1	HLA-DP1A	None
9	None	ENSG00000235819	ENST00000438582	lincRNA	KNOWN	None	None	None	None	89029197	89029485	1	None	None
1	TMEM39B	ENSG00000121775	ENST00000487305	processed_transcript	KNOWN	None	25510	None	None	32537632	32568464	1	None	FLJ10315
1	TMEM39B	ENSG00000121775	ENST00000336294	protein_coding	KNOWN	CCDS351	25510	1479	492	32538503	32568462	1	None	FLJ10315
1	TMEM39B	ENSG00000121775	ENST00000438825	protein_coding	KNOWN	None	25510	577	191	32538536	32557346	1	None	FLJ10315
1	TMEM39B	ENSG00000121775	ENST00000441402	nonsense_mediated_decay	KNOWN	None	25510	582	193	32538544	32568467	1	None	FLJ10315
1	TMEM39B	ENSG00000121775	ENST00000472503	processed_transcript	KNOWN	None	25510	None	None	32538560	32557610	1	None	FLJ10315
1	TMEM39B	ENSG00000121775	ENST00000468135	processed_transcript	KNOWN	None	25510	None	None	32538570	32568467	1	None	FLJ10315
1	TMEM39B	ENSG00000121775	ENST00000466321	processed_transcript	KNOWN	None	25510	None	None	32538586	32557345	1	None	FLJ10315
1	TMEM39B	ENSG00000121775	ENST00000476968	processed_transcript	KNOWN	None	25510	None	None	32538767	32568467	1	None	FLJ10315
1	TMEM39B	ENSG00000121775	ENST00000498613	processed_transcript	KNOWN	None	25510	None	None	32541732	32560538	1	None	FLJ10315
1	TMEM39B	ENSG00000121775	ENST00000456834	protein_coding	KNOWN	None	25510	666	221	32538567	32566156	1	None	FLJ10315
1	TMEM39B	ENSG00000121775	ENST00000427288	protein_coding	KNOWN	None	25510	1029	342	32538597	32566804	1	None	FLJ10315
1	TMEM39B	ENSG00000121775	ENST00000373634	protein_coding	KNOWN	None	25510	882	293	32538593	32568465	1	None	FLJ10315
9	RNU2-36P	ENSG00000222293	ENST00000410361	snRNA	KNOWN	None	48529	None	None	89037853	89038043	-1	None	None
19	None	ENSG00000269578	ENST00000593779	sense_intronic	KNOWN	None	None	None	None	16697716	16698796	-1	None	None
11	PITPNM1	ENSG00000110697	ENST00000534749	protein_coding	KNOWN	CCDS31620	9003	3735	1244	67259239	67271840	-1	PITPNM	DRES9, NIR2, RDGB1, RDGBA1, Rd9, RDGB
11	PITPNM1	ENSG00000110697	ENST00000436757	protein_coding	KNOWN	CCDS44659	9003	3732	1243	67259239	67272836	-1	PITPNM	DRES9, NIR2, RDGB1, RDGBA1, Rd9, RDGB
11	PITPNM1	ENSG00000110697	ENST00000527370	retained_intron	KNOWN	None	9003	None	None	67259240	67266108	-1	PITPNM	DRES9, NIR2, RDGB1, RDGBA1, Rd9, RDGB
11	PITPNM1	ENSG00000110697	ENST00000526450	processed_transcript	KNOWN	None	9003	None	None	67260915	67262416	-1	PITPNM	DRES9, NIR2, RDGB1, RDGBA1, Rd9, RDGB
11	PITPNM1	ENSG00000110697	ENST00000525568	processed_transcript	PUTATIVE	None	9003	None	None	67261767	67262750	-1	PITPNM	DRES9, NIR2, RDGB1, RDGBA1, Rd9, RDGB
11	PITPNM1	ENSG00000110697	ENST00000526602	processed_transcript	PUTATIVE	None	9003	None	None	67262611	67263910	-1	PITPNM	DRES9, NIR2, RDGB1, RDGBA1, Rd9, RDGB
11	PITPNM1	ENSG00000110697	ENST00000525521	processed_transcript	PUTATIVE	None	9003	None	None	67267110	67267484	-1	PITPNM	DRES9, NIR2, RDGB1, RDGBA1, Rd9, RDGB
11	PITPNM1	ENSG00000110697	ENST00000530381	processed_transcript	PUTATIVE	None	9003	None	None	67267242	67267879	-1	PITPNM	DRES9, NIR2, RDGB1, RDGBA1, Rd9, RDGB
11	PITPNM1	ENSG00000110697	ENST00000529203	processed_transcript	KNOWN	None	9003	None	None	67269439	67270099	-1	PITPNM	DRES9, NIR2, RDGB1, RDGBA1, Rd9, RDGB
11	PITPNM1	ENSG00000110697	ENST00000533391	protein_coding	NOVEL	None	9003	489	162	67269484	67271723	-1	PITPNM	DRES9, NIR2, RDGB1, RDGBA1, Rd9, RDGB
11	PITPNM1	ENSG00000110697	ENST00000532703	protein_coding	PUTATIVE	None	9003	463	153	67269510	67272028	-1	PITPNM	DRES9, NIR2, RDGB1, RDGBA1, Rd9, RDGB
11	PITPNM1	ENSG00000110697	ENST00000528559	protein_coding	PUTATIVE	None	9003	455	150	67269518	67273734	-1	PITPNM	DRES9, NIR2, RDGB1, RDGBA1, Rd9, RDGB
11	PITPNM1	ENSG00000110697	ENST00000527527	processed_transcript	PUTATIVE	None	9003	None	None	67269768	67272785	-1	PITPNM	DRES9, NIR2, RDGB1, RDGBA1, Rd9, RDGB
11	PITPNM1	ENSG00000110697	ENST00000524901	protein_coding	PUTATIVE	None	9003	264	87	67270004	67272509	-1	PITPNM	DRES9, NIR2, RDGB1, RDGBA1, Rd9, RDGB
11	PITPNM1	ENSG00000110697	ENST00000527103	processed_transcript	KNOWN	None	9003	None	None	67271311	67272810	-1	PITPNM	DRES9, NIR2, RDGB1, RDGBA1, Rd9, RDGB
11	PITPNM1	ENSG00000110697	ENST00000356404	protein_coding	KNOWN	CCDS31620	9003	3735	1244	67259240	67272843	-1	PITPNM	DRES9, NIR2, RDGB1, RDGBA1, Rd9, RDGB
22	UPK3A	ENSG00000100373	ENST00000216211	protein_coding	KNOWN	CCDS14064	12580	864	287	45680863	45691755	1	UPK3	None
22	UPK3A	ENSG00000100373	ENST00000396082	protein_coding	PUTATIVE	CCDS54539	12580	501	166	45680872	45691703	1	UPK3	None
19	None	ENSG00000268087	ENST00000597226	lincRNA	KNOWN	None	None	None	None	16721222	16747342	1	None	None
19	None	ENSG00000269427	ENST00000601687	antisense	KNOWN	None	None	None	None	16741554	16749761	1	None	None
19	None	ENSG00000269427	ENST00000601040	antisense	KNOWN	None	None	None	None	16741563	16754753	1	None	None
20	EBF4	ENSG00000088881	ENST00000449079	nonsense_mediated_decay	KNOWN	None	29278	1935	644	2673480	2740754	1	None	KIAA1442, COE4, RP5-860F19.3, O/E-4
20	EBF4	ENSG00000088881	ENST00000497450	processed_transcript	KNOWN	None	29278	None	None	2673525	2686883	1	None	KIAA1442, COE4, RP5-860F19.3, O/E-4
20	EBF4	ENSG00000088881	ENST00000342725	protein_coding	KNOWN	None	29278	1809	602	2674292	2740747	1	None	KIAA1442, COE4, RP5-860F19.3, O/E-4
20	EBF4	ENSG00000088881	ENST00000469215	processed_transcript	KNOWN	None	29278	None	None	2674335	2730066	1	None	KIAA1442, COE4, RP5-860F19.3, O/E-4
20	EBF4	ENSG00000088881	ENST00000463145	processed_transcript	KNOWN	None	29278	None	None	2686887	2740723	1	None	KIAA1442, COE4, RP5-860F19.3, O/E-4
20	EBF4	ENSG00000088881	ENST00000491472	processed_transcript	KNOWN	None	29278	None	None	2732337	2736308	1	None	KIAA1442, COE4, RP5-860F19.3, O/E-4
20	EBF4	ENSG00000088881	ENST00000481662	processed_transcript	KNOWN	None	29278	None	None	2733142	2740748	1	None	KIAA1442, COE4, RP5-860F19.3, O/E-4
20	EBF4	ENSG00000088881	ENST00000477287	processed_transcript	KNOWN	None	29278	None	None	2735734	2740747	1	None	KIAA1442, COE4, RP5-860F19.3, O/E-4
20	EBF4	ENSG00000088881	ENST00000380648	protein_coding	KNOWN	CCDS46573	29278	1797	598	2673524	2740753	1	None	KIAA1442, COE4, RP5-860F19.3, O/E-4
6	CCNC	ENSG00000112237	ENST00000520429	protein_coding	KNOWN	CCDS34502	1581	852	283	99990256	100016849	-1	None	CycC
6	CCNC	ENSG00000112237	ENST00000369220	protein_coding	NOVEL	None	1581	849	282	99990263	100016504	-1	None	CycC
6	CCNC	ENSG00000112237	ENST00000326298	nonsense_mediated_decay	KNOWN	None	1581	609	202	99990263	100016507	-1	None	CycC
6	CCNC	ENSG00000112237	ENST00000520371	protein_coding	NOVEL	None	1581	849	282	99990378	100016589	-1	None	CycC
6	CCNC	ENSG00000112237	ENST00000523961	nonsense_mediated_decay	KNOWN	None	1581	150	49	99991165	100016522	-1	None	CycC
6	CCNC	ENSG00000112237	ENST00000523799	protein_coding	KNOWN	CCDS47461	1581	597	198	99991324	100016701	-1	None	CycC
6	CCNC	ENSG00000112237	ENST00000486428	protein_coding	NOVEL	None	1581	687	228	99991340	100009534	-1	None	CycC
6	CCNC	ENSG00000112237	ENST00000523985	protein_coding	KNOWN	CCDS47461	1581	597	198	99991351	100016536	-1	None	CycC
6	CCNC	ENSG00000112237	ENST00000484049	nonsense_mediated_decay	KNOWN	None	1581	345	114	99991656	100016528	-1	None	CycC
6	CCNC	ENSG00000112237	ENST00000518714	protein_coding	NOVEL	None	1581	849	282	99991656	100016538	-1	None	CycC
6	CCNC	ENSG00000112237	ENST00000524049	protein_coding	KNOWN	None	1581	486	161	99993044	100016103	-1	None	CycC
6	CCNC	ENSG00000112237	ENST00000519617	retained_intron	KNOWN	None	1581	None	None	99993081	99997523	-1	None	CycC
6	CCNC	ENSG00000112237	ENST00000521017	processed_transcript	KNOWN	None	1581	None	None	99998447	100016504	-1	None	CycC
6	CCNC	ENSG00000112237	ENST00000523639	retained_intron	KNOWN	None	1581	None	None	99998732	100016643	-1	None	CycC
6	CCNC	ENSG00000112237	ENST00000369217	protein_coding	NOVEL	None	1581	578	191	99998870	100016499	-1	None	CycC
6	CCNC	ENSG00000112237	ENST00000482541	protein_coding	PUTATIVE	None	1581	432	143	100005116	100016504	-1	None	CycC
6	CCNC	ENSG00000112237	ENST00000523310	retained_intron	KNOWN	None	1581	None	None	100006290	100009748	-1	None	CycC
6	CCNC	ENSG00000112237	ENST00000523541	retained_intron	KNOWN	None	1581	None	None	100009896	100016565	-1	None	CycC
10	None	ENSG00000233387	ENST00000414308	lincRNA	KNOWN	None	None	None	None	33385185	33405600	-1	None	None
5	TMEM174	ENSG00000164325	ENST00000296776	protein_coding	KNOWN	CCDS4018	28187	732	243	72469022	72470970	1	None	MGC13034, FLJ31268
5	TMEM174	ENSG00000164325	ENST00000511737	processed_transcript	KNOWN	None	28187	None	None	72469119	72470885	1	None	MGC13034, FLJ31268
7	RNA5SP229	ENSG00000222741	ENST00000410809	rRNA	KNOWN	None	43129	None	None	33217352	33217450	1	RN5S229	None
10	None	ENSG00000263576	ENST00000578452	miRNA	NOVEL	None	None	None	None	33387463	33387564	-1	None	None
5	FOXD1	ENSG00000251493	ENST00000513595	processed_transcript	KNOWN	None	3802	None	None	72740654	72742815	-1	FKHL8	FREAC4
5	FOXD1	ENSG00000251493	ENST00000499003	protein_coding	KNOWN	None	3802	1380	459	72742083	72744352	-1	FKHL8	FREAC4
1	DDX20	ENSG00000064703	ENST00000533164	nonsense_mediated_decay	KNOWN	None	2743	417	138	112297867	112308452	1	None	DP103, GEMIN3
1	DDX20	ENSG00000064703	ENST00000369702	protein_coding	KNOWN	CCDS842	2743	2475	824	112297927	112310638	1	None	DP103, GEMIN3
1	DDX20	ENSG00000064703	ENST00000475700	protein_coding	PUTATIVE	None	2743	1299	432	112303019	112310196	1	None	DP103, GEMIN3
1	DDX20	ENSG00000064703	ENST00000524894	retained_intron	KNOWN	None	2743	None	None	112303704	112305110	1	None	DP103, GEMIN3
1	DDX20	ENSG00000064703	ENST00000534200	retained_intron	KNOWN	None	2743	None	None	112305039	112308452	1	None	DP103, GEMIN3
1	DDX20	ENSG00000064703	ENST00000536167	protein_coding	KNOWN	None	2743	417	138	112298521	112308452	1	None	DP103, GEMIN3
17	YWHAE	ENSG00000108953	ENST00000264335	protein_coding	KNOWN	CCDS11001	12851	768	255	1247566	1303672	-1	None	FLJ45465
17	YWHAE	ENSG00000108953	ENST00000466227	nonsense_mediated_decay	KNOWN	None	12851	329	108	1247833	1268352	-1	None	FLJ45465
17	YWHAE	ENSG00000108953	ENST00000571732	protein_coding	PUTATIVE	None	12851	702	233	1247834	1303514	-1	None	FLJ45465
17	YWHAE	ENSG00000108953	ENST00000573026	protein_coding	PUTATIVE	None	12851	117	38	1248149	1303475	-1	None	FLJ45465
17	YWHAE	ENSG00000108953	ENST00000496706	protein_coding	PUTATIVE	None	12851	348	115	1248449	1264588	-1	None	FLJ45465
17	YWHAE	ENSG00000108953	ENST00000573196	nonsense_mediated_decay	KNOWN	None	12851	285	94	1248552	1303500	-1	None	FLJ45465
17	YWHAE	ENSG00000108953	ENST00000575977	protein_coding	PUTATIVE	None	12851	324	107	1248622	1303508	-1	None	FLJ45465
17	YWHAE	ENSG00000108953	ENST00000469398	retained_intron	KNOWN	None	12851	None	None	1264965	1303445	-1	None	FLJ45465
17	YWHAE	ENSG00000108953	ENST00000486241	retained_intron	KNOWN	None	12851	None	None	1264975	1303503	-1	None	FLJ45465
17	YWHAE	ENSG00000108953	ENST00000489287	retained_intron	KNOWN	None	12851	None	None	1268042	1303494	-1	None	FLJ45465
17	YWHAE	ENSG00000108953	ENST00000576854	retained_intron	KNOWN	None	12851	None	None	1302127	1303500	-1	None	FLJ45465
17	YWHAE	ENSG00000108953	ENST00000572108	processed_transcript	PUTATIVE	None	12851	None	None	1302172	1302883	-1	None	FLJ45465
17	YWHAE	ENSG00000108953	ENST00000498643	processed_transcript	PUTATIVE	None	12851	None	None	1302338	1303429	-1	None	FLJ45465
7	None	ENSG00000224946	ENST00000427493	processed_pseudogene	KNOWN	None	None	None	None	33316446	33316703	-1	None	None
10	None	ENSG00000238258	ENST00000451530	antisense	KNOWN	None	None	None	None	33500205	33502732	1	None	None
HSCHR6_MHC_APD	HLA-DPA3	ENSG00000231895	ENST00000424920	unprocessed_pseudogene	KNOWN	None	19393	None	None	33082356	33082482	-1	None	None
1	PTGS2	ENSG00000073756	ENST00000367468	protein_coding	KNOWN	CCDS1371	9605	1815	604	186640923	186649559	-1	None	COX2
1	PTGS2	ENSG00000073756	ENST00000490885	processed_transcript	KNOWN	None	9605	None	None	186642025	186649555	-1	None	COX2
1	PTGS2	ENSG00000073756	ENST00000559627	nonsense_mediated_decay	KNOWN	None	9605	492	163	186643485	186649422	-1	None	COX2
1	PTGS2	ENSG00000073756	ENST00000466691	processed_transcript	KNOWN	None	9605	None	None	186643628	186645001	-1	None	COX2
1	PTGS2	ENSG00000073756	ENST00000559800	processed_transcript	KNOWN	None	9605	None	None	186647402	186649555	-1	None	COX2
HSCHR6_MHC_APD	LYPLA2P1	ENSG00000217281	ENST00000406789	processed_pseudogene	KNOWN	None	21069	None	None	33316721	33317416	-1	LYPLA2L	dJ570F3.6, APT
HSCHR6_MHC_APD	LYPLA2P1	ENSG00000217281	ENST00000552969	processed_pseudogene	KNOWN	None	21069	None	None	33316862	33317379	-1	LYPLA2L	dJ570F3.6, APT
14	BDKRB2	ENSG00000168398	ENST00000542454	protein_coding	KNOWN	None	1030	1095	364	96671016	96710503	1	None	BK-2
14	BDKRB2	ENSG00000168398	ENST00000554311	protein_coding	KNOWN	CCDS9942	1030	1176	391	96671132	96710501	1	None	BK-2
14	BDKRB2	ENSG00000168398	ENST00000539359	protein_coding	KNOWN	None	1030	1095	364	96671176	96707944	1	None	BK-2
14	BDKRB2	ENSG00000168398	ENST00000306005	protein_coding	KNOWN	CCDS9942	1030	1176	391	96671135	96710666	1	None	BK-2
10	RN7SL398P	ENSG00000244356	ENST00000470244	misc_RNA	KNOWN	None	46414	None	None	33577234	33577529	-1	None	None
7	None	ENSG00000238090	ENST00000423599	processed_pseudogene	KNOWN	None	None	None	None	33419576	33420498	1	None	None
12	ATN1	ENSG00000111676	ENST00000356654	protein_coding	KNOWN	CCDS31734	3033	3573	1190	7033626	7051484	1	D12S755E, DRPLA	B37
12	ATN1	ENSG00000111676	ENST00000396684	protein_coding	KNOWN	CCDS31734	3033	3573	1190	7037476	7051426	1	D12S755E, DRPLA	B37
12	ATN1	ENSG00000111676	ENST00000541029	retained_intron	KNOWN	None	3033	None	None	7046861	7048128	1	D12S755E, DRPLA	B37
12	ATN1	ENSG00000111676	ENST00000537488	retained_intron	KNOWN	None	3033	None	None	7048270	7051220	1	D12S755E, DRPLA	B37
Y	BPY2B	ENSG00000183795	ENST00000602770	protein_coding	KNOWN	None	25449	33	10	26753707	26772264	1	None	VCY2B
Y	BPY2B	ENSG00000183795	ENST00000382392	protein_coding	KNOWN	CCDS44029	25449	321	106	26764151	26785354	1	None	VCY2B
Y	BPY2B	ENSG00000183795	ENST00000602549	processed_transcript	KNOWN	None	25449	None	None	26764175	26785295	1	None	VCY2B
7	None	ENSG00000227481	ENST00000455149	antisense	KNOWN	None	None	None	None	33769904	33771676	-1	None	None
5	BTF3	ENSG00000145741	ENST00000335895	protein_coding	KNOWN	CCDS4019	1125	489	162	72794233	72801320	1	NACB	BTF3a, BTF3b
5	BTF3	ENSG00000145741	ENST00000512257	retained_intron	KNOWN	None	1125	None	None	72794256	72795476	1	NACB	BTF3a, BTF3b
5	BTF3	ENSG00000145741	ENST00000514505	processed_transcript	KNOWN	None	1125	None	None	72794261	72801260	1	NACB	BTF3a, BTF3b
5	BTF3	ENSG00000145741	ENST00000514360	retained_intron	KNOWN	None	1125	None	None	72794267	72801320	1	NACB	BTF3a, BTF3b
5	BTF3	ENSG00000145741	ENST00000380591	protein_coding	KNOWN	CCDS34185	1125	621	206	72794274	72801460	1	NACB	BTF3a, BTF3b
5	BTF3	ENSG00000145741	ENST00000510787	retained_intron	KNOWN	None	1125	None	None	72794282	72798510	1	NACB	BTF3a, BTF3b
5	BTF3	ENSG00000145741	ENST00000508901	retained_intron	KNOWN	None	1125	None	None	72794298	72800654	1	NACB	BTF3a, BTF3b
5	BTF3	ENSG00000145741	ENST00000507081	protein_coding	NOVEL	None	1125	330	109	72794335	72801018	1	NACB	BTF3a, BTF3b
5	BTF3	ENSG00000145741	ENST00000509708	protein_coding	NOVEL	None	1125	260	85	72798416	72801318	1	NACB	BTF3a, BTF3b
2	CLHC1	ENSG00000162994	ENST00000428621	nonsense_mediated_decay	KNOWN	None	26453	279	92	55401927	55459410	-1	C2orf63	FLJ31438
2	CLHC1	ENSG00000162994	ENST00000494539	processed_transcript	KNOWN	None	26453	None	None	55402775	55459439	-1	C2orf63	FLJ31438
2	CLHC1	ENSG00000162994	ENST00000407122	protein_coding	KNOWN	CCDS33201	26453	1761	586	55402785	55459294	-1	C2orf63	FLJ31438
2	CLHC1	ENSG00000162994	ENST00000401408	protein_coding	KNOWN	CCDS33201	26453	1761	586	55402785	55459449	-1	C2orf63	FLJ31438
2	CLHC1	ENSG00000162994	ENST00000406076	protein_coding	NOVEL	CCDS46287	26453	1395	464	55402805	55459699	-1	C2orf63	FLJ31438
2	CLHC1	ENSG00000162994	ENST00000411884	nonsense_mediated_decay	KNOWN	None	26453	150	49	55402997	55436788	-1	C2orf63	FLJ31438
2	CLHC1	ENSG00000162994	ENST00000487320	processed_transcript	KNOWN	None	26453	None	None	55404880	55459481	-1	C2orf63	FLJ31438
2	CLHC1	ENSG00000162994	ENST00000466020	processed_transcript	PUTATIVE	None	26453	None	None	55432848	55459400	-1	C2orf63	FLJ31438
2	CLHC1	ENSG00000162994	ENST00000451916	protein_coding	KNOWN	None	26453	242	79	55445070	55459490	-1	C2orf63	FLJ31438
2	CLHC1	ENSG00000162994	ENST00000464243	processed_transcript	PUTATIVE	None	26453	None	None	55445256	55459399	-1	C2orf63	FLJ31438
2	CLHC1	ENSG00000162994	ENST00000463300	processed_transcript	PUTATIVE	None	26453	None	None	55445481	55459428	-1	C2orf63	FLJ31438
2	CLHC1	ENSG00000162994	ENST00000403506	protein_coding	KNOWN	None	26453	140	45	55449408	55451534	-1	C2orf63	FLJ31438
2	CLHC1	ENSG00000162994	ENST00000425841	protein_coding	KNOWN	None	26453	52	16	55449496	55451496	-1	C2orf63	FLJ31438
2	CLHC1	ENSG00000162994	ENST00000406437	protein_coding	KNOWN	None	26453	414	137	55401927	55459410	-1	C2orf63	FLJ31438
9	None	ENSG00000232211	ENST00000443163	lincRNA	KNOWN	None	None	None	None	89247062	89311411	1	None	None
11	NTM	ENSG00000182667	ENST00000374791	protein_coding	KNOWN	CCDS41733	17941	1035	344	131240373	132206716	1	None	HNT, NTRI, IGLON2
11	NTM	ENSG00000182667	ENST00000436745	protein_coding	PUTATIVE	None	17941	108	35	131240521	131781510	1	None	HNT, NTRI, IGLON2
11	NTM	ENSG00000182667	ENST00000477098	processed_transcript	PUTATIVE	None	17941	None	None	131240524	131531125	1	None	HNT, NTRI, IGLON2
11	NTM	ENSG00000182667	ENST00000550167	protein_coding	PUTATIVE	None	17941	574	190	131325357	132177657	1	None	HNT, NTRI, IGLON2
11	NTM	ENSG00000182667	ENST00000416661	protein_coding	PUTATIVE	None	17941	55	17	131451905	131530942	1	None	HNT, NTRI, IGLON2
11	NTM	ENSG00000182667	ENST00000463395	processed_transcript	PUTATIVE	None	17941	None	None	131779591	131792157	1	None	HNT, NTRI, IGLON2
11	NTM	ENSG00000182667	ENST00000498764	processed_transcript	KNOWN	None	17941	None	None	131779938	132184493	1	None	HNT, NTRI, IGLON2
11	NTM	ENSG00000182667	ENST00000470371	processed_transcript	KNOWN	None	17941	None	None	131780713	131781542	1	None	HNT, NTRI, IGLON2
11	NTM	ENSG00000182667	ENST00000374786	protein_coding	KNOWN	CCDS8491	17941	1035	344	131780897	132206716	1	None	HNT, NTRI, IGLON2
11	NTM	ENSG00000182667	ENST00000479431	retained_intron	KNOWN	None	17941	None	None	131781335	132016818	1	None	HNT, NTRI, IGLON2
11	NTM	ENSG00000182667	ENST00000425719	protein_coding	NOVEL	CCDS44777	17941	1068	355	131781356	132205559	1	None	HNT, NTRI, IGLON2
11	NTM	ENSG00000182667	ENST00000374784	protein_coding	KNOWN	CCDS44778	17941	951	316	131781362	132184964	1	None	HNT, NTRI, IGLON2
11	NTM	ENSG00000182667	ENST00000467255	processed_transcript	KNOWN	None	17941	None	None	132010905	132184597	1	None	HNT, NTRI, IGLON2
11	NTM	ENSG00000182667	ENST00000496094	processed_transcript	KNOWN	None	17941	None	None	132081634	132204945	1	None	HNT, NTRI, IGLON2
11	NTM	ENSG00000182667	ENST00000474900	processed_transcript	KNOWN	None	17941	None	None	132081651	132206696	1	None	HNT, NTRI, IGLON2
11	NTM	ENSG00000182667	ENST00000482316	processed_transcript	KNOWN	None	17941	None	None	132081693	132177656	1	None	HNT, NTRI, IGLON2
11	NTM	ENSG00000182667	ENST00000490356	processed_transcript	KNOWN	None	17941	None	None	132081693	132182408	1	None	HNT, NTRI, IGLON2
11	NTM	ENSG00000182667	ENST00000457381	protein_coding	NOVEL	None	17941	359	118	132180090	132205345	1	None	HNT, NTRI, IGLON2
11	NTM	ENSG00000182667	ENST00000483174	processed_transcript	PUTATIVE	None	17941	None	None	132202138	132205547	1	None	HNT, NTRI, IGLON2
11	NTM	ENSG00000182667	ENST00000496198	processed_transcript	KNOWN	None	17941	None	None	132202384	132205180	1	None	HNT, NTRI, IGLON2
11	NTM	ENSG00000182667	ENST00000539799	protein_coding	KNOWN	None	17941	1068	355	131240702	132205040	1	None	HNT, NTRI, IGLON2
11	NTM	ENSG00000182667	ENST00000427481	protein_coding	KNOWN	None	17941	1041	346	131530888	132205040	1	None	HNT, NTRI, IGLON2
9	None	ENSG00000226237	ENST00000415801	lincRNA	KNOWN	None	None	None	None	89563614	89616948	1	None	None
X	OPN1LW	ENSG00000102076	ENST00000369951	protein_coding	KNOWN	CCDS14742	9936	1095	364	153409698	153424507	1	CBBM, RCP, CBP	COD5
X	OPN1LW	ENSG00000102076	ENST00000463296	processed_transcript	KNOWN	None	9936	None	None	153409748	153421872	1	CBBM, RCP, CBP	COD5
X	OPN1LW	ENSG00000102076	ENST00000442922	protein_coding	NOVEL	None	9936	495	164	153418415	153424498	1	CBBM, RCP, CBP	COD5
7	None	ENSG00000236494	ENST00000420185	lincRNA	KNOWN	None	None	None	None	33832780	33842742	-1	None	None
7	None	ENSG00000236494	ENST00000440034	lincRNA	KNOWN	None	None	None	None	33835080	33842768	-1	None	None
21	PDE9A	ENSG00000160191	ENST00000460905	processed_transcript	KNOWN	None	8795	None	None	44073746	44174174	1	None	None
21	PDE9A	ENSG00000160191	ENST00000472401	processed_transcript	KNOWN	None	8795	None	None	44073859	44119148	1	None	None
21	PDE9A	ENSG00000160191	ENST00000335512	protein_coding	KNOWN	CCDS33568	8795	1602	533	44073860	44195619	1	None	None
21	PDE9A	ENSG00000160191	ENST00000470987	processed_transcript	KNOWN	None	8795	None	None	44073865	44195619	1	None	None
21	PDE9A	ENSG00000160191	ENST00000291539	protein_coding	KNOWN	CCDS13690	8795	1782	593	44073865	44195619	1	None	None
21	PDE9A	ENSG00000160191	ENST00000490803	processed_transcript	KNOWN	None	8795	None	None	44073865	44195619	1	None	None
21	PDE9A	ENSG00000160191	ENST00000486902	processed_transcript	KNOWN	None	8795	None	None	44073889	44121299	1	None	None
21	PDE9A	ENSG00000160191	ENST00000380328	protein_coding	KNOWN	CCDS33567	8795	1623	540	44073889	44195619	1	None	None
21	PDE9A	ENSG00000160191	ENST00000495521	processed_transcript	KNOWN	None	8795	None	None	44073889	44195619	1	None	None
21	PDE9A	ENSG00000160191	ENST00000398232	protein_coding	KNOWN	CCDS42945	8795	1581	526	44073889	44195619	1	None	None
21	PDE9A	ENSG00000160191	ENST00000462571	processed_transcript	KNOWN	None	8795	None	None	44073889	44195619	1	None	None
21	PDE9A	ENSG00000160191	ENST00000398234	protein_coding	KNOWN	CCDS42943	8795	1479	492	44073889	44195619	1	None	None
21	PDE9A	ENSG00000160191	ENST00000398236	protein_coding	KNOWN	CCDS42941	8795	1524	507	44073889	44195619	1	None	None
21	PDE9A	ENSG00000160191	ENST00000468805	processed_transcript	KNOWN	None	8795	None	None	44073889	44195619	1	None	None
21	PDE9A	ENSG00000160191	ENST00000328862	protein_coding	KNOWN	CCDS33569	8795	1704	567	44073889	44195619	1	None	None
21	PDE9A	ENSG00000160191	ENST00000335440	protein_coding	KNOWN	CCDS33570	8795	1476	491	44073889	44195619	1	None	None
21	PDE9A	ENSG00000160191	ENST00000398225	protein_coding	KNOWN	CCDS42942	8795	1659	552	44073889	44195619	1	None	None
21	PDE9A	ENSG00000160191	ENST00000497805	processed_transcript	KNOWN	None	8795	None	None	44073889	44195619	1	None	None
21	PDE9A	ENSG00000160191	ENST00000398229	protein_coding	KNOWN	CCDS42944	8795	1380	459	44073889	44195619	1	None	None
21	PDE9A	ENSG00000160191	ENST00000398227	protein_coding	KNOWN	CCDS42947	8795	1302	433	44073889	44195619	1	None	None
21	PDE9A	ENSG00000160191	ENST00000460989	processed_transcript	KNOWN	None	8795	None	None	44073889	44195619	1	None	None
21	PDE9A	ENSG00000160191	ENST00000467403	processed_transcript	KNOWN	None	8795	None	None	44073889	44195619	1	None	None
21	PDE9A	ENSG00000160191	ENST00000349112	protein_coding	KNOWN	CCDS33571	8795	1398	465	44073923	44195619	1	None	None
21	PDE9A	ENSG00000160191	ENST00000398224	protein_coding	KNOWN	CCDS42946	8795	1401	466	44073923	44195619	1	None	None
21	PDE9A	ENSG00000160191	ENST00000467162	processed_transcript	KNOWN	None	8795	None	None	44106307	44182249	1	None	None
21	PDE9A	ENSG00000160191	ENST00000495343	processed_transcript	KNOWN	None	8795	None	None	44151868	44195619	1	None	None
21	PDE9A	ENSG00000160191	ENST00000489319	retained_intron	KNOWN	None	8795	None	None	44176885	44195619	1	None	None
21	PDE9A	ENSG00000160191	ENST00000466472	processed_transcript	PUTATIVE	None	8795	None	None	44182324	44188522	1	None	None
21	PDE9A	ENSG00000160191	ENST00000539837	protein_coding	KNOWN	None	8795	1398	465	44073862	44195616	1	None	None
16	ARL2BP	ENSG00000102931	ENST00000219204	protein_coding	KNOWN	CCDS10776	17146	492	163	57279010	57287516	1	None	BART1, BART
16	ARL2BP	ENSG00000102931	ENST00000565794	processed_transcript	KNOWN	None	17146	None	None	57279171	57280053	1	None	BART1, BART
16	ARL2BP	ENSG00000102931	ENST00000562023	protein_coding	NOVEL	None	17146	372	123	57279262	57286336	1	None	BART1, BART
16	ARL2BP	ENSG00000102931	ENST00000563234	protein_coding	PUTATIVE	None	17146	514	170	57279288	57287187	1	None	BART1, BART
21	OR4K11P	ENSG00000179381	ENST00000431829	processed_pseudogene	KNOWN	None	15402	None	None	14916603	14917506	-1	None	OR21-1
22	IGLJ4	ENSG00000211680	ENST00000390326	IG_J_gene	KNOWN	None	5866	33	10	23252744	23252776	1	None	None
21	None	ENSG00000228159	ENST00000427446	lincRNA	KNOWN	None	None	None	None	14918354	14930782	1	None	None
7	None	ENSG00000233219	ENST00000440074	lincRNA	KNOWN	None	None	None	None	33908113	33913843	-1	None	None
20	KIF16B	ENSG00000089177	ENST00000354981	protein_coding	KNOWN	CCDS13122	15869	3954	1317	16252749	16554078	-1	C20orf23	FLJ20135, dJ971B4.1, SNX23
20	KIF16B	ENSG00000089177	ENST00000408042	protein_coding	KNOWN	CCDS56178	15869	4179	1392	16347488	16554078	-1	C20orf23	FLJ20135, dJ971B4.1, SNX23
20	KIF16B	ENSG00000089177	ENST00000450176	protein_coding	KNOWN	None	15869	556	184	16360395	16385512	-1	C20orf23	FLJ20135, dJ971B4.1, SNX23
20	KIF16B	ENSG00000089177	ENST00000355755	protein_coding	KNOWN	None	15869	3864	1287	16252750	16554078	-1	C20orf23	FLJ20135, dJ971B4.1, SNX23
20	KIF16B	ENSG00000089177	ENST00000378003	protein_coding	KNOWN	None	15869	1509	502	16252750	16554078	-1	C20orf23	FLJ20135, dJ971B4.1, SNX23
22	IGLJ5	ENSG00000211681	ENST00000390327	IG_J_gene	KNOWN	None	5867	72	23	23256408	23256479	1	None	None
21	OR4K12P	ENSG00000218549	ENST00000406538	processed_pseudogene	KNOWN	None	15403	None	None	14953365	14954325	-1	None	OR21-2
22	IGLJ6	ENSG00000211682	ENST00000390328	IG_J_gene	KNOWN	None	5868	70	22	23260304	23260373	1	None	None
21	RNU6-286P	ENSG00000207476	ENST00000384745	snRNA	KNOWN	None	47249	None	None	14993898	14994004	1	None	None
22	IGLJ7	ENSG00000211684	ENST00000390330	IG_J_gene	KNOWN	None	5869	46	14	23263562	23263607	1	None	None
7	None	ENSG00000236212	ENST00000446484	lincRNA	KNOWN	None	None	None	None	34249138	34295955	1	None	None
21	MIR3118-5	ENSG00000266299	ENST00000581787	miRNA	KNOWN	None	38351	None	None	15017096	15017171	-1	None	hsa-mir-3118-5
9	None	ENSG00000269994	ENST00000602579	lincRNA	KNOWN	None	None	None	None	89623370	89657041	-1	None	None
21	GRAMD4P1	ENSG00000227874	ENST00000435181	processed_pseudogene	KNOWN	None	39653	None	None	15038189	15039867	-1	None	None
9	CDC20P1	ENSG00000231007	ENST00000488829	processed_pseudogene	KNOWN	None	29487	None	None	89626567	89628066	1	CDC20P	OTTHUMG00000020142
9	CDC20P1	ENSG00000231007	ENST00000541670	processed_pseudogene	KNOWN	None	29487	None	None	89626696	89628066	1	CDC20P	OTTHUMG00000020142
14	None	ENSG00000258691	ENST00000553811	protein_coding	NOVEL	None	None	228	75	96671181	96730266	1	None	None
14	None	ENSG00000258691	ENST00000555847	processed_transcript	PUTATIVE	None	None	None	None	96708478	96730184	1	None	None
3	GLB1	ENSG00000170266	ENST00000307363	protein_coding	KNOWN	CCDS43061	4298	2034	677	33038100	33138722	-1	ELNR1	EBP
3	GLB1	ENSG00000170266	ENST00000399402	protein_coding	NOVEL	CCDS43062	4298	1944	647	33038101	33138327	-1	ELNR1	EBP
3	GLB1	ENSG00000170266	ENST00000307377	protein_coding	NOVEL	CCDS46785	4298	1641	546	33038221	33138638	-1	ELNR1	EBP
3	GLB1	ENSG00000170266	ENST00000461475	processed_transcript	KNOWN	None	4298	None	None	33055565	33071690	-1	ELNR1	EBP
3	GLB1	ENSG00000170266	ENST00000497796	processed_transcript	KNOWN	None	4298	None	None	33055635	33076164	-1	ELNR1	EBP
3	GLB1	ENSG00000170266	ENST00000467571	processed_transcript	KNOWN	None	4298	None	None	33058200	33079511	-1	ELNR1	EBP
3	GLB1	ENSG00000170266	ENST00000473477	retained_intron	KNOWN	None	4298	None	None	33062746	33065917	-1	ELNR1	EBP
3	GLB1	ENSG00000170266	ENST00000482097	processed_transcript	KNOWN	None	4298	None	None	33063119	33138610	-1	ELNR1	EBP
3	GLB1	ENSG00000170266	ENST00000485698	processed_transcript	KNOWN	None	4298	None	None	33065739	33138638	-1	ELNR1	EBP
3	GLB1	ENSG00000170266	ENST00000481581	processed_transcript	PUTATIVE	None	4298	None	None	33071634	33075995	-1	ELNR1	EBP
3	GLB1	ENSG00000170266	ENST00000490658	processed_transcript	PUTATIVE	None	4298	None	None	33087098	33087684	-1	ELNR1	EBP
3	GLB1	ENSG00000170266	ENST00000498537	processed_transcript	KNOWN	None	4298	None	None	33087636	33138634	-1	ELNR1	EBP
3	GLB1	ENSG00000170266	ENST00000415454	protein_coding	PUTATIVE	None	4298	555	184	33087648	33138613	-1	ELNR1	EBP
3	GLB1	ENSG00000170266	ENST00000446732	nonsense_mediated_decay	KNOWN	None	4298	255	84	33093373	33114207	-1	ELNR1	EBP
3	GLB1	ENSG00000170266	ENST00000438227	nonsense_mediated_decay	KNOWN	None	4298	126	41	33093399	33138638	-1	ELNR1	EBP
3	GLB1	ENSG00000170266	ENST00000440656	protein_coding	PUTATIVE	None	4298	342	113	33099579	33138638	-1	ELNR1	EBP
3	GLB1	ENSG00000170266	ENST00000464355	processed_transcript	KNOWN	None	4298	None	None	33103160	33138535	-1	ELNR1	EBP
3	GLB1	ENSG00000170266	ENST00000450835	protein_coding	PUTATIVE	None	4298	307	101	33110311	33138284	-1	ELNR1	EBP
3	GLB1	ENSG00000170266	ENST00000436768	protein_coding	PUTATIVE	None	4298	441	146	33110411	33138694	-1	ELNR1	EBP
3	GLB1	ENSG00000170266	ENST00000445488	protein_coding	KNOWN	None	4298	2178	725	33038219	33138638	-1	ELNR1	EBP
2	FMNL2	ENSG00000157827	ENST00000288670	protein_coding	KNOWN	CCDS46429	18267	3279	1092	153191751	153506348	1	FHOD2	KIAA1902
2	FMNL2	ENSG00000157827	ENST00000492942	retained_intron	KNOWN	None	18267	None	None	153435135	153464167	1	FHOD2	KIAA1902
2	FMNL2	ENSG00000157827	ENST00000475377	protein_coding	NOVEL	None	18267	1386	461	153476092	153506337	1	FHOD2	KIAA1902
2	FMNL2	ENSG00000157827	ENST00000497192	processed_transcript	PUTATIVE	None	18267	None	None	153481662	153483218	1	FHOD2	KIAA1902
1	KCND3	ENSG00000171385	ENST00000369697	protein_coding	KNOWN	CCDS844	6239	1911	636	112313284	112525418	-1	None	Kv4.3, KSHIVB
1	KCND3	ENSG00000171385	ENST00000315987	protein_coding	KNOWN	CCDS843	6239	1968	655	112318431	112531777	-1	None	Kv4.3, KSHIVB
1	KCND3	ENSG00000171385	ENST00000302127	protein_coding	KNOWN	CCDS844	6239	1911	636	112318431	112531777	-1	None	Kv4.3, KSHIVB
21	LTN1	ENSG00000198862	ENST00000389194	protein_coding	KNOWN	CCDS33527	13082	5439	1812	30300466	30365270	-1	C21orf98, C21orf10, ZNF294, RNF160	KIAA0714, FLJ11053, LISTERIN
21	LTN1	ENSG00000198862	ENST00000486427	retained_intron	KNOWN	None	13082	None	None	30330728	30332184	-1	C21orf98, C21orf10, ZNF294, RNF160	KIAA0714, FLJ11053, LISTERIN
21	LTN1	ENSG00000198862	ENST00000475344	retained_intron	KNOWN	None	13082	None	None	30330772	30333143	-1	C21orf98, C21orf10, ZNF294, RNF160	KIAA0714, FLJ11053, LISTERIN
21	LTN1	ENSG00000198862	ENST00000389195	protein_coding	PUTATIVE	None	13082	2442	813	30333639	30365270	-1	C21orf98, C21orf10, ZNF294, RNF160	KIAA0714, FLJ11053, LISTERIN
21	LTN1	ENSG00000198862	ENST00000483326	nonsense_mediated_decay	KNOWN	None	13082	1099	365	30339217	30359082	-1	C21orf98, C21orf10, ZNF294, RNF160	KIAA0714, FLJ11053, LISTERIN
21	LTN1	ENSG00000198862	ENST00000361371	protein_coding	KNOWN	None	13082	5301	1766	30300466	30365277	-1	C21orf98, C21orf10, ZNF294, RNF160	KIAA0714, FLJ11053, LISTERIN
1	PLA2G4A	ENSG00000116711	ENST00000367466	protein_coding	KNOWN	CCDS1372	9035	2250	749	186798085	186958113	1	PLA2G4	cPLA2-alpha
1	PLA2G4A	ENSG00000116711	ENST00000466600	processed_transcript	KNOWN	None	9035	None	None	186823418	186908362	1	PLA2G4	cPLA2-alpha
1	PLA2G4A	ENSG00000116711	ENST00000442353	protein_coding	KNOWN	None	9035	2070	689	186798122	186957806	1	PLA2G4	cPLA2-alpha
9	None	ENSG00000224887	ENST00000437925	processed_pseudogene	KNOWN	None	None	None	None	89699076	89700066	-1	None	None
7	RNU6-438P	ENSG00000202431	ENST00000365561	snRNA	KNOWN	None	47401	None	None	34337108	34337210	-1	None	None
10	CYP2C19	ENSG00000165841	ENST00000464755	processed_transcript	KNOWN	None	2621	None	None	96447911	96612830	1	CYP2C	P450IIC19, CPCJ
10	CYP2C19	ENSG00000165841	ENST00000371321	protein_coding	KNOWN	CCDS7436	2621	1473	490	96522381	96613017	1	CYP2C	P450IIC19, CPCJ
10	CYP2C19	ENSG00000165841	ENST00000480405	processed_transcript	KNOWN	None	2621	None	None	96522438	96536207	1	CYP2C	P450IIC19, CPCJ
14	BDKRB1	ENSG00000100739	ENST00000216629	protein_coding	KNOWN	CCDS9943	1029	1062	353	96722161	96731100	1	None	BKR1, B1BKR, bradyb1
14	BDKRB1	ENSG00000100739	ENST00000553356	protein_coding	PUTATIVE	None	1029	855	284	96722547	96735304	1	None	BKR1, B1BKR, bradyb1
14	BDKRB1	ENSG00000100739	ENST00000557122	processed_transcript	PUTATIVE	None	1029	None	None	96731163	96734792	1	None	BKR1, B1BKR, bradyb1
7	None	ENSG00000265985	ENST00000584326	miRNA	NOVEL	None	None	None	None	34352562	34352657	-1	None	None
12	IAPP	ENSG00000121351	ENST00000539393	protein_coding	KNOWN	CCDS8688	5329	270	89	21507893	21531429	1	None	AMYLIN, DAP, IAP
12	IAPP	ENSG00000121351	ENST00000240652	protein_coding	KNOWN	CCDS8688	5329	270	89	21525818	21532912	1	None	AMYLIN, DAP, IAP
12	IAPP	ENSG00000121351	ENST00000542023	protein_coding	PUTATIVE	None	5329	240	79	21525853	21532912	1	None	AMYLIN, DAP, IAP
12	IAPP	ENSG00000121351	ENST00000537593	protein_coding	KNOWN	None	5329	239	78	21525862	21531329	1	None	AMYLIN, DAP, IAP
12	IAPP	ENSG00000121351	ENST00000535428	protein_coding	NOVEL	None	5329	257	84	21526341	21531563	1	None	AMYLIN, DAP, IAP
14	None	ENSG00000258729	ENST00000554299	protein_coding	NOVEL	None	None	384	127	96741383	96743060	-1	None	None
3	DRD3	ENSG00000151577	ENST00000460779	protein_coding	KNOWN	CCDS2978	3024	1203	400	113847499	113918254	-1	None	None
3	DRD3	ENSG00000151577	ENST00000467632	protein_coding	KNOWN	CCDS2978	3024	1203	400	113847557	113897545	-1	None	None
3	DRD3	ENSG00000151577	ENST00000383673	protein_coding	KNOWN	CCDS2978	3024	1203	400	113847557	113897899	-1	None	None
3	DRD3	ENSG00000151577	ENST00000295881	protein_coding	KNOWN	CCDS33829	3024	1104	367	113847557	113897899	-1	None	None
17	CYGB	ENSG00000161544	ENST00000293230	protein_coding	KNOWN	CCDS11746	16505	573	190	74523438	74533987	-1	None	HGB, STAP
17	CYGB	ENSG00000161544	ENST00000586160	processed_transcript	KNOWN	None	16505	None	None	74524139	74525075	-1	None	HGB, STAP
17	CYGB	ENSG00000161544	ENST00000589342	protein_coding	PUTATIVE	None	16505	681	226	74524364	74533734	-1	None	HGB, STAP
17	CYGB	ENSG00000161544	ENST00000590175	protein_coding	PUTATIVE	None	16505	378	125	74524450	74528147	-1	None	HGB, STAP
17	CYGB	ENSG00000161544	ENST00000589145	protein_coding	PUTATIVE	None	16505	378	125	74524616	74547257	-1	None	HGB, STAP
X	TEX28P2	ENSG00000102080	ENST00000369941	protein_coding	KNOWN	None	33357	1233	410	153424682	153445634	-1	None	pTEX, CXorf2B
9	None	ENSG00000212421	ENST00000391119	snoRNA	NOVEL	None	None	None	None	89875365	89875500	1	None	None
9	None	ENSG00000228373	ENST00000454946	processed_pseudogene	KNOWN	None	None	None	None	90038549	90038808	1	None	None
9	None	ENSG00000219928	ENST00000401543	processed_pseudogene	KNOWN	None	None	None	None	90140217	90140390	1	None	None
9	DAPK1-IT1	ENSG00000236709	ENST00000431813	sense_intronic	KNOWN	None	43591	None	None	90168369	90169374	1	None	None
1	KPNA6	ENSG00000025800	ENST00000373625	protein_coding	KNOWN	CCDS352	6399	1611	536	32573639	32642169	1	None	IPOA7, KPNA7, MGC17918, FLJ11249
1	KPNA6	ENSG00000025800	ENST00000471599	nonsense_mediated_decay	KNOWN	None	6399	561	186	32573659	32638774	1	None	IPOA7, KPNA7, MGC17918, FLJ11249
1	KPNA6	ENSG00000025800	ENST00000469790	processed_transcript	KNOWN	None	6399	None	None	32608524	32627995	1	None	IPOA7, KPNA7, MGC17918, FLJ11249
1	KPNA6	ENSG00000025800	ENST00000446515	protein_coding	KNOWN	None	6399	965	320	32622463	32632897	1	None	IPOA7, KPNA7, MGC17918, FLJ11249
1	KPNA6	ENSG00000025800	ENST00000545542	protein_coding	KNOWN	None	6399	1626	541	32608580	32636784	1	None	IPOA7, KPNA7, MGC17918, FLJ11249
1	KPNA6	ENSG00000025800	ENST00000537234	protein_coding	KNOWN	None	6399	1602	533	32573889	32636980	1	None	IPOA7, KPNA7, MGC17918, FLJ11249
9	None	ENSG00000237747	ENST00000425861	processed_pseudogene	KNOWN	None	None	None	None	90356148	90356868	1	None	None
9	None	ENSG00000222408	ENST00000410476	miRNA	NOVEL	None	None	None	None	90359816	90359908	-1	None	None
9	CTSL3P	ENSG00000188029	ENST00000412179	transcribed_unprocessed_pseudogene	KNOWN	None	33132	None	None	90387368	90389214	1	CTSL3	HCTSL-s
9	CTSL3P	ENSG00000188029	ENST00000354530	processed_transcript	KNOWN	None	33132	None	None	90387830	90401799	1	CTSL3	HCTSL-s
7	None	ENSG00000221262	ENST00000408335	miRNA	KNOWN	None	None	None	None	81919393	81919478	1	None	None
7	MTHFD2P5	ENSG00000213530	ENST00000320415	processed_pseudogene	KNOWN	None	48863	None	None	82219164	82220007	-1	None	None
7	None	ENSG00000228711	ENST00000434994	processed_pseudogene	KNOWN	None	None	None	None	82286351	82286727	1	None	None
7	RNA5SP235	ENSG00000202281	ENST00000365411	rRNA	KNOWN	None	43135	None	None	82647214	82647327	1	RN5S235	None
7	None	ENSG00000235503	ENST00000430696	antisense	KNOWN	None	None	None	None	82984470	82991582	1	None	None
HSCHR6_MHC_SSTO	FLOT1	ENSG00000230143	ENST00000444632	protein_coding	KNOWN	None	3757	1284	427	30686935	30701969	-1	None	None
HSCHR6_MHC_SSTO	FLOT1	ENSG00000230143	ENST00000463435	retained_intron	KNOWN	None	3757	None	None	30686935	30700089	-1	None	None
HSCHR6_MHC_SSTO	FLOT1	ENSG00000230143	ENST00000444497	protein_coding	KNOWN	None	3757	716	237	30690145	30701543	-1	None	None
HSCHR6_MHC_SSTO	FLOT1	ENSG00000230143	ENST00000479358	retained_intron	KNOWN	None	3757	None	None	30690217	30700029	-1	None	None
HSCHR6_MHC_SSTO	FLOT1	ENSG00000230143	ENST00000439376	protein_coding	KNOWN	None	3757	757	251	30690293	30701736	-1	None	None
HSCHR6_MHC_SSTO	FLOT1	ENSG00000230143	ENST00000466680	processed_transcript	KNOWN	None	3757	None	None	30699393	30701968	-1	None	None
HSCHR6_MHC_SSTO	FLOT1	ENSG00000230143	ENST00000427784	protein_coding	KNOWN	None	3757	435	144	30699396	30701593	-1	None	None
HSCHR6_MHC_SSTO	FLOT1	ENSG00000230143	ENST00000445383	protein_coding	KNOWN	None	3757	705	234	30699411	30701512	-1	None	None
HSCHR6_MHC_SSTO	FLOT1	ENSG00000230143	ENST00000459887	retained_intron	KNOWN	None	3757	None	None	30699489	30701942	-1	None	None
HSCHR6_MHC_SSTO	FLOT1	ENSG00000230143	ENST00000458306	protein_coding	KNOWN	None	3757	578	191	30699490	30701439	-1	None	None
HSCHR6_MHC_SSTO	FLOT1	ENSG00000230143	ENST00000424683	protein_coding	KNOWN	None	3757	557	184	30699744	30701760	-1	None	None
HSCHR6_MHC_SSTO	FLOT1	ENSG00000230143	ENST00000484899	retained_intron	KNOWN	None	3757	None	None	30700590	30701913	-1	None	None
7	None	ENSG00000230617	ENST00000420181	processed_pseudogene	KNOWN	None	None	None	None	83054196	83054318	1	None	None
7	PDAP1	ENSG00000106244	ENST00000496335	processed_transcript	KNOWN	None	14634	None	None	98989671	98995583	-1	None	PAP1, PAP, HASPP28
7	PDAP1	ENSG00000106244	ENST00000350498	protein_coding	KNOWN	CCDS5662	14634	546	181	98992586	99006452	-1	None	PAP1, PAP, HASPP28
7	PDAP1	ENSG00000106244	ENST00000426447	nonsense_mediated_decay	KNOWN	None	14634	120	39	98994146	99006213	-1	None	PAP1, PAP, HASPP28
7	PDAP1	ENSG00000106244	ENST00000488214	retained_intron	KNOWN	None	14634	None	None	99000940	99002565	-1	None	PAP1, PAP, HASPP28
7	RAD23BP2	ENSG00000230244	ENST00000416003	processed_pseudogene	KNOWN	None	44510	None	None	83292735	83293941	1	None	None
7	None	ENSG00000222994	ENST00000411062	miRNA	NOVEL	None	None	None	None	83548918	83549019	-1	None	None
7	None	ENSG00000227982	ENST00000420888	processed_pseudogene	KNOWN	None	None	None	None	84157438	84158146	-1	None	None
2	RPS27A	ENSG00000143947	ENST00000402285	protein_coding	KNOWN	CCDS33202	10417	471	156	55459039	55462724	1	None	UBCEP80, Uba80, S27A
2	RPS27A	ENSG00000143947	ENST00000272317	protein_coding	KNOWN	CCDS33202	10417	471	156	55459538	55462989	1	None	UBCEP80, Uba80, S27A
2	RPS27A	ENSG00000143947	ENST00000449323	protein_coding	KNOWN	None	10417	318	105	55459568	55462095	1	None	UBCEP80, Uba80, S27A
2	RPS27A	ENSG00000143947	ENST00000404735	protein_coding	KNOWN	CCDS33202	10417	471	156	55459814	55462891	1	None	UBCEP80, Uba80, S27A
2	RPS27A	ENSG00000143947	ENST00000463185	retained_intron	KNOWN	None	10417	None	None	55459817	55460505	1	None	UBCEP80, Uba80, S27A
2	RPS27A	ENSG00000143947	ENST00000471772	retained_intron	KNOWN	None	10417	None	None	55459824	55460969	1	None	UBCEP80, Uba80, S27A
2	RPS27A	ENSG00000143947	ENST00000478196	retained_intron	KNOWN	None	10417	None	None	55459825	55462320	1	None	UBCEP80, Uba80, S27A
2	RPS27A	ENSG00000143947	ENST00000494756	retained_intron	KNOWN	None	10417	None	None	55459830	55460854	1	None	UBCEP80, Uba80, S27A
2	RPS27A	ENSG00000143947	ENST00000495843	retained_intron	KNOWN	None	10417	None	None	55459931	55462745	1	None	UBCEP80, Uba80, S27A
2	RPS27A	ENSG00000143947	ENST00000468810	retained_intron	KNOWN	None	10417	None	None	55460493	55462059	1	None	UBCEP80, Uba80, S27A
7	None	ENSG00000235139	ENST00000450977	lincRNA	KNOWN	None	None	None	None	84161792	84204159	1	None	None
7	None	ENSG00000235139	ENST00000446000	lincRNA	KNOWN	None	None	None	None	84178522	84213638	1	None	None
14	HEATR5A	ENSG00000129493	ENST00000543095	protein_coding	NOVEL	None	20276	6141	2046	31760997	31889788	-1	C14orf125	DKFZP434I1735
14	HEATR5A	ENSG00000129493	ENST00000551414	retained_intron	KNOWN	None	20276	None	None	31761808	31766926	-1	C14orf125	DKFZP434I1735
14	HEATR5A	ENSG00000129493	ENST00000538864	protein_coding	NOVEL	None	20276	4799	1598	31762073	31856397	-1	C14orf125	DKFZP434I1735
14	HEATR5A	ENSG00000129493	ENST00000550366	protein_coding	NOVEL	None	20276	2687	894	31792798	31856489	-1	C14orf125	DKFZP434I1735
14	HEATR5A	ENSG00000129493	ENST00000550819	protein_coding	PUTATIVE	None	20276	373	123	31795082	31806800	-1	C14orf125	DKFZP434I1735
14	HEATR5A	ENSG00000129493	ENST00000549719	protein_coding	NOVEL	None	20276	598	198	31795401	31814406	-1	C14orf125	DKFZP434I1735
14	HEATR5A	ENSG00000129493	ENST00000552500	retained_intron	KNOWN	None	20276	None	None	31840763	31844157	-1	C14orf125	DKFZP434I1735
14	HEATR5A	ENSG00000129493	ENST00000382464	protein_coding	PUTATIVE	None	20276	342	113	31869472	31889737	-1	C14orf125	DKFZP434I1735
14	HEATR5A	ENSG00000129493	ENST00000549184	protein_coding	NOVEL	None	20276	262	86	31869583	31889501	-1	C14orf125	DKFZP434I1735
14	HEATR5A	ENSG00000129493	ENST00000389961	protein_coding	KNOWN	None	20276	6123	2040	31760994	31872181	-1	C14orf125	DKFZP434I1735
14	HEATR5A	ENSG00000129493	ENST00000439348	protein_coding	KNOWN	None	20276	5898	1965	31760994	31872181	-1	C14orf125	DKFZP434I1735
14	HEATR5A	ENSG00000129493	ENST00000439727	protein_coding	KNOWN	None	20276	5262	1753	31760994	31858181	-1	C14orf125	DKFZP434I1735
14	HEATR5A	ENSG00000129493	ENST00000404677	protein_coding	KNOWN	None	20276	3423	1140	31803607	31872181	-1	C14orf125	DKFZP434I1735
1	CTTNBP2NL	ENSG00000143079	ENST00000271277	protein_coding	KNOWN	CCDS845	25330	1920	639	112938803	113003786	1	None	DKFZp547A023
1	CTTNBP2NL	ENSG00000143079	ENST00000441739	protein_coding	PUTATIVE	None	25330	814	270	112939141	112998928	1	None	DKFZp547A023
1	CTTNBP2NL	ENSG00000143079	ENST00000607039	processed_transcript	KNOWN	None	25330	None	None	112999440	113006078	1	None	DKFZp547A023
7	None	ENSG00000265050	ENST00000585016	miRNA	NOVEL	None	None	None	None	84295240	84295324	-1	None	None
11	CKAP5	ENSG00000175216	ENST00000529230	protein_coding	KNOWN	CCDS31477	28959	6099	2032	46764598	46867780	-1	None	ch-TOG, KIAA0097, TOG, TOGp
11	CKAP5	ENSG00000175216	ENST00000354558	protein_coding	KNOWN	CCDS7924	28959	5919	1972	46765090	46842808	-1	None	ch-TOG, KIAA0097, TOG, TOGp
11	CKAP5	ENSG00000175216	ENST00000533413	retained_intron	KNOWN	None	28959	None	None	46765567	46791813	-1	None	ch-TOG, KIAA0097, TOG, TOGp
11	CKAP5	ENSG00000175216	ENST00000525896	protein_coding	PUTATIVE	None	28959	610	202	46765715	46772932	-1	None	ch-TOG, KIAA0097, TOG, TOGp
11	CKAP5	ENSG00000175216	ENST00000527333	protein_coding	NOVEL	None	28959	498	165	46775004	46782200	-1	None	ch-TOG, KIAA0097, TOG, TOGp
11	CKAP5	ENSG00000175216	ENST00000526876	protein_coding	NOVEL	None	28959	570	189	46775039	46782223	-1	None	ch-TOG, KIAA0097, TOG, TOGp
11	CKAP5	ENSG00000175216	ENST00000526943	retained_intron	KNOWN	None	28959	None	None	46784696	46791813	-1	None	ch-TOG, KIAA0097, TOG, TOGp
11	CKAP5	ENSG00000175216	ENST00000528593	retained_intron	KNOWN	None	28959	None	None	46804740	46806224	-1	None	ch-TOG, KIAA0097, TOG, TOGp
11	CKAP5	ENSG00000175216	ENST00000532321	processed_transcript	KNOWN	None	28959	None	None	46819394	46823868	-1	None	ch-TOG, KIAA0097, TOG, TOGp
11	CKAP5	ENSG00000175216	ENST00000526496	protein_coding	KNOWN	None	28959	453	150	46837754	46848404	-1	None	ch-TOG, KIAA0097, TOG, TOGp
11	CKAP5	ENSG00000175216	ENST00000525248	retained_intron	KNOWN	None	28959	None	None	46842179	46867847	-1	None	ch-TOG, KIAA0097, TOG, TOGp
11	CKAP5	ENSG00000175216	ENST00000415402	protein_coding	KNOWN	None	28959	6120	2039	46765086	46867843	-1	None	ch-TOG, KIAA0097, TOG, TOGp
11	CKAP5	ENSG00000175216	ENST00000312055	protein_coding	KNOWN	CCDS7924	28959	5919	1972	46765086	46867843	-1	None	ch-TOG, KIAA0097, TOG, TOGp
7	None	ENSG00000235243	ENST00000435923	processed_pseudogene	KNOWN	None	None	None	None	84477193	84477569	-1	None	None
13	SLAIN1	ENSG00000139737	ENST00000422114	protein_coding	NOVEL	None	26387	334	110	78272023	78320789	1	C13orf32	FLJ30046
13	SLAIN1	ENSG00000139737	ENST00000466548	protein_coding	KNOWN	None	26387	1707	568	78272023	78338259	1	C13orf32	FLJ30046
13	SLAIN1	ENSG00000139737	ENST00000446759	protein_coding	NOVEL	None	26387	685	227	78272558	78320990	1	C13orf32	FLJ30046
13	SLAIN1	ENSG00000139737	ENST00000442759	protein_coding	NOVEL	None	26387	615	204	78272558	78327417	1	C13orf32	FLJ30046
13	SLAIN1	ENSG00000139737	ENST00000488699	protein_coding	KNOWN	CCDS31995	26387	1281	426	78273016	78337492	1	C13orf32	FLJ30046
13	SLAIN1	ENSG00000139737	ENST00000377236	protein_coding	PUTATIVE	None	26387	238	78	78273017	78318507	1	C13orf32	FLJ30046
13	SLAIN1	ENSG00000139737	ENST00000267219	protein_coding	NOVEL	None	26387	1050	349	78293733	78338364	1	C13orf32	FLJ30046
13	SLAIN1	ENSG00000139737	ENST00000465831	processed_transcript	KNOWN	None	26387	None	None	78315335	78320942	1	C13orf32	FLJ30046
13	SLAIN1	ENSG00000139737	ENST00000441784	protein_coding	KNOWN	None	26387	722	239	78315354	78335125	1	C13orf32	FLJ30046
13	SLAIN1	ENSG00000139737	ENST00000462234	protein_coding	KNOWN	None	26387	298	98	78315491	78320885	1	C13orf32	FLJ30046
13	SLAIN1	ENSG00000139737	ENST00000496045	protein_coding	KNOWN	None	26387	406	134	78315673	78320993	1	C13orf32	FLJ30046
13	SLAIN1	ENSG00000139737	ENST00000474663	protein_coding	KNOWN	None	26387	442	146	78316884	78327376	1	C13orf32	FLJ30046
13	SLAIN1	ENSG00000139737	ENST00000481614	protein_coding	KNOWN	None	26387	36	11	78317192	78318542	1	C13orf32	FLJ30046
13	SLAIN1	ENSG00000139737	ENST00000358679	protein_coding	KNOWN	CCDS9460	26387	918	305	78317240	78338362	1	C13orf32	FLJ30046
13	SLAIN1	ENSG00000139737	ENST00000418532	protein_coding	KNOWN	None	26387	1050	349	78272470	78338377	1	C13orf32	FLJ30046
13	SLAIN1	ENSG00000139737	ENST00000351546	protein_coding	KNOWN	CCDS9460	26387	918	305	78315295	78338377	1	C13orf32	FLJ30046
13	SLAIN1	ENSG00000139737	ENST00000314070	protein_coding	KNOWN	CCDS55901	26387	576	191	78315472	78337923	1	C13orf32	FLJ30046
7	HMGN2P11	ENSG00000232605	ENST00000446054	processed_pseudogene	KNOWN	None	4990	None	None	84505870	84506272	1	HMG17P1, HMGN2L11	28H
7	HMGN2P11	ENSG00000232605	ENST00000416443	processed_pseudogene	KNOWN	None	4990	None	None	84505977	84506234	1	HMG17P1, HMGN2L11	28H
14	ATG2B	ENSG00000066739	ENST00000359933	protein_coding	KNOWN	CCDS9944	20187	6237	2078	96747595	96830207	-1	C14orf103	FLJ10242
14	ATG2B	ENSG00000066739	ENST00000555263	retained_intron	KNOWN	None	20187	None	None	96755793	96756914	-1	C14orf103	FLJ10242
14	ATG2B	ENSG00000066739	ENST00000261834	processed_transcript	KNOWN	None	20187	None	None	96756473	96777600	-1	C14orf103	FLJ10242
14	ATG2B	ENSG00000066739	ENST00000553643	retained_intron	KNOWN	None	20187	None	None	96756907	96758275	-1	C14orf103	FLJ10242
14	ATG2B	ENSG00000066739	ENST00000554151	processed_transcript	PUTATIVE	None	20187	None	None	96759319	96761396	-1	C14orf103	FLJ10242
14	ATG2B	ENSG00000066739	ENST00000473234	processed_transcript	KNOWN	None	20187	None	None	96783485	96790515	-1	C14orf103	FLJ10242
14	ATG2B	ENSG00000066739	ENST00000488421	processed_transcript	KNOWN	None	20187	None	None	96784060	96788772	-1	C14orf103	FLJ10242
7	None	ENSG00000232019	ENST00000439105	lincRNA	KNOWN	None	None	None	None	84568665	84569561	-1	None	None
15	HEXA	ENSG00000213614	ENST00000268097	protein_coding	KNOWN	CCDS10243	4878	1590	529	72635775	72668817	-1	None	None
15	HEXA	ENSG00000213614	ENST00000565873	retained_intron	KNOWN	None	4878	None	None	72636198	72638223	-1	None	None
15	HEXA	ENSG00000213614	ENST00000564677	retained_intron	KNOWN	None	4878	None	None	72636228	72638230	-1	None	None
15	HEXA	ENSG00000213614	ENST00000567411	nonsense_mediated_decay	KNOWN	None	4878	432	143	72636249	72668344	-1	None	None
15	HEXA	ENSG00000213614	ENST00000566304	protein_coding	NOVEL	None	4878	1623	540	72636267	72668334	-1	None	None
15	HEXA	ENSG00000213614	ENST00000569116	retained_intron	KNOWN	None	4878	None	None	72637571	72638145	-1	None	None
15	HEXA	ENSG00000213614	ENST00000567027	nonsense_mediated_decay	KNOWN	None	4878	955	317	72637575	72668185	-1	None	None
15	HEXA	ENSG00000213614	ENST00000568777	retained_intron	KNOWN	None	4878	None	None	72637624	72652794	-1	None	None
15	HEXA	ENSG00000213614	ENST00000567159	protein_coding	NOVEL	None	4878	1530	509	72637752	72668334	-1	None	None
15	HEXA	ENSG00000213614	ENST00000563762	nonsense_mediated_decay	KNOWN	None	4878	267	88	72638318	72668313	-1	None	None
15	HEXA	ENSG00000213614	ENST00000566672	nonsense_mediated_decay	KNOWN	None	4878	432	143	72638473	72668344	-1	None	None
15	HEXA	ENSG00000213614	ENST00000569410	nonsense_mediated_decay	KNOWN	None	4878	1122	373	72638576	72668316	-1	None	None
15	HEXA	ENSG00000213614	ENST00000569509	processed_transcript	KNOWN	None	4878	None	None	72642921	72668761	-1	None	None
15	HEXA	ENSG00000213614	ENST00000568260	nonsense_mediated_decay	KNOWN	None	4878	386	127	72643473	72668294	-1	None	None
15	HEXA	ENSG00000213614	ENST00000563908	retained_intron	KNOWN	None	4878	None	None	72647785	72668310	-1	None	None
15	HEXA	ENSG00000213614	ENST00000567213	processed_transcript	PUTATIVE	None	4878	None	None	72662691	72668330	-1	None	None
15	HEXA	ENSG00000213614	ENST00000429918	protein_coding	KNOWN	None	4878	906	301	72638473	72668344	-1	None	None
15	HEXA	ENSG00000213614	ENST00000457859	protein_coding	KNOWN	None	4878	507	168	72637545	72668185	-1	None	None
7	HNRNPA1P8	ENSG00000229251	ENST00000436090	processed_pseudogene	KNOWN	None	39126	None	None	84612872	84613822	1	None	None
7	HNRNPA1P8	ENSG00000229251	ENST00000446441	processed_pseudogene	KNOWN	None	39126	None	None	84612863	84613825	1	None	None
16	CDH5	ENSG00000179776	ENST00000341529	protein_coding	KNOWN	CCDS10804	1764	2355	784	66400533	66438686	1	None	7B4, CD144
16	CDH5	ENSG00000179776	ENST00000565334	nonsense_mediated_decay	KNOWN	None	1764	333	110	66400593	66437311	1	None	7B4, CD144
16	CDH5	ENSG00000179776	ENST00000562048	protein_coding	KNOWN	None	1764	394	130	66410244	66420895	1	None	7B4, CD144
16	CDH5	ENSG00000179776	ENST00000568155	protein_coding	KNOWN	None	1764	229	75	66410293	66420730	1	None	7B4, CD144
16	CDH5	ENSG00000179776	ENST00000568023	protein_coding	KNOWN	None	1764	52	16	66411112	66413292	1	None	7B4, CD144
16	CDH5	ENSG00000179776	ENST00000563425	protein_coding	NOVEL	None	1764	1221	406	66413128	66426888	1	None	7B4, CD144
16	CDH5	ENSG00000179776	ENST00000539168	protein_coding	NOVEL	None	1764	672	223	66429358	66437238	1	None	7B4, CD144
7	NPSR1-AS1	ENSG00000197085	ENST00000419766	processed_transcript	KNOWN	None	22128	None	None	34386124	34800803	-1	None	AAA1, IMAGE:4827585
7	NPSR1-AS1	ENSG00000197085	ENST00000439852	processed_transcript	KNOWN	None	22128	None	None	34606335	34797884	-1	None	AAA1, IMAGE:4827585
7	NPSR1-AS1	ENSG00000197085	ENST00000358772	processed_transcript	KNOWN	None	22128	None	None	34607864	34797884	-1	None	AAA1, IMAGE:4827585
7	NPSR1-AS1	ENSG00000197085	ENST00000431669	processed_transcript	KNOWN	None	22128	None	None	34682839	34911194	-1	None	AAA1, IMAGE:4827585
7	NPSR1-AS1	ENSG00000197085	ENST00000428922	retained_intron	KNOWN	None	22128	None	None	34743462	34800803	-1	None	AAA1, IMAGE:4827585
7	NPSR1-AS1	ENSG00000197085	ENST00000436945	processed_transcript	KNOWN	None	22128	None	None	34758474	34873940	-1	None	AAA1, IMAGE:4827585
7	NPSR1-AS1	ENSG00000197085	ENST00000539747	processed_transcript	KNOWN	None	22128	None	None	34390034	34911194	-1	None	AAA1, IMAGE:4827585
7	NPSR1-AS1	ENSG00000197085	ENST00000537560	processed_transcript	KNOWN	None	22128	None	None	34390034	34797884	-1	None	AAA1, IMAGE:4827585
7	NPSR1-AS1	ENSG00000197085	ENST00000535640	processed_transcript	KNOWN	None	22128	None	None	34656519	34911194	-1	None	AAA1, IMAGE:4827585
7	NPSR1-AS1	ENSG00000197085	ENST00000544556	processed_transcript	KNOWN	None	22128	None	None	34656519	34797884	-1	None	AAA1, IMAGE:4827585
7	NPSR1-AS1	ENSG00000197085	ENST00000442669	processed_transcript	KNOWN	None	22128	None	None	34758474	34873941	-1	None	AAA1, IMAGE:4827585
12	KRT86	ENSG00000170442	ENST00000553310	protein_coding	KNOWN	None	6463	429	142	52643084	52696943	1	KRTHB6	MNX, Hb6
12	KRT86	ENSG00000170442	ENST00000423955	protein_coding	KNOWN	CCDS41785	6463	1461	486	52668459	52702598	1	KRTHB6	MNX, Hb6
12	KRT86	ENSG00000170442	ENST00000544024	protein_coding	KNOWN	CCDS41785	6463	1461	486	52643084	52702667	1	KRTHB6	MNX, Hb6
12	KRT86	ENSG00000170442	ENST00000293525	protein_coding	KNOWN	CCDS41785	6463	1461	486	52695649	52702947	1	KRTHB6	MNX, Hb6
12	C12orf56	ENSG00000185306	ENST00000543942	protein_coding	PUTATIVE	None	26967	1869	622	64660217	64784972	-1	None	None
12	C12orf56	ENSG00000185306	ENST00000535515	processed_transcript	PUTATIVE	None	26967	None	None	64660763	64664353	-1	None	None
12	C12orf56	ENSG00000185306	ENST00000542397	processed_transcript	KNOWN	None	26967	None	None	64660763	64687163	-1	None	None
12	C12orf56	ENSG00000185306	ENST00000536975	processed_transcript	KNOWN	None	26967	None	None	64660763	64687163	-1	None	None
12	C12orf56	ENSG00000185306	ENST00000333722	protein_coding	KNOWN	CCDS44935	26967	1389	462	64660766	64784471	-1	None	None
12	C12orf56	ENSG00000185306	ENST00000541802	retained_intron	KNOWN	None	26967	None	None	64664465	64679857	-1	None	None
12	C12orf56	ENSG00000185306	ENST00000543259	protein_coding	NOVEL	None	26967	553	183	64697530	64784306	-1	None	None
1	FAM5C	ENSG00000162670	ENST00000484105	processed_transcript	KNOWN	None	22393	None	None	190066792	190443883	-1	FAM5C	DBCCR1L, DBCCR1L1
1	FAM5C	ENSG00000162670	ENST00000367462	protein_coding	KNOWN	CCDS1373	22393	2301	766	190066792	190446759	-1	FAM5C	DBCCR1L, DBCCR1L1
1	FAM5C	ENSG00000162670	ENST00000463404	processed_transcript	KNOWN	None	22393	None	None	190186082	190195326	-1	FAM5C	DBCCR1L, DBCCR1L1
1	FAM5C	ENSG00000162670	ENST00000445957	protein_coding	KNOWN	None	22393	276	91	190250690	190443931	-1	FAM5C	DBCCR1L, DBCCR1L1
1	FAM5C	ENSG00000162670	ENST00000534846	protein_coding	KNOWN	None	22393	1995	664	190066797	190444942	-1	FAM5C	DBCCR1L, DBCCR1L1
10	RN7SKP196	ENSG00000252076	ENST00000516267	misc_RNA	KNOWN	None	45920	None	None	60628944	60629288	1	None	None
10	LINC00844	ENSG00000237949	ENST00000432535	lincRNA	KNOWN	None	45031	None	None	60759386	60761303	1	None	None
10	MKI67	ENSG00000148773	ENST00000368653	protein_coding	KNOWN	CCDS53588	7107	8691	2896	129894923	129924468	-1	None	None
10	MKI67	ENSG00000148773	ENST00000368654	protein_coding	KNOWN	CCDS7659	7107	9771	3256	129894923	129924649	-1	None	None
10	MKI67	ENSG00000148773	ENST00000464771	processed_transcript	KNOWN	None	7107	None	None	129899748	129901392	-1	None	None
10	MKI67	ENSG00000148773	ENST00000484853	processed_transcript	KNOWN	None	7107	None	None	129909784	129910713	-1	None	None
10	MKI67	ENSG00000148773	ENST00000478293	processed_transcript	KNOWN	None	7107	None	None	129913774	129924499	-1	None	None
16	CCP110	ENSG00000103540	ENST00000396212	protein_coding	KNOWN	CCDS10579	24342	2976	991	19535133	19564730	1	None	KIAA0419, CP110
16	CCP110	ENSG00000103540	ENST00000381396	protein_coding	KNOWN	CCDS55992	24342	3039	1012	19535179	19564730	1	None	KIAA0419, CP110
16	CCP110	ENSG00000103540	ENST00000569190	retained_intron	KNOWN	None	24342	None	None	19535201	19538491	1	None	KIAA0419, CP110
16	CCP110	ENSG00000103540	ENST00000565376	protein_coding	KNOWN	None	24342	150	49	19535261	19539353	1	None	KIAA0419, CP110
16	CCP110	ENSG00000103540	ENST00000573412	processed_transcript	KNOWN	None	24342	None	None	19535264	19537121	1	None	KIAA0419, CP110
16	CCP110	ENSG00000103540	ENST00000562083	nonsense_mediated_decay	KNOWN	None	24342	159	52	19535283	19553388	1	None	KIAA0419, CP110
16	CCP110	ENSG00000103540	ENST00000561888	protein_coding	PUTATIVE	None	24342	360	119	19539243	19547519	1	None	KIAA0419, CP110
16	CCP110	ENSG00000103540	ENST00000566523	retained_intron	KNOWN	None	24342	None	None	19556464	19557887	1	None	KIAA0419, CP110
16	CCP110	ENSG00000103540	ENST00000562616	retained_intron	KNOWN	None	24342	None	None	19558171	19562944	1	None	KIAA0419, CP110
16	CCP110	ENSG00000103540	ENST00000567451	retained_intron	KNOWN	None	24342	None	None	19559054	19562799	1	None	KIAA0419, CP110
16	CCP110	ENSG00000103540	ENST00000396208	protein_coding	KNOWN	CCDS10579	24342	2976	991	19535279	19564722	1	None	KIAA0419, CP110
10	None	ENSG00000226888	ENST00000413972	processed_pseudogene	KNOWN	None	None	None	None	60848461	60848799	-1	None	None
12	TMEM132D	ENSG00000151952	ENST00000389441	protein_coding	KNOWN	None	29411	1914	637	129556270	129570545	-1	None	KIAA1944, MOLT
12	TMEM132D	ENSG00000151952	ENST00000422113	protein_coding	KNOWN	CCDS9266	29411	3300	1099	129556271	130388211	-1	None	KIAA1944, MOLT
1	WNT2B	ENSG00000134245	ENST00000256640	protein_coding	KNOWN	None	12781	900	299	113009163	113063905	1	WNT13	XWNT2
1	WNT2B	ENSG00000134245	ENST00000369686	protein_coding	KNOWN	CCDS846	12781	1119	372	113010056	113063905	1	WNT13	XWNT2
1	WNT2B	ENSG00000134245	ENST00000369684	protein_coding	KNOWN	CCDS847	12781	1176	391	113051400	113065288	1	WNT13	XWNT2
1	WNT2B	ENSG00000134245	ENST00000478360	processed_transcript	KNOWN	None	12781	None	None	113057374	113059039	1	WNT13	XWNT2
16	KIFC3	ENSG00000140859	ENST00000465878	protein_coding	KNOWN	CCDS45494	6326	2064	687	57792129	57831676	-1	None	None
16	KIFC3	ENSG00000140859	ENST00000379655	protein_coding	KNOWN	CCDS10789	6326	2502	833	57792129	57836500	-1	None	None
16	KIFC3	ENSG00000140859	ENST00000445690	protein_coding	KNOWN	CCDS45493	6326	2481	826	57792131	57836425	-1	None	None
16	KIFC3	ENSG00000140859	ENST00000565397	protein_coding	PUTATIVE	None	6326	589	195	57792232	57794857	-1	None	None
16	KIFC3	ENSG00000140859	ENST00000421376	protein_coding	KNOWN	CCDS45494	6326	2064	687	57792340	57831929	-1	None	None
16	KIFC3	ENSG00000140859	ENST00000541240	protein_coding	PUTATIVE	None	6326	2547	848	57792357	57836935	-1	None	None
16	KIFC3	ENSG00000140859	ENST00000540079	protein_coding	PUTATIVE	None	6326	2175	724	57792371	57809031	-1	None	None
16	KIFC3	ENSG00000140859	ENST00000543930	protein_coding	NOVEL	None	6326	2055	684	57792444	57816209	-1	None	None
16	KIFC3	ENSG00000140859	ENST00000562903	protein_coding	KNOWN	CCDS45494	6326	2064	687	57792632	57816221	-1	None	None
16	KIFC3	ENSG00000140859	ENST00000564136	nonsense_mediated_decay	KNOWN	None	6326	1497	498	57792650	57816225	-1	None	None
16	KIFC3	ENSG00000140859	ENST00000565753	retained_intron	KNOWN	None	6326	None	None	57793350	57795173	-1	None	None
16	KIFC3	ENSG00000140859	ENST00000565270	protein_coding	PUTATIVE	None	6326	840	279	57793665	57798301	-1	None	None
16	KIFC3	ENSG00000140859	ENST00000563266	processed_transcript	KNOWN	None	6326	None	None	57796107	57799757	-1	None	None
16	KIFC3	ENSG00000140859	ENST00000565481	protein_coding	PUTATIVE	None	6326	442	146	57804519	57836846	-1	None	None
16	KIFC3	ENSG00000140859	ENST00000562503	protein_coding	PUTATIVE	None	6326	503	166	57805198	57832012	-1	None	None
16	KIFC3	ENSG00000140859	ENST00000569222	protein_coding	PUTATIVE	None	6326	312	103	57805236	57809031	-1	None	None
16	KIFC3	ENSG00000140859	ENST00000562311	protein_coding	PUTATIVE	None	6326	210	69	57805248	57836406	-1	None	None
16	KIFC3	ENSG00000140859	ENST00000569112	protein_coding	PUTATIVE	None	6326	181	59	57805277	57836361	-1	None	None
16	KIFC3	ENSG00000140859	ENST00000562984	protein_coding	PUTATIVE	None	6326	178	58	57805280	57837165	-1	None	None
16	KIFC3	ENSG00000140859	ENST00000567204	processed_transcript	KNOWN	None	6326	None	None	57805472	57837207	-1	None	None
16	KIFC3	ENSG00000140859	ENST00000566648	protein_coding	PUTATIVE	None	6326	572	189	57805492	57837334	-1	None	None
16	KIFC3	ENSG00000140859	ENST00000561524	protein_coding	PUTATIVE	None	6326	264	87	57805542	57831724	-1	None	None
16	KIFC3	ENSG00000140859	ENST00000565351	protein_coding	KNOWN	None	6326	15	4	57805548	57813452	-1	None	None
16	KIFC3	ENSG00000140859	ENST00000569619	protein_coding	PUTATIVE	None	6326	15	4	57805548	57816241	-1	None	None
16	KIFC3	ENSG00000140859	ENST00000566975	processed_transcript	KNOWN	None	6326	None	None	57805573	57831824	-1	None	None
16	KIFC3	ENSG00000140859	ENST00000565684	protein_coding	KNOWN	None	6326	397	131	57805583	57880439	-1	None	None
16	KIFC3	ENSG00000140859	ENST00000564204	retained_intron	KNOWN	None	6326	None	None	57807720	57808988	-1	None	None
16	KIFC3	ENSG00000140859	ENST00000567479	processed_transcript	PUTATIVE	None	6326	None	None	57810534	57816215	-1	None	None
16	KIFC3	ENSG00000140859	ENST00000563295	processed_transcript	PUTATIVE	None	6326	None	None	57813802	57816281	-1	None	None
16	KIFC3	ENSG00000140859	ENST00000566914	retained_intron	KNOWN	None	6326	None	None	57819310	57836382	-1	None	None
16	KIFC3	ENSG00000140859	ENST00000567059	protein_coding	PUTATIVE	None	6326	497	164	57822510	57836936	-1	None	None
16	KIFC3	ENSG00000140859	ENST00000563028	protein_coding	PUTATIVE	None	6326	464	153	57828909	57896957	-1	None	None
16	KIFC3	ENSG00000140859	ENST00000564891	protein_coding	KNOWN	None	6326	315	104	57828911	57837165	-1	None	None
16	KIFC3	ENSG00000140859	ENST00000565871	processed_transcript	PUTATIVE	None	6326	None	None	57828975	57837159	-1	None	None
16	KIFC3	ENSG00000140859	ENST00000539578	protein_coding	KNOWN	None	6326	2307	768	57792737	57831724	-1	None	None
1	TXLNA	ENSG00000084652	ENST00000373610	protein_coding	KNOWN	CCDS353	30685	1641	546	32645287	32663886	1	None	DKFZp451J0118
1	TXLNA	ENSG00000084652	ENST00000373609	protein_coding	KNOWN	CCDS353	30685	1641	546	32645666	32663886	1	None	DKFZp451J0118
17	PRCD	ENSG00000214140	ENST00000592432	processed_transcript	KNOWN	None	32528	None	None	74523668	74549660	1	None	RP36
17	PRCD	ENSG00000214140	ENST00000397633	processed_transcript	KNOWN	None	32528	None	None	74523871	74541458	1	None	RP36
17	PRCD	ENSG00000214140	ENST00000590555	processed_transcript	KNOWN	None	32528	None	None	74534146	74539189	1	None	RP36
17	PRCD	ENSG00000214140	ENST00000465808	processed_transcript	KNOWN	None	32528	None	None	74534498	74540452	1	None	RP36
17	PRCD	ENSG00000214140	ENST00000592014	protein_coding	KNOWN	CCDS42382	32528	165	54	74536115	74539920	1	None	RP36
17	PRCD	ENSG00000214140	ENST00000586148	protein_coding	KNOWN	CCDS42382	32528	165	54	74536172	74539469	1	None	RP36
17	PRCD	ENSG00000214140	ENST00000397630	retained_intron	KNOWN	None	32528	None	None	74536553	74541427	1	None	RP36
17	PRCD	ENSG00000214140	ENST00000587813	processed_transcript	KNOWN	None	32528	None	None	74536618	74549656	1	None	RP36
17	PRCD	ENSG00000214140	ENST00000592340	processed_transcript	KNOWN	None	32528	None	None	74536631	74549276	1	None	RP36
17	PRCD	ENSG00000214140	ENST00000587289	processed_transcript	KNOWN	None	32528	None	None	74536631	74549419	1	None	RP36
17	PRCD	ENSG00000214140	ENST00000591317	processed_transcript	KNOWN	None	32528	None	None	74539925	74549660	1	None	RP36
17	PRCD	ENSG00000214140	ENST00000593023	processed_transcript	KNOWN	None	32528	None	None	74542146	74549660	1	None	RP36
17	PRCD	ENSG00000214140	ENST00000587063	processed_transcript	KNOWN	None	32528	None	None	74543372	74549660	1	None	RP36
3	ABCF3	ENSG00000161204	ENST00000429586	protein_coding	KNOWN	CCDS3254	72	2130	709	183903811	183911795	1	None	EST201864
3	ABCF3	ENSG00000161204	ENST00000421340	nonsense_mediated_decay	KNOWN	None	72	312	103	183903883	183905746	1	None	EST201864
3	ABCF3	ENSG00000161204	ENST00000485921	retained_intron	KNOWN	None	72	None	None	183903892	183905071	1	None	EST201864
3	ABCF3	ENSG00000161204	ENST00000463685	retained_intron	KNOWN	None	72	None	None	183903948	183904834	1	None	EST201864
3	ABCF3	ENSG00000161204	ENST00000478288	retained_intron	KNOWN	None	72	None	None	183903949	183905689	1	None	EST201864
3	ABCF3	ENSG00000161204	ENST00000292808	protein_coding	KNOWN	None	72	2112	703	183903962	183911793	1	None	EST201864
3	ABCF3	ENSG00000161204	ENST00000473311	retained_intron	KNOWN	None	72	None	None	183903964	183911800	1	None	EST201864
3	ABCF3	ENSG00000161204	ENST00000481116	retained_intron	KNOWN	None	72	None	None	183903979	183905401	1	None	EST201864
3	ABCF3	ENSG00000161204	ENST00000498136	retained_intron	KNOWN	None	72	None	None	183903984	183906615	1	None	EST201864
3	ABCF3	ENSG00000161204	ENST00000466416	retained_intron	KNOWN	None	72	None	None	183903987	183905446	1	None	EST201864
3	ABCF3	ENSG00000161204	ENST00000471226	retained_intron	KNOWN	None	72	None	None	183906102	183907513	1	None	EST201864
3	ABCF3	ENSG00000161204	ENST00000472608	retained_intron	KNOWN	None	72	None	None	183906122	183907747	1	None	EST201864
3	ABCF3	ENSG00000161204	ENST00000475728	retained_intron	KNOWN	None	72	None	None	183906578	183907489	1	None	EST201864
3	ABCF3	ENSG00000161204	ENST00000489719	retained_intron	KNOWN	None	72	None	None	183906597	183907668	1	None	EST201864
3	ABCF3	ENSG00000161204	ENST00000468892	retained_intron	KNOWN	None	72	None	None	183907421	183911790	1	None	EST201864
3	ABCF3	ENSG00000161204	ENST00000466742	retained_intron	KNOWN	None	72	None	None	183907618	183911794	1	None	EST201864
3	ABCF3	ENSG00000161204	ENST00000480562	retained_intron	KNOWN	None	72	None	None	183908652	183911794	1	None	EST201864
3	ABCF3	ENSG00000161204	ENST00000480539	retained_intron	KNOWN	None	72	None	None	183910938	183911557	1	None	EST201864
7	HSPA8P16	ENSG00000224059	ENST00000454171	processed_pseudogene	KNOWN	None	44931	None	None	84657144	84659008	1	None	None
1	RGS18	ENSG00000150681	ENST00000367460	protein_coding	KNOWN	CCDS1374	14261	708	235	192127587	192154945	1	None	RGS13
1	RGS18	ENSG00000150681	ENST00000481707	processed_transcript	KNOWN	None	14261	None	None	192127615	192132786	1	None	RGS13
1	RGS18	ENSG00000150681	ENST00000492967	processed_transcript	KNOWN	None	14261	None	None	192127644	192150584	1	None	RGS13
1	RGS18	ENSG00000150681	ENST00000491030	processed_transcript	KNOWN	None	14261	None	None	192127806	192129813	1	None	RGS13
7	None	ENSG00000230614	ENST00000429273	processed_pseudogene	KNOWN	None	None	None	None	85010434	85010691	-1	None	None
18	MBD2	ENSG00000134046	ENST00000256429	protein_coding	KNOWN	CCDS11953	6917	1236	411	51679079	51751158	-1	None	None
18	MBD2	ENSG00000134046	ENST00000579025	processed_transcript	KNOWN	None	6917	None	None	51681624	51686483	-1	None	None
18	MBD2	ENSG00000134046	ENST00000578272	nonsense_mediated_decay	KNOWN	None	6917	219	72	51686128	51731391	-1	None	None
18	MBD2	ENSG00000134046	ENST00000398398	protein_coding	NOVEL	None	6917	726	241	51729050	51751017	-1	None	None
18	MBD2	ENSG00000134046	ENST00000583046	protein_coding	KNOWN	CCDS45871	6917	909	302	51729051	51750987	-1	None	None
HSCHR6_MHC_MANN	HLA-DPB1	ENSG00000229295	ENST00000415996	protein_coding	KNOWN	None	4940	777	258	33197846	33209127	1	HLA-DP1B	None
HSCHR6_MHC_MANN	HLA-DPB1	ENSG00000229295	ENST00000447783	protein_coding	KNOWN	None	4940	687	228	33197892	33209127	1	HLA-DP1B	None
HSCHR6_MHC_MANN	HLA-DPB1	ENSG00000229295	ENST00000483210	retained_intron	KNOWN	None	4940	None	None	33197930	33203158	1	HLA-DP1B	None
HSCHR6_MHC_MANN	HLA-DPB1	ENSG00000229295	ENST00000491972	processed_transcript	KNOWN	None	4940	None	None	33202312	33205938	1	HLA-DP1B	None
HSCHR6_MHC_MANN	HLA-DPB1	ENSG00000229295	ENST00000487157	processed_transcript	KNOWN	None	4940	None	None	33202312	33206883	1	HLA-DP1B	None
HSCHR6_MHC_MANN	HLA-DPB1	ENSG00000229295	ENST00000471485	processed_transcript	KNOWN	None	4940	None	None	33202369	33207157	1	HLA-DP1B	None
HSCHR6_MHC_MANN	HLA-DPB1	ENSG00000229295	ENST00000415438	protein_coding	KNOWN	None	4940	688	228	33202413	33207815	1	HLA-DP1B	None
HSCHR6_MHC_MANN	HLA-DPB1	ENSG00000229295	ENST00000445925	protein_coding	KNOWN	None	4940	707	234	33202598	33209127	1	HLA-DP1B	None
HSCHR6_MHC_MANN	HLA-DPB1	ENSG00000229295	ENST00000484273	processed_transcript	KNOWN	None	4940	None	None	33202867	33205816	1	HLA-DP1B	None
HSCHR6_MHC_MANN	HLA-DPB1	ENSG00000229295	ENST00000548074	protein_coding	KNOWN	None	4940	249	82	33197903	33209125	1	HLA-DP1B	None
7	LINC00972	ENSG00000225128	ENST00000438065	lincRNA	KNOWN	None	48826	None	None	85050438	85118609	1	None	None
7	LINC00972	ENSG00000225128	ENST00000422448	lincRNA	KNOWN	None	48826	None	None	85104543	85118548	1	None	None
7	None	ENSG00000227785	ENST00000438795	processed_pseudogene	KNOWN	None	None	None	None	85265329	85265660	-1	None	None
16	ZNRF1	ENSG00000186187	ENST00000335325	protein_coding	KNOWN	CCDS10912	18452	684	227	75032928	75144892	1	None	nin283, FLJ14846, DKFZp434E229
16	ZNRF1	ENSG00000186187	ENST00000320619	protein_coding	KNOWN	None	18452	837	278	75032935	75142605	1	None	nin283, FLJ14846, DKFZp434E229
16	ZNRF1	ENSG00000186187	ENST00000566250	protein_coding	PUTATIVE	None	18452	630	209	75033243	75138903	1	None	nin283, FLJ14846, DKFZp434E229
16	ZNRF1	ENSG00000186187	ENST00000567962	protein_coding	KNOWN	CCDS10912	18452	684	227	75033243	75141926	1	None	nin283, FLJ14846, DKFZp434E229
16	ZNRF1	ENSG00000186187	ENST00000564320	processed_transcript	KNOWN	None	18452	None	None	75034140	75141672	1	None	nin283, FLJ14846, DKFZp434E229
16	ZNRF1	ENSG00000186187	ENST00000568511	protein_coding	PUTATIVE	None	18452	158	51	75036195	75138787	1	None	nin283, FLJ14846, DKFZp434E229
16	ZNRF1	ENSG00000186187	ENST00000579084	processed_transcript	KNOWN	None	18452	None	None	75129042	75139234	1	None	nin283, FLJ14846, DKFZp434E229
16	ZNRF1	ENSG00000186187	ENST00000566244	retained_intron	KNOWN	None	18452	None	None	75137958	75141937	1	None	nin283, FLJ14846, DKFZp434E229
16	ZNRF1	ENSG00000186187	ENST00000568351	protein_coding	PUTATIVE	None	18452	236	77	75138682	75142488	1	None	nin283, FLJ14846, DKFZp434E229
16	ZNRF1	ENSG00000186187	ENST00000568494	retained_intron	KNOWN	None	18452	None	None	75138696	75141902	1	None	nin283, FLJ14846, DKFZp434E229
16	ZNRF1	ENSG00000186187	ENST00000568844	retained_intron	KNOWN	None	18452	None	None	75139281	75144611	1	None	nin283, FLJ14846, DKFZp434E229
7	SOCS5P1	ENSG00000236610	ENST00000440415	processed_pseudogene	KNOWN	None	44597	None	None	85846101	85847049	-1	None	None
17	None	ENSG00000265303	ENST00000577660	protein_coding	PUTATIVE	None	None	333	110	57274927	57292587	1	None	None
7	None	ENSG00000231255	ENST00000423979	antisense	KNOWN	None	None	None	None	86404397	86405338	-1	None	None
7	BUD31	ENSG00000106245	ENST00000403633	protein_coding	KNOWN	CCDS5663	29629	435	144	99006264	99017239	1	None	YCR063W, EDG-2, EDG2, G10, fSAP17, Cwc14
7	BUD31	ENSG00000106245	ENST00000427499	nonsense_mediated_decay	KNOWN	None	29629	114	37	99006295	99013823	1	None	YCR063W, EDG-2, EDG2, G10, fSAP17, Cwc14
7	BUD31	ENSG00000106245	ENST00000496696	retained_intron	KNOWN	None	29629	None	None	99006592	99015221	1	None	YCR063W, EDG-2, EDG2, G10, fSAP17, Cwc14
7	BUD31	ENSG00000106245	ENST00000222969	protein_coding	KNOWN	CCDS5663	29629	435	144	99006601	99017231	1	None	YCR063W, EDG-2, EDG2, G10, fSAP17, Cwc14
7	BUD31	ENSG00000106245	ENST00000473447	retained_intron	KNOWN	None	29629	None	None	99006708	99008869	1	None	YCR063W, EDG-2, EDG2, G10, fSAP17, Cwc14
7	BUD31	ENSG00000106245	ENST00000471813	retained_intron	KNOWN	None	29629	None	None	99007737	99013922	1	None	YCR063W, EDG-2, EDG2, G10, fSAP17, Cwc14
7	BUD31	ENSG00000106245	ENST00000456893	protein_coding	KNOWN	None	29629	312	103	99008680	99017235	1	None	YCR063W, EDG-2, EDG2, G10, fSAP17, Cwc14
7	BUD31	ENSG00000106245	ENST00000431419	protein_coding	PUTATIVE	None	29629	348	115	99012759	99017200	1	None	YCR063W, EDG-2, EDG2, G10, fSAP17, Cwc14
7	BUD31	ENSG00000106245	ENST00000466798	retained_intron	KNOWN	None	29629	None	None	99013757	99015744	1	None	YCR063W, EDG-2, EDG2, G10, fSAP17, Cwc14
1	RGS21	ENSG00000253148	ENST00000417209	protein_coding	KNOWN	CCDS41448	26839	459	152	192286122	192336415	1	None	None
HSCHR6_MHC_QBL	DDR1	ENSG00000215522	ENST00000473596	processed_transcript	KNOWN	None	2730	None	None	30838342	30849564	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_QBL	DDR1	ENSG00000215522	ENST00000400492	protein_coding	KNOWN	None	2730	2742	913	30838395	30857525	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_QBL	DDR1	ENSG00000215522	ENST00000480932	processed_transcript	KNOWN	None	2730	None	None	30838662	30842074	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_QBL	DDR1	ENSG00000215522	ENST00000435818	protein_coding	KNOWN	None	2730	500	165	30840313	30848422	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_QBL	DDR1	ENSG00000215522	ENST00000400484	protein_coding	KNOWN	None	2730	443	146	30840458	30848365	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_QBL	DDR1	ENSG00000215522	ENST00000400491	protein_coding	KNOWN	None	2730	2742	913	30841146	30857525	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_QBL	DDR1	ENSG00000215522	ENST00000400489	protein_coding	KNOWN	None	2730	2631	876	30841430	30857525	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_QBL	DDR1	ENSG00000215522	ENST00000418397	protein_coding	KNOWN	None	2730	417	138	30841720	30846797	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_QBL	DDR1	ENSG00000215522	ENST00000434782	protein_coding	KNOWN	None	2730	190	62	30841825	30846379	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_QBL	DDR1	ENSG00000215522	ENST00000490712	processed_transcript	KNOWN	None	2730	None	None	30841923	30857525	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_QBL	DDR1	ENSG00000215522	ENST00000400488	protein_coding	KNOWN	None	2730	2631	876	30841933	30857525	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_QBL	DDR1	ENSG00000215522	ENST00000437449	protein_coding	KNOWN	None	2730	628	208	30842593	30848809	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_QBL	DDR1	ENSG00000215522	ENST00000400486	protein_coding	KNOWN	None	2730	2631	876	30845756	30857525	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_QBL	DDR1	ENSG00000215522	ENST00000484230	retained_intron	KNOWN	None	2730	None	None	30848509	30849547	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_QBL	DDR1	ENSG00000215522	ENST00000414378	protein_coding	KNOWN	None	2730	1479	492	30848794	30855508	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_QBL	DDR1	ENSG00000215522	ENST00000482283	processed_transcript	KNOWN	None	2730	None	None	30850724	30854415	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_QBL	DDR1	ENSG00000215522	ENST00000450117	protein_coding	KNOWN	None	2730	1136	377	30853990	30857525	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_QBL	DDR1	ENSG00000215522	ENST00000485860	processed_transcript	KNOWN	None	2730	None	None	30854444	30856773	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_QBL	DDR1	ENSG00000215522	ENST00000550395	protein_coding	KNOWN	None	2730	2760	919	30841451	30857521	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_QBL	DDR1	ENSG00000215522	ENST00000549026	protein_coding	KNOWN	None	2730	732	243	30841451	30857521	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_QBL	DDR1	ENSG00000215522	ENST00000552434	protein_coding	KNOWN	None	2730	513	170	30848794	30857523	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
17	ZMYND15	ENSG00000141497	ENST00000433935	protein_coding	KNOWN	CCDS45584	20997	2229	742	4643319	4649410	1	None	DKFZp434N127
17	ZMYND15	ENSG00000141497	ENST00000574829	retained_intron	KNOWN	None	20997	None	None	4643325	4647758	1	None	DKFZp434N127
17	ZMYND15	ENSG00000141497	ENST00000592813	protein_coding	KNOWN	CCDS11053	20997	2112	703	4643337	4649408	1	None	DKFZp434N127
17	ZMYND15	ENSG00000141497	ENST00000573751	protein_coding	NOVEL	CCDS58506	20997	2253	750	4643814	4649411	1	None	DKFZp434N127
17	ZMYND15	ENSG00000141497	ENST00000571782	retained_intron	KNOWN	None	20997	None	None	4647042	4648141	1	None	DKFZp434N127
17	ZMYND15	ENSG00000141497	ENST00000269289	protein_coding	KNOWN	CCDS11053	20997	2112	703	4643808	4649405	1	None	DKFZp434N127
2	PRPF40A	ENSG00000196504	ENST00000410080	protein_coding	KNOWN	CCDS46430	16463	2793	930	153508107	153574495	-1	FNBP3	FLJ20585, FBP11, HYPA, NY-REN-6, HIP10, FBP-11, FLAF1, Prp40
2	PRPF40A	ENSG00000196504	ENST00000471701	retained_intron	KNOWN	None	16463	None	None	153514399	153515618	-1	FNBP3	FLJ20585, FBP11, HYPA, NY-REN-6, HIP10, FBP-11, FLAF1, Prp40
2	PRPF40A	ENSG00000196504	ENST00000471167	retained_intron	KNOWN	None	16463	None	None	153514469	153515891	-1	FNBP3	FLJ20585, FBP11, HYPA, NY-REN-6, HIP10, FBP-11, FLAF1, Prp40
2	PRPF40A	ENSG00000196504	ENST00000472760	retained_intron	KNOWN	None	16463	None	None	153519645	153520369	-1	FNBP3	FLJ20585, FBP11, HYPA, NY-REN-6, HIP10, FBP-11, FLAF1, Prp40
2	PRPF40A	ENSG00000196504	ENST00000354363	nonsense_mediated_decay	KNOWN	None	16463	328	108	153529062	153573975	-1	FNBP3	FLJ20585, FBP11, HYPA, NY-REN-6, HIP10, FBP-11, FLAF1, Prp40
2	PRPF40A	ENSG00000196504	ENST00000545856	protein_coding	KNOWN	None	16463	1345	447	153529079	153573921	-1	FNBP3	FLJ20585, FBP11, HYPA, NY-REN-6, HIP10, FBP-11, FLAF1, Prp40
2	PRPF40A	ENSG00000196504	ENST00000493468	protein_coding	NOVEL	None	16463	1041	346	153532913	153573887	-1	FNBP3	FLJ20585, FBP11, HYPA, NY-REN-6, HIP10, FBP-11, FLAF1, Prp40
2	PRPF40A	ENSG00000196504	ENST00000448428	protein_coding	PUTATIVE	None	16463	490	162	153535570	153573971	-1	FNBP3	FLJ20585, FBP11, HYPA, NY-REN-6, HIP10, FBP-11, FLAF1, Prp40
2	PRPF40A	ENSG00000196504	ENST00000467114	retained_intron	KNOWN	None	16463	None	None	153535643	153549625	-1	FNBP3	FLJ20585, FBP11, HYPA, NY-REN-6, HIP10, FBP-11, FLAF1, Prp40
2	PRPF40A	ENSG00000196504	ENST00000489741	retained_intron	KNOWN	None	16463	None	None	153550577	153572644	-1	FNBP3	FLJ20585, FBP11, HYPA, NY-REN-6, HIP10, FBP-11, FLAF1, Prp40
2	PRPF40A	ENSG00000196504	ENST00000450303	retained_intron	KNOWN	None	16463	None	None	153550951	153574446	-1	FNBP3	FLJ20585, FBP11, HYPA, NY-REN-6, HIP10, FBP-11, FLAF1, Prp40
2	PRPF40A	ENSG00000196504	ENST00000486100	processed_transcript	KNOWN	None	16463	None	None	153572509	153574511	-1	FNBP3	FLJ20585, FBP11, HYPA, NY-REN-6, HIP10, FBP-11, FLAF1, Prp40
18	ZNF24	ENSG00000172466	ENST00000261332	protein_coding	KNOWN	CCDS11912	13032	1107	368	32912176	32924420	-1	ZNF191	ZSCAN3, Zfp191, KOX17
18	ZNF24	ENSG00000172466	ENST00000589881	protein_coding	KNOWN	None	13032	582	193	32912191	32920618	-1	ZNF191	ZSCAN3, Zfp191, KOX17
18	ZNF24	ENSG00000172466	ENST00000399061	protein_coding	KNOWN	CCDS11912	13032	1107	368	32912191	32924420	-1	ZNF191	ZSCAN3, Zfp191, KOX17
18	ZNF24	ENSG00000172466	ENST00000590140	protein_coding	KNOWN	None	13032	416	137	32920199	32925446	-1	ZNF191	ZSCAN3, Zfp191, KOX17
18	ZNF24	ENSG00000172466	ENST00000589539	protein_coding	KNOWN	None	13032	306	101	32920309	32923896	-1	ZNF191	ZSCAN3, Zfp191, KOX17
18	ZNF24	ENSG00000172466	ENST00000593130	protein_coding	KNOWN	None	13032	288	95	32920327	32922639	-1	ZNF191	ZSCAN3, Zfp191, KOX17
4	TRIM61	ENSG00000183439	ENST00000329314	protein_coding	KNOWN	CCDS34093	24339	630	209	165875598	165898820	-1	RNF35	None
13	C13orf35	ENSG00000197595	ENST00000356049	protein_coding	PUTATIVE	CCDS9526	33793	366	121	113301358	113338811	1	None	FLJ26443, SMABLO1
1	CCDC28B	ENSG00000160050	ENST00000373602	protein_coding	KNOWN	CCDS354	28163	603	200	32665987	32670988	1	None	MGC1203, RP4-622L5.5
1	CCDC28B	ENSG00000160050	ENST00000469003	nonsense_mediated_decay	KNOWN	None	28163	252	83	32666202	32668760	1	None	MGC1203, RP4-622L5.5
1	CCDC28B	ENSG00000160050	ENST00000421922	protein_coding	PUTATIVE	None	28163	726	241	32666234	32670988	1	None	MGC1203, RP4-622L5.5
1	CCDC28B	ENSG00000160050	ENST00000461819	nonsense_mediated_decay	KNOWN	None	28163	390	129	32666245	32670984	1	None	MGC1203, RP4-622L5.5
1	CCDC28B	ENSG00000160050	ENST00000483009	processed_transcript	KNOWN	None	28163	None	None	32667297	32670815	1	None	MGC1203, RP4-622L5.5
4	FAM218A	ENSG00000250486	ENST00000513876	protein_coding	KNOWN	CCDS3807	26466	474	157	165878100	165880273	1	C4orf39	FLJ31659
HSCHR6_MHC_COX	CYP21A2	ENSG00000233151	ENST00000456152	protein_coding	NOVEL	None	2600	1488	495	31954522	31957866	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_COX	CYP21A2	ENSG00000233151	ENST00000487373	processed_transcript	PUTATIVE	None	2600	None	None	31954540	31955671	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_COX	CYP21A2	ENSG00000233151	ENST00000487592	retained_intron	KNOWN	None	2600	None	None	31954589	31957866	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_COX	CYP21A2	ENSG00000233151	ENST00000493137	retained_intron	KNOWN	None	2600	None	None	31954589	31957866	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_COX	CYP21A2	ENSG00000233151	ENST00000472130	retained_intron	KNOWN	None	2600	None	None	31954589	31957866	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_COX	CYP21A2	ENSG00000233151	ENST00000495919	retained_intron	KNOWN	None	2600	None	None	31954594	31957866	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_COX	CYP21A2	ENSG00000233151	ENST00000466275	retained_intron	KNOWN	None	2600	None	None	31954639	31955339	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_COX	CYP21A2	ENSG00000233151	ENST00000474613	processed_transcript	KNOWN	None	2600	None	None	31954639	31955707	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_COX	CYP21A2	ENSG00000233151	ENST00000466113	processed_transcript	KNOWN	None	2600	None	None	31954639	31955775	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_COX	CYP21A2	ENSG00000233151	ENST00000452386	protein_coding	KNOWN	None	2600	1398	465	31954639	31957894	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
1	RGS1	ENSG00000090104	ENST00000367459	protein_coding	KNOWN	CCDS1375	9991	630	209	192544857	192549161	1	IER1	1R20, IR20, BL34
1	RGS1	ENSG00000090104	ENST00000474373	retained_intron	KNOWN	None	9991	None	None	192544893	192546406	1	IER1	1R20, IR20, BL34
1	RGS1	ENSG00000090104	ENST00000462589	retained_intron	KNOWN	None	9991	None	None	192544903	192545896	1	IER1	1R20, IR20, BL34
1	RGS1	ENSG00000090104	ENST00000583155	retained_intron	KNOWN	None	9991	None	None	192544903	192545954	1	IER1	1R20, IR20, BL34
1	RGS1	ENSG00000090104	ENST00000469578	protein_coding	KNOWN	None	9991	510	169	192544903	192548085	1	IER1	1R20, IR20, BL34
1	RGS1	ENSG00000090104	ENST00000498352	retained_intron	KNOWN	None	9991	None	None	192544905	192549071	1	IER1	1R20, IR20, BL34
17	SMG8	ENSG00000167447	ENST00000543872	protein_coding	KNOWN	CCDS11615	25551	2976	991	57286761	57292600	1	C17orf71	FLJ10587, FLJ23205
17	SMG8	ENSG00000167447	ENST00000578922	protein_coding	KNOWN	None	25551	1767	588	57287228	57289405	1	C17orf71	FLJ10587, FLJ23205
17	SMG8	ENSG00000167447	ENST00000580498	processed_transcript	KNOWN	None	25551	None	None	57287383	57290488	1	C17orf71	FLJ10587, FLJ23205
17	SMG8	ENSG00000167447	ENST00000582469	protein_coding	PUTATIVE	None	25551	816	271	57288784	57292561	1	C17orf71	FLJ10587, FLJ23205
17	SMG8	ENSG00000167447	ENST00000580798	nonsense_mediated_decay	KNOWN	None	25551	97	31	57289083	57290217	1	C17orf71	FLJ10587, FLJ23205
17	SMG8	ENSG00000167447	ENST00000300917	protein_coding	KNOWN	CCDS11615	25551	2976	991	57287371	57292608	1	C17orf71	FLJ10587, FLJ23205
12	PYROXD1	ENSG00000121350	ENST00000543476	nonsense_mediated_decay	KNOWN	None	26162	420	139	21590549	21615680	1	None	DKFZp762G094, FLJ22028
12	PYROXD1	ENSG00000121350	ENST00000375266	nonsense_mediated_decay	KNOWN	None	26162	168	55	21590579	21621854	1	None	DKFZp762G094, FLJ22028
12	PYROXD1	ENSG00000121350	ENST00000240651	protein_coding	KNOWN	CCDS31755	26162	1503	500	21590611	21623300	1	None	DKFZp762G094, FLJ22028
12	PYROXD1	ENSG00000121350	ENST00000544970	nonsense_mediated_decay	KNOWN	None	26162	420	139	21590639	21621704	1	None	DKFZp762G094, FLJ22028
12	PYROXD1	ENSG00000121350	ENST00000538582	protein_coding	PUTATIVE	None	26162	1290	429	21590849	21623284	1	None	DKFZp762G094, FLJ22028
12	PYROXD1	ENSG00000121350	ENST00000538072	retained_intron	KNOWN	None	26162	None	None	21607716	21608996	1	None	DKFZp762G094, FLJ22028
12	PYROXD1	ENSG00000121350	ENST00000544187	nonsense_mediated_decay	KNOWN	None	26162	182	59	21608176	21613995	1	None	DKFZp762G094, FLJ22028
12	PYROXD1	ENSG00000121350	ENST00000536851	retained_intron	KNOWN	None	26162	None	None	21613837	21620523	1	None	DKFZp762G094, FLJ22028
12	PYROXD1	ENSG00000121350	ENST00000538615	retained_intron	KNOWN	None	26162	None	None	21620224	21621760	1	None	DKFZp762G094, FLJ22028
12	PYROXD1	ENSG00000121350	ENST00000545178	protein_coding	KNOWN	None	26162	420	139	21590549	21615061	1	None	DKFZp762G094, FLJ22028
3	ZNF80	ENSG00000174255	ENST00000308095	nonsense_mediated_decay	KNOWN	CCDS2979	13155	822	273	113953483	113956425	-1	None	pT17
3	ZNF80	ENSG00000174255	ENST00000482457	protein_coding	KNOWN	CCDS2979	13155	822	273	113953487	113956425	-1	None	pT17
6	MLLT4	ENSG00000130396	ENST00000400825	protein_coding	NOVEL	None	7137	752	249	168227602	168281052	1	None	AF-6, AF6
6	MLLT4	ENSG00000130396	ENST00000344191	protein_coding	NOVEL	None	7137	4998	1665	168227641	168363341	1	None	AF-6, AF6
6	MLLT4	ENSG00000130396	ENST00000351017	protein_coding	NOVEL	None	7137	5496	1831	168227641	168370770	1	None	AF-6, AF6
6	MLLT4	ENSG00000130396	ENST00000392108	protein_coding	KNOWN	CCDS47517	7137	4956	1651	168227671	168364976	1	None	AF-6, AF6
6	MLLT4	ENSG00000130396	ENST00000400824	protein_coding	NOVEL	None	7137	742	246	168227680	168276175	1	None	AF-6, AF6
6	MLLT4	ENSG00000130396	ENST00000366809	retained_intron	KNOWN	None	7137	None	None	168227813	168352942	1	None	AF-6, AF6
6	MLLT4	ENSG00000130396	ENST00000447894	protein_coding	PUTATIVE	None	7137	5475	1824	168227813	168370615	1	None	AF-6, AF6
6	MLLT4	ENSG00000130396	ENST00000400822	protein_coding	PUTATIVE	None	7137	5505	1834	168227813	168372703	1	None	AF-6, AF6
6	MLLT4	ENSG00000130396	ENST00000423229	protein_coding	PUTATIVE	None	7137	1168	388	168281161	168312844	1	None	AF-6, AF6
6	MLLT4	ENSG00000130396	ENST00000503021	retained_intron	KNOWN	None	7137	None	None	168294360	168299143	1	None	AF-6, AF6
6	MLLT4	ENSG00000130396	ENST00000511637	retained_intron	KNOWN	None	7137	None	None	168314221	168365709	1	None	AF-6, AF6
6	MLLT4	ENSG00000130396	ENST00000497596	protein_coding	PUTATIVE	None	7137	504	167	168316081	168323887	1	None	AF-6, AF6
6	MLLT4	ENSG00000130396	ENST00000507679	processed_transcript	KNOWN	None	7137	None	None	168333282	168348589	1	None	AF-6, AF6
6	MLLT4	ENSG00000130396	ENST00000509296	retained_intron	KNOWN	None	7137	None	None	168348709	168352101	1	None	AF-6, AF6
6	MLLT4	ENSG00000130396	ENST00000507704	protein_coding	NOVEL	None	7137	941	312	168352584	168370705	1	None	AF-6, AF6
6	MLLT4	ENSG00000130396	ENST00000476946	protein_coding	NOVEL	None	7137	389	128	168352629	168363740	1	None	AF-6, AF6
6	MLLT4	ENSG00000130396	ENST00000485634	protein_coding	NOVEL	None	7137	574	190	168366616	168370647	1	None	AF-6, AF6
6	MLLT4	ENSG00000130396	ENST00000515794	protein_coding	NOVEL	None	7137	373	123	168366823	168370988	1	None	AF-6, AF6
6	MLLT4	ENSG00000130396	ENST00000511503	retained_intron	KNOWN	None	7137	None	None	168369129	168370968	1	None	AF-6, AF6
6	MLLT4	ENSG00000130396	ENST00000486649	processed_transcript	KNOWN	None	7137	None	None	168369483	168370583	1	None	AF-6, AF6
6	MLLT4	ENSG00000130396	ENST00000366806	protein_coding	KNOWN	None	7137	5475	1824	168227671	168372702	1	None	AF-6, AF6
6	MLLT4	ENSG00000130396	ENST00000392112	protein_coding	KNOWN	None	7137	5232	1743	168227671	168372702	1	None	AF-6, AF6
8	AGPAT6	ENSG00000158669	ENST00000521184	processed_transcript	PUTATIVE	None	20880	None	None	41434706	41456133	1	None	DKFZp586M1819, LPAAT-zeta
8	AGPAT6	ENSG00000158669	ENST00000520258	processed_transcript	PUTATIVE	None	20880	None	None	41435707	41456444	1	None	DKFZp586M1819, LPAAT-zeta
8	AGPAT6	ENSG00000158669	ENST00000396987	protein_coding	KNOWN	CCDS6117	20880	1371	456	41435719	41482520	1	None	DKFZp586M1819, LPAAT-zeta
8	AGPAT6	ENSG00000158669	ENST00000519853	protein_coding	PUTATIVE	None	20880	475	157	41435734	41468331	1	None	DKFZp586M1819, LPAAT-zeta
8	AGPAT6	ENSG00000158669	ENST00000520223	protein_coding	PUTATIVE	None	20880	87	28	41435934	41456745	1	None	DKFZp586M1819, LPAAT-zeta
8	AGPAT6	ENSG00000158669	ENST00000521121	processed_transcript	PUTATIVE	None	20880	None	None	41442291	41456184	1	None	DKFZp586M1819, LPAAT-zeta
8	AGPAT6	ENSG00000158669	ENST00000521806	nonsense_mediated_decay	KNOWN	None	20880	540	179	41456567	41469755	1	None	DKFZp586M1819, LPAAT-zeta
8	AGPAT6	ENSG00000158669	ENST00000519921	retained_intron	KNOWN	None	20880	None	None	41467775	41472567	1	None	DKFZp586M1819, LPAAT-zeta
8	AGPAT6	ENSG00000158669	ENST00000523906	retained_intron	KNOWN	None	20880	None	None	41468297	41476332	1	None	DKFZp586M1819, LPAAT-zeta
8	AGPAT6	ENSG00000158669	ENST00000521349	retained_intron	KNOWN	None	20880	None	None	41476051	41478892	1	None	DKFZp586M1819, LPAAT-zeta
8	AGPAT6	ENSG00000158669	ENST00000518628	retained_intron	KNOWN	None	20880	None	None	41476225	41478913	1	None	DKFZp586M1819, LPAAT-zeta
4	TRIM60	ENSG00000176979	ENST00000512596	protein_coding	KNOWN	CCDS3808	21162	1416	471	165953105	165962896	1	RNF129, RNF33	FLJ35882
4	TRIM60	ENSG00000176979	ENST00000507119	protein_coding	KNOWN	None	21162	272	89	165953152	165961496	1	RNF129, RNF33	FLJ35882
4	TRIM60	ENSG00000176979	ENST00000508504	protein_coding	KNOWN	CCDS3808	21162	1416	471	165960350	165962665	1	RNF129, RNF33	FLJ35882
4	TRIM60	ENSG00000176979	ENST00000341062	protein_coding	KNOWN	CCDS3808	21162	1416	471	165960350	165962665	1	RNF129, RNF33	FLJ35882
HSCHR6_MHC_SSTO	ZBTB9	ENSG00000236515	ENST00000414934	protein_coding	KNOWN	None	28323	1422	473	33561742	33564711	1	None	MGC23166, ZNF919
10	TRAF6P1	ENSG00000226557	ENST00000429404	processed_pseudogene	KNOWN	None	45032	None	None	60896385	60897942	-1	None	None
22	IGLC7	ENSG00000211685	ENST00000390331	IG_C_gene	KNOWN	None	5861	320	105	23264766	23265085	1	None	None
9	NMRK1	ENSG00000106733	ENST00000376811	protein_coding	NOVEL	None	26057	612	203	77675489	77703106	-1	C9orf95	FLJ20559, NRK1, bA235O14.2
9	NMRK1	ENSG00000106733	ENST00000482537	processed_transcript	KNOWN	None	26057	None	None	77676116	77682121	-1	C9orf95	FLJ20559, NRK1, bA235O14.2
9	NMRK1	ENSG00000106733	ENST00000361092	protein_coding	KNOWN	CCDS6650	26057	600	199	77676116	77703125	-1	C9orf95	FLJ20559, NRK1, bA235O14.2
9	NMRK1	ENSG00000106733	ENST00000376808	protein_coding	NOVEL	CCDS47981	26057	528	175	77676116	77703133	-1	C9orf95	FLJ20559, NRK1, bA235O14.2
9	NMRK1	ENSG00000106733	ENST00000494066	nonsense_mediated_decay	KNOWN	None	26057	321	106	77676118	77703125	-1	C9orf95	FLJ20559, NRK1, bA235O14.2
9	NMRK1	ENSG00000106733	ENST00000466137	processed_transcript	KNOWN	None	26057	None	None	77697625	77702727	-1	C9orf95	FLJ20559, NRK1, bA235O14.2
9	NMRK1	ENSG00000106733	ENST00000490321	processed_transcript	KNOWN	None	26057	None	None	77702460	77703051	-1	C9orf95	FLJ20559, NRK1, bA235O14.2
HSCHR6_MHC_SSTO	None	ENSG00000257778	ENST00000549507	pseudogene	NOVEL	None	None	None	None	28659681	28659895	1	None	None
HSCHR6_MHC_SSTO	RPSAP2	ENSG00000248563	ENST00000507015	processed_pseudogene	KNOWN	None	18771	None	None	28699794	28700681	1	LAMR1P2	bA60E24.1
HSCHR6_MHC_SSTO	None	ENSG00000266182	ENST00000578690	miRNA	NOVEL	None	None	None	None	28743732	28743839	1	None	None
6	LAMA4	ENSG00000112769	ENST00000230538	protein_coding	KNOWN	CCDS43491	6484	5472	1823	112429963	112575917	-1	None	LAMA3
6	LAMA4	ENSG00000112769	ENST00000522006	protein_coding	KNOWN	CCDS34514	6484	5451	1816	112430063	112575912	-1	None	LAMA3
6	LAMA4	ENSG00000112769	ENST00000389463	protein_coding	KNOWN	CCDS34514	6484	5451	1816	112430077	112575802	-1	None	LAMA3
6	LAMA4	ENSG00000112769	ENST00000424408	protein_coding	KNOWN	CCDS34514	6484	5451	1816	112430496	112575740	-1	None	LAMA3
6	LAMA4	ENSG00000112769	ENST00000604740	retained_intron	KNOWN	None	6484	None	None	112442978	112451190	-1	None	LAMA3
6	LAMA4	ENSG00000112769	ENST00000521693	retained_intron	KNOWN	None	6484	None	None	112443264	112451361	-1	None	LAMA3
6	LAMA4	ENSG00000112769	ENST00000519245	retained_intron	KNOWN	None	6484	None	None	112457027	112460478	-1	None	LAMA3
6	LAMA4	ENSG00000112769	ENST00000523765	nonsense_mediated_decay	KNOWN	None	6484	566	187	112463346	112486366	-1	None	LAMA3
6	LAMA4	ENSG00000112769	ENST00000521187	retained_intron	KNOWN	None	6484	None	None	112492832	112500704	-1	None	LAMA3
6	LAMA4	ENSG00000112769	ENST00000521732	protein_coding	PUTATIVE	None	6484	562	186	112500937	112513013	-1	None	LAMA3
6	LAMA4	ENSG00000112769	ENST00000368640	protein_coding	PUTATIVE	None	6484	536	177	112500968	112512966	-1	None	LAMA3
6	LAMA4	ENSG00000112769	ENST00000521398	protein_coding	KNOWN	None	6484	995	330	112506521	112575687	-1	None	LAMA3
6	LAMA4	ENSG00000112769	ENST00000518842	retained_intron	KNOWN	None	6484	None	None	112510094	112513003	-1	None	LAMA3
6	LAMA4	ENSG00000112769	ENST00000524032	processed_transcript	KNOWN	None	6484	None	None	112512921	112537955	-1	None	LAMA3
6	LAMA4	ENSG00000112769	ENST00000423735	processed_transcript	KNOWN	None	6484	None	None	112521335	112537650	-1	None	LAMA3
6	LAMA4	ENSG00000112769	ENST00000519932	protein_coding	KNOWN	None	6484	320	105	112528324	112575924	-1	None	LAMA3
6	LAMA4	ENSG00000112769	ENST00000431543	protein_coding	PUTATIVE	None	6484	390	129	112534744	112575774	-1	None	LAMA3
6	LAMA4	ENSG00000112769	ENST00000243219	protein_coding	KNOWN	None	6484	263	86	112537603	112575740	-1	None	LAMA3
6	LAMA4	ENSG00000112769	ENST00000521690	protein_coding	KNOWN	None	6484	244	80	112537622	112576141	-1	None	LAMA3
6	LAMA4	ENSG00000112769	ENST00000368638	protein_coding	KNOWN	CCDS43492	6484	363	120	112574563	112575790	-1	None	LAMA3
6	LAMA4	ENSG00000112769	ENST00000453937	protein_coding	KNOWN	CCDS43492	6484	363	120	112574986	112575780	-1	None	LAMA3
6	LAMA4	ENSG00000112769	ENST00000455073	protein_coding	KNOWN	None	6484	361	119	112574992	112575849	-1	None	LAMA3
3	TIGIT	ENSG00000181847	ENST00000461158	protein_coding	PUTATIVE	None	26838	508	168	113995760	114026814	1	VSIG9, VSTM3	FLJ39873, DKFZp667A205
3	TIGIT	ENSG00000181847	ENST00000481065	protein_coding	PUTATIVE	None	26838	936	311	114009906	114027137	1	VSIG9, VSTM3	FLJ39873, DKFZp667A205
3	TIGIT	ENSG00000181847	ENST00000486257	protein_coding	KNOWN	CCDS2980	26838	735	244	114009949	114029135	1	VSIG9, VSTM3	FLJ39873, DKFZp667A205
3	TIGIT	ENSG00000181847	ENST00000485814	retained_intron	KNOWN	None	26838	None	None	114012875	114014867	1	VSIG9, VSTM3	FLJ39873, DKFZp667A205
3	TIGIT	ENSG00000181847	ENST00000484319	protein_coding	PUTATIVE	None	26838	490	162	114013834	114026796	1	VSIG9, VSTM3	FLJ39873, DKFZp667A205
3	TIGIT	ENSG00000181847	ENST00000496848	processed_transcript	PUTATIVE	None	26838	None	None	114026422	114026898	1	VSIG9, VSTM3	FLJ39873, DKFZp667A205
3	TIGIT	ENSG00000181847	ENST00000383671	protein_coding	KNOWN	CCDS2980	26838	735	244	114012833	114029134	1	VSIG9, VSTM3	FLJ39873, DKFZp667A205
5	SPINK1	ENSG00000164266	ENST00000296695	protein_coding	KNOWN	CCDS4286	11244	240	79	147204131	147211349	-1	None	Spink3, PCTT, PSTI, TATI
5	SPINK1	ENSG00000164266	ENST00000505722	retained_intron	KNOWN	None	11244	None	None	147204135	147207693	-1	None	Spink3, PCTT, PSTI, TATI
5	SPINK1	ENSG00000164266	ENST00000510027	protein_coding	PUTATIVE	None	11244	198	65	147206649	147211198	-1	None	Spink3, PCTT, PSTI, TATI
HSCHR6_MHC_SSTO	None	ENSG00000248655	ENST00000513934	processed_pseudogene	NOVEL	None	None	None	None	28751412	28751783	-1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000264411	ENST00000578113	miRNA	NOVEL	None	None	None	None	28763741	28763804	-1	None	None
12	FZD10	ENSG00000111432	ENST00000539839	protein_coding	KNOWN	None	4039	1365	454	130647004	130650285	1	None	CD350
12	FZD10	ENSG00000111432	ENST00000229030	protein_coding	KNOWN	CCDS9267	4039	1746	581	130647004	130650284	1	None	CD350
1	IQCC	ENSG00000160051	ENST00000291358	protein_coding	KNOWN	CCDS355	25545	1401	466	32671262	32674288	1	None	FLJ10547
1	IQCC	ENSG00000160051	ENST00000537469	protein_coding	KNOWN	CCDS53293	25545	1641	546	32671236	32674288	1	None	FLJ10547
HSCHR6_MHC_SSTO	None	ENSG00000233826	ENST00000418168	processed_transcript	PUTATIVE	None	None	None	None	28805557	28806694	-1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000229773	ENST00000411600	processed_transcript	KNOWN	None	None	None	None	28827313	28831035	-1	None	None
22	RTDR1	ENSG00000100218	ENST00000216036	protein_coding	KNOWN	CCDS13803	13437	1047	348	23401593	23484280	-1	None	None
22	RTDR1	ENSG00000100218	ENST00000421213	protein_coding	PUTATIVE	None	13437	222	73	23466414	23476261	-1	None	None
22	RTDR1	ENSG00000100218	ENST00000439064	protein_coding	PUTATIVE	None	13437	202	66	23473364	23481101	-1	None	None
22	RTDR1	ENSG00000100218	ENST00000452757	protein_coding	PUTATIVE	None	13437	204	67	23478180	23482487	-1	None	None
22	RTDR1	ENSG00000100218	ENST00000406876	protein_coding	PUTATIVE	None	13437	327	108	23478385	23487208	-1	None	None
10	CYP2C9	ENSG00000138109	ENST00000461906	processed_transcript	KNOWN	None	2623	None	None	96698415	96703023	1	CYP2C10	P450IIC9
10	CYP2C9	ENSG00000138109	ENST00000260682	protein_coding	KNOWN	CCDS7437	2623	1473	490	96698428	96749147	1	CYP2C10	P450IIC9
10	CYP2C9	ENSG00000138109	ENST00000473496	processed_transcript	KNOWN	None	2623	None	None	96701676	96709292	1	CYP2C10	P450IIC9
1	RGS13	ENSG00000127074	ENST00000391995	protein_coding	KNOWN	CCDS1376	9995	480	159	192605275	192629390	1	None	None
1	RGS13	ENSG00000127074	ENST00000462955	processed_transcript	KNOWN	None	9995	None	None	192605275	192629390	1	None	None
1	RGS13	ENSG00000127074	ENST00000482095	processed_transcript	KNOWN	None	9995	None	None	192613661	192628992	1	None	None
1	RGS13	ENSG00000127074	ENST00000543215	protein_coding	KNOWN	CCDS1376	9995	480	159	192605282	192629390	1	None	None
9	None	ENSG00000232743	ENST00000445099	processed_pseudogene	KNOWN	None	None	None	None	90431380	90432885	1	None	None
7	None	ENSG00000233073	ENST00000452471	antisense	KNOWN	None	None	None	None	86413542	86415908	-1	None	None
7	None	ENSG00000233073	ENST00000418031	antisense	KNOWN	None	None	None	None	86413695	86415986	-1	None	None
2	MTIF2	ENSG00000085760	ENST00000403721	protein_coding	KNOWN	CCDS1853	7441	2184	727	55463731	55496379	-1	None	IF-2mt
2	MTIF2	ENSG00000085760	ENST00000263629	protein_coding	KNOWN	CCDS1853	7441	2184	727	55463756	55496384	-1	None	IF-2mt
2	MTIF2	ENSG00000085760	ENST00000418823	protein_coding	NOVEL	None	7441	903	300	55467147	55476670	-1	None	IF-2mt
2	MTIF2	ENSG00000085760	ENST00000417741	processed_transcript	KNOWN	None	7441	None	None	55479678	55494740	-1	None	IF-2mt
2	MTIF2	ENSG00000085760	ENST00000446660	processed_transcript	KNOWN	None	7441	None	None	55481903	55496353	-1	None	IF-2mt
2	MTIF2	ENSG00000085760	ENST00000366137	protein_coding	KNOWN	None	7441	218	71	55490777	55496315	-1	None	IF-2mt
2	MTIF2	ENSG00000085760	ENST00000441307	protein_coding	KNOWN	None	7441	212	69	55490783	55496483	-1	None	IF-2mt
2	MTIF2	ENSG00000085760	ENST00000404297	protein_coding	KNOWN	None	7441	211	69	55490784	55494923	-1	None	IF-2mt
2	MTIF2	ENSG00000085760	ENST00000420637	protein_coding	KNOWN	None	7441	79	25	55490916	55496329	-1	None	IF-2mt
2	MTIF2	ENSG00000085760	ENST00000417363	protein_coding	KNOWN	None	7441	31	9	55490964	55496174	-1	None	IF-2mt
2	MTIF2	ENSG00000085760	ENST00000412530	protein_coding	KNOWN	None	7441	22	6	55490973	55496274	-1	None	IF-2mt
2	MTIF2	ENSG00000085760	ENST00000394600	protein_coding	KNOWN	CCDS1853	7441	2184	727	55463758	55496315	-1	None	IF-2mt
9	None	ENSG00000237743	ENST00000424473	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	90441402	90452140	-1	None	None
9	None	ENSG00000237743	ENST00000415441	processed_transcript	KNOWN	None	None	None	None	90447689	90452113	-1	None	None
11	DAK	ENSG00000149476	ENST00000394900	protein_coding	KNOWN	CCDS8003	24552	1728	575	61100682	61116714	1	None	DKFZP586B1621, NET45
11	DAK	ENSG00000149476	ENST00000531820	retained_intron	KNOWN	None	24552	None	None	61100692	61101407	1	None	DKFZP586B1621, NET45
11	DAK	ENSG00000149476	ENST00000530456	processed_transcript	KNOWN	None	24552	None	None	61100693	61106617	1	None	DKFZP586B1621, NET45
11	DAK	ENSG00000149476	ENST00000532173	protein_coding	KNOWN	None	24552	486	161	61100694	61106907	1	None	DKFZP586B1621, NET45
11	DAK	ENSG00000149476	ENST00000530057	processed_transcript	KNOWN	None	24552	None	None	61100703	61105574	1	None	DKFZP586B1621, NET45
11	DAK	ENSG00000149476	ENST00000525170	processed_transcript	KNOWN	None	24552	None	None	61100712	61105562	1	None	DKFZP586B1621, NET45
11	DAK	ENSG00000149476	ENST00000529121	retained_intron	KNOWN	None	24552	None	None	61100716	61105555	1	None	DKFZP586B1621, NET45
11	DAK	ENSG00000149476	ENST00000529620	processed_transcript	KNOWN	None	24552	None	None	61100744	61105507	1	None	DKFZP586B1621, NET45
11	DAK	ENSG00000149476	ENST00000533393	processed_transcript	KNOWN	None	24552	None	None	61100752	61106595	1	None	DKFZP586B1621, NET45
11	DAK	ENSG00000149476	ENST00000524968	protein_coding	KNOWN	None	24552	171	56	61101814	61105580	1	None	DKFZP586B1621, NET45
11	DAK	ENSG00000149476	ENST00000529479	protein_coding	PUTATIVE	None	24552	1602	533	61105413	61113975	1	None	DKFZP586B1621, NET45
11	DAK	ENSG00000149476	ENST00000529092	retained_intron	KNOWN	None	24552	None	None	61106590	61106998	1	None	DKFZP586B1621, NET45
11	DAK	ENSG00000149476	ENST00000533853	retained_intron	KNOWN	None	24552	None	None	61109147	61110250	1	None	DKFZP586B1621, NET45
11	DAK	ENSG00000149476	ENST00000524953	retained_intron	KNOWN	None	24552	None	None	61109795	61110465	1	None	DKFZP586B1621, NET45
11	DAK	ENSG00000149476	ENST00000534134	retained_intron	KNOWN	None	24552	None	None	61109873	61110631	1	None	DKFZP586B1621, NET45
11	DAK	ENSG00000149476	ENST00000534370	retained_intron	KNOWN	None	24552	None	None	61110682	61111438	1	None	DKFZP586B1621, NET45
11	DAK	ENSG00000149476	ENST00000528061	retained_intron	KNOWN	None	24552	None	None	61111088	61112788	1	None	DKFZP586B1621, NET45
11	DAK	ENSG00000149476	ENST00000534084	protein_coding	PUTATIVE	None	24552	660	219	61111393	61120767	1	None	DKFZP586B1621, NET45
11	DAK	ENSG00000149476	ENST00000525366	retained_intron	KNOWN	None	24552	None	None	61112786	61114362	1	None	DKFZP586B1621, NET45
11	DAK	ENSG00000149476	ENST00000524440	retained_intron	KNOWN	None	24552	None	None	61112791	61113432	1	None	DKFZP586B1621, NET45
11	DAK	ENSG00000149476	ENST00000530329	retained_intron	KNOWN	None	24552	None	None	61112828	61113662	1	None	DKFZP586B1621, NET45
HSCHR6_MHC_MCF	GPSM3	ENSG00000234243	ENST00000470865	processed_transcript	KNOWN	None	13945	None	None	32234970	32237072	-1	C6orf9	NG1, G18, G18.1a, G18.1b, G18.2, AGS4
HSCHR6_MHC_MCF	GPSM3	ENSG00000234243	ENST00000473977	nonsense_mediated_decay	KNOWN	None	13945	150	49	32234970	32237089	-1	C6orf9	NG1, G18, G18.1a, G18.1b, G18.2, AGS4
HSCHR6_MHC_MCF	GPSM3	ENSG00000234243	ENST00000429209	protein_coding	KNOWN	None	13945	483	160	32234970	32237110	-1	C6orf9	NG1, G18, G18.1a, G18.1b, G18.2, AGS4
HSCHR6_MHC_MCF	GPSM3	ENSG00000234243	ENST00000441705	protein_coding	KNOWN	None	13945	483	160	32234970	32239727	-1	C6orf9	NG1, G18, G18.1a, G18.1b, G18.2, AGS4
10	None	ENSG00000236556	ENST00000433249	antisense	KNOWN	None	None	None	None	61041907	61042595	1	None	None
10	MRPL50P4	ENSG00000235469	ENST00000446432	processed_pseudogene	KNOWN	None	29722	None	None	61311162	61311636	-1	None	None
15	RPAP1	ENSG00000103932	ENST00000565167	retained_intron	KNOWN	None	24567	None	None	41809374	41813989	-1	None	DKFZP727M111, KIAA1403, MGC858, FLJ12732
15	RPAP1	ENSG00000103932	ENST00000561603	protein_coding	PUTATIVE	None	24567	3387	1128	41809374	41836455	-1	None	DKFZP727M111, KIAA1403, MGC858, FLJ12732
15	RPAP1	ENSG00000103932	ENST00000304330	protein_coding	KNOWN	CCDS10079	24567	4182	1393	41809374	41836457	-1	None	DKFZP727M111, KIAA1403, MGC858, FLJ12732
15	RPAP1	ENSG00000103932	ENST00000562303	nonsense_mediated_decay	KNOWN	None	24567	3948	1315	41809377	41836443	-1	None	DKFZP727M111, KIAA1403, MGC858, FLJ12732
15	RPAP1	ENSG00000103932	ENST00000564934	retained_intron	KNOWN	None	24567	None	None	41814704	41816042	-1	None	DKFZP727M111, KIAA1403, MGC858, FLJ12732
15	RPAP1	ENSG00000103932	ENST00000565035	protein_coding	NOVEL	None	24567	601	199	41815977	41819168	-1	None	DKFZP727M111, KIAA1403, MGC858, FLJ12732
15	RPAP1	ENSG00000103932	ENST00000561631	retained_intron	KNOWN	None	24567	None	None	41816146	41817405	-1	None	DKFZP727M111, KIAA1403, MGC858, FLJ12732
15	RPAP1	ENSG00000103932	ENST00000568413	processed_transcript	KNOWN	None	24567	None	None	41820186	41825592	-1	None	DKFZP727M111, KIAA1403, MGC858, FLJ12732
15	RPAP1	ENSG00000103932	ENST00000563293	retained_intron	KNOWN	None	24567	None	None	41827003	41828573	-1	None	DKFZP727M111, KIAA1403, MGC858, FLJ12732
15	RPAP1	ENSG00000103932	ENST00000567866	protein_coding	KNOWN	None	24567	541	179	41827710	41836448	-1	None	DKFZP727M111, KIAA1403, MGC858, FLJ12732
15	RPAP1	ENSG00000103932	ENST00000566863	protein_coding	KNOWN	None	24567	386	127	41828361	41836467	-1	None	DKFZP727M111, KIAA1403, MGC858, FLJ12732
15	RPAP1	ENSG00000103932	ENST00000569829	retained_intron	KNOWN	None	24567	None	None	41828851	41836464	-1	None	DKFZP727M111, KIAA1403, MGC858, FLJ12732
1	DCDC2B	ENSG00000222046	ENST00000409358	protein_coding	KNOWN	CCDS44100	32576	1050	349	32674695	32681797	1	None	None
1	DCDC2B	ENSG00000222046	ENST00000487056	retained_intron	KNOWN	None	32576	None	None	32674697	32681793	1	None	None
10	None	ENSG00000235140	ENST00000450677	lincRNA	KNOWN	None	None	None	None	61348908	61371006	1	None	None
Y	DAZ3	ENSG00000187191	ENST00000382365	protein_coding	KNOWN	CCDS35489	15965	1317	438	26909216	26959626	-1	None	None
Y	DAZ3	ENSG00000187191	ENST00000446723	protein_coding	KNOWN	None	15965	1173	390	26909220	26959542	-1	None	None
Y	DAZ3	ENSG00000187191	ENST00000315357	protein_coding	KNOWN	None	15965	1101	366	26909222	26959540	-1	None	None
Y	DAZ3	ENSG00000187191	ENST00000400212	protein_coding	KNOWN	None	15965	1086	361	26929528	26959519	-1	None	None
Y	DAZ3	ENSG00000187191	ENST00000306737	protein_coding	KNOWN	None	15965	1014	337	26934285	26959519	-1	None	None
12	SLC48A1	ENSG00000211584	ENST00000548498	protein_coding	KNOWN	None	26035	109	35	48147699	48172954	1	None	FLJ20489, hHRG-1, HRG1
12	SLC48A1	ENSG00000211584	ENST00000552003	retained_intron	KNOWN	None	26035	None	None	48147713	48150268	1	None	FLJ20489, hHRG-1, HRG1
12	SLC48A1	ENSG00000211584	ENST00000547002	protein_coding	KNOWN	None	26035	270	89	48152361	48174090	1	None	FLJ20489, hHRG-1, HRG1
12	SLC48A1	ENSG00000211584	ENST00000549243	protein_coding	KNOWN	None	26035	49	15	48152777	48172894	1	None	FLJ20489, hHRG-1, HRG1
12	SLC48A1	ENSG00000211584	ENST00000442892	protein_coding	KNOWN	None	26035	270	89	48165370	48176534	1	None	FLJ20489, hHRG-1, HRG1
12	SLC48A1	ENSG00000211584	ENST00000442218	protein_coding	KNOWN	CCDS8755	26035	441	146	48166991	48176536	1	None	FLJ20489, hHRG-1, HRG1
12	SLC48A1	ENSG00000211584	ENST00000551301	nonsense_mediated_decay	KNOWN	None	26035	159	52	48166998	48174607	1	None	FLJ20489, hHRG-1, HRG1
12	SLC48A1	ENSG00000211584	ENST00000461620	processed_transcript	KNOWN	None	26035	None	None	48172138	48172976	1	None	FLJ20489, hHRG-1, HRG1
12	SLC48A1	ENSG00000211584	ENST00000476104	processed_transcript	KNOWN	None	26035	None	None	48172149	48172975	1	None	FLJ20489, hHRG-1, HRG1
21	CXADRP1	ENSG00000214319	ENST00000398098	processed_pseudogene	KNOWN	None	23770	None	None	15048343	15049437	1	None	CAR, CXADRP
16	PLLP	ENSG00000102934	ENST00000219207	protein_coding	KNOWN	CCDS10777	18553	549	182	57290004	57318599	-1	TM4SF11	PMLP
16	PLLP	ENSG00000102934	ENST00000569059	protein_coding	NOVEL	None	18553	375	124	57290667	57318584	-1	TM4SF11	PMLP
16	PLLP	ENSG00000102934	ENST00000564018	protein_coding	PUTATIVE	None	18553	274	90	57290893	57297283	-1	TM4SF11	PMLP
21	FEM1AP1	ENSG00000229231	ENST00000431297	processed_pseudogene	KNOWN	None	17219	None	None	15134659	15136653	1	FEM1DP	None
21	None	ENSG00000224922	ENST00000444356	lincRNA	KNOWN	None	None	None	None	15142253	15144061	1	None	None
21	TERF1P1	ENSG00000173231	ENST00000311003	processed_pseudogene	KNOWN	None	16733	None	None	15148407	15149587	1	TERF1P	None
10	LINC00948	ENSG00000227877	ENST00000430431	lincRNA	KNOWN	None	48649	None	None	61496753	61513154	-1	None	M1, MUSER1
10	LINC00948	ENSG00000227877	ENST00000414264	lincRNA	KNOWN	None	48649	None	None	61496753	61513203	-1	None	M1, MUSER1
10	LINC00948	ENSG00000227877	ENST00000594536	lincRNA	KNOWN	None	48649	None	None	61496753	61513203	-1	None	M1, MUSER1
10	LINC00948	ENSG00000227877	ENST00000598384	lincRNA	KNOWN	None	48649	None	None	61496956	61499049	-1	None	M1, MUSER1
10	LINC00948	ENSG00000227877	ENST00000600486	lincRNA	KNOWN	None	48649	None	None	61496956	61499063	-1	None	M1, MUSER1
10	LINC00948	ENSG00000227877	ENST00000602051	lincRNA	KNOWN	None	48649	None	None	61496956	61504002	-1	None	M1, MUSER1
10	LINC00948	ENSG00000227877	ENST00000599605	lincRNA	KNOWN	None	48649	None	None	61496956	61504622	-1	None	M1, MUSER1
5	SOWAHA	ENSG00000198944	ENST00000378693	protein_coding	KNOWN	CCDS43361	27033	1650	549	132149033	132152488	1	ANKRD43	None
21	FAM207CP	ENSG00000232797	ENST00000443486	processed_pseudogene	KNOWN	None	42676	None	None	15164956	15165462	1	None	None
1	RGS2	ENSG00000116741	ENST00000483295	processed_transcript	KNOWN	None	9998	None	None	192778169	192780029	1	G0S8	None
1	RGS2	ENSG00000116741	ENST00000235382	protein_coding	KNOWN	CCDS1377	9998	636	211	192778171	192781403	1	G0S8	None
1	RGS2	ENSG00000116741	ENST00000464302	processed_transcript	KNOWN	None	9998	None	None	192778172	192780369	1	G0S8	None
1	RGS2	ENSG00000116741	ENST00000487236	processed_transcript	KNOWN	None	9998	None	None	192778273	192780162	1	G0S8	None
21	GXYLT1P2	ENSG00000224860	ENST00000433312	processed_pseudogene	KNOWN	None	39677	None	None	15196727	15197956	-1	None	None
HSCHR6_MHC_SSTO	RPL13P	ENSG00000231746	ENST00000431236	processed_pseudogene	KNOWN	None	13978	None	None	28829104	28829735	1	None	BBC1p, dJ111M5.1
21	CNN2P7	ENSG00000215562	ENST00000400583	processed_pseudogene	KNOWN	None	39532	None	None	15199017	15199948	1	None	None
9	CTSLP8	ENSG00000234575	ENST00000413075	unprocessed_pseudogene	KNOWN	None	39084	None	None	90459067	90462229	1	CTSL1P8	None
21	ZNF114P1	ENSG00000234538	ENST00000453500	processed_pseudogene	KNOWN	None	23771	None	None	15211439	15211730	1	None	None
HSCHR6_MHC_SSTO	ZNF90P2	ENSG00000232997	ENST00000422651	processed_pseudogene	KNOWN	None	21687	None	None	28856683	28857757	-1	ZNF463P	dJ111M5.3
6	TCP11	ENSG00000124678	ENST00000412155	protein_coding	NOVEL	CCDS59016	11658	1398	465	35085848	35109100	-1	D6S230E	KIAA0229, FPPR
6	TCP11	ENSG00000124678	ENST00000373979	protein_coding	KNOWN	CCDS4799	11658	1326	441	35085848	35109113	-1	D6S230E	KIAA0229, FPPR
6	TCP11	ENSG00000124678	ENST00000502480	protein_coding	NOVEL	None	11658	736	244	35085849	35088822	-1	D6S230E	KIAA0229, FPPR
6	TCP11	ENSG00000124678	ENST00000504758	nonsense_mediated_decay	KNOWN	None	11658	165	54	35085849	35109030	-1	D6S230E	KIAA0229, FPPR
6	TCP11	ENSG00000124678	ENST00000505911	nonsense_mediated_decay	KNOWN	None	11658	165	54	35085849	35109041	-1	D6S230E	KIAA0229, FPPR
6	TCP11	ENSG00000124678	ENST00000455706	nonsense_mediated_decay	KNOWN	None	11658	165	54	35085849	35109126	-1	D6S230E	KIAA0229, FPPR
6	TCP11	ENSG00000124678	ENST00000311875	protein_coding	KNOWN	CCDS47413	11658	1551	516	35085849	35109424	-1	D6S230E	KIAA0229, FPPR
6	TCP11	ENSG00000124678	ENST00000444780	protein_coding	NOVEL	CCDS59018	11658	1536	511	35085851	35109116	-1	D6S230E	KIAA0229, FPPR
6	TCP11	ENSG00000124678	ENST00000373974	protein_coding	NOVEL	CCDS59017	11658	1413	470	35085912	35109148	-1	D6S230E	KIAA0229, FPPR
6	TCP11	ENSG00000124678	ENST00000512012	protein_coding	PUTATIVE	None	11658	1512	503	35086046	35108804	-1	D6S230E	KIAA0229, FPPR
6	TCP11	ENSG00000124678	ENST00000418521	protein_coding	PUTATIVE	CCDS59015	11658	1323	440	35086046	35116387	-1	D6S230E	KIAA0229, FPPR
6	TCP11	ENSG00000124678	ENST00000427376	nonsense_mediated_decay	KNOWN	None	11658	132	43	35087017	35109130	-1	D6S230E	KIAA0229, FPPR
6	TCP11	ENSG00000124678	ENST00000486638	protein_coding	PUTATIVE	None	11658	665	220	35087963	35109087	-1	D6S230E	KIAA0229, FPPR
6	TCP11	ENSG00000124678	ENST00000469514	nonsense_mediated_decay	KNOWN	None	11658	270	89	35088206	35109116	-1	D6S230E	KIAA0229, FPPR
6	TCP11	ENSG00000124678	ENST00000492680	protein_coding	KNOWN	None	11658	310	102	35089976	35109130	-1	D6S230E	KIAA0229, FPPR
6	TCP11	ENSG00000124678	ENST00000507706	protein_coding	PUTATIVE	None	11658	254	83	35090029	35109113	-1	D6S230E	KIAA0229, FPPR
6	TCP11	ENSG00000124678	ENST00000479418	nonsense_mediated_decay	KNOWN	None	11658	108	35	35090063	35109041	-1	D6S230E	KIAA0229, FPPR
6	TCP11	ENSG00000124678	ENST00000505400	protein_coding	PUTATIVE	None	11658	209	68	35090074	35109090	-1	D6S230E	KIAA0229, FPPR
6	TCP11	ENSG00000124678	ENST00000509988	nonsense_mediated_decay	KNOWN	None	11658	225	74	35090082	35109088	-1	D6S230E	KIAA0229, FPPR
6	TCP11	ENSG00000124678	ENST00000505335	nonsense_mediated_decay	KNOWN	None	11658	132	43	35090086	35109093	-1	D6S230E	KIAA0229, FPPR
6	TCP11	ENSG00000124678	ENST00000445851	processed_transcript	KNOWN	None	11658	None	None	35096135	35109090	-1	D6S230E	KIAA0229, FPPR
6	TCP11	ENSG00000124678	ENST00000510465	processed_transcript	KNOWN	None	11658	None	None	35096466	35109090	-1	D6S230E	KIAA0229, FPPR
6	TCP11	ENSG00000124678	ENST00000394696	processed_transcript	KNOWN	None	11658	None	None	35096482	35109090	-1	D6S230E	KIAA0229, FPPR
6	TCP11	ENSG00000124678	ENST00000503908	nonsense_mediated_decay	KNOWN	None	11658	243	80	35096892	35109088	-1	D6S230E	KIAA0229, FPPR
6	TCP11	ENSG00000124678	ENST00000503195	nonsense_mediated_decay	KNOWN	None	11658	126	41	35103904	35108804	-1	D6S230E	KIAA0229, FPPR
6	TCP11	ENSG00000124678	ENST00000514751	nonsense_mediated_decay	KNOWN	None	11658	165	54	35105523	35109088	-1	D6S230E	KIAA0229, FPPR
6	TCP11	ENSG00000124678	ENST00000244645	protein_coding	KNOWN	CCDS4799	11658	1326	441	35085849	35109187	-1	D6S230E	KIAA0229, FPPR
12	XPOT	ENSG00000184575	ENST00000332707	protein_coding	KNOWN	CCDS31852	12826	2889	962	64798130	64844907	1	None	XPO3
12	XPOT	ENSG00000184575	ENST00000540203	protein_coding	KNOWN	None	12826	182	59	64798826	64810516	1	None	XPO3
12	XPOT	ENSG00000184575	ENST00000400935	protein_coding	KNOWN	None	12826	605	200	64803437	64813965	1	None	XPO3
12	XPOT	ENSG00000184575	ENST00000542958	retained_intron	KNOWN	None	12826	None	None	64816960	64827214	1	None	XPO3
12	XPOT	ENSG00000184575	ENST00000538086	protein_coding	PUTATIVE	None	12826	684	227	64818484	64825459	1	None	XPO3
12	XPOT	ENSG00000184575	ENST00000541842	retained_intron	KNOWN	None	12826	None	None	64819399	64823990	1	None	XPO3
HSCHR6_MHC_SSTO	HCG14	ENSG00000237010	ENST00000412400	processed_transcript	KNOWN	None	18323	None	None	28864373	28865163	1	None	dJ111M5.4
21	CYP4F29P	ENSG00000228314	ENST00000428301	processed_transcript	KNOWN	None	2647	None	None	15215454	15220685	-1	C21orf15, CYP4F3LP	CYP4F-se4[6:7:8]
21	CYP4F29P	ENSG00000228314	ENST00000420685	transcribed_unprocessed_pseudogene	KNOWN	None	2647	None	None	15219080	15220034	-1	C21orf15, CYP4F3LP	CYP4F-se4[6:7:8]
21	CYP4F29P	ENSG00000228314	ENST00000436765	processed_transcript	KNOWN	None	2647	None	None	15219080	15220526	-1	C21orf15, CYP4F3LP	CYP4F-se4[6:7:8]
19	SLC25A41	ENSG00000181240	ENST00000597558	nonsense_mediated_decay	KNOWN	CCDS45937	28533	1113	370	6426048	6433790	-1	None	FLJ40442, MGC34725, APC4
19	SLC25A41	ENSG00000181240	ENST00000458275	nonsense_mediated_decay	KNOWN	None	28533	729	242	6426050	6433773	-1	None	FLJ40442, MGC34725, APC4
19	SLC25A41	ENSG00000181240	ENST00000321510	protein_coding	KNOWN	CCDS45937	28533	1113	370	6426050	6433773	-1	None	FLJ40442, MGC34725, APC4
22	GNAZ	ENSG00000128266	ENST00000248996	protein_coding	KNOWN	CCDS13804	4395	1068	355	23412540	23467224	1	None	None
22	GNAZ	ENSG00000128266	ENST00000492538	processed_transcript	KNOWN	None	4395	None	None	23412760	23437903	1	None	None
22	GNAZ	ENSG00000128266	ENST00000479571	processed_transcript	KNOWN	None	4395	None	None	23464565	23465529	1	None	None
9	None	ENSG00000227355	ENST00000440807	antisense	KNOWN	None	None	None	None	124137519	124214455	1	None	None
13	ATP11A	ENSG00000068650	ENST00000487903	protein_coding	KNOWN	CCDS32011	13552	3405	1134	113344643	113541482	1	None	ATPIH, ATPIS, KIAA1021
13	ATP11A	ENSG00000068650	ENST00000419448	processed_transcript	KNOWN	None	13552	None	None	113351145	113371989	1	None	ATPIH, ATPIS, KIAA1021
13	ATP11A	ENSG00000068650	ENST00000466946	processed_transcript	KNOWN	None	13552	None	None	113357601	113465013	1	None	ATPIH, ATPIS, KIAA1021
13	ATP11A	ENSG00000068650	ENST00000459908	retained_intron	KNOWN	None	13552	None	None	113439459	113515112	1	None	ATPIH, ATPIS, KIAA1021
13	ATP11A	ENSG00000068650	ENST00000418678	protein_coding	NOVEL	None	13552	2807	934	113439486	113515112	1	None	ATPIH, ATPIS, KIAA1021
13	ATP11A	ENSG00000068650	ENST00000489577	processed_transcript	KNOWN	None	13552	None	None	113490557	113510242	1	None	ATPIH, ATPIS, KIAA1021
13	ATP11A	ENSG00000068650	ENST00000471555	nonsense_mediated_decay	KNOWN	None	13552	1058	351	113496623	113540427	1	None	ATPIH, ATPIS, KIAA1021
13	ATP11A	ENSG00000068650	ENST00000459011	processed_transcript	KNOWN	None	13552	None	None	113505494	113506168	1	None	ATPIH, ATPIS, KIAA1021
13	ATP11A	ENSG00000068650	ENST00000419631	protein_coding	NOVEL	None	13552	552	183	113526082	113538272	1	None	ATPIH, ATPIS, KIAA1021
13	ATP11A	ENSG00000068650	ENST00000495930	retained_intron	KNOWN	None	13552	None	None	113527746	113530408	1	None	ATPIH, ATPIS, KIAA1021
13	ATP11A	ENSG00000068650	ENST00000493489	retained_intron	KNOWN	None	13552	None	None	113527817	113532773	1	None	ATPIH, ATPIS, KIAA1021
13	ATP11A	ENSG00000068650	ENST00000415301	protein_coding	NOVEL	None	13552	226	74	113530123	113536502	1	None	ATPIH, ATPIS, KIAA1021
13	ATP11A	ENSG00000068650	ENST00000479193	retained_intron	KNOWN	None	13552	None	None	113534615	113536461	1	None	ATPIH, ATPIS, KIAA1021
13	ATP11A	ENSG00000068650	ENST00000375630	protein_coding	KNOWN	None	13552	3576	1191	113344643	113541482	1	None	ATPIH, ATPIS, KIAA1021
13	ATP11A	ENSG00000068650	ENST00000375645	protein_coding	KNOWN	CCDS32011	13552	3405	1134	113344643	113541482	1	None	ATPIH, ATPIS, KIAA1021
13	ATP11A	ENSG00000068650	ENST00000283558	protein_coding	KNOWN	CCDS32011	13552	3405	1134	113344643	113532608	1	None	ATPIH, ATPIS, KIAA1021
15	SLC24A5	ENSG00000188467	ENST00000341459	protein_coding	KNOWN	CCDS10128	20611	1503	500	48413169	48434869	1	None	JSX, OCA6
15	SLC24A5	ENSG00000188467	ENST00000482911	protein_coding	PUTATIVE	None	20611	369	122	48413201	48416875	1	None	JSX, OCA6
15	SLC24A5	ENSG00000188467	ENST00000449382	protein_coding	NOVEL	None	20611	1323	440	48413221	48434592	1	None	JSX, OCA6
15	SLC24A5	ENSG00000188467	ENST00000463289	retained_intron	KNOWN	None	20611	None	None	48414173	48429399	1	None	JSX, OCA6
17	BCL6B	ENSG00000161940	ENST00000293805	protein_coding	KNOWN	CCDS42248	1002	1440	479	6926339	6932961	1	ZNF62	ZBTB28, BAZF
17	BCL6B	ENSG00000161940	ENST00000572216	processed_transcript	KNOWN	None	1002	None	None	6926386	6927949	1	ZNF62	ZBTB28, BAZF
17	BCL6B	ENSG00000161940	ENST00000576705	protein_coding	KNOWN	None	1002	401	132	6926421	6927623	1	ZNF62	ZBTB28, BAZF
17	BCL6B	ENSG00000161940	ENST00000573503	protein_coding	KNOWN	None	1002	334	110	6926796	6927556	1	ZNF62	ZBTB28, BAZF
17	BCL6B	ENSG00000161940	ENST00000537931	protein_coding	PUTATIVE	None	1002	408	135	6929820	6933609	1	ZNF62	ZBTB28, BAZF
17	BCL6B	ENSG00000161940	ENST00000571729	retained_intron	KNOWN	None	1002	None	None	6930110	6933357	1	ZNF62	ZBTB28, BAZF
5	MZB1	ENSG00000170476	ENST00000503481	nonsense_mediated_decay	KNOWN	None	30125	372	123	138723169	138725770	-1	None	PACAP, MGC29506, HSPC190, pERp1, MEDA-7
5	MZB1	ENSG00000170476	ENST00000417694	nonsense_mediated_decay	KNOWN	None	30125	228	75	138723175	138725602	-1	None	PACAP, MGC29506, HSPC190, pERp1, MEDA-7
5	MZB1	ENSG00000170476	ENST00000513389	nonsense_mediated_decay	KNOWN	None	30125	231	76	138723257	138725584	-1	None	PACAP, MGC29506, HSPC190, pERp1, MEDA-7
5	MZB1	ENSG00000170476	ENST00000302125	protein_coding	NOVEL	CCDS47273	30125	570	189	138723257	138725603	-1	None	PACAP, MGC29506, HSPC190, pERp1, MEDA-7
5	MZB1	ENSG00000170476	ENST00000503120	retained_intron	KNOWN	None	30125	None	None	138723258	138725572	-1	None	PACAP, MGC29506, HSPC190, pERp1, MEDA-7
5	MZB1	ENSG00000170476	ENST00000511979	retained_intron	KNOWN	None	30125	None	None	138723284	138724451	-1	None	PACAP, MGC29506, HSPC190, pERp1, MEDA-7
5	MZB1	ENSG00000170476	ENST00000503351	nonsense_mediated_decay	KNOWN	None	30125	181	59	138723474	138725537	-1	None	PACAP, MGC29506, HSPC190, pERp1, MEDA-7
5	MZB1	ENSG00000170476	ENST00000509591	retained_intron	KNOWN	None	30125	None	None	138724285	138725603	-1	None	PACAP, MGC29506, HSPC190, pERp1, MEDA-7
5	MZB1	ENSG00000170476	ENST00000412103	protein_coding	KNOWN	None	30125	294	97	138723258	138725586	-1	None	PACAP, MGC29506, HSPC190, pERp1, MEDA-7
5	MZB1	ENSG00000170476	ENST00000457570	protein_coding	KNOWN	None	30125	228	75	138724306	138725586	-1	None	PACAP, MGC29506, HSPC190, pERp1, MEDA-7
21	SNX18P13	ENSG00000230965	ENST00000412442	processed_pseudogene	KNOWN	None	39621	None	None	15278281	15278809	-1	None	None
5	SHROOM1	ENSG00000164403	ENST00000378679	protein_coding	KNOWN	CCDS54902	24084	2559	852	132157833	132166590	-1	None	APXL2, KIAA1960
5	SHROOM1	ENSG00000164403	ENST00000319854	protein_coding	KNOWN	CCDS4161	24084	2544	847	132158012	132162002	-1	None	APXL2, KIAA1960
5	SHROOM1	ENSG00000164403	ENST00000378676	protein_coding	NOVEL	None	24084	2352	783	132158488	132161832	-1	None	APXL2, KIAA1960
5	SHROOM1	ENSG00000164403	ENST00000488072	processed_transcript	PUTATIVE	None	24084	None	None	132158975	132159497	-1	None	APXL2, KIAA1960
5	SHROOM1	ENSG00000164403	ENST00000495680	processed_transcript	PUTATIVE	None	24084	None	None	132159731	132160308	-1	None	APXL2, KIAA1960
5	SHROOM1	ENSG00000164403	ENST00000606676	retained_intron	KNOWN	None	24084	None	None	132160624	132160974	-1	None	APXL2, KIAA1960
5	SHROOM1	ENSG00000164403	ENST00000440118	protein_coding	KNOWN	None	24084	972	323	132160861	132166351	-1	None	APXL2, KIAA1960
1	TMEM234	ENSG00000160055	ENST00000466796	retained_intron	KNOWN	None	28837	None	None	32680073	32686797	-1	C1orf91	RP4-622L5, dJ622L5.7, FLJ90779
1	TMEM234	ENSG00000160055	ENST00000495091	processed_transcript	PUTATIVE	None	28837	None	None	32680078	32681396	-1	C1orf91	RP4-622L5, dJ622L5.7, FLJ90779
1	TMEM234	ENSG00000160055	ENST00000491434	nonsense_mediated_decay	KNOWN	None	28837	291	96	32680078	32687934	-1	C1orf91	RP4-622L5, dJ622L5.7, FLJ90779
1	TMEM234	ENSG00000160055	ENST00000489170	nonsense_mediated_decay	KNOWN	None	28837	495	164	32680078	32687949	-1	C1orf91	RP4-622L5, dJ622L5.7, FLJ90779
1	TMEM234	ENSG00000160055	ENST00000461402	nonsense_mediated_decay	KNOWN	None	28837	495	164	32680079	32687948	-1	C1orf91	RP4-622L5, dJ622L5.7, FLJ90779
1	TMEM234	ENSG00000160055	ENST00000483001	nonsense_mediated_decay	KNOWN	None	28837	495	164	32681448	32687936	-1	C1orf91	RP4-622L5, dJ622L5.7, FLJ90779
1	TMEM234	ENSG00000160055	ENST00000309777	protein_coding	KNOWN	CCDS356	28837	423	140	32681798	32687926	-1	C1orf91	RP4-622L5, dJ622L5.7, FLJ90779
1	TMEM234	ENSG00000160055	ENST00000373593	protein_coding	NOVEL	None	28837	543	180	32681798	32687944	-1	C1orf91	RP4-622L5, dJ622L5.7, FLJ90779
1	TMEM234	ENSG00000160055	ENST00000344461	protein_coding	PUTATIVE	None	28837	495	164	32681801	32687939	-1	C1orf91	RP4-622L5, dJ622L5.7, FLJ90779
1	TMEM234	ENSG00000160055	ENST00000484490	nonsense_mediated_decay	KNOWN	None	28837	204	67	32681958	32687960	-1	C1orf91	RP4-622L5, dJ622L5.7, FLJ90779
1	TMEM234	ENSG00000160055	ENST00000485689	processed_transcript	PUTATIVE	None	28837	None	None	32682190	32683028	-1	C1orf91	RP4-622L5, dJ622L5.7, FLJ90779
1	TMEM234	ENSG00000160055	ENST00000487174	retained_intron	KNOWN	None	28837	None	None	32682331	32687920	-1	C1orf91	RP4-622L5, dJ622L5.7, FLJ90779
1	TMEM234	ENSG00000160055	ENST00000545122	protein_coding	KNOWN	None	28837	486	161	32681697	32687972	-1	C1orf91	RP4-622L5, dJ622L5.7, FLJ90779
19	ZNF431	ENSG00000196705	ENST00000600692	protein_coding	PUTATIVE	None	20809	435	144	21324827	21366895	1	None	KIAA1969
19	ZNF431	ENSG00000196705	ENST00000599296	protein_coding	PUTATIVE	None	20809	369	122	21324838	21365463	1	None	KIAA1969
19	ZNF431	ENSG00000196705	ENST00000594425	protein_coding	PUTATIVE	None	20809	123	40	21324840	21373034	1	None	KIAA1969
19	ZNF431	ENSG00000196705	ENST00000311048	protein_coding	KNOWN	CCDS32979	20809	1731	576	21324843	21368805	1	None	KIAA1969
19	ZNF431	ENSG00000196705	ENST00000598331	protein_coding	NOVEL	None	20809	975	324	21324880	21365961	1	None	KIAA1969
19	ZNF431	ENSG00000196705	ENST00000593426	processed_transcript	PUTATIVE	None	20809	None	None	21367295	21373029	1	None	KIAA1969
19	ZNF431	ENSG00000196705	ENST00000594821	processed_transcript	PUTATIVE	None	20809	None	None	21368747	21372801	1	None	KIAA1969
10	ZNF511	ENSG00000198546	ENST00000361518	protein_coding	KNOWN	CCDS7677	28445	759	252	135121979	135126662	1	None	MGC30006
10	ZNF511	ENSG00000198546	ENST00000359035	protein_coding	KNOWN	None	28445	789	262	135122445	135126666	1	None	MGC30006
10	ZNF511	ENSG00000198546	ENST00000482153	retained_intron	KNOWN	None	28445	None	None	135122453	135124050	1	None	MGC30006
10	ZNF511	ENSG00000198546	ENST00000463816	processed_transcript	KNOWN	None	28445	None	None	135122944	135126621	1	None	MGC30006
10	ZNF511	ENSG00000198546	ENST00000368554	protein_coding	KNOWN	None	28445	933	310	135122914	135166033	1	None	MGC30006
HSCHR6_MHC_DBB	DOM3Z	ENSG00000236765	ENST00000466457	processed_transcript	KNOWN	None	2992	None	None	31919773	31920820	-1	DOM3Z	None
HSCHR6_MHC_DBB	DOM3Z	ENSG00000236765	ENST00000463768	retained_intron	KNOWN	None	2992	None	None	31919773	31921646	-1	DOM3Z	None
HSCHR6_MHC_DBB	DOM3Z	ENSG00000236765	ENST00000497643	retained_intron	KNOWN	None	2992	None	None	31919773	31921648	-1	DOM3Z	None
HSCHR6_MHC_DBB	DOM3Z	ENSG00000236765	ENST00000458308	protein_coding	KNOWN	None	2992	1191	396	31919773	31921934	-1	DOM3Z	None
HSCHR6_MHC_DBB	DOM3Z	ENSG00000236765	ENST00000487722	retained_intron	KNOWN	None	2992	None	None	31919773	31922058	-1	DOM3Z	None
HSCHR6_MHC_DBB	DOM3Z	ENSG00000236765	ENST00000432110	protein_coding	KNOWN	None	2992	1191	396	31919773	31922099	-1	DOM3Z	None
HSCHR6_MHC_DBB	DOM3Z	ENSG00000236765	ENST00000477946	retained_intron	KNOWN	None	2992	None	None	31919773	31922172	-1	DOM3Z	None
HSCHR6_MHC_DBB	DOM3Z	ENSG00000236765	ENST00000481778	retained_intron	KNOWN	None	2992	None	None	31919773	31922201	-1	DOM3Z	None
HSCHR6_MHC_DBB	DOM3Z	ENSG00000236765	ENST00000488732	retained_intron	KNOWN	None	2992	None	None	31919773	31922215	-1	DOM3Z	None
HSCHR6_MHC_DBB	DOM3Z	ENSG00000236765	ENST00000414092	protein_coding	KNOWN	None	2992	1191	396	31919773	31922255	-1	DOM3Z	None
HSCHR6_MHC_DBB	DOM3Z	ENSG00000236765	ENST00000496506	processed_transcript	KNOWN	None	2992	None	None	31920347	31922099	-1	DOM3Z	None
HSCHR6_MHC_DBB	DOM3Z	ENSG00000236765	ENST00000468012	processed_transcript	KNOWN	None	2992	None	None	31920574	31922061	-1	DOM3Z	None
HSCHR6_MHC_DBB	DOM3Z	ENSG00000236765	ENST00000475345	processed_transcript	KNOWN	None	2992	None	None	31920606	31921952	-1	DOM3Z	None
HSCHR6_MHC_DBB	DOM3Z	ENSG00000236765	ENST00000473424	processed_transcript	KNOWN	None	2992	None	None	31920865	31921972	-1	DOM3Z	None
21	ANKRD20A11P	ENSG00000215559	ENST00000442192	processed_transcript	KNOWN	None	42024	None	None	15281895	15307976	-1	C21orf81	None
21	ANKRD20A11P	ENSG00000215559	ENST00000451663	transcribed_unprocessed_pseudogene	KNOWN	None	42024	None	None	15281895	15352232	-1	C21orf81	None
21	ANKRD20A11P	ENSG00000215559	ENST00000428576	processed_transcript	KNOWN	None	42024	None	None	15310267	15342324	-1	C21orf81	None
21	ANKRD20A11P	ENSG00000215559	ENST00000432875	processed_transcript	KNOWN	None	42024	None	None	15311695	15335106	-1	C21orf81	None
21	ANKRD20A11P	ENSG00000215559	ENST00000429521	processed_transcript	KNOWN	None	42024	None	None	15316065	15344450	-1	C21orf81	None
21	ANKRD20A11P	ENSG00000215559	ENST00000344693	processed_transcript	KNOWN	None	42024	None	None	15316090	15352758	-1	C21orf81	None
16	CCL22	ENSG00000102962	ENST00000219235	protein_coding	KNOWN	CCDS10778	10621	282	93	57392684	57400102	1	SCYA22	MDC, STCP-1, ABCD-1, DC/B-CK, A-152E5.1, MGC34554
2	ARL6IP6	ENSG00000177917	ENST00000495469	processed_transcript	KNOWN	None	24048	None	None	153574407	153617278	1	None	MGC33864
2	ARL6IP6	ENSG00000177917	ENST00000326446	protein_coding	KNOWN	CCDS2197	24048	681	226	153574428	153617767	1	None	MGC33864
2	ARL6IP6	ENSG00000177917	ENST00000455875	nonsense_mediated_decay	KNOWN	None	24048	201	66	153575433	153616396	1	None	MGC33864
2	ARL6IP6	ENSG00000177917	ENST00000425034	nonsense_mediated_decay	KNOWN	None	24048	116	37	153575473	153616365	1	None	MGC33864
2	ARL6IP6	ENSG00000177917	ENST00000463690	processed_transcript	PUTATIVE	None	24048	None	None	153576681	153617109	1	None	MGC33864
17	ST6GALNAC2	ENSG00000070731	ENST00000589997	retained_intron	KNOWN	None	10867	None	None	74559792	74566626	-1	SIAT7, SIAT7B, SIATL1	ST6GalNAII, STHM
17	ST6GALNAC2	ENSG00000070731	ENST00000225276	protein_coding	KNOWN	CCDS11747	10867	1125	374	74561461	74582210	-1	SIAT7, SIAT7B, SIATL1	ST6GalNAII, STHM
17	ST6GALNAC2	ENSG00000070731	ENST00000585390	nonsense_mediated_decay	KNOWN	None	10867	115	37	74562188	74566715	-1	SIAT7, SIAT7B, SIATL1	ST6GalNAII, STHM
17	ST6GALNAC2	ENSG00000070731	ENST00000588920	protein_coding	NOVEL	None	10867	637	211	74562215	74569431	-1	SIAT7, SIAT7B, SIATL1	ST6GalNAII, STHM
17	ST6GALNAC2	ENSG00000070731	ENST00000592979	retained_intron	KNOWN	None	10867	None	None	74564799	74567224	-1	SIAT7, SIAT7B, SIATL1	ST6GalNAII, STHM
17	ST6GALNAC2	ENSG00000070731	ENST00000588120	nonsense_mediated_decay	KNOWN	None	10867	255	84	74566661	74581938	-1	SIAT7, SIAT7B, SIATL1	ST6GalNAII, STHM
17	ST6GALNAC2	ENSG00000070731	ENST00000586520	processed_transcript	KNOWN	None	10867	None	None	74566980	74581939	-1	SIAT7, SIAT7B, SIATL1	ST6GalNAII, STHM
17	ST6GALNAC2	ENSG00000070731	ENST00000588005	processed_transcript	KNOWN	None	10867	None	None	74566992	74583038	-1	SIAT7, SIAT7B, SIATL1	ST6GalNAII, STHM
17	ST6GALNAC2	ENSG00000070731	ENST00000585736	nonsense_mediated_decay	KNOWN	None	10867	225	74	74569424	74582112	-1	SIAT7, SIAT7B, SIATL1	ST6GalNAII, STHM
17	ST6GALNAC2	ENSG00000070731	ENST00000592508	retained_intron	KNOWN	None	10867	None	None	74570563	74575065	-1	SIAT7, SIAT7B, SIATL1	ST6GalNAII, STHM
5	ATOX1	ENSG00000177556	ENST00000521264	protein_coding	PUTATIVE	None	798	222	73	151121877	151131987	-1	None	HAH1
5	ATOX1	ENSG00000177556	ENST00000522145	retained_intron	KNOWN	None	798	None	None	151122383	151126124	-1	None	HAH1
5	ATOX1	ENSG00000177556	ENST00000522314	protein_coding	PUTATIVE	None	798	180	59	151122383	151131679	-1	None	HAH1
5	ATOX1	ENSG00000177556	ENST00000520382	protein_coding	PUTATIVE	None	798	180	59	151122383	151133456	-1	None	HAH1
5	ATOX1	ENSG00000177556	ENST00000524142	protein_coding	KNOWN	CCDS47317	798	207	68	151122383	151152093	-1	None	HAH1
5	ATOX1	ENSG00000177556	ENST00000522710	protein_coding	KNOWN	CCDS47317	798	207	68	151125607	151138217	-1	None	HAH1
5	ATOX1	ENSG00000177556	ENST00000313115	protein_coding	KNOWN	CCDS47317	798	207	68	151122384	151138210	-1	None	HAH1
HSCHR6_MHC_MCF	C6orf136	ENSG00000224120	ENST00000481824	processed_transcript	KNOWN	None	21301	None	None	30693277	30697523	1	None	Em:AB023049.8
HSCHR6_MHC_MCF	C6orf136	ENSG00000224120	ENST00000472341	processed_transcript	KNOWN	None	21301	None	None	30693293	30699347	1	None	Em:AB023049.8
HSCHR6_MHC_MCF	C6orf136	ENSG00000224120	ENST00000430141	protein_coding	KNOWN	None	21301	948	315	30693311	30699347	1	None	Em:AB023049.8
HSCHR6_MHC_MCF	C6orf136	ENSG00000224120	ENST00000464599	processed_transcript	KNOWN	None	21301	None	None	30693364	30698951	1	None	Em:AB023049.8
HSCHR6_MHC_MCF	C6orf136	ENSG00000224120	ENST00000455682	protein_coding	KNOWN	None	21301	546	181	30693402	30699347	1	None	Em:AB023049.8
HSCHR6_MHC_MCF	C6orf136	ENSG00000224120	ENST00000471366	processed_transcript	KNOWN	None	21301	None	None	30693424	30696151	1	None	Em:AB023049.8
HSCHR6_MHC_MCF	C6orf136	ENSG00000224120	ENST00000442792	protein_coding	KNOWN	None	21301	1302	433	30693659	30699347	1	None	Em:AB023049.8
HSCHR6_MHC_MCF	C6orf136	ENSG00000224120	ENST00000469497	retained_intron	KNOWN	None	21301	None	None	30697292	30699347	1	None	Em:AB023049.8
HSCHR6_MHC_MCF	C6orf136	ENSG00000224120	ENST00000549800	protein_coding	KNOWN	None	21301	1491	496	30693277	30699447	1	None	Em:AB023049.8
17	CRK	ENSG00000167193	ENST00000398970	protein_coding	KNOWN	CCDS45561	2362	615	204	1323983	1359517	-1	None	None
17	CRK	ENSG00000167193	ENST00000300574	protein_coding	KNOWN	CCDS11002	2362	915	304	1323983	1359552	-1	None	None
17	CRK	ENSG00000167193	ENST00000574295	protein_coding	PUTATIVE	None	2362	672	223	1325520	1359443	-1	None	None
17	CRK	ENSG00000167193	ENST00000572145	processed_transcript	KNOWN	None	2362	None	None	1326691	1366456	-1	None	None
9	GGTA1P	ENSG00000204136	ENST00000481534	processed_transcript	KNOWN	None	4253	None	None	124207269	124262036	-1	GLYT2, GGTA, GGTA1	None
9	GGTA1P	ENSG00000204136	ENST00000495328	processed_transcript	KNOWN	None	4253	None	None	124207269	124262036	-1	GLYT2, GGTA, GGTA1	None
9	GGTA1P	ENSG00000204136	ENST00000488429	unitary_pseudogene	KNOWN	None	4253	None	None	124209189	124230200	-1	GLYT2, GGTA, GGTA1	None
9	GGTA1P	ENSG00000204136	ENST00000481799	processed_transcript	KNOWN	None	4253	None	None	124217318	124262306	-1	GLYT2, GGTA, GGTA1	None
9	GGTA1P	ENSG00000204136	ENST00000373793	processed_transcript	KNOWN	None	4253	None	None	124217319	124262095	-1	GLYT2, GGTA, GGTA1	None
9	GGTA1P	ENSG00000204136	ENST00000522031	unitary_pseudogene	KNOWN	None	4253	None	None	124217319	124230200	-1	GLYT2, GGTA, GGTA1	None
2	RPRM	ENSG00000177519	ENST00000325926	protein_coding	KNOWN	CCDS2198	24201	330	109	154333852	154335322	-1	None	FLJ90327, REPRIMO
22	SLC25A18	ENSG00000182902	ENST00000327451	protein_coding	KNOWN	CCDS13744	10988	948	315	18043139	18073647	1	None	None
22	SLC25A18	ENSG00000182902	ENST00000399813	protein_coding	KNOWN	CCDS13744	10988	948	315	18043150	18073647	1	None	None
22	SLC25A18	ENSG00000182902	ENST00000496051	processed_transcript	PUTATIVE	None	10988	None	None	18043164	18050321	1	None	None
22	SLC25A18	ENSG00000182902	ENST00000467228	retained_intron	KNOWN	None	10988	None	None	18043289	18064974	1	None	None
22	SLC25A18	ENSG00000182902	ENST00000497401	processed_transcript	PUTATIVE	None	10988	None	None	18049766	18066250	1	None	None
22	SLC25A18	ENSG00000182902	ENST00000469889	processed_transcript	PUTATIVE	None	10988	None	None	18049772	18050458	1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000266870	ENST00000584269	snRNA	NOVEL	None	None	None	None	28883478	28883577	1	None	None
22	RAB36	ENSG00000100228	ENST00000263116	protein_coding	KNOWN	CCDS13805	9775	1002	333	23487513	23506537	1	None	None
22	RAB36	ENSG00000100228	ENST00000341989	protein_coding	KNOWN	None	9775	936	311	23487553	23503751	1	None	None
22	RAB36	ENSG00000100228	ENST00000420895	protein_coding	PUTATIVE	None	9775	397	131	23492300	23498498	1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000263430	ENST00000581222	misc_RNA	NOVEL	None	None	None	None	28894771	28895052	1	None	None
11	IPO7	ENSG00000205339	ENST00000379719	protein_coding	KNOWN	CCDS31425	9852	3117	1038	9406169	9469673	1	RANBP7	Imp7
11	IPO7	ENSG00000205339	ENST00000533233	nonsense_mediated_decay	KNOWN	None	9852	195	64	9406199	9431579	1	RANBP7	Imp7
11	IPO7	ENSG00000205339	ENST00000527431	protein_coding	PUTATIVE	None	9852	392	129	9406200	9435900	1	RANBP7	Imp7
11	IPO7	ENSG00000205339	ENST00000533680	processed_transcript	PUTATIVE	None	9852	None	None	9424281	9425087	1	RANBP7	Imp7
11	IPO7	ENSG00000205339	ENST00000528833	retained_intron	KNOWN	None	9852	None	None	9431616	9436138	1	RANBP7	Imp7
11	IPO7	ENSG00000205339	ENST00000531235	retained_intron	KNOWN	None	9852	None	None	9441826	9442216	1	RANBP7	Imp7
11	IPO7	ENSG00000205339	ENST00000530037	retained_intron	KNOWN	None	9852	None	None	9445333	9446871	1	RANBP7	Imp7
HSCHR6_MHC_SSTO	KRT18P1	ENSG00000228990	ENST00000454169	processed_pseudogene	KNOWN	None	6434	None	None	28936955	28938285	-1	None	dJ25J6.3
7	PTCD1	ENSG00000106246	ENST00000292478	protein_coding	KNOWN	CCDS34691	22198	2103	700	99014362	99036539	-1	None	KIAA0632
7	PTCD1	ENSG00000106246	ENST00000485746	processed_transcript	KNOWN	None	22198	None	None	99026721	99032642	-1	None	KIAA0632
7	PTCD1	ENSG00000106246	ENST00000430982	protein_coding	KNOWN	None	22198	492	163	99031003	99063786	-1	None	KIAA0632
7	PTCD1	ENSG00000106246	ENST00000430029	protein_coding	KNOWN	None	22198	433	143	99032433	99036270	-1	None	KIAA0632
7	PTCD1	ENSG00000106246	ENST00000419981	protein_coding	KNOWN	None	22198	318	105	99032548	99036378	-1	None	KIAA0632
7	PTCD1	ENSG00000106246	ENST00000437572	protein_coding	KNOWN	None	22198	212	69	99032654	99063820	-1	None	KIAA0632
7	PTCD1	ENSG00000106246	ENST00000555673	protein_coding	KNOWN	CCDS56496	22198	2250	749	99017372	99063787	-1	None	KIAA0632
HSCHR6_MHC_SSTO	None	ENSG00000266191	ENST00000584690	misc_RNA	NOVEL	None	None	None	None	28945366	28945661	1	None	None
HSCHR6_MHC_SSTO	HCG15	ENSG00000237898	ENST00000458724	processed_transcript	KNOWN	None	18361	None	None	28954099	28955380	1	None	dJ25J6.6
3	GLYCTK	ENSG00000168237	ENST00000461183	protein_coding	PUTATIVE	None	24247	852	283	52321105	52327182	1	None	HBEBP4, HBEBP2
3	GLYCTK	ENSG00000168237	ENST00000473032	protein_coding	KNOWN	None	24247	618	205	52321836	52327485	1	None	HBEBP4, HBEBP2
3	GLYCTK	ENSG00000168237	ENST00000486393	nonsense_mediated_decay	KNOWN	None	24247	639	212	52321836	52327491	1	None	HBEBP4, HBEBP2
3	GLYCTK	ENSG00000168237	ENST00000471180	protein_coding	KNOWN	None	24247	723	240	52321851	52327487	1	None	HBEBP4, HBEBP2
3	GLYCTK	ENSG00000168237	ENST00000436784	protein_coding	KNOWN	CCDS2852	24247	1572	523	52321872	52327492	1	None	HBEBP4, HBEBP2
3	GLYCTK	ENSG00000168237	ENST00000473583	retained_intron	KNOWN	None	24247	None	None	52324090	52326498	1	None	HBEBP4, HBEBP2
3	GLYCTK	ENSG00000168237	ENST00000477382	protein_coding	KNOWN	CCDS46841	24247	705	234	52324330	52327021	1	None	HBEBP4, HBEBP2
3	GLYCTK	ENSG00000168237	ENST00000489173	retained_intron	KNOWN	None	24247	None	None	52324700	52327491	1	None	HBEBP4, HBEBP2
3	GLYCTK	ENSG00000168237	ENST00000305690	protein_coding	KNOWN	None	24247	1104	367	52321836	52327150	1	None	HBEBP4, HBEBP2
3	GLYCTK	ENSG00000168237	ENST00000354773	protein_coding	KNOWN	CCDS46841	24247	705	234	52321836	52329272	1	None	HBEBP4, HBEBP2
HSCHR6_MHC_SSTO	HCG16	ENSG00000241124	ENST00000428511	processed_transcript	KNOWN	None	20424	None	None	28954696	28956435	1	None	dJ25J6.7
HSCHR6_MHC_SSTO	OR2AD1P	ENSG00000233650	ENST00000419907	unprocessed_pseudogene	KNOWN	None	14749	None	None	28994479	28995406	-1	None	OR2AD1, hs6M1-8P
HSCHR6_MHC_MANN	None	ENSG00000257544	ENST00000551289	protein_coding	NOVEL	None	None	99	32	33199096	33201475	-1	None	None
1	EIF3I	ENSG00000084623	ENST00000355082	protein_coding	KNOWN	None	3272	375	124	32687529	32691896	1	EIF3S2	TRIP-1, eIF3-beta, eIF3-p36, eIF3i
1	EIF3I	ENSG00000084623	ENST00000373586	protein_coding	KNOWN	CCDS357	3272	978	325	32687971	32697205	1	EIF3S2	TRIP-1, eIF3-beta, eIF3-p36, eIF3i
1	EIF3I	ENSG00000084623	ENST00000489353	processed_transcript	KNOWN	None	3272	None	None	32688008	32692073	1	EIF3S2	TRIP-1, eIF3-beta, eIF3-p36, eIF3i
1	EIF3I	ENSG00000084623	ENST00000471486	processed_transcript	KNOWN	None	3272	None	None	32688038	32694415	1	EIF3S2	TRIP-1, eIF3-beta, eIF3-p36, eIF3i
1	EIF3I	ENSG00000084623	ENST00000483517	processed_transcript	KNOWN	None	3272	None	None	32688041	32694809	1	EIF3S2	TRIP-1, eIF3-beta, eIF3-p36, eIF3i
1	EIF3I	ENSG00000084623	ENST00000474371	processed_transcript	KNOWN	None	3272	None	None	32688146	32696655	1	EIF3S2	TRIP-1, eIF3-beta, eIF3-p36, eIF3i
16	CES3	ENSG00000172828	ENST00000303334	protein_coding	KNOWN	CCDS10826	1865	1716	571	66995140	67008999	1	None	FLJ21736, ES31
16	CES3	ENSG00000172828	ENST00000394037	protein_coding	NOVEL	CCDS54022	1865	1707	568	66995148	67008999	1	None	FLJ21736, ES31
16	CES3	ENSG00000172828	ENST00000566453	nonsense_mediated_decay	KNOWN	None	1865	123	40	66995161	66998629	1	None	FLJ21736, ES31
16	CES3	ENSG00000172828	ENST00000566746	retained_intron	KNOWN	None	1865	None	None	66995169	66997651	1	None	FLJ21736, ES31
16	CES3	ENSG00000172828	ENST00000568118	retained_intron	KNOWN	None	1865	None	None	66995193	66997515	1	None	FLJ21736, ES31
16	CES3	ENSG00000172828	ENST00000570236	nonsense_mediated_decay	KNOWN	None	1865	1140	379	66995206	67007286	1	None	FLJ21736, ES31
16	CES3	ENSG00000172828	ENST00000564715	retained_intron	KNOWN	None	1865	None	None	66998336	67000667	1	None	FLJ21736, ES31
16	CES3	ENSG00000172828	ENST00000543856	protein_coding	NOVEL	CCDS54023	1865	633	210	67001378	67009051	1	None	FLJ21736, ES31
HSCHR6_MHC_SSTO	OR2P1P	ENSG00000229100	ENST00000427909	unprocessed_pseudogene	KNOWN	None	8272	None	None	29039627	29040402	-1	None	hs6M1-26
15	MYEF2	ENSG00000104177	ENST00000324324	protein_coding	KNOWN	CCDS32230	17940	1803	600	48431625	48470714	-1	None	MEF-2, FLJ11213, KIAA1341, HsT18564
15	MYEF2	ENSG00000104177	ENST00000558289	retained_intron	KNOWN	None	17940	None	None	48431629	48442183	-1	None	MEF-2, FLJ11213, KIAA1341, HsT18564
15	MYEF2	ENSG00000104177	ENST00000560530	retained_intron	KNOWN	None	17940	None	None	48433993	48444471	-1	None	MEF-2, FLJ11213, KIAA1341, HsT18564
15	MYEF2	ENSG00000104177	ENST00000267836	protein_coding	KNOWN	None	17940	1731	576	48433994	48470550	-1	None	MEF-2, FLJ11213, KIAA1341, HsT18564
15	MYEF2	ENSG00000104177	ENST00000560172	protein_coding	KNOWN	None	17940	380	125	48433995	48441523	-1	None	MEF-2, FLJ11213, KIAA1341, HsT18564
15	MYEF2	ENSG00000104177	ENST00000559057	retained_intron	KNOWN	None	17940	None	None	48434863	48441510	-1	None	MEF-2, FLJ11213, KIAA1341, HsT18564
15	MYEF2	ENSG00000104177	ENST00000558395	protein_coding	NOVEL	None	17940	868	288	48435258	48451867	-1	None	MEF-2, FLJ11213, KIAA1341, HsT18564
15	MYEF2	ENSG00000104177	ENST00000560513	retained_intron	KNOWN	None	17940	None	None	48441394	48446273	-1	None	MEF-2, FLJ11213, KIAA1341, HsT18564
15	MYEF2	ENSG00000104177	ENST00000561301	retained_intron	KNOWN	None	17940	None	None	48444314	48451118	-1	None	MEF-2, FLJ11213, KIAA1341, HsT18564
15	MYEF2	ENSG00000104177	ENST00000561351	nonsense_mediated_decay	KNOWN	None	17940	387	128	48444504	48470513	-1	None	MEF-2, FLJ11213, KIAA1341, HsT18564
15	MYEF2	ENSG00000104177	ENST00000557868	processed_transcript	KNOWN	None	17940	None	None	48449333	48451117	-1	None	MEF-2, FLJ11213, KIAA1341, HsT18564
15	MYEF2	ENSG00000104177	ENST00000559862	processed_transcript	PUTATIVE	None	17940	None	None	48451793	48470488	-1	None	MEF-2, FLJ11213, KIAA1341, HsT18564
15	MYEF2	ENSG00000104177	ENST00000560157	processed_transcript	KNOWN	None	17940	None	None	48454892	48462107	-1	None	MEF-2, FLJ11213, KIAA1341, HsT18564
15	MYEF2	ENSG00000104177	ENST00000561151	nonsense_mediated_decay	KNOWN	None	17940	387	128	48454916	48470523	-1	None	MEF-2, FLJ11213, KIAA1341, HsT18564
HSCHR6_MHC_SSTO	None	ENSG00000231592	ENST00000426795	processed_pseudogene	NOVEL	None	None	None	None	29044376	29044971	-1	None	None
HSCHR6_MHC_SSTO	OR2J1	ENSG00000235632	ENST00000446088	unprocessed_pseudogene	KNOWN	None	8259	None	None	29068753	29069691	1	OR2J1P	OR6-5, hs6M1-4, dJ80I19.2
10	ARHGAP12	ENSG00000165322	ENST00000311380	protein_coding	KNOWN	CCDS59214	16348	2385	794	32094365	32197802	-1	None	FLJ20737, FLJ10971, FLJ21785
10	ARHGAP12	ENSG00000165322	ENST00000375250	protein_coding	KNOWN	CCDS59215	16348	2451	816	32094365	32217742	-1	None	FLJ20737, FLJ10971, FLJ21785
10	ARHGAP12	ENSG00000165322	ENST00000492028	processed_transcript	KNOWN	None	16348	None	None	32094642	32115902	-1	None	FLJ20737, FLJ10971, FLJ21785
10	ARHGAP12	ENSG00000165322	ENST00000497085	processed_transcript	KNOWN	None	16348	None	None	32095219	32097479	-1	None	FLJ20737, FLJ10971, FLJ21785
10	ARHGAP12	ENSG00000165322	ENST00000493008	processed_transcript	KNOWN	None	16348	None	None	32095222	32098613	-1	None	FLJ20737, FLJ10971, FLJ21785
10	ARHGAP12	ENSG00000165322	ENST00000344936	protein_coding	KNOWN	CCDS7170	16348	2541	846	32095234	32217735	-1	None	FLJ20737, FLJ10971, FLJ21785
10	ARHGAP12	ENSG00000165322	ENST00000497103	processed_transcript	KNOWN	None	16348	None	None	32101564	32132484	-1	None	FLJ20737, FLJ10971, FLJ21785
10	ARHGAP12	ENSG00000165322	ENST00000454919	protein_coding	KNOWN	None	16348	586	194	32109372	32143108	-1	None	FLJ20737, FLJ10971, FLJ21785
10	ARHGAP12	ENSG00000165322	ENST00000396144	protein_coding	KNOWN	CCDS59216	16348	2526	841	32095239	32217728	-1	None	FLJ20737, FLJ10971, FLJ21785
10	ARHGAP12	ENSG00000165322	ENST00000375245	protein_coding	KNOWN	CCDS59214	16348	2385	794	32095239	32217728	-1	None	FLJ20737, FLJ10971, FLJ21785
17	ST6GALNAC1	ENSG00000070526	ENST00000592042	nonsense_mediated_decay	KNOWN	None	23614	192	63	74620843	74639868	-1	SIAT7A	ST6GalNAcI
17	ST6GALNAC1	ENSG00000070526	ENST00000359088	nonsense_mediated_decay	KNOWN	None	23614	1416	471	74620845	74639775	-1	SIAT7A	ST6GalNAcI
17	ST6GALNAC1	ENSG00000070526	ENST00000156626	protein_coding	KNOWN	CCDS11748	23614	1803	600	74620845	74639920	-1	SIAT7A	ST6GalNAcI
17	ST6GALNAC1	ENSG00000070526	ENST00000585633	nonsense_mediated_decay	KNOWN	None	23614	179	58	74621207	74622473	-1	SIAT7A	ST6GalNAcI
17	ST6GALNAC1	ENSG00000070526	ENST00000588375	retained_intron	KNOWN	None	23614	None	None	74621730	74623194	-1	SIAT7A	ST6GalNAcI
17	ST6GALNAC1	ENSG00000070526	ENST00000590784	protein_coding	NOVEL	None	23614	458	151	74621932	74623249	-1	SIAT7A	ST6GalNAcI
17	ST6GALNAC1	ENSG00000070526	ENST00000589004	processed_transcript	KNOWN	None	23614	None	None	74622088	74625316	-1	SIAT7A	ST6GalNAcI
17	ST6GALNAC1	ENSG00000070526	ENST00000590878	processed_transcript	KNOWN	None	23614	None	None	74623180	74639856	-1	SIAT7A	ST6GalNAcI
17	ST6GALNAC1	ENSG00000070526	ENST00000589813	nonsense_mediated_decay	KNOWN	None	23614	144	47	74625477	74639742	-1	SIAT7A	ST6GalNAcI
17	ST6GALNAC1	ENSG00000070526	ENST00000590915	processed_transcript	KNOWN	None	23614	None	None	74629677	74639839	-1	SIAT7A	ST6GalNAcI
17	ST6GALNAC1	ENSG00000070526	ENST00000589992	protein_coding	PUTATIVE	None	23614	192	63	74633553	74639742	-1	SIAT7A	ST6GalNAcI
6	SOX4	ENSG00000124766	ENST00000244745	protein_coding	KNOWN	CCDS4547	11200	1425	474	21593972	21598847	1	None	None
6	SOX4	ENSG00000124766	ENST00000543472	protein_coding	KNOWN	CCDS4547	11200	1425	474	21594071	21596233	1	None	None
2	GALNT13	ENSG00000144278	ENST00000392825	protein_coding	KNOWN	CCDS2199	23242	1671	556	154728426	155310361	1	None	KIAA1918, GalNAc-T13
2	GALNT13	ENSG00000144278	ENST00000434213	protein_coding	KNOWN	None	23242	58	18	154728466	154801068	1	None	KIAA1918, GalNAc-T13
2	GALNT13	ENSG00000144278	ENST00000409237	protein_coding	KNOWN	None	23242	1686	561	154801011	155307815	1	None	KIAA1918, GalNAc-T13
2	GALNT13	ENSG00000144278	ENST00000431076	nonsense_mediated_decay	KNOWN	None	23242	169	55	154996854	155265852	1	None	KIAA1918, GalNAc-T13
2	GALNT13	ENSG00000144278	ENST00000487047	processed_transcript	KNOWN	None	23242	None	None	155114080	155295188	1	None	KIAA1918, GalNAc-T13
2	GALNT13	ENSG00000144278	ENST00000450838	protein_coding	NOVEL	None	23242	427	141	155158092	155307242	1	None	KIAA1918, GalNAc-T13
2	GALNT13	ENSG00000144278	ENST00000422126	protein_coding	PUTATIVE	None	23242	138	45	155265523	155307305	1	None	KIAA1918, GalNAc-T13
2	GALNT13	ENSG00000144278	ENST00000453715	protein_coding	NOVEL	None	23242	321	106	155295104	155307257	1	None	KIAA1918, GalNAc-T13
2	GALNT13	ENSG00000144278	ENST00000489553	processed_transcript	PUTATIVE	None	23242	None	None	155298233	155307313	1	None	KIAA1918, GalNAc-T13
2	GALNT13	ENSG00000144278	ENST00000494805	retained_intron	KNOWN	None	23242	None	None	155302990	155307206	1	None	KIAA1918, GalNAc-T13
18	ZNF396	ENSG00000186496	ENST00000306346	protein_coding	KNOWN	CCDS11913	18824	1002	333	32946661	32957301	-1	None	ZSCAN14, FLJ31213
18	ZNF396	ENSG00000186496	ENST00000589332	protein_coding	KNOWN	None	18824	1008	335	32948435	32957301	-1	None	ZSCAN14, FLJ31213
18	ZNF396	ENSG00000186496	ENST00000586585	retained_intron	KNOWN	None	18824	None	None	32951775	32954329	-1	None	ZSCAN14, FLJ31213
18	ZNF396	ENSG00000186496	ENST00000586687	protein_coding	KNOWN	None	18824	633	210	32952794	32957301	-1	None	ZSCAN14, FLJ31213
18	ZNF396	ENSG00000186496	ENST00000585522	protein_coding	KNOWN	None	18824	394	130	32953863	32957301	-1	None	ZSCAN14, FLJ31213
18	ZNF396	ENSG00000186496	ENST00000587422	protein_coding	KNOWN	None	18824	119	38	32954138	32957274	-1	None	ZSCAN14, FLJ31213
HSCHR6_MHC_MANN	HLA-E	ENSG00000236632	ENST00000425603	protein_coding	KNOWN	None	4962	1077	358	30501925	30506663	1	None	None
HSCHR6_MHC_MANN	HLA-E	ENSG00000236632	ENST00000468139	retained_intron	KNOWN	None	4962	None	None	30501968	30502823	1	None	None
HSCHR6_MHC_MANN	HLA-E	ENSG00000236632	ENST00000493284	retained_intron	KNOWN	None	4962	None	None	30501970	30503741	1	None	None
9	SLC2A8	ENSG00000136856	ENST00000373371	protein_coding	KNOWN	CCDS6870	13812	1434	477	130159421	130170177	1	None	GLUTX1, GLUT8
9	SLC2A8	ENSG00000136856	ENST00000451404	protein_coding	KNOWN	None	13812	797	264	130159434	130167834	1	None	GLUTX1, GLUT8
9	SLC2A8	ENSG00000136856	ENST00000419917	protein_coding	KNOWN	None	13812	769	255	130159486	130166346	1	None	GLUTX1, GLUT8
9	SLC2A8	ENSG00000136856	ENST00000373352	protein_coding	KNOWN	None	13812	645	214	130159505	130169570	1	None	GLUTX1, GLUT8
9	SLC2A8	ENSG00000136856	ENST00000373360	protein_coding	KNOWN	None	13812	1236	411	130159510	130170177	1	None	GLUTX1, GLUT8
9	SLC2A8	ENSG00000136856	ENST00000419132	protein_coding	KNOWN	None	13812	506	167	130159663	130166070	1	None	GLUTX1, GLUT8
9	SLC2A8	ENSG00000136856	ENST00000439597	protein_coding	KNOWN	None	13812	723	240	130160462	130167754	1	None	GLUTX1, GLUT8
9	SLC2A8	ENSG00000136856	ENST00000423934	protein_coding	KNOWN	None	13812	802	266	130160462	130167755	1	None	GLUTX1, GLUT8
9	SLC2A8	ENSG00000136856	ENST00000430147	protein_coding	KNOWN	None	13812	831	276	130162243	130169931	1	None	GLUTX1, GLUT8
9	SLC2A8	ENSG00000136856	ENST00000484617	processed_transcript	KNOWN	None	13812	None	None	130164643	130166026	1	None	GLUTX1, GLUT8
9	SLC2A8	ENSG00000136856	ENST00000489239	processed_transcript	KNOWN	None	13812	None	None	130165557	130167748	1	None	GLUTX1, GLUT8
9	SLC2A8	ENSG00000136856	ENST00000477027	processed_transcript	KNOWN	None	13812	None	None	130166302	130170698	1	None	GLUTX1, GLUT8
9	SLC2A8	ENSG00000136856	ENST00000485806	processed_transcript	KNOWN	None	13812	None	None	130166328	130167726	1	None	GLUTX1, GLUT8
9	SLC2A8	ENSG00000136856	ENST00000484208	processed_transcript	KNOWN	None	13812	None	None	130169683	130170703	1	None	GLUTX1, GLUT8
12	KRT81	ENSG00000205426	ENST00000327741	protein_coding	KNOWN	CCDS31805	6458	1518	505	52679697	52685318	-1	KRTHB1	Hb-1
18	POLI	ENSG00000101751	ENST00000579534	protein_coding	KNOWN	CCDS11954	9182	2223	740	51795774	51824602	1	RAD3OB, RAD30B	None
18	POLI	ENSG00000101751	ENST00000406285	protein_coding	KNOWN	None	9182	1986	661	51795889	51820853	1	RAD3OB, RAD30B	None
18	POLI	ENSG00000101751	ENST00000577612	protein_coding	NOVEL	None	9182	585	194	51795921	51807192	1	RAD3OB, RAD30B	None
18	POLI	ENSG00000101751	ENST00000579434	protein_coding	PUTATIVE	None	9182	1914	637	51795937	51821094	1	RAD3OB, RAD30B	None
18	POLI	ENSG00000101751	ENST00000583136	protein_coding	PUTATIVE	None	9182	667	221	51795955	51809281	1	RAD3OB, RAD30B	None
18	POLI	ENSG00000101751	ENST00000577971	retained_intron	KNOWN	None	9182	None	None	51795962	51809293	1	RAD3OB, RAD30B	None
18	POLI	ENSG00000101751	ENST00000217800	protein_coding	PUTATIVE	None	9182	1845	614	51797732	51821089	1	RAD3OB, RAD30B	None
18	POLI	ENSG00000101751	ENST00000580880	protein_coding	PUTATIVE	None	9182	436	144	51798540	51807222	1	RAD3OB, RAD30B	None
18	POLI	ENSG00000101751	ENST00000580905	processed_transcript	KNOWN	None	9182	None	None	51801267	51807276	1	RAD3OB, RAD30B	None
18	POLI	ENSG00000101751	ENST00000581950	nonsense_mediated_decay	KNOWN	None	9182	258	85	51809224	51820129	1	RAD3OB, RAD30B	None
18	POLI	ENSG00000101751	ENST00000585023	nonsense_mediated_decay	KNOWN	None	9182	159	52	51809230	51821094	1	RAD3OB, RAD30B	None
18	POLI	ENSG00000101751	ENST00000579823	protein_coding	PUTATIVE	None	9182	428	141	51809276	51847636	1	RAD3OB, RAD30B	None
18	POLI	ENSG00000101751	ENST00000577361	retained_intron	KNOWN	None	9182	None	None	51810138	51820221	1	RAD3OB, RAD30B	None
18	POLI	ENSG00000101751	ENST00000583576	retained_intron	KNOWN	None	9182	None	None	51810220	51814078	1	RAD3OB, RAD30B	None
18	POLI	ENSG00000101751	ENST00000582366	processed_transcript	KNOWN	None	9182	None	None	51810974	51820145	1	RAD3OB, RAD30B	None
18	POLI	ENSG00000101751	ENST00000577727	retained_intron	KNOWN	None	9182	None	None	51817736	51820146	1	RAD3OB, RAD30B	None
X	MAGEC1	ENSG00000155495	ENST00000285879	protein_coding	KNOWN	CCDS35417	6812	3429	1142	140991680	140997174	1	None	MAGE-C1, CT7, MGC39366, CT7.1
X	MAGEC1	ENSG00000155495	ENST00000370511	protein_coding	KNOWN	None	6812	355	117	140991708	140994139	1	None	MAGE-C1, CT7, MGC39366, CT7.1
X	MAGEC1	ENSG00000155495	ENST00000406005	protein_coding	KNOWN	None	6812	630	209	140992588	140996700	1	None	MAGE-C1, CT7, MGC39366, CT7.1
HSCHR6_MHC_MCF	NOTCH4	ENSG00000223355	ENST00000474061	retained_intron	KNOWN	None	7884	None	None	32239047	32241181	-1	INT3	None
HSCHR6_MHC_MCF	NOTCH4	ENSG00000223355	ENST00000465833	retained_intron	KNOWN	None	7884	None	None	32239047	32248384	-1	INT3	None
HSCHR6_MHC_MCF	NOTCH4	ENSG00000223355	ENST00000439349	protein_coding	KNOWN	None	7884	6012	2003	32239047	32268294	-1	INT3	None
HSCHR6_MHC_MCF	NOTCH4	ENSG00000223355	ENST00000490019	processed_transcript	KNOWN	None	7884	None	None	32255138	32258446	-1	INT3	None
HSCHR6_MHC_MCF	NOTCH4	ENSG00000223355	ENST00000474810	retained_intron	KNOWN	None	7884	None	None	32260091	32268284	-1	INT3	None
18	None	ENSG00000267140	ENST00000589258	protein_coding	PUTATIVE	None	None	372	123	33023835	33077904	-1	None	None
21	RHOT1P2	ENSG00000203616	ENST00000366423	processed_pseudogene	KNOWN	None	37838	None	None	15309314	15309646	-1	None	None
12	LUM	ENSG00000139329	ENST00000266718	protein_coding	KNOWN	CCDS9038	6724	1017	338	91496406	91505608	-1	LDC	SLRR2D
12	LUM	ENSG00000139329	ENST00000548071	processed_transcript	KNOWN	None	6724	None	None	91497360	91505263	-1	LDC	SLRR2D
12	LUM	ENSG00000139329	ENST00000546642	processed_transcript	KNOWN	None	6724	None	None	91497916	91505216	-1	LDC	SLRR2D
21	RNU6-954P	ENSG00000223287	ENST00000411355	snRNA	KNOWN	None	47917	None	None	15340810	15340916	-1	None	None
19	SSBP4	ENSG00000130511	ENST00000597724	protein_coding	PUTATIVE	None	15676	555	184	18529674	18542662	1	None	None
19	SSBP4	ENSG00000130511	ENST00000598159	protein_coding	PUTATIVE	None	15676	483	160	18530229	18542642	1	None	None
19	SSBP4	ENSG00000130511	ENST00000601357	protein_coding	PUTATIVE	None	15676	193	63	18530236	18542672	1	None	None
19	SSBP4	ENSG00000130511	ENST00000348495	protein_coding	KNOWN	CCDS32960	15676	1092	363	18530239	18545351	1	None	None
19	SSBP4	ENSG00000130511	ENST00000270061	protein_coding	KNOWN	CCDS12378	15676	1158	385	18530239	18545372	1	None	None
19	SSBP4	ENSG00000130511	ENST00000607020	nonsense_mediated_decay	KNOWN	None	15676	165	54	18530416	18542833	1	None	None
19	SSBP4	ENSG00000130511	ENST00000601614	nonsense_mediated_decay	KNOWN	None	15676	162	53	18530442	18542515	1	None	None
19	SSBP4	ENSG00000130511	ENST00000602088	protein_coding	PUTATIVE	None	15676	332	109	18530913	18543024	1	None	None
19	SSBP4	ENSG00000130511	ENST00000600628	protein_coding	NOVEL	None	15676	550	182	18536850	18542672	1	None	None
19	SSBP4	ENSG00000130511	ENST00000593641	protein_coding	PUTATIVE	None	15676	781	259	18538224	18544652	1	None	None
19	SSBP4	ENSG00000130511	ENST00000595221	protein_coding	PUTATIVE	None	15676	421	139	18539902	18543645	1	None	None
19	SSBP4	ENSG00000130511	ENST00000600244	retained_intron	KNOWN	None	15676	None	None	18542455	18543910	1	None	None
19	SSBP4	ENSG00000130511	ENST00000601919	retained_intron	KNOWN	None	15676	None	None	18542623	18543853	1	None	None
19	SSBP4	ENSG00000130511	ENST00000601444	retained_intron	KNOWN	None	15676	None	None	18542877	18544462	1	None	None
19	SSBP4	ENSG00000130511	ENST00000599699	retained_intron	KNOWN	None	15676	None	None	18544052	18545372	1	None	None
HSCHR6_MHC_SSTO	SLC44A4	ENSG00000232180	ENST00000442152	protein_coding	KNOWN	None	13941	2133	710	31822859	31838663	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_SSTO	SLC44A4	ENSG00000232180	ENST00000492379	processed_transcript	PUTATIVE	None	13941	None	None	31823244	31824347	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_SSTO	SLC44A4	ENSG00000232180	ENST00000450933	protein_coding	KNOWN	None	13941	1233	410	31825357	31838629	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_SSTO	SLC44A4	ENSG00000232180	ENST00000460923	retained_intron	KNOWN	None	13941	None	None	31825726	31830863	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_SSTO	SLC44A4	ENSG00000232180	ENST00000494162	retained_intron	KNOWN	None	13941	None	None	31829259	31830905	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_SSTO	SLC44A4	ENSG00000232180	ENST00000495181	processed_transcript	KNOWN	None	13941	None	None	31834187	31838659	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_SSTO	SLC44A4	ENSG00000232180	ENST00000467209	processed_transcript	KNOWN	None	13941	None	None	31834484	31838659	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_SSTO	SLC44A4	ENSG00000232180	ENST00000553121	protein_coding	KNOWN	None	13941	2007	668	31822862	31838708	-1	C6orf29	NG22, CTL4, FLJ14491
HSCHR6_MHC_SSTO	SLC44A4	ENSG00000232180	ENST00000553147	protein_coding	KNOWN	None	13941	1905	634	31822862	31837333	-1	C6orf29	NG22, CTL4, FLJ14491
16	None	ENSG00000131152	ENST00000568879	protein_coding	PUTATIVE	None	None	713	236	87336482	87367879	-1	None	None
17	MXRA7	ENSG00000182534	ENST00000355797	protein_coding	KNOWN	CCDS32745	7541	615	204	74668633	74707037	-1	None	FLJ46603, TMAP1, PS1TP1
17	MXRA7	ENSG00000182534	ENST00000375036	protein_coding	KNOWN	CCDS32746	7541	534	177	74675651	74707086	-1	None	FLJ46603, TMAP1, PS1TP1
17	MXRA7	ENSG00000182534	ENST00000449428	protein_coding	KNOWN	CCDS45786	7541	513	170	74675651	74707098	-1	None	FLJ46603, TMAP1, PS1TP1
17	MXRA7	ENSG00000182534	ENST00000592148	protein_coding	PUTATIVE	None	7541	642	213	74675653	74686301	-1	None	FLJ46603, TMAP1, PS1TP1
17	MXRA7	ENSG00000182534	ENST00000585519	protein_coding	PUTATIVE	None	7541	48	15	74676616	74684787	-1	None	FLJ46603, TMAP1, PS1TP1
17	MXRA7	ENSG00000182534	ENST00000588114	protein_coding	PUTATIVE	None	7541	48	15	74676699	74705679	-1	None	FLJ46603, TMAP1, PS1TP1
17	MXRA7	ENSG00000182534	ENST00000589082	protein_coding	PUTATIVE	None	7541	69	22	74676859	74684969	-1	None	FLJ46603, TMAP1, PS1TP1
5	SCGB3A2	ENSG00000164265	ENST00000504320	protein_coding	PUTATIVE	None	18391	147	48	147250245	147261753	1	None	UGRP1, LU103, PNSP1
5	SCGB3A2	ENSG00000164265	ENST00000507160	processed_transcript	KNOWN	None	18391	None	None	147251061	147261753	1	None	UGRP1, LU103, PNSP1
5	SCGB3A2	ENSG00000164265	ENST00000514688	processed_transcript	KNOWN	None	18391	None	None	147251581	147261754	1	None	UGRP1, LU103, PNSP1
5	SCGB3A2	ENSG00000164265	ENST00000296694	protein_coding	KNOWN	CCDS4287	18391	282	93	147258274	147261753	1	None	UGRP1, LU103, PNSP1
17	STAC2	ENSG00000141750	ENST00000333461	protein_coding	KNOWN	CCDS11335	23990	1236	411	37366789	37382125	-1	None	24b2
17	STAC2	ENSG00000141750	ENST00000584501	nonsense_mediated_decay	KNOWN	None	23990	447	148	37367494	37381921	-1	None	24b2
1	FAM167B	ENSG00000183615	ENST00000373582	protein_coding	KNOWN	CCDS358	28133	492	163	32712834	32714457	1	C1orf90	MGC10820
2	KCNJ3	ENSG00000162989	ENST00000295101	protein_coding	KNOWN	CCDS2200	6264	1506	501	155554811	155714863	1	None	Kir3.1, GIRK1, KGA
2	KCNJ3	ENSG00000162989	ENST00000493505	processed_transcript	KNOWN	None	6264	None	None	155565844	155711540	1	None	Kir3.1, GIRK1, KGA
2	KCNJ3	ENSG00000162989	ENST00000544049	protein_coding	KNOWN	CCDS58733	6264	708	235	155555215	155711558	1	None	Kir3.1, GIRK1, KGA
18	INO80C	ENSG00000153391	ENST00000592173	protein_coding	KNOWN	None	26994	594	197	33032194	33077897	-1	C18orf37	FLJ38183, hIes6, IES6
18	INO80C	ENSG00000153391	ENST00000334598	protein_coding	KNOWN	CCDS11914	26994	579	192	33048297	33077955	-1	C18orf37	FLJ38183, hIes6, IES6
18	INO80C	ENSG00000153391	ENST00000590757	protein_coding	PUTATIVE	None	26994	288	95	33048298	33077868	-1	C18orf37	FLJ38183, hIes6, IES6
18	INO80C	ENSG00000153391	ENST00000441607	protein_coding	KNOWN	CCDS45853	26994	687	228	33048427	33077907	-1	C18orf37	FLJ38183, hIes6, IES6
18	INO80C	ENSG00000153391	ENST00000586489	protein_coding	PUTATIVE	None	26994	414	137	33048548	33077613	-1	C18orf37	FLJ38183, hIes6, IES6
18	INO80C	ENSG00000153391	ENST00000587450	protein_coding	PUTATIVE	None	26994	296	97	33048635	33077924	-1	C18orf37	FLJ38183, hIes6, IES6
18	INO80C	ENSG00000153391	ENST00000591139	protein_coding	PUTATIVE	None	26994	408	135	33048675	33067434	-1	C18orf37	FLJ38183, hIes6, IES6
18	INO80C	ENSG00000153391	ENST00000283410	retained_intron	KNOWN	None	26994	None	None	33058959	33077943	-1	C18orf37	FLJ38183, hIes6, IES6
18	INO80C	ENSG00000153391	ENST00000586449	nonsense_mediated_decay	KNOWN	None	26994	270	89	33059295	33077899	-1	C18orf37	FLJ38183, hIes6, IES6
18	INO80C	ENSG00000153391	ENST00000589273	protein_coding	PUTATIVE	None	26994	88	28	33060431	33077563	-1	C18orf37	FLJ38183, hIes6, IES6
18	INO80C	ENSG00000153391	ENST00000585971	retained_intron	KNOWN	None	26994	None	None	33069042	33077924	-1	C18orf37	FLJ38183, hIes6, IES6
18	INO80C	ENSG00000153391	ENST00000589053	retained_intron	KNOWN	None	26994	None	None	33077473	33077906	-1	C18orf37	FLJ38183, hIes6, IES6
16	FBXO31	ENSG00000103264	ENST00000311635	protein_coding	KNOWN	CCDS32501	16510	1620	539	87360593	87417363	-1	None	FBX14, FBXO14, Fbx31, MGC15419
16	FBXO31	ENSG00000103264	ENST00000565593	nonsense_mediated_decay	KNOWN	None	16510	420	139	87362942	87417369	-1	None	FBX14, FBXO14, Fbx31, MGC15419
16	FBXO31	ENSG00000103264	ENST00000563113	protein_coding	PUTATIVE	None	16510	436	144	87368954	87423456	-1	None	FBX14, FBXO14, Fbx31, MGC15419
16	FBXO31	ENSG00000103264	ENST00000561664	processed_transcript	KNOWN	None	16510	None	None	87377352	87401114	-1	None	FBX14, FBXO14, Fbx31, MGC15419
16	FBXO31	ENSG00000103264	ENST00000569412	processed_transcript	KNOWN	None	16510	None	None	87401258	87425713	-1	None	FBX14, FBXO14, Fbx31, MGC15419
16	FBXO31	ENSG00000103264	ENST00000563956	processed_transcript	KNOWN	None	16510	None	None	87401351	87417357	-1	None	FBX14, FBXO14, Fbx31, MGC15419
16	FBXO31	ENSG00000103264	ENST00000567622	processed_transcript	KNOWN	None	16510	None	None	87419617	87425748	-1	None	FBX14, FBXO14, Fbx31, MGC15419
1	UCHL5	ENSG00000116750	ENST00000420791	protein_coding	KNOWN	None	19678	656	217	192984889	192998705	-1	None	UCH37, CGI-70, INO80R
1	UCHL5	ENSG00000116750	ENST00000367455	protein_coding	KNOWN	CCDS1378	19678	990	329	192984889	193028626	-1	None	UCH37, CGI-70, INO80R
1	UCHL5	ENSG00000116750	ENST00000367454	protein_coding	KNOWN	CCDS55668	19678	987	328	192984889	193028626	-1	None	UCH37, CGI-70, INO80R
1	UCHL5	ENSG00000116750	ENST00000449480	protein_coding	KNOWN	None	19678	346	114	192985124	192993070	-1	None	UCH37, CGI-70, INO80R
1	UCHL5	ENSG00000116750	ENST00000367450	protein_coding	KNOWN	None	19678	1107	368	192985233	193028426	-1	None	UCH37, CGI-70, INO80R
1	UCHL5	ENSG00000116750	ENST00000367451	protein_coding	KNOWN	None	19678	1068	355	192985292	193028479	-1	None	UCH37, CGI-70, INO80R
1	UCHL5	ENSG00000116750	ENST00000367448	protein_coding	KNOWN	CCDS55670	19678	981	326	192987535	193028491	-1	None	UCH37, CGI-70, INO80R
1	UCHL5	ENSG00000116750	ENST00000367449	protein_coding	KNOWN	CCDS55669	19678	951	316	192987535	193028539	-1	None	UCH37, CGI-70, INO80R
1	UCHL5	ENSG00000116750	ENST00000443327	protein_coding	KNOWN	None	19678	550	182	192987752	192998439	-1	None	UCH37, CGI-70, INO80R
1	UCHL5	ENSG00000116750	ENST00000416915	protein_coding	KNOWN	None	19678	298	98	192989465	192993052	-1	None	UCH37, CGI-70, INO80R
1	UCHL5	ENSG00000116750	ENST00000421683	protein_coding	KNOWN	None	19678	774	257	192992098	193028651	-1	None	UCH37, CGI-70, INO80R
1	UCHL5	ENSG00000116750	ENST00000483156	processed_transcript	KNOWN	None	19678	None	None	193018662	193028347	-1	None	UCH37, CGI-70, INO80R
1	UCHL5	ENSG00000116750	ENST00000417752	protein_coding	KNOWN	None	19678	495	164	193020922	193029210	-1	None	UCH37, CGI-70, INO80R
1	UCHL5	ENSG00000116750	ENST00000367452	protein_coding	KNOWN	None	19678	579	192	192989017	193029237	-1	None	UCH37, CGI-70, INO80R
1	UCHL5	ENSG00000116750	ENST00000530098	protein_coding	KNOWN	None	19678	582	193	192989436	193028467	-1	None	UCH37, CGI-70, INO80R
16	CTF1	ENSG00000150281	ENST00000279804	protein_coding	KNOWN	CCDS10694	2499	606	201	30907928	30914881	1	None	CT-1, CT1
16	CTF1	ENSG00000150281	ENST00000395019	protein_coding	KNOWN	CCDS45464	2499	603	200	30907959	30914868	1	None	CT-1, CT1
16	LONP2	ENSG00000102910	ENST00000285737	protein_coding	KNOWN	CCDS10734	20598	2559	852	48278207	48391260	1	None	MGC4840, LONP, LONPL
16	LONP2	ENSG00000102910	ENST00000535754	protein_coding	NOVEL	None	20598	2427	808	48278244	48385810	1	None	MGC4840, LONP, LONPL
16	LONP2	ENSG00000102910	ENST00000416006	nonsense_mediated_decay	KNOWN	None	20598	1818	605	48278266	48381527	1	None	MGC4840, LONP, LONPL
16	LONP2	ENSG00000102910	ENST00000566755	nonsense_mediated_decay	KNOWN	None	20598	903	300	48278299	48385762	1	None	MGC4840, LONP, LONPL
16	LONP2	ENSG00000102910	ENST00000570174	nonsense_mediated_decay	KNOWN	None	20598	510	169	48296687	48337194	1	None	MGC4840, LONP, LONPL
16	LONP2	ENSG00000102910	ENST00000565867	protein_coding	PUTATIVE	None	20598	710	235	48368223	48397033	1	None	MGC4840, LONP, LONPL
16	LONP2	ENSG00000102910	ENST00000564259	processed_transcript	KNOWN	None	20598	None	None	48382007	48395747	1	None	MGC4840, LONP, LONPL
16	LONP2	ENSG00000102910	ENST00000566719	retained_intron	KNOWN	None	20598	None	None	48389597	48396648	1	None	MGC4840, LONP, LONPL
16	LONP2	ENSG00000102910	ENST00000565185	retained_intron	KNOWN	None	20598	None	None	48390360	48395953	1	None	MGC4840, LONP, LONPL
7	MALSU1	ENSG00000156928	ENST00000479974	processed_transcript	PUTATIVE	None	21721	None	None	23338358	23340543	1	C7orf30	mtRsfA
7	MALSU1	ENSG00000156928	ENST00000466681	protein_coding	KNOWN	CCDS5381	21721	705	234	23338819	23351348	1	C7orf30	mtRsfA
7	MALSU1	ENSG00000156928	ENST00000287543	retained_intron	KNOWN	None	21721	None	None	23338958	23347609	1	C7orf30	mtRsfA
7	MALSU1	ENSG00000156928	ENST00000481564	retained_intron	KNOWN	None	21721	None	None	23338960	23340814	1	C7orf30	mtRsfA
7	MALSU1	ENSG00000156928	ENST00000476623	retained_intron	KNOWN	None	21721	None	None	23347310	23349194	1	C7orf30	mtRsfA
22	CABP7	ENSG00000100314	ENST00000216144	protein_coding	KNOWN	CCDS13867	20834	648	215	30116073	30127828	1	None	MGC57793
HSCHR6_MHC_COX	TRIM40	ENSG00000228001	ENST00000437563	protein_coding	KNOWN	None	18736	777	258	30093815	30106445	1	None	RNF35
HSCHR6_MHC_COX	TRIM40	ENSG00000228001	ENST00000470577	processed_transcript	KNOWN	None	18736	None	None	30093831	30094905	1	None	RNF35
HSCHR6_MHC_COX	TRIM40	ENSG00000228001	ENST00000429471	protein_coding	KNOWN	None	18736	690	229	30094717	30106445	1	None	RNF35
HSCHR6_MHC_COX	TRIM40	ENSG00000228001	ENST00000552119	protein_coding	KNOWN	None	18736	777	258	30094440	30106445	1	None	RNF35
3	ZBTB20	ENSG00000181722	ENST00000462705	protein_coding	KNOWN	CCDS2981	13503	2007	668	114056941	114790222	-1	ZNF288	ODA-8S, DKFZp566F123, DPZF
3	ZBTB20	ENSG00000181722	ENST00000481632	protein_coding	KNOWN	CCDS2981	13503	2007	668	114057499	114343053	-1	ZNF288	ODA-8S, DKFZp566F123, DPZF
3	ZBTB20	ENSG00000181722	ENST00000471418	protein_coding	KNOWN	CCDS2981	13503	2007	668	114057499	114478118	-1	ZNF288	ODA-8S, DKFZp566F123, DPZF
3	ZBTB20	ENSG00000181722	ENST00000474710	protein_coding	KNOWN	CCDS54626	13503	2226	741	114057500	114102488	-1	ZNF288	ODA-8S, DKFZp566F123, DPZF
3	ZBTB20	ENSG00000181722	ENST00000357258	protein_coding	KNOWN	CCDS2981	13503	2007	668	114057517	114866118	-1	ZNF288	ODA-8S, DKFZp566F123, DPZF
3	ZBTB20	ENSG00000181722	ENST00000464560	protein_coding	KNOWN	CCDS2981	13503	2007	668	114057531	114477787	-1	ZNF288	ODA-8S, DKFZp566F123, DPZF
3	ZBTB20	ENSG00000181722	ENST00000479879	processed_transcript	KNOWN	None	13503	None	None	114058151	114619189	-1	ZNF288	ODA-8S, DKFZp566F123, DPZF
3	ZBTB20	ENSG00000181722	ENST00000470311	protein_coding	KNOWN	None	13503	173	56	114070533	114173530	-1	ZNF288	ODA-8S, DKFZp566F123, DPZF
3	ZBTB20	ENSG00000181722	ENST00000482689	protein_coding	KNOWN	None	13503	58	18	114099205	114173664	-1	ZNF288	ODA-8S, DKFZp566F123, DPZF
3	ZBTB20	ENSG00000181722	ENST00000463890	processed_transcript	KNOWN	None	13503	None	None	114099729	114819142	-1	ZNF288	ODA-8S, DKFZp566F123, DPZF
3	ZBTB20	ENSG00000181722	ENST00000486152	processed_transcript	KNOWN	None	13503	None	None	114106122	114219238	-1	ZNF288	ODA-8S, DKFZp566F123, DPZF
3	ZBTB20	ENSG00000181722	ENST00000480832	processed_transcript	KNOWN	None	13503	None	None	114106913	114580640	-1	ZNF288	ODA-8S, DKFZp566F123, DPZF
3	ZBTB20	ENSG00000181722	ENST00000491500	processed_transcript	KNOWN	None	13503	None	None	114106913	114619469	-1	ZNF288	ODA-8S, DKFZp566F123, DPZF
3	ZBTB20	ENSG00000181722	ENST00000492665	processed_transcript	KNOWN	None	13503	None	None	114107893	114819139	-1	ZNF288	ODA-8S, DKFZp566F123, DPZF
3	ZBTB20	ENSG00000181722	ENST00000470556	processed_transcript	KNOWN	None	13503	None	None	114137901	114318150	-1	ZNF288	ODA-8S, DKFZp566F123, DPZF
3	ZBTB20	ENSG00000181722	ENST00000463497	processed_transcript	KNOWN	None	13503	None	None	114377188	114432844	-1	ZNF288	ODA-8S, DKFZp566F123, DPZF
3	ZBTB20	ENSG00000181722	ENST00000488663	processed_transcript	KNOWN	None	13503	None	None	114406073	114866112	-1	ZNF288	ODA-8S, DKFZp566F123, DPZF
3	ZBTB20	ENSG00000181722	ENST00000468769	processed_transcript	PUTATIVE	None	13503	None	None	114510532	114520024	-1	ZNF288	ODA-8S, DKFZp566F123, DPZF
3	ZBTB20	ENSG00000181722	ENST00000470186	processed_transcript	PUTATIVE	None	13503	None	None	114693239	114863756	-1	ZNF288	ODA-8S, DKFZp566F123, DPZF
3	ZBTB20	ENSG00000181722	ENST00000393785	protein_coding	KNOWN	CCDS2981	13503	2007	668	114056954	114343792	-1	ZNF288	ODA-8S, DKFZp566F123, DPZF
11	CCDC73	ENSG00000186714	ENST00000335185	protein_coding	KNOWN	CCDS41630	23261	3240	1079	32623792	32816187	-1	None	NY-SAR-79
11	CCDC73	ENSG00000186714	ENST00000528333	protein_coding	PUTATIVE	None	23261	347	114	32624271	32657378	-1	None	NY-SAR-79
11	CCDC73	ENSG00000186714	ENST00000534415	processed_transcript	KNOWN	None	23261	None	None	32637416	32816204	-1	None	NY-SAR-79
11	CCDC73	ENSG00000186714	ENST00000531481	protein_coding	PUTATIVE	None	23261	477	158	32701407	32816156	-1	None	NY-SAR-79
22	ZMAT5	ENSG00000100319	ENST00000344318	protein_coding	KNOWN	CCDS13868	28046	513	170	30126945	30162950	-1	None	SNRNP20
22	ZMAT5	ENSG00000100319	ENST00000489010	retained_intron	KNOWN	None	28046	None	None	30142156	30163000	-1	None	SNRNP20
22	ZMAT5	ENSG00000100319	ENST00000397781	protein_coding	KNOWN	CCDS13868	28046	513	170	30126948	30162969	-1	None	SNRNP20
10	None	ENSG00000232682	ENST00000414383	antisense	KNOWN	None	None	None	None	61815632	61820501	1	None	None
21	None	ENSG00000266838	ENST00000579980	miRNA	NOVEL	None	None	None	None	15357768	15357840	1	None	None
21	NF1P3	ENSG00000183249	ENST00000457709	unprocessed_pseudogene	KNOWN	None	7766	None	None	15373248	15377600	1	NF1L1	None
5	BTNL3	ENSG00000168903	ENST00000342868	protein_coding	KNOWN	CCDS47358	1143	1401	466	180415845	180433727	1	None	BTNLR
19	ZNF432	ENSG00000256087	ENST00000594154	protein_coding	KNOWN	CCDS12848	20810	1959	652	52534632	52551814	-1	None	KIAA0798
19	ZNF432	ENSG00000256087	ENST00000221315	protein_coding	KNOWN	CCDS12848	20810	1959	652	52536673	52552073	-1	None	KIAA0798
19	ZNF432	ENSG00000256087	ENST00000600368	protein_coding	KNOWN	None	20810	537	178	52538395	52567781	-1	None	KIAA0798
19	ZNF432	ENSG00000256087	ENST00000598745	protein_coding	KNOWN	None	20810	372	123	52538560	52551893	-1	None	KIAA0798
19	ZNF432	ENSG00000256087	ENST00000597273	protein_coding	PUTATIVE	None	20810	246	81	52543617	52552017	-1	None	KIAA0798
19	ZNF432	ENSG00000256087	ENST00000601310	protein_coding	KNOWN	None	20810	108	35	52544767	52550617	-1	None	KIAA0798
19	ZNF432	ENSG00000256087	ENST00000598446	processed_transcript	KNOWN	None	20810	None	None	52552063	52598991	-1	None	KIAA0798
22	UQCR10	ENSG00000184076	ENST00000330029	protein_coding	KNOWN	CCDS46680	30863	192	63	30163358	30166402	1	None	HSPC051, UCRC, QCR9, UCCR7.2
22	UQCR10	ENSG00000184076	ENST00000401406	protein_coding	KNOWN	CCDS46681	30863	189	62	30163363	30166016	1	None	HSPC051, UCRC, QCR9, UCCR7.2
14	NUMB	ENSG00000133961	ENST00000554546	protein_coding	KNOWN	CCDS55927	8060	1779	592	73741815	73925323	-1	C14orf41	None
14	NUMB	ENSG00000133961	ENST00000356296	protein_coding	KNOWN	CCDS32115	8060	1812	603	73741924	73925225	-1	C14orf41	None
14	NUMB	ENSG00000133961	ENST00000557597	protein_coding	KNOWN	CCDS9814	8060	1923	640	73741924	73925228	-1	C14orf41	None
14	NUMB	ENSG00000133961	ENST00000555238	protein_coding	KNOWN	CCDS32116	8060	1956	651	73741924	73925236	-1	C14orf41	None
14	NUMB	ENSG00000133961	ENST00000556772	protein_coding	PUTATIVE	None	8060	1524	507	73741926	73766083	-1	C14orf41	None
14	NUMB	ENSG00000133961	ENST00000555394	protein_coding	KNOWN	CCDS32115	8060	1812	603	73742381	73925286	-1	C14orf41	None
14	NUMB	ENSG00000133961	ENST00000559312	protein_coding	NOVEL	None	8060	1371	456	73743257	73833628	-1	C14orf41	None
14	NUMB	ENSG00000133961	ENST00000560335	protein_coding	NOVEL	None	8060	1518	505	73743257	73833628	-1	C14orf41	None
14	NUMB	ENSG00000133961	ENST00000555738	protein_coding	NOVEL	None	8060	1485	494	73743257	73833628	-1	C14orf41	None
14	NUMB	ENSG00000133961	ENST00000554521	protein_coding	NOVEL	None	8060	1338	445	73743257	73833628	-1	C14orf41	None
14	NUMB	ENSG00000133961	ENST00000554014	retained_intron	KNOWN	None	8060	None	None	73743917	73752270	-1	C14orf41	None
14	NUMB	ENSG00000133961	ENST00000553997	processed_transcript	KNOWN	None	8060	None	None	73748122	73753965	-1	C14orf41	None
14	NUMB	ENSG00000133961	ENST00000557486	retained_intron	KNOWN	None	8060	None	None	73748953	73753881	-1	C14orf41	None
14	NUMB	ENSG00000133961	ENST00000555859	protein_coding	NOVEL	None	8060	671	222	73750959	73876779	-1	C14orf41	None
14	NUMB	ENSG00000133961	ENST00000555307	protein_coding	KNOWN	None	8060	776	257	73750962	73924989	-1	C14orf41	None
14	NUMB	ENSG00000133961	ENST00000554394	protein_coding	KNOWN	None	8060	776	257	73750962	73925229	-1	C14orf41	None
14	NUMB	ENSG00000133961	ENST00000554315	retained_intron	KNOWN	None	8060	None	None	73752901	73925252	-1	C14orf41	None
14	NUMB	ENSG00000133961	ENST00000556989	retained_intron	KNOWN	None	8060	None	None	73752933	73764584	-1	C14orf41	None
14	NUMB	ENSG00000133961	ENST00000555987	protein_coding	NOVEL	None	8060	240	79	73759495	73925283	-1	C14orf41	None
14	NUMB	ENSG00000133961	ENST00000556112	retained_intron	KNOWN	None	8060	None	None	73763969	73925283	-1	C14orf41	None
14	NUMB	ENSG00000133961	ENST00000557774	retained_intron	KNOWN	None	8060	None	None	73789509	73925283	-1	C14orf41	None
14	NUMB	ENSG00000133961	ENST00000554818	protein_coding	KNOWN	None	8060	201	66	73789838	73924992	-1	C14orf41	None
14	NUMB	ENSG00000133961	ENST00000557031	processed_transcript	KNOWN	None	8060	None	None	73822435	73924645	-1	C14orf41	None
14	NUMB	ENSG00000133961	ENST00000556700	processed_transcript	KNOWN	None	8060	None	None	73833605	73930331	-1	C14orf41	None
14	NUMB	ENSG00000133961	ENST00000556600	processed_transcript	KNOWN	None	8060	None	None	73875858	73925277	-1	C14orf41	None
14	NUMB	ENSG00000133961	ENST00000553415	processed_transcript	KNOWN	None	8060	None	None	73876684	73930348	-1	C14orf41	None
14	NUMB	ENSG00000133961	ENST00000557577	processed_transcript	KNOWN	None	8060	None	None	73927641	73930324	-1	C14orf41	None
14	NUMB	ENSG00000133961	ENST00000557581	retained_intron	KNOWN	None	8060	None	None	73928952	73930331	-1	C14orf41	None
14	NUMB	ENSG00000133961	ENST00000355058	protein_coding	KNOWN	CCDS32116	8060	1956	651	73741928	73925225	-1	C14orf41	None
14	NUMB	ENSG00000133961	ENST00000359560	protein_coding	KNOWN	CCDS9814	8060	1923	640	73741928	73925225	-1	C14orf41	None
14	NUMB	ENSG00000133961	ENST00000454166	protein_coding	KNOWN	None	8060	1518	505	73743257	73822477	-1	C14orf41	None
14	NUMB	ENSG00000133961	ENST00000544991	protein_coding	KNOWN	None	8060	1371	456	73743257	73822477	-1	C14orf41	None
14	NUMB	ENSG00000133961	ENST00000535282	protein_coding	KNOWN	CCDS9814	8060	1923	640	73743286	73925252	-1	C14orf41	None
19	ZNF708	ENSG00000182141	ENST00000356929	protein_coding	KNOWN	CCDS32980	12945	1692	563	21473962	21512212	-1	ZNF15, ZNF15L1	KOX8
19	ZNF708	ENSG00000182141	ENST00000598046	nonsense_mediated_decay	KNOWN	None	12945	117	38	21475406	21512227	-1	ZNF15, ZNF15L1	KOX8
19	ZNF708	ENSG00000182141	ENST00000601295	protein_coding	PUTATIVE	None	12945	378	125	21477198	21512138	-1	ZNF15, ZNF15L1	KOX8
19	ZNF708	ENSG00000182141	ENST00000602023	protein_coding	PUTATIVE	None	12945	195	64	21477345	21512184	-1	ZNF15, ZNF15L1	KOX8
4	DGKQ	ENSG00000145214	ENST00000273814	protein_coding	KNOWN	CCDS3342	2856	2829	942	952675	967344	-1	DAGK4	DAGK, DAGK7
4	DGKQ	ENSG00000145214	ENST00000509465	protein_coding	NOVEL	None	2856	2630	875	952676	967110	-1	DAGK4	DAGK, DAGK7
4	DGKQ	ENSG00000145214	ENST00000515182	protein_coding	NOVEL	None	2856	474	157	954403	956228	-1	DAGK4	DAGK, DAGK7
4	DGKQ	ENSG00000145214	ENST00000502309	processed_transcript	KNOWN	None	2856	None	None	956930	960963	-1	DAGK4	DAGK, DAGK7
4	DGKQ	ENSG00000145214	ENST00000510286	protein_coding	PUTATIVE	None	2856	429	142	962079	980683	-1	DAGK4	DAGK, DAGK7
HSCHR6_MHC_COX	TRIM10	ENSG00000237192	ENST00000417411	protein_coding	KNOWN	None	10072	1188	395	30109655	30118642	-1	RNF9	RFB30, HERF1
HSCHR6_MHC_COX	TRIM10	ENSG00000237192	ENST00000451727	protein_coding	KNOWN	None	10072	1446	481	30109655	30118642	-1	RNF9	RFB30, HERF1
HSCHR6_MHC_COX	TRIM10	ENSG00000237192	ENST00000548891	protein_coding	KNOWN	None	10072	1446	481	30111679	30118642	-1	RNF9	RFB30, HERF1
4	TMEM192	ENSG00000170088	ENST00000306480	protein_coding	KNOWN	CCDS43279	26775	816	271	165997230	166034071	-1	None	FLJ38482
4	TMEM192	ENSG00000170088	ENST00000506087	protein_coding	KNOWN	None	26775	804	267	165999572	166129701	-1	None	FLJ38482
4	TMEM192	ENSG00000170088	ENST00000505095	protein_coding	PUTATIVE	None	26775	254	83	166006738	166034006	-1	None	FLJ38482
10	None	ENSG00000202190	ENST00000365320	misc_RNA	NOVEL	None	None	None	None	61841499	61841612	1	None	None
10	ARL4P	ENSG00000122872	ENST00000503220	processed_pseudogene	KNOWN	None	17741	None	None	62444263	62444967	1	ARL4B	Em:AC022390.2
16	MAP1LC3B	ENSG00000140941	ENST00000561823	processed_transcript	KNOWN	None	13352	None	None	87417601	87425346	1	None	ATG8F
16	MAP1LC3B	ENSG00000140941	ENST00000562778	processed_transcript	KNOWN	None	13352	None	None	87417662	87425459	1	None	ATG8F
16	MAP1LC3B	ENSG00000140941	ENST00000599768	processed_transcript	KNOWN	None	13352	None	None	87423367	87425344	1	None	ATG8F
16	MAP1LC3B	ENSG00000140941	ENST00000563720	processed_transcript	KNOWN	None	13352	None	None	87423376	87425344	1	None	ATG8F
16	MAP1LC3B	ENSG00000140941	ENST00000268607	protein_coding	KNOWN	CCDS10960	13352	378	125	87425406	87438385	1	None	ATG8F
16	MAP1LC3B	ENSG00000140941	ENST00000570189	nonsense_mediated_decay	KNOWN	None	13352	144	47	87425923	87437384	1	None	ATG8F
16	MAP1LC3B	ENSG00000140941	ENST00000565788	protein_coding	PUTATIVE	None	13352	228	75	87425940	87436215	1	None	ATG8F
16	MAP1LC3B	ENSG00000140941	ENST00000564844	nonsense_mediated_decay	KNOWN	None	13352	207	68	87425950	87438385	1	None	ATG8F
16	MAP1LC3B	ENSG00000140941	ENST00000564638	retained_intron	KNOWN	None	13352	None	None	87426029	87433110	1	None	ATG8F
16	MAP1LC3B	ENSG00000140941	ENST00000534986	protein_coding	KNOWN	None	13352	201	66	87426401	87438369	1	None	ATG8F
5	C5orf46	ENSG00000178776	ENST00000510432	processed_transcript	KNOWN	None	33768	None	None	147260289	147286053	-1	None	MGC23985
5	C5orf46	ENSG00000178776	ENST00000318315	protein_coding	KNOWN	CCDS34267	33768	264	87	147272271	147286065	-1	None	MGC23985
5	C5orf46	ENSG00000178776	ENST00000515291	protein_coding	KNOWN	None	33768	219	72	147280871	147286101	-1	None	MGC23985
HSCHR6_MHC_MANN	HLA-B	ENSG00000224608	ENST00000492573	retained_intron	KNOWN	None	4932	None	None	31364707	31365641	-1	AS	None
HSCHR6_MHC_MANN	HLA-B	ENSG00000224608	ENST00000488367	retained_intron	KNOWN	None	4932	None	None	31364707	31365911	-1	AS	None
HSCHR6_MHC_MANN	HLA-B	ENSG00000224608	ENST00000436729	protein_coding	KNOWN	None	4932	725	240	31364707	31367239	-1	AS	None
HSCHR6_MHC_MANN	HLA-B	ENSG00000224608	ENST00000435618	protein_coding	KNOWN	None	4932	1089	362	31364707	31368080	-1	AS	None
HSCHR6_MHC_MANN	HLA-B	ENSG00000224608	ENST00000465455	retained_intron	KNOWN	None	4932	None	None	31365957	31366637	-1	AS	None
HSCHR6_MHC_MANN	HLA-B	ENSG00000224608	ENST00000481283	nonsense_mediated_decay	KNOWN	None	4932	675	224	31366017	31367995	-1	AS	None
HSCHR6_MHC_MANN	HLA-B	ENSG00000224608	ENST00000489762	retained_intron	KNOWN	None	4932	None	None	31366226	31368014	-1	AS	None
HSCHR6_MHC_MANN	HLA-B	ENSG00000224608	ENST00000430299	protein_coding	KNOWN	None	4932	738	245	31366342	31367979	-1	AS	None
X	OPN1MW	ENSG00000147380	ENST00000369935	protein_coding	KNOWN	CCDS14743	4206	1095	364	153448107	153461633	1	GCP, CBBM, CBD	OPN1MW1, COD5
X	OPN1MW	ENSG00000147380	ENST00000468495	processed_transcript	KNOWN	None	4206	None	None	153448157	153459002	1	GCP, CBBM, CBD	OPN1MW1, COD5
X	OPN1MW	ENSG00000147380	ENST00000430054	protein_coding	NOVEL	None	4206	493	163	153455547	153461628	1	GCP, CBBM, CBD	OPN1MW1, COD5
1	LCK	ENSG00000182866	ENST00000336890	protein_coding	KNOWN	CCDS359	6524	1530	509	32716840	32751766	1	None	None
1	LCK	ENSG00000182866	ENST00000482949	protein_coding	PUTATIVE	None	6524	601	199	32716865	32741219	1	None	None
1	LCK	ENSG00000182866	ENST00000495610	protein_coding	NOVEL	None	6524	957	318	32716875	32745510	1	None	None
1	LCK	ENSG00000182866	ENST00000355928	retained_intron	KNOWN	None	6524	None	None	32716876	32740856	1	None	None
1	LCK	ENSG00000182866	ENST00000476457	retained_intron	KNOWN	None	6524	None	None	32716899	32741047	1	None	None
1	LCK	ENSG00000182866	ENST00000469765	retained_intron	KNOWN	None	6524	None	None	32716919	32751761	1	None	None
1	LCK	ENSG00000182866	ENST00000461712	protein_coding	PUTATIVE	None	6524	447	148	32739714	32740679	1	None	None
1	LCK	ENSG00000182866	ENST00000373562	protein_coding	PUTATIVE	None	6524	413	136	32739716	32741205	1	None	None
1	LCK	ENSG00000182866	ENST00000477031	protein_coding	PUTATIVE	None	6524	503	166	32739722	32740603	1	None	None
1	LCK	ENSG00000182866	ENST00000373557	protein_coding	PUTATIVE	None	6524	855	284	32739722	32742029	1	None	None
1	LCK	ENSG00000182866	ENST00000333070	protein_coding	KNOWN	None	6524	1620	539	32739733	32751763	1	None	None
1	LCK	ENSG00000182866	ENST00000469956	retained_intron	KNOWN	None	6524	None	None	32741221	32742774	1	None	None
1	LCK	ENSG00000182866	ENST00000373564	protein_coding	KNOWN	None	6524	1551	516	32739931	32751317	1	None	None
9	GLIPR2	ENSG00000122694	ENST00000377959	protein_coding	KNOWN	None	18007	387	128	36136739	36162907	1	C9orf19	GAPR-1
9	GLIPR2	ENSG00000122694	ENST00000377960	protein_coding	KNOWN	CCDS6598	18007	465	154	36136742	36163910	1	C9orf19	GAPR-1
9	GLIPR2	ENSG00000122694	ENST00000474050	processed_transcript	KNOWN	None	18007	None	None	36144273	36163899	1	C9orf19	GAPR-1
9	GLIPR2	ENSG00000122694	ENST00000396613	protein_coding	KNOWN	None	18007	39	12	36136732	36163901	1	C9orf19	GAPR-1
10	None	ENSG00000254271	ENST00000517854	lincRNA	KNOWN	None	None	None	None	62494100	62501586	1	None	None
7	COBL	ENSG00000106078	ENST00000431948	protein_coding	KNOWN	None	22199	3441	1146	51083909	51258640	-1	None	KIAA0633
7	COBL	ENSG00000106078	ENST00000445054	protein_coding	NOVEL	None	22199	3321	1106	51083909	51261132	-1	None	KIAA0633
7	COBL	ENSG00000106078	ENST00000265136	protein_coding	KNOWN	CCDS34637	22199	3786	1261	51083909	51384496	-1	None	KIAA0633
7	COBL	ENSG00000106078	ENST00000462395	retained_intron	KNOWN	None	22199	None	None	51084977	51103652	-1	None	KIAA0633
7	COBL	ENSG00000106078	ENST00000452534	protein_coding	NOVEL	None	22199	1842	613	51096877	51261286	-1	None	KIAA0633
7	COBL	ENSG00000106078	ENST00000395540	protein_coding	KNOWN	None	22199	1410	469	51132096	51384515	-1	None	KIAA0633
7	COBL	ENSG00000106078	ENST00000441453	protein_coding	KNOWN	None	22199	1140	379	51138525	51384461	-1	None	KIAA0633
7	COBL	ENSG00000106078	ENST00000449281	protein_coding	PUTATIVE	None	22199	489	162	51258695	51384168	-1	None	KIAA0633
7	COBL	ENSG00000106078	ENST00000395542	protein_coding	KNOWN	None	22199	4032	1343	51083910	51384515	-1	None	KIAA0633
10	RNU2-72P	ENSG00000223107	ENST00000411175	snRNA	KNOWN	None	48565	None	None	62672523	62672685	-1	None	None
10	LINC00845	ENSG00000227244	ENST00000417931	lincRNA	KNOWN	None	45033	None	None	62776033	62786178	1	None	None
2	NR4A2	ENSG00000153234	ENST00000339562	protein_coding	KNOWN	CCDS2201	7981	1797	598	157180944	157189228	-1	NURR1	TINUR, NOT, RNR1, HZF-3
2	NR4A2	ENSG00000153234	ENST00000426264	protein_coding	PUTATIVE	None	7981	1608	535	157181594	157189226	-1	NURR1	TINUR, NOT, RNR1, HZF-3
2	NR4A2	ENSG00000153234	ENST00000409572	protein_coding	KNOWN	CCDS2201	7981	1797	598	157181610	157198860	-1	NURR1	TINUR, NOT, RNR1, HZF-3
2	NR4A2	ENSG00000153234	ENST00000417764	nonsense_mediated_decay	KNOWN	None	7981	1179	392	157181612	157187300	-1	NURR1	TINUR, NOT, RNR1, HZF-3
2	NR4A2	ENSG00000153234	ENST00000417972	nonsense_mediated_decay	KNOWN	None	7981	1179	392	157181612	157188477	-1	NURR1	TINUR, NOT, RNR1, HZF-3
2	NR4A2	ENSG00000153234	ENST00000409108	protein_coding	NOVEL	None	7981	1662	553	157182256	157187219	-1	NURR1	TINUR, NOT, RNR1, HZF-3
2	NR4A2	ENSG00000153234	ENST00000429376	protein_coding	PUTATIVE	None	7981	1473	490	157182256	157187233	-1	NURR1	TINUR, NOT, RNR1, HZF-3
2	NR4A2	ENSG00000153234	ENST00000406048	protein_coding	PUTATIVE	None	7981	449	148	157184416	157186633	-1	NURR1	TINUR, NOT, RNR1, HZF-3
2	NR4A2	ENSG00000153234	ENST00000424077	protein_coding	KNOWN	None	7981	774	257	157185925	157189225	-1	NURR1	TINUR, NOT, RNR1, HZF-3
2	NR4A2	ENSG00000153234	ENST00000421709	protein_coding	PUTATIVE	None	7981	320	105	157186190	157189232	-1	NURR1	TINUR, NOT, RNR1, HZF-3
2	NR4A2	ENSG00000153234	ENST00000539077	protein_coding	KNOWN	None	7981	1830	609	157181823	157189224	-1	NURR1	TINUR, NOT, RNR1, HZF-3
1	ST7L	ENSG00000007341	ENST00000361846	nonsense_mediated_decay	KNOWN	None	18441	1668	555	113066140	113161766	-1	None	FLJ20284, STLR, ST7R, FAM4B
1	ST7L	ENSG00000007341	ENST00000360743	protein_coding	KNOWN	CCDS850	18441	1635	544	113066140	113161811	-1	None	FLJ20284, STLR, ST7R, FAM4B
1	ST7L	ENSG00000007341	ENST00000358039	protein_coding	KNOWN	CCDS848	18441	1728	575	113066140	113162040	-1	None	FLJ20284, STLR, ST7R, FAM4B
1	ST7L	ENSG00000007341	ENST00000490715	nonsense_mediated_decay	KNOWN	None	18441	1668	555	113066140	113162405	-1	None	FLJ20284, STLR, ST7R, FAM4B
1	ST7L	ENSG00000007341	ENST00000480988	processed_transcript	KNOWN	None	18441	None	None	113067904	113161735	-1	None	FLJ20284, STLR, ST7R, FAM4B
1	ST7L	ENSG00000007341	ENST00000495109	processed_transcript	KNOWN	None	18441	None	None	113068152	113098498	-1	None	FLJ20284, STLR, ST7R, FAM4B
1	ST7L	ENSG00000007341	ENST00000498197	processed_transcript	KNOWN	None	18441	None	None	113068498	113084597	-1	None	FLJ20284, STLR, ST7R, FAM4B
1	ST7L	ENSG00000007341	ENST00000477682	processed_transcript	KNOWN	None	18441	None	None	113068501	113069574	-1	None	FLJ20284, STLR, ST7R, FAM4B
1	ST7L	ENSG00000007341	ENST00000369669	protein_coding	KNOWN	None	18441	1179	392	113068505	113161550	-1	None	FLJ20284, STLR, ST7R, FAM4B
1	ST7L	ENSG00000007341	ENST00000490067	protein_coding	KNOWN	CCDS849	18441	1677	558	113068608	113161811	-1	None	FLJ20284, STLR, ST7R, FAM4B
1	ST7L	ENSG00000007341	ENST00000497457	processed_transcript	KNOWN	None	18441	None	None	113084412	113161725	-1	None	FLJ20284, STLR, ST7R, FAM4B
1	ST7L	ENSG00000007341	ENST00000343210	protein_coding	KNOWN	CCDS852	18441	1668	555	113084412	113161811	-1	None	FLJ20284, STLR, ST7R, FAM4B
1	ST7L	ENSG00000007341	ENST00000369666	protein_coding	KNOWN	None	18441	1617	538	113084412	113161811	-1	None	FLJ20284, STLR, ST7R, FAM4B
1	ST7L	ENSG00000007341	ENST00000463235	processed_transcript	KNOWN	None	18441	None	None	113084416	113163447	-1	None	FLJ20284, STLR, ST7R, FAM4B
1	ST7L	ENSG00000007341	ENST00000418497	protein_coding	KNOWN	None	18441	860	285	113084573	113153528	-1	None	FLJ20284, STLR, ST7R, FAM4B
1	ST7L	ENSG00000007341	ENST00000497235	processed_transcript	KNOWN	None	18441	None	None	113124618	113161739	-1	None	FLJ20284, STLR, ST7R, FAM4B
1	ST7L	ENSG00000007341	ENST00000369664	protein_coding	KNOWN	None	18441	688	228	113126594	113160839	-1	None	FLJ20284, STLR, ST7R, FAM4B
1	ST7L	ENSG00000007341	ENST00000466360	processed_transcript	KNOWN	None	18441	None	None	113126597	113153584	-1	None	FLJ20284, STLR, ST7R, FAM4B
1	ST7L	ENSG00000007341	ENST00000479436	processed_transcript	KNOWN	None	18441	None	None	113134104	113161563	-1	None	FLJ20284, STLR, ST7R, FAM4B
1	ST7L	ENSG00000007341	ENST00000470519	processed_transcript	KNOWN	None	18441	None	None	113140644	113162286	-1	None	FLJ20284, STLR, ST7R, FAM4B
1	ST7L	ENSG00000007341	ENST00000459630	processed_transcript	KNOWN	None	18441	None	None	113140644	113162294	-1	None	FLJ20284, STLR, ST7R, FAM4B
1	ST7L	ENSG00000007341	ENST00000477332	processed_transcript	KNOWN	None	18441	None	None	113149726	113161721	-1	None	FLJ20284, STLR, ST7R, FAM4B
1	ST7L	ENSG00000007341	ENST00000473206	processed_transcript	KNOWN	None	18441	None	None	113149863	113161748	-1	None	FLJ20284, STLR, ST7R, FAM4B
1	ST7L	ENSG00000007341	ENST00000485753	processed_transcript	KNOWN	None	18441	None	None	113153077	113159908	-1	None	FLJ20284, STLR, ST7R, FAM4B
1	ST7L	ENSG00000007341	ENST00000498383	processed_transcript	KNOWN	None	18441	None	None	113153077	113161733	-1	None	FLJ20284, STLR, ST7R, FAM4B
1	ST7L	ENSG00000007341	ENST00000470683	processed_transcript	KNOWN	None	18441	None	None	113153077	113161733	-1	None	FLJ20284, STLR, ST7R, FAM4B
1	ST7L	ENSG00000007341	ENST00000467335	processed_transcript	KNOWN	None	18441	None	None	113153081	113162396	-1	None	FLJ20284, STLR, ST7R, FAM4B
1	ST7L	ENSG00000007341	ENST00000492274	processed_transcript	KNOWN	None	18441	None	None	113153280	113162418	-1	None	FLJ20284, STLR, ST7R, FAM4B
1	ST7L	ENSG00000007341	ENST00000544629	protein_coding	KNOWN	None	18441	1533	510	113068381	113161738	-1	None	FLJ20284, STLR, ST7R, FAM4B
1	ST7L	ENSG00000007341	ENST00000369668	protein_coding	KNOWN	None	18441	1668	555	113083456	113162040	-1	None	FLJ20284, STLR, ST7R, FAM4B
1	ST7L	ENSG00000007341	ENST00000538187	protein_coding	KNOWN	None	18441	1500	499	113084415	113160839	-1	None	FLJ20284, STLR, ST7R, FAM4B
1	ST7L	ENSG00000007341	ENST00000543570	protein_coding	KNOWN	None	18441	1206	401	113093262	113161749	-1	None	FLJ20284, STLR, ST7R, FAM4B
5	ANKRA2	ENSG00000164331	ENST00000296785	protein_coding	KNOWN	CCDS4020	13208	942	313	72848160	72861511	-1	None	None
5	ANKRA2	ENSG00000164331	ENST00000505301	retained_intron	KNOWN	None	13208	None	None	72848356	72850255	-1	None	None
5	ANKRA2	ENSG00000164331	ENST00000515249	retained_intron	KNOWN	None	13208	None	None	72848444	72851033	-1	None	None
5	ANKRA2	ENSG00000164331	ENST00000504641	protein_coding	PUTATIVE	None	13208	533	176	72850732	72861221	-1	None	None
5	ANKRA2	ENSG00000164331	ENST00000506130	retained_intron	KNOWN	None	13208	None	None	72853256	72858471	-1	None	None
5	ANKRA2	ENSG00000164331	ENST00000515804	retained_intron	KNOWN	None	13208	None	None	72853256	72861492	-1	None	None
5	ANKRA2	ENSG00000164331	ENST00000514916	retained_intron	KNOWN	None	13208	None	None	72853259	72857194	-1	None	None
5	ANKRA2	ENSG00000164331	ENST00000509433	retained_intron	KNOWN	None	13208	None	None	72858311	72861029	-1	None	None
6	GLP1R	ENSG00000112164	ENST00000373256	protein_coding	KNOWN	CCDS4839	4324	1392	463	39016574	39055519	1	None	None
17	TM4SF5	ENSG00000142484	ENST00000576530	retained_intron	KNOWN	None	11857	None	None	4675179	4686506	1	None	None
17	TM4SF5	ENSG00000142484	ENST00000270560	protein_coding	KNOWN	CCDS11054	11857	594	197	4675187	4686506	1	None	None
8	NKX6-3	ENSG00000165066	ENST00000524115	protein_coding	KNOWN	CCDS6118	26328	408	135	41502697	41504878	-1	None	FLJ25169
8	NKX6-3	ENSG00000165066	ENST00000518699	protein_coding	KNOWN	None	26328	798	265	41503912	41508855	-1	None	FLJ25169
3	TRAK1	ENSG00000182606	ENST00000487159	processed_transcript	KNOWN	None	29947	None	None	42055294	42267381	1	None	OIP106, KIAA1042, MILT1
3	TRAK1	ENSG00000182606	ENST00000484786	processed_transcript	KNOWN	None	29947	None	None	42128692	42244398	1	None	OIP106, KIAA1042, MILT1
3	TRAK1	ENSG00000182606	ENST00000327628	protein_coding	PUTATIVE	CCDS43072	29947	2862	953	42132562	42267260	1	None	OIP106, KIAA1042, MILT1
3	TRAK1	ENSG00000182606	ENST00000449246	protein_coding	PUTATIVE	CCDS58826	29947	1671	556	42190727	42245681	1	None	OIP106, KIAA1042, MILT1
3	TRAK1	ENSG00000182606	ENST00000418790	nonsense_mediated_decay	KNOWN	None	29947	135	44	42190851	42226249	1	None	OIP106, KIAA1042, MILT1
3	TRAK1	ENSG00000182606	ENST00000341421	protein_coding	KNOWN	CCDS2695	29947	2061	686	42201661	42254115	1	None	OIP106, KIAA1042, MILT1
3	TRAK1	ENSG00000182606	ENST00000396175	protein_coding	KNOWN	None	29947	2688	895	42201661	42267381	1	None	OIP106, KIAA1042, MILT1
3	TRAK1	ENSG00000182606	ENST00000469506	processed_transcript	PUTATIVE	None	29947	None	None	42201704	42226415	1	None	OIP106, KIAA1042, MILT1
3	TRAK1	ENSG00000182606	ENST00000427771	protein_coding	PUTATIVE	None	29947	900	299	42234569	42244246	1	None	OIP106, KIAA1042, MILT1
19	LMTK3	ENSG00000142235	ENST00000600059	protein_coding	KNOWN	None	19295	4383	1460	48988528	49015061	-1	None	KIAA1883, LMR3, TYKLM3
19	LMTK3	ENSG00000142235	ENST00000270238	protein_coding	KNOWN	CCDS46136	19295	4470	1489	48988528	49016446	-1	None	KIAA1883, LMR3, TYKLM3
10	None	ENSG00000237233	ENST00000389640	antisense	KNOWN	None	None	None	None	63212397	63241714	1	None	None
17	GID4	ENSG00000141034	ENST00000268719	protein_coding	KNOWN	CCDS11190	28453	903	300	17942606	17971718	1	C17orf39	VID24
17	GID4	ENSG00000141034	ENST00000376345	protein_coding	NOVEL	None	28453	930	309	17942759	17960781	1	C17orf39	VID24
17	GID4	ENSG00000141034	ENST00000459843	protein_coding	PUTATIVE	None	28453	336	111	17957450	17965497	1	C17orf39	VID24
17	GID4	ENSG00000141034	ENST00000481836	protein_coding	PUTATIVE	None	28453	441	146	17957462	17968597	1	C17orf39	VID24
17	GID4	ENSG00000141034	ENST00000579871	processed_transcript	PUTATIVE	None	28453	None	None	17969403	17971280	1	C17orf39	VID24
10	None	ENSG00000233643	ENST00000441001	lincRNA	KNOWN	None	None	None	None	63541503	63581004	-1	None	None
HSCHR6_MHC_DBB	ZFP57	ENSG00000223852	ENST00000437216	protein_coding	KNOWN	None	18791	1551	516	29640217	29648836	-1	C6orf40	ZNF698, bA145L22, bA145L22.2
HSCHR6_MHC_DBB	ZFP57	ENSG00000223852	ENST00000548574	protein_coding	KNOWN	None	18791	1611	536	29640126	29644890	-1	C6orf40	ZNF698, bA145L22, bA145L22.2
HSCHR6_MHC_DBB	ZFP57	ENSG00000223852	ENST00000547542	protein_coding	KNOWN	None	18791	1551	516	29640126	29644739	-1	C6orf40	ZNF698, bA145L22, bA145L22.2
14	None	ENSG00000203546	ENST00000549185	nonsense_mediated_decay	KNOWN	None	None	204	67	31803518	31926647	-1	None	None
14	None	ENSG00000203546	ENST00000547378	protein_coding	PUTATIVE	None	None	204	67	31869485	31926613	-1	None	None
14	None	ENSG00000203546	ENST00000547760	nonsense_mediated_decay	KNOWN	None	None	190	62	31896713	31926582	-1	None	None
22	BCR	ENSG00000186716	ENST00000479188	processed_transcript	KNOWN	None	1014	None	None	23521891	23603615	1	D22S11, BCR1	D22S662, CML, PHL, ALL
22	BCR	ENSG00000186716	ENST00000305877	protein_coding	KNOWN	CCDS13806	1014	3816	1271	23522397	23660224	1	D22S11, BCR1	D22S662, CML, PHL, ALL
22	BCR	ENSG00000186716	ENST00000359540	protein_coding	KNOWN	CCDS13807	1014	3684	1227	23522552	23658137	1	D22S11, BCR1	D22S662, CML, PHL, ALL
22	BCR	ENSG00000186716	ENST00000463770	processed_transcript	KNOWN	None	1014	None	None	23540440	23596020	1	D22S11, BCR1	D22S662, CML, PHL, ALL
22	BCR	ENSG00000186716	ENST00000487679	processed_transcript	KNOWN	None	1014	None	None	23540519	23596020	1	D22S11, BCR1	D22S662, CML, PHL, ALL
22	BCR	ENSG00000186716	ENST00000480973	processed_transcript	KNOWN	None	1014	None	None	23593219	23603580	1	D22S11, BCR1	D22S662, CML, PHL, ALL
22	BCR	ENSG00000186716	ENST00000427791	protein_coding	PUTATIVE	None	1014	771	256	23596147	23627301	1	D22S11, BCR1	D22S662, CML, PHL, ALL
22	BCR	ENSG00000186716	ENST00000487968	retained_intron	KNOWN	None	1014	None	None	23625396	23633318	1	D22S11, BCR1	D22S662, CML, PHL, ALL
22	BCR	ENSG00000186716	ENST00000466076	retained_intron	KNOWN	None	1014	None	None	23625975	23629360	1	D22S11, BCR1	D22S662, CML, PHL, ALL
22	BCR	ENSG00000186716	ENST00000419722	processed_transcript	KNOWN	None	1014	None	None	23631802	23652620	1	D22S11, BCR1	D22S662, CML, PHL, ALL
22	BCR	ENSG00000186716	ENST00000471452	processed_transcript	KNOWN	None	1014	None	None	23637228	23645050	1	D22S11, BCR1	D22S662, CML, PHL, ALL
22	BCR	ENSG00000186716	ENST00000478978	processed_transcript	KNOWN	None	1014	None	None	23648341	23652620	1	D22S11, BCR1	D22S662, CML, PHL, ALL
22	BCR	ENSG00000186716	ENST00000475025	processed_transcript	KNOWN	None	1014	None	None	23648932	23656186	1	D22S11, BCR1	D22S662, CML, PHL, ALL
22	BCR	ENSG00000186716	ENST00000436990	processed_transcript	KNOWN	None	1014	None	None	23651661	23660221	1	D22S11, BCR1	D22S662, CML, PHL, ALL
22	BCR	ENSG00000186716	ENST00000458056	processed_transcript	KNOWN	None	1014	None	None	23654575	23656882	1	D22S11, BCR1	D22S662, CML, PHL, ALL
22	BCR	ENSG00000186716	ENST00000398512	protein_coding	KNOWN	None	1014	1404	467	23522552	23585129	1	D22S11, BCR1	D22S662, CML, PHL, ALL
19	SULT2B1	ENSG00000088002	ENST00000201586	protein_coding	KNOWN	CCDS12723	11459	1098	365	49055332	49102682	1	None	HSST2
19	SULT2B1	ENSG00000088002	ENST00000323090	protein_coding	KNOWN	CCDS12724	11459	1053	350	49078797	49102682	1	None	HSST2
19	SULT2B1	ENSG00000088002	ENST00000594274	processed_transcript	KNOWN	None	11459	None	None	49094358	49102531	1	None	HSST2
19	SULT2B1	ENSG00000088002	ENST00000597923	retained_intron	KNOWN	None	11459	None	None	49099043	49102680	1	None	HSST2
11	RARRES3	ENSG00000133321	ENST00000537871	processed_transcript	KNOWN	None	9869	None	None	63304281	63313934	1	None	TIG3, HRASLS4
11	RARRES3	ENSG00000133321	ENST00000439013	protein_coding	PUTATIVE	None	9869	471	156	63304288	63312859	1	None	TIG3, HRASLS4
11	RARRES3	ENSG00000133321	ENST00000255688	protein_coding	KNOWN	CCDS41662	9869	495	164	63304293	63313934	1	None	TIG3, HRASLS4
11	RARRES3	ENSG00000133321	ENST00000544107	processed_transcript	KNOWN	None	9869	None	None	63304317	63313797	1	None	TIG3, HRASLS4
11	RARRES3	ENSG00000133321	ENST00000354445	protein_coding	KNOWN	None	9869	495	164	63305868	63313929	1	None	TIG3, HRASLS4
10	None	ENSG00000226412	ENST00000457848	lincRNA	KNOWN	None	None	None	None	33867859	33888968	-1	None	None
X	BTK	ENSG00000010671	ENST00000308731	protein_coding	KNOWN	CCDS14482	1133	1980	659	100604438	100641183	-1	AGMX1, IMD1	ATK, XLA, PSCTK1
X	BTK	ENSG00000010671	ENST00000470069	processed_transcript	KNOWN	None	1133	None	None	100608031	100608972	-1	AGMX1, IMD1	ATK, XLA, PSCTK1
X	BTK	ENSG00000010671	ENST00000488970	processed_transcript	KNOWN	None	1133	None	None	100608307	100609209	-1	AGMX1, IMD1	ATK, XLA, PSCTK1
X	BTK	ENSG00000010671	ENST00000478995	retained_intron	KNOWN	None	1133	None	None	100610573	100611792	-1	AGMX1, IMD1	ATK, XLA, PSCTK1
X	BTK	ENSG00000010671	ENST00000470329	retained_intron	KNOWN	None	1133	None	None	100611499	100613349	-1	AGMX1, IMD1	ATK, XLA, PSCTK1
X	BTK	ENSG00000010671	ENST00000464006	processed_transcript	KNOWN	None	1133	None	None	100617179	100617803	-1	AGMX1, IMD1	ATK, XLA, PSCTK1
X	BTK	ENSG00000010671	ENST00000464567	processed_transcript	KNOWN	None	1133	None	None	100629294	100641136	-1	AGMX1, IMD1	ATK, XLA, PSCTK1
X	BTK	ENSG00000010671	ENST00000372880	protein_coding	KNOWN	None	1133	1452	483	100604435	100641167	-1	AGMX1, IMD1	ATK, XLA, PSCTK1
10	GRK5	ENSG00000198873	ENST00000392870	protein_coding	KNOWN	CCDS7612	4544	1773	590	120967101	121215131	1	GPRK5	None
10	GRK5	ENSG00000198873	ENST00000473264	processed_transcript	KNOWN	None	4544	None	None	121211960	121212751	1	GPRK5	None
10	GRK5	ENSG00000198873	ENST00000369108	protein_coding	KNOWN	None	4544	1458	485	121137949	121214630	1	GPRK5	None
7	ATP5J2-PTCD1	ENSG00000248919	ENST00000413834	protein_coding	KNOWN	CCDS56496	38844	2250	749	99017372	99063787	-1	None	None
7	ATP5J2-PTCD1	ENSG00000248919	ENST00000451138	nonsense_mediated_decay	KNOWN	None	38844	165	54	99032801	99063785	-1	None	None
7	IGF2BP3	ENSG00000136231	ENST00000258729	protein_coding	KNOWN	CCDS5382	28868	1740	579	23349828	23510086	-1	None	IMP-3, CT98
7	IGF2BP3	ENSG00000136231	ENST00000421467	nonsense_mediated_decay	KNOWN	None	28868	246	81	23350860	23510074	-1	None	IMP-3, CT98
7	IGF2BP3	ENSG00000136231	ENST00000498363	retained_intron	KNOWN	None	28868	None	None	23351992	23357452	-1	None	IMP-3, CT98
7	IGF2BP3	ENSG00000136231	ENST00000467592	retained_intron	KNOWN	None	28868	None	None	23357312	23387431	-1	None	IMP-3, CT98
7	IGF2BP3	ENSG00000136231	ENST00000497563	processed_transcript	KNOWN	None	28868	None	None	23358757	23387422	-1	None	IMP-3, CT98
7	IGF2BP3	ENSG00000136231	ENST00000480547	retained_intron	KNOWN	None	28868	None	None	23381685	23387431	-1	None	IMP-3, CT98
7	IGF2BP3	ENSG00000136231	ENST00000495009	retained_intron	KNOWN	None	28868	None	None	23381715	23385780	-1	None	IMP-3, CT98
7	IGF2BP3	ENSG00000136231	ENST00000468263	processed_transcript	KNOWN	None	28868	None	None	23387250	23507545	-1	None	IMP-3, CT98
7	IGF2BP3	ENSG00000136231	ENST00000492771	processed_transcript	KNOWN	None	28868	None	None	23387282	23434296	-1	None	IMP-3, CT98
7	IGF2BP3	ENSG00000136231	ENST00000479504	processed_transcript	KNOWN	None	28868	None	None	23387318	23470915	-1	None	IMP-3, CT98
7	IGF2BP3	ENSG00000136231	ENST00000466809	processed_transcript	KNOWN	None	28868	None	None	23387343	23470917	-1	None	IMP-3, CT98
7	IGF2BP3	ENSG00000136231	ENST00000491719	processed_transcript	KNOWN	None	28868	None	None	23391006	23509121	-1	None	IMP-3, CT98
7	IGF2BP3	ENSG00000136231	ENST00000465058	processed_transcript	KNOWN	None	28868	None	None	23391063	23470922	-1	None	IMP-3, CT98
7	IGF2BP3	ENSG00000136231	ENST00000469723	processed_transcript	KNOWN	None	28868	None	None	23391099	23470922	-1	None	IMP-3, CT98
7	IGF2BP3	ENSG00000136231	ENST00000474105	processed_transcript	KNOWN	None	28868	None	None	23391125	23442329	-1	None	IMP-3, CT98
7	IGF2BP3	ENSG00000136231	ENST00000476938	retained_intron	KNOWN	None	28868	None	None	23400960	23509635	-1	None	IMP-3, CT98
7	IGF2BP3	ENSG00000136231	ENST00000468005	retained_intron	KNOWN	None	28868	None	None	23452863	23509979	-1	None	IMP-3, CT98
4	OCIAD2	ENSG00000145247	ENST00000508632	protein_coding	KNOWN	CCDS33981	28685	465	154	48887036	48908845	-1	None	MGC45416
4	OCIAD2	ENSG00000145247	ENST00000514576	retained_intron	KNOWN	None	28685	None	None	48887399	48908815	-1	None	MGC45416
4	OCIAD2	ENSG00000145247	ENST00000508069	processed_transcript	KNOWN	None	28685	None	None	48887399	48908954	-1	None	MGC45416
4	OCIAD2	ENSG00000145247	ENST00000273860	protein_coding	KNOWN	CCDS3485	28685	300	99	48887405	48908805	-1	None	MGC45416
4	OCIAD2	ENSG00000145247	ENST00000506226	processed_transcript	KNOWN	None	28685	None	None	48887417	48908791	-1	None	MGC45416
4	OCIAD2	ENSG00000145247	ENST00000381464	protein_coding	KNOWN	None	28685	265	87	48887422	48908774	-1	None	MGC45416
4	OCIAD2	ENSG00000145247	ENST00000512087	processed_transcript	PUTATIVE	None	28685	None	None	48894788	48899220	-1	None	MGC45416
4	OCIAD2	ENSG00000145247	ENST00000510159	nonsense_mediated_decay	KNOWN	None	28685	186	61	48894850	48908744	-1	None	MGC45416
4	OCIAD2	ENSG00000145247	ENST00000514155	processed_transcript	PUTATIVE	None	28685	None	None	48899183	48899865	-1	None	MGC45416
22	ASCC2	ENSG00000100325	ENST00000307790	protein_coding	KNOWN	CCDS13869	24103	2274	757	30184597	30234263	-1	None	ASC1p100, FLJ21588, DKFZp586O0223
22	ASCC2	ENSG00000100325	ENST00000487486	retained_intron	KNOWN	None	24103	None	None	30184600	30200813	-1	None	ASC1p100, FLJ21588, DKFZp586O0223
22	ASCC2	ENSG00000100325	ENST00000472433	processed_transcript	KNOWN	None	24103	None	None	30184602	30209531	-1	None	ASC1p100, FLJ21588, DKFZp586O0223
22	ASCC2	ENSG00000100325	ENST00000458594	nonsense_mediated_decay	KNOWN	None	24103	114	37	30184605	30230539	-1	None	ASC1p100, FLJ21588, DKFZp586O0223
22	ASCC2	ENSG00000100325	ENST00000397771	protein_coding	KNOWN	CCDS13869	24103	2274	757	30184631	30234265	-1	None	ASC1p100, FLJ21588, DKFZp586O0223
22	ASCC2	ENSG00000100325	ENST00000411532	protein_coding	PUTATIVE	None	24103	261	86	30189566	30198091	-1	None	ASC1p100, FLJ21588, DKFZp586O0223
22	ASCC2	ENSG00000100325	ENST00000483380	processed_transcript	KNOWN	None	24103	None	None	30189576	30195291	-1	None	ASC1p100, FLJ21588, DKFZp586O0223
22	ASCC2	ENSG00000100325	ENST00000478812	processed_transcript	KNOWN	None	24103	None	None	30202203	30212729	-1	None	ASC1p100, FLJ21588, DKFZp586O0223
22	ASCC2	ENSG00000100325	ENST00000464287	processed_transcript	KNOWN	None	24103	None	None	30202825	30206277	-1	None	ASC1p100, FLJ21588, DKFZp586O0223
22	ASCC2	ENSG00000100325	ENST00000449900	nonsense_mediated_decay	KNOWN	None	24103	237	78	30209460	30234261	-1	None	ASC1p100, FLJ21588, DKFZp586O0223
22	ASCC2	ENSG00000100325	ENST00000431535	protein_coding	KNOWN	None	24103	720	239	30210646	30230539	-1	None	ASC1p100, FLJ21588, DKFZp586O0223
22	ASCC2	ENSG00000100325	ENST00000495967	processed_transcript	KNOWN	None	24103	None	None	30211195	30234263	-1	None	ASC1p100, FLJ21588, DKFZp586O0223
22	ASCC2	ENSG00000100325	ENST00000412689	protein_coding	PUTATIVE	None	24103	725	240	30217881	30228331	-1	None	ASC1p100, FLJ21588, DKFZp586O0223
22	ASCC2	ENSG00000100325	ENST00000465667	retained_intron	KNOWN	None	24103	None	None	30218131	30234217	-1	None	ASC1p100, FLJ21588, DKFZp586O0223
22	ASCC2	ENSG00000100325	ENST00000463203	retained_intron	KNOWN	None	24103	None	None	30218341	30221347	-1	None	ASC1p100, FLJ21588, DKFZp586O0223
22	ASCC2	ENSG00000100325	ENST00000495681	retained_intron	KNOWN	None	24103	None	None	30221076	30234263	-1	None	ASC1p100, FLJ21588, DKFZp586O0223
22	ASCC2	ENSG00000100325	ENST00000462454	retained_intron	KNOWN	None	24103	None	None	30221092	30228569	-1	None	ASC1p100, FLJ21588, DKFZp586O0223
22	ASCC2	ENSG00000100325	ENST00000453160	nonsense_mediated_decay	KNOWN	None	24103	163	53	30221097	30234250	-1	None	ASC1p100, FLJ21588, DKFZp586O0223
22	ASCC2	ENSG00000100325	ENST00000460313	retained_intron	KNOWN	None	24103	None	None	30221150	30234271	-1	None	ASC1p100, FLJ21588, DKFZp586O0223
22	ASCC2	ENSG00000100325	ENST00000477074	retained_intron	KNOWN	None	24103	None	None	30221203	30222120	-1	None	ASC1p100, FLJ21588, DKFZp586O0223
22	ASCC2	ENSG00000100325	ENST00000454854	nonsense_mediated_decay	KNOWN	None	24103	114	37	30221683	30234263	-1	None	ASC1p100, FLJ21588, DKFZp586O0223
22	ASCC2	ENSG00000100325	ENST00000492821	retained_intron	KNOWN	None	24103	None	None	30230075	30234263	-1	None	ASC1p100, FLJ21588, DKFZp586O0223
22	ASCC2	ENSG00000100325	ENST00000542393	protein_coding	KNOWN	CCDS56226	24103	2046	681	30184871	30234263	-1	None	ASC1p100, FLJ21588, DKFZp586O0223
18	CEP192	ENSG00000101639	ENST00000589596	protein_coding	NOVEL	None	25515	3713	1236	12991361	13059313	1	None	KIAA1569, FLJ10352, PPP1R62
18	CEP192	ENSG00000101639	ENST00000506447	protein_coding	KNOWN	CCDS32792	25515	7614	2537	12991361	13125035	1	None	KIAA1569, FLJ10352, PPP1R62
18	CEP192	ENSG00000101639	ENST00000507064	processed_transcript	KNOWN	None	25515	None	None	12991376	13008646	1	None	KIAA1569, FLJ10352, PPP1R62
18	CEP192	ENSG00000101639	ENST00000513432	nonsense_mediated_decay	KNOWN	None	25515	1223	406	13008499	13125051	1	None	KIAA1569, FLJ10352, PPP1R62
18	CEP192	ENSG00000101639	ENST00000511820	protein_coding	NOVEL	None	25515	6230	2075	13029786	13124994	1	None	KIAA1569, FLJ10352, PPP1R62
18	CEP192	ENSG00000101639	ENST00000510237	nonsense_mediated_decay	KNOWN	None	25515	5796	1931	13029812	13125049	1	None	KIAA1569, FLJ10352, PPP1R62
18	CEP192	ENSG00000101639	ENST00000585938	nonsense_mediated_decay	KNOWN	None	25515	220	72	13056630	13059212	1	None	KIAA1569, FLJ10352, PPP1R62
18	CEP192	ENSG00000101639	ENST00000589993	nonsense_mediated_decay	KNOWN	None	25515	2702	899	13059181	13125035	1	None	KIAA1569, FLJ10352, PPP1R62
18	CEP192	ENSG00000101639	ENST00000507254	processed_transcript	KNOWN	None	25515	None	None	13068414	13092526	1	None	KIAA1569, FLJ10352, PPP1R62
18	CEP192	ENSG00000101639	ENST00000540847	processed_transcript	KNOWN	None	25515	None	None	13073115	13125035	1	None	KIAA1569, FLJ10352, PPP1R62
18	CEP192	ENSG00000101639	ENST00000508150	nonsense_mediated_decay	KNOWN	None	25515	144	47	13087148	13095684	1	None	KIAA1569, FLJ10352, PPP1R62
18	CEP192	ENSG00000101639	ENST00000508539	processed_transcript	KNOWN	None	25515	None	None	13103503	13116502	1	None	KIAA1569, FLJ10352, PPP1R62
18	CEP192	ENSG00000101639	ENST00000513183	processed_transcript	PUTATIVE	None	25515	None	None	13116403	13125029	1	None	KIAA1569, FLJ10352, PPP1R62
18	CEP192	ENSG00000101639	ENST00000430049	protein_coding	KNOWN	None	25515	6189	2062	13029786	13124994	1	None	KIAA1569, FLJ10352, PPP1R62
18	CEP192	ENSG00000101639	ENST00000325971	protein_coding	KNOWN	None	25515	5826	1941	12991361	13125047	1	None	KIAA1569, FLJ10352, PPP1R62
17	SCO1	ENSG00000133028	ENST00000255390	protein_coding	KNOWN	CCDS11158	10603	906	301	10583654	10600885	-1	SCOD1	None
17	SCO1	ENSG00000133028	ENST00000577427	protein_coding	NOVEL	None	10603	813	270	10583671	10600847	-1	SCOD1	None
17	SCO1	ENSG00000133028	ENST00000577335	nonsense_mediated_decay	KNOWN	None	10603	276	91	10596100	10600849	-1	SCOD1	None
17	SCO1	ENSG00000133028	ENST00000582053	protein_coding	PUTATIVE	None	10603	69	22	10596241	10601692	-1	SCOD1	None
17	SCO1	ENSG00000133028	ENST00000579396	retained_intron	KNOWN	None	10603	None	None	10598879	10600844	-1	SCOD1	None
8	None	ENSG00000253903	ENST00000521869	protein_coding	PUTATIVE	None	None	109	35	26943694	26944766	1	None	None
1	HDAC1	ENSG00000116478	ENST00000373548	protein_coding	KNOWN	CCDS360	4852	1449	482	32757687	32799236	1	RPD3L1	HD1, GON-10
1	HDAC1	ENSG00000116478	ENST00000481281	processed_transcript	KNOWN	None	4852	None	None	32757736	32793275	1	RPD3L1	HD1, GON-10
1	HDAC1	ENSG00000116478	ENST00000463172	processed_transcript	KNOWN	None	4852	None	None	32757738	32793046	1	RPD3L1	HD1, GON-10
1	HDAC1	ENSG00000116478	ENST00000428704	protein_coding	NOVEL	None	4852	634	210	32757741	32794741	1	RPD3L1	HD1, GON-10
1	HDAC1	ENSG00000116478	ENST00000472928	processed_transcript	KNOWN	None	4852	None	None	32757762	32793278	1	RPD3L1	HD1, GON-10
1	HDAC1	ENSG00000116478	ENST00000490081	processed_transcript	KNOWN	None	4852	None	None	32792790	32797382	1	RPD3L1	HD1, GON-10
1	HDAC1	ENSG00000116478	ENST00000482310	processed_transcript	KNOWN	None	4852	None	None	32792875	32797183	1	RPD3L1	HD1, GON-10
1	HDAC1	ENSG00000116478	ENST00000476391	retained_intron	KNOWN	None	4852	None	None	32795081	32799236	1	RPD3L1	HD1, GON-10
1	HDAC1	ENSG00000116478	ENST00000484305	retained_intron	KNOWN	None	4852	None	None	32795750	32796476	1	RPD3L1	HD1, GON-10
1	HDAC1	ENSG00000116478	ENST00000471488	retained_intron	KNOWN	None	4852	None	None	32797137	32798680	1	RPD3L1	HD1, GON-10
1	HDAC1	ENSG00000116478	ENST00000373541	protein_coding	KNOWN	None	4852	870	289	32757993	32798986	1	RPD3L1	HD1, GON-10
3	DGKG	ENSG00000058866	ENST00000447054	processed_transcript	KNOWN	None	2853	None	None	185823457	185882756	-1	DAGK3	None
3	DGKG	ENSG00000058866	ENST00000265022	protein_coding	KNOWN	CCDS3274	2853	2376	791	185864990	186080026	-1	DAGK3	None
3	DGKG	ENSG00000058866	ENST00000344484	protein_coding	KNOWN	CCDS43182	2853	2301	766	185867026	186079777	-1	DAGK3	None
3	DGKG	ENSG00000058866	ENST00000382164	protein_coding	KNOWN	CCDS43181	2853	2259	752	185867246	186079746	-1	DAGK3	None
3	DGKG	ENSG00000058866	ENST00000490452	retained_intron	KNOWN	None	2853	None	None	185867954	185960426	-1	DAGK3	None
3	DGKG	ENSG00000058866	ENST00000480809	retained_intron	KNOWN	None	2853	None	None	185875972	186079866	-1	DAGK3	None
3	DGKG	ENSG00000058866	ENST00000480933	retained_intron	KNOWN	None	2853	None	None	185975553	185979748	-1	DAGK3	None
3	DGKG	ENSG00000058866	ENST00000472506	retained_intron	KNOWN	None	2853	None	None	185985397	185993442	-1	DAGK3	None
3	DGKG	ENSG00000058866	ENST00000437018	protein_coding	NOVEL	None	2853	462	153	185985474	185998503	-1	DAGK3	None
3	DGKG	ENSG00000058866	ENST00000482566	retained_intron	KNOWN	None	2853	None	None	185996923	185999048	-1	DAGK3	None
3	DGKG	ENSG00000058866	ENST00000466466	retained_intron	KNOWN	None	2853	None	None	186024497	186038277	-1	DAGK3	None
3	DGKG	ENSG00000058866	ENST00000544847	protein_coding	KNOWN	None	2853	2199	732	185867402	186080021	-1	DAGK3	None
4	KLHL2	ENSG00000109466	ENST00000226725	protein_coding	KNOWN	CCDS34094	6353	1782	593	166128770	166244305	1	None	MAV
4	KLHL2	ENSG00000109466	ENST00000511305	protein_coding	NOVEL	None	6353	433	143	166128975	166159983	1	None	MAV
4	KLHL2	ENSG00000109466	ENST00000509704	protein_coding	PUTATIVE	None	6353	352	116	166130552	166184433	1	None	MAV
4	KLHL2	ENSG00000109466	ENST00000514860	protein_coding	PUTATIVE	CCDS54815	6353	1794	597	166131045	166243610	1	None	MAV
4	KLHL2	ENSG00000109466	ENST00000506824	nonsense_mediated_decay	KNOWN	None	6353	168	55	166131188	166244305	1	None	MAV
4	KLHL2	ENSG00000109466	ENST00000421009	protein_coding	PUTATIVE	None	6353	1491	496	166141153	166244097	1	None	MAV
4	KLHL2	ENSG00000109466	ENST00000506541	processed_transcript	KNOWN	None	6353	None	None	166159928	166231904	1	None	MAV
4	KLHL2	ENSG00000109466	ENST00000506761	protein_coding	PUTATIVE	None	6353	1284	427	166161500	166243863	1	None	MAV
4	KLHL2	ENSG00000109466	ENST00000509028	processed_transcript	KNOWN	None	6353	None	None	166184409	166243690	1	None	MAV
4	KLHL2	ENSG00000109466	ENST00000538127	protein_coding	KNOWN	CCDS54816	6353	1518	505	166131171	166244308	1	None	MAV
5	BTNL9	ENSG00000165810	ENST00000376841	protein_coding	KNOWN	None	24176	1035	344	180467225	180484169	1	None	FLJ32535
5	BTNL9	ENSG00000165810	ENST00000327705	protein_coding	KNOWN	CCDS4460	24176	1608	535	180467225	180488523	1	None	FLJ32535
5	BTNL9	ENSG00000165810	ENST00000491209	nonsense_mediated_decay	KNOWN	None	24176	948	315	180467237	180482768	1	None	FLJ32535
5	BTNL9	ENSG00000165810	ENST00000515271	protein_coding	PUTATIVE	None	24176	741	246	180467266	180481001	1	None	FLJ32535
5	BTNL9	ENSG00000165810	ENST00000513424	processed_transcript	KNOWN	None	24176	None	None	180467272	180475104	1	None	FLJ32535
5	BTNL9	ENSG00000165810	ENST00000511589	processed_transcript	PUTATIVE	None	24176	None	None	180479785	180480873	1	None	FLJ32535
5	BTNL9	ENSG00000165810	ENST00000509395	retained_intron	KNOWN	None	24176	None	None	180480049	180480811	1	None	FLJ32535
5	BTNL9	ENSG00000165810	ENST00000511056	retained_intron	KNOWN	None	24176	None	None	180480120	180482302	1	None	FLJ32535
5	BTNL9	ENSG00000165810	ENST00000506782	retained_intron	KNOWN	None	24176	None	None	180480602	180482316	1	None	FLJ32535
5	BTNL9	ENSG00000165810	ENST00000512570	retained_intron	KNOWN	None	24176	None	None	180481061	180486312	1	None	FLJ32535
5	BTNL9	ENSG00000165810	ENST00000376842	protein_coding	KNOWN	None	24176	1611	536	180467225	180488518	1	None	FLJ32535
HSCHR6_MHC_SSTO	EHMT2	ENSG00000224143	ENST00000465622	processed_transcript	KNOWN	None	14129	None	None	31839421	31844468	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_SSTO	EHMT2	ENSG00000224143	ENST00000465316	retained_intron	KNOWN	None	14129	None	None	31839421	31844803	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_SSTO	EHMT2	ENSG00000224143	ENST00000479426	retained_intron	KNOWN	None	14129	None	None	31839421	31846099	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_SSTO	EHMT2	ENSG00000224143	ENST00000425250	protein_coding	KNOWN	None	14129	2769	922	31839421	31849264	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_SSTO	EHMT2	ENSG00000224143	ENST00000487513	processed_transcript	KNOWN	None	14129	None	None	31839421	31849264	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_SSTO	EHMT2	ENSG00000224143	ENST00000458593	protein_coding	KNOWN	None	14129	2667	888	31839421	31849264	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_SSTO	EHMT2	ENSG00000224143	ENST00000463686	protein_coding	KNOWN	None	14129	2769	922	31839421	31849264	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_SSTO	EHMT2	ENSG00000224143	ENST00000436777	protein_coding	KNOWN	None	14129	2667	888	31839421	31849264	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_SSTO	EHMT2	ENSG00000224143	ENST00000447162	protein_coding	KNOWN	None	14129	894	297	31843481	31846726	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
HSCHR6_MHC_SSTO	EHMT2	ENSG00000224143	ENST00000497839	retained_intron	KNOWN	None	14129	None	None	31844335	31846781	-1	C6orf30, BAT8	G9A, Em:AF134726.3, NG36/G9a, KMT1C
12	DCN	ENSG00000011465	ENST00000052754	protein_coding	KNOWN	CCDS9039	2705	1080	359	91539025	91576900	-1	None	DSPG2, SLRR1B
12	DCN	ENSG00000011465	ENST00000548218	protein_coding	PUTATIVE	None	2705	157	51	91539303	91539985	-1	None	DSPG2, SLRR1B
12	DCN	ENSG00000011465	ENST00000552962	protein_coding	KNOWN	CCDS9039	2705	1080	359	91539513	91576601	-1	None	DSPG2, SLRR1B
12	DCN	ENSG00000011465	ENST00000420120	protein_coding	KNOWN	CCDS9040	2705	753	250	91539835	91572329	-1	None	DSPG2, SLRR1B
12	DCN	ENSG00000011465	ENST00000441303	protein_coding	KNOWN	CCDS9042	2705	519	172	91539835	91572329	-1	None	DSPG2, SLRR1B
12	DCN	ENSG00000011465	ENST00000547568	protein_coding	KNOWN	CCDS9041	2705	639	212	91539835	91576582	-1	None	DSPG2, SLRR1B
12	DCN	ENSG00000011465	ENST00000546391	protein_coding	PUTATIVE	None	2705	531	176	91539943	91573290	-1	None	DSPG2, SLRR1B
12	DCN	ENSG00000011465	ENST00000456569	protein_coding	KNOWN	CCDS44951	2705	228	75	91540013	91572329	-1	None	DSPG2, SLRR1B
12	DCN	ENSG00000011465	ENST00000550758	protein_coding	PUTATIVE	None	2705	286	94	91544560	91546926	-1	None	DSPG2, SLRR1B
12	DCN	ENSG00000011465	ENST00000547937	protein_coding	KNOWN	None	2705	538	178	91552073	91574142	-1	None	DSPG2, SLRR1B
12	DCN	ENSG00000011465	ENST00000552145	protein_coding	KNOWN	None	2705	536	177	91552075	91576429	-1	None	DSPG2, SLRR1B
12	DCN	ENSG00000011465	ENST00000550563	protein_coding	KNOWN	None	2705	522	173	91552089	91573132	-1	None	DSPG2, SLRR1B
12	DCN	ENSG00000011465	ENST00000549513	protein_coding	KNOWN	None	2705	358	118	91552253	91574753	-1	None	DSPG2, SLRR1B
12	DCN	ENSG00000011465	ENST00000546370	protein_coding	PUTATIVE	None	2705	267	88	91563411	91573216	-1	None	DSPG2, SLRR1B
12	DCN	ENSG00000011465	ENST00000546745	protein_coding	PUTATIVE	None	2705	297	98	91565919	91576486	-1	None	DSPG2, SLRR1B
12	DCN	ENSG00000011465	ENST00000550099	protein_coding	PUTATIVE	None	2705	297	98	91566305	91573272	-1	None	DSPG2, SLRR1B
12	DCN	ENSG00000011465	ENST00000551354	protein_coding	PUTATIVE	None	2705	303	100	91568895	91573310	-1	None	DSPG2, SLRR1B
12	DCN	ENSG00000011465	ENST00000548768	processed_transcript	KNOWN	None	2705	None	None	91572976	91574258	-1	None	DSPG2, SLRR1B
12	DCN	ENSG00000011465	ENST00000228329	protein_coding	KNOWN	CCDS9040	2705	753	250	91539036	91576806	-1	None	DSPG2, SLRR1B
12	DCN	ENSG00000011465	ENST00000303320	protein_coding	KNOWN	CCDS9042	2705	519	172	91539036	91576806	-1	None	DSPG2, SLRR1B
12	DCN	ENSG00000011465	ENST00000393155	protein_coding	KNOWN	CCDS9039	2705	1080	359	91539036	91573359	-1	None	DSPG2, SLRR1B
12	DCN	ENSG00000011465	ENST00000425043	protein_coding	KNOWN	CCDS9041	2705	639	212	91539036	91572329	-1	None	DSPG2, SLRR1B
X	MAGEC2	ENSG00000046774	ENST00000247452	protein_coding	KNOWN	CCDS14678	13574	1122	373	141290131	141293076	-1	MAGEE1	CT10, MAGE-C2
12	CLEC2B	ENSG00000110852	ENST00000228438	protein_coding	KNOWN	CCDS8605	2053	450	149	10005583	10022735	-1	CLECSF2	AICL, HP10085
12	CLEC2B	ENSG00000110852	ENST00000538152	protein_coding	PUTATIVE	None	2053	243	80	10005732	10007448	-1	CLECSF2	AICL, HP10085
12	CLEC2B	ENSG00000110852	ENST00000540743	retained_intron	KNOWN	None	2053	None	None	10009500	10021985	-1	CLECSF2	AICL, HP10085
12	CLEC2B	ENSG00000110852	ENST00000539028	retained_intron	KNOWN	None	2053	None	None	10009527	10021953	-1	CLECSF2	AICL, HP10085
16	LDHD	ENSG00000166816	ENST00000300051	protein_coding	KNOWN	CCDS10913	19708	1524	507	75145758	75150665	-1	None	None
16	LDHD	ENSG00000166816	ENST00000450168	protein_coding	KNOWN	CCDS45529	19708	1455	484	75145794	75150669	-1	None	None
16	LDHD	ENSG00000166816	ENST00000568164	retained_intron	KNOWN	None	19708	None	None	75148402	75149490	-1	None	None
16	LDHD	ENSG00000166816	ENST00000569876	nonsense_mediated_decay	KNOWN	None	19708	108	35	75148424	75150653	-1	None	None
21	PPP6R2P1	ENSG00000233442	ENST00000450880	unprocessed_pseudogene	KNOWN	None	39605	None	None	15379455	15387201	1	None	None
1	TROVE2	ENSG00000116747	ENST00000400968	protein_coding	KNOWN	CCDS1379	11313	1617	538	193028552	193054011	1	SSA2	None
1	TROVE2	ENSG00000116747	ENST00000432079	protein_coding	PUTATIVE	None	11313	792	263	193028584	193060349	1	SSA2	None
1	TROVE2	ENSG00000116747	ENST00000469214	retained_intron	KNOWN	None	11313	None	None	193028725	193029413	1	SSA2	None
1	TROVE2	ENSG00000116747	ENST00000415442	protein_coding	PUTATIVE	None	11313	198	65	193028749	193045020	1	SSA2	None
1	TROVE2	ENSG00000116747	ENST00000460715	processed_transcript	KNOWN	None	11313	None	None	193028753	193054365	1	SSA2	None
1	TROVE2	ENSG00000116747	ENST00000506303	protein_coding	KNOWN	None	11313	125	40	193028789	193038309	1	SSA2	None
1	TROVE2	ENSG00000116747	ENST00000367446	protein_coding	KNOWN	CCDS1379	11313	1617	538	193029164	193055115	1	SSA2	None
1	TROVE2	ENSG00000116747	ENST00000367443	protein_coding	PUTATIVE	CCDS53451	11313	1557	518	193029187	193060907	1	SSA2	None
1	TROVE2	ENSG00000116747	ENST00000367445	protein_coding	PUTATIVE	CCDS41450	11313	1605	534	193029187	193060907	1	SSA2	None
1	TROVE2	ENSG00000116747	ENST00000367444	protein_coding	KNOWN	CCDS41449	11313	1578	525	193029187	193060907	1	SSA2	None
1	TROVE2	ENSG00000116747	ENST00000367441	protein_coding	KNOWN	CCDS1379	11313	1617	538	193038146	193053996	1	SSA2	None
1	TROVE2	ENSG00000116747	ENST00000512587	protein_coding	PUTATIVE	None	11313	581	192	193038362	193045061	1	SSA2	None
1	TROVE2	ENSG00000116747	ENST00000416058	protein_coding	KNOWN	None	11313	792	263	193029004	193053861	1	SSA2	None
6	GRM1	ENSG00000152822	ENST00000507005	retained_intron	KNOWN	None	4593	None	None	146348782	146480828	1	None	GPRC1A, mGlu1, MGLUR1
6	GRM1	ENSG00000152822	ENST00000502405	retained_intron	KNOWN	None	4593	None	None	146348839	146481027	1	None	GPRC1A, mGlu1, MGLUR1
6	GRM1	ENSG00000152822	ENST00000492807	protein_coding	KNOWN	CCDS47497	4593	2721	906	146348918	146758731	1	None	GPRC1A, mGlu1, MGLUR1
6	GRM1	ENSG00000152822	ENST00000355289	protein_coding	PUTATIVE	None	4593	2727	908	146350419	146756021	1	None	GPRC1A, mGlu1, MGLUR1
6	GRM1	ENSG00000152822	ENST00000282753	protein_coding	KNOWN	CCDS5209	4593	3585	1194	146350419	146758734	1	None	GPRC1A, mGlu1, MGLUR1
6	GRM1	ENSG00000152822	ENST00000507907	protein_coding	KNOWN	CCDS47497	4593	2721	906	146350622	146756021	1	None	GPRC1A, mGlu1, MGLUR1
6	GRM1	ENSG00000152822	ENST00000361719	protein_coding	KNOWN	CCDS5209	4593	3585	1194	146348782	146758731	1	None	GPRC1A, mGlu1, MGLUR1
6	GRM1	ENSG00000152822	ENST00000392299	protein_coding	KNOWN	CCDS47497	4593	2721	906	146348782	146758731	1	None	GPRC1A, mGlu1, MGLUR1
5	GDF9	ENSG00000164404	ENST00000378673	protein_coding	KNOWN	CCDS4162	4224	1365	454	132196873	132202329	-1	None	None
5	GDF9	ENSG00000164404	ENST00000464378	processed_transcript	KNOWN	None	4224	None	None	132198076	132202238	-1	None	None
5	GDF9	ENSG00000164404	ENST00000472320	processed_transcript	KNOWN	None	4224	None	None	132198158	132202576	-1	None	None
5	GDF9	ENSG00000164404	ENST00000296875	protein_coding	KNOWN	CCDS4162	4224	1365	454	132196878	132200477	-1	None	None
10	None	ENSG00000221272	ENST00000408345	miRNA	NOVEL	None	None	None	None	63686695	63686777	-1	None	None
Y	DAZ4	ENSG00000205916	ENST00000382314	protein_coding	KNOWN	None	15966	1173	390	26980064	27053183	1	None	None
Y	DAZ4	ENSG00000205916	ENST00000382296	protein_coding	KNOWN	None	15966	1242	413	26997726	27047331	1	None	None
Y	DAZ4	ENSG00000205916	ENST00000449750	protein_coding	KNOWN	CCDS55557	15966	1173	390	26980064	27053183	1	None	None
Y	DAZ4	ENSG00000205916	ENST00000415508	protein_coding	KNOWN	None	15966	1101	366	26980066	27053181	1	None	None
Y	DAZ4	ENSG00000205916	ENST00000440066	protein_coding	KNOWN	CCDS55556	15966	1740	579	26980081	27053183	1	None	None
Y	DAZ4	ENSG00000205916	ENST00000382432	protein_coding	KNOWN	None	15966	1146	381	26980008	27053183	1	None	None
Y	DAZ4	ENSG00000205916	ENST00000400494	protein_coding	KNOWN	None	15966	1146	381	26980087	27053181	1	None	None
Y	DAZ4	ENSG00000205916	ENST00000382290	protein_coding	KNOWN	None	15966	1002	333	26980008	27053183	1	None	None
12	NFE2	ENSG00000123405	ENST00000312156	protein_coding	KNOWN	CCDS8876	7780	1122	373	54685895	54689544	-1	None	NF-E2
12	NFE2	ENSG00000123405	ENST00000435572	protein_coding	KNOWN	CCDS8876	7780	1122	373	54685895	54694905	-1	None	NF-E2
12	NFE2	ENSG00000123405	ENST00000540264	protein_coding	KNOWN	CCDS8876	7780	1122	373	54685957	54689542	-1	None	NF-E2
12	NFE2	ENSG00000123405	ENST00000553070	protein_coding	KNOWN	CCDS8876	7780	1122	373	54686158	54694799	-1	None	NF-E2
12	NFE2	ENSG00000123405	ENST00000553198	protein_coding	KNOWN	None	7780	1031	342	54686249	54691668	-1	None	NF-E2
2	GPD2	ENSG00000115159	ENST00000415049	protein_coding	KNOWN	None	4456	328	108	157291802	157367361	1	None	None
2	GPD2	ENSG00000115159	ENST00000310454	protein_coding	KNOWN	CCDS2202	4456	2184	727	157291953	157442915	1	None	None
2	GPD2	ENSG00000115159	ENST00000438166	protein_coding	KNOWN	CCDS2202	4456	2184	727	157292901	157439570	1	None	None
2	GPD2	ENSG00000115159	ENST00000495851	processed_transcript	KNOWN	None	4456	None	None	157292939	157358393	1	None	None
2	GPD2	ENSG00000115159	ENST00000416888	nonsense_mediated_decay	KNOWN	None	4456	171	56	157330084	157358356	1	None	None
2	GPD2	ENSG00000115159	ENST00000409674	protein_coding	KNOWN	CCDS2202	4456	2184	727	157330084	157439570	1	None	None
2	GPD2	ENSG00000115159	ENST00000409861	nonsense_mediated_decay	KNOWN	None	4456	2184	727	157330084	157470247	1	None	None
2	GPD2	ENSG00000115159	ENST00000430992	nonsense_mediated_decay	KNOWN	None	4456	171	56	157330104	157367346	1	None	None
2	GPD2	ENSG00000115159	ENST00000464846	retained_intron	KNOWN	None	4456	None	None	157427684	157439521	1	None	None
2	GPD2	ENSG00000115159	ENST00000492005	processed_transcript	PUTATIVE	None	4456	None	None	157435595	157439560	1	None	None
2	GPD2	ENSG00000115159	ENST00000496190	processed_transcript	PUTATIVE	None	4456	None	None	157436198	157439785	1	None	None
2	GPD2	ENSG00000115159	ENST00000540309	protein_coding	KNOWN	None	4456	1140	379	157292997	157439916	1	None	None
2	GPD2	ENSG00000115159	ENST00000409125	protein_coding	KNOWN	None	4456	1503	500	157292291	157439710	1	None	None
12	HDAC7	ENSG00000061273	ENST00000080059	protein_coding	KNOWN	CCDS8756	14067	2976	991	48176505	48213568	-1	HDAC7A	DKFZP586J0917
12	HDAC7	ENSG00000061273	ENST00000354334	protein_coding	KNOWN	CCDS41776	14067	2865	954	48176505	48213649	-1	HDAC7A	DKFZP586J0917
12	HDAC7	ENSG00000061273	ENST00000459625	retained_intron	KNOWN	None	14067	None	None	48176509	48187281	-1	HDAC7A	DKFZP586J0917
12	HDAC7	ENSG00000061273	ENST00000548938	nonsense_mediated_decay	KNOWN	None	14067	185	60	48176509	48187325	-1	HDAC7A	DKFZP586J0917
12	HDAC7	ENSG00000061273	ENST00000470668	retained_intron	KNOWN	None	14067	None	None	48176509	48191972	-1	HDAC7A	DKFZP586J0917
12	HDAC7	ENSG00000061273	ENST00000548080	protein_coding	NOVEL	None	14067	1154	383	48177299	48185787	-1	HDAC7A	DKFZP586J0917
12	HDAC7	ENSG00000061273	ENST00000549883	processed_transcript	KNOWN	None	14067	None	None	48177421	48179164	-1	HDAC7A	DKFZP586J0917
12	HDAC7	ENSG00000061273	ENST00000552960	protein_coding	KNOWN	None	14067	2925	974	48177434	48213669	-1	HDAC7A	DKFZP586J0917
12	HDAC7	ENSG00000061273	ENST00000477203	nonsense_mediated_decay	KNOWN	None	14067	675	224	48177457	48192923	-1	HDAC7A	DKFZP586J0917
12	HDAC7	ENSG00000061273	ENST00000380610	protein_coding	KNOWN	None	14067	3045	1014	48177504	48196295	-1	HDAC7A	DKFZP586J0917
12	HDAC7	ENSG00000061273	ENST00000547259	nonsense_mediated_decay	KNOWN	None	14067	331	109	48177583	48180450	-1	HDAC7A	DKFZP586J0917
12	HDAC7	ENSG00000061273	ENST00000427332	protein_coding	NOVEL	None	14067	2859	952	48177624	48214395	-1	HDAC7A	DKFZP586J0917
12	HDAC7	ENSG00000061273	ENST00000471235	retained_intron	KNOWN	None	14067	None	None	48179234	48181952	-1	HDAC7A	DKFZP586J0917
12	HDAC7	ENSG00000061273	ENST00000488927	processed_transcript	KNOWN	None	14067	None	None	48182610	48185783	-1	HDAC7A	DKFZP586J0917
12	HDAC7	ENSG00000061273	ENST00000477937	processed_transcript	KNOWN	None	14067	None	None	48184160	48187169	-1	HDAC7A	DKFZP586J0917
12	HDAC7	ENSG00000061273	ENST00000491464	retained_intron	KNOWN	None	14067	None	None	48188590	48189387	-1	HDAC7A	DKFZP586J0917
12	HDAC7	ENSG00000061273	ENST00000463732	retained_intron	KNOWN	None	14067	None	None	48188619	48189633	-1	HDAC7A	DKFZP586J0917
12	HDAC7	ENSG00000061273	ENST00000485796	nonsense_mediated_decay	KNOWN	None	14067	459	152	48188652	48191275	-1	HDAC7A	DKFZP586J0917
12	HDAC7	ENSG00000061273	ENST00000425451	nonsense_mediated_decay	KNOWN	None	14067	306	101	48189160	48213666	-1	HDAC7A	DKFZP586J0917
12	HDAC7	ENSG00000061273	ENST00000430670	protein_coding	NOVEL	None	14067	824	273	48189450	48213658	-1	HDAC7A	DKFZP586J0917
12	HDAC7	ENSG00000061273	ENST00000422254	protein_coding	NOVEL	None	14067	424	140	48190890	48206834	-1	HDAC7A	DKFZP586J0917
12	HDAC7	ENSG00000061273	ENST00000440293	protein_coding	NOVEL	None	14067	479	158	48190901	48213669	-1	HDAC7A	DKFZP586J0917
12	HDAC7	ENSG00000061273	ENST00000447463	protein_coding	NOVEL	None	14067	463	153	48190923	48214384	-1	HDAC7A	DKFZP586J0917
12	HDAC7	ENSG00000061273	ENST00000434070	protein_coding	NOVEL	None	14067	460	152	48191167	48226915	-1	HDAC7A	DKFZP586J0917
12	HDAC7	ENSG00000061273	ENST00000421231	protein_coding	NOVEL	None	14067	414	137	48191213	48206834	-1	HDAC7A	DKFZP586J0917
12	HDAC7	ENSG00000061273	ENST00000450805	protein_coding	NOVEL	None	14067	338	111	48191897	48213045	-1	HDAC7A	DKFZP586J0917
12	HDAC7	ENSG00000061273	ENST00000417902	protein_coding	KNOWN	None	14067	400	132	48191901	48213744	-1	HDAC7A	DKFZP586J0917
12	HDAC7	ENSG00000061273	ENST00000433685	protein_coding	NOVEL	None	14067	264	87	48191971	48214356	-1	HDAC7A	DKFZP586J0917
12	HDAC7	ENSG00000061273	ENST00000417107	protein_coding	NOVEL	None	14067	234	77	48192343	48213763	-1	HDAC7A	DKFZP586J0917
12	HDAC7	ENSG00000061273	ENST00000445237	protein_coding	NOVEL	None	14067	154	50	48192423	48207267	-1	HDAC7A	DKFZP586J0917
1	MARCKSL1	ENSG00000175130	ENST00000329421	protein_coding	KNOWN	CCDS361	7142	588	195	32799433	32801980	-1	MLP	F52, MacMARCKS, MLP1
19	ZNF738	ENSG00000172687	ENST00000311015	protein_coding	NOVEL	None	32469	414	137	21541732	21562102	1	None	None
19	ZNF738	ENSG00000172687	ENST00000380870	protein_coding	PUTATIVE	None	32469	354	117	21541794	21562104	1	None	None
19	ZNF738	ENSG00000172687	ENST00000597810	protein_coding	PUTATIVE	None	32469	390	129	21541813	21561112	1	None	None
19	ZNF738	ENSG00000172687	ENST00000597492	nonsense_mediated_decay	KNOWN	None	32469	135	44	21541823	21559226	1	None	None
19	ZNF738	ENSG00000172687	ENST00000594245	protein_coding	PUTATIVE	None	32469	207	68	21541832	21555644	1	None	None
13	EDNRB	ENSG00000136160	ENST00000377211	protein_coding	PUTATIVE	CCDS55902	3180	1599	532	78469616	78493903	-1	HSCR2, HSCR	ETB
13	EDNRB	ENSG00000136160	ENST00000334286	protein_coding	KNOWN	CCDS9461	3180	1329	442	78469624	78492945	-1	HSCR2, HSCR	ETB
13	EDNRB	ENSG00000136160	ENST00000475537	processed_transcript	KNOWN	None	3180	None	None	78492474	78493498	-1	HSCR2, HSCR	ETB
13	EDNRB	ENSG00000136160	ENST00000446573	protein_coding	KNOWN	CCDS45059	3180	1311	436	78469616	78492966	-1	HSCR2, HSCR	ETB
1	TSSK3	ENSG00000162526	ENST00000421153	processed_transcript	KNOWN	None	15473	None	None	32817122	32819142	1	STK22C	SPOGA3
1	TSSK3	ENSG00000162526	ENST00000574792	processed_transcript	KNOWN	None	15473	None	None	32818330	32819697	1	STK22C	SPOGA3
1	TSSK3	ENSG00000162526	ENST00000574315	protein_coding	PUTATIVE	None	15473	105	34	32819055	32829380	1	STK22C	SPOGA3
1	TSSK3	ENSG00000162526	ENST00000373534	protein_coding	KNOWN	CCDS362	15473	807	268	32827798	32829913	1	STK22C	SPOGA3
11	HRASLS2	ENSG00000133328	ENST00000255695	protein_coding	KNOWN	CCDS8046	17824	489	162	63320242	63330855	-1	None	FLJ20556
19	AKAP8	ENSG00000105127	ENST00000269701	protein_coding	KNOWN	CCDS12329	378	2079	692	15464196	15490603	-1	None	AKAP95, DKFZp586B1222
19	AKAP8	ENSG00000105127	ENST00000598597	nonsense_mediated_decay	KNOWN	None	378	1095	364	15464333	15490612	-1	None	AKAP95, DKFZp586B1222
19	AKAP8	ENSG00000105127	ENST00000537303	retained_intron	KNOWN	None	378	None	None	15472284	15490592	-1	None	AKAP95, DKFZp586B1222
19	AKAP8	ENSG00000105127	ENST00000599883	nonsense_mediated_decay	KNOWN	None	378	402	133	15480956	15490609	-1	None	AKAP95, DKFZp586B1222
19	AKAP8	ENSG00000105127	ENST00000594314	retained_intron	KNOWN	None	378	None	None	15483725	15487842	-1	None	AKAP95, DKFZp586B1222
19	AKAP8	ENSG00000105127	ENST00000595416	retained_intron	KNOWN	None	378	None	None	15484528	15489972	-1	None	AKAP95, DKFZp586B1222
9	DDX58	ENSG00000107201	ENST00000379868	protein_coding	KNOWN	None	19102	2169	722	32455703	32526206	-1	None	RIG-I, FLJ13599, DKFZp434J1111
9	DDX58	ENSG00000107201	ENST00000379883	protein_coding	KNOWN	CCDS6526	19102	2778	925	32455703	32526322	-1	None	RIG-I, FLJ13599, DKFZp434J1111
9	DDX58	ENSG00000107201	ENST00000379882	protein_coding	KNOWN	None	19102	2643	880	32455300	32526322	-1	None	RIG-I, FLJ13599, DKFZp434J1111
9	DDX58	ENSG00000107201	ENST00000542096	protein_coding	KNOWN	None	19102	2565	854	32457008	32502734	-1	None	RIG-I, FLJ13599, DKFZp434J1111
9	DDX58	ENSG00000107201	ENST00000545044	protein_coding	KNOWN	None	19102	1611	536	32466380	32526193	-1	None	RIG-I, FLJ13599, DKFZp434J1111
11	PLA2G16	ENSG00000176485	ENST00000323646	protein_coding	KNOWN	CCDS8047	17825	489	162	63340667	63381841	-1	HRASLS3	HREV107, H-REV107-1, HREV107-3, MGC118754., AdPLA
11	PLA2G16	ENSG00000176485	ENST00000394613	processed_transcript	KNOWN	None	17825	None	None	63342322	63381630	-1	HRASLS3	HREV107, H-REV107-1, HREV107-3, MGC118754., AdPLA
11	PLA2G16	ENSG00000176485	ENST00000540943	protein_coding	PUTATIVE	None	17825	83	26	63357726	63376053	-1	HRASLS3	HREV107, H-REV107-1, HREV107-3, MGC118754., AdPLA
11	PLA2G16	ENSG00000176485	ENST00000544269	processed_transcript	KNOWN	None	17825	None	None	63357811	63384355	-1	HRASLS3	HREV107, H-REV107-1, HREV107-3, MGC118754., AdPLA
11	PLA2G16	ENSG00000176485	ENST00000415826	protein_coding	KNOWN	CCDS8047	17825	489	162	63341946	63381941	-1	HRASLS3	HREV107, H-REV107-1, HREV107-3, MGC118754., AdPLA
10	None	ENSG00000221094	ENST00000408167	miRNA	NOVEL	None	None	None	None	63875974	63876060	1	None	None
1	FAM229A	ENSG00000225828	ENST00000432622	protein_coding	NOVEL	CCDS57985	44652	384	127	32826871	32827844	-1	None	None
1	FAM229A	ENSG00000225828	ENST00000416512	retained_intron	KNOWN	None	44652	None	None	32826872	32829824	-1	None	None
1	FAM229A	ENSG00000225828	ENST00000428500	protein_coding	PUTATIVE	None	44652	159	52	32826899	32827425	-1	None	None
1	FAM229A	ENSG00000225828	ENST00000415596	processed_transcript	KNOWN	None	44652	None	None	32827330	32829879	-1	None	None
18	STARD6	ENSG00000174448	ENST00000580990	protein_coding	PUTATIVE	None	18066	291	96	51850728	51880506	-1	None	None
18	STARD6	ENSG00000174448	ENST00000581310	protein_coding	KNOWN	CCDS11955	18066	663	220	51850964	51884334	-1	None	None
18	STARD6	ENSG00000174448	ENST00000577499	protein_coding	PUTATIVE	None	18066	228	75	51880297	51884218	-1	None	None
18	STARD6	ENSG00000174448	ENST00000584040	protein_coding	PUTATIVE	None	18066	228	75	51880425	51884230	-1	None	None
18	STARD6	ENSG00000174448	ENST00000307844	protein_coding	KNOWN	CCDS11955	18066	663	220	51851062	51880943	-1	None	None
4	NPFFR2	ENSG00000056291	ENST00000308744	protein_coding	KNOWN	CCDS3551	4525	1569	522	72897521	73013784	1	GPR74	NPFF2, NPGPR
4	NPFFR2	ENSG00000056291	ENST00000344413	protein_coding	KNOWN	None	4525	399	132	72897619	73013529	1	GPR74	NPFF2, NPGPR
4	NPFFR2	ENSG00000056291	ENST00000395999	protein_coding	KNOWN	CCDS47072	4525	1272	423	72904895	73013778	1	GPR74	NPFF2, NPGPR
4	NPFFR2	ENSG00000056291	ENST00000358749	protein_coding	KNOWN	CCDS3552	4525	1263	420	72905091	73013778	1	GPR74	NPFF2, NPGPR
4	NPFFR2	ENSG00000056291	ENST00000506359	processed_transcript	KNOWN	None	4525	None	None	73012247	73013775	1	GPR74	NPFF2, NPGPR
15	NTRK3	ENSG00000140538	ENST00000394480	protein_coding	KNOWN	CCDS10340	8033	2478	825	88402982	88799978	-1	None	TRKC
15	NTRK3	ENSG00000140538	ENST00000557856	protein_coding	NOVEL	CCDS58399	8033	2454	817	88420022	88799408	-1	None	TRKC
15	NTRK3	ENSG00000140538	ENST00000558576	protein_coding	PUTATIVE	None	8033	440	145	88459493	88476321	-1	None	TRKC
15	NTRK3	ENSG00000140538	ENST00000542733	protein_coding	NOVEL	None	8033	1854	617	88459504	88749164	-1	None	TRKC
15	NTRK3	ENSG00000140538	ENST00000558676	protein_coding	NOVEL	None	8033	2118	705	88472233	88799410	-1	None	TRKC
15	NTRK3	ENSG00000140538	ENST00000559680	processed_transcript	PUTATIVE	None	8033	None	None	88474313	88483966	-1	None	TRKC
15	NTRK3	ENSG00000140538	ENST00000560201	processed_transcript	PUTATIVE	None	8033	None	None	88520598	88522034	-1	None	TRKC
15	NTRK3	ENSG00000140538	ENST00000558306	processed_transcript	PUTATIVE	None	8033	None	None	88522285	88670422	-1	None	TRKC
15	NTRK3	ENSG00000140538	ENST00000540489	protein_coding	KNOWN	CCDS32323	8033	1839	612	88522298	88799390	-1	None	TRKC
15	NTRK3	ENSG00000140538	ENST00000537300	processed_transcript	PUTATIVE	None	8033	None	None	88522582	88576115	-1	None	TRKC
15	NTRK3	ENSG00000140538	ENST00000560739	processed_transcript	PUTATIVE	None	8033	None	None	88615655	88642496	-1	None	TRKC
15	NTRK3	ENSG00000140538	ENST00000560017	protein_coding	PUTATIVE	None	8033	257	84	88615782	88679169	-1	None	TRKC
15	NTRK3	ENSG00000140538	ENST00000557897	processed_transcript	PUTATIVE	None	8033	None	None	88615832	88669592	-1	None	TRKC
15	NTRK3	ENSG00000140538	ENST00000559764	processed_transcript	PUTATIVE	None	8033	None	None	88675200	88679709	-1	None	TRKC
15	NTRK3	ENSG00000140538	ENST00000559188	protein_coding	PUTATIVE	None	8033	271	89	88680692	88795853	-1	None	TRKC
15	NTRK3	ENSG00000140538	ENST00000559067	processed_transcript	PUTATIVE	None	8033	None	None	88799137	88799999	-1	None	TRKC
15	NTRK3	ENSG00000140538	ENST00000360948	protein_coding	KNOWN	CCDS32322	8033	2520	839	88420022	88799661	-1	None	TRKC
15	NTRK3	ENSG00000140538	ENST00000357724	protein_coding	KNOWN	None	8033	2496	831	88420022	88799661	-1	None	TRKC
15	NTRK3	ENSG00000140538	ENST00000355254	protein_coding	KNOWN	CCDS10340	8033	2478	825	88420022	88799661	-1	None	TRKC
15	NTRK3	ENSG00000140538	ENST00000317501	protein_coding	KNOWN	CCDS32323	8033	1839	612	88520598	88799661	-1	None	TRKC
19	SLC25A23	ENSG00000125648	ENST00000598704	nonsense_mediated_decay	KNOWN	None	19375	272	89	6436090	6452399	-1	None	FLJ30339, MGC2615, APC2
19	SLC25A23	ENSG00000125648	ENST00000595810	protein_coding	PUTATIVE	None	19375	395	130	6436090	6454020	-1	None	FLJ30339, MGC2615, APC2
19	SLC25A23	ENSG00000125648	ENST00000598908	protein_coding	PUTATIVE	None	19375	649	215	6436092	6454681	-1	None	FLJ30339, MGC2615, APC2
19	SLC25A23	ENSG00000125648	ENST00000264088	nonsense_mediated_decay	KNOWN	None	19375	1449	482	6436092	6459762	-1	None	FLJ30339, MGC2615, APC2
19	SLC25A23	ENSG00000125648	ENST00000601322	protein_coding	PUTATIVE	None	19375	300	99	6436203	6454387	-1	None	FLJ30339, MGC2615, APC2
19	SLC25A23	ENSG00000125648	ENST00000601760	processed_transcript	KNOWN	None	19375	None	None	6436432	6444290	-1	None	FLJ30339, MGC2615, APC2
19	SLC25A23	ENSG00000125648	ENST00000301454	protein_coding	KNOWN	CCDS32882	19375	1407	468	6440075	6459746	-1	None	FLJ30339, MGC2615, APC2
19	SLC25A23	ENSG00000125648	ENST00000593600	protein_coding	PUTATIVE	None	19375	834	277	6441353	6454416	-1	None	FLJ30339, MGC2615, APC2
19	SLC25A23	ENSG00000125648	ENST00000600682	protein_coding	PUTATIVE	None	19375	709	235	6441485	6454681	-1	None	FLJ30339, MGC2615, APC2
19	SLC25A23	ENSG00000125648	ENST00000597039	retained_intron	KNOWN	None	19375	None	None	6441941	6452612	-1	None	FLJ30339, MGC2615, APC2
19	SLC25A23	ENSG00000125648	ENST00000334510	protein_coding	KNOWN	None	19375	1317	438	6443573	6459746	-1	None	FLJ30339, MGC2615, APC2
19	SLC25A23	ENSG00000125648	ENST00000595267	retained_intron	KNOWN	None	19375	None	None	6456314	6459781	-1	None	FLJ30339, MGC2615, APC2
19	SLC25A23	ENSG00000125648	ENST00000597307	protein_coding	PUTATIVE	None	19375	231	76	6456431	6465214	-1	None	FLJ30339, MGC2615, APC2
19	SLC25A23	ENSG00000125648	ENST00000414491	protein_coding	KNOWN	None	19375	690	229	6441485	6454681	-1	None	FLJ30339, MGC2615, APC2
7	CPSF4	ENSG00000160917	ENST00000436336	protein_coding	KNOWN	CCDS47652	2327	735	244	99036545	99054965	1	None	NAR, CPSF30
7	CPSF4	ENSG00000160917	ENST00000451876	protein_coding	KNOWN	None	2327	636	211	99036569	99054994	1	None	NAR, CPSF30
7	CPSF4	ENSG00000160917	ENST00000292476	protein_coding	KNOWN	CCDS5664	2327	810	269	99036696	99054994	1	None	NAR, CPSF30
7	CPSF4	ENSG00000160917	ENST00000430038	nonsense_mediated_decay	KNOWN	None	2327	135	44	99036736	99048418	1	None	NAR, CPSF30
7	CPSF4	ENSG00000160917	ENST00000441580	protein_coding	NOVEL	None	2327	576	191	99036999	99054212	1	None	NAR, CPSF30
7	CPSF4	ENSG00000160917	ENST00000412686	protein_coding	PUTATIVE	None	2327	338	111	99037048	99048418	1	None	NAR, CPSF30
7	CPSF4	ENSG00000160917	ENST00000484112	retained_intron	KNOWN	None	2327	None	None	99037073	99048702	1	None	NAR, CPSF30
7	CPSF4	ENSG00000160917	ENST00000452047	protein_coding	PUTATIVE	None	2327	687	228	99042408	99054268	1	None	NAR, CPSF30
7	CPSF4	ENSG00000160917	ENST00000471455	processed_transcript	KNOWN	None	2327	None	None	99042433	99051646	1	None	NAR, CPSF30
7	CPSF4	ENSG00000160917	ENST00000440514	protein_coding	PUTATIVE	None	2327	578	191	99047948	99054201	1	None	NAR, CPSF30
7	CPSF4	ENSG00000160917	ENST00000482251	retained_intron	KNOWN	None	2327	None	None	99048087	99050232	1	None	NAR, CPSF30
7	CPSF4	ENSG00000160917	ENST00000465132	retained_intron	KNOWN	None	2327	None	None	99048389	99050887	1	None	NAR, CPSF30
7	CPSF4	ENSG00000160917	ENST00000469897	retained_intron	KNOWN	None	2327	None	None	99051310	99054293	1	None	NAR, CPSF30
HSCHR6_MHC_MANN	MICA	ENSG00000235233	ENST00000420259	protein_coding	KNOWN	None	7090	744	247	31410600	31426125	1	None	PERB11.1
HSCHR6_MHC_MANN	MICA	ENSG00000235233	ENST00000468858	processed_transcript	KNOWN	None	7090	None	None	31411463	31423033	1	None	PERB11.1
HSCHR6_MHC_MANN	MICA	ENSG00000235233	ENST00000418465	protein_coding	KNOWN	None	7090	1158	385	31411565	31426125	1	None	PERB11.1
HSCHR6_MHC_MANN	MICA	ENSG00000235233	ENST00000432479	protein_coding	KNOWN	None	7090	1029	342	31414353	31427049	1	None	PERB11.1
HSCHR6_MHC_MANN	MICA	ENSG00000235233	ENST00000417943	protein_coding	KNOWN	None	7090	831	276	31414486	31426125	1	None	PERB11.1
HSCHR6_MHC_MANN	MICA	ENSG00000235233	ENST00000467522	retained_intron	KNOWN	None	7090	None	None	31421671	31423270	1	None	PERB11.1
HSCHR6_MHC_MANN	MICA	ENSG00000235233	ENST00000552236	protein_coding	KNOWN	None	7090	999	332	31414408	31426123	1	None	PERB11.1
16	ZCCHC14	ENSG00000140948	ENST00000268616	protein_coding	KNOWN	CCDS10961	24134	2850	949	87439852	87525651	-1	None	BDG29, MGC14139
16	ZCCHC14	ENSG00000140948	ENST00000568020	nonsense_mediated_decay	KNOWN	CCDS10961	24134	2850	949	87439863	87525465	-1	None	BDG29, MGC14139
16	ZCCHC14	ENSG00000140948	ENST00000561928	protein_coding	KNOWN	None	24134	2539	845	87445018	87466740	-1	None	BDG29, MGC14139
16	ZCCHC14	ENSG00000140948	ENST00000565193	retained_intron	KNOWN	None	24134	None	None	87448918	87451532	-1	None	BDG29, MGC14139
20	SNRPB2	ENSG00000125870	ENST00000377943	protein_coding	KNOWN	CCDS13123	11155	678	225	16710606	16722421	1	None	Msl1
20	SNRPB2	ENSG00000125870	ENST00000246071	protein_coding	KNOWN	CCDS13123	11155	678	225	16710629	16722421	1	None	Msl1
20	SNRPB2	ENSG00000125870	ENST00000478522	processed_transcript	KNOWN	None	11155	None	None	16710674	16713113	1	None	Msl1
6	SAYSD1	ENSG00000112167	ENST00000373249	protein_coding	KNOWN	None	21025	351	116	39071840	39077348	-1	C6orf64	FLJ11101
6	SAYSD1	ENSG00000112167	ENST00000229903	protein_coding	KNOWN	CCDS4840	21025	552	183	39071840	39082965	-1	C6orf64	FLJ11101
6	SAYSD1	ENSG00000112167	ENST00000481599	processed_transcript	KNOWN	None	21025	None	None	39080851	39082847	-1	C6orf64	FLJ11101
19	ZNF841	ENSG00000197608	ENST00000594295	protein_coding	KNOWN	CCDS46161	27611	2775	924	52567719	52597358	-1	None	LOC284371
19	ZNF841	ENSG00000197608	ENST00000426391	protein_coding	PUTATIVE	None	27611	2427	808	52567719	52599018	-1	None	LOC284371
19	ZNF841	ENSG00000197608	ENST00000601738	protein_coding	PUTATIVE	None	27611	1538	511	52567871	52570821	-1	None	LOC284371
19	ZNF841	ENSG00000197608	ENST00000595599	retained_intron	KNOWN	None	27611	None	None	52570752	52579642	-1	None	LOC284371
19	ZNF841	ENSG00000197608	ENST00000594440	protein_coding	KNOWN	None	27611	271	89	52579297	52599008	-1	None	LOC284371
19	ZNF841	ENSG00000197608	ENST00000599430	retained_intron	KNOWN	None	27611	None	None	52580161	52597152	-1	None	LOC284371
19	ZNF841	ENSG00000197608	ENST00000389534	protein_coding	KNOWN	CCDS46161	27611	2775	924	52567719	52599018	-1	None	LOC284371
19	ZNF841	ENSG00000197608	ENST00000359973	protein_coding	KNOWN	None	27611	1503	500	52568360	52570786	-1	None	LOC284371
1	GLRX2	ENSG00000023572	ENST00000367439	protein_coding	KNOWN	CCDS1381	16065	495	164	193065598	193074561	-1	None	GRX2, bA101E13.1
1	GLRX2	ENSG00000023572	ENST00000367440	protein_coding	KNOWN	CCDS1380	16065	498	165	193065598	193075244	-1	None	GRX2, bA101E13.1
1	GLRX2	ENSG00000023572	ENST00000472197	processed_transcript	KNOWN	None	16065	None	None	193065797	193075187	-1	None	GRX2, bA101E13.1
20	CPXM1	ENSG00000088882	ENST00000380605	protein_coding	KNOWN	CCDS13033	15771	2205	734	2774715	2781283	-1	CPXM	CPX-1, CPX1
12	KLRF2	ENSG00000256797	ENST00000535540	protein_coding	KNOWN	CCDS53743	37646	624	207	10034088	10048432	1	None	NKp65
1	CAPZA1	ENSG00000116489	ENST00000263168	protein_coding	KNOWN	CCDS30805	1488	861	286	113161795	113214241	1	None	None
1	CAPZA1	ENSG00000116489	ENST00000485542	processed_transcript	KNOWN	None	1488	None	None	113162427	113192635	1	None	None
1	CAPZA1	ENSG00000116489	ENST00000476936	processed_transcript	KNOWN	None	1488	None	None	113162441	113213005	1	None	None
1	CAPZA1	ENSG00000116489	ENST00000498626	processed_transcript	KNOWN	None	1488	None	None	113162454	113209707	1	None	None
1	CAPZA1	ENSG00000116489	ENST00000466066	processed_transcript	KNOWN	None	1488	None	None	113201951	113212792	1	None	None
1	CAPZA1	ENSG00000116489	ENST00000476820	processed_transcript	KNOWN	None	1488	None	None	113209542	113212216	1	None	None
3	DNAH1	ENSG00000114841	ENST00000486752	retained_intron	KNOWN	None	2940	None	None	52350335	52434507	1	None	XLHSRF-1, DNAHC1, HDHC7, HL-11, HL11
3	DNAH1	ENSG00000114841	ENST00000420323	protein_coding	KNOWN	CCDS46842	2940	12798	4265	52350335	52434507	1	None	XLHSRF-1, DNAHC1, HDHC7, HL-11, HL11
3	DNAH1	ENSG00000114841	ENST00000497875	retained_intron	KNOWN	None	2940	None	None	52351887	52387837	1	None	XLHSRF-1, DNAHC1, HDHC7, HL-11, HL11
3	DNAH1	ENSG00000114841	ENST00000466628	processed_transcript	KNOWN	None	2940	None	None	52395235	52396492	1	None	XLHSRF-1, DNAHC1, HDHC7, HL-11, HL11
3	DNAH1	ENSG00000114841	ENST00000488988	retained_intron	KNOWN	None	2940	None	None	52418890	52434503	1	None	XLHSRF-1, DNAHC1, HDHC7, HL-11, HL11
3	DNAH1	ENSG00000114841	ENST00000490713	nonsense_mediated_decay	KNOWN	None	2940	2787	928	52422563	52434503	1	None	XLHSRF-1, DNAHC1, HDHC7, HL-11, HL11
3	DNAH1	ENSG00000114841	ENST00000480649	protein_coding	NOVEL	None	2940	579	192	52422899	52426572	1	None	XLHSRF-1, DNAHC1, HDHC7, HL-11, HL11
3	DNAH1	ENSG00000114841	ENST00000487254	retained_intron	KNOWN	None	2940	None	None	52428613	52429425	1	None	XLHSRF-1, DNAHC1, HDHC7, HL-11, HL11
5	UQCRQ	ENSG00000164405	ENST00000378670	protein_coding	KNOWN	CCDS34237	29594	249	82	132202252	132203723	1	None	QP-C, QCR8, UQCR7
5	UQCRQ	ENSG00000164405	ENST00000378667	protein_coding	KNOWN	CCDS34237	29594	249	82	132202322	132203379	1	None	QP-C, QCR8, UQCR7
5	UQCRQ	ENSG00000164405	ENST00000498309	retained_intron	KNOWN	None	29594	None	None	132202325	132203379	1	None	QP-C, QCR8, UQCR7
5	UQCRQ	ENSG00000164405	ENST00000496429	processed_transcript	PUTATIVE	None	29594	None	None	132202334	132203391	1	None	QP-C, QCR8, UQCR7
5	UQCRQ	ENSG00000164405	ENST00000378665	protein_coding	KNOWN	CCDS34237	29594	249	82	132202338	132203375	1	None	QP-C, QCR8, UQCR7
5	UQCRQ	ENSG00000164405	ENST00000480372	retained_intron	KNOWN	None	29594	None	None	132202349	132203034	1	None	QP-C, QCR8, UQCR7
2	None	ENSG00000268857	ENST00000601086	protein_coding	NOVEL	None	None	42	13	157352597	157352655	-1	None	None
10	KLF6	ENSG00000067082	ENST00000461124	processed_transcript	KNOWN	None	2235	None	None	3818188	3822409	-1	BCD1, ST12, COPEB	CPBP, GBF, Zf9, PAC1
10	KLF6	ENSG00000067082	ENST00000497571	protein_coding	KNOWN	CCDS7060	2235	852	283	3818188	3827467	-1	BCD1, ST12, COPEB	CPBP, GBF, Zf9, PAC1
10	KLF6	ENSG00000067082	ENST00000173785	processed_transcript	KNOWN	None	2235	None	None	3821239	3824243	-1	BCD1, ST12, COPEB	CPBP, GBF, Zf9, PAC1
10	KLF6	ENSG00000067082	ENST00000492125	processed_transcript	KNOWN	None	2235	None	None	3821742	3822688	-1	BCD1, ST12, COPEB	CPBP, GBF, Zf9, PAC1
10	KLF6	ENSG00000067082	ENST00000469435	protein_coding	KNOWN	None	2235	846	281	3822519	3827385	-1	BCD1, ST12, COPEB	CPBP, GBF, Zf9, PAC1
10	KLF6	ENSG00000067082	ENST00000380946	processed_transcript	KNOWN	None	2235	None	None	3824000	3827375	-1	BCD1, ST12, COPEB	CPBP, GBF, Zf9, PAC1
10	KLF6	ENSG00000067082	ENST00000542957	protein_coding	KNOWN	CCDS53490	2235	714	237	3818189	3827473	-1	BCD1, ST12, COPEB	CPBP, GBF, Zf9, PAC1
13	SLC25A30	ENSG00000174032	ENST00000523988	retained_intron	KNOWN	None	27371	None	None	45967451	45978518	-1	None	None
13	SLC25A30	ENSG00000174032	ENST00000519676	protein_coding	KNOWN	CCDS31967	27371	876	291	45967451	45992515	-1	None	None
13	SLC25A30	ENSG00000174032	ENST00000310862	nonsense_mediated_decay	KNOWN	None	27371	114	37	45970083	45992513	-1	None	None
13	SLC25A30	ENSG00000174032	ENST00000519547	protein_coding	PUTATIVE	None	27371	412	136	45975267	45992515	-1	None	None
13	SLC25A30	ENSG00000174032	ENST00000522438	protein_coding	PUTATIVE	None	27371	284	93	45975323	45992590	-1	None	None
13	SLC25A30	ENSG00000174032	ENST00000463262	nonsense_mediated_decay	KNOWN	None	27371	114	37	45976461	45992515	-1	None	None
13	SLC25A30	ENSG00000174032	ENST00000539591	protein_coding	KNOWN	None	27371	723	240	45969619	45992509	-1	None	None
1	CDC73	ENSG00000134371	ENST00000367435	protein_coding	KNOWN	CCDS1382	16783	1596	531	193091147	193223031	1	C1orf28, HRPT2	parafibromin
1	CDC73	ENSG00000134371	ENST00000482484	processed_transcript	KNOWN	None	16783	None	None	193091600	193107303	1	C1orf28, HRPT2	parafibromin
1	CDC73	ENSG00000134371	ENST00000477868	processed_transcript	KNOWN	None	16783	None	None	193202156	193220298	1	C1orf28, HRPT2	parafibromin
12	CLEC2A	ENSG00000188393	ENST00000339766	protein_coding	PUTATIVE	None	24191	483	160	10051272	10084946	-1	None	UNQ5792, INPE5792, KACL, PILAR
12	CLEC2A	ENSG00000188393	ENST00000455827	protein_coding	KNOWN	CCDS44829	24191	525	174	10065826	10084980	-1	None	UNQ5792, INPE5792, KACL, PILAR
2	GALNT5	ENSG00000136542	ENST00000259056	protein_coding	KNOWN	CCDS2203	4127	2823	940	158114110	158170723	1	None	None
2	GALNT5	ENSG00000136542	ENST00000463418	processed_transcript	PUTATIVE	None	4127	None	None	158157315	158159109	1	None	None
2	GALNT5	ENSG00000136542	ENST00000461704	processed_transcript	PUTATIVE	None	4127	None	None	158157998	158159109	1	None	None
21	None	ENSG00000224905	ENST00000428809	processed_transcript	KNOWN	None	None	None	None	15399742	15516789	1	None	None
21	None	ENSG00000224905	ENST00000432621	processed_transcript	KNOWN	None	None	None	None	15399742	15516789	1	None	None
21	None	ENSG00000224905	ENST00000448463	processed_transcript	KNOWN	None	None	None	None	15399772	15461367	1	None	None
20	ZMYND8	ENSG00000101040	ENST00000311275	protein_coding	KNOWN	None	9397	3561	1186	45837859	45984401	-1	PRKCBP1	RACK7
20	ZMYND8	ENSG00000101040	ENST00000360911	protein_coding	KNOWN	CCDS46613	9397	3408	1135	45837859	45985450	-1	PRKCBP1	RACK7
20	ZMYND8	ENSG00000101040	ENST00000458360	protein_coding	NOVEL	None	9397	3165	1054	45838892	45985464	-1	PRKCBP1	RACK7
20	ZMYND8	ENSG00000101040	ENST00000467200	protein_coding	KNOWN	None	9397	3286	1094	45839058	45927644	-1	PRKCBP1	RACK7
20	ZMYND8	ENSG00000101040	ENST00000262975	protein_coding	KNOWN	None	9397	3507	1168	45839058	45985567	-1	PRKCBP1	RACK7
20	ZMYND8	ENSG00000101040	ENST00000471951	protein_coding	NOVEL	None	9397	3705	1234	45839085	45985441	-1	PRKCBP1	RACK7
20	ZMYND8	ENSG00000101040	ENST00000352431	protein_coding	KNOWN	CCDS13404	9397	3483	1160	45839086	45985443	-1	PRKCBP1	RACK7
20	ZMYND8	ENSG00000101040	ENST00000461685	protein_coding	KNOWN	CCDS13405	9397	3567	1188	45839406	45985414	-1	PRKCBP1	RACK7
20	ZMYND8	ENSG00000101040	ENST00000468376	processed_transcript	KNOWN	None	9397	None	None	45866054	45947805	-1	PRKCBP1	RACK7
20	ZMYND8	ENSG00000101040	ENST00000435836	protein_coding	PUTATIVE	None	9397	525	174	45920540	45985428	-1	PRKCBP1	RACK7
20	ZMYND8	ENSG00000101040	ENST00000446894	protein_coding	KNOWN	None	9397	127	41	45938847	45980621	-1	PRKCBP1	RACK7
20	ZMYND8	ENSG00000101040	ENST00000441977	protein_coding	KNOWN	None	9397	73	23	45938901	45976816	-1	PRKCBP1	RACK7
20	ZMYND8	ENSG00000101040	ENST00000372023	protein_coding	KNOWN	None	9397	3411	1136	45839406	45985414	-1	PRKCBP1	RACK7
20	ZMYND8	ENSG00000101040	ENST00000540497	protein_coding	KNOWN	None	9397	3405	1134	45839406	45985414	-1	PRKCBP1	RACK7
20	ZMYND8	ENSG00000101040	ENST00000536340	protein_coding	KNOWN	None	9397	3726	1241	45839350	45985240	-1	PRKCBP1	RACK7
20	ZMYND8	ENSG00000101040	ENST00000396281	protein_coding	KNOWN	None	9397	3561	1186	45839105	45985443	-1	PRKCBP1	RACK7
20	ZMYND8	ENSG00000101040	ENST00000355972	protein_coding	KNOWN	None	9397	3645	1214	45839350	45985443	-1	PRKCBP1	RACK7
20	ZMYND8	ENSG00000101040	ENST00000446994	protein_coding	KNOWN	None	9397	3318	1105	45839350	45981268	-1	PRKCBP1	RACK7
21	ANKRD20A18P	ENSG00000249493	ENST00000359341	unprocessed_pseudogene	KNOWN	None	23756	None	None	15436646	15441408	1	C21orf126	None
18	C18orf54	ENSG00000166845	ENST00000578138	protein_coding	PUTATIVE	None	13796	456	151	51884287	51904804	1	None	MGC33382, LAS2
18	C18orf54	ENSG00000166845	ENST00000382911	protein_coding	NOVEL	None	13796	1602	533	51884955	51906738	1	None	MGC33382, LAS2
18	C18orf54	ENSG00000166845	ENST00000300091	protein_coding	KNOWN	CCDS11956	13796	1119	372	51884955	51908402	1	None	MGC33382, LAS2
18	C18orf54	ENSG00000166845	ENST00000582188	processed_transcript	KNOWN	None	13796	None	None	51890274	51904621	1	None	MGC33382, LAS2
18	C18orf54	ENSG00000166845	ENST00000579594	nonsense_mediated_decay	KNOWN	None	13796	108	35	51900620	51911588	1	None	MGC33382, LAS2
19	FAM83E	ENSG00000105523	ENST00000263266	protein_coding	KNOWN	CCDS42587	25972	1437	478	49104067	49116819	-1	None	FLJ20200
19	FAM83E	ENSG00000105523	ENST00000593772	protein_coding	PUTATIVE	None	25972	273	90	49114048	49118072	-1	None	FLJ20200
19	FAM83E	ENSG00000105523	ENST00000595110	processed_transcript	KNOWN	None	25972	None	None	49117429	49118098	-1	None	FLJ20200
19	FAM83E	ENSG00000105523	ENST00000599126	processed_transcript	KNOWN	None	25972	None	None	49117452	49118111	-1	None	FLJ20200
19	FCHO1	ENSG00000130475	ENST00000594202	protein_coding	PUTATIVE	CCDS59365	29002	2676	891	17858527	17899366	1	None	KIAA0290
19	FCHO1	ENSG00000130475	ENST00000600676	protein_coding	KNOWN	CCDS32955	29002	2670	889	17858554	17899377	1	None	KIAA0290
19	FCHO1	ENSG00000130475	ENST00000600209	protein_coding	KNOWN	None	29002	525	174	17858555	17881636	1	None	KIAA0290
19	FCHO1	ENSG00000130475	ENST00000596309	protein_coding	KNOWN	None	29002	277	91	17858562	17877560	1	None	KIAA0290
19	FCHO1	ENSG00000130475	ENST00000598539	protein_coding	KNOWN	None	29002	128	41	17858565	17875192	1	None	KIAA0290
19	FCHO1	ENSG00000130475	ENST00000597474	protein_coding	KNOWN	None	29002	375	124	17858565	17881272	1	None	KIAA0290
19	FCHO1	ENSG00000130475	ENST00000593385	protein_coding	PUTATIVE	None	29002	6	1	17858568	17873589	1	None	KIAA0290
19	FCHO1	ENSG00000130475	ENST00000600201	retained_intron	KNOWN	None	29002	None	None	17858570	17866431	1	None	KIAA0290
19	FCHO1	ENSG00000130475	ENST00000598067	protein_coding	KNOWN	None	29002	85	27	17858571	17873628	1	None	KIAA0290
19	FCHO1	ENSG00000130475	ENST00000599236	processed_transcript	KNOWN	None	29002	None	None	17858571	17877431	1	None	KIAA0290
19	FCHO1	ENSG00000130475	ENST00000593833	protein_coding	PUTATIVE	None	29002	404	133	17858571	17881665	1	None	KIAA0290
19	FCHO1	ENSG00000130475	ENST00000601247	processed_transcript	KNOWN	None	29002	None	None	17858577	17877504	1	None	KIAA0290
19	FCHO1	ENSG00000130475	ENST00000596536	protein_coding	KNOWN	CCDS32955	29002	2670	889	17862286	17899366	1	None	KIAA0290
19	FCHO1	ENSG00000130475	ENST00000593870	protein_coding	KNOWN	None	29002	106	34	17862290	17873649	1	None	KIAA0290
19	FCHO1	ENSG00000130475	ENST00000598086	protein_coding	KNOWN	None	29002	335	110	17862290	17877618	1	None	KIAA0290
19	FCHO1	ENSG00000130475	ENST00000598932	protein_coding	KNOWN	None	29002	304	100	17862298	17877587	1	None	KIAA0290
19	FCHO1	ENSG00000130475	ENST00000595023	protein_coding	KNOWN	None	29002	793	263	17862308	17885050	1	None	KIAA0290
19	FCHO1	ENSG00000130475	ENST00000594068	protein_coding	KNOWN	None	29002	466	154	17862312	17881363	1	None	KIAA0290
19	FCHO1	ENSG00000130475	ENST00000596507	protein_coding	KNOWN	None	29002	655	217	17862315	17883326	1	None	KIAA0290
19	FCHO1	ENSG00000130475	ENST00000595033	protein_coding	PUTATIVE	CCDS59366	29002	2520	839	17862315	17899262	1	None	KIAA0290
19	FCHO1	ENSG00000130475	ENST00000597718	protein_coding	NOVEL	None	29002	555	184	17862345	17881705	1	None	KIAA0290
19	FCHO1	ENSG00000130475	ENST00000596462	protein_coding	KNOWN	None	29002	46	14	17865019	17873589	1	None	KIAA0290
19	FCHO1	ENSG00000130475	ENST00000595749	processed_transcript	PUTATIVE	None	29002	None	None	17865021	17865707	1	None	KIAA0290
19	FCHO1	ENSG00000130475	ENST00000596865	protein_coding	KNOWN	None	29002	292	96	17865021	17877575	1	None	KIAA0290
19	FCHO1	ENSG00000130475	ENST00000598960	protein_coding	KNOWN	None	29002	71	22	17865027	17873614	1	None	KIAA0290
19	FCHO1	ENSG00000130475	ENST00000596951	protein_coding	KNOWN	CCDS32955	29002	2670	889	17865485	17899371	1	None	KIAA0290
19	FCHO1	ENSG00000130475	ENST00000595549	protein_coding	NOVEL	None	29002	707	234	17865907	17883506	1	None	KIAA0290
19	FCHO1	ENSG00000130475	ENST00000597512	protein_coding	PUTATIVE	None	29002	2691	896	17873512	17899347	1	None	KIAA0290
19	FCHO1	ENSG00000130475	ENST00000597076	retained_intron	KNOWN	None	29002	None	None	17881232	17885398	1	None	KIAA0290
19	FCHO1	ENSG00000130475	ENST00000600393	retained_intron	KNOWN	None	29002	None	None	17881652	17885504	1	None	KIAA0290
19	FCHO1	ENSG00000130475	ENST00000596522	retained_intron	KNOWN	None	29002	None	None	17885476	17886852	1	None	KIAA0290
19	FCHO1	ENSG00000130475	ENST00000599766	retained_intron	KNOWN	None	29002	None	None	17886966	17892531	1	None	KIAA0290
19	FCHO1	ENSG00000130475	ENST00000602111	retained_intron	KNOWN	None	29002	None	None	17887435	17893867	1	None	KIAA0290
19	FCHO1	ENSG00000130475	ENST00000600058	retained_intron	KNOWN	None	29002	None	None	17889250	17893981	1	None	KIAA0290
19	FCHO1	ENSG00000130475	ENST00000595594	retained_intron	KNOWN	None	29002	None	None	17889282	17895044	1	None	KIAA0290
19	FCHO1	ENSG00000130475	ENST00000252771	protein_coding	KNOWN	CCDS32955	29002	2670	889	17858527	17899377	1	None	KIAA0290
19	FCHO1	ENSG00000130475	ENST00000389133	protein_coding	KNOWN	CCDS32955	29002	2670	889	17858527	17899377	1	None	KIAA0290
19	FCHO1	ENSG00000130475	ENST00000539407	protein_coding	KNOWN	CCDS32955	29002	2670	889	17865123	17899377	1	None	KIAA0290
6	KCNK5	ENSG00000164626	ENST00000359534	protein_coding	KNOWN	CCDS4841	6280	1500	499	39156749	39197226	-1	None	K2p5.1, TASK-2
11	ARHGEF12	ENSG00000196914	ENST00000397843	protein_coding	PUTATIVE	CCDS41727	14193	4635	1544	120207787	120360645	1	None	KIAA0382, LARG
11	ARHGEF12	ENSG00000196914	ENST00000532993	protein_coding	PUTATIVE	None	14193	4326	1441	120256003	120359743	1	None	KIAA0382, LARG
11	ARHGEF12	ENSG00000196914	ENST00000529970	retained_intron	KNOWN	None	14193	None	None	120256030	120348355	1	None	KIAA0382, LARG
11	ARHGEF12	ENSG00000196914	ENST00000530388	retained_intron	KNOWN	None	14193	None	None	120276642	120282546	1	None	KIAA0382, LARG
11	ARHGEF12	ENSG00000196914	ENST00000528225	retained_intron	KNOWN	None	14193	None	None	120309157	120322342	1	None	KIAA0382, LARG
11	ARHGEF12	ENSG00000196914	ENST00000525960	retained_intron	KNOWN	None	14193	None	None	120316131	120317975	1	None	KIAA0382, LARG
11	ARHGEF12	ENSG00000196914	ENST00000532823	retained_intron	KNOWN	None	14193	None	None	120319203	120328461	1	None	KIAA0382, LARG
11	ARHGEF12	ENSG00000196914	ENST00000525222	retained_intron	KNOWN	None	14193	None	None	120319984	120329903	1	None	KIAA0382, LARG
11	ARHGEF12	ENSG00000196914	ENST00000530747	retained_intron	KNOWN	None	14193	None	None	120328427	120338017	1	None	KIAA0382, LARG
11	ARHGEF12	ENSG00000196914	ENST00000531616	retained_intron	KNOWN	None	14193	None	None	120333258	120343836	1	None	KIAA0382, LARG
11	ARHGEF12	ENSG00000196914	ENST00000526067	retained_intron	KNOWN	None	14193	None	None	120346684	120350816	1	None	KIAA0382, LARG
11	ARHGEF12	ENSG00000196914	ENST00000528681	retained_intron	KNOWN	None	14193	None	None	120347709	120348282	1	None	KIAA0382, LARG
11	ARHGEF12	ENSG00000196914	ENST00000356641	protein_coding	KNOWN	CCDS55794	14193	4578	1525	120207946	120360645	1	None	KIAA0382, LARG
21	RNA5SP488	ENSG00000201812	ENST00000364942	rRNA	KNOWN	None	43388	None	None	15443192	15443307	1	RN5S488	None
21	ERLEC1P1	ENSG00000240755	ENST00000433806	processed_pseudogene	KNOWN	None	38012	None	None	15515902	15516479	1	None	None
17	FBXL20	ENSG00000108306	ENST00000583610	protein_coding	KNOWN	CCDS32640	24679	1311	436	37415384	37557909	-1	None	MGC15482, Fbl2, Fbl20
17	FBXL20	ENSG00000108306	ENST00000394294	protein_coding	KNOWN	CCDS54116	24679	1215	404	37416840	37557876	-1	None	MGC15482, Fbl2, Fbl20
17	FBXL20	ENSG00000108306	ENST00000264658	protein_coding	KNOWN	CCDS32640	24679	1311	436	37416840	37557916	-1	None	MGC15482, Fbl2, Fbl20
17	FBXL20	ENSG00000108306	ENST00000577399	protein_coding	NOVEL	None	24679	1317	438	37417713	37558776	-1	None	MGC15482, Fbl2, Fbl20
17	FBXL20	ENSG00000108306	ENST00000581781	protein_coding	PUTATIVE	None	24679	348	115	37420129	37427063	-1	None	MGC15482, Fbl2, Fbl20
11	None	ENSG00000268403	ENST00000596206	protein_coding	KNOWN	None	None	264	87	9481747	9482010	-1	None	None
11	CDK2AP2	ENSG00000167797	ENST00000301488	protein_coding	KNOWN	CCDS8169	30833	381	126	67273968	67276102	-1	None	DOC-1R, p14
11	CDK2AP2	ENSG00000167797	ENST00000525402	retained_intron	KNOWN	None	30833	None	None	67273983	67276120	-1	None	DOC-1R, p14
11	CDK2AP2	ENSG00000167797	ENST00000531178	nonsense_mediated_decay	KNOWN	None	30833	186	61	67274091	67275629	-1	None	DOC-1R, p14
11	CDK2AP2	ENSG00000167797	ENST00000531506	protein_coding	PUTATIVE	None	30833	321	106	67274524	67275562	-1	None	DOC-1R, p14
11	CDK2AP2	ENSG00000167797	ENST00000526447	retained_intron	KNOWN	None	30833	None	None	67274682	67275547	-1	None	DOC-1R, p14
10	CYP2C8	ENSG00000138115	ENST00000527420	nonsense_mediated_decay	KNOWN	None	2622	1182	393	96796530	96829160	-1	None	CPC8
10	CYP2C8	ENSG00000138115	ENST00000371270	protein_coding	KNOWN	CCDS7438	2622	1473	490	96796530	96829254	-1	None	CPC8
10	CYP2C8	ENSG00000138115	ENST00000490994	nonsense_mediated_decay	KNOWN	None	2622	252	83	96796530	96829254	-1	None	CPC8
10	CYP2C8	ENSG00000138115	ENST00000526814	retained_intron	KNOWN	None	2622	None	None	96796535	96829243	-1	None	CPC8
10	CYP2C8	ENSG00000138115	ENST00000527953	retained_intron	KNOWN	None	2622	None	None	96796535	96829243	-1	None	CPC8
10	CYP2C8	ENSG00000138115	ENST00000533320	retained_intron	KNOWN	None	2622	None	None	96796559	96829184	-1	None	CPC8
10	CYP2C8	ENSG00000138115	ENST00000525991	nonsense_mediated_decay	KNOWN	None	2622	300	99	96796741	96829254	-1	None	CPC8
10	CYP2C8	ENSG00000138115	ENST00000531714	retained_intron	KNOWN	None	2622	None	None	96796939	96799132	-1	None	CPC8
10	CYP2C8	ENSG00000138115	ENST00000479946	retained_intron	KNOWN	None	2622	None	None	96798716	96829254	-1	None	CPC8
10	CYP2C8	ENSG00000138115	ENST00000535898	protein_coding	KNOWN	CCDS55721	2622	1167	388	96796741	96829254	-1	None	CPC8
10	CYP2C8	ENSG00000138115	ENST00000539050	protein_coding	KNOWN	None	2622	924	307	96800678	96829254	-1	None	CPC8
HSCHR6_MHC_DBB	HLA-F	ENSG00000235220	ENST00000422711	protein_coding	KNOWN	None	4963	1041	346	29688037	29691788	1	None	None
HSCHR6_MHC_DBB	HLA-F	ENSG00000235220	ENST00000447400	protein_coding	KNOWN	None	4963	393	130	29688541	29689493	1	None	None
HSCHR6_MHC_DBB	HLA-F	ENSG00000235220	ENST00000487648	processed_transcript	KNOWN	None	4963	None	None	29688654	29689677	1	None	None
HSCHR6_MHC_DBB	HLA-F	ENSG00000235220	ENST00000428296	protein_coding	KNOWN	None	4963	1329	442	29688670	29692560	1	None	None
HSCHR6_MHC_DBB	HLA-F	ENSG00000235220	ENST00000490333	processed_transcript	KNOWN	None	4963	None	None	29688689	29691788	1	None	None
HSCHR6_MHC_DBB	HLA-F	ENSG00000235220	ENST00000494850	processed_transcript	KNOWN	None	4963	None	None	29688696	29690349	1	None	None
HSCHR6_MHC_DBB	HLA-F	ENSG00000235220	ENST00000420067	protein_coding	KNOWN	None	4963	765	254	29688726	29691788	1	None	None
HSCHR6_MHC_DBB	HLA-F	ENSG00000235220	ENST00000483651	processed_transcript	KNOWN	None	4963	None	None	29688766	29689614	1	None	None
HSCHR6_MHC_DBB	HLA-F	ENSG00000235220	ENST00000494940	processed_transcript	KNOWN	None	4963	None	None	29689202	29690561	1	None	None
HSCHR6_MHC_DBB	HLA-F	ENSG00000235220	ENST00000420923	protein_coding	KNOWN	None	4963	677	224	29689301	29691788	1	None	None
HSCHR6_MHC_DBB	HLA-F	ENSG00000235220	ENST00000489795	processed_transcript	KNOWN	None	4963	None	None	29689419	29691788	1	None	None
HSCHR6_MHC_DBB	HLA-F	ENSG00000235220	ENST00000482336	processed_transcript	KNOWN	None	4963	None	None	29690316	29703789	1	None	None
HSCHR6_MHC_DBB	HLA-F	ENSG00000235220	ENST00000485297	processed_transcript	KNOWN	None	4963	None	None	29690716	29694615	1	None	None
HSCHR6_MHC_DBB	HLA-F	ENSG00000235220	ENST00000426470	protein_coding	KNOWN	None	4963	374	123	29690796	29692560	1	None	None
HSCHR6_MHC_DBB	HLA-F	ENSG00000235220	ENST00000549067	protein_coding	KNOWN	None	4963	1260	419	29688602	29692559	1	None	None
HSCHR6_MHC_DBB	HLA-F	ENSG00000235220	ENST00000551832	protein_coding	KNOWN	None	4963	1041	346	29688602	29691785	1	None	None
21	ABCC13	ENSG00000243064	ENST00000429114	processed_transcript	KNOWN	None	16022	None	None	15608527	15651978	1	None	PRED6, C21orf73
21	ABCC13	ENSG00000243064	ENST00000482980	processed_transcript	KNOWN	None	16022	None	None	15646120	15710338	1	None	PRED6, C21orf73
21	ABCC13	ENSG00000243064	ENST00000481582	retained_intron	KNOWN	None	16022	None	None	15646201	15672006	1	None	PRED6, C21orf73
21	ABCC13	ENSG00000243064	ENST00000467409	retained_intron	KNOWN	None	16022	None	None	15646212	15673707	1	None	PRED6, C21orf73
21	ABCC13	ENSG00000243064	ENST00000471902	processed_transcript	PUTATIVE	None	16022	None	None	15646257	15663720	1	None	PRED6, C21orf73
21	ABCC13	ENSG00000243064	ENST00000463099	transcribed_unprocessed_pseudogene	KNOWN	None	16022	None	None	15646413	15735075	1	None	PRED6, C21orf73
21	ABCC13	ENSG00000243064	ENST00000400574	unprocessed_pseudogene	KNOWN	None	16022	None	None	15646120	15685346	1	None	PRED6, C21orf73
21	ABCC13	ENSG00000243064	ENST00000400571	unprocessed_pseudogene	KNOWN	None	16022	None	None	15646413	15673690	1	None	PRED6, C21orf73
1	BSDC1	ENSG00000160058	ENST00000455895	protein_coding	KNOWN	CCDS363	25501	1293	430	32830704	32860049	-1	None	FLJ10276, RP4-811H24.7
1	BSDC1	ENSG00000160058	ENST00000444377	nonsense_mediated_decay	KNOWN	None	25501	1287	428	32830714	32860029	-1	None	FLJ10276, RP4-811H24.7
1	BSDC1	ENSG00000160058	ENST00000341071	protein_coding	KNOWN	None	25501	1425	474	32830772	32860027	-1	None	FLJ10276, RP4-811H24.7
1	BSDC1	ENSG00000160058	ENST00000526031	protein_coding	KNOWN	CCDS44101	25501	1008	335	32831897	32860042	-1	None	FLJ10276, RP4-811H24.7
1	BSDC1	ENSG00000160058	ENST00000419121	protein_coding	KNOWN	CCDS44102	25501	1125	374	32831902	32860042	-1	None	FLJ10276, RP4-811H24.7
1	BSDC1	ENSG00000160058	ENST00000446293	protein_coding	KNOWN	CCDS44103	25501	1344	447	32832078	32860031	-1	None	FLJ10276, RP4-811H24.7
1	BSDC1	ENSG00000160058	ENST00000463967	processed_transcript	PUTATIVE	None	25501	None	None	32833626	32840383	-1	None	FLJ10276, RP4-811H24.7
1	BSDC1	ENSG00000160058	ENST00000373520	nonsense_mediated_decay	KNOWN	None	25501	195	64	32833634	32860029	-1	None	FLJ10276, RP4-811H24.7
1	BSDC1	ENSG00000160058	ENST00000527513	nonsense_mediated_decay	KNOWN	None	25501	270	89	32842231	32860026	-1	None	FLJ10276, RP4-811H24.7
1	BSDC1	ENSG00000160058	ENST00000527163	protein_coding	PUTATIVE	None	25501	533	176	32842288	32860026	-1	None	FLJ10276, RP4-811H24.7
1	BSDC1	ENSG00000160058	ENST00000530485	protein_coding	NOVEL	None	25501	468	155	32843828	32860029	-1	None	FLJ10276, RP4-811H24.7
1	BSDC1	ENSG00000160058	ENST00000474414	retained_intron	KNOWN	None	25501	None	None	32844364	32860332	-1	None	FLJ10276, RP4-811H24.7
1	BSDC1	ENSG00000160058	ENST00000530876	retained_intron	KNOWN	None	25501	None	None	32849498	32860032	-1	None	FLJ10276, RP4-811H24.7
1	BSDC1	ENSG00000160058	ENST00000530753	retained_intron	KNOWN	None	25501	None	None	32849542	32860026	-1	None	FLJ10276, RP4-811H24.7
1	BSDC1	ENSG00000160058	ENST00000533084	retained_intron	KNOWN	None	25501	None	None	32852022	32860032	-1	None	FLJ10276, RP4-811H24.7
1	BSDC1	ENSG00000160058	ENST00000531222	retained_intron	KNOWN	None	25501	None	None	32859202	32860026	-1	None	FLJ10276, RP4-811H24.7
1	BSDC1	ENSG00000160058	ENST00000413080	protein_coding	KNOWN	None	25501	1110	369	32830707	32860034	-1	None	FLJ10276, RP4-811H24.7
1	BSDC1	ENSG00000160058	ENST00000449308	protein_coding	KNOWN	None	25501	1269	422	32834827	32860034	-1	None	FLJ10276, RP4-811H24.7
22	ATP6V1E1	ENSG00000131100	ENST00000253413	protein_coding	KNOWN	CCDS13745	857	681	226	18074902	18111584	-1	ATP6E, ATP6V1E	P31, Vma4, ATP6E2
22	ATP6V1E1	ENSG00000131100	ENST00000399796	protein_coding	KNOWN	CCDS42978	857	591	196	18074935	18111513	-1	ATP6E, ATP6V1E	P31, Vma4, ATP6E2
22	ATP6V1E1	ENSG00000131100	ENST00000399798	protein_coding	KNOWN	CCDS42977	857	615	204	18075175	18111515	-1	ATP6E, ATP6V1E	P31, Vma4, ATP6E2
22	ATP6V1E1	ENSG00000131100	ENST00000473248	retained_intron	KNOWN	None	857	None	None	18075435	18078058	-1	ATP6E, ATP6V1E	P31, Vma4, ATP6E2
22	ATP6V1E1	ENSG00000131100	ENST00000413576	protein_coding	PUTATIVE	None	857	611	202	18077305	18111499	-1	ATP6E, ATP6V1E	P31, Vma4, ATP6E2
22	ATP6V1E1	ENSG00000131100	ENST00000481365	retained_intron	KNOWN	None	857	None	None	18080767	18102294	-1	ATP6E, ATP6V1E	P31, Vma4, ATP6E2
22	ATP6V1E1	ENSG00000131100	ENST00000484653	retained_intron	KNOWN	None	857	None	None	18083446	18102294	-1	ATP6E, ATP6V1E	P31, Vma4, ATP6E2
22	ATP6V1E1	ENSG00000131100	ENST00000478963	processed_transcript	PUTATIVE	None	857	None	None	18095380	18111514	-1	ATP6E, ATP6V1E	P31, Vma4, ATP6E2
22	ATP6V1E1	ENSG00000131100	ENST00000460085	processed_transcript	PUTATIVE	None	857	None	None	18095742	18111515	-1	ATP6E, ATP6V1E	P31, Vma4, ATP6E2
1	B3GALT2	ENSG00000162630	ENST00000367434	protein_coding	KNOWN	CCDS1383	917	1269	422	193148175	193155784	-1	None	beta3Gal-T2
2	ERMN	ENSG00000136541	ENST00000410096	protein_coding	KNOWN	CCDS46431	29208	855	284	158175137	158182446	-1	KIAA1189	JN, ERMIN
2	ERMN	ENSG00000136541	ENST00000397283	protein_coding	KNOWN	CCDS42764	29208	894	297	158175151	158184225	-1	KIAA1189	JN, ERMIN
2	ERMN	ENSG00000136541	ENST00000409395	nonsense_mediated_decay	KNOWN	None	29208	255	84	158177509	158182385	-1	KIAA1189	JN, ERMIN
2	ERMN	ENSG00000136541	ENST00000420719	protein_coding	NOVEL	None	29208	795	264	158177514	158182336	-1	KIAA1189	JN, ERMIN
2	ERMN	ENSG00000136541	ENST00000420317	protein_coding	KNOWN	None	29208	481	159	158178157	158183760	-1	KIAA1189	JN, ERMIN
2	ERMN	ENSG00000136541	ENST00000411762	protein_coding	KNOWN	None	29208	457	151	158178181	158183821	-1	KIAA1189	JN, ERMIN
2	ERMN	ENSG00000136541	ENST00000409216	protein_coding	PUTATIVE	None	29208	441	146	158178197	158182336	-1	KIAA1189	JN, ERMIN
2	ERMN	ENSG00000136541	ENST00000409925	protein_coding	PUTATIVE	None	29208	441	146	158178251	158182171	-1	KIAA1189	JN, ERMIN
2	ERMN	ENSG00000136541	ENST00000419116	protein_coding	NOVEL	None	29208	335	110	158178294	158182413	-1	KIAA1189	JN, ERMIN
2	ERMN	ENSG00000136541	ENST00000535935	protein_coding	KNOWN	None	29208	537	178	158177509	158181750	-1	KIAA1189	JN, ERMIN
19	APLP1	ENSG00000105290	ENST00000537454	protein_coding	NOVEL	None	597	1836	611	36358801	36370428	1	None	APLP
19	APLP1	ENSG00000105290	ENST00000221891	protein_coding	KNOWN	CCDS32997	597	1956	651	36359347	36370690	1	None	APLP
19	APLP1	ENSG00000105290	ENST00000590561	nonsense_mediated_decay	KNOWN	None	597	357	118	36359465	36370690	1	None	APLP
19	APLP1	ENSG00000105290	ENST00000586861	protein_coding	NOVEL	None	597	1935	644	36360375	36370395	1	None	APLP
19	APLP1	ENSG00000105290	ENST00000589743	protein_coding	PUTATIVE	None	597	519	172	36361086	36362898	1	None	APLP
19	APLP1	ENSG00000105290	ENST00000592316	protein_coding	PUTATIVE	None	597	882	293	36361356	36365522	1	None	APLP
19	APLP1	ENSG00000105290	ENST00000588808	protein_coding	PUTATIVE	None	597	664	220	36364548	36370076	1	None	APLP
19	APLP1	ENSG00000105290	ENST00000589298	processed_transcript	KNOWN	None	597	None	None	36365406	36369446	1	None	APLP
19	APLP1	ENSG00000105290	ENST00000587274	protein_coding	PUTATIVE	None	597	869	288	36365410	36370653	1	None	APLP
19	APLP1	ENSG00000105290	ENST00000590926	retained_intron	KNOWN	None	597	None	None	36369427	36370092	1	None	APLP
19	APLP1	ENSG00000105290	ENST00000591165	processed_transcript	PUTATIVE	None	597	None	None	36370129	36370693	1	None	APLP
10	AKR1E2	ENSG00000165568	ENST00000533295	protein_coding	PUTATIVE	None	23437	596	197	4828821	4879775	1	AKRDC1, AKR1CL2	MGC10612
10	AKR1E2	ENSG00000165568	ENST00000462718	processed_transcript	KNOWN	None	23437	None	None	4828901	4882011	1	AKRDC1, AKR1CL2	MGC10612
10	AKR1E2	ENSG00000165568	ENST00000474119	nonsense_mediated_decay	KNOWN	None	23437	612	203	4868369	4890254	1	AKRDC1, AKR1CL2	MGC10612
10	AKR1E2	ENSG00000165568	ENST00000463345	nonsense_mediated_decay	KNOWN	None	23437	924	307	4868426	4890254	1	AKRDC1, AKR1CL2	MGC10612
10	AKR1E2	ENSG00000165568	ENST00000298375	protein_coding	KNOWN	CCDS31134	23437	963	320	4868446	4890254	1	AKRDC1, AKR1CL2	MGC10612
10	AKR1E2	ENSG00000165568	ENST00000525281	processed_transcript	KNOWN	None	23437	None	None	4868447	4888391	1	AKRDC1, AKR1CL2	MGC10612
10	AKR1E2	ENSG00000165568	ENST00000525627	processed_transcript	PUTATIVE	None	23437	None	None	4868478	4879758	1	AKRDC1, AKR1CL2	MGC10612
10	AKR1E2	ENSG00000165568	ENST00000532248	protein_coding	KNOWN	None	23437	753	250	4868488	4889488	1	AKRDC1, AKR1CL2	MGC10612
10	AKR1E2	ENSG00000165568	ENST00000345253	protein_coding	KNOWN	CCDS59210	23437	669	222	4868488	4889937	1	AKRDC1, AKR1CL2	MGC10612
10	AKR1E2	ENSG00000165568	ENST00000334019	protein_coding	KNOWN	CCDS59209	23437	792	263	4868488	4889937	1	AKRDC1, AKR1CL2	MGC10612
10	AKR1E2	ENSG00000165568	ENST00000441590	processed_transcript	KNOWN	None	23437	None	None	4875547	4888003	1	AKRDC1, AKR1CL2	MGC10612
10	AKR1E2	ENSG00000165568	ENST00000525572	nonsense_mediated_decay	KNOWN	None	23437	112	36	4875592	4884049	1	AKRDC1, AKR1CL2	MGC10612
10	AKR1E2	ENSG00000165568	ENST00000487985	protein_coding	PUTATIVE	None	23437	170	55	4881976	4889537	1	AKRDC1, AKR1CL2	MGC10612
12	TBK1	ENSG00000183735	ENST00000331710	protein_coding	KNOWN	CCDS8968	11584	2190	729	64845660	64895888	1	None	NAK
12	TBK1	ENSG00000183735	ENST00000538890	protein_coding	KNOWN	None	11584	310	102	64845970	64858195	1	None	NAK
12	TBK1	ENSG00000183735	ENST00000540417	protein_coding	KNOWN	None	11584	294	97	64846231	64858179	1	None	NAK
12	TBK1	ENSG00000183735	ENST00000539810	protein_coding	PUTATIVE	None	11584	145	47	64846255	64858186	1	None	NAK
12	TBK1	ENSG00000183735	ENST00000545025	retained_intron	KNOWN	None	11584	None	None	64877821	64879266	1	None	NAK
12	TBK1	ENSG00000183735	ENST00000536906	retained_intron	KNOWN	None	11584	None	None	64878187	64882366	1	None	NAK
12	TBK1	ENSG00000183735	ENST00000541805	retained_intron	KNOWN	None	11584	None	None	64889148	64889711	1	None	NAK
12	TBK1	ENSG00000183735	ENST00000545392	retained_intron	KNOWN	None	11584	None	None	64890794	64891701	1	None	NAK
8	STMN4	ENSG00000015592	ENST00000350889	protein_coding	KNOWN	CCDS6055	16078	651	216	27092840	27115903	-1	None	RB3
8	STMN4	ENSG00000015592	ENST00000519997	protein_coding	NOVEL	None	16078	504	167	27093402	27115918	-1	None	RB3
8	STMN4	ENSG00000015592	ENST00000265770	protein_coding	KNOWN	None	16078	570	189	27093820	27115926	-1	None	RB3
8	STMN4	ENSG00000015592	ENST00000523048	protein_coding	NOVEL	None	16078	612	203	27093992	27115937	-1	None	RB3
8	STMN4	ENSG00000015592	ENST00000519614	protein_coding	PUTATIVE	None	16078	696	231	27096857	27115921	-1	None	RB3
8	STMN4	ENSG00000015592	ENST00000522908	protein_coding	PUTATIVE	None	16078	777	258	27097207	27115921	-1	None	RB3
8	STMN4	ENSG00000015592	ENST00000522750	retained_intron	KNOWN	None	16078	None	None	27098685	27115915	-1	None	RB3
17	DRG2	ENSG00000108591	ENST00000225729	protein_coding	KNOWN	CCDS11191	3030	1095	364	17991200	18011285	1	None	None
17	DRG2	ENSG00000108591	ENST00000577771	retained_intron	KNOWN	None	3030	None	None	17991206	18002524	1	None	None
17	DRG2	ENSG00000108591	ENST00000496428	nonsense_mediated_decay	KNOWN	None	3030	273	90	17991235	18003251	1	None	None
17	DRG2	ENSG00000108591	ENST00000395726	protein_coding	NOVEL	None	3030	1032	343	17991239	18011273	1	None	None
17	DRG2	ENSG00000108591	ENST00000578173	retained_intron	KNOWN	None	3030	None	None	17991241	18001796	1	None	None
17	DRG2	ENSG00000108591	ENST00000582314	nonsense_mediated_decay	KNOWN	None	3030	273	90	17991255	18007121	1	None	None
17	DRG2	ENSG00000108591	ENST00000579601	protein_coding	PUTATIVE	None	3030	475	157	17991263	18002976	1	None	None
17	DRG2	ENSG00000108591	ENST00000473213	retained_intron	KNOWN	None	3030	None	None	17991275	17997594	1	None	None
17	DRG2	ENSG00000108591	ENST00000578767	retained_intron	KNOWN	None	3030	None	None	17991276	18002535	1	None	None
17	DRG2	ENSG00000108591	ENST00000582419	nonsense_mediated_decay	KNOWN	None	3030	69	22	17991279	18002364	1	None	None
17	DRG2	ENSG00000108591	ENST00000580055	nonsense_mediated_decay	KNOWN	None	3030	735	244	17991280	18011241	1	None	None
17	DRG2	ENSG00000108591	ENST00000467099	nonsense_mediated_decay	KNOWN	None	3030	273	90	17991282	18011284	1	None	None
17	DRG2	ENSG00000108591	ENST00000579224	nonsense_mediated_decay	KNOWN	None	3030	519	172	17991286	18004814	1	None	None
17	DRG2	ENSG00000108591	ENST00000584212	retained_intron	KNOWN	None	3030	None	None	17991288	18001778	1	None	None
17	DRG2	ENSG00000108591	ENST00000577450	nonsense_mediated_decay	KNOWN	None	3030	339	112	17991288	18003919	1	None	None
17	DRG2	ENSG00000108591	ENST00000580929	protein_coding	PUTATIVE	None	3030	341	112	17991290	18004831	1	None	None
17	DRG2	ENSG00000108591	ENST00000583162	retained_intron	KNOWN	None	3030	None	None	17991293	18003575	1	None	None
17	DRG2	ENSG00000108591	ENST00000583355	protein_coding	PUTATIVE	None	3030	486	161	17991321	18010914	1	None	None
17	DRG2	ENSG00000108591	ENST00000582528	retained_intron	KNOWN	None	3030	None	None	17999036	18011284	1	None	None
17	DRG2	ENSG00000108591	ENST00000497744	retained_intron	KNOWN	None	3030	None	None	18007874	18011255	1	None	None
17	DRG2	ENSG00000108591	ENST00000482564	retained_intron	KNOWN	None	3030	None	None	18008761	18011283	1	None	None
16	ALG1	ENSG00000033011	ENST00000591961	retained_intron	KNOWN	None	18294	None	None	5083703	5094000	1	None	HMT-1, HMAT1
16	ALG1	ENSG00000033011	ENST00000588623	protein_coding	PUTATIVE	None	18294	1062	353	5083961	5135391	1	None	HMT-1, HMAT1
16	ALG1	ENSG00000033011	ENST00000262374	protein_coding	KNOWN	CCDS10528	18294	1395	464	5121820	5135395	1	None	HMT-1, HMAT1
16	ALG1	ENSG00000033011	ENST00000586840	protein_coding	NOVEL	None	18294	554	183	5121823	5127470	1	None	HMT-1, HMAT1
16	ALG1	ENSG00000033011	ENST00000592793	retained_intron	KNOWN	None	18294	None	None	5121844	5123429	1	None	HMT-1, HMAT1
16	ALG1	ENSG00000033011	ENST00000591822	nonsense_mediated_decay	KNOWN	None	18294	255	84	5121850	5135019	1	None	HMT-1, HMAT1
16	ALG1	ENSG00000033011	ENST00000591783	protein_coding	PUTATIVE	None	18294	503	166	5122206	5128853	1	None	HMT-1, HMAT1
16	ALG1	ENSG00000033011	ENST00000544428	protein_coding	PUTATIVE	None	18294	1062	353	5122249	5135058	1	None	HMT-1, HMAT1
16	ALG1	ENSG00000033011	ENST00000592661	processed_transcript	PUTATIVE	None	18294	None	None	5135072	5137380	1	None	HMT-1, HMAT1
19	FAM187B	ENSG00000177558	ENST00000324675	protein_coding	KNOWN	CCDS12448	26366	1110	369	35715703	35719632	-1	TMEM162	FLJ25660
7	SYPL1	ENSG00000008282	ENST00000455385	protein_coding	KNOWN	CCDS47685	11507	726	241	105730949	105752777	-1	SYPL	None
7	SYPL1	ENSG00000008282	ENST00000011473	protein_coding	KNOWN	CCDS5736	11507	780	259	105730951	105753022	-1	SYPL	None
7	SYPL1	ENSG00000008282	ENST00000464029	protein_coding	PUTATIVE	None	11507	446	147	105731853	105738308	-1	SYPL	None
7	SYPL1	ENSG00000008282	ENST00000470347	protein_coding	PUTATIVE	None	11507	675	224	105731903	105752667	-1	SYPL	None
7	SYPL1	ENSG00000008282	ENST00000460770	retained_intron	KNOWN	None	11507	None	None	105732145	105733698	-1	SYPL	None
7	SYPL1	ENSG00000008282	ENST00000483448	retained_intron	KNOWN	None	11507	None	None	105752278	105753022	-1	SYPL	None
17	SLC16A13	ENSG00000174327	ENST00000308027	protein_coding	KNOWN	CCDS11085	31037	1281	426	6939394	6943440	1	None	MCT13
17	SLC16A13	ENSG00000174327	ENST00000575844	retained_intron	KNOWN	None	31037	None	None	6939416	6940383	1	None	MCT13
10	PTER	ENSG00000165983	ENST00000535784	protein_coding	KNOWN	CCDS7111	9590	1050	349	16478942	16553255	1	None	None
10	PTER	ENSG00000165983	ENST00000378000	protein_coding	KNOWN	CCDS7111	9590	1050	349	16478983	16555736	1	None	None
10	PTER	ENSG00000165983	ENST00000485788	processed_transcript	KNOWN	None	9590	None	None	16526690	16528791	1	None	None
10	PTER	ENSG00000165983	ENST00000423462	protein_coding	KNOWN	CCDS58070	9590	909	302	16478971	16555447	1	None	None
10	PTER	ENSG00000165983	ENST00000298942	protein_coding	KNOWN	CCDS7111	9590	1050	349	16526331	16555736	1	None	None
18	GALNT1	ENSG00000141429	ENST00000586725	processed_transcript	KNOWN	None	4123	None	None	33161081	33234557	1	None	GalNAc-T1
18	GALNT1	ENSG00000141429	ENST00000591924	protein_coding	KNOWN	None	4123	316	104	33161704	33243768	1	None	GalNAc-T1
18	GALNT1	ENSG00000141429	ENST00000589189	nonsense_mediated_decay	KNOWN	None	4123	1164	387	33207393	33290256	1	None	GalNAc-T1
18	GALNT1	ENSG00000141429	ENST00000269195	protein_coding	KNOWN	CCDS11915	4123	1680	559	33234524	33291798	1	None	GalNAc-T1
18	GALNT1	ENSG00000141429	ENST00000591081	protein_coding	PUTATIVE	None	4123	318	105	33234536	33244481	1	None	GalNAc-T1
18	GALNT1	ENSG00000141429	ENST00000590654	nonsense_mediated_decay	KNOWN	None	4123	153	50	33234620	33289744	1	None	GalNAc-T1
18	GALNT1	ENSG00000141429	ENST00000537549	protein_coding	KNOWN	None	4123	1500	499	33234620	33289744	1	None	GalNAc-T1
19	SPACA4	ENSG00000177202	ENST00000321762	protein_coding	KNOWN	CCDS12725	16441	375	124	49110000	49110970	1	None	SAMP14
2	CYTIP	ENSG00000115165	ENST00000264192	protein_coding	KNOWN	CCDS2204	9506	1080	359	158271131	158300654	-1	PSCDBP	B3-1, HE, CYBR, CASP, CYTHIP
2	CYTIP	ENSG00000115165	ENST00000418920	protein_coding	PUTATIVE	None	9506	393	130	158272558	158295926	-1	PSCDBP	B3-1, HE, CYBR, CASP, CYTHIP
2	CYTIP	ENSG00000115165	ENST00000457793	nonsense_mediated_decay	KNOWN	None	9506	186	61	158272583	158300610	-1	PSCDBP	B3-1, HE, CYBR, CASP, CYTHIP
2	CYTIP	ENSG00000115165	ENST00000497432	processed_transcript	KNOWN	None	9506	None	None	158287383	158345473	-1	PSCDBP	B3-1, HE, CYBR, CASP, CYTHIP
2	CYTIP	ENSG00000115165	ENST00000439355	protein_coding	PUTATIVE	None	9506	224	73	158287425	158345472	-1	PSCDBP	B3-1, HE, CYBR, CASP, CYTHIP
2	CYTIP	ENSG00000115165	ENST00000462109	retained_intron	KNOWN	None	9506	None	None	158290673	158300604	-1	PSCDBP	B3-1, HE, CYBR, CASP, CYTHIP
2	CYTIP	ENSG00000115165	ENST00000483929	retained_intron	KNOWN	None	9506	None	None	158290928	158300598	-1	PSCDBP	B3-1, HE, CYBR, CASP, CYTHIP
2	CYTIP	ENSG00000115165	ENST00000435117	protein_coding	PUTATIVE	None	9506	108	35	158291221	158345341	-1	PSCDBP	B3-1, HE, CYBR, CASP, CYTHIP
2	CYTIP	ENSG00000115165	ENST00000540637	protein_coding	KNOWN	None	9506	762	253	158271970	158345473	-1	PSCDBP	B3-1, HE, CYBR, CASP, CYTHIP
11	LRRC32	ENSG00000137507	ENST00000260061	protein_coding	KNOWN	CCDS8245	4161	1989	662	76368568	76381791	-1	D11S833E, GARP	None
11	LRRC32	ENSG00000137507	ENST00000404995	protein_coding	KNOWN	CCDS8245	4161	1989	662	76368571	76381791	-1	D11S833E, GARP	None
11	LRRC32	ENSG00000137507	ENST00000464145	processed_transcript	PUTATIVE	None	4161	None	None	76368614	76377015	-1	D11S833E, GARP	None
11	LRRC32	ENSG00000137507	ENST00000421973	protein_coding	KNOWN	None	4161	558	185	76372079	76381044	-1	D11S833E, GARP	None
11	LRRC32	ENSG00000137507	ENST00000407242	protein_coding	KNOWN	CCDS8245	4161	1989	662	76368569	76381044	-1	D11S833E, GARP	None
HSCHR6_MHC_MCF	DHX16	ENSG00000231377	ENST00000458094	protein_coding	KNOWN	None	2739	3126	1041	30699357	30719302	-1	DDX16	DBP2, Prp2, PRPF2
HSCHR6_MHC_MCF	DHX16	ENSG00000231377	ENST00000453879	protein_coding	KNOWN	None	2739	1683	560	30699357	30708249	-1	DDX16	DBP2, Prp2, PRPF2
HSCHR6_MHC_MCF	DHX16	ENSG00000231377	ENST00000462469	processed_transcript	KNOWN	None	2739	None	None	30705739	30706843	-1	DDX16	DBP2, Prp2, PRPF2
HSCHR6_MHC_MCF	DHX16	ENSG00000231377	ENST00000450691	protein_coding	KNOWN	None	2739	886	294	30711396	30719253	-1	DDX16	DBP2, Prp2, PRPF2
1	MOV10	ENSG00000155363	ENST00000486416	processed_transcript	KNOWN	None	7200	None	None	113215763	113217505	1	None	gb110, MGC2948, fSAP113
1	MOV10	ENSG00000155363	ENST00000413052	protein_coding	KNOWN	CCDS853	7200	3012	1003	113217043	113243368	1	None	gb110, MGC2948, fSAP113
1	MOV10	ENSG00000155363	ENST00000369645	protein_coding	KNOWN	CCDS853	7200	3012	1003	113217109	113243361	1	None	gb110, MGC2948, fSAP113
1	MOV10	ENSG00000155363	ENST00000369644	protein_coding	KNOWN	None	7200	2844	947	113217320	113243356	1	None	gb110, MGC2948, fSAP113
1	MOV10	ENSG00000155363	ENST00000496577	processed_transcript	KNOWN	None	7200	None	None	113217328	113243356	1	None	gb110, MGC2948, fSAP113
1	MOV10	ENSG00000155363	ENST00000475429	processed_transcript	KNOWN	None	7200	None	None	113217331	113232063	1	None	gb110, MGC2948, fSAP113
1	MOV10	ENSG00000155363	ENST00000468624	processed_transcript	KNOWN	None	7200	None	None	113217342	113243348	1	None	gb110, MGC2948, fSAP113
1	MOV10	ENSG00000155363	ENST00000465579	processed_transcript	KNOWN	None	7200	None	None	113217359	113231105	1	None	gb110, MGC2948, fSAP113
1	MOV10	ENSG00000155363	ENST00000357443	protein_coding	KNOWN	CCDS853	7200	3012	1003	113217367	113243332	1	None	gb110, MGC2948, fSAP113
1	MOV10	ENSG00000155363	ENST00000479858	processed_transcript	KNOWN	None	7200	None	None	113236527	113237206	1	None	gb110, MGC2948, fSAP113
1	MOV10	ENSG00000155363	ENST00000488160	processed_transcript	KNOWN	None	7200	None	None	113239361	113241814	1	None	gb110, MGC2948, fSAP113
1	MOV10	ENSG00000155363	ENST00000482545	processed_transcript	KNOWN	None	7200	None	None	113239441	113241301	1	None	gb110, MGC2948, fSAP113
1	MOV10	ENSG00000155363	ENST00000471160	processed_transcript	KNOWN	None	7200	None	None	113240482	113242383	1	None	gb110, MGC2948, fSAP113
1	MOV10	ENSG00000155363	ENST00000481711	processed_transcript	KNOWN	None	7200	None	None	113240930	113241597	1	None	gb110, MGC2948, fSAP113
1	MOV10	ENSG00000155363	ENST00000490413	processed_transcript	KNOWN	None	7200	None	None	113240930	113243361	1	None	gb110, MGC2948, fSAP113
1	MOV10	ENSG00000155363	ENST00000495374	processed_transcript	KNOWN	None	7200	None	None	113242246	113243344	1	None	gb110, MGC2948, fSAP113
1	MOV10	ENSG00000155363	ENST00000494319	processed_transcript	KNOWN	None	7200	None	None	113242309	113243347	1	None	gb110, MGC2948, fSAP113
1	MOV10	ENSG00000155363	ENST00000544796	protein_coding	KNOWN	None	7200	171	56	113217313	113229621	1	None	gb110, MGC2948, fSAP113
11	ZNF143	ENSG00000166478	ENST00000531943	protein_coding	KNOWN	None	12928	408	135	9481866	9499971	1	None	SBF, pHZ-1, STAF
11	ZNF143	ENSG00000166478	ENST00000396604	protein_coding	NOVEL	None	12928	1914	637	9482069	9549601	1	None	SBF, pHZ-1, STAF
11	ZNF143	ENSG00000166478	ENST00000396602	protein_coding	KNOWN	CCDS7799	12928	1917	638	9482512	9550071	1	None	SBF, pHZ-1, STAF
11	ZNF143	ENSG00000166478	ENST00000530463	protein_coding	NOVEL	None	12928	1914	637	9482523	9549160	1	None	SBF, pHZ-1, STAF
11	ZNF143	ENSG00000166478	ENST00000533542	protein_coding	NOVEL	None	12928	525	174	9482529	9501069	1	None	SBF, pHZ-1, STAF
11	ZNF143	ENSG00000166478	ENST00000532577	protein_coding	NOVEL	None	12928	453	150	9482532	9500019	1	None	SBF, pHZ-1, STAF
11	ZNF143	ENSG00000166478	ENST00000396597	protein_coding	KNOWN	None	12928	1824	607	9482534	9549193	1	None	SBF, pHZ-1, STAF
11	ZNF143	ENSG00000166478	ENST00000438144	protein_coding	KNOWN	None	12928	570	189	9482553	9500133	1	None	SBF, pHZ-1, STAF
11	ZNF143	ENSG00000166478	ENST00000496276	nonsense_mediated_decay	KNOWN	None	12928	261	86	9482559	9499981	1	None	SBF, pHZ-1, STAF
11	ZNF143	ENSG00000166478	ENST00000526657	protein_coding	NOVEL	None	12928	498	165	9482560	9500065	1	None	SBF, pHZ-1, STAF
11	ZNF143	ENSG00000166478	ENST00000299606	protein_coding	NOVEL	None	12928	1833	610	9482570	9549828	1	None	SBF, pHZ-1, STAF
11	ZNF143	ENSG00000166478	ENST00000534265	protein_coding	KNOWN	None	12928	525	174	9482574	9500088	1	None	SBF, pHZ-1, STAF
11	ZNF143	ENSG00000166478	ENST00000412390	protein_coding	KNOWN	None	12928	427	141	9482604	9499993	1	None	SBF, pHZ-1, STAF
11	ZNF143	ENSG00000166478	ENST00000414370	protein_coding	KNOWN	None	12928	251	82	9483195	9495533	1	None	SBF, pHZ-1, STAF
11	ZNF143	ENSG00000166478	ENST00000417726	protein_coding	KNOWN	None	12928	219	72	9483549	9495501	1	None	SBF, pHZ-1, STAF
11	ZNF143	ENSG00000166478	ENST00000527597	retained_intron	KNOWN	None	12928	None	None	9492654	9494263	1	None	SBF, pHZ-1, STAF
11	ZNF143	ENSG00000166478	ENST00000447186	protein_coding	PUTATIVE	None	12928	502	166	9534044	9547026	1	None	SBF, pHZ-1, STAF
11	ZNF143	ENSG00000166478	ENST00000532305	retained_intron	KNOWN	None	12928	None	None	9546768	9549499	1	None	SBF, pHZ-1, STAF
13	COG3	ENSG00000136152	ENST00000349995	protein_coding	KNOWN	CCDS9398	18619	2487	828	46039060	46110765	1	None	SEC34
13	COG3	ENSG00000136152	ENST00000476702	processed_transcript	KNOWN	None	18619	None	None	46039199	46040759	1	None	SEC34
13	COG3	ENSG00000136152	ENST00000465942	processed_transcript	KNOWN	None	18619	None	None	46065604	46086133	1	None	SEC34
13	COG3	ENSG00000136152	ENST00000486940	processed_transcript	KNOWN	None	18619	None	None	46090282	46106228	1	None	SEC34
2	CCDC88A	ENSG00000115355	ENST00000336838	protein_coding	NOVEL	CCDS46288	25523	5613	1870	55514978	55646749	-1	KIAA1212	FLJ10392, APE, GIV, HkRP1, GRDN
2	CCDC88A	ENSG00000115355	ENST00000263630	protein_coding	KNOWN	CCDS33203	25523	5532	1843	55514978	55646992	-1	KIAA1212	FLJ10392, APE, GIV, HkRP1, GRDN
2	CCDC88A	ENSG00000115355	ENST00000444458	protein_coding	NOVEL	None	25523	1124	373	55515224	55536343	-1	KIAA1212	FLJ10392, APE, GIV, HkRP1, GRDN
2	CCDC88A	ENSG00000115355	ENST00000412148	protein_coding	KNOWN	None	25523	2667	888	55515314	55555561	-1	KIAA1212	FLJ10392, APE, GIV, HkRP1, GRDN
2	CCDC88A	ENSG00000115355	ENST00000426576	protein_coding	PUTATIVE	None	25523	3609	1202	55521309	55561481	-1	KIAA1212	FLJ10392, APE, GIV, HkRP1, GRDN
2	CCDC88A	ENSG00000115355	ENST00000456975	protein_coding	NOVEL	None	25523	2208	735	55522933	55555532	-1	KIAA1212	FLJ10392, APE, GIV, HkRP1, GRDN
2	CCDC88A	ENSG00000115355	ENST00000474059	processed_transcript	KNOWN	None	25523	None	None	55536373	55544889	-1	KIAA1212	FLJ10392, APE, GIV, HkRP1, GRDN
2	CCDC88A	ENSG00000115355	ENST00000476903	processed_transcript	PUTATIVE	None	25523	None	None	55540965	55543187	-1	KIAA1212	FLJ10392, APE, GIV, HkRP1, GRDN
2	CCDC88A	ENSG00000115355	ENST00000468534	retained_intron	KNOWN	None	25523	None	None	55559551	55561486	-1	KIAA1212	FLJ10392, APE, GIV, HkRP1, GRDN
2	CCDC88A	ENSG00000115355	ENST00000430086	protein_coding	PUTATIVE	None	25523	442	146	55582848	55626913	-1	KIAA1212	FLJ10392, APE, GIV, HkRP1, GRDN
2	CCDC88A	ENSG00000115355	ENST00000471947	processed_transcript	KNOWN	None	25523	None	None	55630523	55646992	-1	KIAA1212	FLJ10392, APE, GIV, HkRP1, GRDN
2	CCDC88A	ENSG00000115355	ENST00000436346	protein_coding	KNOWN	None	25523	5616	1871	55514983	55647057	-1	KIAA1212	FLJ10392, APE, GIV, HkRP1, GRDN
2	CCDC88A	ENSG00000115355	ENST00000413716	protein_coding	KNOWN	CCDS58710	25523	5391	1796	55517546	55646412	-1	KIAA1212	FLJ10392, APE, GIV, HkRP1, GRDN
2	CCDC88A	ENSG00000115355	ENST00000422883	protein_coding	KNOWN	None	25523	1119	372	55515224	55536343	-1	KIAA1212	FLJ10392, APE, GIV, HkRP1, GRDN
12	KRT83	ENSG00000170523	ENST00000293670	protein_coding	KNOWN	CCDS8823	6460	1482	493	52708085	52715182	-1	KRTHB3	Hb-3
20	TMEM239	ENSG00000198326	ENST00000361033	protein_coding	PUTATIVE	None	40044	588	195	2796948	2800930	1	None	None
20	TMEM239	ENSG00000198326	ENST00000380585	protein_coding	KNOWN	CCDS54444	40044	459	152	2796979	2797677	1	None	None
20	TMEM239	ENSG00000198326	ENST00000554164	protein_coding	KNOWN	None	40044	765	254	2795614	2798712	1	None	None
1	None	ENSG00000254553	ENST00000480336	nonsense_mediated_decay	KNOWN	None	None	1539	512	32930658	33066393	1	None	None
19	ZNF616	ENSG00000204611	ENST00000600228	protein_coding	KNOWN	CCDS33090	28062	2346	781	52616344	52643170	-1	None	MGC45556
19	ZNF616	ENSG00000204611	ENST00000330123	protein_coding	PUTATIVE	None	28062	225	74	52618043	52642999	-1	None	MGC45556
19	ZNF616	ENSG00000204611	ENST00000596290	protein_coding	PUTATIVE	None	28062	210	69	52620166	52643175	-1	None	MGC45556
19	ZNF616	ENSG00000204611	ENST00000597013	protein_coding	PUTATIVE	None	28062	225	74	52625522	52643157	-1	None	MGC45556
19	ZNF616	ENSG00000204611	ENST00000600282	protein_coding	KNOWN	None	28062	118	38	52627197	52642078	-1	None	MGC45556
20	None	ENSG00000241690	ENST00000380593	protein_coding	PUTATIVE	None	None	765	254	2795614	2798712	1	None	None
1	ZBTB8B	ENSG00000215897	ENST00000415091	protein_coding	KNOWN	CCDS44104	37057	1488	495	32930670	32953461	1	None	RP1-27O5.1, DKFZp547H154, ZNF916B
4	CWH43	ENSG00000109182	ENST00000226432	protein_coding	KNOWN	CCDS3486	26133	2100	699	48988264	49064096	1	None	FLJ21511, CWH43-C
4	CWH43	ENSG00000109182	ENST00000514053	nonsense_mediated_decay	KNOWN	None	26133	717	238	48988330	49064098	1	None	FLJ21511, CWH43-C
4	CWH43	ENSG00000109182	ENST00000513409	protein_coding	PUTATIVE	None	26133	2019	672	48988656	49064093	1	None	FLJ21511, CWH43-C
4	CWH43	ENSG00000109182	ENST00000506221	retained_intron	KNOWN	None	26133	None	None	49005626	49019346	1	None	FLJ21511, CWH43-C
4	CWH43	ENSG00000109182	ENST00000507372	retained_intron	KNOWN	None	26133	None	None	49030709	49033293	1	None	FLJ21511, CWH43-C
20	C20orf141	ENSG00000258713	ENST00000603872	protein_coding	KNOWN	CCDS13034	16134	498	165	2795633	2796439	1	None	dJ860F19.4
20	C20orf141	ENSG00000258713	ENST00000380589	protein_coding	KNOWN	CCDS13034	16134	498	165	2795657	2796479	1	None	dJ860F19.4
19	RPL18	ENSG00000063177	ENST00000552347	retained_intron	KNOWN	None	10310	None	None	49118585	49122420	-1	None	L18
19	RPL18	ENSG00000063177	ENST00000549920	protein_coding	KNOWN	CCDS12726	10310	567	188	49118585	49122793	-1	None	L18
19	RPL18	ENSG00000063177	ENST00000547897	non_stop_decay	KNOWN	None	10310	415	137	49118587	49122425	-1	None	L18
19	RPL18	ENSG00000063177	ENST00000549533	retained_intron	KNOWN	None	10310	None	None	49118588	49119682	-1	None	L18
19	RPL18	ENSG00000063177	ENST00000084795	protein_coding	PUTATIVE	None	10310	571	189	49118588	49121141	-1	None	L18
19	RPL18	ENSG00000063177	ENST00000550645	protein_coding	NOVEL	None	10310	402	133	49118588	49122420	-1	None	L18
19	RPL18	ENSG00000063177	ENST00000552588	protein_coding	NOVEL	CCDS58669	10310	480	159	49118588	49122438	-1	None	L18
19	RPL18	ENSG00000063177	ENST00000551749	retained_intron	KNOWN	None	10310	None	None	49118588	49122440	-1	None	L18
19	RPL18	ENSG00000063177	ENST00000547892	retained_intron	KNOWN	None	10310	None	None	49118589	49122432	-1	None	L18
19	RPL18	ENSG00000063177	ENST00000546623	protein_coding	NOVEL	None	10310	502	166	49118590	49121054	-1	None	L18
19	RPL18	ENSG00000063177	ENST00000549370	nonsense_mediated_decay	KNOWN	None	10310	255	84	49118593	49122433	-1	None	L18
19	RPL18	ENSG00000063177	ENST00000549273	protein_coding	PUTATIVE	None	10310	495	164	49118623	49122434	-1	None	L18
19	RPL18	ENSG00000063177	ENST00000550973	protein_coding	PUTATIVE	None	10310	390	129	49118650	49122384	-1	None	L18
19	RPL18	ENSG00000063177	ENST00000552705	retained_intron	KNOWN	None	10310	None	None	49119239	49122440	-1	None	L18
19	RPL18	ENSG00000063177	ENST00000552851	retained_intron	KNOWN	None	10310	None	None	49119523	49122421	-1	None	L18
19	RPL18	ENSG00000063177	ENST00000550671	retained_intron	KNOWN	None	10310	None	None	49120415	49122441	-1	None	L18
17	ADPRM	ENSG00000170222	ENST00000379774	protein_coding	KNOWN	CCDS11159	30925	1029	342	10600911	10614550	1	C17orf48	MDS006
17	ADPRM	ENSG00000170222	ENST00000468843	nonsense_mediated_decay	KNOWN	None	30925	618	205	10600931	10614550	1	C17orf48	MDS006
17	ADPRM	ENSG00000170222	ENST00000527582	protein_coding	KNOWN	None	30925	618	205	10600933	10609245	1	C17orf48	MDS006
1	KCNT2	ENSG00000162687	ENST00000367433	protein_coding	KNOWN	None	18866	3336	1111	196194909	196577541	-1	None	KCa4.2, SLICK, SLO2.1
1	KCNT2	ENSG00000162687	ENST00000498426	processed_transcript	KNOWN	None	18866	None	None	196194913	196434517	-1	None	KCa4.2, SLICK, SLO2.1
1	KCNT2	ENSG00000162687	ENST00000294725	protein_coding	KNOWN	CCDS1384	18866	3408	1135	196197269	196577499	-1	None	KCa4.2, SLICK, SLO2.1
1	KCNT2	ENSG00000162687	ENST00000466914	processed_transcript	KNOWN	None	18866	None	None	196309465	196397337	-1	None	KCa4.2, SLICK, SLO2.1
1	KCNT2	ENSG00000162687	ENST00000367431	protein_coding	KNOWN	None	18866	3210	1069	196194913	196577541	-1	None	KCa4.2, SLICK, SLO2.1
1	KCNT2	ENSG00000162687	ENST00000451324	protein_coding	KNOWN	None	18866	1113	370	196196989	196577489	-1	None	KCa4.2, SLICK, SLO2.1
1	ZBTB8A	ENSG00000160062	ENST00000373510	protein_coding	KNOWN	CCDS30664	24172	1326	441	33005028	33071540	1	ZBTB8	BOZF1, FLJ90065, ZNF916A
1	ZBTB8A	ENSG00000160062	ENST00000316459	protein_coding	KNOWN	None	24172	1023	340	33005030	33066591	1	ZBTB8	BOZF1, FLJ90065, ZNF916A
11	TSKU	ENSG00000182704	ENST00000533752	protein_coding	KNOWN	None	28850	452	149	76493295	76507112	1	LRRC54	E2IG4, TSK
11	TSKU	ENSG00000182704	ENST00000333090	protein_coding	KNOWN	CCDS8246	28850	1062	353	76494283	76509198	1	LRRC54	E2IG4, TSK
11	TSKU	ENSG00000182704	ENST00000525167	protein_coding	KNOWN	None	28850	316	104	76495192	76506976	1	LRRC54	E2IG4, TSK
11	TSKU	ENSG00000182704	ENST00000527881	protein_coding	KNOWN	CCDS8246	28850	1062	353	76502796	76509188	1	LRRC54	E2IG4, TSK
10	TCF7L2	ENSG00000148737	ENST00000349937	protein_coding	KNOWN	None	11641	867	288	114710211	114905862	1	TCF4	TCF-4
10	TCF7L2	ENSG00000148737	ENST00000369397	protein_coding	KNOWN	CCDS7576	11641	1791	596	114710211	114927437	1	TCF4	TCF-4
10	TCF7L2	ENSG00000148737	ENST00000369395	protein_coding	KNOWN	None	11641	954	317	114710431	114905862	1	TCF4	TCF-4
10	TCF7L2	ENSG00000148737	ENST00000346198	protein_coding	KNOWN	None	11641	667	221	114710675	114901075	1	TCF4	TCF-4
10	TCF7L2	ENSG00000148737	ENST00000369389	protein_coding	KNOWN	None	11641	531	176	114903679	114925415	1	TCF4	TCF-4
10	TCF7L2	ENSG00000148737	ENST00000277945	protein_coding	KNOWN	None	11641	620	205	114905831	114925391	1	TCF4	TCF-4
10	TCF7L2	ENSG00000148737	ENST00000369386	protein_coding	KNOWN	None	11641	363	120	114910842	114926083	1	TCF4	TCF-4
10	TCF7L2	ENSG00000148737	ENST00000466338	processed_transcript	KNOWN	None	11641	None	None	114911530	114926068	1	TCF4	TCF-4
10	TCF7L2	ENSG00000148737	ENST00000470254	nonsense_mediated_decay	KNOWN	None	11641	327	108	114911590	114925699	1	TCF4	TCF-4
10	TCF7L2	ENSG00000148737	ENST00000480888	processed_transcript	KNOWN	None	11641	None	None	114912173	114925720	1	TCF4	TCF-4
10	TCF7L2	ENSG00000148737	ENST00000471569	processed_transcript	KNOWN	None	11641	None	None	114917532	114925346	1	TCF4	TCF-4
10	TCF7L2	ENSG00000148737	ENST00000476887	processed_transcript	KNOWN	None	11641	None	None	114917796	114925919	1	TCF4	TCF-4
10	TCF7L2	ENSG00000148737	ENST00000494353	processed_transcript	KNOWN	None	11641	None	None	114920990	114925440	1	TCF4	TCF-4
10	TCF7L2	ENSG00000148737	ENST00000355995	protein_coding	KNOWN	None	11641	1860	619	114710009	114927437	1	TCF4	TCF-4
10	TCF7L2	ENSG00000148737	ENST00000545257	protein_coding	KNOWN	None	11641	1860	619	114710009	114927437	1	TCF4	TCF-4
10	TCF7L2	ENSG00000148737	ENST00000543371	protein_coding	KNOWN	CCDS53577	11641	1809	602	114710009	114927437	1	TCF4	TCF-4
10	TCF7L2	ENSG00000148737	ENST00000536810	protein_coding	KNOWN	None	11641	1809	602	114710009	114927437	1	TCF4	TCF-4
10	TCF7L2	ENSG00000148737	ENST00000355717	protein_coding	KNOWN	CCDS53578	11641	1470	489	114710009	114927437	1	TCF4	TCF-4
10	TCF7L2	ENSG00000148737	ENST00000538897	protein_coding	KNOWN	None	11641	1449	482	114710009	114927437	1	TCF4	TCF-4
10	TCF7L2	ENSG00000148737	ENST00000352065	protein_coding	KNOWN	CCDS55729	11641	1380	459	114710425	114925371	1	TCF4	TCF-4
10	TCF7L2	ENSG00000148737	ENST00000534894	protein_coding	KNOWN	None	11641	1485	494	114710009	114920420	1	TCF4	TCF-4
10	TCF7L2	ENSG00000148737	ENST00000542695	protein_coding	KNOWN	None	11641	1008	335	114710516	114925731	1	TCF4	TCF-4
8	ZFAT	ENSG00000066827	ENST00000520356	protein_coding	NOVEL	CCDS55275	19899	3438	1145	135490031	135708797	-1	ZNF406, ZFAT1	KIAA1485
8	ZFAT	ENSG00000066827	ENST00000520727	protein_coding	KNOWN	CCDS43768	19899	3696	1231	135490035	135708797	-1	ZNF406, ZFAT1	KIAA1485
8	ZFAT	ENSG00000066827	ENST00000429442	protein_coding	PUTATIVE	None	19899	3471	1156	135490035	135708801	-1	ZNF406, ZFAT1	KIAA1485
8	ZFAT	ENSG00000066827	ENST00000377838	protein_coding	KNOWN	CCDS47924	19899	3732	1243	135490035	135725281	-1	ZNF406, ZFAT1	KIAA1485
8	ZFAT	ENSG00000066827	ENST00000523924	nonsense_mediated_decay	KNOWN	None	19899	177	58	135490035	135725281	-1	ZNF406, ZFAT1	KIAA1485
8	ZFAT	ENSG00000066827	ENST00000523243	nonsense_mediated_decay	KNOWN	None	19899	2997	998	135490035	135725292	-1	ZNF406, ZFAT1	KIAA1485
8	ZFAT	ENSG00000066827	ENST00000518408	retained_intron	KNOWN	None	19899	None	None	135490268	135577914	-1	ZNF406, ZFAT1	KIAA1485
8	ZFAT	ENSG00000066827	ENST00000520214	protein_coding	KNOWN	CCDS43768	19899	3696	1231	135490268	135708797	-1	ZNF406, ZFAT1	KIAA1485
8	ZFAT	ENSG00000066827	ENST00000521673	protein_coding	PUTATIVE	None	19899	492	163	135490465	135522425	-1	ZNF406, ZFAT1	KIAA1485
8	ZFAT	ENSG00000066827	ENST00000523399	protein_coding	NOVEL	CCDS55276	19899	3546	1181	135490636	135725205	-1	ZNF406, ZFAT1	KIAA1485
8	ZFAT	ENSG00000066827	ENST00000522723	processed_transcript	KNOWN	None	19899	None	None	135521944	135523325	-1	ZNF406, ZFAT1	KIAA1485
8	ZFAT	ENSG00000066827	ENST00000517307	processed_transcript	KNOWN	None	19899	None	None	135524817	135607128	-1	ZNF406, ZFAT1	KIAA1485
8	ZFAT	ENSG00000066827	ENST00000519827	nonsense_mediated_decay	KNOWN	None	19899	296	97	135596194	135612911	-1	ZNF406, ZFAT1	KIAA1485
8	ZFAT	ENSG00000066827	ENST00000522974	retained_intron	KNOWN	None	19899	None	None	135609787	135708797	-1	ZNF406, ZFAT1	KIAA1485
8	ZFAT	ENSG00000066827	ENST00000523040	processed_transcript	KNOWN	None	19899	None	None	135615050	135649836	-1	ZNF406, ZFAT1	KIAA1485
8	ZFAT	ENSG00000066827	ENST00000522257	protein_coding	PUTATIVE	None	19899	588	195	135620983	135652123	-1	ZNF406, ZFAT1	KIAA1485
8	ZFAT	ENSG00000066827	ENST00000518191	protein_coding	NOVEL	None	19899	451	149	135621084	135708799	-1	ZNF406, ZFAT1	KIAA1485
HSCHR6_MHC_MANN	None	ENSG00000258045	ENST00000553249	protein_coding	NOVEL	None	None	276	91	30515667	30519569	1	None	None
19	LSR	ENSG00000105699	ENST00000597933	processed_transcript	KNOWN	None	29572	None	None	35739233	35753626	1	None	LISCH7, ILDR3
19	LSR	ENSG00000105699	ENST00000602122	protein_coding	KNOWN	CCDS59376	29572	1890	629	35739295	35758865	1	None	LISCH7, ILDR3
19	LSR	ENSG00000105699	ENST00000361790	protein_coding	KNOWN	CCDS12450	29572	1950	649	35739623	35758863	1	None	LISCH7, ILDR3
19	LSR	ENSG00000105699	ENST00000602003	protein_coding	PUTATIVE	None	29572	154	50	35739639	35741273	1	None	LISCH7, ILDR3
19	LSR	ENSG00000105699	ENST00000360798	protein_coding	NOVEL	CCDS12451	29572	1746	581	35739668	35758865	1	None	LISCH7, ILDR3
19	LSR	ENSG00000105699	ENST00000354900	protein_coding	KNOWN	CCDS12449	29572	1893	630	35739675	35758867	1	None	LISCH7, ILDR3
19	LSR	ENSG00000105699	ENST00000347609	protein_coding	KNOWN	None	29572	1776	591	35739782	35758866	1	None	LISCH7, ILDR3
19	LSR	ENSG00000105699	ENST00000605618	protein_coding	NOVEL	None	29572	1503	500	35739905	35758865	1	None	LISCH7, ILDR3
19	LSR	ENSG00000105699	ENST00000601623	protein_coding	PUTATIVE	None	29572	642	213	35740004	35750304	1	None	LISCH7, ILDR3
19	LSR	ENSG00000105699	ENST00000602044	processed_transcript	KNOWN	None	29572	None	None	35740250	35753491	1	None	LISCH7, ILDR3
19	LSR	ENSG00000105699	ENST00000599658	protein_coding	PUTATIVE	None	29572	343	113	35741466	35757330	1	None	LISCH7, ILDR3
19	LSR	ENSG00000105699	ENST00000597446	retained_intron	KNOWN	None	29572	None	None	35757399	35758163	1	None	LISCH7, ILDR3
19	LSR	ENSG00000105699	ENST00000427250	protein_coding	KNOWN	None	29572	1482	493	35739905	35758865	1	None	LISCH7, ILDR3
17	SGCA	ENSG00000108823	ENST00000513942	processed_transcript	KNOWN	None	10805	None	None	48241575	48253211	1	ADL	SCARMD1, LGMD2D, adhalin, DMDA2, A2
17	SGCA	ENSG00000108823	ENST00000514934	nonsense_mediated_decay	KNOWN	None	10805	198	65	48243346	48245931	1	ADL	SCARMD1, LGMD2D, adhalin, DMDA2, A2
17	SGCA	ENSG00000108823	ENST00000513821	nonsense_mediated_decay	KNOWN	None	10805	897	298	48243365	48253158	1	ADL	SCARMD1, LGMD2D, adhalin, DMDA2, A2
17	SGCA	ENSG00000108823	ENST00000344627	protein_coding	KNOWN	CCDS45729	10805	792	263	48243366	48253289	1	ADL	SCARMD1, LGMD2D, adhalin, DMDA2, A2
17	SGCA	ENSG00000108823	ENST00000262018	protein_coding	KNOWN	CCDS32679	10805	1164	387	48243366	48253292	1	ADL	SCARMD1, LGMD2D, adhalin, DMDA2, A2
17	SGCA	ENSG00000108823	ENST00000502555	nonsense_mediated_decay	KNOWN	None	10805	186	61	48243370	48247340	1	ADL	SCARMD1, LGMD2D, adhalin, DMDA2, A2
17	SGCA	ENSG00000108823	ENST00000511303	protein_coding	NOVEL	None	10805	591	196	48243406	48253289	1	ADL	SCARMD1, LGMD2D, adhalin, DMDA2, A2
17	SGCA	ENSG00000108823	ENST00000512526	nonsense_mediated_decay	KNOWN	None	10805	176	57	48244942	48252748	1	ADL	SCARMD1, LGMD2D, adhalin, DMDA2, A2
17	SGCA	ENSG00000108823	ENST00000504073	protein_coding	NOVEL	None	10805	481	159	48245883	48253275	1	ADL	SCARMD1, LGMD2D, adhalin, DMDA2, A2
17	SGCA	ENSG00000108823	ENST00000508382	processed_transcript	PUTATIVE	None	10805	None	None	48249766	48253261	1	ADL	SCARMD1, LGMD2D, adhalin, DMDA2, A2
17	SGCA	ENSG00000108823	ENST00000505964	retained_intron	KNOWN	None	10805	None	None	48252534	48253289	1	ADL	SCARMD1, LGMD2D, adhalin, DMDA2, A2
17	SGCA	ENSG00000108823	ENST00000543315	protein_coding	KNOWN	None	10805	792	263	48243366	48253292	1	ADL	SCARMD1, LGMD2D, adhalin, DMDA2, A2
17	SGCA	ENSG00000108823	ENST00000451235	protein_coding	KNOWN	None	10805	537	178	48243370	48247340	1	ADL	SCARMD1, LGMD2D, adhalin, DMDA2, A2
HSCHR6_MHC_MANN	COL11A2	ENSG00000223699	ENST00000425729	protein_coding	KNOWN	None	2187	4953	1650	33284377	33314194	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_MANN	COL11A2	ENSG00000223699	ENST00000496849	processed_transcript	KNOWN	None	2187	None	None	33284391	33299589	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_MANN	COL11A2	ENSG00000223699	ENST00000452044	protein_coding	KNOWN	None	2187	1872	623	33299828	33314162	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_MANN	COL11A2	ENSG00000223699	ENST00000435763	protein_coding	KNOWN	None	2187	873	290	33308140	33314149	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_MANN	COL11A2	ENSG00000223699	ENST00000551413	protein_coding	KNOWN	None	2187	5211	1736	33284388	33314163	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_MANN	COL11A2	ENSG00000223699	ENST00000552796	protein_coding	KNOWN	None	2187	5148	1715	33284388	33314163	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_MANN	COL11A2	ENSG00000223699	ENST00000546998	protein_coding	KNOWN	None	2187	5133	1710	33284388	33314163	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_MANN	COL11A2	ENSG00000223699	ENST00000546402	protein_coding	KNOWN	None	2187	5070	1689	33284388	33314163	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_MANN	COL11A2	ENSG00000223699	ENST00000547597	protein_coding	KNOWN	None	2187	5031	1676	33284388	33314163	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_MANN	COL11A2	ENSG00000223699	ENST00000551262	protein_coding	KNOWN	None	2187	4968	1655	33284388	33314163	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_MANN	COL11A2	ENSG00000223699	ENST00000552134	protein_coding	KNOWN	None	2187	4890	1629	33284388	33314163	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_MANN	COL11A2	ENSG00000223699	ENST00000551234	protein_coding	KNOWN	None	2187	921	306	33284388	33299509	-1	DFNA13, DFNB53	HKE5
2	ACVR1C	ENSG00000123612	ENST00000243349	protein_coding	KNOWN	CCDS2205	18123	1482	493	158388888	158485517	-1	None	ALK7, ACVRLK7
2	ACVR1C	ENSG00000123612	ENST00000409680	protein_coding	PUTATIVE	CCDS46434	18123	1332	443	158390254	158454072	-1	None	ALK7, ACVRLK7
2	ACVR1C	ENSG00000123612	ENST00000348328	protein_coding	KNOWN	CCDS46432	18123	1011	336	158390254	158485239	-1	None	ALK7, ACVRLK7
2	ACVR1C	ENSG00000123612	ENST00000335450	protein_coding	KNOWN	CCDS46433	18123	1242	413	158390254	158485239	-1	None	ALK7, ACVRLK7
9	None	ENSG00000233884	ENST00000411992	antisense	KNOWN	None	None	None	None	90463028	90468357	-1	None	None
9	None	ENSG00000214888	ENST00000399186	antisense	KNOWN	None	None	None	None	90471930	90474314	-1	None	None
20	PCED1A	ENSG00000132635	ENST00000474714	protein_coding	NOVEL	None	16212	383	126	2815960	2819012	-1	C20orf81, FAM113A	bA12M19.1, FLJ22376
20	PCED1A	ENSG00000132635	ENST00000487501	retained_intron	KNOWN	None	16212	None	None	2815960	2819582	-1	C20orf81, FAM113A	bA12M19.1, FLJ22376
20	PCED1A	ENSG00000132635	ENST00000360652	protein_coding	KNOWN	CCDS13035	16212	1365	454	2815960	2821338	-1	C20orf81, FAM113A	bA12M19.1, FLJ22376
20	PCED1A	ENSG00000132635	ENST00000356872	protein_coding	KNOWN	CCDS59442	16212	1212	403	2815960	2821836	-1	C20orf81, FAM113A	bA12M19.1, FLJ22376
20	PCED1A	ENSG00000132635	ENST00000448755	protein_coding	KNOWN	None	16212	688	228	2818878	2821317	-1	C20orf81, FAM113A	bA12M19.1, FLJ22376
20	PCED1A	ENSG00000132635	ENST00000439542	protein_coding	KNOWN	None	16212	841	279	2818878	2821836	-1	C20orf81, FAM113A	bA12M19.1, FLJ22376
19	ZNF836	ENSG00000196267	ENST00000599618	nonsense_mediated_decay	KNOWN	None	34333	93	30	52657117	52658217	-1	None	FLJ16287
19	ZNF836	ENSG00000196267	ENST00000597252	protein_coding	KNOWN	CCDS46162	34333	2811	936	52658101	52674744	-1	None	FLJ16287
19	ZNF836	ENSG00000196267	ENST00000596428	protein_coding	KNOWN	None	34333	317	104	52660619	52673639	-1	None	FLJ16287
19	ZNF836	ENSG00000196267	ENST00000597065	protein_coding	PUTATIVE	None	34333	267	88	52663574	52674896	-1	None	FLJ16287
19	ZNF836	ENSG00000196267	ENST00000602187	processed_transcript	KNOWN	None	34333	None	None	52668437	52672987	-1	None	FLJ16287
19	ZNF836	ENSG00000196267	ENST00000322146	protein_coding	KNOWN	CCDS46162	34333	2811	936	52658125	52674896	-1	None	FLJ16287
X	SPANXN4	ENSG00000189326	ENST00000446864	protein_coding	KNOWN	CCDS48178	33177	300	99	142113704	142122066	1	None	SPANX-N4, CT11.9
X	SPANXN4	ENSG00000189326	ENST00000370504	protein_coding	PUTATIVE	None	33177	471	156	142113718	142122488	1	None	SPANX-N4, CT11.9
9	TOPORS	ENSG00000197579	ENST00000360538	protein_coding	KNOWN	CCDS6527	21653	3138	1045	32540542	32552551	-1	RP31	TP53BPL, LUN
9	TOPORS	ENSG00000197579	ENST00000379858	protein_coding	KNOWN	CCDS56566	21653	2943	980	32540824	32552551	-1	RP31	TP53BPL, LUN
16	CX3CL1	ENSG00000006210	ENST00000006053	protein_coding	KNOWN	CCDS10779	10647	1194	397	57406370	57418960	1	SCYD1	NTN, C3Xkine, ABCD-3, CXC3C, CXC3, fractalkine, neurotactin
16	CX3CL1	ENSG00000006210	ENST00000563383	protein_coding	NOVEL	None	10647	1212	403	57406389	57418953	1	SCYD1	NTN, C3Xkine, ABCD-3, CXC3C, CXC3, fractalkine, neurotactin
16	CX3CL1	ENSG00000006210	ENST00000564948	protein_coding	PUTATIVE	None	10647	168	55	57406437	57416390	1	SCYD1	NTN, C3Xkine, ABCD-3, CXC3C, CXC3, fractalkine, neurotactin
16	CX3CL1	ENSG00000006210	ENST00000565912	protein_coding	PUTATIVE	None	10647	1080	359	57410884	57418954	1	SCYD1	NTN, C3Xkine, ABCD-3, CXC3C, CXC3, fractalkine, neurotactin
5	RAB24	ENSG00000169228	ENST00000478234	retained_intron	KNOWN	None	9765	None	None	176728199	176730734	-1	None	None
5	RAB24	ENSG00000169228	ENST00000393611	protein_coding	KNOWN	CCDS34300	9765	612	203	176728452	176730707	-1	None	None
5	RAB24	ENSG00000169228	ENST00000495458	retained_intron	KNOWN	None	9765	None	None	176728453	176730682	-1	None	None
5	RAB24	ENSG00000169228	ENST00000303251	protein_coding	KNOWN	CCDS34300	9765	612	203	176728465	176730709	-1	None	None
5	RAB24	ENSG00000169228	ENST00000303270	protein_coding	PUTATIVE	None	9765	525	174	176728487	176730711	-1	None	None
5	RAB24	ENSG00000169228	ENST00000471466	retained_intron	KNOWN	None	9765	None	None	176728504	176730706	-1	None	None
5	RAB24	ENSG00000169228	ENST00000393610	retained_intron	KNOWN	None	9765	None	None	176729236	176730643	-1	None	None
5	RAB24	ENSG00000169228	ENST00000504395	protein_coding	KNOWN	None	9765	197	64	176729821	176730745	-1	None	None
5	RAB24	ENSG00000169228	ENST00000512758	retained_intron	KNOWN	None	9765	None	None	176730058	176730662	-1	None	None
1	ZBTB8OS	ENSG00000176261	ENST00000468695	protein_coding	KNOWN	CCDS365	24094	540	179	33086421	33116185	-1	None	ARCH
1	ZBTB8OS	ENSG00000176261	ENST00000492007	processed_transcript	KNOWN	None	24094	None	None	33086912	33116150	-1	None	ARCH
1	ZBTB8OS	ENSG00000176261	ENST00000373506	processed_transcript	KNOWN	None	24094	None	None	33087205	33116155	-1	None	ARCH
1	ZBTB8OS	ENSG00000176261	ENST00000467652	processed_transcript	KNOWN	None	24094	None	None	33087431	33097659	-1	None	ARCH
1	ZBTB8OS	ENSG00000176261	ENST00000498691	processed_transcript	KNOWN	None	24094	None	None	33087431	33099662	-1	None	ARCH
1	ZBTB8OS	ENSG00000176261	ENST00000478041	processed_transcript	KNOWN	None	24094	None	None	33087431	33116126	-1	None	ARCH
1	ZBTB8OS	ENSG00000176261	ENST00000473294	nonsense_mediated_decay	KNOWN	None	24094	237	78	33087431	33116136	-1	None	ARCH
1	ZBTB8OS	ENSG00000176261	ENST00000436661	protein_coding	KNOWN	None	24094	442	146	33087431	33116161	-1	None	ARCH
1	ZBTB8OS	ENSG00000176261	ENST00000476493	processed_transcript	KNOWN	None	24094	None	None	33087442	33116151	-1	None	ARCH
1	ZBTB8OS	ENSG00000176261	ENST00000465588	processed_transcript	KNOWN	None	24094	None	None	33087459	33116126	-1	None	ARCH
1	ZBTB8OS	ENSG00000176261	ENST00000483138	processed_transcript	KNOWN	None	24094	None	None	33093173	33116136	-1	None	ARCH
1	ZBTB8OS	ENSG00000176261	ENST00000479075	processed_transcript	KNOWN	None	24094	None	None	33097426	33116504	-1	None	ARCH
1	ZBTB8OS	ENSG00000176261	ENST00000473383	processed_transcript	KNOWN	None	24094	None	None	33097428	33100123	-1	None	ARCH
1	ZBTB8OS	ENSG00000176261	ENST00000466361	processed_transcript	KNOWN	None	24094	None	None	33099959	33116136	-1	None	ARCH
1	ZBTB8OS	ENSG00000176261	ENST00000341885	protein_coding	KNOWN	None	24094	231	76	33065773	33116166	-1	None	ARCH
1	ZBTB8OS	ENSG00000176261	ENST00000373501	protein_coding	KNOWN	None	24094	411	136	33087436	33116161	-1	None	ARCH
HSCHR6_MHC_MANN	GNL1	ENSG00000232143	ENST00000454829	protein_coding	KNOWN	None	4413	1824	607	30553829	30569626	-1	None	HSR1
HSCHR6_MHC_MANN	GNL1	ENSG00000232143	ENST00000480572	retained_intron	KNOWN	None	4413	None	None	30558937	30564998	-1	None	HSR1
HSCHR6_MHC_MANN	GNL1	ENSG00000232143	ENST00000467241	retained_intron	KNOWN	None	4413	None	None	30559648	30560269	-1	None	HSR1
HSCHR6_MHC_MANN	GNL1	ENSG00000232143	ENST00000490227	retained_intron	KNOWN	None	4413	None	None	30564629	30565572	-1	None	HSR1
HSCHR6_MHC_MANN	GNL1	ENSG00000232143	ENST00000416639	protein_coding	KNOWN	None	4413	792	263	30565812	30568540	-1	None	HSR1
HSCHR6_MHC_MANN	GNL1	ENSG00000232143	ENST00000552589	protein_coding	KNOWN	None	4413	1290	429	30553837	30567096	-1	None	HSR1
9	None	ENSG00000234460	ENST00000447524	lincRNA	KNOWN	None	None	None	None	90479081	90481205	1	None	None
9	NOXA1	ENSG00000188747	ENST00000341349	protein_coding	KNOWN	CCDS7042	10668	1452	483	140317802	140328858	1	SDCCAG31	NY-CO-31, FLJ25475
9	NOXA1	ENSG00000188747	ENST00000392815	protein_coding	KNOWN	CCDS59157	10668	1284	427	140317847	140328857	1	SDCCAG31	NY-CO-31, FLJ25475
9	SPATA31C1	ENSG00000230246	ENST00000602681	processed_transcript	KNOWN	None	27846	None	None	90529408	90536023	1	FAM75C1	FLJ36055
9	SPATA31C1	ENSG00000230246	ENST00000420021	transcribed_unprocessed_pseudogene	KNOWN	None	27846	None	None	90529437	90538420	1	FAM75C1	FLJ36055
9	SPATA31C1	ENSG00000230246	ENST00000437823	unprocessed_pseudogene	KNOWN	None	27846	None	None	90529408	90538572	1	FAM75C1	FLJ36055
11	CABP2	ENSG00000167791	ENST00000353903	protein_coding	NOVEL	None	1385	492	163	67286383	67290867	-1	None	None
11	CABP2	ENSG00000167791	ENST00000294288	protein_coding	KNOWN	CCDS8170	1385	663	220	67286418	67290867	-1	None	None
11	CABP2	ENSG00000167791	ENST00000545205	nonsense_mediated_decay	KNOWN	None	1385	219	72	67286419	67290899	-1	None	None
19	TMEM91	ENSG00000142046	ENST00000539627	protein_coding	PUTATIVE	None	32393	399	132	41856816	41889988	1	None	FLJ27310, IFITMD6
19	TMEM91	ENSG00000142046	ENST00000604123	protein_coding	PUTATIVE	None	32393	573	190	41860074	41889988	1	None	FLJ27310, IFITMD6
19	TMEM91	ENSG00000142046	ENST00000413014	protein_coding	KNOWN	CCDS46082	32393	402	133	41869961	41889988	1	None	FLJ27310, IFITMD6
19	TMEM91	ENSG00000142046	ENST00000392002	protein_coding	KNOWN	CCDS42571	32393	519	172	41882129	41889988	1	None	FLJ27310, IFITMD6
19	TMEM91	ENSG00000142046	ENST00000436170	protein_coding	KNOWN	CCDS46084	32393	372	123	41882483	41889988	1	None	FLJ27310, IFITMD6
19	TMEM91	ENSG00000142046	ENST00000447302	protein_coding	KNOWN	CCDS46083	32393	384	127	41882638	41889988	1	None	FLJ27310, IFITMD6
19	TMEM91	ENSG00000142046	ENST00000544232	protein_coding	KNOWN	CCDS46082	32393	402	133	41882645	41889988	1	None	FLJ27310, IFITMD6
19	TMEM91	ENSG00000142046	ENST00000542945	protein_coding	PUTATIVE	None	32393	399	132	41882678	41889965	1	None	FLJ27310, IFITMD6
19	TMEM91	ENSG00000142046	ENST00000537354	protein_coding	KNOWN	None	32393	343	113	41882874	41888809	1	None	FLJ27310, IFITMD6
19	TMEM91	ENSG00000142046	ENST00000342187	protein_coding	KNOWN	None	32393	368	121	41883172	41889627	1	None	FLJ27310, IFITMD6
19	TMEM91	ENSG00000142046	ENST00000356385	protein_coding	KNOWN	CCDS42572	32393	420	139	41883197	41889988	1	None	FLJ27310, IFITMD6
19	TMEM91	ENSG00000142046	ENST00000546050	protein_coding	NOVEL	None	32393	192	63	41884257	41889988	1	None	FLJ27310, IFITMD6
19	TMEM91	ENSG00000142046	ENST00000546362	protein_coding	KNOWN	None	32393	262	86	41884373	41889982	1	None	FLJ27310, IFITMD6
19	TMEM91	ENSG00000142046	ENST00000535712	protein_coding	KNOWN	None	32393	181	59	41888706	41889985	1	None	FLJ27310, IFITMD6
12	KIF21A	ENSG00000139116	ENST00000547733	retained_intron	KNOWN	None	19349	None	None	39687030	39706628	-1	FEOM1	FLJ20052
12	KIF21A	ENSG00000139116	ENST00000361961	protein_coding	KNOWN	CCDS31773	19349	4986	1661	39687031	39837192	-1	FEOM1	FLJ20052
12	KIF21A	ENSG00000139116	ENST00000551264	protein_coding	NOVEL	None	19349	1968	655	39687033	39726210	-1	FEOM1	FLJ20052
12	KIF21A	ENSG00000139116	ENST00000552961	protein_coding	NOVEL	None	19349	2927	974	39687033	39734860	-1	FEOM1	FLJ20052
12	KIF21A	ENSG00000139116	ENST00000544797	protein_coding	KNOWN	CCDS53775	19349	4914	1637	39688189	39836861	-1	FEOM1	FLJ20052
12	KIF21A	ENSG00000139116	ENST00000361418	protein_coding	KNOWN	CCDS53776	19349	5025	1674	39688223	39836788	-1	FEOM1	FLJ20052
12	KIF21A	ENSG00000139116	ENST00000541463	protein_coding	KNOWN	CCDS53774	19349	4866	1621	39688226	39836772	-1	FEOM1	FLJ20052
12	KIF21A	ENSG00000139116	ENST00000547745	processed_transcript	KNOWN	None	19349	None	None	39703554	39715450	-1	FEOM1	FLJ20052
12	KIF21A	ENSG00000139116	ENST00000547108	nonsense_mediated_decay	KNOWN	None	19349	1427	474	39713784	39734049	-1	FEOM1	FLJ20052
12	KIF21A	ENSG00000139116	ENST00000552475	processed_transcript	KNOWN	None	19349	None	None	39713792	39725826	-1	FEOM1	FLJ20052
12	KIF21A	ENSG00000139116	ENST00000551066	protein_coding	PUTATIVE	None	19349	417	138	39723854	39726129	-1	FEOM1	FLJ20052
12	KIF21A	ENSG00000139116	ENST00000546817	retained_intron	KNOWN	None	19349	None	None	39726839	39731343	-1	FEOM1	FLJ20052
12	KIF21A	ENSG00000139116	ENST00000550429	retained_intron	KNOWN	None	19349	None	None	39750402	39751089	-1	FEOM1	FLJ20052
12	KIF21A	ENSG00000139116	ENST00000552908	protein_coding	NOVEL	None	19349	871	289	39751053	39761729	-1	FEOM1	FLJ20052
12	KIF21A	ENSG00000139116	ENST00000395670	protein_coding	KNOWN	None	19349	5028	1675	39687031	39837192	-1	FEOM1	FLJ20052
7	OCM	ENSG00000122543	ENST00000416608	protein_coding	KNOWN	CCDS43548	8105	330	109	5919458	5925873	1	None	OCM1
7	OCM	ENSG00000122543	ENST00000242104	protein_coding	KNOWN	CCDS43548	8105	330	109	5920429	5925993	1	None	OCM1
22	BCL2L13	ENSG00000099968	ENST00000399781	processed_transcript	KNOWN	None	17164	None	None	18111621	18178975	1	None	MIL1, BCL-RAMBO
22	BCL2L13	ENSG00000099968	ENST00000399782	protein_coding	KNOWN	None	17164	606	201	18111682	18185194	1	None	MIL1, BCL-RAMBO
22	BCL2L13	ENSG00000099968	ENST00000317582	protein_coding	KNOWN	CCDS13746	17164	1458	485	18121356	18211487	1	None	MIL1, BCL-RAMBO
22	BCL2L13	ENSG00000099968	ENST00000498133	nonsense_mediated_decay	KNOWN	None	17164	237	78	18121507	18211465	1	None	MIL1, BCL-RAMBO
22	BCL2L13	ENSG00000099968	ENST00000464649	processed_transcript	PUTATIVE	None	17164	None	None	18121523	18175161	1	None	MIL1, BCL-RAMBO
22	BCL2L13	ENSG00000099968	ENST00000493680	protein_coding	KNOWN	None	17164	606	201	18121538	18186499	1	None	MIL1, BCL-RAMBO
22	BCL2L13	ENSG00000099968	ENST00000355028	protein_coding	NOVEL	CCDS59447	17164	516	171	18121577	18213388	1	None	MIL1, BCL-RAMBO
22	BCL2L13	ENSG00000099968	ENST00000399777	nonsense_mediated_decay	KNOWN	None	17164	115	37	18171840	18211906	1	None	MIL1, BCL-RAMBO
22	BCL2L13	ENSG00000099968	ENST00000479296	processed_transcript	PUTATIVE	None	17164	None	None	18178504	18185129	1	None	MIL1, BCL-RAMBO
22	BCL2L13	ENSG00000099968	ENST00000485631	processed_transcript	PUTATIVE	None	17164	None	None	18189476	18210436	1	None	MIL1, BCL-RAMBO
22	BCL2L13	ENSG00000099968	ENST00000418951	protein_coding	KNOWN	None	17164	315	104	18138478	18210300	1	None	MIL1, BCL-RAMBO
22	BCL2L13	ENSG00000099968	ENST00000538149	protein_coding	KNOWN	None	17164	1086	361	18121523	18210466	1	None	MIL1, BCL-RAMBO
22	BCL2L13	ENSG00000099968	ENST00000543133	protein_coding	KNOWN	CCDS59448	17164	972	323	18121507	18211465	1	None	MIL1, BCL-RAMBO
22	BCL2L13	ENSG00000099968	ENST00000337612	protein_coding	KNOWN	CCDS59448	17164	972	323	18121530	18210428	1	None	MIL1, BCL-RAMBO
13	POU4F1	ENSG00000152192	ENST00000377208	protein_coding	KNOWN	CCDS31996	9218	1260	419	79172497	79177673	-1	BRN3A	RDC-1
X	SPANXN3	ENSG00000189252	ENST00000370503	protein_coding	KNOWN	CCDS35418	33176	426	141	142596564	142605303	-1	None	SPANX-N3, CT11.8
3	GAP43	ENSG00000172020	ENST00000305124	protein_coding	KNOWN	CCDS33830	4140	717	238	115342171	115440337	1	None	B-50, PP46
3	GAP43	ENSG00000172020	ENST00000393780	protein_coding	PUTATIVE	CCDS46890	4140	825	274	115342357	115440337	1	None	B-50, PP46
13	RNF219	ENSG00000152193	ENST00000282003	protein_coding	KNOWN	CCDS31997	20308	2181	726	79188426	79233314	-1	C13orf7	FLJ13449
22	FAM118A	ENSG00000100376	ENST00000491671	processed_transcript	KNOWN	None	1313	None	None	45704849	45706054	1	C22orf8	FLJ20635, bK268H5.C22.4
22	FAM118A	ENSG00000100376	ENST00000216214	protein_coding	KNOWN	CCDS14065	1313	1074	357	45704863	45737836	1	C22orf8	FLJ20635, bK268H5.C22.4
22	FAM118A	ENSG00000100376	ENST00000481447	processed_transcript	KNOWN	None	1313	None	None	45704922	45705981	1	C22orf8	FLJ20635, bK268H5.C22.4
22	FAM118A	ENSG00000100376	ENST00000441876	protein_coding	KNOWN	CCDS14065	1313	1074	357	45705728	45736642	1	C22orf8	FLJ20635, bK268H5.C22.4
22	FAM118A	ENSG00000100376	ENST00000405673	protein_coding	PUTATIVE	None	1313	609	202	45706005	45725293	1	C22orf8	FLJ20635, bK268H5.C22.4
22	FAM118A	ENSG00000100376	ENST00000477714	retained_intron	KNOWN	None	1313	None	None	45706018	45724122	1	C22orf8	FLJ20635, bK268H5.C22.4
22	FAM118A	ENSG00000100376	ENST00000427777	protein_coding	KNOWN	None	1313	419	138	45714301	45723841	1	C22orf8	FLJ20635, bK268H5.C22.4
22	FAM118A	ENSG00000100376	ENST00000452238	protein_coding	PUTATIVE	None	1313	89	28	45714361	45718307	1	C22orf8	FLJ20635, bK268H5.C22.4
22	FAM118A	ENSG00000100376	ENST00000424557	protein_coding	PUTATIVE	None	1313	46	14	45714672	45718264	1	C22orf8	FLJ20635, bK268H5.C22.4
22	FAM118A	ENSG00000100376	ENST00000476478	processed_transcript	KNOWN	None	1313	None	None	45725029	45726600	1	C22orf8	FLJ20635, bK268H5.C22.4
22	FAM118A	ENSG00000100376	ENST00000459849	processed_transcript	KNOWN	None	1313	None	None	45725516	45728572	1	C22orf8	FLJ20635, bK268H5.C22.4
22	FAM118A	ENSG00000100376	ENST00000476754	processed_transcript	KNOWN	None	1313	None	None	45725525	45728536	1	C22orf8	FLJ20635, bK268H5.C22.4
22	FAM118A	ENSG00000100376	ENST00000487732	retained_intron	KNOWN	None	1313	None	None	45726338	45732291	1	C22orf8	FLJ20635, bK268H5.C22.4
22	FAM118A	ENSG00000100376	ENST00000483102	processed_transcript	KNOWN	None	1313	None	None	45730906	45736642	1	C22orf8	FLJ20635, bK268H5.C22.4
22	FAM118A	ENSG00000100376	ENST00000462361	retained_intron	KNOWN	None	1313	None	None	45731097	45736727	1	C22orf8	FLJ20635, bK268H5.C22.4
22	FAM118A	ENSG00000100376	ENST00000479180	processed_transcript	KNOWN	None	1313	None	None	45732276	45736763	1	C22orf8	FLJ20635, bK268H5.C22.4
22	FAM118A	ENSG00000100376	ENST00000405548	protein_coding	KNOWN	None	1313	528	175	45725525	45736374	1	C22orf8	FLJ20635, bK268H5.C22.4
16	C16orf62	ENSG00000103544	ENST00000544670	protein_coding	PUTATIVE	None	24641	286	94	19566562	19590451	1	None	MGC16824
16	C16orf62	ENSG00000103544	ENST00000539322	nonsense_mediated_decay	KNOWN	None	24641	822	273	19566737	19620344	1	None	MGC16824
16	C16orf62	ENSG00000103544	ENST00000438132	protein_coding	KNOWN	CCDS32397	24641	3159	1052	19566737	19712446	1	None	MGC16824
16	C16orf62	ENSG00000103544	ENST00000542263	protein_coding	NOVEL	None	24641	2880	959	19566738	19712009	1	None	MGC16824
16	C16orf62	ENSG00000103544	ENST00000537186	nonsense_mediated_decay	KNOWN	None	24641	133	43	19567042	19584485	1	None	MGC16824
16	C16orf62	ENSG00000103544	ENST00000543460	retained_intron	KNOWN	None	24641	None	None	19567042	19584702	1	None	MGC16824
16	C16orf62	ENSG00000103544	ENST00000567245	protein_coding	PUTATIVE	None	24641	511	169	19567048	19592930	1	None	MGC16824
16	C16orf62	ENSG00000103544	ENST00000513947	protein_coding	PUTATIVE	None	24641	1360	452	19567048	19629403	1	None	MGC16824
16	C16orf62	ENSG00000103544	ENST00000563649	protein_coding	PUTATIVE	None	24641	220	72	19586420	19593407	1	None	MGC16824
16	C16orf62	ENSG00000103544	ENST00000543152	protein_coding	PUTATIVE	None	24641	2139	712	19590046	19712448	1	None	MGC16824
16	C16orf62	ENSG00000103544	ENST00000562446	processed_transcript	PUTATIVE	None	24641	None	None	19590721	19592943	1	None	MGC16824
16	C16orf62	ENSG00000103544	ENST00000546175	retained_intron	KNOWN	None	24641	None	None	19603145	19621865	1	None	MGC16824
16	C16orf62	ENSG00000103544	ENST00000535164	retained_intron	KNOWN	None	24641	None	None	19612925	19628062	1	None	MGC16824
16	C16orf62	ENSG00000103544	ENST00000539705	retained_intron	KNOWN	None	24641	None	None	19612933	19639124	1	None	MGC16824
16	C16orf62	ENSG00000103544	ENST00000541153	retained_intron	KNOWN	None	24641	None	None	19612945	19628131	1	None	MGC16824
16	C16orf62	ENSG00000103544	ENST00000538552	protein_coding	PUTATIVE	None	24641	287	94	19619098	19637524	1	None	MGC16824
16	C16orf62	ENSG00000103544	ENST00000540240	retained_intron	KNOWN	None	24641	None	None	19619100	19620048	1	None	MGC16824
16	C16orf62	ENSG00000103544	ENST00000540101	processed_transcript	KNOWN	None	24641	None	None	19619111	19627513	1	None	MGC16824
16	C16orf62	ENSG00000103544	ENST00000544275	processed_transcript	KNOWN	None	24641	None	None	19659169	19664013	1	None	MGC16824
16	C16orf62	ENSG00000103544	ENST00000542027	protein_coding	PUTATIVE	None	24641	349	115	19702778	19718115	1	None	MGC16824
16	C16orf62	ENSG00000103544	ENST00000566850	retained_intron	KNOWN	None	24641	None	None	19710698	19712442	1	None	MGC16824
16	C16orf62	ENSG00000103544	ENST00000538853	protein_coding	KNOWN	None	24641	822	273	19566737	19621669	1	None	MGC16824
16	C16orf62	ENSG00000103544	ENST00000251143	protein_coding	KNOWN	None	24641	2892	963	19567040	19712442	1	None	MGC16824
16	C16orf62	ENSG00000103544	ENST00000417362	protein_coding	KNOWN	None	24641	2613	870	19567040	19712009	1	None	MGC16824
16	C16orf62	ENSG00000103544	ENST00000448695	protein_coding	KNOWN	None	24641	2442	813	19590307	19712006	1	None	MGC16824
16	ZFP1	ENSG00000184517	ENST00000570010	protein_coding	KNOWN	CCDS10914	23328	1224	407	75182390	75204270	1	None	FLJ34243, ZNF475
16	ZFP1	ENSG00000184517	ENST00000566105	processed_transcript	KNOWN	None	23328	None	None	75182392	75182910	1	None	FLJ34243, ZNF475
16	ZFP1	ENSG00000184517	ENST00000563356	processed_transcript	KNOWN	None	23328	None	None	75182392	75203300	1	None	FLJ34243, ZNF475
16	ZFP1	ENSG00000184517	ENST00000568079	protein_coding	NOVEL	None	23328	87	28	75182392	75204368	1	None	FLJ34243, ZNF475
16	ZFP1	ENSG00000184517	ENST00000564989	processed_transcript	KNOWN	None	23328	None	None	75182408	75182906	1	None	FLJ34243, ZNF475
16	ZFP1	ENSG00000184517	ENST00000464850	protein_coding	NOVEL	None	23328	231	76	75182425	75205898	1	None	FLJ34243, ZNF475
16	ZFP1	ENSG00000184517	ENST00000332307	protein_coding	PUTATIVE	None	23328	1125	374	75182432	75204415	1	None	FLJ34243, ZNF475
16	ZFP1	ENSG00000184517	ENST00000393430	protein_coding	KNOWN	CCDS10914	23328	1224	407	75182480	75206134	1	None	FLJ34243, ZNF475
16	ZFP1	ENSG00000184517	ENST00000567481	protein_coding	NOVEL	None	23328	231	76	75182949	75203224	1	None	FLJ34243, ZNF475
7	CCZ1	ENSG00000122674	ENST00000461592	retained_intron	KNOWN	None	21691	None	None	5938356	5940264	1	C7orf28A	CGI-43, CCZ1A
7	CCZ1	ENSG00000122674	ENST00000325974	protein_coding	KNOWN	CCDS34597	21691	1449	482	5938365	5965605	1	C7orf28A	CGI-43, CCZ1A
7	CCZ1	ENSG00000122674	ENST00000478672	retained_intron	KNOWN	None	21691	None	None	5938412	5941928	1	C7orf28A	CGI-43, CCZ1A
7	CCZ1	ENSG00000122674	ENST00000483394	retained_intron	KNOWN	None	21691	None	None	5942227	5949867	1	C7orf28A	CGI-43, CCZ1A
7	CCZ1	ENSG00000122674	ENST00000474507	retained_intron	KNOWN	None	21691	None	None	5957357	5965601	1	C7orf28A	CGI-43, CCZ1A
7	CCZ1	ENSG00000122674	ENST00000496860	processed_transcript	KNOWN	None	21691	None	None	5964372	5965571	1	C7orf28A	CGI-43, CCZ1A
7	CCZ1	ENSG00000122674	ENST00000537980	protein_coding	KNOWN	None	21691	1020	339	5938433	5965601	1	C7orf28A	CGI-43, CCZ1A
2	ACVR1	ENSG00000115170	ENST00000263640	protein_coding	KNOWN	CCDS2206	171	1530	509	158592958	158731623	-1	ACVRLK2	SKR1, ALK2, ACVR1A
2	ACVR1	ENSG00000115170	ENST00000409283	protein_coding	KNOWN	CCDS2206	171	1530	509	158592961	158663508	-1	ACVRLK2	SKR1, ALK2, ACVR1A
2	ACVR1	ENSG00000115170	ENST00000410057	protein_coding	KNOWN	CCDS2206	171	1530	509	158593828	158694790	-1	ACVRLK2	SKR1, ALK2, ACVR1A
2	ACVR1	ENSG00000115170	ENST00000487456	processed_transcript	KNOWN	None	171	None	None	158634662	158646749	-1	ACVRLK2	SKR1, ALK2, ACVR1A
2	ACVR1	ENSG00000115170	ENST00000412025	protein_coding	KNOWN	None	171	262	86	158636918	158694839	-1	ACVRLK2	SKR1, ALK2, ACVR1A
2	ACVR1	ENSG00000115170	ENST00000440523	protein_coding	KNOWN	None	171	260	85	158636920	158732138	-1	ACVRLK2	SKR1, ALK2, ACVR1A
2	ACVR1	ENSG00000115170	ENST00000539637	protein_coding	KNOWN	None	171	218	71	158636962	158732352	-1	ACVRLK2	SKR1, ALK2, ACVR1A
2	ACVR1	ENSG00000115170	ENST00000424669	protein_coding	KNOWN	None	171	214	70	158636966	158732374	-1	ACVRLK2	SKR1, ALK2, ACVR1A
2	ACVR1	ENSG00000115170	ENST00000413751	protein_coding	KNOWN	None	171	65	20	158655941	158732352	-1	ACVRLK2	SKR1, ALK2, ACVR1A
2	ACVR1	ENSG00000115170	ENST00000434821	protein_coding	KNOWN	CCDS2206	171	1530	509	158592961	158732374	-1	ACVRLK2	SKR1, ALK2, ACVR1A
11	GSTP1	ENSG00000084207	ENST00000398606	protein_coding	KNOWN	CCDS41679	4638	633	210	67351066	67354131	1	FAEES3, GST3	GSTP
11	GSTP1	ENSG00000084207	ENST00000398603	protein_coding	PUTATIVE	None	4638	525	174	67351213	67354121	1	FAEES3, GST3	GSTP
11	GSTP1	ENSG00000084207	ENST00000494593	retained_intron	KNOWN	None	4638	None	None	67351293	67354124	1	FAEES3, GST3	GSTP
11	GSTP1	ENSG00000084207	ENST00000464930	processed_transcript	KNOWN	None	4638	None	None	67351595	67354125	1	FAEES3, GST3	GSTP
11	GSTP1	ENSG00000084207	ENST00000476137	processed_transcript	KNOWN	None	4638	None	None	67351596	67354120	1	FAEES3, GST3	GSTP
11	GSTP1	ENSG00000084207	ENST00000489040	retained_intron	KNOWN	None	4638	None	None	67351605	67352535	1	FAEES3, GST3	GSTP
11	GSTP1	ENSG00000084207	ENST00000498765	processed_transcript	KNOWN	None	4638	None	None	67351926	67354075	1	FAEES3, GST3	GSTP
11	GSTP1	ENSG00000084207	ENST00000467591	retained_intron	KNOWN	None	4638	None	None	67352266	67354040	1	FAEES3, GST3	GSTP
11	GSTP1	ENSG00000084207	ENST00000495996	processed_transcript	PUTATIVE	None	4638	None	None	67353575	67353910	1	FAEES3, GST3	GSTP
12	CLEC12A	ENSG00000172322	ENST00000355690	protein_coding	KNOWN	CCDS55803	31713	828	275	10103915	10138194	1	None	CLL-1, MICL
12	CLEC12A	ENSG00000172322	ENST00000396507	protein_coding	KNOWN	None	31713	495	164	10124014	10133296	1	None	CLL-1, MICL
12	CLEC12A	ENSG00000172322	ENST00000304361	protein_coding	KNOWN	CCDS8608	31713	798	265	10124014	10138194	1	None	CLL-1, MICL
12	CLEC12A	ENSG00000172322	ENST00000434319	protein_coding	KNOWN	None	31713	642	213	10124034	10136840	1	None	CLL-1, MICL
12	CLEC12A	ENSG00000172322	ENST00000449959	retained_intron	KNOWN	None	31713	None	None	10124104	10148293	1	None	CLL-1, MICL
12	CLEC12A	ENSG00000172322	ENST00000350667	protein_coding	KNOWN	CCDS8609	31713	699	232	10124196	10137625	1	None	CLL-1, MICL
12	CLEC12A	ENSG00000172322	ENST00000543839	retained_intron	KNOWN	None	31713	None	None	10124196	10137625	1	None	CLL-1, MICL
12	None	ENSG00000267873	ENST00000594763	protein_coding	NOVEL	None	None	75	24	52709128	52709790	1	None	None
18	C18orf21	ENSG00000141428	ENST00000592875	protein_coding	KNOWN	CCDS11916	28802	663	220	33552046	33559241	1	None	PNAS-131, PNAS-124, HsT3108
18	C18orf21	ENSG00000141428	ENST00000269194	protein_coding	NOVEL	None	28802	332	109	33552597	33558902	1	None	PNAS-131, PNAS-124, HsT3108
18	C18orf21	ENSG00000141428	ENST00000587719	retained_intron	KNOWN	None	28802	None	None	33552644	33553303	1	None	PNAS-131, PNAS-124, HsT3108
18	C18orf21	ENSG00000141428	ENST00000587873	protein_coding	NOVEL	None	28802	266	87	33552645	33558836	1	None	PNAS-131, PNAS-124, HsT3108
18	C18orf21	ENSG00000141428	ENST00000593210	processed_transcript	KNOWN	None	28802	None	None	33552676	33553611	1	None	PNAS-131, PNAS-124, HsT3108
18	C18orf21	ENSG00000141428	ENST00000333234	protein_coding	NOVEL	CCDS56064	28802	399	132	33552748	33559241	1	None	PNAS-131, PNAS-124, HsT3108
HSCHR6_MHC_COX	COL11A2	ENSG00000227801	ENST00000383087	protein_coding	KNOWN	None	2187	4953	1650	33052091	33081908	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_COX	COL11A2	ENSG00000227801	ENST00000443125	protein_coding	KNOWN	None	2187	1001	332	33052105	33067302	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_COX	COL11A2	ENSG00000227801	ENST00000451040	protein_coding	KNOWN	None	2187	1872	623	33067541	33081876	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_COX	COL11A2	ENSG00000227801	ENST00000439039	protein_coding	KNOWN	None	2187	873	290	33075854	33081863	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_COX	COL11A2	ENSG00000227801	ENST00000549811	protein_coding	KNOWN	None	2187	5211	1736	33052102	33081877	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_COX	COL11A2	ENSG00000227801	ENST00000547999	protein_coding	KNOWN	None	2187	5148	1715	33052102	33081877	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_COX	COL11A2	ENSG00000227801	ENST00000550561	protein_coding	KNOWN	None	2187	5133	1710	33052102	33081877	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_COX	COL11A2	ENSG00000227801	ENST00000549381	protein_coding	KNOWN	None	2187	5070	1689	33052102	33081877	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_COX	COL11A2	ENSG00000227801	ENST00000549289	protein_coding	KNOWN	None	2187	5031	1676	33052102	33081877	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_COX	COL11A2	ENSG00000227801	ENST00000547261	protein_coding	KNOWN	None	2187	4968	1655	33052102	33081877	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_COX	COL11A2	ENSG00000227801	ENST00000551542	protein_coding	KNOWN	None	2187	4890	1629	33052102	33081877	-1	DFNA13, DFNB53	HKE5
HSCHR6_MHC_COX	COL11A2	ENSG00000227801	ENST00000551559	protein_coding	KNOWN	None	2187	921	306	33052102	33067222	-1	DFNA13, DFNB53	HKE5
11	ACER3	ENSG00000078124	ENST00000534206	protein_coding	PUTATIVE	None	16066	615	204	76571911	76730811	1	PHCA	FLJ11238, APHC
11	ACER3	ENSG00000078124	ENST00000532485	protein_coding	KNOWN	CCDS8247	16066	804	267	76571917	76737841	1	PHCA	FLJ11238, APHC
11	ACER3	ENSG00000078124	ENST00000530182	processed_transcript	KNOWN	None	16066	None	None	76571965	76705256	1	PHCA	FLJ11238, APHC
11	ACER3	ENSG00000078124	ENST00000525194	nonsense_mediated_decay	KNOWN	None	16066	156	51	76571968	76727733	1	PHCA	FLJ11238, APHC
11	ACER3	ENSG00000078124	ENST00000525861	nonsense_mediated_decay	KNOWN	None	16066	243	80	76571979	76732390	1	PHCA	FLJ11238, APHC
11	ACER3	ENSG00000078124	ENST00000531461	nonsense_mediated_decay	KNOWN	None	16066	225	74	76571980	76731871	1	PHCA	FLJ11238, APHC
11	ACER3	ENSG00000078124	ENST00000530334	nonsense_mediated_decay	KNOWN	None	16066	216	71	76571981	76726305	1	PHCA	FLJ11238, APHC
11	ACER3	ENSG00000078124	ENST00000526597	protein_coding	PUTATIVE	None	16066	519	172	76571983	76731744	1	PHCA	FLJ11238, APHC
11	ACER3	ENSG00000078124	ENST00000533873	protein_coding	NOVEL	None	16066	693	230	76571986	76731572	1	PHCA	FLJ11238, APHC
11	ACER3	ENSG00000078124	ENST00000531352	nonsense_mediated_decay	KNOWN	None	16066	156	51	76571987	76732589	1	PHCA	FLJ11238, APHC
11	ACER3	ENSG00000078124	ENST00000278544	nonsense_mediated_decay	KNOWN	None	16066	231	76	76571994	76733969	1	PHCA	FLJ11238, APHC
11	ACER3	ENSG00000078124	ENST00000527508	processed_transcript	KNOWN	None	16066	None	None	76637601	76726150	1	PHCA	FLJ11238, APHC
11	ACER3	ENSG00000078124	ENST00000525325	retained_intron	KNOWN	None	16066	None	None	76709598	76731356	1	PHCA	FLJ11238, APHC
11	ACER3	ENSG00000078124	ENST00000530921	retained_intron	KNOWN	None	16066	None	None	76730581	76731644	1	PHCA	FLJ11238, APHC
11	ACER3	ENSG00000078124	ENST00000538157	protein_coding	KNOWN	None	16066	678	225	76571987	76731842	1	PHCA	FLJ11238, APHC
11	ACER3	ENSG00000078124	ENST00000544113	protein_coding	KNOWN	None	16066	405	134	76705232	76733944	1	PHCA	FLJ11238, APHC
12	KRT85	ENSG00000135443	ENST00000257901	protein_coding	KNOWN	CCDS8824	6462	1524	507	52753790	52761265	-1	KRTHB5	Hb-5
12	KRT85	ENSG00000135443	ENST00000544265	protein_coding	KNOWN	None	6462	888	295	52754340	52758406	-1	KRTHB5	Hb-5
12	KRT85	ENSG00000135443	ENST00000552537	retained_intron	KNOWN	None	6462	None	None	52756635	52758413	-1	KRTHB5	Hb-5
X	SLITRK4	ENSG00000179542	ENST00000338017	protein_coding	KNOWN	CCDS14679	23502	2514	837	142715944	142723019	-1	None	DKFZp547M2010
X	SLITRK4	ENSG00000179542	ENST00000356928	protein_coding	KNOWN	CCDS14679	23502	2514	837	142715944	142723596	-1	None	DKFZp547M2010
X	SLITRK4	ENSG00000179542	ENST00000381779	protein_coding	KNOWN	CCDS14679	23502	2514	837	142710596	142722319	-1	None	DKFZp547M2010
HSCHR6_MHC_COX	TRIM15	ENSG00000227147	ENST00000421984	protein_coding	KNOWN	None	16284	1398	465	30120916	30130396	1	ZNF178	ZNFB7, RNF93
HSCHR6_MHC_COX	TRIM15	ENSG00000227147	ENST00000423220	protein_coding	KNOWN	None	16284	491	162	30126013	30129655	1	ZNF178	ZNFB7, RNF93
HSCHR6_MHC_COX	TRIM15	ENSG00000227147	ENST00000476225	processed_transcript	KNOWN	None	16284	None	None	30126057	30130396	1	ZNF178	ZNFB7, RNF93
HSCHR6_MHC_COX	TRIM15	ENSG00000227147	ENST00000478964	retained_intron	KNOWN	None	16284	None	None	30128013	30128797	1	ZNF178	ZNFB7, RNF93
HSCHR6_MHC_COX	TRIM15	ENSG00000227147	ENST00000548642	protein_coding	KNOWN	None	16284	348	115	30121385	30130307	1	ZNF178	ZNFB7, RNF93
HSCHR6_MHC_COX	TRIM15	ENSG00000227147	ENST00000548732	protein_coding	KNOWN	None	16284	1191	396	30120906	30130389	1	ZNF178	ZNFB7, RNF93
21	SAMSN1-AS1	ENSG00000223662	ENST00000449214	antisense	KNOWN	None	39599	None	None	15954523	15970624	1	None	None
13	FAM194B	ENSG00000165837	ENST00000504261	processed_transcript	KNOWN	None	26523	None	None	46108657	46124403	-1	None	FLJ32682
13	FAM194B	ENSG00000165837	ENST00000298738	protein_coding	KNOWN	CCDS45045	26523	2091	696	46115432	46189874	-1	None	FLJ32682
13	FAM194B	ENSG00000165837	ENST00000482992	processed_transcript	KNOWN	None	26523	None	None	46118895	46129602	-1	None	FLJ32682
13	FAM194B	ENSG00000165837	ENST00000378977	retained_intron	KNOWN	None	26523	None	None	46137798	46189859	-1	None	FLJ32682
7	DPP6	ENSG00000130226	ENST00000404039	protein_coding	PUTATIVE	None	3010	2406	801	153584182	154685995	1	None	DPPX
7	DPP6	ENSG00000130226	ENST00000406326	protein_coding	PUTATIVE	None	3010	1062	353	153749503	154380341	1	None	DPPX
7	DPP6	ENSG00000130226	ENST00000377770	protein_coding	KNOWN	None	3010	2598	865	153749765	154685161	1	None	DPPX
7	DPP6	ENSG00000130226	ENST00000462622	retained_intron	KNOWN	None	3010	None	None	154002195	154172998	1	None	DPPX
7	DPP6	ENSG00000130226	ENST00000332007	protein_coding	KNOWN	None	3010	2412	803	154002195	154685161	1	None	DPPX
7	DPP6	ENSG00000130226	ENST00000496611	processed_transcript	KNOWN	None	3010	None	None	154002297	154379111	1	None	DPPX
7	DPP6	ENSG00000130226	ENST00000427557	protein_coding	NOVEL	None	3010	2277	758	154002527	154684248	1	None	DPPX
7	DPP6	ENSG00000130226	ENST00000471100	processed_transcript	KNOWN	None	3010	None	None	154585304	154593153	1	None	DPPX
7	DPP6	ENSG00000130226	ENST00000481593	retained_intron	KNOWN	None	3010	None	None	154585431	154587946	1	None	DPPX
7	DPP6	ENSG00000130226	ENST00000478614	retained_intron	KNOWN	None	3010	None	None	154585435	154587628	1	None	DPPX
7	DPP6	ENSG00000130226	ENST00000493268	processed_transcript	KNOWN	None	3010	None	None	154595602	154650212	1	None	DPPX
7	DPP6	ENSG00000130226	ENST00000484789	retained_intron	KNOWN	None	3010	None	None	154659705	154672794	1	None	DPPX
7	DPP6	ENSG00000130226	ENST00000488512	retained_intron	KNOWN	None	3010	None	None	154659766	154668096	1	None	DPPX
7	DPP6	ENSG00000130226	ENST00000479637	processed_transcript	PUTATIVE	None	3010	None	None	154664334	154668853	1	None	DPPX
7	DPP6	ENSG00000130226	ENST00000480367	retained_intron	KNOWN	None	3010	None	None	154675278	154682940	1	None	DPPX
21	None	ENSG00000232884	ENST00000455253	lincRNA	KNOWN	None	None	None	None	16120066	16126186	-1	None	None
21	None	ENSG00000232884	ENST00000454128	lincRNA	KNOWN	None	None	None	None	16120067	16125783	-1	None	None
8	CA8	ENSG00000178538	ENST00000317995	protein_coding	KNOWN	CCDS6174	1382	873	290	61099906	61193971	-1	CALS	CARP
8	CA8	ENSG00000178538	ENST00000524872	retained_intron	KNOWN	None	1382	None	None	61120630	61193944	-1	CALS	CARP
8	CA8	ENSG00000178538	ENST00000528666	processed_transcript	KNOWN	None	1382	None	None	61135208	61145232	-1	CALS	CARP
8	CA8	ENSG00000178538	ENST00000529918	retained_intron	KNOWN	None	1382	None	None	61177381	61193883	-1	CALS	CARP
HSCHR6_MHC_MCF	BAG6	ENSG00000234651	ENST00000481045	processed_transcript	PUTATIVE	None	13919	None	None	31683095	31683855	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MCF	BAG6	ENSG00000234651	ENST00000460367	processed_transcript	PUTATIVE	None	13919	None	None	31683095	31684606	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MCF	BAG6	ENSG00000234651	ENST00000443312	protein_coding	KNOWN	None	13919	410	135	31683095	31685004	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MCF	BAG6	ENSG00000234651	ENST00000457868	protein_coding	KNOWN	None	13919	680	225	31683095	31685295	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MCF	BAG6	ENSG00000234651	ENST00000413922	protein_coding	KNOWN	None	13919	3381	1126	31683095	31696438	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MCF	BAG6	ENSG00000234651	ENST00000454478	protein_coding	KNOWN	None	13919	3399	1132	31683095	31696695	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MCF	BAG6	ENSG00000234651	ENST00000412012	protein_coding	KNOWN	None	13919	3381	1126	31683095	31696765	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MCF	BAG6	ENSG00000234651	ENST00000483397	retained_intron	KNOWN	None	13919	None	None	31684892	31686212	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MCF	BAG6	ENSG00000234651	ENST00000460147	processed_transcript	PUTATIVE	None	13919	None	None	31685915	31688369	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MCF	BAG6	ENSG00000234651	ENST00000438641	protein_coding	KNOWN	None	13919	2228	741	31686286	31696738	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MCF	BAG6	ENSG00000234651	ENST00000497114	processed_transcript	PUTATIVE	None	13919	None	None	31686747	31688253	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MCF	BAG6	ENSG00000234651	ENST00000413373	protein_coding	KNOWN	None	13919	714	237	31686895	31689122	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MCF	BAG6	ENSG00000234651	ENST00000445869	protein_coding	KNOWN	None	13919	736	244	31686933	31689543	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MCF	BAG6	ENSG00000234651	ENST00000476526	processed_transcript	KNOWN	None	13919	None	None	31687022	31689614	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MCF	BAG6	ENSG00000234651	ENST00000439917	protein_coding	KNOWN	None	13919	554	183	31687176	31689556	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MCF	BAG6	ENSG00000234651	ENST00000442870	protein_coding	KNOWN	None	13919	1545	514	31688370	31696418	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MCF	BAG6	ENSG00000234651	ENST00000484443	processed_transcript	KNOWN	None	13919	None	None	31688547	31689238	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MCF	BAG6	ENSG00000234651	ENST00000416852	protein_coding	KNOWN	None	13919	734	243	31691645	31695974	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MCF	BAG6	ENSG00000234651	ENST00000453036	protein_coding	KNOWN	None	13919	788	261	31691645	31696212	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MCF	BAG6	ENSG00000234651	ENST00000453772	protein_coding	KNOWN	None	13919	734	243	31691645	31696412	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MCF	BAG6	ENSG00000234651	ENST00000438546	protein_coding	KNOWN	None	13919	786	261	31691647	31696207	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MCF	BAG6	ENSG00000234651	ENST00000438842	protein_coding	KNOWN	None	13919	731	242	31691648	31696708	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MCF	BAG6	ENSG00000234651	ENST00000453928	protein_coding	KNOWN	None	13919	779	258	31691654	31696029	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MCF	BAG6	ENSG00000234651	ENST00000420942	protein_coding	KNOWN	None	13919	775	257	31691658	31696727	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MCF	BAG6	ENSG00000234651	ENST00000456067	protein_coding	KNOWN	None	13919	645	214	31691734	31696377	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MCF	BAG6	ENSG00000234651	ENST00000448278	protein_coding	KNOWN	None	13919	698	231	31691753	31696705	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MCF	BAG6	ENSG00000234651	ENST00000430999	protein_coding	KNOWN	None	13919	619	205	31691760	31696505	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MCF	BAG6	ENSG00000234651	ENST00000435066	protein_coding	KNOWN	None	13919	591	196	31691842	31696033	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MCF	BAG6	ENSG00000234651	ENST00000480345	processed_transcript	PUTATIVE	None	13919	None	None	31692782	31696376	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MCF	BAG6	ENSG00000234651	ENST00000433146	protein_coding	KNOWN	None	13919	476	157	31692966	31696169	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MCF	BAG6	ENSG00000234651	ENST00000497009	processed_transcript	PUTATIVE	None	13919	None	None	31693284	31696698	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MCF	BAG6	ENSG00000234651	ENST00000546462	protein_coding	KNOWN	None	13919	3489	1162	31683096	31696760	-1	BAT3	G3, D6S52E
6	KCNK17	ENSG00000124780	ENST00000373231	protein_coding	KNOWN	CCDS4842	14465	999	332	39266777	39282329	-1	None	K2p17.1, TALK-2, TALK2, TASK4, TASK-4
6	KCNK17	ENSG00000124780	ENST00000453413	protein_coding	KNOWN	CCDS47419	14465	816	271	39266788	39282237	-1	None	K2p17.1, TALK-2, TALK2, TASK4, TASK-4
6	KCNK17	ENSG00000124780	ENST00000503878	retained_intron	KNOWN	None	14465	None	None	39271755	39282201	-1	None	K2p17.1, TALK-2, TALK2, TASK4, TASK-4
1	RBBP4	ENSG00000162521	ENST00000414241	protein_coding	KNOWN	CCDS44105	9887	1275	424	33116743	33145654	1	None	RbAp48, NURF55
1	RBBP4	ENSG00000162521	ENST00000373493	protein_coding	KNOWN	CCDS366	9887	1278	425	33116749	33151812	1	None	RbAp48, NURF55
1	RBBP4	ENSG00000162521	ENST00000527118	nonsense_mediated_decay	KNOWN	None	9887	189	62	33116779	33134689	1	None	RbAp48, NURF55
1	RBBP4	ENSG00000162521	ENST00000401893	retained_intron	KNOWN	None	9887	None	None	33116811	33134180	1	None	RbAp48, NURF55
1	RBBP4	ENSG00000162521	ENST00000524393	processed_transcript	KNOWN	None	9887	None	None	33116815	33134703	1	None	RbAp48, NURF55
1	RBBP4	ENSG00000162521	ENST00000526193	nonsense_mediated_decay	KNOWN	None	9887	264	87	33116818	33134868	1	None	RbAp48, NURF55
1	RBBP4	ENSG00000162521	ENST00000492348	nonsense_mediated_decay	KNOWN	None	9887	264	87	33116818	33145805	1	None	RbAp48, NURF55
1	RBBP4	ENSG00000162521	ENST00000525506	retained_intron	KNOWN	None	9887	None	None	33116819	33123275	1	None	RbAp48, NURF55
1	RBBP4	ENSG00000162521	ENST00000465780	retained_intron	KNOWN	None	9887	None	None	33116827	33118107	1	None	RbAp48, NURF55
1	RBBP4	ENSG00000162521	ENST00000373485	protein_coding	PUTATIVE	None	9887	1233	410	33116835	33146258	1	None	RbAp48, NURF55
1	RBBP4	ENSG00000162521	ENST00000477563	nonsense_mediated_decay	KNOWN	None	9887	315	104	33116879	33133938	1	None	RbAp48, NURF55
1	RBBP4	ENSG00000162521	ENST00000458695	protein_coding	KNOWN	CCDS44106	9887	1173	390	33116957	33145641	1	None	RbAp48, NURF55
1	RBBP4	ENSG00000162521	ENST00000490500	protein_coding	KNOWN	None	9887	205	67	33117086	33123173	1	None	RbAp48, NURF55
1	RBBP4	ENSG00000162521	ENST00000445722	protein_coding	KNOWN	None	9887	262	86	33117088	33133882	1	None	RbAp48, NURF55
1	RBBP4	ENSG00000162521	ENST00000475321	protein_coding	NOVEL	None	9887	619	205	33133920	33138502	1	None	RbAp48, NURF55
1	RBBP4	ENSG00000162521	ENST00000531983	retained_intron	KNOWN	None	9887	None	None	33134170	33134857	1	None	RbAp48, NURF55
1	RBBP4	ENSG00000162521	ENST00000463378	protein_coding	PUTATIVE	None	9887	788	261	33134694	33145509	1	None	RbAp48, NURF55
1	RBBP4	ENSG00000162521	ENST00000460669	nonsense_mediated_decay	KNOWN	None	9887	543	180	33134708	33146254	1	None	RbAp48, NURF55
1	RBBP4	ENSG00000162521	ENST00000482190	protein_coding	PUTATIVE	None	9887	504	167	33134857	33146252	1	None	RbAp48, NURF55
1	RBBP4	ENSG00000162521	ENST00000544435	protein_coding	KNOWN	None	9887	522	173	33116818	33145805	1	None	RbAp48, NURF55
3	LSAMP	ENSG00000185565	ENST00000333617	protein_coding	NOVEL	None	6705	1038	345	115528641	116163830	-1	None	LAMP, IGLON3
3	LSAMP	ENSG00000185565	ENST00000490035	protein_coding	KNOWN	CCDS2982	6705	1017	338	115528941	116164378	-1	None	LAMP, IGLON3
3	LSAMP	ENSG00000185565	ENST00000475403	processed_transcript	KNOWN	None	6705	None	None	115529123	115561344	-1	None	LAMP, IGLON3
3	LSAMP	ENSG00000185565	ENST00000473171	retained_intron	KNOWN	None	6705	None	None	115560418	115571425	-1	None	LAMP, IGLON3
3	LSAMP	ENSG00000185565	ENST00000498645	processed_transcript	KNOWN	None	6705	None	None	115560734	115770099	-1	None	LAMP, IGLON3
3	LSAMP	ENSG00000185565	ENST00000474851	protein_coding	PUTATIVE	None	6705	616	204	115738362	116858236	-1	None	LAMP, IGLON3
3	LSAMP	ENSG00000185565	ENST00000539563	protein_coding	KNOWN	None	6705	1077	358	115529164	117716095	-1	None	LAMP, IGLON3
4	DCUN1D4	ENSG00000109184	ENST00000509376	nonsense_mediated_decay	KNOWN	None	28998	141	46	52709166	52780460	1	None	KIAA0276
4	DCUN1D4	ENSG00000109184	ENST00000511675	retained_intron	KNOWN	None	28998	None	None	52709227	52744138	1	None	KIAA0276
4	DCUN1D4	ENSG00000109184	ENST00000334635	protein_coding	KNOWN	CCDS33982	28998	879	292	52709229	52783003	1	None	KIAA0276
4	DCUN1D4	ENSG00000109184	ENST00000381441	protein_coding	KNOWN	CCDS3487	28998	774	257	52709229	52783003	1	None	KIAA0276
4	DCUN1D4	ENSG00000109184	ENST00000506673	nonsense_mediated_decay	KNOWN	None	28998	192	63	52709269	52743964	1	None	KIAA0276
4	DCUN1D4	ENSG00000109184	ENST00000504113	processed_transcript	KNOWN	None	28998	None	None	52709297	52753356	1	None	KIAA0276
4	DCUN1D4	ENSG00000109184	ENST00000502930	nonsense_mediated_decay	KNOWN	None	28998	141	46	52709299	52757989	1	None	KIAA0276
4	DCUN1D4	ENSG00000109184	ENST00000513800	processed_transcript	KNOWN	None	28998	None	None	52709319	52741494	1	None	KIAA0276
4	DCUN1D4	ENSG00000109184	ENST00000507741	nonsense_mediated_decay	KNOWN	None	28998	75	24	52709319	52780202	1	None	KIAA0276
4	DCUN1D4	ENSG00000109184	ENST00000477560	nonsense_mediated_decay	KNOWN	None	28998	432	143	52709363	52783003	1	None	KIAA0276
4	DCUN1D4	ENSG00000109184	ENST00000509068	nonsense_mediated_decay	KNOWN	None	28998	624	207	52709707	52758017	1	None	KIAA0276
4	DCUN1D4	ENSG00000109184	ENST00000505403	protein_coding	PUTATIVE	None	28998	638	211	52709745	52758017	1	None	KIAA0276
4	DCUN1D4	ENSG00000109184	ENST00000504661	processed_transcript	KNOWN	None	28998	None	None	52711050	52740533	1	None	KIAA0276
4	DCUN1D4	ENSG00000109184	ENST00000504923	retained_intron	KNOWN	None	28998	None	None	52743622	52758017	1	None	KIAA0276
4	DCUN1D4	ENSG00000109184	ENST00000510587	processed_transcript	KNOWN	None	28998	None	None	52750492	52777280	1	None	KIAA0276
4	DCUN1D4	ENSG00000109184	ENST00000507659	processed_transcript	KNOWN	None	28998	None	None	52751077	52779808	1	None	KIAA0276
4	DCUN1D4	ENSG00000109184	ENST00000505634	nonsense_mediated_decay	KNOWN	None	28998	350	115	52752734	52780001	1	None	KIAA0276
4	DCUN1D4	ENSG00000109184	ENST00000510808	protein_coding	NOVEL	None	28998	309	102	52757973	52780001	1	None	KIAA0276
4	DCUN1D4	ENSG00000109184	ENST00000512199	nonsense_mediated_decay	KNOWN	None	28998	66	21	52765503	52779889	1	None	KIAA0276
4	DCUN1D4	ENSG00000109184	ENST00000508257	processed_transcript	KNOWN	None	28998	None	None	52775566	52780268	1	None	KIAA0276
4	DCUN1D4	ENSG00000109184	ENST00000510518	retained_intron	KNOWN	None	28998	None	None	52776919	52779558	1	None	KIAA0276
4	DCUN1D4	ENSG00000109184	ENST00000451288	protein_coding	KNOWN	None	28998	1011	336	52709745	52779784	1	None	KIAA0276
4	DCUN1D4	ENSG00000109184	ENST00000381437	protein_coding	KNOWN	None	28998	699	232	52709319	52780202	1	None	KIAA0276
22	SMC1B	ENSG00000077935	ENST00000357450	protein_coding	KNOWN	CCDS43027	11112	3708	1235	45739944	45809448	-1	SMC1L2	bK268H5
22	SMC1B	ENSG00000077935	ENST00000404354	protein_coding	KNOWN	None	11112	3486	1161	45740339	45809500	-1	SMC1L2	bK268H5
2	UPP2	ENSG00000007001	ENST00000605860	protein_coding	KNOWN	CCDS46435	23061	1125	374	158733214	158992666	1	None	UPASE2, UP2, UDRPASE2
2	UPP2	ENSG00000007001	ENST00000460456	processed_transcript	KNOWN	None	23061	None	None	158958380	158991739	1	None	UPASE2, UP2, UDRPASE2
2	UPP2	ENSG00000007001	ENST00000005756	protein_coding	KNOWN	CCDS2207	23061	954	317	158958382	158992478	1	None	UPASE2, UP2, UDRPASE2
2	UPP2	ENSG00000007001	ENST00000489438	processed_transcript	KNOWN	None	23061	None	None	158982938	158991810	1	None	UPASE2, UP2, UDRPASE2
2	UPP2	ENSG00000007001	ENST00000409859	protein_coding	KNOWN	CCDS46435	23061	1125	374	158851711	158992666	1	None	UPASE2, UP2, UDRPASE2
1	CFH	ENSG00000000971	ENST00000367429	protein_coding	KNOWN	CCDS1385	4883	3696	1231	196621008	196716634	1	HF, HF1, HF2	HUS, FHL1, ARMS1, ARMD4
1	CFH	ENSG00000000971	ENST00000496761	processed_transcript	KNOWN	None	4883	None	None	196621186	196642537	1	HF, HF1, HF2	HUS, FHL1, ARMS1, ARMD4
1	CFH	ENSG00000000971	ENST00000359637	protein_coding	PUTATIVE	None	4883	1158	385	196621186	196670695	1	HF, HF1, HF2	HUS, FHL1, ARMS1, ARMD4
1	CFH	ENSG00000000971	ENST00000466229	retained_intron	KNOWN	None	4883	None	None	196646118	196716634	1	HF, HF1, HF2	HUS, FHL1, ARMS1, ARMD4
1	CFH	ENSG00000000971	ENST00000470918	retained_intron	KNOWN	None	4883	None	None	196706038	196710216	1	HF, HF1, HF2	HUS, FHL1, ARMS1, ARMD4
1	CFH	ENSG00000000971	ENST00000439155	protein_coding	KNOWN	CCDS53452	4883	1350	449	196621008	196670693	1	HF, HF1, HF2	HUS, FHL1, ARMS1, ARMD4
17	TMEM220	ENSG00000187824	ENST00000580787	protein_coding	PUTATIVE	None	33757	144	47	10602332	10628451	-1	None	None
17	TMEM220	ENSG00000187824	ENST00000341871	protein_coding	KNOWN	CCDS32567	33757	483	160	10616612	10633633	-1	None	None
17	TMEM220	ENSG00000187824	ENST00000455996	protein_coding	KNOWN	None	33757	453	150	10617993	10633340	-1	None	None
17	TMEM220	ENSG00000187824	ENST00000578345	protein_coding	NOVEL	None	33757	393	130	10618739	10633303	-1	None	None
17	TMEM220	ENSG00000187824	ENST00000580186	processed_transcript	KNOWN	None	33757	None	None	10618743	10629682	-1	None	None
17	TMEM220	ENSG00000187824	ENST00000581949	protein_coding	PUTATIVE	None	33757	353	116	10618747	10628436	-1	None	None
13	SPERT	ENSG00000174015	ENST00000310521	protein_coding	KNOWN	CCDS9399	30720	1347	448	46276446	46288693	1	None	NURIT, CBY2
13	SPERT	ENSG00000174015	ENST00000533564	protein_coding	NOVEL	None	30720	480	159	46276455	46287721	1	None	NURIT, CBY2
13	SPERT	ENSG00000174015	ENST00000378966	protein_coding	PUTATIVE	None	30720	1239	412	46277263	46288694	1	None	NURIT, CBY2
5	LEAP2	ENSG00000164406	ENST00000296877	protein_coding	KNOWN	CCDS4163	29571	234	77	132208014	132210738	1	None	LEAP-2
5	LEAP2	ENSG00000164406	ENST00000483190	retained_intron	KNOWN	None	29571	None	None	132209136	132210390	1	None	LEAP-2
5	LEAP2	ENSG00000164406	ENST00000485457	processed_transcript	KNOWN	None	29571	None	None	132209358	132210387	1	None	LEAP-2
5	G3BP1	ENSG00000145907	ENST00000523519	protein_coding	KNOWN	None	30292	318	105	151150606	151170590	1	None	HDH-VIII, G3BP
5	G3BP1	ENSG00000145907	ENST00000520578	protein_coding	KNOWN	None	30292	352	116	151150645	151170624	1	None	HDH-VIII, G3BP
5	G3BP1	ENSG00000145907	ENST00000394123	protein_coding	KNOWN	CCDS4319	30292	1401	466	151151471	151192346	1	None	HDH-VIII, G3BP
5	G3BP1	ENSG00000145907	ENST00000522761	nonsense_mediated_decay	KNOWN	None	30292	462	153	151151485	151183786	1	None	HDH-VIII, G3BP
5	G3BP1	ENSG00000145907	ENST00000356245	protein_coding	KNOWN	CCDS4319	30292	1401	466	151151504	151184911	1	None	HDH-VIII, G3BP
5	G3BP1	ENSG00000145907	ENST00000518726	retained_intron	KNOWN	None	30292	None	None	151151513	151166947	1	None	HDH-VIII, G3BP
5	G3BP1	ENSG00000145907	ENST00000519832	retained_intron	KNOWN	None	30292	None	None	151151513	151171311	1	None	HDH-VIII, G3BP
5	G3BP1	ENSG00000145907	ENST00000507878	protein_coding	NOVEL	None	30292	445	147	151151515	151173783	1	None	HDH-VIII, G3BP
5	G3BP1	ENSG00000145907	ENST00000517947	nonsense_mediated_decay	KNOWN	None	30292	114	37	151151515	151175136	1	None	HDH-VIII, G3BP
5	G3BP1	ENSG00000145907	ENST00000522367	nonsense_mediated_decay	KNOWN	None	30292	369	122	151151515	151175136	1	None	HDH-VIII, G3BP
5	G3BP1	ENSG00000145907	ENST00000520177	nonsense_mediated_decay	KNOWN	None	30292	369	122	151151515	151184910	1	None	HDH-VIII, G3BP
5	G3BP1	ENSG00000145907	ENST00000520006	protein_coding	KNOWN	None	30292	315	104	151151840	151170587	1	None	HDH-VIII, G3BP
5	G3BP1	ENSG00000145907	ENST00000522666	nonsense_mediated_decay	KNOWN	None	30292	114	37	151152065	151176930	1	None	HDH-VIII, G3BP
5	G3BP1	ENSG00000145907	ENST00000543466	protein_coding	KNOWN	None	30292	855	284	151151485	151183786	1	None	HDH-VIII, G3BP
1	RHOC	ENSG00000155366	ENST00000339083	protein_coding	KNOWN	CCDS854	669	582	193	113243728	113250025	-1	ARH9, ARHC	RhoC
1	RHOC	ENSG00000155366	ENST00000369642	protein_coding	KNOWN	CCDS854	669	582	193	113243753	113250056	-1	ARH9, ARHC	RhoC
1	RHOC	ENSG00000155366	ENST00000285735	protein_coding	KNOWN	CCDS854	669	582	193	113243755	113249749	-1	ARH9, ARHC	RhoC
1	RHOC	ENSG00000155366	ENST00000468093	nonsense_mediated_decay	KNOWN	None	669	201	66	113243832	113249724	-1	ARH9, ARHC	RhoC
1	RHOC	ENSG00000155366	ENST00000369638	protein_coding	KNOWN	CCDS854	669	582	193	113243897	113249757	-1	ARH9, ARHC	RhoC
1	RHOC	ENSG00000155366	ENST00000369637	protein_coding	KNOWN	CCDS854	669	582	193	113243935	113249747	-1	ARH9, ARHC	RhoC
1	RHOC	ENSG00000155366	ENST00000369636	protein_coding	PUTATIVE	None	669	600	199	113243947	113249742	-1	ARH9, ARHC	RhoC
1	RHOC	ENSG00000155366	ENST00000473074	retained_intron	KNOWN	None	669	None	None	113243960	113246275	-1	ARH9, ARHC	RhoC
1	RHOC	ENSG00000155366	ENST00000484280	nonsense_mediated_decay	KNOWN	None	669	201	66	113244059	113249755	-1	ARH9, ARHC	RhoC
1	RHOC	ENSG00000155366	ENST00000369632	protein_coding	KNOWN	CCDS854	669	582	193	113244142	113249701	-1	ARH9, ARHC	RhoC
1	RHOC	ENSG00000155366	ENST00000484054	protein_coding	PUTATIVE	None	669	687	228	113244168	113249738	-1	ARH9, ARHC	RhoC
1	RHOC	ENSG00000155366	ENST00000425265	protein_coding	KNOWN	None	669	566	187	113244178	113249678	-1	ARH9, ARHC	RhoC
1	RHOC	ENSG00000155366	ENST00000534717	protein_coding	KNOWN	None	669	508	168	113244236	113247619	-1	ARH9, ARHC	RhoC
1	RHOC	ENSG00000155366	ENST00000436685	protein_coding	KNOWN	None	669	383	126	113245210	113249724	-1	ARH9, ARHC	RhoC
1	RHOC	ENSG00000155366	ENST00000528831	nonsense_mediated_decay	KNOWN	None	669	201	66	113245293	113249781	-1	ARH9, ARHC	RhoC
1	RHOC	ENSG00000155366	ENST00000414971	protein_coding	KNOWN	None	669	275	90	113245623	113247543	-1	ARH9, ARHC	RhoC
1	RHOC	ENSG00000155366	ENST00000478447	retained_intron	KNOWN	None	669	None	None	113246115	113249736	-1	ARH9, ARHC	RhoC
1	RHOC	ENSG00000155366	ENST00000527563	retained_intron	KNOWN	None	669	None	None	113247262	113249749	-1	ARH9, ARHC	RhoC
1	RHOC	ENSG00000155366	ENST00000369633	protein_coding	KNOWN	CCDS854	669	582	193	113243749	113249678	-1	ARH9, ARHC	RhoC
HSCHR6_MHC_SSTO	IER3	ENSG00000235030	ENST00000435856	protein_coding	KNOWN	None	5392	471	156	30702435	30703790	-1	None	IEX-1, DIF-2, PRG1, IEX-1L
HSCHR6_MHC_SSTO	IER3	ENSG00000235030	ENST00000446599	protein_coding	KNOWN	None	5392	417	138	30702435	30703784	-1	None	IEX-1, DIF-2, PRG1, IEX-1L
6	RAB32	ENSG00000118508	ENST00000367495	protein_coding	KNOWN	CCDS5210	9772	678	225	146864829	146876101	1	None	None
13	SIAH3	ENSG00000215475	ENST00000400405	protein_coding	KNOWN	CCDS41883	30553	810	269	46354405	46425871	-1	None	FLJ39203
HSCHR6_MHC_SSTO	None	ENSG00000258291	ENST00000546994	protein_coding	NOVEL	None	None	261	86	30978726	30994957	-1	None	None
19	None	ENSG00000269547	ENST00000599996	protein_coding	PUTATIVE	None	None	1765	587	39406044	39440495	-1	None	None
10	C1QL3	ENSG00000165985	ENST00000298943	protein_coding	KNOWN	CCDS31156	19359	768	255	16555742	16564004	-1	None	K100, C1ql, C1QTNF13, CTRP13
12	COPZ1	ENSG00000111481	ENST00000552848	protein_coding	KNOWN	None	2243	277	91	54694986	54739259	1	COPZ	CGI-120
12	COPZ1	ENSG00000111481	ENST00000548076	processed_transcript	KNOWN	None	2243	None	None	54695004	54737063	1	COPZ	CGI-120
12	COPZ1	ENSG00000111481	ENST00000553009	retained_intron	KNOWN	None	2243	None	None	54718893	54736414	1	COPZ	CGI-120
12	COPZ1	ENSG00000111481	ENST00000262061	protein_coding	KNOWN	CCDS8877	2243	534	177	54718911	54745633	1	COPZ	CGI-120
12	COPZ1	ENSG00000111481	ENST00000549043	protein_coding	PUTATIVE	None	2243	558	185	54718913	54744886	1	COPZ	CGI-120
12	COPZ1	ENSG00000111481	ENST00000551962	nonsense_mediated_decay	KNOWN	None	2243	324	107	54718915	54744374	1	COPZ	CGI-120
12	COPZ1	ENSG00000111481	ENST00000552218	protein_coding	NOVEL	None	2243	597	198	54718915	54744474	1	COPZ	CGI-120
12	COPZ1	ENSG00000111481	ENST00000551412	retained_intron	KNOWN	None	2243	None	None	54718923	54741756	1	COPZ	CGI-120
12	COPZ1	ENSG00000111481	ENST00000550027	retained_intron	KNOWN	None	2243	None	None	54718923	54741916	1	COPZ	CGI-120
12	COPZ1	ENSG00000111481	ENST00000553231	protein_coding	PUTATIVE	None	2243	495	164	54718923	54744138	1	COPZ	CGI-120
12	COPZ1	ENSG00000111481	ENST00000552362	protein_coding	NOVEL	None	2243	483	160	54718923	54744374	1	COPZ	CGI-120
12	COPZ1	ENSG00000111481	ENST00000455864	protein_coding	NOVEL	None	2243	465	154	54718923	54744697	1	COPZ	CGI-120
12	COPZ1	ENSG00000111481	ENST00000550171	nonsense_mediated_decay	KNOWN	None	2243	288	95	54718923	54744866	1	COPZ	CGI-120
12	COPZ1	ENSG00000111481	ENST00000549116	protein_coding	NOVEL	None	2243	360	119	54718928	54744663	1	COPZ	CGI-120
12	COPZ1	ENSG00000111481	ENST00000551779	protein_coding	PUTATIVE	None	2243	492	163	54718935	54744405	1	COPZ	CGI-120
12	COPZ1	ENSG00000111481	ENST00000548281	processed_transcript	KNOWN	None	2243	None	None	54718986	54744362	1	COPZ	CGI-120
12	COPZ1	ENSG00000111481	ENST00000548753	protein_coding	PUTATIVE	None	2243	270	89	54719368	54744470	1	COPZ	CGI-120
12	COPZ1	ENSG00000111481	ENST00000550713	protein_coding	PUTATIVE	None	2243	415	137	54734156	54741624	1	COPZ	CGI-120
12	COPZ1	ENSG00000111481	ENST00000416254	protein_coding	KNOWN	None	2243	381	126	54718923	54744866	1	COPZ	CGI-120
HSCHR6_MHC_SSTO	TCF19	ENSG00000234674	ENST00000446038	protein_coding	KNOWN	None	11629	1038	345	31120397	31126071	1	None	SC1
HSCHR6_MHC_SSTO	TCF19	ENSG00000234674	ENST00000416433	protein_coding	KNOWN	None	11629	1038	345	31120402	31126071	1	None	SC1
HSCHR6_MHC_SSTO	TCF19	ENSG00000234674	ENST00000487448	processed_transcript	PUTATIVE	None	11629	None	None	31123339	31124862	1	None	SC1
HSCHR6_MHC_SSTO	None	ENSG00000233119	ENST00000432016	processed_transcript	KNOWN	None	None	None	None	29092013	29096710	1	None	None
10	RGS10	ENSG00000148908	ENST00000369101	protein_coding	KNOWN	None	9992	522	173	121259437	121286989	-1	None	None
10	RGS10	ENSG00000148908	ENST00000369103	protein_coding	KNOWN	CCDS31294	9992	546	181	121259437	121302220	-1	None	None
10	RGS10	ENSG00000148908	ENST00000469575	processed_transcript	KNOWN	None	9992	None	None	121259592	121285606	-1	None	None
10	RGS10	ENSG00000148908	ENST00000473563	processed_transcript	KNOWN	None	9992	None	None	121275035	121276000	-1	None	None
10	RGS10	ENSG00000148908	ENST00000392865	protein_coding	KNOWN	CCDS41572	9992	504	167	121259340	121296045	-1	None	None
HSCHR6_MHC_SSTO	OR2N1P	ENSG00000231670	ENST00000439469	unprocessed_pseudogene	KNOWN	None	8271	None	None	29105679	29106615	-1	None	OR6-7
HSCHR6_MHC_SSTO	OR2J4P	ENSG00000229069	ENST00000445456	unprocessed_pseudogene	KNOWN	None	8262	None	None	29149334	29150269	1	None	OR6-9, hs6M1-5, dJ80I19.5
13	RBM26	ENSG00000139746	ENST00000449987	protein_coding	PUTATIVE	None	20327	516	171	79885962	79915347	-1	C13orf10	PRO1777, SE70-2, FLJ20957, ZC3H17, ARRS2
13	RBM26	ENSG00000139746	ENST00000267229	protein_coding	KNOWN	CCDS9462	20327	2943	980	79894089	79979923	-1	C13orf10	PRO1777, SE70-2, FLJ20957, ZC3H17, ARRS2
13	RBM26	ENSG00000139746	ENST00000438737	protein_coding	NOVEL	None	20327	3024	1007	79894089	79980350	-1	C13orf10	PRO1777, SE70-2, FLJ20957, ZC3H17, ARRS2
13	RBM26	ENSG00000139746	ENST00000461008	processed_transcript	KNOWN	None	20327	None	None	79939895	79940845	-1	C13orf10	PRO1777, SE70-2, FLJ20957, ZC3H17, ARRS2
13	RBM26	ENSG00000139746	ENST00000472143	retained_intron	KNOWN	None	20327	None	None	79950352	79980612	-1	C13orf10	PRO1777, SE70-2, FLJ20957, ZC3H17, ARRS2
13	RBM26	ENSG00000139746	ENST00000438724	protein_coding	KNOWN	None	20327	2952	983	79894143	79979965	-1	C13orf10	PRO1777, SE70-2, FLJ20957, ZC3H17, ARRS2
22	RIBC2	ENSG00000128408	ENST00000342894	protein_coding	KNOWN	None	13241	930	309	45809572	45828376	1	C22orf11	DKFZp566F0546, FLJ25720
22	RIBC2	ENSG00000128408	ENST00000498265	retained_intron	KNOWN	None	13241	None	None	45810204	45818386	1	C22orf11	DKFZp566F0546, FLJ25720
22	RIBC2	ENSG00000128408	ENST00000466226	processed_transcript	KNOWN	None	13241	None	None	45813887	45826896	1	C22orf11	DKFZp566F0546, FLJ25720
22	RIBC2	ENSG00000128408	ENST00000538017	protein_coding	KNOWN	None	13241	1134	377	45809574	45828293	1	C22orf11	DKFZp566F0546, FLJ25720
HSCHR6_MHC_SSTO	OR2H4P	ENSG00000225592	ENST00000433320	unprocessed_pseudogene	KNOWN	None	8255	None	None	29183092	29184029	1	None	OR6-3, OR2H4, hs6M1-7, dJ80I19.6
HSCHR6_MHC_SSTO	None	ENSG00000230089	ENST00000419230	processed_transcript	KNOWN	None	None	None	None	29191823	29234926	1	None	None
HSCHR6_MHC_SSTO	OR2G1P	ENSG00000230874	ENST00000433090	unprocessed_pseudogene	KNOWN	None	8251	None	None	29197077	29198007	-1	None	OST619, hs6M1-25
8	ANK1	ENSG00000029534	ENST00000347528	protein_coding	KNOWN	CCDS6119	492	5646	1881	41510739	41655140	-1	ANK	SPH1
8	ANK1	ENSG00000029534	ENST00000289734	protein_coding	KNOWN	CCDS6121	492	5643	1880	41510739	41655140	-1	ANK	SPH1
8	ANK1	ENSG00000029534	ENST00000522231	protein_coding	PUTATIVE	None	492	396	131	41512820	41522779	-1	ANK	SPH1
8	ANK1	ENSG00000029534	ENST00000522543	protein_coding	PUTATIVE	CCDS55227	492	471	156	41512820	41522804	-1	ANK	SPH1
8	ANK1	ENSG00000029534	ENST00000314214	protein_coding	KNOWN	CCDS6122	492	468	155	41512843	41522792	-1	ANK	SPH1
8	ANK1	ENSG00000029534	ENST00000520299	protein_coding	PUTATIVE	None	492	3121	1039	41512843	41563697	-1	ANK	SPH1
8	ANK1	ENSG00000029534	ENST00000265709	protein_coding	KNOWN	CCDS47849	492	5694	1897	41512843	41754280	-1	ANK	SPH1
8	ANK1	ENSG00000029534	ENST00000348036	protein_coding	KNOWN	None	492	328	108	41513248	41522792	-1	ANK	SPH1
8	ANK1	ENSG00000029534	ENST00000524227	retained_intron	KNOWN	None	492	None	None	41518507	41555364	-1	ANK	SPH1
8	ANK1	ENSG00000029534	ENST00000335651	protein_coding	PUTATIVE	None	492	341	112	41519045	41522725	-1	ANK	SPH1
8	ANK1	ENSG00000029534	ENST00000518715	retained_intron	KNOWN	None	492	None	None	41519400	41523348	-1	ANK	SPH1
8	ANK1	ENSG00000029534	ENST00000518061	nonsense_mediated_decay	KNOWN	None	492	533	176	41525859	41547803	-1	ANK	SPH1
8	ANK1	ENSG00000029534	ENST00000524069	retained_intron	KNOWN	None	492	None	None	41550164	41552305	-1	ANK	SPH1
8	ANK1	ENSG00000029534	ENST00000521407	processed_transcript	KNOWN	None	492	None	None	41646400	41655111	-1	ANK	SPH1
8	ANK1	ENSG00000029534	ENST00000379758	protein_coding	KNOWN	None	492	5505	1834	41510745	41655140	-1	ANK	SPH1
8	ANK1	ENSG00000029534	ENST00000396945	protein_coding	KNOWN	None	492	5421	1806	41510745	41655140	-1	ANK	SPH1
8	ANK1	ENSG00000029534	ENST00000457297	protein_coding	KNOWN	CCDS6120	492	330	109	41510745	41522804	-1	ANK	SPH1
8	ANK1	ENSG00000029534	ENST00000396942	protein_coding	KNOWN	None	492	5718	1905	41510745	41655140	-1	ANK	SPH1
8	ANK1	ENSG00000029534	ENST00000352337	protein_coding	KNOWN	None	492	5577	1858	41510745	41655140	-1	ANK	SPH1
17	JMJD6	ENSG00000070495	ENST00000445478	protein_coding	KNOWN	CCDS42383	19355	1245	414	74708919	74722761	-1	PTDSR	PTDSR1, KIAA0585
17	JMJD6	ENSG00000070495	ENST00000542934	nonsense_mediated_decay	KNOWN	None	19355	1086	361	74714528	74722866	-1	PTDSR	PTDSR1, KIAA0585
17	JMJD6	ENSG00000070495	ENST00000303996	nonsense_mediated_decay	KNOWN	None	19355	1008	335	74714528	74722866	-1	PTDSR	PTDSR1, KIAA0585
17	JMJD6	ENSG00000070495	ENST00000591460	retained_intron	KNOWN	None	19355	None	None	74714535	74717464	-1	PTDSR	PTDSR1, KIAA0585
17	JMJD6	ENSG00000070495	ENST00000397625	protein_coding	KNOWN	CCDS42384	19355	1212	403	74714535	74722672	-1	PTDSR	PTDSR1, KIAA0585
17	JMJD6	ENSG00000070495	ENST00000585429	protein_coding	PUTATIVE	None	19355	1188	395	74714582	74722585	-1	PTDSR	PTDSR1, KIAA0585
17	JMJD6	ENSG00000070495	ENST00000589982	retained_intron	KNOWN	None	19355	None	None	74714754	74716719	-1	PTDSR	PTDSR1, KIAA0585
HSCHR6_MHC_SSTO	OR2U1P	ENSG00000230752	ENST00000436781	unprocessed_pseudogene	KNOWN	None	8278	None	None	29230544	29231920	-1	OR2AU1P	hs6M1-24
12	C12orf57	ENSG00000111678	ENST00000538392	retained_intron	KNOWN	None	29521	None	None	7052141	7054229	1	None	GRCC10, C10
12	C12orf57	ENSG00000111678	ENST00000542222	processed_transcript	PUTATIVE	None	29521	None	None	7052596	7055166	1	None	GRCC10, C10
12	C12orf57	ENSG00000111678	ENST00000545581	protein_coding	PUTATIVE	None	29521	380	125	7052665	7055084	1	None	GRCC10, C10
12	C12orf57	ENSG00000111678	ENST00000544681	protein_coding	PUTATIVE	None	29521	312	103	7052980	7054261	1	None	GRCC10, C10
12	C12orf57	ENSG00000111678	ENST00000537087	protein_coding	PUTATIVE	None	29521	294	97	7052997	7055165	1	None	GRCC10, C10
12	C12orf57	ENSG00000111678	ENST00000229281	protein_coding	KNOWN	CCDS8571	29521	381	126	7053186	7055165	1	None	GRCC10, C10
12	C12orf57	ENSG00000111678	ENST00000540506	protein_coding	PUTATIVE	None	29521	276	91	7053285	7055159	1	None	GRCC10, C10
16	RAB11FIP3	ENSG00000090565	ENST00000262305	protein_coding	KNOWN	CCDS32351	17224	2271	756	475619	573011	1	None	KIAA0665, Rab11-FIP3, eferin
16	RAB11FIP3	ENSG00000090565	ENST00000434585	protein_coding	NOVEL	None	17224	2034	677	476379	572355	1	None	KIAA0665, Rab11-FIP3, eferin
16	RAB11FIP3	ENSG00000090565	ENST00000452814	protein_coding	PUTATIVE	None	17224	547	181	524869	555605	1	None	KIAA0665, Rab11-FIP3, eferin
16	RAB11FIP3	ENSG00000090565	ENST00000483002	retained_intron	KNOWN	None	17224	None	None	524924	539101	1	None	KIAA0665, Rab11-FIP3, eferin
16	RAB11FIP3	ENSG00000090565	ENST00000449879	protein_coding	PUTATIVE	None	17224	473	156	524924	553063	1	None	KIAA0665, Rab11-FIP3, eferin
16	RAB11FIP3	ENSG00000090565	ENST00000412256	protein_coding	PUTATIVE	None	17224	411	136	532657	547448	1	None	KIAA0665, Rab11-FIP3, eferin
16	RAB11FIP3	ENSG00000090565	ENST00000495663	retained_intron	KNOWN	None	17224	None	None	538942	547158	1	None	KIAA0665, Rab11-FIP3, eferin
16	RAB11FIP3	ENSG00000090565	ENST00000487899	retained_intron	KNOWN	None	17224	None	None	552750	569018	1	None	KIAA0665, Rab11-FIP3, eferin
16	RAB11FIP3	ENSG00000090565	ENST00000461009	retained_intron	KNOWN	None	17224	None	None	560453	569108	1	None	KIAA0665, Rab11-FIP3, eferin
16	RAB11FIP3	ENSG00000090565	ENST00000464263	retained_intron	KNOWN	None	17224	None	None	560563	569762	1	None	KIAA0665, Rab11-FIP3, eferin
16	RAB11FIP3	ENSG00000090565	ENST00000457159	protein_coding	KNOWN	None	17224	2406	801	475668	572478	1	None	KIAA0665, Rab11-FIP3, eferin
16	RAB11FIP3	ENSG00000090565	ENST00000450428	protein_coding	KNOWN	CCDS45364	17224	1383	460	524850	572478	1	None	KIAA0665, Rab11-FIP3, eferin
22	BID	ENSG00000015475	ENST00000317361	protein_coding	KNOWN	CCDS13747	1050	726	241	18216906	18256782	-1	None	None
22	BID	ENSG00000015475	ENST00000399774	protein_coding	KNOWN	CCDS13748	1050	588	195	18216937	18257258	-1	None	None
22	BID	ENSG00000015475	ENST00000399765	protein_coding	KNOWN	CCDS13749	1050	300	99	18216941	18257255	-1	None	None
22	BID	ENSG00000015475	ENST00000494097	retained_intron	KNOWN	None	1050	None	None	18217988	18223960	-1	None	None
22	BID	ENSG00000015475	ENST00000342111	protein_coding	KNOWN	None	1050	414	137	18218265	18257178	-1	None	None
22	BID	ENSG00000015475	ENST00000550946	retained_intron	KNOWN	None	1050	None	None	18218318	18257178	-1	None	None
22	BID	ENSG00000015475	ENST00000551952	protein_coding	KNOWN	CCDS13748	1050	588	195	18218318	18257431	-1	None	None
22	BID	ENSG00000015475	ENST00000473439	processed_transcript	PUTATIVE	None	1050	None	None	18220824	18257261	-1	None	None
22	BID	ENSG00000015475	ENST00000552886	processed_transcript	KNOWN	None	1050	None	None	18222214	18257536	-1	None	None
22	BID	ENSG00000015475	ENST00000399767	protein_coding	KNOWN	CCDS13749	1050	300	99	18216908	18257258	-1	None	None
2	CCDC148	ENSG00000153237	ENST00000283233	protein_coding	KNOWN	CCDS33304	25191	1776	591	159027593	159313265	-1	None	MGC125588
2	CCDC148	ENSG00000153237	ENST00000454257	nonsense_mediated_decay	KNOWN	None	25191	165	54	159027869	159313111	-1	None	MGC125588
2	CCDC148	ENSG00000153237	ENST00000409187	protein_coding	NOVEL	None	25191	1803	600	159028056	159237472	-1	None	MGC125588
2	CCDC148	ENSG00000153237	ENST00000448656	nonsense_mediated_decay	KNOWN	None	25191	153	50	159028486	159313078	-1	None	MGC125588
2	CCDC148	ENSG00000153237	ENST00000417066	nonsense_mediated_decay	KNOWN	None	25191	48	15	159145100	159313265	-1	None	MGC125588
2	CCDC148	ENSG00000153237	ENST00000451554	nonsense_mediated_decay	KNOWN	None	25191	123	40	159145135	159313220	-1	None	MGC125588
2	CCDC148	ENSG00000153237	ENST00000409889	protein_coding	PUTATIVE	None	25191	768	255	159195105	159313214	-1	None	MGC125588
2	CCDC148	ENSG00000153237	ENST00000491563	processed_transcript	KNOWN	None	25191	None	None	159222526	159313238	-1	None	MGC125588
2	CCDC148	ENSG00000153237	ENST00000536771	protein_coding	KNOWN	CCDS54410	25191	900	299	159145100	159313265	-1	None	MGC125588
1	SYNC	ENSG00000162520	ENST00000409190	protein_coding	KNOWN	CCDS367	28897	1449	482	33145961	33168720	-1	SYNC1	SYNCOILIN
1	SYNC	ENSG00000162520	ENST00000417633	protein_coding	KNOWN	None	28897	269	88	33161166	33169197	-1	SYNC1	SYNCOILIN
1	SYNC	ENSG00000162520	ENST00000426909	protein_coding	KNOWN	None	28897	211	69	33161224	33168680	-1	SYNC1	SYNCOILIN
1	SYNC	ENSG00000162520	ENST00000373484	protein_coding	KNOWN	CCDS53294	28897	1431	476	33145507	33168361	-1	SYNC1	SYNCOILIN
7	NAMPT	ENSG00000105835	ENST00000222553	protein_coding	KNOWN	CCDS5737	30092	1476	491	105888731	105925638	-1	PBEF1	PBEF
7	NAMPT	ENSG00000105835	ENST00000463871	retained_intron	KNOWN	None	30092	None	None	105891571	105894064	-1	PBEF1	PBEF
7	NAMPT	ENSG00000105835	ENST00000354289	protein_coding	KNOWN	None	30092	1107	368	105901947	105925367	-1	PBEF1	PBEF
7	NAMPT	ENSG00000105835	ENST00000491027	retained_intron	KNOWN	None	30092	None	None	105903604	105925397	-1	PBEF1	PBEF
7	NAMPT	ENSG00000105835	ENST00000467730	processed_transcript	PUTATIVE	None	30092	None	None	105908781	105909651	-1	PBEF1	PBEF
7	NAMPT	ENSG00000105835	ENST00000484527	processed_transcript	KNOWN	None	30092	None	None	105909601	105925078	-1	PBEF1	PBEF
7	NAMPT	ENSG00000105835	ENST00000393618	processed_transcript	KNOWN	None	30092	None	None	105910661	105925397	-1	PBEF1	PBEF
7	NAMPT	ENSG00000105835	ENST00000441045	processed_transcript	KNOWN	None	30092	None	None	105910704	105925397	-1	PBEF1	PBEF
7	NAMPT	ENSG00000105835	ENST00000486949	retained_intron	KNOWN	None	30092	None	None	105912311	105925333	-1	PBEF1	PBEF
7	NAMPT	ENSG00000105835	ENST00000489358	processed_transcript	KNOWN	None	30092	None	None	105912485	105925396	-1	PBEF1	PBEF
7	NAMPT	ENSG00000105835	ENST00000424768	protein_coding	KNOWN	None	30092	264	87	105915446	105926772	-1	PBEF1	PBEF
7	NAMPT	ENSG00000105835	ENST00000489732	retained_intron	KNOWN	None	30092	None	None	105915773	105925396	-1	PBEF1	PBEF
7	NAMPT	ENSG00000105835	ENST00000417537	protein_coding	KNOWN	None	30092	181	59	105917502	105926058	-1	PBEF1	PBEF
21	RWDD2B	ENSG00000156253	ENST00000493196	protein_coding	KNOWN	CCDS13582	1302	960	319	30376705	30391699	-1	C21orf6	GL011
21	RWDD2B	ENSG00000156253	ENST00000486719	processed_transcript	KNOWN	None	1302	None	None	30378080	30391671	-1	C21orf6	GL011
21	RWDD2B	ENSG00000156253	ENST00000286777	processed_transcript	KNOWN	None	1302	None	None	30378080	30391673	-1	C21orf6	GL011
21	RWDD2B	ENSG00000156253	ENST00000472184	retained_intron	KNOWN	None	1302	None	None	30378080	30391680	-1	C21orf6	GL011
21	RWDD2B	ENSG00000156253	ENST00000466746	retained_intron	KNOWN	None	1302	None	None	30380197	30391627	-1	C21orf6	GL011
21	RWDD2B	ENSG00000156253	ENST00000481411	retained_intron	KNOWN	None	1302	None	None	30380221	30391661	-1	C21orf6	GL011
21	RWDD2B	ENSG00000156253	ENST00000471269	processed_transcript	KNOWN	None	1302	None	None	30380385	30391681	-1	C21orf6	GL011
10	None	ENSG00000234756	ENST00000442753	lincRNA	KNOWN	None	None	None	None	64049280	64063792	1	None	None
1	CFHR3	ENSG00000116785	ENST00000367425	protein_coding	KNOWN	CCDS30958	16980	993	330	196743925	196763203	1	CFHL3	FHR-3, HLF4, FHR3, DOWN16
1	CFHR3	ENSG00000116785	ENST00000471440	protein_coding	PUTATIVE	None	16980	699	232	196743943	196759152	1	CFHL3	FHR-3, HLF4, FHR3, DOWN16
1	CFHR3	ENSG00000116785	ENST00000367427	nonsense_mediated_decay	KNOWN	None	16980	699	232	196743943	196762618	1	CFHL3	FHR-3, HLF4, FHR3, DOWN16
1	CFHR3	ENSG00000116785	ENST00000391985	protein_coding	NOVEL	CCDS53453	16980	810	269	196743946	196762805	1	CFHL3	FHR-3, HLF4, FHR3, DOWN16
1	CFHR3	ENSG00000116785	ENST00000461558	retained_intron	KNOWN	None	16980	None	None	196758890	196762763	1	CFHL3	FHR-3, HLF4, FHR3, DOWN16
9	CCIN	ENSG00000185972	ENST00000335119	protein_coding	KNOWN	CCDS6599	1568	1767	588	36169389	36171329	1	None	KBTBD14, BTBD20
HSCHR6_MHC_COX	TRIM26	ENSG00000230230	ENST00000493978	retained_intron	KNOWN	None	12962	None	None	30142137	30148081	-1	ZNF173	RNF95
HSCHR6_MHC_COX	TRIM26	ENSG00000230230	ENST00000438908	protein_coding	KNOWN	None	12962	1620	539	30142137	30162435	-1	ZNF173	RNF95
HSCHR6_MHC_COX	TRIM26	ENSG00000230230	ENST00000455000	protein_coding	KNOWN	None	12962	1620	539	30142137	30171039	-1	ZNF173	RNF95
HSCHR6_MHC_COX	TRIM26	ENSG00000230230	ENST00000436219	protein_coding	KNOWN	None	12962	1620	539	30142137	30171100	-1	ZNF173	RNF95
HSCHR6_MHC_COX	TRIM26	ENSG00000230230	ENST00000446196	protein_coding	KNOWN	None	12962	745	247	30154210	30171092	-1	ZNF173	RNF95
HSCHR6_MHC_COX	TRIM26	ENSG00000230230	ENST00000451189	protein_coding	KNOWN	None	12962	477	158	30154253	30162391	-1	ZNF173	RNF95
HSCHR6_MHC_COX	TRIM26	ENSG00000230230	ENST00000422881	protein_coding	KNOWN	None	12962	472	156	30156165	30171058	-1	ZNF173	RNF95
HSCHR6_MHC_COX	TRIM26	ENSG00000230230	ENST00000435387	protein_coding	KNOWN	None	12962	366	121	30156412	30171039	-1	ZNF173	RNF95
HSCHR6_MHC_COX	TRIM26	ENSG00000230230	ENST00000475230	processed_transcript	KNOWN	None	12962	None	None	30156438	30171038	-1	ZNF173	RNF95
12	CABP1	ENSG00000157782	ENST00000316803	protein_coding	KNOWN	CCDS31913	1384	1113	370	121078355	121105114	1	None	None
12	CABP1	ENSG00000157782	ENST00000288616	protein_coding	KNOWN	CCDS9205	1384	684	227	121087888	121104835	1	None	None
12	CABP1	ENSG00000157782	ENST00000351200	protein_coding	KNOWN	CCDS9204	1384	504	167	121088310	121104838	1	None	None
12	CABP1	ENSG00000157782	ENST00000453000	protein_coding	PUTATIVE	None	1384	921	306	121093102	121105127	1	None	None
12	CABP1	ENSG00000157782	ENST00000498082	retained_intron	KNOWN	None	1384	None	None	121096779	121100217	1	None	None
11	CYB561A3	ENSG00000162144	ENST00000294072	protein_coding	KNOWN	CCDS8004	23014	729	242	61116217	61129771	-1	CYBASC3	None
11	CYB561A3	ENSG00000162144	ENST00000540317	processed_transcript	KNOWN	None	23014	None	None	61116290	61129385	-1	CYBASC3	None
11	CYB561A3	ENSG00000162144	ENST00000447532	protein_coding	PUTATIVE	None	23014	792	263	61116310	61129385	-1	CYBASC3	None
11	CYB561A3	ENSG00000162144	ENST00000536452	retained_intron	KNOWN	None	23014	None	None	61116362	61118756	-1	CYBASC3	None
11	CYB561A3	ENSG00000162144	ENST00000546151	protein_coding	PUTATIVE	None	23014	288	95	61117119	61129362	-1	CYBASC3	None
11	CYB561A3	ENSG00000162144	ENST00000540755	nonsense_mediated_decay	KNOWN	None	23014	318	105	61117129	61129325	-1	CYBASC3	None
11	CYB561A3	ENSG00000162144	ENST00000544118	protein_coding	PUTATIVE	None	23014	315	104	61117313	61129321	-1	CYBASC3	None
11	CYB561A3	ENSG00000162144	ENST00000536915	protein_coding	KNOWN	CCDS8004	23014	729	242	61117598	61124751	-1	CYBASC3	None
11	CYB561A3	ENSG00000162144	ENST00000539890	protein_coding	PUTATIVE	None	23014	330	109	61117752	61124273	-1	CYBASC3	None
11	CYB561A3	ENSG00000162144	ENST00000540139	protein_coding	PUTATIVE	None	23014	373	123	61118531	61122213	-1	CYBASC3	None
11	CYB561A3	ENSG00000162144	ENST00000542361	protein_coding	KNOWN	None	23014	599	198	61118569	61124819	-1	CYBASC3	None
11	CYB561A3	ENSG00000162144	ENST00000537364	protein_coding	KNOWN	None	23014	547	181	61120458	61128736	-1	CYBASC3	None
11	CYB561A3	ENSG00000162144	ENST00000535177	retained_intron	KNOWN	None	23014	None	None	61120578	61124361	-1	CYBASC3	None
11	CYB561A3	ENSG00000162144	ENST00000539128	protein_coding	KNOWN	None	23014	346	114	61121303	61129357	-1	CYBASC3	None
11	CYB561A3	ENSG00000162144	ENST00000538263	processed_transcript	KNOWN	None	23014	None	None	61121327	61129312	-1	CYBASC3	None
11	CYB561A3	ENSG00000162144	ENST00000542411	retained_intron	KNOWN	None	23014	None	None	61123883	61129348	-1	CYBASC3	None
11	CYB561A3	ENSG00000162144	ENST00000536687	processed_transcript	PUTATIVE	None	23014	None	None	61123994	61129743	-1	CYBASC3	None
11	CYB561A3	ENSG00000162144	ENST00000545361	protein_coding	KNOWN	None	23014	166	54	61124020	61129354	-1	CYBASC3	None
11	CYB561A3	ENSG00000162144	ENST00000537680	protein_coding	KNOWN	None	23014	86	27	61124100	61129734	-1	CYBASC3	None
11	CYB561A3	ENSG00000162144	ENST00000535152	processed_transcript	KNOWN	None	23014	None	None	61124205	61129720	-1	CYBASC3	None
11	CYB561A3	ENSG00000162144	ENST00000426130	protein_coding	KNOWN	CCDS53639	23014	780	259	61116226	61129755	-1	CYBASC3	None
1	None	ENSG00000271810	ENST00000471038	processed_transcript	KNOWN	None	None	None	None	113245236	113254055	-1	None	None
1	None	ENSG00000271810	ENST00000607158	retained_intron	KNOWN	None	None	None	None	113245270	113253846	-1	None	None
1	None	ENSG00000271810	ENST00000606505	protein_coding	PUTATIVE	None	None	813	270	113245270	113253977	-1	None	None
1	None	ENSG00000271810	ENST00000605933	protein_coding	PUTATIVE	None	None	744	247	113245270	113253977	-1	None	None
1	None	ENSG00000271810	ENST00000606954	nonsense_mediated_decay	KNOWN	None	None	100	32	113245270	113253977	-1	None	None
1	KIAA1522	ENSG00000162522	ENST00000401073	protein_coding	KNOWN	CCDS41298	29301	3285	1094	33207486	33240571	1	None	None
1	KIAA1522	ENSG00000162522	ENST00000468130	retained_intron	KNOWN	None	29301	None	None	33219620	33234547	1	None	None
1	KIAA1522	ENSG00000162522	ENST00000373481	protein_coding	PUTATIVE	None	29301	3141	1046	33219622	33240571	1	None	None
1	KIAA1522	ENSG00000162522	ENST00000294521	protein_coding	NOVEL	CCDS55589	29301	432	143	33231235	33238798	1	None	None
1	KIAA1522	ENSG00000162522	ENST00000373480	protein_coding	KNOWN	CCDS55588	29301	3108	1035	33231268	33240571	1	None	None
HSCHR6_MHC_SSTO	OR2U2P	ENSG00000226932	ENST00000412258	unprocessed_pseudogene	KNOWN	None	8279	None	None	29236303	29237262	-1	None	hs6M1-23
6	ADGB	ENSG00000118492	ENST00000397944	protein_coding	KNOWN	None	21212	5004	1667	146920101	147136598	1	C6orf103	FLJ23121, dJ408K24.1
6	ADGB	ENSG00000118492	ENST00000522396	nonsense_mediated_decay	KNOWN	None	21212	108	35	146920103	146977988	1	C6orf103	FLJ23121, dJ408K24.1
6	ADGB	ENSG00000118492	ENST00000522242	protein_coding	PUTATIVE	None	21212	536	177	146920106	146978058	1	C6orf103	FLJ23121, dJ408K24.1
6	ADGB	ENSG00000118492	ENST00000326929	retained_intron	KNOWN	None	21212	None	None	146920136	147045513	1	C6orf103	FLJ23121, dJ408K24.1
6	ADGB	ENSG00000118492	ENST00000493950	nonsense_mediated_decay	KNOWN	None	21212	663	220	146920141	147136598	1	C6orf103	FLJ23121, dJ408K24.1
6	ADGB	ENSG00000118492	ENST00000473647	protein_coding	PUTATIVE	None	21212	216	71	146978069	146985530	1	C6orf103	FLJ23121, dJ408K24.1
6	ADGB	ENSG00000118492	ENST00000480328	nonsense_mediated_decay	KNOWN	None	21212	2144	713	147038019	147136595	1	C6orf103	FLJ23121, dJ408K24.1
6	ADGB	ENSG00000118492	ENST00000367490	protein_coding	PUTATIVE	None	21212	1878	625	147057654	147136598	1	C6orf103	FLJ23121, dJ408K24.1
6	ADGB	ENSG00000118492	ENST00000326916	protein_coding	PUTATIVE	None	21212	778	258	147091575	147122390	1	C6orf103	FLJ23121, dJ408K24.1
6	ADGB	ENSG00000118492	ENST00000523560	processed_transcript	KNOWN	None	21212	None	None	147091581	147106785	1	C6orf103	FLJ23121, dJ408K24.1
6	ADGB	ENSG00000118492	ENST00000470716	protein_coding	PUTATIVE	None	21212	423	140	147091581	147109640	1	C6orf103	FLJ23121, dJ408K24.1
6	ADGB	ENSG00000118492	ENST00000367489	protein_coding	PUTATIVE	None	21212	339	112	147122995	147128974	1	C6orf103	FLJ23121, dJ408K24.1
6	ADGB	ENSG00000118492	ENST00000367493	protein_coding	KNOWN	None	21212	2142	713	146920136	147136595	1	C6orf103	FLJ23121, dJ408K24.1
6	ADGB	ENSG00000118492	ENST00000367488	protein_coding	KNOWN	None	21212	705	234	147091715	147136595	1	C6orf103	FLJ23121, dJ408K24.1
13	MCF2L	ENSG00000126217	ENST00000375608	protein_coding	KNOWN	None	14576	3414	1137	113548692	113751175	1	None	KIAA0362, DBS, OST, ARHGEF14
13	MCF2L	ENSG00000126217	ENST00000397036	protein_coding	PUTATIVE	None	14576	195	64	113556509	113564933	1	None	KIAA0362, DBS, OST, ARHGEF14
13	MCF2L	ENSG00000126217	ENST00000442625	nonsense_mediated_decay	KNOWN	None	14576	201	66	113556509	113612478	1	None	KIAA0362, DBS, OST, ARHGEF14
13	MCF2L	ENSG00000126217	ENST00000397030	protein_coding	KNOWN	None	14576	3291	1096	113622814	113754053	1	None	KIAA0362, DBS, OST, ARHGEF14
13	MCF2L	ENSG00000126217	ENST00000535094	protein_coding	KNOWN	CCDS45070	14576	3378	1125	113623535	113751388	1	None	KIAA0362, DBS, OST, ARHGEF14
13	MCF2L	ENSG00000126217	ENST00000421756	protein_coding	PUTATIVE	None	14576	3204	1067	113633626	113750801	1	None	KIAA0362, DBS, OST, ARHGEF14
13	MCF2L	ENSG00000126217	ENST00000433807	protein_coding	PUTATIVE	None	14576	292	96	113639432	113679068	1	None	KIAA0362, DBS, OST, ARHGEF14
13	MCF2L	ENSG00000126217	ENST00000409954	protein_coding	PUTATIVE	None	14576	410	135	113655584	113718625	1	None	KIAA0362, DBS, OST, ARHGEF14
13	MCF2L	ENSG00000126217	ENST00000375597	protein_coding	KNOWN	None	14576	2955	984	113656068	113744497	1	None	KIAA0362, DBS, OST, ARHGEF14
13	MCF2L	ENSG00000126217	ENST00000486210	retained_intron	KNOWN	None	14576	None	None	113656099	113679222	1	None	KIAA0362, DBS, OST, ARHGEF14
13	MCF2L	ENSG00000126217	ENST00000397024	protein_coding	PUTATIVE	None	14576	411	136	113656207	113681382	1	None	KIAA0362, DBS, OST, ARHGEF14
13	MCF2L	ENSG00000126217	ENST00000486806	protein_coding	PUTATIVE	None	14576	282	93	113678978	113688451	1	None	KIAA0362, DBS, OST, ARHGEF14
13	MCF2L	ENSG00000126217	ENST00000473345	protein_coding	PUTATIVE	None	14576	209	68	113679012	113707067	1	None	KIAA0362, DBS, OST, ARHGEF14
13	MCF2L	ENSG00000126217	ENST00000480321	processed_transcript	KNOWN	None	14576	None	None	113694662	113701655	1	None	KIAA0362, DBS, OST, ARHGEF14
13	MCF2L	ENSG00000126217	ENST00000469558	processed_transcript	PUTATIVE	None	14576	None	None	113698776	113699636	1	None	KIAA0362, DBS, OST, ARHGEF14
13	MCF2L	ENSG00000126217	ENST00000397021	protein_coding	PUTATIVE	None	14576	261	86	113698976	113701169	1	None	KIAA0362, DBS, OST, ARHGEF14
13	MCF2L	ENSG00000126217	ENST00000494043	processed_transcript	KNOWN	None	14576	None	None	113699002	113709219	1	None	KIAA0362, DBS, OST, ARHGEF14
13	MCF2L	ENSG00000126217	ENST00000423251	protein_coding	PUTATIVE	None	14576	642	213	113699165	113719617	1	None	KIAA0362, DBS, OST, ARHGEF14
13	MCF2L	ENSG00000126217	ENST00000464800	retained_intron	KNOWN	None	14576	None	None	113718626	113724708	1	None	KIAA0362, DBS, OST, ARHGEF14
13	MCF2L	ENSG00000126217	ENST00000475524	processed_transcript	KNOWN	None	14576	None	None	113719004	113729340	1	None	KIAA0362, DBS, OST, ARHGEF14
13	MCF2L	ENSG00000126217	ENST00000397017	protein_coding	NOVEL	None	14576	2380	792	113728781	113752522	1	None	KIAA0362, DBS, OST, ARHGEF14
13	MCF2L	ENSG00000126217	ENST00000487354	retained_intron	KNOWN	None	14576	None	None	113738881	113740479	1	None	KIAA0362, DBS, OST, ARHGEF14
13	MCF2L	ENSG00000126217	ENST00000413354	protein_coding	NOVEL	None	14576	952	316	113740502	113750713	1	None	KIAA0362, DBS, OST, ARHGEF14
13	MCF2L	ENSG00000126217	ENST00000261963	protein_coding	NOVEL	None	14576	890	295	113741664	113752702	1	None	KIAA0362, DBS, OST, ARHGEF14
13	MCF2L	ENSG00000126217	ENST00000453297	protein_coding	NOVEL	None	14576	1009	335	113741713	113751983	1	None	KIAA0362, DBS, OST, ARHGEF14
13	MCF2L	ENSG00000126217	ENST00000439475	protein_coding	NOVEL	None	14576	453	150	113742110	113748918	1	None	KIAA0362, DBS, OST, ARHGEF14
13	MCF2L	ENSG00000126217	ENST00000420013	protein_coding	NOVEL	None	14576	566	187	113743950	113751146	1	None	KIAA0362, DBS, OST, ARHGEF14
13	MCF2L	ENSG00000126217	ENST00000441756	protein_coding	PUTATIVE	None	14576	262	86	113744005	113749492	1	None	KIAA0362, DBS, OST, ARHGEF14
13	MCF2L	ENSG00000126217	ENST00000491028	retained_intron	KNOWN	None	14576	None	None	113745283	113749173	1	None	KIAA0362, DBS, OST, ARHGEF14
13	MCF2L	ENSG00000126217	ENST00000469415	retained_intron	KNOWN	None	14576	None	None	113747915	113752862	1	None	KIAA0362, DBS, OST, ARHGEF14
13	MCF2L	ENSG00000126217	ENST00000488765	retained_intron	KNOWN	None	14576	None	None	113749536	113752860	1	None	KIAA0362, DBS, OST, ARHGEF14
13	MCF2L	ENSG00000126217	ENST00000442652	protein_coding	KNOWN	None	14576	3414	1137	113556507	113750999	1	None	KIAA0362, DBS, OST, ARHGEF14
13	MCF2L	ENSG00000126217	ENST00000375604	protein_coding	KNOWN	None	14576	3549	1182	113622757	113752862	1	None	KIAA0362, DBS, OST, ARHGEF14
13	MCF2L	ENSG00000126217	ENST00000375601	protein_coding	KNOWN	None	14576	3390	1129	113633655	113752862	1	None	KIAA0362, DBS, OST, ARHGEF14
13	MCF2L	ENSG00000126217	ENST00000434480	protein_coding	KNOWN	None	14576	3342	1113	113639437	113750999	1	None	KIAA0362, DBS, OST, ARHGEF14
13	MCF2L	ENSG00000126217	ENST00000423482	protein_coding	KNOWN	CCDS9527	14576	3372	1123	113656031	113751224	1	None	KIAA0362, DBS, OST, ARHGEF14
5	AFF4	ENSG00000072364	ENST00000265343	protein_coding	KNOWN	CCDS4164	17869	3492	1163	132211071	132299326	-1	None	AF5Q31, MCEF
5	AFF4	ENSG00000072364	ENST00000378595	protein_coding	PUTATIVE	None	17869	2703	900	132227509	132299310	-1	None	AF5Q31, MCEF
5	AFF4	ENSG00000072364	ENST00000478588	processed_transcript	KNOWN	None	17869	None	None	132232503	132236774	-1	None	AF5Q31, MCEF
5	AFF4	ENSG00000072364	ENST00000378593	processed_transcript	KNOWN	None	17869	None	None	132232896	132269923	-1	None	AF5Q31, MCEF
5	AFF4	ENSG00000072364	ENST00000425658	protein_coding	NOVEL	None	17869	513	170	132232896	132269930	-1	None	AF5Q31, MCEF
5	AFF4	ENSG00000072364	ENST00000477369	retained_intron	KNOWN	None	17869	None	None	132233975	132263254	-1	None	AF5Q31, MCEF
5	AFF4	ENSG00000072364	ENST00000491831	processed_transcript	KNOWN	None	17869	None	None	132239553	132299206	-1	None	AF5Q31, MCEF
5	AFF4	ENSG00000072364	ENST00000465484	retained_intron	KNOWN	None	17869	None	None	132262393	132299205	-1	None	AF5Q31, MCEF
5	AFF4	ENSG00000072364	ENST00000421773	protein_coding	KNOWN	None	17869	445	147	132270312	132273432	-1	None	AF5Q31, MCEF
5	UTP15	ENSG00000164338	ENST00000513824	protein_coding	KNOWN	None	25758	196	64	72861268	72864257	1	None	FLJ12787, NET21, FLJ23637
5	UTP15	ENSG00000164338	ENST00000296792	protein_coding	KNOWN	CCDS34186	25758	1557	518	72861566	72877794	1	None	FLJ12787, NET21, FLJ23637
5	UTP15	ENSG00000164338	ENST00000510478	retained_intron	KNOWN	None	25758	None	None	72861568	72863502	1	None	FLJ12787, NET21, FLJ23637
5	UTP15	ENSG00000164338	ENST00000509005	protein_coding	PUTATIVE	None	25758	1637	544	72861568	72876339	1	None	FLJ12787, NET21, FLJ23637
5	UTP15	ENSG00000164338	ENST00000508686	protein_coding	KNOWN	None	25758	22	6	72861579	72863191	1	None	FLJ12787, NET21, FLJ23637
5	UTP15	ENSG00000164338	ENST00000508491	protein_coding	NOVEL	None	25758	1500	499	72861598	72876024	1	None	FLJ12787, NET21, FLJ23637
5	UTP15	ENSG00000164338	ENST00000512550	retained_intron	KNOWN	None	25758	None	None	72868314	72874241	1	None	FLJ12787, NET21, FLJ23637
5	UTP15	ENSG00000164338	ENST00000543251	protein_coding	KNOWN	None	25758	987	328	72861568	72876339	1	None	FLJ12787, NET21, FLJ23637
HSCHR6_MHC_SSTO	OR2B4P	ENSG00000232146	ENST00000429342	unprocessed_pseudogene	KNOWN	None	8239	None	None	29258570	29259512	1	None	hs6M1-22
HSCHR6_MHC_SSTO	None	ENSG00000257188	ENST00000547979	pseudogene	NOVEL	None	None	None	None	29267111	29267650	1	None	None
HSCHR6_MHC_SSTO	DDX6P1	ENSG00000227843	ENST00000421811	processed_pseudogene	KNOWN	None	13948	None	None	29297505	29298940	-1	DDX6P	DDX6-Lp, bA150A6.3
1	CFHR1	ENSG00000244414	ENST00000367424	protein_coding	NOVEL	None	4888	816	271	196788875	196801319	1	HFL1, CFHL1, CFHR1P, HFL2, CFHL1P	H36-1, FHR1, CFHL, H36-2
1	CFHR1	ENSG00000244414	ENST00000320493	protein_coding	KNOWN	CCDS1386	4888	993	330	196788887	196801319	1	HFL1, CFHL1, CFHR1P, HFL2, CFHL1P	H36-1, FHR1, CFHL, H36-2
1	CFHR1	ENSG00000244414	ENST00000498248	processed_transcript	KNOWN	None	4888	None	None	196788893	196797376	1	HFL1, CFHL1, CFHR1P, HFL2, CFHL1P	H36-1, FHR1, CFHL, H36-2
1	CFHR1	ENSG00000244414	ENST00000472961	processed_transcript	KNOWN	None	4888	None	None	196788952	196790332	1	HFL1, CFHL1, CFHR1P, HFL2, CFHL1P	H36-1, FHR1, CFHL, H36-2
1	CFHR1	ENSG00000244414	ENST00000468079	retained_intron	KNOWN	None	4888	None	None	196788995	196795156	1	HFL1, CFHL1, CFHR1P, HFL2, CFHL1P	H36-1, FHR1, CFHL, H36-2
1	CFHR1	ENSG00000244414	ENST00000480960	retained_intron	KNOWN	None	4888	None	None	196794354	196797297	1	HFL1, CFHL1, CFHR1P, HFL2, CFHL1P	H36-1, FHR1, CFHL, H36-2
X	TEX28P1	ENSG00000182242	ENST00000369932	protein_coding	KNOWN	None	33356	1233	410	153461812	153482755	-1	None	pTEX
HSCHR6_MHC_SSTO	OR12D1P	ENSG00000250294	ENST00000503083	unprocessed_pseudogene	KNOWN	None	8177	None	None	29384733	29385679	1	OR12D1P	hs6M1-19
17	SLC16A11	ENSG00000174326	ENST00000308009	protein_coding	KNOWN	CCDS11086	23093	1416	471	6944949	6947242	-1	None	FLJ90193, MCT11
17	SLC16A11	ENSG00000174326	ENST00000573338	retained_intron	KNOWN	None	23093	None	None	6944978	6946925	-1	None	FLJ90193, MCT11
17	SLC16A11	ENSG00000174326	ENST00000574600	protein_coding	PUTATIVE	None	23093	281	92	6946314	6947236	-1	None	FLJ90193, MCT11
17	SLC16A11	ENSG00000174326	ENST00000447225	protein_coding	KNOWN	None	23093	1320	439	6944949	6947242	-1	None	FLJ90193, MCT11
21	POLR2CP	ENSG00000228600	ENST00000453699	processed_pseudogene	KNOWN	None	9190	None	None	16129909	16130673	1	None	None
HSCHR6_MHC_SSTO	UBDP1	ENSG00000237369	ENST00000411984	unprocessed_pseudogene	KNOWN	None	18796	None	None	29432049	29437257	-1	None	dJ994E9.3
21	None	ENSG00000226751	ENST00000435315	lincRNA	KNOWN	None	None	None	None	16134031	16135411	1	None	None
17	METTL23	ENSG00000181038	ENST00000589977	protein_coding	PUTATIVE	None	26988	441	146	74722912	74729598	1	C17orf95	LOC124512
17	METTL23	ENSG00000181038	ENST00000591571	protein_coding	PUTATIVE	None	26988	240	79	74722921	74729680	1	C17orf95	LOC124512
17	METTL23	ENSG00000181038	ENST00000592849	protein_coding	KNOWN	None	26988	451	149	74722922	74729646	1	C17orf95	LOC124512
17	METTL23	ENSG00000181038	ENST00000586738	protein_coding	PUTATIVE	None	26988	417	138	74722925	74729948	1	C17orf95	LOC124512
17	METTL23	ENSG00000181038	ENST00000588783	protein_coding	PUTATIVE	None	26988	417	138	74722925	74730018	1	C17orf95	LOC124512
17	METTL23	ENSG00000181038	ENST00000588563	protein_coding	KNOWN	None	26988	530	175	74722932	74729725	1	C17orf95	LOC124512
17	METTL23	ENSG00000181038	ENST00000586752	protein_coding	KNOWN	CCDS59298	26988	372	123	74722933	74729820	1	C17orf95	LOC124512
17	METTL23	ENSG00000181038	ENST00000588302	protein_coding	PUTATIVE	None	26988	216	71	74722933	74729962	1	C17orf95	LOC124512
17	METTL23	ENSG00000181038	ENST00000590964	protein_coding	KNOWN	CCDS59298	26988	372	123	74722936	74729960	1	C17orf95	LOC124512
17	METTL23	ENSG00000181038	ENST00000341249	protein_coding	KNOWN	CCDS45787	26988	573	190	74722950	74730018	1	C17orf95	LOC124512
17	METTL23	ENSG00000181038	ENST00000588822	protein_coding	KNOWN	CCDS59298	26988	372	123	74722952	74729840	1	C17orf95	LOC124512
17	METTL23	ENSG00000181038	ENST00000586200	protein_coding	PUTATIVE	None	26988	216	71	74723047	74729768	1	C17orf95	LOC124512
17	METTL23	ENSG00000181038	ENST00000589581	retained_intron	KNOWN	None	26988	None	None	74725774	74729684	1	C17orf95	LOC124512
17	METTL23	ENSG00000181038	ENST00000588964	protein_coding	KNOWN	None	26988	170	55	74728738	74729423	1	C17orf95	LOC124512
17	MYO1C	ENSG00000197879	ENST00000359786	protein_coding	KNOWN	CCDS42226	7597	3192	1063	1367392	1396106	-1	None	myr2
17	MYO1C	ENSG00000197879	ENST00000438665	protein_coding	KNOWN	CCDS45562	7597	3135	1044	1367480	1389228	-1	None	myr2
17	MYO1C	ENSG00000197879	ENST00000575158	protein_coding	KNOWN	CCDS11003	7597	3087	1028	1367480	1389495	-1	None	myr2
17	MYO1C	ENSG00000197879	ENST00000545534	protein_coding	PUTATIVE	None	7597	3120	1039	1368707	1388661	-1	None	myr2
17	MYO1C	ENSG00000197879	ENST00000574341	retained_intron	KNOWN	None	7597	None	None	1370785	1371793	-1	None	myr2
17	MYO1C	ENSG00000197879	ENST00000574308	retained_intron	KNOWN	None	7597	None	None	1371517	1373513	-1	None	myr2
17	MYO1C	ENSG00000197879	ENST00000572615	retained_intron	KNOWN	None	7597	None	None	1372084	1373778	-1	None	myr2
17	MYO1C	ENSG00000197879	ENST00000575011	nonsense_mediated_decay	KNOWN	None	7597	196	64	1373534	1374402	-1	None	myr2
17	MYO1C	ENSG00000197879	ENST00000575864	retained_intron	KNOWN	None	7597	None	None	1373925	1375649	-1	None	myr2
17	MYO1C	ENSG00000197879	ENST00000571615	retained_intron	KNOWN	None	7597	None	None	1374428	1378225	-1	None	myr2
17	MYO1C	ENSG00000197879	ENST00000573961	retained_intron	KNOWN	None	7597	None	None	1380584	1381435	-1	None	myr2
17	MYO1C	ENSG00000197879	ENST00000573198	processed_transcript	KNOWN	None	7597	None	None	1381971	1384510	-1	None	myr2
17	MYO1C	ENSG00000197879	ENST00000571851	processed_transcript	KNOWN	None	7597	None	None	1382980	1384532	-1	None	myr2
17	MYO1C	ENSG00000197879	ENST00000570984	protein_coding	KNOWN	None	7597	801	266	1383821	1394963	-1	None	myr2
17	MYO1C	ENSG00000197879	ENST00000576822	processed_transcript	PUTATIVE	None	7597	None	None	1383901	1384503	-1	None	myr2
17	MYO1C	ENSG00000197879	ENST00000573853	protein_coding	KNOWN	None	7597	511	169	1385783	1390215	-1	None	myr2
17	MYO1C	ENSG00000197879	ENST00000574790	protein_coding	KNOWN	None	7597	494	163	1385800	1395334	-1	None	myr2
17	MYO1C	ENSG00000197879	ENST00000570490	protein_coding	PUTATIVE	None	7597	506	167	1385827	1387951	-1	None	myr2
17	MYO1C	ENSG00000197879	ENST00000575335	protein_coding	KNOWN	None	7597	413	136	1386183	1394531	-1	None	myr2
17	MYO1C	ENSG00000197879	ENST00000571715	protein_coding	KNOWN	None	7597	402	133	1386194	1390354	-1	None	myr2
17	MYO1C	ENSG00000197879	ENST00000361007	protein_coding	KNOWN	CCDS11003	7597	3087	1028	1367482	1394972	-1	None	myr2
21	GAPDHP16	ENSG00000225502	ENST00000448152	processed_pseudogene	KNOWN	None	23768	None	None	16146622	16147583	1	GAPDP16	None
11	STT3A	ENSG00000134910	ENST00000527606	protein_coding	PUTATIVE	None	6172	358	118	125461607	125472784	1	ITM1	TMC, MGC9042, STT3-A
11	STT3A	ENSG00000134910	ENST00000392708	protein_coding	KNOWN	CCDS8458	6172	2118	705	125462690	125492986	1	ITM1	TMC, MGC9042, STT3-A
11	STT3A	ENSG00000134910	ENST00000534472	retained_intron	KNOWN	None	6172	None	None	125462714	125479793	1	ITM1	TMC, MGC9042, STT3-A
11	STT3A	ENSG00000134910	ENST00000529196	protein_coding	PUTATIVE	CCDS8458	6172	2118	705	125462731	125490783	1	ITM1	TMC, MGC9042, STT3-A
11	STT3A	ENSG00000134910	ENST00000531491	protein_coding	PUTATIVE	None	6172	1842	613	125462762	125490783	1	ITM1	TMC, MGC9042, STT3-A
11	STT3A	ENSG00000134910	ENST00000525652	protein_coding	PUTATIVE	None	6172	308	101	125463064	125472734	1	ITM1	TMC, MGC9042, STT3-A
11	STT3A	ENSG00000134910	ENST00000529886	protein_coding	PUTATIVE	None	6172	353	116	125464758	125472779	1	ITM1	TMC, MGC9042, STT3-A
11	STT3A	ENSG00000134910	ENST00000526213	retained_intron	KNOWN	None	6172	None	None	125472652	125476360	1	ITM1	TMC, MGC9042, STT3-A
11	STT3A	ENSG00000134910	ENST00000527456	processed_transcript	KNOWN	None	6172	None	None	125473272	125476360	1	ITM1	TMC, MGC9042, STT3-A
11	STT3A	ENSG00000134910	ENST00000525431	retained_intron	KNOWN	None	6172	None	None	125476105	125478299	1	ITM1	TMC, MGC9042, STT3-A
11	STT3A	ENSG00000134910	ENST00000526726	protein_coding	PUTATIVE	None	6172	582	193	125476308	125482965	1	ITM1	TMC, MGC9042, STT3-A
11	STT3A	ENSG00000134910	ENST00000531001	processed_transcript	KNOWN	None	6172	None	None	125478043	125479631	1	ITM1	TMC, MGC9042, STT3-A
11	STT3A	ENSG00000134910	ENST00000524639	retained_intron	KNOWN	None	6172	None	None	125479314	125483046	1	ITM1	TMC, MGC9042, STT3-A
11	STT3A	ENSG00000134910	ENST00000531599	retained_intron	KNOWN	None	6172	None	None	125480604	125483035	1	ITM1	TMC, MGC9042, STT3-A
11	STT3A	ENSG00000134910	ENST00000525946	retained_intron	KNOWN	None	6172	None	None	125483579	125491121	1	ITM1	TMC, MGC9042, STT3-A
11	STT3A	ENSG00000134910	ENST00000526364	processed_transcript	KNOWN	None	6172	None	None	125488413	125495110	1	ITM1	TMC, MGC9042, STT3-A
16	FBXL19	ENSG00000099364	ENST00000562798	protein_coding	KNOWN	None	25300	177	58	30934376	30937252	1	None	DKFZp434K0410, Fbl19, JHDM1C
16	FBXL19	ENSG00000099364	ENST00000471231	protein_coding	PUTATIVE	None	25300	1149	382	30934392	30960097	1	None	DKFZp434K0410, Fbl19, JHDM1C
16	FBXL19	ENSG00000099364	ENST00000338343	protein_coding	KNOWN	None	25300	2025	674	30935418	30960104	1	None	DKFZp434K0410, Fbl19, JHDM1C
16	FBXL19	ENSG00000099364	ENST00000562319	protein_coding	KNOWN	None	25300	2025	674	30935896	30958770	1	None	DKFZp434K0410, Fbl19, JHDM1C
16	FBXL19	ENSG00000099364	ENST00000565690	protein_coding	NOVEL	None	25300	1677	558	30936971	30959339	1	None	DKFZp434K0410, Fbl19, JHDM1C
16	FBXL19	ENSG00000099364	ENST00000427128	protein_coding	NOVEL	None	25300	1759	585	30937213	30960104	1	None	DKFZp434K0410, Fbl19, JHDM1C
16	FBXL19	ENSG00000099364	ENST00000566320	protein_coding	PUTATIVE	None	25300	416	137	30953696	30959333	1	None	DKFZp434K0410, Fbl19, JHDM1C
16	FBXL19	ENSG00000099364	ENST00000565939	protein_coding	NOVEL	None	25300	368	121	30953753	30958972	1	None	DKFZp434K0410, Fbl19, JHDM1C
16	FBXL19	ENSG00000099364	ENST00000380310	protein_coding	KNOWN	CCDS45465	25300	2085	694	30935896	30960104	1	None	DKFZp434K0410, Fbl19, JHDM1C
21	None	ENSG00000235609	ENST00000593619	lincRNA	KNOWN	None	None	None	None	16193529	16194127	-1	None	None
21	None	ENSG00000235609	ENST00000432230	lincRNA	KNOWN	None	None	None	None	16195009	16230029	-1	None	None
21	None	ENSG00000235609	ENST00000412426	lincRNA	KNOWN	None	None	None	None	16209503	16254231	-1	None	None
21	None	ENSG00000235609	ENST00000418954	lincRNA	KNOWN	None	None	None	None	16225292	16254296	-1	None	None
12	MLEC	ENSG00000110917	ENST00000228506	protein_coding	KNOWN	CCDS9206	28973	879	292	121124672	121139667	1	KIAA0152	None
12	MLEC	ENSG00000110917	ENST00000412616	protein_coding	NOVEL	None	28973	654	217	121125048	121134493	1	KIAA0152	None
12	MLEC	ENSG00000110917	ENST00000545525	protein_coding	PUTATIVE	None	28973	438	145	121131797	121134156	1	KIAA0152	None
12	MLEC	ENSG00000110917	ENST00000535656	protein_coding	PUTATIVE	None	28973	520	172	121131970	121134381	1	KIAA0152	None
12	MLEC	ENSG00000110917	ENST00000535413	processed_transcript	PUTATIVE	None	28973	None	None	121134206	121138744	1	KIAA0152	None
11	ATL3	ENSG00000184743	ENST00000398868	protein_coding	KNOWN	CCDS41663	24526	1626	541	63391559	63439084	-1	None	DKFZP564J0863
11	ATL3	ENSG00000184743	ENST00000538786	protein_coding	PUTATIVE	None	24526	1572	523	63396725	63439381	-1	None	DKFZP564J0863
11	ATL3	ENSG00000184743	ENST00000540699	protein_coding	NOVEL	None	24526	508	168	63426286	63439393	-1	None	DKFZP564J0863
11	ATL3	ENSG00000184743	ENST00000535789	processed_transcript	KNOWN	None	24526	None	None	63426510	63439218	-1	None	DKFZP564J0863
11	ATL3	ENSG00000184743	ENST00000332645	protein_coding	KNOWN	None	24526	1707	568	63391560	63439187	-1	None	DKFZP564J0863
16	NRN1L	ENSG00000188038	ENST00000339176	protein_coding	KNOWN	CCDS10850	29811	498	165	67918708	67920275	1	None	UNQ2446, MRCC2446
16	NRN1L	ENSG00000188038	ENST00000576758	protein_coding	PUTATIVE	None	29811	266	87	67918811	67922758	1	None	UNQ2446, MRCC2446
16	NRN1L	ENSG00000188038	ENST00000576147	protein_coding	PUTATIVE	None	29811	264	87	67919472	67920271	1	None	UNQ2446, MRCC2446
4	THAP9	ENSG00000168152	ENST00000514440	nonsense_mediated_decay	KNOWN	None	23192	93	30	83821837	83825977	1	None	FLJ34093
4	THAP9	ENSG00000168152	ENST00000514244	nonsense_mediated_decay	KNOWN	None	23192	309	102	83821856	83829068	1	None	FLJ34093
4	THAP9	ENSG00000168152	ENST00000302236	protein_coding	KNOWN	CCDS3598	23192	2712	903	83821905	83841122	1	None	FLJ34093
4	THAP9	ENSG00000168152	ENST00000509353	nonsense_mediated_decay	KNOWN	None	23192	330	109	83821919	83828944	1	None	FLJ34093
4	THAP9	ENSG00000168152	ENST00000505901	nonsense_mediated_decay	KNOWN	None	23192	309	102	83821922	83840613	1	None	FLJ34093
4	THAP9	ENSG00000168152	ENST00000506208	nonsense_mediated_decay	KNOWN	None	23192	366	121	83827579	83838193	1	None	FLJ34093
1	YARS	ENSG00000134684	ENST00000469100	processed_transcript	KNOWN	None	12840	None	None	33240840	33247704	-1	None	YTS, YRS, tyrRS
1	YARS	ENSG00000134684	ENST00000373477	protein_coding	KNOWN	CCDS368	12840	1587	528	33240840	33283754	-1	None	YTS, YRS, tyrRS
1	YARS	ENSG00000134684	ENST00000490826	processed_transcript	KNOWN	None	12840	None	None	33240845	33246312	-1	None	YTS, YRS, tyrRS
1	YARS	ENSG00000134684	ENST00000487404	processed_transcript	KNOWN	None	12840	None	None	33241282	33249356	-1	None	YTS, YRS, tyrRS
1	YARS	ENSG00000134684	ENST00000478828	processed_transcript	KNOWN	None	12840	None	None	33241592	33252335	-1	None	YTS, YRS, tyrRS
1	YARS	ENSG00000134684	ENST00000481895	processed_transcript	KNOWN	None	12840	None	None	33251971	33282918	-1	None	YTS, YRS, tyrRS
1	YARS	ENSG00000134684	ENST00000466052	processed_transcript	KNOWN	None	12840	None	None	33252541	33263815	-1	None	YTS, YRS, tyrRS
1	YARS	ENSG00000134684	ENST00000470377	processed_transcript	KNOWN	None	12840	None	None	33256254	33272181	-1	None	YTS, YRS, tyrRS
1	YARS	ENSG00000134684	ENST00000472692	processed_transcript	KNOWN	None	12840	None	None	33276332	33277248	-1	None	YTS, YRS, tyrRS
1	CFHR2	ENSG00000080910	ENST00000367415	protein_coding	KNOWN	CCDS30959	4890	813	270	196912897	196928345	1	HFL3, CFHL2	FHR2
1	CFHR2	ENSG00000080910	ENST00000485647	processed_transcript	KNOWN	None	4890	None	None	196912902	196920157	1	HFL3, CFHL2	FHR2
1	CFHR2	ENSG00000080910	ENST00000476712	processed_transcript	KNOWN	None	4890	None	None	196912902	196928178	1	HFL3, CFHL2	FHR2
1	CFHR2	ENSG00000080910	ENST00000489703	processed_transcript	KNOWN	None	4890	None	None	196912947	196920069	1	HFL3, CFHL2	FHR2
1	CFHR2	ENSG00000080910	ENST00000496448	processed_transcript	KNOWN	None	4890	None	None	196912957	196928349	1	HFL3, CFHL2	FHR2
1	CFHR2	ENSG00000080910	ENST00000473386	processed_transcript	KNOWN	None	4890	None	None	196912988	196928345	1	HFL3, CFHL2	FHR2
1	CFHR2	ENSG00000080910	ENST00000367421	protein_coding	KNOWN	None	4890	813	270	196788898	196928356	1	HFL3, CFHL2	FHR2
17	None	ENSG00000267168	ENST00000587459	protein_coding	PUTATIVE	None	None	303	100	74729060	74734604	1	None	None
16	PSKH1	ENSG00000159792	ENST00000570631	retained_intron	KNOWN	None	9529	None	None	67927175	67943991	1	None	None
16	PSKH1	ENSG00000159792	ENST00000291041	protein_coding	KNOWN	CCDS10851	9529	1275	424	67927175	67963581	1	None	None
16	PSKH1	ENSG00000159792	ENST00000575198	processed_transcript	KNOWN	None	9529	None	None	67927204	67937048	1	None	None
19	MRPS12	ENSG00000128626	ENST00000308018	protein_coding	KNOWN	CCDS12525	10380	417	138	39421188	39423660	1	RPMS12	RPS12, RPSM12
19	MRPS12	ENSG00000128626	ENST00000598734	retained_intron	KNOWN	None	10380	None	None	39421584	39422501	1	RPMS12	RPS12, RPSM12
19	MRPS12	ENSG00000128626	ENST00000407800	protein_coding	KNOWN	CCDS12525	10380	417	138	39421594	39423802	1	RPMS12	RPS12, RPSM12
19	MRPS12	ENSG00000128626	ENST00000402029	protein_coding	KNOWN	CCDS12525	10380	417	138	39421639	39423660	1	RPMS12	RPS12, RPSM12
HSCHR6_MHC_DBB	STK19	ENSG00000226257	ENST00000497732	retained_intron	KNOWN	None	11398	None	None	31921138	31928971	1	None	D6S60, G11, RP1
HSCHR6_MHC_DBB	STK19	ENSG00000226257	ENST00000426802	protein_coding	KNOWN	None	11398	1095	364	31921832	31931407	1	None	D6S60, G11, RP1
HSCHR6_MHC_DBB	STK19	ENSG00000226257	ENST00000452688	protein_coding	KNOWN	None	11398	1107	368	31921907	31931407	1	None	D6S60, G11, RP1
HSCHR6_MHC_DBB	STK19	ENSG00000226257	ENST00000466867	retained_intron	KNOWN	None	11398	None	None	31922303	31931407	1	None	D6S60, G11, RP1
HSCHR6_MHC_DBB	STK19	ENSG00000226257	ENST00000478799	processed_transcript	PUTATIVE	None	11398	None	None	31922316	31931407	1	None	D6S60, G11, RP1
HSCHR6_MHC_DBB	STK19	ENSG00000226257	ENST00000520138	nonsense_mediated_decay	KNOWN	None	11398	211	69	31922344	31932782	1	None	D6S60, G11, RP1
HSCHR6_MHC_DBB	STK19	ENSG00000226257	ENST00000486358	processed_transcript	KNOWN	None	11398	None	None	31922351	31931407	1	None	D6S60, G11, RP1
HSCHR6_MHC_DBB	STK19	ENSG00000226257	ENST00000468899	retained_intron	KNOWN	None	11398	None	None	31922354	31923381	1	None	D6S60, G11, RP1
HSCHR6_MHC_DBB	STK19	ENSG00000226257	ENST00000460232	processed_transcript	KNOWN	None	11398	None	None	31922518	31931407	1	None	D6S60, G11, RP1
HSCHR6_MHC_DBB	STK19	ENSG00000226257	ENST00000464694	retained_intron	KNOWN	None	11398	None	None	31922541	31929823	1	None	D6S60, G11, RP1
HSCHR6_MHC_DBB	STK19	ENSG00000226257	ENST00000473747	processed_transcript	KNOWN	None	11398	None	None	31922545	31930762	1	None	D6S60, G11, RP1
HSCHR6_MHC_DBB	STK19	ENSG00000226257	ENST00000447249	retained_intron	KNOWN	None	11398	None	None	31930352	31931407	1	None	D6S60, G11, RP1
HSCHR6_MHC_DBB	STK19	ENSG00000226257	ENST00000549310	protein_coding	KNOWN	None	11398	966	321	31921138	31931406	1	None	D6S60, G11, RP1
1	PPM1J	ENSG00000155367	ENST00000471106	nonsense_mediated_decay	KNOWN	None	20785	896	297	113252616	113257877	-1	None	FLJ35951, MGC19531, DKFZp434P1514, PP2Czeta, PPP2CZ
1	PPM1J	ENSG00000155367	ENST00000309276	protein_coding	KNOWN	CCDS855	20785	1518	505	113252616	113258099	-1	None	FLJ35951, MGC19531, DKFZp434P1514, PP2Czeta, PPP2CZ
1	PPM1J	ENSG00000155367	ENST00000464951	protein_coding	PUTATIVE	None	20785	900	299	113252620	113257913	-1	None	FLJ35951, MGC19531, DKFZp434P1514, PP2Czeta, PPP2CZ
1	PPM1J	ENSG00000155367	ENST00000482367	nonsense_mediated_decay	KNOWN	None	20785	453	150	113254615	113257925	-1	None	FLJ35951, MGC19531, DKFZp434P1514, PP2Czeta, PPP2CZ
1	PPM1J	ENSG00000155367	ENST00000486709	retained_intron	KNOWN	None	20785	None	None	113256856	113257950	-1	None	FLJ35951, MGC19531, DKFZp434P1514, PP2Czeta, PPP2CZ
1	PPM1J	ENSG00000155367	ENST00000359994	protein_coding	KNOWN	None	20785	900	299	113252625	113255593	-1	None	FLJ35951, MGC19531, DKFZp434P1514, PP2Czeta, PPP2CZ
15	C2CD4A	ENSG00000198535	ENST00000355522	protein_coding	KNOWN	CCDS32258	33627	1110	369	62359176	62363116	1	FAM148A	NLF1
13	ZC3H13	ENSG00000123200	ENST00000242848	protein_coding	KNOWN	None	20368	5007	1668	46528600	46626881	-1	KIAA0853	DKFZp434D1812
13	ZC3H13	ENSG00000123200	ENST00000282007	protein_coding	KNOWN	CCDS9400	20368	4695	1564	46536314	46626894	-1	KIAA0853	DKFZp434D1812
13	ZC3H13	ENSG00000123200	ENST00000470308	processed_transcript	KNOWN	None	20368	None	None	46575298	46585690	-1	KIAA0853	DKFZp434D1812
13	ZC3H13	ENSG00000123200	ENST00000464597	processed_transcript	PUTATIVE	None	20368	None	None	46584285	46585690	-1	KIAA0853	DKFZp434D1812
13	ZC3H13	ENSG00000123200	ENST00000428921	protein_coding	KNOWN	None	20368	346	114	46616292	46626820	-1	KIAA0853	DKFZp434D1812
13	ZC3H13	ENSG00000123200	ENST00000378921	protein_coding	KNOWN	None	20368	1875	624	46528602	46543805	-1	KIAA0853	DKFZp434D1812
HSCHR6_MHC_SSTO	POU5F1	ENSG00000237582	ENST00000437747	protein_coding	KNOWN	None	9221	1083	360	31126193	31132565	-1	OTF3	OCT3, Oct4, MGC22487
HSCHR6_MHC_SSTO	POU5F1	ENSG00000237582	ENST00000429314	protein_coding	KNOWN	None	9221	798	265	31126193	31128134	-1	OTF3	OCT3, Oct4, MGC22487
HSCHR6_MHC_SSTO	POU5F1	ENSG00000237582	ENST00000495227	processed_transcript	KNOWN	None	9221	None	None	31126193	31127150	-1	OTF3	OCT3, Oct4, MGC22487
HSCHR6_MHC_SSTO	POU5F1	ENSG00000237582	ENST00000483045	retained_intron	KNOWN	None	9221	None	None	31127558	31132530	-1	OTF3	OCT3, Oct4, MGC22487
HSCHR6_MHC_SSTO	POU5F1	ENSG00000237582	ENST00000547981	protein_coding	KNOWN	None	9221	369	122	31121263	31132492	-1	OTF3	OCT3, Oct4, MGC22487
HSCHR6_MHC_SSTO	POU5F1	ENSG00000237582	ENST00000548685	protein_coding	KNOWN	None	9221	558	185	31126194	31132546	-1	OTF3	OCT3, Oct4, MGC22487
8	TRIQK	ENSG00000205133	ENST00000521988	protein_coding	KNOWN	CCDS55261	27828	261	86	93895758	93978373	-1	C8orf83	DKFZp779L1068, PRO0845, LOC286144
8	TRIQK	ENSG00000205133	ENST00000518748	protein_coding	KNOWN	CCDS55261	27828	261	86	93895863	93978372	-1	C8orf83	DKFZp779L1068, PRO0845, LOC286144
8	TRIQK	ENSG00000205133	ENST00000523580	protein_coding	PUTATIVE	None	27828	165	54	93897548	93978351	-1	C8orf83	DKFZp779L1068, PRO0845, LOC286144
8	TRIQK	ENSG00000205133	ENST00000520686	protein_coding	KNOWN	CCDS55261	27828	261	86	93897548	94029901	-1	C8orf83	DKFZp779L1068, PRO0845, LOC286144
8	TRIQK	ENSG00000205133	ENST00000520430	protein_coding	KNOWN	CCDS55261	27828	261	86	93897563	93978339	-1	C8orf83	DKFZp779L1068, PRO0845, LOC286144
8	TRIQK	ENSG00000205133	ENST00000517858	protein_coding	PUTATIVE	None	27828	165	54	93897577	93978315	-1	C8orf83	DKFZp779L1068, PRO0845, LOC286144
8	TRIQK	ENSG00000205133	ENST00000517540	processed_transcript	KNOWN	None	27828	None	None	93897579	93978357	-1	C8orf83	DKFZp779L1068, PRO0845, LOC286144
8	TRIQK	ENSG00000205133	ENST00000378861	protein_coding	KNOWN	CCDS55261	27828	261	86	93897942	93978326	-1	C8orf83	DKFZp779L1068, PRO0845, LOC286144
8	TRIQK	ENSG00000205133	ENST00000524037	protein_coding	PUTATIVE	None	27828	165	54	93898461	93978337	-1	C8orf83	DKFZp779L1068, PRO0845, LOC286144
8	TRIQK	ENSG00000205133	ENST00000521617	protein_coding	KNOWN	CCDS55261	27828	261	86	93898463	93978342	-1	C8orf83	DKFZp779L1068, PRO0845, LOC286144
8	TRIQK	ENSG00000205133	ENST00000518400	processed_transcript	KNOWN	None	27828	None	None	93898618	93972762	-1	C8orf83	DKFZp779L1068, PRO0845, LOC286144
8	TRIQK	ENSG00000205133	ENST00000520384	processed_transcript	KNOWN	None	27828	None	None	93898653	93978302	-1	C8orf83	DKFZp779L1068, PRO0845, LOC286144
8	TRIQK	ENSG00000205133	ENST00000519069	protein_coding	PUTATIVE	None	27828	165	54	93898762	93978372	-1	C8orf83	DKFZp779L1068, PRO0845, LOC286144
8	TRIQK	ENSG00000205133	ENST00000524107	protein_coding	KNOWN	CCDS55261	27828	261	86	93898783	93978264	-1	C8orf83	DKFZp779L1068, PRO0845, LOC286144
8	TRIQK	ENSG00000205133	ENST00000519969	protein_coding	KNOWN	CCDS55261	27828	261	86	93898821	93977817	-1	C8orf83	DKFZp779L1068, PRO0845, LOC286144
8	TRIQK	ENSG00000205133	ENST00000517751	protein_coding	KNOWN	None	27828	225	74	93898886	93978216	-1	C8orf83	DKFZp779L1068, PRO0845, LOC286144
8	TRIQK	ENSG00000205133	ENST00000522925	protein_coding	PUTATIVE	None	27828	242	79	93898891	93978371	-1	C8orf83	DKFZp779L1068, PRO0845, LOC286144
8	TRIQK	ENSG00000205133	ENST00000522903	protein_coding	KNOWN	None	27828	23	6	93929195	93978371	-1	C8orf83	DKFZp779L1068, PRO0845, LOC286144
8	TRIQK	ENSG00000205133	ENST00000523375	processed_transcript	PUTATIVE	None	27828	None	None	93934482	93978372	-1	C8orf83	DKFZp779L1068, PRO0845, LOC286144
8	TRIQK	ENSG00000205133	ENST00000524260	retained_intron	KNOWN	None	27828	None	None	93965643	93977716	-1	C8orf83	DKFZp779L1068, PRO0845, LOC286144
8	TRIQK	ENSG00000205133	ENST00000523060	retained_intron	KNOWN	None	27828	None	None	93966311	93978302	-1	C8orf83	DKFZp779L1068, PRO0845, LOC286144
8	TRIQK	ENSG00000205133	ENST00000519792	processed_transcript	PUTATIVE	None	27828	None	None	93975705	93978341	-1	C8orf83	DKFZp779L1068, PRO0845, LOC286144
8	TRIQK	ENSG00000205133	ENST00000537541	protein_coding	KNOWN	CCDS55261	27828	261	86	93895760	93978372	-1	C8orf83	DKFZp779L1068, PRO0845, LOC286144
19	PPP2R1A	ENSG00000105568	ENST00000322088	protein_coding	KNOWN	CCDS12849	9302	1770	589	52693292	52730687	1	None	PR65A, PP2A-Aalpha
19	PPP2R1A	ENSG00000105568	ENST00000490868	nonsense_mediated_decay	KNOWN	None	9302	117	38	52693301	52714736	1	None	PR65A, PP2A-Aalpha
19	PPP2R1A	ENSG00000105568	ENST00000454220	protein_coding	PUTATIVE	None	9302	1187	394	52693304	52719855	1	None	PR65A, PP2A-Aalpha
19	PPP2R1A	ENSG00000105568	ENST00000477989	protein_coding	PUTATIVE	None	9302	201	66	52693344	52694657	1	None	PR65A, PP2A-Aalpha
19	PPP2R1A	ENSG00000105568	ENST00000468280	retained_intron	KNOWN	None	9302	None	None	52693367	52714947	1	None	PR65A, PP2A-Aalpha
19	PPP2R1A	ENSG00000105568	ENST00000462990	protein_coding	PUTATIVE	None	9302	1233	410	52704346	52729670	1	None	PR65A, PP2A-Aalpha
19	PPP2R1A	ENSG00000105568	ENST00000495876	processed_transcript	KNOWN	None	9302	None	None	52704434	52714549	1	None	PR65A, PP2A-Aalpha
19	PPP2R1A	ENSG00000105568	ENST00000473455	processed_transcript	KNOWN	None	9302	None	None	52705020	52715951	1	None	PR65A, PP2A-Aalpha
19	PPP2R1A	ENSG00000105568	ENST00000462047	retained_intron	KNOWN	None	9302	None	None	52715745	52719094	1	None	PR65A, PP2A-Aalpha
19	PPP2R1A	ENSG00000105568	ENST00000473820	retained_intron	KNOWN	None	9302	None	None	52716083	52722987	1	None	PR65A, PP2A-Aalpha
19	PPP2R1A	ENSG00000105568	ENST00000391791	protein_coding	PUTATIVE	None	9302	397	131	52724236	52729654	1	None	PR65A, PP2A-Aalpha
19	PPP2R1A	ENSG00000105568	ENST00000444322	protein_coding	KNOWN	None	9302	1605	534	52693330	52729489	1	None	PR65A, PP2A-Aalpha
HSCHR6_MHC_MANN	MICB	ENSG00000231372	ENST00000428059	protein_coding	KNOWN	None	7091	1082	359	31512918	31518423	1	None	PERB11.2
HSCHR6_MHC_MANN	MICB	ENSG00000231372	ENST00000456351	protein_coding	KNOWN	None	7091	953	316	31512918	31518423	1	None	PERB11.2
HSCHR6_MHC_MANN	MICB	ENSG00000231372	ENST00000490718	retained_intron	KNOWN	None	7091	None	None	31513236	31514832	1	None	PERB11.2
X	OPN1MW2	ENSG00000166160	ENST00000369929	protein_coding	KNOWN	CCDS35447	26952	1095	364	153485225	153498755	1	None	None
X	OPN1MW2	ENSG00000166160	ENST00000488220	processed_transcript	KNOWN	None	26952	None	None	153485266	153496120	1	None	None
X	OPN1MW2	ENSG00000166160	ENST00000430419	protein_coding	NOVEL	None	26952	493	163	153492665	153498746	1	None	None
11	OR56B1	ENSG00000181023	ENST00000317121	protein_coding	KNOWN	CCDS31395	15245	975	324	5757681	5758768	1	OR56B1P	None
11	OR52N4	ENSG00000181074	ENST00000317254	protein_coding	KNOWN	CCDS44528	15230	966	321	5775923	5776959	1	None	None
1	CFHR4	ENSG00000134365	ENST00000367418	protein_coding	KNOWN	None	16979	996	331	196857212	196887763	1	CFHL4	FHR-4, FHR4
1	CFHR4	ENSG00000134365	ENST00000251424	protein_coding	KNOWN	CCDS41451	16979	996	331	196857212	196887763	1	CFHL4	FHR-4, FHR4
1	CFHR4	ENSG00000134365	ENST00000367416	protein_coding	KNOWN	CCDS55671	16979	1734	577	196857144	196887843	1	CFHL4	FHR-4, FHR4
2	PKP4	ENSG00000144283	ENST00000426248	nonsense_mediated_decay	KNOWN	None	9026	651	216	159313476	159537564	1	None	p0071
2	PKP4	ENSG00000144283	ENST00000389757	protein_coding	KNOWN	CCDS33306	9026	3450	1149	159313611	159539391	1	None	p0071
2	PKP4	ENSG00000144283	ENST00000389759	protein_coding	KNOWN	CCDS33305	9026	3579	1192	159313624	159537941	1	None	p0071
2	PKP4	ENSG00000144283	ENST00000457109	nonsense_mediated_decay	KNOWN	None	9026	162	53	159313626	159477534	1	None	p0071
2	PKP4	ENSG00000144283	ENST00000479398	processed_transcript	KNOWN	None	9026	None	None	159313645	159314843	1	None	p0071
2	PKP4	ENSG00000144283	ENST00000452162	nonsense_mediated_decay	KNOWN	None	9026	141	46	159313645	159519578	1	None	p0071
2	PKP4	ENSG00000144283	ENST00000411900	nonsense_mediated_decay	KNOWN	None	9026	288	95	159313648	159445462	1	None	p0071
2	PKP4	ENSG00000144283	ENST00000421462	nonsense_mediated_decay	KNOWN	None	9026	651	216	159313967	159519515	1	None	p0071
2	PKP4	ENSG00000144283	ENST00000462335	processed_transcript	KNOWN	None	9026	None	None	159314705	159477908	1	None	p0071
2	PKP4	ENSG00000144283	ENST00000481115	nonsense_mediated_decay	KNOWN	None	9026	500	165	159433853	159488444	1	None	p0071
2	PKP4	ENSG00000144283	ENST00000494945	processed_transcript	KNOWN	None	9026	None	None	159488986	159497271	1	None	p0071
2	PKP4	ENSG00000144283	ENST00000492496	retained_intron	KNOWN	None	9026	None	None	159499032	159518276	1	None	p0071
2	PKP4	ENSG00000144283	ENST00000480171	retained_intron	KNOWN	None	9026	None	None	159518754	159537938	1	None	p0071
2	PKP4	ENSG00000144283	ENST00000495123	processed_transcript	KNOWN	None	9026	None	None	159519502	159525818	1	None	p0071
2	PKP4	ENSG00000144283	ENST00000483881	retained_intron	KNOWN	None	9026	None	None	159519570	159523171	1	None	p0071
2	PKP4	ENSG00000144283	ENST00000486254	retained_intron	KNOWN	None	9026	None	None	159525682	159533867	1	None	p0071
6	RUNX2	ENSG00000124813	ENST00000483377	nonsense_mediated_decay	KNOWN	None	10472	114	37	45295894	45514946	1	CCD, CBFA1, CCD1	AML3, PEBP2A1, PEBP2aA1
6	RUNX2	ENSG00000124813	ENST00000483243	processed_transcript	KNOWN	None	10472	None	None	45296060	45339792	1	CCD, CBFA1, CCD1	AML3, PEBP2A1, PEBP2aA1
6	RUNX2	ENSG00000124813	ENST00000465038	protein_coding	NOVEL	CCDS43467	10472	1566	521	45296060	45515042	1	CCD, CBFA1, CCD1	AML3, PEBP2A1, PEBP2aA1
6	RUNX2	ENSG00000124813	ENST00000371438	protein_coding	KNOWN	CCDS43467	10472	1566	521	45296106	45518816	1	CCD, CBFA1, CCD1	AML3, PEBP2A1, PEBP2aA1
6	RUNX2	ENSG00000124813	ENST00000371436	protein_coding	KNOWN	CCDS43468	10472	1500	499	45296464	45515130	1	CCD, CBFA1, CCD1	AML3, PEBP2A1, PEBP2aA1
6	RUNX2	ENSG00000124813	ENST00000576263	protein_coding	PUTATIVE	None	10472	1629	542	45296464	45632086	1	CCD, CBFA1, CCD1	AML3, PEBP2A1, PEBP2aA1
6	RUNX2	ENSG00000124813	ENST00000473041	processed_transcript	KNOWN	None	10472	None	None	45329310	45339792	1	CCD, CBFA1, CCD1	AML3, PEBP2A1, PEBP2aA1
6	RUNX2	ENSG00000124813	ENST00000478660	nonsense_mediated_decay	KNOWN	None	10472	831	276	45389773	45631609	1	CCD, CBFA1, CCD1	AML3, PEBP2A1, PEBP2aA1
6	RUNX2	ENSG00000124813	ENST00000359524	protein_coding	KNOWN	CCDS4913	10472	1524	507	45390222	45518816	1	CCD, CBFA1, CCD1	AML3, PEBP2A1, PEBP2aA1
6	RUNX2	ENSG00000124813	ENST00000352853	protein_coding	KNOWN	None	10472	1770	589	45296060	45515042	1	CCD, CBFA1, CCD1	AML3, PEBP2A1, PEBP2aA1
6	RUNX2	ENSG00000124813	ENST00000541979	protein_coding	KNOWN	None	10472	1704	567	45296060	45515042	1	CCD, CBFA1, CCD1	AML3, PEBP2A1, PEBP2aA1
6	RUNX2	ENSG00000124813	ENST00000371432	protein_coding	KNOWN	None	10472	1458	485	45389914	45518818	1	CCD, CBFA1, CCD1	AML3, PEBP2A1, PEBP2aA1
17	SRSF2	ENSG00000161547	ENST00000392485	protein_coding	KNOWN	CCDS11749	10783	666	221	74730197	74733415	-1	SFRS2	SC-35, SC35, PR264, SFRS2A
17	SRSF2	ENSG00000161547	ENST00000359995	protein_coding	KNOWN	CCDS11749	10783	666	221	74730201	74733456	-1	SFRS2	SC-35, SC35, PR264, SFRS2A
17	SRSF2	ENSG00000161547	ENST00000585202	nonsense_mediated_decay	KNOWN	CCDS11749	10783	666	221	74730205	74733390	-1	SFRS2	SC-35, SC35, PR264, SFRS2A
17	SRSF2	ENSG00000161547	ENST00000582449	retained_intron	KNOWN	None	10783	None	None	74730229	74732637	-1	SFRS2	SC-35, SC35, PR264, SFRS2A
17	SRSF2	ENSG00000161547	ENST00000586778	retained_intron	KNOWN	None	10783	None	None	74730245	74731743	-1	SFRS2	SC-35, SC35, PR264, SFRS2A
17	SRSF2	ENSG00000161547	ENST00000452355	nonsense_mediated_decay	KNOWN	CCDS11749	10783	666	221	74730334	74733413	-1	SFRS2	SC-35, SC35, PR264, SFRS2A
17	SRSF2	ENSG00000161547	ENST00000589919	retained_intron	KNOWN	None	10783	None	None	74730385	74732090	-1	SFRS2	SC-35, SC35, PR264, SFRS2A
17	SRSF2	ENSG00000161547	ENST00000508921	protein_coding	NOVEL	None	10783	630	209	74730659	74733413	-1	SFRS2	SC-35, SC35, PR264, SFRS2A
17	SRSF2	ENSG00000161547	ENST00000592676	retained_intron	KNOWN	None	10783	None	None	74731219	74732236	-1	SFRS2	SC-35, SC35, PR264, SFRS2A
17	SRSF2	ENSG00000161547	ENST00000583836	protein_coding	PUTATIVE	None	10783	390	129	74732462	74733413	-1	SFRS2	SC-35, SC35, PR264, SFRS2A
17	SRSF2	ENSG00000161547	ENST00000358156	protein_coding	PUTATIVE	None	10783	401	132	74732487	74733413	-1	SFRS2	SC-35, SC35, PR264, SFRS2A
18	RPRD1A	ENSG00000141425	ENST00000587563	protein_coding	KNOWN	None	25560	150	49	33564350	33573263	-1	None	P15RS, FLJ10656, HsT3101
18	RPRD1A	ENSG00000141425	ENST00000585879	protein_coding	KNOWN	None	25560	13	3	33564352	33573126	-1	None	P15RS, FLJ10656, HsT3101
18	RPRD1A	ENSG00000141425	ENST00000590898	protein_coding	KNOWN	None	25560	831	276	33569787	33647493	-1	None	P15RS, FLJ10656, HsT3101
18	RPRD1A	ENSG00000141425	ENST00000399022	protein_coding	KNOWN	CCDS11917	25560	939	312	33569787	33647539	-1	None	P15RS, FLJ10656, HsT3101
18	RPRD1A	ENSG00000141425	ENST00000357384	protein_coding	KNOWN	CCDS11917	25560	939	312	33569849	33647519	-1	None	P15RS, FLJ10656, HsT3101
18	RPRD1A	ENSG00000141425	ENST00000588737	protein_coding	KNOWN	None	25560	831	276	33573003	33647522	-1	None	P15RS, FLJ10656, HsT3101
18	RPRD1A	ENSG00000141425	ENST00000585953	protein_coding	PUTATIVE	None	25560	370	122	33605561	33610813	-1	None	P15RS, FLJ10656, HsT3101
18	RPRD1A	ENSG00000141425	ENST00000591994	retained_intron	KNOWN	None	25560	None	None	33605562	33608153	-1	None	P15RS, FLJ10656, HsT3101
18	RPRD1A	ENSG00000141425	ENST00000589050	non_stop_decay	KNOWN	None	25560	869	288	33605562	33647520	-1	None	P15RS, FLJ10656, HsT3101
18	RPRD1A	ENSG00000141425	ENST00000592674	nonsense_mediated_decay	KNOWN	None	25560	222	73	33613715	33647539	-1	None	P15RS, FLJ10656, HsT3101
18	RPRD1A	ENSG00000141425	ENST00000588459	processed_transcript	KNOWN	None	25560	None	None	33632838	33644387	-1	None	P15RS, FLJ10656, HsT3101
18	RPRD1A	ENSG00000141425	ENST00000337059	protein_coding	KNOWN	None	25560	831	276	33569849	33620812	-1	None	P15RS, FLJ10656, HsT3101
18	RPRD1A	ENSG00000141425	ENST00000319040	protein_coding	KNOWN	None	25560	870	289	33605561	33647519	-1	None	P15RS, FLJ10656, HsT3101
16	CTRB2	ENSG00000168928	ENST00000303037	protein_coding	KNOWN	CCDS32489	2522	792	263	75237994	75241083	-1	None	None
16	CTRB2	ENSG00000168928	ENST00000562106	protein_coding	NOVEL	None	2522	507	168	75238001	75239693	-1	None	None
16	CTRB2	ENSG00000168928	ENST00000567767	protein_coding	PUTATIVE	None	2522	345	114	75238001	75239890	-1	None	None
16	CTRB2	ENSG00000168928	ENST00000562387	protein_coding	PUTATIVE	None	2522	414	137	75238004	75239702	-1	None	None
16	CTRB2	ENSG00000168928	ENST00000481611	retained_intron	KNOWN	None	2522	None	None	75238035	75241057	-1	None	None
16	CTRB2	ENSG00000168928	ENST00000565656	retained_intron	KNOWN	None	2522	None	None	75238175	75239859	-1	None	None
17	COL1A1	ENSG00000108821	ENST00000225964	protein_coding	KNOWN	CCDS11561	2197	4395	1464	48260650	48278993	-1	None	OI4
17	COL1A1	ENSG00000108821	ENST00000510710	retained_intron	KNOWN	None	2197	None	None	48263205	48264483	-1	None	OI4
17	COL1A1	ENSG00000108821	ENST00000486572	retained_intron	KNOWN	None	2197	None	None	48264968	48265915	-1	None	OI4
17	COL1A1	ENSG00000108821	ENST00000511732	retained_intron	KNOWN	None	2197	None	None	48265253	48266145	-1	None	OI4
17	COL1A1	ENSG00000108821	ENST00000494334	retained_intron	KNOWN	None	2197	None	None	48267670	48268285	-1	None	OI4
17	COL1A1	ENSG00000108821	ENST00000476387	retained_intron	KNOWN	None	2197	None	None	48268270	48271419	-1	None	OI4
17	COL1A1	ENSG00000108821	ENST00000504289	retained_intron	KNOWN	None	2197	None	None	48269227	48269800	-1	None	OI4
17	COL1A1	ENSG00000108821	ENST00000463440	retained_intron	KNOWN	None	2197	None	None	48270847	48271713	-1	None	OI4
17	COL1A1	ENSG00000108821	ENST00000471344	retained_intron	KNOWN	None	2197	None	None	48270911	48273026	-1	None	OI4
17	COL1A1	ENSG00000108821	ENST00000485870	retained_intron	KNOWN	None	2197	None	None	48273440	48273956	-1	None	OI4
17	COL1A1	ENSG00000108821	ENST00000495677	retained_intron	KNOWN	None	2197	None	None	48273881	48276063	-1	None	OI4
17	COL1A1	ENSG00000108821	ENST00000474644	retained_intron	KNOWN	None	2197	None	None	48276639	48278993	-1	None	OI4
17	COL1A1	ENSG00000108821	ENST00000507689	protein_coding	PUTATIVE	None	2197	462	153	48276650	48277552	-1	None	OI4
7	LSM5	ENSG00000106355	ENST00000450169	protein_coding	KNOWN	CCDS5438	17162	276	91	32524951	32530030	-1	None	YER146W
7	LSM5	ENSG00000106355	ENST00000409909	protein_coding	PUTATIVE	CCDS47571	17162	189	62	32526417	32534895	-1	None	YER146W
7	LSM5	ENSG00000106355	ENST00000409292	protein_coding	PUTATIVE	CCDS47571	17162	189	62	32526641	32529712	-1	None	YER146W
7	LSM5	ENSG00000106355	ENST00000468872	retained_intron	KNOWN	None	17162	None	None	32526647	32527673	-1	None	YER146W
7	LSM5	ENSG00000106355	ENST00000410044	protein_coding	PUTATIVE	CCDS47571	17162	189	62	32526647	32529973	-1	None	YER146W
7	LSM5	ENSG00000106355	ENST00000409987	protein_coding	PUTATIVE	None	17162	195	64	32526647	32529992	-1	None	YER146W
7	LSM5	ENSG00000106355	ENST00000223084	nonsense_mediated_decay	KNOWN	None	17162	216	71	32526647	32530475	-1	None	YER146W
7	LSM5	ENSG00000106355	ENST00000409782	protein_coding	PUTATIVE	CCDS47571	17162	189	62	32526652	32529992	-1	None	YER146W
7	LSM5	ENSG00000106355	ENST00000409952	protein_coding	PUTATIVE	CCDS47571	17162	189	62	32526675	32534861	-1	None	YER146W
7	LSM5	ENSG00000106355	ENST00000480956	retained_intron	KNOWN	None	17162	None	None	32526677	32529983	-1	None	YER146W
12	RASSF3	ENSG00000153179	ENST00000283172	nonsense_mediated_decay	KNOWN	None	14271	273	90	65004293	65089192	1	None	None
12	RASSF3	ENSG00000153179	ENST00000542104	protein_coding	KNOWN	CCDS8969	14271	717	238	65004293	65091347	1	None	None
12	RASSF3	ENSG00000153179	ENST00000540088	processed_transcript	PUTATIVE	None	14271	None	None	65004302	65005430	1	None	None
12	RASSF3	ENSG00000153179	ENST00000336061	protein_coding	KNOWN	CCDS8969	14271	717	238	65004293	65088962	1	None	None
1	CFHR5	ENSG00000134389	ENST00000256785	protein_coding	KNOWN	CCDS1387	24668	1710	569	196946686	196978804	1	CFHL5	FHR5, FHR-5
1	CFHR5	ENSG00000134389	ENST00000367414	protein_coding	KNOWN	None	24668	1782	593	196946667	196978804	1	CFHL5	FHR5, FHR-5
1	S100PBP	ENSG00000116497	ENST00000530710	protein_coding	KNOWN	None	25768	390	129	33282368	33292090	1	None	FLJ12903, S100PBPR
1	S100PBP	ENSG00000116497	ENST00000373476	protein_coding	KNOWN	CCDS30666	25768	1227	408	33283043	33323455	1	None	FLJ12903, S100PBPR
1	S100PBP	ENSG00000116497	ENST00000373475	protein_coding	KNOWN	CCDS30666	25768	1227	408	33283156	33324476	1	None	FLJ12903, S100PBPR
1	S100PBP	ENSG00000116497	ENST00000529027	protein_coding	KNOWN	None	25768	124	40	33283158	33291824	1	None	FLJ12903, S100PBPR
1	S100PBP	ENSG00000116497	ENST00000531123	processed_transcript	KNOWN	None	25768	None	None	33283176	33308788	1	None	FLJ12903, S100PBPR
1	S100PBP	ENSG00000116497	ENST00000356689	processed_transcript	KNOWN	None	25768	None	None	33283193	33302779	1	None	FLJ12903, S100PBPR
1	S100PBP	ENSG00000116497	ENST00000526230	protein_coding	KNOWN	None	25768	361	119	33283254	33292061	1	None	FLJ12903, S100PBPR
1	S100PBP	ENSG00000116497	ENST00000531256	protein_coding	KNOWN	None	25768	514	170	33283256	33292214	1	None	FLJ12903, S100PBPR
1	S100PBP	ENSG00000116497	ENST00000477248	processed_transcript	PUTATIVE	None	25768	None	None	33283257	33284436	1	None	FLJ12903, S100PBPR
1	S100PBP	ENSG00000116497	ENST00000482212	protein_coding	KNOWN	None	25768	439	145	33283300	33292139	1	None	FLJ12903, S100PBPR
1	S100PBP	ENSG00000116497	ENST00000474103	processed_transcript	PUTATIVE	None	25768	None	None	33283339	33284433	1	None	FLJ12903, S100PBPR
1	S100PBP	ENSG00000116497	ENST00000530552	protein_coding	KNOWN	None	25768	16	4	33290498	33291716	1	None	FLJ12903, S100PBPR
1	S100PBP	ENSG00000116497	ENST00000525203	processed_transcript	KNOWN	None	25768	None	None	33312403	33321557	1	None	FLJ12903, S100PBPR
1	S100PBP	ENSG00000116497	ENST00000524535	processed_transcript	KNOWN	None	25768	None	None	33312916	33321559	1	None	FLJ12903, S100PBPR
1	S100PBP	ENSG00000116497	ENST00000527692	processed_transcript	KNOWN	None	25768	None	None	33318350	33321775	1	None	FLJ12903, S100PBPR
1	S100PBP	ENSG00000116497	ENST00000475486	retained_intron	KNOWN	None	25768	None	None	33318365	33321786	1	None	FLJ12903, S100PBPR
1	S100PBP	ENSG00000116497	ENST00000398243	protein_coding	KNOWN	None	25768	1026	341	33283176	33300665	1	None	FLJ12903, S100PBPR
HSCHR6_MHC_COX	NELFE	ENSG00000231044	ENST00000429857	protein_coding	KNOWN	None	13974	1143	380	31907416	31914421	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_COX	NELFE	ENSG00000231044	ENST00000463283	retained_intron	KNOWN	None	13974	None	None	31907557	31914248	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_COX	NELFE	ENSG00000231044	ENST00000485782	retained_intron	KNOWN	None	13974	None	None	31907557	31914273	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_COX	NELFE	ENSG00000231044	ENST00000443464	protein_coding	KNOWN	None	13974	1001	332	31909087	31914286	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_COX	NELFE	ENSG00000231044	ENST00000437732	protein_coding	KNOWN	None	13974	881	292	31909633	31913808	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_COX	NELFE	ENSG00000231044	ENST00000424967	protein_coding	KNOWN	None	13974	722	239	31909889	31913900	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_COX	NELFE	ENSG00000231044	ENST00000486359	retained_intron	KNOWN	None	13974	None	None	31910079	31914367	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_COX	NELFE	ENSG00000231044	ENST00000493221	processed_transcript	KNOWN	None	13974	None	None	31910102	31914297	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_COX	NELFE	ENSG00000231044	ENST00000420837	protein_coding	KNOWN	None	13974	477	158	31910149	31914188	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_COX	NELFE	ENSG00000231044	ENST00000484053	retained_intron	KNOWN	None	13974	None	None	31910394	31914294	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_COX	NELFE	ENSG00000231044	ENST00000492186	processed_transcript	KNOWN	None	13974	None	None	31910548	31914283	-1	RDBP	RD, D6S45, NELF-E, RDP
7	None	ENSG00000214314	ENST00000398089	protein_coding	NOVEL	None	None	51	16	99040552	99040747	1	None	None
6	KCNK16	ENSG00000095981	ENST00000373229	protein_coding	KNOWN	CCDS4843	14464	930	309	39282474	39290330	-1	None	K2p16.1, TALK-1, TALK1
6	KCNK16	ENSG00000095981	ENST00000425054	protein_coding	KNOWN	CCDS47421	14464	969	322	39282597	39290316	-1	None	K2p16.1, TALK-1, TALK1
6	KCNK16	ENSG00000095981	ENST00000507712	protein_coding	KNOWN	None	14464	594	197	39282724	39290744	-1	None	K2p16.1, TALK-1, TALK1
6	KCNK16	ENSG00000095981	ENST00000373227	protein_coding	KNOWN	CCDS47420	14464	789	262	39282778	39290316	-1	None	K2p16.1, TALK-1, TALK1
6	KCNK16	ENSG00000095981	ENST00000437525	protein_coding	KNOWN	CCDS47422	14464	885	294	39283947	39290364	-1	None	K2p16.1, TALK-1, TALK1
12	KRT84	ENSG00000161849	ENST00000257951	protein_coding	KNOWN	CCDS8825	6461	1803	600	52771596	52779436	-1	KRTHB4	Hb-4
HSCHR6_MHC_SSTO	MAS1LP1	ENSG00000237544	ENST00000434696	unprocessed_pseudogene	KNOWN	None	33448	None	None	29442476	29443522	-1	MAS1LP	OTTHUMG00000086553
7	RFC2	ENSG00000049541	ENST00000352131	protein_coding	KNOWN	CCDS5567	9970	963	320	73645829	73668719	-1	None	A1, RFC40
7	RFC2	ENSG00000049541	ENST00000055077	protein_coding	KNOWN	CCDS5568	9970	1065	354	73645867	73668774	-1	None	A1, RFC40
7	RFC2	ENSG00000049541	ENST00000485545	nonsense_mediated_decay	KNOWN	None	9970	361	119	73646104	73654337	-1	None	A1, RFC40
7	RFC2	ENSG00000049541	ENST00000497430	nonsense_mediated_decay	KNOWN	None	9970	595	197	73646434	73657576	-1	None	A1, RFC40
7	RFC2	ENSG00000049541	ENST00000470266	nonsense_mediated_decay	KNOWN	None	9970	226	74	73649861	73668639	-1	None	A1, RFC40
7	RFC2	ENSG00000049541	ENST00000494019	nonsense_mediated_decay	KNOWN	None	9970	263	86	73649861	73668697	-1	None	A1, RFC40
7	RFC2	ENSG00000049541	ENST00000480432	nonsense_mediated_decay	KNOWN	None	9970	234	77	73649862	73668737	-1	None	A1, RFC40
7	RFC2	ENSG00000049541	ENST00000479105	nonsense_mediated_decay	KNOWN	None	9970	158	51	73651680	73668667	-1	None	A1, RFC40
7	RFC2	ENSG00000049541	ENST00000491206	nonsense_mediated_decay	KNOWN	None	9970	87	28	73651738	73666824	-1	None	A1, RFC40
7	RFC2	ENSG00000049541	ENST00000493156	nonsense_mediated_decay	KNOWN	None	9970	114	37	73653253	73668719	-1	None	A1, RFC40
7	RFC2	ENSG00000049541	ENST00000463194	nonsense_mediated_decay	KNOWN	None	9970	306	101	73653267	73668719	-1	None	A1, RFC40
7	RFC2	ENSG00000049541	ENST00000473493	nonsense_mediated_decay	KNOWN	None	9970	272	89	73661045	73668706	-1	None	A1, RFC40
15	C2CD4B	ENSG00000205502	ENST00000380392	protein_coding	KNOWN	CCDS32259	33628	1095	364	62455734	62457482	-1	FAM148B	NLF2
1	FAM19A3	ENSG00000184599	ENST00000369630	protein_coding	KNOWN	CCDS30806	21590	510	169	113263041	113269857	1	None	TAFA-3
1	FAM19A3	ENSG00000184599	ENST00000361886	protein_coding	KNOWN	CCDS856	21590	402	133	113263199	113269857	1	None	TAFA-3
HSCHR6_MHC_QBL	ZBTB12	ENSG00000206366	ENST00000375525	protein_coding	KNOWN	None	19066	1380	459	31857779	31860166	-1	C6orf46	G10, NG35, D6S59E
1	F13B	ENSG00000143278	ENST00000367412	protein_coding	KNOWN	CCDS1388	3534	1986	661	197008321	197036397	-1	None	FXIIIB
1	F13B	ENSG00000143278	ENST00000490002	processed_transcript	KNOWN	None	3534	None	None	197009275	197019975	-1	None	FXIIIB
9	RN7SL187P	ENSG00000240299	ENST00000495587	misc_RNA	KNOWN	None	46203	None	None	124256797	124257097	1	None	None
9	HMGB1P37	ENSG00000213467	ENST00000439613	processed_pseudogene	KNOWN	None	39184	None	None	124282095	124282703	-1	None	None
HSCHR6_MHC_SSTO	RPS17P1	ENSG00000231000	ENST00000446696	processed_pseudogene	KNOWN	None	13982	None	None	29456722	29457127	-1	None	RPS17p, dJ994E9.1
HSCHR6_MHC_SSTO	RPS17P1	ENSG00000231000	ENST00000548430	pseudogene	KNOWN	None	13982	None	None	29456722	29457085	-1	None	RPS17p, dJ994E9.1
9	None	ENSG00000252940	ENST00000517131	miRNA	NOVEL	None	None	None	None	124302155	124302241	1	None	None
21	RBMX2P1	ENSG00000226406	ENST00000454795	processed_pseudogene	KNOWN	None	39923	None	None	16201475	16202310	-1	None	None
9	NDUFB6	ENSG00000165264	ENST00000379847	protein_coding	KNOWN	CCDS6528	7701	387	128	32552997	32573160	-1	None	B17, CI
9	NDUFB6	ENSG00000165264	ENST00000350021	protein_coding	KNOWN	CCDS6529	7701	342	113	32553649	32573157	-1	None	B17, CI
6	SYNE1	ENSG00000131018	ENST00000367255	protein_coding	KNOWN	CCDS5236	17089	26394	8797	152442819	152958534	-1	C6orf98	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1
6	SYNE1	ENSG00000131018	ENST00000478916	retained_intron	KNOWN	None	17089	None	None	152442822	152468898	-1	C6orf98	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1
6	SYNE1	ENSG00000131018	ENST00000539504	protein_coding	NOVEL	None	17089	2859	952	152442822	152489499	-1	C6orf98	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1
6	SYNE1	ENSG00000131018	ENST00000367257	protein_coding	NOVEL	None	17089	4068	1355	152442822	152539520	-1	C6orf98	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1
6	SYNE1	ENSG00000131018	ENST00000423061	protein_coding	KNOWN	CCDS5235	17089	26250	8749	152442822	152957986	-1	C6orf98	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1
6	SYNE1	ENSG00000131018	ENST00000367251	protein_coding	NOVEL	None	17089	4965	1654	152442904	152546972	-1	C6orf98	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1
6	SYNE1	ENSG00000131018	ENST00000460912	processed_transcript	KNOWN	None	17089	None	None	152442915	152489415	-1	C6orf98	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1
6	SYNE1	ENSG00000131018	ENST00000347037	processed_transcript	KNOWN	None	17089	None	None	152442915	152500598	-1	C6orf98	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1
6	SYNE1	ENSG00000131018	ENST00000409694	retained_intron	KNOWN	None	17089	None	None	152442915	152632302	-1	C6orf98	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1
6	SYNE1	ENSG00000131018	ENST00000367256	retained_intron	KNOWN	None	17089	None	None	152442915	152639479	-1	C6orf98	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1
6	SYNE1	ENSG00000131018	ENST00000354674	protein_coding	NOVEL	None	17089	2928	975	152443492	152489486	-1	C6orf98	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1
6	SYNE1	ENSG00000131018	ENST00000536990	processed_transcript	KNOWN	None	17089	None	None	152443740	152506546	-1	C6orf98	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1
6	SYNE1	ENSG00000131018	ENST00000472563	retained_intron	KNOWN	None	17089	None	None	152469019	152470641	-1	C6orf98	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1
6	SYNE1	ENSG00000131018	ENST00000476519	processed_transcript	KNOWN	None	17089	None	None	152470734	152476561	-1	C6orf98	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1
6	SYNE1	ENSG00000131018	ENST00000490866	retained_intron	KNOWN	None	17089	None	None	152473200	152476530	-1	C6orf98	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1
6	SYNE1	ENSG00000131018	ENST00000545694	retained_intron	KNOWN	None	17089	None	None	152576761	152589306	-1	C6orf98	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1
6	SYNE1	ENSG00000131018	ENST00000489156	retained_intron	KNOWN	None	17089	None	None	152598637	152623404	-1	C6orf98	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1
6	SYNE1	ENSG00000131018	ENST00000488376	retained_intron	KNOWN	None	17089	None	None	152599238	152603177	-1	C6orf98	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1
6	SYNE1	ENSG00000131018	ENST00000540663	protein_coding	PUTATIVE	None	17089	728	241	152605117	152623258	-1	C6orf98	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1
6	SYNE1	ENSG00000131018	ENST00000537033	protein_coding	PUTATIVE	None	17089	586	194	152614815	152623271	-1	C6orf98	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1
6	SYNE1	ENSG00000131018	ENST00000490135	retained_intron	KNOWN	None	17089	None	None	152636333	152655282	-1	C6orf98	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1
6	SYNE1	ENSG00000131018	ENST00000471834	retained_intron	KNOWN	None	17089	None	None	152656413	152702355	-1	C6orf98	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1
6	SYNE1	ENSG00000131018	ENST00000454018	protein_coding	PUTATIVE	None	17089	1535	510	152688127	152706810	-1	C6orf98	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1
6	SYNE1	ENSG00000131018	ENST00000469439	protein_coding	PUTATIVE	None	17089	622	206	152688132	152694271	-1	C6orf98	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1
6	SYNE1	ENSG00000131018	ENST00000461872	retained_intron	KNOWN	None	17089	None	None	152697200	152957818	-1	C6orf98	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1
6	SYNE1	ENSG00000131018	ENST00000535081	retained_intron	KNOWN	None	17089	None	None	152722438	152730439	-1	C6orf98	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1
6	SYNE1	ENSG00000131018	ENST00000367253	protein_coding	NOVEL	None	17089	5178	1725	152748739	152949466	-1	C6orf98	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1
6	SYNE1	ENSG00000131018	ENST00000367248	protein_coding	NOVEL	None	17089	4302	1433	152754660	152958018	-1	C6orf98	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1
6	SYNE1	ENSG00000131018	ENST00000413186	protein_coding	NOVEL	None	17089	4332	1443	152756526	152949466	-1	C6orf98	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1
6	SYNE1	ENSG00000131018	ENST00000495090	protein_coding	PUTATIVE	None	17089	1839	612	152774551	152793765	-1	C6orf98	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1
6	SYNE1	ENSG00000131018	ENST00000474655	nonsense_mediated_decay	KNOWN	None	17089	188	61	152774552	152793752	-1	C6orf98	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1
6	SYNE1	ENSG00000131018	ENST00000535896	processed_transcript	KNOWN	None	17089	None	None	152779892	152804372	-1	C6orf98	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1
6	SYNE1	ENSG00000131018	ENST00000498751	processed_transcript	KNOWN	None	17089	None	None	152782751	152786067	-1	C6orf98	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1
6	SYNE1	ENSG00000131018	ENST00000466159	protein_coding	PUTATIVE	None	17089	2265	754	152783665	152949618	-1	C6orf98	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1
6	SYNE1	ENSG00000131018	ENST00000481502	processed_transcript	KNOWN	None	17089	None	None	152784611	152793130	-1	C6orf98	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1
6	SYNE1	ENSG00000131018	ENST00000468937	retained_intron	KNOWN	None	17089	None	None	152786393	152793654	-1	C6orf98	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1
6	SYNE1	ENSG00000131018	ENST00000537750	protein_coding	NOVEL	None	17089	1846	614	152786428	152958936	-1	C6orf98	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1
6	SYNE1	ENSG00000131018	ENST00000265368	protein_coding	KNOWN	None	17089	26394	8797	152442822	152958534	-1	C6orf98	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1
6	SYNE1	ENSG00000131018	ENST00000448038	protein_coding	KNOWN	None	17089	26250	8749	152442822	152958534	-1	C6orf98	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1
6	SYNE1	ENSG00000131018	ENST00000341594	protein_coding	KNOWN	None	17089	25230	8409	152442822	152958534	-1	C6orf98	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1
6	SYNE1	ENSG00000131018	ENST00000356820	protein_coding	KNOWN	None	17089	9966	3321	152442822	152639479	-1	C6orf98	SYNE-1B, KIAA0796, 8B, Nesprin-1, enaptin, MYNE1, CPG2, dJ45H2.2, SCAR8, ARCA1, Nesp1
22	FBLN1	ENSG00000077942	ENST00000411478	protein_coding	PUTATIVE	None	3600	568	188	45898118	45927204	1	None	FBLN
22	FBLN1	ENSG00000077942	ENST00000445110	protein_coding	PUTATIVE	None	3600	195	64	45898157	45921558	1	None	FBLN
22	FBLN1	ENSG00000077942	ENST00000455233	protein_coding	PUTATIVE	None	3600	517	171	45898712	45928975	1	None	FBLN
22	FBLN1	ENSG00000077942	ENST00000402984	protein_coding	NOVEL	None	3600	2166	721	45898763	45959232	1	None	FBLN
22	FBLN1	ENSG00000077942	ENST00000262722	protein_coding	KNOWN	CCDS14069	3600	2052	683	45898763	45959242	1	None	FBLN
22	FBLN1	ENSG00000077942	ENST00000327858	protein_coding	KNOWN	CCDS14067	3600	2112	703	45898771	45997015	1	None	FBLN
22	FBLN1	ENSG00000077942	ENST00000442170	protein_coding	KNOWN	CCDS14068	3600	1806	601	45898850	45961581	1	None	FBLN
22	FBLN1	ENSG00000077942	ENST00000340923	protein_coding	KNOWN	CCDS43028	3600	1701	566	45898856	45954591	1	None	FBLN
22	FBLN1	ENSG00000077942	ENST00000439835	protein_coding	PUTATIVE	None	3600	80	25	45898926	45921443	1	None	FBLN
22	FBLN1	ENSG00000077942	ENST00000450975	protein_coding	PUTATIVE	None	3600	211	69	45913225	45914666	1	None	FBLN
22	FBLN1	ENSG00000077942	ENST00000454279	protein_coding	PUTATIVE	None	3600	418	138	45914462	45927204	1	None	FBLN
22	FBLN1	ENSG00000077942	ENST00000451475	protein_coding	PUTATIVE	None	3600	544	180	45914663	45929778	1	None	FBLN
22	FBLN1	ENSG00000077942	ENST00000437711	nonsense_mediated_decay	KNOWN	None	3600	550	182	45921555	45938094	1	None	FBLN
22	FBLN1	ENSG00000077942	ENST00000460538	retained_intron	KNOWN	None	3600	None	None	45928773	45937159	1	None	FBLN
22	FBLN1	ENSG00000077942	ENST00000465578	retained_intron	KNOWN	None	3600	None	None	45929031	45931464	1	None	FBLN
22	FBLN1	ENSG00000077942	ENST00000484531	retained_intron	KNOWN	None	3600	None	None	45929661	45931311	1	None	FBLN
22	FBLN1	ENSG00000077942	ENST00000476366	processed_transcript	KNOWN	None	3600	None	None	45937109	45947009	1	None	FBLN
22	FBLN1	ENSG00000077942	ENST00000460300	processed_transcript	KNOWN	None	3600	None	None	45972919	45974157	1	None	FBLN
22	FBLN1	ENSG00000077942	ENST00000348697	protein_coding	KNOWN	None	3600	2112	703	45898719	45997014	1	None	FBLN
9	None	ENSG00000229854	ENST00000434375	antisense	KNOWN	None	None	None	None	124337170	124338493	-1	None	None
21	None	ENSG00000235277	ENST00000430391	antisense	KNOWN	None	None	None	None	16290855	16319417	1	None	None
9	None	ENSG00000261534	ENST00000567068	sense_overlapping	KNOWN	None	None	None	None	124577953	124581731	-1	None	None
21	None	ENSG00000229047	ENST00000446301	antisense	KNOWN	None	None	None	None	16333630	16336554	1	None	None
9	TTLL11-IT1	ENSG00000237548	ENST00000411790	processed_transcript	KNOWN	None	24214	None	None	124646915	124725998	-1	C9orf148	None
7	ATP5J2	ENSG00000241468	ENST00000466753	processed_transcript	KNOWN	None	848	None	None	99046098	99063788	-1	None	F1Fo-ATPase, ATP5JL
7	ATP5J2	ENSG00000241468	ENST00000414062	nonsense_mediated_decay	KNOWN	CCDS47653	848	150	49	99046579	99063788	-1	None	F1Fo-ATPase, ATP5JL
7	ATP5J2	ENSG00000241468	ENST00000449683	protein_coding	NOVEL	None	848	297	98	99055813	99063790	-1	None	F1Fo-ATPase, ATP5JL
7	ATP5J2	ENSG00000241468	ENST00000491560	retained_intron	KNOWN	None	848	None	None	99055818	99058088	-1	None	F1Fo-ATPase, ATP5JL
7	ATP5J2	ENSG00000241468	ENST00000359832	protein_coding	KNOWN	CCDS34692	848	168	55	99055818	99063787	-1	None	F1Fo-ATPase, ATP5JL
7	ATP5J2	ENSG00000241468	ENST00000292475	protein_coding	KNOWN	CCDS5665	848	285	94	99055818	99063954	-1	None	F1Fo-ATPase, ATP5JL
7	ATP5J2	ENSG00000241468	ENST00000488775	protein_coding	KNOWN	CCDS47653	848	150	49	99055820	99063790	-1	None	F1Fo-ATPase, ATP5JL
7	ATP5J2	ENSG00000241468	ENST00000394186	protein_coding	KNOWN	CCDS47654	848	267	88	99055932	99063784	-1	None	F1Fo-ATPase, ATP5JL
7	ATP5J2	ENSG00000241468	ENST00000481899	retained_intron	KNOWN	None	848	None	None	99056563	99058122	-1	None	F1Fo-ATPase, ATP5JL
7	ATP5J2	ENSG00000241468	ENST00000523680	protein_coding	NOVEL	None	848	58	18	99056860	99063790	-1	None	F1Fo-ATPase, ATP5JL
7	ATP5J2	ENSG00000241468	ENST00000485011	retained_intron	KNOWN	None	848	None	None	99057278	99063809	-1	None	F1Fo-ATPase, ATP5JL
7	ATP5J2	ENSG00000241468	ENST00000524321	retained_intron	KNOWN	None	848	None	None	99057287	99063787	-1	None	F1Fo-ATPase, ATP5JL
7	ATP5J2	ENSG00000241468	ENST00000544611	protein_coding	KNOWN	None	848	267	88	99055819	99058152	-1	None	F1Fo-ATPase, ATP5JL
22	IGLL1	ENSG00000128322	ENST00000249053	protein_coding	PUTATIVE	CCDS13810	5870	255	84	23915312	23922426	-1	IGLL	IGVPB, IGL5, 14.1, CD179B
22	IGLL1	ENSG00000128322	ENST00000330377	protein_coding	KNOWN	CCDS13809	5870	642	213	23915312	23922495	-1	IGLL	IGVPB, IGL5, 14.1, CD179B
22	IGLL1	ENSG00000128322	ENST00000438703	protein_coding	NOVEL	None	5870	542	179	23915556	23922489	-1	IGLL	IGVPB, IGL5, 14.1, CD179B
19	FBXO17	ENSG00000269190	ENST00000292852	protein_coding	KNOWN	CCDS12526	18754	837	278	39432044	39466550	-1	FBXO26	FBG4, FLJ25205, MGC9379, FLJ11798, Fbx17
19	FBXO17	ENSG00000269190	ENST00000599418	retained_intron	KNOWN	None	18754	None	None	39432918	39437356	-1	FBXO26	FBG4, FLJ25205, MGC9379, FLJ11798, Fbx17
19	FBXO17	ENSG00000269190	ENST00000595329	protein_coding	KNOWN	CCDS12526	18754	837	278	39432918	39443327	-1	FBXO26	FBG4, FLJ25205, MGC9379, FLJ11798, Fbx17
19	FBXO17	ENSG00000269190	ENST00000597696	retained_intron	KNOWN	None	18754	None	None	39433171	39437686	-1	FBXO26	FBG4, FLJ25205, MGC9379, FLJ11798, Fbx17
19	FBXO17	ENSG00000269190	ENST00000596025	nonsense_mediated_decay	KNOWN	None	18754	534	177	39433322	39466342	-1	FBXO26	FBG4, FLJ25205, MGC9379, FLJ11798, Fbx17
19	FBXO17	ENSG00000269190	ENST00000599598	protein_coding	PUTATIVE	None	18754	284	93	39435368	39439243	-1	FBXO26	FBG4, FLJ25205, MGC9379, FLJ11798, Fbx17
19	FBXO17	ENSG00000269190	ENST00000601394	nonsense_mediated_decay	KNOWN	None	18754	330	109	39435620	39440806	-1	FBXO26	FBG4, FLJ25205, MGC9379, FLJ11798, Fbx17
1	FNDC5	ENSG00000160097	ENST00000483143	processed_transcript	KNOWN	None	20240	None	None	33327869	33328617	-1	None	FRCP2
1	FNDC5	ENSG00000160097	ENST00000481487	processed_transcript	KNOWN	None	20240	None	None	33327869	33330318	-1	None	FRCP2
1	FNDC5	ENSG00000160097	ENST00000373471	protein_coding	KNOWN	CCDS369	20240	414	137	33327869	33336414	-1	None	FRCP2
1	FNDC5	ENSG00000160097	ENST00000497068	processed_transcript	KNOWN	None	20240	None	None	33329157	33330320	-1	None	FRCP2
1	FNDC5	ENSG00000160097	ENST00000496770	processed_transcript	KNOWN	None	20240	None	None	33330050	33338081	-1	None	FRCP2
1	FNDC5	ENSG00000160097	ENST00000465346	processed_transcript	KNOWN	None	20240	None	None	33336475	33338083	-1	None	FRCP2
21	None	ENSG00000231201	ENST00000436429	antisense	KNOWN	None	None	None	None	16343791	16365175	1	None	None
21	None	ENSG00000236471	ENST00000449746	lincRNA	KNOWN	None	None	None	None	16439391	16440158	1	None	None
18	LDLRAD4	ENSG00000168675	ENST00000590371	processed_transcript	PUTATIVE	None	1224	None	None	13217497	13387576	1	C18orf1	None
18	LDLRAD4	ENSG00000168675	ENST00000587905	protein_coding	KNOWN	None	1224	208	68	13218025	13621142	1	C18orf1	None
18	LDLRAD4	ENSG00000168675	ENST00000590115	retained_intron	KNOWN	None	1224	None	None	13218759	13278375	1	C18orf1	None
18	LDLRAD4	ENSG00000168675	ENST00000399848	protein_coding	KNOWN	CCDS32794	1224	867	288	13218786	13652754	1	C18orf1	None
18	LDLRAD4	ENSG00000168675	ENST00000359446	protein_coding	KNOWN	CCDS32793	1224	921	306	13278102	13652753	1	C18orf1	None
18	LDLRAD4	ENSG00000168675	ENST00000586222	protein_coding	KNOWN	None	1224	129	42	13382553	13438331	1	C18orf1	None
18	LDLRAD4	ENSG00000168675	ENST00000593236	protein_coding	KNOWN	None	1224	104	33	13465014	13621269	1	C18orf1	None
18	LDLRAD4	ENSG00000168675	ENST00000587600	processed_transcript	PUTATIVE	None	1224	None	None	13465024	13491587	1	C18orf1	None
18	LDLRAD4	ENSG00000168675	ENST00000586207	processed_transcript	KNOWN	None	1224	None	None	13542291	13645204	1	C18orf1	None
18	LDLRAD4	ENSG00000168675	ENST00000587440	processed_transcript	PUTATIVE	None	1224	None	None	13542406	13543213	1	C18orf1	None
18	LDLRAD4	ENSG00000168675	ENST00000592657	processed_transcript	PUTATIVE	None	1224	None	None	13542915	13543622	1	C18orf1	None
18	LDLRAD4	ENSG00000168675	ENST00000587757	protein_coding	KNOWN	CCDS32795	1224	810	269	13611463	13645776	1	C18orf1	None
18	LDLRAD4	ENSG00000168675	ENST00000585931	protein_coding	KNOWN	None	1224	690	229	13611763	13646733	1	C18orf1	None
18	LDLRAD4	ENSG00000168675	ENST00000590308	processed_transcript	KNOWN	None	1224	None	None	13612028	13615747	1	C18orf1	None
18	LDLRAD4	ENSG00000168675	ENST00000586765	protein_coding	KNOWN	CCDS42415	1224	756	251	13612618	13645658	1	C18orf1	None
18	LDLRAD4	ENSG00000168675	ENST00000592812	processed_transcript	PUTATIVE	None	1224	None	None	13612624	13616158	1	C18orf1	None
18	LDLRAD4	ENSG00000168675	ENST00000361303	retained_intron	KNOWN	None	1224	None	None	13620867	13652753	1	C18orf1	None
18	LDLRAD4	ENSG00000168675	ENST00000435606	retained_intron	KNOWN	None	1224	None	None	13620867	13652753	1	C18orf1	None
18	LDLRAD4	ENSG00000168675	ENST00000592991	protein_coding	PUTATIVE	None	1224	627	208	13641757	13645711	1	C18orf1	None
18	LDLRAD4	ENSG00000168675	ENST00000361205	protein_coding	KNOWN	CCDS32793	1224	921	306	13218786	13652753	1	C18orf1	None
7	C1GALT1	ENSG00000106392	ENST00000429911	protein_coding	KNOWN	None	24337	394	130	7196565	7278059	1	None	C1GALT, T-synthase
7	C1GALT1	ENSG00000106392	ENST00000419721	protein_coding	KNOWN	None	24337	300	99	7222178	7277965	1	None	C1GALT, T-synthase
7	C1GALT1	ENSG00000106392	ENST00000467716	processed_transcript	KNOWN	None	24337	None	None	7222256	7250198	1	None	C1GALT, T-synthase
7	C1GALT1	ENSG00000106392	ENST00000476068	retained_intron	KNOWN	None	24337	None	None	7222261	7274928	1	None	C1GALT, T-synthase
7	C1GALT1	ENSG00000106392	ENST00000223122	protein_coding	KNOWN	CCDS5355	24337	1092	363	7273889	7283981	1	None	C1GALT, T-synthase
7	C1GALT1	ENSG00000106392	ENST00000402468	protein_coding	KNOWN	None	24337	930	309	7273951	7278595	1	None	C1GALT, T-synthase
7	C1GALT1	ENSG00000106392	ENST00000436587	protein_coding	KNOWN	CCDS5355	24337	1092	363	7222246	7288251	1	None	C1GALT, T-synthase
21	None	ENSG00000229425	ENST00000449602	lincRNA	KNOWN	None	None	None	None	16742841	16774624	-1	None	None
2	DAPL1	ENSG00000163331	ENST00000309950	protein_coding	KNOWN	CCDS33307	21490	324	107	159651829	159672505	1	None	None
2	DAPL1	ENSG00000163331	ENST00000409042	protein_coding	PUTATIVE	None	21490	342	113	159651829	159710294	1	None	None
2	DAPL1	ENSG00000163331	ENST00000343761	protein_coding	PUTATIVE	None	21490	523	173	159660810	159719293	1	None	None
17	CLEC10A	ENSG00000132514	ENST00000254868	protein_coding	KNOWN	CCDS11087	16916	951	316	6977856	6983626	-1	CLECSF13, CLECSF14	HML2, HML, CD301
17	CLEC10A	ENSG00000132514	ENST00000416562	protein_coding	NOVEL	None	16916	870	289	6977885	6983585	-1	CLECSF13, CLECSF14	HML2, HML, CD301
17	CLEC10A	ENSG00000132514	ENST00000576549	protein_coding	NOVEL	None	16916	410	135	6978114	6980123	-1	CLECSF13, CLECSF14	HML2, HML, CD301
17	CLEC10A	ENSG00000132514	ENST00000576617	protein_coding	KNOWN	None	16916	771	256	6978114	6983567	-1	CLECSF13, CLECSF14	HML2, HML, CD301
17	CLEC10A	ENSG00000132514	ENST00000571664	protein_coding	KNOWN	CCDS45597	16916	879	292	6978115	6983602	-1	CLECSF13, CLECSF14	HML2, HML, CD301
17	CLEC10A	ENSG00000132514	ENST00000571624	retained_intron	KNOWN	None	16916	None	None	6981803	6983563	-1	CLECSF13, CLECSF14	HML2, HML, CD301
5	SPINK5	ENSG00000133710	ENST00000521206	protein_coding	NOVEL	None	15464	206	67	147405246	147451764	1	None	VAKTI, LEKTI, LETKI, NETS, NS, FLJ21544, FLJ97536, FLJ97596, FLJ99794, DKFZp686K19184
5	SPINK5	ENSG00000133710	ENST00000398454	protein_coding	KNOWN	CCDS47301	15464	2751	916	147443535	147504503	1	None	VAKTI, LEKTI, LETKI, NETS, NS, FLJ21544, FLJ97536, FLJ97596, FLJ99794, DKFZp686K19184
5	SPINK5	ENSG00000133710	ENST00000359874	protein_coding	KNOWN	CCDS47300	15464	3285	1094	147443535	147516852	1	None	VAKTI, LEKTI, LETKI, NETS, NS, FLJ21544, FLJ97536, FLJ97596, FLJ99794, DKFZp686K19184
5	SPINK5	ENSG00000133710	ENST00000476697	nonsense_mediated_decay	KNOWN	None	15464	606	201	147443543	147475463	1	None	VAKTI, LEKTI, LETKI, NETS, NS, FLJ21544, FLJ97536, FLJ97596, FLJ99794, DKFZp686K19184
5	SPINK5	ENSG00000133710	ENST00000508733	protein_coding	NOVEL	None	15464	2609	868	147443543	147503523	1	None	VAKTI, LEKTI, LETKI, NETS, NS, FLJ21544, FLJ97536, FLJ97596, FLJ99794, DKFZp686K19184
5	SPINK5	ENSG00000133710	ENST00000507988	retained_intron	KNOWN	None	15464	None	None	147443547	147498552	1	None	VAKTI, LEKTI, LETKI, NETS, NS, FLJ21544, FLJ97536, FLJ97596, FLJ99794, DKFZp686K19184
5	SPINK5	ENSG00000133710	ENST00000256084	protein_coding	KNOWN	CCDS43382	15464	3195	1064	147443566	147516852	1	None	VAKTI, LEKTI, LETKI, NETS, NS, FLJ21544, FLJ97536, FLJ97596, FLJ99794, DKFZp686K19184
5	SPINK5	ENSG00000133710	ENST00000481286	processed_transcript	KNOWN	None	15464	None	None	147470216	147477566	1	None	VAKTI, LEKTI, LETKI, NETS, NS, FLJ21544, FLJ97536, FLJ97596, FLJ99794, DKFZp686K19184
5	SPINK5	ENSG00000133710	ENST00000476608	processed_transcript	KNOWN	None	15464	None	None	147470491	147480991	1	None	VAKTI, LEKTI, LETKI, NETS, NS, FLJ21544, FLJ97536, FLJ97596, FLJ99794, DKFZp686K19184
3	NUDT16	ENSG00000198585	ENST00000521288	protein_coding	KNOWN	CCDS3070	26442	588	195	131100618	131107674	1	None	FLJ31265
3	NUDT16	ENSG00000198585	ENST00000502852	protein_coding	PUTATIVE	CCDS54640	26442	684	227	131100629	131102283	1	None	FLJ31265
3	NUDT16	ENSG00000198585	ENST00000359850	protein_coding	KNOWN	None	26442	489	162	131100609	131107674	1	None	FLJ31265
3	NUDT16	ENSG00000198585	ENST00000537561	protein_coding	KNOWN	CCDS54641	26442	480	159	131100515	131107674	1	None	FLJ31265
9	ENTPD8	ENSG00000188833	ENST00000344119	protein_coding	KNOWN	CCDS7043	24860	1377	458	140328816	140335901	-1	None	UNQ2492, NTPDase-8
9	ENTPD8	ENSG00000188833	ENST00000461823	retained_intron	KNOWN	None	24860	None	None	140328816	140336268	-1	None	UNQ2492, NTPDase-8
9	ENTPD8	ENSG00000188833	ENST00000472938	protein_coding	KNOWN	CCDS43913	24860	1488	495	140329122	140332754	-1	None	UNQ2492, NTPDase-8
9	ENTPD8	ENSG00000188833	ENST00000493135	protein_coding	PUTATIVE	None	24860	668	221	140331014	140332698	-1	None	UNQ2492, NTPDase-8
9	ENTPD8	ENSG00000188833	ENST00000371506	protein_coding	KNOWN	CCDS43913	24860	1488	495	140328816	140335901	-1	None	UNQ2492, NTPDase-8
12	KRT82	ENSG00000161850	ENST00000257974	protein_coding	KNOWN	CCDS8826	6459	1542	513	52787715	52800139	-1	KRTHB2	Hb-2
1	SLC16A1	ENSG00000155380	ENST00000369626	protein_coding	KNOWN	CCDS858	10922	1503	500	113454469	113498975	-1	None	MCT, MCT1
1	SLC16A1	ENSG00000155380	ENST00000458229	protein_coding	KNOWN	None	10922	1369	455	113456647	113498685	-1	None	MCT, MCT1
1	SLC16A1	ENSG00000155380	ENST00000443580	protein_coding	KNOWN	None	10922	890	295	113460138	113478610	-1	None	MCT, MCT1
1	SLC16A1	ENSG00000155380	ENST00000429288	protein_coding	KNOWN	None	10922	646	214	113460382	113499635	-1	None	MCT, MCT1
1	SLC16A1	ENSG00000155380	ENST00000481750	processed_transcript	KNOWN	None	10922	None	None	113460640	113465014	-1	None	MCT, MCT1
1	SLC16A1	ENSG00000155380	ENST00000478835	processed_transcript	KNOWN	None	10922	None	None	113471670	113498803	-1	None	MCT, MCT1
1	SLC16A1	ENSG00000155380	ENST00000538576	protein_coding	KNOWN	CCDS858	10922	1503	500	113454474	113498685	-1	None	MCT, MCT1
1	SLC16A1	ENSG00000155380	ENST00000433570	protein_coding	KNOWN	None	10922	1293	430	113458828	113498616	-1	None	MCT, MCT1
1	HPCA	ENSG00000121905	ENST00000470166	processed_transcript	KNOWN	None	5144	None	None	33351595	33359664	1	None	None
1	HPCA	ENSG00000121905	ENST00000480118	processed_transcript	KNOWN	None	5144	None	None	33351683	33359230	1	None	None
1	HPCA	ENSG00000121905	ENST00000373467	protein_coding	KNOWN	CCDS370	5144	582	193	33352036	33360247	1	None	None
1	HPCA	ENSG00000121905	ENST00000459874	processed_transcript	KNOWN	None	5144	None	None	33352063	33359744	1	None	None
1	HPCA	ENSG00000121905	ENST00000470896	processed_transcript	KNOWN	None	5144	None	None	33359125	33364042	1	None	None
10	CALY	ENSG00000130643	ENST00000252939	protein_coding	KNOWN	CCDS7678	17938	654	217	135138927	135150411	-1	DRD1IP	CALCYON, NSG3
10	CALY	ENSG00000130643	ENST00000467433	processed_transcript	KNOWN	None	17938	None	None	135138932	135139679	-1	DRD1IP	CALCYON, NSG3
10	CALY	ENSG00000130643	ENST00000467611	processed_transcript	KNOWN	None	17938	None	None	135138932	135139818	-1	DRD1IP	CALCYON, NSG3
10	CALY	ENSG00000130643	ENST00000368558	protein_coding	PUTATIVE	None	17938	375	124	135139436	135150439	-1	DRD1IP	CALCYON, NSG3
10	CALY	ENSG00000130643	ENST00000368555	protein_coding	KNOWN	None	17938	477	158	135140931	135150376	-1	DRD1IP	CALCYON, NSG3
10	CALY	ENSG00000130643	ENST00000368556	protein_coding	KNOWN	None	17938	375	124	135139770	135150475	-1	DRD1IP	CALCYON, NSG3
HSCHR6_MHC_QBL	CFB	ENSG00000241253	ENST00000399981	protein_coding	KNOWN	None	1037	2295	764	31903824	31910258	1	BFD, BF	H2-Bf
HSCHR6_MHC_QBL	CFB	ENSG00000241253	ENST00000419920	protein_coding	KNOWN	None	1037	2295	764	31904168	31910258	1	BFD, BF	H2-Bf
HSCHR6_MHC_QBL	CFB	ENSG00000241253	ENST00000472489	retained_intron	KNOWN	None	1037	None	None	31904271	31905042	1	BFD, BF	H2-Bf
HSCHR6_MHC_QBL	CFB	ENSG00000241253	ENST00000465211	processed_transcript	PUTATIVE	None	1037	None	None	31904300	31906017	1	BFD, BF	H2-Bf
HSCHR6_MHC_QBL	CFB	ENSG00000241253	ENST00000480498	retained_intron	KNOWN	None	1037	None	None	31904396	31908819	1	BFD, BF	H2-Bf
HSCHR6_MHC_QBL	CFB	ENSG00000241253	ENST00000461626	retained_intron	KNOWN	None	1037	None	None	31905455	31907725	1	BFD, BF	H2-Bf
HSCHR6_MHC_QBL	CFB	ENSG00000241253	ENST00000496304	processed_transcript	KNOWN	None	1037	None	None	31905971	31907772	1	BFD, BF	H2-Bf
HSCHR6_MHC_QBL	CFB	ENSG00000241253	ENST00000480761	processed_transcript	KNOWN	None	1037	None	None	31906532	31907772	1	BFD, BF	H2-Bf
HSCHR6_MHC_QBL	CFB	ENSG00000241253	ENST00000472538	retained_intron	KNOWN	None	1037	None	None	31907172	31907772	1	BFD, BF	H2-Bf
HSCHR6_MHC_QBL	CFB	ENSG00000241253	ENST00000485948	retained_intron	KNOWN	None	1037	None	None	31907905	31909418	1	BFD, BF	H2-Bf
HSCHR6_MHC_QBL	CFB	ENSG00000241253	ENST00000465480	retained_intron	KNOWN	None	1037	None	None	31909048	31910258	1	BFD, BF	H2-Bf
HSCHR6_MHC_QBL	CFB	ENSG00000241253	ENST00000479416	retained_intron	KNOWN	None	1037	None	None	31909589	31910258	1	BFD, BF	H2-Bf
4	LIN54	ENSG00000189308	ENST00000505905	processed_transcript	KNOWN	None	25397	None	None	83831126	83849351	-1	None	MIP120, DKFZp686L1814, JC8.6, CXCDC1
4	LIN54	ENSG00000189308	ENST00000340417	protein_coding	KNOWN	CCDS3599	25397	2250	749	83845756	83931982	-1	None	MIP120, DKFZp686L1814, JC8.6, CXCDC1
4	LIN54	ENSG00000189308	ENST00000510877	nonsense_mediated_decay	KNOWN	None	25397	189	62	83846701	83931974	-1	None	MIP120, DKFZp686L1814, JC8.6, CXCDC1
4	LIN54	ENSG00000189308	ENST00000442461	protein_coding	KNOWN	CCDS47089	25397	1587	528	83846868	83931884	-1	None	MIP120, DKFZp686L1814, JC8.6, CXCDC1
4	LIN54	ENSG00000189308	ENST00000446851	protein_coding	KNOWN	CCDS47089	25397	1587	528	83846868	83931976	-1	None	MIP120, DKFZp686L1814, JC8.6, CXCDC1
4	LIN54	ENSG00000189308	ENST00000510557	protein_coding	KNOWN	CCDS47089	25397	1587	528	83848713	83934040	-1	None	MIP120, DKFZp686L1814, JC8.6, CXCDC1
4	LIN54	ENSG00000189308	ENST00000506560	protein_coding	NOVEL	None	25397	1983	660	83848739	83931862	-1	None	MIP120, DKFZp686L1814, JC8.6, CXCDC1
4	LIN54	ENSG00000189308	ENST00000508171	nonsense_mediated_decay	KNOWN	None	25397	732	243	83848739	83931863	-1	None	MIP120, DKFZp686L1814, JC8.6, CXCDC1
4	LIN54	ENSG00000189308	ENST00000505397	protein_coding	KNOWN	CCDS3599	25397	2250	749	83848930	83934079	-1	None	MIP120, DKFZp686L1814, JC8.6, CXCDC1
4	LIN54	ENSG00000189308	ENST00000509748	processed_transcript	PUTATIVE	None	25397	None	None	83905315	83934064	-1	None	MIP120, DKFZp686L1814, JC8.6, CXCDC1
4	LIN54	ENSG00000189308	ENST00000395283	protein_coding	KNOWN	None	25397	1983	660	83845756	83905997	-1	None	MIP120, DKFZp686L1814, JC8.6, CXCDC1
4	LIN54	ENSG00000189308	ENST00000395282	protein_coding	KNOWN	None	25397	732	243	83845756	83905997	-1	None	MIP120, DKFZp686L1814, JC8.6, CXCDC1
12	UNC119B	ENSG00000175970	ENST00000344651	protein_coding	KNOWN	CCDS31914	16488	756	251	121148238	121161443	1	None	MGC5139, POC7B
12	UNC119B	ENSG00000175970	ENST00000539658	processed_transcript	KNOWN	None	16488	None	None	121148320	121154443	1	None	MGC5139, POC7B
10	AKR1C1	ENSG00000187134	ENST00000477661	processed_transcript	KNOWN	None	384	None	None	5005445	5020142	1	DDH1	DDH, MBAB, DD1, HAKRC
10	AKR1C1	ENSG00000187134	ENST00000380872	protein_coding	KNOWN	CCDS7061	384	972	323	5005445	5025475	1	DDH1	DDH, MBAB, DD1, HAKRC
10	AKR1C1	ENSG00000187134	ENST00000442997	protein_coding	KNOWN	None	384	744	247	5005641	5014939	1	DDH1	DDH, MBAB, DD1, HAKRC
10	AKR1C1	ENSG00000187134	ENST00000380859	protein_coding	KNOWN	None	384	618	205	5005981	5012133	1	DDH1	DDH, MBAB, DD1, HAKRC
10	AKR1C1	ENSG00000187134	ENST00000476100	processed_transcript	KNOWN	None	384	None	None	5007683	5009240	1	DDH1	DDH, MBAB, DD1, HAKRC
10	AKR1C1	ENSG00000187134	ENST00000434459	protein_coding	KNOWN	CCDS7061	384	972	323	4934796	5020142	1	DDH1	DDH, MBAB, DD1, HAKRC
18	DYNAP	ENSG00000178690	ENST00000585973	protein_coding	PUTATIVE	None	26808	477	158	52254988	52265910	1	C18orf26	FLJ39106
18	DYNAP	ENSG00000178690	ENST00000321600	protein_coding	KNOWN	CCDS11957	26808	633	210	52258390	52266724	1	C18orf26	FLJ39106
12	PTPN6	ENSG00000111679	ENST00000543115	protein_coding	PUTATIVE	None	9658	392	129	7055631	7061343	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
12	PTPN6	ENSG00000111679	ENST00000542848	nonsense_mediated_decay	KNOWN	None	9658	177	58	7055737	7064425	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
12	PTPN6	ENSG00000111679	ENST00000543120	processed_transcript	PUTATIVE	None	9658	None	None	7055740	7064102	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
12	PTPN6	ENSG00000111679	ENST00000399448	protein_coding	KNOWN	CCDS41744	9658	1794	597	7055740	7070479	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
12	PTPN6	ENSG00000111679	ENST00000534900	processed_transcript	KNOWN	None	9658	None	None	7055773	7064336	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
12	PTPN6	ENSG00000111679	ENST00000538318	retained_intron	KNOWN	None	9658	None	None	7055873	7064430	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
12	PTPN6	ENSG00000111679	ENST00000538715	protein_coding	PUTATIVE	None	9658	495	164	7060425	7064136	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
12	PTPN6	ENSG00000111679	ENST00000318974	protein_coding	KNOWN	CCDS44820	9658	1788	595	7060432	7070476	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
12	PTPN6	ENSG00000111679	ENST00000543744	retained_intron	KNOWN	None	9658	None	None	7060448	7062578	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
12	PTPN6	ENSG00000111679	ENST00000540740	processed_transcript	KNOWN	None	9658	None	None	7060519	7064010	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
12	PTPN6	ENSG00000111679	ENST00000416215	retained_intron	KNOWN	None	9658	None	None	7060519	7070479	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
12	PTPN6	ENSG00000111679	ENST00000545153	nonsense_mediated_decay	KNOWN	None	9658	219	72	7060535	7064648	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
12	PTPN6	ENSG00000111679	ENST00000536521	retained_intron	KNOWN	None	9658	None	None	7060536	7061387	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
12	PTPN6	ENSG00000111679	ENST00000535462	nonsense_mediated_decay	KNOWN	None	9658	183	60	7060536	7064078	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
12	PTPN6	ENSG00000111679	ENST00000541698	protein_coding	PUTATIVE	None	9658	452	149	7060536	7064349	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
12	PTPN6	ENSG00000111679	ENST00000542462	protein_coding	PUTATIVE	None	9658	432	143	7060538	7064352	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
12	PTPN6	ENSG00000111679	ENST00000542277	processed_transcript	KNOWN	None	9658	None	None	7060598	7062764	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
12	PTPN6	ENSG00000111679	ENST00000536013	nonsense_mediated_decay	KNOWN	None	9658	171	56	7060600	7064557	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
12	PTPN6	ENSG00000111679	ENST00000539365	retained_intron	KNOWN	None	9658	None	None	7060604	7064648	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
12	PTPN6	ENSG00000111679	ENST00000539029	processed_transcript	KNOWN	None	9658	None	None	7068485	7070479	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
12	PTPN6	ENSG00000111679	ENST00000542761	retained_intron	KNOWN	None	9658	None	None	7068576	7069567	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
12	PTPN6	ENSG00000111679	ENST00000537533	processed_transcript	KNOWN	None	9658	None	None	7068739	7070479	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
12	PTPN6	ENSG00000111679	ENST00000447931	protein_coding	KNOWN	None	9658	1671	556	7055773	7070447	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
12	PTPN6	ENSG00000111679	ENST00000456013	protein_coding	KNOWN	CCDS44821	9658	1875	624	7060434	7070479	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
9	MIR4478	ENSG00000266583	ENST00000584530	miRNA	KNOWN	None	41759	None	None	124882361	124882446	-1	None	hsa-mir-4478
16	JPH3	ENSG00000154118	ENST00000537256	processed_transcript	KNOWN	None	14203	None	None	87635441	87731533	1	TNRC22	JP-3, CAGL237, HDL2, JP3
16	JPH3	ENSG00000154118	ENST00000301008	processed_transcript	KNOWN	None	14203	None	None	87636493	87638233	1	TNRC22	JP-3, CAGL237, HDL2, JP3
16	JPH3	ENSG00000154118	ENST00000284262	protein_coding	KNOWN	CCDS10962	14203	2247	748	87636511	87731762	1	TNRC22	JP-3, CAGL237, HDL2, JP3
16	JPH3	ENSG00000154118	ENST00000563609	processed_transcript	KNOWN	None	14203	None	None	87687168	87731748	1	TNRC22	JP-3, CAGL237, HDL2, JP3
4	MSMO1	ENSG00000052802	ENST00000261507	protein_coding	KNOWN	CCDS3809	10545	882	293	166248775	166264312	1	SC4MOL	DESP4, ERG25
4	MSMO1	ENSG00000052802	ENST00000507013	protein_coding	KNOWN	None	10545	662	219	166248819	166261503	1	SC4MOL	DESP4, ERG25
4	MSMO1	ENSG00000052802	ENST00000393766	protein_coding	KNOWN	CCDS43280	10545	489	162	166248838	166264181	1	SC4MOL	DESP4, ERG25
4	MSMO1	ENSG00000052802	ENST00000504317	protein_coding	PUTATIVE	None	10545	690	229	166248873	166261792	1	SC4MOL	DESP4, ERG25
4	MSMO1	ENSG00000052802	ENST00000505270	protein_coding	KNOWN	None	10545	255	84	166249079	166254777	1	SC4MOL	DESP4, ERG25
9	None	ENSG00000272317	ENST00000606638	miRNA	NOVEL	None	None	None	None	125018212	125018309	1	None	None
1	TMEM54	ENSG00000121900	ENST00000482771	processed_transcript	KNOWN	None	24143	None	None	33360195	33361188	-1	None	CAC-1
1	TMEM54	ENSG00000121900	ENST00000373463	protein_coding	KNOWN	CCDS371	24143	669	222	33360196	33366959	-1	None	CAC-1
1	TMEM54	ENSG00000121900	ENST00000329151	protein_coding	KNOWN	None	24143	510	169	33360196	33366990	-1	None	CAC-1
1	TMEM54	ENSG00000121900	ENST00000474144	processed_transcript	KNOWN	None	24143	None	None	33360342	33366953	-1	None	CAC-1
1	TMEM54	ENSG00000121900	ENST00000475208	processed_transcript	KNOWN	None	24143	None	None	33360447	33367039	-1	None	CAC-1
1	TMEM54	ENSG00000121900	ENST00000463914	processed_transcript	KNOWN	None	24143	None	None	33360906	33363357	-1	None	CAC-1
1	TMEM54	ENSG00000121900	ENST00000465967	processed_transcript	KNOWN	None	24143	None	None	33361269	33366834	-1	None	CAC-1
9	RN7SL227P	ENSG00000264227	ENST00000577788	misc_RNA	KNOWN	None	46243	None	None	125061389	125061642	-1	None	None
9	None	ENSG00000269979	ENST00000602625	lincRNA	KNOWN	None	None	None	None	125086887	125087594	1	None	None
14	DTD2	ENSG00000129480	ENST00000310850	protein_coding	KNOWN	CCDS9643	20277	507	168	31915242	31926716	-1	C14orf126	MGC9912
14	DTD2	ENSG00000129480	ENST00000549850	nonsense_mediated_decay	KNOWN	None	20277	207	68	31917368	31926694	-1	C14orf126	MGC9912
14	DTD2	ENSG00000129480	ENST00000356180	protein_coding	KNOWN	CCDS9643	20277	507	168	31916198	31926631	-1	C14orf126	MGC9912
9	None	ENSG00000270102	ENST00000602692	lincRNA	KNOWN	None	None	None	None	125093146	125093622	1	None	None
9	None	ENSG00000269970	ENST00000602325	sense_intronic	KNOWN	None	None	None	None	125134884	125135104	1	None	None
18	RAB27B	ENSG00000041353	ENST00000586570	protein_coding	KNOWN	None	9767	262	86	52385091	52551586	1	None	None
18	RAB27B	ENSG00000041353	ENST00000262094	protein_coding	KNOWN	CCDS11958	9767	657	218	52495430	52562747	1	None	None
18	RAB27B	ENSG00000041353	ENST00000586594	processed_transcript	KNOWN	None	9767	None	None	52495712	52555344	1	None	None
18	RAB27B	ENSG00000041353	ENST00000592334	protein_coding	PUTATIVE	None	9767	394	130	52551588	52560532	1	None	None
9	None	ENSG00000233616	ENST00000439471	lincRNA	KNOWN	None	None	None	None	125163249	125165185	-1	None	None
16	SIAH1	ENSG00000196470	ENST00000565620	processed_transcript	PUTATIVE	None	10857	None	None	48390275	48395703	-1	None	hSIAH1
16	SIAH1	ENSG00000196470	ENST00000568007	nonsense_mediated_decay	KNOWN	CCDS10735	10857	849	282	48390275	48482313	-1	None	hSIAH1
16	SIAH1	ENSG00000196470	ENST00000380006	protein_coding	KNOWN	CCDS10735	10857	849	282	48394442	48397793	-1	None	hSIAH1
16	SIAH1	ENSG00000196470	ENST00000356721	protein_coding	KNOWN	CCDS32444	10857	942	313	48394442	48399812	-1	None	hSIAH1
16	SIAH1	ENSG00000196470	ENST00000394725	protein_coding	KNOWN	CCDS10735	10857	849	282	48394442	48419361	-1	None	hSIAH1
16	SIAH1	ENSG00000196470	ENST00000563745	protein_coding	KNOWN	None	10857	296	97	48396044	48427866	-1	None	hSIAH1
16	SIAH1	ENSG00000196470	ENST00000573005	processed_transcript	PUTATIVE	None	10857	None	None	48398761	48399635	-1	None	hSIAH1
16	SIAH1	ENSG00000196470	ENST00000567973	processed_transcript	KNOWN	None	10857	None	None	48421109	48451230	-1	None	hSIAH1
9	None	ENSG00000229245	ENST00000433572	antisense	KNOWN	None	None	None	None	125165686	125211256	1	None	None
12	ACADS	ENSG00000122971	ENST00000242592	protein_coding	KNOWN	CCDS9207	90	1239	412	121163538	121177811	1	None	SCAD, ACAD3
12	ACADS	ENSG00000122971	ENST00000539690	retained_intron	KNOWN	None	90	None	None	121163577	121175608	1	None	SCAD, ACAD3
12	ACADS	ENSG00000122971	ENST00000411593	protein_coding	NOVEL	None	90	1227	408	121163664	121177397	1	None	SCAD, ACAD3
15	TYRO3	ENSG00000092445	ENST00000559066	protein_coding	PUTATIVE	None	12446	2538	845	41849873	41871003	1	RSE	Dtk, Brt, Tif, Sky
15	TYRO3	ENSG00000092445	ENST00000263798	protein_coding	KNOWN	CCDS10080	12446	2673	890	41851232	41871526	1	RSE	Dtk, Brt, Tif, Sky
15	TYRO3	ENSG00000092445	ENST00000560992	retained_intron	KNOWN	None	12446	None	None	41851425	41854553	1	RSE	Dtk, Brt, Tif, Sky
15	TYRO3	ENSG00000092445	ENST00000560227	retained_intron	KNOWN	None	12446	None	None	41856982	41860463	1	RSE	Dtk, Brt, Tif, Sky
15	TYRO3	ENSG00000092445	ENST00000559815	nonsense_mediated_decay	KNOWN	None	12446	365	120	41859577	41862537	1	RSE	Dtk, Brt, Tif, Sky
15	TYRO3	ENSG00000092445	ENST00000568343	protein_coding	NOVEL	None	12446	856	284	41862875	41870171	1	RSE	Dtk, Brt, Tif, Sky
15	TYRO3	ENSG00000092445	ENST00000560162	retained_intron	KNOWN	None	12446	None	None	41863136	41865575	1	RSE	Dtk, Brt, Tif, Sky
15	TYRO3	ENSG00000092445	ENST00000559851	nonsense_mediated_decay	KNOWN	None	12446	66	21	41863301	41865665	1	RSE	Dtk, Brt, Tif, Sky
15	TYRO3	ENSG00000092445	ENST00000568490	retained_intron	KNOWN	None	12446	None	None	41869533	41871536	1	RSE	Dtk, Brt, Tif, Sky
14	GPR33	ENSG00000214943	ENST00000399285	polymorphic_pseudogene	KNOWN	None	4489	999	332	31952173	31953171	-1	None	None
17	MFSD11	ENSG00000092931	ENST00000586622	protein_coding	KNOWN	CCDS11750	25458	1350	449	74731947	74774899	1	None	FLJ22196, FLJ20226
17	MFSD11	ENSG00000092931	ENST00000588460	protein_coding	KNOWN	CCDS11750	25458	1350	449	74732393	74774654	1	None	FLJ22196, FLJ20226
17	MFSD11	ENSG00000092931	ENST00000591864	protein_coding	PUTATIVE	None	25458	126	41	74732935	74734570	1	None	FLJ22196, FLJ20226
17	MFSD11	ENSG00000092931	ENST00000590393	protein_coding	PUTATIVE	None	25458	126	41	74733469	74734609	1	None	FLJ22196, FLJ20226
17	MFSD11	ENSG00000092931	ENST00000586689	protein_coding	KNOWN	None	25458	186	61	74733761	74737072	1	None	FLJ22196, FLJ20226
17	MFSD11	ENSG00000092931	ENST00000587661	protein_coding	KNOWN	None	25458	340	112	74733761	74738130	1	None	FLJ22196, FLJ20226
17	MFSD11	ENSG00000092931	ENST00000593181	protein_coding	KNOWN	CCDS56045	25458	1194	397	74733777	74774809	1	None	FLJ22196, FLJ20226
17	MFSD11	ENSG00000092931	ENST00000336509	protein_coding	KNOWN	CCDS11750	25458	1350	449	74733783	74775368	1	None	FLJ22196, FLJ20226
17	MFSD11	ENSG00000092931	ENST00000590514	protein_coding	KNOWN	CCDS11750	25458	1350	449	74734153	74774809	1	None	FLJ22196, FLJ20226
17	MFSD11	ENSG00000092931	ENST00000588031	nonsense_mediated_decay	KNOWN	None	25458	345	114	74734178	74740548	1	None	FLJ22196, FLJ20226
17	MFSD11	ENSG00000092931	ENST00000588670	nonsense_mediated_decay	KNOWN	None	25458	336	111	74734366	74765953	1	None	FLJ22196, FLJ20226
17	MFSD11	ENSG00000092931	ENST00000588768	nonsense_mediated_decay	KNOWN	None	25458	387	128	74734492	74771163	1	None	FLJ22196, FLJ20226
17	MFSD11	ENSG00000092931	ENST00000585584	nonsense_mediated_decay	KNOWN	None	25458	354	117	74738273	74765922	1	None	FLJ22196, FLJ20226
17	MFSD11	ENSG00000092931	ENST00000585958	processed_transcript	KNOWN	None	25458	None	None	74744013	74771172	1	None	FLJ22196, FLJ20226
17	MFSD11	ENSG00000092931	ENST00000585692	retained_intron	KNOWN	None	25458	None	None	74763085	74774347	1	None	FLJ22196, FLJ20226
17	MFSD11	ENSG00000092931	ENST00000585865	protein_coding	PUTATIVE	None	25458	634	210	74763523	74777531	1	None	FLJ22196, FLJ20226
17	MFSD11	ENSG00000092931	ENST00000588647	retained_intron	KNOWN	None	25458	None	None	74765273	74771242	1	None	FLJ22196, FLJ20226
17	MFSD11	ENSG00000092931	ENST00000590070	processed_transcript	KNOWN	None	25458	None	None	74769179	74774420	1	None	FLJ22196, FLJ20226
17	MFSD11	ENSG00000092931	ENST00000355954	protein_coding	KNOWN	CCDS56045	25458	1194	397	74733783	74775336	1	None	FLJ22196, FLJ20226
9	None	ENSG00000231465	ENST00000412262	antisense	KNOWN	None	None	None	None	125233637	125238096	1	None	None
2	TANC1	ENSG00000115183	ENST00000263635	protein_coding	KNOWN	CCDS42766	29364	5586	1861	159825183	160089170	1	None	KIAA1728, ROLSB
2	TANC1	ENSG00000115183	ENST00000464096	retained_intron	KNOWN	None	29364	None	None	159992710	160007288	1	None	KIAA1728, ROLSB
2	TANC1	ENSG00000115183	ENST00000465963	retained_intron	KNOWN	None	29364	None	None	160004051	160007288	1	None	KIAA1728, ROLSB
2	TANC1	ENSG00000115183	ENST00000470074	retained_intron	KNOWN	None	29364	None	None	160055529	160089166	1	None	KIAA1728, ROLSB
2	TANC1	ENSG00000115183	ENST00000496406	retained_intron	KNOWN	None	29364	None	None	160080904	160089170	1	None	KIAA1728, ROLSB
2	TANC1	ENSG00000115183	ENST00000454300	protein_coding	KNOWN	None	29364	5268	1755	159825146	160089166	1	None	KIAA1728, ROLSB
5	OR2V1	ENSG00000185372	ENST00000329365	protein_coding	KNOWN	CCDS58992	8280	948	315	180551357	180552304	-1	OR2V1P	OST265
9	OR1H1P	ENSG00000228914	ENST00000448731	processed_pseudogene	KNOWN	None	8206	None	None	125370315	125371079	1	OR1H1	OST26
5	MXD3	ENSG00000213347	ENST00000503473	retained_intron	KNOWN	None	14008	None	None	176728462	176738871	-1	None	MAD3, bHLHc13
5	MXD3	ENSG00000213347	ENST00000509339	retained_intron	KNOWN	None	14008	None	None	176729753	176735063	-1	None	MAD3, bHLHc13
5	MXD3	ENSG00000213347	ENST00000427908	protein_coding	KNOWN	CCDS47347	14008	582	193	176732501	176738899	-1	None	MAD3, bHLHc13
5	MXD3	ENSG00000213347	ENST00000423571	protein_coding	PUTATIVE	None	14008	1167	388	176733818	176738896	-1	None	MAD3, bHLHc13
5	MXD3	ENSG00000213347	ENST00000439742	protein_coding	KNOWN	CCDS4416	14008	621	206	176734206	176739310	-1	None	MAD3, bHLHc13
5	MXD3	ENSG00000213347	ENST00000503782	retained_intron	KNOWN	None	14008	None	None	176734209	176738876	-1	None	MAD3, bHLHc13
5	MXD3	ENSG00000213347	ENST00000513063	protein_coding	KNOWN	CCDS4416	14008	621	206	176734436	176739758	-1	None	MAD3, bHLHc13
5	MXD3	ENSG00000213347	ENST00000513169	protein_coding	PUTATIVE	None	14008	224	73	176734814	176738883	-1	None	MAD3, bHLHc13
5	MXD3	ENSG00000213347	ENST00000502529	protein_coding	NOVEL	None	14008	374	123	176734883	176738897	-1	None	MAD3, bHLHc13
5	OR2V2	ENSG00000182613	ENST00000328275	protein_coding	KNOWN	CCDS4461	15341	948	315	180581943	180582890	1	OR2V3	OST713
1	ASPM	ENSG00000066279	ENST00000367409	protein_coding	KNOWN	CCDS1389	19048	10434	3477	197053258	197115824	-1	MCPH5	Calmbp1, ASP, FLJ10517, FLJ10549
1	ASPM	ENSG00000066279	ENST00000367408	protein_coding	KNOWN	None	19048	3429	1142	197053262	197104274	-1	MCPH5	Calmbp1, ASP, FLJ10517, FLJ10549
1	ASPM	ENSG00000066279	ENST00000294732	protein_coding	KNOWN	CCDS55672	19048	5679	1892	197053258	197115824	-1	MCPH5	Calmbp1, ASP, FLJ10517, FLJ10549
HSCHR6_MHC_SSTO	C2	ENSG00000235696	ENST00000466858	processed_transcript	KNOWN	None	1248	None	None	31879619	31897087	1	None	None
HSCHR6_MHC_SSTO	C2	ENSG00000235696	ENST00000446097	protein_coding	KNOWN	None	1248	419	138	31879662	31888573	1	None	None
HSCHR6_MHC_SSTO	C2	ENSG00000235696	ENST00000497736	processed_transcript	KNOWN	None	1248	None	None	31879774	31895619	1	None	None
HSCHR6_MHC_SSTO	C2	ENSG00000235696	ENST00000411803	protein_coding	KNOWN	None	1248	2259	752	31887171	31905301	1	None	None
HSCHR6_MHC_SSTO	C2	ENSG00000235696	ENST00000413649	protein_coding	KNOWN	None	1248	377	124	31887204	31893359	1	None	None
HSCHR6_MHC_SSTO	C2	ENSG00000235696	ENST00000417322	protein_coding	KNOWN	None	1248	1059	352	31887210	31902948	1	None	None
HSCHR6_MHC_SSTO	C2	ENSG00000235696	ENST00000491198	retained_intron	KNOWN	None	1248	None	None	31887382	31894687	1	None	None
HSCHR6_MHC_SSTO	C2	ENSG00000235696	ENST00000452763	protein_coding	KNOWN	None	1248	1578	525	31887442	31905301	1	None	None
HSCHR6_MHC_SSTO	C2	ENSG00000235696	ENST00000480625	processed_transcript	PUTATIVE	None	1248	None	None	31891977	31893911	1	None	None
HSCHR6_MHC_SSTO	C2	ENSG00000235696	ENST00000491080	processed_transcript	PUTATIVE	None	1248	None	None	31893239	31905301	1	None	None
HSCHR6_MHC_SSTO	C2	ENSG00000235696	ENST00000436560	protein_coding	KNOWN	None	1248	435	144	31893239	31898879	1	None	None
HSCHR6_MHC_SSTO	C2	ENSG00000235696	ENST00000422470	protein_coding	KNOWN	None	1248	403	133	31893239	31893924	1	None	None
HSCHR6_MHC_SSTO	C2	ENSG00000235696	ENST00000490020	processed_transcript	KNOWN	None	1248	None	None	31893912	31903387	1	None	None
HSCHR6_MHC_SSTO	C2	ENSG00000235696	ENST00000472803	retained_intron	KNOWN	None	1248	None	None	31895684	31905301	1	None	None
HSCHR6_MHC_SSTO	C2	ENSG00000235696	ENST00000492777	processed_transcript	KNOWN	None	1248	None	None	31903302	31905301	1	None	None
HSCHR6_MHC_SSTO	C2	ENSG00000235696	ENST00000549972	protein_coding	KNOWN	None	1248	1863	620	31887168	31905298	1	None	None
HSCHR6_MHC_SSTO	C2	ENSG00000235696	ENST00000548500	protein_coding	KNOWN	None	1248	1521	506	31887168	31905298	1	None	None
HSCHR6_MHC_SSTO	C2	ENSG00000235696	ENST00000550129	protein_coding	KNOWN	None	1248	975	324	31887168	31905298	1	None	None
HSCHR6_MHC_SSTO	C2	ENSG00000235696	ENST00000550045	protein_coding	KNOWN	None	1248	1134	377	31887168	31905298	1	None	None
13	CPB2	ENSG00000080618	ENST00000181383	protein_coding	KNOWN	CCDS9401	2300	1272	423	46627321	46679161	-1	None	CPU, PCPB, TAFI
13	CPB2	ENSG00000080618	ENST00000439329	protein_coding	KNOWN	None	2300	1083	360	46627322	46679211	-1	None	CPU, PCPB, TAFI
17	MED1	ENSG00000125686	ENST00000394287	protein_coding	PUTATIVE	None	9234	1671	556	37560538	37607521	-1	TRIP2, PPARGBP, PPARBP	PBP, TRAP220, RB18A, DRIP230, CRSP200, CRSP1
17	MED1	ENSG00000125686	ENST00000300651	protein_coding	KNOWN	CCDS11336	9234	4746	1581	37562854	37607539	-1	TRIP2, PPARGBP, PPARBP	PBP, TRAP220, RB18A, DRIP230, CRSP200, CRSP1
17	MED1	ENSG00000125686	ENST00000577831	nonsense_mediated_decay	KNOWN	None	9234	294	97	37563967	37607525	-1	TRIP2, PPARGBP, PPARBP	PBP, TRAP220, RB18A, DRIP230, CRSP200, CRSP1
17	MED1	ENSG00000125686	ENST00000584308	retained_intron	KNOWN	None	9234	None	None	37583699	37587489	-1	TRIP2, PPARGBP, PPARBP	PBP, TRAP220, RB18A, DRIP230, CRSP200, CRSP1
17	MED1	ENSG00000125686	ENST00000581334	nonsense_mediated_decay	KNOWN	None	9234	240	79	37599803	37607525	-1	TRIP2, PPARGBP, PPARBP	PBP, TRAP220, RB18A, DRIP230, CRSP200, CRSP1
16	CTRL	ENSG00000141086	ENST00000573845	processed_transcript	KNOWN	None	2524	None	None	67961543	67963577	-1	None	None
16	CTRL	ENSG00000141086	ENST00000574481	protein_coding	KNOWN	CCDS10852	2524	795	264	67963473	67966317	-1	None	None
16	CTRL	ENSG00000141086	ENST00000572144	retained_intron	KNOWN	None	2524	None	None	67963482	67966268	-1	None	None
16	CTRL	ENSG00000141086	ENST00000576915	retained_intron	KNOWN	None	2524	None	None	67963801	67965388	-1	None	None
16	CTRL	ENSG00000141086	ENST00000571044	protein_coding	NOVEL	None	2524	572	189	67963855	67965765	-1	None	None
16	CTRL	ENSG00000141086	ENST00000571605	protein_coding	NOVEL	None	2524	570	189	67963939	67965765	-1	None	None
16	CTRL	ENSG00000141086	ENST00000576408	processed_transcript	KNOWN	None	2524	None	None	67964640	67966016	-1	None	None
16	CTRL	ENSG00000141086	ENST00000575302	retained_intron	KNOWN	None	2524	None	None	67964878	67965577	-1	None	None
19	CRB3	ENSG00000130545	ENST00000598494	protein_coding	KNOWN	CCDS12167	20237	363	120	6463788	6467232	1	None	MGC17303
19	CRB3	ENSG00000130545	ENST00000600229	protein_coding	KNOWN	CCDS12167	20237	363	120	6464290	6467232	1	None	MGC17303
19	CRB3	ENSG00000130545	ENST00000356762	protein_coding	KNOWN	CCDS12166	20237	372	123	6464294	6467232	1	None	MGC17303
19	CRB3	ENSG00000130545	ENST00000308243	protein_coding	KNOWN	CCDS12167	20237	363	120	6464542	6466780	1	None	MGC17303
20	OTOR	ENSG00000125879	ENST00000246081	protein_coding	KNOWN	CCDS13124	8517	387	128	16729003	16732809	1	None	MIAL, MIAL1, FDP
20	OTOR	ENSG00000125879	ENST00000486129	processed_transcript	KNOWN	None	8517	None	None	16730005	16732427	1	None	MIAL, MIAL1, FDP
20	OTOR	ENSG00000125879	ENST00000490148	processed_transcript	KNOWN	None	8517	None	None	16730019	16750707	1	None	MIAL, MIAL1, FDP
1	LRIG2	ENSG00000198799	ENST00000361127	protein_coding	KNOWN	CCDS30808	20889	3198	1065	113615831	113667824	1	None	KIAA0806
1	LRIG2	ENSG00000198799	ENST00000466069	processed_transcript	KNOWN	None	20889	None	None	113641345	113650448	1	None	KIAA0806
1	LRIG2	ENSG00000198799	ENST00000470000	processed_transcript	KNOWN	None	20889	None	None	113642833	113643334	1	None	KIAA0806
1	LRIG2	ENSG00000198799	ENST00000492207	processed_transcript	KNOWN	None	20889	None	None	113643019	113669822	1	None	KIAA0806
1	LRIG2	ENSG00000198799	ENST00000466161	processed_transcript	KNOWN	None	20889	None	None	113645823	113667619	1	None	KIAA0806
20	VPS16	ENSG00000215305	ENST00000380445	protein_coding	KNOWN	CCDS13036	14584	2520	839	2821349	2847378	1	None	None
20	VPS16	ENSG00000215305	ENST00000380469	protein_coding	KNOWN	CCDS13037	14584	2088	695	2821349	2847378	1	None	None
20	VPS16	ENSG00000215305	ENST00000453689	protein_coding	KNOWN	None	14584	824	273	2821406	2844728	1	None	None
20	VPS16	ENSG00000215305	ENST00000417508	protein_coding	KNOWN	None	14584	680	225	2821409	2842739	1	None	None
20	VPS16	ENSG00000215305	ENST00000481812	processed_transcript	KNOWN	None	14584	None	None	2841616	2844876	1	None	None
20	VPS16	ENSG00000215305	ENST00000380443	protein_coding	KNOWN	None	14584	1578	525	2843103	2847378	1	None	None
20	VPS16	ENSG00000215305	ENST00000487461	processed_transcript	KNOWN	None	14584	None	None	2844017	2845684	1	None	None
20	VPS16	ENSG00000215305	ENST00000466415	processed_transcript	KNOWN	None	14584	None	None	2846557	2847378	1	None	None
HSCHR6_MHC_DBB	HLA-G	ENSG00000235346	ENST00000420559	protein_coding	KNOWN	None	4964	1032	343	29791968	29796126	1	None	None
HSCHR6_MHC_DBB	HLA-G	ENSG00000235346	ENST00000423373	protein_coding	KNOWN	None	4964	1017	338	29792822	29796126	1	None	None
HSCHR6_MHC_DBB	HLA-G	ENSG00000235346	ENST00000484755	retained_intron	KNOWN	None	4964	None	None	29792846	29796126	1	None	None
HSCHR6_MHC_DBB	HLA-G	ENSG00000235346	ENST00000452577	protein_coding	KNOWN	None	4964	741	246	29792846	29796126	1	None	None
HSCHR6_MHC_DBB	HLA-G	ENSG00000235346	ENST00000469347	nonsense_mediated_decay	KNOWN	None	4964	741	246	29792846	29796126	1	None	None
HSCHR6_MHC_DBB	HLA-G	ENSG00000235346	ENST00000457132	protein_coding	KNOWN	None	4964	465	154	29792846	29796126	1	None	None
HSCHR6_MHC_DBB	HLA-G	ENSG00000235346	ENST00000546634	protein_coding	KNOWN	None	4964	1017	338	29791980	29796123	1	None	None
3	WDR48	ENSG00000114742	ENST00000302313	protein_coding	KNOWN	CCDS33738	30914	2034	677	39093489	39137879	1	None	KIAA1449, P80
3	WDR48	ENSG00000114742	ENST00000423296	nonsense_mediated_decay	KNOWN	None	30914	405	134	39093504	39110311	1	None	KIAA1449, P80
3	WDR48	ENSG00000114742	ENST00000413099	nonsense_mediated_decay	KNOWN	None	30914	192	63	39093507	39136569	1	None	KIAA1449, P80
3	WDR48	ENSG00000114742	ENST00000433841	nonsense_mediated_decay	KNOWN	None	30914	225	74	39093510	39111181	1	None	KIAA1449, P80
3	WDR48	ENSG00000114742	ENST00000420940	nonsense_mediated_decay	KNOWN	None	30914	363	120	39093511	39138155	1	None	KIAA1449, P80
3	WDR48	ENSG00000114742	ENST00000441361	protein_coding	PUTATIVE	None	30914	486	161	39093792	39116240	1	None	KIAA1449, P80
3	WDR48	ENSG00000114742	ENST00000489838	processed_transcript	PUTATIVE	None	30914	None	None	39119502	39125678	1	None	KIAA1449, P80
3	WDR48	ENSG00000114742	ENST00000463198	processed_transcript	KNOWN	None	30914	None	None	39119652	39127875	1	None	KIAA1449, P80
3	WDR48	ENSG00000114742	ENST00000477197	processed_transcript	PUTATIVE	None	30914	None	None	39129309	39133185	1	None	KIAA1449, P80
3	WDR48	ENSG00000114742	ENST00000466405	processed_transcript	KNOWN	None	30914	None	None	39131059	39138155	1	None	KIAA1449, P80
3	WDR48	ENSG00000114742	ENST00000544962	protein_coding	KNOWN	None	30914	1209	402	39093507	39137879	1	None	KIAA1449, P80
3	WDR48	ENSG00000114742	ENST00000396258	protein_coding	KNOWN	None	30914	1788	595	39093507	39137879	1	None	KIAA1449, P80
3	WDR48	ENSG00000114742	ENST00000418020	protein_coding	KNOWN	None	30914	366	121	39093507	39136351	1	None	KIAA1449, P80
1	RNF19B	ENSG00000116514	ENST00000373456	protein_coding	KNOWN	CCDS372	26886	2199	732	33402046	33430286	-1	IBRDC3	FLJ90005
1	RNF19B	ENSG00000116514	ENST00000356990	protein_coding	KNOWN	CCDS44107	26886	1764	587	33402055	33430286	-1	IBRDC3	FLJ90005
1	RNF19B	ENSG00000116514	ENST00000235150	protein_coding	KNOWN	None	26886	2196	731	33402269	33430286	-1	IBRDC3	FLJ90005
7	COL28A1	ENSG00000215018	ENST00000430711	nonsense_mediated_decay	KNOWN	None	22442	429	142	7395834	7410472	-1	None	None
7	COL28A1	ENSG00000215018	ENST00000453441	protein_coding	KNOWN	None	22442	243	80	7396199	7400090	-1	None	None
7	COL28A1	ENSG00000215018	ENST00000399429	protein_coding	KNOWN	CCDS43553	22442	3378	1125	7397506	7575484	-1	None	None
7	COL28A1	ENSG00000215018	ENST00000465339	retained_intron	KNOWN	None	22442	None	None	7457263	7459941	-1	None	None
7	COL28A1	ENSG00000215018	ENST00000444268	nonsense_mediated_decay	KNOWN	None	22442	204	67	7457263	7559704	-1	None	None
7	COL28A1	ENSG00000215018	ENST00000435823	protein_coding	PUTATIVE	None	22442	393	130	7470849	7477066	-1	None	None
14	NUBPL	ENSG00000151413	ENST00000550005	protein_coding	PUTATIVE	None	20278	163	53	31959162	32031403	1	C14orf127	FLJ12660, IND1, huInd1
14	NUBPL	ENSG00000151413	ENST00000552814	processed_transcript	KNOWN	None	20278	None	None	31995361	32027301	1	C14orf127	FLJ12660, IND1, huInd1
14	NUBPL	ENSG00000151413	ENST00000550649	protein_coding	NOVEL	None	20278	502	166	32030591	32328330	1	C14orf127	FLJ12660, IND1, huInd1
14	NUBPL	ENSG00000151413	ENST00000281081	protein_coding	KNOWN	CCDS41940	20278	960	319	32030601	32330430	1	C14orf127	FLJ12660, IND1, huInd1
14	NUBPL	ENSG00000151413	ENST00000547839	nonsense_mediated_decay	KNOWN	None	20278	522	173	32030604	32329479	1	C14orf127	FLJ12660, IND1, huInd1
14	NUBPL	ENSG00000151413	ENST00000548937	processed_transcript	KNOWN	None	20278	None	None	32030642	32172383	1	C14orf127	FLJ12660, IND1, huInd1
14	NUBPL	ENSG00000151413	ENST00000552489	nonsense_mediated_decay	KNOWN	None	20278	312	103	32030646	32142714	1	C14orf127	FLJ12660, IND1, huInd1
14	NUBPL	ENSG00000151413	ENST00000549838	nonsense_mediated_decay	KNOWN	None	20278	393	130	32030682	32256999	1	C14orf127	FLJ12660, IND1, huInd1
14	NUBPL	ENSG00000151413	ENST00000550355	processed_transcript	KNOWN	None	20278	None	None	32030697	32142755	1	C14orf127	FLJ12660, IND1, huInd1
14	NUBPL	ENSG00000151413	ENST00000551314	protein_coding	PUTATIVE	None	20278	400	132	32030830	32257028	1	C14orf127	FLJ12660, IND1, huInd1
14	NUBPL	ENSG00000151413	ENST00000418681	processed_transcript	KNOWN	None	20278	None	None	32183775	32329508	1	C14orf127	FLJ12660, IND1, huInd1
14	NUBPL	ENSG00000151413	ENST00000551015	processed_transcript	KNOWN	None	20278	None	None	32270063	32319301	1	C14orf127	FLJ12660, IND1, huInd1
14	NUBPL	ENSG00000151413	ENST00000552888	retained_intron	KNOWN	None	20278	None	None	32312950	32330424	1	C14orf127	FLJ12660, IND1, huInd1
14	NUBPL	ENSG00000151413	ENST00000536705	protein_coding	KNOWN	None	20278	672	223	32068445	32330399	1	C14orf127	FLJ12660, IND1, huInd1
22	LINC00528	ENSG00000269220	ENST00000600723	protein_coding	KNOWN	None	26875	513	170	18260088	18262247	1	C22orf37	FLJ40542
5	TRIM7	ENSG00000146054	ENST00000274773	protein_coding	KNOWN	CCDS4462	16278	1536	511	180620924	180632172	-1	None	RNF90, GNIP
5	TRIM7	ENSG00000146054	ENST00000504241	processed_transcript	KNOWN	None	16278	None	None	180620930	180625757	-1	None	RNF90, GNIP
5	TRIM7	ENSG00000146054	ENST00000393319	protein_coding	KNOWN	CCDS43414	16278	990	329	180621613	180627930	-1	None	RNF90, GNIP
5	TRIM7	ENSG00000146054	ENST00000422067	protein_coding	KNOWN	CCDS4463	16278	912	303	180621613	180631340	-1	None	RNF90, GNIP
5	TRIM7	ENSG00000146054	ENST00000509199	processed_transcript	PUTATIVE	None	16278	None	None	180630118	180630820	-1	None	RNF90, GNIP
5	TRIM7	ENSG00000146054	ENST00000334421	protein_coding	KNOWN	CCDS4464	16278	666	221	180630118	180632293	-1	None	RNF90, GNIP
5	TRIM7	ENSG00000146054	ENST00000393315	protein_coding	KNOWN	CCDS4463	16278	912	303	180620925	180631340	-1	None	RNF90, GNIP
5	TRIM7	ENSG00000146054	ENST00000361809	protein_coding	KNOWN	CCDS4463	16278	912	303	180620925	180631340	-1	None	RNF90, GNIP
9	GVQW1	ENSG00000241043	ENST00000451672	protein_coding	PUTATIVE	None	31424	588	195	32566787	32568619	1	TIGD1L2	bA205M20.5
17	PIRT	ENSG00000233670	ENST00000580256	protein_coding	KNOWN	CCDS45614	37239	414	137	10727808	10741762	-1	None	None
7	POM121L12	ENSG00000221900	ENST00000408890	protein_coding	KNOWN	CCDS43584	25369	891	296	53103349	53104617	1	None	DKFZp564N2472
9	TAF1L	ENSG00000122728	ENST00000242310	protein_coding	KNOWN	CCDS35003	18056	5481	1826	32629452	32635667	-1	None	None
12	SPPL3	ENSG00000157837	ENST00000353487	protein_coding	KNOWN	CCDS9208	30424	1155	384	121200313	121342174	-1	None	IMP2, PSL4, MGC90402, MGC126674, MGC126676, DKFZP586C1324
12	SPPL3	ENSG00000157837	ENST00000392495	retained_intron	KNOWN	None	30424	None	None	121202268	121207940	-1	None	IMP2, PSL4, MGC90402, MGC126674, MGC126676, DKFZP586C1324
12	SPPL3	ENSG00000157837	ENST00000545209	retained_intron	KNOWN	None	30424	None	None	121202694	121206434	-1	None	IMP2, PSL4, MGC90402, MGC126674, MGC126676, DKFZP586C1324
12	SPPL3	ENSG00000157837	ENST00000536996	protein_coding	PUTATIVE	None	30424	549	182	121206241	121341297	-1	None	IMP2, PSL4, MGC90402, MGC126674, MGC126676, DKFZP586C1324
12	SPPL3	ENSG00000157837	ENST00000543608	protein_coding	PUTATIVE	None	30424	493	163	121206761	121341173	-1	None	IMP2, PSL4, MGC90402, MGC126674, MGC126676, DKFZP586C1324
12	SPPL3	ENSG00000157837	ENST00000543854	protein_coding	PUTATIVE	None	30424	307	101	121206800	121341173	-1	None	IMP2, PSL4, MGC90402, MGC126674, MGC126676, DKFZP586C1324
12	SPPL3	ENSG00000157837	ENST00000543181	protein_coding	PUTATIVE	None	30424	356	117	121220493	121273460	-1	None	IMP2, PSL4, MGC90402, MGC126674, MGC126676, DKFZP586C1324
12	SPPL3	ENSG00000157837	ENST00000534966	retained_intron	KNOWN	None	30424	None	None	121222006	121229748	-1	None	IMP2, PSL4, MGC90402, MGC126674, MGC126676, DKFZP586C1324
12	SPPL3	ENSG00000157837	ENST00000540091	protein_coding	PUTATIVE	None	30424	199	65	121222277	121249245	-1	None	IMP2, PSL4, MGC90402, MGC126674, MGC126676, DKFZP586C1324
HSCHR6_MHC_SSTO	None	ENSG00000225432	ENST00000455823	processed_transcript	KNOWN	None	None	None	None	29464960	29478007	1	None	None
1	None	ENSG00000267885	ENST00000594612	protein_coding	KNOWN	None	None	375	124	33439268	33439642	1	None	None
20	PCSK2	ENSG00000125851	ENST00000377899	protein_coding	KNOWN	CCDS56180	8744	1860	619	17206752	17465223	1	NEC2	PC2, SPC2
20	PCSK2	ENSG00000125851	ENST00000262545	protein_coding	KNOWN	CCDS13125	8744	1917	638	17207636	17465223	1	NEC2	PC2, SPC2
20	PCSK2	ENSG00000125851	ENST00000536609	protein_coding	KNOWN	CCDS56179	8744	1812	603	17207701	17462928	1	NEC2	PC2, SPC2
20	PCSK2	ENSG00000125851	ENST00000470007	processed_transcript	KNOWN	None	8744	None	None	17208776	17389955	1	NEC2	PC2, SPC2
20	PCSK2	ENSG00000125851	ENST00000459871	processed_transcript	KNOWN	None	8744	None	None	17444078	17462932	1	NEC2	PC2, SPC2
10	C10orf129	ENSG00000173124	ENST00000327739	nonsense_mediated_decay	KNOWN	None	31665	426	141	96953957	96986162	1	None	bA310E22.3
10	C10orf129	ENSG00000173124	ENST00000404473	nonsense_mediated_decay	KNOWN	None	31665	258	85	96954234	96985092	1	None	bA310E22.3
10	C10orf129	ENSG00000173124	ENST00000394005	protein_coding	KNOWN	CCDS7440	31665	1443	480	96954234	96988681	1	None	bA310E22.3
10	C10orf129	ENSG00000173124	ENST00000341686	protein_coding	KNOWN	CCDS7440	31665	1443	480	96953957	96988685	1	None	bA310E22.3
10	C10orf129	ENSG00000173124	ENST00000430183	protein_coding	KNOWN	None	31665	561	186	96953957	96988685	1	None	bA310E22.3
HSCHR6_MHC_SSTO	None	ENSG00000229383	ENST00000444360	processed_transcript	KNOWN	None	None	None	None	29496876	29501024	1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000229383	ENST00000453280	processed_transcript	KNOWN	None	None	None	None	29496932	29499613	1	None	None
HSCHR6_MHC_SSTO	GPR53P	ENSG00000234992	ENST00000416813	unprocessed_pseudogene	KNOWN	None	4509	None	None	29505160	29506243	-1	None	PsiGPR53, dJ271M21.8
9	TMEM215	ENSG00000188133	ENST00000342743	protein_coding	KNOWN	CCDS6530	33816	708	235	32783497	32787397	1	None	None
HSCHR6_MHC_SSTO	SUMO2P1	ENSG00000235666	ENST00000418008	processed_pseudogene	KNOWN	None	13985	None	None	29603537	29603820	-1	SMT3H2P, SUMO2P	SMT3Bp, dJ271M21
HSCHR6_MHC_SSTO	SUMO2P1	ENSG00000235666	ENST00000552710	pseudogene	KNOWN	None	13985	None	None	29603537	29603820	-1	SMT3H2P, SUMO2P	SMT3Bp, dJ271M21
20	None	ENSG00000267882	ENST00000599904	protein_coding	KNOWN	None	None	573	190	45947246	45949467	1	None	None
9	OSTF1	ENSG00000134996	ENST00000346234	protein_coding	KNOWN	CCDS6651	8510	645	214	77703459	77762181	1	None	SH3P2, OSF, bA235O14.1
HSCHR6_MHC_MCF	PPP1R18	ENSG00000225060	ENST00000465770	processed_transcript	KNOWN	None	29413	None	None	30722654	30733423	-1	KIAA1949	phostensin
HSCHR6_MHC_MCF	PPP1R18	ENSG00000225060	ENST00000472334	processed_transcript	KNOWN	None	29413	None	None	30722654	30733458	-1	KIAA1949	phostensin
HSCHR6_MHC_MCF	PPP1R18	ENSG00000225060	ENST00000451544	protein_coding	KNOWN	None	29413	1842	613	30722654	30733481	-1	KIAA1949	phostensin
HSCHR6_MHC_MCF	PPP1R18	ENSG00000225060	ENST00000437121	protein_coding	KNOWN	None	29413	1842	613	30722654	30734160	-1	KIAA1949	phostensin
HSCHR6_MHC_MCF	PPP1R18	ENSG00000225060	ENST00000551034	protein_coding	KNOWN	None	29413	1134	377	30723323	30732283	-1	KIAA1949	phostensin
7	VSTM2A	ENSG00000170419	ENST00000302287	protein_coding	PUTATIVE	None	28499	735	244	54610018	54620224	1	VSTM2	MGC33530
7	VSTM2A	ENSG00000170419	ENST00000407838	protein_coding	KNOWN	CCDS5512	28499	711	236	54610018	54638773	1	VSTM2	MGC33530
7	VSTM2A	ENSG00000170419	ENST00000495904	retained_intron	KNOWN	None	28499	None	None	54610019	54614853	1	VSTM2	MGC33530
7	VSTM2A	ENSG00000170419	ENST00000404951	protein_coding	PUTATIVE	None	28499	930	309	54610109	54638188	1	VSTM2	MGC33530
7	VSTM2A	ENSG00000170419	ENST00000402613	protein_coding	PUTATIVE	None	28499	723	240	54610298	54637139	1	VSTM2	MGC33530
7	VSTM2A	ENSG00000170419	ENST00000498834	processed_transcript	KNOWN	None	28499	None	None	54613854	54637182	1	VSTM2	MGC33530
7	VSTM2A	ENSG00000170419	ENST00000466888	processed_transcript	KNOWN	None	28499	None	None	54614365	54636980	1	VSTM2	MGC33530
7	VSTM2A	ENSG00000170419	ENST00000469952	processed_transcript	PUTATIVE	None	28499	None	None	54614686	54618612	1	VSTM2	MGC33530
7	VSTM2A	ENSG00000170419	ENST00000402026	protein_coding	KNOWN	None	28499	732	243	54610141	54620220	1	VSTM2	MGC33530
7	AVL9	ENSG00000105778	ENST00000485228	processed_transcript	PUTATIVE	None	28994	None	None	32535038	32591862	1	KIAA0241	None
7	AVL9	ENSG00000105778	ENST00000318709	protein_coding	NOVEL	CCDS34613	28994	1947	648	32535101	32628333	1	KIAA0241	None
7	AVL9	ENSG00000105778	ENST00000459629	processed_transcript	KNOWN	None	28994	None	None	32535133	32578881	1	KIAA0241	None
7	AVL9	ENSG00000105778	ENST00000409301	protein_coding	NOVEL	None	28994	1893	630	32535138	32625778	1	KIAA0241	None
7	AVL9	ENSG00000105778	ENST00000446718	protein_coding	PUTATIVE	None	28994	1707	568	32582867	32628323	1	KIAA0241	None
7	AVL9	ENSG00000105778	ENST00000470500	retained_intron	KNOWN	None	28994	None	None	32619819	32623779	1	KIAA0241	None
7	AVL9	ENSG00000105778	ENST00000467779	retained_intron	KNOWN	None	28994	None	None	32620375	32623818	1	KIAA0241	None
7	AVL9	ENSG00000105778	ENST00000497020	retained_intron	KNOWN	None	28994	None	None	32620403	32625720	1	KIAA0241	None
7	AVL9	ENSG00000105778	ENST00000404479	protein_coding	KNOWN	None	28994	1392	463	32535322	33078516	1	KIAA0241	None
2	WDSUB1	ENSG00000196151	ENST00000359774	protein_coding	KNOWN	CCDS2208	26697	1431	476	160092304	160143310	-1	WDSAM1	UBOX6, FLJ36175
2	WDSUB1	ENSG00000196151	ENST00000358147	protein_coding	KNOWN	None	26697	1155	384	160092309	160143214	-1	WDSAM1	UBOX6, FLJ36175
2	WDSUB1	ENSG00000196151	ENST00000392796	protein_coding	KNOWN	CCDS2208	26697	1431	476	160092312	160143063	-1	WDSAM1	UBOX6, FLJ36175
2	WDSUB1	ENSG00000196151	ENST00000409990	protein_coding	KNOWN	CCDS2208	26697	1431	476	160092312	160143103	-1	WDSAM1	UBOX6, FLJ36175
2	WDSUB1	ENSG00000196151	ENST00000409124	protein_coding	NOVEL	None	26697	1290	429	160092345	160143180	-1	WDSAM1	UBOX6, FLJ36175
7	None	ENSG00000256646	ENST00000442788	nonsense_mediated_decay	KNOWN	CCDS5467	None	705	234	42948872	42971773	-1	None	None
7	None	ENSG00000256646	ENST00000433579	nonsense_mediated_decay	KNOWN	None	None	147	48	42950338	42971770	-1	None	None
19	AKAP8L	ENSG00000011243	ENST00000397410	protein_coding	KNOWN	CCDS46005	29857	1941	646	15490861	15529799	-1	None	NAKAP95, HAP95
19	AKAP8L	ENSG00000011243	ENST00000593845	retained_intron	KNOWN	None	29857	None	None	15490862	15529799	-1	None	NAKAP95, HAP95
19	AKAP8L	ENSG00000011243	ENST00000595465	protein_coding	NOVEL	None	29857	1758	585	15490862	15529837	-1	None	NAKAP95, HAP95
19	AKAP8L	ENSG00000011243	ENST00000594594	nonsense_mediated_decay	KNOWN	None	29857	201	66	15490862	15529932	-1	None	NAKAP95, HAP95
19	AKAP8L	ENSG00000011243	ENST00000600065	nonsense_mediated_decay	KNOWN	None	29857	236	77	15492693	15509572	-1	None	NAKAP95, HAP95
19	AKAP8L	ENSG00000011243	ENST00000595087	retained_intron	KNOWN	None	29857	None	None	15508331	15509214	-1	None	NAKAP95, HAP95
19	AKAP8L	ENSG00000011243	ENST00000595879	protein_coding	NOVEL	None	29857	646	214	15508331	15512087	-1	None	NAKAP95, HAP95
19	AKAP8L	ENSG00000011243	ENST00000596750	retained_intron	KNOWN	None	29857	None	None	15509379	15511152	-1	None	NAKAP95, HAP95
19	AKAP8L	ENSG00000011243	ENST00000594893	retained_intron	KNOWN	None	29857	None	None	15510746	15529779	-1	None	NAKAP95, HAP95
19	AKAP8L	ENSG00000011243	ENST00000598292	retained_intron	KNOWN	None	29857	None	None	15511211	15512087	-1	None	NAKAP95, HAP95
19	AKAP8L	ENSG00000011243	ENST00000595136	processed_transcript	KNOWN	None	29857	None	None	15511779	15528509	-1	None	NAKAP95, HAP95
19	AKAP8L	ENSG00000011243	ENST00000599137	nonsense_mediated_decay	KNOWN	None	29857	138	45	15512106	15529831	-1	None	NAKAP95, HAP95
19	AKAP8L	ENSG00000011243	ENST00000599488	processed_transcript	KNOWN	None	29857	None	None	15512192	15528489	-1	None	NAKAP95, HAP95
19	AKAP8L	ENSG00000011243	ENST00000596213	retained_intron	KNOWN	None	29857	None	None	15512241	15529833	-1	None	NAKAP95, HAP95
19	AKAP8L	ENSG00000011243	ENST00000597994	processed_transcript	KNOWN	None	29857	None	None	15512242	15515096	-1	None	NAKAP95, HAP95
19	AKAP8L	ENSG00000011243	ENST00000596195	protein_coding	NOVEL	None	29857	488	161	15512256	15529799	-1	None	NAKAP95, HAP95
19	AKAP8L	ENSG00000011243	ENST00000600247	nonsense_mediated_decay	KNOWN	None	29857	368	121	15512264	15529952	-1	None	NAKAP95, HAP95
19	AKAP8L	ENSG00000011243	ENST00000595067	protein_coding	NOVEL	None	29857	483	160	15512351	15529799	-1	None	NAKAP95, HAP95
19	AKAP8L	ENSG00000011243	ENST00000601147	retained_intron	KNOWN	None	29857	None	None	15513986	15529799	-1	None	NAKAP95, HAP95
1	ZBTB41	ENSG00000177888	ENST00000367405	protein_coding	KNOWN	CCDS30960	24819	2730	909	197122810	197169672	-1	None	FRBZ1, FLJ36199, DKFZp686C06120, ZNF924
1	ZBTB41	ENSG00000177888	ENST00000467322	processed_transcript	KNOWN	None	24819	None	None	197127572	197169651	-1	None	FRBZ1, FLJ36199, DKFZp686C06120, ZNF924
9	None	ENSG00000234156	ENST00000431442	antisense	KNOWN	None	None	None	None	125372194	125401957	1	None	None
9	None	ENSG00000234156	ENST00000419604	antisense	KNOWN	None	None	None	None	125381637	125401964	1	None	None
X	FAM120C	ENSG00000184083	ENST00000375180	protein_coding	KNOWN	CCDS14356	16949	3291	1096	54094757	54209688	-1	CXorf17	ORF34, FLJ20506
X	FAM120C	ENSG00000184083	ENST00000328235	protein_coding	PUTATIVE	None	16949	2688	895	54098686	54209688	-1	CXorf17	ORF34, FLJ20506
X	FAM120C	ENSG00000184083	ENST00000497680	processed_transcript	KNOWN	None	16949	None	None	54197975	54209211	-1	CXorf17	ORF34, FLJ20506
X	FAM120C	ENSG00000184083	ENST00000477084	protein_coding	KNOWN	CCDS55421	16949	717	238	54200222	54209714	-1	CXorf17	ORF34, FLJ20506
9	TLK1P1	ENSG00000226783	ENST00000456760	processed_pseudogene	KNOWN	None	28608	None	None	125448212	125450651	1	TLK1P	TLK1ps
9	ZNF79	ENSG00000196152	ENST00000342483	protein_coding	KNOWN	CCDS6871	13153	1497	498	130186661	130207651	1	None	pT7
9	ZNF79	ENSG00000196152	ENST00000543471	protein_coding	KNOWN	None	13153	1425	474	130186717	130207485	1	None	pT7
HSCHR6_MHC_MANN	PRR3	ENSG00000223766	ENST00000427729	protein_coding	KNOWN	None	21149	567	188	30569338	30576175	1	None	CAT56, Em:AB014077.1, Em:AB023052.2
HSCHR6_MHC_MANN	PRR3	ENSG00000223766	ENST00000444972	protein_coding	KNOWN	None	21149	504	167	30569732	30576175	1	None	CAT56, Em:AB014077.1, Em:AB023052.2
HSCHR6_MHC_MANN	PRR3	ENSG00000223766	ENST00000475431	processed_transcript	KNOWN	None	21149	None	None	30569766	30576175	1	None	CAT56, Em:AB014077.1, Em:AB023052.2
HSCHR6_MHC_MANN	PRR3	ENSG00000223766	ENST00000481092	processed_transcript	KNOWN	None	21149	None	None	30569768	30576175	1	None	CAT56, Em:AB014077.1, Em:AB023052.2
HSCHR6_MHC_MANN	PRR3	ENSG00000223766	ENST00000477509	retained_intron	KNOWN	None	21149	None	None	30569799	30570888	1	None	CAT56, Em:AB014077.1, Em:AB023052.2
HSCHR6_MHC_MANN	PRR3	ENSG00000223766	ENST00000483423	retained_intron	KNOWN	None	21149	None	None	30572483	30576175	1	None	CAT56, Em:AB014077.1, Em:AB023052.2
21	CYCSP42	ENSG00000224524	ENST00000450823	processed_pseudogene	KNOWN	None	2581	None	None	16862849	16863086	-1	CYC1LP5	None
11	OR52N5	ENSG00000181009	ENST00000317093	protein_coding	KNOWN	CCDS31397	15231	975	324	5798864	5799897	-1	None	OR52N5Q
7	None	ENSG00000214106	ENST00000411526	nonsense_mediated_decay	KNOWN	None	None	318	105	154720208	154738546	1	None	None
7	None	ENSG00000214106	ENST00000397551	protein_coding	PUTATIVE	None	None	318	105	154720227	154737108	1	None	None
7	None	ENSG00000214106	ENST00000449486	nonsense_mediated_decay	KNOWN	None	None	318	105	154720238	154741618	1	None	None
21	None	ENSG00000224247	ENST00000433588	lincRNA	KNOWN	None	None	None	None	16866251	16868443	-1	None	None
5	None	ENSG00000268217	ENST00000599298	protein_coding	NOVEL	None	None	45	14	72894203	72896845	1	None	None
10	PRAP1	ENSG00000165828	ENST00000433452	protein_coding	KNOWN	CCDS7679	23304	456	151	135160650	135166187	1	None	UPA
10	PRAP1	ENSG00000165828	ENST00000463201	processed_transcript	KNOWN	None	23304	None	None	135164879	135166052	1	None	UPA
10	PRAP1	ENSG00000165828	ENST00000423766	protein_coding	KNOWN	None	23304	459	152	135160844	135166187	1	None	UPA
10	PRAP1	ENSG00000165828	ENST00000458230	protein_coding	KNOWN	CCDS44498	23304	429	142	135160844	135166187	1	None	UPA
X	TEX28	ENSG00000185254	ENST00000369926	protein_coding	KNOWN	CCDS14744	2563	1233	410	153498930	153523564	-1	CXorf2	fTEX
X	TEX28	ENSG00000185254	ENST00000361930	protein_coding	KNOWN	CCDS14744	2563	1233	410	153498932	153523462	-1	CXorf2	fTEX
X	TEX28	ENSG00000185254	ENST00000428625	protein_coding	PUTATIVE	None	2563	293	96	153516491	153523796	-1	CXorf2	fTEX
21	RNU6-1326P	ENSG00000212564	ENST00000391262	snRNA	KNOWN	None	48289	None	None	16986602	16986708	1	None	None
1	AK2	ENSG00000004455	ENST00000373449	protein_coding	KNOWN	CCDS373	362	699	232	33473585	33502471	-1	None	None
1	AK2	ENSG00000004455	ENST00000548033	protein_coding	NOVEL	None	362	573	190	33476079	33502441	-1	None	None
1	AK2	ENSG00000004455	ENST00000482191	retained_intron	KNOWN	None	362	None	None	33476120	33477958	-1	None	None
1	AK2	ENSG00000004455	ENST00000491241	processed_transcript	KNOWN	None	362	None	None	33476232	33478888	-1	None	None
1	AK2	ENSG00000004455	ENST00000467905	protein_coding	PUTATIVE	None	362	699	232	33476356	33502487	-1	None	None
1	AK2	ENSG00000004455	ENST00000480134	protein_coding	PUTATIVE	None	362	402	133	33478645	33502478	-1	None	None
1	AK2	ENSG00000004455	ENST00000354858	protein_coding	KNOWN	CCDS374	362	720	239	33478645	33502593	-1	None	None
1	AK2	ENSG00000004455	ENST00000550338	nonsense_mediated_decay	KNOWN	None	362	129	42	33478808	33502503	-1	None	None
1	AK2	ENSG00000004455	ENST00000469238	retained_intron	KNOWN	None	362	None	None	33479966	33487291	-1	None	None
1	AK2	ENSG00000004455	ENST00000466029	retained_intron	KNOWN	None	362	None	None	33480084	33487304	-1	None	None
1	AK2	ENSG00000004455	ENST00000487289	protein_coding	PUTATIVE	None	362	489	162	33485284	33502445	-1	None	None
1	AK2	ENSG00000004455	ENST00000548559	processed_transcript	KNOWN	None	362	None	None	33487208	33546597	-1	None	None
1	AK2	ENSG00000004455	ENST00000551979	retained_intron	KNOWN	None	362	None	None	33489721	33502469	-1	None	None
10	RN7SL591P	ENSG00000240940	ENST00000496150	misc_RNA	KNOWN	None	46607	None	None	64109768	64110048	1	None	None
9	None	ENSG00000238110	ENST00000427728	processed_pseudogene	KNOWN	None	None	None	None	90559191	90559938	-1	None	None
10	None	ENSG00000263920	ENST00000579246	miRNA	NOVEL	None	None	None	None	64417945	64418012	1	None	None
17	SHISA6	ENSG00000188803	ENST00000441885	protein_coding	KNOWN	CCDS45615	34491	1656	551	11144580	11467380	1	None	FLJ45455
17	SHISA6	ENSG00000188803	ENST00000432116	protein_coding	KNOWN	CCDS54089	34491	1599	532	11144580	11467380	1	None	FLJ45455
17	SHISA6	ENSG00000188803	ENST00000409168	protein_coding	KNOWN	CCDS54090	34491	1503	500	11144740	11467380	1	None	FLJ45455
17	SHISA6	ENSG00000188803	ENST00000343478	retained_intron	KNOWN	None	34491	None	None	11145258	11282884	1	None	FLJ45455
10	ALDH7A1P4	ENSG00000234489	ENST00000412255	processed_pseudogene	KNOWN	None	881	None	None	64500968	64501145	-1	ATQL4	None
16	CCL17	ENSG00000102970	ENST00000219244	protein_coding	KNOWN	CCDS10780	10615	285	94	57438679	57449974	1	SCYA17	TARC, ABCD-2
10	None	ENSG00000238280	ENST00000425290	antisense	KNOWN	None	None	None	None	64553322	64565647	-1	None	None
3	MRPL3	ENSG00000114686	ENST00000264995	protein_coding	KNOWN	CCDS3071	10379	1047	348	131181056	131221813	-1	RPML3	MRL3
3	MRPL3	ENSG00000114686	ENST00000511168	protein_coding	PUTATIVE	None	10379	1090	362	131181280	131221827	-1	RPML3	MRL3
3	MRPL3	ENSG00000114686	ENST00000510043	retained_intron	KNOWN	None	10379	None	None	131181398	131190178	-1	RPML3	MRL3
3	MRPL3	ENSG00000114686	ENST00000425847	protein_coding	NOVEL	None	10379	1128	375	131181400	131221827	-1	RPML3	MRL3
3	MRPL3	ENSG00000114686	ENST00000507669	protein_coding	PUTATIVE	None	10379	465	154	131188576	131221786	-1	RPML3	MRL3
3	MRPL3	ENSG00000114686	ENST00000506487	retained_intron	KNOWN	None	10379	None	None	131205994	131208867	-1	RPML3	MRL3
3	MRPL3	ENSG00000114686	ENST00000512877	protein_coding	PUTATIVE	None	10379	529	175	131206525	131221795	-1	RPML3	MRL3
3	MRPL3	ENSG00000114686	ENST00000506946	processed_transcript	KNOWN	None	10379	None	None	131207515	131219328	-1	RPML3	MRL3
3	MRPL3	ENSG00000114686	ENST00000510923	retained_intron	KNOWN	None	10379	None	None	131216824	131221811	-1	RPML3	MRL3
3	MRPL3	ENSG00000114686	ENST00000510154	protein_coding	PUTATIVE	None	10379	85	27	131217091	131221781	-1	RPML3	MRL3
22	C22orf43	ENSG00000189269	ENST00000317749	protein_coding	KNOWN	CCDS42985	28031	690	229	23950639	23974508	-1	None	None
22	C22orf43	ENSG00000189269	ENST00000460169	processed_transcript	KNOWN	None	28031	None	None	23972805	23974098	-1	None	None
18	CCDC68	ENSG00000166510	ENST00000591504	protein_coding	KNOWN	CCDS11959	24350	1008	335	52568740	52626739	-1	None	SE57-1
18	CCDC68	ENSG00000166510	ENST00000592040	protein_coding	KNOWN	None	24350	610	202	52570551	52604136	-1	None	SE57-1
18	CCDC68	ENSG00000166510	ENST00000337363	protein_coding	KNOWN	CCDS11959	24350	1008	335	52571312	52625279	-1	None	SE57-1
18	CCDC68	ENSG00000166510	ENST00000592294	retained_intron	KNOWN	None	24350	None	None	52596107	52604508	-1	None	SE57-1
18	CCDC68	ENSG00000166510	ENST00000589136	retained_intron	KNOWN	None	24350	None	None	52604833	52608289	-1	None	SE57-1
18	CCDC68	ENSG00000166510	ENST00000587148	retained_intron	KNOWN	None	24350	None	None	52605177	52626692	-1	None	SE57-1
18	CCDC68	ENSG00000166510	ENST00000432185	protein_coding	KNOWN	CCDS11959	24350	1008	335	52568742	52625279	-1	None	SE57-1
9	None	ENSG00000271923	ENST00000606534	snRNA	NOVEL	None	None	None	None	90613144	90613250	-1	None	None
4	CPE	ENSG00000109472	ENST00000513982	protein_coding	PUTATIVE	None	2303	417	138	166282346	166403474	1	None	None
4	CPE	ENSG00000109472	ENST00000402744	protein_coding	KNOWN	CCDS3810	2303	1431	476	166300094	166419472	1	None	None
4	CPE	ENSG00000109472	ENST00000480404	nonsense_mediated_decay	KNOWN	None	2303	326	107	166300438	166302626	1	None	None
4	CPE	ENSG00000109472	ENST00000431967	protein_coding	PUTATIVE	None	2303	442	146	166336237	166403499	1	None	None
4	CPE	ENSG00000109472	ENST00000511992	protein_coding	PUTATIVE	None	2303	471	156	166339378	166405590	1	None	None
9	SKA2P1	ENSG00000232387	ENST00000425592	processed_pseudogene	KNOWN	None	23122	None	None	125524123	125524512	1	FAM33B, SKA2L	Em:AC006313.1
HSCHR6_MHC_DBB	SFTA2	ENSG00000225454	ENST00000457919	protein_coding	KNOWN	None	18386	237	78	30889843	30890665	-1	SFTPG	None
HSCHR6_MHC_DBB	SFTA2	ENSG00000225454	ENST00000459876	retained_intron	KNOWN	None	18386	None	None	30889843	30890599	-1	SFTPG	None
9	KRT18P67	ENSG00000233425	ENST00000432816	processed_pseudogene	KNOWN	None	48894	None	None	125599836	125601099	1	None	None
4	SLC26A1	ENSG00000145217	ENST00000398520	protein_coding	KNOWN	CCDS33933	10993	675	224	972861	987164	-1	None	SAT-1, EDM4
4	SLC26A1	ENSG00000145217	ENST00000361661	protein_coding	KNOWN	CCDS33934	10993	2106	701	981445	987224	-1	None	SAT-1, EDM4
4	SLC26A1	ENSG00000145217	ENST00000398516	protein_coding	KNOWN	CCDS33934	10993	2106	701	981785	987228	-1	None	SAT-1, EDM4
4	SLC26A1	ENSG00000145217	ENST00000513138	processed_transcript	PUTATIVE	None	10993	None	None	984409	984983	-1	None	SAT-1, EDM4
9	SNORD90	ENSG00000212447	ENST00000391145	snoRNA	KNOWN	None	32751	None	None	125642492	125642602	-1	None	HBII-295
9	None	ENSG00000261094	ENST00000561961	sense_overlapping	KNOWN	None	None	None	None	125699902	125702605	1	None	None
9	None	ENSG00000261094	ENST00000566531	sense_overlapping	KNOWN	None	None	None	None	125701699	125702612	1	None	None
17	MGAT5B	ENSG00000167889	ENST00000301618	protein_coding	KNOWN	CCDS11751	24140	2373	790	74864538	74946459	1	None	GnT-IX, FLJ25132, GnT-VB
17	MGAT5B	ENSG00000167889	ENST00000569840	protein_coding	KNOWN	CCDS59299	24140	2379	792	74864538	74946459	1	None	GnT-IX, FLJ25132, GnT-VB
17	MGAT5B	ENSG00000167889	ENST00000565675	protein_coding	PUTATIVE	None	24140	333	110	74864798	74878609	1	None	GnT-IX, FLJ25132, GnT-VB
17	MGAT5B	ENSG00000167889	ENST00000374998	processed_transcript	KNOWN	None	24140	None	None	74864906	74910180	1	None	GnT-IX, FLJ25132, GnT-VB
17	MGAT5B	ENSG00000167889	ENST00000428789	protein_coding	KNOWN	CCDS45788	24140	2406	801	74868729	74946464	1	None	GnT-IX, FLJ25132, GnT-VB
17	MGAT5B	ENSG00000167889	ENST00000565043	nonsense_mediated_decay	KNOWN	None	24140	1452	483	74868793	74945529	1	None	GnT-IX, FLJ25132, GnT-VB
17	MGAT5B	ENSG00000167889	ENST00000563627	processed_transcript	PUTATIVE	None	24140	None	None	74919932	74921102	1	None	GnT-IX, FLJ25132, GnT-VB
17	MGAT5B	ENSG00000167889	ENST00000563153	processed_transcript	PUTATIVE	None	24140	None	None	74940030	74944978	1	None	GnT-IX, FLJ25132, GnT-VB
17	MGAT5B	ENSG00000167889	ENST00000568598	retained_intron	KNOWN	None	24140	None	None	74942332	74946475	1	None	GnT-IX, FLJ25132, GnT-VB
17	VMO1	ENSG00000182853	ENST00000441199	protein_coding	KNOWN	CCDS45587	30387	345	114	4688580	4689666	-1	None	None
17	VMO1	ENSG00000182853	ENST00000416307	protein_coding	KNOWN	CCDS45586	30387	309	102	4688580	4689693	-1	None	None
17	VMO1	ENSG00000182853	ENST00000328739	protein_coding	KNOWN	CCDS11055	30387	609	202	4688580	4689727	-1	None	None
17	VMO1	ENSG00000182853	ENST00000354194	protein_coding	KNOWN	CCDS45585	30387	213	70	4688580	4689728	-1	None	None
9	None	ENSG00000222351	ENST00000410419	misc_RNA	NOVEL	None	None	None	None	125708267	125708373	-1	None	None
9	None	ENSG00000213216	ENST00000392902	processed_pseudogene	KNOWN	None	None	None	None	125791652	125792032	-1	None	None
12	KRT75	ENSG00000170454	ENST00000252245	protein_coding	KNOWN	CCDS8827	24431	1656	551	52817854	52828309	-1	None	K6HF
21	None	ENSG00000221497	ENST00000408570	miRNA	NOVEL	None	None	None	None	17065527	17065622	1	None	None
9	None	ENSG00000225078	ENST00000422282	processed_pseudogene	KNOWN	None	None	None	None	125824124	125825591	-1	None	None
21	RAD23BLP	ENSG00000226298	ENST00000454157	processed_pseudogene	KNOWN	None	9814	None	None	17066619	17068900	-1	None	None
5	SNX24	ENSG00000064652	ENST00000513613	processed_transcript	KNOWN	None	21533	None	None	122179134	122334009	1	None	SBBI31
5	SNX24	ENSG00000064652	ENST00000511211	processed_transcript	KNOWN	None	21533	None	None	122179927	122335679	1	None	SBBI31
5	SNX24	ENSG00000064652	ENST00000261369	protein_coding	KNOWN	CCDS4132	21533	510	169	122181144	122344907	1	None	SBBI31
5	SNX24	ENSG00000064652	ENST00000513881	protein_coding	KNOWN	None	21533	480	159	122181213	122344305	1	None	SBBI31
5	SNX24	ENSG00000064652	ENST00000395451	protein_coding	PUTATIVE	None	21533	609	202	122181300	122343856	1	None	SBBI31
5	SNX24	ENSG00000064652	ENST00000506996	protein_coding	KNOWN	None	21533	480	159	122181321	122337837	1	None	SBBI31
5	SNX24	ENSG00000064652	ENST00000511545	nonsense_mediated_decay	KNOWN	None	21533	67	21	122181358	122343477	1	None	SBBI31
5	SNX24	ENSG00000064652	ENST00000502387	processed_transcript	KNOWN	None	21533	None	None	122272428	122365049	1	None	SBBI31
5	SNX24	ENSG00000064652	ENST00000503149	nonsense_mediated_decay	KNOWN	None	21533	207	68	122272429	122343469	1	None	SBBI31
5	SNX24	ENSG00000064652	ENST00000510914	processed_transcript	KNOWN	None	21533	None	None	122281750	122365045	1	None	SBBI31
5	SNX24	ENSG00000064652	ENST00000507364	processed_transcript	KNOWN	None	21533	None	None	122284291	122337840	1	None	SBBI31
5	SNX24	ENSG00000064652	ENST00000515729	processed_transcript	KNOWN	None	21533	None	None	122333964	122337837	1	None	SBBI31
15	CTXN2	ENSG00000233932	ENST00000417307	protein_coding	KNOWN	CCDS45254	31109	246	81	48483736	48495953	1	None	None
15	CTXN2	ENSG00000233932	ENST00000541248	protein_coding	KNOWN	CCDS45254	31109	246	81	48484388	48493877	1	None	None
21	None	ENSG00000238591	ENST00000459376	snoRNA	NOVEL	None	None	None	None	17080978	17081077	1	None	None
9	MIR600HG	ENSG00000236901	ENST00000449175	sense_intronic	KNOWN	None	23642	None	None	125871773	125877756	-1	C9orf45, NCRNA00287	GL012, FLJ22161
9	MIR600HG	ENSG00000236901	ENST00000385007	miRNA	KNOWN	None	23642	None	None	125873825	125873922	-1	C9orf45, NCRNA00287	GL012, FLJ22161
9	MIR600HG	ENSG00000236901	ENST00000545631	sense_intronic	KNOWN	None	23642	None	None	125871780	125873444	-1	C9orf45, NCRNA00287	GL012, FLJ22161
21	RBPMSLP	ENSG00000234159	ENST00000433427	processed_pseudogene	KNOWN	None	9923	None	None	17116323	17117399	-1	None	None
21	RNU6-426P	ENSG00000252273	ENST00000516464	snRNA	KNOWN	None	47389	None	None	17407733	17407829	-1	None	None
21	USP16	ENSG00000156256	ENST00000399975	protein_coding	KNOWN	CCDS42912	12614	2469	822	30396950	30426809	1	None	Ubp-M
21	USP16	ENSG00000156256	ENST00000399976	protein_coding	KNOWN	CCDS13583	12614	2472	823	30396950	30426809	1	None	Ubp-M
21	USP16	ENSG00000156256	ENST00000334352	protein_coding	KNOWN	CCDS13583	12614	2472	823	30396972	30426809	1	None	Ubp-M
21	USP16	ENSG00000156256	ENST00000474835	retained_intron	KNOWN	None	12614	None	None	30396972	30426809	1	None	Ubp-M
21	USP16	ENSG00000156256	ENST00000399973	protein_coding	KNOWN	None	12614	323	106	30396977	30407240	1	None	Ubp-M
21	USP16	ENSG00000156256	ENST00000485067	retained_intron	KNOWN	None	12614	None	None	30424444	30426809	1	None	Ubp-M
21	USP16	ENSG00000156256	ENST00000535828	protein_coding	KNOWN	None	12614	1359	452	30397016	30426561	1	None	Ubp-M
10	RNU6-543P	ENSG00000199446	ENST00000362576	snRNA	KNOWN	None	47506	None	None	64869899	64870006	1	None	None
10	None	ENSG00000224301	ENST00000433019	antisense	KNOWN	None	None	None	None	64883698	64885297	-1	None	None
HSCHR6_MHC_DBB	DPCR1	ENSG00000232251	ENST00000448092	protein_coding	KNOWN	None	21666	1524	507	30909618	30912715	1	None	PBLT, bCX105N19.6
HSCHR6_MHC_DBB	DPCR1	ENSG00000232251	ENST00000547450	protein_coding	KNOWN	None	21666	4182	1393	30899496	30911747	1	None	PBLT, bCX105N19.6
HSCHR6_MHC_DBB	DPCR1	ENSG00000232251	ENST00000546848	protein_coding	KNOWN	None	21666	1554	517	30899496	30911747	1	None	PBLT, bCX105N19.6
10	TATDN1P1	ENSG00000234369	ENST00000414123	processed_pseudogene	KNOWN	None	45058	None	None	64981915	64982805	1	None	None
10	None	ENSG00000270421	ENST00000602989	processed_pseudogene	KNOWN	None	None	None	None	65118505	65118864	1	None	None
16	CTRB1	ENSG00000168925	ENST00000361017	protein_coding	KNOWN	CCDS32490	2521	792	263	75252898	75258822	1	CTRB	None
16	CTRB1	ENSG00000168925	ENST00000495583	protein_coding	PUTATIVE	None	2521	547	181	75256508	75257505	1	CTRB	None
17	ASGR2	ENSG00000161944	ENST00000355035	protein_coding	KNOWN	CCDS32544	743	936	311	7004641	7017972	-1	None	CLEC4H2
17	ASGR2	ENSG00000161944	ENST00000254850	protein_coding	KNOWN	CCDS11088	743	864	287	7004641	7018142	-1	None	CLEC4H2
17	ASGR2	ENSG00000161944	ENST00000446679	protein_coding	KNOWN	CCDS45598	743	879	292	7004894	7017559	-1	None	CLEC4H2
17	ASGR2	ENSG00000161944	ENST00000576487	retained_intron	KNOWN	None	743	None	None	7010821	7018144	-1	None	CLEC4H2
17	ASGR2	ENSG00000161944	ENST00000450034	retained_intron	KNOWN	None	743	None	None	7010999	7018334	-1	None	CLEC4H2
17	ASGR2	ENSG00000161944	ENST00000574868	protein_coding	KNOWN	None	743	406	134	7011158	7019019	-1	None	CLEC4H2
17	ASGR2	ENSG00000161944	ENST00000380952	protein_coding	KNOWN	CCDS32544	743	936	311	7004641	7018128	-1	None	CLEC4H2
12	RECQL	ENSG00000004700	ENST00000444129	protein_coding	KNOWN	CCDS31756	9948	1950	649	21621845	21654527	-1	None	RecQ1, RecQL1
12	RECQL	ENSG00000004700	ENST00000421138	protein_coding	KNOWN	CCDS31756	9948	1950	649	21622736	21654485	-1	None	RecQ1, RecQL1
12	RECQL	ENSG00000004700	ENST00000396093	protein_coding	KNOWN	None	9948	634	210	21636376	21654603	-1	None	RecQ1, RecQL1
12	RECQL	ENSG00000004700	ENST00000314748	protein_coding	KNOWN	None	9948	599	198	21636411	21654603	-1	None	RecQ1, RecQL1
12	RECQL	ENSG00000004700	ENST00000542432	protein_coding	KNOWN	None	9948	394	130	21643133	21654529	-1	None	RecQ1, RecQL1
12	RECQL	ENSG00000004700	ENST00000536240	protein_coding	KNOWN	None	9948	319	105	21643208	21654597	-1	None	RecQ1, RecQL1
12	RECQL	ENSG00000004700	ENST00000536964	protein_coding	KNOWN	None	9948	290	95	21643237	21654589	-1	None	RecQ1, RecQL1
12	RECQL	ENSG00000004700	ENST00000539672	protein_coding	KNOWN	None	9948	218	71	21643309	21654527	-1	None	RecQ1, RecQL1
3	None	ENSG00000268537	ENST00000593391	protein_coding	NOVEL	None	None	69	22	46927699	46930171	-1	None	None
10	FUOM	ENSG00000148803	ENST00000447176	protein_coding	KNOWN	None	24733	333	110	135168670	135171495	-1	C10orf125	FLJ26016, FucU, FucM
10	FUOM	ENSG00000148803	ENST00000465384	processed_transcript	KNOWN	None	24733	None	None	135168673	135171505	-1	C10orf125	FLJ26016, FucU, FucM
10	FUOM	ENSG00000148803	ENST00000368551	protein_coding	KNOWN	None	24733	330	109	135168707	135171241	-1	C10orf125	FLJ26016, FucU, FucM
10	FUOM	ENSG00000148803	ENST00000478895	processed_transcript	KNOWN	None	24733	None	None	135169024	135170500	-1	C10orf125	FLJ26016, FucU, FucM
10	FUOM	ENSG00000148803	ENST00000368552	protein_coding	KNOWN	CCDS44499	24733	465	154	135168795	135171529	-1	C10orf125	FLJ26016, FucU, FucM
10	FUOM	ENSG00000148803	ENST00000278025	protein_coding	KNOWN	CCDS7680	24733	405	134	135168658	135171529	-1	C10orf125	FLJ26016, FucU, FucM
HSCHR6_MHC_MANN	MCCD1	ENSG00000238238	ENST00000443405	protein_coding	KNOWN	None	20668	360	119	31536013	31537528	1	None	None
1	MAGI3	ENSG00000081026	ENST00000369617	protein_coding	NOVEL	None	29647	3453	1150	113933371	114225056	1	None	MAGI-3
1	MAGI3	ENSG00000081026	ENST00000307546	protein_coding	NOVEL	CCDS44196	29647	4446	1481	113933581	114228545	1	None	MAGI-3
1	MAGI3	ENSG00000081026	ENST00000369615	protein_coding	KNOWN	CCDS860	29647	3378	1125	113933594	114228545	1	None	MAGI-3
1	MAGI3	ENSG00000081026	ENST00000369611	protein_coding	KNOWN	CCDS860	29647	3378	1125	113933611	114225056	1	None	MAGI-3
1	MAGI3	ENSG00000081026	ENST00000486456	processed_transcript	KNOWN	None	29647	None	None	113933753	114123724	1	None	MAGI-3
1	MAGI3	ENSG00000081026	ENST00000477955	processed_transcript	KNOWN	None	29647	None	None	113933883	113947077	1	None	MAGI-3
X	TKTL1	ENSG00000007350	ENST00000369915	protein_coding	KNOWN	CCDS35448	11835	1791	596	153524024	153558700	1	None	TKR, TKT2
X	TKTL1	ENSG00000007350	ENST00000439635	nonsense_mediated_decay	KNOWN	None	11835	384	127	153524152	153540991	1	None	TKR, TKT2
X	TKTL1	ENSG00000007350	ENST00000426989	protein_coding	PUTATIVE	None	11835	592	196	153533275	153539511	1	None	TKR, TKT2
X	TKTL1	ENSG00000007350	ENST00000426203	protein_coding	PUTATIVE	None	11835	525	174	153533396	153539497	1	None	TKR, TKT2
X	TKTL1	ENSG00000007350	ENST00000369912	protein_coding	PUTATIVE	CCDS55541	11835	1623	540	153533409	153558700	1	None	TKR, TKT2
X	TKTL1	ENSG00000007350	ENST00000465168	processed_transcript	KNOWN	None	11835	None	None	153548651	153553731	1	None	TKR, TKT2
X	TKTL1	ENSG00000007350	ENST00000482044	processed_transcript	PUTATIVE	None	11835	None	None	153555530	153556245	1	None	TKR, TKT2
X	TKTL1	ENSG00000007350	ENST00000463884	processed_transcript	KNOWN	None	11835	None	None	153555722	153558038	1	None	TKR, TKT2
X	TKTL1	ENSG00000007350	ENST00000217905	protein_coding	KNOWN	None	11835	1011	336	153524152	153558076	1	None	TKR, TKT2
7	CCDC71L	ENSG00000253276	ENST00000523505	protein_coding	KNOWN	CCDS55151	26685	708	235	106297211	106301442	-1	C7orf74	FLJ36031
21	LINC00478	ENSG00000215386	ENST00000602580	lincRNA	KNOWN	None	1274	None	None	17442842	17859828	1	C21orf35, FLJ38295, C21orf34	None
21	LINC00478	ENSG00000215386	ENST00000458468	lincRNA	KNOWN	None	1274	None	None	17442842	17982094	1	C21orf35, FLJ38295, C21orf34	None
21	LINC00478	ENSG00000215386	ENST00000602935	lincRNA	KNOWN	None	1274	None	None	17442853	17859814	1	C21orf35, FLJ38295, C21orf34	None
21	LINC00478	ENSG00000215386	ENST00000400178	lincRNA	KNOWN	None	1274	None	None	17443434	17979450	1	C21orf35, FLJ38295, C21orf34	None
21	LINC00478	ENSG00000215386	ENST00000456342	lincRNA	KNOWN	None	1274	None	None	17443553	17979456	1	C21orf35, FLJ38295, C21orf34	None
21	LINC00478	ENSG00000215386	ENST00000428669	lincRNA	KNOWN	None	1274	None	None	17553911	17979438	1	C21orf35, FLJ38295, C21orf34	None
21	LINC00478	ENSG00000215386	ENST00000419952	lincRNA	KNOWN	None	1274	None	None	17566699	17894124	1	C21orf35, FLJ38295, C21orf34	None
21	LINC00478	ENSG00000215386	ENST00000445461	lincRNA	KNOWN	None	1274	None	None	17566715	17979542	1	C21orf35, FLJ38295, C21orf34	None
21	LINC00478	ENSG00000215386	ENST00000602505	lincRNA	KNOWN	None	1274	None	None	17566885	17859857	1	C21orf35, FLJ38295, C21orf34	None
21	LINC00478	ENSG00000215386	ENST00000602901	lincRNA	KNOWN	None	1274	None	None	17603399	17979450	1	C21orf35, FLJ38295, C21orf34	None
21	LINC00478	ENSG00000215386	ENST00000602339	lincRNA	KNOWN	None	1274	None	None	17702925	17979588	1	C21orf35, FLJ38295, C21orf34	None
21	LINC00478	ENSG00000215386	ENST00000602892	lincRNA	KNOWN	None	1274	None	None	17791648	17979471	1	C21orf35, FLJ38295, C21orf34	None
21	LINC00478	ENSG00000215386	ENST00000418813	lincRNA	KNOWN	None	1274	None	None	17791722	17985800	1	C21orf35, FLJ38295, C21orf34	None
21	LINC00478	ENSG00000215386	ENST00000435697	lincRNA	KNOWN	None	1274	None	None	17791752	17860215	1	C21orf35, FLJ38295, C21orf34	None
21	LINC00478	ENSG00000215386	ENST00000453910	lincRNA	KNOWN	None	1274	None	None	17791838	17979423	1	C21orf35, FLJ38295, C21orf34	None
21	LINC00478	ENSG00000215386	ENST00000602620	lincRNA	KNOWN	None	1274	None	None	17792775	17979457	1	C21orf35, FLJ38295, C21orf34	None
21	LINC00478	ENSG00000215386	ENST00000441820	lincRNA	KNOWN	None	1274	None	None	17909601	17979569	1	C21orf35, FLJ38295, C21orf34	None
21	LINC00478	ENSG00000215386	ENST00000602280	lincRNA	KNOWN	None	1274	None	None	17909663	17999716	1	C21orf35, FLJ38295, C21orf34	None
21	LINC00478	ENSG00000215386	ENST00000602323	lincRNA	KNOWN	None	1274	None	None	17961009	17999514	1	C21orf35, FLJ38295, C21orf34	None
HSCHR6_MHC_DBB	None	ENSG00000237962	ENST00000488597	processed_transcript	NOVEL	None	None	None	None	30942209	30944875	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000237962	ENST00000440457	protein_coding	NOVEL	None	None	1701	566	30942209	30948389	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000237962	ENST00000551445	protein_coding	KNOWN	None	None	1251	416	30942199	30948384	1	None	None
11	RTN3	ENSG00000133318	ENST00000341307	protein_coding	KNOWN	CCDS8048	10469	726	241	63448918	63527354	1	None	NSPL2, NSPLII, ASYIP, HAP, RTN3-A1
11	RTN3	ENSG00000133318	ENST00000542238	protein_coding	NOVEL	None	10469	556	184	63448930	63520106	1	None	NSPL2, NSPLII, ASYIP, HAP, RTN3-A1
11	RTN3	ENSG00000133318	ENST00000538995	processed_transcript	KNOWN	None	10469	None	None	63448946	63481951	1	None	NSPL2, NSPLII, ASYIP, HAP, RTN3-A1
11	RTN3	ENSG00000133318	ENST00000377819	protein_coding	KNOWN	CCDS58141	10469	3099	1032	63448955	63527357	1	None	NSPL2, NSPLII, ASYIP, HAP, RTN3-A1
11	RTN3	ENSG00000133318	ENST00000339997	protein_coding	KNOWN	CCDS8050	10469	3042	1013	63448955	63527363	1	None	NSPL2, NSPLII, ASYIP, HAP, RTN3-A1
11	RTN3	ENSG00000133318	ENST00000540798	protein_coding	NOVEL	CCDS58142	10469	2763	920	63448968	63525893	1	None	NSPL2, NSPLII, ASYIP, HAP, RTN3-A1
11	RTN3	ENSG00000133318	ENST00000545432	protein_coding	NOVEL	None	10469	408	135	63448972	63486661	1	None	NSPL2, NSPLII, ASYIP, HAP, RTN3-A1
11	RTN3	ENSG00000133318	ENST00000543552	protein_coding	NOVEL	None	10469	392	129	63448972	63486669	1	None	NSPL2, NSPLII, ASYIP, HAP, RTN3-A1
11	RTN3	ENSG00000133318	ENST00000543123	retained_intron	KNOWN	None	10469	None	None	63448972	63517895	1	None	NSPL2, NSPLII, ASYIP, HAP, RTN3-A1
11	RTN3	ENSG00000133318	ENST00000536011	nonsense_mediated_decay	KNOWN	None	10469	372	123	63448972	63526015	1	None	NSPL2, NSPLII, ASYIP, HAP, RTN3-A1
11	RTN3	ENSG00000133318	ENST00000537981	protein_coding	KNOWN	CCDS8049	10469	711	236	63448972	63527357	1	None	NSPL2, NSPLII, ASYIP, HAP, RTN3-A1
11	RTN3	ENSG00000133318	ENST00000338850	processed_transcript	KNOWN	None	10469	None	None	63449011	63481638	1	None	NSPL2, NSPLII, ASYIP, HAP, RTN3-A1
11	RTN3	ENSG00000133318	ENST00000354497	protein_coding	PUTATIVE	CCDS58143	10469	645	214	63449045	63526561	1	None	NSPL2, NSPLII, ASYIP, HAP, RTN3-A1
11	RTN3	ENSG00000133318	ENST00000356000	protein_coding	KNOWN	CCDS41664	10469	768	255	63448922	63527337	1	None	NSPL2, NSPLII, ASYIP, HAP, RTN3-A1
11	OR52N1	ENSG00000181001	ENST00000317078	protein_coding	KNOWN	CCDS31398	14853	963	320	5809084	5810046	-1	None	None
9	RPS10P3	ENSG00000217716	ENST00000439253	processed_pseudogene	KNOWN	None	23684	None	None	90631215	90631708	1	None	None
19	FBXO27	ENSG00000161243	ENST00000598394	protein_coding	PUTATIVE	None	18753	300	99	39481354	39517600	-1	None	Fbg5, Fbx27
19	FBXO27	ENSG00000161243	ENST00000292853	protein_coding	KNOWN	CCDS12527	18753	852	283	39514693	39523236	-1	None	Fbg5, Fbx27
19	FBXO27	ENSG00000161243	ENST00000600828	protein_coding	PUTATIVE	None	18753	849	282	39515469	39523425	-1	None	Fbg5, Fbx27
19	FBXO27	ENSG00000161243	ENST00000594770	retained_intron	KNOWN	None	18753	None	None	39516052	39522703	-1	None	Fbg5, Fbx27
19	FBXO27	ENSG00000161243	ENST00000595166	retained_intron	KNOWN	None	18753	None	None	39516159	39522042	-1	None	Fbg5, Fbx27
19	FBXO27	ENSG00000161243	ENST00000593847	protein_coding	KNOWN	None	18753	400	132	39521925	39523407	-1	None	Fbg5, Fbx27
19	FBXO27	ENSG00000161243	ENST00000509137	protein_coding	KNOWN	CCDS12527	18753	852	283	39514665	39523165	-1	None	Fbg5, Fbx27
11	OR52N2	ENSG00000180988	ENST00000317037	protein_coding	KNOWN	CCDS31399	15228	966	321	5841544	5842578	1	None	None
7	PAXIP1	ENSG00000157212	ENST00000404141	protein_coding	NOVEL	CCDS47753	8624	3210	1069	154735397	154794794	-1	PAXIP1L	CAGF29, CAGF28, TNRC2, PTIP
7	PAXIP1	ENSG00000157212	ENST00000457196	nonsense_mediated_decay	KNOWN	None	8624	444	147	154735397	154794794	-1	PAXIP1L	CAGF29, CAGF28, TNRC2, PTIP
7	PAXIP1	ENSG00000157212	ENST00000464717	retained_intron	KNOWN	None	8624	None	None	154735399	154757420	-1	PAXIP1L	CAGF29, CAGF28, TNRC2, PTIP
7	PAXIP1	ENSG00000157212	ENST00000473219	processed_transcript	KNOWN	None	8624	None	None	154735494	154793810	-1	PAXIP1L	CAGF29, CAGF28, TNRC2, PTIP
7	PAXIP1	ENSG00000157212	ENST00000485730	retained_intron	KNOWN	None	8624	None	None	154752759	154754405	-1	PAXIP1L	CAGF29, CAGF28, TNRC2, PTIP
7	PAXIP1	ENSG00000157212	ENST00000475066	retained_intron	KNOWN	None	8624	None	None	154759030	154775454	-1	PAXIP1L	CAGF29, CAGF28, TNRC2, PTIP
7	PAXIP1	ENSG00000157212	ENST00000494182	processed_transcript	PUTATIVE	None	8624	None	None	154760759	154766333	-1	PAXIP1L	CAGF29, CAGF28, TNRC2, PTIP
7	PAXIP1	ENSG00000157212	ENST00000419436	protein_coding	PUTATIVE	None	8624	521	172	154767833	154794621	-1	PAXIP1L	CAGF29, CAGF28, TNRC2, PTIP
7	PAXIP1	ENSG00000157212	ENST00000397192	protein_coding	KNOWN	None	8624	3210	1069	154735401	154794682	-1	PAXIP1L	CAGF29, CAGF28, TNRC2, PTIP
3	CCDC12	ENSG00000160799	ENST00000425441	protein_coding	KNOWN	CCDS2748	28332	540	179	46963216	47023472	-1	None	MGC23918
3	CCDC12	ENSG00000160799	ENST00000604367	retained_intron	KNOWN	None	28332	None	None	46963238	46965649	-1	None	MGC23918
3	CCDC12	ENSG00000160799	ENST00000605358	processed_transcript	KNOWN	None	28332	None	None	46963795	47017991	-1	None	MGC23918
3	CCDC12	ENSG00000160799	ENST00000488069	retained_intron	KNOWN	None	28332	None	None	46964533	47018249	-1	None	MGC23918
3	CCDC12	ENSG00000160799	ENST00000603885	retained_intron	KNOWN	None	28332	None	None	46964633	47017971	-1	None	MGC23918
3	CCDC12	ENSG00000160799	ENST00000446836	protein_coding	KNOWN	None	28332	306	101	46965136	47023455	-1	None	MGC23918
3	CCDC12	ENSG00000160799	ENST00000494655	retained_intron	KNOWN	None	28332	None	None	46966410	47018235	-1	None	MGC23918
3	CCDC12	ENSG00000160799	ENST00000604164	retained_intron	KNOWN	None	28332	None	None	46966780	47017927	-1	None	MGC23918
3	CCDC12	ENSG00000160799	ENST00000604181	retained_intron	KNOWN	None	28332	None	None	46966821	47017973	-1	None	MGC23918
3	CCDC12	ENSG00000160799	ENST00000605875	protein_coding	KNOWN	None	28332	283	93	46966946	47021051	-1	None	MGC23918
3	CCDC12	ENSG00000160799	ENST00000460035	retained_intron	KNOWN	None	28332	None	None	46982105	47018247	-1	None	MGC23918
3	CCDC12	ENSG00000160799	ENST00000492819	retained_intron	KNOWN	None	28332	None	None	47017497	47023500	-1	None	MGC23918
3	CCDC12	ENSG00000160799	ENST00000292314	protein_coding	KNOWN	CCDS2748	28332	540	179	46963221	47018270	-1	None	MGC23918
3	CCDC12	ENSG00000160799	ENST00000546280	protein_coding	KNOWN	None	28332	501	166	46963221	47018270	-1	None	MGC23918
20	NCOA3	ENSG00000124151	ENST00000372004	protein_coding	KNOWN	CCDS13406	7670	4263	1420	46130646	46285621	1	None	RAC3, AIB1, ACTR, p/CIP, TRAM-1, CAGH16, TNRC16, KAT13B, bHLHe42, SRC-3, SRC3
20	NCOA3	ENSG00000124151	ENST00000371998	protein_coding	KNOWN	CCDS13407	7670	4275	1424	46130671	46282363	1	None	RAC3, AIB1, ACTR, p/CIP, TRAM-1, CAGH16, TNRC16, KAT13B, bHLHe42, SRC-3, SRC3
20	NCOA3	ENSG00000124151	ENST00000371997	protein_coding	KNOWN	CCDS54472	7670	4248	1415	46130685	46284486	1	None	RAC3, AIB1, ACTR, p/CIP, TRAM-1, CAGH16, TNRC16, KAT13B, bHLHe42, SRC-3, SRC3
20	NCOA3	ENSG00000124151	ENST00000490248	processed_transcript	KNOWN	None	7670	None	None	46251702	46252817	1	None	RAC3, AIB1, ACTR, p/CIP, TRAM-1, CAGH16, TNRC16, KAT13B, bHLHe42, SRC-3, SRC3
20	NCOA3	ENSG00000124151	ENST00000497292	processed_transcript	KNOWN	None	7670	None	None	46255746	46257534	1	None	RAC3, AIB1, ACTR, p/CIP, TRAM-1, CAGH16, TNRC16, KAT13B, bHLHe42, SRC-3, SRC3
20	NCOA3	ENSG00000124151	ENST00000341724	protein_coding	KNOWN	None	7670	4053	1350	46130601	46285621	1	None	RAC3, AIB1, ACTR, p/CIP, TRAM-1, CAGH16, TNRC16, KAT13B, bHLHe42, SRC-3, SRC3
5	PROB1	ENSG00000228672	ENST00000434752	protein_coding	KNOWN	CCDS54909	41906	3048	1015	138727635	138730885	-1	C5orf65	None
11	OR52E6	ENSG00000205409	ENST00000329322	protein_coding	KNOWN	CCDS53597	15215	942	313	5862158	5863127	-1	None	None
11	OR52E6	ENSG00000205409	ENST00000379946	protein_coding	KNOWN	None	15215	954	317	5862186	5863182	-1	None	None
9	None	ENSG00000225385	ENST00000442490	processed_pseudogene	KNOWN	None	None	None	None	90681830	90682952	1	None	None
11	OR52E8	ENSG00000183269	ENST00000537935	protein_coding	KNOWN	CCDS31400	15217	954	317	5877904	5878964	-1	None	None
1	CRB1	ENSG00000134376	ENST00000475659	retained_intron	KNOWN	None	2343	None	None	197237406	197327258	1	RP12	LCA8
1	CRB1	ENSG00000134376	ENST00000484075	nonsense_mediated_decay	KNOWN	None	2343	4131	1376	197237408	197447585	1	RP12	LCA8
1	CRB1	ENSG00000134376	ENST00000367400	protein_coding	KNOWN	CCDS1390	2343	4221	1406	197237408	197447585	1	RP12	LCA8
1	CRB1	ENSG00000134376	ENST00000367399	protein_coding	NOVEL	CCDS53454	2343	3885	1294	197237543	197447009	1	RP12	LCA8
1	CRB1	ENSG00000134376	ENST00000476483	processed_transcript	KNOWN	None	2343	None	None	197329479	197390571	1	RP12	LCA8
1	CRB1	ENSG00000134376	ENST00000367397	protein_coding	KNOWN	None	2343	2025	674	197382959	197413949	1	RP12	LCA8
1	CRB1	ENSG00000134376	ENST00000480086	processed_transcript	KNOWN	None	2343	None	None	197391944	197396967	1	RP12	LCA8
1	CRB1	ENSG00000134376	ENST00000448952	protein_coding	KNOWN	None	2343	129	42	197411300	197447585	1	RP12	LCA8
1	CRB1	ENSG00000134376	ENST00000538660	protein_coding	KNOWN	CCDS58052	2343	2613	870	197237370	197447165	1	RP12	LCA8
1	CRB1	ENSG00000134376	ENST00000535699	protein_coding	KNOWN	CCDS58053	2343	4149	1382	197170592	197447212	1	RP12	LCA8
1	CRB1	ENSG00000134376	ENST00000543483	protein_coding	KNOWN	None	2343	882	293	197302331	197396842	1	RP12	LCA8
1	CRB1	ENSG00000134376	ENST00000544212	protein_coding	KNOWN	None	2343	2664	887	197329444	197447267	1	RP12	LCA8
9	SPATA31C2	ENSG00000177910	ENST00000324915	unprocessed_pseudogene	KNOWN	None	24508	None	None	90744373	90753361	-1	FAM75C2	DKFZP434M131
9	SPATA31C2	ENSG00000177910	ENST00000428649	unprocessed_pseudogene	KNOWN	None	24508	None	None	90744220	90749900	-1	FAM75C2	DKFZP434M131
16	None	ENSG00000261884	ENST00000575231	retained_intron	KNOWN	None	None	None	None	67963517	67969920	-1	None	None
16	None	ENSG00000261884	ENST00000573493	nonsense_mediated_decay	KNOWN	None	None	233	76	67964828	67969544	-1	None	None
12	KRT6B	ENSG00000185479	ENST00000252252	protein_coding	KNOWN	CCDS8828	6444	1695	564	52840435	52845910	-1	KRTL1	None
19	SYCE2	ENSG00000161860	ENST00000293695	protein_coding	KNOWN	CCDS42509	27411	657	218	13009600	13030090	-1	None	CESC1
19	SYCE2	ENSG00000161860	ENST00000592819	protein_coding	PUTATIVE	None	27411	163	53	13009896	13011298	-1	None	CESC1
19	SYCE2	ENSG00000161860	ENST00000591229	processed_transcript	KNOWN	None	27411	None	None	13015331	13017017	-1	None	CESC1
HSCHR6_MHC_COX	TRIM39	ENSG00000224994	ENST00000456425	protein_coding	KNOWN	None	10065	434	143	30284058	30287331	1	RNF23	None
HSCHR6_MHC_COX	TRIM39	ENSG00000224994	ENST00000438089	protein_coding	KNOWN	None	10065	222	73	30284414	30287119	1	RNF23	None
HSCHR6_MHC_COX	TRIM39	ENSG00000224994	ENST00000440117	protein_coding	KNOWN	None	10065	1467	488	30284423	30301312	1	RNF23	None
HSCHR6_MHC_COX	TRIM39	ENSG00000224994	ENST00000440130	protein_coding	KNOWN	None	10065	782	259	30284484	30293562	1	RNF23	None
HSCHR6_MHC_COX	TRIM39	ENSG00000224994	ENST00000449318	protein_coding	KNOWN	None	10065	1467	488	30284499	30301312	1	RNF23	None
HSCHR6_MHC_COX	TRIM39	ENSG00000224994	ENST00000424180	protein_coding	KNOWN	None	10065	178	58	30284536	30287075	1	RNF23	None
HSCHR6_MHC_COX	TRIM39	ENSG00000224994	ENST00000414015	protein_coding	KNOWN	None	10065	1467	488	30284838	30301312	1	RNF23	None
HSCHR6_MHC_COX	TRIM39	ENSG00000224994	ENST00000422419	protein_coding	KNOWN	None	10065	145	47	30285102	30287042	1	RNF23	None
HSCHR6_MHC_COX	TRIM39	ENSG00000224994	ENST00000413715	protein_coding	KNOWN	None	10065	1557	518	30286469	30301312	1	RNF23	None
HSCHR6_MHC_COX	TRIM39	ENSG00000224994	ENST00000437257	protein_coding	KNOWN	None	10065	683	226	30287109	30299053	1	RNF23	None
HSCHR6_MHC_COX	TRIM39	ENSG00000224994	ENST00000547030	protein_coding	KNOWN	None	10065	1557	518	30284423	30301311	1	RNF23	None
HSCHR6_MHC_COX	TRIM39	ENSG00000224994	ENST00000546867	protein_coding	KNOWN	None	10065	1557	518	30284423	30301311	1	RNF23	None
HSCHR6_MHC_COX	TRIM39	ENSG00000224994	ENST00000546886	protein_coding	KNOWN	None	10065	1467	488	30284423	30301311	1	RNF23	None
HSCHR6_MHC_COX	TRIM39	ENSG00000224994	ENST00000549269	protein_coding	KNOWN	None	10065	1236	411	30284423	30299645	1	RNF23	None
HSCHR6_MHC_COX	TRIM39	ENSG00000224994	ENST00000552950	protein_coding	KNOWN	None	10065	1254	417	30284423	30304393	1	RNF23	None
X	WNK3	ENSG00000196632	ENST00000375169	protein_coding	KNOWN	CCDS35302	14543	5232	1743	54219256	54384438	-1	PRKWNK3	None
X	WNK3	ENSG00000196632	ENST00000375159	protein_coding	KNOWN	CCDS14357	14543	5403	1800	54224757	54360106	-1	PRKWNK3	None
X	WNK3	ENSG00000196632	ENST00000458404	protein_coding	KNOWN	None	14543	496	164	54359611	54385075	-1	PRKWNK3	None
X	WNK3	ENSG00000196632	ENST00000354646	protein_coding	KNOWN	CCDS14357	14543	5403	1800	54219258	54384438	-1	PRKWNK3	None
16	PSMB10	ENSG00000205220	ENST00000358514	protein_coding	KNOWN	CCDS10853	9538	822	273	67968405	67970990	-1	MECL1	LMP10, MGC1665, beta2i
16	PSMB10	ENSG00000205220	ENST00000570985	retained_intron	KNOWN	None	9538	None	None	67968409	67969698	-1	MECL1	LMP10, MGC1665, beta2i
16	PSMB10	ENSG00000205220	ENST00000574576	protein_coding	PUTATIVE	None	9538	417	138	67968409	67969888	-1	MECL1	LMP10, MGC1665, beta2i
16	PSMB10	ENSG00000205220	ENST00000570304	retained_intron	KNOWN	None	9538	None	None	67969231	67970750	-1	MECL1	LMP10, MGC1665, beta2i
16	PSMB10	ENSG00000205220	ENST00000575556	retained_intron	KNOWN	None	9538	None	None	67969452	67970767	-1	MECL1	LMP10, MGC1665, beta2i
10	MIR1296	ENSG00000221063	ENST00000408136	miRNA	KNOWN	None	35249	None	None	65132717	65132808	-1	MIRN1296	hsa-mir-1296
1	ADC	ENSG00000142920	ENST00000478635	processed_transcript	KNOWN	None	29957	None	None	33546705	33559001	1	None	ODC-p, ODC1L, KIAA1945
1	ADC	ENSG00000142920	ENST00000294517	protein_coding	KNOWN	CCDS375	29957	1383	460	33546714	33585995	1	None	ODC-p, ODC1L, KIAA1945
1	ADC	ENSG00000142920	ENST00000481886	processed_transcript	KNOWN	None	29957	None	None	33546749	33586130	1	None	ODC-p, ODC1L, KIAA1945
1	ADC	ENSG00000142920	ENST00000475935	processed_transcript	KNOWN	None	29957	None	None	33546751	33586127	1	None	ODC-p, ODC1L, KIAA1945
1	ADC	ENSG00000142920	ENST00000462920	processed_transcript	KNOWN	None	29957	None	None	33546756	33557822	1	None	ODC-p, ODC1L, KIAA1945
1	ADC	ENSG00000142920	ENST00000471119	processed_transcript	KNOWN	None	29957	None	None	33546756	33586131	1	None	ODC-p, ODC1L, KIAA1945
1	ADC	ENSG00000142920	ENST00000495135	processed_transcript	KNOWN	None	29957	None	None	33546762	33549728	1	None	ODC-p, ODC1L, KIAA1945
1	ADC	ENSG00000142920	ENST00000477570	processed_transcript	KNOWN	None	29957	None	None	33546764	33562462	1	None	ODC-p, ODC1L, KIAA1945
1	ADC	ENSG00000142920	ENST00000483027	processed_transcript	KNOWN	None	29957	None	None	33546765	33560314	1	None	ODC-p, ODC1L, KIAA1945
1	ADC	ENSG00000142920	ENST00000492420	processed_transcript	KNOWN	None	29957	None	None	33546766	33559017	1	None	ODC-p, ODC1L, KIAA1945
1	ADC	ENSG00000142920	ENST00000373443	protein_coding	KNOWN	CCDS375	29957	1383	460	33546768	33586130	1	None	ODC-p, ODC1L, KIAA1945
1	ADC	ENSG00000142920	ENST00000497710	processed_transcript	KNOWN	None	29957	None	None	33546770	33557811	1	None	ODC-p, ODC1L, KIAA1945
1	ADC	ENSG00000142920	ENST00000473089	processed_transcript	KNOWN	None	29957	None	None	33546777	33562462	1	None	ODC-p, ODC1L, KIAA1945
1	ADC	ENSG00000142920	ENST00000484656	processed_transcript	KNOWN	None	29957	None	None	33547260	33586131	1	None	ODC-p, ODC1L, KIAA1945
1	ADC	ENSG00000142920	ENST00000373440	protein_coding	KNOWN	None	29957	615	204	33547851	33567494	1	None	ODC-p, ODC1L, KIAA1945
1	ADC	ENSG00000142920	ENST00000373441	protein_coding	KNOWN	None	29957	1443	480	33547851	33585783	1	None	ODC-p, ODC1L, KIAA1945
1	ADC	ENSG00000142920	ENST00000478204	processed_transcript	KNOWN	None	29957	None	None	33548507	33586122	1	None	ODC-p, ODC1L, KIAA1945
1	ADC	ENSG00000142920	ENST00000497280	processed_transcript	KNOWN	None	29957	None	None	33558843	33560314	1	None	ODC-p, ODC1L, KIAA1945
1	ADC	ENSG00000142920	ENST00000492521	processed_transcript	KNOWN	None	29957	None	None	33560245	33562557	1	None	ODC-p, ODC1L, KIAA1945
1	ADC	ENSG00000142920	ENST00000398167	protein_coding	KNOWN	None	29957	1443	480	33546768	33586122	1	None	ODC-p, ODC1L, KIAA1945
1	ADC	ENSG00000142920	ENST00000358680	protein_coding	KNOWN	None	29957	615	204	33546714	33567493	1	None	ODC-p, ODC1L, KIAA1945
2	CCDC104	ENSG00000163001	ENST00000339012	protein_coding	KNOWN	None	30540	1104	367	55746740	55772215	1	None	MGC15407
2	CCDC104	ENSG00000163001	ENST00000406691	protein_coding	PUTATIVE	None	30540	657	218	55746782	55766679	1	None	MGC15407
2	CCDC104	ENSG00000163001	ENST00000349456	protein_coding	KNOWN	CCDS1854	30540	1029	342	55746790	55773015	1	None	MGC15407
2	CCDC104	ENSG00000163001	ENST00000407816	protein_coding	NOVEL	None	30540	942	313	55746826	55772215	1	None	MGC15407
2	CCDC104	ENSG00000163001	ENST00000403007	protein_coding	PUTATIVE	None	30540	672	223	55746867	55763047	1	None	MGC15407
2	CCDC104	ENSG00000163001	ENST00000490934	processed_transcript	KNOWN	None	30540	None	None	55758147	55771430	1	None	MGC15407
2	CCDC104	ENSG00000163001	ENST00000481791	retained_intron	KNOWN	None	30540	None	None	55771156	55772211	1	None	MGC15407
5	SPATA24	ENSG00000170469	ENST00000302091	protein_coding	PUTATIVE	None	27322	881	292	138732252	138739777	-1	None	T6441, CCDC161
5	SPATA24	ENSG00000170469	ENST00000450845	protein_coding	KNOWN	CCDS47274	27322	618	205	138732456	138739757	-1	None	T6441, CCDC161
5	SPATA24	ENSG00000170469	ENST00000512761	protein_coding	NOVEL	None	27322	462	153	138732467	138738352	-1	None	T6441, CCDC161
5	SPATA24	ENSG00000170469	ENST00000514983	protein_coding	PUTATIVE	None	27322	451	149	138732543	138739739	-1	None	T6441, CCDC161
5	SPATA24	ENSG00000170469	ENST00000509959	protein_coding	NOVEL	None	27322	501	166	138737149	138739776	-1	None	T6441, CCDC161
5	SPATA24	ENSG00000170469	ENST00000451821	protein_coding	KNOWN	None	27322	567	188	138737190	138739756	-1	None	T6441, CCDC161
5	SPATA24	ENSG00000170469	ENST00000507779	protein_coding	NOVEL	None	27322	558	185	138737214	138739749	-1	None	T6441, CCDC161
14	GSKIP	ENSG00000100744	ENST00000555181	protein_coding	KNOWN	CCDS32153	20343	420	139	96829814	96853625	1	C14orf129	None
14	GSKIP	ENSG00000100744	ENST00000555088	retained_intron	KNOWN	None	20343	None	None	96829863	96846629	1	C14orf129	None
14	GSKIP	ENSG00000100744	ENST00000553699	protein_coding	KNOWN	None	20343	234	77	96829863	96848818	1	C14orf129	None
14	GSKIP	ENSG00000100744	ENST00000554182	protein_coding	KNOWN	CCDS32153	20343	420	139	96829863	96852249	1	C14orf129	None
14	GSKIP	ENSG00000100744	ENST00000556095	protein_coding	KNOWN	CCDS32153	20343	420	139	96829894	96853623	1	C14orf129	None
14	GSKIP	ENSG00000100744	ENST00000555757	protein_coding	KNOWN	None	20343	327	108	96846039	96851928	1	C14orf129	None
14	GSKIP	ENSG00000100744	ENST00000438650	protein_coding	KNOWN	CCDS32153	20343	420	139	96846022	96853561	1	C14orf129	None
9	UBAC1	ENSG00000130560	ENST00000371756	protein_coding	KNOWN	CCDS35177	30221	1218	405	138824815	138853226	-1	UBADC1	GBDR1
9	UBAC1	ENSG00000130560	ENST00000489050	processed_transcript	KNOWN	None	30221	None	None	138824888	138836909	-1	UBADC1	GBDR1
9	UBAC1	ENSG00000130560	ENST00000465873	processed_transcript	KNOWN	None	30221	None	None	138830186	138837519	-1	UBADC1	GBDR1
9	UBAC1	ENSG00000130560	ENST00000471163	processed_transcript	KNOWN	None	30221	None	None	138831578	138839890	-1	UBADC1	GBDR1
9	UBAC1	ENSG00000130560	ENST00000478485	processed_transcript	KNOWN	None	30221	None	None	138839362	138853058	-1	UBADC1	GBDR1
9	UBAC1	ENSG00000130560	ENST00000486258	processed_transcript	KNOWN	None	30221	None	None	138839723	138845739	-1	UBADC1	GBDR1
22	MICAL3	ENSG00000243156	ENST00000441493	protein_coding	KNOWN	CCDS46659	24694	6009	2002	18270415	18507325	-1	None	KIAA0819
22	MICAL3	ENSG00000243156	ENST00000252134	retained_intron	KNOWN	None	24694	None	None	18273306	18274433	-1	None	KIAA0819
22	MICAL3	ENSG00000243156	ENST00000580469	processed_transcript	KNOWN	None	24694	None	None	18273603	18298435	-1	None	KIAA0819
22	MICAL3	ENSG00000243156	ENST00000577821	protein_coding	NOVEL	None	24694	807	268	18273712	18300255	-1	None	KIAA0819
22	MICAL3	ENSG00000243156	ENST00000579997	protein_coding	PUTATIVE	None	24694	519	172	18274030	18300191	-1	None	KIAA0819
22	MICAL3	ENSG00000243156	ENST00000584751	protein_coding	PUTATIVE	None	24694	418	138	18286320	18293502	-1	None	KIAA0819
22	MICAL3	ENSG00000243156	ENST00000498573	protein_coding	NOVEL	None	24694	593	196	18301788	18314766	-1	None	KIAA0819
22	MICAL3	ENSG00000243156	ENST00000578984	protein_coding	NOVEL	None	24694	569	188	18301802	18314693	-1	None	KIAA0819
22	MICAL3	ENSG00000243156	ENST00000400561	protein_coding	KNOWN	CCDS46660	24694	2901	966	18317094	18389601	-1	None	KIAA0819
22	MICAL3	ENSG00000243156	ENST00000495076	nonsense_mediated_decay	KNOWN	None	24694	1008	335	18322358	18484267	-1	None	KIAA0819
22	MICAL3	ENSG00000243156	ENST00000578905	retained_intron	KNOWN	None	24694	None	None	18322717	18325248	-1	None	KIAA0819
22	MICAL3	ENSG00000243156	ENST00000414725	protein_coding	PUTATIVE	None	24694	2931	976	18322717	18389578	-1	None	KIAA0819
22	MICAL3	ENSG00000243156	ENST00000383094	protein_coding	KNOWN	None	24694	2847	948	18324441	18389593	-1	None	KIAA0819
22	MICAL3	ENSG00000243156	ENST00000461307	protein_coding	PUTATIVE	None	24694	1490	495	18342929	18378054	-1	None	KIAA0819
22	MICAL3	ENSG00000243156	ENST00000585038	protein_coding	KNOWN	CCDS46661	24694	3222	1073	18347381	18389640	-1	None	KIAA0819
22	MICAL3	ENSG00000243156	ENST00000462645	processed_transcript	PUTATIVE	None	24694	None	None	18348690	18359469	-1	None	KIAA0819
22	MICAL3	ENSG00000243156	ENST00000465886	processed_transcript	PUTATIVE	None	24694	None	None	18354696	18359638	-1	None	KIAA0819
22	MICAL3	ENSG00000243156	ENST00000498345	processed_transcript	PUTATIVE	None	24694	None	None	18354700	18359505	-1	None	KIAA0819
22	MICAL3	ENSG00000243156	ENST00000424046	protein_coding	PUTATIVE	None	24694	376	124	18387494	18483946	-1	None	KIAA0819
22	MICAL3	ENSG00000243156	ENST00000444520	protein_coding	KNOWN	CCDS46660	24694	2901	966	18317104	18507325	-1	None	KIAA0819
22	MICAL3	ENSG00000243156	ENST00000207726	protein_coding	KNOWN	None	24694	2931	976	18324542	18507325	-1	None	KIAA0819
22	MICAL3	ENSG00000243156	ENST00000429452	protein_coding	KNOWN	CCDS46661	24694	3222	1073	18342922	18507325	-1	None	KIAA0819
HSCHR6_MHC_SSTO	ZDHHC20P1	ENSG00000229898	ENST00000420872	processed_pseudogene	KNOWN	None	33456	None	None	29675602	29676024	-1	None	OTTHUMG00000086707
22	RGL4	ENSG00000159496	ENST00000441897	nonsense_mediated_decay	KNOWN	None	31911	1308	435	24030323	24041363	1	None	Rgr
22	RGL4	ENSG00000159496	ENST00000401461	protein_coding	PUTATIVE	None	31911	1014	337	24030329	24041363	1	None	Rgr
22	RGL4	ENSG00000159496	ENST00000290691	protein_coding	KNOWN	CCDS13811	31911	1422	473	24033048	24041363	1	None	Rgr
22	RGL4	ENSG00000159496	ENST00000460003	retained_intron	KNOWN	None	31911	None	None	24033493	24041165	1	None	Rgr
22	RGL4	ENSG00000159496	ENST00000423392	protein_coding	PUTATIVE	None	31911	1608	535	24033493	24041165	1	None	Rgr
22	RGL4	ENSG00000159496	ENST00000467354	retained_intron	KNOWN	None	31911	None	None	24033493	24041363	1	None	Rgr
22	RGL4	ENSG00000159496	ENST00000452208	protein_coding	NOVEL	None	31911	466	154	24038671	24041363	1	None	Rgr
22	RGL4	ENSG00000159496	ENST00000460167	processed_transcript	KNOWN	None	31911	None	None	24040257	24040731	1	None	Rgr
HSCHR6_MHC_SSTO	HCG4P11	ENSG00000236881	ENST00000427673	unprocessed_pseudogene	KNOWN	None	22930	None	None	29687680	29688670	-1	None	HCGIV-11, HCGIV.10
HSCHR6_MHC_SSTO	None	ENSG00000230545	ENST00000440776	processed_transcript	KNOWN	None	None	None	None	29691270	29713718	-1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000230545	ENST00000424389	processed_transcript	KNOWN	None	None	None	None	29699710	29713662	-1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000230545	ENST00000442169	processed_transcript	KNOWN	None	None	None	None	29702441	29703126	-1	None	None
22	MTMR3	ENSG00000100330	ENST00000401950	protein_coding	KNOWN	CCDS13870	7451	3597	1198	30279144	30423869	1	None	KIAA0371, ZFYVE10, FYVE-DSP1
22	MTMR3	ENSG00000100330	ENST00000495098	processed_transcript	KNOWN	None	7451	None	None	30279168	30374957	1	None	KIAA0371, ZFYVE10, FYVE-DSP1
22	MTMR3	ENSG00000100330	ENST00000445401	protein_coding	KNOWN	None	7451	418	138	30279186	30387617	1	None	KIAA0371, ZFYVE10, FYVE-DSP1
22	MTMR3	ENSG00000100330	ENST00000323630	protein_coding	NOVEL	None	7451	3189	1062	30279187	30423847	1	None	KIAA0371, ZFYVE10, FYVE-DSP1
22	MTMR3	ENSG00000100330	ENST00000351488	protein_coding	KNOWN	CCDS46682	7451	3486	1161	30279202	30422484	1	None	KIAA0371, ZFYVE10, FYVE-DSP1
22	MTMR3	ENSG00000100330	ENST00000415511	processed_transcript	KNOWN	None	7451	None	None	30279258	30387658	1	None	KIAA0371, ZFYVE10, FYVE-DSP1
22	MTMR3	ENSG00000100330	ENST00000406629	protein_coding	KNOWN	CCDS13871	7451	3513	1170	30367040	30422026	1	None	KIAA0371, ZFYVE10, FYVE-DSP1
22	MTMR3	ENSG00000100330	ENST00000480776	retained_intron	KNOWN	None	7451	None	None	30374076	30375026	1	None	KIAA0371, ZFYVE10, FYVE-DSP1
22	MTMR3	ENSG00000100330	ENST00000487907	processed_transcript	PUTATIVE	None	7451	None	None	30399884	30403964	1	None	KIAA0371, ZFYVE10, FYVE-DSP1
22	MTMR3	ENSG00000100330	ENST00000492087	retained_intron	KNOWN	None	7451	None	None	30413672	30415640	1	None	KIAA0371, ZFYVE10, FYVE-DSP1
22	MTMR3	ENSG00000100330	ENST00000491251	retained_intron	KNOWN	None	7451	None	None	30418452	30421952	1	None	KIAA0371, ZFYVE10, FYVE-DSP1
22	MTMR3	ENSG00000100330	ENST00000333027	protein_coding	KNOWN	CCDS13871	7451	3513	1170	30279158	30426855	1	None	KIAA0371, ZFYVE10, FYVE-DSP1
10	TIAL1	ENSG00000151923	ENST00000369093	protein_coding	KNOWN	CCDS31295	11804	1179	392	121334199	121356007	-1	None	TIAR
10	TIAL1	ENSG00000151923	ENST00000463089	processed_transcript	KNOWN	None	11804	None	None	121334731	121336726	-1	None	TIAR
10	TIAL1	ENSG00000151923	ENST00000489822	retained_intron	KNOWN	None	11804	None	None	121334911	121356476	-1	None	TIAR
10	TIAL1	ENSG00000151923	ENST00000497671	nonsense_mediated_decay	KNOWN	None	11804	408	135	121334924	121356541	-1	None	TIAR
10	TIAL1	ENSG00000151923	ENST00000470781	retained_intron	KNOWN	None	11804	None	None	121334937	121353025	-1	None	TIAR
10	TIAL1	ENSG00000151923	ENST00000436547	protein_coding	KNOWN	CCDS7613	11804	1128	375	121334949	121356022	-1	None	TIAR
10	TIAL1	ENSG00000151923	ENST00000369087	retained_intron	KNOWN	None	11804	None	None	121336288	121340294	-1	None	TIAR
10	TIAL1	ENSG00000151923	ENST00000495821	processed_transcript	KNOWN	None	11804	None	None	121336987	121338452	-1	None	TIAR
10	TIAL1	ENSG00000151923	ENST00000470635	processed_transcript	KNOWN	None	11804	None	None	121338259	121341696	-1	None	TIAR
10	TIAL1	ENSG00000151923	ENST00000412524	protein_coding	KNOWN	None	11804	398	131	121338279	121347869	-1	None	TIAR
10	TIAL1	ENSG00000151923	ENST00000369086	protein_coding	KNOWN	None	11804	258	85	121341245	121347722	-1	None	TIAR
10	TIAL1	ENSG00000151923	ENST00000462373	processed_transcript	KNOWN	None	11804	None	None	121342043	121353006	-1	None	TIAR
10	TIAL1	ENSG00000151923	ENST00000479729	processed_transcript	KNOWN	None	11804	None	None	121347679	121356144	-1	None	TIAR
10	TIAL1	ENSG00000151923	ENST00000369092	protein_coding	KNOWN	None	11804	759	252	121334928	121356541	-1	None	TIAR
HSCHR6_MHC_SSTO	RPL23AP1	ENSG00000242511	ENST00000458419	processed_pseudogene	KNOWN	None	10318	None	None	29691338	29691808	-1	None	None
HSCHR6_MHC_SSTO	HLA-F-AS1	ENSG00000249123	ENST00000509653	unprocessed_pseudogene	KNOWN	None	26645	None	None	29706410	29713638	-1	None	None
19	ZNF493	ENSG00000196268	ENST00000596302	protein_coding	PUTATIVE	None	23708	288	95	21579921	21605842	1	None	FLJ36504
19	ZNF493	ENSG00000196268	ENST00000392288	protein_coding	NOVEL	CCDS42536	23708	2325	774	21579931	21610375	1	None	FLJ36504
19	ZNF493	ENSG00000196268	ENST00000596815	nonsense_mediated_decay	KNOWN	None	23708	147	48	21579935	21588638	1	None	FLJ36504
19	ZNF493	ENSG00000196268	ENST00000594390	protein_coding	PUTATIVE	None	23708	285	94	21579935	21597445	1	None	FLJ36504
19	ZNF493	ENSG00000196268	ENST00000355504	protein_coding	KNOWN	CCDS12412	23708	1941	646	21579935	21609965	1	None	FLJ36504
19	ZNF493	ENSG00000196268	ENST00000339914	protein_coding	NOVEL	CCDS12411	23708	312	103	21579958	21591601	1	None	FLJ36504
19	ZNF493	ENSG00000196268	ENST00000599461	protein_coding	PUTATIVE	None	23708	147	48	21579968	21581736	1	None	FLJ36504
19	ZNF493	ENSG00000196268	ENST00000598152	retained_intron	KNOWN	None	23708	None	None	21588080	21605751	1	None	FLJ36504
19	ZNF493	ENSG00000196268	ENST00000599517	retained_intron	KNOWN	None	23708	None	None	21594742	21597401	1	None	FLJ36504
7	PIK3CG	ENSG00000105851	ENST00000440650	protein_coding	KNOWN	CCDS5739	8978	3309	1102	106505723	106546266	1	None	None
7	PIK3CG	ENSG00000105851	ENST00000496166	protein_coding	KNOWN	CCDS5739	8978	3309	1102	106505741	106547577	1	None	None
7	PIK3CG	ENSG00000105851	ENST00000473541	protein_coding	PUTATIVE	None	8978	547	181	106505784	106523576	1	None	None
7	PIK3CG	ENSG00000105851	ENST00000359195	protein_coding	KNOWN	CCDS5739	8978	3309	1102	106505924	106547590	1	None	None
7	PIK3CG	ENSG00000105851	ENST00000466738	processed_transcript	PUTATIVE	None	8978	None	None	106522609	106523381	1	None	None
9	CLTA	ENSG00000122705	ENST00000345519	protein_coding	KNOWN	CCDS6600	2090	657	218	36190920	36212053	1	None	Lca
9	CLTA	ENSG00000122705	ENST00000464497	nonsense_mediated_decay	KNOWN	None	2090	783	260	36190928	36304778	1	None	Lca
9	CLTA	ENSG00000122705	ENST00000470744	protein_coding	NOVEL	CCDS55306	2090	693	230	36190929	36212055	1	None	Lca
9	CLTA	ENSG00000122705	ENST00000242285	protein_coding	KNOWN	CCDS6601	2090	747	248	36190934	36212056	1	None	Lca
9	CLTA	ENSG00000122705	ENST00000466396	protein_coding	NOVEL	None	2090	591	196	36190960	36211781	1	None	Lca
9	CLTA	ENSG00000122705	ENST00000396603	protein_coding	KNOWN	CCDS43802	2090	711	236	36190960	36212056	1	None	Lca
9	CLTA	ENSG00000122705	ENST00000493185	nonsense_mediated_decay	KNOWN	None	2090	195	64	36191162	36212054	1	None	Lca
9	CLTA	ENSG00000122705	ENST00000433436	protein_coding	KNOWN	None	2090	747	248	36190853	36212058	1	None	Lca
9	CLTA	ENSG00000122705	ENST00000538225	protein_coding	KNOWN	None	2090	693	230	36190853	36212058	1	None	Lca
9	CLTA	ENSG00000122705	ENST00000540080	protein_coding	KNOWN	CCDS55307	2090	501	166	36190853	36212058	1	None	Lca
19	ISYNA1	ENSG00000105655	ENST00000582811	nonsense_mediated_decay	KNOWN	None	29821	141	46	18545198	18548921	-1	None	Ino1, INOS, IPS
19	ISYNA1	ENSG00000105655	ENST00000338128	protein_coding	KNOWN	CCDS12379	29821	1677	558	18545619	18549111	-1	None	Ino1, INOS, IPS
19	ISYNA1	ENSG00000105655	ENST00000457269	protein_coding	KNOWN	CCDS54234	29821	1515	504	18545620	18548977	-1	None	Ino1, INOS, IPS
19	ISYNA1	ENSG00000105655	ENST00000582287	retained_intron	KNOWN	None	29821	None	None	18545625	18546532	-1	None	Ino1, INOS, IPS
19	ISYNA1	ENSG00000105655	ENST00000581672	protein_coding	NOVEL	None	29821	701	232	18545631	18546712	-1	None	Ino1, INOS, IPS
19	ISYNA1	ENSG00000105655	ENST00000578963	protein_coding	PUTATIVE	None	29821	1293	430	18545631	18548119	-1	None	Ino1, INOS, IPS
19	ISYNA1	ENSG00000105655	ENST00000577916	retained_intron	KNOWN	None	29821	None	None	18545632	18548528	-1	None	Ino1, INOS, IPS
19	ISYNA1	ENSG00000105655	ENST00000582770	nonsense_mediated_decay	KNOWN	None	29821	456	151	18545632	18548972	-1	None	Ino1, INOS, IPS
19	ISYNA1	ENSG00000105655	ENST00000577820	nonsense_mediated_decay	KNOWN	None	29821	141	46	18545671	18548925	-1	None	Ino1, INOS, IPS
19	ISYNA1	ENSG00000105655	ENST00000583816	retained_intron	KNOWN	None	29821	None	None	18546204	18547455	-1	None	Ino1, INOS, IPS
19	ISYNA1	ENSG00000105655	ENST00000583309	retained_intron	KNOWN	None	29821	None	None	18546226	18546676	-1	None	Ino1, INOS, IPS
19	ISYNA1	ENSG00000105655	ENST00000607645	protein_coding	NOVEL	None	29821	639	212	18546624	18548977	-1	None	Ino1, INOS, IPS
19	ISYNA1	ENSG00000105655	ENST00000579463	protein_coding	NOVEL	None	29821	354	117	18546681	18547289	-1	None	Ino1, INOS, IPS
19	ISYNA1	ENSG00000105655	ENST00000580254	retained_intron	KNOWN	None	29821	None	None	18546916	18547964	-1	None	Ino1, INOS, IPS
19	ISYNA1	ENSG00000105655	ENST00000578352	protein_coding	NOVEL	None	29821	532	176	18546958	18548953	-1	None	Ino1, INOS, IPS
19	ISYNA1	ENSG00000105655	ENST00000580725	retained_intron	KNOWN	None	29821	None	None	18547609	18548974	-1	None	Ino1, INOS, IPS
19	ISYNA1	ENSG00000105655	ENST00000581800	protein_coding	NOVEL	None	29821	548	181	18547654	18548972	-1	None	Ino1, INOS, IPS
19	ISYNA1	ENSG00000105655	ENST00000583534	protein_coding	KNOWN	None	29821	446	147	18547657	18548972	-1	None	Ino1, INOS, IPS
19	ISYNA1	ENSG00000105655	ENST00000579059	protein_coding	NOVEL	None	29821	536	177	18547761	18548941	-1	None	Ino1, INOS, IPS
19	ISYNA1	ENSG00000105655	ENST00000317018	protein_coding	KNOWN	None	29821	1071	356	18545632	18548966	-1	None	Ino1, INOS, IPS
19	ISYNA1	ENSG00000105655	ENST00000545187	protein_coding	KNOWN	None	29821	1227	408	18545198	18548921	-1	None	Ino1, INOS, IPS
16	None	ENSG00000226180	ENST00000538868	protein_coding	KNOWN	None	None	879	292	87727144	87729753	-1	None	None
HSCHR6_MHC_MCF	C6orf10	ENSG00000237881	ENST00000422186	protein_coding	KNOWN	None	13922	577	191	32360675	32415872	-1	None	TSBP
HSCHR6_MHC_MCF	C6orf10	ENSG00000237881	ENST00000413045	protein_coding	KNOWN	None	13922	580	192	32366766	32415844	-1	None	TSBP
12	None	ENSG00000272214	ENST00000539163	protein_coding	KNOWN	None	None	405	134	121407641	121410095	-1	None	None
11	OR52E4	ENSG00000180974	ENST00000316987	protein_coding	KNOWN	CCDS31401	15213	939	312	5905501	5906527	1	None	None
HSCHR6_MHC_MCF	NRM	ENSG00000234809	ENST00000482500	processed_transcript	KNOWN	None	8003	None	None	30734312	30736618	-1	None	NRM29
HSCHR6_MHC_MCF	NRM	ENSG00000234809	ENST00000411883	protein_coding	KNOWN	None	8003	787	261	30734312	30736988	-1	None	NRM29
HSCHR6_MHC_MCF	NRM	ENSG00000234809	ENST00000459649	processed_transcript	KNOWN	None	8003	None	None	30734312	30737232	-1	None	NRM29
HSCHR6_MHC_MCF	NRM	ENSG00000234809	ENST00000460999	processed_transcript	KNOWN	None	8003	None	None	30734312	30737239	-1	None	NRM29
HSCHR6_MHC_MCF	NRM	ENSG00000234809	ENST00000450138	protein_coding	KNOWN	None	8003	612	203	30734312	30737241	-1	None	NRM29
HSCHR6_MHC_MCF	NRM	ENSG00000234809	ENST00000464509	processed_transcript	KNOWN	None	8003	None	None	30734312	30737251	-1	None	NRM29
HSCHR6_MHC_MCF	NRM	ENSG00000234809	ENST00000488021	processed_transcript	KNOWN	None	8003	None	None	30734312	30737267	-1	None	NRM29
HSCHR6_MHC_MCF	NRM	ENSG00000234809	ENST00000422181	protein_coding	KNOWN	None	8003	789	262	30734312	30737685	-1	None	NRM29
11	OR56A3	ENSG00000184478	ENST00000329564	protein_coding	KNOWN	CCDS41614	14786	948	315	5968570	5969591	1	OR56A6, OR56A3P	None
HSCHR6_MHC_SSTO	HCG9P5	ENSG00000226267	ENST00000443991	unprocessed_pseudogene	KNOWN	None	30983	None	None	29712958	29713182	1	None	HCGIX-5, dJ377H14.6
HSCHR6_MHC_SSTO	None	ENSG00000264905	ENST00000579395	misc_RNA	NOVEL	None	None	None	None	29715038	29715139	1	None	None
10	PRELID1P3	ENSG00000235816	ENST00000450055	processed_pseudogene	KNOWN	None	43888	None	None	65187057	65187699	1	None	None
10	PRELID1P3	ENSG00000235816	ENST00000439942	processed_pseudogene	KNOWN	None	43888	None	None	65187057	65187713	1	None	None
11	OR52L1	ENSG00000183313	ENST00000332249	protein_coding	KNOWN	CCDS44529	14785	990	329	6007122	6008215	-1	None	None
HSCHR6_MHC_SSTO	IFITM4P	ENSG00000229942	ENST00000439894	processed_pseudogene	KNOWN	None	21669	None	None	29715395	29715815	-1	None	dJ377H14.5
10	None	ENSG00000224412	ENST00000430304	processed_pseudogene	KNOWN	None	None	None	None	65249221	65249398	1	None	None
HSCHR6_MHC_SSTO	HCG4	ENSG00000228706	ENST00000422598	unprocessed_pseudogene	KNOWN	None	21241	None	None	29756344	29757341	-1	HCG4P10	HCGIV-10, HCGIV.9
HSCHR6_MHC_SSTO	HCG4	ENSG00000228706	ENST00000552485	pseudogene	KNOWN	None	21241	None	None	29755630	29757664	-1	HCG4P10	HCGIV-10, HCGIV.9
11	OR56A4	ENSG00000183389	ENST00000330728	protein_coding	KNOWN	CCDS31404	14791	1098	365	6023216	6024424	-1	None	None
1	TRIM62	ENSG00000116525	ENST00000291416	protein_coding	KNOWN	CCDS376	25574	1428	475	33611003	33647267	-1	None	FLJ10759, DEAR1
1	TRIM62	ENSG00000116525	ENST00000543586	protein_coding	PUTATIVE	None	25574	1065	354	33612303	33642151	-1	None	FLJ10759, DEAR1
1	TRIM62	ENSG00000116525	ENST00000485148	processed_transcript	KNOWN	None	25574	None	None	33625293	33647654	-1	None	FLJ10759, DEAR1
1	TRIM62	ENSG00000116525	ENST00000486583	processed_transcript	KNOWN	None	25574	None	None	33646856	33647660	-1	None	FLJ10759, DEAR1
HSCHR6_MHC_SSTO	HLA-V	ENSG00000229529	ENST00000429556	processed_transcript	KNOWN	None	23482	None	None	29755943	29762282	1	HLA-75	dJ377H14.4
HSCHR6_MHC_SSTO	HLA-V	ENSG00000229529	ENST00000490292	processed_transcript	KNOWN	None	23482	None	None	29756497	29762282	1	HLA-75	dJ377H14.4
HSCHR6_MHC_SSTO	HLA-V	ENSG00000229529	ENST00000435899	processed_transcript	KNOWN	None	23482	None	None	29756814	29762282	1	HLA-75	dJ377H14.4
HSCHR6_MHC_SSTO	HLA-V	ENSG00000229529	ENST00000563334	transcribed_unprocessed_pseudogene	KNOWN	None	23482	None	None	29756825	29757727	1	HLA-75	dJ377H14.4
12	C12orf79	ENSG00000257242	ENST00000551843	processed_transcript	KNOWN	None	27409	None	None	92378756	92535489	-1	None	None
12	C12orf79	ENSG00000257242	ENST00000549802	protein_coding	NOVEL	CCDS58262	27409	348	115	92378866	92536447	-1	None	None
12	C12orf79	ENSG00000257242	ENST00000552106	processed_transcript	KNOWN	None	27409	None	None	92379554	92536444	-1	None	None
12	C12orf79	ENSG00000257242	ENST00000551563	protein_coding	NOVEL	CCDS59237	27409	258	85	92379554	92536444	-1	None	None
12	C12orf79	ENSG00000257242	ENST00000546975	protein_coding	NOVEL	CCDS58261	27409	291	96	92379554	92536444	-1	None	None
12	C12orf79	ENSG00000257242	ENST00000551764	retained_intron	KNOWN	None	27409	None	None	92382099	92387305	-1	None	None
12	C12orf79	ENSG00000257242	ENST00000553207	processed_transcript	KNOWN	None	27409	None	None	92382163	92536607	-1	None	None
12	C12orf79	ENSG00000257242	ENST00000551306	retained_intron	KNOWN	None	27409	None	None	92386861	92422033	-1	None	None
12	C12orf79	ENSG00000257242	ENST00000552277	protein_coding	PUTATIVE	None	27409	119	38	92386968	92530797	-1	None	None
12	C12orf79	ENSG00000257242	ENST00000548552	processed_transcript	KNOWN	None	27409	None	None	92534815	92536690	-1	None	None
2	BAZ2B	ENSG00000123636	ENST00000392782	protein_coding	NOVEL	None	963	6399	2132	160175490	160473080	-1	None	WALp4
2	BAZ2B	ENSG00000123636	ENST00000392783	protein_coding	KNOWN	CCDS2209	963	6507	2168	160175490	160473203	-1	None	WALp4
2	BAZ2B	ENSG00000123636	ENST00000548440	retained_intron	KNOWN	None	963	None	None	160178369	160189507	-1	None	WALp4
2	BAZ2B	ENSG00000123636	ENST00000474437	processed_transcript	KNOWN	None	963	None	None	160182275	160204126	-1	None	WALp4
2	BAZ2B	ENSG00000123636	ENST00000426648	protein_coding	PUTATIVE	None	963	537	178	160193471	160204104	-1	None	WALp4
2	BAZ2B	ENSG00000123636	ENST00000551504	processed_transcript	KNOWN	None	963	None	None	160241676	160254717	-1	None	WALp4
2	BAZ2B	ENSG00000123636	ENST00000485917	processed_transcript	KNOWN	None	963	None	None	160241803	160248718	-1	None	WALp4
2	BAZ2B	ENSG00000123636	ENST00000294905	protein_coding	PUTATIVE	None	963	631	209	160242885	160257161	-1	None	WALp4
2	BAZ2B	ENSG00000123636	ENST00000482501	processed_transcript	KNOWN	None	963	None	None	160257110	160276378	-1	None	WALp4
2	BAZ2B	ENSG00000123636	ENST00000472953	retained_intron	KNOWN	None	963	None	None	160260883	160292064	-1	None	WALp4
2	BAZ2B	ENSG00000123636	ENST00000441143	protein_coding	PUTATIVE	None	963	580	192	160268943	160289461	-1	None	WALp4
2	BAZ2B	ENSG00000123636	ENST00000467184	retained_intron	KNOWN	None	963	None	None	160293906	160412375	-1	None	WALp4
2	BAZ2B	ENSG00000123636	ENST00000482503	processed_transcript	KNOWN	None	963	None	None	160294814	160373170	-1	None	WALp4
2	BAZ2B	ENSG00000123636	ENST00000541068	protein_coding	PUTATIVE	None	963	285	94	160303347	160473016	-1	None	WALp4
2	BAZ2B	ENSG00000123636	ENST00000437839	protein_coding	KNOWN	None	963	428	141	160304827	160472071	-1	None	WALp4
2	BAZ2B	ENSG00000123636	ENST00000483316	processed_transcript	KNOWN	None	963	None	None	160314835	160472961	-1	None	WALp4
2	BAZ2B	ENSG00000123636	ENST00000552327	retained_intron	KNOWN	None	963	None	None	160411954	160471935	-1	None	WALp4
2	BAZ2B	ENSG00000123636	ENST00000355831	protein_coding	KNOWN	None	963	6405	2134	160175490	160473059	-1	None	WALp4
2	BAZ2B	ENSG00000123636	ENST00000343439	protein_coding	KNOWN	None	963	6207	2068	160175490	160473059	-1	None	WALp4
4	IDUA	ENSG00000127415	ENST00000247933	protein_coding	KNOWN	CCDS3343	5391	1962	653	980785	998294	1	None	MPS1
4	IDUA	ENSG00000127415	ENST00000502910	protein_coding	NOVEL	None	5391	673	223	980832	995791	1	None	MPS1
4	IDUA	ENSG00000127415	ENST00000514698	retained_intron	KNOWN	None	5391	None	None	980832	998293	1	None	MPS1
4	IDUA	ENSG00000127415	ENST00000508168	retained_intron	KNOWN	None	5391	None	None	980854	994926	1	None	MPS1
4	IDUA	ENSG00000127415	ENST00000506561	retained_intron	KNOWN	None	5391	None	None	980864	994967	1	None	MPS1
4	IDUA	ENSG00000127415	ENST00000504568	protein_coding	NOVEL	None	5391	586	194	980875	995503	1	None	MPS1
4	IDUA	ENSG00000127415	ENST00000509744	processed_transcript	PUTATIVE	None	5391	None	None	981703	983411	1	None	MPS1
4	IDUA	ENSG00000127415	ENST00000514192	protein_coding	PUTATIVE	None	5391	697	231	985613	995857	1	None	MPS1
4	IDUA	ENSG00000127415	ENST00000509948	protein_coding	PUTATIVE	None	5391	529	175	985660	995613	1	None	MPS1
4	IDUA	ENSG00000127415	ENST00000514224	protein_coding	PUTATIVE	None	5391	1566	521	993498	998293	1	None	MPS1
4	IDUA	ENSG00000127415	ENST00000502829	retained_intron	KNOWN	None	5391	None	None	996529	997177	1	None	MPS1
4	IDUA	ENSG00000127415	ENST00000514417	retained_intron	KNOWN	None	5391	None	None	997217	997512	1	None	MPS1
4	IDUA	ENSG00000127415	ENST00000453894	protein_coding	KNOWN	None	5391	2028	675	980785	998316	1	None	MPS1
18	SLC39A6	ENSG00000141424	ENST00000269187	protein_coding	KNOWN	CCDS42428	18607	2268	755	33688495	33709281	-1	None	LIV-1
18	SLC39A6	ENSG00000141424	ENST00000590986	protein_coding	NOVEL	CCDS42428	18607	2268	755	33689111	33709344	-1	None	LIV-1
18	SLC39A6	ENSG00000141424	ENST00000440549	protein_coding	KNOWN	CCDS45854	18607	1302	433	33690963	33709348	-1	None	LIV-1
18	SLC39A6	ENSG00000141424	ENST00000586829	protein_coding	PUTATIVE	None	18607	819	272	33691019	33702078	-1	None	LIV-1
9	APTX	ENSG00000137074	ENST00000379825	protein_coding	KNOWN	None	15984	921	306	32972604	33001626	-1	AXA1	FLJ20157, AOA, AOA1, EAOH, EOAHA
9	APTX	ENSG00000137074	ENST00000494649	nonsense_mediated_decay	KNOWN	None	15984	150	49	32972614	33001519	-1	AXA1	FLJ20157, AOA, AOA1, EAOH, EOAHA
9	APTX	ENSG00000137074	ENST00000397172	protein_coding	KNOWN	None	15984	855	284	32972614	33001605	-1	AXA1	FLJ20157, AOA, AOA1, EAOH, EOAHA
9	APTX	ENSG00000137074	ENST00000465003	nonsense_mediated_decay	KNOWN	None	15984	258	85	32972616	32990086	-1	AXA1	FLJ20157, AOA, AOA1, EAOH, EOAHA
9	APTX	ENSG00000137074	ENST00000485479	nonsense_mediated_decay	KNOWN	None	15984	150	49	32972616	32990086	-1	AXA1	FLJ20157, AOA, AOA1, EAOH, EOAHA
9	APTX	ENSG00000137074	ENST00000379817	protein_coding	NOVEL	None	15984	1029	342	32972616	32990086	-1	AXA1	FLJ20157, AOA, AOA1, EAOH, EOAHA
9	APTX	ENSG00000137074	ENST00000467331	nonsense_mediated_decay	KNOWN	None	15984	150	49	32972616	32990086	-1	AXA1	FLJ20157, AOA, AOA1, EAOH, EOAHA
9	APTX	ENSG00000137074	ENST00000472896	nonsense_mediated_decay	KNOWN	None	15984	150	49	32972616	32990086	-1	AXA1	FLJ20157, AOA, AOA1, EAOH, EOAHA
9	APTX	ENSG00000137074	ENST00000483148	nonsense_mediated_decay	KNOWN	None	15984	258	85	32972616	32990086	-1	AXA1	FLJ20157, AOA, AOA1, EAOH, EOAHA
9	APTX	ENSG00000137074	ENST00000482687	nonsense_mediated_decay	KNOWN	None	15984	579	192	32972616	32990086	-1	AXA1	FLJ20157, AOA, AOA1, EAOH, EOAHA
9	APTX	ENSG00000137074	ENST00000460940	nonsense_mediated_decay	KNOWN	None	15984	150	49	32972616	32990086	-1	AXA1	FLJ20157, AOA, AOA1, EAOH, EOAHA
9	APTX	ENSG00000137074	ENST00000379819	protein_coding	KNOWN	None	15984	1071	356	32972747	33001602	-1	AXA1	FLJ20157, AOA, AOA1, EAOH, EOAHA
9	APTX	ENSG00000137074	ENST00000479656	nonsense_mediated_decay	KNOWN	None	15984	150	49	32972761	32997358	-1	AXA1	FLJ20157, AOA, AOA1, EAOH, EOAHA
9	APTX	ENSG00000137074	ENST00000468275	protein_coding	KNOWN	None	15984	1029	342	32973163	32997329	-1	AXA1	FLJ20157, AOA, AOA1, EAOH, EOAHA
9	APTX	ENSG00000137074	ENST00000474658	nonsense_mediated_decay	KNOWN	None	15984	224	73	32973240	33001577	-1	AXA1	FLJ20157, AOA, AOA1, EAOH, EOAHA
9	APTX	ENSG00000137074	ENST00000463596	protein_coding	NOVEL	None	15984	1029	342	32973374	33001520	-1	AXA1	FLJ20157, AOA, AOA1, EAOH, EOAHA
9	APTX	ENSG00000137074	ENST00000476858	protein_coding	KNOWN	CCDS56568	15984	909	302	32973374	33001639	-1	AXA1	FLJ20157, AOA, AOA1, EAOH, EOAHA
9	APTX	ENSG00000137074	ENST00000495360	nonsense_mediated_decay	KNOWN	None	15984	150	49	32973405	33025110	-1	AXA1	FLJ20157, AOA, AOA1, EAOH, EOAHA
9	APTX	ENSG00000137074	ENST00000486724	processed_transcript	KNOWN	None	15984	None	None	32980386	32987760	-1	AXA1	FLJ20157, AOA, AOA1, EAOH, EOAHA
9	APTX	ENSG00000137074	ENST00000379812	protein_coding	NOVEL	None	15984	596	197	32984629	33001605	-1	AXA1	FLJ20157, AOA, AOA1, EAOH, EOAHA
9	APTX	ENSG00000137074	ENST00000473221	protein_coding	NOVEL	None	15984	650	215	32984629	33001639	-1	AXA1	FLJ20157, AOA, AOA1, EAOH, EOAHA
9	APTX	ENSG00000137074	ENST00000464632	nonsense_mediated_decay	KNOWN	None	15984	192	63	32984657	33001617	-1	AXA1	FLJ20157, AOA, AOA1, EAOH, EOAHA
9	APTX	ENSG00000137074	ENST00000478279	nonsense_mediated_decay	KNOWN	None	15984	300	99	32984657	33001617	-1	AXA1	FLJ20157, AOA, AOA1, EAOH, EOAHA
9	APTX	ENSG00000137074	ENST00000480031	nonsense_mediated_decay	KNOWN	None	15984	159	52	32984713	33001595	-1	AXA1	FLJ20157, AOA, AOA1, EAOH, EOAHA
9	APTX	ENSG00000137074	ENST00000477119	protein_coding	NOVEL	None	15984	467	154	32984770	33001610	-1	AXA1	FLJ20157, AOA, AOA1, EAOH, EOAHA
9	APTX	ENSG00000137074	ENST00000496030	retained_intron	KNOWN	None	15984	None	None	32985987	32988132	-1	AXA1	FLJ20157, AOA, AOA1, EAOH, EOAHA
9	APTX	ENSG00000137074	ENST00000460945	processed_transcript	KNOWN	None	15984	None	None	32987541	33025166	-1	AXA1	FLJ20157, AOA, AOA1, EAOH, EOAHA
9	APTX	ENSG00000137074	ENST00000494973	retained_intron	KNOWN	None	15984	None	None	32987775	33001626	-1	AXA1	FLJ20157, AOA, AOA1, EAOH, EOAHA
9	APTX	ENSG00000137074	ENST00000473270	processed_transcript	KNOWN	None	15984	None	None	33015886	33025108	-1	AXA1	FLJ20157, AOA, AOA1, EAOH, EOAHA
9	APTX	ENSG00000137074	ENST00000489583	processed_transcript	KNOWN	None	15984	None	None	33019952	33024985	-1	AXA1	FLJ20157, AOA, AOA1, EAOH, EOAHA
9	APTX	ENSG00000137074	ENST00000379813	protein_coding	KNOWN	CCDS47956	15984	1029	342	32973379	33001614	-1	AXA1	FLJ20157, AOA, AOA1, EAOH, EOAHA
9	APTX	ENSG00000137074	ENST00000309615	protein_coding	KNOWN	CCDS6532	15984	921	306	32972609	33001626	-1	AXA1	FLJ20157, AOA, AOA1, EAOH, EOAHA
9	APTX	ENSG00000137074	ENST00000436040	protein_coding	KNOWN	None	15984	579	192	32972622	32990086	-1	AXA1	FLJ20157, AOA, AOA1, EAOH, EOAHA
9	PCSK5	ENSG00000099139	ENST00000376767	protein_coding	KNOWN	None	8747	2073	690	78505586	78790478	1	None	PC5, PC6, SPC6
9	PCSK5	ENSG00000099139	ENST00000376752	protein_coding	KNOWN	CCDS6652	8747	2742	913	78505621	78810805	1	None	PC5, PC6, SPC6
9	PCSK5	ENSG00000099139	ENST00000424854	protein_coding	NOVEL	None	8747	4683	1560	78710893	78973886	1	None	PC5, PC6, SPC6
9	PCSK5	ENSG00000099139	ENST00000455778	protein_coding	KNOWN	None	8747	306	101	78803555	78809876	1	None	PC5, PC6, SPC6
9	PCSK5	ENSG00000099139	ENST00000545128	protein_coding	KNOWN	CCDS55320	8747	5583	1860	78505560	78977255	1	None	PC5, PC6, SPC6
1	DENND1B	ENSG00000213047	ENST00000391979	protein_coding	PUTATIVE	None	28404	1248	415	197473878	197552350	-1	FAM31B, C1orf218	MGC27044, FLJ20054
1	DENND1B	ENSG00000213047	ENST00000294737	nonsense_mediated_decay	KNOWN	None	28404	1059	352	197478774	197744437	-1	FAM31B, C1orf218	MGC27044, FLJ20054
1	DENND1B	ENSG00000213047	ENST00000463124	retained_intron	KNOWN	None	28404	None	None	197514697	197515903	-1	FAM31B, C1orf218	MGC27044, FLJ20054
1	DENND1B	ENSG00000213047	ENST00000235453	protein_coding	KNOWN	None	28404	1191	396	197521385	197744322	-1	FAM31B, C1orf218	MGC27044, FLJ20054
1	DENND1B	ENSG00000213047	ENST00000367396	protein_coding	KNOWN	CCDS41452	28404	1281	426	197521385	197744455	-1	FAM31B, C1orf218	MGC27044, FLJ20054
1	DENND1B	ENSG00000213047	ENST00000496935	retained_intron	KNOWN	None	28404	None	None	197574612	197627480	-1	FAM31B, C1orf218	MGC27044, FLJ20054
1	DENND1B	ENSG00000213047	ENST00000422998	protein_coding	PUTATIVE	None	28404	442	146	197611903	197744763	-1	FAM31B, C1orf218	MGC27044, FLJ20054
1	DENND1B	ENSG00000213047	ENST00000294738	processed_transcript	KNOWN	None	28404	None	None	197627430	197704659	-1	FAM31B, C1orf218	MGC27044, FLJ20054
1	DENND1B	ENSG00000213047	ENST00000468589	retained_intron	KNOWN	None	28404	None	None	197703139	197744556	-1	FAM31B, C1orf218	MGC27044, FLJ20054
1	DENND1B	ENSG00000213047	ENST00000495550	retained_intron	KNOWN	None	28404	None	None	197704380	197743737	-1	FAM31B, C1orf218	MGC27044, FLJ20054
1	DENND1B	ENSG00000213047	ENST00000477581	processed_transcript	KNOWN	None	28404	None	None	197704788	197744826	-1	FAM31B, C1orf218	MGC27044, FLJ20054
1	DENND1B	ENSG00000213047	ENST00000400967	protein_coding	KNOWN	None	28404	1191	396	197521385	197704767	-1	FAM31B, C1orf218	MGC27044, FLJ20054
Y	BPY2C	ENSG00000185894	ENST00000382287	protein_coding	KNOWN	CCDS44030	18225	321	106	27177048	27198251	-1	None	VCY2C
Y	BPY2C	ENSG00000185894	ENST00000602559	processed_transcript	KNOWN	None	18225	None	None	27177107	27198227	-1	None	VCY2C
Y	BPY2C	ENSG00000185894	ENST00000602680	protein_coding	KNOWN	None	18225	33	10	27190138	27208695	-1	None	VCY2C
11	B3GNT6	ENSG00000198488	ENST00000533140	protein_coding	KNOWN	CCDS53681	24141	1158	385	76745385	76753096	1	None	B3Gn-T6
11	B3GNT6	ENSG00000198488	ENST00000528622	protein_coding	KNOWN	None	24141	364	120	76745442	76750959	1	None	B3Gn-T6
11	B3GNT6	ENSG00000198488	ENST00000354301	protein_coding	KNOWN	None	24141	1155	384	76745435	76753003	1	None	B3Gn-T6
11	B3GNT6	ENSG00000198488	ENST00000421061	protein_coding	KNOWN	None	24141	792	263	76750596	76751753	1	None	B3Gn-T6
1	ZNF362	ENSG00000160094	ENST00000483388	protein_coding	PUTATIVE	None	18079	601	199	33722146	33746015	1	None	FLJ25476, lin-29, RN
1	ZNF362	ENSG00000160094	ENST00000539719	protein_coding	KNOWN	CCDS377	18079	1263	420	33722174	33766320	1	None	FLJ25476, lin-29, RN
1	ZNF362	ENSG00000160094	ENST00000490959	processed_transcript	KNOWN	None	18079	None	None	33722220	33740849	1	None	FLJ25476, lin-29, RN
1	ZNF362	ENSG00000160094	ENST00000477934	retained_intron	KNOWN	None	18079	None	None	33745951	33747574	1	None	FLJ25476, lin-29, RN
1	ZNF362	ENSG00000160094	ENST00000373428	protein_coding	KNOWN	CCDS377	18079	1263	420	33736176	33766320	1	None	FLJ25476, lin-29, RN
12	CLEC1B	ENSG00000165682	ENST00000398937	protein_coding	PUTATIVE	None	24356	291	96	10138241	10149762	-1	None	CLEC2
12	CLEC1B	ENSG00000165682	ENST00000428126	protein_coding	KNOWN	CCDS41751	24356	591	196	10143549	10166023	-1	None	CLEC2
12	CLEC1B	ENSG00000165682	ENST00000298527	protein_coding	KNOWN	CCDS41752	24356	690	229	10145660	10151879	-1	None	CLEC2
12	CLEC1B	ENSG00000165682	ENST00000348658	protein_coding	KNOWN	CCDS41751	24356	591	196	10145664	10151899	-1	None	CLEC2
HSCHR6_MHC_MCF	BTNL2	ENSG00000225845	ENST00000435335	protein_coding	KNOWN	None	1142	636	211	32436807	32440241	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_MCF	BTNL2	ENSG00000225845	ENST00000443091	protein_coding	KNOWN	None	1142	777	258	32445680	32451073	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_MCF	BTNL2	ENSG00000225845	ENST00000424222	protein_coding	KNOWN	None	1142	326	107	32448979	32451073	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_MCF	BTNL2	ENSG00000225845	ENST00000546521	protein_coding	KNOWN	None	1142	1167	388	32437907	32451066	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_MCF	BTNL2	ENSG00000225845	ENST00000551471	protein_coding	KNOWN	None	1142	1368	455	32438674	32451066	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_MCF	BTNL2	ENSG00000225845	ENST00000549852	protein_coding	KNOWN	None	1142	738	245	32438674	32451066	-1	None	HSBLMHC1, BTL-II
HSCHR6_MHC_MCF	BTNL2	ENSG00000225845	ENST00000549081	protein_coding	KNOWN	None	1142	816	271	32438674	32451066	-1	None	HSBLMHC1, BTL-II
5	ARHGEF28	ENSG00000214944	ENST00000296794	protein_coding	KNOWN	None	30322	4956	1651	72921983	73207522	1	None	RGNEF, p190RhoGEF, RIP2
5	ARHGEF28	ENSG00000214944	ENST00000509848	protein_coding	KNOWN	None	30322	250	82	72922021	73048802	1	None	RGNEF, p190RhoGEF, RIP2
5	ARHGEF28	ENSG00000214944	ENST00000437974	protein_coding	NOVEL	CCDS47231	30322	5196	1731	72980657	73237414	1	None	RGNEF, p190RhoGEF, RIP2
5	ARHGEF28	ENSG00000214944	ENST00000426542	protein_coding	KNOWN	CCDS54870	30322	5118	1705	72980657	73237818	1	None	RGNEF, p190RhoGEF, RIP2
5	ARHGEF28	ENSG00000214944	ENST00000510131	retained_intron	KNOWN	None	30322	None	None	73090188	73091343	1	None	RGNEF, p190RhoGEF, RIP2
5	ARHGEF28	ENSG00000214944	ENST00000296799	protein_coding	PUTATIVE	CCDS58957	30322	4179	1392	73109343	73237012	1	None	RGNEF, p190RhoGEF, RIP2
5	ARHGEF28	ENSG00000214944	ENST00000513841	processed_transcript	KNOWN	None	30322	None	None	73130910	73144849	1	None	RGNEF, p190RhoGEF, RIP2
5	ARHGEF28	ENSG00000214944	ENST00000506334	processed_transcript	KNOWN	None	30322	None	None	73158868	73163816	1	None	RGNEF, p190RhoGEF, RIP2
5	ARHGEF28	ENSG00000214944	ENST00000510312	retained_intron	KNOWN	None	30322	None	None	73178304	73201148	1	None	RGNEF, p190RhoGEF, RIP2
5	ARHGEF28	ENSG00000214944	ENST00000512883	protein_coding	PUTATIVE	None	30322	1956	651	73181728	73237818	1	None	RGNEF, p190RhoGEF, RIP2
5	ARHGEF28	ENSG00000214944	ENST00000504003	retained_intron	KNOWN	None	30322	None	None	73183310	73189186	1	None	RGNEF, p190RhoGEF, RIP2
5	ARHGEF28	ENSG00000214944	ENST00000503341	retained_intron	KNOWN	None	30322	None	None	73204225	73207527	1	None	RGNEF, p190RhoGEF, RIP2
5	ARHGEF28	ENSG00000214944	ENST00000545377	protein_coding	KNOWN	CCDS47231	30322	5196	1731	72921983	73237817	1	None	RGNEF, p190RhoGEF, RIP2
5	ARHGEF28	ENSG00000214944	ENST00000513042	protein_coding	KNOWN	CCDS54870	30322	5118	1705	72921983	73237817	1	None	RGNEF, p190RhoGEF, RIP2
5	ARHGEF28	ENSG00000214944	ENST00000287898	protein_coding	KNOWN	None	30322	5064	1687	72921983	73237817	1	None	RGNEF, p190RhoGEF, RIP2
2	SMEK2	ENSG00000138041	ENST00000272313	protein_coding	KNOWN	CCDS1855	29267	2295	764	55774428	55844749	-1	None	PSY2, FLFL2, KIAA1387, FLJ31474
2	SMEK2	ENSG00000138041	ENST00000407823	protein_coding	NOVEL	None	29267	2454	817	55775514	55844758	-1	None	PSY2, FLFL2, KIAA1387, FLJ31474
2	SMEK2	ENSG00000138041	ENST00000345102	protein_coding	NOVEL	CCDS46289	29267	2550	849	55775515	55844723	-1	None	PSY2, FLFL2, KIAA1387, FLJ31474
2	SMEK2	ENSG00000138041	ENST00000482826	processed_transcript	PUTATIVE	None	29267	None	None	55795165	55800854	-1	None	PSY2, FLFL2, KIAA1387, FLJ31474
2	SMEK2	ENSG00000138041	ENST00000470801	processed_transcript	KNOWN	None	29267	None	None	55825834	55843753	-1	None	PSY2, FLFL2, KIAA1387, FLJ31474
2	SMEK2	ENSG00000138041	ENST00000477749	processed_transcript	KNOWN	None	29267	None	None	55841312	55846015	-1	None	PSY2, FLFL2, KIAA1387, FLJ31474
21	VDAC2P1	ENSG00000214976	ENST00000399358	processed_pseudogene	KNOWN	None	12673	None	None	17466735	17467692	-1	VDAC2P	None
21	RPS26P5	ENSG00000224602	ENST00000418544	processed_pseudogene	KNOWN	None	23776	None	None	17493630	17493964	-1	None	None
19	FARSA	ENSG00000179115	ENST00000588025	protein_coding	PUTATIVE	None	3592	1647	548	13033293	13044851	-1	FARSL, FARSLA	CML33
19	FARSA	ENSG00000179115	ENST00000423140	protein_coding	NOVEL	None	3592	1434	477	13033294	13044528	-1	FARSL, FARSLA	CML33
19	FARSA	ENSG00000179115	ENST00000314606	protein_coding	KNOWN	CCDS12287	3592	1527	508	13033294	13044529	-1	FARSL, FARSLA	CML33
19	FARSA	ENSG00000179115	ENST00000586146	nonsense_mediated_decay	KNOWN	None	3592	708	235	13033344	13044510	-1	FARSL, FARSLA	CML33
19	FARSA	ENSG00000179115	ENST00000588965	retained_intron	KNOWN	None	3592	None	None	13033354	13044510	-1	FARSL, FARSLA	CML33
19	FARSA	ENSG00000179115	ENST00000587488	protein_coding	PUTATIVE	None	3592	478	158	13033359	13039253	-1	FARSL, FARSLA	CML33
19	FARSA	ENSG00000179115	ENST00000593021	protein_coding	NOVEL	None	3592	1135	377	13034965	13044494	-1	FARSL, FARSLA	CML33
19	FARSA	ENSG00000179115	ENST00000592662	retained_intron	KNOWN	None	3592	None	None	13039212	13044512	-1	FARSL, FARSLA	CML33
19	FARSA	ENSG00000179115	ENST00000586280	retained_intron	KNOWN	None	3592	None	None	13039224	13044456	-1	FARSL, FARSLA	CML33
19	FARSA	ENSG00000179115	ENST00000587981	protein_coding	PUTATIVE	None	3592	506	167	13041121	13044525	-1	FARSL, FARSLA	CML33
3	CELSR3	ENSG00000008300	ENST00000164024	protein_coding	KNOWN	CCDS2775	3230	9939	3312	48673902	48700348	-1	EGFL1	MEGF2, HFMI1, FMI1, CDHF11
3	CELSR3	ENSG00000008300	ENST00000461362	retained_intron	KNOWN	None	3230	None	None	48674032	48681363	-1	EGFL1	MEGF2, HFMI1, FMI1, CDHF11
3	CELSR3	ENSG00000008300	ENST00000498057	retained_intron	KNOWN	None	3230	None	None	48674032	48681363	-1	EGFL1	MEGF2, HFMI1, FMI1, CDHF11
3	CELSR3	ENSG00000008300	ENST00000470999	retained_intron	KNOWN	None	3230	None	None	48677917	48679570	-1	EGFL1	MEGF2, HFMI1, FMI1, CDHF11
3	CELSR3	ENSG00000008300	ENST00000544264	protein_coding	KNOWN	None	3230	9954	3317	48673902	48700348	-1	EGFL1	MEGF2, HFMI1, FMI1, CDHF11
21	None	ENSG00000201025	ENST00000364155	snoRNA	NOVEL	None	None	None	None	17657017	17657089	-1	None	None
21	None	ENSG00000270071	ENST00000602921	lincRNA	KNOWN	None	None	None	None	17664112	17680454	-1	None	None
16	CIAPIN1	ENSG00000005194	ENST00000394391	protein_coding	KNOWN	CCDS10781	28050	939	312	57462081	57481440	-1	None	Anamorsin
16	CIAPIN1	ENSG00000005194	ENST00000567518	protein_coding	KNOWN	None	28050	900	299	57462099	57481331	-1	None	Anamorsin
16	CIAPIN1	ENSG00000005194	ENST00000565961	protein_coding	NOVEL	None	28050	720	239	57462130	57481318	-1	None	Anamorsin
16	CIAPIN1	ENSG00000005194	ENST00000569370	protein_coding	NOVEL	None	28050	801	266	57462466	57481318	-1	None	Anamorsin
16	CIAPIN1	ENSG00000005194	ENST00000568940	protein_coding	NOVEL	None	28050	801	266	57462850	57481280	-1	None	Anamorsin
16	CIAPIN1	ENSG00000005194	ENST00000569979	protein_coding	NOVEL	None	28050	741	246	57462974	57474887	-1	None	Anamorsin
16	CIAPIN1	ENSG00000005194	ENST00000570000	nonsense_mediated_decay	KNOWN	None	28050	567	188	57463011	57474898	-1	None	Anamorsin
16	CIAPIN1	ENSG00000005194	ENST00000564885	retained_intron	KNOWN	None	28050	None	None	57463089	57464558	-1	None	Anamorsin
16	CIAPIN1	ENSG00000005194	ENST00000567751	protein_coding	PUTATIVE	None	28050	216	71	57464170	57481278	-1	None	Anamorsin
16	CIAPIN1	ENSG00000005194	ENST00000565786	protein_coding	PUTATIVE	None	28050	146	47	57464240	57481332	-1	None	Anamorsin
16	CIAPIN1	ENSG00000005194	ENST00000569246	processed_transcript	KNOWN	None	28050	None	None	57465108	57474845	-1	None	Anamorsin
16	CIAPIN1	ENSG00000005194	ENST00000565368	processed_transcript	KNOWN	None	28050	None	None	57465229	57481289	-1	None	Anamorsin
16	CIAPIN1	ENSG00000005194	ENST00000563561	retained_intron	KNOWN	None	28050	None	None	57467560	57473125	-1	None	Anamorsin
16	CIAPIN1	ENSG00000005194	ENST00000566284	retained_intron	KNOWN	None	28050	None	None	57467822	57475315	-1	None	Anamorsin
16	CIAPIN1	ENSG00000005194	ENST00000563341	protein_coding	KNOWN	None	28050	387	128	57470568	57481289	-1	None	Anamorsin
21	None	ENSG00000270139	ENST00000602454	lincRNA	KNOWN	None	None	None	None	17789459	17791400	-1	None	None
1	A3GALT2	ENSG00000184389	ENST00000442999	protein_coding	NOVEL	None	30005	1023	340	33772367	33786699	-1	A3GALT2P	IGBS3S
1	A3GALT2	ENSG00000184389	ENST00000330379	protein_coding	KNOWN	None	30005	858	285	33772367	33777822	-1	A3GALT2P	IGBS3S
1	PHTF1	ENSG00000116793	ENST00000474926	processed_transcript	KNOWN	None	8939	None	None	114239453	114257834	-1	PHTF	None
1	PHTF1	ENSG00000116793	ENST00000369598	protein_coding	KNOWN	None	8939	2154	717	114239827	114301960	-1	PHTF	None
1	PHTF1	ENSG00000116793	ENST00000369600	protein_coding	KNOWN	None	8939	2130	709	114239827	114302059	-1	PHTF	None
1	PHTF1	ENSG00000116793	ENST00000369604	protein_coding	KNOWN	CCDS861	8939	2289	762	114239827	114302098	-1	PHTF	None
1	PHTF1	ENSG00000116793	ENST00000481652	processed_transcript	KNOWN	None	8939	None	None	114242497	114248603	-1	PHTF	None
1	PHTF1	ENSG00000116793	ENST00000357783	protein_coding	NOVEL	None	8939	1914	637	114246445	114302098	-1	PHTF	None
1	PHTF1	ENSG00000116793	ENST00000412670	protein_coding	NOVEL	None	8939	995	330	114248387	114255950	-1	PHTF	None
1	PHTF1	ENSG00000116793	ENST00000472612	processed_transcript	KNOWN	None	8939	None	None	114267957	114280890	-1	PHTF	None
1	PHTF1	ENSG00000116793	ENST00000486855	processed_transcript	KNOWN	None	8939	None	None	114268291	114281408	-1	PHTF	None
1	PHTF1	ENSG00000116793	ENST00000446739	protein_coding	KNOWN	None	8939	315	104	114280748	114301780	-1	PHTF	None
1	PHTF1	ENSG00000116793	ENST00000493212	processed_transcript	KNOWN	None	8939	None	None	114292144	114302111	-1	PHTF	None
1	PHTF1	ENSG00000116793	ENST00000393357	protein_coding	KNOWN	CCDS861	8939	2289	762	114239824	114301777	-1	PHTF	None
1	PHTF1	ENSG00000116793	ENST00000369596	protein_coding	KNOWN	None	8939	2130	709	114239824	114301777	-1	PHTF	None
1	PHTF1	ENSG00000116793	ENST00000447664	protein_coding	KNOWN	None	8939	702	233	114248696	114301503	-1	PHTF	None
16	KLHDC4	ENSG00000104731	ENST00000568444	processed_transcript	KNOWN	None	25272	None	None	87730091	87733021	-1	None	DKFZp434G0522
16	KLHDC4	ENSG00000104731	ENST00000567298	nonsense_mediated_decay	KNOWN	CCDS10963	25272	1563	520	87731755	87799578	-1	None	DKFZp434G0522
16	KLHDC4	ENSG00000104731	ENST00000568346	processed_transcript	KNOWN	None	25272	None	None	87734384	87735330	-1	None	DKFZp434G0522
16	KLHDC4	ENSG00000104731	ENST00000568499	processed_transcript	KNOWN	None	25272	None	None	87736632	87741993	-1	None	DKFZp434G0522
16	KLHDC4	ENSG00000104731	ENST00000316853	processed_transcript	KNOWN	None	25272	None	None	87741418	87784548	-1	None	DKFZp434G0522
16	KLHDC4	ENSG00000104731	ENST00000353170	protein_coding	KNOWN	CCDS54050	25272	1392	463	87741418	87799505	-1	None	DKFZp434G0522
16	KLHDC4	ENSG00000104731	ENST00000347925	protein_coding	KNOWN	CCDS54051	25272	1470	489	87741418	87799582	-1	None	DKFZp434G0522
16	KLHDC4	ENSG00000104731	ENST00000566349	processed_transcript	KNOWN	None	25272	None	None	87741419	87776650	-1	None	DKFZp434G0522
16	KLHDC4	ENSG00000104731	ENST00000270583	protein_coding	KNOWN	CCDS10963	25272	1563	520	87741419	87799555	-1	None	DKFZp434G0522
16	KLHDC4	ENSG00000104731	ENST00000569487	retained_intron	KNOWN	None	25272	None	None	87741422	87744483	-1	None	DKFZp434G0522
16	KLHDC4	ENSG00000104731	ENST00000562155	nonsense_mediated_decay	KNOWN	None	25272	300	99	87741446	87799535	-1	None	DKFZp434G0522
16	KLHDC4	ENSG00000104731	ENST00000562261	protein_coding	NOVEL	None	25272	1004	333	87743044	87799557	-1	None	DKFZp434G0522
16	KLHDC4	ENSG00000104731	ENST00000566661	retained_intron	KNOWN	None	25272	None	None	87743069	87795622	-1	None	DKFZp434G0522
16	KLHDC4	ENSG00000104731	ENST00000562913	retained_intron	KNOWN	None	25272	None	None	87744404	87760523	-1	None	DKFZp434G0522
16	KLHDC4	ENSG00000104731	ENST00000567513	processed_transcript	KNOWN	None	25272	None	None	87744842	87774570	-1	None	DKFZp434G0522
16	KLHDC4	ENSG00000104731	ENST00000562872	retained_intron	KNOWN	None	25272	None	None	87760427	87764612	-1	None	DKFZp434G0522
16	KLHDC4	ENSG00000104731	ENST00000564484	processed_transcript	KNOWN	None	25272	None	None	87760505	87799539	-1	None	DKFZp434G0522
16	KLHDC4	ENSG00000104731	ENST00000565328	processed_transcript	KNOWN	None	25272	None	None	87762924	87795760	-1	None	DKFZp434G0522
16	KLHDC4	ENSG00000104731	ENST00000569747	nonsense_mediated_decay	KNOWN	None	25272	318	105	87764213	87799573	-1	None	DKFZp434G0522
16	KLHDC4	ENSG00000104731	ENST00000564396	nonsense_mediated_decay	KNOWN	None	25272	261	86	87764242	87799567	-1	None	DKFZp434G0522
16	KLHDC4	ENSG00000104731	ENST00000568502	processed_transcript	KNOWN	None	25272	None	None	87782344	87799570	-1	None	DKFZp434G0522
16	KLHDC4	ENSG00000104731	ENST00000561825	protein_coding	NOVEL	None	25272	521	172	87782405	87799537	-1	None	DKFZp434G0522
16	KLHDC4	ENSG00000104731	ENST00000568338	nonsense_mediated_decay	KNOWN	None	25272	117	38	87788804	87799598	-1	None	DKFZp434G0522
16	KLHDC4	ENSG00000104731	ENST00000563845	nonsense_mediated_decay	KNOWN	None	25272	135	44	87795564	87799567	-1	None	DKFZp434G0522
16	KLHDC4	ENSG00000104731	ENST00000566561	nonsense_mediated_decay	KNOWN	None	25272	135	44	87797091	87799567	-1	None	DKFZp434G0522
5	PTTG1	ENSG00000164611	ENST00000352433	protein_coding	KNOWN	CCDS4353	9690	609	202	159848829	159855748	1	TUTR1	PTTG, HPTTG, EAP1, securin
5	PTTG1	ENSG00000164611	ENST00000524244	retained_intron	KNOWN	None	9690	None	None	159848862	159850010	1	TUTR1	PTTG, HPTTG, EAP1, securin
5	PTTG1	ENSG00000164611	ENST00000517480	protein_coding	PUTATIVE	None	9690	364	120	159848865	159851301	1	TUTR1	PTTG, HPTTG, EAP1, securin
5	PTTG1	ENSG00000164611	ENST00000523659	retained_intron	KNOWN	None	9690	None	None	159848876	159851784	1	TUTR1	PTTG, HPTTG, EAP1, securin
5	PTTG1	ENSG00000164611	ENST00000520452	protein_coding	KNOWN	CCDS4353	9690	609	202	159848911	159855711	1	TUTR1	PTTG, HPTTG, EAP1, securin
5	PTTG1	ENSG00000164611	ENST00000393964	protein_coding	KNOWN	CCDS4353	9690	609	202	159848917	159855746	1	TUTR1	PTTG, HPTTG, EAP1, securin
5	PTTG1	ENSG00000164611	ENST00000519287	processed_transcript	KNOWN	None	9690	None	None	159849214	159855746	1	TUTR1	PTTG, HPTTG, EAP1, securin
2	ODC1	ENSG00000115758	ENST00000234111	protein_coding	KNOWN	CCDS1672	8109	1386	461	10580094	10588630	-1	None	ODC
2	ODC1	ENSG00000115758	ENST00000405333	protein_coding	KNOWN	CCDS1672	8109	1386	461	10580727	10587906	-1	None	ODC
2	ODC1	ENSG00000115758	ENST00000446285	processed_transcript	KNOWN	None	8109	None	None	10584221	10588435	-1	None	ODC
2	ODC1	ENSG00000115758	ENST00000443218	protein_coding	KNOWN	None	8109	206	67	10584670	10587914	-1	None	ODC
3	TMPPE	ENSG00000188167	ENST00000416695	protein_coding	NOVEL	CCDS46786	33865	951	316	33131913	33138293	-1	None	FLJ45032
3	TMPPE	ENSG00000188167	ENST00000342462	protein_coding	KNOWN	CCDS33732	33865	1362	453	33131917	33138293	-1	None	FLJ45032
12	HNF1A	ENSG00000135100	ENST00000257555	protein_coding	KNOWN	CCDS9209	11621	1896	631	121416346	121440315	1	MODY3, TCF1	HNF1, LFB1
12	HNF1A	ENSG00000135100	ENST00000400024	protein_coding	KNOWN	None	11621	1629	542	121416371	121436103	1	MODY3, TCF1	HNF1, LFB1
12	HNF1A	ENSG00000135100	ENST00000560968	nonsense_mediated_decay	KNOWN	None	11621	1070	355	121416429	121440312	1	MODY3, TCF1	HNF1, LFB1
12	HNF1A	ENSG00000135100	ENST00000402929	protein_coding	PUTATIVE	None	11621	1563	520	121416437	121436103	1	MODY3, TCF1	HNF1, LFB1
12	HNF1A	ENSG00000135100	ENST00000541924	nonsense_mediated_decay	KNOWN	None	11621	744	247	121416454	121435685	1	MODY3, TCF1	HNF1, LFB1
12	HNF1A	ENSG00000135100	ENST00000538646	nonsense_mediated_decay	KNOWN	None	11621	837	278	121416454	121435685	1	MODY3, TCF1	HNF1, LFB1
12	HNF1A	ENSG00000135100	ENST00000544574	nonsense_mediated_decay	KNOWN	None	11621	126	41	121416454	121435685	1	MODY3, TCF1	HNF1, LFB1
12	HNF1A	ENSG00000135100	ENST00000535955	protein_coding	PUTATIVE	None	11621	345	114	121416454	121435685	1	MODY3, TCF1	HNF1, LFB1
12	HNF1A	ENSG00000135100	ENST00000538626	protein_coding	PUTATIVE	None	11621	375	124	121416454	121435685	1	MODY3, TCF1	HNF1, LFB1
12	HNF1A	ENSG00000135100	ENST00000541395	protein_coding	NOVEL	None	11621	1989	662	121416549	121440315	1	MODY3, TCF1	HNF1, LFB1
12	HNF1A	ENSG00000135100	ENST00000540108	nonsense_mediated_decay	KNOWN	None	11621	360	119	121416549	121440315	1	MODY3, TCF1	HNF1, LFB1
12	HNF1A	ENSG00000135100	ENST00000544413	protein_coding	NOVEL	None	11621	1917	638	121416552	121439072	1	MODY3, TCF1	HNF1, LFB1
12	HNF1A	ENSG00000135100	ENST00000543255	retained_intron	KNOWN	None	11621	None	None	121434193	121435685	1	MODY3, TCF1	HNF1, LFB1
12	HNF1A	ENSG00000135100	ENST00000543427	protein_coding	KNOWN	None	11621	1212	403	121416454	121434969	1	MODY3, TCF1	HNF1, LFB1
9	MIR601	ENSG00000207991	ENST00000385256	miRNA	KNOWN	None	32857	None	None	126164804	126164882	-1	MIRN601	hsa-mir-601
9	None	ENSG00000237336	ENST00000458025	antisense	KNOWN	None	None	None	None	126254163	126255435	1	None	None
9	None	ENSG00000222722	ENST00000410790	miRNA	NOVEL	None	None	None	None	126347663	126347736	-1	None	None
13	NDFIP2	ENSG00000102471	ENST00000218652	protein_coding	KNOWN	CCDS31998	18537	1011	336	80055287	80130210	1	None	KIAA1165, N4wbp5a
13	NDFIP2	ENSG00000102471	ENST00000487865	protein_coding	NOVEL	None	18537	702	233	80055588	80127330	1	None	KIAA1165, N4wbp5a
13	NDFIP2	ENSG00000102471	ENST00000465762	nonsense_mediated_decay	KNOWN	None	18537	470	155	80055592	80126713	1	None	KIAA1165, N4wbp5a
13	NDFIP2	ENSG00000102471	ENST00000494647	processed_transcript	PUTATIVE	None	18537	None	None	80093127	80095113	1	None	KIAA1165, N4wbp5a
22	ATXN10	ENSG00000130638	ENST00000252934	protein_coding	KNOWN	CCDS14070	10549	1428	475	46067679	46241187	1	SCA10	E46L, FLJ37990
22	ATXN10	ENSG00000130638	ENST00000498009	processed_transcript	KNOWN	None	10549	None	None	46068068	46114344	1	SCA10	E46L, FLJ37990
22	ATXN10	ENSG00000130638	ENST00000470722	processed_transcript	KNOWN	None	10549	None	None	46085346	46096202	1	SCA10	E46L, FLJ37990
22	ATXN10	ENSG00000130638	ENST00000476998	processed_transcript	KNOWN	None	10549	None	None	46099853	46134719	1	SCA10	E46L, FLJ37990
22	ATXN10	ENSG00000130638	ENST00000483549	retained_intron	KNOWN	None	10549	None	None	46114303	46136680	1	SCA10	E46L, FLJ37990
22	ATXN10	ENSG00000130638	ENST00000435026	protein_coding	PUTATIVE	None	10549	594	197	46125321	46219157	1	SCA10	E46L, FLJ37990
22	ATXN10	ENSG00000130638	ENST00000493643	processed_transcript	KNOWN	None	10549	None	None	46134354	46239551	1	SCA10	E46L, FLJ37990
22	ATXN10	ENSG00000130638	ENST00000451241	protein_coding	PUTATIVE	None	10549	514	170	46134619	46207674	1	SCA10	E46L, FLJ37990
22	ATXN10	ENSG00000130638	ENST00000464482	processed_transcript	KNOWN	None	10549	None	None	46136390	46140697	1	SCA10	E46L, FLJ37990
22	ATXN10	ENSG00000130638	ENST00000402380	protein_coding	PUTATIVE	None	10549	381	126	46189476	46239677	1	SCA10	E46L, FLJ37990
22	ATXN10	ENSG00000130638	ENST00000381061	protein_coding	KNOWN	CCDS54540	10549	1236	411	46067678	46241184	1	SCA10	E46L, FLJ37990
HSCHR6_MHC_MANN	DDX39B	ENSG00000225859	ENST00000465854	retained_intron	KNOWN	None	13917	None	None	31537515	31539039	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MANN	DDX39B	ENSG00000225859	ENST00000484344	nonsense_mediated_decay	KNOWN	None	13917	424	140	31537515	31542769	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MANN	DDX39B	ENSG00000225859	ENST00000446341	protein_coding	KNOWN	None	13917	1278	425	31537515	31547828	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MANN	DDX39B	ENSG00000225859	ENST00000473685	retained_intron	KNOWN	None	13917	None	None	31537515	31549293	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MANN	DDX39B	ENSG00000225859	ENST00000412330	protein_coding	KNOWN	None	13917	1287	428	31537515	31549724	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MANN	DDX39B	ENSG00000225859	ENST00000448296	protein_coding	KNOWN	None	13917	1287	428	31537515	31549724	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MANN	DDX39B	ENSG00000225859	ENST00000445218	protein_coding	KNOWN	None	13917	1287	428	31537515	31553854	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MANN	DDX39B	ENSG00000225859	ENST00000472906	processed_transcript	PUTATIVE	None	13917	None	None	31537539	31538230	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MANN	DDX39B	ENSG00000225859	ENST00000433293	protein_coding	KNOWN	None	13917	561	186	31538074	31541805	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MANN	DDX39B	ENSG00000225859	ENST00000490964	retained_intron	KNOWN	None	13917	None	None	31538411	31538966	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MANN	DDX39B	ENSG00000225859	ENST00000489325	processed_transcript	KNOWN	None	13917	None	None	31538569	31549677	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MANN	DDX39B	ENSG00000225859	ENST00000448000	protein_coding	KNOWN	None	13917	737	244	31538597	31549257	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MANN	DDX39B	ENSG00000225859	ENST00000467175	retained_intron	KNOWN	None	13917	None	None	31539708	31549277	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MANN	DDX39B	ENSG00000225859	ENST00000455916	protein_coding	KNOWN	None	13917	867	288	31540075	31548807	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MANN	DDX39B	ENSG00000225859	ENST00000438301	protein_coding	KNOWN	None	13917	714	237	31542682	31549294	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MANN	DDX39B	ENSG00000225859	ENST00000416969	protein_coding	KNOWN	None	13917	707	234	31542689	31548760	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MANN	DDX39B	ENSG00000225859	ENST00000444480	protein_coding	KNOWN	None	13917	695	230	31542701	31549213	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MANN	DDX39B	ENSG00000225859	ENST00000432433	protein_coding	KNOWN	None	13917	591	196	31543903	31549265	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MANN	DDX39B	ENSG00000225859	ENST00000411415	protein_coding	KNOWN	None	13917	562	186	31543917	31549005	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MANN	DDX39B	ENSG00000225859	ENST00000412246	protein_coding	KNOWN	None	13917	376	124	31546113	31549262	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MANN	DDX39B	ENSG00000225859	ENST00000448658	protein_coding	KNOWN	None	13917	409	135	31546125	31549267	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MANN	DDX39B	ENSG00000225859	ENST00000439857	protein_coding	KNOWN	None	13917	397	131	31546176	31549279	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MANN	DDX39B	ENSG00000225859	ENST00000441901	protein_coding	KNOWN	None	13917	287	94	31546493	31549149	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MANN	DDX39B	ENSG00000225859	ENST00000548614	protein_coding	KNOWN	None	13917	1332	443	31537515	31549724	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_MANN	DDX39B	ENSG00000225859	ENST00000546637	protein_coding	KNOWN	None	13917	972	323	31538388	31549724	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_DBB	HLA-A	ENSG00000235657	ENST00000457879	protein_coding	KNOWN	None	4931	1098	365	29899000	29903640	1	None	None
HSCHR6_MHC_DBB	HLA-A	ENSG00000235657	ENST00000438861	protein_coding	KNOWN	None	4931	1116	371	29899986	29903640	1	None	None
HSCHR6_MHC_DBB	HLA-A	ENSG00000235657	ENST00000468666	retained_intron	KNOWN	None	4931	None	None	29900289	29903640	1	None	None
HSCHR6_MHC_DBB	HLA-A	ENSG00000235657	ENST00000453975	protein_coding	KNOWN	None	4931	900	299	29900290	29903640	1	None	None
HSCHR6_MHC_DBB	HLA-A	ENSG00000235657	ENST00000487534	retained_intron	KNOWN	None	4931	None	None	29900293	29903640	1	None	None
HSCHR6_MHC_DBB	HLA-A	ENSG00000235657	ENST00000460542	retained_intron	KNOWN	None	4931	None	None	29900295	29903037	1	None	None
HSCHR6_MHC_DBB	HLA-A	ENSG00000235657	ENST00000470534	retained_intron	KNOWN	None	4931	None	None	29900295	29903037	1	None	None
HSCHR6_MHC_DBB	HLA-A	ENSG00000235657	ENST00000547271	protein_coding	KNOWN	None	4931	1098	365	29900273	29903624	1	None	None
17	DNAH9	ENSG00000007174	ENST00000262442	protein_coding	KNOWN	CCDS11160	2953	13461	4486	11501748	11873485	1	DNAH17L	Dnahc9, KIAA0357, HL20, HL-20, DNAL1, DYH9
17	DNAH9	ENSG00000007174	ENST00000579828	protein_coding	NOVEL	None	2953	960	319	11501787	11516150	1	DNAH17L	Dnahc9, KIAA0357, HL20, HL-20, DNAL1, DYH9
17	DNAH9	ENSG00000007174	ENST00000579406	processed_transcript	KNOWN	None	2953	None	None	11501789	11533831	1	DNAH17L	Dnahc9, KIAA0357, HL20, HL-20, DNAL1, DYH9
17	DNAH9	ENSG00000007174	ENST00000454412	protein_coding	NOVEL	None	2953	13233	4410	11501816	11873063	1	DNAH17L	Dnahc9, KIAA0357, HL20, HL-20, DNAL1, DYH9
17	DNAH9	ENSG00000007174	ENST00000579602	protein_coding	PUTATIVE	None	2953	264	87	11513834	11516151	1	DNAH17L	Dnahc9, KIAA0357, HL20, HL-20, DNAL1, DYH9
17	DNAH9	ENSG00000007174	ENST00000579813	protein_coding	PUTATIVE	None	2953	132	43	11515079	11516153	1	DNAH17L	Dnahc9, KIAA0357, HL20, HL-20, DNAL1, DYH9
17	DNAH9	ENSG00000007174	ENST00000585197	retained_intron	KNOWN	None	2953	None	None	11520717	11523251	1	DNAH17L	Dnahc9, KIAA0357, HL20, HL-20, DNAL1, DYH9
17	DNAH9	ENSG00000007174	ENST00000583192	retained_intron	KNOWN	None	2953	None	None	11607517	11608810	1	DNAH17L	Dnahc9, KIAA0357, HL20, HL-20, DNAL1, DYH9
17	DNAH9	ENSG00000007174	ENST00000584663	retained_intron	KNOWN	None	2953	None	None	11626426	11631310	1	DNAH17L	Dnahc9, KIAA0357, HL20, HL-20, DNAL1, DYH9
17	DNAH9	ENSG00000007174	ENST00000578834	processed_transcript	KNOWN	None	2953	None	None	11756509	11772512	1	DNAH17L	Dnahc9, KIAA0357, HL20, HL-20, DNAL1, DYH9
17	DNAH9	ENSG00000007174	ENST00000579703	protein_coding	PUTATIVE	None	2953	854	283	11757371	11783517	1	DNAH17L	Dnahc9, KIAA0357, HL20, HL-20, DNAL1, DYH9
17	DNAH9	ENSG00000007174	ENST00000580255	processed_transcript	KNOWN	None	2953	None	None	11776747	11784689	1	DNAH17L	Dnahc9, KIAA0357, HL20, HL-20, DNAL1, DYH9
17	DNAH9	ENSG00000007174	ENST00000396001	protein_coding	NOVEL	CCDS11161	2953	2397	798	11786221	11873065	1	DNAH17L	Dnahc9, KIAA0357, HL20, HL-20, DNAL1, DYH9
17	DNAH9	ENSG00000007174	ENST00000581682	processed_transcript	KNOWN	None	2953	None	None	11787651	11828778	1	DNAH17L	Dnahc9, KIAA0357, HL20, HL-20, DNAL1, DYH9
11	OR56A1	ENSG00000180934	ENST00000316650	protein_coding	KNOWN	CCDS31405	14781	957	318	6047901	6048971	-1	None	None
6	CLIC5	ENSG00000112782	ENST00000487396	processed_transcript	KNOWN	None	13517	None	None	45868045	45870916	-1	None	None
6	CLIC5	ENSG00000112782	ENST00000339561	protein_coding	KNOWN	CCDS4914	13517	756	251	45869498	45983586	-1	None	None
6	CLIC5	ENSG00000112782	ENST00000185206	protein_coding	KNOWN	CCDS47438	13517	1233	410	45869498	46048132	-1	None	None
6	CLIC5	ENSG00000112782	ENST00000484572	processed_transcript	KNOWN	None	13517	None	None	45870803	45888451	-1	None	None
6	CLIC5	ENSG00000112782	ENST00000486570	processed_transcript	KNOWN	None	13517	None	None	45881982	45905334	-1	None	None
6	CLIC5	ENSG00000112782	ENST00000476852	processed_transcript	KNOWN	None	13517	None	None	45900431	45905201	-1	None	None
6	CLIC5	ENSG00000112782	ENST00000464137	processed_transcript	KNOWN	None	13517	None	None	45982020	45983283	-1	None	None
6	CLIC5	ENSG00000112782	ENST00000544153	protein_coding	KNOWN	CCDS59022	13517	618	205	45879361	45983565	-1	None	None
11	OR56B4	ENSG00000180919	ENST00000316529	protein_coding	KNOWN	CCDS31406	15248	960	319	6128914	6130065	1	None	None
1	C1orf53	ENSG00000203724	ENST00000367393	protein_coding	KNOWN	CCDS44290	30003	438	145	197871777	197876497	1	None	None
1	C1orf53	ENSG00000203724	ENST00000436652	protein_coding	PUTATIVE	None	30003	247	81	197871908	197876497	1	None	None
1	C1orf53	ENSG00000203724	ENST00000542800	processed_transcript	KNOWN	None	30003	None	None	197874647	197876494	1	None	None
21	MIR99A	ENSG00000207638	ENST00000384906	miRNA	KNOWN	None	31650	None	None	17911409	17911489	1	MIRN99A	hsa-mir-99a
21	MIRLET7C	ENSG00000199030	ENST00000362160	miRNA	KNOWN	None	31480	None	None	17912143	17912236	1	MIRNLET7C	hsa-let-7c
21	None	ENSG00000269950	ENST00000602654	lincRNA	KNOWN	None	None	None	None	17947038	17954957	-1	None	None
21	MIR125B2	ENSG00000207863	ENST00000385128	miRNA	KNOWN	None	31507	None	None	17962557	17962645	1	MIRN125B2	hsa-mir-125b-2
3	CPNE4	ENSG00000196353	ENST00000514439	retained_intron	KNOWN	None	2317	None	None	131252399	131261937	-1	None	COPN4, CPN4
3	CPNE4	ENSG00000196353	ENST00000512055	protein_coding	KNOWN	CCDS3072	2317	1674	557	131252409	132004254	-1	None	COPN4, CPN4
3	CPNE4	ENSG00000196353	ENST00000515418	retained_intron	KNOWN	None	2317	None	None	131253581	131442475	-1	None	COPN4, CPN4
3	CPNE4	ENSG00000196353	ENST00000503204	processed_transcript	KNOWN	None	2317	None	None	131253587	131257784	-1	None	COPN4, CPN4
3	CPNE4	ENSG00000196353	ENST00000512332	protein_coding	KNOWN	None	2317	1728	575	131253720	131758450	-1	None	COPN4, CPN4
3	CPNE4	ENSG00000196353	ENST00000511604	protein_coding	NOVEL	CCDS3072	2317	1674	557	131253787	131758450	-1	None	COPN4, CPN4
3	CPNE4	ENSG00000196353	ENST00000502818	protein_coding	KNOWN	None	2317	1728	575	131253867	131756806	-1	None	COPN4, CPN4
3	CPNE4	ENSG00000196353	ENST00000505881	protein_coding	KNOWN	None	2317	507	168	131415386	131644425	-1	None	COPN4, CPN4
3	CPNE4	ENSG00000196353	ENST00000514999	protein_coding	NOVEL	None	2317	248	81	131442402	131736599	-1	None	COPN4, CPN4
3	CPNE4	ENSG00000196353	ENST00000505957	protein_coding	PUTATIVE	None	2317	220	72	131442430	131756563	-1	None	COPN4, CPN4
3	CPNE4	ENSG00000196353	ENST00000506687	processed_transcript	KNOWN	None	2317	None	None	131753591	131759094	-1	None	COPN4, CPN4
3	CPNE4	ENSG00000196353	ENST00000505331	processed_transcript	PUTATIVE	None	2317	None	None	131754156	131759067	-1	None	COPN4, CPN4
3	CPNE4	ENSG00000196353	ENST00000429747	protein_coding	KNOWN	CCDS3072	2317	1674	557	131253584	131753844	-1	None	COPN4, CPN4
21	None	ENSG00000228798	ENST00000413645	lincRNA	KNOWN	None	None	None	None	18003146	18012952	1	None	None
21	None	ENSG00000228798	ENST00000438762	lincRNA	KNOWN	None	None	None	None	18003760	18013002	1	None	None
21	None	ENSG00000270093	ENST00000602659	lincRNA	KNOWN	None	None	None	None	18015848	18017384	1	None	None
16	CAPN15	ENSG00000103326	ENST00000562370	protein_coding	KNOWN	None	11182	554	183	577717	597392	1	SOLH	None
16	CAPN15	ENSG00000103326	ENST00000567216	processed_transcript	KNOWN	None	11182	None	None	577748	589858	1	SOLH	None
16	CAPN15	ENSG00000103326	ENST00000568988	protein_coding	PUTATIVE	None	11182	337	111	577823	598209	1	SOLH	None
16	CAPN15	ENSG00000103326	ENST00000219611	protein_coding	KNOWN	CCDS10410	11182	3261	1086	577856	604636	1	SOLH	None
16	CAPN15	ENSG00000103326	ENST00000568402	processed_transcript	PUTATIVE	None	11182	None	None	586862	587639	1	SOLH	None
16	CAPN15	ENSG00000103326	ENST00000565010	retained_intron	KNOWN	None	11182	None	None	602297	604636	1	SOLH	None
16	CAPN15	ENSG00000103326	ENST00000566977	protein_coding	PUTATIVE	None	11182	215	70	602755	604636	1	SOLH	None
16	CES4A	ENSG00000172824	ENST00000540947	protein_coding	KNOWN	CCDS42174	26741	1407	468	67022492	67043661	1	CES8	FLJ37464
16	CES4A	ENSG00000172824	ENST00000567587	nonsense_mediated_decay	KNOWN	None	26741	533	176	67029531	67043638	1	CES8	FLJ37464
16	CES4A	ENSG00000172824	ENST00000538199	protein_coding	NOVEL	None	26741	1365	454	67029584	67043638	1	CES8	FLJ37464
16	CES4A	ENSG00000172824	ENST00000535543	nonsense_mediated_decay	KNOWN	None	26741	408	135	67034455	67043655	1	CES8	FLJ37464
16	CES4A	ENSG00000172824	ENST00000540579	protein_coding	PUTATIVE	CCDS54024	26741	1392	463	67034456	67043359	1	CES8	FLJ37464
16	CES4A	ENSG00000172824	ENST00000535696	protein_coding	KNOWN	CCDS54025	26741	1125	374	67034477	67043217	1	CES8	FLJ37464
16	CES4A	ENSG00000172824	ENST00000543561	retained_intron	KNOWN	None	26741	None	None	67034504	67043638	1	CES8	FLJ37464
16	CES4A	ENSG00000172824	ENST00000544986	retained_intron	KNOWN	None	26741	None	None	67038725	67040598	1	CES8	FLJ37464
16	CES4A	ENSG00000172824	ENST00000535948	retained_intron	KNOWN	None	26741	None	None	67038862	67043661	1	CES8	FLJ37464
16	CES4A	ENSG00000172824	ENST00000397205	processed_transcript	KNOWN	None	26741	None	None	67039462	67043642	1	CES8	FLJ37464
16	CES4A	ENSG00000172824	ENST00000544478	retained_intron	KNOWN	None	26741	None	None	67040426	67043321	1	CES8	FLJ37464
16	CES4A	ENSG00000172824	ENST00000541479	protein_coding	KNOWN	None	26741	1545	514	67022607	67043661	1	CES8	FLJ37464
16	CES4A	ENSG00000172824	ENST00000338718	protein_coding	KNOWN	None	26741	1476	491	67022607	67043642	1	CES8	FLJ37464
16	CES4A	ENSG00000172824	ENST00000398354	protein_coding	KNOWN	None	26741	1476	491	67022633	67043661	1	CES8	FLJ37464
16	CES4A	ENSG00000172824	ENST00000326686	protein_coding	KNOWN	None	26741	1686	561	67022676	67043642	1	CES8	FLJ37464
21	RNU1-98P	ENSG00000239023	ENST00000458992	snRNA	KNOWN	None	48440	None	None	18091317	18091476	1	None	None
13	LCP1	ENSG00000136167	ENST00000398576	protein_coding	KNOWN	CCDS9403	6528	1884	627	46700055	46785483	-1	None	PLS2, CP64, L-PLASTIN, LC64P
13	LCP1	ENSG00000136167	ENST00000469227	processed_transcript	KNOWN	None	6528	None	None	46721041	46727400	-1	None	PLS2, CP64, L-PLASTIN, LC64P
13	LCP1	ENSG00000136167	ENST00000494531	processed_transcript	KNOWN	None	6528	None	None	46722487	46727378	-1	None	PLS2, CP64, L-PLASTIN, LC64P
13	LCP1	ENSG00000136167	ENST00000416500	protein_coding	KNOWN	None	6528	738	245	46726916	46742654	-1	None	PLS2, CP64, L-PLASTIN, LC64P
13	LCP1	ENSG00000136167	ENST00000442275	protein_coding	KNOWN	None	6528	198	65	46732991	46786006	-1	None	PLS2, CP64, L-PLASTIN, LC64P
13	LCP1	ENSG00000136167	ENST00000460190	processed_transcript	KNOWN	None	6528	None	None	46733151	46756339	-1	None	PLS2, CP64, L-PLASTIN, LC64P
13	LCP1	ENSG00000136167	ENST00000323076	protein_coding	KNOWN	CCDS9403	6528	1884	627	46700061	46756459	-1	None	PLS2, CP64, L-PLASTIN, LC64P
13	LCP1	ENSG00000136167	ENST00000435666	protein_coding	KNOWN	None	6528	591	196	46700845	46717015	-1	None	PLS2, CP64, L-PLASTIN, LC64P
22	ZNF70	ENSG00000187792	ENST00000341976	protein_coding	KNOWN	CCDS13812	13140	1341	446	24083769	24093279	-1	None	Cos17, MGC48959
21	None	ENSG00000237735	ENST00000444868	lincRNA	KNOWN	None	None	None	None	18126838	18188007	-1	None	None
1	PHC2	ENSG00000134686	ENST00000485928	processed_transcript	KNOWN	None	3183	None	None	33789227	33815412	-1	EDR2	HPH2
1	PHC2	ENSG00000134686	ENST00000373418	protein_coding	KNOWN	CCDS379	3183	972	323	33789227	33815486	-1	EDR2	HPH2
1	PHC2	ENSG00000134686	ENST00000373422	protein_coding	KNOWN	None	3183	1395	464	33789227	33820810	-1	EDR2	HPH2
1	PHC2	ENSG00000134686	ENST00000257118	protein_coding	KNOWN	CCDS378	3183	2577	858	33789227	33841194	-1	EDR2	HPH2
1	PHC2	ENSG00000134686	ENST00000467894	processed_transcript	KNOWN	None	3183	None	None	33790290	33815485	-1	EDR2	HPH2
1	PHC2	ENSG00000134686	ENST00000486897	processed_transcript	KNOWN	None	3183	None	None	33795672	33815251	-1	EDR2	HPH2
1	PHC2	ENSG00000134686	ENST00000493483	processed_transcript	KNOWN	None	3183	None	None	33795672	33815373	-1	EDR2	HPH2
1	PHC2	ENSG00000134686	ENST00000473158	processed_transcript	KNOWN	None	3183	None	None	33796965	33800857	-1	EDR2	HPH2
1	PHC2	ENSG00000134686	ENST00000459964	processed_transcript	KNOWN	None	3183	None	None	33818814	33820504	-1	EDR2	HPH2
1	PHC2	ENSG00000134686	ENST00000468406	processed_transcript	KNOWN	None	3183	None	None	33834171	33858366	-1	EDR2	HPH2
1	PHC2	ENSG00000134686	ENST00000484692	processed_transcript	KNOWN	None	3183	None	None	33837927	33896653	-1	EDR2	HPH2
1	PHC2	ENSG00000134686	ENST00000431992	protein_coding	KNOWN	None	3183	2490	829	33789224	33841194	-1	EDR2	HPH2
1	PHC2	ENSG00000134686	ENST00000419414	protein_coding	KNOWN	None	3183	2580	859	33790175	33896216	-1	EDR2	HPH2
1	PHC2	ENSG00000134686	ENST00000373416	protein_coding	KNOWN	None	3183	954	317	33791426	33841194	-1	EDR2	HPH2
21	None	ENSG00000232886	ENST00000430064	lincRNA	KNOWN	None	None	None	None	18235195	18246011	-1	None	None
22	VPREB3	ENSG00000128218	ENST00000398465	protein_coding	NOVEL	None	12710	324	107	24094930	24096596	-1	None	8HS20
22	VPREB3	ENSG00000128218	ENST00000248948	protein_coding	KNOWN	CCDS13813	12710	372	123	24094930	24096655	-1	None	8HS20
19	THOP1	ENSG00000172009	ENST00000307741	protein_coding	KNOWN	CCDS12095	11793	2070	689	2785458	2813599	1	None	None
19	THOP1	ENSG00000172009	ENST00000585673	processed_transcript	KNOWN	None	11793	None	None	2785512	2804654	1	None	None
19	THOP1	ENSG00000172009	ENST00000585338	protein_coding	NOVEL	None	11793	530	175	2785546	2799760	1	None	None
19	THOP1	ENSG00000172009	ENST00000586780	processed_transcript	KNOWN	None	11793	None	None	2785565	2794886	1	None	None
19	THOP1	ENSG00000172009	ENST00000586677	protein_coding	PUTATIVE	None	11793	1707	568	2796005	2813380	1	None	None
19	THOP1	ENSG00000172009	ENST00000589087	retained_intron	KNOWN	None	11793	None	None	2806015	2813597	1	None	None
19	THOP1	ENSG00000172009	ENST00000591149	processed_transcript	KNOWN	None	11793	None	None	2806983	2810488	1	None	None
19	THOP1	ENSG00000172009	ENST00000590533	retained_intron	KNOWN	None	11793	None	None	2807570	2810506	1	None	None
19	THOP1	ENSG00000172009	ENST00000591363	protein_coding	PUTATIVE	None	11793	613	203	2807684	2813597	1	None	None
19	THOP1	ENSG00000172009	ENST00000590970	protein_coding	PUTATIVE	None	11793	781	259	2808241	2813597	1	None	None
19	THOP1	ENSG00000172009	ENST00000587401	protein_coding	PUTATIVE	None	11793	651	216	2808356	2812186	1	None	None
19	THOP1	ENSG00000172009	ENST00000395212	protein_coding	PUTATIVE	None	11793	777	258	2809536	2813596	1	None	None
19	THOP1	ENSG00000172009	ENST00000592639	processed_transcript	KNOWN	None	11793	None	None	2809844	2810479	1	None	None
19	THOP1	ENSG00000172009	ENST00000587468	protein_coding	PUTATIVE	None	11793	508	168	2810151	2813179	1	None	None
9	None	ENSG00000230826	ENST00000423942	antisense	KNOWN	None	None	None	None	126498716	126514220	1	None	None
21	NEK4P1	ENSG00000225735	ENST00000433383	processed_pseudogene	KNOWN	None	39649	None	None	18582787	18583665	-1	None	None
1	LHX9	ENSG00000143355	ENST00000606127	processed_transcript	KNOWN	None	14222	None	None	197881037	197887120	1	None	None
1	LHX9	ENSG00000143355	ENST00000475727	processed_transcript	KNOWN	None	14222	None	None	197881618	197887089	1	None	None
1	LHX9	ENSG00000143355	ENST00000367391	protein_coding	PUTATIVE	None	14222	966	321	197881621	197901721	1	None	None
1	LHX9	ENSG00000143355	ENST00000367390	protein_coding	KNOWN	CCDS30962	14222	1167	388	197881635	197904608	1	None	None
1	LHX9	ENSG00000143355	ENST00000561173	protein_coding	PUTATIVE	None	14222	1011	336	197884967	197901396	1	None	None
1	LHX9	ENSG00000143355	ENST00000367388	protein_coding	PUTATIVE	None	14222	358	118	197886489	197887896	1	None	None
1	LHX9	ENSG00000143355	ENST00000337020	protein_coding	PUTATIVE	None	14222	993	330	197886504	197901998	1	None	None
1	LHX9	ENSG00000143355	ENST00000367387	protein_coding	KNOWN	CCDS1393	14222	1194	397	197886529	197899273	1	None	None
9	None	ENSG00000229115	ENST00000411924	processed_pseudogene	KNOWN	None	None	None	None	126521499	126522054	1	None	None
11	None	ENSG00000269601	ENST00000595283	protein_coding	NOVEL	None	None	168	55	120329880	120330047	-1	None	None
21	RNU6-113P	ENSG00000252462	ENST00000516653	snRNA	KNOWN	None	47076	None	None	18803865	18803965	1	None	None
10	MGMT	ENSG00000170430	ENST00000306010	protein_coding	KNOWN	CCDS7660	7059	717	238	131265448	131566271	1	None	None
10	MGMT	ENSG00000170430	ENST00000482653	processed_transcript	KNOWN	None	7059	None	None	131265493	131362426	1	None	None
10	MGMT	ENSG00000170430	ENST00000482547	retained_intron	KNOWN	None	7059	None	None	131265526	131335428	1	None	None
10	MGMT	ENSG00000170430	ENST00000462672	processed_transcript	KNOWN	None	7059	None	None	131499891	131516131	1	None	None
9	PIGFP2	ENSG00000234881	ENST00000421400	processed_pseudogene	KNOWN	None	45150	None	None	126605315	126605965	1	None	None
21	RNU7-168P	ENSG00000252613	ENST00000516804	snRNA	KNOWN	None	45702	None	None	18824999	18825052	1	None	None
21	RPL39P40	ENSG00000226580	ENST00000445481	processed_pseudogene	KNOWN	None	35823	None	None	18872997	18873142	-1	None	None
9	None	ENSG00000236668	ENST00000453529	antisense	KNOWN	None	None	None	None	126768556	126771675	-1	None	None
21	RN7SL163P	ENSG00000266195	ENST00000583100	misc_RNA	KNOWN	None	46179	None	None	18878771	18879044	1	None	None
15	SLC12A1	ENSG00000074803	ENST00000561127	nonsense_mediated_decay	KNOWN	None	10910	296	97	48483861	48522627	1	None	NKCC2
15	SLC12A1	ENSG00000074803	ENST00000559641	protein_coding	PUTATIVE	None	10910	1946	647	48483962	48577324	1	None	NKCC2
15	SLC12A1	ENSG00000074803	ENST00000396577	protein_coding	KNOWN	CCDS53940	10910	3300	1099	48498499	48596275	1	None	NKCC2
15	SLC12A1	ENSG00000074803	ENST00000330289	protein_coding	PUTATIVE	None	10910	1293	430	48499731	48529546	1	None	NKCC2
15	SLC12A1	ENSG00000074803	ENST00000558405	protein_coding	KNOWN	CCDS10129	10910	3300	1099	48499903	48595194	1	None	NKCC2
15	SLC12A1	ENSG00000074803	ENST00000561031	protein_coding	PUTATIVE	None	10910	654	217	48499917	48513642	1	None	NKCC2
15	SLC12A1	ENSG00000074803	ENST00000558252	retained_intron	KNOWN	None	10910	None	None	48514525	48596273	1	None	NKCC2
15	SLC12A1	ENSG00000074803	ENST00000560692	retained_intron	KNOWN	None	10910	None	None	48516523	48596275	1	None	NKCC2
15	SLC12A1	ENSG00000074803	ENST00000559723	processed_transcript	KNOWN	None	10910	None	None	48518048	48527122	1	None	NKCC2
15	SLC12A1	ENSG00000074803	ENST00000558805	protein_coding	PUTATIVE	None	10910	311	102	48524922	48527541	1	None	NKCC2
15	SLC12A1	ENSG00000074803	ENST00000380993	protein_coding	KNOWN	CCDS10129	10910	3300	1099	48498498	48596273	1	None	NKCC2
1	RSBN1	ENSG00000081019	ENST00000261441	protein_coding	KNOWN	CCDS862	25642	2409	802	114304454	114355098	-1	None	FLJ11220, ROSBIN
1	RSBN1	ENSG00000081019	ENST00000476412	nonsense_mediated_decay	KNOWN	None	25642	1261	419	114307238	114354915	-1	None	FLJ11220, ROSBIN
1	RSBN1	ENSG00000081019	ENST00000369581	processed_transcript	KNOWN	None	25642	None	None	114308767	114310656	-1	None	FLJ11220, ROSBIN
9	None	ENSG00000204429	ENST00000375867	processed_pseudogene	KNOWN	None	None	None	None	90795588	90796362	1	None	None
22	C22orf15	ENSG00000169314	ENST00000498542	retained_intron	KNOWN	None	15558	None	None	24105208	24106550	1	None	FLJ36561, N27C7-3
22	C22orf15	ENSG00000169314	ENST00000477921	retained_intron	KNOWN	None	15558	None	None	24105208	24108048	1	None	FLJ36561, N27C7-3
22	C22orf15	ENSG00000169314	ENST00000402217	protein_coding	KNOWN	CCDS13814	15558	447	148	24105241	24108048	1	None	FLJ36561, N27C7-3
22	C22orf15	ENSG00000169314	ENST00000305199	protein_coding	PUTATIVE	None	15558	474	157	24105394	24108048	1	None	FLJ36561, N27C7-3
22	C22orf15	ENSG00000169314	ENST00000382821	protein_coding	KNOWN	None	15558	429	142	24105410	24108048	1	None	FLJ36561, N27C7-3
9	None	ENSG00000229288	ENST00000429076	processed_pseudogene	KNOWN	None	None	None	None	90802650	90805117	-1	None	None
14	AK7	ENSG00000140057	ENST00000267584	protein_coding	KNOWN	CCDS9945	20091	2172	723	96858448	96955764	1	None	FLJ32864
14	AK7	ENSG00000140057	ENST00000555570	protein_coding	PUTATIVE	None	20091	324	107	96858470	96865629	1	None	FLJ32864
14	AK7	ENSG00000140057	ENST00000556643	retained_intron	KNOWN	None	20091	None	None	96858481	96871389	1	None	FLJ32864
14	AK7	ENSG00000140057	ENST00000554313	processed_transcript	KNOWN	None	20091	None	None	96864535	96887903	1	None	FLJ32864
14	AK7	ENSG00000140057	ENST00000554706	protein_coding	PUTATIVE	None	20091	457	151	96949319	96954612	1	None	FLJ32864
12	LYRM5	ENSG00000205707	ENST00000557540	protein_coding	KNOWN	None	27052	267	88	25348150	25358069	1	None	None
12	LYRM5	ENSG00000205707	ENST00000555711	protein_coding	PUTATIVE	None	27052	117	38	25348195	25357617	1	None	None
12	LYRM5	ENSG00000205707	ENST00000556885	protein_coding	KNOWN	None	27052	267	88	25348199	25357949	1	None	None
12	LYRM5	ENSG00000205707	ENST00000554266	protein_coding	PUTATIVE	None	27052	126	41	25348204	25357106	1	None	None
12	LYRM5	ENSG00000205707	ENST00000556351	protein_coding	KNOWN	None	27052	267	88	25348206	25357600	1	None	None
12	LYRM5	ENSG00000205707	ENST00000556927	protein_coding	KNOWN	None	27052	267	88	25348206	25357604	1	None	None
12	LYRM5	ENSG00000205707	ENST00000555151	processed_transcript	KNOWN	None	27052	None	None	25348211	25349118	1	None	None
12	LYRM5	ENSG00000205707	ENST00000556402	protein_coding	PUTATIVE	None	27052	126	41	25348211	25357666	1	None	None
12	LYRM5	ENSG00000205707	ENST00000553788	protein_coding	PUTATIVE	None	27052	114	37	25348211	25362579	1	None	None
12	LYRM5	ENSG00000205707	ENST00000556198	protein_coding	KNOWN	None	27052	102	33	25348487	25357081	1	None	None
12	LYRM5	ENSG00000205707	ENST00000381356	protein_coding	KNOWN	CCDS53764	27052	273	90	25348150	25357948	1	None	None
3	SATB1	ENSG00000182568	ENST00000338745	protein_coding	KNOWN	CCDS2631	10541	2292	763	18386879	18466829	-1	None	None
3	SATB1	ENSG00000182568	ENST00000417717	protein_coding	KNOWN	CCDS56242	10541	2388	795	18389432	18466065	-1	None	None
3	SATB1	ENSG00000182568	ENST00000454909	protein_coding	KNOWN	CCDS2631	10541	2292	763	18390219	18480265	-1	None	None
3	SATB1	ENSG00000182568	ENST00000606296	retained_intron	KNOWN	None	10541	None	None	18390377	18394576	-1	None	None
3	SATB1	ENSG00000182568	ENST00000476178	retained_intron	KNOWN	None	10541	None	None	18391033	18393023	-1	None	None
3	SATB1	ENSG00000182568	ENST00000467628	retained_intron	KNOWN	None	10541	None	None	18393295	18419819	-1	None	None
3	SATB1	ENSG00000182568	ENST00000475083	processed_transcript	KNOWN	None	10541	None	None	18438706	18459002	-1	None	None
3	SATB1	ENSG00000182568	ENST00000440737	protein_coding	KNOWN	None	10541	674	223	18438748	18486375	-1	None	None
3	SATB1	ENSG00000182568	ENST00000491519	retained_intron	KNOWN	None	10541	None	None	18452294	18458885	-1	None	None
3	SATB1	ENSG00000182568	ENST00000482788	retained_intron	KNOWN	None	10541	None	None	18456441	18457618	-1	None	None
3	SATB1	ENSG00000182568	ENST00000452260	protein_coding	KNOWN	None	10541	518	171	18457496	18462880	-1	None	None
3	SATB1	ENSG00000182568	ENST00000415069	protein_coding	KNOWN	None	10541	499	165	18457515	18487080	-1	None	None
3	SATB1	ENSG00000182568	ENST00000457005	protein_coding	KNOWN	None	10541	389	128	18458393	18466232	-1	None	None
3	SATB1	ENSG00000182568	ENST00000414509	protein_coding	KNOWN	None	10541	348	115	18458434	18480184	-1	None	None
3	SATB1	ENSG00000182568	ENST00000493952	protein_coding	PUTATIVE	None	10541	249	82	18459068	18486365	-1	None	None
3	SATB1	ENSG00000182568	ENST00000487699	retained_intron	KNOWN	None	10541	None	None	18462177	18480226	-1	None	None
3	SATB1	ENSG00000182568	ENST00000444341	protein_coding	KNOWN	None	10541	212	69	18462248	18476745	-1	None	None
3	SATB1	ENSG00000182568	ENST00000450898	protein_coding	KNOWN	None	10541	24	7	18462436	18466861	-1	None	None
HSCHR6_MHC_DBB	C4A	ENSG00000244207	ENST00000375295	protein_coding	KNOWN	None	1323	5235	1744	31931985	31952643	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
HSCHR6_MHC_DBB	C4A	ENSG00000244207	ENST00000491759	retained_intron	KNOWN	None	1323	None	None	31932804	31933520	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
HSCHR6_MHC_DBB	C4A	ENSG00000244207	ENST00000488233	processed_transcript	KNOWN	None	1323	None	None	31932842	31934359	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
HSCHR6_MHC_DBB	C4A	ENSG00000244207	ENST00000467619	retained_intron	KNOWN	None	1323	None	None	31942139	31943938	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
HSCHR6_MHC_DBB	C4A	ENSG00000244207	ENST00000488360	processed_transcript	KNOWN	None	1323	None	None	31945071	31945582	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
HSCHR6_MHC_DBB	C4A	ENSG00000244207	ENST00000488693	processed_transcript	PUTATIVE	None	1323	None	None	31945913	31948798	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
HSCHR6_MHC_DBB	C4A	ENSG00000244207	ENST00000492166	retained_intron	KNOWN	None	1323	None	None	31947704	31949681	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
HSCHR6_MHC_DBB	C4A	ENSG00000244207	ENST00000490545	retained_intron	KNOWN	None	1323	None	None	31948813	31949492	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
HSCHR6_MHC_DBB	C4A	ENSG00000244207	ENST00000470477	retained_intron	KNOWN	None	1323	None	None	31949117	31952643	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
HSCHR6_MHC_DBB	C4A	ENSG00000244207	ENST00000475612	retained_intron	KNOWN	None	1323	None	None	31949162	31952643	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
HSCHR6_MHC_DBB	C4A	ENSG00000244207	ENST00000482524	processed_transcript	KNOWN	None	1323	None	None	31950960	31952643	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
HSCHR6_MHC_DBB	C4A	ENSG00000244207	ENST00000473768	retained_intron	KNOWN	None	1323	None	None	31951089	31952227	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
HSCHR6_MHC_DBB	C4A	ENSG00000244207	ENST00000488163	processed_transcript	KNOWN	None	1323	None	None	31951222	31951830	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
HSCHR6_MHC_DBB	C4A	ENSG00000244207	ENST00000546746	protein_coding	KNOWN	None	1323	5097	1698	31931985	31952502	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
22	WNT7B	ENSG00000188064	ENST00000339464	protein_coding	KNOWN	CCDS33667	12787	1050	349	46316242	46373009	-1	None	None
22	WNT7B	ENSG00000188064	ENST00000409496	protein_coding	PUTATIVE	None	12787	1062	353	46317991	46368595	-1	None	None
22	WNT7B	ENSG00000188064	ENST00000410089	protein_coding	PUTATIVE	None	12787	1002	333	46317991	46371902	-1	None	None
22	WNT7B	ENSG00000188064	ENST00000410058	protein_coding	PUTATIVE	None	12787	618	205	46323362	46372685	-1	None	None
22	WNT7B	ENSG00000188064	ENST00000428540	protein_coding	PUTATIVE	None	12787	171	56	46327176	46371789	-1	None	None
9	RPL12	ENSG00000197958	ENST00000361436	protein_coding	KNOWN	CCDS6872	10302	498	165	130209953	130213684	-1	None	L12
9	RPL12	ENSG00000197958	ENST00000497825	processed_transcript	KNOWN	None	10302	None	None	130209953	130213684	-1	None	L12
9	RPL12	ENSG00000197958	ENST00000497322	processed_transcript	KNOWN	None	10302	None	None	130209959	130213684	-1	None	L12
9	RPL12	ENSG00000197958	ENST00000483598	processed_transcript	KNOWN	None	10302	None	None	130211389	130211979	-1	None	L12
9	RPL12	ENSG00000197958	ENST00000536368	protein_coding	KNOWN	None	10302	399	132	130209956	130213652	-1	None	L12
21	BTF3L4P1	ENSG00000232260	ENST00000413813	processed_pseudogene	KNOWN	None	39645	None	None	18890844	18891311	-1	None	None
21	BTF3L4P1	ENSG00000232260	ENST00000441537	processed_pseudogene	KNOWN	None	39645	None	None	18890841	18891311	-1	None	None
2	MARCH7	ENSG00000136536	ENST00000409175	protein_coding	KNOWN	CCDS2210	17393	2115	704	160569000	160623880	1	AXOT	MARCH-VII, RNF177
2	MARCH7	ENSG00000136536	ENST00000259050	protein_coding	KNOWN	CCDS2210	17393	2115	704	160569010	160625359	1	AXOT	MARCH-VII, RNF177
2	MARCH7	ENSG00000136536	ENST00000421037	protein_coding	KNOWN	None	17393	304	100	160569018	160599722	1	AXOT	MARCH-VII, RNF177
2	MARCH7	ENSG00000136536	ENST00000473749	processed_transcript	KNOWN	None	17393	None	None	160569034	160604637	1	AXOT	MARCH-VII, RNF177
2	MARCH7	ENSG00000136536	ENST00000409591	protein_coding	PUTATIVE	None	17393	2001	666	160590476	160623920	1	AXOT	MARCH-VII, RNF177
2	MARCH7	ENSG00000136536	ENST00000461582	processed_transcript	KNOWN	None	17393	None	None	160602281	160609036	1	AXOT	MARCH-VII, RNF177
2	MARCH7	ENSG00000136536	ENST00000420397	protein_coding	NOVEL	None	17393	375	124	160609001	160624471	1	AXOT	MARCH-VII, RNF177
2	MARCH7	ENSG00000136536	ENST00000478396	processed_transcript	KNOWN	None	17393	None	None	160615803	160624361	1	AXOT	MARCH-VII, RNF177
2	MARCH7	ENSG00000136536	ENST00000539065	protein_coding	KNOWN	None	17393	1908	635	160569000	160624193	1	AXOT	MARCH-VII, RNF177
11	GRIK4	ENSG00000149403	ENST00000527524	protein_coding	KNOWN	CCDS8433	4582	2871	956	120382468	120859613	1	GRIK	GluK4, KA1
11	GRIK4	ENSG00000149403	ENST00000438375	protein_coding	PUTATIVE	CCDS8433	4582	2871	956	120435143	120857970	1	GRIK	GluK4, KA1
11	GRIK4	ENSG00000149403	ENST00000533291	retained_intron	KNOWN	None	4582	None	None	120435195	120833687	1	GRIK	GluK4, KA1
11	GRIK4	ENSG00000149403	ENST00000526536	processed_transcript	KNOWN	None	4582	None	None	120446508	120686147	1	GRIK	GluK4, KA1
11	GRIK4	ENSG00000149403	ENST00000527130	processed_transcript	KNOWN	None	4582	None	None	120728949	120732743	1	GRIK	GluK4, KA1
11	GRIK4	ENSG00000149403	ENST00000530172	retained_intron	KNOWN	None	4582	None	None	120729757	120732994	1	GRIK	GluK4, KA1
12	BTG1	ENSG00000133639	ENST00000256015	protein_coding	KNOWN	CCDS9043	1130	516	171	92536286	92539673	-1	None	None
12	BTG1	ENSG00000133639	ENST00000552315	protein_coding	PUTATIVE	None	1130	253	83	92537894	92539009	-1	None	None
1	NEK7	ENSG00000151414	ENST00000367385	protein_coding	KNOWN	CCDS1394	13386	909	302	198126093	198291550	1	None	None
1	NEK7	ENSG00000151414	ENST00000442588	protein_coding	KNOWN	None	13386	96	31	198126124	198222208	1	None	None
1	NEK7	ENSG00000151414	ENST00000538004	protein_coding	KNOWN	CCDS1394	13386	909	302	198126128	198288652	1	None	None
1	NEK7	ENSG00000151414	ENST00000367383	protein_coding	PUTATIVE	None	13386	360	119	198126251	198225661	1	None	None
1	NEK7	ENSG00000151414	ENST00000544035	protein_coding	KNOWN	None	13386	186	61	198176004	198222298	1	None	None
1	NEK7	ENSG00000151414	ENST00000417895	processed_transcript	KNOWN	None	13386	None	None	198177668	198214479	1	None	None
1	NEK7	ENSG00000151414	ENST00000391974	protein_coding	KNOWN	None	13386	247	81	198189929	198231753	1	None	None
1	NEK7	ENSG00000151414	ENST00000493790	retained_intron	KNOWN	None	13386	None	None	198246834	198288879	1	None	None
22	C22orf26	ENSG00000182257	ENST00000396008	protein_coding	KNOWN	CCDS14071	25606	417	138	46445358	46450024	-1	None	FLJ10945
22	C22orf26	ENSG00000182257	ENST00000333761	protein_coding	KNOWN	CCDS14071	25606	417	138	46446339	46450024	-1	None	FLJ10945
10	MRPL35P2	ENSG00000232075	ENST00000448009	processed_pseudogene	KNOWN	None	29706	None	None	65394077	65394587	-1	None	None
3	CCK	ENSG00000187094	ENST00000334681	protein_coding	KNOWN	CCDS2696	1569	348	115	42299317	42306395	-1	None	None
3	CCK	ENSG00000187094	ENST00000396169	protein_coding	KNOWN	CCDS2696	1569	348	115	42299317	42307699	-1	None	None
3	CCK	ENSG00000187094	ENST00000434608	protein_coding	KNOWN	CCDS2696	1569	348	115	42299318	42305439	-1	None	None
3	CCK	ENSG00000187094	ENST00000484359	retained_intron	KNOWN	None	1569	None	None	42304476	42306257	-1	None	None
10	None	ENSG00000270352	ENST00000604050	processed_pseudogene	KNOWN	None	None	None	None	65417834	65418281	1	None	None
6	POLH	ENSG00000170734	ENST00000372236	protein_coding	KNOWN	CCDS4902	9181	2142	713	43543887	43583397	1	None	RAD30A, XP-V
6	POLH	ENSG00000170734	ENST00000372226	protein_coding	KNOWN	None	9181	1245	414	43544034	43583397	1	None	RAD30A, XP-V
6	POLH	ENSG00000170734	ENST00000443535	protein_coding	KNOWN	None	9181	215	70	43544111	43555137	1	None	RAD30A, XP-V
6	POLH	ENSG00000170734	ENST00000535400	protein_coding	KNOWN	None	9181	1956	651	43543922	43586701	1	None	RAD30A, XP-V
18	FAM210A	ENSG00000177150	ENST00000322247	protein_coding	KNOWN	CCDS11866	28346	819	272	13663346	13726559	-1	C18orf19	MGC24180, HsT2329
18	FAM210A	ENSG00000177150	ENST00000585785	processed_transcript	KNOWN	None	28346	None	None	13665882	13726591	-1	C18orf19	MGC24180, HsT2329
18	FAM210A	ENSG00000177150	ENST00000588475	processed_transcript	KNOWN	None	28346	None	None	13666002	13726504	-1	C18orf19	MGC24180, HsT2329
18	FAM210A	ENSG00000177150	ENST00000589346	protein_coding	PUTATIVE	None	28346	204	67	13666230	13671938	-1	C18orf19	MGC24180, HsT2329
18	FAM210A	ENSG00000177150	ENST00000592976	protein_coding	KNOWN	None	28346	805	267	13666493	13726585	-1	C18orf19	MGC24180, HsT2329
18	FAM210A	ENSG00000177150	ENST00000591269	protein_coding	KNOWN	None	28346	535	177	13671911	13726662	-1	C18orf19	MGC24180, HsT2329
18	FAM210A	ENSG00000177150	ENST00000402563	protein_coding	KNOWN	CCDS11866	28346	819	272	13663350	13726591	-1	C18orf19	MGC24180, HsT2329
16	C16orf11	ENSG00000161992	ENST00000409413	protein_coding	KNOWN	CCDS45365	14139	1716	571	610422	615528	1	None	None
17	GLTPD2	ENSG00000182327	ENST00000331264	protein_coding	KNOWN	CCDS32534	33756	876	291	4692254	4693685	1	None	None
19	USF2	ENSG00000105698	ENST00000343550	protein_coding	KNOWN	CCDS12453	12594	840	279	35759881	35770718	1	None	FIP, bHLHb12
19	USF2	ENSG00000105698	ENST00000222305	protein_coding	KNOWN	CCDS12452	12594	1041	346	35759968	35770715	1	None	FIP, bHLHb12
19	USF2	ENSG00000105698	ENST00000595068	protein_coding	KNOWN	None	12594	1017	338	35759968	35770717	1	None	FIP, bHLHb12
19	USF2	ENSG00000105698	ENST00000379134	protein_coding	NOVEL	None	12594	648	215	35760005	35770159	1	None	FIP, bHLHb12
19	USF2	ENSG00000105698	ENST00000602164	retained_intron	KNOWN	None	12594	None	None	35760011	35761420	1	None	FIP, bHLHb12
19	USF2	ENSG00000105698	ENST00000594064	protein_coding	NOVEL	None	12594	1050	349	35760011	35770211	1	None	FIP, bHLHb12
19	USF2	ENSG00000105698	ENST00000598058	protein_coding	PUTATIVE	None	12594	510	169	35760018	35761000	1	None	FIP, bHLHb12
19	USF2	ENSG00000105698	ENST00000593708	retained_intron	KNOWN	None	12594	None	None	35760184	35760832	1	None	FIP, bHLHb12
19	USF2	ENSG00000105698	ENST00000596380	protein_coding	PUTATIVE	None	12594	429	142	35761166	35769668	1	None	FIP, bHLHb12
19	USF2	ENSG00000105698	ENST00000599471	protein_coding	PUTATIVE	None	12594	762	253	35761353	35770570	1	None	FIP, bHLHb12
19	USF2	ENSG00000105698	ENST00000597671	nonsense_mediated_decay	KNOWN	None	12594	259	85	35761397	35769695	1	None	FIP, bHLHb12
19	USF2	ENSG00000105698	ENST00000599625	protein_coding	PUTATIVE	None	12594	446	147	35761904	35770150	1	None	FIP, bHLHb12
19	USF2	ENSG00000105698	ENST00000600341	processed_transcript	KNOWN	None	12594	None	None	35761986	35770716	1	None	FIP, bHLHb12
19	USF2	ENSG00000105698	ENST00000594264	retained_intron	KNOWN	None	12594	None	None	35767880	35770713	1	None	FIP, bHLHb12
19	USF2	ENSG00000105698	ENST00000600898	retained_intron	KNOWN	None	12594	None	None	35769118	35770210	1	None	FIP, bHLHb12
1	ZSCAN20	ENSG00000121903	ENST00000361328	protein_coding	KNOWN	CCDS41300	13093	3132	1043	33938246	33962107	1	ZNF360, ZNF31	KOX29
1	ZSCAN20	ENSG00000121903	ENST00000373413	protein_coding	KNOWN	None	13093	1302	433	33938252	33958236	1	ZNF360, ZNF31	KOX29
1	ZSCAN20	ENSG00000121903	ENST00000480917	processed_transcript	KNOWN	None	13093	None	None	33938261	33954845	1	ZNF360, ZNF31	KOX29
10	None	ENSG00000228566	ENST00000444770	lincRNA	KNOWN	None	None	None	None	65424424	65750328	1	None	None
10	None	ENSG00000213609	ENST00000452821	processed_pseudogene	KNOWN	None	None	None	None	65662211	65663005	-1	None	None
9	None	ENSG00000231227	ENST00000421041	sense_overlapping	KNOWN	None	None	None	None	126772809	126773393	1	None	None
9	None	ENSG00000234921	ENST00000429482	antisense	KNOWN	None	None	None	None	126793903	126794803	-1	None	None
15	MRPL46	ENSG00000259494	ENST00000312475	protein_coding	KNOWN	CCDS10341	1192	840	279	89002707	89010650	-1	C15orf4	LIECG2, P2ECSL
15	MRPL46	ENSG00000259494	ENST00000558660	retained_intron	KNOWN	None	1192	None	None	89002708	89008978	-1	C15orf4	LIECG2, P2ECSL
15	MRPL46	ENSG00000259494	ENST00000559538	processed_transcript	PUTATIVE	None	1192	None	None	89002709	89008044	-1	C15orf4	LIECG2, P2ECSL
15	MRPL46	ENSG00000259494	ENST00000560703	nonsense_mediated_decay	KNOWN	None	1192	261	86	89002839	89010620	-1	C15orf4	LIECG2, P2ECSL
15	MRPL46	ENSG00000259494	ENST00000558531	retained_intron	KNOWN	None	1192	None	None	89008244	89010621	-1	C15orf4	LIECG2, P2ECSL
9	None	ENSG00000235204	ENST00000426157	antisense	KNOWN	None	None	None	None	127021529	127023435	-1	None	None
17	PSMB6	ENSG00000142507	ENST00000270586	protein_coding	KNOWN	CCDS11056	9543	720	239	4699439	4701790	1	None	Y, DELTA
17	PSMB6	ENSG00000142507	ENST00000575079	retained_intron	KNOWN	None	9543	None	None	4699456	4700469	1	None	Y, DELTA
17	PSMB6	ENSG00000142507	ENST00000571309	nonsense_mediated_decay	KNOWN	None	9543	309	102	4699499	4701624	1	None	Y, DELTA
17	PSMB6	ENSG00000142507	ENST00000575643	retained_intron	KNOWN	None	9543	None	None	4700979	4701770	1	None	Y, DELTA
1	ATP6V1G3	ENSG00000151418	ENST00000367382	protein_coding	KNOWN	CCDS1395	18265	357	118	198492352	198509865	-1	None	ATP6G3, Vma10
1	ATP6V1G3	ENSG00000151418	ENST00000309309	protein_coding	KNOWN	CCDS1396	18265	180	59	198492352	198510075	-1	None	ATP6G3, Vma10
1	ATP6V1G3	ENSG00000151418	ENST00000489986	protein_coding	KNOWN	None	18265	375	124	198492471	198509804	-1	None	ATP6G3, Vma10
1	ATP6V1G3	ENSG00000151418	ENST00000367381	protein_coding	KNOWN	None	18265	375	124	198492356	198510075	-1	None	ATP6G3, Vma10
1	ATP6V1G3	ENSG00000151418	ENST00000281087	protein_coding	KNOWN	CCDS1395	18265	357	118	198492356	198510075	-1	None	ATP6G3, Vma10
5	SLC35A4	ENSG00000176087	ENST00000323146	protein_coding	KNOWN	CCDS4231	20753	975	324	139944041	139948688	1	None	None
5	SLC35A4	ENSG00000176087	ENST00000508770	processed_transcript	KNOWN	None	20753	None	None	139944150	139946885	1	None	None
5	SLC35A4	ENSG00000176087	ENST00000514199	protein_coding	PUTATIVE	CCDS4231	20753	975	324	139944476	139948685	1	None	None
5	SLC35A4	ENSG00000176087	ENST00000514137	retained_intron	KNOWN	None	20753	None	None	139945331	139946814	1	None	None
11	CAPN5	ENSG00000149260	ENST00000531028	protein_coding	PUTATIVE	None	1482	159	52	76777979	76834962	1	None	nCL-3, HTRA3
11	CAPN5	ENSG00000149260	ENST00000278559	protein_coding	KNOWN	CCDS8248	1482	1923	640	76777988	76837201	1	None	nCL-3, HTRA3
11	CAPN5	ENSG00000149260	ENST00000527066	protein_coding	KNOWN	None	1482	291	96	76778018	76804853	1	None	nCL-3, HTRA3
11	CAPN5	ENSG00000149260	ENST00000529629	protein_coding	KNOWN	CCDS8248	1482	1923	640	76778024	76835100	1	None	nCL-3, HTRA3
11	CAPN5	ENSG00000149260	ENST00000456580	protein_coding	NOVEL	None	1482	2043	680	76778040	76835541	1	None	nCL-3, HTRA3
11	CAPN5	ENSG00000149260	ENST00000533889	retained_intron	KNOWN	None	1482	None	None	76796011	76823957	1	None	nCL-3, HTRA3
11	CAPN5	ENSG00000149260	ENST00000527129	retained_intron	KNOWN	None	1482	None	None	76830453	76835541	1	None	nCL-3, HTRA3
HSCHR6_MHC_MANN	ABCF1	ENSG00000231129	ENST00000426219	protein_coding	KNOWN	None	70	2538	845	30583828	30603883	1	ABC50	EST123147
HSCHR6_MHC_MANN	ABCF1	ENSG00000231129	ENST00000421042	protein_coding	KNOWN	None	70	2424	807	30583845	30603883	1	ABC50	EST123147
HSCHR6_MHC_MANN	ABCF1	ENSG00000231129	ENST00000426591	protein_coding	KNOWN	None	70	1019	338	30583885	30596160	1	ABC50	EST123147
HSCHR6_MHC_MANN	ABCF1	ENSG00000231129	ENST00000489832	processed_transcript	KNOWN	None	70	None	None	30583894	30592900	1	ABC50	EST123147
HSCHR6_MHC_MANN	ABCF1	ENSG00000231129	ENST00000454094	protein_coding	KNOWN	None	70	717	238	30583904	30603883	1	ABC50	EST123147
HSCHR6_MHC_MANN	ABCF1	ENSG00000231129	ENST00000494413	processed_transcript	KNOWN	None	70	None	None	30594917	30609632	1	ABC50	EST123147
HSCHR6_MHC_MANN	ABCF1	ENSG00000231129	ENST00000491571	retained_intron	KNOWN	None	70	None	None	30601881	30603195	1	ABC50	EST123147
HSCHR6_MHC_MANN	ABCF1	ENSG00000231129	ENST00000552867	protein_coding	KNOWN	None	70	1602	533	30583845	30603982	1	ABC50	EST123147
2	CD302	ENSG00000241399	ENST00000259053	protein_coding	KNOWN	CCDS33308	30843	699	232	160625364	160654753	-1	None	DCL-1, KIAA0022, BIMLEC, CLEC13A
2	CD302	ENSG00000241399	ENST00000480212	processed_transcript	KNOWN	None	30843	None	None	160625364	160654753	-1	None	DCL-1, KIAA0022, BIMLEC, CLEC13A
2	CD302	ENSG00000241399	ENST00000429078	protein_coding	KNOWN	CCDS56139	30843	525	174	160628100	160654753	-1	None	DCL-1, KIAA0022, BIMLEC, CLEC13A
12	DDX11	ENSG00000013573	ENST00000542838	protein_coding	KNOWN	CCDS41767	2736	2721	906	31226779	31256877	1	None	CHLR1, KRG2, CHL1, ChlR1, WABS
12	DDX11	ENSG00000013573	ENST00000542129	nonsense_mediated_decay	KNOWN	None	2736	915	304	31226794	31247567	1	None	CHLR1, KRG2, CHL1, ChlR1, WABS
12	DDX11	ENSG00000013573	ENST00000228264	protein_coding	KNOWN	CCDS58224	2736	2643	880	31226794	31257725	1	None	CHLR1, KRG2, CHL1, ChlR1, WABS
12	DDX11	ENSG00000013573	ENST00000438391	protein_coding	NOVEL	None	2736	907	301	31226802	31242933	1	None	CHLR1, KRG2, CHL1, ChlR1, WABS
12	DDX11	ENSG00000013573	ENST00000435753	nonsense_mediated_decay	KNOWN	None	2736	867	288	31226810	31257725	1	None	CHLR1, KRG2, CHL1, ChlR1, WABS
12	DDX11	ENSG00000013573	ENST00000540935	nonsense_mediated_decay	KNOWN	None	2736	867	288	31226813	31244705	1	None	CHLR1, KRG2, CHL1, ChlR1, WABS
12	DDX11	ENSG00000013573	ENST00000539049	nonsense_mediated_decay	KNOWN	None	2736	894	297	31226816	31257725	1	None	CHLR1, KRG2, CHL1, ChlR1, WABS
12	DDX11	ENSG00000013573	ENST00000536265	retained_intron	KNOWN	None	2736	None	None	31226825	31257070	1	None	CHLR1, KRG2, CHL1, ChlR1, WABS
12	DDX11	ENSG00000013573	ENST00000415475	protein_coding	KNOWN	None	2736	674	223	31226826	31242045	1	None	CHLR1, KRG2, CHL1, ChlR1, WABS
12	DDX11	ENSG00000013573	ENST00000545668	protein_coding	KNOWN	CCDS44856	2736	2913	970	31226828	31257725	1	None	CHLR1, KRG2, CHL1, ChlR1, WABS
12	DDX11	ENSG00000013573	ENST00000350437	protein_coding	KNOWN	CCDS8721	2736	2571	856	31226832	31257725	1	None	CHLR1, KRG2, CHL1, ChlR1, WABS
12	DDX11	ENSG00000013573	ENST00000535158	retained_intron	KNOWN	None	2736	None	None	31226836	31242817	1	None	CHLR1, KRG2, CHL1, ChlR1, WABS
12	DDX11	ENSG00000013573	ENST00000543756	nonsense_mediated_decay	KNOWN	None	2736	237	78	31226843	31238002	1	None	CHLR1, KRG2, CHL1, ChlR1, WABS
12	DDX11	ENSG00000013573	ENST00000542244	nonsense_mediated_decay	KNOWN	None	2736	516	171	31227154	31242552	1	None	CHLR1, KRG2, CHL1, ChlR1, WABS
12	DDX11	ENSG00000013573	ENST00000535317	protein_coding	PUTATIVE	None	2736	575	190	31227198	31237590	1	None	CHLR1, KRG2, CHL1, ChlR1, WABS
12	DDX11	ENSG00000013573	ENST00000544652	protein_coding	PUTATIVE	None	2736	276	91	31231454	31242064	1	None	CHLR1, KRG2, CHL1, ChlR1, WABS
12	DDX11	ENSG00000013573	ENST00000538345	nonsense_mediated_decay	KNOWN	None	2736	96	31	31236762	31256798	1	None	CHLR1, KRG2, CHL1, ChlR1, WABS
12	DDX11	ENSG00000013573	ENST00000542242	retained_intron	KNOWN	None	2736	None	None	31240510	31242615	1	None	CHLR1, KRG2, CHL1, ChlR1, WABS
12	DDX11	ENSG00000013573	ENST00000543026	retained_intron	KNOWN	None	2736	None	None	31240579	31246654	1	None	CHLR1, KRG2, CHL1, ChlR1, WABS
12	DDX11	ENSG00000013573	ENST00000545717	processed_transcript	KNOWN	None	2736	None	None	31242003	31244207	1	None	CHLR1, KRG2, CHL1, ChlR1, WABS
12	DDX11	ENSG00000013573	ENST00000536580	retained_intron	KNOWN	None	2736	None	None	31244487	31249923	1	None	CHLR1, KRG2, CHL1, ChlR1, WABS
12	DDX11	ENSG00000013573	ENST00000539673	processed_transcript	KNOWN	None	2736	None	None	31245796	31253528	1	None	CHLR1, KRG2, CHL1, ChlR1, WABS
12	DDX11	ENSG00000013573	ENST00000543511	retained_intron	KNOWN	None	2736	None	None	31247229	31249807	1	None	CHLR1, KRG2, CHL1, ChlR1, WABS
12	DDX11	ENSG00000013573	ENST00000539699	retained_intron	KNOWN	None	2736	None	None	31249569	31253781	1	None	CHLR1, KRG2, CHL1, ChlR1, WABS
12	DDX11	ENSG00000013573	ENST00000542661	retained_intron	KNOWN	None	2736	None	None	31249848	31255663	1	None	CHLR1, KRG2, CHL1, ChlR1, WABS
12	DDX11	ENSG00000013573	ENST00000538740	retained_intron	KNOWN	None	2736	None	None	31253341	31254409	1	None	CHLR1, KRG2, CHL1, ChlR1, WABS
12	DDX11	ENSG00000013573	ENST00000542777	retained_intron	KNOWN	None	2736	None	None	31254447	31255195	1	None	CHLR1, KRG2, CHL1, ChlR1, WABS
12	DDX11	ENSG00000013573	ENST00000537136	retained_intron	KNOWN	None	2736	None	None	31255148	31256152	1	None	CHLR1, KRG2, CHL1, ChlR1, WABS
12	DDX11	ENSG00000013573	ENST00000545115	nonsense_mediated_decay	KNOWN	None	2736	230	75	31255202	31256939	1	None	CHLR1, KRG2, CHL1, ChlR1, WABS
12	DDX11	ENSG00000013573	ENST00000539702	protein_coding	NOVEL	None	2736	518	171	31255202	31257203	1	None	CHLR1, KRG2, CHL1, ChlR1, WABS
12	DDX11	ENSG00000013573	ENST00000407793	protein_coding	KNOWN	CCDS44856	2736	2913	970	31226779	31257725	1	None	CHLR1, KRG2, CHL1, ChlR1, WABS
12	DDX11	ENSG00000013573	ENST00000251758	protein_coding	KNOWN	None	2736	867	288	31226779	31257725	1	None	CHLR1, KRG2, CHL1, ChlR1, WABS
14	HEATR4	ENSG00000187105	ENST00000565094	processed_transcript	KNOWN	None	16761	None	None	73945189	73958484	-1	None	MGC48595
14	HEATR4	ENSG00000187105	ENST00000553558	protein_coding	KNOWN	CCDS9815	16761	3081	1026	73945191	74025625	-1	None	MGC48595
14	HEATR4	ENSG00000187105	ENST00000334988	protein_coding	KNOWN	CCDS9815	16761	3081	1026	73945192	74025651	-1	None	MGC48595
14	HEATR4	ENSG00000187105	ENST00000566478	processed_transcript	KNOWN	None	16761	None	None	73945194	73947627	-1	None	MGC48595
14	HEATR4	ENSG00000187105	ENST00000556455	protein_coding	KNOWN	None	16761	573	190	73989284	73997916	-1	None	MGC48595
14	HEATR4	ENSG00000187105	ENST00000557603	protein_coding	KNOWN	None	16761	117	38	73989740	73997901	-1	None	MGC48595
14	HEATR4	ENSG00000187105	ENST00000563329	protein_coding	KNOWN	None	16761	108	35	73989749	74025649	-1	None	MGC48595
14	HEATR4	ENSG00000187105	ENST00000560393	protein_coding	KNOWN	None	16761	2940	979	73945196	74025651	-1	None	MGC48595
14	None	ENSG00000258474	ENST00000553330	protein_coding	PUTATIVE	None	None	240	79	32414059	32419588	1	None	None
9	None	ENSG00000227200	ENST00000437461	sense_intronic	KNOWN	None	None	None	None	127025155	127028088	1	None	None
15	TLN2	ENSG00000171914	ENST00000561322	processed_transcript	PUTATIVE	None	15447	None	None	62682725	62768613	1	None	KIAA0320, ILWEQ
15	TLN2	ENSG00000171914	ENST00000561197	processed_transcript	PUTATIVE	None	15447	None	None	62745791	62910629	1	None	KIAA0320, ILWEQ
15	TLN2	ENSG00000171914	ENST00000561311	protein_coding	KNOWN	CCDS32261	15447	7629	2542	62853564	63136830	1	None	KIAA0320, ILWEQ
15	TLN2	ENSG00000171914	ENST00000474847	retained_intron	KNOWN	None	15447	None	None	62942198	62950373	1	None	KIAA0320, ILWEQ
15	TLN2	ENSG00000171914	ENST00000494733	protein_coding	NOVEL	None	15447	4416	1471	63019289	63133548	1	None	KIAA0320, ILWEQ
15	TLN2	ENSG00000171914	ENST00000559908	processed_transcript	KNOWN	None	15447	None	None	63026101	63031744	1	None	KIAA0320, ILWEQ
15	TLN2	ENSG00000171914	ENST00000489129	retained_intron	KNOWN	None	15447	None	None	63032644	63133685	1	None	KIAA0320, ILWEQ
15	TLN2	ENSG00000171914	ENST00000472902	protein_coding	PUTATIVE	None	15447	993	330	63050789	63077037	1	None	KIAA0320, ILWEQ
15	TLN2	ENSG00000171914	ENST00000467297	retained_intron	KNOWN	None	15447	None	None	63055425	63058558	1	None	KIAA0320, ILWEQ
15	TLN2	ENSG00000171914	ENST00000559174	retained_intron	KNOWN	None	15447	None	None	63127844	63132789	1	None	KIAA0320, ILWEQ
15	TLN2	ENSG00000171914	ENST00000306829	protein_coding	KNOWN	CCDS32261	15447	7629	2542	62939510	63136830	1	None	KIAA0320, ILWEQ
11	None	ENSG00000180913	ENST00000316517	protein_coding	NOVEL	None	None	867	288	6149840	6150706	1	None	None
9	None	ENSG00000264237	ENST00000583657	miRNA	NOVEL	None	None	None	None	127112735	127112810	-1	None	None
14	None	ENSG00000258386	ENST00000556949	protein_coding	PUTATIVE	None	None	165	54	32476108	32487891	1	None	None
9	None	ENSG00000231149	ENST00000369027	lincRNA	KNOWN	None	None	None	None	127277217	127278335	-1	None	None
10	None	ENSG00000226426	ENST00000451946	lincRNA	KNOWN	None	None	None	None	65796105	65797040	-1	None	None
11	None	ENSG00000180909	ENST00000316506	protein_coding	NOVEL	None	None	813	270	6173006	6173818	-1	None	None
9	None	ENSG00000226327	ENST00000445182	processed_pseudogene	KNOWN	None	None	None	None	90939369	90940254	1	None	None
10	DBF4P1	ENSG00000235489	ENST00000412976	processed_pseudogene	KNOWN	None	45059	None	None	65928720	65930611	-1	None	None
10	DBF4P1	ENSG00000235489	ENST00000542414	processed_pseudogene	KNOWN	None	45059	None	None	65928715	65929452	-1	None	None
10	DBF4P1	ENSG00000235489	ENST00000599100	processed_pseudogene	KNOWN	None	45059	None	None	65929796	65930611	-1	None	None
9	None	ENSG00000252299	ENST00000516490	snoRNA	NOVEL	None	None	None	None	90989184	90989274	1	None	None
9	HNRNPA1P14	ENSG00000227638	ENST00000440352	processed_pseudogene	KNOWN	None	39132	None	None	91025444	91026378	-1	None	None
10	ECHS1	ENSG00000127884	ENST00000368547	protein_coding	KNOWN	CCDS7681	3151	873	290	135175984	135187193	-1	None	SCEH
10	None	ENSG00000233900	ENST00000432217	processed_pseudogene	KNOWN	None	None	None	None	66380131	66380679	-1	None	None
9	None	ENSG00000231804	ENST00000440753	processed_pseudogene	KNOWN	None	None	None	None	91099767	91100240	-1	None	None
16	ORAI3	ENSG00000175938	ENST00000318663	protein_coding	KNOWN	CCDS10697	28185	888	295	30960387	30966259	1	TMEM142C	MGC13024
16	ORAI3	ENSG00000175938	ENST00000563161	nonsense_mediated_decay	KNOWN	None	28185	297	98	30960402	30964869	1	TMEM142C	MGC13024
16	ORAI3	ENSG00000175938	ENST00000566237	protein_coding	NOVEL	None	28185	843	280	30960444	30965827	1	TMEM142C	MGC13024
16	ORAI3	ENSG00000175938	ENST00000562699	protein_coding	NOVEL	None	28185	234	77	30960473	30967782	1	TMEM142C	MGC13024
17	TMEM92	ENSG00000167105	ENST00000300433	protein_coding	KNOWN	CCDS11562	26579	480	159	48348767	48358844	1	None	FLJ33318
17	TMEM92	ENSG00000167105	ENST00000507382	protein_coding	KNOWN	CCDS11562	26579	480	159	48351788	48356687	1	None	FLJ33318
17	TMEM92	ENSG00000167105	ENST00000511882	processed_transcript	KNOWN	None	26579	None	None	48352240	48356477	1	None	FLJ33318
10	None	ENSG00000270648	ENST00000604072	processed_pseudogene	KNOWN	None	None	None	None	66522640	66522929	-1	None	None
9	None	ENSG00000228189	ENST00000418343	lincRNA	KNOWN	None	None	None	None	91242104	91267051	-1	None	None
9	None	ENSG00000228189	ENST00000544644	lincRNA	KNOWN	None	None	None	None	91262094	91267075	-1	None	None
10	ANXA2P3	ENSG00000216740	ENST00000404883	processed_pseudogene	KNOWN	None	540	None	None	66585329	66586336	1	ANX2P3, ANX2L3, LPC2C	LIP2
10	None	ENSG00000224714	ENST00000425902	lincRNA	KNOWN	None	None	None	None	66660894	66684276	-1	None	None
9	None	ENSG00000231744	ENST00000440419	processed_pseudogene	KNOWN	None	None	None	None	127360986	127361859	-1	None	None
19	None	ENSG00000269237	ENST00000600810	nonsense_mediated_decay	KNOWN	None	None	279	92	21587961	21674068	1	None	None
11	OR52B2	ENSG00000255307	ENST00000530810	protein_coding	KNOWN	CCDS53598	15207	972	323	6190560	6191638	-1	None	None
10	NEK4P3	ENSG00000270754	ENST00000604859	processed_pseudogene	KNOWN	None	39651	None	None	66814218	66814761	1	None	None
9	RN7SL302P	ENSG00000241246	ENST00000475999	misc_RNA	KNOWN	None	46318	None	None	127369438	127369735	1	None	None
9	MIR181A2HG	ENSG00000224020	ENST00000429139	antisense	KNOWN	None	37188	None	None	127420746	127460910	1	None	None
11	OR52W1	ENSG00000175485	ENST00000311352	protein_coding	KNOWN	CCDS31407	15239	963	320	6220376	6221489	1	OR52W1P	None
17	OVCA2	ENSG00000262664	ENST00000572195	protein_coding	KNOWN	CCDS11015	24203	684	227	1945327	1946724	1	None	None
X	SH2D1A	ENSG00000183918	ENST00000371139	protein_coding	KNOWN	CCDS14608	10820	387	128	123480194	123507005	1	IMD5, LYP	XLP, MTCP1, DSHP, XLPD, EBVS, SAP
X	SH2D1A	ENSG00000183918	ENST00000360027	protein_coding	KNOWN	CCDS48162	10820	378	125	123480375	123505338	1	IMD5, LYP	XLP, MTCP1, DSHP, XLPD, EBVS, SAP
X	SH2D1A	ENSG00000183918	ENST00000470647	processed_transcript	KNOWN	None	10820	None	None	123480407	123505570	1	IMD5, LYP	XLP, MTCP1, DSHP, XLPD, EBVS, SAP
X	SH2D1A	ENSG00000183918	ENST00000491950	processed_transcript	KNOWN	None	10820	None	None	123480439	123505338	1	IMD5, LYP	XLP, MTCP1, DSHP, XLPD, EBVS, SAP
X	SH2D1A	ENSG00000183918	ENST00000494073	processed_transcript	KNOWN	None	10820	None	None	123480439	123505338	1	IMD5, LYP	XLP, MTCP1, DSHP, XLPD, EBVS, SAP
X	SH2D1A	ENSG00000183918	ENST00000477673	processed_transcript	KNOWN	None	10820	None	None	123480439	123505338	1	IMD5, LYP	XLP, MTCP1, DSHP, XLPD, EBVS, SAP
11	C11orf42	ENSG00000180878	ENST00000316375	protein_coding	KNOWN	CCDS7759	28541	1002	333	6226796	6232362	1	None	MGC34805
HSCHR6_MHC_QBL	GTF2H4	ENSG00000221974	ENST00000376326	protein_coding	KNOWN	None	4658	1389	462	30865549	30871471	1	None	TFB2, TFIIH, P52
HSCHR6_MHC_QBL	GTF2H4	ENSG00000221974	ENST00000400450	protein_coding	KNOWN	None	4658	1389	462	30865586	30871471	1	None	TFB2, TFIIH, P52
HSCHR6_MHC_QBL	GTF2H4	ENSG00000221974	ENST00000423849	protein_coding	KNOWN	None	4658	414	137	30865588	30867999	1	None	TFB2, TFIIH, P52
HSCHR6_MHC_QBL	GTF2H4	ENSG00000221974	ENST00000459745	retained_intron	KNOWN	None	4658	None	None	30866807	30869758	1	None	TFB2, TFIIH, P52
HSCHR6_MHC_QBL	GTF2H4	ENSG00000221974	ENST00000473009	retained_intron	KNOWN	None	4658	None	None	30869316	30871471	1	None	TFB2, TFIIH, P52
HSCHR6_MHC_QBL	GTF2H4	ENSG00000221974	ENST00000469650	retained_intron	KNOWN	None	4658	None	None	30869588	30871471	1	None	TFB2, TFIIH, P52
19	DENND1C	ENSG00000205744	ENST00000590444	retained_intron	KNOWN	None	26225	None	None	6467218	6476257	-1	FAM31C	FLJ22757
19	DENND1C	ENSG00000205744	ENST00000381480	protein_coding	KNOWN	CCDS45938	26225	2406	801	6467218	6481819	-1	FAM31C	FLJ22757
19	DENND1C	ENSG00000205744	ENST00000590818	retained_intron	KNOWN	None	26225	None	None	6467219	6476226	-1	FAM31C	FLJ22757
19	DENND1C	ENSG00000205744	ENST00000590867	nonsense_mediated_decay	KNOWN	None	26225	648	215	6467221	6480300	-1	FAM31C	FLJ22757
19	DENND1C	ENSG00000205744	ENST00000543576	protein_coding	KNOWN	None	26225	2274	757	6467509	6481798	-1	FAM31C	FLJ22757
19	DENND1C	ENSG00000205744	ENST00000591795	retained_intron	KNOWN	None	26225	None	None	6467961	6469662	-1	FAM31C	FLJ22757
19	DENND1C	ENSG00000205744	ENST00000588988	retained_intron	KNOWN	None	26225	None	None	6476039	6478811	-1	FAM31C	FLJ22757
19	DENND1C	ENSG00000205744	ENST00000592543	retained_intron	KNOWN	None	26225	None	None	6476505	6481785	-1	FAM31C	FLJ22757
19	DENND1C	ENSG00000205744	ENST00000589491	retained_intron	KNOWN	None	26225	None	None	6476862	6477599	-1	FAM31C	FLJ22757
19	DENND1C	ENSG00000205744	ENST00000590173	protein_coding	KNOWN	None	26225	423	140	6477097	6481798	-1	FAM31C	FLJ22757
19	DENND1C	ENSG00000205744	ENST00000586046	nonsense_mediated_decay	KNOWN	None	26225	273	90	6477104	6481809	-1	FAM31C	FLJ22757
19	DENND1C	ENSG00000205744	ENST00000591030	processed_transcript	KNOWN	None	26225	None	None	6477123	6481809	-1	FAM31C	FLJ22757
19	DENND1C	ENSG00000205744	ENST00000590473	protein_coding	KNOWN	None	26225	381	126	6477229	6482568	-1	FAM31C	FLJ22757
19	DENND1C	ENSG00000205744	ENST00000588421	protein_coding	KNOWN	None	26225	265	87	6477439	6481764	-1	FAM31C	FLJ22757
9	NSMF	ENSG00000165802	ENST00000339554	protein_coding	KNOWN	None	29843	984	327	140342022	140351989	-1	NELF	None
9	NSMF	ENSG00000165802	ENST00000371482	protein_coding	KNOWN	None	29843	585	194	140342677	140349108	-1	NELF	None
9	NSMF	ENSG00000165802	ENST00000371472	protein_coding	PUTATIVE	CCDS7044	29843	1587	528	140342677	140353754	-1	NELF	None
9	NSMF	ENSG00000165802	ENST00000484316	processed_transcript	KNOWN	None	29843	None	None	140344059	140348884	-1	NELF	None
9	NSMF	ENSG00000165802	ENST00000482448	processed_transcript	KNOWN	None	29843	None	None	140344387	140347623	-1	NELF	None
9	NSMF	ENSG00000165802	ENST00000371468	protein_coding	KNOWN	None	29843	438	145	140346917	140348944	-1	NELF	None
9	NSMF	ENSG00000165802	ENST00000371475	protein_coding	KNOWN	CCDS48069	29843	1593	530	140342025	140353786	-1	NELF	None
9	NSMF	ENSG00000165802	ENST00000265663	protein_coding	KNOWN	CCDS7044	29843	1587	528	140342025	140353786	-1	NELF	None
9	NSMF	ENSG00000165802	ENST00000437259	protein_coding	KNOWN	CCDS48068	29843	1524	507	140342025	140353786	-1	NELF	None
9	NSMF	ENSG00000165802	ENST00000392812	protein_coding	KNOWN	None	29843	1524	507	140342025	140353786	-1	NELF	None
9	NSMF	ENSG00000165802	ENST00000371474	protein_coding	KNOWN	CCDS48067	29843	1518	505	140342025	140353786	-1	NELF	None
9	NSMF	ENSG00000165802	ENST00000371473	protein_coding	KNOWN	CCDS55357	29843	1503	500	140342025	140353786	-1	NELF	None
9	NSMF	ENSG00000165802	ENST00000541195	protein_coding	KNOWN	None	29843	984	327	140343309	140349161	-1	NELF	None
5	CD14	ENSG00000170458	ENST00000302014	protein_coding	KNOWN	CCDS4232	1628	1128	375	140011313	140013286	-1	None	None
5	CD14	ENSG00000170458	ENST00000498971	protein_coding	PUTATIVE	None	1628	640	212	140011929	140013236	-1	None	None
5	CD14	ENSG00000170458	ENST00000519715	protein_coding	PUTATIVE	None	1628	243	80	140012326	140013257	-1	None	None
5	CD14	ENSG00000170458	ENST00000512545	protein_coding	PUTATIVE	None	1628	165	54	140012404	140013285	-1	None	None
5	CD14	ENSG00000170458	ENST00000401743	protein_coding	KNOWN	CCDS4232	1628	1128	375	140011313	140013286	-1	None	None
18	RNMT	ENSG00000101654	ENST00000543302	protein_coding	KNOWN	CCDS11867	10075	1431	476	13726659	13760284	1	None	RG7MT1
18	RNMT	ENSG00000101654	ENST00000383314	protein_coding	KNOWN	CCDS11867	10075	1431	476	13726660	13764557	1	None	RG7MT1
18	RNMT	ENSG00000101654	ENST00000588457	nonsense_mediated_decay	KNOWN	None	10075	897	298	13726666	13762343	1	None	RG7MT1
18	RNMT	ENSG00000101654	ENST00000592764	protein_coding	PUTATIVE	None	10075	1515	504	13726703	13764555	1	None	RG7MT1
18	RNMT	ENSG00000101654	ENST00000591746	protein_coding	KNOWN	None	10075	304	100	13726768	13731820	1	None	RG7MT1
18	RNMT	ENSG00000101654	ENST00000589866	protein_coding	KNOWN	CCDS11867	10075	1431	476	13730437	13760066	1	None	RG7MT1
18	RNMT	ENSG00000101654	ENST00000588417	retained_intron	KNOWN	None	10075	None	None	13741619	13743073	1	None	RG7MT1
18	RNMT	ENSG00000101654	ENST00000593007	protein_coding	PUTATIVE	None	10075	344	113	13746272	13762626	1	None	RG7MT1
18	RNMT	ENSG00000101654	ENST00000591922	processed_transcript	PUTATIVE	None	10075	None	None	13762300	13764554	1	None	RG7MT1
18	RNMT	ENSG00000101654	ENST00000262173	protein_coding	KNOWN	CCDS11867	10075	1431	476	13731473	13764554	1	None	RG7MT1
18	RNMT	ENSG00000101654	ENST00000535051	protein_coding	KNOWN	None	10075	705	234	13726666	13762074	1	None	RG7MT1
11	LRP4	ENSG00000134569	ENST00000378623	protein_coding	KNOWN	CCDS31478	6696	5718	1905	46878419	46940173	-1	None	MEGF7, CLSS, LRP-4, SOST2
11	LRP4	ENSG00000134569	ENST00000529604	retained_intron	KNOWN	None	6696	None	None	46878421	46884484	-1	None	MEGF7, CLSS, LRP-4, SOST2
11	LRP4	ENSG00000134569	ENST00000527656	retained_intron	KNOWN	None	6696	None	None	46893076	46895305	-1	None	MEGF7, CLSS, LRP-4, SOST2
11	LRP4	ENSG00000134569	ENST00000529921	retained_intron	KNOWN	None	6696	None	None	46905475	46911238	-1	None	MEGF7, CLSS, LRP-4, SOST2
11	LRP4	ENSG00000134569	ENST00000534404	protein_coding	PUTATIVE	None	6696	400	132	46920938	46940193	-1	None	MEGF7, CLSS, LRP-4, SOST2
9	MIR181A2	ENSG00000207595	ENST00000384863	miRNA	KNOWN	None	31549	None	None	127454721	127454830	1	MIRN181A, MIRN181A2	hsa-mir-181a
14	ARHGAP5	ENSG00000100852	ENST00000555814	protein_coding	KNOWN	None	675	111	36	32545320	32559986	1	GFI2	RhoGAP5, p190-B, p190BRhoGAP
14	ARHGAP5	ENSG00000100852	ENST00000556611	protein_coding	KNOWN	CCDS45095	675	4506	1501	32546173	32624217	1	GFI2	RhoGAP5, p190-B, p190BRhoGAP
14	ARHGAP5	ENSG00000100852	ENST00000539826	protein_coding	KNOWN	CCDS32062	675	4509	1502	32546191	32624289	1	GFI2	RhoGAP5, p190-B, p190BRhoGAP
14	ARHGAP5	ENSG00000100852	ENST00000396582	protein_coding	KNOWN	None	675	714	237	32546280	32627454	1	GFI2	RhoGAP5, p190-B, p190BRhoGAP
14	ARHGAP5	ENSG00000100852	ENST00000433497	protein_coding	KNOWN	None	675	726	241	32546515	32626285	1	GFI2	RhoGAP5, p190-B, p190BRhoGAP
14	ARHGAP5	ENSG00000100852	ENST00000556191	protein_coding	KNOWN	None	675	420	139	32547437	32560295	1	GFI2	RhoGAP5, p190-B, p190BRhoGAP
14	ARHGAP5	ENSG00000100852	ENST00000554090	protein_coding	KNOWN	None	675	411	136	32547437	32623839	1	GFI2	RhoGAP5, p190-B, p190BRhoGAP
14	ARHGAP5	ENSG00000100852	ENST00000557643	nonsense_mediated_decay	KNOWN	None	675	445	147	32563244	32624033	1	GFI2	RhoGAP5, p190-B, p190BRhoGAP
14	ARHGAP5	ENSG00000100852	ENST00000216743	retained_intron	KNOWN	None	675	None	None	32623216	32626422	1	GFI2	RhoGAP5, p190-B, p190BRhoGAP
14	ARHGAP5	ENSG00000100852	ENST00000345122	protein_coding	KNOWN	CCDS32062	675	4509	1502	32546495	32628934	1	GFI2	RhoGAP5, p190-B, p190BRhoGAP
14	ARHGAP5	ENSG00000100852	ENST00000432921	protein_coding	KNOWN	CCDS45095	675	4506	1501	32546495	32628934	1	GFI2	RhoGAP5, p190-B, p190BRhoGAP
17	CDK12	ENSG00000167258	ENST00000584632	protein_coding	NOVEL	None	24224	3604	1200	37617764	37682416	1	CRKRS	CRK7, CRKR, KIAA0904
17	CDK12	ENSG00000167258	ENST00000430627	protein_coding	KNOWN	CCDS45666	24224	4446	1481	37618014	37688730	1	CRKRS	CRK7, CRKR, KIAA0904
17	CDK12	ENSG00000167258	ENST00000447079	protein_coding	KNOWN	CCDS11337	24224	4473	1490	37618292	37691399	1	CRKRS	CRK7, CRKR, KIAA0904
17	CDK12	ENSG00000167258	ENST00000581593	processed_transcript	KNOWN	None	24224	None	None	37627767	37650945	1	CRKRS	CRK7, CRKR, KIAA0904
17	CDK12	ENSG00000167258	ENST00000559663	nonsense_mediated_decay	KNOWN	None	24224	479	158	37682120	37707394	1	CRKRS	CRK7, CRKR, KIAA0904
17	CDK12	ENSG00000167258	ENST00000584336	retained_intron	KNOWN	None	24224	None	None	37686135	37688097	1	CRKRS	CRK7, CRKR, KIAA0904
17	CDK12	ENSG00000167258	ENST00000581963	retained_intron	KNOWN	None	24224	None	None	37700244	37702935	1	CRKRS	CRK7, CRKR, KIAA0904
17	CDK12	ENSG00000167258	ENST00000559545	processed_transcript	KNOWN	None	24224	None	None	37704074	37721160	1	CRKRS	CRK7, CRKR, KIAA0904
17	CDK12	ENSG00000167258	ENST00000585161	retained_intron	KNOWN	None	24224	None	None	37705194	37707229	1	CRKRS	CRK7, CRKR, KIAA0904
17	CDK12	ENSG00000167258	ENST00000558240	processed_transcript	KNOWN	None	24224	None	None	37706444	37721083	1	CRKRS	CRK7, CRKR, KIAA0904
17	XYLT2	ENSG00000015532	ENST00000017003	protein_coding	KNOWN	CCDS11563	15517	2598	865	48423453	48438512	1	None	XT-II, PXYLT2
17	XYLT2	ENSG00000015532	ENST00000509778	protein_coding	NOVEL	None	15517	135	44	48423492	48431035	1	None	XT-II, PXYLT2
17	XYLT2	ENSG00000015532	ENST00000507602	protein_coding	PUTATIVE	None	15517	2031	676	48423496	48440499	1	None	XT-II, PXYLT2
17	XYLT2	ENSG00000015532	ENST00000376550	nonsense_mediated_decay	KNOWN	None	15517	1920	639	48423497	48438512	1	None	XT-II, PXYLT2
17	XYLT2	ENSG00000015532	ENST00000511654	nonsense_mediated_decay	KNOWN	None	15517	354	117	48433545	48435678	1	None	XT-II, PXYLT2
17	XYLT2	ENSG00000015532	ENST00000574840	protein_coding	PUTATIVE	None	15517	141	46	48434527	48435427	1	None	XT-II, PXYLT2
17	XYLT2	ENSG00000015532	ENST00000571021	retained_intron	KNOWN	None	15517	None	None	48436339	48438512	1	None	XT-II, PXYLT2
14	ACOT1	ENSG00000184227	ENST00000311148	protein_coding	KNOWN	CCDS32117	33128	1266	421	74003818	74010498	1	None	ACH2, CTE-1, LACH2
14	ACOT1	ENSG00000184227	ENST00000557556	protein_coding	PUTATIVE	None	33128	1188	395	74004098	74010414	1	None	ACH2, CTE-1, LACH2
17	SEC14L1	ENSG00000129657	ENST00000568056	processed_transcript	KNOWN	None	10698	None	None	75082798	75095256	1	SEC14L	PRELID4A
17	SEC14L1	ENSG00000129657	ENST00000564414	processed_transcript	KNOWN	None	10698	None	None	75082798	75095256	1	SEC14L	PRELID4A
17	SEC14L1	ENSG00000129657	ENST00000564509	processed_transcript	KNOWN	None	10698	None	None	75084831	75095278	1	SEC14L	PRELID4A
17	SEC14L1	ENSG00000129657	ENST00000561633	processed_transcript	KNOWN	None	10698	None	None	75084831	75095278	1	SEC14L	PRELID4A
17	SEC14L1	ENSG00000129657	ENST00000561721	protein_coding	KNOWN	None	10698	42	13	75084831	75139720	1	SEC14L	PRELID4A
17	SEC14L1	ENSG00000129657	ENST00000589827	protein_coding	KNOWN	None	10698	1336	444	75084831	75202477	1	SEC14L	PRELID4A
17	SEC14L1	ENSG00000129657	ENST00000392476	protein_coding	KNOWN	CCDS42385	10698	2160	719	75084831	75212884	1	SEC14L	PRELID4A
17	SEC14L1	ENSG00000129657	ENST00000569632	processed_transcript	KNOWN	None	10698	None	None	75084859	75095256	1	SEC14L	PRELID4A
17	SEC14L1	ENSG00000129657	ENST00000430767	protein_coding	KNOWN	CCDS11752	10698	2148	715	75085237	75212884	1	SEC14L	PRELID4A
17	SEC14L1	ENSG00000129657	ENST00000586429	protein_coding	KNOWN	None	10698	213	70	75123955	75187034	1	SEC14L	PRELID4A
17	SEC14L1	ENSG00000129657	ENST00000586390	processed_transcript	KNOWN	None	10698	None	None	75126176	75187389	1	SEC14L	PRELID4A
17	SEC14L1	ENSG00000129657	ENST00000588880	protein_coding	KNOWN	None	10698	46	14	75136818	75139724	1	SEC14L	PRELID4A
17	SEC14L1	ENSG00000129657	ENST00000585618	protein_coding	KNOWN	CCDS11752	10698	2148	715	75137014	75210411	1	SEC14L	PRELID4A
17	SEC14L1	ENSG00000129657	ENST00000436233	protein_coding	KNOWN	CCDS11752	10698	2148	715	75137061	75212988	1	SEC14L	PRELID4A
17	SEC14L1	ENSG00000129657	ENST00000443798	protein_coding	KNOWN	CCDS42385	10698	2160	719	75137114	75213175	1	SEC14L	PRELID4A
17	SEC14L1	ENSG00000129657	ENST00000588696	retained_intron	KNOWN	None	10698	None	None	75137152	75139942	1	SEC14L	PRELID4A
17	SEC14L1	ENSG00000129657	ENST00000587820	protein_coding	NOVEL	None	10698	181	59	75137468	75187002	1	SEC14L	PRELID4A
17	SEC14L1	ENSG00000129657	ENST00000591786	nonsense_mediated_decay	KNOWN	None	10698	252	83	75139679	75190839	1	SEC14L	PRELID4A
17	SEC14L1	ENSG00000129657	ENST00000591437	protein_coding	KNOWN	CCDS45789	10698	2046	681	75140728	75210442	1	SEC14L	PRELID4A
17	SEC14L1	ENSG00000129657	ENST00000588616	protein_coding	KNOWN	None	10698	429	142	75177119	75190815	1	SEC14L	PRELID4A
17	SEC14L1	ENSG00000129657	ENST00000431431	protein_coding	KNOWN	CCDS45789	10698	2046	681	75181295	75210353	1	SEC14L	PRELID4A
17	SEC14L1	ENSG00000129657	ENST00000590483	protein_coding	PUTATIVE	None	10698	270	89	75186885	75189631	1	SEC14L	PRELID4A
17	SEC14L1	ENSG00000129657	ENST00000589202	protein_coding	NOVEL	None	10698	471	156	75189503	75191113	1	SEC14L	PRELID4A
17	SEC14L1	ENSG00000129657	ENST00000587821	retained_intron	KNOWN	None	10698	None	None	75201289	75202944	1	SEC14L	PRELID4A
17	SEC14L1	ENSG00000129657	ENST00000588488	protein_coding	PUTATIVE	None	10698	357	118	75202897	75210442	1	SEC14L	PRELID4A
17	SEC14L1	ENSG00000129657	ENST00000587491	retained_intron	KNOWN	None	10698	None	None	75205943	75210413	1	SEC14L	PRELID4A
17	SEC14L1	ENSG00000129657	ENST00000591413	retained_intron	KNOWN	None	10698	None	None	75207819	75209848	1	SEC14L	PRELID4A
17	SEC14L1	ENSG00000129657	ENST00000588721	processed_transcript	KNOWN	None	10698	None	None	75208797	75210429	1	SEC14L	PRELID4A
17	SEC14L1	ENSG00000129657	ENST00000413679	protein_coding	KNOWN	CCDS11752	10698	2148	715	75137022	75213179	1	SEC14L	PRELID4A
7	RPL7P31	ENSG00000235379	ENST00000450192	processed_pseudogene	KNOWN	None	36988	None	None	34750369	34751092	1	None	None
11	GTF2H1	ENSG00000110768	ENST00000453096	protein_coding	KNOWN	CCDS7838	4655	1647	548	18343842	18387808	1	None	BTF2, P62, TFIIH
11	GTF2H1	ENSG00000110768	ENST00000531757	processed_transcript	KNOWN	None	4655	None	None	18344094	18357451	1	None	BTF2, P62, TFIIH
11	GTF2H1	ENSG00000110768	ENST00000418116	retained_intron	KNOWN	None	4655	None	None	18344104	18382317	1	None	BTF2, P62, TFIIH
11	GTF2H1	ENSG00000110768	ENST00000534213	processed_transcript	KNOWN	None	4655	None	None	18344114	18354730	1	None	BTF2, P62, TFIIH
11	GTF2H1	ENSG00000110768	ENST00000534641	protein_coding	PUTATIVE	None	4655	1299	432	18344114	18388360	1	None	BTF2, P62, TFIIH
11	GTF2H1	ENSG00000110768	ENST00000526461	retained_intron	KNOWN	None	4655	None	None	18344115	18355001	1	None	BTF2, P62, TFIIH
11	GTF2H1	ENSG00000110768	ENST00000525831	protein_coding	KNOWN	None	4655	285	94	18344116	18357431	1	None	BTF2, P62, TFIIH
11	GTF2H1	ENSG00000110768	ENST00000532227	retained_intron	KNOWN	None	4655	None	None	18344129	18355156	1	None	BTF2, P62, TFIIH
11	GTF2H1	ENSG00000110768	ENST00000265963	protein_coding	KNOWN	CCDS7838	4655	1647	548	18344143	18388591	1	None	BTF2, P62, TFIIH
11	GTF2H1	ENSG00000110768	ENST00000543932	retained_intron	KNOWN	None	4655	None	None	18354209	18363155	1	None	BTF2, P62, TFIIH
11	GTF2H1	ENSG00000110768	ENST00000524753	protein_coding	PUTATIVE	None	4655	546	181	18359764	18370378	1	None	BTF2, P62, TFIIH
11	GTF2H1	ENSG00000110768	ENST00000607664	retained_intron	KNOWN	None	4655	None	None	18362956	18363505	1	None	BTF2, P62, TFIIH
11	GTF2H1	ENSG00000110768	ENST00000530496	protein_coding	PUTATIVE	None	4655	711	236	18368651	18387822	1	None	BTF2, P62, TFIIH
11	GTF2H1	ENSG00000110768	ENST00000526630	protein_coding	PUTATIVE	None	4655	417	138	18373119	18387445	1	None	BTF2, P62, TFIIH
11	GTF2H1	ENSG00000110768	ENST00000528427	retained_intron	KNOWN	None	4655	None	None	18373565	18379649	1	None	BTF2, P62, TFIIH
11	GTF2H1	ENSG00000110768	ENST00000526282	retained_intron	KNOWN	None	4655	None	None	18373645	18380189	1	None	BTF2, P62, TFIIH
11	FAM160A2	ENSG00000051009	ENST00000449352	protein_coding	KNOWN	CCDS44530	25378	2919	972	6232565	6255846	-1	C11orf56	FLJ22665, KIAA1759, DKFZP566M1046
11	FAM160A2	ENSG00000051009	ENST00000529360	processed_transcript	PUTATIVE	None	25378	None	None	6232575	6236585	-1	C11orf56	FLJ22665, KIAA1759, DKFZP566M1046
11	FAM160A2	ENSG00000051009	ENST00000265978	protein_coding	KNOWN	CCDS7760	25378	2961	986	6232575	6255941	-1	C11orf56	FLJ22665, KIAA1759, DKFZP566M1046
11	FAM160A2	ENSG00000051009	ENST00000524416	protein_coding	NOVEL	None	25378	2517	838	6237800	6255893	-1	C11orf56	FLJ22665, KIAA1759, DKFZP566M1046
11	FAM160A2	ENSG00000051009	ENST00000532797	processed_transcript	PUTATIVE	None	25378	None	None	6239035	6239971	-1	C11orf56	FLJ22665, KIAA1759, DKFZP566M1046
1	PTPN22	ENSG00000134242	ENST00000460620	protein_coding	PUTATIVE	None	9652	540	179	114356433	114414334	-1	PTPN8	Lyp, Lyp1, Lyp2
1	PTPN22	ENSG00000134242	ENST00000359785	protein_coding	KNOWN	CCDS863	9652	2424	807	114356433	114414381	-1	PTPN8	Lyp, Lyp1, Lyp2
1	PTPN22	ENSG00000134242	ENST00000528414	protein_coding	NOVEL	CCDS864	9652	2259	752	114356437	114414320	-1	PTPN8	Lyp, Lyp1, Lyp2
1	PTPN22	ENSG00000134242	ENST00000469077	retained_intron	KNOWN	None	9652	None	None	114357286	114362454	-1	PTPN8	Lyp, Lyp1, Lyp2
1	PTPN22	ENSG00000134242	ENST00000532224	nonsense_mediated_decay	KNOWN	None	9652	408	135	114357301	114414330	-1	PTPN8	Lyp, Lyp1, Lyp2
1	PTPN22	ENSG00000134242	ENST00000420377	protein_coding	PUTATIVE	None	9652	2388	795	114361921	114414334	-1	PTPN8	Lyp, Lyp1, Lyp2
1	PTPN22	ENSG00000134242	ENST00000525799	protein_coding	PUTATIVE	None	9652	2007	668	114362148	114414334	-1	PTPN8	Lyp, Lyp1, Lyp2
1	PTPN22	ENSG00000134242	ENST00000484147	retained_intron	KNOWN	None	9652	None	None	114375569	114414286	-1	PTPN8	Lyp, Lyp1, Lyp2
1	PTPN22	ENSG00000134242	ENST00000534519	processed_transcript	KNOWN	None	9652	None	None	114399405	114414358	-1	PTPN8	Lyp, Lyp1, Lyp2
1	PTPN22	ENSG00000134242	ENST00000529045	nonsense_mediated_decay	KNOWN	None	9652	279	92	114401685	114414375	-1	PTPN8	Lyp, Lyp1, Lyp2
1	PTPN22	ENSG00000134242	ENST00000538253	protein_coding	KNOWN	None	9652	1692	563	114357301	114414323	-1	PTPN8	Lyp, Lyp1, Lyp2
14	ACOT2	ENSG00000119673	ENST00000538782	protein_coding	PUTATIVE	None	18431	861	286	74034324	74042357	1	None	Mte1, ZAP128
14	ACOT2	ENSG00000119673	ENST00000238651	protein_coding	KNOWN	CCDS9816	18431	1452	483	74035763	74042357	1	None	Mte1, ZAP128
14	ACOT2	ENSG00000119673	ENST00000557857	processed_transcript	KNOWN	None	18431	None	None	74041008	74041905	1	None	Mte1, ZAP128
HSCHR6_MHC_SSTO	HLA-P	ENSG00000260221	ENST00000414067	unprocessed_pseudogene	KNOWN	None	21196	None	None	29764890	29766920	1	C6orf101, HLA-90	dJ377H14.3
HSCHR6_MHC_SSTO	RPL7AP7	ENSG00000227326	ENST00000437448	processed_pseudogene	KNOWN	None	21395	None	None	29767670	29768466	-1	None	RPL7B, dJ377H14.2
7	MIOS	ENSG00000164654	ENST00000340080	protein_coding	KNOWN	CCDS43554	21905	2628	875	7606503	7647127	1	None	FLJ20323
7	MIOS	ENSG00000164654	ENST00000405785	protein_coding	KNOWN	CCDS43554	21905	2628	875	7606506	7646854	1	None	FLJ20323
7	MIOS	ENSG00000164654	ENST00000433635	protein_coding	KNOWN	None	21905	450	149	7606592	7612556	1	None	FLJ20323
7	MIOS	ENSG00000164654	ENST00000456533	protein_coding	KNOWN	None	21905	538	178	7606619	7612644	1	None	FLJ20323
7	MIOS	ENSG00000164654	ENST00000433056	protein_coding	KNOWN	None	21905	192	63	7606684	7612298	1	None	FLJ20323
7	MIOS	ENSG00000164654	ENST00000445169	protein_coding	KNOWN	None	21905	192	63	7607114	7612298	1	None	FLJ20323
7	MIOS	ENSG00000164654	ENST00000461907	processed_transcript	KNOWN	None	21905	None	None	7621360	7623003	1	None	FLJ20323
7	MIOS	ENSG00000164654	ENST00000493227	retained_intron	KNOWN	None	21905	None	None	7622585	7648556	1	None	FLJ20323
7	MIOS	ENSG00000164654	ENST00000479694	retained_intron	KNOWN	None	21905	None	None	7644749	7648560	1	None	FLJ20323
HSCHR6_MHC_SSTO	MICG	ENSG00000229499	ENST00000437209	unprocessed_pseudogene	KNOWN	None	16802	None	None	29777040	29777171	-1	None	None
HSCHR6_MHC_SSTO	HCG4P8	ENSG00000230504	ENST00000440795	unprocessed_pseudogene	KNOWN	None	22927	None	None	29791856	29792836	-1	None	HCGIV-08, HCGIV.7, HCGIV-8
X	TSR2	ENSG00000158526	ENST00000375151	protein_coding	KNOWN	CCDS14358	25455	576	191	54466834	54471920	1	None	DT1P1A10, RP1-112K5.2, WGG1
HSCHR6_MHC_SSTO	MICF	ENSG00000236642	ENST00000453644	unprocessed_pseudogene	KNOWN	None	16801	None	None	29816325	29816469	-1	None	None
HSCHR6_MHC_SSTO	HCG4P7	ENSG00000226736	ENST00000415450	unprocessed_pseudogene	KNOWN	None	22926	None	None	29845570	29846532	-1	None	HCGIV-07, HCGIV.C, HCGIV-7
Y	CDY1	ENSG00000172288	ENST00000306609	protein_coding	KNOWN	CCDS14801	1809	1665	554	27768309	27771049	1	None	CDY1A
Y	CDY1	ENSG00000172288	ENST00000361963	protein_coding	KNOWN	CCDS14802	1809	1623	540	27768264	27770483	1	None	CDY1A
14	PAPOLA	ENSG00000090060	ENST00000554887	processed_transcript	KNOWN	None	14981	None	None	96967770	96993833	1	None	PAP
14	PAPOLA	ENSG00000090060	ENST00000216277	protein_coding	KNOWN	CCDS9946	14981	2238	745	96968710	97033448	1	None	PAP
14	PAPOLA	ENSG00000090060	ENST00000553357	nonsense_mediated_decay	KNOWN	None	14981	221	72	96968719	96998675	1	None	PAP
14	PAPOLA	ENSG00000090060	ENST00000553689	nonsense_mediated_decay	KNOWN	None	14981	336	111	96968735	97031385	1	None	PAP
14	PAPOLA	ENSG00000090060	ENST00000557320	protein_coding	KNOWN	CCDS58334	14981	858	285	96968738	97001222	1	None	PAP
14	PAPOLA	ENSG00000090060	ENST00000554130	processed_transcript	KNOWN	None	14981	None	None	96968749	96998065	1	None	PAP
14	PAPOLA	ENSG00000090060	ENST00000557471	protein_coding	PUTATIVE	CCDS58335	14981	717	238	96968778	96998585	1	None	PAP
14	PAPOLA	ENSG00000090060	ENST00000556619	protein_coding	NOVEL	None	14981	533	176	96968879	96994339	1	None	PAP
14	PAPOLA	ENSG00000090060	ENST00000392990	protein_coding	NOVEL	None	14981	2175	724	96968895	97031765	1	None	PAP
14	PAPOLA	ENSG00000090060	ENST00000555626	protein_coding	PUTATIVE	None	14981	1426	474	96969188	97031325	1	None	PAP
14	PAPOLA	ENSG00000090060	ENST00000556248	processed_transcript	PUTATIVE	None	14981	None	None	96970626	96987409	1	None	PAP
14	PAPOLA	ENSG00000090060	ENST00000557406	retained_intron	KNOWN	None	14981	None	None	96987353	96998068	1	None	PAP
14	PAPOLA	ENSG00000090060	ENST00000555224	retained_intron	KNOWN	None	14981	None	None	96987400	96999033	1	None	PAP
14	PAPOLA	ENSG00000090060	ENST00000555912	retained_intron	KNOWN	None	14981	None	None	96992318	96998062	1	None	PAP
14	PAPOLA	ENSG00000090060	ENST00000553461	protein_coding	PUTATIVE	None	14981	611	202	96993779	97001226	1	None	PAP
14	PAPOLA	ENSG00000090060	ENST00000555131	retained_intron	KNOWN	None	14981	None	None	97000560	97003396	1	None	PAP
14	PAPOLA	ENSG00000090060	ENST00000555021	retained_intron	KNOWN	None	14981	None	None	97001862	97003384	1	None	PAP
14	PAPOLA	ENSG00000090060	ENST00000554666	retained_intron	KNOWN	None	14981	None	None	97003232	97014241	1	None	PAP
14	PAPOLA	ENSG00000090060	ENST00000556787	retained_intron	KNOWN	None	14981	None	None	97008244	97018880	1	None	PAP
14	PAPOLA	ENSG00000090060	ENST00000555701	retained_intron	KNOWN	None	14981	None	None	97008519	97019869	1	None	PAP
14	PAPOLA	ENSG00000090060	ENST00000556283	retained_intron	KNOWN	None	14981	None	None	97009066	97022287	1	None	PAP
14	PAPOLA	ENSG00000090060	ENST00000554135	retained_intron	KNOWN	None	14981	None	None	97014025	97019320	1	None	PAP
14	PAPOLA	ENSG00000090060	ENST00000556459	protein_coding	NOVEL	None	14981	542	179	97014233	97031744	1	None	PAP
14	PAPOLA	ENSG00000090060	ENST00000553940	retained_intron	KNOWN	None	14981	None	None	97026775	97031396	1	None	PAP
14	PAPOLA	ENSG00000090060	ENST00000555508	retained_intron	KNOWN	None	14981	None	None	97028795	97031443	1	None	PAP
8	None	ENSG00000212999	ENST00000391681	protein_coding	NOVEL	None	None	216	71	93895865	93898013	1	None	None
7	None	ENSG00000220575	ENST00000395731	protein_coding	PUTATIVE	None	None	300	99	154858777	154863267	-1	None	None
7	None	ENSG00000220575	ENST00000493904	processed_transcript	KNOWN	None	None	None	None	154862137	154863267	-1	None	None
7	None	ENSG00000220575	ENST00000543018	protein_coding	KNOWN	None	None	453	150	154860253	154863267	-1	None	None
HSCHR6_MHC_SSTO	HLA-H	ENSG00000237218	ENST00000450024	unprocessed_pseudogene	KNOWN	None	4965	None	None	29846028	29848744	1	None	None
7	NCAPD2P1	ENSG00000230356	ENST00000432906	processed_pseudogene	KNOWN	None	43831	None	None	34789865	34791665	-1	None	None
8	C8orf87	ENSG00000254318	ENST00000521906	protein_coding	PUTATIVE	CCDS56545	42974	306	101	94146324	94179079	-1	None	None
8	C8orf87	ENSG00000254318	ENST00000522116	protein_coding	PUTATIVE	None	42974	330	109	94146471	94147664	-1	None	None
Y	None	ENSG00000269393	ENST00000598545	protein_coding	NOVEL	None	None	63	20	28111776	28114889	-1	None	None
12	CLLU1OS	ENSG00000205057	ENST00000378487	protein_coding	KNOWN	CCDS31871	24070	306	101	92813870	92821924	-1	None	None
12	CLLU1OS	ENSG00000205057	ENST00000538965	protein_coding	KNOWN	CCDS31871	24070	306	101	92814786	92821922	-1	None	None
Y	RNU6-1334P	ENSG00000251841	ENST00000516032	snRNA	KNOWN	None	48297	None	None	2652790	2652894	1	None	None
HSCHR6_MHC_DBB	C6orf15	ENSG00000225543	ENST00000427005	protein_coding	KNOWN	None	13927	978	325	31072775	31074111	-1	None	STG
18	ELP2	ENSG00000134759	ENST00000543127	protein_coding	PUTATIVE	None	18248	172	56	33709407	33722274	1	STATIP1	FLJ10879, StIP
18	ELP2	ENSG00000134759	ENST00000358232	protein_coding	KNOWN	CCDS11918	18248	2481	826	33709834	33757909	1	STATIP1	FLJ10879, StIP
18	ELP2	ENSG00000134759	ENST00000544267	nonsense_mediated_decay	KNOWN	None	18248	156	51	33709843	33721154	1	STATIP1	FLJ10879, StIP
18	ELP2	ENSG00000134759	ENST00000351393	protein_coding	KNOWN	CCDS56067	18248	2403	800	33709854	33754611	1	STATIP1	FLJ10879, StIP
18	ELP2	ENSG00000134759	ENST00000541190	retained_intron	KNOWN	None	18248	None	None	33709857	33716595	1	STATIP1	FLJ10879, StIP
18	ELP2	ENSG00000134759	ENST00000545632	nonsense_mediated_decay	KNOWN	None	18248	156	51	33709858	33722820	1	STATIP1	FLJ10879, StIP
18	ELP2	ENSG00000134759	ENST00000442325	protein_coding	NOVEL	CCDS56065	18248	2676	891	33709861	33754614	1	STATIP1	FLJ10879, StIP
18	ELP2	ENSG00000134759	ENST00000423854	protein_coding	NOVEL	CCDS56069	18248	2271	756	33709862	33754683	1	STATIP1	FLJ10879, StIP
18	ELP2	ENSG00000134759	ENST00000539560	nonsense_mediated_decay	KNOWN	None	18248	2118	705	33709864	33754684	1	STATIP1	FLJ10879, StIP
18	ELP2	ENSG00000134759	ENST00000535488	retained_intron	KNOWN	None	18248	None	None	33709865	33718604	1	STATIP1	FLJ10879, StIP
18	ELP2	ENSG00000134759	ENST00000540135	processed_transcript	KNOWN	None	18248	None	None	33709866	33719723	1	STATIP1	FLJ10879, StIP
18	ELP2	ENSG00000134759	ENST00000542430	nonsense_mediated_decay	KNOWN	None	18248	363	120	33709880	33722312	1	STATIP1	FLJ10879, StIP
18	ELP2	ENSG00000134759	ENST00000350494	protein_coding	KNOWN	CCDS56066	18248	2466	821	33709883	33754611	1	STATIP1	FLJ10879, StIP
18	ELP2	ENSG00000134759	ENST00000542824	protein_coding	KNOWN	CCDS56068	18248	2271	756	33709887	33754611	1	STATIP1	FLJ10879, StIP
18	ELP2	ENSG00000134759	ENST00000540799	nonsense_mediated_decay	KNOWN	None	18248	306	101	33709888	33744448	1	STATIP1	FLJ10879, StIP
18	ELP2	ENSG00000134759	ENST00000543439	processed_transcript	KNOWN	None	18248	None	None	33717137	33722910	1	STATIP1	FLJ10879, StIP
18	ELP2	ENSG00000134759	ENST00000540730	processed_transcript	KNOWN	None	18248	None	None	33717147	33722274	1	STATIP1	FLJ10879, StIP
18	ELP2	ENSG00000134759	ENST00000540323	retained_intron	KNOWN	None	18248	None	None	33718058	33722823	1	STATIP1	FLJ10879, StIP
18	ELP2	ENSG00000134759	ENST00000536373	retained_intron	KNOWN	None	18248	None	None	33718770	33725321	1	STATIP1	FLJ10879, StIP
18	ELP2	ENSG00000134759	ENST00000535093	processed_transcript	KNOWN	None	18248	None	None	33721336	33726339	1	STATIP1	FLJ10879, StIP
18	ELP2	ENSG00000134759	ENST00000542050	processed_transcript	KNOWN	None	18248	None	None	33734894	33744630	1	STATIP1	FLJ10879, StIP
18	ELP2	ENSG00000134759	ENST00000543861	processed_transcript	KNOWN	None	18248	None	None	33738466	33744583	1	STATIP1	FLJ10879, StIP
18	ELP2	ENSG00000134759	ENST00000540766	nonsense_mediated_decay	KNOWN	None	18248	144	47	33739721	33754995	1	STATIP1	FLJ10879, StIP
18	ELP2	ENSG00000134759	ENST00000541294	retained_intron	KNOWN	None	18248	None	None	33739920	33745188	1	STATIP1	FLJ10879, StIP
18	ELP2	ENSG00000134759	ENST00000545302	processed_transcript	KNOWN	None	18248	None	None	33746852	33754608	1	STATIP1	FLJ10879, StIP
18	ELP2	ENSG00000134759	ENST00000541748	retained_intron	KNOWN	None	18248	None	None	33746929	33754616	1	STATIP1	FLJ10879, StIP
18	ELP2	ENSG00000134759	ENST00000536830	retained_intron	KNOWN	None	18248	None	None	33749899	33754708	1	STATIP1	FLJ10879, StIP
18	ELP2	ENSG00000134759	ENST00000544274	retained_intron	KNOWN	None	18248	None	None	33750842	33754579	1	STATIP1	FLJ10879, StIP
Y	RNASEH2CP1	ENSG00000237659	ENST00000454281	processed_pseudogene	KNOWN	None	24117	None	None	2657868	2658369	1	None	AYP1p1
7	HTR5A	ENSG00000157219	ENST00000287907	protein_coding	KNOWN	CCDS5936	5300	1074	357	154862034	154877459	1	None	5-HT5A
7	HTR5A	ENSG00000157219	ENST00000486819	processed_transcript	KNOWN	None	5300	None	None	154868848	154876325	1	None	5-HT5A
Y	TOMM22P2	ENSG00000232195	ENST00000430735	processed_pseudogene	KNOWN	None	38737	None	None	2696023	2696259	1	None	None
2	LY75	ENSG00000054219	ENST00000263636	protein_coding	KNOWN	CCDS2211	6729	5169	1722	160659866	160761221	-1	None	DEC-205, CLEC13B, CD205
2	LY75	ENSG00000054219	ENST00000484559	retained_intron	KNOWN	None	6729	None	None	160728330	160761253	-1	None	DEC-205, CLEC13B, CD205
2	LY75	ENSG00000054219	ENST00000492955	processed_transcript	KNOWN	None	6729	None	None	160758876	160761260	-1	None	DEC-205, CLEC13B, CD205
2	LY75	ENSG00000054219	ENST00000471164	processed_transcript	KNOWN	None	6729	None	None	160759060	160761160	-1	None	DEC-205, CLEC13B, CD205
2	LY75	ENSG00000054219	ENST00000554112	protein_coding	KNOWN	CCDS56141	6729	5622	1873	160628362	160761193	-1	None	DEC-205, CLEC13B, CD205
2	LY75	ENSG00000054219	ENST00000553424	protein_coding	KNOWN	CCDS56140	6729	5454	1817	160628362	160761193	-1	None	DEC-205, CLEC13B, CD205
Y	None	ENSG00000251037	ENST00000515575	processed_transcript	KNOWN	None	None	None	None	2722771	2800041	1	None	None
Y	HSFY3P	ENSG00000227289	ENST00000444242	unprocessed_pseudogene	KNOWN	None	37119	None	None	2749724	2751693	-1	None	None
5	GLRA1	ENSG00000145888	ENST00000274576	protein_coding	KNOWN	CCDS4320	4326	1350	449	151202074	151304403	-1	STHE	None
5	GLRA1	ENSG00000145888	ENST00000462581	nonsense_mediated_decay	KNOWN	None	4326	114	37	151202188	151304397	-1	STHE	None
5	GLRA1	ENSG00000145888	ENST00000455880	protein_coding	KNOWN	CCDS54942	4326	1374	457	151202188	151304397	-1	STHE	None
5	GLRA1	ENSG00000145888	ENST00000471351	processed_transcript	KNOWN	None	4326	None	None	151229252	151304393	-1	STHE	None
5	GLRA1	ENSG00000145888	ENST00000545569	protein_coding	KNOWN	None	4326	1101	366	151202188	151304397	-1	STHE	None
20	SULF2	ENSG00000196562	ENST00000479472	processed_transcript	KNOWN	None	20392	None	None	46285092	46286311	-1	None	KIAA1247, HSULF-2, SULF-2
20	SULF2	ENSG00000196562	ENST00000359930	protein_coding	KNOWN	CCDS13408	20392	2613	870	46285656	46415330	-1	None	KIAA1247, HSULF-2, SULF-2
20	SULF2	ENSG00000196562	ENST00000479970	retained_intron	KNOWN	None	20392	None	None	46286150	46288474	-1	None	KIAA1247, HSULF-2, SULF-2
20	SULF2	ENSG00000196562	ENST00000484875	protein_coding	KNOWN	CCDS13408	20392	2613	870	46286150	46415360	-1	None	KIAA1247, HSULF-2, SULF-2
20	SULF2	ENSG00000196562	ENST00000495544	protein_coding	PUTATIVE	None	20392	623	206	46286179	46294003	-1	None	KIAA1247, HSULF-2, SULF-2
20	SULF2	ENSG00000196562	ENST00000467815	protein_coding	KNOWN	CCDS13409	20392	2604	867	46286412	46415298	-1	None	KIAA1247, HSULF-2, SULF-2
20	SULF2	ENSG00000196562	ENST00000433632	processed_transcript	KNOWN	None	20392	None	None	46290178	46292298	-1	None	KIAA1247, HSULF-2, SULF-2
20	SULF2	ENSG00000196562	ENST00000465769	retained_intron	KNOWN	None	20392	None	None	46300939	46305436	-1	None	KIAA1247, HSULF-2, SULF-2
20	SULF2	ENSG00000196562	ENST00000474450	processed_transcript	KNOWN	None	20392	None	None	46313258	46386075	-1	None	KIAA1247, HSULF-2, SULF-2
20	SULF2	ENSG00000196562	ENST00000463221	retained_intron	KNOWN	None	20392	None	None	46318292	46414798	-1	None	KIAA1247, HSULF-2, SULF-2
20	SULF2	ENSG00000196562	ENST00000437955	protein_coding	PUTATIVE	None	20392	567	188	46331263	46414233	-1	None	KIAA1247, HSULF-2, SULF-2
20	SULF2	ENSG00000196562	ENST00000478766	processed_transcript	KNOWN	None	20392	None	None	46335257	46365687	-1	None	KIAA1247, HSULF-2, SULF-2
20	SULF2	ENSG00000196562	ENST00000361612	protein_coding	KNOWN	None	20392	2559	852	46286151	46415360	-1	None	KIAA1247, HSULF-2, SULF-2
8	None	ENSG00000268080	ENST00000598428	protein_coding	NOVEL	None	None	471	156	94241867	94242388	1	None	None
HSCHR6_MHC_DBB	PSORS1C1	ENSG00000233439	ENST00000467097	processed_transcript	KNOWN	None	17202	None	None	31076302	31080369	1	C6orf16	SEEK1
HSCHR6_MHC_DBB	PSORS1C1	ENSG00000233439	ENST00000493049	processed_transcript	KNOWN	None	17202	None	None	31076377	31078848	1	C6orf16	SEEK1
HSCHR6_MHC_DBB	PSORS1C1	ENSG00000233439	ENST00000420214	protein_coding	KNOWN	None	17202	459	152	31076383	31101556	1	C6orf16	SEEK1
HSCHR6_MHC_DBB	PSORS1C1	ENSG00000233439	ENST00000470382	processed_transcript	KNOWN	None	17202	None	None	31076383	31101556	1	C6orf16	SEEK1
HSCHR6_MHC_DBB	PSORS1C1	ENSG00000233439	ENST00000477839	processed_transcript	KNOWN	None	17202	None	None	31099877	31101556	1	C6orf16	SEEK1
Y	NAP1L1P2	ENSG00000229163	ENST00000414182	processed_pseudogene	KNOWN	None	38005	None	None	2797042	2799161	-1	None	None
17	PLD2	ENSG00000129219	ENST00000263088	protein_coding	KNOWN	CCDS11057	9068	2802	933	4710391	4726729	1	None	None
17	PLD2	ENSG00000129219	ENST00000572940	protein_coding	KNOWN	CCDS58507	9068	2769	922	4710464	4726723	1	None	None
17	PLD2	ENSG00000129219	ENST00000575246	nonsense_mediated_decay	KNOWN	None	9068	387	128	4710478	4721680	1	None	None
17	PLD2	ENSG00000129219	ENST00000574268	retained_intron	KNOWN	None	9068	None	None	4710487	4712413	1	None	None
17	PLD2	ENSG00000129219	ENST00000575316	protein_coding	KNOWN	None	9068	517	171	4710857	4712620	1	None	None
17	PLD2	ENSG00000129219	ENST00000575813	nonsense_mediated_decay	KNOWN	None	9068	146	47	4714102	4718849	1	None	None
17	PLD2	ENSG00000129219	ENST00000574796	retained_intron	KNOWN	None	9068	None	None	4717445	4719164	1	None	None
17	PLD2	ENSG00000129219	ENST00000576329	retained_intron	KNOWN	None	9068	None	None	4719154	4720200	1	None	None
17	PLD2	ENSG00000129219	ENST00000573258	retained_intron	KNOWN	None	9068	None	None	4719198	4720432	1	None	None
17	PLD2	ENSG00000129219	ENST00000572199	retained_intron	KNOWN	None	9068	None	None	4720003	4720670	1	None	None
17	PLD2	ENSG00000129219	ENST00000576983	protein_coding	NOVEL	None	9068	592	196	4720348	4722810	1	None	None
17	PLD2	ENSG00000129219	ENST00000571273	retained_intron	KNOWN	None	9068	None	None	4721239	4722508	1	None	None
17	PLD2	ENSG00000129219	ENST00000572127	retained_intron	KNOWN	None	9068	None	None	4721493	4722760	1	None	None
17	PLD2	ENSG00000129219	ENST00000576864	protein_coding	PUTATIVE	None	9068	592	196	4721888	4726729	1	None	None
17	PLD2	ENSG00000129219	ENST00000575945	retained_intron	KNOWN	None	9068	None	None	4724935	4726090	1	None	None
7	None	ENSG00000217825	ENST00000431083	nonsense_mediated_decay	KNOWN	None	None	54	17	154988273	154990165	-1	None	None
7	None	ENSG00000217825	ENST00000404289	protein_coding	PUTATIVE	None	None	213	70	154988397	154990146	-1	None	None
HSCHR6_MHC_MCF	HLA-DRA	ENSG00000230726	ENST00000414698	protein_coding	KNOWN	None	4947	765	254	32482996	32488206	1	HLA-DRA1	None
HSCHR6_MHC_MCF	HLA-DRA	ENSG00000230726	ENST00000493431	processed_transcript	PUTATIVE	None	4947	None	None	32483026	32486349	1	HLA-DRA1	None
HSCHR6_MHC_MCF	HLA-DRA	ENSG00000230726	ENST00000418111	protein_coding	KNOWN	None	4947	690	229	32483078	32488206	1	HLA-DRA1	None
HSCHR6_MHC_MCF	HLA-DRA	ENSG00000230726	ENST00000546379	protein_coding	KNOWN	None	4947	714	237	32483024	32488204	1	HLA-DRA1	None
Y	ZFY-AS1	ENSG00000233070	ENST00000417305	processed_transcript	KNOWN	None	38798	None	None	2834885	2870667	-1	ZFYAS, ZFY-AS	None
Y	ZFY-AS1	ENSG00000233070	ENST00000431145	processed_transcript	KNOWN	None	38798	None	None	2869669	2870612	-1	ZFYAS, ZFY-AS	None
Y	EEF1A1P41	ENSG00000223600	ENST00000414667	processed_pseudogene	KNOWN	None	38799	None	None	2863108	2863314	-1	None	None
10	PDLIM1	ENSG00000107438	ENST00000329399	protein_coding	KNOWN	CCDS7441	2067	990	329	96997329	97050781	-1	CLIM1	CLP-36, hCLIM1, CLP36
10	PDLIM1	ENSG00000107438	ENST00000492511	processed_transcript	KNOWN	None	2067	None	None	96997697	96998605	-1	CLIM1	CLP-36, hCLIM1, CLP36
10	PDLIM1	ENSG00000107438	ENST00000477757	processed_transcript	KNOWN	None	2067	None	None	96997767	97050769	-1	CLIM1	CLP-36, hCLIM1, CLP36
10	PDLIM1	ENSG00000107438	ENST00000490391	processed_transcript	KNOWN	None	2067	None	None	96998391	97007377	-1	CLIM1	CLP-36, hCLIM1, CLP36
10	PDLIM1	ENSG00000107438	ENST00000493949	processed_transcript	KNOWN	None	2067	None	None	97023633	97033163	-1	CLIM1	CLP-36, hCLIM1, CLP36
9	MIR181B2	ENSG00000207737	ENST00000385004	miRNA	KNOWN	None	31551	None	None	127455989	127456077	1	MIRN181B2	hsa-mir-181b-2
Y	LINC00278	ENSG00000231535	ENST00000444263	lincRNA	KNOWN	None	38712	None	None	2870953	2965258	1	NCRNA00278	None
Y	LINC00278	ENSG00000231535	ENST00000425031	lincRNA	KNOWN	None	38712	None	None	2871039	2970313	1	NCRNA00278	None
13	LRRC63	ENSG00000173988	ENST00000378805	non_stop_decay	KNOWN	None	34296	1519	505	46786083	46841076	1	None	RP11-139H14.4
13	LRRC63	ENSG00000173988	ENST00000595396	protein_coding	NOVEL	None	34296	1764	587	46787170	46851501	1	None	RP11-139H14.4
13	LRRC63	ENSG00000173988	ENST00000446175	protein_coding	KNOWN	None	34296	1746	581	46786083	46844757	1	None	RP11-139H14.4
16	BCAR1	ENSG00000050820	ENST00000162330	protein_coding	KNOWN	CCDS10915	971	2613	870	75262928	75285507	-1	None	P130Cas, Crkas, CAS, CASS1
16	BCAR1	ENSG00000050820	ENST00000562556	nonsense_mediated_decay	KNOWN	None	971	174	57	75262929	75299113	-1	None	P130Cas, Crkas, CAS, CASS1
16	BCAR1	ENSG00000050820	ENST00000563038	retained_intron	KNOWN	None	971	None	None	75262935	75270401	-1	None	P130Cas, Crkas, CAS, CASS1
16	BCAR1	ENSG00000050820	ENST00000566982	processed_transcript	KNOWN	None	971	None	None	75262935	75272558	-1	None	P130Cas, Crkas, CAS, CASS1
16	BCAR1	ENSG00000050820	ENST00000393422	protein_coding	KNOWN	CCDS54043	971	2667	888	75262941	75301951	-1	None	P130Cas, Crkas, CAS, CASS1
16	BCAR1	ENSG00000050820	ENST00000535626	protein_coding	KNOWN	CCDS54039	971	2169	722	75262960	75299846	-1	None	P130Cas, Crkas, CAS, CASS1
16	BCAR1	ENSG00000050820	ENST00000538440	protein_coding	KNOWN	CCDS54041	971	2613	870	75263001	75299905	-1	None	P130Cas, Crkas, CAS, CASS1
16	BCAR1	ENSG00000050820	ENST00000418647	protein_coding	KNOWN	CCDS54040	971	2751	916	75263057	75299905	-1	None	P130Cas, Crkas, CAS, CASS1
16	BCAR1	ENSG00000050820	ENST00000542031	protein_coding	KNOWN	CCDS54037	971	2607	868	75263351	75282138	-1	None	P130Cas, Crkas, CAS, CASS1
16	BCAR1	ENSG00000050820	ENST00000420641	protein_coding	KNOWN	CCDS54042	971	2667	888	75263353	75300679	-1	None	P130Cas, Crkas, CAS, CASS1
16	BCAR1	ENSG00000050820	ENST00000393420	protein_coding	KNOWN	CCDS54038	971	2667	888	75263409	75285380	-1	None	P130Cas, Crkas, CAS, CASS1
16	BCAR1	ENSG00000050820	ENST00000569340	protein_coding	NOVEL	None	971	714	237	75269566	75276600	-1	None	P130Cas, Crkas, CAS, CASS1
16	BCAR1	ENSG00000050820	ENST00000564170	retained_intron	KNOWN	None	971	None	None	75270594	75271329	-1	None	P130Cas, Crkas, CAS, CASS1
16	BCAR1	ENSG00000050820	ENST00000568864	protein_coding	PUTATIVE	None	971	405	134	75276509	75298314	-1	None	P130Cas, Crkas, CAS, CASS1
16	BCAR1	ENSG00000050820	ENST00000564028	protein_coding	PUTATIVE	None	971	401	132	75276513	75285778	-1	None	P130Cas, Crkas, CAS, CASS1
16	BCAR1	ENSG00000050820	ENST00000566465	protein_coding	PUTATIVE	None	971	384	127	75276530	75282841	-1	None	P130Cas, Crkas, CAS, CASS1
16	BCAR1	ENSG00000050820	ENST00000569006	protein_coding	PUTATIVE	None	971	360	119	75276554	75290178	-1	None	P130Cas, Crkas, CAS, CASS1
16	BCAR1	ENSG00000050820	ENST00000561970	protein_coding	PUTATIVE	None	971	240	79	75276674	75284845	-1	None	P130Cas, Crkas, CAS, CASS1
16	BCAR1	ENSG00000050820	ENST00000563323	protein_coding	PUTATIVE	None	971	176	57	75276738	75300280	-1	None	P130Cas, Crkas, CAS, CASS1
16	BCAR1	ENSG00000050820	ENST00000567215	protein_coding	PUTATIVE	None	971	151	49	75276763	75283864	-1	None	P130Cas, Crkas, CAS, CASS1
16	BCAR1	ENSG00000050820	ENST00000563700	processed_transcript	KNOWN	None	971	None	None	75276953	75284002	-1	None	P130Cas, Crkas, CAS, CASS1
16	BCAR1	ENSG00000050820	ENST00000546196	protein_coding	KNOWN	None	971	2526	841	75262929	75299113	-1	None	P130Cas, Crkas, CAS, CASS1
Y	AGPAT5P1	ENSG00000234652	ENST00000455855	processed_pseudogene	KNOWN	None	37709	None	None	3161849	3162867	1	None	None
1	CSMD2	ENSG00000121904	ENST00000241312	nonsense_mediated_decay	KNOWN	CCDS380	19290	10464	3487	33979609	34631443	-1	None	KIAA1884
1	CSMD2	ENSG00000121904	ENST00000465819	processed_transcript	KNOWN	None	19290	None	None	34024953	34038190	-1	None	KIAA1884
1	CSMD2	ENSG00000121904	ENST00000373380	protein_coding	KNOWN	None	19290	3504	1167	34057407	34175104	-1	None	KIAA1884
1	CSMD2	ENSG00000121904	ENST00000489419	processed_transcript	KNOWN	None	19290	None	None	34064289	34068077	-1	None	KIAA1884
1	CSMD2	ENSG00000121904	ENST00000373377	protein_coding	KNOWN	None	19290	1281	426	34064289	34092184	-1	None	KIAA1884
1	CSMD2	ENSG00000121904	ENST00000338325	protein_coding	KNOWN	None	19290	678	225	34237709	34279820	-1	None	KIAA1884
1	CSMD2	ENSG00000121904	ENST00000471438	processed_transcript	KNOWN	None	19290	None	None	34258098	34285409	-1	None	KIAA1884
1	CSMD2	ENSG00000121904	ENST00000373381	protein_coding	KNOWN	None	19290	10896	3631	33979613	34630875	-1	None	KIAA1884
1	CSMD2	ENSG00000121904	ENST00000373388	protein_coding	KNOWN	None	19290	1281	426	34065714	34175104	-1	None	KIAA1884
HSCHR6_MHC_DBB	CDSN	ENSG00000237123	ENST00000418599	protein_coding	KNOWN	None	1802	1590	529	31076642	31081981	-1	None	D6S586E
15	TMEM202	ENSG00000187806	ENST00000341689	protein_coding	KNOWN	CCDS32287	33733	822	273	72690614	72700370	1	None	FLJ27523
15	TMEM202	ENSG00000187806	ENST00000568167	nonsense_mediated_decay	KNOWN	None	33733	186	61	72690646	72700370	1	None	FLJ27523
15	TMEM202	ENSG00000187806	ENST00000567679	protein_coding	NOVEL	None	33733	186	61	72690650	72700370	1	None	FLJ27523
16	SETD1A	ENSG00000099381	ENST00000262519	protein_coding	KNOWN	CCDS32435	29010	5124	1707	30968615	30996437	1	None	KIAA0339, Set1, KMT2F
16	SETD1A	ENSG00000099381	ENST00000452917	protein_coding	KNOWN	None	29010	741	246	30969077	30975516	1	None	KIAA0339, Set1, KMT2F
3	LYZL4	ENSG00000157093	ENST00000287748	protein_coding	KNOWN	CCDS2697	28387	441	146	42438570	42452092	-1	None	MGC26768, LYC4
3	LYZL4	ENSG00000157093	ENST00000441172	protein_coding	KNOWN	CCDS2697	28387	441	146	42438575	42452050	-1	None	MGC26768, LYC4
3	LYZL4	ENSG00000157093	ENST00000470991	processed_transcript	KNOWN	None	28387	None	None	42438589	42449000	-1	None	MGC26768, LYC4
7	RN7SL132P	ENSG00000242653	ENST00000478131	misc_RNA	KNOWN	None	46148	None	None	34793036	34793333	1	None	None
9	MIR4289	ENSG00000265873	ENST00000581736	miRNA	KNOWN	None	38278	None	None	91360751	91360820	-1	None	hsa-mir-4289
19	ZNF766	ENSG00000196214	ENST00000439461	protein_coding	KNOWN	CCDS46163	28063	1407	468	52772824	52795976	1	None	None
19	ZNF766	ENSG00000196214	ENST00000593703	protein_coding	PUTATIVE	None	28063	477	158	52772840	52793698	1	None	None
19	ZNF766	ENSG00000196214	ENST00000601711	protein_coding	PUTATIVE	None	28063	224	73	52772846	52786571	1	None	None
19	ZNF766	ENSG00000196214	ENST00000599581	protein_coding	PUTATIVE	None	28063	318	105	52772846	52795014	1	None	None
19	ZNF766	ENSG00000196214	ENST00000600821	protein_coding	PUTATIVE	None	28063	303	100	52777715	52791368	1	None	None
19	ZNF766	ENSG00000196214	ENST00000595149	protein_coding	PUTATIVE	None	28063	251	82	52777715	52793406	1	None	None
19	ZNF766	ENSG00000196214	ENST00000595000	protein_coding	PUTATIVE	None	28063	345	114	52777715	52793500	1	None	None
19	ZNF766	ENSG00000196214	ENST00000593612	protein_coding	PUTATIVE	None	28063	1416	471	52777715	52795977	1	None	None
19	ZNF766	ENSG00000196214	ENST00000600016	retained_intron	KNOWN	None	28063	None	None	52777728	52785827	1	None	None
19	ZNF766	ENSG00000196214	ENST00000359102	protein_coding	KNOWN	None	28063	1416	471	52780405	52795977	1	None	None
7	INSIG1	ENSG00000186480	ENST00000340368	protein_coding	KNOWN	CCDS5938	6083	834	277	155089486	155101945	1	None	CL-6, MGC1405
7	INSIG1	ENSG00000186480	ENST00000425172	protein_coding	KNOWN	None	6083	370	122	155089539	155090365	1	None	CL-6, MGC1405
7	INSIG1	ENSG00000186480	ENST00000342407	protein_coding	PUTATIVE	CCDS5939	6083	495	164	155089599	155100467	1	None	CL-6, MGC1405
7	INSIG1	ENSG00000186480	ENST00000476756	protein_coding	PUTATIVE	None	6083	718	238	155090271	155100670	1	None	CL-6, MGC1405
7	INSIG1	ENSG00000186480	ENST00000468307	retained_intron	KNOWN	None	6083	None	None	155093317	155094728	1	None	CL-6, MGC1405
7	INSIG1	ENSG00000186480	ENST00000344756	protein_coding	KNOWN	None	6083	537	178	155089486	155101943	1	None	CL-6, MGC1405
9	PCNPP2	ENSG00000225856	ENST00000441651	processed_pseudogene	KNOWN	None	41974	None	None	91585802	91586256	-1	None	None
HSCHR6_MHC_DBB	PSORS1C2	ENSG00000232127	ENST00000416027	protein_coding	KNOWN	None	17199	411	136	31099052	31100868	-1	C6orf17	SPR1
10	RSU1	ENSG00000148484	ENST00000377921	protein_coding	KNOWN	CCDS7112	10464	834	277	16632610	16859382	-1	None	RSP-1, FLJ31034
10	RSU1	ENSG00000148484	ENST00000345264	protein_coding	KNOWN	CCDS7112	10464	834	277	16632610	16859527	-1	None	RSP-1, FLJ31034
10	RSU1	ENSG00000148484	ENST00000464074	processed_transcript	KNOWN	None	10464	None	None	16635152	16859412	-1	None	RSP-1, FLJ31034
10	RSU1	ENSG00000148484	ENST00000377911	processed_transcript	KNOWN	None	10464	None	None	16635312	16859462	-1	None	RSP-1, FLJ31034
10	RSU1	ENSG00000148484	ENST00000602389	protein_coding	KNOWN	CCDS31157	10464	675	224	16632619	16859453	-1	None	RSP-1, FLJ31034
HSCHR6_MHC_SSTO	HLA-T	ENSG00000224693	ENST00000435329	unprocessed_pseudogene	KNOWN	None	23478	None	None	29854817	29855948	1	HLA-16	None
HSCHR6_MHC_SSTO	DDX39BP1	ENSG00000229364	ENST00000454847	unprocessed_pseudogene	KNOWN	None	33450	None	None	29864710	29865076	1	BAT1P1	None
10	None	ENSG00000268421	ENST00000601031	protein_coding	KNOWN	None	None	642	213	131308884	131309525	-1	None	None
7	None	ENSG00000251802	ENST00000515993	snoRNA	NOVEL	None	None	None	None	34932029	34932161	1	None	None
HSCHR6_MHC_SSTO	MCCD1P1	ENSG00000223860	ENST00000422512	unprocessed_pseudogene	KNOWN	None	33449	None	None	29865950	29866812	-1	None	OTTHUMG00000130506
HSCHR6_MHC_SSTO	HCG4B	ENSG00000236033	ENST00000413313	unprocessed_pseudogene	KNOWN	None	22919	None	None	29884113	29885103	-1	HCG4P6	HCGIV-6, HCGIV.5, HCGIV-06, bCX67J3.3, Em:AB023056.16, bPG309N1.1, bQB90C11.3
HSCHR6_MHC_SSTO	HCG4B	ENSG00000236033	ENST00000547782	unprocessed_pseudogene	KNOWN	None	22919	None	None	29884501	29885103	-1	HCG4P6	HCGIV-6, HCGIV.5, HCGIV-06, bCX67J3.3, Em:AB023056.16, bPG309N1.1, bQB90C11.3
9	None	ENSG00000236643	ENST00000438380	antisense	KNOWN	None	None	None	None	127532402	127535206	1	None	None
HSCHR6_MHC_SSTO	HLA-K	ENSG00000229959	ENST00000428988	unprocessed_pseudogene	KNOWN	None	4969	None	None	29884589	29887366	1	HLAK, HLA70	HLA-70
7	MIR548N	ENSG00000221669	ENST00000408742	miRNA	KNOWN	None	35330	None	None	34980372	34980446	-1	MIRN548N	hsa-mir-548n
HSCHR6_MHC_SSTO	HLA-U	ENSG00000236706	ENST00000415983	unprocessed_pseudogene	KNOWN	None	23477	None	None	29890476	29890660	1	HLA-21	Em:AB023056.13
HSCHR6_MHC_SSTO	HCG4P5	ENSG00000231067	ENST00000450479	unprocessed_pseudogene	KNOWN	None	22925	None	None	29898329	29899320	-1	None	HCGIV-05, HCGIV.4, HCGIV-5
7	KBTBD2	ENSG00000170852	ENST00000304056	protein_coding	KNOWN	CCDS34614	21751	1872	623	32907784	32931509	-1	BKLHD1	DKFZP566C134
7	KBTBD2	ENSG00000170852	ENST00000485611	processed_transcript	KNOWN	None	21751	None	None	32910420	32931756	-1	BKLHD1	DKFZP566C134
7	KBTBD2	ENSG00000170852	ENST00000477129	retained_intron	KNOWN	None	21751	None	None	32914134	32919105	-1	BKLHD1	DKFZP566C134
7	KBTBD2	ENSG00000170852	ENST00000452926	protein_coding	KNOWN	None	21751	143	46	32919074	32931756	-1	BKLHD1	DKFZP566C134
7	KBTBD2	ENSG00000170852	ENST00000453627	protein_coding	KNOWN	None	21751	89	28	32919128	32933743	-1	BKLHD1	DKFZP566C134
7	KBTBD2	ENSG00000170852	ENST00000423022	protein_coding	KNOWN	None	21751	41	12	32919176	32930765	-1	BKLHD1	DKFZP566C134
7	KBTBD2	ENSG00000170852	ENST00000424468	protein_coding	KNOWN	None	21751	13	3	32919204	32932345	-1	BKLHD1	DKFZP566C134
HSCHR6_MHC_SSTO	HLA-W	ENSG00000234786	ENST00000431711	unprocessed_pseudogene	KNOWN	None	23425	None	None	29912854	29914819	1	HLA-80	None
14	AKAP6	ENSG00000151320	ENST00000280979	protein_coding	KNOWN	CCDS9644	376	6960	2319	32798479	33300567	1	None	KIAA0311, mAKAP, AKAP100, PRKA6, ADAP6
14	AKAP6	ENSG00000151320	ENST00000557354	protein_coding	PUTATIVE	None	376	3228	1075	32798550	33203819	1	None	KIAA0311, mAKAP, AKAP100, PRKA6, ADAP6
14	AKAP6	ENSG00000151320	ENST00000557102	protein_coding	KNOWN	None	376	324	107	32798555	32903023	1	None	KIAA0311, mAKAP, AKAP100, PRKA6, ADAP6
14	AKAP6	ENSG00000151320	ENST00000556037	retained_intron	KNOWN	None	376	None	None	32798556	32903188	1	None	KIAA0311, mAKAP, AKAP100, PRKA6, ADAP6
14	AKAP6	ENSG00000151320	ENST00000557272	protein_coding	PUTATIVE	None	376	3738	1245	32798606	33300023	1	None	KIAA0311, mAKAP, AKAP100, PRKA6, ADAP6
14	AKAP6	ENSG00000151320	ENST00000554449	processed_transcript	PUTATIVE	None	376	None	None	32902370	32908238	1	None	KIAA0311, mAKAP, AKAP100, PRKA6, ADAP6
14	AKAP6	ENSG00000151320	ENST00000553547	protein_coding	PUTATIVE	None	376	1070	355	32942963	33015655	1	None	KIAA0311, mAKAP, AKAP100, PRKA6, ADAP6
14	AKAP6	ENSG00000151320	ENST00000554410	protein_coding	PUTATIVE	None	376	76	24	32963477	33014661	1	None	KIAA0311, mAKAP, AKAP100, PRKA6, ADAP6
14	AKAP6	ENSG00000151320	ENST00000556638	protein_coding	PUTATIVE	None	376	141	46	32964278	33014726	1	None	KIAA0311, mAKAP, AKAP100, PRKA6, ADAP6
14	AKAP6	ENSG00000151320	ENST00000555207	processed_transcript	KNOWN	None	376	None	None	33086173	33242997	1	None	KIAA0311, mAKAP, AKAP100, PRKA6, ADAP6
14	AKAP6	ENSG00000151320	ENST00000555950	processed_transcript	KNOWN	None	376	None	None	33086184	33201971	1	None	KIAA0311, mAKAP, AKAP100, PRKA6, ADAP6
14	AKAP6	ENSG00000151320	ENST00000557396	processed_transcript	KNOWN	None	376	None	None	33162607	33201790	1	None	KIAA0311, mAKAP, AKAP100, PRKA6, ADAP6
14	AKAP6	ENSG00000151320	ENST00000557708	processed_transcript	KNOWN	None	376	None	None	33162668	33204931	1	None	KIAA0311, mAKAP, AKAP100, PRKA6, ADAP6
14	AKAP6	ENSG00000151320	ENST00000556540	processed_transcript	KNOWN	None	376	None	None	33202468	33243035	1	None	KIAA0311, mAKAP, AKAP100, PRKA6, ADAP6
14	AKAP6	ENSG00000151320	ENST00000554740	protein_coding	PUTATIVE	None	376	356	117	33205057	33243207	1	None	KIAA0311, mAKAP, AKAP100, PRKA6, ADAP6
HSCHR6_MHC_SSTO	MICD	ENSG00000235380	ENST00000420932	unprocessed_pseudogene	KNOWN	None	7093	None	None	29927036	29928699	-1	None	PERB11.4
HSCHR6_MHC_SSTO	HCG9	ENSG00000237812	ENST00000412026	processed_transcript	KNOWN	None	21243	None	None	29931358	29934651	1	None	PERB11, HCGIX, HCGIX4, HCGIX-4
10	EBF3	ENSG00000108001	ENST00000368648	protein_coding	KNOWN	CCDS31314	19087	1656	551	131633547	131762105	-1	None	COE3, DKFZp667B0210
10	EBF3	ENSG00000108001	ENST00000355311	protein_coding	KNOWN	None	19087	1791	596	131635064	131762105	-1	None	COE3, DKFZp667B0210
10	EBF3	ENSG00000108001	ENST00000440978	protein_coding	KNOWN	None	19087	574	190	131635964	131640435	-1	None	COE3, DKFZp667B0210
5	PPIC	ENSG00000168938	ENST00000306442	protein_coding	KNOWN	CCDS4133	9256	639	212	122358945	122372436	-1	None	CYPC
5	PPIC	ENSG00000168938	ENST00000415659	retained_intron	KNOWN	None	9256	None	None	122364188	122372420	-1	None	CYPC
17	HIC1	ENSG00000177374	ENST00000574370	protein_coding	KNOWN	None	4909	29	8	1957448	1960013	1	None	ZBTB29, ZNF901
17	HIC1	ENSG00000177374	ENST00000571875	processed_transcript	PUTATIVE	None	4909	None	None	1957509	1959984	1	None	ZBTB29, ZNF901
17	HIC1	ENSG00000177374	ENST00000571990	protein_coding	KNOWN	None	4909	289	95	1957509	1960273	1	None	ZBTB29, ZNF901
17	HIC1	ENSG00000177374	ENST00000399849	protein_coding	KNOWN	CCDS42230	4909	2145	714	1958393	1962980	1	None	ZBTB29, ZNF901
17	HIC1	ENSG00000177374	ENST00000576444	protein_coding	KNOWN	None	4909	253	83	1959513	1960237	1	None	ZBTB29, ZNF901
17	HIC1	ENSG00000177374	ENST00000322941	protein_coding	KNOWN	CCDS42229	4909	2202	733	1959604	1962980	1	None	ZBTB29, ZNF901
HSCHR6_MHC_SSTO	DDX39BP2	ENSG00000235305	ENST00000431333	unprocessed_pseudogene	KNOWN	None	33461	None	None	29949455	29949851	1	BAT1P2	BPG309N1.15
7	PRKAR2B	ENSG00000005249	ENST00000265717	protein_coding	KNOWN	CCDS5740	9392	1257	418	106685094	106802256	1	PRKAR2	None
7	PRKAR2B	ENSG00000005249	ENST00000393613	processed_transcript	KNOWN	None	9392	None	None	106710070	106781398	1	PRKAR2	None
7	PRKAR2B	ENSG00000005249	ENST00000488792	processed_transcript	KNOWN	None	9392	None	None	106732121	106786907	1	PRKAR2	None
HSCHR6_MHC_MCF	HLA-DRB4	ENSG00000231021	ENST00000457451	protein_coding	KNOWN	None	4952	801	266	32578924	32593887	-1	HLA-DR4B	None
9	RNU4-82P	ENSG00000199313	ENST00000362443	snRNA	KNOWN	None	47018	None	None	127649689	127649828	-1	None	None
3	CRTAP	ENSG00000170275	ENST00000320954	protein_coding	KNOWN	CCDS2657	2379	1206	401	33155471	33189265	1	None	CASP, LEPREL3
3	CRTAP	ENSG00000170275	ENST00000449224	protein_coding	NOVEL	None	2379	1077	358	33155546	33184650	1	None	CASP, LEPREL3
3	CRTAP	ENSG00000170275	ENST00000485310	processed_transcript	KNOWN	None	2379	None	None	33156767	33174092	1	None	CASP, LEPREL3
HSCHR6_MHC_SSTO	MCCD1P2	ENSG00000229034	ENST00000450615	unprocessed_pseudogene	KNOWN	None	33462	None	None	29950683	29951560	-1	None	BPG309N1.16
9	None	ENSG00000228658	ENST00000421482	lincRNA	KNOWN	None	None	None	None	91586553	91591213	1	None	None
12	KRAS	ENSG00000133703	ENST00000311936	protein_coding	KNOWN	CCDS8702	6407	567	188	25357723	25403865	-1	KRAS2	KRAS1
12	KRAS	ENSG00000133703	ENST00000557334	protein_coding	PUTATIVE	None	6407	228	75	25362102	25403870	-1	KRAS2	KRAS1
12	KRAS	ENSG00000133703	ENST00000256078	protein_coding	KNOWN	CCDS8703	6407	570	189	25362365	25403737	-1	KRAS2	KRAS1
12	KRAS	ENSG00000133703	ENST00000556131	protein_coding	PUTATIVE	None	6407	132	43	25386753	25403863	-1	KRAS2	KRAS1
9	NACC2	ENSG00000148411	ENST00000371753	protein_coding	KNOWN	CCDS6993	23846	1764	587	138898383	138942426	-1	BTBD14A	MGC23427, BEND9, BTBD31
9	NACC2	ENSG00000148411	ENST00000467669	processed_transcript	KNOWN	None	23846	None	None	138908137	138911326	-1	BTBD14A	MGC23427, BEND9, BTBD31
9	NACC2	ENSG00000148411	ENST00000277554	protein_coding	KNOWN	CCDS6993	23846	1764	587	138903205	138987131	-1	BTBD14A	MGC23427, BEND9, BTBD31
9	None	ENSG00000231632	ENST00000439796	lincRNA	KNOWN	None	None	None	None	91624949	91625393	-1	None	None
4	TLL1	ENSG00000038295	ENST00000061240	protein_coding	KNOWN	CCDS3811	11843	3042	1013	166794410	167025047	1	None	None
4	TLL1	ENSG00000038295	ENST00000509505	nonsense_mediated_decay	KNOWN	None	11843	393	130	166794500	167023178	1	None	None
4	TLL1	ENSG00000038295	ENST00000507499	protein_coding	NOVEL	None	11843	3111	1036	166794500	167023178	1	None	None
4	TLL1	ENSG00000038295	ENST00000504560	nonsense_mediated_decay	KNOWN	None	11843	174	57	166794838	166914036	1	None	None
4	TLL1	ENSG00000038295	ENST00000513213	protein_coding	KNOWN	CCDS56342	11843	1179	392	166794892	166952110	1	None	None
4	TLL1	ENSG00000038295	ENST00000506144	protein_coding	PUTATIVE	None	11843	332	109	166796110	166916330	1	None	None
9	None	ENSG00000224945	ENST00000456944	sense_intronic	KNOWN	None	None	None	None	91703519	91724213	-1	None	None
9	None	ENSG00000224945	ENST00000429700	sense_intronic	KNOWN	None	None	None	None	91703802	91724849	-1	None	None
16	LCAT	ENSG00000213398	ENST00000264005	protein_coding	KNOWN	CCDS10854	6522	1323	440	67973653	67978034	-1	None	None
16	LCAT	ENSG00000213398	ENST00000573538	nonsense_mediated_decay	KNOWN	None	6522	417	138	67973785	67976833	-1	None	None
16	LCAT	ENSG00000213398	ENST00000570369	protein_coding	PUTATIVE	None	6522	322	106	67973785	67976997	-1	None	None
16	LCAT	ENSG00000213398	ENST00000570980	protein_coding	PUTATIVE	None	6522	765	254	67974149	67977528	-1	None	None
16	LCAT	ENSG00000213398	ENST00000575467	nonsense_mediated_decay	KNOWN	None	6522	282	93	67975271	67978034	-1	None	None
16	LCAT	ENSG00000213398	ENST00000576450	protein_coding	PUTATIVE	None	6522	241	79	67975712	67976480	-1	None	None
16	LCAT	ENSG00000213398	ENST00000570396	protein_coding	PUTATIVE	None	6522	186	61	67975720	67976361	-1	None	None
16	LCAT	ENSG00000213398	ENST00000573846	retained_intron	KNOWN	None	6522	None	None	67976060	67976804	-1	None	None
16	LCAT	ENSG00000213398	ENST00000575277	retained_intron	KNOWN	None	6522	None	None	67976302	67977047	-1	None	None
12	CLLU1	ENSG00000257127	ENST00000589406	retained_intron	KNOWN	None	29841	None	None	92815307	92817725	1	None	None
12	CLLU1	ENSG00000257127	ENST00000472839	processed_transcript	KNOWN	None	29841	None	None	92815307	92824764	1	None	None
12	CLLU1	ENSG00000257127	ENST00000512817	processed_transcript	KNOWN	None	29841	None	None	92815307	92824778	1	None	None
12	CLLU1	ENSG00000257127	ENST00000586526	retained_intron	KNOWN	None	29841	None	None	92817735	92820156	1	None	None
12	CLLU1	ENSG00000257127	ENST00000378485	protein_coding	KNOWN	None	29841	366	121	92817735	92824730	1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000196299	ENST00000453596	processed_transcript	KNOWN	None	None	None	None	29957257	30018290	-1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000196299	ENST00000447238	processed_transcript	KNOWN	None	None	None	None	29957257	30018505	-1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000196299	ENST00000450620	processed_transcript	KNOWN	None	None	None	None	29957257	30018506	-1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000196299	ENST00000453611	processed_transcript	KNOWN	None	None	None	None	29957257	30018546	-1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000196299	ENST00000424376	processed_transcript	KNOWN	None	None	None	None	29968346	29992351	-1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000196299	ENST00000441653	processed_transcript	KNOWN	None	None	None	None	29976033	30019002	-1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000196299	ENST00000420948	processed_transcript	KNOWN	None	None	None	None	29992271	30016109	-1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000196299	ENST00000447602	processed_transcript	KNOWN	None	None	None	None	29992766	30018551	-1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000196299	ENST00000426908	processed_transcript	KNOWN	None	None	None	None	30011963	30018541	-1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000196299	ENST00000354576	processed_transcript	KNOWN	None	None	None	None	30014115	30018341	-1	None	None
7	DPY19L2P1	ENSG00000189212	ENST00000458672	processed_transcript	KNOWN	None	22305	None	None	35119601	35201687	-1	None	None
7	DPY19L2P1	ENSG00000189212	ENST00000454445	transcribed_unprocessed_pseudogene	KNOWN	None	22305	None	None	35121205	35225653	-1	None	None
7	DPY19L2P1	ENSG00000189212	ENST00000436258	processed_transcript	KNOWN	None	22305	None	None	35129456	35147346	-1	None	None
7	DPY19L2P1	ENSG00000189212	ENST00000545701	unprocessed_pseudogene	KNOWN	None	22305	None	None	35181515	35225934	-1	None	None
9	None	ENSG00000264641	ENST00000580940	miRNA	NOVEL	None	None	None	None	127659112	127659211	1	None	None
9	None	ENSG00000271341	ENST00000603976	sense_intronic	KNOWN	None	None	None	None	127704887	127705774	-1	None	None
12	C12orf74	ENSG00000214215	ENST00000397833	protein_coding	KNOWN	CCDS41819	27887	573	190	93096619	93102323	1	None	None
12	C12orf74	ENSG00000214215	ENST00000544406	protein_coding	NOVEL	CCDS53818	27887	522	173	93096804	93102325	1	None	None
9	None	ENSG00000177736	ENST00000411625	processed_pseudogene	KNOWN	None	None	None	None	127730573	127731119	-1	None	None
9	None	ENSG00000177736	ENST00000316488	pseudogene	KNOWN	None	None	None	None	127730809	127731223	-1	None	None
HSCHR6_MHC_MCF	MDC1	ENSG00000237095	ENST00000449153	protein_coding	KNOWN	None	21163	6270	2089	30746071	30764152	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_MCF	MDC1	ENSG00000237095	ENST00000481417	retained_intron	KNOWN	None	21163	None	None	30746579	30750345	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_MCF	MDC1	ENSG00000237095	ENST00000425790	protein_coding	KNOWN	None	21163	916	304	30751712	30758177	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_MCF	MDC1	ENSG00000237095	ENST00000476411	retained_intron	KNOWN	None	21163	None	None	30751846	30753948	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_MCF	MDC1	ENSG00000237095	ENST00000494715	processed_transcript	KNOWN	None	21163	None	None	30757735	30758194	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_MCF	MDC1	ENSG00000237095	ENST00000422195	protein_coding	KNOWN	None	21163	487	161	30760096	30763438	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_MCF	MDC1	ENSG00000237095	ENST00000455729	protein_coding	KNOWN	None	21163	380	125	30760203	30763710	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_MCF	MDC1	ENSG00000237095	ENST00000423726	protein_coding	KNOWN	None	21163	340	112	30760243	30763384	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_MCF	MDC1	ENSG00000237095	ENST00000553048	protein_coding	KNOWN	None	21163	5478	1825	30746072	30763944	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_MCF	MDC1	ENSG00000237095	ENST00000546487	protein_coding	KNOWN	None	21163	5409	1802	30746072	30763944	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_MCF	MDC1	ENSG00000237095	ENST00000553196	protein_coding	KNOWN	None	21163	735	244	30746659	30763944	-1	None	NFBD1, KIAA0170, Em:AB023051.5
HSCHR6_MHC_MCF	MDC1	ENSG00000237095	ENST00000547353	protein_coding	KNOWN	None	21163	732	243	30759471	30763944	-1	None	NFBD1, KIAA0170, Em:AB023051.5
1	PTPRC	ENSG00000081237	ENST00000367379	protein_coding	KNOWN	None	9666	446	147	198607801	198677286	1	CD45	LCA, T200, GP180
1	PTPRC	ENSG00000081237	ENST00000530727	protein_coding	NOVEL	None	9666	1800	599	198608149	198701685	1	CD45	LCA, T200, GP180
1	PTPRC	ENSG00000081237	ENST00000442510	protein_coding	KNOWN	CCDS1397	9666	3921	1306	198608170	198726412	1	CD45	LCA, T200, GP180
1	PTPRC	ENSG00000081237	ENST00000462363	retained_intron	KNOWN	None	9666	None	None	198608203	198673003	1	CD45	LCA, T200, GP180
1	PTPRC	ENSG00000081237	ENST00000367367	protein_coding	NOVEL	None	9666	2205	734	198608225	198704381	1	CD45	LCA, T200, GP180
1	PTPRC	ENSG00000081237	ENST00000348564	protein_coding	KNOWN	CCDS1398	9666	3438	1145	198608225	198726412	1	CD45	LCA, T200, GP180
1	PTPRC	ENSG00000081237	ENST00000367364	protein_coding	KNOWN	None	9666	111	36	198608227	198662335	1	CD45	LCA, T200, GP180
1	PTPRC	ENSG00000081237	ENST00000413409	protein_coding	PUTATIVE	CCDS44291	9666	264	87	198608227	198664300	1	CD45	LCA, T200, GP180
1	PTPRC	ENSG00000081237	ENST00000529828	non_stop_decay	KNOWN	None	9666	2259	752	198608234	198704381	1	CD45	LCA, T200, GP180
1	PTPRC	ENSG00000081237	ENST00000418674	protein_coding	KNOWN	None	9666	355	117	198608292	198668749	1	CD45	LCA, T200, GP180
1	PTPRC	ENSG00000081237	ENST00000427110	processed_transcript	KNOWN	None	9666	None	None	198608418	198672475	1	CD45	LCA, T200, GP180
1	PTPRC	ENSG00000081237	ENST00000391970	processed_transcript	KNOWN	None	9666	None	None	198608418	198672475	1	CD45	LCA, T200, GP180
1	PTPRC	ENSG00000081237	ENST00000484135	retained_intron	KNOWN	None	9666	None	None	198666010	198669275	1	CD45	LCA, T200, GP180
1	PTPRC	ENSG00000081237	ENST00000491302	retained_intron	KNOWN	None	9666	None	None	198681919	198687428	1	CD45	LCA, T200, GP180
1	PTPRC	ENSG00000081237	ENST00000367376	protein_coding	KNOWN	None	9666	3915	1304	198608146	198726545	1	CD45	LCA, T200, GP180
1	PTPRC	ENSG00000081237	ENST00000352140	protein_coding	KNOWN	None	9666	3771	1256	198608146	198726545	1	CD45	LCA, T200, GP180
1	PTPRC	ENSG00000081237	ENST00000594404	protein_coding	KNOWN	None	9666	3432	1143	198608146	198726545	1	CD45	LCA, T200, GP180
1	PTPRC	ENSG00000081237	ENST00000598951	protein_coding	KNOWN	None	9666	105	34	198608146	198662335	1	CD45	LCA, T200, GP180
7	SEC61G	ENSG00000132432	ENST00000395535	protein_coding	KNOWN	CCDS5513	18277	207	68	54819943	54826939	-1	None	SSS1
7	SEC61G	ENSG00000132432	ENST00000415949	protein_coding	KNOWN	CCDS5513	18277	207	68	54819946	54827667	-1	None	SSS1
7	SEC61G	ENSG00000132432	ENST00000450622	protein_coding	KNOWN	CCDS5513	18277	207	68	54819950	54826875	-1	None	SSS1
7	SEC61G	ENSG00000132432	ENST00000460484	retained_intron	KNOWN	None	18277	None	None	54822485	54826891	-1	None	SSS1
7	SEC61G	ENSG00000132432	ENST00000480303	retained_intron	KNOWN	None	18277	None	None	54823098	54826934	-1	None	SSS1
7	SEC61G	ENSG00000132432	ENST00000461536	retained_intron	KNOWN	None	18277	None	None	54823196	54826908	-1	None	SSS1
7	SEC61G	ENSG00000132432	ENST00000352861	protein_coding	KNOWN	CCDS5513	18277	207	68	54819944	54826939	-1	None	SSS1
16	N4BP1	ENSG00000102921	ENST00000262384	protein_coding	KNOWN	CCDS45479	29850	2691	896	48572637	48644120	-1	None	None
16	N4BP1	ENSG00000102921	ENST00000565423	processed_transcript	KNOWN	None	29850	None	None	48576791	48585355	-1	None	None
16	N4BP1	ENSG00000102921	ENST00000569027	retained_intron	KNOWN	None	29850	None	None	48577075	48580495	-1	None	None
16	N4BP1	ENSG00000102921	ENST00000564124	retained_intron	KNOWN	None	29850	None	None	48580008	48654059	-1	None	None
16	N4BP1	ENSG00000102921	ENST00000565638	processed_transcript	KNOWN	None	29850	None	None	48580093	48587564	-1	None	None
16	N4BP1	ENSG00000102921	ENST00000564710	protein_coding	PUTATIVE	None	29850	427	141	48595869	48637623	-1	None	None
11	OMP	ENSG00000254550	ENST00000529803	protein_coding	KNOWN	CCDS53682	8136	492	163	76813886	76814377	1	None	None
2	LY75-CD302	ENSG00000248672	ENST00000504764	protein_coding	PUTATIVE	CCDS56141	38828	5622	1873	160628362	160761221	-1	None	None
2	LY75-CD302	ENSG00000248672	ENST00000505052	protein_coding	KNOWN	CCDS56140	38828	5454	1817	160628362	160761221	-1	None	None
8	FAM92A1	ENSG00000188343	ENST00000523475	protein_coding	PUTATIVE	None	30452	237	78	94710789	94722007	1	None	FLJ38979
8	FAM92A1	ENSG00000188343	ENST00000518829	protein_coding	PUTATIVE	None	30452	331	109	94712480	94722101	1	None	FLJ38979
8	FAM92A1	ENSG00000188343	ENST00000452913	nonsense_mediated_decay	KNOWN	None	30452	816	271	94712735	94740684	1	None	FLJ38979
8	FAM92A1	ENSG00000188343	ENST00000518322	protein_coding	KNOWN	CCDS47892	30452	870	289	94712735	94743755	1	None	FLJ38979
8	FAM92A1	ENSG00000188343	ENST00000522324	protein_coding	PUTATIVE	None	30452	489	162	94712778	94717780	1	None	FLJ38979
8	FAM92A1	ENSG00000188343	ENST00000523577	retained_intron	KNOWN	None	30452	None	None	94712781	94741478	1	None	FLJ38979
8	FAM92A1	ENSG00000188343	ENST00000359421	nonsense_mediated_decay	KNOWN	None	30452	492	163	94712790	94740674	1	None	FLJ38979
8	FAM92A1	ENSG00000188343	ENST00000522803	protein_coding	NOVEL	None	30452	505	167	94712799	94722041	1	None	FLJ38979
8	FAM92A1	ENSG00000188343	ENST00000423990	protein_coding	NOVEL	None	30452	756	251	94712810	94740617	1	None	FLJ38979
8	FAM92A1	ENSG00000188343	ENST00000520937	nonsense_mediated_decay	KNOWN	None	30452	399	132	94712822	94717228	1	None	FLJ38979
8	FAM92A1	ENSG00000188343	ENST00000518116	nonsense_mediated_decay	KNOWN	None	30452	789	262	94712842	94741478	1	None	FLJ38979
8	FAM92A1	ENSG00000188343	ENST00000523453	protein_coding	NOVEL	None	30452	563	186	94712895	94722092	1	None	FLJ38979
8	FAM92A1	ENSG00000188343	ENST00000520955	protein_coding	PUTATIVE	None	30452	196	64	94712897	94717212	1	None	FLJ38979
8	FAM92A1	ENSG00000188343	ENST00000519135	protein_coding	PUTATIVE	None	30452	111	36	94713762	94717238	1	None	FLJ38979
8	FAM92A1	ENSG00000188343	ENST00000517718	protein_coding	PUTATIVE	None	30452	405	134	94718179	94740674	1	None	FLJ38979
8	FAM92A1	ENSG00000188343	ENST00000521641	protein_coding	PUTATIVE	None	30452	405	134	94718293	94740745	1	None	FLJ38979
8	FAM92A1	ENSG00000188343	ENST00000519679	protein_coding	PUTATIVE	None	30452	345	114	94721991	94738932	1	None	FLJ38979
8	FAM92A1	ENSG00000188343	ENST00000520363	processed_transcript	PUTATIVE	None	30452	None	None	94738076	94740565	1	None	FLJ38979
HSCHR6_MHC_DBB	CCHCR1	ENSG00000206355	ENST00000420262	protein_coding	KNOWN	None	13930	769	255	31103949	31106746	-1	C6orf18	HCR
HSCHR6_MHC_DBB	CCHCR1	ENSG00000206355	ENST00000383341	protein_coding	KNOWN	None	13930	2349	782	31103949	31119721	-1	C6orf18	HCR
HSCHR6_MHC_DBB	CCHCR1	ENSG00000206355	ENST00000400352	protein_coding	KNOWN	None	13930	2349	782	31103949	31119297	-1	C6orf18	HCR
HSCHR6_MHC_DBB	CCHCR1	ENSG00000206355	ENST00000414614	protein_coding	KNOWN	None	13930	2190	729	31103949	31119709	-1	C6orf18	HCR
HSCHR6_MHC_DBB	CCHCR1	ENSG00000206355	ENST00000481280	retained_intron	KNOWN	None	13930	None	None	31104570	31106812	-1	C6orf18	HCR
HSCHR6_MHC_DBB	CCHCR1	ENSG00000206355	ENST00000463667	processed_transcript	KNOWN	None	13930	None	None	31104606	31106625	-1	C6orf18	HCR
HSCHR6_MHC_DBB	CCHCR1	ENSG00000206355	ENST00000486976	processed_transcript	KNOWN	None	13930	None	None	31110656	31119699	-1	C6orf18	HCR
HSCHR6_MHC_DBB	CCHCR1	ENSG00000206355	ENST00000449364	protein_coding	KNOWN	None	13930	948	315	31111601	31118594	-1	C6orf18	HCR
HSCHR6_MHC_DBB	CCHCR1	ENSG00000206355	ENST00000475620	retained_intron	KNOWN	None	13930	None	None	31112363	31116242	-1	C6orf18	HCR
HSCHR6_MHC_DBB	CCHCR1	ENSG00000206355	ENST00000438812	protein_coding	KNOWN	None	13930	565	187	31112588	31119590	-1	C6orf18	HCR
HSCHR6_MHC_DBB	CCHCR1	ENSG00000206355	ENST00000437918	protein_coding	KNOWN	None	13930	458	151	31116063	31119695	-1	C6orf18	HCR
HSCHR6_MHC_DBB	CCHCR1	ENSG00000206355	ENST00000417501	protein_coding	KNOWN	None	13930	514	170	31116085	31119577	-1	C6orf18	HCR
HSCHR6_MHC_DBB	CCHCR1	ENSG00000206355	ENST00000444855	protein_coding	KNOWN	None	13930	356	117	31116165	31119296	-1	C6orf18	HCR
HSCHR6_MHC_DBB	CCHCR1	ENSG00000206355	ENST00000416552	protein_coding	KNOWN	None	13930	380	125	31116219	31119713	-1	C6orf18	HCR
HSCHR6_MHC_DBB	CCHCR1	ENSG00000206355	ENST00000468912	retained_intron	KNOWN	None	13930	None	None	31117736	31118593	-1	C6orf18	HCR
HSCHR6_MHC_DBB	CCHCR1	ENSG00000206355	ENST00000474554	processed_transcript	KNOWN	None	13930	None	None	31118263	31119280	-1	C6orf18	HCR
19	CALR	ENSG00000179218	ENST00000587486	retained_intron	KNOWN	None	1455	None	None	13049392	13050961	1	None	RO, SSA, cC1qR, CRT, FLJ26680
19	CALR	ENSG00000179218	ENST00000316448	protein_coding	KNOWN	CCDS12288	1455	1254	417	13049421	13055303	1	None	RO, SSA, cC1qR, CRT, FLJ26680
19	CALR	ENSG00000179218	ENST00000590325	retained_intron	KNOWN	None	1455	None	None	13049428	13051184	1	None	RO, SSA, cC1qR, CRT, FLJ26680
19	CALR	ENSG00000179218	ENST00000588454	protein_coding	PUTATIVE	None	1455	741	246	13049459	13051686	1	None	RO, SSA, cC1qR, CRT, FLJ26680
19	CALR	ENSG00000179218	ENST00000586760	protein_coding	PUTATIVE	None	1455	491	162	13051211	13055217	1	None	RO, SSA, cC1qR, CRT, FLJ26680
19	CALR	ENSG00000179218	ENST00000586803	retained_intron	KNOWN	None	1455	None	None	13054027	13054776	1	None	RO, SSA, cC1qR, CRT, FLJ26680
19	CALR	ENSG00000179218	ENST00000586967	nonsense_mediated_decay	KNOWN	None	1455	41	12	13054687	13055303	1	None	RO, SSA, cC1qR, CRT, FLJ26680
5	DNAJC18	ENSG00000170464	ENST00000515559	processed_transcript	PUTATIVE	None	28429	None	None	138744279	138749928	-1	None	MGC29463
5	DNAJC18	ENSG00000170464	ENST00000302060	protein_coding	KNOWN	CCDS4214	28429	1077	358	138745892	138775215	-1	None	MGC29463
5	DNAJC18	ENSG00000170464	ENST00000510770	retained_intron	KNOWN	None	28429	None	None	138749744	138755999	-1	None	MGC29463
5	DNAJC18	ENSG00000170464	ENST00000508445	protein_coding	PUTATIVE	None	28429	534	177	138749876	138761918	-1	None	MGC29463
5	DNAJC18	ENSG00000170464	ENST00000514052	protein_coding	PUTATIVE	None	28429	365	120	138754757	138760737	-1	None	MGC29463
5	DNAJC18	ENSG00000170464	ENST00000507405	processed_transcript	KNOWN	None	28429	None	None	138755891	138773249	-1	None	MGC29463
5	DNAJC18	ENSG00000170464	ENST00000505568	nonsense_mediated_decay	KNOWN	None	28429	135	44	138758474	138775190	-1	None	MGC29463
5	DNAJC18	ENSG00000170464	ENST00000506870	nonsense_mediated_decay	KNOWN	None	28429	264	87	138760694	138775148	-1	None	MGC29463
5	DNAJC18	ENSG00000170464	ENST00000515581	protein_coding	KNOWN	None	28429	544	180	138761876	138780171	-1	None	MGC29463
5	DNAJC18	ENSG00000170464	ENST00000515277	protein_coding	KNOWN	None	28429	519	172	138761901	138780180	-1	None	MGC29463
5	DNAJC18	ENSG00000170464	ENST00000512473	protein_coding	KNOWN	None	28429	76	24	138773212	138780168	-1	None	MGC29463
5	DNAJC18	ENSG00000170464	ENST00000505268	processed_transcript	KNOWN	None	28429	None	None	138776368	138780140	-1	None	MGC29463
4	FGFRL1	ENSG00000127418	ENST00000512562	processed_transcript	PUTATIVE	None	3693	None	None	1003724	1004815	1	None	None
4	FGFRL1	ENSG00000127418	ENST00000398484	protein_coding	KNOWN	CCDS3344	3693	1515	504	1003767	1020679	1	None	None
4	FGFRL1	ENSG00000127418	ENST00000510644	protein_coding	KNOWN	CCDS3344	3693	1515	504	1005610	1019775	1	None	None
4	FGFRL1	ENSG00000127418	ENST00000504138	protein_coding	KNOWN	CCDS3344	3693	1515	504	1005934	1019135	1	None	None
4	FGFRL1	ENSG00000127418	ENST00000512174	protein_coding	KNOWN	None	3693	240	79	1005943	1016151	1	None	None
4	FGFRL1	ENSG00000127418	ENST00000507339	protein_coding	KNOWN	None	3693	457	151	1005944	1017628	1	None	None
4	FGFRL1	ENSG00000127418	ENST00000264748	protein_coding	KNOWN	CCDS3344	3693	1515	504	1006239	1020685	1	None	None
12	PLEKHG7	ENSG00000187510	ENST00000549856	protein_coding	PUTATIVE	None	33829	381	126	93115281	93143499	1	None	FLJ46688
12	PLEKHG7	ENSG00000187510	ENST00000344636	protein_coding	KNOWN	CCDS31873	33829	1140	379	93130311	93166231	1	None	FLJ46688
1	BCL2L15	ENSG00000188761	ENST00000369580	retained_intron	KNOWN	None	33624	None	None	114420790	114430081	-1	C1orf178	Bfk, FLJ22588
1	BCL2L15	ENSG00000188761	ENST00000393316	protein_coding	KNOWN	CCDS30809	33624	492	163	114423325	114430169	-1	C1orf178	Bfk, FLJ22588
1	BCL2L15	ENSG00000188761	ENST00000488450	processed_transcript	KNOWN	None	33624	None	None	114423637	114429927	-1	C1orf178	Bfk, FLJ22588
1	BCL2L15	ENSG00000188761	ENST00000393320	protein_coding	NOVEL	None	33624	171	56	114423676	114430059	-1	C1orf178	Bfk, FLJ22588
1	BCL2L15	ENSG00000188761	ENST00000471267	protein_coding	NOVEL	None	33624	267	88	114423745	114429997	-1	C1orf178	Bfk, FLJ22588
1	BCL2L15	ENSG00000188761	ENST00000486485	retained_intron	KNOWN	None	33624	None	None	114424386	114429997	-1	C1orf178	Bfk, FLJ22588
12	C12orf43	ENSG00000157895	ENST00000445832	protein_coding	KNOWN	None	25719	699	232	121440225	121454290	-1	None	FLJ12448
12	C12orf43	ENSG00000157895	ENST00000502891	retained_intron	KNOWN	None	25719	None	None	121441594	121445032	-1	None	FLJ12448
12	C12orf43	ENSG00000157895	ENST00000537817	protein_coding	NOVEL	None	25719	792	263	121441596	121454305	-1	None	FLJ12448
12	C12orf43	ENSG00000157895	ENST00000536407	protein_coding	PUTATIVE	None	25719	354	117	121441640	121454290	-1	None	FLJ12448
12	C12orf43	ENSG00000157895	ENST00000546272	protein_coding	PUTATIVE	None	25719	650	215	121441679	121448952	-1	None	FLJ12448
12	C12orf43	ENSG00000157895	ENST00000539736	protein_coding	NOVEL	None	25719	759	252	121441695	121454290	-1	None	FLJ12448
12	C12orf43	ENSG00000157895	ENST00000538296	protein_coding	NOVEL	None	25719	540	179	121442019	121454232	-1	None	FLJ12448
12	C12orf43	ENSG00000157895	ENST00000535367	protein_coding	PUTATIVE	None	25719	565	187	121442045	121454148	-1	None	FLJ12448
12	C12orf43	ENSG00000157895	ENST00000539088	nonsense_mediated_decay	KNOWN	None	25719	180	59	121442091	121454249	-1	None	FLJ12448
12	C12orf43	ENSG00000157895	ENST00000508193	retained_intron	KNOWN	None	25719	None	None	121443727	121454283	-1	None	FLJ12448
12	C12orf43	ENSG00000157895	ENST00000288757	protein_coding	KNOWN	CCDS9210	25719	789	262	121440848	121454300	-1	None	FLJ12448
12	C12orf43	ENSG00000157895	ENST00000366211	protein_coding	KNOWN	None	25719	666	221	121441679	121454290	-1	None	FLJ12448
21	None	ENSG00000200754	ENST00000363884	misc_RNA	NOVEL	None	None	None	None	18899458	18899565	-1	None	None
21	None	ENSG00000199962	ENST00000363092	misc_RNA	NOVEL	None	None	None	None	18949116	18949224	1	None	None
21	None	ENSG00000226956	ENST00000416641	lincRNA	KNOWN	None	None	None	None	19031594	19032702	-1	None	None
21	C21orf91-OT1	ENSG00000240770	ENST00000430815	processed_transcript	KNOWN	None	16729	None	None	19135632	19164840	-1	NCRNA00285	D21S2089E
21	C21orf91-OT1	ENSG00000240770	ENST00000430401	processed_transcript	KNOWN	None	16729	None	None	19149721	19164826	-1	NCRNA00285	D21S2089E
21	C21orf91-OT1	ENSG00000240770	ENST00000439392	processed_transcript	KNOWN	None	16729	None	None	19149721	19164826	-1	NCRNA00285	D21S2089E
12	KRT6C	ENSG00000170465	ENST00000252250	protein_coding	KNOWN	CCDS8829	20406	1695	564	52862300	52867569	-1	KRT6E	None
12	KRT6C	ENSG00000170465	ENST00000553087	retained_intron	KNOWN	None	20406	None	None	52863806	52865217	-1	KRT6E	None
13	KIAA0226L	ENSG00000102445	ENST00000487195	retained_intron	KNOWN	None	20420	None	None	46917099	46925142	-1	C13orf18	FLJ21562
13	KIAA0226L	ENSG00000102445	ENST00000378784	protein_coding	KNOWN	None	20420	1788	595	46917099	46961368	-1	C13orf18	FLJ21562
13	KIAA0226L	ENSG00000102445	ENST00000441284	nonsense_mediated_decay	KNOWN	None	20420	864	287	46917099	46961370	-1	C13orf18	FLJ21562
13	KIAA0226L	ENSG00000102445	ENST00000378787	protein_coding	KNOWN	None	20420	1908	635	46917099	46961621	-1	C13orf18	FLJ21562
13	KIAA0226L	ENSG00000102445	ENST00000389908	protein_coding	KNOWN	CCDS31970	20420	1989	662	46917099	46964177	-1	C13orf18	FLJ21562
13	KIAA0226L	ENSG00000102445	ENST00000409879	protein_coding	NOVEL	None	20420	1518	505	46917102	47012325	-1	C13orf18	FLJ21562
13	KIAA0226L	ENSG00000102445	ENST00000417405	protein_coding	PUTATIVE	None	20420	389	128	46942209	46961365	-1	C13orf18	FLJ21562
13	KIAA0226L	ENSG00000102445	ENST00000439642	protein_coding	KNOWN	None	20420	535	177	46946076	46952780	-1	C13orf18	FLJ21562
13	KIAA0226L	ENSG00000102445	ENST00000480935	processed_transcript	KNOWN	None	20420	None	None	46946188	46961367	-1	C13orf18	FLJ21562
13	KIAA0226L	ENSG00000102445	ENST00000378797	protein_coding	KNOWN	None	20420	1908	635	46916139	46961635	-1	C13orf18	FLJ21562
13	KIAA0226L	ENSG00000102445	ENST00000322896	protein_coding	KNOWN	None	20420	1518	505	46917202	46961317	-1	C13orf18	FLJ21562
13	KIAA0226L	ENSG00000102445	ENST00000429979	protein_coding	KNOWN	CCDS31970	20420	1989	662	46916139	46961635	-1	C13orf18	FLJ21562
13	KIAA0226L	ENSG00000102445	ENST00000534925	protein_coding	KNOWN	None	20420	1584	527	46917415	46961387	-1	C13orf18	FLJ21562
13	KIAA0226L	ENSG00000102445	ENST00000378781	protein_coding	KNOWN	None	20420	966	321	46916139	46961635	-1	C13orf18	FLJ21562
21	None	ENSG00000244676	ENST00000428689	processed_transcript	PUTATIVE	None	None	None	None	19165805	19183162	1	None	None
21	None	ENSG00000244676	ENST00000454737	processed_transcript	PUTATIVE	None	None	None	None	19181262	19183162	1	None	None
19	ZNF429	ENSG00000197013	ENST00000594022	processed_transcript	KNOWN	None	20817	None	None	21679484	21719301	1	None	None
19	ZNF429	ENSG00000197013	ENST00000358491	protein_coding	NOVEL	CCDS42537	20817	2025	674	21688366	21720880	1	None	None
19	ZNF429	ENSG00000197013	ENST00000596237	processed_transcript	KNOWN	None	20817	None	None	21688406	21701790	1	None	None
19	ZNF429	ENSG00000197013	ENST00000597078	protein_coding	PUTATIVE	None	20817	369	122	21688406	21738199	1	None	None
19	ZNF429	ENSG00000197013	ENST00000596126	processed_transcript	KNOWN	None	20817	None	None	21688415	21711949	1	None	None
19	ZNF429	ENSG00000197013	ENST00000598747	processed_transcript	KNOWN	None	20817	None	None	21688443	21690466	1	None	None
19	ZNF429	ENSG00000197013	ENST00000597556	processed_transcript	KNOWN	None	20817	None	None	21688501	21690477	1	None	None
19	ZNF429	ENSG00000197013	ENST00000594385	protein_coding	PUTATIVE	None	20817	281	92	21724566	21739072	1	None	None
22	None	ENSG00000197182	ENST00000381051	protein_coding	PUTATIVE	None	None	660	219	46449749	46501903	1	None	None
22	None	ENSG00000197182	ENST00000443490	protein_coding	PUTATIVE	None	None	149	48	46476192	46494438	1	None	None
22	None	ENSG00000197182	ENST00000435439	nonsense_mediated_decay	KNOWN	None	None	225	74	46481877	46507355	1	None	None
22	None	ENSG00000197182	ENST00000360737	protein_coding	PUTATIVE	None	None	483	160	46481883	46509808	1	None	None
21	CHODL-AS1	ENSG00000231755	ENST00000447175	lincRNA	KNOWN	None	1279	None	None	19207333	19257925	-1	C21orf39, NCRNA00157	None
2	PNPT1	ENSG00000138035	ENST00000447944	protein_coding	KNOWN	CCDS1856	23166	2352	783	55861400	55921045	-1	DFNB70	PNPase, OLD35, old-35
2	PNPT1	ENSG00000138035	ENST00000415374	nonsense_mediated_decay	KNOWN	CCDS1856	23166	2352	783	55861704	55920958	-1	DFNB70	PNPase, OLD35, old-35
2	PNPT1	ENSG00000138035	ENST00000260604	nonsense_mediated_decay	KNOWN	None	23166	540	179	55862229	55920977	-1	DFNB70	PNPase, OLD35, old-35
2	PNPT1	ENSG00000138035	ENST00000481066	retained_intron	KNOWN	None	23166	None	None	55863505	55874517	-1	DFNB70	PNPase, OLD35, old-35
2	PNPT1	ENSG00000138035	ENST00000415489	nonsense_mediated_decay	KNOWN	None	23166	418	138	55874536	55898503	-1	DFNB70	PNPase, OLD35, old-35
2	PNPT1	ENSG00000138035	ENST00000429805	nonsense_mediated_decay	KNOWN	None	23166	216	71	55906817	55920998	-1	DFNB70	PNPase, OLD35, old-35
17	ASGR1	ENSG00000141505	ENST00000269299	protein_coding	KNOWN	CCDS11089	742	876	291	7076750	7082883	-1	None	CLEC4H1
17	ASGR1	ENSG00000141505	ENST00000380920	protein_coding	PUTATIVE	None	742	573	190	7076872	7081435	-1	None	CLEC4H1
17	ASGR1	ENSG00000141505	ENST00000574330	protein_coding	PUTATIVE	None	742	488	161	7076877	7080365	-1	None	CLEC4H1
17	ASGR1	ENSG00000141505	ENST00000574388	protein_coding	KNOWN	CCDS56017	742	759	252	7076978	7082675	-1	None	CLEC4H1
17	ASGR1	ENSG00000141505	ENST00000572879	protein_coding	PUTATIVE	None	742	285	94	7077198	7080801	-1	None	CLEC4H1
17	ASGR1	ENSG00000141505	ENST00000570576	protein_coding	PUTATIVE	None	742	89	28	7077743	7080950	-1	None	CLEC4H1
17	ASGR1	ENSG00000141505	ENST00000573596	retained_intron	KNOWN	None	742	None	None	7079933	7082695	-1	None	CLEC4H1
17	ASGR1	ENSG00000141505	ENST00000573083	protein_coding	KNOWN	None	742	353	116	7080151	7082674	-1	None	CLEC4H1
1	HMGB4	ENSG00000176256	ENST00000519684	protein_coding	KNOWN	CCDS30668	24954	561	186	34326076	34330392	1	None	FLJ40388
1	HMGB4	ENSG00000176256	ENST00000522796	protein_coding	KNOWN	CCDS30668	24954	561	186	34326101	34330392	1	None	FLJ40388
1	HMGB4	ENSG00000176256	ENST00000458277	processed_transcript	KNOWN	None	24954	None	None	34327782	34329064	1	None	FLJ40388
1	HMGB4	ENSG00000176256	ENST00000425537	processed_transcript	KNOWN	None	24954	None	None	34329678	34330392	1	None	FLJ40388
10	PAOX	ENSG00000148832	ENST00000278060	protein_coding	KNOWN	CCDS7683	20837	1536	511	135192738	135205198	1	None	PAO
10	PAOX	ENSG00000148832	ENST00000357296	protein_coding	KNOWN	CCDS7682	20837	1461	486	135192765	135205158	1	None	PAO
10	PAOX	ENSG00000148832	ENST00000356306	nonsense_mediated_decay	KNOWN	CCDS7684	20837	978	325	135192791	135205128	1	None	PAO
10	PAOX	ENSG00000148832	ENST00000483211	nonsense_mediated_decay	KNOWN	None	20837	210	69	135192791	135205128	1	None	PAO
10	PAOX	ENSG00000148832	ENST00000476834	nonsense_mediated_decay	KNOWN	None	20837	210	69	135192791	135205128	1	None	PAO
10	PAOX	ENSG00000148832	ENST00000529585	nonsense_mediated_decay	KNOWN	None	20837	210	69	135192791	135205128	1	None	PAO
10	PAOX	ENSG00000148832	ENST00000480071	protein_coding	KNOWN	CCDS7684	20837	978	325	135192791	135205128	1	None	PAO
10	PAOX	ENSG00000148832	ENST00000368535	processed_transcript	KNOWN	None	20837	None	None	135193032	135205198	1	None	PAO
10	PAOX	ENSG00000148832	ENST00000528127	processed_transcript	KNOWN	None	20837	None	None	135193043	135193877	1	None	PAO
10	PAOX	ENSG00000148832	ENST00000530555	processed_transcript	KNOWN	None	20837	None	None	135204562	135205167	1	None	PAO
10	PAOX	ENSG00000148832	ENST00000368539	protein_coding	KNOWN	None	20837	210	69	135192695	135205195	1	None	PAO
13	SPRY2	ENSG00000136158	ENST00000377102	protein_coding	KNOWN	CCDS9463	11270	948	315	80910111	80913794	-1	None	hSPRY2
13	SPRY2	ENSG00000136158	ENST00000377104	protein_coding	KNOWN	CCDS9463	11270	948	315	80910111	80915086	-1	None	hSPRY2
13	SPRY2	ENSG00000136158	ENST00000540649	protein_coding	KNOWN	CCDS9463	11270	948	315	80910893	80914243	-1	None	hSPRY2
Y	PRRC2CP1	ENSG00000216777	ENST00000404428	processed_pseudogene	KNOWN	None	23949	None	None	3417693	3417851	-1	BAT2L2P1	BAT2D1P1
Y	USP12PY	ENSG00000232927	ENST00000427677	processed_pseudogene	KNOWN	None	23195	None	None	3550846	3551909	1	USP12P3	None
10	MYL6P3	ENSG00000227173	ENST00000436904	processed_pseudogene	KNOWN	None	37812	None	None	66929196	66929627	-1	None	None
X	FGD1	ENSG00000102302	ENST00000375135	protein_coding	KNOWN	CCDS14359	3663	2886	961	54471887	54522599	-1	FGDY	ZFYVE3
21	None	ENSG00000221335	ENST00000408408	miRNA	NOVEL	None	None	None	None	19264028	19264116	1	None	None
9	MIR3153	ENSG00000265112	ENST00000580744	miRNA	KNOWN	None	38289	None	None	91927140	91927221	1	None	hsa-mir-3153
Y	RNF19BPY	ENSG00000225653	ENST00000458209	processed_pseudogene	KNOWN	None	38398	None	None	3646038	3647587	-1	None	None
21	RPL37P3	ENSG00000215369	ENST00000456825	processed_pseudogene	KNOWN	None	17238	None	None	19266510	19266802	-1	None	RL37P
9	None	ENSG00000231799	ENST00000438325	processed_pseudogene	KNOWN	None	None	None	None	92064473	92065669	1	None	None
Y	None	ENSG00000218410	ENST00000405035	processed_pseudogene	KNOWN	None	None	None	None	3719265	3720910	-1	None	None
9	None	ENSG00000225460	ENST00000430017	processed_pseudogene	KNOWN	None	None	None	None	92087152	92087607	1	None	None
18	TCF4	ENSG00000196628	ENST00000356073	protein_coding	KNOWN	CCDS11960	11634	2004	667	52889565	53255860	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000568673	protein_coding	PUTATIVE	CCDS58629	11634	1944	647	52894905	53253139	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000457482	protein_coding	KNOWN	CCDS58624	11634	1536	511	52894920	52989525	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000543082	protein_coding	KNOWN	CCDS58628	11634	1878	625	52894920	53178000	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000540999	protein_coding	PUTATIVE	None	11634	1932	643	52894921	53253336	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000537578	protein_coding	KNOWN	CCDS58629	11634	1944	647	52894983	53257045	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000564999	protein_coding	KNOWN	CCDS11960	11634	2004	667	52895051	53255841	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000568740	protein_coding	PUTATIVE	None	11634	1929	642	52895077	53257029	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000562680	retained_intron	KNOWN	None	11634	None	None	52895080	53068899	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000537856	protein_coding	KNOWN	CCDS58626	11634	1614	537	52895080	53068921	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000544241	protein_coding	KNOWN	CCDS58627	11634	1803	600	52895086	53071226	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000561992	protein_coding	PUTATIVE	CCDS58626	11634	1614	537	52895095	53089723	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000561831	protein_coding	KNOWN	CCDS58623	11634	1524	507	52895109	52969857	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000565018	protein_coding	KNOWN	CCDS42438	11634	2016	671	52895115	53256751	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000570287	protein_coding	KNOWN	CCDS58625	11634	1524	507	52895142	52989217	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000564228	protein_coding	NOVEL	None	11634	1791	596	52895142	53070945	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000567880	protein_coding	NOVEL	None	11634	1824	607	52895142	53254347	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000566286	protein_coding	KNOWN	CCDS59321	11634	1995	664	52895142	53255766	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000566279	protein_coding	NOVEL	None	11634	1836	611	52895142	53255848	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000564403	protein_coding	KNOWN	CCDS58630	11634	2034	677	52895167	53257034	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000398339	protein_coding	KNOWN	CCDS58631	11634	2322	773	52895167	53303185	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000570177	protein_coding	KNOWN	CCDS58626	11634	1614	537	52895215	53069471	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000563760	processed_transcript	KNOWN	None	11634	None	None	52921735	52989036	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000570146	protein_coding	PUTATIVE	None	11634	500	165	52926852	52942902	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000563686	retained_intron	KNOWN	None	11634	None	None	52931827	53131375	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000569012	protein_coding	PUTATIVE	None	11634	488	161	52937106	53068782	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000566514	protein_coding	PUTATIVE	None	11634	797	264	52937115	53253000	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000568169	protein_coding	PUTATIVE	None	11634	841	279	52937155	53332018	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000562607	protein_coding	PUTATIVE	None	11634	370	122	52942879	53019228	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000568186	protein_coding	PUTATIVE	None	11634	358	118	52942891	53070937	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000562638	protein_coding	PUTATIVE	None	11634	356	117	52942893	53068943	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000566777	protein_coding	PUTATIVE	None	11634	338	111	52942911	53089586	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000565908	protein_coding	PUTATIVE	None	11634	629	208	52942938	53255391	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000566376	processed_transcript	KNOWN	None	11634	None	None	52999298	53070737	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000590810	protein_coding	PUTATIVE	None	11634	161	52	53017588	53069082	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000562030	protein_coding	PUTATIVE	None	11634	159	52	53017590	53068566	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000563824	protein_coding	PUTATIVE	None	11634	472	156	53017595	53252668	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000568147	protein_coding	PUTATIVE	None	11634	460	152	53017607	53253199	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000562512	protein_coding	PUTATIVE	None	11634	122	39	53017627	53089743	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000563888	protein_coding	PUTATIVE	None	11634	434	143	53017633	53253350	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000564343	protein_coding	PUTATIVE	None	11634	405	134	53018127	53258510	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000562543	protein_coding	KNOWN	None	11634	418	138	53018186	53258401	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000562847	protein_coding	PUTATIVE	None	11634	169	55	53018198	53253197	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000565580	processed_transcript	KNOWN	None	11634	None	None	53070685	53214165	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000569357	protein_coding	PUTATIVE	None	11634	297	98	53070685	53303123	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000565124	protein_coding	PUTATIVE	None	11634	481	159	53252511	53303179	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000565393	protein_coding	PUTATIVE	None	11634	314	103	53252548	53298593	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
18	TCF4	ENSG00000196628	ENST00000354452	protein_coding	KNOWN	CCDS42438	11634	2016	671	52889562	53255860	-1	None	SEF2-1B, ITF2, bHLHb19, E2-2
10	None	ENSG00000233724	ENST00000441175	processed_pseudogene	KNOWN	None	None	None	None	67007790	67008550	-1	None	None
HSCHR6_MHC_QBL	NELFE	ENSG00000206357	ENST00000383343	protein_coding	KNOWN	None	13974	1143	380	31910261	31917261	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_QBL	NELFE	ENSG00000206357	ENST00000496691	retained_intron	KNOWN	None	13974	None	None	31910402	31917088	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_QBL	NELFE	ENSG00000206357	ENST00000466654	retained_intron	KNOWN	None	13974	None	None	31910402	31917113	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_QBL	NELFE	ENSG00000206357	ENST00000425810	protein_coding	KNOWN	None	13974	1001	332	31911932	31917126	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_QBL	NELFE	ENSG00000206357	ENST00000434518	protein_coding	KNOWN	None	13974	881	292	31912478	31916648	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_QBL	NELFE	ENSG00000206357	ENST00000449057	protein_coding	KNOWN	None	13974	722	239	31912734	31916740	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_QBL	NELFE	ENSG00000206357	ENST00000478280	retained_intron	KNOWN	None	13974	None	None	31912924	31917207	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_QBL	NELFE	ENSG00000206357	ENST00000471034	processed_transcript	KNOWN	None	13974	None	None	31912947	31917137	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_QBL	NELFE	ENSG00000206357	ENST00000420039	protein_coding	KNOWN	None	13974	477	158	31912994	31917028	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_QBL	NELFE	ENSG00000206357	ENST00000479908	retained_intron	KNOWN	None	13974	None	None	31913239	31917134	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_QBL	NELFE	ENSG00000206357	ENST00000460970	processed_transcript	KNOWN	None	13974	None	None	31913393	31917123	-1	RDBP	RD, D6S45, NELF-E, RDP
Y	UBE2V1P3	ENSG00000229518	ENST00000439651	processed_pseudogene	KNOWN	None	23983	None	None	3734347	3734763	-1	None	None
Y	None	ENSG00000229308	ENST00000426699	lincRNA	KNOWN	None	None	None	None	3904538	3968361	1	None	None
1	C1orf94	ENSG00000142698	ENST00000373374	protein_coding	KNOWN	CCDS381	28250	1227	408	34632484	34684732	1	None	MGC15882
1	C1orf94	ENSG00000142698	ENST00000488417	protein_coding	KNOWN	CCDS44108	28250	1797	598	34643271	34684732	1	None	MGC15882
Y	RNU6-303P	ENSG00000252900	ENST00000517091	snRNA	KNOWN	None	47266	None	None	4043026	4043131	-1	None	None
2	PLA2R1	ENSG00000153246	ENST00000460710	processed_transcript	KNOWN	None	9042	None	None	160788519	160801511	-1	None	PLA2G1R, PLA2IR, PLA2-R, CLEC13C
2	PLA2R1	ENSG00000153246	ENST00000283243	protein_coding	KNOWN	CCDS33309	9042	4392	1463	160794362	160919121	-1	None	PLA2G1R, PLA2IR, PLA2-R, CLEC13C
2	PLA2R1	ENSG00000153246	ENST00000392771	protein_coding	KNOWN	CCDS42767	9042	3975	1324	160802326	160919121	-1	None	PLA2G1R, PLA2IR, PLA2-R, CLEC13C
Y	SERBP1P2	ENSG00000225878	ENST00000436888	processed_pseudogene	KNOWN	None	23967	None	None	4669726	4670889	-1	None	None
Y	RNU2-57P	ENSG00000252468	ENST00000516659	snRNA	KNOWN	None	48550	None	None	4887117	4887307	1	None	None
22	CHCHD10	ENSG00000250479	ENST00000520222	protein_coding	PUTATIVE	None	15559	168	55	24108021	24110063	-1	C22orf16	N27C7-4
22	CHCHD10	ENSG00000250479	ENST00000401675	protein_coding	NOVEL	None	15559	450	149	24108021	24110129	-1	C22orf16	N27C7-4
22	CHCHD10	ENSG00000250479	ENST00000484558	protein_coding	KNOWN	CCDS13815	15559	429	142	24108021	24110630	-1	C22orf16	N27C7-4
22	CHCHD10	ENSG00000250479	ENST00000523865	retained_intron	KNOWN	None	15559	None	None	24108061	24108651	-1	C22orf16	N27C7-4
22	CHCHD10	ENSG00000250479	ENST00000517886	nonsense_mediated_decay	KNOWN	None	15559	300	99	24108122	24110107	-1	C22orf16	N27C7-4
16	PIGQ	ENSG00000007541	ENST00000293874	protein_coding	KNOWN	None	14135	445	147	616995	624519	1	None	hGPI1, GPI1
16	PIGQ	ENSG00000007541	ENST00000409527	protein_coding	KNOWN	CCDS10412	14135	1746	581	617009	633035	1	None	hGPI1, GPI1
16	PIGQ	ENSG00000007541	ENST00000409439	protein_coding	KNOWN	None	14135	754	250	618837	625903	1	None	hGPI1, GPI1
16	PIGQ	ENSG00000007541	ENST00000422307	protein_coding	KNOWN	None	14135	942	313	619461	626254	1	None	hGPI1, GPI1
16	PIGQ	ENSG00000007541	ENST00000321878	protein_coding	KNOWN	CCDS10412	14135	1746	581	619947	634136	1	None	hGPI1, GPI1
16	PIGQ	ENSG00000007541	ENST00000439574	protein_coding	KNOWN	None	14135	335	110	619968	624409	1	None	hGPI1, GPI1
16	PIGQ	ENSG00000007541	ENST00000026218	protein_coding	KNOWN	CCDS10411	14135	2283	760	620018	634109	1	None	hGPI1, GPI1
16	PIGQ	ENSG00000007541	ENST00000470411	protein_coding	KNOWN	None	14135	900	299	620062	627217	1	None	hGPI1, GPI1
16	PIGQ	ENSG00000007541	ENST00000443147	nonsense_mediated_decay	KNOWN	None	14135	1725	574	622506	633095	1	None	hGPI1, GPI1
16	PIGQ	ENSG00000007541	ENST00000544860	processed_transcript	PUTATIVE	None	14135	None	None	627901	628843	1	None	hGPI1, GPI1
16	PIGQ	ENSG00000007541	ENST00000537901	retained_intron	KNOWN	None	14135	None	None	628060	628802	1	None	hGPI1, GPI1
16	PIGQ	ENSG00000007541	ENST00000420990	nonsense_mediated_decay	KNOWN	None	14135	715	237	628405	632647	1	None	hGPI1, GPI1
16	PIGQ	ENSG00000007541	ENST00000480424	retained_intron	KNOWN	None	14135	None	None	628927	634108	1	None	hGPI1, GPI1
16	PIGQ	ENSG00000007541	ENST00000540241	protein_coding	NOVEL	None	14135	420	139	629091	633223	1	None	hGPI1, GPI1
16	PIGQ	ENSG00000007541	ENST00000476438	retained_intron	KNOWN	None	14135	None	None	631761	634108	1	None	hGPI1, GPI1
16	PIGQ	ENSG00000007541	ENST00000540548	processed_transcript	PUTATIVE	None	14135	None	None	632490	632947	1	None	hGPI1, GPI1
11	FADD	ENSG00000168040	ENST00000301838	protein_coding	KNOWN	CCDS8196	3573	627	208	70049269	70053496	1	None	MORT1, GIG3
19	None	ENSG00000183760	ENST00000601575	nonsense_mediated_decay	KNOWN	None	None	1104	367	39574553	39602133	1	None	None
19	None	ENSG00000183760	ENST00000331256	protein_coding	KNOWN	CCDS33018	None	1317	438	39574945	39602133	1	None	None
19	None	ENSG00000183760	ENST00000594229	protein_coding	PUTATIVE	None	None	1005	334	39575876	39600818	1	None	None
19	None	ENSG00000183760	ENST00000601531	protein_coding	NOVEL	None	None	682	226	39589703	39600812	1	None	None
17	MRPL27	ENSG00000108826	ENST00000507088	protein_coding	PUTATIVE	None	14483	282	93	48445218	48450321	-1	None	None
17	MRPL27	ENSG00000108826	ENST00000508200	protein_coding	NOVEL	None	14483	409	135	48445226	48447934	-1	None	None
17	MRPL27	ENSG00000108826	ENST00000225969	protein_coding	KNOWN	CCDS11564	14483	447	148	48445228	48450575	-1	None	None
17	MRPL27	ENSG00000108826	ENST00000503633	protein_coding	PUTATIVE	None	14483	255	84	48445229	48450557	-1	None	None
17	MRPL27	ENSG00000108826	ENST00000442592	protein_coding	PUTATIVE	None	14483	285	94	48445229	48450568	-1	None	None
17	MRPL27	ENSG00000108826	ENST00000511860	protein_coding	PUTATIVE	None	14483	282	93	48445249	48448524	-1	None	None
17	MRPL27	ENSG00000108826	ENST00000514928	retained_intron	KNOWN	None	14483	None	None	48447596	48450536	-1	None	None
12	GOLT1B	ENSG00000111711	ENST00000535593	processed_transcript	KNOWN	None	20175	None	None	21654715	21669165	1	None	CGI-141, YMR292W, GOT1
12	GOLT1B	ENSG00000111711	ENST00000542038	protein_coding	PUTATIVE	None	20175	225	74	21654727	21669118	1	None	CGI-141, YMR292W, GOT1
12	GOLT1B	ENSG00000111711	ENST00000545113	retained_intron	KNOWN	None	20175	None	None	21654749	21660239	1	None	CGI-141, YMR292W, GOT1
12	GOLT1B	ENSG00000111711	ENST00000540141	protein_coding	NOVEL	None	20175	387	128	21654749	21669137	1	None	CGI-141, YMR292W, GOT1
12	GOLT1B	ENSG00000111711	ENST00000229314	protein_coding	KNOWN	CCDS8689	20175	417	138	21654749	21671342	1	None	CGI-141, YMR292W, GOT1
12	GOLT1B	ENSG00000111711	ENST00000545093	processed_transcript	KNOWN	None	20175	None	None	21654751	21668996	1	None	CGI-141, YMR292W, GOT1
12	GOLT1B	ENSG00000111711	ENST00000539663	nonsense_mediated_decay	KNOWN	None	20175	129	42	21654758	21668801	1	None	CGI-141, YMR292W, GOT1
12	GOLT1B	ENSG00000111711	ENST00000539025	nonsense_mediated_decay	KNOWN	None	20175	129	42	21654763	21669173	1	None	CGI-141, YMR292W, GOT1
12	GOLT1B	ENSG00000111711	ENST00000542194	nonsense_mediated_decay	KNOWN	None	20175	123	40	21654787	21668680	1	None	CGI-141, YMR292W, GOT1
16	HSD3B7	ENSG00000099377	ENST00000262520	protein_coding	KNOWN	CCDS45466	18324	591	196	30996528	31000467	1	None	C(27)-3BETA-HSD, SDR11E3
16	HSD3B7	ENSG00000099377	ENST00000297679	protein_coding	KNOWN	CCDS10698	18324	1110	369	30996532	31000473	1	None	C(27)-3BETA-HSD, SDR11E3
16	HSD3B7	ENSG00000099377	ENST00000562932	protein_coding	NOVEL	None	18324	657	218	30996536	30998028	1	None	C(27)-3BETA-HSD, SDR11E3
16	HSD3B7	ENSG00000099377	ENST00000574447	protein_coding	KNOWN	None	18324	530	175	30996537	30998024	1	None	C(27)-3BETA-HSD, SDR11E3
16	HSD3B7	ENSG00000099377	ENST00000353250	protein_coding	KNOWN	CCDS45466	18324	591	196	30996519	31000473	1	None	C(27)-3BETA-HSD, SDR11E3
22	PPARA	ENSG00000186951	ENST00000440343	protein_coding	KNOWN	None	9232	27	8	46546424	46594307	1	PPAR	hPPAR, NR1C1
22	PPARA	ENSG00000186951	ENST00000415785	protein_coding	KNOWN	None	9232	208	68	46546455	46594488	1	PPAR	hPPAR, NR1C1
22	PPARA	ENSG00000186951	ENST00000420804	protein_coding	KNOWN	None	9232	400	132	46546509	46611261	1	PPAR	hPPAR, NR1C1
22	PPARA	ENSG00000186951	ENST00000460086	processed_transcript	KNOWN	None	9232	None	None	46546731	46547873	1	PPAR	hPPAR, NR1C1
22	PPARA	ENSG00000186951	ENST00000407236	protein_coding	KNOWN	CCDS33669	9232	1407	468	46547787	46639652	1	PPAR	hPPAR, NR1C1
22	PPARA	ENSG00000186951	ENST00000496865	processed_transcript	KNOWN	None	9232	None	None	46547789	46552488	1	PPAR	hPPAR, NR1C1
22	PPARA	ENSG00000186951	ENST00000484619	processed_transcript	KNOWN	None	9232	None	None	46567183	46594307	1	PPAR	hPPAR, NR1C1
22	PPARA	ENSG00000186951	ENST00000481567	processed_transcript	KNOWN	None	9232	None	None	46567231	46594307	1	PPAR	hPPAR, NR1C1
22	PPARA	ENSG00000186951	ENST00000402126	protein_coding	KNOWN	CCDS33669	9232	1407	468	46572645	46631300	1	PPAR	hPPAR, NR1C1
22	PPARA	ENSG00000186951	ENST00000493286	retained_intron	KNOWN	None	9232	None	None	46572663	46616554	1	PPAR	hPPAR, NR1C1
22	PPARA	ENSG00000186951	ENST00000396000	protein_coding	KNOWN	CCDS33669	9232	1407	468	46546499	46639653	1	PPAR	hPPAR, NR1C1
22	PPARA	ENSG00000186951	ENST00000262735	protein_coding	KNOWN	CCDS33669	9232	1407	468	46546499	46639653	1	PPAR	hPPAR, NR1C1
22	PPARA	ENSG00000186951	ENST00000434345	protein_coding	KNOWN	None	9232	525	174	46594281	46631277	1	PPAR	hPPAR, NR1C1
1	SMIM12	ENSG00000163866	ENST00000426886	nonsense_mediated_decay	KNOWN	None	25154	225	74	35178338	35325336	-1	C1orf212	FLJ90372
1	SMIM12	ENSG00000163866	ENST00000521580	protein_coding	KNOWN	CCDS53295	25154	279	92	35318270	35325417	-1	C1orf212	FLJ90372
1	SMIM12	ENSG00000163866	ENST00000446026	protein_coding	KNOWN	CCDS53295	25154	279	92	35320651	35324670	-1	C1orf212	FLJ90372
1	SMIM12	ENSG00000163866	ENST00000456842	protein_coding	KNOWN	CCDS53295	25154	279	92	35320770	35325356	-1	C1orf212	FLJ90372
1	SMIM12	ENSG00000163866	ENST00000423898	protein_coding	KNOWN	CCDS53295	25154	279	92	35320950	35325318	-1	C1orf212	FLJ90372
1	SMIM12	ENSG00000163866	ENST00000417239	protein_coding	KNOWN	CCDS53295	25154	279	92	35321290	35324646	-1	C1orf212	FLJ90372
1	AP4B1	ENSG00000134262	ENST00000369567	protein_coding	KNOWN	None	572	1716	571	114437370	114447450	-1	SPG47	BETA-4
1	AP4B1	ENSG00000134262	ENST00000369569	protein_coding	KNOWN	CCDS865	572	2220	739	114437370	114447620	-1	SPG47	BETA-4
1	AP4B1	ENSG00000134262	ENST00000256658	protein_coding	KNOWN	CCDS865	572	2220	739	114437370	114447692	-1	SPG47	BETA-4
1	AP4B1	ENSG00000134262	ENST00000479285	processed_transcript	KNOWN	None	572	None	None	114437678	114442867	-1	SPG47	BETA-4
1	AP4B1	ENSG00000134262	ENST00000462591	processed_transcript	KNOWN	None	572	None	None	114437682	114440561	-1	SPG47	BETA-4
1	AP4B1	ENSG00000134262	ENST00000479801	processed_transcript	KNOWN	None	572	None	None	114438667	114440597	-1	SPG47	BETA-4
1	AP4B1	ENSG00000134262	ENST00000484201	processed_transcript	KNOWN	None	572	None	None	114438971	114447678	-1	SPG47	BETA-4
1	AP4B1	ENSG00000134262	ENST00000460653	processed_transcript	KNOWN	None	572	None	None	114441750	114442630	-1	SPG47	BETA-4
1	AP4B1	ENSG00000134262	ENST00000369564	protein_coding	KNOWN	None	572	889	295	114442526	114447823	-1	SPG47	BETA-4
1	AP4B1	ENSG00000134262	ENST00000489499	processed_transcript	KNOWN	None	572	None	None	114442564	114447455	-1	SPG47	BETA-4
1	AP4B1	ENSG00000134262	ENST00000432415	protein_coding	KNOWN	None	572	526	174	114442610	114447642	-1	SPG47	BETA-4
1	AP4B1	ENSG00000134262	ENST00000489092	processed_transcript	KNOWN	None	572	None	None	114442684	114447466	-1	SPG47	BETA-4
1	AP4B1	ENSG00000134262	ENST00000369571	protein_coding	KNOWN	None	572	787	261	114442853	114447659	-1	SPG47	BETA-4
1	AP4B1	ENSG00000134262	ENST00000472122	processed_transcript	KNOWN	None	572	None	None	114442953	114444741	-1	SPG47	BETA-4
1	AP4B1	ENSG00000134262	ENST00000369566	protein_coding	KNOWN	None	572	909	302	114442031	114447485	-1	SPG47	BETA-4
11	None	ENSG00000204306	ENST00000375081	protein_coding	KNOWN	None	None	123	40	120382511	120385732	1	None	None
HSCHR6_MHC_COX	RPP21	ENSG00000241863	ENST00000455025	protein_coding	KNOWN	None	21300	489	162	30302714	30304440	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_COX	RPP21	ENSG00000241863	ENST00000484136	processed_transcript	KNOWN	None	21300	None	None	30302717	30304076	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_COX	RPP21	ENSG00000241863	ENST00000472865	retained_intron	KNOWN	None	21300	None	None	30302725	30304440	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_COX	RPP21	ENSG00000241863	ENST00000461233	processed_transcript	KNOWN	None	21300	None	None	30302734	30304440	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_COX	RPP21	ENSG00000241863	ENST00000496417	processed_transcript	KNOWN	None	21300	None	None	30302736	30304467	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_COX	RPP21	ENSG00000241863	ENST00000493641	retained_intron	KNOWN	None	21300	None	None	30302738	30304440	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_COX	RPP21	ENSG00000241863	ENST00000424616	protein_coding	KNOWN	None	21300	465	154	30302742	30304440	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_COX	RPP21	ENSG00000241863	ENST00000411784	protein_coding	KNOWN	None	21300	534	177	30302742	30304440	1	C6orf135	FLJ22638, Em:AB014085.3
HSCHR6_MHC_COX	RPP21	ENSG00000241863	ENST00000437470	protein_coding	KNOWN	None	21300	435	144	30302752	30304440	1	C6orf135	FLJ22638, Em:AB014085.3
9	None	ENSG00000264913	ENST00000582777	miRNA	NOVEL	None	None	None	None	92112853	92112936	1	None	None
9	None	ENSG00000237372	ENST00000444374	lincRNA	KNOWN	None	None	None	None	92316566	92334585	1	None	None
9	None	ENSG00000226206	ENST00000421297	lincRNA	KNOWN	None	None	None	None	92501142	92523200	1	None	None
1	GJB5	ENSG00000189280	ENST00000338513	protein_coding	KNOWN	CCDS382	4287	822	273	35220648	35224113	1	None	CX31.1
5	PRELID1	ENSG00000169230	ENST00000303204	protein_coding	KNOWN	CCDS4415	30255	660	219	176730775	176733960	1	None	CGI-106, PX19, PRELI
5	PRELID1	ENSG00000169230	ENST00000511309	retained_intron	KNOWN	None	30255	None	None	176730804	176733148	1	None	CGI-106, PX19, PRELI
5	PRELID1	ENSG00000169230	ENST00000510797	nonsense_mediated_decay	KNOWN	None	30255	114	37	176730812	176733154	1	None	CGI-106, PX19, PRELI
5	PRELID1	ENSG00000169230	ENST00000504594	nonsense_mediated_decay	KNOWN	None	30255	330	109	176730816	176733670	1	None	CGI-106, PX19, PRELI
5	PRELID1	ENSG00000169230	ENST00000503216	protein_coding	NOVEL	None	30255	627	208	176730822	176733950	1	None	CGI-106, PX19, PRELI
5	PRELID1	ENSG00000169230	ENST00000502670	processed_transcript	KNOWN	None	30255	None	None	176730856	176731851	1	None	CGI-106, PX19, PRELI
5	PRELID1	ENSG00000169230	ENST00000503853	protein_coding	PUTATIVE	None	30255	608	201	176731689	176733615	1	None	CGI-106, PX19, PRELI
5	PRELID1	ENSG00000169230	ENST00000510701	retained_intron	KNOWN	None	30255	None	None	176732617	176733164	1	None	CGI-106, PX19, PRELI
1	GJB4	ENSG00000189433	ENST00000339480	protein_coding	KNOWN	CCDS383	4286	801	266	35225342	35229325	1	None	CX30.3
9	PRPS1P2	ENSG00000232630	ENST00000430496	processed_pseudogene	KNOWN	None	9464	None	None	127912932	127913868	1	PRPS1L2	None
9	None	ENSG00000235332	ENST00000444599	processed_pseudogene	KNOWN	None	None	None	None	127956928	127958100	-1	None	None
7	FKBP9	ENSG00000122642	ENST00000242209	protein_coding	KNOWN	CCDS5439	3725	1713	570	32997017	33046543	1	None	FKBP60, FKBP63
7	FKBP9	ENSG00000122642	ENST00000469202	processed_transcript	PUTATIVE	None	3725	None	None	32997037	33016116	1	None	FKBP60, FKBP63
7	FKBP9	ENSG00000122642	ENST00000494374	retained_intron	KNOWN	None	3725	None	None	32997050	33028638	1	None	FKBP60, FKBP63
7	FKBP9	ENSG00000122642	ENST00000464334	processed_transcript	PUTATIVE	None	3725	None	None	32997053	33014256	1	None	FKBP60, FKBP63
7	FKBP9	ENSG00000122642	ENST00000485309	retained_intron	KNOWN	None	3725	None	None	33014207	33016017	1	None	FKBP60, FKBP63
7	FKBP9	ENSG00000122642	ENST00000472007	processed_transcript	KNOWN	None	3725	None	None	33014853	33034692	1	None	FKBP60, FKBP63
7	FKBP9	ENSG00000122642	ENST00000489038	processed_transcript	KNOWN	None	3725	None	None	33016020	33032686	1	None	FKBP60, FKBP63
7	FKBP9	ENSG00000122642	ENST00000418354	protein_coding	PUTATIVE	None	3725	677	224	33019086	33039873	1	None	FKBP60, FKBP63
7	FKBP9	ENSG00000122642	ENST00000463443	processed_transcript	PUTATIVE	None	3725	None	None	33020050	33034717	1	None	FKBP60, FKBP63
7	FKBP9	ENSG00000122642	ENST00000468510	retained_intron	KNOWN	None	3725	None	None	33028198	33042540	1	None	FKBP60, FKBP63
7	FKBP9	ENSG00000122642	ENST00000475220	processed_transcript	KNOWN	None	3725	None	None	33038151	33044983	1	None	FKBP60, FKBP63
7	FKBP9	ENSG00000122642	ENST00000471066	processed_transcript	PUTATIVE	None	3725	None	None	33042374	33045221	1	None	FKBP60, FKBP63
7	FKBP9	ENSG00000122642	ENST00000538336	protein_coding	KNOWN	None	3725	1872	623	32997053	33045211	1	None	FKBP60, FKBP63
7	FKBP9	ENSG00000122642	ENST00000538443	protein_coding	KNOWN	None	3725	1299	432	32997086	33046456	1	None	FKBP60, FKBP63
7	FKBP9	ENSG00000122642	ENST00000490776	protein_coding	KNOWN	None	3725	1017	338	33019111	33045362	1	None	FKBP60, FKBP63
9	None	ENSG00000239705	ENST00000468244	antisense	KNOWN	None	None	None	None	128003942	128019297	1	None	None
10	AKR1C2	ENSG00000151632	ENST00000380753	protein_coding	KNOWN	CCDS7062	385	972	323	5029967	5046215	-1	DDH2	DD, BABP, DD2, HAKRD, MCDR2
10	AKR1C2	ENSG00000151632	ENST00000421196	protein_coding	KNOWN	None	385	894	297	5031626	5046052	-1	DDH2	DD, BABP, DD2, HAKRD, MCDR2
10	AKR1C2	ENSG00000151632	ENST00000460124	retained_intron	KNOWN	None	385	None	None	5031981	5046215	-1	DDH2	DD, BABP, DD2, HAKRD, MCDR2
10	AKR1C2	ENSG00000151632	ENST00000604507	protein_coding	KNOWN	None	385	602	199	5038026	5060147	-1	DDH2	DD, BABP, DD2, HAKRD, MCDR2
10	AKR1C2	ENSG00000151632	ENST00000604184	processed_transcript	KNOWN	None	385	None	None	5042495	5046053	-1	DDH2	DD, BABP, DD2, HAKRD, MCDR2
10	AKR1C2	ENSG00000151632	ENST00000604428	processed_transcript	KNOWN	None	385	None	None	5048187	5060223	-1	DDH2	DD, BABP, DD2, HAKRD, MCDR2
10	AKR1C2	ENSG00000151632	ENST00000604711	processed_transcript	KNOWN	None	385	None	None	5048654	5060126	-1	DDH2	DD, BABP, DD2, HAKRD, MCDR2
10	AKR1C2	ENSG00000151632	ENST00000603073	processed_transcript	KNOWN	None	385	None	None	5052655	5058084	-1	DDH2	DD, BABP, DD2, HAKRD, MCDR2
10	AKR1C2	ENSG00000151632	ENST00000604439	processed_transcript	KNOWN	None	385	None	None	5055499	5057240	-1	DDH2	DD, BABP, DD2, HAKRD, MCDR2
10	AKR1C2	ENSG00000151632	ENST00000407674	protein_coding	KNOWN	CCDS7062	385	972	323	5031966	5060207	-1	DDH2	DD, BABP, DD2, HAKRD, MCDR2
10	AKR1C2	ENSG00000151632	ENST00000455190	protein_coding	KNOWN	CCDS44350	385	420	139	5042103	5046053	-1	DDH2	DD, BABP, DD2, HAKRD, MCDR2
1	GJB3	ENSG00000188910	ENST00000373366	protein_coding	KNOWN	CCDS384	4285	813	270	35246790	35251965	1	DFNA2, EKV	CX31
1	GJB3	ENSG00000188910	ENST00000373362	protein_coding	KNOWN	CCDS384	4285	813	270	35247879	35251970	1	DFNA2, EKV	CX31
6	KIF6	ENSG00000164627	ENST00000458470	protein_coding	KNOWN	None	21202	2069	688	39297766	39607459	-1	C6orf102	dJ1043E3.1, MGC33317, dJ137F1.4, dJ188D3.1, DKFZp451I2418
6	KIF6	ENSG00000164627	ENST00000287152	protein_coding	KNOWN	CCDS4844	21202	2445	814	39297766	39693181	-1	C6orf102	dJ1043E3.1, MGC33317, dJ137F1.4, dJ188D3.1, DKFZp451I2418
6	KIF6	ENSG00000164627	ENST00000394362	protein_coding	KNOWN	None	21202	747	248	39302876	39399150	-1	C6orf102	dJ1043E3.1, MGC33317, dJ137F1.4, dJ188D3.1, DKFZp451I2418
6	KIF6	ENSG00000164627	ENST00000229913	protein_coding	KNOWN	None	21202	798	265	39303930	39399089	-1	C6orf102	dJ1043E3.1, MGC33317, dJ137F1.4, dJ188D3.1, DKFZp451I2418
6	KIF6	ENSG00000164627	ENST00000441975	protein_coding	KNOWN	None	21202	486	161	39550951	39564036	-1	C6orf102	dJ1043E3.1, MGC33317, dJ137F1.4, dJ188D3.1, DKFZp451I2418
6	KIF6	ENSG00000164627	ENST00000482238	processed_transcript	KNOWN	None	21202	None	None	39607454	39693181	-1	C6orf102	dJ1043E3.1, MGC33317, dJ137F1.4, dJ188D3.1, DKFZp451I2418
6	KIF6	ENSG00000164627	ENST00000465719	processed_transcript	KNOWN	None	21202	None	None	39657754	39682735	-1	C6orf102	dJ1043E3.1, MGC33317, dJ137F1.4, dJ188D3.1, DKFZp451I2418
6	KIF6	ENSG00000164627	ENST00000373216	protein_coding	KNOWN	None	21202	2394	797	39302876	39693181	-1	C6orf102	dJ1043E3.1, MGC33317, dJ137F1.4, dJ188D3.1, DKFZp451I2418
6	KIF6	ENSG00000164627	ENST00000373215	protein_coding	KNOWN	None	21202	2394	797	39304239	39693111	-1	C6orf102	dJ1043E3.1, MGC33317, dJ137F1.4, dJ188D3.1, DKFZp451I2418
6	KIF6	ENSG00000164627	ENST00000538893	protein_coding	KNOWN	None	21202	2277	758	39304249	39693111	-1	C6orf102	dJ1043E3.1, MGC33317, dJ137F1.4, dJ188D3.1, DKFZp451I2418
6	KIF6	ENSG00000164627	ENST00000373213	protein_coding	KNOWN	None	21202	1962	653	39302876	39585529	-1	C6orf102	dJ1043E3.1, MGC33317, dJ137F1.4, dJ188D3.1, DKFZp451I2418
6	KIF6	ENSG00000164627	ENST00000541946	protein_coding	KNOWN	None	21202	882	293	39310413	39399109	-1	C6orf102	dJ1043E3.1, MGC33317, dJ137F1.4, dJ188D3.1, DKFZp451I2418
5	PRDM6	ENSG00000061455	ENST00000407847	protein_coding	KNOWN	CCDS47259	9350	1788	595	122424816	122523745	1	None	None
5	PRDM6	ENSG00000061455	ENST00000434521	nonsense_mediated_decay	KNOWN	None	9350	220	72	122435440	122515979	1	None	None
5	PRDM6	ENSG00000061455	ENST00000464424	processed_transcript	KNOWN	None	9350	None	None	122435441	122506629	1	None	None
5	PRDM6	ENSG00000061455	ENST00000427739	processed_transcript	KNOWN	None	9350	None	None	122509095	122516013	1	None	None
22	CDPF1	ENSG00000205643	ENST00000404583	protein_coding	NOVEL	None	33710	357	118	46639908	46644182	-1	C22orf40	LOC150383
22	CDPF1	ENSG00000205643	ENST00000314567	protein_coding	NOVEL	CCDS33670	33710	372	123	46639910	46646576	-1	C22orf40	LOC150383
22	CDPF1	ENSG00000205643	ENST00000381037	nonsense_mediated_decay	KNOWN	None	33710	270	89	46639918	46646186	-1	C22orf40	LOC150383
22	CDPF1	ENSG00000205643	ENST00000404744	protein_coding	PUTATIVE	None	33710	348	115	46639948	46644182	-1	C22orf40	LOC150383
22	CDPF1	ENSG00000205643	ENST00000475605	processed_transcript	KNOWN	None	33710	None	None	46640520	46646191	-1	C22orf40	LOC150383
22	CDPF1	ENSG00000205643	ENST00000474256	processed_transcript	KNOWN	None	33710	None	None	46640806	46646208	-1	C22orf40	LOC150383
Y	VDAC1P6	ENSG00000231341	ENST00000430062	processed_pseudogene	KNOWN	None	37481	None	None	5075256	5076110	-1	None	None
4	RNF212	ENSG00000178222	ENST00000514024	retained_intron	KNOWN	None	27729	None	None	1050038	1052215	-1	LOC285498	FLJ38841
4	RNF212	ENSG00000178222	ENST00000503206	processed_transcript	KNOWN	None	27729	None	None	1050042	1075391	-1	LOC285498	FLJ38841
4	RNF212	ENSG00000178222	ENST00000514757	retained_intron	KNOWN	None	27729	None	None	1050042	1075745	-1	LOC285498	FLJ38841
4	RNF212	ENSG00000178222	ENST00000505693	retained_intron	KNOWN	None	27729	None	None	1050042	1075745	-1	LOC285498	FLJ38841
4	RNF212	ENSG00000178222	ENST00000508633	retained_intron	KNOWN	None	27729	None	None	1050654	1067542	-1	LOC285498	FLJ38841
4	RNF212	ENSG00000178222	ENST00000506730	nonsense_mediated_decay	KNOWN	None	27729	159	52	1050701	1107328	-1	LOC285498	FLJ38841
4	RNF212	ENSG00000178222	ENST00000382968	protein_coding	KNOWN	CCDS3345	27729	699	232	1065269	1107350	-1	LOC285498	FLJ38841
4	RNF212	ENSG00000178222	ENST00000433731	protein_coding	KNOWN	CCDS46996	27729	894	297	1066544	1107314	-1	LOC285498	FLJ38841
4	RNF212	ENSG00000178222	ENST00000511620	nonsense_mediated_decay	KNOWN	None	27729	372	123	1066544	1107314	-1	LOC285498	FLJ38841
4	RNF212	ENSG00000178222	ENST00000508428	nonsense_mediated_decay	KNOWN	None	27729	159	52	1066639	1107303	-1	LOC285498	FLJ38841
4	RNF212	ENSG00000178222	ENST00000510715	nonsense_mediated_decay	KNOWN	None	27729	348	115	1066710	1107329	-1	LOC285498	FLJ38841
4	RNF212	ENSG00000178222	ENST00000512552	retained_intron	KNOWN	None	27729	None	None	1079498	1093648	-1	LOC285498	FLJ38841
4	RNF212	ENSG00000178222	ENST00000333673	protein_coding	KNOWN	CCDS54704	27729	822	273	1087096	1107318	-1	LOC285498	FLJ38841
4	RNF212	ENSG00000178222	ENST00000454487	retained_intron	KNOWN	None	27729	None	None	1090251	1107335	-1	LOC285498	FLJ38841
4	RNF212	ENSG00000178222	ENST00000505730	processed_transcript	KNOWN	None	27729	None	None	1094701	1107319	-1	LOC285498	FLJ38841
5	NDUFA2	ENSG00000131495	ENST00000510680	processed_transcript	PUTATIVE	None	7685	None	None	140018325	140026899	-1	None	B8
5	NDUFA2	ENSG00000131495	ENST00000252102	protein_coding	KNOWN	CCDS4234	7685	300	99	140024870	140027370	-1	None	B8
5	NDUFA2	ENSG00000131495	ENST00000512088	protein_coding	PUTATIVE	CCDS54911	7685	231	76	140024954	140027230	-1	None	B8
5	NDUFA2	ENSG00000131495	ENST00000502960	retained_intron	KNOWN	None	7685	None	None	140025059	140027356	-1	None	B8
HSCHR6_MHC_QBL	UBD	ENSG00000206513	ENST00000383641	protein_coding	KNOWN	None	18795	498	165	29523310	29527624	-1	None	FAT10
1	GJA4	ENSG00000187513	ENST00000342280	protein_coding	KNOWN	CCDS30669	4278	1002	333	35258599	35261348	1	None	CX37
1	GJA4	ENSG00000187513	ENST00000450137	protein_coding	KNOWN	None	4278	877	291	35258600	35260691	1	None	CX37
Y	EIF4A1P2	ENSG00000235001	ENST00000422633	processed_pseudogene	KNOWN	None	23946	None	None	5205786	5207005	-1	None	None
Y	EIF4A1P2	ENSG00000235001	ENST00000545933	processed_pseudogene	KNOWN	None	23946	None	None	5205788	5206981	-1	None	None
21	WDR4	ENSG00000160193	ENST00000330317	protein_coding	KNOWN	CCDS13691	12756	1239	412	44263204	44299641	-1	None	TRM82, TRMT82
21	WDR4	ENSG00000160193	ENST00000492742	processed_transcript	KNOWN	None	12756	None	None	44269336	44299385	-1	None	TRM82, TRMT82
21	WDR4	ENSG00000160193	ENST00000398208	protein_coding	KNOWN	CCDS13691	12756	1239	412	44269336	44299665	-1	None	TRM82, TRMT82
21	WDR4	ENSG00000160193	ENST00000476326	processed_transcript	KNOWN	None	12756	None	None	44269336	44299678	-1	None	TRM82, TRMT82
21	WDR4	ENSG00000160193	ENST00000479429	processed_transcript	KNOWN	None	12756	None	None	44274672	44299625	-1	None	TRM82, TRMT82
21	WDR4	ENSG00000160193	ENST00000463902	processed_transcript	KNOWN	None	12756	None	None	44275794	44299656	-1	None	TRM82, TRMT82
21	WDR4	ENSG00000160193	ENST00000470658	processed_transcript	KNOWN	None	12756	None	None	44282392	44299620	-1	None	TRM82, TRMT82
Y	KRT18P10	ENSG00000214207	ENST00000388836	processed_pseudogene	KNOWN	None	23962	None	None	5441186	5442472	1	None	None
11	TBCEL	ENSG00000154114	ENST00000529397	protein_coding	PUTATIVE	CCDS31692	28115	1275	424	120894781	120957805	1	LRRC35	MGC10233
11	TBCEL	ENSG00000154114	ENST00000284259	nonsense_mediated_decay	KNOWN	None	28115	357	118	120894802	120960316	1	LRRC35	MGC10233
11	TBCEL	ENSG00000154114	ENST00000528512	protein_coding	PUTATIVE	None	28115	249	82	120894822	120918352	1	LRRC35	MGC10233
11	TBCEL	ENSG00000154114	ENST00000531148	nonsense_mediated_decay	KNOWN	None	28115	306	101	120894830	120959054	1	LRRC35	MGC10233
11	TBCEL	ENSG00000154114	ENST00000422003	protein_coding	KNOWN	CCDS31692	28115	1275	424	120894830	120961484	1	LRRC35	MGC10233
11	TBCEL	ENSG00000154114	ENST00000533712	nonsense_mediated_decay	KNOWN	None	28115	357	118	120894853	120957648	1	LRRC35	MGC10233
11	TBCEL	ENSG00000154114	ENST00000524726	protein_coding	PUTATIVE	None	28115	714	237	120905950	120926019	1	LRRC35	MGC10233
11	TBCEL	ENSG00000154114	ENST00000530362	retained_intron	KNOWN	None	28115	None	None	120916470	120918610	1	LRRC35	MGC10233
11	TBCEL	ENSG00000154114	ENST00000533134	protein_coding	PUTATIVE	None	28115	329	108	120916490	120957558	1	LRRC35	MGC10233
11	TBCEL	ENSG00000154114	ENST00000533169	retained_intron	KNOWN	None	28115	None	None	120925457	120957891	1	LRRC35	MGC10233
HSCHR6_MHC_QBL	OR2H2	ENSG00000206512	ENST00000376947	protein_coding	KNOWN	None	8253	939	312	29555617	29556679	1	None	hs6M1-12
14	ACOT4	ENSG00000177465	ENST00000326303	protein_coding	KNOWN	CCDS9817	19748	1266	421	74058410	74063200	1	None	FLJ31235, PTE-Ib, PTE2B
9	None	ENSG00000214593	ENST00000453641	processed_pseudogene	KNOWN	None	None	None	None	128026124	128026369	-1	None	None
Y	None	ENSG00000252059	ENST00000516250	miRNA	NOVEL	None	None	None	None	5441969	5442060	1	None	None
Y	RPL26P37	ENSG00000235175	ENST00000411983	processed_pseudogene	KNOWN	None	36004	None	None	5661341	5661778	-1	None	None
22	PKDREJ	ENSG00000130943	ENST00000253255	protein_coding	KNOWN	CCDS14073	9015	6762	2253	46651560	46659219	-1	None	None
Y	None	ENSG00000251879	ENST00000516070	miRNA	NOVEL	None	None	None	None	5742287	5742379	1	None	None
Y	DLGAP5P1	ENSG00000237195	ENST00000430307	processed_pseudogene	KNOWN	None	23945	None	None	6026843	6027306	1	None	None
6	PRDM13	ENSG00000112238	ENST00000369215	protein_coding	KNOWN	CCDS43487	13998	2124	707	100054606	100062635	1	None	None
6	PRDM13	ENSG00000112238	ENST00000369214	protein_coding	KNOWN	None	13998	2154	717	100054650	100063454	1	None	None
HSCHR6_MHC_MCF	HLA-DQA1	ENSG00000228284	ENST00000445944	protein_coding	KNOWN	None	4942	73	23	32631439	32640781	1	HLA-DQA	CELIAC1
HSCHR6_MHC_MCF	HLA-DQA1	ENSG00000228284	ENST00000456258	protein_coding	KNOWN	None	4942	768	255	32640607	32646851	1	HLA-DQA	CELIAC1
HSCHR6_MHC_MCF	HLA-DQA1	ENSG00000228284	ENST00000450614	protein_coding	KNOWN	None	4942	768	255	32640651	32646851	1	HLA-DQA	CELIAC1
HSCHR6_MHC_MCF	HLA-DQA1	ENSG00000228284	ENST00000486605	processed_transcript	KNOWN	None	4942	None	None	32640656	32646174	1	HLA-DQA	CELIAC1
HSCHR6_MHC_MCF	HLA-DQA1	ENSG00000228284	ENST00000441297	protein_coding	KNOWN	None	4942	768	255	32640656	32646851	1	HLA-DQA	CELIAC1
HSCHR6_MHC_MCF	HLA-DQA1	ENSG00000228284	ENST00000463379	processed_transcript	PUTATIVE	None	4942	None	None	32640674	32645450	1	HLA-DQA	CELIAC1
HSCHR6_MHC_MCF	HLA-DQA1	ENSG00000228284	ENST00000420385	protein_coding	KNOWN	None	4942	768	255	32640676	32646165	1	HLA-DQA	CELIAC1
HSCHR6_MHC_MCF	HLA-DQA1	ENSG00000228284	ENST00000484643	nonsense_mediated_decay	KNOWN	None	4942	126	41	32640677	32646471	1	HLA-DQA	CELIAC1
HSCHR6_MHC_MCF	HLA-DQA1	ENSG00000228284	ENST00000474698	retained_intron	KNOWN	None	4942	None	None	32640681	32652184	1	HLA-DQA	CELIAC1
HSCHR6_MHC_MCF	HLA-DQA1	ENSG00000228284	ENST00000481936	processed_transcript	PUTATIVE	None	4942	None	None	32644488	32646471	1	HLA-DQA	CELIAC1
1	DCLRE1B	ENSG00000118655	ENST00000369563	protein_coding	KNOWN	CCDS866	17641	1599	532	114447763	114456708	1	None	SNM1B, FLJ12810, FLJ13998
1	DCLRE1B	ENSG00000118655	ENST00000466480	processed_transcript	KNOWN	None	17641	None	None	114448031	114456708	1	None	SNM1B, FLJ12810, FLJ13998
Y	None	ENSG00000251275	ENST00000506069	unprocessed_pseudogene	KNOWN	None	None	None	None	6109809	6111670	-1	None	None
1	NR5A2	ENSG00000116833	ENST00000367362	protein_coding	KNOWN	CCDS1401	7984	1626	541	199996730	200146552	1	FTF	FTZ-F1beta, hB1F, LRH-1, FTZ-F1, hB1F-2, B1F2
1	NR5A2	ENSG00000116833	ENST00000236914	protein_coding	KNOWN	CCDS1400	7984	1488	495	199996742	200144731	1	FTF	FTZ-F1beta, hB1F, LRH-1, FTZ-F1, hB1F-2, B1F2
1	NR5A2	ENSG00000116833	ENST00000474307	nonsense_mediated_decay	KNOWN	None	7984	342	113	199996785	200013663	1	FTF	FTZ-F1beta, hB1F, LRH-1, FTZ-F1, hB1F-2, B1F2
1	NR5A2	ENSG00000116833	ENST00000447034	protein_coding	KNOWN	None	7984	213	70	199997011	200008897	1	FTF	FTZ-F1beta, hB1F, LRH-1, FTZ-F1, hB1F-2, B1F2
1	NR5A2	ENSG00000116833	ENST00000367357	protein_coding	KNOWN	None	7984	1133	376	200012938	200027552	1	FTF	FTZ-F1beta, hB1F, LRH-1, FTZ-F1, hB1F-2, B1F2
1	NR5A2	ENSG00000116833	ENST00000544748	protein_coding	KNOWN	None	7984	1410	469	200011717	200143389	1	FTF	FTZ-F1beta, hB1F, LRH-1, FTZ-F1, hB1F-2, B1F2
9	C9orf69	ENSG00000238227	ENST00000418388	protein_coding	NOVEL	CCDS59155	31009	420	139	139006427	139010709	-1	None	bA83N9.1
9	C9orf69	ENSG00000238227	ENST00000557985	nonsense_mediated_decay	KNOWN	CCDS59155	31009	420	139	139006435	139010380	-1	None	bA83N9.1
9	C9orf69	ENSG00000238227	ENST00000447934	protein_coding	NOVEL	None	31009	115	37	139008632	139010120	-1	None	bA83N9.1
9	C9orf69	ENSG00000238227	ENST00000448040	protein_coding	NOVEL	None	31009	97	31	139008650	139010284	-1	None	bA83N9.1
9	C9orf69	ENSG00000238227	ENST00000561457	protein_coding	KNOWN	None	31009	408	135	139006428	139010731	-1	None	bA83N9.1
1	DLGAP3	ENSG00000116544	ENST00000373347	protein_coding	KNOWN	CCDS30670	30368	2940	979	35331037	35395186	-1	None	SAPAP3, DAP3
1	DLGAP3	ENSG00000116544	ENST00000495979	processed_transcript	KNOWN	None	30368	None	None	35370766	35391095	-1	None	SAPAP3, DAP3
1	DLGAP3	ENSG00000116544	ENST00000235180	protein_coding	KNOWN	CCDS30670	30368	2940	979	35331037	35370984	-1	None	SAPAP3, DAP3
7	RSPH10B	ENSG00000155026	ENST00000405415	protein_coding	KNOWN	CCDS34598	27362	2613	870	5965777	6010314	-1	None	None
7	RSPH10B	ENSG00000155026	ENST00000404406	protein_coding	KNOWN	CCDS34598	27362	2613	870	5965777	6010314	-1	None	None
7	RSPH10B	ENSG00000155026	ENST00000535104	processed_transcript	KNOWN	None	27362	None	None	5967663	6003113	-1	None	None
7	RSPH10B	ENSG00000155026	ENST00000541997	processed_transcript	KNOWN	None	27362	None	None	5990974	6003132	-1	None	None
7	RSPH10B	ENSG00000155026	ENST00000477641	retained_intron	KNOWN	None	27362	None	None	5990983	5993214	-1	None	None
7	RSPH10B	ENSG00000155026	ENST00000539630	processed_transcript	KNOWN	None	27362	None	None	5995735	6002990	-1	None	None
7	RSPH10B	ENSG00000155026	ENST00000542644	protein_coding	KNOWN	None	27362	40	12	6006708	6010314	-1	None	None
7	RSPH10B	ENSG00000155026	ENST00000455618	protein_coding	KNOWN	None	27362	13	3	6006735	6010263	-1	None	None
7	RSPH10B	ENSG00000155026	ENST00000337579	protein_coding	KNOWN	CCDS34598	27362	2613	870	5965777	6007070	-1	None	None
7	RSPH10B	ENSG00000155026	ENST00000441023	protein_coding	KNOWN	CCDS34598	27362	2613	870	5965958	6006768	-1	None	None
7	RSPH10B	ENSG00000155026	ENST00000539903	protein_coding	KNOWN	None	27362	843	280	5965181	5998714	-1	None	None
2	ITGB6	ENSG00000115221	ENST00000283249	protein_coding	KNOWN	CCDS2212	6161	2367	788	160956177	161056812	-1	None	None
2	ITGB6	ENSG00000115221	ENST00000409583	nonsense_mediated_decay	KNOWN	None	6161	213	70	160956182	161056815	-1	None	None
2	ITGB6	ENSG00000115221	ENST00000475438	processed_transcript	KNOWN	None	6161	None	None	160958076	160968621	-1	None	None
2	ITGB6	ENSG00000115221	ENST00000428609	protein_coding	PUTATIVE	None	6161	2241	746	160958147	161056763	-1	None	None
2	ITGB6	ENSG00000115221	ENST00000409967	protein_coding	NOVEL	None	6161	2046	681	160958196	161056769	-1	None	None
2	ITGB6	ENSG00000115221	ENST00000409872	protein_coding	KNOWN	CCDS2212	6161	2367	788	160958247	161056815	-1	None	None
2	ITGB6	ENSG00000115221	ENST00000485635	processed_transcript	KNOWN	None	6161	None	None	160998492	161128399	-1	None	None
2	ITGB6	ENSG00000115221	ENST00000498478	processed_transcript	KNOWN	None	6161	None	None	161057284	161110360	-1	None	None
2	ITGB6	ENSG00000115221	ENST00000459712	processed_transcript	KNOWN	None	6161	None	None	161114229	161128391	-1	None	None
2	ITGB6	ENSG00000115221	ENST00000477514	processed_transcript	KNOWN	None	6161	None	None	161114351	161127760	-1	None	None
X	UBA1	ENSG00000130985	ENST00000377351	protein_coding	KNOWN	CCDS14275	12469	3177	1058	47050260	47074527	1	A1S9T, GXP1, UBE1	UBE1X, POC20
X	UBA1	ENSG00000130985	ENST00000412206	protein_coding	KNOWN	None	12469	812	269	47050798	47061010	1	A1S9T, GXP1, UBE1	UBE1X, POC20
X	UBA1	ENSG00000130985	ENST00000427561	protein_coding	KNOWN	None	12469	521	172	47050822	47059012	1	A1S9T, GXP1, UBE1	UBE1X, POC20
X	UBA1	ENSG00000130985	ENST00000442035	protein_coding	KNOWN	None	12469	853	283	47053228	47061009	1	A1S9T, GXP1, UBE1	UBE1X, POC20
X	UBA1	ENSG00000130985	ENST00000457753	protein_coding	KNOWN	None	12469	585	194	47053236	47058965	1	A1S9T, GXP1, UBE1	UBE1X, POC20
X	UBA1	ENSG00000130985	ENST00000335972	protein_coding	KNOWN	CCDS14275	12469	3177	1058	47053241	47074527	1	A1S9T, GXP1, UBE1	UBE1X, POC20
X	UBA1	ENSG00000130985	ENST00000451702	protein_coding	KNOWN	None	12469	702	233	47056598	47060361	1	A1S9T, GXP1, UBE1	UBE1X, POC20
X	UBA1	ENSG00000130985	ENST00000490869	processed_transcript	KNOWN	None	12469	None	None	47062092	47066063	1	A1S9T, GXP1, UBE1	UBE1X, POC20
X	UBA1	ENSG00000130985	ENST00000377269	protein_coding	KNOWN	None	12469	1521	506	47067961	47074525	1	A1S9T, GXP1, UBE1	UBE1X, POC20
9	None	ENSG00000268404	ENST00000602037	protein_coding	KNOWN	None	None	375	124	139014367	139016209	1	None	None
5	NMUR2	ENSG00000132911	ENST00000255262	protein_coding	KNOWN	CCDS4321	16454	1248	415	151771093	151784840	-1	NMU2R	None
5	NMUR2	ENSG00000132911	ENST00000518933	processed_transcript	KNOWN	None	16454	None	None	151775059	151812929	-1	NMU2R	None
9	LHX3	ENSG00000107187	ENST00000371746	protein_coding	KNOWN	CCDS6995	6595	1209	402	139088096	139095004	-1	None	None
9	LHX3	ENSG00000107187	ENST00000371748	protein_coding	KNOWN	CCDS6994	6595	1194	397	139088097	139096955	-1	None	None
7	PSMA2	ENSG00000106588	ENST00000223321	protein_coding	KNOWN	CCDS5467	9531	705	234	42956460	42971822	-1	None	MU, HC3, PMSA2
7	PSMA2	ENSG00000106588	ENST00000436986	nonsense_mediated_decay	KNOWN	None	9531	56	17	42956481	42971753	-1	None	MU, HC3, PMSA2
7	PSMA2	ENSG00000106588	ENST00000457444	nonsense_mediated_decay	KNOWN	None	9531	111	36	42956908	42967063	-1	None	MU, HC3, PMSA2
7	PSMA2	ENSG00000106588	ENST00000445517	protein_coding	NOVEL	None	9531	495	164	42957012	42971784	-1	None	MU, HC3, PMSA2
7	PSMA2	ENSG00000106588	ENST00000411875	nonsense_mediated_decay	KNOWN	None	9531	69	22	42957673	42971771	-1	None	MU, HC3, PMSA2
7	PSMA2	ENSG00000106588	ENST00000538645	protein_coding	KNOWN	None	9531	300	99	42957689	42971773	-1	None	MU, HC3, PMSA2
11	TMEM138	ENSG00000149483	ENST00000278826	protein_coding	KNOWN	CCDS8005	26944	489	162	61129473	61136981	1	None	HSPC196
11	TMEM138	ENSG00000149483	ENST00000534963	retained_intron	KNOWN	None	26944	None	None	61129816	61134029	1	None	HSPC196
11	TMEM138	ENSG00000149483	ENST00000543594	retained_intron	KNOWN	None	26944	None	None	61129833	61132274	1	None	HSPC196
11	TMEM138	ENSG00000149483	ENST00000542946	protein_coding	KNOWN	None	26944	318	105	61129833	61136028	1	None	HSPC196
11	TMEM138	ENSG00000149483	ENST00000540194	processed_transcript	KNOWN	None	26944	None	None	61129858	61135012	1	None	HSPC196
11	TMEM138	ENSG00000149483	ENST00000507563	retained_intron	KNOWN	None	26944	None	None	61129859	61136055	1	None	HSPC196
11	TMEM138	ENSG00000149483	ENST00000423772	retained_intron	KNOWN	None	26944	None	None	61130141	61136241	1	None	HSPC196
11	TMEM138	ENSG00000149483	ENST00000451389	processed_transcript	KNOWN	None	26944	None	None	61131722	61135755	1	None	HSPC196
11	TMEM138	ENSG00000149483	ENST00000545420	processed_transcript	KNOWN	None	26944	None	None	61131722	61136223	1	None	HSPC196
11	TMEM138	ENSG00000149483	ENST00000381787	protein_coding	PUTATIVE	None	26944	315	104	61133175	61136683	1	None	HSPC196
11	TMEM138	ENSG00000149483	ENST00000539776	retained_intron	KNOWN	None	26944	None	None	61134451	61136683	1	None	HSPC196
11	TMEM138	ENSG00000149483	ENST00000543833	retained_intron	KNOWN	None	26944	None	None	61135377	61136683	1	None	HSPC196
18	MC5R	ENSG00000176136	ENST00000589410	protein_coding	KNOWN	None	6933	519	172	13824154	13826283	1	None	None
18	MC5R	ENSG00000176136	ENST00000324750	protein_coding	KNOWN	CCDS11868	6933	978	325	13825543	13826861	1	None	None
22	TTC38	ENSG00000075234	ENST00000417709	nonsense_mediated_decay	KNOWN	None	26082	162	53	46663858	46671182	1	None	FLJ20699
22	TTC38	ENSG00000075234	ENST00000381031	protein_coding	NOVEL	CCDS43030	26082	1410	469	46663861	46689905	1	None	FLJ20699
22	TTC38	ENSG00000075234	ENST00000475467	retained_intron	KNOWN	None	26082	None	None	46663905	46664824	1	None	FLJ20699
22	TTC38	ENSG00000075234	ENST00000421359	protein_coding	PUTATIVE	None	26082	789	262	46663905	46676139	1	None	FLJ20699
22	TTC38	ENSG00000075234	ENST00000422713	nonsense_mediated_decay	KNOWN	None	26082	629	208	46668269	46679929	1	None	FLJ20699
22	TTC38	ENSG00000075234	ENST00000451998	nonsense_mediated_decay	KNOWN	None	26082	359	118	46684407	46688830	1	None	FLJ20699
22	TTC38	ENSG00000075234	ENST00000445282	protein_coding	KNOWN	None	26082	1236	411	46663881	46688877	1	None	FLJ20699
1	None	ENSG00000271741	ENST00000487874	nonsense_mediated_decay	KNOWN	None	None	2172	723	35447134	35497342	-1	None	None
HSCHR6_MHC_SSTO	HCG4P3	ENSG00000231385	ENST00000418496	unprocessed_pseudogene	KNOWN	None	22922	None	None	29962368	29963363	-1	None	HCGIV-03, HCGIV.2, HCGIV-3
7	BLACE	ENSG00000204960	ENST00000378120	protein_coding	PUTATIVE	None	20484	540	179	155149680	155160629	-1	None	None
7	None	ENSG00000218672	ENST00000401499	protein_coding	PUTATIVE	None	None	321	106	155174771	155189051	1	None	None
18	MC2R	ENSG00000185231	ENST00000327606	protein_coding	KNOWN	CCDS11869	6930	894	297	13882043	13915539	-1	None	ACTHR
18	MC2R	ENSG00000185231	ENST00000399821	protein_coding	KNOWN	None	6930	370	122	13885148	13915706	-1	None	ACTHR
2	EFEMP1	ENSG00000115380	ENST00000394555	protein_coding	KNOWN	CCDS1857	3218	1482	493	56093102	56151274	-1	DHRD, FBNL	S1-5, FBLN3, MTLV
2	EFEMP1	ENSG00000115380	ENST00000355426	protein_coding	KNOWN	CCDS1857	3218	1482	493	56093995	56150922	-1	DHRD, FBNL	S1-5, FBLN3, MTLV
2	EFEMP1	ENSG00000115380	ENST00000438672	protein_coding	KNOWN	None	3218	517	171	56144800	56150916	-1	DHRD, FBNL	S1-5, FBLN3, MTLV
2	EFEMP1	ENSG00000115380	ENST00000452161	processed_transcript	KNOWN	None	3218	None	None	56144860	56150911	-1	DHRD, FBNL	S1-5, FBLN3, MTLV
2	EFEMP1	ENSG00000115380	ENST00000439193	protein_coding	KNOWN	None	3218	357	118	56144960	56150930	-1	DHRD, FBNL	S1-5, FBLN3, MTLV
2	EFEMP1	ENSG00000115380	ENST00000440439	protein_coding	KNOWN	None	3218	318	105	56144999	56150917	-1	DHRD, FBNL	S1-5, FBLN3, MTLV
2	EFEMP1	ENSG00000115380	ENST00000429909	protein_coding	KNOWN	None	3218	261	86	56145056	56150917	-1	DHRD, FBNL	S1-5, FBLN3, MTLV
2	EFEMP1	ENSG00000115380	ENST00000452337	protein_coding	KNOWN	None	3218	185	60	56145132	56150920	-1	DHRD, FBNL	S1-5, FBLN3, MTLV
2	EFEMP1	ENSG00000115380	ENST00000421664	protein_coding	KNOWN	None	3218	155	50	56145162	56150930	-1	DHRD, FBNL	S1-5, FBLN3, MTLV
2	EFEMP1	ENSG00000115380	ENST00000480016	retained_intron	KNOWN	None	3218	None	None	56149082	56150932	-1	DHRD, FBNL	S1-5, FBLN3, MTLV
2	EFEMP1	ENSG00000115380	ENST00000424207	protein_coding	KNOWN	None	3218	81	26	56149495	56150917	-1	DHRD, FBNL	S1-5, FBLN3, MTLV
2	EFEMP1	ENSG00000115380	ENST00000497698	processed_transcript	KNOWN	None	3218	None	None	56149543	56150917	-1	DHRD, FBNL	S1-5, FBLN3, MTLV
2	EFEMP1	ENSG00000115380	ENST00000394554	protein_coding	KNOWN	CCDS1857	3218	1482	493	56093103	56150356	-1	DHRD, FBNL	S1-5, FBLN3, MTLV
2	EFEMP1	ENSG00000115380	ENST00000424836	protein_coding	KNOWN	None	3218	1068	355	56093747	56150911	-1	DHRD, FBNL	S1-5, FBLN3, MTLV
HSCHR6_MHC_SSTO	HLA-J	ENSG00000235309	ENST00000494425	processed_transcript	KNOWN	None	4967	None	None	29962830	29966203	1	HLA-CDA12, D6S203	CDA12, HLA-59
HSCHR6_MHC_SSTO	HLA-J	ENSG00000235309	ENST00000481951	processed_transcript	KNOWN	None	4967	None	None	29962834	29966203	1	HLA-CDA12, D6S203	CDA12, HLA-59
HSCHR6_MHC_SSTO	HLA-J	ENSG00000235309	ENST00000467508	processed_transcript	KNOWN	None	4967	None	None	29962843	29966203	1	HLA-CDA12, D6S203	CDA12, HLA-59
HSCHR6_MHC_SSTO	HLA-J	ENSG00000235309	ENST00000462600	transcribed_unprocessed_pseudogene	KNOWN	None	4967	None	None	29962853	29965786	1	HLA-CDA12, D6S203	CDA12, HLA-59
X	SPANXN2	ENSG00000203924	ENST00000370498	protein_coding	KNOWN	CCDS35419	33175	543	180	142795055	142804516	-1	None	SPANX-N2, CT11.7
1	ZMYM6NB	ENSG00000243749	ENST00000373337	protein_coding	NOVEL	CCDS53296	40021	465	154	35447136	35450954	-1	None	None
X	TENM1	ENSG00000009694	ENST00000371130	protein_coding	KNOWN	CCDS14609	8117	8178	2725	123509753	124097666	-1	ODZ3, TNM, ODZ1	TEN-M1
X	TENM1	ENSG00000009694	ENST00000461429	processed_transcript	KNOWN	None	8117	None	None	123587309	123630993	-1	ODZ3, TNM, ODZ1	TEN-M1
X	TENM1	ENSG00000009694	ENST00000422452	protein_coding	KNOWN	CCDS55488	8117	8199	2732	123509758	124097666	-1	ODZ3, TNM, ODZ1	TEN-M1
10	KIF5B	ENSG00000170759	ENST00000302418	protein_coding	KNOWN	CCDS7171	6324	2892	963	32297938	32345359	-1	KNS1	KNS
10	KIF5B	ENSG00000170759	ENST00000493889	processed_transcript	KNOWN	None	6324	None	None	32306135	32310022	-1	KNS1	KNS
12	CLEC12B	ENSG00000256660	ENST00000544853	nonsense_mediated_decay	KNOWN	CCDS8610	31966	699	232	10163226	10171162	1	None	None
12	CLEC12B	ENSG00000256660	ENST00000396502	protein_coding	KNOWN	CCDS8610	31966	699	232	10163231	10170547	1	None	None
12	CLEC12B	ENSG00000256660	ENST00000338896	protein_coding	KNOWN	CCDS44830	31966	831	276	10163231	10171218	1	None	None
12	CLEC12B	ENSG00000256660	ENST00000535903	retained_intron	KNOWN	None	31966	None	None	10163358	10165822	1	None	None
12	CLEC12B	ENSG00000256660	ENST00000539155	nonsense_mediated_decay	KNOWN	None	31966	198	65	10163358	10170551	1	None	None
11	MYO7A	ENSG00000137474	ENST00000409709	protein_coding	KNOWN	CCDS53683	7606	6648	2215	76839310	76926283	1	USH1B, DFNB2, DFNA11	NSRD2
11	MYO7A	ENSG00000137474	ENST00000409893	protein_coding	PUTATIVE	CCDS53685	7606	3537	1178	76839316	76896041	1	USH1B, DFNB2, DFNA11	NSRD2
11	MYO7A	ENSG00000137474	ENST00000458637	protein_coding	KNOWN	CCDS53684	7606	6528	2175	76839316	76926283	1	USH1B, DFNB2, DFNA11	NSRD2
11	MYO7A	ENSG00000137474	ENST00000409619	protein_coding	PUTATIVE	None	7606	6501	2166	76839348	76925999	1	USH1B, DFNB2, DFNA11	NSRD2
11	MYO7A	ENSG00000137474	ENST00000481328	retained_intron	KNOWN	None	7606	None	None	76890871	76926283	1	USH1B, DFNB2, DFNA11	NSRD2
11	MYO7A	ENSG00000137474	ENST00000458169	protein_coding	NOVEL	None	7606	4074	1357	76890871	76926283	1	USH1B, DFNB2, DFNA11	NSRD2
11	MYO7A	ENSG00000137474	ENST00000467137	retained_intron	KNOWN	None	7606	None	None	76895731	76902232	1	USH1B, DFNB2, DFNA11	NSRD2
11	MYO7A	ENSG00000137474	ENST00000605744	processed_transcript	KNOWN	None	7606	None	None	76914231	76926284	1	USH1B, DFNB2, DFNA11	NSRD2
11	MYO7A	ENSG00000137474	ENST00000526863	processed_transcript	PUTATIVE	None	7606	None	None	76921932	76924020	1	USH1B, DFNB2, DFNA11	NSRD2
11	MYO7A	ENSG00000137474	ENST00000481532	retained_intron	KNOWN	None	7606	None	None	76923580	76924963	1	USH1B, DFNB2, DFNA11	NSRD2
1	ZNF281	ENSG00000162702	ENST00000294740	protein_coding	KNOWN	CCDS1402	13075	2688	895	200375827	200379184	-1	None	ZBP-99
1	ZNF281	ENSG00000162702	ENST00000367353	protein_coding	KNOWN	CCDS1402	13075	2688	895	200375836	200379137	-1	None	ZBP-99
1	ZNF281	ENSG00000162702	ENST00000367352	protein_coding	KNOWN	None	13075	2580	859	200375858	200379120	-1	None	ZBP-99
11	CNGA4	ENSG00000132259	ENST00000533426	protein_coding	NOVEL	None	2152	678	225	6255995	6263221	1	CNCA2, CNGB2	OCNC2, OCNCb, CNG5
11	CNGA4	ENSG00000132259	ENST00000379936	protein_coding	KNOWN	CCDS31408	2152	1728	575	6260322	6265659	1	CNCA2, CNGB2	OCNC2, OCNCb, CNG5
18	ZNF519	ENSG00000175322	ENST00000592345	processed_transcript	KNOWN	None	30574	None	None	14057456	14132489	-1	None	HsT2362, FLJ36809
18	ZNF519	ENSG00000175322	ENST00000589203	processed_transcript	KNOWN	None	30574	None	None	14075986	14132452	-1	None	HsT2362, FLJ36809
18	ZNF519	ENSG00000175322	ENST00000587419	nonsense_mediated_decay	KNOWN	None	30574	153	50	14075993	14132428	-1	None	HsT2362, FLJ36809
18	ZNF519	ENSG00000175322	ENST00000592049	processed_transcript	KNOWN	None	30574	None	None	14077505	14132433	-1	None	HsT2362, FLJ36809
18	ZNF519	ENSG00000175322	ENST00000592411	processed_transcript	KNOWN	None	30574	None	None	14078273	14132428	-1	None	HsT2362, FLJ36809
18	ZNF519	ENSG00000175322	ENST00000591393	processed_transcript	KNOWN	None	30574	None	None	14082166	14132427	-1	None	HsT2362, FLJ36809
18	ZNF519	ENSG00000175322	ENST00000589498	protein_coding	PUTATIVE	None	30574	243	80	14099937	14132427	-1	None	HsT2362, FLJ36809
18	ZNF519	ENSG00000175322	ENST00000590202	protein_coding	KNOWN	CCDS32797	30574	1623	540	14104720	14132429	-1	None	HsT2362, FLJ36809
18	ZNF519	ENSG00000175322	ENST00000588435	processed_transcript	PUTATIVE	None	30574	None	None	14105993	14132456	-1	None	HsT2362, FLJ36809
18	ZNF519	ENSG00000175322	ENST00000587512	processed_transcript	PUTATIVE	None	30574	None	None	14121792	14132428	-1	None	HsT2362, FLJ36809
18	ZNF519	ENSG00000175322	ENST00000586507	processed_transcript	KNOWN	None	30574	None	None	14122162	14132437	-1	None	HsT2362, FLJ36809
18	ZNF519	ENSG00000175322	ENST00000591987	retained_intron	KNOWN	None	30574	None	None	14124045	14132431	-1	None	HsT2362, FLJ36809
17	NME1	ENSG00000239672	ENST00000393196	protein_coding	KNOWN	CCDS11579	7849	459	152	49230897	49239556	1	None	NM23, NM23-H1, NDPKA
17	NME1	ENSG00000239672	ENST00000487481	retained_intron	KNOWN	None	7849	None	None	49230933	49233907	1	None	NM23, NM23-H1, NDPKA
17	NME1	ENSG00000239672	ENST00000336097	protein_coding	KNOWN	CCDS11578	7849	534	177	49230937	49239422	1	None	NM23, NM23-H1, NDPKA
17	NME1	ENSG00000239672	ENST00000480143	protein_coding	PUTATIVE	None	7849	420	139	49230939	49238947	1	None	NM23, NM23-H1, NDPKA
17	NME1	ENSG00000239672	ENST00000512768	retained_intron	KNOWN	None	7849	None	None	49230941	49237963	1	None	NM23, NM23-H1, NDPKA
17	NME1	ENSG00000239672	ENST00000511355	protein_coding	PUTATIVE	None	7849	249	82	49230942	49239789	1	None	NM23, NM23-H1, NDPKA
17	NME1	ENSG00000239672	ENST00000475573	nonsense_mediated_decay	KNOWN	None	7849	249	82	49230958	49239396	1	None	NM23, NM23-H1, NDPKA
17	NME1	ENSG00000239672	ENST00000013034	protein_coding	KNOWN	CCDS11578	7849	534	177	49231026	49239259	1	None	NM23, NM23-H1, NDPKA
17	NME1	ENSG00000239672	ENST00000456492	protein_coding	KNOWN	None	7849	180	59	49231405	49233120	1	None	NM23, NM23-H1, NDPKA
17	NME1	ENSG00000239672	ENST00000465188	retained_intron	KNOWN	None	7849	None	None	49231698	49233424	1	None	NM23, NM23-H1, NDPKA
9	None	ENSG00000236507	ENST00000442086	lincRNA	KNOWN	None	None	None	None	92503174	92504508	-1	None	None
3	SUSD5	ENSG00000173705	ENST00000309558	protein_coding	KNOWN	CCDS46787	29061	1890	629	33191537	33260707	-1	None	KIAA0527
3	SUSD5	ENSG00000173705	ENST00000412539	protein_coding	NOVEL	None	29061	729	242	33195202	33260285	-1	None	KIAA0527
9	None	ENSG00000237626	ENST00000446201	lincRNA	KNOWN	None	None	None	None	92740564	92749768	1	None	None
3	VIPR1	ENSG00000114812	ENST00000433647	protein_coding	KNOWN	CCDS58828	12694	1251	416	42530791	42579059	1	None	VPAC1, RDC1, HVR1, VPAC1R
3	VIPR1	ENSG00000114812	ENST00000473495	processed_transcript	KNOWN	None	12694	None	None	42530972	42541908	1	None	VPAC1, RDC1, HVR1, VPAC1R
3	VIPR1	ENSG00000114812	ENST00000490161	processed_transcript	KNOWN	None	12694	None	None	42530975	42541638	1	None	VPAC1, RDC1, HVR1, VPAC1R
3	VIPR1	ENSG00000114812	ENST00000487545	processed_transcript	KNOWN	None	12694	None	None	42530986	42560806	1	None	VPAC1, RDC1, HVR1, VPAC1R
3	VIPR1	ENSG00000114812	ENST00000450274	protein_coding	PUTATIVE	None	12694	380	125	42543404	42568988	1	None	VPAC1, RDC1, HVR1, VPAC1R
3	VIPR1	ENSG00000114812	ENST00000436487	nonsense_mediated_decay	KNOWN	None	12694	138	45	42544104	42573802	1	None	VPAC1, RDC1, HVR1, VPAC1R
3	VIPR1	ENSG00000114812	ENST00000443646	nonsense_mediated_decay	KNOWN	None	12694	138	45	42544104	42577886	1	None	VPAC1, RDC1, HVR1, VPAC1R
3	VIPR1	ENSG00000114812	ENST00000439910	nonsense_mediated_decay	KNOWN	None	12694	138	45	42544109	42578036	1	None	VPAC1, RDC1, HVR1, VPAC1R
3	VIPR1	ENSG00000114812	ENST00000439731	protein_coding	PUTATIVE	None	12694	657	218	42544115	42572424	1	None	VPAC1, RDC1, HVR1, VPAC1R
3	VIPR1	ENSG00000114812	ENST00000325123	protein_coding	KNOWN	CCDS2698	12694	1374	457	42544115	42579059	1	None	VPAC1, RDC1, HVR1, VPAC1R
3	VIPR1	ENSG00000114812	ENST00000446673	nonsense_mediated_decay	KNOWN	None	12694	138	45	42544156	42573825	1	None	VPAC1, RDC1, HVR1, VPAC1R
3	VIPR1	ENSG00000114812	ENST00000473575	processed_transcript	KNOWN	None	12694	None	None	42555291	42569391	1	None	VPAC1, RDC1, HVR1, VPAC1R
3	VIPR1	ENSG00000114812	ENST00000495189	retained_intron	KNOWN	None	12694	None	None	42569145	42572389	1	None	VPAC1, RDC1, HVR1, VPAC1R
3	VIPR1	ENSG00000114812	ENST00000465338	retained_intron	KNOWN	None	12694	None	None	42571226	42573018	1	None	VPAC1, RDC1, HVR1, VPAC1R
3	VIPR1	ENSG00000114812	ENST00000498102	retained_intron	KNOWN	None	12694	None	None	42574358	42579059	1	None	VPAC1, RDC1, HVR1, VPAC1R
3	VIPR1	ENSG00000114812	ENST00000543411	protein_coding	KNOWN	CCDS58827	12694	1230	409	42544104	42577886	1	None	VPAC1, RDC1, HVR1, VPAC1R
3	VIPR1	ENSG00000114812	ENST00000438259	protein_coding	KNOWN	CCDS58829	12694	744	247	42544109	42578036	1	None	VPAC1, RDC1, HVR1, VPAC1R
3	FLNB	ENSG00000136068	ENST00000490882	protein_coding	NOVEL	CCDS54599	3755	7902	2633	57994127	58156501	1	FLN1L, LRS1	TAP, TABP, ABP-278, FH1
3	FLNB	ENSG00000136068	ENST00000295956	protein_coding	KNOWN	CCDS2885	3755	7809	2602	57994127	58157978	1	FLN1L, LRS1	TAP, TABP, ABP-278, FH1
3	FLNB	ENSG00000136068	ENST00000358537	protein_coding	KNOWN	CCDS54601	3755	7737	2578	57994127	58157978	1	FLN1L, LRS1	TAP, TABP, ABP-278, FH1
3	FLNB	ENSG00000136068	ENST00000429972	protein_coding	NOVEL	CCDS54600	3755	7776	2591	57994127	58157978	1	FLN1L, LRS1	TAP, TABP, ABP-278, FH1
3	FLNB	ENSG00000136068	ENST00000493452	protein_coding	NOVEL	None	3755	7230	2409	58064056	58156504	1	FLN1L, LRS1	TAP, TABP, ABP-278, FH1
3	FLNB	ENSG00000136068	ENST00000481470	retained_intron	KNOWN	None	3755	None	None	58117805	58157978	1	FLN1L, LRS1	TAP, TABP, ABP-278, FH1
3	FLNB	ENSG00000136068	ENST00000491408	retained_intron	KNOWN	None	3755	None	None	58132405	58134091	1	FLN1L, LRS1	TAP, TABP, ABP-278, FH1
3	FLNB	ENSG00000136068	ENST00000477629	retained_intron	KNOWN	None	3755	None	None	58134959	58137118	1	FLN1L, LRS1	TAP, TABP, ABP-278, FH1
3	FLNB	ENSG00000136068	ENST00000466455	protein_coding	KNOWN	None	3755	404	133	58135593	58139368	1	FLN1L, LRS1	TAP, TABP, ABP-278, FH1
3	FLNB	ENSG00000136068	ENST00000470231	nonsense_mediated_decay	KNOWN	None	3755	219	72	58135708	58139124	1	FLN1L, LRS1	TAP, TABP, ABP-278, FH1
3	FLNB	ENSG00000136068	ENST00000468939	retained_intron	KNOWN	None	3755	None	None	58140337	58145418	1	FLN1L, LRS1	TAP, TABP, ABP-278, FH1
3	FLNB	ENSG00000136068	ENST00000475487	retained_intron	KNOWN	None	3755	None	None	58141754	58149239	1	FLN1L, LRS1	TAP, TABP, ABP-278, FH1
3	FLNB	ENSG00000136068	ENST00000484981	processed_transcript	KNOWN	None	3755	None	None	58151203	58156705	1	FLN1L, LRS1	TAP, TABP, ABP-278, FH1
3	FLNB	ENSG00000136068	ENST00000348383	protein_coding	KNOWN	None	3755	7686	2561	57994127	58157982	1	FLN1L, LRS1	TAP, TABP, ABP-278, FH1
3	FLNB	ENSG00000136068	ENST00000357272	protein_coding	KNOWN	None	3755	6453	2150	57994127	58157982	1	FLN1L, LRS1	TAP, TABP, ABP-278, FH1
3	FLNB	ENSG00000136068	ENST00000419752	protein_coding	KNOWN	None	3755	7269	2422	58064213	58157982	1	FLN1L, LRS1	TAP, TABP, ABP-278, FH1
9	None	ENSG00000227555	ENST00000426593	lincRNA	KNOWN	None	None	None	None	92782936	92803781	-1	None	None
11	PPFIA1	ENSG00000131626	ENST00000253925	protein_coding	KNOWN	CCDS31627	9245	3609	1202	70116806	70230506	1	None	LIP.1, LIPRIN
11	PPFIA1	ENSG00000131626	ENST00000389547	protein_coding	KNOWN	CCDS31628	9245	3558	1185	70116823	70224686	1	None	LIP.1, LIPRIN
11	PPFIA1	ENSG00000131626	ENST00000532504	nonsense_mediated_decay	KNOWN	None	9245	1752	583	70116879	70230493	1	None	LIP.1, LIPRIN
11	PPFIA1	ENSG00000131626	ENST00000530746	protein_coding	KNOWN	None	9245	475	157	70117326	70171061	1	None	LIP.1, LIPRIN
11	PPFIA1	ENSG00000131626	ENST00000532024	protein_coding	KNOWN	None	9245	297	98	70118013	70170540	1	None	LIP.1, LIPRIN
11	PPFIA1	ENSG00000131626	ENST00000526262	nonsense_mediated_decay	KNOWN	None	9245	1163	386	70172450	70230509	1	None	LIP.1, LIPRIN
11	PPFIA1	ENSG00000131626	ENST00000530932	processed_transcript	KNOWN	None	9245	None	None	70173660	70181677	1	None	LIP.1, LIPRIN
11	PPFIA1	ENSG00000131626	ENST00000525530	retained_intron	KNOWN	None	9245	None	None	70175999	70178152	1	None	LIP.1, LIPRIN
11	PPFIA1	ENSG00000131626	ENST00000532443	processed_transcript	KNOWN	None	9245	None	None	70180458	70185307	1	None	LIP.1, LIPRIN
11	PPFIA1	ENSG00000131626	ENST00000530798	protein_coding	NOVEL	None	9245	710	235	70181719	70202311	1	None	LIP.1, LIPRIN
11	PPFIA1	ENSG00000131626	ENST00000526369	nonsense_mediated_decay	KNOWN	None	9245	292	96	70183503	70194406	1	None	LIP.1, LIPRIN
11	PPFIA1	ENSG00000131626	ENST00000526347	nonsense_mediated_decay	KNOWN	None	9245	185	60	70187083	70201847	1	None	LIP.1, LIPRIN
11	PPFIA1	ENSG00000131626	ENST00000530294	nonsense_mediated_decay	KNOWN	None	9245	166	54	70187102	70202360	1	None	LIP.1, LIPRIN
11	PPFIA1	ENSG00000131626	ENST00000526074	processed_transcript	KNOWN	None	9245	None	None	70187113	70201842	1	None	LIP.1, LIPRIN
11	PPFIA1	ENSG00000131626	ENST00000528284	processed_transcript	PUTATIVE	None	9245	None	None	70187979	70194367	1	None	LIP.1, LIPRIN
11	PPFIA1	ENSG00000131626	ENST00000528750	protein_coding	NOVEL	None	9245	1168	388	70189857	70208569	1	None	LIP.1, LIPRIN
11	PPFIA1	ENSG00000131626	ENST00000533894	nonsense_mediated_decay	KNOWN	None	9245	100	32	70192021	70201818	1	None	LIP.1, LIPRIN
11	PPFIA1	ENSG00000131626	ENST00000530390	nonsense_mediated_decay	KNOWN	None	9245	141	46	70194481	70208578	1	None	LIP.1, LIPRIN
11	PPFIA1	ENSG00000131626	ENST00000527612	retained_intron	KNOWN	None	9245	None	None	70200309	70208281	1	None	LIP.1, LIPRIN
11	PPFIA1	ENSG00000131626	ENST00000532793	retained_intron	KNOWN	None	9245	None	None	70208241	70208901	1	None	LIP.1, LIPRIN
11	PPFIA1	ENSG00000131626	ENST00000530548	processed_transcript	KNOWN	None	9245	None	None	70210448	70230500	1	None	LIP.1, LIPRIN
11	PPFIA1	ENSG00000131626	ENST00000525922	nonsense_mediated_decay	KNOWN	None	9245	146	47	70213612	70218640	1	None	LIP.1, LIPRIN
11	PPFIA1	ENSG00000131626	ENST00000531657	retained_intron	KNOWN	None	9245	None	None	70217433	70230500	1	None	LIP.1, LIPRIN
11	PPFIA1	ENSG00000131626	ENST00000528853	protein_coding	PUTATIVE	None	9245	296	97	70224184	70229735	1	None	LIP.1, LIPRIN
9	MIR4290	ENSG00000263967	ENST00000583807	miRNA	KNOWN	None	38360	None	None	92785723	92785817	-1	None	hsa-mir-4290
9	IL6RP1	ENSG00000234910	ENST00000417848	processed_pseudogene	KNOWN	None	6020	None	None	92843579	92844851	-1	IL6RL1	None
17	EME1	ENSG00000154920	ENST00000338165	protein_coding	KNOWN	CCDS11565	24965	1713	570	48450581	48458844	1	None	FLJ31364, MMS4L, SLX2A
17	EME1	ENSG00000154920	ENST00000511711	nonsense_mediated_decay	KNOWN	None	24965	306	101	48450603	48453554	1	None	FLJ31364, MMS4L, SLX2A
17	EME1	ENSG00000154920	ENST00000511519	protein_coding	NOVEL	None	24965	514	170	48450615	48456042	1	None	FLJ31364, MMS4L, SLX2A
17	EME1	ENSG00000154920	ENST00000510007	retained_intron	KNOWN	None	24965	None	None	48450615	48457548	1	None	FLJ31364, MMS4L, SLX2A
17	EME1	ENSG00000154920	ENST00000511648	protein_coding	KNOWN	CCDS54141	24965	1752	583	48452546	48458820	1	None	FLJ31364, MMS4L, SLX2A
17	EME1	ENSG00000154920	ENST00000510246	protein_coding	NOVEL	None	24965	1010	335	48453049	48458163	1	None	FLJ31364, MMS4L, SLX2A
17	EME1	ENSG00000154920	ENST00000513077	retained_intron	KNOWN	None	24965	None	None	48453470	48456962	1	None	FLJ31364, MMS4L, SLX2A
17	EME1	ENSG00000154920	ENST00000514211	retained_intron	KNOWN	None	24965	None	None	48456244	48457676	1	None	FLJ31364, MMS4L, SLX2A
17	EME1	ENSG00000154920	ENST00000507616	retained_intron	KNOWN	None	24965	None	None	48457120	48458818	1	None	FLJ31364, MMS4L, SLX2A
17	EME1	ENSG00000154920	ENST00000393271	protein_coding	KNOWN	CCDS54141	24965	1752	583	48450581	48458820	1	None	FLJ31364, MMS4L, SLX2A
1	KIF14	ENSG00000118193	ENST00000367350	protein_coding	KNOWN	CCDS30963	19181	4947	1648	200520628	200589862	-1	None	KIAA0042
22	GTSE1	ENSG00000075218	ENST00000454366	protein_coding	KNOWN	CCDS14074	13698	2220	739	46692638	46726707	1	None	GTSE-1, B99
22	GTSE1	ENSG00000075218	ENST00000466510	retained_intron	KNOWN	None	13698	None	None	46711934	46723213	1	None	GTSE-1, B99
22	GTSE1	ENSG00000075218	ENST00000479645	retained_intron	KNOWN	None	13698	None	None	46711934	46725027	1	None	GTSE-1, B99
22	GTSE1	ENSG00000075218	ENST00000491863	retained_intron	KNOWN	None	13698	None	None	46724820	46726049	1	None	GTSE-1, B99
9	None	ENSG00000185074	ENST00000426212	processed_pseudogene	KNOWN	None	None	None	None	92978321	92979206	1	None	None
9	None	ENSG00000225072	ENST00000448529	unprocessed_pseudogene	KNOWN	None	None	None	None	92994467	92995423	1	None	None
16	CBLN1	ENSG00000102924	ENST00000219197	protein_coding	KNOWN	CCDS10736	1543	582	193	49311828	49315742	-1	None	None
16	CBLN1	ENSG00000102924	ENST00000564786	nonsense_mediated_decay	KNOWN	None	1543	423	140	49313201	49315393	-1	None	None
16	CBLN1	ENSG00000102924	ENST00000536749	protein_coding	KNOWN	CCDS10736	1543	582	193	49313223	49315473	-1	None	None
9	None	ENSG00000231107	ENST00000425666	lincRNA	KNOWN	None	None	None	None	93063184	93195771	-1	None	None
9	None	ENSG00000231107	ENST00000436671	lincRNA	KNOWN	None	None	None	None	93145892	93195787	-1	None	None
15	DUT	ENSG00000128951	ENST00000559935	protein_coding	PUTATIVE	None	3078	402	133	48623208	48633692	1	None	dUTPase
15	DUT	ENSG00000128951	ENST00000559416	protein_coding	PUTATIVE	None	3078	504	167	48623292	48634334	1	None	dUTPase
15	DUT	ENSG00000128951	ENST00000558813	protein_coding	KNOWN	CCDS45256	3078	426	141	48623602	48634490	1	None	dUTPase
15	DUT	ENSG00000128951	ENST00000331200	protein_coding	KNOWN	CCDS32231	3078	759	252	48623620	48635570	1	None	dUTPase
15	DUT	ENSG00000128951	ENST00000558472	protein_coding	NOVEL	None	3078	664	220	48623653	48634249	1	None	dUTPase
15	DUT	ENSG00000128951	ENST00000558978	nonsense_mediated_decay	KNOWN	None	3078	681	226	48623670	48634592	1	None	dUTPase
15	DUT	ENSG00000128951	ENST00000455976	protein_coding	KNOWN	CCDS45255	3078	495	164	48624300	48635566	1	None	dUTPase
15	DUT	ENSG00000128951	ENST00000559540	protein_coding	PUTATIVE	None	3078	432	143	48624407	48634592	1	None	dUTPase
15	DUT	ENSG00000128951	ENST00000558367	protein_coding	PUTATIVE	None	3078	321	106	48624603	48634230	1	None	dUTPase
15	DUT	ENSG00000128951	ENST00000561350	processed_transcript	PUTATIVE	None	3078	None	None	48626642	48632433	1	None	dUTPase
15	DUT	ENSG00000128951	ENST00000559852	retained_intron	KNOWN	None	3078	None	None	48633333	48634259	1	None	dUTPase
22	PEX26	ENSG00000215193	ENST00000329627	protein_coding	KNOWN	CCDS13750	22965	918	305	18560689	18574720	1	None	FLJ20695
22	PEX26	ENSG00000215193	ENST00000399744	protein_coding	KNOWN	CCDS13750	22965	918	305	18560774	18571226	1	None	FLJ20695
22	PEX26	ENSG00000215193	ENST00000474897	nonsense_mediated_decay	KNOWN	None	22965	570	189	18560781	18613905	1	None	FLJ20695
22	PEX26	ENSG00000215193	ENST00000428061	protein_coding	PUTATIVE	CCDS56221	22965	771	256	18561143	18570885	1	None	FLJ20695
12	CLEC9A	ENSG00000197992	ENST00000355819	protein_coding	PUTATIVE	CCDS8611	26705	726	241	10183276	10218565	1	None	UNQ9341, HEEE9341
12	CLEC9A	ENSG00000197992	ENST00000544751	processed_transcript	KNOWN	None	26705	None	None	10183277	10205434	1	None	UNQ9341, HEEE9341
12	CLEC9A	ENSG00000197992	ENST00000538482	retained_intron	KNOWN	None	26705	None	None	10213198	10215781	1	None	UNQ9341, HEEE9341
1	ZMYM6	ENSG00000163867	ENST00000493328	processed_transcript	KNOWN	None	13050	None	None	35451766	35497312	-1	ZNF258	ZNF198L4, MYM, Buster2
1	ZMYM6	ENSG00000163867	ENST00000357182	protein_coding	KNOWN	CCDS387	13050	3978	1325	35452581	35497569	-1	ZNF258	ZNF198L4, MYM, Buster2
1	ZMYM6	ENSG00000163867	ENST00000466345	processed_transcript	KNOWN	None	13050	None	None	35469466	35474393	-1	ZNF258	ZNF198L4, MYM, Buster2
1	ZMYM6	ENSG00000163867	ENST00000472971	processed_transcript	KNOWN	None	13050	None	None	35476148	35478057	-1	ZNF258	ZNF198L4, MYM, Buster2
1	ZMYM6	ENSG00000163867	ENST00000415531	protein_coding	PUTATIVE	None	13050	626	207	35480467	35497233	-1	ZNF258	ZNF198L4, MYM, Buster2
1	ZMYM6	ENSG00000163867	ENST00000317538	protein_coding	NOVEL	None	13050	513	170	35482845	35497506	-1	ZNF258	ZNF198L4, MYM, Buster2
1	ZMYM6	ENSG00000163867	ENST00000460607	processed_transcript	KNOWN	None	13050	None	None	35482851	35497448	-1	ZNF258	ZNF198L4, MYM, Buster2
1	ZMYM6	ENSG00000163867	ENST00000373333	protein_coding	NOVEL	None	13050	513	170	35484114	35497291	-1	ZNF258	ZNF198L4, MYM, Buster2
1	ZMYM6	ENSG00000163867	ENST00000471566	processed_transcript	PUTATIVE	None	13050	None	None	35495750	35497536	-1	ZNF258	ZNF198L4, MYM, Buster2
1	ZMYM6	ENSG00000163867	ENST00000373340	protein_coding	KNOWN	None	13050	2172	723	35449523	35497569	-1	ZNF258	ZNF198L4, MYM, Buster2
HSCHR6_MHC_QBL	MOG	ENSG00000137345	ENST00000383630	protein_coding	KNOWN	None	7197	744	247	29624698	29640072	1	None	None
HSCHR6_MHC_QBL	MOG	ENSG00000137345	ENST00000492471	processed_transcript	KNOWN	None	7197	None	None	29624747	29633964	1	None	None
HSCHR6_MHC_QBL	MOG	ENSG00000137345	ENST00000259891	protein_coding	KNOWN	None	7197	888	295	29624791	29640072	1	None	None
HSCHR6_MHC_QBL	MOG	ENSG00000137345	ENST00000465504	processed_transcript	KNOWN	None	7197	None	None	29624829	29627622	1	None	None
HSCHR6_MHC_QBL	MOG	ENSG00000137345	ENST00000383631	protein_coding	KNOWN	None	7197	690	229	29624909	29640072	1	None	None
HSCHR6_MHC_QBL	MOG	ENSG00000137345	ENST00000359539	protein_coding	KNOWN	None	7197	642	213	29624909	29640072	1	None	None
HSCHR6_MHC_QBL	MOG	ENSG00000137345	ENST00000400688	protein_coding	KNOWN	None	7197	396	131	29624909	29640072	1	None	None
HSCHR6_MHC_QBL	MOG	ENSG00000137345	ENST00000415631	protein_coding	KNOWN	None	7197	759	252	29624909	29640072	1	None	None
HSCHR6_MHC_QBL	MOG	ENSG00000137345	ENST00000442444	protein_coding	KNOWN	None	7197	675	224	29624909	29640072	1	None	None
HSCHR6_MHC_QBL	MOG	ENSG00000137345	ENST00000400691	protein_coding	KNOWN	None	7197	615	204	29624915	29640072	1	None	None
HSCHR6_MHC_QBL	MOG	ENSG00000137345	ENST00000400687	protein_coding	KNOWN	None	7197	539	178	29627017	29640072	1	None	None
HSCHR6_MHC_QBL	MOG	ENSG00000137345	ENST00000461235	processed_transcript	KNOWN	None	7197	None	None	29627017	29640072	1	None	None
HSCHR6_MHC_QBL	MOG	ENSG00000137345	ENST00000484234	processed_transcript	KNOWN	None	7197	None	None	29627017	29640072	1	None	None
HSCHR6_MHC_QBL	MOG	ENSG00000137345	ENST00000548951	protein_coding	KNOWN	None	7197	621	206	29624680	29640070	1	None	None
HSCHR6_MHC_QBL	MOG	ENSG00000137345	ENST00000547083	protein_coding	KNOWN	None	7197	627	208	29624680	29640070	1	None	None
HSCHR6_MHC_QBL	MOG	ENSG00000137345	ENST00000552767	protein_coding	KNOWN	None	7197	174	57	29624761	29632430	1	None	None
HSCHR6_MHC_QBL	MOG	ENSG00000137345	ENST00000549967	protein_coding	KNOWN	None	7197	516	171	29624680	29640070	1	None	None
20	BFSP1	ENSG00000125864	ENST00000377873	protein_coding	KNOWN	CCDS13126	1040	1998	665	17474550	17512014	-1	None	CP94, CP115, LIFL-H, filensin
20	BFSP1	ENSG00000125864	ENST00000377868	protein_coding	KNOWN	CCDS54448	1040	1623	540	17474550	17539605	-1	None	CP94, CP115, LIFL-H, filensin
20	BFSP1	ENSG00000125864	ENST00000492424	processed_transcript	KNOWN	None	1040	None	None	17487473	17495386	-1	None	CP94, CP115, LIFL-H, filensin
20	BFSP1	ENSG00000125864	ENST00000473415	processed_transcript	KNOWN	None	1040	None	None	17492637	17549865	-1	None	CP94, CP115, LIFL-H, filensin
20	BFSP1	ENSG00000125864	ENST00000536626	protein_coding	KNOWN	None	1040	1581	526	17474551	17549865	-1	None	CP94, CP115, LIFL-H, filensin
20	BFSP1	ENSG00000125864	ENST00000544874	protein_coding	KNOWN	None	1040	1581	526	17474551	17539483	-1	None	CP94, CP115, LIFL-H, filensin
10	GLRX3	ENSG00000108010	ENST00000331244	protein_coding	KNOWN	CCDS7661	15987	1008	335	131934663	131977888	1	TXNL2	PICOT, bA500G10.4, GRX3, GLRX4, GRX4
10	GLRX3	ENSG00000108010	ENST00000368644	protein_coding	KNOWN	CCDS7661	15987	1008	335	131934663	131978640	1	TXNL2	PICOT, bA500G10.4, GRX3, GLRX4, GRX4
10	GLRX3	ENSG00000108010	ENST00000481034	nonsense_mediated_decay	KNOWN	CCDS7661	15987	1008	335	131934663	131982785	1	TXNL2	PICOT, bA500G10.4, GRX3, GLRX4, GRX4
10	GLRX3	ENSG00000108010	ENST00000486974	processed_transcript	KNOWN	None	15987	None	None	131958010	131959137	1	TXNL2	PICOT, bA500G10.4, GRX3, GLRX4, GRX4
10	GLRX3	ENSG00000108010	ENST00000496195	processed_transcript	KNOWN	None	15987	None	None	131977638	131978646	1	TXNL2	PICOT, bA500G10.4, GRX3, GLRX4, GRX4
3	NBEAL2	ENSG00000160796	ENST00000450053	protein_coding	KNOWN	CCDS46817	31928	8265	2754	47021173	47051193	1	None	KIAA0540
3	NBEAL2	ENSG00000160796	ENST00000416683	protein_coding	NOVEL	None	31928	6128	2041	47036811	47051046	1	None	KIAA0540
3	NBEAL2	ENSG00000160796	ENST00000475689	retained_intron	KNOWN	None	31928	None	None	47042440	47043459	1	None	KIAA0540
3	NBEAL2	ENSG00000160796	ENST00000443829	protein_coding	NOVEL	None	31928	3280	1092	47043523	47051038	1	None	KIAA0540
3	NBEAL2	ENSG00000160796	ENST00000441027	nonsense_mediated_decay	KNOWN	None	31928	324	107	47045662	47047273	1	None	KIAA0540
3	NBEAL2	ENSG00000160796	ENST00000486870	retained_intron	KNOWN	None	31928	None	None	47046109	47047752	1	None	KIAA0540
3	NBEAL2	ENSG00000160796	ENST00000423436	protein_coding	PUTATIVE	None	31928	765	254	47046771	47049164	1	None	KIAA0540
3	NBEAL2	ENSG00000160796	ENST00000476095	retained_intron	KNOWN	None	31928	None	None	47048541	47050617	1	None	KIAA0540
3	NBEAL2	ENSG00000160796	ENST00000461036	retained_intron	KNOWN	None	31928	None	None	47048607	47049594	1	None	KIAA0540
3	NBEAL2	ENSG00000160796	ENST00000477412	retained_intron	KNOWN	None	31928	None	None	47048813	47050090	1	None	KIAA0540
3	NBEAL2	ENSG00000160796	ENST00000469349	retained_intron	KNOWN	None	31928	None	None	47049253	47049888	1	None	KIAA0540
3	NBEAL2	ENSG00000160796	ENST00000292309	protein_coding	KNOWN	None	31928	7713	2570	47021173	47051193	1	None	KIAA0540
3	NBEAL2	ENSG00000160796	ENST00000383740	protein_coding	KNOWN	None	31928	3012	1003	47021173	47051193	1	None	KIAA0540
16	C16orf78	ENSG00000166152	ENST00000299191	protein_coding	KNOWN	CCDS10738	28479	798	265	49407734	49433342	1	None	MGC33367
15	ARIH1	ENSG00000166233	ENST00000379887	protein_coding	KNOWN	CCDS10244	689	1674	557	72766667	72879692	1	None	HARI, HHARI, UBCH7BP, ARI
15	ARIH1	ENSG00000166233	ENST00000570085	nonsense_mediated_decay	KNOWN	None	689	504	167	72766831	72853888	1	None	HARI, HHARI, UBCH7BP, ARI
15	ARIH1	ENSG00000166233	ENST00000564062	protein_coding	NOVEL	None	689	612	203	72766986	72855841	1	None	HARI, HHARI, UBCH7BP, ARI
15	ARIH1	ENSG00000166233	ENST00000567762	processed_transcript	KNOWN	None	689	None	None	72767277	72837264	1	None	HARI, HHARI, UBCH7BP, ARI
15	ARIH1	ENSG00000166233	ENST00000561987	retained_intron	KNOWN	None	689	None	None	72853793	72874459	1	None	HARI, HHARI, UBCH7BP, ARI
15	ARIH1	ENSG00000166233	ENST00000565950	retained_intron	KNOWN	None	689	None	None	72858711	72873120	1	None	HARI, HHARI, UBCH7BP, ARI
15	ARIH1	ENSG00000166233	ENST00000561770	nonsense_mediated_decay	KNOWN	None	689	142	46	72864467	72874474	1	None	HARI, HHARI, UBCH7BP, ARI
15	ARIH1	ENSG00000166233	ENST00000566063	retained_intron	KNOWN	None	689	None	None	72872899	72875631	1	None	HARI, HHARI, UBCH7BP, ARI
15	ARIH1	ENSG00000166233	ENST00000562891	processed_transcript	PUTATIVE	None	689	None	None	72873063	72875892	1	None	HARI, HHARI, UBCH7BP, ARI
15	ARIH1	ENSG00000166233	ENST00000563310	retained_intron	KNOWN	None	689	None	None	72873813	72878900	1	None	HARI, HHARI, UBCH7BP, ARI
7	EN2	ENSG00000164778	ENST00000297375	protein_coding	KNOWN	CCDS5940	3343	1002	333	155250824	155257526	1	None	None
4	ADAMTS3	ENSG00000156140	ENST00000286657	protein_coding	KNOWN	CCDS3553	219	3618	1205	73146686	73434516	-1	None	KIAA0366, ADAMTS-4
4	ADAMTS3	ENSG00000156140	ENST00000511274	processed_transcript	KNOWN	None	219	None	None	73163942	73177972	-1	None	KIAA0366, ADAMTS-4
4	ADAMTS3	ENSG00000156140	ENST00000505193	processed_transcript	KNOWN	None	219	None	None	73307393	73433762	-1	None	KIAA0366, ADAMTS-4
HSCHR6_MHC_QBL	None	ENSG00000206476	ENST00000475673	retained_intron	KNOWN	None	None	None	None	30865607	30883835	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000206476	ENST00000383540	protein_coding	KNOWN	None	None	3192	1063	30871570	30883835	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000206476	ENST00000452966	protein_coding	KNOWN	None	None	978	325	30871617	30875157	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000206476	ENST00000484947	processed_transcript	KNOWN	None	None	None	None	30871631	30875164	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000206476	ENST00000433908	protein_coding	KNOWN	None	None	345	114	30871747	30872781	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000206476	ENST00000476415	retained_intron	KNOWN	None	None	None	None	30873785	30875119	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000206476	ENST00000473449	retained_intron	KNOWN	None	None	None	None	30876118	30883835	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000206476	ENST00000489340	processed_transcript	KNOWN	None	None	None	None	30877180	30883835	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000206476	ENST00000493915	processed_transcript	KNOWN	None	None	None	None	30879501	30883050	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000206476	ENST00000459847	retained_intron	KNOWN	None	None	None	None	30879954	30880876	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000206476	ENST00000462424	retained_intron	KNOWN	None	None	None	None	30880579	30883835	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000206476	ENST00000552560	protein_coding	KNOWN	None	None	3282	1093	30871696	30883832	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000206476	ENST00000550773	protein_coding	KNOWN	None	None	2772	923	30871570	30883832	1	None	None
21	CCT8	ENSG00000156261	ENST00000432178	protein_coding	PUTATIVE	None	1623	322	106	30428126	30433697	-1	C21orf112	Cctq, PRED71
21	CCT8	ENSG00000156261	ENST00000496121	retained_intron	KNOWN	None	1623	None	None	30428645	30435188	-1	C21orf112	Cctq, PRED71
21	CCT8	ENSG00000156261	ENST00000470450	processed_transcript	KNOWN	None	1623	None	None	30428645	30445960	-1	C21orf112	Cctq, PRED71
21	CCT8	ENSG00000156261	ENST00000286788	protein_coding	KNOWN	CCDS33528	1623	1647	548	30428645	30446118	-1	C21orf112	Cctq, PRED71
21	CCT8	ENSG00000156261	ENST00000480359	processed_transcript	PUTATIVE	None	1623	None	None	30434449	30435058	-1	C21orf112	Cctq, PRED71
21	CCT8	ENSG00000156261	ENST00000475205	retained_intron	KNOWN	None	1623	None	None	30434490	30435789	-1	C21orf112	Cctq, PRED71
21	CCT8	ENSG00000156261	ENST00000431234	protein_coding	PUTATIVE	None	1623	968	321	30434530	30445886	-1	C21orf112	Cctq, PRED71
21	CCT8	ENSG00000156261	ENST00000484403	retained_intron	KNOWN	None	1623	None	None	30437381	30445936	-1	C21orf112	Cctq, PRED71
21	CCT8	ENSG00000156261	ENST00000481059	processed_transcript	KNOWN	None	1623	None	None	30437397	30444557	-1	C21orf112	Cctq, PRED71
21	CCT8	ENSG00000156261	ENST00000494296	processed_transcript	KNOWN	None	1623	None	None	30439911	30445753	-1	C21orf112	Cctq, PRED71
21	CCT8	ENSG00000156261	ENST00000542732	protein_coding	KNOWN	None	1623	1590	529	30428650	30445672	-1	C21orf112	Cctq, PRED71
21	CCT8	ENSG00000156261	ENST00000540844	protein_coding	KNOWN	None	1623	1428	475	30428650	30445972	-1	C21orf112	Cctq, PRED71
9	None	ENSG00000229613	ENST00000427523	lincRNA	KNOWN	None	None	None	None	93225806	93229227	-1	None	None
9	None	ENSG00000229613	ENST00000449990	lincRNA	KNOWN	None	None	None	None	93225941	93345026	-1	None	None
9	None	ENSG00000229613	ENST00000429044	lincRNA	KNOWN	None	None	None	None	93323311	93344976	-1	None	None
7	CNPY1	ENSG00000146910	ENST00000406197	protein_coding	PUTATIVE	CCDS43684	27786	279	92	155266901	155326533	-1	None	None
7	CNPY1	ENSG00000146910	ENST00000321736	protein_coding	PUTATIVE	CCDS43684	27786	279	92	155293827	155326557	-1	None	None
21	NDUFV3	ENSG00000160194	ENST00000460259	processed_transcript	KNOWN	None	7719	None	None	44299754	44329215	1	None	CI-10k
21	NDUFV3	ENSG00000160194	ENST00000354250	protein_coding	KNOWN	CCDS33572	7719	1422	473	44313375	44329215	1	None	CI-10k
21	NDUFV3	ENSG00000160194	ENST00000340344	protein_coding	KNOWN	CCDS33573	7719	327	108	44313378	44329783	1	None	CI-10k
21	NDUFV3	ENSG00000160194	ENST00000460740	processed_transcript	KNOWN	None	7719	None	None	44313431	44324041	1	None	CI-10k
9	None	ENSG00000236316	ENST00000445529	unprocessed_pseudogene	KNOWN	None	None	None	None	93504808	93505662	-1	None	None
11	C11orf49	ENSG00000149179	ENST00000533124	processed_transcript	KNOWN	None	28720	None	None	46958240	47130869	1	None	FLJ22210, MGC4707
11	C11orf49	ENSG00000149179	ENST00000528488	nonsense_mediated_decay	KNOWN	None	28720	309	102	46958248	47183462	1	None	FLJ22210, MGC4707
11	C11orf49	ENSG00000149179	ENST00000525279	nonsense_mediated_decay	KNOWN	None	28720	150	49	46958281	47176789	1	None	FLJ22210, MGC4707
11	C11orf49	ENSG00000149179	ENST00000522712	retained_intron	KNOWN	None	28720	None	None	46958296	47074553	1	None	FLJ22210, MGC4707
11	C11orf49	ENSG00000149179	ENST00000278460	protein_coding	KNOWN	CCDS7925	28720	996	331	46958298	47183779	1	None	FLJ22210, MGC4707
11	C11orf49	ENSG00000149179	ENST00000531648	retained_intron	KNOWN	None	28720	None	None	46958299	47009424	1	None	FLJ22210, MGC4707
11	C11orf49	ENSG00000149179	ENST00000527234	processed_transcript	KNOWN	None	28720	None	None	46958299	47182754	1	None	FLJ22210, MGC4707
11	C11orf49	ENSG00000149179	ENST00000378618	protein_coding	PUTATIVE	CCDS31479	28720	981	326	46958305	47185936	1	None	FLJ22210, MGC4707
11	C11orf49	ENSG00000149179	ENST00000532840	retained_intron	KNOWN	None	28720	None	None	46958311	47159588	1	None	FLJ22210, MGC4707
11	C11orf49	ENSG00000149179	ENST00000395460	protein_coding	KNOWN	CCDS41641	28720	825	274	46958319	47183798	1	None	FLJ22210, MGC4707
11	C11orf49	ENSG00000149179	ENST00000532633	nonsense_mediated_decay	KNOWN	None	28720	150	49	46958329	47159063	1	None	FLJ22210, MGC4707
11	C11orf49	ENSG00000149179	ENST00000378615	protein_coding	KNOWN	CCDS31480	28720	1014	337	46958329	47183798	1	None	FLJ22210, MGC4707
11	C11orf49	ENSG00000149179	ENST00000526424	nonsense_mediated_decay	KNOWN	None	28720	255	84	46958330	47125362	1	None	FLJ22210, MGC4707
11	C11orf49	ENSG00000149179	ENST00000525895	nonsense_mediated_decay	KNOWN	None	28720	186	61	46958330	47183796	1	None	FLJ22210, MGC4707
11	C11orf49	ENSG00000149179	ENST00000527667	nonsense_mediated_decay	KNOWN	None	28720	150	49	46958331	47176760	1	None	FLJ22210, MGC4707
11	C11orf49	ENSG00000149179	ENST00000527784	nonsense_mediated_decay	KNOWN	None	28720	150	49	46958331	47183367	1	None	FLJ22210, MGC4707
11	C11orf49	ENSG00000149179	ENST00000527268	processed_transcript	KNOWN	None	28720	None	None	47073474	47179473	1	None	FLJ22210, MGC4707
11	C11orf49	ENSG00000149179	ENST00000534249	nonsense_mediated_decay	KNOWN	None	28720	205	67	47074005	47182741	1	None	FLJ22210, MGC4707
11	C11orf49	ENSG00000149179	ENST00000526827	protein_coding	PUTATIVE	None	28720	582	193	47074012	47181362	1	None	FLJ22210, MGC4707
11	C11orf49	ENSG00000149179	ENST00000529980	processed_transcript	KNOWN	None	28720	None	None	47159247	47177503	1	None	FLJ22210, MGC4707
11	C11orf49	ENSG00000149179	ENST00000525953	processed_transcript	KNOWN	None	28720	None	None	47175946	47179530	1	None	FLJ22210, MGC4707
11	C11orf49	ENSG00000149179	ENST00000534581	processed_transcript	KNOWN	None	28720	None	None	47176495	47183059	1	None	FLJ22210, MGC4707
11	C11orf49	ENSG00000149179	ENST00000543718	protein_coding	KNOWN	None	28720	744	247	46958331	47183367	1	None	FLJ22210, MGC4707
11	C11orf49	ENSG00000149179	ENST00000536126	protein_coding	KNOWN	None	28720	705	234	46958248	47183462	1	None	FLJ22210, MGC4707
1	DDX59	ENSG00000118197	ENST00000447706	protein_coding	KNOWN	None	25360	1743	580	200593024	200639035	-1	None	DKFZP564B1023, ZNHIT5
1	DDX59	ENSG00000118197	ENST00000452560	protein_coding	PUTATIVE	None	25360	283	93	200609939	200618277	-1	None	DKFZP564B1023, ZNHIT5
1	DDX59	ENSG00000118197	ENST00000413408	protein_coding	PUTATIVE	None	25360	618	205	200609950	200619780	-1	None	DKFZP564B1023, ZNHIT5
1	DDX59	ENSG00000118197	ENST00000331314	protein_coding	KNOWN	CCDS30964	25360	1860	619	200613167	200639097	-1	None	DKFZP564B1023, ZNHIT5
1	DDX59	ENSG00000118197	ENST00000429498	protein_coding	PUTATIVE	None	25360	592	196	200613249	200633092	-1	None	DKFZP564B1023, ZNHIT5
1	DDX59	ENSG00000118197	ENST00000433235	protein_coding	PUTATIVE	None	25360	674	223	200613497	200623997	-1	None	DKFZP564B1023, ZNHIT5
1	DDX59	ENSG00000118197	ENST00000453944	protein_coding	PUTATIVE	None	25360	225	74	200619571	200624232	-1	None	DKFZP564B1023, ZNHIT5
1	DDX59	ENSG00000118197	ENST00000436897	protein_coding	KNOWN	None	25360	482	159	200635387	200638836	-1	None	DKFZP564B1023, ZNHIT5
1	DDX59	ENSG00000118197	ENST00000367348	protein_coding	KNOWN	None	25360	1704	567	200610119	200638997	-1	None	DKFZP564B1023, ZNHIT5
7	None	ENSG00000216895	ENST00000401694	protein_coding	PUTATIVE	None	None	219	72	155403925	155437095	-1	None	None
7	None	ENSG00000216895	ENST00000460022	processed_transcript	KNOWN	None	None	None	None	155434958	155437071	-1	None	None
7	None	ENSG00000216895	ENST00000474963	processed_transcript	KNOWN	None	None	None	None	155435778	155437100	-1	None	None
7	None	ENSG00000216895	ENST00000469539	processed_transcript	KNOWN	None	None	None	None	155435895	155437100	-1	None	None
7	None	ENSG00000216895	ENST00000472015	processed_transcript	KNOWN	None	None	None	None	155436162	155437899	-1	None	None
2	RBMS1	ENSG00000153250	ENST00000474820	processed_transcript	KNOWN	None	9907	None	None	161128662	161349890	-1	C2orf12	SCR2, MSSP-1, MSSP-2, MSSP-3, YC1, HCC-4, DKFZp564H0764
2	RBMS1	ENSG00000153250	ENST00000348849	protein_coding	KNOWN	CCDS2213	9907	1221	406	161128662	161350305	-1	C2orf12	SCR2, MSSP-1, MSSP-2, MSSP-3, YC1, HCC-4, DKFZp564H0764
2	RBMS1	ENSG00000153250	ENST00000474147	retained_intron	KNOWN	None	9907	None	None	161130971	161136277	-1	C2orf12	SCR2, MSSP-1, MSSP-2, MSSP-3, YC1, HCC-4, DKFZp564H0764
2	RBMS1	ENSG00000153250	ENST00000409075	protein_coding	KNOWN	None	9907	1113	370	161130971	161265120	-1	C2orf12	SCR2, MSSP-1, MSSP-2, MSSP-3, YC1, HCC-4, DKFZp564H0764
2	RBMS1	ENSG00000153250	ENST00000409289	protein_coding	KNOWN	None	9907	1113	370	161130971	161272689	-1	C2orf12	SCR2, MSSP-1, MSSP-2, MSSP-3, YC1, HCC-4, DKFZp564H0764
2	RBMS1	ENSG00000153250	ENST00000475103	processed_transcript	KNOWN	None	9907	None	None	161130991	161133196	-1	C2orf12	SCR2, MSSP-1, MSSP-2, MSSP-3, YC1, HCC-4, DKFZp564H0764
2	RBMS1	ENSG00000153250	ENST00000490637	retained_intron	KNOWN	None	9907	None	None	161131029	161141378	-1	C2orf12	SCR2, MSSP-1, MSSP-2, MSSP-3, YC1, HCC-4, DKFZp564H0764
2	RBMS1	ENSG00000153250	ENST00000409972	protein_coding	KNOWN	None	9907	1113	370	161131031	161264400	-1	C2orf12	SCR2, MSSP-1, MSSP-2, MSSP-3, YC1, HCC-4, DKFZp564H0764
2	RBMS1	ENSG00000153250	ENST00000477965	retained_intron	KNOWN	None	9907	None	None	161131051	161139611	-1	C2orf12	SCR2, MSSP-1, MSSP-2, MSSP-3, YC1, HCC-4, DKFZp564H0764
2	RBMS1	ENSG00000153250	ENST00000464200	retained_intron	KNOWN	None	9907	None	None	161131910	161133883	-1	C2orf12	SCR2, MSSP-1, MSSP-2, MSSP-3, YC1, HCC-4, DKFZp564H0764
2	RBMS1	ENSG00000153250	ENST00000491781	retained_intron	KNOWN	None	9907	None	None	161140772	161349993	-1	C2orf12	SCR2, MSSP-1, MSSP-2, MSSP-3, YC1, HCC-4, DKFZp564H0764
2	RBMS1	ENSG00000153250	ENST00000492283	processed_transcript	KNOWN	None	9907	None	None	161159015	161174714	-1	C2orf12	SCR2, MSSP-1, MSSP-2, MSSP-3, YC1, HCC-4, DKFZp564H0764
2	RBMS1	ENSG00000153250	ENST00000428519	protein_coding	KNOWN	None	9907	383	126	161159919	161272689	-1	C2orf12	SCR2, MSSP-1, MSSP-2, MSSP-3, YC1, HCC-4, DKFZp564H0764
2	RBMS1	ENSG00000153250	ENST00000477486	retained_intron	KNOWN	None	9907	None	None	161223424	161349480	-1	C2orf12	SCR2, MSSP-1, MSSP-2, MSSP-3, YC1, HCC-4, DKFZp564H0764
2	RBMS1	ENSG00000153250	ENST00000392753	protein_coding	KNOWN	None	9907	1260	419	161130996	161350029	-1	C2orf12	SCR2, MSSP-1, MSSP-2, MSSP-3, YC1, HCC-4, DKFZp564H0764
12	C12orf39	ENSG00000134548	ENST00000256969	protein_coding	KNOWN	CCDS31757	28139	351	116	21679241	21685457	1	None	MGC10946, NPQ, spexin
12	C12orf39	ENSG00000134548	ENST00000535033	retained_intron	KNOWN	None	28139	None	None	21679978	21685457	1	None	MGC10946, NPQ, spexin
12	C12orf39	ENSG00000134548	ENST00000546199	nonsense_mediated_decay	KNOWN	None	28139	111	36	21680065	21684419	1	None	MGC10946, NPQ, spexin
12	C12orf39	ENSG00000134548	ENST00000544637	processed_transcript	KNOWN	None	28139	None	None	21680235	21684458	1	None	MGC10946, NPQ, spexin
12	C12orf39	ENSG00000134548	ENST00000535139	retained_intron	KNOWN	None	28139	None	None	21680369	21685457	1	None	MGC10946, NPQ, spexin
12	C12orf39	ENSG00000134548	ENST00000543800	processed_transcript	KNOWN	None	28139	None	None	21680870	21685457	1	None	MGC10946, NPQ, spexin
12	C12orf39	ENSG00000134548	ENST00000537527	processed_transcript	KNOWN	None	28139	None	None	21680886	21690311	1	None	MGC10946, NPQ, spexin
20	DSTN	ENSG00000125868	ENST00000246069	protein_coding	KNOWN	CCDS13127	15750	498	165	17550508	17588887	1	None	ADF, ACTDP
20	DSTN	ENSG00000125868	ENST00000474024	processed_transcript	KNOWN	None	15750	None	None	17550727	17588887	1	None	ADF, ACTDP
20	DSTN	ENSG00000125868	ENST00000449141	nonsense_mediated_decay	KNOWN	None	15750	408	135	17550735	17587867	1	None	ADF, ACTDP
20	DSTN	ENSG00000125868	ENST00000543261	protein_coding	KNOWN	CCDS46580	15750	447	148	17550599	17588652	1	None	ADF, ACTDP
9	None	ENSG00000270432	ENST00000605227	processed_pseudogene	KNOWN	None	None	None	None	93513522	93514512	-1	None	None
12	OASL	ENSG00000135114	ENST00000257570	protein_coding	KNOWN	CCDS9211	8090	1545	514	121458095	121477045	-1	None	TRIP14, p59OASL
12	OASL	ENSG00000135114	ENST00000339275	protein_coding	KNOWN	CCDS9212	8090	768	255	121458360	121476959	-1	None	TRIP14, p59OASL
12	OASL	ENSG00000135114	ENST00000543677	protein_coding	PUTATIVE	None	8090	461	152	121461542	121476750	-1	None	TRIP14, p59OASL
5	CEP120	ENSG00000168944	ENST00000306467	protein_coding	KNOWN	CCDS4134	26690	2961	986	122680579	122758997	-1	CCDC100	FLJ36090
5	CEP120	ENSG00000168944	ENST00000508138	nonsense_mediated_decay	KNOWN	None	26690	603	200	122680697	122759238	-1	CCDC100	FLJ36090
5	CEP120	ENSG00000168944	ENST00000513565	nonsense_mediated_decay	KNOWN	None	26690	1143	380	122682094	122759038	-1	CCDC100	FLJ36090
5	CEP120	ENSG00000168944	ENST00000508442	protein_coding	PUTATIVE	None	26690	2532	843	122685754	122759286	-1	CCDC100	FLJ36090
5	CEP120	ENSG00000168944	ENST00000503049	retained_intron	KNOWN	None	26690	None	None	122726603	122729143	-1	CCDC100	FLJ36090
5	CEP120	ENSG00000168944	ENST00000510582	protein_coding	KNOWN	None	26690	496	164	122734946	122759252	-1	CCDC100	FLJ36090
5	CEP120	ENSG00000168944	ENST00000515110	protein_coding	PUTATIVE	None	26690	213	70	122754088	122759018	-1	CCDC100	FLJ36090
5	CEP120	ENSG00000168944	ENST00000328236	protein_coding	KNOWN	CCDS4134	26690	2961	986	122680580	122759286	-1	CCDC100	FLJ36090
5	CEP120	ENSG00000168944	ENST00000306481	protein_coding	KNOWN	CCDS54890	26690	2883	960	122680580	122759286	-1	CCDC100	FLJ36090
5	CEP120	ENSG00000168944	ENST00000395431	protein_coding	KNOWN	None	26690	1143	380	122725955	122759286	-1	CCDC100	FLJ36090
X	GNL3L	ENSG00000130119	ENST00000336470	protein_coding	KNOWN	CCDS14360	25553	1749	582	54556644	54587504	1	None	FLJ10613
X	GNL3L	ENSG00000130119	ENST00000360845	protein_coding	KNOWN	CCDS14360	25553	1749	582	54556675	54587196	1	None	FLJ10613
X	GNL3L	ENSG00000130119	ENST00000489691	processed_transcript	KNOWN	None	25553	None	None	54556746	54570755	1	None	FLJ10613
18	POTEC	ENSG00000183206	ENST00000511306	nonsense_mediated_decay	KNOWN	None	33894	1155	384	14507338	14543584	-1	A26B2	POTE18, POTE-18, DKFZp686J0529, CT104.6
18	POTEC	ENSG00000183206	ENST00000358970	protein_coding	KNOWN	CCDS45835	33894	1629	542	14511897	14543145	-1	A26B2	POTE18, POTE-18, DKFZp686J0529, CT104.6
18	POTEC	ENSG00000183206	ENST00000389891	processed_transcript	KNOWN	None	33894	None	None	14528960	14543492	-1	A26B2	POTE18, POTE-18, DKFZp686J0529, CT104.6
9	RNU6-1020P	ENSG00000200554	ENST00000363684	snRNA	KNOWN	None	47983	None	None	128066199	128066305	-1	None	None
4	LRRC66	ENSG00000188993	ENST00000343457	protein_coding	KNOWN	CCDS43229	34299	2643	880	52859868	52883786	-1	None	None
20	PREX1	ENSG00000124126	ENST00000482556	nonsense_mediated_decay	KNOWN	None	32594	2651	882	47240790	47273665	-1	None	KIAA1415, P-REX1
20	PREX1	ENSG00000124126	ENST00000371941	protein_coding	KNOWN	CCDS13410	32594	4980	1659	47240790	47444420	-1	None	KIAA1415, P-REX1
20	PREX1	ENSG00000124126	ENST00000496915	processed_transcript	KNOWN	None	32594	None	None	47258651	47259276	-1	None	KIAA1415, P-REX1
20	PREX1	ENSG00000124126	ENST00000396220	protein_coding	KNOWN	None	32594	4686	1561	47240793	47444420	-1	None	KIAA1415, P-REX1
1	HIPK1	ENSG00000163349	ENST00000426820	protein_coding	NOVEL	CCDS867	19006	3633	1210	114471814	114516270	1	None	KIAA0630, Myak, MGC26642, Nbak2, MGC33446, MGC33548
1	HIPK1	ENSG00000163349	ENST00000369559	protein_coding	KNOWN	CCDS868	19006	3228	1075	114471996	114514695	1	None	KIAA0630, Myak, MGC26642, Nbak2, MGC33446, MGC33548
1	HIPK1	ENSG00000163349	ENST00000369558	protein_coding	KNOWN	CCDS867	19006	3633	1210	114472332	114520426	1	None	KIAA0630, Myak, MGC26642, Nbak2, MGC33446, MGC33548
1	HIPK1	ENSG00000163349	ENST00000369561	protein_coding	NOVEL	None	19006	3531	1176	114472377	114516193	1	None	KIAA0630, Myak, MGC26642, Nbak2, MGC33446, MGC33548
1	HIPK1	ENSG00000163349	ENST00000369555	protein_coding	NOVEL	None	19006	3498	1165	114472481	114516519	1	None	KIAA0630, Myak, MGC26642, Nbak2, MGC33446, MGC33548
1	HIPK1	ENSG00000163349	ENST00000514621	protein_coding	KNOWN	None	19006	357	118	114473127	114483362	1	None	KIAA0630, Myak, MGC26642, Nbak2, MGC33446, MGC33548
1	HIPK1	ENSG00000163349	ENST00000503968	protein_coding	KNOWN	None	19006	319	105	114473350	114483324	1	None	KIAA0630, Myak, MGC26642, Nbak2, MGC33446, MGC33548
1	HIPK1	ENSG00000163349	ENST00000340480	protein_coding	KNOWN	CCDS41370	19006	2511	836	114493767	114520426	1	None	KIAA0630, Myak, MGC26642, Nbak2, MGC33446, MGC33548
1	HIPK1	ENSG00000163349	ENST00000369553	protein_coding	KNOWN	CCDS869	19006	2451	816	114496499	114516503	1	None	KIAA0630, Myak, MGC26642, Nbak2, MGC33446, MGC33548
1	HIPK1	ENSG00000163349	ENST00000361587	protein_coding	NOVEL	None	19006	1474	490	114506062	114520426	1	None	KIAA0630, Myak, MGC26642, Nbak2, MGC33446, MGC33548
1	HIPK1	ENSG00000163349	ENST00000369554	protein_coding	KNOWN	None	19006	3498	1165	114471996	114520422	1	None	KIAA0630, Myak, MGC26642, Nbak2, MGC33446, MGC33548
1	HIPK1	ENSG00000163349	ENST00000406344	protein_coding	KNOWN	CCDS869	19006	2451	816	114497248	114520422	1	None	KIAA0630, Myak, MGC26642, Nbak2, MGC33446, MGC33548
14	ACOT6	ENSG00000205669	ENST00000554229	protein_coding	KNOWN	None	33159	506	167	74077649	74086425	1	C14orf42	None
14	ACOT6	ENSG00000205669	ENST00000381139	protein_coding	KNOWN	CCDS32118	33159	624	207	74083548	74086592	1	C14orf42	None
19	ZNF480	ENSG00000198464	ENST00000468240	nonsense_mediated_decay	KNOWN	CCDS12850	23305	1608	535	52800430	52829172	1	None	MGC32104
19	ZNF480	ENSG00000198464	ENST00000595962	protein_coding	KNOWN	CCDS12850	23305	1608	535	52800430	52829175	1	None	MGC32104
19	ZNF480	ENSG00000198464	ENST00000598016	protein_coding	NOVEL	None	23305	495	164	52800432	52824900	1	None	MGC32104
19	ZNF480	ENSG00000198464	ENST00000334564	protein_coding	NOVEL	None	23305	1479	492	52800432	52826411	1	None	MGC32104
19	ZNF480	ENSG00000198464	ENST00000490272	protein_coding	PUTATIVE	None	23305	186	61	52800432	52826933	1	None	MGC32104
19	ZNF480	ENSG00000198464	ENST00000335090	protein_coding	KNOWN	None	23305	1377	458	52803647	52827333	1	None	MGC32104
15	MRPS11	ENSG00000181991	ENST00000560708	nonsense_mediated_decay	KNOWN	None	14050	357	118	89010684	89021482	1	None	FLJ23406, HCC-2, FLJ22512
15	MRPS11	ENSG00000181991	ENST00000325844	protein_coding	KNOWN	CCDS10342	14050	585	194	89010684	89022222	1	None	FLJ23406, HCC-2, FLJ22512
15	MRPS11	ENSG00000181991	ENST00000559125	retained_intron	KNOWN	None	14050	None	None	89010909	89011489	1	None	FLJ23406, HCC-2, FLJ22512
15	MRPS11	ENSG00000181991	ENST00000557974	processed_transcript	KNOWN	None	14050	None	None	89010936	89021135	1	None	FLJ23406, HCC-2, FLJ22512
15	MRPS11	ENSG00000181991	ENST00000559323	retained_intron	KNOWN	None	14050	None	None	89010937	89021494	1	None	FLJ23406, HCC-2, FLJ22512
15	MRPS11	ENSG00000181991	ENST00000560850	retained_intron	KNOWN	None	14050	None	None	89010939	89015851	1	None	FLJ23406, HCC-2, FLJ22512
15	MRPS11	ENSG00000181991	ENST00000353598	protein_coding	KNOWN	CCDS10343	14050	486	161	89010949	89021490	1	None	FLJ23406, HCC-2, FLJ22512
15	MRPS11	ENSG00000181991	ENST00000558406	retained_intron	KNOWN	None	14050	None	None	89010967	89021436	1	None	FLJ23406, HCC-2, FLJ22512
15	MRPS11	ENSG00000181991	ENST00000559557	retained_intron	KNOWN	None	14050	None	None	89011194	89015851	1	None	FLJ23406, HCC-2, FLJ22512
15	MRPS11	ENSG00000181991	ENST00000558548	retained_intron	KNOWN	None	14050	None	None	89015738	89021498	1	None	FLJ23406, HCC-2, FLJ22512
15	MRPS11	ENSG00000181991	ENST00000561262	retained_intron	KNOWN	None	14050	None	None	89019956	89021498	1	None	FLJ23406, HCC-2, FLJ22512
Y	TTTY23B	ENSG00000237069	ENST00000451467	processed_transcript	KNOWN	None	37983	None	None	6110487	6111651	-1	None	None
Y	None	ENSG00000250204	ENST00000442790	unprocessed_pseudogene	KNOWN	None	None	None	None	6111336	6113324	-1	None	None
Y	FAM197Y9	ENSG00000234830	ENST00000451062	processed_transcript	KNOWN	None	37477	None	None	6124308	6131994	-1	None	None
Y	FAM197Y9	ENSG00000234830	ENST00000452103	processed_transcript	KNOWN	None	37477	None	None	6126374	6131976	-1	None	None
Y	None	ENSG00000250047	ENST00000505707	unprocessed_pseudogene	KNOWN	None	None	None	None	6131643	6133645	-1	None	None
20	PTPRA	ENSG00000132670	ENST00000380393	protein_coding	KNOWN	CCDS13038	9664	2409	802	2844830	3019320	1	PTPRL2, PTPA	LRP, HLPR, HPTPA, RPTPA
20	PTPRA	ENSG00000132670	ENST00000455631	protein_coding	KNOWN	None	9664	760	252	2854066	2985750	1	PTPRL2, PTPA	LRP, HLPR, HPTPA, RPTPA
20	PTPRA	ENSG00000132670	ENST00000216877	protein_coding	KNOWN	CCDS13039	9664	2382	793	2854135	3019722	1	PTPRL2, PTPA	LRP, HLPR, HPTPA, RPTPA
20	PTPRA	ENSG00000132670	ENST00000431048	protein_coding	KNOWN	None	9664	415	137	2854164	2945848	1	PTPRL2, PTPA	LRP, HLPR, HPTPA, RPTPA
20	PTPRA	ENSG00000132670	ENST00000430705	protein_coding	KNOWN	None	9664	527	174	2854329	2967495	1	PTPRL2, PTPA	LRP, HLPR, HPTPA, RPTPA
20	PTPRA	ENSG00000132670	ENST00000318266	protein_coding	KNOWN	CCDS13039	9664	2382	793	2854329	3019320	1	PTPRL2, PTPA	LRP, HLPR, HPTPA, RPTPA
20	PTPRA	ENSG00000132670	ENST00000425918	protein_coding	KNOWN	None	9664	2442	813	2854215	3019025	1	PTPRL2, PTPA	LRP, HLPR, HPTPA, RPTPA
20	PTPRA	ENSG00000132670	ENST00000399903	protein_coding	KNOWN	CCDS13038	9664	2409	802	2854142	3019314	1	PTPRL2, PTPA	LRP, HLPR, HPTPA, RPTPA
20	PTPRA	ENSG00000132670	ENST00000356147	protein_coding	KNOWN	CCDS13039	9664	2382	793	2903853	3019314	1	PTPRL2, PTPA	LRP, HLPR, HPTPA, RPTPA
20	PTPRA	ENSG00000132670	ENST00000358719	protein_coding	KNOWN	None	9664	1977	658	2854142	3019314	1	PTPRL2, PTPA	LRP, HLPR, HPTPA, RPTPA
4	SGCB	ENSG00000163069	ENST00000381431	protein_coding	KNOWN	CCDS3488	10806	957	318	52886872	52904648	-1	LGMD2E	SGC, A3b
4	SGCB	ENSG00000163069	ENST00000506357	nonsense_mediated_decay	KNOWN	None	10806	301	99	52894937	52904411	-1	LGMD2E	SGC, A3b
4	SGCB	ENSG00000163069	ENST00000514133	nonsense_mediated_decay	KNOWN	None	10806	282	93	52894995	52899806	-1	LGMD2E	SGC, A3b
4	SGCB	ENSG00000163069	ENST00000535450	protein_coding	KNOWN	None	10806	747	248	52888225	52904425	-1	LGMD2E	SGC, A3b
Y	TSPY11P	ENSG00000238235	ENST00000442607	unprocessed_pseudogene	KNOWN	None	23903	None	None	6134634	6137316	1	TSPYP1	None
6	GTPBP2	ENSG00000172432	ENST00000496137	nonsense_mediated_decay	KNOWN	None	4670	318	105	43573053	43589904	-1	None	None
6	GTPBP2	ENSG00000172432	ENST00000419497	protein_coding	KNOWN	None	4670	460	152	43588227	43590541	-1	None	None
6	GTPBP2	ENSG00000172432	ENST00000432918	protein_coding	KNOWN	None	4670	463	153	43588227	43590541	-1	None	None
6	GTPBP2	ENSG00000172432	ENST00000476510	processed_transcript	KNOWN	None	4670	None	None	43588227	43594754	-1	None	None
6	GTPBP2	ENSG00000172432	ENST00000307126	protein_coding	KNOWN	CCDS4903	4670	1809	602	43588227	43596899	-1	None	None
6	GTPBP2	ENSG00000172432	ENST00000459959	processed_transcript	KNOWN	None	4670	None	None	43590688	43591532	-1	None	None
6	GTPBP2	ENSG00000172432	ENST00000442748	protein_coding	KNOWN	None	4670	946	314	43592298	43596608	-1	None	None
6	GTPBP2	ENSG00000172432	ENST00000480263	processed_transcript	KNOWN	None	4670	None	None	43592351	43593601	-1	None	None
6	GTPBP2	ENSG00000172432	ENST00000452781	protein_coding	KNOWN	None	4670	681	226	43593100	43596899	-1	None	None
6	GTPBP2	ENSG00000172432	ENST00000307114	protein_coding	KNOWN	None	4670	1545	514	43589004	43595090	-1	None	None
1	ZMYM1	ENSG00000197056	ENST00000417119	protein_coding	NOVEL	None	26253	1385	460	35525387	35578816	1	None	FLJ23151, MYM
1	ZMYM1	ENSG00000197056	ENST00000359858	protein_coding	NOVEL	CCDS41302	26253	3429	1142	35544968	35581456	1	None	FLJ23151, MYM
1	ZMYM1	ENSG00000197056	ENST00000466390	processed_transcript	KNOWN	None	26253	None	None	35544983	35563195	1	None	FLJ23151, MYM
1	ZMYM1	ENSG00000197056	ENST00000488455	processed_transcript	KNOWN	None	26253	None	None	35544987	35580237	1	None	FLJ23151, MYM
1	ZMYM1	ENSG00000197056	ENST00000475654	processed_transcript	KNOWN	None	26253	None	None	35544992	35577508	1	None	FLJ23151, MYM
1	ZMYM1	ENSG00000197056	ENST00000373329	processed_transcript	KNOWN	None	26253	None	None	35544992	35581455	1	None	FLJ23151, MYM
1	ZMYM1	ENSG00000197056	ENST00000373330	protein_coding	NOVEL	CCDS41302	26253	3429	1142	35544992	35581460	1	None	FLJ23151, MYM
1	ZMYM1	ENSG00000197056	ENST00000476269	processed_transcript	KNOWN	None	26253	None	None	35558840	35563079	1	None	FLJ23151, MYM
1	ZMYM1	ENSG00000197056	ENST00000463393	processed_transcript	KNOWN	None	26253	None	None	35569844	35577378	1	None	FLJ23151, MYM
X	UBE2NL	ENSG00000102069	ENST00000370494	protein_coding	KNOWN	CCDS35420	31710	462	153	142967173	142968355	1	None	None
HSCHR6_MHC_DBB	None	ENSG00000257867	ENST00000548607	protein_coding	NOVEL	None	None	35	10	30007934	30067620	-1	None	None
7	EGFR	ENSG00000146648	ENST00000455089	protein_coding	PUTATIVE	None	3236	3276	1091	55086714	55270769	1	ERBB	ERBB1
7	EGFR	ENSG00000146648	ENST00000342916	protein_coding	KNOWN	CCDS5516	3236	1887	628	55086725	55236328	1	ERBB	ERBB1
7	EGFR	ENSG00000146648	ENST00000344576	protein_coding	KNOWN	CCDS5515	3236	2118	705	55086726	55238738	1	ERBB	ERBB1
7	EGFR	ENSG00000146648	ENST00000420316	protein_coding	KNOWN	CCDS47587	3236	1218	405	55086727	55224644	1	ERBB	ERBB1
7	EGFR	ENSG00000146648	ENST00000275493	protein_coding	KNOWN	CCDS5514	3236	3633	1210	55086794	55279321	1	ERBB	ERBB1
7	EGFR	ENSG00000146648	ENST00000459688	processed_transcript	PUTATIVE	None	3236	None	None	55086824	55111742	1	ERBB	ERBB1
7	EGFR	ENSG00000146648	ENST00000463948	processed_transcript	PUTATIVE	None	3236	None	None	55086844	55187094	1	ERBB	ERBB1
7	EGFR	ENSG00000146648	ENST00000450046	protein_coding	PUTATIVE	None	3236	384	127	55177416	55214417	1	ERBB	ERBB1
7	EGFR	ENSG00000146648	ENST00000485503	retained_intron	KNOWN	None	3236	None	None	55260504	55268495	1	ERBB	ERBB1
7	EGFR	ENSG00000146648	ENST00000442591	protein_coding	KNOWN	None	3236	1974	657	55086811	55324313	1	ERBB	ERBB1
7	EGFR	ENSG00000146648	ENST00000454757	protein_coding	KNOWN	None	3236	3474	1157	55177540	55273591	1	ERBB	ERBB1
3	FAM162A	ENSG00000114023	ENST00000232125	protein_coding	PUTATIVE	None	17865	435	144	122103023	122128764	1	C3orf28	E2IG5
3	FAM162A	ENSG00000114023	ENST00000477892	protein_coding	KNOWN	CCDS43139	17865	465	154	122103029	122131181	1	C3orf28	E2IG5
3	FAM162A	ENSG00000114023	ENST00000469967	protein_coding	PUTATIVE	None	17865	426	141	122103045	122126811	1	C3orf28	E2IG5
7	RBM33	ENSG00000184863	ENST00000287912	protein_coding	KNOWN	None	27223	807	268	155437145	155493877	1	PRR8	DKFZp686F102, MGC20460, DKFZp434D1319
7	RBM33	ENSG00000184863	ENST00000401878	protein_coding	KNOWN	CCDS5941	27223	3513	1170	155437373	155574173	1	PRR8	DKFZp686F102, MGC20460, DKFZp434D1319
7	RBM33	ENSG00000184863	ENST00000392759	protein_coding	NOVEL	None	27223	927	308	155437396	155494184	1	PRR8	DKFZp686F102, MGC20460, DKFZp434D1319
7	RBM33	ENSG00000184863	ENST00000307403	nonsense_mediated_decay	KNOWN	None	27223	855	284	155465574	155538414	1	PRR8	DKFZp686F102, MGC20460, DKFZp434D1319
7	RBM33	ENSG00000184863	ENST00000440108	protein_coding	PUTATIVE	None	27223	1027	341	155473363	155530287	1	PRR8	DKFZp686F102, MGC20460, DKFZp434D1319
7	RBM33	ENSG00000184863	ENST00000392761	protein_coding	PUTATIVE	None	27223	2729	908	155493585	155559590	1	PRR8	DKFZp686F102, MGC20460, DKFZp434D1319
7	RBM33	ENSG00000184863	ENST00000486747	processed_transcript	PUTATIVE	None	27223	None	None	155499508	155511129	1	PRR8	DKFZp686F102, MGC20460, DKFZp434D1319
7	RBM33	ENSG00000184863	ENST00000438356	protein_coding	KNOWN	None	27223	84	27	155539113	155559250	1	PRR8	DKFZp686F102, MGC20460, DKFZp434D1319
7	RBM33	ENSG00000184863	ENST00000341148	protein_coding	KNOWN	None	27223	321	106	155539280	155574179	1	PRR8	DKFZp686F102, MGC20460, DKFZp434D1319
7	RBM33	ENSG00000184863	ENST00000392755	protein_coding	PUTATIVE	None	27223	253	83	155559250	155568154	1	PRR8	DKFZp686F102, MGC20460, DKFZp434D1319
X	SPANXN1	ENSG00000203923	ENST00000370493	protein_coding	KNOWN	CCDS35421	33174	219	72	144328348	144337632	1	None	SPANX-N1, CT11.6
HSCHR6_MHC_SSTO	ETF1P1	ENSG00000223996	ENST00000436392	processed_pseudogene	KNOWN	None	3478	None	None	29989049	29990339	1	SUP45L2	HCGVII
HSCHR6_MHC_DBB	ZNRD1	ENSG00000236949	ENST00000485907	retained_intron	KNOWN	None	13182	None	None	30017009	30023013	1	None	hZR14, HTEX-6, tctex-6, RPA12
HSCHR6_MHC_DBB	ZNRD1	ENSG00000236949	ENST00000437373	protein_coding	KNOWN	None	13182	381	126	30019364	30023013	1	None	hZR14, HTEX-6, tctex-6, RPA12
HSCHR6_MHC_DBB	ZNRD1	ENSG00000236949	ENST00000431032	protein_coding	KNOWN	None	13182	381	126	30019367	30023013	1	None	hZR14, HTEX-6, tctex-6, RPA12
HSCHR6_MHC_DBB	ZNRD1	ENSG00000236949	ENST00000433264	protein_coding	KNOWN	None	13182	381	126	30019369	30023013	1	None	hZR14, HTEX-6, tctex-6, RPA12
HSCHR6_MHC_DBB	ZNRD1	ENSG00000236949	ENST00000432545	protein_coding	KNOWN	None	13182	381	126	30019373	30023013	1	None	hZR14, HTEX-6, tctex-6, RPA12
HSCHR6_MHC_DBB	ZNRD1	ENSG00000236949	ENST00000459984	processed_transcript	KNOWN	None	13182	None	None	30019440	30023013	1	None	hZR14, HTEX-6, tctex-6, RPA12
HSCHR6_MHC_SSTO	None	ENSG00000265436	ENST00000582177	miRNA	NOVEL	None	None	None	None	30046179	30046311	-1	None	None
HSCHR6_MHC_SSTO	TRIM31-AS1	ENSG00000225732	ENST00000450887	processed_transcript	KNOWN	None	39761	None	None	30062609	30072086	1	None	None
22	TUBA8	ENSG00000183785	ENST00000426208	protein_coding	PUTATIVE	None	12410	141	46	18593097	18607035	1	TUBAL2	None
22	TUBA8	ENSG00000183785	ENST00000316027	protein_coding	PUTATIVE	CCDS54495	12410	1152	383	18593453	18613921	1	TUBAL2	None
22	TUBA8	ENSG00000183785	ENST00000330423	protein_coding	KNOWN	CCDS13751	12410	1350	449	18593559	18614498	1	TUBAL2	None
22	TUBA8	ENSG00000183785	ENST00000416740	protein_coding	PUTATIVE	None	12410	1403	466	18603874	18613884	1	TUBAL2	None
HSCHR6_MHC_SSTO	None	ENSG00000263942	ENST00000581572	snoRNA	NOVEL	None	None	None	None	30090184	30090346	-1	None	None
HSCHR6_MHC_SSTO	PAIP1P1	ENSG00000224954	ENST00000448524	processed_pseudogene	KNOWN	None	18240	None	None	30144127	30145936	-1	None	bQB44E15.5, bPG254M11.3, bCX300M20.3
HSCHR6_MHC_SSTO	HCG17	ENSG00000240833	ENST00000448222	processed_transcript	PUTATIVE	None	31339	None	None	30191363	30191801	-1	None	NCRNA00046, LINC00046
HSCHR6_MHC_SSTO	HCG17	ENSG00000240833	ENST00000448760	processed_transcript	KNOWN	None	31339	None	None	30191363	30283028	-1	None	NCRNA00046, LINC00046
1	CAMSAP2	ENSG00000118200	ENST00000358823	protein_coding	KNOWN	CCDS1404	29188	4437	1478	200708686	200829832	1	CAMSAP1L1	KIAA1078
1	CAMSAP2	ENSG00000118200	ENST00000413307	protein_coding	KNOWN	None	29188	4389	1462	200708907	200827247	1	CAMSAP1L1	KIAA1078
1	CAMSAP2	ENSG00000118200	ENST00000236925	protein_coding	KNOWN	None	29188	4470	1489	200708907	200829829	1	CAMSAP1L1	KIAA1078
1	CAMSAP2	ENSG00000118200	ENST00000532732	retained_intron	KNOWN	None	29188	None	None	200801236	200801962	1	CAMSAP1L1	KIAA1078
1	CAMSAP2	ENSG00000118200	ENST00000447701	nonsense_mediated_decay	KNOWN	None	29188	400	132	200801844	200822543	1	CAMSAP1L1	KIAA1078
1	CAMSAP2	ENSG00000118200	ENST00000475326	protein_coding	PUTATIVE	None	29188	169	55	200825222	200826852	1	CAMSAP1L1	KIAA1078
9	QSOX2	ENSG00000165661	ENST00000358701	protein_coding	KNOWN	CCDS35178	30249	2097	698	139098179	139137687	-1	QSCN6L1	SOXN, DKFZp762A2013
9	QSOX2	ENSG00000165661	ENST00000455222	protein_coding	NOVEL	None	30249	851	282	139103110	139116723	-1	QSCN6L1	SOXN, DKFZp762A2013
10	None	ENSG00000235356	ENST00000428346	lincRNA	KNOWN	None	None	None	None	67073543	67074728	1	None	None
HSCHR6_MHC_SSTO	TRIM26BP	ENSG00000233350	ENST00000432779	unprocessed_pseudogene	KNOWN	None	31338	None	None	30195625	30199187	1	TRIM26P	Em:AB023053.1, TRIM26P1
17	SMG6	ENSG00000070366	ENST00000574501	retained_intron	KNOWN	None	17809	None	None	1963133	1965551	-1	C17orf31	KIAA0732, SMG-6, EST1A
17	SMG6	ENSG00000070366	ENST00000263073	protein_coding	KNOWN	CCDS11016	17809	4260	1419	1963138	2207065	-1	C17orf31	KIAA0732, SMG-6, EST1A
17	SMG6	ENSG00000070366	ENST00000573166	processed_transcript	KNOWN	None	17809	None	None	1963140	1992055	-1	C17orf31	KIAA0732, SMG-6, EST1A
17	SMG6	ENSG00000070366	ENST00000354901	protein_coding	NOVEL	CCDS58498	17809	1536	511	1963144	2169493	-1	C17orf31	KIAA0732, SMG-6, EST1A
17	SMG6	ENSG00000070366	ENST00000570756	processed_transcript	KNOWN	None	17809	None	None	1963170	1985604	-1	C17orf31	KIAA0732, SMG-6, EST1A
17	SMG6	ENSG00000070366	ENST00000576218	processed_transcript	KNOWN	None	17809	None	None	1964668	1985595	-1	C17orf31	KIAA0732, SMG-6, EST1A
17	SMG6	ENSG00000070366	ENST00000536871	protein_coding	NOVEL	CCDS58498	17809	1536	511	1964699	2140331	-1	C17orf31	KIAA0732, SMG-6, EST1A
17	SMG6	ENSG00000070366	ENST00000573153	processed_transcript	KNOWN	None	17809	None	None	1964746	1969383	-1	C17orf31	KIAA0732, SMG-6, EST1A
17	SMG6	ENSG00000070366	ENST00000573827	processed_transcript	KNOWN	None	17809	None	None	1964845	1975297	-1	C17orf31	KIAA0732, SMG-6, EST1A
17	SMG6	ENSG00000070366	ENST00000575454	protein_coding	PUTATIVE	None	17809	624	207	1972181	2076472	-1	C17orf31	KIAA0732, SMG-6, EST1A
17	SMG6	ENSG00000070366	ENST00000575338	processed_transcript	PUTATIVE	None	17809	None	None	1985210	1998406	-1	C17orf31	KIAA0732, SMG-6, EST1A
17	SMG6	ENSG00000070366	ENST00000570874	processed_transcript	PUTATIVE	None	17809	None	None	1989077	2076365	-1	C17orf31	KIAA0732, SMG-6, EST1A
17	SMG6	ENSG00000070366	ENST00000572369	protein_coding	PUTATIVE	None	17809	416	137	2075962	2117643	-1	C17orf31	KIAA0732, SMG-6, EST1A
17	SMG6	ENSG00000070366	ENST00000575176	protein_coding	PUTATIVE	None	17809	372	123	2076006	2116031	-1	C17orf31	KIAA0732, SMG-6, EST1A
17	SMG6	ENSG00000070366	ENST00000572205	protein_coding	PUTATIVE	None	17809	347	114	2076031	2132758	-1	C17orf31	KIAA0732, SMG-6, EST1A
17	SMG6	ENSG00000070366	ENST00000571442	protein_coding	PUTATIVE	None	17809	494	163	2076091	2140685	-1	C17orf31	KIAA0732, SMG-6, EST1A
17	SMG6	ENSG00000070366	ENST00000570659	protein_coding	NOVEL	None	17809	489	162	2076096	2148206	-1	C17orf31	KIAA0732, SMG-6, EST1A
17	SMG6	ENSG00000070366	ENST00000575663	protein_coding	PUTATIVE	None	17809	487	161	2076098	2140874	-1	C17orf31	KIAA0732, SMG-6, EST1A
17	SMG6	ENSG00000070366	ENST00000570606	protein_coding	PUTATIVE	None	17809	369	122	2090019	2169425	-1	C17orf31	KIAA0732, SMG-6, EST1A
17	SMG6	ENSG00000070366	ENST00000570668	protein_coding	PUTATIVE	None	17809	357	118	2090031	2143485	-1	C17orf31	KIAA0732, SMG-6, EST1A
17	SMG6	ENSG00000070366	ENST00000544865	protein_coding	KNOWN	None	17809	4167	1388	1963133	2206813	-1	C17orf31	KIAA0732, SMG-6, EST1A
HSCHR6_MHC_SSTO	HLA-L	ENSG00000242227	ENST00000497494	processed_transcript	KNOWN	None	4970	None	None	30216517	30223871	1	HLA92, HLAL	HLA-92
HSCHR6_MHC_SSTO	HLA-L	ENSG00000242227	ENST00000470222	transcribed_unprocessed_pseudogene	KNOWN	None	4970	None	None	30216535	30219255	1	HLA92, HLAL	HLA-92
HSCHR6_MHC_SSTO	HLA-L	ENSG00000242227	ENST00000547888	unprocessed_pseudogene	KNOWN	None	4970	None	None	30216504	30249916	1	HLA92, HLAL	HLA-92
14	DNAL1	ENSG00000119661	ENST00000554113	protein_coding	KNOWN	None	23247	171	56	74111578	74156196	1	C14orf168	MGC12435, 1700010H15RiK, CILD16
14	DNAL1	ENSG00000119661	ENST00000555631	protein_coding	KNOWN	None	23247	415	137	74111694	74156218	1	C14orf168	MGC12435, 1700010H15RiK, CILD16
14	DNAL1	ENSG00000119661	ENST00000553645	protein_coding	KNOWN	CCDS45134	23247	573	190	74111702	74163197	1	C14orf168	MGC12435, 1700010H15RiK, CILD16
14	DNAL1	ENSG00000119661	ENST00000311089	protein_coding	KNOWN	None	23247	234	77	74111712	74164463	1	C14orf168	MGC12435, 1700010H15RiK, CILD16
14	DNAL1	ENSG00000119661	ENST00000555919	protein_coding	KNOWN	None	23247	157	51	74111720	74153971	1	C14orf168	MGC12435, 1700010H15RiK, CILD16
14	DNAL1	ENSG00000119661	ENST00000554339	protein_coding	NOVEL	None	23247	312	103	74111721	74162859	1	C14orf168	MGC12435, 1700010H15RiK, CILD16
14	DNAL1	ENSG00000119661	ENST00000554871	protein_coding	KNOWN	CCDS55928	23247	456	151	74111730	74162645	1	C14orf168	MGC12435, 1700010H15RiK, CILD16
14	DNAL1	ENSG00000119661	ENST00000559993	protein_coding	KNOWN	None	23247	195	64	74125550	74156220	1	C14orf168	MGC12435, 1700010H15RiK, CILD16
14	DNAL1	ENSG00000119661	ENST00000554159	nonsense_mediated_decay	KNOWN	None	23247	204	67	74125565	74162778	1	C14orf168	MGC12435, 1700010H15RiK, CILD16
14	DNAL1	ENSG00000119661	ENST00000540526	protein_coding	KNOWN	CCDS55928	23247	456	151	74119872	74162645	1	C14orf168	MGC12435, 1700010H15RiK, CILD16
7	HBP1	ENSG00000105856	ENST00000468410	protein_coding	KNOWN	CCDS5741	23200	1545	514	106809406	106842953	1	None	None
7	HBP1	ENSG00000105856	ENST00000478930	protein_coding	KNOWN	None	23200	212	69	106809435	106822860	1	None	None
7	HBP1	ENSG00000105856	ENST00000464009	protein_coding	KNOWN	None	23200	373	123	106809445	106823021	1	None	None
7	HBP1	ENSG00000105856	ENST00000222574	protein_coding	KNOWN	CCDS5741	23200	1545	514	106809460	106842974	1	None	None
7	HBP1	ENSG00000105856	ENST00000468401	protein_coding	KNOWN	None	23200	85	27	106810165	106820423	1	None	None
7	HBP1	ENSG00000105856	ENST00000468116	processed_transcript	KNOWN	None	23200	None	None	106810212	106814972	1	None	None
7	HBP1	ENSG00000105856	ENST00000497535	protein_coding	KNOWN	None	23200	325	107	106810214	106822973	1	None	None
7	HBP1	ENSG00000105856	ENST00000485846	protein_coding	KNOWN	CCDS5741	23200	1545	514	106810218	106842080	1	None	None
7	HBP1	ENSG00000105856	ENST00000479011	protein_coding	KNOWN	None	23200	333	110	106820071	106822981	1	None	None
7	HBP1	ENSG00000105856	ENST00000463202	retained_intron	KNOWN	None	23200	None	None	106820323	106841849	1	None	None
7	HBP1	ENSG00000105856	ENST00000498408	protein_coding	KNOWN	None	23200	1365	454	106820363	106837567	1	None	None
7	HBP1	ENSG00000105856	ENST00000461963	processed_transcript	KNOWN	None	23200	None	None	106826909	106840745	1	None	None
7	HBP1	ENSG00000105856	ENST00000483809	retained_intron	KNOWN	None	23200	None	None	106830321	106836418	1	None	None
7	HBP1	ENSG00000105856	ENST00000607681	protein_coding	PUTATIVE	None	23200	464	153	106836293	106840776	1	None	None
7	HBP1	ENSG00000105856	ENST00000463790	nonsense_mediated_decay	KNOWN	None	23200	258	85	106836427	106841899	1	None	None
10	None	ENSG00000228065	ENST00000433152	lincRNA	KNOWN	None	None	None	None	67330208	67441224	1	None	None
10	None	ENSG00000228065	ENST00000601979	lincRNA	KNOWN	None	None	None	None	67330210	67375515	1	None	None
10	None	ENSG00000228065	ENST00000599409	lincRNA	KNOWN	None	None	None	None	67330260	67345559	1	None	None
10	None	ENSG00000228065	ENST00000593568	lincRNA	KNOWN	None	None	None	None	67330633	67375515	1	None	None
10	None	ENSG00000228065	ENST00000595269	lincRNA	KNOWN	None	None	None	None	67375394	67526299	1	None	None
10	None	ENSG00000228065	ENST00000598092	lincRNA	KNOWN	None	None	None	None	67375445	67432296	1	None	None
10	None	ENSG00000228065	ENST00000601389	lincRNA	KNOWN	None	None	None	None	67375491	67388661	1	None	None
10	None	ENSG00000228065	ENST00000598902	lincRNA	KNOWN	None	None	None	None	67375491	67392586	1	None	None
10	None	ENSG00000228065	ENST00000595737	lincRNA	KNOWN	None	None	None	None	67375491	67398171	1	None	None
10	None	ENSG00000228065	ENST00000601926	lincRNA	KNOWN	None	None	None	None	67375491	67420280	1	None	None
10	None	ENSG00000228065	ENST00000601888	lincRNA	KNOWN	None	None	None	None	67375491	67430594	1	None	None
10	None	ENSG00000228065	ENST00000596743	lincRNA	KNOWN	None	None	None	None	67375492	67375947	1	None	None
10	None	ENSG00000228065	ENST00000594054	lincRNA	KNOWN	None	None	None	None	67375495	67442990	1	None	None
10	None	ENSG00000228065	ENST00000600848	lincRNA	KNOWN	None	None	None	None	67375495	67458474	1	None	None
Y	TSPY19P	ENSG00000234583	ENST00000418461	unprocessed_pseudogene	KNOWN	None	37998	None	None	6171998	6173115	-1	None	None
16	None	ENSG00000268863	ENST00000602217	protein_coding	KNOWN	None	None	726	241	30996808	30997533	-1	None	None
20	RRBP1	ENSG00000125844	ENST00000468428	processed_transcript	KNOWN	None	10448	None	None	17594323	17600462	-1	None	ES/130, hES
20	RRBP1	ENSG00000125844	ENST00000470422	processed_transcript	KNOWN	None	10448	None	None	17594323	17603975	-1	None	ES/130, hES
20	RRBP1	ENSG00000125844	ENST00000377813	protein_coding	KNOWN	None	10448	4233	1410	17594323	17662878	-1	None	ES/130, hES
20	RRBP1	ENSG00000125844	ENST00000360807	protein_coding	KNOWN	CCDS13128	10448	2934	977	17594323	17662940	-1	None	ES/130, hES
20	RRBP1	ENSG00000125844	ENST00000495501	processed_transcript	KNOWN	None	10448	None	None	17608149	17639577	-1	None	ES/130, hES
20	RRBP1	ENSG00000125844	ENST00000398782	protein_coding	KNOWN	None	10448	902	299	17640251	17662940	-1	None	ES/130, hES
20	RRBP1	ENSG00000125844	ENST00000377807	protein_coding	KNOWN	CCDS13128	10448	2934	977	17594323	17662928	-1	None	ES/130, hES
20	RRBP1	ENSG00000125844	ENST00000246043	protein_coding	KNOWN	None	10448	4233	1410	17594323	17641152	-1	None	ES/130, hES
20	RRBP1	ENSG00000125844	ENST00000455029	protein_coding	KNOWN	None	10448	2256	751	17594773	17662705	-1	None	ES/130, hES
Y	None	ENSG00000235094	ENST00000445200	unprocessed_pseudogene	KNOWN	None	None	None	None	6174083	6175961	1	None	None
Y	None	ENSG00000242879	ENST00000437993	unprocessed_pseudogene	KNOWN	None	None	None	None	6175751	6177628	1	None	None
X	SLITRK2	ENSG00000185985	ENST00000335565	protein_coding	NOVEL	None	13449	2172	723	144899350	144906115	1	SLITL1	KIAA1854, CXorf2
X	SLITRK2	ENSG00000185985	ENST00000370490	protein_coding	KNOWN	CCDS14680	13449	2538	845	144899689	144907360	1	SLITL1	KIAA1854, CXorf2
X	SLITRK2	ENSG00000185985	ENST00000447897	protein_coding	KNOWN	CCDS14680	13449	2538	845	144899481	144907358	1	SLITL1	KIAA1854, CXorf2
X	SLITRK2	ENSG00000185985	ENST00000434188	protein_coding	KNOWN	CCDS14680	13449	2538	845	144902866	144907358	1	SLITL1	KIAA1854, CXorf2
X	SLITRK2	ENSG00000185985	ENST00000413937	protein_coding	KNOWN	CCDS14680	13449	2538	845	144902866	144907358	1	SLITL1	KIAA1854, CXorf2
X	SLITRK2	ENSG00000185985	ENST00000428560	protein_coding	KNOWN	CCDS14680	13449	2538	845	144902866	144907358	1	SLITL1	KIAA1854, CXorf2
Y	RBMY2GP	ENSG00000223744	ENST00000418671	unprocessed_pseudogene	KNOWN	None	23892	None	None	6196093	6211364	1	None	None
Y	LINC00280	ENSG00000229643	ENST00000439525	lincRNA	KNOWN	None	38803	None	None	6225260	6229454	-1	NCRNA00280	None
9	None	ENSG00000228216	ENST00000427745	lincRNA	KNOWN	None	None	None	None	93719542	93727675	-1	None	None
9	None	ENSG00000260454	ENST00000563268	lincRNA	KNOWN	None	None	None	None	93759336	93764153	1	None	None
Y	TTTY1B	ENSG00000129816	ENST00000250776	lincRNA	KNOWN	None	37981	None	None	6258472	6279605	1	None	None
9	None	ENSG00000230537	ENST00000423380	lincRNA	KNOWN	None	None	None	None	93867239	93869586	-1	None	None
Y	TTTY2B	ENSG00000212856	ENST00000450591	lincRNA	KNOWN	None	37982	None	None	6274285	6292186	-1	None	None
16	STX1B	ENSG00000099365	ENST00000215095	protein_coding	KNOWN	CCDS10699	18539	867	288	31000577	31021949	-1	STX1B1, STX1B2	None
16	STX1B	ENSG00000099365	ENST00000569638	protein_coding	PUTATIVE	None	18539	615	204	31000579	31012276	-1	STX1B1, STX1B2	None
16	STX1B	ENSG00000099365	ENST00000565419	protein_coding	PUTATIVE	None	18539	834	277	31004029	31021717	-1	STX1B1, STX1B2	None
16	STX1B	ENSG00000099365	ENST00000566211	retained_intron	KNOWN	None	18539	None	None	31007520	31008365	-1	STX1B1, STX1B2	None
16	STX1B	ENSG00000099365	ENST00000561836	retained_intron	KNOWN	None	18539	None	None	31012217	31021823	-1	STX1B1, STX1B2	None
9	None	ENSG00000229694	ENST00000439438	lincRNA	KNOWN	None	None	None	None	93881344	93945044	1	None	None
9	None	ENSG00000229694	ENST00000437389	lincRNA	KNOWN	None	None	None	None	93932951	93944999	1	None	None
9	None	ENSG00000229694	ENST00000414768	lincRNA	KNOWN	None	None	None	None	93932955	93944999	1	None	None
9	None	ENSG00000229694	ENST00000421595	lincRNA	KNOWN	None	None	None	None	93944339	93944999	1	None	None
Y	TTTY21B	ENSG00000237563	ENST00000421353	lincRNA	KNOWN	None	37980	None	None	6311475	6315118	1	None	None
19	B9D2	ENSG00000123810	ENST00000243578	protein_coding	KNOWN	CCDS12579	28636	528	175	41860326	41870078	-1	None	MGC4093
19	B9D2	ENSG00000123810	ENST00000594416	nonsense_mediated_decay	KNOWN	None	28636	249	82	41860592	41870070	-1	None	MGC4093
19	B9D2	ENSG00000123810	ENST00000601597	processed_transcript	KNOWN	None	28636	None	None	41866915	41869997	-1	None	MGC4093
Y	TTTY7	ENSG00000147753	ENST00000457100	lincRNA	KNOWN	None	18488	None	None	6317509	6325947	1	None	LINC00129, TTTY7A
Y	TTTY7	ENSG00000147753	ENST00000276770	lincRNA	KNOWN	None	18488	None	None	6317509	6325947	1	None	LINC00129, TTTY7A
Y	TTTY7	ENSG00000147753	ENST00000449828	lincRNA	KNOWN	None	18488	None	None	6321946	6325947	1	None	LINC00129, TTTY7A
1	SFPQ	ENSG00000116560	ENST00000471991	processed_transcript	KNOWN	None	10774	None	None	35641979	35643262	-1	None	PSF
1	SFPQ	ENSG00000116560	ENST00000468598	processed_transcript	KNOWN	None	10774	None	None	35641979	35646246	-1	None	PSF
1	SFPQ	ENSG00000116560	ENST00000460428	nonsense_mediated_decay	KNOWN	None	10774	265	87	35641979	35653643	-1	None	PSF
1	SFPQ	ENSG00000116560	ENST00000470472	nonsense_mediated_decay	KNOWN	None	10774	672	223	35641979	35656175	-1	None	PSF
1	SFPQ	ENSG00000116560	ENST00000466745	processed_transcript	KNOWN	None	10774	None	None	35641981	35644706	-1	None	PSF
1	SFPQ	ENSG00000116560	ENST00000466213	processed_transcript	KNOWN	None	10774	None	None	35641981	35644847	-1	None	PSF
1	SFPQ	ENSG00000116560	ENST00000490668	processed_transcript	KNOWN	None	10774	None	None	35641981	35646945	-1	None	PSF
1	SFPQ	ENSG00000116560	ENST00000485365	processed_transcript	KNOWN	None	10774	None	None	35641981	35647207	-1	None	PSF
1	SFPQ	ENSG00000116560	ENST00000485454	processed_transcript	KNOWN	None	10774	None	None	35642810	35643737	-1	None	PSF
1	SFPQ	ENSG00000116560	ENST00000357214	protein_coding	KNOWN	CCDS388	10774	2124	707	35648533	35658749	-1	None	PSF
19	ZNF100	ENSG00000197020	ENST00000358296	protein_coding	KNOWN	CCDS42538	12880	1629	542	21905568	21950430	-1	None	None
19	ZNF100	ENSG00000197020	ENST00000305570	protein_coding	PUTATIVE	None	12880	1437	478	21908995	21933585	-1	None	None
19	ZNF100	ENSG00000197020	ENST00000594401	protein_coding	PUTATIVE	None	12880	189	62	21910733	21933514	-1	None	None
19	ZNF100	ENSG00000197020	ENST00000598026	protein_coding	PUTATIVE	None	12880	468	155	21925880	21950351	-1	None	None
19	ZNF100	ENSG00000197020	ENST00000596452	processed_transcript	PUTATIVE	None	12880	None	None	21935995	21948578	-1	None	None
13	LRCH1	ENSG00000136141	ENST00000311191	protein_coding	KNOWN	CCDS53866	20309	2091	696	47127303	47327175	1	CHDC1	KIAA1016
13	LRCH1	ENSG00000136141	ENST00000443945	retained_intron	KNOWN	None	20309	None	None	47127305	47279755	1	CHDC1	KIAA1016
13	LRCH1	ENSG00000136141	ENST00000389798	protein_coding	KNOWN	CCDS31972	20309	2187	728	47127335	47317730	1	CHDC1	KIAA1016
13	LRCH1	ENSG00000136141	ENST00000389797	protein_coding	NOVEL	CCDS53865	20309	2292	763	47127395	47316868	1	CHDC1	KIAA1016
13	LRCH1	ENSG00000136141	ENST00000463929	protein_coding	PUTATIVE	None	20309	294	97	47253971	47266712	1	CHDC1	KIAA1016
13	LRCH1	ENSG00000136141	ENST00000478412	protein_coding	PUTATIVE	None	20309	217	71	47254169	47263296	1	CHDC1	KIAA1016
1	GPR25	ENSG00000170128	ENST00000304244	protein_coding	KNOWN	CCDS1405	4480	1086	361	200842083	200843306	1	None	None
19	None	ENSG00000255730	ENST00000540732	protein_coding	NOVEL	None	None	1440	479	41882662	41930906	1	None	None
HSCHR6_MHC_MCF	HLA-DQB1	ENSG00000231286	ENST00000472708	retained_intron	KNOWN	None	4944	None	None	32658022	32665321	-1	HLA-DQB	IDDM1, CELIAC1
HSCHR6_MHC_MCF	HLA-DQB1	ENSG00000231286	ENST00000480749	nonsense_mediated_decay	KNOWN	None	4944	411	136	32658022	32665321	-1	HLA-DQB	IDDM1, CELIAC1
HSCHR6_MHC_MCF	HLA-DQB1	ENSG00000231286	ENST00000424530	protein_coding	KNOWN	None	4944	675	224	32658022	32665331	-1	HLA-DQB	IDDM1, CELIAC1
HSCHR6_MHC_MCF	HLA-DQB1	ENSG00000231286	ENST00000433936	protein_coding	KNOWN	None	4944	405	134	32658022	32665335	-1	HLA-DQB	IDDM1, CELIAC1
HSCHR6_MHC_MCF	HLA-DQB1	ENSG00000231286	ENST00000399088	protein_coding	KNOWN	None	4944	786	261	32658022	32665377	-1	HLA-DQB	IDDM1, CELIAC1
HSCHR6_MHC_MCF	HLA-DQB1	ENSG00000231286	ENST00000399065	protein_coding	KNOWN	None	4944	810	269	32658022	32665499	-1	HLA-DQB	IDDM1, CELIAC1
HSCHR6_MHC_MCF	HLA-DQB1	ENSG00000231286	ENST00000413089	protein_coding	KNOWN	None	4944	786	261	32658022	32667070	-1	HLA-DQB	IDDM1, CELIAC1
HSCHR6_MHC_MCF	HLA-DQB1	ENSG00000231286	ENST00000476430	processed_transcript	KNOWN	None	4944	None	None	32658441	32658995	-1	HLA-DQB	IDDM1, CELIAC1
HSCHR6_MHC_MCF	HLA-DQB1	ENSG00000231286	ENST00000457445	protein_coding	KNOWN	None	4944	434	143	32660588	32665340	-1	HLA-DQB	IDDM1, CELIAC1
3	FBXL2	ENSG00000153558	ENST00000498807	processed_transcript	KNOWN	None	13598	None	None	33318517	33414787	1	None	FBL2, FBL3
3	FBXL2	ENSG00000153558	ENST00000484457	protein_coding	KNOWN	CCDS2658	13598	1272	423	33318914	33429584	1	None	FBL2, FBL3
3	FBXL2	ENSG00000153558	ENST00000497411	retained_intron	KNOWN	None	13598	None	None	33318937	33415093	1	None	FBL2, FBL3
3	FBXL2	ENSG00000153558	ENST00000435207	nonsense_mediated_decay	KNOWN	None	13598	192	63	33318937	33427113	1	None	FBL2, FBL3
3	FBXL2	ENSG00000153558	ENST00000283627	processed_transcript	KNOWN	None	13598	None	None	33318938	33427968	1	None	FBL2, FBL3
3	FBXL2	ENSG00000153558	ENST00000432809	nonsense_mediated_decay	KNOWN	None	13598	189	62	33318943	33427515	1	None	FBL2, FBL3
3	FBXL2	ENSG00000153558	ENST00000451636	nonsense_mediated_decay	KNOWN	None	13598	270	89	33318945	33427440	1	None	FBL2, FBL3
3	FBXL2	ENSG00000153558	ENST00000463736	processed_transcript	KNOWN	None	13598	None	None	33318958	33445154	1	None	FBL2, FBL3
3	FBXL2	ENSG00000153558	ENST00000425973	nonsense_mediated_decay	KNOWN	None	13598	243	80	33318964	33414811	1	None	FBL2, FBL3
3	FBXL2	ENSG00000153558	ENST00000507198	protein_coding	NOVEL	CCDS54560	13598	1068	355	33318968	33427254	1	None	FBL2, FBL3
3	FBXL2	ENSG00000153558	ENST00000422741	nonsense_mediated_decay	KNOWN	None	13598	111	36	33318968	33428125	1	None	FBL2, FBL3
3	FBXL2	ENSG00000153558	ENST00000421391	nonsense_mediated_decay	KNOWN	None	13598	390	129	33318969	33427354	1	None	FBL2, FBL3
3	FBXL2	ENSG00000153558	ENST00000483037	processed_transcript	KNOWN	None	13598	None	None	33319665	33400850	1	None	FBL2, FBL3
3	FBXL2	ENSG00000153558	ENST00000493778	processed_transcript	KNOWN	None	13598	None	None	33331142	33414803	1	None	FBL2, FBL3
3	FBXL2	ENSG00000153558	ENST00000464164	processed_transcript	KNOWN	None	13598	None	None	33331161	33414795	1	None	FBL2, FBL3
3	FBXL2	ENSG00000153558	ENST00000461094	retained_intron	KNOWN	None	13598	None	None	33405828	33415110	1	None	FBL2, FBL3
3	FBXL2	ENSG00000153558	ENST00000463698	retained_intron	KNOWN	None	13598	None	None	33413833	33415131	1	None	FBL2, FBL3
3	FBXL2	ENSG00000153558	ENST00000460186	retained_intron	KNOWN	None	13598	None	None	33414480	33416858	1	None	FBL2, FBL3
3	FBXL2	ENSG00000153558	ENST00000492662	retained_intron	KNOWN	None	13598	None	None	33414513	33416899	1	None	FBL2, FBL3
3	FBXL2	ENSG00000153558	ENST00000471208	retained_intron	KNOWN	None	13598	None	None	33414768	33415416	1	None	FBL2, FBL3
3	FBXL2	ENSG00000153558	ENST00000464990	retained_intron	KNOWN	None	13598	None	None	33424044	33428117	1	None	FBL2, FBL3
3	FBXL2	ENSG00000153558	ENST00000538892	protein_coding	KNOWN	None	13598	1068	355	33318937	33428757	1	None	FBL2, FBL3
3	FBXL2	ENSG00000153558	ENST00000538181	protein_coding	KNOWN	None	13598	1020	339	33318943	33427515	1	None	FBL2, FBL3
3	FBXL2	ENSG00000153558	ENST00000446237	protein_coding	KNOWN	None	13598	495	164	33318945	33427110	1	None	FBL2, FBL3
3	FBXL2	ENSG00000153558	ENST00000542085	protein_coding	KNOWN	None	13598	402	133	33331168	33427173	1	None	FBL2, FBL3
10	TCERG1L	ENSG00000176769	ENST00000483040	retained_intron	KNOWN	None	23533	None	None	132890654	133058599	-1	None	FLJ38950
10	TCERG1L	ENSG00000176769	ENST00000368642	protein_coding	KNOWN	CCDS7662	23533	1761	586	132890654	133109984	-1	None	FLJ38950
14	NPAS3	ENSG00000151322	ENST00000551634	protein_coding	PUTATIVE	None	19311	2718	905	33404139	34270309	1	None	MOP6, PASD6, bHLHe12
14	NPAS3	ENSG00000151322	ENST00000551492	protein_coding	PUTATIVE	None	19311	2817	938	33404139	34270315	1	None	MOP6, PASD6, bHLHe12
14	NPAS3	ENSG00000151322	ENST00000346562	protein_coding	KNOWN	CCDS9645	19311	2706	901	33408449	34273382	1	None	MOP6, PASD6, bHLHe12
14	NPAS3	ENSG00000151322	ENST00000548645	protein_coding	KNOWN	CCDS55912	19311	2712	903	33408478	34270484	1	None	MOP6, PASD6, bHLHe12
14	NPAS3	ENSG00000151322	ENST00000356141	protein_coding	KNOWN	CCDS53891	19311	2802	933	33408523	34270315	1	None	MOP6, PASD6, bHLHe12
14	NPAS3	ENSG00000151322	ENST00000357798	protein_coding	KNOWN	CCDS53892	19311	2763	920	33408523	34270315	1	None	MOP6, PASD6, bHLHe12
14	NPAS3	ENSG00000151322	ENST00000547068	protein_coding	KNOWN	None	19311	462	153	33682884	34150248	1	None	MOP6, PASD6, bHLHe12
14	NPAS3	ENSG00000151322	ENST00000549770	retained_intron	KNOWN	None	19311	None	None	33684388	34029620	1	None	MOP6, PASD6, bHLHe12
14	NPAS3	ENSG00000151322	ENST00000551008	protein_coding	NOVEL	None	19311	468	155	33684419	34150248	1	None	MOP6, PASD6, bHLHe12
14	NPAS3	ENSG00000151322	ENST00000546849	protein_coding	PUTATIVE	None	19311	378	125	33684518	34081786	1	None	MOP6, PASD6, bHLHe12
14	NPAS3	ENSG00000151322	ENST00000552696	nonsense_mediated_decay	KNOWN	None	19311	41	12	34029391	34055185	1	None	MOP6, PASD6, bHLHe12
14	NPAS3	ENSG00000151322	ENST00000550662	processed_transcript	KNOWN	None	19311	None	None	34077693	34081795	1	None	MOP6, PASD6, bHLHe12
14	NPAS3	ENSG00000151322	ENST00000552874	protein_coding	PUTATIVE	None	19311	398	131	34204447	34250077	1	None	MOP6, PASD6, bHLHe12
14	NPAS3	ENSG00000151322	ENST00000341321	protein_coding	KNOWN	None	19311	774	257	33408459	34149849	1	None	MOP6, PASD6, bHLHe12
2	TANK	ENSG00000136560	ENST00000259075	protein_coding	KNOWN	CCDS2215	11562	1278	425	161993419	162092698	1	TRAF2	I-TRAF
2	TANK	ENSG00000136560	ENST00000432002	protein_coding	NOVEL	None	11562	414	137	161993438	162081148	1	TRAF2	I-TRAF
2	TANK	ENSG00000136560	ENST00000463502	processed_transcript	PUTATIVE	None	11562	None	None	161993477	162036596	1	TRAF2	I-TRAF
2	TANK	ENSG00000136560	ENST00000392749	protein_coding	KNOWN	CCDS2215	11562	1278	425	162016808	162092683	1	TRAF2	I-TRAF
2	TANK	ENSG00000136560	ENST00000440506	protein_coding	KNOWN	None	11562	315	104	162016810	162061292	1	TRAF2	I-TRAF
2	TANK	ENSG00000136560	ENST00000461338	processed_transcript	KNOWN	None	11562	None	None	162016855	162020029	1	TRAF2	I-TRAF
2	TANK	ENSG00000136560	ENST00000429217	protein_coding	NOVEL	None	11562	570	189	162016855	162087528	1	TRAF2	I-TRAF
2	TANK	ENSG00000136560	ENST00000406287	protein_coding	PUTATIVE	None	11562	717	238	162016860	162091892	1	TRAF2	I-TRAF
2	TANK	ENSG00000136560	ENST00000402568	protein_coding	PUTATIVE	None	11562	720	239	162016860	162091892	1	TRAF2	I-TRAF
2	TANK	ENSG00000136560	ENST00000457887	nonsense_mediated_decay	KNOWN	None	11562	387	128	162016917	162081257	1	TRAF2	I-TRAF
2	TANK	ENSG00000136560	ENST00000477952	retained_intron	KNOWN	None	11562	None	None	162016938	162018162	1	TRAF2	I-TRAF
2	TANK	ENSG00000136560	ENST00000441987	nonsense_mediated_decay	KNOWN	None	11562	111	36	162016939	162061285	1	TRAF2	I-TRAF
2	TANK	ENSG00000136560	ENST00000432692	nonsense_mediated_decay	KNOWN	None	11562	378	125	162016939	162081151	1	TRAF2	I-TRAF
2	TANK	ENSG00000136560	ENST00000494976	processed_transcript	KNOWN	None	11562	None	None	162016943	162019401	1	TRAF2	I-TRAF
2	TANK	ENSG00000136560	ENST00000405852	protein_coding	NOVEL	None	11562	1227	408	162016948	162092732	1	TRAF2	I-TRAF
2	TANK	ENSG00000136560	ENST00000483622	retained_intron	KNOWN	None	11562	None	None	162016968	162018177	1	TRAF2	I-TRAF
2	TANK	ENSG00000136560	ENST00000456358	protein_coding	PUTATIVE	None	11562	496	164	162017237	162081155	1	TRAF2	I-TRAF
2	TANK	ENSG00000136560	ENST00000468831	retained_intron	KNOWN	None	11562	None	None	162035994	162087686	1	TRAF2	I-TRAF
2	TANK	ENSG00000136560	ENST00000403609	protein_coding	KNOWN	CCDS46436	11562	360	119	162036132	162061490	1	TRAF2	I-TRAF
2	TANK	ENSG00000136560	ENST00000489393	processed_transcript	PUTATIVE	None	11562	None	None	162036164	162054039	1	TRAF2	I-TRAF
2	TANK	ENSG00000136560	ENST00000470324	processed_transcript	PUTATIVE	None	11562	None	None	162079911	162081216	1	TRAF2	I-TRAF
2	TANK	ENSG00000136560	ENST00000437623	protein_coding	PUTATIVE	None	11562	828	275	162080426	162092677	1	TRAF2	I-TRAF
2	TANK	ENSG00000136560	ENST00000439442	protein_coding	NOVEL	None	11562	597	198	162087697	162092159	1	TRAF2	I-TRAF
2	TANK	ENSG00000136560	ENST00000457476	protein_coding	KNOWN	CCDS46436	11562	360	119	161993466	162061490	1	TRAF2	I-TRAF
12	CPM	ENSG00000135678	ENST00000546556	nonsense_mediated_decay	KNOWN	None	2311	108	35	69235977	69250324	-1	None	None
12	CPM	ENSG00000135678	ENST00000551897	protein_coding	PUTATIVE	None	2311	596	197	69235988	69264018	-1	None	None
12	CPM	ENSG00000135678	ENST00000551568	protein_coding	KNOWN	CCDS8987	2311	1332	443	69244955	69326979	-1	None	None
12	CPM	ENSG00000135678	ENST00000546373	protein_coding	KNOWN	CCDS8987	2311	1332	443	69249537	69357049	-1	None	None
12	CPM	ENSG00000135678	ENST00000546912	retained_intron	KNOWN	None	2311	None	None	69260605	69264162	-1	None	None
12	CPM	ENSG00000135678	ENST00000548954	protein_coding	KNOWN	None	2311	748	248	69263144	69326982	-1	None	None
12	CPM	ENSG00000135678	ENST00000551728	nonsense_mediated_decay	KNOWN	None	2311	195	64	69263155	69326982	-1	None	None
12	CPM	ENSG00000135678	ENST00000547134	nonsense_mediated_decay	KNOWN	None	2311	195	64	69264010	69326979	-1	None	None
12	CPM	ENSG00000135678	ENST00000547924	retained_intron	KNOWN	None	2311	None	None	69265474	69326951	-1	None	None
12	CPM	ENSG00000135678	ENST00000548262	protein_coding	KNOWN	None	2311	409	135	69265586	69326951	-1	None	None
12	CPM	ENSG00000135678	ENST00000549781	protein_coding	NOVEL	None	2311	218	71	69279608	69326943	-1	None	None
12	CPM	ENSG00000135678	ENST00000549691	processed_transcript	PUTATIVE	None	2311	None	None	69351370	69365350	-1	None	None
12	CPM	ENSG00000135678	ENST00000338356	protein_coding	KNOWN	CCDS8987	2311	1332	443	69244960	69326664	-1	None	None
9	None	ENSG00000227845	ENST00000416693	processed_pseudogene	KNOWN	None	None	None	None	128134604	128135045	-1	None	None
9	RN7SL30P	ENSG00000243845	ENST00000488416	misc_RNA	KNOWN	None	46046	None	None	128275183	128275486	-1	None	None
HSCHR6_MHC_COX	HLA-E	ENSG00000233904	ENST00000415649	protein_coding	KNOWN	None	4962	1077	358	30447104	30451842	1	None	None
HSCHR6_MHC_COX	HLA-E	ENSG00000233904	ENST00000480259	retained_intron	KNOWN	None	4962	None	None	30447147	30448002	1	None	None
HSCHR6_MHC_COX	HLA-E	ENSG00000233904	ENST00000463494	retained_intron	KNOWN	None	4962	None	None	30447149	30448920	1	None	None
9	None	ENSG00000227068	ENST00000437097	antisense	KNOWN	None	None	None	None	128329858	128335302	1	None	None
1	OLFML3	ENSG00000116774	ENST00000369551	protein_coding	KNOWN	None	24956	1161	386	114522063	114524876	1	None	HNOEL-iso, OLF44
1	OLFML3	ENSG00000116774	ENST00000320334	protein_coding	KNOWN	CCDS870	24956	1221	406	114522065	114524876	1	None	HNOEL-iso, OLF44
1	OLFML3	ENSG00000116774	ENST00000491700	processed_transcript	KNOWN	None	24956	None	None	114522113	114524876	1	None	HNOEL-iso, OLF44
1	OLFML3	ENSG00000116774	ENST00000393300	protein_coding	KNOWN	None	24956	1161	386	114522695	114524871	1	None	HNOEL-iso, OLF44
9	HNRNPA1P15	ENSG00000214761	ENST00000444886	processed_pseudogene	KNOWN	None	39133	None	None	128357948	128358907	1	None	None
19	EXOSC5	ENSG00000077348	ENST00000221233	protein_coding	KNOWN	CCDS12580	24662	708	235	41892279	41903384	-1	None	hRrp46p, Rrp46p, RRP46, RRP41B, MGC12901, p12B
19	EXOSC5	ENSG00000077348	ENST00000602129	protein_coding	PUTATIVE	None	24662	189	62	41892281	41903161	-1	None	hRrp46p, Rrp46p, RRP46, RRP41B, MGC12901, p12B
19	EXOSC5	ENSG00000077348	ENST00000596905	protein_coding	NOVEL	None	24662	594	197	41892320	41903247	-1	None	hRrp46p, Rrp46p, RRP46, RRP41B, MGC12901, p12B
19	EXOSC5	ENSG00000077348	ENST00000593523	retained_intron	KNOWN	None	24662	None	None	41897442	41903261	-1	None	hRrp46p, Rrp46p, RRP46, RRP41B, MGC12901, p12B
19	EXOSC5	ENSG00000077348	ENST00000593771	protein_coding	NOVEL	None	24662	401	132	41897795	41903236	-1	None	hRrp46p, Rrp46p, RRP46, RRP41B, MGC12901, p12B
9	None	ENSG00000229582	ENST00000444800	lincRNA	KNOWN	None	None	None	None	128506033	128508019	-1	None	None
9	None	ENSG00000229582	ENST00000606827	lincRNA	KNOWN	None	None	None	None	128506626	128508831	-1	None	None
11	TECTA	ENSG00000109927	ENST00000392793	protein_coding	KNOWN	CCDS8434	11720	6468	2155	120971882	121062202	1	DFNA12, DFNA8, DFNB21	None
11	TECTA	ENSG00000109927	ENST00000478058	processed_transcript	PUTATIVE	None	11720	None	None	121011621	121016987	1	DFNA12, DFNA8, DFNB21	None
11	TECTA	ENSG00000109927	ENST00000264037	protein_coding	KNOWN	CCDS8434	11720	6468	2155	120973375	121061515	1	DFNA12, DFNA8, DFNB21	None
6	ENPP4	ENSG00000001561	ENST00000321037	protein_coding	KNOWN	CCDS34468	3359	1362	453	46097730	46114436	1	None	NPP4, KIAA0879
11	CCKBR	ENSG00000110148	ENST00000334619	protein_coding	KNOWN	CCDS7761	1571	1344	447	6280966	6293357	1	None	None
11	CCKBR	ENSG00000110148	ENST00000532715	protein_coding	PUTATIVE	None	1571	1092	363	6281036	6293292	1	None	None
11	CCKBR	ENSG00000110148	ENST00000525014	protein_coding	PUTATIVE	None	1571	411	136	6281105	6291485	1	None	None
11	CCKBR	ENSG00000110148	ENST00000531712	protein_coding	NOVEL	None	1571	264	87	6281156	6291047	1	None	None
11	CCKBR	ENSG00000110148	ENST00000525462	protein_coding	KNOWN	None	1571	1551	516	6281156	6293357	1	None	None
11	CCKBR	ENSG00000110148	ENST00000532396	processed_transcript	PUTATIVE	None	1571	None	None	6292006	6292444	1	None	None
1	C1orf106	ENSG00000163362	ENST00000532631	protein_coding	KNOWN	None	25599	121	39	200860176	200868666	1	None	FLJ10901
1	C1orf106	ENSG00000163362	ENST00000451872	protein_coding	KNOWN	None	25599	370	122	200860202	200870137	1	None	FLJ10901
1	C1orf106	ENSG00000163362	ENST00000367342	protein_coding	KNOWN	None	25599	1992	663	200860469	200884863	1	None	FLJ10901
1	C1orf106	ENSG00000163362	ENST00000413687	protein_coding	KNOWN	CCDS44292	25599	1737	578	200863949	200882856	1	None	FLJ10901
1	C1orf106	ENSG00000163362	ENST00000531649	processed_transcript	KNOWN	None	25599	None	None	200872080	200877290	1	None	FLJ10901
1	C1orf106	ENSG00000163362	ENST00000526172	processed_transcript	KNOWN	None	25599	None	None	200877623	200880726	1	None	FLJ10901
1	C1orf106	ENSG00000163362	ENST00000465162	processed_transcript	KNOWN	None	25599	None	None	200881087	200884856	1	None	FLJ10901
8	ABRA	ENSG00000174429	ENST00000311955	protein_coding	KNOWN	CCDS6305	30655	1146	381	107771711	107782473	-1	None	STARS
9	None	ENSG00000232413	ENST00000441473	lincRNA	KNOWN	None	None	None	None	128819859	128921892	1	None	None
12	None	ENSG00000268076	ENST00000594112	protein_coding	NOVEL	None	None	111	36	25381515	25390840	1	None	None
9	None	ENSG00000228392	ENST00000419853	lincRNA	KNOWN	None	None	None	None	129032400	129038197	-1	None	None
21	None	ENSG00000227330	ENST00000432412	lincRNA	KNOWN	None	None	None	None	19394687	19487222	-1	None	None
HSCHR6_MHC_SSTO	CFB	ENSG00000242335	ENST00000426239	protein_coding	KNOWN	None	1037	2295	764	31905279	31911713	1	BFD, BF	H2-Bf
HSCHR6_MHC_SSTO	CFB	ENSG00000242335	ENST00000419411	protein_coding	KNOWN	None	1037	2295	764	31905623	31911713	1	BFD, BF	H2-Bf
HSCHR6_MHC_SSTO	CFB	ENSG00000242335	ENST00000475920	retained_intron	KNOWN	None	1037	None	None	31905726	31906497	1	BFD, BF	H2-Bf
HSCHR6_MHC_SSTO	CFB	ENSG00000242335	ENST00000460958	processed_transcript	PUTATIVE	None	1037	None	None	31905755	31907472	1	BFD, BF	H2-Bf
HSCHR6_MHC_SSTO	CFB	ENSG00000242335	ENST00000492504	retained_intron	KNOWN	None	1037	None	None	31905851	31910274	1	BFD, BF	H2-Bf
HSCHR6_MHC_SSTO	CFB	ENSG00000242335	ENST00000485663	retained_intron	KNOWN	None	1037	None	None	31906910	31909180	1	BFD, BF	H2-Bf
HSCHR6_MHC_SSTO	CFB	ENSG00000242335	ENST00000474638	processed_transcript	KNOWN	None	1037	None	None	31907426	31909227	1	BFD, BF	H2-Bf
HSCHR6_MHC_SSTO	CFB	ENSG00000242335	ENST00000462530	processed_transcript	KNOWN	None	1037	None	None	31907987	31909227	1	BFD, BF	H2-Bf
HSCHR6_MHC_SSTO	CFB	ENSG00000242335	ENST00000483747	retained_intron	KNOWN	None	1037	None	None	31908627	31909227	1	BFD, BF	H2-Bf
HSCHR6_MHC_SSTO	CFB	ENSG00000242335	ENST00000498766	retained_intron	KNOWN	None	1037	None	None	31909360	31910873	1	BFD, BF	H2-Bf
HSCHR6_MHC_SSTO	CFB	ENSG00000242335	ENST00000491218	retained_intron	KNOWN	None	1037	None	None	31910503	31911713	1	BFD, BF	H2-Bf
HSCHR6_MHC_SSTO	CFB	ENSG00000242335	ENST00000486534	retained_intron	KNOWN	None	1037	None	None	31911044	31911713	1	BFD, BF	H2-Bf
21	None	ENSG00000228708	ENST00000455391	processed_transcript	PUTATIVE	None	None	None	None	19849676	19858917	-1	None	None
4	SPATA18	ENSG00000163071	ENST00000295213	protein_coding	KNOWN	CCDS3489	29579	1617	538	52917497	52963458	1	None	FLJ32906
4	SPATA18	ENSG00000163071	ENST00000514670	processed_transcript	KNOWN	None	29579	None	None	52917575	52943112	1	None	FLJ32906
4	SPATA18	ENSG00000163071	ENST00000506829	processed_transcript	KNOWN	None	29579	None	None	52917578	52938322	1	None	FLJ32906
4	SPATA18	ENSG00000163071	ENST00000508915	nonsense_mediated_decay	KNOWN	None	29579	96	31	52917582	52938179	1	None	FLJ32906
4	SPATA18	ENSG00000163071	ENST00000419395	protein_coding	NOVEL	None	29579	1521	506	52917582	52962059	1	None	FLJ32906
4	SPATA18	ENSG00000163071	ENST00000511028	retained_intron	KNOWN	None	29579	None	None	52917585	52948830	1	None	FLJ32906
4	SPATA18	ENSG00000163071	ENST00000503055	nonsense_mediated_decay	KNOWN	None	29579	267	88	52917627	52928490	1	None	FLJ32906
4	SPATA18	ENSG00000163071	ENST00000505320	nonsense_mediated_decay	KNOWN	None	29579	1551	516	52917627	52961053	1	None	FLJ32906
4	SPATA18	ENSG00000163071	ENST00000505038	nonsense_mediated_decay	KNOWN	None	29579	315	104	52917708	52938198	1	None	FLJ32906
4	SPATA18	ENSG00000163071	ENST00000510549	retained_intron	KNOWN	None	29579	None	None	52944510	52946066	1	None	FLJ32906
1	SYT6	ENSG00000134207	ENST00000393296	protein_coding	KNOWN	None	18638	1533	510	114631914	114696472	-1	None	None
1	SYT6	ENSG00000134207	ENST00000369547	protein_coding	KNOWN	CCDS871	18638	1278	425	114631914	114696472	-1	None	None
12	EEA1	ENSG00000102189	ENST00000322349	protein_coding	KNOWN	CCDS31874	3185	4236	1411	93164413	93323107	-1	None	ZFYVE2
12	EEA1	ENSG00000102189	ENST00000418984	nonsense_mediated_decay	KNOWN	None	3185	123	40	93196441	93323103	-1	None	ZFYVE2
12	EEA1	ENSG00000102189	ENST00000549790	protein_coding	PUTATIVE	None	3185	128	41	93206780	93214875	-1	None	ZFYVE2
12	EEA1	ENSG00000102189	ENST00000547833	processed_transcript	KNOWN	None	3185	None	None	93251222	93323107	-1	None	ZFYVE2
12	EEA1	ENSG00000102189	ENST00000553019	nonsense_mediated_decay	KNOWN	None	3185	132	43	93258636	93323038	-1	None	ZFYVE2
13	SLITRK1	ENSG00000178235	ENST00000377084	protein_coding	KNOWN	CCDS9464	20297	2091	696	84451344	84456528	-1	LRRC12	KIAA1910
21	None	ENSG00000224141	ENST00000437492	processed_transcript	KNOWN	None	None	None	None	19933583	20132321	-1	None	None
21	None	ENSG00000224141	ENST00000355189	processed_transcript	KNOWN	None	None	None	None	19933933	20132122	-1	None	None
21	None	ENSG00000224141	ENST00000414582	processed_transcript	KNOWN	None	None	None	None	19984380	20125346	-1	None	None
Y	TTTY8B	ENSG00000185700	ENST00000455570	lincRNA	KNOWN	None	37622	None	None	6338814	6341671	-1	None	NCRNA00217
Y	TTTY8B	ENSG00000185700	ENST00000328819	lincRNA	KNOWN	None	37622	None	None	6339072	6341671	-1	None	NCRNA00217
HSCHR6_MHC_SSTO	HCG18	ENSG00000224619	ENST00000422065	processed_transcript	KNOWN	None	31337	None	None	30247704	30283281	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
HSCHR6_MHC_SSTO	HCG18	ENSG00000224619	ENST00000451842	processed_transcript	KNOWN	None	31337	None	None	30247916	30283228	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
HSCHR6_MHC_SSTO	HCG18	ENSG00000224619	ENST00000447211	processed_transcript	KNOWN	None	31337	None	None	30247916	30283241	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
HSCHR6_MHC_SSTO	HCG18	ENSG00000224619	ENST00000440939	processed_transcript	KNOWN	None	31337	None	None	30247916	30283270	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
HSCHR6_MHC_SSTO	HCG18	ENSG00000224619	ENST00000446219	processed_transcript	KNOWN	None	31337	None	None	30247916	30283280	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
HSCHR6_MHC_SSTO	HCG18	ENSG00000224619	ENST00000443463	processed_transcript	KNOWN	None	31337	None	None	30247916	30283745	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
HSCHR6_MHC_SSTO	HCG18	ENSG00000224619	ENST00000437023	processed_transcript	KNOWN	None	31337	None	None	30247916	30283791	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
HSCHR6_MHC_SSTO	HCG18	ENSG00000224619	ENST00000432895	processed_transcript	KNOWN	None	31337	None	None	30247916	30284044	-1	None	FLJ31598, FLJ25550, Em:AB014087.1
19	ZNF43	ENSG00000198521	ENST00000594012	protein_coding	PUTATIVE	CCDS59367	13109	2412	803	21987752	22034819	-1	ZNF39L1	HTF6, KOX27
19	ZNF43	ENSG00000198521	ENST00000595461	protein_coding	PUTATIVE	CCDS59367	13109	2412	803	21990083	22034830	-1	ZNF39L1	HTF6, KOX27
19	ZNF43	ENSG00000198521	ENST00000354959	protein_coding	KNOWN	CCDS12413	13109	2430	809	21990128	22019010	-1	ZNF39L1	HTF6, KOX27
19	ZNF43	ENSG00000198521	ENST00000598381	protein_coding	PUTATIVE	CCDS59367	13109	2412	803	21990155	22034770	-1	ZNF39L1	HTF6, KOX27
19	ZNF43	ENSG00000198521	ENST00000599906	protein_coding	PUTATIVE	None	13109	363	120	21992281	22018989	-1	ZNF39L1	HTF6, KOX27
19	ZNF43	ENSG00000198521	ENST00000596899	protein_coding	PUTATIVE	None	13109	161	52	21992483	22034927	-1	ZNF39L1	HTF6, KOX27
19	ZNF43	ENSG00000198521	ENST00000598288	protein_coding	PUTATIVE	None	13109	255	84	21994815	22021749	-1	ZNF39L1	HTF6, KOX27
19	ZNF43	ENSG00000198521	ENST00000593551	protein_coding	PUTATIVE	None	13109	181	59	22000720	22022888	-1	ZNF39L1	HTF6, KOX27
19	ZNF43	ENSG00000198521	ENST00000593886	retained_intron	KNOWN	None	13109	None	None	22022399	22024449	-1	ZNF39L1	HTF6, KOX27
19	ZNF43	ENSG00000198521	ENST00000599414	processed_transcript	KNOWN	None	13109	None	None	22025990	22034831	-1	ZNF39L1	HTF6, KOX27
19	ZNF43	ENSG00000198521	ENST00000594312	processed_transcript	KNOWN	None	13109	None	None	22026122	22034832	-1	ZNF39L1	HTF6, KOX27
6	MCHR2	ENSG00000152034	ENST00000369212	protein_coding	KNOWN	CCDS5044	20867	1023	340	100368628	100441853	-1	GPR145	SLT, MCH2, MCH2R
6	MCHR2	ENSG00000152034	ENST00000445970	protein_coding	KNOWN	CCDS5044	20867	1023	340	100367786	100442114	-1	GPR145	SLT, MCH2, MCH2R
6	MCHR2	ENSG00000152034	ENST00000281806	protein_coding	KNOWN	CCDS5044	20867	1023	340	100367786	100442099	-1	GPR145	SLT, MCH2, MCH2R
Y	None	ENSG00000235895	ENST00000425857	unprocessed_pseudogene	KNOWN	None	None	None	None	6361017	6364798	-1	None	None
13	SLITRK6	ENSG00000184564	ENST00000400286	protein_coding	KNOWN	CCDS41903	23503	2526	841	86366925	86373623	-1	None	FLJ22774
Y	TSPY17P	ENSG00000232620	ENST00000450329	unprocessed_pseudogene	KNOWN	None	37713	None	None	6388504	6388970	1	None	None
21	None	ENSG00000230233	ENST00000416002	lincRNA	KNOWN	None	None	None	None	19986749	20022678	1	None	None
3	WDR5B	ENSG00000196981	ENST00000330689	protein_coding	KNOWN	CCDS3012	17826	993	330	122130715	122134882	-1	None	FLJ11287
17	LRRC59	ENSG00000108829	ENST00000503118	protein_coding	PUTATIVE	None	28817	172	56	48452420	48462495	-1	None	PRO1855, FLJ21675
17	LRRC59	ENSG00000108829	ENST00000225972	protein_coding	KNOWN	CCDS11566	28817	924	307	48458599	48474914	-1	None	PRO1855, FLJ21675
17	LRRC59	ENSG00000108829	ENST00000576448	protein_coding	PUTATIVE	None	28817	189	62	48473335	48474865	-1	None	PRO1855, FLJ21675
X	TMEM257	ENSG00000221870	ENST00000408967	protein_coding	KNOWN	CCDS14681	2562	336	111	144908928	144911368	1	CXorf1	None
21	PKNOX1	ENSG00000160199	ENST00000291547	protein_coding	KNOWN	CCDS13692	9022	1311	436	44394620	44453691	1	None	PREP1
21	PKNOX1	ENSG00000160199	ENST00000418336	retained_intron	KNOWN	None	9022	None	None	44394645	44427822	1	None	PREP1
21	PKNOX1	ENSG00000160199	ENST00000480179	retained_intron	KNOWN	None	9022	None	None	44394772	44438161	1	None	PREP1
21	PKNOX1	ENSG00000160199	ENST00000456957	retained_intron	KNOWN	None	9022	None	None	44423999	44427625	1	None	PREP1
21	PKNOX1	ENSG00000160199	ENST00000560448	nonsense_mediated_decay	KNOWN	None	9022	186	61	44424432	44450441	1	None	PREP1
21	PKNOX1	ENSG00000160199	ENST00000607049	retained_intron	KNOWN	None	9022	None	None	44438241	44450272	1	None	PREP1
21	PKNOX1	ENSG00000160199	ENST00000557820	processed_transcript	KNOWN	None	9022	None	None	44440561	44450059	1	None	PREP1
21	PKNOX1	ENSG00000160199	ENST00000474336	retained_intron	KNOWN	None	9022	None	None	44441261	44448891	1	None	PREP1
21	PKNOX1	ENSG00000160199	ENST00000607150	processed_transcript	KNOWN	None	9022	None	None	44444545	44448985	1	None	PREP1
21	PKNOX1	ENSG00000160199	ENST00000558955	retained_intron	KNOWN	None	9022	None	None	44444927	44450324	1	None	PREP1
21	PKNOX1	ENSG00000160199	ENST00000432907	protein_coding	KNOWN	None	9022	960	319	44394751	44450441	1	None	PREP1
7	CLIP2	ENSG00000106665	ENST00000361545	protein_coding	KNOWN	CCDS5570	2586	3036	1011	73703805	73820260	1	WBSCR4, CYLN2, WBSCR3	CLIP-115, KIAA0291, WSCR4, CLIP, WSCR3
7	CLIP2	ENSG00000106665	ENST00000395060	protein_coding	KNOWN	CCDS5569	2586	3141	1046	73731877	73818178	1	WBSCR4, CYLN2, WBSCR3	CLIP-115, KIAA0291, WSCR4, CLIP, WSCR3
7	CLIP2	ENSG00000106665	ENST00000487091	retained_intron	KNOWN	None	2586	None	None	73790400	73795371	1	WBSCR4, CYLN2, WBSCR3	CLIP-115, KIAA0291, WSCR4, CLIP, WSCR3
7	CLIP2	ENSG00000106665	ENST00000493166	protein_coding	NOVEL	None	2586	561	186	73791025	73811495	1	WBSCR4, CYLN2, WBSCR3	CLIP-115, KIAA0291, WSCR4, CLIP, WSCR3
7	CLIP2	ENSG00000106665	ENST00000482424	retained_intron	KNOWN	None	2586	None	None	73794354	73803479	1	WBSCR4, CYLN2, WBSCR3	CLIP-115, KIAA0291, WSCR4, CLIP, WSCR3
7	CLIP2	ENSG00000106665	ENST00000491075	retained_intron	KNOWN	None	2586	None	None	73800714	73803762	1	WBSCR4, CYLN2, WBSCR3	CLIP-115, KIAA0291, WSCR4, CLIP, WSCR3
7	CLIP2	ENSG00000106665	ENST00000474962	retained_intron	KNOWN	None	2586	None	None	73803000	73811503	1	WBSCR4, CYLN2, WBSCR3	CLIP-115, KIAA0291, WSCR4, CLIP, WSCR3
7	CLIP2	ENSG00000106665	ENST00000487447	protein_coding	NOVEL	None	2586	86	27	73814812	73818656	1	WBSCR4, CYLN2, WBSCR3	CLIP-115, KIAA0291, WSCR4, CLIP, WSCR3
7	CLIP2	ENSG00000106665	ENST00000223398	protein_coding	KNOWN	CCDS5569	2586	3141	1046	73703805	73820273	1	WBSCR4, CYLN2, WBSCR3	CLIP-115, KIAA0291, WSCR4, CLIP, WSCR3
17	SEPT9	ENSG00000184640	ENST00000589070	protein_coding	PUTATIVE	None	7323	375	124	75276651	75398484	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
17	SEPT9	ENSG00000184640	ENST00000427177	protein_coding	KNOWN	CCDS45790	7323	1761	586	75277492	75496674	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
17	SEPT9	ENSG00000184640	ENST00000591833	nonsense_mediated_decay	KNOWN	None	7323	135	44	75277519	75398411	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
17	SEPT9	ENSG00000184640	ENST00000591198	protein_coding	KNOWN	None	7323	1704	567	75277533	75495111	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
17	SEPT9	ENSG00000184640	ENST00000590576	nonsense_mediated_decay	KNOWN	None	7323	72	23	75282389	75398531	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
17	SEPT9	ENSG00000184640	ENST00000431235	protein_coding	PUTATIVE	CCDS45793	7323	1269	422	75283973	75496678	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
17	SEPT9	ENSG00000184640	ENST00000587237	processed_transcript	KNOWN	None	7323	None	None	75284031	75398282	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
17	SEPT9	ENSG00000184640	ENST00000590294	protein_coding	KNOWN	CCDS45791	7323	1707	568	75315597	75496678	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
17	SEPT9	ENSG00000184640	ENST00000588575	nonsense_mediated_decay	KNOWN	None	7323	273	90	75315674	75484843	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
17	SEPT9	ENSG00000184640	ENST00000590595	protein_coding	PUTATIVE	None	7323	403	133	75315684	75398785	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
17	SEPT9	ENSG00000184640	ENST00000591934	protein_coding	PUTATIVE	None	7323	454	150	75316395	75398497	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
17	SEPT9	ENSG00000184640	ENST00000588690	protein_coding	KNOWN	CCDS45793	7323	1269	422	75318692	75496675	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
17	SEPT9	ENSG00000184640	ENST00000592098	processed_transcript	KNOWN	None	7323	None	None	75319788	75398537	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
17	SEPT9	ENSG00000184640	ENST00000423034	protein_coding	KNOWN	CCDS45792	7323	1740	579	75369272	75496676	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
17	SEPT9	ENSG00000184640	ENST00000590059	protein_coding	PUTATIVE	None	7323	478	158	75369419	75483619	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
17	SEPT9	ENSG00000184640	ENST00000587514	processed_transcript	KNOWN	None	7323	None	None	75370015	75398475	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
17	SEPT9	ENSG00000184640	ENST00000590586	processed_transcript	KNOWN	None	7323	None	None	75370259	75398531	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
17	SEPT9	ENSG00000184640	ENST00000592407	processed_transcript	PUTATIVE	None	7323	None	None	75372003	75398171	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
17	SEPT9	ENSG00000184640	ENST00000427674	protein_coding	KNOWN	CCDS45793	7323	1269	422	75372165	75496676	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
17	SEPT9	ENSG00000184640	ENST00000589140	protein_coding	PUTATIVE	None	7323	456	151	75376205	75398565	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
17	SEPT9	ENSG00000184640	ENST00000590825	protein_coding	PUTATIVE	None	7323	105	34	75396640	75398661	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
17	SEPT9	ENSG00000184640	ENST00000586812	processed_transcript	KNOWN	None	7323	None	None	75396666	75398471	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
17	SEPT9	ENSG00000184640	ENST00000592420	protein_coding	PUTATIVE	None	7323	570	189	75398183	75480210	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
17	SEPT9	ENSG00000184640	ENST00000585930	protein_coding	KNOWN	None	7323	1089	362	75401159	75495023	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
17	SEPT9	ENSG00000184640	ENST00000591020	protein_coding	PUTATIVE	None	7323	471	156	75415884	75484908	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
17	SEPT9	ENSG00000184640	ENST00000586521	protein_coding	PUTATIVE	None	7323	323	106	75423038	75484355	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
17	SEPT9	ENSG00000184640	ENST00000588958	protein_coding	NOVEL	None	7323	627	208	75446649	75486941	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
17	SEPT9	ENSG00000184640	ENST00000586128	protein_coding	PUTATIVE	None	7323	347	114	75446658	75484379	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
17	SEPT9	ENSG00000184640	ENST00000541152	protein_coding	KNOWN	CCDS45795	7323	1008	335	75446819	75496676	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
17	SEPT9	ENSG00000184640	ENST00000591704	protein_coding	PUTATIVE	None	7323	586	194	75446930	75486900	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
17	SEPT9	ENSG00000184640	ENST00000592481	processed_transcript	KNOWN	None	7323	None	None	75447326	75492449	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
17	SEPT9	ENSG00000184640	ENST00000591088	protein_coding	KNOWN	CCDS45795	7323	1008	335	75447326	75495106	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
17	SEPT9	ENSG00000184640	ENST00000590938	protein_coding	PUTATIVE	None	7323	407	134	75449907	75484844	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
17	SEPT9	ENSG00000184640	ENST00000592951	protein_coding	KNOWN	CCDS45795	7323	1008	335	75450075	75495122	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
17	SEPT9	ENSG00000184640	ENST00000586433	protein_coding	PUTATIVE	None	7323	455	150	75450109	75484892	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
17	SEPT9	ENSG00000184640	ENST00000585929	protein_coding	PUTATIVE	None	7323	496	164	75450154	75484933	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
17	SEPT9	ENSG00000184640	ENST00000590917	protein_coding	PUTATIVE	None	7323	174	57	75450162	75483575	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
17	SEPT9	ENSG00000184640	ENST00000591472	protein_coding	PUTATIVE	None	7323	382	126	75452448	75484819	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
17	SEPT9	ENSG00000184640	ENST00000593189	protein_coding	PUTATIVE	None	7323	627	208	75462485	75486941	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
17	SEPT9	ENSG00000184640	ENST00000427180	protein_coding	KNOWN	CCDS45794	7323	1425	474	75471325	75496674	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
17	SEPT9	ENSG00000184640	ENST00000589920	protein_coding	PUTATIVE	None	7323	314	103	75477992	75484346	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
17	SEPT9	ENSG00000184640	ENST00000585638	protein_coding	PUTATIVE	None	7323	433	143	75477995	75484870	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
17	SEPT9	ENSG00000184640	ENST00000589250	retained_intron	KNOWN	None	7323	None	None	75484885	75489312	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
17	SEPT9	ENSG00000184640	ENST00000586456	retained_intron	KNOWN	None	7323	None	None	75486890	75493696	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
17	SEPT9	ENSG00000184640	ENST00000589246	retained_intron	KNOWN	None	7323	None	None	75493157	75494906	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
17	SEPT9	ENSG00000184640	ENST00000329047	protein_coding	KNOWN	CCDS45791	7323	1707	568	75315597	75496674	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
17	SEPT9	ENSG00000184640	ENST00000449803	protein_coding	KNOWN	CCDS45793	7323	1269	422	75283973	75496674	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
3	KCNH8	ENSG00000183960	ENST00000328405	protein_coding	KNOWN	CCDS2632	18864	3324	1107	19189946	19577138	1	None	Kv12.1, elk3
3	KCNH8	ENSG00000183960	ENST00000452398	nonsense_mediated_decay	KNOWN	None	18864	588	195	19190026	19576231	1	None	Kv12.1, elk3
3	KCNH8	ENSG00000183960	ENST00000475063	processed_transcript	KNOWN	None	18864	None	None	19389213	19436769	1	None	Kv12.1, elk3
3	KCNH8	ENSG00000183960	ENST00000537696	protein_coding	KNOWN	None	18864	558	185	19432017	19492879	1	None	Kv12.1, elk3
HSCHR6_MHC_DBB	PPP1R11	ENSG00000227720	ENST00000433942	protein_coding	KNOWN	None	9285	225	74	30024813	30028437	1	TCTE5	HCGV, Tctex5, HCG-V
HSCHR6_MHC_DBB	PPP1R11	ENSG00000227720	ENST00000452679	protein_coding	KNOWN	None	9285	381	126	30025192	30028437	1	TCTE5	HCGV, Tctex5, HCG-V
HSCHR6_MHC_DBB	PPP1R11	ENSG00000227720	ENST00000417223	protein_coding	KNOWN	None	9285	225	74	30025309	30028437	1	TCTE5	HCGV, Tctex5, HCG-V
HSCHR6_MHC_DBB	PPP1R11	ENSG00000227720	ENST00000436833	protein_coding	KNOWN	None	9285	225	74	30025647	30028437	1	TCTE5	HCGV, Tctex5, HCG-V
HSCHR6_MHC_DBB	PPP1R11	ENSG00000227720	ENST00000428563	protein_coding	KNOWN	None	9285	225	74	30025680	30028437	1	TCTE5	HCGV, Tctex5, HCG-V
HSCHR6_MHC_DBB	PPP1R11	ENSG00000227720	ENST00000449435	protein_coding	KNOWN	None	9285	225	74	30026310	30028437	1	TCTE5	HCGV, Tctex5, HCG-V
X	ITIH6	ENSG00000102313	ENST00000218436	protein_coding	KNOWN	CCDS14361	28907	3942	1313	54775332	54824673	-1	ITIH5L	UNQ6369
X	ITIH6	ENSG00000102313	ENST00000498398	processed_transcript	PUTATIVE	None	28907	None	None	54813630	54815041	-1	ITIH5L	UNQ6369
13	SLITRK5	ENSG00000165300	ENST00000325089	protein_coding	KNOWN	CCDS9465	20295	2877	958	88324870	88331871	1	LRRC11	bA364G4.2, KIAA0918
13	SLITRK5	ENSG00000165300	ENST00000400028	protein_coding	KNOWN	None	20295	2154	717	88325498	88330562	1	LRRC11	bA364G4.2, KIAA0918
22	HORMAD2	ENSG00000176635	ENST00000336726	protein_coding	KNOWN	CCDS46683	28383	924	307	30476163	30573064	1	None	MGC26710
22	HORMAD2	ENSG00000176635	ENST00000450612	nonsense_mediated_decay	KNOWN	None	28383	276	91	30476461	30518022	1	None	MGC26710
22	HORMAD2	ENSG00000176635	ENST00000403975	protein_coding	KNOWN	CCDS46683	28383	924	307	30477000	30573062	1	None	MGC26710
22	HORMAD2	ENSG00000176635	ENST00000491605	retained_intron	KNOWN	None	28383	None	None	30489947	30500566	1	None	MGC26710
12	IFLTD1	ENSG00000152936	ENST00000543629	protein_coding	KNOWN	None	26683	490	162	25562241	25679090	-1	None	FLJ36004, Pas1c1
12	IFLTD1	ENSG00000152936	ENST00000282881	protein_coding	KNOWN	CCDS8704	26683	1167	388	25629016	25706178	-1	None	FLJ36004, Pas1c1
12	IFLTD1	ENSG00000152936	ENST00000539744	protein_coding	KNOWN	CCDS58218	26683	876	291	25629044	25706186	-1	None	FLJ36004, Pas1c1
12	IFLTD1	ENSG00000152936	ENST00000458174	protein_coding	KNOWN	CCDS44849	26683	1230	409	25629215	25706217	-1	None	FLJ36004, Pas1c1
12	IFLTD1	ENSG00000152936	ENST00000445693	protein_coding	PUTATIVE	CCDS44847	26683	978	325	25650447	25801488	-1	None	FLJ36004, Pas1c1
12	IFLTD1	ENSG00000152936	ENST00000413632	protein_coding	KNOWN	CCDS44848	26683	1110	369	25652786	25706215	-1	None	FLJ36004, Pas1c1
12	IFLTD1	ENSG00000152936	ENST00000539523	protein_coding	KNOWN	None	26683	318	105	25655859	25672895	-1	None	FLJ36004, Pas1c1
12	IFLTD1	ENSG00000152936	ENST00000545543	protein_coding	PUTATIVE	None	26683	431	142	25672804	25801496	-1	None	FLJ36004, Pas1c1
12	IFLTD1	ENSG00000152936	ENST00000538178	protein_coding	PUTATIVE	None	26683	511	169	25679732	25783684	-1	None	FLJ36004, Pas1c1
12	IFLTD1	ENSG00000152936	ENST00000540106	protein_coding	PUTATIVE	None	26683	497	164	25679746	25801478	-1	None	FLJ36004, Pas1c1
12	IFLTD1	ENSG00000152936	ENST00000542224	protein_coding	PUTATIVE	None	26683	217	71	25699444	25801513	-1	None	FLJ36004, Pas1c1
13	TUBA3C	ENSG00000198033	ENST00000400113	protein_coding	KNOWN	CCDS9284	12408	1353	450	19747910	19755992	-1	TUBA2	bA408E5.3
12	KRT6A	ENSG00000205420	ENST00000330722	protein_coding	KNOWN	CCDS41786	6443	1695	564	52880958	52887041	-1	KRT6C, KRT6D	CK6C, K6C, CK6D, K6D
12	KRT6A	ENSG00000205420	ENST00000548735	retained_intron	KNOWN	None	6443	None	None	52883680	52884406	-1	KRT6C, KRT6D	CK6C, K6C, CK6D, K6D
12	KRT6A	ENSG00000205420	ENST00000549898	retained_intron	KNOWN	None	6443	None	None	52883761	52886493	-1	KRT6C, KRT6D	CK6C, K6C, CK6D, K6D
12	KRT6A	ENSG00000205420	ENST00000549600	retained_intron	KNOWN	None	6443	None	None	52883819	52884941	-1	KRT6C, KRT6D	CK6C, K6C, CK6D, K6D
12	KRT6A	ENSG00000205420	ENST00000549754	retained_intron	KNOWN	None	6443	None	None	52884064	52885409	-1	KRT6C, KRT6D	CK6C, K6C, CK6D, K6D
21	MIR548X	ENSG00000265841	ENST00000580069	miRNA	KNOWN	None	38248	None	None	20058408	20058482	-1	None	hsa-mir-548x
2	PSMD14	ENSG00000115233	ENST00000409682	protein_coding	KNOWN	CCDS46437	16889	933	310	162164549	162268228	1	None	POH1, pad1, Rpn11
2	PSMD14	ENSG00000115233	ENST00000478123	retained_intron	KNOWN	None	16889	None	None	162164972	162175533	1	None	POH1, pad1, Rpn11
2	PSMD14	ENSG00000115233	ENST00000437630	protein_coding	KNOWN	None	16889	253	83	162165111	162226630	1	None	POH1, pad1, Rpn11
2	PSMD14	ENSG00000115233	ENST00000477232	retained_intron	KNOWN	None	16889	None	None	162237871	162268226	1	None	POH1, pad1, Rpn11
2	PSMD14	ENSG00000115233	ENST00000492908	retained_intron	KNOWN	None	16889	None	None	162264039	162268226	1	None	POH1, pad1, Rpn11
22	TRMU	ENSG00000100416	ENST00000476901	processed_transcript	KNOWN	None	25481	None	None	46726772	46729596	1	TRMT	FLJ10140, MTO2
22	TRMU	ENSG00000100416	ENST00000486620	processed_transcript	KNOWN	None	25481	None	None	46727344	46748227	1	TRMT	FLJ10140, MTO2
22	TRMU	ENSG00000100416	ENST00000441818	nonsense_mediated_decay	KNOWN	None	25481	300	99	46731298	46753232	1	TRMT	FLJ10140, MTO2
22	TRMU	ENSG00000100416	ENST00000456595	nonsense_mediated_decay	KNOWN	None	25481	300	99	46731322	46753234	1	TRMT	FLJ10140, MTO2
22	TRMU	ENSG00000100416	ENST00000381021	nonsense_mediated_decay	KNOWN	None	25481	300	99	46731322	46753234	1	TRMT	FLJ10140, MTO2
22	TRMU	ENSG00000100416	ENST00000453630	nonsense_mediated_decay	KNOWN	None	25481	300	99	46731322	46753234	1	TRMT	FLJ10140, MTO2
22	TRMU	ENSG00000100416	ENST00000457572	nonsense_mediated_decay	KNOWN	None	25481	501	166	46731322	46753234	1	TRMT	FLJ10140, MTO2
22	TRMU	ENSG00000100416	ENST00000290846	protein_coding	KNOWN	CCDS14075	25481	1266	421	46731322	46753237	1	TRMT	FLJ10140, MTO2
22	TRMU	ENSG00000100416	ENST00000381019	protein_coding	NOVEL	None	25481	1131	376	46731642	46753081	1	TRMT	FLJ10140, MTO2
22	TRMU	ENSG00000100416	ENST00000465378	processed_transcript	KNOWN	None	25481	None	None	46731790	46742441	1	TRMT	FLJ10140, MTO2
22	TRMU	ENSG00000100416	ENST00000496831	processed_transcript	KNOWN	None	25481	None	None	46731792	46746317	1	TRMT	FLJ10140, MTO2
22	TRMU	ENSG00000100416	ENST00000485175	processed_transcript	KNOWN	None	25481	None	None	46731855	46748226	1	TRMT	FLJ10140, MTO2
22	TRMU	ENSG00000100416	ENST00000493556	processed_transcript	KNOWN	None	25481	None	None	46732287	46733830	1	TRMT	FLJ10140, MTO2
22	TRMU	ENSG00000100416	ENST00000463785	processed_transcript	KNOWN	None	25481	None	None	46746242	46748738	1	TRMT	FLJ10140, MTO2
22	TRMU	ENSG00000100416	ENST00000479648	retained_intron	KNOWN	None	25481	None	None	46747547	46748209	1	TRMT	FLJ10140, MTO2
22	TRMU	ENSG00000100416	ENST00000491612	retained_intron	KNOWN	None	25481	None	None	46748726	46753234	1	TRMT	FLJ10140, MTO2
22	TRMU	ENSG00000100416	ENST00000485559	retained_intron	KNOWN	None	25481	None	None	46749414	46753236	1	TRMT	FLJ10140, MTO2
22	TRMU	ENSG00000100416	ENST00000470831	retained_intron	KNOWN	None	25481	None	None	46750607	46753235	1	TRMT	FLJ10140, MTO2
22	TRMU	ENSG00000100416	ENST00000424260	protein_coding	KNOWN	None	25481	396	131	46731819	46748808	1	TRMT	FLJ10140, MTO2
16	SLC12A4	ENSG00000124067	ENST00000316341	protein_coding	KNOWN	CCDS10855	10913	3258	1085	67978231	68002597	-1	None	KCC1
16	SLC12A4	ENSG00000124067	ENST00000572037	protein_coding	KNOWN	None	10913	3114	1037	67978317	68002487	-1	None	KCC1
16	SLC12A4	ENSG00000124067	ENST00000541864	protein_coding	KNOWN	CCDS54031	10913	3165	1054	67978385	68000781	-1	None	KCC1
16	SLC12A4	ENSG00000124067	ENST00000576616	protein_coding	NOVEL	None	10913	3207	1068	67978388	68002456	-1	None	KCC1
16	SLC12A4	ENSG00000124067	ENST00000570802	retained_intron	KNOWN	None	10913	None	None	67978388	68002456	-1	None	KCC1
16	SLC12A4	ENSG00000124067	ENST00000537830	protein_coding	KNOWN	CCDS54030	10913	3240	1079	67978496	67997968	-1	None	KCC1
16	SLC12A4	ENSG00000124067	ENST00000570616	nonsense_mediated_decay	KNOWN	None	10913	59	18	67978641	67979308	-1	None	KCC1
16	SLC12A4	ENSG00000124067	ENST00000575857	nonsense_mediated_decay	KNOWN	None	10913	274	90	67979448	67981236	-1	None	KCC1
16	SLC12A4	ENSG00000124067	ENST00000573023	retained_intron	KNOWN	None	10913	None	None	67981004	68002557	-1	None	KCC1
16	SLC12A4	ENSG00000124067	ENST00000576513	retained_intron	KNOWN	None	10913	None	None	67981964	67984015	-1	None	KCC1
16	SLC12A4	ENSG00000124067	ENST00000572476	retained_intron	KNOWN	None	10913	None	None	67983474	67984324	-1	None	KCC1
16	SLC12A4	ENSG00000124067	ENST00000574665	retained_intron	KNOWN	None	10913	None	None	67983702	67985437	-1	None	KCC1
16	SLC12A4	ENSG00000124067	ENST00000572766	retained_intron	KNOWN	None	10913	None	None	67983810	67985370	-1	None	KCC1
16	SLC12A4	ENSG00000124067	ENST00000573702	retained_intron	KNOWN	None	10913	None	None	67984272	67985832	-1	None	KCC1
16	SLC12A4	ENSG00000124067	ENST00000576377	nonsense_mediated_decay	KNOWN	None	10913	165	54	67984896	68002519	-1	None	KCC1
16	SLC12A4	ENSG00000124067	ENST00000571299	protein_coding	PUTATIVE	None	10913	534	177	67986119	68003504	-1	None	KCC1
16	SLC12A4	ENSG00000124067	ENST00000572010	processed_transcript	KNOWN	None	10913	None	None	67986145	68003095	-1	None	KCC1
16	SLC12A4	ENSG00000124067	ENST00000576462	retained_intron	KNOWN	None	10913	None	None	67991432	68002372	-1	None	KCC1
16	SLC12A4	ENSG00000124067	ENST00000422611	protein_coding	KNOWN	CCDS54032	10913	3264	1087	67977377	68002597	-1	None	KCC1
16	SLC12A4	ENSG00000124067	ENST00000338335	protein_coding	KNOWN	None	10913	2343	780	67978230	68002525	-1	None	KCC1
22	LIF	ENSG00000128342	ENST00000249075	protein_coding	KNOWN	CCDS13872	6596	609	202	30636436	30642840	-1	None	CDF, DIA, HILDA
22	LIF	ENSG00000128342	ENST00000403987	protein_coding	PUTATIVE	CCDS58799	6596	267	88	30639522	30642728	-1	None	CDF, DIA, HILDA
22	MMP11	ENSG00000099953	ENST00000465385	retained_intron	KNOWN	None	7157	None	None	24110413	24126503	1	STMY3	None
22	MMP11	ENSG00000099953	ENST00000477567	processed_transcript	KNOWN	None	7157	None	None	24110830	24123194	1	STMY3	None
22	MMP11	ENSG00000099953	ENST00000489582	processed_transcript	KNOWN	None	7157	None	None	24110847	24122853	1	STMY3	None
22	MMP11	ENSG00000099953	ENST00000215743	protein_coding	KNOWN	CCDS13816	7157	1467	488	24115006	24126503	1	STMY3	None
22	MMP11	ENSG00000099953	ENST00000465730	retained_intron	KNOWN	None	7157	None	None	24115033	24121884	1	STMY3	None
22	MMP11	ENSG00000099953	ENST00000428253	nonsense_mediated_decay	KNOWN	None	7157	342	113	24115033	24122671	1	STMY3	None
22	MMP11	ENSG00000099953	ENST00000437086	nonsense_mediated_decay	KNOWN	None	7157	1065	354	24115036	24126503	1	STMY3	None
22	MMP11	ENSG00000099953	ENST00000460352	processed_transcript	KNOWN	None	7157	None	None	24119828	24123287	1	STMY3	None
22	MMP11	ENSG00000099953	ENST00000434318	nonsense_mediated_decay	KNOWN	None	7157	512	169	24123067	24125628	1	STMY3	None
22	MMP11	ENSG00000099953	ENST00000493132	retained_intron	KNOWN	None	7157	None	None	24123128	24124502	1	STMY3	None
22	MMP11	ENSG00000099953	ENST00000492464	retained_intron	KNOWN	None	7157	None	None	24123144	24123938	1	STMY3	None
22	MMP11	ENSG00000099953	ENST00000488363	processed_transcript	KNOWN	None	7157	None	None	24123451	24124815	1	STMY3	None
22	MMP11	ENSG00000099953	ENST00000480185	processed_transcript	KNOWN	None	7157	None	None	24124001	24124670	1	STMY3	None
7	TRA2A	ENSG00000164548	ENST00000297071	protein_coding	KNOWN	CCDS5383	16645	849	282	23544399	23571660	-1	None	htra-2-alpha, tra2a, AWMS1
7	TRA2A	ENSG00000164548	ENST00000497730	processed_transcript	PUTATIVE	None	16645	None	None	23544868	23545825	-1	None	htra-2-alpha, tra2a, AWMS1
7	TRA2A	ENSG00000164548	ENST00000475970	retained_intron	KNOWN	None	16645	None	None	23544935	23545504	-1	None	htra-2-alpha, tra2a, AWMS1
7	TRA2A	ENSG00000164548	ENST00000482395	retained_intron	KNOWN	None	16645	None	None	23544939	23546099	-1	None	htra-2-alpha, tra2a, AWMS1
7	TRA2A	ENSG00000164548	ENST00000486934	retained_intron	KNOWN	None	16645	None	None	23545087	23545827	-1	None	htra-2-alpha, tra2a, AWMS1
7	TRA2A	ENSG00000164548	ENST00000494255	retained_intron	KNOWN	None	16645	None	None	23546776	23571600	-1	None	htra-2-alpha, tra2a, AWMS1
7	TRA2A	ENSG00000164548	ENST00000474586	processed_transcript	KNOWN	None	16645	None	None	23547040	23571299	-1	None	htra-2-alpha, tra2a, AWMS1
7	TRA2A	ENSG00000164548	ENST00000490942	processed_transcript	KNOWN	None	16645	None	None	23552644	23571599	-1	None	htra-2-alpha, tra2a, AWMS1
7	TRA2A	ENSG00000164548	ENST00000448549	nonsense_mediated_decay	KNOWN	None	16645	192	63	23556014	23571642	-1	None	htra-2-alpha, tra2a, AWMS1
7	TRA2A	ENSG00000164548	ENST00000392502	protein_coding	KNOWN	None	16645	543	180	23544769	23571621	-1	None	htra-2-alpha, tra2a, AWMS1
7	TRA2A	ENSG00000164548	ENST00000538367	protein_coding	KNOWN	None	16645	546	181	23545078	23571595	-1	None	htra-2-alpha, tra2a, AWMS1
10	AKR1C3	ENSG00000196139	ENST00000605781	processed_transcript	KNOWN	None	386	None	None	5077546	5144402	1	HSD17B5	KIAA0119, DDX, HAKRB, PGFS
10	AKR1C3	ENSG00000196139	ENST00000470862	processed_transcript	KNOWN	None	386	None	None	5077549	5139725	1	HSD17B5	KIAA0119, DDX, HAKRB, PGFS
10	AKR1C3	ENSG00000196139	ENST00000480822	processed_transcript	KNOWN	None	386	None	None	5077550	5139729	1	HSD17B5	KIAA0119, DDX, HAKRB, PGFS
10	AKR1C3	ENSG00000196139	ENST00000602997	protein_coding	PUTATIVE	None	386	466	154	5090981	5141606	1	HSD17B5	KIAA0119, DDX, HAKRB, PGFS
10	AKR1C3	ENSG00000196139	ENST00000605149	protein_coding	PUTATIVE	None	386	903	300	5119830	5149872	1	HSD17B5	KIAA0119, DDX, HAKRB, PGFS
10	AKR1C3	ENSG00000196139	ENST00000380554	protein_coding	KNOWN	CCDS7063	386	972	323	5135985	5149878	1	HSD17B5	KIAA0119, DDX, HAKRB, PGFS
10	AKR1C3	ENSG00000196139	ENST00000480697	retained_intron	KNOWN	None	386	None	None	5136606	5140368	1	HSD17B5	KIAA0119, DDX, HAKRB, PGFS
10	AKR1C3	ENSG00000196139	ENST00000605322	retained_intron	KNOWN	None	386	None	None	5136610	5142085	1	HSD17B5	KIAA0119, DDX, HAKRB, PGFS
10	AKR1C3	ENSG00000196139	ENST00000603312	retained_intron	KNOWN	None	386	None	None	5138337	5139720	1	HSD17B5	KIAA0119, DDX, HAKRB, PGFS
10	AKR1C3	ENSG00000196139	ENST00000603484	retained_intron	KNOWN	None	386	None	None	5147467	5149878	1	HSD17B5	KIAA0119, DDX, HAKRB, PGFS
10	AKR1C3	ENSG00000196139	ENST00000439082	protein_coding	KNOWN	None	386	615	204	5119973	5149872	1	HSD17B5	KIAA0119, DDX, HAKRB, PGFS
22	None	ENSG00000268812	ENST00000593843	protein_coding	KNOWN	None	None	723	240	30641984	30642907	1	None	None
9	NRON	ENSG00000253079	ENST00000517270	misc_RNA	KNOWN	None	37079	None	None	129170320	129170689	-1	None	NCRNA00194
HSCHR6_MHC_DBB	None	ENSG00000257148	ENST00000550000	protein_coding	NOVEL	None	None	39	12	31112259	31112376	1	None	None
1	TRIM33	ENSG00000197323	ENST00000358465	protein_coding	KNOWN	CCDS872	16290	3384	1127	114935399	115053781	-1	None	TIF1GAMMA, FLJ11429, KIAA1113, TIFGAMMA, RFG7, TF1G, TIF1G, PTC7
1	TRIM33	ENSG00000197323	ENST00000492227	processed_transcript	KNOWN	None	16290	None	None	114938880	114940460	-1	None	TIF1GAMMA, FLJ11429, KIAA1113, TIFGAMMA, RFG7, TF1G, TIF1G, PTC7
1	TRIM33	ENSG00000197323	ENST00000478032	processed_transcript	KNOWN	None	16290	None	None	114940230	114942231	-1	None	TIF1GAMMA, FLJ11429, KIAA1113, TIFGAMMA, RFG7, TF1G, TIF1G, PTC7
1	TRIM33	ENSG00000197323	ENST00000448034	protein_coding	KNOWN	None	16290	2666	887	114940230	115005858	-1	None	TIF1GAMMA, FLJ11429, KIAA1113, TIFGAMMA, RFG7, TF1G, TIF1G, PTC7
1	TRIM33	ENSG00000197323	ENST00000369543	protein_coding	KNOWN	CCDS873	16290	3333	1110	114940230	115053781	-1	None	TIF1GAMMA, FLJ11429, KIAA1113, TIFGAMMA, RFG7, TF1G, TIF1G, PTC7
1	TRIM33	ENSG00000197323	ENST00000476908	processed_transcript	KNOWN	None	16290	None	None	114946948	114949589	-1	None	TIF1GAMMA, FLJ11429, KIAA1113, TIFGAMMA, RFG7, TF1G, TIF1G, PTC7
1	TRIM33	ENSG00000197323	ENST00000450349	protein_coding	KNOWN	None	16290	2280	759	114940243	115006048	-1	None	TIF1GAMMA, FLJ11429, KIAA1113, TIFGAMMA, RFG7, TF1G, TIF1G, PTC7
22	OSM	ENSG00000099985	ENST00000215781	protein_coding	KNOWN	CCDS13873	8506	759	252	30658818	30662829	-1	None	MGC20461
22	OSM	ENSG00000099985	ENST00000403389	protein_coding	PUTATIVE	None	8506	696	231	30659857	30661807	-1	None	MGC20461
22	OSM	ENSG00000099985	ENST00000403463	protein_coding	PUTATIVE	None	8506	63	20	30660064	30662828	-1	None	MGC20461
4	SPON2	ENSG00000159674	ENST00000290902	protein_coding	KNOWN	CCDS3347	11253	996	331	1160720	1166661	-1	None	DIL1
4	SPON2	ENSG00000159674	ENST00000509697	retained_intron	KNOWN	None	11253	None	None	1163551	1164858	-1	None	DIL1
4	SPON2	ENSG00000159674	ENST00000507466	retained_intron	KNOWN	None	11253	None	None	1164817	1165413	-1	None	DIL1
4	SPON2	ENSG00000159674	ENST00000503765	protein_coding	KNOWN	None	11253	326	107	1165169	1166999	-1	None	DIL1
4	SPON2	ENSG00000159674	ENST00000504909	retained_intron	KNOWN	None	11253	None	None	1165171	1166086	-1	None	DIL1
4	SPON2	ENSG00000159674	ENST00000512888	retained_intron	KNOWN	None	11253	None	None	1165314	1166633	-1	None	DIL1
4	SPON2	ENSG00000159674	ENST00000512150	retained_intron	KNOWN	None	11253	None	None	1165542	1166915	-1	None	DIL1
4	SPON2	ENSG00000159674	ENST00000515004	protein_coding	KNOWN	None	11253	193	63	1165667	1188922	-1	None	DIL1
4	SPON2	ENSG00000159674	ENST00000502483	protein_coding	KNOWN	None	11253	183	60	1165677	1188927	-1	None	DIL1
4	SPON2	ENSG00000159674	ENST00000514490	protein_coding	KNOWN	None	11253	72	23	1165788	1166958	-1	None	DIL1
4	SPON2	ENSG00000159674	ENST00000509233	protein_coding	KNOWN	None	11253	50	15	1165810	1201933	-1	None	DIL1
4	SPON2	ENSG00000159674	ENST00000511679	protein_coding	KNOWN	None	11253	47	14	1165813	1202634	-1	None	DIL1
4	SPON2	ENSG00000159674	ENST00000511672	protein_coding	KNOWN	None	11253	23	6	1165837	1198876	-1	None	DIL1
4	SPON2	ENSG00000159674	ENST00000506266	processed_transcript	KNOWN	None	11253	None	None	1166363	1202626	-1	None	DIL1
4	SPON2	ENSG00000159674	ENST00000504871	processed_transcript	PUTATIVE	None	11253	None	None	1166375	1202155	-1	None	DIL1
4	SPON2	ENSG00000159674	ENST00000502657	processed_transcript	PUTATIVE	None	11253	None	None	1190615	1202616	-1	None	DIL1
4	SPON2	ENSG00000159674	ENST00000400762	processed_transcript	KNOWN	None	11253	None	None	1192816	1202750	-1	None	DIL1
4	SPON2	ENSG00000159674	ENST00000505653	processed_transcript	PUTATIVE	None	11253	None	None	1193401	1195145	-1	None	DIL1
4	SPON2	ENSG00000159674	ENST00000515553	processed_transcript	PUTATIVE	None	11253	None	None	1193715	1198882	-1	None	DIL1
4	SPON2	ENSG00000159674	ENST00000510542	processed_transcript	PUTATIVE	None	11253	None	None	1198770	1202165	-1	None	DIL1
4	SPON2	ENSG00000159674	ENST00000431380	protein_coding	KNOWN	CCDS3347	11253	996	331	1160725	1166980	-1	None	DIL1
HSCHR6_MHC_DBB	TCF19	ENSG00000233890	ENST00000430947	protein_coding	KNOWN	None	11629	1038	345	31120050	31125719	1	None	SC1
HSCHR6_MHC_DBB	TCF19	ENSG00000233890	ENST00000446042	protein_coding	KNOWN	None	11629	1038	345	31120055	31125719	1	None	SC1
HSCHR6_MHC_DBB	TCF19	ENSG00000233890	ENST00000474491	processed_transcript	PUTATIVE	None	11629	None	None	31122987	31124510	1	None	SC1
6	KIF25	ENSG00000125337	ENST00000515361	processed_transcript	KNOWN	None	6390	None	None	168396921	168430204	1	KNSL3	None
6	KIF25	ENSG00000125337	ENST00000443060	protein_coding	KNOWN	CCDS5305	6390	1155	384	168399772	168445743	1	KNSL3	None
6	KIF25	ENSG00000125337	ENST00000354419	protein_coding	KNOWN	CCDS5305	6390	1155	384	168418553	168445769	1	KNSL3	None
6	KIF25	ENSG00000125337	ENST00000351261	protein_coding	KNOWN	CCDS43530	6390	999	332	168418581	168445769	1	KNSL3	None
6	KIF25	ENSG00000125337	ENST00000504593	retained_intron	KNOWN	None	6390	None	None	168431215	168436453	1	KNSL3	None
6	KIF25	ENSG00000125337	ENST00000496008	protein_coding	PUTATIVE	None	6390	44	13	168434678	168436827	1	KNSL3	None
6	ENPP5	ENSG00000112796	ENST00000371383	protein_coding	KNOWN	CCDS4915	13717	1434	477	46126924	46138708	-1	None	None
6	ENPP5	ENSG00000112796	ENST00000230565	protein_coding	KNOWN	CCDS4915	13717	1434	477	46128152	46138708	-1	None	None
6	ENPP5	ENSG00000112796	ENST00000492313	processed_transcript	KNOWN	None	13717	None	None	46132694	46135288	-1	None	None
13	None	ENSG00000268130	ENST00000593656	protein_coding	NOVEL	None	None	60	19	113755563	113756608	-1	None	None
3	KPNA1	ENSG00000114030	ENST00000344337	protein_coding	KNOWN	CCDS3013	6394	1617	538	122140796	122233775	-1	None	SRP1, RCH2, NPI-1, IPOA5
3	KPNA1	ENSG00000114030	ENST00000470904	processed_transcript	KNOWN	None	6394	None	None	122144527	122178732	-1	None	SRP1, RCH2, NPI-1, IPOA5
3	KPNA1	ENSG00000114030	ENST00000466923	processed_transcript	KNOWN	None	6394	None	None	122144951	122179504	-1	None	SRP1, RCH2, NPI-1, IPOA5
3	KPNA1	ENSG00000114030	ENST00000485027	nonsense_mediated_decay	KNOWN	None	6394	549	182	122145801	122215484	-1	None	SRP1, RCH2, NPI-1, IPOA5
3	KPNA1	ENSG00000114030	ENST00000494339	nonsense_mediated_decay	KNOWN	None	6394	549	182	122145832	122233781	-1	None	SRP1, RCH2, NPI-1, IPOA5
3	KPNA1	ENSG00000114030	ENST00000465882	protein_coding	KNOWN	None	6394	986	327	122160895	122233792	-1	None	SRP1, RCH2, NPI-1, IPOA5
3	KPNA1	ENSG00000114030	ENST00000464940	processed_transcript	KNOWN	None	6394	None	None	122170432	122183106	-1	None	SRP1, RCH2, NPI-1, IPOA5
3	KPNA1	ENSG00000114030	ENST00000482287	protein_coding	KNOWN	None	6394	644	213	122170832	122233389	-1	None	SRP1, RCH2, NPI-1, IPOA5
3	KPNA1	ENSG00000114030	ENST00000476916	protein_coding	PUTATIVE	None	6394	507	168	122170837	122233784	-1	None	SRP1, RCH2, NPI-1, IPOA5
3	KPNA1	ENSG00000114030	ENST00000493510	protein_coding	KNOWN	None	6394	524	173	122172757	122233753	-1	None	SRP1, RCH2, NPI-1, IPOA5
21	None	ENSG00000221041	ENST00000408114	miRNA	NOVEL	None	None	None	None	20076689	20076772	-1	None	None
22	USP18	ENSG00000184979	ENST00000215794	protein_coding	KNOWN	CCDS13752	12616	1119	372	18632666	18660164	1	None	None
21	PPIAP22	ENSG00000198618	ENST00000358455	processed_pseudogene	KNOWN	None	17236	None	None	20230097	20230594	1	PPIAL3	PPIA3L
21	PPIAP22	ENSG00000198618	ENST00000394336	pseudogene	KNOWN	None	17236	None	None	20230097	20230594	1	PPIAL3	PPIA3L
HSCHR6_MHC_MANN	RXRB	ENSG00000231321	ENST00000456244	protein_coding	KNOWN	None	10478	1614	537	33315298	33322310	-1	None	NR2B2, H-2RIIBP, RCoR-1
HSCHR6_MHC_MANN	RXRB	ENSG00000231321	ENST00000431820	protein_coding	KNOWN	None	10478	1602	533	33315298	33322384	-1	None	NR2B2, H-2RIIBP, RCoR-1
HSCHR6_MHC_MANN	RXRB	ENSG00000231321	ENST00000468440	nonsense_mediated_decay	KNOWN	None	10478	240	79	33315916	33322333	-1	None	NR2B2, H-2RIIBP, RCoR-1
HSCHR6_MHC_MANN	RXRB	ENSG00000231321	ENST00000482725	retained_intron	KNOWN	None	10478	None	None	33316360	33317056	-1	None	NR2B2, H-2RIIBP, RCoR-1
HSCHR6_MHC_MANN	RXRB	ENSG00000231321	ENST00000428813	protein_coding	KNOWN	None	10478	287	94	33316745	33318134	-1	None	NR2B2, H-2RIIBP, RCoR-1
HSCHR6_MHC_MANN	RXRB	ENSG00000231321	ENST00000488725	retained_intron	KNOWN	None	10478	None	None	33317481	33320331	-1	None	NR2B2, H-2RIIBP, RCoR-1
HSCHR6_MHC_MANN	RXRB	ENSG00000231321	ENST00000550626	protein_coding	KNOWN	None	10478	1179	392	33315284	33322351	-1	None	NR2B2, H-2RIIBP, RCoR-1
HSCHR6_MHC_MANN	RXRB	ENSG00000231321	ENST00000549199	protein_coding	KNOWN	None	10478	1170	389	33315284	33322351	-1	None	NR2B2, H-2RIIBP, RCoR-1
HSCHR6_MHC_MANN	ATP6V1G2	ENSG00000226850	ENST00000449748	protein_coding	KNOWN	None	862	357	118	31551738	31553879	-1	ATP6G, ATP6G2	Vma10, NG38, Em:AC004181.3
HSCHR6_MHC_MANN	ATP6V1G2	ENSG00000226850	ENST00000434217	protein_coding	KNOWN	None	862	237	78	31551738	31553909	-1	ATP6G, ATP6G2	Vma10, NG38, Em:AC004181.3
HSCHR6_MHC_MANN	ATP6V1G2	ENSG00000226850	ENST00000459844	processed_transcript	KNOWN	None	862	None	None	31552560	31554027	-1	ATP6G, ATP6G2	Vma10, NG38, Em:AC004181.3
HSCHR6_MHC_MANN	ATP6V1G2	ENSG00000226850	ENST00000463612	processed_transcript	KNOWN	None	862	None	None	31552693	31554120	-1	ATP6G, ATP6G2	Vma10, NG38, Em:AC004181.3
5	TRIM41	ENSG00000146063	ENST00000515499	protein_coding	NOVEL	None	19013	574	190	180649499	180661326	1	None	MGC1127, RINCK
5	TRIM41	ENSG00000146063	ENST00000508930	retained_intron	KNOWN	None	19013	None	None	180650290	180662806	1	None	MGC1127, RINCK
5	TRIM41	ENSG00000146063	ENST00000351937	protein_coding	KNOWN	CCDS4465	19013	1557	518	180650290	180662808	1	None	MGC1127, RINCK
5	TRIM41	ENSG00000146063	ENST00000315073	protein_coding	KNOWN	CCDS4466	19013	1893	630	180650290	180662809	1	None	MGC1127, RINCK
5	TRIM41	ENSG00000146063	ENST00000503114	nonsense_mediated_decay	KNOWN	None	19013	1088	361	180651058	180662807	1	None	MGC1127, RINCK
5	TRIM41	ENSG00000146063	ENST00000515223	retained_intron	KNOWN	None	19013	None	None	180651166	180662803	1	None	MGC1127, RINCK
5	TRIM41	ENSG00000146063	ENST00000515834	retained_intron	KNOWN	None	19013	None	None	180651691	180660524	1	None	MGC1127, RINCK
5	TRIM41	ENSG00000146063	ENST00000514219	nonsense_mediated_decay	KNOWN	None	19013	349	115	180660409	180662397	1	None	MGC1127, RINCK
5	TRIM41	ENSG00000146063	ENST00000510072	processed_transcript	PUTATIVE	None	19013	None	None	180660706	180661818	1	None	MGC1127, RINCK
2	TBR1	ENSG00000136535	ENST00000389554	protein_coding	KNOWN	CCDS33310	11590	2049	682	162272605	162282381	1	None	None
2	TBR1	ENSG00000136535	ENST00000463544	retained_intron	KNOWN	None	11590	None	None	162272842	162280396	1	None	None
2	TBR1	ENSG00000136535	ENST00000411412	protein_coding	NOVEL	None	11590	698	231	162274290	162280287	1	None	None
2	TBR1	ENSG00000136535	ENST00000410035	protein_coding	PUTATIVE	None	11590	1188	395	162274406	162280797	1	None	None
2	TBR1	ENSG00000136535	ENST00000477804	processed_transcript	PUTATIVE	None	11590	None	None	162275721	162280196	1	None	None
2	TBR1	ENSG00000136535	ENST00000489530	processed_transcript	PUTATIVE	None	11590	None	None	162276022	162279966	1	None	None
13	GPC5	ENSG00000179399	ENST00000377067	protein_coding	KNOWN	CCDS9468	4453	1719	572	92050929	93519490	1	None	None
13	GPC5	ENSG00000179399	ENST00000483422	processed_transcript	KNOWN	None	4453	None	None	92377312	92408693	1	None	None
1	ZMYM4	ENSG00000146463	ENST00000314607	protein_coding	KNOWN	CCDS389	13055	4647	1548	35734568	35887545	1	ZNF262	KIAA0425, ZNF198L3, MYM
1	ZMYM4	ENSG00000146463	ENST00000441447	protein_coding	KNOWN	None	13055	294	97	35734634	35824830	1	ZNF262	KIAA0425, ZNF198L3, MYM
1	ZMYM4	ENSG00000146463	ENST00000457946	protein_coding	KNOWN	None	13055	3622	1206	35827306	35887659	1	ZNF262	KIAA0425, ZNF198L3, MYM
1	ZMYM4	ENSG00000146463	ENST00000482131	processed_transcript	KNOWN	None	13055	None	None	35827318	35836454	1	ZNF262	KIAA0425, ZNF198L3, MYM
1	ZMYM4	ENSG00000146463	ENST00000470175	processed_transcript	KNOWN	None	13055	None	None	35858281	35863063	1	ZNF262	KIAA0425, ZNF198L3, MYM
1	ZMYM4	ENSG00000146463	ENST00000492456	processed_transcript	KNOWN	None	13055	None	None	35870445	35873653	1	ZNF262	KIAA0425, ZNF198L3, MYM
1	ZMYM4	ENSG00000146463	ENST00000373297	protein_coding	KNOWN	None	13055	4380	1459	35734568	35887544	1	ZNF262	KIAA0425, ZNF198L3, MYM
HSCHR6_MHC_SSTO	HLA-C	ENSG00000206435	ENST00000488240	retained_intron	KNOWN	None	4933	None	None	31229147	31230062	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_SSTO	HLA-C	ENSG00000206435	ENST00000486729	retained_intron	KNOWN	None	4933	None	None	31229147	31230814	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_SSTO	HLA-C	ENSG00000206435	ENST00000461470	retained_intron	KNOWN	None	4933	None	None	31229147	31232437	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_SSTO	HLA-C	ENSG00000206435	ENST00000383487	protein_coding	KNOWN	None	4933	1119	372	31229147	31232474	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_SSTO	HLA-C	ENSG00000206435	ENST00000383483	protein_coding	KNOWN	None	4933	1194	397	31229147	31232474	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_SSTO	HLA-C	ENSG00000206435	ENST00000458668	protein_coding	KNOWN	None	4933	1107	368	31229147	31232478	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_SSTO	HLA-C	ENSG00000206435	ENST00000485321	nonsense_mediated_decay	KNOWN	None	4933	396	131	31229147	31232493	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_SSTO	HLA-C	ENSG00000206435	ENST00000400341	protein_coding	KNOWN	None	4933	1101	366	31229147	31232539	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_SSTO	HLA-C	ENSG00000206435	ENST00000461937	nonsense_mediated_decay	KNOWN	None	4933	675	224	31230602	31232461	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_SSTO	HLA-C	ENSG00000206435	ENST00000449884	protein_coding	KNOWN	None	4933	782	259	31230606	31232457	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_SSTO	HLA-C	ENSG00000206435	ENST00000470176	retained_intron	KNOWN	None	4933	None	None	31230613	31232518	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_SSTO	HLA-C	ENSG00000206435	ENST00000464623	retained_intron	KNOWN	None	4933	None	None	31231491	31232478	-1	HLA-JY3, D6S204	None
14	PNMA1	ENSG00000176903	ENST00000316836	protein_coding	KNOWN	CCDS9818	9158	1062	353	74178494	74181128	-1	None	MA1
13	F7	ENSG00000057593	ENST00000346342	protein_coding	KNOWN	CCDS9529	3544	1335	444	113760105	113774345	1	None	None
13	F7	ENSG00000057593	ENST00000375581	protein_coding	KNOWN	CCDS9528	3544	1401	466	113760121	113774995	1	None	None
13	F7	ENSG00000057593	ENST00000444337	nonsense_mediated_decay	KNOWN	None	3544	225	74	113760153	113771102	1	None	None
13	F7	ENSG00000057593	ENST00000479674	retained_intron	KNOWN	None	3544	None	None	113764654	113771149	1	None	None
13	F7	ENSG00000057593	ENST00000473085	processed_transcript	KNOWN	None	3544	None	None	113764993	113769217	1	None	None
13	F7	ENSG00000057593	ENST00000541084	protein_coding	KNOWN	None	3544	1194	397	113760105	113773430	1	None	None
19	RAD23A	ENSG00000179262	ENST00000591499	nonsense_mediated_decay	KNOWN	None	9812	429	142	13056669	13064083	1	None	HHR23A, MGC111083
19	RAD23A	ENSG00000179262	ENST00000588329	retained_intron	KNOWN	None	9812	None	None	13056680	13060096	1	None	HHR23A, MGC111083
19	RAD23A	ENSG00000179262	ENST00000316856	protein_coding	NOVEL	CCDS59358	9812	1089	362	13056690	13064437	1	None	HHR23A, MGC111083
19	RAD23A	ENSG00000179262	ENST00000586534	protein_coding	KNOWN	CCDS12289	9812	1092	363	13056702	13064456	1	None	HHR23A, MGC111083
19	RAD23A	ENSG00000179262	ENST00000592268	protein_coding	NOVEL	CCDS59357	9812	927	308	13056706	13064405	1	None	HHR23A, MGC111083
19	RAD23A	ENSG00000179262	ENST00000593114	nonsense_mediated_decay	KNOWN	None	9812	420	139	13056708	13064427	1	None	HHR23A, MGC111083
19	RAD23A	ENSG00000179262	ENST00000588826	processed_transcript	KNOWN	None	9812	None	None	13056819	13060390	1	None	HHR23A, MGC111083
19	RAD23A	ENSG00000179262	ENST00000586375	nonsense_mediated_decay	KNOWN	None	9812	188	61	13059503	13064219	1	None	HHR23A, MGC111083
19	RAD23A	ENSG00000179262	ENST00000590881	protein_coding	PUTATIVE	None	9812	453	150	13059898	13064409	1	None	HHR23A, MGC111083
19	RAD23A	ENSG00000179262	ENST00000591467	retained_intron	KNOWN	None	9812	None	None	13063178	13063804	1	None	HHR23A, MGC111083
19	RAD23A	ENSG00000179262	ENST00000541222	protein_coding	KNOWN	None	9812	597	198	13056669	13064083	1	None	HHR23A, MGC111083
10	None	ENSG00000253012	ENST00000517203	miRNA	NOVEL	None	None	None	None	67469818	67469902	1	None	None
21	None	ENSG00000232193	ENST00000440372	lincRNA	KNOWN	None	None	None	None	20290252	20308177	-1	None	None
10	None	ENSG00000252203	ENST00000516394	snoRNA	NOVEL	None	None	None	None	68254457	68254557	1	None	None
22	None	ENSG00000182824	ENST00000342888	protein_coding	NOVEL	None	None	384	127	18721427	18745407	1	None	None
12	CLEC1A	ENSG00000150048	ENST00000315330	protein_coding	KNOWN	CCDS8612	24355	843	280	10222153	10251584	-1	None	CLEC1, MGC34328
12	CLEC1A	ENSG00000150048	ENST00000457018	protein_coding	PUTATIVE	None	24355	744	247	10223082	10251613	-1	None	CLEC1, MGC34328
12	CLEC1A	ENSG00000150048	ENST00000420265	protein_coding	PUTATIVE	None	24355	567	188	10223362	10251549	-1	None	CLEC1, MGC34328
12	CLEC1A	ENSG00000150048	ENST00000544104	nonsense_mediated_decay	KNOWN	None	24355	201	66	10233868	10251627	-1	None	CLEC1, MGC34328
12	CLEC1A	ENSG00000150048	ENST00000414501	protein_coding	KNOWN	None	24355	211	69	10241726	10264226	-1	None	CLEC1, MGC34328
21	None	ENSG00000226204	ENST00000449840	lincRNA	KNOWN	None	None	None	None	20325582	20339376	-1	None	None
10	None	ENSG00000239000	ENST00000459369	snoRNA	NOVEL	None	None	None	None	68374995	68375096	-1	None	None
10	None	ENSG00000225299	ENST00000422963	antisense	KNOWN	None	None	None	None	68812367	68814786	1	None	None
21	None	ENSG00000235965	ENST00000450653	lincRNA	KNOWN	None	None	None	None	20418629	20420003	1	None	None
10	None	ENSG00000226448	ENST00000422016	processed_pseudogene	KNOWN	None	None	None	None	69093881	69094640	1	None	None
21	None	ENSG00000229289	ENST00000424219	lincRNA	KNOWN	None	None	None	None	20502841	20506741	1	None	None
22	None	ENSG00000182356	ENST00000342005	protein_coding	PUTATIVE	None	None	1389	462	18834324	18839322	1	None	None
21	SLC6A6P1	ENSG00000226818	ENST00000413933	processed_pseudogene	KNOWN	None	11053	None	None	20616860	20618709	1	SLC6A6P	None
10	AKR1B10P1	ENSG00000213606	ENST00000425765	processed_pseudogene	KNOWN	None	45062	None	None	69510042	69510983	1	None	None
21	None	ENSG00000231620	ENST00000433210	lincRNA	KNOWN	None	None	None	None	20673930	20676056	1	None	None
19	PAK4	ENSG00000130669	ENST00000602004	protein_coding	PUTATIVE	None	16059	546	181	39616410	39664443	1	None	None
19	PAK4	ENSG00000130669	ENST00000599470	protein_coding	KNOWN	CCDS33019	16059	1317	438	39616422	39669457	1	None	None
19	PAK4	ENSG00000130669	ENST00000321944	protein_coding	KNOWN	None	16059	1506	501	39616438	39670041	1	None	None
19	PAK4	ENSG00000130669	ENST00000593480	protein_coding	KNOWN	None	16059	394	130	39616439	39663747	1	None	None
19	PAK4	ENSG00000130669	ENST00000358301	protein_coding	KNOWN	CCDS12528	16059	1776	591	39616442	39670042	1	None	None
19	PAK4	ENSG00000130669	ENST00000597766	processed_transcript	KNOWN	None	16059	None	None	39616453	39643032	1	None	None
19	PAK4	ENSG00000130669	ENST00000593690	protein_coding	KNOWN	CCDS12528	16059	1776	591	39616454	39670041	1	None	None
19	PAK4	ENSG00000130669	ENST00000599386	protein_coding	KNOWN	CCDS33019	16059	1317	438	39616474	39673456	1	None	None
19	PAK4	ENSG00000130669	ENST00000599657	protein_coding	KNOWN	None	16059	280	92	39647342	39664291	1	None	None
19	PAK4	ENSG00000130669	ENST00000597715	protein_coding	PUTATIVE	None	16059	448	148	39665576	39669404	1	None	None
19	PAK4	ENSG00000130669	ENST00000600350	retained_intron	KNOWN	None	16059	None	None	39667129	39669250	1	None	None
19	PAK4	ENSG00000130669	ENST00000435673	protein_coding	KNOWN	CCDS12528	16059	1776	591	39658867	39670046	1	None	None
19	PAK4	ENSG00000130669	ENST00000360442	protein_coding	KNOWN	CCDS12528	16059	1776	591	39659251	39670046	1	None	None
10	None	ENSG00000225922	ENST00000454107	processed_pseudogene	KNOWN	None	None	None	None	69553528	69554003	1	None	None
19	ZNF610	ENSG00000167554	ENST00000321287	protein_coding	KNOWN	CCDS12851	26687	1389	462	52839498	52870375	1	None	FLJ36040
19	ZNF610	ENSG00000167554	ENST00000599508	retained_intron	KNOWN	None	26687	None	None	52839557	52851302	1	None	FLJ36040
19	ZNF610	ENSG00000167554	ENST00000403906	protein_coding	KNOWN	CCDS12851	26687	1389	462	52839561	52870366	1	None	FLJ36040
19	ZNF610	ENSG00000167554	ENST00000601151	protein_coding	KNOWN	CCDS54309	26687	1260	419	52839565	52871031	1	None	FLJ36040
19	ZNF610	ENSG00000167554	ENST00000594919	retained_intron	KNOWN	None	26687	None	None	52839615	52851465	1	None	FLJ36040
19	ZNF610	ENSG00000167554	ENST00000593698	protein_coding	KNOWN	None	26687	255	84	52847331	52857568	1	None	FLJ36040
19	ZNF610	ENSG00000167554	ENST00000327920	protein_coding	KNOWN	CCDS12851	26687	1389	462	52848682	52870111	1	None	FLJ36040
10	RNU6-1250P	ENSG00000212520	ENST00000391218	snRNA	KNOWN	None	48213	None	None	69568260	69568366	1	None	None
10	RN7SL394P	ENSG00000239942	ENST00000480997	misc_RNA	KNOWN	None	46410	None	None	69585068	69585358	-1	None	None
10	DNAJC19P1	ENSG00000237141	ENST00000455312	processed_pseudogene	KNOWN	None	45064	None	None	69593521	69593839	1	None	None
1	KIF21B	ENSG00000116852	ENST00000477146	nonsense_mediated_decay	KNOWN	None	29442	2270	755	200938520	200960087	-1	None	DKFZP434J212, KIAA0449
1	KIF21B	ENSG00000116852	ENST00000332129	protein_coding	KNOWN	CCDS30965	29442	4875	1624	200938520	200992828	-1	None	DKFZP434J212, KIAA0449
1	KIF21B	ENSG00000116852	ENST00000360529	protein_coding	PUTATIVE	CCDS58054	29442	4833	1610	200942118	200992536	-1	None	DKFZP434J212, KIAA0449
1	KIF21B	ENSG00000116852	ENST00000461742	protein_coding	PUTATIVE	CCDS58055	29442	4872	1623	200942118	200992536	-1	None	DKFZP434J212, KIAA0449
1	KIF21B	ENSG00000116852	ENST00000422435	protein_coding	KNOWN	CCDS58056	29442	4914	1637	200942935	200992828	-1	None	DKFZP434J212, KIAA0449
1	KIF21B	ENSG00000116852	ENST00000534043	retained_intron	KNOWN	None	29442	None	None	200970535	200974718	-1	None	DKFZP434J212, KIAA0449
13	GPC6	ENSG00000183098	ENST00000377047	protein_coding	KNOWN	CCDS9469	4454	1668	555	93879095	95059655	1	None	None
10	RPL12P8	ENSG00000219932	ENST00000482081	processed_pseudogene	KNOWN	None	23735	None	None	69634090	69634669	1	None	bA57G10.3
10	RPL12P8	ENSG00000219932	ENST00000600823	processed_pseudogene	KNOWN	None	23735	None	None	69634178	69634672	1	None	bA57G10.3
22	DGCR6	ENSG00000183628	ENST00000413981	protein_coding	PUTATIVE	None	2846	255	84	18893541	18899601	1	None	None
22	DGCR6	ENSG00000183628	ENST00000331444	protein_coding	KNOWN	CCDS13753	2846	663	220	18893736	18899601	1	None	None
22	DGCR6	ENSG00000183628	ENST00000483718	nonsense_mediated_decay	KNOWN	None	2846	315	104	18893838	18901751	1	None	None
22	DGCR6	ENSG00000183628	ENST00000427407	nonsense_mediated_decay	KNOWN	None	2846	489	162	18893864	18899595	1	None	None
22	DGCR6	ENSG00000183628	ENST00000480608	nonsense_mediated_decay	KNOWN	None	2846	435	144	18893868	18899600	1	None	None
22	DGCR6	ENSG00000183628	ENST00000477156	retained_intron	KNOWN	None	2846	None	None	18894294	18897902	1	None	None
22	DGCR6	ENSG00000183628	ENST00000436645	processed_transcript	KNOWN	None	2846	None	None	18896176	18899591	1	None	None
10	None	ENSG00000226318	ENST00000435889	processed_pseudogene	KNOWN	None	None	None	None	69720459	69721221	-1	None	None
1	BCAS2	ENSG00000116752	ENST00000369541	protein_coding	KNOWN	CCDS874	975	678	225	115110178	115124260	-1	None	DAM1, SPF27, Snt309
1	BCAS2	ENSG00000116752	ENST00000485021	processed_transcript	KNOWN	None	975	None	None	115110505	115124250	-1	None	DAM1, SPF27, Snt309
10	None	ENSG00000221159	ENST00000408232	miRNA	NOVEL	None	None	None	None	69730030	69730126	-1	None	None
12	GPR84	ENSG00000139572	ENST00000267015	protein_coding	KNOWN	CCDS8878	4535	1191	396	54756229	54758258	-1	None	EX33
12	GPR84	ENSG00000139572	ENST00000551809	protein_coding	KNOWN	CCDS8878	4535	1191	396	54756231	54758271	-1	None	EX33
17	NEUROD2	ENSG00000171532	ENST00000580874	retained_intron	KNOWN	None	7763	None	None	37759789	37766030	-1	None	NDRF, bHLHa1
17	NEUROD2	ENSG00000171532	ENST00000302584	protein_coding	KNOWN	CCDS11338	7763	1149	382	37761033	37764196	-1	None	NDRF, bHLHa1
13	None	ENSG00000121388	ENST00000382988	protein_coding	PUTATIVE	None	None	240	79	19756173	19761496	1	None	None
21	RNU1-139P	ENSG00000212609	ENST00000391307	snRNA	KNOWN	None	48481	None	None	20717465	20717629	1	None	None
21	RPL37P4	ENSG00000230198	ENST00000448908	processed_pseudogene	KNOWN	None	17239	None	None	20966155	20966422	1	None	RL37P2
21	None	ENSG00000271486	ENST00000603349	processed_pseudogene	KNOWN	None	None	None	None	20993009	20993859	1	None	None
21	None	ENSG00000229336	ENST00000282964	processed_pseudogene	KNOWN	None	None	None	None	21112023	21112464	1	None	None
21	C1QBPP	ENSG00000215353	ENST00000400117	processed_pseudogene	KNOWN	None	1244	None	None	21131673	21132442	-1	None	None
HSCHR6_MHC_DBB	POU5F1	ENSG00000229094	ENST00000463773	processed_transcript	KNOWN	None	9221	None	None	31125841	31126798	-1	OTF3	OCT3, Oct4, MGC22487
HSCHR6_MHC_DBB	POU5F1	ENSG00000229094	ENST00000412166	protein_coding	KNOWN	None	9221	798	265	31125841	31127782	-1	OTF3	OCT3, Oct4, MGC22487
HSCHR6_MHC_DBB	POU5F1	ENSG00000229094	ENST00000434616	protein_coding	KNOWN	None	9221	1083	360	31125841	31132215	-1	OTF3	OCT3, Oct4, MGC22487
HSCHR6_MHC_DBB	POU5F1	ENSG00000229094	ENST00000489610	retained_intron	KNOWN	None	9221	None	None	31127206	31132180	-1	OTF3	OCT3, Oct4, MGC22487
HSCHR6_MHC_DBB	POU5F1	ENSG00000229094	ENST00000553069	protein_coding	KNOWN	None	9221	369	122	31120916	31132142	-1	OTF3	OCT3, Oct4, MGC22487
HSCHR6_MHC_DBB	POU5F1	ENSG00000229094	ENST00000550521	protein_coding	KNOWN	None	9221	558	185	31125842	31132196	-1	OTF3	OCT3, Oct4, MGC22487
21	None	ENSG00000233480	ENST00000443479	lincRNA	KNOWN	None	None	None	None	21265593	21272069	-1	None	None
21	None	ENSG00000233236	ENST00000436373	lincRNA	KNOWN	None	None	None	None	21629065	21631133	-1	None	None
14	ELMSAN1	ENSG00000156030	ENST00000394071	protein_coding	KNOWN	CCDS9819	19853	3138	1045	74181825	74253961	-1	C14orf117, C14orf43	LSR68
14	ELMSAN1	ENSG00000156030	ENST00000476562	retained_intron	KNOWN	None	19853	None	None	74181827	74193836	-1	C14orf117, C14orf43	LSR68
14	ELMSAN1	ENSG00000156030	ENST00000423556	protein_coding	PUTATIVE	None	19853	3135	1044	74185610	74206958	-1	C14orf117, C14orf43	LSR68
14	ELMSAN1	ENSG00000156030	ENST00000478847	retained_intron	KNOWN	None	19853	None	None	74186073	74188327	-1	C14orf117, C14orf43	LSR68
14	ELMSAN1	ENSG00000156030	ENST00000451078	nonsense_mediated_decay	KNOWN	None	19853	1338	445	74186085	74206177	-1	C14orf117, C14orf43	LSR68
14	ELMSAN1	ENSG00000156030	ENST00000435371	protein_coding	KNOWN	None	19853	3056	1017	74186086	74227001	-1	C14orf117, C14orf43	LSR68
14	ELMSAN1	ENSG00000156030	ENST00000483269	retained_intron	KNOWN	None	19853	None	None	74189069	74192042	-1	C14orf117, C14orf43	LSR68
14	ELMSAN1	ENSG00000156030	ENST00000462716	retained_intron	KNOWN	None	19853	None	None	74189865	74195879	-1	C14orf117, C14orf43	LSR68
14	ELMSAN1	ENSG00000156030	ENST00000421708	protein_coding	KNOWN	None	19853	197	64	74206515	74221719	-1	C14orf117, C14orf43	LSR68
14	ELMSAN1	ENSG00000156030	ENST00000486739	processed_transcript	KNOWN	None	19853	None	None	74206734	74256988	-1	C14orf117, C14orf43	LSR68
14	ELMSAN1	ENSG00000156030	ENST00000286523	protein_coding	KNOWN	CCDS9819	19853	3138	1045	74181834	74227001	-1	C14orf117, C14orf43	LSR68
Y	SRIP3	ENSG00000224953	ENST00000413200	processed_pseudogene	KNOWN	None	38735	None	None	6587003	6587221	-1	None	None
21	RNU6-772P	ENSG00000251851	ENST00000516042	snRNA	KNOWN	None	47735	None	None	21728060	21728164	-1	None	None
21	RN7SKP147	ENSG00000252963	ENST00000517154	misc_RNA	KNOWN	None	45871	None	None	21728965	21729208	1	None	None
Y	GOT2P5	ENSG00000233634	ENST00000433995	processed_pseudogene	KNOWN	None	38439	None	None	6705748	6706293	1	None	GOT2Y
22	GATSL3	ENSG00000239282	ENST00000459785	processed_transcript	KNOWN	None	34423	None	None	30681106	30683379	-1	None	None
22	GATSL3	ENSG00000239282	ENST00000407689	protein_coding	KNOWN	CCDS43001	34423	990	329	30681106	30685616	-1	None	None
22	GATSL3	ENSG00000239282	ENST00000404953	protein_coding	NOVEL	None	34423	876	291	30681135	30685596	-1	None	None
22	GATSL3	ENSG00000239282	ENST00000440839	nonsense_mediated_decay	KNOWN	None	34423	129	42	30681486	30685558	-1	None	None
22	GATSL3	ENSG00000239282	ENST00000421236	nonsense_mediated_decay	KNOWN	None	34423	129	42	30681821	30685611	-1	None	None
22	GATSL3	ENSG00000239282	ENST00000497605	retained_intron	KNOWN	None	34423	None	None	30682263	30685520	-1	None	None
22	GATSL3	ENSG00000239282	ENST00000415484	nonsense_mediated_decay	KNOWN	None	34423	225	74	30682336	30685494	-1	None	None
22	GATSL3	ENSG00000239282	ENST00000425691	nonsense_mediated_decay	KNOWN	None	34423	189	62	30682336	30685529	-1	None	None
22	GATSL3	ENSG00000239282	ENST00000463795	retained_intron	KNOWN	None	34423	None	None	30682531	30685520	-1	None	None
22	GATSL3	ENSG00000239282	ENST00000471480	retained_intron	KNOWN	None	34423	None	None	30682661	30685535	-1	None	None
22	GATSL3	ENSG00000239282	ENST00000492159	retained_intron	KNOWN	None	34423	None	None	30683074	30685168	-1	None	None
22	GATSL3	ENSG00000239282	ENST00000440704	nonsense_mediated_decay	KNOWN	None	34423	188	61	30683156	30685485	-1	None	None
22	GATSL3	ENSG00000239282	ENST00000464854	processed_transcript	KNOWN	None	34423	None	None	30683187	30683939	-1	None	None
22	GATSL3	ENSG00000239282	ENST00000498572	processed_transcript	KNOWN	None	34423	None	None	30683428	30685535	-1	None	None
21	FDPSP6	ENSG00000233676	ENST00000425091	processed_pseudogene	KNOWN	None	3637	None	None	21760646	21761157	1	FDPSP	None
9	None	ENSG00000232317	ENST00000438078	protein_coding	NOVEL	None	None	504	167	139141824	139143051	1	None	None
21	KRT18P2	ENSG00000234439	ENST00000447938	processed_pseudogene	KNOWN	None	6435	None	None	21797261	21798518	-1	None	OTTHUMG00000078062
9	None	ENSG00000267845	ENST00000601276	protein_coding	KNOWN	None	None	552	183	139219089	139219640	-1	None	None
Y	ATP5JP1	ENSG00000237701	ENST00000431631	processed_pseudogene	KNOWN	None	23933	None	None	6768794	6769413	1	None	None
21	RPS3AP1	ENSG00000233206	ENST00000413190	processed_pseudogene	KNOWN	None	10422	None	None	21802755	21803074	-1	RPS3AP	None
4	LCORL	ENSG00000178177	ENST00000326877	protein_coding	KNOWN	CCDS3425	30776	957	318	17844839	18023499	-1	None	MLR1, FLJ30696
4	LCORL	ENSG00000178177	ENST00000510451	nonsense_mediated_decay	KNOWN	None	30776	240	79	17847120	18023380	-1	None	MLR1, FLJ30696
4	LCORL	ENSG00000178177	ENST00000510121	processed_transcript	KNOWN	None	30776	None	None	17847263	17963655	-1	None	MLR1, FLJ30696
4	LCORL	ENSG00000178177	ENST00000382224	protein_coding	KNOWN	None	30776	1557	518	17882218	18022357	-1	None	MLR1, FLJ30696
4	LCORL	ENSG00000178177	ENST00000512376	processed_transcript	KNOWN	None	30776	None	None	17961869	18023378	-1	None	MLR1, FLJ30696
4	LCORL	ENSG00000178177	ENST00000539056	protein_coding	KNOWN	None	30776	435	144	17847120	18023380	-1	None	MLR1, FLJ30696
4	LCORL	ENSG00000178177	ENST00000382226	protein_coding	KNOWN	CCDS54749	30776	1809	602	17882252	18023483	-1	None	MLR1, FLJ30696
16	CBFB	ENSG00000067955	ENST00000561924	protein_coding	PUTATIVE	None	1539	249	82	67063019	67132714	1	None	PEBP2B
16	CBFB	ENSG00000067955	ENST00000290858	protein_coding	KNOWN	CCDS10827	1539	549	182	67063050	67134961	1	None	PEBP2B
16	CBFB	ENSG00000067955	ENST00000564034	protein_coding	PUTATIVE	None	1539	280	92	67063082	67100699	1	None	PEBP2B
16	CBFB	ENSG00000067955	ENST00000412916	protein_coding	NOVEL	CCDS45508	1539	564	187	67063148	67134925	1	None	PEBP2B
16	CBFB	ENSG00000067955	ENST00000565389	protein_coding	PUTATIVE	None	1539	181	59	67063364	67133346	1	None	PEBP2B
16	CBFB	ENSG00000067955	ENST00000563939	protein_coding	PUTATIVE	None	1539	184	60	67063855	67116200	1	None	PEBP2B
16	CBFB	ENSG00000067955	ENST00000567947	retained_intron	KNOWN	None	1539	None	None	67070330	67100865	1	None	PEBP2B
16	CBFB	ENSG00000067955	ENST00000566281	retained_intron	KNOWN	None	1539	None	None	67115988	67132872	1	None	PEBP2B
16	CBFB	ENSG00000067955	ENST00000568858	processed_transcript	PUTATIVE	None	1539	None	None	67127301	67133294	1	None	PEBP2B
12	P2RX7	ENSG00000089041	ENST00000537312	nonsense_mediated_decay	KNOWN	None	8537	144	47	121570622	121622884	1	None	P2X7, MGC20089
12	P2RX7	ENSG00000089041	ENST00000546057	protein_coding	KNOWN	CCDS9213	8537	1788	595	121570631	121623338	1	None	P2X7, MGC20089
12	P2RX7	ENSG00000089041	ENST00000535928	nonsense_mediated_decay	KNOWN	None	8537	144	47	121570655	121600233	1	None	P2X7, MGC20089
12	P2RX7	ENSG00000089041	ENST00000539695	retained_intron	KNOWN	None	8537	None	None	121570705	121622480	1	None	P2X7, MGC20089
12	P2RX7	ENSG00000089041	ENST00000545434	nonsense_mediated_decay	KNOWN	None	8537	144	47	121570732	121603966	1	None	P2X7, MGC20089
12	P2RX7	ENSG00000089041	ENST00000261826	nonsense_mediated_decay	KNOWN	None	8537	450	149	121570733	121623876	1	None	P2X7, MGC20089
12	P2RX7	ENSG00000089041	ENST00000443520	processed_transcript	KNOWN	None	8537	None	None	121570774	121622605	1	None	P2X7, MGC20089
12	P2RX7	ENSG00000089041	ENST00000539606	nonsense_mediated_decay	KNOWN	None	8537	384	127	121570774	121622605	1	None	P2X7, MGC20089
12	P2RX7	ENSG00000089041	ENST00000541716	nonsense_mediated_decay	KNOWN	None	8537	387	128	121570774	121622605	1	None	P2X7, MGC20089
12	P2RX7	ENSG00000089041	ENST00000541022	nonsense_mediated_decay	KNOWN	None	8537	387	128	121570774	121622605	1	None	P2X7, MGC20089
12	P2RX7	ENSG00000089041	ENST00000541564	nonsense_mediated_decay	KNOWN	None	8537	777	258	121570774	121622605	1	None	P2X7, MGC20089
12	P2RX7	ENSG00000089041	ENST00000538011	nonsense_mediated_decay	KNOWN	None	8537	384	127	121570774	121622605	1	None	P2X7, MGC20089
12	P2RX7	ENSG00000089041	ENST00000535600	nonsense_mediated_decay	KNOWN	None	8537	828	275	121570774	121622605	1	None	P2X7, MGC20089
12	P2RX7	ENSG00000089041	ENST00000377162	protein_coding	KNOWN	None	8537	828	275	121570678	121615072	1	None	P2X7, MGC20089
12	P2RX7	ENSG00000089041	ENST00000535250	protein_coding	KNOWN	None	8537	1518	505	121570774	121622605	1	None	P2X7, MGC20089
12	P2RX7	ENSG00000089041	ENST00000328963	protein_coding	KNOWN	None	8537	1278	425	121570733	121623856	1	None	P2X7, MGC20089
12	P2RX7	ENSG00000089041	ENST00000541446	protein_coding	KNOWN	None	8537	921	306	121570774	121622605	1	None	P2X7, MGC20089
Y	GPR143P	ENSG00000232583	ENST00000434155	unprocessed_pseudogene	KNOWN	None	18499	None	None	6968774	6974543	-1	OA1P	None
21	LINC00320	ENSG00000224924	ENST00000416768	lincRNA	KNOWN	None	19690	None	None	22114908	22175381	-1	C21orf131, NCRNA00320	PRED14, FLJ37539
21	LINC00320	ENSG00000224924	ENST00000437238	lincRNA	KNOWN	None	19690	None	None	22114913	22175416	-1	C21orf131, NCRNA00320	PRED14, FLJ37539
21	LINC00320	ENSG00000224924	ENST00000452561	lincRNA	KNOWN	None	19690	None	None	22115239	22175388	-1	C21orf131, NCRNA00320	PRED14, FLJ37539
21	LINC00320	ENSG00000224924	ENST00000435279	lincRNA	KNOWN	None	19690	None	None	22115239	22175534	-1	C21orf131, NCRNA00320	PRED14, FLJ37539
21	LINC00320	ENSG00000224924	ENST00000419299	lincRNA	KNOWN	None	19690	None	None	22116057	22175404	-1	C21orf131, NCRNA00320	PRED14, FLJ37539
6	SIM1	ENSG00000112246	ENST00000369208	protein_coding	KNOWN	CCDS5045	10882	2301	766	100832891	100912805	-1	None	bHLHe14
6	SIM1	ENSG00000112246	ENST00000505753	retained_intron	KNOWN	None	10882	None	None	100838959	100841918	-1	None	bHLHe14
6	SIM1	ENSG00000112246	ENST00000511871	retained_intron	KNOWN	None	10882	None	None	100910479	100912765	-1	None	bHLHe14
6	SIM1	ENSG00000112246	ENST00000262901	protein_coding	KNOWN	CCDS5045	10882	2301	766	100836748	100911553	-1	None	bHLHe14
2	CCDC85A	ENSG00000055813	ENST00000407595	protein_coding	KNOWN	CCDS46290	29400	1662	553	56411258	56613308	1	None	KIAA1912
Y	PRKY	ENSG00000099725	ENST00000528056	processed_transcript	KNOWN	None	9444	None	None	7142013	7249589	1	None	PRKYP, PRKXP3
Y	PRKY	ENSG00000099725	ENST00000533551	transcribed_unprocessed_pseudogene	KNOWN	None	9444	None	None	7142354	7239909	1	None	PRKYP, PRKXP3
Y	PRKY	ENSG00000099725	ENST00000495163	processed_transcript	KNOWN	None	9444	None	None	7194108	7196444	1	None	PRKYP, PRKXP3
Y	PRKY	ENSG00000099725	ENST00000472666	processed_transcript	KNOWN	None	9444	None	None	7201071	7224264	1	None	PRKYP, PRKXP3
Y	PRKY	ENSG00000099725	ENST00000362758	unprocessed_pseudogene	KNOWN	None	9444	None	None	7142336	7235456	1	None	PRKYP, PRKXP3
3	ACPP	ENSG00000014257	ENST00000336375	protein_coding	KNOWN	CCDS3073	125	1161	386	132036211	132077596	1	None	ACP3, ACP-3
3	ACPP	ENSG00000014257	ENST00000495911	protein_coding	PUTATIVE	None	125	496	164	132036213	132061423	1	None	ACP3, ACP-3
3	ACPP	ENSG00000014257	ENST00000475741	protein_coding	NOVEL	None	125	1062	353	132036250	132075851	1	None	ACP3, ACP-3
3	ACPP	ENSG00000014257	ENST00000351273	protein_coding	KNOWN	CCDS46916	125	1257	418	132036251	132087142	1	None	ACP3, ACP-3
3	ACPP	ENSG00000014257	ENST00000493235	processed_transcript	KNOWN	None	125	None	None	132036270	132056387	1	None	ACP3, ACP-3
3	ACPP	ENSG00000014257	ENST00000489084	processed_transcript	KNOWN	None	125	None	None	132036281	132052336	1	None	ACP3, ACP-3
3	ACPP	ENSG00000014257	ENST00000483689	retained_intron	KNOWN	None	125	None	None	132047168	132051470	1	None	ACP3, ACP-3
3	ACPP	ENSG00000014257	ENST00000512463	retained_intron	KNOWN	None	125	None	None	132056196	132071632	1	None	ACP3, ACP-3
3	ACPP	ENSG00000014257	ENST00000507647	protein_coding	PUTATIVE	None	125	299	98	132071646	132077564	1	None	ACP3, ACP-3
X	MAGED2	ENSG00000102316	ENST00000375068	protein_coding	KNOWN	CCDS14362	16353	1821	606	54834032	54842440	1	None	JCL-1, BCG1, 11B6, MAGE-D2, HCA10, MAGED, MGC8386
X	MAGED2	ENSG00000102316	ENST00000347546	protein_coding	KNOWN	None	16353	1653	550	54834180	54842440	1	None	JCL-1, BCG1, 11B6, MAGE-D2, HCA10, MAGED, MGC8386
X	MAGED2	ENSG00000102316	ENST00000463787	processed_transcript	KNOWN	None	16353	None	None	54834188	54838077	1	None	JCL-1, BCG1, 11B6, MAGE-D2, HCA10, MAGED, MGC8386
X	MAGED2	ENSG00000102316	ENST00000375058	protein_coding	KNOWN	CCDS14362	16353	1821	606	54834804	54842440	1	None	JCL-1, BCG1, 11B6, MAGE-D2, HCA10, MAGED, MGC8386
X	MAGED2	ENSG00000102316	ENST00000375060	protein_coding	KNOWN	None	16353	1566	521	54834804	54842445	1	None	JCL-1, BCG1, 11B6, MAGE-D2, HCA10, MAGED, MGC8386
X	MAGED2	ENSG00000102316	ENST00000485483	processed_transcript	KNOWN	None	16353	None	None	54835530	54836565	1	None	JCL-1, BCG1, 11B6, MAGE-D2, HCA10, MAGED, MGC8386
X	MAGED2	ENSG00000102316	ENST00000497484	processed_transcript	KNOWN	None	16353	None	None	54835543	54837563	1	None	JCL-1, BCG1, 11B6, MAGE-D2, HCA10, MAGED, MGC8386
X	MAGED2	ENSG00000102316	ENST00000487482	processed_transcript	KNOWN	None	16353	None	None	54837965	54839594	1	None	JCL-1, BCG1, 11B6, MAGE-D2, HCA10, MAGED, MGC8386
X	MAGED2	ENSG00000102316	ENST00000487463	processed_transcript	KNOWN	None	16353	None	None	54838606	54839767	1	None	JCL-1, BCG1, 11B6, MAGE-D2, HCA10, MAGED, MGC8386
X	MAGED2	ENSG00000102316	ENST00000375053	protein_coding	KNOWN	CCDS14362	16353	1821	606	54834171	54842127	1	None	JCL-1, BCG1, 11B6, MAGE-D2, HCA10, MAGED, MGC8386
X	MAGED2	ENSG00000102316	ENST00000343474	protein_coding	KNOWN	None	16353	1767	588	54834196	54842127	1	None	JCL-1, BCG1, 11B6, MAGE-D2, HCA10, MAGED, MGC8386
X	MAGED2	ENSG00000102316	ENST00000375062	protein_coding	KNOWN	None	16353	1566	521	54834196	54842127	1	None	JCL-1, BCG1, 11B6, MAGE-D2, HCA10, MAGED, MGC8386
X	MAGED2	ENSG00000102316	ENST00000218439	protein_coding	KNOWN	CCDS14362	16353	1821	606	54834797	54842127	1	None	JCL-1, BCG1, 11B6, MAGE-D2, HCA10, MAGED, MGC8386
X	MAGED2	ENSG00000102316	ENST00000396224	protein_coding	KNOWN	CCDS14362	16353	1821	606	54835493	54842127	1	None	JCL-1, BCG1, 11B6, MAGE-D2, HCA10, MAGED, MGC8386
22	None	ENSG00000267954	ENST00000598975	protein_coding	KNOWN	None	None	747	248	24124467	24126145	-1	None	None
20	ARFGEF2	ENSG00000124198	ENST00000371917	protein_coding	KNOWN	CCDS13411	15853	5358	1785	47538427	47653230	1	None	BIG2
20	ARFGEF2	ENSG00000124198	ENST00000493140	processed_transcript	KNOWN	None	15853	None	None	47614637	47614983	1	None	BIG2
16	ZNF423	ENSG00000102935	ENST00000561648	protein_coding	KNOWN	CCDS32445	16762	3855	1284	49521435	49856650	-1	None	KIAA0760, OAZ, Roaz, Ebfaz, Zfp104, NPHP14
16	ZNF423	ENSG00000102935	ENST00000563137	protein_coding	PUTATIVE	None	16762	3675	1224	49524515	49890046	-1	None	KIAA0760, OAZ, Roaz, Ebfaz, Zfp104, NPHP14
16	ZNF423	ENSG00000102935	ENST00000562871	protein_coding	PUTATIVE	None	16762	3675	1224	49524516	49814520	-1	None	KIAA0760, OAZ, Roaz, Ebfaz, Zfp104, NPHP14
16	ZNF423	ENSG00000102935	ENST00000535559	protein_coding	PUTATIVE	None	16762	3504	1167	49524698	49698136	-1	None	KIAA0760, OAZ, Roaz, Ebfaz, Zfp104, NPHP14
16	ZNF423	ENSG00000102935	ENST00000567169	protein_coding	PUTATIVE	None	16762	3504	1167	49524862	49674763	-1	None	KIAA0760, OAZ, Roaz, Ebfaz, Zfp104, NPHP14
16	ZNF423	ENSG00000102935	ENST00000562520	protein_coding	PUTATIVE	None	16762	3675	1224	49525186	49891830	-1	None	KIAA0760, OAZ, Roaz, Ebfaz, Zfp104, NPHP14
16	ZNF423	ENSG00000102935	ENST00000568094	retained_intron	KNOWN	None	16762	None	None	49764487	49823459	-1	None	KIAA0760, OAZ, Roaz, Ebfaz, Zfp104, NPHP14
16	ZNF423	ENSG00000102935	ENST00000561874	protein_coding	KNOWN	None	16762	303	100	49764656	49860921	-1	None	KIAA0760, OAZ, Roaz, Ebfaz, Zfp104, NPHP14
16	ZNF423	ENSG00000102935	ENST00000262383	protein_coding	KNOWN	CCDS32445	16762	3855	1284	49524522	49860918	-1	None	KIAA0760, OAZ, Roaz, Ebfaz, Zfp104, NPHP14
HSCHR6_MHC_QBL	SKIV2L	ENSG00000206353	ENST00000383336	protein_coding	KNOWN	None	10898	3741	1246	31917249	31927920	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_QBL	SKIV2L	ENSG00000206353	ENST00000476651	processed_transcript	KNOWN	None	10898	None	None	31917286	31919555	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_QBL	SKIV2L	ENSG00000206353	ENST00000473773	processed_transcript	KNOWN	None	10898	None	None	31917308	31920752	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_QBL	SKIV2L	ENSG00000206353	ENST00000465599	retained_intron	KNOWN	None	10898	None	None	31917317	31927920	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_QBL	SKIV2L	ENSG00000206353	ENST00000492290	retained_intron	KNOWN	None	10898	None	None	31917360	31918127	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_QBL	SKIV2L	ENSG00000206353	ENST00000479061	processed_transcript	KNOWN	None	10898	None	None	31919666	31921179	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_QBL	SKIV2L	ENSG00000206353	ENST00000496986	processed_transcript	PUTATIVE	None	10898	None	None	31924997	31926613	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_QBL	SKIV2L	ENSG00000206353	ENST00000467720	retained_intron	KNOWN	None	10898	None	None	31925190	31926617	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_QBL	SKIV2L	ENSG00000206353	ENST00000495470	retained_intron	KNOWN	None	10898	None	None	31925272	31927155	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_QBL	SKIV2L	ENSG00000206353	ENST00000485285	processed_transcript	PUTATIVE	None	10898	None	None	31926492	31927920	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_QBL	SKIV2L	ENSG00000206353	ENST00000485471	retained_intron	KNOWN	None	10898	None	None	31926623	31927577	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_QBL	SKIV2L	ENSG00000206353	ENST00000459801	retained_intron	KNOWN	None	10898	None	None	31926644	31927920	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_QBL	SKIV2L	ENSG00000206353	ENST00000461360	processed_transcript	KNOWN	None	10898	None	None	31926649	31927920	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_QBL	SKIV2L	ENSG00000206353	ENST00000471147	processed_transcript	KNOWN	None	10898	None	None	31926855	31927920	1	SKIV2	HLP, DDX13, SKI2W, 170A
18	ANKRD30B	ENSG00000180777	ENST00000579292	processed_transcript	KNOWN	None	24165	None	None	14728271	14808730	1	None	NY-BR-1.1
18	ANKRD30B	ENSG00000180777	ENST00000358984	protein_coding	KNOWN	CCDS54182	24165	4179	1392	14748239	14852479	1	None	NY-BR-1.1
18	ANKRD30B	ENSG00000180777	ENST00000580206	nonsense_mediated_decay	KNOWN	None	24165	1860	619	14748334	14817088	1	None	NY-BR-1.1
18	ANKRD30B	ENSG00000180777	ENST00000320584	retained_intron	KNOWN	None	24165	None	None	14837148	14852737	1	None	NY-BR-1.1
18	ANKRD30B	ENSG00000180777	ENST00000447268	protein_coding	KNOWN	None	24165	1860	619	14748419	14796376	1	None	NY-BR-1.1
12	ZNF385A	ENSG00000161642	ENST00000551109	protein_coding	KNOWN	CCDS8879	17521	1101	366	54762917	54779551	-1	ZNF385	DKFZp586G1122, Hzf, ZFP385
12	ZNF385A	ENSG00000161642	ENST00000352268	protein_coding	KNOWN	CCDS44910	17521	918	305	54762919	54785065	-1	ZNF385	DKFZp586G1122, Hzf, ZFP385
12	ZNF385A	ENSG00000161642	ENST00000394313	protein_coding	KNOWN	CCDS8879	17521	1101	366	54762920	54778507	-1	ZNF385	DKFZp586G1122, Hzf, ZFP385
12	ZNF385A	ENSG00000161642	ENST00000550779	nonsense_mediated_decay	KNOWN	None	17521	342	113	54762924	54778253	-1	ZNF385	DKFZp586G1122, Hzf, ZFP385
12	ZNF385A	ENSG00000161642	ENST00000338010	protein_coding	KNOWN	CCDS44911	17521	1161	386	54762924	54785082	-1	ZNF385	DKFZp586G1122, Hzf, ZFP385
12	ZNF385A	ENSG00000161642	ENST00000546970	protein_coding	KNOWN	CCDS8879	17521	1101	366	54762937	54779552	-1	ZNF385	DKFZp586G1122, Hzf, ZFP385
12	ZNF385A	ENSG00000161642	ENST00000552382	processed_transcript	KNOWN	None	17521	None	None	54763662	54772973	-1	ZNF385	DKFZp586G1122, Hzf, ZFP385
12	ZNF385A	ENSG00000161642	ENST00000551771	protein_coding	KNOWN	None	17521	858	285	54763946	54778457	-1	ZNF385	DKFZp586G1122, Hzf, ZFP385
12	ZNF385A	ENSG00000161642	ENST00000546919	protein_coding	KNOWN	None	17521	695	230	54764790	54779048	-1	ZNF385	DKFZp586G1122, Hzf, ZFP385
12	ZNF385A	ENSG00000161642	ENST00000549937	protein_coding	NOVEL	None	17521	761	252	54764808	54778244	-1	ZNF385	DKFZp586G1122, Hzf, ZFP385
12	ZNF385A	ENSG00000161642	ENST00000549962	protein_coding	NOVEL	None	17521	535	177	54765275	54785065	-1	ZNF385	DKFZp586G1122, Hzf, ZFP385
12	ZNF385A	ENSG00000161642	ENST00000547210	protein_coding	KNOWN	None	17521	494	163	54765367	54778507	-1	ZNF385	DKFZp586G1122, Hzf, ZFP385
12	ZNF385A	ENSG00000161642	ENST00000550774	protein_coding	KNOWN	None	17521	435	144	54765426	54785082	-1	ZNF385	DKFZp586G1122, Hzf, ZFP385
12	ZNF385A	ENSG00000161642	ENST00000550120	protein_coding	NOVEL	None	17521	282	93	54765468	54778493	-1	ZNF385	DKFZp586G1122, Hzf, ZFP385
12	ZNF385A	ENSG00000161642	ENST00000551864	processed_transcript	KNOWN	None	17521	None	None	54766698	54775231	-1	ZNF385	DKFZp586G1122, Hzf, ZFP385
9	GPSM1	ENSG00000160360	ENST00000392945	protein_coding	KNOWN	CCDS6996	17858	1374	457	139221932	139236288	1	None	AGS3, DKFZP727I051
9	GPSM1	ENSG00000160360	ENST00000354753	protein_coding	KNOWN	None	17858	1959	652	139228905	139254057	1	None	AGS3, DKFZP727I051
9	GPSM1	ENSG00000160360	ENST00000392944	protein_coding	KNOWN	CCDS48056	17858	501	166	139249260	139252995	1	None	AGS3, DKFZP727I051
9	GPSM1	ENSG00000160360	ENST00000291775	protein_coding	KNOWN	CCDS48056	17858	501	166	139249982	139254053	1	None	AGS3, DKFZP727I051
9	GPSM1	ENSG00000160360	ENST00000440944	protein_coding	KNOWN	CCDS48055	17858	2028	675	139221932	139254057	1	None	AGS3, DKFZP727I051
9	GPSM1	ENSG00000160360	ENST00000429455	protein_coding	KNOWN	CCDS48056	17858	501	166	139247509	139254057	1	None	AGS3, DKFZP727I051
10	RN7SL220P	ENSG00000266467	ENST00000581978	misc_RNA	KNOWN	None	46236	None	None	69767477	69767774	-1	None	None
1	DENND2C	ENSG00000175984	ENST00000393276	protein_coding	KNOWN	CCDS875	24748	2616	871	115125469	115212732	-1	None	FLJ37099, DKFZp686G0351, DKFZp779P1149, dJ1156J9.1, RP5-1156J9.1
1	DENND2C	ENSG00000175984	ENST00000393274	protein_coding	KNOWN	CCDS58018	24748	2787	928	115125471	115212656	-1	None	FLJ37099, DKFZp686G0351, DKFZp779P1149, dJ1156J9.1, RP5-1156J9.1
1	DENND2C	ENSG00000175984	ENST00000495031	processed_transcript	KNOWN	None	24748	None	None	115125472	115131178	-1	None	FLJ37099, DKFZp686G0351, DKFZp779P1149, dJ1156J9.1, RP5-1156J9.1
1	DENND2C	ENSG00000175984	ENST00000481894	processed_transcript	KNOWN	None	24748	None	None	115129357	115167946	-1	None	FLJ37099, DKFZp686G0351, DKFZp779P1149, dJ1156J9.1, RP5-1156J9.1
1	DENND2C	ENSG00000175984	ENST00000493549	processed_transcript	KNOWN	None	24748	None	None	115168319	115213043	-1	None	FLJ37099, DKFZp686G0351, DKFZp779P1149, dJ1156J9.1, RP5-1156J9.1
1	DENND2C	ENSG00000175984	ENST00000393277	protein_coding	KNOWN	None	24748	2451	816	115128221	115212732	-1	None	FLJ37099, DKFZp686G0351, DKFZp779P1149, dJ1156J9.1, RP5-1156J9.1
X	DCAF12L2	ENSG00000198354	ENST00000360028	protein_coding	KNOWN	CCDS43991	32950	1392	463	125298514	125299934	-1	WDR40C	None
X	DCAF12L2	ENSG00000198354	ENST00000538699	protein_coding	KNOWN	CCDS43991	32950	1392	463	125298337	125300080	-1	WDR40C	None
22	SMARCB1	ENSG00000099956	ENST00000417137	protein_coding	NOVEL	None	11103	682	226	24129150	24145609	1	SNF5L1	BAF47, Ini1, Snr1, hSNFS, Sfh1p, RDT
22	SMARCB1	ENSG00000099956	ENST00000344921	protein_coding	NOVEL	None	11103	1185	394	24129150	24176703	1	SNF5L1	BAF47, Ini1, Snr1, hSNFS, Sfh1p, RDT
22	SMARCB1	ENSG00000099956	ENST00000263121	protein_coding	KNOWN	CCDS13817	11103	1158	385	24129161	24176703	1	SNF5L1	BAF47, Ini1, Snr1, hSNFS, Sfh1p, RDT
22	SMARCB1	ENSG00000099956	ENST00000407422	protein_coding	KNOWN	CCDS46671	11103	1131	376	24129181	24176703	1	SNF5L1	BAF47, Ini1, Snr1, hSNFS, Sfh1p, RDT
22	SMARCB1	ENSG00000099956	ENST00000407082	protein_coding	NOVEL	None	11103	1020	339	24129198	24176370	1	SNF5L1	BAF47, Ini1, Snr1, hSNFS, Sfh1p, RDT
22	SMARCB1	ENSG00000099956	ENST00000491967	processed_transcript	KNOWN	None	11103	None	None	24135788	24143647	1	SNF5L1	BAF47, Ini1, Snr1, hSNFS, Sfh1p, RDT
22	SMARCB1	ENSG00000099956	ENST00000477836	processed_transcript	KNOWN	None	11103	None	None	24158556	24167503	1	SNF5L1	BAF47, Ini1, Snr1, hSNFS, Sfh1p, RDT
19	TEAD2	ENSG00000074219	ENST00000598810	protein_coding	NOVEL	CCDS59406	11715	1356	451	49843852	49864752	-1	None	TEF-4, ETF, TEF4
19	TEAD2	ENSG00000074219	ENST00000593945	protein_coding	NOVEL	CCDS59406	11715	1356	451	49843852	49865639	-1	None	TEF-4, ETF, TEF4
19	TEAD2	ENSG00000074219	ENST00000601519	protein_coding	NOVEL	CCDS58671	11715	1353	450	49843852	49865664	-1	None	TEF-4, ETF, TEF4
19	TEAD2	ENSG00000074219	ENST00000311227	protein_coding	KNOWN	CCDS12761	11715	1344	447	49843852	49865714	-1	None	TEF-4, ETF, TEF4
19	TEAD2	ENSG00000074219	ENST00000377214	protein_coding	NOVEL	CCDS58671	11715	1353	450	49843857	49863695	-1	None	TEF-4, ETF, TEF4
19	TEAD2	ENSG00000074219	ENST00000539846	protein_coding	PUTATIVE	CCDS58670	11715	960	319	49844339	49865698	-1	None	TEF-4, ETF, TEF4
19	TEAD2	ENSG00000074219	ENST00000598823	nonsense_mediated_decay	KNOWN	None	11715	223	73	49850481	49860512	-1	None	TEF-4, ETF, TEF4
19	TEAD2	ENSG00000074219	ENST00000598397	processed_transcript	KNOWN	None	11715	None	None	49850490	49860513	-1	None	TEF-4, ETF, TEF4
19	TEAD2	ENSG00000074219	ENST00000596757	protein_coding	PUTATIVE	None	11715	349	115	49850614	49865698	-1	None	TEF-4, ETF, TEF4
19	TEAD2	ENSG00000074219	ENST00000595233	retained_intron	KNOWN	None	11715	None	None	49862562	49863114	-1	None	TEF-4, ETF, TEF4
5	LMAN2	ENSG00000169223	ENST00000303127	protein_coding	KNOWN	CCDS4417	16986	1071	356	176758563	176778853	-1	C5orf8	GP36B, VIP36
5	LMAN2	ENSG00000169223	ENST00000504071	retained_intron	KNOWN	None	16986	None	None	176758955	176761553	-1	C5orf8	GP36B, VIP36
5	LMAN2	ENSG00000169223	ENST00000515209	protein_coding	PUTATIVE	None	16986	978	325	176759032	176778648	-1	C5orf8	GP36B, VIP36
5	LMAN2	ENSG00000169223	ENST00000514458	protein_coding	PUTATIVE	None	16986	611	202	176759203	176778653	-1	C5orf8	GP36B, VIP36
5	LMAN2	ENSG00000169223	ENST00000502560	protein_coding	NOVEL	None	16986	864	287	176761310	176778660	-1	C5orf8	GP36B, VIP36
5	LMAN2	ENSG00000169223	ENST00000502721	retained_intron	KNOWN	None	16986	None	None	176763912	176765545	-1	C5orf8	GP36B, VIP36
5	LMAN2	ENSG00000169223	ENST00000513877	protein_coding	PUTATIVE	None	16986	575	190	176764139	176778523	-1	C5orf8	GP36B, VIP36
5	LMAN2	ENSG00000169223	ENST00000506310	processed_transcript	KNOWN	None	16986	None	None	176764436	176778668	-1	C5orf8	GP36B, VIP36
13	F10	ENSG00000126218	ENST00000409306	protein_coding	PUTATIVE	None	3528	1005	334	113777128	113803776	1	None	None
13	F10	ENSG00000126218	ENST00000375551	protein_coding	PUTATIVE	None	3528	999	332	113777128	113803841	1	None	None
13	F10	ENSG00000126218	ENST00000375559	protein_coding	KNOWN	CCDS9530	3528	1467	488	113777132	113803843	1	None	None
13	F10	ENSG00000126218	ENST00000477269	retained_intron	KNOWN	None	3528	None	None	113777133	113798532	1	None	None
13	F10	ENSG00000126218	ENST00000483537	processed_transcript	PUTATIVE	None	3528	None	None	113777150	113784620	1	None	None
13	F10	ENSG00000126218	ENST00000410083	nonsense_mediated_decay	KNOWN	None	3528	393	130	113777152	113801786	1	None	None
13	F10	ENSG00000126218	ENST00000498455	retained_intron	KNOWN	None	3528	None	None	113794834	113801765	1	None	None
15	GOLGA6B	ENSG00000215186	ENST00000421285	protein_coding	KNOWN	CCDS10245	32205	2082	693	72947079	72958735	1	None	None
15	GOLGA6B	ENSG00000215186	ENST00000568532	retained_intron	KNOWN	None	32205	None	None	72950899	72952512	1	None	None
19	ZNF208	ENSG00000160321	ENST00000599916	protein_coding	PUTATIVE	None	12999	384	127	22115760	22193751	-1	None	PMIDP, ZNF95
19	ZNF208	ENSG00000160321	ENST00000601773	protein_coding	PUTATIVE	None	12999	339	112	22122575	22193745	-1	None	PMIDP, ZNF95
19	ZNF208	ENSG00000160321	ENST00000397126	protein_coding	NOVEL	CCDS54240	12999	3843	1280	22153993	22193745	-1	None	PMIDP, ZNF95
19	ZNF208	ENSG00000160321	ENST00000599723	protein_coding	PUTATIVE	None	12999	230	75	22169530	22171710	-1	None	PMIDP, ZNF95
19	ZNF208	ENSG00000160321	ENST00000597040	protein_coding	PUTATIVE	None	12999	156	51	22169530	22193721	-1	None	PMIDP, ZNF95
19	ZNF208	ENSG00000160321	ENST00000601993	protein_coding	PUTATIVE	None	12999	115	37	22171627	22193745	-1	None	PMIDP, ZNF95
2	VRK2	ENSG00000028116	ENST00000435505	protein_coding	KNOWN	CCDS1859	12719	1527	508	58134786	58387002	1	None	None
2	VRK2	ENSG00000028116	ENST00000417641	protein_coding	PUTATIVE	CCDS46291	12719	1191	396	58134786	58387006	1	None	None
2	VRK2	ENSG00000028116	ENST00000478687	processed_transcript	KNOWN	None	12719	None	None	58134787	58260798	1	None	None
2	VRK2	ENSG00000028116	ENST00000463222	processed_transcript	PUTATIVE	None	12719	None	None	58134791	58260462	1	None	None
2	VRK2	ENSG00000028116	ENST00000340157	protein_coding	KNOWN	CCDS1859	12719	1527	508	58273826	58387006	1	None	None
2	VRK2	ENSG00000028116	ENST00000432057	nonsense_mediated_decay	KNOWN	None	12719	180	59	58273847	58386919	1	None	None
2	VRK2	ENSG00000028116	ENST00000440705	protein_coding	KNOWN	CCDS46292	12719	1458	485	58273850	58386919	1	None	None
2	VRK2	ENSG00000028116	ENST00000428021	protein_coding	PUTATIVE	None	12719	248	81	58274010	58312062	1	None	None
2	VRK2	ENSG00000028116	ENST00000412104	protein_coding	KNOWN	CCDS46291	12719	1191	396	58273729	58387055	1	None	None
8	ANGPT1	ENSG00000154188	ENST00000517746	protein_coding	KNOWN	CCDS6306	484	1497	498	108261721	108510238	-1	None	KIAA0003, Ang1
8	ANGPT1	ENSG00000154188	ENST00000297450	protein_coding	NOVEL	CCDS56551	484	1494	497	108261721	108510283	-1	None	KIAA0003, Ang1
8	ANGPT1	ENSG00000154188	ENST00000520734	protein_coding	PUTATIVE	None	484	897	298	108263740	108348750	-1	None	KIAA0003, Ang1
8	ANGPT1	ENSG00000154188	ENST00000520052	protein_coding	PUTATIVE	None	484	894	297	108263740	108348750	-1	None	KIAA0003, Ang1
8	ANGPT1	ENSG00000154188	ENST00000518386	processed_transcript	KNOWN	None	484	None	None	108263755	108334217	-1	None	KIAA0003, Ang1
8	ANGPT1	ENSG00000154188	ENST00000521950	retained_intron	KNOWN	None	484	None	None	108296225	108334221	-1	None	KIAA0003, Ang1
8	ANGPT1	ENSG00000154188	ENST00000522400	retained_intron	KNOWN	None	484	None	None	108296747	108307769	-1	None	KIAA0003, Ang1
8	ANGPT1	ENSG00000154188	ENST00000520033	protein_coding	PUTATIVE	None	484	91	29	108359211	108507223	-1	None	KIAA0003, Ang1
13	ESD	ENSG00000139684	ENST00000378720	protein_coding	KNOWN	CCDS9404	3465	849	282	47345391	47371367	-1	None	None
13	ESD	ENSG00000139684	ENST00000378697	protein_coding	NOVEL	None	3465	762	253	47345470	47371268	-1	None	None
13	ESD	ENSG00000139684	ENST00000412582	protein_coding	PUTATIVE	None	3465	692	229	47349518	47358485	-1	None	None
13	ESD	ENSG00000139684	ENST00000471867	protein_coding	PUTATIVE	None	3465	361	119	47349521	47355703	-1	None	None
13	ESD	ENSG00000139684	ENST00000495654	processed_transcript	KNOWN	None	3465	None	None	47354089	47367573	-1	None	None
19	B3GNT8	ENSG00000177191	ENST00000321702	protein_coding	KNOWN	CCDS12582	24139	1194	397	41931264	41934635	-1	B3GALT7	BGALT15, beta3Gn-T8
19	B3GNT8	ENSG00000177191	ENST00000601616	processed_transcript	KNOWN	None	24139	None	None	41931316	41933463	-1	B3GALT7	BGALT15, beta3Gn-T8
19	B3GNT8	ENSG00000177191	ENST00000601379	processed_transcript	KNOWN	None	24139	None	None	41931961	41933267	-1	B3GALT7	BGALT15, beta3Gn-T8
11	WEE1	ENSG00000166483	ENST00000450114	protein_coding	KNOWN	CCDS7800	12761	1941	646	9595228	9610754	1	None	None
11	WEE1	ENSG00000166483	ENST00000299613	protein_coding	KNOWN	CCDS44536	12761	1299	432	9596234	9611531	1	None	None
11	WEE1	ENSG00000166483	ENST00000524549	retained_intron	KNOWN	None	12761	None	None	9597037	9603034	1	None	None
11	WEE1	ENSG00000166483	ENST00000524612	protein_coding	PUTATIVE	None	12761	487	161	9599332	9608128	1	None	None
11	WEE1	ENSG00000166483	ENST00000530712	protein_coding	PUTATIVE	None	12761	644	213	9602774	9610034	1	None	None
11	WEE1	ENSG00000166483	ENST00000530175	nonsense_mediated_decay	KNOWN	None	12761	437	144	9603091	9610248	1	None	None
11	WEE1	ENSG00000166483	ENST00000532275	retained_intron	KNOWN	None	12761	None	None	9606730	9610003	1	None	None
11	WEE1	ENSG00000166483	ENST00000527848	protein_coding	PUTATIVE	None	12761	300	99	9608261	9615004	1	None	None
X	DCAF12L1	ENSG00000198889	ENST00000371126	protein_coding	KNOWN	CCDS14610	29395	1392	463	125683369	125686834	-1	WDR40B	KIAA1892L
10	POU5F1P5	ENSG00000236375	ENST00000445059	processed_pseudogene	KNOWN	None	33311	None	None	69769962	69770619	-1	None	Oct4-pg5
X	FLNA	ENSG00000196924	ENST00000420627	nonsense_mediated_decay	KNOWN	None	3754	1815	604	153576892	153599571	-1	FLN1, FLN, OPD2, OPD1	ABP-280
X	FLNA	ENSG00000196924	ENST00000360319	protein_coding	NOVEL	CCDS44021	3754	7920	2639	153576894	153599651	-1	FLN1, FLN, OPD2, OPD1	ABP-280
X	FLNA	ENSG00000196924	ENST00000498411	processed_transcript	PUTATIVE	None	3754	None	None	153576898	153581251	-1	FLN1, FLN, OPD2, OPD1	ABP-280
X	FLNA	ENSG00000196924	ENST00000490936	retained_intron	KNOWN	None	3754	None	None	153577016	153588006	-1	FLN1, FLN, OPD2, OPD1	ABP-280
X	FLNA	ENSG00000196924	ENST00000369850	protein_coding	KNOWN	CCDS48194	3754	7944	2647	153577016	153602994	-1	FLN1, FLN, OPD2, OPD1	ABP-280
X	FLNA	ENSG00000196924	ENST00000344736	protein_coding	NOVEL	None	3754	7824	2607	153577152	153599656	-1	FLN1, FLN, OPD2, OPD1	ABP-280
X	FLNA	ENSG00000196924	ENST00000498491	processed_transcript	KNOWN	None	3754	None	None	153577288	153579571	-1	FLN1, FLN, OPD2, OPD1	ABP-280
X	FLNA	ENSG00000196924	ENST00000462590	retained_intron	KNOWN	None	3754	None	None	153577290	153578723	-1	FLN1, FLN, OPD2, OPD1	ABP-280
X	FLNA	ENSG00000196924	ENST00000444578	protein_coding	NOVEL	None	3754	843	280	153579949	153581537	-1	FLN1, FLN, OPD2, OPD1	ABP-280
X	FLNA	ENSG00000196924	ENST00000474358	retained_intron	KNOWN	None	3754	None	None	153580096	153581151	-1	FLN1, FLN, OPD2, OPD1	ABP-280
X	FLNA	ENSG00000196924	ENST00000466325	retained_intron	KNOWN	None	3754	None	None	153580906	153581824	-1	FLN1, FLN, OPD2, OPD1	ABP-280
X	FLNA	ENSG00000196924	ENST00000415241	nonsense_mediated_decay	KNOWN	None	3754	272	89	153580921	153581966	-1	FLN1, FLN, OPD2, OPD1	ABP-280
X	FLNA	ENSG00000196924	ENST00000438732	protein_coding	NOVEL	None	3754	696	231	153581664	153583257	-1	FLN1, FLN, OPD2, OPD1	ABP-280
X	FLNA	ENSG00000196924	ENST00000474072	retained_intron	KNOWN	None	3754	None	None	153582398	153583048	-1	FLN1, FLN, OPD2, OPD1	ABP-280
X	FLNA	ENSG00000196924	ENST00000466319	processed_transcript	PUTATIVE	None	3754	None	None	153585909	153587032	-1	FLN1, FLN, OPD2, OPD1	ABP-280
X	FLNA	ENSG00000196924	ENST00000465144	retained_intron	KNOWN	None	3754	None	None	153593000	153593575	-1	FLN1, FLN, OPD2, OPD1	ABP-280
X	FLNA	ENSG00000196924	ENST00000422373	protein_coding	KNOWN	CCDS44021	3754	7920	2639	153576900	153603006	-1	FLN1, FLN, OPD2, OPD1	ABP-280
X	FLNA	ENSG00000196924	ENST00000369856	protein_coding	KNOWN	None	3754	2343	780	153577024	153586605	-1	FLN1, FLN, OPD2, OPD1	ABP-280
13	DCT	ENSG00000080166	ENST00000377028	protein_coding	KNOWN	CCDS9470	2709	1560	519	95089558	95131923	-1	TYRP2	None
13	DCT	ENSG00000080166	ENST00000483392	nonsense_mediated_decay	KNOWN	None	2709	702	233	95091741	95121024	-1	TYRP2	None
13	DCT	ENSG00000080166	ENST00000490854	processed_transcript	KNOWN	None	2709	None	None	95114375	95120209	-1	TYRP2	None
13	DCT	ENSG00000080166	ENST00000472871	retained_intron	KNOWN	None	2709	None	None	95117711	95131923	-1	TYRP2	None
13	DCT	ENSG00000080166	ENST00000446125	protein_coding	KNOWN	CCDS45060	2709	1659	552	95091843	95131936	-1	TYRP2	None
HSCHR6_MHC_MCF	TUBB	ENSG00000229684	ENST00000422650	protein_coding	KNOWN	None	20778	1335	444	30766464	30771689	1	None	OK/SW-cl.56, MGC16435, M40, Tubb5
HSCHR6_MHC_MCF	TUBB	ENSG00000229684	ENST00000454454	protein_coding	KNOWN	None	20778	1119	372	30767837	30771689	1	None	OK/SW-cl.56, MGC16435, M40, Tubb5
HSCHR6_MHC_MCF	TUBB	ENSG00000229684	ENST00000412136	protein_coding	KNOWN	None	20778	1281	426	30767930	30771689	1	None	OK/SW-cl.56, MGC16435, M40, Tubb5
HSCHR6_MHC_MCF	TUBB	ENSG00000229684	ENST00000446385	protein_coding	KNOWN	None	20778	1119	372	30767962	30771689	1	None	OK/SW-cl.56, MGC16435, M40, Tubb5
HSCHR6_MHC_MCF	TUBB	ENSG00000229684	ENST00000547695	protein_coding	KNOWN	None	20778	1305	434	30766620	30770791	1	None	OK/SW-cl.56, MGC16435, M40, Tubb5
10	RN7SKP202	ENSG00000222371	ENST00000410439	misc_RNA	KNOWN	None	45926	None	None	69917836	69918165	1	None	None
10	None	ENSG00000233590	ENST00000444086	lincRNA	KNOWN	None	None	None	None	69993008	70002136	-1	None	None
10	None	ENSG00000233590	ENST00000429634	lincRNA	KNOWN	None	None	None	None	69993010	69995190	-1	None	None
1	CACNA1S	ENSG00000081248	ENST00000367338	protein_coding	NOVEL	None	1397	5565	1854	201008642	201081579	-1	HOKPP, MHS5, CACNL1A3	Cav1.1, hypoPP
1	CACNA1S	ENSG00000081248	ENST00000362061	protein_coding	KNOWN	CCDS1407	1397	5622	1873	201008642	201081694	-1	HOKPP, MHS5, CACNL1A3	Cav1.1, hypoPP
10	KRT19P4	ENSG00000234102	ENST00000443208	processed_pseudogene	KNOWN	None	45073	None	None	70020314	70021256	1	None	None
11	TMEM216	ENSG00000187049	ENST00000515837	protein_coding	KNOWN	CCDS53640	25018	438	145	61159159	61166320	1	CORS2, MKS2	MGC13379, HSPC244, JBTS2
11	TMEM216	ENSG00000187049	ENST00000398979	protein_coding	PUTATIVE	None	25018	255	84	61159865	61165965	1	CORS2, MKS2	MGC13379, HSPC244, JBTS2
11	TMEM216	ENSG00000187049	ENST00000544795	retained_intron	KNOWN	None	25018	None	None	61160102	61165447	1	CORS2, MKS2	MGC13379, HSPC244, JBTS2
11	TMEM216	ENSG00000187049	ENST00000541473	retained_intron	KNOWN	None	25018	None	None	61160104	61161773	1	CORS2, MKS2	MGC13379, HSPC244, JBTS2
11	TMEM216	ENSG00000187049	ENST00000334888	protein_coding	KNOWN	None	25018	447	148	61159832	61166335	1	CORS2, MKS2	MGC13379, HSPC244, JBTS2
10	None	ENSG00000234806	ENST00000415623	processed_pseudogene	KNOWN	None	None	None	None	70184317	70184754	1	None	None
2	SLC4A10	ENSG00000144290	ENST00000415876	protein_coding	KNOWN	CCDS46438	13811	3267	1088	162480848	162841792	1	None	NBCn2, NCBE
2	SLC4A10	ENSG00000144290	ENST00000493021	processed_transcript	KNOWN	None	13811	None	None	162480910	162757670	1	None	NBCn2, NCBE
2	SLC4A10	ENSG00000144290	ENST00000461456	retained_intron	KNOWN	None	13811	None	None	162480928	162730431	1	None	NBCn2, NCBE
2	SLC4A10	ENSG00000144290	ENST00000272716	protein_coding	KNOWN	None	13811	3321	1106	162480936	162839755	1	None	NBCn2, NCBE
2	SLC4A10	ENSG00000144290	ENST00000446997	protein_coding	KNOWN	CCDS54411	13811	3357	1118	162480936	162841763	1	None	NBCn2, NCBE
2	SLC4A10	ENSG00000144290	ENST00000481721	processed_transcript	KNOWN	None	13811	None	None	162480945	162696386	1	None	NBCn2, NCBE
2	SLC4A10	ENSG00000144290	ENST00000446228	nonsense_mediated_decay	KNOWN	None	13811	1410	469	162480971	162839869	1	None	NBCn2, NCBE
2	SLC4A10	ENSG00000144290	ENST00000421911	protein_coding	KNOWN	None	13811	3165	1054	162480971	162839869	1	None	NBCn2, NCBE
2	SLC4A10	ENSG00000144290	ENST00000535165	protein_coding	KNOWN	None	13811	1227	408	162480908	162761339	1	None	NBCn2, NCBE
2	SLC4A10	ENSG00000144290	ENST00000375514	protein_coding	KNOWN	CCDS54412	13811	3300	1099	162480845	162841785	1	None	NBCn2, NCBE
22	None	ENSG00000248751	ENST00000330168	nonsense_mediated_decay	KNOWN	None	None	732	243	30681227	30691832	-1	None	None
22	None	ENSG00000248751	ENST00000434987	nonsense_mediated_decay	KNOWN	None	None	699	232	30681227	30695465	-1	None	None
22	None	ENSG00000248751	ENST00000434291	protein_coding	PUTATIVE	None	None	1443	480	30681234	30695471	-1	None	None
22	None	ENSG00000248751	ENST00000418047	nonsense_mediated_decay	KNOWN	None	None	702	233	30681236	30695471	-1	None	None
22	None	ENSG00000248751	ENST00000447976	nonsense_mediated_decay	KNOWN	None	None	702	233	30681236	30695471	-1	None	None
10	RNA5SP319	ENSG00000199638	ENST00000362768	rRNA	KNOWN	None	43219	None	None	70221164	70221282	1	RN5S319	None
10	LINC00849	ENSG00000234635	ENST00000439904	lincRNA	KNOWN	None	45077	None	None	70237756	70240521	-1	None	None
1	AMPD1	ENSG00000116748	ENST00000520113	protein_coding	KNOWN	CCDS876	468	2343	780	115215719	115238207	-1	None	MAD, MADA
1	AMPD1	ENSG00000116748	ENST00000369538	protein_coding	NOVEL	CCDS53349	468	2331	776	115215722	115238239	-1	None	MAD, MADA
1	AMPD1	ENSG00000116748	ENST00000485564	retained_intron	KNOWN	None	468	None	None	115222310	115229620	-1	None	MAD, MADA
1	AMPD1	ENSG00000116748	ENST00000353928	protein_coding	KNOWN	None	468	2244	747	115215735	115238239	-1	None	MAD, MADA
5	GRIA1	ENSG00000155511	ENST00000481559	retained_intron	KNOWN	None	4571	None	None	152869175	153085732	1	GLUR1	GluA1, GLURA
5	GRIA1	ENSG00000155511	ENST00000520353	processed_transcript	KNOWN	None	4571	None	None	152869828	152873625	1	GLUR1	GluA1, GLURA
5	GRIA1	ENSG00000155511	ENST00000518862	processed_transcript	KNOWN	None	4571	None	None	152870042	153030067	1	GLUR1	GluA1, GLURA
5	GRIA1	ENSG00000155511	ENST00000285900	protein_coding	KNOWN	CCDS4322	4571	2721	906	152870106	153193429	1	GLUR1	GluA1, GLURA
5	GRIA1	ENSG00000155511	ENST00000474198	retained_intron	KNOWN	None	4571	None	None	152870204	152873894	1	GLUR1	GluA1, GLURA
5	GRIA1	ENSG00000155511	ENST00000518142	protein_coding	PUTATIVE	CCDS58986	4571	2481	826	152870215	153190831	1	GLUR1	GluA1, GLURA
5	GRIA1	ENSG00000155511	ENST00000340592	protein_coding	KNOWN	CCDS47318	4571	2721	906	152870376	153191161	1	GLUR1	GluA1, GLURA
5	GRIA1	ENSG00000155511	ENST00000517469	processed_transcript	KNOWN	None	4571	None	None	152870757	152937655	1	GLUR1	GluA1, GLURA
5	GRIA1	ENSG00000155511	ENST00000521843	protein_coding	KNOWN	CCDS58989	4571	2514	837	152870857	153191179	1	GLUR1	GluA1, GLURA
5	GRIA1	ENSG00000155511	ENST00000448073	protein_coding	KNOWN	CCDS58988	4571	2751	916	152871732	153190832	1	GLUR1	GluA1, GLURA
5	GRIA1	ENSG00000155511	ENST00000518783	protein_coding	KNOWN	CCDS58987	4571	2751	916	152871732	153193240	1	GLUR1	GluA1, GLURA
5	GRIA1	ENSG00000155511	ENST00000492291	processed_transcript	PUTATIVE	None	4571	None	None	152873550	152905082	1	GLUR1	GluA1, GLURA
5	GRIA1	ENSG00000155511	ENST00000520966	processed_transcript	KNOWN	None	4571	None	None	152952788	153035425	1	GLUR1	GluA1, GLURA
16	STX4	ENSG00000103496	ENST00000457779	protein_coding	PUTATIVE	None	11439	526	174	31044210	31046353	1	STX4A	p35-2
16	STX4	ENSG00000103496	ENST00000493902	processed_transcript	KNOWN	None	11439	None	None	31044416	31051450	1	STX4A	p35-2
16	STX4	ENSG00000103496	ENST00000394998	protein_coding	PUTATIVE	None	11439	888	295	31044416	31051484	1	STX4A	p35-2
16	STX4	ENSG00000103496	ENST00000313843	protein_coding	KNOWN	CCDS10700	11439	894	297	31044812	31051489	1	STX4A	p35-2
16	STX4	ENSG00000103496	ENST00000487411	retained_intron	KNOWN	None	11439	None	None	31044867	31051124	1	STX4A	p35-2
16	STX4	ENSG00000103496	ENST00000460668	nonsense_mediated_decay	KNOWN	None	11439	195	64	31044868	31049508	1	STX4A	p35-2
16	STX4	ENSG00000103496	ENST00000496977	nonsense_mediated_decay	KNOWN	None	11439	195	64	31044868	31049968	1	STX4A	p35-2
16	STX4	ENSG00000103496	ENST00000566353	retained_intron	KNOWN	None	11439	None	None	31044878	31045839	1	STX4A	p35-2
16	STX4	ENSG00000103496	ENST00000461455	retained_intron	KNOWN	None	11439	None	None	31044909	31046198	1	STX4A	p35-2
16	STX4	ENSG00000103496	ENST00000565483	retained_intron	KNOWN	None	11439	None	None	31044927	31046174	1	STX4A	p35-2
16	STX4	ENSG00000103496	ENST00000478150	retained_intron	KNOWN	None	11439	None	None	31045107	31045828	1	STX4A	p35-2
16	STX4	ENSG00000103496	ENST00000486660	retained_intron	KNOWN	None	11439	None	None	31049831	31051333	1	STX4A	p35-2
16	STX4	ENSG00000103496	ENST00000475862	retained_intron	KNOWN	None	11439	None	None	31049922	31051489	1	STX4A	p35-2
16	STX4	ENSG00000103496	ENST00000468583	retained_intron	KNOWN	None	11439	None	None	31049940	31051489	1	STX4A	p35-2
16	STX4	ENSG00000103496	ENST00000503629	processed_transcript	KNOWN	None	11439	None	None	31050401	31054296	1	STX4A	p35-2
16	STX4	ENSG00000103496	ENST00000564368	processed_transcript	KNOWN	None	11439	None	None	31050641	31051468	1	STX4A	p35-2
10	None	ENSG00000226493	ENST00000414397	processed_pseudogene	KNOWN	None	None	None	None	70259289	70259725	1	None	None
21	PPIAP1	ENSG00000215351	ENST00000448832	processed_pseudogene	KNOWN	None	9254	None	None	22200445	22200940	-1	PPIAP	None
8	RBM12B	ENSG00000183808	ENST00000399300	protein_coding	KNOWN	CCDS43755	32310	3006	1001	94741584	94753245	-1	None	None
8	RBM12B	ENSG00000183808	ENST00000517700	protein_coding	KNOWN	None	32310	2646	881	94742492	94753245	-1	None	None
8	RBM12B	ENSG00000183808	ENST00000520961	processed_transcript	PUTATIVE	None	32310	None	None	94742861	94751419	-1	None	None
8	RBM12B	ENSG00000183808	ENST00000519109	protein_coding	KNOWN	None	32310	448	148	94748191	94752946	-1	None	None
8	RBM12B	ENSG00000183808	ENST00000518597	protein_coding	KNOWN	None	32310	430	142	94748209	94753229	-1	None	None
8	RBM12B	ENSG00000183808	ENST00000520560	protein_coding	KNOWN	None	32310	367	121	94748272	94753184	-1	None	None
8	RBM12B	ENSG00000183808	ENST00000521947	protein_coding	KNOWN	None	32310	248	81	94748391	94753217	-1	None	None
21	None	ENSG00000226771	ENST00000425058	antisense	KNOWN	None	None	None	None	22595616	22599150	-1	None	None
12	CPSF6	ENSG00000111605	ENST00000435070	protein_coding	KNOWN	CCDS8988	13871	1656	551	69633317	69668138	1	None	CFIM, HPBRII-4, HPBRII-7, CFIM68
12	CPSF6	ENSG00000111605	ENST00000550075	nonsense_mediated_decay	KNOWN	None	13871	324	107	69633352	69646894	1	None	CFIM, HPBRII-4, HPBRII-7, CFIM68
12	CPSF6	ENSG00000111605	ENST00000456847	protein_coding	KNOWN	None	13871	1437	478	69633380	69663719	1	None	CFIM, HPBRII-4, HPBRII-7, CFIM68
12	CPSF6	ENSG00000111605	ENST00000266679	protein_coding	KNOWN	None	13871	1767	588	69633396	69663719	1	None	CFIM, HPBRII-4, HPBRII-7, CFIM68
12	CPSF6	ENSG00000111605	ENST00000550987	processed_transcript	KNOWN	None	13871	None	None	69633400	69648940	1	None	CFIM, HPBRII-4, HPBRII-7, CFIM68
12	CPSF6	ENSG00000111605	ENST00000551516	protein_coding	PUTATIVE	None	13871	171	56	69633422	69663353	1	None	CFIM, HPBRII-4, HPBRII-7, CFIM68
12	CPSF6	ENSG00000111605	ENST00000547486	retained_intron	KNOWN	None	13871	None	None	69644955	69651969	1	None	CFIM, HPBRII-4, HPBRII-7, CFIM68
21	None	ENSG00000221210	ENST00000408283	miRNA	NOVEL	None	None	None	None	22770068	22770146	-1	None	None
21	None	ENSG00000234730	ENST00000428205	lincRNA	KNOWN	None	None	None	None	22939084	22987758	1	None	None
21	None	ENSG00000198434	ENST00000358086	pseudogene	NOVEL	None	None	None	None	23006773	23007049	-1	None	None
HSCHR6_MHC_MANN	NFKBIL1	ENSG00000227565	ENST00000453377	protein_coding	KNOWN	None	7800	1077	358	31554142	31566099	1	NFKBIL	IKBL
HSCHR6_MHC_MANN	NFKBIL1	ENSG00000227565	ENST00000432160	protein_coding	KNOWN	None	7800	1146	381	31554852	31566099	1	NFKBIL	IKBL
HSCHR6_MHC_MANN	NFKBIL1	ENSG00000227565	ENST00000451911	protein_coding	KNOWN	None	7800	1101	366	31554884	31566099	1	NFKBIL	IKBL
HSCHR6_MHC_MANN	NFKBIL1	ENSG00000227565	ENST00000480619	processed_transcript	KNOWN	None	7800	None	None	31554911	31564975	1	NFKBIL	IKBL
HSCHR6_MHC_MANN	NFKBIL1	ENSG00000227565	ENST00000463565	retained_intron	KNOWN	None	7800	None	None	31554932	31565229	1	NFKBIL	IKBL
21	None	ENSG00000237527	ENST00000416182	lincRNA	KNOWN	None	None	None	None	23027359	23058649	-1	None	None
22	CELSR1	ENSG00000075275	ENST00000262738	protein_coding	KNOWN	CCDS14076	1850	9045	3014	46756731	46933067	-1	None	ME2, HFMI2, FMI2, CDHF9
22	CELSR1	ENSG00000075275	ENST00000473624	retained_intron	KNOWN	None	1850	None	None	46757071	46761277	-1	None	ME2, HFMI2, FMI2, CDHF9
22	CELSR1	ENSG00000075275	ENST00000468025	processed_transcript	KNOWN	None	1850	None	None	46768810	46773521	-1	None	ME2, HFMI2, FMI2, CDHF9
22	CELSR1	ENSG00000075275	ENST00000454637	protein_coding	PUTATIVE	None	1850	2318	771	46858677	46931191	-1	None	ME2, HFMI2, FMI2, CDHF9
22	CELSR1	ENSG00000075275	ENST00000497509	processed_transcript	KNOWN	None	1850	None	None	46926205	46930097	-1	None	ME2, HFMI2, FMI2, CDHF9
22	CELSR1	ENSG00000075275	ENST00000395964	protein_coding	KNOWN	None	1850	4194	1397	46844455	46933067	-1	None	ME2, HFMI2, FMI2, CDHF9
21	LINC00317	ENSG00000238265	ENST00000419069	lincRNA	KNOWN	None	23126	None	None	23095613	23109639	-1	C21orf117, NCRNA00317	PRED89
15	FBN1	ENSG00000166147	ENST00000316623	protein_coding	KNOWN	CCDS32232	3603	8616	2871	48700503	48938046	-1	FBN, MFS1, WMS	MASS, OCTD, SGS
15	FBN1	ENSG00000166147	ENST00000559133	nonsense_mediated_decay	KNOWN	None	3603	2561	852	48702271	48760188	-1	FBN, MFS1, WMS	MASS, OCTD, SGS
15	FBN1	ENSG00000166147	ENST00000561429	processed_transcript	KNOWN	None	3603	None	None	48703398	48708913	-1	FBN, MFS1, WMS	MASS, OCTD, SGS
15	FBN1	ENSG00000166147	ENST00000560720	retained_intron	KNOWN	None	3603	None	None	48720141	48725088	-1	FBN, MFS1, WMS	MASS, OCTD, SGS
15	FBN1	ENSG00000166147	ENST00000537463	nonsense_mediated_decay	KNOWN	None	3603	909	302	48722961	48937906	-1	FBN, MFS1, WMS	MASS, OCTD, SGS
15	FBN1	ENSG00000166147	ENST00000560820	retained_intron	KNOWN	None	3603	None	None	48729819	48737609	-1	FBN, MFS1, WMS	MASS, OCTD, SGS
15	FBN1	ENSG00000166147	ENST00000560355	protein_coding	PUTATIVE	None	3603	168	55	48933186	48937918	-1	FBN, MFS1, WMS	MASS, OCTD, SGS
15	FBN1	ENSG00000166147	ENST00000558230	processed_transcript	PUTATIVE	None	3603	None	None	48935044	48937029	-1	FBN, MFS1, WMS	MASS, OCTD, SGS
21	None	ENSG00000233997	ENST00000425979	lincRNA	KNOWN	None	None	None	None	23119293	23169735	1	None	None
21	None	ENSG00000233997	ENST00000430060	lincRNA	KNOWN	None	None	None	None	23119305	23169735	1	None	None
17	PPP1R1B	ENSG00000131771	ENST00000580825	protein_coding	KNOWN	CCDS11339	9287	615	204	37782993	37792253	1	None	DARPP-32, FLJ20940
17	PPP1R1B	ENSG00000131771	ENST00000254079	protein_coding	KNOWN	CCDS11339	9287	615	204	37783177	37792879	1	None	DARPP-32, FLJ20940
17	PPP1R1B	ENSG00000131771	ENST00000582680	protein_coding	NOVEL	None	9287	434	143	37783205	37790337	1	None	DARPP-32, FLJ20940
17	PPP1R1B	ENSG00000131771	ENST00000579000	protein_coding	NOVEL	None	9287	516	171	37783453	37792875	1	None	DARPP-32, FLJ20940
17	PPP1R1B	ENSG00000131771	ENST00000394265	protein_coding	KNOWN	CCDS11340	9287	507	168	37784751	37792878	1	None	DARPP-32, FLJ20940
17	PPP1R1B	ENSG00000131771	ENST00000394267	protein_coding	KNOWN	CCDS11340	9287	507	168	37784751	37792879	1	None	DARPP-32, FLJ20940
17	PPP1R1B	ENSG00000131771	ENST00000580772	retained_intron	KNOWN	None	9287	None	None	37784779	37786705	1	None	DARPP-32, FLJ20940
17	PPP1R1B	ENSG00000131771	ENST00000583446	retained_intron	KNOWN	None	9287	None	None	37785627	37791974	1	None	DARPP-32, FLJ20940
17	PPP1R1B	ENSG00000131771	ENST00000492037	retained_intron	KNOWN	None	9287	None	None	37785658	37792877	1	None	DARPP-32, FLJ20940
17	PPP1R1B	ENSG00000131771	ENST00000580029	retained_intron	KNOWN	None	9287	None	None	37788391	37792878	1	None	DARPP-32, FLJ20940
19	ATP5SL	ENSG00000105341	ENST00000438807	protein_coding	NOVEL	CCDS59389	25496	477	158	41937223	41945815	-1	None	FLJ10241
19	ATP5SL	ENSG00000105341	ENST00000589503	retained_intron	KNOWN	None	25496	None	None	41937224	41945442	-1	None	FLJ10241
19	ATP5SL	ENSG00000105341	ENST00000221943	protein_coding	KNOWN	CCDS33032	25496	774	257	41937224	41945810	-1	None	FLJ10241
19	ATP5SL	ENSG00000105341	ENST00000592922	protein_coding	KNOWN	CCDS54271	25496	693	230	41937244	41945841	-1	None	FLJ10241
19	ATP5SL	ENSG00000105341	ENST00000594660	protein_coding	PUTATIVE	None	25496	451	149	41937654	41942344	-1	None	FLJ10241
19	ATP5SL	ENSG00000105341	ENST00000301183	protein_coding	KNOWN	CCDS54269	25496	576	191	41937661	41945444	-1	None	FLJ10241
19	ATP5SL	ENSG00000105341	ENST00000589970	protein_coding	NOVEL	CCDS59390	25496	558	185	41937777	41945813	-1	None	FLJ10241
19	ATP5SL	ENSG00000105341	ENST00000417807	protein_coding	KNOWN	CCDS54270	25496	792	263	41937893	41945444	-1	None	FLJ10241
19	ATP5SL	ENSG00000105341	ENST00000590641	protein_coding	PUTATIVE	None	25496	537	178	41938751	41945481	-1	None	FLJ10241
19	ATP5SL	ENSG00000105341	ENST00000594339	nonsense_mediated_decay	KNOWN	None	25496	69	22	41938759	41945442	-1	None	FLJ10241
19	ATP5SL	ENSG00000105341	ENST00000597457	protein_coding	PUTATIVE	None	25496	366	121	41938834	41945810	-1	None	FLJ10241
19	ATP5SL	ENSG00000105341	ENST00000595425	protein_coding	PUTATIVE	None	25496	519	172	41939129	41945813	-1	None	FLJ10241
19	ATP5SL	ENSG00000105341	ENST00000589102	protein_coding	NOVEL	None	25496	530	175	41939189	41945815	-1	None	FLJ10241
19	ATP5SL	ENSG00000105341	ENST00000595407	retained_intron	KNOWN	None	25496	None	None	41939345	41945801	-1	None	FLJ10241
19	ATP5SL	ENSG00000105341	ENST00000586786	protein_coding	PUTATIVE	None	25496	304	100	41939532	41946622	-1	None	FLJ10241
19	ATP5SL	ENSG00000105341	ENST00000597608	retained_intron	KNOWN	None	25496	None	None	41944871	41946597	-1	None	FLJ10241
21	None	ENSG00000227075	ENST00000452500	lincRNA	KNOWN	None	None	None	None	23305635	23348000	-1	None	None
13	PROZ	ENSG00000126231	ENST00000375547	protein_coding	KNOWN	CCDS9531	9460	1203	400	113812968	113826694	1	None	PZ
13	PROZ	ENSG00000126231	ENST00000342783	protein_coding	NOVEL	CCDS58300	9460	1269	422	113812968	113826694	1	None	PZ
13	PROZ	ENSG00000126231	ENST00000493630	processed_transcript	KNOWN	None	9460	None	None	113818833	113824828	1	None	PZ
21	None	ENSG00000233215	ENST00000416327	lincRNA	KNOWN	None	None	None	None	23381263	23390475	-1	None	None
21	None	ENSG00000233215	ENST00000420255	lincRNA	KNOWN	None	None	None	None	23381477	23470778	-1	None	None
21	None	ENSG00000233215	ENST00000419467	lincRNA	KNOWN	None	None	None	None	23413493	23426688	-1	None	None
21	LINC00308	ENSG00000184856	ENST00000419431	lincRNA	KNOWN	None	16023	None	None	23470936	23488847	1	C21orf74, NCRNA00308	PRED16
12	KRT5	ENSG00000186081	ENST00000252242	protein_coding	KNOWN	CCDS8830	6442	1773	590	52908359	52914471	-1	EBS2	KRT5A
12	KRT5	ENSG00000186081	ENST00000552952	retained_intron	KNOWN	None	6442	None	None	52908780	52909980	-1	EBS2	KRT5A
12	KRT5	ENSG00000186081	ENST00000549511	retained_intron	KNOWN	None	6442	None	None	52908897	52911672	-1	EBS2	KRT5A
12	KRT5	ENSG00000186081	ENST00000548409	protein_coding	PUTATIVE	None	6442	604	200	52909242	52911729	-1	EBS2	KRT5A
12	KRT5	ENSG00000186081	ENST00000552629	retained_intron	KNOWN	None	6442	None	None	52909912	52914178	-1	EBS2	KRT5A
12	KRT5	ENSG00000186081	ENST00000547890	retained_intron	KNOWN	None	6442	None	None	52910474	52911736	-1	EBS2	KRT5A
12	KRT5	ENSG00000186081	ENST00000551013	retained_intron	KNOWN	None	6442	None	None	52910941	52913401	-1	EBS2	KRT5A
12	KRT5	ENSG00000186081	ENST00000551188	protein_coding	NOVEL	None	6442	587	194	52910965	52912901	-1	EBS2	KRT5A
12	KRT5	ENSG00000186081	ENST00000549420	protein_coding	NOVEL	None	6442	536	177	52911742	52914155	-1	EBS2	KRT5A
12	KRT5	ENSG00000186081	ENST00000551275	protein_coding	NOVEL	None	6442	441	146	52913535	52914178	-1	EBS2	KRT5A
12	KRT5	ENSG00000186081	ENST00000546577	protein_coding	KNOWN	None	6442	396	131	52913685	52914314	-1	EBS2	KRT5A
X	CXorf64	ENSG00000183631	ENST00000371125	protein_coding	KNOWN	CCDS48163	34498	897	298	125953747	125955769	1	None	None
21	None	ENSG00000234340	ENST00000433524	processed_pseudogene	KNOWN	None	None	None	None	23507018	23508403	-1	None	None
19	ZNF257	ENSG00000197134	ENST00000435820	nonsense_mediated_decay	KNOWN	None	13498	108	35	22235254	22273905	1	None	BMZF-4
19	ZNF257	ENSG00000197134	ENST00000594363	protein_coding	PUTATIVE	None	13498	408	135	22235286	22257355	1	None	BMZF-4
19	ZNF257	ENSG00000197134	ENST00000597927	protein_coding	PUTATIVE	None	13498	398	131	22235286	22271178	1	None	BMZF-4
19	ZNF257	ENSG00000197134	ENST00000594947	protein_coding	KNOWN	CCDS46030	13498	1692	563	22235291	22274282	1	None	BMZF-4
19	ZNF257	ENSG00000197134	ENST00000597796	nonsense_mediated_decay	KNOWN	None	13498	108	35	22235311	22258667	1	None	BMZF-4
19	ZNF257	ENSG00000197134	ENST00000596471	processed_transcript	KNOWN	None	13498	None	None	22235326	22247134	1	None	BMZF-4
19	ZNF257	ENSG00000197134	ENST00000600162	protein_coding	PUTATIVE	None	13498	249	82	22235338	22271207	1	None	BMZF-4
1	KIAA0319L	ENSG00000142687	ENST00000325722	protein_coding	KNOWN	CCDS390	30071	3150	1049	35899091	36023014	-1	None	KIAA1837
1	KIAA0319L	ENSG00000142687	ENST00000373266	protein_coding	PUTATIVE	None	30071	1461	486	35899706	35920308	-1	None	KIAA1837
1	KIAA0319L	ENSG00000142687	ENST00000426982	protein_coding	KNOWN	None	30071	3079	1025	35900566	36023256	-1	None	KIAA1837
1	KIAA0319L	ENSG00000142687	ENST00000461312	processed_transcript	KNOWN	None	30071	None	None	35900905	35909831	-1	None	KIAA1837
1	KIAA0319L	ENSG00000142687	ENST00000485551	processed_transcript	KNOWN	None	30071	None	None	35904143	35936507	-1	None	KIAA1837
1	KIAA0319L	ENSG00000142687	ENST00000473423	retained_intron	KNOWN	None	30071	None	None	35907868	35908856	-1	None	KIAA1837
1	KIAA0319L	ENSG00000142687	ENST00000473844	processed_transcript	KNOWN	None	30071	None	None	35908863	35915607	-1	None	KIAA1837
1	KIAA0319L	ENSG00000142687	ENST00000474856	retained_intron	KNOWN	None	30071	None	None	35909637	35913800	-1	None	KIAA1837
1	KIAA0319L	ENSG00000142687	ENST00000492544	processed_transcript	KNOWN	None	30071	None	None	35915966	35919888	-1	None	KIAA1837
1	KIAA0319L	ENSG00000142687	ENST00000440579	protein_coding	KNOWN	None	30071	2055	684	35917236	36020588	-1	None	KIAA1837
1	KIAA0319L	ENSG00000142687	ENST00000467109	retained_intron	KNOWN	None	30071	None	None	35919154	35920237	-1	None	KIAA1837
1	KIAA0319L	ENSG00000142687	ENST00000431916	protein_coding	PUTATIVE	None	30071	912	303	35925909	35972468	-1	None	KIAA1837
1	KIAA0319L	ENSG00000142687	ENST00000482929	nonsense_mediated_decay	KNOWN	None	30071	1035	344	35925975	36023551	-1	None	KIAA1837
1	KIAA0319L	ENSG00000142687	ENST00000478463	nonsense_mediated_decay	KNOWN	None	30071	1035	344	35932209	36023006	-1	None	KIAA1837
1	KIAA0319L	ENSG00000142687	ENST00000470388	nonsense_mediated_decay	KNOWN	None	30071	234	77	35932211	36022976	-1	None	KIAA1837
1	KIAA0319L	ENSG00000142687	ENST00000492888	processed_transcript	KNOWN	None	30071	None	None	35940470	36023213	-1	None	KIAA1837
1	KIAA0319L	ENSG00000142687	ENST00000469892	protein_coding	KNOWN	None	30071	819	272	35944661	36023004	-1	None	KIAA1837
1	KIAA0319L	ENSG00000142687	ENST00000494948	protein_coding	KNOWN	None	30071	539	178	35972340	36020588	-1	None	KIAA1837
1	KIAA0319L	ENSG00000142687	ENST00000476329	processed_transcript	KNOWN	None	30071	None	None	35998697	36023204	-1	None	KIAA1837
1	KIAA0319L	ENSG00000142687	ENST00000473465	processed_transcript	KNOWN	None	30071	None	None	36022072	36022989	-1	None	KIAA1837
1	NRAS	ENSG00000213281	ENST00000369535	protein_coding	KNOWN	CCDS877	7989	570	189	115247090	115259515	-1	None	N-ras
5	ZCCHC10	ENSG00000155329	ENST00000324170	protein_coding	KNOWN	CCDS4165	25954	513	170	132332677	132362296	-1	None	FLJ20094
5	ZCCHC10	ENSG00000155329	ENST00000355372	protein_coding	NOVEL	None	25954	561	186	132332688	132362241	-1	None	FLJ20094
5	ZCCHC10	ENSG00000155329	ENST00000509437	protein_coding	NOVEL	None	25954	579	192	132333792	132362237	-1	None	FLJ20094
5	ZCCHC10	ENSG00000155329	ENST00000513848	protein_coding	NOVEL	None	25954	471	156	132333904	132362263	-1	None	FLJ20094
5	ZCCHC10	ENSG00000155329	ENST00000513541	protein_coding	PUTATIVE	None	25954	345	114	132334100	132362241	-1	None	FLJ20094
5	ZCCHC10	ENSG00000155329	ENST00000508080	processed_transcript	KNOWN	None	25954	None	None	132334105	132362226	-1	None	FLJ20094
5	ZCCHC10	ENSG00000155329	ENST00000509008	protein_coding	PUTATIVE	None	25954	279	92	132334220	132362241	-1	None	FLJ20094
5	ZCCHC10	ENSG00000155329	ENST00000506403	processed_transcript	KNOWN	None	25954	None	None	132334309	132362241	-1	None	FLJ20094
5	ZCCHC10	ENSG00000155329	ENST00000511440	processed_transcript	KNOWN	None	25954	None	None	132334397	132362237	-1	None	FLJ20094
5	ZCCHC10	ENSG00000155329	ENST00000504170	protein_coding	NOVEL	None	25954	219	72	132354739	132362281	-1	None	FLJ20094
13	TGDS	ENSG00000088451	ENST00000261296	protein_coding	KNOWN	CCDS9471	20324	1053	350	95226308	95248511	-1	None	TDPGD, SDR2E1
13	TGDS	ENSG00000088451	ENST00000498294	processed_transcript	KNOWN	None	20324	None	None	95230984	95248496	-1	None	TDPGD, SDR2E1
13	TGDS	ENSG00000088451	ENST00000470480	retained_intron	KNOWN	None	20324	None	None	95231540	95233443	-1	None	TDPGD, SDR2E1
20	BANF2	ENSG00000125888	ENST00000545418	protein_coding	KNOWN	CCDS54449	16172	294	97	17674317	17716505	1	C20orf179	dJ803K15.1, BAF-L, BAFL, BAF2
20	BANF2	ENSG00000125888	ENST00000427254	protein_coding	KNOWN	None	16172	126	41	17680587	17705796	1	C20orf179	dJ803K15.1, BAF-L, BAFL, BAF2
20	BANF2	ENSG00000125888	ENST00000377805	protein_coding	KNOWN	CCDS13129	16172	273	90	17680593	17716516	1	C20orf179	dJ803K15.1, BAF-L, BAFL, BAF2
20	BANF2	ENSG00000125888	ENST00000246090	protein_coding	KNOWN	CCDS13129	16172	273	90	17680605	17716516	1	C20orf179	dJ803K15.1, BAF-L, BAFL, BAF2
20	BANF2	ENSG00000125888	ENST00000467330	processed_transcript	PUTATIVE	None	16172	None	None	17711824	17716443	1	C20orf179	dJ803K15.1, BAF-L, BAFL, BAF2
HSCHR6_MHC_MCF	APOM	ENSG00000226215	ENST00000425856	protein_coding	KNOWN	None	13916	390	129	31696476	31702142	1	None	ApoM, G3a, NG20
HSCHR6_MHC_MCF	APOM	ENSG00000226215	ENST00000422771	protein_coding	KNOWN	None	13916	351	116	31696477	31702270	1	None	ApoM, G3a, NG20
HSCHR6_MHC_MCF	APOM	ENSG00000226215	ENST00000441436	protein_coding	KNOWN	None	13916	567	188	31699954	31702270	1	None	ApoM, G3a, NG20
4	USP46	ENSG00000109189	ENST00000441222	protein_coding	KNOWN	CCDS47053	20075	1101	366	53460340	53525502	-1	None	FLJ12552
4	USP46	ENSG00000109189	ENST00000451218	protein_coding	NOVEL	None	20075	1020	339	53460344	53525457	-1	None	FLJ12552
4	USP46	ENSG00000109189	ENST00000503060	nonsense_mediated_decay	KNOWN	None	20075	123	40	53462980	53525442	-1	None	FLJ12552
4	USP46	ENSG00000109189	ENST00000514536	nonsense_mediated_decay	KNOWN	None	20075	123	40	53463633	53525465	-1	None	FLJ12552
4	USP46	ENSG00000109189	ENST00000508499	protein_coding	KNOWN	CCDS47054	20075	1080	359	53463747	53522757	-1	None	FLJ12552
4	USP46	ENSG00000109189	ENST00000502443	retained_intron	KNOWN	None	20075	None	None	53492260	53494533	-1	None	FLJ12552
4	USP46	ENSG00000109189	ENST00000506707	processed_transcript	KNOWN	None	20075	None	None	53492295	53522740	-1	None	FLJ12552
4	USP46	ENSG00000109189	ENST00000512656	nonsense_mediated_decay	KNOWN	None	20075	171	56	53494228	53522693	-1	None	FLJ12552
4	USP46	ENSG00000109189	ENST00000504078	processed_transcript	KNOWN	None	20075	None	None	53497276	53522753	-1	None	FLJ12552
10	None	ENSG00000207438	ENST00000384707	misc_RNA	NOVEL	None	None	None	None	70262909	70263016	1	None	None
10	TMEM14D	ENSG00000214881	ENST00000422205	processed_pseudogene	KNOWN	None	15660	None	None	70304246	70304590	-1	None	bA524O24.3, TMEM14DP
10	COX20P1	ENSG00000213025	ENST00000366529	processed_pseudogene	KNOWN	None	31435	None	None	70392128	70392484	1	FAM36B	bA119F7.2
10	None	ENSG00000227583	ENST00000419176	processed_pseudogene	KNOWN	None	None	None	None	70434113	70434857	1	None	None
HSCHR6_MHC_MCF	C6orf47	ENSG00000226531	ENST00000418357	protein_coding	KNOWN	None	19076	885	294	31702358	31704832	-1	None	D6S53E, G4
21	None	ENSG00000231136	ENST00000454567	processed_pseudogene	KNOWN	None	None	None	None	23526270	23526619	-1	None	None
10	None	ENSG00000260400	ENST00000562082	sense_overlapping	KNOWN	None	None	None	None	70458257	70460551	1	None	None
21	RNU4-45P	ENSG00000202339	ENST00000365469	snRNA	KNOWN	None	46981	None	None	23577511	23577651	1	None	None
19	HAMP	ENSG00000105697	ENST00000598398	protein_coding	KNOWN	CCDS12454	15598	255	84	35771619	35776046	1	None	LEAP-1, HEPC, HFE2B, LEAP1
19	HAMP	ENSG00000105697	ENST00000222304	protein_coding	KNOWN	CCDS12454	15598	255	84	35773249	35776016	1	None	LEAP-1, HEPC, HFE2B, LEAP1
19	HAMP	ENSG00000105697	ENST00000593580	retained_intron	KNOWN	None	15598	None	None	35773420	35776043	1	None	LEAP-1, HEPC, HFE2B, LEAP1
10	None	ENSG00000251926	ENST00000516117	snoRNA	NOVEL	None	None	None	None	70472715	70472835	1	None	None
22	GRAMD4	ENSG00000075240	ENST00000447351	protein_coding	PUTATIVE	None	29113	259	85	46971909	47033833	1	None	KIAA0767, DIP
22	GRAMD4	ENSG00000075240	ENST00000431155	protein_coding	KNOWN	None	29113	100	32	46973026	47022796	1	None	KIAA0767, DIP
22	GRAMD4	ENSG00000075240	ENST00000406902	protein_coding	KNOWN	CCDS33672	29113	1737	578	47016299	47075682	1	None	KIAA0767, DIP
22	GRAMD4	ENSG00000075240	ENST00000490378	processed_transcript	KNOWN	None	29113	None	None	47022740	47033855	1	None	KIAA0767, DIP
22	GRAMD4	ENSG00000075240	ENST00000456069	protein_coding	PUTATIVE	None	29113	669	222	47059004	47067064	1	None	KIAA0767, DIP
22	GRAMD4	ENSG00000075240	ENST00000408031	protein_coding	PUTATIVE	None	29113	306	101	47070505	47075580	1	None	KIAA0767, DIP
22	GRAMD4	ENSG00000075240	ENST00000361034	protein_coding	KNOWN	CCDS33672	29113	1737	578	47022658	47075688	1	None	KIAA0767, DIP
10	None	ENSG00000270494	ENST00000603836	processed_pseudogene	KNOWN	None	None	None	None	70477068	70477552	-1	None	None
10	None	ENSG00000195401	ENST00000352915	misc_RNA	NOVEL	None	None	None	None	70495477	70495580	-1	None	None
13	TPTE2	ENSG00000132958	ENST00000382978	protein_coding	NOVEL	None	17299	1449	482	19997017	20077417	-1	None	TPIP
13	TPTE2	ENSG00000132958	ENST00000462409	nonsense_mediated_decay	KNOWN	None	17299	1014	337	19997192	20077374	-1	None	TPIP
13	TPTE2	ENSG00000132958	ENST00000390680	protein_coding	KNOWN	CCDS9285	17299	1338	445	19997192	20110902	-1	None	TPIP
13	TPTE2	ENSG00000132958	ENST00000400103	protein_coding	KNOWN	CCDS45013	17299	1236	411	19997023	20080080	-1	None	TPIP
13	TPTE2	ENSG00000132958	ENST00000400230	protein_coding	KNOWN	CCDS45014	17299	1569	522	19997023	20077419	-1	None	TPIP
13	TPTE2	ENSG00000132958	ENST00000255310	protein_coding	KNOWN	CCDS9285	17299	1338	445	19997023	20077419	-1	None	TPIP
13	TPTE2	ENSG00000132958	ENST00000382977	protein_coding	KNOWN	CCDS45014	17299	1569	522	19997192	20110903	-1	None	TPIP
13	TPTE2	ENSG00000132958	ENST00000382975	protein_coding	KNOWN	None	17299	1449	482	19997192	20110903	-1	None	TPIP
13	TPTE2	ENSG00000132958	ENST00000457266	protein_coding	KNOWN	CCDS45013	17299	1236	411	19997192	20110903	-1	None	TPIP
17	ACSF2	ENSG00000167107	ENST00000510410	nonsense_mediated_decay	KNOWN	None	26101	138	45	48503519	48552031	1	None	FLJ20920, ACSMW
17	ACSF2	ENSG00000167107	ENST00000300441	protein_coding	KNOWN	CCDS11567	26101	1848	615	48503519	48552196	1	None	FLJ20920, ACSMW
17	ACSF2	ENSG00000167107	ENST00000504945	retained_intron	KNOWN	None	26101	None	None	48503579	48538409	1	None	FLJ20920, ACSMW
17	ACSF2	ENSG00000167107	ENST00000503408	nonsense_mediated_decay	KNOWN	None	26101	165	54	48503579	48538626	1	None	FLJ20920, ACSMW
17	ACSF2	ENSG00000167107	ENST00000506582	protein_coding	NOVEL	None	26101	550	182	48503579	48539787	1	None	FLJ20920, ACSMW
17	ACSF2	ENSG00000167107	ENST00000504392	protein_coding	NOVEL	None	26101	1719	572	48503579	48552031	1	None	FLJ20920, ACSMW
17	ACSF2	ENSG00000167107	ENST00000427954	protein_coding	NOVEL	None	26101	1923	640	48503580	48552198	1	None	FLJ20920, ACSMW
17	ACSF2	ENSG00000167107	ENST00000502667	protein_coding	NOVEL	None	26101	1809	602	48503613	48552192	1	None	FLJ20920, ACSMW
17	ACSF2	ENSG00000167107	ENST00000570356	retained_intron	KNOWN	None	26101	None	None	48538024	48538772	1	None	FLJ20920, ACSMW
17	ACSF2	ENSG00000167107	ENST00000506052	retained_intron	KNOWN	None	26101	None	None	48539600	48540402	1	None	FLJ20920, ACSMW
17	ACSF2	ENSG00000167107	ENST00000513101	retained_intron	KNOWN	None	26101	None	None	48539897	48548549	1	None	FLJ20920, ACSMW
17	ACSF2	ENSG00000167107	ENST00000508245	nonsense_mediated_decay	KNOWN	None	26101	258	85	48540841	48551293	1	None	FLJ20920, ACSMW
17	ACSF2	ENSG00000167107	ENST00000510262	nonsense_mediated_decay	KNOWN	None	26101	314	103	48540877	48549807	1	None	FLJ20920, ACSMW
17	ACSF2	ENSG00000167107	ENST00000507769	retained_intron	KNOWN	None	26101	None	None	48541642	48548761	1	None	FLJ20920, ACSMW
17	ACSF2	ENSG00000167107	ENST00000509806	processed_transcript	KNOWN	None	26101	None	None	48541905	48550764	1	None	FLJ20920, ACSMW
17	ACSF2	ENSG00000167107	ENST00000513544	processed_transcript	KNOWN	None	26101	None	None	48545201	48551262	1	None	FLJ20920, ACSMW
17	ACSF2	ENSG00000167107	ENST00000511288	retained_intron	KNOWN	None	26101	None	None	48545690	48549122	1	None	FLJ20920, ACSMW
17	ACSF2	ENSG00000167107	ENST00000506085	processed_transcript	KNOWN	None	26101	None	None	48545704	48552206	1	None	FLJ20920, ACSMW
17	ACSF2	ENSG00000167107	ENST00000508734	processed_transcript	PUTATIVE	None	26101	None	None	48545720	48548426	1	None	FLJ20920, ACSMW
17	ACSF2	ENSG00000167107	ENST00000503387	retained_intron	KNOWN	None	26101	None	None	48547267	48548884	1	None	FLJ20920, ACSMW
17	ACSF2	ENSG00000167107	ENST00000512119	processed_transcript	KNOWN	None	26101	None	None	48547424	48551324	1	None	FLJ20920, ACSMW
17	ACSF2	ENSG00000167107	ENST00000512537	retained_intron	KNOWN	None	26101	None	None	48548292	48551151	1	None	FLJ20920, ACSMW
17	ACSF2	ENSG00000167107	ENST00000503295	retained_intron	KNOWN	None	26101	None	None	48549492	48551121	1	None	FLJ20920, ACSMW
17	ACSF2	ENSG00000167107	ENST00000511147	processed_transcript	KNOWN	None	26101	None	None	48549822	48551617	1	None	FLJ20920, ACSMW
17	ACSF2	ENSG00000167107	ENST00000507792	retained_intron	KNOWN	None	26101	None	None	48551186	48552135	1	None	FLJ20920, ACSMW
17	ACSF2	ENSG00000167107	ENST00000541920	protein_coding	KNOWN	None	26101	1368	455	48503519	48552031	1	None	FLJ20920, ACSMW
2	FANCL	ENSG00000115392	ENST00000403295	protein_coding	PUTATIVE	None	20748	1044	347	58386378	58468458	-1	PHF9	FLJ10335, FAAP43, Pog
2	FANCL	ENSG00000115392	ENST00000233741	protein_coding	KNOWN	CCDS1860	20748	1128	375	58386382	58468485	-1	PHF9	FLJ10335, FAAP43, Pog
2	FANCL	ENSG00000115392	ENST00000402135	protein_coding	PUTATIVE	CCDS46294	20748	1143	380	58386382	58468485	-1	PHF9	FLJ10335, FAAP43, Pog
2	FANCL	ENSG00000115392	ENST00000403676	protein_coding	PUTATIVE	None	20748	777	258	58386890	58468437	-1	PHF9	FLJ10335, FAAP43, Pog
2	FANCL	ENSG00000115392	ENST00000449070	protein_coding	PUTATIVE	None	20748	905	300	58387253	58468507	-1	PHF9	FLJ10335, FAAP43, Pog
2	FANCL	ENSG00000115392	ENST00000446381	protein_coding	PUTATIVE	None	20748	475	157	58388758	58468460	-1	PHF9	FLJ10335, FAAP43, Pog
2	FANCL	ENSG00000115392	ENST00000470506	retained_intron	KNOWN	None	20748	None	None	58390000	58392938	-1	PHF9	FLJ10335, FAAP43, Pog
2	FANCL	ENSG00000115392	ENST00000427708	protein_coding	NOVEL	None	20748	864	287	58390164	58468446	-1	PHF9	FLJ10335, FAAP43, Pog
2	FANCL	ENSG00000115392	ENST00000417361	protein_coding	PUTATIVE	None	20748	437	144	58390571	58468483	-1	PHF9	FLJ10335, FAAP43, Pog
2	FANCL	ENSG00000115392	ENST00000481670	processed_transcript	PUTATIVE	None	20748	None	None	58440634	58456950	-1	PHF9	FLJ10335, FAAP43, Pog
2	FANCL	ENSG00000115392	ENST00000540646	protein_coding	KNOWN	None	20748	384	127	58390314	58468490	-1	PHF9	FLJ10335, FAAP43, Pog
3	PARP9	ENSG00000138496	ENST00000477522	protein_coding	KNOWN	CCDS54634	24118	2460	819	122246771	122283424	-1	None	BAL, BAL1
3	PARP9	ENSG00000138496	ENST00000492382	protein_coding	NOVEL	None	24118	1200	399	122246806	122283100	-1	None	BAL, BAL1
3	PARP9	ENSG00000138496	ENST00000360356	protein_coding	KNOWN	CCDS3014	24118	2565	854	122246806	122283424	-1	None	BAL, BAL1
3	PARP9	ENSG00000138496	ENST00000489652	retained_intron	KNOWN	None	24118	None	None	122246808	122264850	-1	None	BAL, BAL1
3	PARP9	ENSG00000138496	ENST00000471785	protein_coding	NOVEL	CCDS54634	24118	2460	819	122246852	122283089	-1	None	BAL, BAL1
3	PARP9	ENSG00000138496	ENST00000462315	protein_coding	PUTATIVE	CCDS54633	24118	2133	710	122250620	122283162	-1	None	BAL, BAL1
3	PARP9	ENSG00000138496	ENST00000466126	protein_coding	PUTATIVE	None	24118	346	114	122274711	122283089	-1	None	BAL, BAL1
X	ACTRT1	ENSG00000123165	ENST00000371124	protein_coding	KNOWN	CCDS14611	24027	1131	376	127184943	127186382	-1	None	AIP1, KIAA0705, ARIP1, Arp-T1
HSCHR6_MHC_DBB	RNF39	ENSG00000235022	ENST00000456156	protein_coding	KNOWN	None	18064	1263	420	30028370	30033991	-1	None	HZFw1, LIRF
HSCHR6_MHC_DBB	RNF39	ENSG00000235022	ENST00000442063	protein_coding	KNOWN	None	18064	1065	354	30028370	30033953	-1	None	HZFw1, LIRF
HSCHR6_MHC_DBB	RNF39	ENSG00000235022	ENST00000551225	protein_coding	KNOWN	None	18064	756	251	30028888	30033893	-1	None	HZFw1, LIRF
10	AKR1CL1	ENSG00000196326	ENST00000473890	protein_coding	NOVEL	None	23469	447	148	5196335	5202135	-1	None	None
10	AKR1CL1	ENSG00000196326	ENST00000465430	processed_transcript	KNOWN	None	23469	None	None	5196655	5202144	-1	None	None
10	AKR1CL1	ENSG00000196326	ENST00000488756	protein_coding	NOVEL	None	23469	456	151	5202775	5227096	-1	None	None
10	AKR1CL1	ENSG00000196326	ENST00000472691	processed_transcript	KNOWN	None	23469	None	None	5202775	5227150	-1	None	None
10	AKR1CL1	ENSG00000196326	ENST00000334314	protein_coding	KNOWN	None	23469	390	129	5203694	5227144	-1	None	None
10	AKR1CL1	ENSG00000196326	ENST00000445191	protein_coding	KNOWN	None	23469	81	26	5226975	5244449	-1	None	None
22	DERL3	ENSG00000099958	ENST00000464023	processed_transcript	KNOWN	None	14236	None	None	24176690	24178701	-1	C22orf14	FLJ43842, MGC71803, derlin-3, IZP6
22	DERL3	ENSG00000099958	ENST00000406855	protein_coding	NOVEL	CCDS46672	14236	720	239	24176690	24181193	-1	C22orf14	FLJ43842, MGC71803, derlin-3, IZP6
22	DERL3	ENSG00000099958	ENST00000404056	protein_coding	NOVEL	None	14236	537	178	24176690	24181193	-1	C22orf14	FLJ43842, MGC71803, derlin-3, IZP6
22	DERL3	ENSG00000099958	ENST00000290730	retained_intron	KNOWN	None	14236	None	None	24176690	24181315	-1	C22orf14	FLJ43842, MGC71803, derlin-3, IZP6
22	DERL3	ENSG00000099958	ENST00000493596	processed_transcript	KNOWN	None	14236	None	None	24178652	24179871	-1	C22orf14	FLJ43842, MGC71803, derlin-3, IZP6
22	DERL3	ENSG00000099958	ENST00000464034	processed_transcript	KNOWN	None	14236	None	None	24178921	24179885	-1	C22orf14	FLJ43842, MGC71803, derlin-3, IZP6
22	DERL3	ENSG00000099958	ENST00000488272	processed_transcript	KNOWN	None	14236	None	None	24178921	24180390	-1	C22orf14	FLJ43842, MGC71803, derlin-3, IZP6
22	DERL3	ENSG00000099958	ENST00000318109	protein_coding	KNOWN	CCDS33615	14236	708	235	24178921	24181191	-1	C22orf14	FLJ43842, MGC71803, derlin-3, IZP6
22	DERL3	ENSG00000099958	ENST00000476077	protein_coding	KNOWN	CCDS42986	14236	618	205	24178921	24181199	-1	C22orf14	FLJ43842, MGC71803, derlin-3, IZP6
22	DERL3	ENSG00000099958	ENST00000464110	retained_intron	KNOWN	None	14236	None	None	24178954	24181191	-1	C22orf14	FLJ43842, MGC71803, derlin-3, IZP6
7	CCDC126	ENSG00000169193	ENST00000307471	protein_coding	KNOWN	CCDS5384	22398	423	140	23636998	23684327	1	None	FLJ23031
7	CCDC126	ENSG00000169193	ENST00000484553	processed_transcript	KNOWN	None	22398	None	None	23637035	23641839	1	None	FLJ23031
7	CCDC126	ENSG00000169193	ENST00000409765	protein_coding	KNOWN	CCDS5384	22398	423	140	23637061	23684326	1	None	FLJ23031
7	CCDC126	ENSG00000169193	ENST00000448353	protein_coding	KNOWN	None	22398	332	109	23637134	23682643	1	None	FLJ23031
7	CCDC126	ENSG00000169193	ENST00000485233	retained_intron	KNOWN	None	22398	None	None	23637342	23651127	1	None	FLJ23031
7	CCDC126	ENSG00000169193	ENST00000472407	retained_intron	KNOWN	None	22398	None	None	23637457	23682555	1	None	FLJ23031
7	CCDC126	ENSG00000169193	ENST00000410069	protein_coding	KNOWN	CCDS5384	22398	423	140	23637780	23682856	1	None	FLJ23031
7	CCDC126	ENSG00000169193	ENST00000486109	processed_transcript	PUTATIVE	None	22398	None	None	23637911	23651168	1	None	FLJ23031
22	TBC1D10A	ENSG00000099992	ENST00000215790	protein_coding	KNOWN	CCDS13874	23609	1527	508	30687979	30723035	-1	TBC1D10	EPI64, AC004997.C22.2
22	TBC1D10A	ENSG00000099992	ENST00000467596	retained_intron	KNOWN	None	23609	None	None	30687980	30693469	-1	TBC1D10	EPI64, AC004997.C22.2
22	TBC1D10A	ENSG00000099992	ENST00000462073	retained_intron	KNOWN	None	23609	None	None	30687980	30695785	-1	TBC1D10	EPI64, AC004997.C22.2
22	TBC1D10A	ENSG00000099992	ENST00000403477	protein_coding	NOVEL	CCDS56227	23609	1548	515	30687982	30722890	-1	TBC1D10	EPI64, AC004997.C22.2
22	TBC1D10A	ENSG00000099992	ENST00000403362	protein_coding	PUTATIVE	None	23609	1263	420	30687997	30703879	-1	TBC1D10	EPI64, AC004997.C22.2
22	TBC1D10A	ENSG00000099992	ENST00000433426	nonsense_mediated_decay	KNOWN	None	23609	891	296	30687999	30714824	-1	TBC1D10	EPI64, AC004997.C22.2
22	TBC1D10A	ENSG00000099992	ENST00000466666	retained_intron	KNOWN	None	23609	None	None	30689388	30690838	-1	TBC1D10	EPI64, AC004997.C22.2
22	TBC1D10A	ENSG00000099992	ENST00000437122	nonsense_mediated_decay	KNOWN	None	23609	288	95	30689910	30722936	-1	TBC1D10	EPI64, AC004997.C22.2
22	TBC1D10A	ENSG00000099992	ENST00000393906	protein_coding	PUTATIVE	None	23609	463	153	30690078	30701620	-1	TBC1D10	EPI64, AC004997.C22.2
22	TBC1D10A	ENSG00000099992	ENST00000490449	processed_transcript	PUTATIVE	None	23609	None	None	30696460	30722890	-1	TBC1D10	EPI64, AC004997.C22.2
Y	RN7SKP282	ENSG00000252633	ENST00000516824	misc_RNA	KNOWN	None	46006	None	None	7192338	7192636	-1	None	None
3	EFHB	ENSG00000163576	ENST00000295824	protein_coding	KNOWN	CCDS33715	26330	2502	833	19920964	19975672	-1	None	FLJ25200
3	EFHB	ENSG00000163576	ENST00000344838	protein_coding	NOVEL	None	26330	2112	703	19920968	19988501	-1	None	FLJ25200
3	EFHB	ENSG00000163576	ENST00000467602	processed_transcript	PUTATIVE	None	26330	None	None	19925854	19940316	-1	None	FLJ25200
3	EFHB	ENSG00000163576	ENST00000498089	processed_transcript	KNOWN	None	26330	None	None	19935983	19975706	-1	None	FLJ25200
3	EFHB	ENSG00000163576	ENST00000389256	protein_coding	NOVEL	None	26330	1871	622	19938033	19975716	-1	None	FLJ25200
3	EFHB	ENSG00000163576	ENST00000440022	protein_coding	PUTATIVE	None	26330	782	259	19940269	19974784	-1	None	FLJ25200
3	EFHB	ENSG00000163576	ENST00000474780	processed_transcript	PUTATIVE	None	26330	None	None	19987406	19988517	-1	None	FLJ25200
HSCHR6_MHC_COX	None	ENSG00000258333	ENST00000552035	protein_coding	NOVEL	None	None	279	92	30460850	30464750	1	None	None
Y	None	ENSG00000251996	ENST00000516187	misc_RNA	NOVEL	None	None	None	None	7209572	7209683	1	None	None
Y	RNU6-941P	ENSG00000252155	ENST00000516346	snRNA	KNOWN	None	47904	None	None	7246713	7246820	1	None	None
HSCHR6_MHC_SSTO	HLA-N	ENSG00000234799	ENST00000434953	unprocessed_pseudogene	KNOWN	None	19406	None	None	30308313	30308447	1	None	HLA-30
1	ASCL5	ENSG00000232237	ENST00000449188	protein_coding	KNOWN	CCDS59202	33169	621	206	201083081	201096312	-1	None	bHLHa47
1	ASCL5	ENSG00000232237	ENST00000458416	protein_coding	KNOWN	None	33169	837	278	201083880	201084796	-1	None	bHLHa47
HSCHR6_MHC_SSTO	None	ENSG00000258194	ENST00000549721	pseudogene	NOVEL	None	None	None	None	30313130	30313217	-1	None	None
HSCHR6_MHC_SSTO	HCG19P	ENSG00000235877	ENST00000428544	processed_pseudogene	KNOWN	None	31336	None	None	30316175	30316808	-1	None	AB014085.4
HSCHR6_MHC_SSTO	UBQLN1P1	ENSG00000230441	ENST00000428186	processed_pseudogene	KNOWN	None	21633	None	None	30319997	30321165	-1	UBQLN1P	None
HSCHR6_MHC_SSTO	NELFE	ENSG00000233801	ENST00000457397	protein_coding	KNOWN	None	13974	1143	380	31911716	31918721	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_SSTO	NELFE	ENSG00000233801	ENST00000482784	retained_intron	KNOWN	None	13974	None	None	31911857	31918573	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_SSTO	NELFE	ENSG00000233801	ENST00000459932	retained_intron	KNOWN	None	13974	None	None	31911857	31918548	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_SSTO	NELFE	ENSG00000233801	ENST00000452147	protein_coding	KNOWN	None	13974	1001	332	31913387	31918586	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_SSTO	NELFE	ENSG00000233801	ENST00000456263	protein_coding	KNOWN	None	13974	881	292	31913933	31918108	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_SSTO	NELFE	ENSG00000233801	ENST00000435435	protein_coding	KNOWN	None	13974	722	239	31914189	31918200	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_SSTO	NELFE	ENSG00000233801	ENST00000466286	retained_intron	KNOWN	None	13974	None	None	31914379	31918667	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_SSTO	NELFE	ENSG00000233801	ENST00000478154	processed_transcript	KNOWN	None	13974	None	None	31914402	31918597	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_SSTO	NELFE	ENSG00000233801	ENST00000425721	protein_coding	KNOWN	None	13974	477	158	31914449	31918488	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_SSTO	NELFE	ENSG00000233801	ENST00000488291	retained_intron	KNOWN	None	13974	None	None	31914694	31918594	-1	RDBP	RD, D6S45, NELF-E, RDP
HSCHR6_MHC_SSTO	NELFE	ENSG00000233801	ENST00000472316	processed_transcript	KNOWN	None	13974	None	None	31914848	31918583	-1	RDBP	RD, D6S45, NELF-E, RDP
6	ASCC3	ENSG00000112249	ENST00000369162	protein_coding	KNOWN	CCDS5046	18697	6609	2202	100956070	101329240	-1	HELIC1	RNAH, ASC1p200, dJ121G13.4, dJ467N11.1
6	ASCC3	ENSG00000112249	ENST00000518006	retained_intron	KNOWN	None	18697	None	None	100957094	100958184	-1	HELIC1	RNAH, ASC1p200, dJ121G13.4, dJ467N11.1
6	ASCC3	ENSG00000112249	ENST00000324696	nonsense_mediated_decay	KNOWN	None	18697	147	48	101095164	101329248	-1	HELIC1	RNAH, ASC1p200, dJ121G13.4, dJ467N11.1
6	ASCC3	ENSG00000112249	ENST00000522650	protein_coding	PUTATIVE	None	18697	2196	731	101163006	101329240	-1	HELIC1	RNAH, ASC1p200, dJ121G13.4, dJ467N11.1
6	ASCC3	ENSG00000112249	ENST00000468245	retained_intron	KNOWN	None	18697	None	None	101295880	101329177	-1	HELIC1	RNAH, ASC1p200, dJ121G13.4, dJ467N11.1
6	ASCC3	ENSG00000112249	ENST00000324723	protein_coding	KNOWN	None	18697	529	175	101296296	101329224	-1	HELIC1	RNAH, ASC1p200, dJ121G13.4, dJ467N11.1
6	ASCC3	ENSG00000112249	ENST00000369143	protein_coding	KNOWN	CCDS5047	18697	336	111	101304179	101329187	-1	HELIC1	RNAH, ASC1p200, dJ121G13.4, dJ467N11.1
HSCHR6_MHC_SSTO	None	ENSG00000257248	ENST00000549747	pseudogene	NOVEL	None	None	None	None	30321364	30321487	1	None	None
10	SNORD98	ENSG00000221182	ENST00000408255	snoRNA	KNOWN	None	32761	None	None	70514929	70514995	1	None	HBII-419
HSCHR6_MHC_SSTO	None	ENSG00000257841	ENST00000552662	pseudogene	NOVEL	None	None	None	None	30325064	30325172	-1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000258211	ENST00000547513	pseudogene	NOVEL	None	None	None	None	30339425	30339509	-1	None	None
10	MIR1254-1	ENSG00000221184	ENST00000408257	miRNA	KNOWN	None	35319	None	None	70519075	70519171	1	MIRN1254, MIR1254	hsa-mir-1254
6	FRMD1	ENSG00000153303	ENST00000283309	protein_coding	KNOWN	CCDS5306	21240	1650	549	168456425	168479839	-1	None	FLJ00181, DKFZp434O0117, FLJ40260, FLJ22615, bA164L23.1
6	FRMD1	ENSG00000153303	ENST00000432403	processed_transcript	KNOWN	None	21240	None	None	168456464	168466657	-1	None	FLJ00181, DKFZp434O0117, FLJ40260, FLJ22615, bA164L23.1
6	FRMD1	ENSG00000153303	ENST00000358587	retained_intron	KNOWN	None	21240	None	None	168456484	168479857	-1	None	FLJ00181, DKFZp434O0117, FLJ40260, FLJ22615, bA164L23.1
6	FRMD1	ENSG00000153303	ENST00000440994	protein_coding	KNOWN	CCDS47518	21240	1446	481	168456485	168476546	-1	None	FLJ00181, DKFZp434O0117, FLJ40260, FLJ22615, bA164L23.1
6	FRMD1	ENSG00000153303	ENST00000468647	nonsense_mediated_decay	KNOWN	None	21240	543	180	168456485	168482209	-1	None	FLJ00181, DKFZp434O0117, FLJ40260, FLJ22615, bA164L23.1
6	FRMD1	ENSG00000153303	ENST00000509157	nonsense_mediated_decay	KNOWN	None	21240	543	180	168457497	168482209	-1	None	FLJ00181, DKFZp434O0117, FLJ40260, FLJ22615, bA164L23.1
6	FRMD1	ENSG00000153303	ENST00000336070	retained_intron	KNOWN	None	21240	None	None	168457669	168468203	-1	None	FLJ00181, DKFZp434O0117, FLJ40260, FLJ22615, bA164L23.1
6	FRMD1	ENSG00000153303	ENST00000506415	retained_intron	KNOWN	None	21240	None	None	168464355	168468195	-1	None	FLJ00181, DKFZp434O0117, FLJ40260, FLJ22615, bA164L23.1
6	FRMD1	ENSG00000153303	ENST00000511714	protein_coding	PUTATIVE	None	21240	589	195	168465736	168482237	-1	None	FLJ00181, DKFZp434O0117, FLJ40260, FLJ22615, bA164L23.1
6	FRMD1	ENSG00000153303	ENST00000537786	protein_coding	KNOWN	None	21240	963	320	168457497	168468088	-1	None	FLJ00181, DKFZp434O0117, FLJ40260, FLJ22615, bA164L23.1
HSCHR6_MHC_SSTO	None	ENSG00000257791	ENST00000550852	pseudogene	NOVEL	None	None	None	None	30349387	30349474	1	None	None
10	RNU6-697P	ENSG00000200218	ENST00000363348	snRNA	KNOWN	None	47660	None	None	70606561	70606667	1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000258318	ENST00000550174	pseudogene	NOVEL	None	None	None	None	30349902	30349989	-1	None	None
19	MAG	ENSG00000105695	ENST00000600291	protein_coding	NOVEL	None	6783	394	130	35783028	35790510	1	GMA	SIGLEC4A, SIGLEC-4A, S-MAG
19	MAG	ENSG00000105695	ENST00000392213	protein_coding	KNOWN	CCDS12455	6783	1881	626	35783028	35804707	1	GMA	SIGLEC4A, SIGLEC-4A, S-MAG
19	MAG	ENSG00000105695	ENST00000361922	protein_coding	NOVEL	CCDS12456	6783	1749	582	35783037	35804707	1	GMA	SIGLEC4A, SIGLEC-4A, S-MAG
19	MAG	ENSG00000105695	ENST00000595791	protein_coding	KNOWN	None	6783	475	157	35783059	35790516	1	GMA	SIGLEC4A, SIGLEC-4A, S-MAG
19	MAG	ENSG00000105695	ENST00000597035	protein_coding	PUTATIVE	None	6783	177	58	35783064	35790699	1	GMA	SIGLEC4A, SIGLEC-4A, S-MAG
19	MAG	ENSG00000105695	ENST00000537831	protein_coding	NOVEL	CCDS56090	6783	1806	601	35783064	35804707	1	GMA	SIGLEC4A, SIGLEC-4A, S-MAG
19	MAG	ENSG00000105695	ENST00000593348	processed_transcript	PUTATIVE	None	6783	None	None	35800709	35802912	1	GMA	SIGLEC4A, SIGLEC-4A, S-MAG
19	MAG	ENSG00000105695	ENST00000597162	retained_intron	KNOWN	None	6783	None	None	35801515	35803626	1	GMA	SIGLEC4A, SIGLEC-4A, S-MAG
10	RNU6-571P	ENSG00000206855	ENST00000384128	snRNA	KNOWN	None	47534	None	None	70671409	70671515	-1	None	None
10	RN7SL373P	ENSG00000266122	ENST00000577512	misc_RNA	KNOWN	None	46389	None	None	70725772	70726075	1	None	None
HSCHR6_MHC_SSTO	MICC	ENSG00000231785	ENST00000439579	unprocessed_pseudogene	KNOWN	None	7092	None	None	30371601	30376206	1	None	PERB11.3
10	MED28P1	ENSG00000214875	ENST00000399158	processed_pseudogene	KNOWN	None	45078	None	None	70750893	70751463	1	None	None
21	None	ENSG00000226043	ENST00000444130	lincRNA	KNOWN	None	None	None	None	23582258	23793139	1	None	None
21	CBS	ENSG00000160200	ENST00000461686	retained_intron	KNOWN	None	1550	None	None	44473301	44488514	-1	None	HIP4
21	CBS	ENSG00000160200	ENST00000398158	protein_coding	KNOWN	CCDS13693	1550	1656	551	44473301	44495941	-1	None	HIP4
21	CBS	ENSG00000160200	ENST00000398165	protein_coding	KNOWN	CCDS13693	1550	1656	551	44473301	44496055	-1	None	HIP4
21	CBS	ENSG00000160200	ENST00000359624	protein_coding	KNOWN	CCDS13693	1550	1656	551	44473301	44496472	-1	None	HIP4
21	CBS	ENSG00000160200	ENST00000352178	protein_coding	KNOWN	CCDS13693	1550	1656	551	44473301	44496488	-1	None	HIP4
21	CBS	ENSG00000160200	ENST00000451248	protein_coding	PUTATIVE	None	1550	448	148	44473865	44479051	-1	None	HIP4
21	CBS	ENSG00000160200	ENST00000462349	retained_intron	KNOWN	None	1550	None	None	44473899	44479849	-1	None	HIP4
21	CBS	ENSG00000160200	ENST00000491776	retained_intron	KNOWN	None	1550	None	None	44475182	44480630	-1	None	HIP4
21	CBS	ENSG00000160200	ENST00000458223	protein_coding	PUTATIVE	None	1550	479	158	44475693	44479064	-1	None	HIP4
21	CBS	ENSG00000160200	ENST00000430013	protein_coding	PUTATIVE	None	1550	674	223	44475708	44480656	-1	None	HIP4
21	CBS	ENSG00000160200	ENST00000496485	retained_intron	KNOWN	None	1550	None	None	44479386	44484337	-1	None	HIP4
21	CBS	ENSG00000160200	ENST00000486098	retained_intron	KNOWN	None	1550	None	None	44482029	44483358	-1	None	HIP4
21	CBS	ENSG00000160200	ENST00000441030	protein_coding	KNOWN	None	1550	531	176	44485726	44497053	-1	None	HIP4
21	CBS	ENSG00000160200	ENST00000470912	processed_transcript	KNOWN	None	1550	None	None	44486353	44496055	-1	None	HIP4
21	CBS	ENSG00000160200	ENST00000465732	processed_transcript	PUTATIVE	None	1550	None	None	44488431	44495974	-1	None	HIP4
21	CBS	ENSG00000160200	ENST00000488526	processed_transcript	PUTATIVE	None	1550	None	None	44488514	44493618	-1	None	HIP4
21	CBS	ENSG00000160200	ENST00000478709	processed_transcript	KNOWN	None	1550	None	None	44495217	44496398	-1	None	HIP4
21	CBS	ENSG00000160200	ENST00000398168	protein_coding	KNOWN	None	1550	1698	565	44473303	44495964	-1	None	HIP4
21	CBS	ENSG00000160200	ENST00000544202	protein_coding	KNOWN	None	1550	1392	463	44473781	44490137	-1	None	HIP4
21	MAPK6PS2	ENSG00000223488	ENST00000379571	processed_pseudogene	KNOWN	None	16756	None	None	23808610	23810669	-1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000257247	ENST00000547514	pseudogene	NOVEL	None	None	None	None	30377450	30377537	-1	None	None
7	GTF2IRD1	ENSG00000006704	ENST00000265755	protein_coding	KNOWN	CCDS5571	4661	2880	959	73868120	74016917	1	WBSCR11	MusTRD1, RBAP2, GTF3, WBSCR12, BEN, Cream1
7	GTF2IRD1	ENSG00000006704	ENST00000455841	protein_coding	NOVEL	CCDS56492	4661	2931	976	73868300	74016931	1	WBSCR11	MusTRD1, RBAP2, GTF3, WBSCR12, BEN, Cream1
7	GTF2IRD1	ENSG00000006704	ENST00000424337	protein_coding	KNOWN	CCDS47613	4661	2835	944	73868439	74016928	1	WBSCR11	MusTRD1, RBAP2, GTF3, WBSCR12, BEN, Cream1
7	GTF2IRD1	ENSG00000006704	ENST00000476977	protein_coding	NOVEL	None	4661	2883	960	73920322	74016918	1	WBSCR11	MusTRD1, RBAP2, GTF3, WBSCR12, BEN, Cream1
7	GTF2IRD1	ENSG00000006704	ENST00000489094	processed_transcript	KNOWN	None	4661	None	None	73922405	73973990	1	WBSCR11	MusTRD1, RBAP2, GTF3, WBSCR12, BEN, Cream1
7	GTF2IRD1	ENSG00000006704	ENST00000470715	protein_coding	NOVEL	None	4661	824	273	73960092	74015433	1	WBSCR11	MusTRD1, RBAP2, GTF3, WBSCR12, BEN, Cream1
7	GTF2IRD1	ENSG00000006704	ENST00000486086	retained_intron	KNOWN	None	4661	None	None	74015287	74016910	1	WBSCR11	MusTRD1, RBAP2, GTF3, WBSCR12, BEN, Cream1
12	CACNA1C	ENSG00000151067	ENST00000543114	protein_coding	PUTATIVE	None	1390	300	99	2079952	2224550	1	CCHL1A1, CACNL1A1	Cav1.2, CACH2, CACN2, TS, LQT8
12	CACNA1C	ENSG00000151067	ENST00000335762	protein_coding	PUTATIVE	None	1390	6492	2163	2162464	2800576	1	CCHL1A1, CACNL1A1	Cav1.2, CACH2, CACN2, TS, LQT8
12	CACNA1C	ENSG00000151067	ENST00000399655	protein_coding	KNOWN	CCDS44794	1390	6417	2138	2162464	2802108	1	CCHL1A1, CACNL1A1	Cav1.2, CACH2, CACN2, TS, LQT8
12	CACNA1C	ENSG00000151067	ENST00000480911	protein_coding	PUTATIVE	None	1390	3840	1279	2162704	2724137	1	CCHL1A1, CACNL1A1	Cav1.2, CACH2, CACN2, TS, LQT8
12	CACNA1C	ENSG00000151067	ENST00000399595	protein_coding	KNOWN	CCDS44795	1390	6441	2146	2162729	2800459	1	CCHL1A1, CACNL1A1	Cav1.2, CACH2, CACN2, TS, LQT8
12	CACNA1C	ENSG00000151067	ENST00000399644	protein_coding	KNOWN	CCDS44798	1390	6417	2138	2162729	2800459	1	CCHL1A1, CACNL1A1	Cav1.2, CACH2, CACN2, TS, LQT8
12	CACNA1C	ENSG00000151067	ENST00000399638	protein_coding	KNOWN	CCDS44790	1390	6501	2166	2162729	2800459	1	CCHL1A1, CACNL1A1	Cav1.2, CACH2, CACN2, TS, LQT8
12	CACNA1C	ENSG00000151067	ENST00000399597	protein_coding	KNOWN	CCDS44791	1390	6417	2138	2162729	2800459	1	CCHL1A1, CACNL1A1	Cav1.2, CACH2, CACN2, TS, LQT8
12	CACNA1C	ENSG00000151067	ENST00000399621	protein_coding	KNOWN	CCDS44793	1390	6474	2157	2162729	2800459	1	CCHL1A1, CACNL1A1	Cav1.2, CACH2, CACN2, TS, LQT8
12	CACNA1C	ENSG00000151067	ENST00000399637	protein_coding	KNOWN	CCDS44799	1390	6474	2157	2162729	2800459	1	CCHL1A1, CACNL1A1	Cav1.2, CACH2, CACN2, TS, LQT8
12	CACNA1C	ENSG00000151067	ENST00000399591	protein_coding	KNOWN	CCDS44801	1390	6441	2146	2162729	2800459	1	CCHL1A1, CACNL1A1	Cav1.2, CACH2, CACN2, TS, LQT8
12	CACNA1C	ENSG00000151067	ENST00000399641	protein_coding	KNOWN	CCDS44787	1390	6417	2138	2162729	2800459	1	CCHL1A1, CACNL1A1	Cav1.2, CACH2, CACN2, TS, LQT8
12	CACNA1C	ENSG00000151067	ENST00000347598	protein_coding	KNOWN	CCDS44788	1390	6561	2186	2162729	2800459	1	CCHL1A1, CACNL1A1	Cav1.2, CACH2, CACN2, TS, LQT8
12	CACNA1C	ENSG00000151067	ENST00000399606	protein_coding	KNOWN	CCDS44789	1390	6477	2158	2162729	2800459	1	CCHL1A1, CACNL1A1	Cav1.2, CACH2, CACN2, TS, LQT8
12	CACNA1C	ENSG00000151067	ENST00000399601	protein_coding	KNOWN	CCDS44800	1390	6417	2138	2162729	2800459	1	CCHL1A1, CACNL1A1	Cav1.2, CACH2, CACN2, TS, LQT8
12	CACNA1C	ENSG00000151067	ENST00000344100	protein_coding	KNOWN	CCDS44792	1390	6540	2179	2162729	2800459	1	CCHL1A1, CACNL1A1	Cav1.2, CACH2, CACN2, TS, LQT8
12	CACNA1C	ENSG00000151067	ENST00000399629	protein_coding	KNOWN	CCDS44797	1390	6468	2155	2162729	2800459	1	CCHL1A1, CACNL1A1	Cav1.2, CACH2, CACN2, TS, LQT8
12	CACNA1C	ENSG00000151067	ENST00000327702	protein_coding	KNOWN	CCDS53736	1390	6522	2173	2162729	2800459	1	CCHL1A1, CACNL1A1	Cav1.2, CACH2, CACN2, TS, LQT8
12	CACNA1C	ENSG00000151067	ENST00000399649	protein_coding	KNOWN	CCDS44796	1390	6435	2144	2162729	2800459	1	CCHL1A1, CACNL1A1	Cav1.2, CACH2, CACN2, TS, LQT8
12	CACNA1C	ENSG00000151067	ENST00000402845	protein_coding	KNOWN	CCDS53735	1390	6474	2157	2162729	2800459	1	CCHL1A1, CACNL1A1	Cav1.2, CACH2, CACN2, TS, LQT8
12	CACNA1C	ENSG00000151067	ENST00000399603	protein_coding	KNOWN	CCDS53734	1390	6417	2138	2162729	2801325	1	CCHL1A1, CACNL1A1	Cav1.2, CACH2, CACN2, TS, LQT8
12	CACNA1C	ENSG00000151067	ENST00000399634	protein_coding	KNOWN	None	1390	6630	2209	2162729	2801325	1	CCHL1A1, CACNL1A1	Cav1.2, CACH2, CACN2, TS, LQT8
12	CACNA1C	ENSG00000151067	ENST00000399617	protein_coding	KNOWN	CCDS53733	1390	6522	2173	2162729	2801325	1	CCHL1A1, CACNL1A1	Cav1.2, CACH2, CACN2, TS, LQT8
12	CACNA1C	ENSG00000151067	ENST00000406454	protein_coding	PUTATIVE	None	1390	6630	2209	2162729	2801325	1	CCHL1A1, CACNL1A1	Cav1.2, CACH2, CACN2, TS, LQT8
12	CACNA1C	ENSG00000151067	ENST00000491104	processed_transcript	KNOWN	None	1390	None	None	2613602	2675748	1	CCHL1A1, CACNL1A1	Cav1.2, CACH2, CACN2, TS, LQT8
12	CACNA1C	ENSG00000151067	ENST00000465278	retained_intron	KNOWN	None	1390	None	None	2692050	2705372	1	CCHL1A1, CACNL1A1	Cav1.2, CACH2, CACN2, TS, LQT8
12	CACNA1C	ENSG00000151067	ENST00000496818	processed_transcript	KNOWN	None	1390	None	None	2717046	2719865	1	CCHL1A1, CACNL1A1	Cav1.2, CACH2, CACN2, TS, LQT8
12	CACNA1C	ENSG00000151067	ENST00000483136	processed_transcript	KNOWN	None	1390	None	None	2750624	2760913	1	CCHL1A1, CACNL1A1	Cav1.2, CACH2, CACN2, TS, LQT8
12	CACNA1C	ENSG00000151067	ENST00000492150	retained_intron	KNOWN	None	1390	None	None	2760229	2764359	1	CCHL1A1, CACNL1A1	Cav1.2, CACH2, CACN2, TS, LQT8
12	CACNA1C	ENSG00000151067	ENST00000465934	retained_intron	KNOWN	None	1390	None	None	2775782	2786979	1	CCHL1A1, CACNL1A1	Cav1.2, CACH2, CACN2, TS, LQT8
8	TRIM35	ENSG00000104228	ENST00000305364	protein_coding	KNOWN	CCDS6056	16285	1482	493	27142404	27168836	-1	None	KIAA1098, MAIR, HLS5
8	TRIM35	ENSG00000104228	ENST00000521283	protein_coding	PUTATIVE	None	16285	302	99	27143326	27151652	-1	None	KIAA1098, MAIR, HLS5
8	TRIM35	ENSG00000104228	ENST00000521253	protein_coding	NOVEL	None	16285	801	266	27145218	27168755	-1	None	KIAA1098, MAIR, HLS5
8	TRIM35	ENSG00000104228	ENST00000519219	retained_intron	KNOWN	None	16285	None	None	27151557	27168373	-1	None	KIAA1098, MAIR, HLS5
10	ACTBP14	ENSG00000229001	ENST00000411655	processed_pseudogene	KNOWN	None	45086	None	None	70782534	70783622	1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000257469	ENST00000552559	pseudogene	NOVEL	None	None	None	None	30413826	30413949	1	None	None
21	None	ENSG00000234034	ENST00000441759	lincRNA	KNOWN	None	None	None	None	23872924	23892377	-1	None	None
HSCHR6_MHC_MCF	None	ENSG00000258182	ENST00000552194	protein_coding	NOVEL	None	None	24	7	32729153	32732918	-1	None	None
21	RN7SL609P	ENSG00000263796	ENST00000581405	misc_RNA	KNOWN	None	46625	None	None	24052992	24053286	1	None	None
HSCHR6_MHC_SSTO	TMPOP1	ENSG00000230422	ENST00000413126	processed_pseudogene	KNOWN	None	21364	None	None	30423332	30424869	1	TMPOL1	Em:AB014080.3
21	None	ENSG00000225906	ENST00000438328	processed_pseudogene	KNOWN	None	None	None	None	24254903	24256321	1	None	None
21	None	ENSG00000230972	ENST00000421604	processed_transcript	KNOWN	None	None	None	None	24437813	24503528	1	None	None
HSCHR6_MHC_COX	GNL1	ENSG00000235986	ENST00000441604	protein_coding	KNOWN	None	4413	1824	607	30498998	30514796	-1	None	HSR1
HSCHR6_MHC_COX	GNL1	ENSG00000235986	ENST00000465483	retained_intron	KNOWN	None	4413	None	None	30504106	30510168	-1	None	HSR1
HSCHR6_MHC_COX	GNL1	ENSG00000235986	ENST00000492408	retained_intron	KNOWN	None	4413	None	None	30504817	30505438	-1	None	HSR1
HSCHR6_MHC_COX	GNL1	ENSG00000235986	ENST00000481420	retained_intron	KNOWN	None	4413	None	None	30509799	30510742	-1	None	HSR1
HSCHR6_MHC_COX	GNL1	ENSG00000235986	ENST00000450423	protein_coding	KNOWN	None	4413	792	263	30510982	30513710	-1	None	HSR1
HSCHR6_MHC_COX	GNL1	ENSG00000235986	ENST00000550904	protein_coding	KNOWN	None	4413	1290	429	30499006	30512266	-1	None	HSR1
21	ZNF299P	ENSG00000219368	ENST00000406845	processed_pseudogene	KNOWN	None	13088	None	None	24462350	24464153	-1	ZNF299, ZNF299P1	None
14	EGLN3	ENSG00000129521	ENST00000250457	protein_coding	KNOWN	CCDS9646	14661	720	239	34393437	34420287	-1	None	PHD3, HIFPH3
14	EGLN3	ENSG00000129521	ENST00000553215	protein_coding	PUTATIVE	None	14661	438	145	34394605	34420032	-1	None	PHD3, HIFPH3
14	EGLN3	ENSG00000129521	ENST00000556785	retained_intron	KNOWN	None	14661	None	None	34394717	34400542	-1	None	PHD3, HIFPH3
14	EGLN3	ENSG00000129521	ENST00000487915	protein_coding	PUTATIVE	None	14661	237	78	34398305	34692083	-1	None	PHD3, HIFPH3
14	EGLN3	ENSG00000129521	ENST00000547327	protein_coding	PUTATIVE	None	14661	447	148	34417439	34420287	-1	None	PHD3, HIFPH3
14	EGLN3	ENSG00000129521	ENST00000550114	processed_transcript	KNOWN	None	14661	None	None	34454359	34487861	-1	None	PHD3, HIFPH3
14	EGLN3	ENSG00000129521	ENST00000551935	processed_transcript	KNOWN	None	14661	None	None	34454587	34931980	-1	None	PHD3, HIFPH3
14	EGLN3	ENSG00000129521	ENST00000548285	processed_transcript	KNOWN	None	14661	None	None	34561523	34692159	-1	None	PHD3, HIFPH3
14	EGLN3	ENSG00000129521	ENST00000546681	processed_transcript	KNOWN	None	14661	None	None	34565369	34697020	-1	None	PHD3, HIFPH3
14	EGLN3	ENSG00000129521	ENST00000464521	processed_transcript	KNOWN	None	14661	None	None	34595459	34638972	-1	None	PHD3, HIFPH3
14	EGLN3	ENSG00000129521	ENST00000557521	processed_transcript	KNOWN	None	14661	None	None	34596235	34599250	-1	None	PHD3, HIFPH3
21	MSANTD2P1	ENSG00000231058	ENST00000445341	processed_pseudogene	KNOWN	None	39637	None	None	24473545	24475396	1	None	None
HSCHR6_MHC_MCF	HLA-DQA2	ENSG00000206301	ENST00000241802	protein_coding	KNOWN	None	4943	768	255	32742904	32748772	1	HLA-DXA	None
HSCHR6_MHC_MCF	HLA-DQA2	ENSG00000206301	ENST00000552622	protein_coding	KNOWN	None	4943	81	26	32743006	32743086	1	HLA-DXA	None
HSCHR6_MHC_MCF	HLA-DQA2	ENSG00000206301	ENST00000547960	protein_coding	KNOWN	None	4943	246	81	32746725	32746970	1	HLA-DXA	None
21	RNU2-55P	ENSG00000223078	ENST00000411146	snRNA	KNOWN	None	48548	None	None	24654058	24654231	-1	None	None
21	None	ENSG00000228592	ENST00000262354	processed_transcript	KNOWN	None	None	None	None	24733426	24757182	-1	None	None
12	CLEC7A	ENSG00000172243	ENST00000353231	protein_coding	KNOWN	CCDS8613	14558	606	201	10269376	10282840	-1	CLECSF12	dectin-1, hDectin-1
12	CLEC7A	ENSG00000172243	ENST00000534609	retained_intron	KNOWN	None	14558	None	None	10269376	10282856	-1	CLECSF12	dectin-1, hDectin-1
12	CLEC7A	ENSG00000172243	ENST00000529761	nonsense_mediated_decay	KNOWN	CCDS41753	14558	744	247	10269376	10282857	-1	CLECSF12	dectin-1, hDectin-1
12	CLEC7A	ENSG00000172243	ENST00000298523	protein_coding	KNOWN	CCDS53744	14558	432	143	10270461	10282752	-1	CLECSF12	dectin-1, hDectin-1
12	CLEC7A	ENSG00000172243	ENST00000396484	protein_coding	KNOWN	CCDS8614	14558	507	168	10270667	10282784	-1	CLECSF12	dectin-1, hDectin-1
12	CLEC7A	ENSG00000172243	ENST00000304084	protein_coding	KNOWN	CCDS41753	14558	744	247	10270826	10282836	-1	CLECSF12	dectin-1, hDectin-1
12	CLEC7A	ENSG00000172243	ENST00000465100	nonsense_mediated_decay	KNOWN	None	14558	351	116	10271057	10282681	-1	CLECSF12	dectin-1, hDectin-1
12	CLEC7A	ENSG00000172243	ENST00000349926	nonsense_mediated_decay	KNOWN	None	14558	138	45	10271057	10282681	-1	CLECSF12	dectin-1, hDectin-1
12	CLEC7A	ENSG00000172243	ENST00000533022	protein_coding	KNOWN	CCDS41754	14558	570	189	10271057	10282681	-1	CLECSF12	dectin-1, hDectin-1
12	CLEC7A	ENSG00000172243	ENST00000531192	nonsense_mediated_decay	KNOWN	None	14558	579	192	10271148	10282856	-1	CLECSF12	dectin-1, hDectin-1
12	CLEC7A	ENSG00000172243	ENST00000528799	retained_intron	KNOWN	None	14558	None	None	10277345	10282782	-1	CLECSF12	dectin-1, hDectin-1
12	CLEC7A	ENSG00000172243	ENST00000310002	protein_coding	KNOWN	CCDS8617	14558	234	77	10279926	10282788	-1	CLECSF12	dectin-1, hDectin-1
12	CLEC7A	ENSG00000172243	ENST00000525605	protein_coding	PUTATIVE	None	14558	411	136	10280045	10282856	-1	CLECSF12	dectin-1, hDectin-1
21	EEF1A1P1	ENSG00000223822	ENST00000447052	processed_pseudogene	KNOWN	None	3191	None	None	24762579	24763317	1	EEF1A1P	None
11	PRKCDBP	ENSG00000170955	ENST00000532354	retained_intron	KNOWN	None	9400	None	None	6340176	6341292	-1	None	SRBC, HSRBC, MGC20400, cavin-3, CAVIN3
11	PRKCDBP	ENSG00000170955	ENST00000303927	protein_coding	KNOWN	CCDS7762	9400	786	261	6340176	6341877	-1	None	SRBC, HSRBC, MGC20400, cavin-3, CAVIN3
11	PRKCDBP	ENSG00000170955	ENST00000524852	retained_intron	KNOWN	None	9400	None	None	6340360	6341385	-1	None	SRBC, HSRBC, MGC20400, cavin-3, CAVIN3
11	PRKCDBP	ENSG00000170955	ENST00000530979	protein_coding	PUTATIVE	None	9400	882	293	6340374	6341762	-1	None	SRBC, HSRBC, MGC20400, cavin-3, CAVIN3
HSCHR6_MHC_SSTO	SUCLA2P1	ENSG00000237865	ENST00000418962	processed_pseudogene	KNOWN	None	21632	None	None	30425679	30427048	1	SUCLA2P	Em:AB014080.4
HSCHR6_MHC_SSTO	SUCLA2P1	ENSG00000237865	ENST00000546597	pseudogene	KNOWN	None	21632	None	None	30426420	30427048	1	SUCLA2P	Em:AB014080.4
2	FAM110C	ENSG00000184731	ENST00000327669	protein_coding	KNOWN	CCDS42645	33340	966	321	38814	46385	-1	None	None
2	FAM110C	ENSG00000184731	ENST00000460464	processed_transcript	KNOWN	None	33340	None	None	41220	42952	-1	None	None
2	FAM110C	ENSG00000184731	ENST00000461026	processed_transcript	KNOWN	None	33340	None	None	41221	46870	-1	None	None
21	TUBAP	ENSG00000237569	ENST00000425085	processed_pseudogene	KNOWN	None	12411	None	None	24779978	24781448	-1	None	None
HSCHR6_MHC_SSTO	RANP1	ENSG00000137321	ENST00000445266	processed_pseudogene	KNOWN	None	21631	None	None	30445152	30445802	1	None	Em:AB014080.2
1	TMEM9	ENSG00000116857	ENST00000367334	protein_coding	KNOWN	CCDS1408	18823	552	183	201103900	201123622	-1	None	TMEM9A
1	TMEM9	ENSG00000116857	ENST00000472411	processed_transcript	KNOWN	None	18823	None	None	201103901	201114796	-1	None	TMEM9A
1	TMEM9	ENSG00000116857	ENST00000367329	protein_coding	KNOWN	CCDS1408	18823	552	183	201103901	201123561	-1	None	TMEM9A
1	TMEM9	ENSG00000116857	ENST00000367330	protein_coding	KNOWN	CCDS1408	18823	552	183	201103901	201123568	-1	None	TMEM9A
1	TMEM9	ENSG00000116857	ENST00000367332	protein_coding	KNOWN	None	18823	561	186	201103901	201123629	-1	None	TMEM9A
1	TMEM9	ENSG00000116857	ENST00000367333	protein_coding	KNOWN	None	18823	561	186	201103901	201140702	-1	None	TMEM9A
1	TMEM9	ENSG00000116857	ENST00000485839	processed_transcript	KNOWN	None	18823	None	None	201104615	201123561	-1	None	TMEM9A
1	TMEM9	ENSG00000116857	ENST00000495205	processed_transcript	KNOWN	None	18823	None	None	201104637	201123089	-1	None	TMEM9A
1	TMEM9	ENSG00000116857	ENST00000497582	nonsense_mediated_decay	KNOWN	None	18823	297	98	201104752	201123566	-1	None	TMEM9A
1	TMEM9	ENSG00000116857	ENST00000455367	protein_coding	KNOWN	None	18823	453	150	201104911	201123085	-1	None	TMEM9A
1	TMEM9	ENSG00000116857	ENST00000435310	protein_coding	KNOWN	None	18823	414	137	201104929	201123546	-1	None	TMEM9A
1	TMEM9	ENSG00000116857	ENST00000414605	protein_coding	KNOWN	None	18823	342	113	201115868	201123591	-1	None	TMEM9A
20	CSE1L	ENSG00000124207	ENST00000262982	protein_coding	KNOWN	CCDS13412	2431	2916	971	47662849	47713489	1	None	CAS, XPO2, CSE1
20	CSE1L	ENSG00000124207	ENST00000469700	processed_transcript	KNOWN	None	2431	None	None	47707300	47713489	1	None	CAS, XPO2, CSE1
20	CSE1L	ENSG00000124207	ENST00000396192	protein_coding	KNOWN	CCDS58773	2431	2748	915	47675001	47712976	1	None	CAS, XPO2, CSE1
20	CSE1L	ENSG00000124207	ENST00000542325	protein_coding	KNOWN	None	2431	2265	754	47662862	47713123	1	None	CAS, XPO2, CSE1
HSCHR6_MHC_SSTO	None	ENSG00000257712	ENST00000547516	pseudogene	NOVEL	None	None	None	None	30447513	30447597	1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000257177	ENST00000548287	pseudogene	NOVEL	None	None	None	None	30447934	30448060	-1	None	None
21	None	ENSG00000199698	ENST00000362828	misc_RNA	NOVEL	None	None	None	None	24804501	24804602	-1	None	None
2	DPP4	ENSG00000197635	ENST00000360534	protein_coding	KNOWN	CCDS2216	3009	2301	766	162848751	162931052	-1	CD26, ADCP2	DPPIV
2	DPP4	ENSG00000197635	ENST00000434918	nonsense_mediated_decay	KNOWN	None	3009	513	170	162849793	162930632	-1	CD26, ADCP2	DPPIV
2	DPP4	ENSG00000197635	ENST00000491591	processed_transcript	KNOWN	None	3009	None	None	162851471	162874061	-1	CD26, ADCP2	DPPIV
2	DPP4	ENSG00000197635	ENST00000490286	retained_intron	KNOWN	None	3009	None	None	162851688	162929996	-1	CD26, ADCP2	DPPIV
2	DPP4	ENSG00000197635	ENST00000494507	retained_intron	KNOWN	None	3009	None	None	162862155	162870972	-1	CD26, ADCP2	DPPIV
2	DPP4	ENSG00000197635	ENST00000468903	processed_transcript	KNOWN	None	3009	None	None	162873330	162878103	-1	CD26, ADCP2	DPPIV
2	DPP4	ENSG00000197635	ENST00000416189	nonsense_mediated_decay	KNOWN	None	3009	260	85	162894852	162904008	-1	CD26, ADCP2	DPPIV
2	DPP4	ENSG00000197635	ENST00000497461	processed_transcript	KNOWN	None	3009	None	None	162894852	162930106	-1	CD26, ADCP2	DPPIV
2	DPP4	ENSG00000197635	ENST00000461836	retained_intron	KNOWN	None	3009	None	None	162894884	162929973	-1	CD26, ADCP2	DPPIV
2	DPP4	ENSG00000197635	ENST00000413651	nonsense_mediated_decay	KNOWN	None	3009	357	118	162895498	162930512	-1	CD26, ADCP2	DPPIV
21	None	ENSG00000227716	ENST00000433101	lincRNA	KNOWN	None	None	None	None	24849960	24863043	1	None	None
21	None	ENSG00000231986	ENST00000441465	lincRNA	KNOWN	None	None	None	None	25261114	25262857	-1	None	None
10	SORBS1	ENSG00000095637	ENST00000371227	protein_coding	NOVEL	None	14565	3801	1266	97071528	97321135	-1	SH3D5	FLJ12406, CAP, sh3p12, ponsin, KIAA1296
10	SORBS1	ENSG00000095637	ENST00000371249	protein_coding	KNOWN	CCDS7442	14565	2451	816	97071530	97321135	-1	SH3D5	FLJ12406, CAP, sh3p12, ponsin, KIAA1296
10	SORBS1	ENSG00000095637	ENST00000306402	protein_coding	KNOWN	CCDS31253	14565	2346	781	97071530	97321171	-1	SH3D5	FLJ12406, CAP, sh3p12, ponsin, KIAA1296
10	SORBS1	ENSG00000095637	ENST00000607232	protein_coding	KNOWN	None	14565	3885	1294	97074494	97321112	-1	SH3D5	FLJ12406, CAP, sh3p12, ponsin, KIAA1296
10	SORBS1	ENSG00000095637	ENST00000361941	protein_coding	KNOWN	CCDS31255	14565	3879	1292	97074782	97200919	-1	SH3D5	FLJ12406, CAP, sh3p12, ponsin, KIAA1296
10	SORBS1	ENSG00000095637	ENST00000277982	protein_coding	KNOWN	CCDS31254	14565	3456	1151	97074782	97200919	-1	SH3D5	FLJ12406, CAP, sh3p12, ponsin, KIAA1296
10	SORBS1	ENSG00000095637	ENST00000371245	protein_coding	KNOWN	CCDS31256	14565	2718	905	97074782	97200919	-1	SH3D5	FLJ12406, CAP, sh3p12, ponsin, KIAA1296
10	SORBS1	ENSG00000095637	ENST00000371241	protein_coding	KNOWN	CCDS31252	14565	2055	684	97074816	97200892	-1	SH3D5	FLJ12406, CAP, sh3p12, ponsin, KIAA1296
10	SORBS1	ENSG00000095637	ENST00000354106	protein_coding	KNOWN	None	14565	3015	1004	97074816	97200892	-1	SH3D5	FLJ12406, CAP, sh3p12, ponsin, KIAA1296
10	SORBS1	ENSG00000095637	ENST00000371239	protein_coding	KNOWN	None	14565	2436	811	97074816	97200892	-1	SH3D5	FLJ12406, CAP, sh3p12, ponsin, KIAA1296
10	SORBS1	ENSG00000095637	ENST00000474353	processed_transcript	KNOWN	None	14565	None	None	97101341	97321130	-1	SH3D5	FLJ12406, CAP, sh3p12, ponsin, KIAA1296
10	SORBS1	ENSG00000095637	ENST00000371228	protein_coding	NOVEL	None	14565	558	185	97101431	97115803	-1	SH3D5	FLJ12406, CAP, sh3p12, ponsin, KIAA1296
10	SORBS1	ENSG00000095637	ENST00000472854	processed_transcript	KNOWN	None	14565	None	None	97141170	97144042	-1	SH3D5	FLJ12406, CAP, sh3p12, ponsin, KIAA1296
10	SORBS1	ENSG00000095637	ENST00000465489	processed_transcript	KNOWN	None	14565	None	None	97143808	97173521	-1	SH3D5	FLJ12406, CAP, sh3p12, ponsin, KIAA1296
10	SORBS1	ENSG00000095637	ENST00000486141	protein_coding	PUTATIVE	None	14565	575	190	97158774	97175452	-1	SH3D5	FLJ12406, CAP, sh3p12, ponsin, KIAA1296
10	SORBS1	ENSG00000095637	ENST00000492542	protein_coding	NOVEL	None	14565	437	144	97174501	97242428	-1	SH3D5	FLJ12406, CAP, sh3p12, ponsin, KIAA1296
10	SORBS1	ENSG00000095637	ENST00000482068	processed_transcript	KNOWN	None	14565	None	None	97250494	97252942	-1	SH3D5	FLJ12406, CAP, sh3p12, ponsin, KIAA1296
10	SORBS1	ENSG00000095637	ENST00000371247	protein_coding	KNOWN	CCDS31255	14565	3879	1292	97071531	97321135	-1	SH3D5	FLJ12406, CAP, sh3p12, ponsin, KIAA1296
10	SORBS1	ENSG00000095637	ENST00000371246	protein_coding	KNOWN	CCDS31254	14565	3456	1151	97071531	97321135	-1	SH3D5	FLJ12406, CAP, sh3p12, ponsin, KIAA1296
10	SORBS1	ENSG00000095637	ENST00000393949	protein_coding	KNOWN	None	14565	3015	1004	97071531	97321135	-1	SH3D5	FLJ12406, CAP, sh3p12, ponsin, KIAA1296
10	SORBS1	ENSG00000095637	ENST00000353505	protein_coding	KNOWN	CCDS31256	14565	2718	905	97071531	97321135	-1	SH3D5	FLJ12406, CAP, sh3p12, ponsin, KIAA1296
10	SORBS1	ENSG00000095637	ENST00000347291	protein_coding	KNOWN	None	14565	2541	846	97071531	97321135	-1	SH3D5	FLJ12406, CAP, sh3p12, ponsin, KIAA1296
13	GPR180	ENSG00000152749	ENST00000376958	protein_coding	KNOWN	CCDS9472	28899	1323	440	95254157	95286899	1	None	ITR
HSCHR6_MHC_MCF	HLA-DQB2	ENSG00000228254	ENST00000432486	protein_coding	KNOWN	None	4945	807	268	32757661	32765100	-1	HLA-DXB	None
HSCHR6_MHC_MCF	HLA-DQB2	ENSG00000228254	ENST00000428972	protein_coding	KNOWN	None	4945	696	231	32757661	32765056	-1	HLA-DXB	None
HSCHR6_MHC_MCF	HLA-DQB2	ENSG00000228254	ENST00000442043	protein_coding	KNOWN	None	4945	840	279	32757662	32765098	-1	HLA-DXB	None
HSCHR6_MHC_MCF	HLA-DQB2	ENSG00000228254	ENST00000447979	protein_coding	KNOWN	None	4945	656	217	32757951	32765032	-1	HLA-DXB	None
HSCHR6_MHC_MCF	HLA-DQB2	ENSG00000228254	ENST00000548910	protein_coding	KNOWN	None	4945	627	208	32757661	32765119	-1	HLA-DXB	None
21	None	ENSG00000235564	ENST00000447405	lincRNA	KNOWN	None	None	None	None	25333220	25339588	-1	None	None
11	SC5D	ENSG00000109929	ENST00000264027	protein_coding	KNOWN	CCDS8435	10547	900	299	121163162	121179403	1	SC5DL	None
11	SC5D	ENSG00000109929	ENST00000534455	retained_intron	KNOWN	None	10547	None	None	121163390	121175634	1	SC5DL	None
11	SC5D	ENSG00000109929	ENST00000531140	retained_intron	KNOWN	None	10547	None	None	121163468	121177450	1	SC5DL	None
11	SC5D	ENSG00000109929	ENST00000524683	retained_intron	KNOWN	None	10547	None	None	121163480	121176419	1	SC5DL	None
11	SC5D	ENSG00000109929	ENST00000527762	protein_coding	PUTATIVE	None	10547	533	176	121163480	121177833	1	SC5DL	None
11	SC5D	ENSG00000109929	ENST00000534230	protein_coding	NOVEL	None	10547	687	228	121163480	121179339	1	SC5DL	None
11	SC5D	ENSG00000109929	ENST00000392789	protein_coding	PUTATIVE	CCDS8435	10547	900	299	121163561	121179342	1	SC5DL	None
11	SC5D	ENSG00000109929	ENST00000528991	processed_transcript	KNOWN	None	10547	None	None	121175094	121177974	1	SC5DL	None
11	SC5D	ENSG00000109929	ENST00000527183	retained_intron	KNOWN	None	10547	None	None	121176459	121178552	1	SC5DL	None
21	None	ENSG00000226996	ENST00000415269	lincRNA	KNOWN	None	None	None	None	25415572	25415941	1	None	None
21	None	ENSG00000226996	ENST00000434859	lincRNA	KNOWN	None	None	None	None	25415572	25422601	1	None	None
2	BCL11A	ENSG00000119866	ENST00000356842	protein_coding	KNOWN	CCDS1861	13221	2322	773	60678302	60780634	-1	EVI9	BCL11A-XL, BCL11A-L, BCL11A-S, CTIP1, HBFQTL5, ZNF856
2	BCL11A	ENSG00000119866	ENST00000359629	protein_coding	KNOWN	CCDS46295	13221	732	243	60678302	60780702	-1	EVI9	BCL11A-XL, BCL11A-L, BCL11A-S, CTIP1, HBFQTL5, ZNF856
2	BCL11A	ENSG00000119866	ENST00000489516	processed_transcript	KNOWN	None	13221	None	None	60678916	60778049	-1	EVI9	BCL11A-XL, BCL11A-L, BCL11A-S, CTIP1, HBFQTL5, ZNF856
2	BCL11A	ENSG00000119866	ENST00000479026	processed_transcript	PUTATIVE	None	13221	None	None	60679289	60687590	-1	EVI9	BCL11A-XL, BCL11A-L, BCL11A-S, CTIP1, HBFQTL5, ZNF856
2	BCL11A	ENSG00000119866	ENST00000492272	processed_transcript	KNOWN	None	13221	None	None	60679712	60755670	-1	EVI9	BCL11A-XL, BCL11A-L, BCL11A-S, CTIP1, HBFQTL5, ZNF856
2	BCL11A	ENSG00000119866	ENST00000335712	protein_coding	KNOWN	CCDS1862	13221	2508	835	60684333	60780633	-1	EVI9	BCL11A-XL, BCL11A-L, BCL11A-S, CTIP1, HBFQTL5, ZNF856
2	BCL11A	ENSG00000119866	ENST00000477659	processed_transcript	KNOWN	None	13221	None	None	60686955	60763341	-1	EVI9	BCL11A-XL, BCL11A-L, BCL11A-S, CTIP1, HBFQTL5, ZNF856
2	BCL11A	ENSG00000119866	ENST00000358510	protein_coding	KNOWN	None	13221	2406	801	60687409	60780566	-1	EVI9	BCL11A-XL, BCL11A-L, BCL11A-S, CTIP1, HBFQTL5, ZNF856
2	BCL11A	ENSG00000119866	ENST00000409351	processed_transcript	PUTATIVE	None	13221	None	None	60769017	60780635	-1	EVI9	BCL11A-XL, BCL11A-L, BCL11A-S, CTIP1, HBFQTL5, ZNF856
2	BCL11A	ENSG00000119866	ENST00000489183	processed_transcript	PUTATIVE	None	13221	None	None	60771365	60773315	-1	EVI9	BCL11A-XL, BCL11A-L, BCL11A-S, CTIP1, HBFQTL5, ZNF856
2	BCL11A	ENSG00000119866	ENST00000538214	protein_coding	KNOWN	None	13221	2382	793	60679557	60780540	-1	EVI9	BCL11A-XL, BCL11A-L, BCL11A-S, CTIP1, HBFQTL5, ZNF856
2	BCL11A	ENSG00000119866	ENST00000537768	protein_coding	KNOWN	None	13221	1329	442	60679635	60780617	-1	EVI9	BCL11A-XL, BCL11A-L, BCL11A-S, CTIP1, HBFQTL5, ZNF856
21	None	ENSG00000224018	ENST00000448063	lincRNA	KNOWN	None	None	None	None	25527484	25560655	-1	None	None
21	None	ENSG00000224832	ENST00000416218	lincRNA	KNOWN	None	None	None	None	25676863	25693690	-1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000257646	ENST00000549297	pseudogene	NOVEL	None	None	None	None	30451049	30451133	1	None	None
21	None	ENSG00000237484	ENST00000453784	processed_transcript	KNOWN	None	None	None	None	25801054	25862621	1	None	None
21	None	ENSG00000237484	ENST00000423581	processed_transcript	KNOWN	None	None	None	None	25801072	25813638	1	None	None
21	None	ENSG00000237484	ENST00000415182	processed_transcript	KNOWN	None	None	None	None	25801095	25920256	1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000257457	ENST00000546486	pseudogene	NOVEL	None	None	None	None	30457572	30458162	1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000257902	ENST00000552393	pseudogene	NOVEL	None	None	None	None	30462426	30462546	1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000257338	ENST00000546610	pseudogene	NOVEL	None	None	None	None	30463127	30463248	-1	None	None
17	RFFL	ENSG00000092871	ENST00000315249	protein_coding	KNOWN	CCDS11286	24821	1092	363	33333009	33416338	-1	None	rififylin, fring, RNF189, RNF34L
17	RFFL	ENSG00000092871	ENST00000580569	processed_transcript	PUTATIVE	None	24821	None	None	33334265	33335251	-1	None	rififylin, fring, RNF189, RNF34L
17	RFFL	ENSG00000092871	ENST00000584655	protein_coding	KNOWN	None	24821	984	327	33336131	33416314	-1	None	rififylin, fring, RNF189, RNF34L
17	RFFL	ENSG00000092871	ENST00000394597	protein_coding	KNOWN	CCDS11286	24821	1092	363	33336137	33390871	-1	None	rififylin, fring, RNF189, RNF34L
17	RFFL	ENSG00000092871	ENST00000447669	protein_coding	KNOWN	CCDS11286	24821	1092	363	33338633	33416334	-1	None	rififylin, fring, RNF189, RNF34L
17	RFFL	ENSG00000092871	ENST00000415395	protein_coding	KNOWN	CCDS11286	24821	1092	363	33338698	33369370	-1	None	rififylin, fring, RNF189, RNF34L
17	RFFL	ENSG00000092871	ENST00000413582	protein_coding	KNOWN	None	24821	1068	355	33338928	33369316	-1	None	rififylin, fring, RNF189, RNF34L
17	RFFL	ENSG00000092871	ENST00000581039	protein_coding	NOVEL	None	24821	424	140	33339021	33348430	-1	None	rififylin, fring, RNF189, RNF34L
17	RFFL	ENSG00000092871	ENST00000584541	processed_transcript	KNOWN	None	24821	None	None	33339068	33416266	-1	None	rififylin, fring, RNF189, RNF34L
17	RFFL	ENSG00000092871	ENST00000582308	protein_coding	NOVEL	None	24821	383	126	33343481	33353587	-1	None	rififylin, fring, RNF189, RNF34L
17	RFFL	ENSG00000092871	ENST00000414419	protein_coding	KNOWN	None	24821	456	151	33348525	33415854	-1	None	rififylin, fring, RNF189, RNF34L
17	RFFL	ENSG00000092871	ENST00000581265	nonsense_mediated_decay	KNOWN	None	24821	183	60	33348641	33416213	-1	None	rififylin, fring, RNF189, RNF34L
17	RFFL	ENSG00000092871	ENST00000378516	protein_coding	KNOWN	None	24821	1068	355	33336131	33390759	-1	None	rififylin, fring, RNF189, RNF34L
17	RFFL	ENSG00000092871	ENST00000268850	protein_coding	KNOWN	None	24821	984	327	33336131	33390759	-1	None	rififylin, fring, RNF189, RNF34L
HSCHR6_MHC_SSTO	None	ENSG00000258269	ENST00000548648	pseudogene	NOVEL	None	None	None	None	30468900	30468972	1	None	None
19	ZNF880	ENSG00000221923	ENST00000424032	protein_coding	PUTATIVE	None	37249	378	125	52873170	52887222	1	None	None
19	ZNF880	ENSG00000221923	ENST00000600321	protein_coding	PUTATIVE	None	37249	378	125	52873189	52883328	1	None	None
19	ZNF880	ENSG00000221923	ENST00000344085	protein_coding	KNOWN	None	37249	297	98	52873192	52877970	1	None	None
19	ZNF880	ENSG00000221923	ENST00000597976	protein_coding	PUTATIVE	None	37249	354	117	52873199	52877883	1	None	None
19	ZNF880	ENSG00000221923	ENST00000422689	protein_coding	KNOWN	CCDS46164	37249	1734	577	52873204	52889048	1	None	None
19	ZNF880	ENSG00000221923	ENST00000595099	processed_transcript	KNOWN	None	37249	None	None	52873346	52876404	1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000257428	ENST00000551437	pseudogene	NOVEL	None	None	None	None	30470622	30470706	-1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000258004	ENST00000553103	pseudogene	NOVEL	None	None	None	None	30471722	30471809	-1	None	None
1	NCDN	ENSG00000020129	ENST00000373253	protein_coding	KNOWN	CCDS30672	17597	2139	712	36023074	36032373	1	None	NCDN-1, NCDN-2
1	NCDN	ENSG00000020129	ENST00000356090	protein_coding	KNOWN	CCDS392	17597	2190	729	36023393	36032380	1	None	NCDN-1, NCDN-2
1	NCDN	ENSG00000020129	ENST00000373243	protein_coding	KNOWN	CCDS392	17597	2190	729	36023409	36032374	1	None	NCDN-1, NCDN-2
1	NCDN	ENSG00000020129	ENST00000459931	processed_transcript	KNOWN	None	17597	None	None	36023432	36026444	1	None	NCDN-1, NCDN-2
1	NCDN	ENSG00000020129	ENST00000437806	protein_coding	KNOWN	None	17597	732	243	36024107	36026535	1	None	NCDN-1, NCDN-2
1	NCDN	ENSG00000020129	ENST00000423723	protein_coding	KNOWN	None	17597	581	192	36028069	36032875	1	None	NCDN-1, NCDN-2
HSCHR6_MHC_SSTO	None	ENSG00000232523	ENST00000436737	processed_transcript	PUTATIVE	None	None	None	None	30475463	30478417	1	None	None
6	SCUBE3	ENSG00000146197	ENST00000274938	protein_coding	KNOWN	CCDS4800	13655	2982	993	35182196	35220856	1	CEGF3	FLJ34743
6	SCUBE3	ENSG00000146197	ENST00000394681	protein_coding	KNOWN	None	13655	3030	1009	35182190	35218609	1	CEGF3	FLJ34743
HSCHR6_MHC_SSTO	None	ENSG00000257798	ENST00000552131	pseudogene	NOVEL	None	None	None	None	30489684	30490770	1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000257554	ENST00000549611	pseudogene	NOVEL	None	None	None	None	30492089	30492213	1	None	None
Y	RNU6-521P	ENSG00000252472	ENST00000516663	snRNA	KNOWN	None	47484	None	None	7291095	7291199	-1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000257333	ENST00000549317	pseudogene	NOVEL	None	None	None	None	30508204	30508325	1	None	None
Y	RBMY2HP	ENSG00000238073	ENST00000457961	unprocessed_pseudogene	KNOWN	None	23893	None	None	7539784	7544065	-1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000264579	ENST00000582497	miRNA	KNOWN	None	None	None	None	30543533	30543618	1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000272450	ENST00000606350	miRNA	KNOWN	None	None	None	None	30575427	30575503	-1	None	None
HSCHR6_MHC_SSTO	PTMAP1	ENSG00000224889	ENST00000457022	processed_pseudogene	KNOWN	None	9624	None	None	30592831	30593097	1	None	Em:AB023049.6
HSCHR6_MHC_SSTO	PTMAP1	ENSG00000224889	ENST00000551167	pseudogene	KNOWN	None	9624	None	None	30592831	30593075	1	None	Em:AB023049.6
X	SMARCA1	ENSG00000102038	ENST00000371123	protein_coding	KNOWN	CCDS48164	11097	3129	1042	128580482	128657477	-1	SNF2L1, SNF2L	SNF2LB, NURF140, ISWI, SWI
X	SMARCA1	ENSG00000102038	ENST00000371122	protein_coding	KNOWN	CCDS14612	11097	3165	1054	128580482	128657477	-1	SNF2L1, SNF2L	SNF2LB, NURF140, ISWI, SWI
X	SMARCA1	ENSG00000102038	ENST00000450039	protein_coding	KNOWN	None	11097	3017	1004	128582371	128657420	-1	SNF2L1, SNF2L	SNF2LB, NURF140, ISWI, SWI
X	SMARCA1	ENSG00000102038	ENST00000478420	processed_transcript	KNOWN	None	11097	None	None	128642032	128657223	-1	SNF2L1, SNF2L	SNF2LB, NURF140, ISWI, SWI
X	SMARCA1	ENSG00000102038	ENST00000371121	protein_coding	KNOWN	CCDS48164	11097	3129	1042	128580480	128657460	-1	SNF2L1, SNF2L	SNF2LB, NURF140, ISWI, SWI
8	KHDRBS3	ENSG00000131773	ENST00000355849	protein_coding	KNOWN	CCDS6374	18117	1041	346	136469700	136659853	1	None	T-STAR, Etle, etoile, SALP, SLM2, SLM-2
8	KHDRBS3	ENSG00000131773	ENST00000524199	protein_coding	PUTATIVE	None	18117	796	264	136470330	136619270	1	None	T-STAR, Etle, etoile, SALP, SLM2, SLM-2
8	KHDRBS3	ENSG00000131773	ENST00000520981	protein_coding	PUTATIVE	None	18117	360	119	136470790	136659853	1	None	T-STAR, Etle, etoile, SALP, SLM2, SLM-2
8	KHDRBS3	ENSG00000131773	ENST00000517394	protein_coding	PUTATIVE	None	18117	482	159	136470950	136569782	1	None	T-STAR, Etle, etoile, SALP, SLM2, SLM-2
8	KHDRBS3	ENSG00000131773	ENST00000519600	retained_intron	KNOWN	None	18117	None	None	136550777	136562225	1	None	T-STAR, Etle, etoile, SALP, SLM2, SLM-2
8	KHDRBS3	ENSG00000131773	ENST00000517859	nonsense_mediated_decay	KNOWN	None	18117	589	195	136554917	136659662	1	None	T-STAR, Etle, etoile, SALP, SLM2, SLM-2
8	KHDRBS3	ENSG00000131773	ENST00000524282	protein_coding	PUTATIVE	None	18117	585	194	136554946	136659269	1	None	T-STAR, Etle, etoile, SALP, SLM2, SLM-2
8	KHDRBS3	ENSG00000131773	ENST00000522079	processed_transcript	KNOWN	None	18117	None	None	136569699	136668710	1	None	T-STAR, Etle, etoile, SALP, SLM2, SLM-2
8	KHDRBS3	ENSG00000131773	ENST00000522433	processed_transcript	KNOWN	None	18117	None	None	136605574	136659427	1	None	T-STAR, Etle, etoile, SALP, SLM2, SLM-2
8	KHDRBS3	ENSG00000131773	ENST00000518728	processed_transcript	PUTATIVE	None	18117	None	None	136619199	136659501	1	None	T-STAR, Etle, etoile, SALP, SLM2, SLM-2
8	KHDRBS3	ENSG00000131773	ENST00000521461	nonsense_mediated_decay	KNOWN	None	18117	179	58	136619253	136668965	1	None	T-STAR, Etle, etoile, SALP, SLM2, SLM-2
8	KHDRBS3	ENSG00000131773	ENST00000522578	processed_transcript	PUTATIVE	None	18117	None	None	136659978	136668756	1	None	T-STAR, Etle, etoile, SALP, SLM2, SLM-2
16	C16orf70	ENSG00000125149	ENST00000563853	protein_coding	KNOWN	None	29564	962	319	67143861	67178279	1	C16orf6, LIN10	lin-10, FLJ12076
16	C16orf70	ENSG00000125149	ENST00000569914	protein_coding	PUTATIVE	None	29564	668	221	67143865	67173977	1	C16orf6, LIN10	lin-10, FLJ12076
16	C16orf70	ENSG00000125149	ENST00000569600	protein_coding	NOVEL	CCDS10828	29564	1269	422	67143866	67181034	1	C16orf6, LIN10	lin-10, FLJ12076
16	C16orf70	ENSG00000125149	ENST00000219139	protein_coding	KNOWN	CCDS10828	29564	1269	422	67143891	67182442	1	C16orf6, LIN10	lin-10, FLJ12076
16	C16orf70	ENSG00000125149	ENST00000569683	processed_transcript	KNOWN	None	29564	None	None	67144020	67168715	1	C16orf6, LIN10	lin-10, FLJ12076
16	C16orf70	ENSG00000125149	ENST00000566026	protein_coding	PUTATIVE	None	29564	496	164	67144050	67168289	1	C16orf6, LIN10	lin-10, FLJ12076
16	C16orf70	ENSG00000125149	ENST00000569626	retained_intron	KNOWN	None	29564	None	None	67153998	67170211	1	C16orf6, LIN10	lin-10, FLJ12076
16	C16orf70	ENSG00000125149	ENST00000565900	retained_intron	KNOWN	None	29564	None	None	67165892	67166837	1	C16orf6, LIN10	lin-10, FLJ12076
16	C16orf70	ENSG00000125149	ENST00000561683	processed_transcript	PUTATIVE	None	29564	None	None	67168675	67170213	1	C16orf6, LIN10	lin-10, FLJ12076
16	C16orf70	ENSG00000125149	ENST00000567162	retained_intron	KNOWN	None	29564	None	None	67173537	67178780	1	C16orf6, LIN10	lin-10, FLJ12076
16	C16orf70	ENSG00000125149	ENST00000569277	protein_coding	PUTATIVE	None	29564	295	97	67180187	67181610	1	C16orf6, LIN10	lin-10, FLJ12076
1	CSDE1	ENSG00000009307	ENST00000339438	protein_coding	KNOWN	CCDS30811	29905	2304	767	115259534	115300604	-1	None	D1S155E, UNR
1	CSDE1	ENSG00000009307	ENST00000438362	protein_coding	NOVEL	CCDS55626	29905	2535	844	115259537	115292811	-1	None	D1S155E, UNR
1	CSDE1	ENSG00000009307	ENST00000358528	protein_coding	KNOWN	CCDS30812	29905	2397	798	115259538	115300585	-1	None	D1S155E, UNR
1	CSDE1	ENSG00000009307	ENST00000261443	protein_coding	KNOWN	CCDS30811	29905	2304	767	115259916	115300595	-1	None	D1S155E, UNR
1	CSDE1	ENSG00000009307	ENST00000530886	protein_coding	PUTATIVE	None	29905	2007	668	115259926	115300648	-1	None	D1S155E, UNR
1	CSDE1	ENSG00000009307	ENST00000369530	protein_coding	KNOWN	CCDS44197	29905	2442	813	115259933	115300624	-1	None	D1S155E, UNR
1	CSDE1	ENSG00000009307	ENST00000483407	processed_transcript	KNOWN	None	29905	None	None	115260423	115261559	-1	None	D1S155E, UNR
1	CSDE1	ENSG00000009307	ENST00000534699	protein_coding	KNOWN	CCDS30812	29905	2397	798	115260578	115300603	-1	None	D1S155E, UNR
1	CSDE1	ENSG00000009307	ENST00000483030	retained_intron	KNOWN	None	29905	None	None	115262837	115268969	-1	None	D1S155E, UNR
1	CSDE1	ENSG00000009307	ENST00000530784	retained_intron	KNOWN	None	29905	None	None	115263199	115266908	-1	None	D1S155E, UNR
1	CSDE1	ENSG00000009307	ENST00000529046	protein_coding	PUTATIVE	None	29905	410	135	115276390	115300608	-1	None	D1S155E, UNR
1	CSDE1	ENSG00000009307	ENST00000525132	protein_coding	PUTATIVE	None	29905	110	35	115279379	115300590	-1	None	D1S155E, UNR
1	CSDE1	ENSG00000009307	ENST00000534389	protein_coding	KNOWN	None	29905	284	93	115280609	115289480	-1	None	D1S155E, UNR
1	CSDE1	ENSG00000009307	ENST00000525878	protein_coding	KNOWN	None	29905	138	45	115282374	115301297	-1	None	D1S155E, UNR
1	CSDE1	ENSG00000009307	ENST00000525970	protein_coding	KNOWN	None	29905	21	6	115282491	115300608	-1	None	D1S155E, UNR
1	CSDE1	ENSG00000009307	ENST00000533818	processed_transcript	KNOWN	None	29905	None	None	115290938	115300608	-1	None	D1S155E, UNR
1	CSDE1	ENSG00000009307	ENST00000524652	processed_transcript	KNOWN	None	29905	None	None	115292442	115300608	-1	None	D1S155E, UNR
7	SHH	ENSG00000164690	ENST00000297261	protein_coding	KNOWN	CCDS5942	10848	1389	462	155592680	155604967	-1	HPE3, HLP3	HHG1, SMMCI, TPT, TPTPS, MCOPCB5
7	SHH	ENSG00000164690	ENST00000441114	nonsense_mediated_decay	KNOWN	None	10848	381	126	155592733	155601766	-1	HPE3, HLP3	HHG1, SMMCI, TPT, TPTPS, MCOPCB5
7	SHH	ENSG00000164690	ENST00000430104	protein_coding	PUTATIVE	None	10848	507	168	155592734	155601766	-1	HPE3, HLP3	HHG1, SMMCI, TPT, TPTPS, MCOPCB5
7	SHH	ENSG00000164690	ENST00000435425	nonsense_mediated_decay	KNOWN	None	10848	372	123	155592744	155601766	-1	HPE3, HLP3	HHG1, SMMCI, TPT, TPTPS, MCOPCB5
7	SHH	ENSG00000164690	ENST00000472308	processed_transcript	KNOWN	None	10848	None	None	155599276	155600064	-1	HPE3, HLP3	HHG1, SMMCI, TPT, TPTPS, MCOPCB5
HSCHR6_MHC_MCF	HLA-DOB	ENSG00000241910	ENST00000477041	nonsense_mediated_decay	KNOWN	None	4937	117	38	32814044	32818257	-1	None	None
HSCHR6_MHC_MCF	HLA-DOB	ENSG00000241910	ENST00000454969	protein_coding	KNOWN	None	4937	822	273	32814044	32818329	-1	None	None
HSCHR6_MHC_MCF	HLA-DOB	ENSG00000241910	ENST00000475173	retained_intron	KNOWN	None	4937	None	None	32814328	32818269	-1	None	None
HSCHR6_MHC_MCF	HLA-DOB	ENSG00000241910	ENST00000448690	protein_coding	NOVEL	None	4937	543	180	32815651	32818191	-1	None	None
2	NOL10	ENSG00000115761	ENST00000345985	protein_coding	KNOWN	CCDS58698	25862	1917	638	10710892	10830098	-1	PQBP5	FLJ14075
2	NOL10	ENSG00000115761	ENST00000381685	protein_coding	KNOWN	CCDS1673	25862	2067	688	10711781	10830093	-1	PQBP5	FLJ14075
2	NOL10	ENSG00000115761	ENST00000431319	protein_coding	PUTATIVE	None	25862	759	252	10762149	10811816	-1	PQBP5	FLJ14075
2	NOL10	ENSG00000115761	ENST00000473087	retained_intron	KNOWN	None	25862	None	None	10813448	10830101	-1	PQBP5	FLJ14075
2	NOL10	ENSG00000115761	ENST00000538384	protein_coding	KNOWN	CCDS58697	25862	1989	662	10711999	10830101	-1	PQBP5	FLJ14075
2	NOL10	ENSG00000115761	ENST00000542668	protein_coding	KNOWN	None	25862	1917	638	10711928	10830101	-1	PQBP5	FLJ14075
HSCHR6_MHC_MCF	GPANK1	ENSG00000232312	ENST00000448091	protein_coding	KNOWN	None	13920	1071	356	31705289	31710343	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_MCF	GPANK1	ENSG00000232312	ENST00000449868	protein_coding	KNOWN	None	13920	1071	356	31706136	31709450	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_MCF	GPANK1	ENSG00000232312	ENST00000453746	protein_coding	KNOWN	None	13920	1071	356	31706136	31709690	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_MCF	GPANK1	ENSG00000232312	ENST00000439710	protein_coding	KNOWN	None	13920	1071	356	31706136	31709910	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_MCF	GPANK1	ENSG00000232312	ENST00000417890	protein_coding	KNOWN	None	13920	1071	356	31706136	31709921	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_MCF	GPANK1	ENSG00000232312	ENST00000423574	protein_coding	KNOWN	None	13920	596	197	31707943	31709857	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_MCF	GPANK1	ENSG00000232312	ENST00000438145	protein_coding	KNOWN	None	13920	494	163	31708045	31709502	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_MCF	GPANK1	ENSG00000232312	ENST00000432713	protein_coding	KNOWN	None	13920	456	151	31708083	31709250	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_MCF	GPANK1	ENSG00000232312	ENST00000418144	protein_coding	KNOWN	None	13920	321	106	31708218	31709894	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_MCF	GPANK1	ENSG00000232312	ENST00000452805	protein_coding	KNOWN	None	13920	269	88	31708270	31709245	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
4	CTBP1	ENSG00000159692	ENST00000382952	protein_coding	KNOWN	CCDS43203	2494	1290	429	1205236	1242900	-1	None	BARS
4	CTBP1	ENSG00000159692	ENST00000290921	protein_coding	KNOWN	CCDS3348	2494	1323	440	1205236	1242925	-1	None	BARS
4	CTBP1	ENSG00000159692	ENST00000503594	protein_coding	NOVEL	None	2494	553	183	1205473	1208250	-1	None	BARS
4	CTBP1	ENSG00000159692	ENST00000514596	retained_intron	KNOWN	None	2494	None	None	1205702	1206838	-1	None	BARS
4	CTBP1	ENSG00000159692	ENST00000504092	protein_coding	NOVEL	None	2494	862	286	1205970	1222072	-1	None	BARS
4	CTBP1	ENSG00000159692	ENST00000382950	retained_intron	KNOWN	None	2494	None	None	1206063	1207542	-1	None	BARS
4	CTBP1	ENSG00000159692	ENST00000510739	nonsense_mediated_decay	KNOWN	None	2494	437	144	1206701	1219177	-1	None	BARS
4	CTBP1	ENSG00000159692	ENST00000511907	retained_intron	KNOWN	None	2494	None	None	1207779	1210195	-1	None	BARS
4	CTBP1	ENSG00000159692	ENST00000505826	processed_transcript	KNOWN	None	2494	None	None	1208209	1224932	-1	None	BARS
4	CTBP1	ENSG00000159692	ENST00000514669	processed_transcript	KNOWN	None	2494	None	None	1209874	1227012	-1	None	BARS
4	CTBP1	ENSG00000159692	ENST00000506180	protein_coding	PUTATIVE	None	2494	560	185	1209963	1243741	-1	None	BARS
4	CTBP1	ENSG00000159692	ENST00000504784	protein_coding	PUTATIVE	None	2494	74	23	1215246	1219183	-1	None	BARS
4	CTBP1	ENSG00000159692	ENST00000514210	protein_coding	NOVEL	None	2494	607	201	1217208	1242764	-1	None	BARS
4	CTBP1	ENSG00000159692	ENST00000514495	processed_transcript	KNOWN	None	2494	None	None	1219139	1242906	-1	None	BARS
4	CTBP1	ENSG00000159692	ENST00000515399	protein_coding	KNOWN	None	2494	514	170	1219148	1243719	-1	None	BARS
4	CTBP1	ENSG00000159692	ENST00000513420	protein_coding	KNOWN	None	2494	436	144	1219226	1242528	-1	None	BARS
4	CTBP1	ENSG00000159692	ENST00000510568	protein_coding	PUTATIVE	None	2494	507	168	1228475	1235711	-1	None	BARS
4	CTBP1	ENSG00000159692	ENST00000515690	processed_transcript	KNOWN	None	2494	None	None	1229541	1235251	-1	None	BARS
HSCHR6_MHC_COX	LY6G6D	ENSG00000226603	ENST00000430366	protein_coding	KNOWN	None	13935	1149	382	31662096	31673108	1	C6orf23	MEGT1, Ly6-D, G6D, LY6-D, NG25
HSCHR6_MHC_COX	LY6G6D	ENSG00000226603	ENST00000419389	protein_coding	KNOWN	None	13935	402	133	31670542	31672994	1	C6orf23	MEGT1, Ly6-D, G6D, LY6-D, NG25
HSCHR6_MHC_COX	LY6G6D	ENSG00000226603	ENST00000445443	protein_coding	KNOWN	None	13935	523	173	31670542	31672994	1	C6orf23	MEGT1, Ly6-D, G6D, LY6-D, NG25
HSCHR6_MHC_COX	LY6G6D	ENSG00000226603	ENST00000495989	retained_intron	KNOWN	None	13935	None	None	31670542	31672994	1	C6orf23	MEGT1, Ly6-D, G6D, LY6-D, NG25
19	ZNF528	ENSG00000167555	ENST00000391788	protein_coding	PUTATIVE	None	29384	372	123	52901102	52921656	1	None	KIAA1827
19	ZNF528	ENSG00000167555	ENST00000436397	protein_coding	KNOWN	None	29384	43	13	52901121	52909187	1	None	KIAA1827
19	ZNF528	ENSG00000167555	ENST00000391787	protein_coding	KNOWN	None	29384	243	80	52901121	52909868	1	None	KIAA1827
19	ZNF528	ENSG00000167555	ENST00000360465	protein_coding	KNOWN	CCDS33091	29384	1887	628	52901121	52921657	1	None	KIAA1827
19	ZNF528	ENSG00000167555	ENST00000494167	protein_coding	PUTATIVE	None	29384	10	2	52901125	52909184	1	None	KIAA1827
19	ZNF528	ENSG00000167555	ENST00000493272	protein_coding	PUTATIVE	None	29384	25	7	52901125	52909199	1	None	KIAA1827
19	ZNF528	ENSG00000167555	ENST00000531472	processed_transcript	KNOWN	None	29384	None	None	52901153	52905270	1	None	KIAA1827
19	ZNF528	ENSG00000167555	ENST00000598192	protein_coding	PUTATIVE	None	29384	276	91	52905200	52911765	1	None	KIAA1827
19	ZNF528	ENSG00000167555	ENST00000594530	protein_coding	PUTATIVE	None	29384	321	106	52905247	52910149	1	None	KIAA1827
19	ZNF528	ENSG00000167555	ENST00000448954	protein_coding	PUTATIVE	None	29384	256	84	52909237	52918597	1	None	KIAA1827
19	ZNF528	ENSG00000167555	ENST00000479718	retained_intron	KNOWN	None	29384	None	None	52914625	52918606	1	None	KIAA1827
19	ZNF528	ENSG00000167555	ENST00000598479	retained_intron	KNOWN	None	29384	None	None	52916857	52921665	1	None	KIAA1827
HSCHR6_MHC_MANN	PPP1R10	ENSG00000231737	ENST00000424446	protein_coding	KNOWN	None	9284	2823	940	30612852	30629696	-1	None	PNUTS, FB19, CAT53, p99
HSCHR6_MHC_MANN	PPP1R10	ENSG00000231737	ENST00000473788	retained_intron	KNOWN	None	9284	None	None	30616025	30616664	-1	None	PNUTS, FB19, CAT53, p99
HSCHR6_MHC_MANN	PPP1R10	ENSG00000231737	ENST00000489745	retained_intron	KNOWN	None	9284	None	None	30617064	30618450	-1	None	PNUTS, FB19, CAT53, p99
HSCHR6_MHC_MANN	PPP1R10	ENSG00000231737	ENST00000476048	retained_intron	KNOWN	None	9284	None	None	30617470	30619189	-1	None	PNUTS, FB19, CAT53, p99
HSCHR6_MHC_MANN	PPP1R10	ENSG00000231737	ENST00000475756	retained_intron	KNOWN	None	9284	None	None	30618261	30618695	-1	None	PNUTS, FB19, CAT53, p99
HSCHR6_MHC_MANN	PPP1R10	ENSG00000231737	ENST00000488513	processed_transcript	KNOWN	None	9284	None	None	30622399	30629696	-1	None	PNUTS, FB19, CAT53, p99
HSCHR6_MHC_MANN	PPP1R10	ENSG00000231737	ENST00000492177	processed_transcript	KNOWN	None	9284	None	None	30629036	30631064	-1	None	PNUTS, FB19, CAT53, p99
HSCHR6_MHC_MANN	PPP1R10	ENSG00000231737	ENST00000552146	protein_coding	KNOWN	None	9284	936	311	30617388	30629695	-1	None	PNUTS, FB19, CAT53, p99
10	BAG3	ENSG00000151929	ENST00000369085	protein_coding	KNOWN	CCDS7615	939	1728	575	121410882	121437331	1	None	None
10	BAG3	ENSG00000151929	ENST00000450186	protein_coding	KNOWN	None	939	976	324	121416122	121436219	1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000263998	ENST00000579220	miRNA	NOVEL	None	None	None	None	30607865	30607958	1	None	None
2	GCG	ENSG00000115263	ENST00000418842	protein_coding	KNOWN	CCDS46439	4191	543	180	162999392	163008913	-1	None	GLP1, GLP2, GRPP
2	GCG	ENSG00000115263	ENST00000483769	retained_intron	KNOWN	None	4191	None	None	162999688	163000925	-1	None	GLP1, GLP2, GRPP
2	GCG	ENSG00000115263	ENST00000497568	retained_intron	KNOWN	None	4191	None	None	163001205	163003903	-1	None	GLP1, GLP2, GRPP
2	GCG	ENSG00000115263	ENST00000492913	retained_intron	KNOWN	None	4191	None	None	163001869	163008747	-1	None	GLP1, GLP2, GRPP
2	GCG	ENSG00000115263	ENST00000375497	protein_coding	KNOWN	None	4191	543	180	163000415	163008914	-1	None	GLP1, GLP2, GRPP
HSCHR6_MHC_SSTO	MDC1-AS1	ENSG00000236522	ENST00000454162	processed_transcript	KNOWN	None	39764	None	None	30662293	30672409	1	None	None
22	CERK	ENSG00000100422	ENST00000216264	protein_coding	KNOWN	CCDS14077	19256	1614	537	47080308	47134158	-1	None	hCERK, FLJ23239, dA59H18.3, DKFZp434E0211, FLJ21430, KIAA1646, LK4, dA59H18.2
22	CERK	ENSG00000100422	ENST00000443629	nonsense_mediated_decay	KNOWN	None	19256	558	185	47082880	47134104	-1	None	hCERK, FLJ23239, dA59H18.3, DKFZp434E0211, FLJ21430, KIAA1646, LK4, dA59H18.2
22	CERK	ENSG00000100422	ENST00000471929	processed_transcript	KNOWN	None	19256	None	None	47085952	47089709	-1	None	hCERK, FLJ23239, dA59H18.3, DKFZp434E0211, FLJ21430, KIAA1646, LK4, dA59H18.2
22	CERK	ENSG00000100422	ENST00000460254	processed_transcript	KNOWN	None	19256	None	None	47131056	47133987	-1	None	hCERK, FLJ23239, dA59H18.3, DKFZp434E0211, FLJ21430, KIAA1646, LK4, dA59H18.2
22	CERK	ENSG00000100422	ENST00000541677	protein_coding	KNOWN	None	19256	1020	339	47082885	47134104	-1	None	hCERK, FLJ23239, dA59H18.3, DKFZp434E0211, FLJ21430, KIAA1646, LK4, dA59H18.2
HSCHR6_MHC_SSTO	None	ENSG00000263610	ENST00000585305	misc_RNA	NOVEL	None	None	None	None	30695531	30695641	-1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000263912	ENST00000580041	misc_RNA	NOVEL	None	None	None	None	30710246	30710493	1	None	None
13	SOX21	ENSG00000125285	ENST00000376945	protein_coding	KNOWN	CCDS9473	11197	831	276	95361886	95364389	-1	None	SOX25
19	DKKL1	ENSG00000104901	ENST00000594268	protein_coding	PUTATIVE	None	16528	303	100	49865040	49878373	1	None	SGY-1, CT34
19	DKKL1	ENSG00000104901	ENST00000597873	protein_coding	PUTATIVE	None	16528	437	144	49866331	49878218	1	None	SGY-1, CT34
19	DKKL1	ENSG00000104901	ENST00000221498	protein_coding	KNOWN	CCDS12762	16528	729	242	49866851	49878373	1	None	SGY-1, CT34
19	DKKL1	ENSG00000104901	ENST00000596402	protein_coding	PUTATIVE	None	16528	375	124	49866987	49878156	1	None	SGY-1, CT34
19	DKKL1	ENSG00000104901	ENST00000597546	protein_coding	NOVEL	None	16528	599	198	49867191	49878248	1	None	SGY-1, CT34
19	DKKL1	ENSG00000104901	ENST00000598682	protein_coding	NOVEL	None	16528	412	136	49867912	49878373	1	None	SGY-1, CT34
21	None	ENSG00000226983	ENST00000441009	lincRNA	KNOWN	None	None	None	None	26212864	26430059	1	None	None
17	None	ENSG00000204283	ENST00000374983	protein_coding	KNOWN	None	None	465	154	75875109	75878659	-1	None	None
1	TFAP2E	ENSG00000116819	ENST00000373235	protein_coding	KNOWN	CCDS393	30774	1329	442	36038971	36060929	1	None	AP2E
9	RFK	ENSG00000135002	ENST00000376736	protein_coding	KNOWN	CCDS35044	30324	468	155	79000433	79009421	-1	None	FLJ11149, RIFK
9	RFK	ENSG00000135002	ENST00000490113	protein_coding	PUTATIVE	None	30324	363	120	79000462	79009048	-1	None	FLJ11149, RIFK
9	RFK	ENSG00000135002	ENST00000483155	processed_transcript	KNOWN	None	30324	None	None	79001897	79008873	-1	None	FLJ11149, RIFK
9	RFK	ENSG00000135002	ENST00000476087	processed_transcript	KNOWN	None	30324	None	None	79002200	79008682	-1	None	FLJ11149, RIFK
9	RFK	ENSG00000135002	ENST00000472900	processed_transcript	KNOWN	None	30324	None	None	79002224	79009433	-1	None	FLJ11149, RIFK
9	RFK	ENSG00000135002	ENST00000479197	processed_transcript	KNOWN	None	30324	None	None	79002500	79009433	-1	None	FLJ11149, RIFK
1	PSMB2	ENSG00000126067	ENST00000373237	protein_coding	KNOWN	CCDS394	9539	606	201	36067185	36107445	-1	None	HC7-I
13	MPHOSPH8	ENSG00000196199	ENST00000361479	protein_coding	KNOWN	CCDS9287	29810	2583	860	20207821	20247599	1	None	mpp8, HSMPP8
13	MPHOSPH8	ENSG00000196199	ENST00000467481	processed_transcript	KNOWN	None	29810	None	None	20233135	20235230	1	None	mpp8, HSMPP8
13	MPHOSPH8	ENSG00000196199	ENST00000449056	protein_coding	PUTATIVE	None	29810	452	149	20242531	20246212	1	None	mpp8, HSMPP8
13	MPHOSPH8	ENSG00000196199	ENST00000496525	processed_transcript	KNOWN	None	29810	None	None	20244480	20246082	1	None	mpp8, HSMPP8
13	MPHOSPH8	ENSG00000196199	ENST00000414242	protein_coding	KNOWN	None	29810	2604	867	20207788	20245126	1	None	mpp8, HSMPP8
17	DLG4	ENSG00000132535	ENST00000489885	retained_intron	KNOWN	None	2903	None	None	7093209	7095554	-1	None	PSD-95, PSD95, SAP90, SAP-90
17	DLG4	ENSG00000132535	ENST00000399506	protein_coding	KNOWN	None	2903	2175	724	7093209	7120658	-1	None	PSD-95, PSD95, SAP90, SAP-90
17	DLG4	ENSG00000132535	ENST00000302955	protein_coding	NOVEL	CCDS45600	2903	2166	721	7093209	7120666	-1	None	PSD-95, PSD95, SAP90, SAP-90
17	DLG4	ENSG00000132535	ENST00000399510	protein_coding	KNOWN	CCDS45599	2903	2304	767	7093209	7123021	-1	None	PSD-95, PSD95, SAP90, SAP-90
17	DLG4	ENSG00000132535	ENST00000491753	nonsense_mediated_decay	KNOWN	None	2903	257	84	7093605	7096876	-1	None	PSD-95, PSD95, SAP90, SAP-90
17	DLG4	ENSG00000132535	ENST00000485100	protein_coding	PUTATIVE	None	2903	891	296	7106037	7120507	-1	None	PSD-95, PSD95, SAP90, SAP-90
17	DLG4	ENSG00000132535	ENST00000451807	protein_coding	PUTATIVE	None	2903	844	280	7106264	7117231	-1	None	PSD-95, PSD95, SAP90, SAP-90
17	DLG4	ENSG00000132535	ENST00000447163	protein_coding	PUTATIVE	None	2903	704	233	7106540	7120525	-1	None	PSD-95, PSD95, SAP90, SAP-90
17	DLG4	ENSG00000132535	ENST00000486626	protein_coding	PUTATIVE	None	2903	347	114	7106627	7107726	-1	None	PSD-95, PSD95, SAP90, SAP-90
17	DLG4	ENSG00000132535	ENST00000493294	protein_coding	PUTATIVE	None	2903	275	90	7106793	7108487	-1	None	PSD-95, PSD95, SAP90, SAP-90
8	RBM12B-AS1	ENSG00000212998	ENST00000391680	protein_coding	KNOWN	None	28818	309	102	94752349	94753001	1	C8orf39	PRO1905
HSCHR6_MHC_MANN	LTA	ENSG00000231408	ENST00000436519	protein_coding	KNOWN	None	6709	618	205	31579318	31581588	1	TNFB	TNFSF1, LT
HSCHR6_MHC_MANN	LTA	ENSG00000231408	ENST00000479906	retained_intron	KNOWN	None	6709	None	None	31579534	31581588	1	TNFB	TNFSF1, LT
HSCHR6_MHC_MANN	LTA	ENSG00000231408	ENST00000454550	protein_coding	KNOWN	None	6709	618	205	31579547	31581588	1	TNFB	TNFSF1, LT
HSCHR6_MHC_MANN	LTA	ENSG00000231408	ENST00000461499	retained_intron	KNOWN	None	6709	None	None	31579558	31581588	1	TNFB	TNFSF1, LT
HSCHR6_MHC_MANN	LTA	ENSG00000231408	ENST00000550394	protein_coding	KNOWN	None	6709	414	137	31579580	31581114	1	TNFB	TNFSF1, LT
13	PCID2	ENSG00000126226	ENST00000337344	protein_coding	KNOWN	CCDS9532	25653	1200	399	113831891	113863025	-1	None	FLJ11305
13	PCID2	ENSG00000126226	ENST00000375477	protein_coding	KNOWN	CCDS9532	25653	1200	399	113831925	113862980	-1	None	FLJ11305
13	PCID2	ENSG00000126226	ENST00000375479	protein_coding	KNOWN	CCDS9532	25653	1200	399	113831925	113863029	-1	None	FLJ11305
13	PCID2	ENSG00000126226	ENST00000463102	processed_transcript	KNOWN	None	25653	None	None	113831926	113832689	-1	None	FLJ11305
13	PCID2	ENSG00000126226	ENST00000493650	processed_transcript	KNOWN	None	25653	None	None	113831926	113842922	-1	None	FLJ11305
13	PCID2	ENSG00000126226	ENST00000375459	protein_coding	PUTATIVE	CCDS58301	25653	1194	397	113831926	113862420	-1	None	FLJ11305
13	PCID2	ENSG00000126226	ENST00000246505	protein_coding	KNOWN	CCDS58302	25653	1362	453	113831926	113862983	-1	None	FLJ11305
13	PCID2	ENSG00000126226	ENST00000462653	processed_transcript	KNOWN	None	25653	None	None	113831927	113832792	-1	None	FLJ11305
13	PCID2	ENSG00000126226	ENST00000375457	protein_coding	PUTATIVE	CCDS58301	25653	1194	397	113831931	113862964	-1	None	FLJ11305
13	PCID2	ENSG00000126226	ENST00000351317	protein_coding	PUTATIVE	None	25653	1131	376	113831983	113863001	-1	None	FLJ11305
13	PCID2	ENSG00000126226	ENST00000473462	processed_transcript	KNOWN	None	25653	None	None	113832586	113841713	-1	None	FLJ11305
13	PCID2	ENSG00000126226	ENST00000475433	processed_transcript	KNOWN	None	25653	None	None	113834475	113862943	-1	None	FLJ11305
13	PCID2	ENSG00000126226	ENST00000480971	processed_transcript	KNOWN	None	25653	None	None	113834534	113862955	-1	None	FLJ11305
13	PCID2	ENSG00000126226	ENST00000484641	processed_transcript	KNOWN	None	25653	None	None	113835443	113862964	-1	None	FLJ11305
13	PCID2	ENSG00000126226	ENST00000491548	processed_transcript	KNOWN	None	25653	None	None	113845017	113862966	-1	None	FLJ11305
13	PCID2	ENSG00000126226	ENST00000462853	processed_transcript	KNOWN	None	25653	None	None	113850511	113854987	-1	None	FLJ11305
16	CNEP1R1	ENSG00000205423	ENST00000458059	protein_coding	KNOWN	CCDS45480	26759	429	142	50058321	50070999	1	C16orf69, TMEM188	FLJ38101, NEP1-R1
16	CNEP1R1	ENSG00000205423	ENST00000389134	nonsense_mediated_decay	KNOWN	None	26759	195	64	50059145	50069511	1	C16orf69, TMEM188	FLJ38101, NEP1-R1
16	CNEP1R1	ENSG00000205423	ENST00000567712	processed_transcript	KNOWN	None	26759	None	None	50059152	50059695	1	C16orf69, TMEM188	FLJ38101, NEP1-R1
16	CNEP1R1	ENSG00000205423	ENST00000568890	nonsense_mediated_decay	KNOWN	None	26759	144	47	50059166	50070996	1	C16orf69, TMEM188	FLJ38101, NEP1-R1
16	CNEP1R1	ENSG00000205423	ENST00000569647	processed_transcript	KNOWN	None	26759	None	None	50059173	50060770	1	C16orf69, TMEM188	FLJ38101, NEP1-R1
16	CNEP1R1	ENSG00000205423	ENST00000566482	nonsense_mediated_decay	KNOWN	None	26759	144	47	50059175	50068579	1	C16orf69, TMEM188	FLJ38101, NEP1-R1
16	CNEP1R1	ENSG00000205423	ENST00000562576	protein_coding	NOVEL	None	26759	327	108	50059182	50069607	1	C16orf69, TMEM188	FLJ38101, NEP1-R1
16	CNEP1R1	ENSG00000205423	ENST00000565457	nonsense_mediated_decay	KNOWN	None	26759	378	125	50059191	50070991	1	C16orf69, TMEM188	FLJ38101, NEP1-R1
16	CNEP1R1	ENSG00000205423	ENST00000565556	protein_coding	PUTATIVE	None	26759	282	93	50059431	50070541	1	C16orf69, TMEM188	FLJ38101, NEP1-R1
16	CNEP1R1	ENSG00000205423	ENST00000566093	protein_coding	PUTATIVE	None	26759	240	79	50060071	50068067	1	C16orf69, TMEM188	FLJ38101, NEP1-R1
16	CNEP1R1	ENSG00000205423	ENST00000427478	protein_coding	KNOWN	None	26759	378	125	50059173	50070988	1	C16orf69, TMEM188	FLJ38101, NEP1-R1
Y	None	ENSG00000223422	ENST00000439805	unprocessed_pseudogene	KNOWN	None	None	None	None	7546940	7549069	1	None	None
1	C1orf216	ENSG00000142686	ENST00000270815	protein_coding	KNOWN	CCDS395	26800	690	229	36179476	36185073	-1	None	FLJ38984
1	C1orf216	ENSG00000142686	ENST00000503824	processed_transcript	PUTATIVE	None	26800	None	None	36181761	36182512	-1	None	FLJ38984
1	C1orf216	ENSG00000142686	ENST00000453178	processed_transcript	PUTATIVE	None	26800	None	None	36181799	36184495	-1	None	FLJ38984
Y	TSPY12P	ENSG00000236435	ENST00000421279	unprocessed_pseudogene	KNOWN	None	23904	None	None	7555780	7557589	-1	TSPYP2	None
HSCHR6_MHC_SSTO	HCG20	ENSG00000238216	ENST00000417629	processed_transcript	KNOWN	None	31334	None	None	30747883	30751451	1	None	AB023051.1, NCRNA00149
HSCHR6_MHC_SSTO	HCG20	ENSG00000238216	ENST00000414837	processed_transcript	KNOWN	None	31334	None	None	30747883	30751451	1	None	AB023051.1, NCRNA00149
HSCHR6_MHC_MANN	TNF	ENSG00000228321	ENST00000412275	protein_coding	KNOWN	None	11892	702	233	31582831	31585600	1	TNFA	TNFSF2, DIF, TNF-alpha
HSCHR6_MHC_SSTO	LINC00243	ENSG00000237890	ENST00000427874	processed_transcript	KNOWN	None	30956	None	None	30773018	30789807	-1	C6orf214, NCRNA00243	bQB230F21.2, FLJ40693, bQB10J12.2
HSCHR6_MHC_SSTO	LINC00243	ENSG00000237890	ENST00000432546	processed_transcript	KNOWN	None	30956	None	None	30757842	30789807	-1	C6orf214, NCRNA00243	bQB230F21.2, FLJ40693, bQB10J12.2
3	DNAJC13	ENSG00000138246	ENST00000260818	protein_coding	KNOWN	CCDS33857	30343	6732	2243	132136370	132257876	1	None	RME8, KIAA0678
3	DNAJC13	ENSG00000138246	ENST00000486798	processed_transcript	KNOWN	None	30343	None	None	132136553	132186190	1	None	RME8, KIAA0678
3	DNAJC13	ENSG00000138246	ENST00000471925	retained_intron	KNOWN	None	30343	None	None	132175138	132177193	1	None	RME8, KIAA0678
3	DNAJC13	ENSG00000138246	ENST00000464766	processed_transcript	KNOWN	None	30343	None	None	132193100	132201133	1	None	RME8, KIAA0678
3	DNAJC13	ENSG00000138246	ENST00000506813	nonsense_mediated_decay	KNOWN	None	30343	522	173	132198071	132207253	1	None	RME8, KIAA0678
3	DNAJC13	ENSG00000138246	ENST00000513822	retained_intron	KNOWN	None	30343	None	None	132231852	132233660	1	None	RME8, KIAA0678
3	DNAJC13	ENSG00000138246	ENST00000463038	retained_intron	KNOWN	None	30343	None	None	132241817	132242861	1	None	RME8, KIAA0678
3	DNAJC13	ENSG00000138246	ENST00000509279	nonsense_mediated_decay	KNOWN	None	30343	290	95	132247046	132257352	1	None	RME8, KIAA0678
22	PRODH	ENSG00000100033	ENST00000491604	retained_intron	KNOWN	None	9453	None	None	18900294	18923808	-1	None	HSPOX2, PRODH1, PIG6, PRODH2, TP53I6
22	PRODH	ENSG00000100033	ENST00000420436	protein_coding	PUTATIVE	CCDS56223	9453	1479	492	18900294	18923809	-1	None	HSPOX2, PRODH1, PIG6, PRODH2, TP53I6
22	PRODH	ENSG00000100033	ENST00000313755	retained_intron	KNOWN	None	9453	None	None	18900295	18909087	-1	None	HSPOX2, PRODH1, PIG6, PRODH2, TP53I6
22	PRODH	ENSG00000100033	ENST00000429300	retained_intron	KNOWN	None	9453	None	None	18900295	18911515	-1	None	HSPOX2, PRODH1, PIG6, PRODH2, TP53I6
22	PRODH	ENSG00000100033	ENST00000482858	retained_intron	KNOWN	None	9453	None	None	18900295	18923655	-1	None	HSPOX2, PRODH1, PIG6, PRODH2, TP53I6
22	PRODH	ENSG00000100033	ENST00000334029	protein_coding	PUTATIVE	CCDS56223	9453	1479	492	18900295	18923964	-1	None	HSPOX2, PRODH1, PIG6, PRODH2, TP53I6
22	PRODH	ENSG00000100033	ENST00000357068	protein_coding	KNOWN	CCDS13754	9453	1803	600	18900295	18924066	-1	None	HSPOX2, PRODH1, PIG6, PRODH2, TP53I6
22	PRODH	ENSG00000100033	ENST00000446371	retained_intron	KNOWN	None	9453	None	None	18907069	18909052	-1	None	HSPOX2, PRODH1, PIG6, PRODH2, TP53I6
22	PRODH	ENSG00000100033	ENST00000438924	protein_coding	PUTATIVE	None	9453	553	183	18908894	18923655	-1	None	HSPOX2, PRODH1, PIG6, PRODH2, TP53I6
22	PRODH	ENSG00000100033	ENST00000399694	retained_intron	KNOWN	None	9453	None	None	18909759	18910823	-1	None	HSPOX2, PRODH1, PIG6, PRODH2, TP53I6
22	PRODH	ENSG00000100033	ENST00000450579	protein_coding	PUTATIVE	None	9453	405	134	18909885	18922341	-1	None	HSPOX2, PRODH1, PIG6, PRODH2, TP53I6
22	PRODH	ENSG00000100033	ENST00000457083	protein_coding	PUTATIVE	None	9453	491	162	18910393	18923779	-1	None	HSPOX2, PRODH1, PIG6, PRODH2, TP53I6
22	PRODH	ENSG00000100033	ENST00000496625	retained_intron	KNOWN	None	9453	None	None	18912238	18918623	-1	None	HSPOX2, PRODH1, PIG6, PRODH2, TP53I6
HSCHR6_MHC_SSTO	None	ENSG00000258241	ENST00000549984	pseudogene	NOVEL	None	None	None	None	30793113	30793333	-1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000229126	ENST00000433203	processed_transcript	PUTATIVE	None	None	None	None	30989085	30993888	1	None	None
HSCHR6_MHC_DBB	TRIM31	ENSG00000233573	ENST00000433864	protein_coding	KNOWN	None	16289	1278	425	30061002	30071204	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_DBB	TRIM31	ENSG00000233573	ENST00000484570	processed_transcript	KNOWN	None	16289	None	None	30061002	30070988	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_DBB	TRIM31	ENSG00000233573	ENST00000486654	retained_intron	KNOWN	None	16289	None	None	30061002	30063762	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_DBB	TRIM31	ENSG00000233573	ENST00000482615	processed_transcript	KNOWN	None	16289	None	None	30061467	30068620	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_DBB	TRIM31	ENSG00000233573	ENST00000493366	retained_intron	KNOWN	None	16289	None	None	30061978	30066305	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_DBB	TRIM31	ENSG00000233573	ENST00000496472	retained_intron	KNOWN	None	16289	None	None	30062036	30063545	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_DBB	TRIM31	ENSG00000233573	ENST00000492111	processed_transcript	KNOWN	None	16289	None	None	30063301	30070284	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_DBB	TRIM31	ENSG00000233573	ENST00000473446	retained_intron	KNOWN	None	16289	None	None	30066846	30069804	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_DBB	TRIM31	ENSG00000233573	ENST00000460861	retained_intron	KNOWN	None	16289	None	None	30069316	30070573	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_DBB	TRIM31	ENSG00000233573	ENST00000552122	protein_coding	KNOWN	None	16289	1278	425	30061004	30071188	-1	None	RNF, HCGI, C6orf13, HCG1
HSCHR6_MHC_SSTO	HCG22	ENSG00000237093	ENST00000425724	processed_transcript	KNOWN	None	27780	None	None	31016108	31021766	1	None	FLJ37114, PBMUCL2
HSCHR6_MHC_MCF	None	ENSG00000258151	ENST00000548417	protein_coding	NOVEL	None	None	285	94	31707013	31738404	1	None	None
2	FAP	ENSG00000078098	ENST00000462608	nonsense_mediated_decay	KNOWN	None	3590	143	46	163027194	163030291	-1	None	DPPIV
2	FAP	ENSG00000078098	ENST00000422436	nonsense_mediated_decay	KNOWN	None	3590	78	25	163027194	163055336	-1	None	DPPIV
2	FAP	ENSG00000078098	ENST00000480044	retained_intron	KNOWN	None	3590	None	None	163027195	163033179	-1	None	DPPIV
2	FAP	ENSG00000078098	ENST00000188790	protein_coding	KNOWN	CCDS33311	3590	2283	760	163027200	163100045	-1	None	DPPIV
2	FAP	ENSG00000078098	ENST00000443424	protein_coding	NOVEL	None	3590	2208	735	163027228	163099966	-1	None	DPPIV
2	FAP	ENSG00000078098	ENST00000461506	retained_intron	KNOWN	None	3590	None	None	163029351	163040093	-1	None	DPPIV
2	FAP	ENSG00000078098	ENST00000497414	retained_intron	KNOWN	None	3590	None	None	163044682	163051547	-1	None	DPPIV
2	FAP	ENSG00000078098	ENST00000465424	retained_intron	KNOWN	None	3590	None	None	163050069	163055352	-1	None	DPPIV
2	FAP	ENSG00000078098	ENST00000465088	retained_intron	KNOWN	None	3590	None	None	163055134	163059655	-1	None	DPPIV
2	FAP	ENSG00000078098	ENST00000480838	retained_intron	KNOWN	None	3590	None	None	163066130	163099923	-1	None	DPPIV
2	FAP	ENSG00000078098	ENST00000447386	protein_coding	PUTATIVE	None	3590	465	154	163075652	163099558	-1	None	DPPIV
2	FAP	ENSG00000078098	ENST00000450031	nonsense_mediated_decay	KNOWN	None	3590	366	121	163076367	163099612	-1	None	DPPIV
2	FAP	ENSG00000078098	ENST00000493182	processed_transcript	PUTATIVE	None	3590	None	None	163099857	163101661	-1	None	DPPIV
HSCHR6_MHC_DBB	None	ENSG00000269167	ENST00000593842	protein_coding	NOVEL	None	None	69	22	31956131	31957067	-1	None	None
19	CCDC155	ENSG00000161609	ENST00000447857	protein_coding	KNOWN	CCDS46140	26520	1689	562	49891475	49921251	1	None	FLJ32658, KASH5
19	CCDC155	ENSG00000161609	ENST00000600895	retained_intron	KNOWN	None	26520	None	None	49891476	49898153	1	None	FLJ32658, KASH5
19	CCDC155	ENSG00000161609	ENST00000598730	protein_coding	PUTATIVE	None	26520	275	90	49891540	49899046	1	None	FLJ32658, KASH5
19	CCDC155	ENSG00000161609	ENST00000596771	retained_intron	KNOWN	None	26520	None	None	49891540	49903062	1	None	FLJ32658, KASH5
19	CCDC155	ENSG00000161609	ENST00000596862	retained_intron	KNOWN	None	26520	None	None	49891544	49898123	1	None	FLJ32658, KASH5
19	CCDC155	ENSG00000161609	ENST00000597993	nonsense_mediated_decay	KNOWN	None	26520	129	42	49891554	49898391	1	None	FLJ32658, KASH5
19	CCDC155	ENSG00000161609	ENST00000593725	processed_transcript	KNOWN	None	26520	None	None	49891557	49897000	1	None	FLJ32658, KASH5
19	CCDC155	ENSG00000161609	ENST00000594905	protein_coding	PUTATIVE	None	26520	227	74	49891558	49898522	1	None	FLJ32658, KASH5
19	CCDC155	ENSG00000161609	ENST00000595828	protein_coding	PUTATIVE	None	26520	565	187	49891574	49901378	1	None	FLJ32658, KASH5
19	CCDC155	ENSG00000161609	ENST00000594043	protein_coding	KNOWN	None	26520	579	192	49891637	49901350	1	None	FLJ32658, KASH5
19	CCDC155	ENSG00000161609	ENST00000600570	protein_coding	NOVEL	None	26520	1573	523	49897800	49921246	1	None	FLJ32658, KASH5
19	CCDC155	ENSG00000161609	ENST00000596130	retained_intron	KNOWN	None	26520	None	None	49898949	49912288	1	None	FLJ32658, KASH5
19	CCDC155	ENSG00000161609	ENST00000593631	retained_intron	KNOWN	None	26520	None	None	49901189	49902727	1	None	FLJ32658, KASH5
19	CCDC155	ENSG00000161609	ENST00000593362	retained_intron	KNOWN	None	26520	None	None	49910894	49918876	1	None	FLJ32658, KASH5
19	CCDC155	ENSG00000161609	ENST00000596419	retained_intron	KNOWN	None	26520	None	None	49911530	49913119	1	None	FLJ32658, KASH5
HSCHR6_MHC_SSTO	None	ENSG00000266626	ENST00000584333	snRNA	NOVEL	None	None	None	None	31044940	31045039	1	None	None
12	PHB2	ENSG00000215021	ENST00000537646	retained_intron	KNOWN	None	30306	None	None	7074490	7076738	-1	None	REA, BCAP37, Bap37, p22
12	PHB2	ENSG00000215021	ENST00000543465	retained_intron	KNOWN	None	30306	None	None	7074515	7079879	-1	None	REA, BCAP37, Bap37, p22
12	PHB2	ENSG00000215021	ENST00000546111	protein_coding	PUTATIVE	None	30306	264	87	7074515	7079914	-1	None	REA, BCAP37, Bap37, p22
12	PHB2	ENSG00000215021	ENST00000535923	protein_coding	KNOWN	CCDS53741	30306	900	299	7074515	7079988	-1	None	REA, BCAP37, Bap37, p22
12	PHB2	ENSG00000215021	ENST00000542912	protein_coding	NOVEL	None	30306	804	267	7074627	7079812	-1	None	REA, BCAP37, Bap37, p22
12	PHB2	ENSG00000215021	ENST00000545555	protein_coding	NOVEL	None	30306	309	102	7075587	7077125	-1	None	REA, BCAP37, Bap37, p22
12	PHB2	ENSG00000215021	ENST00000545167	protein_coding	PUTATIVE	None	30306	784	260	7076874	7079830	-1	None	REA, BCAP37, Bap37, p22
12	PHB2	ENSG00000215021	ENST00000544888	nonsense_mediated_decay	KNOWN	None	30306	339	112	7076910	7079843	-1	None	REA, BCAP37, Bap37, p22
12	PHB2	ENSG00000215021	ENST00000536316	protein_coding	NOVEL	None	30306	640	212	7077055	7079805	-1	None	REA, BCAP37, Bap37, p22
12	PHB2	ENSG00000215021	ENST00000544134	processed_transcript	KNOWN	None	30306	None	None	7077614	7079808	-1	None	REA, BCAP37, Bap37, p22
12	PHB2	ENSG00000215021	ENST00000546217	retained_intron	KNOWN	None	30306	None	None	7077661	7079808	-1	None	REA, BCAP37, Bap37, p22
12	PHB2	ENSG00000215021	ENST00000542294	retained_intron	KNOWN	None	30306	None	None	7079091	7079865	-1	None	REA, BCAP37, Bap37, p22
12	PHB2	ENSG00000215021	ENST00000399433	protein_coding	KNOWN	None	30306	900	299	7074848	7079916	-1	None	REA, BCAP37, Bap37, p22
12	PHB2	ENSG00000215021	ENST00000440277	protein_coding	KNOWN	CCDS58207	30306	786	261	7074848	7079822	-1	None	REA, BCAP37, Bap37, p22
5	GNB2L1	ENSG00000204628	ENST00000511473	nonsense_mediated_decay	KNOWN	None	4399	120	39	180663909	180670916	-1	None	Gnb2-rs1, RACK1, H12.3
5	GNB2L1	ENSG00000204628	ENST00000504325	nonsense_mediated_decay	KNOWN	None	4399	351	116	180663926	180670889	-1	None	Gnb2-rs1, RACK1, H12.3
5	GNB2L1	ENSG00000204628	ENST00000514455	protein_coding	PUTATIVE	None	4399	306	101	180663928	180665663	-1	None	Gnb2-rs1, RACK1, H12.3
5	GNB2L1	ENSG00000204628	ENST00000509148	protein_coding	PUTATIVE	None	4399	250	82	180663929	180665195	-1	None	Gnb2-rs1, RACK1, H12.3
5	GNB2L1	ENSG00000204628	ENST00000502905	protein_coding	NOVEL	None	4399	595	197	180663929	180669206	-1	None	Gnb2-rs1, RACK1, H12.3
5	GNB2L1	ENSG00000204628	ENST00000507756	protein_coding	NOVEL	None	4399	824	273	180663929	180669246	-1	None	Gnb2-rs1, RACK1, H12.3
5	GNB2L1	ENSG00000204628	ENST00000511566	protein_coding	NOVEL	None	4399	702	233	180663934	180670880	-1	None	Gnb2-rs1, RACK1, H12.3
5	GNB2L1	ENSG00000204628	ENST00000507273	retained_intron	KNOWN	None	4399	None	None	180663937	180664860	-1	None	Gnb2-rs1, RACK1, H12.3
5	GNB2L1	ENSG00000204628	ENST00000509535	protein_coding	NOVEL	None	4399	416	137	180663937	180666584	-1	None	Gnb2-rs1, RACK1, H12.3
5	GNB2L1	ENSG00000204628	ENST00000504128	protein_coding	PUTATIVE	None	4399	742	246	180663937	180668639	-1	None	Gnb2-rs1, RACK1, H12.3
5	GNB2L1	ENSG00000204628	ENST00000508682	nonsense_mediated_decay	KNOWN	None	4399	444	147	180663937	180670902	-1	None	Gnb2-rs1, RACK1, H12.3
5	GNB2L1	ENSG00000204628	ENST00000376817	protein_coding	NOVEL	None	4399	822	273	180663937	180670903	-1	None	Gnb2-rs1, RACK1, H12.3
5	GNB2L1	ENSG00000204628	ENST00000512805	protein_coding	KNOWN	CCDS34324	4399	954	317	180663937	180671209	-1	None	Gnb2-rs1, RACK1, H12.3
5	GNB2L1	ENSG00000204628	ENST00000504726	protein_coding	PUTATIVE	None	4399	261	86	180663941	180670891	-1	None	Gnb2-rs1, RACK1, H12.3
5	GNB2L1	ENSG00000204628	ENST00000511900	protein_coding	NOVEL	None	4399	810	269	180663945	180670880	-1	None	Gnb2-rs1, RACK1, H12.3
5	GNB2L1	ENSG00000204628	ENST00000513060	retained_intron	KNOWN	None	4399	None	None	180663961	180670947	-1	None	Gnb2-rs1, RACK1, H12.3
5	GNB2L1	ENSG00000204628	ENST00000512968	protein_coding	NOVEL	None	4399	965	320	180664020	180670893	-1	None	Gnb2-rs1, RACK1, H12.3
5	GNB2L1	ENSG00000204628	ENST00000510199	protein_coding	PUTATIVE	None	4399	900	299	180665120	180674576	-1	None	Gnb2-rs1, RACK1, H12.3
5	GNB2L1	ENSG00000204628	ENST00000502844	protein_coding	PUTATIVE	None	4399	710	235	180665124	180670370	-1	None	Gnb2-rs1, RACK1, H12.3
5	GNB2L1	ENSG00000204628	ENST00000507000	protein_coding	NOVEL	None	4399	583	193	180665170	180675096	-1	None	Gnb2-rs1, RACK1, H12.3
5	GNB2L1	ENSG00000204628	ENST00000514183	retained_intron	KNOWN	None	4399	None	None	180665206	180670742	-1	None	Gnb2-rs1, RACK1, H12.3
5	GNB2L1	ENSG00000204628	ENST00000502548	retained_intron	KNOWN	None	4399	None	None	180666038	180670904	-1	None	Gnb2-rs1, RACK1, H12.3
5	GNB2L1	ENSG00000204628	ENST00000502890	retained_intron	KNOWN	None	4399	None	None	180666070	180668880	-1	None	Gnb2-rs1, RACK1, H12.3
5	GNB2L1	ENSG00000204628	ENST00000503494	nonsense_mediated_decay	KNOWN	None	4399	462	153	180666071	180670881	-1	None	Gnb2-rs1, RACK1, H12.3
5	GNB2L1	ENSG00000204628	ENST00000506312	nonsense_mediated_decay	KNOWN	None	4399	216	71	180666134	180670902	-1	None	Gnb2-rs1, RACK1, H12.3
5	GNB2L1	ENSG00000204628	ENST00000503081	protein_coding	NOVEL	None	4399	481	159	180666150	180670906	-1	None	Gnb2-rs1, RACK1, H12.3
5	GNB2L1	ENSG00000204628	ENST00000508044	retained_intron	KNOWN	None	4399	None	None	180666287	180667473	-1	None	Gnb2-rs1, RACK1, H12.3
5	GNB2L1	ENSG00000204628	ENST00000515417	retained_intron	KNOWN	None	4399	None	None	180666323	180670872	-1	None	Gnb2-rs1, RACK1, H12.3
5	GNB2L1	ENSG00000204628	ENST00000513027	protein_coding	PUTATIVE	None	4399	593	196	180666539	180670904	-1	None	Gnb2-rs1, RACK1, H12.3
5	GNB2L1	ENSG00000204628	ENST00000505461	processed_transcript	KNOWN	None	4399	None	None	180667957	180670914	-1	None	Gnb2-rs1, RACK1, H12.3
5	GNB2L1	ENSG00000204628	ENST00000507261	retained_intron	KNOWN	None	4399	None	None	180668437	180670902	-1	None	Gnb2-rs1, RACK1, H12.3
5	GNB2L1	ENSG00000204628	ENST00000508963	retained_intron	KNOWN	None	4399	None	None	180668443	180670903	-1	None	Gnb2-rs1, RACK1, H12.3
5	GNB2L1	ENSG00000204628	ENST00000503170	processed_transcript	KNOWN	None	4399	None	None	180669250	180670904	-1	None	Gnb2-rs1, RACK1, H12.3
5	GNB2L1	ENSG00000204628	ENST00000514318	processed_transcript	PUTATIVE	None	4399	None	None	180670042	180670908	-1	None	Gnb2-rs1, RACK1, H12.3
5	GNB2L1	ENSG00000204628	ENST00000456394	protein_coding	KNOWN	None	4399	462	153	180666873	180670914	-1	None	Gnb2-rs1, RACK1, H12.3
19	ZNF676	ENSG00000196109	ENST00000397121	protein_coding	KNOWN	CCDS42539	20429	1767	588	22361893	22379753	-1	None	None
5	RNF14	ENSG00000013561	ENST00000511961	protein_coding	KNOWN	None	10058	834	277	141337893	141358395	1	None	ARA54, HFB30, TRIAD2
5	RNF14	ENSG00000013561	ENST00000506822	protein_coding	KNOWN	None	10058	398	131	141337902	141357959	1	None	ARA54, HFB30, TRIAD2
5	RNF14	ENSG00000013561	ENST00000513019	protein_coding	KNOWN	None	10058	298	98	141346385	141354512	1	None	ARA54, HFB30, TRIAD2
5	RNF14	ENSG00000013561	ENST00000394520	protein_coding	KNOWN	CCDS4270	10058	1425	474	141348604	141369856	1	None	ARA54, HFB30, TRIAD2
5	RNF14	ENSG00000013561	ENST00000514620	processed_transcript	KNOWN	None	10058	None	None	141348660	141359842	1	None	ARA54, HFB30, TRIAD2
5	RNF14	ENSG00000013561	ENST00000502341	processed_transcript	KNOWN	None	10058	None	None	141348669	141358327	1	None	ARA54, HFB30, TRIAD2
5	RNF14	ENSG00000013561	ENST00000506938	protein_coding	KNOWN	None	10058	513	170	141348670	141358074	1	None	ARA54, HFB30, TRIAD2
5	RNF14	ENSG00000013561	ENST00000394514	protein_coding	KNOWN	CCDS4271	10058	1047	348	141348676	141368750	1	None	ARA54, HFB30, TRIAD2
5	RNF14	ENSG00000013561	ENST00000512565	protein_coding	NOVEL	None	10058	458	151	141348701	141364498	1	None	ARA54, HFB30, TRIAD2
5	RNF14	ENSG00000013561	ENST00000515613	nonsense_mediated_decay	KNOWN	None	10058	195	64	141348716	141363117	1	None	ARA54, HFB30, TRIAD2
5	RNF14	ENSG00000013561	ENST00000507163	protein_coding	KNOWN	None	10058	557	184	141348722	141358118	1	None	ARA54, HFB30, TRIAD2
5	RNF14	ENSG00000013561	ENST00000506004	protein_coding	KNOWN	None	10058	46	14	141348834	141353199	1	None	ARA54, HFB30, TRIAD2
5	RNF14	ENSG00000013561	ENST00000507291	protein_coding	KNOWN	None	10058	184	60	141348842	141354398	1	None	ARA54, HFB30, TRIAD2
5	RNF14	ENSG00000013561	ENST00000356143	protein_coding	KNOWN	CCDS4270	10058	1425	474	141346437	141368750	1	None	ARA54, HFB30, TRIAD2
5	RNF14	ENSG00000013561	ENST00000347642	protein_coding	KNOWN	CCDS4270	10058	1425	474	141348622	141368750	1	None	ARA54, HFB30, TRIAD2
5	RNF14	ENSG00000013561	ENST00000540015	protein_coding	KNOWN	None	10058	516	171	141348656	141367773	1	None	ARA54, HFB30, TRIAD2
5	RNF14	ENSG00000013561	ENST00000394515	protein_coding	KNOWN	None	10058	897	298	141348706	141367480	1	None	ARA54, HFB30, TRIAD2
5	RNF14	ENSG00000013561	ENST00000394519	protein_coding	KNOWN	CCDS4270	10058	1425	474	141348733	141368750	1	None	ARA54, HFB30, TRIAD2
11	CPSF7	ENSG00000149532	ENST00000340437	protein_coding	KNOWN	CCDS8006	30098	1545	514	61170121	61197383	-1	None	FLJ12529
11	CPSF7	ENSG00000149532	ENST00000394888	protein_coding	KNOWN	CCDS44619	30098	1416	471	61170121	61197503	-1	None	FLJ12529
11	CPSF7	ENSG00000149532	ENST00000439958	protein_coding	KNOWN	CCDS44620	30098	1389	462	61170203	61197486	-1	None	FLJ12529
11	CPSF7	ENSG00000149532	ENST00000494016	processed_transcript	PUTATIVE	None	30098	None	None	61171760	61173642	-1	None	FLJ12529
11	CPSF7	ENSG00000149532	ENST00000448745	protein_coding	KNOWN	CCDS44620	30098	1389	462	61171891	61196776	-1	None	FLJ12529
11	CPSF7	ENSG00000149532	ENST00000537641	retained_intron	KNOWN	None	30098	None	None	61178053	61197447	-1	None	FLJ12529
11	CPSF7	ENSG00000149532	ENST00000477890	protein_coding	NOVEL	None	30098	1124	373	61178479	61197440	-1	None	FLJ12529
11	CPSF7	ENSG00000149532	ENST00000544669	retained_intron	KNOWN	None	30098	None	None	61183650	61197422	-1	None	FLJ12529
11	CPSF7	ENSG00000149532	ENST00000539952	protein_coding	KNOWN	None	30098	864	287	61183651	61197392	-1	None	FLJ12529
11	CPSF7	ENSG00000149532	ENST00000535222	nonsense_mediated_decay	KNOWN	None	30098	303	100	61183769	61197450	-1	None	FLJ12529
11	CPSF7	ENSG00000149532	ENST00000544990	nonsense_mediated_decay	KNOWN	None	30098	309	102	61183841	61196756	-1	None	FLJ12529
11	CPSF7	ENSG00000149532	ENST00000544585	protein_coding	PUTATIVE	None	30098	658	218	61183857	61197394	-1	None	FLJ12529
11	CPSF7	ENSG00000149532	ENST00000413232	protein_coding	KNOWN	None	30098	614	203	61183901	61197286	-1	None	FLJ12529
11	CPSF7	ENSG00000149532	ENST00000537162	nonsense_mediated_decay	KNOWN	None	30098	306	101	61183937	61197460	-1	None	FLJ12529
11	CPSF7	ENSG00000149532	ENST00000543545	nonsense_mediated_decay	KNOWN	None	30098	282	93	61183972	61196736	-1	None	FLJ12529
11	CPSF7	ENSG00000149532	ENST00000541963	protein_coding	PUTATIVE	None	30098	297	98	61187442	61197420	-1	None	FLJ12529
11	CPSF7	ENSG00000149532	ENST00000536548	nonsense_mediated_decay	KNOWN	None	30098	306	101	61187503	61197394	-1	None	FLJ12529
11	CPSF7	ENSG00000149532	ENST00000450000	protein_coding	KNOWN	None	30098	437	144	61187507	61197394	-1	None	FLJ12529
11	CPSF7	ENSG00000149532	ENST00000449811	protein_coding	KNOWN	None	30098	431	142	61187513	61197187	-1	None	FLJ12529
11	CPSF7	ENSG00000149532	ENST00000413184	protein_coding	PUTATIVE	None	30098	415	137	61187529	61197022	-1	None	FLJ12529
11	CPSF7	ENSG00000149532	ENST00000536145	nonsense_mediated_decay	KNOWN	None	30098	306	101	61187530	61196762	-1	None	FLJ12529
11	CPSF7	ENSG00000149532	ENST00000545934	processed_transcript	KNOWN	None	30098	None	None	61187966	61197392	-1	None	FLJ12529
11	CPSF7	ENSG00000149532	ENST00000463244	processed_transcript	KNOWN	None	30098	None	None	61188465	61197464	-1	None	FLJ12529
11	CPSF7	ENSG00000149532	ENST00000489728	retained_intron	KNOWN	None	30098	None	None	61188786	61197005	-1	None	FLJ12529
11	CPSF7	ENSG00000149532	ENST00000474684	retained_intron	KNOWN	None	30098	None	None	61188867	61197413	-1	None	FLJ12529
1	IGFN1	ENSG00000163395	ENST00000437879	nonsense_mediated_decay	KNOWN	None	24607	1713	570	201159953	201197776	1	None	DKFZp434B1231, EEF1A2BP1
1	IGFN1	ENSG00000163395	ENST00000444705	retained_intron	KNOWN	None	24607	None	None	201174210	201175603	1	None	DKFZp434B1231, EEF1A2BP1
1	IGFN1	ENSG00000163395	ENST00000412892	protein_coding	PUTATIVE	None	24607	3379	1125	201181770	201198080	1	None	DKFZp434B1231, EEF1A2BP1
1	IGFN1	ENSG00000163395	ENST00000473483	retained_intron	KNOWN	None	24607	None	None	201182224	201198080	1	None	DKFZp434B1231, EEF1A2BP1
1	IGFN1	ENSG00000163395	ENST00000335211	protein_coding	KNOWN	CCDS53455	24607	11127	3708	201159953	201198080	1	None	DKFZp434B1231, EEF1A2BP1
1	IGFN1	ENSG00000163395	ENST00000451870	protein_coding	KNOWN	None	24607	1713	570	201159953	201185111	1	None	DKFZp434B1231, EEF1A2BP1
1	IGFN1	ENSG00000163395	ENST00000295591	protein_coding	KNOWN	None	24607	1827	608	201159953	201198080	1	None	DKFZp434B1231, EEF1A2BP1
4	COPS4	ENSG00000138663	ENST00000509093	protein_coding	NOVEL	CCDS58909	16702	1059	352	83955600	83996942	1	None	CSN4
4	COPS4	ENSG00000138663	ENST00000264389	protein_coding	KNOWN	CCDS3600	16702	1221	406	83956243	83996971	1	None	CSN4
4	COPS4	ENSG00000138663	ENST00000511891	retained_intron	KNOWN	None	16702	None	None	83956324	83970668	1	None	CSN4
4	COPS4	ENSG00000138663	ENST00000509317	protein_coding	PUTATIVE	None	16702	826	274	83956326	83996524	1	None	CSN4
4	COPS4	ENSG00000138663	ENST00000510801	processed_transcript	PUTATIVE	None	16702	None	None	83956327	83971137	1	None	CSN4
4	COPS4	ENSG00000138663	ENST00000506443	processed_transcript	KNOWN	None	16702	None	None	83956352	83978215	1	None	CSN4
4	COPS4	ENSG00000138663	ENST00000507376	nonsense_mediated_decay	KNOWN	None	16702	156	51	83956354	83971112	1	None	CSN4
4	COPS4	ENSG00000138663	ENST00000503682	protein_coding	NOVEL	None	16702	1317	438	83956360	83996950	1	None	CSN4
4	COPS4	ENSG00000138663	ENST00000511653	protein_coding	NOVEL	None	16702	1263	420	83956378	83996909	1	None	CSN4
4	COPS4	ENSG00000138663	ENST00000511708	processed_transcript	KNOWN	None	16702	None	None	83956583	83970460	1	None	CSN4
4	COPS4	ENSG00000138663	ENST00000504274	retained_intron	KNOWN	None	16702	None	None	83984128	83989659	1	None	CSN4
Y	None	ENSG00000236690	ENST00000421675	unprocessed_pseudogene	KNOWN	None	None	None	None	7558552	7560719	1	None	None
22	SLC2A11	ENSG00000133460	ENST00000345044	protein_coding	KNOWN	CCDS46673	14239	1491	496	24198890	24228496	1	None	GLUT11, GLUT10
22	SLC2A11	ENSG00000133460	ENST00000403208	protein_coding	PUTATIVE	None	14239	315	104	24199050	24212369	1	None	GLUT11, GLUT10
22	SLC2A11	ENSG00000133460	ENST00000398356	protein_coding	KNOWN	CCDS13818	14239	1512	503	24199059	24227723	1	None	GLUT11, GLUT10
22	SLC2A11	ENSG00000133460	ENST00000405847	protein_coding	PUTATIVE	None	14239	540	179	24199121	24219515	1	None	GLUT11, GLUT10
22	SLC2A11	ENSG00000133460	ENST00000467660	processed_transcript	KNOWN	None	14239	None	None	24199133	24225139	1	None	GLUT11, GLUT10
22	SLC2A11	ENSG00000133460	ENST00000405286	processed_transcript	KNOWN	None	14239	None	None	24199138	24225138	1	None	GLUT11, GLUT10
22	SLC2A11	ENSG00000133460	ENST00000255830	nonsense_mediated_decay	KNOWN	None	14239	297	98	24199144	24227120	1	None	GLUT11, GLUT10
22	SLC2A11	ENSG00000133460	ENST00000489322	retained_intron	KNOWN	None	14239	None	None	24199144	24227738	1	None	GLUT11, GLUT10
22	SLC2A11	ENSG00000133460	ENST00000440493	processed_transcript	KNOWN	None	14239	None	None	24199149	24208993	1	None	GLUT11, GLUT10
22	SLC2A11	ENSG00000133460	ENST00000473740	retained_intron	KNOWN	None	14239	None	None	24199187	24217398	1	None	GLUT11, GLUT10
22	SLC2A11	ENSG00000133460	ENST00000492516	retained_intron	KNOWN	None	14239	None	None	24199523	24204512	1	None	GLUT11, GLUT10
22	SLC2A11	ENSG00000133460	ENST00000423972	nonsense_mediated_decay	KNOWN	None	14239	318	105	24199604	24219474	1	None	GLUT11, GLUT10
22	SLC2A11	ENSG00000133460	ENST00000418102	nonsense_mediated_decay	KNOWN	None	14239	147	48	24199658	24217376	1	None	GLUT11, GLUT10
22	SLC2A11	ENSG00000133460	ENST00000491948	retained_intron	KNOWN	None	14239	None	None	24200062	24210983	1	None	GLUT11, GLUT10
22	SLC2A11	ENSG00000133460	ENST00000436643	nonsense_mediated_decay	KNOWN	None	14239	342	113	24200082	24219359	1	None	GLUT11, GLUT10
22	SLC2A11	ENSG00000133460	ENST00000405340	nonsense_mediated_decay	KNOWN	None	14239	669	222	24200106	24227740	1	None	GLUT11, GLUT10
22	SLC2A11	ENSG00000133460	ENST00000461809	retained_intron	KNOWN	None	14239	None	None	24200148	24227723	1	None	GLUT11, GLUT10
22	SLC2A11	ENSG00000133460	ENST00000316185	protein_coding	KNOWN	CCDS33616	14239	1500	499	24200150	24227054	1	None	GLUT11, GLUT10
22	SLC2A11	ENSG00000133460	ENST00000482576	processed_transcript	KNOWN	None	14239	None	None	24217347	24225139	1	None	GLUT11, GLUT10
22	SLC2A11	ENSG00000133460	ENST00000472526	processed_transcript	KNOWN	None	14239	None	None	24220045	24226971	1	None	GLUT11, GLUT10
22	SLC2A11	ENSG00000133460	ENST00000473357	retained_intron	KNOWN	None	14239	None	None	24222596	24225494	1	None	GLUT11, GLUT10
22	SLC2A11	ENSG00000133460	ENST00000486907	retained_intron	KNOWN	None	14239	None	None	24225147	24227723	1	None	GLUT11, GLUT10
Y	TTTY16	ENSG00000225520	ENST00000437686	lincRNA	KNOWN	None	18840	None	None	7567398	7569288	-1	None	NCRNA00139
Y	RFTN1P1	ENSG00000241916	ENST00000455527	unprocessed_pseudogene	KNOWN	None	23971	None	None	7581026	7644748	-1	None	None
6	BCKDHB	ENSG00000083123	ENST00000369760	protein_coding	KNOWN	None	987	657	218	80816364	80879590	1	None	None
6	BCKDHB	ENSG00000083123	ENST00000356489	protein_coding	KNOWN	CCDS4994	987	1179	392	80816364	81055971	1	None	None
6	BCKDHB	ENSG00000083123	ENST00000320393	protein_coding	KNOWN	CCDS4994	987	1179	392	80816364	81055987	1	None	None
6	BCKDHB	ENSG00000083123	ENST00000486968	processed_transcript	KNOWN	None	987	None	None	80836986	80845604	1	None	None
6	BCKDHB	ENSG00000083123	ENST00000468520	processed_transcript	KNOWN	None	987	None	None	80912819	80982907	1	None	None
6	BCKDHB	ENSG00000083123	ENST00000491328	retained_intron	KNOWN	None	987	None	None	81053288	81055971	1	None	None
6	BCKDHB	ENSG00000083123	ENST00000545529	protein_coding	KNOWN	None	987	657	218	80816383	81055987	1	None	None
Y	None	ENSG00000234795	ENST00000442584	processed_transcript	KNOWN	None	None	None	None	7610636	7677302	-1	None	None
HSCHR6_MHC_MCF	CSNK2B	ENSG00000224398	ENST00000422261	protein_coding	KNOWN	None	2460	705	234	31709296	31714130	1	None	None
HSCHR6_MHC_MCF	CSNK2B	ENSG00000224398	ENST00000422567	protein_coding	KNOWN	None	2460	648	215	31710124	31714130	1	None	None
HSCHR6_MHC_MCF	CSNK2B	ENSG00000224398	ENST00000476407	retained_intron	KNOWN	None	2460	None	None	31710141	31714403	1	None	None
HSCHR6_MHC_MCF	CSNK2B	ENSG00000224398	ENST00000497836	retained_intron	KNOWN	None	2460	None	None	31710147	31712301	1	None	None
HSCHR6_MHC_MCF	CSNK2B	ENSG00000224398	ENST00000489925	retained_intron	KNOWN	None	2460	None	None	31710154	31713524	1	None	None
HSCHR6_MHC_MCF	CSNK2B	ENSG00000224398	ENST00000480866	processed_transcript	KNOWN	None	2460	None	None	31710158	31714130	1	None	None
HSCHR6_MHC_MCF	CSNK2B	ENSG00000224398	ENST00000416194	protein_coding	KNOWN	None	2460	687	228	31710162	31717606	1	None	None
HSCHR6_MHC_MCF	CSNK2B	ENSG00000224398	ENST00000431476	protein_coding	KNOWN	None	2460	648	215	31710352	31714130	1	None	None
HSCHR6_MHC_MCF	CSNK2B	ENSG00000224398	ENST00000436169	protein_coding	KNOWN	None	2460	648	215	31710415	31714130	1	None	None
Y	TTTY12	ENSG00000237048	ENST00000413466	lincRNA	KNOWN	None	18493	None	None	7672965	7678724	1	None	TTY11, NCRNA00135
Y	ZNF92P1Y	ENSG00000215603	ENST00000415010	processed_pseudogene	KNOWN	None	39553	None	None	7721727	7722917	-1	None	None
19	ZNF729	ENSG00000196350	ENST00000601693	protein_coding	NOVEL	CCDS59368	32464	3759	1252	22469210	22499978	1	None	None
19	ZNF729	ENSG00000196350	ENST00000357491	protein_coding	KNOWN	None	32464	3519	1172	22469252	22499951	1	None	None
Y	ZNF736P8Y	ENSG00000244246	ENST00000451913	processed_pseudogene	KNOWN	None	38406	None	None	7781463	7782131	-1	None	None
1	SIKE1	ENSG00000052723	ENST00000369528	protein_coding	KNOWN	CCDS41371	26119	636	211	115312100	115323306	-1	None	FLJ21168, SIKE
1	SIKE1	ENSG00000052723	ENST00000060969	protein_coding	KNOWN	CCDS878	26119	624	207	115315396	115323298	-1	None	FLJ21168, SIKE
1	SIKE1	ENSG00000052723	ENST00000369524	processed_transcript	KNOWN	None	26119	None	None	115316763	115322811	-1	None	FLJ21168, SIKE
1	SIKE1	ENSG00000052723	ENST00000510745	processed_transcript	KNOWN	None	26119	None	None	115316966	115323133	-1	None	FLJ21168, SIKE
1	SIKE1	ENSG00000052723	ENST00000506320	processed_transcript	KNOWN	None	26119	None	None	115319005	115323232	-1	None	FLJ21168, SIKE
1	SIKE1	ENSG00000052723	ENST00000462123	processed_transcript	KNOWN	None	26119	None	None	115321719	115323158	-1	None	FLJ21168, SIKE
1	SIKE1	ENSG00000052723	ENST00000475335	processed_transcript	KNOWN	None	26119	None	None	115321728	115323255	-1	None	FLJ21168, SIKE
1	SIKE1	ENSG00000052723	ENST00000466657	processed_transcript	KNOWN	None	26119	None	None	115321728	115323306	-1	None	FLJ21168, SIKE
1	SIKE1	ENSG00000052723	ENST00000474562	processed_transcript	KNOWN	None	26119	None	None	115321735	115323248	-1	None	FLJ21168, SIKE
1	SIKE1	ENSG00000052723	ENST00000471969	retained_intron	KNOWN	None	26119	None	None	115321823	115323116	-1	None	FLJ21168, SIKE
Y	BPY2DP	ENSG00000229745	ENST00000422208	unprocessed_pseudogene	KNOWN	None	38794	None	None	7801038	7805681	-1	None	None
Y	ZNF736P7Y	ENSG00000241200	ENST00000425158	processed_pseudogene	KNOWN	None	38404	None	None	7859028	7859847	-1	None	None
10	None	ENSG00000233163	ENST00000438591	processed_pseudogene	KNOWN	None	None	None	None	70921286	70921662	-1	None	None
6	DAAM2	ENSG00000146122	ENST00000274867	protein_coding	KNOWN	CCDS56426	18143	3207	1068	39760142	39872644	1	None	KIAA0381
6	DAAM2	ENSG00000146122	ENST00000398904	protein_coding	KNOWN	CCDS56426	18143	3207	1068	39760794	39872644	1	None	KIAA0381
6	DAAM2	ENSG00000146122	ENST00000475489	retained_intron	KNOWN	None	18143	None	None	39824023	39829251	1	None	KIAA0381
6	DAAM2	ENSG00000146122	ENST00000494405	processed_transcript	KNOWN	None	18143	None	None	39824023	39835297	1	None	KIAA0381
6	DAAM2	ENSG00000146122	ENST00000491083	processed_transcript	PUTATIVE	None	18143	None	None	39841122	39846549	1	None	KIAA0381
6	DAAM2	ENSG00000146122	ENST00000496787	processed_transcript	PUTATIVE	None	18143	None	None	39855181	39859137	1	None	KIAA0381
6	DAAM2	ENSG00000146122	ENST00000538976	protein_coding	KNOWN	CCDS54999	18143	3204	1067	39760794	39872648	1	None	KIAA0381
6	DAAM2	ENSG00000146122	ENST00000405961	protein_coding	KNOWN	None	18143	399	132	39816342	39828937	1	None	KIAA0381
Y	ZNF736P9Y	ENSG00000239893	ENST00000439586	processed_pseudogene	KNOWN	None	38408	None	None	7936937	7938764	-1	None	None
10	None	ENSG00000229261	ENST00000450995	antisense	KNOWN	None	None	None	None	70975089	70992246	-1	None	None
17	TNRC6C	ENSG00000078687	ENST00000588847	protein_coding	KNOWN	CCDS45799	29318	5181	1726	76000249	76103545	1	None	KIAA1582, FLJ20015
17	TNRC6C	ENSG00000078687	ENST00000588061	protein_coding	KNOWN	CCDS45798	29318	5073	1690	76000249	76103545	1	None	KIAA1582, FLJ20015
17	TNRC6C	ENSG00000078687	ENST00000585438	protein_coding	PUTATIVE	None	29318	350	115	76027603	76063991	1	None	KIAA1582, FLJ20015
17	TNRC6C	ENSG00000078687	ENST00000588549	protein_coding	KNOWN	None	29318	287	94	76037128	76045430	1	None	KIAA1582, FLJ20015
17	TNRC6C	ENSG00000078687	ENST00000591851	retained_intron	KNOWN	None	29318	None	None	76047148	76073860	1	None	KIAA1582, FLJ20015
17	TNRC6C	ENSG00000078687	ENST00000587990	retained_intron	KNOWN	None	29318	None	None	76060975	76071466	1	None	KIAA1582, FLJ20015
17	TNRC6C	ENSG00000078687	ENST00000592251	retained_intron	KNOWN	None	29318	None	None	76087448	76089380	1	None	KIAA1582, FLJ20015
17	TNRC6C	ENSG00000078687	ENST00000592566	retained_intron	KNOWN	None	29318	None	None	76094423	76098902	1	None	KIAA1582, FLJ20015
17	TNRC6C	ENSG00000078687	ENST00000335749	protein_coding	KNOWN	CCDS45799	29318	5181	1726	76001137	76104916	1	None	KIAA1582, FLJ20015
17	TNRC6C	ENSG00000078687	ENST00000301624	protein_coding	KNOWN	CCDS45798	29318	5073	1690	76001137	76104916	1	None	KIAA1582, FLJ20015
17	TNRC6C	ENSG00000078687	ENST00000541771	protein_coding	KNOWN	CCDS45798	29318	5073	1690	76044994	76101021	1	None	KIAA1582, FLJ20015
17	TNRC6C	ENSG00000078687	ENST00000544502	protein_coding	KNOWN	CCDS45799	29318	5181	1726	76045144	76101021	1	None	KIAA1582, FLJ20015
Y	RBMY2JP	ENSG00000227204	ENST00000425544	unprocessed_pseudogene	KNOWN	None	23918	None	None	7995171	8012244	1	None	None
12	LYZ	ENSG00000090382	ENST00000261267	protein_coding	KNOWN	CCDS8989	6740	447	148	69742121	69748014	1	None	None
12	LYZ	ENSG00000090382	ENST00000549690	protein_coding	PUTATIVE	None	6740	414	137	69742164	69747275	1	None	None
12	LYZ	ENSG00000090382	ENST00000548839	protein_coding	PUTATIVE	None	6740	315	104	69742166	69744286	1	None	None
1	CLSPN	ENSG00000092853	ENST00000251195	protein_coding	KNOWN	None	19715	3999	1332	36185819	36235568	-1	None	None
1	CLSPN	ENSG00000092853	ENST00000466308	processed_transcript	KNOWN	None	19715	None	None	36201882	36203444	-1	None	None
1	CLSPN	ENSG00000092853	ENST00000318121	protein_coding	KNOWN	CCDS396	19715	4020	1339	36202006	36235529	-1	None	None
1	CLSPN	ENSG00000092853	ENST00000373220	protein_coding	KNOWN	CCDS53297	19715	3828	1275	36202006	36235529	-1	None	None
1	CLSPN	ENSG00000092853	ENST00000520551	protein_coding	NOVEL	None	19715	3861	1286	36202006	36235529	-1	None	None
1	CLSPN	ENSG00000092853	ENST00000517467	retained_intron	KNOWN	None	19715	None	None	36212566	36214375	-1	None	None
8	TMEM67	ENSG00000164953	ENST00000452276	protein_coding	PUTATIVE	None	28396	1191	396	94767072	94800159	1	MKS3	MGC26979, JBTS6, NPHP11
8	TMEM67	ENSG00000164953	ENST00000453321	protein_coding	KNOWN	CCDS6258	28396	2988	995	94767085	94830285	1	MKS3	MGC26979, JBTS6, NPHP11
8	TMEM67	ENSG00000164953	ENST00000498673	protein_coding	PUTATIVE	None	28396	18	5	94767093	94776161	1	MKS3	MGC26979, JBTS6, NPHP11
8	TMEM67	ENSG00000164953	ENST00000518319	protein_coding	PUTATIVE	None	28396	116	37	94767093	94777819	1	MKS3	MGC26979, JBTS6, NPHP11
8	TMEM67	ENSG00000164953	ENST00000409623	protein_coding	KNOWN	CCDS47893	28396	2745	914	94767115	94828988	1	MKS3	MGC26979, JBTS6, NPHP11
8	TMEM67	ENSG00000164953	ENST00000453906	protein_coding	NOVEL	None	28396	541	179	94767123	94800082	1	MKS3	MGC26979, JBTS6, NPHP11
8	TMEM67	ENSG00000164953	ENST00000474944	retained_intron	KNOWN	None	28396	None	None	94767123	94822199	1	MKS3	MGC26979, JBTS6, NPHP11
8	TMEM67	ENSG00000164953	ENST00000475305	retained_intron	KNOWN	None	28396	None	None	94767134	94771708	1	MKS3	MGC26979, JBTS6, NPHP11
8	TMEM67	ENSG00000164953	ENST00000521222	nonsense_mediated_decay	KNOWN	None	28396	360	119	94767134	94777686	1	MKS3	MGC26979, JBTS6, NPHP11
8	TMEM67	ENSG00000164953	ENST00000455946	nonsense_mediated_decay	KNOWN	None	28396	444	147	94767137	94777844	1	MKS3	MGC26979, JBTS6, NPHP11
8	TMEM67	ENSG00000164953	ENST00000481620	retained_intron	KNOWN	None	28396	None	None	94767140	94769358	1	MKS3	MGC26979, JBTS6, NPHP11
8	TMEM67	ENSG00000164953	ENST00000521065	nonsense_mediated_decay	KNOWN	None	28396	262	86	94767148	94777809	1	MKS3	MGC26979, JBTS6, NPHP11
8	TMEM67	ENSG00000164953	ENST00000521517	protein_coding	NOVEL	None	28396	518	171	94767151	94777819	1	MKS3	MGC26979, JBTS6, NPHP11
8	TMEM67	ENSG00000164953	ENST00000323130	nonsense_mediated_decay	KNOWN	None	28396	2958	985	94767155	94831462	1	MKS3	MGC26979, JBTS6, NPHP11
8	TMEM67	ENSG00000164953	ENST00000496213	retained_intron	KNOWN	None	28396	None	None	94777759	94793198	1	MKS3	MGC26979, JBTS6, NPHP11
8	TMEM67	ENSG00000164953	ENST00000425545	processed_transcript	KNOWN	None	28396	None	None	94781747	94794678	1	MKS3	MGC26979, JBTS6, NPHP11
8	TMEM67	ENSG00000164953	ENST00000520634	processed_transcript	PUTATIVE	None	28396	None	None	94797450	94798040	1	MKS3	MGC26979, JBTS6, NPHP11
8	TMEM67	ENSG00000164953	ENST00000520680	protein_coding	NOVEL	None	28396	715	237	94797497	94807732	1	MKS3	MGC26979, JBTS6, NPHP11
8	TMEM67	ENSG00000164953	ENST00000523230	retained_intron	KNOWN	None	28396	None	None	94803438	94809631	1	MKS3	MGC26979, JBTS6, NPHP11
8	TMEM67	ENSG00000164953	ENST00000519845	retained_intron	KNOWN	None	28396	None	None	94807044	94828924	1	MKS3	MGC26979, JBTS6, NPHP11
8	TMEM67	ENSG00000164953	ENST00000518896	processed_transcript	PUTATIVE	None	28396	None	None	94823510	94828988	1	MKS3	MGC26979, JBTS6, NPHP11
8	TMEM67	ENSG00000164953	ENST00000463467	processed_transcript	PUTATIVE	None	28396	None	None	94828636	94830284	1	MKS3	MGC26979, JBTS6, NPHP11
13	HTR2A	ENSG00000102468	ENST00000378688	protein_coding	KNOWN	CCDS9405	5293	1416	471	47405685	47470173	-1	HTR2	5-HT2A
13	HTR2A	ENSG00000102468	ENST00000543956	protein_coding	KNOWN	CCDS53867	5293	1164	387	47407513	47471169	-1	HTR2	5-HT2A
13	HTR2A	ENSG00000102468	ENST00000542664	protein_coding	KNOWN	CCDS9405	5293	1416	471	47407513	47471169	-1	HTR2	5-HT2A
2	SH3YL1	ENSG00000035115	ENST00000460974	processed_transcript	KNOWN	None	29546	None	None	217730	218866	-1	None	Ray, DKFZP586F1318
2	SH3YL1	ENSG00000035115	ENST00000403712	protein_coding	KNOWN	CCDS54332	29546	972	323	218136	264032	-1	None	Ray, DKFZP586F1318
2	SH3YL1	ENSG00000035115	ENST00000463865	processed_transcript	KNOWN	None	29546	None	None	218149	264392	-1	None	Ray, DKFZP586F1318
2	SH3YL1	ENSG00000035115	ENST00000403657	protein_coding	KNOWN	None	29546	684	227	218151	261323	-1	None	Ray, DKFZP586F1318
2	SH3YL1	ENSG00000035115	ENST00000473104	processed_transcript	KNOWN	None	29546	None	None	218153	262786	-1	None	Ray, DKFZP586F1318
2	SH3YL1	ENSG00000035115	ENST00000405430	protein_coding	KNOWN	None	29546	1029	342	218153	264179	-1	None	Ray, DKFZP586F1318
2	SH3YL1	ENSG00000035115	ENST00000356150	protein_coding	KNOWN	CCDS42646	29546	1029	342	218158	264065	-1	None	Ray, DKFZP586F1318
2	SH3YL1	ENSG00000035115	ENST00000403658	protein_coding	KNOWN	None	29546	684	227	218666	264810	-1	None	Ray, DKFZP586F1318
2	SH3YL1	ENSG00000035115	ENST00000468321	processed_transcript	KNOWN	None	29546	None	None	218773	264743	-1	None	Ray, DKFZP586F1318
2	SH3YL1	ENSG00000035115	ENST00000479739	nonsense_mediated_decay	KNOWN	None	29546	468	155	218780	260708	-1	None	Ray, DKFZP586F1318
2	SH3YL1	ENSG00000035115	ENST00000451005	protein_coding	NOVEL	None	29546	768	255	218797	253041	-1	None	Ray, DKFZP586F1318
2	SH3YL1	ENSG00000035115	ENST00000472012	processed_transcript	KNOWN	None	29546	None	None	222361	231159	-1	None	Ray, DKFZP586F1318
2	SH3YL1	ENSG00000035115	ENST00000431160	protein_coding	NOVEL	None	29546	693	230	229894	253113	-1	None	Ray, DKFZP586F1318
2	SH3YL1	ENSG00000035115	ENST00000471948	retained_intron	KNOWN	None	29546	None	None	230378	263983	-1	None	Ray, DKFZP586F1318
2	SH3YL1	ENSG00000035115	ENST00000481932	protein_coding	PUTATIVE	None	29546	295	97	230379	234231	-1	None	Ray, DKFZP586F1318
2	SH3YL1	ENSG00000035115	ENST00000488044	processed_transcript	KNOWN	None	29546	None	None	231137	264866	-1	None	Ray, DKFZP586F1318
2	SH3YL1	ENSG00000035115	ENST00000497051	retained_intron	KNOWN	None	29546	None	None	232915	249770	-1	None	Ray, DKFZP586F1318
2	SH3YL1	ENSG00000035115	ENST00000488979	processed_transcript	KNOWN	None	29546	None	None	233119	264568	-1	None	Ray, DKFZP586F1318
2	SH3YL1	ENSG00000035115	ENST00000475027	processed_transcript	KNOWN	None	29546	None	None	233123	264810	-1	None	Ray, DKFZP586F1318
2	SH3YL1	ENSG00000035115	ENST00000454318	protein_coding	NOVEL	None	29546	177	58	233169	264824	-1	None	Ray, DKFZP586F1318
2	SH3YL1	ENSG00000035115	ENST00000402632	protein_coding	PUTATIVE	None	29546	345	114	239561	264810	-1	None	Ray, DKFZP586F1318
2	SH3YL1	ENSG00000035115	ENST00000415368	protein_coding	KNOWN	None	29546	152	49	249805	264810	-1	None	Ray, DKFZP586F1318
2	SH3YL1	ENSG00000035115	ENST00000602998	processed_transcript	KNOWN	None	29546	None	None	255876	256377	-1	None	Ray, DKFZP586F1318
2	SH3YL1	ENSG00000035115	ENST00000605370	processed_transcript	KNOWN	None	29546	None	None	259423	260292	-1	None	Ray, DKFZP586F1318
2	SH3YL1	ENSG00000035115	ENST00000462719	processed_transcript	KNOWN	None	29546	None	None	260257	266398	-1	None	Ray, DKFZP586F1318
2	SH3YL1	ENSG00000035115	ENST00000465733	processed_transcript	KNOWN	None	29546	None	None	260343	264810	-1	None	Ray, DKFZP586F1318
2	SH3YL1	ENSG00000035115	ENST00000477707	processed_transcript	KNOWN	None	29546	None	None	260512	264810	-1	None	Ray, DKFZP586F1318
2	SH3YL1	ENSG00000035115	ENST00000472861	processed_transcript	KNOWN	None	29546	None	None	260804	264810	-1	None	Ray, DKFZP586F1318
2	SH3YL1	ENSG00000035115	ENST00000415006	protein_coding	KNOWN	None	29546	741	246	218138	242800	-1	None	Ray, DKFZP586F1318
19	ZNF98	ENSG00000197360	ENST00000357774	protein_coding	KNOWN	CCDS46031	13174	1719	572	22573821	22605148	-1	None	ZNF739, F7175
19	ZNF98	ENSG00000197360	ENST00000593657	protein_coding	PUTATIVE	None	13174	391	129	22575523	22605159	-1	None	ZNF739, F7175
19	ZNF98	ENSG00000197360	ENST00000601553	protein_coding	PUTATIVE	None	13174	264	87	22585184	22605156	-1	None	ZNF739, F7175
19	ZNF98	ENSG00000197360	ENST00000593802	protein_coding	PUTATIVE	None	13174	394	130	22586236	22715287	-1	None	ZNF739, F7175
19	ZNF98	ENSG00000197360	ENST00000599879	processed_transcript	PUTATIVE	None	13174	None	None	22618464	22715287	-1	None	ZNF739, F7175
9	GCNT1	ENSG00000187210	ENST00000488136	processed_transcript	KNOWN	None	4203	None	None	79034766	79117332	1	NACGT2	C2GNT, NAGCT2
9	GCNT1	ENSG00000187210	ENST00000480311	processed_transcript	KNOWN	None	4203	None	None	79074138	79117385	1	NACGT2	C2GNT, NAGCT2
9	GCNT1	ENSG00000187210	ENST00000376730	protein_coding	KNOWN	CCDS6653	4203	1287	428	79074146	79122332	1	NACGT2	C2GNT, NAGCT2
9	GCNT1	ENSG00000187210	ENST00000536223	protein_coding	KNOWN	CCDS6653	4203	1287	428	79034752	79118584	1	NACGT2	C2GNT, NAGCT2
9	GCNT1	ENSG00000187210	ENST00000442371	protein_coding	KNOWN	CCDS6653	4203	1287	428	79056582	79122330	1	NACGT2	C2GNT, NAGCT2
9	GCNT1	ENSG00000187210	ENST00000444201	protein_coding	KNOWN	CCDS6653	4203	1287	428	79074068	79122330	1	NACGT2	C2GNT, NAGCT2
3	DTX3L	ENSG00000163840	ENST00000296161	protein_coding	KNOWN	CCDS3015	30323	2223	740	122283085	122294050	1	None	BBAP
3	DTX3L	ENSG00000163840	ENST00000383661	protein_coding	PUTATIVE	None	30323	687	228	122283274	122290594	1	None	BBAP
10	None	ENSG00000231748	ENST00000413220	antisense	KNOWN	None	None	None	None	71025098	71027904	-1	None	None
HSCHR6_MHC_SSTO	HLA-B	ENSG00000228964	ENST00000491669	retained_intron	KNOWN	None	4932	None	None	31314550	31315484	-1	AS	None
HSCHR6_MHC_SSTO	HLA-B	ENSG00000228964	ENST00000463600	retained_intron	KNOWN	None	4932	None	None	31314550	31315754	-1	AS	None
HSCHR6_MHC_SSTO	HLA-B	ENSG00000228964	ENST00000437265	protein_coding	NOVEL	None	4932	725	240	31314550	31317082	-1	AS	None
HSCHR6_MHC_SSTO	HLA-B	ENSG00000228964	ENST00000421349	protein_coding	KNOWN	None	4932	1089	362	31314550	31317907	-1	AS	None
HSCHR6_MHC_SSTO	HLA-B	ENSG00000228964	ENST00000475902	retained_intron	KNOWN	None	4932	None	None	31315800	31316480	-1	AS	None
HSCHR6_MHC_SSTO	HLA-B	ENSG00000228964	ENST00000498484	nonsense_mediated_decay	KNOWN	None	4932	675	224	31315860	31317838	-1	AS	None
HSCHR6_MHC_SSTO	HLA-B	ENSG00000228964	ENST00000463832	retained_intron	KNOWN	None	4932	None	None	31316069	31317857	-1	AS	None
HSCHR6_MHC_SSTO	HLA-B	ENSG00000228964	ENST00000445610	protein_coding	PUTATIVE	None	4932	738	245	31316185	31317740	-1	AS	None
10	None	ENSG00000229197	ENST00000435088	processed_pseudogene	KNOWN	None	None	None	None	71060188	71060573	-1	None	None
19	NCCRP1	ENSG00000188505	ENST00000339852	protein_coding	KNOWN	CCDS12529	33739	828	275	39687601	39692524	1	None	LOC342897, NCCRP-1, FBXO50
HSCHR6_MHC_MANN	LTB	ENSG00000223448	ENST00000420402	protein_coding	KNOWN	None	6711	735	244	31587819	31589689	-1	TNFC	p33, TNFSF3
HSCHR6_MHC_MANN	LTB	ENSG00000223448	ENST00000468184	processed_transcript	KNOWN	None	6711	None	None	31587819	31589691	-1	TNFC	p33, TNFSF3
HSCHR6_MHC_MANN	LTB	ENSG00000223448	ENST00000496765	processed_transcript	KNOWN	None	6711	None	None	31587819	31589786	-1	TNFC	p33, TNFSF3
12	NUDT4	ENSG00000173598	ENST00000337179	protein_coding	KNOWN	CCDS9044	8051	546	181	93771659	93797024	1	None	DIPP2, HDCMB47P, KIAA0487, DIPP2alpha, DIPP2beta
12	NUDT4	ENSG00000173598	ENST00000415493	protein_coding	KNOWN	CCDS44952	8051	543	180	93771672	93797024	1	None	DIPP2, HDCMB47P, KIAA0487, DIPP2alpha, DIPP2beta
12	NUDT4	ENSG00000173598	ENST00000550056	protein_coding	PUTATIVE	None	8051	286	94	93772326	93793054	1	None	DIPP2, HDCMB47P, KIAA0487, DIPP2alpha, DIPP2beta
12	NUDT4	ENSG00000173598	ENST00000549992	protein_coding	PUTATIVE	None	8051	387	128	93772326	93796077	1	None	DIPP2, HDCMB47P, KIAA0487, DIPP2alpha, DIPP2beta
12	NUDT4	ENSG00000173598	ENST00000548662	protein_coding	PUTATIVE	None	8051	387	128	93772354	93793360	1	None	DIPP2, HDCMB47P, KIAA0487, DIPP2alpha, DIPP2beta
12	NUDT4	ENSG00000173598	ENST00000547014	protein_coding	KNOWN	None	8051	390	129	93772354	93793914	1	None	DIPP2, HDCMB47P, KIAA0487, DIPP2alpha, DIPP2beta
12	NUDT4	ENSG00000173598	ENST00000546925	protein_coding	PUTATIVE	None	8051	337	111	93772430	93793105	1	None	DIPP2, HDCMB47P, KIAA0487, DIPP2alpha, DIPP2beta
HSCHR6_MHC_DBB	C4B	ENSG00000236625	ENST00000449788	protein_coding	KNOWN	None	1324	5235	1744	31964725	31979014	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_DBB	C4B	ENSG00000236625	ENST00000466309	retained_intron	KNOWN	None	1324	None	None	31965544	31966260	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_DBB	C4B	ENSG00000236625	ENST00000479863	processed_transcript	KNOWN	None	1324	None	None	31965582	31967099	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_DBB	C4B	ENSG00000236625	ENST00000466356	retained_intron	KNOWN	None	1324	None	None	31968511	31970310	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_DBB	C4B	ENSG00000236625	ENST00000469413	retained_intron	KNOWN	None	1324	None	None	31971443	31971954	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_DBB	C4B	ENSG00000236625	ENST00000494210	processed_transcript	PUTATIVE	None	1324	None	None	31972289	31975169	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_DBB	C4B	ENSG00000236625	ENST00000473162	retained_intron	KNOWN	None	1324	None	None	31974075	31976052	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_DBB	C4B	ENSG00000236625	ENST00000496668	retained_intron	KNOWN	None	1324	None	None	31975184	31975863	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_DBB	C4B	ENSG00000236625	ENST00000473927	retained_intron	KNOWN	None	1324	None	None	31975488	31979014	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_DBB	C4B	ENSG00000236625	ENST00000483198	retained_intron	KNOWN	None	1324	None	None	31975533	31979014	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_DBB	C4B	ENSG00000236625	ENST00000462943	processed_transcript	KNOWN	None	1324	None	None	31977331	31979014	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_DBB	C4B	ENSG00000236625	ENST00000480076	retained_intron	KNOWN	None	1324	None	None	31977460	31978598	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_DBB	C4B	ENSG00000236625	ENST00000459759	retained_intron	KNOWN	None	1324	None	None	31977593	31978201	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_DBB	C4B	ENSG00000236625	ENST00000546399	protein_coding	KNOWN	None	1324	5097	1698	31964809	31978996	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_DBB	C4B_2	ENSG00000236625	ENST00000449788	protein_coding	KNOWN	None	42398	5235	1744	31964725	31979014	1	None	None
HSCHR6_MHC_DBB	C4B_2	ENSG00000236625	ENST00000466309	retained_intron	KNOWN	None	42398	None	None	31965544	31966260	1	None	None
HSCHR6_MHC_DBB	C4B_2	ENSG00000236625	ENST00000479863	processed_transcript	KNOWN	None	42398	None	None	31965582	31967099	1	None	None
HSCHR6_MHC_DBB	C4B_2	ENSG00000236625	ENST00000466356	retained_intron	KNOWN	None	42398	None	None	31968511	31970310	1	None	None
HSCHR6_MHC_DBB	C4B_2	ENSG00000236625	ENST00000469413	retained_intron	KNOWN	None	42398	None	None	31971443	31971954	1	None	None
HSCHR6_MHC_DBB	C4B_2	ENSG00000236625	ENST00000494210	processed_transcript	PUTATIVE	None	42398	None	None	31972289	31975169	1	None	None
HSCHR6_MHC_DBB	C4B_2	ENSG00000236625	ENST00000473162	retained_intron	KNOWN	None	42398	None	None	31974075	31976052	1	None	None
HSCHR6_MHC_DBB	C4B_2	ENSG00000236625	ENST00000496668	retained_intron	KNOWN	None	42398	None	None	31975184	31975863	1	None	None
HSCHR6_MHC_DBB	C4B_2	ENSG00000236625	ENST00000473927	retained_intron	KNOWN	None	42398	None	None	31975488	31979014	1	None	None
HSCHR6_MHC_DBB	C4B_2	ENSG00000236625	ENST00000483198	retained_intron	KNOWN	None	42398	None	None	31975533	31979014	1	None	None
HSCHR6_MHC_DBB	C4B_2	ENSG00000236625	ENST00000462943	processed_transcript	KNOWN	None	42398	None	None	31977331	31979014	1	None	None
HSCHR6_MHC_DBB	C4B_2	ENSG00000236625	ENST00000480076	retained_intron	KNOWN	None	42398	None	None	31977460	31978598	1	None	None
HSCHR6_MHC_DBB	C4B_2	ENSG00000236625	ENST00000459759	retained_intron	KNOWN	None	42398	None	None	31977593	31978201	1	None	None
HSCHR6_MHC_DBB	C4B_2	ENSG00000236625	ENST00000546399	protein_coding	KNOWN	None	42398	5097	1698	31964809	31978996	1	None	None
X	TRO	ENSG00000067445	ENST00000411534	protein_coding	PUTATIVE	None	12326	692	229	54946895	54949789	1	None	MAGE-D3, KIAA1114, MAGED3
X	TRO	ENSG00000067445	ENST00000452830	protein_coding	PUTATIVE	None	12326	213	70	54946996	54949310	1	None	MAGE-D3, KIAA1114, MAGED3
X	TRO	ENSG00000067445	ENST00000442098	protein_coding	KNOWN	None	12326	504	167	54947229	54949469	1	None	MAGE-D3, KIAA1114, MAGED3
X	TRO	ENSG00000067445	ENST00000430420	protein_coding	PUTATIVE	None	12326	576	191	54947229	54949673	1	None	MAGE-D3, KIAA1114, MAGED3
X	TRO	ENSG00000067445	ENST00000453081	protein_coding	PUTATIVE	None	12326	192	63	54947244	54949289	1	None	MAGE-D3, KIAA1114, MAGED3
X	TRO	ENSG00000067445	ENST00000173898	protein_coding	KNOWN	CCDS43959	12326	4296	1431	54947244	54957864	1	None	MAGE-D3, KIAA1114, MAGED3
X	TRO	ENSG00000067445	ENST00000319167	protein_coding	NOVEL	CCDS43958	12326	2121	706	54947244	54957864	1	None	MAGE-D3, KIAA1114, MAGED3
X	TRO	ENSG00000067445	ENST00000445561	nonsense_mediated_decay	KNOWN	None	12326	2046	681	54947249	54957864	1	None	MAGE-D3, KIAA1114, MAGED3
X	TRO	ENSG00000067445	ENST00000375029	nonsense_mediated_decay	KNOWN	None	12326	855	284	54947249	54957864	1	None	MAGE-D3, KIAA1114, MAGED3
X	TRO	ENSG00000067445	ENST00000375022	protein_coding	NOVEL	CCDS43958	12326	2121	706	54947249	54957864	1	None	MAGE-D3, KIAA1114, MAGED3
X	TRO	ENSG00000067445	ENST00000399736	protein_coding	NOVEL	CCDS59527	12326	930	309	54947249	54957864	1	None	MAGE-D3, KIAA1114, MAGED3
X	TRO	ENSG00000067445	ENST00000440072	protein_coding	PUTATIVE	None	12326	10	2	54947257	54949107	1	None	MAGE-D3, KIAA1114, MAGED3
X	TRO	ENSG00000067445	ENST00000484031	processed_transcript	KNOWN	None	12326	None	None	54947257	54952092	1	None	MAGE-D3, KIAA1114, MAGED3
X	TRO	ENSG00000067445	ENST00000431115	protein_coding	NOVEL	None	12326	307	101	54947258	54952037	1	None	MAGE-D3, KIAA1114, MAGED3
X	TRO	ENSG00000067445	ENST00000474933	processed_transcript	KNOWN	None	12326	None	None	54947258	54952890	1	None	MAGE-D3, KIAA1114, MAGED3
X	TRO	ENSG00000067445	ENST00000440759	protein_coding	KNOWN	None	12326	528	175	54947284	54949493	1	None	MAGE-D3, KIAA1114, MAGED3
X	TRO	ENSG00000067445	ENST00000375041	protein_coding	NOVEL	CCDS59528	12326	3105	1034	54947284	54957864	1	None	MAGE-D3, KIAA1114, MAGED3
X	TRO	ENSG00000067445	ENST00000449980	protein_coding	PUTATIVE	None	12326	369	122	54947517	54949466	1	None	MAGE-D3, KIAA1114, MAGED3
X	TRO	ENSG00000067445	ENST00000416704	protein_coding	KNOWN	None	12326	506	167	54947821	54949471	1	None	MAGE-D3, KIAA1114, MAGED3
X	TRO	ENSG00000067445	ENST00000427099	protein_coding	PUTATIVE	None	12326	364	120	54948410	54949461	1	None	MAGE-D3, KIAA1114, MAGED3
X	TRO	ENSG00000067445	ENST00000492142	processed_transcript	KNOWN	None	12326	None	None	54950811	54952913	1	None	MAGE-D3, KIAA1114, MAGED3
X	TRO	ENSG00000067445	ENST00000492706	retained_intron	KNOWN	None	12326	None	None	54950921	54957862	1	None	MAGE-D3, KIAA1114, MAGED3
X	TRO	ENSG00000067445	ENST00000475183	processed_transcript	KNOWN	None	12326	None	None	54953255	54957298	1	None	MAGE-D3, KIAA1114, MAGED3
X	TRO	ENSG00000067445	ENST00000469211	retained_intron	KNOWN	None	12326	None	None	54953718	54955380	1	None	MAGE-D3, KIAA1114, MAGED3
X	TRO	ENSG00000067445	ENST00000420798	protein_coding	KNOWN	CCDS59529	12326	2889	962	54947257	54957862	1	None	MAGE-D3, KIAA1114, MAGED3
3	NCKIPSD	ENSG00000213672	ENST00000416649	protein_coding	KNOWN	CCDS46827	15486	2148	715	48711277	48723317	-1	None	AF3P21, SPIN90, ORF1, WISH, WASLBP, DIP1
3	NCKIPSD	ENSG00000213672	ENST00000294129	protein_coding	KNOWN	CCDS2776	15486	2169	722	48711277	48723360	-1	None	AF3P21, SPIN90, ORF1, WISH, WASLBP, DIP1
3	NCKIPSD	ENSG00000213672	ENST00000413374	protein_coding	PUTATIVE	None	15486	456	151	48711799	48716554	-1	None	AF3P21, SPIN90, ORF1, WISH, WASLBP, DIP1
3	NCKIPSD	ENSG00000213672	ENST00000470006	retained_intron	KNOWN	None	15486	None	None	48712068	48717147	-1	None	AF3P21, SPIN90, ORF1, WISH, WASLBP, DIP1
3	NCKIPSD	ENSG00000213672	ENST00000415281	protein_coding	PUTATIVE	None	15486	803	266	48716509	48719017	-1	None	AF3P21, SPIN90, ORF1, WISH, WASLBP, DIP1
3	NCKIPSD	ENSG00000213672	ENST00000439518	protein_coding	PUTATIVE	None	15486	1186	394	48718626	48723268	-1	None	AF3P21, SPIN90, ORF1, WISH, WASLBP, DIP1
3	NCKIPSD	ENSG00000213672	ENST00000454134	nonsense_mediated_decay	KNOWN	None	15486	177	58	48718963	48723360	-1	None	AF3P21, SPIN90, ORF1, WISH, WASLBP, DIP1
3	NCKIPSD	ENSG00000213672	ENST00000453349	protein_coding	PUTATIVE	None	15486	611	202	48718967	48723794	-1	None	AF3P21, SPIN90, ORF1, WISH, WASLBP, DIP1
3	NCKIPSD	ENSG00000213672	ENST00000426678	protein_coding	PUTATIVE	None	15486	497	164	48718967	48723797	-1	None	AF3P21, SPIN90, ORF1, WISH, WASLBP, DIP1
3	NCKIPSD	ENSG00000213672	ENST00000341520	protein_coding	KNOWN	None	15486	2169	722	48701364	48723334	-1	None	AF3P21, SPIN90, ORF1, WISH, WASLBP, DIP1
7	GATS	ENSG00000160844	ENST00000436886	protein_coding	KNOWN	CCDS43621	29954	492	163	99798283	99869855	-1	None	DKFZp686B07267, STAG3OS
5	HSPA4	ENSG00000170606	ENST00000304858	protein_coding	KNOWN	CCDS4166	5237	2523	840	132387654	132442141	1	None	HS24/P52, HSPH2
5	HSPA4	ENSG00000170606	ENST00000504328	processed_transcript	KNOWN	None	5237	None	None	132411735	132424187	1	None	HS24/P52, HSPH2
5	HSPA4	ENSG00000170606	ENST00000514825	retained_intron	KNOWN	None	5237	None	None	132437288	132440169	1	None	HS24/P52, HSPH2
18	ROCK1	ENSG00000067900	ENST00000399799	protein_coding	KNOWN	CCDS11870	10251	4065	1354	18529701	18691812	-1	None	p160ROCK
18	ROCK1	ENSG00000067900	ENST00000578051	protein_coding	NOVEL	None	10251	300	99	18533251	18534831	-1	None	p160ROCK
18	ROCK1	ENSG00000067900	ENST00000584687	retained_intron	KNOWN	None	10251	None	None	18534815	18535428	-1	None	p160ROCK
18	ROCK1	ENSG00000067900	ENST00000584875	retained_intron	KNOWN	None	10251	None	None	18548446	18549315	-1	None	p160ROCK
18	ROCK1	ENSG00000067900	ENST00000583556	retained_intron	KNOWN	None	10251	None	None	18549919	18562744	-1	None	p160ROCK
18	ROCK1	ENSG00000067900	ENST00000582445	retained_intron	KNOWN	None	10251	None	None	18625006	18629172	-1	None	p160ROCK
2	IFIH1	ENSG00000115267	ENST00000263642	protein_coding	KNOWN	CCDS2217	18873	3078	1025	163123589	163175213	-1	None	MDA-5, Hlcd, MDA5, IDDM19
2	IFIH1	ENSG00000115267	ENST00000464129	retained_intron	KNOWN	None	18873	None	None	163150074	163163680	-1	None	MDA-5, Hlcd, MDA5, IDDM19
2	IFIH1	ENSG00000115267	ENST00000421365	protein_coding	KNOWN	None	18873	666	221	163166657	163175194	-1	None	MDA-5, Hlcd, MDA5, IDDM19
7	PVRIG	ENSG00000213413	ENST00000471803	processed_transcript	KNOWN	None	32190	None	None	99815864	99816958	1	None	MGC2463, C7orf15
7	PVRIG	ENSG00000213413	ENST00000317271	protein_coding	KNOWN	CCDS5690	32190	981	326	99816859	99819113	1	None	MGC2463, C7orf15
20	STAU1	ENSG00000124214	ENST00000371856	protein_coding	KNOWN	CCDS13414	11370	1734	577	47730060	47804904	-1	STAU	None
20	STAU1	ENSG00000124214	ENST00000360426	protein_coding	KNOWN	CCDS13415	11370	1491	496	47730060	47804904	-1	STAU	None
20	STAU1	ENSG00000124214	ENST00000347458	protein_coding	KNOWN	CCDS13415	11370	1491	496	47730060	47804904	-1	STAU	None
20	STAU1	ENSG00000124214	ENST00000340954	protein_coding	KNOWN	CCDS13415	11370	1491	496	47730060	47804904	-1	STAU	None
20	STAU1	ENSG00000124214	ENST00000371802	protein_coding	KNOWN	CCDS33481	11370	1509	502	47730060	47804904	-1	STAU	None
20	STAU1	ENSG00000124214	ENST00000371792	protein_coding	KNOWN	None	11370	1485	494	47730060	47804904	-1	STAU	None
20	STAU1	ENSG00000124214	ENST00000437404	protein_coding	KNOWN	None	11370	597	198	47740912	47804904	-1	STAU	None
20	STAU1	ENSG00000124214	ENST00000456866	protein_coding	KNOWN	None	11370	387	128	47768119	47790800	-1	STAU	None
20	STAU1	ENSG00000124214	ENST00000371828	protein_coding	KNOWN	CCDS33481	11370	1509	502	47729878	47804904	-1	STAU	None
11	SMPD1	ENSG00000166311	ENST00000342245	protein_coding	KNOWN	CCDS44531	11120	1896	631	6411661	6416225	1	None	ASM
11	SMPD1	ENSG00000166311	ENST00000533196	processed_transcript	KNOWN	None	11120	None	None	6411670	6413286	1	None	ASM
11	SMPD1	ENSG00000166311	ENST00000530395	protein_coding	PUTATIVE	None	11120	158	51	6411676	6413272	1	None	ASM
11	SMPD1	ENSG00000166311	ENST00000534405	nonsense_mediated_decay	KNOWN	None	11120	1209	402	6411703	6416221	1	None	ASM
11	SMPD1	ENSG00000166311	ENST00000527275	protein_coding	KNOWN	CCDS31409	11120	1893	630	6411705	6416008	1	None	ASM
11	SMPD1	ENSG00000166311	ENST00000533123	nonsense_mediated_decay	KNOWN	None	11120	1101	366	6411733	6416228	1	None	ASM
11	SMPD1	ENSG00000166311	ENST00000531303	nonsense_mediated_decay	KNOWN	None	11120	516	171	6411812	6416008	1	None	ASM
11	SMPD1	ENSG00000166311	ENST00000526280	protein_coding	PUTATIVE	None	11120	953	316	6413107	6416228	1	None	ASM
11	SMPD1	ENSG00000166311	ENST00000531336	retained_intron	KNOWN	None	11120	None	None	6414523	6415603	1	None	ASM
11	SMPD1	ENSG00000166311	ENST00000532367	retained_intron	KNOWN	None	11120	None	None	6414748	6415358	1	None	ASM
11	SMPD1	ENSG00000166311	ENST00000299397	protein_coding	KNOWN	None	11120	1764	587	6411655	6416225	1	None	ASM
11	SMPD1	ENSG00000166311	ENST00000356761	protein_coding	KNOWN	None	11120	1728	575	6411655	6416225	1	None	ASM
3	BAP1	ENSG00000163930	ENST00000460680	protein_coding	KNOWN	CCDS2853	950	2190	729	52435029	52444366	-1	None	hucep-6, KIAA0272, UCHL2
3	BAP1	ENSG00000163930	ENST00000469613	protein_coding	NOVEL	None	950	389	128	52435039	52438493	-1	None	hucep-6, KIAA0272, UCHL2
3	BAP1	ENSG00000163930	ENST00000296288	protein_coding	NOVEL	None	950	2136	711	52435042	52443930	-1	None	hucep-6, KIAA0272, UCHL2
3	BAP1	ENSG00000163930	ENST00000478368	protein_coding	NOVEL	None	950	762	253	52435832	52437663	-1	None	hucep-6, KIAA0272, UCHL2
3	BAP1	ENSG00000163930	ENST00000466093	retained_intron	KNOWN	None	950	None	None	52436040	52437567	-1	None	hucep-6, KIAA0272, UCHL2
3	BAP1	ENSG00000163930	ENST00000490804	retained_intron	KNOWN	None	950	None	None	52437719	52439669	-1	None	hucep-6, KIAA0272, UCHL2
3	BAP1	ENSG00000163930	ENST00000471532	retained_intron	KNOWN	None	950	None	None	52439827	52442063	-1	None	hucep-6, KIAA0272, UCHL2
3	BAP1	ENSG00000163930	ENST00000483984	retained_intron	KNOWN	None	950	None	None	52440662	52443894	-1	None	hucep-6, KIAA0272, UCHL2
3	BAP1	ENSG00000163930	ENST00000490917	nonsense_mediated_decay	KNOWN	None	950	126	41	52441189	52443967	-1	None	hucep-6, KIAA0272, UCHL2
3	BAP1	ENSG00000163930	ENST00000470173	protein_coding	PUTATIVE	None	950	338	111	52441195	52443799	-1	None	hucep-6, KIAA0272, UCHL2
7	SPDYE3	ENSG00000214300	ENST00000332397	protein_coding	KNOWN	CCDS47658	35462	1650	549	99905325	99919819	1	None	None
7	SPDYE3	ENSG00000214300	ENST00000380765	retained_intron	KNOWN	None	35462	None	None	99912064	99918757	1	None	None
7	SPDYE3	ENSG00000214300	ENST00000437326	protein_coding	KNOWN	None	35462	519	172	99905325	99919818	1	None	None
1	PKP1	ENSG00000081277	ENST00000367324	protein_coding	KNOWN	CCDS30967	9023	2181	726	201252580	201302121	1	None	B6P
1	PKP1	ENSG00000081277	ENST00000352845	protein_coding	KNOWN	CCDS30966	9023	2244	747	201252831	201297964	1	None	B6P
1	PKP1	ENSG00000081277	ENST00000475988	processed_transcript	KNOWN	None	9023	None	None	201285320	201289300	1	None	B6P
1	PKP1	ENSG00000081277	ENST00000477817	processed_transcript	KNOWN	None	9023	None	None	201297463	201299298	1	None	B6P
1	PKP1	ENSG00000081277	ENST00000263946	protein_coding	KNOWN	CCDS30966	9023	2244	747	201252580	201302121	1	None	B6P
1	SYCP1	ENSG00000198765	ENST00000369522	protein_coding	KNOWN	CCDS879	11487	2931	976	115397424	115537991	1	None	HOM-TES-14, SCP1, CT8
1	SYCP1	ENSG00000198765	ENST00000455987	protein_coding	KNOWN	None	11487	2376	791	115397489	115520231	1	None	HOM-TES-14, SCP1, CT8
1	SYCP1	ENSG00000198765	ENST00000369518	protein_coding	KNOWN	CCDS879	11487	2931	976	115397754	115537988	1	None	HOM-TES-14, SCP1, CT8
1	SYCP1	ENSG00000198765	ENST00000477215	processed_transcript	KNOWN	None	11487	None	None	115401171	115419503	1	None	HOM-TES-14, SCP1, CT8
1	SYCP1	ENSG00000198765	ENST00000468191	processed_transcript	KNOWN	None	11487	None	None	115402309	115405731	1	None	HOM-TES-14, SCP1, CT8
1	SYCP1	ENSG00000198765	ENST00000482717	processed_transcript	KNOWN	None	11487	None	None	115452700	115487568	1	None	HOM-TES-14, SCP1, CT8
1	SYCP1	ENSG00000198765	ENST00000493377	processed_transcript	KNOWN	None	11487	None	None	115452819	115466255	1	None	HOM-TES-14, SCP1, CT8
1	SYCP1	ENSG00000198765	ENST00000477590	processed_transcript	KNOWN	None	11487	None	None	115520178	115537975	1	None	HOM-TES-14, SCP1, CT8
20	SNX5	ENSG00000089006	ENST00000483485	processed_transcript	KNOWN	None	14969	None	None	17922241	17942638	-1	None	None
20	SNX5	ENSG00000089006	ENST00000377759	protein_coding	KNOWN	CCDS13130	14969	1215	404	17922241	17949363	-1	None	None
20	SNX5	ENSG00000089006	ENST00000490175	processed_transcript	KNOWN	None	14969	None	None	17922241	17949443	-1	None	None
20	SNX5	ENSG00000089006	ENST00000377768	protein_coding	KNOWN	CCDS13130	14969	1215	404	17922241	17949623	-1	None	None
20	SNX5	ENSG00000089006	ENST00000484809	retained_intron	KNOWN	None	14969	None	None	17922244	17924266	-1	None	None
20	SNX5	ENSG00000089006	ENST00000606570	retained_intron	KNOWN	None	14969	None	None	17922244	17926174	-1	None	None
20	SNX5	ENSG00000089006	ENST00000491090	processed_transcript	KNOWN	None	14969	None	None	17922478	17928265	-1	None	None
20	SNX5	ENSG00000089006	ENST00000476648	processed_transcript	KNOWN	None	14969	None	None	17922782	17934668	-1	None	None
20	SNX5	ENSG00000089006	ENST00000463050	retained_intron	KNOWN	None	14969	None	None	17927851	17932181	-1	None	None
20	SNX5	ENSG00000089006	ENST00000431277	protein_coding	NOVEL	None	14969	807	268	17929534	17949101	-1	None	None
20	SNX5	ENSG00000089006	ENST00000419004	protein_coding	NOVEL	None	14969	686	227	17930776	17949154	-1	None	None
20	SNX5	ENSG00000089006	ENST00000494401	processed_transcript	KNOWN	None	14969	None	None	17930966	17937590	-1	None	None
20	SNX5	ENSG00000089006	ENST00000474883	processed_transcript	KNOWN	None	14969	None	None	17932170	17949399	-1	None	None
20	SNX5	ENSG00000089006	ENST00000475716	processed_transcript	KNOWN	None	14969	None	None	17934640	17942835	-1	None	None
20	SNX5	ENSG00000089006	ENST00000469704	processed_transcript	KNOWN	None	14969	None	None	17934774	17949403	-1	None	None
20	SNX5	ENSG00000089006	ENST00000606557	protein_coding	PUTATIVE	None	14969	381	126	17948331	17949417	-1	None	None
20	SNX5	ENSG00000089006	ENST00000606602	protein_coding	PUTATIVE	None	14969	168	55	17948331	17949428	-1	None	None
20	SNX5	ENSG00000089006	ENST00000481323	protein_coding	PUTATIVE	None	14969	96	31	17948562	17949454	-1	None	None
20	SNX5	ENSG00000089006	ENST00000486039	protein_coding	PUTATIVE	None	14969	96	31	17948751	17949437	-1	None	None
8	FAM135B	ENSG00000147724	ENST00000395297	protein_coding	KNOWN	CCDS6375	28029	4221	1406	139142266	139509065	-1	None	C8ORFK32
8	FAM135B	ENSG00000147724	ENST00000482951	nonsense_mediated_decay	KNOWN	None	28029	132	43	139144525	139489664	-1	None	C8ORFK32
8	FAM135B	ENSG00000147724	ENST00000276737	nonsense_mediated_decay	KNOWN	None	28029	3426	1141	139144836	139509065	-1	None	C8ORFK32
8	FAM135B	ENSG00000147724	ENST00000467365	nonsense_mediated_decay	KNOWN	None	28029	1356	451	139155103	139164647	-1	None	C8ORFK32
8	FAM135B	ENSG00000147724	ENST00000395295	retained_intron	KNOWN	None	28029	None	None	139155265	139161078	-1	None	C8ORFK32
8	FAM135B	ENSG00000147724	ENST00000160713	protein_coding	KNOWN	None	28029	459	152	139263167	139437758	-1	None	C8ORFK32
8	FAM135B	ENSG00000147724	ENST00000517849	processed_transcript	KNOWN	None	28029	None	None	139278062	139489683	-1	None	C8ORFK32
8	FAM135B	ENSG00000147724	ENST00000520380	protein_coding	KNOWN	None	28029	206	67	139321227	139471808	-1	None	C8ORFK32
8	FAM135B	ENSG00000147724	ENST00000520954	processed_transcript	PUTATIVE	None	28029	None	None	139449099	139489647	-1	None	C8ORFK32
8	FAM135B	ENSG00000147724	ENST00000520283	processed_transcript	KNOWN	None	28029	None	None	139449101	139489699	-1	None	C8ORFK32
8	FAM135B	ENSG00000147724	ENST00000523049	processed_transcript	PUTATIVE	None	28029	None	None	139462740	139489671	-1	None	C8ORFK32
HSCHR6_MHC_QBL	ZFP57	ENSG00000206510	ENST00000383628	protein_coding	KNOWN	None	18791	1551	516	29640183	29648802	-1	C6orf40	ZNF698, bA145L22, bA145L22.2
HSCHR6_MHC_QBL	ZFP57	ENSG00000206510	ENST00000548769	protein_coding	KNOWN	None	18791	1611	536	29640092	29644856	-1	C6orf40	ZNF698, bA145L22, bA145L22.2
HSCHR6_MHC_QBL	ZFP57	ENSG00000206510	ENST00000552987	protein_coding	KNOWN	None	18791	1551	516	29640092	29644705	-1	C6orf40	ZNF698, bA145L22, bA145L22.2
9	LRSAM1	ENSG00000148356	ENST00000373324	protein_coding	KNOWN	CCDS55347	25135	2091	696	130213784	130265778	1	None	FLJ31641
9	LRSAM1	ENSG00000148356	ENST00000323301	protein_coding	KNOWN	CCDS6873	25135	2172	723	130213792	130265778	1	None	FLJ31641
9	LRSAM1	ENSG00000148356	ENST00000486587	processed_transcript	KNOWN	None	25135	None	None	130213812	130216291	1	None	FLJ31641
9	LRSAM1	ENSG00000148356	ENST00000485704	processed_transcript	KNOWN	None	25135	None	None	130214210	130219692	1	None	FLJ31641
9	LRSAM1	ENSG00000148356	ENST00000373322	protein_coding	KNOWN	CCDS6873	25135	2172	723	130214534	130265778	1	None	FLJ31641
9	LRSAM1	ENSG00000148356	ENST00000498513	processed_transcript	KNOWN	None	25135	None	None	130236208	130249839	1	None	FLJ31641
9	LRSAM1	ENSG00000148356	ENST00000483302	processed_transcript	KNOWN	None	25135	None	None	130241665	130265778	1	None	FLJ31641
9	LRSAM1	ENSG00000148356	ENST00000472068	processed_transcript	KNOWN	None	25135	None	None	130242228	130263333	1	None	FLJ31641
9	LRSAM1	ENSG00000148356	ENST00000476755	processed_transcript	KNOWN	None	25135	None	None	130257653	130265776	1	None	FLJ31641
9	LRSAM1	ENSG00000148356	ENST00000300417	protein_coding	KNOWN	CCDS6873	25135	2172	723	130213765	130265780	1	None	FLJ31641
7	FAM221A	ENSG00000188732	ENST00000409192	protein_coding	KNOWN	CCDS47561	27977	789	262	23719749	23741793	1	C7orf46	FLJ45875, MGC72075, DKFZp686F0810
7	FAM221A	ENSG00000188732	ENST00000344962	protein_coding	KNOWN	CCDS5385	27977	897	298	23719749	23742269	1	C7orf46	FLJ45875, MGC72075, DKFZp686F0810
7	FAM221A	ENSG00000188732	ENST00000429719	nonsense_mediated_decay	KNOWN	None	27977	345	114	23719786	23742262	1	C7orf46	FLJ45875, MGC72075, DKFZp686F0810
7	FAM221A	ENSG00000188732	ENST00000462546	retained_intron	KNOWN	None	27977	None	None	23719798	23742269	1	C7orf46	FLJ45875, MGC72075, DKFZp686F0810
7	FAM221A	ENSG00000188732	ENST00000446234	nonsense_mediated_decay	KNOWN	None	27977	297	98	23719803	23731018	1	C7orf46	FLJ45875, MGC72075, DKFZp686F0810
7	FAM221A	ENSG00000188732	ENST00000409653	protein_coding	NOVEL	None	27977	723	240	23719803	23741786	1	C7orf46	FLJ45875, MGC72075, DKFZp686F0810
7	FAM221A	ENSG00000188732	ENST00000409994	protein_coding	KNOWN	CCDS47562	27977	615	204	23719803	23742269	1	C7orf46	FLJ45875, MGC72075, DKFZp686F0810
7	FAM221A	ENSG00000188732	ENST00000483090	processed_transcript	PUTATIVE	None	27977	None	None	23740412	23742868	1	C7orf46	FLJ45875, MGC72075, DKFZp686F0810
9	DNLZ	ENSG00000213221	ENST00000371739	protein_coding	NOVEL	None	33879	354	117	139253932	139258171	-1	C9orf151	RP11-413M3.2, ZIM17, bA413M3.2, TIMM15, HEP
9	DNLZ	ENSG00000213221	ENST00000371738	protein_coding	KNOWN	CCDS35179	33879	537	178	139256352	139258241	-1	C9orf151	RP11-413M3.2, ZIM17, bA413M3.2, TIMM15, HEP
1	AGO4	ENSG00000134698	ENST00000373210	protein_coding	KNOWN	CCDS397	18424	2586	861	36273773	36323491	1	EIF2C4	hAGO4, KIAA1567, FLJ20033
1	AGO4	ENSG00000134698	ENST00000488778	processed_transcript	KNOWN	None	18424	None	None	36307274	36316796	1	EIF2C4	hAGO4, KIAA1567, FLJ20033
1	AGO4	ENSG00000134698	ENST00000496257	processed_transcript	KNOWN	None	18424	None	None	36319089	36320359	1	EIF2C4	hAGO4, KIAA1567, FLJ20033
2	PAPOLG	ENSG00000115421	ENST00000238714	protein_coding	KNOWN	CCDS1863	14982	2211	736	60983365	61026098	1	None	FLJ12972
2	PAPOLG	ENSG00000115421	ENST00000496283	retained_intron	KNOWN	None	14982	None	None	60983388	61025603	1	None	FLJ12972
2	PAPOLG	ENSG00000115421	ENST00000414060	nonsense_mediated_decay	KNOWN	None	14982	705	234	60983401	61025601	1	None	FLJ12972
2	PAPOLG	ENSG00000115421	ENST00000453839	nonsense_mediated_decay	KNOWN	None	14982	507	168	60987270	61025601	1	None	FLJ12972
2	PAPOLG	ENSG00000115421	ENST00000483370	processed_transcript	KNOWN	None	14982	None	None	61006689	61010328	1	None	FLJ12972
2	PAPOLG	ENSG00000115421	ENST00000412217	protein_coding	PUTATIVE	None	14982	1149	382	61009110	61029220	1	None	FLJ12972
2	PAPOLG	ENSG00000115421	ENST00000470208	retained_intron	KNOWN	None	14982	None	None	61018616	61021139	1	None	FLJ12972
Y	RBMY2KP	ENSG00000225809	ENST00000418221	unprocessed_pseudogene	KNOWN	None	23888	None	None	8132490	8145229	-1	None	None
19	SYCN	ENSG00000179751	ENST00000318438	protein_coding	KNOWN	CCDS46070	18442	405	134	39693471	39694906	-1	INSSA1	SYL, FLJ27441
7	None	ENSG00000204876	ENST00000377722	protein_coding	PUTATIVE	None	None	897	298	155755326	155759037	1	None	None
7	C7orf13	ENSG00000244291	ENST00000333319	protein_coding	KNOWN	None	17126	651	216	156431057	156433348	-1	None	MY040
HSCHR6_MHC_DBB	TRIM40	ENSG00000227458	ENST00000431397	protein_coding	KNOWN	None	18736	777	258	30094214	30106840	1	None	RNF35
HSCHR6_MHC_DBB	TRIM40	ENSG00000227458	ENST00000475016	processed_transcript	KNOWN	None	18736	None	None	30094230	30095304	1	None	RNF35
HSCHR6_MHC_DBB	TRIM40	ENSG00000227458	ENST00000445004	protein_coding	KNOWN	None	18736	690	229	30095116	30106840	1	None	RNF35
HSCHR6_MHC_DBB	TRIM40	ENSG00000227458	ENST00000548672	protein_coding	KNOWN	None	18736	777	258	30094839	30106840	1	None	RNF35
2	GCA	ENSG00000115271	ENST00000473240	processed_transcript	KNOWN	None	15990	None	None	163175350	163213344	1	None	GCL
2	GCA	ENSG00000115271	ENST00000446271	protein_coding	PUTATIVE	None	15990	440	145	163175394	163213323	1	None	GCL
2	GCA	ENSG00000115271	ENST00000429691	protein_coding	PUTATIVE	None	15990	264	87	163175544	163217608	1	None	GCL
2	GCA	ENSG00000115271	ENST00000437150	protein_coding	KNOWN	CCDS2218	15990	654	217	163200598	163217930	1	None	GCL
2	GCA	ENSG00000115271	ENST00000481161	retained_intron	KNOWN	None	15990	None	None	163200644	163213175	1	None	GCL
2	GCA	ENSG00000115271	ENST00000453113	protein_coding	PUTATIVE	None	15990	397	131	163200645	163213415	1	None	GCL
2	GCA	ENSG00000115271	ENST00000487445	retained_intron	KNOWN	None	15990	None	None	163200669	163217481	1	None	GCL
2	GCA	ENSG00000115271	ENST00000479199	retained_intron	KNOWN	None	15990	None	None	163200692	163213491	1	None	GCL
2	GCA	ENSG00000115271	ENST00000233612	protein_coding	PUTATIVE	None	15990	597	198	163200848	163217632	1	None	GCL
2	GCA	ENSG00000115271	ENST00000414723	protein_coding	PUTATIVE	None	15990	440	145	163212948	163228105	1	None	GCL
10	INPP5F	ENSG00000198825	ENST00000361976	protein_coding	KNOWN	CCDS7616	17054	3399	1132	121485609	121588652	1	None	SAC2, KIAA0966, hSac2
10	INPP5F	ENSG00000198825	ENST00000369081	protein_coding	KNOWN	None	17054	372	123	121541139	121551717	1	None	SAC2, KIAA0966, hSac2
10	INPP5F	ENSG00000198825	ENST00000369080	protein_coding	KNOWN	CCDS58098	17054	1569	522	121578228	121587837	1	None	SAC2, KIAA0966, hSac2
10	INPP5F	ENSG00000198825	ENST00000490818	processed_transcript	KNOWN	None	17054	None	None	121579019	121583409	1	None	SAC2, KIAA0966, hSac2
10	INPP5F	ENSG00000198825	ENST00000369083	protein_coding	KNOWN	None	17054	1128	375	121485609	121558833	1	None	SAC2, KIAA0966, hSac2
HSCHR6_MHC_MANN	LST1	ENSG00000231048	ENST00000455426	protein_coding	KNOWN	None	14189	201	66	31593388	31596173	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MANN	LST1	ENSG00000231048	ENST00000437137	protein_coding	KNOWN	None	14189	294	97	31593443	31596173	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MANN	LST1	ENSG00000231048	ENST00000481217	retained_intron	KNOWN	None	14189	None	None	31593458	31596173	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MANN	LST1	ENSG00000231048	ENST00000413426	protein_coding	KNOWN	None	14189	42	13	31593481	31596173	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MANN	LST1	ENSG00000231048	ENST00000447512	protein_coding	KNOWN	None	14189	87	28	31593481	31596173	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MANN	LST1	ENSG00000231048	ENST00000437436	protein_coding	KNOWN	None	14189	156	51	31593484	31596173	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MANN	LST1	ENSG00000231048	ENST00000467879	retained_intron	KNOWN	None	14189	None	None	31593499	31596173	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MANN	LST1	ENSG00000231048	ENST00000452169	protein_coding	KNOWN	None	14189	201	66	31593963	31596173	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MANN	LST1	ENSG00000231048	ENST00000454186	protein_coding	KNOWN	None	14189	87	28	31594112	31596173	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MANN	LST1	ENSG00000231048	ENST00000439436	protein_coding	KNOWN	None	14189	109	35	31594159	31594994	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MANN	LST1	ENSG00000231048	ENST00000448618	protein_coding	KNOWN	None	14189	87	28	31594273	31596173	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MANN	LST1	ENSG00000231048	ENST00000451371	protein_coding	KNOWN	None	14189	87	28	31594286	31596173	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MANN	LST1	ENSG00000231048	ENST00000430632	protein_coding	KNOWN	None	14189	294	97	31594296	31596173	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MANN	LST1	ENSG00000231048	ENST00000440323	protein_coding	KNOWN	None	14189	201	66	31594330	31596173	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MANN	LST1	ENSG00000231048	ENST00000449236	protein_coding	KNOWN	None	14189	201	66	31594344	31596173	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MANN	LST1	ENSG00000231048	ENST00000419469	protein_coding	KNOWN	None	14189	138	45	31594350	31595105	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MANN	LST1	ENSG00000231048	ENST00000443655	protein_coding	KNOWN	None	14189	180	59	31594361	31596173	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MANN	LST1	ENSG00000231048	ENST00000425260	protein_coding	KNOWN	None	14189	249	82	31594381	31596173	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MANN	LST1	ENSG00000231048	ENST00000451922	protein_coding	KNOWN	None	14189	222	73	31594464	31596173	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MANN	LST1	ENSG00000231048	ENST00000425760	protein_coding	KNOWN	None	14189	108	35	31594464	31596173	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MANN	LST1	ENSG00000231048	ENST00000412041	protein_coding	KNOWN	None	14189	315	104	31594464	31596173	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MANN	LST1	ENSG00000231048	ENST00000465055	retained_intron	KNOWN	None	14189	None	None	31594519	31596173	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MANN	LST1	ENSG00000231048	ENST00000420142	protein_coding	KNOWN	None	14189	131	42	31594568	31596173	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MANN	LST1	ENSG00000231048	ENST00000549980	protein_coding	KNOWN	None	14189	108	35	31593443	31595849	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_MANN	LST1	ENSG00000231048	ENST00000550128	protein_coding	KNOWN	None	14189	276	91	31594464	31596172	1	None	LST-1, B144, D6S49E
17	MYO15A	ENSG00000091536	ENST00000205890	protein_coding	KNOWN	CCDS42271	7594	10593	3530	18012020	18083116	1	DFNB3, MYO15	None
17	MYO15A	ENSG00000091536	ENST00000583079	retained_intron	KNOWN	None	7594	None	None	18022482	18028880	1	DFNB3, MYO15	None
17	MYO15A	ENSG00000091536	ENST00000412324	processed_transcript	KNOWN	None	7594	None	None	18042588	18045451	1	DFNB3, MYO15	None
17	MYO15A	ENSG00000091536	ENST00000578999	retained_intron	KNOWN	None	7594	None	None	18049328	18053289	1	DFNB3, MYO15	None
17	MYO15A	ENSG00000091536	ENST00000418233	protein_coding	NOVEL	None	7594	2394	797	18056709	18082536	1	DFNB3, MYO15	None
17	MYO15A	ENSG00000091536	ENST00000536811	retained_intron	KNOWN	None	7594	None	None	18057368	18060852	1	DFNB3, MYO15	None
17	MYO15A	ENSG00000091536	ENST00000445289	retained_intron	KNOWN	None	7594	None	None	18057368	18075830	1	DFNB3, MYO15	None
17	MYO15A	ENSG00000091536	ENST00000585180	protein_coding	PUTATIVE	None	7594	312	103	18057392	18059583	1	DFNB3, MYO15	None
17	MYO15A	ENSG00000091536	ENST00000556535	protein_coding	PUTATIVE	None	7594	460	152	18061622	18065979	1	DFNB3, MYO15	None
17	MYO15A	ENSG00000091536	ENST00000557190	processed_transcript	KNOWN	None	7594	None	None	18061622	18066598	1	DFNB3, MYO15	None
17	MYO15A	ENSG00000091536	ENST00000557655	nonsense_mediated_decay	KNOWN	None	7594	108	35	18061626	18066565	1	DFNB3, MYO15	None
17	MYO15A	ENSG00000091536	ENST00000578472	protein_coding	PUTATIVE	None	7594	369	122	18061652	18064751	1	DFNB3, MYO15	None
17	MYO15A	ENSG00000091536	ENST00000433411	retained_intron	KNOWN	None	7594	None	None	18061660	18083116	1	DFNB3, MYO15	None
17	MYO15A	ENSG00000091536	ENST00000579848	protein_coding	PUTATIVE	None	7594	774	257	18062976	18082258	1	DFNB3, MYO15	None
17	MYO15A	ENSG00000091536	ENST00000473013	retained_intron	KNOWN	None	7594	None	None	18064061	18068424	1	DFNB3, MYO15	None
17	MYO15A	ENSG00000091536	ENST00000578575	nonsense_mediated_decay	KNOWN	None	7594	361	119	18064682	18082184	1	DFNB3, MYO15	None
17	MYO15A	ENSG00000091536	ENST00000451725	protein_coding	KNOWN	None	7594	735	244	18062976	18082258	1	DFNB3, MYO15	None
14	SPTSSA	ENSG00000165389	ENST00000298130	protein_coding	KNOWN	CCDS9647	20361	216	71	34901995	34931562	-1	C14orf147	ssSPTa
5	RGS14	ENSG00000169220	ENST00000408923	protein_coding	KNOWN	CCDS43405	9996	1701	566	176784838	176799602	1	None	None
5	RGS14	ENSG00000169220	ENST00000504631	retained_intron	KNOWN	None	9996	None	None	176793429	176794558	1	None	None
5	RGS14	ENSG00000169220	ENST00000514713	retained_intron	KNOWN	None	9996	None	None	176793944	176796076	1	None	None
5	RGS14	ENSG00000169220	ENST00000511890	protein_coding	KNOWN	None	9996	1313	436	176793944	176799299	1	None	None
5	RGS14	ENSG00000169220	ENST00000503110	processed_transcript	KNOWN	None	9996	None	None	176794218	176795889	1	None	None
5	RGS14	ENSG00000169220	ENST00000512000	retained_intron	KNOWN	None	9996	None	None	176794303	176795017	1	None	None
5	RGS14	ENSG00000169220	ENST00000512490	retained_intron	KNOWN	None	9996	None	None	176794304	176795805	1	None	None
5	RGS14	ENSG00000169220	ENST00000425155	retained_intron	KNOWN	None	9996	None	None	176794315	176799597	1	None	None
5	RGS14	ENSG00000169220	ENST00000502731	retained_intron	KNOWN	None	9996	None	None	176797554	176798579	1	None	None
5	RGS14	ENSG00000169220	ENST00000514102	retained_intron	KNOWN	None	9996	None	None	176797822	176799293	1	None	None
5	RGS14	ENSG00000169220	ENST00000509289	retained_intron	KNOWN	None	9996	None	None	176798067	176798583	1	None	None
5	RGS14	ENSG00000169220	ENST00000503044	retained_intron	KNOWN	None	9996	None	None	176798108	176799144	1	None	None
5	RGS14	ENSG00000169220	ENST00000506944	processed_transcript	KNOWN	None	9996	None	None	176798114	176799167	1	None	None
9	CARD9	ENSG00000187796	ENST00000481053	retained_intron	KNOWN	None	16391	None	None	139256355	139268096	-1	None	None
9	CARD9	ENSG00000187796	ENST00000460290	processed_transcript	KNOWN	None	16391	None	None	139258408	139262082	-1	None	None
9	CARD9	ENSG00000187796	ENST00000371734	protein_coding	KNOWN	CCDS48057	16391	1479	492	139258408	139268133	-1	None	None
9	CARD9	ENSG00000187796	ENST00000371732	protein_coding	KNOWN	CCDS6997	16391	1611	536	139258408	139268133	-1	None	None
9	CARD9	ENSG00000187796	ENST00000485975	retained_intron	KNOWN	None	16391	None	None	139258409	139265345	-1	None	None
9	CARD9	ENSG00000187796	ENST00000489932	nonsense_mediated_decay	KNOWN	None	16391	1101	366	139258745	139268111	-1	None	None
9	CARD9	ENSG00000187796	ENST00000556340	retained_intron	KNOWN	None	16391	None	None	139265046	139268098	-1	None	None
9	CARD9	ENSG00000187796	ENST00000315908	protein_coding	KNOWN	None	16391	1101	366	139262405	139268133	-1	None	None
10	None	ENSG00000221774	ENST00000408847	miRNA	NOVEL	None	None	None	None	71123311	71123397	-1	None	None
10	ATP5G1P7	ENSG00000232734	ENST00000444398	processed_pseudogene	KNOWN	None	39510	None	None	71192728	71193127	-1	None	None
13	SUCLA2	ENSG00000136143	ENST00000493152	processed_transcript	KNOWN	None	11448	None	None	48510622	48523696	-1	None	None
13	SUCLA2	ENSG00000136143	ENST00000484941	processed_transcript	KNOWN	None	11448	None	None	48510634	48513498	-1	None	None
13	SUCLA2	ENSG00000136143	ENST00000481279	processed_transcript	KNOWN	None	11448	None	None	48510753	48520074	-1	None	None
13	SUCLA2	ENSG00000136143	ENST00000378654	protein_coding	KNOWN	CCDS9406	11448	1392	463	48516791	48575462	-1	None	None
13	SUCLA2	ENSG00000136143	ENST00000467222	processed_transcript	KNOWN	None	11448	None	None	48517496	48528689	-1	None	None
13	SUCLA2	ENSG00000136143	ENST00000434484	protein_coding	NOVEL	None	11448	894	297	48528278	48575376	-1	None	None
13	SUCLA2	ENSG00000136143	ENST00000433022	protein_coding	NOVEL	None	11448	463	153	48528588	48575409	-1	None	None
13	SUCLA2	ENSG00000136143	ENST00000497202	processed_transcript	KNOWN	None	11448	None	None	48542763	48575402	-1	None	None
13	SUCLA2	ENSG00000136143	ENST00000470760	processed_transcript	KNOWN	None	11448	None	None	48562405	48575409	-1	None	None
13	SUCLA2	ENSG00000136143	ENST00000534875	protein_coding	KNOWN	None	11448	1218	405	48517423	48575110	-1	None	None
13	SUCLA2	ENSG00000136143	ENST00000543413	protein_coding	KNOWN	None	11448	1218	405	48517469	48612125	-1	None	None
13	SUCLA2	ENSG00000136143	ENST00000544100	protein_coding	KNOWN	None	11448	990	329	48517124	48575424	-1	None	None
10	AKR1C4	ENSG00000198610	ENST00000469875	retained_intron	KNOWN	None	387	None	None	5237425	5238885	1	CHDR	DD4, HAKRA, C11, 3-alpha-HSD, CDR, MGC22581
10	AKR1C4	ENSG00000198610	ENST00000380448	protein_coding	KNOWN	CCDS7064	387	972	323	5237426	5260912	1	CHDR	DD4, HAKRA, C11, 3-alpha-HSD, CDR, MGC22581
10	AKR1C4	ENSG00000198610	ENST00000263126	protein_coding	KNOWN	CCDS7064	387	972	323	5238798	5260912	1	CHDR	DD4, HAKRA, C11, 3-alpha-HSD, CDR, MGC22581
5	SPINK14	ENSG00000196800	ENST00000562793	protein_coding	PUTATIVE	None	33825	144	47	147549296	147554961	1	None	SPINK5L2
5	SPINK14	ENSG00000196800	ENST00000356972	protein_coding	KNOWN	CCDS4288	33825	294	97	147549296	147554961	1	None	SPINK5L2
1	AGO1	ENSG00000092847	ENST00000373206	protein_coding	KNOWN	None	3262	2349	782	36335409	36386559	1	EIF2C1	hAGO1
1	AGO1	ENSG00000092847	ENST00000373204	protein_coding	KNOWN	CCDS398	3262	2574	857	36348810	36395211	1	EIF2C1	hAGO1
13	ABCC4	ENSG00000125257	ENST00000376887	protein_coding	KNOWN	CCDS9474	55	3978	1325	95672085	95953683	-1	None	MRP4, EST170205, MOAT-B, MOATB
13	ABCC4	ENSG00000125257	ENST00000484109	processed_transcript	KNOWN	None	55	None	None	95695574	95696583	-1	None	MRP4, EST170205, MOAT-B, MOATB
13	ABCC4	ENSG00000125257	ENST00000471041	processed_transcript	KNOWN	None	55	None	None	95695934	95708073	-1	None	MRP4, EST170205, MOAT-B, MOATB
13	ABCC4	ENSG00000125257	ENST00000474158	processed_transcript	KNOWN	None	55	None	None	95723984	95726030	-1	None	MRP4, EST170205, MOAT-B, MOATB
13	ABCC4	ENSG00000125257	ENST00000467685	processed_transcript	KNOWN	None	55	None	None	95726470	95728273	-1	None	MRP4, EST170205, MOAT-B, MOATB
13	ABCC4	ENSG00000125257	ENST00000412704	protein_coding	KNOWN	None	55	3837	1278	95672083	95953687	-1	None	MRP4, EST170205, MOAT-B, MOATB
13	ABCC4	ENSG00000125257	ENST00000536256	protein_coding	KNOWN	None	55	2355	784	95748023	95953687	-1	None	MRP4, EST170205, MOAT-B, MOATB
13	ABCC4	ENSG00000125257	ENST00000431522	protein_coding	KNOWN	CCDS45061	55	2580	859	95748025	95953687	-1	None	MRP4, EST170205, MOAT-B, MOATB
13	ABCC4	ENSG00000125257	ENST00000538287	protein_coding	KNOWN	None	55	75	24	95818477	95953589	-1	None	MRP4, EST170205, MOAT-B, MOATB
10	TMEM256P1	ENSG00000233197	ENST00000430550	processed_pseudogene	KNOWN	None	45087	None	None	71283067	71283406	-1	None	None
15	DET1	ENSG00000140543	ENST00000557842	nonsense_mediated_decay	KNOWN	None	25477	204	67	89054790	89089876	-1	None	FLJ10103
15	DET1	ENSG00000140543	ENST00000564406	protein_coding	NOVEL	CCDS45343	25477	1686	561	89055714	89089884	-1	None	FLJ10103
15	DET1	ENSG00000140543	ENST00000557837	nonsense_mediated_decay	KNOWN	None	25477	204	67	89055714	89089891	-1	None	FLJ10103
15	DET1	ENSG00000140543	ENST00000268148	protein_coding	KNOWN	CCDS45344	25477	1653	550	89055714	89089906	-1	None	FLJ10103
15	DET1	ENSG00000140543	ENST00000558413	protein_coding	PUTATIVE	None	25477	285	94	89074004	89089865	-1	None	FLJ10103
15	DET1	ENSG00000140543	ENST00000559656	processed_transcript	PUTATIVE	None	25477	None	None	89075099	89089568	-1	None	FLJ10103
15	DET1	ENSG00000140543	ENST00000444300	protein_coding	KNOWN	CCDS45343	25477	1686	561	89055714	89079565	-1	None	FLJ10103
11	CTTN	ENSG00000085733	ENST00000346329	protein_coding	KNOWN	CCDS8197	3338	1542	513	70244510	70282690	1	EMS1	None
11	CTTN	ENSG00000085733	ENST00000301843	protein_coding	KNOWN	CCDS41680	3338	1653	550	70244612	70282681	1	EMS1	None
11	CTTN	ENSG00000085733	ENST00000482755	retained_intron	KNOWN	None	3338	None	None	70244643	70254448	1	EMS1	None
11	CTTN	ENSG00000085733	ENST00000527622	processed_transcript	KNOWN	None	3338	None	None	70244643	70256536	1	EMS1	None
11	CTTN	ENSG00000085733	ENST00000376561	protein_coding	PUTATIVE	CCDS53676	3338	1905	634	70244647	70282685	1	EMS1	None
11	CTTN	ENSG00000085733	ENST00000415461	protein_coding	PUTATIVE	None	3338	671	222	70253459	70266359	1	EMS1	None
11	CTTN	ENSG00000085733	ENST00000525276	retained_intron	KNOWN	None	3338	None	None	70260717	70262310	1	EMS1	None
11	CTTN	ENSG00000085733	ENST00000532334	retained_intron	KNOWN	None	3338	None	None	70262846	70265948	1	EMS1	None
11	CTTN	ENSG00000085733	ENST00000527962	protein_coding	PUTATIVE	None	3338	154	50	70266231	70275231	1	EMS1	None
11	CTTN	ENSG00000085733	ENST00000483662	retained_intron	KNOWN	None	3338	None	None	70266329	70268023	1	EMS1	None
11	CTTN	ENSG00000085733	ENST00000498223	protein_coding	PUTATIVE	None	3338	228	75	70266492	70275305	1	EMS1	None
11	CTTN	ENSG00000085733	ENST00000525852	retained_intron	KNOWN	None	3338	None	None	70267702	70271507	1	EMS1	None
11	CTTN	ENSG00000085733	ENST00000393747	nonsense_mediated_decay	KNOWN	None	3338	219	72	70268609	70282087	1	EMS1	None
11	CTTN	ENSG00000085733	ENST00000529736	protein_coding	PUTATIVE	None	3338	798	265	70275159	70282668	1	EMS1	None
11	CTTN	ENSG00000085733	ENST00000533931	nonsense_mediated_decay	KNOWN	None	3338	387	128	70275228	70281258	1	EMS1	None
11	CTTN	ENSG00000085733	ENST00000538675	protein_coding	KNOWN	None	3338	945	314	70266600	70282087	1	EMS1	None
1	TSHB	ENSG00000134200	ENST00000369517	protein_coding	KNOWN	CCDS880	12372	417	138	115575984	115576905	1	None	None
1	TSHB	ENSG00000134200	ENST00000256592	protein_coding	KNOWN	CCDS880	12372	417	138	115572415	115576941	1	None	None
X	RPL36A	ENSG00000241343	ENST00000427805	protein_coding	KNOWN	CCDS14483	10359	429	142	100645812	100651105	1	RPL44	L36A
X	RPL36A	ENSG00000241343	ENST00000392994	protein_coding	PUTATIVE	None	10359	394	130	100645977	100650781	1	RPL44	L36A
X	RPL36A	ENSG00000241343	ENST00000491851	retained_intron	KNOWN	None	10359	None	None	100645999	100646957	1	RPL44	L36A
X	RPL36A	ENSG00000241343	ENST00000465340	retained_intron	KNOWN	None	10359	None	None	100645999	100648840	1	RPL44	L36A
X	RPL36A	ENSG00000241343	ENST00000372849	nonsense_mediated_decay	KNOWN	None	10359	241	79	100646004	100650774	1	RPL44	L36A
X	RPL36A	ENSG00000241343	ENST00000465744	retained_intron	KNOWN	None	10359	None	None	100646102	100650783	1	RPL44	L36A
X	RPL36A	ENSG00000241343	ENST00000471855	protein_coding	PUTATIVE	None	10359	78	25	100646190	100650783	1	RPL44	L36A
X	RPL36A	ENSG00000241343	ENST00000489407	retained_intron	KNOWN	None	10359	None	None	100650141	100650783	1	RPL44	L36A
X	RPL36A	ENSG00000241343	ENST00000553110	protein_coding	KNOWN	None	10359	321	106	100645948	100650782	1	RPL44	L36A
19	ZNF492	ENSG00000229676	ENST00000456783	protein_coding	KNOWN	CCDS46032	23707	1596	531	22817126	22850472	1	ZNF115	KIAA1473
2	KCNH7	ENSG00000184611	ENST00000332142	protein_coding	KNOWN	CCDS2219	18863	3591	1196	163227917	163695128	-1	None	Kv11.3, HERG3, erg3
2	KCNH7	ENSG00000184611	ENST00000328032	protein_coding	KNOWN	CCDS2220	18863	2199	732	163279757	163695240	-1	None	Kv11.3, HERG3, erg3
2	KCNH7	ENSG00000184611	ENST00000477019	processed_transcript	KNOWN	None	18863	None	None	163358495	163384870	-1	None	Kv11.3, HERG3, erg3
10	None	ENSG00000236154	ENST00000428753	antisense	KNOWN	None	None	None	None	71335563	71336910	1	None	None
7	NT5C3A	ENSG00000122643	ENST00000456458	nonsense_mediated_decay	KNOWN	None	17820	249	82	33053742	33102408	-1	NT5C3	UMPH1, PSN1, PN-I, UMPH, P5'N-1, cN-III, p36, POMP, hUMP1
7	NT5C3A	ENSG00000122643	ENST00000396152	protein_coding	KNOWN	CCDS34617	17820	894	297	33053751	33080767	-1	NT5C3	UMPH1, PSN1, PN-I, UMPH, P5'N-1, cN-III, p36, POMP, hUMP1
7	NT5C3A	ENSG00000122643	ENST00000242210	protein_coding	KNOWN	CCDS34616	17820	1011	336	33053760	33102409	-1	NT5C3	UMPH1, PSN1, PN-I, UMPH, P5'N-1, cN-III, p36, POMP, hUMP1
7	NT5C3A	ENSG00000122643	ENST00000473083	retained_intron	KNOWN	None	17820	None	None	33054332	33055538	-1	NT5C3	UMPH1, PSN1, PN-I, UMPH, P5'N-1, cN-III, p36, POMP, hUMP1
7	NT5C3A	ENSG00000122643	ENST00000409467	protein_coding	KNOWN	CCDS55101	17820	858	285	33054342	33080521	-1	NT5C3	UMPH1, PSN1, PN-I, UMPH, P5'N-1, cN-III, p36, POMP, hUMP1
7	NT5C3A	ENSG00000122643	ENST00000409787	protein_coding	PUTATIVE	None	17820	618	205	33056816	33075595	-1	NT5C3	UMPH1, PSN1, PN-I, UMPH, P5'N-1, cN-III, p36, POMP, hUMP1
7	NT5C3A	ENSG00000122643	ENST00000461851	retained_intron	KNOWN	None	17820	None	None	33061438	33066645	-1	NT5C3	UMPH1, PSN1, PN-I, UMPH, P5'N-1, cN-III, p36, POMP, hUMP1
7	NT5C3A	ENSG00000122643	ENST00000464840	retained_intron	KNOWN	None	17820	None	None	33063331	33080519	-1	NT5C3	UMPH1, PSN1, PN-I, UMPH, P5'N-1, cN-III, p36, POMP, hUMP1
7	NT5C3A	ENSG00000122643	ENST00000449201	protein_coding	KNOWN	None	17820	127	41	33063693	33080521	-1	NT5C3	UMPH1, PSN1, PN-I, UMPH, P5'N-1, cN-III, p36, POMP, hUMP1
7	NT5C3A	ENSG00000122643	ENST00000497542	retained_intron	KNOWN	None	17820	None	None	33068843	33080522	-1	NT5C3	UMPH1, PSN1, PN-I, UMPH, P5'N-1, cN-III, p36, POMP, hUMP1
7	NT5C3A	ENSG00000122643	ENST00000405342	protein_coding	KNOWN	CCDS34617	17820	894	297	33054129	33075581	-1	NT5C3	UMPH1, PSN1, PN-I, UMPH, P5'N-1, cN-III, p36, POMP, hUMP1
7	NT5C3A	ENSG00000122643	ENST00000381626	protein_coding	KNOWN	CCDS55101	17820	858	285	33053744	33080521	-1	NT5C3	UMPH1, PSN1, PN-I, UMPH, P5'N-1, cN-III, p36, POMP, hUMP1
19	IFNL3	ENSG00000197110	ENST00000413851	protein_coding	KNOWN	CCDS12530	18365	591	196	39734246	39735646	-1	IL28B	IL-28B, IL28C
11	SWAP70	ENSG00000133789	ENST00000447399	protein_coding	NOVEL	None	17070	1584	527	9685624	9773368	1	None	KIAA0640, SWAP-70
11	SWAP70	ENSG00000133789	ENST00000318950	protein_coding	KNOWN	CCDS31426	17070	1758	585	9685624	9774538	1	None	KIAA0640, SWAP-70
11	SWAP70	ENSG00000133789	ENST00000526358	nonsense_mediated_decay	KNOWN	None	17070	450	149	9685628	9749618	1	None	KIAA0640, SWAP-70
11	SWAP70	ENSG00000133789	ENST00000531814	retained_intron	KNOWN	None	17070	None	None	9685649	9746602	1	None	KIAA0640, SWAP-70
11	SWAP70	ENSG00000133789	ENST00000524817	retained_intron	KNOWN	None	17070	None	None	9685682	9763500	1	None	KIAA0640, SWAP-70
11	SWAP70	ENSG00000133789	ENST00000534662	protein_coding	PUTATIVE	None	17070	680	225	9741613	9759806	1	None	KIAA0640, SWAP-70
11	SWAP70	ENSG00000133789	ENST00000534562	nonsense_mediated_decay	KNOWN	None	17070	71	22	9748442	9772038	1	None	KIAA0640, SWAP-70
HSCHR6_MHC_QBL	HLA-F	ENSG00000206509	ENST00000383626	protein_coding	KNOWN	None	4963	1041	346	29688014	29691765	1	None	None
HSCHR6_MHC_QBL	HLA-F	ENSG00000206509	ENST00000418017	protein_coding	KNOWN	None	4963	393	130	29688518	29689470	1	None	None
HSCHR6_MHC_QBL	HLA-F	ENSG00000206509	ENST00000482008	processed_transcript	KNOWN	None	4963	None	None	29688631	29689654	1	None	None
HSCHR6_MHC_QBL	HLA-F	ENSG00000206509	ENST00000383627	protein_coding	KNOWN	None	4963	1329	442	29688647	29692537	1	None	None
HSCHR6_MHC_QBL	HLA-F	ENSG00000206509	ENST00000485463	processed_transcript	KNOWN	None	4963	None	None	29688666	29691765	1	None	None
HSCHR6_MHC_QBL	HLA-F	ENSG00000206509	ENST00000471983	processed_transcript	KNOWN	None	4963	None	None	29688673	29690326	1	None	None
HSCHR6_MHC_QBL	HLA-F	ENSG00000206509	ENST00000359076	protein_coding	KNOWN	None	4963	765	254	29688703	29691765	1	None	None
HSCHR6_MHC_QBL	HLA-F	ENSG00000206509	ENST00000487856	processed_transcript	KNOWN	None	4963	None	None	29688743	29689591	1	None	None
HSCHR6_MHC_QBL	HLA-F	ENSG00000206509	ENST00000469777	processed_transcript	KNOWN	None	4963	None	None	29689179	29690538	1	None	None
HSCHR6_MHC_QBL	HLA-F	ENSG00000206509	ENST00000433515	protein_coding	KNOWN	None	4963	677	224	29689278	29691765	1	None	None
HSCHR6_MHC_QBL	HLA-F	ENSG00000206509	ENST00000483860	processed_transcript	KNOWN	None	4963	None	None	29689396	29691765	1	None	None
HSCHR6_MHC_QBL	HLA-F	ENSG00000206509	ENST00000479154	processed_transcript	KNOWN	None	4963	None	None	29690293	29703770	1	None	None
HSCHR6_MHC_QBL	HLA-F	ENSG00000206509	ENST00000489167	processed_transcript	KNOWN	None	4963	None	None	29690693	29694592	1	None	None
HSCHR6_MHC_QBL	HLA-F	ENSG00000206509	ENST00000425139	protein_coding	KNOWN	None	4963	374	123	29690773	29692537	1	None	None
HSCHR6_MHC_QBL	HLA-F	ENSG00000206509	ENST00000547132	protein_coding	KNOWN	None	4963	1260	419	29688579	29692536	1	None	None
HSCHR6_MHC_QBL	HLA-F	ENSG00000206509	ENST00000550932	protein_coding	KNOWN	None	4963	1041	346	29688579	29691762	1	None	None
16	NHLRC4	ENSG00000257108	ENST00000424439	protein_coding	KNOWN	CCDS45366	26700	372	123	616996	619487	1	None	None
16	NHLRC4	ENSG00000257108	ENST00000540585	protein_coding	KNOWN	CCDS45366	26700	372	123	617005	619495	1	None	None
7	RNF32	ENSG00000105982	ENST00000404282	protein_coding	KNOWN	None	17118	663	220	156432975	156451243	1	None	FKSG33, HSD15, LMBR2
7	RNF32	ENSG00000105982	ENST00000439609	protein_coding	KNOWN	None	17118	56	17	156433368	156437233	1	None	FKSG33, HSD15, LMBR2
7	RNF32	ENSG00000105982	ENST00000469382	retained_intron	KNOWN	None	17118	None	None	156433443	156447615	1	None	FKSG33, HSD15, LMBR2
7	RNF32	ENSG00000105982	ENST00000317955	protein_coding	KNOWN	CCDS5944	17118	1089	362	156433465	156469824	1	None	FKSG33, HSD15, LMBR2
7	RNF32	ENSG00000105982	ENST00000405335	protein_coding	KNOWN	CCDS5944	17118	1089	362	156433478	156469789	1	None	FKSG33, HSD15, LMBR2
7	RNF32	ENSG00000105982	ENST00000311822	protein_coding	KNOWN	None	17118	933	310	156433573	156469824	1	None	FKSG33, HSD15, LMBR2
7	RNF32	ENSG00000105982	ENST00000392741	protein_coding	KNOWN	None	17118	708	235	156436484	156453044	1	None	FKSG33, HSD15, LMBR2
7	RNF32	ENSG00000105982	ENST00000392747	nonsense_mediated_decay	KNOWN	None	17118	288	95	156436495	156469824	1	None	FKSG33, HSD15, LMBR2
7	RNF32	ENSG00000105982	ENST00000480011	processed_transcript	KNOWN	None	17118	None	None	156437290	156451266	1	None	FKSG33, HSD15, LMBR2
7	RNF32	ENSG00000105982	ENST00000472537	processed_transcript	KNOWN	None	17118	None	None	156447131	156451686	1	None	FKSG33, HSD15, LMBR2
7	RNF32	ENSG00000105982	ENST00000493999	processed_transcript	KNOWN	None	17118	None	None	156447353	156451685	1	None	FKSG33, HSD15, LMBR2
7	RNF32	ENSG00000105982	ENST00000463028	processed_transcript	KNOWN	None	17118	None	None	156450237	156451554	1	None	FKSG33, HSD15, LMBR2
7	RNF32	ENSG00000105982	ENST00000432459	protein_coding	KNOWN	CCDS5944	17118	1089	362	156433441	156469818	1	None	FKSG33, HSD15, LMBR2
7	RNF32	ENSG00000105982	ENST00000392743	protein_coding	KNOWN	CCDS5944	17118	1089	362	156435671	156469818	1	None	FKSG33, HSD15, LMBR2
7	RNF32	ENSG00000105982	ENST00000343665	protein_coding	KNOWN	None	17118	1017	338	156436495	156469818	1	None	FKSG33, HSD15, LMBR2
7	RNF32	ENSG00000105982	ENST00000392740	protein_coding	KNOWN	None	17118	288	95	156436495	156439161	1	None	FKSG33, HSD15, LMBR2
15	HIGD2B	ENSG00000175202	ENST00000311755	protein_coding	KNOWN	None	26984	321	106	72968124	72978490	-1	HIGD2BP	None
5	SPINK6	ENSG00000178172	ENST00000514389	protein_coding	KNOWN	None	29486	124	40	147582357	147593515	1	None	MGC21394, UNQ844, BUSI2
5	SPINK6	ENSG00000178172	ENST00000325630	protein_coding	KNOWN	CCDS34268	29486	243	80	147582404	147594700	1	None	MGC21394, UNQ844, BUSI2
12	None	ENSG00000268716	ENST00000601218	protein_coding	NOVEL	None	None	66	21	52922915	52922980	1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000257560	ENST00000548795	pseudogene	NOVEL	None	None	None	None	31051901	31052166	1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000258200	ENST00000551119	pseudogene	NOVEL	None	None	None	None	31054557	31054985	-1	None	None
12	KRT71	ENSG00000139648	ENST00000267119	protein_coding	KNOWN	CCDS8831	28927	1572	523	52937693	52946931	-1	None	KRT6IRS, KRT6IRS1, K6IRS1
17	STARD3	ENSG00000131748	ENST00000336308	protein_coding	KNOWN	CCDS11341	17579	1338	445	37793318	37819737	1	None	es64, MLN64
17	STARD3	ENSG00000131748	ENST00000578232	processed_transcript	KNOWN	None	17579	None	None	37793343	37815806	1	None	es64, MLN64
17	STARD3	ENSG00000131748	ENST00000580551	retained_intron	KNOWN	None	17579	None	None	37793392	37814140	1	None	es64, MLN64
17	STARD3	ENSG00000131748	ENST00000578254	processed_transcript	KNOWN	None	17579	None	None	37793393	37814051	1	None	es64, MLN64
17	STARD3	ENSG00000131748	ENST00000544210	protein_coding	KNOWN	CCDS54117	17579	1338	445	37793394	37819347	1	None	es64, MLN64
17	STARD3	ENSG00000131748	ENST00000581894	protein_coding	KNOWN	None	17579	356	117	37793395	37814086	1	None	es64, MLN64
17	STARD3	ENSG00000131748	ENST00000583582	retained_intron	KNOWN	None	17579	None	None	37793395	37815072	1	None	es64, MLN64
17	STARD3	ENSG00000131748	ENST00000578577	nonsense_mediated_decay	KNOWN	None	17579	789	262	37793395	37819260	1	None	es64, MLN64
17	STARD3	ENSG00000131748	ENST00000394250	protein_coding	KNOWN	CCDS54118	17579	1284	427	37793397	37819687	1	None	es64, MLN64
17	STARD3	ENSG00000131748	ENST00000579479	protein_coding	KNOWN	None	17579	333	110	37793400	37814063	1	None	es64, MLN64
17	STARD3	ENSG00000131748	ENST00000577248	protein_coding	KNOWN	None	17579	470	155	37793400	37814711	1	None	es64, MLN64
17	STARD3	ENSG00000131748	ENST00000580611	protein_coding	NOVEL	None	17579	1428	475	37793406	37819737	1	None	es64, MLN64
17	STARD3	ENSG00000131748	ENST00000585214	processed_transcript	KNOWN	None	17579	None	None	37793415	37814549	1	None	es64, MLN64
17	STARD3	ENSG00000131748	ENST00000583718	protein_coding	KNOWN	None	17579	353	116	37793623	37814083	1	None	es64, MLN64
17	STARD3	ENSG00000131748	ENST00000580331	protein_coding	KNOWN	None	17579	264	87	37808742	37813305	1	None	es64, MLN64
17	STARD3	ENSG00000131748	ENST00000583419	protein_coding	KNOWN	None	17579	485	160	37809031	37814713	1	None	es64, MLN64
17	STARD3	ENSG00000131748	ENST00000484773	retained_intron	KNOWN	None	17579	None	None	37809302	37814946	1	None	es64, MLN64
17	STARD3	ENSG00000131748	ENST00000488876	retained_intron	KNOWN	None	17579	None	None	37809351	37819737	1	None	es64, MLN64
17	STARD3	ENSG00000131748	ENST00000443521	protein_coding	KNOWN	None	17579	588	195	37809378	37815015	1	None	es64, MLN64
17	STARD3	ENSG00000131748	ENST00000460894	processed_transcript	KNOWN	None	17579	None	None	37809753	37814254	1	None	es64, MLN64
17	STARD3	ENSG00000131748	ENST00000582874	processed_transcript	KNOWN	None	17579	None	None	37809788	37815029	1	None	es64, MLN64
17	STARD3	ENSG00000131748	ENST00000481171	retained_intron	KNOWN	None	17579	None	None	37814164	37819737	1	None	es64, MLN64
17	STARD3	ENSG00000131748	ENST00000585269	retained_intron	KNOWN	None	17579	None	None	37814647	37819686	1	None	es64, MLN64
17	STARD3	ENSG00000131748	ENST00000584850	retained_intron	KNOWN	None	17579	None	None	37814699	37819722	1	None	es64, MLN64
17	STARD3	ENSG00000131748	ENST00000471896	retained_intron	KNOWN	None	17579	None	None	37815242	37819722	1	None	es64, MLN64
17	STARD3	ENSG00000131748	ENST00000583884	nonsense_mediated_decay	KNOWN	None	17579	187	61	37815317	37818574	1	None	es64, MLN64
17	STARD3	ENSG00000131748	ENST00000583639	processed_transcript	KNOWN	None	17579	None	None	37816449	37819149	1	None	es64, MLN64
17	STARD3	ENSG00000131748	ENST00000578384	retained_intron	KNOWN	None	17579	None	None	37816473	37818732	1	None	es64, MLN64
17	STARD3	ENSG00000131748	ENST00000578686	retained_intron	KNOWN	None	17579	None	None	37816539	37817574	1	None	es64, MLN64
HSCHR6_MHC_SSTO	None	ENSG00000198143	ENST00000553159	pseudogene	NOVEL	None	None	None	None	31059239	31062047	-1	None	None
1	TSPAN2	ENSG00000134198	ENST00000369516	protein_coding	KNOWN	CCDS881	20659	666	221	115590632	115632085	-1	None	TSPAN-2, TSN2, FLJ12082
1	TSPAN2	ENSG00000134198	ENST00000369515	protein_coding	NOVEL	None	20659	591	196	115592977	115632121	-1	None	TSPAN-2, TSN2, FLJ12082
1	TSPAN2	ENSG00000134198	ENST00000433172	protein_coding	PUTATIVE	None	20659	564	187	115593004	115632035	-1	None	TSPAN-2, TSN2, FLJ12082
1	TSPAN2	ENSG00000134198	ENST00000491992	processed_transcript	KNOWN	None	20659	None	None	115593066	115601046	-1	None	TSPAN-2, TSN2, FLJ12082
1	TSPAN2	ENSG00000134198	ENST00000369514	protein_coding	KNOWN	None	20659	582	193	115593111	115632053	-1	None	TSPAN-2, TSN2, FLJ12082
HSCHR6_MHC_SSTO	None	ENSG00000257701	ENST00000549263	pseudogene	NOVEL	None	None	None	None	31061287	31061564	1	None	None
18	TXNL1	ENSG00000091164	ENST00000217515	protein_coding	KNOWN	CCDS11961	12436	870	289	54264439	54305876	-1	TXNL	Txl, TRP32
18	TXNL1	ENSG00000091164	ENST00000585497	processed_transcript	KNOWN	None	12436	None	None	54266299	54268217	-1	TXNL	Txl, TRP32
18	TXNL1	ENSG00000091164	ENST00000588615	processed_transcript	KNOWN	None	12436	None	None	54267334	54268096	-1	TXNL	Txl, TRP32
18	TXNL1	ENSG00000091164	ENST00000590954	protein_coding	KNOWN	CCDS11961	12436	870	289	54270053	54318359	-1	TXNL	Txl, TRP32
18	TXNL1	ENSG00000091164	ENST00000587807	nonsense_mediated_decay	KNOWN	None	12436	210	69	54270055	54318505	-1	TXNL	Txl, TRP32
18	TXNL1	ENSG00000091164	ENST00000589931	protein_coding	PUTATIVE	None	12436	311	102	54270129	54281722	-1	TXNL	Txl, TRP32
18	TXNL1	ENSG00000091164	ENST00000586262	protein_coding	NOVEL	None	12436	845	280	54275510	54305658	-1	TXNL	Txl, TRP32
18	TXNL1	ENSG00000091164	ENST00000587613	protein_coding	PUTATIVE	None	12436	416	137	54285272	54318824	-1	TXNL	Txl, TRP32
18	TXNL1	ENSG00000091164	ENST00000589329	protein_coding	KNOWN	None	12436	82	26	54305590	54318831	-1	TXNL	Txl, TRP32
18	TXNL1	ENSG00000091164	ENST00000589415	processed_transcript	KNOWN	None	12436	None	None	54305935	54318507	-1	TXNL	Txl, TRP32
18	TXNL1	ENSG00000091164	ENST00000586079	processed_transcript	KNOWN	None	12436	None	None	54314294	54318276	-1	TXNL	Txl, TRP32
18	TXNL1	ENSG00000091164	ENST00000540155	protein_coding	KNOWN	None	12436	501	166	54270055	54318505	-1	TXNL	Txl, TRP32
10	None	ENSG00000230755	ENST00000440153	processed_pseudogene	KNOWN	None	None	None	None	71349636	71350111	-1	None	None
2	FIGN	ENSG00000182263	ENST00000409634	protein_coding	PUTATIVE	None	13285	90	29	164449906	164592522	-1	None	None
2	FIGN	ENSG00000182263	ENST00000333129	protein_coding	KNOWN	CCDS2221	13285	2280	759	164459121	164592517	-1	None	None
2	FIGN	ENSG00000182263	ENST00000482917	processed_transcript	KNOWN	None	13285	None	None	164467864	164592494	-1	None	None
10	None	ENSG00000203565	ENST00000366376	lincRNA	KNOWN	None	None	None	None	33973683	33975992	1	None	None
16	CFDP1	ENSG00000153774	ENST00000570103	processed_transcript	KNOWN	None	1873	None	None	75327596	75340443	-1	None	BCNT, p97, CP27, SWC5, Yeti, CENP-29
16	CFDP1	ENSG00000153774	ENST00000283882	protein_coding	KNOWN	CCDS10916	1873	900	299	75327608	75467383	-1	None	BCNT, p97, CP27, SWC5, Yeti, CENP-29
16	CFDP1	ENSG00000153774	ENST00000564793	processed_transcript	KNOWN	None	1873	None	None	75327804	75396933	-1	None	BCNT, p97, CP27, SWC5, Yeti, CENP-29
16	CFDP1	ENSG00000153774	ENST00000562602	retained_intron	KNOWN	None	1873	None	None	75327806	75339336	-1	None	BCNT, p97, CP27, SWC5, Yeti, CENP-29
16	CFDP1	ENSG00000153774	ENST00000569341	nonsense_mediated_decay	KNOWN	None	1873	60	19	75406189	75429034	-1	None	BCNT, p97, CP27, SWC5, Yeti, CENP-29
16	CFDP1	ENSG00000153774	ENST00000570279	processed_transcript	KNOWN	None	1873	None	None	75425180	75429109	-1	None	BCNT, p97, CP27, SWC5, Yeti, CENP-29
16	CFDP1	ENSG00000153774	ENST00000566901	retained_intron	KNOWN	None	1873	None	None	75428580	75467359	-1	None	BCNT, p97, CP27, SWC5, Yeti, CENP-29
16	CFDP1	ENSG00000153774	ENST00000565646	processed_transcript	KNOWN	None	1873	None	None	75429033	75467371	-1	None	BCNT, p97, CP27, SWC5, Yeti, CENP-29
16	CFDP1	ENSG00000153774	ENST00000564286	processed_transcript	KNOWN	None	1873	None	None	75440470	75467368	-1	None	BCNT, p97, CP27, SWC5, Yeti, CENP-29
16	CFDP1	ENSG00000153774	ENST00000566254	protein_coding	PUTATIVE	None	1873	151	49	75448531	75467289	-1	None	BCNT, p97, CP27, SWC5, Yeti, CENP-29
8	KAT6A	ENSG00000083168	ENST00000265713	protein_coding	KNOWN	CCDS6124	13013	6015	2004	41786997	41909505	-1	ZNF220, RUNXBP2, MYST3	MOZ, ZC2HC6A
8	KAT6A	ENSG00000083168	ENST00000406337	protein_coding	KNOWN	CCDS6124	13013	6015	2004	41786997	41909505	-1	ZNF220, RUNXBP2, MYST3	MOZ, ZC2HC6A
8	KAT6A	ENSG00000083168	ENST00000418721	protein_coding	PUTATIVE	None	13013	2186	727	41792292	41815881	-1	ZNF220, RUNXBP2, MYST3	MOZ, ZC2HC6A
8	KAT6A	ENSG00000083168	ENST00000485568	protein_coding	PUTATIVE	None	13013	2448	815	41799567	41909505	-1	ZNF220, RUNXBP2, MYST3	MOZ, ZC2HC6A
8	KAT6A	ENSG00000083168	ENST00000470574	retained_intron	KNOWN	None	13013	None	None	41831880	41834764	-1	ZNF220, RUNXBP2, MYST3	MOZ, ZC2HC6A
8	KAT6A	ENSG00000083168	ENST00000463961	retained_intron	KNOWN	None	13013	None	None	41832318	41835008	-1	ZNF220, RUNXBP2, MYST3	MOZ, ZC2HC6A
8	KAT6A	ENSG00000083168	ENST00000426524	protein_coding	KNOWN	None	13013	41	12	41906455	41909508	-1	ZNF220, RUNXBP2, MYST3	MOZ, ZC2HC6A
8	KAT6A	ENSG00000083168	ENST00000396930	protein_coding	KNOWN	CCDS6124	13013	6015	2004	41786997	41909505	-1	ZNF220, RUNXBP2, MYST3	MOZ, ZC2HC6A
HSCHR6_MHC_SSTO	SKIV2L	ENSG00000228896	ENST00000421789	protein_coding	KNOWN	None	10898	3741	1246	31918709	31929380	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_SSTO	SKIV2L	ENSG00000228896	ENST00000490951	processed_transcript	KNOWN	None	10898	None	None	31918746	31921015	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_SSTO	SKIV2L	ENSG00000228896	ENST00000484085	processed_transcript	KNOWN	None	10898	None	None	31918768	31922212	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_SSTO	SKIV2L	ENSG00000228896	ENST00000476485	retained_intron	KNOWN	None	10898	None	None	31918777	31929380	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_SSTO	SKIV2L	ENSG00000228896	ENST00000482606	retained_intron	KNOWN	None	10898	None	None	31918820	31919587	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_SSTO	SKIV2L	ENSG00000228896	ENST00000464208	processed_transcript	KNOWN	None	10898	None	None	31921126	31922639	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_SSTO	SKIV2L	ENSG00000228896	ENST00000488686	processed_transcript	PUTATIVE	None	10898	None	None	31926457	31928073	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_SSTO	SKIV2L	ENSG00000228896	ENST00000494521	retained_intron	KNOWN	None	10898	None	None	31926650	31928077	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_SSTO	SKIV2L	ENSG00000228896	ENST00000464293	retained_intron	KNOWN	None	10898	None	None	31926732	31928615	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_SSTO	SKIV2L	ENSG00000228896	ENST00000496789	processed_transcript	PUTATIVE	None	10898	None	None	31927952	31929380	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_SSTO	SKIV2L	ENSG00000228896	ENST00000493433	retained_intron	KNOWN	None	10898	None	None	31928083	31929037	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_SSTO	SKIV2L	ENSG00000228896	ENST00000471949	retained_intron	KNOWN	None	10898	None	None	31928104	31929380	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_SSTO	SKIV2L	ENSG00000228896	ENST00000466463	processed_transcript	KNOWN	None	10898	None	None	31928109	31929380	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_SSTO	SKIV2L	ENSG00000228896	ENST00000491401	processed_transcript	KNOWN	None	10898	None	None	31928315	31929380	1	SKIV2	HLP, DDX13, SKI2W, 170A
1	NGF	ENSG00000134259	ENST00000369512	protein_coding	KNOWN	CCDS882	7808	726	241	115828539	115880857	-1	NGFB	None
Y	TSPY24P	ENSG00000215601	ENST00000431340	unprocessed_pseudogene	KNOWN	None	38725	None	None	8148239	8150250	1	None	None
14	PTGR2	ENSG00000140043	ENST00000555228	protein_coding	KNOWN	CCDS9820	20149	1056	351	74318547	74352159	1	ZADH1	FLJ39091
14	PTGR2	ENSG00000140043	ENST00000555661	protein_coding	KNOWN	CCDS9820	20149	1056	351	74318549	74353530	1	ZADH1	FLJ39091
14	PTGR2	ENSG00000140043	ENST00000555976	protein_coding	PUTATIVE	None	20149	392	129	74318631	74341330	1	ZADH1	FLJ39091
14	PTGR2	ENSG00000140043	ENST00000553326	processed_transcript	KNOWN	None	20149	None	None	74318649	74328429	1	ZADH1	FLJ39091
14	PTGR2	ENSG00000140043	ENST00000267568	protein_coding	KNOWN	CCDS9820	20149	1056	351	74318650	74352162	1	ZADH1	FLJ39091
14	PTGR2	ENSG00000140043	ENST00000556219	retained_intron	KNOWN	None	20149	None	None	74324841	74351282	1	ZADH1	FLJ39091
14	PTGR2	ENSG00000140043	ENST00000554885	protein_coding	PUTATIVE	None	20149	789	262	74327241	74350880	1	ZADH1	FLJ39091
1	AGO3	ENSG00000126070	ENST00000324350	protein_coding	KNOWN	None	18421	690	229	36396319	36449010	1	EIF2C3	hAGO3, FLJ12765
1	AGO3	ENSG00000126070	ENST00000373191	protein_coding	KNOWN	CCDS399	18421	2583	860	36396679	36538101	1	EIF2C3	hAGO3, FLJ12765
1	AGO3	ENSG00000126070	ENST00000246314	protein_coding	KNOWN	CCDS400	18421	1881	626	36396859	36522063	1	EIF2C3	hAGO3, FLJ12765
1	AGO3	ENSG00000126070	ENST00000491443	processed_transcript	KNOWN	None	18421	None	None	36432555	36439193	1	EIF2C3	hAGO3, FLJ12765
1	AGO3	ENSG00000126070	ENST00000471099	processed_transcript	KNOWN	None	18421	None	None	36508865	36520863	1	EIF2C3	hAGO3, FLJ12765
1	AGO3	ENSG00000126070	ENST00000397828	protein_coding	KNOWN	None	18421	690	229	36396683	36450379	1	EIF2C3	hAGO3, FLJ12765
22	TBC1D22A	ENSG00000054611	ENST00000337137	protein_coding	KNOWN	CCDS14078	1309	1554	517	47158518	47571336	1	C22orf4	None
22	TBC1D22A	ENSG00000054611	ENST00000441936	nonsense_mediated_decay	KNOWN	None	1309	177	58	47158548	47189572	1	C22orf4	None
22	TBC1D22A	ENSG00000054611	ENST00000486163	processed_transcript	KNOWN	None	1309	None	None	47158556	47189568	1	C22orf4	None
22	TBC1D22A	ENSG00000054611	ENST00000407381	protein_coding	NOVEL	None	1309	1377	458	47158569	47569726	1	C22orf4	None
22	TBC1D22A	ENSG00000054611	ENST00000355704	protein_coding	KNOWN	None	1309	1320	439	47158578	47569729	1	C22orf4	None
22	TBC1D22A	ENSG00000054611	ENST00000394449	nonsense_mediated_decay	KNOWN	None	1309	714	237	47158580	47569730	1	C22orf4	None
22	TBC1D22A	ENSG00000054611	ENST00000496139	processed_transcript	KNOWN	None	1309	None	None	47158584	47189513	1	C22orf4	None
22	TBC1D22A	ENSG00000054611	ENST00000472791	processed_transcript	KNOWN	None	1309	None	None	47159163	47189672	1	C22orf4	None
22	TBC1D22A	ENSG00000054611	ENST00000441162	nonsense_mediated_decay	KNOWN	None	1309	975	324	47159639	47569735	1	C22orf4	None
22	TBC1D22A	ENSG00000054611	ENST00000406733	protein_coding	PUTATIVE	None	1309	1413	470	47169824	47569735	1	C22orf4	None
22	TBC1D22A	ENSG00000054611	ENST00000380995	protein_coding	KNOWN	None	1309	975	324	47158529	47309330	1	C22orf4	None
10	LINC00838	ENSG00000261683	ENST00000562956	lincRNA	KNOWN	None	44963	None	None	34048641	34061586	-1	None	None
12	None	ENSG00000268069	ENST00000599515	protein_coding	KNOWN	None	None	423	140	48178706	48179787	1	None	None
HSCHR6_MHC_MANN	MRPS18B	ENSG00000226111	ENST00000451032	protein_coding	KNOWN	None	14516	777	258	30630161	30638847	1	None	MRPS18-2, PTD017, C6orf14, HSPC183
HSCHR6_MHC_MANN	MRPS18B	ENSG00000226111	ENST00000497082	retained_intron	KNOWN	None	14516	None	None	30630295	30632576	1	None	MRPS18-2, PTD017, C6orf14, HSPC183
HSCHR6_MHC_MANN	MRPS18B	ENSG00000226111	ENST00000469706	retained_intron	KNOWN	None	14516	None	None	30630304	30638847	1	None	MRPS18-2, PTD017, C6orf14, HSPC183
HSCHR6_MHC_MANN	MRPS18B	ENSG00000226111	ENST00000440992	protein_coding	KNOWN	None	14516	648	215	30630312	30638847	1	None	MRPS18-2, PTD017, C6orf14, HSPC183
HSCHR6_MHC_MANN	MRPS18B	ENSG00000226111	ENST00000493769	processed_transcript	KNOWN	None	14516	None	None	30630312	30638847	1	None	MRPS18-2, PTD017, C6orf14, HSPC183
19	IFNL4	ENSG00000272395	ENST00000606380	polymorphic_pseudogene	KNOWN	None	44480	541	179	39737773	39739219	-1	None	IFNAN
2	GRB14	ENSG00000115290	ENST00000488342	retained_intron	KNOWN	None	4565	None	None	165349322	165477902	-1	None	None
2	GRB14	ENSG00000115290	ENST00000263915	protein_coding	KNOWN	CCDS2222	4565	1623	540	165349326	165478358	-1	None	None
2	GRB14	ENSG00000115290	ENST00000497306	processed_transcript	KNOWN	None	4565	None	None	165349332	165353562	-1	None	None
2	GRB14	ENSG00000115290	ENST00000446413	protein_coding	PUTATIVE	None	4565	1247	414	165353518	165477988	-1	None	None
2	GRB14	ENSG00000115290	ENST00000469573	retained_intron	KNOWN	None	4565	None	None	165365173	165424994	-1	None	None
2	GRB14	ENSG00000115290	ENST00000424693	protein_coding	PUTATIVE	None	4565	466	154	165381552	165476467	-1	None	None
2	GRB14	ENSG00000115290	ENST00000543549	protein_coding	KNOWN	None	4565	1362	453	165349333	165425005	-1	None	None
10	None	ENSG00000226407	ENST00000418077	processed_pseudogene	KNOWN	None	None	None	None	34153241	34153651	1	None	None
19	IFNL2	ENSG00000183709	ENST00000331982	protein_coding	KNOWN	CCDS42567	18364	603	200	39759154	39760732	1	IL28A	IL-28A
1	VANGL1	ENSG00000173218	ENST00000369510	protein_coding	KNOWN	CCDS53350	15512	1569	522	116184612	116236312	1	None	STB2
1	VANGL1	ENSG00000173218	ENST00000310260	protein_coding	KNOWN	CCDS883	15512	1575	524	116185250	116234475	1	None	STB2
1	VANGL1	ENSG00000173218	ENST00000369509	protein_coding	KNOWN	CCDS883	15512	1575	524	116194023	116234475	1	None	STB2
1	VANGL1	ENSG00000173218	ENST00000478369	processed_transcript	KNOWN	None	15512	None	None	116213666	116226697	1	None	STB2
1	VANGL1	ENSG00000173218	ENST00000474344	processed_transcript	KNOWN	None	15512	None	None	116213765	116226697	1	None	STB2
1	VANGL1	ENSG00000173218	ENST00000355485	protein_coding	KNOWN	CCDS883	15512	1575	524	116184574	116240845	1	None	STB2
6	RFPL4B	ENSG00000251258	ENST00000441065	protein_coding	KNOWN	CCDS34515	33264	792	263	112668532	112672498	1	None	RNF211
12	YEATS4	ENSG00000127337	ENST00000247843	protein_coding	KNOWN	CCDS8990	24859	684	227	69753483	69784576	1	None	NuBI-1, GAS41, YAF9
12	YEATS4	ENSG00000127337	ENST00000548020	protein_coding	NOVEL	None	24859	522	173	69753490	69784411	1	None	NuBI-1, GAS41, YAF9
12	YEATS4	ENSG00000127337	ENST00000549685	protein_coding	PUTATIVE	None	24859	340	112	69753500	69764755	1	None	NuBI-1, GAS41, YAF9
12	YEATS4	ENSG00000127337	ENST00000552949	retained_intron	KNOWN	None	24859	None	None	69753536	69756727	1	None	NuBI-1, GAS41, YAF9
12	YEATS4	ENSG00000127337	ENST00000552955	protein_coding	NOVEL	None	24859	633	210	69753559	69764751	1	None	NuBI-1, GAS41, YAF9
Y	ZNF736P6Y	ENSG00000224634	ENST00000447526	processed_pseudogene	KNOWN	None	38440	None	None	8218972	8220184	1	None	None
Y	MTND6P1	ENSG00000223955	ENST00000417434	processed_pseudogene	KNOWN	None	38730	None	None	8231577	8232000	-1	None	None
6	MARCKS	ENSG00000155130	ENST00000368635	protein_coding	KNOWN	CCDS5101	6759	999	332	114178541	114184648	1	MACS	PKCSL, 80K-L
Y	MTCYBP1	ENSG00000234179	ENST00000454315	processed_pseudogene	KNOWN	None	38729	None	None	8232073	8233191	1	None	None
21	MAP3K7CL	ENSG00000156265	ENST00000496779	processed_transcript	KNOWN	None	16457	None	None	30449792	30482112	1	C21orf7	TAKL, TAK1L, TAKL-1, TAKL-2, TAKL-4
21	MAP3K7CL	ENSG00000156265	ENST00000419845	protein_coding	KNOWN	None	16457	133	43	30449796	30463897	1	C21orf7	TAKL, TAK1L, TAKL-1, TAKL-2, TAKL-4
21	MAP3K7CL	ENSG00000156265	ENST00000492930	processed_transcript	KNOWN	None	16457	None	None	30449817	30474961	1	C21orf7	TAKL, TAK1L, TAKL-1, TAKL-2, TAKL-4
21	MAP3K7CL	ENSG00000156265	ENST00000341618	protein_coding	KNOWN	CCDS13584	16457	729	242	30449954	30548210	1	C21orf7	TAKL, TAK1L, TAKL-1, TAKL-2, TAKL-4
21	MAP3K7CL	ENSG00000156265	ENST00000399935	protein_coding	KNOWN	None	16457	429	142	30449954	30548210	1	C21orf7	TAKL, TAK1L, TAKL-1, TAKL-2, TAKL-4
21	MAP3K7CL	ENSG00000156265	ENST00000399934	protein_coding	KNOWN	None	16457	429	142	30449954	30548210	1	C21orf7	TAKL, TAK1L, TAKL-1, TAKL-2, TAKL-4
21	MAP3K7CL	ENSG00000156265	ENST00000399947	protein_coding	KNOWN	CCDS13584	16457	729	242	30452873	30548210	1	C21orf7	TAKL, TAK1L, TAKL-1, TAKL-2, TAKL-4
21	MAP3K7CL	ENSG00000156265	ENST00000339024	protein_coding	KNOWN	None	16457	429	142	30464575	30548210	1	C21orf7	TAKL, TAK1L, TAKL-1, TAKL-2, TAKL-4
21	MAP3K7CL	ENSG00000156265	ENST00000460883	processed_transcript	KNOWN	None	16457	None	None	30494376	30547350	1	C21orf7	TAKL, TAK1L, TAKL-1, TAKL-2, TAKL-4
21	MAP3K7CL	ENSG00000156265	ENST00000399928	protein_coding	KNOWN	None	16457	429	142	30502806	30548210	1	C21orf7	TAKL, TAK1L, TAKL-1, TAKL-2, TAKL-4
21	MAP3K7CL	ENSG00000156265	ENST00000399926	protein_coding	KNOWN	None	16457	429	142	30502959	30547335	1	C21orf7	TAKL, TAK1L, TAKL-1, TAKL-2, TAKL-4
21	MAP3K7CL	ENSG00000156265	ENST00000399925	protein_coding	KNOWN	None	16457	429	142	30503282	30547347	1	C21orf7	TAKL, TAK1L, TAKL-1, TAKL-2, TAKL-4
21	MAP3K7CL	ENSG00000156265	ENST00000451489	protein_coding	KNOWN	None	16457	282	93	30503578	30547066	1	C21orf7	TAKL, TAK1L, TAKL-1, TAKL-2, TAKL-4
21	MAP3K7CL	ENSG00000156265	ENST00000470800	processed_transcript	KNOWN	None	16457	None	None	30517880	30547540	1	C21orf7	TAKL, TAK1L, TAKL-1, TAKL-2, TAKL-4
21	MAP3K7CL	ENSG00000156265	ENST00000286791	protein_coding	KNOWN	None	16457	438	145	30449954	30548208	1	C21orf7	TAKL, TAK1L, TAKL-1, TAKL-2, TAKL-4
21	MAP3K7CL	ENSG00000156265	ENST00000545939	protein_coding	KNOWN	None	16457	411	136	30449812	30547751	1	C21orf7	TAKL, TAK1L, TAKL-1, TAKL-2, TAKL-4
21	None	ENSG00000227090	ENST00000446404	lincRNA	KNOWN	None	None	None	None	26258990	26275070	-1	None	None
Y	MTND1P1	ENSG00000226529	ENST00000445453	processed_pseudogene	KNOWN	None	38728	None	None	8239704	8240071	1	None	None
22	SF3A1	ENSG00000099995	ENST00000215793	protein_coding	KNOWN	CCDS13875	10765	2382	793	30729610	30752936	-1	None	SF3a120, SAP114, PRPF21, Prp21
22	SF3A1	ENSG00000099995	ENST00000411423	nonsense_mediated_decay	KNOWN	None	10765	117	38	30733790	30752873	-1	None	SF3a120, SAP114, PRPF21, Prp21
22	SF3A1	ENSG00000099995	ENST00000444440	protein_coding	NOVEL	None	10765	777	258	30733806	30737839	-1	None	SF3a120, SAP114, PRPF21, Prp21
22	SF3A1	ENSG00000099995	ENST00000485618	retained_intron	KNOWN	None	10765	None	None	30734829	30736460	-1	None	SF3a120, SAP114, PRPF21, Prp21
22	SF3A1	ENSG00000099995	ENST00000498259	retained_intron	KNOWN	None	10765	None	None	30734950	30736768	-1	None	SF3a120, SAP114, PRPF21, Prp21
22	SF3A1	ENSG00000099995	ENST00000447376	nonsense_mediated_decay	KNOWN	None	10765	192	63	30738309	30752908	-1	None	SF3a120, SAP114, PRPF21, Prp21
22	SF3A1	ENSG00000099995	ENST00000471037	retained_intron	KNOWN	None	10765	None	None	30738536	30741143	-1	None	SF3a120, SAP114, PRPF21, Prp21
22	SF3A1	ENSG00000099995	ENST00000471342	retained_intron	KNOWN	None	10765	None	None	30740899	30742478	-1	None	SF3a120, SAP114, PRPF21, Prp21
22	SF3A1	ENSG00000099995	ENST00000463818	retained_intron	KNOWN	None	10765	None	None	30742210	30752880	-1	None	SF3a120, SAP114, PRPF21, Prp21
22	SF3A1	ENSG00000099995	ENST00000496189	retained_intron	KNOWN	None	10765	None	None	30748534	30752883	-1	None	SF3a120, SAP114, PRPF21, Prp21
22	SF3A1	ENSG00000099995	ENST00000439242	protein_coding	KNOWN	CCDS46684	10765	2187	728	30727979	30752913	-1	None	SF3a120, SAP114, PRPF21, Prp21
10	None	ENSG00000223470	ENST00000434552	lincRNA	KNOWN	None	None	None	None	34198166	34206723	1	None	None
14	EAPP	ENSG00000129518	ENST00000250454	protein_coding	KNOWN	CCDS41941	19312	858	285	34985135	35008916	-1	C14orf11	BM036, FLJ20578
14	EAPP	ENSG00000129518	ENST00000554792	protein_coding	PUTATIVE	None	19312	615	204	34985696	35005651	-1	C14orf11	BM036, FLJ20578
14	EAPP	ENSG00000129518	ENST00000555705	nonsense_mediated_decay	KNOWN	None	19312	330	109	34998562	35008904	-1	C14orf11	BM036, FLJ20578
14	EAPP	ENSG00000129518	ENST00000555683	retained_intron	KNOWN	None	19312	None	None	35005070	35008910	-1	C14orf11	BM036, FLJ20578
12	KRT74	ENSG00000170484	ENST00000549343	protein_coding	NOVEL	None	28929	1632	543	52959566	52967600	-1	None	K6IRS4, KRT5C, KRT6IRS4
12	KRT74	ENSG00000170484	ENST00000305620	protein_coding	KNOWN	CCDS8832	28929	1590	529	52959603	52967609	-1	None	K6IRS4, KRT5C, KRT6IRS4
12	KRT74	ENSG00000170484	ENST00000546384	retained_intron	KNOWN	None	28929	None	None	52960783	52962294	-1	None	K6IRS4, KRT5C, KRT6IRS4
21	None	ENSG00000230379	ENST00000454182	lincRNA	KNOWN	None	None	None	None	26310745	26316294	-1	None	None
21	None	ENSG00000230379	ENST00000441666	lincRNA	KNOWN	None	None	None	None	26310745	26324471	-1	None	None
21	None	ENSG00000230379	ENST00000444178	lincRNA	KNOWN	None	None	None	None	26310745	26365129	-1	None	None
21	None	ENSG00000237444	ENST00000423389	processed_pseudogene	KNOWN	None	None	None	None	26403318	26403842	-1	None	None
19	WIZ	ENSG00000011451	ENST00000263381	protein_coding	KNOWN	CCDS42516	30917	2385	794	15530792	15560762	-1	None	ZNF803
19	WIZ	ENSG00000011451	ENST00000599910	protein_coding	PUTATIVE	None	30917	2907	968	15533507	15541994	-1	None	ZNF803
19	WIZ	ENSG00000011451	ENST00000599686	protein_coding	PUTATIVE	None	30917	2508	835	15533507	15541994	-1	None	ZNF803
19	WIZ	ENSG00000011451	ENST00000600632	retained_intron	KNOWN	None	30917	None	None	15534871	15535650	-1	None	ZNF803
19	WIZ	ENSG00000011451	ENST00000594915	protein_coding	PUTATIVE	None	30917	148	48	15541823	15544084	-1	None	ZNF803
19	WIZ	ENSG00000011451	ENST00000595214	processed_transcript	KNOWN	None	30917	None	None	15547286	15549738	-1	None	ZNF803
19	WIZ	ENSG00000011451	ENST00000596159	protein_coding	KNOWN	None	30917	401	132	15547745	15560419	-1	None	ZNF803
19	WIZ	ENSG00000011451	ENST00000389282	protein_coding	KNOWN	None	30917	4956	1651	15532319	15560762	-1	None	ZNF803
19	WIZ	ENSG00000011451	ENST00000545156	protein_coding	KNOWN	None	30917	2898	965	15533507	15541994	-1	None	ZNF803
21	None	ENSG00000244278	ENST00000424017	lincRNA	KNOWN	None	None	None	None	26427848	26442219	1	None	None
21	None	ENSG00000232512	ENST00000453802	lincRNA	KNOWN	None	None	None	None	26467335	26475983	1	None	None
21	None	ENSG00000232512	ENST00000418942	lincRNA	KNOWN	None	None	None	None	26467355	26475983	1	None	None
21	None	ENSG00000232512	ENST00000410635	misc_RNA	KNOWN	None	None	None	None	26473445	26473728	1	None	None
12	VDR	ENSG00000111424	ENST00000395324	protein_coding	KNOWN	CCDS8757	12679	1284	427	48235320	48336831	-1	None	NR1I1
12	VDR	ENSG00000111424	ENST00000549336	protein_coding	KNOWN	CCDS8757	12679	1284	427	48236410	48298805	-1	None	NR1I1
12	VDR	ENSG00000111424	ENST00000550325	protein_coding	PUTATIVE	CCDS55820	12679	1434	477	48236411	48298786	-1	None	NR1I1
12	VDR	ENSG00000111424	ENST00000547065	nonsense_mediated_decay	KNOWN	None	12679	150	49	48238253	48298805	-1	None	NR1I1
12	VDR	ENSG00000111424	ENST00000546653	protein_coding	KNOWN	None	12679	751	249	48249417	48298799	-1	None	NR1I1
12	VDR	ENSG00000111424	ENST00000550314	protein_coding	KNOWN	None	12679	318	105	48251431	48276718	-1	None	NR1I1
12	VDR	ENSG00000111424	ENST00000548664	protein_coding	KNOWN	None	12679	305	100	48251444	48298823	-1	None	NR1I1
12	VDR	ENSG00000111424	ENST00000229022	protein_coding	KNOWN	CCDS8757	12679	1284	427	48235322	48298814	-1	None	NR1I1
12	VDR	ENSG00000111424	ENST00000535672	protein_coding	KNOWN	None	12679	1188	395	48238253	48298805	-1	None	NR1I1
5	CSNK1G3	ENSG00000151292	ENST00000508708	processed_transcript	PUTATIVE	None	2456	None	None	122847885	122881650	1	None	None
5	CSNK1G3	ENSG00000151292	ENST00000511130	protein_coding	PUTATIVE	CCDS59493	2456	936	311	122847954	122950149	1	None	None
5	CSNK1G3	ENSG00000151292	ENST00000512718	protein_coding	NOVEL	CCDS59492	2456	1047	348	122847954	122950254	1	None	None
5	CSNK1G3	ENSG00000151292	ENST00000521364	protein_coding	KNOWN	CCDS34218	2456	1272	423	122881109	122951149	1	None	None
5	CSNK1G3	ENSG00000151292	ENST00000510842	protein_coding	KNOWN	CCDS59491	2456	1275	424	122881111	122950547	1	None	None
5	CSNK1G3	ENSG00000151292	ENST00000361991	protein_coding	KNOWN	CCDS4135	2456	1344	447	122881328	122951140	1	None	None
5	CSNK1G3	ENSG00000151292	ENST00000360683	protein_coding	KNOWN	CCDS43355	2456	1368	455	122881328	122952739	1	None	None
5	CSNK1G3	ENSG00000151292	ENST00000514131	retained_intron	KNOWN	None	2456	None	None	122888659	122893258	1	None	None
5	CSNK1G3	ENSG00000151292	ENST00000515322	protein_coding	PUTATIVE	None	2456	494	163	122924119	122950711	1	None	None
5	CSNK1G3	ENSG00000151292	ENST00000395412	protein_coding	KNOWN	CCDS43355	2456	1368	455	122847793	122952465	1	None	None
5	CSNK1G3	ENSG00000151292	ENST00000395411	protein_coding	KNOWN	CCDS4135	2456	1344	447	122847793	122952465	1	None	None
5	CSNK1G3	ENSG00000151292	ENST00000345990	protein_coding	KNOWN	CCDS34218	2456	1272	423	122847793	122952465	1	None	None
19	IFNL1	ENSG00000182393	ENST00000333625	protein_coding	KNOWN	CCDS12531	18363	603	200	39786965	39789313	1	IL29	IL-29
21	None	ENSG00000223870	ENST00000426609	lincRNA	KNOWN	None	None	None	None	26499782	26507561	1	None	None
21	None	ENSG00000222042	ENST00000409758	lincRNA	KNOWN	None	None	None	None	26541745	26706139	-1	None	None
21	RNA5SP489	ENSG00000238627	ENST00000410986	rRNA	KNOWN	None	43389	None	None	26574521	26574629	1	RN5S489	None
21	None	ENSG00000238660	ENST00000459545	miRNA	NOVEL	None	None	None	None	26711319	26711413	1	None	None
1	TNNT2	ENSG00000118194	ENST00000476888	processed_transcript	KNOWN	None	11949	None	None	201328136	201332478	-1	CMH2	None
1	TNNT2	ENSG00000118194	ENST00000460780	processed_transcript	KNOWN	None	11949	None	None	201328136	201333316	-1	CMH2	None
1	TNNT2	ENSG00000118194	ENST00000367318	protein_coding	KNOWN	CCDS30969	11949	867	288	201328136	201346789	-1	CMH2	None
1	TNNT2	ENSG00000118194	ENST00000367322	protein_coding	KNOWN	CCDS30968	11949	858	285	201328136	201346808	-1	CMH2	None
1	TNNT2	ENSG00000118194	ENST00000491504	retained_intron	KNOWN	None	11949	None	None	201328136	201346808	-1	CMH2	None
1	TNNT2	ENSG00000118194	ENST00000367320	protein_coding	NOVEL	None	11949	768	255	201328152	201346789	-1	CMH2	None
1	TNNT2	ENSG00000118194	ENST00000509001	protein_coding	KNOWN	CCDS30969	11949	867	288	201328162	201346890	-1	CMH2	None
1	TNNT2	ENSG00000118194	ENST00000479297	processed_transcript	KNOWN	None	11949	None	None	201328300	201334354	-1	CMH2	None
1	TNNT2	ENSG00000118194	ENST00000438742	protein_coding	NOVEL	None	11949	814	270	201328373	201346792	-1	CMH2	None
1	TNNT2	ENSG00000118194	ENST00000515042	retained_intron	KNOWN	None	11949	None	None	201329955	201336094	-1	CMH2	None
1	TNNT2	ENSG00000118194	ENST00000477035	processed_transcript	KNOWN	None	11949	None	None	201330140	201330485	-1	CMH2	None
1	TNNT2	ENSG00000118194	ENST00000466570	processed_transcript	KNOWN	None	11949	None	None	201332457	201342443	-1	CMH2	None
1	TNNT2	ENSG00000118194	ENST00000455702	protein_coding	NOVEL	None	11949	540	179	201332484	201346761	-1	CMH2	None
1	TNNT2	ENSG00000118194	ENST00000503459	retained_intron	KNOWN	None	11949	None	None	201333055	201336936	-1	CMH2	None
1	TNNT2	ENSG00000118194	ENST00000422165	protein_coding	NOVEL	None	11949	342	113	201334373	201346780	-1	CMH2	None
1	TNNT2	ENSG00000118194	ENST00000412633	protein_coding	NOVEL	None	11949	293	96	201334404	201346792	-1	CMH2	None
1	TNNT2	ENSG00000118194	ENST00000445079	retained_intron	KNOWN	None	11949	None	None	201335523	201337442	-1	CMH2	None
1	TNNT2	ENSG00000118194	ENST00000475686	processed_transcript	KNOWN	None	11949	None	None	201335971	201342393	-1	CMH2	None
1	TNNT2	ENSG00000118194	ENST00000494095	retained_intron	KNOWN	None	11949	None	None	201336271	201344496	-1	CMH2	None
1	TNNT2	ENSG00000118194	ENST00000472177	retained_intron	KNOWN	None	11949	None	None	201336581	201346808	-1	CMH2	None
1	TNNT2	ENSG00000118194	ENST00000458432	protein_coding	KNOWN	None	11949	894	297	201328142	201346805	-1	CMH2	None
1	TNNT2	ENSG00000118194	ENST00000421663	protein_coding	KNOWN	None	11949	876	291	201328142	201346805	-1	CMH2	None
1	TNNT2	ENSG00000118194	ENST00000236918	protein_coding	KNOWN	None	11949	882	293	201328142	201342382	-1	CMH2	None
1	TNNT2	ENSG00000118194	ENST00000367317	protein_coding	KNOWN	CCDS30969	11949	867	288	201328142	201342382	-1	CMH2	None
1	TNNT2	ENSG00000118194	ENST00000367315	protein_coding	KNOWN	CCDS30968	11949	858	285	201328142	201342382	-1	CMH2	None
1	TNNT2	ENSG00000118194	ENST00000360372	protein_coding	KNOWN	None	11949	852	283	201328142	201342382	-1	CMH2	None
21	RPL13AP7	ENSG00000213885	ENST00000425147	processed_pseudogene	KNOWN	None	23755	None	None	26734135	26734745	1	None	None
1	TEKT2	ENSG00000092850	ENST00000207457	protein_coding	KNOWN	CCDS401	11725	1293	430	36549676	36553876	1	None	TEKTB1
1	TEKT2	ENSG00000092850	ENST00000469024	nonsense_mediated_decay	KNOWN	None	11725	327	108	36549939	36553876	1	None	TEKTB1
1	TEKT2	ENSG00000092850	ENST00000473120	protein_coding	PUTATIVE	None	11725	289	95	36552852	36553876	1	None	TEKTB1
22	None	ENSG00000218357	ENST00000405369	protein_coding	PUTATIVE	None	None	258	85	47857048	47882860	-1	None	None
22	None	ENSG00000218357	ENST00000481625	processed_transcript	KNOWN	None	None	None	None	47859216	47882837	-1	None	None
21	LINC00158	ENSG00000185433	ENST00000441013	lincRNA	KNOWN	None	1283	None	None	26758133	26804013	-1	C21orf42, NCRNA00158	None
21	LINC00158	ENSG00000185433	ENST00000332587	lincRNA	KNOWN	None	1283	None	None	26758133	26804013	-1	C21orf42, NCRNA00158	None
21	LINC00158	ENSG00000185433	ENST00000440205	lincRNA	KNOWN	None	1283	None	None	26768506	26797021	-1	C21orf42, NCRNA00158	None
21	LINC00158	ENSG00000185433	ENST00000439840	lincRNA	KNOWN	None	1283	None	None	26768799	26802321	-1	C21orf42, NCRNA00158	None
HSCHR6_MHC_DBB	TRIM10	ENSG00000227472	ENST00000426996	protein_coding	KNOWN	None	10072	1446	481	30110050	30119038	-1	RNF9	RFB30, HERF1
HSCHR6_MHC_DBB	TRIM10	ENSG00000227472	ENST00000413055	protein_coding	KNOWN	None	10072	1188	395	30110050	30119038	-1	RNF9	RFB30, HERF1
HSCHR6_MHC_DBB	TRIM10	ENSG00000227472	ENST00000551474	protein_coding	KNOWN	None	10072	1446	481	30112074	30119038	-1	RNF9	RFB30, HERF1
9	PRUNE2	ENSG00000106772	ENST00000376717	protein_coding	KNOWN	None	25209	1062	353	79226292	79307109	-1	C9orf65, KIAA0367	BMCC1, BNIPXL, A214N16.3, bA214N16.3
9	PRUNE2	ENSG00000106772	ENST00000466266	processed_transcript	KNOWN	None	25209	None	None	79226292	79307116	-1	C9orf65, KIAA0367	BMCC1, BNIPXL, A214N16.3, bA214N16.3
9	PRUNE2	ENSG00000106772	ENST00000376718	protein_coding	NOVEL	CCDS47982	25209	9267	3088	79226293	79521003	-1	C9orf65, KIAA0367	BMCC1, BNIPXL, A214N16.3, bA214N16.3
9	PRUNE2	ENSG00000106772	ENST00000464414	processed_transcript	KNOWN	None	25209	None	None	79228924	79230078	-1	C9orf65, KIAA0367	BMCC1, BNIPXL, A214N16.3, bA214N16.3
9	PRUNE2	ENSG00000106772	ENST00000426088	protein_coding	NOVEL	None	25209	7153	2383	79229205	79325153	-1	C9orf65, KIAA0367	BMCC1, BNIPXL, A214N16.3, bA214N16.3
9	PRUNE2	ENSG00000106772	ENST00000424866	protein_coding	NOVEL	None	25209	783	260	79229366	79267465	-1	C9orf65, KIAA0367	BMCC1, BNIPXL, A214N16.3, bA214N16.3
9	PRUNE2	ENSG00000106772	ENST00000494975	processed_transcript	KNOWN	None	25209	None	None	79256863	79260054	-1	C9orf65, KIAA0367	BMCC1, BNIPXL, A214N16.3, bA214N16.3
9	PRUNE2	ENSG00000106772	ENST00000488346	processed_transcript	KNOWN	None	25209	None	None	79259413	79307083	-1	C9orf65, KIAA0367	BMCC1, BNIPXL, A214N16.3, bA214N16.3
9	PRUNE2	ENSG00000106772	ENST00000480674	processed_transcript	KNOWN	None	25209	None	None	79266884	79318354	-1	C9orf65, KIAA0367	BMCC1, BNIPXL, A214N16.3, bA214N16.3
9	PRUNE2	ENSG00000106772	ENST00000376713	protein_coding	NOVEL	None	25209	897	298	79403260	79521001	-1	C9orf65, KIAA0367	BMCC1, BNIPXL, A214N16.3, bA214N16.3
9	PRUNE2	ENSG00000106772	ENST00000492157	processed_transcript	KNOWN	None	25209	None	None	79438164	79521003	-1	C9orf65, KIAA0367	BMCC1, BNIPXL, A214N16.3, bA214N16.3
9	PRUNE2	ENSG00000106772	ENST00000489555	processed_transcript	KNOWN	None	25209	None	None	79461515	79484098	-1	C9orf65, KIAA0367	BMCC1, BNIPXL, A214N16.3, bA214N16.3
9	PRUNE2	ENSG00000106772	ENST00000428286	protein_coding	KNOWN	None	25209	8193	2730	79226293	79521003	-1	C9orf65, KIAA0367	BMCC1, BNIPXL, A214N16.3, bA214N16.3
9	PRUNE2	ENSG00000106772	ENST00000223609	protein_coding	KNOWN	None	25209	975	324	79229453	79307112	-1	C9orf65, KIAA0367	BMCC1, BNIPXL, A214N16.3, bA214N16.3
9	PRUNE2	ENSG00000106772	ENST00000443509	protein_coding	KNOWN	None	25209	1014	337	79229216	79307113	-1	C9orf65, KIAA0367	BMCC1, BNIPXL, A214N16.3, bA214N16.3
1	CASQ2	ENSG00000118729	ENST00000261448	protein_coding	KNOWN	CCDS884	1513	1200	399	116242628	116311402	-1	None	PDIB2
1	CASQ2	ENSG00000118729	ENST00000488931	processed_transcript	KNOWN	None	1513	None	None	116269646	116275548	-1	None	PDIB2
1	CASQ2	ENSG00000118729	ENST00000456138	protein_coding	KNOWN	None	1513	987	328	116243653	116311335	-1	None	PDIB2
22	FAM19A5	ENSG00000219438	ENST00000402357	protein_coding	PUTATIVE	CCDS46728	21592	399	132	48885272	49146635	1	None	TAFA-5
22	FAM19A5	ENSG00000219438	ENST00000336769	protein_coding	PUTATIVE	None	21592	545	180	48885404	49246724	1	None	TAFA-5
22	FAM19A5	ENSG00000219438	ENST00000358295	protein_coding	KNOWN	CCDS46729	21592	378	125	48972118	49147744	1	None	TAFA-5
22	FAM19A5	ENSG00000219438	ENST00000473898	processed_transcript	KNOWN	None	21592	None	None	48972265	49146300	1	None	TAFA-5
22	FAM19A5	ENSG00000219438	ENST00000406880	protein_coding	PUTATIVE	None	21592	162	53	49089059	49146220	1	None	TAFA-5
18	MOCOS	ENSG00000075643	ENST00000261326	protein_coding	KNOWN	CCDS11919	18234	2667	888	33767482	33852120	1	None	HMCS, FLJ20733, MOS
18	MOCOS	ENSG00000075643	ENST00000588132	processed_transcript	KNOWN	None	18234	None	None	33836810	33846777	1	None	HMCS, FLJ20733, MOS
HSCHR6_MHC_MCF	LY6G5B	ENSG00000241132	ENST00000437674	protein_coding	KNOWN	None	13931	639	212	31713178	31717606	1	C6orf19	G5b
HSCHR6_MHC_MCF	LY6G5B	ENSG00000241132	ENST00000438439	retained_intron	KNOWN	None	13931	None	None	31714439	31717606	1	C6orf19	G5b
HSCHR6_MHC_MCF	LY6G5B	ENSG00000241132	ENST00000471674	protein_coding	KNOWN	None	13931	606	201	31715011	31717606	1	C6orf19	G5b
1	ADPRHL2	ENSG00000116863	ENST00000373178	protein_coding	KNOWN	CCDS402	21304	1092	363	36554476	36559533	1	None	ARH3, FLJ20446
12	KRT72	ENSG00000170486	ENST00000537672	protein_coding	KNOWN	CCDS8833	28932	1536	511	52979373	52995247	-1	None	K6IRS2, KRT6IRS2, KRT6, K6irs
12	KRT72	ENSG00000170486	ENST00000354310	protein_coding	KNOWN	CCDS53795	28932	1410	469	52979498	52995322	-1	None	K6IRS2, KRT6IRS2, KRT6, K6irs
12	KRT72	ENSG00000170486	ENST00000550829	nonsense_mediated_decay	KNOWN	None	28932	430	142	52979742	52995216	-1	None	K6IRS2, KRT6IRS2, KRT6, K6irs
12	KRT72	ENSG00000170486	ENST00000549979	protein_coding	NOVEL	None	28932	574	190	52992738	52995193	-1	None	K6IRS2, KRT6IRS2, KRT6, K6irs
12	KRT72	ENSG00000170486	ENST00000293745	protein_coding	KNOWN	CCDS8833	28932	1536	511	52979373	52995322	-1	None	K6IRS2, KRT6IRS2, KRT6, K6irs
12	KRT72	ENSG00000170486	ENST00000398066	protein_coding	KNOWN	None	28932	972	323	52979742	52995216	-1	None	K6IRS2, KRT6IRS2, KRT6, K6irs
3	PARP15	ENSG00000173200	ENST00000464300	protein_coding	KNOWN	CCDS46893	26876	2037	678	122296449	122355000	1	None	FLJ40597, pART7
3	PARP15	ENSG00000173200	ENST00000483793	protein_coding	NOVEL	None	26876	1452	483	122296475	122357894	1	None	FLJ40597, pART7
3	PARP15	ENSG00000173200	ENST00000465304	processed_transcript	KNOWN	None	26876	None	None	122313371	122354886	1	None	FLJ40597, pART7
3	PARP15	ENSG00000173200	ENST00000310366	protein_coding	KNOWN	CCDS3016	26876	1335	444	122334462	122355035	1	None	FLJ40597, pART7
3	PARP15	ENSG00000173200	ENST00000493645	protein_coding	NOVEL	None	26876	1128	375	122334462	122355035	1	None	FLJ40597, pART7
3	PARP15	ENSG00000173200	ENST00000473627	processed_transcript	KNOWN	None	26876	None	None	122340195	122351020	1	None	FLJ40597, pART7
18	GREB1L	ENSG00000141449	ENST00000584446	retained_intron	KNOWN	None	31042	None	None	18822203	19035091	1	KIAA1772	FLJ13687, C18orf6
18	GREB1L	ENSG00000141449	ENST00000269218	protein_coding	NOVEL	None	31042	5445	1814	18822319	19102782	1	KIAA1772	FLJ13687, C18orf6
18	GREB1L	ENSG00000141449	ENST00000580732	protein_coding	KNOWN	CCDS45836	31042	5772	1923	18943554	19102947	1	KIAA1772	FLJ13687, C18orf6
18	GREB1L	ENSG00000141449	ENST00000578368	processed_transcript	KNOWN	None	31042	None	None	18946002	19048845	1	KIAA1772	FLJ13687, C18orf6
18	GREB1L	ENSG00000141449	ENST00000579454	protein_coding	PUTATIVE	None	31042	598	198	18981187	19021368	1	KIAA1772	FLJ13687, C18orf6
18	GREB1L	ENSG00000141449	ENST00000581327	protein_coding	PUTATIVE	None	31042	528	175	19029596	19032394	1	KIAA1772	FLJ13687, C18orf6
18	GREB1L	ENSG00000141449	ENST00000580683	retained_intron	KNOWN	None	31042	None	None	19029702	19031331	1	KIAA1772	FLJ13687, C18orf6
18	GREB1L	ENSG00000141449	ENST00000578955	retained_intron	KNOWN	None	31042	None	None	19031060	19088676	1	KIAA1772	FLJ13687, C18orf6
18	GREB1L	ENSG00000141449	ENST00000578383	retained_intron	KNOWN	None	31042	None	None	19065330	19070192	1	KIAA1772	FLJ13687, C18orf6
18	GREB1L	ENSG00000141449	ENST00000580384	protein_coding	PUTATIVE	None	31042	568	188	19093864	19100700	1	KIAA1772	FLJ13687, C18orf6
18	GREB1L	ENSG00000141449	ENST00000424526	protein_coding	KNOWN	CCDS45836	31042	5772	1923	18822203	19102791	1	KIAA1772	FLJ13687, C18orf6
18	GREB1L	ENSG00000141449	ENST00000400483	protein_coding	KNOWN	None	31042	2229	742	18822203	19102791	1	KIAA1772	FLJ13687, C18orf6
18	GREB1L	ENSG00000141449	ENST00000431264	protein_coding	KNOWN	None	31042	2244	747	18822203	19048748	1	KIAA1772	FLJ13687, C18orf6
22	None	ENSG00000219016	ENST00000407505	protein_coding	PUTATIVE	None	None	390	129	48934712	48943199	-1	None	None
22	None	ENSG00000219016	ENST00000467207	processed_transcript	KNOWN	None	None	None	None	48934714	48943154	-1	None	None
22	None	ENSG00000219016	ENST00000463107	retained_intron	KNOWN	None	None	None	None	48939133	48943160	-1	None	None
Y	MTND2P3	ENSG00000234850	ENST00000452458	processed_pseudogene	KNOWN	None	38727	None	None	8240282	8240751	1	None	None
HSCHR6_MHC_SSTO	PSORS1C3	ENSG00000224056	ENST00000414348	processed_transcript	KNOWN	None	17203	None	None	31135606	31139772	-1	None	NCRNA00196
HSCHR6_MHC_QBL	SFTA2	ENSG00000206465	ENST00000383539	protein_coding	KNOWN	None	18386	237	78	30888704	30889526	-1	SFTPG	None
HSCHR6_MHC_QBL	SFTA2	ENSG00000206465	ENST00000460091	retained_intron	KNOWN	None	18386	None	None	30888704	30889460	-1	SFTPG	None
Y	TRIM60P3Y	ENSG00000227830	ENST00000432201	processed_pseudogene	KNOWN	None	38409	None	None	8281078	8282095	-1	TRIM60PY3	TRIM60P3
16	HEATR3	ENSG00000155393	ENST00000299192	protein_coding	KNOWN	CCDS10739	26087	2043	680	50099852	50140298	1	None	FLJ20718
16	HEATR3	ENSG00000155393	ENST00000561819	processed_transcript	KNOWN	None	26087	None	None	50099907	50104149	1	None	FLJ20718
16	HEATR3	ENSG00000155393	ENST00000569324	retained_intron	KNOWN	None	26087	None	None	50099917	50100759	1	None	FLJ20718
16	HEATR3	ENSG00000155393	ENST00000561525	retained_intron	KNOWN	None	26087	None	None	50112855	50118531	1	None	FLJ20718
16	HEATR3	ENSG00000155393	ENST00000564942	processed_transcript	KNOWN	None	26087	None	None	50113943	50128716	1	None	FLJ20718
16	HEATR3	ENSG00000155393	ENST00000285767	protein_coding	KNOWN	None	26087	1785	594	50099881	50139373	1	None	FLJ20718
Y	ZNF736P10Y	ENSG00000216824	ENST00000403990	processed_pseudogene	KNOWN	None	38410	None	None	8286832	8287941	-1	None	None
21	None	ENSG00000260561	ENST00000563657	processed_pseudogene	KNOWN	None	None	None	None	26818547	26818693	-1	None	None
19	ZNF534	ENSG00000198633	ENST00000301085	protein_coding	PUTATIVE	None	26337	582	193	52932440	52955568	1	KRBO3	FLJ25344
19	ZNF534	ENSG00000198633	ENST00000433050	protein_coding	KNOWN	CCDS46166	26337	1986	661	52934667	52942699	1	KRBO3	FLJ25344
19	ZNF534	ENSG00000198633	ENST00000332323	protein_coding	KNOWN	CCDS46165	26337	2025	674	52934667	52942699	1	KRBO3	FLJ25344
19	ZNF534	ENSG00000198633	ENST00000432303	protein_coding	PUTATIVE	None	26337	453	150	52934667	52955192	1	KRBO3	FLJ25344
21	None	ENSG00000238314	ENST00000459023	snoRNA	NOVEL	None	None	None	None	26842421	26842513	-1	None	None
21	None	ENSG00000229962	ENST00000419694	lincRNA	KNOWN	None	None	None	None	26887785	26890650	-1	None	None
Y	LINC00279	ENSG00000232348	ENST00000413486	lincRNA	KNOWN	None	38724	None	None	8506335	8512883	1	NCRNA00279	None
21	MIR155HG	ENSG00000234883	ENST00000456917	lincRNA	KNOWN	None	35460	None	None	26934221	26947480	1	MIRHG2	BIC, NCRNA00172
21	MIR155HG	ENSG00000234883	ENST00000385060	miRNA	KNOWN	None	35460	None	None	26946292	26946356	1	MIRHG2	BIC, NCRNA00172
1	NHLH2	ENSG00000177551	ENST00000320238	protein_coding	KNOWN	CCDS885	7818	408	135	116378998	116383747	-1	HEN2	NSCL2, bHLHa34
1	NHLH2	ENSG00000177551	ENST00000369506	protein_coding	KNOWN	CCDS885	7818	408	135	116379313	116386538	-1	HEN2	NSCL2, bHLHa34
1	NHLH2	ENSG00000177551	ENST00000429731	protein_coding	KNOWN	None	7818	321	106	116380673	116383362	-1	HEN2	NSCL2, bHLHa34
Y	TTTY18	ENSG00000233699	ENST00000438677	lincRNA	KNOWN	None	18842	None	None	8551411	8551919	-1	None	NCRNA00143
Y	TTTY19	ENSG00000232419	ENST00000453955	lincRNA	KNOWN	None	18843	None	None	8572513	8573324	1	None	NCRNA00144
21	LINC00515	ENSG00000260583	ENST00000567517	antisense	KNOWN	None	16019	None	None	26955082	26955638	-1	C21orf71	PRED21
Y	TTTY11	ENSG00000180910	ENST00000253470	lincRNA	KNOWN	None	18492	None	None	8651351	8685423	-1	None	TTY11, NCRNA00134
21	RNGTTP1	ENSG00000237731	ENST00000420965	processed_pseudogene	KNOWN	None	39652	None	None	27015801	27016528	1	None	None
21	FDX1P2	ENSG00000227054	ENST00000450769	processed_pseudogene	KNOWN	None	3641	None	None	27064492	27064866	1	FDXP2	None
19	GADD45GIP1	ENSG00000179271	ENST00000316939	protein_coding	KNOWN	CCDS12290	29996	669	222	13064972	13068050	-1	None	PLINP-1, MGC4667, MGC4758, CKBBP2, PRG6, Plinp1, CRIF1
21	None	ENSG00000235514	ENST00000436405	processed_pseudogene	KNOWN	None	None	None	None	27135249	27135644	-1	None	None
1	COL8A2	ENSG00000171812	ENST00000303143	protein_coding	KNOWN	CCDS403	2216	2112	703	36560837	36565850	-1	FECD	PPCD, PPCD2
1	COL8A2	ENSG00000171812	ENST00000397799	protein_coding	KNOWN	CCDS403	2216	2112	703	36560837	36590821	-1	FECD	PPCD, PPCD2
1	COL8A2	ENSG00000171812	ENST00000481785	protein_coding	KNOWN	None	2216	1917	638	36563108	36565850	-1	FECD	PPCD, PPCD2
22	C22orf34	ENSG00000188511	ENST00000414287	nonsense_mediated_decay	KNOWN	None	28010	180	59	49808176	50051152	-1	None	None
22	C22orf34	ENSG00000188511	ENST00000498829	processed_transcript	KNOWN	None	28010	None	None	49809425	49819086	-1	None	None
22	C22orf34	ENSG00000188511	ENST00000416411	nonsense_mediated_decay	KNOWN	None	28010	178	58	49829873	50051105	-1	None	None
22	C22orf34	ENSG00000188511	ENST00000343999	nonsense_mediated_decay	KNOWN	None	28010	759	252	50013290	50018568	-1	None	None
22	C22orf34	ENSG00000188511	ENST00000400023	protein_coding	KNOWN	None	28010	552	183	50013292	50051190	-1	None	None
22	C22orf34	ENSG00000188511	ENST00000405854	protein_coding	PUTATIVE	None	28010	588	195	50014119	50051078	-1	None	None
22	C22orf34	ENSG00000188511	ENST00000444628	protein_coding	KNOWN	None	28010	1089	362	50016805	50051190	-1	None	None
HSCHR6_MHC_MCF	LY6G5C	ENSG00000237495	ENST00000489528	processed_transcript	KNOWN	None	13932	None	None	31720744	31724424	-1	C6orf20	G5c, NG33
HSCHR6_MHC_MCF	LY6G5C	ENSG00000237495	ENST00000494009	retained_intron	KNOWN	None	13932	None	None	31720744	31724424	-1	C6orf20	G5c, NG33
HSCHR6_MHC_MCF	LY6G5C	ENSG00000237495	ENST00000458081	protein_coding	KNOWN	None	13932	453	150	31720744	31724437	-1	C6orf20	G5c, NG33
HSCHR6_MHC_MCF	LY6G5C	ENSG00000237495	ENST00000491575	processed_transcript	KNOWN	None	13932	None	None	31720744	31725536	-1	C6orf20	G5c, NG33
HSCHR6_MHC_MCF	LY6G5C	ENSG00000237495	ENST00000478907	processed_transcript	KNOWN	None	13932	None	None	31720744	31727270	-1	C6orf20	G5c, NG33
HSCHR6_MHC_MCF	LY6G5C	ENSG00000237495	ENST00000474525	processed_transcript	KNOWN	None	13932	None	None	31720744	31728100	-1	C6orf20	G5c, NG33
HSCHR6_MHC_MCF	LY6G5C	ENSG00000237495	ENST00000432980	protein_coding	KNOWN	None	13932	677	224	31720744	31728100	-1	C6orf20	G5c, NG33
HSCHR6_MHC_MCF	LY6G5C	ENSG00000237495	ENST00000480084	processed_transcript	KNOWN	None	13932	None	None	31725408	31726020	-1	C6orf20	G5c, NG33
HSCHR6_MHC_MCF	LY6G5C	ENSG00000237495	ENST00000550467	protein_coding	KNOWN	None	13932	447	148	31720744	31728100	-1	C6orf20	G5c, NG33
21	None	ENSG00000233783	ENST00000596385	antisense	KNOWN	None	None	None	None	27306401	27313956	1	None	None
21	None	ENSG00000233783	ENST00000599572	antisense	KNOWN	None	None	None	None	27306403	27307492	1	None	None
21	None	ENSG00000233783	ENST00000456904	antisense	KNOWN	None	None	None	None	27306612	27307584	1	None	None
21	None	ENSG00000233783	ENST00000597894	antisense	KNOWN	None	None	None	None	27306620	27314118	1	None	None
21	None	ENSG00000233783	ENST00000600590	antisense	KNOWN	None	None	None	None	27306626	27315001	1	None	None
21	None	ENSG00000233783	ENST00000596669	retained_intron	KNOWN	None	None	None	None	27306655	27307492	1	None	None
19	LRFN1	ENSG00000128011	ENST00000248668	protein_coding	KNOWN	CCDS46071	29290	2316	771	39797208	39805976	-1	None	KIAA1484, SALM2
19	DAND5	ENSG00000179284	ENST00000585548	protein_coding	PUTATIVE	None	26780	492	163	13075973	13085338	1	None	FLJ38607, CKTSF1B3, DANTE, GREM3, CER2, DTE
19	DAND5	ENSG00000179284	ENST00000317060	protein_coding	KNOWN	CCDS12291	26780	570	189	13080296	13085567	1	None	FLJ38607, CKTSF1B3, DANTE, GREM3, CER2, DTE
14	SNX6	ENSG00000129515	ENST00000396526	protein_coding	KNOWN	CCDS9648	14970	873	290	35030300	35099315	-1	None	None
14	SNX6	ENSG00000129515	ENST00000362031	protein_coding	KNOWN	CCDS41942	14970	1257	418	35031615	35099389	-1	None	None
14	SNX6	ENSG00000129515	ENST00000556162	nonsense_mediated_decay	KNOWN	None	14970	99	32	35031866	35099364	-1	None	None
14	SNX6	ENSG00000129515	ENST00000555416	nonsense_mediated_decay	KNOWN	None	14970	510	169	35037098	35099360	-1	None	None
14	SNX6	ENSG00000129515	ENST00000555541	retained_intron	KNOWN	None	14970	None	None	35044797	35055522	-1	None	None
14	SNX6	ENSG00000129515	ENST00000556712	nonsense_mediated_decay	KNOWN	None	14970	452	149	35055436	35099339	-1	None	None
14	SNX6	ENSG00000129515	ENST00000557265	protein_coding	NOVEL	None	14970	719	238	35055436	35099364	-1	None	None
14	SNX6	ENSG00000129515	ENST00000557341	nonsense_mediated_decay	KNOWN	None	14970	399	132	35072571	35099359	-1	None	None
14	SNX6	ENSG00000129515	ENST00000556303	retained_intron	KNOWN	None	14970	None	None	35074693	35099360	-1	None	None
14	SNX6	ENSG00000129515	ENST00000555648	protein_coding	PUTATIVE	None	14970	396	131	35074888	35098878	-1	None	None
14	SNX6	ENSG00000129515	ENST00000396534	protein_coding	KNOWN	CCDS9648	14970	873	290	35030618	35099315	-1	None	None
14	SNX6	ENSG00000129515	ENST00000355110	protein_coding	KNOWN	None	14970	885	294	35031866	35099364	-1	None	None
HSCHR6_MHC_COX	PRR3	ENSG00000228186	ENST00000432371	protein_coding	KNOWN	None	21149	567	188	30514508	30521345	1	None	CAT56, Em:AB014077.1, Em:AB023052.2
HSCHR6_MHC_COX	PRR3	ENSG00000228186	ENST00000422140	protein_coding	KNOWN	None	21149	504	167	30514902	30521345	1	None	CAT56, Em:AB014077.1, Em:AB023052.2
HSCHR6_MHC_COX	PRR3	ENSG00000228186	ENST00000460426	processed_transcript	KNOWN	None	21149	None	None	30514936	30521345	1	None	CAT56, Em:AB014077.1, Em:AB023052.2
HSCHR6_MHC_COX	PRR3	ENSG00000228186	ENST00000461523	processed_transcript	KNOWN	None	21149	None	None	30514938	30521345	1	None	CAT56, Em:AB014077.1, Em:AB023052.2
HSCHR6_MHC_COX	PRR3	ENSG00000228186	ENST00000469612	retained_intron	KNOWN	None	21149	None	None	30514969	30516058	1	None	CAT56, Em:AB014077.1, Em:AB023052.2
HSCHR6_MHC_COX	PRR3	ENSG00000228186	ENST00000464396	retained_intron	KNOWN	None	21149	None	None	30517653	30521345	1	None	CAT56, Em:AB014077.1, Em:AB023052.2
6	HDAC2	ENSG00000196591	ENST00000519065	protein_coding	KNOWN	CCDS43493	4853	1467	488	114254192	114292449	-1	None	RPD3, YAF1
6	HDAC2	ENSG00000196591	ENST00000523334	retained_intron	KNOWN	None	4853	None	None	114261882	114277766	-1	None	RPD3, YAF1
6	HDAC2	ENSG00000196591	ENST00000519108	protein_coding	PUTATIVE	None	4853	1377	458	114261882	114291888	-1	None	RPD3, YAF1
6	HDAC2	ENSG00000196591	ENST00000368632	protein_coding	PUTATIVE	None	4853	1377	458	114261882	114292321	-1	None	RPD3, YAF1
6	HDAC2	ENSG00000196591	ENST00000520746	retained_intron	KNOWN	None	4853	None	None	114266544	114270487	-1	None	RPD3, YAF1
6	HDAC2	ENSG00000196591	ENST00000518756	retained_intron	KNOWN	None	4853	None	None	114274564	114278450	-1	None	RPD3, YAF1
6	HDAC2	ENSG00000196591	ENST00000425835	protein_coding	PUTATIVE	None	4853	486	161	114277091	114292042	-1	None	RPD3, YAF1
6	HDAC2	ENSG00000196591	ENST00000523628	protein_coding	PUTATIVE	None	4853	310	102	114277274	114289694	-1	None	RPD3, YAF1
6	HDAC2	ENSG00000196591	ENST00000521610	protein_coding	PUTATIVE	None	4853	301	99	114277283	114291659	-1	None	RPD3, YAF1
6	HDAC2	ENSG00000196591	ENST00000522371	protein_coding	PUTATIVE	None	4853	258	85	114277793	114332472	-1	None	RPD3, YAF1
6	HDAC2	ENSG00000196591	ENST00000521163	protein_coding	NOVEL	None	4853	328	108	114277834	114292301	-1	None	RPD3, YAF1
6	HDAC2	ENSG00000196591	ENST00000518690	protein_coding	PUTATIVE	None	4853	213	70	114277838	114291893	-1	None	RPD3, YAF1
6	HDAC2	ENSG00000196591	ENST00000523240	protein_coding	PUTATIVE	None	4853	197	64	114277854	114291874	-1	None	RPD3, YAF1
6	HDAC2	ENSG00000196591	ENST00000521233	retained_intron	KNOWN	None	4853	None	None	114279591	114292300	-1	None	RPD3, YAF1
6	HDAC2	ENSG00000196591	ENST00000520895	protein_coding	PUTATIVE	None	4853	180	59	114279826	114292290	-1	None	RPD3, YAF1
6	HDAC2	ENSG00000196591	ENST00000524334	protein_coding	PUTATIVE	None	4853	158	51	114279848	114292303	-1	None	RPD3, YAF1
6	HDAC2	ENSG00000196591	ENST00000520170	retained_intron	KNOWN	None	4853	None	None	114280774	114292301	-1	None	RPD3, YAF1
6	HDAC2	ENSG00000196591	ENST00000398283	protein_coding	KNOWN	None	4853	1749	582	114257320	114292359	-1	None	RPD3, YAF1
HSCHR6_MHC_MCF	TAP2	ENSG00000237599	ENST00000445986	protein_coding	PUTATIVE	None	44	1962	653	32823109	32839982	-1	ABCB3	PSF2, RING11, D6S217E
HSCHR6_MHC_MCF	TAP2	ENSG00000237599	ENST00000419142	protein_coding	KNOWN	None	44	2061	686	32826683	32840035	-1	ABCB3	PSF2, RING11, D6S217E
HSCHR6_MHC_MCF	TAP2	ENSG00000237599	ENST00000481574	retained_intron	KNOWN	None	44	None	None	32830212	32831995	-1	ABCB3	PSF2, RING11, D6S217E
HSCHR6_MHC_MCF	TAP2	ENSG00000237599	ENST00000460458	processed_transcript	PUTATIVE	None	44	None	None	32833563	32834001	-1	ABCB3	PSF2, RING11, D6S217E
11	SORL1	ENSG00000137642	ENST00000260197	protein_coding	KNOWN	CCDS8436	11185	6645	2214	121322912	121504402	1	C11orf32	gp250, LR11, LRP9, SorLA, SorLA-1
11	SORL1	ENSG00000137642	ENST00000532451	processed_transcript	KNOWN	None	11185	None	None	121323089	121417733	1	C11orf32	gp250, LR11, LRP9, SorLA, SorLA-1
11	SORL1	ENSG00000137642	ENST00000529445	retained_intron	KNOWN	None	11185	None	None	121425751	121429546	1	C11orf32	gp250, LR11, LRP9, SorLA, SorLA-1
11	SORL1	ENSG00000137642	ENST00000524873	retained_intron	KNOWN	None	11185	None	None	121427724	121429482	1	C11orf32	gp250, LR11, LRP9, SorLA, SorLA-1
11	SORL1	ENSG00000137642	ENST00000525532	protein_coding	PUTATIVE	None	11185	3477	1158	121437434	121500393	1	C11orf32	gp250, LR11, LRP9, SorLA, SorLA-1
11	SORL1	ENSG00000137642	ENST00000532694	protein_coding	PUTATIVE	None	11185	3183	1060	121447469	121500400	1	C11orf32	gp250, LR11, LRP9, SorLA, SorLA-1
11	SORL1	ENSG00000137642	ENST00000534286	protein_coding	PUTATIVE	None	11185	3375	1124	121447547	121500387	1	C11orf32	gp250, LR11, LRP9, SorLA, SorLA-1
11	SORL1	ENSG00000137642	ENST00000527934	protein_coding	PUTATIVE	None	11185	2490	829	121461128	121500393	1	C11orf32	gp250, LR11, LRP9, SorLA, SorLA-1
11	SORL1	ENSG00000137642	ENST00000528339	retained_intron	KNOWN	None	11185	None	None	121478909	121491949	1	C11orf32	gp250, LR11, LRP9, SorLA, SorLA-1
11	SORL1	ENSG00000137642	ENST00000534754	retained_intron	KNOWN	None	11185	None	None	121481961	121491943	1	C11orf32	gp250, LR11, LRP9, SorLA, SorLA-1
11	SORL1	ENSG00000137642	ENST00000524633	retained_intron	KNOWN	None	11185	None	None	121484995	121492978	1	C11orf32	gp250, LR11, LRP9, SorLA, SorLA-1
11	SORL1	ENSG00000137642	ENST00000527649	retained_intron	KNOWN	None	11185	None	None	121496910	121500402	1	C11orf32	gp250, LR11, LRP9, SorLA, SorLA-1
11	SORL1	ENSG00000137642	ENST00000530365	retained_intron	KNOWN	None	11185	None	None	121499545	121502949	1	C11orf32	gp250, LR11, LRP9, SorLA, SorLA-1
4	SPOCK3	ENSG00000196104	ENST00000357154	protein_coding	KNOWN	CCDS54817	13565	1311	436	167654535	168155738	-1	None	testican-3
4	SPOCK3	ENSG00000196104	ENST00000357545	protein_coding	KNOWN	CCDS34095	13565	1302	433	167654538	168155700	-1	None	testican-3
4	SPOCK3	ENSG00000196104	ENST00000504953	protein_coding	KNOWN	CCDS34095	13565	1302	433	167654538	168155908	-1	None	testican-3
4	SPOCK3	ENSG00000196104	ENST00000511531	protein_coding	KNOWN	None	13565	1311	436	167654539	168155908	-1	None	testican-3
4	SPOCK3	ENSG00000196104	ENST00000506886	protein_coding	KNOWN	CCDS54817	13565	1311	436	167654539	168155947	-1	None	testican-3
4	SPOCK3	ENSG00000196104	ENST00000507137	processed_transcript	KNOWN	None	13565	None	None	167655298	168023708	-1	None	testican-3
4	SPOCK3	ENSG00000196104	ENST00000510741	protein_coding	NOVEL	CCDS56346	13565	1182	393	167655336	168155645	-1	None	testican-3
4	SPOCK3	ENSG00000196104	ENST00000502330	protein_coding	KNOWN	None	13565	1311	436	167655336	168155733	-1	None	testican-3
4	SPOCK3	ENSG00000196104	ENST00000511905	nonsense_mediated_decay	KNOWN	None	13565	240	79	167655632	168155577	-1	None	testican-3
4	SPOCK3	ENSG00000196104	ENST00000512681	protein_coding	NOVEL	CCDS58931	13565	1017	338	167655674	168155642	-1	None	testican-3
4	SPOCK3	ENSG00000196104	ENST00000511269	protein_coding	KNOWN	CCDS34095	13565	1302	433	167655699	168155417	-1	None	testican-3
4	SPOCK3	ENSG00000196104	ENST00000507370	nonsense_mediated_decay	KNOWN	None	13565	216	71	167655746	168155643	-1	None	testican-3
4	SPOCK3	ENSG00000196104	ENST00000502821	nonsense_mediated_decay	KNOWN	None	13565	192	63	167655749	168155643	-1	None	testican-3
4	SPOCK3	ENSG00000196104	ENST00000505187	nonsense_mediated_decay	KNOWN	None	13565	195	64	167655785	168155645	-1	None	testican-3
4	SPOCK3	ENSG00000196104	ENST00000512648	protein_coding	PUTATIVE	CCDS56347	13565	942	313	167675237	168155703	-1	None	testican-3
4	SPOCK3	ENSG00000196104	ENST00000510403	protein_coding	NOVEL	None	13565	518	171	167675718	168155645	-1	None	testican-3
4	SPOCK3	ENSG00000196104	ENST00000515143	nonsense_mediated_decay	KNOWN	None	13565	252	83	167675793	168155216	-1	None	testican-3
4	SPOCK3	ENSG00000196104	ENST00000511226	nonsense_mediated_decay	KNOWN	None	13565	240	79	167713423	168155577	-1	None	testican-3
4	SPOCK3	ENSG00000196104	ENST00000507086	nonsense_mediated_decay	KNOWN	None	13565	369	122	167803974	168155713	-1	None	testican-3
4	SPOCK3	ENSG00000196104	ENST00000502741	nonsense_mediated_decay	KNOWN	None	13565	369	122	167803974	168155713	-1	None	testican-3
4	SPOCK3	ENSG00000196104	ENST00000509854	protein_coding	KNOWN	None	13565	483	160	167810387	168155577	-1	None	testican-3
4	SPOCK3	ENSG00000196104	ENST00000515316	nonsense_mediated_decay	KNOWN	None	13565	270	89	167833845	168155643	-1	None	testican-3
4	SPOCK3	ENSG00000196104	ENST00000506697	protein_coding	KNOWN	None	13565	346	114	167921513	168155483	-1	None	testican-3
4	SPOCK3	ENSG00000196104	ENST00000512042	protein_coding	KNOWN	None	13565	346	114	167921513	168155483	-1	None	testican-3
4	SPOCK3	ENSG00000196104	ENST00000541637	protein_coding	KNOWN	CCDS58931	13565	1017	338	167656072	168155324	-1	None	testican-3
4	SPOCK3	ENSG00000196104	ENST00000534949	protein_coding	KNOWN	CCDS56345	13565	1023	340	167656072	168155206	-1	None	testican-3
4	SPOCK3	ENSG00000196104	ENST00000421836	protein_coding	KNOWN	CCDS56344	13565	1158	385	167655749	168155643	-1	None	testican-3
4	SPOCK3	ENSG00000196104	ENST00000535728	protein_coding	KNOWN	None	13565	915	304	167655746	168155214	-1	None	testican-3
4	SPOCK3	ENSG00000196104	ENST00000541354	protein_coding	KNOWN	CCDS56343	13565	951	316	167655632	168155577	-1	None	testican-3
17	None	ENSG00000267618	ENST00000593039	protein_coding	KNOWN	None	None	819	272	33338368	33448512	-1	None	None
17	None	ENSG00000267618	ENST00000591723	protein_coding	PUTATIVE	None	None	384	127	33343588	33448468	-1	None	None
17	None	ENSG00000267618	ENST00000592181	protein_coding	PUTATIVE	None	None	612	203	33353515	33447084	-1	None	None
6	GSTA3	ENSG00000174156	ENST00000370968	protein_coding	KNOWN	None	4628	519	172	52761437	52774464	-1	None	None
6	GSTA3	ENSG00000174156	ENST00000211122	protein_coding	KNOWN	CCDS4947	4628	669	222	52761437	52774483	-1	None	None
6	GSTA3	ENSG00000174156	ENST00000431899	protein_coding	KNOWN	None	4628	325	107	52762640	52770620	-1	None	None
1	SLC22A15	ENSG00000163393	ENST00000369503	protein_coding	KNOWN	CCDS44198	20301	1644	547	116519119	116612675	1	None	FLIPT1
1	SLC22A15	ENSG00000163393	ENST00000369502	protein_coding	KNOWN	None	20301	738	245	116519235	116574511	1	None	FLIPT1
1	SLC22A15	ENSG00000163393	ENST00000481127	processed_transcript	KNOWN	None	20301	None	None	116575298	116580148	1	None	FLIPT1
17	TMC6	ENSG00000141524	ENST00000590602	protein_coding	KNOWN	CCDS32748	18021	2418	805	76106539	76124778	-1	EVER1	LAK-4P, EVIN1
17	TMC6	ENSG00000141524	ENST00000592076	processed_transcript	PUTATIVE	None	18021	None	None	76109000	76119204	-1	EVER1	LAK-4P, EVIN1
17	TMC6	ENSG00000141524	ENST00000392467	protein_coding	KNOWN	CCDS32748	18021	2418	805	76109002	76123101	-1	EVER1	LAK-4P, EVIN1
17	TMC6	ENSG00000141524	ENST00000322914	protein_coding	KNOWN	CCDS32748	18021	2418	805	76109002	76128488	-1	EVER1	LAK-4P, EVIN1
17	TMC6	ENSG00000141524	ENST00000590494	retained_intron	KNOWN	None	18021	None	None	76109003	76110040	-1	EVER1	LAK-4P, EVIN1
17	TMC6	ENSG00000141524	ENST00000306591	protein_coding	KNOWN	None	18021	1365	454	76109006	76124711	-1	EVER1	LAK-4P, EVIN1
17	TMC6	ENSG00000141524	ENST00000593044	retained_intron	KNOWN	None	18021	None	None	76109157	76124853	-1	EVER1	LAK-4P, EVIN1
17	TMC6	ENSG00000141524	ENST00000591436	protein_coding	KNOWN	None	18021	1155	384	76109229	76118829	-1	EVER1	LAK-4P, EVIN1
17	TMC6	ENSG00000141524	ENST00000589933	retained_intron	KNOWN	None	18021	None	None	76113397	76114253	-1	EVER1	LAK-4P, EVIN1
17	TMC6	ENSG00000141524	ENST00000590934	processed_transcript	KNOWN	None	18021	None	None	76115052	76116800	-1	EVER1	LAK-4P, EVIN1
17	TMC6	ENSG00000141524	ENST00000591756	retained_intron	KNOWN	None	18021	None	None	76115143	76116877	-1	EVER1	LAK-4P, EVIN1
17	TMC6	ENSG00000141524	ENST00000588087	retained_intron	KNOWN	None	18021	None	None	76116258	76124811	-1	EVER1	LAK-4P, EVIN1
17	TMC6	ENSG00000141524	ENST00000589553	protein_coding	KNOWN	None	18021	897	298	76116258	76124863	-1	EVER1	LAK-4P, EVIN1
17	TMC6	ENSG00000141524	ENST00000585849	retained_intron	KNOWN	None	18021	None	None	76118641	76120431	-1	EVER1	LAK-4P, EVIN1
17	TMC6	ENSG00000141524	ENST00000586271	retained_intron	KNOWN	None	18021	None	None	76120260	76121970	-1	EVER1	LAK-4P, EVIN1
17	TMC6	ENSG00000141524	ENST00000589271	protein_coding	KNOWN	None	18021	857	284	76120639	76124839	-1	EVER1	LAK-4P, EVIN1
17	TMC6	ENSG00000141524	ENST00000591594	retained_intron	KNOWN	None	18021	None	None	76121161	76122913	-1	EVER1	LAK-4P, EVIN1
17	TMC6	ENSG00000141524	ENST00000592063	protein_coding	KNOWN	None	18021	461	152	76121314	76124832	-1	EVER1	LAK-4P, EVIN1
17	TMC6	ENSG00000141524	ENST00000592594	protein_coding	KNOWN	None	18021	430	142	76121807	76126764	-1	EVER1	LAK-4P, EVIN1
17	TMC6	ENSG00000141524	ENST00000586126	nonsense_mediated_decay	KNOWN	None	18021	126	41	76121835	76127478	-1	EVER1	LAK-4P, EVIN1
17	TMC6	ENSG00000141524	ENST00000588792	retained_intron	KNOWN	None	18021	None	None	76122004	76124836	-1	EVER1	LAK-4P, EVIN1
17	TMC6	ENSG00000141524	ENST00000586697	retained_intron	KNOWN	None	18021	None	None	76122146	76124836	-1	EVER1	LAK-4P, EVIN1
17	TMC6	ENSG00000141524	ENST00000590162	retained_intron	KNOWN	None	18021	None	None	76122277	76123078	-1	EVER1	LAK-4P, EVIN1
17	TMC6	ENSG00000141524	ENST00000587480	processed_transcript	PUTATIVE	None	18021	None	None	76128231	76128483	-1	EVER1	LAK-4P, EVIN1
17	TMC6	ENSG00000141524	ENST00000322933	protein_coding	KNOWN	None	18021	1155	384	76108999	76124861	-1	EVER1	LAK-4P, EVIN1
18	WDR7	ENSG00000091157	ENST00000589935	protein_coding	PUTATIVE	None	13490	204	67	54318574	54694544	1	None	KIAA0541, TRAG
18	WDR7	ENSG00000091157	ENST00000357574	protein_coding	KNOWN	CCDS11963	13490	4374	1457	54318592	54697042	1	None	KIAA0541, TRAG
18	WDR7	ENSG00000091157	ENST00000254442	protein_coding	KNOWN	CCDS11962	13490	4473	1490	54318616	54698828	1	None	KIAA0541, TRAG
18	WDR7	ENSG00000091157	ENST00000593058	protein_coding	KNOWN	None	13490	507	168	54318906	54350071	1	None	KIAA0541, TRAG
18	WDR7	ENSG00000091157	ENST00000585754	retained_intron	KNOWN	None	13490	None	None	54361878	54363726	1	None	KIAA0541, TRAG
18	WDR7	ENSG00000091157	ENST00000587403	protein_coding	PUTATIVE	None	13490	311	102	54388681	54423929	1	None	KIAA0541, TRAG
18	WDR7	ENSG00000091157	ENST00000590557	protein_coding	PUTATIVE	None	13490	528	175	54388716	54424089	1	None	KIAA0541, TRAG
18	WDR7	ENSG00000091157	ENST00000585824	protein_coding	PUTATIVE	None	13490	959	318	54388767	54424577	1	None	KIAA0541, TRAG
18	WDR7	ENSG00000091157	ENST00000591524	retained_intron	KNOWN	None	13490	None	None	54424556	54449399	1	None	KIAA0541, TRAG
18	WDR7	ENSG00000091157	ENST00000586124	protein_coding	PUTATIVE	None	13490	569	188	54558064	54605911	1	None	KIAA0541, TRAG
18	WDR7	ENSG00000091157	ENST00000591449	nonsense_mediated_decay	KNOWN	None	13490	188	61	54603075	54688053	1	None	KIAA0541, TRAG
18	WDR7	ENSG00000091157	ENST00000585669	protein_coding	PUTATIVE	None	13490	122	39	54629666	54677545	1	None	KIAA0541, TRAG
HSCHR6_MHC_QBL	DPCR1	ENSG00000229284	ENST00000414703	protein_coding	KNOWN	None	21666	1524	507	30908475	30911572	1	None	PBLT, bCX105N19.6
HSCHR6_MHC_QBL	DPCR1	ENSG00000229284	ENST00000547331	protein_coding	KNOWN	None	21666	1554	517	30898353	30910604	1	None	PBLT, bCX105N19.6
5	FAM114A2	ENSG00000055147	ENST00000351797	protein_coding	KNOWN	CCDS4323	1333	1518	505	153369688	153418479	-1	C5orf3	133K02
5	FAM114A2	ENSG00000055147	ENST00000522858	protein_coding	KNOWN	CCDS4323	1333	1518	505	153371263	153418426	-1	C5orf3	133K02
5	FAM114A2	ENSG00000055147	ENST00000520667	protein_coding	KNOWN	CCDS4323	1333	1518	505	153372059	153418481	-1	C5orf3	133K02
5	FAM114A2	ENSG00000055147	ENST00000518914	processed_transcript	KNOWN	None	1333	None	None	153372248	153377386	-1	C5orf3	133K02
5	FAM114A2	ENSG00000055147	ENST00000518946	processed_transcript	KNOWN	None	1333	None	None	153372274	153374867	-1	C5orf3	133K02
5	FAM114A2	ENSG00000055147	ENST00000520313	protein_coding	NOVEL	None	1333	1308	435	153372515	153418467	-1	C5orf3	133K02
5	FAM114A2	ENSG00000055147	ENST00000518735	processed_transcript	PUTATIVE	None	1333	None	None	153405872	153406941	-1	C5orf3	133K02
5	FAM114A2	ENSG00000055147	ENST00000517803	processed_transcript	KNOWN	None	1333	None	None	153406855	153418481	-1	C5orf3	133K02
5	FAM114A2	ENSG00000055147	ENST00000522395	protein_coding	KNOWN	None	1333	630	209	153407709	153418496	-1	C5orf3	133K02
5	FAM114A2	ENSG00000055147	ENST00000518900	processed_transcript	KNOWN	None	1333	None	None	153407803	153418470	-1	C5orf3	133K02
5	FAM114A2	ENSG00000055147	ENST00000523705	protein_coding	KNOWN	None	1333	499	165	153407840	153418458	-1	C5orf3	133K02
5	FAM114A2	ENSG00000055147	ENST00000519808	protein_coding	KNOWN	None	1333	377	124	153413377	153418492	-1	C5orf3	133K02
5	FAM114A2	ENSG00000055147	ENST00000518102	protein_coding	KNOWN	None	1333	310	102	153413838	153418470	-1	C5orf3	133K02
5	FAM114A2	ENSG00000055147	ENST00000522634	protein_coding	KNOWN	None	1333	238	78	153413910	153418440	-1	C5orf3	133K02
5	FAM114A2	ENSG00000055147	ENST00000517605	protein_coding	KNOWN	None	1333	191	62	153414323	153416870	-1	C5orf3	133K02
5	FAM114A2	ENSG00000055147	ENST00000521031	processed_transcript	KNOWN	None	1333	None	None	153414323	153418307	-1	C5orf3	133K02
5	FAM114A2	ENSG00000055147	ENST00000524246	protein_coding	KNOWN	None	1333	46	14	153414468	153418458	-1	C5orf3	133K02
1	TRAPPC3	ENSG00000054116	ENST00000373166	protein_coding	KNOWN	CCDS404	19942	543	180	36602173	36615070	-1	None	BET3
1	TRAPPC3	ENSG00000054116	ENST00000462715	processed_transcript	KNOWN	None	19942	None	None	36602182	36606599	-1	None	BET3
1	TRAPPC3	ENSG00000054116	ENST00000373163	protein_coding	KNOWN	CCDS59194	19942	405	134	36602546	36615052	-1	None	BET3
1	TRAPPC3	ENSG00000054116	ENST00000373162	protein_coding	KNOWN	CCDS59194	19942	405	134	36602655	36615098	-1	None	BET3
1	TRAPPC3	ENSG00000054116	ENST00000469757	processed_transcript	KNOWN	None	19942	None	None	36602863	36615097	-1	None	BET3
1	TRAPPC3	ENSG00000054116	ENST00000373159	protein_coding	KNOWN	None	19942	357	118	36603497	36615097	-1	None	BET3
1	TRAPPC3	ENSG00000054116	ENST00000497251	processed_transcript	KNOWN	None	19942	None	None	36605000	36614888	-1	None	BET3
7	S100A11P2	ENSG00000236592	ENST00000467589	processed_pseudogene	KNOWN	None	37840	None	None	35208836	35209147	1	None	None
7	S100A11P2	ENSG00000236592	ENST00000598427	processed_pseudogene	KNOWN	None	37840	None	None	35208836	35209150	1	None	None
Y	None	ENSG00000228207	ENST00000432613	unprocessed_pseudogene	KNOWN	None	None	None	None	8769244	8771317	-1	None	None
10	MCMBP	ENSG00000197771	ENST00000360003	protein_coding	KNOWN	CCDS7617	25782	1929	642	121588972	121632266	-1	C10orf119	FLJ13081, MCM-BP
10	MCMBP	ENSG00000197771	ENST00000369077	protein_coding	KNOWN	CCDS58099	25782	1923	640	121590709	121632361	-1	C10orf119	FLJ13081, MCM-BP
10	MCMBP	ENSG00000197771	ENST00000466047	processed_transcript	KNOWN	None	25782	None	None	121590713	121633133	-1	C10orf119	FLJ13081, MCM-BP
10	MCMBP	ENSG00000197771	ENST00000495407	processed_transcript	KNOWN	None	25782	None	None	121602294	121617749	-1	C10orf119	FLJ13081, MCM-BP
10	MCMBP	ENSG00000197771	ENST00000569515	processed_transcript	KNOWN	None	25782	None	None	121618562	121652068	-1	C10orf119	FLJ13081, MCM-BP
HSCHR6_MHC_QBL	None	ENSG00000206463	ENST00000469642	processed_transcript	KNOWN	None	None	None	None	30941083	30943774	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000206463	ENST00000383535	protein_coding	KNOWN	None	None	1881	626	30941083	30947468	1	None	None
HSCHR6_MHC_QBL	None	ENSG00000206463	ENST00000551904	protein_coding	KNOWN	None	None	1701	566	30941073	30947463	1	None	None
20	DDX27	ENSG00000124228	ENST00000371764	protein_coding	KNOWN	CCDS13416	15837	2391	796	47835884	47860614	1	None	dJ686N3.1, DRS1
20	DDX27	ENSG00000124228	ENST00000484427	processed_transcript	KNOWN	None	15837	None	None	47835884	47860614	1	None	dJ686N3.1, DRS1
20	DDX27	ENSG00000124228	ENST00000462328	processed_transcript	KNOWN	None	15837	None	None	47835969	47843003	1	None	dJ686N3.1, DRS1
20	DDX27	ENSG00000124228	ENST00000493252	processed_transcript	KNOWN	None	15837	None	None	47841491	47850180	1	None	dJ686N3.1, DRS1
20	DDX27	ENSG00000124228	ENST00000471144	processed_transcript	KNOWN	None	15837	None	None	47850375	47860614	1	None	dJ686N3.1, DRS1
1	LAD1	ENSG00000159166	ENST00000503578	protein_coding	PUTATIVE	None	6472	579	192	201342372	201354912	-1	None	None
1	LAD1	ENSG00000159166	ENST00000391967	protein_coding	KNOWN	CCDS1410	6472	1554	517	201349966	201368736	-1	None	None
1	LAD1	ENSG00000159166	ENST00000367313	protein_coding	KNOWN	None	6472	1596	531	201350335	201368676	-1	None	None
1	LAD1	ENSG00000159166	ENST00000475136	processed_transcript	KNOWN	None	6472	None	None	201351412	201352336	-1	None	None
1	LAD1	ENSG00000159166	ENST00000488842	processed_transcript	KNOWN	None	6472	None	None	201351814	201352701	-1	None	None
7	COG5	ENSG00000164597	ENST00000347053	protein_coding	KNOWN	CCDS5743	14857	2520	839	106842000	107204485	-1	GOLTC1	GTC90
7	COG5	ENSG00000164597	ENST00000297135	protein_coding	KNOWN	CCDS5742	14857	2583	860	106843009	107204959	-1	GOLTC1	GTC90
7	COG5	ENSG00000164597	ENST00000393603	protein_coding	KNOWN	CCDS55152	14857	2472	823	106848293	107204706	-1	GOLTC1	GTC90
7	COG5	ENSG00000164597	ENST00000464542	retained_intron	KNOWN	None	14857	None	None	106850900	106893692	-1	GOLTC1	GTC90
7	COG5	ENSG00000164597	ENST00000468350	processed_transcript	KNOWN	None	14857	None	None	106877000	106899065	-1	GOLTC1	GTC90
7	COG5	ENSG00000164597	ENST00000462342	retained_intron	KNOWN	None	14857	None	None	106877100	106899065	-1	GOLTC1	GTC90
7	COG5	ENSG00000164597	ENST00000484237	processed_transcript	KNOWN	None	14857	None	None	107002513	107121387	-1	GOLTC1	GTC90
7	COG5	ENSG00000164597	ENST00000475638	processed_transcript	KNOWN	None	14857	None	None	107013040	107189704	-1	GOLTC1	GTC90
7	COG5	ENSG00000164597	ENST00000605888	protein_coding	PUTATIVE	None	14857	538	178	107167682	107204379	-1	GOLTC1	GTC90
7	COG5	ENSG00000164597	ENST00000469503	retained_intron	KNOWN	None	14857	None	None	107188443	107188777	-1	GOLTC1	GTC90
1	MAB21L3	ENSG00000173212	ENST00000369500	protein_coding	KNOWN	CCDS886	26787	1089	362	116654376	116677861	1	C1orf161	FLJ38716
1	MAB21L3	ENSG00000173212	ENST00000464946	processed_transcript	KNOWN	None	26787	None	None	116666494	116670868	1	C1orf161	FLJ38716
2	COBLL1	ENSG00000082438	ENST00000495084	processed_transcript	KNOWN	None	23571	None	None	165510134	165548856	-1	None	KIAA0977
2	COBLL1	ENSG00000082438	ENST00000375458	protein_coding	KNOWN	None	23571	3387	1128	165536698	165697928	-1	None	KIAA0977
2	COBLL1	ENSG00000082438	ENST00000342193	protein_coding	KNOWN	CCDS2223	23571	3501	1166	165541275	165697922	-1	None	KIAA0977
2	COBLL1	ENSG00000082438	ENST00000409184	protein_coding	KNOWN	None	23571	3501	1166	165541326	165698535	-1	None	KIAA0977
2	COBLL1	ENSG00000082438	ENST00000493868	retained_intron	KNOWN	None	23571	None	None	165541335	165581517	-1	None	KIAA0977
2	COBLL1	ENSG00000082438	ENST00000489955	retained_intron	KNOWN	None	23571	None	None	165542331	165554810	-1	None	KIAA0977
2	COBLL1	ENSG00000082438	ENST00000493713	processed_transcript	KNOWN	None	23571	None	None	165549147	165551247	-1	None	KIAA0977
2	COBLL1	ENSG00000082438	ENST00000456171	nonsense_mediated_decay	KNOWN	None	23571	1275	424	165557063	165698333	-1	None	KIAA0977
2	COBLL1	ENSG00000082438	ENST00000491126	processed_transcript	KNOWN	None	23571	None	None	165557117	165698914	-1	None	KIAA0977
2	COBLL1	ENSG00000082438	ENST00000460238	retained_intron	KNOWN	None	23571	None	None	165557188	165561887	-1	None	KIAA0977
2	COBLL1	ENSG00000082438	ENST00000434366	processed_transcript	KNOWN	None	23571	None	None	165561462	165698333	-1	None	KIAA0977
2	COBLL1	ENSG00000082438	ENST00000474975	retained_intron	KNOWN	None	23571	None	None	165578327	165579001	-1	None	KIAA0977
2	COBLL1	ENSG00000082438	ENST00000452626	protein_coding	PUTATIVE	None	23571	772	256	165578816	165630264	-1	None	KIAA0977
2	COBLL1	ENSG00000082438	ENST00000456693	protein_coding	NOVEL	None	23571	656	217	165579002	165698624	-1	None	KIAA0977
2	COBLL1	ENSG00000082438	ENST00000448708	protein_coding	KNOWN	None	23571	471	156	165584669	165700189	-1	None	KIAA0977
2	COBLL1	ENSG00000082438	ENST00000439313	protein_coding	PUTATIVE	None	23571	490	162	165584671	165697731	-1	None	KIAA0977
2	COBLL1	ENSG00000082438	ENST00000444537	protein_coding	PUTATIVE	None	23571	511	169	165584695	165698333	-1	None	KIAA0977
2	COBLL1	ENSG00000082438	ENST00000414843	protein_coding	KNOWN	None	23571	416	137	165586440	165698360	-1	None	KIAA0977
2	COBLL1	ENSG00000082438	ENST00000445474	protein_coding	NOVEL	None	23571	421	139	165586570	165698684	-1	None	KIAA0977
2	COBLL1	ENSG00000082438	ENST00000493921	processed_transcript	KNOWN	None	23571	None	None	165594756	165628556	-1	None	KIAA0977
2	COBLL1	ENSG00000082438	ENST00000480873	retained_intron	KNOWN	None	23571	None	None	165599699	165630243	-1	None	KIAA0977
2	COBLL1	ENSG00000082438	ENST00000483743	retained_intron	KNOWN	None	23571	None	None	165599964	165698494	-1	None	KIAA0977
2	COBLL1	ENSG00000082438	ENST00000496396	retained_intron	KNOWN	None	23571	None	None	165599964	165698650	-1	None	KIAA0977
2	COBLL1	ENSG00000082438	ENST00000194871	protein_coding	KNOWN	None	23571	3702	1233	165542414	165698678	-1	None	KIAA0977
2	COBLL1	ENSG00000082438	ENST00000392717	protein_coding	KNOWN	None	23571	3615	1204	165541327	165698535	-1	None	KIAA0977
7	None	ENSG00000226063	ENST00000442323	lincRNA	KNOWN	None	None	None	None	35297992	35299340	-1	None	None
HSCHR6_MHC_SSTO	MICA	ENSG00000231225	ENST00000438928	protein_coding	KNOWN	None	7090	585	194	31360501	31376032	1	None	PERB11.1
HSCHR6_MHC_SSTO	MICA	ENSG00000231225	ENST00000486844	processed_transcript	KNOWN	None	7090	None	None	31361364	31371514	1	None	PERB11.1
HSCHR6_MHC_SSTO	MICA	ENSG00000231225	ENST00000415525	protein_coding	KNOWN	None	7090	999	332	31361466	31376032	1	None	PERB11.1
HSCHR6_MHC_SSTO	MICA	ENSG00000231225	ENST00000414473	protein_coding	KNOWN	None	7090	870	289	31364255	31376956	1	None	PERB11.1
HSCHR6_MHC_SSTO	MICA	ENSG00000231225	ENST00000423443	protein_coding	KNOWN	None	7090	672	223	31364388	31376032	1	None	PERB11.1
HSCHR6_MHC_SSTO	MICA	ENSG00000231225	ENST00000489335	retained_intron	KNOWN	None	7090	None	None	31371580	31373177	1	None	PERB11.1
HSCHR6_MHC_SSTO	MICA	ENSG00000231225	ENST00000546529	protein_coding	KNOWN	None	7090	999	332	31364310	31376030	1	None	PERB11.1
19	GMFG	ENSG00000130755	ENST00000601387	protein_coding	PUTATIVE	None	4374	306	101	39818993	39826657	-1	None	None
19	GMFG	ENSG00000130755	ENST00000597595	protein_coding	KNOWN	CCDS12532	4374	429	142	39818997	39826825	-1	None	None
19	GMFG	ENSG00000130755	ENST00000596583	nonsense_mediated_decay	KNOWN	None	4374	180	59	39818999	39826171	-1	None	None
19	GMFG	ENSG00000130755	ENST00000595207	nonsense_mediated_decay	KNOWN	None	4374	183	60	39818999	39826645	-1	None	None
19	GMFG	ENSG00000130755	ENST00000598034	protein_coding	PUTATIVE	None	4374	417	138	39818999	39826646	-1	None	None
19	GMFG	ENSG00000130755	ENST00000600322	protein_coding	KNOWN	None	4374	330	109	39819002	39833012	-1	None	None
19	GMFG	ENSG00000130755	ENST00000602185	protein_coding	NOVEL	None	4374	282	93	39819005	39826645	-1	None	None
19	GMFG	ENSG00000130755	ENST00000253054	protein_coding	PUTATIVE	None	4374	330	109	39819005	39826668	-1	None	None
19	GMFG	ENSG00000130755	ENST00000601731	nonsense_mediated_decay	KNOWN	None	4374	36	11	39819005	39826677	-1	None	None
19	GMFG	ENSG00000130755	ENST00000594700	protein_coding	NOVEL	None	4374	222	73	39819005	39826679	-1	None	None
19	GMFG	ENSG00000130755	ENST00000595636	protein_coding	PUTATIVE	None	4374	240	79	39819024	39826664	-1	None	None
19	GMFG	ENSG00000130755	ENST00000598218	retained_intron	KNOWN	None	4374	None	None	39823544	39826723	-1	None	None
16	RAB40C	ENSG00000197562	ENST00000569575	protein_coding	KNOWN	None	18285	470	155	639357	676026	1	RASL8C	RARL
16	RAB40C	ENSG00000197562	ENST00000566290	protein_coding	KNOWN	None	18285	639	212	639669	677415	1	RASL8C	RARL
16	RAB40C	ENSG00000197562	ENST00000568586	protein_coding	KNOWN	None	18285	565	187	640068	676121	1	RASL8C	RARL
16	RAB40C	ENSG00000197562	ENST00000248139	protein_coding	KNOWN	CCDS10413	18285	846	281	640089	679272	1	RASL8C	RARL
16	RAB40C	ENSG00000197562	ENST00000565511	nonsense_mediated_decay	KNOWN	None	18285	393	130	640242	676083	1	RASL8C	RARL
16	RAB40C	ENSG00000197562	ENST00000509637	nonsense_mediated_decay	KNOWN	None	18285	149	48	640296	675993	1	RASL8C	RARL
16	RAB40C	ENSG00000197562	ENST00000563109	protein_coding	NOVEL	None	18285	710	235	640332	677583	1	RASL8C	RARL
16	RAB40C	ENSG00000197562	ENST00000564703	protein_coding	PUTATIVE	None	18285	114	37	666645	676117	1	RASL8C	RARL
16	RAB40C	ENSG00000197562	ENST00000561781	retained_intron	KNOWN	None	18285	None	None	675614	679272	1	RASL8C	RARL
16	RAB40C	ENSG00000197562	ENST00000535977	protein_coding	KNOWN	CCDS10413	18285	846	281	639357	679271	1	RASL8C	RARL
16	RAB40C	ENSG00000197562	ENST00000539661	protein_coding	KNOWN	CCDS10413	18285	846	281	639669	679271	1	RASL8C	RARL
16	RAB40C	ENSG00000197562	ENST00000538492	protein_coding	KNOWN	CCDS10413	18285	846	281	640077	679271	1	RASL8C	RARL
7	None	ENSG00000235464	ENST00000441150	lincRNA	KNOWN	None	None	None	None	35535631	35549873	-1	None	None
HSCHR6_MHC_MANN	SLC39A7	ENSG00000227402	ENST00000425069	protein_coding	KNOWN	None	4927	662	219	33322141	33324388	1	HKE4	H2-KE4, D6S2244E, KE4, RING5, ZIP7
HSCHR6_MHC_MANN	SLC39A7	ENSG00000227402	ENST00000443773	protein_coding	KNOWN	None	4927	1410	469	33322522	33326135	1	HKE4	H2-KE4, D6S2244E, KE4, RING5, ZIP7
HSCHR6_MHC_MANN	SLC39A7	ENSG00000227402	ENST00000456261	protein_coding	KNOWN	None	4927	1410	469	33322569	33326135	1	HKE4	H2-KE4, D6S2244E, KE4, RING5, ZIP7
HSCHR6_MHC_MANN	SLC39A7	ENSG00000227402	ENST00000487655	processed_transcript	PUTATIVE	None	4927	None	None	33322621	33326135	1	HKE4	H2-KE4, D6S2244E, KE4, RING5, ZIP7
HSCHR6_MHC_MANN	SLC39A7	ENSG00000227402	ENST00000493496	processed_transcript	PUTATIVE	None	4927	None	None	33322942	33326135	1	HKE4	H2-KE4, D6S2244E, KE4, RING5, ZIP7
HSCHR6_MHC_MANN	SLC39A7	ENSG00000227402	ENST00000460361	processed_transcript	PUTATIVE	None	4927	None	None	33323951	33326135	1	HKE4	H2-KE4, D6S2244E, KE4, RING5, ZIP7
Y	None	ENSG00000173357	ENST00000455422	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	8774265	8784114	1	None	None
Y	None	ENSG00000173357	ENST00000311828	processed_transcript	KNOWN	None	None	None	None	8777989	8782196	1	None	None
Y	None	ENSG00000173357	ENST00000416687	unprocessed_pseudogene	KNOWN	None	None	None	None	8774265	8782184	1	None	None
5	DDX4	ENSG00000152670	ENST00000505374	protein_coding	KNOWN	CCDS3969	18700	2175	724	55033852	55112985	1	None	VASA
5	DDX4	ENSG00000152670	ENST00000506511	protein_coding	PUTATIVE	None	18700	1555	517	55033868	55094399	1	None	VASA
5	DDX4	ENSG00000152670	ENST00000508580	processed_transcript	KNOWN	None	18700	None	None	55033883	55063913	1	None	VASA
5	DDX4	ENSG00000152670	ENST00000515709	protein_coding	PUTATIVE	None	18700	427	141	55033901	55076902	1	None	VASA
5	DDX4	ENSG00000152670	ENST00000506848	protein_coding	KNOWN	None	18700	317	104	55033933	55059875	1	None	VASA
5	DDX4	ENSG00000152670	ENST00000514679	protein_coding	KNOWN	None	18700	477	158	55033943	55075874	1	None	VASA
5	DDX4	ENSG00000152670	ENST00000354991	protein_coding	KNOWN	CCDS47208	18700	2073	690	55034778	55112605	1	None	VASA
5	DDX4	ENSG00000152670	ENST00000511491	protein_coding	PUTATIVE	None	18700	469	155	55037908	55075866	1	None	VASA
5	DDX4	ENSG00000152670	ENST00000503129	nonsense_mediated_decay	KNOWN	None	18700	917	304	55059842	55111251	1	None	VASA
5	DDX4	ENSG00000152670	ENST00000511853	protein_coding	PUTATIVE	CCDS54855	18700	1728	575	55062739	55112605	1	None	VASA
5	DDX4	ENSG00000152670	ENST00000507645	nonsense_mediated_decay	KNOWN	None	18700	152	49	55062759	55081640	1	None	VASA
5	DDX4	ENSG00000152670	ENST00000509312	retained_intron	KNOWN	None	18700	None	None	55075885	55078157	1	None	VASA
5	DDX4	ENSG00000152670	ENST00000353507	protein_coding	KNOWN	CCDS47208	18700	2073	690	55033845	55112974	1	None	VASA
5	DDX4	ENSG00000152670	ENST00000514278	protein_coding	KNOWN	CCDS54854	18700	2115	704	55033845	55112605	1	None	VASA
16	None	ENSG00000205047	ENST00000446344	protein_coding	KNOWN	None	None	876	291	87731749	87739290	-1	None	None
7	None	ENSG00000271122	ENST00000605778	antisense	KNOWN	None	None	None	None	35734824	35739023	1	None	None
22	DGCR2	ENSG00000070413	ENST00000389262	nonsense_mediated_decay	KNOWN	None	2845	981	326	19023799	19109920	-1	None	KIAA0163, LAN, IDD, DGS-C, SEZ-12
22	DGCR2	ENSG00000070413	ENST00000263196	protein_coding	KNOWN	CCDS33598	2845	1653	550	19023799	19109967	-1	None	KIAA0163, LAN, IDD, DGS-C, SEZ-12
22	DGCR2	ENSG00000070413	ENST00000467659	retained_intron	KNOWN	None	2845	None	None	19025350	19044566	-1	None	KIAA0163, LAN, IDD, DGS-C, SEZ-12
22	DGCR2	ENSG00000070413	ENST00000473832	processed_transcript	PUTATIVE	None	2845	None	None	19044507	19053417	-1	None	KIAA0163, LAN, IDD, DGS-C, SEZ-12
22	DGCR2	ENSG00000070413	ENST00000537045	protein_coding	KNOWN	CCDS54496	2845	1530	509	19023795	19109967	-1	None	KIAA0163, LAN, IDD, DGS-C, SEZ-12
22	DGCR2	ENSG00000070413	ENST00000545799	protein_coding	KNOWN	None	2845	810	269	19023801	19109920	-1	None	KIAA0163, LAN, IDD, DGS-C, SEZ-12
7	PILRB	ENSG00000121716	ENST00000473757	retained_intron	KNOWN	None	18297	None	None	99933702	99949523	1	None	FDFACT1, FDFACT2
7	PILRB	ENSG00000121716	ENST00000470714	processed_transcript	KNOWN	None	18297	None	None	99933727	99950112	1	None	FDFACT1, FDFACT2
7	PILRB	ENSG00000121716	ENST00000310771	protein_coding	KNOWN	CCDS43622	18297	684	227	99933737	99965454	1	None	FDFACT1, FDFACT2
7	PILRB	ENSG00000121716	ENST00000483329	processed_transcript	KNOWN	None	18297	None	None	99933746	99949834	1	None	FDFACT1, FDFACT2
7	PILRB	ENSG00000121716	ENST00000444874	protein_coding	KNOWN	None	18297	450	149	99933866	99965286	1	None	FDFACT1, FDFACT2
7	PILRB	ENSG00000121716	ENST00000488972	processed_transcript	KNOWN	None	18297	None	None	99934035	99947377	1	None	FDFACT1, FDFACT2
7	PILRB	ENSG00000121716	ENST00000493499	processed_transcript	KNOWN	None	18297	None	None	99935800	99947781	1	None	FDFACT1, FDFACT2
7	PILRB	ENSG00000121716	ENST00000472646	processed_transcript	KNOWN	None	18297	None	None	99948879	99955915	1	None	FDFACT1, FDFACT2
7	PILRB	ENSG00000121716	ENST00000452089	protein_coding	KNOWN	CCDS43622	18297	684	227	99949799	99965356	1	None	FDFACT1, FDFACT2
7	PILRB	ENSG00000121716	ENST00000493091	retained_intron	KNOWN	None	18297	None	None	99949891	99955638	1	None	FDFACT1, FDFACT2
7	PILRB	ENSG00000121716	ENST00000457519	protein_coding	KNOWN	None	18297	383	126	99949905	99956631	1	None	FDFACT1, FDFACT2
7	PILRB	ENSG00000121716	ENST00000448382	protein_coding	KNOWN	None	18297	816	271	99949911	99965356	1	None	FDFACT1, FDFACT2
7	PILRB	ENSG00000121716	ENST00000443526	protein_coding	KNOWN	None	18297	383	126	99949969	99956631	1	None	FDFACT1, FDFACT2
7	PILRB	ENSG00000121716	ENST00000419749	protein_coding	KNOWN	None	18297	383	126	99949969	99956631	1	None	FDFACT1, FDFACT2
7	PILRB	ENSG00000121716	ENST00000422808	protein_coding	KNOWN	None	18297	383	126	99949969	99956631	1	None	FDFACT1, FDFACT2
7	PILRB	ENSG00000121716	ENST00000438028	protein_coding	NOVEL	None	18297	140	45	99949969	99956631	1	None	FDFACT1, FDFACT2
7	PILRB	ENSG00000121716	ENST00000455145	protein_coding	KNOWN	None	18297	323	106	99950652	99955882	1	None	FDFACT1, FDFACT2
7	PILRB	ENSG00000121716	ENST00000431140	protein_coding	KNOWN	None	18297	180	59	99951359	99956637	1	None	FDFACT1, FDFACT2
7	PILRB	ENSG00000121716	ENST00000438231	protein_coding	KNOWN	None	18297	364	120	99955003	99956612	1	None	FDFACT1, FDFACT2
7	PILRB	ENSG00000121716	ENST00000444073	protein_coding	KNOWN	CCDS43622	18297	684	227	99951576	99965355	1	None	FDFACT1, FDFACT2
19	NFIX	ENSG00000008441	ENST00000397661	protein_coding	KNOWN	CCDS45996	7788	1326	441	13106422	13207015	1	None	NF1A
19	NFIX	ENSG00000008441	ENST00000592199	protein_coding	NOVEL	None	7788	1509	502	13106652	13205463	1	None	NF1A
19	NFIX	ENSG00000008441	ENST00000590027	protein_coding	PUTATIVE	None	7788	386	127	13123002	13136334	1	None	NF1A
19	NFIX	ENSG00000008441	ENST00000585382	nonsense_mediated_decay	KNOWN	None	7788	306	101	13123021	13192649	1	None	NF1A
19	NFIX	ENSG00000008441	ENST00000587760	protein_coding	NOVEL	CCDS59359	7788	1302	433	13134805	13205572	1	None	NF1A
19	NFIX	ENSG00000008441	ENST00000585575	protein_coding	KNOWN	None	7788	1485	494	13134846	13205463	1	None	NF1A
19	NFIX	ENSG00000008441	ENST00000360105	protein_coding	NOVEL	None	7788	1212	403	13135394	13209610	1	None	NF1A
19	NFIX	ENSG00000008441	ENST00000588228	protein_coding	PUTATIVE	None	7788	1368	455	13135395	13205569	1	None	NF1A
19	NFIX	ENSG00000008441	ENST00000586797	nonsense_mediated_decay	KNOWN	None	7788	180	59	13135399	13205498	1	None	NF1A
19	NFIX	ENSG00000008441	ENST00000591028	protein_coding	PUTATIVE	None	7788	550	182	13135427	13136309	1	None	NF1A
19	NFIX	ENSG00000008441	ENST00000586873	protein_coding	PUTATIVE	None	7788	376	124	13135441	13136324	1	None	NF1A
19	NFIX	ENSG00000008441	ENST00000587260	protein_coding	KNOWN	None	7788	1323	440	13135753	13205584	1	None	NF1A
19	NFIX	ENSG00000008441	ENST00000588680	processed_transcript	KNOWN	None	7788	None	None	13180817	13184833	1	None	NF1A
19	NFIX	ENSG00000008441	ENST00000358552	protein_coding	KNOWN	None	7788	1383	460	13135811	13209610	1	None	NF1A
11	C11orf84	ENSG00000168005	ENST00000294244	protein_coding	KNOWN	CCDS31594	25115	1146	381	63580860	63595190	1	None	None
11	C11orf84	ENSG00000168005	ENST00000540893	protein_coding	PUTATIVE	None	25115	339	112	63586067	63590843	1	None	None
11	C11orf84	ENSG00000168005	ENST00000535820	protein_coding	PUTATIVE	None	25115	88	28	63586419	63590733	1	None	None
1	TNNI1	ENSG00000159173	ENST00000361379	protein_coding	KNOWN	CCDS1411	11945	564	187	201373625	201390874	-1	None	None
1	TNNI1	ENSG00000159173	ENST00000336092	protein_coding	KNOWN	CCDS1411	11945	564	187	201377992	201398994	-1	None	None
1	TNNI1	ENSG00000159173	ENST00000555948	protein_coding	NOVEL	None	11945	318	105	201378195	201391149	-1	None	None
1	TNNI1	ENSG00000159173	ENST00000367312	protein_coding	KNOWN	CCDS1411	11945	564	187	201378985	201390846	-1	None	None
1	TNNI1	ENSG00000159173	ENST00000555340	protein_coding	PUTATIVE	None	11945	393	130	201380485	201390854	-1	None	None
1	TNNI1	ENSG00000159173	ENST00000556362	protein_coding	KNOWN	None	11945	411	136	201380530	201391295	-1	None	None
HSCHR6_MHC_DBB	HLA-C	ENSG00000228299	ENST00000468663	retained_intron	KNOWN	None	4933	None	None	31228737	31229652	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_DBB	HLA-C	ENSG00000228299	ENST00000474724	retained_intron	KNOWN	None	4933	None	None	31228737	31230404	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_DBB	HLA-C	ENSG00000228299	ENST00000495635	retained_intron	KNOWN	None	4933	None	None	31228737	31232028	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_DBB	HLA-C	ENSG00000228299	ENST00000458192	protein_coding	KNOWN	None	4933	1119	372	31228737	31232064	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_DBB	HLA-C	ENSG00000228299	ENST00000422921	protein_coding	KNOWN	None	4933	1194	397	31228737	31232064	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_DBB	HLA-C	ENSG00000228299	ENST00000456487	protein_coding	KNOWN	None	4933	1107	368	31228737	31232071	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_DBB	HLA-C	ENSG00000228299	ENST00000479595	nonsense_mediated_decay	KNOWN	None	4933	396	131	31228737	31232083	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_DBB	HLA-C	ENSG00000228299	ENST00000420206	protein_coding	KNOWN	None	4933	1101	366	31228737	31232108	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_DBB	HLA-C	ENSG00000228299	ENST00000495725	processed_transcript	KNOWN	None	4933	None	None	31230192	31232051	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_DBB	HLA-C	ENSG00000228299	ENST00000454033	protein_coding	KNOWN	None	4933	782	259	31230196	31232047	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_DBB	HLA-C	ENSG00000228299	ENST00000494823	retained_intron	KNOWN	None	4933	None	None	31230203	31232108	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_DBB	HLA-C	ENSG00000228299	ENST00000482179	retained_intron	KNOWN	None	4933	None	None	31231081	31232068	-1	HLA-JY3, D6S204	None
19	ZNF578	ENSG00000258405	ENST00000421239	protein_coding	KNOWN	CCDS54310	26449	1773	590	52956829	53015407	1	None	FLJ31384
19	ZNF578	ENSG00000258405	ENST00000594118	processed_transcript	KNOWN	None	26449	None	None	52956833	52961760	1	None	FLJ31384
19	ZNF578	ENSG00000258405	ENST00000596382	processed_transcript	KNOWN	None	26449	None	None	52956835	52962089	1	None	FLJ31384
19	ZNF578	ENSG00000258405	ENST00000602221	processed_transcript	KNOWN	None	26449	None	None	52956847	52961539	1	None	FLJ31384
19	ZNF578	ENSG00000258405	ENST00000596674	processed_transcript	KNOWN	None	26449	None	None	52956866	52961407	1	None	FLJ31384
19	ZNF578	ENSG00000258405	ENST00000601120	protein_coding	KNOWN	None	26449	761	252	52996083	53014395	1	None	FLJ31384
15	AEN	ENSG00000181026	ENST00000332810	protein_coding	KNOWN	CCDS10344	25722	978	325	89164527	89175513	1	ISG20L1	FLJ12484, FLJ12562
15	AEN	ENSG00000181026	ENST00000557787	retained_intron	KNOWN	None	25722	None	None	89164568	89170572	1	ISG20L1	FLJ12484, FLJ12562
15	AEN	ENSG00000181026	ENST00000559528	protein_coding	PUTATIVE	None	25722	537	178	89164601	89169977	1	ISG20L1	FLJ12484, FLJ12562
15	AEN	ENSG00000181026	ENST00000560174	retained_intron	KNOWN	None	25722	None	None	89164612	89169410	1	ISG20L1	FLJ12484, FLJ12562
15	AEN	ENSG00000181026	ENST00000558327	retained_intron	KNOWN	None	25722	None	None	89164612	89169842	1	ISG20L1	FLJ12484, FLJ12562
15	AEN	ENSG00000181026	ENST00000557927	retained_intron	KNOWN	None	25722	None	None	89169843	89175512	1	ISG20L1	FLJ12484, FLJ12562
15	AEN	ENSG00000181026	ENST00000379231	protein_coding	KNOWN	None	25722	984	327	89164595	89174407	1	ISG20L1	FLJ12484, FLJ12562
HSCHR6_MHC_SSTO	HCG27	ENSG00000231281	ENST00000416551	processed_transcript	KNOWN	None	27366	None	None	31159624	31165828	1	None	bPG299F13.9, bCX101P6.9, bQB115I13.2, FLJ40123
HSCHR6_MHC_SSTO	HCG27	ENSG00000231281	ENST00000449665	processed_transcript	PUTATIVE	None	27366	None	None	31160002	31165083	1	None	bPG299F13.9, bCX101P6.9, bQB115I13.2, FLJ40123
HSCHR6_MHC_SSTO	HCG27	ENSG00000231281	ENST00000413992	processed_transcript	PUTATIVE	None	27366	None	None	31163874	31164862	1	None	bPG299F13.9, bCX101P6.9, bQB115I13.2, FLJ40123
22	CCDC157	ENSG00000187860	ENST00000399824	protein_coding	PUTATIVE	None	33854	252	83	30752624	30763085	1	None	None
22	CCDC157	ENSG00000187860	ENST00000405659	protein_coding	KNOWN	CCDS33632	33854	2259	752	30752624	30772818	1	None	None
22	CCDC157	ENSG00000187860	ENST00000445005	protein_coding	NOVEL	None	33854	589	195	30752990	30766483	1	None	None
22	CCDC157	ENSG00000187860	ENST00000430839	protein_coding	NOVEL	None	33854	603	200	30752996	30766497	1	None	None
22	CCDC157	ENSG00000187860	ENST00000475975	retained_intron	KNOWN	None	33854	None	None	30753103	30774647	1	None	None
22	CCDC157	ENSG00000187860	ENST00000482413	retained_intron	KNOWN	None	33854	None	None	30769681	30772816	1	None	None
22	CCDC157	ENSG00000187860	ENST00000338306	protein_coding	KNOWN	CCDS33632	33854	2259	752	30752627	30772816	1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000229075	ENST00000437476	processed_transcript	PUTATIVE	None	None	None	None	31162029	31163780	-1	None	None
HSCHR6_MHC_SSTO	USP8P1	ENSG00000225029	ENST00000454254	processed_pseudogene	KNOWN	None	13987	None	None	31235931	31239103	1	USP8P	KIAA0055-hom, D84394.7
HSCHR6_MHC_SSTO	USP8P1	ENSG00000225029	ENST00000552640	pseudogene	KNOWN	None	13987	None	None	31235941	31237216	1	USP8P	KIAA0055-hom, D84394.7
1	ATP1A1	ENSG00000163399	ENST00000418797	protein_coding	KNOWN	None	799	319	105	116915290	116930777	1	None	None
1	ATP1A1	ENSG00000163399	ENST00000295598	protein_coding	KNOWN	CCDS887	799	3072	1023	116915882	116947396	1	None	None
1	ATP1A1	ENSG00000163399	ENST00000488733	retained_intron	KNOWN	None	799	None	None	116915891	116928766	1	None	None
1	ATP1A1	ENSG00000163399	ENST00000369494	protein_coding	KNOWN	None	799	434	143	116925033	116931285	1	None	None
1	ATP1A1	ENSG00000163399	ENST00000463382	processed_transcript	KNOWN	None	799	None	None	116929925	116931147	1	None	None
1	ATP1A1	ENSG00000163399	ENST00000491156	processed_transcript	KNOWN	None	799	None	None	116931349	116932562	1	None	None
1	ATP1A1	ENSG00000163399	ENST00000440951	protein_coding	KNOWN	None	799	474	157	116942093	116952883	1	None	None
1	ATP1A1	ENSG00000163399	ENST00000479960	processed_transcript	KNOWN	None	799	None	None	116943752	116944655	1	None	None
1	ATP1A1	ENSG00000163399	ENST00000495965	processed_transcript	KNOWN	None	799	None	None	116948731	116952883	1	None	None
1	ATP1A1	ENSG00000163399	ENST00000537345	protein_coding	KNOWN	CCDS53351	799	3072	1023	116916489	116947394	1	None	None
1	ATP1A1	ENSG00000163399	ENST00000369496	protein_coding	KNOWN	CCDS53352	799	2979	992	116925992	116947394	1	None	None
16	SLC7A5	ENSG00000103257	ENST00000565644	protein_coding	PUTATIVE	None	11063	726	241	87863629	87897245	-1	None	LAT1, E16, D16S469E, MPE16, CD98
16	SLC7A5	ENSG00000103257	ENST00000261622	protein_coding	KNOWN	CCDS10964	11063	1524	507	87863629	87903094	-1	None	LAT1, E16, D16S469E, MPE16, CD98
16	SLC7A5	ENSG00000103257	ENST00000563489	retained_intron	KNOWN	None	11063	None	None	87866338	87870411	-1	None	LAT1, E16, D16S469E, MPE16, CD98
HSCHR6_MHC_SSTO	RPL3P2	ENSG00000227672	ENST00000454216	processed_pseudogene	KNOWN	None	17834	None	None	31240666	31241865	1	None	RPL3-Hom
HSCHR6_MHC_SSTO	WASF5P	ENSG00000225403	ENST00000456141	processed_pseudogene	KNOWN	None	21665	None	None	31248142	31249593	-1	None	Em:D84394.5
HSCHR6_MHC_SSTO	None	ENSG00000226834	ENST00000445972	unprocessed_pseudogene	KNOWN	None	None	None	None	31268479	31269213	-1	None	None
15	BBS4	ENSG00000140463	ENST00000566400	nonsense_mediated_decay	KNOWN	None	969	63	20	72978527	73030428	1	None	None
15	BBS4	ENSG00000140463	ENST00000268057	protein_coding	KNOWN	CCDS10246	969	1560	519	72978528	73030817	1	None	None
15	BBS4	ENSG00000140463	ENST00000565160	nonsense_mediated_decay	KNOWN	None	969	429	142	72978535	73020335	1	None	None
15	BBS4	ENSG00000140463	ENST00000561914	nonsense_mediated_decay	KNOWN	None	969	312	103	72978545	73023799	1	None	None
15	BBS4	ENSG00000140463	ENST00000563600	nonsense_mediated_decay	KNOWN	None	969	153	50	72978548	73015162	1	None	None
15	BBS4	ENSG00000140463	ENST00000569440	nonsense_mediated_decay	KNOWN	None	969	102	33	72978548	73016916	1	None	None
15	BBS4	ENSG00000140463	ENST00000566938	nonsense_mediated_decay	KNOWN	None	969	63	20	72978548	73016998	1	None	None
15	BBS4	ENSG00000140463	ENST00000567279	nonsense_mediated_decay	KNOWN	None	969	204	67	72978548	73030165	1	None	None
15	BBS4	ENSG00000140463	ENST00000562084	nonsense_mediated_decay	KNOWN	None	969	234	77	72978561	73029911	1	None	None
15	BBS4	ENSG00000140463	ENST00000569338	protein_coding	NOVEL	None	969	843	280	72978578	73023952	1	None	None
15	BBS4	ENSG00000140463	ENST00000566829	protein_coding	PUTATIVE	None	969	424	140	72978731	73009192	1	None	None
15	BBS4	ENSG00000140463	ENST00000564239	processed_transcript	KNOWN	None	969	None	None	72979091	73015189	1	None	None
15	BBS4	ENSG00000140463	ENST00000569001	processed_transcript	PUTATIVE	None	969	None	None	73009169	73009696	1	None	None
15	BBS4	ENSG00000140463	ENST00000562219	retained_intron	KNOWN	None	969	None	None	73015171	73027986	1	None	None
15	BBS4	ENSG00000140463	ENST00000569151	retained_intron	KNOWN	None	969	None	None	73023898	73027555	1	None	None
15	BBS4	ENSG00000140463	ENST00000566197	protein_coding	NOVEL	None	969	541	179	73024023	73029864	1	None	None
15	BBS4	ENSG00000140463	ENST00000568535	retained_intron	KNOWN	None	969	None	None	73027858	73029433	1	None	None
15	BBS4	ENSG00000140463	ENST00000395205	protein_coding	KNOWN	None	969	1584	527	72978858	73030816	1	None	None
15	BBS4	ENSG00000140463	ENST00000539603	protein_coding	KNOWN	None	969	1524	507	72978548	73030165	1	None	None
15	BBS4	ENSG00000140463	ENST00000542334	protein_coding	KNOWN	CCDS58377	969	1044	347	72978527	73030347	1	None	None
1	MAP7D1	ENSG00000116871	ENST00000429533	protein_coding	PUTATIVE	None	25514	733	243	36621180	36640609	1	PARCC1, RPRC1	FLJ10350, FLJ39022
1	MAP7D1	ENSG00000116871	ENST00000316156	protein_coding	KNOWN	None	25514	2412	803	36621566	36646450	1	PARCC1, RPRC1	FLJ10350, FLJ39022
1	MAP7D1	ENSG00000116871	ENST00000527764	retained_intron	KNOWN	None	25514	None	None	36621776	36637424	1	PARCC1, RPRC1	FLJ10350, FLJ39022
1	MAP7D1	ENSG00000116871	ENST00000373150	protein_coding	KNOWN	None	25514	2427	808	36621799	36646450	1	PARCC1, RPRC1	FLJ10350, FLJ39022
1	MAP7D1	ENSG00000116871	ENST00000373151	protein_coding	KNOWN	CCDS30673	25514	2526	841	36621803	36646441	1	PARCC1, RPRC1	FLJ10350, FLJ39022
1	MAP7D1	ENSG00000116871	ENST00000530729	protein_coding	PUTATIVE	None	25514	420	139	36622816	36638141	1	PARCC1, RPRC1	FLJ10350, FLJ39022
1	MAP7D1	ENSG00000116871	ENST00000462118	retained_intron	KNOWN	None	25514	None	None	36637569	36639080	1	PARCC1, RPRC1	FLJ10350, FLJ39022
1	MAP7D1	ENSG00000116871	ENST00000474796	processed_transcript	KNOWN	None	25514	None	None	36638070	36642435	1	PARCC1, RPRC1	FLJ10350, FLJ39022
1	MAP7D1	ENSG00000116871	ENST00000530975	protein_coding	NOVEL	None	25514	744	247	36642318	36644423	1	PARCC1, RPRC1	FLJ10350, FLJ39022
1	MAP7D1	ENSG00000116871	ENST00000487131	processed_transcript	KNOWN	None	25514	None	None	36642407	36644623	1	PARCC1, RPRC1	FLJ10350, FLJ39022
1	MAP7D1	ENSG00000116871	ENST00000373148	protein_coding	KNOWN	None	25514	1134	377	36643070	36646433	1	PARCC1, RPRC1	FLJ10350, FLJ39022
1	MAP7D1	ENSG00000116871	ENST00000532131	retained_intron	KNOWN	None	25514	None	None	36644012	36645325	1	PARCC1, RPRC1	FLJ10350, FLJ39022
1	MAP7D1	ENSG00000116871	ENST00000487114	retained_intron	KNOWN	None	25514	None	None	36644622	36645916	1	PARCC1, RPRC1	FLJ10350, FLJ39022
7	None	ENSG00000227544	ENST00000432866	lincRNA	KNOWN	None	None	None	None	35756055	35759305	1	None	None
7	None	ENSG00000227544	ENST00000449644	lincRNA	KNOWN	None	None	None	None	35756084	35774497	1	None	None
7	None	ENSG00000227544	ENST00000458087	lincRNA	KNOWN	None	None	None	None	35756096	35759322	1	None	None
7	None	ENSG00000227544	ENST00000430518	lincRNA	KNOWN	None	None	None	None	35756202	35759144	1	None	None
7	None	ENSG00000227544	ENST00000585952	lincRNA	KNOWN	None	None	None	None	35756412	35774125	1	None	None
17	MINK1	ENSG00000141503	ENST00000355280	protein_coding	KNOWN	CCDS45588	17565	3999	1332	4736683	4801348	1	None	B55, MINK, ZC3, MAP4K6, YSK2
17	MINK1	ENSG00000141503	ENST00000572330	retained_intron	KNOWN	None	17565	None	None	4736694	4801100	1	None	B55, MINK, ZC3, MAP4K6, YSK2
17	MINK1	ENSG00000141503	ENST00000347992	protein_coding	KNOWN	CCDS45589	17565	3912	1303	4736695	4801349	1	None	B55, MINK, ZC3, MAP4K6, YSK2
17	MINK1	ENSG00000141503	ENST00000574453	nonsense_mediated_decay	KNOWN	None	17565	336	111	4736708	4801348	1	None	B55, MINK, ZC3, MAP4K6, YSK2
17	MINK1	ENSG00000141503	ENST00000453408	protein_coding	KNOWN	CCDS45590	17565	3939	1312	4736879	4800582	1	None	B55, MINK, ZC3, MAP4K6, YSK2
17	MINK1	ENSG00000141503	ENST00000577021	nonsense_mediated_decay	KNOWN	None	17565	161	52	4736916	4789260	1	None	B55, MINK, ZC3, MAP4K6, YSK2
17	MINK1	ENSG00000141503	ENST00000571207	nonsense_mediated_decay	KNOWN	None	17565	1145	380	4787764	4801356	1	None	B55, MINK, ZC3, MAP4K6, YSK2
17	MINK1	ENSG00000141503	ENST00000572629	retained_intron	KNOWN	None	17565	None	None	4795766	4796945	1	None	B55, MINK, ZC3, MAP4K6, YSK2
17	MINK1	ENSG00000141503	ENST00000571526	retained_intron	KNOWN	None	17565	None	None	4796491	4797166	1	None	B55, MINK, ZC3, MAP4K6, YSK2
17	MINK1	ENSG00000141503	ENST00000572304	retained_intron	KNOWN	None	17565	None	None	4796873	4797511	1	None	B55, MINK, ZC3, MAP4K6, YSK2
17	MINK1	ENSG00000141503	ENST00000574871	retained_intron	KNOWN	None	17565	None	None	4797839	4801355	1	None	B55, MINK, ZC3, MAP4K6, YSK2
17	MINK1	ENSG00000141503	ENST00000575511	retained_intron	KNOWN	None	17565	None	None	4798153	4799084	1	None	B55, MINK, ZC3, MAP4K6, YSK2
17	MINK1	ENSG00000141503	ENST00000576037	protein_coding	PUTATIVE	None	17565	486	161	4799500	4800440	1	None	B55, MINK, ZC3, MAP4K6, YSK2
4	None	ENSG00000249563	ENST00000513014	unprocessed_pseudogene	KNOWN	None	None	None	None	9734994	9743985	1	None	None
4	OR7E35P	ENSG00000250425	ENST00000514144	unprocessed_pseudogene	KNOWN	None	8408	None	None	9756522	9757402	1	OR7E120	OST018
1	PHLDA3	ENSG00000174307	ENST00000367311	protein_coding	KNOWN	CCDS1412	8934	384	127	201434620	201438312	-1	None	TIH1
1	PHLDA3	ENSG00000174307	ENST00000485436	processed_transcript	KNOWN	None	8934	None	None	201434981	201437709	-1	None	TIH1
1	PHLDA3	ENSG00000174307	ENST00000497057	processed_transcript	PUTATIVE	None	8934	None	None	201435072	201435785	-1	None	TIH1
1	PHLDA3	ENSG00000174307	ENST00000367309	protein_coding	KNOWN	CCDS1412	8934	384	127	201435086	201438365	-1	None	TIH1
2	REL	ENSG00000162924	ENST00000295025	protein_coding	KNOWN	CCDS1864	9954	1860	619	61108656	61150645	1	None	I-Rel, c-Rel
2	REL	ENSG00000162924	ENST00000394479	protein_coding	NOVEL	None	9954	1764	587	61108791	61150119	1	None	I-Rel, c-Rel
4	RNA5SP154	ENSG00000252002	ENST00000516193	rRNA	KNOWN	None	43054	None	None	9794375	9794485	-1	RN5S154	None
4	None	ENSG00000249219	ENST00000504249	antisense	KNOWN	None	None	None	None	9924438	9925770	1	None	None
3	PHF7	ENSG00000010318	ENST00000462532	protein_coding	KNOWN	None	18458	71	22	52443510	52448041	1	None	NYD-SP6, HSPC226
3	PHF7	ENSG00000010318	ENST00000478707	protein_coding	KNOWN	CCDS2854	18458	1146	381	52444636	52457353	1	None	NYD-SP6, HSPC226
3	PHF7	ENSG00000010318	ENST00000327906	protein_coding	KNOWN	CCDS2854	18458	1146	381	52444673	52457657	1	None	NYD-SP6, HSPC226
3	PHF7	ENSG00000010318	ENST00000473145	retained_intron	KNOWN	None	18458	None	None	52444906	52448860	1	None	NYD-SP6, HSPC226
3	PHF7	ENSG00000010318	ENST00000482327	processed_transcript	KNOWN	None	18458	None	None	52445052	52448852	1	None	NYD-SP6, HSPC226
3	PHF7	ENSG00000010318	ENST00000347025	protein_coding	KNOWN	CCDS2855	18458	1029	342	52445213	52457656	1	None	NYD-SP6, HSPC226
3	PHF7	ENSG00000010318	ENST00000472337	processed_transcript	KNOWN	None	18458	None	None	52446870	52455011	1	None	NYD-SP6, HSPC226
3	PHF7	ENSG00000010318	ENST00000461861	protein_coding	NOVEL	None	18458	980	325	52448539	52457656	1	None	NYD-SP6, HSPC226
3	PHF7	ENSG00000010318	ENST00000498509	retained_intron	KNOWN	None	18458	None	None	52453936	52457299	1	None	NYD-SP6, HSPC226
3	PHF7	ENSG00000010318	ENST00000465863	protein_coding	PUTATIVE	None	18458	191	62	52455008	52457422	1	None	NYD-SP6, HSPC226
3	PHF7	ENSG00000010318	ENST00000459935	retained_intron	KNOWN	None	18458	None	None	52455032	52456873	1	None	NYD-SP6, HSPC226
4	None	ENSG00000250413	ENST00000503493	antisense	KNOWN	None	None	None	None	10008106	10011349	1	None	None
19	ZNF808	ENSG00000198482	ENST00000487863	nonsense_mediated_decay	KNOWN	None	33230	2505	834	53030905	53067717	1	None	None
19	ZNF808	ENSG00000198482	ENST00000359798	protein_coding	KNOWN	CCDS46167	33230	2712	903	53030906	53059589	1	None	None
19	ZNF808	ENSG00000198482	ENST00000465448	protein_coding	KNOWN	None	33230	540	179	53030916	53056709	1	None	None
19	ZNF808	ENSG00000198482	ENST00000486474	protein_coding	PUTATIVE	None	33230	308	101	53030921	53056684	1	None	None
19	ZNF808	ENSG00000198482	ENST00000461779	protein_coding	KNOWN	None	33230	250	82	53030962	53056419	1	None	None
19	ZNF808	ENSG00000198482	ENST00000461321	protein_coding	KNOWN	None	33230	520	172	53039238	53056689	1	None	None
4	PLAC8	ENSG00000145287	ENST00000311507	protein_coding	KNOWN	CCDS3601	19254	348	115	84011201	84035955	-1	None	onzin, C15
4	PLAC8	ENSG00000145287	ENST00000411416	protein_coding	KNOWN	CCDS3601	19254	348	115	84011841	84030996	-1	None	onzin, C15
4	PLAC8	ENSG00000145287	ENST00000515389	processed_transcript	KNOWN	None	19254	None	None	84011946	84035889	-1	None	onzin, C15
4	PLAC8	ENSG00000145287	ENST00000509973	protein_coding	PUTATIVE	None	19254	177	58	84011946	84035889	-1	None	onzin, C15
4	PLAC8	ENSG00000145287	ENST00000505406	protein_coding	KNOWN	CCDS3601	19254	348	115	84011959	84058228	-1	None	onzin, C15
4	PLAC8	ENSG00000145287	ENST00000426923	protein_coding	KNOWN	CCDS3601	19254	348	115	84014014	84035868	-1	None	onzin, C15
4	None	ENSG00000261490	ENST00000561486	sense_overlapping	KNOWN	None	None	None	None	10069713	10074643	-1	None	None
18	FHOD3	ENSG00000134775	ENST00000257209	protein_coding	KNOWN	CCDS32816	26178	4320	1439	33877677	34360018	1	None	FHOS2, KIAA1695, FLJ22297, FLJ22717
18	FHOD3	ENSG00000134775	ENST00000589114	retained_intron	KNOWN	None	26178	None	None	33877680	34291432	1	None	FHOS2, KIAA1695, FLJ22297, FLJ22717
18	FHOD3	ENSG00000134775	ENST00000590592	protein_coding	PUTATIVE	None	26178	4869	1622	33877799	34359493	1	None	FHOS2, KIAA1695, FLJ22297, FLJ22717
18	FHOD3	ENSG00000134775	ENST00000359247	protein_coding	PUTATIVE	None	26178	4269	1422	33877799	34359742	1	None	FHOS2, KIAA1695, FLJ22297, FLJ22717
18	FHOD3	ENSG00000134775	ENST00000591635	protein_coding	PUTATIVE	None	26178	1908	635	34124514	34360018	1	None	FHOS2, KIAA1695, FLJ22297, FLJ22717
18	FHOD3	ENSG00000134775	ENST00000592930	protein_coding	PUTATIVE	None	26178	3601	1199	34174749	34360018	1	None	FHOS2, KIAA1695, FLJ22297, FLJ22717
18	FHOD3	ENSG00000134775	ENST00000587493	processed_transcript	KNOWN	None	26178	None	None	34272939	34297934	1	None	FHOS2, KIAA1695, FLJ22297, FLJ22717
18	FHOD3	ENSG00000134775	ENST00000592128	protein_coding	PUTATIVE	None	26178	1257	418	34298520	34360018	1	None	FHOS2, KIAA1695, FLJ22297, FLJ22717
18	FHOD3	ENSG00000134775	ENST00000585579	protein_coding	PUTATIVE	None	26178	1127	374	34310667	34360018	1	None	FHOS2, KIAA1695, FLJ22297, FLJ22717
18	FHOD3	ENSG00000134775	ENST00000445677	protein_coding	KNOWN	None	26178	4206	1401	33877702	34360018	1	None	FHOS2, KIAA1695, FLJ22297, FLJ22717
13	NUDT15	ENSG00000136159	ENST00000258662	protein_coding	KNOWN	CCDS9407	23063	495	164	48611703	48621358	1	None	MTH2, FLJ10956
19	TUBB4A	ENSG00000104833	ENST00000264071	protein_coding	KNOWN	CCDS12168	20774	1335	444	6494330	6502595	-1	TUBB4	beta-5
19	TUBB4A	ENSG00000104833	ENST00000594276	protein_coding	PUTATIVE	None	20774	465	154	6495733	6502320	-1	TUBB4	beta-5
19	TUBB4A	ENSG00000104833	ENST00000594075	protein_coding	PUTATIVE	None	20774	482	159	6495818	6502320	-1	TUBB4	beta-5
19	TUBB4A	ENSG00000104833	ENST00000600216	protein_coding	PUTATIVE	None	20774	433	143	6495819	6502320	-1	TUBB4	beta-5
19	TUBB4A	ENSG00000104833	ENST00000595324	nonsense_mediated_decay	KNOWN	None	20774	330	109	6495916	6502320	-1	TUBB4	beta-5
19	TUBB4A	ENSG00000104833	ENST00000601152	protein_coding	PUTATIVE	None	20774	282	93	6495970	6502349	-1	TUBB4	beta-5
19	TUBB4A	ENSG00000104833	ENST00000598006	protein_coding	PUTATIVE	None	20774	315	104	6496027	6502348	-1	TUBB4	beta-5
19	TUBB4A	ENSG00000104833	ENST00000596291	protein_coding	PUTATIVE	None	20774	222	73	6496072	6501798	-1	TUBB4	beta-5
19	TUBB4A	ENSG00000104833	ENST00000597686	protein_coding	PUTATIVE	None	20774	503	166	6496142	6502855	-1	TUBB4	beta-5
19	TUBB4A	ENSG00000104833	ENST00000596926	protein_coding	PUTATIVE	None	20774	333	110	6496153	6502320	-1	TUBB4	beta-5
19	TUBB4A	ENSG00000104833	ENST00000594290	nonsense_mediated_decay	KNOWN	None	20774	312	103	6496181	6502320	-1	TUBB4	beta-5
19	TUBB4A	ENSG00000104833	ENST00000601640	protein_coding	KNOWN	None	20774	323	106	6496187	6502859	-1	TUBB4	beta-5
19	TUBB4A	ENSG00000104833	ENST00000598635	protein_coding	PUTATIVE	None	20774	473	156	6496190	6502814	-1	TUBB4	beta-5
19	TUBB4A	ENSG00000104833	ENST00000540257	protein_coding	KNOWN	CCDS12168	20774	1335	444	6494332	6502304	-1	TUBB4	beta-5
3	RAB5A	ENSG00000144566	ENST00000273047	protein_coding	KNOWN	CCDS2633	9783	648	215	19988571	20026667	1	RAB5	None
3	RAB5A	ENSG00000144566	ENST00000443878	protein_coding	KNOWN	None	9783	46	14	19988742	19992436	1	RAB5	None
3	RAB5A	ENSG00000144566	ENST00000412966	nonsense_mediated_decay	KNOWN	None	9783	189	62	19988871	20017595	1	RAB5	None
3	RAB5A	ENSG00000144566	ENST00000446547	nonsense_mediated_decay	KNOWN	None	9783	198	65	19988891	20025639	1	RAB5	None
3	RAB5A	ENSG00000144566	ENST00000422242	protein_coding	NOVEL	None	9783	606	201	19988897	20025942	1	RAB5	None
3	RAB5A	ENSG00000144566	ENST00000476544	retained_intron	KNOWN	None	9783	None	None	19988902	19992717	1	RAB5	None
3	RAB5A	ENSG00000144566	ENST00000469122	retained_intron	KNOWN	None	9783	None	None	19992493	20020383	1	RAB5	None
3	RAB5A	ENSG00000144566	ENST00000473608	retained_intron	KNOWN	None	9783	None	None	20017008	20025613	1	RAB5	None
13	PSPC1	ENSG00000121390	ENST00000497722	processed_transcript	KNOWN	None	20320	None	None	20248896	20252078	-1	None	PSP1, FLJ10955
13	PSPC1	ENSG00000121390	ENST00000471658	nonsense_mediated_decay	KNOWN	None	20320	1182	393	20248896	20357057	-1	None	PSP1, FLJ10955
13	PSPC1	ENSG00000121390	ENST00000492741	nonsense_mediated_decay	KNOWN	None	20320	1182	393	20249528	20357082	-1	None	PSP1, FLJ10955
13	PSPC1	ENSG00000121390	ENST00000338910	protein_coding	KNOWN	CCDS41870	20320	1572	523	20276640	20357057	-1	None	PSP1, FLJ10955
13	PSPC1	ENSG00000121390	ENST00000427943	protein_coding	KNOWN	None	20320	746	247	20333487	20357142	-1	None	PSP1, FLJ10955
HSCHR6_MHC_QBL	None	ENSG00000258208	ENST00000547788	protein_coding	NOVEL	None	None	279	92	30964801	30993617	-1	None	None
20	OVOL2	ENSG00000125850	ENST00000486776	processed_transcript	KNOWN	None	15804	None	None	17937623	18039832	-1	ZNF339	bA504H3.3
20	OVOL2	ENSG00000125850	ENST00000278780	protein_coding	KNOWN	CCDS13132	15804	828	275	18004796	18038521	-1	ZNF339	bA504H3.3
20	OVOL2	ENSG00000125850	ENST00000483661	processed_transcript	KNOWN	None	15804	None	None	18004906	18039694	-1	ZNF339	bA504H3.3
20	OVOL2	ENSG00000125850	ENST00000494030	processed_transcript	KNOWN	None	15804	None	None	18004906	18039832	-1	ZNF339	bA504H3.3
20	OVOL2	ENSG00000125850	ENST00000462208	processed_transcript	PUTATIVE	None	15804	None	None	18022249	18031383	-1	ZNF339	bA504H3.3
HSCHR6_MHC_QBL	None	ENSG00000255913	ENST00000544597	protein_coding	NOVEL	None	None	99	32	31021149	31025764	-1	None	None
HSCHR6_MHC_QBL	None	ENSG00000258191	ENST00000546879	protein_coding	NOVEL	None	None	96	31	31028015	31031837	1	None	None
10	None	ENSG00000199200	ENST00000362330	misc_RNA	NOVEL	None	None	None	None	34490908	34491002	-1	None	None
1	None	ENSG00000269279	ENST00000598661	protein_coding	NOVEL	None	None	342	113	116915890	116926718	-1	None	None
2	SLC38A11	ENSG00000169507	ENST00000303735	protein_coding	KNOWN	CCDS2224	26836	1155	384	165752696	165812035	-1	None	FLJ39822, AVT2
2	SLC38A11	ENSG00000169507	ENST00000409149	protein_coding	KNOWN	CCDS56142	26836	1221	406	165754839	165811996	-1	None	FLJ39822, AVT2
2	SLC38A11	ENSG00000169507	ENST00000409058	protein_coding	PUTATIVE	None	26836	1314	437	165754844	165811987	-1	None	FLJ39822, AVT2
2	SLC38A11	ENSG00000169507	ENST00000409662	protein_coding	KNOWN	CCDS56142	26836	1221	406	165754884	165811756	-1	None	FLJ39822, AVT2
2	SLC38A11	ENSG00000169507	ENST00000483641	retained_intron	KNOWN	None	26836	None	None	165755038	165768596	-1	None	FLJ39822, AVT2
2	SLC38A11	ENSG00000169507	ENST00000470576	retained_intron	KNOWN	None	26836	None	None	165755118	165768450	-1	None	FLJ39822, AVT2
2	SLC38A11	ENSG00000169507	ENST00000424914	protein_coding	NOVEL	None	26836	452	149	165755179	165793933	-1	None	FLJ39822, AVT2
2	SLC38A11	ENSG00000169507	ENST00000493887	processed_transcript	KNOWN	None	26836	None	None	165768168	165794207	-1	None	FLJ39822, AVT2
2	SLC38A11	ENSG00000169507	ENST00000465898	retained_intron	KNOWN	None	26836	None	None	165771935	165796013	-1	None	FLJ39822, AVT2
2	SLC38A11	ENSG00000169507	ENST00000492134	retained_intron	KNOWN	None	26836	None	None	165801072	165809793	-1	None	FLJ39822, AVT2
HSCHR6_MHC_QBL	C6orf15	ENSG00000206461	ENST00000383532	protein_coding	KNOWN	None	13927	978	325	31071421	31072757	-1	None	STG
10	TCEB2P4	ENSG00000234167	ENST00000423418	processed_pseudogene	KNOWN	None	39722	None	None	34777511	34777806	-1	None	None
5	CETN3	ENSG00000153140	ENST00000283122	protein_coding	KNOWN	CCDS4066	1868	504	167	89688078	89705603	-1	None	CEN3
5	CETN3	ENSG00000153140	ENST00000522083	protein_coding	NOVEL	None	1868	576	191	89689527	89705574	-1	None	CEN3
5	CETN3	ENSG00000153140	ENST00000522864	protein_coding	NOVEL	None	1868	462	153	89689676	89705549	-1	None	CEN3
5	CETN3	ENSG00000153140	ENST00000518458	nonsense_mediated_decay	KNOWN	None	1868	246	81	89689750	89703647	-1	None	CEN3
5	CETN3	ENSG00000153140	ENST00000522565	protein_coding	PUTATIVE	None	1868	471	156	89694864	89705574	-1	None	CEN3
5	CETN3	ENSG00000153140	ENST00000522842	protein_coding	PUTATIVE	None	1868	336	111	89701211	89705583	-1	None	CEN3
4	MAEA	ENSG00000090316	ENST00000303400	protein_coding	KNOWN	CCDS33936	13731	1191	396	1283639	1333925	1	None	EMP, GID9
4	MAEA	ENSG00000090316	ENST00000505177	protein_coding	NOVEL	None	13731	1305	434	1283675	1332965	1	None	EMP, GID9
4	MAEA	ENSG00000090316	ENST00000513301	nonsense_mediated_decay	KNOWN	None	13731	324	107	1283678	1316206	1	None	EMP, GID9
4	MAEA	ENSG00000090316	ENST00000512308	nonsense_mediated_decay	KNOWN	None	13731	204	67	1283679	1321491	1	None	EMP, GID9
4	MAEA	ENSG00000090316	ENST00000503653	protein_coding	NOVEL	None	13731	822	273	1283679	1330782	1	None	EMP, GID9
4	MAEA	ENSG00000090316	ENST00000264750	protein_coding	KNOWN	CCDS33937	13731	1068	355	1283679	1333924	1	None	EMP, GID9
4	MAEA	ENSG00000090316	ENST00000509254	nonsense_mediated_decay	KNOWN	None	13731	324	107	1283682	1322470	1	None	EMP, GID9
4	MAEA	ENSG00000090316	ENST00000502558	protein_coding	PUTATIVE	None	13731	550	182	1283682	1326642	1	None	EMP, GID9
4	MAEA	ENSG00000090316	ENST00000514708	protein_coding	KNOWN	None	13731	987	328	1283683	1333896	1	None	EMP, GID9
4	MAEA	ENSG00000090316	ENST00000508634	retained_intron	KNOWN	None	13731	None	None	1283685	1306374	1	None	EMP, GID9
4	MAEA	ENSG00000090316	ENST00000503693	processed_transcript	KNOWN	None	13731	None	None	1283696	1323064	1	None	EMP, GID9
4	MAEA	ENSG00000090316	ENST00000509531	nonsense_mediated_decay	KNOWN	None	13731	738	245	1283702	1332967	1	None	EMP, GID9
4	MAEA	ENSG00000090316	ENST00000510862	processed_transcript	PUTATIVE	None	13731	None	None	1291858	1293757	1	None	EMP, GID9
4	MAEA	ENSG00000090316	ENST00000510794	protein_coding	PUTATIVE	None	13731	1188	395	1303231	1333172	1	None	EMP, GID9
4	MAEA	ENSG00000090316	ENST00000512842	protein_coding	PUTATIVE	None	13731	346	114	1303255	1316202	1	None	EMP, GID9
4	MAEA	ENSG00000090316	ENST00000505839	protein_coding	PUTATIVE	None	13731	1047	348	1303575	1333069	1	None	EMP, GID9
4	MAEA	ENSG00000090316	ENST00000512289	processed_transcript	KNOWN	None	13731	None	None	1322845	1333901	1	None	EMP, GID9
4	MAEA	ENSG00000090316	ENST00000506530	retained_intron	KNOWN	None	13731	None	None	1323132	1333924	1	None	EMP, GID9
4	MAEA	ENSG00000090316	ENST00000503162	retained_intron	KNOWN	None	13731	None	None	1325955	1333901	1	None	EMP, GID9
4	MAEA	ENSG00000090316	ENST00000515766	retained_intron	KNOWN	None	13731	None	None	1326349	1333935	1	None	EMP, GID9
4	MAEA	ENSG00000090316	ENST00000452175	protein_coding	KNOWN	None	13731	954	317	1283682	1333152	1	None	EMP, GID9
11	GDPD4	ENSG00000178795	ENST00000376217	protein_coding	KNOWN	None	24849	1872	623	76927603	76998463	-1	None	GDE6
11	GDPD4	ENSG00000178795	ENST00000315938	protein_coding	KNOWN	CCDS8249	24849	1563	520	76927603	76998463	-1	None	GDE6
11	GDPD4	ENSG00000178795	ENST00000532907	processed_transcript	PUTATIVE	None	24849	None	None	76927907	76935347	-1	None	GDE6
11	GDPD4	ENSG00000178795	ENST00000532155	retained_intron	KNOWN	None	24849	None	None	76981965	77012732	-1	None	GDE6
11	GDPD4	ENSG00000178795	ENST00000527489	processed_transcript	KNOWN	None	24849	None	None	76982401	77012694	-1	None	GDE6
11	GDPD4	ENSG00000178795	ENST00000534245	retained_intron	KNOWN	None	24849	None	None	76997968	77012711	-1	None	GDE6
12	ITGA5	ENSG00000161638	ENST00000552564	retained_intron	KNOWN	None	6141	None	None	54789045	54799900	-1	FNRA	CD49e
12	ITGA5	ENSG00000161638	ENST00000293379	protein_coding	KNOWN	CCDS8880	6141	3150	1049	54789045	54813244	-1	FNRA	CD49e
12	ITGA5	ENSG00000161638	ENST00000547197	protein_coding	NOVEL	None	6141	359	118	54789679	54793697	-1	FNRA	CD49e
12	ITGA5	ENSG00000161638	ENST00000549601	retained_intron	KNOWN	None	6141	None	None	54790006	54792607	-1	FNRA	CD49e
12	ITGA5	ENSG00000161638	ENST00000552431	retained_intron	KNOWN	None	6141	None	None	54791055	54793697	-1	FNRA	CD49e
12	ITGA5	ENSG00000161638	ENST00000552387	retained_intron	KNOWN	None	6141	None	None	54791150	54794642	-1	FNRA	CD49e
12	ITGA5	ENSG00000161638	ENST00000552583	retained_intron	KNOWN	None	6141	None	None	54795344	54796056	-1	FNRA	CD49e
12	ITGA5	ENSG00000161638	ENST00000551564	retained_intron	KNOWN	None	6141	None	None	54795865	54796956	-1	FNRA	CD49e
12	ITGA5	ENSG00000161638	ENST00000550141	retained_intron	KNOWN	None	6141	None	None	54797416	54798128	-1	FNRA	CD49e
12	ITGA5	ENSG00000161638	ENST00000551861	retained_intron	KNOWN	None	6141	None	None	54797700	54798413	-1	FNRA	CD49e
12	ITGA5	ENSG00000161638	ENST00000435631	nonsense_mediated_decay	KNOWN	None	6141	414	137	54798555	54813004	-1	FNRA	CD49e
12	ITGA5	ENSG00000161638	ENST00000553071	nonsense_mediated_decay	KNOWN	None	6141	361	119	54798978	54812911	-1	FNRA	CD49e
12	ITGA5	ENSG00000161638	ENST00000547744	processed_transcript	KNOWN	None	6141	None	None	54805692	54807212	-1	FNRA	CD49e
15	ISG20	ENSG00000172183	ENST00000560741	protein_coding	KNOWN	CCDS10345	6130	546	181	89179384	89198852	1	None	HEM45, CD25
15	ISG20	ENSG00000172183	ENST00000558992	processed_transcript	PUTATIVE	None	6130	None	None	89179401	89180659	1	None	HEM45, CD25
15	ISG20	ENSG00000172183	ENST00000306072	protein_coding	KNOWN	CCDS10345	6130	546	181	89181974	89199714	1	None	HEM45, CD25
15	ISG20	ENSG00000172183	ENST00000379224	protein_coding	PUTATIVE	None	6130	264	87	89182172	89193617	1	None	HEM45, CD25
15	ISG20	ENSG00000172183	ENST00000559876	protein_coding	PUTATIVE	None	6130	466	154	89182184	89198742	1	None	HEM45, CD25
15	ISG20	ENSG00000172183	ENST00000558942	retained_intron	KNOWN	None	6130	None	None	89182194	89198847	1	None	HEM45, CD25
15	ISG20	ENSG00000172183	ENST00000560573	retained_intron	KNOWN	None	6130	None	None	89182274	89198879	1	None	HEM45, CD25
15	ISG20	ENSG00000172183	ENST00000557824	retained_intron	KNOWN	None	6130	None	None	89190143	89198880	1	None	HEM45, CD25
15	ISG20	ENSG00000172183	ENST00000558236	processed_transcript	PUTATIVE	None	6130	None	None	89191051	89195417	1	None	HEM45, CD25
15	ISG20	ENSG00000172183	ENST00000560746	processed_transcript	KNOWN	None	6130	None	None	89193484	89198881	1	None	HEM45, CD25
15	ISG20	ENSG00000172183	ENST00000546338	retained_intron	KNOWN	None	6130	None	None	89195267	89198856	1	None	HEM45, CD25
HSCHR6_MHC_QBL	PSORS1C1	ENSG00000206458	ENST00000471399	processed_transcript	KNOWN	None	17202	None	None	31074948	31079012	1	C6orf16	SEEK1
HSCHR6_MHC_QBL	PSORS1C1	ENSG00000206458	ENST00000462905	processed_transcript	KNOWN	None	17202	None	None	31075023	31077494	1	C6orf16	SEEK1
HSCHR6_MHC_QBL	PSORS1C1	ENSG00000206458	ENST00000376289	protein_coding	PUTATIVE	None	17202	192	63	31075029	31100262	1	C6orf16	SEEK1
HSCHR6_MHC_QBL	PSORS1C1	ENSG00000206458	ENST00000472672	processed_transcript	KNOWN	None	17202	None	None	31075029	31100262	1	C6orf16	SEEK1
HSCHR6_MHC_QBL	PSORS1C1	ENSG00000206458	ENST00000489608	processed_transcript	KNOWN	None	17202	None	None	31098585	31100262	1	C6orf16	SEEK1
HSCHR6_MHC_QBL	PSORS1C1	ENSG00000206458	ENST00000549149	protein_coding	KNOWN	None	17202	453	150	31098646	31100261	1	C6orf16	SEEK1
13	MED4	ENSG00000136146	ENST00000495013	processed_transcript	KNOWN	None	17903	None	None	48627459	48654111	-1	VDRIP	HSPC126, DRIP36, TRAP36
13	MED4	ENSG00000136146	ENST00000258648	protein_coding	KNOWN	CCDS9408	17903	813	270	48650092	48669240	-1	VDRIP	HSPC126, DRIP36, TRAP36
13	MED4	ENSG00000136146	ENST00000378586	protein_coding	PUTATIVE	CCDS59241	17903	675	224	48651104	48669267	-1	VDRIP	HSPC126, DRIP36, TRAP36
13	MED4	ENSG00000136146	ENST00000417167	protein_coding	PUTATIVE	None	17903	715	237	48651307	48669204	-1	VDRIP	HSPC126, DRIP36, TRAP36
16	KNOP1	ENSG00000103550	ENST00000219837	protein_coding	KNOWN	CCDS42127	34404	1377	458	19714902	19729556	-1	C16orf88	101F10.1, FAM191A, TSG118
16	KNOP1	ENSG00000103550	ENST00000568230	protein_coding	PUTATIVE	None	34404	414	137	19717678	19723413	-1	C16orf88	101F10.1, FAM191A, TSG118
16	KNOP1	ENSG00000103550	ENST00000567367	protein_coding	NOVEL	None	34404	595	197	19718487	19725899	-1	C16orf88	101F10.1, FAM191A, TSG118
16	KNOP1	ENSG00000103550	ENST00000565844	retained_intron	KNOWN	None	34404	None	None	19721582	19729557	-1	C16orf88	101F10.1, FAM191A, TSG118
16	KNOP1	ENSG00000103550	ENST00000564480	protein_coding	KNOWN	None	34404	237	78	19726121	19729453	-1	C16orf88	101F10.1, FAM191A, TSG118
1	CD58	ENSG00000116815	ENST00000369489	protein_coding	KNOWN	CCDS888	1688	753	250	117057157	117113661	-1	LFA3	None
1	CD58	ENSG00000116815	ENST00000464088	nonsense_mediated_decay	KNOWN	None	1688	714	237	117057361	117113606	-1	LFA3	None
1	CD58	ENSG00000116815	ENST00000457047	protein_coding	KNOWN	CCDS44199	1688	747	248	117061322	117113648	-1	LFA3	None
1	CD58	ENSG00000116815	ENST00000526981	protein_coding	NOVEL	None	1688	395	130	117061853	117087212	-1	LFA3	None
1	CD58	ENSG00000116815	ENST00000369487	protein_coding	PUTATIVE	None	1688	723	240	117064409	117113661	-1	LFA3	None
6	MOCS1	ENSG00000124615	ENST00000373181	nonsense_mediated_decay	KNOWN	None	7190	846	281	39867354	39900171	-1	None	MOCOD
6	MOCS1	ENSG00000124615	ENST00000373186	protein_coding	KNOWN	CCDS4846	7190	1158	385	39871941	39895455	-1	None	MOCOD
6	MOCS1	ENSG00000124615	ENST00000373188	protein_coding	KNOWN	CCDS43460	7190	1158	385	39872835	39902290	-1	None	MOCOD
6	MOCS1	ENSG00000124615	ENST00000373195	protein_coding	KNOWN	None	7190	1602	533	39873097	39902236	-1	None	MOCOD
6	MOCS1	ENSG00000124615	ENST00000340692	protein_coding	KNOWN	None	7190	1911	636	39873301	39902160	-1	None	MOCOD
6	MOCS1	ENSG00000124615	ENST00000425303	protein_coding	PUTATIVE	None	7190	1911	636	39874133	39895326	-1	None	MOCOD
6	MOCS1	ENSG00000124615	ENST00000432280	protein_coding	PUTATIVE	None	7190	1071	356	39876823	39895317	-1	None	MOCOD
6	MOCS1	ENSG00000124615	ENST00000473742	retained_intron	KNOWN	None	7190	None	None	39881452	39902163	-1	None	MOCOD
6	MOCS1	ENSG00000124615	ENST00000487924	nonsense_mediated_decay	KNOWN	None	7190	297	98	39893461	39902198	-1	None	MOCOD
6	MOCS1	ENSG00000124615	ENST00000308559	protein_coding	KNOWN	None	7190	1863	620	39872034	39902290	-1	None	MOCOD
6	MOCS1	ENSG00000124615	ENST00000373175	protein_coding	KNOWN	None	7190	1071	356	39872034	39895317	-1	None	MOCOD
20	MGME1	ENSG00000125871	ENST00000377710	protein_coding	KNOWN	CCDS13131	16205	1035	344	17949556	17971765	1	C20orf72	bA504H3.4, DDK1
20	MGME1	ENSG00000125871	ENST00000377709	protein_coding	KNOWN	None	16205	795	264	17949716	17971765	1	C20orf72	bA504H3.4, DDK1
20	MGME1	ENSG00000125871	ENST00000377704	protein_coding	KNOWN	None	16205	759	252	17949758	17971765	1	C20orf72	bA504H3.4, DDK1
20	MGME1	ENSG00000125871	ENST00000463219	processed_transcript	KNOWN	None	16205	None	None	17950674	17971052	1	C20orf72	bA504H3.4, DDK1
20	MGME1	ENSG00000125871	ENST00000467391	processed_transcript	KNOWN	None	16205	None	None	17950700	17970874	1	C20orf72	bA504H3.4, DDK1
10	None	ENSG00000229235	ENST00000411602	processed_pseudogene	KNOWN	None	None	None	None	34952787	34953029	-1	None	None
HSCHR6_MHC_SSTO	DHFRP2	ENSG00000233161	ENST00000420841	processed_pseudogene	KNOWN	None	2863	None	None	31327027	31327573	-1	None	None
2	PUS10	ENSG00000162927	ENST00000602599	retained_intron	KNOWN	None	26505	None	None	61167357	61245394	-1	CCDC139	FLJ32312
2	PUS10	ENSG00000162927	ENST00000316752	protein_coding	KNOWN	CCDS1865	26505	1590	529	61169104	61245389	-1	CCDC139	FLJ32312
2	PUS10	ENSG00000162927	ENST00000407787	protein_coding	KNOWN	CCDS1865	26505	1590	529	61169360	61244328	-1	CCDC139	FLJ32312
2	PUS10	ENSG00000162927	ENST00000430495	nonsense_mediated_decay	KNOWN	None	26505	189	62	61235916	61244328	-1	CCDC139	FLJ32312
2	PUS10	ENSG00000162927	ENST00000421319	protein_coding	KNOWN	None	26505	361	119	61235916	61244566	-1	CCDC139	FLJ32312
2	PUS10	ENSG00000162927	ENST00000398658	protein_coding	PUTATIVE	None	26505	189	62	61236983	61244328	-1	CCDC139	FLJ32312
HSCHR6_MHC_SSTO	None	ENSG00000266784	ENST00000583231	snRNA	NOVEL	None	None	None	None	31330791	31330897	1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000232244	ENST00000447153	processed_pseudogene	NOVEL	None	None	None	None	31338077	31338679	1	None	None
5	SLC34A1	ENSG00000131183	ENST00000504577	protein_coding	KNOWN	None	11019	329	108	176806236	176813291	1	NPT2, SLC17A2	NAPI-3, NPTIIa, SLC11
5	SLC34A1	ENSG00000131183	ENST00000512593	protein_coding	PUTATIVE	CCDS54953	11019	1023	340	176811435	176817514	1	NPT2, SLC17A2	NAPI-3, NPTIIa, SLC11
5	SLC34A1	ENSG00000131183	ENST00000324417	protein_coding	KNOWN	CCDS4418	11019	1920	639	176811445	176825849	1	NPT2, SLC17A2	NAPI-3, NPTIIa, SLC11
5	SLC34A1	ENSG00000131183	ENST00000507685	retained_intron	KNOWN	None	11019	None	None	176811452	176824306	1	NPT2, SLC17A2	NAPI-3, NPTIIa, SLC11
5	SLC34A1	ENSG00000131183	ENST00000513614	processed_transcript	KNOWN	None	11019	None	None	176816648	176825841	1	NPT2, SLC17A2	NAPI-3, NPTIIa, SLC11
HSCHR6_MHC_SSTO	ZDHHC20P2	ENSG00000227405	ENST00000427014	processed_pseudogene	KNOWN	None	33457	None	None	31341099	31341525	1	None	OTTHUMG00000133740
HSCHR6_MHC_SSTO	HLA-S	ENSG00000226027	ENST00000416556	unprocessed_pseudogene	KNOWN	None	19395	None	None	31342777	31342994	-1	None	HLA-17
4	MIR3138	ENSG00000264931	ENST00000585238	miRNA	KNOWN	None	38341	None	None	10080235	10080316	-1	None	hsa-mir-3138
HSCHR6_MHC_SSTO	None	ENSG00000266250	ENST00000583561	misc_RNA	NOVEL	None	None	None	None	31362868	31362966	-1	None	None
7	None	ENSG00000228878	ENST00000437235	processed_transcript	KNOWN	None	None	None	None	35794574	35840216	-1	None	None
7	None	ENSG00000228878	ENST00000412856	processed_transcript	KNOWN	None	None	None	None	35794756	35840198	-1	None	None
7	None	ENSG00000228878	ENST00000424194	processed_transcript	KNOWN	None	None	None	None	35803374	35840226	-1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000258195	ENST00000552964	pseudogene	NOVEL	None	None	None	None	31378662	31378995	1	None	None
4	RNA5SP155	ENSG00000223086	ENST00000411154	rRNA	KNOWN	None	43055	None	None	10117380	10117508	-1	RN5S155	None
HSCHR6_MHC_SSTO	None	ENSG00000226768	ENST00000449972	processed_transcript	KNOWN	None	None	None	None	31402326	31407629	1	None	None
4	None	ENSG00000250393	ENST00000511779	processed_pseudogene	KNOWN	None	None	None	None	10144991	10145279	-1	None	None
HSCHR6_MHC_SSTO	HCP5	ENSG00000230389	ENST00000423496	processed_transcript	KNOWN	None	21659	None	None	31420864	31423498	1	None	D6S2650E, P5-1
HSCHR6_MHC_SSTO	HCP5	ENSG00000230389	ENST00000447631	processed_transcript	KNOWN	None	21659	None	None	31420874	31421506	1	None	D6S2650E, P5-1
10	None	ENSG00000215184	ENST00000399739	processed_pseudogene	KNOWN	None	None	None	None	34964563	34964969	-1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000265509	ENST00000579799	misc_RNA	NOVEL	None	None	None	None	31454424	31454525	-1	None	None
22	BRD1	ENSG00000100425	ENST00000438393	nonsense_mediated_decay	KNOWN	None	1102	1530	509	50166931	50216861	-1	None	BRL, BRPF2
22	BRD1	ENSG00000100425	ENST00000216267	protein_coding	KNOWN	CCDS14080	1102	3177	1058	50166931	50218452	-1	None	BRL, BRPF2
22	BRD1	ENSG00000100425	ENST00000404034	protein_coding	KNOWN	CCDS14080	1102	3177	1058	50166931	50219548	-1	None	BRL, BRPF2
22	BRD1	ENSG00000100425	ENST00000404760	protein_coding	NOVEL	None	1102	3570	1189	50166931	50221160	-1	None	BRL, BRPF2
22	BRD1	ENSG00000100425	ENST00000479985	retained_intron	KNOWN	None	1102	None	None	50168909	50169763	-1	None	BRL, BRPF2
22	BRD1	ENSG00000100425	ENST00000459821	processed_transcript	KNOWN	None	1102	None	None	50211860	50216949	-1	None	BRL, BRPF2
22	BRD1	ENSG00000100425	ENST00000494833	processed_transcript	KNOWN	None	1102	None	None	50214481	50216853	-1	None	BRL, BRPF2
22	BRD1	ENSG00000100425	ENST00000542442	protein_coding	KNOWN	None	1102	2241	746	50167466	50216949	-1	None	BRL, BRPF2
22	BRD1	ENSG00000100425	ENST00000342989	protein_coding	KNOWN	None	1102	2355	784	50167475	50216853	-1	None	BRL, BRPF2
22	BRD1	ENSG00000100425	ENST00000457780	protein_coding	KNOWN	None	1102	2988	995	50166932	50217981	-1	None	BRL, BRPF2
HSCHR6_MHC_MANN	ATAT1	ENSG00000235658	ENST00000449905	protein_coding	KNOWN	None	21186	903	300	30639294	30657131	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_MANN	ATAT1	ENSG00000235658	ENST00000442844	protein_coding	KNOWN	None	21186	1266	421	30639308	30659275	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_MANN	ATAT1	ENSG00000235658	ENST00000430611	protein_coding	KNOWN	None	21186	933	310	30639327	30657131	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_MANN	ATAT1	ENSG00000235658	ENST00000423654	protein_coding	KNOWN	None	21186	972	323	30639328	30657131	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_MANN	ATAT1	ENSG00000235658	ENST00000428764	protein_coding	KNOWN	None	21186	1002	333	30639338	30657131	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_MANN	ATAT1	ENSG00000235658	ENST00000416435	protein_coding	KNOWN	None	21186	1230	409	30639338	30659275	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_MANN	ATAT1	ENSG00000235658	ENST00000472552	processed_transcript	KNOWN	None	21186	None	None	30639345	30659275	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_MANN	ATAT1	ENSG00000235658	ENST00000482394	retained_intron	KNOWN	None	21186	None	None	30639367	30653150	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_MANN	ATAT1	ENSG00000235658	ENST00000464565	retained_intron	KNOWN	None	21186	None	None	30639372	30659275	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_MANN	ATAT1	ENSG00000235658	ENST00000491201	processed_transcript	KNOWN	None	21186	None	None	30640852	30658854	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_MANN	ATAT1	ENSG00000235658	ENST00000474976	retained_intron	KNOWN	None	21186	None	None	30654274	30659275	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_MANN	ATAT1	ENSG00000235658	ENST00000497740	retained_intron	KNOWN	None	21186	None	None	30655371	30659275	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_MANN	ATAT1	ENSG00000235658	ENST00000547124	protein_coding	KNOWN	None	21186	1197	398	30639308	30659254	1	C6orf134	FLJ13158, Em:AB023049.7, MEC17
HSCHR6_MHC_SSTO	PPIAP9	ENSG00000235596	ENST00000442288	processed_pseudogene	KNOWN	None	9272	None	None	31477203	31478014	-1	PPIP9	Em:AC006046.3
6	DACT2	ENSG00000164488	ENST00000366795	protein_coding	KNOWN	CCDS47519	21231	2325	774	168707584	168720402	-1	C6orf116	bA503C24.7, DAPPER2
6	DACT2	ENSG00000164488	ENST00000366796	protein_coding	KNOWN	None	21231	843	280	168693512	168720434	-1	C6orf116	bA503C24.7, DAPPER2
HSCHR6_MHC_SSTO	RPL15P4	ENSG00000231623	ENST00000445480	processed_pseudogene	KNOWN	None	21663	None	None	31485838	31486417	1	None	Em:AC006046.2
HSCHR6_MHC_SSTO	None	ENSG00000263358	ENST00000582702	snoRNA	KNOWN	None	None	None	None	31494098	31494173	-1	None	None
21	RNU6-123P	ENSG00000251972	ENST00000516163	snRNA	KNOWN	None	47086	None	None	27315359	27315460	-1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000263442	ENST00000581604	snoRNA	KNOWN	None	None	None	None	31498825	31498902	-1	None	None
21	None	ENSG00000224541	ENST00000455275	antisense	KNOWN	None	None	None	None	27530409	27548142	1	None	None
HSCHR6_MHC_SSTO	DDX39B-AS1	ENSG00000228245	ENST00000454053	processed_transcript	PUTATIVE	None	39771	None	None	31500028	31500855	1	None	None
HSCHR6_MHC_SSTO	DDX39B-AS1	ENSG00000228245	ENST00000425681	processed_transcript	PUTATIVE	None	39771	None	None	31500097	31500862	1	None	None
22	RNF215	ENSG00000099999	ENST00000421022	protein_coding	PUTATIVE	None	33434	105	34	30773835	30775763	-1	None	None
22	RNF215	ENSG00000099999	ENST00000382363	protein_coding	KNOWN	CCDS33633	33434	1134	377	30774806	30783377	-1	None	None
22	RNF215	ENSG00000099999	ENST00000215798	protein_coding	PUTATIVE	None	33434	1030	342	30774972	30783114	-1	None	None
22	RNF215	ENSG00000099999	ENST00000463319	retained_intron	KNOWN	None	33434	None	None	30775579	30780823	-1	None	None
22	RNF215	ENSG00000099999	ENST00000473077	retained_intron	KNOWN	None	33434	None	None	30780359	30782875	-1	None	None
22	RNF215	ENSG00000099999	ENST00000431544	protein_coding	PUTATIVE	None	33434	299	98	30781896	30817760	-1	None	None
1	CSRP1	ENSG00000159176	ENST00000367306	protein_coding	KNOWN	CCDS1413	2469	582	193	201452658	201478584	-1	CYRP	CSRP, D1S181E
1	CSRP1	ENSG00000159176	ENST00000533402	retained_intron	KNOWN	None	2469	None	None	201452660	201461627	-1	CYRP	CSRP, D1S181E
1	CSRP1	ENSG00000159176	ENST00000527662	retained_intron	KNOWN	None	2469	None	None	201452660	201462029	-1	CYRP	CSRP, D1S181E
1	CSRP1	ENSG00000159176	ENST00000532313	retained_intron	KNOWN	None	2469	None	None	201452660	201465429	-1	CYRP	CSRP, D1S181E
1	CSRP1	ENSG00000159176	ENST00000531916	protein_coding	PUTATIVE	None	2469	462	153	201453054	201478584	-1	CYRP	CSRP, D1S181E
1	CSRP1	ENSG00000159176	ENST00000532460	protein_coding	KNOWN	CCDS1413	2469	582	193	201453107	201465701	-1	CYRP	CSRP, D1S181E
1	CSRP1	ENSG00000159176	ENST00000526256	processed_transcript	KNOWN	None	2469	None	None	201453368	201476251	-1	CYRP	CSRP, D1S181E
1	CSRP1	ENSG00000159176	ENST00000533432	protein_coding	KNOWN	CCDS1413	2469	582	193	201453491	201475967	-1	CYRP	CSRP, D1S181E
1	CSRP1	ENSG00000159176	ENST00000530120	processed_transcript	KNOWN	None	2469	None	None	201453797	201476251	-1	CYRP	CSRP, D1S181E
1	CSRP1	ENSG00000159176	ENST00000526723	protein_coding	NOVEL	None	2469	483	160	201453805	201476251	-1	CYRP	CSRP, D1S181E
1	CSRP1	ENSG00000159176	ENST00000526317	processed_transcript	KNOWN	None	2469	None	None	201453805	201476251	-1	CYRP	CSRP, D1S181E
1	CSRP1	ENSG00000159176	ENST00000524951	protein_coding	PUTATIVE	None	2469	459	152	201453853	201476251	-1	CYRP	CSRP, D1S181E
1	CSRP1	ENSG00000159176	ENST00000458271	processed_transcript	KNOWN	None	2469	None	None	201455286	201476251	-1	CYRP	CSRP, D1S181E
1	CSRP1	ENSG00000159176	ENST00000527573	processed_transcript	KNOWN	None	2469	None	None	201456043	201476251	-1	CYRP	CSRP, D1S181E
1	CSRP1	ENSG00000159176	ENST00000529975	processed_transcript	KNOWN	None	2469	None	None	201457179	201475831	-1	CYRP	CSRP, D1S181E
1	CSRP1	ENSG00000159176	ENST00000533188	retained_intron	KNOWN	None	2469	None	None	201457755	201476251	-1	CYRP	CSRP, D1S181E
1	CSRP1	ENSG00000159176	ENST00000471596	processed_transcript	KNOWN	None	2469	None	None	201458862	201476231	-1	CYRP	CSRP, D1S181E
1	CSRP1	ENSG00000159176	ENST00000481851	processed_transcript	KNOWN	None	2469	None	None	201464727	201476232	-1	CYRP	CSRP, D1S181E
1	CSRP1	ENSG00000159176	ENST00000340006	protein_coding	KNOWN	CCDS1413	2469	582	193	201452662	201476387	-1	CYRP	CSRP, D1S181E
19	CD22	ENSG00000012124	ENST00000598537	protein_coding	KNOWN	None	1643	318	105	35810164	35823733	1	None	SIGLEC-2, SIGLEC2
19	CD22	ENSG00000012124	ENST00000601414	processed_transcript	KNOWN	None	1643	None	None	35810274	35827069	1	None	SIGLEC-2, SIGLEC2
19	CD22	ENSG00000012124	ENST00000595419	processed_transcript	KNOWN	None	1643	None	None	35819567	35823834	1	None	SIGLEC-2, SIGLEC2
19	CD22	ENSG00000012124	ENST00000599717	nonsense_mediated_decay	KNOWN	None	1643	117	38	35820069	35827037	1	None	SIGLEC-2, SIGLEC2
19	CD22	ENSG00000012124	ENST00000600131	protein_coding	KNOWN	None	1643	434	143	35820079	35826966	1	None	SIGLEC-2, SIGLEC2
19	CD22	ENSG00000012124	ENST00000598138	processed_transcript	KNOWN	None	1643	None	None	35820079	35827094	1	None	SIGLEC-2, SIGLEC2
19	CD22	ENSG00000012124	ENST00000599799	retained_intron	KNOWN	None	1643	None	None	35820090	35820814	1	None	SIGLEC-2, SIGLEC2
19	CD22	ENSG00000012124	ENST00000595780	protein_coding	KNOWN	None	1643	400	132	35820090	35823815	1	None	SIGLEC-2, SIGLEC2
19	CD22	ENSG00000012124	ENST00000602224	retained_intron	KNOWN	None	1643	None	None	35820090	35823993	1	None	SIGLEC-2, SIGLEC2
19	CD22	ENSG00000012124	ENST00000597916	protein_coding	KNOWN	None	1643	413	136	35820090	35826945	1	None	SIGLEC-2, SIGLEC2
19	CD22	ENSG00000012124	ENST00000596492	retained_intron	KNOWN	None	1643	None	None	35820090	35827049	1	None	SIGLEC-2, SIGLEC2
19	CD22	ENSG00000012124	ENST00000600905	processed_transcript	KNOWN	None	1643	None	None	35820090	35827122	1	None	SIGLEC-2, SIGLEC2
19	CD22	ENSG00000012124	ENST00000593867	protein_coding	KNOWN	None	1643	677	224	35820090	35827203	1	None	SIGLEC-2, SIGLEC2
19	CD22	ENSG00000012124	ENST00000601732	processed_transcript	KNOWN	None	1643	None	None	35820090	35828710	1	None	SIGLEC-2, SIGLEC2
19	CD22	ENSG00000012124	ENST00000598028	processed_transcript	KNOWN	None	1643	None	None	35820090	35828880	1	None	SIGLEC-2, SIGLEC2
19	CD22	ENSG00000012124	ENST00000600424	protein_coding	PUTATIVE	None	1643	476	157	35820090	35831853	1	None	SIGLEC-2, SIGLEC2
19	CD22	ENSG00000012124	ENST00000599811	protein_coding	PUTATIVE	None	1643	493	163	35820090	35831864	1	None	SIGLEC-2, SIGLEC2
19	CD22	ENSG00000012124	ENST00000598815	processed_transcript	KNOWN	None	1643	None	None	35820090	35832627	1	None	SIGLEC-2, SIGLEC2
19	CD22	ENSG00000012124	ENST00000601769	nonsense_mediated_decay	KNOWN	None	1643	576	191	35820090	35838169	1	None	SIGLEC-2, SIGLEC2
19	CD22	ENSG00000012124	ENST00000536635	protein_coding	NOVEL	CCDS54248	1643	2280	759	35820090	35838258	1	None	SIGLEC-2, SIGLEC2
19	CD22	ENSG00000012124	ENST00000085219	protein_coding	KNOWN	CCDS12457	1643	2544	847	35820090	35838258	1	None	SIGLEC-2, SIGLEC2
19	CD22	ENSG00000012124	ENST00000594954	retained_intron	KNOWN	None	1643	None	None	35820091	35820831	1	None	SIGLEC-2, SIGLEC2
19	CD22	ENSG00000012124	ENST00000601329	processed_transcript	KNOWN	None	1643	None	None	35820091	35829316	1	None	SIGLEC-2, SIGLEC2
19	CD22	ENSG00000012124	ENST00000597433	processed_transcript	KNOWN	None	1643	None	None	35820091	35831932	1	None	SIGLEC-2, SIGLEC2
19	CD22	ENSG00000012124	ENST00000600655	retained_intron	KNOWN	None	1643	None	None	35820098	35832746	1	None	SIGLEC-2, SIGLEC2
19	CD22	ENSG00000012124	ENST00000544992	protein_coding	NOVEL	CCDS54247	1643	2256	751	35820115	35837832	1	None	SIGLEC-2, SIGLEC2
19	CD22	ENSG00000012124	ENST00000419549	protein_coding	NOVEL	None	1643	2028	675	35820115	35837832	1	None	SIGLEC-2, SIGLEC2
19	CD22	ENSG00000012124	ENST00000594250	protein_coding	KNOWN	CCDS54249	1643	2013	670	35822919	35837669	1	None	SIGLEC-2, SIGLEC2
19	CD22	ENSG00000012124	ENST00000594349	nonsense_mediated_decay	KNOWN	None	1643	447	148	35823449	35829073	1	None	SIGLEC-2, SIGLEC2
19	CD22	ENSG00000012124	ENST00000594125	nonsense_mediated_decay	KNOWN	None	1643	438	145	35829157	35836029	1	None	SIGLEC-2, SIGLEC2
19	CD22	ENSG00000012124	ENST00000602123	retained_intron	KNOWN	None	1643	None	None	35832004	35832786	1	None	SIGLEC-2, SIGLEC2
19	CD22	ENSG00000012124	ENST00000593704	retained_intron	KNOWN	None	1643	None	None	35835634	35836327	1	None	SIGLEC-2, SIGLEC2
19	CD22	ENSG00000012124	ENST00000341773	protein_coding	KNOWN	CCDS54249	1643	2013	670	35820072	35838258	1	None	SIGLEC-2, SIGLEC2
19	CD22	ENSG00000012124	ENST00000270311	protein_coding	KNOWN	None	1643	1989	662	35820079	35838258	1	None	SIGLEC-2, SIGLEC2
14	VRK1	ENSG00000100749	ENST00000216639	protein_coding	KNOWN	CCDS9947	12718	1191	396	97263641	97347950	1	None	None
14	VRK1	ENSG00000100749	ENST00000555351	retained_intron	KNOWN	None	12718	None	None	97263722	97319392	1	None	None
14	VRK1	ENSG00000100749	ENST00000557222	protein_coding	PUTATIVE	None	12718	697	231	97319225	97398059	1	None	None
14	VRK1	ENSG00000100749	ENST00000557352	protein_coding	PUTATIVE	None	12718	529	175	97321641	97327259	1	None	None
14	VRK1	ENSG00000100749	ENST00000555067	processed_transcript	KNOWN	None	12718	None	None	97325246	97347728	1	None	None
14	VRK1	ENSG00000100749	ENST00000553683	protein_coding	NOVEL	None	12718	196	64	97342366	97347596	1	None	None
14	VRK1	ENSG00000100749	ENST00000555402	processed_transcript	PUTATIVE	None	12718	None	None	97343727	97347744	1	None	None
10	PARD3-AS1	ENSG00000226386	ENST00000446211	antisense	KNOWN	None	44964	None	None	35104695	35105314	1	None	None
16	None	ENSG00000261717	ENST00000567194	protein_coding	NOVEL	None	None	424	140	75446582	75498604	-1	None	None
16	None	ENSG00000261717	ENST00000561887	processed_transcript	KNOWN	None	None	None	None	75446601	75498450	-1	None	None
16	None	ENSG00000261717	ENST00000566594	protein_coding	NOVEL	None	None	254	83	75446602	75498450	-1	None	None
HSCHR6_MHC_MANN	HSD17B8	ENSG00000228357	ENST00000414463	protein_coding	KNOWN	None	3554	786	261	33326338	33328531	1	FABGL	HKE6, D6S2245E, RING2, KE6, H2-KE6, SDR30C1
HSCHR6_MHC_MANN	HSD17B8	ENSG00000228357	ENST00000481255	processed_transcript	KNOWN	None	3554	None	None	33326382	33328149	1	FABGL	HKE6, D6S2245E, RING2, KE6, H2-KE6, SDR30C1
19	C19orf69	ENSG00000204978	ENST00000378187	protein_coding	KNOWN	CCDS46085	34497	393	130	41949063	41950670	1	None	LOC100170765
7	None	ENSG00000232736	ENST00000457394	processed_pseudogene	KNOWN	None	None	None	None	35807732	35808250	-1	None	None
16	IQCK	ENSG00000174628	ENST00000568126	nonsense_mediated_decay	KNOWN	None	28556	285	94	19727778	19800560	1	None	MGC35048, FLJ36575
16	IQCK	ENSG00000174628	ENST00000308214	nonsense_mediated_decay	KNOWN	None	28556	570	189	19727778	19868861	1	None	MGC35048, FLJ36575
16	IQCK	ENSG00000174628	ENST00000320394	protein_coding	KNOWN	CCDS10580	28556	864	287	19727778	19868907	1	None	MGC35048, FLJ36575
16	IQCK	ENSG00000174628	ENST00000564955	nonsense_mediated_decay	KNOWN	None	28556	285	94	19729601	19867963	1	None	MGC35048, FLJ36575
16	IQCK	ENSG00000174628	ENST00000564186	protein_coding	PUTATIVE	None	28556	849	282	19729602	19838512	1	None	MGC35048, FLJ36575
16	IQCK	ENSG00000174628	ENST00000568300	retained_intron	KNOWN	None	28556	None	None	19729605	19868861	1	None	MGC35048, FLJ36575
16	IQCK	ENSG00000174628	ENST00000564515	retained_intron	KNOWN	None	28556	None	None	19729620	19746980	1	None	MGC35048, FLJ36575
16	IQCK	ENSG00000174628	ENST00000561839	nonsense_mediated_decay	KNOWN	None	28556	370	122	19729637	19868058	1	None	MGC35048, FLJ36575
16	IQCK	ENSG00000174628	ENST00000561935	nonsense_mediated_decay	KNOWN	None	28556	502	166	19729649	19838397	1	None	MGC35048, FLJ36575
16	IQCK	ENSG00000174628	ENST00000566312	retained_intron	KNOWN	None	28556	None	None	19729738	19745355	1	None	MGC35048, FLJ36575
16	IQCK	ENSG00000174628	ENST00000568387	processed_transcript	KNOWN	None	28556	None	None	19746675	19747095	1	None	MGC35048, FLJ36575
16	IQCK	ENSG00000174628	ENST00000562762	processed_transcript	KNOWN	None	28556	None	None	19772452	19867992	1	None	MGC35048, FLJ36575
16	IQCK	ENSG00000174628	ENST00000568236	retained_intron	KNOWN	None	28556	None	None	19772511	19775659	1	None	MGC35048, FLJ36575
16	IQCK	ENSG00000174628	ENST00000568061	protein_coding	PUTATIVE	None	28556	177	58	19838386	19868907	1	None	MGC35048, FLJ36575
16	IQCK	ENSG00000174628	ENST00000541926	protein_coding	KNOWN	None	28556	720	239	19729607	19868009	1	None	MGC35048, FLJ36575
16	IQCK	ENSG00000174628	ENST00000433597	protein_coding	KNOWN	None	28556	600	199	19729637	19867963	1	None	MGC35048, FLJ36575
1	IGSF3	ENSG00000143061	ENST00000369486	protein_coding	KNOWN	CCDS30813	5950	3585	1194	117117031	117210375	-1	None	V8, EWI-3, MGC117164
1	IGSF3	ENSG00000143061	ENST00000318837	protein_coding	KNOWN	CCDS30814	5950	3645	1214	117119842	117209053	-1	None	V8, EWI-3, MGC117164
1	IGSF3	ENSG00000143061	ENST00000481589	protein_coding	PUTATIVE	None	5950	15	4	117158886	117189567	-1	None	V8, EWI-3, MGC117164
1	IGSF3	ENSG00000143061	ENST00000369483	protein_coding	KNOWN	CCDS30814	5950	3645	1214	117117031	117210314	-1	None	V8, EWI-3, MGC117164
HSCHR6_MHC_SSTO	UQCRHP1	ENSG00000228926	ENST00000456063	processed_pseudogene	KNOWN	None	31341	None	None	31568810	31569083	-1	UQCRHP5	Em:AF129756.18
1	THRAP3	ENSG00000054118	ENST00000354618	protein_coding	KNOWN	CCDS405	22964	2868	955	36690017	36770958	1	None	TRAP150
1	THRAP3	ENSG00000054118	ENST00000469141	protein_coding	KNOWN	CCDS405	22964	2868	955	36690033	36769749	1	None	TRAP150
1	THRAP3	ENSG00000054118	ENST00000478853	protein_coding	KNOWN	None	22964	121	39	36690034	36748285	1	None	TRAP150
1	THRAP3	ENSG00000054118	ENST00000466743	processed_transcript	KNOWN	None	22964	None	None	36755319	36759770	1	None	TRAP150
HSCHR6_MHC_SSTO	None	ENSG00000263994	ENST00000581480	snoRNA	KNOWN	None	None	None	None	31580798	31580929	1	None	None
HSCHR6_MHC_SSTO	C6orf47-AS1	ENSG00000227853	ENST00000456885	processed_transcript	PUTATIVE	None	39767	None	None	31616046	31618436	1	None	None
6	SMOC2	ENSG00000112562	ENST00000356284	protein_coding	KNOWN	CCDS55076	20323	1341	446	168841831	169068674	1	None	SMAP2
6	SMOC2	ENSG00000112562	ENST00000354536	protein_coding	KNOWN	CCDS5307	20323	1374	457	168841831	169068674	1	None	SMAP2
6	SMOC2	ENSG00000112562	ENST00000392100	nonsense_mediated_decay	KNOWN	None	20323	204	67	169053725	169067183	1	None	SMAP2
6	SMOC2	ENSG00000112562	ENST00000417208	protein_coding	KNOWN	None	20323	255	84	169053764	169065904	1	None	SMAP2
6	SMOC2	ENSG00000112562	ENST00000477998	processed_transcript	KNOWN	None	20323	None	None	169053883	169073984	1	None	SMAP2
HSCHR6_MHC_SSTO	None	ENSG00000257895	ENST00000547017	pseudogene	NOVEL	None	None	None	None	31616725	31617664	-1	None	None
16	TMEM170A	ENSG00000166822	ENST00000357613	protein_coding	KNOWN	None	29577	366	121	75476952	75498587	-1	TMEM170	FLJ37611
16	TMEM170A	ENSG00000166822	ENST00000568559	nonsense_mediated_decay	KNOWN	None	29577	366	121	75477146	75498587	-1	TMEM170	FLJ37611
16	TMEM170A	ENSG00000166822	ENST00000569540	protein_coding	PUTATIVE	None	29577	321	106	75479612	75498314	-1	TMEM170	FLJ37611
16	TMEM170A	ENSG00000166822	ENST00000561878	protein_coding	KNOWN	CCDS10917	29577	435	144	75480917	75498596	-1	TMEM170	FLJ37611
16	TMEM170A	ENSG00000166822	ENST00000567796	protein_coding	PUTATIVE	None	29577	300	99	75481100	75499395	-1	TMEM170	FLJ37611
16	TMEM170A	ENSG00000166822	ENST00000566980	protein_coding	PUTATIVE	None	29577	231	76	75481208	75498635	-1	TMEM170	FLJ37611
16	TMEM170A	ENSG00000166822	ENST00000569276	protein_coding	PUTATIVE	None	29577	342	113	75485334	75498570	-1	TMEM170	FLJ37611
7	None	ENSG00000221156	ENST00000408229	miRNA	NOVEL	None	None	None	None	35882499	35882583	1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000266716	ENST00000584417	misc_RNA	NOVEL	None	None	None	None	31621012	31621125	1	None	None
14	DACT1	ENSG00000165617	ENST00000555845	processed_transcript	KNOWN	None	17748	None	None	59100685	59112190	1	None	DAPPER1, THYEX3, HDPR1, DAPPER, FRODO
14	DACT1	ENSG00000165617	ENST00000556859	protein_coding	NOVEL	None	17748	1668	555	59100786	59113918	1	None	DAPPER1, THYEX3, HDPR1, DAPPER, FRODO
14	DACT1	ENSG00000165617	ENST00000421793	protein_coding	PUTATIVE	None	17748	390	129	59100799	59112574	1	None	DAPPER1, THYEX3, HDPR1, DAPPER, FRODO
14	DACT1	ENSG00000165617	ENST00000395151	protein_coding	NOVEL	None	17748	1668	555	59100802	59115003	1	None	DAPPER1, THYEX3, HDPR1, DAPPER, FRODO
14	DACT1	ENSG00000165617	ENST00000395153	protein_coding	NOVEL	CCDS41961	17748	2400	799	59104774	59115039	1	None	DAPPER1, THYEX3, HDPR1, DAPPER, FRODO
14	DACT1	ENSG00000165617	ENST00000335867	protein_coding	KNOWN	CCDS9736	17748	2511	836	59104897	59113888	1	None	DAPPER1, THYEX3, HDPR1, DAPPER, FRODO
14	DACT1	ENSG00000165617	ENST00000541264	protein_coding	NOVEL	None	17748	1668	555	59105555	59113981	1	None	DAPPER1, THYEX3, HDPR1, DAPPER, FRODO
HSCHR6_MHC_SSTO	None	ENSG00000257238	ENST00000553124	pseudogene	NOVEL	None	None	None	None	31630220	31630465	1	None	None
19	COL5A3	ENSG00000080573	ENST00000264828	protein_coding	KNOWN	CCDS12222	14864	5238	1745	10070237	10121147	-1	None	None
19	COL5A3	ENSG00000080573	ENST00000461214	retained_intron	KNOWN	None	14864	None	None	10078249	10079563	-1	None	None
HSCHR6_MHC_SSTO	MIR4646	ENSG00000265412	ENST00000585157	miRNA	KNOWN	None	41543	None	None	31658768	31658830	-1	None	hsa-mir-4646
HSCHR6_MHC_SSTO	None	ENSG00000263638	ENST00000579440	snRNA	NOVEL	None	None	None	None	31714683	31714785	-1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000264778	ENST00000580300	misc_RNA	NOVEL	None	None	None	None	31736548	31736636	-1	None	None
HSCHR6_MHC_MCF	ABHD16A	ENSG00000236063	ENST00000462535	retained_intron	KNOWN	None	13921	None	None	31731015	31732449	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_MCF	ABHD16A	ENSG00000236063	ENST00000488736	retained_intron	KNOWN	None	13921	None	None	31731015	31734662	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_MCF	ABHD16A	ENSG00000236063	ENST00000488103	processed_transcript	KNOWN	None	13921	None	None	31731015	31747134	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_MCF	ABHD16A	ENSG00000236063	ENST00000479248	processed_transcript	KNOWN	None	13921	None	None	31731015	31747401	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_MCF	ABHD16A	ENSG00000236063	ENST00000457366	protein_coding	KNOWN	None	13921	1806	601	31731015	31747477	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_MCF	ABHD16A	ENSG00000236063	ENST00000464973	retained_intron	KNOWN	None	13921	None	None	31731447	31732381	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_MCF	ABHD16A	ENSG00000236063	ENST00000493314	retained_intron	KNOWN	None	13921	None	None	31731635	31732363	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_MCF	ABHD16A	ENSG00000236063	ENST00000495299	processed_transcript	KNOWN	None	13921	None	None	31731713	31734305	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_MCF	ABHD16A	ENSG00000236063	ENST00000483462	retained_intron	KNOWN	None	13921	None	None	31731833	31735706	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_MCF	ABHD16A	ENSG00000236063	ENST00000460398	processed_transcript	KNOWN	None	13921	None	None	31733075	31747394	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_MCF	ABHD16A	ENSG00000236063	ENST00000422411	protein_coding	KNOWN	None	13921	791	262	31734616	31746927	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_MCF	ABHD16A	ENSG00000236063	ENST00000471249	processed_transcript	KNOWN	None	13921	None	None	31735506	31737116	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_MCF	ABHD16A	ENSG00000236063	ENST00000495978	retained_intron	KNOWN	None	13921	None	None	31735649	31736354	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_MCF	ABHD16A	ENSG00000236063	ENST00000547325	protein_coding	KNOWN	None	13921	1677	558	31731009	31747421	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_MCF	ABHD16A	ENSG00000236063	ENST00000549853	protein_coding	KNOWN	None	13921	1578	525	31731009	31747134	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_SSTO	None	ENSG00000224766	ENST00000416010	processed_transcript	PUTATIVE	None	None	None	None	31843423	31843716	1	None	None
7	RNU6-1085P	ENSG00000200446	ENST00000363576	snRNA	KNOWN	None	48048	None	None	35969768	35969874	-1	None	None
HSCHR6_MHC_SSTO	C4B-AS1	ENSG00000225773	ENST00000429349	processed_transcript	PUTATIVE	None	39752	None	None	31894078	31901352	-1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000264555	ENST00000578791	miRNA	KNOWN	None	None	None	None	31916468	31916569	-1	None	None
13	None	ENSG00000269591	ENST00000601204	protein_coding	NOVEL	None	None	183	60	20268547	20269240	1	None	None
7	LMBR1	ENSG00000105983	ENST00000353442	protein_coding	KNOWN	CCDS5945	13243	1473	490	156473571	156685924	-1	C7orf2	ACHP, FLJ11665, ZRS
7	LMBR1	ENSG00000105983	ENST00000448926	nonsense_mediated_decay	KNOWN	None	13243	138	45	156474214	156589187	-1	C7orf2	ACHP, FLJ11665, ZRS
7	LMBR1	ENSG00000105983	ENST00000415428	protein_coding	KNOWN	None	13243	1590	529	156474905	156685681	-1	C7orf2	ACHP, FLJ11665, ZRS
7	LMBR1	ENSG00000105983	ENST00000454132	nonsense_mediated_decay	KNOWN	None	13243	159	52	156475685	156685853	-1	C7orf2	ACHP, FLJ11665, ZRS
7	LMBR1	ENSG00000105983	ENST00000434503	nonsense_mediated_decay	KNOWN	None	13243	234	77	156480792	156685902	-1	C7orf2	ACHP, FLJ11665, ZRS
7	LMBR1	ENSG00000105983	ENST00000461603	processed_transcript	KNOWN	None	13243	None	None	156480797	156540672	-1	C7orf2	ACHP, FLJ11665, ZRS
7	LMBR1	ENSG00000105983	ENST00000486837	retained_intron	KNOWN	None	13243	None	None	156480808	156518797	-1	C7orf2	ACHP, FLJ11665, ZRS
7	LMBR1	ENSG00000105983	ENST00000477983	retained_intron	KNOWN	None	13243	None	None	156526555	156555871	-1	C7orf2	ACHP, FLJ11665, ZRS
7	LMBR1	ENSG00000105983	ENST00000430278	processed_transcript	KNOWN	None	13243	None	None	156555804	156685877	-1	C7orf2	ACHP, FLJ11665, ZRS
7	LMBR1	ENSG00000105983	ENST00000434278	nonsense_mediated_decay	KNOWN	None	13243	144	47	156555819	156685876	-1	C7orf2	ACHP, FLJ11665, ZRS
7	LMBR1	ENSG00000105983	ENST00000444719	nonsense_mediated_decay	KNOWN	None	13243	192	63	156555837	156685851	-1	C7orf2	ACHP, FLJ11665, ZRS
7	LMBR1	ENSG00000105983	ENST00000461469	processed_transcript	KNOWN	None	13243	None	None	156556397	156685273	-1	C7orf2	ACHP, FLJ11665, ZRS
7	LMBR1	ENSG00000105983	ENST00000414218	nonsense_mediated_decay	KNOWN	None	13243	117	38	156589168	156685873	-1	C7orf2	ACHP, FLJ11665, ZRS
7	LMBR1	ENSG00000105983	ENST00000434453	nonsense_mediated_decay	KNOWN	None	13243	147	48	156614935	156685910	-1	C7orf2	ACHP, FLJ11665, ZRS
7	LMBR1	ENSG00000105983	ENST00000498034	processed_transcript	KNOWN	None	13243	None	None	156619293	156685284	-1	C7orf2	ACHP, FLJ11665, ZRS
7	LMBR1	ENSG00000105983	ENST00000433968	processed_transcript	KNOWN	None	13243	None	None	156619328	156685877	-1	C7orf2	ACHP, FLJ11665, ZRS
7	LMBR1	ENSG00000105983	ENST00000485985	retained_intron	KNOWN	None	13243	None	None	156626172	156685877	-1	C7orf2	ACHP, FLJ11665, ZRS
7	LMBR1	ENSG00000105983	ENST00000540390	protein_coding	KNOWN	None	13243	1248	415	156476254	156685873	-1	C7orf2	ACHP, FLJ11665, ZRS
7	LMBR1	ENSG00000105983	ENST00000354505	protein_coding	KNOWN	None	13243	1596	531	156475634	156685841	-1	C7orf2	ACHP, FLJ11665, ZRS
7	LMBR1	ENSG00000105983	ENST00000359422	protein_coding	KNOWN	None	13243	855	284	156474215	156589187	-1	C7orf2	ACHP, FLJ11665, ZRS
HSCHR6_MHC_SSTO	None	ENSG00000232577	ENST00000455091	processed_transcript	PUTATIVE	None	None	None	None	31959605	31963150	-1	None	None
9	DNAJA1	ENSG00000086061	ENST00000330899	protein_coding	KNOWN	CCDS6533	5229	1194	397	33025209	33039905	1	HSJ2	HSPF4, hdj-2, dj-2, NEDD7
9	DNAJA1	ENSG00000086061	ENST00000495015	processed_transcript	KNOWN	None	5229	None	None	33025284	33038724	1	HSJ2	HSPF4, hdj-2, dj-2, NEDD7
9	DNAJA1	ENSG00000086061	ENST00000465677	processed_transcript	KNOWN	None	5229	None	None	33034258	33037330	1	HSJ2	HSPF4, hdj-2, dj-2, NEDD7
9	DNAJA1	ENSG00000086061	ENST00000544625	protein_coding	KNOWN	None	5229	723	240	33025273	33039220	1	HSJ2	HSPF4, hdj-2, dj-2, NEDD7
17	TMC8	ENSG00000167895	ENST00000590426	protein_coding	KNOWN	None	20474	7	1	76126851	76127676	1	EVER2	EVIN2
17	TMC8	ENSG00000167895	ENST00000590799	protein_coding	PUTATIVE	None	20474	589	195	76126859	76128546	1	EVER2	EVIN2
17	TMC8	ENSG00000167895	ENST00000318430	protein_coding	KNOWN	CCDS32749	20474	2181	726	76126867	76139049	1	EVER2	EVIN2
17	TMC8	ENSG00000167895	ENST00000589691	protein_coding	KNOWN	None	20474	1512	503	76126869	76139048	1	EVER2	EVIN2
17	TMC8	ENSG00000167895	ENST00000592399	processed_transcript	PUTATIVE	None	20474	None	None	76130949	76133128	1	EVER2	EVIN2
17	TMC8	ENSG00000167895	ENST00000591983	retained_intron	KNOWN	None	20474	None	None	76130949	76134152	1	EVER2	EVIN2
17	TMC8	ENSG00000167895	ENST00000590184	processed_transcript	KNOWN	None	20474	None	None	76131030	76134152	1	EVER2	EVIN2
17	TMC8	ENSG00000167895	ENST00000591003	processed_transcript	PUTATIVE	None	20474	None	None	76133735	76134248	1	EVER2	EVIN2
17	TMC8	ENSG00000167895	ENST00000591144	processed_transcript	KNOWN	None	20474	None	None	76134444	76137310	1	EVER2	EVIN2
21	U2AF1	ENSG00000160201	ENST00000471250	retained_intron	KNOWN	None	12453	None	None	44513066	44516053	-1	U2AFBP	U2AF35, RNU2AF1, RN
21	U2AF1	ENSG00000160201	ENST00000478282	retained_intron	KNOWN	None	12453	None	None	44513066	44516500	-1	U2AFBP	U2AF35, RNU2AF1, RN
21	U2AF1	ENSG00000160201	ENST00000459639	protein_coding	KNOWN	CCDS42948	12453	504	167	44513066	44525362	-1	U2AFBP	U2AF35, RNU2AF1, RN
21	U2AF1	ENSG00000160201	ENST00000464750	nonsense_mediated_decay	KNOWN	None	12453	228	75	44513066	44527634	-1	U2AFBP	U2AF35, RNU2AF1, RN
21	U2AF1	ENSG00000160201	ENST00000475639	retained_intron	KNOWN	None	12453	None	None	44513066	44527634	-1	U2AFBP	U2AF35, RNU2AF1, RN
21	U2AF1	ENSG00000160201	ENST00000380276	protein_coding	KNOWN	CCDS33574	12453	723	240	44513066	44527675	-1	U2AFBP	U2AF35, RNU2AF1, RN
21	U2AF1	ENSG00000160201	ENST00000291552	protein_coding	KNOWN	CCDS13694	12453	723	240	44513066	44527697	-1	U2AFBP	U2AF35, RNU2AF1, RN
21	U2AF1	ENSG00000160201	ENST00000486519	processed_transcript	KNOWN	None	12453	None	None	44513300	44527680	-1	U2AFBP	U2AF35, RNU2AF1, RN
21	U2AF1	ENSG00000160201	ENST00000463599	retained_intron	KNOWN	None	12453	None	None	44515812	44524586	-1	U2AFBP	U2AF35, RNU2AF1, RN
21	U2AF1	ENSG00000160201	ENST00000496462	retained_intron	KNOWN	None	12453	None	None	44517732	44527634	-1	U2AFBP	U2AF35, RNU2AF1, RN
21	U2AF1	ENSG00000160201	ENST00000468039	retained_intron	KNOWN	None	12453	None	None	44520563	44522017	-1	U2AFBP	U2AF35, RNU2AF1, RN
21	U2AF1	ENSG00000160201	ENST00000398137	protein_coding	KNOWN	CCDS42948	12453	504	167	44513067	44527688	-1	U2AFBP	U2AF35, RNU2AF1, RN
1	C1orf137	ENSG00000203864	ENST00000369482	protein_coding	KNOWN	None	32040	297	98	117236734	117249225	1	None	None
11	APBB1	ENSG00000166313	ENST00000526240	processed_transcript	PUTATIVE	None	581	None	None	6416355	6417804	-1	RIR	Fe65
11	APBB1	ENSG00000166313	ENST00000299402	protein_coding	KNOWN	CCDS31410	581	2127	708	6416355	6440300	-1	RIR	Fe65
11	APBB1	ENSG00000166313	ENST00000311051	protein_coding	KNOWN	CCDS31410	581	2127	708	6416355	6440644	-1	RIR	Fe65
11	APBB1	ENSG00000166313	ENST00000524626	processed_transcript	KNOWN	None	581	None	None	6416388	6424014	-1	RIR	Fe65
11	APBB1	ENSG00000166313	ENST00000529519	processed_transcript	KNOWN	None	581	None	None	6416393	6426671	-1	RIR	Fe65
11	APBB1	ENSG00000166313	ENST00000530885	protein_coding	NOVEL	CCDS58114	581	1467	488	6416698	6426128	-1	RIR	Fe65
11	APBB1	ENSG00000166313	ENST00000533407	protein_coding	NOVEL	None	581	789	262	6422282	6440301	-1	RIR	Fe65
11	APBB1	ENSG00000166313	ENST00000529778	retained_intron	KNOWN	None	581	None	None	6422304	6423439	-1	RIR	Fe65
11	APBB1	ENSG00000166313	ENST00000526925	retained_intron	KNOWN	None	581	None	None	6422407	6426093	-1	RIR	Fe65
11	APBB1	ENSG00000166313	ENST00000533139	retained_intron	KNOWN	None	581	None	None	6422577	6426026	-1	RIR	Fe65
11	APBB1	ENSG00000166313	ENST00000529890	processed_transcript	KNOWN	None	581	None	None	6422595	6426026	-1	RIR	Fe65
11	APBB1	ENSG00000166313	ENST00000534188	retained_intron	KNOWN	None	581	None	None	6422817	6426015	-1	RIR	Fe65
11	APBB1	ENSG00000166313	ENST00000532020	processed_transcript	KNOWN	None	581	None	None	6423823	6425894	-1	RIR	Fe65
11	APBB1	ENSG00000166313	ENST00000389906	protein_coding	KNOWN	None	581	2133	710	6416355	6440300	-1	RIR	Fe65
12	KRT73	ENSG00000186049	ENST00000305748	protein_coding	KNOWN	CCDS8834	28928	1623	540	53001354	53012343	-1	None	KRT6IRS3, K6IRS3
12	KRT73	ENSG00000186049	ENST00000546934	retained_intron	KNOWN	None	28928	None	None	53001520	53012333	-1	None	KRT6IRS3, K6IRS3
12	KRT73	ENSG00000186049	ENST00000552855	protein_coding	NOVEL	None	28928	858	285	53001921	53009116	-1	None	KRT6IRS3, K6IRS3
7	SEPT7P3	ENSG00000226102	ENST00000455017	unprocessed_pseudogene	KNOWN	None	38038	None	None	35985904	36012197	1	None	None
7	SEPT7P3	ENSG00000226102	ENST00000462732	unprocessed_pseudogene	KNOWN	None	38038	None	None	36006023	36013282	1	None	None
1	CD2	ENSG00000116824	ENST00000369478	protein_coding	KNOWN	CCDS889	1639	1056	351	117297007	117311850	1	SRBC	None
1	CD2	ENSG00000116824	ENST00000369477	protein_coding	KNOWN	None	1639	402	133	117297089	117297643	1	SRBC	None
13	CUL4A	ENSG00000139842	ENST00000326335	protein_coding	KNOWN	CCDS9533	2554	1980	659	113863150	113919399	1	None	None
13	CUL4A	ENSG00000139842	ENST00000375440	protein_coding	KNOWN	CCDS41908	2554	2280	759	113863858	113917896	1	None	None
13	CUL4A	ENSG00000139842	ENST00000488558	processed_transcript	KNOWN	None	2554	None	None	113863914	113884266	1	None	None
13	CUL4A	ENSG00000139842	ENST00000474116	processed_transcript	KNOWN	None	2554	None	None	113863930	113874126	1	None	None
13	CUL4A	ENSG00000139842	ENST00000494985	processed_transcript	KNOWN	None	2554	None	None	113863944	113882331	1	None	None
13	CUL4A	ENSG00000139842	ENST00000463426	processed_transcript	KNOWN	None	2554	None	None	113864147	113884592	1	None	None
13	CUL4A	ENSG00000139842	ENST00000498562	processed_transcript	KNOWN	None	2554	None	None	113864197	113891139	1	None	None
13	CUL4A	ENSG00000139842	ENST00000470067	processed_transcript	KNOWN	None	2554	None	None	113898537	113909089	1	None	None
13	CUL4A	ENSG00000139842	ENST00000472083	processed_transcript	KNOWN	None	2554	None	None	113900270	113917873	1	None	None
13	CUL4A	ENSG00000139842	ENST00000375441	protein_coding	KNOWN	CCDS9533	2554	1980	659	113862552	113917896	1	None	None
13	CUL4A	ENSG00000139842	ENST00000451881	protein_coding	KNOWN	CCDS9533	2554	1980	659	113863086	113919391	1	None	None
11	SBF2	ENSG00000133812	ENST00000256190	protein_coding	KNOWN	CCDS31427	2135	5550	1849	9800214	10315754	-1	CMT4B2	KIAA1766, MTMR13, DENND7B
11	SBF2	ENSG00000133812	ENST00000525040	retained_intron	KNOWN	None	2135	None	None	9800701	9809520	-1	CMT4B2	KIAA1766, MTMR13, DENND7B
11	SBF2	ENSG00000133812	ENST00000529587	retained_intron	KNOWN	None	2135	None	None	9803095	9806896	-1	CMT4B2	KIAA1766, MTMR13, DENND7B
11	SBF2	ENSG00000133812	ENST00000532095	protein_coding	PUTATIVE	None	2135	399	132	9806480	9810751	-1	CMT4B2	KIAA1766, MTMR13, DENND7B
11	SBF2	ENSG00000133812	ENST00000528478	retained_intron	KNOWN	None	2135	None	None	9817461	9834301	-1	CMT4B2	KIAA1766, MTMR13, DENND7B
11	SBF2	ENSG00000133812	ENST00000525697	processed_transcript	PUTATIVE	None	2135	None	None	9830121	9832019	-1	CMT4B2	KIAA1766, MTMR13, DENND7B
11	SBF2	ENSG00000133812	ENST00000530741	protein_coding	NOVEL	None	2135	993	330	9830459	9861150	-1	CMT4B2	KIAA1766, MTMR13, DENND7B
11	SBF2	ENSG00000133812	ENST00000524961	processed_transcript	PUTATIVE	None	2135	None	None	9834133	9841052	-1	CMT4B2	KIAA1766, MTMR13, DENND7B
11	SBF2	ENSG00000133812	ENST00000533584	retained_intron	KNOWN	None	2135	None	None	9834182	9851215	-1	CMT4B2	KIAA1766, MTMR13, DENND7B
11	SBF2	ENSG00000133812	ENST00000533770	retained_intron	KNOWN	None	2135	None	None	9859586	10215504	-1	CMT4B2	KIAA1766, MTMR13, DENND7B
11	SBF2	ENSG00000133812	ENST00000420722	protein_coding	NOVEL	None	2135	1188	395	9875254	10014651	-1	CMT4B2	KIAA1766, MTMR13, DENND7B
11	SBF2	ENSG00000133812	ENST00000526353	retained_intron	KNOWN	None	2135	None	None	9978115	9989903	-1	CMT4B2	KIAA1766, MTMR13, DENND7B
11	SBF2	ENSG00000133812	ENST00000527019	processed_transcript	KNOWN	None	2135	None	None	10014559	10066153	-1	CMT4B2	KIAA1766, MTMR13, DENND7B
11	SBF2	ENSG00000133812	ENST00000533661	retained_intron	KNOWN	None	2135	None	None	10038015	10064537	-1	CMT4B2	KIAA1766, MTMR13, DENND7B
5	ENC1	ENSG00000171617	ENST00000302351	protein_coding	KNOWN	CCDS4021	3345	1770	589	73923234	73937249	-1	NRPB	PIG10, ENC-1, TP53I10, KLHL37
5	ENC1	ENSG00000171617	ENST00000510316	protein_coding	PUTATIVE	CCDS58958	3345	1551	516	73923234	73937249	-1	NRPB	PIG10, ENC-1, TP53I10, KLHL37
5	ENC1	ENSG00000171617	ENST00000509284	processed_transcript	PUTATIVE	None	3345	None	None	73925377	73928087	-1	NRPB	PIG10, ENC-1, TP53I10, KLHL37
5	ENC1	ENSG00000171617	ENST00000508331	protein_coding	KNOWN	None	3345	149	48	73932162	73937249	-1	NRPB	PIG10, ENC-1, TP53I10, KLHL37
5	ENC1	ENSG00000171617	ENST00000509127	protein_coding	KNOWN	None	3345	12	3	73932299	73936553	-1	NRPB	PIG10, ENC-1, TP53I10, KLHL37
5	ENC1	ENSG00000171617	ENST00000537006	protein_coding	KNOWN	CCDS4021	3345	1770	589	73925754	73936474	-1	NRPB	PIG10, ENC-1, TP53I10, KLHL37
13	ZMYM5	ENSG00000132950	ENST00000382909	retained_intron	KNOWN	None	13029	None	None	20397622	20425936	-1	ZNF237	ZNF198L1, MYM
13	ZMYM5	ENSG00000132950	ENST00000535942	retained_intron	KNOWN	None	13029	None	None	20397622	20437752	-1	ZNF237	ZNF198L1, MYM
13	ZMYM5	ENSG00000132950	ENST00000502168	protein_coding	NOVEL	None	13029	1980	659	20397993	20426290	-1	ZNF237	ZNF198L1, MYM
13	ZMYM5	ENSG00000132950	ENST00000382907	protein_coding	KNOWN	CCDS31943	13029	627	208	20411593	20437648	-1	ZNF237	ZNF198L1, MYM
13	ZMYM5	ENSG00000132950	ENST00000382905	protein_coding	KNOWN	CCDS31942	13029	1149	382	20411605	20437664	-1	ZNF237	ZNF198L1, MYM
13	ZMYM5	ENSG00000132950	ENST00000467542	retained_intron	KNOWN	None	13029	None	None	20411605	20437664	-1	ZNF237	ZNF198L1, MYM
13	ZMYM5	ENSG00000132950	ENST00000495534	retained_intron	KNOWN	None	13029	None	None	20411605	20437664	-1	ZNF237	ZNF198L1, MYM
13	ZMYM5	ENSG00000132950	ENST00000337963	protein_coding	KNOWN	None	13029	2010	669	20397624	20437776	-1	ZNF237	ZNF198L1, MYM
1	None	ENSG00000269690	ENST00000593583	protein_coding	NOVEL	None	None	726	241	201592013	201592738	1	None	None
20	GNRH2	ENSG00000125787	ENST00000245983	protein_coding	KNOWN	CCDS13040	4420	363	120	3024268	3026393	1	None	None
20	GNRH2	ENSG00000125787	ENST00000359100	protein_coding	KNOWN	CCDS13041	4420	342	113	3024268	3026393	1	None	None
20	GNRH2	ENSG00000125787	ENST00000380347	protein_coding	KNOWN	CCDS13041	4420	342	113	3024656	3026393	1	None	None
20	GNRH2	ENSG00000125787	ENST00000380346	protein_coding	KNOWN	CCDS13042	4420	339	112	3025058	3026393	1	None	None
20	GNRH2	ENSG00000125787	ENST00000359987	protein_coding	KNOWN	CCDS13042	4420	339	112	3024268	3026391	1	None	None
12	UBE2N	ENSG00000177889	ENST00000548946	processed_transcript	PUTATIVE	None	12492	None	None	93799449	93801099	-1	None	UbcH-ben, UBC13, MGC8489
12	UBE2N	ENSG00000177889	ENST00000318066	protein_coding	KNOWN	CCDS31875	12492	459	152	93800981	93836038	-1	None	UbcH-ben, UBC13, MGC8489
12	UBE2N	ENSG00000177889	ENST00000550657	protein_coding	NOVEL	None	12492	459	152	93802147	93835719	-1	None	UbcH-ben, UBC13, MGC8489
12	UBE2N	ENSG00000177889	ENST00000549833	protein_coding	PUTATIVE	None	12492	270	89	93803518	93835032	-1	None	UbcH-ben, UBC13, MGC8489
12	UBE2N	ENSG00000177889	ENST00000549490	nonsense_mediated_decay	KNOWN	None	12492	264	87	93803539	93835674	-1	None	UbcH-ben, UBC13, MGC8489
12	UBE2N	ENSG00000177889	ENST00000552442	protein_coding	NOVEL	None	12492	318	105	93803577	93835711	-1	None	UbcH-ben, UBC13, MGC8489
1	SH3D21	ENSG00000214193	ENST00000373139	protein_coding	PUTATIVE	None	26236	1134	377	36771988	36785398	1	C1orf113	FLJ22938
1	SH3D21	ENSG00000214193	ENST00000505871	protein_coding	KNOWN	CCDS30674	26236	1938	645	36772711	36786832	1	C1orf113	FLJ22938
1	SH3D21	ENSG00000214193	ENST00000480549	nonsense_mediated_decay	KNOWN	None	26236	408	135	36772718	36790484	1	C1orf113	FLJ22938
1	SH3D21	ENSG00000214193	ENST00000496636	processed_transcript	KNOWN	None	26236	None	None	36772729	36775193	1	C1orf113	FLJ22938
1	SH3D21	ENSG00000214193	ENST00000508854	processed_transcript	KNOWN	None	26236	None	None	36784857	36786352	1	C1orf113	FLJ22938
1	SH3D21	ENSG00000214193	ENST00000474766	processed_transcript	KNOWN	None	26236	None	None	36785641	36789566	1	C1orf113	FLJ22938
1	SH3D21	ENSG00000214193	ENST00000453908	protein_coding	KNOWN	CCDS53298	26236	2271	756	36771994	36786948	1	C1orf113	FLJ22938
1	SH3D21	ENSG00000214193	ENST00000426732	protein_coding	KNOWN	None	26236	1923	640	36771994	36786948	1	C1orf113	FLJ22938
1	SH3D21	ENSG00000214193	ENST00000312808	protein_coding	KNOWN	None	26236	1209	402	36772708	36786948	1	C1orf113	FLJ22938
19	TNFSF9	ENSG00000125657	ENST00000245817	protein_coding	KNOWN	CCDS12169	11939	765	254	6531010	6535931	1	None	4-1BB-L
8	AP3M2	ENSG00000070718	ENST00000518421	protein_coding	KNOWN	CCDS6125	570	1257	418	42010464	42028700	1	None	CLA20, AP47B
8	AP3M2	ENSG00000070718	ENST00000517865	nonsense_mediated_decay	KNOWN	None	570	330	109	42010511	42023297	1	None	CLA20, AP47B
8	AP3M2	ENSG00000070718	ENST00000396926	protein_coding	KNOWN	CCDS6125	570	1257	418	42010529	42028700	1	None	CLA20, AP47B
8	AP3M2	ENSG00000070718	ENST00000520685	processed_transcript	KNOWN	None	570	None	None	42010547	42026734	1	None	CLA20, AP47B
8	AP3M2	ENSG00000070718	ENST00000521280	protein_coding	PUTATIVE	None	570	862	286	42010592	42026529	1	None	CLA20, AP47B
8	AP3M2	ENSG00000070718	ENST00000530375	nonsense_mediated_decay	KNOWN	None	570	822	273	42010603	42026649	1	None	CLA20, AP47B
8	AP3M2	ENSG00000070718	ENST00000522288	protein_coding	KNOWN	None	570	418	138	42010662	42015603	1	None	CLA20, AP47B
8	AP3M2	ENSG00000070718	ENST00000521235	processed_transcript	KNOWN	None	570	None	None	42010678	42012195	1	None	CLA20, AP47B
8	AP3M2	ENSG00000070718	ENST00000517969	protein_coding	KNOWN	None	570	31	9	42011649	42012236	1	None	CLA20, AP47B
8	AP3M2	ENSG00000070718	ENST00000517922	protein_coding	PUTATIVE	None	570	807	268	42012134	42023297	1	None	CLA20, AP47B
8	AP3M2	ENSG00000070718	ENST00000523249	retained_intron	KNOWN	None	570	None	None	42013280	42022651	1	None	CLA20, AP47B
8	AP3M2	ENSG00000070718	ENST00000517499	protein_coding	PUTATIVE	None	570	396	131	42015459	42023288	1	None	CLA20, AP47B
8	AP3M2	ENSG00000070718	ENST00000521899	retained_intron	KNOWN	None	570	None	None	42019587	42024711	1	None	CLA20, AP47B
8	AP3M2	ENSG00000070718	ENST00000522320	retained_intron	KNOWN	None	570	None	None	42024434	42025273	1	None	CLA20, AP47B
8	AP3M2	ENSG00000070718	ENST00000522606	protein_coding	PUTATIVE	None	570	293	96	42024807	42026659	1	None	CLA20, AP47B
8	AP3M2	ENSG00000070718	ENST00000520689	nonsense_mediated_decay	KNOWN	None	570	147	48	42025283	42029191	1	None	CLA20, AP47B
8	AP3M2	ENSG00000070718	ENST00000174653	protein_coding	KNOWN	CCDS6125	570	1257	418	42010464	42028701	1	None	CLA20, AP47B
21	RNU6-926P	ENSG00000206802	ENST00000384075	snRNA	KNOWN	None	47889	None	None	27563026	27563132	1	None	None
17	RAD51D	ENSG00000185379	ENST00000345365	protein_coding	KNOWN	CCDS11287	9823	987	328	33426811	33446888	-1	RAD51L3	R51H3, Trad, HsTRAD
17	RAD51D	ENSG00000185379	ENST00000394589	protein_coding	KNOWN	CCDS11287	9823	987	328	33426811	33447063	-1	RAD51L3	R51H3, Trad, HsTRAD
17	RAD51D	ENSG00000185379	ENST00000588372	nonsense_mediated_decay	KNOWN	None	9823	282	93	33426811	33448516	-1	RAD51L3	R51H3, Trad, HsTRAD
17	RAD51D	ENSG00000185379	ENST00000588594	nonsense_mediated_decay	KNOWN	None	9823	150	49	33427402	33446738	-1	RAD51L3	R51H3, Trad, HsTRAD
17	RAD51D	ENSG00000185379	ENST00000335858	protein_coding	KNOWN	CCDS11288	9823	651	216	33427402	33446764	-1	RAD51L3	R51H3, Trad, HsTRAD
17	RAD51D	ENSG00000185379	ENST00000586044	nonsense_mediated_decay	KNOWN	None	9823	150	49	33427402	33446765	-1	RAD51L3	R51H3, Trad, HsTRAD
17	RAD51D	ENSG00000185379	ENST00000587977	nonsense_mediated_decay	KNOWN	None	9823	357	118	33427549	33446857	-1	RAD51L3	R51H3, Trad, HsTRAD
17	RAD51D	ENSG00000185379	ENST00000590016	protein_coding	KNOWN	CCDS45646	9823	1047	348	33427691	33446832	-1	RAD51L3	R51H3, Trad, HsTRAD
17	RAD51D	ENSG00000185379	ENST00000586210	nonsense_mediated_decay	KNOWN	None	9823	324	107	33427786	33446735	-1	RAD51L3	R51H3, Trad, HsTRAD
17	RAD51D	ENSG00000185379	ENST00000590380	processed_transcript	KNOWN	None	9823	None	None	33427846	33446763	-1	RAD51L3	R51H3, Trad, HsTRAD
17	RAD51D	ENSG00000185379	ENST00000587405	protein_coding	PUTATIVE	None	9823	423	140	33428343	33448468	-1	RAD51L3	R51H3, Trad, HsTRAD
17	RAD51D	ENSG00000185379	ENST00000592577	protein_coding	PUTATIVE	None	9823	748	248	33428381	33446820	-1	RAD51L3	R51H3, Trad, HsTRAD
17	RAD51D	ENSG00000185379	ENST00000590631	protein_coding	PUTATIVE	None	9823	74	23	33430535	33446565	-1	RAD51L3	R51H3, Trad, HsTRAD
17	RAD51D	ENSG00000185379	ENST00000415064	processed_transcript	KNOWN	None	9823	None	None	33431872	33448541	-1	RAD51L3	R51H3, Trad, HsTRAD
17	RAD51D	ENSG00000185379	ENST00000587982	processed_transcript	KNOWN	None	9823	None	None	33431955	33448500	-1	RAD51L3	R51H3, Trad, HsTRAD
17	RAD51D	ENSG00000185379	ENST00000592430	processed_transcript	KNOWN	None	9823	None	None	33433157	33448541	-1	RAD51L3	R51H3, Trad, HsTRAD
17	RAD51D	ENSG00000185379	ENST00000585947	retained_intron	KNOWN	None	9823	None	None	33433205	33448468	-1	RAD51L3	R51H3, Trad, HsTRAD
17	RAD51D	ENSG00000185379	ENST00000585982	processed_transcript	KNOWN	None	9823	None	None	33433405	33448486	-1	RAD51L3	R51H3, Trad, HsTRAD
17	RAD51D	ENSG00000185379	ENST00000585343	nonsense_mediated_decay	KNOWN	None	9823	260	85	33433460	33446176	-1	RAD51L3	R51H3, Trad, HsTRAD
17	RAD51D	ENSG00000185379	ENST00000592850	nonsense_mediated_decay	KNOWN	None	9823	260	85	33433460	33446176	-1	RAD51L3	R51H3, Trad, HsTRAD
17	RAD51D	ENSG00000185379	ENST00000586186	nonsense_mediated_decay	KNOWN	None	9823	112	36	33433460	33446176	-1	RAD51L3	R51H3, Trad, HsTRAD
17	RAD51D	ENSG00000185379	ENST00000592928	nonsense_mediated_decay	KNOWN	None	9823	112	36	33433460	33446176	-1	RAD51L3	R51H3, Trad, HsTRAD
17	RAD51D	ENSG00000185379	ENST00000589506	retained_intron	KNOWN	None	9823	None	None	33434258	33446843	-1	RAD51L3	R51H3, Trad, HsTRAD
17	RAD51D	ENSG00000185379	ENST00000360276	protein_coding	KNOWN	None	9823	852	283	33426816	33446888	-1	RAD51L3	R51H3, Trad, HsTRAD
17	RAD51D	ENSG00000185379	ENST00000460118	protein_coding	KNOWN	None	9823	630	209	33427787	33446735	-1	RAD51L3	R51H3, Trad, HsTRAD
17	RAD51D	ENSG00000185379	ENST00000357906	protein_coding	KNOWN	None	9823	357	118	33443963	33446888	-1	RAD51L3	R51H3, Trad, HsTRAD
21	None	ENSG00000229025	ENST00000435878	lincRNA	KNOWN	None	None	None	None	27722099	27722953	-1	None	None
21	None	ENSG00000232692	ENST00000429340	antisense	KNOWN	None	None	None	None	27750871	27843421	1	None	None
21	None	ENSG00000232692	ENST00000452460	antisense	KNOWN	None	None	None	None	27760045	27790406	1	None	None
21	None	ENSG00000232692	ENST00000421771	antisense	KNOWN	None	None	None	None	27762455	27844017	1	None	None
21	None	ENSG00000232692	ENST00000444306	antisense	KNOWN	None	None	None	None	27788828	27843517	1	None	None
1	PTGFRN	ENSG00000134247	ENST00000393203	protein_coding	KNOWN	CCDS890	9601	2640	879	117452679	117532980	1	None	FPRP, EWI-F, CD9P-1, FLJ11001, KIAA1436, SMAP-6, CD315
1	PTGFRN	ENSG00000134247	ENST00000496699	processed_transcript	KNOWN	None	9601	None	None	117509682	117517119	1	None	FPRP, EWI-F, CD9P-1, FLJ11001, KIAA1436, SMAP-6, CD315
1	PTGFRN	ENSG00000134247	ENST00000497385	processed_transcript	KNOWN	None	9601	None	None	117529662	117532972	1	None	FPRP, EWI-F, CD9P-1, FLJ11001, KIAA1436, SMAP-6, CD315
19	CD70	ENSG00000125726	ENST00000423145	protein_coding	PUTATIVE	None	11937	627	208	6583194	6591150	-1	CD27LG, TNFSF7	CD27L
19	CD70	ENSG00000125726	ENST00000245903	protein_coding	KNOWN	CCDS12170	11937	582	193	6585850	6591163	-1	CD27LG, TNFSF7	CD27L
19	CD70	ENSG00000125726	ENST00000597430	protein_coding	PUTATIVE	None	11937	196	64	6590114	6604114	-1	CD27LG, TNFSF7	CD27L
4	ERVMER34-1	ENSG00000226887	ENST00000454756	processed_transcript	KNOWN	None	42970	None	None	53588785	53617753	-1	None	None
4	ERVMER34-1	ENSG00000226887	ENST00000443173	protein_coding	KNOWN	None	42970	1692	563	53608719	53617807	-1	None	None
4	ERVMER34-1	ENSG00000226887	ENST00000440542	protein_coding	KNOWN	None	42970	1692	563	53609684	53617566	-1	None	None
4	ERVMER34-1	ENSG00000226887	ENST00000540758	protein_coding	KNOWN	None	42970	1692	563	53609751	53611888	-1	None	None
2	PEX13	ENSG00000162928	ENST00000444100	protein_coding	PUTATIVE	None	8855	192	63	61244360	61246202	1	None	None
2	PEX13	ENSG00000162928	ENST00000401576	protein_coding	PUTATIVE	None	8855	111	36	61244697	61246216	1	None	None
2	PEX13	ENSG00000162928	ENST00000472678	processed_transcript	PUTATIVE	None	8855	None	None	61244855	61258999	1	None	None
2	PEX13	ENSG00000162928	ENST00000295030	protein_coding	KNOWN	CCDS1866	8855	1212	403	61244857	61276394	1	None	None
2	PEX13	ENSG00000162928	ENST00000414712	protein_coding	PUTATIVE	None	8855	165	54	61244865	61246215	1	None	None
21	None	ENSG00000197934	ENST00000414486	antisense	KNOWN	None	None	None	None	27765954	27890912	1	None	None
21	None	ENSG00000197934	ENST00000357401	antisense	KNOWN	None	None	None	None	27778262	27941571	1	None	None
21	None	ENSG00000223563	ENST00000426771	antisense	KNOWN	None	None	None	None	28261695	28312061	1	None	None
4	None	ENSG00000251296	ENST00000511169	processed_pseudogene	KNOWN	None	None	None	None	10168783	10169389	-1	None	None
8	COL22A1	ENSG00000169436	ENST00000341807	processed_transcript	KNOWN	None	22989	None	None	139600478	139734436	-1	None	None
8	COL22A1	ENSG00000169436	ENST00000303045	protein_coding	KNOWN	CCDS6376	22989	4881	1626	139600478	139926236	-1	None	None
8	COL22A1	ENSG00000169436	ENST00000487854	processed_transcript	KNOWN	None	22989	None	None	139620181	139632863	-1	None	None
8	COL22A1	ENSG00000169436	ENST00000522546	protein_coding	PUTATIVE	None	22989	198	65	139790150	139791805	-1	None	None
8	COL22A1	ENSG00000169436	ENST00000517515	processed_transcript	KNOWN	None	22989	None	None	139837962	139840348	-1	None	None
8	COL22A1	ENSG00000169436	ENST00000484387	processed_transcript	PUTATIVE	None	22989	None	None	139890376	139926249	-1	None	None
8	COL22A1	ENSG00000169436	ENST00000435777	protein_coding	KNOWN	None	22989	4821	1606	139600479	139926236	-1	None	None
4	None	ENSG00000248777	ENST00000511870	processed_pseudogene	KNOWN	None	None	None	None	10201447	10202296	-1	None	None
4	RASL11B	ENSG00000128045	ENST00000248706	protein_coding	KNOWN	CCDS3490	23804	747	248	53728457	53733000	1	None	None
4	RASL11B	ENSG00000128045	ENST00000515677	retained_intron	KNOWN	None	23804	None	None	53728499	53729777	1	None	None
4	RASL11B	ENSG00000128045	ENST00000505041	processed_transcript	KNOWN	None	23804	None	None	53730313	53732966	1	None	None
21	MIR4759	ENSG00000266133	ENST00000584048	miRNA	KNOWN	None	41575	None	None	28326280	28326362	1	None	hsa-mir-4759
4	None	ENSG00000271544	ENST00000603775	processed_pseudogene	KNOWN	None	None	None	None	10239837	10239859	-1	None	None
21	GPX1P2	ENSG00000215326	ENST00000429271	processed_pseudogene	KNOWN	None	4561	None	None	28515663	28516268	-1	GPXL1, GPXP2	GPXL2, GPXP2P
4	None	ENSG00000250040	ENST00000508566	processed_pseudogene	KNOWN	None	None	None	None	10256550	10258245	-1	None	None
19	NR2C2AP	ENSG00000184162	ENST00000331552	protein_coding	KNOWN	CCDS32967	30763	420	139	19312219	19314233	-1	None	TRA16
19	NR2C2AP	ENSG00000184162	ENST00000590907	protein_coding	PUTATIVE	None	30763	192	63	19312224	19313908	-1	None	TRA16
19	NR2C2AP	ENSG00000184162	ENST00000420605	protein_coding	PUTATIVE	None	30763	504	167	19312224	19314166	-1	None	TRA16
19	NR2C2AP	ENSG00000184162	ENST00000537399	retained_intron	KNOWN	None	30763	None	None	19312235	19314155	-1	None	TRA16
19	NR2C2AP	ENSG00000184162	ENST00000544883	protein_coding	NOVEL	None	30763	165	54	19312448	19314168	-1	None	TRA16
19	NR2C2AP	ENSG00000184162	ENST00000539693	retained_intron	KNOWN	None	30763	None	None	19312682	19314220	-1	None	TRA16
19	NR2C2AP	ENSG00000184162	ENST00000538165	protein_coding	PUTATIVE	None	30763	384	127	19312867	19314184	-1	None	TRA16
19	NR2C2AP	ENSG00000184162	ENST00000539678	protein_coding	PUTATIVE	None	30763	90	29	19312887	19313653	-1	None	TRA16
4	None	ENSG00000250573	ENST00000510947	processed_pseudogene	KNOWN	None	None	None	None	10261069	10261762	-1	None	None
20	ZNFX1	ENSG00000124201	ENST00000371754	protein_coding	KNOWN	None	29271	3813	1270	47854483	47894963	-1	None	KIAA1404, FLJ11277
20	ZNFX1	ENSG00000124201	ENST00000469991	processed_transcript	KNOWN	None	29271	None	None	47855480	47861289	-1	None	KIAA1404, FLJ11277
20	ZNFX1	ENSG00000124201	ENST00000371752	protein_coding	KNOWN	CCDS13417	29271	5757	1918	47862434	47894602	-1	None	KIAA1404, FLJ11277
20	ZNFX1	ENSG00000124201	ENST00000371744	protein_coding	KNOWN	None	29271	2804	933	47872345	47894578	-1	None	KIAA1404, FLJ11277
20	ZNFX1	ENSG00000124201	ENST00000455070	protein_coding	KNOWN	None	29271	2122	706	47872470	47887760	-1	None	KIAA1404, FLJ11277
20	ZNFX1	ENSG00000124201	ENST00000396105	protein_coding	KNOWN	CCDS13417	29271	5757	1918	47862437	47894756	-1	None	KIAA1404, FLJ11277
10	None	ENSG00000235803	ENST00000425216	processed_pseudogene	KNOWN	None	None	None	None	71350339	71351018	-1	None	None
HSCHR6_MHC_QBL	CDSN	ENSG00000206460	ENST00000383531	protein_coding	KNOWN	None	1802	1590	529	31075288	31080647	-1	None	D6S586E
HSCHR6_MHC_DBB	TRIM15	ENSG00000235960	ENST00000427091	protein_coding	KNOWN	None	16284	1398	465	30121305	30130785	1	ZNF178	ZNFB7, RNF93
HSCHR6_MHC_DBB	TRIM15	ENSG00000235960	ENST00000444157	protein_coding	KNOWN	None	16284	491	162	30126402	30130044	1	ZNF178	ZNFB7, RNF93
HSCHR6_MHC_DBB	TRIM15	ENSG00000235960	ENST00000498654	processed_transcript	KNOWN	None	16284	None	None	30126446	30130785	1	ZNF178	ZNFB7, RNF93
HSCHR6_MHC_DBB	TRIM15	ENSG00000235960	ENST00000465041	retained_intron	KNOWN	None	16284	None	None	30128402	30129186	1	ZNF178	ZNFB7, RNF93
HSCHR6_MHC_DBB	TRIM15	ENSG00000235960	ENST00000548212	protein_coding	KNOWN	None	16284	348	115	30121774	30130696	1	ZNF178	ZNFB7, RNF93
HSCHR6_MHC_DBB	TRIM15	ENSG00000235960	ENST00000550694	protein_coding	KNOWN	None	16284	1191	396	30121295	30130778	1	ZNF178	ZNFB7, RNF93
4	None	ENSG00000250074	ENST00000513470	processed_pseudogene	KNOWN	None	None	None	None	10269519	10269855	-1	None	None
1	EVA1B	ENSG00000142694	ENST00000270824	protein_coding	KNOWN	CCDS406	25558	498	165	36787632	36789755	-1	C1orf78, FAM176B	FLJ10647
1	EVA1B	ENSG00000142694	ENST00000490466	processed_transcript	KNOWN	None	25558	None	None	36787882	36789216	-1	C1orf78, FAM176B	FLJ10647
4	None	ENSG00000250505	ENST00000506077	processed_pseudogene	KNOWN	None	None	None	None	10286585	10287332	-1	None	None
4	None	ENSG00000251278	ENST00000505037	processed_pseudogene	KNOWN	None	None	None	None	10293819	10294332	-1	None	None
20	MRPS26	ENSG00000125901	ENST00000380325	protein_coding	KNOWN	CCDS13043	14045	618	205	3026591	3028900	1	C20orf193	MRP-S13, MRP-S26, RPMS13, dJ534B8.3
19	ZNF701	ENSG00000167562	ENST00000478039	processed_transcript	KNOWN	None	25597	None	None	53059075	53077383	1	None	FLJ10891
19	ZNF701	ENSG00000167562	ENST00000596514	protein_coding	PUTATIVE	None	25597	436	144	53073526	53085529	1	None	FLJ10891
19	ZNF701	ENSG00000167562	ENST00000391785	protein_coding	KNOWN	CCDS33092	25597	1398	465	53073528	53087819	1	None	FLJ10891
19	ZNF701	ENSG00000167562	ENST00000301093	protein_coding	KNOWN	CCDS54311	25597	1596	531	53073554	53087689	1	None	FLJ10891
19	ZNF701	ENSG00000167562	ENST00000593941	protein_coding	KNOWN	None	25597	638	211	53073917	53085752	1	None	FLJ10891
19	ZNF701	ENSG00000167562	ENST00000540331	protein_coding	KNOWN	CCDS54311	25597	1596	531	53073917	53090427	1	None	FLJ10891
HSCHR6_MHC_QBL	PSORS1C2	ENSG00000206459	ENST00000383530	protein_coding	KNOWN	None	17199	411	136	31097761	31099575	-1	C6orf17	SPR1
1	None	ENSG00000116883	ENST00000373137	protein_coding	NOVEL	None	None	324	107	36789335	36794822	1	None	None
10	UCN3	ENSG00000178473	ENST00000380433	protein_coding	KNOWN	CCDS7065	17781	486	161	5406972	5416169	1	None	UCNIII, SPC
2	SCN3A	ENSG00000153253	ENST00000283254	protein_coding	KNOWN	CCDS33312	10590	6003	2000	165944040	166060553	-1	None	Nav1.3
2	SCN3A	ENSG00000153253	ENST00000409101	protein_coding	KNOWN	CCDS46440	10590	5856	1951	165946228	166060396	-1	None	Nav1.3
2	SCN3A	ENSG00000153253	ENST00000465043	processed_transcript	PUTATIVE	None	10590	None	None	165948766	165950338	-1	None	Nav1.3
2	SCN3A	ENSG00000153253	ENST00000471697	retained_intron	KNOWN	None	10590	None	None	165952021	165954124	-1	None	Nav1.3
2	SCN3A	ENSG00000153253	ENST00000440431	protein_coding	KNOWN	None	10590	4092	1363	165953762	166043064	-1	None	Nav1.3
2	SCN3A	ENSG00000153253	ENST00000484898	processed_transcript	PUTATIVE	None	10590	None	None	165979310	165984302	-1	None	Nav1.3
2	SCN3A	ENSG00000153253	ENST00000453007	protein_coding	KNOWN	None	10590	601	199	166020903	166060560	-1	None	Nav1.3
2	SCN3A	ENSG00000153253	ENST00000360093	protein_coding	KNOWN	None	10590	6003	2000	165944032	166060577	-1	None	Nav1.3
2	SCN3A	ENSG00000153253	ENST00000540861	protein_coding	KNOWN	None	10590	1452	483	165946481	165950338	-1	None	Nav1.3
HSCHR6_MHC_MANN	None	ENSG00000257874	ENST00000550481	protein_coding	NOVEL	None	None	105	34	31595140	31596204	-1	None	None
21	None	ENSG00000231236	ENST00000420186	processed_transcript	KNOWN	None	None	None	None	28731204	28820898	-1	None	None
4	None	ENSG00000251338	ENST00000512421	processed_pseudogene	KNOWN	None	None	None	None	10296087	10297203	-1	None	None
17	CHAD	ENSG00000136457	ENST00000506187	protein_coding	KNOWN	None	1909	128	41	48541857	48542786	-1	None	SLRR4A
17	CHAD	ENSG00000136457	ENST00000508540	protein_coding	KNOWN	CCDS11568	1909	1080	359	48541859	48546327	-1	None	SLRR4A
17	CHAD	ENSG00000136457	ENST00000258969	protein_coding	KNOWN	CCDS11568	1909	1080	359	48541860	48546267	-1	None	SLRR4A
21	None	ENSG00000236332	ENST00000447384	lincRNA	KNOWN	None	None	None	None	28733483	28768106	1	None	None
17	C17orf99	ENSG00000187997	ENST00000340363	protein_coding	KNOWN	CCDS54171	34490	798	265	76142434	76162258	1	None	GLPG464, UNQ464
17	C17orf99	ENSG00000187997	ENST00000586999	protein_coding	NOVEL	None	34490	376	124	76142486	76157154	1	None	GLPG464, UNQ464
17	C17orf99	ENSG00000187997	ENST00000591995	protein_coding	NOVEL	None	34490	568	188	76142935	76160385	1	None	GLPG464, UNQ464
17	C17orf99	ENSG00000187997	ENST00000451352	processed_transcript	KNOWN	None	34490	None	None	76156145	76162236	1	None	GLPG464, UNQ464
17	C17orf99	ENSG00000187997	ENST00000586029	processed_transcript	PUTATIVE	None	34490	None	None	76157121	76162216	1	None	GLPG464, UNQ464
17	C17orf99	ENSG00000187997	ENST00000586246	processed_transcript	PUTATIVE	None	34490	None	None	76160639	76162235	1	None	GLPG464, UNQ464
20	OXT	ENSG00000101405	ENST00000217386	protein_coding	KNOWN	CCDS13044	8528	378	125	3052266	3053163	1	OT	OXT-NPI, OT-NPI
10	TUBAL3	ENSG00000178462	ENST00000380419	protein_coding	KNOWN	CCDS7066	23534	1341	446	5435061	5446793	-1	None	FLJ21665
10	TUBAL3	ENSG00000178462	ENST00000479328	protein_coding	KNOWN	CCDS53491	23534	1221	406	5435232	5446791	-1	None	FLJ21665
HSCHR6_MHC_QBL	DOM3Z	ENSG00000206346	ENST00000464736	processed_transcript	KNOWN	None	2992	None	None	31927979	31929026	-1	DOM3Z	None
HSCHR6_MHC_QBL	DOM3Z	ENSG00000206346	ENST00000496520	retained_intron	KNOWN	None	2992	None	None	31927979	31929852	-1	DOM3Z	None
HSCHR6_MHC_QBL	DOM3Z	ENSG00000206346	ENST00000479045	retained_intron	KNOWN	None	2992	None	None	31927979	31929854	-1	DOM3Z	None
HSCHR6_MHC_QBL	DOM3Z	ENSG00000206346	ENST00000399936	protein_coding	KNOWN	None	2992	1191	396	31927979	31930140	-1	DOM3Z	None
HSCHR6_MHC_QBL	DOM3Z	ENSG00000206346	ENST00000494937	retained_intron	KNOWN	None	2992	None	None	31927979	31930264	-1	DOM3Z	None
HSCHR6_MHC_QBL	DOM3Z	ENSG00000206346	ENST00000399937	protein_coding	KNOWN	None	2992	1191	396	31927979	31930305	-1	DOM3Z	None
HSCHR6_MHC_QBL	DOM3Z	ENSG00000206346	ENST00000479058	retained_intron	KNOWN	None	2992	None	None	31927979	31930378	-1	DOM3Z	None
HSCHR6_MHC_QBL	DOM3Z	ENSG00000206346	ENST00000497581	retained_intron	KNOWN	None	2992	None	None	31927979	31930407	-1	DOM3Z	None
HSCHR6_MHC_QBL	DOM3Z	ENSG00000206346	ENST00000476836	retained_intron	KNOWN	None	2992	None	None	31927979	31930421	-1	DOM3Z	None
HSCHR6_MHC_QBL	DOM3Z	ENSG00000206346	ENST00000383330	protein_coding	KNOWN	None	2992	1191	396	31927979	31930461	-1	DOM3Z	None
HSCHR6_MHC_QBL	DOM3Z	ENSG00000206346	ENST00000488461	processed_transcript	KNOWN	None	2992	None	None	31928553	31930305	-1	DOM3Z	None
HSCHR6_MHC_QBL	DOM3Z	ENSG00000206346	ENST00000476230	processed_transcript	KNOWN	None	2992	None	None	31928780	31930267	-1	DOM3Z	None
HSCHR6_MHC_QBL	DOM3Z	ENSG00000206346	ENST00000474720	processed_transcript	KNOWN	None	2992	None	None	31928812	31930158	-1	DOM3Z	None
HSCHR6_MHC_QBL	DOM3Z	ENSG00000206346	ENST00000484935	processed_transcript	KNOWN	None	2992	None	None	31929071	31930178	-1	DOM3Z	None
22	DGCR14	ENSG00000100056	ENST00000252137	protein_coding	KNOWN	CCDS13756	16817	1431	476	19117792	19132197	-1	DGCR13	DGSI, Es2el, ES2, DGS-H
22	DGCR14	ENSG00000100056	ENST00000434568	nonsense_mediated_decay	KNOWN	None	16817	882	293	19121450	19132197	-1	DGCR13	DGSI, Es2el, ES2, DGS-H
22	DGCR14	ENSG00000100056	ENST00000472073	retained_intron	KNOWN	None	16817	None	None	19121481	19132146	-1	DGCR13	DGSI, Es2el, ES2, DGS-H
22	DGCR14	ENSG00000100056	ENST00000469466	retained_intron	KNOWN	None	16817	None	None	19130363	19132172	-1	DGCR13	DGSI, Es2el, ES2, DGS-H
19	ZNF99	ENSG00000213973	ENST00000596209	protein_coding	NOVEL	CCDS59369	13175	2595	864	22940116	22966909	-1	C19orf9	MGC24986
19	ZNF99	ENSG00000213973	ENST00000397104	protein_coding	KNOWN	None	13175	3114	1037	22939007	22952784	-1	C19orf9	MGC24986
3	CRYGS	ENSG00000213139	ENST00000392499	protein_coding	KNOWN	CCDS3275	2417	537	178	186256230	186264491	-1	CRYG8	None
3	CRYGS	ENSG00000213139	ENST00000460288	retained_intron	KNOWN	None	2417	None	None	186256388	186258309	-1	CRYG8	None
3	CRYGS	ENSG00000213139	ENST00000307944	protein_coding	KNOWN	CCDS3275	2417	537	178	186256388	186262240	-1	CRYG8	None
21	EIF4A1P1	ENSG00000233300	ENST00000420241	processed_pseudogene	KNOWN	None	3283	None	None	28739333	28740266	-1	EIF4A1P	None
1	CD101	ENSG00000134256	ENST00000369470	protein_coding	KNOWN	CCDS891	5949	3066	1021	117544434	117579039	1	IGSF2	V7
1	CD101	ENSG00000134256	ENST00000467588	processed_transcript	KNOWN	None	5949	None	None	117575566	117578978	1	IGSF2	V7
1	CD101	ENSG00000134256	ENST00000460180	processed_transcript	KNOWN	None	5949	None	None	117576669	117579098	1	IGSF2	V7
1	CD101	ENSG00000134256	ENST00000256652	protein_coding	KNOWN	CCDS891	5949	3066	1021	117544382	117579167	1	IGSF2	V7
21	RPL10P1	ENSG00000217026	ENST00000447844	processed_pseudogene	KNOWN	None	10300	None	None	28792699	28793342	-1	RPL10P	None
21	NCSTNP1	ENSG00000219592	ENST00000406229	processed_pseudogene	KNOWN	None	39606	None	None	28864437	28864580	1	None	None
21	None	ENSG00000234052	ENST00000426418	lincRNA	KNOWN	None	None	None	None	29011012	29025810	1	None	None
HSCHR6_MHC_MANN	NCR3	ENSG00000236979	ENST00000464207	processed_transcript	KNOWN	None	19077	None	None	31596159	31600076	-1	LY117	1C7, NKp30, CD337
HSCHR6_MHC_MANN	NCR3	ENSG00000236979	ENST00000494590	processed_transcript	KNOWN	None	19077	None	None	31596159	31600223	-1	LY117	1C7, NKp30, CD337
HSCHR6_MHC_MANN	NCR3	ENSG00000236979	ENST00000430599	protein_coding	KNOWN	None	19077	606	201	31596159	31600249	-1	LY117	1C7, NKp30, CD337
HSCHR6_MHC_MANN	NCR3	ENSG00000236979	ENST00000446756	protein_coding	KNOWN	None	19077	534	177	31596159	31600249	-1	LY117	1C7, NKp30, CD337
HSCHR6_MHC_MANN	NCR3	ENSG00000236979	ENST00000441372	protein_coding	KNOWN	None	19077	573	190	31596538	31600249	-1	LY117	1C7, NKp30, CD337
HSCHR6_MHC_MANN	NCR3	ENSG00000236979	ENST00000453657	protein_coding	KNOWN	None	19077	498	165	31596561	31600013	-1	LY117	1C7, NKp30, CD337
HSCHR6_MHC_MANN	NCR3	ENSG00000236979	ENST00000470666	nonsense_mediated_decay	KNOWN	None	19077	348	115	31596561	31600013	-1	LY117	1C7, NKp30, CD337
20	AVP	ENSG00000101200	ENST00000380293	protein_coding	KNOWN	CCDS13045	894	495	164	3063202	3065370	-1	ARVP	ADH
10	None	ENSG00000235524	ENST00000415223	processed_pseudogene	KNOWN	None	None	None	None	71351162	71352687	-1	None	None
14	None	ENSG00000258653	ENST00000556551	nonsense_mediated_decay	KNOWN	None	None	864	287	74318674	74398981	1	None	None
14	None	ENSG00000258653	ENST00000553813	protein_coding	PUTATIVE	None	None	654	217	74327241	74351282	1	None	None
5	FSTL4	ENSG00000053108	ENST00000265342	protein_coding	KNOWN	CCDS34238	21389	2529	842	132532147	132948255	-1	None	KIAA1061
5	FSTL4	ENSG00000053108	ENST00000509525	retained_intron	KNOWN	None	21389	None	None	132534160	132561617	-1	None	KIAA1061
5	FSTL4	ENSG00000053108	ENST00000511375	processed_transcript	KNOWN	None	21389	None	None	132535425	132545587	-1	None	KIAA1061
5	FSTL4	ENSG00000053108	ENST00000507112	processed_transcript	KNOWN	None	21389	None	None	132556465	132587956	-1	None	KIAA1061
5	FSTL4	ENSG00000053108	ENST00000514998	processed_transcript	KNOWN	None	21389	None	None	132648109	132669750	-1	None	KIAA1061
5	FSTL4	ENSG00000053108	ENST00000510685	protein_coding	PUTATIVE	None	21389	471	156	132652289	132919332	-1	None	KIAA1061
20	CSRP2BP	ENSG00000149474	ENST00000278816	protein_coding	KNOWN	CCDS13133	15904	2349	782	18118499	18169031	1	None	CRP2BP, dJ717M23.1, PRO1194, ATAC2, KAT14
20	CSRP2BP	ENSG00000149474	ENST00000377681	protein_coding	NOVEL	None	15904	2346	781	18118572	18169031	1	None	CRP2BP, dJ717M23.1, PRO1194, ATAC2, KAT14
20	CSRP2BP	ENSG00000149474	ENST00000464792	protein_coding	KNOWN	None	15904	169	55	18118762	18123473	1	None	CRP2BP, dJ717M23.1, PRO1194, ATAC2, KAT14
20	CSRP2BP	ENSG00000149474	ENST00000489422	processed_transcript	KNOWN	None	15904	None	None	18118850	18123101	1	None	CRP2BP, dJ717M23.1, PRO1194, ATAC2, KAT14
20	CSRP2BP	ENSG00000149474	ENST00000484001	processed_transcript	KNOWN	None	15904	None	None	18118850	18123190	1	None	CRP2BP, dJ717M23.1, PRO1194, ATAC2, KAT14
20	CSRP2BP	ENSG00000149474	ENST00000492286	processed_transcript	KNOWN	None	15904	None	None	18118881	18123065	1	None	CRP2BP, dJ717M23.1, PRO1194, ATAC2, KAT14
20	CSRP2BP	ENSG00000149474	ENST00000604915	protein_coding	PUTATIVE	None	15904	303	100	18123077	18123813	1	None	CRP2BP, dJ717M23.1, PRO1194, ATAC2, KAT14
20	CSRP2BP	ENSG00000149474	ENST00000489634	protein_coding	PUTATIVE	None	15904	1965	654	18125743	18169031	1	None	CRP2BP, dJ717M23.1, PRO1194, ATAC2, KAT14
20	CSRP2BP	ENSG00000149474	ENST00000435364	protein_coding	KNOWN	CCDS13133	15904	2349	782	18122868	18169031	1	None	CRP2BP, dJ717M23.1, PRO1194, ATAC2, KAT14
12	TMEM106C	ENSG00000134291	ENST00000550146	nonsense_mediated_decay	KNOWN	None	28775	261	86	48357352	48362046	1	None	MGC5576
12	TMEM106C	ENSG00000134291	ENST00000551305	retained_intron	KNOWN	None	28775	None	None	48357367	48361954	1	None	MGC5576
12	TMEM106C	ENSG00000134291	ENST00000256686	protein_coding	KNOWN	CCDS44867	28775	696	231	48357367	48362632	1	None	MGC5576
12	TMEM106C	ENSG00000134291	ENST00000548153	retained_intron	KNOWN	None	28775	None	None	48357379	48359305	1	None	MGC5576
12	TMEM106C	ENSG00000134291	ENST00000549288	protein_coding	PUTATIVE	None	28775	198	65	48357379	48361983	1	None	MGC5576
12	TMEM106C	ENSG00000134291	ENST00000552187	retained_intron	KNOWN	None	28775	None	None	48357384	48358548	1	None	MGC5576
12	TMEM106C	ENSG00000134291	ENST00000552561	protein_coding	KNOWN	CCDS8758	28775	753	250	48357388	48362012	1	None	MGC5576
12	TMEM106C	ENSG00000134291	ENST00000546749	protein_coding	PUTATIVE	None	28775	188	61	48357390	48360509	1	None	MGC5576
12	TMEM106C	ENSG00000134291	ENST00000552546	protein_coding	NOVEL	None	28775	540	179	48357390	48362159	1	None	MGC5576
12	TMEM106C	ENSG00000134291	ENST00000550552	protein_coding	NOVEL	CCDS44867	28775	696	231	48357392	48362039	1	None	MGC5576
12	TMEM106C	ENSG00000134291	ENST00000429772	protein_coding	KNOWN	CCDS8758	28775	753	250	48357403	48362661	1	None	MGC5576
12	TMEM106C	ENSG00000134291	ENST00000550161	retained_intron	KNOWN	None	28775	None	None	48357418	48360848	1	None	MGC5576
12	TMEM106C	ENSG00000134291	ENST00000449758	protein_coding	KNOWN	CCDS44867	28775	696	231	48357418	48362632	1	None	MGC5576
12	TMEM106C	ENSG00000134291	ENST00000551705	retained_intron	KNOWN	None	28775	None	None	48357421	48359448	1	None	MGC5576
12	TMEM106C	ENSG00000134291	ENST00000548640	protein_coding	NOVEL	None	28775	441	146	48357641	48361970	1	None	MGC5576
12	TMEM106C	ENSG00000134291	ENST00000553217	nonsense_mediated_decay	KNOWN	None	28775	213	70	48357992	48362217	1	None	MGC5576
12	TMEM106C	ENSG00000134291	ENST00000548355	nonsense_mediated_decay	KNOWN	None	28775	255	84	48357996	48362119	1	None	MGC5576
12	TMEM106C	ENSG00000134291	ENST00000548965	protein_coding	NOVEL	None	28775	326	107	48358024	48361994	1	None	MGC5576
12	TMEM106C	ENSG00000134291	ENST00000547136	retained_intron	KNOWN	None	28775	None	None	48359436	48360233	1	None	MGC5576
12	TMEM106C	ENSG00000134291	ENST00000547682	protein_coding	PUTATIVE	None	28775	352	116	48359711	48362271	1	None	MGC5576
12	TMEM106C	ENSG00000134291	ENST00000549287	retained_intron	KNOWN	None	28775	None	None	48360339	48362271	1	None	MGC5576
21	LINC00113	ENSG00000225298	ENST00000411460	lincRNA	KNOWN	None	1264	None	None	29094698	29123552	1	C21orf23, NCRNA00113	None
21	LINC00113	ENSG00000225298	ENST00000425376	lincRNA	KNOWN	None	1264	None	None	29094717	29123552	1	C21orf23, NCRNA00113	None
21	LINC00113	ENSG00000225298	ENST00000442550	lincRNA	KNOWN	None	1264	None	None	29097118	29123552	1	C21orf23, NCRNA00113	None
22	ZBED4	ENSG00000100426	ENST00000216268	protein_coding	KNOWN	CCDS33677	20721	3516	1171	50247490	50282090	1	None	KIAA0637
21	None	ENSG00000234083	ENST00000433344	lincRNA	KNOWN	None	None	None	None	29327240	29357614	1	None	None
1	STK40	ENSG00000196182	ENST00000359297	protein_coding	KNOWN	None	21373	1254	417	36805225	36826941	-1	None	MGC4796, SgK495
1	STK40	ENSG00000196182	ENST00000373129	protein_coding	KNOWN	CCDS407	21373	1308	435	36805225	36851485	-1	None	MGC4796, SgK495
1	STK40	ENSG00000196182	ENST00000373130	protein_coding	KNOWN	None	21373	1323	440	36805225	36851489	-1	None	MGC4796, SgK495
1	STK40	ENSG00000196182	ENST00000373132	protein_coding	KNOWN	CCDS407	21373	1308	435	36805225	36851497	-1	None	MGC4796, SgK495
1	STK40	ENSG00000196182	ENST00000460417	processed_transcript	KNOWN	None	21373	None	None	36820806	36831673	-1	None	MGC4796, SgK495
1	STK40	ENSG00000196182	ENST00000473733	processed_transcript	KNOWN	None	21373	None	None	36820854	36828257	-1	None	MGC4796, SgK495
1	STK40	ENSG00000196182	ENST00000482458	processed_transcript	KNOWN	None	21373	None	None	36820890	36851480	-1	None	MGC4796, SgK495
1	STK40	ENSG00000196182	ENST00000460017	processed_transcript	KNOWN	None	21373	None	None	36833455	36851477	-1	None	MGC4796, SgK495
6	GRIK2	ENSG00000164418	ENST00000421544	protein_coding	KNOWN	CCDS5048	4580	2727	908	101846664	102517958	1	GLUR6	GluK2, MRT6
6	GRIK2	ENSG00000164418	ENST00000413795	protein_coding	KNOWN	CCDS5049	4580	2610	869	101846664	102517958	1	GLUR6	GluK2, MRT6
6	GRIK2	ENSG00000164418	ENST00000369138	protein_coding	KNOWN	CCDS55045	4580	2679	892	101846664	102517958	1	GLUR6	GluK2, MRT6
6	GRIK2	ENSG00000164418	ENST00000358361	protein_coding	NOVEL	None	4580	1062	353	101846669	102193018	1	GLUR6	GluK2, MRT6
6	GRIK2	ENSG00000164418	ENST00000455610	protein_coding	PUTATIVE	None	4580	540	179	102124644	102307245	1	GLUR6	GluK2, MRT6
6	GRIK2	ENSG00000164418	ENST00000436862	protein_coding	PUTATIVE	None	4580	549	182	102266245	102338259	1	GLUR6	GluK2, MRT6
6	GRIK2	ENSG00000164418	ENST00000487395	retained_intron	KNOWN	None	4580	None	None	102375654	102441717	1	GLUR6	GluK2, MRT6
6	GRIK2	ENSG00000164418	ENST00000487161	retained_intron	KNOWN	None	4580	None	None	102376018	102483416	1	GLUR6	GluK2, MRT6
6	GRIK2	ENSG00000164418	ENST00000369137	protein_coding	KNOWN	None	4580	2499	832	101847154	102516386	1	GLUR6	GluK2, MRT6
6	GRIK2	ENSG00000164418	ENST00000318991	protein_coding	KNOWN	CCDS5049	4580	2610	869	101847154	102511884	1	GLUR6	GluK2, MRT6
6	GRIK2	ENSG00000164418	ENST00000369134	protein_coding	KNOWN	None	4580	2580	859	102068021	102516496	1	GLUR6	GluK2, MRT6
21	LINC00314	ENSG00000178457	ENST00000324988	lincRNA	KNOWN	None	16622	None	None	29385682	29395552	1	C21orf94, NCRNA00314	None
21	None	ENSG00000232079	ENST00000426534	lincRNA	KNOWN	None	None	None	None	29420733	29509930	1	None	None
21	None	ENSG00000232079	ENST00000458316	lincRNA	KNOWN	None	None	None	None	29420766	29475899	1	None	None
21	None	ENSG00000232079	ENST00000423808	lincRNA	KNOWN	None	None	None	None	29462633	29475109	1	None	None
21	None	ENSG00000232079	ENST00000436878	lincRNA	KNOWN	None	None	None	None	29462764	29475559	1	None	None
5	HEXB	ENSG00000049860	ENST00000511181	protein_coding	PUTATIVE	None	4879	996	331	73935848	74017113	1	None	None
5	HEXB	ENSG00000049860	ENST00000261416	protein_coding	KNOWN	CCDS4022	4879	1671	556	73980969	74017113	1	None	None
5	HEXB	ENSG00000049860	ENST00000513079	retained_intron	KNOWN	None	4879	None	None	73981021	74001993	1	None	None
5	HEXB	ENSG00000049860	ENST00000515528	retained_intron	KNOWN	None	4879	None	None	73981031	73985674	1	None	None
5	HEXB	ENSG00000049860	ENST00000510820	retained_intron	KNOWN	None	4879	None	None	73989300	74001082	1	None	None
5	HEXB	ENSG00000049860	ENST00000504459	retained_intron	KNOWN	None	4879	None	None	74009363	74016661	1	None	None
5	HEXB	ENSG00000049860	ENST00000513336	protein_coding	NOVEL	None	4879	607	201	74011411	74017113	1	None	None
5	HEXB	ENSG00000049860	ENST00000511621	retained_intron	KNOWN	None	4879	None	None	74011471	74012654	1	None	None
5	HEXB	ENSG00000049860	ENST00000503312	nonsense_mediated_decay	KNOWN	None	4879	511	169	74012454	74018441	1	None	None
5	HEXB	ENSG00000049860	ENST00000513539	processed_transcript	KNOWN	None	4879	None	None	74014116	74017112	1	None	None
5	HEXB	ENSG00000049860	ENST00000509579	protein_coding	PUTATIVE	None	4879	108	35	74015814	74017113	1	None	None
5	HEXB	ENSG00000049860	ENST00000505859	nonsense_mediated_decay	KNOWN	None	4879	158	51	74016313	74018472	1	None	None
5	HEXB	ENSG00000049860	ENST00000513867	retained_intron	KNOWN	None	4879	None	None	74016882	74018454	1	None	None
HSCHR6_MHC_SSTO	CYP21A1P	ENSG00000239882	ENST00000471769	processed_transcript	KNOWN	None	2599	None	None	31965265	31968079	1	CYP21P, CYP21A	P450c21A
HSCHR6_MHC_SSTO	CYP21A1P	ENSG00000239882	ENST00000498290	transcribed_unprocessed_pseudogene	KNOWN	None	2599	None	None	31965318	31968028	1	CYP21P, CYP21A	P450c21A
4	SCFD2	ENSG00000184178	ENST00000401642	protein_coding	KNOWN	CCDS33984	30676	2055	684	53739149	54232242	-1	None	STXBP1L1, FLJ39514
4	SCFD2	ENSG00000184178	ENST00000388940	protein_coding	KNOWN	None	30676	1920	639	53739955	54232228	-1	None	STXBP1L1, FLJ39514
4	SCFD2	ENSG00000184178	ENST00000503450	protein_coding	PUTATIVE	None	30676	86	27	54218765	54232233	-1	None	STXBP1L1, FLJ39514
22	ALG12	ENSG00000182858	ENST00000330817	protein_coding	KNOWN	CCDS14081	19358	1467	488	50296867	50312106	-1	None	ECM39
22	ALG12	ENSG00000182858	ENST00000486602	protein_coding	PUTATIVE	None	19358	616	204	50297298	50301566	-1	None	ECM39
22	ALG12	ENSG00000182858	ENST00000492791	nonsense_mediated_decay	KNOWN	None	19358	590	195	50297609	50303736	-1	None	ECM39
16	ZNF668	ENSG00000167394	ENST00000426488	protein_coding	KNOWN	CCDS54003	25821	1929	642	31072169	31076290	-1	None	FLJ13479
16	ZNF668	ENSG00000167394	ENST00000394983	protein_coding	KNOWN	CCDS10701	25821	1860	619	31072171	31084823	-1	None	FLJ13479
16	ZNF668	ENSG00000167394	ENST00000300849	protein_coding	KNOWN	CCDS10701	25821	1860	619	31072171	31085641	-1	None	FLJ13479
16	ZNF668	ENSG00000167394	ENST00000539836	protein_coding	KNOWN	CCDS54003	25821	1929	642	31072172	31076376	-1	None	FLJ13479
16	ZNF668	ENSG00000167394	ENST00000414399	protein_coding	NOVEL	None	25821	324	107	31073443	31085033	-1	None	FLJ13479
16	ZNF668	ENSG00000167394	ENST00000442862	protein_coding	KNOWN	None	25821	491	162	31075290	31076409	-1	None	FLJ13479
16	ZNF668	ENSG00000167394	ENST00000417935	protein_coding	KNOWN	None	25821	276	91	31075505	31084148	-1	None	FLJ13479
16	ZNF668	ENSG00000167394	ENST00000564456	processed_transcript	KNOWN	None	25821	None	None	31075971	31085505	-1	None	FLJ13479
16	ZNF668	ENSG00000167394	ENST00000535577	protein_coding	KNOWN	CCDS10701	25821	1860	619	31072164	31076409	-1	None	FLJ13479
16	ZNF668	ENSG00000167394	ENST00000538906	protein_coding	KNOWN	CCDS10701	25821	1860	619	31072169	31084823	-1	None	FLJ13479
5	SPINK13	ENSG00000214510	ENST00000512953	protein_coding	KNOWN	CCDS43383	27200	285	94	147647743	147665817	1	None	SPINK5L3, LiESP6, HESPINTOR, MGC149260, HBVDNAPTP1
5	SPINK13	ENSG00000214510	ENST00000511106	protein_coding	KNOWN	None	27200	165	54	147648423	147665773	1	None	SPINK5L3, LiESP6, HESPINTOR, MGC149260, HBVDNAPTP1
5	SPINK13	ENSG00000214510	ENST00000398450	protein_coding	KNOWN	CCDS43383	27200	285	94	147648423	147665773	1	None	SPINK5L3, LiESP6, HESPINTOR, MGC149260, HBVDNAPTP1
1	TTF2	ENSG00000116830	ENST00000369466	protein_coding	KNOWN	CCDS892	12398	3489	1162	117602925	117645492	1	None	HuF2
1	TTF2	ENSG00000116830	ENST00000470935	processed_transcript	KNOWN	None	12398	None	None	117602984	117618066	1	None	HuF2
1	TTF2	ENSG00000116830	ENST00000469638	processed_transcript	KNOWN	None	12398	None	None	117617917	117619011	1	None	HuF2
1	TTF2	ENSG00000116830	ENST00000492682	processed_transcript	KNOWN	None	12398	None	None	117635409	117644371	1	None	HuF2
1	TTF2	ENSG00000116830	ENST00000463696	processed_transcript	KNOWN	None	12398	None	None	117637947	117644278	1	None	HuF2
1	TTF2	ENSG00000116830	ENST00000427271	protein_coding	KNOWN	None	12398	432	143	117638793	117644984	1	None	HuF2
1	TTF2	ENSG00000116830	ENST00000480701	processed_transcript	KNOWN	None	12398	None	None	117640868	117644322	1	None	HuF2
9	SH3GLB2	ENSG00000148341	ENST00000372564	protein_coding	KNOWN	CCDS6916	10834	1188	395	131769315	131790579	-1	None	KIAA1848
9	SH3GLB2	ENSG00000148341	ENST00000479237	retained_intron	KNOWN	None	10834	None	None	131770071	131774295	-1	None	KIAA1848
9	SH3GLB2	ENSG00000148341	ENST00000372559	protein_coding	KNOWN	CCDS6916	10834	1188	395	131770313	131790493	-1	None	KIAA1848
9	SH3GLB2	ENSG00000148341	ENST00000372554	protein_coding	KNOWN	None	10834	1215	404	131770318	131790558	-1	None	KIAA1848
9	SH3GLB2	ENSG00000148341	ENST00000461811	retained_intron	KNOWN	None	10834	None	None	131770416	131776229	-1	None	KIAA1848
9	SH3GLB2	ENSG00000148341	ENST00000417224	protein_coding	NOVEL	None	10834	1203	400	131770729	131790464	-1	None	KIAA1848
9	SH3GLB2	ENSG00000148341	ENST00000416629	protein_coding	NOVEL	None	10834	1125	374	131770729	131790489	-1	None	KIAA1848
9	SH3GLB2	ENSG00000148341	ENST00000455407	nonsense_mediated_decay	KNOWN	None	10834	75	24	131771506	131790582	-1	None	KIAA1848
9	SH3GLB2	ENSG00000148341	ENST00000483980	retained_intron	KNOWN	None	10834	None	None	131772015	131790574	-1	None	KIAA1848
9	SH3GLB2	ENSG00000148341	ENST00000477165	retained_intron	KNOWN	None	10834	None	None	131774003	131776737	-1	None	KIAA1848
9	SH3GLB2	ENSG00000148341	ENST00000425236	nonsense_mediated_decay	KNOWN	None	10834	180	59	131774509	131783490	-1	None	KIAA1848
9	SH3GLB2	ENSG00000148341	ENST00000416230	nonsense_mediated_decay	KNOWN	None	10834	384	127	131776700	131790477	-1	None	KIAA1848
20	UBOX5	ENSG00000185019	ENST00000217173	protein_coding	KNOWN	CCDS13046	17777	1626	541	3088219	3140842	-1	None	UIP5, KIAA0860, Ubce7ip5, RNF37
20	UBOX5	ENSG00000185019	ENST00000348031	protein_coding	KNOWN	CCDS13047	17777	1464	487	3088219	3140842	-1	None	UIP5, KIAA0860, Ubce7ip5, RNF37
20	UBOX5	ENSG00000185019	ENST00000449731	protein_coding	KNOWN	None	17777	265	87	3103020	3140522	-1	None	UIP5, KIAA0860, Ubce7ip5, RNF37
3	ACAD11	ENSG00000240303	ENST00000496418	retained_intron	KNOWN	None	30211	None	None	132276982	132378493	-1	None	FLJ12592
3	ACAD11	ENSG00000240303	ENST00000264990	protein_coding	KNOWN	CCDS3074	30211	2343	780	132276988	132379567	-1	None	FLJ12592
3	ACAD11	ENSG00000240303	ENST00000485198	nonsense_mediated_decay	KNOWN	None	30211	1302	433	132277316	132378910	-1	None	FLJ12592
3	ACAD11	ENSG00000240303	ENST00000469042	retained_intron	KNOWN	None	30211	None	None	132277668	132378926	-1	None	FLJ12592
3	ACAD11	ENSG00000240303	ENST00000510100	nonsense_mediated_decay	KNOWN	None	30211	468	155	132295788	132337565	-1	None	FLJ12592
3	ACAD11	ENSG00000240303	ENST00000477604	retained_intron	KNOWN	None	30211	None	None	132297393	132324007	-1	None	FLJ12592
3	ACAD11	ENSG00000240303	ENST00000507705	processed_transcript	KNOWN	None	30211	None	None	132297677	132339250	-1	None	FLJ12592
3	ACAD11	ENSG00000240303	ENST00000487024	retained_intron	KNOWN	None	30211	None	None	132298023	132345918	-1	None	FLJ12592
3	ACAD11	ENSG00000240303	ENST00000481970	protein_coding	PUTATIVE	None	30211	1431	476	132337094	132378688	-1	None	FLJ12592
3	ACAD11	ENSG00000240303	ENST00000489991	processed_transcript	KNOWN	None	30211	None	None	132349289	132378906	-1	None	FLJ12592
3	ACAD11	ENSG00000240303	ENST00000355458	protein_coding	KNOWN	None	30211	2031	676	132276982	132378975	-1	None	FLJ12592
3	ACAD11	ENSG00000240303	ENST00000545291	protein_coding	KNOWN	None	30211	918	305	132277316	132378910	-1	None	FLJ12592
HSCHR6_MHC_COX	ABCF1	ENSG00000236149	ENST00000457111	protein_coding	KNOWN	None	70	2538	845	30529000	30549051	1	ABC50	EST123147
HSCHR6_MHC_COX	ABCF1	ENSG00000236149	ENST00000452530	protein_coding	KNOWN	None	70	2424	807	30529017	30549051	1	ABC50	EST123147
HSCHR6_MHC_COX	ABCF1	ENSG00000236149	ENST00000423030	protein_coding	KNOWN	None	70	1019	338	30529057	30541334	1	ABC50	EST123147
HSCHR6_MHC_COX	ABCF1	ENSG00000236149	ENST00000473316	processed_transcript	KNOWN	None	70	None	None	30529066	30538073	1	ABC50	EST123147
HSCHR6_MHC_COX	ABCF1	ENSG00000236149	ENST00000416932	protein_coding	KNOWN	None	70	717	238	30529076	30549051	1	ABC50	EST123147
HSCHR6_MHC_COX	ABCF1	ENSG00000236149	ENST00000470464	processed_transcript	KNOWN	None	70	None	None	30540091	30554805	1	ABC50	EST123147
HSCHR6_MHC_COX	ABCF1	ENSG00000236149	ENST00000461877	retained_intron	KNOWN	None	70	None	None	30547048	30548363	1	ABC50	EST123147
18	ESCO1	ENSG00000141446	ENST00000269214	protein_coding	KNOWN	CCDS32800	24645	2523	840	19109242	19180697	-1	None	ESO1, EFO1, KIAA1911
18	ESCO1	ENSG00000141446	ENST00000383276	nonsense_mediated_decay	KNOWN	None	24645	2106	701	19109264	19180845	-1	None	ESO1, EFO1, KIAA1911
18	ESCO1	ENSG00000141446	ENST00000580101	processed_transcript	KNOWN	None	24645	None	None	19173004	19180665	-1	None	ESO1, EFO1, KIAA1911
HSCHR6_MHC_MANN	RING1	ENSG00000235107	ENST00000436128	protein_coding	KNOWN	None	10018	1221	406	33330195	33334422	1	None	RNF1
HSCHR6_MHC_MANN	RING1	ENSG00000235107	ENST00000484884	processed_transcript	PUTATIVE	None	10018	None	None	33331260	33334422	1	None	RNF1
2	KIAA1841	ENSG00000162929	ENST00000482513	processed_transcript	KNOWN	None	29387	None	None	61293006	61316805	1	None	None
2	KIAA1841	ENSG00000162929	ENST00000453186	nonsense_mediated_decay	KNOWN	None	29387	351	116	61293015	61351412	1	None	None
2	KIAA1841	ENSG00000162929	ENST00000402291	protein_coding	NOVEL	CCDS46296	29387	2157	718	61293068	61351415	1	None	None
2	KIAA1841	ENSG00000162929	ENST00000295031	protein_coding	KNOWN	CCDS1867	29387	2124	707	61293363	61365169	1	None	None
2	KIAA1841	ENSG00000162929	ENST00000483700	processed_transcript	PUTATIVE	None	29387	None	None	61298793	61302308	1	None	None
2	KIAA1841	ENSG00000162929	ENST00000483509	processed_transcript	PUTATIVE	None	29387	None	None	61317569	61320499	1	None	None
2	KIAA1841	ENSG00000162929	ENST00000462959	processed_transcript	KNOWN	None	29387	None	None	61342922	61391960	1	None	None
2	KIAA1841	ENSG00000162929	ENST00000488322	processed_transcript	KNOWN	None	29387	None	None	61343114	61348700	1	None	None
2	KIAA1841	ENSG00000162929	ENST00000471625	retained_intron	KNOWN	None	29387	None	None	61344191	61345210	1	None	None
2	KIAA1841	ENSG00000162929	ENST00000398622	nonsense_mediated_decay	KNOWN	None	29387	159	52	61372266	61390298	1	None	None
2	KIAA1841	ENSG00000162929	ENST00000464909	processed_transcript	PUTATIVE	None	29387	None	None	61372282	61391771	1	None	None
2	KIAA1841	ENSG00000162929	ENST00000488469	processed_transcript	KNOWN	None	29387	None	None	61389326	61391641	1	None	None
2	KIAA1841	ENSG00000162929	ENST00000489686	processed_transcript	PUTATIVE	None	29387	None	None	61389710	61390298	1	None	None
2	KIAA1841	ENSG00000162929	ENST00000356719	protein_coding	KNOWN	CCDS46296	29387	2157	718	61293363	61349297	1	None	None
2	KIAA1841	ENSG00000162929	ENST00000453873	protein_coding	KNOWN	CCDS46296	29387	2157	718	61297461	61351409	1	None	None
16	WFIKKN1	ENSG00000127578	ENST00000573440	retained_intron	KNOWN	None	30912	None	None	679239	684116	1	C16orf12	RJD2, WFIKKN, WFDC20A
16	WFIKKN1	ENSG00000127578	ENST00000319070	protein_coding	KNOWN	CCDS10414	30912	1647	548	680932	684116	1	C16orf12	RJD2, WFIKKN, WFDC20A
15	CEP152	ENSG00000103995	ENST00000561245	nonsense_mediated_decay	KNOWN	None	29298	195	64	49005125	49034211	-1	MCPH4	KIAA0912, SCKL5
15	CEP152	ENSG00000103995	ENST00000380950	protein_coding	KNOWN	CCDS58361	29298	5133	1710	49030132	49103338	-1	MCPH4	KIAA0912, SCKL5
15	CEP152	ENSG00000103995	ENST00000399334	protein_coding	KNOWN	CCDS42033	29298	4965	1654	49030348	49103184	-1	MCPH4	KIAA0912, SCKL5
15	CEP152	ENSG00000103995	ENST00000325747	protein_coding	KNOWN	None	29298	3828	1275	49032703	49103227	-1	MCPH4	KIAA0912, SCKL5
15	CEP152	ENSG00000103995	ENST00000559398	processed_transcript	PUTATIVE	None	29298	None	None	49061170	49065728	-1	MCPH4	KIAA0912, SCKL5
15	CEP152	ENSG00000103995	ENST00000560322	non_stop_decay	KNOWN	None	29298	1754	583	49064712	49103343	-1	MCPH4	KIAA0912, SCKL5
15	CEP152	ENSG00000103995	ENST00000558337	processed_transcript	PUTATIVE	None	29298	None	None	49076180	49081519	-1	MCPH4	KIAA0912, SCKL5
15	CEP152	ENSG00000103995	ENST00000559444	retained_intron	KNOWN	None	29298	None	None	49089868	49103276	-1	MCPH4	KIAA0912, SCKL5
15	CEP152	ENSG00000103995	ENST00000558591	protein_coding	KNOWN	None	29298	205	67	49089914	49102791	-1	MCPH4	KIAA0912, SCKL5
15	CEP152	ENSG00000103995	ENST00000559630	retained_intron	KNOWN	None	29298	None	None	49097717	49103273	-1	MCPH4	KIAA0912, SCKL5
21	None	ENSG00000236532	ENST00000453420	lincRNA	KNOWN	None	None	None	None	29488413	29600986	-1	None	None
21	None	ENSG00000236532	ENST00000433303	lincRNA	KNOWN	None	None	None	None	29535921	29542462	-1	None	None
21	None	ENSG00000236532	ENST00000437194	lincRNA	KNOWN	None	None	None	None	29584625	29600799	-1	None	None
19	ZNF728	ENSG00000269067	ENST00000594710	protein_coding	NOVEL	CCDS59370	32463	1869	622	23158270	23185978	-1	None	None
19	ZNF728	ENSG00000269067	ENST00000599851	protein_coding	PUTATIVE	None	32463	230	75	23159436	23170169	-1	None	None
20	KCNB1	ENSG00000158445	ENST00000371741	protein_coding	KNOWN	CCDS13418	6231	2577	858	47980414	48099184	-1	None	Kv2.1
21	None	ENSG00000232855	ENST00000430247	lincRNA	KNOWN	None	None	None	None	29816870	29998926	-1	None	None
21	None	ENSG00000232855	ENST00000433310	lincRNA	KNOWN	None	None	None	None	29816870	30047170	-1	None	None
21	None	ENSG00000232855	ENST00000452028	lincRNA	KNOWN	None	None	None	None	30043303	30047095	-1	None	None
1	LSM10	ENSG00000181817	ENST00000476041	processed_transcript	KNOWN	None	17562	None	None	36856839	36863488	-1	None	MGC15749
1	LSM10	ENSG00000181817	ENST00000315732	protein_coding	KNOWN	CCDS408	17562	372	123	36859031	36863493	-1	None	MGC15749
1	LSM10	ENSG00000181817	ENST00000489912	processed_transcript	KNOWN	None	17562	None	None	36859615	36863479	-1	None	MGC15749
12	P2RX4	ENSG00000135124	ENST00000337233	protein_coding	KNOWN	CCDS9214	8535	1167	388	121647660	121671909	1	None	P2X4
12	P2RX4	ENSG00000135124	ENST00000359949	protein_coding	NOVEL	CCDS58282	8535	1215	404	121647868	121671873	1	None	P2X4
12	P2RX4	ENSG00000135124	ENST00000543430	retained_intron	KNOWN	None	8535	None	None	121647920	121671350	1	None	P2X4
12	P2RX4	ENSG00000135124	ENST00000540930	processed_transcript	KNOWN	None	8535	None	None	121647932	121666417	1	None	P2X4
12	P2RX4	ENSG00000135124	ENST00000543318	nonsense_mediated_decay	KNOWN	None	8535	447	148	121647932	121671540	1	None	P2X4
12	P2RX4	ENSG00000135124	ENST00000499638	retained_intron	KNOWN	None	8535	None	None	121647932	121671907	1	None	P2X4
12	P2RX4	ENSG00000135124	ENST00000543984	nonsense_mediated_decay	KNOWN	None	8535	159	52	121647932	121671909	1	None	P2X4
12	P2RX4	ENSG00000135124	ENST00000538701	protein_coding	PUTATIVE	None	8535	437	144	121647954	121666845	1	None	P2X4
12	P2RX4	ENSG00000135124	ENST00000542067	protein_coding	NOVEL	None	8535	1084	360	121647968	121671350	1	None	P2X4
12	P2RX4	ENSG00000135124	ENST00000541187	retained_intron	KNOWN	None	8535	None	None	121647974	121670310	1	None	P2X4
12	P2RX4	ENSG00000135124	ENST00000538417	nonsense_mediated_decay	KNOWN	None	8535	371	122	121648038	121670311	1	None	P2X4
12	P2RX4	ENSG00000135124	ENST00000314442	retained_intron	KNOWN	None	8535	None	None	121650669	121660846	1	None	P2X4
12	P2RX4	ENSG00000135124	ENST00000397924	retained_intron	KNOWN	None	8535	None	None	121660135	121666614	1	None	P2X4
12	P2RX4	ENSG00000135124	ENST00000541532	protein_coding	KNOWN	None	8535	441	146	121647932	121670482	1	None	P2X4
12	P2RX4	ENSG00000135124	ENST00000543171	protein_coding	KNOWN	None	8535	864	287	121647932	121671909	1	None	P2X4
21	LINC00161	ENSG00000226935	ENST00000412526	lincRNA	KNOWN	None	17138	None	None	29911640	29912677	1	C21orf100, NCRNA00161	None
21	LINC00161	ENSG00000226935	ENST00000455939	lincRNA	KNOWN	None	17138	None	None	29911640	29912677	1	C21orf100, NCRNA00161	None
X	FMR1	ENSG00000102081	ENST00000370477	protein_coding	KNOWN	None	3775	1749	582	146993481	147031835	1	POF1, POF	FMRP, FRAXA, MGC87458
X	FMR1	ENSG00000102081	ENST00000334557	protein_coding	KNOWN	None	3775	894	297	146993570	147015206	1	POF1, POF	FMRP, FRAXA, MGC87458
X	FMR1	ENSG00000102081	ENST00000439526	protein_coding	KNOWN	None	3775	1779	592	146993570	147032156	1	POF1, POF	FMRP, FRAXA, MGC87458
X	FMR1	ENSG00000102081	ENST00000370475	protein_coding	KNOWN	CCDS14682	3775	1899	632	146993570	147032645	1	POF1, POF	FMRP, FRAXA, MGC87458
X	FMR1	ENSG00000102081	ENST00000495717	processed_transcript	KNOWN	None	3775	None	None	146993680	147014232	1	POF1, POF	FMRP, FRAXA, MGC87458
X	FMR1	ENSG00000102081	ENST00000370470	protein_coding	KNOWN	None	3775	1773	590	146993698	147030365	1	POF1, POF	FMRP, FRAXA, MGC87458
X	FMR1	ENSG00000102081	ENST00000475038	processed_transcript	KNOWN	None	3775	None	None	147014004	147022156	1	POF1, POF	FMRP, FRAXA, MGC87458
X	FMR1	ENSG00000102081	ENST00000492846	processed_transcript	KNOWN	None	3775	None	None	147022100	147025383	1	POF1, POF	FMRP, FRAXA, MGC87458
X	FMR1	ENSG00000102081	ENST00000463120	processed_transcript	KNOWN	None	3775	None	None	147024765	147030054	1	POF1, POF	FMRP, FRAXA, MGC87458
X	FMR1	ENSG00000102081	ENST00000478848	processed_transcript	KNOWN	None	3775	None	None	147026213	147027235	1	POF1, POF	FMRP, FRAXA, MGC87458
X	FMR1	ENSG00000102081	ENST00000218200	protein_coding	KNOWN	CCDS55519	3775	1836	611	146993469	147032632	1	POF1, POF	FMRP, FRAXA, MGC87458
X	FMR1	ENSG00000102081	ENST00000370471	protein_coding	KNOWN	CCDS55518	3775	1614	537	146993469	147032632	1	POF1, POF	FMRP, FRAXA, MGC87458
X	FMR1	ENSG00000102081	ENST00000440235	protein_coding	KNOWN	None	3775	789	262	147011721	147030879	1	POF1, POF	FMRP, FRAXA, MGC87458
21	RNU6-872P	ENSG00000251894	ENST00000516085	snRNA	KNOWN	None	47835	None	None	30115530	30115613	1	None	None
21	HSPD1P7	ENSG00000215005	ENST00000447985	processed_pseudogene	KNOWN	None	5268	None	None	30259602	30261594	-1	HSPDP7	HSPD1-22P
19	ZNF730	ENSG00000183850	ENST00000593635	protein_coding	PUTATIVE	None	32470	138	45	23258012	23318908	1	None	None
19	ZNF730	ENSG00000183850	ENST00000597761	protein_coding	KNOWN	CCDS59371	32470	1512	503	23299777	23330021	1	None	None
19	ZNF730	ENSG00000183850	ENST00000599195	protein_coding	PUTATIVE	None	32470	241	79	23316989	23327051	1	None	None
20	PTGIS	ENSG00000124212	ENST00000244043	protein_coding	KNOWN	CCDS13419	9603	1503	500	48120411	48184683	-1	None	PGIS, CYP8A1
20	PTGIS	ENSG00000124212	ENST00000478971	processed_transcript	KNOWN	None	9603	None	None	48124438	48184653	-1	None	PGIS, CYP8A1
20	FASTKD5	ENSG00000215251	ENST00000380266	protein_coding	KNOWN	CCDS13048	25790	2295	764	3127165	3140543	-1	None	FLJ13149
HSCHR6_MHC_MCF	PSMB8	ENSG00000226201	ENST00000466646	retained_intron	KNOWN	None	9545	None	None	32841974	32843291	-1	LMP7	RING10, D6S216E, PSMB5i, beta5i
HSCHR6_MHC_MCF	PSMB8	ENSG00000226201	ENST00000425784	protein_coding	NOVEL	None	9545	759	252	32841974	32845277	-1	LMP7	RING10, D6S216E, PSMB5i, beta5i
HSCHR6_MHC_MCF	PSMB8	ENSG00000226201	ENST00000429645	protein_coding	KNOWN	None	9545	831	276	32841974	32845304	-1	LMP7	RING10, D6S216E, PSMB5i, beta5i
HSCHR6_MHC_MCF	PSMB8	ENSG00000226201	ENST00000416564	protein_coding	KNOWN	None	9545	819	272	32841974	32845960	-1	LMP7	RING10, D6S216E, PSMB5i, beta5i
HSCHR6_MHC_MCF	PSMB8	ENSG00000226201	ENST00000488953	retained_intron	KNOWN	None	9545	None	None	32842278	32845908	-1	LMP7	RING10, D6S216E, PSMB5i, beta5i
21	THUMPD1P1	ENSG00000215317	ENST00000400014	processed_pseudogene	KNOWN	None	23808	None	None	30274101	30276019	-1	None	None
16	C16orf13	ENSG00000130731	ENST00000338401	protein_coding	KNOWN	CCDS32352	14141	324	107	684429	686342	-1	None	MGC13114
16	C16orf13	ENSG00000130731	ENST00000397666	protein_coding	KNOWN	CCDS42091	14141	618	205	684430	686302	-1	None	MGC13114
16	C16orf13	ENSG00000130731	ENST00000301686	protein_coding	KNOWN	CCDS45368	14141	615	204	684430	686302	-1	None	MGC13114
16	C16orf13	ENSG00000130731	ENST00000448973	retained_intron	KNOWN	None	14141	None	None	684436	686310	-1	None	MGC13114
16	C16orf13	ENSG00000130731	ENST00000397664	protein_coding	NOVEL	CCDS45367	14141	384	127	684438	686351	-1	None	MGC13114
16	C16orf13	ENSG00000130731	ENST00000568077	nonsense_mediated_decay	KNOWN	None	14141	312	103	684502	686331	-1	None	MGC13114
16	C16orf13	ENSG00000130731	ENST00000456420	nonsense_mediated_decay	KNOWN	None	14141	531	176	684513	686239	-1	None	MGC13114
16	C16orf13	ENSG00000130731	ENST00000397665	protein_coding	KNOWN	CCDS42090	14141	558	185	684526	686290	-1	None	MGC13114
16	C16orf13	ENSG00000130731	ENST00000564039	nonsense_mediated_decay	KNOWN	None	14141	402	133	684626	686278	-1	None	MGC13114
16	C16orf13	ENSG00000130731	ENST00000568773	protein_coding	PUTATIVE	None	14141	488	161	684664	686235	-1	None	MGC13114
16	C16orf13	ENSG00000130731	ENST00000565163	protein_coding	PUTATIVE	None	14141	485	160	684737	686260	-1	None	MGC13114
16	C16orf13	ENSG00000130731	ENST00000568830	protein_coding	NOVEL	None	14141	522	173	684949	686358	-1	None	MGC13114
16	C16orf13	ENSG00000130731	ENST00000565799	retained_intron	KNOWN	None	14141	None	None	685281	686267	-1	None	MGC13114
4	None	ENSG00000250613	ENST00000506540	processed_pseudogene	KNOWN	None	None	None	None	10412620	10413268	1	None	None
22	None	ENSG00000251357	ENST00000433835	protein_coding	PUTATIVE	None	None	630	209	24204375	24237410	1	None	None
4	None	ENSG00000248419	ENST00000509222	processed_pseudogene	KNOWN	None	None	None	None	10480148	10480547	-1	None	None
21	RPL23P2	ENSG00000176054	ENST00000320371	processed_pseudogene	KNOWN	None	10324	None	None	30369934	30370354	-1	None	None
22	SEC14L2	ENSG00000100003	ENST00000312932	protein_coding	KNOWN	CCDS13876	10699	1212	403	30792846	30821305	1	C22orf6	TAP, SPF, KIAA1186, KIAA1658
22	SEC14L2	ENSG00000100003	ENST00000428195	protein_coding	PUTATIVE	None	10699	609	202	30792930	30811854	1	C22orf6	TAP, SPF, KIAA1186, KIAA1658
22	SEC14L2	ENSG00000100003	ENST00000403484	protein_coding	PUTATIVE	None	10699	990	329	30792981	30819826	1	C22orf6	TAP, SPF, KIAA1186, KIAA1658
22	SEC14L2	ENSG00000100003	ENST00000467218	retained_intron	KNOWN	None	10699	None	None	30792984	30819828	1	C22orf6	TAP, SPF, KIAA1186, KIAA1658
22	SEC14L2	ENSG00000100003	ENST00000416523	protein_coding	NOVEL	None	10699	453	150	30793007	30805125	1	C22orf6	TAP, SPF, KIAA1186, KIAA1658
22	SEC14L2	ENSG00000100003	ENST00000437022	nonsense_mediated_decay	KNOWN	None	10699	255	84	30793007	30805238	1	C22orf6	TAP, SPF, KIAA1186, KIAA1658
22	SEC14L2	ENSG00000100003	ENST00000452649	nonsense_mediated_decay	KNOWN	None	10699	162	53	30793007	30805466	1	C22orf6	TAP, SPF, KIAA1186, KIAA1658
22	SEC14L2	ENSG00000100003	ENST00000405717	protein_coding	PUTATIVE	CCDS46685	10699	1179	392	30793026	30812964	1	C22orf6	TAP, SPF, KIAA1186, KIAA1658
22	SEC14L2	ENSG00000100003	ENST00000459728	processed_transcript	KNOWN	None	10699	None	None	30793040	30805271	1	C22orf6	TAP, SPF, KIAA1186, KIAA1658
22	SEC14L2	ENSG00000100003	ENST00000429917	protein_coding	PUTATIVE	None	10699	254	83	30793527	30803531	1	C22orf6	TAP, SPF, KIAA1186, KIAA1658
22	SEC14L2	ENSG00000100003	ENST00000415072	protein_coding	PUTATIVE	None	10699	375	124	30794566	30803466	1	C22orf6	TAP, SPF, KIAA1186, KIAA1658
22	SEC14L2	ENSG00000100003	ENST00000485482	processed_transcript	PUTATIVE	None	10699	None	None	30795673	30796456	1	C22orf6	TAP, SPF, KIAA1186, KIAA1658
22	SEC14L2	ENSG00000100003	ENST00000484486	processed_transcript	PUTATIVE	None	10699	None	None	30795673	30796456	1	C22orf6	TAP, SPF, KIAA1186, KIAA1658
22	SEC14L2	ENSG00000100003	ENST00000464335	retained_intron	KNOWN	None	10699	None	None	30795673	30812662	1	C22orf6	TAP, SPF, KIAA1186, KIAA1658
22	SEC14L2	ENSG00000100003	ENST00000483116	retained_intron	KNOWN	None	10699	None	None	30805011	30811996	1	C22orf6	TAP, SPF, KIAA1186, KIAA1658
22	SEC14L2	ENSG00000100003	ENST00000478762	retained_intron	KNOWN	None	10699	None	None	30805104	30819826	1	C22orf6	TAP, SPF, KIAA1186, KIAA1658
22	SEC14L2	ENSG00000100003	ENST00000402592	protein_coding	KNOWN	CCDS56228	10699	963	320	30793034	30818590	1	C22orf6	TAP, SPF, KIAA1186, KIAA1658
13	ITM2B	ENSG00000136156	ENST00000378565	protein_coding	KNOWN	CCDS9409	6174	801	266	48807294	48836460	1	None	BRI, E25B, E3-16, BRICD2B
13	ITM2B	ENSG00000136156	ENST00000378549	protein_coding	NOVEL	None	6174	483	160	48807339	48835524	1	None	BRI, E25B, E3-16, BRICD2B
13	ITM2B	ENSG00000136156	ENST00000607866	nonsense_mediated_decay	KNOWN	None	6174	161	52	48828011	48833077	1	None	BRI, E25B, E3-16, BRICD2B
13	ITM2B	ENSG00000136156	ENST00000463839	nonsense_mediated_decay	KNOWN	None	6174	88	28	48835273	48837063	1	None	BRI, E25B, E3-16, BRICD2B
7	LANCL2	ENSG00000132434	ENST00000254770	protein_coding	KNOWN	CCDS5517	6509	1353	450	55433141	55501435	1	GPR69B	TASP
7	LANCL2	ENSG00000132434	ENST00000452107	nonsense_mediated_decay	KNOWN	None	6509	122	39	55433804	55499221	1	GPR69B	TASP
7	LANCL2	ENSG00000132434	ENST00000486376	processed_transcript	KNOWN	None	6509	None	None	55461762	55467800	1	GPR69B	TASP
7	LANCL2	ENSG00000132434	ENST00000476479	processed_transcript	KNOWN	None	6509	None	None	55479053	55499015	1	GPR69B	TASP
7	LANCL2	ENSG00000132434	ENST00000466041	retained_intron	KNOWN	None	6509	None	None	55495749	55499099	1	GPR69B	TASP
5	SPINK7	ENSG00000145879	ENST00000514394	processed_transcript	PUTATIVE	None	24643	None	None	147691982	147693774	1	None	ECG2, ECRG2
5	SPINK7	ENSG00000145879	ENST00000274565	protein_coding	KNOWN	CCDS4289	24643	258	85	147691986	147695485	1	None	ECG2, ECRG2
5	SPINK7	ENSG00000145879	ENST00000514646	retained_intron	KNOWN	None	24643	None	None	147691989	147694042	1	None	ECG2, ECRG2
5	SPINK7	ENSG00000145879	ENST00000504037	retained_intron	KNOWN	None	24643	None	None	147691989	147694071	1	None	ECG2, ECRG2
5	SPINK7	ENSG00000145879	ENST00000523913	retained_intron	KNOWN	None	24643	None	None	147693506	147695485	1	None	ECG2, ECRG2
5	SPINK7	ENSG00000145879	ENST00000523535	protein_coding	PUTATIVE	None	24643	180	59	147693637	147695349	1	None	ECG2, ECRG2
11	MARK2	ENSG00000072518	ENST00000508192	protein_coding	KNOWN	CCDS8051	3332	2175	724	63606477	63676956	1	EMK1	PAR-1, Par1b, PAR-1B
11	MARK2	ENSG00000072518	ENST00000361128	protein_coding	KNOWN	CCDS53650	3332	2160	719	63606477	63677051	1	EMK1	PAR-1, Par1b, PAR-1B
11	MARK2	ENSG00000072518	ENST00000350490	protein_coding	KNOWN	CCDS53651	3332	2130	709	63606565	63677068	1	EMK1	PAR-1, Par1b, PAR-1B
11	MARK2	ENSG00000072518	ENST00000502399	protein_coding	KNOWN	None	3332	2337	778	63606767	63677045	1	EMK1	PAR-1, Par1b, PAR-1B
11	MARK2	ENSG00000072518	ENST00000543220	protein_coding	KNOWN	None	3332	483	160	63617435	63667396	1	EMK1	PAR-1, Par1b, PAR-1B
11	MARK2	ENSG00000072518	ENST00000543674	protein_coding	KNOWN	None	3332	273	90	63635942	63662747	1	EMK1	PAR-1, Par1b, PAR-1B
11	MARK2	ENSG00000072518	ENST00000540169	protein_coding	KNOWN	None	3332	335	110	63636748	63666265	1	EMK1	PAR-1, Par1b, PAR-1B
11	MARK2	ENSG00000072518	ENST00000509502	protein_coding	NOVEL	CCDS41665	3332	2238	745	63656019	63676870	1	EMK1	PAR-1, Par1b, PAR-1B
11	MARK2	ENSG00000072518	ENST00000512060	protein_coding	PUTATIVE	None	3332	182	59	63656168	63662698	1	EMK1	PAR-1, Par1b, PAR-1B
11	MARK2	ENSG00000072518	ENST00000513765	protein_coding	NOVEL	None	3332	2268	755	63662627	63677063	1	EMK1	PAR-1, Par1b, PAR-1B
11	MARK2	ENSG00000072518	ENST00000408948	protein_coding	KNOWN	None	3332	2076	691	63662658	63676727	1	EMK1	PAR-1, Par1b, PAR-1B
11	MARK2	ENSG00000072518	ENST00000425897	protein_coding	PUTATIVE	None	3332	2100	699	63662676	63676709	1	EMK1	PAR-1, Par1b, PAR-1B
11	MARK2	ENSG00000072518	ENST00000535116	retained_intron	KNOWN	None	3332	None	None	63670159	63670875	1	EMK1	PAR-1, Par1b, PAR-1B
11	MARK2	ENSG00000072518	ENST00000402010	protein_coding	KNOWN	CCDS53649	3332	2367	788	63606400	63678491	1	EMK1	PAR-1, Par1b, PAR-1B
11	MARK2	ENSG00000072518	ENST00000315032	protein_coding	KNOWN	None	3332	2340	779	63606400	63678491	1	EMK1	PAR-1, Par1b, PAR-1B
11	MARK2	ENSG00000072518	ENST00000377809	protein_coding	KNOWN	None	3332	2322	773	63606400	63678491	1	EMK1	PAR-1, Par1b, PAR-1B
11	MARK2	ENSG00000072518	ENST00000413835	protein_coding	KNOWN	None	3332	2205	734	63606400	63678491	1	EMK1	PAR-1, Par1b, PAR-1B
11	MARK2	ENSG00000072518	ENST00000377810	protein_coding	KNOWN	None	3332	2076	691	63606400	63678491	1	EMK1	PAR-1, Par1b, PAR-1B
12	VPS37B	ENSG00000139722	ENST00000267202	protein_coding	KNOWN	CCDS9239	25754	858	285	123349882	123380991	-1	None	FLJ12750
12	VPS37B	ENSG00000139722	ENST00000535765	protein_coding	NOVEL	None	25754	814	270	123351701	123380674	-1	None	FLJ12750
12	VPS37B	ENSG00000139722	ENST00000371248	protein_coding	PUTATIVE	None	25754	553	183	123351962	123374706	-1	None	FLJ12750
12	VPS37B	ENSG00000139722	ENST00000543590	retained_intron	KNOWN	None	25754	None	None	123354622	123356228	-1	None	FLJ12750
10	SS18L2P1	ENSG00000232525	ENST00000445923	processed_pseudogene	KNOWN	None	44965	None	None	35164138	35164350	1	None	None
10	None	ENSG00000255339	ENST00000529568	nonsense_mediated_decay	KNOWN	None	None	480	159	102265385	102289628	-1	None	None
10	None	ENSG00000255339	ENST00000527595	nonsense_mediated_decay	KNOWN	None	None	324	107	102265562	102289628	-1	None	None
10	None	ENSG00000255339	ENST00000557395	nonsense_mediated_decay	KNOWN	None	None	519	172	102267203	102289638	-1	None	None
10	None	ENSG00000255339	ENST00000528174	nonsense_mediated_decay	KNOWN	None	None	216	71	102275878	102289634	-1	None	None
10	None	ENSG00000255339	ENST00000533549	nonsense_mediated_decay	KNOWN	None	None	216	71	102276631	102289621	-1	None	None
3	NICN1	ENSG00000145029	ENST00000273598	protein_coding	KNOWN	CCDS2798	18317	642	213	49460379	49466759	-1	None	MGC12936
3	NICN1	ENSG00000145029	ENST00000423832	nonsense_mediated_decay	KNOWN	CCDS2798	18317	642	213	49460426	49466741	-1	None	MGC12936
3	NICN1	ENSG00000145029	ENST00000497742	retained_intron	KNOWN	None	18317	None	None	49461508	49466708	-1	None	MGC12936
3	NICN1	ENSG00000145029	ENST00000436744	protein_coding	NOVEL	None	18317	528	175	49461610	49466759	-1	None	MGC12936
3	NICN1	ENSG00000145029	ENST00000422593	processed_transcript	KNOWN	None	18317	None	None	49462382	49466721	-1	None	MGC12936
3	NICN1	ENSG00000145029	ENST00000494057	retained_intron	KNOWN	None	18317	None	None	49462705	49466727	-1	None	MGC12936
3	NICN1	ENSG00000145029	ENST00000461015	retained_intron	KNOWN	None	18317	None	None	49462731	49463840	-1	None	MGC12936
6	ZNF76	ENSG00000065029	ENST00000491400	retained_intron	KNOWN	None	13149	None	None	35226686	35256092	1	D6S229E	Zfp523, ZNF523
6	ZNF76	ENSG00000065029	ENST00000229405	nonsense_mediated_decay	KNOWN	None	13149	456	151	35226759	35263760	1	D6S229E	Zfp523, ZNF523
6	ZNF76	ENSG00000065029	ENST00000469195	protein_coding	KNOWN	None	13149	1020	339	35227248	35260419	1	D6S229E	Zfp523, ZNF523
6	ZNF76	ENSG00000065029	ENST00000486891	retained_intron	KNOWN	None	13149	None	None	35227275	35259911	1	D6S229E	Zfp523, ZNF523
6	ZNF76	ENSG00000065029	ENST00000484932	retained_intron	KNOWN	None	13149	None	None	35227305	35254559	1	D6S229E	Zfp523, ZNF523
6	ZNF76	ENSG00000065029	ENST00000460229	retained_intron	KNOWN	None	13149	None	None	35227381	35255554	1	D6S229E	Zfp523, ZNF523
6	ZNF76	ENSG00000065029	ENST00000373953	protein_coding	KNOWN	CCDS4801	13149	1713	570	35227449	35263762	1	D6S229E	Zfp523, ZNF523
6	ZNF76	ENSG00000065029	ENST00000339411	protein_coding	KNOWN	None	13149	1548	515	35227551	35263760	1	D6S229E	Zfp523, ZNF523
6	ZNF76	ENSG00000065029	ENST00000482946	processed_transcript	KNOWN	None	13149	None	None	35238189	35248882	1	D6S229E	Zfp523, ZNF523
6	ZNF76	ENSG00000065029	ENST00000479226	retained_intron	KNOWN	None	13149	None	None	35260100	35262329	1	D6S229E	Zfp523, ZNF523
6	ZNF76	ENSG00000065029	ENST00000498555	protein_coding	PUTATIVE	None	13149	305	100	35261601	35262753	1	D6S229E	Zfp523, ZNF523
6	ZNF76	ENSG00000065029	ENST00000440666	protein_coding	KNOWN	None	13149	1635	544	35227510	35263760	1	D6S229E	Zfp523, ZNF523
10	NET1	ENSG00000173848	ENST00000355029	protein_coding	KNOWN	CCDS41483	14592	1791	596	5454514	5500426	1	None	ARHGEF8, NET1A
10	NET1	ENSG00000173848	ENST00000486354	processed_transcript	KNOWN	None	14592	None	None	5488572	5494860	1	None	ARHGEF8, NET1A
10	NET1	ENSG00000173848	ENST00000449083	protein_coding	KNOWN	None	14592	480	159	5488572	5496485	1	None	ARHGEF8, NET1A
10	NET1	ENSG00000173848	ENST00000380359	protein_coding	KNOWN	CCDS7067	14592	1629	542	5488574	5500426	1	None	ARHGEF8, NET1A
10	NET1	ENSG00000173848	ENST00000465087	processed_transcript	KNOWN	None	14592	None	None	5494382	5495116	1	None	ARHGEF8, NET1A
10	NET1	ENSG00000173848	ENST00000484741	processed_transcript	KNOWN	None	14592	None	None	5496344	5498493	1	None	ARHGEF8, NET1A
10	NET1	ENSG00000173848	ENST00000542715	protein_coding	KNOWN	None	14592	1248	415	5455752	5499258	1	None	ARHGEF8, NET1A
20	None	ENSG00000088899	ENST00000329152	protein_coding	KNOWN	CCDS13049	None	2022	673	3143263	3149207	-1	None	None
20	None	ENSG00000088899	ENST00000360342	protein_coding	KNOWN	None	None	1884	627	3143263	3154192	-1	None	None
20	None	ENSG00000088899	ENST00000337576	protein_coding	KNOWN	None	None	1884	627	3143283	3149207	-1	None	None
HSCHR6_MHC_SSTO	TNXA	ENSG00000234328	ENST00000423417	unprocessed_pseudogene	KNOWN	None	11975	None	None	31968243	31972101	-1	TNX	XA, D6S103E, HXBL
10	MTND2P15	ENSG00000231152	ENST00000418575	processed_pseudogene	KNOWN	None	42116	None	None	71353797	71354688	-1	None	None
9	PNPLA7	ENSG00000130653	ENST00000371457	protein_coding	KNOWN	None	24768	2772	923	140354404	140409961	-1	C9orf111	FLJ43070, FLJ31318, FLJ44279, RP11-48C7.2, NTEL1, NTE-R1
9	PNPLA7	ENSG00000130653	ENST00000492278	processed_transcript	KNOWN	None	24768	None	None	140354405	140373883	-1	C9orf111	FLJ43070, FLJ31318, FLJ44279, RP11-48C7.2, NTEL1, NTE-R1
9	PNPLA7	ENSG00000130653	ENST00000469998	processed_transcript	KNOWN	None	24768	None	None	140354405	140375179	-1	C9orf111	FLJ43070, FLJ31318, FLJ44279, RP11-48C7.2, NTEL1, NTE-R1
9	PNPLA7	ENSG00000130653	ENST00000277531	protein_coding	KNOWN	CCDS7045	24768	3954	1317	140354405	140444836	-1	C9orf111	FLJ43070, FLJ31318, FLJ44279, RP11-48C7.2, NTEL1, NTE-R1
9	PNPLA7	ENSG00000130653	ENST00000434090	protein_coding	KNOWN	None	24768	3843	1280	140355086	140442112	-1	C9orf111	FLJ43070, FLJ31318, FLJ44279, RP11-48C7.2, NTEL1, NTE-R1
9	PNPLA7	ENSG00000130653	ENST00000487228	processed_transcript	KNOWN	None	24768	None	None	140357887	140359272	-1	C9orf111	FLJ43070, FLJ31318, FLJ44279, RP11-48C7.2, NTEL1, NTE-R1
9	PNPLA7	ENSG00000130653	ENST00000491019	nonsense_mediated_decay	KNOWN	None	24768	603	200	140417189	140441826	-1	C9orf111	FLJ43070, FLJ31318, FLJ44279, RP11-48C7.2, NTEL1, NTE-R1
9	PNPLA7	ENSG00000130653	ENST00000406427	protein_coding	KNOWN	CCDS48070	24768	4029	1342	140354405	140444986	-1	C9orf111	FLJ43070, FLJ31318, FLJ44279, RP11-48C7.2, NTEL1, NTE-R1
1	OSCP1	ENSG00000116885	ENST00000468441	protein_coding	PUTATIVE	None	29971	284	93	36881428	36887782	-1	C1orf102	NOR1
1	OSCP1	ENSG00000116885	ENST00000495222	processed_transcript	KNOWN	None	29971	None	None	36883507	36889072	-1	C1orf102	NOR1
1	OSCP1	ENSG00000116885	ENST00000235532	protein_coding	KNOWN	CCDS409	29971	1140	379	36883507	36916052	-1	C1orf102	NOR1
1	OSCP1	ENSG00000116885	ENST00000356637	protein_coding	NOVEL	None	29971	1170	389	36883511	36916034	-1	C1orf102	NOR1
1	OSCP1	ENSG00000116885	ENST00000471369	processed_transcript	KNOWN	None	29971	None	None	36883512	36884894	-1	C1orf102	NOR1
1	OSCP1	ENSG00000116885	ENST00000433045	protein_coding	PUTATIVE	None	29971	1005	334	36883544	36906576	-1	C1orf102	NOR1
1	OSCP1	ENSG00000116885	ENST00000445843	protein_coding	PUTATIVE	None	29971	768	255	36883661	36915880	-1	C1orf102	NOR1
1	OSCP1	ENSG00000116885	ENST00000475160	processed_transcript	KNOWN	None	29971	None	None	36885934	36888418	-1	C1orf102	NOR1
1	OSCP1	ENSG00000116885	ENST00000525869	retained_intron	KNOWN	None	29971	None	None	36887603	36888471	-1	C1orf102	NOR1
1	OSCP1	ENSG00000116885	ENST00000528112	retained_intron	KNOWN	None	29971	None	None	36888387	36904601	-1	C1orf102	NOR1
1	OSCP1	ENSG00000116885	ENST00000354267	protein_coding	KNOWN	CCDS410	29971	672	223	36893900	36916044	-1	C1orf102	NOR1
1	OSCP1	ENSG00000116885	ENST00000524789	nonsense_mediated_decay	KNOWN	None	29971	41	12	36898170	36915888	-1	C1orf102	NOR1
1	OSCP1	ENSG00000116885	ENST00000315643	protein_coding	KNOWN	None	29971	1020	339	36883740	36916086	-1	C1orf102	NOR1
10	RNU6-847P	ENSG00000223047	ENST00000411115	snRNA	KNOWN	None	47810	None	None	35215703	35215810	1	None	None
21	None	ENSG00000231125	ENST00000457162	sense_intronic	KNOWN	None	None	None	None	30430394	30432416	-1	None	None
16	CHST6	ENSG00000183196	ENST00000332272	protein_coding	KNOWN	CCDS10918	6938	1188	395	75510949	75528926	-1	MCDC1	None
16	CHST6	ENSG00000183196	ENST00000390664	protein_coding	KNOWN	CCDS10918	6938	1188	395	75512326	75529282	-1	MCDC1	None
Y	None	ENSG00000230025	ENST00000434308	unprocessed_pseudogene	KNOWN	None	None	None	None	8839792	8842136	-1	None	None
12	FRS2	ENSG00000166225	ENST00000547219	protein_coding	KNOWN	None	16971	108	35	69864129	69964152	1	None	SNT-1, FRS2alpha, SNT1, FRS2A
12	FRS2	ENSG00000166225	ENST00000549921	protein_coding	KNOWN	CCDS41809	16971	1527	508	69864155	69968744	1	None	SNT-1, FRS2alpha, SNT1, FRS2A
12	FRS2	ENSG00000166225	ENST00000550316	protein_coding	KNOWN	None	16971	36	11	69864158	69962846	1	None	SNT-1, FRS2alpha, SNT1, FRS2A
12	FRS2	ENSG00000166225	ENST00000548154	protein_coding	KNOWN	None	16971	121	39	69864163	69964165	1	None	SNT-1, FRS2alpha, SNT1, FRS2A
12	FRS2	ENSG00000166225	ENST00000547414	protein_coding	PUTATIVE	None	16971	94	30	69864163	69964249	1	None	SNT-1, FRS2alpha, SNT1, FRS2A
12	FRS2	ENSG00000166225	ENST00000550389	protein_coding	KNOWN	CCDS41809	16971	1527	508	69864186	69973562	1	None	SNT-1, FRS2alpha, SNT1, FRS2A
12	FRS2	ENSG00000166225	ENST00000550937	protein_coding	KNOWN	None	16971	273	90	69864188	69965075	1	None	SNT-1, FRS2alpha, SNT1, FRS2A
12	FRS2	ENSG00000166225	ENST00000549092	protein_coding	KNOWN	None	16971	99	32	69864200	69964143	1	None	SNT-1, FRS2alpha, SNT1, FRS2A
12	FRS2	ENSG00000166225	ENST00000550169	protein_coding	KNOWN	None	16971	31	9	69864214	69962841	1	None	SNT-1, FRS2alpha, SNT1, FRS2A
12	FRS2	ENSG00000166225	ENST00000551325	protein_coding	KNOWN	None	16971	551	182	69955928	69966036	1	None	SNT-1, FRS2alpha, SNT1, FRS2A
12	FRS2	ENSG00000166225	ENST00000299293	protein_coding	KNOWN	CCDS41809	16971	1527	508	69864129	69973559	1	None	SNT-1, FRS2alpha, SNT1, FRS2A
12	FRS2	ENSG00000166225	ENST00000397997	protein_coding	KNOWN	CCDS41809	16971	1527	508	69924603	69973559	1	None	SNT-1, FRS2alpha, SNT1, FRS2A
10	RNU6-193P	ENSG00000222909	ENST00000410977	snRNA	KNOWN	None	47156	None	None	35231897	35232003	1	None	None
22	MIF	ENSG00000240972	ENST00000215754	protein_coding	KNOWN	CCDS13819	7097	348	115	24236191	24237413	1	GLIF	GIF
22	MIF	ENSG00000240972	ENST00000465752	retained_intron	KNOWN	None	7097	None	None	24236637	24237414	1	GLIF	GIF
22	MIF	ENSG00000240972	ENST00000498385	retained_intron	KNOWN	None	7097	None	None	24236885	24237414	1	GLIF	GIF
22	TSSK2	ENSG00000206203	ENST00000399635	protein_coding	KNOWN	CCDS13755	11401	1077	358	19118321	19120134	1	STK22B	SPOGA2, FLJ38613
5	MBLAC2	ENSG00000176055	ENST00000316610	protein_coding	KNOWN	CCDS4067	33711	840	279	89754020	89770585	-1	None	DKFZp686P15118, MGC46734
5	MBLAC2	ENSG00000176055	ENST00000514906	protein_coding	PUTATIVE	None	33711	600	199	89768260	89770195	-1	None	DKFZp686P15118, MGC46734
1	TRIM45	ENSG00000134253	ENST00000497970	nonsense_mediated_decay	KNOWN	None	19018	314	103	117653682	117658234	-1	None	FLJ13181, RNF99
1	TRIM45	ENSG00000134253	ENST00000256649	protein_coding	KNOWN	CCDS893	19018	1743	580	117653682	117664350	-1	None	FLJ13181, RNF99
1	TRIM45	ENSG00000134253	ENST00000369464	protein_coding	KNOWN	CCDS44200	19018	1689	562	117653682	117664384	-1	None	FLJ13181, RNF99
1	TRIM45	ENSG00000134253	ENST00000369461	protein_coding	PUTATIVE	None	19018	1572	523	117654807	117665209	-1	None	FLJ13181, RNF99
1	TRIM45	ENSG00000134253	ENST00000485032	protein_coding	PUTATIVE	None	19018	910	302	117660656	117664414	-1	None	FLJ13181, RNF99
16	None	ENSG00000260092	ENST00000460606	nonsense_mediated_decay	KNOWN	None	None	173	56	75562430	75579326	-1	None	None
17	SYNGR2	ENSG00000108639	ENST00000225777	protein_coding	KNOWN	CCDS11753	11499	675	224	76164639	76169608	1	None	None
17	SYNGR2	ENSG00000108639	ENST00000585591	protein_coding	KNOWN	CCDS11753	11499	675	224	76164675	76169416	1	None	None
17	SYNGR2	ENSG00000108639	ENST00000589183	nonsense_mediated_decay	KNOWN	None	11499	342	113	76164683	76168058	1	None	None
17	SYNGR2	ENSG00000108639	ENST00000589711	protein_coding	PUTATIVE	None	11499	198	65	76164685	76169608	1	None	None
17	SYNGR2	ENSG00000108639	ENST00000591770	retained_intron	KNOWN	None	11499	None	None	76164691	76167655	1	None	None
17	SYNGR2	ENSG00000108639	ENST00000588282	protein_coding	PUTATIVE	None	11499	828	275	76164692	76168800	1	None	None
17	SYNGR2	ENSG00000108639	ENST00000589168	protein_coding	PUTATIVE	None	11499	407	134	76164699	76169608	1	None	None
17	SYNGR2	ENSG00000108639	ENST00000590201	protein_coding	PUTATIVE	None	11499	507	168	76165239	76169608	1	None	None
17	SYNGR2	ENSG00000108639	ENST00000592456	processed_transcript	KNOWN	None	11499	None	None	76165765	76168800	1	None	None
22	GSC2	ENSG00000063515	ENST00000086933	protein_coding	KNOWN	CCDS13757	4613	618	205	19136089	19137796	-1	GSCL	None
19	ZNF724P	ENSG00000196081	ENST00000418100	protein_coding	NOVEL	None	32460	1860	619	23404401	23433162	-1	None	None
19	ZNF724P	ENSG00000196081	ENST00000597537	protein_coding	PUTATIVE	None	32460	297	98	23406732	23433190	-1	None	None
19	ZNF724P	ENSG00000196081	ENST00000597037	protein_coding	PUTATIVE	None	32460	234	77	23413662	23433192	-1	None	None
4	None	ENSG00000249334	ENST00000505494	lincRNA	KNOWN	None	None	None	None	10686627	10699285	1	None	None
5	PFN3	ENSG00000196570	ENST00000358571	protein_coding	KNOWN	CCDS34301	18627	414	137	176827108	176827637	-1	None	None
4	MIR572	ENSG00000207716	ENST00000384983	miRNA	KNOWN	None	32828	None	None	11370451	11370545	1	MIRN572	hsa-mir-572
4	RNPS1P1	ENSG00000250896	ENST00000507437	processed_pseudogene	KNOWN	None	39525	None	None	11373599	11374516	1	None	None
10	PRDX2P2	ENSG00000213724	ENST00000451920	processed_pseudogene	KNOWN	None	44967	None	None	35253997	35255187	1	None	None
21	RPL12P9	ENSG00000232687	ENST00000412942	processed_pseudogene	KNOWN	None	23766	None	None	30500022	30500509	-1	None	None
4	RNA5SP156	ENSG00000222182	ENST00000410250	rRNA	KNOWN	None	43056	None	None	11415675	11415784	-1	RN5S156	None
HSCHR6_MHC_QBL	CCHCR1	ENSG00000206457	ENST00000417776	protein_coding	KNOWN	None	13930	769	255	31102653	31105453	-1	C6orf18	HCR
HSCHR6_MHC_QBL	CCHCR1	ENSG00000206457	ENST00000400412	protein_coding	KNOWN	None	13930	2616	871	31102653	31118020	-1	C6orf18	HCR
HSCHR6_MHC_QBL	CCHCR1	ENSG00000206457	ENST00000400406	protein_coding	KNOWN	None	13930	2190	729	31102653	31118432	-1	C6orf18	HCR
HSCHR6_MHC_QBL	CCHCR1	ENSG00000206457	ENST00000383527	protein_coding	KNOWN	None	13930	2349	782	31102653	31118444	-1	C6orf18	HCR
HSCHR6_MHC_QBL	CCHCR1	ENSG00000206457	ENST00000496505	retained_intron	KNOWN	None	13930	None	None	31103274	31105519	-1	C6orf18	HCR
HSCHR6_MHC_QBL	CCHCR1	ENSG00000206457	ENST00000472432	processed_transcript	KNOWN	None	13930	None	None	31103310	31105332	-1	C6orf18	HCR
HSCHR6_MHC_QBL	CCHCR1	ENSG00000206457	ENST00000482045	processed_transcript	KNOWN	None	13930	None	None	31109376	31118422	-1	C6orf18	HCR
HSCHR6_MHC_QBL	CCHCR1	ENSG00000206457	ENST00000429943	protein_coding	KNOWN	None	13930	948	315	31110318	31117317	-1	C6orf18	HCR
HSCHR6_MHC_QBL	CCHCR1	ENSG00000206457	ENST00000465277	retained_intron	KNOWN	None	13930	None	None	31111080	31114965	-1	C6orf18	HCR
HSCHR6_MHC_QBL	CCHCR1	ENSG00000206457	ENST00000439820	protein_coding	KNOWN	None	13930	565	187	31111305	31118313	-1	C6orf18	HCR
HSCHR6_MHC_QBL	CCHCR1	ENSG00000206457	ENST00000425500	protein_coding	KNOWN	None	13930	458	151	31114786	31118418	-1	C6orf18	HCR
HSCHR6_MHC_QBL	CCHCR1	ENSG00000206457	ENST00000412577	protein_coding	KNOWN	None	13930	514	170	31114808	31118300	-1	C6orf18	HCR
HSCHR6_MHC_QBL	CCHCR1	ENSG00000206457	ENST00000456712	protein_coding	KNOWN	None	13930	650	215	31114888	31118019	-1	C6orf18	HCR
HSCHR6_MHC_QBL	CCHCR1	ENSG00000206457	ENST00000437027	protein_coding	KNOWN	None	13930	380	125	31114942	31118436	-1	C6orf18	HCR
HSCHR6_MHC_QBL	CCHCR1	ENSG00000206457	ENST00000498695	retained_intron	KNOWN	None	13930	None	None	31116459	31117316	-1	C6orf18	HCR
HSCHR6_MHC_QBL	CCHCR1	ENSG00000206457	ENST00000470755	processed_transcript	KNOWN	None	13930	None	None	31116986	31118003	-1	C6orf18	HCR
21	None	ENSG00000201984	ENST00000365114	misc_RNA	NOVEL	None	None	None	None	30511604	30511705	-1	None	None
4	None	ENSG00000251152	ENST00000515343	lincRNA	KNOWN	None	None	None	None	11470874	11479820	1	None	None
21	None	ENSG00000212479	ENST00000391177	snoRNA	NOVEL	None	None	None	None	30552747	30552960	-1	None	None
18	SNRPD1	ENSG00000167088	ENST00000300413	protein_coding	KNOWN	CCDS32801	11158	360	119	19192228	19210344	1	SNRPD	HsT2456, Sm-D1
18	SNRPD1	ENSG00000167088	ENST00000579618	protein_coding	PUTATIVE	None	11158	135	44	19192275	19209070	1	SNRPD	HsT2456, Sm-D1
18	SNRPD1	ENSG00000167088	ENST00000582475	protein_coding	PUTATIVE	None	11158	228	75	19192292	19209440	1	SNRPD	HsT2456, Sm-D1
21	None	ENSG00000224649	ENST00000430001	antisense	KNOWN	None	None	None	None	30554348	30560116	-1	None	None
10	MTND1P20	ENSG00000226794	ENST00000430341	processed_pseudogene	KNOWN	None	42069	None	None	71355243	71356192	-1	None	None
HSCHR6_MHC_SSTO	MICB	ENSG00000227772	ENST00000451789	protein_coding	KNOWN	None	7091	1023	340	31455821	31468850	1	None	PERB11.2
HSCHR6_MHC_SSTO	MICB	ENSG00000227772	ENST00000443156	protein_coding	KNOWN	None	7091	1152	383	31455850	31468850	1	None	PERB11.2
HSCHR6_MHC_SSTO	MICB	ENSG00000227772	ENST00000489566	retained_intron	KNOWN	None	7091	None	None	31463657	31465253	1	None	PERB11.2
HSCHR6_MHC_SSTO	MICB	ENSG00000227772	ENST00000551960	protein_coding	KNOWN	None	7091	126	41	31455880	31456428	1	None	PERB11.2
12	KRT2	ENSG00000172867	ENST00000309680	protein_coding	KNOWN	CCDS8835	6439	1920	639	53038342	53045948	-1	KRT2A	KRTE
12	KRT2	ENSG00000172867	ENST00000547106	retained_intron	KNOWN	None	6439	None	None	53041992	53044456	-1	KRT2A	KRTE
4	None	ENSG00000249631	ENST00000510095	lincRNA	KNOWN	None	None	None	None	11627338	11815582	1	None	None
4	None	ENSG00000249631	ENST00000508998	lincRNA	KNOWN	None	None	None	None	11724061	11773492	1	None	None
4	None	ENSG00000249631	ENST00000515286	lincRNA	KNOWN	None	None	None	None	11724075	11804042	1	None	None
4	None	ENSG00000249631	ENST00000509244	lincRNA	KNOWN	None	None	None	None	11724119	11791490	1	None	None
4	None	ENSG00000249631	ENST00000510639	lincRNA	KNOWN	None	None	None	None	11771930	11773508	1	None	None
4	None	ENSG00000249631	ENST00000514452	lincRNA	KNOWN	None	None	None	None	11771992	11775495	1	None	None
21	LINC00189	ENSG00000215533	ENST00000447125	processed_transcript	KNOWN	None	18461	None	None	30565801	30660526	1	C21orf109, NCRNA00189	None
21	LINC00189	ENSG00000215533	ENST00000420364	processed_transcript	KNOWN	None	18461	None	None	30565815	30660526	1	C21orf109, NCRNA00189	None
21	LINC00189	ENSG00000215533	ENST00000431661	processed_transcript	KNOWN	None	18461	None	None	30566358	30656528	1	C21orf109, NCRNA00189	None
21	LINC00189	ENSG00000215533	ENST00000545936	processed_transcript	KNOWN	None	18461	None	None	30565801	30660526	1	C21orf109, NCRNA00189	None
22	None	ENSG00000218537	ENST00000406213	protein_coding	PUTATIVE	None	None	570	189	24236613	24241117	-1	None	None
4	COQ2	ENSG00000173085	ENST00000503391	nonsense_mediated_decay	KNOWN	None	25223	642	213	84182689	84205948	-1	None	CL640, FLJ26072
4	COQ2	ENSG00000173085	ENST00000503915	nonsense_mediated_decay	KNOWN	None	25223	678	225	84184977	84200211	-1	None	CL640, FLJ26072
4	COQ2	ENSG00000173085	ENST00000311469	protein_coding	KNOWN	CCDS47090	25223	1266	421	84184977	84206067	-1	None	CL640, FLJ26072
4	COQ2	ENSG00000173085	ENST00000311461	protein_coding	KNOWN	None	25223	987	328	84187850	84205918	-1	None	CL640, FLJ26072
4	COQ2	ENSG00000173085	ENST00000514935	processed_transcript	KNOWN	None	25223	None	None	84194696	84202749	-1	None	CL640, FLJ26072
4	COQ2	ENSG00000173085	ENST00000439031	protein_coding	KNOWN	None	25223	1155	384	84184979	84206067	-1	None	CL640, FLJ26072
17	RSAD1	ENSG00000136444	ENST00000258955	protein_coding	KNOWN	CCDS11569	25634	1329	442	48556161	48563336	1	None	FLJ11164
17	RSAD1	ENSG00000136444	ENST00000443328	retained_intron	KNOWN	None	25634	None	None	48556221	48557990	1	None	FLJ11164
17	RSAD1	ENSG00000136444	ENST00000515221	nonsense_mediated_decay	KNOWN	None	25634	588	195	48556221	48562258	1	None	FLJ11164
17	RSAD1	ENSG00000136444	ENST00000504284	nonsense_mediated_decay	KNOWN	None	25634	258	85	48556264	48562180	1	None	FLJ11164
17	RSAD1	ENSG00000136444	ENST00000510554	protein_coding	PUTATIVE	None	25634	98	31	48556409	48557279	1	None	FLJ11164
17	RSAD1	ENSG00000136444	ENST00000506211	nonsense_mediated_decay	KNOWN	None	25634	588	195	48559458	48562359	1	None	FLJ11164
17	RSAD1	ENSG00000136444	ENST00000509398	retained_intron	KNOWN	None	25634	None	None	48559725	48560896	1	None	FLJ11164
17	RSAD1	ENSG00000136444	ENST00000513650	retained_intron	KNOWN	None	25634	None	None	48561390	48562224	1	None	FLJ11164
22	CRELD2	ENSG00000184164	ENST00000450207	protein_coding	PUTATIVE	None	28150	688	228	50311815	50316355	1	None	MGC11256
22	CRELD2	ENSG00000184164	ENST00000404488	protein_coding	KNOWN	CCDS46730	28150	1209	402	50312283	50321188	1	None	MGC11256
22	CRELD2	ENSG00000184164	ENST00000328268	protein_coding	KNOWN	CCDS14082	28150	1062	353	50312344	50321176	1	None	MGC11256
22	CRELD2	ENSG00000184164	ENST00000483652	retained_intron	KNOWN	None	28150	None	None	50312381	50320153	1	None	MGC11256
22	CRELD2	ENSG00000184164	ENST00000407217	protein_coding	KNOWN	None	28150	966	321	50312381	50321182	1	None	MGC11256
22	CRELD2	ENSG00000184164	ENST00000403427	protein_coding	KNOWN	None	28150	978	325	50312381	50321182	1	None	MGC11256
22	CRELD2	ENSG00000184164	ENST00000482956	retained_intron	KNOWN	None	28150	None	None	50312418	50317048	1	None	MGC11256
22	CRELD2	ENSG00000184164	ENST00000498354	processed_transcript	KNOWN	None	28150	None	None	50314937	50315681	1	None	MGC11256
22	CRELD2	ENSG00000184164	ENST00000462253	processed_transcript	KNOWN	None	28150	None	None	50314955	50316912	1	None	MGC11256
22	CRELD2	ENSG00000184164	ENST00000444954	processed_transcript	KNOWN	None	28150	None	None	50315232	50318777	1	None	MGC11256
22	CRELD2	ENSG00000184164	ENST00000487969	retained_intron	KNOWN	None	28150	None	None	50316858	50321176	1	None	MGC11256
21	GAPDHP14	ENSG00000236056	ENST00000450472	processed_pseudogene	KNOWN	None	4160	None	None	30594642	30595578	1	GAPDP14	None
20	PET117	ENSG00000232838	ENST00000432901	protein_coding	KNOWN	CCDS54450	40045	246	81	18118499	18123810	1	None	None
21	BACH1	ENSG00000156273	ENST00000548219	protein_coding	KNOWN	None	935	75	24	30566392	30693676	1	None	BACH-1, BTBD24
21	BACH1	ENSG00000156273	ENST00000550131	protein_coding	KNOWN	None	935	75	24	30566468	30693676	1	None	BACH-1, BTBD24
21	BACH1	ENSG00000156273	ENST00000547141	protein_coding	KNOWN	None	935	75	24	30566468	30693676	1	None	BACH-1, BTBD24
21	BACH1	ENSG00000156273	ENST00000546469	protein_coding	KNOWN	None	935	75	24	30566468	30693676	1	None	BACH-1, BTBD24
21	BACH1	ENSG00000156273	ENST00000286800	protein_coding	KNOWN	CCDS13585	935	2211	736	30671192	30718469	1	None	BACH-1, BTBD24
21	BACH1	ENSG00000156273	ENST00000399921	protein_coding	KNOWN	CCDS13585	935	2211	736	30671737	30718469	1	None	BACH-1, BTBD24
21	BACH1	ENSG00000156273	ENST00000548467	protein_coding	KNOWN	None	935	75	24	30672004	30693676	1	None	BACH-1, BTBD24
21	BACH1	ENSG00000156273	ENST00000451655	protein_coding	KNOWN	None	935	674	223	30672454	30698819	1	None	BACH-1, BTBD24
21	BACH1	ENSG00000156273	ENST00000447177	protein_coding	KNOWN	None	935	660	219	30673123	30698805	1	None	BACH-1, BTBD24
21	BACH1	ENSG00000156273	ENST00000435072	protein_coding	KNOWN	None	935	512	169	30677524	30698657	1	None	BACH-1, BTBD24
21	BACH1	ENSG00000156273	ENST00000422809	protein_coding	PUTATIVE	None	935	655	217	30699450	31003071	1	None	BACH-1, BTBD24
21	BACH1	ENSG00000156273	ENST00000468059	protein_coding	PUTATIVE	None	935	415	137	30699597	31003071	1	None	BACH-1, BTBD24
21	BACH1	ENSG00000156273	ENST00000462262	processed_transcript	KNOWN	None	935	None	None	30968360	31003067	1	None	BACH-1, BTBD24
16	CHST5	ENSG00000135702	ENST00000336257	protein_coding	KNOWN	CCDS10919	1973	1236	411	75562433	75569068	-1	None	I-GLCNAC-6-ST, FLJ22167
16	CHST5	ENSG00000135702	ENST00000565039	protein_coding	NOVEL	None	1973	298	98	75564003	75569145	-1	None	I-GLCNAC-6-ST, FLJ22167
16	CHST5	ENSG00000135702	ENST00000541075	protein_coding	KNOWN	None	1973	1254	417	75563047	75565538	-1	None	I-GLCNAC-6-ST, FLJ22167
19	PTH2	ENSG00000142538	ENST00000270631	protein_coding	KNOWN	CCDS12763	30828	303	100	49925671	49926698	-1	None	TIP39
Y	OFD1P3Y	ENSG00000231988	ENST00000453312	unprocessed_pseudogene	KNOWN	None	23875	None	None	8898635	8908029	1	OFDYP3, OFD1P3, OFD1PY3, OFD1P19Y, OFD1P19, OFD1PY19	None
1	MRPS15	ENSG00000116898	ENST00000373116	protein_coding	KNOWN	CCDS411	14504	774	257	36921319	36930038	-1	None	FLJ11564
1	MRPS15	ENSG00000116898	ENST00000488606	processed_transcript	KNOWN	None	14504	None	None	36921373	36925304	-1	None	FLJ11564
1	MRPS15	ENSG00000116898	ENST00000477040	processed_transcript	KNOWN	None	14504	None	None	36921374	36922167	-1	None	FLJ11564
1	MRPS15	ENSG00000116898	ENST00000462067	processed_transcript	KNOWN	None	14504	None	None	36921375	36929946	-1	None	FLJ11564
10	MIR3611	ENSG00000266228	ENST00000584484	miRNA	KNOWN	None	38914	None	None	35368526	35368608	-1	None	hsa-mir-3611
20	DDRGK1	ENSG00000198171	ENST00000496781	processed_transcript	KNOWN	None	16110	None	None	3170996	3172230	-1	C20orf116	dJ1187M17.3
20	DDRGK1	ENSG00000198171	ENST00000354488	protein_coding	KNOWN	CCDS13050	16110	945	314	3170996	3185331	-1	C20orf116	dJ1187M17.3
20	DDRGK1	ENSG00000198171	ENST00000470203	processed_transcript	KNOWN	None	16110	None	None	3171166	3175960	-1	C20orf116	dJ1187M17.3
20	DDRGK1	ENSG00000198171	ENST00000380201	protein_coding	KNOWN	None	16110	897	298	3172070	3185331	-1	C20orf116	dJ1187M17.3
3	PP2D1	ENSG00000183977	ENST00000333083	nonsense_mediated_decay	KNOWN	None	28406	1131	376	20021453	20053759	-1	C3orf48	FLJ25449
3	PP2D1	ENSG00000183977	ENST00000389050	protein_coding	KNOWN	CCDS58817	28406	1893	630	20026872	20053822	-1	C3orf48	FLJ25449
3	PP2D1	ENSG00000183977	ENST00000461033	retained_intron	KNOWN	None	28406	None	None	20042467	20053749	-1	C3orf48	FLJ25449
9	FAM129B	ENSG00000136830	ENST00000373314	protein_coding	KNOWN	CCDS35144	25282	2202	733	130267618	130341268	-1	C9orf88	DKFZP434H0820, FLJ13518, FLJ22151, FLJ22298, bA356B19.6, MINERVA
9	FAM129B	ENSG00000136830	ENST00000478917	processed_transcript	KNOWN	None	25282	None	None	130267622	130331164	-1	C9orf88	DKFZP434H0820, FLJ13518, FLJ22151, FLJ22298, bA356B19.6, MINERVA
9	FAM129B	ENSG00000136830	ENST00000373312	protein_coding	KNOWN	CCDS35145	25282	2241	746	130267622	130331367	-1	C9orf88	DKFZP434H0820, FLJ13518, FLJ22151, FLJ22298, bA356B19.6, MINERVA
9	FAM129B	ENSG00000136830	ENST00000468379	processed_transcript	KNOWN	None	25282	None	None	130269451	130331232	-1	C9orf88	DKFZP434H0820, FLJ13518, FLJ22151, FLJ22298, bA356B19.6, MINERVA
9	FAM129B	ENSG00000136830	ENST00000484348	processed_transcript	KNOWN	None	25282	None	None	130269463	130331355	-1	C9orf88	DKFZP434H0820, FLJ13518, FLJ22151, FLJ22298, bA356B19.6, MINERVA
9	FAM129B	ENSG00000136830	ENST00000465154	processed_transcript	KNOWN	None	25282	None	None	130272167	130279172	-1	C9orf88	DKFZP434H0820, FLJ13518, FLJ22151, FLJ22298, bA356B19.6, MINERVA
9	FAM129B	ENSG00000136830	ENST00000476091	processed_transcript	KNOWN	None	25282	None	None	130287085	130289500	-1	C9orf88	DKFZP434H0820, FLJ13518, FLJ22151, FLJ22298, bA356B19.6, MINERVA
22	SLC25A1	ENSG00000100075	ENST00000215882	protein_coding	KNOWN	CCDS13758	10979	936	311	19163095	19166343	-1	SLC20A3	CTP
22	SLC25A1	ENSG00000100075	ENST00000451283	protein_coding	PUTATIVE	None	10979	627	208	19163106	19166034	-1	SLC20A3	CTP
22	SLC25A1	ENSG00000100075	ENST00000470922	retained_intron	KNOWN	None	10979	None	None	19163123	19166252	-1	SLC20A3	CTP
22	SLC25A1	ENSG00000100075	ENST00000461267	processed_transcript	PUTATIVE	None	10979	None	None	19164180	19165993	-1	SLC20A3	CTP
22	SLC25A1	ENSG00000100075	ENST00000468824	processed_transcript	PUTATIVE	None	10979	None	None	19165503	19166148	-1	SLC20A3	CTP
5	POLR3G	ENSG00000113356	ENST00000512239	protein_coding	PUTATIVE	None	30075	117	38	89767565	89781501	1	None	RPC32, RPC7
5	POLR3G	ENSG00000113356	ENST00000505345	protein_coding	PUTATIVE	None	30075	278	91	89769876	89791524	1	None	RPC32, RPC7
5	POLR3G	ENSG00000113356	ENST00000503373	protein_coding	PUTATIVE	None	30075	662	219	89770078	89807946	1	None	RPC32, RPC7
5	POLR3G	ENSG00000113356	ENST00000503973	protein_coding	PUTATIVE	None	30075	383	126	89770681	89793551	1	None	RPC32, RPC7
5	POLR3G	ENSG00000113356	ENST00000504930	protein_coding	KNOWN	CCDS43337	30075	672	223	89770706	89810370	1	None	RPC32, RPC7
5	POLR3G	ENSG00000113356	ENST00000514483	protein_coding	PUTATIVE	None	30075	303	100	89770712	89786675	1	None	RPC32, RPC7
5	POLR3G	ENSG00000113356	ENST00000399107	protein_coding	KNOWN	CCDS43337	30075	672	223	89770681	89810369	1	None	RPC32, RPC7
2	SCN2A	ENSG00000136531	ENST00000424833	protein_coding	KNOWN	None	10588	1511	502	166095912	166172108	1	SCN2A1, SCN2A2	Nav1.2, HBSCII, HBSCI
2	SCN2A	ENSG00000136531	ENST00000283256	protein_coding	KNOWN	CCDS33314	10588	6018	2005	166150541	166248563	1	SCN2A1, SCN2A2	Nav1.2, HBSCII, HBSCI
2	SCN2A	ENSG00000136531	ENST00000480032	retained_intron	KNOWN	None	10588	None	None	166150554	166237513	1	SCN2A1, SCN2A2	Nav1.2, HBSCII, HBSCI
2	SCN2A	ENSG00000136531	ENST00000375427	protein_coding	KNOWN	CCDS33313	10588	6018	2005	166152283	166246539	1	SCN2A1, SCN2A2	Nav1.2, HBSCII, HBSCI
2	SCN2A	ENSG00000136531	ENST00000486878	retained_intron	KNOWN	None	10588	None	None	166165176	166167255	1	SCN2A1, SCN2A2	Nav1.2, HBSCII, HBSCI
2	SCN2A	ENSG00000136531	ENST00000375437	protein_coding	KNOWN	CCDS33314	10588	6018	2005	166095912	166248818	1	SCN2A1, SCN2A2	Nav1.2, HBSCII, HBSCI
2	SCN2A	ENSG00000136531	ENST00000357398	protein_coding	KNOWN	CCDS33313	10588	6018	2005	166095912	166248818	1	SCN2A1, SCN2A2	Nav1.2, HBSCII, HBSCI
11	ARFGAP2	ENSG00000149182	ENST00000524782	protein_coding	KNOWN	CCDS7926	13504	1566	521	47185852	47198633	-1	ZNF289	IRZ, Zfp289, FLJ14576
11	ARFGAP2	ENSG00000149182	ENST00000395449	processed_transcript	KNOWN	None	13504	None	None	47186766	47198410	-1	ZNF289	IRZ, Zfp289, FLJ14576
11	ARFGAP2	ENSG00000149182	ENST00000533243	nonsense_mediated_decay	KNOWN	None	13504	213	70	47186832	47198676	-1	ZNF289	IRZ, Zfp289, FLJ14576
11	ARFGAP2	ENSG00000149182	ENST00000527776	protein_coding	NOVEL	None	13504	709	235	47187819	47193108	-1	ZNF289	IRZ, Zfp289, FLJ14576
11	ARFGAP2	ENSG00000149182	ENST00000526342	protein_coding	NOVEL	None	13504	468	155	47188136	47198410	-1	ZNF289	IRZ, Zfp289, FLJ14576
11	ARFGAP2	ENSG00000149182	ENST00000527927	protein_coding	NOVEL	None	13504	823	273	47188412	47198431	-1	ZNF289	IRZ, Zfp289, FLJ14576
11	ARFGAP2	ENSG00000149182	ENST00000532478	nonsense_mediated_decay	KNOWN	None	13504	360	119	47189460	47198397	-1	ZNF289	IRZ, Zfp289, FLJ14576
11	ARFGAP2	ENSG00000149182	ENST00000525635	retained_intron	KNOWN	None	13504	None	None	47189525	47190054	-1	ZNF289	IRZ, Zfp289, FLJ14576
11	ARFGAP2	ENSG00000149182	ENST00000532438	nonsense_mediated_decay	KNOWN	None	13504	270	89	47189675	47198430	-1	ZNF289	IRZ, Zfp289, FLJ14576
11	ARFGAP2	ENSG00000149182	ENST00000529455	nonsense_mediated_decay	KNOWN	None	13504	400	132	47189679	47198402	-1	ZNF289	IRZ, Zfp289, FLJ14576
11	ARFGAP2	ENSG00000149182	ENST00000525398	protein_coding	NOVEL	None	13504	983	326	47192977	47198421	-1	ZNF289	IRZ, Zfp289, FLJ14576
11	ARFGAP2	ENSG00000149182	ENST00000526948	retained_intron	KNOWN	None	13504	None	None	47193076	47193737	-1	ZNF289	IRZ, Zfp289, FLJ14576
11	ARFGAP2	ENSG00000149182	ENST00000531750	processed_transcript	KNOWN	None	13504	None	None	47193263	47198431	-1	ZNF289	IRZ, Zfp289, FLJ14576
11	ARFGAP2	ENSG00000149182	ENST00000525314	protein_coding	NOVEL	None	13504	756	251	47193310	47198433	-1	ZNF289	IRZ, Zfp289, FLJ14576
11	ARFGAP2	ENSG00000149182	ENST00000527097	retained_intron	KNOWN	None	13504	None	None	47193577	47198419	-1	ZNF289	IRZ, Zfp289, FLJ14576
11	ARFGAP2	ENSG00000149182	ENST00000528444	protein_coding	NOVEL	None	13504	716	237	47193863	47198418	-1	ZNF289	IRZ, Zfp289, FLJ14576
11	ARFGAP2	ENSG00000149182	ENST00000524727	retained_intron	KNOWN	None	13504	None	None	47194649	47198410	-1	ZNF289	IRZ, Zfp289, FLJ14576
11	ARFGAP2	ENSG00000149182	ENST00000529599	processed_transcript	KNOWN	None	13504	None	None	47194985	47198430	-1	ZNF289	IRZ, Zfp289, FLJ14576
11	ARFGAP2	ENSG00000149182	ENST00000528041	nonsense_mediated_decay	KNOWN	None	13504	333	110	47195013	47198430	-1	ZNF289	IRZ, Zfp289, FLJ14576
11	ARFGAP2	ENSG00000149182	ENST00000529439	nonsense_mediated_decay	KNOWN	None	13504	51	16	47195310	47198335	-1	ZNF289	IRZ, Zfp289, FLJ14576
11	ARFGAP2	ENSG00000149182	ENST00000530596	protein_coding	NOVEL	None	13504	519	172	47195332	47198419	-1	ZNF289	IRZ, Zfp289, FLJ14576
11	ARFGAP2	ENSG00000149182	ENST00000533939	processed_transcript	KNOWN	None	13504	None	None	47195407	47198398	-1	ZNF289	IRZ, Zfp289, FLJ14576
11	ARFGAP2	ENSG00000149182	ENST00000526185	retained_intron	KNOWN	None	13504	None	None	47195958	47198419	-1	ZNF289	IRZ, Zfp289, FLJ14576
11	ARFGAP2	ENSG00000149182	ENST00000528708	nonsense_mediated_decay	KNOWN	None	13504	54	17	47196577	47198338	-1	ZNF289	IRZ, Zfp289, FLJ14576
11	ARFGAP2	ENSG00000149182	ENST00000524586	nonsense_mediated_decay	KNOWN	None	13504	285	94	47196612	47198418	-1	ZNF289	IRZ, Zfp289, FLJ14576
11	ARFGAP2	ENSG00000149182	ENST00000530794	retained_intron	KNOWN	None	13504	None	None	47196705	47198431	-1	ZNF289	IRZ, Zfp289, FLJ14576
11	ARFGAP2	ENSG00000149182	ENST00000528072	retained_intron	KNOWN	None	13504	None	None	47197765	47198430	-1	ZNF289	IRZ, Zfp289, FLJ14576
11	ARFGAP2	ENSG00000149182	ENST00000426335	protein_coding	KNOWN	None	13504	1158	385	47185848	47198430	-1	ZNF289	IRZ, Zfp289, FLJ14576
11	ARFGAP2	ENSG00000149182	ENST00000419701	protein_coding	KNOWN	None	13504	1245	414	47186926	47198380	-1	ZNF289	IRZ, Zfp289, FLJ14576
11	ARFGAP2	ENSG00000149182	ENST00000319543	protein_coding	KNOWN	None	13504	759	252	47186832	47198424	-1	ZNF289	IRZ, Zfp289, FLJ14576
10	None	ENSG00000230534	ENST00000450742	antisense	KNOWN	None	None	None	None	35386934	35415585	-1	None	None
10	None	ENSG00000230534	ENST00000457255	antisense	KNOWN	None	None	None	None	35389818	35415948	-1	None	None
10	None	ENSG00000230534	ENST00000450106	antisense	KNOWN	None	None	None	None	35407111	35415588	-1	None	None
1	NAV1	ENSG00000134369	ENST00000491403	retained_intron	KNOWN	None	15989	None	None	201592411	201598668	1	None	FLJ12560, FLJ14203, KIAA1151, MGC14961, POMFIL3, steerin-1, DKFZp781D0314
1	NAV1	ENSG00000134369	ENST00000367302	protein_coding	NOVEL	None	15989	5493	1830	201592601	201792472	1	None	FLJ12560, FLJ14203, KIAA1151, MGC14961, POMFIL3, steerin-1, DKFZp781D0314
1	NAV1	ENSG00000134369	ENST00000367296	protein_coding	KNOWN	CCDS1414	15989	5634	1877	201617377	201796097	1	None	FLJ12560, FLJ14203, KIAA1151, MGC14961, POMFIL3, steerin-1, DKFZp781D0314
1	NAV1	ENSG00000134369	ENST00000490213	processed_transcript	KNOWN	None	15989	None	None	201708445	201772818	1	None	FLJ12560, FLJ14203, KIAA1151, MGC14961, POMFIL3, steerin-1, DKFZp781D0314
1	NAV1	ENSG00000134369	ENST00000367295	protein_coding	NOVEL	CCDS53456	15989	4452	1483	201708996	201796097	1	None	FLJ12560, FLJ14203, KIAA1151, MGC14961, POMFIL3, steerin-1, DKFZp781D0314
1	NAV1	ENSG00000134369	ENST00000430015	protein_coding	NOVEL	None	15989	2263	753	201749651	201772818	1	None	FLJ12560, FLJ14203, KIAA1151, MGC14961, POMFIL3, steerin-1, DKFZp781D0314
1	NAV1	ENSG00000134369	ENST00000469130	processed_transcript	KNOWN	None	15989	None	None	201751758	201767736	1	None	FLJ12560, FLJ14203, KIAA1151, MGC14961, POMFIL3, steerin-1, DKFZp781D0314
1	NAV1	ENSG00000134369	ENST00000438083	protein_coding	NOVEL	None	15989	680	225	201755568	201777173	1	None	FLJ12560, FLJ14203, KIAA1151, MGC14961, POMFIL3, steerin-1, DKFZp781D0314
1	NAV1	ENSG00000134369	ENST00000477118	nonsense_mediated_decay	KNOWN	None	15989	81	26	201755678	201772834	1	None	FLJ12560, FLJ14203, KIAA1151, MGC14961, POMFIL3, steerin-1, DKFZp781D0314
1	NAV1	ENSG00000134369	ENST00000295624	protein_coding	KNOWN	None	15989	5625	1874	201617450	201796102	1	None	FLJ12560, FLJ14203, KIAA1151, MGC14961, POMFIL3, steerin-1, DKFZp781D0314
1	NAV1	ENSG00000134369	ENST00000367297	protein_coding	KNOWN	None	15989	5610	1869	201617450	201796102	1	None	FLJ12560, FLJ14203, KIAA1151, MGC14961, POMFIL3, steerin-1, DKFZp781D0314
1	NAV1	ENSG00000134369	ENST00000367300	protein_coding	KNOWN	None	15989	5454	1817	201617450	201796102	1	None	FLJ12560, FLJ14203, KIAA1151, MGC14961, POMFIL3, steerin-1, DKFZp781D0314
HSCHR6_MHC_SSTO	STK19P	ENSG00000248989	ENST00000515073	unprocessed_pseudogene	KNOWN	None	21668	None	None	31972900	31973416	1	None	bPG116M5.10, RP2
11	PAK1	ENSG00000149269	ENST00000356341	protein_coding	KNOWN	CCDS8250	8590	1638	545	77032752	77185107	-1	None	None
11	PAK1	ENSG00000149269	ENST00000530617	protein_coding	PUTATIVE	None	8590	1569	522	77033062	77123109	-1	None	None
11	PAK1	ENSG00000149269	ENST00000278568	protein_coding	KNOWN	CCDS44687	8590	1662	553	77033993	77185105	-1	None	None
11	PAK1	ENSG00000149269	ENST00000528203	protein_coding	PUTATIVE	None	8590	1368	455	77034069	77122949	-1	None	None
11	PAK1	ENSG00000149269	ENST00000527457	nonsense_mediated_decay	KNOWN	None	8590	503	166	77034256	77090396	-1	None	None
11	PAK1	ENSG00000149269	ENST00000525542	processed_transcript	KNOWN	None	8590	None	None	77034314	77069998	-1	None	None
11	PAK1	ENSG00000149269	ENST00000533285	protein_coding	PUTATIVE	None	8590	733	243	77040195	77060332	-1	None	None
11	PAK1	ENSG00000149269	ENST00000527535	nonsense_mediated_decay	KNOWN	None	8590	57	18	77043903	77058117	-1	None	None
11	PAK1	ENSG00000149269	ENST00000532991	retained_intron	KNOWN	None	8590	None	None	77047161	77060591	-1	None	None
11	PAK1	ENSG00000149269	ENST00000532711	retained_intron	KNOWN	None	8590	None	None	77047299	77055024	-1	None	None
11	PAK1	ENSG00000149269	ENST00000530358	retained_intron	KNOWN	None	8590	None	None	77060293	77067343	-1	None	None
11	PAK1	ENSG00000149269	ENST00000526103	retained_intron	KNOWN	None	8590	None	None	77064176	77066996	-1	None	None
11	PAK1	ENSG00000149269	ENST00000533468	retained_intron	KNOWN	None	8590	None	None	77066750	77090492	-1	None	None
11	PAK1	ENSG00000149269	ENST00000533568	retained_intron	KNOWN	None	8590	None	None	77069886	77184540	-1	None	None
11	PAK1	ENSG00000149269	ENST00000526910	retained_intron	KNOWN	None	8590	None	None	77090240	77103428	-1	None	None
11	PAK1	ENSG00000149269	ENST00000529248	protein_coding	KNOWN	None	8590	318	105	77090405	77122989	-1	None	None
11	PAK1	ENSG00000149269	ENST00000524847	protein_coding	KNOWN	None	8590	297	98	77090428	77184780	-1	None	None
11	PAK1	ENSG00000149269	ENST00000528592	protein_coding	KNOWN	None	8590	268	88	77090962	77122978	-1	None	None
11	PAK1	ENSG00000149269	ENST00000528633	protein_coding	KNOWN	None	8590	190	62	77103376	77122978	-1	None	None
11	PAK1	ENSG00000149269	ENST00000526968	protein_coding	KNOWN	None	8590	78	25	77103488	77185680	-1	None	None
HSCHR6_MHC_MANN	None	ENSG00000257981	ENST00000547900	protein_coding	NOVEL	None	None	150	49	33355728	33367637	1	None	None
5	F12	ENSG00000131187	ENST00000253496	protein_coding	KNOWN	CCDS34302	3530	1848	615	176829141	176836577	-1	None	None
5	F12	ENSG00000131187	ENST00000502854	retained_intron	KNOWN	None	3530	None	None	176829161	176831473	-1	None	None
5	F12	ENSG00000131187	ENST00000504406	retained_intron	KNOWN	None	3530	None	None	176829164	176830751	-1	None	None
5	F12	ENSG00000131187	ENST00000510358	retained_intron	KNOWN	None	3530	None	None	176829173	176831473	-1	None	None
5	F12	ENSG00000131187	ENST00000514943	processed_transcript	KNOWN	None	3530	None	None	176829626	176830527	-1	None	None
5	F12	ENSG00000131187	ENST00000503736	retained_intron	KNOWN	None	3530	None	None	176830493	176831982	-1	None	None
1	VTCN1	ENSG00000134258	ENST00000359008	protein_coding	KNOWN	None	28873	858	285	117686209	117715888	-1	None	B7-H4, FLJ22418, B7S1, B7X, B7H4
1	VTCN1	ENSG00000134258	ENST00000369458	protein_coding	KNOWN	CCDS894	28873	849	282	117686209	117753556	-1	None	B7-H4, FLJ22418, B7S1, B7X, B7H4
1	VTCN1	ENSG00000134258	ENST00000463461	processed_transcript	KNOWN	None	28873	None	None	117695831	117753549	-1	None	B7-H4, FLJ22418, B7S1, B7X, B7H4
1	VTCN1	ENSG00000134258	ENST00000488493	processed_transcript	KNOWN	None	28873	None	None	117699267	117746458	-1	None	B7-H4, FLJ22418, B7S1, B7X, B7H4
1	VTCN1	ENSG00000134258	ENST00000328189	protein_coding	KNOWN	CCDS58020	28873	501	166	117686209	117753549	-1	None	B7-H4, FLJ22418, B7S1, B7X, B7H4
1	VTCN1	ENSG00000134258	ENST00000539893	protein_coding	KNOWN	CCDS58019	28873	564	187	117687488	117746458	-1	None	B7-H4, FLJ22418, B7S1, B7X, B7H4
7	None	ENSG00000270889	ENST00000603727	processed_pseudogene	KNOWN	None	None	None	None	36010757	36011177	-1	None	None
3	KAT2B	ENSG00000114166	ENST00000263754	protein_coding	KNOWN	CCDS2634	8638	2499	832	20081515	20195896	1	PCAF	P/CAF, GCN5, GCN5L
3	KAT2B	ENSG00000114166	ENST00000426228	processed_transcript	KNOWN	None	8638	None	None	20082190	20142605	1	PCAF	P/CAF, GCN5, GCN5L
3	KAT2B	ENSG00000114166	ENST00000469085	processed_transcript	KNOWN	None	8638	None	None	20153086	20164287	1	PCAF	P/CAF, GCN5, GCN5L
3	KAT2B	ENSG00000114166	ENST00000468111	retained_intron	KNOWN	None	8638	None	None	20168970	20188073	1	PCAF	P/CAF, GCN5, GCN5L
3	KAT2B	ENSG00000114166	ENST00000468400	retained_intron	KNOWN	None	8638	None	None	20189732	20190502	1	PCAF	P/CAF, GCN5, GCN5L
HSCHR6_MHC_MANN	VPS52	ENSG00000223618	ENST00000421357	protein_coding	KNOWN	None	10518	378	125	33371956	33373655	-1	SACM2L	ARE1
HSCHR6_MHC_MANN	VPS52	ENSG00000223618	ENST00000485418	processed_transcript	KNOWN	None	10518	None	None	33371956	33373655	-1	SACM2L	ARE1
HSCHR6_MHC_MANN	VPS52	ENSG00000223618	ENST00000462479	protein_coding	KNOWN	None	10518	378	125	33371956	33373655	-1	SACM2L	ARE1
HSCHR6_MHC_MANN	VPS52	ENSG00000223618	ENST00000459865	processed_transcript	PUTATIVE	None	10518	None	None	33372290	33373655	-1	SACM2L	ARE1
HSCHR6_MHC_MANN	VPS52	ENSG00000223618	ENST00000470858	processed_transcript	PUTATIVE	None	10518	None	None	33372495	33373655	-1	SACM2L	ARE1
HSCHR6_MHC_MANN	VPS52	ENSG00000223618	ENST00000484730	processed_transcript	PUTATIVE	None	10518	None	None	33373601	33373655	-1	SACM2L	ARE1
4	None	ENSG00000248300	ENST00000506195	lincRNA	KNOWN	None	None	None	None	11742572	11771092	-1	None	None
17	TK1	ENSG00000167900	ENST00000301634	protein_coding	KNOWN	CCDS11754	11830	705	234	76170160	76183314	-1	None	None
17	TK1	ENSG00000167900	ENST00000588734	protein_coding	KNOWN	None	11830	804	267	76170202	76183314	-1	None	None
17	TK1	ENSG00000167900	ENST00000590862	protein_coding	NOVEL	None	11830	543	180	76170783	76183117	-1	None	None
17	TK1	ENSG00000167900	ENST00000590430	protein_coding	PUTATIVE	None	11830	264	87	76170911	76183119	-1	None	None
17	TK1	ENSG00000167900	ENST00000586613	protein_coding	NOVEL	None	11830	562	186	76171007	76183144	-1	None	None
17	TK1	ENSG00000167900	ENST00000592126	retained_intron	KNOWN	None	11830	None	None	76171150	76183102	-1	None	None
17	TK1	ENSG00000167900	ENST00000405273	protein_coding	KNOWN	CCDS11754	11830	705	234	76170173	76183111	-1	None	None
20	ZNF133	ENSG00000125846	ENST00000377671	protein_coding	KNOWN	CCDS13134	12917	1962	653	18269121	18297640	1	ZNF150	pHZ-13, pHZ-66
20	ZNF133	ENSG00000125846	ENST00000360010	protein_coding	KNOWN	None	12917	297	98	18269149	18295750	1	ZNF150	pHZ-13, pHZ-66
20	ZNF133	ENSG00000125846	ENST00000434018	protein_coding	KNOWN	None	12917	428	141	18269173	18295923	1	ZNF150	pHZ-13, pHZ-66
20	ZNF133	ENSG00000125846	ENST00000316358	protein_coding	KNOWN	None	12917	1965	654	18278629	18297640	1	ZNF150	pHZ-13, pHZ-66
20	ZNF133	ENSG00000125846	ENST00000425686	protein_coding	KNOWN	None	12917	537	178	18285729	18296032	1	ZNF150	pHZ-13, pHZ-66
20	ZNF133	ENSG00000125846	ENST00000462170	processed_transcript	KNOWN	None	12917	None	None	18293280	18297640	1	ZNF150	pHZ-13, pHZ-66
20	ZNF133	ENSG00000125846	ENST00000396026	protein_coding	KNOWN	None	12917	1974	657	18269155	18297635	1	ZNF150	pHZ-13, pHZ-66
20	ZNF133	ENSG00000125846	ENST00000401790	protein_coding	KNOWN	None	12917	1965	654	18269171	18297637	1	ZNF150	pHZ-13, pHZ-66
20	ZNF133	ENSG00000125846	ENST00000402618	protein_coding	KNOWN	None	12917	1776	591	18269164	18297569	1	ZNF150	pHZ-13, pHZ-66
20	ZNF133	ENSG00000125846	ENST00000538547	protein_coding	KNOWN	None	12917	1680	559	18269173	18297638	1	ZNF150	pHZ-13, pHZ-66
20	ZNF133	ENSG00000125846	ENST00000535822	protein_coding	KNOWN	None	12917	1680	559	18269178	18297630	1	ZNF150	pHZ-13, pHZ-66
19	CEACAM21	ENSG00000007129	ENST00000461658	processed_transcript	KNOWN	None	28834	None	None	42055886	42071966	1	None	R29124_1, FLJ13540
19	CEACAM21	ENSG00000007129	ENST00000407170	protein_coding	PUTATIVE	None	28834	498	165	42055886	42093196	1	None	R29124_1, FLJ13540
19	CEACAM21	ENSG00000007129	ENST00000482870	processed_transcript	KNOWN	None	28834	None	None	42071036	42093163	1	None	R29124_1, FLJ13540
19	CEACAM21	ENSG00000007129	ENST00000457737	nonsense_mediated_decay	KNOWN	None	28834	576	191	42082531	42093193	1	None	R29124_1, FLJ13540
19	CEACAM21	ENSG00000007129	ENST00000187608	protein_coding	KNOWN	CCDS46087	28834	879	292	42082587	42093197	1	None	R29124_1, FLJ13540
19	CEACAM21	ENSG00000007129	ENST00000401445	protein_coding	KNOWN	CCDS46086	28834	882	293	42082601	42092916	1	None	R29124_1, FLJ13540
HSCHR6_MHC_MCF	FLOT1	ENSG00000224740	ENST00000487385	retained_intron	KNOWN	None	3757	None	None	30773972	30787116	-1	None	None
HSCHR6_MHC_MCF	FLOT1	ENSG00000224740	ENST00000446072	protein_coding	KNOWN	None	3757	1074	357	30773972	30787596	-1	None	None
HSCHR6_MHC_MCF	FLOT1	ENSG00000224740	ENST00000457133	protein_coding	KNOWN	None	3757	695	230	30777182	30787596	-1	None	None
HSCHR6_MHC_MCF	FLOT1	ENSG00000224740	ENST00000484797	retained_intron	KNOWN	None	3757	None	None	30777254	30787057	-1	None	None
HSCHR6_MHC_MCF	FLOT1	ENSG00000224740	ENST00000432428	protein_coding	KNOWN	None	3757	547	181	30777330	30787596	-1	None	None
HSCHR6_MHC_MCF	FLOT1	ENSG00000224740	ENST00000470163	processed_transcript	KNOWN	None	3757	None	None	30786421	30787596	-1	None	None
HSCHR6_MHC_MCF	FLOT1	ENSG00000224740	ENST00000439396	protein_coding	KNOWN	None	3757	246	81	30786424	30786854	-1	None	None
HSCHR6_MHC_MCF	FLOT1	ENSG00000224740	ENST00000437093	protein_coding	KNOWN	None	3757	495	164	30786439	30787596	-1	None	None
HSCHR6_MHC_MCF	FLOT1	ENSG00000224740	ENST00000495886	retained_intron	KNOWN	None	3757	None	None	30786517	30787802	-1	None	None
HSCHR6_MHC_MCF	FLOT1	ENSG00000224740	ENST00000422714	protein_coding	KNOWN	None	3757	416	137	30786518	30787596	-1	None	None
HSCHR6_MHC_MCF	FLOT1	ENSG00000224740	ENST00000436025	protein_coding	KNOWN	None	3757	347	114	30786772	30787596	-1	None	None
HSCHR6_MHC_MCF	FLOT1	ENSG00000224740	ENST00000482255	retained_intron	KNOWN	None	3757	None	None	30787617	30787802	-1	None	None
HSCHR6_MHC_MCF	FLOT1	ENSG00000224740	ENST00000553223	protein_coding	KNOWN	None	3757	861	286	30774112	30787063	-1	None	None
19	RASAL3	ENSG00000105122	ENST00000602101	retained_intron	KNOWN	None	26129	None	None	15562438	15575193	-1	None	FLJ21438
19	RASAL3	ENSG00000105122	ENST00000343625	protein_coding	KNOWN	CCDS46006	26129	3036	1011	15562438	15575377	-1	None	FLJ21438
19	RASAL3	ENSG00000105122	ENST00000599694	protein_coding	NOVEL	None	26129	1336	444	15562469	15567410	-1	None	FLJ21438
19	RASAL3	ENSG00000105122	ENST00000595098	processed_transcript	KNOWN	None	26129	None	None	15566976	15567702	-1	None	FLJ21438
19	RASAL3	ENSG00000105122	ENST00000597025	retained_intron	KNOWN	None	26129	None	None	15567187	15568130	-1	None	FLJ21438
22	GSTT2B	ENSG00000133433	ENST00000290765	protein_coding	KNOWN	CCDS33617	33437	735	244	24299601	24303373	-1	None	GSTT2P
22	GSTT2B	ENSG00000133433	ENST00000404172	protein_coding	NOVEL	None	33437	693	230	24299806	24303340	-1	None	GSTT2P
HSCHR6_MHC_SSTO	C4A-AS1	ENSG00000238170	ENST00000428125	processed_transcript	PUTATIVE	None	39753	None	None	31992359	31995888	-1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000257158	ENST00000552317	pseudogene	NOVEL	None	None	None	None	32221188	32221358	-1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000258361	ENST00000548233	pseudogene	NOVEL	None	None	None	None	32241009	32241176	1	None	None
7	None	ENSG00000232930	ENST00000446024	lincRNA	KNOWN	None	None	None	None	36069221	36095041	1	None	None
20	B4GALT5	ENSG00000158470	ENST00000371711	protein_coding	KNOWN	CCDS13420	928	1167	388	48249482	48330415	-1	None	beta4GalT-V
HSCHR6_MHC_SSTO	HNRNPA1P2	ENSG00000237295	ENST00000457180	processed_pseudogene	KNOWN	None	13958	None	None	32299929	32300888	1	HNRPA1P2	dJ372B18.1
3	PARP14	ENSG00000173193	ENST00000474629	protein_coding	KNOWN	CCDS46894	29232	5406	1801	122399465	122449687	1	None	KIAA1268, pART8
3	PARP14	ENSG00000173193	ENST00000494811	protein_coding	KNOWN	None	29232	581	192	122399706	122414473	1	None	KIAA1268, pART8
3	PARP14	ENSG00000173193	ENST00000483611	processed_transcript	KNOWN	None	29232	None	None	122405606	122411186	1	None	KIAA1268, pART8
3	PARP14	ENSG00000173193	ENST00000460683	nonsense_mediated_decay	KNOWN	None	29232	4566	1521	122411270	122449687	1	None	KIAA1268, pART8
3	PARP14	ENSG00000173193	ENST00000474669	retained_intron	KNOWN	None	29232	None	None	122419373	122441494	1	None	KIAA1268, pART8
3	PARP14	ENSG00000173193	ENST00000475640	processed_transcript	KNOWN	None	29232	None	None	122437231	122439815	1	None	KIAA1268, pART8
HSCHR6_MHC_SSTO	None	ENSG00000265048	ENST00000578062	snRNA	NOVEL	None	None	None	None	32327242	32327348	1	None	None
HSCHR6_MHC_SSTO	HCG23	ENSG00000224507	ENST00000428633	processed_transcript	KNOWN	None	19713	None	None	32364871	32368048	1	None	dJ1077I5.3
HSCHR6_MHC_SSTO	HLA-DRB9	ENSG00000232705	ENST00000441636	unprocessed_pseudogene	KNOWN	None	4957	None	None	32433544	32447199	-1	HLA-DRB1L, HLA-DR1BL	D6S206, D6S206E
8	PLAT	ENSG00000104368	ENST00000429089	protein_coding	KNOWN	CCDS6126	9051	1689	562	42032751	42065083	-1	None	None
8	PLAT	ENSG00000104368	ENST00000220809	protein_coding	KNOWN	CCDS6126	9051	1689	562	42032751	42065242	-1	None	None
8	PLAT	ENSG00000104368	ENST00000352041	protein_coding	KNOWN	CCDS6127	9051	1551	516	42032755	42065194	-1	None	None
8	PLAT	ENSG00000104368	ENST00000519510	protein_coding	NOVEL	None	9051	1500	499	42033079	42065083	-1	None	None
8	PLAT	ENSG00000104368	ENST00000429710	protein_coding	NOVEL	None	9051	1311	436	42033265	42065083	-1	None	None
8	PLAT	ENSG00000104368	ENST00000524009	protein_coding	NOVEL	None	9051	1422	473	42033418	42065083	-1	None	None
8	PLAT	ENSG00000104368	ENST00000522812	retained_intron	KNOWN	None	9051	None	None	42037601	42038282	-1	None	None
8	PLAT	ENSG00000104368	ENST00000521042	nonsense_mediated_decay	KNOWN	None	9051	290	95	42037824	42045450	-1	None	None
8	PLAT	ENSG00000104368	ENST00000524261	retained_intron	KNOWN	None	9051	None	None	42039858	42042631	-1	None	None
8	PLAT	ENSG00000104368	ENST00000521647	retained_intron	KNOWN	None	9051	None	None	42042213	42046007	-1	None	None
8	PLAT	ENSG00000104368	ENST00000520523	protein_coding	KNOWN	None	9051	536	177	42044919	42051245	-1	None	None
8	PLAT	ENSG00000104368	ENST00000521694	protein_coding	KNOWN	None	9051	472	156	42044983	42053216	-1	None	None
8	PLAT	ENSG00000104368	ENST00000270189	protein_coding	KNOWN	None	9051	882	293	42032236	42065194	-1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000235228	ENST00000439663	unprocessed_pseudogene	KNOWN	None	None	None	None	32459437	32459532	-1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000264704	ENST00000578102	snRNA	NOVEL	None	None	None	None	32485002	32485149	-1	None	None
HSCHR6_MHC_MANN	None	ENSG00000272287	ENST00000593730	miRNA	NOVEL	None	None	None	None	28743697	28743804	1	None	None
11	PRRG4	ENSG00000135378	ENST00000257836	protein_coding	KNOWN	CCDS7881	30799	681	226	32851489	32879669	1	None	TMG4
HSCHR6_MHC_SSTO	None	ENSG00000226227	ENST00000430229	unprocessed_pseudogene	KNOWN	None	None	None	None	32490429	32490524	-1	None	None
HSCHR6_MHC_MANN	None	ENSG00000272122	ENST00000597633	processed_pseudogene	NOVEL	None	None	None	None	28751414	28751785	-1	None	None
21	BACH1-IT1	ENSG00000248476	ENST00000504298	sense_intronic	KNOWN	None	40006	None	None	30723955	30734215	1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000265838	ENST00000581325	snRNA	NOVEL	None	None	None	None	32506795	32506946	-1	None	None
16	CA5A	ENSG00000174990	ENST00000309893	protein_coding	KNOWN	CCDS10965	1377	918	305	87921625	87970122	-1	CA5	CAV, CAVA
16	CA5A	ENSG00000174990	ENST00000566402	retained_intron	KNOWN	None	1377	None	None	87921837	87925874	-1	CA5	CAV, CAVA
16	CA5A	ENSG00000174990	ENST00000568801	processed_transcript	KNOWN	None	1377	None	None	87959145	87970135	-1	CA5	CAV, CAVA
21	BACH1-AS1	ENSG00000232118	ENST00000449923	lincRNA	KNOWN	None	40008	None	None	30742340	30743547	-1	None	None
18	BOD1L2	ENSG00000228075	ENST00000585477	protein_coding	KNOWN	CCDS59322	28505	519	172	54814293	54817531	1	FAM44C, BOD1P	MGC33608
HSCHR6_MHC_SSTO	None	ENSG00000264960	ENST00000578508	snRNA	NOVEL	None	None	None	None	32546223	32546370	-1	None	None
HSCHR6_MHC_MANN	None	ENSG00000272124	ENST00000584175	miRNA	NOVEL	None	None	None	None	28763753	28763816	-1	None	None
21	BACH1-IT2	ENSG00000228817	ENST00000436529	sense_intronic	KNOWN	None	40007	None	None	30743268	30746029	1	None	None
10	NDUFB8	ENSG00000166136	ENST00000464651	retained_intron	KNOWN	None	7703	None	None	102283497	102286355	-1	None	ASHI, CI-ASHI
10	NDUFB8	ENSG00000166136	ENST00000299166	protein_coding	KNOWN	CCDS7497	7703	561	186	102283497	102289621	-1	None	ASHI, CI-ASHI
10	NDUFB8	ENSG00000166136	ENST00000370322	protein_coding	KNOWN	None	7703	468	155	102283500	102289757	-1	None	ASHI, CI-ASHI
10	NDUFB8	ENSG00000166136	ENST00000370320	protein_coding	NOVEL	None	7703	519	172	102283694	102289621	-1	None	ASHI, CI-ASHI
10	NDUFB8	ENSG00000166136	ENST00000528425	nonsense_mediated_decay	KNOWN	None	7703	216	71	102283790	102289627	-1	None	ASHI, CI-ASHI
10	NDUFB8	ENSG00000166136	ENST00000466088	retained_intron	KNOWN	None	7703	None	None	102285806	102289619	-1	None	ASHI, CI-ASHI
10	NDUFB8	ENSG00000166136	ENST00000529437	retained_intron	KNOWN	None	7703	None	None	102286474	102289640	-1	None	ASHI, CI-ASHI
10	NDUFB8	ENSG00000166136	ENST00000531418	retained_intron	KNOWN	None	7703	None	None	102286501	102289636	-1	None	ASHI, CI-ASHI
10	NDUFB8	ENSG00000166136	ENST00000531189	retained_intron	KNOWN	None	7703	None	None	102288800	102289636	-1	None	ASHI, CI-ASHI
10	NDUFB8	ENSG00000166136	ENST00000531258	protein_coding	KNOWN	None	7703	519	172	102267203	102289638	-1	None	ASHI, CI-ASHI
21	None	ENSG00000239171	ENST00000459184	snoRNA	NOVEL	None	None	None	None	30761707	30761810	-1	None	None
21	BACH1-IT3	ENSG00000234293	ENST00000429843	sense_intronic	KNOWN	None	16455	None	None	30868367	30872706	1	C21orf8	None
3	SEMA3G	ENSG00000010319	ENST00000231721	protein_coding	KNOWN	CCDS2856	30400	2349	782	52467069	52479043	-1	None	FLJ00014, sem2
3	SEMA3G	ENSG00000010319	ENST00000465657	nonsense_mediated_decay	KNOWN	None	30400	299	98	52474406	52478985	-1	None	FLJ00014, sem2
3	SEMA3G	ENSG00000010319	ENST00000475739	protein_coding	NOVEL	None	30400	558	185	52475881	52479101	-1	None	FLJ00014, sem2
2	ACP1	ENSG00000143727	ENST00000484125	processed_transcript	KNOWN	None	122	None	None	264140	264922	1	None	None
2	ACP1	ENSG00000143727	ENST00000272067	protein_coding	KNOWN	CCDS1640	122	477	158	264869	278283	1	None	None
2	ACP1	ENSG00000143727	ENST00000272065	protein_coding	KNOWN	CCDS1639	122	477	158	264872	278283	1	None	None
2	ACP1	ENSG00000143727	ENST00000413140	nonsense_mediated_decay	KNOWN	None	122	243	80	264893	277506	1	None	None
2	ACP1	ENSG00000143727	ENST00000407983	protein_coding	PUTATIVE	CCDS46217	122	339	112	264900	272557	1	None	None
2	ACP1	ENSG00000143727	ENST00000442386	nonsense_mediated_decay	KNOWN	None	122	141	46	264900	277261	1	None	None
2	ACP1	ENSG00000143727	ENST00000439645	protein_coding	PUTATIVE	None	122	258	85	264916	272630	1	None	None
2	ACP1	ENSG00000143727	ENST00000405364	nonsense_mediated_decay	KNOWN	None	122	141	46	264919	275200	1	None	None
2	ACP1	ENSG00000143727	ENST00000405233	protein_coding	PUTATIVE	None	122	213	70	264926	273155	1	None	None
2	ACP1	ENSG00000143727	ENST00000480874	retained_intron	KNOWN	None	122	None	None	264936	275611	1	None	None
2	ACP1	ENSG00000143727	ENST00000453390	nonsense_mediated_decay	KNOWN	None	122	213	70	264965	277375	1	None	None
2	ACP1	ENSG00000143727	ENST00000484464	processed_transcript	KNOWN	None	122	None	None	265205	277369	1	None	None
2	ACP1	ENSG00000143727	ENST00000463831	retained_intron	KNOWN	None	122	None	None	274573	277506	1	None	None
18	ST8SIA3	ENSG00000177511	ENST00000324000	protein_coding	KNOWN	CCDS32834	14269	1143	380	55018044	55036164	1	SIAT8C	None
18	ST8SIA3	ENSG00000177511	ENST00000586360	protein_coding	PUTATIVE	None	14269	377	124	55024383	55038962	1	SIAT8C	None
18	ST8SIA3	ENSG00000177511	ENST00000590600	processed_transcript	KNOWN	None	14269	None	None	55030744	55036164	1	SIAT8C	None
21	GRIK1-AS1	ENSG00000174680	ENST00000455392	antisense	KNOWN	None	16458	None	None	31120494	31135999	1	C21orf9, NCRNA00110, GRIK1AS, GRIK1-AS	None
21	GRIK1-AS1	ENSG00000174680	ENST00000309331	antisense	KNOWN	None	16458	None	None	31121257	31136321	1	C21orf9, NCRNA00110, GRIK1AS, GRIK1-AS	None
21	GRIK1-AS1	ENSG00000174680	ENST00000423221	antisense	KNOWN	None	16458	None	None	31121266	31136321	1	C21orf9, NCRNA00110, GRIK1AS, GRIK1-AS	None
21	GRIK1-AS1	ENSG00000174680	ENST00000412579	antisense	KNOWN	None	16458	None	None	31131150	31136321	1	C21orf9, NCRNA00110, GRIK1AS, GRIK1-AS	None
21	GRIK1-AS1	ENSG00000174680	ENST00000413131	antisense	KNOWN	None	16458	None	None	31132713	31136321	1	C21orf9, NCRNA00110, GRIK1AS, GRIK1-AS	None
Y	CDY3P	ENSG00000232235	ENST00000454543	processed_pseudogene	KNOWN	None	23849	None	None	9003694	9005311	-1	None	None
Y	USP9YP22	ENSG00000224408	ENST00000438971	unprocessed_pseudogene	KNOWN	None	38758	None	None	9021303	9023412	1	None	None
2	C2orf74	ENSG00000237651	ENST00000432605	protein_coding	KNOWN	None	34439	585	194	61389629	61391964	1	None	LOC339804
2	C2orf74	ENSG00000237651	ENST00000426997	protein_coding	KNOWN	None	34439	348	115	61372243	61391964	1	None	LOC339804
9	SNAPC4	ENSG00000165684	ENST00000298532	protein_coding	KNOWN	CCDS6998	11137	4410	1469	139270029	139293249	-1	None	SNAP190, PTFalpha, FLJ13451
Y	USP9YP4	ENSG00000238154	ENST00000424401	unprocessed_pseudogene	KNOWN	None	37740	None	None	9027238	9042220	-1	None	None
2	CSRNP3	ENSG00000178662	ENST00000421875	protein_coding	KNOWN	None	30729	1312	436	166326157	166535817	1	FAM130A2	FLJ32093, TAIP-2, PPP1R73
2	CSRNP3	ENSG00000178662	ENST00000409664	protein_coding	KNOWN	None	30729	416	137	166326208	166532829	1	FAM130A2	FLJ32093, TAIP-2, PPP1R73
2	CSRNP3	ENSG00000178662	ENST00000464503	processed_transcript	KNOWN	None	30729	None	None	166326216	166423491	1	FAM130A2	FLJ32093, TAIP-2, PPP1R73
2	CSRNP3	ENSG00000178662	ENST00000342316	protein_coding	KNOWN	CCDS2225	30729	1758	585	166428849	166545917	1	FAM130A2	FLJ32093, TAIP-2, PPP1R73
2	CSRNP3	ENSG00000178662	ENST00000409420	protein_coding	PUTATIVE	None	30729	1854	617	166430619	166536704	1	FAM130A2	FLJ32093, TAIP-2, PPP1R73
2	CSRNP3	ENSG00000178662	ENST00000314499	protein_coding	KNOWN	CCDS2225	30729	1758	585	166326157	166545917	1	FAM130A2	FLJ32093, TAIP-2, PPP1R73
1	MAN1A2	ENSG00000198162	ENST00000356554	protein_coding	KNOWN	CCDS895	6822	1926	641	117910071	118071494	1	None	MAN1B
1	MAN1A2	ENSG00000198162	ENST00000482811	processed_transcript	KNOWN	None	6822	None	None	117910565	117963252	1	None	MAN1B
1	MAN1A2	ENSG00000198162	ENST00000449370	protein_coding	PUTATIVE	None	6822	995	330	117963219	118058561	1	None	MAN1B
1	MAN1A2	ENSG00000198162	ENST00000421535	protein_coding	PUTATIVE	None	6822	613	203	118039402	118065944	1	None	MAN1B
1	MAN1A2	ENSG00000198162	ENST00000422329	protein_coding	PUTATIVE	None	6822	294	97	118045483	118067974	1	None	MAN1B
18	ONECUT2	ENSG00000119547	ENST00000491143	protein_coding	KNOWN	CCDS42440	8139	1515	504	55102917	55158529	1	None	OC-2
18	ONECUT2	ENSG00000119547	ENST00000481727	protein_coding	NOVEL	None	8139	400	132	55111608	55143992	1	None	OC-2
19	TNFSF14	ENSG00000125735	ENST00000245912	protein_coding	KNOWN	CCDS45939	11930	615	204	6663148	6670128	-1	None	LIGHT, LTg, HVEM-L, CD258
19	TNFSF14	ENSG00000125735	ENST00000599359	protein_coding	KNOWN	CCDS12171	11930	723	240	6664566	6670599	-1	None	LIGHT, LTg, HVEM-L, CD258
19	TNFSF14	ENSG00000125735	ENST00000326176	protein_coding	KNOWN	CCDS45939	11930	615	204	6663148	6670599	-1	None	LIGHT, LTg, HVEM-L, CD258
4	None	ENSG00000248262	ENST00000514103	lincRNA	KNOWN	None	None	None	None	11916291	11921312	1	None	None
19	None	ENSG00000261949	ENST00000576655	protein_coding	PUTATIVE	CCDS58672	None	1557	518	49927006	49932075	1	None	None
4	None	ENSG00000266669	ENST00000582396	miRNA	NOVEL	None	None	None	None	12014971	12015065	-1	None	None
15	ACAN	ENSG00000157766	ENST00000558207	protein_coding	PUTATIVE	None	319	2166	721	89346705	89394752	1	MSK16, CSPG1, AGC1	CSPGCP
15	ACAN	ENSG00000157766	ENST00000559004	protein_coding	KNOWN	None	319	7479	2492	89346990	89417803	1	MSK16, CSPG1, AGC1	CSPGCP
15	ACAN	ENSG00000157766	ENST00000352105	protein_coding	KNOWN	CCDS53971	319	7296	2431	89346990	89417884	1	MSK16, CSPG1, AGC1	CSPGCP
15	ACAN	ENSG00000157766	ENST00000561243	protein_coding	NOVEL	CCDS53970	319	7593	2530	89379438	89417712	1	MSK16, CSPG1, AGC1	CSPGCP
15	ACAN	ENSG00000157766	ENST00000560601	protein_coding	NOVEL	None	319	679	225	89402307	89414721	1	MSK16, CSPG1, AGC1	CSPGCP
15	ACAN	ENSG00000157766	ENST00000558704	protein_coding	PUTATIVE	None	319	470	155	89416200	89418072	1	MSK16, CSPG1, AGC1	CSPGCP
15	ACAN	ENSG00000157766	ENST00000558604	retained_intron	KNOWN	None	319	None	None	89416944	89418072	1	MSK16, CSPG1, AGC1	CSPGCP
15	ACAN	ENSG00000157766	ENST00000439576	protein_coding	KNOWN	CCDS53970	319	7593	2530	89346674	89418585	1	MSK16, CSPG1, AGC1	CSPGCP
4	None	ENSG00000251210	ENST00000515691	lincRNA	KNOWN	None	None	None	None	12225075	12249731	1	None	None
4	None	ENSG00000251210	ENST00000505386	lincRNA	KNOWN	None	None	None	None	12225106	12252910	1	None	None
13	LAMP1	ENSG00000185896	ENST00000332556	protein_coding	KNOWN	CCDS41909	6499	1254	417	113951556	113977987	1	None	CD107a
13	LAMP1	ENSG00000185896	ENST00000472564	retained_intron	KNOWN	None	6499	None	None	113959247	113977745	1	None	CD107a
13	LAMP1	ENSG00000185896	ENST00000471046	processed_transcript	KNOWN	None	6499	None	None	113976082	113976909	1	None	CD107a
13	LAMP1	ENSG00000185896	ENST00000397181	protein_coding	KNOWN	None	6499	1095	364	113951700	113977032	1	None	CD107a
20	SLC9A8	ENSG00000197818	ENST00000361573	protein_coding	KNOWN	CCDS13421	20728	1746	581	48429418	48508779	1	None	KIAA0939, NHE8
20	SLC9A8	ENSG00000197818	ENST00000489787	processed_transcript	PUTATIVE	None	20728	None	None	48429431	48431981	1	None	KIAA0939, NHE8
20	SLC9A8	ENSG00000197818	ENST00000490250	processed_transcript	KNOWN	None	20728	None	None	48502908	48508779	1	None	KIAA0939, NHE8
20	SLC9A8	ENSG00000197818	ENST00000417961	protein_coding	KNOWN	CCDS58774	20728	1794	597	48429250	48508772	1	None	KIAA0939, NHE8
20	SLC9A8	ENSG00000197818	ENST00000539601	protein_coding	KNOWN	None	20728	1089	362	48429448	48505143	1	None	KIAA0939, NHE8
20	SLC9A8	ENSG00000197818	ENST00000541138	protein_coding	KNOWN	None	20728	846	281	48429447	48505040	1	None	KIAA0939, NHE8
4	RNU6-578P	ENSG00000212282	ENST00000390980	snRNA	KNOWN	None	47541	None	None	12314212	12314314	1	None	None
4	None	ENSG00000249995	ENST00000503354	processed_pseudogene	KNOWN	None	None	None	None	12640710	12642633	1	None	None
4	None	ENSG00000249780	ENST00000509155	processed_pseudogene	KNOWN	None	None	None	None	12641922	12642261	-1	None	None
16	PAPD5	ENSG00000121274	ENST00000436909	protein_coding	KNOWN	CCDS54006	30758	2097	698	50186829	50265742	1	None	TRF4-2
16	PAPD5	ENSG00000121274	ENST00000561678	protein_coding	PUTATIVE	None	30758	1767	588	50187705	50264314	1	None	TRF4-2
16	PAPD5	ENSG00000121274	ENST00000562717	processed_transcript	KNOWN	None	30758	None	None	50188072	50269217	1	None	TRF4-2
16	PAPD5	ENSG00000121274	ENST00000573002	processed_transcript	KNOWN	None	30758	None	None	50248137	50265742	1	None	TRF4-2
16	PAPD5	ENSG00000121274	ENST00000357464	protein_coding	KNOWN	None	30758	1860	619	50187779	50269221	1	None	TRF4-2
4	None	ENSG00000250371	ENST00000506899	lincRNA	KNOWN	None	None	None	None	12860725	12866585	-1	None	None
13	RB1	ENSG00000139687	ENST00000525036	retained_intron	KNOWN	None	9884	None	None	48877887	48934873	1	OSRC	RB
13	RB1	ENSG00000139687	ENST00000467505	nonsense_mediated_decay	KNOWN	None	9884	162	53	48877911	48937044	1	OSRC	RB
13	RB1	ENSG00000139687	ENST00000267163	protein_coding	KNOWN	CCDS31973	9884	2787	928	48877911	49056122	1	OSRC	RB
13	RB1	ENSG00000139687	ENST00000480491	processed_transcript	KNOWN	None	9884	None	None	49018964	49030443	1	OSRC	RB
13	RB1	ENSG00000139687	ENST00000531171	processed_transcript	KNOWN	None	9884	None	None	49050536	49054475	1	OSRC	RB
13	RB1	ENSG00000139687	ENST00000484879	processed_transcript	KNOWN	None	9884	None	None	49050583	49054783	1	OSRC	RB
2	AHSA2	ENSG00000173209	ENST00000357022	protein_coding	KNOWN	CCDS1868	20437	414	137	61404553	61414686	1	None	DKFZp564C236, Hch1
2	AHSA2	ENSG00000173209	ENST00000463681	processed_transcript	PUTATIVE	None	20437	None	None	61404563	61408460	1	None	DKFZp564C236, Hch1
2	AHSA2	ENSG00000173209	ENST00000489653	processed_transcript	KNOWN	None	20437	None	None	61404607	61414048	1	None	DKFZp564C236, Hch1
2	AHSA2	ENSG00000173209	ENST00000394457	protein_coding	KNOWN	CCDS1868	20437	414	137	61404664	61414686	1	None	DKFZp564C236, Hch1
2	AHSA2	ENSG00000173209	ENST00000471542	retained_intron	KNOWN	None	20437	None	None	61405803	61414047	1	None	DKFZp564C236, Hch1
2	AHSA2	ENSG00000173209	ENST00000493310	processed_transcript	PUTATIVE	None	20437	None	None	61406266	61408815	1	None	DKFZp564C236, Hch1
2	AHSA2	ENSG00000173209	ENST00000493628	processed_transcript	KNOWN	None	20437	None	None	61408473	61413942	1	None	DKFZp564C236, Hch1
2	AHSA2	ENSG00000173209	ENST00000487904	retained_intron	KNOWN	None	20437	None	None	61408486	61412881	1	None	DKFZp564C236, Hch1
2	AHSA2	ENSG00000173209	ENST00000484217	retained_intron	KNOWN	None	20437	None	None	61410693	61413942	1	None	DKFZp564C236, Hch1
2	AHSA2	ENSG00000173209	ENST00000410073	protein_coding	NOVEL	None	20437	441	146	61411847	61413945	1	None	DKFZp564C236, Hch1
2	AHSA2	ENSG00000173209	ENST00000491217	processed_transcript	PUTATIVE	None	20437	None	None	61412661	61413910	1	None	DKFZp564C236, Hch1
4	None	ENSG00000250098	ENST00000503163	lincRNA	KNOWN	None	None	None	None	12949198	12950294	-1	None	None
4	RNU6-962P	ENSG00000252235	ENST00000516426	snRNA	KNOWN	None	47925	None	None	13052966	13053035	1	None	None
19	SAMD4B	ENSG00000179134	ENST00000602243	protein_coding	KNOWN	None	25492	225	74	39833036	39860323	1	None	FLJ10211, MGC99832, SMGB, hSmaug2
19	SAMD4B	ENSG00000179134	ENST00000598913	protein_coding	PUTATIVE	None	25492	2079	692	39833082	39874828	1	None	FLJ10211, MGC99832, SMGB, hSmaug2
19	SAMD4B	ENSG00000179134	ENST00000314471	protein_coding	KNOWN	CCDS33020	25492	2085	694	39833108	39875566	1	None	FLJ10211, MGC99832, SMGB, hSmaug2
19	SAMD4B	ENSG00000179134	ENST00000601613	retained_intron	KNOWN	None	25492	None	None	39840440	39843129	1	None	FLJ10211, MGC99832, SMGB, hSmaug2
19	SAMD4B	ENSG00000179134	ENST00000599712	protein_coding	KNOWN	None	25492	657	218	39844644	39860755	1	None	FLJ10211, MGC99832, SMGB, hSmaug2
19	SAMD4B	ENSG00000179134	ENST00000594204	processed_transcript	KNOWN	None	25492	None	None	39847348	39850788	1	None	FLJ10211, MGC99832, SMGB, hSmaug2
19	SAMD4B	ENSG00000179134	ENST00000596368	protein_coding	PUTATIVE	None	25492	978	325	39847456	39876350	1	None	FLJ10211, MGC99832, SMGB, hSmaug2
19	SAMD4B	ENSG00000179134	ENST00000596319	retained_intron	KNOWN	None	25492	None	None	39860193	39866320	1	None	FLJ10211, MGC99832, SMGB, hSmaug2
19	SAMD4B	ENSG00000179134	ENST00000600018	protein_coding	NOVEL	None	25492	144	47	39860732	39867186	1	None	FLJ10211, MGC99832, SMGB, hSmaug2
19	SAMD4B	ENSG00000179134	ENST00000595476	retained_intron	KNOWN	None	25492	None	None	39869145	39871936	1	None	FLJ10211, MGC99832, SMGB, hSmaug2
19	SAMD4B	ENSG00000179134	ENST00000598605	protein_coding	PUTATIVE	None	25492	283	93	39871374	39874226	1	None	FLJ10211, MGC99832, SMGB, hSmaug2
19	SAMD4B	ENSG00000179134	ENST00000596271	retained_intron	KNOWN	None	25492	None	None	39875761	39876338	1	None	FLJ10211, MGC99832, SMGB, hSmaug2
HSCHR6_MHC_SSTO	DOM3Z	ENSG00000234798	ENST00000419797	protein_coding	KNOWN	None	2992	1191	396	31929439	31931921	-1	DOM3Z	None
HSCHR6_MHC_SSTO	DOM3Z	ENSG00000234798	ENST00000489660	retained_intron	KNOWN	None	2992	None	None	31929439	31931881	-1	DOM3Z	None
HSCHR6_MHC_SSTO	DOM3Z	ENSG00000234798	ENST00000496155	retained_intron	KNOWN	None	2992	None	None	31929439	31931867	-1	DOM3Z	None
HSCHR6_MHC_SSTO	DOM3Z	ENSG00000234798	ENST00000492293	retained_intron	KNOWN	None	2992	None	None	31929439	31931838	-1	DOM3Z	None
HSCHR6_MHC_SSTO	DOM3Z	ENSG00000234798	ENST00000481239	retained_intron	KNOWN	None	2992	None	None	31929439	31931724	-1	DOM3Z	None
HSCHR6_MHC_SSTO	DOM3Z	ENSG00000234798	ENST00000446967	protein_coding	KNOWN	None	2992	1191	396	31929439	31931765	-1	DOM3Z	None
HSCHR6_MHC_SSTO	DOM3Z	ENSG00000234798	ENST00000427627	protein_coding	KNOWN	None	2992	1191	396	31929439	31931600	-1	DOM3Z	None
HSCHR6_MHC_SSTO	DOM3Z	ENSG00000234798	ENST00000498775	retained_intron	KNOWN	None	2992	None	None	31929439	31931312	-1	DOM3Z	None
HSCHR6_MHC_SSTO	DOM3Z	ENSG00000234798	ENST00000473932	retained_intron	KNOWN	None	2992	None	None	31929439	31931314	-1	DOM3Z	None
HSCHR6_MHC_SSTO	DOM3Z	ENSG00000234798	ENST00000488502	processed_transcript	KNOWN	None	2992	None	None	31929439	31930486	-1	DOM3Z	None
HSCHR6_MHC_SSTO	DOM3Z	ENSG00000234798	ENST00000463957	processed_transcript	KNOWN	None	2992	None	None	31930013	31931765	-1	DOM3Z	None
HSCHR6_MHC_SSTO	DOM3Z	ENSG00000234798	ENST00000461938	processed_transcript	KNOWN	None	2992	None	None	31930240	31931727	-1	DOM3Z	None
HSCHR6_MHC_SSTO	DOM3Z	ENSG00000234798	ENST00000475681	processed_transcript	KNOWN	None	2992	None	None	31930272	31931618	-1	DOM3Z	None
HSCHR6_MHC_SSTO	DOM3Z	ENSG00000234798	ENST00000491726	processed_transcript	KNOWN	None	2992	None	None	31930531	31931638	-1	DOM3Z	None
4	HSP90AB2P	ENSG00000205940	ENST00000602906	processed_transcript	KNOWN	None	32537	None	None	13335038	13339926	1	None	HSP90BB
4	HSP90AB2P	ENSG00000205940	ENST00000507090	transcribed_processed_pseudogene	KNOWN	None	32537	None	None	13338106	13340281	1	None	HSP90BB
4	HSP90AB2P	ENSG00000205940	ENST00000382444	processed_pseudogene	KNOWN	None	32537	None	None	13338103	13339926	1	None	HSP90BB
3	SETD2	ENSG00000181555	ENST00000431180	nonsense_mediated_decay	KNOWN	None	18420	3871	1289	47057919	47165277	-1	None	HYPB, HIF-1, KIAA1732, FLJ23184, KMT3A
3	SETD2	ENSG00000181555	ENST00000330022	nonsense_mediated_decay	KNOWN	None	18420	4097	1364	47057926	47165740	-1	None	HYPB, HIF-1, KIAA1732, FLJ23184, KMT3A
3	SETD2	ENSG00000181555	ENST00000445387	nonsense_mediated_decay	KNOWN	None	18420	5026	1674	47058179	47165025	-1	None	HYPB, HIF-1, KIAA1732, FLJ23184, KMT3A
3	SETD2	ENSG00000181555	ENST00000409792	protein_coding	KNOWN	CCDS2749	18420	7695	2564	47058179	47205457	-1	None	HYPB, HIF-1, KIAA1732, FLJ23184, KMT3A
3	SETD2	ENSG00000181555	ENST00000479832	retained_intron	KNOWN	None	18420	None	None	47079155	47088517	-1	None	HYPB, HIF-1, KIAA1732, FLJ23184, KMT3A
3	SETD2	ENSG00000181555	ENST00000492397	processed_transcript	KNOWN	None	18420	None	None	47103650	47125436	-1	None	HYPB, HIF-1, KIAA1732, FLJ23184, KMT3A
3	SETD2	ENSG00000181555	ENST00000484689	retained_intron	KNOWN	None	18420	None	None	47129674	47139941	-1	None	HYPB, HIF-1, KIAA1732, FLJ23184, KMT3A
3	SETD2	ENSG00000181555	ENST00000412450	protein_coding	PUTATIVE	None	18420	4021	1339	47161973	47205066	-1	None	HYPB, HIF-1, KIAA1732, FLJ23184, KMT3A
1	FAM46C	ENSG00000183508	ENST00000369448	protein_coding	KNOWN	CCDS896	24712	1176	391	118148556	118170994	1	None	FLJ20202
10	HABP2	ENSG00000148702	ENST00000351270	protein_coding	KNOWN	CCDS7577	4798	1683	560	115312785	115349358	1	None	HABP, PHBP, HGFAL, FSAP
10	HABP2	ENSG00000148702	ENST00000460714	processed_transcript	KNOWN	None	4798	None	None	115327243	115329917	1	None	HABP, PHBP, HGFAL, FSAP
10	HABP2	ENSG00000148702	ENST00000541666	protein_coding	KNOWN	None	4798	843	280	115312831	115343128	1	None	HABP, PHBP, HGFAL, FSAP
10	HABP2	ENSG00000148702	ENST00000542051	protein_coding	KNOWN	CCDS53579	4798	1605	534	115310596	115349361	1	None	HABP, PHBP, HGFAL, FSAP
10	HABP2	ENSG00000148702	ENST00000537906	protein_coding	KNOWN	None	4798	534	177	115312825	115338557	1	None	HABP, PHBP, HGFAL, FSAP
HSCHR6_MHC_QBL	HLA-G	ENSG00000206506	ENST00000400682	protein_coding	KNOWN	None	4964	1032	343	29791932	29796106	1	None	None
HSCHR6_MHC_QBL	HLA-G	ENSG00000206506	ENST00000383621	protein_coding	KNOWN	None	4964	1017	338	29792786	29796106	1	None	None
HSCHR6_MHC_QBL	HLA-G	ENSG00000206506	ENST00000491141	retained_intron	KNOWN	None	4964	None	None	29792810	29796106	1	None	None
HSCHR6_MHC_QBL	HLA-G	ENSG00000206506	ENST00000383623	protein_coding	KNOWN	None	4964	741	246	29792810	29796106	1	None	None
HSCHR6_MHC_QBL	HLA-G	ENSG00000206506	ENST00000383622	protein_coding	KNOWN	None	4964	465	154	29792810	29796106	1	None	None
HSCHR6_MHC_QBL	HLA-G	ENSG00000206506	ENST00000469472	nonsense_mediated_decay	KNOWN	None	4964	741	246	29792810	29796106	1	None	None
HSCHR6_MHC_QBL	HLA-G	ENSG00000206506	ENST00000553052	protein_coding	KNOWN	None	4964	1017	338	29791944	29796101	1	None	None
14	PRMT5	ENSG00000100462	ENST00000324366	protein_coding	KNOWN	CCDS9579	10894	1914	637	23389720	23398794	-1	HRMT1L5, SKB1	SKB1Hs
14	PRMT5	ENSG00000100462	ENST00000397441	protein_coding	KNOWN	CCDS41922	10894	1863	620	23389734	23398610	-1	HRMT1L5, SKB1	SKB1Hs
14	PRMT5	ENSG00000100462	ENST00000557443	protein_coding	PUTATIVE	None	10894	185	60	23389738	23391449	-1	HRMT1L5, SKB1	SKB1Hs
14	PRMT5	ENSG00000100462	ENST00000476175	processed_transcript	KNOWN	None	10894	None	None	23389738	23392030	-1	HRMT1L5, SKB1	SKB1Hs
14	PRMT5	ENSG00000100462	ENST00000397440	protein_coding	NOVEL	None	10894	1401	466	23389738	23398565	-1	HRMT1L5, SKB1	SKB1Hs
14	PRMT5	ENSG00000100462	ENST00000216350	protein_coding	NOVEL	None	10894	1731	576	23389739	23398600	-1	HRMT1L5, SKB1	SKB1Hs
14	PRMT5	ENSG00000100462	ENST00000555454	protein_coding	PUTATIVE	None	10894	534	177	23390019	23393388	-1	HRMT1L5, SKB1	SKB1Hs
14	PRMT5	ENSG00000100462	ENST00000454731	protein_coding	PUTATIVE	None	10894	538	178	23390034	23392371	-1	HRMT1L5, SKB1	SKB1Hs
14	PRMT5	ENSG00000100462	ENST00000553915	nonsense_mediated_decay	KNOWN	None	10894	210	69	23390066	23398574	-1	HRMT1L5, SKB1	SKB1Hs
14	PRMT5	ENSG00000100462	ENST00000553897	protein_coding	NOVEL	None	10894	1782	593	23390085	23398617	-1	HRMT1L5, SKB1	SKB1Hs
14	PRMT5	ENSG00000100462	ENST00000557758	retained_intron	KNOWN	None	10894	None	None	23391341	23392119	-1	HRMT1L5, SKB1	SKB1Hs
14	PRMT5	ENSG00000100462	ENST00000553502	protein_coding	PUTATIVE	None	10894	414	137	23393371	23394255	-1	HRMT1L5, SKB1	SKB1Hs
14	PRMT5	ENSG00000100462	ENST00000555530	protein_coding	PUTATIVE	None	10894	837	278	23393526	23397352	-1	HRMT1L5, SKB1	SKB1Hs
14	PRMT5	ENSG00000100462	ENST00000556043	protein_coding	PUTATIVE	None	10894	312	103	23393708	23395665	-1	HRMT1L5, SKB1	SKB1Hs
14	PRMT5	ENSG00000100462	ENST00000553550	protein_coding	NOVEL	None	10894	549	182	23393847	23398601	-1	HRMT1L5, SKB1	SKB1Hs
14	PRMT5	ENSG00000100462	ENST00000554716	processed_transcript	KNOWN	None	10894	None	None	23393872	23398574	-1	HRMT1L5, SKB1	SKB1Hs
14	PRMT5	ENSG00000100462	ENST00000553787	nonsense_mediated_decay	KNOWN	None	10894	129	42	23394209	23398582	-1	HRMT1L5, SKB1	SKB1Hs
14	PRMT5	ENSG00000100462	ENST00000553641	processed_transcript	KNOWN	None	10894	None	None	23395342	23398560	-1	HRMT1L5, SKB1	SKB1Hs
14	PRMT5	ENSG00000100462	ENST00000554867	protein_coding	PUTATIVE	None	10894	540	179	23395444	23398585	-1	HRMT1L5, SKB1	SKB1Hs
14	PRMT5	ENSG00000100462	ENST00000557415	nonsense_mediated_decay	KNOWN	None	10894	261	86	23395447	23398601	-1	HRMT1L5, SKB1	SKB1Hs
14	PRMT5	ENSG00000100462	ENST00000556616	protein_coding	PUTATIVE	None	10894	556	184	23395449	23398585	-1	HRMT1L5, SKB1	SKB1Hs
14	PRMT5	ENSG00000100462	ENST00000554910	protein_coding	PUTATIVE	None	10894	509	168	23395484	23398290	-1	HRMT1L5, SKB1	SKB1Hs
14	PRMT5	ENSG00000100462	ENST00000553417	retained_intron	KNOWN	None	10894	None	None	23395690	23396805	-1	HRMT1L5, SKB1	SKB1Hs
14	PRMT5	ENSG00000100462	ENST00000421938	protein_coding	PUTATIVE	None	10894	558	185	23395946	23398577	-1	HRMT1L5, SKB1	SKB1Hs
14	PRMT5	ENSG00000100462	ENST00000556032	retained_intron	KNOWN	None	10894	None	None	23396735	23398560	-1	HRMT1L5, SKB1	SKB1Hs
14	PRMT5	ENSG00000100462	ENST00000557015	retained_intron	KNOWN	None	10894	None	None	23397340	23398603	-1	HRMT1L5, SKB1	SKB1Hs
14	PRMT5	ENSG00000100462	ENST00000556426	processed_transcript	KNOWN	None	10894	None	None	23397472	23398585	-1	HRMT1L5, SKB1	SKB1Hs
14	PRMT5	ENSG00000100462	ENST00000538452	protein_coding	KNOWN	None	10894	1596	531	23390066	23398576	-1	HRMT1L5, SKB1	SKB1Hs
2	GALNT3	ENSG00000115339	ENST00000392701	protein_coding	KNOWN	CCDS2226	4125	1902	633	166604101	166651192	-1	None	GalNAc-T3, HHS, HFTC
2	GALNT3	ENSG00000115339	ENST00000409882	protein_coding	PUTATIVE	None	4125	1116	371	166604313	166618417	-1	None	GalNAc-T3, HHS, HFTC
2	GALNT3	ENSG00000115339	ENST00000412248	protein_coding	KNOWN	None	4125	1392	463	166613557	166651169	-1	None	GalNAc-T3, HHS, HFTC
2	GALNT3	ENSG00000115339	ENST00000437849	nonsense_mediated_decay	KNOWN	None	4125	270	89	166613578	166621469	-1	None	GalNAc-T3, HHS, HFTC
2	GALNT3	ENSG00000115339	ENST00000463254	retained_intron	KNOWN	None	4125	None	None	166615128	166618535	-1	None	GalNAc-T3, HHS, HFTC
2	GALNT3	ENSG00000115339	ENST00000431484	protein_coding	KNOWN	None	4125	270	89	166626941	166651160	-1	None	GalNAc-T3, HHS, HFTC
2	GALNT3	ENSG00000115339	ENST00000414977	protein_coding	KNOWN	None	4125	172	56	166627039	166650389	-1	None	GalNAc-T3, HHS, HFTC
2	GALNT3	ENSG00000115339	ENST00000422973	protein_coding	KNOWN	None	4125	76	24	166627135	166650757	-1	None	GalNAc-T3, HHS, HFTC
2	GALNT3	ENSG00000115339	ENST00000447156	protein_coding	KNOWN	None	4125	35	10	166627176	166628201	-1	None	GalNAc-T3, HHS, HFTC
14	CFL2	ENSG00000165410	ENST00000341223	protein_coding	KNOWN	CCDS9650	1875	501	166	35179593	35183034	-1	None	NEM7
14	CFL2	ENSG00000165410	ENST00000298159	protein_coding	KNOWN	CCDS9649	1875	501	166	35179593	35183896	-1	None	NEM7
14	CFL2	ENSG00000165410	ENST00000554470	nonsense_mediated_decay	KNOWN	None	1875	66	21	35181214	35184029	-1	None	NEM7
14	CFL2	ENSG00000165410	ENST00000422678	nonsense_mediated_decay	KNOWN	None	1875	177	58	35181243	35183783	-1	None	NEM7
14	CFL2	ENSG00000165410	ENST00000555765	protein_coding	PUTATIVE	CCDS58311	1875	450	149	35182058	35183761	-1	None	NEM7
14	CFL2	ENSG00000165410	ENST00000556161	protein_coding	PUTATIVE	CCDS58311	1875	450	149	35182064	35183442	-1	None	NEM7
19	SLC17A7	ENSG00000104888	ENST00000221485	protein_coding	KNOWN	CCDS12764	16704	1683	560	49932658	49944808	-1	None	BNPI, VGLUT1
19	SLC17A7	ENSG00000104888	ENST00000600601	protein_coding	PUTATIVE	None	16704	1482	493	49933243	49945617	-1	None	BNPI, VGLUT1
19	SLC17A7	ENSG00000104888	ENST00000600672	retained_intron	KNOWN	None	16704	None	None	49934012	49939437	-1	None	BNPI, VGLUT1
19	SLC17A7	ENSG00000104888	ENST00000596689	nonsense_mediated_decay	KNOWN	None	16704	350	115	49935879	49937918	-1	None	BNPI, VGLUT1
19	SLC17A7	ENSG00000104888	ENST00000598018	retained_intron	KNOWN	None	16704	None	None	49936516	49941571	-1	None	BNPI, VGLUT1
19	SLC17A7	ENSG00000104888	ENST00000543531	protein_coding	KNOWN	None	16704	1647	548	49933243	49945617	-1	None	BNPI, VGLUT1
1	CSF3R	ENSG00000119535	ENST00000373106	protein_coding	KNOWN	CCDS413	2439	2511	836	36931644	36948879	-1	CD114	GCSFR
1	CSF3R	ENSG00000119535	ENST00000373104	protein_coding	KNOWN	CCDS412	2439	2352	783	36931644	36948879	-1	CD114	GCSFR
1	CSF3R	ENSG00000119535	ENST00000373103	protein_coding	KNOWN	CCDS414	2439	2592	863	36931644	36948879	-1	CD114	GCSFR
1	CSF3R	ENSG00000119535	ENST00000480825	retained_intron	KNOWN	None	2439	None	None	36931645	36941928	-1	CD114	GCSFR
1	CSF3R	ENSG00000119535	ENST00000464465	protein_coding	KNOWN	None	2439	1166	387	36931684	36937075	-1	CD114	GCSFR
1	CSF3R	ENSG00000119535	ENST00000487540	processed_transcript	KNOWN	None	2439	None	None	36931719	36937988	-1	CD114	GCSFR
1	CSF3R	ENSG00000119535	ENST00000484762	retained_intron	KNOWN	None	2439	None	None	36932183	36933677	-1	CD114	GCSFR
1	CSF3R	ENSG00000119535	ENST00000466138	retained_intron	KNOWN	None	2439	None	None	36932830	36933410	-1	CD114	GCSFR
1	CSF3R	ENSG00000119535	ENST00000464365	retained_intron	KNOWN	None	2439	None	None	36934349	36941013	-1	CD114	GCSFR
1	CSF3R	ENSG00000119535	ENST00000469380	retained_intron	KNOWN	None	2439	None	None	36938970	36939431	-1	CD114	GCSFR
1	CSF3R	ENSG00000119535	ENST00000526980	processed_transcript	KNOWN	None	2439	None	None	36942584	36948500	-1	CD114	GCSFR
1	CSF3R	ENSG00000119535	ENST00000489551	retained_intron	KNOWN	None	2439	None	None	36944515	36948535	-1	CD114	GCSFR
1	CSF3R	ENSG00000119535	ENST00000533491	protein_coding	KNOWN	None	2439	65	20	36945033	36947652	-1	CD114	GCSFR
1	CSF3R	ENSG00000119535	ENST00000331941	protein_coding	KNOWN	CCDS412	2439	2352	783	36931697	36945097	-1	CD114	GCSFR
1	CSF3R	ENSG00000119535	ENST00000361632	protein_coding	KNOWN	CCDS413	2439	2511	836	36931645	36947120	-1	CD114	GCSFR
1	CSF3R	ENSG00000119535	ENST00000418048	protein_coding	KNOWN	CCDS413	2439	2511	836	36931719	36945097	-1	CD114	GCSFR
1	CSF3R	ENSG00000119535	ENST00000440588	protein_coding	KNOWN	CCDS414	2439	2592	863	36931958	36945097	-1	CD114	GCSFR
1	CSF3R	ENSG00000119535	ENST00000338937	protein_coding	KNOWN	None	2439	2310	769	36931719	36945097	-1	CD114	GCSFR
18	TPGS2	ENSG00000134779	ENST00000590652	processed_transcript	KNOWN	None	24561	None	None	34359987	34380225	-1	C18orf10	DKFZP586M1523, HsT3006
18	TPGS2	ENSG00000134779	ENST00000590258	processed_transcript	KNOWN	None	24561	None	None	34359990	34378548	-1	C18orf10	DKFZP586M1523, HsT3006
18	TPGS2	ENSG00000134779	ENST00000587129	protein_coding	NOVEL	None	24561	747	248	34362948	34408767	-1	C18orf10	DKFZP586M1523, HsT3006
18	TPGS2	ENSG00000134779	ENST00000591906	protein_coding	PUTATIVE	None	24561	565	187	34366536	34398890	-1	C18orf10	DKFZP586M1523, HsT3006
18	TPGS2	ENSG00000134779	ENST00000590842	protein_coding	NOVEL	None	24561	915	304	34366536	34408805	-1	C18orf10	DKFZP586M1523, HsT3006
18	TPGS2	ENSG00000134779	ENST00000587382	protein_coding	NOVEL	None	24561	626	207	34368656	34408693	-1	C18orf10	DKFZP586M1523, HsT3006
18	TPGS2	ENSG00000134779	ENST00000334295	protein_coding	KNOWN	CCDS32817	24561	903	300	34374069	34409158	-1	C18orf10	DKFZP586M1523, HsT3006
18	TPGS2	ENSG00000134779	ENST00000593035	protein_coding	NOVEL	None	24561	798	265	34376035	34408926	-1	C18orf10	DKFZP586M1523, HsT3006
18	TPGS2	ENSG00000134779	ENST00000383056	protein_coding	KNOWN	None	24561	774	257	34376035	34408949	-1	C18orf10	DKFZP586M1523, HsT3006
18	TPGS2	ENSG00000134779	ENST00000590500	processed_transcript	KNOWN	None	24561	None	None	34376889	34387897	-1	C18orf10	DKFZP586M1523, HsT3006
18	TPGS2	ENSG00000134779	ENST00000589049	protein_coding	KNOWN	None	24561	684	227	34377984	34408744	-1	C18orf10	DKFZP586M1523, HsT3006
18	TPGS2	ENSG00000134779	ENST00000591823	nonsense_mediated_decay	KNOWN	None	24561	93	30	34378341	34408736	-1	C18orf10	DKFZP586M1523, HsT3006
18	TPGS2	ENSG00000134779	ENST00000585635	nonsense_mediated_decay	KNOWN	None	24561	150	49	34378430	34408999	-1	C18orf10	DKFZP586M1523, HsT3006
18	TPGS2	ENSG00000134779	ENST00000590692	nonsense_mediated_decay	KNOWN	None	24561	93	30	34380188	34408745	-1	C18orf10	DKFZP586M1523, HsT3006
18	TPGS2	ENSG00000134779	ENST00000590337	protein_coding	PUTATIVE	None	24561	358	118	34385955	34408951	-1	C18orf10	DKFZP586M1523, HsT3006
18	TPGS2	ENSG00000134779	ENST00000587511	retained_intron	KNOWN	None	24561	None	None	34387501	34408750	-1	C18orf10	DKFZP586M1523, HsT3006
18	TPGS2	ENSG00000134779	ENST00000587207	nonsense_mediated_decay	KNOWN	None	24561	228	75	34387810	34408987	-1	C18orf10	DKFZP586M1523, HsT3006
18	TPGS2	ENSG00000134779	ENST00000591648	retained_intron	KNOWN	None	24561	None	None	34398476	34408974	-1	C18orf10	DKFZP586M1523, HsT3006
18	TPGS2	ENSG00000134779	ENST00000588909	protein_coding	NOVEL	None	24561	129	42	34398857	34408949	-1	C18orf10	DKFZP586M1523, HsT3006
1	IPO9	ENSG00000198700	ENST00000361565	protein_coding	KNOWN	CCDS1415	19425	3126	1041	201798269	201853422	1	None	Imp9, FLJ10402
1	IPO9	ENSG00000198700	ENST00000464348	processed_transcript	KNOWN	None	19425	None	None	201798277	201822201	1	None	Imp9, FLJ10402
1	IPO9	ENSG00000198700	ENST00000479374	processed_transcript	KNOWN	None	19425	None	None	201816423	201819944	1	None	Imp9, FLJ10402
1	IPO9	ENSG00000198700	ENST00000456707	protein_coding	KNOWN	None	19425	468	155	201843443	201845501	1	None	Imp9, FLJ10402
19	C3	ENSG00000125730	ENST00000245907	protein_coding	KNOWN	CCDS32883	1318	4992	1663	6677715	6720693	-1	None	CPAMD1, ARMD9, C3a, C3b
19	C3	ENSG00000125730	ENST00000601475	retained_intron	KNOWN	None	1318	None	None	6677846	6678341	-1	None	CPAMD1, ARMD9, C3a, C3b
19	C3	ENSG00000125730	ENST00000599899	retained_intron	KNOWN	None	1318	None	None	6677852	6683371	-1	None	CPAMD1, ARMD9, C3a, C3b
19	C3	ENSG00000125730	ENST00000602229	protein_coding	PUTATIVE	None	1318	301	99	6677875	6679212	-1	None	CPAMD1, ARMD9, C3a, C3b
19	C3	ENSG00000125730	ENST00000599668	processed_transcript	KNOWN	None	1318	None	None	6677878	6680162	-1	None	CPAMD1, ARMD9, C3a, C3b
19	C3	ENSG00000125730	ENST00000601008	protein_coding	PUTATIVE	None	1318	303	100	6677908	6690723	-1	None	CPAMD1, ARMD9, C3a, C3b
19	C3	ENSG00000125730	ENST00000596548	protein_coding	PUTATIVE	None	1318	576	191	6680170	6685049	-1	None	CPAMD1, ARMD9, C3a, C3b
19	C3	ENSG00000125730	ENST00000596179	retained_intron	KNOWN	None	1318	None	None	6684244	6684643	-1	None	CPAMD1, ARMD9, C3a, C3b
19	C3	ENSG00000125730	ENST00000596238	retained_intron	KNOWN	None	1318	None	None	6684571	6686387	-1	None	CPAMD1, ARMD9, C3a, C3b
19	C3	ENSG00000125730	ENST00000598805	retained_intron	KNOWN	None	1318	None	None	6686300	6693094	-1	None	CPAMD1, ARMD9, C3a, C3b
19	C3	ENSG00000125730	ENST00000594005	retained_intron	KNOWN	None	1318	None	None	6696625	6697726	-1	None	CPAMD1, ARMD9, C3a, C3b
19	C3	ENSG00000125730	ENST00000602053	retained_intron	KNOWN	None	1318	None	None	6697673	6702883	-1	None	CPAMD1, ARMD9, C3a, C3b
19	C3	ENSG00000125730	ENST00000600763	retained_intron	KNOWN	None	1318	None	None	6709767	6710968	-1	None	CPAMD1, ARMD9, C3a, C3b
19	C3	ENSG00000125730	ENST00000594270	processed_transcript	KNOWN	None	1318	None	None	6712291	6713326	-1	None	CPAMD1, ARMD9, C3a, C3b
19	C3	ENSG00000125730	ENST00000597442	processed_transcript	KNOWN	None	1318	None	None	6712318	6713799	-1	None	CPAMD1, ARMD9, C3a, C3b
19	C3	ENSG00000125730	ENST00000595577	retained_intron	KNOWN	None	1318	None	None	6712327	6714362	-1	None	CPAMD1, ARMD9, C3a, C3b
19	C3	ENSG00000125730	ENST00000594936	retained_intron	KNOWN	None	1318	None	None	6718045	6720661	-1	None	CPAMD1, ARMD9, C3a, C3b
19	C3	ENSG00000125730	ENST00000600744	protein_coding	PUTATIVE	None	1318	310	102	6718258	6730573	-1	None	CPAMD1, ARMD9, C3a, C3b
1	GDAP2	ENSG00000196505	ENST00000369443	protein_coding	KNOWN	CCDS897	18010	1494	497	118412037	118472253	-1	None	FLJ20142, dJ776P7.1, MACROD3
1	GDAP2	ENSG00000196505	ENST00000491626	processed_transcript	KNOWN	None	18010	None	None	118412806	118430355	-1	None	FLJ20142, dJ776P7.1, MACROD3
1	GDAP2	ENSG00000196505	ENST00000369442	protein_coding	KNOWN	CCDS44201	18010	1491	496	118419844	118472206	-1	None	FLJ20142, dJ776P7.1, MACROD3
1	GDAP2	ENSG00000196505	ENST00000464026	processed_transcript	KNOWN	None	18010	None	None	118425526	118441752	-1	None	FLJ20142, dJ776P7.1, MACROD3
1	GDAP2	ENSG00000196505	ENST00000493555	processed_transcript	KNOWN	None	18010	None	None	118439238	118462830	-1	None	FLJ20142, dJ776P7.1, MACROD3
1	GDAP2	ENSG00000196505	ENST00000494224	processed_transcript	KNOWN	None	18010	None	None	118455152	118472183	-1	None	FLJ20142, dJ776P7.1, MACROD3
18	FECH	ENSG00000066926	ENST00000262093	protein_coding	KNOWN	CCDS11964	3647	1272	423	55215515	55254004	-1	None	None
18	FECH	ENSG00000066926	ENST00000382873	protein_coding	KNOWN	CCDS32836	3647	1290	429	55216742	55253886	-1	None	None
18	FECH	ENSG00000066926	ENST00000585494	nonsense_mediated_decay	KNOWN	None	3647	336	111	55217486	55253933	-1	None	None
18	FECH	ENSG00000066926	ENST00000591977	protein_coding	PUTATIVE	None	3647	431	142	55218407	55226447	-1	None	None
18	FECH	ENSG00000066926	ENST00000592699	protein_coding	NOVEL	None	3647	979	325	55221491	55253922	-1	None	None
18	FECH	ENSG00000066926	ENST00000585699	processed_transcript	KNOWN	None	3647	None	None	55233780	55253931	-1	None	None
18	FECH	ENSG00000066926	ENST00000591215	protein_coding	PUTATIVE	None	3647	272	89	55233789	55253844	-1	None	None
18	FECH	ENSG00000066926	ENST00000585747	protein_coding	PUTATIVE	None	3647	495	164	55235077	55253921	-1	None	None
18	FECH	ENSG00000066926	ENST00000585878	retained_intron	KNOWN	None	3647	None	None	55240222	55253886	-1	None	None
18	FECH	ENSG00000066926	ENST00000592111	retained_intron	KNOWN	None	3647	None	None	55240237	55253853	-1	None	None
16	None	ENSG00000232748	ENST00000417110	protein_coding	KNOWN	None	None	639	212	31072813	31073451	1	None	None
12	MRPL42	ENSG00000198015	ENST00000549982	protein_coding	KNOWN	CCDS9045	14493	429	142	93861264	93897545	1	None	MRP-L31, RPML31, PTD007, HSPC204, MRPS32, MRPL31
12	MRPL42	ENSG00000198015	ENST00000552217	protein_coding	PUTATIVE	CCDS9045	14493	429	142	93861292	93895352	1	None	MRP-L31, RPML31, PTD007, HSPC204, MRPS32, MRPL31
12	MRPL42	ENSG00000198015	ENST00000552326	processed_transcript	KNOWN	None	14493	None	None	93861293	93895067	1	None	MRP-L31, RPML31, PTD007, HSPC204, MRPS32, MRPL31
12	MRPL42	ENSG00000198015	ENST00000393128	protein_coding	PUTATIVE	None	14493	420	139	93861293	93896428	1	None	MRP-L31, RPML31, PTD007, HSPC204, MRPS32, MRPL31
12	MRPL42	ENSG00000198015	ENST00000547098	protein_coding	PUTATIVE	None	14493	468	155	93861294	93882248	1	None	MRP-L31, RPML31, PTD007, HSPC204, MRPS32, MRPL31
12	MRPL42	ENSG00000198015	ENST00000358678	nonsense_mediated_decay	KNOWN	None	14493	156	51	93861294	93896437	1	None	MRP-L31, RPML31, PTD007, HSPC204, MRPS32, MRPL31
12	MRPL42	ENSG00000198015	ENST00000551396	nonsense_mediated_decay	KNOWN	None	14493	162	53	93861316	93895161	1	None	MRP-L31, RPML31, PTD007, HSPC204, MRPS32, MRPL31
12	MRPL42	ENSG00000198015	ENST00000549561	nonsense_mediated_decay	KNOWN	CCDS9045	14493	429	142	93862965	93896640	1	None	MRP-L31, RPML31, PTD007, HSPC204, MRPS32, MRPL31
12	MRPL42	ENSG00000198015	ENST00000548545	protein_coding	PUTATIVE	None	14493	387	128	93862990	93881673	1	None	MRP-L31, RPML31, PTD007, HSPC204, MRPS32, MRPL31
12	MRPL42	ENSG00000198015	ENST00000552938	processed_transcript	PUTATIVE	None	14493	None	None	93894523	93896397	1	None	MRP-L31, RPML31, PTD007, HSPC204, MRPS32, MRPL31
12	MRPL42	ENSG00000198015	ENST00000361630	protein_coding	KNOWN	None	14493	429	142	93861270	93896432	1	None	MRP-L31, RPML31, PTD007, HSPC204, MRPS32, MRPL31
3	VWA5B2	ENSG00000145198	ENST00000426955	protein_coding	KNOWN	CCDS54686	25144	3729	1242	183948217	183960117	1	None	DKFZp761K032, LOC90113
3	VWA5B2	ENSG00000145198	ENST00000497229	retained_intron	KNOWN	None	25144	None	None	183950388	183952785	1	None	DKFZp761K032, LOC90113
3	VWA5B2	ENSG00000145198	ENST00000273794	protein_coding	PUTATIVE	None	25144	3075	1024	183951204	183960071	1	None	DKFZp761K032, LOC90113
3	VWA5B2	ENSG00000145198	ENST00000461141	retained_intron	KNOWN	None	25144	None	None	183952308	183960117	1	None	DKFZp761K032, LOC90113
3	VWA5B2	ENSG00000145198	ENST00000474580	retained_intron	KNOWN	None	25144	None	None	183952807	183954434	1	None	DKFZp761K032, LOC90113
3	VWA5B2	ENSG00000145198	ENST00000493493	retained_intron	KNOWN	None	25144	None	None	183958215	183959192	1	None	DKFZp761K032, LOC90113
Y	TCEB1P4	ENSG00000232924	ENST00000420090	processed_pseudogene	KNOWN	None	38141	None	None	9068524	9068856	1	None	None
14	ZNF410	ENSG00000119725	ENST00000540593	protein_coding	NOVEL	CCDS55931	20144	1218	405	74353320	74398300	1	None	APA1, APA-1
14	ZNF410	ENSG00000119725	ENST00000555730	protein_coding	PUTATIVE	None	20144	259	85	74353437	74364803	1	None	APA1, APA-1
14	ZNF410	ENSG00000119725	ENST00000324593	protein_coding	KNOWN	CCDS55930	20144	1296	431	74353508	74398981	1	None	APA1, APA-1
14	ZNF410	ENSG00000119725	ENST00000556396	nonsense_mediated_decay	KNOWN	None	20144	291	96	74353511	74398543	1	None	APA1, APA-1
14	ZNF410	ENSG00000119725	ENST00000557495	protein_coding	NOVEL	None	20144	381	126	74353562	74363209	1	None	APA1, APA-1
14	ZNF410	ENSG00000119725	ENST00000556659	protein_coding	KNOWN	None	20144	377	124	74353562	74363226	1	None	APA1, APA-1
14	ZNF410	ENSG00000119725	ENST00000557363	protein_coding	PUTATIVE	None	20144	388	128	74353562	74364932	1	None	APA1, APA-1
14	ZNF410	ENSG00000119725	ENST00000555602	processed_transcript	KNOWN	None	20144	None	None	74353562	74371749	1	None	APA1, APA-1
14	ZNF410	ENSG00000119725	ENST00000412490	processed_transcript	KNOWN	None	20144	None	None	74353562	74376308	1	None	APA1, APA-1
14	ZNF410	ENSG00000119725	ENST00000541357	processed_transcript	KNOWN	None	20144	None	None	74353564	74390228	1	None	APA1, APA-1
14	ZNF410	ENSG00000119725	ENST00000442160	protein_coding	NOVEL	CCDS55929	20144	1551	516	74353574	74398520	1	None	APA1, APA-1
14	ZNF410	ENSG00000119725	ENST00000398139	nonsense_mediated_decay	KNOWN	None	20144	819	272	74353574	74398981	1	None	APA1, APA-1
14	ZNF410	ENSG00000119725	ENST00000555044	protein_coding	KNOWN	CCDS9821	20144	1437	478	74353574	74399214	1	None	APA1, APA-1
14	ZNF410	ENSG00000119725	ENST00000556160	protein_coding	KNOWN	None	20144	224	73	74353761	74363073	1	None	APA1, APA-1
14	ZNF410	ENSG00000119725	ENST00000554582	nonsense_mediated_decay	KNOWN	None	20144	291	96	74354953	74370738	1	None	APA1, APA-1
14	ZNF410	ENSG00000119725	ENST00000554797	protein_coding	KNOWN	None	20144	211	69	74358553	74363060	1	None	APA1, APA-1
14	ZNF410	ENSG00000119725	ENST00000334521	protein_coding	PUTATIVE	None	20144	1278	425	74358728	74398950	1	None	APA1, APA-1
14	ZNF410	ENSG00000119725	ENST00000556797	protein_coding	PUTATIVE	None	20144	504	167	74359992	74365221	1	None	APA1, APA-1
14	ZNF410	ENSG00000119725	ENST00000554316	protein_coding	PUTATIVE	None	20144	282	93	74370403	74387768	1	None	APA1, APA-1
14	ZNF410	ENSG00000119725	ENST00000557679	retained_intron	KNOWN	None	20144	None	None	74370735	74389549	1	None	APA1, APA-1
14	ZNF410	ENSG00000119725	ENST00000555620	retained_intron	KNOWN	None	20144	None	None	74371612	74388030	1	None	APA1, APA-1
14	ZNF410	ENSG00000119725	ENST00000556179	protein_coding	PUTATIVE	None	20144	330	109	74386849	74390228	1	None	APA1, APA-1
14	ZNF410	ENSG00000119725	ENST00000557214	protein_coding	NOVEL	None	20144	508	168	74387699	74398367	1	None	APA1, APA-1
Y	RBMY1A3P	ENSG00000197038	ENST00000382670	unprocessed_pseudogene	KNOWN	None	18849	None	None	9148739	9160478	-1	None	None
Y	RBMY1A3P	ENSG00000197038	ENST00000538925	unprocessed_pseudogene	KNOWN	None	18849	None	None	9154670	9160483	-1	None	None
HSCHR6_MHC_COX	AIF1	ENSG00000237727	ENST00000414149	protein_coding	KNOWN	None	352	444	147	31570375	31572212	1	None	IRT-1, AIF-1, Em:AF129756.17, IBA1
HSCHR6_MHC_COX	AIF1	ENSG00000237727	ENST00000462008	retained_intron	KNOWN	None	352	None	None	31570408	31571531	1	None	IRT-1, AIF-1, Em:AF129756.17, IBA1
HSCHR6_MHC_COX	AIF1	ENSG00000237727	ENST00000454573	protein_coding	KNOWN	None	352	486	161	31570418	31572212	1	None	IRT-1, AIF-1, Em:AF129756.17, IBA1
HSCHR6_MHC_COX	AIF1	ENSG00000237727	ENST00000459762	retained_intron	KNOWN	None	352	None	None	31570471	31572212	1	None	IRT-1, AIF-1, Em:AF129756.17, IBA1
HSCHR6_MHC_COX	AIF1	ENSG00000237727	ENST00000470141	retained_intron	KNOWN	None	352	None	None	31570817	31572212	1	None	IRT-1, AIF-1, Em:AF129756.17, IBA1
HSCHR6_MHC_COX	AIF1	ENSG00000237727	ENST00000419376	protein_coding	KNOWN	None	352	282	93	31571182	31572212	1	None	IRT-1, AIF-1, Em:AF129756.17, IBA1
16	TMEM231	ENSG00000205084	ENST00000258173	protein_coding	KNOWN	CCDS45530	37234	951	316	75572015	75590184	-1	None	FLJ22167, ALYE870, PRO1886
16	TMEM231	ENSG00000205084	ENST00000562410	nonsense_mediated_decay	KNOWN	None	37234	321	106	75572034	75590166	-1	None	FLJ22167, ALYE870, PRO1886
16	TMEM231	ENSG00000205084	ENST00000568377	retained_intron	KNOWN	None	37234	None	None	75572049	75590136	-1	None	FLJ22167, ALYE870, PRO1886
16	TMEM231	ENSG00000205084	ENST00000564318	retained_intron	KNOWN	None	37234	None	None	75572248	75575942	-1	None	FLJ22167, ALYE870, PRO1886
16	TMEM231	ENSG00000205084	ENST00000565067	protein_coding	PUTATIVE	None	37234	807	268	75573652	75590138	-1	None	FLJ22167, ALYE870, PRO1886
16	TMEM231	ENSG00000205084	ENST00000570006	nonsense_mediated_decay	KNOWN	None	37234	582	193	75573907	75590131	-1	None	FLJ22167, ALYE870, PRO1886
16	TMEM231	ENSG00000205084	ENST00000569294	processed_transcript	KNOWN	None	37234	None	None	75574019	75589169	-1	None	FLJ22167, ALYE870, PRO1886
16	TMEM231	ENSG00000205084	ENST00000564576	processed_transcript	KNOWN	None	37234	None	None	75575272	75590143	-1	None	FLJ22167, ALYE870, PRO1886
16	TMEM231	ENSG00000205084	ENST00000561809	retained_intron	KNOWN	None	37234	None	None	75579875	75590160	-1	None	FLJ22167, ALYE870, PRO1886
16	TMEM231	ENSG00000205084	ENST00000398114	protein_coding	KNOWN	CCDS45531	37234	1038	345	75572017	75590136	-1	None	FLJ22167, ALYE870, PRO1886
3	CPNE9	ENSG00000144550	ENST00000383832	protein_coding	KNOWN	CCDS2574	24336	1662	553	9745491	9771592	1	None	KIAA4217
3	CPNE9	ENSG00000144550	ENST00000383831	protein_coding	KNOWN	None	24336	1512	503	9745510	9769134	1	None	KIAA4217
3	CPNE9	ENSG00000144550	ENST00000491802	retained_intron	KNOWN	None	24336	None	None	9745517	9746717	1	None	KIAA4217
3	CPNE9	ENSG00000144550	ENST00000273027	protein_coding	PUTATIVE	None	24336	588	195	9757024	9768397	1	None	KIAA4217
X	PFKFB1	ENSG00000158571	ENST00000375006	protein_coding	KNOWN	CCDS14364	8872	1416	471	54959394	55020511	-1	PFRX	None
X	PFKFB1	ENSG00000158571	ENST00000545676	protein_coding	KNOWN	None	8872	1221	406	54959567	55024967	-1	PFRX	None
X	PFKFB1	ENSG00000158571	ENST00000374992	protein_coding	KNOWN	None	8872	816	271	54959687	55020511	-1	PFRX	None
12	OLR1	ENSG00000173391	ENST00000309539	protein_coding	KNOWN	CCDS8618	8133	822	273	10310902	10324737	-1	None	LOX-1, SCARE1, CLEC8A
12	OLR1	ENSG00000173391	ENST00000544577	protein_coding	PUTATIVE	None	8133	498	165	10312114	10324737	-1	None	LOX-1, SCARE1, CLEC8A
12	OLR1	ENSG00000173391	ENST00000543993	protein_coding	PUTATIVE	None	8133	234	77	10312183	10320198	-1	None	LOX-1, SCARE1, CLEC8A
12	OLR1	ENSG00000173391	ENST00000545927	protein_coding	PUTATIVE	CCDS53746	8133	570	189	10312217	10324716	-1	None	LOX-1, SCARE1, CLEC8A
12	OLR1	ENSG00000173391	ENST00000432556	protein_coding	PUTATIVE	CCDS53745	8133	546	181	10312266	10324731	-1	None	LOX-1, SCARE1, CLEC8A
12	OLR1	ENSG00000173391	ENST00000536989	retained_intron	KNOWN	None	8133	None	None	10312267	10313160	-1	None	LOX-1, SCARE1, CLEC8A
12	OLR1	ENSG00000173391	ENST00000539518	protein_coding	PUTATIVE	None	8133	642	213	10312500	10321781	-1	None	LOX-1, SCARE1, CLEC8A
12	OLR1	ENSG00000173391	ENST00000538745	protein_coding	PUTATIVE	None	8133	371	122	10312618	10320262	-1	None	LOX-1, SCARE1, CLEC8A
12	OLR1	ENSG00000173391	ENST00000339968	protein_coding	PUTATIVE	None	8133	313	103	10313001	10320198	-1	None	LOX-1, SCARE1, CLEC8A
12	OLR1	ENSG00000173391	ENST00000538873	protein_coding	PUTATIVE	None	8133	171	56	10313466	10319767	-1	None	LOX-1, SCARE1, CLEC8A
12	OLR1	ENSG00000173391	ENST00000543414	protein_coding	PUTATIVE	None	8133	313	103	10313477	10322986	-1	None	LOX-1, SCARE1, CLEC8A
16	BANP	ENSG00000172530	ENST00000569400	processed_transcript	KNOWN	None	13450	None	None	87982850	88017857	1	None	SMARBP1, SMAR1, FLJ20538, DKFZp761H172, FLJ10177, BEND1
16	BANP	ENSG00000172530	ENST00000423252	protein_coding	KNOWN	None	13450	84	27	87984042	88014655	1	None	SMARBP1, SMAR1, FLJ20538, DKFZp761H172, FLJ10177, BEND1
16	BANP	ENSG00000172530	ENST00000488074	processed_transcript	KNOWN	None	13450	None	None	87984042	88017840	1	None	SMARBP1, SMAR1, FLJ20538, DKFZp761H172, FLJ10177, BEND1
16	BANP	ENSG00000172530	ENST00000439677	protein_coding	KNOWN	None	13450	584	193	87985038	88052061	1	None	SMARBP1, SMAR1, FLJ20538, DKFZp761H172, FLJ10177, BEND1
16	BANP	ENSG00000172530	ENST00000454563	protein_coding	PUTATIVE	None	13450	170	55	87985040	88014708	1	None	SMARBP1, SMAR1, FLJ20538, DKFZp761H172, FLJ10177, BEND1
16	BANP	ENSG00000172530	ENST00000479780	protein_coding	NOVEL	CCDS54053	13450	1401	466	87985040	88110267	1	None	SMARBP1, SMAR1, FLJ20538, DKFZp761H172, FLJ10177, BEND1
16	BANP	ENSG00000172530	ENST00000393208	protein_coding	KNOWN	CCDS10966	13450	1476	491	87985040	88110924	1	None	SMARBP1, SMAR1, FLJ20538, DKFZp761H172, FLJ10177, BEND1
16	BANP	ENSG00000172530	ENST00000459966	nonsense_mediated_decay	KNOWN	None	13450	123	40	87985041	88039789	1	None	SMARBP1, SMAR1, FLJ20538, DKFZp761H172, FLJ10177, BEND1
16	BANP	ENSG00000172530	ENST00000412691	protein_coding	KNOWN	None	13450	354	117	87985051	88017857	1	None	SMARBP1, SMAR1, FLJ20538, DKFZp761H172, FLJ10177, BEND1
16	BANP	ENSG00000172530	ENST00000526460	processed_transcript	KNOWN	None	13450	None	None	87985073	87990675	1	None	SMARBP1, SMAR1, FLJ20538, DKFZp761H172, FLJ10177, BEND1
16	BANP	ENSG00000172530	ENST00000485772	nonsense_mediated_decay	KNOWN	None	13450	123	40	87985087	88037537	1	None	SMARBP1, SMAR1, FLJ20538, DKFZp761H172, FLJ10177, BEND1
16	BANP	ENSG00000172530	ENST00000466197	nonsense_mediated_decay	KNOWN	None	13450	387	128	87985091	88037997	1	None	SMARBP1, SMAR1, FLJ20538, DKFZp761H172, FLJ10177, BEND1
16	BANP	ENSG00000172530	ENST00000355022	protein_coding	KNOWN	CCDS42215	13450	1410	469	87985093	88110924	1	None	SMARBP1, SMAR1, FLJ20538, DKFZp761H172, FLJ10177, BEND1
16	BANP	ENSG00000172530	ENST00000436970	protein_coding	KNOWN	None	13450	369	122	87993477	88037907	1	None	SMARBP1, SMAR1, FLJ20538, DKFZp761H172, FLJ10177, BEND1
16	BANP	ENSG00000172530	ENST00000436274	protein_coding	KNOWN	None	13450	285	94	87996985	88017788	1	None	SMARBP1, SMAR1, FLJ20538, DKFZp761H172, FLJ10177, BEND1
16	BANP	ENSG00000172530	ENST00000456902	protein_coding	KNOWN	None	13450	357	118	88000309	88017860	1	None	SMARBP1, SMAR1, FLJ20538, DKFZp761H172, FLJ10177, BEND1
16	BANP	ENSG00000172530	ENST00000393207	protein_coding	KNOWN	CCDS54054	13450	1560	519	88003624	88110924	1	None	SMARBP1, SMAR1, FLJ20538, DKFZp761H172, FLJ10177, BEND1
16	BANP	ENSG00000172530	ENST00000474563	processed_transcript	PUTATIVE	None	13450	None	None	88014141	88017833	1	None	SMARBP1, SMAR1, FLJ20538, DKFZp761H172, FLJ10177, BEND1
16	BANP	ENSG00000172530	ENST00000472964	processed_transcript	PUTATIVE	None	13450	None	None	88016224	88017865	1	None	SMARBP1, SMAR1, FLJ20538, DKFZp761H172, FLJ10177, BEND1
16	BANP	ENSG00000172530	ENST00000497491	processed_transcript	KNOWN	None	13450	None	None	88050796	88066825	1	None	SMARBP1, SMAR1, FLJ20538, DKFZp761H172, FLJ10177, BEND1
16	BANP	ENSG00000172530	ENST00000466847	retained_intron	KNOWN	None	13450	None	None	88068658	88110441	1	None	SMARBP1, SMAR1, FLJ20538, DKFZp761H172, FLJ10177, BEND1
16	BANP	ENSG00000172530	ENST00000565242	retained_intron	KNOWN	None	13450	None	None	88070879	88105736	1	None	SMARBP1, SMAR1, FLJ20538, DKFZp761H172, FLJ10177, BEND1
16	BANP	ENSG00000172530	ENST00000481948	processed_transcript	KNOWN	None	13450	None	None	88104679	88110924	1	None	SMARBP1, SMAR1, FLJ20538, DKFZp761H172, FLJ10177, BEND1
16	BANP	ENSG00000172530	ENST00000286122	protein_coding	KNOWN	CCDS54054	13450	1560	519	87985038	88110921	1	None	SMARBP1, SMAR1, FLJ20538, DKFZp761H172, FLJ10177, BEND1
16	BANP	ENSG00000172530	ENST00000355163	protein_coding	KNOWN	CCDS54055	13450	1494	497	87985038	88110921	1	None	SMARBP1, SMAR1, FLJ20538, DKFZp761H172, FLJ10177, BEND1
16	BANP	ENSG00000172530	ENST00000538234	protein_coding	KNOWN	CCDS54052	13450	1527	508	87993477	88110921	1	None	SMARBP1, SMAR1, FLJ20538, DKFZp761H172, FLJ10177, BEND1
10	EPC1	ENSG00000120616	ENST00000319778	protein_coding	KNOWN	None	19876	2442	813	32556679	32636146	-1	None	Epl1
10	EPC1	ENSG00000120616	ENST00000375110	protein_coding	KNOWN	None	19876	2292	763	32556679	32667726	-1	None	Epl1
10	EPC1	ENSG00000120616	ENST00000263062	protein_coding	KNOWN	CCDS7172	19876	2511	836	32557859	32636113	-1	None	Epl1
10	EPC1	ENSG00000120616	ENST00000492710	retained_intron	KNOWN	None	19876	None	None	32560482	32561177	-1	None	Epl1
10	EPC1	ENSG00000120616	ENST00000476533	retained_intron	KNOWN	None	19876	None	None	32560642	32562145	-1	None	Epl1
10	EPC1	ENSG00000120616	ENST00000479380	processed_transcript	KNOWN	None	19876	None	None	32561070	32575906	-1	None	Epl1
10	EPC1	ENSG00000120616	ENST00000495790	retained_intron	KNOWN	None	19876	None	None	32570787	32635747	-1	None	Epl1
10	EPC1	ENSG00000120616	ENST00000480402	processed_transcript	KNOWN	None	19876	None	None	32634040	32636146	-1	None	Epl1
10	EPC1	ENSG00000120616	ENST00000469059	processed_transcript	KNOWN	None	19876	None	None	32634320	32636049	-1	None	Epl1
10	EPC1	ENSG00000120616	ENST00000462470	processed_transcript	KNOWN	None	19876	None	None	32666041	32667542	-1	None	Epl1
13	ZMYM2	ENSG00000121741	ENST00000382881	protein_coding	PUTATIVE	None	12989	1389	462	20532817	20594103	1	ZNF198	RAMP, FIM, MYM
13	ZMYM2	ENSG00000121741	ENST00000382874	protein_coding	KNOWN	CCDS45016	12989	4134	1377	20532848	20663253	1	ZNF198	RAMP, FIM, MYM
13	ZMYM2	ENSG00000121741	ENST00000382871	protein_coding	KNOWN	CCDS45016	12989	4134	1377	20532923	20660886	1	ZNF198	RAMP, FIM, MYM
13	ZMYM2	ENSG00000121741	ENST00000468677	processed_transcript	KNOWN	None	12989	None	None	20599447	20605519	1	ZNF198	RAMP, FIM, MYM
13	ZMYM2	ENSG00000121741	ENST00000382870	protein_coding	PUTATIVE	None	12989	2274	757	20600659	20660887	1	ZNF198	RAMP, FIM, MYM
13	ZMYM2	ENSG00000121741	ENST00000494061	processed_transcript	KNOWN	None	12989	None	None	20640718	20657897	1	ZNF198	RAMP, FIM, MYM
13	ZMYM2	ENSG00000121741	ENST00000490152	processed_transcript	KNOWN	None	12989	None	None	20641119	20642489	1	ZNF198	RAMP, FIM, MYM
13	ZMYM2	ENSG00000121741	ENST00000490422	processed_transcript	KNOWN	None	12989	None	None	20657150	20660151	1	ZNF198	RAMP, FIM, MYM
13	ZMYM2	ENSG00000121741	ENST00000382869	protein_coding	KNOWN	CCDS45016	12989	4134	1377	20532810	20665968	1	ZNF198	RAMP, FIM, MYM
13	ZMYM2	ENSG00000121741	ENST00000382883	protein_coding	KNOWN	None	12989	1134	377	20579303	20635232	1	ZNF198	RAMP, FIM, MYM
16	ZNF646	ENSG00000167395	ENST00000300850	protein_coding	KNOWN	CCDS10702	29004	5499	1832	31085743	31095517	1	None	KIAA0296
16	ZNF646	ENSG00000167395	ENST00000564189	protein_coding	KNOWN	None	29004	164	53	31085744	31087809	1	None	KIAA0296
16	ZNF646	ENSG00000167395	ENST00000428260	protein_coding	KNOWN	None	29004	720	239	31085764	31088365	1	None	KIAA0296
16	ZNF646	ENSG00000167395	ENST00000394979	protein_coding	KNOWN	None	29004	5490	1829	31087223	31095340	1	None	KIAA0296
17	AFMID	ENSG00000183077	ENST00000409257	protein_coding	KNOWN	CCDS32750	20910	912	303	76183398	76203782	1	None	DKFZp686F03259, KF
17	AFMID	ENSG00000183077	ENST00000591256	protein_coding	PUTATIVE	None	20910	618	205	76183439	76201132	1	None	DKFZp686F03259, KF
17	AFMID	ENSG00000183077	ENST00000589256	protein_coding	NOVEL	None	20910	174	57	76183443	76193641	1	None	DKFZp686F03259, KF
17	AFMID	ENSG00000183077	ENST00000592988	retained_intron	KNOWN	None	20910	None	None	76183443	76200120	1	None	DKFZp686F03259, KF
17	AFMID	ENSG00000183077	ENST00000589107	nonsense_mediated_decay	KNOWN	None	20910	183	60	76183443	76200933	1	None	DKFZp686F03259, KF
17	AFMID	ENSG00000183077	ENST00000588199	nonsense_mediated_decay	KNOWN	None	20910	336	111	76183443	76203268	1	None	DKFZp686F03259, KF
17	AFMID	ENSG00000183077	ENST00000588800	protein_coding	NOVEL	None	20910	282	93	76183443	76203321	1	None	DKFZp686F03259, KF
17	AFMID	ENSG00000183077	ENST00000591952	protein_coding	NOVEL	None	20910	255	84	76183443	76203410	1	None	DKFZp686F03259, KF
17	AFMID	ENSG00000183077	ENST00000327898	protein_coding	KNOWN	CCDS45801	20910	927	308	76183443	76203782	1	None	DKFZp686F03259, KF
17	AFMID	ENSG00000183077	ENST00000586542	protein_coding	PUTATIVE	None	20910	562	186	76183445	76201162	1	None	DKFZp686F03259, KF
17	AFMID	ENSG00000183077	ENST00000586731	protein_coding	NOVEL	None	20910	114	37	76183482	76193641	1	None	DKFZp686F03259, KF
17	AFMID	ENSG00000183077	ENST00000591538	processed_transcript	KNOWN	None	20910	None	None	76186792	76198815	1	None	DKFZp686F03259, KF
17	AFMID	ENSG00000183077	ENST00000587750	processed_transcript	KNOWN	None	20910	None	None	76198590	76203283	1	None	DKFZp686F03259, KF
17	AFMID	ENSG00000183077	ENST00000589664	processed_transcript	KNOWN	None	20910	None	None	76198653	76203486	1	None	DKFZp686F03259, KF
17	AFMID	ENSG00000183077	ENST00000585419	processed_transcript	KNOWN	None	20910	None	None	76198802	76203133	1	None	DKFZp686F03259, KF
7	PILRA	ENSG00000085514	ENST00000432297	protein_coding	KNOWN	None	20396	489	162	99965153	99995536	1	None	FDF03
7	PILRA	ENSG00000085514	ENST00000198536	protein_coding	KNOWN	CCDS5691	20396	912	303	99971068	99997719	1	None	FDF03
7	PILRA	ENSG00000085514	ENST00000453419	protein_coding	NOVEL	None	20396	681	226	99971081	99997719	1	None	FDF03
7	PILRA	ENSG00000085514	ENST00000484934	retained_intron	KNOWN	None	20396	None	None	99971151	99972365	1	None	FDF03
7	PILRA	ENSG00000085514	ENST00000394000	protein_coding	KNOWN	CCDS47660	20396	528	175	99971151	99997651	1	None	FDF03
7	PILRA	ENSG00000085514	ENST00000350573	protein_coding	KNOWN	CCDS5692	20396	693	230	99971151	99997719	1	None	FDF03
7	PILRA	ENSG00000085514	ENST00000474013	processed_transcript	KNOWN	None	20396	None	None	99971667	99974036	1	None	FDF03
13	CLDN10	ENSG00000134873	ENST00000376873	protein_coding	KNOWN	CCDS9475	2033	681	226	96085858	96232013	1	None	OSP-L, CPETRL3
13	CLDN10	ENSG00000134873	ENST00000299339	protein_coding	KNOWN	CCDS9476	2033	687	228	96204979	96230501	1	None	OSP-L, CPETRL3
13	CLDN10	ENSG00000134873	ENST00000376855	protein_coding	KNOWN	None	2033	222	73	96212404	96213192	1	None	OSP-L, CPETRL3
12	KRT1	ENSG00000167768	ENST00000252244	protein_coding	KNOWN	CCDS8836	6412	1935	644	53068520	53074191	-1	EHK1	KRT1A
12	KRT1	ENSG00000167768	ENST00000548765	retained_intron	KNOWN	None	6412	None	None	53069507	53071301	-1	EHK1	KRT1A
2	TTC21B	ENSG00000123607	ENST00000489714	processed_transcript	KNOWN	None	25660	None	None	166713985	166727501	-1	None	FLJ11457, JBTS11, NPHP12, IFT139
2	TTC21B	ENSG00000123607	ENST00000486672	retained_intron	KNOWN	None	25660	None	None	166713985	166727721	-1	None	FLJ11457, JBTS11, NPHP12, IFT139
2	TTC21B	ENSG00000123607	ENST00000392695	nonsense_mediated_decay	KNOWN	None	25660	851	282	166713988	166747151	-1	None	FLJ11457, JBTS11, NPHP12, IFT139
2	TTC21B	ENSG00000123607	ENST00000243344	protein_coding	KNOWN	CCDS33315	25660	3951	1316	166729872	166810353	-1	None	FLJ11457, JBTS11, NPHP12, IFT139
2	TTC21B	ENSG00000123607	ENST00000497425	processed_transcript	PUTATIVE	None	25660	None	None	166736144	166740465	-1	None	FLJ11457, JBTS11, NPHP12, IFT139
2	TTC21B	ENSG00000123607	ENST00000484129	retained_intron	KNOWN	None	25660	None	None	166755137	166764230	-1	None	FLJ11457, JBTS11, NPHP12, IFT139
2	TTC21B	ENSG00000123607	ENST00000464374	retained_intron	KNOWN	None	25660	None	None	166785227	166810255	-1	None	FLJ11457, JBTS11, NPHP12, IFT139
2	TTC21B	ENSG00000123607	ENST00000476227	retained_intron	KNOWN	None	25660	None	None	166805621	166810321	-1	None	FLJ11457, JBTS11, NPHP12, IFT139
2	TTC21B	ENSG00000123607	ENST00000536175	protein_coding	KNOWN	None	25660	765	254	166713988	166747365	-1	None	FLJ11457, JBTS11, NPHP12, IFT139
HSCHR6_MHC_DBB	TRIM26	ENSG00000226060	ENST00000487616	retained_intron	KNOWN	None	12962	None	None	30142515	30148461	-1	ZNF173	RNF95
HSCHR6_MHC_DBB	TRIM26	ENSG00000226060	ENST00000433314	protein_coding	KNOWN	None	12962	1620	539	30142515	30162835	-1	ZNF173	RNF95
HSCHR6_MHC_DBB	TRIM26	ENSG00000226060	ENST00000447711	protein_coding	KNOWN	None	12962	1620	539	30142515	30171430	-1	ZNF173	RNF95
HSCHR6_MHC_DBB	TRIM26	ENSG00000226060	ENST00000456093	protein_coding	KNOWN	None	12962	1620	539	30142515	30171491	-1	ZNF173	RNF95
HSCHR6_MHC_DBB	TRIM26	ENSG00000226060	ENST00000438785	protein_coding	KNOWN	None	12962	745	247	30154606	30171483	-1	ZNF173	RNF95
HSCHR6_MHC_DBB	TRIM26	ENSG00000226060	ENST00000415966	protein_coding	KNOWN	None	12962	477	158	30154649	30162791	-1	ZNF173	RNF95
HSCHR6_MHC_DBB	TRIM26	ENSG00000226060	ENST00000433836	protein_coding	KNOWN	None	12962	472	156	30156561	30171449	-1	ZNF173	RNF95
HSCHR6_MHC_DBB	TRIM26	ENSG00000226060	ENST00000429583	protein_coding	KNOWN	None	12962	366	121	30156808	30171430	-1	ZNF173	RNF95
HSCHR6_MHC_DBB	TRIM26	ENSG00000226060	ENST00000486529	processed_transcript	KNOWN	None	12962	None	None	30156834	30171429	-1	ZNF173	RNF95
1	SHISA4	ENSG00000198892	ENST00000464117	processed_transcript	KNOWN	None	27139	None	None	201857808	201861265	1	C1orf40, TMEM58	hShisa4
1	SHISA4	ENSG00000198892	ENST00000362011	protein_coding	KNOWN	CCDS1416	27139	594	197	201857836	201861434	1	C1orf40, TMEM58	hShisa4
1	SHISA4	ENSG00000198892	ENST00000481699	processed_transcript	KNOWN	None	27139	None	None	201858062	201859621	1	C1orf40, TMEM58	hShisa4
22	PIM3	ENSG00000198355	ENST00000360612	protein_coding	KNOWN	CCDS33678	19310	981	326	50354161	50357728	1	None	None
22	PIM3	ENSG00000198355	ENST00000467480	retained_intron	KNOWN	None	19310	None	None	50354416	50355294	1	None	None
17	ACADVL	ENSG00000072778	ENST00000543245	protein_coding	PUTATIVE	CCDS58509	92	2037	678	7120444	7128585	1	None	VLCAD, LCACD, ACAD6
17	ACADVL	ENSG00000072778	ENST00000356839	protein_coding	KNOWN	CCDS11090	92	1968	655	7123125	7128592	1	None	VLCAD, LCACD, ACAD6
17	ACADVL	ENSG00000072778	ENST00000322910	nonsense_mediated_decay	KNOWN	None	92	120	39	7123163	7128584	1	None	VLCAD, LCACD, ACAD6
17	ACADVL	ENSG00000072778	ENST00000582356	retained_intron	KNOWN	None	92	None	None	7123179	7124241	1	None	VLCAD, LCACD, ACAD6
17	ACADVL	ENSG00000072778	ENST00000583312	protein_coding	NOVEL	None	92	674	223	7123179	7125307	1	None	VLCAD, LCACD, ACAD6
17	ACADVL	ENSG00000072778	ENST00000350303	protein_coding	KNOWN	CCDS42249	92	1902	633	7123182	7128583	1	None	VLCAD, LCACD, ACAD6
17	ACADVL	ENSG00000072778	ENST00000578269	retained_intron	KNOWN	None	92	None	None	7123197	7123995	1	None	VLCAD, LCACD, ACAD6
17	ACADVL	ENSG00000072778	ENST00000579286	retained_intron	KNOWN	None	92	None	None	7123197	7125400	1	None	VLCAD, LCACD, ACAD6
17	ACADVL	ENSG00000072778	ENST00000580263	retained_intron	KNOWN	None	92	None	None	7123214	7124099	1	None	VLCAD, LCACD, ACAD6
17	ACADVL	ENSG00000072778	ENST00000582056	retained_intron	KNOWN	None	92	None	None	7123214	7124455	1	None	VLCAD, LCACD, ACAD6
17	ACADVL	ENSG00000072778	ENST00000577857	processed_transcript	KNOWN	None	92	None	None	7123214	7125398	1	None	VLCAD, LCACD, ACAD6
17	ACADVL	ENSG00000072778	ENST00000584103	protein_coding	NOVEL	None	92	473	156	7123222	7124340	1	None	VLCAD, LCACD, ACAD6
17	ACADVL	ENSG00000072778	ENST00000577191	retained_intron	KNOWN	None	92	None	None	7123227	7125783	1	None	VLCAD, LCACD, ACAD6
17	ACADVL	ENSG00000072778	ENST00000578421	retained_intron	KNOWN	None	92	None	None	7123245	7124058	1	None	VLCAD, LCACD, ACAD6
17	ACADVL	ENSG00000072778	ENST00000581562	processed_transcript	KNOWN	None	92	None	None	7123257	7125317	1	None	VLCAD, LCACD, ACAD6
17	ACADVL	ENSG00000072778	ENST00000579886	protein_coding	NOVEL	None	92	465	154	7123267	7125275	1	None	VLCAD, LCACD, ACAD6
17	ACADVL	ENSG00000072778	ENST00000577433	retained_intron	KNOWN	None	92	None	None	7123511	7124974	1	None	VLCAD, LCACD, ACAD6
17	ACADVL	ENSG00000072778	ENST00000582166	retained_intron	KNOWN	None	92	None	None	7123757	7124948	1	None	VLCAD, LCACD, ACAD6
17	ACADVL	ENSG00000072778	ENST00000580365	retained_intron	KNOWN	None	92	None	None	7124077	7125411	1	None	VLCAD, LCACD, ACAD6
17	ACADVL	ENSG00000072778	ENST00000581378	nonsense_mediated_decay	KNOWN	None	92	230	75	7124109	7126141	1	None	VLCAD, LCACD, ACAD6
17	ACADVL	ENSG00000072778	ENST00000583760	retained_intron	KNOWN	None	92	None	None	7124598	7125465	1	None	VLCAD, LCACD, ACAD6
17	ACADVL	ENSG00000072778	ENST00000582379	retained_intron	KNOWN	None	92	None	None	7125265	7126556	1	None	VLCAD, LCACD, ACAD6
17	ACADVL	ENSG00000072778	ENST00000578824	retained_intron	KNOWN	None	92	None	None	7125959	7127166	1	None	VLCAD, LCACD, ACAD6
17	ACADVL	ENSG00000072778	ENST00000583858	nonsense_mediated_decay	KNOWN	None	92	613	203	7126079	7128532	1	None	VLCAD, LCACD, ACAD6
17	ACADVL	ENSG00000072778	ENST00000585203	retained_intron	KNOWN	None	92	None	None	7126167	7128132	1	None	VLCAD, LCACD, ACAD6
17	ACADVL	ENSG00000072778	ENST00000579425	retained_intron	KNOWN	None	92	None	None	7126351	7128566	1	None	VLCAD, LCACD, ACAD6
17	ACADVL	ENSG00000072778	ENST00000578579	retained_intron	KNOWN	None	92	None	None	7126426	7127149	1	None	VLCAD, LCACD, ACAD6
17	ACADVL	ENSG00000072778	ENST00000542255	protein_coding	PUTATIVE	None	92	847	281	7126517	7128585	1	None	VLCAD, LCACD, ACAD6
17	ACADVL	ENSG00000072778	ENST00000579546	protein_coding	NOVEL	None	92	582	193	7126538	7128295	1	None	VLCAD, LCACD, ACAD6
17	ACADVL	ENSG00000072778	ENST00000578711	retained_intron	KNOWN	None	92	None	None	7126824	7128555	1	None	VLCAD, LCACD, ACAD6
17	ACADVL	ENSG00000072778	ENST00000583850	retained_intron	KNOWN	None	92	None	None	7127006	7128580	1	None	VLCAD, LCACD, ACAD6
17	ACADVL	ENSG00000072778	ENST00000583074	processed_transcript	KNOWN	None	92	None	None	7127144	7128144	1	None	VLCAD, LCACD, ACAD6
17	ACADVL	ENSG00000072778	ENST00000579894	retained_intron	KNOWN	None	92	None	None	7127244	7127835	1	None	VLCAD, LCACD, ACAD6
17	ACADVL	ENSG00000072778	ENST00000579391	retained_intron	KNOWN	None	92	None	None	7127423	7127930	1	None	VLCAD, LCACD, ACAD6
17	ACADVL	ENSG00000072778	ENST00000578809	retained_intron	KNOWN	None	92	None	None	7127536	7128585	1	None	VLCAD, LCACD, ACAD6
17	ACADVL	ENSG00000072778	ENST00000578319	retained_intron	KNOWN	None	92	None	None	7127536	7128585	1	None	VLCAD, LCACD, ACAD6
17	ACADVL	ENSG00000072778	ENST00000582450	retained_intron	KNOWN	None	92	None	None	7127600	7127979	1	None	VLCAD, LCACD, ACAD6
17	ACADVL	ENSG00000072778	ENST00000583848	nonsense_mediated_decay	KNOWN	None	92	138	45	7127808	7128585	1	None	VLCAD, LCACD, ACAD6
17	ACADVL	ENSG00000072778	ENST00000578033	retained_intron	KNOWN	None	92	None	None	7127952	7128585	1	None	VLCAD, LCACD, ACAD6
22	DDTL	ENSG00000099974	ENST00000215770	protein_coding	NOVEL	CCDS42988	33446	405	134	24309089	24314721	1	None	None
21	None	ENSG00000259981	ENST00000565564	lincRNA	KNOWN	None	None	None	None	31462035	31470154	1	None	None
1	WDR3	ENSG00000065183	ENST00000487202	processed_transcript	KNOWN	None	12755	None	None	118472347	118481181	1	None	FLJ12796, UTP12, DIP2
1	WDR3	ENSG00000065183	ENST00000349139	protein_coding	KNOWN	CCDS898	12755	2832	943	118472391	118503049	1	None	FLJ12796, UTP12, DIP2
1	WDR3	ENSG00000065183	ENST00000471680	processed_transcript	KNOWN	None	12755	None	None	118472398	118481152	1	None	FLJ12796, UTP12, DIP2
1	WDR3	ENSG00000065183	ENST00000369441	protein_coding	KNOWN	None	12755	123	40	118472343	118484411	1	None	FLJ12796, UTP12, DIP2
5	C5orf15	ENSG00000113583	ENST00000231512	protein_coding	KNOWN	CCDS4167	20656	798	265	133291201	133304478	-1	None	KCT2, HTGN29
5	C5orf15	ENSG00000113583	ENST00000507191	processed_transcript	KNOWN	None	20656	None	None	133295226	133304365	-1	None	KCT2, HTGN29
5	C5orf15	ENSG00000113583	ENST00000509913	processed_transcript	KNOWN	None	20656	None	None	133295469	133304316	-1	None	KCT2, HTGN29
11	None	ENSG00000256591	ENST00000544025	processed_transcript	KNOWN	None	None	None	None	61196692	61249351	1	None	None
11	None	ENSG00000256591	ENST00000541135	protein_coding	PUTATIVE	None	None	489	162	61197528	61249314	1	None	None
11	None	ENSG00000256591	ENST00000536670	retained_intron	KNOWN	None	None	None	None	61197593	61236188	1	None	None
11	None	ENSG00000256591	ENST00000538594	nonsense_mediated_decay	KNOWN	None	None	402	133	61197597	61252199	1	None	None
11	None	ENSG00000256591	ENST00000544801	nonsense_mediated_decay	KNOWN	None	None	402	133	61197598	61252234	1	None	None
11	None	ENSG00000256591	ENST00000544880	processed_transcript	KNOWN	None	None	None	None	61197615	61253294	1	None	None
11	None	ENSG00000256591	ENST00000543044	nonsense_mediated_decay	KNOWN	None	None	465	154	61197622	61249870	1	None	None
1	GRIK3	ENSG00000163873	ENST00000373091	protein_coding	KNOWN	CCDS416	4581	2760	919	37261128	37499726	-1	None	GluK3, GLUR7
1	GRIK3	ENSG00000163873	ENST00000373093	protein_coding	KNOWN	None	4581	2619	872	37270219	37499730	-1	None	GluK3, GLUR7
1	GRIK3	ENSG00000163873	ENST00000462621	processed_transcript	KNOWN	None	4581	None	None	37315275	37324737	-1	None	GluK3, GLUR7
1	GRIK3	ENSG00000163873	ENST00000479620	processed_transcript	KNOWN	None	4581	None	None	37315549	37319288	-1	None	GluK3, GLUR7
1	LMOD1	ENSG00000163431	ENST00000367288	protein_coding	KNOWN	CCDS53457	6647	1803	600	201865580	201915715	-1	None	64kD, D1, 1D
10	RPL5P26	ENSG00000230469	ENST00000438138	processed_pseudogene	KNOWN	None	36247	None	None	71538718	71539594	1	None	None
20	SPATA2	ENSG00000158480	ENST00000289431	protein_coding	KNOWN	CCDS13422	14681	1563	520	48519928	48532045	-1	None	KIAA0757, PD1, tamo
20	SPATA2	ENSG00000158480	ENST00000422556	protein_coding	KNOWN	CCDS13422	14681	1563	520	48519931	48530276	-1	None	KIAA0757, PD1, tamo
20	SPATA2	ENSG00000158480	ENST00000543716	protein_coding	KNOWN	None	14681	1152	383	48521878	48532080	-1	None	KIAA0757, PD1, tamo
Y	TTTY20	ENSG00000232808	ENST00000434487	antisense	KNOWN	None	18844	None	None	9167489	9172441	-1	None	NCRNA00145
14	None	ENSG00000258869	ENST00000555187	protein_coding	NOVEL	None	None	249	82	98215601	98229168	-1	None	None
14	None	ENSG00000258869	ENST00000557296	protein_coding	NOVEL	None	None	249	82	98217901	98230326	-1	None	None
Y	FAM197Y8	ENSG00000225560	ENST00000426661	antisense	KNOWN	None	37470	None	None	9185120	9193010	-1	None	None
Y	FAM197Y8	ENSG00000225560	ENST00000432394	antisense	KNOWN	None	37470	None	None	9187188	9192791	-1	None	None
1	TIMM17A	ENSG00000134375	ENST00000367287	protein_coding	KNOWN	CCDS1417	17315	516	171	201924619	201939789	1	None	TIM17, TIM17A
1	TIMM17A	ENSG00000134375	ENST00000478378	processed_transcript	KNOWN	None	17315	None	None	201924634	201938845	1	None	TIM17, TIM17A
1	TIMM17A	ENSG00000134375	ENST00000484647	processed_transcript	KNOWN	None	17315	None	None	201924638	201927156	1	None	TIM17, TIM17A
1	TIMM17A	ENSG00000134375	ENST00000482943	processed_transcript	KNOWN	None	17315	None	None	201931344	201939479	1	None	TIM17, TIM17A
18	ABHD3	ENSG00000158201	ENST00000289119	protein_coding	KNOWN	CCDS32802	18718	1230	409	19230858	19284766	-1	None	LABH3
18	ABHD3	ENSG00000158201	ENST00000580981	protein_coding	NOVEL	None	18718	1071	356	19230889	19284728	-1	None	LABH3
18	ABHD3	ENSG00000158201	ENST00000578270	protein_coding	PUTATIVE	None	18718	645	214	19231058	19283786	-1	None	LABH3
18	ABHD3	ENSG00000158201	ENST00000577564	retained_intron	KNOWN	None	18718	None	None	19231654	19244495	-1	None	LABH3
18	ABHD3	ENSG00000158201	ENST00000580477	protein_coding	PUTATIVE	None	18718	113	36	19234850	19236917	-1	None	LABH3
18	ABHD3	ENSG00000158201	ENST00000577891	nonsense_mediated_decay	KNOWN	None	18718	411	136	19239141	19284735	-1	None	LABH3
18	ABHD3	ENSG00000158201	ENST00000579875	processed_transcript	KNOWN	None	18718	None	None	19243811	19284601	-1	None	LABH3
18	ABHD3	ENSG00000158201	ENST00000584464	protein_coding	PUTATIVE	None	18718	337	111	19262861	19283649	-1	None	LABH3
18	ABHD3	ENSG00000158201	ENST00000577928	retained_intron	KNOWN	None	18718	None	None	19263742	19284536	-1	None	LABH3
18	ABHD3	ENSG00000158201	ENST00000579982	retained_intron	KNOWN	None	18718	None	None	19281237	19284741	-1	None	LABH3
22	IL17REL	ENSG00000188263	ENST00000389983	protein_coding	NOVEL	CCDS33679	33808	1011	336	50432942	50451088	-1	None	FLJ41993
22	IL17REL	ENSG00000188263	ENST00000341280	protein_coding	KNOWN	CCDS33679	33808	1011	336	50432942	50447121	-1	None	FLJ41993
Y	FAM197Y7	ENSG00000228383	ENST00000433321	antisense	KNOWN	None	37469	None	None	9205412	9213290	-1	None	None
Y	FAM197Y7	ENSG00000228383	ENST00000436801	antisense	KNOWN	None	37469	None	None	9207466	9213071	-1	None	None
Y	FAM197Y7	ENSG00000228383	ENST00000452256	antisense	KNOWN	None	37469	None	None	9212578	9235047	-1	None	None
Y	FAM197Y7	ENSG00000228383	ENST00000432892	antisense	KNOWN	None	37469	None	None	9212578	9214701	-1	None	None
Y	FAM197Y7	ENSG00000228383	ENST00000420524	antisense	KNOWN	None	37469	None	None	9232924	9235047	-1	None	None
5	ZNF608	ENSG00000168916	ENST00000513985	processed_transcript	KNOWN	None	29238	None	None	123972608	123980030	-1	None	KIAA1281, DKFZp434M098, NY-REN-36
5	ZNF608	ENSG00000168916	ENST00000504926	protein_coding	KNOWN	None	29238	3258	1085	123972609	124080214	-1	None	KIAA1281, DKFZp434M098, NY-REN-36
5	ZNF608	ENSG00000168916	ENST00000306315	protein_coding	KNOWN	CCDS34219	29238	4539	1512	123972610	124081118	-1	None	KIAA1281, DKFZp434M098, NY-REN-36
5	ZNF608	ENSG00000168916	ENST00000505686	nonsense_mediated_decay	KNOWN	None	29238	1344	447	123972971	124080774	-1	None	KIAA1281, DKFZp434M098, NY-REN-36
5	ZNF608	ENSG00000168916	ENST00000503896	processed_transcript	KNOWN	None	29238	None	None	123979204	124080060	-1	None	KIAA1281, DKFZp434M098, NY-REN-36
5	ZNF608	ENSG00000168916	ENST00000509799	protein_coding	PUTATIVE	None	29238	2147	714	123983930	124084500	-1	None	KIAA1281, DKFZp434M098, NY-REN-36
5	ZNF608	ENSG00000168916	ENST00000513986	protein_coding	PUTATIVE	None	29238	2121	706	123983956	124082320	-1	None	KIAA1281, DKFZp434M098, NY-REN-36
5	ZNF608	ENSG00000168916	ENST00000507508	processed_transcript	KNOWN	None	29238	None	None	123984590	124036931	-1	None	KIAA1281, DKFZp434M098, NY-REN-36
5	ZNF608	ENSG00000168916	ENST00000511308	processed_transcript	PUTATIVE	None	29238	None	None	124001964	124036962	-1	None	KIAA1281, DKFZp434M098, NY-REN-36
5	ZNF608	ENSG00000168916	ENST00000512940	processed_transcript	PUTATIVE	None	29238	None	None	124080349	124081767	-1	None	KIAA1281, DKFZp434M098, NY-REN-36
1	ZC3H12A	ENSG00000163874	ENST00000373087	protein_coding	KNOWN	CCDS417	26259	1800	599	37940153	37949980	1	None	FLJ23231, MCPIP1
1	ZC3H12A	ENSG00000163874	ENST00000472312	retained_intron	KNOWN	None	26259	None	None	37945600	37947363	1	None	FLJ23231, MCPIP1
1	ZC3H12A	ENSG00000163874	ENST00000471012	protein_coding	PUTATIVE	None	26259	395	130	37947291	37948203	1	None	FLJ23231, MCPIP1
14	C14orf64	ENSG00000246223	ENST00000499006	protein_coding	NOVEL	None	20111	414	137	98391947	98444461	-1	None	None
14	C14orf64	ENSG00000246223	ENST00000556462	protein_coding	PUTATIVE	None	20111	269	88	98399399	98444393	-1	None	None
14	C14orf64	ENSG00000246223	ENST00000502187	nonsense_mediated_decay	KNOWN	None	20111	400	132	98424267	98444447	-1	None	None
14	C14orf64	ENSG00000246223	ENST00000512901	protein_coding	PUTATIVE	None	20111	398	131	98424373	98444445	-1	None	None
14	C14orf64	ENSG00000246223	ENST00000554822	protein_coding	PUTATIVE	None	20111	336	111	98426248	98444383	-1	None	None
14	C14orf64	ENSG00000246223	ENST00000556138	protein_coding	PUTATIVE	None	20111	355	117	98435179	98444402	-1	None	None
17	MYCBPAP	ENSG00000136449	ENST00000323776	protein_coding	KNOWN	CCDS32680	19677	2955	984	48585745	48608858	1	None	AMAP-1, DKFZp434N1415
17	MYCBPAP	ENSG00000136449	ENST00000470609	retained_intron	KNOWN	None	19677	None	None	48585786	48600027	1	None	AMAP-1, DKFZp434N1415
17	MYCBPAP	ENSG00000136449	ENST00000576179	protein_coding	NOVEL	None	19677	440	145	48585810	48593454	1	None	AMAP-1, DKFZp434N1415
17	MYCBPAP	ENSG00000136449	ENST00000419930	protein_coding	PUTATIVE	None	19677	270	89	48585851	48587781	1	None	AMAP-1, DKFZp434N1415
17	MYCBPAP	ENSG00000136449	ENST00000452039	protein_coding	NOVEL	None	19677	942	313	48585902	48596450	1	None	AMAP-1, DKFZp434N1415
17	MYCBPAP	ENSG00000136449	ENST00000458692	nonsense_mediated_decay	KNOWN	None	19677	293	96	48585949	48595994	1	None	AMAP-1, DKFZp434N1415
17	MYCBPAP	ENSG00000136449	ENST00000437498	nonsense_mediated_decay	KNOWN	None	19677	2864	953	48585983	48608858	1	None	AMAP-1, DKFZp434N1415
17	MYCBPAP	ENSG00000136449	ENST00000468821	processed_transcript	PUTATIVE	None	19677	None	None	48596771	48597582	1	None	AMAP-1, DKFZp434N1415
17	MYCBPAP	ENSG00000136449	ENST00000459754	retained_intron	KNOWN	None	19677	None	None	48598355	48600413	1	None	AMAP-1, DKFZp434N1415
17	MYCBPAP	ENSG00000136449	ENST00000488432	protein_coding	PUTATIVE	None	19677	320	105	48601081	48608862	1	None	AMAP-1, DKFZp434N1415
17	MYCBPAP	ENSG00000136449	ENST00000485169	nonsense_mediated_decay	KNOWN	None	19677	325	107	48603334	48606201	1	None	AMAP-1, DKFZp434N1415
17	MYCBPAP	ENSG00000136449	ENST00000477744	nonsense_mediated_decay	KNOWN	None	19677	146	47	48606539	48608861	1	None	AMAP-1, DKFZp434N1415
17	MYCBPAP	ENSG00000136449	ENST00000573066	retained_intron	KNOWN	None	19677	None	None	48607515	48608862	1	None	AMAP-1, DKFZp434N1415
17	MYCBPAP	ENSG00000136449	ENST00000436259	protein_coding	KNOWN	None	19677	2829	942	48585983	48608861	1	None	AMAP-1, DKFZp434N1415
HSCHR6_MHC_SSTO	None	ENSG00000267840	ENST00000600578	protein_coding	NOVEL	None	None	72	23	31474452	31474925	1	None	None
5	LYSMD3	ENSG00000176018	ENST00000500869	protein_coding	PUTATIVE	None	26969	453	150	89811428	89825378	-1	None	FLJ13542
5	LYSMD3	ENSG00000176018	ENST00000315948	protein_coding	KNOWN	CCDS43338	26969	921	306	89811443	89825398	-1	None	FLJ13542
5	LYSMD3	ENSG00000176018	ENST00000509384	protein_coding	KNOWN	None	26969	384	127	89814108	89825401	-1	None	FLJ13542
5	LYSMD3	ENSG00000176018	ENST00000453259	nonsense_mediated_decay	KNOWN	None	26969	273	90	89815250	89825401	-1	None	FLJ13542
HSCHR6_MHC_SSTO	MCCD1	ENSG00000226841	ENST00000422733	protein_coding	KNOWN	None	20668	360	119	31486441	31487956	1	None	None
20	RNF114	ENSG00000124226	ENST00000244061	protein_coding	KNOWN	CCDS33482	13094	687	228	48552948	48570429	1	ZNF313	PSORS12
7	GPR22	ENSG00000172209	ENST00000473300	processed_transcript	KNOWN	None	4477	None	None	107110463	107111994	1	None	None
7	GPR22	ENSG00000172209	ENST00000304402	protein_coding	KNOWN	CCDS5744	4477	1302	433	107110505	107116098	1	None	None
7	GPR22	ENSG00000172209	ENST00000496754	retained_intron	KNOWN	None	4477	None	None	107110686	107113456	1	None	None
14	C14orf177	ENSG00000176605	ENST00000325812	protein_coding	KNOWN	CCDS9948	26375	378	125	99177950	99184098	1	None	FLJ25773
14	C14orf177	ENSG00000176605	ENST00000541516	protein_coding	KNOWN	None	26375	225	74	99177957	99183458	1	None	FLJ25773
14	C14orf177	ENSG00000176605	ENST00000546029	processed_transcript	KNOWN	None	26375	None	None	99177999	99182510	1	None	FLJ25773
HSCHR6_MHC_SSTO	None	ENSG00000254899	ENST00000453381	nonsense_mediated_decay	KNOWN	None	None	300	99	31487943	31504306	-1	None	None
3	EXOSC7	ENSG00000075914	ENST00000461361	processed_transcript	KNOWN	None	28112	None	None	45016733	45054158	1	None	hRrp42p, Rrp42p, RRP42, EAP1, KIAA0116, p8
3	EXOSC7	ENSG00000075914	ENST00000477865	processed_transcript	PUTATIVE	None	28112	None	None	45016849	45030734	1	None	hRrp42p, Rrp42p, RRP42, EAP1, KIAA0116, p8
3	EXOSC7	ENSG00000075914	ENST00000482004	processed_transcript	KNOWN	None	28112	None	None	45016960	45046867	1	None	hRrp42p, Rrp42p, RRP42, EAP1, KIAA0116, p8
3	EXOSC7	ENSG00000075914	ENST00000265564	protein_coding	KNOWN	CCDS2725	28112	876	291	45017722	45052962	1	None	hRrp42p, Rrp42p, RRP42, EAP1, KIAA0116, p8
3	EXOSC7	ENSG00000075914	ENST00000467846	retained_intron	KNOWN	None	28112	None	None	45017743	45043731	1	None	hRrp42p, Rrp42p, RRP42, EAP1, KIAA0116, p8
3	EXOSC7	ENSG00000075914	ENST00000468667	processed_transcript	KNOWN	None	28112	None	None	45017743	45053745	1	None	hRrp42p, Rrp42p, RRP42, EAP1, KIAA0116, p8
3	EXOSC7	ENSG00000075914	ENST00000491476	processed_transcript	KNOWN	None	28112	None	None	45017756	45054125	1	None	hRrp42p, Rrp42p, RRP42, EAP1, KIAA0116, p8
3	EXOSC7	ENSG00000075914	ENST00000481405	processed_transcript	PUTATIVE	None	28112	None	None	45017768	45077558	1	None	hRrp42p, Rrp42p, RRP42, EAP1, KIAA0116, p8
3	EXOSC7	ENSG00000075914	ENST00000498168	processed_transcript	PUTATIVE	None	28112	None	None	45018584	45030734	1	None	hRrp42p, Rrp42p, RRP42, EAP1, KIAA0116, p8
3	EXOSC7	ENSG00000075914	ENST00000486727	retained_intron	KNOWN	None	28112	None	None	45045652	45052962	1	None	hRrp42p, Rrp42p, RRP42, EAP1, KIAA0116, p8
3	EXOSC7	ENSG00000075914	ENST00000459856	processed_transcript	PUTATIVE	None	28112	None	None	45052725	45054160	1	None	hRrp42p, Rrp42p, RRP42, EAP1, KIAA0116, p8
19	CEACAM4	ENSG00000105352	ENST00000221954	protein_coding	KNOWN	CCDS33033	1816	735	244	42125344	42133442	-1	CGM7	None
19	CEACAM4	ENSG00000105352	ENST00000600925	protein_coding	PUTATIVE	None	1816	765	254	42125918	42133442	-1	CGM7	None
19	CEACAM4	ENSG00000105352	ENST00000472081	retained_intron	KNOWN	None	1816	None	None	42131941	42133442	-1	CGM7	None
HSCHR6_MHC_MANN	PRRC2A	ENSG00000226618	ENST00000458561	protein_coding	KNOWN	None	13918	6474	2157	31627984	31645035	1	BAT2	G2, D6S51E
HSCHR6_MHC_MANN	PRRC2A	ENSG00000226618	ENST00000466607	processed_transcript	KNOWN	None	13918	None	None	31627988	31634126	1	BAT2	G2, D6S51E
HSCHR6_MHC_MANN	PRRC2A	ENSG00000226618	ENST00000414956	protein_coding	KNOWN	None	13918	6474	2157	31627989	31645035	1	BAT2	G2, D6S51E
HSCHR6_MHC_MANN	PRRC2A	ENSG00000226618	ENST00000463767	retained_intron	KNOWN	None	13918	None	None	31632166	31632761	1	BAT2	G2, D6S51E
HSCHR6_MHC_MANN	PRRC2A	ENSG00000226618	ENST00000460691	retained_intron	KNOWN	None	13918	None	None	31633018	31634338	1	BAT2	G2, D6S51E
HSCHR6_MHC_MANN	PRRC2A	ENSG00000226618	ENST00000474679	retained_intron	KNOWN	None	13918	None	None	31635904	31637032	1	BAT2	G2, D6S51E
HSCHR6_MHC_MANN	PRRC2A	ENSG00000226618	ENST00000461355	retained_intron	KNOWN	None	13918	None	None	31641218	31642020	1	BAT2	G2, D6S51E
HSCHR6_MHC_MANN	PRRC2A	ENSG00000226618	ENST00000481184	retained_intron	KNOWN	None	13918	None	None	31641671	31642580	1	BAT2	G2, D6S51E
HSCHR6_MHC_MANN	PRRC2A	ENSG00000226618	ENST00000473354	retained_intron	KNOWN	None	13918	None	None	31642506	31642973	1	BAT2	G2, D6S51E
HSCHR6_MHC_MANN	PRRC2A	ENSG00000226618	ENST00000459675	retained_intron	KNOWN	None	13918	None	None	31642624	31643514	1	BAT2	G2, D6S51E
HSCHR6_MHC_MANN	PRRC2A	ENSG00000226618	ENST00000464692	retained_intron	KNOWN	None	13918	None	None	31642640	31644075	1	BAT2	G2, D6S51E
HSCHR6_MHC_MANN	PRRC2A	ENSG00000226618	ENST00000492415	retained_intron	KNOWN	None	13918	None	None	31643511	31645035	1	BAT2	G2, D6S51E
HSCHR6_MHC_MANN	PRRC2A	ENSG00000226618	ENST00000459823	retained_intron	KNOWN	None	13918	None	None	31643800	31645035	1	BAT2	G2, D6S51E
HSCHR6_MHC_MANN	PRRC2A	ENSG00000226618	ENST00000473148	retained_intron	KNOWN	None	13918	None	None	31644099	31645035	1	BAT2	G2, D6S51E
HSCHR6_MHC_MANN	PRRC2A	ENSG00000226618	ENST00000547056	protein_coding	KNOWN	None	13918	6450	2149	31627937	31645024	1	BAT2	G2, D6S51E
HSCHR6_MHC_MANN	PRRC2A	ENSG00000226618	ENST00000549383	protein_coding	KNOWN	None	13918	6417	2138	31627937	31645024	1	BAT2	G2, D6S51E
10	SEC23IP	ENSG00000107651	ENST00000369075	protein_coding	KNOWN	CCDS7618	17018	3003	1000	121652223	121701658	1	None	p125
10	SEC23IP	ENSG00000107651	ENST00000470478	processed_transcript	KNOWN	None	17018	None	None	121652257	121657839	1	None	p125
10	SEC23IP	ENSG00000107651	ENST00000442952	protein_coding	KNOWN	None	17018	460	152	121662319	121664174	1	None	p125
10	SEC23IP	ENSG00000107651	ENST00000446561	protein_coding	KNOWN	None	17018	582	193	121662413	121675327	1	None	p125
10	SEC23IP	ENSG00000107651	ENST00000462222	processed_transcript	KNOWN	None	17018	None	None	121674012	121677437	1	None	p125
10	SEC23IP	ENSG00000107651	ENST00000475542	processed_transcript	KNOWN	None	17018	None	None	121689157	121693282	1	None	p125
10	SEC23IP	ENSG00000107651	ENST00000483890	processed_transcript	KNOWN	None	17018	None	None	121700693	121702014	1	None	p125
10	SEC23IP	ENSG00000107651	ENST00000543134	protein_coding	KNOWN	None	17018	2370	789	121652242	121700246	1	None	p125
20	DZANK1	ENSG00000089091	ENST00000476058	processed_transcript	KNOWN	None	15858	None	None	18364011	18375347	-1	C20orf84, C20orf12	FLJ10600, dJ568F9.2, FLJ30892, bA189K21.8, ANKRD64
20	DZANK1	ENSG00000089091	ENST00000377630	protein_coding	KNOWN	None	15858	1758	585	18364011	18447674	-1	C20orf84, C20orf12	FLJ10600, dJ568F9.2, FLJ30892, bA189K21.8, ANKRD64
20	DZANK1	ENSG00000089091	ENST00000358866	protein_coding	KNOWN	None	15858	1655	550	18364015	18429652	-1	C20orf84, C20orf12	FLJ10600, dJ568F9.2, FLJ30892, bA189K21.8, ANKRD64
20	DZANK1	ENSG00000089091	ENST00000487128	processed_transcript	KNOWN	None	15858	None	None	18364015	18435283	-1	C20orf84, C20orf12	FLJ10600, dJ568F9.2, FLJ30892, bA189K21.8, ANKRD64
20	DZANK1	ENSG00000089091	ENST00000480488	processed_transcript	KNOWN	None	15858	None	None	18374358	18393866	-1	C20orf84, C20orf12	FLJ10600, dJ568F9.2, FLJ30892, bA189K21.8, ANKRD64
20	DZANK1	ENSG00000089091	ENST00000460891	processed_transcript	KNOWN	None	15858	None	None	18378988	18447645	-1	C20orf84, C20orf12	FLJ10600, dJ568F9.2, FLJ30892, bA189K21.8, ANKRD64
20	DZANK1	ENSG00000089091	ENST00000470526	processed_transcript	KNOWN	None	15858	None	None	18393364	18429632	-1	C20orf84, C20orf12	FLJ10600, dJ568F9.2, FLJ30892, bA189K21.8, ANKRD64
20	DZANK1	ENSG00000089091	ENST00000262547	protein_coding	KNOWN	CCDS46582	15858	2259	752	18364013	18447829	-1	C20orf84, C20orf12	FLJ10600, dJ568F9.2, FLJ30892, bA189K21.8, ANKRD64
20	DZANK1	ENSG00000089091	ENST00000329494	protein_coding	KNOWN	None	15858	2193	730	18364013	18447829	-1	C20orf84, C20orf12	FLJ10600, dJ568F9.2, FLJ30892, bA189K21.8, ANKRD64
20	DZANK1	ENSG00000089091	ENST00000357236	protein_coding	KNOWN	None	15858	1917	638	18364013	18447829	-1	C20orf84, C20orf12	FLJ10600, dJ568F9.2, FLJ30892, bA189K21.8, ANKRD64
21	None	ENSG00000228120	ENST00000433840	protein_coding	PUTATIVE	None	None	687	228	44579176	44582387	-1	None	None
9	FOXB2	ENSG00000204612	ENST00000376708	protein_coding	KNOWN	CCDS35045	23315	1299	432	79634571	79635869	1	None	bA159H20.4
7	VOPP1	ENSG00000154978	ENST00000462326	processed_transcript	KNOWN	None	34518	None	None	55503749	55640106	-1	None	ECop, GASP, FLJ20532, DKFZp564K0822
7	VOPP1	ENSG00000154978	ENST00000285279	protein_coding	KNOWN	CCDS47588	34518	519	172	55538306	55640218	-1	None	ECop, GASP, FLJ20532, DKFZp564K0822
7	VOPP1	ENSG00000154978	ENST00000433959	protein_coding	PUTATIVE	None	34518	492	163	55538307	55605387	-1	None	ECop, GASP, FLJ20532, DKFZp564K0822
7	VOPP1	ENSG00000154978	ENST00000428648	protein_coding	PUTATIVE	None	34518	318	105	55538307	55639561	-1	None	ECop, GASP, FLJ20532, DKFZp564K0822
7	VOPP1	ENSG00000154978	ENST00000428097	protein_coding	PUTATIVE	None	34518	318	105	55539630	55594715	-1	None	ECop, GASP, FLJ20532, DKFZp564K0822
7	VOPP1	ENSG00000154978	ENST00000418904	protein_coding	PUTATIVE	None	34518	468	155	55539896	55620545	-1	None	ECop, GASP, FLJ20532, DKFZp564K0822
7	VOPP1	ENSG00000154978	ENST00000454227	protein_coding	PUTATIVE	None	34518	330	109	55540402	55621580	-1	None	ECop, GASP, FLJ20532, DKFZp564K0822
7	VOPP1	ENSG00000154978	ENST00000453256	protein_coding	PUTATIVE	None	34518	318	105	55540447	55583770	-1	None	ECop, GASP, FLJ20532, DKFZp564K0822
7	VOPP1	ENSG00000154978	ENST00000427700	protein_coding	PUTATIVE	None	34518	513	170	55540470	55639980	-1	None	ECop, GASP, FLJ20532, DKFZp564K0822
7	VOPP1	ENSG00000154978	ENST00000455023	protein_coding	PUTATIVE	None	34518	288	95	55540578	55607320	-1	None	ECop, GASP, FLJ20532, DKFZp564K0822
7	VOPP1	ENSG00000154978	ENST00000414113	protein_coding	PUTATIVE	None	34518	256	84	55540610	55605387	-1	None	ECop, GASP, FLJ20532, DKFZp564K0822
7	VOPP1	ENSG00000154978	ENST00000417399	protein_coding	PUTATIVE	None	34518	158	51	55540708	55589559	-1	None	ECop, GASP, FLJ20532, DKFZp564K0822
7	VOPP1	ENSG00000154978	ENST00000481197	retained_intron	KNOWN	None	34518	None	None	55559956	55589563	-1	None	ECop, GASP, FLJ20532, DKFZp564K0822
7	VOPP1	ENSG00000154978	ENST00000452832	protein_coding	PUTATIVE	None	34518	65	20	55560037	55640153	-1	None	ECop, GASP, FLJ20532, DKFZp564K0822
7	VOPP1	ENSG00000154978	ENST00000453112	nonsense_mediated_decay	KNOWN	None	34518	78	25	55560079	55640147	-1	None	ECop, GASP, FLJ20532, DKFZp564K0822
7	VOPP1	ENSG00000154978	ENST00000471168	processed_transcript	KNOWN	None	34518	None	None	55560533	55640681	-1	None	ECop, GASP, FLJ20532, DKFZp564K0822
7	VOPP1	ENSG00000154978	ENST00000545390	protein_coding	KNOWN	None	34518	510	169	55538307	55606350	-1	None	ECop, GASP, FLJ20532, DKFZp564K0822
4	None	ENSG00000246095	ENST00000503938	lincRNA	KNOWN	None	None	None	None	13547699	13548588	-1	None	None
4	None	ENSG00000246095	ENST00000501050	lincRNA	KNOWN	None	None	None	None	13547700	13549425	-1	None	None
14	BAZ1A	ENSG00000198604	ENST00000358716	protein_coding	KNOWN	CCDS41943	960	4575	1524	35221937	35344853	-1	None	hACF1, ACF1, WALp1, WCRF180
14	BAZ1A	ENSG00000198604	ENST00000382422	protein_coding	KNOWN	CCDS9651	960	4671	1556	35221938	35344138	-1	None	hACF1, ACF1, WALp1, WCRF180
14	BAZ1A	ENSG00000198604	ENST00000555331	nonsense_mediated_decay	KNOWN	None	960	37	11	35222440	35230982	-1	None	hACF1, ACF1, WALp1, WCRF180
14	BAZ1A	ENSG00000198604	ENST00000557739	retained_intron	KNOWN	None	960	None	None	35227772	35231142	-1	None	hACF1, ACF1, WALp1, WCRF180
14	BAZ1A	ENSG00000198604	ENST00000554865	nonsense_mediated_decay	KNOWN	None	960	229	75	35234088	35240865	-1	None	hACF1, ACF1, WALp1, WCRF180
14	BAZ1A	ENSG00000198604	ENST00000554391	retained_intron	KNOWN	None	960	None	None	35240381	35242932	-1	None	hACF1, ACF1, WALp1, WCRF180
14	BAZ1A	ENSG00000198604	ENST00000556314	retained_intron	KNOWN	None	960	None	None	35249295	35253131	-1	None	hACF1, ACF1, WALp1, WCRF180
14	BAZ1A	ENSG00000198604	ENST00000555273	retained_intron	KNOWN	None	960	None	None	35249383	35255297	-1	None	hACF1, ACF1, WALp1, WCRF180
14	BAZ1A	ENSG00000198604	ENST00000553385	retained_intron	KNOWN	None	960	None	None	35253102	35255807	-1	None	hACF1, ACF1, WALp1, WCRF180
14	BAZ1A	ENSG00000198604	ENST00000553573	nonsense_mediated_decay	KNOWN	None	960	233	76	35280148	35331313	-1	None	hACF1, ACF1, WALp1, WCRF180
14	BAZ1A	ENSG00000198604	ENST00000553853	processed_transcript	PUTATIVE	None	960	None	None	35297765	35331517	-1	None	hACF1, ACF1, WALp1, WCRF180
14	BAZ1A	ENSG00000198604	ENST00000360310	protein_coding	KNOWN	CCDS9651	960	4671	1556	35221943	35344853	-1	None	hACF1, ACF1, WALp1, WCRF180
16	GPRC5B	ENSG00000167191	ENST00000300571	protein_coding	KNOWN	CCDS10581	13308	1212	403	19868616	19896239	-1	None	RAIG-2
16	GPRC5B	ENSG00000167191	ENST00000569102	processed_transcript	PUTATIVE	None	13308	None	None	19868621	19869368	-1	None	RAIG-2
16	GPRC5B	ENSG00000167191	ENST00000535671	protein_coding	PUTATIVE	None	13308	1215	404	19869820	19884167	-1	None	RAIG-2
16	GPRC5B	ENSG00000167191	ENST00000562348	retained_intron	KNOWN	None	13308	None	None	19870293	19873662	-1	None	RAIG-2
16	GPRC5B	ENSG00000167191	ENST00000569479	protein_coding	KNOWN	CCDS10581	13308	1212	403	19870293	19897489	-1	None	RAIG-2
16	GPRC5B	ENSG00000167191	ENST00000569847	protein_coding	KNOWN	CCDS10581	13308	1212	403	19871730	19897049	-1	None	RAIG-2
16	GPRC5B	ENSG00000167191	ENST00000566822	protein_coding	KNOWN	None	13308	533	176	19883635	19893682	-1	None	RAIG-2
16	GPRC5B	ENSG00000167191	ENST00000562469	protein_coding	KNOWN	None	13308	445	147	19883723	19896226	-1	None	RAIG-2
16	GPRC5B	ENSG00000167191	ENST00000568214	protein_coding	KNOWN	None	13308	270	89	19883898	19897477	-1	None	RAIG-2
16	GPRC5B	ENSG00000167191	ENST00000570142	protein_coding	KNOWN	None	13308	259	85	19883909	19896186	-1	None	RAIG-2
16	GPRC5B	ENSG00000167191	ENST00000564449	protein_coding	KNOWN	None	13308	77	24	19884091	19896847	-1	None	RAIG-2
16	GPRC5B	ENSG00000167191	ENST00000537135	protein_coding	KNOWN	None	13308	1290	429	19871730	19896832	-1	None	RAIG-2
4	MIR5091	ENSG00000266240	ENST00000578707	miRNA	KNOWN	None	43478	None	None	13629489	13629581	1	None	hsa-mir-5091
4	None	ENSG00000249148	ENST00000510061	processed_pseudogene	KNOWN	None	None	None	None	13633444	13634223	-1	None	None
21	CRYAA	ENSG00000160202	ENST00000291554	protein_coding	KNOWN	CCDS13695	2388	522	173	44589118	44592915	1	CRYA1	HSPB4
21	CRYAA	ENSG00000160202	ENST00000482775	processed_transcript	KNOWN	None	2388	None	None	44589197	44592915	1	CRYA1	HSPB4
21	CRYAA	ENSG00000160202	ENST00000398133	protein_coding	PUTATIVE	None	2388	462	153	44589711	44592404	1	CRYA1	HSPB4
21	CRYAA	ENSG00000160202	ENST00000398132	protein_coding	PUTATIVE	None	2388	411	136	44590266	44592629	1	CRYA1	HSPB4
21	CRYAA	ENSG00000160202	ENST00000468016	retained_intron	KNOWN	None	2388	None	None	44590337	44592748	1	CRYA1	HSPB4
12	CCT2	ENSG00000166226	ENST00000299300	protein_coding	KNOWN	CCDS8991	1615	1608	535	69979114	69995350	1	None	Cctb
12	CCT2	ENSG00000166226	ENST00000546859	retained_intron	KNOWN	None	1615	None	None	69979206	69981952	1	None	Cctb
12	CCT2	ENSG00000166226	ENST00000549933	retained_intron	KNOWN	None	1615	None	None	69979239	69980927	1	None	Cctb
12	CCT2	ENSG00000166226	ENST00000550455	retained_intron	KNOWN	None	1615	None	None	69979239	69981558	1	None	Cctb
12	CCT2	ENSG00000166226	ENST00000550638	retained_intron	KNOWN	None	1615	None	None	69979239	69982216	1	None	Cctb
12	CCT2	ENSG00000166226	ENST00000551620	retained_intron	KNOWN	None	1615	None	None	69979239	69983531	1	None	Cctb
12	CCT2	ENSG00000166226	ENST00000551899	retained_intron	KNOWN	None	1615	None	None	69979240	69980705	1	None	Cctb
12	CCT2	ENSG00000166226	ENST00000544368	protein_coding	PUTATIVE	None	1615	1593	530	69979240	69995305	1	None	Cctb
12	CCT2	ENSG00000166226	ENST00000550010	nonsense_mediated_decay	KNOWN	None	1615	1251	416	69979252	69995305	1	None	Cctb
12	CCT2	ENSG00000166226	ENST00000543146	protein_coding	PUTATIVE	CCDS55843	1615	1467	488	69979446	69995345	1	None	Cctb
12	CCT2	ENSG00000166226	ENST00000548787	retained_intron	KNOWN	None	1615	None	None	69982942	69987386	1	None	Cctb
12	CCT2	ENSG00000166226	ENST00000546850	retained_intron	KNOWN	None	1615	None	None	69983359	69986093	1	None	Cctb
12	CCT2	ENSG00000166226	ENST00000553169	retained_intron	KNOWN	None	1615	None	None	69986317	69991022	1	None	Cctb
12	CCT2	ENSG00000166226	ENST00000550653	retained_intron	KNOWN	None	1615	None	None	69993494	69995350	1	None	Cctb
1	MEAF6	ENSG00000163875	ENST00000373075	protein_coding	KNOWN	CCDS418	25674	606	201	37958176	37980364	-1	C1orf149	NY-SAR-91, FLJ11730, Eaf6, CENP-28
1	MEAF6	ENSG00000163875	ENST00000296214	protein_coding	KNOWN	CCDS59196	25674	576	191	37958779	37980375	-1	C1orf149	NY-SAR-91, FLJ11730, Eaf6, CENP-28
1	MEAF6	ENSG00000163875	ENST00000373074	protein_coding	KNOWN	None	25674	510	169	37958912	37979870	-1	C1orf149	NY-SAR-91, FLJ11730, Eaf6, CENP-28
1	MEAF6	ENSG00000163875	ENST00000475828	processed_transcript	KNOWN	None	25674	None	None	37958936	37980357	-1	C1orf149	NY-SAR-91, FLJ11730, Eaf6, CENP-28
1	MEAF6	ENSG00000163875	ENST00000487788	processed_transcript	KNOWN	None	25674	None	None	37958999	37980333	-1	C1orf149	NY-SAR-91, FLJ11730, Eaf6, CENP-28
1	MEAF6	ENSG00000163875	ENST00000373073	protein_coding	KNOWN	CCDS59195	25674	579	192	37959363	37980364	-1	C1orf149	NY-SAR-91, FLJ11730, Eaf6, CENP-28
1	MEAF6	ENSG00000163875	ENST00000487792	processed_transcript	KNOWN	None	25674	None	None	37959535	37980268	-1	C1orf149	NY-SAR-91, FLJ11730, Eaf6, CENP-28
1	MEAF6	ENSG00000163875	ENST00000485039	processed_transcript	KNOWN	None	25674	None	None	37967016	37979121	-1	C1orf149	NY-SAR-91, FLJ11730, Eaf6, CENP-28
1	MEAF6	ENSG00000163875	ENST00000448519	protein_coding	KNOWN	None	25674	576	191	37961475	37980347	-1	C1orf149	NY-SAR-91, FLJ11730, Eaf6, CENP-28
22	TTLL8	ENSG00000138892	ENST00000433387	protein_coding	PUTATIVE	None	34000	2549	848	50453556	50495364	-1	None	None
22	TTLL8	ENSG00000138892	ENST00000477219	processed_transcript	KNOWN	None	34000	None	None	50485597	50488647	-1	None	None
22	TTLL8	ENSG00000138892	ENST00000266182	protein_coding	KNOWN	None	34000	2505	834	50453552	50493055	-1	None	None
22	TTLL8	ENSG00000138892	ENST00000440475	protein_coding	KNOWN	None	34000	2445	814	50453552	50493055	-1	None	None
HSCHR6_MHC_SSTO	HLA-DRB8	ENSG00000233697	ENST00000436297	unprocessed_pseudogene	KNOWN	None	4956	None	None	32556190	32558727	-1	None	None
HSCHR6_MHC_MANN	None	ENSG00000271768	ENST00000600011	processed_transcript	PUTATIVE	None	None	None	None	28805650	28806787	-1	None	None
21	SIK1	ENSG00000142178	ENST00000270162	protein_coding	KNOWN	CCDS33575	11142	2352	783	44834395	44847008	-1	SNF1LK	msk
21	SIK1	ENSG00000142178	ENST00000478426	retained_intron	KNOWN	None	11142	None	None	44840992	44841885	-1	SNF1LK	msk
1	RNPEP	ENSG00000176393	ENST00000481780	processed_transcript	KNOWN	None	10078	None	None	201951500	201970527	1	None	None
1	RNPEP	ENSG00000176393	ENST00000295640	protein_coding	KNOWN	CCDS1418	10078	1953	650	201951752	201975275	1	None	None
1	RNPEP	ENSG00000176393	ENST00000367286	protein_coding	KNOWN	None	10078	1836	611	201951780	201975275	1	None	None
1	RNPEP	ENSG00000176393	ENST00000487116	processed_transcript	KNOWN	None	10078	None	None	201951885	201966682	1	None	None
1	RNPEP	ENSG00000176393	ENST00000492587	processed_transcript	KNOWN	None	10078	None	None	201951947	201970616	1	None	None
1	RNPEP	ENSG00000176393	ENST00000471105	processed_transcript	KNOWN	None	10078	None	None	201952083	201975275	1	None	None
1	RNPEP	ENSG00000176393	ENST00000447312	protein_coding	KNOWN	None	10078	1033	343	201952458	201970895	1	None	None
1	RNPEP	ENSG00000176393	ENST00000478617	processed_transcript	KNOWN	None	10078	None	None	201952503	201972548	1	None	None
1	RNPEP	ENSG00000176393	ENST00000479726	processed_transcript	KNOWN	None	10078	None	None	201952507	201969073	1	None	None
1	RNPEP	ENSG00000176393	ENST00000492849	processed_transcript	KNOWN	None	10078	None	None	201952599	201972446	1	None	None
1	RNPEP	ENSG00000176393	ENST00000449524	protein_coding	KNOWN	None	10078	505	167	201965300	201970850	1	None	None
1	RNPEP	ENSG00000176393	ENST00000464707	processed_transcript	KNOWN	None	10078	None	None	201970389	201972477	1	None	None
1	RNPEP	ENSG00000176393	ENST00000479531	processed_transcript	KNOWN	None	10078	None	None	201970597	201973624	1	None	None
11	SCT	ENSG00000070031	ENST00000176195	protein_coding	KNOWN	CCDS7709	10607	366	121	626431	627143	-1	None	None
20	SNAI1	ENSG00000124216	ENST00000244050	protein_coding	KNOWN	CCDS13423	11128	795	264	48599536	48605423	1	None	SNA, SLUGH2, SNAH, SNAIL1, SNAIL
4	ANXA10	ENSG00000109511	ENST00000359299	protein_coding	KNOWN	CCDS34096	534	975	324	169013666	169108841	1	None	ANX14
4	ANXA10	ENSG00000109511	ENST00000507278	retained_intron	KNOWN	None	534	None	None	169086335	169108841	1	None	ANX14
4	ANXA10	ENSG00000109511	ENST00000503003	retained_intron	KNOWN	None	534	None	None	169086392	169099466	1	None	ANX14
4	None	ENSG00000242209	ENST00000491925	processed_pseudogene	KNOWN	None	None	None	None	13649321	13650024	-1	None	None
3	TNNC1	ENSG00000114854	ENST00000232975	protein_coding	KNOWN	CCDS2857	11943	486	161	52485118	52488086	-1	TNNC	None
3	TNNC1	ENSG00000114854	ENST00000496590	protein_coding	PUTATIVE	None	11943	298	98	52485431	52486850	-1	TNNC	None
3	TNNC1	ENSG00000114854	ENST00000461086	retained_intron	KNOWN	None	11943	None	None	52485455	52486007	-1	TNNC	None
19	ZNF83	ENSG00000167766	ENST00000600714	protein_coding	PUTATIVE	None	13158	378	125	53097313	53164097	-1	ZNF816B	FLJ11015, HPF1
19	ZNF83	ENSG00000167766	ENST00000601257	protein_coding	PUTATIVE	None	13158	216	71	53097404	53193749	-1	ZNF816B	FLJ11015, HPF1
19	ZNF83	ENSG00000167766	ENST00000597597	protein_coding	KNOWN	CCDS12854	13158	1551	516	53115630	53140339	-1	ZNF816B	FLJ11015, HPF1
19	ZNF83	ENSG00000167766	ENST00000541777	protein_coding	KNOWN	CCDS12854	13158	1551	516	53115631	53121293	-1	ZNF816B	FLJ11015, HPF1
19	ZNF83	ENSG00000167766	ENST00000545872	protein_coding	KNOWN	CCDS12854	13158	1551	516	53115631	53141638	-1	ZNF816B	FLJ11015, HPF1
19	ZNF83	ENSG00000167766	ENST00000594682	nonsense_mediated_decay	KNOWN	None	13158	318	105	53115631	53193741	-1	ZNF816B	FLJ11015, HPF1
19	ZNF83	ENSG00000167766	ENST00000595939	nonsense_mediated_decay	KNOWN	None	13158	162	53	53117871	53141603	-1	ZNF816B	FLJ11015, HPF1
19	ZNF83	ENSG00000167766	ENST00000596930	protein_coding	PUTATIVE	None	13158	378	125	53117918	53141618	-1	ZNF816B	FLJ11015, HPF1
19	ZNF83	ENSG00000167766	ENST00000597161	protein_coding	PUTATIVE	None	13158	279	92	53117925	53141608	-1	ZNF816B	FLJ11015, HPF1
19	ZNF83	ENSG00000167766	ENST00000598536	protein_coding	PUTATIVE	None	13158	93	30	53117942	53193739	-1	ZNF816B	FLJ11015, HPF1
19	ZNF83	ENSG00000167766	ENST00000601140	nonsense_mediated_decay	KNOWN	None	13158	168	55	53117943	53141603	-1	ZNF816B	FLJ11015, HPF1
19	ZNF83	ENSG00000167766	ENST00000595171	processed_transcript	KNOWN	None	13158	None	None	53120545	53193749	-1	ZNF816B	FLJ11015, HPF1
19	ZNF83	ENSG00000167766	ENST00000601237	retained_intron	KNOWN	None	13158	None	None	53121753	53141641	-1	ZNF816B	FLJ11015, HPF1
19	ZNF83	ENSG00000167766	ENST00000596440	processed_transcript	KNOWN	None	13158	None	None	53121928	53193741	-1	ZNF816B	FLJ11015, HPF1
19	ZNF83	ENSG00000167766	ENST00000602232	retained_intron	KNOWN	None	13158	None	None	53121965	53193749	-1	ZNF816B	FLJ11015, HPF1
19	ZNF83	ENSG00000167766	ENST00000600457	processed_transcript	KNOWN	None	13158	None	None	53157324	53193749	-1	ZNF816B	FLJ11015, HPF1
19	ZNF83	ENSG00000167766	ENST00000598190	retained_intron	KNOWN	None	13158	None	None	53158118	53193727	-1	ZNF816B	FLJ11015, HPF1
19	ZNF83	ENSG00000167766	ENST00000544146	protein_coding	KNOWN	CCDS12854	13158	1551	516	53115620	53141644	-1	ZNF816B	FLJ11015, HPF1
19	ZNF83	ENSG00000167766	ENST00000536937	protein_coding	KNOWN	CCDS12854	13158	1551	516	53115620	53141644	-1	ZNF816B	FLJ11015, HPF1
19	ZNF83	ENSG00000167766	ENST00000301096	protein_coding	KNOWN	CCDS12854	13158	1551	516	53115620	53141644	-1	ZNF816B	FLJ11015, HPF1
19	ZNF83	ENSG00000167766	ENST00000391789	protein_coding	KNOWN	None	13158	1467	488	53116267	53117817	-1	ZNF816B	FLJ11015, HPF1
HSCHR6_MHC_MCF	PSMB9	ENSG00000240508	ENST00000422904	protein_coding	KNOWN	None	9546	591	196	32845393	32860842	1	LMP2	RING12, beta1i, PSMB6i
HSCHR6_MHC_MCF	PSMB9	ENSG00000240508	ENST00000419512	protein_coding	KNOWN	None	9546	395	130	32846093	32859694	1	LMP2	RING12, beta1i, PSMB6i
HSCHR6_MHC_MCF	PSMB9	ENSG00000240508	ENST00000495780	retained_intron	KNOWN	None	9546	None	None	32855405	32860157	1	LMP2	RING12, beta1i, PSMB6i
HSCHR6_MHC_MCF	PSMB9	ENSG00000240508	ENST00000453059	protein_coding	KNOWN	None	9546	660	219	32855418	32860842	1	LMP2	RING12, beta1i, PSMB6i
HSCHR6_MHC_MCF	PSMB9	ENSG00000240508	ENST00000418861	protein_coding	KNOWN	None	9546	537	178	32855463	32880808	1	LMP2	RING12, beta1i, PSMB6i
HSCHR6_MHC_MCF	PSMB9	ENSG00000240508	ENST00000490255	retained_intron	KNOWN	None	9546	None	None	32857354	32859979	1	LMP2	RING12, beta1i, PSMB6i
20	TMEM189-UBE2V1	ENSG00000124208	ENST00000341698	protein_coding	KNOWN	CCDS13424	33521	1113	370	48697661	48770174	-1	None	Kua-UEV, CROC-1B
11	DRD4	ENSG00000069696	ENST00000176183	protein_coding	KNOWN	CCDS7710	3025	1260	419	637293	640706	1	None	None
11	DRD4	ENSG00000069696	ENST00000528733	processed_transcript	PUTATIVE	None	3025	None	None	639057	639793	1	None	None
7	RP9	ENSG00000164610	ENST00000297157	protein_coding	KNOWN	CCDS5440	10288	666	221	33134409	33149002	-1	None	PAP-1
7	RP9	ENSG00000164610	ENST00000448915	protein_coding	PUTATIVE	None	10288	499	165	33134911	33140498	-1	None	PAP-1
7	RP9	ENSG00000164610	ENST00000474370	retained_intron	KNOWN	None	10288	None	None	33138726	33149013	-1	None	PAP-1
7	RP9	ENSG00000164610	ENST00000492391	retained_intron	KNOWN	None	10288	None	None	33139750	33148940	-1	None	PAP-1
1	SNIP1	ENSG00000163877	ENST00000296215	protein_coding	KNOWN	CCDS419	30587	1191	396	38000050	38019903	-1	None	None
1	SNIP1	ENSG00000163877	ENST00000468040	processed_transcript	KNOWN	None	30587	None	None	38006101	38019849	-1	None	None
1	SNIP1	ENSG00000163877	ENST00000493916	processed_transcript	KNOWN	None	30587	None	None	38018088	38019891	-1	None	None
4	None	ENSG00000250634	ENST00000510907	lincRNA	KNOWN	None	None	None	None	13656803	13932852	1	None	None
4	None	ENSG00000250634	ENST00000503532	lincRNA	KNOWN	None	None	None	None	13821734	13978699	1	None	None
12	LPCAT3	ENSG00000111684	ENST00000535479	nonsense_mediated_decay	KNOWN	None	30244	1044	347	7085348	7125781	-1	OACT5, MBOAT5	C3F, nessy
12	LPCAT3	ENSG00000111684	ENST00000261407	protein_coding	KNOWN	CCDS8572	30244	1464	487	7085348	7125814	-1	OACT5, MBOAT5	C3F, nessy
12	LPCAT3	ENSG00000111684	ENST00000535021	processed_transcript	KNOWN	None	30244	None	None	7085968	7090310	-1	OACT5, MBOAT5	C3F, nessy
12	LPCAT3	ENSG00000111684	ENST00000540090	nonsense_mediated_decay	KNOWN	None	30244	258	85	7086809	7125778	-1	OACT5, MBOAT5	C3F, nessy
12	LPCAT3	ENSG00000111684	ENST00000543794	nonsense_mediated_decay	KNOWN	None	30244	477	158	7086861	7125778	-1	OACT5, MBOAT5	C3F, nessy
12	LPCAT3	ENSG00000111684	ENST00000536797	nonsense_mediated_decay	KNOWN	None	30244	597	198	7087002	7125778	-1	OACT5, MBOAT5	C3F, nessy
12	LPCAT3	ENSG00000111684	ENST00000537179	retained_intron	KNOWN	None	30244	None	None	7087203	7088432	-1	OACT5, MBOAT5	C3F, nessy
12	LPCAT3	ENSG00000111684	ENST00000538987	retained_intron	KNOWN	None	30244	None	None	7088757	7090319	-1	OACT5, MBOAT5	C3F, nessy
12	LPCAT3	ENSG00000111684	ENST00000540060	processed_transcript	PUTATIVE	None	30244	None	None	7089869	7091019	-1	OACT5, MBOAT5	C3F, nessy
12	LPCAT3	ENSG00000111684	ENST00000539868	processed_transcript	PUTATIVE	None	30244	None	None	7090456	7091944	-1	OACT5, MBOAT5	C3F, nessy
12	LPCAT3	ENSG00000111684	ENST00000536971	processed_transcript	PUTATIVE	None	30244	None	None	7090703	7125778	-1	OACT5, MBOAT5	C3F, nessy
12	LPCAT3	ENSG00000111684	ENST00000545459	processed_transcript	PUTATIVE	None	30244	None	None	7090721	7092626	-1	OACT5, MBOAT5	C3F, nessy
12	LPCAT3	ENSG00000111684	ENST00000538910	nonsense_mediated_decay	KNOWN	None	30244	195	64	7090970	7125778	-1	OACT5, MBOAT5	C3F, nessy
5	VDAC1	ENSG00000213585	ENST00000395044	protein_coding	KNOWN	CCDS4168	12669	852	283	133307606	133340433	-1	None	MGC111064, PORIN
5	VDAC1	ENSG00000213585	ENST00000265333	protein_coding	KNOWN	CCDS4168	12669	852	283	133307606	133340824	-1	None	MGC111064, PORIN
5	VDAC1	ENSG00000213585	ENST00000395047	protein_coding	KNOWN	CCDS4168	12669	852	283	133307643	133340533	-1	None	MGC111064, PORIN
5	VDAC1	ENSG00000213585	ENST00000489906	retained_intron	KNOWN	None	12669	None	None	133308417	133312060	-1	None	MGC111064, PORIN
5	VDAC1	ENSG00000213585	ENST00000492324	processed_transcript	KNOWN	None	12669	None	None	133308417	133316708	-1	None	MGC111064, PORIN
5	VDAC1	ENSG00000213585	ENST00000425992	protein_coding	NOVEL	None	12669	552	183	133316419	133340326	-1	None	MGC111064, PORIN
5	VDAC1	ENSG00000213585	ENST00000466080	processed_transcript	KNOWN	None	12669	None	None	133324479	133340383	-1	None	MGC111064, PORIN
1	SPAG17	ENSG00000155761	ENST00000466857	processed_transcript	KNOWN	None	26620	None	None	118496484	118507433	-1	None	FLJ34497, PF6, RP4-776P7.2
1	SPAG17	ENSG00000155761	ENST00000478697	processed_transcript	KNOWN	None	26620	None	None	118496487	118509375	-1	None	FLJ34497, PF6, RP4-776P7.2
1	SPAG17	ENSG00000155761	ENST00000336338	protein_coding	KNOWN	CCDS899	26620	6672	2223	118496487	118727846	-1	None	FLJ34497, PF6, RP4-776P7.2
1	SPAG17	ENSG00000155761	ENST00000469128	processed_transcript	KNOWN	None	26620	None	None	118496496	118512741	-1	None	FLJ34497, PF6, RP4-776P7.2
1	SPAG17	ENSG00000155761	ENST00000437255	protein_coding	KNOWN	None	26620	1983	660	118507720	118550693	-1	None	FLJ34497, PF6, RP4-776P7.2
1	SPAG17	ENSG00000155761	ENST00000492438	processed_transcript	KNOWN	None	26620	None	None	118514403	118527371	-1	None	FLJ34497, PF6, RP4-776P7.2
1	SPAG17	ENSG00000155761	ENST00000483383	processed_transcript	KNOWN	None	26620	None	None	118516105	118530615	-1	None	FLJ34497, PF6, RP4-776P7.2
1	SPAG17	ENSG00000155761	ENST00000470550	processed_transcript	KNOWN	None	26620	None	None	118567887	118583390	-1	None	FLJ34497, PF6, RP4-776P7.2
1	SPAG17	ENSG00000155761	ENST00000486589	processed_transcript	KNOWN	None	26620	None	None	118574369	118581965	-1	None	FLJ34497, PF6, RP4-776P7.2
1	SPAG17	ENSG00000155761	ENST00000477444	processed_transcript	KNOWN	None	26620	None	None	118596677	118624109	-1	None	FLJ34497, PF6, RP4-776P7.2
1	SPAG17	ENSG00000155761	ENST00000473472	processed_transcript	KNOWN	None	26620	None	None	118616564	118623919	-1	None	FLJ34497, PF6, RP4-776P7.2
1	SPAG17	ENSG00000155761	ENST00000463628	processed_transcript	KNOWN	None	26620	None	None	118628601	118629785	-1	None	FLJ34497, PF6, RP4-776P7.2
1	SPAG17	ENSG00000155761	ENST00000465053	processed_transcript	KNOWN	None	26620	None	None	118693020	118727846	-1	None	FLJ34497, PF6, RP4-776P7.2
4	None	ENSG00000252092	ENST00000516283	miRNA	NOVEL	None	None	None	None	13660251	13660337	1	None	None
4	HPSE	ENSG00000173083	ENST00000311412	protein_coding	KNOWN	CCDS3602	5164	1632	543	84213614	84256035	-1	None	HPA, HSE1, HPSE1
4	HPSE	ENSG00000173083	ENST00000405413	protein_coding	KNOWN	CCDS3602	5164	1632	543	84213614	84256306	-1	None	HPA, HSE1, HPSE1
4	HPSE	ENSG00000173083	ENST00000507150	nonsense_mediated_decay	KNOWN	None	5164	681	226	84216473	84256306	-1	None	HPA, HSE1, HPSE1
4	HPSE	ENSG00000173083	ENST00000512196	protein_coding	KNOWN	CCDS54774	5164	1410	469	84216473	84256306	-1	None	HPA, HSE1, HPSE1
4	HPSE	ENSG00000173083	ENST00000509906	nonsense_mediated_decay	KNOWN	None	5164	1143	380	84216473	84256306	-1	None	HPA, HSE1, HPSE1
4	HPSE	ENSG00000173083	ENST00000508891	nonsense_mediated_decay	KNOWN	None	5164	507	168	84216473	84256306	-1	None	HPA, HSE1, HPSE1
4	HPSE	ENSG00000173083	ENST00000513463	protein_coding	NOVEL	CCDS56337	5164	1458	485	84216497	84255935	-1	None	HPA, HSE1, HPSE1
12	KRT77	ENSG00000189182	ENST00000341809	protein_coding	KNOWN	CCDS8837	20411	1737	578	53083410	53097247	-1	KRT1B	None
12	KRT77	ENSG00000189182	ENST00000553168	nonsense_mediated_decay	KNOWN	None	20411	747	248	53084588	53097247	-1	KRT1B	None
12	KRT77	ENSG00000189182	ENST00000550823	retained_intron	KNOWN	None	20411	None	None	53086612	53089136	-1	KRT1B	None
12	KRT77	ENSG00000189182	ENST00000537195	protein_coding	KNOWN	None	20411	1038	345	53084588	53097247	-1	KRT1B	None
HSCHR6_MHC_MANN	None	ENSG00000272119	ENST00000601878	processed_transcript	KNOWN	None	None	None	None	28827406	28831131	-1	None	None
HSCHR6_MHC_MANN	RPL13P	ENSG00000272488	ENST00000593989	processed_pseudogene	KNOWN	None	13978	None	None	28829197	28829828	1	None	BBC1p, dJ111M5.1
X	APEX2	ENSG00000169188	ENST00000374987	protein_coding	KNOWN	CCDS14365	17889	1557	518	55026790	55035490	1	None	APEXL2, APE2, XTH2
X	APEX2	ENSG00000169188	ENST00000471758	processed_transcript	KNOWN	None	17889	None	None	55026826	55033190	1	None	APEXL2, APE2, XTH2
HSCHR6_MHC_SSTO	None	ENSG00000265248	ENST00000583575	snRNA	NOVEL	None	None	None	None	32586786	32586949	-1	None	None
1	DNALI1	ENSG00000163879	ENST00000296218	protein_coding	KNOWN	CCDS420	14353	843	280	38022520	38032458	1	None	P28, hp28, dJ423B22.5
1	DNALI1	ENSG00000163879	ENST00000490312	processed_transcript	KNOWN	None	14353	None	None	38022554	38023792	1	None	P28, hp28, dJ423B22.5
1	DNALI1	ENSG00000163879	ENST00000466723	processed_transcript	KNOWN	None	14353	None	None	38022599	38027789	1	None	P28, hp28, dJ423B22.5
1	DNALI1	ENSG00000163879	ENST00000497858	processed_transcript	KNOWN	None	14353	None	None	38026139	38032457	1	None	P28, hp28, dJ423B22.5
1	DNALI1	ENSG00000163879	ENST00000467277	processed_transcript	KNOWN	None	14353	None	None	38027002	38030747	1	None	P28, hp28, dJ423B22.5
1	DNALI1	ENSG00000163879	ENST00000541606	protein_coding	KNOWN	None	14353	399	132	38022607	38031234	1	None	P28, hp28, dJ423B22.5
13	GRTP1	ENSG00000139835	ENST00000375431	protein_coding	PUTATIVE	CCDS9534	20310	1011	336	113978505	114018441	-1	None	FLJ22474, TBC1D6
13	GRTP1	ENSG00000139835	ENST00000326039	protein_coding	KNOWN	None	20310	801	266	113979377	114009751	-1	None	FLJ22474, TBC1D6
13	GRTP1	ENSG00000139835	ENST00000476439	processed_transcript	KNOWN	None	20310	None	None	114013932	114018446	-1	None	FLJ22474, TBC1D6
13	GRTP1	ENSG00000139835	ENST00000375430	protein_coding	KNOWN	None	20310	1035	344	113979498	114018413	-1	None	FLJ22474, TBC1D6
HSCHR6_MHC_SSTO	None	ENSG00000235324	ENST00000443336	processed_pseudogene	KNOWN	None	None	None	None	32588904	32589843	1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000235324	ENST00000548719	pseudogene	KNOWN	None	None	None	None	32588904	32589843	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000264777	ENST00000583652	snRNA	NOVEL	None	None	None	None	28883427	28883526	1	None	None
HSCHR6_MHC_MANN	KRT18P1	ENSG00000226462	ENST00000447122	processed_pseudogene	KNOWN	None	6434	None	None	28936915	28938245	-1	None	dJ25J6.3
18	MIB1	ENSG00000101752	ENST00000578646	processed_transcript	KNOWN	None	21086	None	None	19284918	19444935	1	None	DIP-1, MIB, KIAA1323, ZZANK2, ZZZ6
18	MIB1	ENSG00000101752	ENST00000261537	protein_coding	KNOWN	CCDS11871	21086	3021	1006	19321281	19450918	1	None	DIP-1, MIB, KIAA1323, ZZANK2, ZZZ6
18	MIB1	ENSG00000101752	ENST00000577749	processed_transcript	KNOWN	None	21086	None	None	19378045	19399519	1	None	DIP-1, MIB, KIAA1323, ZZANK2, ZZZ6
18	MIB1	ENSG00000101752	ENST00000578260	retained_intron	KNOWN	None	21086	None	None	19383694	19399519	1	None	DIP-1, MIB, KIAA1323, ZZANK2, ZZZ6
2	SCN1A	ENSG00000144285	ENST00000303395	protein_coding	KNOWN	CCDS54413	10585	6030	2009	166845673	166930131	-1	SCN1, FEB3	Nav1.1, GEFSP2, HBSCI, NAC1, SMEI
2	SCN1A	ENSG00000144285	ENST00000375405	protein_coding	KNOWN	CCDS33316	10585	5997	1998	166845673	166930149	-1	SCN1, FEB3	Nav1.1, GEFSP2, HBSCI, NAC1, SMEI
2	SCN1A	ENSG00000144285	ENST00000409050	protein_coding	NOVEL	CCDS54414	10585	5946	1981	166847755	166930131	-1	SCN1, FEB3	Nav1.1, GEFSP2, HBSCI, NAC1, SMEI
2	SCN1A	ENSG00000144285	ENST00000473295	retained_intron	KNOWN	None	10585	None	None	166852563	166856573	-1	SCN1, FEB3	Nav1.1, GEFSP2, HBSCI, NAC1, SMEI
2	SCN1A	ENSG00000144285	ENST00000491429	retained_intron	KNOWN	None	10585	None	None	166854635	166859418	-1	SCN1, FEB3	Nav1.1, GEFSP2, HBSCI, NAC1, SMEI
2	SCN1A	ENSG00000144285	ENST00000507401	retained_intron	KNOWN	None	10585	None	None	166929812	166984523	-1	SCN1, FEB3	Nav1.1, GEFSP2, HBSCI, NAC1, SMEI
2	SCN1A	ENSG00000144285	ENST00000423058	protein_coding	KNOWN	None	10585	6030	2009	166845670	166930149	-1	SCN1, FEB3	Nav1.1, GEFSP2, HBSCI, NAC1, SMEI
3	ALG3	ENSG00000214160	ENST00000411922	nonsense_mediated_decay	KNOWN	None	23056	324	107	183960089	183966750	-1	None	NOT56L, Not56, CDGS4, D16Ertd36e
3	ALG3	ENSG00000214160	ENST00000397676	protein_coding	KNOWN	CCDS46968	23056	1317	438	183960122	183966759	-1	None	NOT56L, Not56, CDGS4, D16Ertd36e
3	ALG3	ENSG00000214160	ENST00000445626	protein_coding	PUTATIVE	CCDS46967	23056	1173	390	183960213	183967336	-1	None	NOT56L, Not56, CDGS4, D16Ertd36e
3	ALG3	ENSG00000214160	ENST00000485912	retained_intron	KNOWN	None	23056	None	None	183960247	183961377	-1	None	NOT56L, Not56, CDGS4, D16Ertd36e
3	ALG3	ENSG00000214160	ENST00000455059	protein_coding	PUTATIVE	None	23056	1197	398	183960257	183967308	-1	None	NOT56L, Not56, CDGS4, D16Ertd36e
3	ALG3	ENSG00000214160	ENST00000446569	protein_coding	NOVEL	None	23056	967	321	183960362	183966723	-1	None	NOT56L, Not56, CDGS4, D16Ertd36e
3	ALG3	ENSG00000214160	ENST00000414845	nonsense_mediated_decay	KNOWN	None	23056	317	104	183960673	183966721	-1	None	NOT56L, Not56, CDGS4, D16Ertd36e
3	ALG3	ENSG00000214160	ENST00000463495	processed_transcript	KNOWN	None	23056	None	None	183960749	183961784	-1	None	NOT56L, Not56, CDGS4, D16Ertd36e
3	ALG3	ENSG00000214160	ENST00000462735	retained_intron	KNOWN	None	23056	None	None	183961342	183962809	-1	None	NOT56L, Not56, CDGS4, D16Ertd36e
3	ALG3	ENSG00000214160	ENST00000423996	nonsense_mediated_decay	KNOWN	None	23056	198	65	183961579	183966737	-1	None	NOT56L, Not56, CDGS4, D16Ertd36e
3	ALG3	ENSG00000214160	ENST00000477959	retained_intron	KNOWN	None	23056	None	None	183962117	183963130	-1	None	NOT56L, Not56, CDGS4, D16Ertd36e
3	ALG3	ENSG00000214160	ENST00000461415	retained_intron	KNOWN	None	23056	None	None	183962547	183966738	-1	None	NOT56L, Not56, CDGS4, D16Ertd36e
3	ALG3	ENSG00000214160	ENST00000488976	retained_intron	KNOWN	None	23056	None	None	183962566	183966750	-1	None	NOT56L, Not56, CDGS4, D16Ertd36e
3	ALG3	ENSG00000214160	ENST00000482048	retained_intron	KNOWN	None	23056	None	None	183962855	183966717	-1	None	NOT56L, Not56, CDGS4, D16Ertd36e
3	ALG3	ENSG00000214160	ENST00000418734	protein_coding	KNOWN	None	23056	1149	382	183960089	183966750	-1	None	NOT56L, Not56, CDGS4, D16Ertd36e
HSCHR6_MHC_DBB	None	ENSG00000268637	ENST00000593984	protein_coding	NOVEL	None	None	78	25	31441226	31443933	-1	None	None
4	FIP1L1	ENSG00000145216	ENST00000511376	processed_transcript	KNOWN	None	19124	None	None	54243810	54256764	1	None	DKFZp586K0717, FIP1
4	FIP1L1	ENSG00000145216	ENST00000337488	protein_coding	KNOWN	CCDS3491	19124	1785	594	54243812	54325835	1	None	DKFZp586K0717, FIP1
4	FIP1L1	ENSG00000145216	ENST00000358575	protein_coding	KNOWN	CCDS47055	19124	1767	588	54243812	54325835	1	None	DKFZp586K0717, FIP1
4	FIP1L1	ENSG00000145216	ENST00000507922	protein_coding	PUTATIVE	None	19124	1137	378	54243838	54294388	1	None	DKFZp586K0717, FIP1
4	FIP1L1	ENSG00000145216	ENST00000306932	protein_coding	KNOWN	CCDS47056	19124	1563	520	54243863	54325788	1	None	DKFZp586K0717, FIP1
4	FIP1L1	ENSG00000145216	ENST00000505125	retained_intron	KNOWN	None	19124	None	None	54243970	54325788	1	None	DKFZp586K0717, FIP1
4	FIP1L1	ENSG00000145216	ENST00000507166	protein_coding	NOVEL	None	19124	2550	849	54244006	55161439	1	None	DKFZp586K0717, FIP1
4	FIP1L1	ENSG00000145216	ENST00000513975	retained_intron	KNOWN	None	19124	None	None	54244010	54307150	1	None	DKFZp586K0717, FIP1
4	FIP1L1	ENSG00000145216	ENST00000510668	processed_transcript	KNOWN	None	19124	None	None	54244385	54256016	1	None	DKFZp586K0717, FIP1
4	FIP1L1	ENSG00000145216	ENST00000514543	nonsense_mediated_decay	KNOWN	None	19124	79	25	54248445	54325785	1	None	DKFZp586K0717, FIP1
4	FIP1L1	ENSG00000145216	ENST00000513008	retained_intron	KNOWN	None	19124	None	None	54292003	54325788	1	None	DKFZp586K0717, FIP1
4	FIP1L1	ENSG00000145216	ENST00000504094	protein_coding	NOVEL	None	19124	765	254	54294233	54327028	1	None	DKFZp586K0717, FIP1
4	FIP1L1	ENSG00000145216	ENST00000511055	retained_intron	KNOWN	None	19124	None	None	54308420	54319298	1	None	DKFZp586K0717, FIP1
4	FIP1L1	ENSG00000145216	ENST00000507206	retained_intron	KNOWN	None	19124	None	None	54324718	54325569	1	None	DKFZp586K0717, FIP1
6	GTF2H4	ENSG00000213780	ENST00000259895	protein_coding	KNOWN	CCDS34386	4658	1389	462	30875961	30881883	1	None	TFB2, TFIIH, P52
6	GTF2H4	ENSG00000213780	ENST00000376316	protein_coding	KNOWN	CCDS34386	4658	1389	462	30875998	30881883	1	None	TFB2, TFIIH, P52
6	GTF2H4	ENSG00000213780	ENST00000453897	protein_coding	KNOWN	None	4658	414	137	30876000	30878411	1	None	TFB2, TFIIH, P52
6	GTF2H4	ENSG00000213780	ENST00000487746	retained_intron	KNOWN	None	4658	None	None	30877219	30880170	1	None	TFB2, TFIIH, P52
6	GTF2H4	ENSG00000213780	ENST00000483318	retained_intron	KNOWN	None	4658	None	None	30879728	30881883	1	None	TFB2, TFIIH, P52
6	GTF2H4	ENSG00000213780	ENST00000475845	retained_intron	KNOWN	None	4658	None	None	30880000	30881883	1	None	TFB2, TFIIH, P52
6	GTF2H4	ENSG00000213780	ENST00000539324	protein_coding	KNOWN	None	4658	663	220	30875984	30879891	1	None	TFB2, TFIIH, P52
13	ADPRHL1	ENSG00000153531	ENST00000356501	protein_coding	KNOWN	CCDS9536	21303	819	272	114076260	114103457	-1	None	ARH2
13	ADPRHL1	ENSG00000153531	ENST00000375418	protein_coding	KNOWN	CCDS9535	21303	1065	354	114076948	114107839	-1	None	ARH2
13	ADPRHL1	ENSG00000153531	ENST00000413169	protein_coding	KNOWN	None	21303	528	175	114079367	114103592	-1	None	ARH2
22	MLC1	ENSG00000100427	ENST00000395876	protein_coding	KNOWN	CCDS14083	17082	1134	377	50497820	50523783	-1	None	MLC, KIAA0027, LVM, VL
22	MLC1	ENSG00000100427	ENST00000311597	protein_coding	KNOWN	CCDS14083	17082	1134	377	50497820	50524331	-1	None	MLC, KIAA0027, LVM, VL
22	MLC1	ENSG00000100427	ENST00000483836	processed_transcript	KNOWN	None	17082	None	None	50499890	50511244	-1	None	MLC, KIAA0027, LVM, VL
22	MLC1	ENSG00000100427	ENST00000442311	protein_coding	KNOWN	None	17082	669	222	50508968	50523813	-1	None	MLC, KIAA0027, LVM, VL
22	MLC1	ENSG00000100427	ENST00000470008	processed_transcript	KNOWN	None	17082	None	None	50508971	50513113	-1	None	MLC, KIAA0027, LVM, VL
22	MLC1	ENSG00000100427	ENST00000538737	protein_coding	KNOWN	None	17082	1032	343	50499484	50523820	-1	None	MLC, KIAA0027, LVM, VL
22	MLC1	ENSG00000100427	ENST00000431262	protein_coding	KNOWN	None	17082	1044	347	50499592	50523854	-1	None	MLC, KIAA0027, LVM, VL
22	MLC1	ENSG00000100427	ENST00000450140	protein_coding	KNOWN	None	17082	978	325	50499883	50523688	-1	None	MLC, KIAA0027, LVM, VL
22	MLC1	ENSG00000100427	ENST00000535444	protein_coding	KNOWN	None	17082	897	298	50499697	50523849	-1	None	MLC, KIAA0027, LVM, VL
HSCHR6_MHC_DBB	MICB	ENSG00000224378	ENST00000437651	protein_coding	KNOWN	None	7091	1023	340	31447882	31461098	1	None	PERB11.2
HSCHR6_MHC_DBB	MICB	ENSG00000224378	ENST00000383514	protein_coding	KNOWN	None	7091	1152	383	31447911	31461098	1	None	PERB11.2
HSCHR6_MHC_DBB	MICB	ENSG00000224378	ENST00000481200	retained_intron	KNOWN	None	7091	None	None	31455911	31457507	1	None	PERB11.2
HSCHR6_MHC_DBB	MICB	ENSG00000224378	ENST00000551608	protein_coding	KNOWN	None	7091	126	41	31447941	31448665	1	None	PERB11.2
1	GNL2	ENSG00000134697	ENST00000490029	processed_transcript	KNOWN	None	29925	None	None	38032417	38033716	-1	None	Ngp-1, HUMAUANTIG
1	GNL2	ENSG00000134697	ENST00000373062	protein_coding	KNOWN	CCDS421	29925	2196	731	38032417	38061522	-1	None	Ngp-1, HUMAUANTIG
1	GNL2	ENSG00000134697	ENST00000462812	processed_transcript	KNOWN	None	29925	None	None	38032418	38036494	-1	None	Ngp-1, HUMAUANTIG
1	GNL2	ENSG00000134697	ENST00000479255	processed_transcript	KNOWN	None	29925	None	None	38032422	38034018	-1	None	Ngp-1, HUMAUANTIG
1	GNL2	ENSG00000134697	ENST00000538069	protein_coding	NOVEL	None	29925	701	232	38040422	38048524	-1	None	Ngp-1, HUMAUANTIG
1	GNL2	ENSG00000134697	ENST00000469191	processed_transcript	KNOWN	None	29925	None	None	38041771	38048410	-1	None	Ngp-1, HUMAUANTIG
1	GNL2	ENSG00000134697	ENST00000483577	processed_transcript	KNOWN	None	29925	None	None	38047826	38061528	-1	None	Ngp-1, HUMAUANTIG
1	GNL2	ENSG00000134697	ENST00000489146	processed_transcript	KNOWN	None	29925	None	None	38047877	38048947	-1	None	Ngp-1, HUMAUANTIG
1	GNL2	ENSG00000134697	ENST00000463351	processed_transcript	KNOWN	None	29925	None	None	38056380	38059693	-1	None	Ngp-1, HUMAUANTIG
1	GNL2	ENSG00000134697	ENST00000488496	processed_transcript	KNOWN	None	29925	None	None	38059086	38061536	-1	None	Ngp-1, HUMAUANTIG
7	DUS4L	ENSG00000105865	ENST00000498786	processed_transcript	KNOWN	None	21517	None	None	107203929	107207633	1	None	PP35, DUS4
7	DUS4L	ENSG00000105865	ENST00000422290	nonsense_mediated_decay	KNOWN	None	21517	273	90	107204403	107218460	1	None	PP35, DUS4
7	DUS4L	ENSG00000105865	ENST00000265720	protein_coding	KNOWN	CCDS5745	21517	954	317	107204403	107218906	1	None	PP35, DUS4
7	DUS4L	ENSG00000105865	ENST00000431839	nonsense_mediated_decay	KNOWN	None	21517	273	90	107204425	107218354	1	None	PP35, DUS4
7	DUS4L	ENSG00000105865	ENST00000443233	nonsense_mediated_decay	KNOWN	None	21517	360	119	107204433	107218295	1	None	PP35, DUS4
7	DUS4L	ENSG00000105865	ENST00000436411	nonsense_mediated_decay	KNOWN	None	21517	273	90	107204444	107218750	1	None	PP35, DUS4
7	DUS4L	ENSG00000105865	ENST00000458611	nonsense_mediated_decay	KNOWN	None	21517	147	48	107204470	107215727	1	None	PP35, DUS4
7	DUS4L	ENSG00000105865	ENST00000467916	retained_intron	KNOWN	None	21517	None	None	107204476	107207592	1	None	PP35, DUS4
7	DUS4L	ENSG00000105865	ENST00000471763	retained_intron	KNOWN	None	21517	None	None	107210513	107217636	1	None	PP35, DUS4
7	DUS4L	ENSG00000105865	ENST00000497798	retained_intron	KNOWN	None	21517	None	None	107214301	107216187	1	None	PP35, DUS4
7	DUS4L	ENSG00000105865	ENST00000485825	retained_intron	KNOWN	None	21517	None	None	107215338	107218101	1	None	PP35, DUS4
7	DUS4L	ENSG00000105865	ENST00000402620	protein_coding	KNOWN	None	21517	591	196	107204425	107218354	1	None	PP35, DUS4
HSCHR6_MHC_QBL	STK19	ENSG00000206342	ENST00000478304	retained_intron	KNOWN	None	11398	None	None	31929344	31937180	1	None	D6S60, G11, RP1
HSCHR6_MHC_QBL	STK19	ENSG00000206342	ENST00000383328	protein_coding	KNOWN	None	11398	1095	364	31930038	31939616	1	None	D6S60, G11, RP1
HSCHR6_MHC_QBL	STK19	ENSG00000206342	ENST00000383327	protein_coding	KNOWN	None	11398	1107	368	31930113	31939616	1	None	D6S60, G11, RP1
HSCHR6_MHC_QBL	STK19	ENSG00000206342	ENST00000497879	retained_intron	KNOWN	None	11398	None	None	31930509	31939616	1	None	D6S60, G11, RP1
HSCHR6_MHC_QBL	STK19	ENSG00000206342	ENST00000469629	processed_transcript	PUTATIVE	None	11398	None	None	31930522	31939616	1	None	D6S60, G11, RP1
HSCHR6_MHC_QBL	STK19	ENSG00000206342	ENST00000481181	nonsense_mediated_decay	KNOWN	None	11398	204	67	31930557	31939616	1	None	D6S60, G11, RP1
HSCHR6_MHC_QBL	STK19	ENSG00000206342	ENST00000468702	retained_intron	KNOWN	None	11398	None	None	31930560	31931587	1	None	D6S60, G11, RP1
HSCHR6_MHC_QBL	STK19	ENSG00000206342	ENST00000490657	retained_intron	KNOWN	None	11398	None	None	31930724	31939616	1	None	D6S60, G11, RP1
HSCHR6_MHC_QBL	STK19	ENSG00000206342	ENST00000465945	retained_intron	KNOWN	None	11398	None	None	31930747	31938032	1	None	D6S60, G11, RP1
HSCHR6_MHC_QBL	STK19	ENSG00000206342	ENST00000460304	retained_intron	KNOWN	None	11398	None	None	31930751	31938971	1	None	D6S60, G11, RP1
HSCHR6_MHC_QBL	STK19	ENSG00000206342	ENST00000469343	retained_intron	KNOWN	None	11398	None	None	31938561	31939616	1	None	D6S60, G11, RP1
HSCHR6_MHC_QBL	STK19	ENSG00000206342	ENST00000547578	protein_coding	KNOWN	None	11398	966	321	31929344	31939615	1	None	D6S60, G11, RP1
X	ALAS2	ENSG00000158578	ENST00000396198	protein_coding	NOVEL	CCDS43960	397	1725	574	55035488	55057410	-1	ASB	None
X	ALAS2	ENSG00000158578	ENST00000330807	protein_coding	KNOWN	CCDS14366	397	1764	587	55035488	55057497	-1	ASB	None
X	ALAS2	ENSG00000158578	ENST00000335854	protein_coding	NOVEL	CCDS35303	397	1653	550	55035522	55057410	-1	ASB	None
X	ALAS2	ENSG00000158578	ENST00000498636	processed_transcript	KNOWN	None	397	None	None	55035546	55046866	-1	ASB	None
X	ALAS2	ENSG00000158578	ENST00000463868	processed_transcript	KNOWN	None	397	None	None	55043993	55057410	-1	ASB	None
X	ALAS2	ENSG00000158578	ENST00000477869	processed_transcript	KNOWN	None	397	None	None	55044084	55057410	-1	ASB	None
X	ALAS2	ENSG00000158578	ENST00000455688	protein_coding	KNOWN	None	397	664	220	55046767	55057410	-1	ASB	None
X	ALAS2	ENSG00000158578	ENST00000493869	processed_transcript	KNOWN	None	397	None	None	55046858	55057410	-1	ASB	None
17	ZNF18	ENSG00000154957	ENST00000322748	protein_coding	KNOWN	CCDS32568	12969	1650	549	11880762	11900689	-1	None	ZKSCAN6, KOX11, HDSG1, Zfp535, ZNF535, ZSCAN38
17	ZNF18	ENSG00000154957	ENST00000580306	protein_coding	KNOWN	CCDS32568	12969	1650	549	11880762	11900827	-1	None	ZKSCAN6, KOX11, HDSG1, Zfp535, ZNF535, ZSCAN38
17	ZNF18	ENSG00000154957	ENST00000580613	protein_coding	NOVEL	None	12969	759	252	11880767	11896059	-1	None	ZKSCAN6, KOX11, HDSG1, Zfp535, ZNF535, ZSCAN38
17	ZNF18	ENSG00000154957	ENST00000454073	protein_coding	KNOWN	None	12969	1647	548	11880769	11900774	-1	None	ZKSCAN6, KOX11, HDSG1, Zfp535, ZNF535, ZSCAN38
17	ZNF18	ENSG00000154957	ENST00000577671	protein_coding	PUTATIVE	None	12969	698	231	11881578	11894330	-1	None	ZKSCAN6, KOX11, HDSG1, Zfp535, ZNF535, ZSCAN38
17	ZNF18	ENSG00000154957	ENST00000582607	protein_coding	PUTATIVE	None	12969	729	242	11881656	11894337	-1	None	ZKSCAN6, KOX11, HDSG1, Zfp535, ZNF535, ZSCAN38
17	ZNF18	ENSG00000154957	ENST00000580903	protein_coding	KNOWN	None	12969	290	95	11895857	11900792	-1	None	ZKSCAN6, KOX11, HDSG1, Zfp535, ZNF535, ZSCAN38
19	LYL1	ENSG00000104903	ENST00000264824	protein_coding	KNOWN	CCDS12292	6734	843	280	13209847	13213681	-1	None	bHLHa18
19	LYL1	ENSG00000104903	ENST00000590974	protein_coding	PUTATIVE	None	6734	172	56	13211504	13213975	-1	None	bHLHa18
19	LYL1	ENSG00000104903	ENST00000590120	retained_intron	KNOWN	None	6734	None	None	13211992	13213538	-1	None	bHLHa18
22	None	ENSG00000249590	ENST00000454552	nonsense_mediated_decay	KNOWN	None	None	223	73	30805244	30824977	1	None	None
22	None	ENSG00000249590	ENST00000439838	protein_coding	PUTATIVE	None	None	1017	338	30805251	30824974	1	None	None
22	None	ENSG00000249590	ENST00000439023	protein_coding	PUTATIVE	None	None	434	143	30805252	30824977	1	None	None
22	None	ENSG00000268538	ENST00000598426	protein_coding	KNOWN	None	None	258	85	30814212	30814469	-1	None	None
1	ELF3	ENSG00000163435	ENST00000359651	protein_coding	KNOWN	CCDS1419	3318	1116	371	201977073	201985137	1	ESX	EPR-1, ESE-1, ERT
1	ELF3	ENSG00000163435	ENST00000367284	protein_coding	KNOWN	CCDS1419	3318	1116	371	201979645	201986316	1	ESX	EPR-1, ESE-1, ERT
1	ELF3	ENSG00000163435	ENST00000367283	protein_coding	KNOWN	CCDS1419	3318	1116	371	201979715	201985137	1	ESX	EPR-1, ESE-1, ERT
1	ELF3	ENSG00000163435	ENST00000495848	processed_transcript	KNOWN	None	3318	None	None	201979722	201981699	1	ESX	EPR-1, ESE-1, ERT
1	ELF3	ENSG00000163435	ENST00000490203	processed_transcript	KNOWN	None	3318	None	None	201979727	201982396	1	ESX	EPR-1, ESE-1, ERT
1	ELF3	ENSG00000163435	ENST00000498017	processed_transcript	KNOWN	None	3318	None	None	201979753	201980936	1	ESX	EPR-1, ESE-1, ERT
1	ELF3	ENSG00000163435	ENST00000446188	protein_coding	KNOWN	None	3318	698	231	201979772	201982325	1	ESX	EPR-1, ESE-1, ERT
1	ELF3	ENSG00000163435	ENST00000470384	processed_transcript	KNOWN	None	3318	None	None	201981573	201982404	1	ESX	EPR-1, ESE-1, ERT
1	ELF3	ENSG00000163435	ENST00000479874	processed_transcript	KNOWN	None	3318	None	None	201981697	201982123	1	ESX	EPR-1, ESE-1, ERT
1	ELF3	ENSG00000163435	ENST00000475698	processed_transcript	KNOWN	None	3318	None	None	201982906	201984922	1	ESX	EPR-1, ESE-1, ERT
HSCHR6_MHC_MCF	None	ENSG00000257418	ENST00000547192	protein_coding	NOVEL	None	None	111	36	31734428	31896594	1	None	None
7	NOM1	ENSG00000146909	ENST00000275820	protein_coding	KNOWN	CCDS34787	13244	2583	860	156742417	156765876	1	C7orf3	SGD1
7	NOM1	ENSG00000146909	ENST00000460332	processed_transcript	KNOWN	None	13244	None	None	156746806	156752812	1	C7orf3	SGD1
7	NOM1	ENSG00000146909	ENST00000475176	retained_intron	KNOWN	None	13244	None	None	156752690	156756046	1	C7orf3	SGD1
7	NOM1	ENSG00000146909	ENST00000472491	retained_intron	KNOWN	None	13244	None	None	156754862	156756929	1	C7orf3	SGD1
7	NOM1	ENSG00000146909	ENST00000489850	retained_intron	KNOWN	None	13244	None	None	156754865	156756169	1	C7orf3	SGD1
7	NOM1	ENSG00000146909	ENST00000469271	retained_intron	KNOWN	None	13244	None	None	156754865	156756819	1	C7orf3	SGD1
7	NOM1	ENSG00000146909	ENST00000485661	retained_intron	KNOWN	None	13244	None	None	156758853	156761890	1	C7orf3	SGD1
7	NOM1	ENSG00000146909	ENST00000486131	retained_intron	KNOWN	None	13244	None	None	156761449	156762777	1	C7orf3	SGD1
3	UBP1	ENSG00000153560	ENST00000283629	protein_coding	KNOWN	CCDS2659	12507	1623	540	33429828	33481870	-1	None	LBP-1a
3	UBP1	ENSG00000153560	ENST00000492136	retained_intron	KNOWN	None	12507	None	None	33429830	33439930	-1	None	LBP-1a
3	UBP1	ENSG00000153560	ENST00000447368	protein_coding	KNOWN	CCDS46788	12507	1515	504	33429831	33481502	-1	None	LBP-1a
3	UBP1	ENSG00000153560	ENST00000466441	retained_intron	KNOWN	None	12507	None	None	33431589	33438113	-1	None	LBP-1a
3	UBP1	ENSG00000153560	ENST00000283628	protein_coding	KNOWN	CCDS2659	12507	1623	540	33431626	33482002	-1	None	LBP-1a
3	UBP1	ENSG00000153560	ENST00000486388	processed_transcript	KNOWN	None	12507	None	None	33431758	33450214	-1	None	LBP-1a
3	UBP1	ENSG00000153560	ENST00000464787	retained_intron	KNOWN	None	12507	None	None	33433855	33437794	-1	None	LBP-1a
3	UBP1	ENSG00000153560	ENST00000411650	nonsense_mediated_decay	KNOWN	None	12507	495	164	33437735	33453151	-1	None	LBP-1a
3	UBP1	ENSG00000153560	ENST00000490112	retained_intron	KNOWN	None	12507	None	None	33438074	33441759	-1	None	LBP-1a
3	UBP1	ENSG00000153560	ENST00000467613	processed_transcript	KNOWN	None	12507	None	None	33442454	33454248	-1	None	LBP-1a
3	UBP1	ENSG00000153560	ENST00000481761	processed_transcript	KNOWN	None	12507	None	None	33450777	33458312	-1	None	LBP-1a
3	UBP1	ENSG00000153560	ENST00000456378	protein_coding	KNOWN	None	12507	444	147	33454218	33482079	-1	None	LBP-1a
3	UBP1	ENSG00000153560	ENST00000496310	processed_transcript	KNOWN	None	12507	None	None	33458285	33482863	-1	None	LBP-1a
3	IP6K2	ENSG00000068745	ENST00000328631	protein_coding	KNOWN	CCDS2777	17313	1281	426	48725436	48754683	-1	IHPK2	None
3	IP6K2	ENSG00000068745	ENST00000479914	retained_intron	KNOWN	None	17313	None	None	48726971	48733021	-1	IHPK2	None
3	IP6K2	ENSG00000068745	ENST00000491686	retained_intron	KNOWN	None	17313	None	None	48727043	48730768	-1	IHPK2	None
3	IP6K2	ENSG00000068745	ENST00000449563	protein_coding	PUTATIVE	None	17313	392	129	48730492	48754647	-1	IHPK2	None
3	IP6K2	ENSG00000068745	ENST00000413654	protein_coding	PUTATIVE	None	17313	314	103	48730501	48754599	-1	IHPK2	None
3	IP6K2	ENSG00000068745	ENST00000443853	protein_coding	PUTATIVE	None	17313	301	99	48730514	48754647	-1	IHPK2	None
3	IP6K2	ENSG00000068745	ENST00000437427	protein_coding	PUTATIVE	None	17313	273	90	48730542	48754647	-1	IHPK2	None
3	IP6K2	ENSG00000068745	ENST00000412850	protein_coding	PUTATIVE	None	17313	261	86	48730554	48754648	-1	IHPK2	None
3	IP6K2	ENSG00000068745	ENST00000454335	protein_coding	PUTATIVE	None	17313	421	139	48730556	48754621	-1	IHPK2	None
3	IP6K2	ENSG00000068745	ENST00000340879	protein_coding	KNOWN	CCDS33752	17313	294	97	48730881	48754649	-1	IHPK2	None
3	IP6K2	ENSG00000068745	ENST00000433104	nonsense_mediated_decay	KNOWN	None	17313	393	130	48730889	48777786	-1	IHPK2	None
3	IP6K2	ENSG00000068745	ENST00000416707	nonsense_mediated_decay	KNOWN	None	17313	213	70	48730921	48754636	-1	IHPK2	None
3	IP6K2	ENSG00000068745	ENST00000431721	protein_coding	NOVEL	CCDS54580	17313	558	185	48730954	48754649	-1	IHPK2	None
3	IP6K2	ENSG00000068745	ENST00000449610	protein_coding	NOVEL	None	17313	393	130	48731218	48754625	-1	IHPK2	None
3	IP6K2	ENSG00000068745	ENST00000413298	protein_coding	KNOWN	CCDS33752	17313	294	97	48731386	48754643	-1	IHPK2	None
3	IP6K2	ENSG00000068745	ENST00000450045	protein_coding	NOVEL	None	17313	456	151	48731417	48752850	-1	IHPK2	None
3	IP6K2	ENSG00000068745	ENST00000446860	protein_coding	NOVEL	CCDS54581	17313	567	188	48731484	48754647	-1	IHPK2	None
3	IP6K2	ENSG00000068745	ENST00000455545	protein_coding	PUTATIVE	None	17313	445	147	48731605	48752962	-1	IHPK2	None
3	IP6K2	ENSG00000068745	ENST00000412795	nonsense_mediated_decay	KNOWN	None	17313	387	128	48731608	48754682	-1	IHPK2	None
3	IP6K2	ENSG00000068745	ENST00000417896	protein_coding	NOVEL	None	17313	393	130	48731778	48754639	-1	IHPK2	None
3	IP6K2	ENSG00000068745	ENST00000443964	protein_coding	NOVEL	None	17313	570	189	48732057	48754625	-1	IHPK2	None
3	IP6K2	ENSG00000068745	ENST00000436134	processed_transcript	KNOWN	None	17313	None	None	48732204	48754621	-1	IHPK2	None
3	IP6K2	ENSG00000068745	ENST00000453202	protein_coding	NOVEL	None	17313	393	130	48732305	48733015	-1	IHPK2	None
3	IP6K2	ENSG00000068745	ENST00000440424	protein_coding	PUTATIVE	None	17313	164	53	48732561	48754621	-1	IHPK2	None
3	IP6K2	ENSG00000068745	ENST00000434860	protein_coding	PUTATIVE	None	17313	162	53	48732563	48754649	-1	IHPK2	None
3	IP6K2	ENSG00000068745	ENST00000424035	protein_coding	PUTATIVE	None	17313	285	94	48732602	48754648	-1	IHPK2	None
3	IP6K2	ENSG00000068745	ENST00000476645	processed_transcript	KNOWN	None	17313	None	None	48736795	48754626	-1	IHPK2	None
3	IP6K2	ENSG00000068745	ENST00000432678	protein_coding	KNOWN	CCDS54579	17313	264	87	48730886	48754711	-1	IHPK2	None
22	MTFP1	ENSG00000242114	ENST00000266263	protein_coding	KNOWN	CCDS33635	26945	501	166	30821518	30825045	1	None	MTP18, HSPC242
22	MTFP1	ENSG00000242114	ENST00000489658	retained_intron	KNOWN	None	26945	None	None	30821763	30823179	1	None	MTP18, HSPC242
22	MTFP1	ENSG00000242114	ENST00000355143	protein_coding	NOVEL	CCDS33634	26945	408	135	30821764	30825040	1	None	MTP18, HSPC242
22	MTFP1	ENSG00000242114	ENST00000412752	nonsense_mediated_decay	KNOWN	None	26945	225	74	30821768	30824630	1	None	MTP18, HSPC242
22	MTFP1	ENSG00000242114	ENST00000407550	protein_coding	NOVEL	None	26945	432	143	30821805	30824938	1	None	MTP18, HSPC242
21	HSF2BP	ENSG00000160207	ENST00000291560	protein_coding	KNOWN	CCDS13697	5226	1005	334	44949072	45079374	-1	None	None
21	HSF2BP	ENSG00000160207	ENST00000443485	protein_coding	NOVEL	None	5226	680	225	45033732	45079351	-1	None	None
21	HSF2BP	ENSG00000160207	ENST00000542962	protein_coding	KNOWN	None	5226	780	259	44949082	45078025	-1	None	None
HSCHR6_MHC_MCF	LY6G6D	ENSG00000236902	ENST00000455955	protein_coding	PUTATIVE	None	13935	1149	382	31750965	31761981	1	C6orf23	MEGT1, Ly6-D, G6D, LY6-D, NG25
HSCHR6_MHC_MCF	LY6G6D	ENSG00000236902	ENST00000444880	protein_coding	KNOWN	None	13935	402	133	31759421	31761867	1	C6orf23	MEGT1, Ly6-D, G6D, LY6-D, NG25
HSCHR6_MHC_MCF	LY6G6D	ENSG00000236902	ENST00000439522	protein_coding	PUTATIVE	None	13935	523	173	31759421	31761867	1	C6orf23	MEGT1, Ly6-D, G6D, LY6-D, NG25
HSCHR6_MHC_MCF	LY6G6D	ENSG00000236902	ENST00000491594	retained_intron	KNOWN	None	13935	None	None	31759421	31761867	1	C6orf23	MEGT1, Ly6-D, G6D, LY6-D, NG25
HSCHR6_MHC_SSTO	DDX39B	ENSG00000235439	ENST00000487541	retained_intron	KNOWN	None	13917	None	None	31487943	31489468	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_SSTO	DDX39B	ENSG00000235439	ENST00000493860	nonsense_mediated_decay	KNOWN	None	13917	424	140	31487943	31493199	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_SSTO	DDX39B	ENSG00000235439	ENST00000450987	protein_coding	KNOWN	None	13917	1278	425	31487943	31498260	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_SSTO	DDX39B	ENSG00000235439	ENST00000489688	retained_intron	KNOWN	None	13917	None	None	31487943	31499741	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_SSTO	DDX39B	ENSG00000235439	ENST00000431360	protein_coding	KNOWN	None	13917	1287	428	31487943	31500172	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_SSTO	DDX39B	ENSG00000235439	ENST00000430784	protein_coding	KNOWN	None	13917	1287	428	31487943	31500172	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_SSTO	DDX39B	ENSG00000235439	ENST00000470514	processed_transcript	PUTATIVE	None	13917	None	None	31487967	31488659	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_SSTO	DDX39B	ENSG00000235439	ENST00000455400	protein_coding	KNOWN	None	13917	561	186	31488503	31492235	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_SSTO	DDX39B	ENSG00000235439	ENST00000460280	retained_intron	KNOWN	None	13917	None	None	31488840	31489395	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_SSTO	DDX39B	ENSG00000235439	ENST00000490297	retained_intron	KNOWN	None	13917	None	None	31488998	31500125	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_SSTO	DDX39B	ENSG00000235439	ENST00000427489	protein_coding	KNOWN	None	13917	737	244	31489026	31499705	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_SSTO	DDX39B	ENSG00000235439	ENST00000496801	retained_intron	KNOWN	None	13917	None	None	31490137	31499725	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_SSTO	DDX39B	ENSG00000235439	ENST00000439927	protein_coding	KNOWN	None	13917	867	288	31490504	31499255	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_SSTO	DDX39B	ENSG00000235439	ENST00000444726	protein_coding	KNOWN	None	13917	714	237	31493112	31499742	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_SSTO	DDX39B	ENSG00000235439	ENST00000436995	protein_coding	KNOWN	None	13917	707	234	31493119	31499208	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_SSTO	DDX39B	ENSG00000235439	ENST00000444267	protein_coding	KNOWN	None	13917	695	230	31493131	31499661	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_SSTO	DDX39B	ENSG00000235439	ENST00000428291	protein_coding	KNOWN	None	13917	591	196	31494333	31499713	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_SSTO	DDX39B	ENSG00000235439	ENST00000417136	protein_coding	KNOWN	None	13917	562	186	31494347	31499453	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_SSTO	DDX39B	ENSG00000235439	ENST00000419913	protein_coding	KNOWN	None	13917	376	124	31496543	31499710	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_SSTO	DDX39B	ENSG00000235439	ENST00000455324	protein_coding	KNOWN	None	13917	409	135	31496555	31499715	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_SSTO	DDX39B	ENSG00000235439	ENST00000449010	protein_coding	KNOWN	None	13917	397	131	31496606	31499727	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_SSTO	DDX39B	ENSG00000235439	ENST00000453799	protein_coding	KNOWN	None	13917	287	94	31496923	31499597	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_SSTO	DDX39B	ENSG00000235439	ENST00000550217	protein_coding	KNOWN	None	13917	1332	443	31487943	31500172	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_SSTO	DDX39B	ENSG00000235439	ENST00000549374	protein_coding	KNOWN	None	13917	972	323	31488817	31500172	-1	BAT1	D6S81E, UAP56
2	USP34	ENSG00000115464	ENST00000411912	protein_coding	NOVEL	None	20066	3670	1222	61414598	61468749	-1	None	KIAA0570, KIAA0729
2	USP34	ENSG00000115464	ENST00000398571	protein_coding	KNOWN	CCDS42686	20066	10641	3546	61414598	61697904	-1	None	KIAA0570, KIAA0729
2	USP34	ENSG00000115464	ENST00000436269	protein_coding	NOVEL	None	20066	1275	424	61414685	61431465	-1	None	KIAA0570, KIAA0729
2	USP34	ENSG00000115464	ENST00000492604	processed_transcript	KNOWN	None	20066	None	None	61415609	61416931	-1	None	KIAA0570, KIAA0729
2	USP34	ENSG00000115464	ENST00000463046	retained_intron	KNOWN	None	20066	None	None	61416412	61484021	-1	None	KIAA0570, KIAA0729
2	USP34	ENSG00000115464	ENST00000490552	retained_intron	KNOWN	None	20066	None	None	61416589	61418484	-1	None	KIAA0570, KIAA0729
2	USP34	ENSG00000115464	ENST00000498268	retained_intron	KNOWN	None	20066	None	None	61417762	61420500	-1	None	KIAA0570, KIAA0729
2	USP34	ENSG00000115464	ENST00000476716	processed_transcript	KNOWN	None	20066	None	None	61431662	61447503	-1	None	KIAA0570, KIAA0729
2	USP34	ENSG00000115464	ENST00000467128	processed_transcript	KNOWN	None	20066	None	None	61433923	61441798	-1	None	KIAA0570, KIAA0729
2	USP34	ENSG00000115464	ENST00000472689	processed_transcript	KNOWN	None	20066	None	None	61436034	61449820	-1	None	KIAA0570, KIAA0729
2	USP34	ENSG00000115464	ENST00000472706	processed_transcript	KNOWN	None	20066	None	None	61441735	61528167	-1	None	KIAA0570, KIAA0729
2	USP34	ENSG00000115464	ENST00000490527	retained_intron	KNOWN	None	20066	None	None	61441762	61448980	-1	None	KIAA0570, KIAA0729
2	USP34	ENSG00000115464	ENST00000483672	retained_intron	KNOWN	None	20066	None	None	61447328	61448736	-1	None	KIAA0570, KIAA0729
2	USP34	ENSG00000115464	ENST00000482250	retained_intron	KNOWN	None	20066	None	None	61447540	61450110	-1	None	KIAA0570, KIAA0729
2	USP34	ENSG00000115464	ENST00000487547	retained_intron	KNOWN	None	20066	None	None	61448694	61450796	-1	None	KIAA0570, KIAA0729
2	USP34	ENSG00000115464	ENST00000468703	retained_intron	KNOWN	None	20066	None	None	61449767	61450390	-1	None	KIAA0570, KIAA0729
2	USP34	ENSG00000115464	ENST00000453734	protein_coding	PUTATIVE	None	20066	2433	810	61453923	61507468	-1	None	KIAA0570, KIAA0729
2	USP34	ENSG00000115464	ENST00000492882	retained_intron	KNOWN	None	20066	None	None	61492401	61493174	-1	None	KIAA0570, KIAA0729
2	USP34	ENSG00000115464	ENST00000484179	retained_intron	KNOWN	None	20066	None	None	61492720	61508286	-1	None	KIAA0570, KIAA0729
2	USP34	ENSG00000115464	ENST00000494867	retained_intron	KNOWN	None	20066	None	None	61504837	61508274	-1	None	KIAA0570, KIAA0729
2	USP34	ENSG00000115464	ENST00000460004	processed_transcript	KNOWN	None	20066	None	None	61566710	61575163	-1	None	KIAA0570, KIAA0729
2	USP34	ENSG00000115464	ENST00000453133	nonsense_mediated_decay	KNOWN	None	20066	136	44	61575407	61697825	-1	None	KIAA0570, KIAA0729
HSCHR6_MHC_SSTO	None	ENSG00000235116	ENST00000440062	processed_pseudogene	KNOWN	None	None	None	None	32591350	32591757	-1	None	None
HSCHR6_MHC_SSTO	HLA-DRB7	ENSG00000227099	ENST00000422566	unprocessed_pseudogene	KNOWN	None	4955	None	None	32594077	32613256	-1	None	None
HSCHR6_MHC_MANN	None	ENSG00000265326	ENST00000577803	misc_RNA	NOVEL	None	None	None	None	28945258	28945553	1	None	None
6	THBS2	ENSG00000186340	ENST00000366787	protein_coding	KNOWN	CCDS34574	11786	3519	1172	169615875	169654139	-1	None	TSP2
6	THBS2	ENSG00000186340	ENST00000488355	processed_transcript	KNOWN	None	11786	None	None	169617549	169623535	-1	None	TSP2
6	THBS2	ENSG00000186340	ENST00000461848	processed_transcript	KNOWN	None	11786	None	None	169634605	169637507	-1	None	TSP2
6	THBS2	ENSG00000186340	ENST00000472733	processed_transcript	KNOWN	None	11786	None	None	169646160	169648775	-1	None	TSP2
6	THBS2	ENSG00000186340	ENST00000435791	protein_coding	KNOWN	None	11786	251	82	169648870	169652246	-1	None	TSP2
HSCHR6_MHC_MANN	HCG15	ENSG00000233035	ENST00000426098	processed_transcript	KNOWN	None	18361	None	None	28953985	28955266	1	None	dJ25J6.6
HSCHR6_MHC_DBB	MCCD1	ENSG00000231975	ENST00000452195	protein_coding	KNOWN	None	20668	360	119	31478678	31480193	1	None	None
7	STK31	ENSG00000196335	ENST00000355870	protein_coding	KNOWN	CCDS5386	11407	3060	1019	23749786	23872132	1	None	TDRD8, SgK396
7	STK31	ENSG00000196335	ENST00000422637	protein_coding	PUTATIVE	None	11407	421	139	23749822	23775226	1	None	TDRD8, SgK396
7	STK31	ENSG00000196335	ENST00000456014	protein_coding	PUTATIVE	None	11407	478	158	23749874	23775247	1	None	TDRD8, SgK396
7	STK31	ENSG00000196335	ENST00000476399	retained_intron	KNOWN	None	11407	None	None	23749879	23821139	1	None	TDRD8, SgK396
7	STK31	ENSG00000196335	ENST00000433467	protein_coding	NOVEL	CCDS59049	11407	2991	996	23749894	23872068	1	None	TDRD8, SgK396
7	STK31	ENSG00000196335	ENST00000461866	retained_intron	KNOWN	None	11407	None	None	23749931	23767229	1	None	TDRD8, SgK396
7	STK31	ENSG00000196335	ENST00000354639	protein_coding	KNOWN	CCDS43556	11407	2991	996	23749945	23872126	1	None	TDRD8, SgK396
7	STK31	ENSG00000196335	ENST00000531170	protein_coding	KNOWN	None	11407	128	41	23749946	23757146	1	None	TDRD8, SgK396
7	STK31	ENSG00000196335	ENST00000444333	protein_coding	KNOWN	None	11407	281	92	23749997	23768735	1	None	TDRD8, SgK396
7	STK31	ENSG00000196335	ENST00000405627	processed_transcript	KNOWN	None	11407	None	None	23761728	23872132	1	None	TDRD8, SgK396
7	STK31	ENSG00000196335	ENST00000528479	processed_transcript	KNOWN	None	11407	None	None	23762379	23775279	1	None	TDRD8, SgK396
7	STK31	ENSG00000196335	ENST00000529549	processed_transcript	KNOWN	None	11407	None	None	23762379	23793946	1	None	TDRD8, SgK396
7	STK31	ENSG00000196335	ENST00000478321	processed_transcript	KNOWN	None	11407	None	None	23792422	23811893	1	None	TDRD8, SgK396
7	STK31	ENSG00000196335	ENST00000428484	protein_coding	KNOWN	CCDS43556	11407	2991	996	23749997	23872126	1	None	TDRD8, SgK396
HSCHR6_MHC_MANN	HCG16	ENSG00000240111	ENST00000443582	processed_transcript	KNOWN	None	20424	None	None	28954582	28956318	1	None	dJ25J6.7
HSCHR6_MHC_SSTO	FAM8A5P	ENSG00000238101	ENST00000438040	processed_pseudogene	KNOWN	None	16376	None	None	32596912	32598043	1	None	None
19	PIH1D1	ENSG00000104872	ENST00000595633	retained_intron	KNOWN	None	26075	None	None	49949555	49950434	-1	NOP17	FLJ20643
19	PIH1D1	ENSG00000104872	ENST00000596916	nonsense_mediated_decay	KNOWN	None	26075	288	95	49949555	49954093	-1	NOP17	FLJ20643
19	PIH1D1	ENSG00000104872	ENST00000602076	retained_intron	KNOWN	None	26075	None	None	49949556	49950156	-1	NOP17	FLJ20643
19	PIH1D1	ENSG00000104872	ENST00000602226	processed_transcript	KNOWN	None	26075	None	None	49949556	49950302	-1	NOP17	FLJ20643
19	PIH1D1	ENSG00000104872	ENST00000598175	nonsense_mediated_decay	KNOWN	None	26075	166	54	49949556	49951267	-1	NOP17	FLJ20643
19	PIH1D1	ENSG00000104872	ENST00000597577	nonsense_mediated_decay	KNOWN	None	26075	344	113	49949556	49951298	-1	NOP17	FLJ20643
19	PIH1D1	ENSG00000104872	ENST00000594845	nonsense_mediated_decay	KNOWN	None	26075	164	53	49949556	49951319	-1	NOP17	FLJ20643
19	PIH1D1	ENSG00000104872	ENST00000593629	retained_intron	KNOWN	None	26075	None	None	49949556	49951831	-1	NOP17	FLJ20643
19	PIH1D1	ENSG00000104872	ENST00000598889	nonsense_mediated_decay	KNOWN	None	26075	264	87	49949556	49952777	-1	NOP17	FLJ20643
19	PIH1D1	ENSG00000104872	ENST00000600875	protein_coding	NOVEL	None	26075	550	182	49949556	49952844	-1	NOP17	FLJ20643
19	PIH1D1	ENSG00000104872	ENST00000596651	nonsense_mediated_decay	KNOWN	None	26075	390	129	49949556	49952900	-1	NOP17	FLJ20643
19	PIH1D1	ENSG00000104872	ENST00000262265	protein_coding	KNOWN	CCDS12765	26075	873	290	49949556	49955067	-1	NOP17	FLJ20643
19	PIH1D1	ENSG00000104872	ENST00000596049	protein_coding	KNOWN	CCDS12765	26075	873	290	49949626	49956751	-1	NOP17	FLJ20643
19	PIH1D1	ENSG00000104872	ENST00000601807	protein_coding	PUTATIVE	None	26075	821	272	49949658	49954858	-1	NOP17	FLJ20643
19	PIH1D1	ENSG00000104872	ENST00000601053	nonsense_mediated_decay	KNOWN	None	26075	346	114	49949999	49954787	-1	NOP17	FLJ20643
19	PIH1D1	ENSG00000104872	ENST00000596895	retained_intron	KNOWN	None	26075	None	None	49950471	49951267	-1	NOP17	FLJ20643
19	PIH1D1	ENSG00000104872	ENST00000595516	retained_intron	KNOWN	None	26075	None	None	49950544	49955057	-1	NOP17	FLJ20643
19	PIH1D1	ENSG00000104872	ENST00000599366	protein_coding	NOVEL	None	26075	709	235	49950632	49956752	-1	NOP17	FLJ20643
19	PIH1D1	ENSG00000104872	ENST00000597415	protein_coding	PUTATIVE	None	26075	492	163	49950681	49956754	-1	NOP17	FLJ20643
19	PIH1D1	ENSG00000104872	ENST00000593900	retained_intron	KNOWN	None	26075	None	None	49950967	49955074	-1	NOP17	FLJ20643
19	PIH1D1	ENSG00000104872	ENST00000595074	retained_intron	KNOWN	None	26075	None	None	49952249	49955048	-1	NOP17	FLJ20643
19	PIH1D1	ENSG00000104872	ENST00000599791	retained_intron	KNOWN	None	26075	None	None	49952368	49955005	-1	NOP17	FLJ20643
19	PIH1D1	ENSG00000104872	ENST00000601825	protein_coding	KNOWN	None	26075	246	81	49952823	49956750	-1	NOP17	FLJ20643
19	PIH1D1	ENSG00000104872	ENST00000595550	protein_coding	PUTATIVE	None	26075	106	34	49954148	49955158	-1	NOP17	FLJ20643
HSCHR6_MHC_MANN	OR2AD1P	ENSG00000232781	ENST00000439459	unprocessed_pseudogene	KNOWN	None	14749	None	None	28994461	28995388	-1	None	OR2AD1, hs6M1-8P
1	RSPO1	ENSG00000169218	ENST00000373059	protein_coding	NOVEL	CCDS55591	21679	711	236	38076951	38100337	-1	None	FLJ40906, RSPONDIN
1	RSPO1	ENSG00000169218	ENST00000401070	protein_coding	NOVEL	CCDS55590	21679	603	200	38076951	38100337	-1	None	FLJ40906, RSPONDIN
1	RSPO1	ENSG00000169218	ENST00000401069	protein_coding	KNOWN	CCDS41304	21679	792	263	38077240	38100595	-1	None	FLJ40906, RSPONDIN
1	RSPO1	ENSG00000169218	ENST00000401068	protein_coding	KNOWN	CCDS41304	21679	792	263	38077484	38100288	-1	None	FLJ40906, RSPONDIN
1	RSPO1	ENSG00000169218	ENST00000356545	protein_coding	KNOWN	CCDS41304	21679	792	263	38076951	38100491	-1	None	FLJ40906, RSPONDIN
1	RSPO1	ENSG00000169218	ENST00000401071	protein_coding	KNOWN	CCDS55590	21679	603	200	38076951	38100337	-1	None	FLJ40906, RSPONDIN
HSCHR6_MHC_SSTO	None	ENSG00000266860	ENST00000578081	snRNA	NOVEL	None	None	None	None	32635039	32635187	-1	None	None
HSCHR6_MHC_MANN	OR2P1P	ENSG00000233019	ENST00000449414	unprocessed_pseudogene	KNOWN	None	8272	None	None	29039604	29040379	-1	None	hs6M1-26
2	FAM150B	ENSG00000189292	ENST00000403610	protein_coding	NOVEL	CCDS46218	27683	459	152	279558	288296	-1	None	None
2	FAM150B	ENSG00000189292	ENST00000401503	protein_coding	NOVEL	None	27683	183	60	279766	287323	-1	None	None
2	FAM150B	ENSG00000189292	ENST00000405290	protein_coding	NOVEL	None	27683	180	59	279929	287299	-1	None	None
2	FAM150B	ENSG00000189292	ENST00000401489	protein_coding	NOVEL	None	27683	308	101	279929	287687	-1	None	None
2	FAM150B	ENSG00000189292	ENST00000344414	protein_coding	NOVEL	None	27683	180	59	279951	286919	-1	None	None
2	FAM150B	ENSG00000189292	ENST00000452023	protein_coding	NOVEL	None	27683	453	150	283111	288851	-1	None	None
2	FAM150B	ENSG00000189292	ENST00000463919	retained_intron	KNOWN	None	27683	None	None	285939	287345	-1	None	None
13	DCUN1D2	ENSG00000150401	ENST00000375403	nonsense_mediated_decay	KNOWN	None	20328	561	186	114110134	114145006	-1	C13orf17	FLJ10704, FLJ20092
13	DCUN1D2	ENSG00000150401	ENST00000332592	protein_coding	PUTATIVE	None	20328	381	126	114110134	114145006	-1	C13orf17	FLJ10704, FLJ20092
13	DCUN1D2	ENSG00000150401	ENST00000478244	protein_coding	KNOWN	CCDS32013	20328	780	259	114111362	114145267	-1	C13orf17	FLJ10704, FLJ20092
13	DCUN1D2	ENSG00000150401	ENST00000482038	retained_intron	KNOWN	None	20328	None	None	114112112	114113858	-1	C13orf17	FLJ10704, FLJ20092
13	DCUN1D2	ENSG00000150401	ENST00000438545	nonsense_mediated_decay	KNOWN	None	20328	734	243	114113627	114144923	-1	C13orf17	FLJ10704, FLJ20092
13	DCUN1D2	ENSG00000150401	ENST00000491647	retained_intron	KNOWN	None	20328	None	None	114115370	114117403	-1	C13orf17	FLJ10704, FLJ20092
13	DCUN1D2	ENSG00000150401	ENST00000465938	protein_coding	PUTATIVE	None	20328	402	133	114128512	114138505	-1	C13orf17	FLJ10704, FLJ20092
13	DCUN1D2	ENSG00000150401	ENST00000496873	protein_coding	PUTATIVE	None	20328	359	118	114128525	114145266	-1	C13orf17	FLJ10704, FLJ20092
13	DCUN1D2	ENSG00000150401	ENST00000460318	processed_transcript	KNOWN	None	20328	None	None	114134781	114138311	-1	C13orf17	FLJ10704, FLJ20092
13	DCUN1D2	ENSG00000150401	ENST00000439909	protein_coding	PUTATIVE	None	20328	271	89	114134963	114145006	-1	C13orf17	FLJ10704, FLJ20092
13	DCUN1D2	ENSG00000150401	ENST00000465710	protein_coding	PUTATIVE	None	20328	52	16	114138278	114144809	-1	C13orf17	FLJ10704, FLJ20092
13	DCUN1D2	ENSG00000150401	ENST00000375399	protein_coding	KNOWN	None	20328	561	186	114117166	114145023	-1	C13orf17	FLJ10704, FLJ20092
9	SDCCAG3	ENSG00000165689	ENST00000357365	protein_coding	KNOWN	CCDS43904	10667	1308	435	139296377	139304979	-1	None	NY-CO-3
9	SDCCAG3	ENSG00000165689	ENST00000298537	protein_coding	KNOWN	CCDS6999	10667	1239	412	139296377	139305061	-1	None	NY-CO-3
9	SDCCAG3	ENSG00000165689	ENST00000371725	protein_coding	KNOWN	CCDS43903	10667	1089	362	139296403	139305052	-1	None	NY-CO-3
9	SDCCAG3	ENSG00000165689	ENST00000461693	processed_transcript	KNOWN	None	10667	None	None	139296932	139299800	-1	None	NY-CO-3
9	SDCCAG3	ENSG00000165689	ENST00000481114	processed_transcript	KNOWN	None	10667	None	None	139297096	139298560	-1	None	NY-CO-3
9	SDCCAG3	ENSG00000165689	ENST00000417512	protein_coding	NOVEL	None	10667	503	166	139297117	139301637	-1	None	NY-CO-3
9	SDCCAG3	ENSG00000165689	ENST00000466579	processed_transcript	KNOWN	None	10667	None	None	139297134	139299232	-1	None	NY-CO-3
9	SDCCAG3	ENSG00000165689	ENST00000486441	processed_transcript	KNOWN	None	10667	None	None	139298562	139301660	-1	None	NY-CO-3
9	SDCCAG3	ENSG00000165689	ENST00000468963	processed_transcript	KNOWN	None	10667	None	None	139301469	139302418	-1	None	NY-CO-3
9	SDCCAG3	ENSG00000165689	ENST00000371723	protein_coding	NOVEL	None	10667	669	222	139301597	139305045	-1	None	NY-CO-3
9	SDCCAG3	ENSG00000165689	ENST00000446833	protein_coding	PUTATIVE	None	10667	326	107	139302327	139304720	-1	None	NY-CO-3
HSCHR6_MHC_SSTO	HLA-DQB1-AS1	ENSG00000230414	ENST00000456485	processed_transcript	PUTATIVE	None	39762	None	None	32715551	32716400	1	None	None
1	TBX15	ENSG00000092607	ENST00000207157	protein_coding	KNOWN	CCDS30816	11594	1491	496	119425669	119532179	-1	TBX14	None
1	TBX15	ENSG00000092607	ENST00000449873	protein_coding	NOVEL	None	11594	993	330	119425670	119456748	-1	TBX14	None
1	TBX15	ENSG00000092607	ENST00000369429	protein_coding	PUTATIVE	None	11594	1809	602	119425670	119530428	-1	TBX14	None
1	GPR37L1	ENSG00000170075	ENST00000367282	protein_coding	KNOWN	CCDS1420	14923	1446	481	202091986	202098640	1	None	ETBR-LP-2
10	RNU7-77P	ENSG00000253054	ENST00000517245	snRNA	KNOWN	None	34173	None	None	35424371	35424430	1	None	U7.77
20	UBE2V1	ENSG00000244687	ENST00000371657	protein_coding	NOVEL	CCDS58775	12494	318	105	48697661	48729676	-1	UBE2V	UEV-1, CROC-1, UEV1A, CROC1
20	UBE2V1	ENSG00000244687	ENST00000396059	processed_transcript	KNOWN	None	12494	None	None	48697661	48729709	-1	UBE2V	UEV-1, CROC-1, UEV1A, CROC1
20	UBE2V1	ENSG00000244687	ENST00000371674	protein_coding	KNOWN	CCDS33483	12494	444	147	48697661	48729710	-1	UBE2V	UEV-1, CROC-1, UEV1A, CROC1
20	UBE2V1	ENSG00000244687	ENST00000340309	protein_coding	KNOWN	CCDS13426	12494	513	170	48697661	48732491	-1	UBE2V	UEV-1, CROC-1, UEV1A, CROC1
20	UBE2V1	ENSG00000244687	ENST00000415862	protein_coding	KNOWN	CCDS13427	12494	312	103	48697661	48732491	-1	UBE2V	UEV-1, CROC-1, UEV1A, CROC1
20	UBE2V1	ENSG00000244687	ENST00000371677	protein_coding	KNOWN	CCDS13426	12494	513	170	48697661	48732491	-1	UBE2V	UEV-1, CROC-1, UEV1A, CROC1
20	UBE2V1	ENSG00000244687	ENST00000483534	nonsense_mediated_decay	KNOWN	None	12494	270	89	48699097	48732494	-1	UBE2V	UEV-1, CROC-1, UEV1A, CROC1
20	UBE2V1	ENSG00000244687	ENST00000492371	processed_transcript	PUTATIVE	None	12494	None	None	48699305	48732491	-1	UBE2V	UEV-1, CROC-1, UEV1A, CROC1
20	UBE2V1	ENSG00000244687	ENST00000486653	processed_transcript	KNOWN	None	12494	None	None	48699333	48729673	-1	UBE2V	UEV-1, CROC-1, UEV1A, CROC1
20	UBE2V1	ENSG00000244687	ENST00000490555	retained_intron	KNOWN	None	12494	None	None	48699394	48729670	-1	UBE2V	UEV-1, CROC-1, UEV1A, CROC1
20	UBE2V1	ENSG00000244687	ENST00000493090	retained_intron	KNOWN	None	12494	None	None	48700269	48729683	-1	UBE2V	UEV-1, CROC-1, UEV1A, CROC1
20	UBE2V1	ENSG00000244687	ENST00000467839	retained_intron	KNOWN	None	12494	None	None	48700415	48729683	-1	UBE2V	UEV-1, CROC-1, UEV1A, CROC1
20	UBE2V1	ENSG00000244687	ENST00000472923	processed_transcript	KNOWN	None	12494	None	None	48700664	48729704	-1	UBE2V	UEV-1, CROC-1, UEV1A, CROC1
20	UBE2V1	ENSG00000244687	ENST00000432266	processed_transcript	KNOWN	None	12494	None	None	48700685	48729682	-1	UBE2V	UEV-1, CROC-1, UEV1A, CROC1
20	UBE2V1	ENSG00000244687	ENST00000470565	processed_transcript	KNOWN	None	12494	None	None	48711452	48729702	-1	UBE2V	UEV-1, CROC-1, UEV1A, CROC1
20	UBE2V1	ENSG00000244687	ENST00000490289	processed_transcript	KNOWN	None	12494	None	None	48711481	48729683	-1	UBE2V	UEV-1, CROC-1, UEV1A, CROC1
20	UBE2V1	ENSG00000244687	ENST00000461960	processed_transcript	KNOWN	None	12494	None	None	48712327	48729662	-1	UBE2V	UEV-1, CROC-1, UEV1A, CROC1
20	UBE2V1	ENSG00000244687	ENST00000462217	processed_transcript	PUTATIVE	None	12494	None	None	48712327	48732486	-1	UBE2V	UEV-1, CROC-1, UEV1A, CROC1
20	UBE2V1	ENSG00000244687	ENST00000473860	processed_transcript	KNOWN	None	12494	None	None	48712596	48728103	-1	UBE2V	UEV-1, CROC-1, UEV1A, CROC1
20	UBE2V1	ENSG00000244687	ENST00000468926	processed_transcript	PUTATIVE	None	12494	None	None	48731482	48732496	-1	UBE2V	UEV-1, CROC-1, UEV1A, CROC1
20	UBE2V1	ENSG00000244687	ENST00000420027	protein_coding	KNOWN	CCDS13427	12494	312	103	48697661	48732491	-1	UBE2V	UEV-1, CROC-1, UEV1A, CROC1
4	UVSSA	ENSG00000163945	ENST00000511216	protein_coding	KNOWN	CCDS33938	29304	2130	709	1341054	1380200	1	KIAA1530	None
4	UVSSA	ENSG00000163945	ENST00000389851	protein_coding	KNOWN	CCDS33938	29304	2130	709	1341104	1381732	1	KIAA1530	None
4	UVSSA	ENSG00000163945	ENST00000507531	protein_coding	KNOWN	CCDS33938	29304	2130	709	1341494	1380032	1	KIAA1530	None
4	UVSSA	ENSG00000163945	ENST00000505716	retained_intron	KNOWN	None	29304	None	None	1348295	1349002	1	KIAA1530	None
4	UVSSA	ENSG00000163945	ENST00000511563	protein_coding	KNOWN	None	29304	783	260	1359865	1380046	1	KIAA1530	None
4	UVSSA	ENSG00000163945	ENST00000512728	protein_coding	KNOWN	None	29304	783	260	1368695	1380202	1	KIAA1530	None
4	UVSSA	ENSG00000163945	ENST00000503548	nonsense_mediated_decay	KNOWN	None	29304	409	135	1369822	1381837	1	KIAA1530	None
4	UVSSA	ENSG00000163945	ENST00000507422	processed_transcript	PUTATIVE	None	29304	None	None	1378600	1379697	1	KIAA1530	None
10	ATP6V1G1P4	ENSG00000233343	ENST00000438388	processed_pseudogene	KNOWN	None	37671	None	None	35447234	35447568	1	None	None
4	DDX60	ENSG00000137628	ENST00000393743	protein_coding	KNOWN	CCDS34097	25942	5139	1712	169137444	169239958	-1	None	FLJ20035
4	DDX60	ENSG00000137628	ENST00000511317	protein_coding	PUTATIVE	None	25942	575	190	169141705	169157413	-1	None	FLJ20035
4	DDX60	ENSG00000137628	ENST00000507815	retained_intron	KNOWN	None	25942	None	None	169157180	169158639	-1	None	FLJ20035
4	DDX60	ENSG00000137628	ENST00000505393	processed_transcript	KNOWN	None	25942	None	None	169173725	169184822	-1	None	FLJ20035
4	DDX60	ENSG00000137628	ENST00000513997	nonsense_mediated_decay	KNOWN	None	25942	314	103	169183858	169190062	-1	None	FLJ20035
4	DDX60	ENSG00000137628	ENST00000514995	protein_coding	KNOWN	None	25942	359	118	169227777	169239955	-1	None	FLJ20035
1	ARL8A	ENSG00000143862	ENST00000272217	protein_coding	KNOWN	CCDS1421	25192	561	186	202102532	202113869	-1	ARL10B	FLJ45195, Gie2
1	ARL8A	ENSG00000143862	ENST00000491358	processed_transcript	KNOWN	None	25192	None	None	202103511	202104736	-1	ARL10B	FLJ45195, Gie2
1	ARL8A	ENSG00000143862	ENST00000486225	processed_transcript	KNOWN	None	25192	None	None	202104330	202107162	-1	ARL10B	FLJ45195, Gie2
1	C1orf109	ENSG00000116922	ENST00000358011	protein_coding	KNOWN	CCDS423	26039	612	203	38147242	38156192	-1	None	FLJ20508
1	C1orf109	ENSG00000116922	ENST00000494120	processed_transcript	KNOWN	None	26039	None	None	38147242	38157888	-1	None	FLJ20508
1	C1orf109	ENSG00000116922	ENST00000464178	processed_transcript	KNOWN	None	26039	None	None	38148408	38155361	-1	None	FLJ20508
1	C1orf109	ENSG00000116922	ENST00000464085	processed_transcript	KNOWN	None	26039	None	None	38148783	38156176	-1	None	FLJ20508
1	C1orf109	ENSG00000116922	ENST00000491981	processed_transcript	KNOWN	None	26039	None	None	38148991	38157895	-1	None	FLJ20508
1	C1orf109	ENSG00000116922	ENST00000461359	processed_transcript	KNOWN	None	26039	None	None	38151945	38156192	-1	None	FLJ20508
1	C1orf109	ENSG00000116922	ENST00000477060	processed_transcript	KNOWN	None	26039	None	None	38151974	38157877	-1	None	FLJ20508
1	C1orf109	ENSG00000116922	ENST00000486637	processed_transcript	KNOWN	None	26039	None	None	38152059	38156181	-1	None	FLJ20508
1	C1orf109	ENSG00000116922	ENST00000491797	processed_transcript	KNOWN	None	26039	None	None	38155205	38156185	-1	None	FLJ20508
1	C1orf109	ENSG00000116922	ENST00000488137	processed_transcript	KNOWN	None	26039	None	None	38155310	38157914	-1	None	FLJ20508
1	C1orf109	ENSG00000116922	ENST00000472584	processed_transcript	KNOWN	None	26039	None	None	38155318	38156154	-1	None	FLJ20508
1	C1orf109	ENSG00000116922	ENST00000498448	processed_transcript	KNOWN	None	26039	None	None	38156720	38157914	-1	None	FLJ20508
HSCHR6_MHC_SSTO	STK19	ENSG00000236250	ENST00000478011	retained_intron	KNOWN	None	11398	None	None	31930804	31938639	1	None	D6S60, G11, RP1
HSCHR6_MHC_SSTO	STK19	ENSG00000236250	ENST00000424104	protein_coding	KNOWN	None	11398	1095	364	31931498	31941075	1	None	D6S60, G11, RP1
HSCHR6_MHC_SSTO	STK19	ENSG00000236250	ENST00000438256	protein_coding	KNOWN	None	11398	1107	368	31931573	31941075	1	None	D6S60, G11, RP1
HSCHR6_MHC_SSTO	STK19	ENSG00000236250	ENST00000460069	retained_intron	KNOWN	None	11398	None	None	31931969	31941075	1	None	D6S60, G11, RP1
HSCHR6_MHC_SSTO	STK19	ENSG00000236250	ENST00000464830	processed_transcript	PUTATIVE	None	11398	None	None	31931982	31941075	1	None	D6S60, G11, RP1
HSCHR6_MHC_SSTO	STK19	ENSG00000236250	ENST00000469677	processed_transcript	KNOWN	None	11398	None	None	31932017	31941075	1	None	D6S60, G11, RP1
HSCHR6_MHC_SSTO	STK19	ENSG00000236250	ENST00000472631	retained_intron	KNOWN	None	11398	None	None	31932020	31933047	1	None	D6S60, G11, RP1
HSCHR6_MHC_SSTO	STK19	ENSG00000236250	ENST00000493840	processed_transcript	KNOWN	None	11398	None	None	31932184	31941075	1	None	D6S60, G11, RP1
HSCHR6_MHC_SSTO	STK19	ENSG00000236250	ENST00000486636	retained_intron	KNOWN	None	11398	None	None	31932207	31939491	1	None	D6S60, G11, RP1
HSCHR6_MHC_SSTO	STK19	ENSG00000236250	ENST00000491132	processed_transcript	KNOWN	None	11398	None	None	31932211	31940430	1	None	D6S60, G11, RP1
HSCHR6_MHC_SSTO	STK19	ENSG00000236250	ENST00000468547	retained_intron	KNOWN	None	11398	None	None	31940020	31941075	1	None	D6S60, G11, RP1
HSCHR6_MHC_SSTO	STK19	ENSG00000236250	ENST00000550656	protein_coding	KNOWN	None	11398	966	321	31930804	31941074	1	None	D6S60, G11, RP1
9	SMU1	ENSG00000122692	ENST00000397149	protein_coding	KNOWN	CCDS6534	18247	1542	513	33041762	33076657	-1	None	SMU-1, FLJ10805, BWD, fSAP57
9	SMU1	ENSG00000122692	ENST00000536631	protein_coding	KNOWN	None	18247	1059	352	33047232	33076665	-1	None	SMU-1, FLJ10805, BWD, fSAP57
5	GPR98	ENSG00000164199	ENST00000508842	protein_coding	PUTATIVE	None	17416	444	147	89825161	89918488	1	USH2C, MASS1	DKFZp761P0710, KIAA0686, FEB4, VLGR1b
5	GPR98	ENSG00000164199	ENST00000405460	protein_coding	KNOWN	CCDS47246	17416	18921	6306	89854617	90460038	1	USH2C, MASS1	DKFZp761P0710, KIAA0686, FEB4, VLGR1b
5	GPR98	ENSG00000164199	ENST00000504142	protein_coding	PUTATIVE	None	17416	3166	1054	89924376	89951672	1	USH2C, MASS1	DKFZp761P0710, KIAA0686, FEB4, VLGR1b
5	GPR98	ENSG00000164199	ENST00000512205	processed_transcript	KNOWN	None	17416	None	None	89936536	89939748	1	USH2C, MASS1	DKFZp761P0710, KIAA0686, FEB4, VLGR1b
5	GPR98	ENSG00000164199	ENST00000450321	processed_transcript	KNOWN	None	17416	None	None	89968371	89972676	1	USH2C, MASS1	DKFZp761P0710, KIAA0686, FEB4, VLGR1b
5	GPR98	ENSG00000164199	ENST00000509621	protein_coding	PUTATIVE	None	17416	4826	1607	89989877	90055799	1	USH2C, MASS1	DKFZp761P0710, KIAA0686, FEB4, VLGR1b
5	GPR98	ENSG00000164199	ENST00000425867	protein_coding	PUTATIVE	None	17416	5904	1967	90076898	90460032	1	USH2C, MASS1	DKFZp761P0710, KIAA0686, FEB4, VLGR1b
5	GPR98	ENSG00000164199	ENST00000507314	processed_transcript	PUTATIVE	None	17416	None	None	90086972	90089022	1	USH2C, MASS1	DKFZp761P0710, KIAA0686, FEB4, VLGR1b
5	GPR98	ENSG00000164199	ENST00000513828	retained_intron	KNOWN	None	17416	None	None	90100744	90103482	1	USH2C, MASS1	DKFZp761P0710, KIAA0686, FEB4, VLGR1b
5	GPR98	ENSG00000164199	ENST00000505845	processed_transcript	PUTATIVE	None	17416	None	None	90142207	90144638	1	USH2C, MASS1	DKFZp761P0710, KIAA0686, FEB4, VLGR1b
5	GPR98	ENSG00000164199	ENST00000503852	retained_intron	KNOWN	None	17416	None	None	90149877	90159674	1	USH2C, MASS1	DKFZp761P0710, KIAA0686, FEB4, VLGR1b
7	MNX1	ENSG00000130675	ENST00000469500	protein_coding	PUTATIVE	None	4979	111	36	156786745	156801769	-1	HLXB9	HB9, HOXHB9, SCRA1
7	MNX1	ENSG00000130675	ENST00000479817	protein_coding	PUTATIVE	None	4979	94	30	156786745	156802391	-1	HLXB9	HB9, HOXHB9, SCRA1
7	MNX1	ENSG00000130675	ENST00000252971	protein_coding	KNOWN	CCDS34788	4979	1206	401	156797547	156803345	-1	HLXB9	HB9, HOXHB9, SCRA1
7	MNX1	ENSG00000130675	ENST00000425745	protein_coding	NOVEL	None	4979	87	28	156798536	156801981	-1	HLXB9	HB9, HOXHB9, SCRA1
7	MNX1	ENSG00000130675	ENST00000428439	protein_coding	KNOWN	None	4979	248	81	156798536	156802129	-1	HLXB9	HB9, HOXHB9, SCRA1
7	MNX1	ENSG00000130675	ENST00000474448	nonsense_mediated_decay	KNOWN	None	4979	432	143	156798536	156802129	-1	HLXB9	HB9, HOXHB9, SCRA1
7	MNX1	ENSG00000130675	ENST00000605400	retained_intron	KNOWN	None	4979	None	None	156800233	156801985	-1	HLXB9	HB9, HOXHB9, SCRA1
7	MNX1	ENSG00000130675	ENST00000543409	protein_coding	KNOWN	CCDS55187	4979	570	189	156797547	156802129	-1	HLXB9	HB9, HOXHB9, SCRA1
19	PGLYRP2	ENSG00000161031	ENST00000292609	protein_coding	KNOWN	None	30013	1905	634	15579456	15590312	-1	None	PGRP-L, PGLYRPL, TAGL-like, tagL, tagL-alpha, tagl-beta, PGRPL
19	PGLYRP2	ENSG00000161031	ENST00000340880	protein_coding	KNOWN	CCDS12330	30013	1731	576	15579456	15590663	-1	None	PGRP-L, PGLYRPL, TAGL-like, tagL, tagL-alpha, tagl-beta, PGRPL
19	PGLYRP2	ENSG00000161031	ENST00000601792	protein_coding	KNOWN	None	30013	435	144	15587046	15609767	-1	None	PGRP-L, PGLYRPL, TAGL-like, tagL, tagL-alpha, tagl-beta, PGRPL
19	PGLYRP2	ENSG00000161031	ENST00000594637	protein_coding	KNOWN	None	30013	317	104	15587164	15590642	-1	None	PGRP-L, PGLYRPL, TAGL-like, tagL, tagL-alpha, tagl-beta, PGRPL
3	NISCH	ENSG00000010322	ENST00000479054	protein_coding	KNOWN	CCDS33767	18006	4515	1504	52489134	52527084	1	None	KIAA0975, I-1, IRAS
3	NISCH	ENSG00000010322	ENST00000488380	protein_coding	KNOWN	None	18006	1752	583	52489633	52515926	1	None	KIAA0975, I-1, IRAS
3	NISCH	ENSG00000010322	ENST00000420808	protein_coding	NOVEL	None	18006	1548	515	52489633	52515930	1	None	KIAA0975, I-1, IRAS
3	NISCH	ENSG00000010322	ENST00000489895	retained_intron	KNOWN	None	18006	None	None	52492708	52527084	1	None	KIAA0975, I-1, IRAS
3	NISCH	ENSG00000010322	ENST00000488157	processed_transcript	KNOWN	None	18006	None	None	52504572	52506389	1	None	KIAA0975, I-1, IRAS
3	NISCH	ENSG00000010322	ENST00000490425	processed_transcript	KNOWN	None	18006	None	None	52504572	52510508	1	None	KIAA0975, I-1, IRAS
3	NISCH	ENSG00000010322	ENST00000464280	processed_transcript	KNOWN	None	18006	None	None	52509632	52512599	1	None	KIAA0975, I-1, IRAS
3	NISCH	ENSG00000010322	ENST00000481211	retained_intron	KNOWN	None	18006	None	None	52510314	52512298	1	None	KIAA0975, I-1, IRAS
3	NISCH	ENSG00000010322	ENST00000474188	retained_intron	KNOWN	None	18006	None	None	52512237	52514292	1	None	KIAA0975, I-1, IRAS
3	NISCH	ENSG00000010322	ENST00000485765	retained_intron	KNOWN	None	18006	None	None	52514155	52519843	1	None	KIAA0975, I-1, IRAS
3	NISCH	ENSG00000010322	ENST00000460759	retained_intron	KNOWN	None	18006	None	None	52518220	52521292	1	None	KIAA0975, I-1, IRAS
3	NISCH	ENSG00000010322	ENST00000488243	processed_transcript	KNOWN	None	18006	None	None	52519801	52521669	1	None	KIAA0975, I-1, IRAS
3	NISCH	ENSG00000010322	ENST00000467594	retained_intron	KNOWN	None	18006	None	None	52523589	52525593	1	None	KIAA0975, I-1, IRAS
3	NISCH	ENSG00000010322	ENST00000345716	protein_coding	KNOWN	CCDS33767	18006	4515	1504	52489524	52527087	1	None	KIAA0975, I-1, IRAS
11	BLID	ENSG00000259571	ENST00000560104	protein_coding	KNOWN	CCDS31693	33495	327	108	121986062	121986923	-1	None	BRCC2
1	WARS2	ENSG00000116874	ENST00000369426	protein_coding	KNOWN	CCDS30817	12730	663	220	119573839	119683271	-1	None	TrpRS
1	WARS2	ENSG00000116874	ENST00000235521	protein_coding	KNOWN	CCDS900	12730	1083	360	119573844	119683294	-1	None	TrpRS
1	WARS2	ENSG00000116874	ENST00000495746	processed_transcript	KNOWN	None	12730	None	None	119575920	119683277	-1	None	TrpRS
1	WARS2	ENSG00000116874	ENST00000497402	processed_transcript	KNOWN	None	12730	None	None	119576752	119625164	-1	None	TrpRS
1	WARS2	ENSG00000116874	ENST00000497761	processed_transcript	PUTATIVE	None	12730	None	None	119682271	119683261	-1	None	TrpRS
1	WARS2	ENSG00000116874	ENST00000537870	protein_coding	KNOWN	None	12730	801	266	119575076	119682947	-1	None	TrpRS
7	GTF2I	ENSG00000077809	ENST00000485000	processed_transcript	KNOWN	None	4659	None	None	74071994	74105440	1	WBSCR6	TFII-I, BAP-135, SPIN, BTKAP1, DIWS, IB291
7	GTF2I	ENSG00000077809	ENST00000324896	protein_coding	KNOWN	CCDS5573	4659	2997	998	74072011	74175022	1	WBSCR6	TFII-I, BAP-135, SPIN, BTKAP1, DIWS, IB291
7	GTF2I	ENSG00000077809	ENST00000353920	protein_coding	KNOWN	CCDS5574	4659	2937	978	74072084	74175022	1	WBSCR6	TFII-I, BAP-135, SPIN, BTKAP1, DIWS, IB291
7	GTF2I	ENSG00000077809	ENST00000346152	protein_coding	KNOWN	CCDS5575	4659	2934	977	74072084	74175022	1	WBSCR6	TFII-I, BAP-135, SPIN, BTKAP1, DIWS, IB291
7	GTF2I	ENSG00000077809	ENST00000416070	protein_coding	KNOWN	CCDS47614	4659	2874	957	74072084	74175026	1	WBSCR6	TFII-I, BAP-135, SPIN, BTKAP1, DIWS, IB291
7	GTF2I	ENSG00000077809	ENST00000443166	protein_coding	PUTATIVE	None	4659	825	274	74072357	74131386	1	WBSCR6	TFII-I, BAP-135, SPIN, BTKAP1, DIWS, IB291
7	GTF2I	ENSG00000077809	ENST00000432143	protein_coding	KNOWN	None	4659	319	105	74098991	74113371	1	WBSCR6	TFII-I, BAP-135, SPIN, BTKAP1, DIWS, IB291
7	GTF2I	ENSG00000077809	ENST00000490431	retained_intron	KNOWN	None	4659	None	None	74119509	74129264	1	WBSCR6	TFII-I, BAP-135, SPIN, BTKAP1, DIWS, IB291
7	GTF2I	ENSG00000077809	ENST00000484840	retained_intron	KNOWN	None	4659	None	None	74130932	74144627	1	WBSCR6	TFII-I, BAP-135, SPIN, BTKAP1, DIWS, IB291
7	GTF2I	ENSG00000077809	ENST00000491325	processed_transcript	KNOWN	None	4659	None	None	74142341	74149855	1	WBSCR6	TFII-I, BAP-135, SPIN, BTKAP1, DIWS, IB291
7	GTF2I	ENSG00000077809	ENST00000481621	processed_transcript	KNOWN	None	4659	None	None	74146958	74159280	1	WBSCR6	TFII-I, BAP-135, SPIN, BTKAP1, DIWS, IB291
7	GTF2I	ENSG00000077809	ENST00000483301	retained_intron	KNOWN	None	4659	None	None	74147937	74152461	1	WBSCR6	TFII-I, BAP-135, SPIN, BTKAP1, DIWS, IB291
7	GTF2I	ENSG00000077809	ENST00000464793	retained_intron	KNOWN	None	4659	None	None	74150845	74158221	1	WBSCR6	TFII-I, BAP-135, SPIN, BTKAP1, DIWS, IB291
7	GTF2I	ENSG00000077809	ENST00000462915	processed_transcript	KNOWN	None	4659	None	None	74152365	74154406	1	WBSCR6	TFII-I, BAP-135, SPIN, BTKAP1, DIWS, IB291
7	GTF2I	ENSG00000077809	ENST00000438130	processed_transcript	KNOWN	None	4659	None	None	74158683	74163789	1	WBSCR6	TFII-I, BAP-135, SPIN, BTKAP1, DIWS, IB291
7	GTF2I	ENSG00000077809	ENST00000473333	retained_intron	KNOWN	None	4659	None	None	74159085	74160592	1	WBSCR6	TFII-I, BAP-135, SPIN, BTKAP1, DIWS, IB291
7	GTF2I	ENSG00000077809	ENST00000476035	retained_intron	KNOWN	None	4659	None	None	74160395	74163733	1	WBSCR6	TFII-I, BAP-135, SPIN, BTKAP1, DIWS, IB291
7	GTF2I	ENSG00000077809	ENST00000482232	retained_intron	KNOWN	None	4659	None	None	74166422	74168872	1	WBSCR6	TFII-I, BAP-135, SPIN, BTKAP1, DIWS, IB291
7	GTF2I	ENSG00000077809	ENST00000464471	retained_intron	KNOWN	None	4659	None	None	74168177	74170210	1	WBSCR6	TFII-I, BAP-135, SPIN, BTKAP1, DIWS, IB291
7	GTF2I	ENSG00000077809	ENST00000460938	retained_intron	KNOWN	None	4659	None	None	74168428	74175020	1	WBSCR6	TFII-I, BAP-135, SPIN, BTKAP1, DIWS, IB291
7	GTF2I	ENSG00000077809	ENST00000473759	retained_intron	KNOWN	None	4659	None	None	74169572	74174289	1	WBSCR6	TFII-I, BAP-135, SPIN, BTKAP1, DIWS, IB291
1	CDCA8	ENSG00000134690	ENST00000373055	protein_coding	KNOWN	CCDS424	14629	843	280	38158090	38175391	1	None	FLJ12042, MESRGP, BOR, DasraB
1	CDCA8	ENSG00000134690	ENST00000327331	protein_coding	KNOWN	CCDS424	14629	843	280	38158153	38175385	1	None	FLJ12042, MESRGP, BOR, DasraB
16	PRSS53	ENSG00000151006	ENST00000280606	protein_coding	KNOWN	CCDS42153	34407	1662	553	31094746	31100284	-1	None	POL3S
16	PRSS53	ENSG00000151006	ENST00000486499	retained_intron	KNOWN	None	34407	None	None	31094758	31100949	-1	None	POL3S
16	PRSS53	ENSG00000151006	ENST00000492427	retained_intron	KNOWN	None	34407	None	None	31097336	31100049	-1	None	POL3S
11	UBASH3B	ENSG00000154127	ENST00000284273	protein_coding	KNOWN	CCDS31694	29884	1950	649	122526383	122685181	1	None	KIAA1959, STS-1
11	UBASH3B	ENSG00000154127	ENST00000525711	processed_transcript	KNOWN	None	29884	None	None	122526433	122598307	1	None	KIAA1959, STS-1
11	UBASH3B	ENSG00000154127	ENST00000526386	processed_transcript	KNOWN	None	29884	None	None	122579970	122650303	1	None	KIAA1959, STS-1
11	UBASH3B	ENSG00000154127	ENST00000530917	retained_intron	KNOWN	None	29884	None	None	122644804	122660016	1	None	KIAA1959, STS-1
11	UBASH3B	ENSG00000154127	ENST00000533451	retained_intron	KNOWN	None	29884	None	None	122646342	122650410	1	None	KIAA1959, STS-1
11	UBASH3B	ENSG00000154127	ENST00000529998	retained_intron	KNOWN	None	29884	None	None	122650085	122660016	1	None	KIAA1959, STS-1
11	UBASH3B	ENSG00000154127	ENST00000526493	retained_intron	KNOWN	None	29884	None	None	122653072	122665504	1	None	KIAA1959, STS-1
11	UBASH3B	ENSG00000154127	ENST00000530578	retained_intron	KNOWN	None	29884	None	None	122665486	122667972	1	None	KIAA1959, STS-1
3	HSPBAP1	ENSG00000169087	ENST00000471534	processed_transcript	KNOWN	None	16389	None	None	122458850	122460623	-1	None	FLJ22623, PASS1
3	HSPBAP1	ENSG00000169087	ENST00000306103	protein_coding	KNOWN	CCDS3017	16389	1467	488	122458850	122512671	-1	None	FLJ22623, PASS1
3	HSPBAP1	ENSG00000169087	ENST00000465044	processed_transcript	KNOWN	None	16389	None	None	122471708	122512561	-1	None	FLJ22623, PASS1
3	HSPBAP1	ENSG00000169087	ENST00000467643	processed_transcript	KNOWN	None	16389	None	None	122474171	122512606	-1	None	FLJ22623, PASS1
3	HSPBAP1	ENSG00000169087	ENST00000478601	processed_transcript	KNOWN	None	16389	None	None	122478067	122512507	-1	None	FLJ22623, PASS1
3	HSPBAP1	ENSG00000169087	ENST00000463266	processed_transcript	KNOWN	None	16389	None	None	122480381	122487589	-1	None	FLJ22623, PASS1
3	HSPBAP1	ENSG00000169087	ENST00000383659	protein_coding	KNOWN	None	16389	678	225	122458846	122512650	-1	None	FLJ22623, PASS1
6	LRFN2	ENSG00000156564	ENST00000338305	protein_coding	KNOWN	CCDS34443	21226	2370	789	40359325	40555204	-1	KIAA1246, SALM1	FIGLER2
16	GPR139	ENSG00000180269	ENST00000570682	protein_coding	KNOWN	CCDS32398	19995	1062	353	20042807	20085239	-1	None	PGR3
16	GPR139	ENSG00000180269	ENST00000326571	nonsense_mediated_decay	KNOWN	None	19995	153	50	20042981	20085089	-1	None	PGR3
15	SHC4	ENSG00000185634	ENST00000332408	protein_coding	KNOWN	CCDS10130	16743	1893	630	49115932	49255641	-1	None	RaLP
15	SHC4	ENSG00000185634	ENST00000396535	protein_coding	KNOWN	None	16743	1164	387	49117364	49169686	-1	None	RaLP
15	SHC4	ENSG00000185634	ENST00000537958	protein_coding	PUTATIVE	None	16743	1035	344	49117976	49170251	-1	None	RaLP
15	SHC4	ENSG00000185634	ENST00000557797	nonsense_mediated_decay	KNOWN	None	16743	435	144	49127043	49169826	-1	None	RaLP
15	SHC4	ENSG00000185634	ENST00000558220	protein_coding	PUTATIVE	None	16743	384	127	49148150	49170247	-1	None	RaLP
15	SHC4	ENSG00000185634	ENST00000559289	retained_intron	KNOWN	None	16743	None	None	49164210	49169478	-1	None	RaLP
2	SCN9A	ENSG00000169432	ENST00000409672	protein_coding	KNOWN	CCDS46441	10597	5934	1977	167051695	167232503	-1	None	Nav1.7, PN1, NE-NA, NENA, ETHA
2	SCN9A	ENSG00000169432	ENST00000409435	protein_coding	KNOWN	None	10597	5967	1988	167055182	167168266	-1	None	Nav1.7, PN1, NE-NA, NENA, ETHA
2	SCN9A	ENSG00000169432	ENST00000454569	protein_coding	NOVEL	None	10597	1585	527	167138270	167163081	-1	None	Nav1.7, PN1, NE-NA, NENA, ETHA
2	SCN9A	ENSG00000169432	ENST00000452182	protein_coding	KNOWN	None	10597	1618	538	167138270	167163081	-1	None	Nav1.7, PN1, NE-NA, NENA, ETHA
2	SCN9A	ENSG00000169432	ENST00000472119	retained_intron	KNOWN	None	10597	None	None	167159129	167162430	-1	None	Nav1.7, PN1, NE-NA, NENA, ETHA
2	SCN9A	ENSG00000169432	ENST00000375387	protein_coding	KNOWN	None	10597	5970	1989	167051706	167232497	-1	None	Nav1.7, PN1, NE-NA, NENA, ETHA
2	SCN9A	ENSG00000169432	ENST00000303354	protein_coding	KNOWN	None	10597	5970	1989	167051706	167232497	-1	None	Nav1.7, PN1, NE-NA, NENA, ETHA
Y	TSPY7P	ENSG00000188656	ENST00000431358	unprocessed_pseudogene	KNOWN	None	34040	None	None	9215731	9218480	1	TSPYP7	None
7	BCAP29	ENSG00000075790	ENST00000005259	protein_coding	KNOWN	CCDS34731	24131	726	241	107220422	107262315	1	None	BAP29, DKFZp686M2086
7	BCAP29	ENSG00000075790	ENST00000465919	protein_coding	PUTATIVE	None	24131	444	147	107220691	107259060	1	None	BAP29, DKFZp686M2086
7	BCAP29	ENSG00000075790	ENST00000486326	retained_intron	KNOWN	None	24131	None	None	107220696	107234653	1	None	BAP29, DKFZp686M2086
7	BCAP29	ENSG00000075790	ENST00000466094	processed_transcript	KNOWN	None	24131	None	None	107220703	107228397	1	None	BAP29, DKFZp686M2086
7	BCAP29	ENSG00000075790	ENST00000494086	processed_transcript	KNOWN	None	24131	None	None	107220705	107259080	1	None	BAP29, DKFZp686M2086
7	BCAP29	ENSG00000075790	ENST00000482371	nonsense_mediated_decay	KNOWN	None	24131	201	66	107220706	107269615	1	None	BAP29, DKFZp686M2086
7	BCAP29	ENSG00000075790	ENST00000445771	protein_coding	KNOWN	CCDS34730	24131	1047	348	107220710	107259109	1	None	BAP29, DKFZp686M2086
7	BCAP29	ENSG00000075790	ENST00000442065	nonsense_mediated_decay	KNOWN	None	24131	516	171	107220711	107253878	1	None	BAP29, DKFZp686M2086
7	BCAP29	ENSG00000075790	ENST00000479917	protein_coding	KNOWN	None	24131	589	195	107220717	107240950	1	None	BAP29, DKFZp686M2086
7	BCAP29	ENSG00000075790	ENST00000421217	protein_coding	KNOWN	None	24131	399	132	107220751	107236366	1	None	BAP29, DKFZp686M2086
7	BCAP29	ENSG00000075790	ENST00000457837	protein_coding	KNOWN	None	24131	690	229	107220797	107253877	1	None	BAP29, DKFZp686M2086
7	BCAP29	ENSG00000075790	ENST00000379117	protein_coding	KNOWN	CCDS34731	24131	726	241	107220900	107259891	1	None	BAP29, DKFZp686M2086
7	BCAP29	ENSG00000075790	ENST00000473124	protein_coding	KNOWN	None	24131	193	63	107220913	107224427	1	None	BAP29, DKFZp686M2086
7	BCAP29	ENSG00000075790	ENST00000491150	protein_coding	NOVEL	None	24131	885	294	107224364	107262398	1	None	BAP29, DKFZp686M2086
7	BCAP29	ENSG00000075790	ENST00000436699	protein_coding	PUTATIVE	None	24131	490	162	107234467	107256319	1	None	BAP29, DKFZp686M2086
7	BCAP29	ENSG00000075790	ENST00000490060	retained_intron	KNOWN	None	24131	None	None	107236278	107240880	1	None	BAP29, DKFZp686M2086
7	BCAP29	ENSG00000075790	ENST00000379119	protein_coding	KNOWN	CCDS34730	24131	1047	348	107221204	107263762	1	None	BAP29, DKFZp686M2086
7	BCAP29	ENSG00000075790	ENST00000379121	protein_coding	KNOWN	None	24131	468	155	107234467	107256319	1	None	BAP29, DKFZp686M2086
Y	FAM197Y6	ENSG00000237802	ENST00000442145	antisense	KNOWN	None	37468	None	None	9225731	9233636	-1	None	None
Y	FAM197Y6	ENSG00000237802	ENST00000450658	antisense	KNOWN	None	37468	None	None	9227800	9233417	-1	None	None
22	SEC14L3	ENSG00000100012	ENST00000403066	protein_coding	PUTATIVE	None	18655	1062	353	30843946	30868004	-1	None	TAP2
22	SEC14L3	ENSG00000100012	ENST00000215812	protein_coding	KNOWN	CCDS13877	18655	1203	400	30855216	30868036	-1	None	TAP2
22	SEC14L3	ENSG00000100012	ENST00000402286	protein_coding	PUTATIVE	CCDS58800	18655	972	323	30855493	30867973	-1	None	TAP2
22	SEC14L3	ENSG00000100012	ENST00000434642	nonsense_mediated_decay	KNOWN	None	18655	156	51	30855493	30867973	-1	None	TAP2
22	SEC14L3	ENSG00000100012	ENST00000401751	protein_coding	PUTATIVE	CCDS58801	18655	1026	341	30855493	30867973	-1	None	TAP2
22	SEC14L3	ENSG00000100012	ENST00000435069	protein_coding	NOVEL	None	18655	693	230	30857657	30866564	-1	None	TAP2
22	SEC14L3	ENSG00000100012	ENST00000415957	protein_coding	KNOWN	None	18655	1062	353	30843946	30866572	-1	None	TAP2
22	SEC14L3	ENSG00000100012	ENST00000539629	protein_coding	KNOWN	CCDS58801	18655	1026	341	30855493	30867973	-1	None	TAP2
22	SEC14L3	ENSG00000100012	ENST00000540910	protein_coding	KNOWN	CCDS58800	18655	972	323	30855493	30866572	-1	None	TAP2
1	HAO2	ENSG00000116882	ENST00000457318	protein_coding	KNOWN	None	4810	559	185	119911402	119929317	1	None	HAOX2, GIG16
1	HAO2	ENSG00000116882	ENST00000361035	protein_coding	KNOWN	None	4810	1095	364	119911432	119936753	1	None	HAOX2, GIG16
1	HAO2	ENSG00000116882	ENST00000325945	protein_coding	KNOWN	CCDS901	4810	1056	351	119911461	119936751	1	None	HAOX2, GIG16
1	HAO2	ENSG00000116882	ENST00000482991	processed_transcript	PUTATIVE	None	4810	None	None	119935062	119936737	1	None	HAOX2, GIG16
X	OCRL	ENSG00000122126	ENST00000486673	processed_transcript	KNOWN	None	8108	None	None	128673826	128692956	1	None	OCRL1
X	OCRL	ENSG00000122126	ENST00000371113	protein_coding	KNOWN	CCDS35393	8108	2706	901	128674252	128726538	1	None	OCRL1
X	OCRL	ENSG00000122126	ENST00000357121	protein_coding	KNOWN	CCDS35394	8108	2682	893	128674252	128726538	1	None	OCRL1
X	OCRL	ENSG00000122126	ENST00000468314	processed_transcript	PUTATIVE	None	8108	None	None	128701264	128726499	1	None	OCRL1
X	OCRL	ENSG00000122126	ENST00000463271	processed_transcript	KNOWN	None	8108	None	None	128723566	128724610	1	None	OCRL1
21	GRIK1	ENSG00000171189	ENST00000327783	protein_coding	NOVEL	None	4579	2850	949	30909254	31311850	-1	GLUR5	GluK1
21	GRIK1	ENSG00000171189	ENST00000389125	protein_coding	KNOWN	CCDS33530	4579	2718	905	30909254	31311943	-1	GLUR5	GluK1
21	GRIK1	ENSG00000171189	ENST00000399913	protein_coding	NOVEL	None	4579	2763	920	30909254	31311992	-1	GLUR5	GluK1
21	GRIK1	ENSG00000171189	ENST00000399914	protein_coding	NOVEL	None	4579	2805	934	30909254	31312340	-1	GLUR5	GluK1
21	GRIK1	ENSG00000171189	ENST00000389124	protein_coding	PUTATIVE	None	4579	2616	871	30910027	31311850	-1	GLUR5	GluK1
21	GRIK1	ENSG00000171189	ENST00000399907	protein_coding	KNOWN	CCDS42913	4579	2757	918	30925573	31312230	-1	GLUR5	GluK1
21	GRIK1	ENSG00000171189	ENST00000399909	protein_coding	NOVEL	None	4579	2712	903	30925573	31312230	-1	GLUR5	GluK1
21	GRIK1	ENSG00000171189	ENST00000472429	processed_transcript	KNOWN	None	4579	None	None	30971114	31312351	-1	GLUR5	GluK1
21	GRIK1	ENSG00000171189	ENST00000535441	protein_coding	KNOWN	None	4579	2769	922	30909551	31311818	-1	GLUR5	GluK1
21	GRIK1	ENSG00000171189	ENST00000309434	protein_coding	KNOWN	None	4579	2763	920	30925876	31311818	-1	GLUR5	GluK1
6	PRL	ENSG00000172179	ENST00000306482	protein_coding	KNOWN	CCDS4548	9445	684	227	22287480	22297730	-1	None	None
11	SDHAF2	ENSG00000167985	ENST00000542794	nonsense_mediated_decay	KNOWN	None	26034	198	65	61197514	61213814	1	PGL2, C11orf79	FLJ20487, SDH5
11	SDHAF2	ENSG00000167985	ENST00000301761	protein_coding	KNOWN	CCDS8007	26034	501	166	61197545	61215001	1	PGL2, C11orf79	FLJ20487, SDH5
11	SDHAF2	ENSG00000167985	ENST00000542074	protein_coding	PUTATIVE	None	26034	87	28	61197577	61214169	1	PGL2, C11orf79	FLJ20487, SDH5
11	SDHAF2	ENSG00000167985	ENST00000534878	protein_coding	PUTATIVE	None	26034	426	141	61197596	61205715	1	PGL2, C11orf79	FLJ20487, SDH5
11	SDHAF2	ENSG00000167985	ENST00000359614	nonsense_mediated_decay	KNOWN	None	26034	390	129	61197597	61213477	1	PGL2, C11orf79	FLJ20487, SDH5
11	SDHAF2	ENSG00000167985	ENST00000537782	protein_coding	PUTATIVE	None	26034	402	133	61197597	61213531	1	PGL2, C11orf79	FLJ20487, SDH5
11	SDHAF2	ENSG00000167985	ENST00000536250	nonsense_mediated_decay	KNOWN	None	26034	198	65	61197603	61205658	1	PGL2, C11orf79	FLJ20487, SDH5
11	SDHAF2	ENSG00000167985	ENST00000543265	protein_coding	PUTATIVE	None	26034	267	88	61197616	61213587	1	PGL2, C11orf79	FLJ20487, SDH5
16	GP2	ENSG00000169347	ENST00000302555	protein_coding	KNOWN	CCDS10582	4441	1605	534	20320894	20338902	-1	None	None
16	GP2	ENSG00000169347	ENST00000341642	protein_coding	KNOWN	CCDS45432	4441	1164	387	20321811	20338829	-1	None	None
16	GP2	ENSG00000169347	ENST00000381362	protein_coding	KNOWN	CCDS42128	4441	1614	537	20321811	20338829	-1	None	None
16	GP2	ENSG00000169347	ENST00000381360	protein_coding	KNOWN	CCDS45433	4441	1173	390	20321811	20339130	-1	None	None
16	GP2	ENSG00000169347	ENST00000573897	processed_transcript	KNOWN	None	4441	None	None	20329724	20335075	-1	None	None
16	GP2	ENSG00000169347	ENST00000575582	protein_coding	KNOWN	None	4441	435	144	20331073	20338748	-1	None	None
16	GP2	ENSG00000169347	ENST00000574982	nonsense_mediated_decay	KNOWN	None	4441	128	41	20331682	20337740	-1	None	None
16	GP2	ENSG00000169347	ENST00000572347	protein_coding	PUTATIVE	None	4441	423	140	20331755	20338829	-1	None	None
16	GP2	ENSG00000169347	ENST00000572478	protein_coding	NOVEL	None	4441	490	162	20331757	20338829	-1	None	None
16	GP2	ENSG00000169347	ENST00000575449	protein_coding	KNOWN	None	4441	384	127	20335289	20338234	-1	None	None
16	GP2	ENSG00000169347	ENST00000575730	processed_transcript	KNOWN	None	4441	None	None	20335369	20338830	-1	None	None
19	TRMT1	ENSG00000104907	ENST00000221504	protein_coding	KNOWN	CCDS45997	25980	1893	630	13215721	13227471	-1	None	FLJ20244, TRM1
19	TRMT1	ENSG00000104907	ENST00000593157	retained_intron	KNOWN	None	25980	None	None	13215721	13227554	-1	None	FLJ20244, TRM1
19	TRMT1	ENSG00000104907	ENST00000592062	protein_coding	KNOWN	CCDS12293	25980	1980	659	13215721	13228381	-1	None	FLJ20244, TRM1
19	TRMT1	ENSG00000104907	ENST00000588511	retained_intron	KNOWN	None	25980	None	None	13215753	13227539	-1	None	FLJ20244, TRM1
19	TRMT1	ENSG00000104907	ENST00000585435	retained_intron	KNOWN	None	25980	None	None	13218416	13220456	-1	None	FLJ20244, TRM1
19	TRMT1	ENSG00000104907	ENST00000586830	retained_intron	KNOWN	None	25980	None	None	13218589	13220546	-1	None	FLJ20244, TRM1
19	TRMT1	ENSG00000104907	ENST00000587487	protein_coding	KNOWN	None	25980	574	190	13220459	13227516	-1	None	FLJ20244, TRM1
19	TRMT1	ENSG00000104907	ENST00000592814	protein_coding	PUTATIVE	None	25980	893	296	13220972	13227526	-1	None	FLJ20244, TRM1
19	TRMT1	ENSG00000104907	ENST00000587633	nonsense_mediated_decay	KNOWN	None	25980	306	101	13221000	13226841	-1	None	FLJ20244, TRM1
19	TRMT1	ENSG00000104907	ENST00000593257	processed_transcript	KNOWN	None	25980	None	None	13223769	13226973	-1	None	FLJ20244, TRM1
19	TRMT1	ENSG00000104907	ENST00000591717	nonsense_mediated_decay	KNOWN	None	25980	318	105	13223815	13227563	-1	None	FLJ20244, TRM1
19	TRMT1	ENSG00000104907	ENST00000588813	processed_transcript	KNOWN	None	25980	None	None	13226193	13227547	-1	None	FLJ20244, TRM1
19	TRMT1	ENSG00000104907	ENST00000591425	processed_transcript	KNOWN	None	25980	None	None	13226237	13227550	-1	None	FLJ20244, TRM1
19	TRMT1	ENSG00000104907	ENST00000592729	processed_transcript	KNOWN	None	25980	None	None	13226255	13227436	-1	None	FLJ20244, TRM1
19	TRMT1	ENSG00000104907	ENST00000588746	nonsense_mediated_decay	KNOWN	None	25980	258	85	13226272	13227550	-1	None	FLJ20244, TRM1
19	TRMT1	ENSG00000104907	ENST00000586224	nonsense_mediated_decay	KNOWN	None	25980	342	113	13226278	13227562	-1	None	FLJ20244, TRM1
19	TRMT1	ENSG00000104907	ENST00000592892	processed_transcript	KNOWN	None	25980	None	None	13226441	13227562	-1	None	FLJ20244, TRM1
19	TRMT1	ENSG00000104907	ENST00000585622	retained_intron	KNOWN	None	25980	None	None	13226516	13227535	-1	None	FLJ20244, TRM1
19	TRMT1	ENSG00000104907	ENST00000590812	retained_intron	KNOWN	None	25980	None	None	13226650	13227573	-1	None	FLJ20244, TRM1
19	TRMT1	ENSG00000104907	ENST00000588229	protein_coding	PUTATIVE	None	25980	436	144	13226685	13227550	-1	None	FLJ20244, TRM1
19	TRMT1	ENSG00000104907	ENST00000592606	retained_intron	KNOWN	None	25980	None	None	13226761	13227573	-1	None	FLJ20244, TRM1
19	TRMT1	ENSG00000104907	ENST00000357720	protein_coding	KNOWN	CCDS12293	25980	1980	659	13215716	13227563	-1	None	FLJ20244, TRM1
19	TRMT1	ENSG00000104907	ENST00000437766	protein_coding	KNOWN	CCDS12293	25980	1980	659	13215716	13227463	-1	None	FLJ20244, TRM1
HSCHR6_MHC_MCF	DDR1	ENSG00000223680	ENST00000488414	processed_transcript	KNOWN	None	2730	None	None	30927312	30938427	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_MCF	DDR1	ENSG00000223680	ENST00000422628	protein_coding	KNOWN	None	2730	752	249	30927365	30938427	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_MCF	DDR1	ENSG00000223680	ENST00000476353	processed_transcript	KNOWN	None	2730	None	None	30927632	30931044	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_MCF	DDR1	ENSG00000223680	ENST00000413044	protein_coding	KNOWN	None	2730	500	165	30929283	30937392	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_MCF	DDR1	ENSG00000223680	ENST00000454377	protein_coding	KNOWN	None	2730	443	146	30929428	30937335	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_MCF	DDR1	ENSG00000223680	ENST00000426303	protein_coding	KNOWN	None	2730	752	249	30930116	30938427	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_MCF	DDR1	ENSG00000223680	ENST00000421672	protein_coding	KNOWN	None	2730	752	249	30930400	30938427	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_MCF	DDR1	ENSG00000223680	ENST00000440427	protein_coding	KNOWN	None	2730	417	138	30930690	30935767	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_MCF	DDR1	ENSG00000223680	ENST00000439604	protein_coding	KNOWN	None	2730	190	62	30930795	30935349	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_MCF	DDR1	ENSG00000223680	ENST00000461551	processed_transcript	KNOWN	None	2730	None	None	30930893	30938427	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_MCF	DDR1	ENSG00000223680	ENST00000414077	protein_coding	KNOWN	None	2730	752	249	30930903	30938427	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_MCF	DDR1	ENSG00000223680	ENST00000439772	protein_coding	KNOWN	None	2730	628	208	30931563	30937779	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_MCF	DDR1	ENSG00000223680	ENST00000433322	protein_coding	KNOWN	None	2730	752	249	30934726	30938427	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_MCF	DDR1	ENSG00000223680	ENST00000482978	retained_intron	KNOWN	None	2730	None	None	30937479	30938427	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
HSCHR6_MHC_MCF	DDR1	ENSG00000223680	ENST00000448537	protein_coding	KNOWN	None	2730	140	45	30937764	30938427	1	NTRK4, PTK3A, NEP, CAK, EDDR1	RTK6, CD167
12	ABCD2	ENSG00000173208	ENST00000308666	protein_coding	KNOWN	CCDS8734	66	2223	740	39943835	40013553	-1	ALDL1	ALDR, ALDRP
22	CLTCL1	ENSG00000070371	ENST00000353891	protein_coding	KNOWN	CCDS54497	2093	4752	1583	19166986	19279208	-1	CLTCL	CLTD, CLH22, CHC22
22	CLTCL1	ENSG00000070371	ENST00000263200	protein_coding	KNOWN	CCDS46662	2093	4923	1640	19166986	19279237	-1	CLTCL	CLTD, CLH22, CHC22
22	CLTCL1	ENSG00000070371	ENST00000412649	retained_intron	KNOWN	None	2093	None	None	19166989	19172344	-1	CLTCL	CLTD, CLH22, CHC22
22	CLTCL1	ENSG00000070371	ENST00000442042	processed_transcript	KNOWN	None	2093	None	None	19166989	19195186	-1	CLTCL	CLTD, CLH22, CHC22
22	CLTCL1	ENSG00000070371	ENST00000536806	processed_transcript	KNOWN	None	2093	None	None	19167288	19195184	-1	CLTCL	CLTD, CLH22, CHC22
22	CLTCL1	ENSG00000070371	ENST00000413132	retained_intron	KNOWN	None	2093	None	None	19168246	19279184	-1	CLTCL	CLTD, CLH22, CHC22
22	CLTCL1	ENSG00000070371	ENST00000505027	nonsense_mediated_decay	KNOWN	None	2093	3783	1260	19168246	19279184	-1	CLTCL	CLTD, CLH22, CHC22
22	CLTCL1	ENSG00000070371	ENST00000538828	nonsense_mediated_decay	KNOWN	None	2093	204	67	19170989	19175240	-1	CLTCL	CLTD, CLH22, CHC22
22	CLTCL1	ENSG00000070371	ENST00000458188	nonsense_mediated_decay	KNOWN	None	2093	132	43	19209096	19213843	-1	CLTCL	CLTD, CLH22, CHC22
22	CLTCL1	ENSG00000070371	ENST00000540896	retained_intron	KNOWN	None	2093	None	None	19217368	19220344	-1	CLTCL	CLTD, CLH22, CHC22
22	CLTCL1	ENSG00000070371	ENST00000449918	protein_coding	NOVEL	None	2093	507	168	19241557	19279239	-1	CLTCL	CLTD, CLH22, CHC22
22	CLTCL1	ENSG00000070371	ENST00000427926	protein_coding	KNOWN	None	2093	4923	1640	19166989	19279239	-1	CLTCL	CLTD, CLH22, CHC22
16	ADCY7	ENSG00000121281	ENST00000564965	protein_coding	KNOWN	None	238	243	80	50280048	50324439	1	None	KIAA0037, AC7
16	ADCY7	ENSG00000121281	ENST00000564044	processed_transcript	KNOWN	None	238	None	None	50280059	50332922	1	None	KIAA0037, AC7
16	ADCY7	ENSG00000121281	ENST00000394697	protein_coding	KNOWN	CCDS10741	238	3243	1080	50300427	50352046	1	None	KIAA0037, AC7
16	ADCY7	ENSG00000121281	ENST00000562623	processed_transcript	KNOWN	None	238	None	None	50300452	50322015	1	None	KIAA0037, AC7
16	ADCY7	ENSG00000121281	ENST00000566433	protein_coding	NOVEL	None	238	2205	734	50300462	50344434	1	None	KIAA0037, AC7
16	ADCY7	ENSG00000121281	ENST00000568933	processed_transcript	KNOWN	None	238	None	None	50300475	50321845	1	None	KIAA0037, AC7
16	ADCY7	ENSG00000121281	ENST00000563677	processed_transcript	KNOWN	None	238	None	None	50308042	50332892	1	None	KIAA0037, AC7
16	ADCY7	ENSG00000121281	ENST00000566761	protein_coding	NOVEL	None	238	326	107	50308064	50324429	1	None	KIAA0037, AC7
16	ADCY7	ENSG00000121281	ENST00000569265	protein_coding	KNOWN	None	238	51	16	50313438	50322141	1	None	KIAA0037, AC7
16	ADCY7	ENSG00000121281	ENST00000567277	nonsense_mediated_decay	KNOWN	None	238	1593	530	50321988	50344440	1	None	KIAA0037, AC7
16	ADCY7	ENSG00000121281	ENST00000568731	processed_transcript	KNOWN	None	238	None	None	50334731	50335875	1	None	KIAA0037, AC7
16	ADCY7	ENSG00000121281	ENST00000570187	retained_intron	KNOWN	None	238	None	None	50338305	50343109	1	None	KIAA0037, AC7
16	ADCY7	ENSG00000121281	ENST00000568930	retained_intron	KNOWN	None	238	None	None	50347015	50349649	1	None	KIAA0037, AC7
16	ADCY7	ENSG00000121281	ENST00000254235	protein_coding	KNOWN	CCDS10741	238	3243	1080	50321823	50352035	1	None	KIAA0037, AC7
16	ADCY7	ENSG00000121281	ENST00000538642	protein_coding	KNOWN	None	238	2205	734	50300462	50344434	1	None	KIAA0037, AC7
16	ADCY7	ENSG00000121281	ENST00000537579	protein_coding	KNOWN	None	238	1302	433	50321822	50344426	1	None	KIAA0037, AC7
1	EPHA10	ENSG00000183317	ENST00000432874	nonsense_mediated_decay	KNOWN	None	19987	653	216	38179552	38197166	-1	None	FLJ16103, FLJ33655
1	EPHA10	ENSG00000183317	ENST00000534097	nonsense_mediated_decay	KNOWN	None	19987	1179	392	38179558	38197245	-1	None	FLJ16103, FLJ33655
1	EPHA10	ENSG00000183317	ENST00000437645	nonsense_mediated_decay	KNOWN	None	19987	657	218	38179560	38218578	-1	None	FLJ16103, FLJ33655
1	EPHA10	ENSG00000183317	ENST00000444950	retained_intron	KNOWN	None	19987	None	None	38179565	38180692	-1	None	FLJ16103, FLJ33655
1	EPHA10	ENSG00000183317	ENST00000446149	processed_transcript	KNOWN	None	19987	None	None	38180526	38222363	-1	None	FLJ16103, FLJ33655
1	EPHA10	ENSG00000183317	ENST00000373048	protein_coding	KNOWN	CCDS41305	19987	3027	1008	38181646	38230738	-1	None	FLJ16103, FLJ33655
1	EPHA10	ENSG00000183317	ENST00000453577	retained_intron	KNOWN	None	19987	None	None	38186351	38187529	-1	None	FLJ16103, FLJ33655
1	EPHA10	ENSG00000183317	ENST00000525749	nonsense_mediated_decay	KNOWN	None	19987	277	91	38192865	38218666	-1	None	FLJ16103, FLJ33655
1	EPHA10	ENSG00000183317	ENST00000319637	protein_coding	KNOWN	CCDS425	19987	888	295	38225944	38230805	-1	None	FLJ16103, FLJ33655
1	EPHA10	ENSG00000183317	ENST00000330210	protein_coding	KNOWN	None	19987	1632	543	38179561	38222363	-1	None	FLJ16103, FLJ33655
1	EPHA10	ENSG00000183317	ENST00000427468	protein_coding	KNOWN	None	19987	3045	1014	38179561	38230738	-1	None	FLJ16103, FLJ33655
1	EPHA10	ENSG00000183317	ENST00000540011	protein_coding	KNOWN	None	19987	468	155	38179561	38218578	-1	None	FLJ16103, FLJ33655
1	HSD3B2	ENSG00000203859	ENST00000433745	protein_coding	KNOWN	None	5218	587	194	119957673	119964711	1	None	SDR11E2
1	HSD3B2	ENSG00000203859	ENST00000369416	protein_coding	KNOWN	CCDS902	5218	1119	372	119957707	119965657	1	None	SDR11E2
1	HSD3B2	ENSG00000203859	ENST00000471656	processed_transcript	KNOWN	None	5218	None	None	119957774	119962515	1	None	SDR11E2
1	HSD3B2	ENSG00000203859	ENST00000443865	processed_transcript	KNOWN	None	5218	None	None	119957786	119962228	1	None	SDR11E2
1	HSD3B2	ENSG00000203859	ENST00000448448	processed_transcript	KNOWN	None	5218	None	None	119960036	119964646	1	None	SDR11E2
1	HSD3B2	ENSG00000203859	ENST00000543831	protein_coding	KNOWN	CCDS902	5218	1119	372	119957554	119965658	1	None	SDR11E2
1	PTPN7	ENSG00000143851	ENST00000367279	protein_coding	KNOWN	CCDS1422	9659	1200	399	202116141	202129119	-1	None	HEPTP, LC-PTP
1	PTPN7	ENSG00000143851	ENST00000309017	protein_coding	KNOWN	CCDS1423	9659	1398	465	202116141	202130709	-1	None	HEPTP, LC-PTP
1	PTPN7	ENSG00000143851	ENST00000495688	nonsense_mediated_decay	KNOWN	None	9659	1083	360	202116143	202129722	-1	None	HEPTP, LC-PTP
1	PTPN7	ENSG00000143851	ENST00000462815	nonsense_mediated_decay	KNOWN	None	9659	351	116	202117341	202129736	-1	None	HEPTP, LC-PTP
1	PTPN7	ENSG00000143851	ENST00000496197	nonsense_mediated_decay	KNOWN	None	9659	423	140	202117417	202129736	-1	None	HEPTP, LC-PTP
1	PTPN7	ENSG00000143851	ENST00000480836	nonsense_mediated_decay	KNOWN	None	9659	231	76	202117567	202129743	-1	None	HEPTP, LC-PTP
1	PTPN7	ENSG00000143851	ENST00000477554	protein_coding	PUTATIVE	None	9659	1326	441	202117628	202130709	-1	None	HEPTP, LC-PTP
1	PTPN7	ENSG00000143851	ENST00000492977	processed_transcript	KNOWN	None	9659	None	None	202118979	202127697	-1	None	HEPTP, LC-PTP
1	PTPN7	ENSG00000143851	ENST00000477625	protein_coding	PUTATIVE	None	9659	673	223	202121666	202129772	-1	None	HEPTP, LC-PTP
1	PTPN7	ENSG00000143851	ENST00000479092	processed_transcript	KNOWN	None	9659	None	None	202123314	202129743	-1	None	HEPTP, LC-PTP
1	PTPN7	ENSG00000143851	ENST00000476061	protein_coding	PUTATIVE	None	9659	550	182	202123367	202129730	-1	None	HEPTP, LC-PTP
1	PTPN7	ENSG00000143851	ENST00000467283	protein_coding	NOVEL	None	9659	461	152	202124665	202129736	-1	None	HEPTP, LC-PTP
1	PTPN7	ENSG00000143851	ENST00000464870	protein_coding	NOVEL	None	9659	464	153	202124665	202129736	-1	None	HEPTP, LC-PTP
1	PTPN7	ENSG00000143851	ENST00000435759	protein_coding	NOVEL	None	9659	459	152	202124689	202129736	-1	None	HEPTP, LC-PTP
1	PTPN7	ENSG00000143851	ENST00000486116	protein_coding	NOVEL	None	9659	420	139	202124709	202129736	-1	None	HEPTP, LC-PTP
1	PTPN7	ENSG00000143851	ENST00000491584	retained_intron	KNOWN	None	9659	None	None	202127092	202129733	-1	None	HEPTP, LC-PTP
1	PTPN7	ENSG00000143851	ENST00000492451	protein_coding	NOVEL	None	9659	306	101	202127246	202130716	-1	None	HEPTP, LC-PTP
1	PTPN7	ENSG00000143851	ENST00000468385	retained_intron	KNOWN	None	9659	None	None	202127586	202129736	-1	None	HEPTP, LC-PTP
1	PTPN7	ENSG00000143851	ENST00000308986	protein_coding	KNOWN	None	9659	1083	360	202116143	202129751	-1	None	HEPTP, LC-PTP
1	PTPN7	ENSG00000143851	ENST00000543735	protein_coding	KNOWN	None	9659	570	189	202117567	202129743	-1	None	HEPTP, LC-PTP
1	PTPN7	ENSG00000143851	ENST00000544762	protein_coding	KNOWN	None	9659	411	136	202117341	202129736	-1	None	HEPTP, LC-PTP
16	B3GNT9	ENSG00000237172	ENST00000449549	protein_coding	KNOWN	CCDS45509	28714	1209	402	67182008	67185117	-1	None	MGC4655
9	B4GALT1	ENSG00000086062	ENST00000379731	protein_coding	KNOWN	CCDS6535	924	1197	398	33110635	33167354	-1	GGTB2	beta4Gal-T1
9	B4GALT1	ENSG00000086062	ENST00000535206	protein_coding	KNOWN	None	924	678	225	33104080	33167354	-1	GGTB2	beta4Gal-T1
9	B4GALT1	ENSG00000086062	ENST00000541851	protein_coding	KNOWN	None	924	438	145	33113366	33128197	-1	GGTB2	beta4Gal-T1
18	NARS	ENSG00000134440	ENST00000256854	protein_coding	KNOWN	CCDS32837	7643	1647	548	55267888	55289405	-1	None	NARS1
18	NARS	ENSG00000134440	ENST00000589314	retained_intron	KNOWN	None	7643	None	None	55268575	55273094	-1	None	NARS1
18	NARS	ENSG00000134440	ENST00000586807	nonsense_mediated_decay	KNOWN	None	7643	411	136	55268582	55289017	-1	None	NARS1
18	NARS	ENSG00000134440	ENST00000589001	retained_intron	KNOWN	None	7643	None	None	55273166	55274422	-1	None	NARS1
18	NARS	ENSG00000134440	ENST00000411676	retained_intron	KNOWN	None	7643	None	None	55274388	55289040	-1	None	NARS1
18	NARS	ENSG00000134440	ENST00000540592	nonsense_mediated_decay	KNOWN	None	7643	525	174	55274434	55289024	-1	None	NARS1
18	NARS	ENSG00000134440	ENST00000591599	protein_coding	PUTATIVE	None	7643	501	166	55274886	55289032	-1	None	NARS1
18	NARS	ENSG00000134440	ENST00000588661	protein_coding	PUTATIVE	None	7643	490	162	55274888	55289056	-1	None	NARS1
18	NARS	ENSG00000134440	ENST00000587675	protein_coding	PUTATIVE	None	7643	385	127	55274888	55289445	-1	None	NARS1
18	NARS	ENSG00000134440	ENST00000587194	protein_coding	PUTATIVE	None	7643	487	161	55276610	55289024	-1	None	NARS1
18	NARS	ENSG00000134440	ENST00000590123	nonsense_mediated_decay	KNOWN	None	7643	144	47	55280856	55288969	-1	None	NARS1
18	NARS	ENSG00000134440	ENST00000587366	retained_intron	KNOWN	None	7643	None	None	55280885	55289008	-1	None	NARS1
18	NARS	ENSG00000134440	ENST00000423481	protein_coding	KNOWN	None	7643	900	299	55268582	55289017	-1	None	NARS1
11	CHEK1	ENSG00000149554	ENST00000525396	protein_coding	PUTATIVE	None	1925	401	132	125495560	125499332	1	None	CHK1
11	CHEK1	ENSG00000149554	ENST00000427383	protein_coding	PUTATIVE	None	1925	1479	492	125495621	125525371	1	None	CHK1
11	CHEK1	ENSG00000149554	ENST00000428830	protein_coding	PUTATIVE	CCDS8459	1925	1431	476	125495869	125546150	1	None	CHK1
11	CHEK1	ENSG00000149554	ENST00000532449	processed_transcript	KNOWN	None	1925	None	None	125495872	125525605	1	None	CHK1
11	CHEK1	ENSG00000149554	ENST00000528761	processed_transcript	KNOWN	None	1925	None	None	125495873	125513802	1	None	CHK1
11	CHEK1	ENSG00000149554	ENST00000527013	protein_coding	PUTATIVE	None	1925	613	203	125495897	125503246	1	None	CHK1
11	CHEK1	ENSG00000149554	ENST00000526937	protein_coding	PUTATIVE	None	1925	512	169	125495900	125503145	1	None	CHK1
11	CHEK1	ENSG00000149554	ENST00000534685	protein_coding	PUTATIVE	None	1925	381	126	125495902	125499312	1	None	CHK1
11	CHEK1	ENSG00000149554	ENST00000533778	protein_coding	PUTATIVE	None	1925	127	41	125496124	125497563	1	None	CHK1
11	CHEK1	ENSG00000149554	ENST00000534070	protein_coding	KNOWN	CCDS8459	1925	1431	476	125496236	125527031	1	None	CHK1
11	CHEK1	ENSG00000149554	ENST00000524737	protein_coding	PUTATIVE	CCDS8459	1925	1431	476	125496453	125526230	1	None	CHK1
11	CHEK1	ENSG00000149554	ENST00000531607	processed_transcript	KNOWN	None	1925	None	None	125496643	125503088	1	None	CHK1
11	CHEK1	ENSG00000149554	ENST00000532669	protein_coding	PUTATIVE	None	1925	578	191	125496643	125507440	1	None	CHK1
11	CHEK1	ENSG00000149554	ENST00000278916	protein_coding	PUTATIVE	None	1925	1299	432	125496643	125525608	1	None	CHK1
11	CHEK1	ENSG00000149554	ENST00000531062	retained_intron	KNOWN	None	1925	None	None	125503182	125506030	1	None	CHK1
11	CHEK1	ENSG00000149554	ENST00000528276	retained_intron	KNOWN	None	1925	None	None	125512756	125525481	1	None	CHK1
11	CHEK1	ENSG00000149554	ENST00000498122	processed_transcript	KNOWN	None	1925	None	None	125514467	125546150	1	None	CHK1
11	CHEK1	ENSG00000149554	ENST00000438015	protein_coding	KNOWN	CCDS8459	1925	1431	476	125495036	125525640	1	None	CHK1
11	CHEK1	ENSG00000149554	ENST00000544373	protein_coding	KNOWN	CCDS58191	1925	1329	442	125495875	125525401	1	None	CHK1
HSCHR6_MHC_MANN	None	ENSG00000227529	ENST00000431191	processed_pseudogene	NOVEL	None	None	None	None	29044353	29044948	-1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000243245	ENST00000444989	processed_transcript	PUTATIVE	None	None	None	None	32715557	32718146	-1	None	None
HSCHR6_MHC_SSTO	MTCO3P1	ENSG00000233317	ENST00000416752	unprocessed_pseudogene	KNOWN	None	31342	None	None	32765194	32766025	-1	None	U92032.1
HSCHR6_MHC_MANN	OR2J1	ENSG00000225441	ENST00000419942	unprocessed_pseudogene	KNOWN	None	8259	None	None	29068731	29069669	1	OR2J1P	OR6-5, hs6M1-4, dJ80I19.2
Y	FAM197Y3	ENSG00000230066	ENST00000427622	antisense	KNOWN	None	37465	None	None	9334896	9342768	-1	None	None
Y	FAM197Y3	ENSG00000230066	ENST00000414596	antisense	KNOWN	None	37465	None	None	9336950	9342550	-1	None	None
4	None	ENSG00000250497	ENST00000508202	lincRNA	KNOWN	None	None	None	None	13779001	13783781	-1	None	None
4	None	ENSG00000224569	ENST00000509955	processed_pseudogene	KNOWN	None	None	None	None	13978790	13979652	1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000232343	ENST00000416257	processed_transcript	KNOWN	None	None	None	None	32776588	32777410	1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000232343	ENST00000418398	processed_transcript	PUTATIVE	None	None	None	None	32776613	32777415	1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000232343	ENST00000423124	processed_transcript	PUTATIVE	None	None	None	None	32776968	32777418	1	None	None
Y	None	ENSG00000270073	ENST00000448518	unprocessed_pseudogene	KNOWN	None	None	None	None	9345205	9347784	1	None	None
19	ZNF611	ENSG00000213020	ENST00000595001	nonsense_mediated_decay	KNOWN	None	28766	195	64	53206066	53238291	-1	None	MGC5384
19	ZNF611	ENSG00000213020	ENST00000602162	protein_coding	KNOWN	CCDS54312	28766	1911	636	53206863	53238297	-1	None	MGC5384
19	ZNF611	ENSG00000213020	ENST00000319783	protein_coding	KNOWN	CCDS12855	28766	2118	705	53207472	53233135	-1	None	MGC5384
19	ZNF611	ENSG00000213020	ENST00000595798	protein_coding	KNOWN	CCDS54312	28766	1911	636	53207985	53232039	-1	None	MGC5384
19	ZNF611	ENSG00000213020	ENST00000601249	nonsense_mediated_decay	KNOWN	None	28766	270	89	53207985	53232039	-1	None	MGC5384
19	ZNF611	ENSG00000213020	ENST00000601643	protein_coding	KNOWN	None	28766	388	128	53209713	53238297	-1	None	MGC5384
19	ZNF611	ENSG00000213020	ENST00000600943	protein_coding	PUTATIVE	None	28766	228	75	53209864	53238301	-1	None	MGC5384
19	ZNF611	ENSG00000213020	ENST00000598639	nonsense_mediated_decay	KNOWN	None	28766	243	80	53209875	53238287	-1	None	MGC5384
19	ZNF611	ENSG00000213020	ENST00000597343	nonsense_mediated_decay	KNOWN	None	28766	195	64	53209907	53238271	-1	None	MGC5384
19	ZNF611	ENSG00000213020	ENST00000598723	nonsense_mediated_decay	KNOWN	None	28766	195	64	53209909	53238302	-1	None	MGC5384
19	ZNF611	ENSG00000213020	ENST00000596702	protein_coding	PUTATIVE	None	28766	147	48	53210030	53238297	-1	None	MGC5384
19	ZNF611	ENSG00000213020	ENST00000602046	processed_transcript	KNOWN	None	28766	None	None	53211457	53212084	-1	None	MGC5384
19	ZNF611	ENSG00000213020	ENST00000601447	processed_transcript	KNOWN	None	28766	None	None	53224162	53238291	-1	None	MGC5384
19	ZNF611	ENSG00000213020	ENST00000597566	processed_transcript	KNOWN	None	28766	None	None	53224406	53238326	-1	None	MGC5384
19	ZNF611	ENSG00000213020	ENST00000599798	processed_transcript	KNOWN	None	28766	None	None	53224436	53238268	-1	None	MGC5384
19	ZNF611	ENSG00000213020	ENST00000596776	retained_intron	KNOWN	None	28766	None	None	53226674	53227917	-1	None	MGC5384
19	ZNF611	ENSG00000213020	ENST00000543227	protein_coding	KNOWN	CCDS12855	28766	2118	705	53206066	53238307	-1	None	MGC5384
19	ZNF611	ENSG00000213020	ENST00000540744	protein_coding	KNOWN	CCDS12855	28766	2118	705	53206066	53238307	-1	None	MGC5384
19	ZNF611	ENSG00000213020	ENST00000453741	protein_coding	KNOWN	CCDS54312	28766	1911	636	53206066	53238297	-1	None	MGC5384
2	SCN7A	ENSG00000136546	ENST00000409855	protein_coding	KNOWN	CCDS46442	10594	5049	1682	167260083	167343478	-1	SCN6A	Nav2.1, Nav2.2, NaG
2	SCN7A	ENSG00000136546	ENST00000424326	nonsense_mediated_decay	KNOWN	None	10594	2289	762	167262023	167343478	-1	SCN6A	Nav2.1, Nav2.2, NaG
2	SCN7A	ENSG00000136546	ENST00000419992	protein_coding	KNOWN	None	10594	2589	862	167288831	167350757	-1	SCN6A	Nav2.1, Nav2.2, NaG
2	SCN7A	ENSG00000136546	ENST00000441411	protein_coding	KNOWN	None	10594	1207	401	167313463	167350715	-1	SCN6A	Nav2.1, Nav2.2, NaG
2	SCN7A	ENSG00000136546	ENST00000497562	retained_intron	KNOWN	None	10594	None	None	167318265	167322036	-1	SCN6A	Nav2.1, Nav2.2, NaG
22	MOV10L1	ENSG00000073146	ENST00000262794	protein_coding	KNOWN	CCDS14084	7201	3636	1211	50528435	50600119	1	None	DJ402G11.8, DKFZp434B0717, CHAMP
22	MOV10L1	ENSG00000073146	ENST00000419054	nonsense_mediated_decay	KNOWN	None	7201	171	56	50528474	50546804	1	None	DJ402G11.8, DKFZp434B0717, CHAMP
22	MOV10L1	ENSG00000073146	ENST00000395854	nonsense_mediated_decay	KNOWN	None	7201	171	56	50528483	50546804	1	None	DJ402G11.8, DKFZp434B0717, CHAMP
22	MOV10L1	ENSG00000073146	ENST00000395858	protein_coding	KNOWN	CCDS54541	7201	3498	1165	50528494	50600119	1	None	DJ402G11.8, DKFZp434B0717, CHAMP
22	MOV10L1	ENSG00000073146	ENST00000475190	processed_transcript	PUTATIVE	None	7201	None	None	50528685	50546613	1	None	DJ402G11.8, DKFZp434B0717, CHAMP
22	MOV10L1	ENSG00000073146	ENST00000434497	nonsense_mediated_decay	KNOWN	None	7201	500	165	50552887	50580615	1	None	DJ402G11.8, DKFZp434B0717, CHAMP
22	MOV10L1	ENSG00000073146	ENST00000395852	protein_coding	KNOWN	CCDS54543	7201	1017	338	50585394	50600106	1	None	DJ402G11.8, DKFZp434B0717, CHAMP
22	MOV10L1	ENSG00000073146	ENST00000354853	protein_coding	KNOWN	None	7201	378	125	50587818	50597686	1	None	DJ402G11.8, DKFZp434B0717, CHAMP
22	MOV10L1	ENSG00000073146	ENST00000545383	protein_coding	KNOWN	CCDS14084	7201	3636	1211	50528308	50600047	1	None	DJ402G11.8, DKFZp434B0717, CHAMP
22	MOV10L1	ENSG00000073146	ENST00000540615	protein_coding	KNOWN	CCDS54542	7201	3498	1165	50528685	50600115	1	None	DJ402G11.8, DKFZp434B0717, CHAMP
22	MOV10L1	ENSG00000073146	ENST00000395843	protein_coding	KNOWN	None	7201	378	125	50528516	50596668	1	None	DJ402G11.8, DKFZp434B0717, CHAMP
4	None	ENSG00000248698	ENST00000502759	lincRNA	KNOWN	None	None	None	None	14113592	14141676	1	None	None
4	None	ENSG00000248698	ENST00000511200	lincRNA	KNOWN	None	None	None	None	14113601	14128880	1	None	None
4	None	ENSG00000248698	ENST00000512754	lincRNA	KNOWN	None	None	None	None	14113614	14140361	1	None	None
4	None	ENSG00000248698	ENST00000506739	lincRNA	KNOWN	None	None	None	None	14113644	14141110	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000231960	ENST00000458522	processed_transcript	KNOWN	None	None	None	None	29091992	29096689	1	None	None
7	BBS9	ENSG00000122507	ENST00000432983	protein_coding	KNOWN	None	30000	293	96	33168856	33195279	1	None	B1, PTHB1
7	BBS9	ENSG00000122507	ENST00000242067	protein_coding	KNOWN	CCDS43566	30000	2664	887	33169144	33645680	1	None	B1, PTHB1
7	BBS9	ENSG00000122507	ENST00000350941	protein_coding	KNOWN	CCDS5441	30000	2544	847	33169152	33645680	1	None	B1, PTHB1
7	BBS9	ENSG00000122507	ENST00000396127	protein_coding	KNOWN	CCDS47572	30000	2559	852	33169152	33645680	1	None	B1, PTHB1
7	BBS9	ENSG00000122507	ENST00000355070	protein_coding	KNOWN	CCDS34618	30000	2649	882	33169152	33645680	1	None	B1, PTHB1
7	BBS9	ENSG00000122507	ENST00000465037	processed_transcript	KNOWN	None	30000	None	None	33169169	33217187	1	None	B1, PTHB1
7	BBS9	ENSG00000122507	ENST00000433714	nonsense_mediated_decay	KNOWN	None	30000	1383	460	33169174	33645244	1	None	B1, PTHB1
7	BBS9	ENSG00000122507	ENST00000482941	processed_transcript	KNOWN	None	30000	None	None	33169179	33192448	1	None	B1, PTHB1
7	BBS9	ENSG00000122507	ENST00000442858	protein_coding	PUTATIVE	None	30000	439	145	33197250	33312726	1	None	B1, PTHB1
7	BBS9	ENSG00000122507	ENST00000434373	protein_coding	KNOWN	None	30000	1363	453	33384219	33645238	1	None	B1, PTHB1
7	BBS9	ENSG00000122507	ENST00000496029	processed_transcript	KNOWN	None	30000	None	None	33423366	33430260	1	None	B1, PTHB1
7	BBS9	ENSG00000122507	ENST00000495426	retained_intron	KNOWN	None	30000	None	None	33545194	33573982	1	None	B1, PTHB1
7	BBS9	ENSG00000122507	ENST00000489708	processed_transcript	PUTATIVE	None	30000	None	None	33545200	33644564	1	None	B1, PTHB1
7	BBS9	ENSG00000122507	ENST00000498189	retained_intron	KNOWN	None	30000	None	None	33573299	33644819	1	None	B1, PTHB1
7	BBS9	ENSG00000122507	ENST00000354265	protein_coding	KNOWN	None	30000	2559	852	33169152	33645680	1	None	B1, PTHB1
7	BBS9	ENSG00000122507	ENST00000425508	protein_coding	KNOWN	None	30000	933	310	33169152	33353923	1	None	B1, PTHB1
HSCHR6_MHC_MANN	OR2N1P	ENSG00000228846	ENST00000437251	unprocessed_pseudogene	KNOWN	None	8271	None	None	29105657	29106593	-1	None	OR6-7
HSCHR6_MHC_MANN	OR2J4P	ENSG00000230136	ENST00000450387	unprocessed_pseudogene	KNOWN	None	8262	None	None	29149308	29150243	1	None	OR6-9, hs6M1-5, dJ80I19.5
HSCHR6_MHC_SSTO	HLA-DQB3	ENSG00000234968	ENST00000430338	unprocessed_pseudogene	KNOWN	None	4946	None	None	32789345	32790282	-1	HLA-DVB	D6S205, D6S205E, DVB, DQB3
1	HSD3B1	ENSG00000203857	ENST00000531340	protein_coding	KNOWN	None	5217	245	80	120049821	120054225	1	HSDB3, HSD3B	SDR11E1
1	HSD3B1	ENSG00000203857	ENST00000369413	protein_coding	KNOWN	CCDS903	5217	1122	373	120049826	120057677	1	HSDB3, HSD3B	SDR11E1
1	HSD3B1	ENSG00000203857	ENST00000492140	retained_intron	KNOWN	None	5217	None	None	120049836	120054575	1	HSDB3, HSD3B	SDR11E1
1	HSD3B1	ENSG00000203857	ENST00000487520	retained_intron	KNOWN	None	5217	None	None	120049863	120050647	1	HSDB3, HSD3B	SDR11E1
1	HSD3B1	ENSG00000203857	ENST00000528909	protein_coding	KNOWN	CCDS903	5217	1122	373	120049941	120057423	1	HSDB3, HSD3B	SDR11E1
1	HSD3B1	ENSG00000203857	ENST00000235547	protein_coding	KNOWN	None	5217	1128	375	120049826	120057681	1	HSDB3, HSD3B	SDR11E1
HSCHR6_MHC_MANN	OR2H4P	ENSG00000231919	ENST00000437319	unprocessed_pseudogene	KNOWN	None	8255	None	None	29183059	29184002	1	None	OR6-3, OR2H4, hs6M1-7, dJ80I19.6
HSCHR6_MHC_SSTO	MIR3135B	ENSG00000264770	ENST00000578480	miRNA	KNOWN	None	41783	None	None	32808498	32808565	-1	None	hsa-mir-3135b
19	ZNF91	ENSG00000167232	ENST00000593645	processed_transcript	PUTATIVE	None	13166	None	None	23487793	23493375	-1	None	HPF7, HTF10
19	ZNF91	ENSG00000167232	ENST00000593292	processed_transcript	KNOWN	None	13166	None	None	23487801	23493365	-1	None	HPF7, HTF10
19	ZNF91	ENSG00000167232	ENST00000596528	processed_transcript	KNOWN	None	13166	None	None	23489611	23541647	-1	None	HPF7, HTF10
19	ZNF91	ENSG00000167232	ENST00000595893	processed_transcript	KNOWN	None	13166	None	None	23491546	23493424	-1	None	HPF7, HTF10
19	ZNF91	ENSG00000167232	ENST00000596989	processed_transcript	KNOWN	None	13166	None	None	23491705	23578273	-1	None	HPF7, HTF10
19	ZNF91	ENSG00000167232	ENST00000597458	retained_intron	KNOWN	None	13166	None	None	23520633	23522939	-1	None	HPF7, HTF10
19	ZNF91	ENSG00000167232	ENST00000599743	protein_coding	PUTATIVE	None	13166	369	122	23521551	23578259	-1	None	HPF7, HTF10
19	ZNF91	ENSG00000167232	ENST00000599281	processed_transcript	KNOWN	None	13166	None	None	23521655	23541650	-1	None	HPF7, HTF10
19	ZNF91	ENSG00000167232	ENST00000593341	processed_transcript	KNOWN	None	13166	None	None	23521678	23541782	-1	None	HPF7, HTF10
19	ZNF91	ENSG00000167232	ENST00000300619	protein_coding	KNOWN	CCDS42541	13166	3576	1191	23540498	23578362	-1	None	HPF7, HTF10
19	ZNF91	ENSG00000167232	ENST00000397082	protein_coding	KNOWN	None	13166	3480	1159	23542205	23578248	-1	None	HPF7, HTF10
19	ZNF91	ENSG00000167232	ENST00000595533	protein_coding	PUTATIVE	None	13166	557	184	23544927	23578220	-1	None	HPF7, HTF10
6	GSTA4	ENSG00000170899	ENST00000486559	processed_transcript	KNOWN	None	4629	None	None	52842751	52852800	-1	None	None
6	GSTA4	ENSG00000170899	ENST00000477599	processed_transcript	KNOWN	None	4629	None	None	52842751	52860102	-1	None	None
6	GSTA4	ENSG00000170899	ENST00000370963	protein_coding	KNOWN	CCDS4948	4629	669	222	52842751	52860176	-1	None	None
6	GSTA4	ENSG00000170899	ENST00000370960	protein_coding	KNOWN	None	4629	390	129	52843053	52859201	-1	None	None
6	GSTA4	ENSG00000170899	ENST00000370959	protein_coding	KNOWN	CCDS4948	4629	669	222	52843262	52859968	-1	None	None
6	GSTA4	ENSG00000170899	ENST00000457564	protein_coding	KNOWN	None	4629	267	88	52847372	52859059	-1	None	None
6	GSTA4	ENSG00000170899	ENST00000541324	protein_coding	KNOWN	None	4629	390	129	52842754	52859105	-1	None	None
HSCHR6_MHC_MANN	None	ENSG00000225188	ENST00000445920	processed_transcript	KNOWN	None	None	None	None	29191796	29234882	1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000233140	ENST00000449128	processed_transcript	KNOWN	None	None	None	None	32901778	32904187	1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000233140	ENST00000416271	processed_transcript	KNOWN	None	None	None	None	32901800	32903511	1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000233140	ENST00000425302	processed_transcript	KNOWN	None	None	None	None	32901825	32903678	1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000233140	ENST00000434691	processed_transcript	KNOWN	None	None	None	None	32901825	32903897	1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000233140	ENST00000411869	processed_transcript	KNOWN	None	None	None	None	32901826	32903387	1	None	None
HSCHR6_MHC_SSTO	None	ENSG00000233140	ENST00000449548	processed_transcript	KNOWN	None	None	None	None	32901830	32903770	1	None	None
1	MANEAL	ENSG00000185090	ENST00000373045	protein_coding	KNOWN	CCDS44110	26452	1374	457	38259474	38266805	1	None	FLJ31434
1	MANEAL	ENSG00000185090	ENST00000397631	protein_coding	KNOWN	CCDS44111	26452	753	250	38259555	38266805	1	None	FLJ31434
1	MANEAL	ENSG00000185090	ENST00000532512	protein_coding	PUTATIVE	None	26452	393	130	38260155	38265893	1	None	FLJ31434
1	MANEAL	ENSG00000185090	ENST00000525897	protein_coding	PUTATIVE	None	26452	792	263	38261080	38266120	1	None	FLJ31434
1	MANEAL	ENSG00000185090	ENST00000329006	protein_coding	KNOWN	CCDS426	26452	708	235	38261160	38266809	1	None	FLJ31434
6	UNC5CL	ENSG00000124602	ENST00000373164	protein_coding	KNOWN	CCDS4847	21203	1557	518	40996110	41002874	-1	None	MGC34763, ZUD
6	UNC5CL	ENSG00000124602	ENST00000470102	processed_transcript	KNOWN	None	21203	None	None	40996112	41000726	-1	None	MGC34763, ZUD
6	UNC5CL	ENSG00000124602	ENST00000244565	protein_coding	KNOWN	CCDS4847	21203	1557	518	40994772	41006928	-1	None	MGC34763, ZUD
1	ZNF697	ENSG00000143067	ENST00000421812	protein_coding	KNOWN	CCDS44202	32034	1638	545	120162045	120190396	-1	None	MGC45731
8	PDP1	ENSG00000164951	ENST00000523021	processed_transcript	PUTATIVE	None	9279	None	None	94870035	94933576	1	PPM2C	PDP, PDH
8	PDP1	ENSG00000164951	ENST00000297598	protein_coding	KNOWN	CCDS6259	9279	1614	537	94929083	94938290	1	PPM2C	PDP, PDH
8	PDP1	ENSG00000164951	ENST00000520614	protein_coding	KNOWN	None	9279	216	71	94929084	94934503	1	PPM2C	PDP, PDH
8	PDP1	ENSG00000164951	ENST00000520728	protein_coding	KNOWN	CCDS6259	9279	1614	537	94929162	94936616	1	PPM2C	PDP, PDH
8	PDP1	ENSG00000164951	ENST00000518107	protein_coding	KNOWN	None	9279	230	75	94929175	94934517	1	PPM2C	PDP, PDH
8	PDP1	ENSG00000164951	ENST00000518573	protein_coding	KNOWN	None	9279	384	127	94929279	94934671	1	PPM2C	PDP, PDH
8	PDP1	ENSG00000164951	ENST00000517764	protein_coding	KNOWN	CCDS6259	9279	1614	537	94929975	94936184	1	PPM2C	PDP, PDH
8	PDP1	ENSG00000164951	ENST00000518827	protein_coding	KNOWN	None	9279	698	231	94931138	94934985	1	PPM2C	PDP, PDH
8	PDP1	ENSG00000164951	ENST00000521144	protein_coding	KNOWN	None	9279	441	146	94932107	94934728	1	PPM2C	PDP, PDH
8	PDP1	ENSG00000164951	ENST00000396200	protein_coding	KNOWN	CCDS55262	9279	1689	562	94929175	94938294	1	PPM2C	PDP, PDH
12	TUBA1A	ENSG00000167552	ENST00000301071	protein_coding	KNOWN	CCDS8781	20766	1356	451	49578579	49583107	-1	None	TUBA3, B-ALPHA-1, FLJ25113
12	TUBA1A	ENSG00000167552	ENST00000295766	protein_coding	PUTATIVE	CCDS58227	20766	1356	451	49578742	49582682	-1	None	TUBA3, B-ALPHA-1, FLJ25113
12	TUBA1A	ENSG00000167552	ENST00000550767	protein_coding	PUTATIVE	CCDS58226	20766	1251	416	49578793	49580647	-1	None	TUBA3, B-ALPHA-1, FLJ25113
12	TUBA1A	ENSG00000167552	ENST00000547939	protein_coding	PUTATIVE	None	20766	659	218	49579385	49582849	-1	None	TUBA3, B-ALPHA-1, FLJ25113
12	TUBA1A	ENSG00000167552	ENST00000546918	protein_coding	PUTATIVE	None	20766	696	231	49579404	49582849	-1	None	TUBA3, B-ALPHA-1, FLJ25113
12	TUBA1A	ENSG00000167552	ENST00000552924	protein_coding	PUTATIVE	None	20766	336	111	49579708	49582861	-1	None	TUBA3, B-ALPHA-1, FLJ25113
12	TUBA1A	ENSG00000167552	ENST00000548363	retained_intron	KNOWN	None	20766	None	None	49579799	49582766	-1	None	TUBA3, B-ALPHA-1, FLJ25113
12	TUBA1A	ENSG00000167552	ENST00000550254	retained_intron	KNOWN	None	20766	None	None	49579946	49582784	-1	None	TUBA3, B-ALPHA-1, FLJ25113
12	TUBA1A	ENSG00000167552	ENST00000550811	protein_coding	PUTATIVE	None	20766	79	25	49580436	49581241	-1	None	TUBA3, B-ALPHA-1, FLJ25113
19	CEACAM7	ENSG00000007306	ENST00000006724	protein_coding	KNOWN	CCDS12583	1819	798	265	42177235	42192296	-1	CGM2	CEA
19	CEACAM7	ENSG00000007306	ENST00000401731	protein_coding	KNOWN	CCDS12583	1819	798	265	42178371	42192199	-1	CGM2	CEA
19	CEACAM7	ENSG00000007306	ENST00000602225	protein_coding	KNOWN	None	1819	519	172	42181337	42192096	-1	CGM2	CEA
19	CEACAM7	ENSG00000007306	ENST00000599715	processed_transcript	KNOWN	None	1819	None	None	42187976	42210895	-1	CGM2	CEA
19	CEACAM7	ENSG00000007306	ENST00000338196	protein_coding	KNOWN	None	1819	519	172	42178371	42192199	-1	CGM2	CEA
12	TMEM52B	ENSG00000165685	ENST00000381923	protein_coding	KNOWN	None	26438	552	183	10323141	10344384	1	C12orf59	FLJ31166
12	TMEM52B	ENSG00000165685	ENST00000334148	processed_transcript	KNOWN	None	26438	None	None	10323229	10325017	1	C12orf59	FLJ31166
12	TMEM52B	ENSG00000165685	ENST00000545924	processed_transcript	KNOWN	None	26438	None	None	10323328	10328121	1	C12orf59	FLJ31166
12	TMEM52B	ENSG00000165685	ENST00000298530	protein_coding	KNOWN	CCDS8619	26438	492	163	10331612	10344400	1	C12orf59	FLJ31166
12	TMEM52B	ENSG00000165685	ENST00000543484	protein_coding	KNOWN	None	26438	270	89	10331902	10339151	1	C12orf59	FLJ31166
12	TMEM52B	ENSG00000165685	ENST00000546153	retained_intron	KNOWN	None	26438	None	None	10338996	10342862	1	C12orf59	FLJ31166
12	TMEM52B	ENSG00000165685	ENST00000536952	protein_coding	KNOWN	None	26438	552	183	10332113	10343582	1	C12orf59	FLJ31166
17	BIRC5	ENSG00000089685	ENST00000301633	protein_coding	KNOWN	CCDS32752	593	498	165	76210267	76221717	1	API4	EPR-1, survivin
17	BIRC5	ENSG00000089685	ENST00000350051	protein_coding	KNOWN	CCDS11755	593	429	142	76210279	76221717	1	API4	EPR-1, survivin
17	BIRC5	ENSG00000089685	ENST00000590925	nonsense_mediated_decay	KNOWN	None	593	363	120	76210344	76219635	1	API4	EPR-1, survivin
17	BIRC5	ENSG00000089685	ENST00000374948	protein_coding	KNOWN	CCDS32751	593	414	137	76210345	76221717	1	API4	EPR-1, survivin
17	BIRC5	ENSG00000089685	ENST00000590449	protein_coding	KNOWN	None	593	225	74	76210361	76211180	1	API4	EPR-1, survivin
17	BIRC5	ENSG00000089685	ENST00000592734	protein_coding	KNOWN	None	593	237	78	76210398	76219073	1	API4	EPR-1, survivin
17	BIRC5	ENSG00000089685	ENST00000592115	retained_intron	KNOWN	None	593	None	None	76210446	76219060	1	API4	EPR-1, survivin
17	BIRC5	ENSG00000089685	ENST00000586192	nonsense_mediated_decay	KNOWN	None	593	250	82	76210466	76219060	1	API4	EPR-1, survivin
17	BIRC5	ENSG00000089685	ENST00000587746	protein_coding	KNOWN	None	593	364	120	76210466	76219060	1	API4	EPR-1, survivin
17	BIRC5	ENSG00000089685	ENST00000591800	nonsense_mediated_decay	KNOWN	None	593	157	51	76210466	76219060	1	API4	EPR-1, survivin
17	BIRC5	ENSG00000089685	ENST00000589892	processed_transcript	KNOWN	None	593	None	None	76212508	76219937	1	API4	EPR-1, survivin
13	TMCO3	ENSG00000150403	ENST00000434316	protein_coding	KNOWN	CCDS9537	20329	2034	677	114145310	114204510	1	C13orf11	FLJ20623
13	TMCO3	ENSG00000150403	ENST00000375391	protein_coding	PUTATIVE	None	20329	1245	414	114145358	114204542	1	C13orf11	FLJ20623
13	TMCO3	ENSG00000150403	ENST00000474393	processed_transcript	KNOWN	None	20329	None	None	114145411	114188667	1	C13orf11	FLJ20623
13	TMCO3	ENSG00000150403	ENST00000473287	processed_transcript	PUTATIVE	None	20329	None	None	114150186	114152960	1	C13orf11	FLJ20623
13	TMCO3	ENSG00000150403	ENST00000462877	processed_transcript	KNOWN	None	20329	None	None	114154336	114174976	1	C13orf11	FLJ20623
13	TMCO3	ENSG00000150403	ENST00000465556	processed_transcript	KNOWN	None	20329	None	None	114174861	114193797	1	C13orf11	FLJ20623
13	TMCO3	ENSG00000150403	ENST00000460039	processed_transcript	KNOWN	None	20329	None	None	114200070	114204230	1	C13orf11	FLJ20623
13	TMCO3	ENSG00000150403	ENST00000491166	processed_transcript	KNOWN	None	20329	None	None	114201464	114203953	1	C13orf11	FLJ20623
1	YRDC	ENSG00000196449	ENST00000373044	protein_coding	KNOWN	CCDS30675	28905	840	279	38268616	38273857	-1	None	FLJ23476, IRIP, SUA5
10	None	ENSG00000222631	ENST00000410699	miRNA	NOVEL	None	None	None	None	71572451	71572541	1	None	None
5	GRK6	ENSG00000198055	ENST00000502598	protein_coding	PUTATIVE	None	4545	190	62	176830205	176859258	1	GPRK6	None
5	GRK6	ENSG00000198055	ENST00000506296	protein_coding	PUTATIVE	None	4545	759	252	176831407	176861031	1	GPRK6	None
5	GRK6	ENSG00000198055	ENST00000511244	protein_coding	PUTATIVE	None	4545	387	128	176853497	176860190	1	GPRK6	None
5	GRK6	ENSG00000198055	ENST00000355472	protein_coding	KNOWN	CCDS34303	4545	1731	576	176853679	176869831	1	GPRK6	None
5	GRK6	ENSG00000198055	ENST00000507633	protein_coding	PUTATIVE	None	4545	1428	475	176853746	176863686	1	GPRK6	None
5	GRK6	ENSG00000198055	ENST00000393576	protein_coding	NOVEL	None	4545	1629	542	176853795	176869902	1	GPRK6	None
5	GRK6	ENSG00000198055	ENST00000355958	protein_coding	KNOWN	CCDS43406	4545	1683	560	176853844	176868354	1	GPRK6	None
5	GRK6	ENSG00000198055	ENST00000528793	protein_coding	KNOWN	CCDS47348	4545	1770	589	176853844	176869626	1	GPRK6	None
5	GRK6	ENSG00000198055	ENST00000512684	protein_coding	PUTATIVE	None	4545	52	16	176853855	176857968	1	GPRK6	None
5	GRK6	ENSG00000198055	ENST00000515666	retained_intron	KNOWN	None	4545	None	None	176858712	176869065	1	GPRK6	None
5	GRK6	ENSG00000198055	ENST00000508705	nonsense_mediated_decay	KNOWN	None	4545	267	88	176859234	176863122	1	GPRK6	None
10	None	ENSG00000266082	ENST00000580451	miRNA	NOVEL	None	None	None	None	71618970	71619055	-1	None	None
HSCHR6_MHC_MCF	TAP1	ENSG00000230705	ENST00000424897	protein_coding	KNOWN	None	43	2427	808	32846466	32855235	-1	ABCB2	PSF1, RING4, D6S114E
HSCHR6_MHC_MCF	TAP1	ENSG00000230705	ENST00000498427	retained_intron	KNOWN	None	43	None	None	32846466	32851397	-1	ABCB2	PSF1, RING4, D6S114E
HSCHR6_MHC_MCF	TAP1	ENSG00000230705	ENST00000481178	retained_intron	KNOWN	None	43	None	None	32846932	32849487	-1	ABCB2	PSF1, RING4, D6S114E
12	SOCS2	ENSG00000120833	ENST00000340600	protein_coding	KNOWN	CCDS9047	19382	597	198	93963590	93970521	1	None	STATI2, SSI2, SOCS-2, SSI-2, CIS2, Cish2
12	SOCS2	ENSG00000120833	ENST00000549206	protein_coding	KNOWN	CCDS9047	19382	597	198	93964175	93969950	1	None	STATI2, SSI2, SOCS-2, SSI-2, CIS2, Cish2
12	SOCS2	ENSG00000120833	ENST00000536696	protein_coding	KNOWN	CCDS9047	19382	597	198	93964756	93968973	1	None	STATI2, SSI2, SOCS-2, SSI-2, CIS2, Cish2
12	SOCS2	ENSG00000120833	ENST00000548091	protein_coding	KNOWN	None	19382	428	141	93965100	93968786	1	None	STATI2, SSI2, SOCS-2, SSI-2, CIS2, Cish2
12	SOCS2	ENSG00000120833	ENST00000549122	protein_coding	KNOWN	CCDS9047	19382	597	198	93965137	93969982	1	None	STATI2, SSI2, SOCS-2, SSI-2, CIS2, Cish2
12	SOCS2	ENSG00000120833	ENST00000548537	protein_coding	PUTATIVE	None	19382	309	102	93965480	93969982	1	None	STATI2, SSI2, SOCS-2, SSI-2, CIS2, Cish2
12	SOCS2	ENSG00000120833	ENST00000549887	protein_coding	KNOWN	None	19382	484	160	93965676	93968842	1	None	STATI2, SSI2, SOCS-2, SSI-2, CIS2, Cish2
12	SOCS2	ENSG00000120833	ENST00000551556	protein_coding	KNOWN	CCDS9047	19382	597	198	93965682	93969082	1	None	STATI2, SSI2, SOCS-2, SSI-2, CIS2, Cish2
12	SOCS2	ENSG00000120833	ENST00000547229	protein_coding	KNOWN	None	19382	8	1	93965911	93966681	1	None	STATI2, SSI2, SOCS-2, SSI-2, CIS2, Cish2
12	SOCS2	ENSG00000120833	ENST00000551883	protein_coding	PUTATIVE	None	19382	350	115	93968741	93969795	1	None	STATI2, SSI2, SOCS-2, SSI-2, CIS2, Cish2
12	SOCS2	ENSG00000120833	ENST00000549510	protein_coding	PUTATIVE	None	19382	140	45	93968834	93977263	1	None	STATI2, SSI2, SOCS-2, SSI-2, CIS2, Cish2
11	SHANK2	ENSG00000162105	ENST00000409161	protein_coding	KNOWN	None	14295	3762	1253	70315538	70507869	-1	CORTBP1	CTTNBP1, ProSAP1, SHANK, SPANK-3
11	SHANK2	ENSG00000162105	ENST00000424924	protein_coding	NOVEL	None	14295	3387	1128	70315540	70348964	-1	CORTBP1	CTTNBP1, ProSAP1, SHANK, SPANK-3
11	SHANK2	ENSG00000162105	ENST00000412252	protein_coding	NOVEL	None	14295	772	256	70318924	70507867	-1	CORTBP1	CTTNBP1, ProSAP1, SHANK, SPANK-3
11	SHANK2	ENSG00000162105	ENST00000294018	protein_coding	KNOWN	None	14295	4422	1473	70318974	70742672	-1	CORTBP1	CTTNBP1, ProSAP1, SHANK, SPANK-3
11	SHANK2	ENSG00000162105	ENST00000409530	protein_coding	KNOWN	None	14295	843	280	70335118	70507869	-1	CORTBP1	CTTNBP1, ProSAP1, SHANK, SPANK-3
11	SHANK2	ENSG00000162105	ENST00000426687	protein_coding	NOVEL	None	14295	460	152	70338537	70544874	-1	CORTBP1	CTTNBP1, ProSAP1, SHANK, SPANK-3
11	SHANK2	ENSG00000162105	ENST00000470759	processed_transcript	KNOWN	None	14295	None	None	70500251	70653179	-1	CORTBP1	CTTNBP1, ProSAP1, SHANK, SPANK-3
11	SHANK2	ENSG00000162105	ENST00000468619	processed_transcript	KNOWN	None	14295	None	None	70513944	70672862	-1	CORTBP1	CTTNBP1, ProSAP1, SHANK, SPANK-3
11	SHANK2	ENSG00000162105	ENST00000498519	processed_transcript	KNOWN	None	14295	None	None	70544184	70653244	-1	CORTBP1	CTTNBP1, ProSAP1, SHANK, SPANK-3
11	SHANK2	ENSG00000162105	ENST00000460048	processed_transcript	KNOWN	None	14295	None	None	70644548	70797178	-1	CORTBP1	CTTNBP1, ProSAP1, SHANK, SPANK-3
11	SHANK2	ENSG00000162105	ENST00000425049	protein_coding	NOVEL	None	14295	557	184	70653154	70719227	-1	CORTBP1	CTTNBP1, ProSAP1, SHANK, SPANK-3
11	SHANK2	ENSG00000162105	ENST00000419988	protein_coding	PUTATIVE	None	14295	271	89	70753740	70754197	-1	CORTBP1	CTTNBP1, ProSAP1, SHANK, SPANK-3
11	SHANK2	ENSG00000162105	ENST00000425585	protein_coding	NOVEL	None	14295	127	41	70798846	70798972	-1	CORTBP1	CTTNBP1, ProSAP1, SHANK, SPANK-3
11	SHANK2	ENSG00000162105	ENST00000458632	protein_coding	NOVEL	None	14295	320	105	70803468	70805734	-1	CORTBP1	CTTNBP1, ProSAP1, SHANK, SPANK-3
11	SHANK2	ENSG00000162105	ENST00000457074	protein_coding	KNOWN	None	14295	912	303	70803468	70858372	-1	CORTBP1	CTTNBP1, ProSAP1, SHANK, SPANK-3
11	SHANK2	ENSG00000162105	ENST00000413503	protein_coding	PUTATIVE	None	14295	912	303	70803468	70963623	-1	CORTBP1	CTTNBP1, ProSAP1, SHANK, SPANK-3
11	SHANK2	ENSG00000162105	ENST00000482659	processed_transcript	PUTATIVE	None	14295	None	None	70885739	70951970	-1	CORTBP1	CTTNBP1, ProSAP1, SHANK, SPANK-3
11	SHANK2	ENSG00000162105	ENST00000338508	protein_coding	KNOWN	None	14295	5553	1850	70315540	70858372	-1	CORTBP1	CTTNBP1, ProSAP1, SHANK, SPANK-3
11	SHANK2	ENSG00000162105	ENST00000423696	protein_coding	KNOWN	None	14295	4413	1470	70315540	70672645	-1	CORTBP1	CTTNBP1, ProSAP1, SHANK, SPANK-3
11	SHANK2	ENSG00000162105	ENST00000449833	protein_coding	KNOWN	None	14295	3765	1254	70313961	70507923	-1	CORTBP1	CTTNBP1, ProSAP1, SHANK, SPANK-3
11	SHANK2	ENSG00000162105	ENST00000449116	protein_coding	KNOWN	None	14295	816	271	70336272	70507945	-1	CORTBP1	CTTNBP1, ProSAP1, SHANK, SPANK-3
11	SHANK2	ENSG00000162105	ENST00000357171	protein_coding	KNOWN	None	14295	846	281	70336322	70507923	-1	CORTBP1	CTTNBP1, ProSAP1, SHANK, SPANK-3
10	CUBN	ENSG00000107611	ENST00000377833	protein_coding	KNOWN	CCDS7113	2548	10872	3623	16865963	17171830	-1	MGA1	IFCR, gp280
10	CUBN	ENSG00000107611	ENST00000438254	protein_coding	PUTATIVE	None	2548	267	88	17007639	17026194	-1	MGA1	IFCR, gp280
10	CUBN	ENSG00000107611	ENST00000433666	protein_coding	KNOWN	None	2548	318	105	17163881	17169836	-1	MGA1	IFCR, gp280
10	CUBN	ENSG00000107611	ENST00000377823	protein_coding	KNOWN	None	2548	513	170	17165410	17171803	-1	MGA1	IFCR, gp280
X	APLN	ENSG00000171388	ENST00000429967	protein_coding	KNOWN	None	16665	369	122	128779786	128788914	-1	None	apelin, XNPEP2
X	APLN	ENSG00000171388	ENST00000427399	protein_coding	KNOWN	None	16665	369	122	128781653	128782742	-1	None	apelin, XNPEP2
X	APLN	ENSG00000171388	ENST00000307484	protein_coding	KNOWN	CCDS48165	16665	234	77	128779240	128788933	-1	None	apelin, XNPEP2
HSCHR6_MHC_COX	SFTA2	ENSG00000224246	ENST00000448586	protein_coding	KNOWN	None	18386	237	78	30888849	30889671	-1	SFTPG	None
HSCHR6_MHC_COX	SFTA2	ENSG00000224246	ENST00000489761	retained_intron	KNOWN	None	18386	None	None	30888849	30889605	-1	SFTPG	None
11	DEAF1	ENSG00000177030	ENST00000527170	nonsense_mediated_decay	KNOWN	None	14677	1048	348	644233	687936	-1	None	NUDR, SPN, ZMYND5
11	DEAF1	ENSG00000177030	ENST00000382409	protein_coding	KNOWN	CCDS31327	14677	1698	565	644233	695532	-1	None	NUDR, SPN, ZMYND5
11	DEAF1	ENSG00000177030	ENST00000527658	processed_transcript	KNOWN	None	14677	None	None	644234	646596	-1	None	NUDR, SPN, ZMYND5
11	DEAF1	ENSG00000177030	ENST00000525904	processed_transcript	KNOWN	None	14677	None	None	653941	681045	-1	None	NUDR, SPN, ZMYND5
11	DEAF1	ENSG00000177030	ENST00000530813	processed_transcript	KNOWN	None	14677	None	None	653962	684971	-1	None	NUDR, SPN, ZMYND5
11	DEAF1	ENSG00000177030	ENST00000526790	retained_intron	KNOWN	None	14677	None	None	674372	678779	-1	None	NUDR, SPN, ZMYND5
11	DEAF1	ENSG00000177030	ENST00000529717	nonsense_mediated_decay	KNOWN	None	14677	259	85	686921	694931	-1	None	NUDR, SPN, ZMYND5
11	DEAF1	ENSG00000177030	ENST00000525626	processed_transcript	KNOWN	None	14677	None	None	686932	706715	-1	None	NUDR, SPN, ZMYND5
11	DEAF1	ENSG00000177030	ENST00000528864	processed_transcript	KNOWN	None	14677	None	None	686972	693644	-1	None	NUDR, SPN, ZMYND5
11	DEAF1	ENSG00000177030	ENST00000524786	processed_transcript	KNOWN	None	14677	None	None	687912	692350	-1	None	NUDR, SPN, ZMYND5
11	DEAF1	ENSG00000177030	ENST00000529727	processed_transcript	PUTATIVE	None	14677	None	None	689663	691597	-1	None	NUDR, SPN, ZMYND5
11	DEAF1	ENSG00000177030	ENST00000526857	processed_transcript	PUTATIVE	None	14677	None	None	697486	706624	-1	None	NUDR, SPN, ZMYND5
11	DEAF1	ENSG00000177030	ENST00000338675	protein_coding	KNOWN	None	14677	1473	490	644233	695162	-1	None	NUDR, SPN, ZMYND5
9	STXBP1	ENSG00000136854	ENST00000373302	protein_coding	NOVEL	CCDS6874	11444	1812	603	130374544	130454995	1	None	hUNC18, MUNC18-1, UNC18, rbSec1
9	STXBP1	ENSG00000136854	ENST00000373299	protein_coding	KNOWN	CCDS35146	11444	1785	594	130374568	130454995	1	None	hUNC18, MUNC18-1, UNC18, rbSec1
9	STXBP1	ENSG00000136854	ENST00000476182	processed_transcript	PUTATIVE	None	11444	None	None	130374690	130375755	1	None	hUNC18, MUNC18-1, UNC18, rbSec1
9	STXBP1	ENSG00000136854	ENST00000496504	processed_transcript	KNOWN	None	11444	None	None	130423443	130426001	1	None	hUNC18, MUNC18-1, UNC18, rbSec1
9	STXBP1	ENSG00000136854	ENST00000495829	retained_intron	KNOWN	None	11444	None	None	130423443	130426001	1	None	hUNC18, MUNC18-1, UNC18, rbSec1
9	STXBP1	ENSG00000136854	ENST00000481942	processed_transcript	KNOWN	None	11444	None	None	130432232	130457460	1	None	hUNC18, MUNC18-1, UNC18, rbSec1
9	STXBP1	ENSG00000136854	ENST00000494254	processed_transcript	KNOWN	None	11444	None	None	130440803	130446945	1	None	hUNC18, MUNC18-1, UNC18, rbSec1
16	TRADD	ENSG00000102871	ENST00000345057	protein_coding	KNOWN	CCDS10829	12030	939	312	67188083	67194201	-1	None	Hs.89862
16	TRADD	ENSG00000102871	ENST00000486556	protein_coding	PUTATIVE	None	12030	759	252	67188102	67190152	-1	None	Hs.89862
16	TRADD	ENSG00000102871	ENST00000566247	retained_intron	KNOWN	None	12030	None	None	67188736	67189321	-1	None	Hs.89862
16	TRADD	ENSG00000102871	ENST00000563348	retained_intron	KNOWN	None	12030	None	None	67189442	67190584	-1	None	Hs.89862
16	TRADD	ENSG00000102871	ENST00000566104	processed_transcript	KNOWN	None	12030	None	None	67189654	67193801	-1	None	Hs.89862
1	C1orf122	ENSG00000197982	ENST00000373043	protein_coding	KNOWN	CCDS44112	24789	144	47	38272651	38275124	1	None	FLJ45459
1	C1orf122	ENSG00000197982	ENST00000419397	processed_transcript	PUTATIVE	None	24789	None	None	38273332	38274404	1	None	FLJ45459
1	C1orf122	ENSG00000197982	ENST00000468084	protein_coding	KNOWN	CCDS44112	24789	144	47	38273419	38275121	1	None	FLJ45459
1	C1orf122	ENSG00000197982	ENST00000373042	protein_coding	KNOWN	CCDS427	24789	333	110	38273818	38275126	1	None	FLJ45459
1	C1orf122	ENSG00000197982	ENST00000525096	processed_transcript	KNOWN	None	24789	None	None	38274004	38275028	1	None	FLJ45459
1	C1orf122	ENSG00000197982	ENST00000446260	protein_coding	KNOWN	None	24789	480	159	38274082	38275126	1	None	FLJ45459
1	PHGDH	ENSG00000092621	ENST00000493622	processed_transcript	KNOWN	None	8923	None	None	120202421	120277299	1	None	SERA, PGDH, PDG
1	PHGDH	ENSG00000092621	ENST00000496756	processed_transcript	KNOWN	None	8923	None	None	120254507	120264118	1	None	SERA, PGDH, PDG
1	PHGDH	ENSG00000092621	ENST00000369409	protein_coding	KNOWN	CCDS904	8923	1602	533	120254510	120286838	1	None	SERA, PGDH, PDG
1	PHGDH	ENSG00000092621	ENST00000462324	processed_transcript	KNOWN	None	8923	None	None	120254529	120272694	1	None	SERA, PGDH, PDG
1	PHGDH	ENSG00000092621	ENST00000369407	protein_coding	KNOWN	None	8923	1500	499	120262250	120286836	1	None	SERA, PGDH, PDG
1	PHGDH	ENSG00000092621	ENST00000469443	processed_transcript	KNOWN	None	8923	None	None	120276927	120278052	1	None	SERA, PGDH, PDG
1	PHGDH	ENSG00000092621	ENST00000482968	processed_transcript	KNOWN	None	8923	None	None	120282085	120286836	1	None	SERA, PGDH, PDG
19	CEACAM5	ENSG00000105388	ENST00000398599	protein_coding	NOVEL	None	1817	2106	701	42212504	42233265	1	CEA	CD66e
19	CEACAM5	ENSG00000105388	ENST00000221992	protein_coding	KNOWN	CCDS12584	1817	2109	702	42212537	42233718	1	CEA	CD66e
19	CEACAM5	ENSG00000105388	ENST00000460121	retained_intron	KNOWN	None	1817	None	None	42212540	42214002	1	CEA	CD66e
19	CEACAM5	ENSG00000105388	ENST00000596606	retained_intron	KNOWN	None	1817	None	None	42212545	42219789	1	CEA	CD66e
19	CEACAM5	ENSG00000105388	ENST00000405816	protein_coding	KNOWN	CCDS12584	1817	2109	702	42212568	42233255	1	CEA	CD66e
19	CEACAM5	ENSG00000105388	ENST00000595403	protein_coding	NOVEL	None	1817	423	140	42213635	42223947	1	CEA	CD66e
19	CEACAM5	ENSG00000105388	ENST00000595113	protein_coding	NOVEL	None	1817	581	192	42213833	42221549	1	CEA	CD66e
21	RRP1B	ENSG00000160208	ENST00000340648	protein_coding	KNOWN	CCDS33577	23818	2277	758	45079429	45115958	1	KIAA0179	Nnp1, RRP1
21	RRP1B	ENSG00000160208	ENST00000470886	retained_intron	KNOWN	None	23818	None	None	45106013	45115958	1	KIAA0179	Nnp1, RRP1
10	None	ENSG00000224222	ENST00000427247	lincRNA	KNOWN	None	None	None	None	71754382	71767592	-1	None	None
10	CALM2P2	ENSG00000229097	ENST00000428512	processed_pseudogene	KNOWN	None	1447	None	None	71923441	71923880	1	None	None
20	POLR3F	ENSG00000132664	ENST00000377603	protein_coding	KNOWN	CCDS13135	15763	951	316	18447771	18465287	1	None	RPC39, RPC6
20	POLR3F	ENSG00000132664	ENST00000461589	processed_transcript	PUTATIVE	None	15763	None	None	18448033	18450012	1	None	RPC39, RPC6
20	POLR3F	ENSG00000132664	ENST00000462997	processed_transcript	KNOWN	None	15763	None	None	18448033	18465287	1	None	RPC39, RPC6
20	POLR3F	ENSG00000132664	ENST00000497333	processed_transcript	KNOWN	None	15763	None	None	18448039	18464470	1	None	RPC39, RPC6
20	POLR3F	ENSG00000132664	ENST00000475192	processed_transcript	KNOWN	None	15763	None	None	18448075	18453655	1	None	RPC39, RPC6
20	POLR3F	ENSG00000132664	ENST00000489753	processed_transcript	KNOWN	None	15763	None	None	18448092	18464207	1	None	RPC39, RPC6
1	MTF1	ENSG00000188786	ENST00000373036	protein_coding	KNOWN	CCDS30676	7428	2262	753	38275239	38325292	-1	None	None
1	MTF1	ENSG00000188786	ENST00000468190	processed_transcript	KNOWN	None	7428	None	None	38323021	38324211	-1	None	None
5	None	ENSG00000268126	ENST00000597116	protein_coding	NOVEL	None	None	123	40	147698550	147701891	1	None	None
17	None	ENSG00000268310	ENST00000600484	protein_coding	NOVEL	None	None	1011	336	76210462	76220740	-1	None	None
HSCHR6_MHC_DBB	DDX39B	ENSG00000230624	ENST00000491058	retained_intron	KNOWN	None	13917	None	None	31480180	31481704	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_DBB	DDX39B	ENSG00000230624	ENST00000497007	nonsense_mediated_decay	KNOWN	None	13917	424	140	31480180	31485435	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_DBB	DDX39B	ENSG00000230624	ENST00000453488	protein_coding	KNOWN	None	13917	1278	425	31480180	31490494	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_DBB	DDX39B	ENSG00000230624	ENST00000461254	retained_intron	KNOWN	None	13917	None	None	31480180	31491975	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_DBB	DDX39B	ENSG00000230624	ENST00000441425	protein_coding	KNOWN	None	13917	1287	428	31480180	31492406	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_DBB	DDX39B	ENSG00000230624	ENST00000453138	protein_coding	KNOWN	None	13917	1287	428	31480180	31492406	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_DBB	DDX39B	ENSG00000230624	ENST00000456666	protein_coding	KNOWN	None	13917	1287	428	31480180	31496536	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_DBB	DDX39B	ENSG00000230624	ENST00000478906	processed_transcript	PUTATIVE	None	13917	None	None	31480204	31480895	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_DBB	DDX39B	ENSG00000230624	ENST00000417995	protein_coding	KNOWN	None	13917	561	186	31480739	31484471	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_DBB	DDX39B	ENSG00000230624	ENST00000488094	retained_intron	KNOWN	None	13917	None	None	31481076	31481631	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_DBB	DDX39B	ENSG00000230624	ENST00000483957	processed_transcript	KNOWN	None	13917	None	None	31481234	31492359	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_DBB	DDX39B	ENSG00000230624	ENST00000415390	protein_coding	KNOWN	None	13917	737	244	31481262	31491939	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_DBB	DDX39B	ENSG00000230624	ENST00000465849	retained_intron	KNOWN	None	13917	None	None	31482373	31491959	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_DBB	DDX39B	ENSG00000230624	ENST00000417558	protein_coding	KNOWN	None	13917	867	288	31482740	31491489	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_DBB	DDX39B	ENSG00000230624	ENST00000449100	protein_coding	KNOWN	None	13917	714	237	31485348	31491976	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_DBB	DDX39B	ENSG00000230624	ENST00000436919	protein_coding	KNOWN	None	13917	707	234	31485355	31491442	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_DBB	DDX39B	ENSG00000230624	ENST00000432189	protein_coding	KNOWN	None	13917	695	230	31485367	31491895	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_DBB	DDX39B	ENSG00000230624	ENST00000433291	protein_coding	KNOWN	None	13917	591	196	31486569	31491947	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_DBB	DDX39B	ENSG00000230624	ENST00000445783	protein_coding	KNOWN	None	13917	562	186	31486583	31491687	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_DBB	DDX39B	ENSG00000230624	ENST00000413544	protein_coding	KNOWN	None	13917	376	124	31488779	31491944	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_DBB	DDX39B	ENSG00000230624	ENST00000415515	protein_coding	KNOWN	None	13917	409	135	31488791	31491949	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_DBB	DDX39B	ENSG00000230624	ENST00000417491	protein_coding	KNOWN	None	13917	397	131	31488842	31491961	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_DBB	DDX39B	ENSG00000230624	ENST00000443933	protein_coding	KNOWN	None	13917	287	94	31489159	31491831	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_DBB	DDX39B	ENSG00000230624	ENST00000552288	protein_coding	KNOWN	None	13917	1332	443	31480180	31492406	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_DBB	DDX39B	ENSG00000230624	ENST00000546633	protein_coding	KNOWN	None	13917	972	323	31481053	31492406	-1	BAT1	D6S81E, UAP56
15	ADPGK	ENSG00000159322	ENST00000569693	nonsense_mediated_decay	KNOWN	None	25250	80	25	73043710	73048608	-1	None	DKFZp434B195, ADP-GK
15	ADPGK	ENSG00000159322	ENST00000567941	nonsense_mediated_decay	KNOWN	None	25250	237	78	73043710	73076072	-1	None	DKFZp434B195, ADP-GK
15	ADPGK	ENSG00000159322	ENST00000569534	nonsense_mediated_decay	KNOWN	None	25250	342	113	73043710	73076117	-1	None	DKFZp434B195, ADP-GK
15	ADPGK	ENSG00000159322	ENST00000311669	protein_coding	KNOWN	CCDS42057	25250	1491	496	73043710	73076126	-1	None	DKFZp434B195, ADP-GK
15	ADPGK	ENSG00000159322	ENST00000562621	retained_intron	KNOWN	None	25250	None	None	73043713	73050951	-1	None	DKFZp434B195, ADP-GK
15	ADPGK	ENSG00000159322	ENST00000563907	protein_coding	PUTATIVE	None	25250	613	203	73044771	73075964	-1	None	DKFZp434B195, ADP-GK
15	ADPGK	ENSG00000159322	ENST00000569517	nonsense_mediated_decay	KNOWN	None	25250	237	78	73044976	73076056	-1	None	DKFZp434B195, ADP-GK
15	ADPGK	ENSG00000159322	ENST00000567733	processed_transcript	KNOWN	None	25250	None	None	73047977	73075958	-1	None	DKFZp434B195, ADP-GK
15	ADPGK	ENSG00000159322	ENST00000565814	protein_coding	PUTATIVE	None	25250	464	153	73048602	73078187	-1	None	DKFZp434B195, ADP-GK
15	ADPGK	ENSG00000159322	ENST00000569058	retained_intron	KNOWN	None	25250	None	None	73052564	73076069	-1	None	DKFZp434B195, ADP-GK
15	ADPGK	ENSG00000159322	ENST00000566509	retained_intron	KNOWN	None	25250	None	None	73052590	73067455	-1	None	DKFZp434B195, ADP-GK
15	ADPGK	ENSG00000159322	ENST00000562286	nonsense_mediated_decay	KNOWN	None	25250	174	57	73052759	73075969	-1	None	DKFZp434B195, ADP-GK
15	ADPGK	ENSG00000159322	ENST00000562823	nonsense_mediated_decay	KNOWN	None	25250	237	78	73052784	73076071	-1	None	DKFZp434B195, ADP-GK
15	ADPGK	ENSG00000159322	ENST00000456471	protein_coding	KNOWN	None	25250	669	222	73044543	73048340	-1	None	DKFZp434B195, ADP-GK
5	SPINK9	ENSG00000204909	ENST00000511717	protein_coding	PUTATIVE	None	32951	324	107	147700766	147719285	1	None	None
5	SPINK9	ENSG00000204909	ENST00000377906	protein_coding	KNOWN	CCDS34269	32951	261	86	147715122	147719412	1	None	None
HSCHR6_MHC_MANN	OR2G1P	ENSG00000231320	ENST00000428685	unprocessed_pseudogene	KNOWN	None	8251	None	None	29197050	29197980	-1	None	OST619, hs6M1-25
1	LGR6	ENSG00000133067	ENST00000367278	protein_coding	KNOWN	CCDS30971	19719	2904	967	202163029	202288909	1	None	FLJ14471
1	LGR6	ENSG00000133067	ENST00000255432	protein_coding	KNOWN	CCDS1424	19719	2748	915	202172864	202288909	1	None	FLJ14471
1	LGR6	ENSG00000133067	ENST00000487787	nonsense_mediated_decay	KNOWN	None	19719	1047	348	202172905	202288818	1	None	FLJ14471
1	LGR6	ENSG00000133067	ENST00000423542	protein_coding	PUTATIVE	None	19719	698	231	202179836	202274877	1	None	FLJ14471
1	LGR6	ENSG00000133067	ENST00000439764	protein_coding	KNOWN	CCDS30972	19719	2487	828	202183283	202288335	1	None	FLJ14471
1	LGR6	ENSG00000133067	ENST00000503519	retained_intron	KNOWN	None	19719	None	None	202194551	202205462	1	None	FLJ14471
1	LGR6	ENSG00000133067	ENST00000308543	processed_transcript	KNOWN	None	19719	None	None	202245398	202276049	1	None	FLJ14471
1	LGR6	ENSG00000133067	ENST00000506931	processed_transcript	PUTATIVE	None	19719	None	None	202245429	202250141	1	None	FLJ14471
HSCHR6_MHC_MANN	OR2U1P	ENSG00000236918	ENST00000443731	unprocessed_pseudogene	KNOWN	None	8278	None	None	29230500	29231876	-1	OR2AU1P	hs6M1-24
1	None	ENSG00000230610	ENST00000448796	protein_coding	NOVEL	None	None	45	14	38292232	38293886	-1	None	None
HSCHR6_MHC_MANN	OR2U2P	ENSG00000249415	ENST00000440530	unprocessed_pseudogene	KNOWN	None	8279	None	None	29236259	29237218	-1	None	hs6M1-23
HSCHR6_MHC_MANN	OR2B4P	ENSG00000227178	ENST00000420349	unprocessed_pseudogene	KNOWN	None	8239	None	None	29258526	29259468	1	None	hs6M1-22
HSCHR6_MHC_SSTO	PPP1R2P1	ENSG00000223939	ENST00000452849	processed_transcript	KNOWN	None	9289	None	None	32936831	32937507	-1	PPP1R2P	IPP-2P
HSCHR6_MHC_SSTO	PPP1R2P1	ENSG00000223939	ENST00000430135	transcribed_processed_pseudogene	KNOWN	None	9289	None	None	32936876	32937492	-1	PPP1R2P	IPP-2P
HSCHR6_MHC_SSTO	PPP1R2P1	ENSG00000223939	ENST00000551136	pseudogene	KNOWN	None	9289	None	None	32936876	32937492	-1	PPP1R2P	IPP-2P
12	GTSF1	ENSG00000170627	ENST00000546931	nonsense_mediated_decay	KNOWN	None	26565	531	176	54849734	54867333	-1	FAM112B	FLJ32942
12	GTSF1	ENSG00000170627	ENST00000552397	protein_coding	KNOWN	CCDS8881	26565	504	167	54849738	54866411	-1	FAM112B	FLJ32942
12	GTSF1	ENSG00000170627	ENST00000305879	protein_coding	KNOWN	CCDS8881	26565	504	167	54849741	54867383	-1	FAM112B	FLJ32942
12	GTSF1	ENSG00000170627	ENST00000552395	processed_transcript	KNOWN	None	26565	None	None	54849744	54867354	-1	FAM112B	FLJ32942
12	GTSF1	ENSG00000170627	ENST00000552336	processed_transcript	KNOWN	None	26565	None	None	54849745	54853386	-1	FAM112B	FLJ32942
12	GTSF1	ENSG00000170627	ENST00000546575	retained_intron	KNOWN	None	26565	None	None	54849923	54857117	-1	FAM112B	FLJ32942
12	GTSF1	ENSG00000170627	ENST00000548538	processed_transcript	KNOWN	None	26565	None	None	54858481	54862731	-1	FAM112B	FLJ32942
12	GTSF1	ENSG00000170627	ENST00000546739	retained_intron	KNOWN	None	26565	None	None	54858487	54867386	-1	FAM112B	FLJ32942
12	GTSF1	ENSG00000170627	ENST00000549083	processed_transcript	KNOWN	None	26565	None	None	54862709	54866428	-1	FAM112B	FLJ32942
10	None	ENSG00000232142	ENST00000435591	processed_pseudogene	KNOWN	None	None	None	None	71958744	71958995	-1	None	None
HSCHR6_MHC_MANN	None	ENSG00000257805	ENST00000552937	pseudogene	NOVEL	None	None	None	None	29267067	29267606	1	None	None
18	None	ENSG00000263588	ENST00000579830	protein_coding	NOVEL	None	None	273	90	19668021	19678741	1	None	None
HSCHR6_MHC_MANN	DDX6P1	ENSG00000225927	ENST00000437197	processed_pseudogene	KNOWN	None	13948	None	None	29297452	29298887	-1	DDX6P	DDX6-Lp, bA150A6.3
17	TMEM235	ENSG00000204278	ENST00000586400	protein_coding	KNOWN	CCDS56048	27563	453	150	76227391	76237068	1	None	None
17	TMEM235	ENSG00000204278	ENST00000551068	protein_coding	KNOWN	CCDS56046	27563	672	223	76227984	76236267	1	None	None
17	TMEM235	ENSG00000204278	ENST00000550981	protein_coding	KNOWN	CCDS56047	27563	591	196	76228105	76237068	1	None	None
17	TMEM235	ENSG00000204278	ENST00000591033	protein_coding	NOVEL	None	27563	766	254	76228122	76236588	1	None	None
17	TMEM235	ENSG00000204278	ENST00000421688	protein_coding	KNOWN	None	27563	1185	394	76227391	76237067	1	None	None
17	TMEM235	ENSG00000204278	ENST00000374946	protein_coding	KNOWN	CCDS56047	27563	591	196	76227391	76237067	1	None	None
9	VPS13A	ENSG00000197969	ENST00000376634	protein_coding	KNOWN	CCDS47983	1908	9210	3069	79792269	79997922	1	CHAC	KIAA0986
9	VPS13A	ENSG00000197969	ENST00000376636	protein_coding	KNOWN	CCDS55321	1908	9408	3135	79792361	80032399	1	CHAC	KIAA0986
9	VPS13A	ENSG00000197969	ENST00000360280	protein_coding	KNOWN	CCDS6655	1908	9525	3174	79792361	80036457	1	CHAC	KIAA0986
9	VPS13A	ENSG00000197969	ENST00000357409	protein_coding	KNOWN	CCDS6656	1908	9288	3095	79792450	80000107	1	CHAC	KIAA0986
9	VPS13A	ENSG00000197969	ENST00000471439	processed_transcript	KNOWN	None	1908	None	None	79824404	79826533	1	CHAC	KIAA0986
9	VPS13A	ENSG00000197969	ENST00000423463	processed_transcript	KNOWN	None	1908	None	None	79894762	79934586	1	CHAC	KIAA0986
9	VPS13A	ENSG00000197969	ENST00000493341	nonsense_mediated_decay	KNOWN	None	1908	534	177	79908410	79934586	1	CHAC	KIAA0986
9	VPS13A	ENSG00000197969	ENST00000419472	protein_coding	PUTATIVE	None	1908	1151	382	79933437	79954098	1	CHAC	KIAA0986
9	VPS13A	ENSG00000197969	ENST00000539950	retained_intron	KNOWN	None	1908	None	None	79955117	79955627	1	CHAC	KIAA0986
9	VPS13A	ENSG00000197969	ENST00000355766	retained_intron	KNOWN	None	1908	None	None	79965833	79968547	1	CHAC	KIAA0986
9	VPS13A	ENSG00000197969	ENST00000484581	protein_coding	PUTATIVE	None	1908	333	110	80004627	80031309	1	CHAC	KIAA0986
9	VPS13A	ENSG00000197969	ENST00000376646	protein_coding	PUTATIVE	None	1908	333	110	80004911	80032541	1	CHAC	KIAA0986
9	VPS13A	ENSG00000197969	ENST00000467124	protein_coding	PUTATIVE	None	1908	125	40	80020884	80031048	1	CHAC	KIAA0986
HSCHR6_MHC_SSTO	HLA-Z	ENSG00000228498	ENST00000432003	unprocessed_pseudogene	KNOWN	None	19394	None	None	32954063	32954137	1	None	HLA-Z1
HSCHR6_MHC_MANN	OR12D1P	ENSG00000248182	ENST00000514366	unprocessed_pseudogene	KNOWN	None	8177	None	None	29384641	29385587	1	OR12D1P	hs6M1-19
HSCHR6_MHC_SSTO	None	ENSG00000264830	ENST00000584222	miRNA	NOVEL	None	None	None	None	32994589	32994683	-1	None	None
16	GABARAPL2	ENSG00000034713	ENST00000037243	protein_coding	KNOWN	CCDS10921	13291	354	117	75600249	75611779	1	None	GEF2, ATG8, GATE16, GATE-16, ATG8C
16	GABARAPL2	ENSG00000034713	ENST00000565057	protein_coding	PUTATIVE	None	13291	267	88	75600273	75602303	1	None	GEF2, ATG8, GATE16, GATE-16, ATG8C
16	GABARAPL2	ENSG00000034713	ENST00000563744	protein_coding	PUTATIVE	None	13291	129	42	75600287	75611779	1	None	GEF2, ATG8, GATE16, GATE-16, ATG8C
16	GABARAPL2	ENSG00000034713	ENST00000568455	protein_coding	PUTATIVE	None	13291	174	57	75600496	75611428	1	None	GEF2, ATG8, GATE16, GATE-16, ATG8C
16	GABARAPL2	ENSG00000034713	ENST00000565985	processed_transcript	KNOWN	None	13291	None	None	75609506	75611779	1	None	GEF2, ATG8, GATE16, GATE-16, ATG8C
HSCHR6_MHC_SSTO	BRD2-IT1	ENSG00000225788	ENST00000426429	processed_transcript	PUTATIVE	None	41311	None	None	33027990	33028504	1	None	None
HSCHR6_MHC_MANN	UBDP1	ENSG00000226365	ENST00000444530	unprocessed_pseudogene	KNOWN	None	18796	None	None	29431944	29437154	-1	None	dJ994E9.3
5	MFAP3	ENSG00000037749	ENST00000522782	protein_coding	KNOWN	None	7034	371	122	153418466	153432555	1	None	None
5	MFAP3	ENSG00000037749	ENST00000439768	protein_coding	KNOWN	CCDS47319	7034	651	216	153418519	153433612	1	None	None
5	MFAP3	ENSG00000037749	ENST00000520327	processed_transcript	KNOWN	None	7034	None	None	153418528	153529507	1	None	None
5	MFAP3	ENSG00000037749	ENST00000521527	processed_transcript	KNOWN	None	7034	None	None	153418534	153515041	1	None	None
5	MFAP3	ENSG00000037749	ENST00000322602	protein_coding	KNOWN	CCDS4324	7034	1089	362	153418553	153434593	1	None	None
5	MFAP3	ENSG00000037749	ENST00000522177	protein_coding	KNOWN	None	7034	328	108	153418554	153432512	1	None	None
5	MFAP3	ENSG00000037749	ENST00000520899	protein_coding	KNOWN	None	7034	50	15	153418559	153429332	1	None	None
5	MFAP3	ENSG00000037749	ENST00000519928	processed_transcript	KNOWN	None	7034	None	None	153429162	153432562	1	None	None
5	MFAP3	ENSG00000037749	ENST00000522440	processed_transcript	KNOWN	None	7034	None	None	153476583	153501581	1	None	None
5	MFAP3	ENSG00000037749	ENST00000518497	processed_transcript	KNOWN	None	7034	None	None	153476583	153529500	1	None	None
5	MFAP3	ENSG00000037749	ENST00000519612	processed_transcript	KNOWN	None	7034	None	None	153476583	153529507	1	None	None
5	MFAP3	ENSG00000037749	ENST00000519325	processed_transcript	KNOWN	None	7034	None	None	153476583	153600038	1	None	None
5	MFAP3	ENSG00000037749	ENST00000436816	protein_coding	KNOWN	CCDS4324	7034	1089	362	153418519	153437014	1	None	None
HSCHR6_MHC_SSTO	RPL32P1	ENSG00000224098	ENST00000458462	processed_pseudogene	KNOWN	None	10339	None	None	33186874	33187283	1	RPL32P	RPL32-L
HSCHR6_MHC_SSTO	HLA-DPA2	ENSG00000236898	ENST00000424900	unprocessed_pseudogene	KNOWN	None	4939	None	None	33199176	33204718	-1	HLA-DP2A	None
17	SOCS3	ENSG00000184557	ENST00000330871	protein_coding	KNOWN	CCDS11756	19391	678	225	76352864	76356158	-1	None	SSI-3, CIS3, SOCS-3, Cish3
17	SOCS3	ENSG00000184557	ENST00000587578	protein_coding	KNOWN	None	19391	47	14	76355130	76356155	-1	None	SSI-3, CIS3, SOCS-3, Cish3
HSCHR6_MHC_MANN	MAS1LP1	ENSG00000230957	ENST00000434722	unprocessed_pseudogene	KNOWN	None	33448	None	None	29442373	29443419	-1	MAS1LP	OTTHUMG00000086553
18	GATA6	ENSG00000141448	ENST00000269216	protein_coding	KNOWN	CCDS11872	4174	1788	595	19749404	19782491	1	None	None
18	GATA6	ENSG00000141448	ENST00000581694	protein_coding	KNOWN	CCDS11872	4174	1788	595	19750894	19780843	1	None	None
6	HS3ST5	ENSG00000249853	ENST00000312719	protein_coding	KNOWN	CCDS34517	19419	1041	346	114376750	114664209	-1	None	3-OST-5
6	HS3ST5	ENSG00000249853	ENST00000441954	processed_transcript	PUTATIVE	None	19419	None	None	114488641	114489614	-1	None	3-OST-5
6	HS3ST5	ENSG00000249853	ENST00000411826	protein_coding	KNOWN	CCDS34517	19419	1041	346	114376750	114384041	-1	None	3-OST-5
HSCHR6_MHC_MANN	RPS17P1	ENSG00000228840	ENST00000430955	processed_pseudogene	KNOWN	None	13982	None	None	29456620	29457025	-1	None	RPS17p, dJ994E9.1
HSCHR6_MHC_MANN	RPS17P1	ENSG00000228840	ENST00000550571	pseudogene	KNOWN	None	13982	None	None	29456620	29456983	-1	None	RPS17p, dJ994E9.1
HSCHR6_MHC_SSTO	COL11A2P1	ENSG00000226513	ENST00000441985	unprocessed_pseudogene	KNOWN	None	13947	None	None	33211191	33214727	-1	COL11A2P	cD0826Q1.1
12	KRT76	ENSG00000185069	ENST00000332411	protein_coding	KNOWN	CCDS8838	24430	1917	638	53161939	53171129	-1	None	HUMCYT2A, KRT2B, KRT2P
HSCHR6_MHC_MANN	None	ENSG00000228370	ENST00000439971	processed_transcript	KNOWN	None	None	None	None	29464858	29477904	1	None	None
20	TMEM189	ENSG00000240849	ENST00000371650	protein_coding	KNOWN	CCDS54473	16735	804	267	48740274	48770271	-1	None	Kua
20	TMEM189	ENSG00000240849	ENST00000371656	protein_coding	PUTATIVE	None	16735	588	195	48740307	48747669	-1	None	Kua
20	TMEM189	ENSG00000240849	ENST00000371652	protein_coding	KNOWN	CCDS13428	16735	813	270	48740307	48770271	-1	None	Kua
20	TMEM189	ENSG00000240849	ENST00000453505	nonsense_mediated_decay	KNOWN	None	16735	138	45	48740581	48770271	-1	None	Kua
20	TMEM189	ENSG00000240849	ENST00000371658	nonsense_mediated_decay	KNOWN	None	16735	276	91	48741506	48770177	-1	None	Kua
20	TMEM189	ENSG00000240849	ENST00000557021	protein_coding	KNOWN	CCDS13424	16735	1113	370	48697663	48770335	-1	None	Kua
HSCHR6_MHC_SSTO	HLA-DPB2	ENSG00000168379	ENST00000304890	processed_transcript	KNOWN	None	4941	None	None	33219848	33226556	1	HLA-DP2B	DP2B, DPB2
HSCHR6_MHC_SSTO	HLA-DPB2	ENSG00000168379	ENST00000461425	transcribed_unprocessed_pseudogene	KNOWN	None	4941	None	None	33219913	33236168	1	HLA-DP2B	DP2B, DPB2
X	XPNPEP2	ENSG00000122121	ENST00000371105	protein_coding	KNOWN	None	12823	552	183	128872950	128880839	1	None	None
X	XPNPEP2	ENSG00000122121	ENST00000371106	protein_coding	KNOWN	CCDS14613	12823	2025	674	128872998	128903514	1	None	None
5	TRIM52	ENSG00000183718	ENST00000513146	processed_transcript	PUTATIVE	None	19024	None	None	180681417	180687195	-1	None	RNF102
5	TRIM52	ENSG00000183718	ENST00000327767	protein_coding	KNOWN	CCDS4467	19024	894	297	180682147	180688119	-1	None	RNF102
5	TRIM52	ENSG00000183718	ENST00000510796	processed_transcript	PUTATIVE	None	19024	None	None	180683485	180687258	-1	None	RNF102
5	TRIM52	ENSG00000183718	ENST00000503005	processed_transcript	PUTATIVE	None	19024	None	None	180684010	180687325	-1	None	RNF102
5	TRIM52	ENSG00000183718	ENST00000514805	processed_transcript	KNOWN	None	19024	None	None	180686262	180688082	-1	None	RNF102
1	UBE2T	ENSG00000077152	ENST00000367274	protein_coding	KNOWN	CCDS1425	25009	594	197	202300785	202311108	-1	None	HSPC150
1	UBE2T	ENSG00000077152	ENST00000487227	retained_intron	KNOWN	None	25009	None	None	202300965	202311108	-1	None	HSPC150
1	UBE2T	ENSG00000077152	ENST00000460852	retained_intron	KNOWN	None	25009	None	None	202302138	202304946	-1	None	HSPC150
HSCHR6_MHC_MANN	None	ENSG00000225426	ENST00000431265	processed_transcript	KNOWN	None	None	None	None	29496774	29500922	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000225426	ENST00000454661	processed_transcript	KNOWN	None	None	None	None	29496830	29499511	1	None	None
16	KIAA0556	ENSG00000047578	ENST00000566023	retained_intron	KNOWN	None	29068	None	None	27561454	27585616	1	None	None
16	KIAA0556	ENSG00000047578	ENST00000261588	protein_coding	KNOWN	CCDS32415	29068	4857	1618	27561473	27791690	1	None	None
16	KIAA0556	ENSG00000047578	ENST00000568258	protein_coding	NOVEL	None	29068	746	247	27585228	27689139	1	None	None
16	KIAA0556	ENSG00000047578	ENST00000565672	nonsense_mediated_decay	KNOWN	None	29068	167	54	27585243	27689252	1	None	None
16	KIAA0556	ENSG00000047578	ENST00000564749	retained_intron	KNOWN	None	29068	None	None	27639909	27666019	1	None	None
16	KIAA0556	ENSG00000047578	ENST00000567894	processed_transcript	KNOWN	None	29068	None	None	27643785	27739194	1	None	None
16	KIAA0556	ENSG00000047578	ENST00000573850	retained_intron	KNOWN	None	29068	None	None	27709649	27767073	1	None	None
16	KIAA0556	ENSG00000047578	ENST00000562207	retained_intron	KNOWN	None	29068	None	None	27712755	27715275	1	None	None
16	KIAA0556	ENSG00000047578	ENST00000568622	retained_intron	KNOWN	None	29068	None	None	27788187	27790050	1	None	None
22	SEC14L4	ENSG00000133488	ENST00000255858	protein_coding	KNOWN	CCDS13878	20627	1221	406	30884900	30901682	-1	None	TAP3, dJ130H16.5
22	SEC14L4	ENSG00000133488	ENST00000321205	nonsense_mediated_decay	KNOWN	None	20627	282	93	30884900	30901698	-1	None	TAP3, dJ130H16.5
22	SEC14L4	ENSG00000133488	ENST00000320982	nonsense_mediated_decay	KNOWN	None	20627	117	38	30884900	30901698	-1	None	TAP3, dJ130H16.5
22	SEC14L4	ENSG00000133488	ENST00000381982	protein_coding	PUTATIVE	CCDS54517	20627	1083	360	30885383	30901637	-1	None	TAP3, dJ130H16.5
22	SEC14L4	ENSG00000133488	ENST00000540456	protein_coding	KNOWN	None	20627	1176	391	30884900	30901698	-1	None	TAP3, dJ130H16.5
22	SEC14L4	ENSG00000133488	ENST00000392772	protein_coding	KNOWN	None	20627	1083	360	30884900	30901698	-1	None	TAP3, dJ130H16.5
3	NPHP3	ENSG00000113971	ENST00000471702	nonsense_mediated_decay	KNOWN	None	7907	1911	636	132276986	132441303	-1	None	NPH3, KIAA2000, FLJ30691, FLJ36696, MKS7
3	NPHP3	ENSG00000113971	ENST00000474871	retained_intron	KNOWN	None	7907	None	None	132399453	132413714	-1	None	NPH3, KIAA2000, FLJ30691, FLJ36696, MKS7
3	NPHP3	ENSG00000113971	ENST00000493732	retained_intron	KNOWN	None	7907	None	None	132400126	132403667	-1	None	NPH3, KIAA2000, FLJ30691, FLJ36696, MKS7
3	NPHP3	ENSG00000113971	ENST00000490993	retained_intron	KNOWN	None	7907	None	None	132400275	132436199	-1	None	NPH3, KIAA2000, FLJ30691, FLJ36696, MKS7
3	NPHP3	ENSG00000113971	ENST00000465756	nonsense_mediated_decay	KNOWN	None	7907	1617	538	132400469	132441248	-1	None	NPH3, KIAA2000, FLJ30691, FLJ36696, MKS7
3	NPHP3	ENSG00000113971	ENST00000512094	protein_coding	PUTATIVE	None	7907	264	87	132400472	132403529	-1	None	NPH3, KIAA2000, FLJ30691, FLJ36696, MKS7
3	NPHP3	ENSG00000113971	ENST00000337331	protein_coding	KNOWN	CCDS3078	7907	3993	1330	132400472	132441286	-1	None	NPH3, KIAA2000, FLJ30691, FLJ36696, MKS7
3	NPHP3	ENSG00000113971	ENST00000515289	retained_intron	KNOWN	None	7907	None	None	132410070	132414000	-1	None	NPH3, KIAA2000, FLJ30691, FLJ36696, MKS7
3	NPHP3	ENSG00000113971	ENST00000469232	nonsense_mediated_decay	KNOWN	None	7907	372	123	132418848	132440851	-1	None	NPH3, KIAA2000, FLJ30691, FLJ36696, MKS7
3	NPHP3	ENSG00000113971	ENST00000476742	processed_transcript	KNOWN	None	7907	None	None	132424518	132435657	-1	None	NPH3, KIAA2000, FLJ30691, FLJ36696, MKS7
3	NPHP3	ENSG00000113971	ENST00000471145	processed_transcript	KNOWN	None	7907	None	None	132436837	132440551	-1	None	NPH3, KIAA2000, FLJ30691, FLJ36696, MKS7
3	NPHP3	ENSG00000113971	ENST00000326682	protein_coding	KNOWN	None	7907	2115	704	132399454	132441276	-1	None	NPH3, KIAA2000, FLJ30691, FLJ36696, MKS7
3	NPHP3	ENSG00000113971	ENST00000343113	protein_coding	KNOWN	None	7907	720	239	132436912	132441276	-1	None	NPH3, KIAA2000, FLJ30691, FLJ36696, MKS7
3	NPHP3	ENSG00000113971	ENST00000383282	protein_coding	KNOWN	None	7907	453	150	132440559	132441232	-1	None	NPH3, KIAA2000, FLJ30691, FLJ36696, MKS7
5	None	ENSG00000268397	ENST00000599439	protein_coding	KNOWN	None	None	438	145	180682720	180684578	1	None	None
1	HMGCS2	ENSG00000134240	ENST00000369406	protein_coding	KNOWN	CCDS905	5008	1527	508	120290619	120311517	-1	None	None
1	HMGCS2	ENSG00000134240	ENST00000544913	protein_coding	KNOWN	CCDS53353	5008	1401	466	120291007	120311528	-1	None	None
1	HMGCS2	ENSG00000134240	ENST00000472375	processed_transcript	KNOWN	None	5008	None	None	120298050	120302037	-1	None	None
1	HMGCS2	ENSG00000134240	ENST00000476640	processed_transcript	KNOWN	None	5008	None	None	120298111	120307249	-1	None	None
HSCHR6_MHC_QBL	None	ENSG00000272295	ENST00000519915	nonsense_mediated_decay	KNOWN	None	None	211	69	31930550	31940991	1	None	None
5	OR4F3	ENSG00000230178	ENST00000456475	protein_coding	KNOWN	CCDS43415	8300	939	312	180794269	180795263	1	None	None
HSCHR6_MHC_MANN	GPR53P	ENSG00000237811	ENST00000458226	unprocessed_pseudogene	KNOWN	None	4509	None	None	29505058	29506141	-1	None	PsiGPR53, dJ271M21.8
12	C12orf40	ENSG00000180116	ENST00000405531	protein_coding	PUTATIVE	None	26846	1434	477	40019969	40085989	1	None	FLJ40126
12	C12orf40	ENSG00000180116	ENST00000324616	protein_coding	KNOWN	CCDS41770	26846	1959	652	40019985	40115716	1	None	FLJ40126
12	C12orf40	ENSG00000180116	ENST00000468200	nonsense_mediated_decay	KNOWN	None	26846	1185	394	40020020	40302102	1	None	FLJ40126
12	C12orf40	ENSG00000180116	ENST00000398716	protein_coding	KNOWN	None	26846	1185	394	40019972	40078052	1	None	FLJ40126
HSCHR6_MHC_MANN	OR2I1P	ENSG00000223441	ENST00000450433	unprocessed_pseudogene	KNOWN	None	8258	None	None	29520600	29521547	1	OR2I1, OR2I3P, OR2I4P, OR2I2	HS6M1-14
7	ZCWPW1	ENSG00000078487	ENST00000479315	retained_intron	KNOWN	None	23486	None	None	99998449	99999666	-1	None	FLJ10057, DKFZp434N0510, ZCW1
7	ZCWPW1	ENSG00000078487	ENST00000398027	protein_coding	KNOWN	CCDS43623	23486	1947	648	99998476	100026302	-1	None	FLJ10057, DKFZp434N0510, ZCW1
7	ZCWPW1	ENSG00000078487	ENST00000490721	protein_coding	PUTATIVE	None	23486	1434	477	99998478	100017500	-1	None	FLJ10057, DKFZp434N0510, ZCW1
7	ZCWPW1	ENSG00000078487	ENST00000490089	retained_intron	KNOWN	None	23486	None	None	99998496	100015044	-1	None	FLJ10057, DKFZp434N0510, ZCW1
7	ZCWPW1	ENSG00000078487	ENST00000360951	protein_coding	NOVEL	CCDS59067	23486	1575	524	99998496	100026287	-1	None	FLJ10057, DKFZp434N0510, ZCW1
7	ZCWPW1	ENSG00000078487	ENST00000471336	protein_coding	PUTATIVE	None	23486	741	246	99998717	100007168	-1	None	FLJ10057, DKFZp434N0510, ZCW1
7	ZCWPW1	ENSG00000078487	ENST00000464510	retained_intron	KNOWN	None	23486	None	None	100016356	100026615	-1	None	FLJ10057, DKFZp434N0510, ZCW1
7	ZCWPW1	ENSG00000078487	ENST00000472716	protein_coding	PUTATIVE	None	23486	115	37	100016769	100026415	-1	None	FLJ10057, DKFZp434N0510, ZCW1
7	ZCWPW1	ENSG00000078487	ENST00000324725	protein_coding	KNOWN	None	23486	1434	477	99998496	100026302	-1	None	FLJ10057, DKFZp434N0510, ZCW1
HSCHR6_MHC_SSTO	HLA-DPA3	ENSG00000223447	ENST00000427293	unprocessed_pseudogene	KNOWN	None	19393	None	None	33238300	33238426	-1	None	None
6	HDGFL1	ENSG00000112273	ENST00000230012	protein_coding	KNOWN	CCDS34347	21095	756	251	22569678	22570750	1	PWWP1	dJ309H15.1
6	HDGFL1	ENSG00000112273	ENST00000510882	protein_coding	KNOWN	CCDS34347	21095	756	251	22569795	22571892	1	PWWP1	dJ309H15.1
8	IKBKB	ENSG00000104365	ENST00000520810	protein_coding	KNOWN	CCDS6128	5960	2271	756	42128820	42189126	1	None	IKK2, NFKBIKB, IKK-beta, IKKB
8	IKBKB	ENSG00000104365	ENST00000520320	nonsense_mediated_decay	KNOWN	None	5960	147	48	42128828	42163872	1	None	IKK2, NFKBIKB, IKK-beta, IKKB
8	IKBKB	ENSG00000104365	ENST00000517890	nonsense_mediated_decay	KNOWN	None	5960	147	48	42128834	42188650	1	None	IKK2, NFKBIKB, IKK-beta, IKKB
8	IKBKB	ENSG00000104365	ENST00000519733	nonsense_mediated_decay	KNOWN	None	5960	156	51	42128836	42166516	1	None	IKK2, NFKBIKB, IKK-beta, IKKB
8	IKBKB	ENSG00000104365	ENST00000519735	protein_coding	PUTATIVE	None	5960	771	256	42128836	42167283	1	None	IKK2, NFKBIKB, IKK-beta, IKKB
8	IKBKB	ENSG00000104365	ENST00000523105	nonsense_mediated_decay	KNOWN	None	5960	147	48	42128836	42179979	1	None	IKK2, NFKBIKB, IKK-beta, IKKB
8	IKBKB	ENSG00000104365	ENST00000520835	protein_coding	PUTATIVE	CCDS55228	5960	2265	754	42128836	42188582	1	None	IKK2, NFKBIKB, IKK-beta, IKKB
8	IKBKB	ENSG00000104365	ENST00000517917	retained_intron	KNOWN	None	5960	None	None	42128837	42177268	1	None	IKK2, NFKBIKB, IKK-beta, IKKB
8	IKBKB	ENSG00000104365	ENST00000518679	nonsense_mediated_decay	KNOWN	None	5960	132	43	42128837	42189428	1	None	IKK2, NFKBIKB, IKK-beta, IKKB
8	IKBKB	ENSG00000104365	ENST00000342222	nonsense_mediated_decay	KNOWN	None	5960	495	164	42128852	42189968	1	None	IKK2, NFKBIKB, IKK-beta, IKKB
8	IKBKB	ENSG00000104365	ENST00000518983	protein_coding	PUTATIVE	None	5960	231	76	42128888	42129947	1	None	IKK2, NFKBIKB, IKK-beta, IKKB
8	IKBKB	ENSG00000104365	ENST00000520201	retained_intron	KNOWN	None	5960	None	None	42128907	42189973	1	None	IKK2, NFKBIKB, IKK-beta, IKKB
8	IKBKB	ENSG00000104365	ENST00000517388	nonsense_mediated_decay	KNOWN	None	5960	147	48	42128908	42166450	1	None	IKK2, NFKBIKB, IKK-beta, IKKB
8	IKBKB	ENSG00000104365	ENST00000518647	retained_intron	KNOWN	None	5960	None	None	42128908	42174742	1	None	IKK2, NFKBIKB, IKK-beta, IKKB
8	IKBKB	ENSG00000104365	ENST00000521661	nonsense_mediated_decay	KNOWN	None	5960	1689	562	42128954	42186733	1	None	IKK2, NFKBIKB, IKK-beta, IKKB
8	IKBKB	ENSG00000104365	ENST00000520655	nonsense_mediated_decay	KNOWN	None	5960	1689	562	42128981	42189427	1	None	IKK2, NFKBIKB, IKK-beta, IKKB
8	IKBKB	ENSG00000104365	ENST00000517812	nonsense_mediated_decay	KNOWN	None	5960	147	48	42129090	42162754	1	None	IKK2, NFKBIKB, IKK-beta, IKKB
8	IKBKB	ENSG00000104365	ENST00000522147	protein_coding	PUTATIVE	None	5960	330	109	42129590	42189555	1	None	IKK2, NFKBIKB, IKK-beta, IKKB
8	IKBKB	ENSG00000104365	ENST00000523517	nonsense_mediated_decay	KNOWN	None	5960	1128	375	42129592	42188639	1	None	IKK2, NFKBIKB, IKK-beta, IKKB
8	IKBKB	ENSG00000104365	ENST00000522545	retained_intron	KNOWN	None	5960	None	None	42171543	42173774	1	None	IKK2, NFKBIKB, IKK-beta, IKKB
8	IKBKB	ENSG00000104365	ENST00000517502	processed_transcript	KNOWN	None	5960	None	None	42175175	42178035	1	None	IKK2, NFKBIKB, IKK-beta, IKKB
8	IKBKB	ENSG00000104365	ENST00000522785	processed_transcript	KNOWN	None	5960	None	None	42176126	42177388	1	None	IKK2, NFKBIKB, IKK-beta, IKKB
8	IKBKB	ENSG00000104365	ENST00000519938	retained_intron	KNOWN	None	5960	None	None	42178224	42189127	1	None	IKK2, NFKBIKB, IKK-beta, IKKB
8	IKBKB	ENSG00000104365	ENST00000522133	retained_intron	KNOWN	None	5960	None	None	42179936	42183986	1	None	IKK2, NFKBIKB, IKK-beta, IKKB
8	IKBKB	ENSG00000104365	ENST00000523018	retained_intron	KNOWN	None	5960	None	None	42179959	42186832	1	None	IKK2, NFKBIKB, IKK-beta, IKKB
8	IKBKB	ENSG00000104365	ENST00000523599	retained_intron	KNOWN	None	5960	None	None	42182156	42186776	1	None	IKK2, NFKBIKB, IKK-beta, IKKB
8	IKBKB	ENSG00000104365	ENST00000521225	processed_transcript	KNOWN	None	5960	None	None	42182812	42186705	1	None	IKK2, NFKBIKB, IKK-beta, IKKB
8	IKBKB	ENSG00000104365	ENST00000522103	retained_intron	KNOWN	None	5960	None	None	42183128	42189427	1	None	IKK2, NFKBIKB, IKK-beta, IKKB
8	IKBKB	ENSG00000104365	ENST00000416505	protein_coding	KNOWN	CCDS56535	5960	2094	697	42128834	42188650	1	None	IKK2, NFKBIKB, IKK-beta, IKKB
8	IKBKB	ENSG00000104365	ENST00000379708	protein_coding	KNOWN	None	5960	1602	533	42128837	42189422	1	None	IKK2, NFKBIKB, IKK-beta, IKKB
10	CALML5	ENSG00000178372	ENST00000380332	protein_coding	KNOWN	CCDS7068	18180	441	146	5540658	5541533	-1	None	CLSP
2	XIRP2	ENSG00000163092	ENST00000409043	protein_coding	KNOWN	CCDS42768	14303	2817	938	167744997	168116259	1	CMYA3	None
2	XIRP2	ENSG00000163092	ENST00000409728	protein_coding	NOVEL	CCDS56143	14303	2916	971	167744997	168116259	1	CMYA3	None
2	XIRP2	ENSG00000163092	ENST00000409195	protein_coding	KNOWN	CCDS42769	14303	10650	3549	167744997	168116263	1	CMYA3	None
2	XIRP2	ENSG00000163092	ENST00000409273	protein_coding	KNOWN	CCDS56144	14303	9984	3327	168043793	168116259	1	CMYA3	None
2	XIRP2	ENSG00000163092	ENST00000409605	protein_coding	KNOWN	CCDS56145	14303	2151	716	168043793	168116259	1	CMYA3	None
2	XIRP2	ENSG00000163092	ENST00000409756	protein_coding	KNOWN	CCDS42768	14303	2817	938	167759975	168116259	1	CMYA3	None
2	XIRP2	ENSG00000163092	ENST00000420519	protein_coding	KNOWN	CCDS56143	14303	2916	971	167759993	168115873	1	CMYA3	None
2	XIRP2	ENSG00000163092	ENST00000295237	protein_coding	KNOWN	CCDS42769	14303	10650	3549	167759993	168116259	1	CMYA3	None
6	FRK	ENSG00000111816	ENST00000606080	protein_coding	KNOWN	CCDS5103	3955	1518	505	116252312	116381921	-1	PTK5	RAK, GTK
6	FRK	ENSG00000111816	ENST00000538210	protein_coding	KNOWN	None	3955	1092	363	116263565	116323935	-1	PTK5	RAK, GTK
10	CALML3	ENSG00000178363	ENST00000315238	protein_coding	KNOWN	CCDS7069	1452	450	149	5566924	5568225	1	None	CLP
1	INPP5B	ENSG00000204084	ENST00000373027	protein_coding	KNOWN	None	6077	2250	749	38326369	38397421	-1	None	None
1	INPP5B	ENSG00000204084	ENST00000373026	protein_coding	KNOWN	None	6077	2982	993	38327740	38411981	-1	None	None
1	INPP5B	ENSG00000204084	ENST00000373024	protein_coding	KNOWN	CCDS41306	6077	2742	913	38327757	38412723	-1	None	None
1	INPP5B	ENSG00000204084	ENST00000487328	processed_transcript	KNOWN	None	6077	None	None	38328012	38330521	-1	None	None
1	INPP5B	ENSG00000204084	ENST00000470364	processed_transcript	KNOWN	None	6077	None	None	38332131	38338700	-1	None	None
1	INPP5B	ENSG00000204084	ENST00000474758	processed_transcript	KNOWN	None	6077	None	None	38334173	38339059	-1	None	None
1	INPP5B	ENSG00000204084	ENST00000467066	processed_transcript	KNOWN	None	6077	None	None	38351181	38354016	-1	None	None
1	INPP5B	ENSG00000204084	ENST00000373021	protein_coding	KNOWN	None	6077	960	319	38394209	38412006	-1	None	None
1	INPP5B	ENSG00000204084	ENST00000491406	processed_transcript	KNOWN	None	6077	None	None	38406435	38412723	-1	None	None
1	INPP5B	ENSG00000204084	ENST00000373023	protein_coding	KNOWN	None	6077	2982	993	38326369	38412729	-1	None	None
1	INPP5B	ENSG00000204084	ENST00000458109	protein_coding	KNOWN	None	6077	528	175	38339676	38355345	-1	None	None
12	CAMKK2	ENSG00000110931	ENST00000392474	protein_coding	KNOWN	CCDS58283	1470	1671	556	121675497	121712334	-1	None	CAMKK, KIAA0787, CAMKKB, MGC15254
12	CAMKK2	ENSG00000110931	ENST00000347034	protein_coding	KNOWN	CCDS9217	1470	1638	545	121675500	121735860	-1	None	CAMKK, KIAA0787, CAMKKB, MGC15254
12	CAMKK2	ENSG00000110931	ENST00000538733	protein_coding	KNOWN	CCDS9219	1470	1497	498	121675500	121735860	-1	None	CAMKK, KIAA0787, CAMKKB, MGC15254
12	CAMKK2	ENSG00000110931	ENST00000337174	protein_coding	KNOWN	CCDS9218	1470	1626	541	121675500	121735860	-1	None	CAMKK, KIAA0787, CAMKKB, MGC15254
12	CAMKK2	ENSG00000110931	ENST00000324774	protein_coding	KNOWN	CCDS9216	1470	1767	588	121675500	121736111	-1	None	CAMKK, KIAA0787, CAMKKB, MGC15254
12	CAMKK2	ENSG00000110931	ENST00000545538	protein_coding	PUTATIVE	None	1470	1032	343	121675573	121698345	-1	None	CAMKK, KIAA0787, CAMKKB, MGC15254
12	CAMKK2	ENSG00000110931	ENST00000412367	protein_coding	KNOWN	CCDS9218	1470	1626	541	121678328	121734489	-1	None	CAMKK, KIAA0787, CAMKKB, MGC15254
12	CAMKK2	ENSG00000110931	ENST00000404169	protein_coding	KNOWN	CCDS9216	1470	1767	588	121678328	121734556	-1	None	CAMKK, KIAA0787, CAMKKB, MGC15254
12	CAMKK2	ENSG00000110931	ENST00000402834	protein_coding	KNOWN	CCDS9216	1470	1767	588	121678350	121734513	-1	None	CAMKK, KIAA0787, CAMKKB, MGC15254
12	CAMKK2	ENSG00000110931	ENST00000446440	protein_coding	KNOWN	CCDS53837	1470	1473	490	121681391	121735860	-1	None	CAMKK, KIAA0787, CAMKKB, MGC15254
12	CAMKK2	ENSG00000110931	ENST00000392473	protein_coding	KNOWN	CCDS44999	1470	1602	533	121681391	121736111	-1	None	CAMKK, KIAA0787, CAMKKB, MGC15254
12	CAMKK2	ENSG00000110931	ENST00000535524	processed_transcript	KNOWN	None	1470	None	None	121691064	121734490	-1	None	CAMKK, KIAA0787, CAMKKB, MGC15254
12	CAMKK2	ENSG00000110931	ENST00000542540	retained_intron	KNOWN	None	1470	None	None	121701703	121712173	-1	None	CAMKK, KIAA0787, CAMKKB, MGC15254
12	CAMKK2	ENSG00000110931	ENST00000539380	processed_transcript	KNOWN	None	1470	None	None	121706439	121712173	-1	None	CAMKK, KIAA0787, CAMKKB, MGC15254
12	CAMKK2	ENSG00000110931	ENST00000543477	protein_coding	KNOWN	None	1470	375	124	121711955	121735366	-1	None	CAMKK, KIAA0787, CAMKKB, MGC15254
12	CAMKK2	ENSG00000110931	ENST00000544485	protein_coding	KNOWN	None	1470	262	86	121712068	121735139	-1	None	CAMKK, KIAA0787, CAMKKB, MGC15254
20	CEBPB	ENSG00000172216	ENST00000303004	protein_coding	KNOWN	CCDS13429	1834	1038	345	48807376	48809212	1	TCF5	LAP, CRP2, NFIL6, IL6DBP, C/EBP-beta
3	SGOL1	ENSG00000129810	ENST00000306698	protein_coding	KNOWN	CCDS2635	25088	879	292	20202085	20227683	-1	None	NY-BR-85
3	SGOL1	ENSG00000129810	ENST00000419233	protein_coding	KNOWN	CCDS46771	25088	930	309	20202085	20227683	-1	None	NY-BR-85
3	SGOL1	ENSG00000129810	ENST00000263753	protein_coding	KNOWN	CCDS33716	25088	1686	561	20202085	20227683	-1	None	NY-BR-85
3	SGOL1	ENSG00000129810	ENST00000425061	protein_coding	KNOWN	CCDS46771	25088	930	309	20202501	20227619	-1	None	NY-BR-85
3	SGOL1	ENSG00000129810	ENST00000443724	protein_coding	NOVEL	CCDS56243	25088	648	215	20202501	20227619	-1	None	NY-BR-85
3	SGOL1	ENSG00000129810	ENST00000421451	protein_coding	KNOWN	CCDS33716	25088	1686	561	20202501	20227619	-1	None	NY-BR-85
3	SGOL1	ENSG00000129810	ENST00000452020	protein_coding	KNOWN	CCDS2635	25088	879	292	20202501	20227619	-1	None	NY-BR-85
3	SGOL1	ENSG00000129810	ENST00000442720	protein_coding	KNOWN	CCDS46772	25088	777	258	20210978	20227698	-1	None	NY-BR-85
3	SGOL1	ENSG00000129810	ENST00000412997	protein_coding	KNOWN	CCDS46773	25088	1584	527	20211545	20227784	-1	None	NY-BR-85
3	SGOL1	ENSG00000129810	ENST00000460637	processed_transcript	PUTATIVE	None	25088	None	None	20211553	20212759	-1	None	NY-BR-85
3	SGOL1	ENSG00000129810	ENST00000437051	protein_coding	KNOWN	CCDS46774	25088	828	275	20211977	20227683	-1	None	NY-BR-85
3	SGOL1	ENSG00000129810	ENST00000417364	protein_coding	KNOWN	CCDS46774	25088	828	275	20212136	20227619	-1	None	NY-BR-85
3	SGOL1	ENSG00000129810	ENST00000456624	nonsense_mediated_decay	KNOWN	None	25088	255	84	20216214	20225524	-1	None	NY-BR-85
3	SGOL1	ENSG00000129810	ENST00000383774	protein_coding	KNOWN	CCDS56243	25088	648	215	20202087	20227683	-1	None	NY-BR-85
3	SGOL1	ENSG00000129810	ENST00000412868	protein_coding	KNOWN	CCDS46773	25088	1584	527	20211985	20227683	-1	None	NY-BR-85
3	SGOL1	ENSG00000129810	ENST00000429446	protein_coding	KNOWN	CCDS46772	25088	777	258	20211985	20227683	-1	None	NY-BR-85
17	PGS1	ENSG00000087157	ENST00000262764	protein_coding	KNOWN	CCDS42391	30029	1671	556	76374721	76420635	1	None	DKFZP762M186
17	PGS1	ENSG00000087157	ENST00000586325	processed_transcript	PUTATIVE	None	30029	None	None	76374730	76392466	1	None	DKFZP762M186
17	PGS1	ENSG00000087157	ENST00000586510	nonsense_mediated_decay	KNOWN	None	30029	453	150	76374730	76394349	1	None	DKFZP762M186
17	PGS1	ENSG00000087157	ENST00000589425	nonsense_mediated_decay	KNOWN	None	30029	153	50	76374730	76420635	1	None	DKFZP762M186
17	PGS1	ENSG00000087157	ENST00000589689	protein_coding	NOVEL	None	30029	1153	383	76374732	76399999	1	None	DKFZP762M186
17	PGS1	ENSG00000087157	ENST00000589426	nonsense_mediated_decay	KNOWN	None	30029	1365	454	76374738	76420635	1	None	DKFZP762M186
17	PGS1	ENSG00000087157	ENST00000588169	nonsense_mediated_decay	KNOWN	None	30029	255	84	76374743	76420222	1	None	DKFZP762M186
17	PGS1	ENSG00000087157	ENST00000592043	protein_coding	PUTATIVE	None	30029	988	328	76374751	76399760	1	None	DKFZP762M186
17	PGS1	ENSG00000087157	ENST00000587356	protein_coding	PUTATIVE	None	30029	792	263	76374759	76396935	1	None	DKFZP762M186
17	PGS1	ENSG00000087157	ENST00000585521	processed_transcript	KNOWN	None	30029	None	None	76374778	76415677	1	None	DKFZP762M186
17	PGS1	ENSG00000087157	ENST00000588281	processed_transcript	KNOWN	None	30029	None	None	76395370	76420638	1	None	DKFZP762M186
17	PGS1	ENSG00000087157	ENST00000591996	retained_intron	KNOWN	None	30029	None	None	76396912	76417992	1	None	DKFZP762M186
17	PGS1	ENSG00000087157	ENST00000586019	protein_coding	PUTATIVE	None	30029	398	131	76399916	76415943	1	None	DKFZP762M186
17	PGS1	ENSG00000087157	ENST00000586355	protein_coding	PUTATIVE	None	30029	345	114	76400045	76416008	1	None	DKFZP762M186
17	PGS1	ENSG00000087157	ENST00000586880	processed_transcript	PUTATIVE	None	30029	None	None	76416303	76421195	1	None	DKFZP762M186
17	PGS1	ENSG00000087157	ENST00000329897	protein_coding	KNOWN	None	30029	1266	421	76374743	76420222	1	None	DKFZP762M186
19	None	ENSG00000267881	ENST00000598976	protein_coding	NOVEL	None	None	458	151	42212531	42265190	1	None	None
19	None	ENSG00000267881	ENST00000435837	protein_coding	PUTATIVE	None	None	202	66	42212576	42260645	1	None	None
10	CEP57L1P1	ENSG00000224725	ENST00000430943	processed_pseudogene	KNOWN	None	23521	None	None	72149182	72150382	1	C10orf37, C6orf182P	None
10	CEP57L1P1	ENSG00000224725	ENST00000437376	processed_pseudogene	KNOWN	None	23521	None	None	72149182	72149937	1	C10orf37, C6orf182P	None
5	None	ENSG00000250020	ENST00000506872	processed_pseudogene	KNOWN	None	None	None	None	58313	59030	1	None	None
10	ASB13	ENSG00000196372	ENST00000493897	processed_transcript	KNOWN	None	19765	None	None	5680830	5683775	-1	None	FLJ13134, MGC19879
10	ASB13	ENSG00000196372	ENST00000357700	protein_coding	KNOWN	CCDS7070	19765	837	278	5680831	5708541	-1	None	FLJ13134, MGC19879
10	ASB13	ENSG00000196372	ENST00000459912	nonsense_mediated_decay	KNOWN	None	19765	522	173	5680831	5708541	-1	None	FLJ13134, MGC19879
10	ASB13	ENSG00000196372	ENST00000479033	processed_transcript	KNOWN	None	19765	None	None	5680831	5708558	-1	None	FLJ13134, MGC19879
10	ASB13	ENSG00000196372	ENST00000482921	processed_transcript	KNOWN	None	19765	None	None	5690935	5693531	-1	None	FLJ13134, MGC19879
10	YY1P1	ENSG00000230661	ENST00000427625	processed_pseudogene	KNOWN	None	45094	None	None	72245092	72246081	-1	None	None
5	None	ENSG00000249430	ENST00000512035	lincRNA	KNOWN	None	None	None	None	92266	139978	1	None	None
20	PTPN1	ENSG00000196396	ENST00000371621	protein_coding	KNOWN	CCDS13430	9642	1308	435	49126891	49201299	1	PTP1B	None
20	PTPN1	ENSG00000196396	ENST00000541713	protein_coding	KNOWN	None	9642	1089	362	49126920	49199522	1	PTP1B	None
10	None	ENSG00000231366	ENST00000435209	processed_pseudogene	KNOWN	None	None	None	None	72553986	72554279	-1	None	None
19	PAF1	ENSG00000006712	ENST00000221265	protein_coding	KNOWN	CCDS12533	25459	1596	531	39876492	39881835	-1	None	PD2, F23149_1, FLJ11123
19	PAF1	ENSG00000006712	ENST00000595564	protein_coding	KNOWN	CCDS59387	25459	1458	485	39876493	39881794	-1	None	PD2, F23149_1, FLJ11123
19	PAF1	ENSG00000006712	ENST00000595379	protein_coding	PUTATIVE	None	25459	281	92	39877005	39877406	-1	None	PD2, F23149_1, FLJ11123
19	PAF1	ENSG00000006712	ENST00000416728	nonsense_mediated_decay	KNOWN	None	25459	867	288	39877122	39881757	-1	None	PD2, F23149_1, FLJ11123
19	PAF1	ENSG00000006712	ENST00000598594	retained_intron	KNOWN	None	25459	None	None	39879482	39879838	-1	None	PD2, F23149_1, FLJ11123
19	PAF1	ENSG00000006712	ENST00000595797	retained_intron	KNOWN	None	25459	None	None	39879934	39881722	-1	None	PD2, F23149_1, FLJ11123
19	PAF1	ENSG00000006712	ENST00000597365	retained_intron	KNOWN	None	25459	None	None	39880526	39881757	-1	None	PD2, F23149_1, FLJ11123
19	PAF1	ENSG00000006712	ENST00000598127	retained_intron	KNOWN	None	25459	None	None	39880709	39881794	-1	None	PD2, F23149_1, FLJ11123
19	PAF1	ENSG00000006712	ENST00000221266	protein_coding	KNOWN	None	25459	1389	462	39876555	39881746	-1	None	PD2, F23149_1, FLJ11123
4	SLIT2	ENSG00000145147	ENST00000503823	protein_coding	KNOWN	None	11086	4566	1521	20254883	20620743	1	SLIL3	Slit-2
4	SLIT2	ENSG00000145147	ENST00000504154	protein_coding	KNOWN	CCDS3426	11086	4590	1529	20255187	20622180	1	SLIL3	Slit-2
4	SLIT2	ENSG00000145147	ENST00000273739	protein_coding	NOVEL	None	11086	4629	1542	20255213	20620909	1	SLIL3	Slit-2
4	SLIT2	ENSG00000145147	ENST00000503837	protein_coding	KNOWN	None	11086	4578	1525	20255439	20620806	1	SLIL3	Slit-2
4	SLIT2	ENSG00000145147	ENST00000508824	protein_coding	PUTATIVE	None	11086	438	145	20256543	20487838	1	SLIL3	Slit-2
4	SLIT2	ENSG00000145147	ENST00000509099	retained_intron	KNOWN	None	11086	None	None	20535022	20541189	1	SLIL3	Slit-2
4	SLIT2	ENSG00000145147	ENST00000509394	processed_transcript	KNOWN	None	11086	None	None	20544117	20554344	1	SLIL3	Slit-2
4	SLIT2	ENSG00000145147	ENST00000511508	protein_coding	PUTATIVE	None	11086	638	211	20544242	20570541	1	SLIL3	Slit-2
4	SLIT2	ENSG00000145147	ENST00000509941	protein_coding	PUTATIVE	None	11086	589	195	20555476	20570887	1	SLIL3	Slit-2
4	SLIT2	ENSG00000145147	ENST00000512993	protein_coding	PUTATIVE	None	11086	248	81	20599976	20622184	1	SLIL3	Slit-2
4	SLIT2	ENSG00000145147	ENST00000508541	retained_intron	KNOWN	None	11086	None	None	20616486	20620789	1	SLIL3	Slit-2
12	COL2A1	ENSG00000139219	ENST00000380518	protein_coding	KNOWN	CCDS41778	2200	4464	1487	48366748	48398269	-1	SEDC	None
12	COL2A1	ENSG00000139219	ENST00000493991	processed_transcript	KNOWN	None	2200	None	None	48366984	48382254	-1	SEDC	None
12	COL2A1	ENSG00000139219	ENST00000337299	protein_coding	KNOWN	CCDS8759	2200	4257	1418	48367190	48398104	-1	SEDC	None
12	COL2A1	ENSG00000139219	ENST00000546974	retained_intron	KNOWN	None	2200	None	None	48369136	48371228	-1	SEDC	None
12	COL2A1	ENSG00000139219	ENST00000483376	retained_intron	KNOWN	None	2200	None	None	48375126	48377638	-1	SEDC	None
12	COL2A1	ENSG00000139219	ENST00000474996	processed_transcript	KNOWN	None	2200	None	None	48391398	48398232	-1	SEDC	None
12	COL2A1	ENSG00000139219	ENST00000466884	processed_transcript	KNOWN	None	2200	None	None	48391952	48392642	-1	SEDC	None
12	COL2A1	ENSG00000139219	ENST00000490609	retained_intron	KNOWN	None	2200	None	None	48393480	48398269	-1	SEDC	None
12	COL2A1	ENSG00000139219	ENST00000465743	processed_transcript	KNOWN	None	2200	None	None	48396405	48398145	-1	SEDC	None
1	REG4	ENSG00000134193	ENST00000354219	protein_coding	KNOWN	CCDS906	22977	477	158	120336641	120354203	-1	None	REG-IV, RELP, GISP
1	REG4	ENSG00000134193	ENST00000256585	protein_coding	KNOWN	CCDS906	22977	477	158	120336707	120354283	-1	None	REG-IV, RELP, GISP
1	REG4	ENSG00000134193	ENST00000530654	protein_coding	NOVEL	None	22977	312	103	120337036	120351428	-1	None	REG-IV, RELP, GISP
1	REG4	ENSG00000134193	ENST00000369401	protein_coding	KNOWN	CCDS53354	22977	405	134	120343795	120354203	-1	None	REG-IV, RELP, GISP
21	PDXK	ENSG00000160209	ENST00000398081	protein_coding	PUTATIVE	None	8819	264	87	45138975	45158742	1	C21orf97, C21orf124	PNK, PKH, FLJ21324, PRED79, FLJ31940, MGC15873
21	PDXK	ENSG00000160209	ENST00000468090	protein_coding	KNOWN	None	8819	855	284	45138978	45182188	1	C21orf97, C21orf124	PNK, PKH, FLJ21324, PRED79, FLJ31940, MGC15873
21	PDXK	ENSG00000160209	ENST00000291565	protein_coding	KNOWN	CCDS13699	8819	939	312	45138993	45182188	1	C21orf97, C21orf124	PNK, PKH, FLJ21324, PRED79, FLJ31940, MGC15873
21	PDXK	ENSG00000160209	ENST00000398085	processed_transcript	KNOWN	None	8819	None	None	45139057	45172510	1	C21orf97, C21orf124	PNK, PKH, FLJ21324, PRED79, FLJ31940, MGC15873
21	PDXK	ENSG00000160209	ENST00000476084	processed_transcript	KNOWN	None	8819	None	None	45139058	45143774	1	C21orf97, C21orf124	PNK, PKH, FLJ21324, PRED79, FLJ31940, MGC15873
21	PDXK	ENSG00000160209	ENST00000470029	processed_transcript	KNOWN	None	8819	None	None	45139104	45164531	1	C21orf97, C21orf124	PNK, PKH, FLJ21324, PRED79, FLJ31940, MGC15873
21	PDXK	ENSG00000160209	ENST00000498040	processed_transcript	KNOWN	None	8819	None	None	45148611	45173535	1	C21orf97, C21orf124	PNK, PKH, FLJ21324, PRED79, FLJ31940, MGC15873
21	PDXK	ENSG00000160209	ENST00000327574	protein_coding	PUTATIVE	None	8819	447	148	45148781	45158742	1	C21orf97, C21orf124	PNK, PKH, FLJ21324, PRED79, FLJ31940, MGC15873
21	PDXK	ENSG00000160209	ENST00000472777	processed_transcript	KNOWN	None	8819	None	None	45148794	45167067	1	C21orf97, C21orf124	PNK, PKH, FLJ21324, PRED79, FLJ31940, MGC15873
21	PDXK	ENSG00000160209	ENST00000476313	processed_transcript	KNOWN	None	8819	None	None	45148798	45158712	1	C21orf97, C21orf124	PNK, PKH, FLJ21324, PRED79, FLJ31940, MGC15873
21	PDXK	ENSG00000160209	ENST00000481512	processed_transcript	KNOWN	None	8819	None	None	45153552	45173475	1	C21orf97, C21orf124	PNK, PKH, FLJ21324, PRED79, FLJ31940, MGC15873
21	PDXK	ENSG00000160209	ENST00000490666	processed_transcript	KNOWN	None	8819	None	None	45160897	45173535	1	C21orf97, C21orf124	PNK, PKH, FLJ21324, PRED79, FLJ31940, MGC15873
21	PDXK	ENSG00000160209	ENST00000467908	protein_coding	PUTATIVE	None	8819	819	272	45161301	45182188	1	C21orf97, C21orf124	PNK, PKH, FLJ21324, PRED79, FLJ31940, MGC15873
21	PDXK	ENSG00000160209	ENST00000343528	processed_transcript	KNOWN	None	8819	None	None	45161346	45176136	1	C21orf97, C21orf124	PNK, PKH, FLJ21324, PRED79, FLJ31940, MGC15873
21	PDXK	ENSG00000160209	ENST00000398078	processed_transcript	KNOWN	None	8819	None	None	45161357	45176025	1	C21orf97, C21orf124	PNK, PKH, FLJ21324, PRED79, FLJ31940, MGC15873
21	PDXK	ENSG00000160209	ENST00000468392	processed_transcript	KNOWN	None	8819	None	None	45165584	45176054	1	C21orf97, C21orf124	PNK, PKH, FLJ21324, PRED79, FLJ31940, MGC15873
21	PDXK	ENSG00000160209	ENST00000461123	processed_transcript	KNOWN	None	8819	None	None	45173464	45176043	1	C21orf97, C21orf124	PNK, PKH, FLJ21324, PRED79, FLJ31940, MGC15873
5	TCF7	ENSG00000081059	ENST00000342854	protein_coding	KNOWN	CCDS4169	11639	1155	384	133450402	133483688	1	None	TCF-1
5	TCF7	ENSG00000081059	ENST00000395029	protein_coding	PUTATIVE	None	11639	1446	481	133450403	133483901	1	None	TCF-1
5	TCF7	ENSG00000081059	ENST00000518887	protein_coding	KNOWN	None	11639	368	121	133450892	133477953	1	None	TCF-1
5	TCF7	ENSG00000081059	ENST00000522653	retained_intron	KNOWN	None	11639	None	None	133451043	133483674	1	None	TCF-1
5	TCF7	ENSG00000081059	ENST00000517851	protein_coding	NOVEL	None	11639	503	166	133451254	133477995	1	None	TCF-1
5	TCF7	ENSG00000081059	ENST00000521639	protein_coding	KNOWN	None	11639	442	146	133451254	133478443	1	None	TCF-1
5	TCF7	ENSG00000081059	ENST00000522375	protein_coding	NOVEL	None	11639	460	152	133451298	133477952	1	None	TCF-1
5	TCF7	ENSG00000081059	ENST00000378560	protein_coding	KNOWN	CCDS43362	11639	807	268	133451298	133483920	1	None	TCF-1
5	TCF7	ENSG00000081059	ENST00000520958	protein_coding	KNOWN	CCDS4170	11639	810	269	133451301	133482264	1	None	TCF-1
5	TCF7	ENSG00000081059	ENST00000518915	protein_coding	KNOWN	CCDS47263	11639	810	269	133451316	133481876	1	None	TCF-1
5	TCF7	ENSG00000081059	ENST00000395023	protein_coding	KNOWN	CCDS4170	11639	810	269	133451316	133483920	1	None	TCF-1
5	TCF7	ENSG00000081059	ENST00000519447	nonsense_mediated_decay	KNOWN	None	11639	303	100	133451332	133478438	1	None	TCF-1
5	TCF7	ENSG00000081059	ENST00000517741	nonsense_mediated_decay	KNOWN	None	11639	303	100	133451350	133477956	1	None	TCF-1
5	TCF7	ENSG00000081059	ENST00000519165	retained_intron	KNOWN	None	11639	None	None	133451602	133475549	1	None	TCF-1
5	TCF7	ENSG00000081059	ENST00000520652	nonsense_mediated_decay	KNOWN	None	11639	216	71	133451647	133478504	1	None	TCF-1
5	TCF7	ENSG00000081059	ENST00000519037	protein_coding	PUTATIVE	None	11639	429	142	133459309	133478505	1	None	TCF-1
5	TCF7	ENSG00000081059	ENST00000521970	retained_intron	KNOWN	None	11639	None	None	133473556	133474943	1	None	TCF-1
5	TCF7	ENSG00000081059	ENST00000517478	processed_transcript	KNOWN	None	11639	None	None	133473795	133477041	1	None	TCF-1
5	TCF7	ENSG00000081059	ENST00000522561	retained_intron	KNOWN	None	11639	None	None	133474292	133478731	1	None	TCF-1
5	TCF7	ENSG00000081059	ENST00000524342	retained_intron	KNOWN	None	11639	None	None	133476226	133483927	1	None	TCF-1
5	TCF7	ENSG00000081059	ENST00000519238	retained_intron	KNOWN	None	11639	None	None	133477155	133482718	1	None	TCF-1
5	TCF7	ENSG00000081059	ENST00000517855	protein_coding	PUTATIVE	None	11639	613	203	133477876	133482398	1	None	TCF-1
5	TCF7	ENSG00000081059	ENST00000517799	protein_coding	PUTATIVE	None	11639	444	147	133477907	133481994	1	None	TCF-1
5	TCF7	ENSG00000081059	ENST00000520699	protein_coding	PUTATIVE	None	11639	317	104	133478483	133487556	1	None	TCF-1
5	TCF7	ENSG00000081059	ENST00000321603	protein_coding	KNOWN	None	11639	1098	365	133450402	133481914	1	None	TCF-1
5	TCF7	ENSG00000081059	ENST00000321584	protein_coding	KNOWN	None	11639	1155	384	133450402	133481511	1	None	TCF-1
5	TCF7	ENSG00000081059	ENST00000378564	protein_coding	KNOWN	None	11639	1110	369	133450402	133480985	1	None	TCF-1
5	TCF7	ENSG00000081059	ENST00000432532	protein_coding	KNOWN	None	11639	1101	366	133451298	133482212	1	None	TCF-1
4	None	ENSG00000251317	ENST00000511195	transcribed_processed_pseudogene	KNOWN	None	None	None	None	14127963	14128288	1	None	None
HSCHR6_MHC_MCF	LY6G6F	ENSG00000240957	ENST00000453044	protein_coding	KNOWN	None	13933	894	297	31750946	31754656	1	LY6G6D, C6orf21	G6f, NG32
4	None	ENSG00000251679	ENST00000514339	lincRNA	KNOWN	None	None	None	None	14136560	14145216	1	None	None
13	TFDP1	ENSG00000198176	ENST00000475254	processed_transcript	KNOWN	None	11749	None	None	114239036	114287600	1	None	Dp-1, DRTF1, DP1
13	TFDP1	ENSG00000198176	ENST00000464794	processed_transcript	KNOWN	None	11749	None	None	114239054	114240498	1	None	Dp-1, DRTF1, DP1
13	TFDP1	ENSG00000198176	ENST00000375370	protein_coding	KNOWN	CCDS9538	11749	1233	410	114239056	114295785	1	None	Dp-1, DRTF1, DP1
13	TFDP1	ENSG00000198176	ENST00000465174	processed_transcript	KNOWN	None	11749	None	None	114239058	114288314	1	None	Dp-1, DRTF1, DP1
13	TFDP1	ENSG00000198176	ENST00000408980	protein_coding	KNOWN	None	11749	707	234	114239648	114290311	1	None	Dp-1, DRTF1, DP1
13	TFDP1	ENSG00000198176	ENST00000453989	protein_coding	KNOWN	None	11749	476	157	114239741	114287602	1	None	Dp-1, DRTF1, DP1
13	TFDP1	ENSG00000198176	ENST00000494812	processed_transcript	KNOWN	None	11749	None	None	114291466	114294999	1	None	Dp-1, DRTF1, DP1
13	TFDP1	ENSG00000198176	ENST00000538138	protein_coding	KNOWN	None	11749	936	311	114239013	114294713	1	None	Dp-1, DRTF1, DP1
13	TFDP1	ENSG00000198176	ENST00000544902	protein_coding	KNOWN	None	11749	1146	381	114239588	114294625	1	None	Dp-1, DRTF1, DP1
3	DIRC2	ENSG00000138463	ENST00000261038	protein_coding	KNOWN	CCDS3018	16628	1437	478	122513642	122599986	1	None	FLJ14784, RCC4
3	DIRC2	ENSG00000138463	ENST00000477647	nonsense_mediated_decay	KNOWN	None	16628	348	115	122513931	122598595	1	None	FLJ14784, RCC4
HSCHR6_MHC_MCF	LY6G6E	ENSG00000235769	ENST00000495943	processed_transcript	KNOWN	None	13934	None	None	31756401	31757877	-1	C6orf22	G6e
HSCHR6_MHC_MCF	LY6G6E	ENSG00000235769	ENST00000419767	protein_coding	KNOWN	None	13934	201	66	31756406	31757877	-1	C6orf22	G6e
HSCHR6_MHC_MCF	LY6G6E	ENSG00000235769	ENST00000431644	protein_coding	KNOWN	None	13934	303	100	31756406	31757877	-1	C6orf22	G6e
HSCHR6_MHC_MCF	LY6G6E	ENSG00000235769	ENST00000546405	protein_coding	KNOWN	None	13934	378	125	31756401	31757877	-1	C6orf22	G6e
2	B3GALT1	ENSG00000172318	ENST00000392690	protein_coding	KNOWN	CCDS2227	916	981	326	168725458	168727366	1	None	beta3Gal-T1
2	B3GALT1	ENSG00000172318	ENST00000305861	protein_coding	KNOWN	CCDS2227	916	981	326	168675182	168727366	1	None	beta3Gal-T1
4	DDX60L	ENSG00000181381	ENST00000510590	retained_intron	KNOWN	None	26429	None	None	169277886	169301957	-1	None	FLJ31033
4	DDX60L	ENSG00000181381	ENST00000511577	protein_coding	KNOWN	None	26429	5121	1706	169277886	169401665	-1	None	FLJ31033
4	DDX60L	ENSG00000181381	ENST00000513103	retained_intron	KNOWN	None	26429	None	None	169279212	169282590	-1	None	FLJ31033
4	DDX60L	ENSG00000181381	ENST00000505890	protein_coding	KNOWN	None	26429	3927	1308	169311253	169401638	-1	None	FLJ31033
4	DDX60L	ENSG00000181381	ENST00000514580	protein_coding	NOVEL	None	26429	586	194	169311446	169322129	-1	None	FLJ31033
4	DDX60L	ENSG00000181381	ENST00000503190	retained_intron	KNOWN	None	26429	None	None	169316867	169322129	-1	None	FLJ31033
4	DDX60L	ENSG00000181381	ENST00000505863	protein_coding	NOVEL	None	26429	2605	867	169317250	169377210	-1	None	FLJ31033
4	DDX60L	ENSG00000181381	ENST00000504793	processed_transcript	KNOWN	None	26429	None	None	169336936	169343739	-1	None	FLJ31033
4	DDX60L	ENSG00000181381	ENST00000505696	protein_coding	KNOWN	None	26429	374	123	169383082	169401449	-1	None	FLJ31033
4	DDX60L	ENSG00000181381	ENST00000514748	protein_coding	KNOWN	None	26429	296	97	169383160	169401628	-1	None	FLJ31033
4	DDX60L	ENSG00000181381	ENST00000515088	processed_transcript	KNOWN	None	26429	None	None	169389899	169401590	-1	None	FLJ31033
4	DDX60L	ENSG00000181381	ENST00000513901	processed_transcript	KNOWN	None	26429	None	None	169391855	169401642	-1	None	FLJ31033
4	DDX60L	ENSG00000181381	ENST00000512371	protein_coding	KNOWN	None	26429	231	76	169392931	169401628	-1	None	FLJ31033
4	DDX60L	ENSG00000181381	ENST00000505150	processed_transcript	KNOWN	None	26429	None	None	169397218	169458937	-1	None	FLJ31033
4	DDX60L	ENSG00000181381	ENST00000512958	processed_transcript	KNOWN	None	26429	None	None	169410241	169457747	-1	None	FLJ31033
4	DDX60L	ENSG00000181381	ENST00000260184	protein_coding	KNOWN	CCDS47161	26429	5121	1706	169277886	169401638	-1	None	FLJ31033
1	ADAM30	ENSG00000134249	ENST00000369400	protein_coding	KNOWN	CCDS907	208	2373	790	120436156	120439118	-1	None	svph4
10	DUPD1	ENSG00000188716	ENST00000338487	protein_coding	KNOWN	CCDS31223	23481	663	220	76797594	76818272	-1	None	DUSP27
HSCHR6_MHC_QBL	C4A	ENSG00000206340	ENST00000383325	protein_coding	KNOWN	None	1323	5235	1744	31940194	31960852	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
HSCHR6_MHC_QBL	C4A	ENSG00000206340	ENST00000497364	retained_intron	KNOWN	None	1323	None	None	31941013	31941729	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
HSCHR6_MHC_QBL	C4A	ENSG00000206340	ENST00000488003	processed_transcript	KNOWN	None	1323	None	None	31941051	31942568	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
HSCHR6_MHC_QBL	C4A	ENSG00000206340	ENST00000491185	retained_intron	KNOWN	None	1323	None	None	31950348	31952147	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
HSCHR6_MHC_QBL	C4A	ENSG00000206340	ENST00000476736	processed_transcript	KNOWN	None	1323	None	None	31953280	31953791	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
HSCHR6_MHC_QBL	C4A	ENSG00000206340	ENST00000489963	processed_transcript	PUTATIVE	None	1323	None	None	31954122	31957007	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
HSCHR6_MHC_QBL	C4A	ENSG00000206340	ENST00000462533	retained_intron	KNOWN	None	1323	None	None	31955913	31957890	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
HSCHR6_MHC_QBL	C4A	ENSG00000206340	ENST00000478025	retained_intron	KNOWN	None	1323	None	None	31957022	31957701	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
HSCHR6_MHC_QBL	C4A	ENSG00000206340	ENST00000480401	retained_intron	KNOWN	None	1323	None	None	31957326	31960852	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
HSCHR6_MHC_QBL	C4A	ENSG00000206340	ENST00000484565	retained_intron	KNOWN	None	1323	None	None	31957371	31960852	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
HSCHR6_MHC_QBL	C4A	ENSG00000206340	ENST00000473448	processed_transcript	KNOWN	None	1323	None	None	31959169	31960852	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
HSCHR6_MHC_QBL	C4A	ENSG00000206340	ENST00000488531	retained_intron	KNOWN	None	1323	None	None	31959298	31960436	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
HSCHR6_MHC_QBL	C4A	ENSG00000206340	ENST00000468752	processed_transcript	KNOWN	None	1323	None	None	31959431	31960039	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
HSCHR6_MHC_QBL	C4A	ENSG00000206340	ENST00000549812	protein_coding	KNOWN	None	1323	5097	1698	31940238	31960842	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
1	PPP1R12B	ENSG00000077157	ENST00000406302	protein_coding	KNOWN	CCDS1426	7619	2949	982	202317827	202557697	1	MYPT2	MGC87886, MGC131980, PP1bp55
1	PPP1R12B	ENSG00000077157	ENST00000480184	protein_coding	NOVEL	CCDS53458	7619	1548	515	202317848	202407370	1	MYPT2	MGC87886, MGC131980, PP1bp55
1	PPP1R12B	ENSG00000077157	ENST00000356764	protein_coding	KNOWN	CCDS53459	7619	1161	386	202317856	202407370	1	MYPT2	MGC87886, MGC131980, PP1bp55
1	PPP1R12B	ENSG00000077157	ENST00000476364	nonsense_mediated_decay	KNOWN	None	7619	429	142	202317856	202407370	1	MYPT2	MGC87886, MGC131980, PP1bp55
1	PPP1R12B	ENSG00000077157	ENST00000466968	protein_coding	NOVEL	None	7619	635	210	202385959	202403891	1	MYPT2	MGC87886, MGC131980, PP1bp55
1	PPP1R12B	ENSG00000077157	ENST00000488330	retained_intron	KNOWN	None	7619	None	None	202397663	202403896	1	MYPT2	MGC87886, MGC131980, PP1bp55
1	PPP1R12B	ENSG00000077157	ENST00000464965	processed_transcript	KNOWN	None	7619	None	None	202406948	202407751	1	MYPT2	MGC87886, MGC131980, PP1bp55
1	PPP1R12B	ENSG00000077157	ENST00000434615	processed_transcript	KNOWN	None	7619	None	None	202411654	202418225	1	MYPT2	MGC87886, MGC131980, PP1bp55
1	PPP1R12B	ENSG00000077157	ENST00000498070	processed_transcript	KNOWN	None	7619	None	None	202417412	202472037	1	MYPT2	MGC87886, MGC131980, PP1bp55
1	PPP1R12B	ENSG00000077157	ENST00000290419	processed_transcript	KNOWN	None	7619	None	None	202431871	202550280	1	MYPT2	MGC87886, MGC131980, PP1bp55
1	PPP1R12B	ENSG00000077157	ENST00000491336	processed_transcript	KNOWN	None	7619	None	None	202431871	202550280	1	MYPT2	MGC87886, MGC131980, PP1bp55
1	PPP1R12B	ENSG00000077157	ENST00000466273	processed_transcript	KNOWN	None	7619	None	None	202470986	202533607	1	MYPT2	MGC87886, MGC131980, PP1bp55
1	PPP1R12B	ENSG00000077157	ENST00000367269	retained_intron	KNOWN	None	7619	None	None	202527746	202536955	1	MYPT2	MGC87886, MGC131980, PP1bp55
1	PPP1R12B	ENSG00000077157	ENST00000465284	processed_transcript	KNOWN	None	7619	None	None	202536552	202549966	1	MYPT2	MGC87886, MGC131980, PP1bp55
1	PPP1R12B	ENSG00000077157	ENST00000462074	processed_transcript	KNOWN	None	7619	None	None	202536646	202549970	1	MYPT2	MGC87886, MGC131980, PP1bp55
1	PPP1R12B	ENSG00000077157	ENST00000336894	protein_coding	KNOWN	None	7619	2949	982	202317830	202557697	1	MYPT2	MGC87886, MGC131980, PP1bp55
1	PPP1R12B	ENSG00000077157	ENST00000391959	protein_coding	KNOWN	CCDS44294	7619	627	208	202431871	202557697	1	MYPT2	MGC87886, MGC131980, PP1bp55
1	PPP1R12B	ENSG00000077157	ENST00000367270	protein_coding	KNOWN	CCDS44295	7619	675	224	202431871	202557697	1	MYPT2	MGC87886, MGC131980, PP1bp55
2	STK39	ENSG00000198648	ENST00000487143	processed_transcript	KNOWN	None	17717	None	None	168810530	168969616	-1	None	DCHT, SPAK
2	STK39	ENSG00000198648	ENST00000355999	protein_coding	KNOWN	CCDS42770	17717	1638	545	168810530	169104651	-1	None	DCHT, SPAK
2	STK39	ENSG00000198648	ENST00000461000	processed_transcript	PUTATIVE	None	17717	None	None	168820818	168869171	-1	None	DCHT, SPAK
HSCHR6_MHC_MCF	C6orf25	ENSG00000237459	ENST00000492854	retained_intron	KNOWN	None	13937	None	None	31762657	31770773	1	None	G6b, NG31
HSCHR6_MHC_MCF	C6orf25	ENSG00000237459	ENST00000444404	protein_coding	KNOWN	None	13937	714	237	31767436	31770773	1	None	G6b, NG31
HSCHR6_MHC_MCF	C6orf25	ENSG00000237459	ENST00000457450	protein_coding	KNOWN	None	13937	654	217	31767447	31770773	1	None	G6b, NG31
HSCHR6_MHC_MCF	C6orf25	ENSG00000237459	ENST00000440063	protein_coding	KNOWN	None	13937	582	193	31767447	31770773	1	None	G6b, NG31
HSCHR6_MHC_MCF	C6orf25	ENSG00000237459	ENST00000415984	protein_coding	KNOWN	None	13937	594	197	31767447	31770773	1	None	G6b, NG31
HSCHR6_MHC_MCF	C6orf25	ENSG00000237459	ENST00000497934	retained_intron	KNOWN	None	13937	None	None	31767447	31770773	1	None	G6b, NG31
HSCHR6_MHC_MCF	C6orf25	ENSG00000237459	ENST00000492012	retained_intron	KNOWN	None	13937	None	None	31767447	31770773	1	None	G6b, NG31
HSCHR6_MHC_MCF	C6orf25	ENSG00000237459	ENST00000447587	protein_coding	KNOWN	None	13937	726	241	31767447	31770773	1	None	G6b, NG31
12	NCKAP1L	ENSG00000123338	ENST00000293373	protein_coding	KNOWN	CCDS31813	4862	3384	1127	54891495	54937726	1	HEM1	None
12	NCKAP1L	ENSG00000123338	ENST00000548221	nonsense_mediated_decay	KNOWN	None	4862	1350	449	54891542	54936557	1	HEM1	None
12	NCKAP1L	ENSG00000123338	ENST00000547500	retained_intron	KNOWN	None	4862	None	None	54891550	54894715	1	HEM1	None
12	NCKAP1L	ENSG00000123338	ENST00000545638	protein_coding	KNOWN	CCDS53799	4862	3234	1077	54892568	54936747	1	HEM1	None
12	NCKAP1L	ENSG00000123338	ENST00000552211	processed_transcript	KNOWN	None	4862	None	None	54903657	54911322	1	HEM1	None
12	NCKAP1L	ENSG00000123338	ENST00000548916	retained_intron	KNOWN	None	4862	None	None	54903719	54906340	1	HEM1	None
12	NCKAP1L	ENSG00000123338	ENST00000549451	retained_intron	KNOWN	None	4862	None	None	54912621	54914610	1	HEM1	None
12	NCKAP1L	ENSG00000123338	ENST00000548980	retained_intron	KNOWN	None	4862	None	None	54925991	54930336	1	HEM1	None
20	FAM65C	ENSG00000042062	ENST00000327979	protein_coding	KNOWN	CCDS13431	16168	2841	946	49202645	49308065	-1	C20orf175, C20orf176	dJ530I15.2, dJ530I15.3
20	FAM65C	ENSG00000042062	ENST00000462842	processed_transcript	PUTATIVE	None	16168	None	None	49203202	49206549	-1	C20orf175, C20orf176	dJ530I15.2, dJ530I15.3
20	FAM65C	ENSG00000042062	ENST00000488529	processed_transcript	KNOWN	None	16168	None	None	49206254	49214146	-1	C20orf175, C20orf176	dJ530I15.2, dJ530I15.3
20	FAM65C	ENSG00000042062	ENST00000482129	processed_transcript	PUTATIVE	None	16168	None	None	49209075	49211729	-1	C20orf175, C20orf176	dJ530I15.2, dJ530I15.3
20	FAM65C	ENSG00000042062	ENST00000462493	retained_intron	KNOWN	None	16168	None	None	49213515	49253426	-1	C20orf175, C20orf176	dJ530I15.2, dJ530I15.3
20	FAM65C	ENSG00000042062	ENST00000535356	protein_coding	KNOWN	None	16168	2853	950	49203337	49307916	-1	C20orf175, C20orf176	dJ530I15.2, dJ530I15.3
20	FAM65C	ENSG00000042062	ENST00000045083	protein_coding	KNOWN	CCDS13431	16168	2841	946	49202649	49253426	-1	C20orf175, C20orf176	dJ530I15.2, dJ530I15.3
10	None	ENSG00000269952	ENST00000602435	sense_intronic	KNOWN	None	None	None	None	35499344	35499678	1	None	None
10	None	ENSG00000233200	ENST00000439198	lincRNA	KNOWN	None	None	None	None	35508822	35519526	-1	None	None
18	ATP8B1	ENSG00000081923	ENST00000283684	protein_coding	KNOWN	CCDS11965	3706	3756	1251	55313658	55399039	-1	FIC1, BRIC, PFIC1	ATPIC, PFIC
18	ATP8B1	ENSG00000081923	ENST00000588255	protein_coding	PUTATIVE	None	3706	276	91	55351350	55355900	-1	FIC1, BRIC, PFIC1	ATPIC, PFIC
18	ATP8B1	ENSG00000081923	ENST00000589147	processed_transcript	KNOWN	None	3706	None	None	55364902	55375790	-1	FIC1, BRIC, PFIC1	ATPIC, PFIC
18	ATP8B1	ENSG00000081923	ENST00000591728	nonsense_mediated_decay	KNOWN	None	3706	186	61	55368321	55470333	-1	FIC1, BRIC, PFIC1	ATPIC, PFIC
18	ATP8B1	ENSG00000081923	ENST00000585322	protein_coding	KNOWN	None	3706	33	10	55399007	55408197	-1	FIC1, BRIC, PFIC1	ATPIC, PFIC
18	ATP8B1	ENSG00000081923	ENST00000536015	protein_coding	KNOWN	CCDS11965	3706	3756	1251	55313661	55470327	-1	FIC1, BRIC, PFIC1	ATPIC, PFIC
1	SF3A3	ENSG00000183431	ENST00000373019	protein_coding	KNOWN	CCDS428	10767	1506	501	38422647	38456593	-1	None	SF3a60, SAP61, PRP9, PRPF9
1	SF3A3	ENSG00000183431	ENST00000487062	processed_transcript	KNOWN	None	10767	None	None	38423735	38426365	-1	None	SF3a60, SAP61, PRP9, PRPF9
1	SF3A3	ENSG00000183431	ENST00000460925	processed_transcript	KNOWN	None	10767	None	None	38435059	38444871	-1	None	SF3a60, SAP61, PRP9, PRPF9
1	SF3A3	ENSG00000183431	ENST00000489537	processed_transcript	KNOWN	None	10767	None	None	38444395	38455322	-1	None	SF3a60, SAP61, PRP9, PRPF9
1	SF3A3	ENSG00000183431	ENST00000461869	processed_transcript	KNOWN	None	10767	None	None	38444662	38455747	-1	None	SF3a60, SAP61, PRP9, PRPF9
1	SF3A3	ENSG00000183431	ENST00000470585	processed_transcript	KNOWN	None	10767	None	None	38445063	38455667	-1	None	SF3a60, SAP61, PRP9, PRPF9
1	SF3A3	ENSG00000183431	ENST00000488934	processed_transcript	KNOWN	None	10767	None	None	38445137	38446461	-1	None	SF3a60, SAP61, PRP9, PRPF9
1	SF3A3	ENSG00000183431	ENST00000462258	processed_transcript	KNOWN	None	10767	None	None	38449790	38455645	-1	None	SF3a60, SAP61, PRP9, PRPF9
1	SF3A3	ENSG00000183431	ENST00000448721	protein_coding	KNOWN	None	10767	1347	448	38423689	38455659	-1	None	SF3a60, SAP61, PRP9, PRPF9
10	RNU6-794P	ENSG00000253070	ENST00000517261	snRNA	KNOWN	None	47757	None	None	35520259	35520322	-1	None	None
8	CDH17	ENSG00000079112	ENST00000027335	protein_coding	KNOWN	CCDS6260	1756	2499	832	95139399	95220815	-1	None	HPT-1, cadherin
8	CDH17	ENSG00000079112	ENST00000441892	protein_coding	NOVEL	None	1756	1743	580	95140100	95220783	-1	None	HPT-1, cadherin
8	CDH17	ENSG00000079112	ENST00000450165	protein_coding	KNOWN	CCDS6260	1756	2499	832	95140468	95229531	-1	None	HPT-1, cadherin
8	CDH17	ENSG00000079112	ENST00000520952	nonsense_mediated_decay	KNOWN	None	1756	271	89	95158197	95174356	-1	None	HPT-1, cadherin
8	CDH17	ENSG00000079112	ENST00000521491	protein_coding	KNOWN	None	1756	442	146	95186471	95220783	-1	None	HPT-1, cadherin
18	CTAGE1	ENSG00000212710	ENST00000525417	protein_coding	KNOWN	None	24346	225	74	19993564	19994830	-1	None	cTAGE-1, cTAGE-2, CTAGE, CT21.1, CT21.2
18	CTAGE1	ENSG00000212710	ENST00000391403	protein_coding	KNOWN	CCDS45837	24346	2238	745	19993573	19997878	-1	None	cTAGE-1, cTAGE-2, CTAGE, CT21.1, CT21.2
10	RNU6-1167P	ENSG00000200097	ENST00000363227	snRNA	KNOWN	None	48130	None	None	35539887	35539980	-1	None	None
1	NOTCH2	ENSG00000134250	ENST00000256646	protein_coding	KNOWN	CCDS908	7882	7416	2471	120454176	120612240	-1	None	None
1	NOTCH2	ENSG00000134250	ENST00000493703	processed_transcript	KNOWN	None	7882	None	None	120465118	120466528	-1	None	None
1	NOTCH2	ENSG00000134250	ENST00000478864	processed_transcript	KNOWN	None	7882	None	None	120477890	120480086	-1	None	None
1	NOTCH2	ENSG00000134250	ENST00000479412	retained_intron	KNOWN	None	7882	None	None	120492743	120612240	-1	None	None
1	NOTCH2	ENSG00000134250	ENST00000602566	protein_coding	PUTATIVE	None	7882	708	235	120535404	120596839	-1	None	None
1	NOTCH2	ENSG00000134250	ENST00000489731	processed_transcript	KNOWN	None	7882	None	None	120547856	120572586	-1	None	None
20	PARD6B	ENSG00000124171	ENST00000371610	protein_coding	KNOWN	CCDS33485	16245	1119	372	49348081	49370278	1	None	PAR-6B
20	PARD6B	ENSG00000124171	ENST00000396039	protein_coding	PUTATIVE	None	16245	348	115	49348202	49373332	1	None	PAR-6B
9	FAM73B	ENSG00000148343	ENST00000477088	processed_transcript	KNOWN	None	23621	None	None	131798900	131804679	1	C9orf54	FLJ14596, FLJ00199
9	FAM73B	ENSG00000148343	ENST00000474534	processed_transcript	KNOWN	None	23621	None	None	131798900	131809503	1	C9orf54	FLJ14596, FLJ00199
9	FAM73B	ENSG00000148343	ENST00000439290	nonsense_mediated_decay	KNOWN	None	23621	972	323	131798923	131834350	1	C9orf54	FLJ14596, FLJ00199
9	FAM73B	ENSG00000148343	ENST00000445183	nonsense_mediated_decay	KNOWN	None	23621	1050	349	131798925	131834350	1	C9orf54	FLJ14596, FLJ00199
9	FAM73B	ENSG00000148343	ENST00000358369	protein_coding	KNOWN	CCDS6917	23621	1782	593	131799213	131834361	1	C9orf54	FLJ14596, FLJ00199
9	FAM73B	ENSG00000148343	ENST00000450073	protein_coding	KNOWN	None	23621	299	98	131799274	131804785	1	C9orf54	FLJ14596, FLJ00199
9	FAM73B	ENSG00000148343	ENST00000474639	processed_transcript	KNOWN	None	23621	None	None	131822761	131830590	1	C9orf54	FLJ14596, FLJ00199
9	FAM73B	ENSG00000148343	ENST00000494608	processed_transcript	KNOWN	None	23621	None	None	131822831	131825909	1	C9orf54	FLJ14596, FLJ00199
9	FAM73B	ENSG00000148343	ENST00000495975	processed_transcript	KNOWN	None	23621	None	None	131823576	131830293	1	C9orf54	FLJ14596, FLJ00199
9	FAM73B	ENSG00000148343	ENST00000414342	nonsense_mediated_decay	KNOWN	None	23621	432	143	131825566	131831374	1	C9orf54	FLJ14596, FLJ00199
9	FAM73B	ENSG00000148343	ENST00000471943	retained_intron	KNOWN	None	23621	None	None	131829787	131830679	1	C9orf54	FLJ14596, FLJ00199
9	FAM73B	ENSG00000148343	ENST00000492279	retained_intron	KNOWN	None	23621	None	None	131831213	131832213	1	C9orf54	FLJ14596, FLJ00199
9	FAM73B	ENSG00000148343	ENST00000483458	retained_intron	KNOWN	None	23621	None	None	131831538	131834350	1	C9orf54	FLJ14596, FLJ00199
9	FAM73B	ENSG00000148343	ENST00000406926	protein_coding	KNOWN	None	23621	1050	349	131799253	131834350	1	C9orf54	FLJ14596, FLJ00199
9	FAM73B	ENSG00000148343	ENST00000277475	protein_coding	KNOWN	None	23621	972	323	131799253	131834350	1	C9orf54	FLJ14596, FLJ00199
16	ADAT1	ENSG00000065457	ENST00000568510	protein_coding	PUTATIVE	None	228	57	18	75630879	75637032	-1	None	None
16	ADAT1	ENSG00000065457	ENST00000566450	protein_coding	PUTATIVE	None	228	363	120	75632031	75642855	-1	None	None
16	ADAT1	ENSG00000065457	ENST00000566445	nonsense_mediated_decay	KNOWN	None	228	312	103	75632998	75656364	-1	None	None
16	ADAT1	ENSG00000065457	ENST00000568478	processed_transcript	KNOWN	None	228	None	None	75633775	75635901	-1	None	None
16	ADAT1	ENSG00000065457	ENST00000307921	protein_coding	KNOWN	CCDS10922	228	1509	502	75633900	75657198	-1	None	None
16	ADAT1	ENSG00000065457	ENST00000568001	nonsense_mediated_decay	KNOWN	None	228	276	91	75646686	75657179	-1	None	None
16	ADAT1	ENSG00000065457	ENST00000567281	protein_coding	KNOWN	None	228	482	159	75646702	75657179	-1	None	None
16	ADAT1	ENSG00000065457	ENST00000565109	processed_transcript	KNOWN	None	228	None	None	75651123	75657173	-1	None	None
16	ADAT1	ENSG00000065457	ENST00000564657	protein_coding	KNOWN	None	228	329	108	75651135	75656681	-1	None	None
16	ADAT1	ENSG00000065457	ENST00000562374	protein_coding	KNOWN	None	228	31	9	75654667	75657157	-1	None	None
10	None	ENSG00000271335	ENST00000603160	antisense	KNOWN	None	None	None	None	35603480	35609926	-1	None	None
10	None	ENSG00000271335	ENST00000605499	antisense	KNOWN	None	None	None	None	35604260	35625329	-1	None	None
20	RBBP9	ENSG00000089050	ENST00000337227	protein_coding	KNOWN	CCDS13136	9892	561	186	18467184	18477887	-1	None	Bog
20	RBBP9	ENSG00000089050	ENST00000493184	processed_transcript	KNOWN	None	9892	None	None	18469932	18477824	-1	None	Bog
20	RBBP9	ENSG00000089050	ENST00000491835	processed_transcript	KNOWN	None	9892	None	None	18470103	18477818	-1	None	Bog
16	DPEP3	ENSG00000141096	ENST00000268793	protein_coding	KNOWN	CCDS10856	23029	1542	513	68009566	68014732	-1	None	None
16	DPEP3	ENSG00000141096	ENST00000574342	processed_transcript	KNOWN	None	23029	None	None	68012476	68014411	-1	None	None
4	CRIPAK	ENSG00000179979	ENST00000324803	protein_coding	KNOWN	CCDS3349	26619	1341	446	1385340	1389780	1	None	FLJ34443
2	CERS6	ENSG00000172292	ENST00000305747	protein_coding	KNOWN	CCDS2228	23826	1155	384	169312372	169631644	1	LASS6	None
2	CERS6	ENSG00000172292	ENST00000392687	protein_coding	KNOWN	CCDS58734	23826	1179	392	169312759	169631644	1	LASS6	None
4	NKX1-1	ENSG00000235608	ENST00000422806	protein_coding	KNOWN	None	24975	1236	411	1396720	1400119	-1	None	HSPX153, SAX2
20	BCAS4	ENSG00000124243	ENST00000358791	protein_coding	KNOWN	CCDS33487	14367	636	211	49411431	49493714	1	None	FLJ20495, CNOL
20	BCAS4	ENSG00000124243	ENST00000371608	protein_coding	KNOWN	CCDS13432	14367	612	203	49411531	49493714	1	None	FLJ20495, CNOL
20	BCAS4	ENSG00000124243	ENST00000445038	protein_coding	PUTATIVE	None	14367	365	120	49411607	49493109	1	None	FLJ20495, CNOL
20	BCAS4	ENSG00000124243	ENST00000463943	nonsense_mediated_decay	KNOWN	None	14367	283	93	49411608	49493714	1	None	FLJ20495, CNOL
20	BCAS4	ENSG00000124243	ENST00000485049	processed_transcript	KNOWN	None	14367	None	None	49411637	49449557	1	None	FLJ20495, CNOL
20	BCAS4	ENSG00000124243	ENST00000262591	protein_coding	KNOWN	None	14367	477	158	49411467	49493713	1	None	FLJ20495, CNOL
11	ADM	ENSG00000148926	ENST00000278175	protein_coding	KNOWN	CCDS7801	259	558	185	10326227	10328944	1	None	AM
11	ADM	ENSG00000148926	ENST00000534464	protein_coding	PUTATIVE	None	259	417	138	10326620	10328942	1	None	AM
11	ADM	ENSG00000148926	ENST00000530439	protein_coding	PUTATIVE	None	259	354	117	10326621	10328909	1	None	AM
11	ADM	ENSG00000148926	ENST00000524948	protein_coding	PUTATIVE	None	259	252	83	10326624	10327807	1	None	AM
11	ADM	ENSG00000148926	ENST00000528655	protein_coding	KNOWN	CCDS7801	259	558	185	10326631	10328902	1	None	AM
11	ADM	ENSG00000148926	ENST00000526492	protein_coding	PUTATIVE	None	259	420	139	10326635	10328077	1	None	AM
11	ADM	ENSG00000148926	ENST00000525063	protein_coding	KNOWN	CCDS7801	259	558	185	10326635	10328455	1	None	AM
11	ADM	ENSG00000148926	ENST00000528544	protein_coding	PUTATIVE	None	259	252	83	10326924	10327659	1	None	AM
6	WDR27	ENSG00000184465	ENST00000479310	processed_transcript	KNOWN	None	21248	None	None	169857307	170049329	-1	None	MGC43690
6	WDR27	ENSG00000184465	ENST00000448612	protein_coding	KNOWN	CCDS47520	21248	2688	895	169857307	170101749	-1	None	MGC43690
6	WDR27	ENSG00000184465	ENST00000546525	processed_transcript	KNOWN	None	21248	None	None	169958417	170067371	-1	None	MGC43690
6	WDR27	ENSG00000184465	ENST00000441385	protein_coding	PUTATIVE	None	21248	587	194	170047744	170060788	-1	None	MGC43690
6	WDR27	ENSG00000184465	ENST00000467418	processed_transcript	KNOWN	None	21248	None	None	170057855	170063819	-1	None	MGC43690
6	WDR27	ENSG00000184465	ENST00000486490	processed_transcript	KNOWN	None	21248	None	None	170062463	170066754	-1	None	MGC43690
6	WDR27	ENSG00000184465	ENST00000476322	retained_intron	KNOWN	None	21248	None	None	170064273	170065188	-1	None	MGC43690
6	WDR27	ENSG00000184465	ENST00000496752	retained_intron	KNOWN	None	21248	None	None	170064382	170070789	-1	None	MGC43690
6	WDR27	ENSG00000184465	ENST00000464249	processed_transcript	KNOWN	None	21248	None	None	170068703	170070796	-1	None	MGC43690
6	WDR27	ENSG00000184465	ENST00000546953	retained_intron	KNOWN	None	21248	None	None	170069617	170101749	-1	None	MGC43690
6	WDR27	ENSG00000184465	ENST00000474018	protein_coding	KNOWN	None	21248	264	87	170072418	170102144	-1	None	MGC43690
6	WDR27	ENSG00000184465	ENST00000333572	protein_coding	KNOWN	None	21248	2574	857	169857307	170102159	-1	None	MGC43690
6	WDR27	ENSG00000184465	ENST00000423258	protein_coding	KNOWN	CCDS56459	21248	2193	730	169857307	170102159	-1	None	MGC43690
6	WDR27	ENSG00000184465	ENST00000420344	protein_coding	KNOWN	None	21248	546	181	170060802	170102125	-1	None	MGC43690
19	CEACAM6	ENSG00000086548	ENST00000595740	protein_coding	KNOWN	None	1818	100	32	42254885	42260543	1	NCA	CD66c
19	CEACAM6	ENSG00000086548	ENST00000199764	protein_coding	KNOWN	CCDS12585	1818	1035	344	42259329	42276113	1	NCA	CD66c
2	TMEM18	ENSG00000151353	ENST00000281017	protein_coding	KNOWN	CCDS33141	25257	423	140	667335	677439	-1	None	DKFZp434C1714
2	TMEM18	ENSG00000151353	ENST00000432667	nonsense_mediated_decay	KNOWN	None	25257	201	66	667973	677406	-1	None	DKFZp434C1714
2	TMEM18	ENSG00000151353	ENST00000497508	retained_intron	KNOWN	None	25257	None	None	669189	670975	-1	None	DKFZp434C1714
2	TMEM18	ENSG00000151353	ENST00000477202	retained_intron	KNOWN	None	25257	None	None	669211	676662	-1	None	DKFZp434C1714
2	TMEM18	ENSG00000151353	ENST00000405941	protein_coding	NOVEL	None	25257	432	143	669423	676704	-1	None	DKFZp434C1714
2	TMEM18	ENSG00000151353	ENST00000418447	nonsense_mediated_decay	KNOWN	None	25257	180	59	675558	676642	-1	None	DKFZp434C1714
2	TMEM18	ENSG00000151353	ENST00000461640	retained_intron	KNOWN	None	25257	None	None	675609	676787	-1	None	DKFZp434C1714
2	TMEM18	ENSG00000151353	ENST00000355654	protein_coding	KNOWN	None	25257	384	127	669189	675775	-1	None	DKFZp434C1714
13	ATP4B	ENSG00000186009	ENST00000335288	protein_coding	KNOWN	CCDS9539	820	876	291	114303119	114312501	-1	None	ATP6B
3	SEMA5B	ENSG00000082684	ENST00000451541	protein_coding	PUTATIVE	None	10737	593	196	122628041	122631114	-1	SEMAG	SemG, KIAA1445, FLJ10372
3	SEMA5B	ENSG00000082684	ENST00000357599	protein_coding	KNOWN	CCDS35491	10737	3456	1151	122628041	122746659	-1	SEMAG	SemG, KIAA1445, FLJ10372
3	SEMA5B	ENSG00000082684	ENST00000475244	nonsense_mediated_decay	KNOWN	None	10737	3285	1094	122628041	122747452	-1	SEMAG	SemG, KIAA1445, FLJ10372
3	SEMA5B	ENSG00000082684	ENST00000393583	protein_coding	KNOWN	None	10737	3264	1087	122629720	122712120	-1	SEMAG	SemG, KIAA1445, FLJ10372
3	SEMA5B	ENSG00000082684	ENST00000465147	processed_transcript	KNOWN	None	10737	None	None	122662278	122746613	-1	SEMAG	SemG, KIAA1445, FLJ10372
3	SEMA5B	ENSG00000082684	ENST00000421053	protein_coding	KNOWN	None	10737	427	141	122662284	122746425	-1	SEMAG	SemG, KIAA1445, FLJ10372
3	SEMA5B	ENSG00000082684	ENST00000477001	processed_transcript	KNOWN	None	10737	None	None	122667399	122746425	-1	SEMAG	SemG, KIAA1445, FLJ10372
3	SEMA5B	ENSG00000082684	ENST00000449546	protein_coding	KNOWN	None	10737	252	83	122667429	122694217	-1	SEMAG	SemG, KIAA1445, FLJ10372
3	SEMA5B	ENSG00000082684	ENST00000451055	protein_coding	KNOWN	CCDS58848	10737	3618	1205	122628511	122694981	-1	SEMAG	SemG, KIAA1445, FLJ10372
3	SEMA5B	ENSG00000082684	ENST00000195173	protein_coding	KNOWN	None	10737	3279	1092	122628043	122746576	-1	SEMAG	SemG, KIAA1445, FLJ10372
4	FAM53A	ENSG00000174137	ENST00000489029	protein_coding	PUTATIVE	None	31860	470	155	1619642	1657135	-1	None	DNTNP
4	FAM53A	ENSG00000174137	ENST00000489363	protein_coding	PUTATIVE	None	31860	1083	360	1642193	1685854	-1	None	DNTNP
4	FAM53A	ENSG00000174137	ENST00000461064	protein_coding	KNOWN	CCDS33939	31860	1197	398	1642222	1670632	-1	None	DNTNP
4	FAM53A	ENSG00000174137	ENST00000472884	protein_coding	KNOWN	CCDS33939	31860	1197	398	1642329	1685718	-1	None	DNTNP
4	FAM53A	ENSG00000174137	ENST00000467215	retained_intron	KNOWN	None	31860	None	None	1643289	1646680	-1	None	DNTNP
4	FAM53A	ENSG00000174137	ENST00000463238	protein_coding	KNOWN	None	31860	324	107	1657263	1686029	-1	None	DNTNP
4	FAM53A	ENSG00000174137	ENST00000308132	protein_coding	KNOWN	CCDS33939	31860	1197	398	1641608	1685988	-1	None	DNTNP
5	None	ENSG00000199540	ENST00000362670	misc_RNA	NOVEL	None	None	None	None	144202	144312	-1	None	None
5	None	ENSG00000261434	ENST00000563761	sense_overlapping	KNOWN	None	None	None	None	195893	196456	1	None	None
5	None	ENSG00000260774	ENST00000565521	retained_intron	KNOWN	None	None	None	None	214013	217394	-1	None	None
1	SYT2	ENSG00000143858	ENST00000367267	protein_coding	KNOWN	CCDS1427	11510	1260	419	202559724	202612581	-1	None	None
1	SYT2	ENSG00000143858	ENST00000367268	protein_coding	KNOWN	CCDS1427	11510	1260	419	202559724	202679545	-1	None	None
5	None	ENSG00000248925	ENST00000512642	antisense	KNOWN	None	None	None	None	269973	271631	-1	None	None
5	None	ENSG00000250848	ENST00000504656	processed_pseudogene	KNOWN	None	None	None	None	288948	290436	-1	None	None
5	None	ENSG00000214278	ENST00000515583	processed_pseudogene	KNOWN	None	None	None	None	403846	404661	-1	None	None
14	BCL11B	ENSG00000127152	ENST00000357195	protein_coding	KNOWN	CCDS9950	13222	2685	894	99635624	99737565	-1	ZNF856B	CTIP-2, CTIP2, hRIT1-alpha
14	BCL11B	ENSG00000127152	ENST00000345514	protein_coding	KNOWN	CCDS9949	13222	2472	823	99635624	99737822	-1	ZNF856B	CTIP-2, CTIP2, hRIT1-alpha
14	BCL11B	ENSG00000127152	ENST00000443726	protein_coding	NOVEL	None	13222	2103	700	99640298	99737861	-1	ZNF856B	CTIP-2, CTIP2, hRIT1-alpha
7	None	ENSG00000269446	ENST00000594086	protein_coding	KNOWN	None	None	414	137	156902674	156903764	1	None	None
5	None	ENSG00000250645	ENST00000509301	processed_pseudogene	KNOWN	None	None	None	None	418818	419224	1	None	None
9	SPINK4	ENSG00000122711	ENST00000379725	protein_coding	KNOWN	None	16646	330	109	33218363	33248550	1	None	PEC-60, MGC133107
9	SPINK4	ENSG00000122711	ENST00000379721	protein_coding	KNOWN	CCDS6536	16646	261	86	33240162	33248565	1	None	PEC-60, MGC133107
9	SPINK4	ENSG00000122711	ENST00000379723	protein_coding	KNOWN	None	16646	330	109	33220977	33248564	1	None	PEC-60, MGC133107
X	PAGE2B	ENSG00000238269	ENST00000374974	protein_coding	NOVEL	None	31805	285	94	55101496	55105342	1	None	CT16.5
X	PAGE2B	ENSG00000238269	ENST00000374971	protein_coding	KNOWN	CCDS35304	31805	336	111	55101504	55105336	1	None	CT16.5
5	None	ENSG00000225138	ENST00000607286	antisense	KNOWN	None	None	None	None	473351	480582	1	None	None
5	None	ENSG00000225138	ENST00000606319	antisense	KNOWN	None	None	None	None	475399	476605	1	None	None
5	None	ENSG00000225138	ENST00000606107	retained_intron	KNOWN	None	None	None	None	477219	480623	1	None	None
5	None	ENSG00000225138	ENST00000607005	antisense	KNOWN	None	None	None	None	477359	480065	1	None	None
5	None	ENSG00000225138	ENST00000606074	retained_intron	KNOWN	None	None	None	None	477360	478766	1	None	None
5	None	ENSG00000225138	ENST00000606288	antisense	KNOWN	None	None	None	None	477360	480780	1	None	None
5	None	ENSG00000225138	ENST00000534918	retained_intron	KNOWN	None	None	None	None	478238	480999	1	None	None
5	None	ENSG00000225138	ENST00000431004	processed_transcript	KNOWN	None	None	None	None	478238	479604	1	None	None
1	FHL3	ENSG00000183386	ENST00000485803	processed_transcript	KNOWN	None	3704	None	None	38462442	38471174	-1	None	SLIM2
1	FHL3	ENSG00000183386	ENST00000373016	protein_coding	KNOWN	CCDS30678	3704	843	280	38462442	38471177	-1	None	SLIM2
1	FHL3	ENSG00000183386	ENST00000475084	processed_transcript	KNOWN	None	3704	None	None	38462858	38471174	-1	None	SLIM2
1	FHL3	ENSG00000183386	ENST00000477194	processed_transcript	KNOWN	None	3704	None	None	38463017	38471278	-1	None	SLIM2
1	FHL3	ENSG00000183386	ENST00000483132	processed_transcript	KNOWN	None	3704	None	None	38464390	38465104	-1	None	SLIM2
HSCHR6_MHC_SSTO	C4B	ENSG00000233312	ENST00000435500	protein_coding	KNOWN	None	1324	5235	1744	31941653	31962310	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_SSTO	C4B	ENSG00000233312	ENST00000488382	retained_intron	KNOWN	None	1324	None	None	31942472	31943188	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_SSTO	C4B	ENSG00000233312	ENST00000497344	processed_transcript	KNOWN	None	1324	None	None	31942510	31944027	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_SSTO	C4B	ENSG00000233312	ENST00000487248	retained_intron	KNOWN	None	1324	None	None	31951806	31953605	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_SSTO	C4B	ENSG00000233312	ENST00000467180	processed_transcript	KNOWN	None	1324	None	None	31954738	31955249	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_SSTO	C4B	ENSG00000233312	ENST00000475110	processed_transcript	PUTATIVE	None	1324	None	None	31955580	31958465	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_SSTO	C4B	ENSG00000233312	ENST00000465720	retained_intron	KNOWN	None	1324	None	None	31957371	31959348	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_SSTO	C4B	ENSG00000233312	ENST00000487105	retained_intron	KNOWN	None	1324	None	None	31958480	31959159	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_SSTO	C4B	ENSG00000233312	ENST00000485492	retained_intron	KNOWN	None	1324	None	None	31958784	31962310	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_SSTO	C4B	ENSG00000233312	ENST00000466864	retained_intron	KNOWN	None	1324	None	None	31958829	31962310	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_SSTO	C4B	ENSG00000233312	ENST00000496446	processed_transcript	KNOWN	None	1324	None	None	31960627	31962310	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_SSTO	C4B	ENSG00000233312	ENST00000463341	retained_intron	KNOWN	None	1324	None	None	31960756	31961894	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_SSTO	C4B	ENSG00000233312	ENST00000492701	processed_transcript	KNOWN	None	1324	None	None	31960889	31961497	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_SSTO	C4B	ENSG00000233312	ENST00000552464	protein_coding	KNOWN	None	1324	5097	1698	31941697	31962300	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_SSTO	C4B_2	ENSG00000233312	ENST00000435500	protein_coding	KNOWN	None	42398	5235	1744	31941653	31962310	1	None	None
HSCHR6_MHC_SSTO	C4B_2	ENSG00000233312	ENST00000488382	retained_intron	KNOWN	None	42398	None	None	31942472	31943188	1	None	None
HSCHR6_MHC_SSTO	C4B_2	ENSG00000233312	ENST00000497344	processed_transcript	KNOWN	None	42398	None	None	31942510	31944027	1	None	None
HSCHR6_MHC_SSTO	C4B_2	ENSG00000233312	ENST00000487248	retained_intron	KNOWN	None	42398	None	None	31951806	31953605	1	None	None
HSCHR6_MHC_SSTO	C4B_2	ENSG00000233312	ENST00000467180	processed_transcript	KNOWN	None	42398	None	None	31954738	31955249	1	None	None
HSCHR6_MHC_SSTO	C4B_2	ENSG00000233312	ENST00000475110	processed_transcript	PUTATIVE	None	42398	None	None	31955580	31958465	1	None	None
HSCHR6_MHC_SSTO	C4B_2	ENSG00000233312	ENST00000465720	retained_intron	KNOWN	None	42398	None	None	31957371	31959348	1	None	None
HSCHR6_MHC_SSTO	C4B_2	ENSG00000233312	ENST00000487105	retained_intron	KNOWN	None	42398	None	None	31958480	31959159	1	None	None
HSCHR6_MHC_SSTO	C4B_2	ENSG00000233312	ENST00000485492	retained_intron	KNOWN	None	42398	None	None	31958784	31962310	1	None	None
HSCHR6_MHC_SSTO	C4B_2	ENSG00000233312	ENST00000466864	retained_intron	KNOWN	None	42398	None	None	31958829	31962310	1	None	None
HSCHR6_MHC_SSTO	C4B_2	ENSG00000233312	ENST00000496446	processed_transcript	KNOWN	None	42398	None	None	31960627	31962310	1	None	None
HSCHR6_MHC_SSTO	C4B_2	ENSG00000233312	ENST00000463341	retained_intron	KNOWN	None	42398	None	None	31960756	31961894	1	None	None
HSCHR6_MHC_SSTO	C4B_2	ENSG00000233312	ENST00000492701	processed_transcript	KNOWN	None	42398	None	None	31960889	31961497	1	None	None
HSCHR6_MHC_SSTO	C4B_2	ENSG00000233312	ENST00000552464	protein_coding	KNOWN	None	42398	5097	1698	31941697	31962300	1	None	None
4	None	ENSG00000249988	ENST00000514863	lincRNA	KNOWN	None	None	None	None	14166079	14244437	1	None	None
4	None	ENSG00000249988	ENST00000505628	lincRNA	KNOWN	None	None	None	None	14236873	14244436	1	None	None
5	GALNT10	ENSG00000164574	ENST00000425427	protein_coding	KNOWN	None	19873	1101	366	153570290	153769141	1	None	DKFZp586H0623
5	GALNT10	ENSG00000164574	ENST00000297107	protein_coding	KNOWN	CCDS4325	19873	1812	603	153570290	153800544	1	None	DKFZp586H0623
5	GALNT10	ENSG00000164574	ENST00000520647	nonsense_mediated_decay	KNOWN	None	19873	609	202	153570295	153798572	1	None	DKFZp586H0623
5	GALNT10	ENSG00000164574	ENST00000521786	processed_transcript	KNOWN	None	19873	None	None	153570308	153599234	1	None	DKFZp586H0623
5	GALNT10	ENSG00000164574	ENST00000377661	protein_coding	KNOWN	None	19873	1626	541	153570334	153798591	1	None	DKFZp586H0623
5	GALNT10	ENSG00000164574	ENST00000521781	processed_transcript	KNOWN	None	19873	None	None	153570557	153755980	1	None	DKFZp586H0623
5	GALNT10	ENSG00000164574	ENST00000519571	processed_transcript	KNOWN	None	19873	None	None	153667030	153755927	1	None	DKFZp586H0623
5	GALNT10	ENSG00000164574	ENST00000519544	processed_transcript	KNOWN	None	19873	None	None	153755877	153785816	1	None	DKFZp586H0623
5	GALNT10	ENSG00000164574	ENST00000519235	processed_transcript	KNOWN	None	19873	None	None	153782350	153789199	1	None	DKFZp586H0623
5	GALNT10	ENSG00000164574	ENST00000517958	retained_intron	KNOWN	None	19873	None	None	153783337	153798593	1	None	DKFZp586H0623
5	GALNT10	ENSG00000164574	ENST00000377657	protein_coding	KNOWN	None	19873	831	276	153783595	153800541	1	None	DKFZp586H0623
HSCHR6_MHC_SSTO	None	ENSG00000264867	ENST00000577274	miRNA	NOVEL	None	None	None	None	33321904	33321964	-1	None	None
HSCHR6_MHC_MANN	OR2H5P	ENSG00000225034	ENST00000413671	unprocessed_pseudogene	KNOWN	None	8256	None	None	29541315	29542242	1	None	OR2H5, hs6M1-13, HS271M21
20	ADNP	ENSG00000101126	ENST00000371602	protein_coding	KNOWN	CCDS13433	15766	3309	1102	49505585	49520853	-1	None	KIAA0784, ADNP1
20	ADNP	ENSG00000101126	ENST00000349014	protein_coding	KNOWN	CCDS13433	15766	3309	1102	49505585	49526328	-1	None	KIAA0784, ADNP1
20	ADNP	ENSG00000101126	ENST00000396029	protein_coding	KNOWN	CCDS13433	15766	3309	1102	49505585	49547750	-1	None	KIAA0784, ADNP1
20	ADNP	ENSG00000101126	ENST00000396032	protein_coding	KNOWN	CCDS13433	15766	3309	1102	49506840	49547958	-1	None	KIAA0784, ADNP1
20	ADNP	ENSG00000101126	ENST00000534467	protein_coding	KNOWN	None	15766	518	171	49510733	49545353	-1	None	KIAA0784, ADNP1
15	HAPLN3	ENSG00000140511	ENST00000359595	protein_coding	KNOWN	CCDS10346	21446	1083	360	89420519	89438857	-1	EXLD1	HsT19883
15	HAPLN3	ENSG00000140511	ENST00000558770	nonsense_mediated_decay	KNOWN	None	21446	561	186	89420526	89438762	-1	EXLD1	HsT19883
15	HAPLN3	ENSG00000140511	ENST00000562889	protein_coding	NOVEL	None	21446	1269	422	89421062	89438828	-1	EXLD1	HsT19883
15	HAPLN3	ENSG00000140511	ENST00000562281	protein_coding	PUTATIVE	None	21446	679	225	89422350	89438764	-1	EXLD1	HsT19883
15	HAPLN3	ENSG00000140511	ENST00000563808	retained_intron	KNOWN	None	21446	None	None	89424376	89438744	-1	EXLD1	HsT19883
HSCHR6_MHC_SSTO	ZNF70P1	ENSG00000225696	ENST00000420935	processed_pseudogene	KNOWN	None	13846	None	None	33322791	33323414	1	ZNF314P	dJ1033B10.7, bCX269C15.3
17	MAP2K4	ENSG00000065559	ENST00000353533	protein_coding	KNOWN	CCDS11162	6844	1200	399	11924141	12047140	1	SERK1	MEK4, JNKK1, PRKMK4, MKK4
17	MAP2K4	ENSG00000065559	ENST00000582183	nonsense_mediated_decay	KNOWN	None	6844	138	45	11924146	12016635	1	SERK1	MEK4, JNKK1, PRKMK4, MKK4
17	MAP2K4	ENSG00000065559	ENST00000415385	protein_coding	KNOWN	None	6844	1233	410	11924151	12047147	1	SERK1	MEK4, JNKK1, PRKMK4, MKK4
17	MAP2K4	ENSG00000065559	ENST00000602811	nonsense_mediated_decay	KNOWN	None	6844	126	41	11924187	12044599	1	SERK1	MEK4, JNKK1, PRKMK4, MKK4
17	MAP2K4	ENSG00000065559	ENST00000602375	nonsense_mediated_decay	KNOWN	None	6844	279	92	11924187	12044599	1	SERK1	MEK4, JNKK1, PRKMK4, MKK4
17	MAP2K4	ENSG00000065559	ENST00000602305	nonsense_mediated_decay	KNOWN	None	6844	138	45	11924187	12044599	1	SERK1	MEK4, JNKK1, PRKMK4, MKK4
17	MAP2K4	ENSG00000065559	ENST00000602686	nonsense_mediated_decay	KNOWN	None	6844	126	41	11924204	12044577	1	SERK1	MEK4, JNKK1, PRKMK4, MKK4
17	MAP2K4	ENSG00000065559	ENST00000602537	nonsense_mediated_decay	KNOWN	None	6844	126	41	11924204	12044577	1	SERK1	MEK4, JNKK1, PRKMK4, MKK4
17	MAP2K4	ENSG00000065559	ENST00000538465	nonsense_mediated_decay	KNOWN	None	6844	49	15	11924293	12044938	1	SERK1	MEK4, JNKK1, PRKMK4, MKK4
17	MAP2K4	ENSG00000065559	ENST00000582897	protein_coding	PUTATIVE	None	6844	159	52	11930204	11999011	1	SERK1	MEK4, JNKK1, PRKMK4, MKK4
17	MAP2K4	ENSG00000065559	ENST00000581941	protein_coding	PUTATIVE	None	6844	484	160	11972974	12028635	1	SERK1	MEK4, JNKK1, PRKMK4, MKK4
17	MAP2K4	ENSG00000065559	ENST00000579089	protein_coding	PUTATIVE	None	6844	486	161	11973073	12028667	1	SERK1	MEK4, JNKK1, PRKMK4, MKK4
17	MAP2K4	ENSG00000065559	ENST00000582377	retained_intron	KNOWN	None	6844	None	None	11998919	12014126	1	SERK1	MEK4, JNKK1, PRKMK4, MKK4
17	MAP2K4	ENSG00000065559	ENST00000585076	retained_intron	KNOWN	None	6844	None	None	12016357	12032599	1	SERK1	MEK4, JNKK1, PRKMK4, MKK4
17	MAP2K4	ENSG00000065559	ENST00000536413	retained_intron	KNOWN	None	6844	None	None	12027616	12047047	1	SERK1	MEK4, JNKK1, PRKMK4, MKK4
HSCHR6_MHC_SSTO	None	ENSG00000257266	ENST00000548393	pseudogene	NOVEL	None	None	None	None	33344436	33344689	1	None	None
HSCHR6_MHC_MANN	TMEM183AP1	ENSG00000224241	ENST00000430240	processed_pseudogene	KNOWN	None	33458	None	None	29544866	29545155	1	None	BPG126D10.10, OTTHUMG00000086663
19	CEACAM3	ENSG00000170956	ENST00000357396	protein_coding	KNOWN	CCDS12586	1815	759	252	42300369	42315591	1	CGM1	CD66d
19	CEACAM3	ENSG00000170956	ENST00000595255	processed_transcript	KNOWN	None	1815	None	None	42300522	42313659	1	CGM1	CD66d
19	CEACAM3	ENSG00000170956	ENST00000599305	retained_intron	KNOWN	None	1815	None	None	42300534	42301968	1	CGM1	CD66d
19	CEACAM3	ENSG00000170956	ENST00000415495	nonsense_mediated_decay	KNOWN	None	1815	534	177	42300549	42315591	1	CGM1	CD66d
19	CEACAM3	ENSG00000170956	ENST00000344550	protein_coding	KNOWN	None	1815	639	212	42300556	42315589	1	CGM1	CD66d
19	CEACAM3	ENSG00000170956	ENST00000596544	protein_coding	PUTATIVE	None	1815	297	98	42301085	42301873	1	CGM1	CD66d
19	CEACAM3	ENSG00000170956	ENST00000599662	processed_transcript	KNOWN	None	1815	None	None	42312851	42314069	1	CGM1	CD66d
19	CEACAM3	ENSG00000170956	ENST00000221999	protein_coding	KNOWN	None	1815	639	212	42300534	42315591	1	CGM1	CD66d
7	UBE3C	ENSG00000009335	ENST00000348165	protein_coding	KNOWN	CCDS34789	16803	3252	1083	156931607	157062066	1	None	KIAA0010, KIAA10
7	UBE3C	ENSG00000009335	ENST00000389103	protein_coding	KNOWN	None	16803	1215	404	156931889	156981988	1	None	KIAA0010, KIAA10
7	UBE3C	ENSG00000009335	ENST00000430750	nonsense_mediated_decay	KNOWN	None	16803	171	56	156931973	156963144	1	None	KIAA0010, KIAA10
7	UBE3C	ENSG00000009335	ENST00000469336	retained_intron	KNOWN	None	16803	None	None	157000207	157009939	1	None	KIAA0010, KIAA10
7	UBE3C	ENSG00000009335	ENST00000470408	retained_intron	KNOWN	None	16803	None	None	157013362	157061810	1	None	KIAA0010, KIAA10
7	UBE3C	ENSG00000009335	ENST00000497368	retained_intron	KNOWN	None	16803	None	None	157018194	157024509	1	None	KIAA0010, KIAA10
7	UBE3C	ENSG00000009335	ENST00000494532	retained_intron	KNOWN	None	16803	None	None	157018196	157041318	1	None	KIAA0010, KIAA10
7	UBE3C	ENSG00000009335	ENST00000474153	retained_intron	KNOWN	None	16803	None	None	157049381	157060370	1	None	KIAA0010, KIAA10
1	FAM72B	ENSG00000188610	ENST00000480765	processed_transcript	KNOWN	None	24805	None	None	120837756	120838678	1	None	RP11-439A17.6
1	FAM72B	ENSG00000188610	ENST00000471903	processed_transcript	KNOWN	None	24805	None	None	120837784	120854742	1	None	RP11-439A17.6
1	FAM72B	ENSG00000188610	ENST00000369390	protein_coding	KNOWN	CCDS41374	24805	450	149	120839005	120855681	1	None	RP11-439A17.6
1	FAM72B	ENSG00000188610	ENST00000468129	processed_transcript	KNOWN	None	24805	None	None	120839007	120846031	1	None	RP11-439A17.6
1	FAM72B	ENSG00000188610	ENST00000452190	protein_coding	KNOWN	None	24805	361	119	120839031	120854584	1	None	RP11-439A17.6
1	FAM72B	ENSG00000188610	ENST00000355228	protein_coding	KNOWN	None	24805	330	109	120839412	120855607	1	None	RP11-439A17.6
HSCHR6_MHC_SSTO	None	ENSG00000234251	ENST00000436166	processed_pseudogene	NOVEL	None	None	None	None	33344878	33346777	1	None	None
19	RDH8	ENSG00000080511	ENST00000591589	protein_coding	KNOWN	CCDS12223	14423	996	331	10123925	10132955	1	None	PRRDH, SDR28C2
19	RDH8	ENSG00000080511	ENST00000589570	retained_intron	KNOWN	None	14423	None	None	10127842	10131764	1	None	PRRDH, SDR28C2
19	RDH8	ENSG00000080511	ENST00000587782	protein_coding	PUTATIVE	None	14423	238	78	10131437	10132746	1	None	PRRDH, SDR28C2
19	RDH8	ENSG00000080511	ENST00000171214	protein_coding	KNOWN	None	14423	936	311	10123925	10132954	1	None	PRRDH, SDR28C2
1	UTP11L	ENSG00000183520	ENST00000483182	processed_transcript	KNOWN	None	24329	None	None	38474930	38484781	1	None	CGI-94
1	UTP11L	ENSG00000183520	ENST00000486563	processed_transcript	KNOWN	None	24329	None	None	38478406	38482648	1	None	CGI-94
1	UTP11L	ENSG00000183520	ENST00000373014	protein_coding	KNOWN	CCDS429	24329	762	253	38478414	38490496	1	None	CGI-94
1	UTP11L	ENSG00000183520	ENST00000488453	processed_transcript	KNOWN	None	24329	None	None	38482255	38489473	1	None	CGI-94
1	UTP11L	ENSG00000183520	ENST00000537711	protein_coding	KNOWN	None	24329	447	148	38478451	38489520	1	None	CGI-94
HSCHR6_MHC_MANN	None	ENSG00000265663	ENST00000578141	snoRNA	KNOWN	None	None	None	None	29549656	29549739	1	None	None
HSCHR6_MHC_MANN	RPL13AP	ENSG00000224146	ENST00000439361	processed_pseudogene	KNOWN	None	13977	None	None	29549915	29550432	1	None	RPL13Ap, dJ271M21.3
4	None	ENSG00000251412	ENST00000507932	lincRNA	KNOWN	None	None	None	None	14384747	14410702	-1	None	None
HSCHR6_MHC_SSTO	HCG25	ENSG00000231573	ENST00000440216	processed_transcript	KNOWN	None	20196	None	None	33356678	33362085	1	None	dJ1033B10.16
HSCHR6_MHC_SSTO	HCG25	ENSG00000231573	ENST00000438875	processed_transcript	KNOWN	None	20196	None	None	33356728	33359083	1	None	dJ1033B10.16
HSCHR6_MHC_SSTO	HCG25	ENSG00000231573	ENST00000431605	processed_transcript	KNOWN	None	20196	None	None	33356740	33362130	1	None	dJ1033B10.16
HSCHR6_MHC_SSTO	HCG25	ENSG00000231573	ENST00000416814	processed_transcript	KNOWN	None	20196	None	None	33357423	33358779	1	None	dJ1033B10.16
9	BAG1	ENSG00000107262	ENST00000493917	processed_transcript	KNOWN	None	937	None	None	33247818	33256804	-1	None	None
9	BAG1	ENSG00000107262	ENST00000379701	retained_intron	KNOWN	None	937	None	None	33255023	33260439	-1	None	None
9	BAG1	ENSG00000107262	ENST00000467389	processed_transcript	KNOWN	None	937	None	None	33255023	33260486	-1	None	None
9	BAG1	ENSG00000107262	ENST00000379707	nonsense_mediated_decay	KNOWN	None	937	483	160	33255047	33264675	-1	None	None
9	BAG1	ENSG00000107262	ENST00000379704	protein_coding	KNOWN	CCDS55301	937	693	230	33255076	33264761	-1	None	None
9	BAG1	ENSG00000107262	ENST00000468274	retained_intron	KNOWN	None	937	None	None	33255862	33257669	-1	None	None
9	BAG1	ENSG00000107262	ENST00000473464	processed_transcript	KNOWN	None	937	None	None	33257718	33259030	-1	None	None
9	BAG1	ENSG00000107262	ENST00000473781	protein_coding	NOVEL	None	937	451	149	33258917	33264557	-1	None	None
9	BAG1	ENSG00000107262	ENST00000488499	protein_coding	NOVEL	None	937	144	47	33262739	33264668	-1	None	None
9	BAG1	ENSG00000107262	ENST00000472232	protein_coding	KNOWN	CCDS35004	937	1038	345	33252477	33264759	-1	None	None
18	RBBP8	ENSG00000101773	ENST00000583700	protein_coding	KNOWN	None	9891	32	9	20378224	20516846	1	SCKL2	CtIP, RIM, COM1
18	RBBP8	ENSG00000101773	ENST00000579124	protein_coding	KNOWN	None	9891	193	63	20494084	20529621	1	SCKL2	CtIP, RIM, COM1
18	RBBP8	ENSG00000101773	ENST00000577588	protein_coding	KNOWN	None	9891	89	28	20494086	20516903	1	SCKL2	CtIP, RIM, COM1
18	RBBP8	ENSG00000101773	ENST00000582354	protein_coding	KNOWN	None	9891	616	204	20494086	20564860	1	SCKL2	CtIP, RIM, COM1
18	RBBP8	ENSG00000101773	ENST00000581819	protein_coding	KNOWN	None	9891	253	83	20494102	20548773	1	SCKL2	CtIP, RIM, COM1
18	RBBP8	ENSG00000101773	ENST00000327155	protein_coding	KNOWN	CCDS11875	9891	2694	897	20513278	20606449	1	SCKL2	CtIP, RIM, COM1
18	RBBP8	ENSG00000101773	ENST00000399722	protein_coding	KNOWN	CCDS11875	9891	2694	897	20513789	20606451	1	SCKL2	CtIP, RIM, COM1
18	RBBP8	ENSG00000101773	ENST00000399725	protein_coding	KNOWN	CCDS11874	9891	2604	867	20513804	20606449	1	SCKL2	CtIP, RIM, COM1
18	RBBP8	ENSG00000101773	ENST00000399721	protein_coding	KNOWN	None	9891	1742	579	20513839	20573532	1	SCKL2	CtIP, RIM, COM1
18	RBBP8	ENSG00000101773	ENST00000583594	protein_coding	PUTATIVE	None	9891	168	55	20513844	20517081	1	SCKL2	CtIP, RIM, COM1
18	RBBP8	ENSG00000101773	ENST00000360790	protein_coding	NOVEL	None	9891	2709	902	20514713	20606333	1	SCKL2	CtIP, RIM, COM1
18	RBBP8	ENSG00000101773	ENST00000580892	retained_intron	KNOWN	None	9891	None	None	20526302	20529998	1	SCKL2	CtIP, RIM, COM1
18	RBBP8	ENSG00000101773	ENST00000577445	protein_coding	PUTATIVE	None	9891	480	159	20548805	20570907	1	SCKL2	CtIP, RIM, COM1
18	RBBP8	ENSG00000101773	ENST00000585177	processed_transcript	KNOWN	None	9891	None	None	20555144	20570989	1	SCKL2	CtIP, RIM, COM1
18	RBBP8	ENSG00000101773	ENST00000583057	protein_coding	PUTATIVE	None	9891	975	324	20573447	20606430	1	SCKL2	CtIP, RIM, COM1
18	RBBP8	ENSG00000101773	ENST00000581687	protein_coding	PUTATIVE	None	9891	228	75	20596759	20606451	1	SCKL2	CtIP, RIM, COM1
HSCHR6_MHC_MANN	SUMO2P1	ENSG00000228130	ENST00000436431	processed_pseudogene	KNOWN	None	13985	None	None	29603405	29603688	-1	SMT3H2P, SUMO2P	SMT3Bp, dJ271M21
HSCHR6_MHC_MANN	SUMO2P1	ENSG00000228130	ENST00000548289	pseudogene	KNOWN	None	13985	None	None	29603405	29603688	-1	SMT3H2P, SUMO2P	SMT3Bp, dJ271M21
6	VARS2	ENSG00000137411	ENST00000477288	retained_intron	KNOWN	None	21642	None	None	30876019	30894236	1	VARS2L, VARSL	DKFZP434L1435, KIAA1885, G7a
6	VARS2	ENSG00000137411	ENST00000321897	protein_coding	KNOWN	CCDS34387	21642	3192	1063	30881982	30894236	1	VARS2L, VARSL	DKFZP434L1435, KIAA1885, G7a
6	VARS2	ENSG00000137411	ENST00000428017	protein_coding	KNOWN	None	21642	978	325	30882029	30885576	1	VARS2L, VARSL	DKFZP434L1435, KIAA1885, G7a
6	VARS2	ENSG00000137411	ENST00000467717	processed_transcript	KNOWN	None	21642	None	None	30882043	30885583	1	VARS2L, VARSL	DKFZP434L1435, KIAA1885, G7a
6	VARS2	ENSG00000137411	ENST00000421263	protein_coding	KNOWN	None	21642	345	114	30882159	30883193	1	VARS2L, VARSL	DKFZP434L1435, KIAA1885, G7a
6	VARS2	ENSG00000137411	ENST00000490699	retained_intron	KNOWN	None	21642	None	None	30884205	30885538	1	VARS2L, VARSL	DKFZP434L1435, KIAA1885, G7a
6	VARS2	ENSG00000137411	ENST00000469358	retained_intron	KNOWN	None	21642	None	None	30886541	30894236	1	VARS2L, VARSL	DKFZP434L1435, KIAA1885, G7a
6	VARS2	ENSG00000137411	ENST00000476162	processed_transcript	KNOWN	None	21642	None	None	30887603	30894236	1	VARS2L, VARSL	DKFZP434L1435, KIAA1885, G7a
6	VARS2	ENSG00000137411	ENST00000477052	retained_intron	KNOWN	None	21642	None	None	30890360	30891282	1	VARS2L, VARSL	DKFZP434L1435, KIAA1885, G7a
6	VARS2	ENSG00000137411	ENST00000473916	retained_intron	KNOWN	None	21642	None	None	30890985	30894236	1	VARS2L, VARSL	DKFZP434L1435, KIAA1885, G7a
6	VARS2	ENSG00000137411	ENST00000541562	protein_coding	KNOWN	CCDS54980	21642	3282	1093	30882108	30894233	1	VARS2L, VARSL	DKFZP434L1435, KIAA1885, G7a
6	VARS2	ENSG00000137411	ENST00000416670	protein_coding	KNOWN	CCDS34387	21642	3192	1063	30881982	30894233	1	VARS2L, VARSL	DKFZP434L1435, KIAA1885, G7a
6	VARS2	ENSG00000137411	ENST00000542001	protein_coding	KNOWN	CCDS54981	21642	2772	923	30881982	30894233	1	VARS2L, VARSL	DKFZP434L1435, KIAA1885, G7a
12	CRADD	ENSG00000169372	ENST00000552983	protein_coding	PUTATIVE	None	2340	393	130	94071151	94132412	1	None	RAIDD
12	CRADD	ENSG00000169372	ENST00000549615	processed_transcript	KNOWN	None	2340	None	None	94071151	94240303	1	None	RAIDD
12	CRADD	ENSG00000169372	ENST00000332896	protein_coding	KNOWN	CCDS9048	2340	600	199	94071151	94244512	1	None	RAIDD
12	CRADD	ENSG00000169372	ENST00000552033	protein_coding	PUTATIVE	None	2340	348	115	94071153	94132401	1	None	RAIDD
12	CRADD	ENSG00000169372	ENST00000548483	protein_coding	PUTATIVE	None	2340	366	121	94071175	94288503	1	None	RAIDD
12	CRADD	ENSG00000169372	ENST00000551065	nonsense_mediated_decay	KNOWN	None	2340	312	103	94071175	94288616	1	None	RAIDD
12	CRADD	ENSG00000169372	ENST00000542893	protein_coding	KNOWN	CCDS9048	2340	600	199	94071493	94244532	1	None	RAIDD
12	CRADD	ENSG00000169372	ENST00000547383	processed_transcript	KNOWN	None	2340	None	None	94127335	94132412	1	None	RAIDD
12	CRADD	ENSG00000169372	ENST00000550030	processed_transcript	PUTATIVE	None	2340	None	None	94220495	94244471	1	None	RAIDD
12	CRADD	ENSG00000169372	ENST00000548330	processed_transcript	PUTATIVE	None	2340	None	None	94242436	94244532	1	None	RAIDD
12	CRADD	ENSG00000169372	ENST00000541813	protein_coding	KNOWN	None	2340	366	121	94072551	94287893	1	None	RAIDD
HSCHR6_MHC_MANN	ZDHHC20P1	ENSG00000226303	ENST00000450999	processed_pseudogene	KNOWN	None	33456	None	None	29675447	29675869	-1	None	OTTHUMG00000086707
HSCHR6_MHC_MANN	HCG4P11	ENSG00000229573	ENST00000445800	unprocessed_pseudogene	KNOWN	None	22930	None	None	29687866	29688856	-1	None	HCGIV-11, HCGIV.10
6	NRSN1	ENSG00000152954	ENST00000378491	protein_coding	KNOWN	CCDS4549	17881	588	195	24126350	24147639	1	VMP	p24
6	NRSN1	ENSG00000152954	ENST00000463207	processed_transcript	KNOWN	None	17881	None	None	24126439	24129925	1	VMP	p24
6	NRSN1	ENSG00000152954	ENST00000475830	processed_transcript	KNOWN	None	17881	None	None	24126459	24129540	1	VMP	p24
6	NRSN1	ENSG00000152954	ENST00000378477	protein_coding	KNOWN	None	17881	518	171	24126468	24146104	1	VMP	p24
6	NRSN1	ENSG00000152954	ENST00000468195	processed_transcript	KNOWN	None	17881	None	None	24128371	24155128	1	VMP	p24
6	NRSN1	ENSG00000152954	ENST00000378475	protein_coding	KNOWN	None	17881	441	146	24134545	24141751	1	VMP	p24
6	NRSN1	ENSG00000152954	ENST00000378478	protein_coding	KNOWN	None	17881	441	146	24126350	24141403	1	VMP	p24
22	PANX2	ENSG00000073150	ENST00000159647	protein_coding	NOVEL	CCDS54544	8600	1932	643	50609160	50618721	1	None	hPANX2, PX2
22	PANX2	ENSG00000073150	ENST00000395842	protein_coding	KNOWN	CCDS14085	8600	2034	677	50609160	50618723	1	None	hPANX2, PX2
22	PANX2	ENSG00000073150	ENST00000402472	nonsense_mediated_decay	KNOWN	None	8600	234	77	50609190	50618027	1	None	hPANX2, PX2
1	POU3F1	ENSG00000185668	ENST00000373012	protein_coding	KNOWN	CCDS30679	9214	1356	451	38509523	38512450	-1	OTF6	OCT6, SCIP
2	NOSTRIN	ENSG00000163072	ENST00000458381	protein_coding	NOVEL	CCDS54415	20203	1692	563	169643049	169721565	1	None	MGC20702
2	NOSTRIN	ENSG00000163072	ENST00000317647	protein_coding	KNOWN	CCDS42771	20203	1521	506	169658928	169722024	1	None	MGC20702
2	NOSTRIN	ENSG00000163072	ENST00000439509	nonsense_mediated_decay	KNOWN	None	20203	294	97	169659102	169688043	1	None	MGC20702
2	NOSTRIN	ENSG00000163072	ENST00000445023	protein_coding	NOVEL	CCDS42772	20203	1287	428	169659107	169721564	1	None	MGC20702
2	NOSTRIN	ENSG00000163072	ENST00000397206	protein_coding	KNOWN	CCDS42772	20203	1287	428	169659146	169721480	1	None	MGC20702
2	NOSTRIN	ENSG00000163072	ENST00000471833	retained_intron	KNOWN	None	20203	None	None	169659149	169668594	1	None	MGC20702
2	NOSTRIN	ENSG00000163072	ENST00000397209	protein_coding	NOVEL	CCDS54416	20203	1437	478	169659157	169721480	1	None	MGC20702
2	NOSTRIN	ENSG00000163072	ENST00000421711	protein_coding	NOVEL	CCDS54416	20203	1437	478	169659157	169721480	1	None	MGC20702
2	NOSTRIN	ENSG00000163072	ENST00000447264	protein_coding	PUTATIVE	None	20203	495	164	169667844	169707692	1	None	MGC20702
2	NOSTRIN	ENSG00000163072	ENST00000486873	retained_intron	KNOWN	None	20203	None	None	169699562	169712164	1	None	MGC20702
2	NOSTRIN	ENSG00000163072	ENST00000427068	nonsense_mediated_decay	KNOWN	None	20203	62	19	169711932	169716043	1	None	MGC20702
2	NOSTRIN	ENSG00000163072	ENST00000472260	retained_intron	KNOWN	None	20203	None	None	169712196	169721564	1	None	MGC20702
2	NOSTRIN	ENSG00000163072	ENST00000495202	retained_intron	KNOWN	None	20203	None	None	169715619	169717348	1	None	MGC20702
2	NOSTRIN	ENSG00000163072	ENST00000444448	protein_coding	KNOWN	CCDS54415	20203	1692	563	169654661	169721849	1	None	MGC20702
1	FCGR1B	ENSG00000198019	ENST00000369384	protein_coding	KNOWN	CCDS30821	3614	843	280	120926979	120935937	-1	None	CD64b
1	FCGR1B	ENSG00000198019	ENST00000369383	protein_coding	KNOWN	CCDS30820	3614	567	188	120927134	120935894	-1	None	CD64b
1	FCGR1B	ENSG00000198019	ENST00000369178	processed_transcript	KNOWN	None	3614	None	None	120927162	120935876	-1	None	CD64b
1	FCGR1B	ENSG00000198019	ENST00000466915	processed_transcript	KNOWN	None	3614	None	None	120927199	120928384	-1	None	CD64b
1	FCGR1B	ENSG00000198019	ENST00000472543	processed_transcript	KNOWN	None	3614	None	None	120927355	120935931	-1	None	CD64b
1	FCGR1B	ENSG00000198019	ENST00000471609	processed_transcript	KNOWN	None	3614	None	None	120928278	120935902	-1	None	CD64b
17	DNAH17	ENSG00000187775	ENST00000591369	nonsense_mediated_decay	KNOWN	None	2946	4691	1562	76419778	76468856	-1	DNAHL1	DNEL2, FLJ40457
17	DNAH17	ENSG00000187775	ENST00000585328	protein_coding	PUTATIVE	None	2946	13374	4457	76419778	76573476	-1	DNAHL1	DNEL2, FLJ40457
17	DNAH17	ENSG00000187775	ENST00000590227	retained_intron	KNOWN	None	2946	None	None	76419781	76446380	-1	DNAHL1	DNEL2, FLJ40457
17	DNAH17	ENSG00000187775	ENST00000586052	processed_transcript	KNOWN	None	2946	None	None	76419986	76487572	-1	DNAHL1	DNEL2, FLJ40457
17	DNAH17	ENSG00000187775	ENST00000591647	retained_intron	KNOWN	None	2946	None	None	76421605	76422801	-1	DNAHL1	DNEL2, FLJ40457
17	DNAH17	ENSG00000187775	ENST00000586850	processed_transcript	PUTATIVE	None	2946	None	None	76422568	76425321	-1	DNAHL1	DNEL2, FLJ40457
17	DNAH17	ENSG00000187775	ENST00000592192	processed_transcript	KNOWN	None	2946	None	None	76423009	76424632	-1	DNAHL1	DNEL2, FLJ40457
17	DNAH17	ENSG00000187775	ENST00000592152	processed_transcript	KNOWN	None	2946	None	None	76447578	76454970	-1	DNAHL1	DNEL2, FLJ40457
17	DNAH17	ENSG00000187775	ENST00000587177	retained_intron	KNOWN	None	2946	None	None	76498225	76506753	-1	DNAHL1	DNEL2, FLJ40457
17	DNAH17	ENSG00000187775	ENST00000589793	retained_intron	KNOWN	None	2946	None	None	76539837	76567404	-1	DNAHL1	DNEL2, FLJ40457
17	DNAH17	ENSG00000187775	ENST00000389840	protein_coding	KNOWN	None	2946	13458	4485	76419778	76573476	-1	DNAHL1	DNEL2, FLJ40457
HSCHR6_MHC_MANN	None	ENSG00000226378	ENST00000450611	processed_transcript	KNOWN	None	None	None	None	29699925	29713881	-1	None	None
HSCHR6_MHC_MANN	None	ENSG00000226378	ENST00000432068	processed_transcript	KNOWN	None	None	None	None	29691488	29713937	-1	None	None
HSCHR6_MHC_MANN	None	ENSG00000226378	ENST00000432740	processed_transcript	KNOWN	None	None	None	None	29702646	29703331	-1	None	None
HSCHR6_MHC_MANN	None	ENSG00000226378	ENST00000549439	processed_transcript	KNOWN	None	None	None	None	29691488	29713937	-1	None	None
6	OARD1	ENSG00000124596	ENST00000482853	nonsense_mediated_decay	KNOWN	None	21257	232	76	41001366	41038956	-1	C6orf130	MGC19570, dJ34B21.3, TARG1
6	OARD1	ENSG00000124596	ENST00000479950	protein_coding	KNOWN	CCDS34445	21257	459	152	41032517	41040330	-1	C6orf130	MGC19570, dJ34B21.3, TARG1
6	OARD1	ENSG00000124596	ENST00000463088	protein_coding	KNOWN	CCDS34445	21257	459	152	41034214	41040228	-1	C6orf130	MGC19570, dJ34B21.3, TARG1
6	OARD1	ENSG00000124596	ENST00000373154	protein_coding	PUTATIVE	None	21257	261	86	41034527	41040268	-1	C6orf130	MGC19570, dJ34B21.3, TARG1
6	OARD1	ENSG00000124596	ENST00000424266	protein_coding	KNOWN	CCDS34445	21257	459	152	41034540	41040277	-1	C6orf130	MGC19570, dJ34B21.3, TARG1
6	OARD1	ENSG00000124596	ENST00000480585	protein_coding	PUTATIVE	None	21257	261	86	41034678	41065497	-1	C6orf130	MGC19570, dJ34B21.3, TARG1
6	OARD1	ENSG00000124596	ENST00000482515	protein_coding	PUTATIVE	None	21257	234	77	41034866	41040353	-1	C6orf130	MGC19570, dJ34B21.3, TARG1
6	OARD1	ENSG00000124596	ENST00000464633	protein_coding	PUTATIVE	None	21257	234	77	41034885	41040273	-1	C6orf130	MGC19570, dJ34B21.3, TARG1
6	OARD1	ENSG00000124596	ENST00000468811	protein_coding	KNOWN	CCDS34445	21257	459	152	41034920	41039579	-1	C6orf130	MGC19570, dJ34B21.3, TARG1
6	OARD1	ENSG00000124596	ENST00000486443	protein_coding	PUTATIVE	None	21257	342	113	41034936	41040263	-1	C6orf130	MGC19570, dJ34B21.3, TARG1
6	OARD1	ENSG00000124596	ENST00000488238	protein_coding	KNOWN	None	21257	393	130	41035140	41065526	-1	C6orf130	MGC19570, dJ34B21.3, TARG1
6	OARD1	ENSG00000124596	ENST00000465893	retained_intron	KNOWN	None	21257	None	None	41036777	41040207	-1	C6orf130	MGC19570, dJ34B21.3, TARG1
6	OARD1	ENSG00000124596	ENST00000469104	protein_coding	PUTATIVE	None	21257	267	88	41038564	41040229	-1	C6orf130	MGC19570, dJ34B21.3, TARG1
6	OARD1	ENSG00000124596	ENST00000471367	protein_coding	PUTATIVE	None	21257	267	88	41038780	41040059	-1	C6orf130	MGC19570, dJ34B21.3, TARG1
6	OARD1	ENSG00000124596	ENST00000467234	processed_transcript	KNOWN	None	21257	None	None	41039238	41040302	-1	C6orf130	MGC19570, dJ34B21.3, TARG1
6	OARD1	ENSG00000124596	ENST00000244558	protein_coding	KNOWN	None	21257	126	41	41034528	41040268	-1	C6orf130	MGC19570, dJ34B21.3, TARG1
14	SRP54	ENSG00000100883	ENST00000556994	protein_coding	KNOWN	CCDS9652	11301	1515	504	35451163	35498773	1	None	None
14	SRP54	ENSG00000100883	ENST00000554803	protein_coding	KNOWN	None	11301	131	42	35451888	35468816	1	None	None
14	SRP54	ENSG00000100883	ENST00000555746	protein_coding	KNOWN	None	11301	222	73	35451907	35470193	1	None	None
14	SRP54	ENSG00000100883	ENST00000553544	retained_intron	KNOWN	None	11301	None	None	35452179	35466130	1	None	None
14	SRP54	ENSG00000100883	ENST00000555317	retained_intron	KNOWN	None	11301	None	None	35452198	35469072	1	None	None
14	SRP54	ENSG00000100883	ENST00000555557	protein_coding	PUTATIVE	None	11301	1323	440	35452231	35498660	1	None	None
14	SRP54	ENSG00000100883	ENST00000556380	nonsense_mediated_decay	KNOWN	None	11301	168	55	35452311	35482640	1	None	None
14	SRP54	ENSG00000100883	ENST00000555535	processed_transcript	KNOWN	None	11301	None	None	35462450	35473814	1	None	None
14	SRP54	ENSG00000100883	ENST00000553923	retained_intron	KNOWN	None	11301	None	None	35483964	35488597	1	None	None
14	SRP54	ENSG00000100883	ENST00000556445	retained_intron	KNOWN	None	11301	None	None	35487835	35488564	1	None	None
14	SRP54	ENSG00000100883	ENST00000556992	retained_intron	KNOWN	None	11301	None	None	35496936	35498341	1	None	None
14	SRP54	ENSG00000100883	ENST00000216774	protein_coding	KNOWN	CCDS9652	11301	1515	504	35452104	35498771	1	None	None
14	SRP54	ENSG00000100883	ENST00000546080	protein_coding	KNOWN	CCDS53893	11301	1368	455	35452104	35498771	1	None	None
1	RRAGC	ENSG00000116954	ENST00000373001	protein_coding	KNOWN	CCDS430	19902	1200	399	39303870	39325495	-1	None	GTR2, FLJ13311
1	RRAGC	ENSG00000116954	ENST00000474456	processed_transcript	KNOWN	None	19902	None	None	39305021	39313746	-1	None	GTR2, FLJ13311
1	RRAGC	ENSG00000116954	ENST00000493015	processed_transcript	KNOWN	None	19902	None	None	39311611	39322514	-1	None	GTR2, FLJ13311
1	RRAGC	ENSG00000116954	ENST00000496778	processed_transcript	KNOWN	None	19902	None	None	39317184	39318367	-1	None	GTR2, FLJ13311
6	NT5DC1	ENSG00000178425	ENST00000319550	protein_coding	KNOWN	CCDS5104	21556	1368	455	116422012	116570660	1	NT5C2L1	dJ486I3.1, MGC24302
6	NT5DC1	ENSG00000178425	ENST00000419791	protein_coding	KNOWN	None	21556	587	194	116422014	116466658	1	NT5C2L1	dJ486I3.1, MGC24302
6	NT5DC1	ENSG00000178425	ENST00000417846	protein_coding	KNOWN	None	21556	335	110	116432015	116439255	1	NT5C2L1	dJ486I3.1, MGC24302
6	NT5DC1	ENSG00000178425	ENST00000460749	nonsense_mediated_decay	KNOWN	None	21556	425	140	116439082	116560286	1	NT5C2L1	dJ486I3.1, MGC24302
5	FBXO38	ENSG00000145868	ENST00000340253	protein_coding	KNOWN	None	28844	3567	1188	147763498	147822399	1	None	MOKA, SP329, FLJ13962, Fbx38
5	FBXO38	ENSG00000145868	ENST00000503613	processed_transcript	KNOWN	None	28844	None	None	147763515	147781700	1	None	MOKA, SP329, FLJ13962, Fbx38
5	FBXO38	ENSG00000145868	ENST00000508326	retained_intron	KNOWN	None	28844	None	None	147763565	147782128	1	None	MOKA, SP329, FLJ13962, Fbx38
5	FBXO38	ENSG00000145868	ENST00000394370	protein_coding	KNOWN	CCDS43384	28844	3342	1113	147763565	147822399	1	None	MOKA, SP329, FLJ13962, Fbx38
5	FBXO38	ENSG00000145868	ENST00000509411	retained_intron	KNOWN	None	28844	None	None	147763572	147779100	1	None	MOKA, SP329, FLJ13962, Fbx38
5	FBXO38	ENSG00000145868	ENST00000511080	processed_transcript	KNOWN	None	28844	None	None	147763573	147796706	1	None	MOKA, SP329, FLJ13962, Fbx38
5	FBXO38	ENSG00000145868	ENST00000504971	processed_transcript	KNOWN	None	28844	None	None	147764327	147774425	1	None	MOKA, SP329, FLJ13962, Fbx38
5	FBXO38	ENSG00000145868	ENST00000521160	processed_transcript	KNOWN	None	28844	None	None	147774275	147782025	1	None	MOKA, SP329, FLJ13962, Fbx38
5	FBXO38	ENSG00000145868	ENST00000509699	processed_transcript	KNOWN	None	28844	None	None	147774275	147788783	1	None	MOKA, SP329, FLJ13962, Fbx38
5	FBXO38	ENSG00000145868	ENST00000513826	protein_coding	KNOWN	None	28844	2832	943	147774275	147822398	1	None	MOKA, SP329, FLJ13962, Fbx38
5	FBXO38	ENSG00000145868	ENST00000502629	retained_intron	KNOWN	None	28844	None	None	147778560	147781996	1	None	MOKA, SP329, FLJ13962, Fbx38
5	FBXO38	ENSG00000145868	ENST00000502571	retained_intron	KNOWN	None	28844	None	None	147784247	147790431	1	None	MOKA, SP329, FLJ13962, Fbx38
5	FBXO38	ENSG00000145868	ENST00000508670	retained_intron	KNOWN	None	28844	None	None	147789801	147793869	1	None	MOKA, SP329, FLJ13962, Fbx38
5	FBXO38	ENSG00000145868	ENST00000509273	retained_intron	KNOWN	None	28844	None	None	147792803	147796251	1	None	MOKA, SP329, FLJ13962, Fbx38
5	FBXO38	ENSG00000145868	ENST00000508485	processed_transcript	PUTATIVE	None	28844	None	None	147794923	147796778	1	None	MOKA, SP329, FLJ13962, Fbx38
5	FBXO38	ENSG00000145868	ENST00000514832	retained_intron	KNOWN	None	28844	None	None	147803312	147806833	1	None	MOKA, SP329, FLJ13962, Fbx38
5	FBXO38	ENSG00000145868	ENST00000505399	processed_transcript	KNOWN	None	28844	None	None	147807186	147820808	1	None	MOKA, SP329, FLJ13962, Fbx38
5	FBXO38	ENSG00000145868	ENST00000504447	retained_intron	KNOWN	None	28844	None	None	147812796	147814621	1	None	MOKA, SP329, FLJ13962, Fbx38
5	FBXO38	ENSG00000145868	ENST00000508176	retained_intron	KNOWN	None	28844	None	None	147819919	147821065	1	None	MOKA, SP329, FLJ13962, Fbx38
5	FBXO38	ENSG00000145868	ENST00000296701	protein_coding	KNOWN	None	28844	2832	943	147763546	147822390	1	None	MOKA, SP329, FLJ13962, Fbx38
HSCHR6_MHC_SSTO	DAXX	ENSG00000229396	ENST00000424891	processed_transcript	KNOWN	None	2681	None	None	33436114	33436363	-1	None	DAP6
HSCHR6_MHC_SSTO	DAXX	ENSG00000229396	ENST00000414388	processed_transcript	KNOWN	None	2681	None	None	33436114	33436396	-1	None	DAP6
16	FAM195A	ENSG00000172366	ENST00000307650	protein_coding	KNOWN	CCDS10415	14142	483	160	691813	698474	1	C16orf14	MGC15416
16	FAM195A	ENSG00000172366	ENST00000491999	nonsense_mediated_decay	KNOWN	None	14142	198	65	691846	698474	1	C16orf14	MGC15416
16	FAM195A	ENSG00000172366	ENST00000474840	nonsense_mediated_decay	KNOWN	None	14142	228	75	691929	698474	1	C16orf14	MGC15416
16	FAM195A	ENSG00000172366	ENST00000575894	retained_intron	KNOWN	None	14142	None	None	696747	698474	1	C16orf14	MGC15416
21	GRIK1-AS2	ENSG00000183653	ENST00000333765	protein_coding	KNOWN	None	1282	123	40	30968360	31003067	1	C21orf41, NCRNA00258	None
17	TCAP	ENSG00000173991	ENST00000309889	protein_coding	KNOWN	CCDS11342	11610	504	167	37820440	37822808	1	LGMD2G	T-cap, TELE, telethonin, CMD1N
17	TCAP	ENSG00000173991	ENST00000578283	protein_coding	NOVEL	None	11610	432	143	37821602	37822502	1	LGMD2G	T-cap, TELE, telethonin, CMD1N
20	SEC23B	ENSG00000101310	ENST00000450074	protein_coding	KNOWN	None	10702	993	330	18488137	18507175	1	CDAN2	CDA-II, CDAII, HEMPAS
20	SEC23B	ENSG00000101310	ENST00000262544	protein_coding	KNOWN	CCDS13137	10702	2304	767	18488199	18541766	1	CDAN2	CDA-II, CDAII, HEMPAS
20	SEC23B	ENSG00000101310	ENST00000336714	protein_coding	KNOWN	CCDS13137	10702	2304	767	18488199	18542059	1	CDAN2	CDA-II, CDAII, HEMPAS
20	SEC23B	ENSG00000101310	ENST00000377475	protein_coding	KNOWN	CCDS13137	10702	2304	767	18488223	18542059	1	CDAN2	CDA-II, CDAII, HEMPAS
20	SEC23B	ENSG00000101310	ENST00000474619	processed_transcript	KNOWN	None	10702	None	None	18488577	18491575	1	CDAN2	CDA-II, CDAII, HEMPAS
20	SEC23B	ENSG00000101310	ENST00000377465	protein_coding	KNOWN	CCDS13137	10702	2304	767	18488706	18542059	1	CDAN2	CDA-II, CDAII, HEMPAS
20	SEC23B	ENSG00000101310	ENST00000494645	processed_transcript	PUTATIVE	None	10702	None	None	18491621	18496628	1	CDAN2	CDA-II, CDAII, HEMPAS
20	SEC23B	ENSG00000101310	ENST00000422877	protein_coding	KNOWN	None	10702	741	246	18523012	18541477	1	CDAN2	CDA-II, CDAII, HEMPAS
HSCHR6_MHC_SSTO	RPL35AP4	ENSG00000226538	ENST00000457414	processed_pseudogene	KNOWN	None	33460	None	None	33496510	33496611	-1	None	BPG294E21.7, OTTHUMG00000140156
21	CLDN17	ENSG00000156282	ENST00000286808	protein_coding	KNOWN	CCDS13586	2038	675	224	31538241	31538971	-1	None	MGC126552, MGC126554
12	KRT3	ENSG00000186442	ENST00000417996	protein_coding	KNOWN	CCDS44895	6440	1887	628	53183469	53189901	-1	None	CK3, K3
12	KRT3	ENSG00000186442	ENST00000309505	protein_coding	KNOWN	None	6440	1890	629	53183470	53189892	-1	None	CK3, K3
HSCHR6_MHC_SSTO	RPL12P1	ENSG00000232733	ENST00000448702	processed_pseudogene	KNOWN	None	13976	None	None	33507198	33507695	-1	None	RPL12-L, dJ570F3.5, CICK0721Q.1
HSCHR6_MHC_SSTO	RPL12P1	ENSG00000232733	ENST00000549434	pseudogene	KNOWN	None	13976	None	None	33507198	33507695	-1	None	RPL12-L, dJ570F3.5, CICK0721Q.1
1	PPIAL4G	ENSG00000236334	ENST00000419275	protein_coding	KNOWN	CCDS41375	33996	495	164	143767144	143767881	-1	None	None
17	PNMT	ENSG00000141744	ENST00000394246	protein_coding	PUTATIVE	None	9160	555	184	37824234	37826726	1	PENT	None
17	PNMT	ENSG00000141744	ENST00000269582	protein_coding	KNOWN	CCDS11343	9160	849	282	37824411	37826728	1	PENT	None
17	PNMT	ENSG00000141744	ENST00000581428	protein_coding	PUTATIVE	None	9160	414	137	37824716	37826343	1	PENT	None
19	ALDH16A1	ENSG00000161618	ENST00000293350	protein_coding	KNOWN	CCDS12766	28114	2409	802	49956426	49974305	1	None	MGC10204
19	ALDH16A1	ENSG00000161618	ENST00000540132	protein_coding	PUTATIVE	None	28114	1920	639	49956482	49973791	1	None	MGC10204
19	ALDH16A1	ENSG00000161618	ENST00000599652	retained_intron	KNOWN	None	28114	None	None	49956483	49973845	1	None	MGC10204
19	ALDH16A1	ENSG00000161618	ENST00000455361	protein_coding	KNOWN	CCDS46141	28114	2256	751	49956493	49973842	1	None	MGC10204
19	ALDH16A1	ENSG00000161618	ENST00000593417	nonsense_mediated_decay	KNOWN	None	28114	312	103	49956545	49973844	1	None	MGC10204
19	ALDH16A1	ENSG00000161618	ENST00000598015	processed_transcript	KNOWN	None	28114	None	None	49956556	49962987	1	None	MGC10204
19	ALDH16A1	ENSG00000161618	ENST00000600265	nonsense_mediated_decay	KNOWN	None	28114	492	163	49967696	49972202	1	None	MGC10204
19	ALDH16A1	ENSG00000161618	ENST00000594549	retained_intron	KNOWN	None	28114	None	None	49971550	49973846	1	None	MGC10204
19	ALDH16A1	ENSG00000161618	ENST00000433981	protein_coding	KNOWN	None	28114	1914	637	49956545	49973844	1	None	MGC10204
21	CLDN8	ENSG00000156284	ENST00000399899	protein_coding	KNOWN	CCDS13587	2050	678	225	31586324	31588391	-1	None	None
21	CLDN8	ENSG00000156284	ENST00000286809	protein_coding	KNOWN	CCDS13587	2050	678	225	31586325	31588352	-1	None	None
1	FAM72D	ENSG00000215784	ENST00000400889	protein_coding	KNOWN	CCDS44204	33593	450	149	143896452	143913143	-1	None	None
HSCHR6_MHC_SSTO	MIR5004	ENSG00000266856	ENST00000578096	miRNA	KNOWN	None	43532	None	None	33545496	33545602	1	None	hsa-mir-5004
X	SASH3	ENSG00000122122	ENST00000476532	processed_transcript	KNOWN	None	15975	None	None	128913955	128922126	1	CXorf9	SLY, 753P9, SH3D6C, HACS2
X	SASH3	ENSG00000122122	ENST00000356892	protein_coding	KNOWN	CCDS14614	15975	1143	380	128913960	128929177	1	CXorf9	SLY, 753P9, SH3D6C, HACS2
HSCHR6_MHC_MANN	RPL23AP1	ENSG00000242039	ENST00000417214	processed_pseudogene	KNOWN	None	10318	None	None	29691556	29692026	-1	None	None
1	MYCBP	ENSG00000214114	ENST00000397572	protein_coding	KNOWN	CCDS431	7554	312	103	39328636	39339777	-1	None	AMY-1
1	MYCBP	ENSG00000214114	ENST00000494695	processed_transcript	KNOWN	None	7554	None	None	39329908	39339040	-1	None	AMY-1
1	MYCBP	ENSG00000214114	ENST00000495043	processed_transcript	KNOWN	None	7554	None	None	39330008	39338950	-1	None	AMY-1
1	MYCBP	ENSG00000214114	ENST00000489803	processed_transcript	KNOWN	None	7554	None	None	39330173	39347269	-1	None	AMY-1
1	MYCBP	ENSG00000214114	ENST00000489575	processed_transcript	KNOWN	None	7554	None	None	39330175	39347289	-1	None	AMY-1
1	MYCBP	ENSG00000214114	ENST00000465771	processed_transcript	KNOWN	None	7554	None	None	39330258	39338277	-1	None	AMY-1
1	MYCBP	ENSG00000214114	ENST00000462027	processed_transcript	KNOWN	None	7554	None	None	39332636	39340167	-1	None	AMY-1
16	DPEP2	ENSG00000167261	ENST00000393847	protein_coding	KNOWN	CCDS10857	23028	1461	486	68021297	68033356	-1	None	None
16	DPEP2	ENSG00000167261	ENST00000575203	nonsense_mediated_decay	KNOWN	None	23028	777	258	68021300	68034489	-1	None	None
16	DPEP2	ENSG00000167261	ENST00000572888	protein_coding	KNOWN	CCDS10857	23028	1461	486	68021409	68027766	-1	None	None
16	DPEP2	ENSG00000167261	ENST00000575510	protein_coding	PUTATIVE	None	23028	368	121	68023952	68034467	-1	None	None
16	DPEP2	ENSG00000167261	ENST00000573808	protein_coding	PUTATIVE	None	23028	484	160	68024801	68033415	-1	None	None
16	DPEP2	ENSG00000167261	ENST00000268795	retained_intron	KNOWN	None	23028	None	None	68025546	68034484	-1	None	None
16	DPEP2	ENSG00000167261	ENST00000572624	protein_coding	KNOWN	None	23028	411	136	68026076	68033421	-1	None	None
16	DPEP2	ENSG00000167261	ENST00000574865	protein_coding	KNOWN	None	23028	343	113	68026460	68028231	-1	None	None
16	DPEP2	ENSG00000167261	ENST00000574316	retained_intron	KNOWN	None	23028	None	None	68026720	68034471	-1	None	None
16	DPEP2	ENSG00000167261	ENST00000412757	protein_coding	KNOWN	CCDS10857	23028	1461	486	68021300	68034489	-1	None	None
21	KRTAP24-1	ENSG00000188694	ENST00000340345	protein_coding	KNOWN	CCDS42915	33902	765	254	31653629	31655276	-1	None	KAP24.1
19	ZNF600	ENSG00000189190	ENST00000338230	protein_coding	KNOWN	CCDS12856	30951	2169	722	53267448	53290016	-1	None	KR-ZNF1, DKFZp686F06123
19	ZNF600	ENSG00000189190	ENST00000599893	processed_transcript	KNOWN	None	30951	None	None	53283906	53290044	-1	None	KR-ZNF1, DKFZp686F06123
19	ZNF600	ENSG00000189190	ENST00000594028	processed_transcript	KNOWN	None	30951	None	None	53284081	53289977	-1	None	KR-ZNF1, DKFZp686F06123
19	ZNF600	ENSG00000189190	ENST00000597124	processed_transcript	KNOWN	None	30951	None	None	53284082	53289953	-1	None	KR-ZNF1, DKFZp686F06123
19	ZNF600	ENSG00000189190	ENST00000598369	processed_transcript	KNOWN	None	30951	None	None	53284245	53290024	-1	None	KR-ZNF1, DKFZp686F06123
HSCHR6_MHC_MANN	HLA-F-AS1	ENSG00000250154	ENST00000515168	unprocessed_pseudogene	KNOWN	None	26645	None	None	29706617	29713857	-1	None	None
1	KDM5B	ENSG00000117139	ENST00000367265	protein_coding	KNOWN	CCDS30974	18039	4635	1544	202696526	202778598	-1	JARID1B	RBBP2H1A, PLU-1, CT31
1	KDM5B	ENSG00000117139	ENST00000367264	protein_coding	KNOWN	None	18039	4743	1580	202696571	202777546	-1	JARID1B	RBBP2H1A, PLU-1, CT31
1	KDM5B	ENSG00000117139	ENST00000472822	retained_intron	KNOWN	None	18039	None	None	202698444	202705364	-1	JARID1B	RBBP2H1A, PLU-1, CT31
1	KDM5B	ENSG00000117139	ENST00000491153	retained_intron	KNOWN	None	18039	None	None	202699029	202701269	-1	JARID1B	RBBP2H1A, PLU-1, CT31
1	KDM5B	ENSG00000117139	ENST00000235790	protein_coding	NOVEL	None	18039	3825	1274	202699033	202776427	-1	JARID1B	RBBP2H1A, PLU-1, CT31
1	KDM5B	ENSG00000117139	ENST00000498276	retained_intron	KNOWN	None	18039	None	None	202715005	202715723	-1	JARID1B	RBBP2H1A, PLU-1, CT31
1	KDM5B	ENSG00000117139	ENST00000456180	processed_transcript	KNOWN	None	18039	None	None	202722172	202728077	-1	JARID1B	RBBP2H1A, PLU-1, CT31
1	KDM5B	ENSG00000117139	ENST00000602511	nonsense_mediated_decay	KNOWN	None	18039	234	77	202736159	202777253	-1	JARID1B	RBBP2H1A, PLU-1, CT31
1	KDM5B	ENSG00000117139	ENST00000470573	processed_transcript	KNOWN	None	18039	None	None	202742345	202775879	-1	JARID1B	RBBP2H1A, PLU-1, CT31
1	KDM5B	ENSG00000117139	ENST00000467487	processed_transcript	KNOWN	None	18039	None	None	202743758	202776333	-1	JARID1B	RBBP2H1A, PLU-1, CT31
21	KRTAP25-1	ENSG00000232263	ENST00000416044	protein_coding	KNOWN	CCDS46640	34003	309	102	31661463	31661832	-1	None	KAP25.1
HSCHR6_MHC_MCF	LY6G6C	ENSG00000228250	ENST00000480025	protein_coding	PUTATIVE	None	13936	210	69	31762711	31765742	-1	C6orf24	G6c, NG24
HSCHR6_MHC_MCF	LY6G6C	ENSG00000228250	ENST00000428121	protein_coding	KNOWN	None	13936	378	125	31762711	31765908	-1	C6orf24	G6c, NG24
21	KRTAP26-1	ENSG00000197683	ENST00000360542	protein_coding	KNOWN	CCDS13588	33760	633	210	31691452	31692607	-1	None	None
2	SPC25	ENSG00000152253	ENST00000479309	processed_transcript	KNOWN	None	24031	None	None	169690642	169745803	-1	SPBC25	MGC22228, AD024
2	SPC25	ENSG00000152253	ENST00000282074	protein_coding	KNOWN	CCDS2229	24031	675	224	169727404	169746955	-1	SPBC25	MGC22228, AD024
2	SPC25	ENSG00000152253	ENST00000451987	protein_coding	KNOWN	None	24031	346	114	169733748	169769787	-1	SPBC25	MGC22228, AD024
2	SPC25	ENSG00000152253	ENST00000472216	processed_transcript	KNOWN	None	24031	None	None	169733748	169769881	-1	SPBC25	MGC22228, AD024
20	DPM1	ENSG00000000419	ENST00000371588	protein_coding	KNOWN	CCDS13434	3005	783	260	49551404	49575087	-1	None	MPDS, CDGIE
20	DPM1	ENSG00000000419	ENST00000466152	processed_transcript	KNOWN	None	3005	None	None	49551404	49575087	-1	None	MPDS, CDGIE
20	DPM1	ENSG00000000419	ENST00000371582	protein_coding	KNOWN	None	3005	864	287	49551404	49575092	-1	None	MPDS, CDGIE
20	DPM1	ENSG00000000419	ENST00000494752	processed_transcript	KNOWN	None	3005	None	None	49551433	49562398	-1	None	MPDS, CDGIE
20	DPM1	ENSG00000000419	ENST00000371584	protein_coding	KNOWN	None	3005	886	294	49551482	49575058	-1	None	MPDS, CDGIE
20	DPM1	ENSG00000000419	ENST00000413082	protein_coding	KNOWN	None	3005	663	220	49552685	49575069	-1	None	MPDS, CDGIE
20	DPM1	ENSG00000000419	ENST00000371583	protein_coding	KNOWN	None	3005	768	255	49551490	49575069	-1	None	MPDS, CDGIE
11	PPP1R32	ENSG00000162148	ENST00000432063	protein_coding	KNOWN	CCDS53641	28869	1218	405	61248592	61258400	1	C11orf66	IIIG9, FLJ32771
11	PPP1R32	ENSG00000162148	ENST00000338608	protein_coding	KNOWN	CCDS8008	28869	1278	425	61248592	61258403	1	C11orf66	IIIG9, FLJ32771
11	PPP1R32	ENSG00000162148	ENST00000542951	protein_coding	PUTATIVE	None	28869	531	176	61253357	61258334	1	C11orf66	IIIG9, FLJ32771
11	PPP1R32	ENSG00000162148	ENST00000535545	protein_coding	PUTATIVE	None	28869	414	137	61253828	61258390	1	C11orf66	IIIG9, FLJ32771
11	PPP1R32	ENSG00000162148	ENST00000366212	protein_coding	PUTATIVE	None	28869	168	55	61256314	61258403	1	C11orf66	IIIG9, FLJ32771
11	PPP1R32	ENSG00000162148	ENST00000538185	protein_coding	PUTATIVE	None	28869	309	102	61256510	61258399	1	C11orf66	IIIG9, FLJ32771
21	KRTAP27-1	ENSG00000206107	ENST00000382835	protein_coding	KNOWN	CCDS33532	33864	624	207	31709331	31710012	-1	None	None
HSCHR6_MHC_QBL	None	ENSG00000258248	ENST00000548319	protein_coding	NOVEL	None	None	39	12	31110976	31111093	1	None	None
HSCHR6_MHC_MANN	HCG9P5	ENSG00000228900	ENST00000421343	unprocessed_pseudogene	KNOWN	None	30983	None	None	29713177	29713401	1	None	HCGIX-5, dJ377H14.6
HSCHR6_MHC_MANN	None	ENSG00000264495	ENST00000578290	misc_RNA	NOVEL	None	None	None	None	29715258	29715359	1	None	None
21	KRTAP23-1	ENSG00000186980	ENST00000334160	protein_coding	KNOWN	CCDS33533	18928	198	65	31720717	31720924	-1	None	KAP23.1
13	LPAR6	ENSG00000139679	ENST00000464486	processed_transcript	PUTATIVE	None	15520	None	None	48963707	48965667	-1	P2RY5	P2Y5
13	LPAR6	ENSG00000139679	ENST00000481832	processed_transcript	KNOWN	None	15520	None	None	48963707	48980845	-1	P2RY5	P2Y5
13	LPAR6	ENSG00000139679	ENST00000462781	processed_transcript	KNOWN	None	15520	None	None	48963707	48989949	-1	P2RY5	P2Y5
13	LPAR6	ENSG00000139679	ENST00000470937	processed_transcript	KNOWN	None	15520	None	None	48963707	48989952	-1	P2RY5	P2Y5
13	LPAR6	ENSG00000139679	ENST00000378434	protein_coding	KNOWN	CCDS9410	15520	1035	344	48985181	49018840	-1	P2RY5	P2Y5
13	LPAR6	ENSG00000139679	ENST00000345941	protein_coding	KNOWN	CCDS9410	15520	1035	344	48985275	49001043	-1	P2RY5	P2Y5
13	LPAR6	ENSG00000139679	ENST00000482024	processed_transcript	KNOWN	None	15520	None	None	48985877	48986625	-1	P2RY5	P2Y5
13	LPAR6	ENSG00000139679	ENST00000465365	processed_transcript	KNOWN	None	15520	None	None	48996783	49018802	-1	P2RY5	P2Y5
19	CYP4F22	ENSG00000171954	ENST00000269703	protein_coding	KNOWN	CCDS12331	26820	1596	531	15619304	15663127	1	None	FLJ39501
19	CYP4F22	ENSG00000171954	ENST00000601005	protein_coding	KNOWN	CCDS12331	26820	1596	531	15636144	15663127	1	None	FLJ39501
HSCHR6_MHC_MANN	IFITM4P	ENSG00000233023	ENST00000417445	processed_pseudogene	KNOWN	None	21669	None	None	29715614	29716034	-1	None	dJ377H14.5
1	GJA9	ENSG00000131233	ENST00000360786	protein_coding	KNOWN	CCDS432	19155	1548	515	39340123	39342023	-1	GJA10	CX59, CX58
1	GJA9	ENSG00000131233	ENST00000454994	protein_coding	KNOWN	None	19155	1545	514	39330175	39347285	-1	GJA10	CX59, CX58
1	GJA9	ENSG00000131233	ENST00000357771	protein_coding	KNOWN	CCDS432	19155	1548	515	39339739	39347289	-1	GJA10	CX59, CX58
3	DNASE1L3	ENSG00000163687	ENST00000486455	protein_coding	NOVEL	CCDS58836	2959	828	275	58177984	58196696	-1	None	DNAS1L3, LSD
3	DNASE1L3	ENSG00000163687	ENST00000483681	protein_coding	PUTATIVE	None	2959	867	288	58178354	58200424	-1	None	DNAS1L3, LSD
3	DNASE1L3	ENSG00000163687	ENST00000477209	protein_coding	PUTATIVE	None	2959	414	137	58178355	58190550	-1	None	DNAS1L3, LSD
3	DNASE1L3	ENSG00000163687	ENST00000394549	protein_coding	KNOWN	CCDS2886	2959	918	305	58178355	58196950	-1	None	DNAS1L3, LSD
3	DNASE1L3	ENSG00000163687	ENST00000461914	protein_coding	NOVEL	None	2959	473	156	58186797	58196951	-1	None	DNAS1L3, LSD
3	DNASE1L3	ENSG00000163687	ENST00000460422	protein_coding	KNOWN	None	2959	301	99	58191217	58200398	-1	None	DNAS1L3, LSD
3	DNASE1L3	ENSG00000163687	ENST00000463694	retained_intron	KNOWN	None	2959	None	None	58193487	58196647	-1	None	DNAS1L3, LSD
3	DNASE1L3	ENSG00000163687	ENST00000318316	protein_coding	KNOWN	CCDS2886	2959	918	305	58178354	58200398	-1	None	DNAS1L3, LSD
21	KRTAP13-2	ENSG00000182816	ENST00000399889	protein_coding	KNOWN	CCDS13589	18923	528	175	31743709	31744557	-1	None	KAP13-2
HSCHR6_MHC_QBL	TCF19	ENSG00000206455	ENST00000400401	protein_coding	KNOWN	None	11629	1038	345	31118773	31124447	1	None	SC1
HSCHR6_MHC_QBL	TCF19	ENSG00000206455	ENST00000383526	protein_coding	KNOWN	None	11629	1038	345	31118778	31124447	1	None	SC1
HSCHR6_MHC_QBL	TCF19	ENSG00000206455	ENST00000496380	processed_transcript	PUTATIVE	None	11629	None	None	31121715	31123238	1	None	SC1
2	G6PC2	ENSG00000152254	ENST00000375363	protein_coding	KNOWN	CCDS2230	28906	1068	355	169757750	169764643	1	None	IGRP
2	G6PC2	ENSG00000152254	ENST00000429379	protein_coding	PUTATIVE	CCDS46443	28906	465	154	169757801	169764241	1	None	IGRP
2	G6PC2	ENSG00000152254	ENST00000282075	nonsense_mediated_decay	KNOWN	None	28906	309	102	169757803	169766505	1	None	IGRP
2	G6PC2	ENSG00000152254	ENST00000421979	protein_coding	PUTATIVE	None	28906	243	80	169757835	169764346	1	None	IGRP
2	G6PC2	ENSG00000152254	ENST00000461586	processed_transcript	KNOWN	None	28906	None	None	169759459	169765205	1	None	IGRP
14	SETD3	ENSG00000183576	ENST00000331768	protein_coding	KNOWN	CCDS9951	20493	1785	594	99864083	99947216	-1	C14orf154	FLJ23027
14	SETD3	ENSG00000183576	ENST00000446066	nonsense_mediated_decay	KNOWN	None	20493	246	81	99864806	99947138	-1	C14orf154	FLJ23027
14	SETD3	ENSG00000183576	ENST00000489770	retained_intron	KNOWN	None	20493	None	None	99865069	99879587	-1	C14orf154	FLJ23027
14	SETD3	ENSG00000183576	ENST00000453764	nonsense_mediated_decay	KNOWN	None	20493	246	81	99871652	99947197	-1	C14orf154	FLJ23027
14	SETD3	ENSG00000183576	ENST00000329331	protein_coding	KNOWN	CCDS9952	20493	891	296	99876141	99947125	-1	C14orf154	FLJ23027
14	SETD3	ENSG00000183576	ENST00000436070	protein_coding	PUTATIVE	None	20493	879	292	99877616	99947127	-1	C14orf154	FLJ23027
14	SETD3	ENSG00000183576	ENST00000357563	nonsense_mediated_decay	KNOWN	None	20493	246	81	99877915	99947174	-1	C14orf154	FLJ23027
14	SETD3	ENSG00000183576	ENST00000453938	processed_transcript	KNOWN	None	20493	None	None	99924636	99945106	-1	C14orf154	FLJ23027
7	MEPCE	ENSG00000146834	ENST00000497759	retained_intron	KNOWN	None	20247	None	None	100026413	100029202	1	BCDIN3	FLJ20257, MePCE
7	MEPCE	ENSG00000146834	ENST00000414441	protein_coding	PUTATIVE	CCDS55136	20247	663	220	100026440	100031740	1	BCDIN3	FLJ20257, MePCE
7	MEPCE	ENSG00000146834	ENST00000479201	retained_intron	KNOWN	None	20247	None	None	100026998	100029105	1	BCDIN3	FLJ20257, MePCE
7	MEPCE	ENSG00000146834	ENST00000310512	protein_coding	KNOWN	CCDS5693	20247	2070	689	100027254	100031741	1	BCDIN3	FLJ20257, MePCE
4	SLBP	ENSG00000163950	ENST00000429429	protein_coding	NOVEL	None	10904	696	231	1694527	1714045	-1	None	HBP
4	SLBP	ENSG00000163950	ENST00000489418	protein_coding	KNOWN	CCDS3350	10904	813	270	1694527	1714282	-1	None	HBP
4	SLBP	ENSG00000163950	ENST00000318386	protein_coding	NOVEL	None	10904	834	277	1694585	1713977	-1	None	HBP
4	SLBP	ENSG00000163950	ENST00000483348	protein_coding	PUTATIVE	None	10904	677	224	1694971	1713745	-1	None	HBP
4	SLBP	ENSG00000163950	ENST00000488267	protein_coding	NOVEL	None	10904	708	235	1695174	1714044	-1	None	HBP
4	SLBP	ENSG00000163950	ENST00000480936	protein_coding	PUTATIVE	None	10904	558	185	1698022	1714071	-1	None	HBP
7	SEPT14	ENSG00000154997	ENST00000388975	protein_coding	KNOWN	CCDS5519	33280	1299	432	55861237	55930482	-1	None	FLJ44060
7	SEPT14	ENSG00000154997	ENST00000477628	processed_transcript	KNOWN	None	33280	None	None	55912230	55930448	-1	None	FLJ44060
17	PGAP3	ENSG00000161395	ENST00000579146	protein_coding	NOVEL	None	23719	447	148	37827375	37844310	-1	PERLD1	MGC9753, CAB2, PP1498, PER1
17	PGAP3	ENSG00000161395	ENST00000300658	protein_coding	KNOWN	CCDS32641	23719	963	320	37827375	37844360	-1	PERLD1	MGC9753, CAB2, PP1498, PER1
17	PGAP3	ENSG00000161395	ENST00000378011	protein_coding	KNOWN	None	23719	810	269	37827376	37844310	-1	PERLD1	MGC9753, CAB2, PP1498, PER1
17	PGAP3	ENSG00000161395	ENST00000309862	retained_intron	KNOWN	None	23719	None	None	37827376	37844310	-1	PERLD1	MGC9753, CAB2, PP1498, PER1
17	PGAP3	ENSG00000161395	ENST00000429199	protein_coding	NOVEL	None	23719	900	299	37829029	37844310	-1	PERLD1	MGC9753, CAB2, PP1498, PER1
17	PGAP3	ENSG00000161395	ENST00000577337	nonsense_mediated_decay	KNOWN	None	23719	135	44	37829428	37840951	-1	PERLD1	MGC9753, CAB2, PP1498, PER1
17	PGAP3	ENSG00000161395	ENST00000580898	retained_intron	KNOWN	None	23719	None	None	37829782	37841158	-1	PERLD1	MGC9753, CAB2, PP1498, PER1
17	PGAP3	ENSG00000161395	ENST00000584620	nonsense_mediated_decay	KNOWN	None	23719	452	149	37830128	37844254	-1	PERLD1	MGC9753, CAB2, PP1498, PER1
17	PGAP3	ENSG00000161395	ENST00000582276	retained_intron	KNOWN	None	23719	None	None	37830194	37844302	-1	PERLD1	MGC9753, CAB2, PP1498, PER1
17	PGAP3	ENSG00000161395	ENST00000584856	protein_coding	PUTATIVE	None	23719	211	69	37840855	37853050	-1	PERLD1	MGC9753, CAB2, PP1498, PER1
1	RHBDL2	ENSG00000158315	ENST00000289248	protein_coding	KNOWN	CCDS30680	16083	912	303	39351968	39392509	-1	None	FLJ20435
1	RHBDL2	ENSG00000158315	ENST00000540558	protein_coding	PUTATIVE	None	16083	399	132	39381175	39407471	-1	None	FLJ20435
1	RHBDL2	ENSG00000158315	ENST00000372985	protein_coding	KNOWN	None	16083	1152	383	39352046	39395185	-1	None	FLJ20435
1	RHBDL2	ENSG00000158315	ENST00000538156	protein_coding	KNOWN	None	16083	1113	370	39351979	39392509	-1	None	FLJ20435
1	RHBDL2	ENSG00000158315	ENST00000372990	protein_coding	KNOWN	CCDS30680	16083	912	303	39351479	39407456	-1	None	FLJ20435
5	None	ENSG00000250385	ENST00000515085	antisense	KNOWN	None	None	None	None	524820	526709	1	None	None
6	SKIV2L	ENSG00000204351	ENST00000375394	protein_coding	KNOWN	CCDS4731	10898	3741	1246	31926857	31937532	1	SKIV2	HLP, DDX13, SKI2W, 170A
6	SKIV2L	ENSG00000204351	ENST00000488648	processed_transcript	KNOWN	None	10898	None	None	31926894	31929163	1	SKIV2	HLP, DDX13, SKI2W, 170A
6	SKIV2L	ENSG00000204351	ENST00000465703	retained_intron	KNOWN	None	10898	None	None	31926918	31937528	1	SKIV2	HLP, DDX13, SKI2W, 170A
6	SKIV2L	ENSG00000204351	ENST00000461073	nonsense_mediated_decay	KNOWN	None	10898	693	230	31926934	31930591	1	SKIV2	HLP, DDX13, SKI2W, 170A
6	SKIV2L	ENSG00000204351	ENST00000474839	nonsense_mediated_decay	KNOWN	None	10898	210	69	31926948	31937525	1	SKIV2	HLP, DDX13, SKI2W, 170A
6	SKIV2L	ENSG00000204351	ENST00000492900	retained_intron	KNOWN	None	10898	None	None	31926968	31927735	1	SKIV2	HLP, DDX13, SKI2W, 170A
6	SKIV2L	ENSG00000204351	ENST00000466290	retained_intron	KNOWN	None	10898	None	None	31929274	31930787	1	SKIV2	HLP, DDX13, SKI2W, 170A
6	SKIV2L	ENSG00000204351	ENST00000461915	processed_transcript	KNOWN	None	10898	None	None	31934605	31936221	1	SKIV2	HLP, DDX13, SKI2W, 170A
6	SKIV2L	ENSG00000204351	ENST00000494058	retained_intron	KNOWN	None	10898	None	None	31934798	31936225	1	SKIV2	HLP, DDX13, SKI2W, 170A
6	SKIV2L	ENSG00000204351	ENST00000484835	retained_intron	KNOWN	None	10898	None	None	31934880	31936763	1	SKIV2	HLP, DDX13, SKI2W, 170A
6	SKIV2L	ENSG00000204351	ENST00000483553	nonsense_mediated_decay	KNOWN	None	10898	469	155	31935536	31937528	1	SKIV2	HLP, DDX13, SKI2W, 170A
6	SKIV2L	ENSG00000204351	ENST00000471818	processed_transcript	PUTATIVE	None	10898	None	None	31936100	31937528	1	SKIV2	HLP, DDX13, SKI2W, 170A
6	SKIV2L	ENSG00000204351	ENST00000485349	retained_intron	KNOWN	None	10898	None	None	31936231	31937185	1	SKIV2	HLP, DDX13, SKI2W, 170A
6	SKIV2L	ENSG00000204351	ENST00000491994	protein_coding	PUTATIVE	None	10898	547	181	31936252	31937528	1	SKIV2	HLP, DDX13, SKI2W, 170A
6	SKIV2L	ENSG00000204351	ENST00000470453	processed_transcript	KNOWN	None	10898	None	None	31936301	31937364	1	SKIV2	HLP, DDX13, SKI2W, 170A
6	SKIV2L	ENSG00000204351	ENST00000544581	protein_coding	KNOWN	None	10898	3162	1053	31926948	31937525	1	SKIV2	HLP, DDX13, SKI2W, 170A
5	MIR4456	ENSG00000264233	ENST00000582112	miRNA	KNOWN	None	41606	None	None	535955	535997	-1	None	hsa-mir-4456
5	None	ENSG00000249650	ENST00000506629	antisense	KNOWN	None	None	None	None	602735	612325	-1	None	None
HSCHR6_MHC_MCF	HLA-DMB	ENSG00000242386	ENST00000465965	retained_intron	KNOWN	None	4935	None	None	32935860	32938117	-1	None	D6S221E, RING7
HSCHR6_MHC_MCF	HLA-DMB	ENSG00000242386	ENST00000497661	retained_intron	KNOWN	None	4935	None	None	32935860	32938132	-1	None	D6S221E, RING7
HSCHR6_MHC_MCF	HLA-DMB	ENSG00000242386	ENST00000413696	protein_coding	KNOWN	None	4935	321	106	32935860	32938670	-1	None	D6S221E, RING7
HSCHR6_MHC_MCF	HLA-DMB	ENSG00000242386	ENST00000433242	protein_coding	KNOWN	None	4935	424	140	32935860	32939919	-1	None	D6S221E, RING7
HSCHR6_MHC_MCF	HLA-DMB	ENSG00000242386	ENST00000482267	retained_intron	KNOWN	None	4935	None	None	32935860	32942215	-1	None	D6S221E, RING7
HSCHR6_MHC_MCF	HLA-DMB	ENSG00000242386	ENST00000456428	protein_coding	KNOWN	None	4935	774	257	32935860	32942252	-1	None	D6S221E, RING7
HSCHR6_MHC_MCF	HLA-DMB	ENSG00000242386	ENST00000450897	protein_coding	KNOWN	None	4935	792	263	32935860	32942301	-1	None	D6S221E, RING7
HSCHR6_MHC_MCF	HLA-DMB	ENSG00000242386	ENST00000448590	protein_coding	KNOWN	None	4935	526	174	32938595	32954358	-1	None	D6S221E, RING7
5	None	ENSG00000271781	ENST00000607068	antisense	KNOWN	None	None	None	None	675941	676731	1	None	None
22	SEC14L6	ENSG00000214491	ENST00000402034	protein_coding	NOVEL	CCDS54518	40047	1194	397	30920465	30942669	-1	None	None
22	SEC14L6	ENSG00000214491	ENST00000437871	protein_coding	NOVEL	None	40047	367	121	30920633	30925150	-1	None	None
5	None	ENSG00000249908	ENST00000506203	unprocessed_pseudogene	KNOWN	None	None	None	None	767512	769046	-1	None	None
11	QSER1	ENSG00000060749	ENST00000399302	protein_coding	KNOWN	CCDS41631	26154	5208	1735	32914724	33001812	1	None	FLJ21924
11	QSER1	ENSG00000060749	ENST00000527250	processed_transcript	KNOWN	None	26154	None	None	32914806	32953548	1	None	FLJ21924
11	QSER1	ENSG00000060749	ENST00000527788	protein_coding	PUTATIVE	None	26154	4590	1529	32947518	33014862	1	None	FLJ21924
11	QSER1	ENSG00000060749	ENST00000528155	protein_coding	KNOWN	None	26154	192	63	32948255	32953383	1	None	FLJ21924
11	QSER1	ENSG00000060749	ENST00000524678	protein_coding	PUTATIVE	None	26154	2342	779	32956130	32997176	1	None	FLJ21924
11	QSER1	ENSG00000060749	ENST00000528034	retained_intron	KNOWN	None	26154	None	None	32979352	32990614	1	None	FLJ21924
5	SPCS2P3	ENSG00000247872	ENST00000500401	processed_pseudogene	KNOWN	None	45236	None	None	816461	817116	1	None	None
5	None	ENSG00000248949	ENST00000507989	lincRNA	KNOWN	None	None	None	None	946430	956635	1	None	None
17	FNDC8	ENSG00000073598	ENST00000158009	protein_coding	KNOWN	CCDS11290	25286	975	324	33448598	33457751	1	None	DKFZp434H2215
5	None	ENSG00000215246	ENST00000399869	antisense	KNOWN	None	None	None	None	987295	997423	-1	None	None
5	None	ENSG00000215246	ENST00000543306	antisense	KNOWN	None	None	None	None	987295	990738	-1	None	None
10	FAM208B	ENSG00000108021	ENST00000328090	protein_coding	KNOWN	CCDS41485	23484	7293	2430	5726801	5805703	1	C10orf18	FLJ20360, bA318E3.2, KIAA2006
10	FAM208B	ENSG00000108021	ENST00000477043	processed_transcript	KNOWN	None	23484	None	None	5726905	5754502	1	C10orf18	FLJ20360, bA318E3.2, KIAA2006
10	FAM208B	ENSG00000108021	ENST00000473789	processed_transcript	KNOWN	None	23484	None	None	5726905	5756139	1	C10orf18	FLJ20360, bA318E3.2, KIAA2006
10	FAM208B	ENSG00000108021	ENST00000496681	protein_coding	KNOWN	None	23484	26	7	5726911	5762631	1	C10orf18	FLJ20360, bA318E3.2, KIAA2006
10	FAM208B	ENSG00000108021	ENST00000480839	processed_transcript	KNOWN	None	23484	None	None	5726928	5762574	1	C10orf18	FLJ20360, bA318E3.2, KIAA2006
10	FAM208B	ENSG00000108021	ENST00000532424	processed_transcript	KNOWN	None	23484	None	None	5734779	5754835	1	C10orf18	FLJ20360, bA318E3.2, KIAA2006
10	FAM208B	ENSG00000108021	ENST00000482419	processed_transcript	KNOWN	None	23484	None	None	5741411	5751626	1	C10orf18	FLJ20360, bA318E3.2, KIAA2006
10	FAM208B	ENSG00000108021	ENST00000463468	processed_transcript	KNOWN	None	23484	None	None	5741456	5756170	1	C10orf18	FLJ20360, bA318E3.2, KIAA2006
10	FAM208B	ENSG00000108021	ENST00000527124	retained_intron	KNOWN	None	23484	None	None	5751589	5756537	1	C10orf18	FLJ20360, bA318E3.2, KIAA2006
10	FAM208B	ENSG00000108021	ENST00000532080	retained_intron	KNOWN	None	23484	None	None	5768789	5772739	1	C10orf18	FLJ20360, bA318E3.2, KIAA2006
10	FAM208B	ENSG00000108021	ENST00000380270	protein_coding	NOVEL	None	23484	738	245	5772625	5781776	1	C10orf18	FLJ20360, bA318E3.2, KIAA2006
10	FAM208B	ENSG00000108021	ENST00000487196	retained_intron	KNOWN	None	23484	None	None	5800892	5803764	1	C10orf18	FLJ20360, bA318E3.2, KIAA2006
10	FAM208B	ENSG00000108021	ENST00000459693	retained_intron	KNOWN	None	23484	None	None	5802803	5805703	1	C10orf18	FLJ20360, bA318E3.2, KIAA2006
2	ABCB11	ENSG00000073734	ENST00000263817	protein_coding	KNOWN	CCDS46444	42	3966	1321	169779448	169887832	-1	BSEP, PFIC2	ABC16, SPGP, PFIC-2, PGY4
2	ABCB11	ENSG00000073734	ENST00000439188	nonsense_mediated_decay	KNOWN	None	42	219	72	169779893	169828542	-1	BSEP, PFIC2	ABC16, SPGP, PFIC-2, PGY4
2	ABCB11	ENSG00000073734	ENST00000478354	retained_intron	KNOWN	None	42	None	None	169826033	169827101	-1	BSEP, PFIC2	ABC16, SPGP, PFIC-2, PGY4
13	GRK1	ENSG00000185974	ENST00000335678	protein_coding	KNOWN	None	10013	1692	563	114321470	114440708	1	RHOK	GPRK1, RK
13	GRK1	ENSG00000185974	ENST00000545304	processed_transcript	KNOWN	None	10013	None	None	114429459	114438209	1	RHOK	GPRK1, RK
13	GRK1	ENSG00000185974	ENST00000606140	retained_intron	KNOWN	None	10013	None	None	114437448	114440708	1	RHOK	GPRK1, RK
12	LRRC10	ENSG00000198812	ENST00000361484	protein_coding	KNOWN	CCDS31856	20264	834	277	70002351	70004942	-1	None	HRLRRP, LRRC10A
12	GABARAPL1	ENSG00000139112	ENST00000539408	nonsense_mediated_decay	KNOWN	None	4068	132	43	10365057	10366722	1	None	gec1, APG8L, ATG8L, ATG8B
12	GABARAPL1	ENSG00000139112	ENST00000542722	nonsense_mediated_decay	KNOWN	None	4068	132	43	10365108	10374686	1	None	gec1, APG8L, ATG8L, ATG8B
12	GABARAPL1	ENSG00000139112	ENST00000545859	protein_coding	KNOWN	None	4068	211	69	10365196	10373080	1	None	gec1, APG8L, ATG8L, ATG8B
12	GABARAPL1	ENSG00000139112	ENST00000266458	protein_coding	KNOWN	CCDS8620	4068	354	117	10365404	10375727	1	None	gec1, APG8L, ATG8L, ATG8B
12	GABARAPL1	ENSG00000139112	ENST00000421801	protein_coding	PUTATIVE	None	4068	441	146	10365435	10373430	1	None	gec1, APG8L, ATG8L, ATG8B
12	GABARAPL1	ENSG00000139112	ENST00000544284	protein_coding	PUTATIVE	None	4068	84	27	10365453	10374549	1	None	gec1, APG8L, ATG8L, ATG8B
12	GABARAPL1	ENSG00000139112	ENST00000545047	protein_coding	PUTATIVE	None	4068	111	36	10365476	10373254	1	None	gec1, APG8L, ATG8L, ATG8B
12	GABARAPL1	ENSG00000139112	ENST00000541453	nonsense_mediated_decay	KNOWN	None	4068	111	36	10365476	10374507	1	None	gec1, APG8L, ATG8L, ATG8B
12	GABARAPL1	ENSG00000139112	ENST00000543602	protein_coding	PUTATIVE	None	4068	441	146	10365482	10373377	1	None	gec1, APG8L, ATG8L, ATG8B
12	GABARAPL1	ENSG00000139112	ENST00000540424	nonsense_mediated_decay	KNOWN	None	4068	132	43	10365496	10375722	1	None	gec1, APG8L, ATG8L, ATG8B
12	GABARAPL1	ENSG00000139112	ENST00000537201	nonsense_mediated_decay	KNOWN	None	4068	132	43	10365521	10367288	1	None	gec1, APG8L, ATG8L, ATG8B
12	GABARAPL1	ENSG00000139112	ENST00000545887	protein_coding	KNOWN	CCDS8620	4068	354	117	10365527	10374568	1	None	gec1, APG8L, ATG8L, ATG8B
12	GABARAPL1	ENSG00000139112	ENST00000541960	nonsense_mediated_decay	KNOWN	None	4068	312	103	10365705	10375727	1	None	gec1, APG8L, ATG8L, ATG8B
12	GABARAPL1	ENSG00000139112	ENST00000539289	processed_transcript	KNOWN	None	4068	None	None	10366028	10373124	1	None	gec1, APG8L, ATG8L, ATG8B
12	GABARAPL1	ENSG00000139112	ENST00000546017	protein_coding	PUTATIVE	None	4068	84	27	10366028	10375722	1	None	gec1, APG8L, ATG8L, ATG8B
12	GABARAPL1	ENSG00000139112	ENST00000535576	protein_coding	PUTATIVE	None	4068	84	27	10366039	10374451	1	None	gec1, APG8L, ATG8L, ATG8B
12	GABARAPL1	ENSG00000139112	ENST00000539170	protein_coding	PUTATIVE	None	4068	84	27	10366039	10375709	1	None	gec1, APG8L, ATG8L, ATG8B
12	GABARAPL1	ENSG00000139112	ENST00000545290	protein_coding	PUTATIVE	None	4068	31	9	10366228	10374398	1	None	gec1, APG8L, ATG8L, ATG8B
17	ALKBH5	ENSG00000091542	ENST00000541285	protein_coding	PUTATIVE	None	25996	162	53	18086392	18112712	1	OFOXD1	FLJ20308
17	ALKBH5	ENSG00000091542	ENST00000399138	protein_coding	KNOWN	CCDS42272	25996	1185	394	18087553	18113268	1	OFOXD1	FLJ20308
17	ALKBH5	ENSG00000091542	ENST00000490106	retained_intron	KNOWN	None	25996	None	None	18109875	18113268	1	OFOXD1	FLJ20308
1	AKIRIN1	ENSG00000174574	ENST00000432648	protein_coding	KNOWN	CCDS433	25744	579	192	39456895	39471731	1	C1orf108	FLJ12666
1	AKIRIN1	ENSG00000174574	ENST00000446189	protein_coding	KNOWN	CCDS44113	25744	444	147	39456960	39470433	1	C1orf108	FLJ12666
1	AKIRIN1	ENSG00000174574	ENST00000372984	protein_coding	NOVEL	None	25744	438	145	39456960	39470526	1	C1orf108	FLJ12666
1	AKIRIN1	ENSG00000174574	ENST00000531822	protein_coding	NOVEL	None	25744	392	129	39457168	39470053	1	C1orf108	FLJ12666
11	PACSIN3	ENSG00000165912	ENST00000298838	protein_coding	KNOWN	CCDS31481	8572	1275	424	47199076	47207958	-1	None	SDPIII
11	PACSIN3	ENSG00000165912	ENST00000532457	nonsense_mediated_decay	KNOWN	None	8572	963	320	47199108	47207991	-1	None	SDPIII
11	PACSIN3	ENSG00000165912	ENST00000533686	protein_coding	PUTATIVE	None	8572	229	75	47199359	47200776	-1	None	SDPIII
11	PACSIN3	ENSG00000165912	ENST00000528462	protein_coding	KNOWN	None	8572	1217	404	47199540	47207432	-1	None	SDPIII
11	PACSIN3	ENSG00000165912	ENST00000530513	protein_coding	PUTATIVE	None	8572	145	47	47200805	47207994	-1	None	SDPIII
11	PACSIN3	ENSG00000165912	ENST00000528201	protein_coding	PUTATIVE	None	8572	108	35	47200973	47207987	-1	None	SDPIII
11	PACSIN3	ENSG00000165912	ENST00000531226	protein_coding	KNOWN	None	8572	445	147	47202008	47207960	-1	None	SDPIII
11	PACSIN3	ENSG00000165912	ENST00000525725	protein_coding	KNOWN	None	8572	426	141	47202027	47206970	-1	None	SDPIII
11	PACSIN3	ENSG00000165912	ENST00000530405	protein_coding	KNOWN	None	8572	208	68	47203957	47204872	-1	None	SDPIII
11	PACSIN3	ENSG00000165912	ENST00000524509	protein_coding	KNOWN	None	8572	208	68	47203957	47207964	-1	None	SDPIII
11	PACSIN3	ENSG00000165912	ENST00000539589	protein_coding	KNOWN	CCDS31481	8572	1275	424	47199091	47207432	-1	None	SDPIII
X	PAGE2	ENSG00000234068	ENST00000374968	protein_coding	KNOWN	CCDS14367	31804	336	111	55115441	55119275	1	GAGEC2	MGC62094, PAGE-2, CT16.4
X	PAGE2	ENSG00000234068	ENST00000374965	protein_coding	NOVEL	None	31804	285	94	55115485	55119275	1	GAGEC2	MGC62094, PAGE-2, CT16.4
X	PAGE2	ENSG00000234068	ENST00000449097	protein_coding	KNOWN	None	31804	193	63	55115569	55117043	1	GAGEC2	MGC62094, PAGE-2, CT16.4
HSCHR6_MHC_MCF	DDAH2	ENSG00000225635	ENST00000413343	protein_coding	KNOWN	None	2716	565	187	31771101	31772940	-1	None	None
HSCHR6_MHC_MCF	DDAH2	ENSG00000225635	ENST00000468346	retained_intron	KNOWN	None	2716	None	None	31771101	31773570	-1	None	None
HSCHR6_MHC_MCF	DDAH2	ENSG00000225635	ENST00000414455	protein_coding	KNOWN	None	2716	858	285	31771101	31773855	-1	None	None
HSCHR6_MHC_MCF	DDAH2	ENSG00000225635	ENST00000490871	processed_transcript	KNOWN	None	2716	None	None	31771101	31774290	-1	None	None
HSCHR6_MHC_MCF	DDAH2	ENSG00000225635	ENST00000463913	processed_transcript	KNOWN	None	2716	None	None	31771101	31774325	-1	None	None
HSCHR6_MHC_MCF	DDAH2	ENSG00000225635	ENST00000444699	protein_coding	KNOWN	None	2716	858	285	31771101	31774326	-1	None	None
HSCHR6_MHC_MCF	DDAH2	ENSG00000225635	ENST00000454138	protein_coding	KNOWN	None	2716	858	285	31771101	31774680	-1	None	None
HSCHR6_MHC_MCF	DDAH2	ENSG00000225635	ENST00000441011	protein_coding	KNOWN	None	2716	709	235	31771638	31773859	-1	None	None
HSCHR6_MHC_MCF	DDAH2	ENSG00000225635	ENST00000417274	protein_coding	KNOWN	None	2716	678	225	31771669	31773564	-1	None	None
HSCHR6_MHC_MCF	DDAH2	ENSG00000225635	ENST00000484557	retained_intron	KNOWN	None	2716	None	None	31772244	31774308	-1	None	None
13	RCBTB2	ENSG00000136161	ENST00000344532	protein_coding	KNOWN	CCDS9411	1914	1656	551	49063095	49107369	-1	CHC1L	None
13	RCBTB2	ENSG00000136161	ENST00000462703	processed_transcript	KNOWN	None	1914	None	None	49064033	49066709	-1	CHC1L	None
13	RCBTB2	ENSG00000136161	ENST00000481144	processed_transcript	KNOWN	None	1914	None	None	49086268	49107316	-1	CHC1L	None
13	RCBTB2	ENSG00000136161	ENST00000430805	protein_coding	KNOWN	None	1914	1671	556	49063709	49107216	-1	CHC1L	None
13	RCBTB2	ENSG00000136161	ENST00000544492	protein_coding	KNOWN	None	1914	834	277	49064236	49107216	-1	CHC1L	None
13	RCBTB2	ENSG00000136161	ENST00000544904	protein_coding	KNOWN	None	1914	846	281	49076879	49107213	-1	CHC1L	None
11	RCOR2	ENSG00000167771	ENST00000301459	protein_coding	KNOWN	CCDS8052	27455	1572	523	63678693	63684316	-1	None	None
11	RCOR2	ENSG00000167771	ENST00000489217	retained_intron	KNOWN	None	27455	None	None	63679360	63680428	-1	None	None
11	RCOR2	ENSG00000167771	ENST00000473926	processed_transcript	PUTATIVE	None	27455	None	None	63679427	63679779	-1	None	None
10	MIR4683	ENSG00000264780	ENST00000579659	miRNA	KNOWN	None	41883	None	None	35930100	35930180	-1	None	hsa-mir-4683
12	KRT4	ENSG00000170477	ENST00000551956	protein_coding	KNOWN	CCDS41787	6441	1563	520	53200333	53208335	-1	CYK4	CK4, K4
12	KRT4	ENSG00000170477	ENST00000548097	nonsense_mediated_decay	KNOWN	None	6441	237	78	53200384	53207900	-1	CYK4	CK4, K4
12	KRT4	ENSG00000170477	ENST00000549295	retained_intron	KNOWN	None	6441	None	None	53202859	53204711	-1	CYK4	CK4, K4
12	KRT4	ENSG00000170477	ENST00000552668	nonsense_mediated_decay	KNOWN	None	6441	261	86	53203167	53207900	-1	CYK4	CK4, K4
12	KRT4	ENSG00000170477	ENST00000551436	retained_intron	KNOWN	None	6441	None	None	53205230	53207400	-1	CYK4	CK4, K4
12	KRT4	ENSG00000170477	ENST00000293774	protein_coding	KNOWN	None	6441	1785	594	53200333	53208335	-1	CYK4	CK4, K4
12	KRT4	ENSG00000170477	ENST00000458244	protein_coding	KNOWN	None	6441	1503	500	53200333	53207842	-1	CYK4	CK4, K4
15	EID1	ENSG00000255302	ENST00000530028	protein_coding	KNOWN	CCDS53941	1191	564	187	49170083	49172380	1	C15orf3, CRI1	EID-1
15	EID1	ENSG00000255302	ENST00000560490	protein_coding	NOVEL	None	1191	498	165	49170333	49170982	1	C15orf3, CRI1	EID-1
15	EID1	ENSG00000255302	ENST00000558295	processed_transcript	PUTATIVE	None	1191	None	None	49170333	49171656	1	C15orf3, CRI1	EID-1
11	None	ENSG00000268635	ENST00000598970	protein_coding	KNOWN	None	None	453	150	77184416	77188074	1	None	None
1	NDUFS5	ENSG00000168653	ENST00000372969	protein_coding	KNOWN	CCDS434	7712	321	106	39491990	39500308	1	None	CI-15k
1	NDUFS5	ENSG00000168653	ENST00000372967	protein_coding	KNOWN	CCDS434	7712	321	106	39491990	39500308	1	None	CI-15k
5	None	ENSG00000203594	ENST00000366402	pseudogene	NOVEL	None	None	None	None	991214	991386	1	None	None
5	None	ENSG00000221244	ENST00000408317	miRNA	NOVEL	None	None	None	None	1004302	1004392	1	None	None
22	TRABD	ENSG00000170638	ENST00000380909	protein_coding	KNOWN	CCDS14086	28805	1131	376	50624344	50637993	1	None	PP2447
22	TRABD	ENSG00000170638	ENST00000303434	protein_coding	KNOWN	CCDS14086	28805	1131	376	50624346	50638027	1	None	PP2447
22	TRABD	ENSG00000170638	ENST00000463233	retained_intron	KNOWN	None	28805	None	None	50624347	50638024	1	None	PP2447
22	TRABD	ENSG00000170638	ENST00000395827	protein_coding	KNOWN	CCDS14086	28805	1131	376	50629027	50637904	1	None	PP2447
22	TRABD	ENSG00000170638	ENST00000395829	protein_coding	PUTATIVE	None	28805	1140	379	50631443	50637998	1	None	PP2447
22	TRABD	ENSG00000170638	ENST00000472677	retained_intron	KNOWN	None	28805	None	None	50635322	50637140	1	None	PP2447
5	None	ENSG00000272347	ENST00000606540	lincRNA	KNOWN	None	None	None	None	1005154	1006738	1	None	None
10	NRAP	ENSG00000197893	ENST00000369360	protein_coding	KNOWN	None	7988	5112	1703	115348475	115423805	-1	None	None
10	NRAP	ENSG00000197893	ENST00000359988	protein_coding	KNOWN	CCDS7579	7988	5193	1730	115348592	115423886	-1	None	None
10	NRAP	ENSG00000197893	ENST00000360478	protein_coding	KNOWN	CCDS7578	7988	5088	1695	115348584	115423805	-1	None	None
10	NRAP	ENSG00000197893	ENST00000369358	protein_coding	KNOWN	None	7988	5217	1738	115348596	115423886	-1	None	None
5	MIR4635	ENSG00000263834	ENST00000583759	miRNA	KNOWN	None	41748	None	None	1063011	1063089	-1	None	hsa-mir-4635
HSCHR6_MHC_DBB	CYP21A2	ENSG00000232414	ENST00000448478	protein_coding	KNOWN	None	2600	1488	495	31981894	31985238	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_DBB	CYP21A2	ENSG00000232414	ENST00000496557	processed_transcript	PUTATIVE	None	2600	None	None	31981912	31983043	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_DBB	CYP21A2	ENSG00000232414	ENST00000473538	retained_intron	KNOWN	None	2600	None	None	31981961	31985238	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_DBB	CYP21A2	ENSG00000232414	ENST00000466302	retained_intron	KNOWN	None	2600	None	None	31981961	31985238	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_DBB	CYP21A2	ENSG00000232414	ENST00000460626	retained_intron	KNOWN	None	2600	None	None	31981961	31985238	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_DBB	CYP21A2	ENSG00000232414	ENST00000468340	retained_intron	KNOWN	None	2600	None	None	31981966	31985238	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_DBB	CYP21A2	ENSG00000232414	ENST00000496471	retained_intron	KNOWN	None	2600	None	None	31982011	31982711	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_DBB	CYP21A2	ENSG00000232414	ENST00000475619	processed_transcript	KNOWN	None	2600	None	None	31982011	31983079	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_DBB	CYP21A2	ENSG00000232414	ENST00000459819	processed_transcript	KNOWN	None	2600	None	None	31982011	31983147	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_DBB	CYP21A2	ENSG00000232414	ENST00000434026	protein_coding	KNOWN	None	2600	1398	465	31982011	31985266	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
1	None	ENSG00000184774	ENST00000330493	protein_coding	KNOWN	None	None	618	205	202789394	202796353	1	None	None
1	None	ENSG00000184774	ENST00000549576	protein_coding	KNOWN	None	None	618	205	202792385	202796353	1	None	None
X	FAM104B	ENSG00000182518	ENST00000358460	protein_coding	KNOWN	CCDS35305	25085	348	115	55169535	55187743	-1	CXorf44	FLJ20434
X	FAM104B	ENSG00000182518	ENST00000472571	protein_coding	PUTATIVE	CCDS55424	25085	141	46	55171789	55187615	-1	CXorf44	FLJ20434
X	FAM104B	ENSG00000182518	ENST00000477847	protein_coding	PUTATIVE	CCDS55423	25085	339	112	55171820	55187552	-1	CXorf44	FLJ20434
X	FAM104B	ENSG00000182518	ENST00000489298	protein_coding	PUTATIVE	CCDS55422	25085	345	114	55172371	55187535	-1	CXorf44	FLJ20434
X	FAM104B	ENSG00000182518	ENST00000478918	processed_transcript	KNOWN	None	25085	None	None	55172702	55187374	-1	CXorf44	FLJ20434
X	FAM104B	ENSG00000182518	ENST00000332132	protein_coding	KNOWN	CCDS55426	25085	351	116	55169535	55187628	-1	CXorf44	FLJ20434
X	FAM104B	ENSG00000182518	ENST00000425133	protein_coding	KNOWN	CCDS55425	25085	351	116	55171678	55187628	-1	CXorf44	FLJ20434
9	MRPL41	ENSG00000182154	ENST00000371443	protein_coding	KNOWN	CCDS7046	14492	414	137	140445651	140447007	1	None	MRP-L27, RPML27, BMRP, PIG3, MRPL27
1	NBPF8	ENSG00000162825	ENST00000412624	protein_coding	PUTATIVE	None	31990	1744	580	144146812	144178807	1	NBPF8P	None
1	NBPF8	ENSG00000162825	ENST00000369365	protein_coding	PUTATIVE	None	31990	11423	3806	144146812	144224481	1	NBPF8P	None
1	NBPF8	ENSG00000162825	ENST00000369190	protein_coding	KNOWN	None	31990	1023	340	144146808	144160564	1	NBPF8P	None
1	NBPF8	ENSG00000162825	ENST00000369372	protein_coding	KNOWN	None	31990	255	84	144151520	144205836	1	NBPF8P	None
1	NBPF8	ENSG00000162825	ENST00000356801	protein_coding	KNOWN	None	31990	807	268	144173162	144213129	1	NBPF8P	None
1	NBPF8	ENSG00000162825	ENST00000421555	protein_coding	KNOWN	None	31990	735	244	144215387	144219425	1	NBPF8P	None
1	NBPF8	ENSG00000162825	ENST00000369373	protein_coding	KNOWN	None	31990	750	249	144220127	144224192	1	NBPF8P	None
19	FFAR1	ENSG00000126266	ENST00000246553	protein_coding	KNOWN	CCDS12458	4498	903	300	35842445	35843367	1	GPR40	FFA1R
19	GPR108	ENSG00000125734	ENST00000264080	protein_coding	KNOWN	CCDS42479	17829	1632	543	6729925	6737614	-1	None	LUSTR2
19	GPR108	ENSG00000125734	ENST00000537722	processed_transcript	KNOWN	None	17829	None	None	6730066	6732065	-1	None	LUSTR2
19	GPR108	ENSG00000125734	ENST00000594500	protein_coding	PUTATIVE	None	17829	504	167	6730066	6732067	-1	None	LUSTR2
19	GPR108	ENSG00000125734	ENST00000598626	processed_transcript	KNOWN	None	17829	None	None	6730067	6732079	-1	None	LUSTR2
19	GPR108	ENSG00000125734	ENST00000594034	protein_coding	PUTATIVE	None	17829	534	177	6730079	6732348	-1	None	LUSTR2
19	GPR108	ENSG00000125734	ENST00000595908	nonsense_mediated_decay	KNOWN	None	17829	311	102	6730096	6737520	-1	None	LUSTR2
19	GPR108	ENSG00000125734	ENST00000430424	protein_coding	PUTATIVE	None	17829	906	301	6730097	6737271	-1	None	LUSTR2
19	GPR108	ENSG00000125734	ENST00000597706	nonsense_mediated_decay	KNOWN	None	17829	995	330	6730109	6737571	-1	None	LUSTR2
19	GPR108	ENSG00000125734	ENST00000598955	protein_coding	PUTATIVE	None	17829	581	192	6731264	6733312	-1	None	LUSTR2
19	GPR108	ENSG00000125734	ENST00000600773	retained_intron	KNOWN	None	17829	None	None	6732094	6732784	-1	None	LUSTR2
19	GPR108	ENSG00000125734	ENST00000597298	protein_coding	PUTATIVE	None	17829	109	35	6733201	6737328	-1	None	LUSTR2
19	GPR108	ENSG00000125734	ENST00000598052	nonsense_mediated_decay	KNOWN	None	17829	437	144	6733245	6737550	-1	None	LUSTR2
19	GPR108	ENSG00000125734	ENST00000601716	protein_coding	NOVEL	None	17829	670	222	6733581	6737585	-1	None	LUSTR2
19	GPR108	ENSG00000125734	ENST00000595108	retained_intron	KNOWN	None	17829	None	None	6733946	6737332	-1	None	LUSTR2
19	GPR108	ENSG00000125734	ENST00000595620	retained_intron	KNOWN	None	17829	None	None	6735385	6737560	-1	None	LUSTR2
19	GPR108	ENSG00000125734	ENST00000601402	retained_intron	KNOWN	None	17829	None	None	6735633	6737284	-1	None	LUSTR2
19	GPR108	ENSG00000125734	ENST00000597043	retained_intron	KNOWN	None	17829	None	None	6735919	6736795	-1	None	LUSTR2
19	LYPD4	ENSG00000183103	ENST00000330743	protein_coding	KNOWN	CCDS12587	28659	741	246	42341148	42348736	-1	None	MGC42718
19	LYPD4	ENSG00000183103	ENST00000601246	protein_coding	KNOWN	None	28659	636	211	42341148	42348760	-1	None	MGC42718
19	LYPD4	ENSG00000183103	ENST00000343055	protein_coding	KNOWN	None	28659	636	211	42341148	42343359	-1	None	MGC42718
1	RABIF	ENSG00000183155	ENST00000367262	protein_coding	KNOWN	CCDS1428	9797	372	123	202848085	202858263	-1	RASGRF3	mss4
3	ECE2	ENSG00000145194	ENST00000324557	protein_coding	KNOWN	CCDS3255	13275	768	255	183967438	183977373	1	None	KIAA0604, MGC2408
3	ECE2	ENSG00000145194	ENST00000402825	protein_coding	KNOWN	CCDS3256	13275	2652	883	183967483	184010819	1	None	KIAA0604, MGC2408
3	ECE2	ENSG00000145194	ENST00000359140	protein_coding	KNOWN	CCDS33899	13275	2211	736	183993799	184010819	1	None	KIAA0604, MGC2408
3	ECE2	ENSG00000145194	ENST00000404464	protein_coding	KNOWN	CCDS46969	13275	2298	765	183993804	184010819	1	None	KIAA0604, MGC2408
3	ECE2	ENSG00000145194	ENST00000488401	retained_intron	KNOWN	None	13275	None	None	183993816	184009853	1	None	KIAA0604, MGC2408
3	ECE2	ENSG00000145194	ENST00000357474	protein_coding	NOVEL	CCDS43179	13275	2436	811	183993823	184010138	1	None	KIAA0604, MGC2408
3	ECE2	ENSG00000145194	ENST00000422932	nonsense_mediated_decay	KNOWN	None	13275	204	67	183993942	183995961	1	None	KIAA0604, MGC2408
3	ECE2	ENSG00000145194	ENST00000474750	retained_intron	KNOWN	None	13275	None	None	183993948	183995131	1	None	KIAA0604, MGC2408
3	ECE2	ENSG00000145194	ENST00000430587	protein_coding	PUTATIVE	None	13275	2151	716	183994392	184009718	1	None	KIAA0604, MGC2408
3	ECE2	ENSG00000145194	ENST00000490579	retained_intron	KNOWN	None	13275	None	None	183994718	184009005	1	None	KIAA0604, MGC2408
3	ECE2	ENSG00000145194	ENST00000462596	retained_intron	KNOWN	None	13275	None	None	183996003	183996696	1	None	KIAA0604, MGC2408
19	FFAR3	ENSG00000185897	ENST00000327809	protein_coding	KNOWN	CCDS12459	4499	1041	346	35849362	35851387	1	GPR41	FFA3R
19	FFAR3	ENSG00000185897	ENST00000594310	protein_coding	KNOWN	CCDS12459	4499	1041	346	35849723	35850904	1	GPR41	FFA3R
19	NCAN	ENSG00000130287	ENST00000252575	protein_coding	KNOWN	CCDS12397	2465	3966	1321	19322838	19363042	1	CSPG3	None
19	NCAN	ENSG00000130287	ENST00000590187	retained_intron	KNOWN	None	2465	None	None	19337652	19349601	1	CSPG3	None
19	NCAN	ENSG00000130287	ENST00000588231	nonsense_mediated_decay	KNOWN	None	2465	114	37	19349068	19360738	1	CSPG3	None
19	NCAN	ENSG00000130287	ENST00000585410	retained_intron	KNOWN	None	2465	None	None	19349201	19359828	1	CSPG3	None
19	NCAN	ENSG00000130287	ENST00000538881	protein_coding	KNOWN	None	2465	2319	772	19337818	19362760	1	CSPG3	None
11	DHCR7	ENSG00000172893	ENST00000534795	protein_coding	PUTATIVE	None	2860	349	115	71139239	71150111	-1	SLOS	None
11	DHCR7	ENSG00000172893	ENST00000407721	protein_coding	KNOWN	CCDS8200	2860	1428	475	71145460	71159439	-1	SLOS	None
11	DHCR7	ENSG00000172893	ENST00000355527	protein_coding	KNOWN	CCDS8200	2860	1428	475	71145460	71159481	-1	SLOS	None
11	DHCR7	ENSG00000172893	ENST00000533800	protein_coding	PUTATIVE	None	2860	666	221	71146011	71150005	-1	SLOS	None
11	DHCR7	ENSG00000172893	ENST00000525137	protein_coding	PUTATIVE	None	2860	738	245	71146354	71150122	-1	SLOS	None
11	DHCR7	ENSG00000172893	ENST00000527316	protein_coding	NOVEL	None	2860	776	257	71148949	71159433	-1	SLOS	None
11	DHCR7	ENSG00000172893	ENST00000534701	retained_intron	KNOWN	None	2860	None	None	71149795	71152393	-1	SLOS	None
11	DHCR7	ENSG00000172893	ENST00000526780	protein_coding	KNOWN	None	2860	493	163	71152406	71159124	-1	SLOS	None
11	DHCR7	ENSG00000172893	ENST00000525346	protein_coding	KNOWN	None	2860	324	107	71153397	71159390	-1	SLOS	None
11	DHCR7	ENSG00000172893	ENST00000531364	protein_coding	KNOWN	None	2860	317	104	71155043	71159402	-1	SLOS	None
11	DHCR7	ENSG00000172893	ENST00000529990	protein_coding	PUTATIVE	None	2860	220	72	71155080	71159411	-1	SLOS	None
11	DHCR7	ENSG00000172893	ENST00000527452	protein_coding	KNOWN	None	2860	273	90	71155087	71163914	-1	SLOS	None
19	ZNF28	ENSG00000198538	ENST00000438150	protein_coding	PUTATIVE	None	13073	1998	665	53300662	53309274	-1	None	KOX24, DKFZp781D0275
19	ZNF28	ENSG00000198538	ENST00000457749	protein_coding	KNOWN	CCDS33093	13073	2157	718	53300662	53324885	-1	None	KOX24, DKFZp781D0275
19	ZNF28	ENSG00000198538	ENST00000391783	protein_coding	PUTATIVE	None	13073	1638	545	53303301	53324922	-1	None	KOX24, DKFZp781D0275
19	ZNF28	ENSG00000198538	ENST00000596559	protein_coding	NOVEL	None	13073	526	174	53304563	53360853	-1	None	KOX24, DKFZp781D0275
19	ZNF28	ENSG00000198538	ENST00000594602	protein_coding	PUTATIVE	None	13073	390	129	53304634	53360853	-1	None	KOX24, DKFZp781D0275
19	ZNF28	ENSG00000198538	ENST00000339844	protein_coding	PUTATIVE	None	13073	240	79	53304710	53313700	-1	None	KOX24, DKFZp781D0275
19	ZNF28	ENSG00000198538	ENST00000464469	processed_transcript	KNOWN	None	13073	None	None	53311129	53324886	-1	None	KOX24, DKFZp781D0275
19	ZNF28	ENSG00000198538	ENST00000542421	processed_transcript	PUTATIVE	None	13073	None	None	53317537	53321281	-1	None	KOX24, DKFZp781D0275
19	ZNF28	ENSG00000198538	ENST00000360272	protein_coding	KNOWN	None	13073	1998	665	53301176	53311341	-1	None	KOX24, DKFZp781D0275
19	ZNF28	ENSG00000198538	ENST00000414252	protein_coding	KNOWN	None	13073	1998	665	53302872	53324922	-1	None	KOX24, DKFZp781D0275
5	None	ENSG00000249201	ENST00000514376	antisense	KNOWN	None	None	None	None	1173256	1178720	-1	None	None
5	None	ENSG00000249201	ENST00000512572	antisense	KNOWN	None	None	None	None	1175512	1178709	-1	None	None
5	None	ENSG00000249201	ENST00000505972	antisense	KNOWN	None	None	None	None	1176072	1178661	-1	None	None
5	SAP30L	ENSG00000164576	ENST00000297109	protein_coding	KNOWN	CCDS4326	25663	552	183	153825517	153840614	1	None	FLJ11526, NS4ATP2
5	SAP30L	ENSG00000164576	ENST00000523198	processed_transcript	KNOWN	None	25663	None	None	153826105	153835528	1	None	FLJ11526, NS4ATP2
5	SAP30L	ENSG00000164576	ENST00000440364	protein_coding	KNOWN	CCDS47321	25663	429	142	153826105	153835891	1	None	FLJ11526, NS4ATP2
5	SAP30L	ENSG00000164576	ENST00000426761	protein_coding	KNOWN	CCDS47322	25663	414	137	153826105	153835891	1	None	FLJ11526, NS4ATP2
5	SAP30L	ENSG00000164576	ENST00000520159	processed_transcript	KNOWN	None	25663	None	None	153826114	153833045	1	None	FLJ11526, NS4ATP2
5	SAP30L	ENSG00000164576	ENST00000519683	retained_intron	KNOWN	None	25663	None	None	153826182	153830876	1	None	FLJ11526, NS4ATP2
5	SAP30L	ENSG00000164576	ENST00000523029	retained_intron	KNOWN	None	25663	None	None	153831958	153835709	1	None	FLJ11526, NS4ATP2
5	SAP30L	ENSG00000164576	ENST00000520731	processed_transcript	KNOWN	None	25663	None	None	153832003	153835709	1	None	FLJ11526, NS4ATP2
5	SAP30L	ENSG00000164576	ENST00000517926	retained_intron	KNOWN	None	25663	None	None	153832638	153835828	1	None	FLJ11526, NS4ATP2
9	DPH7	ENSG00000148399	ENST00000467243	processed_transcript	KNOWN	None	25199	None	None	140449356	140459451	-1	C9orf112, WDR85	FLJ90634, RRT2
9	DPH7	ENSG00000148399	ENST00000479650	processed_transcript	KNOWN	None	25199	None	None	140449356	140473340	-1	C9orf112, WDR85	FLJ90634, RRT2
9	DPH7	ENSG00000148399	ENST00000277540	protein_coding	KNOWN	CCDS7047	25199	1359	452	140449361	140473387	-1	C9orf112, WDR85	FLJ90634, RRT2
9	DPH7	ENSG00000148399	ENST00000497237	processed_transcript	KNOWN	None	25199	None	None	140451055	140459945	-1	C9orf112, WDR85	FLJ90634, RRT2
9	DPH7	ENSG00000148399	ENST00000475100	processed_transcript	KNOWN	None	25199	None	None	140458923	140473342	-1	C9orf112, WDR85	FLJ90634, RRT2
9	DPH7	ENSG00000148399	ENST00000472113	processed_transcript	KNOWN	None	25199	None	None	140459001	140473341	-1	C9orf112, WDR85	FLJ90634, RRT2
9	DPH7	ENSG00000148399	ENST00000485189	processed_transcript	KNOWN	None	25199	None	None	140459036	140469668	-1	C9orf112, WDR85	FLJ90634, RRT2
9	DPH7	ENSG00000148399	ENST00000467768	processed_transcript	KNOWN	None	25199	None	None	140459348	140473340	-1	C9orf112, WDR85	FLJ90634, RRT2
9	DPH7	ENSG00000148399	ENST00000477690	processed_transcript	KNOWN	None	25199	None	None	140459549	140469821	-1	C9orf112, WDR85	FLJ90634, RRT2
9	DPH7	ENSG00000148399	ENST00000470855	processed_transcript	KNOWN	None	25199	None	None	140468659	140472992	-1	C9orf112, WDR85	FLJ90634, RRT2
9	DPH7	ENSG00000148399	ENST00000481839	processed_transcript	KNOWN	None	25199	None	None	140468667	140473001	-1	C9orf112, WDR85	FLJ90634, RRT2
9	DPH7	ENSG00000148399	ENST00000476303	processed_transcript	KNOWN	None	25199	None	None	140468716	140473327	-1	C9orf112, WDR85	FLJ90634, RRT2
9	DPH7	ENSG00000148399	ENST00000460572	processed_transcript	KNOWN	None	25199	None	None	140469204	140473169	-1	C9orf112, WDR85	FLJ90634, RRT2
9	DPH7	ENSG00000148399	ENST00000491359	processed_transcript	KNOWN	None	25199	None	None	140469905	140473360	-1	C9orf112, WDR85	FLJ90634, RRT2
15	MFGE8	ENSG00000140545	ENST00000558018	nonsense_mediated_decay	KNOWN	None	7036	78	25	89441916	89456610	-1	SPAG10	SED1, EDIL1, BA46, OAcGD3S, HsT19888, MFG-E8, hP47
15	MFGE8	ENSG00000140545	ENST00000268151	protein_coding	NOVEL	CCDS45345	7036	1008	335	89441944	89456612	-1	SPAG10	SED1, EDIL1, BA46, OAcGD3S, HsT19888, MFG-E8, hP47
15	MFGE8	ENSG00000140545	ENST00000268150	protein_coding	KNOWN	CCDS10347	7036	1164	387	89441945	89456642	-1	SPAG10	SED1, EDIL1, BA46, OAcGD3S, HsT19888, MFG-E8, hP47
15	MFGE8	ENSG00000140545	ENST00000566497	protein_coding	NOVEL	CCDS10347	7036	1164	387	89441946	89456612	-1	SPAG10	SED1, EDIL1, BA46, OAcGD3S, HsT19888, MFG-E8, hP47
15	MFGE8	ENSG00000140545	ENST00000560937	retained_intron	KNOWN	None	7036	None	None	89442529	89445191	-1	SPAG10	SED1, EDIL1, BA46, OAcGD3S, HsT19888, MFG-E8, hP47
15	MFGE8	ENSG00000140545	ENST00000542878	protein_coding	NOVEL	None	7036	1032	343	89442546	89456610	-1	SPAG10	SED1, EDIL1, BA46, OAcGD3S, HsT19888, MFG-E8, hP47
15	MFGE8	ENSG00000140545	ENST00000558029	protein_coding	PUTATIVE	None	7036	806	267	89444782	89456593	-1	SPAG10	SED1, EDIL1, BA46, OAcGD3S, HsT19888, MFG-E8, hP47
15	MFGE8	ENSG00000140545	ENST00000560553	processed_transcript	PUTATIVE	None	7036	None	None	89447021	89448159	-1	SPAG10	SED1, EDIL1, BA46, OAcGD3S, HsT19888, MFG-E8, hP47
15	MFGE8	ENSG00000140545	ENST00000559259	retained_intron	KNOWN	None	7036	None	None	89448613	89449947	-1	SPAG10	SED1, EDIL1, BA46, OAcGD3S, HsT19888, MFG-E8, hP47
15	MFGE8	ENSG00000140545	ENST00000559997	processed_transcript	KNOWN	None	7036	None	None	89448630	89456610	-1	SPAG10	SED1, EDIL1, BA46, OAcGD3S, HsT19888, MFG-E8, hP47
15	MFGE8	ENSG00000140545	ENST00000558352	retained_intron	KNOWN	None	7036	None	None	89449294	89456610	-1	SPAG10	SED1, EDIL1, BA46, OAcGD3S, HsT19888, MFG-E8, hP47
15	MFGE8	ENSG00000140545	ENST00000559770	retained_intron	KNOWN	None	7036	None	None	89449846	89453356	-1	SPAG10	SED1, EDIL1, BA46, OAcGD3S, HsT19888, MFG-E8, hP47
15	MFGE8	ENSG00000140545	ENST00000559143	retained_intron	KNOWN	None	7036	None	None	89453023	89453488	-1	SPAG10	SED1, EDIL1, BA46, OAcGD3S, HsT19888, MFG-E8, hP47
15	MFGE8	ENSG00000140545	ENST00000558773	retained_intron	KNOWN	None	7036	None	None	89453435	89456548	-1	SPAG10	SED1, EDIL1, BA46, OAcGD3S, HsT19888, MFG-E8, hP47
15	MFGE8	ENSG00000140545	ENST00000557944	retained_intron	KNOWN	None	7036	None	None	89454011	89456593	-1	SPAG10	SED1, EDIL1, BA46, OAcGD3S, HsT19888, MFG-E8, hP47
15	MFGE8	ENSG00000140545	ENST00000539437	protein_coding	KNOWN	None	7036	1140	379	89441916	89456610	-1	SPAG10	SED1, EDIL1, BA46, OAcGD3S, HsT19888, MFG-E8, hP47
10	None	ENSG00000226646	ENST00000425095	processed_pseudogene	KNOWN	None	None	None	None	35986228	35986965	1	None	None
HSCHR6_MHC_COX	DPCR1	ENSG00000232308	ENST00000416153	protein_coding	KNOWN	None	21666	1524	507	30908600	30911697	1	None	PBLT, bCX105N19.6
20	MOCS3	ENSG00000124217	ENST00000244051	protein_coding	KNOWN	CCDS13435	15765	1383	460	49575363	49577820	1	None	UBA4, dJ914P20.3
10	None	ENSG00000227313	ENST00000442783	lincRNA	KNOWN	None	None	None	None	36185802	36187891	-1	None	None
4	COX18	ENSG00000163626	ENST00000295890	protein_coding	KNOWN	CCDS3554	26801	1002	333	73921797	73935458	-1	None	FLJ38991
4	COX18	ENSG00000163626	ENST00000449739	nonsense_mediated_decay	KNOWN	None	26801	390	129	73921797	73935458	-1	None	FLJ38991
4	COX18	ENSG00000163626	ENST00000507544	protein_coding	NOVEL	None	26801	1005	334	73923793	73935409	-1	None	FLJ38991
4	COX18	ENSG00000163626	ENST00000510031	nonsense_mediated_decay	KNOWN	None	26801	384	127	73923831	73935443	-1	None	FLJ38991
4	COX18	ENSG00000163626	ENST00000421792	processed_transcript	PUTATIVE	None	26801	None	None	73934268	73935472	-1	None	FLJ38991
10	None	ENSG00000227475	ENST00000412439	lincRNA	KNOWN	None	None	None	None	36378014	36378317	-1	None	None
2	DHRS9	ENSG00000073737	ENST00000602501	protein_coding	KNOWN	CCDS2231	16888	960	319	169921299	169952677	1	None	RDHL, 3alpha-HSD, RETSDR8, RDH15, SDR9C4
2	DHRS9	ENSG00000073737	ENST00000357546	protein_coding	KNOWN	CCDS2231	16888	960	319	169923545	169952677	1	None	RDHL, 3alpha-HSD, RETSDR8, RDH15, SDR9C4
2	DHRS9	ENSG00000073737	ENST00000428522	protein_coding	KNOWN	CCDS2231	16888	960	319	169926066	169952672	1	None	RDHL, 3alpha-HSD, RETSDR8, RDH15, SDR9C4
2	DHRS9	ENSG00000073737	ENST00000450153	protein_coding	KNOWN	None	16888	198	65	169926072	169938289	1	None	RDHL, 3alpha-HSD, RETSDR8, RDH15, SDR9C4
2	DHRS9	ENSG00000073737	ENST00000421653	protein_coding	KNOWN	None	16888	519	172	169926086	169952277	1	None	RDHL, 3alpha-HSD, RETSDR8, RDH15, SDR9C4
2	DHRS9	ENSG00000073737	ENST00000436483	protein_coding	KNOWN	CCDS2231	16888	960	319	169929010	169952677	1	None	RDHL, 3alpha-HSD, RETSDR8, RDH15, SDR9C4
2	DHRS9	ENSG00000073737	ENST00000432060	protein_coding	KNOWN	None	16888	1140	379	169923587	169952469	1	None	RDHL, 3alpha-HSD, RETSDR8, RDH15, SDR9C4
2	DHRS9	ENSG00000073737	ENST00000327239	protein_coding	KNOWN	CCDS2231	16888	960	319	169921299	169952677	1	None	RDHL, 3alpha-HSD, RETSDR8, RDH15, SDR9C4
2	DHRS9	ENSG00000073737	ENST00000412271	protein_coding	KNOWN	CCDS2231	16888	960	319	169937617	169952677	1	None	RDHL, 3alpha-HSD, RETSDR8, RDH15, SDR9C4
1	KLHL12	ENSG00000117153	ENST00000367261	protein_coding	KNOWN	CCDS1429	19360	1707	568	202860228	202896390	-1	None	C3IP1
1	KLHL12	ENSG00000117153	ENST00000367259	protein_coding	KNOWN	None	19360	615	204	202860244	202878289	-1	None	C3IP1
1	KLHL12	ENSG00000117153	ENST00000367258	protein_coding	KNOWN	None	19360	946	314	202878138	202897764	-1	None	C3IP1
1	KLHL12	ENSG00000117153	ENST00000435533	protein_coding	KNOWN	None	19360	1821	606	202861533	202897727	-1	None	C3IP1
10	MTND5P17	ENSG00000236626	ENST00000418405	processed_pseudogene	KNOWN	None	42279	None	None	36721810	36723412	-1	None	None
10	MTND4P18	ENSG00000228694	ENST00000447010	processed_pseudogene	KNOWN	None	42205	None	None	36723638	36724102	-1	None	None
19	GPR42	ENSG00000126251	ENST00000454971	protein_coding	KNOWN	None	4500	1041	346	35861831	35863855	1	GPR42P	GPR41L, FFAR3L
19	GPR42	ENSG00000126251	ENST00000597214	protein_coding	KNOWN	None	4500	1041	346	35862192	35863373	1	GPR42P	GPR41L, FFAR3L
10	None	ENSG00000237998	ENST00000593382	antisense	KNOWN	None	None	None	None	72625245	72626128	-1	None	None
HSCHR6_MHC_MANN	HLA-V	ENSG00000224736	ENST00000451633	processed_transcript	KNOWN	None	23482	None	None	29755659	29757569	1	HLA-75	dJ377H14.4
HSCHR6_MHC_MANN	HLA-V	ENSG00000224736	ENST00000418181	processed_transcript	KNOWN	None	23482	None	None	29755753	29757900	1	HLA-75	dJ377H14.4
HSCHR6_MHC_MANN	HLA-V	ENSG00000224736	ENST00000443186	processed_transcript	KNOWN	None	23482	None	None	29756151	29762533	1	HLA-75	dJ377H14.4
HSCHR6_MHC_MANN	HLA-V	ENSG00000224736	ENST00000467094	processed_transcript	KNOWN	None	23482	None	None	29756705	29762533	1	HLA-75	dJ377H14.4
HSCHR6_MHC_MANN	HLA-V	ENSG00000224736	ENST00000420384	processed_transcript	KNOWN	None	23482	None	None	29757022	29762533	1	HLA-75	dJ377H14.4
HSCHR6_MHC_MANN	HLA-V	ENSG00000224736	ENST00000431106	transcribed_unprocessed_pseudogene	KNOWN	None	23482	None	None	29757033	29757935	1	HLA-75	dJ377H14.4
20	KCNG1	ENSG00000026559	ENST00000371571	protein_coding	KNOWN	CCDS13436	6248	1542	513	49620193	49639666	-1	KCNG	Kv6.1, kH2, K13
20	KCNG1	ENSG00000026559	ENST00000439216	protein_coding	KNOWN	None	6248	774	257	49626102	49639644	-1	KCNG	Kv6.1, kH2, K13
20	KCNG1	ENSG00000026559	ENST00000424171	protein_coding	KNOWN	None	6248	542	179	49626334	49639631	-1	KCNG	Kv6.1, kH2, K13
20	KCNG1	ENSG00000026559	ENST00000433903	protein_coding	KNOWN	None	6248	290	95	49626586	49639618	-1	KCNG	Kv6.1, kH2, K13
20	KCNG1	ENSG00000026559	ENST00000447736	protein_coding	KNOWN	None	6248	144	47	49626732	49630645	-1	KCNG	Kv6.1, kH2, K13
20	KCNG1	ENSG00000026559	ENST00000396017	protein_coding	KNOWN	None	6248	828	275	49625219	49639617	-1	KCNG	Kv6.1, kH2, K13
10	None	ENSG00000271409	ENST00000603033	lincRNA	KNOWN	None	None	None	None	72689682	72691814	1	None	None
HSCHR6_MHC_QBL	POU5F1	ENSG00000206454	ENST00000497087	processed_transcript	KNOWN	None	9221	None	None	31124569	31125526	-1	OTF3	OCT3, Oct4, MGC22487
HSCHR6_MHC_QBL	POU5F1	ENSG00000206454	ENST00000376243	protein_coding	KNOWN	None	9221	798	265	31124569	31126510	-1	OTF3	OCT3, Oct4, MGC22487
HSCHR6_MHC_QBL	POU5F1	ENSG00000206454	ENST00000383524	protein_coding	KNOWN	None	9221	1083	360	31124569	31130942	-1	OTF3	OCT3, Oct4, MGC22487
HSCHR6_MHC_QBL	POU5F1	ENSG00000206454	ENST00000489334	retained_intron	KNOWN	None	9221	None	None	31125934	31130907	-1	OTF3	OCT3, Oct4, MGC22487
HSCHR6_MHC_QBL	POU5F1	ENSG00000206454	ENST00000553206	protein_coding	KNOWN	None	9221	369	122	31119639	31130869	-1	OTF3	OCT3, Oct4, MGC22487
HSCHR6_MHC_QBL	POU5F1	ENSG00000206454	ENST00000550572	protein_coding	KNOWN	None	9221	558	185	31124570	31130923	-1	OTF3	OCT3, Oct4, MGC22487
10	None	ENSG00000259267	ENST00000560700	lincRNA	KNOWN	None	None	None	None	72698810	72715398	1	None	None
10	None	ENSG00000259267	ENST00000558852	lincRNA	KNOWN	None	None	None	None	72698890	72703899	1	None	None
19	FFAR2	ENSG00000126262	ENST00000601590	processed_transcript	PUTATIVE	None	4501	None	None	35934809	35942358	1	GPR43	FFA2R
19	FFAR2	ENSG00000126262	ENST00000599180	protein_coding	KNOWN	CCDS12461	4501	993	330	35939203	35942667	1	GPR43	FFA2R
19	FFAR2	ENSG00000126262	ENST00000246549	protein_coding	KNOWN	CCDS12461	4501	993	330	35940617	35942667	1	GPR43	FFA2R
21	KRTAP13-1	ENSG00000198390	ENST00000355459	protein_coding	KNOWN	CCDS13590	18924	519	172	31768392	31769136	1	None	KAP13.1
11	CLNS1A	ENSG00000074201	ENST00000526761	nonsense_mediated_decay	KNOWN	None	2080	68	21	77225981	77330740	-1	CLCI	ICln
11	CLNS1A	ENSG00000074201	ENST00000533957	processed_transcript	PUTATIVE	None	2080	None	None	77323276	77324086	-1	CLCI	ICln
11	CLNS1A	ENSG00000074201	ENST00000525428	protein_coding	KNOWN	CCDS8252	2080	714	237	77325575	77348850	-1	CLCI	ICln
11	CLNS1A	ENSG00000074201	ENST00000263309	protein_coding	NOVEL	None	2080	612	203	77327240	77348796	-1	CLCI	ICln
11	CLNS1A	ENSG00000074201	ENST00000525064	protein_coding	NOVEL	None	2080	540	179	77327240	77348817	-1	CLCI	ICln
11	CLNS1A	ENSG00000074201	ENST00000526009	nonsense_mediated_decay	KNOWN	None	2080	70	22	77327295	77333576	-1	CLCI	ICln
11	CLNS1A	ENSG00000074201	ENST00000532069	protein_coding	NOVEL	None	2080	504	167	77327449	77348839	-1	CLCI	ICln
11	CLNS1A	ENSG00000074201	ENST00000528364	protein_coding	KNOWN	CCDS8252	2080	714	237	77329578	77348821	-1	CLCI	ICln
11	CLNS1A	ENSG00000074201	ENST00000527299	retained_intron	KNOWN	None	2080	None	None	77330529	77333719	-1	CLCI	ICln
11	CLNS1A	ENSG00000074201	ENST00000527133	nonsense_mediated_decay	KNOWN	None	2080	150	49	77330651	77348827	-1	CLCI	ICln
11	CLNS1A	ENSG00000074201	ENST00000525359	retained_intron	KNOWN	None	2080	None	None	77333505	77336076	-1	CLCI	ICln
11	CLNS1A	ENSG00000074201	ENST00000527265	retained_intron	KNOWN	None	2080	None	None	77333688	77336596	-1	CLCI	ICln
21	KRTAP13-3	ENSG00000240432	ENST00000390690	protein_coding	KNOWN	CCDS13591	18925	519	172	31797583	31798286	-1	None	KAP13.3
16	ZNF469	ENSG00000225614	ENST00000565624	protein_coding	NOVEL	None	23216	11862	3953	88493879	88507157	1	None	KIAA1858
16	ZNF469	ENSG00000225614	ENST00000437464	protein_coding	KNOWN	CCDS45544	23216	11778	3925	88493879	88507165	1	None	KIAA1858
15	SECISBP2L	ENSG00000138593	ENST00000561428	protein_coding	PUTATIVE	None	28997	287	94	49280673	49288686	-1	None	KIAA0256
15	SECISBP2L	ENSG00000138593	ENST00000559471	protein_coding	KNOWN	CCDS53942	28997	3306	1101	49280835	49338760	-1	None	KIAA0256
15	SECISBP2L	ENSG00000138593	ENST00000261847	protein_coding	KNOWN	CCDS32234	28997	3171	1056	49280967	49338630	-1	None	KIAA0256
15	SECISBP2L	ENSG00000138593	ENST00000380927	protein_coding	PUTATIVE	None	28997	1892	629	49288581	49338643	-1	None	KIAA0256
15	SECISBP2L	ENSG00000138593	ENST00000559122	processed_transcript	PUTATIVE	None	28997	None	None	49292117	49294138	-1	None	KIAA0256
15	SECISBP2L	ENSG00000138593	ENST00000559198	retained_intron	KNOWN	None	28997	None	None	49303744	49305338	-1	None	KIAA0256
15	SECISBP2L	ENSG00000138593	ENST00000561203	retained_intron	KNOWN	None	28997	None	None	49308633	49309250	-1	None	KIAA0256
15	SECISBP2L	ENSG00000138593	ENST00000557940	retained_intron	KNOWN	None	28997	None	None	49309114	49311844	-1	None	KIAA0256
15	SECISBP2L	ENSG00000138593	ENST00000559424	protein_coding	NOVEL	None	28997	936	311	49309144	49338644	-1	None	KIAA0256
15	SECISBP2L	ENSG00000138593	ENST00000558461	retained_intron	KNOWN	None	28997	None	None	49309149	49309990	-1	None	KIAA0256
15	SECISBP2L	ENSG00000138593	ENST00000557923	retained_intron	KNOWN	None	28997	None	None	49329592	49338643	-1	None	KIAA0256
21	KRTAP13-4	ENSG00000186971	ENST00000334068	protein_coding	KNOWN	CCDS13592	18926	483	160	31802572	31803216	1	None	KAP13.4
2	XPO1	ENSG00000082898	ENST00000401558	protein_coding	KNOWN	CCDS33205	12825	3216	1071	61704984	61765418	-1	None	CRM1, emb
2	XPO1	ENSG00000082898	ENST00000428210	nonsense_mediated_decay	KNOWN	None	12825	249	82	61705069	61765366	-1	None	CRM1, emb
2	XPO1	ENSG00000082898	ENST00000481073	retained_intron	KNOWN	None	12825	None	None	61705070	61721878	-1	None	CRM1, emb
2	XPO1	ENSG00000082898	ENST00000404992	protein_coding	KNOWN	CCDS33205	12825	3216	1071	61705473	61764245	-1	None	CRM1, emb
2	XPO1	ENSG00000082898	ENST00000406957	protein_coding	KNOWN	CCDS33205	12825	3216	1071	61705835	61765383	-1	None	CRM1, emb
2	XPO1	ENSG00000082898	ENST00000492182	retained_intron	KNOWN	None	12825	None	None	61709760	61713093	-1	None	CRM1, emb
2	XPO1	ENSG00000082898	ENST00000461407	retained_intron	KNOWN	None	12825	None	None	61709760	61715798	-1	None	CRM1, emb
2	XPO1	ENSG00000082898	ENST00000494468	processed_transcript	PUTATIVE	None	12825	None	None	61712719	61715798	-1	None	CRM1, emb
2	XPO1	ENSG00000082898	ENST00000469337	retained_intron	KNOWN	None	12825	None	None	61719477	61720129	-1	None	CRM1, emb
2	XPO1	ENSG00000082898	ENST00000460037	retained_intron	KNOWN	None	12825	None	None	61720773	61722708	-1	None	CRM1, emb
2	XPO1	ENSG00000082898	ENST00000475744	retained_intron	KNOWN	None	12825	None	None	61724096	61726009	-1	None	CRM1, emb
2	XPO1	ENSG00000082898	ENST00000437159	nonsense_mediated_decay	KNOWN	None	12825	219	72	61724129	61753653	-1	None	CRM1, emb
2	XPO1	ENSG00000082898	ENST00000489954	retained_intron	KNOWN	None	12825	None	None	61726852	61729743	-1	None	CRM1, emb
2	XPO1	ENSG00000082898	ENST00000451765	protein_coding	KNOWN	None	12825	538	178	61726900	61764252	-1	None	CRM1, emb
2	XPO1	ENSG00000082898	ENST00000443240	protein_coding	KNOWN	None	12825	398	131	61729141	61765761	-1	None	CRM1, emb
2	XPO1	ENSG00000082898	ENST00000476585	processed_transcript	PUTATIVE	None	12825	None	None	61729281	61753658	-1	None	CRM1, emb
2	XPO1	ENSG00000082898	ENST00000468259	processed_transcript	PUTATIVE	None	12825	None	None	61729425	61752910	-1	None	CRM1, emb
2	XPO1	ENSG00000082898	ENST00000420673	protein_coding	KNOWN	None	12825	301	99	61749746	61761413	-1	None	CRM1, emb
2	XPO1	ENSG00000082898	ENST00000422552	protein_coding	KNOWN	None	12825	286	94	61749761	61761647	-1	None	CRM1, emb
2	XPO1	ENSG00000082898	ENST00000457483	protein_coding	KNOWN	None	12825	282	93	61749765	61764775	-1	None	CRM1, emb
2	XPO1	ENSG00000082898	ENST00000481214	processed_transcript	PUTATIVE	None	12825	None	None	61753202	61764829	-1	None	CRM1, emb
2	XPO1	ENSG00000082898	ENST00000495003	processed_transcript	PUTATIVE	None	12825	None	None	61753286	61761103	-1	None	CRM1, emb
2	XPO1	ENSG00000082898	ENST00000449444	protein_coding	KNOWN	None	12825	186	61	61753597	61763723	-1	None	CRM1, emb
2	XPO1	ENSG00000082898	ENST00000436018	protein_coding	KNOWN	None	12825	177	58	61753606	61765761	-1	None	CRM1, emb
21	KRTAP15-1	ENSG00000186970	ENST00000334067	protein_coding	KNOWN	CCDS13593	18927	414	137	31812597	31813070	1	None	KAP15.1
22	None	ENSG00000073169	ENST00000380903	protein_coding	KNOWN	CCDS43034	None	2010	669	50639408	50656045	1	None	None
22	None	ENSG00000073169	ENST00000492092	processed_transcript	KNOWN	None	None	None	None	50644871	50656045	1	None	None
21	KRTAP19-1	ENSG00000184351	ENST00000390689	protein_coding	KNOWN	CCDS13594	18936	273	90	31852018	31852663	-1	None	KAP19.1
10	HIF1AN	ENSG00000166135	ENST00000533589	protein_coding	KNOWN	None	17113	573	190	102288829	102306338	1	None	FLJ20615, DKFZp762F1811, FLJ22027, FIH1
10	HIF1AN	ENSG00000166135	ENST00000299163	protein_coding	KNOWN	CCDS7498	17113	1050	349	102295616	102313681	1	None	FLJ20615, DKFZp762F1811, FLJ22027, FIH1
10	HIF1AN	ENSG00000166135	ENST00000526476	nonsense_mediated_decay	KNOWN	None	17113	108	35	102295672	102305725	1	None	FLJ20615, DKFZp762F1811, FLJ22027, FIH1
10	HIF1AN	ENSG00000166135	ENST00000528044	processed_transcript	KNOWN	None	17113	None	None	102295955	102300485	1	None	FLJ20615, DKFZp762F1811, FLJ22027, FIH1
10	HIF1AN	ENSG00000166135	ENST00000478787	retained_intron	KNOWN	None	17113	None	None	102296227	102305254	1	None	FLJ20615, DKFZp762F1811, FLJ22027, FIH1
HSCHR6_MHC_MANN	HCG4	ENSG00000226379	ENST00000446132	unprocessed_pseudogene	KNOWN	None	21241	None	None	29756552	29757549	-1	HCG4P10	HCGIV-10, HCGIV.9
HSCHR6_MHC_MANN	HCG4	ENSG00000226379	ENST00000547635	pseudogene	KNOWN	None	21241	None	None	29755838	29757872	-1	HCG4P10	HCGIV-10, HCGIV.9
10	PPAPDC1A	ENSG00000203805	ENST00000427079	protein_coding	KNOWN	None	23531	801	266	122216734	122348999	1	PPAPDC1	None
10	PPAPDC1A	ENSG00000203805	ENST00000369073	protein_coding	KNOWN	None	23531	786	261	122263091	122349363	1	PPAPDC1	None
10	PPAPDC1A	ENSG00000203805	ENST00000496437	processed_transcript	KNOWN	None	23531	None	None	122334700	122347008	1	PPAPDC1	None
10	PPAPDC1A	ENSG00000203805	ENST00000398250	protein_coding	KNOWN	CCDS41573	23531	816	271	122216466	122349367	1	PPAPDC1	None
10	PPAPDC1A	ENSG00000203805	ENST00000439221	protein_coding	KNOWN	None	23531	627	208	122216466	122349367	1	PPAPDC1	None
10	PPAPDC1A	ENSG00000203805	ENST00000398248	protein_coding	KNOWN	None	23531	291	96	122216466	122349367	1	PPAPDC1	None
10	PPAPDC1A	ENSG00000203805	ENST00000541332	protein_coding	KNOWN	None	23531	702	233	122216759	122341158	1	PPAPDC1	None
21	KRTAP19-2	ENSG00000186965	ENST00000334055	protein_coding	KNOWN	CCDS13595	18937	159	52	31859362	31859755	-1	None	KAP19.2
6	HACE1	ENSG00000085382	ENST00000262903	protein_coding	KNOWN	CCDS5050	21033	2730	909	105175968	105307794	-1	None	KIAA1320
6	HACE1	ENSG00000085382	ENST00000369127	retained_intron	KNOWN	None	21033	None	None	105175970	105235289	-1	None	KIAA1320
6	HACE1	ENSG00000085382	ENST00000517995	processed_transcript	KNOWN	None	21033	None	None	105175972	105230330	-1	None	KIAA1320
6	HACE1	ENSG00000085382	ENST00000416605	nonsense_mediated_decay	KNOWN	None	21033	537	178	105175972	105307752	-1	None	KIAA1320
6	HACE1	ENSG00000085382	ENST00000369125	protein_coding	NOVEL	None	21033	2085	694	105176797	105307794	-1	None	KIAA1320
6	HACE1	ENSG00000085382	ENST00000518402	protein_coding	NOVEL	None	21033	901	299	105176917	105224966	-1	None	KIAA1320
6	HACE1	ENSG00000085382	ENST00000518503	protein_coding	NOVEL	None	21033	988	328	105176917	105231973	-1	None	KIAA1320
6	HACE1	ENSG00000085382	ENST00000518228	retained_intron	KNOWN	None	21033	None	None	105177045	105180245	-1	None	KIAA1320
6	HACE1	ENSG00000085382	ENST00000517424	nonsense_mediated_decay	KNOWN	None	21033	527	174	105177193	105233073	-1	None	KIAA1320
6	HACE1	ENSG00000085382	ENST00000519645	protein_coding	NOVEL	None	21033	622	206	105244592	105307754	-1	None	KIAA1320
6	HACE1	ENSG00000085382	ENST00000524020	protein_coding	PUTATIVE	None	21033	414	137	105280935	105307435	-1	None	KIAA1320
6	HACE1	ENSG00000085382	ENST00000521962	nonsense_mediated_decay	KNOWN	None	21033	133	43	105291098	105307479	-1	None	KIAA1320
21	KRTAP19-3	ENSG00000244025	ENST00000334063	protein_coding	KNOWN	CCDS13596	18938	246	81	31863782	31864275	-1	None	KAP19.3
HSCHR6_MHC_MANN	HLA-P	ENSG00000261134	ENST00000564924	unprocessed_pseudogene	KNOWN	None	21196	None	None	29765137	29767145	1	C6orf101, HLA-90	dJ377H14.3
17	LLGL1	ENSG00000131899	ENST00000316843	protein_coding	KNOWN	CCDS32586	6628	3195	1064	18128901	18148189	1	DLG4, LLGL, HUGL, HUGL-1	None
17	LLGL1	ENSG00000131899	ENST00000479155	retained_intron	KNOWN	None	6628	None	None	18137216	18148189	1	DLG4, LLGL, HUGL, HUGL-1	None
16	FBXL8	ENSG00000135722	ENST00000258200	protein_coding	KNOWN	CCDS10831	17875	1125	374	67193834	67198079	1	None	Fbl8
16	FBXL8	ENSG00000135722	ENST00000518148	protein_coding	PUTATIVE	None	17875	156	51	67193835	67196566	1	None	Fbl8
16	FBXL8	ENSG00000135722	ENST00000519945	nonsense_mediated_decay	KNOWN	None	17875	204	67	67193852	67197968	1	None	Fbl8
16	FBXL8	ENSG00000135722	ENST00000519917	protein_coding	KNOWN	CCDS10831	17875	1125	374	67193864	67198077	1	None	Fbl8
16	FBXL8	ENSG00000135722	ENST00000517382	protein_coding	PUTATIVE	None	17875	408	135	67193876	67198473	1	None	Fbl8
16	FBXL8	ENSG00000135722	ENST00000521920	protein_coding	PUTATIVE	None	17875	189	62	67193908	67196857	1	None	Fbl8
16	FBXL8	ENSG00000135722	ENST00000523893	protein_coding	KNOWN	None	17875	386	127	67195023	67196984	1	None	Fbl8
16	FBXL8	ENSG00000135722	ENST00000519378	protein_coding	KNOWN	None	17875	489	162	67195592	67197087	1	None	Fbl8
5	GNPDA1	ENSG00000113552	ENST00000513454	protein_coding	PUTATIVE	None	4417	825	274	141371314	141392592	-1	GNPI	GNPDA, HLN, GPI, KIAA0060
5	GNPDA1	ENSG00000113552	ENST00000311337	protein_coding	KNOWN	CCDS4272	4417	870	289	141380234	141392596	-1	GNPI	GNPDA, HLN, GPI, KIAA0060
5	GNPDA1	ENSG00000113552	ENST00000500692	protein_coding	KNOWN	CCDS4272	4417	870	289	141380239	141392595	-1	GNPI	GNPDA, HLN, GPI, KIAA0060
5	GNPDA1	ENSG00000113552	ENST00000508177	protein_coding	KNOWN	CCDS4272	4417	870	289	141380243	141392359	-1	GNPI	GNPDA, HLN, GPI, KIAA0060
5	GNPDA1	ENSG00000113552	ENST00000503794	protein_coding	KNOWN	CCDS4272	4417	870	289	141380243	141392538	-1	GNPI	GNPDA, HLN, GPI, KIAA0060
5	GNPDA1	ENSG00000113552	ENST00000504139	protein_coding	NOVEL	None	4417	711	236	141381651	141392596	-1	GNPI	GNPDA, HLN, GPI, KIAA0060
5	GNPDA1	ENSG00000113552	ENST00000505689	protein_coding	NOVEL	None	4417	872	289	141381655	141392606	-1	GNPI	GNPDA, HLN, GPI, KIAA0060
5	GNPDA1	ENSG00000113552	ENST00000515747	retained_intron	KNOWN	None	4417	None	None	141382783	141385006	-1	GNPI	GNPDA, HLN, GPI, KIAA0060
5	GNPDA1	ENSG00000113552	ENST00000507559	retained_intron	KNOWN	None	4417	None	None	141384440	141385879	-1	GNPI	GNPDA, HLN, GPI, KIAA0060
5	GNPDA1	ENSG00000113552	ENST00000510194	protein_coding	KNOWN	None	4417	482	159	141384609	141392561	-1	GNPI	GNPDA, HLN, GPI, KIAA0060
5	GNPDA1	ENSG00000113552	ENST00000503229	protein_coding	KNOWN	None	4417	414	137	141384677	141392592	-1	GNPI	GNPDA, HLN, GPI, KIAA0060
5	GNPDA1	ENSG00000113552	ENST00000507107	retained_intron	KNOWN	None	4417	None	None	141385601	141392592	-1	GNPI	GNPDA, HLN, GPI, KIAA0060
5	GNPDA1	ENSG00000113552	ENST00000504424	protein_coding	KNOWN	None	4417	87	28	141391514	141392561	-1	GNPI	GNPDA, HLN, GPI, KIAA0060
5	GNPDA1	ENSG00000113552	ENST00000458112	protein_coding	KNOWN	None	4417	768	255	141380238	141392592	-1	GNPI	GNPDA, HLN, GPI, KIAA0060
5	GNPDA1	ENSG00000113552	ENST00000542860	protein_coding	KNOWN	None	4417	639	212	141381209	141392592	-1	GNPI	GNPDA, HLN, GPI, KIAA0060
21	KRTAP19-4	ENSG00000186967	ENST00000334058	protein_coding	KNOWN	CCDS33534	18939	255	84	31869142	31869451	-1	None	KAP19.4
21	KRTAP19-5	ENSG00000186977	ENST00000334151	protein_coding	KNOWN	CCDS13597	18940	219	72	31873975	31874435	-1	None	KAP19.5
HSCHR6_MHC_MANN	RPL7AP7	ENSG00000233465	ENST00000418052	processed_pseudogene	KNOWN	None	21395	None	None	29767917	29768713	-1	None	RPL7B, dJ377H14.2
3	PRKAR2A	ENSG00000114302	ENST00000457914	protein_coding	PUTATIVE	None	9391	277	91	48782030	48789751	-1	PRKAR2	None
3	PRKAR2A	ENSG00000114302	ENST00000265563	protein_coding	KNOWN	CCDS2778	9391	1215	404	48784012	48885279	-1	PRKAR2	None
3	PRKAR2A	ENSG00000114302	ENST00000454963	protein_coding	KNOWN	CCDS2778	9391	1215	404	48784948	48885237	-1	PRKAR2	None
3	PRKAR2A	ENSG00000114302	ENST00000296446	protein_coding	NOVEL	None	9391	1149	382	48787081	48885261	-1	PRKAR2	None
3	PRKAR2A	ENSG00000114302	ENST00000437821	protein_coding	PUTATIVE	None	9391	602	199	48788691	48831446	-1	PRKAR2	None
3	PRKAR2A	ENSG00000114302	ENST00000438535	protein_coding	PUTATIVE	None	9391	298	98	48788772	48802783	-1	PRKAR2	None
3	PRKAR2A	ENSG00000114302	ENST00000419216	protein_coding	PUTATIVE	None	9391	344	113	48828032	48885266	-1	PRKAR2	None
12	BEST3	ENSG00000127325	ENST00000547208	nonsense_mediated_decay	KNOWN	None	17105	432	143	70037140	70093144	-1	VMD2L3	MGC40411, MGC13168
12	BEST3	ENSG00000127325	ENST00000331471	protein_coding	KNOWN	None	17105	1197	398	70037334	70093141	-1	VMD2L3	MGC40411, MGC13168
12	BEST3	ENSG00000127325	ENST00000488961	protein_coding	KNOWN	CCDS41810	17105	1368	455	70047389	70083056	-1	VMD2L3	MGC40411, MGC13168
12	BEST3	ENSG00000127325	ENST00000330891	protein_coding	KNOWN	CCDS8992	17105	2007	668	70047389	70093196	-1	VMD2L3	MGC40411, MGC13168
12	BEST3	ENSG00000127325	ENST00000553096	protein_coding	PUTATIVE	None	17105	1689	562	70047599	70093065	-1	VMD2L3	MGC40411, MGC13168
12	BEST3	ENSG00000127325	ENST00000476098	protein_coding	PUTATIVE	None	17105	594	197	70063459	70093131	-1	VMD2L3	MGC40411, MGC13168
12	BEST3	ENSG00000127325	ENST00000552295	protein_coding	PUTATIVE	None	17105	484	160	70065353	70087852	-1	VMD2L3	MGC40411, MGC13168
12	BEST3	ENSG00000127325	ENST00000548658	protein_coding	NOVEL	None	17105	426	141	70071014	70093115	-1	VMD2L3	MGC40411, MGC13168
12	BEST3	ENSG00000127325	ENST00000266661	protein_coding	KNOWN	None	17105	219	72	70077019	70093256	-1	VMD2L3	MGC40411, MGC13168
12	BEST3	ENSG00000127325	ENST00000529843	processed_transcript	PUTATIVE	None	17105	None	None	70078145	70082991	-1	VMD2L3	MGC40411, MGC13168
12	BEST3	ENSG00000127325	ENST00000551160	protein_coding	KNOWN	None	17105	219	72	70078188	70093175	-1	VMD2L3	MGC40411, MGC13168
12	BEST3	ENSG00000127325	ENST00000533674	processed_transcript	KNOWN	None	17105	None	None	70081039	70093124	-1	VMD2L3	MGC40411, MGC13168
12	BEST3	ENSG00000127325	ENST00000393365	protein_coding	KNOWN	None	17105	219	72	70078333	70093141	-1	VMD2L3	MGC40411, MGC13168
1	ADIPOR1	ENSG00000159346	ENST00000340990	protein_coding	KNOWN	CCDS1430	24040	1128	375	202909951	202927517	-1	None	PAQR1, ACDCR1
1	ADIPOR1	ENSG00000159346	ENST00000495562	retained_intron	KNOWN	None	24040	None	None	202909954	202913924	-1	None	PAQR1, ACDCR1
1	ADIPOR1	ENSG00000159346	ENST00000417068	protein_coding	KNOWN	None	24040	799	265	202912892	202927700	-1	None	PAQR1, ACDCR1
1	ADIPOR1	ENSG00000159346	ENST00000426229	protein_coding	KNOWN	None	24040	617	204	202914111	202927413	-1	None	PAQR1, ACDCR1
1	ADIPOR1	ENSG00000159346	ENST00000436244	protein_coding	KNOWN	CCDS1430	24040	1128	375	202909963	202927700	-1	None	PAQR1, ACDCR1
1	ADIPOR1	ENSG00000159346	ENST00000367254	protein_coding	KNOWN	None	24040	516	171	202912906	202927417	-1	None	PAQR1, ACDCR1
21	KRTAP19-6	ENSG00000186925	ENST00000334046	protein_coding	KNOWN	CCDS13598	18941	177	58	31913854	31914183	-1	None	KAP19.6
4	None	ENSG00000248425	ENST00000514401	lincRNA	KNOWN	None	None	None	None	14392063	14395616	1	None	None
HSCHR6_MHC_MANN	MICG	ENSG00000229461	ENST00000435490	unprocessed_pseudogene	KNOWN	None	16802	None	None	29777286	29777417	-1	None	None
4	LINC00504	ENSG00000248360	ENST00000509654	lincRNA	KNOWN	None	43555	None	None	14475711	14889791	-1	None	None
4	LINC00504	ENSG00000248360	ENST00000515031	lincRNA	KNOWN	None	43555	None	None	14475711	14889792	-1	None	None
4	LINC00504	ENSG00000248360	ENST00000505089	lincRNA	KNOWN	None	43555	None	None	14475711	14889793	-1	None	None
4	LINC00504	ENSG00000248360	ENST00000506292	lincRNA	KNOWN	None	43555	None	None	14630380	14718219	-1	None	None
21	KRTAP19-7	ENSG00000244362	ENST00000334849	protein_coding	KNOWN	CCDS13599	18942	192	63	31933194	31933633	-1	None	KAP19.7
HSCHR6_MHC_MANN	HCG4P8	ENSG00000224801	ENST00000457697	unprocessed_pseudogene	KNOWN	None	22927	None	None	29792094	29793073	-1	None	HCGIV-08, HCGIV.7, HCGIV-8
4	MTND2P31	ENSG00000251252	ENST00000512602	processed_pseudogene	KNOWN	None	42132	None	None	14507489	14508104	-1	None	None
10	None	ENSG00000216004	ENST00000401185	miRNA	NOVEL	None	None	None	None	72975557	72975628	1	None	None
21	KRTAP22-2	ENSG00000206106	ENST00000382830	protein_coding	KNOWN	CCDS46641	37091	138	45	31962424	31962716	-1	None	KAP22.2
3	TBCCD1	ENSG00000113838	ENST00000338733	protein_coding	KNOWN	CCDS3276	25546	1674	557	186264128	186285141	-1	None	FLJ10560
3	TBCCD1	ENSG00000113838	ENST00000446782	protein_coding	PUTATIVE	None	25546	1386	461	186264130	186288107	-1	None	FLJ10560
3	TBCCD1	ENSG00000113838	ENST00000479590	processed_transcript	PUTATIVE	None	25546	None	None	186271132	186272264	-1	None	FLJ10560
3	TBCCD1	ENSG00000113838	ENST00000413695	protein_coding	KNOWN	None	25546	678	225	186274379	186288332	-1	None	FLJ10560
3	TBCCD1	ENSG00000113838	ENST00000430560	protein_coding	NOVEL	None	25546	444	147	186276206	186282134	-1	None	FLJ10560
3	TBCCD1	ENSG00000113838	ENST00000424280	protein_coding	KNOWN	CCDS3276	25546	1674	557	186263862	186288332	-1	None	FLJ10560
HSCHR6_MHC_MANN	MICF	ENSG00000235498	ENST00000453125	unprocessed_pseudogene	KNOWN	None	16801	None	None	29816712	29816840	-1	None	None
1	None	ENSG00000231360	ENST00000538264	protein_coding	NOVEL	None	None	807	268	144339738	144521058	1	None	None
10	UNC5B-AS1	ENSG00000237512	ENST00000449737	antisense	KNOWN	None	45096	None	None	72976981	72977582	-1	None	None
10	UNC5B-AS1	ENSG00000237512	ENST00000447119	antisense	KNOWN	None	45096	None	None	72976981	72977985	-1	None	None
1	PPIAL4B	ENSG00000255854	ENST00000540273	protein_coding	KNOWN	CCDS44205	33994	495	164	144363462	144364246	-1	None	None
22	HIRA	ENSG00000100084	ENST00000340170	protein_coding	KNOWN	None	4916	2433	810	19318221	19419219	-1	TUPLE1	DGCR1, TUP1
22	HIRA	ENSG00000100084	ENST00000263208	protein_coding	KNOWN	CCDS13759	4916	3054	1017	19318221	19419256	-1	TUPLE1	DGCR1, TUP1
22	HIRA	ENSG00000100084	ENST00000464189	processed_transcript	PUTATIVE	None	4916	None	None	19385584	19417786	-1	TUPLE1	DGCR1, TUP1
22	HIRA	ENSG00000100084	ENST00000452818	nonsense_mediated_decay	KNOWN	None	4916	160	52	19385591	19434973	-1	TUPLE1	DGCR1, TUP1
22	HIRA	ENSG00000100084	ENST00000541063	protein_coding	KNOWN	None	4916	2922	973	19318581	19435224	-1	TUPLE1	DGCR1, TUP1
22	HIRA	ENSG00000100084	ENST00000546308	protein_coding	KNOWN	None	4916	2421	806	19338891	19435214	-1	TUPLE1	DGCR1, TUP1
5	MIR4457	ENSG00000263670	ENST00000580663	miRNA	KNOWN	None	41554	None	None	1309425	1309492	-1	None	hsa-mir-4457
15	NEO1	ENSG00000067141	ENST00000339362	protein_coding	KNOWN	CCDS10247	7754	4386	1461	73344051	73597546	1	None	NGN, HsT17534, IGDCC2
15	NEO1	ENSG00000067141	ENST00000560262	protein_coding	KNOWN	CCDS53957	7754	4227	1408	73344951	73595059	1	None	NGN, HsT17534, IGDCC2
15	NEO1	ENSG00000067141	ENST00000558964	protein_coding	KNOWN	CCDS58378	7754	4353	1450	73344951	73595059	1	None	NGN, HsT17534, IGDCC2
15	NEO1	ENSG00000067141	ENST00000558485	retained_intron	KNOWN	None	7754	None	None	73414975	73418964	1	None	NGN, HsT17534, IGDCC2
15	NEO1	ENSG00000067141	ENST00000560328	protein_coding	NOVEL	None	7754	3393	1130	73428326	73597539	1	None	NGN, HsT17534, IGDCC2
15	NEO1	ENSG00000067141	ENST00000560352	processed_transcript	KNOWN	None	7754	None	None	73514034	73541982	1	None	NGN, HsT17534, IGDCC2
15	NEO1	ENSG00000067141	ENST00000560407	processed_transcript	KNOWN	None	7754	None	None	73514260	73536823	1	None	NGN, HsT17534, IGDCC2
15	NEO1	ENSG00000067141	ENST00000558807	retained_intron	KNOWN	None	7754	None	None	73547058	73551452	1	None	NGN, HsT17534, IGDCC2
15	NEO1	ENSG00000067141	ENST00000560808	retained_intron	KNOWN	None	7754	None	None	73581415	73595274	1	None	NGN, HsT17534, IGDCC2
15	NEO1	ENSG00000067141	ENST00000558886	retained_intron	KNOWN	None	7754	None	None	73590640	73593891	1	None	NGN, HsT17534, IGDCC2
15	NEO1	ENSG00000067141	ENST00000261908	protein_coding	KNOWN	CCDS10247	7754	4386	1461	73344825	73597547	1	None	NGN, HsT17534, IGDCC2
20	NFATC2	ENSG00000101096	ENST00000371564	protein_coding	KNOWN	CCDS33488	7776	2766	921	50003494	50159258	-1	None	NF-ATP, NFATp, NFAT1
20	NFATC2	ENSG00000101096	ENST00000396009	protein_coding	KNOWN	CCDS13437	7776	2778	925	50003494	50159258	-1	None	NF-ATP, NFATp, NFAT1
20	NFATC2	ENSG00000101096	ENST00000496054	retained_intron	KNOWN	None	7776	None	None	50007946	50015756	-1	None	NF-ATP, NFATp, NFAT1
20	NFATC2	ENSG00000101096	ENST00000414705	protein_coding	KNOWN	CCDS46614	7776	2706	901	50007765	50179168	-1	None	NF-ATP, NFATp, NFAT1
4	TMEM129	ENSG00000168936	ENST00000303277	protein_coding	PUTATIVE	CCDS3351	25137	699	232	1717679	1723085	-1	None	D4S2561E
4	TMEM129	ENSG00000168936	ENST00000382936	protein_coding	KNOWN	CCDS46998	25137	1089	362	1717680	1723058	-1	None	D4S2561E
4	TMEM129	ENSG00000168936	ENST00000460722	nonsense_mediated_decay	KNOWN	None	25137	85	27	1718328	1719962	-1	None	D4S2561E
4	TMEM129	ENSG00000168936	ENST00000476253	retained_intron	KNOWN	None	25137	None	None	1718592	1719636	-1	None	D4S2561E
4	TMEM129	ENSG00000168936	ENST00000480360	nonsense_mediated_decay	KNOWN	None	25137	277	91	1720112	1722508	-1	None	D4S2561E
4	TMEM129	ENSG00000168936	ENST00000536901	protein_coding	KNOWN	CCDS46998	25137	1089	362	1718234	1723058	-1	None	D4S2561E
19	CYP4F3	ENSG00000186529	ENST00000586182	protein_coding	KNOWN	CCDS59362	2646	1563	520	15751707	15770294	1	LTB4H	CYP4F
19	CYP4F3	ENSG00000186529	ENST00000592279	retained_intron	KNOWN	None	2646	None	None	15751707	15770326	1	LTB4H	CYP4F
19	CYP4F3	ENSG00000186529	ENST00000221307	protein_coding	KNOWN	CCDS12332	2646	1563	520	15751709	15773634	1	LTB4H	CYP4F
19	CYP4F3	ENSG00000186529	ENST00000591058	protein_coding	NOVEL	CCDS59362	2646	1563	520	15751710	15771568	1	LTB4H	CYP4F
19	CYP4F3	ENSG00000186529	ENST00000587360	nonsense_mediated_decay	KNOWN	None	2646	240	79	15752104	15760026	1	LTB4H	CYP4F
19	CYP4F3	ENSG00000186529	ENST00000585846	protein_coding	KNOWN	CCDS59362	2646	1563	520	15752119	15770581	1	LTB4H	CYP4F
19	CYP4F3	ENSG00000186529	ENST00000592424	processed_transcript	KNOWN	None	2646	None	None	15760790	15769126	1	LTB4H	CYP4F
16	ZFPM1	ENSG00000179588	ENST00000319555	protein_coding	KNOWN	CCDS32502	19762	3021	1006	88519725	88603424	1	None	FOG1, FOG, ZNF89A, ZC2HC11A
16	ZFPM1	ENSG00000179588	ENST00000562417	retained_intron	KNOWN	None	19762	None	None	88520014	88555757	1	None	FOG1, FOG, ZNF89A, ZC2HC11A
16	ZFPM1	ENSG00000179588	ENST00000569086	processed_transcript	KNOWN	None	19762	None	None	88520033	88582959	1	None	FOG1, FOG, ZNF89A, ZC2HC11A
16	ZFPM1	ENSG00000179588	ENST00000563351	processed_transcript	KNOWN	None	19762	None	None	88520035	88582729	1	None	FOG1, FOG, ZNF89A, ZC2HC11A
16	ZFPM1	ENSG00000179588	ENST00000562437	processed_transcript	KNOWN	None	19762	None	None	88520035	88583054	1	None	FOG1, FOG, ZNF89A, ZC2HC11A
HSCHR6_MHC_MCF	HLA-DMA	ENSG00000239463	ENST00000489879	retained_intron	KNOWN	None	4934	None	None	32949846	32950907	-1	None	D6S222E, RING6
HSCHR6_MHC_MCF	HLA-DMA	ENSG00000239463	ENST00000457285	protein_coding	KNOWN	None	4934	501	166	32949846	32954297	-1	None	D6S222E, RING6
HSCHR6_MHC_MCF	HLA-DMA	ENSG00000239463	ENST00000419041	protein_coding	KNOWN	None	4934	684	227	32949846	32954344	-1	None	D6S222E, RING6
HSCHR6_MHC_MCF	HLA-DMA	ENSG00000239463	ENST00000469705	retained_intron	KNOWN	None	4934	None	None	32949846	32954344	-1	None	D6S222E, RING6
HSCHR6_MHC_MCF	HLA-DMA	ENSG00000239463	ENST00000441375	protein_coding	KNOWN	None	4934	786	261	32949846	32954358	-1	None	D6S222E, RING6
HSCHR6_MHC_MCF	HLA-DMA	ENSG00000239463	ENST00000472833	processed_transcript	KNOWN	None	4934	None	None	32949974	32971961	-1	None	D6S222E, RING6
HSCHR6_MHC_MCF	HLA-DMA	ENSG00000239463	ENST00000462225	processed_transcript	KNOWN	None	4934	None	None	32950007	32969689	-1	None	D6S222E, RING6
HSCHR6_MHC_MCF	HLA-DMA	ENSG00000239463	ENST00000416806	protein_coding	KNOWN	None	4934	871	289	32950507	32953697	-1	None	D6S222E, RING6
HSCHR6_MHC_MCF	HLA-DMA	ENSG00000239463	ENST00000419231	protein_coding	KNOWN	None	4934	507	168	32950893	32970339	-1	None	D6S222E, RING6
HSCHR6_MHC_MCF	HLA-DMA	ENSG00000239463	ENST00000487786	retained_intron	KNOWN	None	4934	None	None	32951320	32954270	-1	None	D6S222E, RING6
16	UMOD	ENSG00000169344	ENST00000396134	protein_coding	NOVEL	None	12559	2022	673	20344374	20364032	-1	None	None
16	UMOD	ENSG00000169344	ENST00000396138	protein_coding	PUTATIVE	None	12559	2070	689	20344374	20364122	-1	None	None
16	UMOD	ENSG00000169344	ENST00000570689	protein_coding	KNOWN	CCDS10583	12559	1923	640	20344391	20367623	-1	None	None
16	UMOD	ENSG00000169344	ENST00000570331	processed_transcript	KNOWN	None	12559	None	None	20344661	20353831	-1	None	None
16	UMOD	ENSG00000169344	ENST00000573567	protein_coding	NOVEL	None	12559	484	160	20360208	20364032	-1	None	None
16	UMOD	ENSG00000169344	ENST00000571174	protein_coding	KNOWN	None	12559	376	124	20360247	20364037	-1	None	None
16	UMOD	ENSG00000169344	ENST00000577168	protein_coding	PUTATIVE	None	12559	414	137	20360293	20364200	-1	None	None
16	UMOD	ENSG00000169344	ENST00000574195	protein_coding	NOVEL	None	12559	483	160	20360302	20362493	-1	None	None
16	UMOD	ENSG00000169344	ENST00000576688	protein_coding	KNOWN	None	12559	308	101	20360315	20364037	-1	None	None
16	UMOD	ENSG00000169344	ENST00000570757	protein_coding	KNOWN	None	12559	265	87	20360358	20364033	-1	None	None
16	UMOD	ENSG00000169344	ENST00000576546	protein_coding	KNOWN	None	12559	258	85	20360365	20362634	-1	None	None
16	UMOD	ENSG00000169344	ENST00000570972	protein_coding	KNOWN	None	12559	91	29	20360532	20362760	-1	None	None
16	UMOD	ENSG00000169344	ENST00000424589	protein_coding	KNOWN	None	12559	2022	673	20344374	20364037	-1	None	None
16	UMOD	ENSG00000169344	ENST00000302509	protein_coding	KNOWN	CCDS10583	12559	1923	640	20344374	20364037	-1	None	None
16	UMOD	ENSG00000169344	ENST00000396142	protein_coding	KNOWN	CCDS10583	12559	1923	640	20344374	20362164	-1	None	None
12	PLXNC1	ENSG00000136040	ENST00000258526	protein_coding	KNOWN	CCDS9049	9106	4707	1568	94542499	94701451	1	None	VESPR, CD232
12	PLXNC1	ENSG00000136040	ENST00000546733	retained_intron	KNOWN	None	9106	None	None	94544608	94580541	1	None	VESPR, CD232
12	PLXNC1	ENSG00000136040	ENST00000551850	protein_coding	PUTATIVE	None	9106	327	108	94551877	94603405	1	None	VESPR, CD232
12	PLXNC1	ENSG00000136040	ENST00000546659	retained_intron	KNOWN	None	9106	None	None	94620265	94621229	1	None	VESPR, CD232
12	PLXNC1	ENSG00000136040	ENST00000549810	retained_intron	KNOWN	None	9106	None	None	94642138	94650061	1	None	VESPR, CD232
12	PLXNC1	ENSG00000136040	ENST00000549217	nonsense_mediated_decay	KNOWN	None	9106	1251	416	94648254	94698101	1	None	VESPR, CD232
12	PLXNC1	ENSG00000136040	ENST00000550080	protein_coding	PUTATIVE	None	9106	310	102	94648294	94653467	1	None	VESPR, CD232
12	PLXNC1	ENSG00000136040	ENST00000547057	protein_coding	PUTATIVE	None	9106	1848	615	94648304	94699431	1	None	VESPR, CD232
12	PLXNC1	ENSG00000136040	ENST00000551495	processed_transcript	KNOWN	None	9106	None	None	94653162	94658870	1	None	VESPR, CD232
12	PLXNC1	ENSG00000136040	ENST00000545312	protein_coding	PUTATIVE	None	9106	924	307	94656297	94699374	1	None	VESPR, CD232
12	PLXNC1	ENSG00000136040	ENST00000549187	retained_intron	KNOWN	None	9106	None	None	94658907	94673762	1	None	VESPR, CD232
19	KRTDAP	ENSG00000188508	ENST00000484218	protein_coding	KNOWN	CCDS59377	16313	258	85	35978226	35981433	-1	None	KDAP, UNQ467
19	KRTDAP	ENSG00000188508	ENST00000479340	processed_transcript	KNOWN	None	16313	None	None	35978226	35986460	-1	None	KDAP, UNQ467
19	KRTDAP	ENSG00000188508	ENST00000338897	protein_coding	KNOWN	CCDS12462	16313	300	99	35978228	35981433	-1	None	KDAP, UNQ467
X	MTRNR2L10	ENSG00000256045	ENST00000545075	protein_coding	KNOWN	CCDS55427	37167	75	24	55207824	55208944	-1	None	None
19	C19orf66	ENSG00000130813	ENST00000592551	retained_intron	KNOWN	None	25649	None	None	10196798	10198936	1	None	FLJ11286
19	C19orf66	ENSG00000130813	ENST00000253110	protein_coding	KNOWN	CCDS45957	25649	876	291	10196806	10203921	1	None	FLJ11286
19	C19orf66	ENSG00000130813	ENST00000585919	retained_intron	KNOWN	None	25649	None	None	10196973	10203928	1	None	FLJ11286
19	C19orf66	ENSG00000130813	ENST00000591813	protein_coding	KNOWN	None	25649	768	255	10197016	10203603	1	None	FLJ11286
19	C19orf66	ENSG00000130813	ENST00000587710	nonsense_mediated_decay	KNOWN	None	25649	384	127	10197024	10202221	1	None	FLJ11286
19	C19orf66	ENSG00000130813	ENST00000590378	protein_coding	PUTATIVE	None	25649	213	70	10197463	10200669	1	None	FLJ11286
19	C19orf66	ENSG00000130813	ENST00000397881	protein_coding	KNOWN	None	25649	723	240	10197528	10203918	1	None	FLJ11286
19	C19orf66	ENSG00000130813	ENST00000586889	nonsense_mediated_decay	KNOWN	None	25649	233	76	10197720	10200577	1	None	FLJ11286
19	C19orf66	ENSG00000130813	ENST00000587609	retained_intron	KNOWN	None	25649	None	None	10200123	10200723	1	None	FLJ11286
19	C19orf66	ENSG00000130813	ENST00000593131	protein_coding	PUTATIVE	None	25649	432	143	10200333	10203001	1	None	FLJ11286
19	C19orf66	ENSG00000130813	ENST00000586730	retained_intron	KNOWN	None	25649	None	None	10202266	10203920	1	None	FLJ11286
5	None	ENSG00000250584	ENST00000504989	lincRNA	KNOWN	None	None	None	None	1363697	1380182	-1	None	None
5	None	ENSG00000250584	ENST00000523692	lincRNA	KNOWN	None	None	None	None	1363741	1380163	-1	None	None
5	None	ENSG00000250584	ENST00000503067	lincRNA	KNOWN	None	None	None	None	1364229	1368510	-1	None	None
2	LRP2	ENSG00000081479	ENST00000263816	protein_coding	KNOWN	CCDS2232	6694	13968	4655	169983619	170219195	-1	None	gp330, DBS
2	LRP2	ENSG00000081479	ENST00000491228	retained_intron	KNOWN	None	6694	None	None	169989110	169996173	-1	None	gp330, DBS
2	LRP2	ENSG00000081479	ENST00000461418	processed_transcript	KNOWN	None	6694	None	None	170034350	170038960	-1	None	gp330, DBS
2	LRP2	ENSG00000081479	ENST00000443831	protein_coding	PUTATIVE	None	6694	3678	1225	170097260	170219044	-1	None	gp330, DBS
2	LRP2	ENSG00000081479	ENST00000493501	retained_intron	KNOWN	None	6694	None	None	170127510	170131863	-1	None	gp330, DBS
1	CYB5R1	ENSG00000159348	ENST00000367249	protein_coding	KNOWN	CCDS1431	13397	918	305	202930997	202936408	-1	NQO3A2	humb5R2
1	CYB5R1	ENSG00000159348	ENST00000497655	processed_transcript	KNOWN	None	13397	None	None	202931004	202934512	-1	NQO3A2	humb5R2
1	CYB5R1	ENSG00000159348	ENST00000482572	processed_transcript	KNOWN	None	13397	None	None	202931675	202936371	-1	NQO3A2	humb5R2
1	CYB5R1	ENSG00000159348	ENST00000483915	processed_transcript	KNOWN	None	13397	None	None	202931678	202932687	-1	NQO3A2	humb5R2
1	CYB5R1	ENSG00000159348	ENST00000446185	protein_coding	KNOWN	None	13397	680	225	202932054	202935688	-1	NQO3A2	humb5R2
1	CYB5R1	ENSG00000159348	ENST00000473599	processed_transcript	KNOWN	None	13397	None	None	202934499	202936403	-1	NQO3A2	humb5R2
1	CYB5R1	ENSG00000159348	ENST00000478009	processed_transcript	KNOWN	None	13397	None	None	202935015	202936353	-1	NQO3A2	humb5R2
19	ZNF675	ENSG00000197372	ENST00000601935	protein_coding	PUTATIVE	None	30768	354	117	23708433	23869999	-1	None	TIZ, TBZF
19	ZNF675	ENSG00000197372	ENST00000600313	protein_coding	PUTATIVE	None	30768	357	118	23716982	23870014	-1	None	TIZ, TBZF
19	ZNF675	ENSG00000197372	ENST00000596211	protein_coding	PUTATIVE	None	30768	240	79	23756859	23870014	-1	None	TIZ, TBZF
19	ZNF675	ENSG00000197372	ENST00000359788	protein_coding	KNOWN	CCDS32981	30768	1707	568	23835603	23870004	-1	None	TIZ, TBZF
19	ZNF675	ENSG00000197372	ENST00000600299	retained_intron	KNOWN	None	30768	None	None	23835710	23839936	-1	None	TIZ, TBZF
19	ZNF675	ENSG00000197372	ENST00000599535	protein_coding	PUTATIVE	None	30768	314	103	23837214	23869183	-1	None	TIZ, TBZF
19	ZNF675	ENSG00000197372	ENST00000597074	nonsense_mediated_decay	KNOWN	None	30768	267	88	23837348	23869942	-1	None	TIZ, TBZF
19	ZNF675	ENSG00000197372	ENST00000601010	protein_coding	PUTATIVE	None	30768	306	101	23841187	23869990	-1	None	TIZ, TBZF
19	ZNF675	ENSG00000197372	ENST00000599168	protein_coding	PUTATIVE	None	30768	234	77	23844737	23870022	-1	None	TIZ, TBZF
X	PAGE5	ENSG00000158639	ENST00000289619	protein_coding	KNOWN	CCDS14368	29992	393	130	55246788	55250539	1	None	PAGE-5, CT16.1, CT16.2
X	PAGE5	ENSG00000158639	ENST00000374955	protein_coding	KNOWN	CCDS35306	29992	333	110	55246790	55250539	1	None	PAGE-5, CT16.1, CT16.2
X	PAGE5	ENSG00000158639	ENST00000374952	protein_coding	KNOWN	None	29992	282	93	55246853	55250541	1	None	PAGE-5, CT16.1, CT16.2
17	None	ENSG00000268965	ENST00000600087	protein_coding	NOVEL	None	None	426	141	76422409	76422834	1	None	None
HSCHR6_MHC_MANN	HCG4P7	ENSG00000231197	ENST00000424911	unprocessed_pseudogene	KNOWN	None	22926	None	None	29845969	29846931	-1	None	HCGIV-07, HCGIV.C, HCGIV-7
17	DNAH17-AS1	ENSG00000268470	ENST00000598378	protein_coding	KNOWN	None	48594	495	164	76494911	76499138	1	None	None
21	KRTAP6-3	ENSG00000212938	ENST00000391624	protein_coding	KNOWN	None	18933	312	103	31964759	31965394	1	None	KAP6.3
HSCHR6_MHC_MANN	HLA-H	ENSG00000223463	ENST00000451304	unprocessed_pseudogene	KNOWN	None	4965	None	None	29846427	29849143	1	None	None
7	None	ENSG00000249773	ENST00000426595	protein_coding	PUTATIVE	None	None	678	225	55954970	56022932	1	None	None
19	DMRTC2	ENSG00000142025	ENST00000601660	nonsense_mediated_decay	KNOWN	None	13911	675	224	42348806	42356395	1	None	None
19	DMRTC2	ENSG00000142025	ENST00000600017	protein_coding	KNOWN	None	13911	497	164	42349009	42352912	1	None	None
19	DMRTC2	ENSG00000142025	ENST00000596827	protein_coding	NOVEL	None	13911	1257	418	42349083	42356096	1	None	None
19	DMRTC2	ENSG00000142025	ENST00000602098	processed_transcript	KNOWN	None	13911	None	None	42349114	42352887	1	None	None
19	DMRTC2	ENSG00000142025	ENST00000269945	protein_coding	KNOWN	CCDS33034	13911	1104	367	42349118	42356401	1	None	None
19	DMRTC2	ENSG00000142025	ENST00000596258	protein_coding	KNOWN	None	13911	404	133	42349153	42352553	1	None	None
19	DMRTC2	ENSG00000142025	ENST00000596660	protein_coding	KNOWN	None	13911	485	160	42349388	42352900	1	None	None
19	DMRTC2	ENSG00000142025	ENST00000599022	retained_intron	KNOWN	None	13911	None	None	42354312	42355716	1	None	None
X	PAGE3	ENSG00000204279	ENST00000374951	protein_coding	KNOWN	None	4110	342	113	55284848	55291279	-1	GAGED1	PAGE-3, CT16.6
X	PAGE3	ENSG00000204279	ENST00000519203	protein_coding	KNOWN	None	4110	342	113	55284911	55291163	-1	GAGED1	PAGE-3, CT16.6
21	KRTAP6-2	ENSG00000186930	ENST00000334897	protein_coding	KNOWN	CCDS13600	18932	189	62	31970909	31971219	-1	None	KAP6.2
16	None	ENSG00000255439	ENST00000533518	nonsense_mediated_decay	KNOWN	None	None	365	120	31094760	31105923	-1	None	None
16	None	ENSG00000255439	ENST00000532364	protein_coding	PUTATIVE	None	None	312	103	31098081	31106237	-1	None	None
16	None	ENSG00000255439	ENST00000529564	protein_coding	PUTATIVE	None	None	498	165	31098189	31106277	-1	None	None
21	KRTAP22-1	ENSG00000186924	ENST00000334680	protein_coding	KNOWN	CCDS13601	18947	147	48	31973414	31973612	1	None	KAP22.1
17	EPN3	ENSG00000049283	ENST00000268933	protein_coding	KNOWN	CCDS11570	18235	1899	632	48609904	48621111	1	None	FLJ20778, MGC129899
17	EPN3	ENSG00000049283	ENST00000503246	protein_coding	KNOWN	None	18235	505	167	48610043	48614422	1	None	FLJ20778, MGC129899
17	EPN3	ENSG00000049283	ENST00000503690	protein_coding	KNOWN	None	18235	35	10	48610086	48613952	1	None	FLJ20778, MGC129899
17	EPN3	ENSG00000049283	ENST00000514874	protein_coding	KNOWN	None	18235	153	50	48610086	48614070	1	None	FLJ20778, MGC129899
17	EPN3	ENSG00000049283	ENST00000510462	processed_transcript	PUTATIVE	None	18235	None	None	48610099	48613707	1	None	FLJ20778, MGC129899
17	EPN3	ENSG00000049283	ENST00000515028	processed_transcript	PUTATIVE	None	18235	None	None	48610099	48613740	1	None	FLJ20778, MGC129899
17	EPN3	ENSG00000049283	ENST00000571402	processed_transcript	PUTATIVE	None	18235	None	None	48610099	48613897	1	None	FLJ20778, MGC129899
17	EPN3	ENSG00000049283	ENST00000507998	processed_transcript	KNOWN	None	18235	None	None	48610099	48614115	1	None	FLJ20778, MGC129899
17	EPN3	ENSG00000049283	ENST00000512291	nonsense_mediated_decay	KNOWN	None	18235	153	50	48610099	48619302	1	None	FLJ20778, MGC129899
17	EPN3	ENSG00000049283	ENST00000512379	nonsense_mediated_decay	KNOWN	None	18235	153	50	48610099	48619847	1	None	FLJ20778, MGC129899
17	EPN3	ENSG00000049283	ENST00000510045	nonsense_mediated_decay	KNOWN	None	18235	627	208	48610119	48619725	1	None	FLJ20778, MGC129899
17	EPN3	ENSG00000049283	ENST00000504857	processed_transcript	PUTATIVE	None	18235	None	None	48610125	48613831	1	None	FLJ20778, MGC129899
17	EPN3	ENSG00000049283	ENST00000507709	protein_coding	PUTATIVE	None	18235	53	16	48611853	48614087	1	None	FLJ20778, MGC129899
17	EPN3	ENSG00000049283	ENST00000511414	processed_transcript	KNOWN	None	18235	None	None	48611913	48614164	1	None	FLJ20778, MGC129899
17	EPN3	ENSG00000049283	ENST00000515126	protein_coding	KNOWN	None	18235	326	107	48611916	48614243	1	None	FLJ20778, MGC129899
17	EPN3	ENSG00000049283	ENST00000507467	protein_coding	KNOWN	None	18235	408	135	48611919	48614325	1	None	FLJ20778, MGC129899
17	EPN3	ENSG00000049283	ENST00000574464	nonsense_mediated_decay	KNOWN	None	18235	957	318	48613788	48619482	1	None	FLJ20778, MGC129899
17	EPN3	ENSG00000049283	ENST00000537145	protein_coding	KNOWN	None	18235	1983	660	48610099	48619847	1	None	FLJ20778, MGC129899
17	EPN3	ENSG00000049283	ENST00000541226	protein_coding	KNOWN	None	18235	753	250	48610099	48619302	1	None	FLJ20778, MGC129899
10	None	ENSG00000238918	ENST00000459444	snoRNA	NOVEL	None	None	None	None	73085085	73085188	1	None	None
21	KRTAP6-1	ENSG00000184724	ENST00000329122	protein_coding	KNOWN	CCDS13602	18931	216	71	31985750	31986249	-1	None	KAP6.1, C21orf103
10	CDH23-AS1	ENSG00000223817	ENST00000428918	antisense	KNOWN	None	31433	None	None	73267910	73271630	-1	C10orf106, NCRNA00223	bA327E2.3
7	ZNF713	ENSG00000178665	ENST00000466630	retained_intron	KNOWN	None	22043	None	None	55955169	55992571	1	None	FLJ39963
7	ZNF713	ENSG00000178665	ENST00000411863	nonsense_mediated_decay	KNOWN	None	22043	117	38	55955205	55991046	1	None	FLJ39963
7	ZNF713	ENSG00000178665	ENST00000484120	retained_intron	KNOWN	None	22043	None	None	55973882	55979606	1	None	FLJ39963
7	ZNF713	ENSG00000178665	ENST00000482436	processed_transcript	KNOWN	None	22043	None	None	55979685	55992035	1	None	FLJ39963
7	ZNF713	ENSG00000178665	ENST00000429591	protein_coding	KNOWN	CCDS34639	22043	1293	430	55980331	56009918	1	None	FLJ39963
HSCHR6_MHC_MANN	HLA-T	ENSG00000226727	ENST00000448678	unprocessed_pseudogene	KNOWN	None	23478	None	None	29855211	29856342	1	HLA-16	None
4	None	ENSG00000202449	ENST00000365579	snoRNA	NOVEL	None	None	None	None	14692334	14692456	1	None	None
10	RNU7-38P	ENSG00000238446	ENST00000459501	snRNA	KNOWN	None	34134	None	None	73604492	73604551	-1	None	U7.38
21	KRTAP20-1	ENSG00000244624	ENST00000334664	protein_coding	KNOWN	CCDS13603	18943	171	56	31988750	31989003	1	None	KAP20.1
10	None	ENSG00000230526	ENST00000441348	lincRNA	KNOWN	None	None	None	None	73638114	73638865	1	None	None
4	None	ENSG00000247624	ENST00000500394	lincRNA	KNOWN	None	None	None	None	14911585	15003669	-1	None	None
4	None	ENSG00000247624	ENST00000501916	lincRNA	KNOWN	None	None	None	None	14978524	14996129	-1	None	None
HSCHR6_MHC_MANN	DDX39BP1	ENSG00000225926	ENST00000437087	unprocessed_pseudogene	KNOWN	None	33450	None	None	29865100	29865466	1	BAT1P1	None
10	None	ENSG00000200294	ENST00000363424	snoRNA	NOVEL	None	None	None	None	73940616	73940747	1	None	None
21	KRTAP20-4	ENSG00000206105	ENST00000382828	protein_coding	KNOWN	None	34002	135	44	31992946	31993169	1	None	KAP20.4
10	None	ENSG00000226701	ENST00000416278	processed_pseudogene	KNOWN	None	None	None	None	73949699	73950334	1	None	None
HSCHR6_MHC_MANN	MCCD1P1	ENSG00000226940	ENST00000453842	unprocessed_pseudogene	KNOWN	None	33449	None	None	29866340	29867202	-1	None	OTTHUMG00000130506
10	None	ENSG00000200170	ENST00000363300	misc_RNA	NOVEL	None	None	None	None	73980510	73980610	1	None	None
17	NLE1	ENSG00000073536	ENST00000586869	protein_coding	KNOWN	CCDS45647	19889	582	193	33455772	33469303	-1	None	FLJ10458
17	NLE1	ENSG00000073536	ENST00000442241	protein_coding	KNOWN	CCDS11291	19889	1458	485	33458366	33469334	-1	None	FLJ10458
17	NLE1	ENSG00000073536	ENST00000360831	protein_coding	NOVEL	None	19889	1332	443	33459090	33469322	-1	None	FLJ10458
17	NLE1	ENSG00000073536	ENST00000588019	protein_coding	NOVEL	None	19889	914	303	33459263	33464186	-1	None	FLJ10458
17	NLE1	ENSG00000073536	ENST00000589367	nonsense_mediated_decay	KNOWN	None	19889	384	127	33463386	33469323	-1	None	FLJ10458
17	NLE1	ENSG00000073536	ENST00000593176	processed_transcript	KNOWN	None	19889	None	None	33464043	33469252	-1	None	FLJ10458
17	NLE1	ENSG00000073536	ENST00000588642	nonsense_mediated_decay	KNOWN	None	19889	264	87	33464072	33469316	-1	None	FLJ10458
10	None	ENSG00000269926	ENST00000491934	antisense	KNOWN	None	None	None	None	74034673	74035738	-1	None	None
4	None	ENSG00000249252	ENST00000502344	antisense	KNOWN	None	None	None	None	15006566	15429538	-1	None	None
4	None	ENSG00000249252	ENST00000513384	antisense	KNOWN	None	None	None	None	15008071	15229584	-1	None	None
HSCHR6_MHC_MANN	HCG4B	ENSG00000226563	ENST00000453494	unprocessed_pseudogene	KNOWN	None	22919	None	None	29884570	29885560	-1	HCG4P6	HCGIV-6, HCGIV.5, HCGIV-06, bCX67J3.3, Em:AB023056.16, bPG309N1.1, bQB90C11.3
HSCHR6_MHC_MANN	HCG4B	ENSG00000226563	ENST00000547059	unprocessed_pseudogene	KNOWN	None	22919	None	None	29884958	29885560	-1	HCG4P6	HCGIV-6, HCGIV.5, HCGIV-06, bCX67J3.3, Em:AB023056.16, bPG309N1.1, bQB90C11.3
11	LRRC10B	ENSG00000204950	ENST00000378075	protein_coding	KNOWN	CCDS44621	37215	879	292	61276272	61278482	1	None	None
10	RNU6-805P	ENSG00000202513	ENST00000365643	snRNA	KNOWN	None	47768	None	None	74151722	74151827	1	None	None
21	KRTAP20-2	ENSG00000184032	ENST00000330798	protein_coding	KNOWN	CCDS13604	18944	198	65	32007555	32007938	1	None	KAP20.2
4	RN7SKP170	ENSG00000199420	ENST00000362550	misc_RNA	KNOWN	None	45894	None	None	15095391	15095718	-1	None	None
4	None	ENSG00000251379	ENST00000515495	antisense	KNOWN	None	None	None	None	15359765	15421656	-1	None	None
HSCHR6_MHC_MANN	HLA-K	ENSG00000232816	ENST00000437770	unprocessed_pseudogene	KNOWN	None	4969	None	None	29885046	29887819	1	HLAK, HLA70	HLA-70
4	None	ENSG00000249930	ENST00000512110	processed_pseudogene	KNOWN	None	None	None	None	15494353	15494596	-1	None	None
21	CSTB	ENSG00000160213	ENST00000291568	protein_coding	KNOWN	CCDS13701	2482	297	98	45192393	45196326	-1	EPM1, STFB	CST6, PME
21	CSTB	ENSG00000160213	ENST00000480147	retained_intron	KNOWN	None	2482	None	None	45194071	45196187	-1	EPM1, STFB	CST6, PME
16	VKORC1	ENSG00000167397	ENST00000300851	protein_coding	NOVEL	None	23663	450	149	31102163	31106081	-1	VKCFD2	None
16	VKORC1	ENSG00000167397	ENST00000319788	protein_coding	NOVEL	None	23663	471	156	31102163	31106261	-1	VKCFD2	None
16	VKORC1	ENSG00000167397	ENST00000354895	protein_coding	KNOWN	CCDS10704	23663	279	92	31102163	31106277	-1	VKCFD2	None
16	VKORC1	ENSG00000167397	ENST00000394975	protein_coding	KNOWN	CCDS10703	23663	492	163	31102163	31106278	-1	VKCFD2	None
16	VKORC1	ENSG00000167397	ENST00000420057	protein_coding	PUTATIVE	None	23663	278	91	31102163	31106954	-1	VKCFD2	None
16	VKORC1	ENSG00000167397	ENST00000394971	protein_coding	PUTATIVE	None	23663	483	160	31102425	31105870	-1	VKCFD2	None
16	VKORC1	ENSG00000167397	ENST00000498155	protein_coding	PUTATIVE	None	23663	486	161	31102496	31107301	-1	VKCFD2	None
16	VKORC1	ENSG00000167397	ENST00000472468	protein_coding	PUTATIVE	None	23663	129	42	31102503	31104932	-1	VKCFD2	None
21	KRTAP20-3	ENSG00000206104	ENST00000382826	protein_coding	NOVEL	CCDS46642	34001	135	44	32015183	32015455	1	KRTAP19P4	KAP20.3, KAP19D
1	NBPF9	ENSG00000168614	ENST00000483630	processed_transcript	KNOWN	None	31991	None	None	144811748	144815261	1	None	AE01
1	NBPF9	ENSG00000168614	ENST00000468645	processed_transcript	KNOWN	None	31991	None	None	144811748	144830302	1	None	AE01
1	NBPF9	ENSG00000168614	ENST00000496755	processed_transcript	KNOWN	None	31991	None	None	144811748	144830302	1	None	AE01
1	NBPF9	ENSG00000168614	ENST00000491652	processed_transcript	KNOWN	None	31991	None	None	144811748	144830302	1	None	AE01
1	NBPF9	ENSG00000168614	ENST00000375552	protein_coding	NOVEL	None	31991	2051	682	144811748	144830413	1	None	AE01
1	NBPF9	ENSG00000168614	ENST00000465793	processed_transcript	KNOWN	None	31991	None	None	144814560	144816049	1	None	AE01
1	NBPF9	ENSG00000168614	ENST00000471873	processed_transcript	KNOWN	None	31991	None	None	144814683	144816795	1	None	AE01
1	NBPF9	ENSG00000168614	ENST00000484811	processed_transcript	KNOWN	None	31991	None	None	144815811	144816677	1	None	AE01
1	NBPF9	ENSG00000168614	ENST00000472811	processed_transcript	KNOWN	None	31991	None	None	144815944	144818310	1	None	AE01
1	NBPF9	ENSG00000168614	ENST00000488888	processed_transcript	KNOWN	None	31991	None	None	144820976	144827865	1	None	AE01
1	NBPF9	ENSG00000168614	ENST00000473761	processed_transcript	KNOWN	None	31991	None	None	144822562	144830301	1	None	AE01
1	NBPF9	ENSG00000168614	ENST00000338347	protein_coding	KNOWN	None	31991	1830	609	144811744	144830301	1	None	AE01
1	NBPF9	ENSG00000168614	ENST00000440491	protein_coding	KNOWN	None	31991	1824	607	144811744	144830301	1	None	AE01
1	NBPF9	ENSG00000168614	ENST00000281815	protein_coding	KNOWN	None	31991	624	207	144811943	144830300	1	None	AE01
4	TACC3	ENSG00000013810	ENST00000485989	protein_coding	NOVEL	None	11524	581	192	1723227	1737474	1	None	ERIC1
4	TACC3	ENSG00000013810	ENST00000484651	retained_intron	KNOWN	None	11524	None	None	1723246	1740077	1	None	ERIC1
4	TACC3	ENSG00000013810	ENST00000467746	nonsense_mediated_decay	KNOWN	None	11524	192	63	1723262	1729959	1	None	ERIC1
4	TACC3	ENSG00000013810	ENST00000313288	protein_coding	KNOWN	CCDS3352	11524	2517	838	1723266	1746898	1	None	ERIC1
4	TACC3	ENSG00000013810	ENST00000493975	protein_coding	KNOWN	None	11524	692	229	1723512	1729821	1	None	ERIC1
4	TACC3	ENSG00000013810	ENST00000458173	protein_coding	KNOWN	None	11524	664	220	1724837	1729793	1	None	ERIC1
4	TACC3	ENSG00000013810	ENST00000470136	protein_coding	NOVEL	None	11524	650	215	1730131	1737554	1	None	ERIC1
4	TACC3	ENSG00000013810	ENST00000466077	retained_intron	KNOWN	None	11524	None	None	1732530	1739372	1	None	ERIC1
4	TACC3	ENSG00000013810	ENST00000470808	retained_intron	KNOWN	None	11524	None	None	1741072	1743021	1	None	ERIC1
4	TACC3	ENSG00000013810	ENST00000484264	retained_intron	KNOWN	None	11524	None	None	1746166	1746803	1	None	ERIC1
HSCHR6_MHC_MANN	HLA-U	ENSG00000226354	ENST00000414908	unprocessed_pseudogene	KNOWN	None	23477	None	None	29890931	29891116	1	HLA-21	Em:AB023056.13
21	KRTAP21-3	ENSG00000231068	ENST00000444335	protein_coding	KNOWN	CCDS54481	34216	177	58	32090843	32091095	-1	None	None
HSCHR6_MHC_MANN	HCG4P5	ENSG00000226109	ENST00000442281	unprocessed_pseudogene	KNOWN	None	22925	None	None	29898840	29899831	-1	None	HCGIV-05, HCGIV.4, HCGIV-5
16	BEAN1	ENSG00000166546	ENST00000536005	protein_coding	KNOWN	CCDS54015	24160	780	259	66461200	66515819	1	None	None
16	BEAN1	ENSG00000166546	ENST00000562849	nonsense_mediated_decay	KNOWN	CCDS58469	24160	453	150	66461240	66516745	1	None	None
16	BEAN1	ENSG00000166546	ENST00000299694	protein_coding	KNOWN	CCDS58469	24160	453	150	66461274	66516172	1	None	None
16	BEAN1	ENSG00000166546	ENST00000561796	protein_coding	NOVEL	CCDS58470	24160	627	208	66461274	66527432	1	None	None
16	BEAN1	ENSG00000166546	ENST00000569272	retained_intron	KNOWN	None	24160	None	None	66461643	66471706	1	None	None
16	BEAN1	ENSG00000166546	ENST00000564819	protein_coding	NOVEL	None	24160	219	72	66503617	66519406	1	None	None
16	BEAN1	ENSG00000166546	ENST00000563075	processed_transcript	PUTATIVE	None	24160	None	None	66503617	66527432	1	None	None
16	BEAN1	ENSG00000166546	ENST00000562146	protein_coding	PUTATIVE	None	24160	248	81	66511538	66527432	1	None	None
16	BEAN1	ENSG00000166546	ENST00000566654	processed_transcript	PUTATIVE	None	24160	None	None	66519707	66527117	1	None	None
16	WDR90	ENSG00000161996	ENST00000552943	retained_intron	KNOWN	None	26960	None	None	699311	711075	1	C16orf17, C16orf15, C16orf16, C16orf19, C16orf18	FLJ36483, KIAA1924
16	WDR90	ENSG00000161996	ENST00000549091	protein_coding	NOVEL	None	26960	5253	1750	699325	717833	1	C16orf17, C16orf15, C16orf16, C16orf19, C16orf18	FLJ36483, KIAA1924
16	WDR90	ENSG00000161996	ENST00000549648	retained_intron	KNOWN	None	26960	None	None	699353	706201	1	C16orf17, C16orf15, C16orf16, C16orf19, C16orf18	FLJ36483, KIAA1924
16	WDR90	ENSG00000161996	ENST00000420061	retained_intron	KNOWN	None	26960	None	None	699353	706201	1	C16orf17, C16orf15, C16orf16, C16orf19, C16orf18	FLJ36483, KIAA1924
16	WDR90	ENSG00000161996	ENST00000293879	protein_coding	NOVEL	CCDS42092	26960	5247	1748	699417	717830	1	C16orf17, C16orf15, C16orf16, C16orf19, C16orf18	FLJ36483, KIAA1924
16	WDR90	ENSG00000161996	ENST00000550593	retained_intron	KNOWN	None	26960	None	None	702122	703470	1	C16orf17, C16orf15, C16orf16, C16orf19, C16orf18	FLJ36483, KIAA1924
16	WDR90	ENSG00000161996	ENST00000552648	processed_transcript	KNOWN	None	26960	None	None	705058	707123	1	C16orf17, C16orf15, C16orf16, C16orf19, C16orf18	FLJ36483, KIAA1924
16	WDR90	ENSG00000161996	ENST00000546516	retained_intron	KNOWN	None	26960	None	None	705058	713433	1	C16orf17, C16orf15, C16orf16, C16orf19, C16orf18	FLJ36483, KIAA1924
16	WDR90	ENSG00000161996	ENST00000547407	retained_intron	KNOWN	None	26960	None	None	706275	717829	1	C16orf17, C16orf15, C16orf16, C16orf19, C16orf18	FLJ36483, KIAA1924
16	WDR90	ENSG00000161996	ENST00000552728	nonsense_mediated_decay	KNOWN	None	26960	1428	475	706421	717830	1	C16orf17, C16orf15, C16orf16, C16orf19, C16orf18	FLJ36483, KIAA1924
16	WDR90	ENSG00000161996	ENST00000548859	retained_intron	KNOWN	None	26960	None	None	706433	707357	1	C16orf17, C16orf15, C16orf16, C16orf19, C16orf18	FLJ36483, KIAA1924
16	WDR90	ENSG00000161996	ENST00000552683	retained_intron	KNOWN	None	26960	None	None	707858	713438	1	C16orf17, C16orf15, C16orf16, C16orf19, C16orf18	FLJ36483, KIAA1924
16	WDR90	ENSG00000161996	ENST00000548844	processed_transcript	KNOWN	None	26960	None	None	708560	711075	1	C16orf17, C16orf15, C16orf16, C16orf19, C16orf18	FLJ36483, KIAA1924
16	WDR90	ENSG00000161996	ENST00000550739	protein_coding	NOVEL	None	26960	399	132	709245	710714	1	C16orf17, C16orf15, C16orf16, C16orf19, C16orf18	FLJ36483, KIAA1924
16	WDR90	ENSG00000161996	ENST00000549024	retained_intron	KNOWN	None	26960	None	None	711065	717829	1	C16orf17, C16orf15, C16orf16, C16orf19, C16orf18	FLJ36483, KIAA1924
16	WDR90	ENSG00000161996	ENST00000550902	retained_intron	KNOWN	None	26960	None	None	711588	712224	1	C16orf17, C16orf15, C16orf16, C16orf19, C16orf18	FLJ36483, KIAA1924
16	WDR90	ENSG00000161996	ENST00000546923	retained_intron	KNOWN	None	26960	None	None	711732	712736	1	C16orf17, C16orf15, C16orf16, C16orf19, C16orf18	FLJ36483, KIAA1924
16	WDR90	ENSG00000161996	ENST00000548603	processed_transcript	KNOWN	None	26960	None	None	712275	713437	1	C16orf17, C16orf15, C16orf16, C16orf19, C16orf18	FLJ36483, KIAA1924
16	WDR90	ENSG00000161996	ENST00000547543	processed_transcript	KNOWN	None	26960	None	None	713140	716745	1	C16orf17, C16orf15, C16orf16, C16orf19, C16orf18	FLJ36483, KIAA1924
16	WDR90	ENSG00000161996	ENST00000553080	retained_intron	KNOWN	None	26960	None	None	714988	717829	1	C16orf17, C16orf15, C16orf16, C16orf19, C16orf18	FLJ36483, KIAA1924
16	WDR90	ENSG00000161996	ENST00000547944	protein_coding	NOVEL	None	26960	1044	347	715184	717830	1	C16orf17, C16orf15, C16orf16, C16orf19, C16orf18	FLJ36483, KIAA1924
16	WDR90	ENSG00000161996	ENST00000315764	protein_coding	KNOWN	None	26960	900	299	715258	717830	1	C16orf17, C16orf15, C16orf16, C16orf19, C16orf18	FLJ36483, KIAA1924
16	WDR90	ENSG00000161996	ENST00000548448	retained_intron	KNOWN	None	26960	None	None	715874	716361	1	C16orf17, C16orf15, C16orf16, C16orf19, C16orf18	FLJ36483, KIAA1924
16	WDR90	ENSG00000161996	ENST00000551100	protein_coding	PUTATIVE	None	26960	235	77	716496	717831	1	C16orf17, C16orf15, C16orf16, C16orf19, C16orf18	FLJ36483, KIAA1924
16	WDR90	ENSG00000161996	ENST00000546896	protein_coding	PUTATIVE	None	26960	348	115	716911	717830	1	C16orf17, C16orf15, C16orf16, C16orf19, C16orf18	FLJ36483, KIAA1924
13	GJA3	ENSG00000121743	ENST00000241125	protein_coding	KNOWN	CCDS9289	4277	1308	435	20712394	20735188	-1	CZP3	CX46
11	NAA40	ENSG00000110583	ENST00000338447	retained_intron	KNOWN	None	25845	None	None	63706431	63724791	1	NAT11	FLJ13848
11	NAA40	ENSG00000110583	ENST00000536939	processed_transcript	KNOWN	None	25845	None	None	63706466	63720091	1	NAT11	FLJ13848
11	NAA40	ENSG00000110583	ENST00000534965	nonsense_mediated_decay	KNOWN	None	25845	120	39	63706468	63722147	1	NAT11	FLJ13848
11	NAA40	ENSG00000110583	ENST00000377793	protein_coding	KNOWN	CCDS8053	25845	714	237	63706468	63724800	1	NAT11	FLJ13848
11	NAA40	ENSG00000110583	ENST00000539656	protein_coding	NOVEL	None	25845	375	124	63706474	63722058	1	NAT11	FLJ13848
11	NAA40	ENSG00000110583	ENST00000544138	nonsense_mediated_decay	KNOWN	None	25845	210	69	63706474	63722063	1	NAT11	FLJ13848
11	NAA40	ENSG00000110583	ENST00000542163	protein_coding	PUTATIVE	None	25845	651	216	63706720	63721991	1	NAT11	FLJ13848
11	NAA40	ENSG00000110583	ENST00000545161	retained_intron	KNOWN	None	25845	None	None	63719620	63720043	1	NAT11	FLJ13848
11	NAA40	ENSG00000110583	ENST00000544194	retained_intron	KNOWN	None	25845	None	None	63719841	63722189	1	NAT11	FLJ13848
11	NAA40	ENSG00000110583	ENST00000542633	processed_transcript	KNOWN	None	25845	None	None	63719875	63721946	1	NAT11	FLJ13848
11	NAA40	ENSG00000110583	ENST00000456907	protein_coding	KNOWN	None	25845	594	197	63706468	63722147	1	NAT11	FLJ13848
22	TUBGCP6	ENSG00000128159	ENST00000248846	protein_coding	KNOWN	CCDS14087	18127	5460	1819	50656118	50682993	-1	None	GCP6, KIAA1669, DJ402G11.6
22	TUBGCP6	ENSG00000128159	ENST00000498611	retained_intron	KNOWN	None	18127	None	None	50656118	50683421	-1	None	GCP6, KIAA1669, DJ402G11.6
22	TUBGCP6	ENSG00000128159	ENST00000425018	protein_coding	KNOWN	None	18127	1467	488	50656123	50658845	-1	None	GCP6, KIAA1669, DJ402G11.6
22	TUBGCP6	ENSG00000128159	ENST00000491449	processed_transcript	KNOWN	None	18127	None	None	50656123	50664618	-1	None	GCP6, KIAA1669, DJ402G11.6
22	TUBGCP6	ENSG00000128159	ENST00000489511	processed_transcript	KNOWN	None	18127	None	None	50660189	50663021	-1	None	GCP6, KIAA1669, DJ402G11.6
22	TUBGCP6	ENSG00000128159	ENST00000473946	processed_transcript	KNOWN	None	18127	None	None	50661416	50664620	-1	None	GCP6, KIAA1669, DJ402G11.6
22	TUBGCP6	ENSG00000128159	ENST00000434349	protein_coding	PUTATIVE	None	18127	830	275	50665164	50678789	-1	None	GCP6, KIAA1669, DJ402G11.6
22	TUBGCP6	ENSG00000128159	ENST00000439308	protein_coding	KNOWN	None	18127	4482	1493	50656124	50683381	-1	None	GCP6, KIAA1669, DJ402G11.6
21	KRTAP21-2	ENSG00000187026	ENST00000333892	protein_coding	KNOWN	CCDS13605	18946	252	83	32119112	32119551	-1	None	KAP21.2
4	LNX1	ENSG00000072201	ENST00000306888	protein_coding	KNOWN	CCDS3492	6657	1899	632	54325468	54424384	-1	LNX	MPDZ, PDZRN2
4	LNX1	ENSG00000072201	ENST00000263925	protein_coding	KNOWN	CCDS47057	6657	2187	728	54326623	54457783	-1	LNX	MPDZ, PDZRN2
4	LNX1	ENSG00000072201	ENST00000511398	retained_intron	KNOWN	None	6657	None	None	54364940	54374550	-1	LNX	MPDZ, PDZRN2
4	LNX1	ENSG00000072201	ENST00000513421	protein_coding	KNOWN	None	6657	377	124	54439793	54567572	-1	LNX	MPDZ, PDZRN2
4	LNX1	ENSG00000072201	ENST00000510143	protein_coding	KNOWN	None	6657	299	98	54439871	54518680	-1	LNX	MPDZ, PDZRN2
4	LNX1	ENSG00000072201	ENST00000512247	protein_coding	KNOWN	None	6657	272	89	54439898	54457932	-1	LNX	MPDZ, PDZRN2
4	LNX1	ENSG00000072201	ENST00000507168	protein_coding	KNOWN	None	6657	48	15	54440122	54518644	-1	LNX	MPDZ, PDZRN2
4	LNX1	ENSG00000072201	ENST00000504299	protein_coding	KNOWN	None	6657	19	5	54440151	54483668	-1	LNX	MPDZ, PDZRN2
4	LNX1	ENSG00000072201	ENST00000504605	processed_transcript	KNOWN	None	6657	None	None	54440224	54518644	-1	LNX	MPDZ, PDZRN2
HSCHR6_MHC_MANN	HLA-W	ENSG00000230915	ENST00000444080	unprocessed_pseudogene	KNOWN	None	23425	None	None	29919578	29921543	1	HLA-80	None
7	SLC26A4	ENSG00000091137	ENST00000265715	protein_coding	KNOWN	CCDS5746	8818	2343	780	107301080	107358254	1	DFNB4	PDS
7	SLC26A4	ENSG00000091137	ENST00000440056	protein_coding	KNOWN	None	8818	393	130	107301449	107312671	1	DFNB4	PDS
7	SLC26A4	ENSG00000091137	ENST00000477350	processed_transcript	KNOWN	None	8818	None	None	107332335	107340620	1	DFNB4	PDS
7	SLC26A4	ENSG00000091137	ENST00000497446	processed_transcript	KNOWN	None	8818	None	None	107332391	107336484	1	DFNB4	PDS
7	SLC26A4	ENSG00000091137	ENST00000480841	processed_transcript	KNOWN	None	8818	None	None	107333393	107342329	1	DFNB4	PDS
7	SLC26A4	ENSG00000091137	ENST00000460748	processed_transcript	KNOWN	None	8818	None	None	107333777	107336409	1	DFNB4	PDS
7	SLC26A4	ENSG00000091137	ENST00000492030	processed_transcript	KNOWN	None	8818	None	None	107340531	107355958	1	DFNB4	PDS
7	SLC26A4	ENSG00000091137	ENST00000541474	protein_coding	KNOWN	None	8818	1026	341	107332335	107356172	1	DFNB4	PDS
7	SLC26A4	ENSG00000091137	ENST00000544569	protein_coding	KNOWN	None	8818	1104	367	107332341	107356069	1	DFNB4	PDS
7	SLC26A4	ENSG00000091137	ENST00000543100	protein_coding	KNOWN	None	8818	1050	349	107333777	107356171	1	DFNB4	PDS
1	TMEM183A	ENSG00000163444	ENST00000367242	protein_coding	KNOWN	CCDS1432	20173	1131	376	202976514	202993976	1	C1orf37	None
1	TMEM183A	ENSG00000163444	ENST00000543891	retained_intron	KNOWN	None	20173	None	None	202976531	202985222	1	C1orf37	None
1	TMEM183A	ENSG00000163444	ENST00000468449	processed_transcript	KNOWN	None	20173	None	None	202976902	202987047	1	C1orf37	None
1	TMEM183A	ENSG00000163444	ENST00000463015	retained_intron	KNOWN	None	20173	None	None	202977868	202984700	1	C1orf37	None
1	TMEM183A	ENSG00000163444	ENST00000488097	retained_intron	KNOWN	None	20173	None	None	202984968	202992089	1	C1orf37	None
21	KRTAP21-1	ENSG00000187005	ENST00000335093	protein_coding	KNOWN	CCDS13606	18945	240	79	32127439	32127746	-1	None	KAP21.1
HSCHR6_MHC_MANN	MICD	ENSG00000230745	ENST00000413160	unprocessed_pseudogene	KNOWN	None	7093	None	None	29933758	29935421	-1	None	PERB11.4
21	KRTAP8-1	ENSG00000183640	ENST00000329621	protein_coding	KNOWN	CCDS13607	18935	192	63	32185016	32185570	-1	None	KAP8.1
13	GJB2	ENSG00000165474	ENST00000382848	protein_coding	KNOWN	CCDS9290	4284	681	226	20761609	20767037	-1	DFNB1, DFNA3	CX26, NSRD1
13	GJB2	ENSG00000165474	ENST00000382844	protein_coding	KNOWN	CCDS9290	4284	681	226	20761611	20763919	-1	DFNB1, DFNA3	CX26, NSRD1
16	DUS2L	ENSG00000167264	ENST00000571081	protein_coding	KNOWN	None	26014	267	88	68021649	68088479	1	DUS2L	FLJ20399, SMM1
16	DUS2L	ENSG00000167264	ENST00000570709	protein_coding	KNOWN	None	26014	372	123	68021675	68094971	1	DUS2L	FLJ20399, SMM1
16	DUS2L	ENSG00000167264	ENST00000575677	protein_coding	PUTATIVE	None	26014	474	157	68028689	68100276	1	DUS2L	FLJ20399, SMM1
16	DUS2L	ENSG00000167264	ENST00000576994	protein_coding	KNOWN	None	26014	221	72	68049822	68087515	1	DUS2L	FLJ20399, SMM1
16	DUS2L	ENSG00000167264	ENST00000566306	protein_coding	KNOWN	None	26014	346	114	68050054	68090304	1	DUS2L	FLJ20399, SMM1
16	DUS2L	ENSG00000167264	ENST00000565263	protein_coding	KNOWN	CCDS10859	26014	1482	493	68056859	68113223	1	DUS2L	FLJ20399, SMM1
16	DUS2L	ENSG00000167264	ENST00000358896	protein_coding	KNOWN	CCDS10859	26014	1482	493	68057156	68113223	1	DUS2L	FLJ20399, SMM1
16	DUS2L	ENSG00000167264	ENST00000564975	retained_intron	KNOWN	None	26014	None	None	68057164	68087938	1	DUS2L	FLJ20399, SMM1
16	DUS2L	ENSG00000167264	ENST00000568099	protein_coding	KNOWN	None	26014	321	106	68057168	68090279	1	DUS2L	FLJ20399, SMM1
16	DUS2L	ENSG00000167264	ENST00000567100	protein_coding	KNOWN	None	26014	244	80	68057187	68087538	1	DUS2L	FLJ20399, SMM1
16	DUS2L	ENSG00000167264	ENST00000432752	protein_coding	NOVEL	None	26014	1377	458	68057195	68113218	1	DUS2L	FLJ20399, SMM1
16	DUS2L	ENSG00000167264	ENST00000569289	protein_coding	KNOWN	None	26014	123	40	68057226	68072049	1	DUS2L	FLJ20399, SMM1
16	DUS2L	ENSG00000167264	ENST00000564781	protein_coding	KNOWN	None	26014	155	50	68057232	68083436	1	DUS2L	FLJ20399, SMM1
16	DUS2L	ENSG00000167264	ENST00000562246	protein_coding	KNOWN	None	26014	625	207	68071816	68104107	1	DUS2L	FLJ20399, SMM1
16	DUS2L	ENSG00000167264	ENST00000561965	nonsense_mediated_decay	KNOWN	None	26014	264	87	68071907	68113145	1	DUS2L	FLJ20399, SMM1
16	DUS2L	ENSG00000167264	ENST00000565980	retained_intron	KNOWN	None	26014	None	None	68111855	68112769	1	DUS2L	FLJ20399, SMM1
18	CABLES1	ENSG00000134508	ENST00000400473	protein_coding	PUTATIVE	CCDS58615	25097	921	306	20714528	20837711	1	None	HsT2563, FLJ35924
18	CABLES1	ENSG00000134508	ENST00000579963	nonsense_mediated_decay	KNOWN	None	25097	117	38	20714528	20838618	1	None	HsT2563, FLJ35924
18	CABLES1	ENSG00000134508	ENST00000580153	protein_coding	PUTATIVE	None	25097	29	8	20715416	20774504	1	None	HsT2563, FLJ35924
18	CABLES1	ENSG00000134508	ENST00000256925	protein_coding	KNOWN	CCDS42417	25097	1902	633	20715727	20840431	1	None	HsT2563, FLJ35924
18	CABLES1	ENSG00000134508	ENST00000582882	retained_intron	KNOWN	None	25097	None	None	20716388	20794195	1	None	HsT2563, FLJ35924
18	CABLES1	ENSG00000134508	ENST00000583220	processed_transcript	KNOWN	None	25097	None	None	20716423	20777017	1	None	HsT2563, FLJ35924
18	CABLES1	ENSG00000134508	ENST00000580644	processed_transcript	KNOWN	None	25097	None	None	20716457	20770494	1	None	HsT2563, FLJ35924
18	CABLES1	ENSG00000134508	ENST00000578052	retained_intron	KNOWN	None	25097	None	None	20716513	20769321	1	None	HsT2563, FLJ35924
18	CABLES1	ENSG00000134508	ENST00000585061	processed_transcript	KNOWN	None	25097	None	None	20729673	20838103	1	None	HsT2563, FLJ35924
18	CABLES1	ENSG00000134508	ENST00000420687	protein_coding	KNOWN	CCDS42418	25097	1107	368	20735789	20838617	1	None	HsT2563, FLJ35924
HSCHR6_MHC_MANN	HCG9	ENSG00000227647	ENST00000413215	processed_transcript	KNOWN	None	21243	None	None	29938075	29941369	1	None	PERB11, HCGIX, HCGIX4, HCGIX-4
6	DEF6	ENSG00000023892	ENST00000316637	protein_coding	KNOWN	CCDS4802	2760	1896	631	35265629	35289548	1	None	IBP, SLAT, SWAP70L
6	DEF6	ENSG00000023892	ENST00000444278	protein_coding	KNOWN	None	2760	387	128	35277515	35280404	1	None	IBP, SLAT, SWAP70L
6	DEF6	ENSG00000023892	ENST00000468102	processed_transcript	KNOWN	None	2760	None	None	35285385	35286007	1	None	IBP, SLAT, SWAP70L
6	DEF6	ENSG00000023892	ENST00000542066	protein_coding	KNOWN	None	2760	1131	376	35265595	35289546	1	None	IBP, SLAT, SWAP70L
21	KRTAP11-1	ENSG00000182591	ENST00000332378	protein_coding	KNOWN	CCDS13608	18922	492	163	32252966	32253874	-1	None	KAP11.1
17	CYTH1	ENSG00000108669	ENST00000585509	protein_coding	PUTATIVE	None	9501	1020	339	76670130	76713107	-1	PSCD1	B2-1, D17S811E
17	CYTH1	ENSG00000108669	ENST00000589297	protein_coding	PUTATIVE	None	9501	1020	339	76670130	76719832	-1	PSCD1	B2-1, D17S811E
17	CYTH1	ENSG00000108669	ENST00000591455	protein_coding	NOVEL	CCDS32754	9501	1194	397	76670130	76778354	-1	PSCD1	B2-1, D17S811E
17	CYTH1	ENSG00000108669	ENST00000446868	protein_coding	KNOWN	None	9501	1197	398	76670130	76778376	-1	PSCD1	B2-1, D17S811E
17	CYTH1	ENSG00000108669	ENST00000589296	protein_coding	PUTATIVE	None	9501	195	64	76670130	76778379	-1	PSCD1	B2-1, D17S811E
17	CYTH1	ENSG00000108669	ENST00000586299	retained_intron	KNOWN	None	9501	None	None	76670131	76674553	-1	PSCD1	B2-1, D17S811E
17	CYTH1	ENSG00000108669	ENST00000586175	processed_transcript	KNOWN	None	9501	None	None	76671738	76688575	-1	PSCD1	B2-1, D17S811E
17	CYTH1	ENSG00000108669	ENST00000591574	nonsense_mediated_decay	KNOWN	None	9501	36	11	76671902	76778371	-1	PSCD1	B2-1, D17S811E
17	CYTH1	ENSG00000108669	ENST00000586430	retained_intron	KNOWN	None	9501	None	None	76671930	76677148	-1	PSCD1	B2-1, D17S811E
17	CYTH1	ENSG00000108669	ENST00000590775	processed_transcript	PUTATIVE	None	9501	None	None	76672201	76719648	-1	PSCD1	B2-1, D17S811E
17	CYTH1	ENSG00000108669	ENST00000589768	protein_coding	PUTATIVE	None	9501	817	271	76694351	76732972	-1	PSCD1	B2-1, D17S811E
17	CYTH1	ENSG00000108669	ENST00000586043	protein_coding	PUTATIVE	None	9501	583	193	76696413	76724047	-1	PSCD1	B2-1, D17S811E
17	CYTH1	ENSG00000108669	ENST00000587308	protein_coding	PUTATIVE	None	9501	312	103	76696474	76719646	-1	PSCD1	B2-1, D17S811E
17	CYTH1	ENSG00000108669	ENST00000590300	protein_coding	PUTATIVE	None	9501	259	85	76697754	76720128	-1	PSCD1	B2-1, D17S811E
17	CYTH1	ENSG00000108669	ENST00000591095	retained_intron	KNOWN	None	9501	None	None	76704994	76733049	-1	PSCD1	B2-1, D17S811E
17	CYTH1	ENSG00000108669	ENST00000592497	retained_intron	KNOWN	None	9501	None	None	76705433	76778355	-1	PSCD1	B2-1, D17S811E
17	CYTH1	ENSG00000108669	ENST00000361101	protein_coding	KNOWN	CCDS42392	9501	1197	398	76670130	76778376	-1	PSCD1	B2-1, D17S811E
11	SYT7	ENSG00000011347	ENST00000263846	protein_coding	KNOWN	CCDS31577	11514	1212	403	61282785	61348620	-1	PCANAP7	IPCA-7, SYT-VII, MGC150517
11	SYT7	ENSG00000011347	ENST00000540677	protein_coding	NOVEL	CCDS58139	11514	1437	478	61285529	61348298	-1	PCANAP7	IPCA-7, SYT-VII, MGC150517
11	SYT7	ENSG00000011347	ENST00000539246	nonsense_mediated_decay	KNOWN	None	11514	369	122	61286099	61348292	-1	PCANAP7	IPCA-7, SYT-VII, MGC150517
11	SYT7	ENSG00000011347	ENST00000539468	nonsense_mediated_decay	KNOWN	None	11514	369	122	61286099	61348292	-1	PCANAP7	IPCA-7, SYT-VII, MGC150517
11	SYT7	ENSG00000011347	ENST00000539008	protein_coding	NOVEL	None	11514	2061	686	61286099	61348292	-1	PCANAP7	IPCA-7, SYT-VII, MGC150517
11	SYT7	ENSG00000011347	ENST00000542836	protein_coding	NOVEL	None	11514	1344	447	61286099	61348310	-1	PCANAP7	IPCA-7, SYT-VII, MGC150517
11	SYT7	ENSG00000011347	ENST00000542670	protein_coding	NOVEL	None	11514	1836	611	61286099	61348343	-1	PCANAP7	IPCA-7, SYT-VII, MGC150517
11	SYT7	ENSG00000011347	ENST00000535826	protein_coding	NOVEL	None	11514	1569	522	61286099	61348344	-1	PCANAP7	IPCA-7, SYT-VII, MGC150517
11	SYT7	ENSG00000011347	ENST00000540831	processed_transcript	KNOWN	None	11514	None	None	61291372	61300575	-1	PCANAP7	IPCA-7, SYT-VII, MGC150517
11	SYT7	ENSG00000011347	ENST00000545053	protein_coding	NOVEL	None	11514	526	174	61295483	61348344	-1	PCANAP7	IPCA-7, SYT-VII, MGC150517
21	KRTAP19-8	ENSG00000206102	ENST00000382822	protein_coding	KNOWN	CCDS42917	33898	192	63	32410478	32410795	-1	None	None
7	None	ENSG00000261184	ENST00000567497	sense_overlapping	KNOWN	None	None	None	None	36134882	36139153	1	None	None
7	None	ENSG00000261184	ENST00000570271	sense_overlapping	KNOWN	None	None	None	None	36134898	36140263	1	None	None
HSCHR6_MHC_MANN	DDX39BP2	ENSG00000224362	ENST00000451133	unprocessed_pseudogene	KNOWN	None	33461	None	None	29956158	29956554	1	BAT1P2	BPG309N1.15
HSCHR6_MHC_MANN	MCCD1P2	ENSG00000231745	ENST00000449686	unprocessed_pseudogene	KNOWN	None	33462	None	None	29957386	29958263	-1	None	BPG309N1.16
14	FAM177A1	ENSG00000151327	ENST00000555211	protein_coding	KNOWN	None	19829	227	74	35514323	35522614	1	C14orf24	None
14	FAM177A1	ENSG00000151327	ENST00000382406	protein_coding	KNOWN	CCDS41944	19829	642	213	35515584	35550593	1	C14orf24	None
14	FAM177A1	ENSG00000151327	ENST00000280987	protein_coding	KNOWN	CCDS9653	19829	711	236	35515609	35552589	1	C14orf24	None
14	FAM177A1	ENSG00000151327	ENST00000554052	processed_transcript	PUTATIVE	None	19829	None	None	35515659	35519600	1	C14orf24	None
14	FAM177A1	ENSG00000151327	ENST00000553852	nonsense_mediated_decay	KNOWN	None	19829	111	36	35515799	35522637	1	C14orf24	None
14	FAM177A1	ENSG00000151327	ENST00000556858	nonsense_mediated_decay	KNOWN	None	19829	118	38	35515810	35524197	1	C14orf24	None
14	FAM177A1	ENSG00000151327	ENST00000553955	nonsense_mediated_decay	KNOWN	None	19829	23	6	35515887	35548218	1	C14orf24	None
14	FAM177A1	ENSG00000151327	ENST00000554794	protein_coding	PUTATIVE	None	19829	421	139	35522406	35550309	1	C14orf24	None
14	FAM177A1	ENSG00000151327	ENST00000555260	nonsense_mediated_decay	KNOWN	None	19829	148	48	35550287	35582336	1	C14orf24	None
14	FAM177A1	ENSG00000151327	ENST00000553901	retained_intron	KNOWN	None	19829	None	None	35568882	35579932	1	C14orf24	None
14	FAM177A1	ENSG00000151327	ENST00000396472	protein_coding	KNOWN	CCDS41944	19829	642	213	35514113	35552587	1	C14orf24	None
7	PPP1R35	ENSG00000160813	ENST00000470295	retained_intron	KNOWN	None	28320	None	None	100032905	100033759	-1	C7orf47	MGC22793
7	PPP1R35	ENSG00000160813	ENST00000487452	retained_intron	KNOWN	None	28320	None	None	100032905	100034046	-1	C7orf47	MGC22793
7	PPP1R35	ENSG00000160813	ENST00000292330	protein_coding	KNOWN	CCDS5694	28320	762	253	100032905	100034188	-1	C7orf47	MGC22793
7	PPP1R35	ENSG00000160813	ENST00000476185	processed_transcript	KNOWN	None	28320	None	None	100032906	100033693	-1	C7orf47	MGC22793
7	PPP1R35	ENSG00000160813	ENST00000491407	retained_intron	KNOWN	None	28320	None	None	100032982	100034096	-1	C7orf47	MGC22793
5	GFM2	ENSG00000164347	ENST00000296805	protein_coding	KNOWN	CCDS4023	29682	2340	779	74017029	74063196	-1	None	EFG2, FLJ21661
5	GFM2	ENSG00000164347	ENST00000345239	protein_coding	KNOWN	CCDS4024	29682	2199	732	74017031	74062946	-1	None	EFG2, FLJ21661
5	GFM2	ENSG00000164347	ENST00000509430	protein_coding	NOVEL	CCDS4023	29682	2340	779	74017083	74062930	-1	None	EFG2, FLJ21661
5	GFM2	ENSG00000164347	ENST00000515125	processed_transcript	KNOWN	None	29682	None	None	74017098	74032788	-1	None	EFG2, FLJ21661
5	GFM2	ENSG00000164347	ENST00000514734	processed_transcript	KNOWN	None	29682	None	None	74021497	74034199	-1	None	EFG2, FLJ21661
5	GFM2	ENSG00000164347	ENST00000506263	retained_intron	KNOWN	None	29682	None	None	74026085	74029213	-1	None	EFG2, FLJ21661
5	GFM2	ENSG00000164347	ENST00000427854	protein_coding	KNOWN	CCDS47232	29682	1542	513	74032494	74062971	-1	None	EFG2, FLJ21661
5	GFM2	ENSG00000164347	ENST00000513331	retained_intron	KNOWN	None	29682	None	None	74035814	74037673	-1	None	EFG2, FLJ21661
5	GFM2	ENSG00000164347	ENST00000509097	protein_coding	NOVEL	None	29682	856	284	74035911	74062886	-1	None	EFG2, FLJ21661
5	GFM2	ENSG00000164347	ENST00000506778	protein_coding	PUTATIVE	None	29682	194	63	74047204	74062972	-1	None	EFG2, FLJ21661
3	ABHD6	ENSG00000163686	ENST00000478253	protein_coding	KNOWN	CCDS2887	21398	1014	337	58223233	58280459	1	None	None
3	ABHD6	ENSG00000163686	ENST00000295962	protein_coding	KNOWN	CCDS2887	21398	1014	337	58223259	58280461	1	None	None
3	ABHD6	ENSG00000163686	ENST00000475982	nonsense_mediated_decay	KNOWN	None	21398	156	51	58223574	58253072	1	None	None
3	ABHD6	ENSG00000163686	ENST00000463756	protein_coding	KNOWN	None	21398	675	224	58223755	58260536	1	None	None
3	ABHD6	ENSG00000163686	ENST00000485900	protein_coding	KNOWN	None	21398	520	172	58224149	58256788	1	None	None
3	ABHD6	ENSG00000163686	ENST00000470440	retained_intron	KNOWN	None	21398	None	None	58270924	58279385	1	None	None
3	ABHD6	ENSG00000163686	ENST00000480457	processed_transcript	PUTATIVE	None	21398	None	None	58280090	58281420	1	None	None
11	AMPD3	ENSG00000133805	ENST00000527261	processed_transcript	KNOWN	None	470	None	None	10329860	10432385	1	None	None
11	AMPD3	ENSG00000133805	ENST00000532250	protein_coding	KNOWN	None	470	333	110	10339218	10500184	1	None	None
11	AMPD3	ENSG00000133805	ENST00000295663	processed_transcript	KNOWN	None	470	None	None	10352207	10432385	1	None	None
11	AMPD3	ENSG00000133805	ENST00000532966	processed_transcript	KNOWN	None	470	None	None	10378820	10432385	1	None	None
11	AMPD3	ENSG00000133805	ENST00000527369	processed_transcript	KNOWN	None	470	None	None	10429915	10432369	1	None	None
11	AMPD3	ENSG00000133805	ENST00000529835	processed_transcript	KNOWN	None	470	None	None	10471868	10503715	1	None	None
11	AMPD3	ENSG00000133805	ENST00000396554	protein_coding	PUTATIVE	CCDS7802	470	2331	776	10472228	10528565	1	None	None
11	AMPD3	ENSG00000133805	ENST00000524866	protein_coding	KNOWN	None	470	801	266	10472247	10506578	1	None	None
11	AMPD3	ENSG00000133805	ENST00000534047	nonsense_mediated_decay	KNOWN	None	470	639	212	10472489	10527431	1	None	None
11	AMPD3	ENSG00000133805	ENST00000396553	protein_coding	KNOWN	CCDS41617	470	2304	767	10476867	10528673	1	None	None
11	AMPD3	ENSG00000133805	ENST00000529834	nonsense_mediated_decay	KNOWN	None	470	2034	677	10476954	10527359	1	None	None
11	AMPD3	ENSG00000133805	ENST00000528723	protein_coding	PUTATIVE	CCDS44537	470	2325	774	10477733	10527658	1	None	None
11	AMPD3	ENSG00000133805	ENST00000529507	protein_coding	KNOWN	CCDS41617	470	2304	767	10482687	10527993	1	None	None
11	AMPD3	ENSG00000133805	ENST00000531227	retained_intron	KNOWN	None	470	None	None	10503430	10506568	1	None	None
11	AMPD3	ENSG00000133805	ENST00000533116	nonsense_mediated_decay	KNOWN	None	470	333	110	10514914	10517179	1	None	None
11	AMPD3	ENSG00000133805	ENST00000530864	processed_transcript	KNOWN	None	470	None	None	10519948	10526205	1	None	None
11	AMPD3	ENSG00000133805	ENST00000529744	nonsense_mediated_decay	KNOWN	None	470	273	90	10521732	10527438	1	None	None
11	AMPD3	ENSG00000133805	ENST00000444303	protein_coding	KNOWN	CCDS53601	470	1827	608	10471868	10529126	1	None	None
10	PAX2	ENSG00000075891	ENST00000553492	processed_transcript	KNOWN	None	8616	None	None	102495360	102566356	1	None	None
10	PAX2	ENSG00000075891	ENST00000361791	protein_coding	KNOWN	CCDS7499	8616	1191	396	102505468	102589074	1	None	None
10	PAX2	ENSG00000075891	ENST00000355243	protein_coding	KNOWN	CCDS41561	8616	1185	394	102505468	102589697	1	None	None
10	PAX2	ENSG00000075891	ENST00000554363	nonsense_mediated_decay	KNOWN	None	8616	108	35	102505936	102568941	1	None	None
10	PAX2	ENSG00000075891	ENST00000556085	protein_coding	NOVEL	None	8616	1182	393	102505977	102587406	1	None	None
10	PAX2	ENSG00000075891	ENST00000427256	protein_coding	NOVEL	None	8616	644	213	102505985	102546727	1	None	None
10	PAX2	ENSG00000075891	ENST00000483202	retained_intron	KNOWN	None	8616	None	None	102506021	102509673	1	None	None
10	PAX2	ENSG00000075891	ENST00000554172	protein_coding	PUTATIVE	None	8616	909	302	102508609	102568995	1	None	None
10	PAX2	ENSG00000075891	ENST00000428433	protein_coding	KNOWN	CCDS53569	8616	1254	417	102505468	102589698	1	None	None
10	PAX2	ENSG00000075891	ENST00000370296	protein_coding	KNOWN	None	8616	1260	419	102505468	102589698	1	None	None
19	ZNF468	ENSG00000204604	ENST00000595646	protein_coding	KNOWN	CCDS33094	33105	1569	522	53341261	53360872	-1	None	None
19	ZNF468	ENSG00000204604	ENST00000243639	protein_coding	PUTATIVE	None	33105	384	127	53341789	53360902	-1	None	None
19	ZNF468	ENSG00000204604	ENST00000597924	protein_coding	NOVEL	None	33105	412	136	53345189	53360872	-1	None	None
19	ZNF468	ENSG00000204604	ENST00000601847	protein_coding	PUTATIVE	None	33105	136	44	53348448	53352883	-1	None	None
19	ZNF468	ENSG00000204604	ENST00000602144	nonsense_mediated_decay	KNOWN	None	33105	234	77	53348478	53360872	-1	None	None
19	ZNF468	ENSG00000204604	ENST00000601980	nonsense_mediated_decay	KNOWN	None	33105	138	45	53348490	53360872	-1	None	None
19	ZNF468	ENSG00000204604	ENST00000396409	protein_coding	KNOWN	None	33105	1410	469	53341786	53360902	-1	None	None
19	ZNF468	ENSG00000204604	ENST00000390651	protein_coding	KNOWN	None	33105	1410	469	53341786	53360902	-1	None	None
7	C7orf61	ENSG00000185955	ENST00000332375	protein_coding	KNOWN	CCDS47661	22135	621	206	100054238	100061894	-1	None	IMAGE:4839025
7	C7orf61	ENSG00000185955	ENST00000418952	protein_coding	PUTATIVE	None	22135	573	190	100054547	100061496	-1	None	IMAGE:4839025
8	GEM	ENSG00000164949	ENST00000396194	protein_coding	KNOWN	CCDS6261	4234	891	296	95261481	95274578	-1	None	KIR
8	GEM	ENSG00000164949	ENST00000297596	protein_coding	KNOWN	CCDS6261	4234	891	296	95261486	95274573	-1	None	KIR
8	GEM	ENSG00000164949	ENST00000523660	retained_intron	KNOWN	None	4234	None	None	95272044	95274573	-1	None	KIR
8	GEM	ENSG00000164949	ENST00000521817	retained_intron	KNOWN	None	4234	None	None	95272231	95274547	-1	None	KIR
8	GEM	ENSG00000164949	ENST00000523433	protein_coding	KNOWN	None	4234	281	92	95272451	95272998	-1	None	KIR
X	MAGEH1	ENSG00000187601	ENST00000342972	protein_coding	KNOWN	CCDS14369	24092	660	219	55478538	55479998	1	None	APR1
12	KRT79	ENSG00000185640	ENST00000546453	retained_intron	KNOWN	None	28930	None	None	53215194	53224246	-1	None	K6L, KRT6L
12	KRT79	ENSG00000185640	ENST00000330553	protein_coding	KNOWN	CCDS8839	28930	1608	535	53215231	53228079	-1	None	K6L, KRT6L
12	KRT79	ENSG00000185640	ENST00000549255	protein_coding	PUTATIVE	None	28930	360	119	53215528	53216924	-1	None	K6L, KRT6L
2	BBS5	ENSG00000163093	ENST00000295240	protein_coding	KNOWN	CCDS2233	970	1026	341	170335688	170363165	1	None	DKFZp762I194
2	BBS5	ENSG00000163093	ENST00000469980	retained_intron	KNOWN	None	970	None	None	170335990	170339220	1	None	DKFZp762I194
2	BBS5	ENSG00000163093	ENST00000392663	protein_coding	KNOWN	None	970	963	320	170335993	170363165	1	None	DKFZp762I194
2	BBS5	ENSG00000163093	ENST00000443151	nonsense_mediated_decay	KNOWN	None	970	162	53	170336012	170354165	1	None	DKFZp762I194
2	BBS5	ENSG00000163093	ENST00000475571	retained_intron	KNOWN	None	970	None	None	170344272	170349596	1	None	DKFZp762I194
2	BBS5	ENSG00000163093	ENST00000472667	retained_intron	KNOWN	None	970	None	None	170355544	170363000	1	None	DKFZp762I194
2	BBS5	ENSG00000163093	ENST00000554017	protein_coding	KNOWN	None	970	1635	544	170335990	170382432	1	None	DKFZp762I194
X	USP51	ENSG00000247746	ENST00000500968	protein_coding	KNOWN	CCDS14370	23086	2136	711	55511049	55515635	-1	None	None
X	USP51	ENSG00000247746	ENST00000586165	processed_transcript	KNOWN	None	23086	None	None	55513237	55515250	-1	None	None
2	SNTG2	ENSG00000172554	ENST00000452177	nonsense_mediated_decay	KNOWN	None	13741	390	129	946554	1157357	1	None	SYN5, G2SYN
2	SNTG2	ENSG00000172554	ENST00000450962	nonsense_mediated_decay	KNOWN	None	13741	390	129	946554	1161321	1	None	SYN5, G2SYN
2	SNTG2	ENSG00000172554	ENST00000308624	protein_coding	KNOWN	CCDS46220	13741	1620	539	946554	1371385	1	None	SYN5, G2SYN
2	SNTG2	ENSG00000172554	ENST00000407292	protein_coding	NOVEL	None	13741	1239	412	946625	1371385	1	None	SYN5, G2SYN
2	SNTG2	ENSG00000172554	ENST00000463442	processed_transcript	KNOWN	None	13741	None	None	1098232	1204916	1	None	SYN5, G2SYN
2	SNTG2	ENSG00000172554	ENST00000475201	processed_transcript	KNOWN	None	13741	None	None	1158933	1215743	1	None	SYN5, G2SYN
2	SNTG2	ENSG00000172554	ENST00000467759	processed_transcript	KNOWN	None	13741	None	None	1158933	1215743	1	None	SYN5, G2SYN
2	SNTG2	ENSG00000172554	ENST00000494178	processed_transcript	KNOWN	None	13741	None	None	1159249	1246557	1	None	SYN5, G2SYN
2	SNTG2	ENSG00000172554	ENST00000498321	processed_transcript	KNOWN	None	13741	None	None	1204815	1215743	1	None	SYN5, G2SYN
2	SNTG2	ENSG00000172554	ENST00000489646	processed_transcript	KNOWN	None	13741	None	None	1251097	1260376	1	None	SYN5, G2SYN
2	SNTG2	ENSG00000172554	ENST00000471239	processed_transcript	KNOWN	None	13741	None	None	1266616	1371220	1	None	SYN5, G2SYN
2	SNTG2	ENSG00000172554	ENST00000472606	processed_transcript	KNOWN	None	13741	None	None	1357460	1371385	1	None	SYN5, G2SYN
X	FOXR2	ENSG00000189299	ENST00000339140	protein_coding	KNOWN	CCDS35308	30469	936	311	55649833	55652621	1	None	MGC21658, FOXN6
6	C6orf120	ENSG00000185127	ENST00000439249	protein_coding	KNOWN	None	21247	633	210	170102233	170103380	1	None	bA160E12.4
6	C6orf120	ENSG00000185127	ENST00000332290	protein_coding	KNOWN	CCDS34575	21247	576	191	170102257	170106401	1	None	bA160E12.4
7	TSC22D4	ENSG00000166925	ENST00000496728	processed_transcript	KNOWN	None	21696	None	None	100060982	100075125	-1	None	THG-1, TILZ2
7	TSC22D4	ENSG00000166925	ENST00000300181	protein_coding	KNOWN	CCDS5695	21696	1188	395	100064142	100076902	-1	None	THG-1, TILZ2
7	TSC22D4	ENSG00000166925	ENST00000423266	protein_coding	PUTATIVE	None	21696	635	210	100064146	100065693	-1	None	THG-1, TILZ2
7	TSC22D4	ENSG00000166925	ENST00000393991	protein_coding	PUTATIVE	None	21696	471	156	100064161	100076855	-1	None	THG-1, TILZ2
7	TSC22D4	ENSG00000166925	ENST00000456330	protein_coding	PUTATIVE	None	21696	503	166	100064789	100065699	-1	None	THG-1, TILZ2
7	TSC22D4	ENSG00000166925	ENST00000493217	retained_intron	KNOWN	None	21696	None	None	100071411	100076792	-1	None	THG-1, TILZ2
5	HAND1	ENSG00000113196	ENST00000231121	protein_coding	KNOWN	CCDS4327	4807	648	215	153854532	153857824	-1	None	eHand, Thing1, Hxt, bHLHa27
21	RRP1	ENSG00000160214	ENST00000475534	processed_transcript	KNOWN	None	18785	None	None	45209394	45217418	1	None	NNP-1, Nop52, NOP52, RRP1A, D21S2056E
21	RRP1	ENSG00000160214	ENST00000497547	protein_coding	KNOWN	CCDS42951	18785	1386	461	45209394	45225174	1	None	NNP-1, Nop52, NOP52, RRP1A, D21S2056E
21	RRP1	ENSG00000160214	ENST00000483896	nonsense_mediated_decay	KNOWN	None	18785	138	45	45209440	45217863	1	None	NNP-1, Nop52, NOP52, RRP1A, D21S2056E
21	RRP1	ENSG00000160214	ENST00000492638	retained_intron	KNOWN	None	18785	None	None	45209458	45213300	1	None	NNP-1, Nop52, NOP52, RRP1A, D21S2056E
21	RRP1	ENSG00000160214	ENST00000473988	retained_intron	KNOWN	None	18785	None	None	45210374	45211293	1	None	NNP-1, Nop52, NOP52, RRP1A, D21S2056E
21	RRP1	ENSG00000160214	ENST00000467112	retained_intron	KNOWN	None	18785	None	None	45212812	45225174	1	None	NNP-1, Nop52, NOP52, RRP1A, D21S2056E
21	RRP1	ENSG00000160214	ENST00000471909	processed_transcript	PUTATIVE	None	18785	None	None	45217242	45225174	1	None	NNP-1, Nop52, NOP52, RRP1A, D21S2056E
21	TIAM1	ENSG00000156299	ENST00000286827	protein_coding	KNOWN	CCDS13609	11805	4776	1591	32490734	32931290	-1	None	None
21	TIAM1	ENSG00000156299	ENST00000423206	protein_coding	PUTATIVE	None	11805	398	131	32490736	32502539	-1	None	None
21	TIAM1	ENSG00000156299	ENST00000491927	retained_intron	KNOWN	None	11805	None	None	32496257	32502624	-1	None	None
21	TIAM1	ENSG00000156299	ENST00000469412	processed_transcript	KNOWN	None	11805	None	None	32584947	32932290	-1	None	None
21	TIAM1	ENSG00000156299	ENST00000455508	protein_coding	KNOWN	None	11805	677	224	32638612	32716594	-1	None	None
21	TIAM1	ENSG00000156299	ENST00000541036	protein_coding	KNOWN	None	11805	4596	1531	32492675	32649083	-1	None	None
6	COL10A1	ENSG00000123500	ENST00000327673	protein_coding	KNOWN	CCDS5105	2185	2043	680	116440189	116447063	-1	None	None
6	COL10A1	ENSG00000123500	ENST00000452729	protein_coding	KNOWN	None	2185	649	215	116442630	116447283	-1	None	None
6	COL10A1	ENSG00000123500	ENST00000418500	protein_coding	KNOWN	None	2185	154	50	116446502	116479910	-1	None	None
6	COL10A1	ENSG00000123500	ENST00000243222	protein_coding	KNOWN	CCDS5105	2185	2043	680	116440086	116447296	-1	None	None
14	FAM161B	ENSG00000156050	ENST00000556794	protein_coding	PUTATIVE	None	19854	433	143	74398204	74404797	-1	C14orf44	FLJ31697
14	FAM161B	ENSG00000156050	ENST00000286544	protein_coding	KNOWN	CCDS9822	19854	2133	710	74399213	74417117	-1	C14orf44	FLJ31697
14	FAM161B	ENSG00000156050	ENST00000534936	protein_coding	KNOWN	None	19854	1944	647	74400705	74416835	-1	C14orf44	FLJ31697
5	None	ENSG00000248951	ENST00000514865	processed_pseudogene	KNOWN	None	None	None	None	1370658	1371060	-1	None	None
X	RRAGB	ENSG00000083750	ENST00000374941	protein_coding	KNOWN	CCDS14371	19901	1041	346	55744172	55785207	1	None	None
X	RRAGB	ENSG00000083750	ENST00000414239	protein_coding	KNOWN	None	19901	582	193	55744182	55779908	1	None	None
X	RRAGB	ENSG00000083750	ENST00000262850	protein_coding	KNOWN	CCDS14372	19901	1125	374	55744318	55784781	1	None	None
X	RRAGB	ENSG00000083750	ENST00000498762	processed_transcript	KNOWN	None	19901	None	None	55748624	55758141	1	None	None
X	RRAGB	ENSG00000083750	ENST00000474757	processed_transcript	KNOWN	None	19901	None	None	55757834	55778056	1	None	None
X	RRAGB	ENSG00000083750	ENST00000475061	processed_transcript	KNOWN	None	19901	None	None	55782243	55784815	1	None	None
5	None	ENSG00000251532	ENST00000503113	lincRNA	KNOWN	None	None	None	None	1544222	1551825	-1	None	None
4	None	ENSG00000214846	ENST00000498116	processed_pseudogene	KNOWN	None	None	None	None	15732585	15733250	-1	None	None
4	None	ENSG00000248188	ENST00000513715	processed_pseudogene	KNOWN	None	None	None	None	15744819	15745205	1	None	None
5	SDHAP3	ENSG00000185986	ENST00000515467	transcribed_unprocessed_pseudogene	KNOWN	None	18781	None	None	1572337	1593404	-1	SDHAL, SDHACL	None
5	SDHAP3	ENSG00000185986	ENST00000436493	processed_transcript	KNOWN	None	18781	None	None	1589143	1594735	-1	SDHAL, SDHACL	None
5	SDHAP3	ENSG00000185986	ENST00000413529	unprocessed_pseudogene	KNOWN	None	18781	None	None	1568637	1579695	-1	SDHAL, SDHACL	None
4	None	ENSG00000251644	ENST00000509498	processed_pseudogene	KNOWN	None	None	None	None	15866561	15867563	-1	None	None
6	PHF10	ENSG00000130024	ENST00000366780	protein_coding	KNOWN	CCDS5309	18250	1491	496	170104001	170124027	-1	None	FLJ10975, XAP135
6	PHF10	ENSG00000130024	ENST00000339209	protein_coding	KNOWN	CCDS5308	18250	1497	498	170104001	170124151	-1	None	FLJ10975, XAP135
6	PHF10	ENSG00000130024	ENST00000480008	retained_intron	KNOWN	None	18250	None	None	170107124	170124101	-1	None	FLJ10975, XAP135
6	PHF10	ENSG00000130024	ENST00000464779	processed_transcript	PUTATIVE	None	18250	None	None	170117838	170119394	-1	None	FLJ10975, XAP135
2	None	ENSG00000251569	ENST00000513963	protein_coding	PUTATIVE	None	None	1635	544	170335990	170382432	1	None	None
4	RNU6-350P	ENSG00000251758	ENST00000515949	snRNA	KNOWN	None	47313	None	None	16010299	16010410	-1	None	None
4	None	ENSG00000249234	ENST00000513586	antisense	KNOWN	None	None	None	None	16180562	16184743	1	None	None
6	None	ENSG00000234188	ENST00000430695	protein_coding	NOVEL	None	None	438	145	116442320	116443093	1	None	None
4	TAPT1-AS1	ENSG00000263327	ENST00000573308	antisense	KNOWN	None	26832	None	None	16228308	16258367	1	None	FLJ39653
4	TAPT1-AS1	ENSG00000263327	ENST00000573950	antisense	KNOWN	None	26832	None	None	16228630	16321763	1	None	FLJ39653
4	TAPT1-AS1	ENSG00000263327	ENST00000570786	antisense	KNOWN	None	26832	None	None	16228668	16259810	1	None	FLJ39653
4	TAPT1-AS1	ENSG00000263327	ENST00000598538	antisense	KNOWN	None	26832	None	None	16228286	16230207	1	None	FLJ39653
11	DDB2	ENSG00000134574	ENST00000256996	protein_coding	KNOWN	CCDS7927	2718	1284	427	47236493	47260767	1	None	DDBB, UV-DDB2, FLJ34321
11	DDB2	ENSG00000134574	ENST00000378603	protein_coding	KNOWN	None	2718	1092	363	47236493	47260767	1	None	DDBB, UV-DDB2, FLJ34321
11	DDB2	ENSG00000134574	ENST00000378600	protein_coding	KNOWN	None	2718	717	238	47236493	47260767	1	None	DDBB, UV-DDB2, FLJ34321
11	DDB2	ENSG00000134574	ENST00000378601	protein_coding	KNOWN	None	2718	735	244	47236493	47260767	1	None	DDBB, UV-DDB2, FLJ34321
3	PDIA5	ENSG00000065485	ENST00000489923	nonsense_mediated_decay	KNOWN	None	24811	789	262	122785909	122880951	1	None	PDIR, FLJ30401
3	PDIA5	ENSG00000065485	ENST00000316218	protein_coding	KNOWN	CCDS3020	24811	1560	519	122785917	122880951	1	None	PDIR, FLJ30401
3	PDIA5	ENSG00000065485	ENST00000484644	protein_coding	PUTATIVE	None	24811	193	63	122786195	122825689	1	None	PDIR, FLJ30401
3	PDIA5	ENSG00000065485	ENST00000495004	processed_transcript	KNOWN	None	24811	None	None	122807954	122829854	1	None	PDIR, FLJ30401
3	PDIA5	ENSG00000065485	ENST00000472319	processed_transcript	KNOWN	None	24811	None	None	122842913	122865105	1	None	PDIR, FLJ30401
3	PDIA5	ENSG00000065485	ENST00000467157	processed_transcript	KNOWN	None	24811	None	None	122863354	122880950	1	None	PDIR, FLJ30401
3	PDIA5	ENSG00000065485	ENST00000485208	processed_transcript	KNOWN	None	24811	None	None	122863523	122869212	1	None	PDIR, FLJ30401
3	PDIA5	ENSG00000065485	ENST00000469649	nonsense_mediated_decay	KNOWN	None	24811	250	82	122869186	122944074	1	None	PDIR, FLJ30401
6	TSPYL4	ENSG00000187189	ENST00000420283	protein_coding	KNOWN	CCDS5106	21559	1245	414	116571151	116575261	-1	None	dJ486I3.2, KIAA0721
20	ATP9A	ENSG00000054793	ENST00000311637	protein_coding	KNOWN	None	13540	2736	911	50213053	50384867	-1	None	KIAA0611, ATPIIA
20	ATP9A	ENSG00000054793	ENST00000338821	protein_coding	KNOWN	CCDS33489	13540	3144	1047	50213053	50385173	-1	None	KIAA0611, ATPIIA
20	ATP9A	ENSG00000054793	ENST00000477492	processed_transcript	PUTATIVE	None	13540	None	None	50342358	50349126	-1	None	KIAA0611, ATPIIA
20	ATP9A	ENSG00000054793	ENST00000402822	protein_coding	KNOWN	None	13540	2781	926	50217402	50384908	-1	None	KIAA0611, ATPIIA
10	C10orf85	ENSG00000177234	ENST00000369071	protein_coding	KNOWN	None	31365	387	128	122357721	122359629	1	None	FLJ37402, Em:AC023282.2
2	KLHL41	ENSG00000239474	ENST00000284669	protein_coding	KNOWN	CCDS2234	16905	1821	606	170366212	170382772	1	KBTBD10	SARCOSIN, Krp1
2	KLHL41	ENSG00000239474	ENST00000480330	processed_transcript	KNOWN	None	16905	None	None	170370730	170371460	1	KBTBD10	SARCOSIN, Krp1
2	KLHL41	ENSG00000239474	ENST00000463400	processed_transcript	KNOWN	None	16905	None	None	170370772	170377517	1	KBTBD10	SARCOSIN, Krp1
2	FAM161A	ENSG00000170264	ENST00000456262	nonsense_mediated_decay	KNOWN	None	25808	429	142	62051989	62081227	-1	RP28	FLJ13305
2	FAM161A	ENSG00000170264	ENST00000418113	nonsense_mediated_decay	KNOWN	None	25808	1805	600	62051991	62081163	-1	RP28	FLJ13305
2	FAM161A	ENSG00000170264	ENST00000404929	protein_coding	NOVEL	CCDS56120	25808	2151	716	62051991	62081188	-1	RP28	FLJ13305
2	FAM161A	ENSG00000170264	ENST00000405894	protein_coding	KNOWN	CCDS42687	25808	1983	660	62051991	62081278	-1	RP28	FLJ13305
2	FAM161A	ENSG00000170264	ENST00000478494	retained_intron	KNOWN	None	25808	None	None	62054239	62063619	-1	RP28	FLJ13305
2	FAM161A	ENSG00000170264	ENST00000496369	retained_intron	KNOWN	None	25808	None	None	62062650	62066659	-1	RP28	FLJ13305
2	FAM161A	ENSG00000170264	ENST00000307507	nonsense_mediated_decay	KNOWN	None	25808	228	75	62063192	62081199	-1	RP28	FLJ13305
16	KARS	ENSG00000065427	ENST00000319410	protein_coding	KNOWN	CCDS45532	6215	1878	625	75661622	75681563	-1	DFNB89	KARS2, KARS1
16	KARS	ENSG00000065427	ENST00000302445	protein_coding	KNOWN	CCDS10923	6215	1794	597	75661622	75681577	-1	DFNB89	KARS2, KARS1
16	KARS	ENSG00000065427	ENST00000568378	protein_coding	PUTATIVE	None	6215	204	67	75661656	75681522	-1	DFNB89	KARS2, KARS1
16	KARS	ENSG00000065427	ENST00000564578	nonsense_mediated_decay	KNOWN	None	6215	375	124	75661668	75681546	-1	DFNB89	KARS2, KARS1
16	KARS	ENSG00000065427	ENST00000569298	retained_intron	KNOWN	None	6215	None	None	75661744	75662907	-1	DFNB89	KARS2, KARS1
16	KARS	ENSG00000065427	ENST00000562875	nonsense_mediated_decay	KNOWN	None	6215	231	76	75665620	75681549	-1	DFNB89	KARS2, KARS1
16	KARS	ENSG00000065427	ENST00000566560	retained_intron	KNOWN	None	6215	None	None	75667869	75682541	-1	DFNB89	KARS2, KARS1
16	KARS	ENSG00000065427	ENST00000566249	nonsense_mediated_decay	KNOWN	None	6215	259	85	75668139	75681505	-1	DFNB89	KARS2, KARS1
16	KARS	ENSG00000065427	ENST00000566772	protein_coding	PUTATIVE	None	6215	315	104	75669222	75669971	-1	DFNB89	KARS2, KARS1
16	KARS	ENSG00000065427	ENST00000568682	protein_coding	PUTATIVE	None	6215	308	101	75669597	75681548	-1	DFNB89	KARS2, KARS1
16	KARS	ENSG00000065427	ENST00000570215	protein_coding	KNOWN	None	6215	768	255	75669689	75681553	-1	DFNB89	KARS2, KARS1
16	KARS	ENSG00000065427	ENST00000565738	retained_intron	KNOWN	None	6215	None	None	75673680	75675500	-1	DFNB89	KARS2, KARS1
5	GRAMD3	ENSG00000155324	ENST00000513040	protein_coding	NOVEL	CCDS54891	24911	1344	447	125695824	125829300	1	None	NS3TP2, FLJ21313
5	GRAMD3	ENSG00000155324	ENST00000506445	protein_coding	PUTATIVE	None	24911	864	287	125707005	125819241	1	None	NS3TP2, FLJ21313
5	GRAMD3	ENSG00000155324	ENST00000285689	protein_coding	KNOWN	CCDS4136	24911	1299	432	125758838	125830063	1	None	NS3TP2, FLJ21313
5	GRAMD3	ENSG00000155324	ENST00000515200	protein_coding	NOVEL	None	24911	1233	410	125758838	125830063	1	None	NS3TP2, FLJ21313
5	GRAMD3	ENSG00000155324	ENST00000514932	processed_transcript	KNOWN	None	24911	None	None	125759098	125807996	1	None	NS3TP2, FLJ21313
5	GRAMD3	ENSG00000155324	ENST00000513913	processed_transcript	KNOWN	None	24911	None	None	125759101	125805422	1	None	NS3TP2, FLJ21313
5	GRAMD3	ENSG00000155324	ENST00000505720	processed_transcript	KNOWN	None	24911	None	None	125759164	125805417	1	None	NS3TP2, FLJ21313
5	GRAMD3	ENSG00000155324	ENST00000514099	nonsense_mediated_decay	KNOWN	None	24911	264	87	125759164	125828858	1	None	NS3TP2, FLJ21313
5	GRAMD3	ENSG00000155324	ENST00000513978	nonsense_mediated_decay	KNOWN	None	24911	264	87	125759164	125829018	1	None	NS3TP2, FLJ21313
5	GRAMD3	ENSG00000155324	ENST00000502348	protein_coding	PUTATIVE	None	24911	972	323	125798037	125828697	1	None	NS3TP2, FLJ21313
5	GRAMD3	ENSG00000155324	ENST00000509882	processed_transcript	KNOWN	None	24911	None	None	125800838	125813475	1	None	NS3TP2, FLJ21313
5	GRAMD3	ENSG00000155324	ENST00000505441	retained_intron	KNOWN	None	24911	None	None	125800844	125807997	1	None	NS3TP2, FLJ21313
5	GRAMD3	ENSG00000155324	ENST00000511134	protein_coding	PUTATIVE	CCDS54893	24911	1251	416	125800847	125828894	1	None	NS3TP2, FLJ21313
5	GRAMD3	ENSG00000155324	ENST00000504859	retained_intron	KNOWN	None	24911	None	None	125807930	125819338	1	None	NS3TP2, FLJ21313
5	GRAMD3	ENSG00000155324	ENST00000508523	retained_intron	KNOWN	None	24911	None	None	125815709	125819241	1	None	NS3TP2, FLJ21313
5	GRAMD3	ENSG00000155324	ENST00000512579	processed_transcript	KNOWN	None	24911	None	None	125815786	125821444	1	None	NS3TP2, FLJ21313
5	GRAMD3	ENSG00000155324	ENST00000503702	processed_transcript	KNOWN	None	24911	None	None	125828630	125832186	1	None	NS3TP2, FLJ21313
5	GRAMD3	ENSG00000155324	ENST00000543198	protein_coding	KNOWN	None	24911	1116	371	125759150	125828672	1	None	NS3TP2, FLJ21313
5	GRAMD3	ENSG00000155324	ENST00000542322	protein_coding	KNOWN	CCDS54892	24911	1323	440	125758869	125829853	1	None	NS3TP2, FLJ21313
5	GRAMD3	ENSG00000155324	ENST00000544396	protein_coding	KNOWN	CCDS54894	24911	987	328	125758869	125829853	1	None	NS3TP2, FLJ21313
19	None	ENSG00000269469	ENST00000599536	nonsense_mediated_decay	KNOWN	None	None	217	71	49966009	49989488	1	None	None
X	ZDHHC9	ENSG00000188706	ENST00000357166	protein_coding	KNOWN	CCDS35395	18475	1095	364	128937264	128977860	-1	ZDHHC10, CXorf11	ZNF379, CGI-89, ZNF380
X	ZDHHC9	ENSG00000188706	ENST00000371064	protein_coding	KNOWN	CCDS35395	18475	1095	364	128939305	128977436	-1	ZDHHC10, CXorf11	ZNF379, CGI-89, ZNF380
X	ZDHHC9	ENSG00000188706	ENST00000433917	protein_coding	KNOWN	None	18475	581	192	128945423	128975800	-1	ZDHHC10, CXorf11	ZNF379, CGI-89, ZNF380
X	ZDHHC9	ENSG00000188706	ENST00000406492	protein_coding	KNOWN	None	18475	512	169	128948747	128977885	-1	ZDHHC10, CXorf11	ZNF379, CGI-89, ZNF380
X	ZDHHC9	ENSG00000188706	ENST00000491039	processed_transcript	KNOWN	None	18475	None	None	128956864	128957764	-1	ZDHHC10, CXorf11	ZNF379, CGI-89, ZNF380
11	CRTAM	ENSG00000109943	ENST00000227348	protein_coding	KNOWN	CCDS8437	24313	1182	393	122709208	122743347	1	None	CD355
11	CRTAM	ENSG00000109943	ENST00000533709	protein_coding	KNOWN	None	24313	585	194	122733011	122743345	1	None	CD355
11	CRTAM	ENSG00000109943	ENST00000533416	retained_intron	KNOWN	None	24313	None	None	122735299	122742205	1	None	CD355
HSCHR6_MHC_COX	None	ENSG00000234137	ENST00000451480	protein_coding	NOVEL	None	None	1701	566	30941191	30947386	1	None	None
HSCHR6_MHC_COX	None	ENSG00000234137	ENST00000476694	processed_transcript	NOVEL	None	None	None	None	30941191	30943872	1	None	None
HSCHR6_MHC_COX	None	ENSG00000234137	ENST00000548519	protein_coding	KNOWN	None	None	1251	416	30941181	30947381	1	None	None
13	GJB6	ENSG00000121742	ENST00000241124	protein_coding	KNOWN	CCDS9291	4288	786	261	20796110	20805117	-1	DFNA3, ED2	EDH, HED, CX30
13	GJB6	ENSG00000121742	ENST00000400066	protein_coding	KNOWN	CCDS9291	4288	786	261	20796110	20806440	-1	DFNA3, ED2	EDH, HED, CX30
13	GJB6	ENSG00000121742	ENST00000400065	protein_coding	KNOWN	CCDS9291	4288	786	261	20796110	20806442	-1	DFNA3, ED2	EDH, HED, CX30
13	GJB6	ENSG00000121742	ENST00000356192	protein_coding	KNOWN	CCDS9291	4288	786	261	20796110	20806534	-1	DFNA3, ED2	EDH, HED, CX30
10	ALDH18A1	ENSG00000059573	ENST00000371224	protein_coding	KNOWN	CCDS7443	9722	2388	795	97365696	97416463	-1	GSAS, PYCS	P5CS
10	ALDH18A1	ENSG00000059573	ENST00000371221	protein_coding	KNOWN	CCDS31257	9722	2382	793	97365702	97416463	-1	GSAS, PYCS	P5CS
10	ALDH18A1	ENSG00000059573	ENST00000485428	processed_transcript	KNOWN	None	9722	None	None	97371013	97376454	-1	GSAS, PYCS	P5CS
10	ALDH18A1	ENSG00000059573	ENST00000489386	processed_transcript	KNOWN	None	9722	None	None	97385187	97388610	-1	GSAS, PYCS	P5CS
10	ALDH18A1	ENSG00000059573	ENST00000483788	processed_transcript	KNOWN	None	9722	None	None	97396850	97416366	-1	GSAS, PYCS	P5CS
15	MGA	ENSG00000174197	ENST00000568630	processed_transcript	KNOWN	None	14010	None	None	41913422	41988781	1	None	KIAA0518, MAD5, MXD5, FLJ12634
15	MGA	ENSG00000174197	ENST00000563576	protein_coding	KNOWN	None	14010	3416	1137	41913734	42005680	1	None	KIAA0518, MAD5, MXD5, FLJ12634
15	MGA	ENSG00000174197	ENST00000566718	protein_coding	KNOWN	None	14010	3258	1085	41952610	42005522	1	None	KIAA0518, MAD5, MXD5, FLJ12634
15	MGA	ENSG00000174197	ENST00000566586	protein_coding	KNOWN	CCDS55960	14010	8571	2856	41961026	42062135	1	None	KIAA0518, MAD5, MXD5, FLJ12634
15	MGA	ENSG00000174197	ENST00000570161	protein_coding	KNOWN	CCDS55959	14010	9198	3065	41961093	42062139	1	None	KIAA0518, MAD5, MXD5, FLJ12634
15	MGA	ENSG00000174197	ENST00000561532	protein_coding	PUTATIVE	None	14010	251	82	41961922	41976888	1	None	KIAA0518, MAD5, MXD5, FLJ12634
15	MGA	ENSG00000174197	ENST00000564190	protein_coding	NOVEL	None	14010	3521	1172	42026752	42054395	1	None	KIAA0518, MAD5, MXD5, FLJ12634
15	MGA	ENSG00000174197	ENST00000566288	retained_intron	KNOWN	None	14010	None	None	42040929	42044516	1	None	KIAA0518, MAD5, MXD5, FLJ12634
15	MGA	ENSG00000174197	ENST00000568255	retained_intron	KNOWN	None	14010	None	None	42052326	42054536	1	None	KIAA0518, MAD5, MXD5, FLJ12634
15	MGA	ENSG00000174197	ENST00000219905	protein_coding	KNOWN	CCDS55959	14010	9198	3065	41952610	42062141	1	None	KIAA0518, MAD5, MXD5, FLJ12634
15	MGA	ENSG00000174197	ENST00000389936	protein_coding	KNOWN	None	14010	9081	3026	41952610	42062137	1	None	KIAA0518, MAD5, MXD5, FLJ12634
15	MGA	ENSG00000174197	ENST00000545763	protein_coding	KNOWN	CCDS55960	14010	8571	2856	41952610	42062137	1	None	KIAA0518, MAD5, MXD5, FLJ12634
1	PPFIA4	ENSG00000143847	ENST00000367240	protein_coding	NOVEL	None	9248	3561	1186	202995626	203047864	1	None	None
1	PPFIA4	ENSG00000143847	ENST00000447715	protein_coding	NOVEL	None	9248	3558	1185	203003612	203047868	1	None	None
1	PPFIA4	ENSG00000143847	ENST00000601609	retained_intron	KNOWN	None	9248	None	None	203014537	203015635	1	None	None
1	PPFIA4	ENSG00000143847	ENST00000600426	protein_coding	NOVEL	None	9248	2860	952	203014594	203045625	1	None	None
1	PPFIA4	ENSG00000143847	ENST00000272198	protein_coding	KNOWN	CCDS44296	9248	2106	701	203020311	203047864	1	None	None
1	PPFIA4	ENSG00000143847	ENST00000599966	protein_coding	NOVEL	None	9248	2079	692	203020368	203046081	1	None	None
1	PPFIA4	ENSG00000143847	ENST00000600447	retained_intron	KNOWN	None	9248	None	None	203022831	203024685	1	None	None
1	PPFIA4	ENSG00000143847	ENST00000599514	protein_coding	NOVEL	None	9248	573	190	203022874	203025934	1	None	None
1	PPFIA4	ENSG00000143847	ENST00000594656	retained_intron	KNOWN	None	9248	None	None	203030494	203036893	1	None	None
1	PPFIA4	ENSG00000143847	ENST00000486360	retained_intron	KNOWN	None	9248	None	None	203032087	203047863	1	None	None
1	PPFIA4	ENSG00000143847	ENST00000597023	retained_intron	KNOWN	None	9248	None	None	203036573	203037728	1	None	None
1	PPFIA4	ENSG00000143847	ENST00000594572	processed_transcript	KNOWN	None	9248	None	None	203045131	203046109	1	None	None
1	PPFIA4	ENSG00000143847	ENST00000414050	protein_coding	KNOWN	None	9248	2745	914	203014594	203045625	1	None	None
1	PPFIA4	ENSG00000143847	ENST00000295706	protein_coding	KNOWN	None	9248	2079	692	203003612	203047863	1	None	None
13	CYSLTR2	ENSG00000152207	ENST00000282018	protein_coding	KNOWN	CCDS9412	18274	1041	346	49280951	49283498	1	None	CysLT(2), CYSLT2R
17	NME2	ENSG00000011052	ENST00000393193	protein_coding	KNOWN	CCDS32682	7850	804	267	49230951	49249105	1	None	NM23-H2, NDPKB
17	NME2	ENSG00000011052	ENST00000376392	protein_coding	NOVEL	None	7850	594	197	49230965	49249105	1	None	NM23-H2, NDPKB
17	NME2	ENSG00000011052	ENST00000555572	protein_coding	NOVEL	None	7850	879	292	49230997	49249103	1	None	NM23-H2, NDPKB
17	NME2	ENSG00000011052	ENST00000393198	protein_coding	KNOWN	CCDS11580	7850	459	152	49243639	49249104	1	None	NM23-H2, NDPKB
17	NME2	ENSG00000011052	ENST00000393185	protein_coding	KNOWN	None	7850	234	77	49242891	49249104	1	None	NM23-H2, NDPKB
17	NME2	ENSG00000011052	ENST00000393183	protein_coding	KNOWN	None	7850	234	77	49243881	49249104	1	None	NM23-H2, NDPKB
16	ZC3H18	ENSG00000158545	ENST00000301011	protein_coding	KNOWN	CCDS10967	25091	2862	953	88636789	88698374	1	None	NHN1
16	ZC3H18	ENSG00000158545	ENST00000452588	protein_coding	NOVEL	None	25091	2934	977	88636811	88697806	1	None	NHN1
16	ZC3H18	ENSG00000158545	ENST00000569435	protein_coding	NOVEL	None	25091	591	196	88636886	88666210	1	None	NHN1
16	ZC3H18	ENSG00000158545	ENST00000567085	protein_coding	NOVEL	None	25091	712	236	88653025	88689678	1	None	NHN1
16	ZC3H18	ENSG00000158545	ENST00000568072	retained_intron	KNOWN	None	25091	None	None	88666244	88675672	1	None	NHN1
16	ZC3H18	ENSG00000158545	ENST00000564161	retained_intron	KNOWN	None	25091	None	None	88674925	88693107	1	None	NHN1
16	ZC3H18	ENSG00000158545	ENST00000564341	protein_coding	PUTATIVE	None	25091	228	75	88690451	88698255	1	None	NHN1
16	ZC3H18	ENSG00000158545	ENST00000563382	retained_intron	KNOWN	None	25091	None	None	88691096	88692092	1	None	NHN1
16	ZC3H18	ENSG00000158545	ENST00000566496	retained_intron	KNOWN	None	25091	None	None	88693470	88698342	1	None	NHN1
16	ZC3H18	ENSG00000158545	ENST00000565583	protein_coding	KNOWN	None	25091	591	196	88694330	88698338	1	None	NHN1
16	ZC3H18	ENSG00000158545	ENST00000566317	retained_intron	KNOWN	None	25091	None	None	88695056	88697832	1	None	NHN1
16	ZC3H18	ENSG00000158545	ENST00000566660	retained_intron	KNOWN	None	25091	None	None	88696563	88697664	1	None	NHN1
10	None	ENSG00000237002	ENST00000426283	lincRNA	KNOWN	None	None	None	None	36727544	36728725	1	None	None
10	None	ENSG00000237002	ENST00000418875	lincRNA	KNOWN	None	None	None	None	36727544	36731320	1	None	None
10	None	ENSG00000237002	ENST00000390846	snoRNA	KNOWN	None	None	None	None	36727589	36727716	1	None	None
2	FASTKD1	ENSG00000138399	ENST00000453153	protein_coding	KNOWN	CCDS33318	26150	2544	847	170386259	170430383	-1	None	FLJ21901
2	FASTKD1	ENSG00000138399	ENST00000490590	processed_transcript	KNOWN	None	26150	None	None	170386265	170396627	-1	None	FLJ21901
2	FASTKD1	ENSG00000138399	ENST00000453929	protein_coding	KNOWN	None	26150	2415	804	170386265	170430342	-1	None	FLJ21901
2	FASTKD1	ENSG00000138399	ENST00000495505	processed_transcript	KNOWN	None	26150	None	None	170386303	170396634	-1	None	FLJ21901
2	FASTKD1	ENSG00000138399	ENST00000488951	retained_intron	KNOWN	None	26150	None	None	170386342	170388192	-1	None	FLJ21901
2	FASTKD1	ENSG00000138399	ENST00000488516	retained_intron	KNOWN	None	26150	None	None	170393512	170394651	-1	None	FLJ21901
2	FASTKD1	ENSG00000138399	ENST00000487293	retained_intron	KNOWN	None	26150	None	None	170416781	170419900	-1	None	FLJ21901
2	FASTKD1	ENSG00000138399	ENST00000417376	protein_coding	PUTATIVE	None	26150	312	103	170417040	170427749	-1	None	FLJ21901
2	FASTKD1	ENSG00000138399	ENST00000438035	protein_coding	NOVEL	None	26150	759	252	170417040	170430322	-1	None	FLJ21901
2	FASTKD1	ENSG00000138399	ENST00000445210	protein_coding	KNOWN	None	26150	828	275	170417040	170430385	-1	None	FLJ21901
10	None	ENSG00000207271	ENST00000384541	misc_RNA	NOVEL	None	None	None	None	36914943	36915066	-1	None	None
10	WDR11	ENSG00000120008	ENST00000263461	protein_coding	KNOWN	CCDS7619	13831	3675	1224	122610687	122669036	1	BRWD2	KIAA1351, FLJ10506, WDR15, HH14, DR11
10	WDR11	ENSG00000120008	ENST00000605202	processed_transcript	KNOWN	None	13831	None	None	122610817	122619782	1	BRWD2	KIAA1351, FLJ10506, WDR15, HH14, DR11
10	WDR11	ENSG00000120008	ENST00000605543	nonsense_mediated_decay	KNOWN	None	13831	288	95	122610874	122668694	1	BRWD2	KIAA1351, FLJ10506, WDR15, HH14, DR11
10	WDR11	ENSG00000120008	ENST00000605069	processed_transcript	KNOWN	None	13831	None	None	122610904	122622422	1	BRWD2	KIAA1351, FLJ10506, WDR15, HH14, DR11
10	WDR11	ENSG00000120008	ENST00000605178	processed_transcript	KNOWN	None	13831	None	None	122610916	122622421	1	BRWD2	KIAA1351, FLJ10506, WDR15, HH14, DR11
10	WDR11	ENSG00000120008	ENST00000604585	protein_coding	PUTATIVE	None	13831	936	311	122610999	122640387	1	BRWD2	KIAA1351, FLJ10506, WDR15, HH14, DR11
10	WDR11	ENSG00000120008	ENST00000470052	processed_transcript	KNOWN	None	13831	None	None	122611293	122618308	1	BRWD2	KIAA1351, FLJ10506, WDR15, HH14, DR11
10	WDR11	ENSG00000120008	ENST00000497136	nonsense_mediated_decay	KNOWN	None	13831	600	199	122612128	122669032	1	BRWD2	KIAA1351, FLJ10506, WDR15, HH14, DR11
10	WDR11	ENSG00000120008	ENST00000462529	processed_transcript	KNOWN	None	13831	None	None	122621962	122624703	1	BRWD2	KIAA1351, FLJ10506, WDR15, HH14, DR11
10	WDR11	ENSG00000120008	ENST00000604220	processed_transcript	KNOWN	None	13831	None	None	122628175	122643317	1	BRWD2	KIAA1351, FLJ10506, WDR15, HH14, DR11
10	WDR11	ENSG00000120008	ENST00000604509	processed_transcript	KNOWN	None	13831	None	None	122638517	122669022	1	BRWD2	KIAA1351, FLJ10506, WDR15, HH14, DR11
10	WDR11	ENSG00000120008	ENST00000605376	processed_transcript	KNOWN	None	13831	None	None	122644522	122649480	1	BRWD2	KIAA1351, FLJ10506, WDR15, HH14, DR11
10	WDR11	ENSG00000120008	ENST00000478567	processed_transcript	KNOWN	None	13831	None	None	122645380	122662737	1	BRWD2	KIAA1351, FLJ10506, WDR15, HH14, DR11
10	WDR11	ENSG00000120008	ENST00000605320	processed_transcript	KNOWN	None	13831	None	None	122659350	122662687	1	BRWD2	KIAA1351, FLJ10506, WDR15, HH14, DR11
10	WDR11	ENSG00000120008	ENST00000605659	processed_transcript	KNOWN	None	13831	None	None	122663553	122664907	1	BRWD2	KIAA1351, FLJ10506, WDR15, HH14, DR11
10	WDR11	ENSG00000120008	ENST00000603658	retained_intron	KNOWN	None	13831	None	None	122663577	122665168	1	BRWD2	KIAA1351, FLJ10506, WDR15, HH14, DR11
10	WDR11	ENSG00000120008	ENST00000604714	processed_transcript	KNOWN	None	13831	None	None	122666807	122669035	1	BRWD2	KIAA1351, FLJ10506, WDR15, HH14, DR11
10	None	ENSG00000238176	ENST00000457804	lincRNA	KNOWN	None	None	None	None	37229037	37232860	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000235394	ENST00000444727	processed_transcript	KNOWN	None	None	None	None	29963964	30023905	-1	None	None
HSCHR6_MHC_MANN	None	ENSG00000235394	ENST00000445454	processed_transcript	KNOWN	None	None	None	None	29963964	30024120	-1	None	None
HSCHR6_MHC_MANN	None	ENSG00000235394	ENST00000413935	processed_transcript	KNOWN	None	None	None	None	29963964	30024121	-1	None	None
HSCHR6_MHC_MANN	None	ENSG00000235394	ENST00000433362	processed_transcript	KNOWN	None	None	None	None	29963964	30024161	-1	None	None
HSCHR6_MHC_MANN	None	ENSG00000235394	ENST00000457825	processed_transcript	KNOWN	None	None	None	None	29975053	29997988	-1	None	None
HSCHR6_MHC_MANN	None	ENSG00000235394	ENST00000417055	processed_transcript	KNOWN	None	None	None	None	29982741	30024617	-1	None	None
HSCHR6_MHC_MANN	None	ENSG00000235394	ENST00000434637	processed_transcript	KNOWN	None	None	None	None	29997908	30021727	-1	None	None
HSCHR6_MHC_MANN	None	ENSG00000235394	ENST00000432316	processed_transcript	KNOWN	None	None	None	None	29998403	30024166	-1	None	None
HSCHR6_MHC_MANN	None	ENSG00000235394	ENST00000430439	processed_transcript	KNOWN	None	None	None	None	30017581	30024156	-1	None	None
HSCHR6_MHC_MANN	None	ENSG00000235394	ENST00000415094	processed_transcript	KNOWN	None	None	None	None	30019733	30023956	-1	None	None
10	CCDC7	ENSG00000216937	ENST00000476558	nonsense_mediated_decay	KNOWN	None	26533	804	267	32735068	32863488	1	None	FLJ32762
10	CCDC7	ENSG00000216937	ENST00000277657	protein_coding	KNOWN	CCDS7173	26533	1461	486	32735068	32863492	1	None	FLJ32762
10	CCDC7	ENSG00000216937	ENST00000362006	protein_coding	KNOWN	CCDS7173	26533	1461	486	32735068	32863492	1	None	FLJ32762
10	CCDC7	ENSG00000216937	ENST00000489718	processed_transcript	KNOWN	None	26533	None	None	32770639	32788309	1	None	FLJ32762
10	CCDC7	ENSG00000216937	ENST00000493685	processed_transcript	KNOWN	None	26533	None	None	32801393	32832314	1	None	FLJ32762
10	CCDC7	ENSG00000216937	ENST00000435402	protein_coding	KNOWN	None	26533	482	159	32832228	32863412	1	None	FLJ32762
10	CCDC7	ENSG00000216937	ENST00000471905	processed_transcript	KNOWN	None	26533	None	None	32832254	32833365	1	None	FLJ32762
10	CCDC7	ENSG00000216937	ENST00000539197	protein_coding	KNOWN	None	26533	522	173	32740549	32807361	1	None	FLJ32762
10	CCDC7	ENSG00000216937	ENST00000537047	protein_coding	KNOWN	None	26533	528	175	32740549	32807361	1	None	FLJ32762
10	CCDC7	ENSG00000216937	ENST00000545067	protein_coding	KNOWN	None	26533	516	171	32735315	32803509	1	None	FLJ32762
10	CCDC7	ENSG00000216937	ENST00000535327	protein_coding	KNOWN	None	26533	516	171	32740549	32807361	1	None	FLJ32762
15	COPS2	ENSG00000166200	ENST00000560240	nonsense_mediated_decay	KNOWN	None	30747	168	55	49398268	49422970	-1	None	TRIP15, ALIEN, CSN2
15	COPS2	ENSG00000166200	ENST00000388901	protein_coding	KNOWN	CCDS32235	30747	1332	443	49417492	49447849	-1	None	TRIP15, ALIEN, CSN2
15	COPS2	ENSG00000166200	ENST00000299259	protein_coding	KNOWN	CCDS45257	30747	1353	450	49419547	49447858	-1	None	TRIP15, ALIEN, CSN2
15	COPS2	ENSG00000166200	ENST00000542928	protein_coding	NOVEL	None	30747	1140	379	49419733	49447801	-1	None	TRIP15, ALIEN, CSN2
15	COPS2	ENSG00000166200	ENST00000558843	protein_coding	NOVEL	None	30747	791	262	49426230	49447787	-1	None	TRIP15, ALIEN, CSN2
15	COPS2	ENSG00000166200	ENST00000561248	protein_coding	NOVEL	None	30747	549	182	49426280	49447801	-1	None	TRIP15, ALIEN, CSN2
15	COPS2	ENSG00000166200	ENST00000559016	retained_intron	KNOWN	None	30747	None	None	49426332	49429656	-1	None	TRIP15, ALIEN, CSN2
15	COPS2	ENSG00000166200	ENST00000558545	retained_intron	KNOWN	None	30747	None	None	49431455	49447801	-1	None	TRIP15, ALIEN, CSN2
19	FLT3LG	ENSG00000090554	ENST00000601800	nonsense_mediated_decay	KNOWN	None	3766	177	58	49977464	49989488	1	None	None
19	FLT3LG	ENSG00000090554	ENST00000596435	protein_coding	NOVEL	None	3766	654	217	49977485	49989488	1	None	None
19	FLT3LG	ENSG00000090554	ENST00000597551	protein_coding	KNOWN	CCDS12767	3766	708	235	49977491	49989408	1	None	None
19	FLT3LG	ENSG00000090554	ENST00000600084	nonsense_mediated_decay	KNOWN	None	3766	177	58	49977493	49989488	1	None	None
19	FLT3LG	ENSG00000090554	ENST00000204637	protein_coding	PUTATIVE	None	3766	462	153	49977493	49989488	1	None	None
19	FLT3LG	ENSG00000090554	ENST00000600429	protein_coding	KNOWN	CCDS12767	3766	708	235	49977509	49989408	1	None	None
19	FLT3LG	ENSG00000090554	ENST00000594009	protein_coding	KNOWN	CCDS12767	3766	708	235	49977818	49989488	1	None	None
19	FLT3LG	ENSG00000090554	ENST00000593422	retained_intron	KNOWN	None	3766	None	None	49977840	49979987	1	None	None
19	FLT3LG	ENSG00000090554	ENST00000595815	processed_transcript	KNOWN	None	3766	None	None	49977843	49990894	1	None	None
19	FLT3LG	ENSG00000090554	ENST00000595510	protein_coding	PUTATIVE	None	3766	462	153	49977859	49985648	1	None	None
19	FLT3LG	ENSG00000090554	ENST00000598555	protein_coding	PUTATIVE	None	3766	562	186	49979037	49989488	1	None	None
19	FLT3LG	ENSG00000090554	ENST00000598472	retained_intron	KNOWN	None	3766	None	None	49979366	49989286	1	None	None
19	FLT3LG	ENSG00000090554	ENST00000597914	protein_coding	PUTATIVE	None	3766	397	131	49982174	49984838	1	None	None
19	FLT3LG	ENSG00000090554	ENST00000344019	protein_coding	KNOWN	None	3766	537	178	49977486	49983002	1	None	None
10	MKNK2P1	ENSG00000233533	ENST00000437526	processed_pseudogene	KNOWN	None	44970	None	None	37233039	37233666	-1	None	None
5	PRR7	ENSG00000131188	ENST00000507881	protein_coding	KNOWN	None	28130	536	177	176873446	176882833	1	None	MGC10772
5	PRR7	ENSG00000131188	ENST00000323249	protein_coding	KNOWN	CCDS4419	28130	825	274	176873796	176883283	1	None	MGC10772
5	PRR7	ENSG00000131188	ENST00000502922	protein_coding	KNOWN	CCDS4419	28130	825	274	176873828	176883269	1	None	MGC10772
5	PRR7	ENSG00000131188	ENST00000510492	protein_coding	KNOWN	CCDS4419	28130	825	274	176875335	176883269	1	None	MGC10772
10	ARL6IP1P2	ENSG00000225355	ENST00000431356	processed_pseudogene	KNOWN	None	44971	None	None	37283951	37284513	1	None	None
5	None	ENSG00000271119	ENST00000605200	lincRNA	KNOWN	None	None	None	None	1594741	1611582	1	None	None
5	LARP1	ENSG00000155506	ENST00000336314	protein_coding	KNOWN	CCDS4328	29531	3060	1019	154092462	154197167	1	None	LARP, KIAA0731, MGC19556
5	LARP1	ENSG00000155506	ENST00000518297	protein_coding	KNOWN	None	29531	2447	814	154135135	154183768	1	None	LARP, KIAA0731, MGC19556
5	LARP1	ENSG00000155506	ENST00000517616	protein_coding	PUTATIVE	None	29531	501	166	154135545	154173209	1	None	LARP, KIAA0731, MGC19556
5	LARP1	ENSG00000155506	ENST00000518892	protein_coding	PUTATIVE	None	29531	202	66	154135563	154166244	1	None	LARP, KIAA0731, MGC19556
5	LARP1	ENSG00000155506	ENST00000521577	nonsense_mediated_decay	KNOWN	None	29531	184	60	154135734	154173755	1	None	LARP, KIAA0731, MGC19556
5	LARP1	ENSG00000155506	ENST00000519931	protein_coding	KNOWN	None	29531	278	91	154135971	154173384	1	None	LARP, KIAA0731, MGC19556
5	LARP1	ENSG00000155506	ENST00000524248	protein_coding	KNOWN	None	29531	1832	609	154136734	154183768	1	None	LARP, KIAA0731, MGC19556
5	LARP1	ENSG00000155506	ENST00000523163	protein_coding	PUTATIVE	None	29531	843	280	154172293	154181569	1	None	LARP, KIAA0731, MGC19556
5	LARP1	ENSG00000155506	ENST00000518194	protein_coding	PUTATIVE	None	29531	450	149	154172334	154174746	1	None	LARP, KIAA0731, MGC19556
5	LARP1	ENSG00000155506	ENST00000518595	retained_intron	KNOWN	None	29531	None	None	154173606	154181638	1	None	LARP, KIAA0731, MGC19556
5	LARP1	ENSG00000155506	ENST00000518742	protein_coding	PUTATIVE	None	29531	587	194	154173770	154181643	1	None	LARP, KIAA0731, MGC19556
5	LARP1	ENSG00000155506	ENST00000518677	protein_coding	PUTATIVE	None	29531	551	182	154181910	154184673	1	None	LARP, KIAA0731, MGC19556
5	LARP1	ENSG00000155506	ENST00000522272	protein_coding	PUTATIVE	None	29531	109	35	154183781	154184800	1	None	LARP, KIAA0731, MGC19556
5	LARP1	ENSG00000155506	ENST00000519194	retained_intron	KNOWN	None	29531	None	None	154185314	154190911	1	None	LARP, KIAA0731, MGC19556
5	LARP1	ENSG00000155506	ENST00000524187	retained_intron	KNOWN	None	29531	None	None	154190948	154193480	1	None	LARP, KIAA0731, MGC19556
3	BRPF1	ENSG00000156983	ENST00000433861	protein_coding	NOVEL	None	14255	3360	1119	9773413	9789557	1	None	BR140
3	BRPF1	ENSG00000156983	ENST00000424362	protein_coding	NOVEL	None	14255	3642	1213	9773429	9789699	1	None	BR140
3	BRPF1	ENSG00000156983	ENST00000383829	protein_coding	KNOWN	CCDS33692	14255	3663	1220	9773429	9789702	1	None	BR140
3	BRPF1	ENSG00000156983	ENST00000420291	protein_coding	KNOWN	None	14255	301	99	9773472	9776125	1	None	BR140
3	BRPF1	ENSG00000156983	ENST00000426583	protein_coding	KNOWN	None	14255	316	104	9774164	9776140	1	None	BR140
3	BRPF1	ENSG00000156983	ENST00000457855	protein_coding	KNOWN	CCDS2575	14255	3645	1214	9775814	9789685	1	None	BR140
3	BRPF1	ENSG00000156983	ENST00000469066	processed_transcript	KNOWN	None	14255	None	None	9784940	9785479	1	None	BR140
3	BRPF1	ENSG00000156983	ENST00000497565	retained_intron	KNOWN	None	14255	None	None	9786728	9788913	1	None	BR140
3	BRPF1	ENSG00000156983	ENST00000302054	protein_coding	KNOWN	CCDS2575	14255	3645	1214	9773434	9789699	1	None	BR140
2	CCT4	ENSG00000115484	ENST00000394440	protein_coding	KNOWN	CCDS33206	1617	1620	539	62095224	62115939	-1	None	Cctd
2	CCT4	ENSG00000115484	ENST00000461540	processed_transcript	PUTATIVE	None	1617	None	None	62095565	62104161	-1	None	Cctd
2	CCT4	ENSG00000115484	ENST00000461370	processed_transcript	PUTATIVE	None	1617	None	None	62115083	62115593	-1	None	Cctd
2	CCT4	ENSG00000115484	ENST00000544079	protein_coding	KNOWN	CCDS58711	1617	1530	509	62095571	62115791	-1	None	Cctd
2	CCT4	ENSG00000115484	ENST00000538252	protein_coding	KNOWN	None	1617	1452	483	62095748	62115748	-1	None	Cctd
2	CCT4	ENSG00000115484	ENST00000544185	protein_coding	KNOWN	None	1617	1170	389	62095736	62115659	-1	None	Cctd
19	ZNF320	ENSG00000182986	ENST00000595202	processed_transcript	KNOWN	None	13842	None	None	53367043	53377490	-1	None	ZFPL, DKFZp686G16228
19	ZNF320	ENSG00000182986	ENST00000597909	protein_coding	PUTATIVE	None	13842	354	117	53367119	53400946	-1	None	ZFPL, DKFZp686G16228
19	ZNF320	ENSG00000182986	ENST00000598199	processed_transcript	KNOWN	None	13842	None	None	53367175	53382886	-1	None	ZFPL, DKFZp686G16228
19	ZNF320	ENSG00000182986	ENST00000600930	processed_transcript	KNOWN	None	13842	None	None	53379431	53398409	-1	None	ZFPL, DKFZp686G16228
19	ZNF320	ENSG00000182986	ENST00000595635	protein_coding	KNOWN	CCDS33095	13842	1530	509	53379433	53400813	-1	None	ZFPL, DKFZp686G16228
19	ZNF320	ENSG00000182986	ENST00000597091	protein_coding	PUTATIVE	None	13842	467	154	53384870	53394599	-1	None	ZFPL, DKFZp686G16228
19	ZNF320	ENSG00000182986	ENST00000593618	protein_coding	KNOWN	None	13842	370	122	53385009	53400937	-1	None	ZFPL, DKFZp686G16228
19	ZNF320	ENSG00000182986	ENST00000594741	protein_coding	KNOWN	None	13842	258	85	53385121	53400903	-1	None	ZFPL, DKFZp686G16228
19	ZNF320	ENSG00000182986	ENST00000597265	protein_coding	KNOWN	None	13842	172	56	53385207	53395541	-1	None	ZFPL, DKFZp686G16228
19	ZNF320	ENSG00000182986	ENST00000597111	protein_coding	KNOWN	None	13842	77	24	53391445	53400907	-1	None	ZFPL, DKFZp686G16228
19	ZNF320	ENSG00000182986	ENST00000601334	processed_transcript	KNOWN	None	13842	None	None	53393514	53400908	-1	None	ZFPL, DKFZp686G16228
19	ZNF320	ENSG00000182986	ENST00000597856	processed_transcript	KNOWN	None	13842	None	None	53393562	53400902	-1	None	ZFPL, DKFZp686G16228
19	ZNF320	ENSG00000182986	ENST00000596215	processed_transcript	KNOWN	None	13842	None	None	53398644	53400888	-1	None	ZFPL, DKFZp686G16228
19	ZNF320	ENSG00000182986	ENST00000391781	protein_coding	KNOWN	CCDS33095	13842	1530	509	53379425	53393592	-1	None	ZFPL, DKFZp686G16228
HSCHR6_MHC_MANN	BAG6	ENSG00000228760	ENST00000481696	processed_transcript	PUTATIVE	None	13919	None	None	31646291	31647051	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MANN	BAG6	ENSG00000228760	ENST00000492215	processed_transcript	PUTATIVE	None	13919	None	None	31646291	31647802	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MANN	BAG6	ENSG00000228760	ENST00000424504	protein_coding	KNOWN	None	13919	410	135	31646291	31648200	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MANN	BAG6	ENSG00000228760	ENST00000456804	protein_coding	KNOWN	None	13919	680	225	31646291	31648491	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MANN	BAG6	ENSG00000228760	ENST00000415373	protein_coding	KNOWN	None	13919	3381	1126	31646291	31659662	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MANN	BAG6	ENSG00000228760	ENST00000444402	protein_coding	KNOWN	None	13919	3399	1132	31646291	31659904	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MANN	BAG6	ENSG00000228760	ENST00000415345	protein_coding	KNOWN	None	13919	3381	1126	31646291	31659974	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MANN	BAG6	ENSG00000228760	ENST00000461257	retained_intron	KNOWN	None	13919	None	None	31648088	31649408	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MANN	BAG6	ENSG00000228760	ENST00000461852	processed_transcript	PUTATIVE	None	13919	None	None	31649111	31651585	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MANN	BAG6	ENSG00000228760	ENST00000451042	protein_coding	KNOWN	None	13919	2228	741	31649482	31659947	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MANN	BAG6	ENSG00000228760	ENST00000478374	processed_transcript	PUTATIVE	None	13919	None	None	31649943	31651469	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MANN	BAG6	ENSG00000228760	ENST00000432674	protein_coding	KNOWN	None	13919	714	237	31650091	31652338	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MANN	BAG6	ENSG00000228760	ENST00000451948	protein_coding	KNOWN	None	13919	736	244	31650129	31652759	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MANN	BAG6	ENSG00000228760	ENST00000472751	processed_transcript	KNOWN	None	13919	None	None	31650218	31652830	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MANN	BAG6	ENSG00000228760	ENST00000436814	protein_coding	KNOWN	None	13919	554	183	31650372	31652772	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MANN	BAG6	ENSG00000228760	ENST00000447656	protein_coding	KNOWN	None	13919	1545	514	31651586	31659655	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MANN	BAG6	ENSG00000228760	ENST00000461560	processed_transcript	KNOWN	None	13919	None	None	31651763	31652454	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MANN	BAG6	ENSG00000228760	ENST00000416094	protein_coding	KNOWN	None	13919	734	243	31654860	31659189	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MANN	BAG6	ENSG00000228760	ENST00000428905	protein_coding	KNOWN	None	13919	788	261	31654860	31659427	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MANN	BAG6	ENSG00000228760	ENST00000427244	protein_coding	KNOWN	None	13919	734	243	31654860	31659627	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MANN	BAG6	ENSG00000228760	ENST00000415770	protein_coding	KNOWN	None	13919	786	261	31654862	31659422	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MANN	BAG6	ENSG00000228760	ENST00000450513	protein_coding	KNOWN	None	13919	731	242	31654863	31659917	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MANN	BAG6	ENSG00000228760	ENST00000441898	protein_coding	KNOWN	None	13919	779	258	31654869	31659244	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MANN	BAG6	ENSG00000228760	ENST00000436434	protein_coding	KNOWN	None	13919	775	257	31654873	31659936	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MANN	BAG6	ENSG00000228760	ENST00000432814	protein_coding	KNOWN	None	13919	645	214	31654949	31659592	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MANN	BAG6	ENSG00000228760	ENST00000424221	protein_coding	KNOWN	None	13919	698	231	31654968	31659914	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MANN	BAG6	ENSG00000228760	ENST00000454248	protein_coding	KNOWN	None	13919	619	205	31654975	31659714	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MANN	BAG6	ENSG00000228760	ENST00000427281	protein_coding	KNOWN	None	13919	591	196	31655057	31659248	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MANN	BAG6	ENSG00000228760	ENST00000462603	processed_transcript	PUTATIVE	None	13919	None	None	31655997	31659591	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MANN	BAG6	ENSG00000228760	ENST00000419409	protein_coding	KNOWN	None	13919	476	157	31656181	31659384	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MANN	BAG6	ENSG00000228760	ENST00000461174	processed_transcript	PUTATIVE	None	13919	None	None	31656499	31659907	-1	BAT3	G3, D6S52E
HSCHR6_MHC_MANN	BAG6	ENSG00000228760	ENST00000550393	protein_coding	KNOWN	None	13919	3489	1162	31646292	31659969	-1	BAT3	G3, D6S52E
1	MYOG	ENSG00000122180	ENST00000241651	protein_coding	KNOWN	CCDS1433	7612	675	224	203052260	203055164	-1	MYF4	bHLHc3
9	CHMP5	ENSG00000086065	ENST00000223500	protein_coding	KNOWN	CCDS6537	26942	660	219	33264940	33281537	1	C9orf83, SNF7DC2	HSPC177, CGI-34, Vps60
9	CHMP5	ENSG00000086065	ENST00000487080	processed_transcript	KNOWN	None	26942	None	None	33277791	33280949	1	C9orf83, SNF7DC2	HSPC177, CGI-34, Vps60
9	CHMP5	ENSG00000086065	ENST00000419016	protein_coding	KNOWN	CCDS56569	26942	516	171	33265037	33281977	1	C9orf83, SNF7DC2	HSPC177, CGI-34, Vps60
7	GBAS	ENSG00000146729	ENST00000446692	protein_coding	PUTATIVE	None	4179	196	64	56019486	56052570	1	None	NIPSNAP2
7	GBAS	ENSG00000146729	ENST00000322090	protein_coding	KNOWN	CCDS5521	4179	861	286	56032274	56067874	1	None	NIPSNAP2
7	GBAS	ENSG00000146729	ENST00000446778	protein_coding	NOVEL	CCDS56488	4179	744	247	56032274	56067874	1	None	NIPSNAP2
7	GBAS	ENSG00000146729	ENST00000470036	retained_intron	KNOWN	None	4179	None	None	56032288	56046292	1	None	NIPSNAP2
7	GBAS	ENSG00000146729	ENST00000456204	nonsense_mediated_decay	KNOWN	None	4179	438	145	56032299	56051505	1	None	NIPSNAP2
7	GBAS	ENSG00000146729	ENST00000437587	protein_coding	PUTATIVE	None	4179	242	79	56032655	56062631	1	None	NIPSNAP2
7	GBAS	ENSG00000146729	ENST00000487370	processed_transcript	KNOWN	None	4179	None	None	56032691	56049196	1	None	NIPSNAP2
7	GBAS	ENSG00000146729	ENST00000472404	processed_transcript	KNOWN	None	4179	None	None	56032806	56049191	1	None	NIPSNAP2
7	GBAS	ENSG00000146729	ENST00000497279	retained_intron	KNOWN	None	4179	None	None	56046600	56067871	1	None	NIPSNAP2
7	GBAS	ENSG00000146729	ENST00000415967	nonsense_mediated_decay	KNOWN	None	4179	343	113	56049166	56066997	1	None	NIPSNAP2
7	GBAS	ENSG00000146729	ENST00000464772	retained_intron	KNOWN	None	4179	None	None	56049464	56051483	1	None	NIPSNAP2
8	KCNK9	ENSG00000169427	ENST00000522317	nonsense_mediated_decay	KNOWN	CCDS6377	6283	1125	374	140613081	140715284	-1	None	K2p9.1, TASK3, TASK-3
8	KCNK9	ENSG00000169427	ENST00000523477	processed_transcript	KNOWN	None	6283	None	None	140613082	140629248	-1	None	K2p9.1, TASK3, TASK-3
8	KCNK9	ENSG00000169427	ENST00000523653	processed_transcript	PUTATIVE	None	6283	None	None	140613321	140614307	-1	None	K2p9.1, TASK3, TASK-3
8	KCNK9	ENSG00000169427	ENST00000519923	processed_transcript	PUTATIVE	None	6283	None	None	140624569	140628290	-1	None	K2p9.1, TASK3, TASK-3
8	KCNK9	ENSG00000169427	ENST00000520439	protein_coding	KNOWN	CCDS6377	6283	1125	374	140630249	140715299	-1	None	K2p9.1, TASK3, TASK-3
8	KCNK9	ENSG00000169427	ENST00000303015	protein_coding	KNOWN	CCDS6377	6283	1125	374	140624804	140715299	-1	None	K2p9.1, TASK3, TASK-3
11	AQP11	ENSG00000178301	ENST00000528638	processed_transcript	KNOWN	None	19940	None	None	77300436	77321054	1	None	None
11	AQP11	ENSG00000178301	ENST00000313578	protein_coding	KNOWN	CCDS8251	19940	816	271	77300680	77321400	1	None	None
6	DSE	ENSG00000111817	ENST00000430252	protein_coding	KNOWN	None	21144	432	143	116575336	116747752	1	SART2	DSEPI
6	DSE	ENSG00000111817	ENST00000607094	retained_intron	KNOWN	None	21144	None	None	116600306	116722435	1	SART2	DSEPI
6	DSE	ENSG00000111817	ENST00000452085	protein_coding	KNOWN	CCDS5107	21144	2877	958	116601283	116762424	1	SART2	DSEPI
6	DSE	ENSG00000111817	ENST00000331677	protein_coding	KNOWN	CCDS5107	21144	2877	958	116691521	116762424	1	SART2	DSEPI
6	DSE	ENSG00000111817	ENST00000606265	processed_transcript	KNOWN	None	21144	None	None	116733628	116747889	1	SART2	DSEPI
6	DSE	ENSG00000111817	ENST00000606712	retained_intron	KNOWN	None	21144	None	None	116753692	116759440	1	SART2	DSEPI
6	DSE	ENSG00000111817	ENST00000540275	protein_coding	KNOWN	None	21144	570	189	116575336	116747752	1	SART2	DSEPI
6	DSE	ENSG00000111817	ENST00000537543	protein_coding	KNOWN	None	21144	2934	977	116691010	116758984	1	SART2	DSEPI
6	DSE	ENSG00000111817	ENST00000359564	protein_coding	KNOWN	CCDS5107	21144	2877	958	116692110	116759440	1	SART2	DSEPI
7	NYAP1	ENSG00000166924	ENST00000300179	protein_coding	KNOWN	CCDS5696	22009	2526	841	100081550	100092422	1	C7orf51, KIAA1486L	FLJ37538
7	NYAP1	ENSG00000166924	ENST00000454988	protein_coding	KNOWN	None	22009	2358	785	100084547	100091945	1	C7orf51, KIAA1486L	FLJ37538
7	NYAP1	ENSG00000166924	ENST00000496985	processed_transcript	KNOWN	None	22009	None	None	100088138	100091739	1	C7orf51, KIAA1486L	FLJ37538
7	NYAP1	ENSG00000166924	ENST00000489641	processed_transcript	KNOWN	None	22009	None	None	100088607	100091709	1	C7orf51, KIAA1486L	FLJ37538
7	NYAP1	ENSG00000166924	ENST00000423930	protein_coding	KNOWN	None	22009	2529	842	100081550	100092422	1	C7orf51, KIAA1486L	FLJ37538
1	ADORA1	ENSG00000163485	ENST00000309502	protein_coding	KNOWN	CCDS1434	262	981	326	203059782	203136532	1	None	RDC7
1	ADORA1	ENSG00000163485	ENST00000367236	protein_coding	KNOWN	CCDS1434	262	981	326	203096193	203136533	1	None	RDC7
1	ADORA1	ENSG00000163485	ENST00000367235	protein_coding	KNOWN	None	262	378	125	203097434	203135877	1	None	RDC7
1	ADORA1	ENSG00000163485	ENST00000464019	processed_transcript	KNOWN	None	262	None	None	203098762	203134869	1	None	RDC7
1	ADORA1	ENSG00000163485	ENST00000472535	processed_transcript	KNOWN	None	262	None	None	203119760	203135877	1	None	RDC7
1	ADORA1	ENSG00000163485	ENST00000467253	processed_transcript	KNOWN	None	262	None	None	203121774	203135243	1	None	RDC7
1	ADORA1	ENSG00000163485	ENST00000337894	protein_coding	KNOWN	CCDS1434	262	981	326	203096836	203136533	1	None	RDC7
6	PPARD	ENSG00000112033	ENST00000337400	protein_coding	KNOWN	CCDS4804	9235	1086	361	35310391	35393170	1	None	NUC1, NUCII, FAAR, NR1C2
6	PPARD	ENSG00000112033	ENST00000311565	protein_coding	KNOWN	CCDS4803	9235	1326	441	35310391	35395955	1	None	NUC1, NUCII, FAAR, NR1C2
6	PPARD	ENSG00000112033	ENST00000448077	protein_coding	KNOWN	CCDS54994	9235	1209	402	35310335	35395968	1	None	NUC1, NUCII, FAAR, NR1C2
6	PPARD	ENSG00000112033	ENST00000360694	protein_coding	KNOWN	CCDS4803	9235	1326	441	35310335	35395968	1	None	NUC1, NUCII, FAAR, NR1C2
6	PPARD	ENSG00000112033	ENST00000418635	protein_coding	KNOWN	CCDS54995	9235	1032	343	35310335	35395968	1	None	NUC1, NUCII, FAAR, NR1C2
6	PPARD	ENSG00000112033	ENST00000444397	protein_coding	KNOWN	CCDS4804	9235	1086	361	35310335	35393171	1	None	NUC1, NUCII, FAAR, NR1C2
6	PPARD	ENSG00000112033	ENST00000540939	protein_coding	KNOWN	None	9235	1017	338	35310402	35394096	1	None	NUC1, NUCII, FAAR, NR1C2
13	FNDC3A	ENSG00000102531	ENST00000492622	protein_coding	KNOWN	CCDS41886	20296	3597	1198	49550048	49783915	1	FNDC3	bA203I16.5, KIAA0970
13	FNDC3A	ENSG00000102531	ENST00000378383	retained_intron	KNOWN	None	20296	None	None	49550205	49720983	1	FNDC3	bA203I16.5, KIAA0970
13	FNDC3A	ENSG00000102531	ENST00000484074	nonsense_mediated_decay	KNOWN	None	20296	2055	684	49550809	49783743	1	FNDC3	bA203I16.5, KIAA0970
13	FNDC3A	ENSG00000102531	ENST00000398316	protein_coding	KNOWN	CCDS9413	20296	3429	1142	49684449	49783729	1	FNDC3	bA203I16.5, KIAA0970
13	FNDC3A	ENSG00000102531	ENST00000497644	nonsense_mediated_decay	KNOWN	None	20296	420	139	49772346	49777341	1	FNDC3	bA203I16.5, KIAA0970
13	FNDC3A	ENSG00000102531	ENST00000541916	protein_coding	KNOWN	CCDS41886	20296	3597	1198	49551020	49782510	1	FNDC3	bA203I16.5, KIAA0970
5	None	ENSG00000248126	ENST00000509920	unprocessed_pseudogene	KNOWN	None	None	None	None	1598242	1598362	1	None	None
2	PPIG	ENSG00000138398	ENST00000260970	protein_coding	KNOWN	CCDS2235	14650	2265	754	170440850	170497916	1	None	CARS-Cyp, SRCyp, SCAF10
2	PPIG	ENSG00000138398	ENST00000433207	protein_coding	PUTATIVE	None	14650	1462	486	170440854	170493251	1	None	CARS-Cyp, SRCyp, SCAF10
2	PPIG	ENSG00000138398	ENST00000409714	protein_coding	NOVEL	None	14650	2220	739	170440863	170494221	1	None	CARS-Cyp, SRCyp, SCAF10
2	PPIG	ENSG00000138398	ENST00000530152	processed_transcript	KNOWN	None	14650	None	None	170440868	170487394	1	None	CARS-Cyp, SRCyp, SCAF10
2	PPIG	ENSG00000138398	ENST00000462903	protein_coding	PUTATIVE	None	14650	1074	357	170440897	170490076	1	None	CARS-Cyp, SRCyp, SCAF10
2	PPIG	ENSG00000138398	ENST00000448752	protein_coding	KNOWN	CCDS2235	14650	2265	754	170440942	170494131	1	None	CARS-Cyp, SRCyp, SCAF10
2	PPIG	ENSG00000138398	ENST00000418888	protein_coding	KNOWN	None	14650	177	58	170441078	170462589	1	None	CARS-Cyp, SRCyp, SCAF10
2	PPIG	ENSG00000138398	ENST00000414307	protein_coding	KNOWN	None	14650	740	245	170441157	170487476	1	None	CARS-Cyp, SRCyp, SCAF10
2	PPIG	ENSG00000138398	ENST00000417938	nonsense_mediated_decay	KNOWN	None	14650	315	104	170460550	170487325	1	None	CARS-Cyp, SRCyp, SCAF10
2	PPIG	ENSG00000138398	ENST00000482772	processed_transcript	KNOWN	None	14650	None	None	170487360	170493324	1	None	CARS-Cyp, SRCyp, SCAF10
2	PPIG	ENSG00000138398	ENST00000466142	retained_intron	KNOWN	None	14650	None	None	170487947	170492751	1	None	CARS-Cyp, SRCyp, SCAF10
3	CLEC3B	ENSG00000163815	ENST00000490386	processed_transcript	PUTATIVE	None	11891	None	None	45043040	45077563	1	TNA	TN
3	CLEC3B	ENSG00000163815	ENST00000296130	protein_coding	KNOWN	CCDS2726	11891	609	202	45067675	45077563	1	TNA	TN
3	CLEC3B	ENSG00000163815	ENST00000428034	protein_coding	NOVEL	None	11891	483	160	45071622	45077560	1	TNA	TN
5	None	ENSG00000188002	ENST00000507290	processed_transcript	KNOWN	None	None	None	None	1599035	1634096	-1	None	None
5	None	ENSG00000188002	ENST00000512335	processed_transcript	KNOWN	None	None	None	None	1599035	1634119	-1	None	None
5	None	ENSG00000188002	ENST00000507841	processed_transcript	KNOWN	None	None	None	None	1599035	1634120	-1	None	None
5	None	ENSG00000188002	ENST00000507505	processed_transcript	KNOWN	None	None	None	None	1599236	1634117	-1	None	None
5	None	ENSG00000188002	ENST00000522848	processed_transcript	KNOWN	None	None	None	None	1602031	1634062	-1	None	None
5	None	ENSG00000188002	ENST00000502273	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	1602806	1634021	-1	None	None
5	None	ENSG00000188002	ENST00000343123	processed_transcript	KNOWN	None	None	None	None	1629116	1634099	-1	None	None
7	DNAJB6	ENSG00000105993	ENST00000441561	protein_coding	KNOWN	None	14888	437	144	157128075	157175030	1	None	MRJ
7	DNAJB6	ENSG00000105993	ENST00000429029	protein_coding	KNOWN	CCDS47755	14888	726	241	157129660	157179018	1	None	MRJ
7	DNAJB6	ENSG00000105993	ENST00000262177	protein_coding	KNOWN	CCDS5946	14888	981	326	157129660	157210133	1	None	MRJ
7	DNAJB6	ENSG00000105993	ENST00000486083	processed_transcript	KNOWN	None	14888	None	None	157129698	157164921	1	None	MRJ
7	DNAJB6	ENSG00000105993	ENST00000417758	protein_coding	KNOWN	None	14888	685	227	157129704	157178299	1	None	MRJ
7	DNAJB6	ENSG00000105993	ENST00000459889	retained_intron	KNOWN	None	14888	None	None	157129717	157210127	1	None	MRJ
7	DNAJB6	ENSG00000105993	ENST00000488001	processed_transcript	KNOWN	None	14888	None	None	157129719	157161489	1	None	MRJ
7	DNAJB6	ENSG00000105993	ENST00000443280	protein_coding	NOVEL	None	14888	636	211	157129719	157209169	1	None	MRJ
7	DNAJB6	ENSG00000105993	ENST00000441291	nonsense_mediated_decay	KNOWN	None	14888	390	129	157129740	157174966	1	None	MRJ
7	DNAJB6	ENSG00000105993	ENST00000437030	protein_coding	KNOWN	None	14888	199	65	157129749	157159219	1	None	MRJ
7	DNAJB6	ENSG00000105993	ENST00000412557	protein_coding	KNOWN	None	14888	376	124	157130219	157174969	1	None	MRJ
7	DNAJB6	ENSG00000105993	ENST00000453383	protein_coding	KNOWN	None	14888	295	97	157130237	157160126	1	None	MRJ
7	DNAJB6	ENSG00000105993	ENST00000439402	protein_coding	KNOWN	None	14888	135	44	157132515	157155924	1	None	MRJ
7	DNAJB6	ENSG00000105993	ENST00000468928	retained_intron	KNOWN	None	14888	None	None	157161302	157177677	1	None	MRJ
7	DNAJB6	ENSG00000105993	ENST00000465908	processed_transcript	KNOWN	None	14888	None	None	157161495	157202695	1	None	MRJ
7	DNAJB6	ENSG00000105993	ENST00000487480	retained_intron	KNOWN	None	14888	None	None	157170819	157179012	1	None	MRJ
7	DNAJB6	ENSG00000105993	ENST00000486247	retained_intron	KNOWN	None	14888	None	None	157174515	157175437	1	None	MRJ
7	DNAJB6	ENSG00000105993	ENST00000494267	processed_transcript	PUTATIVE	None	14888	None	None	157208099	157209331	1	None	MRJ
7	DNAJB6	ENSG00000105993	ENST00000452797	protein_coding	KNOWN	None	14888	834	277	157129710	157209946	1	None	MRJ
1	MYBPH	ENSG00000133055	ENST00000255416	protein_coding	KNOWN	CCDS30975	7552	1434	477	203136939	203144941	-1	None	None
4	RPS21P4	ENSG00000242358	ENST00000487122	processed_pseudogene	KNOWN	None	35922	None	None	16257931	16258178	-1	None	None
12	KRT78	ENSG00000170423	ENST00000359499	protein_coding	PUTATIVE	None	28926	1233	410	53231588	53242067	-1	None	K5B
12	KRT78	ENSG00000170423	ENST00000304620	protein_coding	KNOWN	CCDS8840	28926	1563	520	53232746	53242778	-1	None	K5B
12	KRT78	ENSG00000170423	ENST00000547920	protein_coding	NOVEL	None	28926	311	102	53232750	53233598	-1	None	K5B
12	KRT78	ENSG00000170423	ENST00000547110	protein_coding	PUTATIVE	None	28926	189	62	53238388	53242876	-1	None	K5B
12	KRT78	ENSG00000170423	ENST00000551581	retained_intron	KNOWN	None	28926	None	None	53239780	53241737	-1	None	K5B
HSCHR6_MHC_DBB	TNXB	ENSG00000231608	ENST00000426348	retained_intron	KNOWN	None	11976	None	None	31984751	31989725	-1	TNXB1, TNXB2	TNXBS, XBS, XB
HSCHR6_MHC_DBB	TNXB	ENSG00000231608	ENST00000469250	processed_transcript	KNOWN	None	11976	None	None	31984751	31990204	-1	TNXB1, TNXB2	TNXBS, XBS, XB
HSCHR6_MHC_DBB	TNXB	ENSG00000231608	ENST00000440248	protein_coding	KNOWN	None	11976	12669	4222	31984751	32052928	-1	TNXB1, TNXB2	TNXBS, XBS, XB
HSCHR6_MHC_DBB	TNXB	ENSG00000231608	ENST00000496456	retained_intron	KNOWN	None	11976	None	None	31985862	31987049	-1	TNXB1, TNXB2	TNXBS, XBS, XB
HSCHR6_MHC_DBB	TNXB	ENSG00000231608	ENST00000487885	retained_intron	KNOWN	None	11976	None	None	32039154	32052775	-1	TNXB1, TNXB2	TNXBS, XBS, XB
HSCHR6_MHC_DBB	TNXB	ENSG00000231608	ENST00000427181	protein_coding	KNOWN	None	11976	23	6	32041751	32058888	-1	TNXB1, TNXB2	TNXBS, XBS, XB
HSCHR6_MHC_DBB	TNXB	ENSG00000231608	ENST00000478957	processed_transcript	KNOWN	None	11976	None	None	32041751	32061164	-1	TNXB1, TNXB2	TNXBS, XBS, XB
HSCHR6_MHC_DBB	TNXB	ENSG00000231608	ENST00000550212	protein_coding	KNOWN	None	11976	12729	4242	31984751	32052928	-1	TNXB1, TNXB2	TNXBS, XBS, XB
8	RAD54B	ENSG00000197275	ENST00000336148	protein_coding	KNOWN	CCDS6262	17228	2733	910	95384188	95487337	-1	None	RDH54
8	RAD54B	ENSG00000197275	ENST00000519348	processed_transcript	PUTATIVE	None	17228	None	None	95384189	95385318	-1	None	RDH54
8	RAD54B	ENSG00000197275	ENST00000518358	retained_intron	KNOWN	None	17228	None	None	95392498	95399657	-1	None	RDH54
8	RAD54B	ENSG00000197275	ENST00000463267	nonsense_mediated_decay	KNOWN	None	17228	366	121	95404035	95487310	-1	None	RDH54
8	RAD54B	ENSG00000197275	ENST00000523192	retained_intron	KNOWN	None	17228	None	None	95405651	95411811	-1	None	RDH54
8	RAD54B	ENSG00000197275	ENST00000518998	nonsense_mediated_decay	KNOWN	None	17228	159	52	95419750	95487282	-1	None	RDH54
8	RAD54B	ENSG00000197275	ENST00000523839	protein_coding	KNOWN	None	17228	377	124	95423471	95480242	-1	None	RDH54
8	RAD54B	ENSG00000197275	ENST00000297592	protein_coding	KNOWN	CCDS56546	17228	354	117	95443388	95487290	-1	None	RDH54
19	RPS19	ENSG00000105372	ENST00000598742	protein_coding	KNOWN	CCDS12588	10402	438	145	42363988	42376994	1	None	DBA, S19
19	RPS19	ENSG00000105372	ENST00000598466	retained_intron	KNOWN	None	10402	None	None	42364325	42365675	1	None	DBA, S19
19	RPS19	ENSG00000105372	ENST00000601492	protein_coding	NOVEL	None	10402	307	101	42364325	42373154	1	None	DBA, S19
19	RPS19	ENSG00000105372	ENST00000600467	protein_coding	KNOWN	None	10402	229	75	42364325	42373157	1	None	DBA, S19
19	RPS19	ENSG00000105372	ENST00000221975	protein_coding	PUTATIVE	None	10402	216	71	42364327	42375484	1	None	DBA, S19
19	RPS19	ENSG00000105372	ENST00000593863	protein_coding	KNOWN	CCDS12588	10402	438	145	42364516	42375484	1	None	DBA, S19
19	RPS19	ENSG00000105372	ENST00000598261	protein_coding	PUTATIVE	None	10402	301	99	42364839	42373216	1	None	DBA, S19
19	RPS19	ENSG00000105372	ENST00000598399	nonsense_mediated_decay	KNOWN	None	10402	216	71	42364848	42373262	1	None	DBA, S19
1	CHI3L1	ENSG00000133048	ENST00000473185	retained_intron	KNOWN	None	1932	None	None	203148059	203151262	-1	None	GP39, YKL40
1	CHI3L1	ENSG00000133048	ENST00000255409	protein_coding	KNOWN	CCDS1435	1932	1152	383	203148059	203155877	-1	None	GP39, YKL40
1	CHI3L1	ENSG00000133048	ENST00000404436	protein_coding	KNOWN	None	1932	457	151	203148109	203151933	-1	None	GP39, YKL40
1	CHI3L1	ENSG00000133048	ENST00000478742	retained_intron	KNOWN	None	1932	None	None	203148262	203149261	-1	None	GP39, YKL40
1	CHI3L1	ENSG00000133048	ENST00000472064	retained_intron	KNOWN	None	1932	None	None	203149126	203151969	-1	None	GP39, YKL40
11	RSF1	ENSG00000048649	ENST00000308488	protein_coding	KNOWN	CCDS8253	18118	4326	1441	77371041	77532063	-1	HBXAP	XAP8, RSF-1, p325
11	RSF1	ENSG00000048649	ENST00000480887	protein_coding	KNOWN	None	18118	3570	1189	77377275	77414578	-1	HBXAP	XAP8, RSF-1, p325
11	RSF1	ENSG00000048649	ENST00000529470	retained_intron	KNOWN	None	18118	None	None	77386124	77388106	-1	HBXAP	XAP8, RSF-1, p325
11	RSF1	ENSG00000048649	ENST00000531026	protein_coding	KNOWN	None	18118	830	275	77386140	77409573	-1	HBXAP	XAP8, RSF-1, p325
11	RSF1	ENSG00000048649	ENST00000526324	protein_coding	KNOWN	None	18118	2409	802	77394814	77436725	-1	HBXAP	XAP8, RSF-1, p325
11	RSF1	ENSG00000048649	ENST00000531768	retained_intron	KNOWN	None	18118	None	None	77402011	77411806	-1	HBXAP	XAP8, RSF-1, p325
11	RSF1	ENSG00000048649	ENST00000532556	protein_coding	NOVEL	None	18118	495	164	77404638	77412043	-1	HBXAP	XAP8, RSF-1, p325
11	RSF1	ENSG00000048649	ENST00000528095	protein_coding	KNOWN	None	18118	2107	701	77412164	77531757	-1	HBXAP	XAP8, RSF-1, p325
11	RSF1	ENSG00000048649	ENST00000534794	processed_transcript	KNOWN	None	18118	None	None	77413446	77475735	-1	HBXAP	XAP8, RSF-1, p325
11	RSF1	ENSG00000048649	ENST00000440064	protein_coding	NOVEL	None	18118	604	200	77436618	77531752	-1	HBXAP	XAP8, RSF-1, p325
11	RSF1	ENSG00000048649	ENST00000467567	retained_intron	KNOWN	None	18118	None	None	77473095	77531915	-1	HBXAP	XAP8, RSF-1, p325
11	RSF1	ENSG00000048649	ENST00000530604	processed_transcript	PUTATIVE	None	18118	None	None	77524400	77531745	-1	HBXAP	XAP8, RSF-1, p325
11	RSF1	ENSG00000048649	ENST00000360355	protein_coding	KNOWN	None	18118	4233	1410	77377275	77531880	-1	HBXAP	XAP8, RSF-1, p325
4	PALLD	ENSG00000129116	ENST00000261509	protein_coding	KNOWN	CCDS34098	17068	3321	1106	169418217	169849608	1	None	KIAA0992, SIH002, CGI-151
4	PALLD	ENSG00000129116	ENST00000505667	protein_coding	NOVEL	CCDS54818	17068	3372	1123	169418255	169847423	1	None	KIAA0992, SIH002, CGI-151
4	PALLD	ENSG00000129116	ENST00000511948	protein_coding	KNOWN	None	17068	84	27	169418275	169432739	1	None	KIAA0992, SIH002, CGI-151
4	PALLD	ENSG00000129116	ENST00000508898	protein_coding	KNOWN	None	17068	1539	512	169432719	169622051	1	None	KIAA0992, SIH002, CGI-151
4	PALLD	ENSG00000129116	ENST00000504519	protein_coding	PUTATIVE	None	17068	250	82	169552766	169611814	1	None	KIAA0992, SIH002, CGI-151
4	PALLD	ENSG00000129116	ENST00000512127	protein_coding	PUTATIVE	CCDS54819	17068	2334	777	169552768	169847638	1	None	KIAA0992, SIH002, CGI-151
4	PALLD	ENSG00000129116	ENST00000513245	protein_coding	PUTATIVE	None	17068	215	70	169569928	169611779	1	None	KIAA0992, SIH002, CGI-151
4	PALLD	ENSG00000129116	ENST00000503457	protein_coding	PUTATIVE	None	17068	288	95	169575883	169611852	1	None	KIAA0992, SIH002, CGI-151
4	PALLD	ENSG00000129116	ENST00000510998	protein_coding	PUTATIVE	None	17068	272	89	169633310	169819837	1	None	KIAA0992, SIH002, CGI-151
4	PALLD	ENSG00000129116	ENST00000393726	protein_coding	PUTATIVE	None	17068	493	163	169753156	169835120	1	None	KIAA0992, SIH002, CGI-151
4	PALLD	ENSG00000129116	ENST00000507735	protein_coding	PUTATIVE	CCDS54820	17068	2019	672	169753192	169849596	1	None	KIAA0992, SIH002, CGI-151
4	PALLD	ENSG00000129116	ENST00000511611	retained_intron	KNOWN	None	17068	None	None	169815320	169819667	1	None	KIAA0992, SIH002, CGI-151
4	PALLD	ENSG00000129116	ENST00000507325	retained_intron	KNOWN	None	17068	None	None	169815592	169824986	1	None	KIAA0992, SIH002, CGI-151
4	PALLD	ENSG00000129116	ENST00000513187	retained_intron	KNOWN	None	17068	None	None	169815792	169835226	1	None	KIAA0992, SIH002, CGI-151
4	PALLD	ENSG00000129116	ENST00000507699	retained_intron	KNOWN	None	17068	None	None	169819128	169849568	1	None	KIAA0992, SIH002, CGI-151
4	PALLD	ENSG00000129116	ENST00000511682	retained_intron	KNOWN	None	17068	None	None	169819710	169825412	1	None	KIAA0992, SIH002, CGI-151
4	PALLD	ENSG00000129116	ENST00000503290	protein_coding	KNOWN	None	17068	481	159	169842726	169846544	1	None	KIAA0992, SIH002, CGI-151
4	PALLD	ENSG00000129116	ENST00000333488	protein_coding	KNOWN	None	17068	1233	410	169432719	169622051	1	None	KIAA0992, SIH002, CGI-151
4	PALLD	ENSG00000129116	ENST00000335742	protein_coding	KNOWN	None	17068	3006	1001	169418217	169849608	1	None	KIAA0992, SIH002, CGI-151
16	GSG1L	ENSG00000169181	ENST00000447459	protein_coding	KNOWN	CCDS45450	28283	996	331	27798856	28074830	-1	None	MGC18079, PRO19651, KTSR5831
16	GSG1L	ENSG00000169181	ENST00000395724	protein_coding	KNOWN	None	28283	843	280	27802212	28074822	-1	None	MGC18079, PRO19651, KTSR5831
16	GSG1L	ENSG00000169181	ENST00000380897	protein_coding	KNOWN	CCDS10631	28283	531	176	27802215	27899478	-1	None	MGC18079, PRO19651, KTSR5831
16	GSG1L	ENSG00000169181	ENST00000569166	protein_coding	KNOWN	None	28283	585	194	27802691	27895891	-1	None	MGC18079, PRO19651, KTSR5831
16	GSG1L	ENSG00000169181	ENST00000562611	nonsense_mediated_decay	KNOWN	None	28283	529	175	27835197	28074509	-1	None	MGC18079, PRO19651, KTSR5831
16	GSG1L	ENSG00000169181	ENST00000380898	protein_coding	KNOWN	None	28283	585	194	27798850	28074830	-1	None	MGC18079, PRO19651, KTSR5831
2	CCDC173	ENSG00000154479	ENST00000447353	protein_coding	KNOWN	CCDS46445	25064	1659	552	170501935	170550943	-1	C2orf77	LOC129881
2	CCDC173	ENSG00000154479	ENST00000421028	protein_coding	PUTATIVE	None	25064	476	157	170518836	170550860	-1	C2orf77	LOC129881
2	CCDC173	ENSG00000154479	ENST00000419478	protein_coding	PUTATIVE	None	25064	326	107	170531447	170537834	-1	C2orf77	LOC129881
10	RNU6-811P	ENSG00000206796	ENST00000384069	snRNA	KNOWN	None	47774	None	None	37424165	37424271	1	None	None
14	PPP2R3C	ENSG00000092020	ENST00000553273	nonsense_mediated_decay	KNOWN	None	17485	69	22	35554673	35591467	-1	C14orf10	FLJ20644, G4-1, G5PR
14	PPP2R3C	ENSG00000092020	ENST00000261475	protein_coding	KNOWN	CCDS9654	17485	1362	453	35554673	35591519	-1	C14orf10	FLJ20644, G4-1, G5PR
14	PPP2R3C	ENSG00000092020	ENST00000554222	nonsense_mediated_decay	KNOWN	None	17485	69	22	35554679	35591653	-1	C14orf10	FLJ20644, G4-1, G5PR
14	PPP2R3C	ENSG00000092020	ENST00000555219	protein_coding	NOVEL	None	17485	387	128	35554682	35564391	-1	C14orf10	FLJ20644, G4-1, G5PR
14	PPP2R3C	ENSG00000092020	ENST00000557074	nonsense_mediated_decay	KNOWN	None	17485	125	40	35554698	35560385	-1	C14orf10	FLJ20644, G4-1, G5PR
14	PPP2R3C	ENSG00000092020	ENST00000557217	nonsense_mediated_decay	KNOWN	None	17485	69	22	35554742	35591723	-1	C14orf10	FLJ20644, G4-1, G5PR
14	PPP2R3C	ENSG00000092020	ENST00000554899	nonsense_mediated_decay	KNOWN	None	17485	69	22	35564254	35591180	-1	C14orf10	FLJ20644, G4-1, G5PR
14	PPP2R3C	ENSG00000092020	ENST00000555614	protein_coding	NOVEL	None	17485	676	224	35564338	35579836	-1	C14orf10	FLJ20644, G4-1, G5PR
14	PPP2R3C	ENSG00000092020	ENST00000555726	nonsense_mediated_decay	KNOWN	None	17485	59	18	35565805	35591155	-1	C14orf10	FLJ20644, G4-1, G5PR
14	PPP2R3C	ENSG00000092020	ENST00000554361	protein_coding	NOVEL	None	17485	678	225	35565915	35591171	-1	C14orf10	FLJ20644, G4-1, G5PR
14	PPP2R3C	ENSG00000092020	ENST00000554265	nonsense_mediated_decay	KNOWN	None	17485	69	22	35567869	35591196	-1	C14orf10	FLJ20644, G4-1, G5PR
14	PPP2R3C	ENSG00000092020	ENST00000557773	retained_intron	KNOWN	None	17485	None	None	35567925	35591196	-1	C14orf10	FLJ20644, G4-1, G5PR
14	PPP2R3C	ENSG00000092020	ENST00000555630	nonsense_mediated_decay	KNOWN	None	17485	405	134	35568478	35591220	-1	C14orf10	FLJ20644, G4-1, G5PR
14	PPP2R3C	ENSG00000092020	ENST00000554488	nonsense_mediated_decay	KNOWN	None	17485	69	22	35568514	35591192	-1	C14orf10	FLJ20644, G4-1, G5PR
14	PPP2R3C	ENSG00000092020	ENST00000557288	nonsense_mediated_decay	KNOWN	None	17485	90	29	35576509	35591190	-1	C14orf10	FLJ20644, G4-1, G5PR
14	PPP2R3C	ENSG00000092020	ENST00000554563	nonsense_mediated_decay	KNOWN	None	17485	321	106	35576512	35591176	-1	C14orf10	FLJ20644, G4-1, G5PR
14	PPP2R3C	ENSG00000092020	ENST00000555644	protein_coding	PUTATIVE	None	17485	573	190	35576854	35591519	-1	C14orf10	FLJ20644, G4-1, G5PR
14	PPP2R3C	ENSG00000092020	ENST00000557278	protein_coding	KNOWN	None	17485	502	166	35577345	35591679	-1	C14orf10	FLJ20644, G4-1, G5PR
14	PPP2R3C	ENSG00000092020	ENST00000553282	nonsense_mediated_decay	KNOWN	None	17485	162	53	35579082	35591194	-1	C14orf10	FLJ20644, G4-1, G5PR
14	PPP2R3C	ENSG00000092020	ENST00000556254	retained_intron	KNOWN	None	17485	None	None	35579129	35591185	-1	C14orf10	FLJ20644, G4-1, G5PR
8	TRAPPC9	ENSG00000167632	ENST00000389328	protein_coding	KNOWN	CCDS34946	30832	3741	1246	140742586	141468678	-1	None	IKBKBBP, NIBP, KIAA1882, T1, TRS120, MRT13
8	TRAPPC9	ENSG00000167632	ENST00000520857	protein_coding	NOVEL	None	30832	2977	991	140742588	141461029	-1	None	IKBKBBP, NIBP, KIAA1882, T1, TRS120, MRT13
8	TRAPPC9	ENSG00000167632	ENST00000438773	protein_coding	PUTATIVE	CCDS55278	30832	3447	1148	140742588	141467861	-1	None	IKBKBBP, NIBP, KIAA1882, T1, TRS120, MRT13
8	TRAPPC9	ENSG00000167632	ENST00000521667	processed_transcript	KNOWN	None	30832	None	None	140743135	141301350	-1	None	IKBKBBP, NIBP, KIAA1882, T1, TRS120, MRT13
8	TRAPPC9	ENSG00000167632	ENST00000522504	processed_transcript	PUTATIVE	None	30832	None	None	140743239	140922391	-1	None	IKBKBBP, NIBP, KIAA1882, T1, TRS120, MRT13
8	TRAPPC9	ENSG00000167632	ENST00000521700	processed_transcript	PUTATIVE	None	30832	None	None	140743249	140818476	-1	None	IKBKBBP, NIBP, KIAA1882, T1, TRS120, MRT13
8	TRAPPC9	ENSG00000167632	ENST00000519482	processed_transcript	PUTATIVE	None	30832	None	None	140743287	140921002	-1	None	IKBKBBP, NIBP, KIAA1882, T1, TRS120, MRT13
8	TRAPPC9	ENSG00000167632	ENST00000524162	processed_transcript	KNOWN	None	30832	None	None	140744336	141018688	-1	None	IKBKBBP, NIBP, KIAA1882, T1, TRS120, MRT13
8	TRAPPC9	ENSG00000167632	ENST00000523777	processed_transcript	KNOWN	None	30832	None	None	140744405	141092252	-1	None	IKBKBBP, NIBP, KIAA1882, T1, TRS120, MRT13
8	TRAPPC9	ENSG00000167632	ENST00000518723	retained_intron	KNOWN	None	30832	None	None	140916676	140920939	-1	None	IKBKBBP, NIBP, KIAA1882, T1, TRS120, MRT13
8	TRAPPC9	ENSG00000167632	ENST00000517667	processed_transcript	KNOWN	None	30832	None	None	140998948	141248592	-1	None	IKBKBBP, NIBP, KIAA1882, T1, TRS120, MRT13
8	TRAPPC9	ENSG00000167632	ENST00000520532	processed_transcript	KNOWN	None	30832	None	None	140999031	141272830	-1	None	IKBKBBP, NIBP, KIAA1882, T1, TRS120, MRT13
8	TRAPPC9	ENSG00000167632	ENST00000518839	processed_transcript	KNOWN	None	30832	None	None	141226009	141272829	-1	None	IKBKBBP, NIBP, KIAA1882, T1, TRS120, MRT13
8	TRAPPC9	ENSG00000167632	ENST00000521167	processed_transcript	KNOWN	None	30832	None	None	141294086	141312934	-1	None	IKBKBBP, NIBP, KIAA1882, T1, TRS120, MRT13
8	TRAPPC9	ENSG00000167632	ENST00000521944	retained_intron	KNOWN	None	30832	None	None	141415392	141445296	-1	None	IKBKBBP, NIBP, KIAA1882, T1, TRS120, MRT13
8	TRAPPC9	ENSG00000167632	ENST00000389327	protein_coding	KNOWN	None	30832	3420	1139	140742586	141467861	-1	None	IKBKBBP, NIBP, KIAA1882, T1, TRS120, MRT13
10	None	ENSG00000234918	ENST00000436077	lincRNA	KNOWN	None	None	None	None	37529815	37530977	1	None	None
11	NADSYN1	ENSG00000172890	ENST00000534634	retained_intron	KNOWN	None	29832	None	None	71164155	71170102	1	None	FLJ10631
11	NADSYN1	ENSG00000172890	ENST00000319023	protein_coding	KNOWN	CCDS8201	29832	2121	706	71164155	71212862	1	None	FLJ10631
11	NADSYN1	ENSG00000172890	ENST00000533612	retained_intron	KNOWN	None	29832	None	None	71164255	71166506	1	None	FLJ10631
11	NADSYN1	ENSG00000172890	ENST00000529120	nonsense_mediated_decay	KNOWN	None	29832	267	88	71164257	71184340	1	None	FLJ10631
11	NADSYN1	ENSG00000172890	ENST00000528509	nonsense_mediated_decay	KNOWN	None	29832	885	294	71164263	71188271	1	None	FLJ10631
11	NADSYN1	ENSG00000172890	ENST00000524949	retained_intron	KNOWN	None	29832	None	None	71164277	71175554	1	None	FLJ10631
11	NADSYN1	ENSG00000172890	ENST00000533769	processed_transcript	KNOWN	None	29832	None	None	71164277	71183537	1	None	FLJ10631
11	NADSYN1	ENSG00000172890	ENST00000527538	processed_transcript	KNOWN	None	29832	None	None	71164287	71171121	1	None	FLJ10631
11	NADSYN1	ENSG00000172890	ENST00000525245	processed_transcript	KNOWN	None	29832	None	None	71164402	71171993	1	None	FLJ10631
11	NADSYN1	ENSG00000172890	ENST00000525200	nonsense_mediated_decay	KNOWN	None	29832	779	258	71166171	71212587	1	None	FLJ10631
11	NADSYN1	ENSG00000172890	ENST00000530534	retained_intron	KNOWN	None	29832	None	None	71184709	71190128	1	None	FLJ10631
11	NADSYN1	ENSG00000172890	ENST00000527852	nonsense_mediated_decay	KNOWN	None	29832	250	82	71188393	71194032	1	None	FLJ10631
11	NADSYN1	ENSG00000172890	ENST00000529840	protein_coding	PUTATIVE	None	29832	449	148	71189441	71196694	1	None	FLJ10631
11	NADSYN1	ENSG00000172890	ENST00000530055	protein_coding	PUTATIVE	None	29832	1008	335	71190340	71212585	1	None	FLJ10631
11	NADSYN1	ENSG00000172890	ENST00000526039	processed_transcript	KNOWN	None	29832	None	None	71191195	71201922	1	None	FLJ10631
11	NADSYN1	ENSG00000172890	ENST00000527227	retained_intron	KNOWN	None	29832	None	None	71191198	71192476	1	None	FLJ10631
11	NADSYN1	ENSG00000172890	ENST00000531236	retained_intron	KNOWN	None	29832	None	None	71191857	71209774	1	None	FLJ10631
11	NADSYN1	ENSG00000172890	ENST00000524450	retained_intron	KNOWN	None	29832	None	None	71193769	71195438	1	None	FLJ10631
11	NADSYN1	ENSG00000172890	ENST00000530831	retained_intron	KNOWN	None	29832	None	None	71207481	71211081	1	None	FLJ10631
11	NADSYN1	ENSG00000172890	ENST00000525593	nonsense_mediated_decay	KNOWN	None	29832	335	110	71208551	71216918	1	None	FLJ10631
11	NADSYN1	ENSG00000172890	ENST00000527963	nonsense_mediated_decay	KNOWN	None	29832	178	58	71209448	71235153	1	None	FLJ10631
11	NADSYN1	ENSG00000172890	ENST00000528211	processed_transcript	PUTATIVE	None	29832	None	None	71214591	71215524	1	None	FLJ10631
11	NADSYN1	ENSG00000172890	ENST00000539574	protein_coding	KNOWN	None	29832	1341	446	71187685	71212579	1	None	FLJ10631
4	None	ENSG00000248851	ENST00000514359	processed_pseudogene	KNOWN	None	None	None	None	16309079	16309790	1	None	None
7	MARK2P13	ENSG00000228815	ENST00000419108	processed_pseudogene	KNOWN	None	39804	None	None	36148634	36150482	-1	None	None
2	PHOSPHO2	ENSG00000144362	ENST00000359744	protein_coding	KNOWN	CCDS33319	28316	726	241	170550975	170558218	1	None	MGC22679
2	PHOSPHO2	ENSG00000144362	ENST00000438838	protein_coding	KNOWN	None	28316	167	54	170550981	170557648	1	None	MGC22679
2	PHOSPHO2	ENSG00000144362	ENST00000438710	protein_coding	KNOWN	None	28316	407	134	170550981	170557888	1	None	MGC22679
2	PHOSPHO2	ENSG00000144362	ENST00000449906	protein_coding	KNOWN	None	28316	147	48	170550997	170557628	1	None	MGC22679
2	PHOSPHO2	ENSG00000144362	ENST00000476919	processed_transcript	KNOWN	None	28316	None	None	170551724	170554810	1	None	MGC22679
4	ZEB2P1	ENSG00000249506	ENST00000515048	transcribed_processed_pseudogene	KNOWN	None	33346	None	None	16362309	16363449	-1	ZEB1P1	None
4	ZEB2P1	ENSG00000249506	ENST00000572816	processed_transcript	KNOWN	None	33346	None	None	16362507	16398946	-1	ZEB1P1	None
22	HDAC10	ENSG00000100429	ENST00000415993	nonsense_mediated_decay	KNOWN	None	18128	291	96	50683612	50689690	-1	None	DKFZP761B039
22	HDAC10	ENSG00000100429	ENST00000216271	protein_coding	KNOWN	CCDS14088	18128	2010	669	50683612	50689814	-1	None	DKFZP761B039
22	HDAC10	ENSG00000100429	ENST00000429374	nonsense_mediated_decay	KNOWN	None	18128	291	96	50683834	50689508	-1	None	DKFZP761B039
22	HDAC10	ENSG00000100429	ENST00000454936	nonsense_mediated_decay	KNOWN	None	18128	1191	396	50683871	50689461	-1	None	DKFZP761B039
22	HDAC10	ENSG00000100429	ENST00000448072	protein_coding	NOVEL	None	18128	1860	619	50683871	50689669	-1	None	DKFZP761B039
22	HDAC10	ENSG00000100429	ENST00000483222	processed_transcript	KNOWN	None	18128	None	None	50683871	50689671	-1	None	DKFZP761B039
22	HDAC10	ENSG00000100429	ENST00000498366	processed_transcript	KNOWN	None	18128	None	None	50683871	50689795	-1	None	DKFZP761B039
22	HDAC10	ENSG00000100429	ENST00000477814	retained_intron	KNOWN	None	18128	None	None	50683879	50687637	-1	None	DKFZP761B039
22	HDAC10	ENSG00000100429	ENST00000349505	protein_coding	KNOWN	CCDS54545	18128	1950	649	50683936	50689461	-1	None	DKFZP761B039
22	HDAC10	ENSG00000100429	ENST00000497952	retained_intron	KNOWN	None	18128	None	None	50684220	50686377	-1	None	DKFZP761B039
22	HDAC10	ENSG00000100429	ENST00000496235	retained_intron	KNOWN	None	18128	None	None	50684408	50686801	-1	None	DKFZP761B039
22	HDAC10	ENSG00000100429	ENST00000471375	retained_intron	KNOWN	None	18128	None	None	50684758	50687469	-1	None	DKFZP761B039
22	HDAC10	ENSG00000100429	ENST00000475965	retained_intron	KNOWN	None	18128	None	None	50685567	50686884	-1	None	DKFZP761B039
22	HDAC10	ENSG00000100429	ENST00000476310	retained_intron	KNOWN	None	18128	None	None	50686125	50687504	-1	None	DKFZP761B039
22	HDAC10	ENSG00000100429	ENST00000470378	retained_intron	KNOWN	None	18128	None	None	50686337	50687632	-1	None	DKFZP761B039
22	HDAC10	ENSG00000100429	ENST00000496909	processed_transcript	KNOWN	None	18128	None	None	50687124	50689319	-1	None	DKFZP761B039
22	HDAC10	ENSG00000100429	ENST00000488270	retained_intron	KNOWN	None	18128	None	None	50687716	50688684	-1	None	DKFZP761B039
22	HDAC10	ENSG00000100429	ENST00000489424	processed_transcript	KNOWN	None	18128	None	None	50688288	50689657	-1	None	DKFZP761B039
22	HDAC10	ENSG00000100429	ENST00000470965	processed_transcript	KNOWN	None	18128	None	None	50688297	50689814	-1	None	DKFZP761B039
22	HDAC10	ENSG00000100429	ENST00000497483	processed_transcript	KNOWN	None	18128	None	None	50688548	50689834	-1	None	DKFZP761B039
22	HDAC10	ENSG00000100429	ENST00000482213	retained_intron	KNOWN	None	18128	None	None	50688686	50689401	-1	None	DKFZP761B039
3	RPP14	ENSG00000163684	ENST00000461797	processed_transcript	KNOWN	None	30327	None	None	58291974	58302299	1	None	P14
3	RPP14	ENSG00000163684	ENST00000475412	processed_transcript	KNOWN	None	30327	None	None	58291989	58303502	1	None	P14
3	RPP14	ENSG00000163684	ENST00000445193	protein_coding	KNOWN	CCDS2888	30327	375	124	58291989	58305816	1	None	P14
3	RPP14	ENSG00000163684	ENST00000474660	processed_transcript	KNOWN	None	30327	None	None	58291999	58303569	1	None	P14
3	RPP14	ENSG00000163684	ENST00000477305	processed_transcript	KNOWN	None	30327	None	None	58291999	58304211	1	None	P14
3	RPP14	ENSG00000163684	ENST00000295959	protein_coding	KNOWN	CCDS2888	30327	375	124	58292002	58305805	1	None	P14
3	RPP14	ENSG00000163684	ENST00000466547	protein_coding	KNOWN	CCDS2888	30327	375	124	58292037	58303505	1	None	P14
3	RPP14	ENSG00000163684	ENST00000481972	processed_transcript	KNOWN	None	30327	None	None	58292041	58304199	1	None	P14
3	RPP14	ENSG00000163684	ENST00000498618	processed_transcript	KNOWN	None	30327	None	None	58292092	58302307	1	None	P14
3	RPP14	ENSG00000163684	ENST00000461393	processed_transcript	KNOWN	None	30327	None	None	58292247	58304301	1	None	P14
3	RPP14	ENSG00000163684	ENST00000476007	processed_transcript	KNOWN	None	30327	None	None	58293490	58303555	1	None	P14
3	RPP14	ENSG00000163684	ENST00000463550	retained_intron	KNOWN	None	30327	None	None	58295781	58303230	1	None	P14
3	RPP14	ENSG00000163684	ENST00000462046	processed_transcript	PUTATIVE	None	30327	None	None	58304250	58305236	1	None	P14
4	None	ENSG00000248138	ENST00000512370	antisense	KNOWN	None	None	None	None	16402053	16513810	1	None	None
4	None	ENSG00000248138	ENST00000511818	antisense	KNOWN	None	None	None	None	16403821	16435865	1	None	None
10	DUSP13	ENSG00000079393	ENST00000472493	protein_coding	KNOWN	CCDS7346	19681	597	198	76854192	76859264	-1	None	BEDP, TMDP, FLJ32450, DUSP13A, DUSP13B
10	DUSP13	ENSG00000079393	ENST00000372702	protein_coding	KNOWN	CCDS53542	19681	567	188	76854192	76868979	-1	None	BEDP, TMDP, FLJ32450, DUSP13A, DUSP13B
10	DUSP13	ENSG00000079393	ENST00000464872	protein_coding	NOVEL	None	19681	444	147	76854194	76857642	-1	None	BEDP, TMDP, FLJ32450, DUSP13A, DUSP13B
10	DUSP13	ENSG00000079393	ENST00000605915	protein_coding	PUTATIVE	None	19681	663	220	76854194	76859273	-1	None	BEDP, TMDP, FLJ32450, DUSP13A, DUSP13B
10	DUSP13	ENSG00000079393	ENST00000478873	protein_coding	PUTATIVE	None	19681	1005	334	76854194	76859285	-1	None	BEDP, TMDP, FLJ32450, DUSP13A, DUSP13B
10	DUSP13	ENSG00000079393	ENST00000308475	nonsense_mediated_decay	KNOWN	None	19681	183	60	76854194	76868943	-1	None	BEDP, TMDP, FLJ32450, DUSP13A, DUSP13B
10	DUSP13	ENSG00000079393	ENST00000479884	nonsense_mediated_decay	KNOWN	None	19681	501	166	76854197	76868970	-1	None	BEDP, TMDP, FLJ32450, DUSP13A, DUSP13B
10	DUSP13	ENSG00000079393	ENST00000394707	nonsense_mediated_decay	KNOWN	None	19681	204	67	76854384	76868948	-1	None	BEDP, TMDP, FLJ32450, DUSP13A, DUSP13B
10	DUSP13	ENSG00000079393	ENST00000494588	nonsense_mediated_decay	KNOWN	None	19681	279	92	76854422	76868976	-1	None	BEDP, TMDP, FLJ32450, DUSP13A, DUSP13B
10	DUSP13	ENSG00000079393	ENST00000372700	protein_coding	NOVEL	CCDS31224	19681	747	248	76854434	76868949	-1	None	BEDP, TMDP, FLJ32450, DUSP13A, DUSP13B
10	DUSP13	ENSG00000079393	ENST00000607487	protein_coding	NOVEL	None	19681	780	259	76855481	76868891	-1	None	BEDP, TMDP, FLJ32450, DUSP13A, DUSP13B
10	DUSP13	ENSG00000079393	ENST00000607009	processed_transcript	KNOWN	None	19681	None	None	76857501	76868949	-1	None	BEDP, TMDP, FLJ32450, DUSP13A, DUSP13B
10	DUSP13	ENSG00000079393	ENST00000473072	protein_coding	NOVEL	None	19681	579	192	76861702	76868964	-1	None	BEDP, TMDP, FLJ32450, DUSP13A, DUSP13B
10	DUSP13	ENSG00000079393	ENST00000491677	protein_coding	KNOWN	None	19681	984	327	76854193	76868970	-1	None	BEDP, TMDP, FLJ32450, DUSP13A, DUSP13B
10	DUSP13	ENSG00000079393	ENST00000607131	protein_coding	KNOWN	None	19681	876	291	76854193	76868970	-1	None	BEDP, TMDP, FLJ32450, DUSP13A, DUSP13B
10	ATP8A2P1	ENSG00000240800	ENST00000420453	transcribed_unprocessed_pseudogene	KNOWN	None	39662	None	None	37537046	37604729	1	None	None
4	None	ENSG00000249998	ENST00000511735	lincRNA	KNOWN	None	None	None	None	16974898	17075526	-1	None	None
7	None	ENSG00000271117	ENST00000605782	processed_pseudogene	KNOWN	None	None	None	None	36186451	36187633	1	None	None
4	MTND5P4	ENSG00000251212	ENST00000514978	processed_pseudogene	KNOWN	None	42306	None	None	17063501	17063788	1	None	None
5	DBN1	ENSG00000113758	ENST00000309007	protein_coding	KNOWN	CCDS4420	2695	1950	649	176883609	176900742	-1	D0S117E	None
5	DBN1	ENSG00000113758	ENST00000292385	protein_coding	KNOWN	CCDS4421	2695	1956	651	176883928	176900199	-1	D0S117E	None
5	DBN1	ENSG00000113758	ENST00000472831	retained_intron	KNOWN	None	2695	None	None	176883935	176900625	-1	D0S117E	None
5	DBN1	ENSG00000113758	ENST00000393565	protein_coding	NOVEL	None	2695	2088	695	176883937	176900638	-1	D0S117E	None
5	DBN1	ENSG00000113758	ENST00000512501	protein_coding	PUTATIVE	None	2695	1176	391	176884368	176889414	-1	D0S117E	None
5	DBN1	ENSG00000113758	ENST00000467054	retained_intron	KNOWN	None	2695	None	None	176885298	176887643	-1	D0S117E	None
5	DBN1	ENSG00000113758	ENST00000477391	protein_coding	KNOWN	None	2695	952	316	176887433	176900614	-1	D0S117E	None
5	DBN1	ENSG00000113758	ENST00000471767	retained_intron	KNOWN	None	2695	None	None	176893832	176894599	-1	D0S117E	None
5	DBN1	ENSG00000113758	ENST00000506117	protein_coding	PUTATIVE	None	2695	279	92	176894491	176899871	-1	D0S117E	None
5	DBN1	ENSG00000113758	ENST00000514833	protein_coding	KNOWN	None	2695	372	123	176894587	176901402	-1	D0S117E	None
5	DBN1	ENSG00000113758	ENST00000505550	retained_intron	KNOWN	None	2695	None	None	176895554	176900623	-1	D0S117E	None
5	DBN1	ENSG00000113758	ENST00000393563	protein_coding	KNOWN	None	2695	1146	381	176884368	176889390	-1	D0S117E	None
16	BCKDK	ENSG00000103507	ENST00000394951	protein_coding	KNOWN	CCDS10705	16902	1239	412	31117428	31123888	1	None	None
16	BCKDK	ENSG00000103507	ENST00000567530	nonsense_mediated_decay	KNOWN	None	16902	654	217	31119615	31123854	1	None	None
16	BCKDK	ENSG00000103507	ENST00000394950	protein_coding	KNOWN	CCDS45467	16902	1098	365	31119615	31123888	1	None	None
16	BCKDK	ENSG00000103507	ENST00000287507	protein_coding	NOVEL	None	16902	1008	335	31119615	31123888	1	None	None
16	BCKDK	ENSG00000103507	ENST00000219794	protein_coding	KNOWN	CCDS10705	16902	1239	412	31119615	31124110	1	None	None
16	BCKDK	ENSG00000103507	ENST00000566568	retained_intron	KNOWN	None	16902	None	None	31119770	31123887	1	None	None
16	BCKDK	ENSG00000103507	ENST00000561755	protein_coding	KNOWN	None	16902	180	59	31119805	31120724	1	None	None
16	BCKDK	ENSG00000103507	ENST00000567676	protein_coding	KNOWN	None	16902	264	87	31120255	31120900	1	None	None
16	BCKDK	ENSG00000103507	ENST00000484226	protein_coding	NOVEL	None	16902	650	215	31120441	31122043	1	None	None
16	BCKDK	ENSG00000103507	ENST00000567682	protein_coding	PUTATIVE	None	16902	439	145	31122689	31123775	1	None	None
9	GNE	ENSG00000159921	ENST00000396594	protein_coding	KNOWN	CCDS47965	23657	2262	753	36214438	36277053	-1	IBM2	Uae1
9	GNE	ENSG00000159921	ENST00000543356	protein_coding	PUTATIVE	CCDS55310	23657	2154	717	36216940	36277039	-1	IBM2	Uae1
9	GNE	ENSG00000159921	ENST00000539208	protein_coding	PUTATIVE	CCDS55308	23657	1839	612	36217149	36258442	-1	IBM2	Uae1
9	GNE	ENSG00000159921	ENST00000447283	protein_coding	NOVEL	CCDS55309	23657	1947	648	36217186	36258326	-1	IBM2	Uae1
9	GNE	ENSG00000159921	ENST00000377902	protein_coding	KNOWN	CCDS6602	23657	2169	722	36217187	36258496	-1	IBM2	Uae1
9	GNE	ENSG00000159921	ENST00000539815	protein_coding	KNOWN	CCDS6602	23657	2169	722	36214441	36249393	-1	IBM2	Uae1
7	None	ENSG00000228770	ENST00000447461	processed_pseudogene	KNOWN	None	None	None	None	36268230	36268493	-1	None	None
2	KLHL23	ENSG00000213160	ENST00000498202	protein_coding	PUTATIVE	None	27506	148	48	170550998	170606192	1	None	MGC2610, FLJ37812, MGC22679
2	KLHL23	ENSG00000213160	ENST00000272797	protein_coding	KNOWN	CCDS2236	27506	1677	558	170551001	170606314	1	None	MGC2610, FLJ37812, MGC22679
2	KLHL23	ENSG00000213160	ENST00000602521	protein_coding	PUTATIVE	None	27506	198	65	170553903	170606269	1	None	MGC2610, FLJ37812, MGC22679
2	KLHL23	ENSG00000213160	ENST00000392647	protein_coding	KNOWN	CCDS2236	27506	1677	558	170590356	170608398	1	None	MGC2610, FLJ37812, MGC22679
2	KLHL23	ENSG00000213160	ENST00000437875	protein_coding	PUTATIVE	None	27506	867	288	170592062	170629895	1	None	MGC2610, FLJ37812, MGC22679
2	KLHL23	ENSG00000213160	ENST00000494387	retained_intron	KNOWN	None	27506	None	None	170597507	170606010	1	None	MGC2610, FLJ37812, MGC22679
2	KLHL23	ENSG00000213160	ENST00000448589	protein_coding	PUTATIVE	None	27506	77	24	170598003	170633499	1	None	MGC2610, FLJ37812, MGC22679
11	C11orf63	ENSG00000109944	ENST00000307257	protein_coding	KNOWN	CCDS8439	26288	924	307	122753391	122776600	1	None	FLJ23554
11	C11orf63	ENSG00000109944	ENST00000531316	protein_coding	KNOWN	CCDS8438	26288	2337	778	122756466	122830506	1	None	FLJ23554
11	C11orf63	ENSG00000109944	ENST00000534362	retained_intron	KNOWN	None	26288	None	None	122805748	122818232	1	None	FLJ23554
11	C11orf63	ENSG00000109944	ENST00000227349	protein_coding	KNOWN	CCDS8438	26288	2337	778	122753473	122830429	1	None	FLJ23554
16	NQO1	ENSG00000181019	ENST00000561500	protein_coding	PUTATIVE	None	2874	810	269	69740899	69760409	-1	NMOR1, DIA4	DHQU, QR1, DTD
16	NQO1	ENSG00000181019	ENST00000379047	protein_coding	NOVEL	CCDS32472	2874	723	240	69743304	69760571	-1	NMOR1, DIA4	DHQU, QR1, DTD
16	NQO1	ENSG00000181019	ENST00000320623	protein_coding	KNOWN	CCDS10883	2874	825	274	69743304	69760854	-1	NMOR1, DIA4	DHQU, QR1, DTD
16	NQO1	ENSG00000181019	ENST00000379046	protein_coding	NOVEL	CCDS32471	2874	711	236	69744630	69760487	-1	NMOR1, DIA4	DHQU, QR1, DTD
16	NQO1	ENSG00000181019	ENST00000439109	protein_coding	NOVEL	None	2874	609	202	69744685	69760463	-1	NMOR1, DIA4	DHQU, QR1, DTD
16	NQO1	ENSG00000181019	ENST00000564043	protein_coding	NOVEL	None	2874	762	253	69744865	69760463	-1	NMOR1, DIA4	DHQU, QR1, DTD
16	NQO1	ENSG00000181019	ENST00000569118	retained_intron	KNOWN	None	2874	None	None	69751896	69760428	-1	NMOR1, DIA4	DHQU, QR1, DTD
19	ANGPTL6	ENSG00000130812	ENST00000589181	protein_coding	NOVEL	None	23140	1293	430	10203014	10207274	-1	None	ARP5, AGF
19	ANGPTL6	ENSG00000130812	ENST00000592641	protein_coding	KNOWN	CCDS12224	23140	1413	470	10203015	10213335	-1	None	ARP5, AGF
19	ANGPTL6	ENSG00000130812	ENST00000253109	protein_coding	KNOWN	CCDS12224	23140	1413	470	10203017	10213472	-1	None	ARP5, AGF
19	ANGPTL6	ENSG00000130812	ENST00000586910	retained_intron	KNOWN	None	23140	None	None	10205197	10206807	-1	None	ARP5, AGF
19	HAPLN4	ENSG00000187664	ENST00000291481	protein_coding	KNOWN	CCDS12398	31357	1209	402	19366450	19373605	-1	None	BRAL2, KIAA1926
19	HAPLN4	ENSG00000187664	ENST00000592862	retained_intron	KNOWN	None	31357	None	None	19369655	19372492	-1	None	BRAL2, KIAA1926
7	None	ENSG00000229679	ENST00000440788	antisense	KNOWN	None	None	None	None	36268889	36270716	-1	None	None
4	None	ENSG00000250819	ENST00000509964	lincRNA	KNOWN	None	None	None	None	17173380	17187682	-1	None	None
X	RPL36A-HNRNPH2	ENSG00000257529	ENST00000409338	protein_coding	NOVEL	None	48349	267	88	100645999	100667285	1	None	None
X	RPL36A-HNRNPH2	ENSG00000257529	ENST00000409170	protein_coding	NOVEL	None	48349	389	128	100646000	100667153	1	None	None
4	None	ENSG00000206780	ENST00000384053	snoRNA	NOVEL	None	None	None	None	17322369	17322505	-1	None	None
4	RPS7P6	ENSG00000215278	ENST00000485777	processed_pseudogene	KNOWN	None	36334	None	None	17429319	17429897	-1	None	None
1	CHIT1	ENSG00000133063	ENST00000484834	processed_transcript	KNOWN	None	1936	None	None	203181955	203241937	-1	None	CHIT, CHI3
1	CHIT1	ENSG00000133063	ENST00000479483	processed_transcript	KNOWN	None	1936	None	None	203181963	203187149	-1	None	CHIT, CHI3
1	CHIT1	ENSG00000133063	ENST00000367229	protein_coding	KNOWN	CCDS1436	1936	1401	466	203185207	203198799	-1	None	CHIT, CHI3
1	CHIT1	ENSG00000133063	ENST00000491855	nonsense_mediated_decay	KNOWN	None	1936	1164	387	203185798	203198773	-1	None	CHIT, CHI3
1	CHIT1	ENSG00000133063	ENST00000255427	protein_coding	NOVEL	CCDS58057	1936	1344	447	203185798	203198799	-1	None	CHIT, CHI3
1	CHIT1	ENSG00000133063	ENST00000503786	nonsense_mediated_decay	KNOWN	None	1936	1086	361	203186076	203198799	-1	None	CHIT, CHI3
1	CHIT1	ENSG00000133063	ENST00000506427	processed_transcript	PUTATIVE	None	1936	None	None	203188702	203191438	-1	None	CHIT, CHI3
1	CHIT1	ENSG00000133063	ENST00000513472	processed_transcript	KNOWN	None	1936	None	None	203192716	203229990	-1	None	CHIT, CHI3
1	CHIT1	ENSG00000133063	ENST00000460619	processed_transcript	KNOWN	None	1936	None	None	203209458	203242769	-1	None	CHIT, CHI3
1	CHIT1	ENSG00000133063	ENST00000535569	protein_coding	KNOWN	None	1936	1374	457	203185798	203198799	-1	None	CHIT, CHI3
16	PDILT	ENSG00000169340	ENST00000302451	protein_coding	KNOWN	CCDS10584	27338	1755	584	20370492	20416059	-1	None	PDIA7
16	PDILT	ENSG00000169340	ENST00000575561	protein_coding	NOVEL	None	27338	532	176	20395967	20415878	-1	None	PDIA7
7	None	ENSG00000234457	ENST00000419980	processed_pseudogene	KNOWN	None	None	None	None	36345240	36345513	1	None	None
HSCHR6_MHC_MCF	CLIC1	ENSG00000226417	ENST00000418285	protein_coding	KNOWN	None	2062	726	241	31774644	31780634	-1	None	NCC27, p64CLCP
HSCHR6_MHC_MCF	CLIC1	ENSG00000226417	ENST00000423055	protein_coding	KNOWN	None	2062	726	241	31774644	31780639	-1	None	NCC27, p64CLCP
HSCHR6_MHC_MCF	CLIC1	ENSG00000226417	ENST00000442045	protein_coding	KNOWN	None	2062	726	241	31774644	31781385	-1	None	NCC27, p64CLCP
HSCHR6_MHC_MCF	CLIC1	ENSG00000226417	ENST00000435242	protein_coding	KNOWN	None	2062	726	241	31774644	31783827	-1	None	NCC27, p64CLCP
17	USP36	ENSG00000055483	ENST00000587010	nonsense_mediated_decay	KNOWN	None	20062	215	70	76783463	76795072	-1	None	KIAA1453, FLJ12851
17	USP36	ENSG00000055483	ENST00000588130	protein_coding	PUTATIVE	None	20062	304	100	76783463	76795804	-1	None	KIAA1453, FLJ12851
17	USP36	ENSG00000055483	ENST00000591052	nonsense_mediated_decay	KNOWN	None	20062	36	11	76783548	76794537	-1	None	KIAA1453, FLJ12851
17	USP36	ENSG00000055483	ENST00000589225	nonsense_mediated_decay	KNOWN	CCDS32755	20062	3372	1123	76783549	76836862	-1	None	KIAA1453, FLJ12851
17	USP36	ENSG00000055483	ENST00000587379	nonsense_mediated_decay	KNOWN	None	20062	73	23	76787945	76794574	-1	None	KIAA1453, FLJ12851
17	USP36	ENSG00000055483	ENST00000592326	processed_transcript	PUTATIVE	None	20062	None	None	76791734	76793143	-1	None	KIAA1453, FLJ12851
17	USP36	ENSG00000055483	ENST00000592231	protein_coding	PUTATIVE	None	20062	209	68	76791735	76795066	-1	None	KIAA1453, FLJ12851
17	USP36	ENSG00000055483	ENST00000542802	protein_coding	KNOWN	CCDS32755	20062	3372	1123	76793151	76836752	-1	None	KIAA1453, FLJ12851
17	USP36	ENSG00000055483	ENST00000588086	non_stop_decay	KNOWN	None	20062	2885	960	76798543	76836946	-1	None	KIAA1453, FLJ12851
17	USP36	ENSG00000055483	ENST00000588467	processed_transcript	PUTATIVE	None	20062	None	None	76803695	76815179	-1	None	KIAA1453, FLJ12851
17	USP36	ENSG00000055483	ENST00000586066	protein_coding	PUTATIVE	None	20062	777	258	76808942	76825046	-1	None	KIAA1453, FLJ12851
17	USP36	ENSG00000055483	ENST00000590312	retained_intron	KNOWN	None	20062	None	None	76809054	76815025	-1	None	KIAA1453, FLJ12851
17	USP36	ENSG00000055483	ENST00000589254	retained_intron	KNOWN	None	20062	None	None	76814749	76817442	-1	None	KIAA1453, FLJ12851
17	USP36	ENSG00000055483	ENST00000589424	protein_coding	PUTATIVE	None	20062	705	234	76819204	76836863	-1	None	KIAA1453, FLJ12851
17	USP36	ENSG00000055483	ENST00000590546	protein_coding	PUTATIVE	None	20062	858	285	76822555	76836954	-1	None	KIAA1453, FLJ12851
17	USP36	ENSG00000055483	ENST00000586531	protein_coding	KNOWN	None	20062	537	178	76825028	76836795	-1	None	KIAA1453, FLJ12851
17	USP36	ENSG00000055483	ENST00000591942	nonsense_mediated_decay	KNOWN	None	20062	186	61	76825074	76836868	-1	None	KIAA1453, FLJ12851
17	USP36	ENSG00000055483	ENST00000586896	protein_coding	KNOWN	None	20062	479	158	76825086	76834876	-1	None	KIAA1453, FLJ12851
17	USP36	ENSG00000055483	ENST00000592907	retained_intron	KNOWN	None	20062	None	None	76832107	76836848	-1	None	KIAA1453, FLJ12851
17	USP36	ENSG00000055483	ENST00000592275	protein_coding	KNOWN	None	20062	240	79	76832206	76837523	-1	None	KIAA1453, FLJ12851
17	USP36	ENSG00000055483	ENST00000587783	protein_coding	KNOWN	None	20062	200	65	76832246	76836729	-1	None	KIAA1453, FLJ12851
17	USP36	ENSG00000055483	ENST00000588365	protein_coding	KNOWN	None	20062	158	51	76832288	76837307	-1	None	KIAA1453, FLJ12851
17	USP36	ENSG00000055483	ENST00000312010	protein_coding	KNOWN	CCDS32755	20062	3372	1123	76792965	76836969	-1	None	KIAA1453, FLJ12851
17	USP36	ENSG00000055483	ENST00000449938	protein_coding	KNOWN	None	20062	2187	728	76792969	76819331	-1	None	KIAA1453, FLJ12851
10	RN7SL314P	ENSG00000244402	ENST00000490735	misc_RNA	KNOWN	None	46330	None	None	37586326	37586615	1	None	None
2	SSB	ENSG00000138385	ENST00000422006	protein_coding	KNOWN	None	11316	554	183	170648443	170663581	1	None	LARP3, La
2	SSB	ENSG00000138385	ENST00000260956	protein_coding	KNOWN	CCDS2237	11316	1227	408	170655322	170668574	1	None	LARP3, La
2	SSB	ENSG00000138385	ENST00000413002	nonsense_mediated_decay	KNOWN	None	11316	405	134	170655389	170663400	1	None	LARP3, La
2	SSB	ENSG00000138385	ENST00000417292	protein_coding	PUTATIVE	None	11316	360	119	170655389	170663540	1	None	LARP3, La
2	SSB	ENSG00000138385	ENST00000461708	retained_intron	KNOWN	None	11316	None	None	170655390	170662517	1	None	LARP3, La
2	SSB	ENSG00000138385	ENST00000409333	protein_coding	KNOWN	CCDS2237	11316	1227	408	170655789	170668574	1	None	LARP3, La
2	SSB	ENSG00000138385	ENST00000468600	retained_intron	KNOWN	None	11316	None	None	170662254	170663488	1	None	LARP3, La
2	SSB	ENSG00000138385	ENST00000474273	retained_intron	KNOWN	None	11316	None	None	170663091	170666921	1	None	LARP3, La
2	SSB	ENSG00000138385	ENST00000465871	retained_intron	KNOWN	None	11316	None	None	170663346	170665176	1	None	LARP3, La
2	SSB	ENSG00000138385	ENST00000470621	retained_intron	KNOWN	None	11316	None	None	170664987	170667112	1	None	LARP3, La
2	SSB	ENSG00000138385	ENST00000490914	retained_intron	KNOWN	None	11316	None	None	170664987	170667554	1	None	LARP3, La
2	SSB	ENSG00000138385	ENST00000494051	retained_intron	KNOWN	None	11316	None	None	170666573	170667398	1	None	LARP3, La
12	PDE1B	ENSG00000123360	ENST00000243052	protein_coding	KNOWN	CCDS8882	8775	1611	536	54943134	54973023	1	PDES1B	None
12	PDE1B	ENSG00000123360	ENST00000548855	retained_intron	KNOWN	None	8775	None	None	54943408	54968758	1	PDES1B	None
12	PDE1B	ENSG00000123360	ENST00000550285	nonsense_mediated_decay	KNOWN	None	8775	576	191	54943452	54972044	1	PDES1B	None
12	PDE1B	ENSG00000123360	ENST00000538346	protein_coding	PUTATIVE	None	8775	1488	495	54943864	54971713	1	PDES1B	None
12	PDE1B	ENSG00000123360	ENST00000394277	processed_transcript	KNOWN	None	8775	None	None	54955228	54973023	1	PDES1B	None
12	PDE1B	ENSG00000123360	ENST00000550620	protein_coding	KNOWN	CCDS53800	8775	1551	516	54955241	54972097	1	PDES1B	None
12	PDE1B	ENSG00000123360	ENST00000542335	processed_transcript	KNOWN	None	8775	None	None	54955285	54973023	1	PDES1B	None
12	PDE1B	ENSG00000123360	ENST00000552774	retained_intron	KNOWN	None	8775	None	None	54968541	54971020	1	PDES1B	None
10	None	ENSG00000252621	ENST00000516812	misc_RNA	NOVEL	None	None	None	None	37591928	37592037	-1	None	None
14	CCNK	ENSG00000090061	ENST00000557165	processed_transcript	KNOWN	None	1596	None	None	99947506	99968713	1	None	CPR4
14	CCNK	ENSG00000090061	ENST00000389879	protein_coding	KNOWN	CCDS45160	1596	1743	580	99947746	99978777	1	None	CPR4
14	CCNK	ENSG00000090061	ENST00000553636	retained_intron	KNOWN	None	1596	None	None	99947749	99959440	1	None	CPR4
14	CCNK	ENSG00000090061	ENST00000557441	protein_coding	KNOWN	None	1596	681	226	99947749	99968649	1	None	CPR4
14	CCNK	ENSG00000090061	ENST00000555049	protein_coding	PUTATIVE	None	1596	1137	378	99947761	100001381	1	None	CPR4
14	CCNK	ENSG00000090061	ENST00000555842	protein_coding	KNOWN	None	1596	329	108	99947762	99961884	1	None	CPR4
14	CCNK	ENSG00000090061	ENST00000556641	retained_intron	KNOWN	None	1596	None	None	99947787	99967356	1	None	CPR4
14	CCNK	ENSG00000090061	ENST00000555942	processed_transcript	PUTATIVE	None	1596	None	None	99959851	99961965	1	None	CPR4
14	CCNK	ENSG00000090061	ENST00000553865	retained_intron	KNOWN	None	1596	None	None	99960307	99977851	1	None	CPR4
11	HPX	ENSG00000110169	ENST00000265983	protein_coding	KNOWN	CCDS7763	5171	1389	462	6452279	6462294	-1	None	None
11	HPX	ENSG00000110169	ENST00000527556	retained_intron	KNOWN	None	5171	None	None	6452532	6458938	-1	None	None
11	HPX	ENSG00000110169	ENST00000529037	processed_transcript	PUTATIVE	None	5171	None	None	6452625	6453549	-1	None	None
11	HPX	ENSG00000110169	ENST00000533561	processed_transcript	KNOWN	None	5171	None	None	6453136	6462296	-1	None	None
11	HPX	ENSG00000110169	ENST00000534429	processed_transcript	PUTATIVE	None	5171	None	None	6453180	6458897	-1	None	None
11	HPX	ENSG00000110169	ENST00000529775	retained_intron	KNOWN	None	5171	None	None	6458275	6459339	-1	None	None
11	HPX	ENSG00000110169	ENST00000525057	processed_transcript	KNOWN	None	5171	None	None	6458855	6463847	-1	None	None
11	HPX	ENSG00000110169	ENST00000533369	retained_intron	KNOWN	None	5171	None	None	6459564	6462217	-1	None	None
11	HPX	ENSG00000110169	ENST00000533856	retained_intron	KNOWN	None	5171	None	None	6459709	6462202	-1	None	None
11	HPX	ENSG00000110169	ENST00000528348	retained_intron	KNOWN	None	5171	None	None	6460839	6462220	-1	None	None
11	HPX	ENSG00000110169	ENST00000534800	processed_transcript	KNOWN	None	5171	None	None	6461395	6462205	-1	None	None
11	HPX	ENSG00000110169	ENST00000527105	processed_transcript	PUTATIVE	None	5171	None	None	6461716	6461969	-1	None	None
HSCHR6_MHC_MCF	BRD2	ENSG00000236227	ENST00000416727	protein_coding	KNOWN	None	1103	1841	612	32969905	32979635	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_MCF	BRD2	ENSG00000236227	ENST00000487815	processed_transcript	KNOWN	None	1103	None	None	32970503	32973386	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_MCF	BRD2	ENSG00000236227	ENST00000454038	protein_coding	KNOWN	None	1103	887	294	32970564	32977865	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_MCF	BRD2	ENSG00000236227	ENST00000424160	protein_coding	KNOWN	None	1103	1841	612	32972133	32979635	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_MCF	BRD2	ENSG00000236227	ENST00000488549	processed_transcript	KNOWN	None	1103	None	None	32972175	32979444	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_MCF	BRD2	ENSG00000236227	ENST00000477920	nonsense_mediated_decay	KNOWN	None	1103	444	147	32972198	32979635	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_MCF	BRD2	ENSG00000236227	ENST00000425201	protein_coding	KNOWN	None	1103	1946	647	32973975	32980443	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_MCF	BRD2	ENSG00000236227	ENST00000457933	protein_coding	KNOWN	None	1103	1858	618	32974329	32979635	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_MCF	BRD2	ENSG00000236227	ENST00000480141	retained_intron	KNOWN	None	1103	None	None	32977389	32979461	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_MCF	BRD2	ENSG00000236227	ENST00000494846	processed_transcript	KNOWN	None	1103	None	None	32977816	32979148	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_MCF	BRD2	ENSG00000236227	ENST00000491751	retained_intron	KNOWN	None	1103	None	None	32978797	32980048	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_MCF	BRD2	ENSG00000236227	ENST00000497799	retained_intron	KNOWN	None	1103	None	None	32980791	32980956	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
HSCHR6_MHC_MCF	BRD2	ENSG00000236227	ENST00000489969	processed_transcript	PUTATIVE	None	1103	None	None	32980933	32980956	1	None	KIAA9001, RING3, D6S113E, NAT, FSRG1
1	BTG2	ENSG00000159388	ENST00000475157	nonsense_mediated_decay	KNOWN	CCDS1437	1131	477	158	203274619	203278697	1	None	PC3, TIS21, MGC126063, MGC126064
1	BTG2	ENSG00000159388	ENST00000290551	protein_coding	KNOWN	CCDS1437	1131	477	158	203274664	203278730	1	None	PC3, TIS21, MGC126063, MGC126064
HSCHR6_MHC_DBB	ATP6V1G2	ENSG00000234668	ENST00000454370	protein_coding	KNOWN	None	862	357	118	31494420	31496561	-1	ATP6G, ATP6G2	Vma10, NG38, Em:AC004181.3
HSCHR6_MHC_DBB	ATP6V1G2	ENSG00000234668	ENST00000421596	protein_coding	KNOWN	None	862	237	78	31494420	31496591	-1	ATP6G, ATP6G2	Vma10, NG38, Em:AC004181.3
HSCHR6_MHC_DBB	ATP6V1G2	ENSG00000234668	ENST00000468203	processed_transcript	KNOWN	None	862	None	None	31495242	31496709	-1	ATP6G, ATP6G2	Vma10, NG38, Em:AC004181.3
HSCHR6_MHC_DBB	ATP6V1G2	ENSG00000234668	ENST00000491022	processed_transcript	KNOWN	None	862	None	None	31495375	31496802	-1	ATP6G, ATP6G2	Vma10, NG38, Em:AC004181.3
18	TMEM241	ENSG00000134490	ENST00000584625	processed_transcript	KNOWN	None	31723	None	None	20777108	20806972	-1	C18orf45	MGC11386, FLJ44259
18	TMEM241	ENSG00000134490	ENST00000581444	nonsense_mediated_decay	KNOWN	None	31723	231	76	20777719	21017896	-1	C18orf45	MGC11386, FLJ44259
18	TMEM241	ENSG00000134490	ENST00000578790	processed_transcript	KNOWN	None	31723	None	None	20784351	20911179	-1	C18orf45	MGC11386, FLJ44259
18	TMEM241	ENSG00000134490	ENST00000475185	processed_transcript	KNOWN	None	31723	None	None	20875977	20911223	-1	C18orf45	MGC11386, FLJ44259
18	TMEM241	ENSG00000134490	ENST00000383233	protein_coding	KNOWN	CCDS11876	31723	891	296	20875981	21017869	-1	C18orf45	MGC11386, FLJ44259
18	TMEM241	ENSG00000134490	ENST00000477053	nonsense_mediated_decay	KNOWN	None	31723	372	123	20875981	21017923	-1	C18orf45	MGC11386, FLJ44259
18	TMEM241	ENSG00000134490	ENST00000473688	nonsense_mediated_decay	KNOWN	None	31723	480	159	20875981	21017925	-1	C18orf45	MGC11386, FLJ44259
18	TMEM241	ENSG00000134490	ENST00000583048	retained_intron	KNOWN	None	31723	None	None	20877712	20950245	-1	C18orf45	MGC11386, FLJ44259
18	TMEM241	ENSG00000134490	ENST00000577448	processed_transcript	KNOWN	None	31723	None	None	20877839	20911538	-1	C18orf45	MGC11386, FLJ44259
18	TMEM241	ENSG00000134490	ENST00000460322	nonsense_mediated_decay	KNOWN	None	31723	153	50	20877858	21017910	-1	C18orf45	MGC11386, FLJ44259
18	TMEM241	ENSG00000134490	ENST00000578520	protein_coding	PUTATIVE	None	31723	589	195	20932219	21017919	-1	C18orf45	MGC11386, FLJ44259
18	TMEM241	ENSG00000134490	ENST00000482411	nonsense_mediated_decay	KNOWN	None	31723	261	86	20932249	21017903	-1	C18orf45	MGC11386, FLJ44259
18	TMEM241	ENSG00000134490	ENST00000497608	nonsense_mediated_decay	KNOWN	None	31723	231	76	20936558	21017896	-1	C18orf45	MGC11386, FLJ44259
18	TMEM241	ENSG00000134490	ENST00000577531	nonsense_mediated_decay	KNOWN	None	31723	309	102	20936594	21017817	-1	C18orf45	MGC11386, FLJ44259
18	TMEM241	ENSG00000134490	ENST00000582336	protein_coding	PUTATIVE	None	31723	564	187	20945599	21017877	-1	C18orf45	MGC11386, FLJ44259
18	TMEM241	ENSG00000134490	ENST00000580025	nonsense_mediated_decay	KNOWN	None	31723	231	76	20951412	21017896	-1	C18orf45	MGC11386, FLJ44259
18	TMEM241	ENSG00000134490	ENST00000450466	protein_coding	KNOWN	None	31723	468	155	20777719	21017896	-1	C18orf45	MGC11386, FLJ44259
18	TMEM241	ENSG00000134490	ENST00000542162	protein_coding	KNOWN	None	31723	507	168	20877988	21017817	-1	C18orf45	MGC11386, FLJ44259
18	TMEM241	ENSG00000134490	ENST00000399707	protein_coding	KNOWN	None	31723	372	123	20956839	21017925	-1	C18orf45	MGC11386, FLJ44259
14	COQ6	ENSG00000119723	ENST00000394026	protein_coding	KNOWN	CCDS9824	20233	1332	443	74416629	74429811	1	None	CGI-10
14	COQ6	ENSG00000119723	ENST00000554341	nonsense_mediated_decay	KNOWN	None	20233	261	86	74416643	74429768	1	None	CGI-10
14	COQ6	ENSG00000119723	ENST00000553462	retained_intron	KNOWN	None	20233	None	None	74416922	74426058	1	None	CGI-10
14	COQ6	ENSG00000119723	ENST00000334571	protein_coding	KNOWN	CCDS9823	20233	1407	468	74416996	74430373	1	None	CGI-10
14	COQ6	ENSG00000119723	ENST00000556300	retained_intron	KNOWN	None	20233	None	None	74417002	74425578	1	None	CGI-10
14	COQ6	ENSG00000119723	ENST00000554153	nonsense_mediated_decay	KNOWN	None	20233	336	111	74417004	74424947	1	None	CGI-10
14	COQ6	ENSG00000119723	ENST00000557584	nonsense_mediated_decay	KNOWN	None	20233	336	111	74417004	74426184	1	None	CGI-10
14	COQ6	ENSG00000119723	ENST00000554920	protein_coding	PUTATIVE	None	20233	603	200	74417011	74429815	1	None	CGI-10
14	COQ6	ENSG00000119723	ENST00000554217	retained_intron	KNOWN	None	20233	None	None	74417013	74420515	1	None	CGI-10
14	COQ6	ENSG00000119723	ENST00000553922	retained_intron	KNOWN	None	20233	None	None	74417013	74422663	1	None	CGI-10
14	COQ6	ENSG00000119723	ENST00000554193	retained_intron	KNOWN	None	20233	None	None	74417013	74422703	1	None	CGI-10
14	COQ6	ENSG00000119723	ENST00000555552	nonsense_mediated_decay	KNOWN	None	20233	331	109	74417013	74423185	1	None	CGI-10
14	COQ6	ENSG00000119723	ENST00000557205	retained_intron	KNOWN	None	20233	None	None	74417013	74425646	1	None	CGI-10
14	COQ6	ENSG00000119723	ENST00000555196	nonsense_mediated_decay	KNOWN	None	20233	165	54	74417206	74423455	1	None	CGI-10
14	COQ6	ENSG00000119723	ENST00000554320	protein_coding	PUTATIVE	None	20233	787	261	74417227	74427996	1	None	CGI-10
14	COQ6	ENSG00000119723	ENST00000555392	retained_intron	KNOWN	None	20233	None	None	74420141	74423493	1	None	CGI-10
14	COQ6	ENSG00000119723	ENST00000555511	retained_intron	KNOWN	None	20233	None	None	74422033	74427998	1	None	CGI-10
14	COQ6	ENSG00000119723	ENST00000556588	retained_intron	KNOWN	None	20233	None	None	74425195	74429814	1	None	CGI-10
14	COQ6	ENSG00000119723	ENST00000553448	retained_intron	KNOWN	None	20233	None	None	74425610	74427569	1	None	CGI-10
14	COQ6	ENSG00000119723	ENST00000557780	processed_transcript	KNOWN	None	20233	None	None	74426202	74429811	1	None	CGI-10
14	COQ6	ENSG00000119723	ENST00000556299	retained_intron	KNOWN	None	20233	None	None	74427774	74429808	1	None	CGI-10
14	COQ6	ENSG00000119723	ENST00000238709	protein_coding	KNOWN	None	20233	1182	393	74416643	74429811	1	None	CGI-10
17	MYOCD	ENSG00000141052	ENST00000579237	nonsense_mediated_decay	KNOWN	None	16067	126	41	12569207	12620707	1	None	MYCD
17	MYOCD	ENSG00000141052	ENST00000425538	protein_coding	KNOWN	CCDS54091	16067	2961	986	12569306	12672266	1	None	MYCD
17	MYOCD	ENSG00000141052	ENST00000343344	protein_coding	KNOWN	CCDS11163	16067	2817	938	12569506	12666961	1	None	MYCD
17	MYOCD	ENSG00000141052	ENST00000395988	protein_coding	KNOWN	CCDS54092	16067	2055	684	12623606	12661623	1	None	MYCD
17	MYOCD	ENSG00000141052	ENST00000443061	protein_coding	NOVEL	None	16067	1947	648	12647668	12668646	1	None	MYCD
1	FMOD	ENSG00000122176	ENST00000464898	processed_transcript	KNOWN	None	3774	None	None	203309753	203320227	-1	None	SLRR2E
1	FMOD	ENSG00000122176	ENST00000354955	protein_coding	KNOWN	CCDS30976	3774	1131	376	203309756	203320617	-1	None	SLRR2E
1	FMOD	ENSG00000122176	ENST00000493296	processed_transcript	KNOWN	None	3774	None	None	203310465	203320216	-1	None	SLRR2E
1	FMOD	ENSG00000122176	ENST00000461936	processed_transcript	KNOWN	None	3774	None	None	203311311	203320214	-1	None	SLRR2E
10	TCTN3	ENSG00000119977	ENST00000371217	protein_coding	KNOWN	None	24519	1863	620	97423158	97453900	-1	C10orf61	DKFZP564D116, TECT3
10	TCTN3	ENSG00000119977	ENST00000371209	protein_coding	KNOWN	None	24519	1332	443	97443018	97453656	-1	C10orf61	DKFZP564D116, TECT3
10	TCTN3	ENSG00000119977	ENST00000424175	protein_coding	PUTATIVE	None	24519	899	298	97443285	97453595	-1	C10orf61	DKFZP564D116, TECT3
10	TCTN3	ENSG00000119977	ENST00000497399	retained_intron	KNOWN	None	24519	None	None	97446839	97453712	-1	C10orf61	DKFZP564D116, TECT3
10	TCTN3	ENSG00000119977	ENST00000478245	retained_intron	KNOWN	None	24519	None	None	97452621	97453658	-1	C10orf61	DKFZP564D116, TECT3
10	TCTN3	ENSG00000119977	ENST00000265993	protein_coding	KNOWN	CCDS31258	24519	1824	607	97423153	97453900	-1	C10orf61	DKFZP564D116, TECT3
10	TCTN3	ENSG00000119977	ENST00000430368	protein_coding	KNOWN	CCDS44461	24519	1380	459	97423153	97453900	-1	C10orf61	DKFZP564D116, TECT3
1	PRELP	ENSG00000188783	ENST00000343110	protein_coding	KNOWN	CCDS1438	9357	1149	382	203444956	203460480	1	None	SLRR2A, prolargin
HSCHR6_MHC_MANN	HCG4P3	ENSG00000225086	ENST00000429754	unprocessed_pseudogene	KNOWN	None	22922	None	None	29969075	29970070	-1	None	HCGIV-03, HCGIV.2, HCGIV-3
5	None	ENSG00000232615	ENST00000512270	processed_pseudogene	KNOWN	None	None	None	None	1614951	1616449	1	None	None
5	MIR4277	ENSG00000263746	ENST00000578298	miRNA	KNOWN	None	38367	None	None	1708900	1708983	-1	None	hsa-mir-4277
5	None	ENSG00000260066	ENST00000565428	lincRNA	KNOWN	None	None	None	None	1725264	1728287	1	None	None
4	FGFR3	ENSG00000068078	ENST00000481110	protein_coding	PUTATIVE	None	3690	2379	792	1795034	1810592	1	ACH	CEK2, JTK4, CD333
4	FGFR3	ENSG00000068078	ENST00000260795	protein_coding	KNOWN	CCDS3353	3690	2421	806	1795560	1810598	1	ACH	CEK2, JTK4, CD333
4	FGFR3	ENSG00000068078	ENST00000352904	protein_coding	NOVEL	CCDS3354	3690	2085	694	1795623	1810598	1	ACH	CEK2, JTK4, CD333
4	FGFR3	ENSG00000068078	ENST00000507588	protein_coding	NOVEL	None	3690	336	111	1803189	1805466	1	ACH	CEK2, JTK4, CD333
4	FGFR3	ENSG00000068078	ENST00000474521	processed_transcript	KNOWN	None	3690	None	None	1803356	1804879	1	ACH	CEK2, JTK4, CD333
4	FGFR3	ENSG00000068078	ENST00000469068	retained_intron	KNOWN	None	3690	None	None	1806219	1807586	1	ACH	CEK2, JTK4, CD333
4	FGFR3	ENSG00000068078	ENST00000340107	protein_coding	KNOWN	CCDS54706	3690	2427	808	1795039	1810599	1	ACH	CEK2, JTK4, CD333
4	FGFR3	ENSG00000068078	ENST00000440486	protein_coding	KNOWN	CCDS3353	3690	2421	806	1795039	1810599	1	ACH	CEK2, JTK4, CD333
4	FGFR3	ENSG00000068078	ENST00000412135	protein_coding	KNOWN	CCDS3354	3690	2085	694	1795039	1810599	1	ACH	CEK2, JTK4, CD333
6	TSPYL1	ENSG00000189241	ENST00000368608	protein_coding	KNOWN	CCDS34518	12382	1314	437	116597741	116601066	-1	TSPYL	None
1	OPTC	ENSG00000188770	ENST00000367222	protein_coding	KNOWN	CCDS1439	8158	999	332	203463271	203477992	1	None	None
1	OPTC	ENSG00000188770	ENST00000448911	protein_coding	KNOWN	None	8158	524	173	203465098	203468837	1	None	None
5	None	ENSG00000249966	ENST00000503386	antisense	KNOWN	None	None	None	None	1851064	1851611	1	None	None
13	CRYL1	ENSG00000165475	ENST00000298248	protein_coding	KNOWN	CCDS41871	18246	960	319	20977806	21099996	-1	None	GDH, lambda-CRY, MGC149525, MGC149526
13	CRYL1	ENSG00000165475	ENST00000382812	protein_coding	PUTATIVE	None	18246	894	297	20977810	21099996	-1	None	GDH, lambda-CRY, MGC149525, MGC149526
13	CRYL1	ENSG00000165475	ENST00000480748	processed_transcript	KNOWN	None	18246	None	None	21001269	21063575	-1	None	GDH, lambda-CRY, MGC149525, MGC149526
3	CLASP2	ENSG00000163539	ENST00000464961	retained_intron	KNOWN	None	17078	None	None	33537737	33546943	-1	None	KIAA0627
3	CLASP2	ENSG00000163539	ENST00000468888	protein_coding	NOVEL	None	17078	4545	1514	33537737	33759541	-1	None	KIAA0627
3	CLASP2	ENSG00000163539	ENST00000399362	protein_coding	KNOWN	None	17078	4542	1513	33537737	33759848	-1	None	KIAA0627
3	CLASP2	ENSG00000163539	ENST00000480013	protein_coding	KNOWN	None	17078	3882	1293	33538485	33700933	-1	None	KIAA0627
3	CLASP2	ENSG00000163539	ENST00000461133	protein_coding	NOVEL	None	17078	3822	1273	33539247	33700597	-1	None	KIAA0627
3	CLASP2	ENSG00000163539	ENST00000487553	protein_coding	PUTATIVE	None	17078	661	219	33539959	33576858	-1	None	KIAA0627
3	CLASP2	ENSG00000163539	ENST00000476251	nonsense_mediated_decay	KNOWN	None	17078	554	183	33540076	33576940	-1	None	KIAA0627
3	CLASP2	ENSG00000163539	ENST00000494261	retained_intron	KNOWN	None	17078	None	None	33576865	33586603	-1	None	KIAA0627
3	CLASP2	ENSG00000163539	ENST00000480385	protein_coding	PUTATIVE	None	17078	614	203	33580415	33602368	-1	None	KIAA0627
3	CLASP2	ENSG00000163539	ENST00000493577	retained_intron	KNOWN	None	17078	None	None	33599828	33600833	-1	None	KIAA0627
3	CLASP2	ENSG00000163539	ENST00000491045	retained_intron	KNOWN	None	17078	None	None	33612223	33617913	-1	None	KIAA0627
3	CLASP2	ENSG00000163539	ENST00000475576	protein_coding	PUTATIVE	None	17078	536	177	33614662	33626290	-1	None	KIAA0627
3	CLASP2	ENSG00000163539	ENST00000313350	protein_coding	KNOWN	None	17078	1296	431	33643905	33686984	-1	None	KIAA0627
3	CLASP2	ENSG00000163539	ENST00000487200	protein_coding	NOVEL	None	17078	1365	454	33643935	33686995	-1	None	KIAA0627
3	CLASP2	ENSG00000163539	ENST00000333778	protein_coding	NOVEL	None	17078	1377	458	33643936	33686766	-1	None	KIAA0627
3	CLASP2	ENSG00000163539	ENST00000485378	protein_coding	NOVEL	None	17078	699	232	33653501	33686982	-1	None	KIAA0627
3	CLASP2	ENSG00000163539	ENST00000496954	protein_coding	NOVEL	None	17078	534	177	33661182	33700632	-1	None	KIAA0627
3	CLASP2	ENSG00000163539	ENST00000476433	processed_transcript	KNOWN	None	17078	None	None	33663645	33686961	-1	None	KIAA0627
3	CLASP2	ENSG00000163539	ENST00000482896	processed_transcript	KNOWN	None	17078	None	None	33663679	33701164	-1	None	KIAA0627
3	CLASP2	ENSG00000163539	ENST00000498331	processed_transcript	KNOWN	None	17078	None	None	33668480	33701094	-1	None	KIAA0627
3	CLASP2	ENSG00000163539	ENST00000486796	retained_intron	KNOWN	None	17078	None	None	33685874	33700599	-1	None	KIAA0627
3	CLASP2	ENSG00000163539	ENST00000462878	retained_intron	KNOWN	None	17078	None	None	33724471	33729860	-1	None	KIAA0627
3	CLASP2	ENSG00000163539	ENST00000467956	retained_intron	KNOWN	None	17078	None	None	33731222	33759502	-1	None	KIAA0627
3	CLASP2	ENSG00000163539	ENST00000359576	protein_coding	KNOWN	None	17078	4518	1505	33537741	33759848	-1	None	KIAA0627
3	CLASP2	ENSG00000163539	ENST00000307312	protein_coding	KNOWN	None	17078	2988	995	33537741	33759848	-1	None	KIAA0627
3	CLASP2	ENSG00000163539	ENST00000539981	protein_coding	KNOWN	None	17078	3189	1062	33537741	33686807	-1	None	KIAA0627
20	SALL4	ENSG00000101115	ENST00000217086	protein_coding	KNOWN	CCDS13438	15924	3162	1053	50400581	50419059	-1	None	dJ1112F19.1, ZNF797
20	SALL4	ENSG00000101115	ENST00000395997	protein_coding	NOVEL	None	15924	1851	616	50400804	50419014	-1	None	dJ1112F19.1, ZNF797
20	SALL4	ENSG00000101115	ENST00000483130	processed_transcript	KNOWN	None	15924	None	None	50408522	50418125	-1	None	dJ1112F19.1, ZNF797
20	SALL4	ENSG00000101115	ENST00000481363	processed_transcript	PUTATIVE	None	15924	None	None	50408607	50409617	-1	None	dJ1112F19.1, ZNF797
20	SALL4	ENSG00000101115	ENST00000371539	protein_coding	KNOWN	None	15924	831	276	50400804	50418947	-1	None	dJ1112F19.1, ZNF797
16	ACSM5	ENSG00000183549	ENST00000575584	protein_coding	PUTATIVE	None	26060	627	208	20420856	20431117	1	None	FLJ20581
16	ACSM5	ENSG00000183549	ENST00000331849	protein_coding	KNOWN	CCDS10585	26060	1740	579	20420856	20452658	1	None	FLJ20581
16	ACSM5	ENSG00000183549	ENST00000575070	retained_intron	KNOWN	None	26060	None	None	20420868	20423527	1	None	FLJ20581
16	ACSM5	ENSG00000183549	ENST00000570305	retained_intron	KNOWN	None	26060	None	None	20432378	20442381	1	None	FLJ20581
16	ACSM5	ENSG00000183549	ENST00000574748	retained_intron	KNOWN	None	26060	None	None	20432499	20442365	1	None	FLJ20581
16	ACSM5	ENSG00000183549	ENST00000573920	nonsense_mediated_decay	KNOWN	None	26060	339	112	20432596	20442365	1	None	FLJ20581
16	ACSM5	ENSG00000183549	ENST00000577024	retained_intron	KNOWN	None	26060	None	None	20442365	20451241	1	None	FLJ20581
2	METTL5	ENSG00000138382	ENST00000409837	protein_coding	PUTATIVE	None	25006	597	198	170666591	170681415	-1	None	HSPC133
2	METTL5	ENSG00000138382	ENST00000442181	protein_coding	NOVEL	None	25006	380	125	170668267	170677739	-1	None	HSPC133
2	METTL5	ENSG00000138382	ENST00000409340	protein_coding	NOVEL	None	25006	333	110	170668267	170681324	-1	None	HSPC133
2	METTL5	ENSG00000138382	ENST00000260953	protein_coding	KNOWN	CCDS33320	25006	630	209	170668267	170681424	-1	None	HSPC133
2	METTL5	ENSG00000138382	ENST00000409965	protein_coding	KNOWN	CCDS33320	25006	630	209	170668267	170681435	-1	None	HSPC133
2	METTL5	ENSG00000138382	ENST00000392640	protein_coding	KNOWN	CCDS33320	25006	630	209	170668267	170681441	-1	None	HSPC133
2	METTL5	ENSG00000138382	ENST00000484351	retained_intron	KNOWN	None	25006	None	None	170668268	170669685	-1	None	HSPC133
2	METTL5	ENSG00000138382	ENST00000308099	protein_coding	NOVEL	None	25006	495	164	170668273	170681411	-1	None	HSPC133
2	METTL5	ENSG00000138382	ENST00000537825	nonsense_mediated_decay	KNOWN	None	25006	264	87	170668275	170681068	-1	None	HSPC133
2	METTL5	ENSG00000138382	ENST00000410097	protein_coding	PUTATIVE	None	25006	735	244	170668324	170681384	-1	None	HSPC133
2	METTL5	ENSG00000138382	ENST00000538491	protein_coding	PUTATIVE	None	25006	146	47	170668980	170681423	-1	None	HSPC133
2	METTL5	ENSG00000138382	ENST00000471560	retained_intron	KNOWN	None	25006	None	None	170680692	170681382	-1	None	HSPC133
2	COMMD1	ENSG00000173163	ENST00000472729	processed_transcript	PUTATIVE	None	23024	None	None	62115859	62363193	1	C2orf5	MURR1, MGC27155
2	COMMD1	ENSG00000173163	ENST00000445644	nonsense_mediated_decay	KNOWN	None	23024	297	98	62132782	62228010	1	C2orf5	MURR1, MGC27155
2	COMMD1	ENSG00000173163	ENST00000471704	retained_intron	KNOWN	None	23024	None	None	62132782	62228227	1	C2orf5	MURR1, MGC27155
2	COMMD1	ENSG00000173163	ENST00000311832	protein_coding	KNOWN	CCDS1869	23024	573	190	62132782	62363382	1	C2orf5	MURR1, MGC27155
2	COMMD1	ENSG00000173163	ENST00000455659	nonsense_mediated_decay	KNOWN	None	23024	152	49	62132893	62227982	1	C2orf5	MURR1, MGC27155
2	COMMD1	ENSG00000173163	ENST00000458337	protein_coding	KNOWN	None	23024	115	37	62228114	62374049	1	C2orf5	MURR1, MGC27155
2	COMMD1	ENSG00000173163	ENST00000427417	protein_coding	KNOWN	None	23024	115	37	62228114	62374382	1	C2orf5	MURR1, MGC27155
2	COMMD1	ENSG00000173163	ENST00000444166	protein_coding	KNOWN	None	23024	97	31	62362980	62374061	1	C2orf5	MURR1, MGC27155
2	COMMD1	ENSG00000173163	ENST00000538736	protein_coding	KNOWN	None	23024	480	159	62132809	62282912	1	C2orf5	MURR1, MGC27155
9	PMPCA	ENSG00000165688	ENST00000371720	protein_coding	KNOWN	None	18667	441	146	139305110	139311007	1	INPP5E	KIAA0123, Alpha-MPP
9	PMPCA	ENSG00000165688	ENST00000371717	protein_coding	KNOWN	CCDS35180	18667	1578	525	139305112	139318213	1	INPP5E	KIAA0123, Alpha-MPP
9	PMPCA	ENSG00000165688	ENST00000462616	processed_transcript	KNOWN	None	18667	None	None	139310519	139315385	1	INPP5E	KIAA0123, Alpha-MPP
9	PMPCA	ENSG00000165688	ENST00000444897	protein_coding	KNOWN	None	18667	816	271	139311646	139316925	1	INPP5E	KIAA0123, Alpha-MPP
9	PMPCA	ENSG00000165688	ENST00000399219	protein_coding	KNOWN	None	18667	1185	394	139305113	139318212	1	INPP5E	KIAA0123, Alpha-MPP
17	ERBB2	ENSG00000141736	ENST00000584601	protein_coding	PUTATIVE	CCDS45667	3430	3678	1225	37844167	37884614	1	NGL	NEU, HER-2, CD340, HER2
17	ERBB2	ENSG00000141736	ENST00000584014	retained_intron	KNOWN	None	3430	None	None	37844354	37851434	1	NGL	NEU, HER-2, CD340, HER2
17	ERBB2	ENSG00000141736	ENST00000578199	protein_coding	PUTATIVE	None	3430	1812	603	37844372	37873910	1	NGL	NEU, HER-2, CD340, HER2
17	ERBB2	ENSG00000141736	ENST00000445658	protein_coding	NOVEL	None	3430	2940	979	37856229	37884332	1	NGL	NEU, HER-2, CD340, HER2
17	ERBB2	ENSG00000141736	ENST00000584450	protein_coding	PUTATIVE	None	3430	3168	1055	37856277	37884297	1	NGL	NEU, HER-2, CD340, HER2
17	ERBB2	ENSG00000141736	ENST00000582648	nonsense_mediated_decay	KNOWN	None	3430	291	96	37856327	37872564	1	NGL	NEU, HER-2, CD340, HER2
17	ERBB2	ENSG00000141736	ENST00000582788	retained_intron	KNOWN	None	3430	None	None	37856327	37873908	1	NGL	NEU, HER-2, CD340, HER2
17	ERBB2	ENSG00000141736	ENST00000578373	nonsense_mediated_decay	KNOWN	None	3430	273	90	37856333	37884830	1	NGL	NEU, HER-2, CD340, HER2
17	ERBB2	ENSG00000141736	ENST00000269571	protein_coding	KNOWN	CCDS32642	3430	3768	1255	37856333	37884915	1	NGL	NEU, HER-2, CD340, HER2
17	ERBB2	ENSG00000141736	ENST00000584908	retained_intron	KNOWN	None	3430	None	None	37856480	37868583	1	NGL	NEU, HER-2, CD340, HER2
17	ERBB2	ENSG00000141736	ENST00000578709	protein_coding	PUTATIVE	None	3430	307	101	37859447	37864745	1	NGL	NEU, HER-2, CD340, HER2
17	ERBB2	ENSG00000141736	ENST00000584099	protein_coding	PUTATIVE	None	3430	417	138	37863002	37865638	1	NGL	NEU, HER-2, CD340, HER2
17	ERBB2	ENSG00000141736	ENST00000583038	retained_intron	KNOWN	None	3430	None	None	37863657	37882604	1	NGL	NEU, HER-2, CD340, HER2
17	ERBB2	ENSG00000141736	ENST00000583391	retained_intron	KNOWN	None	3430	None	None	37865497	37866663	1	NGL	NEU, HER-2, CD340, HER2
17	ERBB2	ENSG00000141736	ENST00000578502	protein_coding	NOVEL	None	3430	497	164	37866609	37871545	1	NGL	NEU, HER-2, CD340, HER2
17	ERBB2	ENSG00000141736	ENST00000582818	protein_coding	NOVEL	None	3430	529	175	37872804	37880203	1	NGL	NEU, HER-2, CD340, HER2
17	ERBB2	ENSG00000141736	ENST00000578630	retained_intron	KNOWN	None	3430	None	None	37873227	37880221	1	NGL	NEU, HER-2, CD340, HER2
17	ERBB2	ENSG00000141736	ENST00000584684	retained_intron	KNOWN	None	3430	None	None	37873596	37876550	1	NGL	NEU, HER-2, CD340, HER2
17	ERBB2	ENSG00000141736	ENST00000580074	protein_coding	NOVEL	None	3430	754	250	37873682	37881456	1	NGL	NEU, HER-2, CD340, HER2
17	ERBB2	ENSG00000141736	ENST00000584888	processed_transcript	KNOWN	None	3430	None	None	37884639	37886679	1	NGL	NEU, HER-2, CD340, HER2
17	ERBB2	ENSG00000141736	ENST00000541774	protein_coding	KNOWN	None	3430	3723	1240	37855813	37884915	1	NGL	NEU, HER-2, CD340, HER2
17	ERBB2	ENSG00000141736	ENST00000406381	protein_coding	KNOWN	CCDS45667	3430	3678	1225	37844393	37884915	1	NGL	NEU, HER-2, CD340, HER2
17	ERBB2	ENSG00000141736	ENST00000540147	protein_coding	KNOWN	CCDS45667	3430	3678	1225	37856254	37884915	1	NGL	NEU, HER-2, CD340, HER2
17	ERBB2	ENSG00000141736	ENST00000540042	protein_coding	KNOWN	None	3430	1812	603	37863002	37873906	1	NGL	NEU, HER-2, CD340, HER2
HSCHR6_MHC_MANN	HLA-J	ENSG00000223439	ENST00000473396	processed_transcript	KNOWN	None	4967	None	None	29969537	29972910	1	HLA-CDA12, D6S203	CDA12, HLA-59
HSCHR6_MHC_MANN	HLA-J	ENSG00000223439	ENST00000486526	processed_transcript	KNOWN	None	4967	None	None	29969541	29972910	1	HLA-CDA12, D6S203	CDA12, HLA-59
HSCHR6_MHC_MANN	HLA-J	ENSG00000223439	ENST00000467373	processed_transcript	KNOWN	None	4967	None	None	29969550	29972910	1	HLA-CDA12, D6S203	CDA12, HLA-59
HSCHR6_MHC_MANN	HLA-J	ENSG00000223439	ENST00000468902	transcribed_unprocessed_pseudogene	KNOWN	None	4967	None	None	29969560	29972493	1	HLA-CDA12, D6S203	CDA12, HLA-59
X	None	ENSG00000233889	ENST00000433279	protein_coding	KNOWN	None	None	228	75	56100757	56102014	1	None	None
2	B3GNT2	ENSG00000170340	ENST00000301998	protein_coding	KNOWN	CCDS1870	15629	1194	397	62423248	62451866	1	B3GNT1	B3GNT-2, BETA3GNT, B3GN-T2, B3GN-T1
2	B3GNT2	ENSG00000170340	ENST00000405767	protein_coding	KNOWN	CCDS1870	15629	1194	397	62442653	62451684	1	B3GNT1	B3GNT-2, BETA3GNT, B3GN-T2, B3GN-T1
HSCHR6_MHC_MANN	ETF1P1	ENSG00000224108	ENST00000447559	processed_pseudogene	KNOWN	None	3478	None	None	29994686	29995976	1	SUP45L2	HCGVII
X	KLF8	ENSG00000102349	ENST00000476898	retained_intron	KNOWN	None	6351	None	None	56258854	56295641	1	None	BKLF3, ZNF741, DXS741
X	KLF8	ENSG00000102349	ENST00000462627	retained_intron	KNOWN	None	6351	None	None	56258907	56314317	1	None	BKLF3, ZNF741, DXS741
X	KLF8	ENSG00000102349	ENST00000468660	protein_coding	KNOWN	CCDS14373	6351	1080	359	56259480	56311102	1	None	BKLF3, ZNF741, DXS741
X	KLF8	ENSG00000102349	ENST00000358094	nonsense_mediated_decay	KNOWN	None	6351	687	228	56259622	56311530	1	None	BKLF3, ZNF741, DXS741
X	KLF8	ENSG00000102349	ENST00000374928	protein_coding	KNOWN	CCDS55428	6351	774	257	56258870	56314322	1	None	BKLF3, ZNF741, DXS741
2	TMEM17	ENSG00000186889	ENST00000335390	protein_coding	KNOWN	CCDS1871	26623	597	198	62727356	62733476	-1	None	FLJ34583
2	TMEM17	ENSG00000186889	ENST00000479763	retained_intron	KNOWN	None	26623	None	None	62727762	62739029	-1	None	FLJ34583
2	TMEM17	ENSG00000186889	ENST00000494919	retained_intron	KNOWN	None	26623	None	None	62727770	62733604	-1	None	FLJ34583
3	STAB1	ENSG00000010327	ENST00000321725	protein_coding	KNOWN	CCDS33768	18628	7713	2570	52529354	52558511	1	None	KIAA0246, STAB-1, FEEL-1, CLEVER-1, FELE-1, FEX1
3	STAB1	ENSG00000010327	ENST00000481607	retained_intron	KNOWN	None	18628	None	None	52529375	52542559	1	None	KIAA0246, STAB-1, FEEL-1, CLEVER-1, FELE-1, FEX1
3	STAB1	ENSG00000010327	ENST00000479355	retained_intron	KNOWN	None	18628	None	None	52529385	52535646	1	None	KIAA0246, STAB-1, FEEL-1, CLEVER-1, FELE-1, FEX1
3	STAB1	ENSG00000010327	ENST00000484850	retained_intron	KNOWN	None	18628	None	None	52541977	52543492	1	None	KIAA0246, STAB-1, FEEL-1, CLEVER-1, FELE-1, FEX1
3	STAB1	ENSG00000010327	ENST00000461325	retained_intron	KNOWN	None	18628	None	None	52550194	52554262	1	None	KIAA0246, STAB-1, FEEL-1, CLEVER-1, FELE-1, FEX1
3	STAB1	ENSG00000010327	ENST00000481626	retained_intron	KNOWN	None	18628	None	None	52552817	52557492	1	None	KIAA0246, STAB-1, FEEL-1, CLEVER-1, FELE-1, FEX1
3	STAB1	ENSG00000010327	ENST00000462741	retained_intron	KNOWN	None	18628	None	None	52555377	52558509	1	None	KIAA0246, STAB-1, FEEL-1, CLEVER-1, FELE-1, FEX1
3	STAB1	ENSG00000010327	ENST00000462681	retained_intron	KNOWN	None	18628	None	None	52555584	52557339	1	None	KIAA0246, STAB-1, FEEL-1, CLEVER-1, FELE-1, FEX1
3	STAB1	ENSG00000010327	ENST00000469989	protein_coding	NOVEL	None	18628	532	176	52557294	52558511	1	None	KIAA0246, STAB-1, FEEL-1, CLEVER-1, FELE-1, FEX1
1	MACF1	ENSG00000127603	ENST00000484793	protein_coding	PUTATIVE	None	13664	366	121	39546988	39568653	1	None	KIAA0465, ACF7, ABP620, KIAA1251, MACF, FLJ45612, FLJ46776
1	MACF1	ENSG00000127603	ENST00000602421	protein_coding	PUTATIVE	None	13664	366	121	39547089	39569398	1	None	KIAA0465, ACF7, ABP620, KIAA1251, MACF, FLJ45612, FLJ46776
1	MACF1	ENSG00000127603	ENST00000567887	protein_coding	PUTATIVE	None	13664	22779	7592	39549734	39952849	1	None	KIAA0465, ACF7, ABP620, KIAA1251, MACF, FLJ45612, FLJ46776
1	MACF1	ENSG00000127603	ENST00000372915	protein_coding	NOVEL	None	13664	22167	7388	39549804	39952652	1	None	KIAA0465, ACF7, ABP620, KIAA1251, MACF, FLJ45612, FLJ46776
1	MACF1	ENSG00000127603	ENST00000361689	protein_coding	KNOWN	CCDS435	13664	16293	5430	39549839	39952659	1	None	KIAA0465, ACF7, ABP620, KIAA1251, MACF, FLJ45612, FLJ46776
1	MACF1	ENSG00000127603	ENST00000524432	protein_coding	PUTATIVE	None	13664	4125	1374	39571083	39788680	1	None	KIAA0465, ACF7, ABP620, KIAA1251, MACF, FLJ45612, FLJ46776
1	MACF1	ENSG00000127603	ENST00000467673	retained_intron	KNOWN	None	13664	None	None	39571101	39720320	1	None	KIAA0465, ACF7, ABP620, KIAA1251, MACF, FLJ45612, FLJ46776
1	MACF1	ENSG00000127603	ENST00000564288	protein_coding	PUTATIVE	None	13664	22668	7555	39669918	39952849	1	None	KIAA0465, ACF7, ABP620, KIAA1251, MACF, FLJ45612, FLJ46776
1	MACF1	ENSG00000127603	ENST00000494012	protein_coding	PUTATIVE	None	13664	339	112	39670367	39720047	1	None	KIAA0465, ACF7, ABP620, KIAA1251, MACF, FLJ45612, FLJ46776
1	MACF1	ENSG00000127603	ENST00000480624	processed_transcript	KNOWN	None	13664	None	None	39680934	39726212	1	None	KIAA0465, ACF7, ABP620, KIAA1251, MACF, FLJ45612, FLJ46776
1	MACF1	ENSG00000127603	ENST00000469366	processed_transcript	KNOWN	None	13664	None	None	39680937	39720112	1	None	KIAA0465, ACF7, ABP620, KIAA1251, MACF, FLJ45612, FLJ46776
1	MACF1	ENSG00000127603	ENST00000496804	nonsense_mediated_decay	KNOWN	None	13664	3189	1062	39734137	39792897	1	None	KIAA0465, ACF7, ABP620, KIAA1251, MACF, FLJ45612, FLJ46776
1	MACF1	ENSG00000127603	ENST00000530262	protein_coding	PUTATIVE	None	13664	6086	2027	39734199	39823447	1	None	KIAA0465, ACF7, ABP620, KIAA1251, MACF, FLJ45612, FLJ46776
1	MACF1	ENSG00000127603	ENST00000485063	retained_intron	KNOWN	None	13664	None	None	39748798	39749892	1	None	KIAA0465, ACF7, ABP620, KIAA1251, MACF, FLJ45612, FLJ46776
1	MACF1	ENSG00000127603	ENST00000472385	retained_intron	KNOWN	None	13664	None	None	39749763	39751002	1	None	KIAA0465, ACF7, ABP620, KIAA1251, MACF, FLJ45612, FLJ46776
1	MACF1	ENSG00000127603	ENST00000484393	retained_intron	KNOWN	None	13664	None	None	39751009	39753285	1	None	KIAA0465, ACF7, ABP620, KIAA1251, MACF, FLJ45612, FLJ46776
1	MACF1	ENSG00000127603	ENST00000476350	processed_transcript	KNOWN	None	13664	None	None	39765986	39839145	1	None	KIAA0465, ACF7, ABP620, KIAA1251, MACF, FLJ45612, FLJ46776
1	MACF1	ENSG00000127603	ENST00000372925	protein_coding	NOVEL	None	13664	13303	4433	39765986	39952659	1	None	KIAA0465, ACF7, ABP620, KIAA1251, MACF, FLJ45612, FLJ46776
1	MACF1	ENSG00000127603	ENST00000528611	processed_transcript	KNOWN	None	13664	None	None	39794041	39796916	1	None	KIAA0465, ACF7, ABP620, KIAA1251, MACF, FLJ45612, FLJ46776
1	MACF1	ENSG00000127603	ENST00000289893	protein_coding	PUTATIVE	None	13664	17817	5938	39796810	39952659	1	None	KIAA0465, ACF7, ABP620, KIAA1251, MACF, FLJ45612, FLJ46776
1	MACF1	ENSG00000127603	ENST00000482035	protein_coding	PUTATIVE	None	13664	870	289	39880072	39893764	1	None	KIAA0465, ACF7, ABP620, KIAA1251, MACF, FLJ45612, FLJ46776
1	MACF1	ENSG00000127603	ENST00000473843	processed_transcript	KNOWN	None	13664	None	None	39900157	39901679	1	None	KIAA0465, ACF7, ABP620, KIAA1251, MACF, FLJ45612, FLJ46776
1	MACF1	ENSG00000127603	ENST00000469490	processed_transcript	KNOWN	None	13664	None	None	39901298	39907961	1	None	KIAA0465, ACF7, ABP620, KIAA1251, MACF, FLJ45612, FLJ46776
1	MACF1	ENSG00000127603	ENST00000487656	processed_transcript	KNOWN	None	13664	None	None	39918205	39919421	1	None	KIAA0465, ACF7, ABP620, KIAA1251, MACF, FLJ45612, FLJ46776
1	MACF1	ENSG00000127603	ENST00000360115	protein_coding	NOVEL	None	13664	1631	542	39919509	39952659	1	None	KIAA0465, ACF7, ABP620, KIAA1251, MACF, FLJ45612, FLJ46776
1	MACF1	ENSG00000127603	ENST00000497964	processed_transcript	KNOWN	None	13664	None	None	39922378	39930581	1	None	KIAA0465, ACF7, ABP620, KIAA1251, MACF, FLJ45612, FLJ46776
1	MACF1	ENSG00000127603	ENST00000446276	protein_coding	NOVEL	None	13664	1366	454	39924795	39952659	1	None	KIAA0465, ACF7, ABP620, KIAA1251, MACF, FLJ45612, FLJ46776
1	MACF1	ENSG00000127603	ENST00000442046	protein_coding	NOVEL	None	13664	1106	367	39926419	39952659	1	None	KIAA0465, ACF7, ABP620, KIAA1251, MACF, FLJ45612, FLJ46776
1	MACF1	ENSG00000127603	ENST00000422234	protein_coding	NOVEL	None	13664	477	158	39927692	39945666	1	None	KIAA0465, ACF7, ABP620, KIAA1251, MACF, FLJ45612, FLJ46776
1	MACF1	ENSG00000127603	ENST00000462496	processed_transcript	KNOWN	None	13664	None	None	39927696	39945788	1	None	KIAA0465, ACF7, ABP620, KIAA1251, MACF, FLJ45612, FLJ46776
1	MACF1	ENSG00000127603	ENST00000462103	processed_transcript	KNOWN	None	13664	None	None	39933422	39945552	1	None	KIAA0465, ACF7, ABP620, KIAA1251, MACF, FLJ45612, FLJ46776
1	MACF1	ENSG00000127603	ENST00000496360	processed_transcript	KNOWN	None	13664	None	None	39934265	39951889	1	None	KIAA0465, ACF7, ABP620, KIAA1251, MACF, FLJ45612, FLJ46776
1	MACF1	ENSG00000127603	ENST00000497807	processed_transcript	KNOWN	None	13664	None	None	39934315	39952659	1	None	KIAA0465, ACF7, ABP620, KIAA1251, MACF, FLJ45612, FLJ46776
1	MACF1	ENSG00000127603	ENST00000545844	protein_coding	KNOWN	CCDS435	13664	16293	5430	39549034	39952789	1	None	KIAA0465, ACF7, ABP620, KIAA1251, MACF, FLJ45612, FLJ46776
1	MACF1	ENSG00000127603	ENST00000317713	protein_coding	KNOWN	None	13664	16293	5430	39549839	39952789	1	None	KIAA0465, ACF7, ABP620, KIAA1251, MACF, FLJ45612, FLJ46776
1	MACF1	ENSG00000127603	ENST00000539005	protein_coding	KNOWN	None	13664	15903	5300	39549839	39952789	1	None	KIAA0465, ACF7, ABP620, KIAA1251, MACF, FLJ45612, FLJ46776
1	MACF1	ENSG00000127603	ENST00000536367	protein_coding	KNOWN	None	13664	603	200	39670423	39748740	1	None	KIAA0465, ACF7, ABP620, KIAA1251, MACF, FLJ45612, FLJ46776
9	PTRH1	ENSG00000187024	ENST00000335223	processed_transcript	KNOWN	None	27039	None	None	130455257	130477926	-1	C9orf115	PTH1
9	PTRH1	ENSG00000187024	ENST00000423807	protein_coding	NOVEL	None	27039	549	182	130475772	130478282	-1	C9orf115	PTH1
9	PTRH1	ENSG00000187024	ENST00000419060	protein_coding	KNOWN	CCDS35147	27039	645	214	130475789	130487152	-1	C9orf115	PTH1
9	PTRH1	ENSG00000187024	ENST00000456267	processed_transcript	KNOWN	None	27039	None	None	130476251	130477883	-1	C9orf115	PTH1
9	PTRH1	ENSG00000187024	ENST00000414832	processed_transcript	KNOWN	None	27039	None	None	130476347	130477910	-1	C9orf115	PTH1
9	PTRH1	ENSG00000187024	ENST00000416214	processed_transcript	KNOWN	None	27039	None	None	130476907	130477930	-1	C9orf115	PTH1
9	PTRH1	ENSG00000187024	ENST00000429848	processed_transcript	PUTATIVE	None	27039	None	None	130478259	130487111	-1	C9orf115	PTH1
9	PTRH1	ENSG00000187024	ENST00000543175	protein_coding	KNOWN	CCDS35147	27039	645	214	130476228	130477936	-1	C9orf115	PTH1
12	RAB3IP	ENSG00000127328	ENST00000247833	protein_coding	KNOWN	CCDS8995	16508	1383	460	70132461	70211157	1	None	RABIN3
12	RAB3IP	ENSG00000127328	ENST00000378815	protein_coding	KNOWN	None	16508	948	315	70132642	70190427	1	None	RABIN3
12	RAB3IP	ENSG00000127328	ENST00000483530	protein_coding	KNOWN	CCDS8996	16508	1188	395	70132642	70209503	1	None	RABIN3
12	RAB3IP	ENSG00000127328	ENST00000417413	nonsense_mediated_decay	KNOWN	None	16508	915	304	70132642	70209503	1	None	RABIN3
12	RAB3IP	ENSG00000127328	ENST00000549760	protein_coding	KNOWN	None	16508	497	164	70132889	70150430	1	None	RABIN3
12	RAB3IP	ENSG00000127328	ENST00000550536	protein_coding	KNOWN	CCDS8993	16508	1431	476	70133170	70216984	1	None	RABIN3
12	RAB3IP	ENSG00000127328	ENST00000378809	nonsense_mediated_decay	KNOWN	None	16508	1110	369	70133180	70209461	1	None	RABIN3
12	RAB3IP	ENSG00000127328	ENST00000362025	protein_coding	KNOWN	CCDS41811	16508	1236	411	70133180	70209503	1	None	RABIN3
12	RAB3IP	ENSG00000127328	ENST00000552199	nonsense_mediated_decay	KNOWN	None	16508	963	320	70133188	70209503	1	None	RABIN3
12	RAB3IP	ENSG00000127328	ENST00000547591	nonsense_mediated_decay	KNOWN	None	16508	64	20	70149162	70188996	1	None	RABIN3
12	RAB3IP	ENSG00000127328	ENST00000550647	protein_coding	PUTATIVE	None	16508	712	236	70150266	70206614	1	None	RABIN3
12	RAB3IP	ENSG00000127328	ENST00000547055	protein_coding	PUTATIVE	None	16508	276	91	70150303	70178796	1	None	RABIN3
12	RAB3IP	ENSG00000127328	ENST00000551641	protein_coding	KNOWN	CCDS44942	16508	765	254	70172730	70210961	1	None	RABIN3
12	RAB3IP	ENSG00000127328	ENST00000553099	protein_coding	KNOWN	CCDS44942	16508	765	254	70172747	70210897	1	None	RABIN3
12	RAB3IP	ENSG00000127328	ENST00000526994	protein_coding	NOVEL	None	16508	569	188	70189042	70209505	1	None	RABIN3
12	RAB3IP	ENSG00000127328	ENST00000550847	protein_coding	PUTATIVE	None	16508	504	167	70190353	70209330	1	None	RABIN3
12	RAB3IP	ENSG00000127328	ENST00000481897	retained_intron	KNOWN	None	16508	None	None	70205825	70211157	1	None	RABIN3
12	RAB3IP	ENSG00000127328	ENST00000552610	retained_intron	KNOWN	None	16508	None	None	70206491	70209464	1	None	RABIN3
12	RAB3IP	ENSG00000127328	ENST00000325555	protein_coding	KNOWN	CCDS44942	16508	765	254	70132642	70209503	1	None	RABIN3
11	EPS8L2	ENSG00000177106	ENST00000524763	protein_coding	KNOWN	None	21296	316	104	694438	720212	1	None	FLJ21935, FLJ22171, MGC3088
11	EPS8L2	ENSG00000177106	ENST00000527199	protein_coding	KNOWN	None	21296	76	24	705217	709584	1	None	FLJ21935, FLJ22171, MGC3088
11	EPS8L2	ENSG00000177106	ENST00000318562	protein_coding	KNOWN	CCDS31328	21296	2148	715	706113	727727	1	None	FLJ21935, FLJ22171, MGC3088
11	EPS8L2	ENSG00000177106	ENST00000533256	protein_coding	KNOWN	CCDS31328	21296	2148	715	706117	727724	1	None	FLJ21935, FLJ22171, MGC3088
11	EPS8L2	ENSG00000177106	ENST00000534755	protein_coding	KNOWN	None	21296	239	78	706201	720135	1	None	FLJ21935, FLJ22171, MGC3088
11	EPS8L2	ENSG00000177106	ENST00000529346	retained_intron	KNOWN	None	21296	None	None	706203	722302	1	None	FLJ21935, FLJ22171, MGC3088
11	EPS8L2	ENSG00000177106	ENST00000526909	nonsense_mediated_decay	KNOWN	None	21296	108	35	706224	727721	1	None	FLJ21935, FLJ22171, MGC3088
11	EPS8L2	ENSG00000177106	ENST00000529680	retained_intron	KNOWN	None	21296	None	None	706231	709795	1	None	FLJ21935, FLJ22171, MGC3088
11	EPS8L2	ENSG00000177106	ENST00000530093	retained_intron	KNOWN	None	21296	None	None	706231	710482	1	None	FLJ21935, FLJ22171, MGC3088
11	EPS8L2	ENSG00000177106	ENST00000533500	protein_coding	KNOWN	None	21296	251	82	706237	720147	1	None	FLJ21935, FLJ22171, MGC3088
11	EPS8L2	ENSG00000177106	ENST00000527807	retained_intron	KNOWN	None	21296	None	None	706242	720191	1	None	FLJ21935, FLJ22171, MGC3088
11	EPS8L2	ENSG00000177106	ENST00000531348	protein_coding	KNOWN	None	21296	285	94	706595	720181	1	None	FLJ21935, FLJ22171, MGC3088
11	EPS8L2	ENSG00000177106	ENST00000526380	retained_intron	KNOWN	None	21296	None	None	706616	709789	1	None	FLJ21935, FLJ22171, MGC3088
11	EPS8L2	ENSG00000177106	ENST00000530636	protein_coding	KNOWN	CCDS31328	21296	2148	715	706629	727051	1	None	FLJ21935, FLJ22171, MGC3088
11	EPS8L2	ENSG00000177106	ENST00000526198	protein_coding	NOVEL	None	21296	2196	731	709368	727034	1	None	FLJ21935, FLJ22171, MGC3088
11	EPS8L2	ENSG00000177106	ENST00000530118	retained_intron	KNOWN	None	21296	None	None	709560	720899	1	None	FLJ21935, FLJ22171, MGC3088
11	EPS8L2	ENSG00000177106	ENST00000524474	retained_intron	KNOWN	None	21296	None	None	720606	722584	1	None	FLJ21935, FLJ22171, MGC3088
11	EPS8L2	ENSG00000177106	ENST00000531471	retained_intron	KNOWN	None	21296	None	None	720972	721631	1	None	FLJ21935, FLJ22171, MGC3088
11	EPS8L2	ENSG00000177106	ENST00000526651	retained_intron	KNOWN	None	21296	None	None	721019	722500	1	None	FLJ21935, FLJ22171, MGC3088
11	EPS8L2	ENSG00000177106	ENST00000532545	retained_intron	KNOWN	None	21296	None	None	721073	721800	1	None	FLJ21935, FLJ22171, MGC3088
11	EPS8L2	ENSG00000177106	ENST00000528770	nonsense_mediated_decay	KNOWN	None	21296	503	166	721075	727723	1	None	FLJ21935, FLJ22171, MGC3088
11	EPS8L2	ENSG00000177106	ENST00000530452	nonsense_mediated_decay	KNOWN	None	21296	418	138	721085	723345	1	None	FLJ21935, FLJ22171, MGC3088
11	EPS8L2	ENSG00000177106	ENST00000533816	retained_intron	KNOWN	None	21296	None	None	721282	722343	1	None	FLJ21935, FLJ22171, MGC3088
11	EPS8L2	ENSG00000177106	ENST00000531393	retained_intron	KNOWN	None	21296	None	None	721926	727721	1	None	FLJ21935, FLJ22171, MGC3088
11	EPS8L2	ENSG00000177106	ENST00000527832	retained_intron	KNOWN	None	21296	None	None	724562	727722	1	None	FLJ21935, FLJ22171, MGC3088
11	EPS8L2	ENSG00000177106	ENST00000534679	retained_intron	KNOWN	None	21296	None	None	726081	727113	1	None	FLJ21935, FLJ22171, MGC3088
11	EPS8L2	ENSG00000177106	ENST00000534027	retained_intron	KNOWN	None	21296	None	None	726561	727051	1	None	FLJ21935, FLJ22171, MGC3088
11	EPS8L2	ENSG00000177106	ENST00000534449	processed_transcript	PUTATIVE	None	21296	None	None	726627	727722	1	None	FLJ21935, FLJ22171, MGC3088
11	EPS8L2	ENSG00000177106	ENST00000524973	processed_transcript	PUTATIVE	None	21296	None	None	726954	727658	1	None	FLJ21935, FLJ22171, MGC3088
X	UBQLN2	ENSG00000188021	ENST00000338222	protein_coding	KNOWN	CCDS14374	12509	1875	624	56590026	56593443	1	None	Chap1, Dsk2, RIHFB2157, LIC-2, CHAP1/DSK2, PLIC-2, N4BP4, PLIC2
6	ICK	ENSG00000112144	ENST00000350082	protein_coding	KNOWN	CCDS4949	21219	1899	632	52866077	52926568	-1	None	MRK, LCK2, KIAA0936, MGC46090
6	ICK	ENSG00000112144	ENST00000356971	protein_coding	KNOWN	CCDS4949	21219	1899	632	52866109	52926600	-1	None	MRK, LCK2, KIAA0936, MGC46090
4	CHIC2	ENSG00000109220	ENST00000263921	protein_coding	KNOWN	CCDS3493	1935	498	165	54875956	54930857	-1	None	BTL
4	CHIC2	ENSG00000109220	ENST00000512964	protein_coding	NOVEL	None	1935	441	146	54875992	54930467	-1	None	BTL
4	CHIC2	ENSG00000109220	ENST00000510894	protein_coding	NOVEL	None	1935	412	136	54876146	54930465	-1	None	BTL
4	CHIC2	ENSG00000109220	ENST00000509678	retained_intron	KNOWN	None	1935	None	None	54914998	54930475	-1	None	BTL
X	SPIN3	ENSG00000204271	ENST00000475785	nonsense_mediated_decay	KNOWN	None	27272	234	77	57002803	57021970	-1	None	None
X	SPIN3	ENSG00000204271	ENST00000478405	nonsense_mediated_decay	KNOWN	None	27272	234	77	57002815	57021958	-1	None	None
X	SPIN3	ENSG00000204271	ENST00000374919	protein_coding	KNOWN	CCDS43963	27272	777	258	57020604	57021969	-1	None	None
20	ZFP64	ENSG00000020256	ENST00000371518	protein_coding	NOVEL	None	15940	1248	415	50668202	50808318	-1	ZNF338	FLJ10734, dJ831D17.1, FLJ12628, dJ548G19.1
20	ZFP64	ENSG00000020256	ENST00000371523	protein_coding	KNOWN	None	15940	1281	426	50700550	50722183	-1	ZNF338	FLJ10734, dJ831D17.1, FLJ12628, dJ548G19.1
20	ZFP64	ENSG00000020256	ENST00000361387	protein_coding	KNOWN	CCDS13439	15940	1938	645	50700550	50808236	-1	ZNF338	FLJ10734, dJ831D17.1, FLJ12628, dJ548G19.1
20	ZFP64	ENSG00000020256	ENST00000456175	protein_coding	PUTATIVE	None	15940	361	119	50701508	50715005	-1	ZNF338	FLJ10734, dJ831D17.1, FLJ12628, dJ548G19.1
20	ZFP64	ENSG00000020256	ENST00000395989	protein_coding	PUTATIVE	None	15940	663	220	50701780	50721462	-1	ZNF338	FLJ10734, dJ831D17.1, FLJ12628, dJ548G19.1
20	ZFP64	ENSG00000020256	ENST00000467811	processed_transcript	PUTATIVE	None	15940	None	None	50704804	50715126	-1	ZNF338	FLJ10734, dJ831D17.1, FLJ12628, dJ548G19.1
20	ZFP64	ENSG00000020256	ENST00000477786	processed_transcript	KNOWN	None	15940	None	None	50705499	50792576	-1	ZNF338	FLJ10734, dJ831D17.1, FLJ12628, dJ548G19.1
20	ZFP64	ENSG00000020256	ENST00000395979	protein_coding	PUTATIVE	None	15940	396	131	50713347	50721389	-1	ZNF338	FLJ10734, dJ831D17.1, FLJ12628, dJ548G19.1
20	ZFP64	ENSG00000020256	ENST00000346617	protein_coding	KNOWN	CCDS13441	15940	1884	627	50767817	50808299	-1	ZNF338	FLJ10734, dJ831D17.1, FLJ12628, dJ548G19.1
20	ZFP64	ENSG00000020256	ENST00000371515	protein_coding	KNOWN	CCDS13442	15940	2040	679	50767817	50808307	-1	ZNF338	FLJ10734, dJ831D17.1, FLJ12628, dJ548G19.1
20	ZFP64	ENSG00000020256	ENST00000216923	protein_coding	KNOWN	CCDS13440	15940	2046	681	50767817	50808525	-1	ZNF338	FLJ10734, dJ831D17.1, FLJ12628, dJ548G19.1
20	ZFP64	ENSG00000020256	ENST00000461898	processed_transcript	KNOWN	None	15940	None	None	50776800	50820847	-1	ZNF338	FLJ10734, dJ831D17.1, FLJ12628, dJ548G19.1
18	NEDD4L	ENSG00000049759	ENST00000356462	protein_coding	KNOWN	CCDS58632	7728	2736	911	55711599	56063806	1	None	KIAA0439, RSP5, NEDD4-2
18	NEDD4L	ENSG00000049759	ENST00000400345	protein_coding	KNOWN	CCDS45872	7728	2928	975	55711610	56063937	1	None	KIAA0439, RSP5, NEDD4-2
18	NEDD4L	ENSG00000049759	ENST00000589054	protein_coding	NOVEL	None	7728	321	106	55711616	56063936	1	None	KIAA0439, RSP5, NEDD4-2
18	NEDD4L	ENSG00000049759	ENST00000382850	protein_coding	KNOWN	CCDS45873	7728	2868	955	55711780	56068771	1	None	KIAA0439, RSP5, NEDD4-2
18	NEDD4L	ENSG00000049759	ENST00000256830	protein_coding	NOVEL	None	7728	2616	871	55711893	56063805	1	None	KIAA0439, RSP5, NEDD4-2
18	NEDD4L	ENSG00000049759	ENST00000590694	processed_transcript	KNOWN	None	7728	None	None	55712757	55833093	1	None	KIAA0439, RSP5, NEDD4-2
18	NEDD4L	ENSG00000049759	ENST00000591989	processed_transcript	KNOWN	None	7728	None	None	55712921	55912721	1	None	KIAA0439, RSP5, NEDD4-2
18	NEDD4L	ENSG00000049759	ENST00000591579	processed_transcript	KNOWN	None	7728	None	None	55712929	55833071	1	None	KIAA0439, RSP5, NEDD4-2
18	NEDD4L	ENSG00000049759	ENST00000592846	protein_coding	KNOWN	None	7728	32	9	55712939	55989703	1	None	KIAA0439, RSP5, NEDD4-2
18	NEDD4L	ENSG00000049759	ENST00000585363	processed_transcript	KNOWN	None	7728	None	None	55713166	55912740	1	None	KIAA0439, RSP5, NEDD4-2
18	NEDD4L	ENSG00000049759	ENST00000588516	processed_transcript	KNOWN	None	7728	None	None	55713595	55912740	1	None	KIAA0439, RSP5, NEDD4-2
18	NEDD4L	ENSG00000049759	ENST00000585594	processed_transcript	KNOWN	None	7728	None	None	55721941	55833071	1	None	KIAA0439, RSP5, NEDD4-2
18	NEDD4L	ENSG00000049759	ENST00000587547	processed_transcript	KNOWN	None	7728	None	None	55758023	55833071	1	None	KIAA0439, RSP5, NEDD4-2
18	NEDD4L	ENSG00000049759	ENST00000435432	protein_coding	KNOWN	CCDS45876	7728	2505	834	55816565	56063783	1	None	KIAA0439, RSP5, NEDD4-2
18	NEDD4L	ENSG00000049759	ENST00000357895	protein_coding	KNOWN	CCDS45874	7728	2904	967	55816565	56063937	1	None	KIAA0439, RSP5, NEDD4-2
18	NEDD4L	ENSG00000049759	ENST00000586263	protein_coding	KNOWN	CCDS59323	7728	2844	947	55816569	56063805	1	None	KIAA0439, RSP5, NEDD4-2
18	NEDD4L	ENSG00000049759	ENST00000456173	protein_coding	KNOWN	CCDS45876	7728	2505	834	55862622	56065389	1	None	KIAA0439, RSP5, NEDD4-2
18	NEDD4L	ENSG00000049759	ENST00000588494	protein_coding	KNOWN	None	7728	105	34	55862885	55990521	1	None	KIAA0439, RSP5, NEDD4-2
18	NEDD4L	ENSG00000049759	ENST00000588066	processed_transcript	KNOWN	None	7728	None	None	55865001	55992314	1	None	KIAA0439, RSP5, NEDD4-2
18	NEDD4L	ENSG00000049759	ENST00000431212	protein_coding	KNOWN	CCDS45875	7728	2565	854	55888767	56063810	1	None	KIAA0439, RSP5, NEDD4-2
18	NEDD4L	ENSG00000049759	ENST00000586268	protein_coding	KNOWN	None	7728	450	149	55888800	55996359	1	None	KIAA0439, RSP5, NEDD4-2
18	NEDD4L	ENSG00000049759	ENST00000587190	protein_coding	KNOWN	None	7728	47	14	55888803	55989718	1	None	KIAA0439, RSP5, NEDD4-2
18	NEDD4L	ENSG00000049759	ENST00000585323	processed_transcript	KNOWN	None	7728	None	None	55888863	55983233	1	None	KIAA0439, RSP5, NEDD4-2
18	NEDD4L	ENSG00000049759	ENST00000587634	processed_transcript	KNOWN	None	7728	None	None	55914513	55990541	1	None	KIAA0439, RSP5, NEDD4-2
18	NEDD4L	ENSG00000049759	ENST00000592601	processed_transcript	KNOWN	None	7728	None	None	55981787	55996359	1	None	KIAA0439, RSP5, NEDD4-2
18	NEDD4L	ENSG00000049759	ENST00000590020	retained_intron	KNOWN	None	7728	None	None	55990537	56001252	1	None	KIAA0439, RSP5, NEDD4-2
18	NEDD4L	ENSG00000049759	ENST00000587881	protein_coding	NOVEL	None	7728	1920	639	55990552	56063565	1	None	KIAA0439, RSP5, NEDD4-2
18	NEDD4L	ENSG00000049759	ENST00000589167	retained_intron	KNOWN	None	7728	None	None	55998083	56003324	1	None	KIAA0439, RSP5, NEDD4-2
18	NEDD4L	ENSG00000049759	ENST00000590638	retained_intron	KNOWN	None	7728	None	None	56008191	56033305	1	None	KIAA0439, RSP5, NEDD4-2
18	NEDD4L	ENSG00000049759	ENST00000585970	processed_transcript	KNOWN	None	7728	None	None	56027103	56033463	1	None	KIAA0439, RSP5, NEDD4-2
18	NEDD4L	ENSG00000049759	ENST00000587246	processed_transcript	KNOWN	None	7728	None	None	56033829	56040487	1	None	KIAA0439, RSP5, NEDD4-2
18	NEDD4L	ENSG00000049759	ENST00000592097	retained_intron	KNOWN	None	7728	None	None	56040343	56058741	1	None	KIAA0439, RSP5, NEDD4-2
18	NEDD4L	ENSG00000049759	ENST00000590248	retained_intron	KNOWN	None	7728	None	None	56040402	56056751	1	None	KIAA0439, RSP5, NEDD4-2
18	NEDD4L	ENSG00000049759	ENST00000588712	retained_intron	KNOWN	None	7728	None	None	56054943	56063812	1	None	KIAA0439, RSP5, NEDD4-2
18	NEDD4L	ENSG00000049759	ENST00000590506	retained_intron	KNOWN	None	7728	None	None	56057296	56065389	1	None	KIAA0439, RSP5, NEDD4-2
18	NEDD4L	ENSG00000049759	ENST00000256832	protein_coding	KNOWN	None	7728	2508	835	55711619	56068772	1	None	KIAA0439, RSP5, NEDD4-2
18	NEDD4L	ENSG00000049759	ENST00000456986	protein_coding	KNOWN	CCDS45875	7728	2565	854	55714458	56068772	1	None	KIAA0439, RSP5, NEDD4-2
X	SPIN2B	ENSG00000186787	ENST00000460948	processed_transcript	KNOWN	None	33147	None	None	57144984	57147023	-1	None	SPIN-2
X	SPIN2B	ENSG00000186787	ENST00000374910	protein_coding	KNOWN	None	33147	474	157	57146115	57147748	-1	None	SPIN-2
X	SPIN2B	ENSG00000186787	ENST00000275988	protein_coding	KNOWN	CCDS35311	33147	777	258	57146115	57147924	-1	None	SPIN-2
X	SPIN2B	ENSG00000186787	ENST00000374912	protein_coding	KNOWN	CCDS35311	33147	777	258	57146115	57147980	-1	None	SPIN-2
X	SPIN2B	ENSG00000186787	ENST00000434397	protein_coding	KNOWN	None	33147	742	246	57146321	57147976	-1	None	SPIN-2
X	SPIN2B	ENSG00000186787	ENST00000333933	protein_coding	KNOWN	CCDS35311	33147	777	258	57146116	57147979	-1	None	SPIN-2
3	ACKR4	ENSG00000129048	ENST00000249887	protein_coding	KNOWN	CCDS3075	1611	1053	350	132316081	132321059	1	CCRL1	CCR11, CCBP2, VSHK1, CCX-CKR, PPR1
3	ACKR4	ENSG00000129048	ENST00000509820	nonsense_mediated_decay	KNOWN	None	1611	63	20	132320232	132337811	1	CCRL1	CCR11, CCBP2, VSHK1, CCX-CKR, PPR1
21	AGPAT3	ENSG00000160216	ENST00000291572	protein_coding	KNOWN	CCDS13703	326	1131	376	45285067	45406417	1	None	LPAAT-gamma
21	AGPAT3	ENSG00000160216	ENST00000474735	processed_transcript	KNOWN	None	326	None	None	45286500	45287627	1	None	LPAAT-gamma
21	AGPAT3	ENSG00000160216	ENST00000448287	protein_coding	KNOWN	None	326	238	78	45287123	45387886	1	None	LPAAT-gamma
21	AGPAT3	ENSG00000160216	ENST00000398061	protein_coding	KNOWN	CCDS13703	326	1131	376	45302425	45404554	1	None	LPAAT-gamma
21	AGPAT3	ENSG00000160216	ENST00000327505	protein_coding	KNOWN	CCDS13703	326	1131	376	45323772	45404554	1	None	LPAAT-gamma
21	AGPAT3	ENSG00000160216	ENST00000445582	protein_coding	KNOWN	None	326	384	127	45336153	45389034	1	None	LPAAT-gamma
21	AGPAT3	ENSG00000160216	ENST00000398063	protein_coding	KNOWN	CCDS13703	326	1131	376	45344889	45406417	1	None	LPAAT-gamma
21	AGPAT3	ENSG00000160216	ENST00000398058	protein_coding	KNOWN	CCDS13703	326	1131	376	45366811	45404554	1	None	LPAAT-gamma
21	AGPAT3	ENSG00000160216	ENST00000457068	protein_coding	KNOWN	None	326	767	254	45366831	45391371	1	None	LPAAT-gamma
21	AGPAT3	ENSG00000160216	ENST00000448845	protein_coding	KNOWN	None	326	115	37	45366887	45379677	1	None	LPAAT-gamma
21	AGPAT3	ENSG00000160216	ENST00000498670	processed_transcript	KNOWN	None	326	None	None	45366891	45374983	1	None	LPAAT-gamma
21	AGPAT3	ENSG00000160216	ENST00000422850	protein_coding	KNOWN	None	326	767	254	45370568	45391371	1	None	LPAAT-gamma
21	AGPAT3	ENSG00000160216	ENST00000497909	processed_transcript	KNOWN	None	326	None	None	45370594	45375041	1	None	LPAAT-gamma
21	AGPAT3	ENSG00000160216	ENST00000479117	processed_transcript	KNOWN	None	326	None	None	45379664	45402605	1	None	LPAAT-gamma
21	AGPAT3	ENSG00000160216	ENST00000481319	processed_transcript	KNOWN	None	326	None	None	45379670	45389148	1	None	LPAAT-gamma
21	AGPAT3	ENSG00000160216	ENST00000467358	retained_intron	KNOWN	None	326	None	None	45384810	45402258	1	None	LPAAT-gamma
21	AGPAT3	ENSG00000160216	ENST00000484865	retained_intron	KNOWN	None	326	None	None	45391284	45401293	1	None	LPAAT-gamma
21	AGPAT3	ENSG00000160216	ENST00000546158	protein_coding	KNOWN	CCDS13703	326	1131	376	45374429	45402598	1	None	LPAAT-gamma
1	ATP2B4	ENSG00000058668	ENST00000357681	protein_coding	KNOWN	CCDS1440	817	3618	1205	203595689	203713209	1	ATP2B2, MXRA1	PMCA4
1	ATP2B4	ENSG00000058668	ENST00000341360	protein_coding	KNOWN	CCDS30977	817	3513	1170	203651937	203709447	1	ATP2B2, MXRA1	PMCA4
1	ATP2B4	ENSG00000058668	ENST00000458092	protein_coding	KNOWN	None	817	353	116	203693025	203697438	1	ATP2B2, MXRA1	PMCA4
1	ATP2B4	ENSG00000058668	ENST00000466407	processed_transcript	KNOWN	None	817	None	None	203693089	203696882	1	ATP2B2, MXRA1	PMCA4
1	ATP2B4	ENSG00000058668	ENST00000356729	protein_coding	KNOWN	None	817	389	128	203693091	203702760	1	ATP2B2, MXRA1	PMCA4
1	ATP2B4	ENSG00000058668	ENST00000484746	nonsense_mediated_decay	KNOWN	None	817	308	101	203696596	203713208	1	ATP2B2, MXRA1	PMCA4
1	ATP2B4	ENSG00000058668	ENST00000367218	protein_coding	KNOWN	CCDS30977	817	3513	1170	203595928	203713207	1	ATP2B2, MXRA1	PMCA4
1	ATP2B4	ENSG00000058668	ENST00000367219	protein_coding	KNOWN	None	817	3477	1158	203595928	203713207	1	ATP2B2, MXRA1	PMCA4
1	ATP2B4	ENSG00000058668	ENST00000391954	protein_coding	KNOWN	None	817	3405	1134	203595928	203713207	1	ATP2B2, MXRA1	PMCA4
4	LETM1	ENSG00000168924	ENST00000302787	protein_coding	KNOWN	CCDS3355	6556	2220	739	1813206	1857974	-1	None	None
4	LETM1	ENSG00000168924	ENST00000510940	retained_intron	KNOWN	None	6556	None	None	1821099	1824369	-1	None	None
4	LETM1	ENSG00000168924	ENST00000511977	retained_intron	KNOWN	None	6556	None	None	1824501	1834606	-1	None	None
4	LETM1	ENSG00000168924	ENST00000505551	retained_intron	KNOWN	None	6556	None	None	1834801	1844938	-1	None	None
4	LETM1	ENSG00000168924	ENST00000466175	retained_intron	KNOWN	None	6556	None	None	1835827	1857682	-1	None	None
4	LETM1	ENSG00000168924	ENST00000512669	retained_intron	KNOWN	None	6556	None	None	1835933	1841069	-1	None	None
4	LETM1	ENSG00000168924	ENST00000512189	processed_transcript	KNOWN	None	6556	None	None	1848201	1857698	-1	None	None
12	C1S	ENSG00000182326	ENST00000406697	protein_coding	KNOWN	CCDS31735	1247	2067	688	7096351	7178336	1	None	None
12	C1S	ENSG00000182326	ENST00000328916	protein_coding	KNOWN	CCDS31735	1247	2067	688	7167819	7178336	1	None	None
12	C1S	ENSG00000182326	ENST00000360817	protein_coding	KNOWN	CCDS31735	1247	2067	688	7167980	7178247	1	None	None
12	C1S	ENSG00000182326	ENST00000402681	protein_coding	NOVEL	None	1247	1566	521	7167989	7178264	1	None	None
12	C1S	ENSG00000182326	ENST00000489541	retained_intron	KNOWN	None	1247	None	None	7168021	7169532	1	None	None
12	C1S	ENSG00000182326	ENST00000541647	processed_transcript	KNOWN	None	1247	None	None	7168027	7172482	1	None	None
12	C1S	ENSG00000182326	ENST00000543187	processed_transcript	PUTATIVE	None	1247	None	None	7168029	7170112	1	None	None
12	C1S	ENSG00000182326	ENST00000488701	retained_intron	KNOWN	None	1247	None	None	7168048	7170112	1	None	None
12	C1S	ENSG00000182326	ENST00000423384	protein_coding	KNOWN	None	1247	302	99	7168516	7170282	1	None	None
12	C1S	ENSG00000182326	ENST00000413211	protein_coding	KNOWN	None	1247	309	102	7168516	7170289	1	None	None
12	C1S	ENSG00000182326	ENST00000403949	protein_coding	KNOWN	None	1247	505	167	7168688	7171684	1	None	None
12	C1S	ENSG00000182326	ENST00000443875	nonsense_mediated_decay	KNOWN	None	1247	1067	354	7169143	7178334	1	None	None
12	C1S	ENSG00000182326	ENST00000542978	protein_coding	NOVEL	None	1247	471	156	7169887	7173922	1	None	None
12	C1S	ENSG00000182326	ENST00000495053	retained_intron	KNOWN	None	1247	None	None	7171213	7173202	1	None	None
12	C1S	ENSG00000182326	ENST00000463798	retained_intron	KNOWN	None	1247	None	None	7171482	7172716	1	None	None
12	C1S	ENSG00000182326	ENST00000473545	retained_intron	KNOWN	None	1247	None	None	7172544	7173617	1	None	None
12	C1S	ENSG00000182326	ENST00000470326	retained_intron	KNOWN	None	1247	None	None	7173496	7174966	1	None	None
12	C1S	ENSG00000182326	ENST00000461983	retained_intron	KNOWN	None	1247	None	None	7173935	7177417	1	None	None
12	C1S	ENSG00000182326	ENST00000495061	processed_transcript	KNOWN	None	1247	None	None	7174395	7177544	1	None	None
12	C1S	ENSG00000182326	ENST00000497061	retained_intron	KNOWN	None	1247	None	None	7174699	7175834	1	None	None
7	CBLL1	ENSG00000105879	ENST00000440859	protein_coding	KNOWN	CCDS5747	21225	1476	491	107384142	107400029	1	None	HAKAI, FLJ23109, RNF188
7	CBLL1	ENSG00000105879	ENST00000479443	retained_intron	KNOWN	None	21225	None	None	107384394	107389761	1	None	HAKAI, FLJ23109, RNF188
7	CBLL1	ENSG00000105879	ENST00000432748	nonsense_mediated_decay	KNOWN	None	21225	204	67	107384587	107398625	1	None	HAKAI, FLJ23109, RNF188
7	CBLL1	ENSG00000105879	ENST00000222597	protein_coding	NOVEL	None	21225	1473	490	107384587	107400131	1	None	HAKAI, FLJ23109, RNF188
7	CBLL1	ENSG00000105879	ENST00000493361	retained_intron	KNOWN	None	21225	None	None	107384590	107394628	1	None	HAKAI, FLJ23109, RNF188
7	CBLL1	ENSG00000105879	ENST00000487517	retained_intron	KNOWN	None	21225	None	None	107384590	107396037	1	None	HAKAI, FLJ23109, RNF188
7	CBLL1	ENSG00000105879	ENST00000415884	protein_coding	PUTATIVE	None	21225	372	123	107384600	107399016	1	None	HAKAI, FLJ23109, RNF188
7	CBLL1	ENSG00000105879	ENST00000420796	protein_coding	PUTATIVE	None	21225	968	321	107384882	107399265	1	None	HAKAI, FLJ23109, RNF188
4	HELQ	ENSG00000163312	ENST00000508591	nonsense_mediated_decay	KNOWN	None	18536	1470	489	84328496	84376957	-1	None	Hel308
4	HELQ	ENSG00000163312	ENST00000295488	protein_coding	KNOWN	CCDS3603	18536	3306	1101	84328496	84377009	-1	None	Hel308
4	HELQ	ENSG00000163312	ENST00000512539	processed_transcript	KNOWN	None	18536	None	None	84328520	84348879	-1	None	Hel308
4	HELQ	ENSG00000163312	ENST00000510985	protein_coding	NOVEL	None	18536	3105	1034	84328526	84376976	-1	None	Hel308
4	HELQ	ENSG00000163312	ENST00000515482	processed_transcript	PUTATIVE	None	18536	None	None	84374873	84377008	-1	None	Hel308
4	HELQ	ENSG00000163312	ENST00000440639	processed_transcript	PUTATIVE	None	18536	None	None	84374910	84376976	-1	None	Hel308
X	SPIN2A	ENSG00000147059	ENST00000374908	protein_coding	KNOWN	CCDS35312	20694	777	258	57160963	57163430	-1	SPIN2	DXF34
X	SPIN2A	ENSG00000147059	ENST00000374906	protein_coding	KNOWN	CCDS35312	20694	777	258	57162083	57164058	-1	SPIN2	DXF34
2	UBR3	ENSG00000144357	ENST00000272793	protein_coding	KNOWN	None	30467	5667	1888	170683968	170940641	1	ZNF650	KIAA2024, DKFZp434P117, FLJ37422
2	UBR3	ENSG00000144357	ENST00000430321	nonsense_mediated_decay	KNOWN	None	30467	1153	383	170785371	170940641	1	ZNF650	KIAA2024, DKFZp434P117, FLJ37422
2	UBR3	ENSG00000144357	ENST00000392632	protein_coding	NOVEL	None	30467	2852	949	170802820	170940630	1	ZNF650	KIAA2024, DKFZp434P117, FLJ37422
2	UBR3	ENSG00000144357	ENST00000477461	retained_intron	KNOWN	None	30467	None	None	170803919	170806402	1	ZNF650	KIAA2024, DKFZp434P117, FLJ37422
2	UBR3	ENSG00000144357	ENST00000487689	retained_intron	KNOWN	None	30467	None	None	170805992	170815031	1	ZNF650	KIAA2024, DKFZp434P117, FLJ37422
2	UBR3	ENSG00000144357	ENST00000439681	protein_coding	NOVEL	None	30467	1767	588	170857883	170938769	1	ZNF650	KIAA2024, DKFZp434P117, FLJ37422
2	UBR3	ENSG00000144357	ENST00000444475	nonsense_mediated_decay	KNOWN	None	30467	234	77	170865350	170940641	1	ZNF650	KIAA2024, DKFZp434P117, FLJ37422
2	UBR3	ENSG00000144357	ENST00000465630	processed_transcript	KNOWN	None	30467	None	None	170870550	170885945	1	ZNF650	KIAA2024, DKFZp434P117, FLJ37422
2	UBR3	ENSG00000144357	ENST00000474426	retained_intron	KNOWN	None	30467	None	None	170871313	170940641	1	ZNF650	KIAA2024, DKFZp434P117, FLJ37422
2	UBR3	ENSG00000144357	ENST00000484596	retained_intron	KNOWN	None	30467	None	None	170936534	170938365	1	ZNF650	KIAA2024, DKFZp434P117, FLJ37422
2	UBR3	ENSG00000144357	ENST00000418381	protein_coding	KNOWN	CCDS2238	30467	5667	1888	170684018	170940637	1	ZNF650	KIAA2024, DKFZp434P117, FLJ37422
2	UBR3	ENSG00000144357	ENST00000392631	protein_coding	KNOWN	None	30467	2130	709	170821380	170940637	1	ZNF650	KIAA2024, DKFZp434P117, FLJ37422
19	TRIP10	ENSG00000125733	ENST00000600428	protein_coding	PUTATIVE	None	12304	1314	437	6737936	6751511	1	STOT	STP, HSTP, CIP4
19	TRIP10	ENSG00000125733	ENST00000596543	processed_transcript	KNOWN	None	12304	None	None	6739043	6743092	1	STOT	STP, HSTP, CIP4
19	TRIP10	ENSG00000125733	ENST00000313285	protein_coding	KNOWN	CCDS12172	12304	1638	545	6739691	6751537	1	STOT	STP, HSTP, CIP4
19	TRIP10	ENSG00000125733	ENST00000600677	nonsense_mediated_decay	KNOWN	None	12304	1032	343	6739725	6751520	1	STOT	STP, HSTP, CIP4
19	TRIP10	ENSG00000125733	ENST00000313244	protein_coding	KNOWN	None	12304	1806	601	6739738	6751534	1	STOT	STP, HSTP, CIP4
19	TRIP10	ENSG00000125733	ENST00000595305	retained_intron	KNOWN	None	12304	None	None	6739738	6751537	1	STOT	STP, HSTP, CIP4
19	TRIP10	ENSG00000125733	ENST00000596758	protein_coding	KNOWN	None	12304	1782	593	6739773	6751475	1	STOT	STP, HSTP, CIP4
19	TRIP10	ENSG00000125733	ENST00000600491	retained_intron	KNOWN	None	12304	None	None	6740694	6745211	1	STOT	STP, HSTP, CIP4
19	TRIP10	ENSG00000125733	ENST00000596078	retained_intron	KNOWN	None	12304	None	None	6740920	6743901	1	STOT	STP, HSTP, CIP4
19	TRIP10	ENSG00000125733	ENST00000596673	protein_coding	PUTATIVE	None	12304	251	82	6740929	6743780	1	STOT	STP, HSTP, CIP4
19	TRIP10	ENSG00000125733	ENST00000595319	retained_intron	KNOWN	None	12304	None	None	6740955	6743840	1	STOT	STP, HSTP, CIP4
19	TRIP10	ENSG00000125733	ENST00000601303	processed_transcript	KNOWN	None	12304	None	None	6741236	6743423	1	STOT	STP, HSTP, CIP4
19	TRIP10	ENSG00000125733	ENST00000598843	retained_intron	KNOWN	None	12304	None	None	6746319	6750384	1	STOT	STP, HSTP, CIP4
12	None	ENSG00000258365	ENST00000551941	protein_coding	PUTATIVE	None	None	300	99	94671534	94673956	-1	None	None
12	None	ENSG00000258365	ENST00000547927	processed_transcript	PUTATIVE	None	None	None	None	94673595	94676620	-1	None	None
4	None	ENSG00000238536	ENST00000459186	snoRNA	NOVEL	None	None	None	None	17530560	17530663	1	None	None
4	None	ENSG00000249488	ENST00000509863	processed_pseudogene	KNOWN	None	None	None	None	17553740	17554375	-1	None	None
19	MED29	ENSG00000063322	ENST00000599417	nonsense_mediated_decay	KNOWN	None	23074	291	96	39881943	39890616	1	IXL	DKFZp434H247
19	MED29	ENSG00000063322	ENST00000315588	protein_coding	KNOWN	CCDS33021	23074	666	221	39881951	39891277	1	IXL	DKFZp434H247
19	MED29	ENSG00000063322	ENST00000600973	nonsense_mediated_decay	KNOWN	None	23074	345	114	39882028	39884277	1	IXL	DKFZp434H247
19	MED29	ENSG00000063322	ENST00000594368	protein_coding	PUTATIVE	None	23074	591	196	39882033	39889247	1	IXL	DKFZp434H247
19	MED29	ENSG00000063322	ENST00000599213	protein_coding	KNOWN	None	23074	603	200	39882036	39890199	1	IXL	DKFZp434H247
19	MED29	ENSG00000063322	ENST00000596297	protein_coding	NOVEL	None	23074	625	207	39882052	39888338	1	IXL	DKFZp434H247
X	FAAH2	ENSG00000165591	ENST00000374900	protein_coding	KNOWN	CCDS14375	26440	1599	532	57313139	57515629	1	AMDD	RP11-479E16.1, FLJ31204, FAAH-2
X	FAAH2	ENSG00000165591	ENST00000491179	processed_transcript	KNOWN	None	26440	None	None	57458396	57515626	1	AMDD	RP11-479E16.1, FLJ31204, FAAH-2
X	FAAH2	ENSG00000165591	ENST00000465623	processed_transcript	KNOWN	None	26440	None	None	57458431	57478599	1	AMDD	RP11-479E16.1, FLJ31204, FAAH-2
4	None	ENSG00000249502	ENST00000511010	antisense	KNOWN	None	None	None	None	17589090	17616194	-1	None	None
4	RN7SL315P	ENSG00000265011	ENST00000580348	misc_RNA	KNOWN	None	46331	None	None	17596691	17596959	-1	None	None
4	None	ENSG00000254360	ENST00000499786	antisense	KNOWN	None	None	None	None	17632547	17634062	1	None	None
4	KRT18P63	ENSG00000235413	ENST00000505463	processed_pseudogene	KNOWN	None	48890	None	None	17913297	17914599	1	None	None
20	TSHZ2	ENSG00000182463	ENST00000371497	protein_coding	KNOWN	CCDS33490	13010	3105	1034	51588946	52111869	1	C20orf17, ZNF218	ZABC2, OVC10-2, TSH2
20	TSHZ2	ENSG00000182463	ENST00000603338	protein_coding	KNOWN	CCDS54474	13010	3096	1031	51801822	52104018	1	C20orf17, ZNF218	ZABC2, OVC10-2, TSH2
20	TSHZ2	ENSG00000182463	ENST00000605656	nonsense_mediated_decay	KNOWN	None	13010	585	194	51872518	52107602	1	C20orf17, ZNF218	ZABC2, OVC10-2, TSH2
20	TSHZ2	ENSG00000182463	ENST00000329613	protein_coding	KNOWN	CCDS54474	13010	3096	1031	51801834	51873111	1	C20orf17, ZNF218	ZABC2, OVC10-2, TSH2
4	None	ENSG00000251048	ENST00000503815	lincRNA	KNOWN	None	None	None	None	18489685	18491131	-1	None	None
12	KLRD1	ENSG00000134539	ENST00000544747	protein_coding	KNOWN	None	6378	418	138	10378657	10467418	1	CD94	None
12	KLRD1	ENSG00000134539	ENST00000540271	retained_intron	KNOWN	None	6378	None	None	10378665	10467608	1	CD94	None
12	KLRD1	ENSG00000134539	ENST00000381907	protein_coding	KNOWN	CCDS8621	6378	540	179	10457045	10468738	1	CD94	None
12	KLRD1	ENSG00000134539	ENST00000538997	processed_transcript	KNOWN	None	6378	None	None	10460544	10464282	1	CD94	None
12	KLRD1	ENSG00000134539	ENST00000543420	protein_coding	PUTATIVE	None	6378	321	106	10460549	10467576	1	CD94	None
12	KLRD1	ENSG00000134539	ENST00000543777	protein_coding	PUTATIVE	None	6378	477	158	10460549	10467576	1	CD94	None
12	KLRD1	ENSG00000134539	ENST00000344825	nonsense_mediated_decay	KNOWN	None	6378	219	72	10460549	10467576	1	CD94	None
12	KLRD1	ENSG00000134539	ENST00000539374	nonsense_mediated_decay	KNOWN	None	6378	321	106	10460649	10467417	1	CD94	None
12	KLRD1	ENSG00000134539	ENST00000539792	protein_coding	KNOWN	None	6378	156	51	10466093	10468236	1	CD94	None
12	KLRD1	ENSG00000134539	ENST00000381908	protein_coding	KNOWN	None	6378	543	180	10460417	10469850	1	CD94	None
12	KLRD1	ENSG00000134539	ENST00000336164	protein_coding	KNOWN	CCDS8621	6378	540	179	10460417	10469850	1	CD94	None
12	KLRD1	ENSG00000134539	ENST00000350274	protein_coding	KNOWN	CCDS8622	6378	447	148	10460417	10469850	1	CD94	None
4	None	ENSG00000248238	ENST00000505347	lincRNA	KNOWN	None	None	None	None	19173958	19458617	-1	None	None
17	FLII	ENSG00000177731	ENST00000581858	nonsense_mediated_decay	KNOWN	None	3750	71	22	18148150	18149282	-1	None	FLI, FLIL, Fli1, MGC39265
17	FLII	ENSG00000177731	ENST00000577398	protein_coding	PUTATIVE	None	3750	624	207	18148150	18149376	-1	None	FLI, FLIL, Fli1, MGC39265
17	FLII	ENSG00000177731	ENST00000578558	protein_coding	NOVEL	None	3750	2103	700	18148150	18162040	-1	None	FLI, FLIL, Fli1, MGC39265
17	FLII	ENSG00000177731	ENST00000327031	protein_coding	KNOWN	CCDS11192	3750	3810	1269	18148150	18162230	-1	None	FLI, FLIL, Fli1, MGC39265
17	FLII	ENSG00000177731	ENST00000545457	protein_coding	NOVEL	CCDS58522	3750	3645	1214	18148155	18162037	-1	None	FLI, FLIL, Fli1, MGC39265
17	FLII	ENSG00000177731	ENST00000578101	nonsense_mediated_decay	KNOWN	None	3750	156	51	18148236	18162019	-1	None	FLI, FLIL, Fli1, MGC39265
17	FLII	ENSG00000177731	ENST00000579294	protein_coding	NOVEL	CCDS58521	3750	3777	1258	18148373	18161870	-1	None	FLI, FLIL, Fli1, MGC39265
17	FLII	ENSG00000177731	ENST00000465046	retained_intron	KNOWN	None	3750	None	None	18148543	18149322	-1	None	FLI, FLIL, Fli1, MGC39265
17	FLII	ENSG00000177731	ENST00000493600	retained_intron	KNOWN	None	3750	None	None	18148544	18149514	-1	None	FLI, FLIL, Fli1, MGC39265
17	FLII	ENSG00000177731	ENST00000487693	retained_intron	KNOWN	None	3750	None	None	18148544	18149529	-1	None	FLI, FLIL, Fli1, MGC39265
17	FLII	ENSG00000177731	ENST00000487369	retained_intron	KNOWN	None	3750	None	None	18148552	18149320	-1	None	FLI, FLIL, Fli1, MGC39265
17	FLII	ENSG00000177731	ENST00000474265	retained_intron	KNOWN	None	3750	None	None	18148552	18149628	-1	None	FLI, FLIL, Fli1, MGC39265
17	FLII	ENSG00000177731	ENST00000577485	protein_coding	PUTATIVE	None	3750	555	184	18148665	18157965	-1	None	FLI, FLIL, Fli1, MGC39265
17	FLII	ENSG00000177731	ENST00000493401	retained_intron	KNOWN	None	3750	None	None	18148668	18149536	-1	None	FLI, FLIL, Fli1, MGC39265
17	FLII	ENSG00000177731	ENST00000580966	retained_intron	KNOWN	None	3750	None	None	18149425	18150069	-1	None	FLI, FLIL, Fli1, MGC39265
17	FLII	ENSG00000177731	ENST00000580453	retained_intron	KNOWN	None	3750	None	None	18149467	18150439	-1	None	FLI, FLIL, Fli1, MGC39265
17	FLII	ENSG00000177731	ENST00000459958	retained_intron	KNOWN	None	3750	None	None	18149859	18150750	-1	None	FLI, FLIL, Fli1, MGC39265
17	FLII	ENSG00000177731	ENST00000577402	retained_intron	KNOWN	None	3750	None	None	18150490	18152073	-1	None	FLI, FLIL, Fli1, MGC39265
17	FLII	ENSG00000177731	ENST00000496727	retained_intron	KNOWN	None	3750	None	None	18152441	18154785	-1	None	FLI, FLIL, Fli1, MGC39265
17	FLII	ENSG00000177731	ENST00000488221	retained_intron	KNOWN	None	3750	None	None	18154701	18157012	-1	None	FLI, FLIL, Fli1, MGC39265
17	FLII	ENSG00000177731	ENST00000488932	protein_coding	PUTATIVE	None	3750	838	278	18155370	18158535	-1	None	FLI, FLIL, Fli1, MGC39265
17	FLII	ENSG00000177731	ENST00000461110	retained_intron	KNOWN	None	3750	None	None	18155429	18157952	-1	None	FLI, FLIL, Fli1, MGC39265
17	FLII	ENSG00000177731	ENST00000577626	nonsense_mediated_decay	KNOWN	None	3750	354	117	18155807	18157944	-1	None	FLI, FLIL, Fli1, MGC39265
17	FLII	ENSG00000177731	ENST00000584444	processed_transcript	KNOWN	None	3750	None	None	18156671	18162005	-1	None	FLI, FLIL, Fli1, MGC39265
17	FLII	ENSG00000177731	ENST00000581401	nonsense_mediated_decay	KNOWN	None	3750	90	29	18156741	18157911	-1	None	FLI, FLIL, Fli1, MGC39265
17	FLII	ENSG00000177731	ENST00000478416	retained_intron	KNOWN	None	3750	None	None	18157201	18162011	-1	None	FLI, FLIL, Fli1, MGC39265
17	FLII	ENSG00000177731	ENST00000581349	protein_coding	PUTATIVE	None	3750	399	132	18157918	18160590	-1	None	FLI, FLIL, Fli1, MGC39265
17	FLII	ENSG00000177731	ENST00000473425	protein_coding	PUTATIVE	None	3750	298	98	18158105	18160590	-1	None	FLI, FLIL, Fli1, MGC39265
17	FLII	ENSG00000177731	ENST00000582626	retained_intron	KNOWN	None	3750	None	None	18159839	18162019	-1	None	FLI, FLIL, Fli1, MGC39265
17	FLII	ENSG00000177731	ENST00000379450	protein_coding	KNOWN	None	3750	3552	1183	18148155	18162037	-1	None	FLI, FLIL, Fli1, MGC39265
4	RNA5SP157	ENSG00000251816	ENST00000516007	rRNA	KNOWN	None	43057	None	None	19183437	19183479	-1	RN5S157	None
20	None	ENSG00000227164	ENST00000439873	protein_coding	NOVEL	None	None	225	74	52105495	52106164	1	None	None
HSCHR6_MHC_MCF	MSH5	ENSG00000227314	ENST00000427298	protein_coding	KNOWN	None	7328	582	193	31784055	31788294	1	None	None
HSCHR6_MHC_MCF	MSH5	ENSG00000227314	ENST00000441395	protein_coding	KNOWN	None	7328	2505	834	31784061	31806753	1	None	None
HSCHR6_MHC_MCF	MSH5	ENSG00000227314	ENST00000441401	protein_coding	KNOWN	None	7328	2505	834	31784064	31806753	1	None	None
HSCHR6_MHC_MCF	MSH5	ENSG00000227314	ENST00000482113	retained_intron	KNOWN	None	7328	None	None	31784081	31787540	1	None	None
HSCHR6_MHC_MCF	MSH5	ENSG00000227314	ENST00000473342	processed_transcript	KNOWN	None	7328	None	None	31784085	31802685	1	None	None
HSCHR6_MHC_MCF	MSH5	ENSG00000227314	ENST00000436192	protein_coding	KNOWN	None	7328	2508	835	31784085	31806753	1	None	None
HSCHR6_MHC_MCF	MSH5	ENSG00000227314	ENST00000448617	protein_coding	KNOWN	None	7328	2469	822	31784085	31806753	1	None	None
HSCHR6_MHC_MCF	MSH5	ENSG00000227314	ENST00000462956	retained_intron	KNOWN	None	7328	None	None	31785310	31798109	1	None	None
HSCHR6_MHC_MCF	MSH5	ENSG00000227314	ENST00000443665	protein_coding	NOVEL	None	7328	1000	332	31788038	31803568	1	None	None
HSCHR6_MHC_MCF	MSH5	ENSG00000227314	ENST00000478592	processed_transcript	KNOWN	None	7328	None	None	31795566	31803211	1	None	None
HSCHR6_MHC_MCF	MSH5	ENSG00000227314	ENST00000436004	protein_coding	PUTATIVE	None	7328	1527	508	31800669	31806753	1	None	None
HSCHR6_MHC_MCF	MSH5	ENSG00000227314	ENST00000488507	retained_intron	KNOWN	None	7328	None	None	31802272	31803579	1	None	None
HSCHR6_MHC_MCF	MSH5	ENSG00000227314	ENST00000497253	nonsense_mediated_decay	KNOWN	None	7328	501	166	31803994	31806753	1	None	None
HSCHR6_MHC_MCF	MSH5	ENSG00000227314	ENST00000486216	processed_transcript	KNOWN	None	7328	None	None	31804797	31807221	1	None	None
HSCHR6_MHC_MCF	MSH5	ENSG00000227314	ENST00000447504	protein_coding	NOVEL	None	7328	471	156	31805289	31806753	1	None	None
HSCHR6_MHC_MCF	MSH5	ENSG00000227314	ENST00000466262	retained_intron	KNOWN	None	7328	None	None	31806000	31806753	1	None	None
HSCHR6_MHC_MCF	MSH5	ENSG00000227314	ENST00000578225	protein_coding	KNOWN	None	7328	2556	851	31784084	31808922	1	None	None
HSCHR6_MHC_MCF	MSH5	ENSG00000227314	ENST00000549604	protein_coding	KNOWN	None	7328	816	271	31784012	31805865	1	None	None
4	None	ENSG00000248515	ENST00000511431	lincRNA	KNOWN	None	None	None	None	19457059	19911315	1	None	None
9	NFX1	ENSG00000086102	ENST00000379540	protein_coding	KNOWN	CCDS6538	7803	3363	1120	33290509	33371155	1	None	NFX2, MGC20369
9	NFX1	ENSG00000086102	ENST00000379521	protein_coding	KNOWN	CCDS6539	7803	3075	1024	33290510	33365281	1	None	NFX2, MGC20369
9	NFX1	ENSG00000086102	ENST00000318524	protein_coding	KNOWN	CCDS6540	7803	2502	833	33290543	33348721	1	None	NFX2, MGC20369
9	NFX1	ENSG00000086102	ENST00000466359	processed_transcript	KNOWN	None	7803	None	None	33319019	33332655	1	None	NFX2, MGC20369
9	NFX1	ENSG00000086102	ENST00000466971	processed_transcript	KNOWN	None	7803	None	None	33342810	33351880	1	None	NFX2, MGC20369
9	NFX1	ENSG00000086102	ENST00000463421	processed_transcript	KNOWN	None	7803	None	None	33365231	33367576	1	None	NFX2, MGC20369
22	C22orf39	ENSG00000242259	ENST00000509549	nonsense_mediated_decay	KNOWN	None	27012	279	92	19338891	19435214	-1	None	MGC74441
22	C22orf39	ENSG00000242259	ENST00000399568	protein_coding	PUTATIVE	None	27012	243	80	19428409	19435215	-1	None	MGC74441
22	C22orf39	ENSG00000242259	ENST00000333059	protein_coding	KNOWN	CCDS33599	27012	429	142	19430894	19435755	-1	None	MGC74441
22	C22orf39	ENSG00000242259	ENST00000542103	protein_coding	KNOWN	CCDS54498	27012	354	117	19428431	19435755	-1	None	MGC74441
22	C22orf39	ENSG00000242259	ENST00000399562	protein_coding	KNOWN	None	27012	318	105	19430673	19435755	-1	None	MGC74441
1	LAX1	ENSG00000122188	ENST00000442561	protein_coding	KNOWN	CCDS1441	26005	1197	398	203734304	203745245	1	None	LAX, FLJ20340
1	LAX1	ENSG00000122188	ENST00000367217	protein_coding	KNOWN	CCDS44297	26005	1149	382	203734305	203743850	1	None	LAX, FLJ20340
1	LAX1	ENSG00000122188	ENST00000367215	processed_transcript	KNOWN	None	26005	None	None	203738766	203745361	1	None	LAX, FLJ20340
10	None	ENSG00000235687	ENST00000426471	lincRNA	KNOWN	None	None	None	None	37598113	37635954	1	None	None
10	None	ENSG00000235687	ENST00000435629	lincRNA	KNOWN	None	None	None	None	37600084	37635838	1	None	None
10	None	ENSG00000235687	ENST00000606476	lincRNA	KNOWN	None	None	None	None	37604195	37635959	1	None	None
11	DAGLA	ENSG00000134780	ENST00000257215	protein_coding	KNOWN	CCDS31578	1165	3129	1042	61447905	61514473	1	C11orf11	KIAA0659, NSDDR, DAGLALPHA
11	DAGLA	ENSG00000134780	ENST00000540717	nonsense_mediated_decay	KNOWN	None	1165	504	167	61447939	61514472	1	C11orf11	KIAA0659, NSDDR, DAGLALPHA
19	PPAN-P2RY11	ENSG00000243207	ENST00000428358	protein_coding	NOVEL	CCDS56082	33526	1563	520	10216899	10225456	1	None	None
19	PPAN-P2RY11	ENSG00000243207	ENST00000393796	protein_coding	KNOWN	CCDS42498	33526	2385	794	10217071	10225414	1	None	None
19	ZNF816	ENSG00000180257	ENST00000357666	protein_coding	KNOWN	CCDS33096	26995	1956	651	53452632	53466114	-1	ZNF816A	None
19	ZNF816	ENSG00000180257	ENST00000444460	protein_coding	KNOWN	CCDS33096	26995	1956	651	53452695	53466135	-1	ZNF816A	None
19	ZNF816	ENSG00000180257	ENST00000391786	protein_coding	PUTATIVE	None	26995	177	58	53454589	53466104	-1	ZNF816A	None
19	ZNF816	ENSG00000180257	ENST00000457013	protein_coding	KNOWN	None	26995	343	113	53454685	53466164	-1	ZNF816A	None
19	ZNF816	ENSG00000180257	ENST00000438970	protein_coding	PUTATIVE	None	26995	231	76	53455004	53466124	-1	ZNF816A	None
19	ZNF816	ENSG00000180257	ENST00000270457	protein_coding	PUTATIVE	None	26995	294	97	53455772	53466124	-1	ZNF816A	None
19	ZNF816	ENSG00000180257	ENST00000535506	protein_coding	PUTATIVE	None	26995	294	97	53455842	53466131	-1	ZNF816A	None
19	ZNF816	ENSG00000180257	ENST00000332302	protein_coding	PUTATIVE	None	26995	296	97	53456004	53466078	-1	ZNF816A	None
19	ZNF816	ENSG00000180257	ENST00000434371	protein_coding	KNOWN	CCDS56101	26995	702	233	53432156	53466114	-1	ZNF816A	None
19	ZNF816	ENSG00000180257	ENST00000549216	protein_coding	KNOWN	None	26995	495	164	53430388	53445847	-1	ZNF816A	None
9	ZMYND19	ENSG00000165724	ENST00000298585	protein_coding	KNOWN	CCDS7048	21146	684	227	140476531	140484942	-1	None	MIZIP
9	ZMYND19	ENSG00000165724	ENST00000471957	processed_transcript	KNOWN	None	21146	None	None	140481465	140483558	-1	None	MIZIP
19	NACC1	ENSG00000160877	ENST00000586171	protein_coding	KNOWN	None	20967	497	164	13228917	13246518	1	BTBD14B	NAC1, NAC-1, BEND8, BTBD30
19	NACC1	ENSG00000160877	ENST00000292431	protein_coding	KNOWN	CCDS12294	20967	1584	527	13229151	13251955	1	BTBD14B	NAC1, NAC-1, BEND8, BTBD30
19	NACC1	ENSG00000160877	ENST00000585663	protein_coding	PUTATIVE	None	20967	285	94	13248093	13249550	1	BTBD14B	NAC1, NAC-1, BEND8, BTBD30
20	ZNF217	ENSG00000171940	ENST00000371471	protein_coding	KNOWN	CCDS13443	13009	3147	1048	52183604	52210378	-1	None	ZABC1
20	ZNF217	ENSG00000171940	ENST00000437222	protein_coding	PUTATIVE	None	13009	450	149	52185359	52192566	-1	None	ZABC1
20	ZNF217	ENSG00000171940	ENST00000431687	protein_coding	KNOWN	None	13009	285	94	52199081	52225431	-1	None	ZABC1
20	ZNF217	ENSG00000171940	ENST00000540425	processed_transcript	KNOWN	None	13009	None	None	52199464	52226446	-1	None	ZABC1
20	ZNF217	ENSG00000171940	ENST00000302342	protein_coding	KNOWN	CCDS13443	13009	3147	1048	52183612	52199636	-1	None	ZABC1
4	None	ENSG00000249441	ENST00000508374	lincRNA	KNOWN	None	None	None	None	19748802	19756214	-1	None	None
7	AGFG2	ENSG00000106351	ENST00000430857	nonsense_mediated_decay	KNOWN	None	5177	468	155	100136834	100160497	1	HRBL	RABR
7	AGFG2	ENSG00000106351	ENST00000477022	retained_intron	KNOWN	None	5177	None	None	100136835	100153993	1	HRBL	RABR
7	AGFG2	ENSG00000106351	ENST00000300176	protein_coding	KNOWN	CCDS5697	5177	1446	481	100136848	100165842	1	HRBL	RABR
7	AGFG2	ENSG00000106351	ENST00000474713	processed_transcript	KNOWN	None	5177	None	None	100148049	100163584	1	HRBL	RABR
7	AGFG2	ENSG00000106351	ENST00000429987	protein_coding	PUTATIVE	None	5177	671	222	100153290	100162871	1	HRBL	RABR
7	AGFG2	ENSG00000106351	ENST00000262935	protein_coding	KNOWN	None	5177	468	155	100136882	100163269	1	HRBL	RABR
2	EHBP1	ENSG00000115504	ENST00000405015	protein_coding	KNOWN	CCDS46300	29144	3483	1160	62900986	63272732	1	None	KIAA0903, NACSIN
2	EHBP1	ENSG00000115504	ENST00000413434	protein_coding	PUTATIVE	None	29144	325	107	62901013	63053330	1	None	KIAA0903, NACSIN
2	EHBP1	ENSG00000115504	ENST00000426940	protein_coding	PUTATIVE	None	29144	124	40	62901013	63053393	1	None	KIAA0903, NACSIN
2	EHBP1	ENSG00000115504	ENST00000449820	protein_coding	PUTATIVE	None	29144	285	94	62901013	63085551	1	None	KIAA0903, NACSIN
2	EHBP1	ENSG00000115504	ENST00000427809	protein_coding	KNOWN	None	29144	233	76	62932787	62991471	1	None	KIAA0903, NACSIN
2	EHBP1	ENSG00000115504	ENST00000405482	protein_coding	KNOWN	None	29144	931	309	62932787	63092039	1	None	KIAA0903, NACSIN
2	EHBP1	ENSG00000115504	ENST00000472809	retained_intron	KNOWN	None	29144	None	None	62932847	62999269	1	None	KIAA0903, NACSIN
2	EHBP1	ENSG00000115504	ENST00000494958	retained_intron	KNOWN	None	29144	None	None	62932847	63053716	1	None	KIAA0903, NACSIN
2	EHBP1	ENSG00000115504	ENST00000431489	protein_coding	KNOWN	CCDS46300	29144	3483	1160	62932877	63273622	1	None	KIAA0903, NACSIN
2	EHBP1	ENSG00000115504	ENST00000263991	protein_coding	KNOWN	CCDS1872	29144	3696	1231	62933001	63273622	1	None	KIAA0903, NACSIN
2	EHBP1	ENSG00000115504	ENST00000467436	processed_transcript	KNOWN	None	29144	None	None	62933448	62934127	1	None	KIAA0903, NACSIN
2	EHBP1	ENSG00000115504	ENST00000405289	protein_coding	KNOWN	CCDS46299	29144	3591	1196	62934327	63272635	1	None	KIAA0903, NACSIN
2	EHBP1	ENSG00000115504	ENST00000462441	processed_transcript	KNOWN	None	29144	None	None	63099173	63108912	1	None	KIAA0903, NACSIN
2	EHBP1	ENSG00000115504	ENST00000469591	retained_intron	KNOWN	None	29144	None	None	63169853	63183252	1	None	KIAA0903, NACSIN
2	EHBP1	ENSG00000115504	ENST00000444311	protein_coding	NOVEL	None	29144	460	152	63175427	63215139	1	None	KIAA0903, NACSIN
2	EHBP1	ENSG00000115504	ENST00000454124	protein_coding	NOVEL	None	29144	329	108	63176068	63206421	1	None	KIAA0903, NACSIN
2	EHBP1	ENSG00000115504	ENST00000422032	protein_coding	NOVEL	None	29144	669	222	63182750	63221111	1	None	KIAA0903, NACSIN
2	EHBP1	ENSG00000115504	ENST00000496857	processed_transcript	KNOWN	None	29144	None	None	63192097	63272798	1	None	KIAA0903, NACSIN
2	EHBP1	ENSG00000115504	ENST00000491965	retained_intron	KNOWN	None	29144	None	None	63206458	63221312	1	None	KIAA0903, NACSIN
2	EHBP1	ENSG00000115504	ENST00000471179	retained_intron	KNOWN	None	29144	None	None	63271974	63272790	1	None	KIAA0903, NACSIN
2	EHBP1	ENSG00000115504	ENST00000354487	protein_coding	KNOWN	CCDS46299	29144	3591	1196	62933001	63273619	1	None	KIAA0903, NACSIN
22	MRPL40	ENSG00000185608	ENST00000333130	protein_coding	KNOWN	CCDS13760	14491	621	206	19419425	19423598	1	NLVCF	MRP-L22
22	MRPL40	ENSG00000185608	ENST00000443660	nonsense_mediated_decay	KNOWN	None	14491	489	162	19420102	19423590	1	NLVCF	MRP-L22
22	MRPL40	ENSG00000185608	ENST00000471259	processed_transcript	PUTATIVE	None	14491	None	None	19420462	19423533	1	NLVCF	MRP-L22
6	SFTA2	ENSG00000196260	ENST00000474914	retained_intron	KNOWN	None	18386	None	None	30899130	30899886	-1	SFTPG	None
6	SFTA2	ENSG00000196260	ENST00000359086	protein_coding	KNOWN	CCDS4691	18386	237	78	30899130	30899952	-1	SFTPG	None
15	ABHD2	ENSG00000140526	ENST00000569411	protein_coding	KNOWN	None	18717	394	130	89630690	89698621	1	None	LABH2
15	ABHD2	ENSG00000140526	ENST00000352732	protein_coding	KNOWN	CCDS10348	18717	1278	425	89631381	89745591	1	None	LABH2
15	ABHD2	ENSG00000140526	ENST00000564876	processed_transcript	KNOWN	None	18717	None	None	89631653	89657047	1	None	LABH2
15	ABHD2	ENSG00000140526	ENST00000569550	protein_coding	KNOWN	None	18717	167	54	89631653	89659725	1	None	LABH2
15	ABHD2	ENSG00000140526	ENST00000565066	protein_coding	KNOWN	None	18717	370	122	89631657	89695083	1	None	LABH2
15	ABHD2	ENSG00000140526	ENST00000565973	protein_coding	KNOWN	CCDS10348	18717	1278	425	89631661	89738982	1	None	LABH2
15	ABHD2	ENSG00000140526	ENST00000565825	processed_transcript	KNOWN	None	18717	None	None	89631713	89657022	1	None	LABH2
15	ABHD2	ENSG00000140526	ENST00000562254	processed_transcript	PUTATIVE	None	18717	None	None	89631741	89637595	1	None	LABH2
15	ABHD2	ENSG00000140526	ENST00000562073	processed_transcript	KNOWN	None	18717	None	None	89659735	89726604	1	None	LABH2
15	ABHD2	ENSG00000140526	ENST00000568308	retained_intron	KNOWN	None	18717	None	None	89728646	89736684	1	None	LABH2
15	ABHD2	ENSG00000140526	ENST00000355100	protein_coding	KNOWN	CCDS10348	18717	1278	425	89645672	89745591	1	None	LABH2
2	TPO	ENSG00000115705	ENST00000497517	processed_transcript	KNOWN	None	12015	None	None	1377995	1546594	1	None	TPX
2	TPO	ENSG00000115705	ENST00000382269	protein_coding	NOVEL	None	12015	525	174	1417233	1443174	1	None	TPX
2	TPO	ENSG00000115705	ENST00000329066	protein_coding	KNOWN	CCDS1643	12015	2802	933	1417236	1546499	1	None	TPX
2	TPO	ENSG00000115705	ENST00000382201	protein_coding	KNOWN	CCDS1644	12015	2631	876	1417252	1546499	1	None	TPX
2	TPO	ENSG00000115705	ENST00000423320	protein_coding	KNOWN	None	12015	515	170	1418154	1457498	1	None	TPX
2	TPO	ENSG00000115705	ENST00000382198	protein_coding	KNOWN	CCDS1646	12015	2283	760	1418181	1546246	1	None	TPX
2	TPO	ENSG00000115705	ENST00000422464	protein_coding	NOVEL	None	12015	2595	864	1437244	1547483	1	None	TPX
2	TPO	ENSG00000115705	ENST00000446278	protein_coding	PUTATIVE	None	12015	1214	403	1488435	1546432	1	None	TPX
2	TPO	ENSG00000115705	ENST00000469607	protein_coding	PUTATIVE	None	12015	1092	363	1488437	1546421	1	None	TPX
2	TPO	ENSG00000115705	ENST00000462973	processed_transcript	KNOWN	None	12015	None	None	1488441	1520754	1	None	TPX
2	TPO	ENSG00000115705	ENST00000425083	protein_coding	PUTATIVE	None	12015	465	154	1507549	1546499	1	None	TPX
2	TPO	ENSG00000115705	ENST00000479902	processed_transcript	KNOWN	None	12015	None	None	1517205	1546301	1	None	TPX
2	TPO	ENSG00000115705	ENST00000337415	protein_coding	KNOWN	None	12015	2790	929	1417233	1546498	1	None	TPX
2	TPO	ENSG00000115705	ENST00000345913	protein_coding	KNOWN	CCDS1643	12015	2802	933	1417233	1546498	1	None	TPX
2	TPO	ENSG00000115705	ENST00000346956	protein_coding	KNOWN	None	12015	2670	889	1417233	1546498	1	None	TPX
2	TPO	ENSG00000115705	ENST00000349624	protein_coding	KNOWN	CCDS1646	12015	2283	760	1417233	1546498	1	None	TPX
2	TPO	ENSG00000115705	ENST00000539820	protein_coding	KNOWN	None	12015	525	174	1417233	1443171	1	None	TPX
5	NSA2	ENSG00000164346	ENST00000296802	protein_coding	KNOWN	CCDS4025	30728	783	260	74062817	74072737	1	None	HUSSY-29, HCLG1, FLJ94393, TINP1
5	NSA2	ENSG00000164346	ENST00000514918	retained_intron	KNOWN	None	30728	None	None	74063073	74065379	1	None	HUSSY-29, HCLG1, FLJ94393, TINP1
5	NSA2	ENSG00000164346	ENST00000513356	processed_transcript	KNOWN	None	30728	None	None	74063088	74067478	1	None	HUSSY-29, HCLG1, FLJ94393, TINP1
5	NSA2	ENSG00000164346	ENST00000515524	protein_coding	PUTATIVE	None	30728	295	97	74065123	74072629	1	None	HUSSY-29, HCLG1, FLJ94393, TINP1
8	RAB2A	ENSG00000104388	ENST00000262646	protein_coding	KNOWN	CCDS6175	9763	639	212	61429416	61536186	1	RAB2	None
8	RAB2A	ENSG00000104388	ENST00000531289	protein_coding	NOVEL	CCDS56537	9763	567	188	61429495	61533547	1	RAB2	None
8	RAB2A	ENSG00000104388	ENST00000481569	retained_intron	KNOWN	None	9763	None	None	61429735	61471838	1	RAB2	None
8	RAB2A	ENSG00000104388	ENST00000529579	protein_coding	NOVEL	None	9763	546	181	61429740	61533454	1	RAB2	None
8	RAB2A	ENSG00000104388	ENST00000466595	nonsense_mediated_decay	KNOWN	None	9763	407	134	61429783	61533507	1	RAB2	None
8	RAB2A	ENSG00000104388	ENST00000429861	retained_intron	KNOWN	None	9763	None	None	61429795	61504676	1	RAB2	None
8	RAB2A	ENSG00000104388	ENST00000531098	protein_coding	PUTATIVE	None	9763	30	9	61470967	61484654	1	RAB2	None
8	RAB2A	ENSG00000104388	ENST00000534260	nonsense_mediated_decay	KNOWN	None	9763	209	68	61471411	61497365	1	RAB2	None
8	RAB2A	ENSG00000104388	ENST00000525529	retained_intron	KNOWN	None	9763	None	None	61482488	61504496	1	RAB2	None
8	RAB2A	ENSG00000104388	ENST00000530071	processed_transcript	KNOWN	None	9763	None	None	61496603	61533500	1	RAB2	None
8	RAB2A	ENSG00000104388	ENST00000452437	protein_coding	PUTATIVE	None	9763	313	103	61497282	61531670	1	RAB2	None
8	RAB2A	ENSG00000104388	ENST00000396696	retained_intron	KNOWN	None	9763	None	None	61504249	61533497	1	RAB2	None
1	KIAA0754	ENSG00000255103	ENST00000530275	protein_coding	KNOWN	None	29111	3876	1291	39876151	39882154	1	None	None
9	DOLPP1	ENSG00000167130	ENST00000372546	protein_coding	KNOWN	CCDS6918	29565	717	238	131843379	131852714	1	None	LSFR2
9	DOLPP1	ENSG00000167130	ENST00000406974	protein_coding	NOVEL	CCDS48039	29565	588	195	131843390	131852714	1	None	LSFR2
9	DOLPP1	ENSG00000167130	ENST00000327812	nonsense_mediated_decay	KNOWN	None	29565	274	90	131843413	131852717	1	None	LSFR2
9	DOLPP1	ENSG00000167130	ENST00000412363	nonsense_mediated_decay	KNOWN	None	29565	268	88	131843419	131851801	1	None	LSFR2
9	DOLPP1	ENSG00000167130	ENST00000480255	retained_intron	KNOWN	None	29565	None	None	131846878	131847574	1	None	LSFR2
9	DOLPP1	ENSG00000167130	ENST00000540102	protein_coding	KNOWN	None	29565	294	97	131843413	131852716	1	None	LSFR2
1	BMP8A	ENSG00000183682	ENST00000331593	protein_coding	KNOWN	CCDS437	21650	1209	402	39957318	39991607	1	None	None
19	STX10	ENSG00000104915	ENST00000591843	nonsense_mediated_decay	KNOWN	None	11428	342	113	13254872	13261101	-1	None	hsyn10, SYN10
19	STX10	ENSG00000104915	ENST00000343587	protein_coding	KNOWN	None	11428	603	200	13254872	13261160	-1	None	hsyn10, SYN10
19	STX10	ENSG00000104915	ENST00000587318	protein_coding	PUTATIVE	None	11428	685	227	13254876	13260699	-1	None	hsyn10, SYN10
19	STX10	ENSG00000104915	ENST00000242770	protein_coding	PUTATIVE	None	11428	663	220	13254876	13260992	-1	None	hsyn10, SYN10
19	STX10	ENSG00000104915	ENST00000589083	protein_coding	PUTATIVE	None	11428	741	246	13254876	13261040	-1	None	hsyn10, SYN10
19	STX10	ENSG00000104915	ENST00000587230	protein_coding	KNOWN	CCDS32922	11428	750	249	13254903	13261052	-1	None	hsyn10, SYN10
19	STX10	ENSG00000104915	ENST00000593126	protein_coding	PUTATIVE	None	11428	606	201	13255085	13260653	-1	None	hsyn10, SYN10
19	STX10	ENSG00000104915	ENST00000440593	nonsense_mediated_decay	KNOWN	None	11428	222	73	13255303	13261155	-1	None	hsyn10, SYN10
19	STX10	ENSG00000104915	ENST00000588848	protein_coding	PUTATIVE	None	11428	367	121	13255415	13261127	-1	None	hsyn10, SYN10
19	STX10	ENSG00000104915	ENST00000591415	protein_coding	PUTATIVE	None	11428	291	96	13255429	13256228	-1	None	hsyn10, SYN10
19	STX10	ENSG00000104915	ENST00000591197	protein_coding	PUTATIVE	None	11428	174	57	13256117	13261197	-1	None	hsyn10, SYN10
16	BRD7	ENSG00000166164	ENST00000562383	protein_coding	PUTATIVE	None	14310	99	32	50347398	50353840	-1	None	CELTIX1, BP75
16	BRD7	ENSG00000166164	ENST00000569774	protein_coding	PUTATIVE	None	14310	330	109	50349858	50354288	-1	None	CELTIX1, BP75
16	BRD7	ENSG00000166164	ENST00000394688	protein_coding	KNOWN	CCDS10742	14310	1956	651	50349868	50402845	-1	None	CELTIX1, BP75
16	BRD7	ENSG00000166164	ENST00000394689	protein_coding	KNOWN	CCDS54007	14310	1959	652	50352941	50402690	-1	None	CELTIX1, BP75
16	BRD7	ENSG00000166164	ENST00000475877	processed_transcript	KNOWN	None	14310	None	None	50368622	50395744	-1	None	CELTIX1, BP75
16	BRD7	ENSG00000166164	ENST00000401491	processed_transcript	KNOWN	None	14310	None	None	50382934	50402831	-1	None	CELTIX1, BP75
16	BRD7	ENSG00000166164	ENST00000567826	retained_intron	KNOWN	None	14310	None	None	50383928	50402831	-1	None	CELTIX1, BP75
9	C9orf117	ENSG00000160401	ENST00000496009	processed_transcript	KNOWN	None	27843	None	None	130469268	130476300	1	None	None
9	C9orf117	ENSG00000160401	ENST00000373295	protein_coding	KNOWN	CCDS43878	27843	1563	520	130469271	130476302	1	None	None
9	C9orf117	ENSG00000160401	ENST00000464092	processed_transcript	KNOWN	None	27843	None	None	130474616	130478281	1	None	None
9	C9orf117	ENSG00000160401	ENST00000461104	processed_transcript	KNOWN	None	27843	None	None	130475017	130477616	1	None	None
9	C9orf117	ENSG00000160401	ENST00000373293	protein_coding	KNOWN	None	27843	381	126	130474169	130478175	1	None	None
20	BCAS1	ENSG00000064787	ENST00000448484	protein_coding	NOVEL	None	974	1431	476	52553316	52645239	-1	None	NABC1, AIBC1
20	BCAS1	ENSG00000064787	ENST00000371435	protein_coding	PUTATIVE	None	974	1521	506	52560080	52687084	-1	None	NABC1, AIBC1
20	BCAS1	ENSG00000064787	ENST00000395961	protein_coding	KNOWN	CCDS13444	974	1755	584	52560080	52687133	-1	None	NABC1, AIBC1
20	BCAS1	ENSG00000064787	ENST00000422805	protein_coding	PUTATIVE	None	974	743	246	52561322	52612468	-1	None	NABC1, AIBC1
20	BCAS1	ENSG00000064787	ENST00000371440	protein_coding	KNOWN	None	974	1845	614	52557997	52687304	-1	None	NABC1, AIBC1
20	BCAS1	ENSG00000064787	ENST00000434986	protein_coding	KNOWN	None	974	753	250	52561162	52612736	-1	None	NABC1, AIBC1
20	BCAS1	ENSG00000064787	ENST00000411563	protein_coding	KNOWN	None	974	495	164	52644411	52687030	-1	None	NABC1, AIBC1
3	SEC22A	ENSG00000121542	ENST00000477063	processed_transcript	KNOWN	None	20260	None	None	122920774	122962797	1	SEC22L2	None
3	SEC22A	ENSG00000121542	ENST00000466950	nonsense_mediated_decay	KNOWN	None	20260	216	71	122920776	122964777	1	SEC22L2	None
3	SEC22A	ENSG00000121542	ENST00000492595	protein_coding	KNOWN	CCDS3021	20260	924	307	122920805	122990569	1	SEC22L2	None
3	SEC22A	ENSG00000121542	ENST00000473494	protein_coding	KNOWN	None	20260	866	287	122920806	122990511	1	SEC22L2	None
3	SEC22A	ENSG00000121542	ENST00000481965	protein_coding	PUTATIVE	None	20260	300	99	122920816	122990756	1	SEC22L2	None
3	SEC22A	ENSG00000121542	ENST00000466519	protein_coding	KNOWN	None	20260	326	107	122920853	122942549	1	SEC22L2	None
3	SEC22A	ENSG00000121542	ENST00000480631	protein_coding	KNOWN	None	20260	415	137	122920866	122944018	1	SEC22L2	None
3	SEC22A	ENSG00000121542	ENST00000491366	protein_coding	KNOWN	None	20260	304	100	122920867	122942527	1	SEC22L2	None
3	SEC22A	ENSG00000121542	ENST00000487572	protein_coding	KNOWN	None	20260	654	217	122920898	122964858	1	SEC22L2	None
3	SEC22A	ENSG00000121542	ENST00000309934	protein_coding	KNOWN	CCDS3021	20260	924	307	122927169	122992977	1	SEC22L2	None
1	PDE4DIP	ENSG00000178104	ENST00000469668	processed_transcript	KNOWN	None	15580	None	None	144836157	144837850	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000531417	processed_transcript	KNOWN	None	15580	None	None	144836186	144854571	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000528060	processed_transcript	KNOWN	None	15580	None	None	144836385	144837429	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000525630	processed_transcript	KNOWN	None	15580	None	None	144837176	144856884	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000460027	processed_transcript	KNOWN	None	15580	None	None	144837656	144854197	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000524688	retained_intron	KNOWN	None	15580	None	None	144837859	144852925	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000313382	protein_coding	KNOWN	CCDS55628	15580	6723	2240	144851424	145040002	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000524974	processed_transcript	KNOWN	None	15580	None	None	144851427	144909905	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000369354	protein_coding	KNOWN	CCDS30824	15580	7041	2346	144851427	144994921	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000369356	protein_coding	KNOWN	CCDS55627	15580	7089	2362	144851427	144995022	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000530740	protein_coding	NOVEL	None	15580	7296	2431	144851488	145075901	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000369359	protein_coding	NOVEL	None	15580	7449	2482	144851488	145075901	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000464924	retained_intron	KNOWN	None	15580	None	None	144851946	144854450	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000530062	nonsense_mediated_decay	KNOWN	None	15580	262	86	144852141	144904714	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000526182	processed_transcript	KNOWN	None	15580	None	None	144852299	144853294	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000533768	retained_intron	KNOWN	None	15580	None	None	144854367	144857016	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000534367	retained_intron	KNOWN	None	15580	None	None	144855771	144857849	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000530130	protein_coding	NOVEL	None	15580	927	308	144855856	144866711	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000526664	processed_transcript	KNOWN	None	15580	None	None	144856999	144867980	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000534466	retained_intron	KNOWN	None	15580	None	None	144857640	144860234	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000481227	retained_intron	KNOWN	None	15580	None	None	144859891	144866850	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000479369	retained_intron	KNOWN	None	15580	None	None	144862705	144876023	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000527901	retained_intron	KNOWN	None	15580	None	None	144863400	144866137	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000525886	retained_intron	KNOWN	None	15580	None	None	144864135	144919011	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000494734	processed_transcript	KNOWN	None	15580	None	None	144864883	144866678	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000530592	protein_coding	NOVEL	None	15580	507	168	144880801	144882701	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000467859	processed_transcript	KNOWN	None	15580	None	None	144890591	144921903	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000491426	protein_coding	PUTATIVE	None	15580	287	94	144890592	144904679	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000369351	protein_coding	KNOWN	None	15580	2967	988	144890592	144994840	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000369349	protein_coding	KNOWN	CCDS30825	15580	2910	969	144890592	144994876	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000313431	protein_coding	KNOWN	CCDS30826	15580	3399	1132	144890594	144932365	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000533963	processed_transcript	KNOWN	None	15580	None	None	144892240	144916293	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000529945	protein_coding	PUTATIVE	None	15580	3351	1116	144897997	144932148	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000479408	protein_coding	PUTATIVE	None	15580	2223	740	144902728	144932552	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000496263	retained_intron	KNOWN	None	15580	None	None	144916705	144922065	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000532801	protein_coding	NOVEL	None	15580	412	136	144918961	145039779	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000496572	nonsense_mediated_decay	KNOWN	None	15580	199	65	144942180	145015938	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000530078	retained_intron	KNOWN	None	15580	None	None	144946055	145039955	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000497529	processed_transcript	KNOWN	None	15580	None	None	144946627	145039943	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000533845	processed_transcript	KNOWN	None	15580	None	None	144946702	144994925	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000534536	protein_coding	PUTATIVE	None	15580	559	185	144946711	144995082	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000369347	protein_coding	KNOWN	CCDS30828	15580	522	173	144951760	144994909	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000527063	retained_intron	KNOWN	None	15580	None	None	144951764	145076011	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000369348	protein_coding	KNOWN	CCDS30827	15580	933	310	144951764	145076186	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000477941	retained_intron	KNOWN	None	15580	None	None	144952052	144955352	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000528129	nonsense_mediated_decay	KNOWN	None	15580	156	51	144952109	144995049	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000526445	nonsense_mediated_decay	KNOWN	None	15580	147	48	144952132	144994925	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000530472	processed_transcript	KNOWN	None	15580	None	None	144952201	144994925	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000464103	processed_transcript	KNOWN	None	15580	None	None	144952201	144995082	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000532803	processed_transcript	KNOWN	None	15580	None	None	144952201	145039942	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000533163	processed_transcript	KNOWN	None	15580	None	None	144952201	145039944	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000528552	processed_transcript	KNOWN	None	15580	None	None	144952201	145075989	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000533259	protein_coding	PUTATIVE	None	15580	237	78	144952251	145039848	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000530822	nonsense_mediated_decay	KNOWN	None	15580	345	114	144952338	145039792	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000531369	protein_coding	PUTATIVE	None	15580	430	142	144952679	145039078	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000533396	processed_transcript	KNOWN	None	15580	None	None	144968749	145075891	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000493130	protein_coding	PUTATIVE	None	15580	474	157	145013831	145039771	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000478649	protein_coding	PUTATIVE	None	15580	249	82	145015684	145039786	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000485062	processed_transcript	KNOWN	None	15580	None	None	145015864	145039865	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000530940	processed_transcript	KNOWN	None	15580	None	None	145015873	145039851	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000526359	nonsense_mediated_decay	KNOWN	None	15580	312	103	145015895	145076030	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000528661	nonsense_mediated_decay	KNOWN	None	15580	315	104	145015959	145075977	-1	CMYA2	KIAA0477, KIAA0454, MMGL
1	PDE4DIP	ENSG00000178104	ENST00000369345	protein_coding	PUTATIVE	None	15580	330	109	145074825	145076077	-1	CMYA2	KIAA0477, KIAA0454, MMGL
4	None	ENSG00000241612	ENST00000488289	processed_pseudogene	KNOWN	None	None	None	None	19815372	19815854	1	None	None
4	None	ENSG00000250611	ENST00000504991	processed_pseudogene	KNOWN	None	None	None	None	20039183	20039595	-1	None	None
12	CCDC41	ENSG00000173588	ENST00000552632	protein_coding	PUTATIVE	None	17966	498	165	94700225	94725574	-1	None	NY-REN-58
12	CCDC41	ENSG00000173588	ENST00000397809	protein_coding	KNOWN	CCDS41820	17966	2106	701	94701472	94853728	-1	None	NY-REN-58
12	CCDC41	ENSG00000173588	ENST00000339839	protein_coding	KNOWN	CCDS41820	17966	2106	701	94702056	94853722	-1	None	NY-REN-58
12	CCDC41	ENSG00000173588	ENST00000546783	processed_transcript	KNOWN	None	17966	None	None	94702603	94706954	-1	None	NY-REN-58
12	CCDC41	ENSG00000173588	ENST00000547232	nonsense_mediated_decay	KNOWN	None	17966	1707	568	94703769	94853454	-1	None	NY-REN-58
12	CCDC41	ENSG00000173588	ENST00000546587	processed_transcript	KNOWN	None	17966	None	None	94725462	94729624	-1	None	NY-REN-58
12	CCDC41	ENSG00000173588	ENST00000547575	protein_coding	PUTATIVE	None	17966	1059	352	94762174	94853728	-1	None	NY-REN-58
12	CCDC41	ENSG00000173588	ENST00000549352	processed_transcript	KNOWN	None	17966	None	None	94763729	94801880	-1	None	NY-REN-58
12	CCDC41	ENSG00000173588	ENST00000551250	processed_transcript	KNOWN	None	17966	None	None	94772568	94794897	-1	None	NY-REN-58
12	CCDC41	ENSG00000173588	ENST00000550328	processed_transcript	PUTATIVE	None	17966	None	None	94794680	94796112	-1	None	NY-REN-58
12	CCDC41	ENSG00000173588	ENST00000551078	retained_intron	KNOWN	None	17966	None	None	94796555	94801873	-1	None	NY-REN-58
12	CCDC41	ENSG00000173588	ENST00000551596	retained_intron	KNOWN	None	17966	None	None	94796754	94806288	-1	None	NY-REN-58
12	CCDC41	ENSG00000173588	ENST00000546527	protein_coding	KNOWN	None	17966	7	1	94806260	94853764	-1	None	NY-REN-58
12	CCDC41	ENSG00000173588	ENST00000397807	protein_coding	KNOWN	None	17966	1707	568	94721986	94853764	-1	None	NY-REN-58
4	SLIT2-IT1	ENSG00000248228	ENST00000515882	sense_intronic	KNOWN	None	41383	None	None	20393812	20396479	1	None	None
1	ZC3H11A	ENSG00000058673	ENST00000466470	processed_transcript	KNOWN	None	29093	None	None	203764782	203771301	1	ZC3HDC11A	KIAA0663
1	ZC3H11A	ENSG00000058673	ENST00000432282	protein_coding	KNOWN	None	29093	150	49	203764782	203787793	1	ZC3HDC11A	KIAA0663
1	ZC3H11A	ENSG00000058673	ENST00000453771	protein_coding	KNOWN	None	29093	1546	514	203764782	203816815	1	ZC3HDC11A	KIAA0663
1	ZC3H11A	ENSG00000058673	ENST00000461980	processed_transcript	KNOWN	None	29093	None	None	203764788	203771389	1	ZC3HDC11A	KIAA0663
1	ZC3H11A	ENSG00000058673	ENST00000367214	protein_coding	KNOWN	CCDS30978	29093	2433	810	203764799	203821548	1	ZC3HDC11A	KIAA0663
1	ZC3H11A	ENSG00000058673	ENST00000492823	processed_transcript	KNOWN	None	29093	None	None	203764814	203765916	1	ZC3HDC11A	KIAA0663
1	ZC3H11A	ENSG00000058673	ENST00000367212	protein_coding	KNOWN	CCDS30978	29093	2433	810	203764827	203821558	1	ZC3HDC11A	KIAA0663
1	ZC3H11A	ENSG00000058673	ENST00000332127	protein_coding	KNOWN	CCDS30978	29093	2433	810	203764834	203823252	1	ZC3HDC11A	KIAA0663
1	ZC3H11A	ENSG00000058673	ENST00000495527	nonsense_mediated_decay	KNOWN	None	29093	1959	652	203767974	203823162	1	ZC3HDC11A	KIAA0663
1	ZC3H11A	ENSG00000058673	ENST00000367210	protein_coding	KNOWN	CCDS30978	29093	2433	810	203784033	203823246	1	ZC3HDC11A	KIAA0663
1	ZC3H11A	ENSG00000058673	ENST00000480354	processed_transcript	KNOWN	None	29093	None	None	203798399	203799024	1	ZC3HDC11A	KIAA0663
1	ZC3H11A	ENSG00000058673	ENST00000488411	processed_transcript	KNOWN	None	29093	None	None	203819302	203820250	1	ZC3HDC11A	KIAA0663
1	ZC3H11A	ENSG00000058673	ENST00000545588	protein_coding	KNOWN	CCDS30978	29093	2433	810	203768463	203823246	1	ZC3HDC11A	KIAA0663
6	FANCE	ENSG00000112039	ENST00000229769	protein_coding	KNOWN	CCDS4805	3586	1611	536	35420138	35434880	1	FACE	FAE
15	GALK2	ENSG00000156958	ENST00000559883	nonsense_mediated_decay	KNOWN	None	4119	126	41	49447853	49574264	1	None	GK2
15	GALK2	ENSG00000156958	ENST00000559963	nonsense_mediated_decay	KNOWN	None	4119	150	49	49447956	49531527	1	None	GK2
15	GALK2	ENSG00000156958	ENST00000327171	protein_coding	KNOWN	CCDS32236	4119	1344	447	49447962	49622002	1	None	GK2
15	GALK2	ENSG00000156958	ENST00000560654	protein_coding	PUTATIVE	None	4119	395	130	49447968	49531527	1	None	GK2
15	GALK2	ENSG00000156958	ENST00000558775	nonsense_mediated_decay	KNOWN	None	4119	150	49	49447972	49531545	1	None	GK2
15	GALK2	ENSG00000156958	ENST00000561074	nonsense_mediated_decay	KNOWN	None	4119	138	45	49447991	49509494	1	None	GK2
15	GALK2	ENSG00000156958	ENST00000559040	processed_transcript	KNOWN	None	4119	None	None	49447998	49518892	1	None	GK2
15	GALK2	ENSG00000156958	ENST00000560031	protein_coding	KNOWN	CCDS42034	4119	1377	458	49462213	49620715	1	None	GK2
15	GALK2	ENSG00000156958	ENST00000396509	protein_coding	PUTATIVE	None	4119	1305	434	49462401	49620711	1	None	GK2
15	GALK2	ENSG00000156958	ENST00000558956	nonsense_mediated_decay	KNOWN	None	4119	234	77	49462414	49531467	1	None	GK2
15	GALK2	ENSG00000156958	ENST00000559208	nonsense_mediated_decay	KNOWN	None	4119	306	101	49462421	49575776	1	None	GK2
15	GALK2	ENSG00000156958	ENST00000559095	processed_transcript	PUTATIVE	None	4119	None	None	49462446	49486407	1	None	GK2
15	GALK2	ENSG00000156958	ENST00000558145	protein_coding	PUTATIVE	None	4119	241	79	49462457	49528094	1	None	GK2
15	GALK2	ENSG00000156958	ENST00000560119	nonsense_mediated_decay	KNOWN	None	4119	201	66	49462457	49620726	1	None	GK2
15	GALK2	ENSG00000156958	ENST00000544523	protein_coding	PUTATIVE	None	4119	1305	434	49462479	49620758	1	None	GK2
15	GALK2	ENSG00000156958	ENST00000560138	protein_coding	NOVEL	None	4119	627	208	49462480	49584619	1	None	GK2
15	GALK2	ENSG00000156958	ENST00000559423	nonsense_mediated_decay	KNOWN	None	4119	234	77	49462509	49575915	1	None	GK2
15	GALK2	ENSG00000156958	ENST00000559454	protein_coding	PUTATIVE	None	4119	1305	434	49462675	49620700	1	None	GK2
15	GALK2	ENSG00000156958	ENST00000561014	processed_transcript	KNOWN	None	4119	None	None	49531417	49611904	1	None	GK2
15	GALK2	ENSG00000156958	ENST00000558399	protein_coding	PUTATIVE	None	4119	472	156	49575903	49660066	1	None	GK2
15	GALK2	ENSG00000156958	ENST00000559580	protein_coding	PUTATIVE	None	4119	489	162	49584668	49659894	1	None	GK2
15	GALK2	ENSG00000156958	ENST00000560528	protein_coding	PUTATIVE	None	4119	332	109	49611879	49621179	1	None	GK2
15	GALK2	ENSG00000156958	ENST00000543495	protein_coding	KNOWN	None	4119	624	207	49462457	49620726	1	None	GK2
22	UFD1L	ENSG00000070010	ENST00000263202	protein_coding	KNOWN	CCDS13761	12520	924	307	19437464	19466738	-1	None	UFD1
22	UFD1L	ENSG00000070010	ENST00000459854	retained_intron	KNOWN	None	12520	None	None	19438144	19466695	-1	None	UFD1
22	UFD1L	ENSG00000070010	ENST00000399523	protein_coding	PUTATIVE	CCDS33600	12520	801	266	19438144	19466695	-1	None	UFD1
22	UFD1L	ENSG00000070010	ENST00000466373	retained_intron	KNOWN	None	12520	None	None	19438148	19455239	-1	None	UFD1
22	UFD1L	ENSG00000070010	ENST00000447868	protein_coding	NOVEL	None	12520	479	158	19443203	19466725	-1	None	UFD1
22	UFD1L	ENSG00000070010	ENST00000421968	protein_coding	NOVEL	None	12520	570	189	19444403	19466708	-1	None	UFD1
22	UFD1L	ENSG00000070010	ENST00000484101	processed_transcript	PUTATIVE	None	12520	None	None	19452725	19466606	-1	None	UFD1
22	UFD1L	ENSG00000070010	ENST00000489406	retained_intron	KNOWN	None	12520	None	None	19454926	19466710	-1	None	UFD1
22	UFD1L	ENSG00000070010	ENST00000494054	protein_coding	PUTATIVE	None	12520	407	134	19455396	19466454	-1	None	UFD1
22	UFD1L	ENSG00000070010	ENST00000474226	protein_coding	PUTATIVE	None	12520	208	68	19455418	19466667	-1	None	UFD1
22	UFD1L	ENSG00000070010	ENST00000360834	protein_coding	KNOWN	None	12520	891	296	19437464	19466738	-1	None	UFD1
11	COX8A	ENSG00000176340	ENST00000314133	protein_coding	KNOWN	CCDS8054	2294	210	69	63742079	63744015	1	COX8	COX8-2, COX8L, VIII-L, COX, VIII
10	C10orf68	ENSG00000150076	ENST00000572165	processed_transcript	KNOWN	None	25779	None	None	32832297	32872214	1	None	FLJ13031
10	C10orf68	ENSG00000150076	ENST00000302316	nonsense_mediated_decay	KNOWN	CCDS31177	25779	1887	628	32856651	33171802	1	None	FLJ13031
10	C10orf68	ENSG00000150076	ENST00000375030	protein_coding	PUTATIVE	None	25779	1764	587	32856764	33165481	1	None	FLJ13031
10	C10orf68	ENSG00000150076	ENST00000375028	protein_coding	PUTATIVE	None	25779	1899	632	32856764	33165481	1	None	FLJ13031
10	C10orf68	ENSG00000150076	ENST00000375025	protein_coding	KNOWN	None	25779	2079	692	32873190	33165321	1	None	FLJ13031
5	None	ENSG00000250417	ENST00000509455	lincRNA	KNOWN	None	None	None	None	1856084	1856682	-1	None	None
6	TSPO2	ENSG00000112212	ENST00000373161	protein_coding	KNOWN	CCDS34444	21256	513	170	41010293	41012076	1	BZRPL1	dJ34B21.2
6	TSPO2	ENSG00000112212	ENST00000373158	protein_coding	PUTATIVE	None	21256	213	70	41010310	41011995	1	BZRPL1	dJ34B21.2
6	TSPO2	ENSG00000112212	ENST00000470917	protein_coding	KNOWN	CCDS34444	21256	513	170	41010457	41011951	1	BZRPL1	dJ34B21.2
6	FAM26F	ENSG00000188820	ENST00000368606	protein_coding	PUTATIVE	None	33391	432	143	116782533	116784931	1	C6orf187	RP1-93H18.5, OTTHUMP00000017061, OTTHUMP00000017062, dJ93H18.5
6	FAM26F	ENSG00000188820	ENST00000368605	protein_coding	KNOWN	CCDS34519	33391	948	315	116782556	116784934	1	C6orf187	RP1-93H18.5, OTTHUMP00000017061, OTTHUMP00000017062, dJ93H18.5
6	FAM26F	ENSG00000188820	ENST00000368604	protein_coding	NOVEL	None	33391	477	158	116783630	116784931	1	C6orf187	RP1-93H18.5, OTTHUMP00000017061, OTTHUMP00000017062, dJ93H18.5
5	None	ENSG00000249116	ENST00000506335	antisense	KNOWN	None	None	None	None	1884080	1884763	1	None	None
5	None	ENSG00000249326	ENST00000514569	antisense	KNOWN	None	None	None	None	1887446	1900607	1	None	None
17	TIMP2	ENSG00000035862	ENST00000585421	protein_coding	PUTATIVE	None	11821	432	143	76849059	76870232	-1	None	CSC-21K
17	TIMP2	ENSG00000035862	ENST00000536189	protein_coding	PUTATIVE	None	11821	432	143	76849059	76918483	-1	None	CSC-21K
17	TIMP2	ENSG00000035862	ENST00000262768	protein_coding	KNOWN	CCDS11758	11821	663	220	76849059	76921469	-1	None	CSC-21K
17	TIMP2	ENSG00000035862	ENST00000586057	protein_coding	PUTATIVE	None	11821	432	143	76849063	76870171	-1	None	CSC-21K
17	TIMP2	ENSG00000035862	ENST00000592761	nonsense_mediated_decay	KNOWN	None	11821	330	109	76851624	76870218	-1	None	CSC-21K
11	BSX	ENSG00000188909	ENST00000343035	protein_coding	KNOWN	CCDS41728	20450	702	233	122848278	122852428	-1	None	BSX1
11	DEPDC7	ENSG00000121690	ENST00000241051	protein_coding	KNOWN	CCDS41632	29899	1536	511	33037410	33055128	1	None	None
11	DEPDC7	ENSG00000121690	ENST00000427755	retained_intron	KNOWN	None	29899	None	None	33037422	33048263	1	None	None
11	DEPDC7	ENSG00000121690	ENST00000532078	retained_intron	KNOWN	None	29899	None	None	33037457	33049840	1	None	None
11	DEPDC7	ENSG00000121690	ENST00000311388	protein_coding	KNOWN	CCDS41633	29899	1509	502	33037710	33055128	1	None	None
15	RCN2	ENSG00000117906	ENST00000394885	protein_coding	KNOWN	CCDS10291	9935	954	317	77223960	77242601	1	None	ERC-55, E6BP, ERC55, TCBP49
15	RCN2	ENSG00000117906	ENST00000320963	protein_coding	NOVEL	None	9935	1008	335	77224079	77242201	1	None	ERC-55, E6BP, ERC55, TCBP49
15	RCN2	ENSG00000117906	ENST00000394883	protein_coding	NOVEL	None	9935	651	216	77224096	77242191	1	None	ERC-55, E6BP, ERC55, TCBP49
15	RCN2	ENSG00000117906	ENST00000557805	nonsense_mediated_decay	KNOWN	None	9935	466	154	77224212	77239830	1	None	ERC-55, E6BP, ERC55, TCBP49
15	RCN2	ENSG00000117906	ENST00000558598	retained_intron	KNOWN	None	9935	None	None	77233742	77241226	1	None	ERC-55, E6BP, ERC55, TCBP49
15	RCN2	ENSG00000117906	ENST00000560833	retained_intron	KNOWN	None	9935	None	None	77235833	77240956	1	None	ERC-55, E6BP, ERC55, TCBP49
1	ZBED6	ENSG00000257315	ENST00000550078	protein_coding	KNOWN	CCDS55673	33273	2940	979	203765437	203769686	1	None	None
19	CD79A	ENSG00000105369	ENST00000221972	protein_coding	KNOWN	CCDS12589	1698	681	226	42381190	42385439	1	IGA	MB-1
19	CD79A	ENSG00000105369	ENST00000597454	protein_coding	PUTATIVE	None	1698	776	257	42381350	42384769	1	IGA	MB-1
19	CD79A	ENSG00000105369	ENST00000444740	protein_coding	KNOWN	CCDS46088	1698	567	188	42381375	42385047	1	IGA	MB-1
X	PLCXD1	ENSG00000182378	ENST00000399012	protein_coding	KNOWN	CCDS14103	23148	972	323	192989	220020	1	None	FLJ11323
X	PLCXD1	ENSG00000182378	ENST00000484611	processed_transcript	KNOWN	None	23148	None	None	192991	208204	1	None	FLJ11323
X	PLCXD1	ENSG00000182378	ENST00000430923	protein_coding	KNOWN	None	23148	524	173	193020	208296	1	None	FLJ11323
X	PLCXD1	ENSG00000182378	ENST00000445062	protein_coding	KNOWN	None	23148	264	87	197722	205536	1	None	FLJ11323
X	PLCXD1	ENSG00000182378	ENST00000381657	protein_coding	KNOWN	CCDS14103	23148	972	323	197859	220023	1	None	FLJ11323
X	PLCXD1	ENSG00000182378	ENST00000429181	protein_coding	KNOWN	None	23148	182	59	197861	205454	1	None	FLJ11323
X	PLCXD1	ENSG00000182378	ENST00000443019	protein_coding	KNOWN	None	23148	224	73	199830	205496	1	None	FLJ11323
X	PLCXD1	ENSG00000182378	ENST00000415337	protein_coding	KNOWN	None	23148	534	177	200132	208306	1	None	FLJ11323
X	PLCXD1	ENSG00000182378	ENST00000447472	protein_coding	KNOWN	None	23148	524	173	200146	208296	1	None	FLJ11323
X	PLCXD1	ENSG00000182378	ENST00000448477	protein_coding	KNOWN	None	23148	374	123	200401	207424	1	None	FLJ11323
X	PLCXD1	ENSG00000182378	ENST00000381663	protein_coding	KNOWN	CCDS14103	23148	972	323	198129	220020	1	None	FLJ11323
19	RPL13A	ENSG00000142541	ENST00000391857	protein_coding	KNOWN	CCDS12768	10304	612	203	49990811	49995565	1	TSTA1	L13A
19	RPL13A	ENSG00000142541	ENST00000472481	retained_intron	KNOWN	None	10304	None	None	49990865	49994485	1	TSTA1	L13A
19	RPL13A	ENSG00000142541	ENST00000484279	nonsense_mediated_decay	KNOWN	None	10304	141	46	49990865	49995064	1	TSTA1	L13A
19	RPL13A	ENSG00000142541	ENST00000488946	retained_intron	KNOWN	None	10304	None	None	49990865	49995562	1	TSTA1	L13A
19	RPL13A	ENSG00000142541	ENST00000479992	retained_intron	KNOWN	None	10304	None	None	49990872	49995118	1	TSTA1	L13A
19	RPL13A	ENSG00000142541	ENST00000486930	retained_intron	KNOWN	None	10304	None	None	49990873	49994108	1	TSTA1	L13A
19	RPL13A	ENSG00000142541	ENST00000477613	processed_transcript	KNOWN	None	10304	None	None	49990882	49995146	1	TSTA1	L13A
19	RPL13A	ENSG00000142541	ENST00000467825	protein_coding	NOVEL	None	10304	632	209	49990891	49995100	1	TSTA1	L13A
19	RPL13A	ENSG00000142541	ENST00000476268	retained_intron	KNOWN	None	10304	None	None	49993107	49995068	1	TSTA1	L13A
19	RPL13A	ENSG00000142541	ENST00000474171	retained_intron	KNOWN	None	10304	None	None	49993786	49995014	1	TSTA1	L13A
19	RPL13A	ENSG00000142541	ENST00000468655	retained_intron	KNOWN	None	10304	None	None	49993902	49994483	1	TSTA1	L13A
19	RPL13A	ENSG00000142541	ENST00000476300	retained_intron	KNOWN	None	10304	None	None	49994097	49995071	1	TSTA1	L13A
16	ACSM2A	ENSG00000183747	ENST00000574251	protein_coding	PUTATIVE	None	32017	185	60	20462783	20480867	1	ACSM2	A-923A4.1, MGC150530
16	ACSM2A	ENSG00000183747	ENST00000570698	retained_intron	KNOWN	None	32017	None	None	20462837	20492469	1	ACSM2	A-923A4.1, MGC150530
16	ACSM2A	ENSG00000183747	ENST00000576361	protein_coding	KNOWN	None	32017	317	104	20462859	20476978	1	ACSM2	A-923A4.1, MGC150530
16	ACSM2A	ENSG00000183747	ENST00000417235	protein_coding	PUTATIVE	None	32017	1497	498	20462894	20498168	1	ACSM2	A-923A4.1, MGC150530
16	ACSM2A	ENSG00000183747	ENST00000575558	processed_transcript	KNOWN	None	32017	None	None	20462898	20492332	1	ACSM2	A-923A4.1, MGC150530
16	ACSM2A	ENSG00000183747	ENST00000573854	protein_coding	KNOWN	CCDS32401	32017	1734	577	20462898	20498991	1	ACSM2	A-923A4.1, MGC150530
16	ACSM2A	ENSG00000183747	ENST00000219054	protein_coding	KNOWN	CCDS32401	32017	1734	577	20462906	20498113	1	ACSM2	A-923A4.1, MGC150530
16	ACSM2A	ENSG00000183747	ENST00000575690	protein_coding	KNOWN	CCDS32401	32017	1734	577	20462924	20498118	1	ACSM2	A-923A4.1, MGC150530
16	ACSM2A	ENSG00000183747	ENST00000571204	processed_transcript	KNOWN	None	32017	None	None	20462926	20465207	1	ACSM2	A-923A4.1, MGC150530
16	ACSM2A	ENSG00000183747	ENST00000574692	nonsense_mediated_decay	KNOWN	None	32017	627	208	20462929	20486777	1	ACSM2	A-923A4.1, MGC150530
16	ACSM2A	ENSG00000183747	ENST00000571894	protein_coding	KNOWN	None	32017	354	117	20462933	20477015	1	ACSM2	A-923A4.1, MGC150530
16	ACSM2A	ENSG00000183747	ENST00000572921	processed_transcript	KNOWN	None	32017	None	None	20482909	20485545	1	ACSM2	A-923A4.1, MGC150530
16	ACSM2A	ENSG00000183747	ENST00000572843	retained_intron	KNOWN	None	32017	None	None	20486689	20498533	1	ACSM2	A-923A4.1, MGC150530
16	ACSM2A	ENSG00000183747	ENST00000576101	retained_intron	KNOWN	None	32017	None	None	20487841	20493456	1	ACSM2	A-923A4.1, MGC150530
16	ACSM2A	ENSG00000183747	ENST00000576119	retained_intron	KNOWN	None	32017	None	None	20493592	20498203	1	ACSM2	A-923A4.1, MGC150530
16	ACSM2A	ENSG00000183747	ENST00000396104	protein_coding	KNOWN	CCDS32401	32017	1734	577	20471426	20498989	1	ACSM2	A-923A4.1, MGC150530
16	ACSM2A	ENSG00000183747	ENST00000424070	protein_coding	KNOWN	None	32017	627	208	20462898	20482168	1	ACSM2	A-923A4.1, MGC150530
16	ACSM2A	ENSG00000183747	ENST00000536134	protein_coding	KNOWN	None	32017	1050	349	20462898	20498989	1	ACSM2	A-923A4.1, MGC150530
1	SNRPE	ENSG00000182004	ENST00000483099	processed_transcript	KNOWN	None	11161	None	None	203830731	203839209	1	None	Sm-E
1	SNRPE	ENSG00000182004	ENST00000475035	processed_transcript	KNOWN	None	11161	None	None	203830731	203839212	1	None	Sm-E
1	SNRPE	ENSG00000182004	ENST00000470492	processed_transcript	KNOWN	None	11161	None	None	203830737	203839205	1	None	Sm-E
1	SNRPE	ENSG00000182004	ENST00000414487	protein_coding	KNOWN	CCDS30979	11161	279	92	203830743	203839678	1	None	Sm-E
1	SNRPE	ENSG00000182004	ENST00000469451	processed_transcript	KNOWN	None	11161	None	None	203830978	203834247	1	None	Sm-E
1	SNRPE	ENSG00000182004	ENST00000367208	protein_coding	KNOWN	None	11161	159	52	203832753	203839179	1	None	Sm-E
17	None	ENSG00000178404	ENST00000586713	protein_coding	PUTATIVE	None	None	97	31	76866992	76899297	-1	None	None
17	None	ENSG00000178404	ENST00000322630	protein_coding	PUTATIVE	CCDS58603	None	1866	621	76886662	76899283	-1	None	None
17	None	ENSG00000178404	ENST00000590267	retained_intron	KNOWN	None	None	None	None	76888247	76899299	-1	None	None
17	None	ENSG00000178404	ENST00000587052	retained_intron	KNOWN	None	None	None	None	76888351	76899281	-1	None	None
11	None	ENSG00000256100	ENST00000535431	protein_coding	PUTATIVE	None	None	495	164	63742092	63755818	1	None	None
16	XPO6	ENSG00000169180	ENST00000565698	protein_coding	PUTATIVE	CCDS59266	19733	3336	1111	28109300	28222871	-1	RANBP20	KIAA0370, FLJ22519
16	XPO6	ENSG00000169180	ENST00000568065	protein_coding	PUTATIVE	None	19733	399	132	28109316	28113254	-1	RANBP20	KIAA0370, FLJ22519
16	XPO6	ENSG00000169180	ENST00000304658	protein_coding	KNOWN	CCDS42135	19733	3378	1125	28109316	28223190	-1	RANBP20	KIAA0370, FLJ22519
16	XPO6	ENSG00000169180	ENST00000569315	protein_coding	PUTATIVE	None	19733	462	153	28112376	28113236	-1	RANBP20	KIAA0370, FLJ22519
16	XPO6	ENSG00000169180	ENST00000567038	retained_intron	KNOWN	None	19733	None	None	28112591	28113307	-1	RANBP20	KIAA0370, FLJ22519
16	XPO6	ENSG00000169180	ENST00000570007	retained_intron	KNOWN	None	19733	None	None	28117010	28117743	-1	RANBP20	KIAA0370, FLJ22519
16	XPO6	ENSG00000169180	ENST00000573275	protein_coding	NOVEL	None	19733	403	133	28117433	28123211	-1	RANBP20	KIAA0370, FLJ22519
16	XPO6	ENSG00000169180	ENST00000569216	processed_transcript	KNOWN	None	19733	None	None	28118850	28124279	-1	RANBP20	KIAA0370, FLJ22519
16	XPO6	ENSG00000169180	ENST00000564905	nonsense_mediated_decay	KNOWN	None	19733	484	160	28118909	28145246	-1	RANBP20	KIAA0370, FLJ22519
16	XPO6	ENSG00000169180	ENST00000562408	retained_intron	KNOWN	None	19733	None	None	28128358	28143684	-1	RANBP20	KIAA0370, FLJ22519
16	XPO6	ENSG00000169180	ENST00000563138	retained_intron	KNOWN	None	19733	None	None	28137090	28157624	-1	RANBP20	KIAA0370, FLJ22519
16	XPO6	ENSG00000169180	ENST00000565284	retained_intron	KNOWN	None	19733	None	None	28137150	28164239	-1	RANBP20	KIAA0370, FLJ22519
16	XPO6	ENSG00000169180	ENST00000567842	retained_intron	KNOWN	None	19733	None	None	28137153	28157570	-1	RANBP20	KIAA0370, FLJ22519
16	XPO6	ENSG00000169180	ENST00000564337	processed_transcript	KNOWN	None	19733	None	None	28143719	28167296	-1	RANBP20	KIAA0370, FLJ22519
16	XPO6	ENSG00000169180	ENST00000570294	retained_intron	KNOWN	None	19733	None	None	28157412	28164530	-1	RANBP20	KIAA0370, FLJ22519
16	XPO6	ENSG00000169180	ENST00000566175	nonsense_mediated_decay	KNOWN	None	19733	60	19	28157483	28167438	-1	RANBP20	KIAA0370, FLJ22519
16	XPO6	ENSG00000169180	ENST00000574435	protein_coding	NOVEL	None	19733	765	254	28157493	28181222	-1	RANBP20	KIAA0370, FLJ22519
16	XPO6	ENSG00000169180	ENST00000561488	processed_transcript	KNOWN	None	19733	None	None	28166918	28167653	-1	RANBP20	KIAA0370, FLJ22519
16	XPO6	ENSG00000169180	ENST00000569973	processed_transcript	KNOWN	None	19733	None	None	28167454	28176740	-1	RANBP20	KIAA0370, FLJ22519
16	XPO6	ENSG00000169180	ENST00000573645	processed_transcript	KNOWN	None	19733	None	None	28167636	28184443	-1	RANBP20	KIAA0370, FLJ22519
16	XPO6	ENSG00000169180	ENST00000570033	protein_coding	PUTATIVE	None	19733	428	141	28181166	28192443	-1	RANBP20	KIAA0370, FLJ22519
16	XPO6	ENSG00000169180	ENST00000569951	protein_coding	PUTATIVE	None	19733	65	20	28187379	28222797	-1	RANBP20	KIAA0370, FLJ22519
16	XPO6	ENSG00000169180	ENST00000566073	protein_coding	PUTATIVE	None	19733	52	16	28192262	28223241	-1	RANBP20	KIAA0370, FLJ22519
HSCHR6_MHC_DBB	NFKBIL1	ENSG00000236196	ENST00000456607	protein_coding	KNOWN	None	7800	1077	358	31496824	31508774	1	NFKBIL	IKBL
HSCHR6_MHC_DBB	NFKBIL1	ENSG00000236196	ENST00000455376	protein_coding	KNOWN	None	7800	1146	381	31497534	31508774	1	NFKBIL	IKBL
HSCHR6_MHC_DBB	NFKBIL1	ENSG00000236196	ENST00000430501	protein_coding	KNOWN	None	7800	1101	366	31497566	31508774	1	NFKBIL	IKBL
HSCHR6_MHC_DBB	NFKBIL1	ENSG00000236196	ENST00000460420	processed_transcript	KNOWN	None	7800	None	None	31497593	31507650	1	NFKBIL	IKBL
HSCHR6_MHC_DBB	NFKBIL1	ENSG00000236196	ENST00000464054	retained_intron	KNOWN	None	7800	None	None	31497614	31507904	1	NFKBIL	IKBL
16	None	ENSG00000260851	ENST00000561527	retained_intron	KNOWN	None	None	None	None	66503715	66551215	-1	None	None
16	None	ENSG00000260851	ENST00000561728	nonsense_mediated_decay	KNOWN	None	None	220	72	66503747	66551105	-1	None	None
14	CCDC85C	ENSG00000205476	ENST00000380243	protein_coding	KNOWN	CCDS45161	35459	1260	419	99977603	100070363	-1	None	None
14	CCDC85C	ENSG00000205476	ENST00000557769	protein_coding	PUTATIVE	None	35459	195	64	99978369	99988900	-1	None	None
14	CCDC85C	ENSG00000205476	ENST00000557576	protein_coding	NOVEL	None	35459	371	122	99981298	100002425	-1	None	None
14	CCDC85C	ENSG00000205476	ENST00000555822	protein_coding	PUTATIVE	None	35459	195	64	99981424	99989282	-1	None	None
14	CCDC85C	ENSG00000205476	ENST00000554996	protein_coding	NOVEL	None	35459	573	190	99981537	100046463	-1	None	None
14	CCDC85C	ENSG00000205476	ENST00000554877	protein_coding	PUTATIVE	None	35459	141	46	99981637	100042929	-1	None	None
14	CCDC85C	ENSG00000205476	ENST00000556348	protein_coding	PUTATIVE	None	35459	349	115	99982602	100039312	-1	None	None
1	PABPC4	ENSG00000090621	ENST00000482028	retained_intron	KNOWN	None	8557	None	None	40026488	40027682	-1	None	iPABP, APP-1
1	PABPC4	ENSG00000090621	ENST00000492468	retained_intron	KNOWN	None	8557	None	None	40026488	40029710	-1	None	iPABP, APP-1
1	PABPC4	ENSG00000090621	ENST00000437136	protein_coding	PUTATIVE	None	8557	587	194	40026488	40030163	-1	None	iPABP, APP-1
1	PABPC4	ENSG00000090621	ENST00000468476	retained_intron	KNOWN	None	8557	None	None	40026488	40030198	-1	None	iPABP, APP-1
1	PABPC4	ENSG00000090621	ENST00000372862	protein_coding	NOVEL	None	8557	1848	615	40026488	40041925	-1	None	iPABP, APP-1
1	PABPC4	ENSG00000090621	ENST00000372858	protein_coding	KNOWN	CCDS44115	8557	1983	660	40026488	40042073	-1	None	iPABP, APP-1
1	PABPC4	ENSG00000090621	ENST00000372857	protein_coding	KNOWN	CCDS438	8557	1935	644	40026488	40042416	-1	None	iPABP, APP-1
1	PABPC4	ENSG00000090621	ENST00000372856	protein_coding	KNOWN	CCDS44114	8557	1896	631	40026488	40042423	-1	None	iPABP, APP-1
1	PABPC4	ENSG00000090621	ENST00000530186	protein_coding	KNOWN	None	8557	206	67	40027224	40027860	-1	None	iPABP, APP-1
1	PABPC4	ENSG00000090621	ENST00000421687	protein_coding	NOVEL	None	8557	1652	549	40027359	40038156	-1	None	iPABP, APP-1
1	PABPC4	ENSG00000090621	ENST00000484555	retained_intron	KNOWN	None	8557	None	None	40028056	40029796	-1	None	iPABP, APP-1
1	PABPC4	ENSG00000090621	ENST00000525045	retained_intron	KNOWN	None	8557	None	None	40029118	40030905	-1	None	iPABP, APP-1
1	PABPC4	ENSG00000090621	ENST00000527718	protein_coding	NOVEL	None	8557	746	247	40029286	40034529	-1	None	iPABP, APP-1
1	PABPC4	ENSG00000090621	ENST00000477556	retained_intron	KNOWN	None	8557	None	None	40029288	40030200	-1	None	iPABP, APP-1
1	PABPC4	ENSG00000090621	ENST00000461578	retained_intron	KNOWN	None	8557	None	None	40029468	40030208	-1	None	iPABP, APP-1
1	PABPC4	ENSG00000090621	ENST00000483770	retained_intron	KNOWN	None	8557	None	None	40029905	40030855	-1	None	iPABP, APP-1
1	PABPC4	ENSG00000090621	ENST00000525669	retained_intron	KNOWN	None	8557	None	None	40030057	40034528	-1	None	iPABP, APP-1
1	PABPC4	ENSG00000090621	ENST00000470443	nonsense_mediated_decay	KNOWN	None	8557	337	111	40030778	40041453	-1	None	iPABP, APP-1
1	PABPC4	ENSG00000090621	ENST00000513632	retained_intron	KNOWN	None	8557	None	None	40030971	40034080	-1	None	iPABP, APP-1
1	PABPC4	ENSG00000090621	ENST00000525751	retained_intron	KNOWN	None	8557	None	None	40034370	40036847	-1	None	iPABP, APP-1
1	PABPC4	ENSG00000090621	ENST00000474378	protein_coding	PUTATIVE	None	8557	591	196	40034497	40038090	-1	None	iPABP, APP-1
1	PABPC4	ENSG00000090621	ENST00000529216	processed_transcript	PUTATIVE	None	8557	None	None	40034534	40036867	-1	None	iPABP, APP-1
1	PABPC4	ENSG00000090621	ENST00000492519	retained_intron	KNOWN	None	8557	None	None	40035167	40035662	-1	None	iPABP, APP-1
1	PABPC4	ENSG00000090621	ENST00000451091	protein_coding	KNOWN	None	8557	387	128	40038065	40042462	-1	None	iPABP, APP-1
1	PABPC4	ENSG00000090621	ENST00000531243	protein_coding	KNOWN	None	8557	14	3	40041610	40042459	-1	None	iPABP, APP-1
19	CYP4F12	ENSG00000186204	ENST00000550308	protein_coding	KNOWN	CCDS42517	18857	1575	524	15783567	15807984	1	None	None
19	CYP4F12	ENSG00000186204	ENST00000547332	nonsense_mediated_decay	KNOWN	None	18857	315	104	15783828	15793257	1	None	None
19	CYP4F12	ENSG00000186204	ENST00000547471	retained_intron	KNOWN	None	18857	None	None	15783856	15791396	1	None	None
19	CYP4F12	ENSG00000186204	ENST00000451750	retained_intron	KNOWN	None	18857	None	None	15783886	15791754	1	None	None
19	CYP4F12	ENSG00000186204	ENST00000430608	retained_intron	KNOWN	None	18857	None	None	15783886	15791952	1	None	None
19	CYP4F12	ENSG00000186204	ENST00000548237	nonsense_mediated_decay	KNOWN	None	18857	240	79	15783886	15793245	1	None	None
19	CYP4F12	ENSG00000186204	ENST00000518629	retained_intron	KNOWN	None	18857	None	None	15783892	15807957	1	None	None
19	CYP4F12	ENSG00000186204	ENST00000548501	retained_intron	KNOWN	None	18857	None	None	15783897	15791334	1	None	None
19	CYP4F12	ENSG00000186204	ENST00000549622	retained_intron	KNOWN	None	18857	None	None	15783897	15791472	1	None	None
19	CYP4F12	ENSG00000186204	ENST00000548435	nonsense_mediated_decay	KNOWN	None	18857	309	102	15783897	15791937	1	None	None
19	CYP4F12	ENSG00000186204	ENST00000546792	retained_intron	KNOWN	None	18857	None	None	15783898	15791517	1	None	None
19	CYP4F12	ENSG00000186204	ENST00000550264	retained_intron	KNOWN	None	18857	None	None	15783900	15789375	1	None	None
19	CYP4F12	ENSG00000186204	ENST00000517734	nonsense_mediated_decay	KNOWN	None	18857	309	102	15783900	15807953	1	None	None
19	CYP4F12	ENSG00000186204	ENST00000551607	protein_coding	PUTATIVE	None	18857	211	69	15783922	15791062	1	None	None
19	CYP4F12	ENSG00000186204	ENST00000324632	protein_coding	KNOWN	CCDS42517	18857	1575	524	15784288	15807956	1	None	None
19	CYP4F12	ENSG00000186204	ENST00000552048	nonsense_mediated_decay	KNOWN	None	18857	294	97	15784361	15793244	1	None	None
19	CYP4F12	ENSG00000186204	ENST00000550627	retained_intron	KNOWN	None	18857	None	None	15792247	15807953	1	None	None
19	CYP4F12	ENSG00000186204	ENST00000546608	retained_intron	KNOWN	None	18857	None	None	15792311	15807953	1	None	None
12	KRT8	ENSG00000170421	ENST00000552551	protein_coding	KNOWN	CCDS8841	6446	1452	483	53290977	53343626	-1	None	CARD2, K8, CK8, CYK8, K2C8, KO
12	KRT8	ENSG00000170421	ENST00000293308	protein_coding	KNOWN	CCDS8841	6446	1452	483	53290978	53298856	-1	None	CARD2, K8, CK8, CYK8, K2C8, KO
12	KRT8	ENSG00000170421	ENST00000546583	retained_intron	KNOWN	None	6446	None	None	53290992	53298836	-1	None	CARD2, K8, CK8, CYK8, K2C8, KO
12	KRT8	ENSG00000170421	ENST00000550170	retained_intron	KNOWN	None	6446	None	None	53291000	53298828	-1	None	CARD2, K8, CK8, CYK8, K2C8, KO
12	KRT8	ENSG00000170421	ENST00000546897	protein_coding	KNOWN	CCDS8841	6446	1452	483	53291065	53343608	-1	None	CARD2, K8, CK8, CYK8, K2C8, KO
12	KRT8	ENSG00000170421	ENST00000552150	protein_coding	PUTATIVE	CCDS58234	6446	1536	511	53291081	53320253	-1	None	CARD2, K8, CK8, CYK8, K2C8, KO
12	KRT8	ENSG00000170421	ENST00000547031	retained_intron	KNOWN	None	6446	None	None	53292253	53295007	-1	None	CARD2, K8, CK8, CYK8, K2C8, KO
12	KRT8	ENSG00000170421	ENST00000549176	retained_intron	KNOWN	None	6446	None	None	53293578	53295988	-1	None	CARD2, K8, CK8, CYK8, K2C8, KO
12	KRT8	ENSG00000170421	ENST00000546826	protein_coding	KNOWN	None	6446	821	272	53293719	53343666	-1	None	CARD2, K8, CK8, CYK8, K2C8, KO
12	KRT8	ENSG00000170421	ENST00000547176	protein_coding	NOVEL	None	6446	250	82	53293780	53295731	-1	None	CARD2, K8, CK8, CYK8, K2C8, KO
12	KRT8	ENSG00000170421	ENST00000548998	protein_coding	PUTATIVE	None	6446	868	288	53293792	53343560	-1	None	CARD2, K8, CK8, CYK8, K2C8, KO
12	KRT8	ENSG00000170421	ENST00000546900	protein_coding	PUTATIVE	None	6446	339	112	53294372	53297432	-1	None	CARD2, K8, CK8, CYK8, K2C8, KO
12	KRT8	ENSG00000170421	ENST00000547413	protein_coding	KNOWN	None	6446	533	176	53295648	53300402	-1	None	CARD2, K8, CK8, CYK8, K2C8, KO
12	KRT8	ENSG00000170421	ENST00000546542	protein_coding	PUTATIVE	None	6446	540	179	53298460	53300844	-1	None	CARD2, K8, CK8, CYK8, K2C8, KO
12	KRT8	ENSG00000170421	ENST00000549198	processed_transcript	KNOWN	None	6446	None	None	53342268	53343615	-1	None	CARD2, K8, CK8, CYK8, K2C8, KO
12	KRT8	ENSG00000170421	ENST00000552877	processed_transcript	KNOWN	None	6446	None	None	53342434	53343658	-1	None	CARD2, K8, CK8, CYK8, K2C8, KO
12	KRT8	ENSG00000170421	ENST00000551318	processed_transcript	KNOWN	None	6446	None	None	53342435	53343704	-1	None	CARD2, K8, CK8, CYK8, K2C8, KO
12	KRT8	ENSG00000170421	ENST00000546921	retained_intron	KNOWN	None	6446	None	None	53343000	53343738	-1	None	CARD2, K8, CK8, CYK8, K2C8, KO
13	MLNR	ENSG00000102539	ENST00000218721	protein_coding	KNOWN	CCDS9414	4495	1239	412	49794474	49796513	1	GPR38	None
13	MLNR	ENSG00000102539	ENST00000398307	protein_coding	KNOWN	None	4495	1161	386	49794474	49796513	1	GPR38	None
X	GTPBP6	ENSG00000178605	ENST00000485332	retained_intron	KNOWN	None	30189	None	None	221196	229130	-1	None	PGPL, FLJ20977
X	GTPBP6	ENSG00000178605	ENST00000400701	protein_coding	KNOWN	None	30189	862	286	221417	230884	-1	None	PGPL, FLJ20977
X	GTPBP6	ENSG00000178605	ENST00000326153	protein_coding	KNOWN	None	30189	864	287	220025	230886	-1	None	PGPL, FLJ20977
11	TRIM3	ENSG00000110171	ENST00000533064	retained_intron	KNOWN	None	10064	None	None	6469843	6471621	-1	RNF22	HAC1, BERP, RNF97
11	TRIM3	ENSG00000110171	ENST00000533309	retained_intron	KNOWN	None	10064	None	None	6469844	6473199	-1	RNF22	HAC1, BERP, RNF97
11	TRIM3	ENSG00000110171	ENST00000525074	protein_coding	KNOWN	CCDS7764	10064	2235	744	6469844	6495689	-1	RNF22	HAC1, BERP, RNF97
11	TRIM3	ENSG00000110171	ENST00000345851	protein_coding	KNOWN	CCDS7764	10064	2235	744	6469845	6495214	-1	RNF22	HAC1, BERP, RNF97
11	TRIM3	ENSG00000110171	ENST00000532542	retained_intron	KNOWN	None	10064	None	None	6469847	6474475	-1	RNF22	HAC1, BERP, RNF97
11	TRIM3	ENSG00000110171	ENST00000530724	processed_transcript	PUTATIVE	None	10064	None	None	6471399	6472529	-1	RNF22	HAC1, BERP, RNF97
11	TRIM3	ENSG00000110171	ENST00000526845	processed_transcript	PUTATIVE	None	10064	None	None	6472768	6477374	-1	RNF22	HAC1, BERP, RNF97
11	TRIM3	ENSG00000110171	ENST00000529058	processed_transcript	KNOWN	None	10064	None	None	6477356	6478963	-1	RNF22	HAC1, BERP, RNF97
11	TRIM3	ENSG00000110171	ENST00000527237	processed_transcript	PUTATIVE	None	10064	None	None	6477382	6477841	-1	RNF22	HAC1, BERP, RNF97
11	TRIM3	ENSG00000110171	ENST00000528227	protein_coding	NOVEL	None	10064	782	259	6478174	6495153	-1	RNF22	HAC1, BERP, RNF97
11	TRIM3	ENSG00000110171	ENST00000528932	processed_transcript	KNOWN	None	10064	None	None	6478634	6495123	-1	RNF22	HAC1, BERP, RNF97
11	TRIM3	ENSG00000110171	ENST00000529529	protein_coding	PUTATIVE	None	10064	290	95	6479368	6495624	-1	RNF22	HAC1, BERP, RNF97
11	TRIM3	ENSG00000110171	ENST00000537602	protein_coding	KNOWN	None	10064	2001	666	6469847	6495214	-1	RNF22	HAC1, BERP, RNF97
11	TRIM3	ENSG00000110171	ENST00000359518	protein_coding	KNOWN	CCDS7764	10064	2235	744	6469847	6495205	-1	RNF22	HAC1, BERP, RNF97
11	TRIM3	ENSG00000110171	ENST00000536344	protein_coding	KNOWN	CCDS58115	10064	1878	625	6469847	6495090	-1	RNF22	HAC1, BERP, RNF97
1	SOX13	ENSG00000143842	ENST00000367203	processed_transcript	KNOWN	None	11192	None	None	204042243	204088987	1	None	Sox-13, ICA12, MGC117216
1	SOX13	ENSG00000143842	ENST00000534185	processed_transcript	KNOWN	None	11192	None	None	204042281	204083698	1	None	Sox-13, ICA12, MGC117216
1	SOX13	ENSG00000143842	ENST00000530882	processed_transcript	KNOWN	None	11192	None	None	204042284	204086286	1	None	Sox-13, ICA12, MGC117216
1	SOX13	ENSG00000143842	ENST00000367204	protein_coding	KNOWN	CCDS44299	11192	1869	622	204042732	204096863	1	None	Sox-13, ICA12, MGC117216
1	SOX13	ENSG00000143842	ENST00000525442	protein_coding	KNOWN	None	11192	173	56	204043154	204082216	1	None	Sox-13, ICA12, MGC117216
1	SOX13	ENSG00000143842	ENST00000528591	protein_coding	KNOWN	None	11192	539	178	204047257	204085755	1	None	Sox-13, ICA12, MGC117216
1	SOX13	ENSG00000143842	ENST00000272193	processed_transcript	KNOWN	None	11192	None	None	204085193	204095280	1	None	Sox-13, ICA12, MGC117216
1	SOX13	ENSG00000143842	ENST00000480326	nonsense_mediated_decay	KNOWN	None	11192	386	127	204085635	204092045	1	None	Sox-13, ICA12, MGC117216
1	SOX13	ENSG00000143842	ENST00000525258	retained_intron	KNOWN	None	11192	None	None	204091514	204092857	1	None	Sox-13, ICA12, MGC117216
3	UBA5	ENSG00000081307	ENST00000356232	protein_coding	KNOWN	CCDS3076	23230	1215	404	132378310	132396788	1	UBE1DC1	FLJ23251
3	UBA5	ENSG00000081307	ENST00000480955	processed_transcript	KNOWN	None	23230	None	None	132378762	132379789	1	UBE1DC1	FLJ23251
3	UBA5	ENSG00000081307	ENST00000493720	protein_coding	PUTATIVE	None	23230	1134	377	132378790	132396033	1	UBE1DC1	FLJ23251
3	UBA5	ENSG00000081307	ENST00000468022	protein_coding	PUTATIVE	None	23230	239	78	132379154	132387771	1	UBE1DC1	FLJ23251
3	UBA5	ENSG00000081307	ENST00000464101	retained_intron	KNOWN	None	23230	None	None	132379187	132384995	1	UBE1DC1	FLJ23251
3	UBA5	ENSG00000081307	ENST00000473651	protein_coding	PUTATIVE	None	23230	1044	347	132379204	132395597	1	UBE1DC1	FLJ23251
3	UBA5	ENSG00000081307	ENST00000494238	protein_coding	PUTATIVE	CCDS3077	23230	1047	348	132379206	132396626	1	UBE1DC1	FLJ23251
3	UBA5	ENSG00000081307	ENST00000505777	nonsense_mediated_decay	KNOWN	None	23230	195	64	132379240	132389884	1	UBE1DC1	FLJ23251
3	UBA5	ENSG00000081307	ENST00000464068	protein_coding	PUTATIVE	None	23230	332	109	132379541	132390643	1	UBE1DC1	FLJ23251
3	UBA5	ENSG00000081307	ENST00000489361	protein_coding	PUTATIVE	None	23230	326	107	132384583	132389128	1	UBE1DC1	FLJ23251
3	UBA5	ENSG00000081307	ENST00000468227	retained_intron	KNOWN	None	23230	None	None	132386102	132396626	1	UBE1DC1	FLJ23251
3	UBA5	ENSG00000081307	ENST00000469158	retained_intron	KNOWN	None	23230	None	None	132389526	132391004	1	UBE1DC1	FLJ23251
3	UBA5	ENSG00000081307	ENST00000494112	retained_intron	KNOWN	None	23230	None	None	132394226	132395385	1	UBE1DC1	FLJ23251
3	UBA5	ENSG00000081307	ENST00000264991	protein_coding	KNOWN	CCDS3077	23230	1047	348	132373290	132396941	1	UBE1DC1	FLJ23251
4	MRPS18C	ENSG00000163319	ENST00000512375	retained_intron	KNOWN	None	16633	None	None	84377085	84380297	1	None	MRPS18-1, CGI-134, FLJ11146, FLJ22967
4	MRPS18C	ENSG00000163319	ENST00000295491	protein_coding	KNOWN	CCDS3604	16633	429	142	84377118	84383451	1	None	MRPS18-1, CGI-134, FLJ11146, FLJ22967
4	MRPS18C	ENSG00000163319	ENST00000507019	protein_coding	NOVEL	None	16633	345	114	84377136	84382576	1	None	MRPS18-1, CGI-134, FLJ11146, FLJ22967
4	MRPS18C	ENSG00000163319	ENST00000507349	protein_coding	NOVEL	None	16633	207	68	84377208	84382390	1	None	MRPS18-1, CGI-134, FLJ11146, FLJ22967
4	MRPS18C	ENSG00000163319	ENST00000509970	protein_coding	PUTATIVE	None	16633	340	112	84377236	84388657	1	None	MRPS18-1, CGI-134, FLJ11146, FLJ22967
4	MRPS18C	ENSG00000163319	ENST00000505719	protein_coding	PUTATIVE	None	16633	279	92	84377243	84382481	1	None	MRPS18-1, CGI-134, FLJ11146, FLJ22967
4	MRPS18C	ENSG00000163319	ENST00000505525	retained_intron	KNOWN	None	16633	None	None	84380773	84382389	1	None	MRPS18-1, CGI-134, FLJ11146, FLJ22967
4	MRPS18C	ENSG00000163319	ENST00000514581	retained_intron	KNOWN	None	16633	None	None	84380825	84382388	1	None	MRPS18-1, CGI-134, FLJ11146, FLJ22967
4	MRPS18C	ENSG00000163319	ENST00000509571	processed_transcript	PUTATIVE	None	16633	None	None	84382346	84390888	1	None	MRPS18-1, CGI-134, FLJ11146, FLJ22967
2	MYO3B	ENSG00000071909	ENST00000409940	retained_intron	KNOWN	None	15576	None	None	171034655	171376488	1	None	None
2	MYO3B	ENSG00000071909	ENST00000438642	processed_transcript	KNOWN	None	15576	None	None	171034655	171508149	1	None	None
2	MYO3B	ENSG00000071909	ENST00000409044	protein_coding	NOVEL	CCDS46446	15576	3945	1314	171034655	171510991	1	None	None
2	MYO3B	ENSG00000071909	ENST00000317935	nonsense_mediated_decay	KNOWN	None	15576	3756	1251	171034655	171510991	1	None	None
2	MYO3B	ENSG00000071909	ENST00000408978	protein_coding	NOVEL	CCDS42773	15576	4026	1341	171034655	171510991	1	None	None
2	MYO3B	ENSG00000071909	ENST00000484338	protein_coding	PUTATIVE	None	15576	3316	1104	171036659	171356318	1	None	None
2	MYO3B	ENSG00000071909	ENST00000442690	protein_coding	PUTATIVE	None	15576	1081	359	171055718	171239276	1	None	None
2	MYO3B	ENSG00000071909	ENST00000602629	processed_transcript	KNOWN	None	15576	None	None	171055762	171511681	1	None	None
2	MYO3B	ENSG00000071909	ENST00000469359	processed_transcript	KNOWN	None	15576	None	None	171264240	171268935	1	None	None
2	MYO3B	ENSG00000071909	ENST00000334231	protein_coding	KNOWN	None	15576	4053	1350	171036663	171511662	1	None	None
19	TM6SF2	ENSG00000213996	ENST00000590431	retained_intron	KNOWN	None	11861	None	None	19375173	19377525	-1	None	Lpr4
19	TM6SF2	ENSG00000213996	ENST00000591001	retained_intron	KNOWN	None	11861	None	None	19375173	19384065	-1	None	Lpr4
19	TM6SF2	ENSG00000213996	ENST00000431465	retained_intron	KNOWN	None	11861	None	None	19375174	19384074	-1	None	Lpr4
19	TM6SF2	ENSG00000213996	ENST00000389363	protein_coding	KNOWN	CCDS42528	11861	1134	377	19375175	19384097	-1	None	Lpr4
19	TM6SF2	ENSG00000213996	ENST00000606944	retained_intron	KNOWN	None	11861	None	None	19375851	19377728	-1	None	Lpr4
19	TM6SF2	ENSG00000213996	ENST00000586107	processed_transcript	KNOWN	None	11861	None	None	19379494	19384200	-1	None	Lpr4
13	CDADC1	ENSG00000102543	ENST00000251108	protein_coding	KNOWN	CCDS9415	20299	1545	514	49822061	49867618	1	None	NYD-SP15
13	CDADC1	ENSG00000102543	ENST00000496952	processed_transcript	KNOWN	None	20299	None	None	49822072	49830051	1	None	NYD-SP15
13	CDADC1	ENSG00000102543	ENST00000496061	nonsense_mediated_decay	KNOWN	None	20299	462	153	49822077	49841661	1	None	NYD-SP15
13	CDADC1	ENSG00000102543	ENST00000466868	processed_transcript	KNOWN	None	20299	None	None	49822083	49841921	1	None	NYD-SP15
13	CDADC1	ENSG00000102543	ENST00000484126	nonsense_mediated_decay	KNOWN	None	20299	309	102	49822113	49841793	1	None	NYD-SP15
13	CDADC1	ENSG00000102543	ENST00000429346	protein_coding	PUTATIVE	None	20299	290	95	49822184	49840062	1	None	NYD-SP15
13	CDADC1	ENSG00000102543	ENST00000538056	protein_coding	KNOWN	None	20299	462	153	49822047	49840046	1	None	NYD-SP15
13	CDADC1	ENSG00000102543	ENST00000444959	protein_coding	KNOWN	None	20299	951	316	49822083	49866333	1	None	NYD-SP15
6	DPCR1	ENSG00000168631	ENST00000462446	protein_coding	NOVEL	CCDS4692	21666	4182	1393	30908749	30921998	1	None	PBLT, bCX105N19.6
6	DPCR1	ENSG00000168631	ENST00000304311	protein_coding	KNOWN	None	21666	708	235	30908777	30921998	1	None	PBLT, bCX105N19.6
20	CYP24A1	ENSG00000019186	ENST00000216862	protein_coding	KNOWN	CCDS33491	2602	1545	514	52769988	52790512	-1	CYP24	CP24, P450-CC24
20	CYP24A1	ENSG00000019186	ENST00000395955	protein_coding	KNOWN	CCDS46616	2602	1347	448	52770501	52790188	-1	CYP24	CP24, P450-CC24
20	CYP24A1	ENSG00000019186	ENST00000460643	processed_transcript	PUTATIVE	None	2602	None	None	52770909	52773837	-1	CYP24	CP24, P450-CC24
20	CYP24A1	ENSG00000019186	ENST00000395954	protein_coding	PUTATIVE	None	2602	1119	372	52771252	52788492	-1	CYP24	CP24, P450-CC24
20	CYP24A1	ENSG00000019186	ENST00000487593	processed_transcript	PUTATIVE	None	2602	None	None	52779119	52781087	-1	CYP24	CP24, P450-CC24
20	CYP24A1	ENSG00000019186	ENST00000472970	processed_transcript	PUTATIVE	None	2602	None	None	52789339	52789955	-1	CYP24	CP24, P450-CC24
11	OTUB1	ENSG00000167770	ENST00000301453	retained_intron	KNOWN	None	23077	None	None	63753325	63765883	1	None	FLJ20113, FLJ40710
11	OTUB1	ENSG00000167770	ENST00000541478	protein_coding	PUTATIVE	None	23077	513	170	63753469	63765848	1	None	FLJ20113, FLJ40710
11	OTUB1	ENSG00000167770	ENST00000535715	protein_coding	PUTATIVE	None	23077	861	286	63753477	63769283	1	None	FLJ20113, FLJ40710
11	OTUB1	ENSG00000167770	ENST00000428192	protein_coding	KNOWN	CCDS8055	23077	816	271	63753484	63765175	1	None	FLJ20113, FLJ40710
11	OTUB1	ENSG00000167770	ENST00000538426	protein_coding	KNOWN	CCDS8055	23077	816	271	63753885	63765887	1	None	FLJ20113, FLJ40710
11	OTUB1	ENSG00000167770	ENST00000543004	protein_coding	KNOWN	None	23077	843	280	63753918	63765811	1	None	FLJ20113, FLJ40710
11	OTUB1	ENSG00000167770	ENST00000447683	retained_intron	KNOWN	None	23077	None	None	63753921	63758057	1	None	FLJ20113, FLJ40710
11	OTUB1	ENSG00000167770	ENST00000536443	processed_transcript	KNOWN	None	23077	None	None	63753941	63758104	1	None	FLJ20113, FLJ40710
11	OTUB1	ENSG00000167770	ENST00000543988	protein_coding	PUTATIVE	None	23077	726	241	63754314	63765322	1	None	FLJ20113, FLJ40710
11	OTUB1	ENSG00000167770	ENST00000535140	nonsense_mediated_decay	KNOWN	None	23077	309	102	63754316	63764897	1	None	FLJ20113, FLJ40710
11	OTUB1	ENSG00000167770	ENST00000536943	processed_transcript	PUTATIVE	None	23077	None	None	63768587	63769239	1	None	FLJ20113, FLJ40710
11	OTUB1	ENSG00000167770	ENST00000422031	protein_coding	KNOWN	None	23077	927	308	63753484	63765175	1	None	FLJ20113, FLJ40710
17	LGALS3BP	ENSG00000108679	ENST00000591778	protein_coding	NOVEL	None	6564	618	205	76967320	76976000	-1	None	MAC-2-BP, 90K, BTBD17B, TANGO10B
17	LGALS3BP	ENSG00000108679	ENST00000262776	protein_coding	KNOWN	CCDS11759	6564	1758	585	76967320	76976191	-1	None	MAC-2-BP, 90K, BTBD17B, TANGO10B
17	LGALS3BP	ENSG00000108679	ENST00000587311	nonsense_mediated_decay	KNOWN	None	6564	147	48	76967338	76976005	-1	None	MAC-2-BP, 90K, BTBD17B, TANGO10B
17	LGALS3BP	ENSG00000108679	ENST00000586720	nonsense_mediated_decay	KNOWN	None	6564	57	18	76967367	76975990	-1	None	MAC-2-BP, 90K, BTBD17B, TANGO10B
17	LGALS3BP	ENSG00000108679	ENST00000587251	nonsense_mediated_decay	KNOWN	None	6564	342	113	76967413	76976005	-1	None	MAC-2-BP, 90K, BTBD17B, TANGO10B
17	LGALS3BP	ENSG00000108679	ENST00000588508	retained_intron	KNOWN	None	6564	None	None	76968468	76971079	-1	None	MAC-2-BP, 90K, BTBD17B, TANGO10B
17	LGALS3BP	ENSG00000108679	ENST00000588198	nonsense_mediated_decay	KNOWN	None	6564	396	131	76968552	76976029	-1	None	MAC-2-BP, 90K, BTBD17B, TANGO10B
17	LGALS3BP	ENSG00000108679	ENST00000589527	protein_coding	KNOWN	None	6564	777	258	76968639	76973405	-1	None	MAC-2-BP, 90K, BTBD17B, TANGO10B
17	LGALS3BP	ENSG00000108679	ENST00000588587	retained_intron	KNOWN	None	6564	None	None	76968730	76972238	-1	None	MAC-2-BP, 90K, BTBD17B, TANGO10B
17	LGALS3BP	ENSG00000108679	ENST00000592255	retained_intron	KNOWN	None	6564	None	None	76968851	76970878	-1	None	MAC-2-BP, 90K, BTBD17B, TANGO10B
17	LGALS3BP	ENSG00000108679	ENST00000585407	protein_coding	PUTATIVE	None	6564	633	210	76968880	76976017	-1	None	MAC-2-BP, 90K, BTBD17B, TANGO10B
17	LGALS3BP	ENSG00000108679	ENST00000589775	protein_coding	KNOWN	None	6564	629	208	76969052	76976005	-1	None	MAC-2-BP, 90K, BTBD17B, TANGO10B
17	LGALS3BP	ENSG00000108679	ENST00000589906	protein_coding	NOVEL	None	6564	432	143	76969057	76975990	-1	None	MAC-2-BP, 90K, BTBD17B, TANGO10B
17	LGALS3BP	ENSG00000108679	ENST00000587310	nonsense_mediated_decay	KNOWN	None	6564	126	41	76969082	76975993	-1	None	MAC-2-BP, 90K, BTBD17B, TANGO10B
17	LGALS3BP	ENSG00000108679	ENST00000588205	nonsense_mediated_decay	KNOWN	None	6564	189	62	76969270	76973298	-1	None	MAC-2-BP, 90K, BTBD17B, TANGO10B
17	LGALS3BP	ENSG00000108679	ENST00000588990	nonsense_mediated_decay	KNOWN	None	6564	126	41	76970713	76976009	-1	None	MAC-2-BP, 90K, BTBD17B, TANGO10B
17	LGALS3BP	ENSG00000108679	ENST00000588899	nonsense_mediated_decay	KNOWN	None	6564	189	62	76970714	76975973	-1	None	MAC-2-BP, 90K, BTBD17B, TANGO10B
17	LGALS3BP	ENSG00000108679	ENST00000591274	protein_coding	KNOWN	None	6564	266	87	76970880	76975925	-1	None	MAC-2-BP, 90K, BTBD17B, TANGO10B
17	LGALS3BP	ENSG00000108679	ENST00000586300	retained_intron	KNOWN	None	6564	None	None	76972907	76975957	-1	None	MAC-2-BP, 90K, BTBD17B, TANGO10B
HSCHR6_MHC_SSTO	CYP21A2	ENSG00000198457	ENST00000448314	protein_coding	KNOWN	None	2600	1485	494	31997928	32001265	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_SSTO	CYP21A2	ENSG00000198457	ENST00000480731	processed_transcript	PUTATIVE	None	2600	None	None	31997946	31999074	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_SSTO	CYP21A2	ENSG00000198457	ENST00000494168	retained_intron	KNOWN	None	2600	None	None	31997995	32001269	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_SSTO	CYP21A2	ENSG00000198457	ENST00000468185	retained_intron	KNOWN	None	2600	None	None	31997995	32001269	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_SSTO	CYP21A2	ENSG00000198457	ENST00000470187	retained_intron	KNOWN	None	2600	None	None	31997995	32001269	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_SSTO	CYP21A2	ENSG00000198457	ENST00000477608	retained_intron	KNOWN	None	2600	None	None	31998000	32001269	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_SSTO	CYP21A2	ENSG00000198457	ENST00000469046	retained_intron	KNOWN	None	2600	None	None	31998045	31998742	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_SSTO	CYP21A2	ENSG00000198457	ENST00000486312	processed_transcript	KNOWN	None	2600	None	None	31998045	31999110	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_SSTO	CYP21A2	ENSG00000198457	ENST00000480660	processed_transcript	KNOWN	None	2600	None	None	31998045	31999178	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_SSTO	CYP21A2	ENSG00000198457	ENST00000452708	protein_coding	KNOWN	None	2600	1395	464	31998045	32001297	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_SSTO	CYP21A2	ENSG00000198457	ENST00000547367	protein_coding	KNOWN	None	2600	1488	495	31965200	32001269	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_SSTO	CYP21A2	ENSG00000198457	ENST00000547880	protein_coding	KNOWN	None	2600	1398	465	31965200	32001269	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
HSCHR6_MHC_SSTO	CYP21A2	ENSG00000198457	ENST00000547683	protein_coding	KNOWN	None	2600	1488	495	31965222	32001142	1	CYP21, CYP21B	P450c21B, CA21H, CPS1, CAH1
14	HHIPL1	ENSG00000182218	ENST00000330710	protein_coding	KNOWN	CCDS45162	19710	2349	782	100111447	100146906	1	KIAA1822	None
14	HHIPL1	ENSG00000182218	ENST00000357223	protein_coding	KNOWN	CCDS9953	19710	1827	608	100111480	100135614	1	KIAA1822	None
22	GAL3ST1	ENSG00000128242	ENST00000406955	protein_coding	KNOWN	CCDS13879	24240	1272	423	30950622	30956763	-1	None	CST
22	GAL3ST1	ENSG00000128242	ENST00000402321	protein_coding	KNOWN	CCDS13879	24240	1272	423	30950622	30961120	-1	None	CST
22	GAL3ST1	ENSG00000128242	ENST00000402369	protein_coding	KNOWN	CCDS13879	24240	1272	423	30950622	30970565	-1	None	CST
22	GAL3ST1	ENSG00000128242	ENST00000401975	protein_coding	KNOWN	CCDS13879	24240	1272	423	30950624	30960876	-1	None	CST
22	GAL3ST1	ENSG00000128242	ENST00000406361	protein_coding	KNOWN	CCDS13879	24240	1272	423	30950634	30970574	-1	None	CST
22	GAL3ST1	ENSG00000128242	ENST00000441967	protein_coding	KNOWN	None	24240	837	278	30951375	30962148	-1	None	CST
22	GAL3ST1	ENSG00000128242	ENST00000431313	protein_coding	NOVEL	None	24240	796	264	30951419	30970498	-1	None	CST
22	GAL3ST1	ENSG00000128242	ENST00000452827	protein_coding	KNOWN	None	24240	727	241	30951485	30956763	-1	None	CST
22	GAL3ST1	ENSG00000128242	ENST00000437282	protein_coding	KNOWN	None	24240	598	198	30951614	30956746	-1	None	CST
22	GAL3ST1	ENSG00000128242	ENST00000416358	protein_coding	KNOWN	None	24240	511	169	30951701	30968851	-1	None	CST
22	GAL3ST1	ENSG00000128242	ENST00000427899	protein_coding	NOVEL	None	24240	491	162	30951724	30956760	-1	None	CST
22	GAL3ST1	ENSG00000128242	ENST00000423299	protein_coding	KNOWN	None	24240	447	148	30951765	30960901	-1	None	CST
22	GAL3ST1	ENSG00000128242	ENST00000443136	protein_coding	KNOWN	None	24240	431	142	30951781	30968817	-1	None	CST
22	GAL3ST1	ENSG00000128242	ENST00000423371	protein_coding	NOVEL	None	24240	338	111	30951877	30968855	-1	None	CST
22	GAL3ST1	ENSG00000128242	ENST00000428682	protein_coding	KNOWN	None	24240	308	101	30951904	30960888	-1	None	CST
22	GAL3ST1	ENSG00000128242	ENST00000453479	protein_coding	KNOWN	None	24240	301	99	30951911	30953717	-1	None	CST
22	GAL3ST1	ENSG00000128242	ENST00000426220	protein_coding	KNOWN	None	24240	296	97	30951916	30968821	-1	None	CST
22	GAL3ST1	ENSG00000128242	ENST00000447224	protein_coding	KNOWN	None	24240	287	94	30951925	30956746	-1	None	CST
22	GAL3ST1	ENSG00000128242	ENST00000411821	protein_coding	KNOWN	None	24240	255	84	30951957	30968856	-1	None	CST
22	GAL3ST1	ENSG00000128242	ENST00000445645	protein_coding	KNOWN	None	24240	227	74	30951985	30968845	-1	None	CST
22	GAL3ST1	ENSG00000128242	ENST00000448604	protein_coding	KNOWN	None	24240	215	70	30951997	30968856	-1	None	CST
22	GAL3ST1	ENSG00000128242	ENST00000338911	protein_coding	KNOWN	CCDS13879	24240	1272	423	30950624	30954377	-1	None	CST
22	GAL3ST1	ENSG00000128242	ENST00000443111	protein_coding	KNOWN	CCDS13879	24240	1272	423	30950940	30968817	-1	None	CST
9	ARRDC1	ENSG00000197070	ENST00000371421	protein_coding	KNOWN	CCDS7049	28633	1302	433	140500106	140509810	1	None	MGC40555
9	ARRDC1	ENSG00000197070	ENST00000483563	processed_transcript	KNOWN	None	28633	None	None	140500137	140508766	1	None	MGC40555
9	ARRDC1	ENSG00000197070	ENST00000431925	protein_coding	KNOWN	None	28633	531	176	140500146	140508528	1	None	MGC40555
9	ARRDC1	ENSG00000197070	ENST00000461627	nonsense_mediated_decay	KNOWN	None	28633	372	123	140500148	140508193	1	None	MGC40555
9	ARRDC1	ENSG00000197070	ENST00000419386	protein_coding	KNOWN	None	28633	814	270	140500155	140509137	1	None	MGC40555
9	ARRDC1	ENSG00000197070	ENST00000466367	processed_transcript	KNOWN	None	28633	None	None	140500181	140508663	1	None	MGC40555
9	ARRDC1	ENSG00000197070	ENST00000471125	processed_transcript	KNOWN	None	28633	None	None	140500193	140508818	1	None	MGC40555
9	ARRDC1	ENSG00000197070	ENST00000495220	processed_transcript	KNOWN	None	28633	None	None	140500193	140508855	1	None	MGC40555
9	ARRDC1	ENSG00000197070	ENST00000491911	processed_transcript	KNOWN	None	28633	None	None	140505903	140509811	1	None	MGC40555
9	ARRDC1	ENSG00000197070	ENST00000497877	processed_transcript	KNOWN	None	28633	None	None	140506904	140509042	1	None	MGC40555
9	ARRDC1	ENSG00000197070	ENST00000468983	processed_transcript	KNOWN	None	28633	None	None	140507733	140508222	1	None	MGC40555
9	ARRDC1	ENSG00000197070	ENST00000475658	processed_transcript	KNOWN	None	28633	None	None	140508617	140509812	1	None	MGC40555
1	HEYL	ENSG00000163909	ENST00000372852	protein_coding	KNOWN	CCDS439	4882	987	328	40089825	40105617	-1	None	bHLHb33, HEY3, HESR3
1	HEYL	ENSG00000163909	ENST00000535435	protein_coding	KNOWN	None	4882	903	300	40092154	40098672	-1	None	bHLHb33, HEY3, HESR3
10	GDI2	ENSG00000057608	ENST00000380191	protein_coding	KNOWN	CCDS7071	4227	1338	445	5807186	5855512	-1	None	RABGDIB
10	GDI2	ENSG00000057608	ENST00000479928	processed_transcript	KNOWN	None	4227	None	None	5807192	5811352	-1	None	RABGDIB
10	GDI2	ENSG00000057608	ENST00000447751	protein_coding	KNOWN	None	4227	612	203	5807812	5827885	-1	None	RABGDIB
10	GDI2	ENSG00000057608	ENST00000380181	protein_coding	KNOWN	CCDS44352	4227	1203	400	5807917	5855374	-1	None	RABGDIB
10	GDI2	ENSG00000057608	ENST00000456041	protein_coding	KNOWN	None	4227	789	262	5815805	5855350	-1	None	RABGDIB
10	GDI2	ENSG00000057608	ENST00000418688	protein_coding	KNOWN	None	4227	465	154	5827829	5855392	-1	None	RABGDIB
10	GDI2	ENSG00000057608	ENST00000380127	protein_coding	KNOWN	None	4227	445	147	5827969	5884095	-1	None	RABGDIB
10	GDI2	ENSG00000057608	ENST00000380132	protein_coding	KNOWN	None	4227	1350	449	5807884	5855395	-1	None	RABGDIB
3	ZNF385D	ENSG00000151789	ENST00000281523	protein_coding	KNOWN	CCDS2636	26191	1188	395	21459915	21792927	-1	ZNF659	FLJ22419
3	ZNF385D	ENSG00000151789	ENST00000467140	processed_transcript	KNOWN	None	26191	None	None	21462871	21472616	-1	ZNF659	FLJ22419
3	ZNF385D	ENSG00000151789	ENST00000495739	processed_transcript	PUTATIVE	None	26191	None	None	21478312	21552478	-1	ZNF659	FLJ22419
3	ZNF385D	ENSG00000151789	ENST00000494118	processed_transcript	KNOWN	None	26191	None	None	21478504	22414123	-1	ZNF659	FLJ22419
3	ZNF385D	ENSG00000151789	ENST00000446749	nonsense_mediated_decay	KNOWN	None	26191	312	103	21478569	21792606	-1	ZNF659	FLJ22419
3	ZNF385D	ENSG00000151789	ENST00000469927	processed_transcript	PUTATIVE	None	26191	None	None	21603411	21606178	-1	ZNF659	FLJ22419
3	ZNF385D	ENSG00000151789	ENST00000478967	processed_transcript	KNOWN	None	26191	None	None	21603411	21819268	-1	ZNF659	FLJ22419
3	ZNF385D	ENSG00000151789	ENST00000494108	processed_transcript	KNOWN	None	26191	None	None	21606094	22414684	-1	ZNF659	FLJ22419
3	ZNF385D	ENSG00000151789	ENST00000474607	processed_transcript	PUTATIVE	None	26191	None	None	21919332	22210443	-1	ZNF659	FLJ22419
3	ZNF385D	ENSG00000151789	ENST00000497570	processed_transcript	KNOWN	None	26191	None	None	22175074	22210508	-1	ZNF659	FLJ22419
3	ZNF385D	ENSG00000151789	ENST00000466511	processed_transcript	KNOWN	None	26191	None	None	22209985	22414812	-1	ZNF659	FLJ22419
3	ADCY5	ENSG00000173175	ENST00000462833	protein_coding	KNOWN	CCDS3022	236	3786	1261	123001143	123168605	-1	None	AC5
3	ADCY5	ENSG00000173175	ENST00000491190	protein_coding	PUTATIVE	None	236	2760	919	123002791	123138056	-1	None	AC5
3	ADCY5	ENSG00000173175	ENST00000478092	retained_intron	KNOWN	None	236	None	None	123003293	123005958	-1	None	AC5
3	ADCY5	ENSG00000173175	ENST00000309879	protein_coding	PUTATIVE	CCDS56274	236	2736	911	123003425	123135189	-1	None	AC5
3	ADCY5	ENSG00000173175	ENST00000474577	retained_intron	KNOWN	None	236	None	None	123016104	123022926	-1	None	AC5
3	ADCY5	ENSG00000173175	ENST00000466617	protein_coding	PUTATIVE	None	236	1477	491	123019067	123123408	-1	None	AC5
3	ADCY5	ENSG00000173175	ENST00000468683	retained_intron	KNOWN	None	236	None	None	123019098	123036999	-1	None	AC5
3	ADCY5	ENSG00000173175	ENST00000483566	protein_coding	PUTATIVE	None	236	272	89	123049787	123139121	-1	None	AC5
3	ADCY5	ENSG00000173175	ENST00000476455	nonsense_mediated_decay	KNOWN	None	236	237	78	123051442	123123130	-1	None	AC5
3	ADCY5	ENSG00000173175	ENST00000470367	processed_transcript	KNOWN	None	236	None	None	123071297	123138056	-1	None	AC5
1	NT5C1A	ENSG00000116981	ENST00000235628	protein_coding	KNOWN	CCDS440	17819	1107	368	40124793	40137710	-1	None	CN-I, CN-IA, CN1A, CN1, MGC119199, MGC119201
15	RLBP1	ENSG00000140522	ENST00000268125	protein_coding	KNOWN	CCDS32324	10024	954	317	89753100	89764982	-1	None	CRALBP
15	RLBP1	ENSG00000140522	ENST00000563254	protein_coding	NOVEL	None	10024	326	107	89753233	89755074	-1	None	CRALBP
15	RLBP1	ENSG00000140522	ENST00000567787	nonsense_mediated_decay	KNOWN	None	10024	216	71	89753981	89764845	-1	None	CRALBP
15	RLBP1	ENSG00000140522	ENST00000564388	retained_intron	KNOWN	None	10024	None	None	89762793	89764836	-1	None	CRALBP
5	None	ENSG00000248994	ENST00000511693	lincRNA	KNOWN	None	None	None	None	1933977	1959290	1	None	None
5	None	ENSG00000248994	ENST00000513419	lincRNA	KNOWN	None	None	None	None	1939886	1959015	1	None	None
19	PPAN	ENSG00000130810	ENST00000253107	protein_coding	KNOWN	CCDS12225	9227	1422	473	10216965	10221970	1	None	SSF1, SSF2, SSF, BXDC3
19	PPAN	ENSG00000130810	ENST00000393793	protein_coding	PUTATIVE	None	9227	1263	420	10217095	10221930	1	None	SSF1, SSF2, SSF, BXDC3
19	PPAN	ENSG00000130810	ENST00000446223	protein_coding	PUTATIVE	None	9227	631	209	10217315	10220917	1	None	SSF1, SSF2, SSF, BXDC3
19	PPAN	ENSG00000130810	ENST00000430370	protein_coding	PUTATIVE	None	9227	291	96	10217376	10218774	1	None	SSF1, SSF2, SSF, BXDC3
19	PPAN	ENSG00000130810	ENST00000466025	retained_intron	KNOWN	None	9227	None	None	10218666	10220991	1	None	SSF1, SSF2, SSF, BXDC3
19	PPAN	ENSG00000130810	ENST00000468881	retained_intron	KNOWN	None	9227	None	None	10220638	10221505	1	None	SSF1, SSF2, SSF, BXDC3
19	PPAN	ENSG00000130810	ENST00000444703	protein_coding	PUTATIVE	None	9227	626	207	10220822	10221972	1	None	SSF1, SSF2, SSF, BXDC3
19	PPAN	ENSG00000130810	ENST00000486482	retained_intron	KNOWN	None	9227	None	None	10221134	10222310	1	None	SSF1, SSF2, SSF, BXDC3
19	PPAN	ENSG00000130810	ENST00000556468	protein_coding	KNOWN	CCDS42498	9227	2385	794	10217044	10225414	1	None	SSF1, SSF2, SSF, BXDC3
5	None	ENSG00000248597	ENST00000511698	lincRNA	KNOWN	None	None	None	None	1963723	1967268	-1	None	None
10	ENTPD1	ENSG00000138185	ENST00000453258	protein_coding	KNOWN	CCDS41554	3363	1554	517	97471536	97629452	1	CD39	NTPDase-1, ATPDase
10	ENTPD1	ENSG00000138185	ENST00000371205	protein_coding	KNOWN	CCDS7444	3363	1533	510	97515714	97626359	1	CD39	NTPDase-1, ATPDase
10	ENTPD1	ENSG00000138185	ENST00000483213	processed_transcript	KNOWN	None	3363	None	None	97515935	97607288	1	CD39	NTPDase-1, ATPDase
10	ENTPD1	ENSG00000138185	ENST00000371206	retained_intron	KNOWN	None	3363	None	None	97582993	97606153	1	CD39	NTPDase-1, ATPDase
10	ENTPD1	ENSG00000138185	ENST00000490659	processed_transcript	KNOWN	None	3363	None	None	97582995	97604604	1	CD39	NTPDase-1, ATPDase
10	ENTPD1	ENSG00000138185	ENST00000494070	processed_transcript	KNOWN	None	3363	None	None	97599047	97604310	1	CD39	NTPDase-1, ATPDase
10	ENTPD1	ENSG00000138185	ENST00000461927	processed_transcript	KNOWN	None	3363	None	None	97599057	97602170	1	CD39	NTPDase-1, ATPDase
10	ENTPD1	ENSG00000138185	ENST00000422161	processed_transcript	KNOWN	None	3363	None	None	97604332	97605977	1	CD39	NTPDase-1, ATPDase
10	ENTPD1	ENSG00000138185	ENST00000371207	protein_coding	KNOWN	CCDS53556	3363	1569	522	97515409	97637023	1	CD39	NTPDase-1, ATPDase
10	ENTPD1	ENSG00000138185	ENST00000543964	protein_coding	KNOWN	CCDS53557	3363	1209	402	97515409	97637023	1	CD39	NTPDase-1, ATPDase
10	ENTPD1	ENSG00000138185	ENST00000371203	protein_coding	KNOWN	CCDS53558	3363	1119	372	97515673	97637023	1	CD39	NTPDase-1, ATPDase
10	ENTPD1	ENSG00000138185	ENST00000539125	protein_coding	KNOWN	CCDS53558	3363	1119	372	97515673	97637023	1	CD39	NTPDase-1, ATPDase
1	HPCAL4	ENSG00000116983	ENST00000372844	protein_coding	KNOWN	CCDS441	18212	576	191	40144320	40157361	-1	None	HLP4, DKFZp761G122
1	ETNK2	ENSG00000143845	ENST00000367201	protein_coding	KNOWN	None	25575	1185	394	204100190	204121022	-1	None	FLJ10761, EKI2
1	ETNK2	ENSG00000143845	ENST00000367202	protein_coding	KNOWN	CCDS1442	25575	1161	386	204100190	204121131	-1	None	FLJ10761, EKI2
1	ETNK2	ENSG00000143845	ENST00000367197	protein_coding	PUTATIVE	None	25575	207	68	204101084	204110390	-1	None	FLJ10761, EKI2
1	ETNK2	ENSG00000143845	ENST00000422072	protein_coding	PUTATIVE	None	25575	449	148	204101090	204110415	-1	None	FLJ10761, EKI2
1	ETNK2	ENSG00000143845	ENST00000472340	retained_intron	KNOWN	None	25575	None	None	204103643	204116118	-1	None	FLJ10761, EKI2
1	ETNK2	ENSG00000143845	ENST00000492392	processed_transcript	KNOWN	None	25575	None	None	204103666	204108047	-1	None	FLJ10761, EKI2
1	ETNK2	ENSG00000143845	ENST00000422699	protein_coding	PUTATIVE	None	25575	653	216	204103676	204116703	-1	None	FLJ10761, EKI2
1	ETNK2	ENSG00000143845	ENST00000452983	protein_coding	PUTATIVE	None	25575	577	191	204106240	204116088	-1	None	FLJ10761, EKI2
1	ETNK2	ENSG00000143845	ENST00000444817	protein_coding	PUTATIVE	None	25575	443	146	204106341	204119009	-1	None	FLJ10761, EKI2
1	ETNK2	ENSG00000143845	ENST00000477125	processed_transcript	KNOWN	None	25575	None	None	204109163	204111154	-1	None	FLJ10761, EKI2
1	ETNK2	ENSG00000143845	ENST00000429525	protein_coding	PUTATIVE	None	25575	36	11	204119001	204120556	-1	None	FLJ10761, EKI2
1	ETNK2	ENSG00000143845	ENST00000367199	protein_coding	KNOWN	None	25575	954	317	204100191	204121307	-1	None	FLJ10761, EKI2
1	ETNK2	ENSG00000143845	ENST00000367198	protein_coding	KNOWN	None	25575	627	208	204100608	204116083	-1	None	FLJ10761, EKI2
2	OTX1	ENSG00000115507	ENST00000366671	protein_coding	KNOWN	CCDS1873	8521	1065	354	63277192	63284971	1	None	None
2	OTX1	ENSG00000115507	ENST00000484066	retained_intron	KNOWN	None	8521	None	None	63277876	63280681	1	None	None
2	OTX1	ENSG00000115507	ENST00000282549	protein_coding	KNOWN	CCDS1873	8521	1065	354	63277937	63284971	1	None	None
2	OTX1	ENSG00000115507	ENST00000477348	retained_intron	KNOWN	None	8521	None	None	63277965	63278939	1	None	None
2	OTX1	ENSG00000115507	ENST00000405984	nonsense_mediated_decay	KNOWN	None	8521	306	101	63277966	63283718	1	None	None
2	OTX1	ENSG00000115507	ENST00000476383	retained_intron	KNOWN	None	8521	None	None	63277986	63279342	1	None	None
6	TRAPPC3L	ENSG00000173626	ENST00000356128	protein_coding	KNOWN	None	21090	294	97	116816152	116833506	-1	BET3L	bA259P20.2, FLJ11180
6	TRAPPC3L	ENSG00000173626	ENST00000437098	protein_coding	KNOWN	None	21090	504	167	116817646	116864563	-1	BET3L	bA259P20.2, FLJ11180
6	TRAPPC3L	ENSG00000173626	ENST00000368602	protein_coding	KNOWN	CCDS47468	21090	546	181	116817646	116866773	-1	BET3L	bA259P20.2, FLJ11180
6	APOBEC2	ENSG00000124701	ENST00000244669	protein_coding	KNOWN	CCDS4848	605	675	224	41021043	41032250	1	None	ARCD1, ARP1
13	TMEM255B	ENSG00000184497	ENST00000375353	protein_coding	KNOWN	CCDS45071	28297	981	326	114462216	114514899	1	FAM70B	MGC20579
13	TMEM255B	ENSG00000184497	ENST00000488362	processed_transcript	KNOWN	None	28297	None	None	114469088	114502633	1	FAM70B	MGC20579
13	TMEM255B	ENSG00000184497	ENST00000483678	processed_transcript	KNOWN	None	28297	None	None	114469137	114472788	1	FAM70B	MGC20579
13	TMEM255B	ENSG00000184497	ENST00000375348	protein_coding	PUTATIVE	None	28297	487	161	114471109	114502830	1	FAM70B	MGC20579
13	TMEM255B	ENSG00000184497	ENST00000498692	processed_transcript	KNOWN	None	28297	None	None	114502861	114507863	1	FAM70B	MGC20579
13	TMEM255B	ENSG00000184497	ENST00000467169	processed_transcript	KNOWN	None	28297	None	None	114506023	114514926	1	FAM70B	MGC20579
5	None	ENSG00000249731	ENST00000514519	lincRNA	KNOWN	None	None	None	None	1968208	1969127	1	None	None
5	None	ENSG00000201026	ENST00000364156	misc_RNA	NOVEL	None	None	None	None	2184824	2184934	1	None	None
21	TRAPPC10	ENSG00000160218	ENST00000380221	protein_coding	PUTATIVE	None	11868	831	276	45432200	45480143	1	TMEM1	EHOC-1, TRS130
21	TRAPPC10	ENSG00000160218	ENST00000291574	protein_coding	KNOWN	CCDS13704	11868	3780	1259	45432200	45526433	1	TMEM1	EHOC-1, TRS130
21	TRAPPC10	ENSG00000160218	ENST00000422875	nonsense_mediated_decay	KNOWN	None	11868	798	265	45432206	45524614	1	TMEM1	EHOC-1, TRS130
21	TRAPPC10	ENSG00000160218	ENST00000481460	retained_intron	KNOWN	None	11868	None	None	45499357	45502781	1	TMEM1	EHOC-1, TRS130
21	TRAPPC10	ENSG00000160218	ENST00000461889	retained_intron	KNOWN	None	11868	None	None	45499674	45502896	1	TMEM1	EHOC-1, TRS130
21	TRAPPC10	ENSG00000160218	ENST00000459741	retained_intron	KNOWN	None	11868	None	None	45507920	45526433	1	TMEM1	EHOC-1, TRS130
21	TRAPPC10	ENSG00000160218	ENST00000465905	processed_transcript	KNOWN	None	11868	None	None	45509366	45518305	1	TMEM1	EHOC-1, TRS130
21	TRAPPC10	ENSG00000160218	ENST00000483973	processed_transcript	KNOWN	None	11868	None	None	45509382	45516585	1	TMEM1	EHOC-1, TRS130
21	TRAPPC10	ENSG00000160218	ENST00000486746	processed_transcript	KNOWN	None	11868	None	None	45509582	45518315	1	TMEM1	EHOC-1, TRS130
21	TRAPPC10	ENSG00000160218	ENST00000469521	retained_intron	KNOWN	None	11868	None	None	45509641	45518415	1	TMEM1	EHOC-1, TRS130
21	TRAPPC10	ENSG00000160218	ENST00000485621	retained_intron	KNOWN	None	11868	None	None	45511634	45518306	1	TMEM1	EHOC-1, TRS130
21	TRAPPC10	ENSG00000160218	ENST00000468864	retained_intron	KNOWN	None	11868	None	None	45516461	45524932	1	TMEM1	EHOC-1, TRS130
5	None	ENSG00000259757	ENST00000560688	lincRNA	KNOWN	None	None	None	None	2736776	2737873	-1	None	None
5	None	ENSG00000249541	ENST00000510731	processed_pseudogene	KNOWN	None	None	None	None	2787565	2788663	-1	None	None
5	None	ENSG00000248137	ENST00000509745	lincRNA	KNOWN	None	None	None	None	2831135	2835253	-1	None	None
6	TCTE3	ENSG00000184786	ENST00000366774	protein_coding	KNOWN	CCDS5310	11695	597	198	170140210	170151655	-1	None	TCTEX1D3
6	RPL10A	ENSG00000198755	ENST00000322203	protein_coding	KNOWN	CCDS4806	10299	654	217	35436185	35438562	1	NEDD6	Csa-19, L10A
6	RPL10A	ENSG00000198755	ENST00000467020	processed_transcript	KNOWN	None	10299	None	None	35436185	35438562	1	NEDD6	Csa-19, L10A
6	RPL10A	ENSG00000198755	ENST00000490335	processed_transcript	KNOWN	None	10299	None	None	35436197	35438417	1	NEDD6	Csa-19, L10A
6	RPL10A	ENSG00000198755	ENST00000464112	processed_transcript	KNOWN	None	10299	None	None	35436197	35438562	1	NEDD6	Csa-19, L10A
6	RPL10A	ENSG00000198755	ENST00000478340	processed_transcript	KNOWN	None	10299	None	None	35436197	35438562	1	NEDD6	Csa-19, L10A
5	None	ENSG00000248736	ENST00000515086	lincRNA	KNOWN	None	None	None	None	2965120	2967742	1	None	None
5	None	ENSG00000249808	ENST00000505396	lincRNA	KNOWN	None	None	None	None	3178209	3181346	1	None	None
19	ZFP36	ENSG00000128016	ENST00000597629	protein_coding	KNOWN	CCDS12534	12862	999	332	39897453	39900052	1	None	RNF162A, TIS11, G0S24, TTP, NUP475, tristetraprolin
19	ZFP36	ENSG00000128016	ENST00000594045	protein_coding	PUTATIVE	None	12862	216	71	39897497	39898819	1	None	RNF162A, TIS11, G0S24, TTP, NUP475, tristetraprolin
19	ZFP36	ENSG00000128016	ENST00000594442	protein_coding	PUTATIVE	None	12862	1030	342	39897498	39900008	1	None	RNF162A, TIS11, G0S24, TTP, NUP475, tristetraprolin
19	ZFP36	ENSG00000128016	ENST00000600033	protein_coding	PUTATIVE	None	12862	444	147	39898079	39898783	1	None	RNF162A, TIS11, G0S24, TTP, NUP475, tristetraprolin
19	ZFP36	ENSG00000128016	ENST00000248673	protein_coding	KNOWN	None	12862	981	326	39897487	39900045	1	None	RNF162A, TIS11, G0S24, TTP, NUP475, tristetraprolin
HSCHR6_MHC_COX	C6orf136	ENSG00000233641	ENST00000474974	processed_transcript	KNOWN	None	21301	None	None	30604663	30608909	1	None	Em:AB023049.8
HSCHR6_MHC_COX	C6orf136	ENSG00000233641	ENST00000486177	processed_transcript	KNOWN	None	21301	None	None	30604679	30610725	1	None	Em:AB023049.8
HSCHR6_MHC_COX	C6orf136	ENSG00000233641	ENST00000425581	protein_coding	KNOWN	None	21301	948	315	30604697	30610725	1	None	Em:AB023049.8
HSCHR6_MHC_COX	C6orf136	ENSG00000233641	ENST00000488643	processed_transcript	KNOWN	None	21301	None	None	30604750	30610329	1	None	Em:AB023049.8
HSCHR6_MHC_COX	C6orf136	ENSG00000233641	ENST00000417649	protein_coding	KNOWN	None	21301	546	181	30604788	30610725	1	None	Em:AB023049.8
HSCHR6_MHC_COX	C6orf136	ENSG00000233641	ENST00000480734	processed_transcript	KNOWN	None	21301	None	None	30604810	30607537	1	None	Em:AB023049.8
HSCHR6_MHC_COX	C6orf136	ENSG00000233641	ENST00000447330	protein_coding	KNOWN	None	21301	1302	433	30605045	30610725	1	None	Em:AB023049.8
HSCHR6_MHC_COX	C6orf136	ENSG00000233641	ENST00000467299	retained_intron	KNOWN	None	21301	None	None	30608678	30610725	1	None	Em:AB023049.8
HSCHR6_MHC_COX	C6orf136	ENSG00000233641	ENST00000552569	protein_coding	KNOWN	None	21301	1491	496	30604663	30610825	1	None	Em:AB023049.8
5	None	ENSG00000248118	ENST00000505443	lincRNA	KNOWN	None	None	None	None	3417266	3536208	-1	None	None
11	HSPA8	ENSG00000109971	ENST00000532636	protein_coding	PUTATIVE	CCDS8440	5241	1941	646	122928197	122932497	-1	HSPA10	HSC71, HSC70, HSP73
11	HSPA8	ENSG00000109971	ENST00000533540	protein_coding	NOVEL	None	5241	1503	500	122928197	122932844	-1	HSPA10	HSC71, HSC70, HSP73
11	HSPA8	ENSG00000109971	ENST00000534624	protein_coding	KNOWN	CCDS8440	5241	1941	646	122928197	122933043	-1	HSPA10	HSC71, HSC70, HSP73
11	HSPA8	ENSG00000109971	ENST00000453788	protein_coding	KNOWN	CCDS44754	5241	1482	493	122928197	122933043	-1	HSPA10	HSC71, HSC70, HSP73
11	HSPA8	ENSG00000109971	ENST00000532091	retained_intron	KNOWN	None	5241	None	None	122928204	122931134	-1	HSPA10	HSC71, HSC70, HSP73
11	HSPA8	ENSG00000109971	ENST00000227378	protein_coding	PUTATIVE	CCDS8440	5241	1941	646	122928205	122932040	-1	HSPA10	HSC71, HSC70, HSP73
11	HSPA8	ENSG00000109971	ENST00000534319	protein_coding	PUTATIVE	None	5241	1233	410	122928206	122931094	-1	HSPA10	HSC71, HSC70, HSP73
11	HSPA8	ENSG00000109971	ENST00000526110	protein_coding	PUTATIVE	None	5241	1884	627	122928409	122932039	-1	HSPA10	HSC71, HSC70, HSP73
11	HSPA8	ENSG00000109971	ENST00000524552	protein_coding	PUTATIVE	None	5241	669	222	122928487	122930156	-1	HSPA10	HSC71, HSC70, HSP73
11	HSPA8	ENSG00000109971	ENST00000526686	protein_coding	PUTATIVE	None	5241	452	149	122928587	122929805	-1	HSPA10	HSC71, HSC70, HSP73
11	HSPA8	ENSG00000109971	ENST00000533238	processed_transcript	KNOWN	None	5241	None	None	122929499	122932847	-1	HSPA10	HSC71, HSC70, HSP73
11	HSPA8	ENSG00000109971	ENST00000526862	processed_transcript	KNOWN	None	5241	None	None	122929864	122930931	-1	HSPA10	HSC71, HSC70, HSP73
11	HSPA8	ENSG00000109971	ENST00000527983	retained_intron	KNOWN	None	5241	None	None	122929941	122932915	-1	HSPA10	HSC71, HSC70, HSP73
11	HSPA8	ENSG00000109971	ENST00000528292	protein_coding	PUTATIVE	None	5241	937	311	122930184	122932832	-1	HSPA10	HSC71, HSC70, HSP73
11	HSPA8	ENSG00000109971	ENST00000532780	retained_intron	KNOWN	None	5241	None	None	122930522	122933377	-1	HSPA10	HSC71, HSC70, HSP73
11	HSPA8	ENSG00000109971	ENST00000525463	protein_coding	PUTATIVE	None	5241	505	167	122930673	122932844	-1	HSPA10	HSC71, HSC70, HSP73
11	HSPA8	ENSG00000109971	ENST00000532167	retained_intron	KNOWN	None	5241	None	None	122930690	122932844	-1	HSPA10	HSC71, HSC70, HSP73
11	HSPA8	ENSG00000109971	ENST00000525624	protein_coding	PUTATIVE	None	5241	562	186	122930826	122933938	-1	HSPA10	HSC71, HSC70, HSP73
11	HSPA8	ENSG00000109971	ENST00000534567	protein_coding	PUTATIVE	None	5241	551	182	122930837	122932191	-1	HSPA10	HSC71, HSC70, HSP73
11	HSPA8	ENSG00000109971	ENST00000527387	protein_coding	PUTATIVE	None	5241	534	177	122930854	122933060	-1	HSPA10	HSC71, HSC70, HSP73
11	HSPA8	ENSG00000109971	ENST00000532182	protein_coding	PUTATIVE	None	5241	515	170	122930873	122932730	-1	HSPA10	HSC71, HSC70, HSP73
11	HSPA8	ENSG00000109971	ENST00000524590	protein_coding	PUTATIVE	None	5241	411	136	122931301	122932740	-1	HSPA10	HSC71, HSC70, HSP73
11	HSPA8	ENSG00000109971	ENST00000530391	protein_coding	PUTATIVE	None	5241	397	131	122931315	122932541	-1	HSPA10	HSC71, HSC70, HSP73
11	HSPA8	ENSG00000109971	ENST00000531063	retained_intron	KNOWN	None	5241	None	None	122931533	122932844	-1	HSPA10	HSC71, HSC70, HSP73
2	None	ENSG00000222033	ENST00000409786	protein_coding	NOVEL	None	None	813	270	171568961	171571077	-1	None	None
6	FAM26E	ENSG00000178033	ENST00000368599	protein_coding	KNOWN	CCDS5108	21568	930	309	116832809	116845955	1	C6orf188	dJ493F7.3, MGC45451
4	MIR218-1	ENSG00000207732	ENST00000384999	miRNA	KNOWN	None	31595	None	None	20529898	20530007	1	MIRN218-1	hsa-mir-218-1
6	NFYA	ENSG00000001167	ENST00000341376	protein_coding	KNOWN	CCDS4849	7804	1044	347	41040684	41067715	1	None	HAP2, CBF-B, NF-YA
6	NFYA	ENSG00000001167	ENST00000353205	protein_coding	KNOWN	CCDS4850	7804	957	318	41040722	41065689	1	None	HAP2, CBF-B, NF-YA
4	None	ENSG00000250243	ENST00000515680	antisense	KNOWN	None	None	None	None	21306165	21318108	1	None	None
2	SP5	ENSG00000204335	ENST00000375281	protein_coding	KNOWN	CCDS33322	14529	1197	398	171571861	171574588	1	None	None
2	SP5	ENSG00000204335	ENST00000487037	processed_transcript	KNOWN	None	14529	None	None	171572552	171572998	1	None	None
7	MRPS17	ENSG00000239789	ENST00000285298	protein_coding	KNOWN	CCDS5520	14047	393	130	56019512	56024192	1	None	HSPC011, RPMS17, MRP-S17
7	MRPS17	ENSG00000239789	ENST00000443449	protein_coding	KNOWN	None	14047	387	128	56019656	56022865	1	None	HSPC011, RPMS17, MRP-S17
4	None	ENSG00000250092	ENST00000505528	antisense	KNOWN	None	None	None	None	21583719	21615351	1	None	None
22	MAPK12	ENSG00000188130	ENST00000497036	processed_transcript	KNOWN	None	6874	None	None	50683879	50699572	-1	SAPK3	ERK6, PRKM12, p38gamma, SAPK-3
22	MAPK12	ENSG00000188130	ENST00000395780	protein_coding	PUTATIVE	None	6874	834	277	50691332	50699737	-1	SAPK3	ERK6, PRKM12, p38gamma, SAPK-3
22	MAPK12	ENSG00000188130	ENST00000488504	retained_intron	KNOWN	None	6874	None	None	50691332	50699974	-1	SAPK3	ERK6, PRKM12, p38gamma, SAPK-3
22	MAPK12	ENSG00000188130	ENST00000215659	protein_coding	KNOWN	CCDS14089	6874	1104	367	50691332	50700254	-1	SAPK3	ERK6, PRKM12, p38gamma, SAPK-3
22	MAPK12	ENSG00000188130	ENST00000467891	retained_intron	KNOWN	None	6874	None	None	50691349	50700137	-1	SAPK3	ERK6, PRKM12, p38gamma, SAPK-3
22	MAPK12	ENSG00000188130	ENST00000496942	retained_intron	KNOWN	None	6874	None	None	50692213	50695536	-1	SAPK3	ERK6, PRKM12, p38gamma, SAPK-3
22	MAPK12	ENSG00000188130	ENST00000482969	retained_intron	KNOWN	None	6874	None	None	50692217	50699660	-1	SAPK3	ERK6, PRKM12, p38gamma, SAPK-3
22	MAPK12	ENSG00000188130	ENST00000497738	retained_intron	KNOWN	None	6874	None	None	50692282	50694582	-1	SAPK3	ERK6, PRKM12, p38gamma, SAPK-3
22	MAPK12	ENSG00000188130	ENST00000492218	processed_transcript	PUTATIVE	None	6874	None	None	50695992	50699598	-1	SAPK3	ERK6, PRKM12, p38gamma, SAPK-3
22	MAPK12	ENSG00000188130	ENST00000395778	protein_coding	PUTATIVE	None	6874	360	119	50696118	50699972	-1	SAPK3	ERK6, PRKM12, p38gamma, SAPK-3
4	None	ENSG00000242768	ENST00000489014	processed_pseudogene	KNOWN	None	None	None	None	21658134	21658492	-1	None	None
2	ERICH2	ENSG00000204334	ENST00000409885	protein_coding	NOVEL	None	44395	471	156	171640296	171655481	1	None	None
14	CYP46A1	ENSG00000036530	ENST00000554611	nonsense_mediated_decay	KNOWN	None	2641	291	96	100150641	100179774	1	CYP46	None
14	CYP46A1	ENSG00000036530	ENST00000261835	protein_coding	KNOWN	CCDS9954	2641	1503	500	100150651	100193638	1	CYP46	None
14	CYP46A1	ENSG00000036530	ENST00000380228	protein_coding	NOVEL	None	2641	1462	486	100151041	100193199	1	CYP46	None
14	CYP46A1	ENSG00000036530	ENST00000554176	protein_coding	PUTATIVE	None	2641	1014	337	100172334	100193637	1	CYP46	None
14	CYP46A1	ENSG00000036530	ENST00000554917	nonsense_mediated_decay	KNOWN	None	2641	155	50	100182147	100192606	1	CYP46	None
14	CYP46A1	ENSG00000036530	ENST00000556313	protein_coding	PUTATIVE	None	2641	495	164	100182195	100189469	1	CYP46	None
14	CYP46A1	ENSG00000036530	ENST00000556822	retained_intron	KNOWN	None	2641	None	None	100184020	100188344	1	CYP46	None
14	CYP46A1	ENSG00000036530	ENST00000423126	protein_coding	KNOWN	None	2641	1212	403	100151039	100193199	1	CYP46	None
6	MUC21	ENSG00000204544	ENST00000486149	protein_coding	PUTATIVE	None	21661	339	112	30951495	30956414	1	C6orf205	bCX31G15.2
6	MUC21	ENSG00000204544	ENST00000376296	protein_coding	KNOWN	CCDS34388	21661	1701	566	30951495	30957680	1	C6orf205	bCX31G15.2
4	None	ENSG00000248343	ENST00000511835	antisense	KNOWN	None	None	None	None	21699073	21720649	1	None	None
4	None	ENSG00000250039	ENST00000510705	antisense	KNOWN	None	None	None	None	21950638	22331953	1	None	None
1	PPIE	ENSG00000084072	ENST00000470018	protein_coding	PUTATIVE	None	9258	215	70	40157854	40211075	1	None	CyP-33, MGC3736, MGC111222
1	PPIE	ENSG00000084072	ENST00000485507	retained_intron	KNOWN	None	9258	None	None	40204551	40208153	1	None	CyP-33, MGC3736, MGC111222
1	PPIE	ENSG00000084072	ENST00000324379	protein_coding	KNOWN	CCDS443	9258	906	301	40204554	40219379	1	None	CyP-33, MGC3736, MGC111222
1	PPIE	ENSG00000084072	ENST00000356511	protein_coding	KNOWN	CCDS442	9258	891	296	40204557	40229586	1	None	CyP-33, MGC3736, MGC111222
1	PPIE	ENSG00000084072	ENST00000456578	retained_intron	KNOWN	None	9258	None	None	40204558	40207515	1	None	CyP-33, MGC3736, MGC111222
1	PPIE	ENSG00000084072	ENST00000495526	nonsense_mediated_decay	KNOWN	None	9258	117	38	40204560	40219388	1	None	CyP-33, MGC3736, MGC111222
1	PPIE	ENSG00000084072	ENST00000482751	retained_intron	KNOWN	None	9258	None	None	40204562	40219388	1	None	CyP-33, MGC3736, MGC111222
1	PPIE	ENSG00000084072	ENST00000497370	protein_coding	PUTATIVE	None	9258	639	212	40204573	40218724	1	None	CyP-33, MGC3736, MGC111222
1	PPIE	ENSG00000084072	ENST00000470213	protein_coding	PUTATIVE	None	9258	627	208	40204573	40218938	1	None	CyP-33, MGC3736, MGC111222
1	PPIE	ENSG00000084072	ENST00000372835	protein_coding	NOVEL	None	9258	753	250	40204573	40219116	1	None	CyP-33, MGC3736, MGC111222
1	PPIE	ENSG00000084072	ENST00000372830	protein_coding	PUTATIVE	CCDS53299	9258	945	314	40204573	40229586	1	None	CyP-33, MGC3736, MGC111222
1	PPIE	ENSG00000084072	ENST00000474804	nonsense_mediated_decay	KNOWN	None	9258	114	37	40204576	40214760	1	None	CyP-33, MGC3736, MGC111222
1	PPIE	ENSG00000084072	ENST00000475350	nonsense_mediated_decay	KNOWN	None	9258	110	35	40204580	40219388	1	None	CyP-33, MGC3736, MGC111222
1	PPIE	ENSG00000084072	ENST00000480169	processed_transcript	KNOWN	None	9258	None	None	40204662	40211170	1	None	CyP-33, MGC3736, MGC111222
1	PPIE	ENSG00000084072	ENST00000467741	processed_transcript	KNOWN	None	9258	None	None	40226871	40229586	1	None	CyP-33, MGC3736, MGC111222
4	RNU6-420P	ENSG00000239001	ENST00000458780	snRNA	KNOWN	None	47383	None	None	22120606	22120712	1	None	None
9	INPP5E	ENSG00000148384	ENST00000371712	protein_coding	KNOWN	CCDS7000	21474	1935	644	139323071	139334274	-1	JBTS1	PPI5PIV, CORS1
4	None	ENSG00000269506	ENST00000595906	protein_coding	KNOWN	None	None	165	54	54927213	54927377	1	None	None
17	CANT1	ENSG00000171302	ENST00000392446	protein_coding	KNOWN	CCDS11760	19721	1206	401	76987799	77005812	-1	None	SHAPY, SCAN-1
17	CANT1	ENSG00000171302	ENST00000302345	protein_coding	KNOWN	CCDS11760	19721	1206	401	76987799	77005899	-1	None	SHAPY, SCAN-1
17	CANT1	ENSG00000171302	ENST00000592228	nonsense_mediated_decay	KNOWN	None	19721	795	264	76987802	77005849	-1	None	SHAPY, SCAN-1
17	CANT1	ENSG00000171302	ENST00000591773	protein_coding	KNOWN	CCDS11760	19721	1206	401	76989569	77005860	-1	None	SHAPY, SCAN-1
17	CANT1	ENSG00000171302	ENST00000588096	retained_intron	KNOWN	None	19721	None	None	76989866	76991331	-1	None	SHAPY, SCAN-1
17	CANT1	ENSG00000171302	ENST00000588611	protein_coding	PUTATIVE	None	19721	356	117	76993188	77005862	-1	None	SHAPY, SCAN-1
17	CANT1	ENSG00000171302	ENST00000588075	protein_coding	PUTATIVE	None	19721	230	75	76993475	77005884	-1	None	SHAPY, SCAN-1
17	CANT1	ENSG00000171302	ENST00000590370	protein_coding	PUTATIVE	None	19721	196	64	76993509	77005846	-1	None	SHAPY, SCAN-1
17	CANT1	ENSG00000171302	ENST00000586916	protein_coding	PUTATIVE	None	19721	183	60	76993522	77005875	-1	None	SHAPY, SCAN-1
17	CANT1	ENSG00000171302	ENST00000592033	protein_coding	PUTATIVE	None	19721	116	37	76993589	77005875	-1	None	SHAPY, SCAN-1
17	CANT1	ENSG00000171302	ENST00000591811	protein_coding	KNOWN	None	19721	116	37	76993589	77005949	-1	None	SHAPY, SCAN-1
17	CANT1	ENSG00000171302	ENST00000591625	protein_coding	PUTATIVE	None	19721	46	14	76993659	77005847	-1	None	SHAPY, SCAN-1
17	CANT1	ENSG00000171302	ENST00000592887	processed_transcript	KNOWN	None	19721	None	None	76993748	77002295	-1	None	SHAPY, SCAN-1
17	CANT1	ENSG00000171302	ENST00000587242	processed_transcript	KNOWN	None	19721	None	None	76994230	77005875	-1	None	SHAPY, SCAN-1
17	CANT1	ENSG00000171302	ENST00000591732	processed_transcript	KNOWN	None	19721	None	None	76994311	77005875	-1	None	SHAPY, SCAN-1
4	None	ENSG00000238383	ENST00000459431	snoRNA	NOVEL	None	None	None	None	22351073	22351177	1	None	None
4	None	ENSG00000244538	ENST00000480875	processed_pseudogene	KNOWN	None	None	None	None	22595819	22596073	1	None	None
4	GSX2	ENSG00000180613	ENST00000507839	processed_transcript	KNOWN	None	24959	None	None	54965690	54968095	1	None	Gsh2
4	GSX2	ENSG00000180613	ENST00000326902	protein_coding	KNOWN	CCDS3494	24959	915	304	54966198	54968672	1	None	Gsh2
4	GSX2	ENSG00000180613	ENST00000503800	protein_coding	NOVEL	None	24959	405	134	54966340	54968394	1	None	Gsh2
4	GSX2	ENSG00000180613	ENST00000548609	processed_transcript	KNOWN	None	24959	None	None	54966983	54968313	1	None	Gsh2
1	REN	ENSG00000143839	ENST00000272190	protein_coding	KNOWN	CCDS30981	9958	1221	406	204123947	204135450	-1	None	None
1	REN	ENSG00000143839	ENST00000367195	protein_coding	KNOWN	None	9958	1212	403	204123944	204135465	-1	None	None
HSCHR6_MHC_DBB	LTA	ENSG00000223919	ENST00000432632	protein_coding	KNOWN	None	6709	618	205	31521973	31524245	1	TNFB	TNFSF1, LT
HSCHR6_MHC_DBB	LTA	ENSG00000223919	ENST00000487391	retained_intron	KNOWN	None	6709	None	None	31522189	31524245	1	TNFB	TNFSF1, LT
HSCHR6_MHC_DBB	LTA	ENSG00000223919	ENST00000441939	protein_coding	KNOWN	None	6709	618	205	31522202	31524245	1	TNFB	TNFSF1, LT
HSCHR6_MHC_DBB	LTA	ENSG00000223919	ENST00000464821	retained_intron	KNOWN	None	6709	None	None	31522213	31524245	1	TNFB	TNFSF1, LT
HSCHR6_MHC_DBB	LTA	ENSG00000223919	ENST00000552271	protein_coding	KNOWN	None	6709	414	137	31522235	31523771	1	TNFB	TNFSF1, LT
4	WHSC1	ENSG00000109685	ENST00000508803	protein_coding	KNOWN	CCDS33940	12766	4098	1365	1873151	1980641	1	None	MMSET, NSD2
4	WHSC1	ENSG00000109685	ENST00000507820	protein_coding	KNOWN	None	12766	112	36	1873161	1902493	1	None	MMSET, NSD2
4	WHSC1	ENSG00000109685	ENST00000508355	retained_intron	KNOWN	None	12766	None	None	1873181	1920914	1	None	MMSET, NSD2
4	WHSC1	ENSG00000109685	ENST00000514045	protein_coding	KNOWN	CCDS46999	12766	1890	629	1873188	1943477	1	None	MMSET, NSD2
4	WHSC1	ENSG00000109685	ENST00000515806	protein_coding	KNOWN	None	12766	597	198	1889228	1902978	1	None	MMSET, NSD2
4	WHSC1	ENSG00000109685	ENST00000353275	nonsense_mediated_decay	KNOWN	CCDS3356	12766	1944	647	1894509	1983930	1	None	MMSET, NSD2
4	WHSC1	ENSG00000109685	ENST00000420906	protein_coding	KNOWN	CCDS46999	12766	1890	629	1894572	1944302	1	None	MMSET, NSD2
4	WHSC1	ENSG00000109685	ENST00000312087	nonsense_mediated_decay	KNOWN	CCDS3356	12766	1944	647	1894572	1983930	1	None	MMSET, NSD2
4	WHSC1	ENSG00000109685	ENST00000382895	protein_coding	KNOWN	CCDS33940	12766	4098	1365	1894572	1983934	1	None	MMSET, NSD2
4	WHSC1	ENSG00000109685	ENST00000503128	protein_coding	KNOWN	CCDS3356	12766	1944	647	1900945	1950545	1	None	MMSET, NSD2
4	WHSC1	ENSG00000109685	ENST00000509115	protein_coding	KNOWN	None	12766	1176	391	1902346	1920116	1	None	MMSET, NSD2
4	WHSC1	ENSG00000109685	ENST00000512700	nonsense_mediated_decay	KNOWN	None	12766	822	273	1902377	1919926	1	None	MMSET, NSD2
4	WHSC1	ENSG00000109685	ENST00000511904	nonsense_mediated_decay	KNOWN	None	12766	492	163	1920159	1952907	1	None	MMSET, NSD2
4	WHSC1	ENSG00000109685	ENST00000513726	processed_transcript	KNOWN	None	12766	None	None	1932457	1955173	1	None	MMSET, NSD2
4	WHSC1	ENSG00000109685	ENST00000482415	processed_transcript	KNOWN	None	12766	None	None	1941008	1981523	1	None	MMSET, NSD2
4	WHSC1	ENSG00000109685	ENST00000514329	protein_coding	NOVEL	None	12766	851	282	1941388	1957915	1	None	MMSET, NSD2
4	WHSC1	ENSG00000109685	ENST00000502425	processed_transcript	KNOWN	None	12766	None	None	1941479	1956948	1	None	MMSET, NSD2
4	WHSC1	ENSG00000109685	ENST00000505643	processed_transcript	KNOWN	None	12766	None	None	1953832	1957885	1	None	MMSET, NSD2
4	WHSC1	ENSG00000109685	ENST00000382888	protein_coding	KNOWN	None	12766	2142	713	1953832	1980642	1	None	MMSET, NSD2
4	WHSC1	ENSG00000109685	ENST00000503207	processed_transcript	KNOWN	None	12766	None	None	1954845	1957913	1	None	MMSET, NSD2
4	WHSC1	ENSG00000109685	ENST00000507094	retained_intron	KNOWN	None	12766	None	None	1957306	1959745	1	None	MMSET, NSD2
4	WHSC1	ENSG00000109685	ENST00000515695	retained_intron	KNOWN	None	12766	None	None	1976514	1977373	1	None	MMSET, NSD2
4	WHSC1	ENSG00000109685	ENST00000508299	retained_intron	KNOWN	None	12766	None	None	1978080	1980629	1	None	MMSET, NSD2
4	WHSC1	ENSG00000109685	ENST00000382891	protein_coding	KNOWN	CCDS33940	12766	4098	1365	1894509	1983933	1	None	MMSET, NSD2
4	WHSC1	ENSG00000109685	ENST00000382892	protein_coding	KNOWN	CCDS33940	12766	4098	1365	1894509	1983930	1	None	MMSET, NSD2
4	WHSC1	ENSG00000109685	ENST00000398261	protein_coding	KNOWN	CCDS3356	12766	1944	647	1902353	1950545	1	None	MMSET, NSD2
4	WHSC1	ENSG00000109685	ENST00000436793	protein_coding	KNOWN	None	12766	822	273	1894509	1913879	1	None	MMSET, NSD2
9	TTC16	ENSG00000167094	ENST00000373289	protein_coding	KNOWN	CCDS6875	26536	2622	873	130478345	130493879	1	None	FLJ32780
9	TTC16	ENSG00000167094	ENST00000489226	processed_transcript	KNOWN	None	26536	None	None	130482558	130493801	1	None	FLJ32780
9	TTC16	ENSG00000167094	ENST00000488285	processed_transcript	KNOWN	None	26536	None	None	130482568	130493868	1	None	FLJ32780
9	TTC16	ENSG00000167094	ENST00000393748	protein_coding	KNOWN	None	26536	726	241	130478358	130488581	1	None	FLJ32780
1	None	ENSG00000268172	ENST00000596396	protein_coding	KNOWN	None	None	381	126	144989309	144991365	1	None	None
13	GAS6	ENSG00000183087	ENST00000480426	processed_transcript	KNOWN	None	4168	None	None	114523524	114536714	-1	AXLLG	AXSF, FLJ34709, DKFZp666G247
13	GAS6	ENSG00000183087	ENST00000327773	protein_coding	KNOWN	CCDS45072	4168	2037	678	114523531	114567040	-1	AXLLG	AXSF, FLJ34709, DKFZp666G247
13	GAS6	ENSG00000183087	ENST00000476291	processed_transcript	KNOWN	None	4168	None	None	114550650	114566988	-1	AXLLG	AXSF, FLJ34709, DKFZp666G247
13	GAS6	ENSG00000183087	ENST00000357389	protein_coding	KNOWN	None	4168	2166	721	114523524	114567046	-1	AXLLG	AXSF, FLJ34709, DKFZp666G247
13	GAS6	ENSG00000183087	ENST00000355761	protein_coding	KNOWN	None	4168	1875	624	114523524	114550056	-1	AXLLG	AXSF, FLJ34709, DKFZp666G247
13	GAS6	ENSG00000183087	ENST00000450766	protein_coding	KNOWN	CCDS45073	4168	1218	405	114523524	114539017	-1	AXLLG	AXSF, FLJ34709, DKFZp666G247
13	GAS6	ENSG00000183087	ENST00000418959	protein_coding	KNOWN	CCDS45074	4168	1140	379	114523524	114536714	-1	AXLLG	AXSF, FLJ34709, DKFZp666G247
8	FSBP	ENSG00000265817	ENST00000517506	nonsense_mediated_decay	KNOWN	None	43653	390	129	95390605	95449180	-1	None	None
8	FSBP	ENSG00000265817	ENST00000481490	protein_coding	KNOWN	CCDS59106	43653	900	299	95444175	95449170	-1	None	None
8	C8orf17	ENSG00000250733	ENST00000507535	protein_coding	NOVEL	None	17737	300	99	140943416	140946190	1	None	MOST-1
HSCHR6_MHC_DBB	TNF	ENSG00000228849	ENST00000420425	protein_coding	KNOWN	None	11892	702	233	31525488	31528257	1	TNFA	TNFSF2, DIF, TNF-alpha
1	KISS1	ENSG00000170498	ENST00000367194	protein_coding	KNOWN	CCDS41454	6341	417	138	204159469	204165614	-1	None	None
8	CHRAC1	ENSG00000104472	ENST00000220913	protein_coding	KNOWN	CCDS6379	13544	396	131	141521397	141527236	1	None	CHRAC15, YCL1
8	CHRAC1	ENSG00000104472	ENST00000519533	protein_coding	PUTATIVE	None	13544	171	56	141521410	141526566	1	None	CHRAC15, YCL1
8	CHRAC1	ENSG00000104472	ENST00000518971	protein_coding	PUTATIVE	None	13544	243	80	141522017	141525284	1	None	CHRAC15, YCL1
8	CHRAC1	ENSG00000104472	ENST00000519618	protein_coding	PUTATIVE	None	13544	293	96	141522081	141525864	1	None	CHRAC15, YCL1
8	CHRAC1	ENSG00000104472	ENST00000523569	retained_intron	KNOWN	None	13544	None	None	141524393	141525640	1	None	CHRAC15, YCL1
1	NOTCH2NL	ENSG00000213240	ENST00000362074	protein_coding	KNOWN	CCDS909	31862	711	236	145209119	145282832	1	None	N2N
1	NOTCH2NL	ENSG00000213240	ENST00000344859	protein_coding	KNOWN	None	31862	693	230	145209119	145291654	1	None	N2N
1	NOTCH2NL	ENSG00000213240	ENST00000369340	protein_coding	KNOWN	CCDS909	31862	711	236	145224599	145285912	1	None	N2N
1	NOTCH2NL	ENSG00000213240	ENST00000479995	processed_transcript	KNOWN	None	31862	None	None	145290422	145291972	1	None	N2N
3	CDCP1	ENSG00000163814	ENST00000296129	protein_coding	KNOWN	CCDS2727	24357	2511	836	45123770	45187914	-1	None	CD318, SIMA135
3	CDCP1	ENSG00000163814	ENST00000425231	protein_coding	KNOWN	CCDS46812	24357	1032	343	45151708	45187914	-1	None	CD318, SIMA135
3	CDCP1	ENSG00000163814	ENST00000490471	processed_transcript	KNOWN	None	24357	None	None	45153829	45181087	-1	None	CD318, SIMA135
1	GOLT1A	ENSG00000174567	ENST00000308302	protein_coding	KNOWN	CCDS1443	24766	399	132	204167288	204183220	-1	None	FLJ42654, CGI-141, YMR292W, GOT1, MGC62027
1	GOLT1A	ENSG00000174567	ENST00000475517	processed_transcript	KNOWN	None	24766	None	None	204168070	204170829	-1	None	FLJ42654, CGI-141, YMR292W, GOT1, MGC62027
17	UNC45B	ENSG00000141161	ENST00000268876	protein_coding	KNOWN	CCDS11292	14304	2796	931	33474836	33516364	1	CMYA4	UNC45
17	UNC45B	ENSG00000141161	ENST00000394570	protein_coding	KNOWN	CCDS45648	14304	2790	929	33474860	33516356	1	CMYA4	UNC45
17	UNC45B	ENSG00000141161	ENST00000591048	protein_coding	KNOWN	None	14304	2553	850	33475283	33513578	1	CMYA4	UNC45
17	UNC45B	ENSG00000141161	ENST00000433649	protein_coding	KNOWN	CCDS45648	14304	2790	929	33474836	33516360	1	CMYA4	UNC45
17	UNC45B	ENSG00000141161	ENST00000378449	protein_coding	KNOWN	None	14304	2553	850	33474836	33516360	1	CMYA4	UNC45
1	BMP8B	ENSG00000116985	ENST00000372827	protein_coding	KNOWN	CCDS444	1075	1209	402	40222854	40254533	-1	BMP8	OP-2
1	BMP8B	ENSG00000116985	ENST00000397360	protein_coding	KNOWN	None	1075	1050	349	40229223	40254521	-1	BMP8	OP-2
6	C6orf70	ENSG00000130023	ENST00000592367	protein_coding	PUTATIVE	None	21056	56	17	170151718	170156831	1	C6orf70	FLJ11152, dJ266L20.3
6	C6orf70	ENSG00000130023	ENST00000590711	protein_coding	PUTATIVE	None	21056	222	73	170151718	170159156	1	C6orf70	FLJ11152, dJ266L20.3
6	C6orf70	ENSG00000130023	ENST00000366772	protein_coding	KNOWN	None	21056	1896	631	170151718	170181680	1	C6orf70	FLJ11152, dJ266L20.3
6	C6orf70	ENSG00000130023	ENST00000592745	protein_coding	PUTATIVE	None	21056	85	27	170151721	170156860	1	C6orf70	FLJ11152, dJ266L20.3
6	C6orf70	ENSG00000130023	ENST00000592315	nonsense_mediated_decay	KNOWN	None	21056	222	73	170151721	170159080	1	C6orf70	FLJ11152, dJ266L20.3
6	C6orf70	ENSG00000130023	ENST00000392095	protein_coding	PUTATIVE	None	21056	1659	552	170151721	170181616	1	C6orf70	FLJ11152, dJ266L20.3
6	C6orf70	ENSG00000130023	ENST00000366773	protein_coding	KNOWN	CCDS34576	21056	2037	678	170151721	170181680	1	C6orf70	FLJ11152, dJ266L20.3
6	C6orf70	ENSG00000130023	ENST00000592580	retained_intron	KNOWN	None	21056	None	None	170151734	170155751	1	C6orf70	FLJ11152, dJ266L20.3
6	C6orf70	ENSG00000130023	ENST00000586341	protein_coding	NOVEL	None	21056	523	173	170151734	170159953	1	C6orf70	FLJ11152, dJ266L20.3
6	C6orf70	ENSG00000130023	ENST00000418781	protein_coding	KNOWN	None	21056	1818	605	170151734	170181612	1	C6orf70	FLJ11152, dJ266L20.3
6	C6orf70	ENSG00000130023	ENST00000588437	protein_coding	PUTATIVE	None	21056	15	4	170151744	170156511	1	C6orf70	FLJ11152, dJ266L20.3
6	C6orf70	ENSG00000130023	ENST00000588451	protein_coding	PUTATIVE	None	21056	1629	542	170151893	170181613	1	C6orf70	FLJ11152, dJ266L20.3
6	C6orf70	ENSG00000130023	ENST00000590017	nonsense_mediated_decay	KNOWN	None	21056	139	45	170154001	170160019	1	C6orf70	FLJ11152, dJ266L20.3
6	C6orf70	ENSG00000130023	ENST00000366771	retained_intron	KNOWN	None	21056	None	None	170167111	170181680	1	C6orf70	FLJ11152, dJ266L20.3
6	C6orf70	ENSG00000130023	ENST00000492738	retained_intron	KNOWN	None	21056	None	None	170173140	170176646	1	C6orf70	FLJ11152, dJ266L20.3
6	C6orf70	ENSG00000130023	ENST00000477995	retained_intron	KNOWN	None	21056	None	None	170175974	170181612	1	C6orf70	FLJ11152, dJ266L20.3
16	KAT8	ENSG00000103510	ENST00000543774	protein_coding	KNOWN	CCDS10706	17933	1377	458	31127075	31142714	1	MYST1	MOF, FLJ14040, hMOF, ZC2HC8
16	KAT8	ENSG00000103510	ENST00000448516	protein_coding	KNOWN	CCDS45468	17933	1404	467	31128985	31142680	1	MYST1	MOF, FLJ14040, hMOF, ZC2HC8
16	KAT8	ENSG00000103510	ENST00000539683	retained_intron	KNOWN	None	17933	None	None	31129018	31132439	1	MYST1	MOF, FLJ14040, hMOF, ZC2HC8
16	KAT8	ENSG00000103510	ENST00000538768	retained_intron	KNOWN	None	17933	None	None	31136905	31142714	1	MYST1	MOF, FLJ14040, hMOF, ZC2HC8
16	KAT8	ENSG00000103510	ENST00000537402	protein_coding	PUTATIVE	None	17933	562	186	31138593	31142714	1	MYST1	MOF, FLJ14040, hMOF, ZC2HC8
16	KAT8	ENSG00000103510	ENST00000573144	retained_intron	KNOWN	None	17933	None	None	31141777	31142680	1	MYST1	MOF, FLJ14040, hMOF, ZC2HC8
16	KAT8	ENSG00000103510	ENST00000219797	protein_coding	KNOWN	CCDS10706	17933	1377	458	31128985	31142710	1	MYST1	MOF, FLJ14040, hMOF, ZC2HC8
1	None	ENSG00000255168	ENST00000468030	nonsense_mediated_decay	KNOWN	None	None	717	238	145209145	145319796	1	None	None
10	FAM178A	ENSG00000119906	ENST00000370271	protein_coding	KNOWN	None	17814	2277	758	102672720	102686517	1	C10orf6	FLJ10512, FLJ25012
10	FAM178A	ENSG00000119906	ENST00000238961	protein_coding	KNOWN	CCDS7500	17814	3522	1173	102672720	102724893	1	C10orf6	FLJ10512, FLJ25012
10	FAM178A	ENSG00000119906	ENST00000370269	protein_coding	KNOWN	CCDS44470	17814	3561	1186	102672736	102719347	1	C10orf6	FLJ10512, FLJ25012
10	FAM178A	ENSG00000119906	ENST00000481654	processed_transcript	KNOWN	None	17814	None	None	102703411	102705113	1	C10orf6	FLJ10512, FLJ25012
12	None	ENSG00000255819	ENST00000543572	nonsense_mediated_decay	KNOWN	None	None	114	37	10524952	10560365	-1	None	None
12	None	ENSG00000255819	ENST00000539300	nonsense_mediated_decay	KNOWN	None	None	451	149	10525505	10562148	-1	None	None
12	None	ENSG00000255819	ENST00000543812	nonsense_mediated_decay	KNOWN	None	None	228	75	10525590	10562745	-1	None	None
12	None	ENSG00000255819	ENST00000585711	nonsense_mediated_decay	KNOWN	None	None	107	34	10525658	10560358	-1	None	None
12	None	ENSG00000255819	ENST00000586581	nonsense_mediated_decay	KNOWN	None	None	451	149	10525658	10562148	-1	None	None
12	None	ENSG00000255819	ENST00000591546	nonsense_mediated_decay	KNOWN	None	None	228	75	10525658	10562727	-1	None	None
12	None	ENSG00000255819	ENST00000590131	nonsense_mediated_decay	KNOWN	None	None	228	75	10525681	10562727	-1	None	None
12	None	ENSG00000255819	ENST00000588263	nonsense_mediated_decay	KNOWN	None	None	228	75	10530731	10562727	-1	None	None
12	None	ENSG00000255819	ENST00000588447	nonsense_mediated_decay	KNOWN	None	None	228	75	10531153	10562727	-1	None	None
12	None	ENSG00000255819	ENST00000590323	nonsense_mediated_decay	KNOWN	None	None	228	75	10531174	10562727	-1	None	None
12	None	ENSG00000255819	ENST00000539370	retained_intron	KNOWN	None	None	None	None	10531965	10562148	-1	None	None
12	None	ENSG00000255819	ENST00000585507	nonsense_mediated_decay	KNOWN	None	None	228	75	10532299	10562727	-1	None	None
12	None	ENSG00000255819	ENST00000591937	nonsense_mediated_decay	KNOWN	None	None	228	75	10532365	10562727	-1	None	None
2	GAD1	ENSG00000128683	ENST00000454603	protein_coding	KNOWN	None	4092	256	84	171669723	171686095	1	GAD	None
2	GAD1	ENSG00000128683	ENST00000445006	protein_coding	KNOWN	None	4092	112	36	171672624	171678626	1	GAD	None
2	GAD1	ENSG00000128683	ENST00000358196	protein_coding	KNOWN	CCDS2239	4092	1785	594	171673072	171717661	1	GAD	None
2	GAD1	ENSG00000128683	ENST00000344257	protein_coding	KNOWN	CCDS2240	4092	675	224	171673422	171699269	1	GAD	None
2	GAD1	ENSG00000128683	ENST00000414527	nonsense_mediated_decay	KNOWN	None	4092	702	233	171673548	171716426	1	GAD	None
2	GAD1	ENSG00000128683	ENST00000455008	protein_coding	KNOWN	None	4092	346	114	171673765	171687501	1	GAD	None
2	GAD1	ENSG00000128683	ENST00000456864	protein_coding	KNOWN	None	4092	363	120	171674279	171687518	1	GAD	None
2	GAD1	ENSG00000128683	ENST00000493875	nonsense_mediated_decay	KNOWN	None	4092	1278	425	171674280	171717661	1	GAD	None
2	GAD1	ENSG00000128683	ENST00000429023	processed_transcript	KNOWN	None	4092	None	None	171675121	171700667	1	GAD	None
2	GAD1	ENSG00000128683	ENST00000485013	retained_intron	KNOWN	None	4092	None	None	171678228	171686130	1	GAD	None
2	GAD1	ENSG00000128683	ENST00000486850	protein_coding	PUTATIVE	None	4092	254	83	171678597	171686382	1	GAD	None
2	GAD1	ENSG00000128683	ENST00000493270	retained_intron	KNOWN	None	4092	None	None	171685478	171687600	1	GAD	None
2	GAD1	ENSG00000128683	ENST00000462739	retained_intron	KNOWN	None	4092	None	None	171700312	171702053	1	GAD	None
2	GAD1	ENSG00000128683	ENST00000488724	retained_intron	KNOWN	None	4092	None	None	171705577	171716763	1	GAD	None
2	GAD1	ENSG00000128683	ENST00000478562	retained_intron	KNOWN	None	4092	None	None	171708998	171717657	1	GAD	None
2	GAD1	ENSG00000128683	ENST00000375272	protein_coding	KNOWN	CCDS2240	4092	675	224	171673200	171699266	1	GAD	None
18	RIOK3	ENSG00000101782	ENST00000339486	protein_coding	KNOWN	CCDS11877	11451	1560	519	21032787	21063104	1	SUDD	None
18	RIOK3	ENSG00000101782	ENST00000584960	retained_intron	KNOWN	None	11451	None	None	21033251	21043283	1	SUDD	None
18	RIOK3	ENSG00000101782	ENST00000581585	protein_coding	NOVEL	None	11451	1512	503	21033251	21061544	1	SUDD	None
18	RIOK3	ENSG00000101782	ENST00000584052	retained_intron	KNOWN	None	11451	None	None	21033252	21044258	1	SUDD	None
18	RIOK3	ENSG00000101782	ENST00000581302	retained_intron	KNOWN	None	11451	None	None	21033256	21062492	1	SUDD	None
18	RIOK3	ENSG00000101782	ENST00000577501	protein_coding	KNOWN	None	11451	1551	516	21033272	21061464	1	SUDD	None
18	RIOK3	ENSG00000101782	ENST00000584992	retained_intron	KNOWN	None	11451	None	None	21044520	21047541	1	SUDD	None
18	RIOK3	ENSG00000101782	ENST00000584130	nonsense_mediated_decay	KNOWN	None	11451	406	134	21046099	21057167	1	SUDD	None
18	RIOK3	ENSG00000101782	ENST00000581339	retained_intron	KNOWN	None	11451	None	None	21046133	21061329	1	SUDD	None
18	RIOK3	ENSG00000101782	ENST00000577250	protein_coding	PUTATIVE	None	11451	270	89	21057152	21066567	1	SUDD	None
18	RIOK3	ENSG00000101782	ENST00000581220	retained_intron	KNOWN	None	11451	None	None	21058971	21063101	1	SUDD	None
4	FAM175A	ENSG00000163322	ENST00000321945	protein_coding	KNOWN	CCDS3605	25829	1230	409	84382092	84406334	-1	CCDC98	FLJ13614, ABRA1
4	FAM175A	ENSG00000163322	ENST00000475656	nonsense_mediated_decay	KNOWN	None	25829	225	74	84382098	84406256	-1	CCDC98	FLJ13614, ABRA1
4	FAM175A	ENSG00000163322	ENST00000506553	protein_coding	PUTATIVE	None	25829	1083	360	84383162	84406708	-1	CCDC98	FLJ13614, ABRA1
4	FAM175A	ENSG00000163322	ENST00000504777	retained_intron	KNOWN	None	25829	None	None	84383228	84391054	-1	CCDC98	FLJ13614, ABRA1
4	FAM175A	ENSG00000163322	ENST00000505489	processed_transcript	KNOWN	None	25829	None	None	84390177	84444501	-1	CCDC98	FLJ13614, ABRA1
4	FAM175A	ENSG00000163322	ENST00000511801	nonsense_mediated_decay	KNOWN	None	25829	114	37	84391356	84406256	-1	CCDC98	FLJ13614, ABRA1
4	FAM175A	ENSG00000163322	ENST00000503217	processed_transcript	PUTATIVE	None	25829	None	None	84391427	84406253	-1	CCDC98	FLJ13614, ABRA1
4	FAM175A	ENSG00000163322	ENST00000515303	protein_coding	PUTATIVE	None	25829	249	82	84399963	84406218	-1	CCDC98	FLJ13614, ABRA1
1	OXCT2	ENSG00000198754	ENST00000327582	protein_coding	KNOWN	CCDS445	18606	1554	517	40235195	40237020	-1	None	FKSG25, FLJ00030, SCOT-T
4	PDGFRA	ENSG00000134853	ENST00000257290	protein_coding	KNOWN	CCDS3495	8803	3270	1089	55095264	55164414	1	None	CD140a, PDGFR2
4	PDGFRA	ENSG00000134853	ENST00000508170	protein_coding	KNOWN	None	8803	657	218	55095447	55131520	1	None	CD140a, PDGFR2
4	PDGFRA	ENSG00000134853	ENST00000509092	retained_intron	KNOWN	None	8803	None	None	55095459	55146925	1	None	CD140a, PDGFR2
4	PDGFRA	ENSG00000134853	ENST00000512143	protein_coding	PUTATIVE	None	8803	442	146	55095460	55127579	1	None	CD140a, PDGFR2
4	PDGFRA	ENSG00000134853	ENST00000509490	nonsense_mediated_decay	KNOWN	None	8803	2232	743	55095478	55148145	1	None	CD140a, PDGFR2
4	PDGFRA	ENSG00000134853	ENST00000503856	protein_coding	KNOWN	None	8803	477	158	55096010	55129943	1	None	CD140a, PDGFR2
4	PDGFRA	ENSG00000134853	ENST00000504461	protein_coding	KNOWN	None	8803	474	157	55096489	55129940	1	None	CD140a, PDGFR2
4	PDGFRA	ENSG00000134853	ENST00000512522	protein_coding	KNOWN	None	8803	463	153	55109742	55129929	1	None	CD140a, PDGFR2
4	PDGFRA	ENSG00000134853	ENST00000461294	retained_intron	KNOWN	None	8803	None	None	55142918	55144413	1	None	CD140a, PDGFR2
4	PDGFRA	ENSG00000134853	ENST00000507536	retained_intron	KNOWN	None	8803	None	None	55143343	55148144	1	None	CD140a, PDGFR2
1	PLEKHA6	ENSG00000143850	ENST00000272203	protein_coding	KNOWN	CCDS1444	17053	3147	1048	204187979	204329044	-1	None	PEPP3, KIAA0969
1	PLEKHA6	ENSG00000143850	ENST00000414478	protein_coding	NOVEL	None	17053	3207	1068	204190349	204329044	-1	None	PEPP3, KIAA0969
1	PLEKHA6	ENSG00000143850	ENST00000485632	processed_transcript	KNOWN	None	17053	None	None	204230466	204231228	-1	None	PEPP3, KIAA0969
1	PLEKHA6	ENSG00000143850	ENST00000564627	processed_transcript	KNOWN	None	17053	None	None	204243881	204346793	-1	None	PEPP3, KIAA0969
HSCHR6_MHC_COX	MICA	ENSG00000233051	ENST00000417899	protein_coding	KNOWN	None	7090	585	194	31358053	31373588	1	None	PERB11.1
HSCHR6_MHC_COX	MICA	ENSG00000233051	ENST00000497496	processed_transcript	KNOWN	None	7090	None	None	31358916	31369070	1	None	PERB11.1
HSCHR6_MHC_COX	MICA	ENSG00000233051	ENST00000427477	protein_coding	KNOWN	None	7090	999	332	31359018	31373588	1	None	PERB11.1
HSCHR6_MHC_COX	MICA	ENSG00000233051	ENST00000446505	protein_coding	KNOWN	None	7090	870	289	31361811	31374512	1	None	PERB11.1
HSCHR6_MHC_COX	MICA	ENSG00000233051	ENST00000420744	protein_coding	KNOWN	None	7090	672	223	31361944	31373588	1	None	PERB11.1
HSCHR6_MHC_COX	MICA	ENSG00000233051	ENST00000470097	retained_intron	KNOWN	None	7090	None	None	31369136	31370733	1	None	PERB11.1
HSCHR6_MHC_COX	MICA	ENSG00000233051	ENST00000547767	protein_coding	KNOWN	None	7090	999	332	31361866	31373586	1	None	PERB11.1
X	PPP2R3B	ENSG00000167393	ENST00000390665	protein_coding	KNOWN	CCDS14104	13417	1728	575	294698	347445	-1	PPP2R3L	PPP2R3LY, PR48
X	PPP2R3B	ENSG00000167393	ENST00000479438	retained_intron	KNOWN	None	13417	None	None	294970	302446	-1	PPP2R3L	PPP2R3LY, PR48
X	PPP2R3B	ENSG00000167393	ENST00000477110	retained_intron	KNOWN	None	13417	None	None	294974	308059	-1	PPP2R3L	PPP2R3LY, PR48
X	PPP2R3B	ENSG00000167393	ENST00000468169	retained_intron	KNOWN	None	13417	None	None	299348	306364	-1	PPP2R3L	PPP2R3LY, PR48
X	PPP2R3B	ENSG00000167393	ENST00000484364	retained_intron	KNOWN	None	13417	None	None	301500	306361	-1	PPP2R3L	PPP2R3LY, PR48
X	PPP2R3B	ENSG00000167393	ENST00000477636	retained_intron	KNOWN	None	13417	None	None	302646	307249	-1	PPP2R3L	PPP2R3LY, PR48
X	PPP2R3B	ENSG00000167393	ENST00000445792	retained_intron	KNOWN	None	13417	None	None	305631	347690	-1	PPP2R3L	PPP2R3LY, PR48
X	PPP2R3B	ENSG00000167393	ENST00000496630	retained_intron	KNOWN	None	13417	None	None	307372	322251	-1	PPP2R3L	PPP2R3LY, PR48
X	PPP2R3B	ENSG00000167393	ENST00000475859	retained_intron	KNOWN	None	13417	None	None	307455	308573	-1	PPP2R3L	PPP2R3LY, PR48
X	PPP2R3B	ENSG00000167393	ENST00000381625	protein_coding	PUTATIVE	None	13417	509	168	308346	334779	-1	PPP2R3L	PPP2R3LY, PR48
HSCHR6_MHC_QBL	HLA-C	ENSG00000206452	ENST00000489993	retained_intron	KNOWN	None	4933	None	None	31226380	31227295	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_QBL	HLA-C	ENSG00000206452	ENST00000498011	retained_intron	KNOWN	None	4933	None	None	31226380	31228047	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_QBL	HLA-C	ENSG00000206452	ENST00000461285	retained_intron	KNOWN	None	4933	None	None	31226380	31229670	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_QBL	HLA-C	ENSG00000206452	ENST00000383323	protein_coding	KNOWN	None	4933	1119	372	31226380	31229707	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_QBL	HLA-C	ENSG00000206452	ENST00000400395	protein_coding	KNOWN	None	4933	1194	397	31226380	31229707	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_QBL	HLA-C	ENSG00000206452	ENST00000434884	protein_coding	KNOWN	None	4933	1107	368	31226380	31229714	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_QBL	HLA-C	ENSG00000206452	ENST00000469544	nonsense_mediated_decay	KNOWN	None	4933	396	131	31226380	31229726	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_QBL	HLA-C	ENSG00000206452	ENST00000400394	protein_coding	KNOWN	None	4933	1101	366	31226380	31229751	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_QBL	HLA-C	ENSG00000206452	ENST00000494871	processed_transcript	KNOWN	None	4933	None	None	31227835	31229694	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_QBL	HLA-C	ENSG00000206452	ENST00000448362	protein_coding	KNOWN	None	4933	782	259	31227839	31229690	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_QBL	HLA-C	ENSG00000206452	ENST00000479527	retained_intron	KNOWN	None	4933	None	None	31227846	31229751	-1	HLA-JY3, D6S204	None
HSCHR6_MHC_QBL	HLA-C	ENSG00000206452	ENST00000495614	retained_intron	KNOWN	None	4933	None	None	31228724	31229711	-1	HLA-JY3, D6S204	None
19	PLEKHG2	ENSG00000090924	ENST00000409794	protein_coding	KNOWN	CCDS33022	29515	4161	1386	39903225	39916154	1	None	CLG, FLJ00018, ARHGEF42
19	PLEKHG2	ENSG00000090924	ENST00000595920	protein_coding	PUTATIVE	None	29515	146	47	39903790	39904872	1	None	CLG, FLJ00018, ARHGEF42
19	PLEKHG2	ENSG00000090924	ENST00000458508	protein_coding	PUTATIVE	None	29515	3714	1237	39903949	39916077	1	None	CLG, FLJ00018, ARHGEF42
19	PLEKHG2	ENSG00000090924	ENST00000438123	protein_coding	NOVEL	None	29515	381	126	39904168	39905900	1	None	CLG, FLJ00018, ARHGEF42
19	PLEKHG2	ENSG00000090924	ENST00000409797	protein_coding	KNOWN	None	29515	1734	577	39904305	39916156	1	None	CLG, FLJ00018, ARHGEF42
19	PLEKHG2	ENSG00000090924	ENST00000451354	protein_coding	KNOWN	None	29515	596	197	39904452	39907237	1	None	CLG, FLJ00018, ARHGEF42
19	PLEKHG2	ENSG00000090924	ENST00000205135	protein_coding	NOVEL	None	29515	3764	1253	39905833	39916379	1	None	CLG, FLJ00018, ARHGEF42
19	PLEKHG2	ENSG00000090924	ENST00000478523	retained_intron	KNOWN	None	29515	None	None	39908485	39911753	1	None	CLG, FLJ00018, ARHGEF42
19	PLEKHG2	ENSG00000090924	ENST00000596443	protein_coding	NOVEL	None	29515	348	115	39911441	39916113	1	None	CLG, FLJ00018, ARHGEF42
19	PLEKHG2	ENSG00000090924	ENST00000594307	retained_intron	KNOWN	None	29515	None	None	39911675	39912856	1	None	CLG, FLJ00018, ARHGEF42
19	PLEKHG2	ENSG00000090924	ENST00000474449	retained_intron	KNOWN	None	29515	None	None	39912306	39913468	1	None	CLG, FLJ00018, ARHGEF42
19	PLEKHG2	ENSG00000090924	ENST00000600210	protein_coding	PUTATIVE	None	29515	312	103	39914068	39916152	1	None	CLG, FLJ00018, ARHGEF42
19	PLEKHG2	ENSG00000090924	ENST00000598238	protein_coding	PUTATIVE	None	29515	287	94	39914951	39916154	1	None	CLG, FLJ00018, ARHGEF42
19	PLEKHG2	ENSG00000090924	ENST00000594161	protein_coding	PUTATIVE	None	29515	125	40	39915028	39916156	1	None	CLG, FLJ00018, ARHGEF42
19	PLEKHG2	ENSG00000090924	ENST00000596339	protein_coding	PUTATIVE	None	29515	462	153	39915203	39916135	1	None	CLG, FLJ00018, ARHGEF42
19	PLEKHG2	ENSG00000090924	ENST00000594124	protein_coding	PUTATIVE	None	29515	254	83	39915411	39916305	1	None	CLG, FLJ00018, ARHGEF42
19	PLEKHG2	ENSG00000090924	ENST00000425673	protein_coding	KNOWN	None	29515	4074	1357	39903750	39919054	1	None	CLG, FLJ00018, ARHGEF42
19	PLEKHG2	ENSG00000090924	ENST00000378550	protein_coding	KNOWN	None	29515	1734	577	39903750	39915934	1	None	CLG, FLJ00018, ARHGEF42
5	FAM169A	ENSG00000198780	ENST00000514215	nonsense_mediated_decay	KNOWN	None	29138	384	127	74073399	74144680	-1	None	KIAA0888
5	FAM169A	ENSG00000198780	ENST00000389156	protein_coding	KNOWN	CCDS43330	29138	2013	670	74073399	74162663	-1	None	KIAA0888
5	FAM169A	ENSG00000198780	ENST00000510496	protein_coding	NOVEL	None	29138	1833	610	74073399	74162663	-1	None	KIAA0888
5	FAM169A	ENSG00000198780	ENST00000510609	nonsense_mediated_decay	KNOWN	None	29138	384	127	74073401	74162169	-1	None	KIAA0888
5	FAM169A	ENSG00000198780	ENST00000513277	protein_coding	KNOWN	None	29138	668	221	74109667	74162776	-1	None	KIAA0888
5	FAM169A	ENSG00000198780	ENST00000514200	protein_coding	KNOWN	None	29138	525	174	74109810	74162212	-1	None	KIAA0888
5	FAM169A	ENSG00000198780	ENST00000506954	protein_coding	KNOWN	None	29138	258	85	74134850	74161464	-1	None	KIAA0888
5	FAM169A	ENSG00000198780	ENST00000380515	protein_coding	KNOWN	None	29138	384	127	74076956	74162663	-1	None	KIAA0888
19	IER2	ENSG00000160888	ENST00000587885	protein_coding	KNOWN	CCDS12295	28871	672	223	13261229	13265063	1	None	ETR101
19	IER2	ENSG00000160888	ENST00000292433	protein_coding	KNOWN	CCDS12295	28871	672	223	13261247	13265722	1	None	ETR101
19	IER2	ENSG00000160888	ENST00000588173	protein_coding	KNOWN	CCDS12295	28871	672	223	13262789	13265722	1	None	ETR101
16	None	ENSG00000247270	ENST00000544589	protein_coding	KNOWN	None	None	606	201	66516775	66519747	-1	None	None
4	None	ENSG00000251516	ENST00000504151	unprocessed_pseudogene	KNOWN	None	None	None	None	22609124	22612686	1	None	None
4	CDC42P6	ENSG00000237350	ENST00000421246	processed_pseudogene	KNOWN	None	44430	None	None	22728998	22729573	-1	None	None
19	DMKN	ENSG00000161249	ENST00000472365	retained_intron	KNOWN	None	25063	None	None	35988122	35988835	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000408915	protein_coding	KNOWN	CCDS42549	25063	273	90	35988122	35992813	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000460327	nonsense_mediated_decay	KNOWN	None	25063	290	95	35988122	35993781	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000434389	protein_coding	PUTATIVE	None	25063	604	200	35988122	36001113	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000488542	nonsense_mediated_decay	KNOWN	None	25063	81	26	35988122	36001329	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000402589	protein_coding	NOVEL	None	25063	612	203	35988122	36001333	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000462721	nonsense_mediated_decay	KNOWN	None	25063	111	36	35988122	36001341	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000339686	protein_coding	KNOWN	CCDS12463	25063	1431	476	35988122	36004554	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000488762	nonsense_mediated_decay	KNOWN	None	25063	111	36	35988123	36001344	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000490622	nonsense_mediated_decay	KNOWN	None	25063	111	36	35988123	36001372	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000436012	protein_coding	PUTATIVE	None	25063	519	172	35988124	36001341	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000467532	nonsense_mediated_decay	KNOWN	None	25063	111	36	35988125	36001337	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000414866	protein_coding	KNOWN	CCDS46051	25063	570	189	35988187	36001372	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000480502	protein_coding	PUTATIVE	None	25063	555	184	35988208	36001361	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000469960	retained_intron	KNOWN	None	25063	None	None	35988213	35991331	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000467637	protein_coding	PUTATIVE	None	25063	606	201	35988239	36001348	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000601368	retained_intron	KNOWN	None	25063	None	None	35988240	35990050	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000478648	retained_intron	KNOWN	None	25063	None	None	35988240	35990184	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000486756	retained_intron	KNOWN	None	25063	None	None	35988240	35990184	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000484064	retained_intron	KNOWN	None	25063	None	None	35988240	35990184	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000429837	protein_coding	KNOWN	CCDS54250	25063	1350	449	35988350	36004383	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000419602	protein_coding	KNOWN	CCDS46054	25063	1398	465	35988350	36004384	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000462126	processed_transcript	KNOWN	None	25063	None	None	35988371	36001411	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000443640	protein_coding	PUTATIVE	None	25063	762	253	35988373	36001341	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000597212	nonsense_mediated_decay	KNOWN	None	25063	459	152	35988380	36001151	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000472252	protein_coding	PUTATIVE	None	25063	372	123	35988392	36001327	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000593342	protein_coding	PUTATIVE	None	25063	224	73	35988394	35992780	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000601650	protein_coding	PUTATIVE	None	25063	324	107	35988401	35992794	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000470964	retained_intron	KNOWN	None	25063	None	None	35989149	35990040	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000492341	protein_coding	PUTATIVE	None	25063	372	123	35989500	36001312	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000602781	protein_coding	PUTATIVE	None	25063	612	203	35989545	36001330	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000460051	nonsense_mediated_decay	KNOWN	None	25063	111	36	35989618	36001337	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000498211	nonsense_mediated_decay	KNOWN	None	25063	111	36	35989618	36001337	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000483855	nonsense_mediated_decay	KNOWN	None	25063	111	36	35989618	36001337	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000493979	nonsense_mediated_decay	KNOWN	None	25063	111	36	35989618	36001337	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000464709	nonsense_mediated_decay	KNOWN	None	25063	111	36	35989618	36001337	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000463292	nonsense_mediated_decay	KNOWN	None	25063	111	36	35989619	36001410	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000465927	retained_intron	KNOWN	None	25063	None	None	35990801	36001300	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000464894	nonsense_mediated_decay	KNOWN	None	25063	111	36	35990831	36001372	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000493517	nonsense_mediated_decay	KNOWN	None	25063	111	36	35990831	36001372	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000466587	processed_transcript	KNOWN	None	25063	None	None	35990867	35993740	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000602679	protein_coding	PUTATIVE	None	25063	284	93	35990876	36001286	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000482321	retained_intron	KNOWN	None	25063	None	None	35990987	36001372	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000476246	nonsense_mediated_decay	KNOWN	None	25063	111	36	35991109	36001354	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000471786	retained_intron	KNOWN	None	25063	None	None	35991170	36001329	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000486450	retained_intron	KNOWN	None	25063	None	None	35991183	36001333	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000498593	nonsense_mediated_decay	KNOWN	None	25063	111	36	35991347	36001372	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000471017	retained_intron	KNOWN	None	25063	None	None	35991360	35996974	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000498269	retained_intron	KNOWN	None	25063	None	None	35991440	36001291	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000489395	retained_intron	KNOWN	None	25063	None	None	35994206	35999459	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000595571	nonsense_mediated_decay	KNOWN	None	25063	111	36	35994206	36001133	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000474992	processed_transcript	KNOWN	None	25063	None	None	35994206	36001325	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000470746	nonsense_mediated_decay	KNOWN	None	25063	111	36	35994206	36001338	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000476051	processed_transcript	KNOWN	None	25063	None	None	35994206	36001342	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000474928	protein_coding	PUTATIVE	None	25063	102	33	35994206	36001371	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000488892	protein_coding	PUTATIVE	None	25063	249	82	35994206	36001377	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000462538	nonsense_mediated_decay	KNOWN	None	25063	111	36	35994206	36001412	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000480507	nonsense_mediated_decay	KNOWN	None	25063	111	36	35994206	36001412	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000461300	protein_coding	PUTATIVE	None	25063	102	33	35994206	36001412	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000447113	protein_coding	NOVEL	CCDS54252	25063	1311	436	35994206	36004560	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000392206	protein_coding	PUTATIVE	None	25063	300	99	35994208	36001372	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000458071	protein_coding	PUTATIVE	None	25063	396	131	35994217	36001337	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000418261	protein_coding	KNOWN	CCDS46052	25063	1161	386	35994233	36004383	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000424570	protein_coding	KNOWN	CCDS46053	25063	1197	398	35994233	36004383	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000451297	protein_coding	PUTATIVE	CCDS54251	25063	1110	369	35994322	36004377	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000450261	protein_coding	PUTATIVE	None	25063	349	115	35994334	36001344	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000470857	retained_intron	KNOWN	None	25063	None	None	36000421	36001320	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000472065	retained_intron	KNOWN	None	25063	None	None	36000816	36001359	-1	None	ZD52F10
19	DMKN	ENSG00000161249	ENST00000440396	protein_coding	KNOWN	None	25063	1251	416	35994209	36004560	-1	None	ZD52F10
4	None	ENSG00000248837	ENST00000511453	lincRNA	KNOWN	None	None	None	None	22999174	23058485	1	None	None
4	None	ENSG00000248837	ENST00000503017	lincRNA	KNOWN	None	None	None	None	23001209	23042638	1	None	None
4	None	ENSG00000248837	ENST00000506425	lincRNA	KNOWN	None	None	None	None	23004776	23043141	1	None	None
X	ZXDB	ENSG00000198455	ENST00000374888	protein_coding	KNOWN	CCDS35313	13199	2412	803	57618269	57623906	1	None	ZNF905
4	None	ENSG00000249645	ENST00000503394	lincRNA	KNOWN	None	None	None	None	23107125	23125110	1	None	None
8	RSPO2	ENSG00000147655	ENST00000517939	protein_coding	KNOWN	None	28583	531	176	108911544	109094184	-1	None	MGC35555
8	RSPO2	ENSG00000147655	ENST00000517781	protein_coding	KNOWN	None	28583	540	179	108911544	109095431	-1	None	MGC35555
8	RSPO2	ENSG00000147655	ENST00000276659	protein_coding	KNOWN	CCDS6307	28583	732	243	108911545	109095876	-1	None	MGC35555
8	RSPO2	ENSG00000147655	ENST00000521502	protein_coding	KNOWN	None	28583	504	167	108913330	109085317	-1	None	MGC35555
8	RSPO2	ENSG00000147655	ENST00000521757	protein_coding	KNOWN	None	28583	267	88	108970456	109001783	-1	None	MGC35555
8	RSPO2	ENSG00000147655	ENST00000521956	protein_coding	KNOWN	None	28583	364	120	108972965	109095064	-1	None	MGC35555
8	RSPO2	ENSG00000147655	ENST00000520026	protein_coding	PUTATIVE	None	28583	269	88	108972976	109009482	-1	None	MGC35555
8	RSPO2	ENSG00000147655	ENST00000522333	protein_coding	KNOWN	None	28583	230	75	109001337	109095870	-1	None	MGC35555
8	RSPO2	ENSG00000147655	ENST00000378439	protein_coding	KNOWN	None	28583	540	179	108911544	109095913	-1	None	MGC35555
4	None	ENSG00000249547	ENST00000512563	lincRNA	KNOWN	None	None	None	None	23236248	23287196	-1	None	None
7	LRCH4	ENSG00000077454	ENST00000485071	retained_intron	KNOWN	None	6691	None	None	100169855	100176323	-1	LRN, LRRN1	None
7	LRCH4	ENSG00000077454	ENST00000485554	protein_coding	PUTATIVE	None	6691	533	176	100171634	100174566	-1	LRN, LRRN1	None
7	LRCH4	ENSG00000077454	ENST00000467201	retained_intron	KNOWN	None	6691	None	None	100172283	100178496	-1	LRN, LRRN1	None
7	LRCH4	ENSG00000077454	ENST00000310300	protein_coding	KNOWN	CCDS34706	6691	2052	683	100172283	100183776	-1	LRN, LRRN1	None
7	LRCH4	ENSG00000077454	ENST00000476881	retained_intron	KNOWN	None	6691	None	None	100172332	100174723	-1	LRN, LRRN1	None
7	LRCH4	ENSG00000077454	ENST00000497245	protein_coding	PUTATIVE	None	6691	696	231	100172686	100182743	-1	LRN, LRRN1	None
7	LRCH4	ENSG00000077454	ENST00000490359	retained_intron	KNOWN	None	6691	None	None	100173580	100174718	-1	LRN, LRRN1	None
7	LRCH4	ENSG00000077454	ENST00000498539	retained_intron	KNOWN	None	6691	None	None	100174608	100175507	-1	LRN, LRRN1	None
7	LRCH4	ENSG00000077454	ENST00000487697	retained_intron	KNOWN	None	6691	None	None	100175469	100176362	-1	LRN, LRRN1	None
7	LRCH4	ENSG00000077454	ENST00000470184	retained_intron	KNOWN	None	6691	None	None	100179260	100180076	-1	LRN, LRRN1	None
7	LRCH4	ENSG00000077454	ENST00000485583	retained_intron	KNOWN	None	6691	None	None	100179761	100183752	-1	LRN, LRRN1	None
4	RFPL4AP3	ENSG00000251220	ENST00000515267	processed_pseudogene	KNOWN	None	45139	None	None	23516563	23516907	-1	None	None
1	PPP1R15B	ENSG00000158615	ENST00000367188	protein_coding	KNOWN	CCDS1445	14951	2142	713	204372515	204380919	-1	None	FLJ14744
X	ZXDA	ENSG00000198205	ENST00000358697	protein_coding	KNOWN	CCDS14376	13198	2400	799	57931864	57937067	-1	None	ZNF896
4	None	ENSG00000250137	ENST00000514290	antisense	KNOWN	None	None	None	None	23562546	23770275	1	None	None
4	None	ENSG00000250137	ENST00000499715	antisense	KNOWN	None	None	None	None	23764550	23770248	1	None	None
19	ARHGEF1	ENSG00000076928	ENST00000354532	protein_coding	KNOWN	CCDS12591	681	2739	912	42387228	42411595	1	None	P115-RHOGEF, SUB1.5, LBCL2
19	ARHGEF1	ENSG00000076928	ENST00000600387	retained_intron	KNOWN	None	681	None	None	42387240	42394847	1	None	P115-RHOGEF, SUB1.5, LBCL2
19	ARHGEF1	ENSG00000076928	ENST00000600274	retained_intron	KNOWN	None	681	None	None	42387250	42411606	1	None	P115-RHOGEF, SUB1.5, LBCL2
19	ARHGEF1	ENSG00000076928	ENST00000599846	protein_coding	PUTATIVE	None	681	2907	968	42387251	42411600	1	None	P115-RHOGEF, SUB1.5, LBCL2
19	ARHGEF1	ENSG00000076928	ENST00000596957	processed_transcript	KNOWN	None	681	None	None	42387291	42396599	1	None	P115-RHOGEF, SUB1.5, LBCL2
19	ARHGEF1	ENSG00000076928	ENST00000347545	protein_coding	KNOWN	CCDS12592	681	2640	879	42387292	42411606	1	None	P115-RHOGEF, SUB1.5, LBCL2
19	ARHGEF1	ENSG00000076928	ENST00000378152	protein_coding	PUTATIVE	None	681	2847	948	42388437	42411606	1	None	P115-RHOGEF, SUB1.5, LBCL2
19	ARHGEF1	ENSG00000076928	ENST00000337665	protein_coding	KNOWN	CCDS12590	681	2784	927	42388515	42411606	1	None	P115-RHOGEF, SUB1.5, LBCL2
19	ARHGEF1	ENSG00000076928	ENST00000598812	nonsense_mediated_decay	KNOWN	None	681	265	87	42396705	42399446	1	None	P115-RHOGEF, SUB1.5, LBCL2
19	ARHGEF1	ENSG00000076928	ENST00000594521	protein_coding	NOVEL	None	681	826	274	42398365	42406180	1	None	P115-RHOGEF, SUB1.5, LBCL2
19	ARHGEF1	ENSG00000076928	ENST00000593869	retained_intron	KNOWN	None	681	None	None	42398560	42400945	1	None	P115-RHOGEF, SUB1.5, LBCL2
19	ARHGEF1	ENSG00000076928	ENST00000599589	protein_coding	PUTATIVE	None	681	2108	701	42399452	42434302	1	None	P115-RHOGEF, SUB1.5, LBCL2
19	ARHGEF1	ENSG00000076928	ENST00000595897	retained_intron	KNOWN	None	681	None	None	42401824	42411606	1	None	P115-RHOGEF, SUB1.5, LBCL2
19	ARHGEF1	ENSG00000076928	ENST00000594258	protein_coding	PUTATIVE	None	681	919	305	42401960	42407047	1	None	P115-RHOGEF, SUB1.5, LBCL2
19	ARHGEF1	ENSG00000076928	ENST00000594044	retained_intron	KNOWN	None	681	None	None	42402573	42407557	1	None	P115-RHOGEF, SUB1.5, LBCL2
19	ARHGEF1	ENSG00000076928	ENST00000595723	protein_coding	NOVEL	None	681	872	289	42406948	42410713	1	None	P115-RHOGEF, SUB1.5, LBCL2
19	ARHGEF1	ENSG00000076928	ENST00000600517	nonsense_mediated_decay	KNOWN	None	681	206	67	42408368	42410195	1	None	P115-RHOGEF, SUB1.5, LBCL2
19	ARHGEF1	ENSG00000076928	ENST00000598587	retained_intron	KNOWN	None	681	None	None	42409665	42410134	1	None	P115-RHOGEF, SUB1.5, LBCL2
19	ARHGEF1	ENSG00000076928	ENST00000598444	retained_intron	KNOWN	None	681	None	None	42409952	42410487	1	None	P115-RHOGEF, SUB1.5, LBCL2
19	ARHGEF1	ENSG00000076928	ENST00000593609	retained_intron	KNOWN	None	681	None	None	42410728	42411604	1	None	P115-RHOGEF, SUB1.5, LBCL2
19	ARHGEF1	ENSG00000076928	ENST00000594417	protein_coding	PUTATIVE	None	681	385	127	42427246	42434279	1	None	P115-RHOGEF, SUB1.5, LBCL2
19	ARHGEF1	ENSG00000076928	ENST00000594513	processed_transcript	KNOWN	None	681	None	None	42432742	42433998	1	None	P115-RHOGEF, SUB1.5, LBCL2
19	ARHGEF1	ENSG00000076928	ENST00000595770	retained_intron	KNOWN	None	681	None	None	42432972	42434302	1	None	P115-RHOGEF, SUB1.5, LBCL2
4	None	ENSG00000251292	ENST00000507666	lincRNA	KNOWN	None	None	None	None	23724885	23735202	-1	None	None
4	None	ENSG00000249453	ENST00000506514	antisense	KNOWN	None	None	None	None	23781213	23784183	1	None	None
X	SPIN4	ENSG00000186767	ENST00000374884	protein_coding	KNOWN	None	27040	696	231	62567107	62571223	-1	None	FLJ44984
X	SPIN4	ENSG00000186767	ENST00000335144	protein_coding	KNOWN	CCDS43964	27040	750	249	62567107	62571218	-1	None	FLJ44984
20	PFDN4	ENSG00000101132	ENST00000371419	protein_coding	KNOWN	CCDS13445	8868	405	134	52824386	52836492	1	None	PFD4, C-1, C1
20	PFDN4	ENSG00000101132	ENST00000441080	nonsense_mediated_decay	KNOWN	None	8868	411	136	52824634	52844591	1	None	PFD4, C-1, C1
20	PFDN4	ENSG00000101132	ENST00000493356	processed_transcript	KNOWN	None	8868	None	None	52824839	52835824	1	None	PFD4, C-1, C1
20	PFDN4	ENSG00000101132	ENST00000487129	processed_transcript	KNOWN	None	8868	None	None	52824851	52835742	1	None	PFD4, C-1, C1
20	PFDN4	ENSG00000101132	ENST00000474326	processed_transcript	KNOWN	None	8868	None	None	52824967	52830949	1	None	PFD4, C-1, C1
HSCHR6_MHC_DBB	LTB	ENSG00000236925	ENST00000444479	protein_coding	KNOWN	None	6711	735	244	31530476	31532346	-1	TNFC	p33, TNFSF3
HSCHR6_MHC_DBB	LTB	ENSG00000236925	ENST00000464122	processed_transcript	KNOWN	None	6711	None	None	31530476	31532348	-1	TNFC	p33, TNFSF3
HSCHR6_MHC_DBB	LTB	ENSG00000236925	ENST00000462162	processed_transcript	KNOWN	None	6711	None	None	31530476	31532443	-1	TNFC	p33, TNFSF3
7	SLC26A3	ENSG00000091138	ENST00000379083	nonsense_mediated_decay	KNOWN	None	3018	159	52	107405912	107443670	-1	DRA, CLD	None
7	SLC26A3	ENSG00000091138	ENST00000340010	protein_coding	KNOWN	CCDS5748	3018	2295	764	107405917	107443652	-1	DRA, CLD	None
7	SLC26A3	ENSG00000091138	ENST00000469651	retained_intron	KNOWN	None	3018	None	None	107416460	107417197	-1	DRA, CLD	None
7	SLC26A3	ENSG00000091138	ENST00000468551	retained_intron	KNOWN	None	3018	None	None	107423275	107427967	-1	DRA, CLD	None
7	SLC26A3	ENSG00000091138	ENST00000453332	protein_coding	KNOWN	None	3018	360	119	107432297	107443670	-1	DRA, CLD	None
7	SLC26A3	ENSG00000091138	ENST00000422236	protein_coding	KNOWN	None	3018	1956	651	107405913	107443670	-1	DRA, CLD	None
5	SKP1	ENSG00000113558	ENST00000353411	protein_coding	KNOWN	CCDS4171	10899	492	163	133484633	133512729	-1	SKP1A	EMC19, OCP2, TCEB1L, MGC34403, OCP-II, p19A
5	SKP1	ENSG00000113558	ENST00000522552	protein_coding	KNOWN	CCDS4172	10899	483	160	133493029	133512655	-1	SKP1A	EMC19, OCP2, TCEB1L, MGC34403, OCP-II, p19A
5	SKP1	ENSG00000113558	ENST00000521216	protein_coding	NOVEL	None	10899	492	163	133493083	133512611	-1	SKP1A	EMC19, OCP2, TCEB1L, MGC34403, OCP-II, p19A
5	SKP1	ENSG00000113558	ENST00000517691	retained_intron	KNOWN	None	10899	None	None	133493165	133497588	-1	SKP1A	EMC19, OCP2, TCEB1L, MGC34403, OCP-II, p19A
5	SKP1	ENSG00000113558	ENST00000517625	protein_coding	KNOWN	CCDS4171	10899	492	163	133493199	133512410	-1	SKP1A	EMC19, OCP2, TCEB1L, MGC34403, OCP-II, p19A
5	SKP1	ENSG00000113558	ENST00000523966	nonsense_mediated_decay	KNOWN	None	10899	126	41	133493201	133512641	-1	SKP1A	EMC19, OCP2, TCEB1L, MGC34403, OCP-II, p19A
5	SKP1	ENSG00000113558	ENST00000522855	protein_coding	KNOWN	CCDS4171	10899	492	163	133493263	133512641	-1	SKP1A	EMC19, OCP2, TCEB1L, MGC34403, OCP-II, p19A
5	SKP1	ENSG00000113558	ENST00000328392	protein_coding	NOVEL	None	10899	476	157	133493632	133512641	-1	SKP1A	EMC19, OCP2, TCEB1L, MGC34403, OCP-II, p19A
5	SKP1	ENSG00000113558	ENST00000519054	nonsense_mediated_decay	KNOWN	None	10899	120	39	133494171	133512649	-1	SKP1A	EMC19, OCP2, TCEB1L, MGC34403, OCP-II, p19A
5	SKP1	ENSG00000113558	ENST00000519321	protein_coding	KNOWN	None	10899	427	141	133494175	133512641	-1	SKP1A	EMC19, OCP2, TCEB1L, MGC34403, OCP-II, p19A
5	SKP1	ENSG00000113558	ENST00000520417	protein_coding	KNOWN	None	10899	306	101	133496687	133510456	-1	SKP1A	EMC19, OCP2, TCEB1L, MGC34403, OCP-II, p19A
5	SKP1	ENSG00000113558	ENST00000519718	protein_coding	PUTATIVE	None	10899	273	90	133502861	133561762	-1	SKP1A	EMC19, OCP2, TCEB1L, MGC34403, OCP-II, p19A
5	SKP1	ENSG00000113558	ENST00000524288	retained_intron	KNOWN	None	10899	None	None	133509078	133512641	-1	SKP1A	EMC19, OCP2, TCEB1L, MGC34403, OCP-II, p19A
5	SKP1	ENSG00000113558	ENST00000523359	protein_coding	KNOWN	None	10899	56	17	133509658	133511261	-1	SKP1A	EMC19, OCP2, TCEB1L, MGC34403, OCP-II, p19A
4	CBR4	ENSG00000145439	ENST00000510042	nonsense_mediated_decay	KNOWN	None	25891	156	51	169784921	169931409	-1	None	FLJ14431, SDR45C1
4	CBR4	ENSG00000145439	ENST00000509108	processed_transcript	KNOWN	None	25891	None	None	169784944	169927939	-1	None	FLJ14431, SDR45C1
4	CBR4	ENSG00000145439	ENST00000306193	protein_coding	KNOWN	CCDS3812	25891	714	237	169908741	169931409	-1	None	FLJ14431, SDR45C1
4	CBR4	ENSG00000145439	ENST00000504480	protein_coding	KNOWN	None	25891	540	179	169922320	169931405	-1	None	FLJ14431, SDR45C1
4	CBR4	ENSG00000145439	ENST00000504561	protein_coding	NOVEL	None	25891	561	186	169922726	169931231	-1	None	FLJ14431, SDR45C1
4	CBR4	ENSG00000145439	ENST00000506808	nonsense_mediated_decay	KNOWN	None	25891	183	60	169927953	169931401	-1	None	FLJ14431, SDR45C1
4	CBR4	ENSG00000145439	ENST00000507752	nonsense_mediated_decay	KNOWN	None	25891	183	60	169928792	169931426	-1	None	FLJ14431, SDR45C1
1	NBPF10	ENSG00000163386	ENST00000369339	protein_coding	KNOWN	None	31992	2016	671	145289772	145370303	1	None	AG1
1	NBPF10	ENSG00000163386	ENST00000464433	nonsense_mediated_decay	KNOWN	None	31992	192	63	145292806	145320556	1	None	AG1
1	NBPF10	ENSG00000163386	ENST00000448873	protein_coding	KNOWN	None	31992	192	63	145292806	145367754	1	None	AG1
1	NBPF10	ENSG00000163386	ENST00000369338	protein_coding	KNOWN	None	31992	2010	669	145293114	145370199	1	None	AG1
1	NBPF10	ENSG00000163386	ENST00000490598	nonsense_mediated_decay	KNOWN	None	31992	1797	598	145293371	145364611	1	None	AG1
1	NBPF10	ENSG00000163386	ENST00000605176	protein_coding	KNOWN	None	31992	2783	926	145301735	145369590	1	None	AG1
1	NBPF10	ENSG00000163386	ENST00000342960	protein_coding	KNOWN	CCDS53355	31992	10662	3553	145293371	145368684	1	None	AG1
X	SHOX	ENSG00000185960	ENST00000554971	protein_coding	KNOWN	CCDS14107	10853	879	292	591542	606303	1	None	PHOG, GCFX, SS, SHOXY
X	SHOX	ENSG00000185960	ENST00000381575	protein_coding	KNOWN	CCDS14106	10853	678	225	591542	620146	1	None	PHOG, GCFX, SS, SHOXY
X	SHOX	ENSG00000185960	ENST00000334060	protein_coding	KNOWN	CCDS14106	10853	678	225	585079	620146	1	None	PHOG, GCFX, SS, SHOXY
X	SHOX	ENSG00000185960	ENST00000381578	protein_coding	KNOWN	CCDS14107	10853	879	292	585079	607558	1	None	PHOG, GCFX, SS, SHOXY
11	KRTAP5-7	ENSG00000244411	ENST00000398536	protein_coding	KNOWN	CCDS41682	23602	498	165	71238313	71239210	1	None	KRTAP5.7, KRTAP5-3
5	ATP10B	ENSG00000118322	ENST00000327245	protein_coding	KNOWN	CCDS43394	13543	4386	1461	159990127	160279219	-1	None	ATPVB, KIAA0715, FLJ21477
5	ATP10B	ENSG00000118322	ENST00000523758	processed_transcript	PUTATIVE	None	13543	None	None	160029573	160030298	-1	None	ATPVB, KIAA0715, FLJ21477
5	ATP10B	ENSG00000118322	ENST00000517815	retained_intron	KNOWN	None	13543	None	None	160030627	160033923	-1	None	ATPVB, KIAA0715, FLJ21477
5	ATP10B	ENSG00000118322	ENST00000522169	processed_transcript	PUTATIVE	None	13543	None	None	160038804	160039905	-1	None	ATPVB, KIAA0715, FLJ21477
5	ATP10B	ENSG00000118322	ENST00000520108	protein_coding	PUTATIVE	None	13543	1671	556	160039246	160061565	-1	None	ATPVB, KIAA0715, FLJ21477
5	ATP10B	ENSG00000118322	ENST00000326831	retained_intron	KNOWN	None	13543	None	None	160059631	160112392	-1	None	ATPVB, KIAA0715, FLJ21477
5	ATP10B	ENSG00000118322	ENST00000517802	retained_intron	KNOWN	None	13543	None	None	160060262	160279219	-1	None	ATPVB, KIAA0715, FLJ21477
5	ATP10B	ENSG00000118322	ENST00000521033	retained_intron	KNOWN	None	13543	None	None	160060760	160279195	-1	None	ATPVB, KIAA0715, FLJ21477
5	ATP10B	ENSG00000118322	ENST00000518411	processed_transcript	KNOWN	None	13543	None	None	160113228	160279219	-1	None	ATPVB, KIAA0715, FLJ21477
5	ATP10B	ENSG00000118322	ENST00000520098	processed_transcript	KNOWN	None	13543	None	None	160114918	160279161	-1	None	ATPVB, KIAA0715, FLJ21477
5	ATP10B	ENSG00000118322	ENST00000520975	processed_transcript	KNOWN	None	13543	None	None	160115827	160279221	-1	None	ATPVB, KIAA0715, FLJ21477
X	ARHGEF9	ENSG00000131089	ENST00000253401	protein_coding	KNOWN	CCDS35315	14561	1551	516	62854847	62974993	-1	None	KIAA0424, PEM-2
X	ARHGEF9	ENSG00000131089	ENST00000374878	protein_coding	KNOWN	None	14561	1437	478	62854847	63005413	-1	None	KIAA0424, PEM-2
X	ARHGEF9	ENSG00000131089	ENST00000495564	processed_transcript	KNOWN	None	14561	None	None	62857860	62974991	-1	None	KIAA0424, PEM-2
X	ARHGEF9	ENSG00000131089	ENST00000498761	processed_transcript	KNOWN	None	14561	None	None	62857862	62864146	-1	None	KIAA0424, PEM-2
X	ARHGEF9	ENSG00000131089	ENST00000466925	processed_transcript	KNOWN	None	14561	None	None	62857862	62894018	-1	None	KIAA0424, PEM-2
X	ARHGEF9	ENSG00000131089	ENST00000374872	protein_coding	KNOWN	None	14561	1488	495	62857862	62974988	-1	None	KIAA0424, PEM-2
X	ARHGEF9	ENSG00000131089	ENST00000437457	protein_coding	KNOWN	CCDS55430	14561	1392	463	62854856	63005426	-1	None	KIAA0424, PEM-2
X	ARHGEF9	ENSG00000131089	ENST00000374870	protein_coding	KNOWN	CCDS55429	14561	1245	414	62854856	62975031	-1	None	KIAA0424, PEM-2
X	ARHGEF9	ENSG00000131089	ENST00000433323	protein_coding	KNOWN	None	14561	732	243	62857626	62898371	-1	None	KIAA0424, PEM-2
13	CAB39L	ENSG00000102547	ENST00000355854	protein_coding	KNOWN	CCDS9416	20290	1014	337	49882786	49975735	-1	None	bA103J18.3, FLJ12577, MO2L
13	CAB39L	ENSG00000102547	ENST00000409308	protein_coding	KNOWN	CCDS9416	20290	1014	337	49883934	50018262	-1	None	bA103J18.3, FLJ12577, MO2L
13	CAB39L	ENSG00000102547	ENST00000409130	protein_coding	PUTATIVE	None	20290	582	193	49884265	49925263	-1	None	bA103J18.3, FLJ12577, MO2L
13	CAB39L	ENSG00000102547	ENST00000425242	protein_coding	NOVEL	None	20290	843	280	49884758	49951267	-1	None	bA103J18.3, FLJ12577, MO2L
13	CAB39L	ENSG00000102547	ENST00000410043	protein_coding	KNOWN	CCDS9416	20290	1014	337	49884788	50018189	-1	None	bA103J18.3, FLJ12577, MO2L
13	CAB39L	ENSG00000102547	ENST00000457041	protein_coding	KNOWN	None	20290	565	187	49924879	49975661	-1	None	bA103J18.3, FLJ12577, MO2L
13	CAB39L	ENSG00000102547	ENST00000413278	protein_coding	KNOWN	None	20290	385	127	49933860	49994611	-1	None	bA103J18.3, FLJ12577, MO2L
13	CAB39L	ENSG00000102547	ENST00000409082	protein_coding	KNOWN	None	20290	280	92	49951099	49987887	-1	None	bA103J18.3, FLJ12577, MO2L
13	CAB39L	ENSG00000102547	ENST00000476943	processed_transcript	KNOWN	None	20290	None	None	49956643	49987176	-1	None	bA103J18.3, FLJ12577, MO2L
13	CAB39L	ENSG00000102547	ENST00000470410	processed_transcript	KNOWN	None	20290	None	None	49975632	50018200	-1	None	bA103J18.3, FLJ12577, MO2L
13	CAB39L	ENSG00000102547	ENST00000347776	protein_coding	KNOWN	CCDS9416	20290	1014	337	49882789	50018221	-1	None	bA103J18.3, FLJ12577, MO2L
2	GORASP2	ENSG00000115806	ENST00000471559	processed_transcript	KNOWN	None	17500	None	None	171784974	171813024	1	None	GRASP55, GRS2, GOLPH6
2	GORASP2	ENSG00000115806	ENST00000234160	protein_coding	KNOWN	CCDS33325	17500	1359	452	171785036	171823639	1	None	GRASP55, GRS2, GOLPH6
2	GORASP2	ENSG00000115806	ENST00000444801	nonsense_mediated_decay	KNOWN	None	17500	99	32	171785707	171807876	1	None	GRASP55, GRS2, GOLPH6
2	GORASP2	ENSG00000115806	ENST00000497674	retained_intron	KNOWN	None	17500	None	None	171785763	171805271	1	None	GRASP55, GRS2, GOLPH6
2	GORASP2	ENSG00000115806	ENST00000493692	processed_transcript	KNOWN	None	17500	None	None	171785763	171822401	1	None	GRASP55, GRS2, GOLPH6
2	GORASP2	ENSG00000115806	ENST00000455067	nonsense_mediated_decay	KNOWN	None	17500	117	38	171785767	171806225	1	None	GRASP55, GRS2, GOLPH6
2	GORASP2	ENSG00000115806	ENST00000454751	nonsense_mediated_decay	KNOWN	None	17500	222	73	171785777	171806253	1	None	GRASP55, GRS2, GOLPH6
2	GORASP2	ENSG00000115806	ENST00000442798	nonsense_mediated_decay	KNOWN	None	17500	72	23	171785831	171823133	1	None	GRASP55, GRS2, GOLPH6
2	GORASP2	ENSG00000115806	ENST00000497928	processed_transcript	KNOWN	None	17500	None	None	171785943	171806169	1	None	GRASP55, GRS2, GOLPH6
2	GORASP2	ENSG00000115806	ENST00000488928	retained_intron	KNOWN	None	17500	None	None	171806542	171808124	1	None	GRASP55, GRS2, GOLPH6
2	GORASP2	ENSG00000115806	ENST00000486498	retained_intron	KNOWN	None	17500	None	None	171810328	171823111	1	None	GRASP55, GRS2, GOLPH6
2	GORASP2	ENSG00000115806	ENST00000452526	protein_coding	KNOWN	None	17500	1395	464	171785831	171823133	1	None	GRASP55, GRS2, GOLPH6
22	PES1	ENSG00000100029	ENST00000354694	protein_coding	KNOWN	CCDS13880	8848	1767	588	30972615	30987927	-1	None	PES
22	PES1	ENSG00000100029	ENST00000402281	protein_coding	PUTATIVE	None	8848	1350	449	30972615	31003070	-1	None	PES
22	PES1	ENSG00000100029	ENST00000441668	protein_coding	NOVEL	None	8848	583	193	30972617	30975910	-1	None	PES
22	PES1	ENSG00000100029	ENST00000405677	protein_coding	PUTATIVE	None	8848	1350	449	30972619	31002975	-1	None	PES
22	PES1	ENSG00000100029	ENST00000488719	retained_intron	KNOWN	None	8848	None	None	30972623	30976061	-1	None	PES
22	PES1	ENSG00000100029	ENST00000402284	protein_coding	NOVEL	None	8848	1716	571	30972652	30987867	-1	None	PES
22	PES1	ENSG00000100029	ENST00000335214	protein_coding	KNOWN	CCDS58802	8848	1752	583	30972822	30987845	-1	None	PES
22	PES1	ENSG00000100029	ENST00000406208	nonsense_mediated_decay	KNOWN	None	8848	45	14	30977307	30987853	-1	None	PES
22	PES1	ENSG00000100029	ENST00000477762	retained_intron	KNOWN	None	8848	None	None	30980214	30984010	-1	None	PES
22	PES1	ENSG00000100029	ENST00000433575	protein_coding	NOVEL	None	8848	515	170	30981211	30987865	-1	None	PES
22	PES1	ENSG00000100029	ENST00000466614	retained_intron	KNOWN	None	8848	None	None	30982985	30987877	-1	None	PES
22	PES1	ENSG00000100029	ENST00000467368	processed_transcript	PUTATIVE	None	8848	None	None	30999765	31002856	-1	None	PES
22	PES1	ENSG00000100029	ENST00000492986	processed_transcript	PUTATIVE	None	8848	None	None	30999767	31003045	-1	None	PES
20	DOK5	ENSG00000101134	ENST00000262593	protein_coding	KNOWN	CCDS13446	16173	921	306	53092136	53267710	1	C20orf180	dJ805C22.1
20	DOK5	ENSG00000101134	ENST00000491469	processed_transcript	KNOWN	None	16173	None	None	53092165	53111693	1	C20orf180	dJ805C22.1
20	DOK5	ENSG00000101134	ENST00000395939	protein_coding	PUTATIVE	None	16173	597	198	53092257	53267429	1	C20orf180	dJ805C22.1
20	DOK5	ENSG00000101134	ENST00000484860	processed_transcript	PUTATIVE	None	16173	None	None	53171472	53172096	1	C20orf180	dJ805C22.1
19	ZNF321P	ENSG00000221874	ENST00000391777	protein_coding	KNOWN	CCDS56101	13827	702	233	53431728	53466076	-1	ZNF321	MGC35402
6	MUC22	ENSG00000261272	ENST00000561890	protein_coding	NOVEL	CCDS59003	39755	5322	1773	30978251	31003179	1	None	PBMUCL1
7	PSPH	ENSG00000146733	ENST00000437355	nonsense_mediated_decay	KNOWN	CCDS5522	9577	678	225	56078744	56119141	-1	PSP	None
7	PSPH	ENSG00000146733	ENST00000275605	protein_coding	KNOWN	CCDS5522	9577	678	225	56078760	56119297	-1	PSP	None
7	PSPH	ENSG00000146733	ENST00000395471	protein_coding	KNOWN	CCDS5522	9577	678	225	56078761	56119297	-1	PSP	None
7	PSPH	ENSG00000146733	ENST00000459834	processed_transcript	KNOWN	None	9577	None	None	56079231	56101864	-1	PSP	None
7	PSPH	ENSG00000146733	ENST00000421626	protein_coding	KNOWN	None	9577	562	186	56082724	56101849	-1	PSP	None
7	PSPH	ENSG00000146733	ENST00000427797	nonsense_mediated_decay	KNOWN	None	9577	273	90	56084970	56101865	-1	PSP	None
7	PSPH	ENSG00000146733	ENST00000419984	protein_coding	KNOWN	None	9577	140	45	56088766	56118981	-1	PSP	None
7	PSPH	ENSG00000146733	ENST00000421312	protein_coding	KNOWN	None	9577	140	45	56088766	56119160	-1	PSP	None
7	PSPH	ENSG00000146733	ENST00000424596	protein_coding	KNOWN	None	9577	32	9	56088874	56119139	-1	PSP	None
7	PSPH	ENSG00000146733	ENST00000413218	protein_coding	KNOWN	None	9577	7	1	56088899	56119085	-1	PSP	None
7	PSPH	ENSG00000146733	ENST00000416592	protein_coding	KNOWN	None	9577	7	1	56088899	56119160	-1	PSP	None
7	PSPH	ENSG00000146733	ENST00000472276	retained_intron	KNOWN	None	9577	None	None	56100827	56101864	-1	PSP	None
19	RPS11	ENSG00000142534	ENST00000600027	retained_intron	KNOWN	None	10384	None	None	49999622	50002946	1	None	S11
19	RPS11	ENSG00000142534	ENST00000599167	retained_intron	KNOWN	None	10384	None	None	49999627	50002946	1	None	S11
19	RPS11	ENSG00000142534	ENST00000270625	protein_coding	KNOWN	CCDS12769	10384	477	158	49999631	50002946	1	None	S11
19	RPS11	ENSG00000142534	ENST00000602252	retained_intron	KNOWN	None	10384	None	None	49999688	50002946	1	None	S11
19	RPS11	ENSG00000142534	ENST00000596873	protein_coding	PUTATIVE	None	10384	357	118	49999689	50001508	1	None	S11
19	RPS11	ENSG00000142534	ENST00000594493	protein_coding	PUTATIVE	None	10384	240	79	49999691	50002946	1	None	S11
19	RPS11	ENSG00000142534	ENST00000601216	retained_intron	KNOWN	None	10384	None	None	49999693	50001337	1	None	S11
19	RPS11	ENSG00000142534	ENST00000599561	protein_coding	PUTATIVE	None	10384	267	88	49999711	50002946	1	None	S11
19	RPS11	ENSG00000142534	ENST00000601306	nonsense_mediated_decay	KNOWN	None	10384	249	82	49999723	50002945	1	None	S11
1	TRIT1	ENSG00000043514	ENST00000441669	protein_coding	KNOWN	None	20286	1158	385	40306723	40349163	-1	None	FLJ20061, IPT
1	TRIT1	ENSG00000043514	ENST00000462797	nonsense_mediated_decay	KNOWN	None	20286	1050	349	40306723	40349176	-1	None	FLJ20061, IPT
1	TRIT1	ENSG00000043514	ENST00000316891	protein_coding	KNOWN	CCDS30681	20286	1404	467	40306723	40349178	-1	None	FLJ20061, IPT
1	TRIT1	ENSG00000043514	ENST00000372818	protein_coding	KNOWN	None	20286	1326	441	40306723	40349178	-1	None	FLJ20061, IPT
1	TRIT1	ENSG00000043514	ENST00000495175	nonsense_mediated_decay	KNOWN	None	20286	192	63	40307298	40349183	-1	None	FLJ20061, IPT
1	TRIT1	ENSG00000043514	ENST00000491865	processed_transcript	KNOWN	None	20286	None	None	40307317	40349152	-1	None	FLJ20061, IPT
1	TRIT1	ENSG00000043514	ENST00000465417	processed_transcript	KNOWN	None	20286	None	None	40307505	40313769	-1	None	FLJ20061, IPT
1	TRIT1	ENSG00000043514	ENST00000492612	nonsense_mediated_decay	KNOWN	None	20286	422	139	40309868	40349153	-1	None	FLJ20061, IPT
1	TRIT1	ENSG00000043514	ENST00000467774	retained_intron	KNOWN	None	20286	None	None	40312716	40313429	-1	None	FLJ20061, IPT
1	TRIT1	ENSG00000043514	ENST00000489945	nonsense_mediated_decay	KNOWN	None	20286	432	143	40312892	40349168	-1	None	FLJ20061, IPT
1	TRIT1	ENSG00000043514	ENST00000486825	nonsense_mediated_decay	KNOWN	None	20286	245	80	40312953	40349147	-1	None	FLJ20061, IPT
1	TRIT1	ENSG00000043514	ENST00000469476	nonsense_mediated_decay	KNOWN	None	20286	513	170	40313266	40323071	-1	None	FLJ20061, IPT
1	TRIT1	ENSG00000043514	ENST00000462243	retained_intron	KNOWN	None	20286	None	None	40318230	40323080	-1	None	FLJ20061, IPT
1	TRIT1	ENSG00000043514	ENST00000545233	protein_coding	KNOWN	None	20286	666	221	40307386	40349106	-1	None	FLJ20061, IPT
1	TRIT1	ENSG00000043514	ENST00000537440	protein_coding	KNOWN	None	20286	492	163	40307386	40349106	-1	None	FLJ20061, IPT
1	TRIT1	ENSG00000043514	ENST00000537223	protein_coding	KNOWN	None	20286	492	163	40307386	40349106	-1	None	FLJ20061, IPT
1	TRIT1	ENSG00000043514	ENST00000541099	protein_coding	KNOWN	None	20286	258	85	40307386	40349106	-1	None	FLJ20061, IPT
1	TRIT1	ENSG00000043514	ENST00000544981	protein_coding	KNOWN	None	20286	435	144	40317175	40349176	-1	None	FLJ20061, IPT
6	DCDC2	ENSG00000146038	ENST00000378450	protein_coding	KNOWN	None	18141	690	229	24171984	24205531	-1	None	RU2, KIAA1154, DCDC2A
6	DCDC2	ENSG00000146038	ENST00000378454	protein_coding	KNOWN	CCDS4550	18141	1431	476	24171984	24358280	-1	None	RU2, KIAA1154, DCDC2A
6	DCDC2	ENSG00000146038	ENST00000436313	protein_coding	KNOWN	None	18141	266	87	24353460	24357881	-1	None	RU2, KIAA1154, DCDC2A
6	C6orf15	ENSG00000204542	ENST00000259870	protein_coding	KNOWN	CCDS4693	13927	978	325	31079000	31080336	-1	None	STG
19	ERVV-1	ENSG00000269526	ENST00000602168	protein_coding	KNOWN	CCDS59419	26501	1434	477	53517174	53519375	1	None	FLJ32214, HERV-V1, ENVV1
1	PIK3C2B	ENSG00000133056	ENST00000367187	protein_coding	KNOWN	CCDS1446	8972	4905	1634	204391756	204459552	-1	None	C2-PI3K, PI3K-C2beta
1	PIK3C2B	ENSG00000133056	ENST00000462752	processed_transcript	KNOWN	None	8972	None	None	204400468	204401399	-1	None	C2-PI3K, PI3K-C2beta
1	PIK3C2B	ENSG00000133056	ENST00000479079	processed_transcript	KNOWN	None	8972	None	None	204418304	204419258	-1	None	C2-PI3K, PI3K-C2beta
1	PIK3C2B	ENSG00000133056	ENST00000496872	processed_transcript	KNOWN	None	8972	None	None	204423705	204425419	-1	None	C2-PI3K, PI3K-C2beta
1	PIK3C2B	ENSG00000133056	ENST00000367184	protein_coding	KNOWN	None	8972	521	172	204433580	204436474	-1	None	C2-PI3K, PI3K-C2beta
1	PIK3C2B	ENSG00000133056	ENST00000415899	protein_coding	KNOWN	None	8972	393	130	204438538	204463852	-1	None	C2-PI3K, PI3K-C2beta
1	PIK3C2B	ENSG00000133056	ENST00000429009	protein_coding	KNOWN	None	8972	181	59	204438750	204463829	-1	None	C2-PI3K, PI3K-C2beta
1	PIK3C2B	ENSG00000133056	ENST00000424712	protein_coding	KNOWN	None	8972	4821	1606	204391934	204459446	-1	None	C2-PI3K, PI3K-C2beta
5	ALDH7A1	ENSG00000164904	ENST00000409134	protein_coding	KNOWN	CCDS4137	877	1620	539	125877533	125931110	-1	ATQ1	EPD, PDE
5	ALDH7A1	ENSG00000164904	ENST00000553117	protein_coding	NOVEL	None	877	1428	475	125880288	125931028	-1	ATQ1	EPD, PDE
5	ALDH7A1	ENSG00000164904	ENST00000485852	retained_intron	KNOWN	None	877	None	None	125880431	125885856	-1	ATQ1	EPD, PDE
5	ALDH7A1	ENSG00000164904	ENST00000497231	retained_intron	KNOWN	None	877	None	None	125880449	125897897	-1	ATQ1	EPD, PDE
5	ALDH7A1	ENSG00000164904	ENST00000476328	retained_intron	KNOWN	None	877	None	None	125885584	125887794	-1	ATQ1	EPD, PDE
5	ALDH7A1	ENSG00000164904	ENST00000503281	processed_transcript	KNOWN	None	877	None	None	125887713	125930804	-1	ATQ1	EPD, PDE
5	ALDH7A1	ENSG00000164904	ENST00000509459	processed_transcript	KNOWN	None	877	None	None	125891699	125930763	-1	ATQ1	EPD, PDE
5	ALDH7A1	ENSG00000164904	ENST00000433026	processed_transcript	KNOWN	None	877	None	None	125900068	125915782	-1	ATQ1	EPD, PDE
5	ALDH7A1	ENSG00000164904	ENST00000413020	processed_transcript	KNOWN	None	877	None	None	125900206	125930910	-1	ATQ1	EPD, PDE
5	ALDH7A1	ENSG00000164904	ENST00000458249	nonsense_mediated_decay	KNOWN	None	877	294	97	125903951	125930890	-1	ATQ1	EPD, PDE
5	ALDH7A1	ENSG00000164904	ENST00000510111	protein_coding	PUTATIVE	None	877	719	238	125904016	125930884	-1	ATQ1	EPD, PDE
5	ALDH7A1	ENSG00000164904	ENST00000511266	processed_transcript	KNOWN	None	877	None	None	125911129	125930845	-1	ATQ1	EPD, PDE
5	ALDH7A1	ENSG00000164904	ENST00000509270	protein_coding	PUTATIVE	None	877	425	140	125912876	125930911	-1	ATQ1	EPD, PDE
5	ALDH7A1	ENSG00000164904	ENST00000479989	processed_transcript	KNOWN	None	877	None	None	125919624	125930131	-1	ATQ1	EPD, PDE
5	ALDH7A1	ENSG00000164904	ENST00000412186	nonsense_mediated_decay	KNOWN	None	877	234	77	125919638	125931054	-1	ATQ1	EPD, PDE
5	ALDH7A1	ENSG00000164904	ENST00000447989	protein_coding	KNOWN	CCDS56380	877	1509	502	125880288	125931028	-1	ATQ1	EPD, PDE
19	ERVV-2	ENSG00000268964	ENST00000601417	protein_coding	KNOWN	CCDS59420	39051	1608	535	53547991	53554329	1	None	None
6	TREML1	ENSG00000161911	ENST00000373127	protein_coding	KNOWN	None	20434	600	199	41117080	41122075	-1	None	TLT1, dJ238O23.3
6	TREML1	ENSG00000161911	ENST00000426005	protein_coding	KNOWN	CCDS4851	20434	936	311	41117341	41122070	-1	None	TLT1, dJ238O23.3
6	TREML1	ENSG00000161911	ENST00000437044	protein_coding	KNOWN	None	20434	603	200	41117342	41122070	-1	None	TLT1, dJ238O23.3
6	TREML1	ENSG00000161911	ENST00000590581	retained_intron	KNOWN	None	20434	None	None	41117542	41119358	-1	None	TLT1, dJ238O23.3
6	PSORS1C1	ENSG00000204540	ENST00000467107	processed_transcript	KNOWN	None	17202	None	None	31082527	31086597	1	C6orf16	SEEK1
6	PSORS1C1	ENSG00000204540	ENST00000548049	processed_transcript	KNOWN	None	17202	None	None	31082550	31101471	1	C6orf16	SEEK1
6	PSORS1C1	ENSG00000204540	ENST00000493289	processed_transcript	PUTATIVE	None	17202	None	None	31082602	31085076	1	C6orf16	SEEK1
6	PSORS1C1	ENSG00000204540	ENST00000479581	processed_transcript	KNOWN	None	17202	None	None	31082608	31107815	1	C6orf16	SEEK1
6	PSORS1C1	ENSG00000204540	ENST00000259881	protein_coding	KNOWN	CCDS34390	17202	459	152	31082608	31107869	1	C6orf16	SEEK1
6	PSORS1C1	ENSG00000204540	ENST00000550838	retained_intron	KNOWN	None	17202	None	None	31082611	31106508	1	C6orf16	SEEK1
6	PSORS1C1	ENSG00000204540	ENST00000552747	retained_intron	KNOWN	None	17202	None	None	31082616	31107219	1	C6orf16	SEEK1
6	PSORS1C1	ENSG00000204540	ENST00000547221	protein_coding	PUTATIVE	None	17202	315	104	31105426	31107814	1	C6orf16	SEEK1
6	PSORS1C1	ENSG00000204540	ENST00000481450	protein_coding	PUTATIVE	None	17202	270	89	31106134	31107815	1	C6orf16	SEEK1
2	WDPCP	ENSG00000143951	ENST00000409354	nonsense_mediated_decay	KNOWN	None	28027	1209	402	63348518	63661064	-1	C2orf86	hFrtz, fritz, BBS15
2	WDPCP	ENSG00000143951	ENST00000272321	protein_coding	KNOWN	CCDS42688	28027	2241	746	63348518	63815933	-1	C2orf86	hFrtz, fritz, BBS15
2	WDPCP	ENSG00000143951	ENST00000409199	protein_coding	PUTATIVE	None	28027	1665	554	63348537	63705068	-1	C2orf86	hFrtz, fritz, BBS15
2	WDPCP	ENSG00000143951	ENST00000487280	retained_intron	KNOWN	None	28027	None	None	63348869	63380249	-1	C2orf86	hFrtz, fritz, BBS15
2	WDPCP	ENSG00000143951	ENST00000409120	protein_coding	PUTATIVE	None	28027	1665	554	63348949	63670364	-1	C2orf86	hFrtz, fritz, BBS15
2	WDPCP	ENSG00000143951	ENST00000398544	protein_coding	PUTATIVE	None	28027	1764	587	63348966	63665141	-1	C2orf86	hFrtz, fritz, BBS15
2	WDPCP	ENSG00000143951	ENST00000409562	protein_coding	PUTATIVE	None	28027	1857	618	63455523	63815652	-1	C2orf86	hFrtz, fritz, BBS15
2	WDPCP	ENSG00000143951	ENST00000409835	processed_transcript	KNOWN	None	28027	None	None	63586930	63815652	-1	C2orf86	hFrtz, fritz, BBS15
2	WDPCP	ENSG00000143951	ENST00000417238	nonsense_mediated_decay	KNOWN	None	28027	141	46	63595958	63815652	-1	C2orf86	hFrtz, fritz, BBS15
2	WDPCP	ENSG00000143951	ENST00000462652	retained_intron	KNOWN	None	28027	None	None	63604984	63609209	-1	C2orf86	hFrtz, fritz, BBS15
2	WDPCP	ENSG00000143951	ENST00000493315	retained_intron	KNOWN	None	28027	None	None	63630844	63711823	-1	C2orf86	hFrtz, fritz, BBS15
2	WDPCP	ENSG00000143951	ENST00000473678	protein_coding	PUTATIVE	None	28027	25	7	63664587	63668177	-1	C2orf86	hFrtz, fritz, BBS15
2	WDPCP	ENSG00000143951	ENST00000418148	nonsense_mediated_decay	KNOWN	None	28027	397	131	63664591	63815400	-1	C2orf86	hFrtz, fritz, BBS15
2	WDPCP	ENSG00000143951	ENST00000490935	processed_transcript	KNOWN	None	28027	None	None	63711738	64054977	-1	C2orf86	hFrtz, fritz, BBS15
2	WDPCP	ENSG00000143951	ENST00000431065	protein_coding	NOVEL	None	28027	254	83	63712076	63815933	-1	C2orf86	hFrtz, fritz, BBS15
2	WDPCP	ENSG00000143951	ENST00000467687	processed_transcript	KNOWN	None	28027	None	None	63714606	64054977	-1	C2orf86	hFrtz, fritz, BBS15
2	WDPCP	ENSG00000143951	ENST00000484073	processed_transcript	KNOWN	None	28027	None	None	63791309	63815634	-1	C2orf86	hFrtz, fritz, BBS15
HSCHR6_MHC_COX	None	ENSG00000257972	ENST00000548510	protein_coding	NOVEL	None	None	279	92	30964485	30993378	-1	None	None
HSCHR6_MHC_COX	None	ENSG00000257147	ENST00000552708	protein_coding	NOVEL	None	None	96	31	31028109	31031915	1	None	None
11	KRTAP5-8	ENSG00000241233	ENST00000398534	protein_coding	KNOWN	CCDS41683	23603	564	187	71249071	71250253	1	None	KRTAP5.8, UHSKerB, KRTAP5-2
11	MTRNR2L8	ENSG00000255823	ENST00000536684	protein_coding	KNOWN	CCDS53602	37165	75	24	10529434	10530723	-1	None	None
X	CRLF2	ENSG00000205755	ENST00000400841	protein_coding	KNOWN	None	14281	767	254	1314894	1331530	-1	None	CRL2, TSLPR
X	CRLF2	ENSG00000205755	ENST00000467626	processed_transcript	KNOWN	None	14281	None	None	1314894	1331616	-1	None	CRL2, TSLPR
X	CRLF2	ENSG00000205755	ENST00000381567	protein_coding	KNOWN	None	14281	771	256	1314890	1331527	-1	None	CRL2, TSLPR
X	CRLF2	ENSG00000205755	ENST00000381566	protein_coding	KNOWN	None	14281	702	233	1317790	1331527	-1	None	CRL2, TSLPR
10	ITGB1	ENSG00000150093	ENST00000302278	protein_coding	KNOWN	CCDS7174	6153	2397	798	33189320	33247137	-1	FNRB, MSK12, MDF2	CD29, GPIIA
10	ITGB1	ENSG00000150093	ENST00000488427	protein_coding	PUTATIVE	None	6153	211	69	33189920	33197431	-1	FNRB, MSK12, MDF2	CD29, GPIIA
10	ITGB1	ENSG00000150093	ENST00000494395	nonsense_mediated_decay	KNOWN	None	6153	325	107	33190492	33200992	-1	FNRB, MSK12, MDF2	CD29, GPIIA
10	ITGB1	ENSG00000150093	ENST00000484088	processed_transcript	KNOWN	None	6153	None	None	33214889	33247146	-1	FNRB, MSK12, MDF2	CD29, GPIIA
10	ITGB1	ENSG00000150093	ENST00000480226	protein_coding	KNOWN	None	6153	491	162	33217078	33244591	-1	FNRB, MSK12, MDF2	CD29, GPIIA
10	ITGB1	ENSG00000150093	ENST00000474568	protein_coding	PUTATIVE	None	6153	296	97	33217102	33247160	-1	FNRB, MSK12, MDF2	CD29, GPIIA
10	ITGB1	ENSG00000150093	ENST00000488494	protein_coding	NOVEL	None	6153	457	151	33217121	33247155	-1	FNRB, MSK12, MDF2	CD29, GPIIA
10	ITGB1	ENSG00000150093	ENST00000534049	protein_coding	KNOWN	None	6153	429	142	33217140	33281391	-1	FNRB, MSK12, MDF2	CD29, GPIIA
10	ITGB1	ENSG00000150093	ENST00000437302	protein_coding	KNOWN	None	6153	409	135	33217160	33246722	-1	FNRB, MSK12, MDF2	CD29, GPIIA
10	ITGB1	ENSG00000150093	ENST00000475184	protein_coding	KNOWN	None	6153	374	123	33218752	33294720	-1	FNRB, MSK12, MDF2	CD29, GPIIA
10	ITGB1	ENSG00000150093	ENST00000528877	protein_coding	KNOWN	None	6153	313	103	33218813	33252211	-1	FNRB, MSK12, MDF2	CD29, GPIIA
10	ITGB1	ENSG00000150093	ENST00000417122	protein_coding	KNOWN	None	6153	269	88	33218857	33247155	-1	FNRB, MSK12, MDF2	CD29, GPIIA
10	ITGB1	ENSG00000150093	ENST00000464001	retained_intron	KNOWN	None	6153	None	None	33218860	33221645	-1	FNRB, MSK12, MDF2	CD29, GPIIA
10	ITGB1	ENSG00000150093	ENST00000493758	protein_coding	PUTATIVE	None	6153	93	30	33218862	33224486	-1	FNRB, MSK12, MDF2	CD29, GPIIA
10	ITGB1	ENSG00000150093	ENST00000472147	protein_coding	PUTATIVE	None	6153	42	13	33218913	33225179	-1	FNRB, MSK12, MDF2	CD29, GPIIA
10	ITGB1	ENSG00000150093	ENST00000414670	protein_coding	KNOWN	None	6153	147	48	33221449	33247124	-1	FNRB, MSK12, MDF2	CD29, GPIIA
10	ITGB1	ENSG00000150093	ENST00000439974	retained_intron	KNOWN	None	6153	None	None	33247414	33249431	-1	FNRB, MSK12, MDF2	CD29, GPIIA
10	ITGB1	ENSG00000150093	ENST00000396033	protein_coding	KNOWN	CCDS7174	6153	2397	798	33189247	33246822	-1	FNRB, MSK12, MDF2	CD29, GPIIA
10	ITGB1	ENSG00000150093	ENST00000374956	protein_coding	KNOWN	None	6153	2478	825	33189328	33247147	-1	FNRB, MSK12, MDF2	CD29, GPIIA
10	ITGB1	ENSG00000150093	ENST00000423113	protein_coding	KNOWN	None	6153	2406	801	33189247	33224486	-1	FNRB, MSK12, MDF2	CD29, GPIIA
5	None	ENSG00000249830	ENST00000512521	lincRNA	KNOWN	None	None	None	None	3452930	3461774	1	None	None
5	None	ENSG00000250716	ENST00000508823	lincRNA	KNOWN	None	None	None	None	3496343	3504118	-1	None	None
3	PTPLB	ENSG00000206527	ENST00000471236	processed_transcript	PUTATIVE	None	9640	None	None	123209667	123213677	-1	None	None
3	PTPLB	ENSG00000206527	ENST00000383657	protein_coding	KNOWN	CCDS46895	9640	765	254	123210401	123304032	-1	None	None
3	PTPLB	ENSG00000206527	ENST00000493515	protein_coding	PUTATIVE	None	9640	184	60	123218138	123219540	-1	None	None
3	PTPLB	ENSG00000206527	ENST00000480081	retained_intron	KNOWN	None	9640	None	None	123218430	123221753	-1	None	None
3	PTPLB	ENSG00000206527	ENST00000469317	protein_coding	PUTATIVE	None	9640	296	97	123219415	123303402	-1	None	None
11	RNF141	ENSG00000110315	ENST00000265981	protein_coding	KNOWN	CCDS7803	21159	693	230	10533225	10562764	-1	None	ZFP26, ZNF230
11	RNF141	ENSG00000110315	ENST00000534281	retained_intron	KNOWN	None	21159	None	None	10533470	10539287	-1	None	ZFP26, ZNF230
11	RNF141	ENSG00000110315	ENST00000528665	protein_coding	PUTATIVE	None	21159	546	181	10539865	10562737	-1	None	ZFP26, ZNF230
11	RNF141	ENSG00000110315	ENST00000533412	protein_coding	KNOWN	None	21159	542	179	10540581	10562453	-1	None	ZFP26, ZNF230
11	RNF141	ENSG00000110315	ENST00000530156	nonsense_mediated_decay	KNOWN	None	21159	159	52	10546739	10562777	-1	None	ZFP26, ZNF230
17	SPATA20	ENSG00000006282	ENST00000504334	nonsense_mediated_decay	KNOWN	None	26125	132	43	48620419	48633211	1	None	FLJ21347, SSP411, Tisp78
17	SPATA20	ENSG00000006282	ENST00000006658	protein_coding	KNOWN	CCDS11571	26125	2409	802	48624450	48633213	1	None	FLJ21347, SSP411, Tisp78
17	SPATA20	ENSG00000006282	ENST00000356488	protein_coding	KNOWN	CCDS58563	26125	2361	786	48624487	48633213	1	None	FLJ21347, SSP411, Tisp78
17	SPATA20	ENSG00000006282	ENST00000503127	nonsense_mediated_decay	KNOWN	None	26125	132	43	48624488	48633211	1	None	FLJ21347, SSP411, Tisp78
17	SPATA20	ENSG00000006282	ENST00000505085	nonsense_mediated_decay	KNOWN	None	26125	204	67	48624490	48625979	1	None	FLJ21347, SSP411, Tisp78
17	SPATA20	ENSG00000006282	ENST00000502911	nonsense_mediated_decay	KNOWN	None	26125	171	56	48624514	48626690	1	None	FLJ21347, SSP411, Tisp78
17	SPATA20	ENSG00000006282	ENST00000510917	nonsense_mediated_decay	KNOWN	None	26125	132	43	48624522	48626224	1	None	FLJ21347, SSP411, Tisp78
17	SPATA20	ENSG00000006282	ENST00000511605	retained_intron	KNOWN	None	26125	None	None	48624541	48625533	1	None	FLJ21347, SSP411, Tisp78
17	SPATA20	ENSG00000006282	ENST00000505456	nonsense_mediated_decay	KNOWN	None	26125	132	43	48624545	48626665	1	None	FLJ21347, SSP411, Tisp78
17	SPATA20	ENSG00000006282	ENST00000508598	retained_intron	KNOWN	None	26125	None	None	48624566	48625942	1	None	FLJ21347, SSP411, Tisp78
17	SPATA20	ENSG00000006282	ENST00000505559	nonsense_mediated_decay	KNOWN	None	26125	132	43	48624566	48628252	1	None	FLJ21347, SSP411, Tisp78
17	SPATA20	ENSG00000006282	ENST00000515526	retained_intron	KNOWN	None	26125	None	None	48624570	48626064	1	None	FLJ21347, SSP411, Tisp78
17	SPATA20	ENSG00000006282	ENST00000511845	retained_intron	KNOWN	None	26125	None	None	48624570	48626263	1	None	FLJ21347, SSP411, Tisp78
17	SPATA20	ENSG00000006282	ENST00000511937	processed_transcript	KNOWN	None	26125	None	None	48625360	48633213	1	None	FLJ21347, SSP411, Tisp78
17	SPATA20	ENSG00000006282	ENST00000503063	retained_intron	KNOWN	None	26125	None	None	48625374	48633213	1	None	FLJ21347, SSP411, Tisp78
17	SPATA20	ENSG00000006282	ENST00000512181	retained_intron	KNOWN	None	26125	None	None	48625380	48628163	1	None	FLJ21347, SSP411, Tisp78
17	SPATA20	ENSG00000006282	ENST00000505336	retained_intron	KNOWN	None	26125	None	None	48625421	48626175	1	None	FLJ21347, SSP411, Tisp78
17	SPATA20	ENSG00000006282	ENST00000512416	retained_intron	KNOWN	None	26125	None	None	48625437	48626770	1	None	FLJ21347, SSP411, Tisp78
17	SPATA20	ENSG00000006282	ENST00000511347	nonsense_mediated_decay	KNOWN	None	26125	742	246	48626211	48628433	1	None	FLJ21347, SSP411, Tisp78
17	SPATA20	ENSG00000006282	ENST00000505656	retained_intron	KNOWN	None	26125	None	None	48626244	48628212	1	None	FLJ21347, SSP411, Tisp78
17	SPATA20	ENSG00000006282	ENST00000504265	retained_intron	KNOWN	None	26125	None	None	48627469	48628745	1	None	FLJ21347, SSP411, Tisp78
17	SPATA20	ENSG00000006282	ENST00000515619	retained_intron	KNOWN	None	26125	None	None	48627573	48629030	1	None	FLJ21347, SSP411, Tisp78
17	SPATA20	ENSG00000006282	ENST00000508528	nonsense_mediated_decay	KNOWN	None	26125	332	109	48627633	48629346	1	None	FLJ21347, SSP411, Tisp78
17	SPATA20	ENSG00000006282	ENST00000513618	retained_intron	KNOWN	None	26125	None	None	48627761	48628469	1	None	FLJ21347, SSP411, Tisp78
17	SPATA20	ENSG00000006282	ENST00000504271	retained_intron	KNOWN	None	26125	None	None	48628095	48629300	1	None	FLJ21347, SSP411, Tisp78
17	SPATA20	ENSG00000006282	ENST00000393244	protein_coding	KNOWN	CCDS58564	26125	2229	742	48624520	48633211	1	None	FLJ21347, SSP411, Tisp78
3	None	ENSG00000255154	ENST00000528153	protein_coding	NOVEL	None	None	507	168	58303341	58303847	1	None	None
3	None	ENSG00000255154	ENST00000544156	protein_coding	KNOWN	None	None	507	168	58291974	58305920	1	None	None
5	None	ENSG00000259603	ENST00000559410	antisense	KNOWN	None	None	None	None	3596325	3600302	-1	None	None
4	SH3RF1	ENSG00000154447	ENST00000284637	protein_coding	KNOWN	CCDS34099	17650	2667	888	170015407	170192256	-1	SH3MD2	POSH, RNF142, KIAA1494
4	SH3RF1	ENSG00000154447	ENST00000511421	nonsense_mediated_decay	KNOWN	None	17650	911	302	170037420	170077808	-1	SH3MD2	POSH, RNF142, KIAA1494
4	SH3RF1	ENSG00000154447	ENST00000508685	processed_transcript	KNOWN	None	17650	None	None	170037420	170190244	-1	SH3MD2	POSH, RNF142, KIAA1494
4	SH3RF1	ENSG00000154447	ENST00000502315	protein_coding	KNOWN	None	17650	299	98	170190065	170192000	-1	SH3MD2	POSH, RNF142, KIAA1494
4	SH3RF1	ENSG00000154447	ENST00000510806	protein_coding	KNOWN	None	17650	237	78	170190127	170191108	-1	SH3MD2	POSH, RNF142, KIAA1494
8	KIAA1429	ENSG00000164944	ENST00000297591	protein_coding	KNOWN	CCDS34923	24500	5439	1812	95499921	95565751	-1	None	DKFZP434I116, fSAP121
8	KIAA1429	ENSG00000164944	ENST00000521080	retained_intron	KNOWN	None	24500	None	None	95500748	95524683	-1	None	DKFZP434I116, fSAP121
8	KIAA1429	ENSG00000164944	ENST00000522263	nonsense_mediated_decay	KNOWN	None	24500	2193	730	95500748	95538530	-1	None	DKFZP434I116, fSAP121
8	KIAA1429	ENSG00000164944	ENST00000522196	retained_intron	KNOWN	None	24500	None	None	95500749	95502400	-1	None	DKFZP434I116, fSAP121
8	KIAA1429	ENSG00000164944	ENST00000517624	nonsense_mediated_decay	KNOWN	None	24500	183	60	95500843	95504986	-1	None	DKFZP434I116, fSAP121
8	KIAA1429	ENSG00000164944	ENST00000523263	nonsense_mediated_decay	KNOWN	None	24500	274	90	95503966	95508664	-1	None	DKFZP434I116, fSAP121
8	KIAA1429	ENSG00000164944	ENST00000523405	processed_transcript	PUTATIVE	None	24500	None	None	95521985	95523790	-1	None	DKFZP434I116, fSAP121
8	KIAA1429	ENSG00000164944	ENST00000421249	protein_coding	KNOWN	CCDS47894	24500	3444	1147	95522961	95565757	-1	None	DKFZP434I116, fSAP121
8	KIAA1429	ENSG00000164944	ENST00000519001	processed_transcript	KNOWN	None	24500	None	None	95541445	95556129	-1	None	DKFZP434I116, fSAP121
8	KIAA1429	ENSG00000164944	ENST00000437199	protein_coding	KNOWN	None	24500	4134	1377	95500600	95565688	-1	None	DKFZP434I116, fSAP121
1	HFE2	ENSG00000168509	ENST00000357836	protein_coding	KNOWN	CCDS911	4887	942	313	145413095	145417543	1	None	JH, HFE2A, RGMC, HJV, hemojuvelin, haemojuvelin
1	HFE2	ENSG00000168509	ENST00000421822	protein_coding	KNOWN	None	4887	280	92	145413278	145415461	1	None	JH, HFE2A, RGMC, HJV, hemojuvelin, haemojuvelin
1	HFE2	ENSG00000168509	ENST00000336751	protein_coding	KNOWN	CCDS910	4887	1281	426	145413278	145417545	1	None	JH, HFE2A, RGMC, HJV, hemojuvelin, haemojuvelin
1	HFE2	ENSG00000168509	ENST00000497365	protein_coding	KNOWN	CCDS912	4887	603	200	145413278	145417545	1	None	JH, HFE2A, RGMC, HJV, hemojuvelin, haemojuvelin
1	HFE2	ENSG00000168509	ENST00000475797	protein_coding	KNOWN	CCDS912	4887	603	200	145413279	145417545	1	None	JH, HFE2A, RGMC, HJV, hemojuvelin, haemojuvelin
17	SLC35G3	ENSG00000164729	ENST00000297307	protein_coding	KNOWN	CCDS11293	26848	1017	338	33519539	33521412	-1	TMEM21A, AMAC1	FLJ40154
19	OR10H2	ENSG00000171942	ENST00000305899	protein_coding	KNOWN	CCDS12333	8173	948	315	15838834	15839862	1	None	None
19	ZNF160	ENSG00000170949	ENST00000599056	protein_coding	KNOWN	CCDS12859	12948	2457	818	53569859	53606604	-1	None	HZF5, F11, KR18, HKr18, FLJ00032, KIAA1611
19	ZNF160	ENSG00000170949	ENST00000601421	protein_coding	PUTATIVE	None	12948	2349	782	53569868	53579220	-1	None	HZF5, F11, KR18, HKr18, FLJ00032, KIAA1611
19	ZNF160	ENSG00000170949	ENST00000599247	protein_coding	KNOWN	None	12948	1668	555	53572119	53606646	-1	None	HZF5, F11, KR18, HKr18, FLJ00032, KIAA1611
19	ZNF160	ENSG00000170949	ENST00000601982	protein_coding	PUTATIVE	None	12948	353	116	53573326	53588637	-1	None	HZF5, F11, KR18, HKr18, FLJ00032, KIAA1611
19	ZNF160	ENSG00000170949	ENST00000355147	protein_coding	PUTATIVE	None	12948	444	147	53576139	53606656	-1	None	HZF5, F11, KR18, HKr18, FLJ00032, KIAA1611
19	ZNF160	ENSG00000170949	ENST00000599637	protein_coding	KNOWN	None	12948	40	12	53578412	53606689	-1	None	HZF5, F11, KR18, HKr18, FLJ00032, KIAA1611
19	ZNF160	ENSG00000170949	ENST00000599729	processed_transcript	KNOWN	None	12948	None	None	53580166	53588648	-1	None	HZF5, F11, KR18, HKr18, FLJ00032, KIAA1611
19	ZNF160	ENSG00000170949	ENST00000597112	retained_intron	KNOWN	None	12948	None	None	53588207	53606676	-1	None	HZF5, F11, KR18, HKr18, FLJ00032, KIAA1611
19	ZNF160	ENSG00000170949	ENST00000602095	processed_transcript	KNOWN	None	12948	None	None	53588414	53606631	-1	None	HZF5, F11, KR18, HKr18, FLJ00032, KIAA1611
19	ZNF160	ENSG00000170949	ENST00000596966	processed_transcript	KNOWN	None	12948	None	None	53589193	53606669	-1	None	HZF5, F11, KR18, HKr18, FLJ00032, KIAA1611
19	ZNF160	ENSG00000170949	ENST00000594760	processed_transcript	KNOWN	None	12948	None	None	53589310	53606666	-1	None	HZF5, F11, KR18, HKr18, FLJ00032, KIAA1611
19	ZNF160	ENSG00000170949	ENST00000600924	retained_intron	KNOWN	None	12948	None	None	53589385	53606675	-1	None	HZF5, F11, KR18, HKr18, FLJ00032, KIAA1611
19	ZNF160	ENSG00000170949	ENST00000599980	retained_intron	KNOWN	None	12948	None	None	53594287	53606580	-1	None	HZF5, F11, KR18, HKr18, FLJ00032, KIAA1611
19	ZNF160	ENSG00000170949	ENST00000596388	processed_transcript	KNOWN	None	12948	None	None	53598613	53606661	-1	None	HZF5, F11, KR18, HKr18, FLJ00032, KIAA1611
19	ZNF160	ENSG00000170949	ENST00000429604	protein_coding	KNOWN	CCDS12859	12948	2457	818	53569867	53606687	-1	None	HZF5, F11, KR18, HKr18, FLJ00032, KIAA1611
19	ZNF160	ENSG00000170949	ENST00000418871	protein_coding	KNOWN	CCDS12859	12948	2457	818	53569867	53606687	-1	None	HZF5, F11, KR18, HKr18, FLJ00032, KIAA1611
11	KRTAP5-9	ENSG00000254997	ENST00000528743	protein_coding	KNOWN	CCDS53677	23604	510	169	71259466	71260653	1	KRN1	KRTAP5.9, KRTAP5-1
14	KIAA0391	ENSG00000100890	ENST00000603611	protein_coding	KNOWN	None	19958	102	33	35591052	35592553	1	None	MRPP3, PRORP
14	KIAA0391	ENSG00000100890	ENST00000603588	processed_transcript	PUTATIVE	None	19958	None	None	35591052	35596817	1	None	MRPP3, PRORP
14	KIAA0391	ENSG00000100890	ENST00000604073	protein_coding	KNOWN	None	19958	59	18	35591509	35592510	1	None	MRPP3, PRORP
14	KIAA0391	ENSG00000100890	ENST00000604948	protein_coding	KNOWN	CCDS58313	19958	1467	488	35591753	35742896	1	None	MRPP3, PRORP
14	KIAA0391	ENSG00000100890	ENST00000605201	protein_coding	KNOWN	None	19958	70	22	35591760	35592521	1	None	MRPP3, PRORP
14	KIAA0391	ENSG00000100890	ENST00000321130	protein_coding	KNOWN	CCDS58312	19958	1704	567	35591770	35743166	1	None	MRPP3, PRORP
14	KIAA0391	ENSG00000100890	ENST00000534898	protein_coding	KNOWN	CCDS32063	19958	1752	583	35591776	35743271	1	None	MRPP3, PRORP
14	KIAA0391	ENSG00000100890	ENST00000603544	protein_coding	KNOWN	CCDS58312	19958	1704	567	35591883	35742876	1	None	MRPP3, PRORP
14	KIAA0391	ENSG00000100890	ENST00000605870	protein_coding	KNOWN	CCDS58314	19958	636	211	35591928	35743223	1	None	MRPP3, PRORP
14	KIAA0391	ENSG00000100890	ENST00000557404	protein_coding	PUTATIVE	None	19958	555	184	35591965	35742691	1	None	MRPP3, PRORP
14	KIAA0391	ENSG00000100890	ENST00000250377	protein_coding	KNOWN	CCDS58313	19958	1467	488	35591769	35743268	1	None	MRPP3, PRORP
19	OR10H3	ENSG00000171936	ENST00000305892	protein_coding	KNOWN	CCDS12334	8174	951	316	15852203	15853153	1	None	None
6	FAM26D	ENSG00000164451	ENST00000368597	protein_coding	KNOWN	CCDS5109	21094	387	128	116850195	116880031	1	C6orf78	FLJ32239
6	FAM26D	ENSG00000164451	ENST00000452373	protein_coding	KNOWN	None	21094	370	122	116850209	116879357	1	C6orf78	FLJ32239
6	FAM26D	ENSG00000164451	ENST00000405399	protein_coding	KNOWN	CCDS59032	21094	516	171	116850209	116879738	1	C6orf78	FLJ32239
6	FAM26D	ENSG00000164451	ENST00000368596	protein_coding	KNOWN	None	21094	945	314	116874913	116879738	1	C6orf78	FLJ32239
6	FAM26D	ENSG00000164451	ENST00000416171	protein_coding	KNOWN	CCDS59031	21094	513	170	116850174	116879751	1	C6orf78	FLJ32239
19	OR10H5	ENSG00000172519	ENST00000308940	protein_coding	KNOWN	CCDS32940	15389	948	315	15904761	15905892	1	None	None
HSCHR6_MHC_SSTO	C4B	ENSG00000228454	ENST00000375177	protein_coding	KNOWN	None	1324	5235	1744	31974391	31995048	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_SSTO	C4B	ENSG00000228454	ENST00000486288	retained_intron	KNOWN	None	1324	None	None	31975210	31975926	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_SSTO	C4B	ENSG00000228454	ENST00000468773	processed_transcript	KNOWN	None	1324	None	None	31975248	31976765	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_SSTO	C4B	ENSG00000228454	ENST00000472275	retained_intron	KNOWN	None	1324	None	None	31984544	31986343	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_SSTO	C4B	ENSG00000228454	ENST00000459977	retained_intron	KNOWN	None	1324	None	None	31987476	31987987	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_SSTO	C4B	ENSG00000228454	ENST00000488817	processed_transcript	PUTATIVE	None	1324	None	None	31988322	31991203	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_SSTO	C4B	ENSG00000228454	ENST00000474672	retained_intron	KNOWN	None	1324	None	None	31990109	31992086	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_SSTO	C4B	ENSG00000228454	ENST00000464996	retained_intron	KNOWN	None	1324	None	None	31991218	31991897	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_SSTO	C4B	ENSG00000228454	ENST00000480097	retained_intron	KNOWN	None	1324	None	None	31991522	31995048	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_SSTO	C4B	ENSG00000228454	ENST00000464474	retained_intron	KNOWN	None	1324	None	None	31991567	31995048	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_SSTO	C4B	ENSG00000228454	ENST00000475562	processed_transcript	KNOWN	None	1324	None	None	31993365	31995048	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_SSTO	C4B	ENSG00000228454	ENST00000468829	retained_intron	KNOWN	None	1324	None	None	31993494	31994632	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_SSTO	C4B	ENSG00000228454	ENST00000497950	retained_intron	KNOWN	None	1324	None	None	31993627	31994235	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_SSTO	C4B	ENSG00000228454	ENST00000548301	protein_coding	KNOWN	None	1324	5097	1698	31974475	31995030	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
HSCHR6_MHC_SSTO	C4B_2	ENSG00000228454	ENST00000375177	protein_coding	KNOWN	None	42398	5235	1744	31974391	31995048	1	None	None
HSCHR6_MHC_SSTO	C4B_2	ENSG00000228454	ENST00000486288	retained_intron	KNOWN	None	42398	None	None	31975210	31975926	1	None	None
HSCHR6_MHC_SSTO	C4B_2	ENSG00000228454	ENST00000468773	processed_transcript	KNOWN	None	42398	None	None	31975248	31976765	1	None	None
HSCHR6_MHC_SSTO	C4B_2	ENSG00000228454	ENST00000472275	retained_intron	KNOWN	None	42398	None	None	31984544	31986343	1	None	None
HSCHR6_MHC_SSTO	C4B_2	ENSG00000228454	ENST00000459977	retained_intron	KNOWN	None	42398	None	None	31987476	31987987	1	None	None
HSCHR6_MHC_SSTO	C4B_2	ENSG00000228454	ENST00000488817	processed_transcript	PUTATIVE	None	42398	None	None	31988322	31991203	1	None	None
HSCHR6_MHC_SSTO	C4B_2	ENSG00000228454	ENST00000474672	retained_intron	KNOWN	None	42398	None	None	31990109	31992086	1	None	None
HSCHR6_MHC_SSTO	C4B_2	ENSG00000228454	ENST00000464996	retained_intron	KNOWN	None	42398	None	None	31991218	31991897	1	None	None
HSCHR6_MHC_SSTO	C4B_2	ENSG00000228454	ENST00000480097	retained_intron	KNOWN	None	42398	None	None	31991522	31995048	1	None	None
HSCHR6_MHC_SSTO	C4B_2	ENSG00000228454	ENST00000464474	retained_intron	KNOWN	None	42398	None	None	31991567	31995048	1	None	None
HSCHR6_MHC_SSTO	C4B_2	ENSG00000228454	ENST00000475562	processed_transcript	KNOWN	None	42398	None	None	31993365	31995048	1	None	None
HSCHR6_MHC_SSTO	C4B_2	ENSG00000228454	ENST00000468829	retained_intron	KNOWN	None	42398	None	None	31993494	31994632	1	None	None
HSCHR6_MHC_SSTO	C4B_2	ENSG00000228454	ENST00000497950	retained_intron	KNOWN	None	42398	None	None	31993627	31994235	1	None	None
HSCHR6_MHC_SSTO	C4B_2	ENSG00000228454	ENST00000548301	protein_coding	KNOWN	None	42398	5097	1698	31974475	31995030	1	None	None
5	None	ENSG00000248962	ENST00000513859	lincRNA	KNOWN	None	None	None	None	4012822	4013763	-1	None	None
5	None	ENSG00000249994	ENST00000506305	lincRNA	KNOWN	None	None	None	None	4033826	4041877	-1	None	None
6	TREM2	ENSG00000095970	ENST00000373122	protein_coding	KNOWN	None	17761	669	222	41126244	41130841	-1	None	TREM-2, Trem2a, Trem2b, Trem2c
6	TREM2	ENSG00000095970	ENST00000373113	protein_coding	KNOWN	CCDS4852	17761	693	230	41126245	41130914	-1	None	TREM-2, Trem2a, Trem2b, Trem2c
6	TREM2	ENSG00000095970	ENST00000338469	protein_coding	KNOWN	None	17761	660	219	41126245	41130924	-1	None	TREM-2, Trem2a, Trem2b, Trem2c
17	SLFN5	ENSG00000166750	ENST00000299977	protein_coding	KNOWN	CCDS32619	28286	2676	891	33570055	33600674	1	None	MGC19764
17	SLFN5	ENSG00000166750	ENST00000542451	protein_coding	PUTATIVE	None	28286	1170	389	33570090	33593379	1	None	MGC19764
17	SLFN5	ENSG00000166750	ENST00000592325	protein_coding	KNOWN	None	28286	1017	338	33570108	33586839	1	None	MGC19764
13	RASA3	ENSG00000185989	ENST00000334062	protein_coding	KNOWN	CCDS32016	20331	2505	834	114747194	114898086	-1	None	GAP1IP4BP, GAPIII
13	RASA3	ENSG00000185989	ENST00000389544	protein_coding	KNOWN	None	20331	2409	802	114748438	114843438	-1	None	GAP1IP4BP, GAPIII
13	RASA3	ENSG00000185989	ENST00000542651	protein_coding	KNOWN	None	20331	399	132	114782731	114898027	-1	None	GAP1IP4BP, GAPIII
1	TXNIP	ENSG00000117289	ENST00000369317	protein_coding	KNOWN	CCDS913	16952	1176	391	145438469	145442635	1	None	VDUP1, EST01027, HHCPA78, THIF
1	TXNIP	ENSG00000117289	ENST00000475171	processed_transcript	KNOWN	None	16952	None	None	145438511	145442592	1	None	VDUP1, EST01027, HHCPA78, THIF
1	TXNIP	ENSG00000117289	ENST00000425134	protein_coding	NOVEL	None	16952	914	303	145439306	145440992	1	None	VDUP1, EST01027, HHCPA78, THIF
1	TXNIP	ENSG00000117289	ENST00000488537	retained_intron	KNOWN	None	16952	None	None	145439815	145441548	1	None	VDUP1, EST01027, HHCPA78, THIF
1	TXNIP	ENSG00000117289	ENST00000486597	retained_intron	KNOWN	None	16952	None	None	145440853	145441490	1	None	VDUP1, EST01027, HHCPA78, THIF
9	C9orf37	ENSG00000203993	ENST00000371417	protein_coding	KNOWN	CCDS35189	23395	531	176	140509784	140513265	-1	None	None
9	C9orf37	ENSG00000203993	ENST00000496793	processed_transcript	KNOWN	None	23395	None	None	140510201	140513358	-1	None	None
9	TOR2A	ENSG00000160404	ENST00000336067	protein_coding	KNOWN	CCDS48024	11996	729	242	130493803	130497571	-1	None	FLJ14771, TORP1
9	TOR2A	ENSG00000160404	ENST00000373284	protein_coding	KNOWN	CCDS43879	11996	966	321	130493803	130497596	-1	None	FLJ14771, TORP1
9	TOR2A	ENSG00000160404	ENST00000373281	protein_coding	KNOWN	CCDS6876	11996	762	253	130493804	130497573	-1	None	FLJ14771, TORP1
9	TOR2A	ENSG00000160404	ENST00000463577	processed_transcript	KNOWN	None	11996	None	None	130493804	130497573	-1	None	FLJ14771, TORP1
9	TOR2A	ENSG00000160404	ENST00000472723	processed_transcript	KNOWN	None	11996	None	None	130493806	130497586	-1	None	FLJ14771, TORP1
9	TOR2A	ENSG00000160404	ENST00000463256	processed_transcript	KNOWN	None	11996	None	None	130494059	130497554	-1	None	FLJ14771, TORP1
9	TOR2A	ENSG00000160404	ENST00000496460	processed_transcript	KNOWN	None	11996	None	None	130494123	130497592	-1	None	FLJ14771, TORP1
9	TOR2A	ENSG00000160404	ENST00000494135	processed_transcript	KNOWN	None	11996	None	None	130494191	130495153	-1	None	FLJ14771, TORP1
9	TOR2A	ENSG00000160404	ENST00000493439	processed_transcript	KNOWN	None	11996	None	None	130494448	130497554	-1	None	FLJ14771, TORP1
9	TOR2A	ENSG00000160404	ENST00000458505	protein_coding	KNOWN	CCDS48025	11996	219	72	130493806	130497604	-1	None	FLJ14771, TORP1
11	KRTAP5-10	ENSG00000204572	ENST00000376536	protein_coding	KNOWN	None	23605	513	170	71276634	71279980	1	None	KRTAP5.10
11	KRTAP5-10	ENSG00000204572	ENST00000398531	protein_coding	KNOWN	CCDS41684	23605	609	202	71276609	71277666	1	None	KRTAP5.10
11	KRTAP5-11	ENSG00000204571	ENST00000398530	protein_coding	KNOWN	CCDS41685	23606	471	156	71292901	71293921	-1	None	KRTAP5.11, KRTAP5-6
11	KRTAP5-11	ENSG00000204571	ENST00000526239	processed_transcript	KNOWN	None	23606	None	None	71292956	71314399	-1	None	KRTAP5.11, KRTAP5-6
19	OR10H1	ENSG00000186723	ENST00000334920	protein_coding	KNOWN	CCDS12335	8172	957	318	15917817	15918936	-1	None	None
11	None	ENSG00000187811	ENST00000343767	protein_coding	KNOWN	None	None	438	145	71292956	71318487	-1	None	None
17	ARHGAP44	ENSG00000006740	ENST00000379672	protein_coding	KNOWN	CCDS45616	29096	2457	818	12692856	12894959	1	None	KIAA0672, RICH-2, RICH2
17	ARHGAP44	ENSG00000006740	ENST00000340825	protein_coding	NOVEL	None	29096	2439	812	12692856	12894960	1	None	KIAA0672, RICH-2, RICH2
17	ARHGAP44	ENSG00000006740	ENST00000580768	nonsense_mediated_decay	KNOWN	None	29096	537	178	12692857	12894959	1	None	KIAA0672, RICH-2, RICH2
17	ARHGAP44	ENSG00000006740	ENST00000262444	protein_coding	NOVEL	None	29096	2325	774	12693077	12893901	1	None	KIAA0672, RICH-2, RICH2
17	ARHGAP44	ENSG00000006740	ENST00000544416	nonsense_mediated_decay	KNOWN	None	29096	1776	591	12693077	12893901	1	None	KIAA0672, RICH-2, RICH2
17	ARHGAP44	ENSG00000006740	ENST00000578442	retained_intron	KNOWN	None	29096	None	None	12693808	12832698	1	None	KIAA0672, RICH-2, RICH2
17	ARHGAP44	ENSG00000006740	ENST00000538915	retained_intron	KNOWN	None	29096	None	None	12852998	12862362	1	None	KIAA0672, RICH-2, RICH2
17	ARHGAP44	ENSG00000006740	ENST00000583608	protein_coding	PUTATIVE	None	29096	575	190	12859081	12877627	1	None	KIAA0672, RICH-2, RICH2
17	ARHGAP44	ENSG00000006740	ENST00000578087	processed_transcript	KNOWN	None	29096	None	None	12877029	12884364	1	None	KIAA0672, RICH-2, RICH2
17	ARHGAP44	ENSG00000006740	ENST00000581437	protein_coding	PUTATIVE	None	29096	548	181	12883425	12888350	1	None	KIAA0672, RICH-2, RICH2
17	ARHGAP44	ENSG00000006740	ENST00000584974	retained_intron	KNOWN	None	29096	None	None	12887806	12892233	1	None	KIAA0672, RICH-2, RICH2
17	ARHGAP44	ENSG00000006740	ENST00000579746	processed_transcript	KNOWN	None	29096	None	None	12890339	12892428	1	None	KIAA0672, RICH-2, RICH2
11	AAMDC	ENSG00000087884	ENST00000532481	protein_coding	PUTATIVE	None	30205	267	88	77532155	77629478	1	C11orf67	PTD015, FLJ21035, CK067
11	AAMDC	ENSG00000087884	ENST00000526164	nonsense_mediated_decay	KNOWN	None	30205	282	93	77532160	77611831	1	C11orf67	PTD015, FLJ21035, CK067
11	AAMDC	ENSG00000087884	ENST00000526415	protein_coding	KNOWN	CCDS8254	30205	369	122	77532175	77583398	1	C11orf67	PTD015, FLJ21035, CK067
11	AAMDC	ENSG00000087884	ENST00000531855	processed_transcript	PUTATIVE	None	30205	None	None	77532188	77552301	1	C11orf67	PTD015, FLJ21035, CK067
11	AAMDC	ENSG00000087884	ENST00000393427	protein_coding	KNOWN	CCDS8254	30205	369	122	77532190	77583407	1	C11orf67	PTD015, FLJ21035, CK067
11	AAMDC	ENSG00000087884	ENST00000527134	protein_coding	PUTATIVE	None	30205	414	137	77532200	77611778	1	C11orf67	PTD015, FLJ21035, CK067
11	AAMDC	ENSG00000087884	ENST00000304716	protein_coding	PUTATIVE	None	30205	444	147	77532201	77611760	1	C11orf67	PTD015, FLJ21035, CK067
11	AAMDC	ENSG00000087884	ENST00000525409	protein_coding	NOVEL	None	30205	273	90	77532233	77583398	1	C11orf67	PTD015, FLJ21035, CK067
11	AAMDC	ENSG00000087884	ENST00000533193	protein_coding	NOVEL	None	30205	507	168	77552065	77583400	1	C11orf67	PTD015, FLJ21035, CK067
11	AAMDC	ENSG00000087884	ENST00000525034	protein_coding	PUTATIVE	None	30205	426	141	77552184	77583398	1	C11orf67	PTD015, FLJ21035, CK067
11	AAMDC	ENSG00000087884	ENST00000529666	nonsense_mediated_decay	KNOWN	None	30205	156	51	77587994	77611817	1	C11orf67	PTD015, FLJ21035, CK067
X	GLA	ENSG00000102393	ENST00000493905	processed_transcript	KNOWN	None	4296	None	None	100652791	100662784	-1	None	GALA
X	GLA	ENSG00000102393	ENST00000218516	protein_coding	KNOWN	CCDS14484	4296	1290	429	100652791	100662913	-1	None	GALA
X	GLA	ENSG00000102393	ENST00000466414	processed_transcript	KNOWN	None	4296	None	None	100652795	100653682	-1	None	GALA
X	GLA	ENSG00000102393	ENST00000468823	processed_transcript	KNOWN	None	4296	None	None	100653504	100655841	-1	None	GALA
X	GLA	ENSG00000102393	ENST00000480513	processed_transcript	KNOWN	None	4296	None	None	100653800	100662821	-1	None	GALA
X	GLA	ENSG00000102393	ENST00000486121	processed_transcript	KNOWN	None	4296	None	None	100653896	100662821	-1	None	GALA
X	GLA	ENSG00000102393	ENST00000479445	processed_transcript	KNOWN	None	4296	None	None	100656358	100662875	-1	None	GALA
1	MYCL	ENSG00000116990	ENST00000397332	protein_coding	PUTATIVE	CCDS53300	7555	1185	394	40361098	40367685	-1	MYCL1	LMYC, bHLHe38
1	MYCL	ENSG00000116990	ENST00000372816	protein_coding	KNOWN	CCDS30682	7555	1095	364	40362899	40367554	-1	MYCL1	LMYC, bHLHe38
1	MYCL	ENSG00000116990	ENST00000372815	protein_coding	PUTATIVE	CCDS44117	7555	711	236	40365284	40367591	-1	MYCL1	LMYC, bHLHe38
1	MYCL	ENSG00000116990	ENST00000450953	protein_coding	KNOWN	None	7555	301	99	40366806	40367928	-1	MYCL1	LMYC, bHLHe38
1	MYCL	ENSG00000116990	ENST00000429311	protein_coding	KNOWN	None	7555	621	206	40365286	40367687	-1	MYCL1	LMYC, bHLHe38
X	AMER1	ENSG00000184675	ENST00000374869	protein_coding	NOVEL	None	26837	2415	804	63404997	63425624	-1	FAM123B	RP11-403E24.2, FLJ39827, WTX
X	AMER1	ENSG00000184675	ENST00000330258	protein_coding	KNOWN	CCDS14377	26837	3408	1135	63404997	63425624	-1	FAM123B	RP11-403E24.2, FLJ39827, WTX
X	AMER1	ENSG00000184675	ENST00000403336	protein_coding	KNOWN	None	26837	2415	804	63405997	63413166	-1	FAM123B	RP11-403E24.2, FLJ39827, WTX
11	LYVE1	ENSG00000133800	ENST00000256178	protein_coding	KNOWN	CCDS7804	14687	969	322	10578513	10590238	-1	XLKD1	LYVE-1
11	LYVE1	ENSG00000133800	ENST00000438354	nonsense_mediated_decay	KNOWN	None	14687	216	71	10579910	10590265	-1	XLKD1	LYVE-1
11	LYVE1	ENSG00000133800	ENST00000529598	protein_coding	NOVEL	None	14687	657	218	10580424	10590124	-1	XLKD1	LYVE-1
11	LYVE1	ENSG00000133800	ENST00000531706	processed_transcript	KNOWN	None	14687	None	None	10581363	10633236	-1	XLKD1	LYVE-1
1	POLR3GL	ENSG00000121851	ENST00000369314	protein_coding	KNOWN	CCDS914	28466	657	218	145456236	145470387	-1	None	flj32422, MGC3200
1	POLR3GL	ENSG00000121851	ENST00000446572	retained_intron	KNOWN	None	28466	None	None	145456236	145470388	-1	None	flj32422, MGC3200
1	POLR3GL	ENSG00000121851	ENST00000369313	protein_coding	KNOWN	None	28466	588	195	145456514	145470387	-1	None	flj32422, MGC3200
1	POLR3GL	ENSG00000121851	ENST00000471706	retained_intron	KNOWN	None	28466	None	None	145456565	145470374	-1	None	flj32422, MGC3200
6	CDSN	ENSG00000204539	ENST00000376288	protein_coding	KNOWN	CCDS34389	1802	1590	529	31082867	31088223	-1	None	D6S586E
X	ASB12	ENSG00000198881	ENST00000362002	protein_coding	KNOWN	CCDS14378	19763	957	318	63444076	63450511	-1	None	FLJ39577
X	ASB12	ENSG00000198881	ENST00000396130	protein_coding	KNOWN	None	19763	930	309	63444076	63445503	-1	None	FLJ39577
1	MDM4	ENSG00000198625	ENST00000470797	processed_transcript	KNOWN	None	6974	None	None	204485511	204501778	1	None	MDMX
1	MDM4	ENSG00000198625	ENST00000367182	protein_coding	KNOWN	CCDS1447	6974	1473	490	204485511	204527248	1	None	MDMX
1	MDM4	ENSG00000198625	ENST00000463049	processed_transcript	KNOWN	None	6974	None	None	204485534	204523329	1	None	MDMX
1	MDM4	ENSG00000198625	ENST00000470908	processed_transcript	KNOWN	None	6974	None	None	204485579	204515960	1	None	MDMX
1	MDM4	ENSG00000198625	ENST00000471783	processed_transcript	KNOWN	None	6974	None	None	204485600	204513727	1	None	MDMX
1	MDM4	ENSG00000198625	ENST00000367180	protein_coding	KNOWN	None	6974	396	131	204494618	204506169	1	None	MDMX
1	MDM4	ENSG00000198625	ENST00000367179	protein_coding	KNOWN	None	6974	640	212	204506985	204518322	1	None	MDMX
1	MDM4	ENSG00000198625	ENST00000462012	processed_transcript	KNOWN	None	6974	None	None	204507003	204512059	1	None	MDMX
1	MDM4	ENSG00000198625	ENST00000444261	protein_coding	KNOWN	None	6974	513	170	204511917	204518516	1	None	MDMX
1	MDM4	ENSG00000198625	ENST00000507825	protein_coding	KNOWN	None	6974	384	127	204485534	204542871	1	None	MDMX
1	MDM4	ENSG00000198625	ENST00000454264	protein_coding	KNOWN	CCDS55674	6974	1323	440	204485614	204518905	1	None	MDMX
1	MDM4	ENSG00000198625	ENST00000367183	protein_coding	KNOWN	CCDS55675	6974	495	164	204485619	204518907	1	None	MDMX
1	MDM4	ENSG00000198625	ENST00000391947	protein_coding	KNOWN	None	6974	423	140	204494647	204518810	1	None	MDMX
20	DTD1	ENSG00000125821	ENST00000377452	protein_coding	KNOWN	CCDS13138	16219	630	209	18568537	18744561	1	C20orf88, HARS2	DUEB, MGC119131, MGC41905, bA379J5.3, bA555E18.1, pqn-68
20	DTD1	ENSG00000125821	ENST00000494921	processed_transcript	KNOWN	None	16219	None	None	18568608	18612822	1	C20orf88, HARS2	DUEB, MGC119131, MGC41905, bA379J5.3, bA555E18.1, pqn-68
6	PSORS1C2	ENSG00000204538	ENST00000259845	protein_coding	KNOWN	CCDS4694	17199	411	136	31105313	31107127	-1	C6orf17	SPR1
22	CDC45	ENSG00000093009	ENST00000407835	protein_coding	KNOWN	CCDS13762	1739	1701	566	19466982	19508135	1	CDC45L2, CDC45L	None
22	CDC45	ENSG00000093009	ENST00000438587	protein_coding	PUTATIVE	None	1739	477	158	19467005	19481876	1	CDC45L2, CDC45L	None
22	CDC45	ENSG00000093009	ENST00000455750	protein_coding	KNOWN	None	1739	337	111	19467261	19470345	1	CDC45L2, CDC45L	None
22	CDC45	ENSG00000093009	ENST00000491520	retained_intron	KNOWN	None	1739	None	None	19467261	19471396	1	CDC45L2, CDC45L	None
22	CDC45	ENSG00000093009	ENST00000483431	processed_transcript	KNOWN	None	1739	None	None	19467424	19483509	1	CDC45L2, CDC45L	None
22	CDC45	ENSG00000093009	ENST00000404724	protein_coding	NOVEL	CCDS54500	1739	1563	520	19467461	19508101	1	CDC45L2, CDC45L	None
22	CDC45	ENSG00000093009	ENST00000487669	retained_intron	KNOWN	None	1739	None	None	19467673	19484967	1	CDC45L2, CDC45L	None
22	CDC45	ENSG00000093009	ENST00000428937	nonsense_mediated_decay	KNOWN	None	1739	290	95	19470274	19492893	1	CDC45L2, CDC45L	None
22	CDC45	ENSG00000093009	ENST00000471470	retained_intron	KNOWN	None	1739	None	None	19492577	19502307	1	CDC45L2, CDC45L	None
22	CDC45	ENSG00000093009	ENST00000493724	retained_intron	KNOWN	None	1739	None	None	19503957	19508117	1	CDC45L2, CDC45L	None
22	CDC45	ENSG00000093009	ENST00000437685	protein_coding	KNOWN	CCDS54499	1739	1797	598	19467414	19508134	1	CDC45L2, CDC45L	None
22	CDC45	ENSG00000093009	ENST00000263201	protein_coding	KNOWN	CCDS13762	1739	1701	566	19467416	19508134	1	CDC45L2, CDC45L	None
3	OGG1	ENSG00000114026	ENST00000302003	protein_coding	KNOWN	CCDS2580	8125	1233	410	9791628	9799091	1	None	HMMH, HOGG1, OGH1, MUTM
3	OGG1	ENSG00000114026	ENST00000344629	protein_coding	KNOWN	CCDS2581	8125	1038	345	9791628	9799197	1	None	HMMH, HOGG1, OGH1, MUTM
3	OGG1	ENSG00000114026	ENST00000302036	protein_coding	KNOWN	CCDS2576	8125	1275	424	9791628	9808421	1	None	HMMH, HOGG1, OGH1, MUTM
3	OGG1	ENSG00000114026	ENST00000339511	protein_coding	KNOWN	CCDS43046	8125	975	324	9791665	9799061	1	None	HMMH, HOGG1, OGH1, MUTM
3	OGG1	ENSG00000114026	ENST00000436092	processed_transcript	PUTATIVE	None	8125	None	None	9791702	9792756	1	None	HMMH, HOGG1, OGH1, MUTM
3	OGG1	ENSG00000114026	ENST00000449570	protein_coding	KNOWN	CCDS46742	8125	969	322	9791756	9808224	1	None	HMMH, HOGG1, OGH1, MUTM
3	OGG1	ENSG00000114026	ENST00000302008	protein_coding	KNOWN	CCDS2579	8125	1071	356	9791757	9808421	1	None	HMMH, HOGG1, OGH1, MUTM
3	OGG1	ENSG00000114026	ENST00000425665	nonsense_mediated_decay	KNOWN	None	8125	159	52	9791767	9798888	1	None	HMMH, HOGG1, OGH1, MUTM
3	OGG1	ENSG00000114026	ENST00000383826	protein_coding	KNOWN	CCDS2578	8125	588	195	9791771	9807796	1	None	HMMH, HOGG1, OGH1, MUTM
3	OGG1	ENSG00000114026	ENST00000441094	protein_coding	PUTATIVE	None	8125	668	221	9792030	9798719	1	None	HMMH, HOGG1, OGH1, MUTM
3	OGG1	ENSG00000114026	ENST00000429146	nonsense_mediated_decay	KNOWN	None	8125	505	167	9792039	9798549	1	None	HMMH, HOGG1, OGH1, MUTM
3	OGG1	ENSG00000114026	ENST00000432857	retained_intron	KNOWN	None	8125	None	None	9792648	9793778	1	None	HMMH, HOGG1, OGH1, MUTM
3	OGG1	ENSG00000114026	ENST00000426518	protein_coding	PUTATIVE	None	8125	386	127	9792763	9829903	1	None	HMMH, HOGG1, OGH1, MUTM
3	OGG1	ENSG00000114026	ENST00000352937	protein_coding	PUTATIVE	None	8125	790	262	9792776	9808421	1	None	HMMH, HOGG1, OGH1, MUTM
3	OGG1	ENSG00000114026	ENST00000383825	processed_transcript	KNOWN	None	8125	None	None	9793587	9798875	1	None	HMMH, HOGG1, OGH1, MUTM
3	OGG1	ENSG00000114026	ENST00000416333	protein_coding	NOVEL	None	8125	396	131	9793587	9798875	1	None	HMMH, HOGG1, OGH1, MUTM
3	OGG1	ENSG00000114026	ENST00000602976	retained_intron	KNOWN	None	8125	None	None	9799032	9804008	1	None	HMMH, HOGG1, OGH1, MUTM
3	OGG1	ENSG00000114026	ENST00000349503	protein_coding	KNOWN	CCDS2577	8125	1074	357	9791628	9808352	1	None	HMMH, HOGG1, OGH1, MUTM
1	ANKRD34A	ENSG00000181039	ENST00000323397	protein_coding	KNOWN	CCDS30829	27639	1491	496	145470508	145475646	1	ANKRD34	None
X	EMD	ENSG00000102119	ENST00000369842	protein_coding	KNOWN	CCDS14745	3331	765	254	153607557	153609883	1	None	STA, LEMD5
X	EMD	ENSG00000102119	ENST00000369835	protein_coding	NOVEL	None	3331	660	219	153607633	153609651	1	None	STA, LEMD5
X	EMD	ENSG00000102119	ENST00000486738	retained_intron	KNOWN	None	3331	None	None	153607701	153609639	1	None	STA, LEMD5
X	EMD	ENSG00000102119	ENST00000428228	nonsense_mediated_decay	KNOWN	None	3331	66	21	153607721	153609643	1	None	STA, LEMD5
X	EMD	ENSG00000102119	ENST00000485261	retained_intron	KNOWN	None	3331	None	None	153607764	153609315	1	None	STA, LEMD5
X	EMD	ENSG00000102119	ENST00000494443	retained_intron	KNOWN	None	3331	None	None	153607788	153608822	1	None	STA, LEMD5
X	EMD	ENSG00000102119	ENST00000468294	retained_intron	KNOWN	None	3331	None	None	153607885	153609254	1	None	STA, LEMD5
X	EMD	ENSG00000102119	ENST00000492448	processed_transcript	KNOWN	None	3331	None	None	153607985	153609641	1	None	STA, LEMD5
X	EMD	ENSG00000102119	ENST00000471965	retained_intron	KNOWN	None	3331	None	None	153608925	153609803	1	None	STA, LEMD5
1	LIX1L	ENSG00000152022	ENST00000369308	protein_coding	KNOWN	CCDS915	28715	1014	337	145477085	145501669	1	None	MGC46719
20	C20orf78	ENSG00000149443	ENST00000463425	processed_transcript	PUTATIVE	None	16210	None	None	18790372	18792360	-1	None	dJ1068E13.1
20	C20orf78	ENSG00000149443	ENST00000278779	protein_coding	KNOWN	CCDS56181	16210	456	151	18790372	18810797	-1	None	dJ1068E13.1
17	C1QTNF1-AS1	ENSG00000265096	ENST00000581579	protein_coding	PUTATIVE	None	44351	219	72	77015291	77023683	-1	None	None
17	C1QTNF1-AS1	ENSG00000265096	ENST00000577521	protein_coding	PUTATIVE	None	44351	144	47	77015674	77023737	-1	None	None
20	SCP2D1	ENSG00000132631	ENST00000377428	protein_coding	KNOWN	CCDS13139	16211	471	156	18794370	18795033	1	C20orf79	dJ1068E13.2, HSD22
19	SH2D3A	ENSG00000125731	ENST00000597168	processed_transcript	KNOWN	None	16885	None	None	6752171	6755252	-1	None	NSP1
19	SH2D3A	ENSG00000125731	ENST00000437152	protein_coding	NOVEL	None	16885	1452	483	6752176	6767446	-1	None	NSP1
19	SH2D3A	ENSG00000125731	ENST00000245908	protein_coding	KNOWN	CCDS12173	16885	1731	576	6752309	6767599	-1	None	NSP1
19	SH2D3A	ENSG00000125731	ENST00000595681	retained_intron	KNOWN	None	16885	None	None	6753594	6767446	-1	None	NSP1
19	SH2D3A	ENSG00000125731	ENST00000597687	protein_coding	PUTATIVE	None	16885	714	237	6754627	6767474	-1	None	NSP1
19	SH2D3A	ENSG00000125731	ENST00000597254	processed_transcript	KNOWN	None	16885	None	None	6754917	6767436	-1	None	NSP1
19	SH2D3A	ENSG00000125731	ENST00000599563	processed_transcript	KNOWN	None	16885	None	None	6754985	6761176	-1	None	NSP1
19	SH2D3A	ENSG00000125731	ENST00000595369	retained_intron	KNOWN	None	16885	None	None	6757341	6764492	-1	None	NSP1
X	MTMR8	ENSG00000102043	ENST00000442913	protein_coding	KNOWN	None	16825	1525	507	63487961	63576114	-1	None	FLJ20126
X	MTMR8	ENSG00000102043	ENST00000374852	protein_coding	KNOWN	CCDS14379	16825	2115	704	63487961	63615311	-1	None	FLJ20126
X	MTMR8	ENSG00000102043	ENST00000478487	processed_transcript	KNOWN	None	16825	None	None	63551294	63565038	-1	None	FLJ20126
X	MTMR8	ENSG00000102043	ENST00000462447	processed_transcript	KNOWN	None	16825	None	None	63551302	63568674	-1	None	FLJ20126
X	MTMR8	ENSG00000102043	ENST00000461403	processed_transcript	KNOWN	None	16825	None	None	63555961	63569920	-1	None	FLJ20126
X	MTMR8	ENSG00000102043	ENST00000453546	protein_coding	KNOWN	None	16825	2082	693	63444187	63615333	-1	None	FLJ20126
19	CYP4F2	ENSG00000186115	ENST00000221700	protein_coding	KNOWN	CCDS12336	2645	1563	520	15988834	16008930	-1	None	None
19	CYP4F2	ENSG00000186115	ENST00000592328	protein_coding	NOVEL	None	2645	1563	520	15989110	16008867	-1	None	None
19	CYP4F2	ENSG00000186115	ENST00000392846	retained_intron	KNOWN	None	2645	None	None	15989374	16008884	-1	None	None
19	CYP4F2	ENSG00000186115	ENST00000589654	protein_coding	PUTATIVE	None	2645	223	73	15989432	15996835	-1	None	None
19	CYP4F2	ENSG00000186115	ENST00000592710	retained_intron	KNOWN	None	2645	None	None	15990447	15997311	-1	None	None
19	CYP4F2	ENSG00000186115	ENST00000587671	nonsense_mediated_decay	KNOWN	None	2645	183	60	15996733	16008881	-1	None	None
19	CYP4F2	ENSG00000186115	ENST00000586927	protein_coding	KNOWN	None	2645	461	152	16003183	16008539	-1	None	None
19	CYP4F2	ENSG00000186115	ENST00000011989	protein_coding	KNOWN	None	2645	573	190	15996733	16008881	-1	None	None
3	TMEM108	ENSG00000144868	ENST00000514529	processed_transcript	KNOWN	None	28451	None	None	132757235	132838228	1	None	MGC3040, CT124
3	TMEM108	ENSG00000144868	ENST00000321871	protein_coding	KNOWN	CCDS33858	28451	1728	575	132757235	133116636	1	None	MGC3040, CT124
3	TMEM108	ENSG00000144868	ENST00000393130	protein_coding	KNOWN	CCDS33858	28451	1728	575	132757246	133115072	1	None	MGC3040, CT124
3	TMEM108	ENSG00000144868	ENST00000514894	protein_coding	PUTATIVE	None	28451	268	88	132757252	133098970	1	None	MGC3040, CT124
3	TMEM108	ENSG00000144868	ENST00000512662	protein_coding	PUTATIVE	None	28451	365	120	132757261	133099067	1	None	MGC3040, CT124
3	TMEM108	ENSG00000144868	ENST00000512137	protein_coding	KNOWN	None	28451	446	147	132760630	133099001	1	None	MGC3040, CT124
3	TMEM108	ENSG00000144868	ENST00000511555	protein_coding	KNOWN	None	28451	215	70	132838180	133098770	1	None	MGC3040, CT124
3	TMEM108	ENSG00000144868	ENST00000508711	protein_coding	NOVEL	None	28451	318	105	132843671	133116613	1	None	MGC3040, CT124
3	TMEM108	ENSG00000144868	ENST00000515826	protein_coding	KNOWN	None	28451	1467	488	132843917	133108527	1	None	MGC3040, CT124
3	TMEM108	ENSG00000144868	ENST00000510183	protein_coding	KNOWN	None	28451	460	152	132911619	133099015	1	None	MGC3040, CT124
3	TMEM108	ENSG00000144868	ENST00000511388	retained_intron	KNOWN	None	28451	None	None	133098561	133115036	1	None	MGC3040, CT124
1	RBM8A	ENSG00000131795	ENST00000484825	retained_intron	KNOWN	None	9905	None	None	145507598	145508611	1	RBM8	ZNRP, BOV-1A, BOV-1B, BOV-1C, RBM8B, Y14
1	RBM8A	ENSG00000131795	ENST00000498663	retained_intron	KNOWN	None	9905	None	None	145507598	145508947	1	RBM8	ZNRP, BOV-1A, BOV-1B, BOV-1C, RBM8B, Y14
1	RBM8A	ENSG00000131795	ENST00000330165	protein_coding	KNOWN	CCDS916	9905	525	174	145507598	145511444	1	RBM8	ZNRP, BOV-1A, BOV-1B, BOV-1C, RBM8B, Y14
1	RBM8A	ENSG00000131795	ENST00000369307	protein_coding	KNOWN	None	9905	522	173	145507633	145509451	1	RBM8	ZNRP, BOV-1A, BOV-1B, BOV-1C, RBM8B, Y14
20	SLC24A3	ENSG00000185052	ENST00000328041	protein_coding	KNOWN	CCDS13140	10977	1935	644	19193290	19703581	1	None	None
2	TLK1	ENSG00000198586	ENST00000431350	protein_coding	KNOWN	CCDS2241	11841	2301	766	171847333	172017343	-1	None	KIAA0137, PKU-BETA
2	TLK1	ENSG00000198586	ENST00000360843	protein_coding	NOVEL	None	11841	2364	787	171847333	172017343	-1	None	KIAA0137, PKU-BETA
2	TLK1	ENSG00000198586	ENST00000359766	nonsense_mediated_decay	KNOWN	None	11841	351	116	171848664	172017005	-1	None	KIAA0137, PKU-BETA
2	TLK1	ENSG00000198586	ENST00000521943	protein_coding	KNOWN	CCDS46447	11841	2157	718	171850017	172087824	-1	None	KIAA0137, PKU-BETA
2	TLK1	ENSG00000198586	ENST00000434911	protein_coding	PUTATIVE	CCDS46448	11841	2013	670	171850237	171923483	-1	None	KIAA0137, PKU-BETA
2	TLK1	ENSG00000198586	ENST00000409443	nonsense_mediated_decay	KNOWN	None	11841	1242	413	171853234	172017410	-1	None	KIAA0137, PKU-BETA
2	TLK1	ENSG00000198586	ENST00000413010	processed_transcript	KNOWN	None	11841	None	None	171884855	172017074	-1	None	KIAA0137, PKU-BETA
2	TLK1	ENSG00000198586	ENST00000478683	retained_intron	KNOWN	None	11841	None	None	171901741	171911639	-1	None	KIAA0137, PKU-BETA
2	TLK1	ENSG00000198586	ENST00000486857	processed_transcript	KNOWN	None	11841	None	None	171910227	171948320	-1	None	KIAA0137, PKU-BETA
2	TLK1	ENSG00000198586	ENST00000453628	protein_coding	PUTATIVE	None	11841	486	161	171910292	171923446	-1	None	KIAA0137, PKU-BETA
2	TLK1	ENSG00000198586	ENST00000470340	processed_transcript	KNOWN	None	11841	None	None	171939291	172012280	-1	None	KIAA0137, PKU-BETA
2	TLK1	ENSG00000198586	ENST00000466220	processed_transcript	KNOWN	None	11841	None	None	171974262	172016337	-1	None	KIAA0137, PKU-BETA
2	TLK1	ENSG00000198586	ENST00000442919	protein_coding	KNOWN	CCDS46447	11841	2157	718	171847333	172017410	-1	None	KIAA0137, PKU-BETA
3	CAMK2N2	ENSG00000163888	ENST00000296238	protein_coding	KNOWN	CCDS3257	24197	240	79	183977001	183979251	-1	None	CaM-KIIN
10	None	ENSG00000270099	ENST00000491114	nonsense_mediated_decay	KNOWN	None	None	200	65	97620305	97684601	1	None	None
X	CSF2RA	ENSG00000198223	ENST00000381529	protein_coding	KNOWN	CCDS35191	2435	1203	400	1387693	1428815	1	CSF2R	CD116
X	CSF2RA	ENSG00000198223	ENST00000381524	protein_coding	KNOWN	CCDS35191	2435	1203	400	1387701	1429274	1	CSF2R	CD116
X	CSF2RA	ENSG00000198223	ENST00000493312	processed_transcript	KNOWN	None	2435	None	None	1387707	1419436	1	CSF2R	CD116
X	CSF2RA	ENSG00000198223	ENST00000412290	protein_coding	KNOWN	None	2435	714	237	1387711	1413288	1	CSF2R	CD116
X	CSF2RA	ENSG00000198223	ENST00000419094	protein_coding	KNOWN	None	2435	564	187	1387723	1409320	1	CSF2R	CD116
X	CSF2RA	ENSG00000198223	ENST00000381509	protein_coding	KNOWN	CCDS55360	2435	1233	410	1387725	1424834	1	CSF2R	CD116
X	CSF2RA	ENSG00000198223	ENST00000494969	processed_transcript	KNOWN	None	2435	None	None	1387725	1428815	1	CSF2R	CD116
X	CSF2RA	ENSG00000198223	ENST00000481245	processed_transcript	KNOWN	None	2435	None	None	1387728	1401113	1	CSF2R	CD116
X	CSF2RA	ENSG00000198223	ENST00000355805	protein_coding	KNOWN	CCDS35193	2435	702	233	1387738	1428827	1	CSF2R	CD116
X	CSF2RA	ENSG00000198223	ENST00000486791	nonsense_mediated_decay	KNOWN	None	2435	858	285	1387738	1428827	1	CSF2R	CD116
X	CSF2RA	ENSG00000198223	ENST00000355432	protein_coding	KNOWN	CCDS35190	2435	1134	377	1387738	1428827	1	CSF2R	CD116
X	CSF2RA	ENSG00000198223	ENST00000381500	protein_coding	KNOWN	CCDS35192	2435	1002	333	1401579	1428531	1	CSF2R	CD116
X	CSF2RA	ENSG00000198223	ENST00000477940	processed_transcript	PUTATIVE	None	2435	None	None	1404545	1407533	1	CSF2R	CD116
X	CSF2RA	ENSG00000198223	ENST00000478256	processed_transcript	PUTATIVE	None	2435	None	None	1407491	1407998	1	CSF2R	CD116
X	CSF2RA	ENSG00000198223	ENST00000475259	processed_transcript	KNOWN	None	2435	None	None	1409346	1428815	1	CSF2R	CD116
X	CSF2RA	ENSG00000198223	ENST00000491683	processed_transcript	PUTATIVE	None	2435	None	None	1413118	1414471	1	CSF2R	CD116
X	CSF2RA	ENSG00000198223	ENST00000498153	processed_transcript	KNOWN	None	2435	None	None	1413221	1428827	1	CSF2R	CD116
X	CSF2RA	ENSG00000198223	ENST00000432318	protein_coding	KNOWN	CCDS35191	2435	1203	400	1387693	1428828	1	CSF2R	CD116
X	CSF2RA	ENSG00000198223	ENST00000417535	protein_coding	KNOWN	CCDS55359	2435	1305	434	1401571	1428828	1	CSF2R	CD116
X	CSF2RA	ENSG00000198223	ENST00000361536	protein_coding	KNOWN	CCDS35192	2435	1002	333	1387693	1428828	1	CSF2R	CD116
X	CSF2RA	ENSG00000198223	ENST00000501036	protein_coding	KNOWN	CCDS55361	2435	804	267	1387693	1428828	1	CSF2R	CD116
7	None	ENSG00000173862	ENST00000311067	protein_coding	NOVEL	None	None	636	211	33765593	33768068	1	None	None
1	PEX11B	ENSG00000131779	ENST00000369306	protein_coding	KNOWN	CCDS917	8853	780	259	145516252	145523730	1	None	None
1	PEX11B	ENSG00000131779	ENST00000428634	protein_coding	KNOWN	None	8853	246	81	145522674	145523730	1	None	None
1	PEX11B	ENSG00000131779	ENST00000537888	protein_coding	KNOWN	CCDS53356	8853	738	245	145516560	145523729	1	None	None
14	None	ENSG00000258790	ENST00000557565	nonsense_mediated_decay	KNOWN	CCDS32063	None	1752	583	35591755	35786680	1	None	None
1	MFSD2A	ENSG00000168389	ENST00000372811	protein_coding	KNOWN	CCDS446	25897	1593	530	40420802	40435638	1	MFSD2	FLJ14490
1	MFSD2A	ENSG00000168389	ENST00000434861	protein_coding	KNOWN	None	25897	799	265	40420818	40432363	1	MFSD2	FLJ14490
1	MFSD2A	ENSG00000168389	ENST00000372809	protein_coding	KNOWN	CCDS44118	25897	1632	543	40420822	40435638	1	MFSD2	FLJ14490
1	MFSD2A	ENSG00000168389	ENST00000483824	processed_transcript	KNOWN	None	25897	None	None	40420830	40435638	1	MFSD2	FLJ14490
1	MFSD2A	ENSG00000168389	ENST00000469745	processed_transcript	KNOWN	None	25897	None	None	40423493	40432841	1	MFSD2	FLJ14490
1	MFSD2A	ENSG00000168389	ENST00000480630	processed_transcript	KNOWN	None	25897	None	None	40429883	40435638	1	MFSD2	FLJ14490
1	MFSD2A	ENSG00000168389	ENST00000491515	processed_transcript	KNOWN	None	25897	None	None	40432334	40434364	1	MFSD2	FLJ14490
1	MFSD2A	ENSG00000168389	ENST00000459917	processed_transcript	KNOWN	None	25897	None	None	40433155	40434345	1	MFSD2	FLJ14490
1	MFSD2A	ENSG00000168389	ENST00000481612	processed_transcript	KNOWN	None	25897	None	None	40433291	40434286	1	MFSD2	FLJ14490
1	MFSD2A	ENSG00000168389	ENST00000420632	protein_coding	KNOWN	None	25897	1125	374	40420817	40435273	1	MFSD2	FLJ14490
8	AGO2	ENSG00000123908	ENST00000220592	protein_coding	KNOWN	CCDS6380	3263	2580	859	141541264	141645718	-1	EIF2C2	hAGO2, Q10
8	AGO2	ENSG00000123908	ENST00000519980	protein_coding	KNOWN	CCDS55279	3263	2478	825	141541520	141645645	-1	EIF2C2	hAGO2, Q10
8	AGO2	ENSG00000123908	ENST00000523609	nonsense_mediated_decay	KNOWN	None	3263	222	73	141541520	141645645	-1	EIF2C2	hAGO2, Q10
8	AGO2	ENSG00000123908	ENST00000520628	processed_transcript	PUTATIVE	None	3263	None	None	141542193	141542805	-1	EIF2C2	hAGO2, Q10
8	AGO2	ENSG00000123908	ENST00000520412	retained_intron	KNOWN	None	3263	None	None	141542632	141551556	-1	EIF2C2	hAGO2, Q10
8	AGO2	ENSG00000123908	ENST00000519347	retained_intron	KNOWN	None	3263	None	None	141545490	141549548	-1	EIF2C2	hAGO2, Q10
8	AGO2	ENSG00000123908	ENST00000521325	retained_intron	KNOWN	None	3263	None	None	141565507	141566337	-1	EIF2C2	hAGO2, Q10
8	AGO2	ENSG00000123908	ENST00000517293	processed_transcript	KNOWN	None	3263	None	None	141582657	141645645	-1	EIF2C2	hAGO2, Q10
8	AGO2	ENSG00000123908	ENST00000524328	protein_coding	PUTATIVE	None	3263	108	35	141583001	141615987	-1	EIF2C2	hAGO2, Q10
8	AGO2	ENSG00000123908	ENST00000518019	processed_transcript	PUTATIVE	None	3263	None	None	141636584	141645645	-1	EIF2C2	hAGO2, Q10
1	LRRN2	ENSG00000170382	ENST00000367175	protein_coding	KNOWN	CCDS1448	16914	2142	713	204586298	204591333	-1	LRRN5	GAC1, LRANK1, FIGLER7
1	LRRN2	ENSG00000170382	ENST00000367176	protein_coding	KNOWN	CCDS1448	16914	2142	713	204586298	204654481	-1	LRRN5	GAC1, LRANK1, FIGLER7
1	LRRN2	ENSG00000170382	ENST00000367177	protein_coding	KNOWN	CCDS1448	16914	2142	713	204586298	204654861	-1	LRRN5	GAC1, LRANK1, FIGLER7
1	LRRN2	ENSG00000170382	ENST00000496057	processed_transcript	KNOWN	None	16914	None	None	204589028	204654494	-1	LRRN5	GAC1, LRANK1, FIGLER7
17	C1QTNF1	ENSG00000173918	ENST00000578229	protein_coding	NOVEL	CCDS11762	14324	600	199	77018896	77044329	1	None	CTRP1, ZSIG37, GIP, FLJ90694
17	C1QTNF1	ENSG00000173918	ENST00000580454	protein_coding	KNOWN	CCDS11761	14324	846	281	77019053	77044329	1	None	CTRP1, ZSIG37, GIP, FLJ90694
17	C1QTNF1	ENSG00000173918	ENST00000579760	protein_coding	KNOWN	CCDS11761	14324	846	281	77020152	77044557	1	None	CTRP1, ZSIG37, GIP, FLJ90694
17	C1QTNF1	ENSG00000173918	ENST00000582295	processed_transcript	KNOWN	None	14324	None	None	77020251	77021134	1	None	CTRP1, ZSIG37, GIP, FLJ90694
17	C1QTNF1	ENSG00000173918	ENST00000339142	protein_coding	KNOWN	CCDS11761	14324	846	281	77020253	77045869	1	None	CTRP1, ZSIG37, GIP, FLJ90694
17	C1QTNF1	ENSG00000173918	ENST00000311661	protein_coding	NOVEL	CCDS11762	14324	600	199	77020343	77045869	1	None	CTRP1, ZSIG37, GIP, FLJ90694
17	C1QTNF1	ENSG00000173918	ENST00000392445	protein_coding	KNOWN	CCDS11761	14324	846	281	77021745	77045870	1	None	CTRP1, ZSIG37, GIP, FLJ90694
17	C1QTNF1	ENSG00000173918	ENST00000581774	protein_coding	KNOWN	CCDS11761	14324	846	281	77030267	77044329	1	None	CTRP1, ZSIG37, GIP, FLJ90694
17	C1QTNF1	ENSG00000173918	ENST00000583904	protein_coding	KNOWN	CCDS11761	14324	846	281	77037808	77044329	1	None	CTRP1, ZSIG37, GIP, FLJ90694
17	C1QTNF1	ENSG00000173918	ENST00000580474	protein_coding	KNOWN	CCDS11761	14324	846	281	77039675	77044548	1	None	CTRP1, ZSIG37, GIP, FLJ90694
17	C1QTNF1	ENSG00000173918	ENST00000582625	processed_transcript	KNOWN	None	14324	None	None	77042983	77044398	1	None	CTRP1, ZSIG37, GIP, FLJ90694
17	C1QTNF1	ENSG00000173918	ENST00000354124	protein_coding	KNOWN	None	14324	876	291	77021745	77044522	1	None	CTRP1, ZSIG37, GIP, FLJ90694
16	NKD1	ENSG00000140807	ENST00000268459	protein_coding	KNOWN	CCDS10743	17045	1413	470	50582241	50670647	1	None	None
16	NKD1	ENSG00000140807	ENST00000564336	processed_transcript	KNOWN	None	17045	None	None	50582307	50650019	1	None	None
16	NKD1	ENSG00000140807	ENST00000566396	retained_intron	KNOWN	None	17045	None	None	50659136	50667133	1	None	None
X	UTP14A	ENSG00000156697	ENST00000394422	protein_coding	KNOWN	CCDS14615	10665	2316	771	129040159	129063728	1	SDCCAG16	NY-CO-16
X	UTP14A	ENSG00000156697	ENST00000427972	protein_coding	KNOWN	None	10665	960	319	129047320	129058886	1	SDCCAG16	NY-CO-16
X	UTP14A	ENSG00000156697	ENST00000498179	processed_transcript	KNOWN	None	10665	None	None	129054689	129057039	1	SDCCAG16	NY-CO-16
X	UTP14A	ENSG00000156697	ENST00000425117	protein_coding	KNOWN	CCDS55489	10665	2160	719	129040097	129063737	1	SDCCAG16	NY-CO-16
X	UTP14A	ENSG00000156697	ENST00000371051	protein_coding	KNOWN	None	10665	2154	717	129040167	129063689	1	SDCCAG16	NY-CO-16
X	UTP14A	ENSG00000156697	ENST00000371042	protein_coding	KNOWN	None	10665	1812	603	129047339	129063737	1	SDCCAG16	NY-CO-16
HSCHR6_MHC_COX	C6orf15	ENSG00000229432	ENST00000452899	protein_coding	KNOWN	None	13927	978	325	31071500	31072836	-1	None	STG
7	BMPER	ENSG00000164619	ENST00000448280	nonsense_mediated_decay	KNOWN	None	24154	273	90	33944523	33961640	1	None	Cv2, CRIM3
7	BMPER	ENSG00000164619	ENST00000297161	protein_coding	KNOWN	CCDS5442	24154	2058	685	33944523	34195484	1	None	Cv2, CRIM3
7	BMPER	ENSG00000164619	ENST00000496609	retained_intron	KNOWN	None	24154	None	None	33945115	33977172	1	None	Cv2, CRIM3
7	BMPER	ENSG00000164619	ENST00000436222	protein_coding	NOVEL	None	24154	477	158	33945145	34014397	1	None	Cv2, CRIM3
7	BMPER	ENSG00000164619	ENST00000444773	nonsense_mediated_decay	KNOWN	None	24154	402	133	33945151	34006173	1	None	Cv2, CRIM3
7	BMPER	ENSG00000164619	ENST00000494786	processed_transcript	KNOWN	None	24154	None	None	34082288	34094821	1	None	Cv2, CRIM3
7	BMPER	ENSG00000164619	ENST00000476525	processed_transcript	KNOWN	None	24154	None	None	34106844	34182972	1	None	Cv2, CRIM3
7	BMPER	ENSG00000164619	ENST00000426693	protein_coding	KNOWN	CCDS5442	24154	2058	685	33945112	34194112	1	None	Cv2, CRIM3
12	ABCB9	ENSG00000150967	ENST00000344275	protein_coding	NOVEL	CCDS58287	50	2046	681	123405498	123451007	-1	None	EST122234
12	ABCB9	ENSG00000150967	ENST00000442833	protein_coding	NOVEL	CCDS58288	50	2052	683	123409072	123451007	-1	None	EST122234
12	ABCB9	ENSG00000150967	ENST00000280560	protein_coding	KNOWN	CCDS9241	50	2301	766	123413541	123451043	-1	None	EST122234
12	ABCB9	ENSG00000150967	ENST00000540285	protein_coding	NOVEL	CCDS58286	50	2112	703	123413541	123451047	-1	None	EST122234
12	ABCB9	ENSG00000150967	ENST00000392439	protein_coding	KNOWN	CCDS9241	50	2301	766	123413546	123459752	-1	None	EST122234
12	ABCB9	ENSG00000150967	ENST00000542678	protein_coding	KNOWN	CCDS9241	50	2301	766	123413547	123466196	-1	None	EST122234
12	ABCB9	ENSG00000150967	ENST00000546289	protein_coding	PUTATIVE	None	50	833	276	123414558	123429222	-1	None	EST122234
12	ABCB9	ENSG00000150967	ENST00000426173	nonsense_mediated_decay	KNOWN	None	50	438	145	123415873	123444334	-1	None	EST122234
12	ABCB9	ENSG00000150967	ENST00000537276	nonsense_mediated_decay	KNOWN	None	50	819	272	123416188	123450949	-1	None	EST122234
12	ABCB9	ENSG00000150967	ENST00000542448	protein_coding	PUTATIVE	None	50	780	259	123419820	123431024	-1	None	EST122234
12	ABCB9	ENSG00000150967	ENST00000538895	retained_intron	KNOWN	None	50	None	None	123423996	123444807	-1	None	EST122234
12	ABCB9	ENSG00000150967	ENST00000541983	processed_transcript	KNOWN	None	50	None	None	123424673	123429249	-1	None	EST122234
12	ABCB9	ENSG00000150967	ENST00000545373	protein_coding	PUTATIVE	None	50	468	155	123424754	123429219	-1	None	EST122234
12	ABCB9	ENSG00000150967	ENST00000540971	protein_coding	PUTATIVE	None	50	548	181	123425493	123433859	-1	None	EST122234
12	ABCB9	ENSG00000150967	ENST00000536976	protein_coding	PUTATIVE	None	50	666	221	123428938	123435552	-1	None	EST122234
12	ABCB9	ENSG00000150967	ENST00000546077	protein_coding	PUTATIVE	None	50	347	114	123428942	123433118	-1	None	EST122234
12	ABCB9	ENSG00000150967	ENST00000541424	protein_coding	PUTATIVE	None	50	437	144	123430723	123437631	-1	None	EST122234
12	ABCB9	ENSG00000150967	ENST00000543935	protein_coding	PUTATIVE	None	50	197	64	123444586	123459229	-1	None	EST122234
12	ABCB9	ENSG00000150967	ENST00000346530	protein_coding	KNOWN	None	50	2172	723	123413541	123451056	-1	None	EST122234
12	ABCB9	ENSG00000150967	ENST00000442028	protein_coding	KNOWN	None	50	2310	769	123413547	123459752	-1	None	EST122234
4	None	ENSG00000222262	ENST00000410330	miRNA	NOVEL	None	None	None	None	24422799	24422924	-1	None	None
4	None	ENSG00000265001	ENST00000580737	miRNA	NOVEL	None	None	None	None	24431455	24431523	1	None	None
11	INTS4	ENSG00000149262	ENST00000433818	nonsense_mediated_decay	KNOWN	None	25048	399	132	77589766	77705717	-1	None	INT4, MGC16733, MST093
11	INTS4	ENSG00000149262	ENST00000534064	protein_coding	KNOWN	CCDS31644	25048	2892	963	77589766	77705724	-1	None	INT4, MGC16733, MST093
11	INTS4	ENSG00000149262	ENST00000533180	retained_intron	KNOWN	None	25048	None	None	77612403	77632492	-1	None	INT4, MGC16733, MST093
11	INTS4	ENSG00000149262	ENST00000525268	processed_transcript	PUTATIVE	None	25048	None	None	77612499	77635907	-1	None	INT4, MGC16733, MST093
11	INTS4	ENSG00000149262	ENST00000531059	retained_intron	KNOWN	None	25048	None	None	77632397	77633851	-1	None	INT4, MGC16733, MST093
11	INTS4	ENSG00000149262	ENST00000525931	processed_transcript	KNOWN	None	25048	None	None	77633399	77649817	-1	None	INT4, MGC16733, MST093
11	INTS4	ENSG00000149262	ENST00000529807	protein_coding	PUTATIVE	None	25048	1518	505	77635488	77705712	-1	None	INT4, MGC16733, MST093
11	INTS4	ENSG00000149262	ENST00000534408	nonsense_mediated_decay	KNOWN	None	25048	291	96	77688935	77705699	-1	None	INT4, MGC16733, MST093
11	INTS4	ENSG00000149262	ENST00000524766	nonsense_mediated_decay	KNOWN	None	25048	291	96	77692505	77705711	-1	None	INT4, MGC16733, MST093
11	INTS4	ENSG00000149262	ENST00000527522	protein_coding	PUTATIVE	None	25048	291	96	77698062	77705716	-1	None	INT4, MGC16733, MST093
11	INTS4	ENSG00000149262	ENST00000535943	protein_coding	KNOWN	None	25048	1017	338	77589768	77622200	-1	None	INT4, MGC16733, MST093
4	MIR573	ENSG00000207697	ENST00000384964	miRNA	KNOWN	None	32829	None	None	24521815	24521913	-1	MIRN573	hsa-mir-573
4	RN7SL16P	ENSG00000243005	ENST00000476316	misc_RNA	KNOWN	None	46032	None	None	24564818	24565084	-1	None	None
4	ATP5LP3	ENSG00000249256	ENST00000514223	processed_pseudogene	KNOWN	None	13216	None	None	24659695	24659998	-1	ATP5KP3	None
14	PSMA6	ENSG00000100902	ENST00000540871	protein_coding	NOVEL	None	9535	684	227	35747839	35786673	1	None	IOTA, PROS27, p27K, MGC22756, MGC2333, MGC23846
14	PSMA6	ENSG00000100902	ENST00000554541	nonsense_mediated_decay	KNOWN	None	9535	126	41	35761555	35786663	1	None	IOTA, PROS27, p27K, MGC22756, MGC2333, MGC23846
14	PSMA6	ENSG00000100902	ENST00000261479	protein_coding	KNOWN	CCDS9655	9535	741	246	35761563	35786680	1	None	IOTA, PROS27, p27K, MGC22756, MGC2333, MGC23846
14	PSMA6	ENSG00000100902	ENST00000554843	retained_intron	KNOWN	None	9535	None	None	35761594	35780258	1	None	IOTA, PROS27, p27K, MGC22756, MGC2333, MGC23846
14	PSMA6	ENSG00000100902	ENST00000554620	nonsense_mediated_decay	KNOWN	None	9535	324	107	35761599	35783601	1	None	IOTA, PROS27, p27K, MGC22756, MGC2333, MGC23846
14	PSMA6	ENSG00000100902	ENST00000554961	nonsense_mediated_decay	KNOWN	None	9535	447	148	35761599	35786680	1	None	IOTA, PROS27, p27K, MGC22756, MGC2333, MGC23846
14	PSMA6	ENSG00000100902	ENST00000556167	retained_intron	KNOWN	None	9535	None	None	35761601	35777642	1	None	IOTA, PROS27, p27K, MGC22756, MGC2333, MGC23846
14	PSMA6	ENSG00000100902	ENST00000553809	protein_coding	NOVEL	None	9535	759	252	35761604	35786553	1	None	IOTA, PROS27, p27K, MGC22756, MGC2333, MGC23846
14	PSMA6	ENSG00000100902	ENST00000553688	nonsense_mediated_decay	KNOWN	None	9535	204	67	35761649	35782105	1	None	IOTA, PROS27, p27K, MGC22756, MGC2333, MGC23846
14	PSMA6	ENSG00000100902	ENST00000555764	protein_coding	PUTATIVE	None	9535	504	167	35761657	35786699	1	None	IOTA, PROS27, p27K, MGC22756, MGC2333, MGC23846
14	PSMA6	ENSG00000100902	ENST00000556506	protein_coding	NOVEL	None	9535	612	203	35761679	35786625	1	None	IOTA, PROS27, p27K, MGC22756, MGC2333, MGC23846
14	PSMA6	ENSG00000100902	ENST00000555050	retained_intron	KNOWN	None	9535	None	None	35777981	35780033	1	None	IOTA, PROS27, p27K, MGC22756, MGC2333, MGC23846
14	PSMA6	ENSG00000100902	ENST00000556221	protein_coding	NOVEL	None	9535	257	84	35780039	35786678	1	None	IOTA, PROS27, p27K, MGC22756, MGC2333, MGC23846
14	PSMA6	ENSG00000100902	ENST00000554457	retained_intron	KNOWN	None	9535	None	None	35781949	35786678	1	None	IOTA, PROS27, p27K, MGC22756, MGC2333, MGC23846
3	PXK	ENSG00000168297	ENST00000356151	protein_coding	KNOWN	CCDS2889	23326	1737	578	58318607	58410878	1	None	FLJ20335
3	PXK	ENSG00000168297	ENST00000468776	nonsense_mediated_decay	KNOWN	None	23326	171	56	58318612	58410785	1	None	FLJ20335
3	PXK	ENSG00000168297	ENST00000463280	protein_coding	NOVEL	None	23326	1449	482	58318625	58411748	1	None	FLJ20335
3	PXK	ENSG00000168297	ENST00000383715	protein_coding	NOVEL	None	23326	1497	498	58318630	58406455	1	None	FLJ20335
3	PXK	ENSG00000168297	ENST00000484288	protein_coding	KNOWN	None	23326	1548	515	58318638	58406687	1	None	FLJ20335
3	PXK	ENSG00000168297	ENST00000479241	protein_coding	PUTATIVE	None	23326	1692	563	58318675	58411746	1	None	FLJ20335
3	PXK	ENSG00000168297	ENST00000477308	nonsense_mediated_decay	KNOWN	None	23326	426	141	58318714	58410785	1	None	FLJ20335
3	PXK	ENSG00000168297	ENST00000491164	protein_coding	PUTATIVE	None	23326	339	112	58319033	58368405	1	None	FLJ20335
3	PXK	ENSG00000168297	ENST00000479134	protein_coding	NOVEL	None	23326	938	311	58381401	58411601	1	None	FLJ20335
3	PXK	ENSG00000168297	ENST00000459676	protein_coding	PUTATIVE	None	23326	612	203	58382865	58400254	1	None	FLJ20335
3	PXK	ENSG00000168297	ENST00000495557	protein_coding	NOVEL	None	23326	257	84	58394706	58406462	1	None	FLJ20335
3	PXK	ENSG00000168297	ENST00000493474	protein_coding	NOVEL	None	23326	153	50	58395343	58410902	1	None	FLJ20335
3	PXK	ENSG00000168297	ENST00000302779	protein_coding	KNOWN	None	23326	1686	561	58318617	58410878	1	None	FLJ20335
3	PXK	ENSG00000168297	ENST00000383716	protein_coding	KNOWN	None	23326	1638	545	58318617	58410878	1	None	FLJ20335
3	PXK	ENSG00000168297	ENST00000536660	protein_coding	KNOWN	None	23326	1326	441	58318682	58410837	1	None	FLJ20335
11	MYRF	ENSG00000124920	ENST00000537766	retained_intron	KNOWN	None	1181	None	None	61520114	61534339	1	C11orf9	Ndt80, pqn-47, MRF
11	MYRF	ENSG00000124920	ENST00000278836	protein_coding	KNOWN	CCDS44622	1181	3456	1151	61520121	61555990	1	C11orf9	Ndt80, pqn-47, MRF
11	MYRF	ENSG00000124920	ENST00000265460	protein_coding	KNOWN	CCDS31579	1181	3336	1111	61522861	61555989	1	C11orf9	Ndt80, pqn-47, MRF
11	MYRF	ENSG00000124920	ENST00000389602	protein_coding	PUTATIVE	None	1181	1614	537	61545078	61553889	1	C11orf9	Ndt80, pqn-47, MRF
11	MYRF	ENSG00000124920	ENST00000536352	retained_intron	KNOWN	None	1181	None	None	61546301	61548517	1	C11orf9	Ndt80, pqn-47, MRF
11	MYRF	ENSG00000124920	ENST00000537318	retained_intron	KNOWN	None	1181	None	None	61546301	61549784	1	C11orf9	Ndt80, pqn-47, MRF
11	MYRF	ENSG00000124920	ENST00000546247	retained_intron	KNOWN	None	1181	None	None	61547684	61551017	1	C11orf9	Ndt80, pqn-47, MRF
11	MYRF	ENSG00000124920	ENST00000539361	retained_intron	KNOWN	None	1181	None	None	61549409	61552982	1	C11orf9	Ndt80, pqn-47, MRF
11	MYRF	ENSG00000124920	ENST00000327797	protein_coding	KNOWN	None	1181	1449	482	61541443	61547759	1	C11orf9	Ndt80, pqn-47, MRF
15	HCN4	ENSG00000138622	ENST00000261917	protein_coding	KNOWN	CCDS10248	16882	3612	1203	73612200	73661605	-1	None	None
1	ITGA10	ENSG00000143127	ENST00000369304	protein_coding	KNOWN	CCDS918	6135	3504	1167	145524891	145543868	1	None	None
1	ITGA10	ENSG00000143127	ENST00000468261	retained_intron	KNOWN	None	6135	None	None	145524969	145529320	1	None	None
1	ITGA10	ENSG00000143127	ENST00000481236	processed_transcript	KNOWN	None	6135	None	None	145530952	145532622	1	None	None
1	ITGA10	ENSG00000143127	ENST00000539363	protein_coding	KNOWN	None	6135	3075	1024	145525016	145542533	1	None	None
1	ITGA10	ENSG00000143127	ENST00000538811	protein_coding	KNOWN	None	6135	3111	1036	145525035	145542539	1	None	None
3	PSMD2	ENSG00000175166	ENST00000310118	protein_coding	KNOWN	CCDS3258	9559	2727	908	184016497	184026842	1	None	S2, P97, TRAP2, MGC14274, Rpn1
3	PSMD2	ENSG00000175166	ENST00000417952	protein_coding	NOVEL	None	9559	652	216	184016986	184020480	1	None	S2, P97, TRAP2, MGC14274, Rpn1
3	PSMD2	ENSG00000175166	ENST00000459910	processed_transcript	KNOWN	None	9559	None	None	184017023	184019723	1	None	S2, P97, TRAP2, MGC14274, Rpn1
3	PSMD2	ENSG00000175166	ENST00000487475	retained_intron	KNOWN	None	9559	None	None	184017027	184019849	1	None	S2, P97, TRAP2, MGC14274, Rpn1
3	PSMD2	ENSG00000175166	ENST00000492191	retained_intron	KNOWN	None	9559	None	None	184017039	184018440	1	None	S2, P97, TRAP2, MGC14274, Rpn1
3	PSMD2	ENSG00000175166	ENST00000433010	nonsense_mediated_decay	KNOWN	None	9559	180	59	184017042	184019852	1	None	S2, P97, TRAP2, MGC14274, Rpn1
3	PSMD2	ENSG00000175166	ENST00000476461	retained_intron	KNOWN	None	9559	None	None	184017045	184018232	1	None	S2, P97, TRAP2, MGC14274, Rpn1
3	PSMD2	ENSG00000175166	ENST00000445558	nonsense_mediated_decay	KNOWN	None	9559	430	142	184017692	184020563	1	None	S2, P97, TRAP2, MGC14274, Rpn1
3	PSMD2	ENSG00000175166	ENST00000435761	protein_coding	PUTATIVE	None	9559	2250	749	184018369	184026788	1	None	S2, P97, TRAP2, MGC14274, Rpn1
3	PSMD2	ENSG00000175166	ENST00000439383	protein_coding	PUTATIVE	None	9559	2337	778	184018369	184026836	1	None	S2, P97, TRAP2, MGC14274, Rpn1
3	PSMD2	ENSG00000175166	ENST00000463602	processed_transcript	KNOWN	None	9559	None	None	184018374	184020210	1	None	S2, P97, TRAP2, MGC14274, Rpn1
3	PSMD2	ENSG00000175166	ENST00000485937	retained_intron	KNOWN	None	9559	None	None	184019510	184020560	1	None	S2, P97, TRAP2, MGC14274, Rpn1
3	PSMD2	ENSG00000175166	ENST00000491149	retained_intron	KNOWN	None	9559	None	None	184019818	184021473	1	None	S2, P97, TRAP2, MGC14274, Rpn1
3	PSMD2	ENSG00000175166	ENST00000460628	retained_intron	KNOWN	None	9559	None	None	184020528	184021703	1	None	S2, P97, TRAP2, MGC14274, Rpn1
3	PSMD2	ENSG00000175166	ENST00000466987	retained_intron	KNOWN	None	9559	None	None	184020816	184021799	1	None	S2, P97, TRAP2, MGC14274, Rpn1
3	PSMD2	ENSG00000175166	ENST00000488085	retained_intron	KNOWN	None	9559	None	None	184021850	184023891	1	None	S2, P97, TRAP2, MGC14274, Rpn1
3	PSMD2	ENSG00000175166	ENST00000432855	protein_coding	NOVEL	None	9559	609	202	184023635	184025690	1	None	S2, P97, TRAP2, MGC14274, Rpn1
3	PSMD2	ENSG00000175166	ENST00000496925	retained_intron	KNOWN	None	9559	None	None	184023649	184025465	1	None	S2, P97, TRAP2, MGC14274, Rpn1
3	PSMD2	ENSG00000175166	ENST00000473991	processed_transcript	KNOWN	None	9559	None	None	184024399	184026322	1	None	S2, P97, TRAP2, MGC14274, Rpn1
3	PSMD2	ENSG00000175166	ENST00000491494	retained_intron	KNOWN	None	9559	None	None	184025710	184026512	1	None	S2, P97, TRAP2, MGC14274, Rpn1
HSCHR6_MHC_DBB	LST1	ENSG00000223465	ENST00000450425	protein_coding	KNOWN	None	14189	201	66	31536047	31538834	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_DBB	LST1	ENSG00000223465	ENST00000427507	protein_coding	KNOWN	None	14189	294	97	31536102	31538834	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_DBB	LST1	ENSG00000223465	ENST00000483590	retained_intron	KNOWN	None	14189	None	None	31536117	31538834	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_DBB	LST1	ENSG00000223465	ENST00000455493	protein_coding	KNOWN	None	14189	42	13	31536140	31538834	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_DBB	LST1	ENSG00000223465	ENST00000443051	protein_coding	KNOWN	None	14189	87	28	31536140	31538834	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_DBB	LST1	ENSG00000223465	ENST00000423871	protein_coding	KNOWN	None	14189	156	51	31536143	31538834	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_DBB	LST1	ENSG00000223465	ENST00000469244	retained_intron	KNOWN	None	14189	None	None	31536158	31538834	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_DBB	LST1	ENSG00000223465	ENST00000451641	protein_coding	KNOWN	None	14189	201	66	31536622	31538834	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_DBB	LST1	ENSG00000223465	ENST00000455346	protein_coding	KNOWN	None	14189	87	28	31536771	31538834	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_DBB	LST1	ENSG00000223465	ENST00000429792	protein_coding	KNOWN	None	14189	109	35	31536818	31537653	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_DBB	LST1	ENSG00000223465	ENST00000413900	protein_coding	KNOWN	None	14189	87	28	31536932	31538834	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_DBB	LST1	ENSG00000223465	ENST00000426298	protein_coding	KNOWN	None	14189	87	28	31536945	31538834	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_DBB	LST1	ENSG00000223465	ENST00000417428	protein_coding	KNOWN	None	14189	294	97	31536955	31538834	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_DBB	LST1	ENSG00000223465	ENST00000440253	protein_coding	KNOWN	None	14189	201	66	31536989	31538834	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_DBB	LST1	ENSG00000223465	ENST00000414266	protein_coding	KNOWN	None	14189	201	66	31537003	31538834	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_DBB	LST1	ENSG00000223465	ENST00000425495	protein_coding	KNOWN	None	14189	138	45	31537009	31537764	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_DBB	LST1	ENSG00000223465	ENST00000429910	protein_coding	KNOWN	None	14189	180	59	31537020	31538834	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_DBB	LST1	ENSG00000223465	ENST00000448749	protein_coding	KNOWN	None	14189	249	82	31537040	31538834	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_DBB	LST1	ENSG00000223465	ENST00000440242	protein_coding	KNOWN	None	14189	222	73	31537123	31538834	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_DBB	LST1	ENSG00000223465	ENST00000432164	protein_coding	KNOWN	None	14189	108	35	31537123	31538834	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_DBB	LST1	ENSG00000223465	ENST00000437812	protein_coding	KNOWN	None	14189	315	104	31537123	31538834	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_DBB	LST1	ENSG00000223465	ENST00000496407	retained_intron	KNOWN	None	14189	None	None	31537178	31538834	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_DBB	LST1	ENSG00000223465	ENST00000433420	protein_coding	KNOWN	None	14189	131	42	31537227	31538834	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_DBB	LST1	ENSG00000223465	ENST00000551913	protein_coding	KNOWN	None	14189	108	35	31536102	31538510	1	None	LST-1, B144, D6S49E
HSCHR6_MHC_DBB	LST1	ENSG00000223465	ENST00000548684	protein_coding	KNOWN	None	14189	276	91	31537123	31538833	1	None	LST-1, B144, D6S49E
18	C18orf8	ENSG00000141452	ENST00000269221	protein_coding	KNOWN	CCDS32803	24326	1974	657	21083473	21111746	1	None	MIC1, HsT2591
18	C18orf8	ENSG00000141452	ENST00000589215	nonsense_mediated_decay	KNOWN	None	24326	258	85	21083477	21111742	1	None	MIC1, HsT2591
18	C18orf8	ENSG00000141452	ENST00000587153	retained_intron	KNOWN	None	24326	None	None	21083483	21084686	1	None	MIC1, HsT2591
18	C18orf8	ENSG00000141452	ENST00000590868	protein_coding	NOVEL	None	24326	1830	609	21083483	21111740	1	None	MIC1, HsT2591
18	C18orf8	ENSG00000141452	ENST00000587690	nonsense_mediated_decay	KNOWN	None	24326	465	154	21083484	21095850	1	None	MIC1, HsT2591
18	C18orf8	ENSG00000141452	ENST00000589860	nonsense_mediated_decay	KNOWN	None	24326	201	66	21083495	21099130	1	None	MIC1, HsT2591
18	C18orf8	ENSG00000141452	ENST00000590870	nonsense_mediated_decay	KNOWN	None	24326	1002	333	21083497	21111707	1	None	MIC1, HsT2591
18	C18orf8	ENSG00000141452	ENST00000592119	protein_coding	PUTATIVE	None	24326	481	159	21083499	21089641	1	None	MIC1, HsT2591
18	C18orf8	ENSG00000141452	ENST00000590387	retained_intron	KNOWN	None	24326	None	None	21107838	21109446	1	None	MIC1, HsT2591
18	C18orf8	ENSG00000141452	ENST00000591367	processed_transcript	KNOWN	None	24326	None	None	21109302	21111746	1	None	MIC1, HsT2591
18	C18orf8	ENSG00000141452	ENST00000593081	retained_intron	KNOWN	None	24326	None	None	21109560	21111746	1	None	MIC1, HsT2591
18	C18orf8	ENSG00000141452	ENST00000592682	retained_intron	KNOWN	None	24326	None	None	21109929	21110500	1	None	MIC1, HsT2591
18	C18orf8	ENSG00000141452	ENST00000589409	retained_intron	KNOWN	None	24326	None	None	21109930	21111743	1	None	MIC1, HsT2591
20	CBLN4	ENSG00000054803	ENST00000064571	protein_coding	KNOWN	CCDS13448	16231	606	201	54572496	54580528	-1	CBLNL1	dJ885A10.1
13	CDC16	ENSG00000130177	ENST00000356221	protein_coding	KNOWN	CCDS9542	1720	1863	620	115000452	115038150	1	None	APC6, ANAPC6, CUT9
13	CDC16	ENSG00000130177	ENST00000375310	protein_coding	KNOWN	None	1720	1581	526	115000454	115038150	1	None	APC6, ANAPC6, CUT9
13	CDC16	ENSG00000130177	ENST00000494766	retained_intron	KNOWN	None	1720	None	None	115000493	115008150	1	None	APC6, ANAPC6, CUT9
13	CDC16	ENSG00000130177	ENST00000252457	protein_coding	KNOWN	None	1720	1860	619	115000536	115038150	1	None	APC6, ANAPC6, CUT9
13	CDC16	ENSG00000130177	ENST00000375308	protein_coding	KNOWN	None	1720	1581	526	115000536	115038150	1	None	APC6, ANAPC6, CUT9
13	CDC16	ENSG00000130177	ENST00000252458	protein_coding	KNOWN	None	1720	1428	475	115000556	115038198	1	None	APC6, ANAPC6, CUT9
13	CDC16	ENSG00000130177	ENST00000484907	retained_intron	KNOWN	None	1720	None	None	115010037	115028454	1	None	APC6, ANAPC6, CUT9
13	CDC16	ENSG00000130177	ENST00000494581	processed_transcript	KNOWN	None	1720	None	None	115011218	115012712	1	None	APC6, ANAPC6, CUT9
13	CDC16	ENSG00000130177	ENST00000461716	processed_transcript	KNOWN	None	1720	None	None	115029687	115037960	1	None	APC6, ANAPC6, CUT9
13	CDC16	ENSG00000130177	ENST00000360383	protein_coding	KNOWN	CCDS9542	1720	1863	620	115000362	115038150	1	None	APC6, ANAPC6, CUT9
13	CDC16	ENSG00000130177	ENST00000375312	protein_coding	KNOWN	None	1720	1428	475	115000362	115038150	1	None	APC6, ANAPC6, CUT9
15	C15orf60	ENSG00000183324	ENST00000331090	protein_coding	KNOWN	CCDS45296	25065	801	266	73735499	73852355	1	None	LOC283677, FLJ27520, FLJ36860, FLJ44083
15	C15orf60	ENSG00000183324	ENST00000560581	protein_coding	NOVEL	None	25065	717	238	73735505	73852351	1	None	LOC283677, FLJ27520, FLJ36860, FLJ44083
20	MC3R	ENSG00000124089	ENST00000243911	protein_coding	KNOWN	CCDS13449	6931	972	323	54823788	54824871	1	None	MC3
17	DVL2	ENSG00000004975	ENST00000005340	protein_coding	KNOWN	CCDS11091	3086	2211	736	7128660	7137864	-1	None	None
17	DVL2	ENSG00000004975	ENST00000575458	protein_coding	NOVEL	None	3086	2193	730	7128774	7137637	-1	None	None
17	DVL2	ENSG00000004975	ENST00000575086	protein_coding	NOVEL	None	3086	900	299	7129456	7132354	-1	None	None
17	DVL2	ENSG00000004975	ENST00000576840	retained_intron	KNOWN	None	3086	None	None	7129975	7131361	-1	None	None
17	DVL2	ENSG00000004975	ENST00000571745	retained_intron	KNOWN	None	3086	None	None	7130468	7131146	-1	None	None
17	DVL2	ENSG00000004975	ENST00000576285	retained_intron	KNOWN	None	3086	None	None	7130557	7131703	-1	None	None
17	DVL2	ENSG00000004975	ENST00000573354	retained_intron	KNOWN	None	3086	None	None	7131182	7132586	-1	None	None
17	DVL2	ENSG00000004975	ENST00000575756	protein_coding	NOVEL	None	3086	1090	362	7131296	7137627	-1	None	None
17	DVL2	ENSG00000004975	ENST00000574143	protein_coding	PUTATIVE	None	3086	874	290	7131326	7137380	-1	None	None
17	DVL2	ENSG00000004975	ENST00000574591	retained_intron	KNOWN	None	3086	None	None	7131919	7132725	-1	None	None
17	DVL2	ENSG00000004975	ENST00000577154	retained_intron	KNOWN	None	3086	None	None	7132081	7132710	-1	None	None
17	DVL2	ENSG00000004975	ENST00000574642	processed_transcript	KNOWN	None	3086	None	None	7132472	7133710	-1	None	None
17	DVL2	ENSG00000004975	ENST00000572285	retained_intron	KNOWN	None	3086	None	None	7132606	7137542	-1	None	None
17	DVL2	ENSG00000004975	ENST00000576439	retained_intron	KNOWN	None	3086	None	None	7132863	7134098	-1	None	None
17	DVL2	ENSG00000004975	ENST00000576949	retained_intron	KNOWN	None	3086	None	None	7133442	7137836	-1	None	None
20	FAM210B	ENSG00000124098	ENST00000371384	protein_coding	KNOWN	CCDS13450	16102	579	192	54933971	54943719	1	C20orf108	dJ1167H4.1, DKFZP434A1114
20	FAM210B	ENSG00000124098	ENST00000437418	protein_coding	PUTATIVE	None	16102	158	51	54934165	54935768	1	C20orf108	dJ1167H4.1, DKFZP434A1114
2	MDH1	ENSG00000014641	ENST00000485781	retained_intron	KNOWN	None	6970	None	None	63815743	63824791	1	None	None
2	MDH1	ENSG00000014641	ENST00000233114	protein_coding	KNOWN	CCDS1874	6970	1005	334	63815743	63834331	1	None	None
2	MDH1	ENSG00000014641	ENST00000409908	protein_coding	NOVEL	None	6970	510	169	63816092	63834225	1	None	None
2	MDH1	ENSG00000014641	ENST00000442225	protein_coding	PUTATIVE	None	6970	202	66	63816097	63822653	1	None	None
2	MDH1	ENSG00000014641	ENST00000409476	protein_coding	NOVEL	None	6970	633	210	63816107	63834225	1	None	None
2	MDH1	ENSG00000014641	ENST00000485155	retained_intron	KNOWN	None	6970	None	None	63816113	63822124	1	None	None
2	MDH1	ENSG00000014641	ENST00000436321	protein_coding	PUTATIVE	None	6970	359	118	63816116	63826422	1	None	None
2	MDH1	ENSG00000014641	ENST00000462944	processed_transcript	KNOWN	None	6970	None	None	63816119	63818108	1	None	None
2	MDH1	ENSG00000014641	ENST00000454035	protein_coding	PUTATIVE	None	6970	342	113	63816131	63824672	1	None	None
2	MDH1	ENSG00000014641	ENST00000472098	retained_intron	KNOWN	None	6970	None	None	63816132	63825320	1	None	None
2	MDH1	ENSG00000014641	ENST00000432309	protein_coding	PUTATIVE	None	6970	667	221	63816285	63831944	1	None	None
2	MDH1	ENSG00000014641	ENST00000421012	nonsense_mediated_decay	KNOWN	None	6970	264	87	63816459	63831944	1	None	None
2	MDH1	ENSG00000014641	ENST00000484538	retained_intron	KNOWN	None	6970	None	None	63824682	63827186	1	None	None
2	MDH1	ENSG00000014641	ENST00000495083	retained_intron	KNOWN	None	6970	None	None	63832944	63834328	1	None	None
2	MDH1	ENSG00000014641	ENST00000539945	protein_coding	KNOWN	CCDS56121	6970	1059	352	63816367	63834307	1	None	None
2	MDH1	ENSG00000014641	ENST00000394423	protein_coding	KNOWN	None	6970	1005	334	63821434	63834328	1	None	None
2	MDH1	ENSG00000014641	ENST00000544381	protein_coding	KNOWN	CCDS56122	6970	738	245	63816459	63834328	1	None	None
2	METTL8	ENSG00000123600	ENST00000447486	nonsense_mediated_decay	KNOWN	None	25856	726	241	172179761	172290619	-1	None	FLJ13984, TIP
2	METTL8	ENSG00000123600	ENST00000375258	protein_coding	PUTATIVE	None	25856	1137	378	172180297	172290596	-1	None	FLJ13984, TIP
2	METTL8	ENSG00000123600	ENST00000483284	retained_intron	KNOWN	None	25856	None	None	172180298	172189305	-1	None	FLJ13984, TIP
2	METTL8	ENSG00000123600	ENST00000463392	processed_transcript	KNOWN	None	25856	None	None	172180411	172183575	-1	None	FLJ13984, TIP
2	METTL8	ENSG00000123600	ENST00000438609	protein_coding	PUTATIVE	None	25856	643	213	172180431	172195766	-1	None	FLJ13984, TIP
2	METTL8	ENSG00000123600	ENST00000392604	nonsense_mediated_decay	KNOWN	None	25856	876	291	172180443	172290597	-1	None	FLJ13984, TIP
2	METTL8	ENSG00000123600	ENST00000477130	processed_transcript	KNOWN	None	25856	None	None	172180508	172195723	-1	None	FLJ13984, TIP
2	METTL8	ENSG00000123600	ENST00000464491	retained_intron	KNOWN	None	25856	None	None	172180535	172182891	-1	None	FLJ13984, TIP
2	METTL8	ENSG00000123600	ENST00000470773	retained_intron	KNOWN	None	25856	None	None	172180611	172182663	-1	None	FLJ13984, TIP
2	METTL8	ENSG00000123600	ENST00000460188	processed_transcript	KNOWN	None	25856	None	None	172180753	172291298	-1	None	FLJ13984, TIP
2	METTL8	ENSG00000123600	ENST00000392599	protein_coding	PUTATIVE	None	25856	680	225	172187135	172290528	-1	None	FLJ13984, TIP
2	METTL8	ENSG00000123600	ENST00000460539	processed_transcript	KNOWN	None	25856	None	None	172188318	172289626	-1	None	FLJ13984, TIP
2	METTL8	ENSG00000123600	ENST00000462821	processed_transcript	KNOWN	None	25856	None	None	172193982	172291312	-1	None	FLJ13984, TIP
2	METTL8	ENSG00000123600	ENST00000442778	protein_coding	PUTATIVE	None	25856	459	152	172195841	172291290	-1	None	FLJ13984, TIP
2	METTL8	ENSG00000123600	ENST00000453846	protein_coding	KNOWN	None	25856	315	104	172195985	172291290	-1	None	FLJ13984, TIP
2	METTL8	ENSG00000123600	ENST00000442541	protein_coding	PUTATIVE	None	25856	249	82	172196051	172290500	-1	None	FLJ13984, TIP
16	TERF2IP	ENSG00000166848	ENST00000300086	protein_coding	PUTATIVE	CCDS32491	19246	1200	399	75681684	75691330	1	None	RAP1
16	TERF2IP	ENSG00000166848	ENST00000569234	nonsense_mediated_decay	KNOWN	None	19246	300	99	75682294	75690331	1	None	RAP1
16	TERF2IP	ENSG00000166848	ENST00000564671	protein_coding	PUTATIVE	None	19246	369	122	75690105	75795051	1	None	RAP1
12	TMCC3	ENSG00000057704	ENST00000261226	protein_coding	KNOWN	CCDS31877	29199	1434	477	94960900	95044338	-1	None	KIAA1145
12	TMCC3	ENSG00000057704	ENST00000551457	protein_coding	PUTATIVE	None	29199	1341	446	94962345	95009837	-1	None	KIAA1145
12	TMCC3	ENSG00000057704	ENST00000548918	protein_coding	PUTATIVE	None	29199	397	131	94975903	95010196	-1	None	KIAA1145
12	TMCC3	ENSG00000057704	ENST00000552239	processed_transcript	PUTATIVE	None	29199	None	None	95003565	95009927	-1	None	KIAA1145
19	CACNA1A	ENSG00000141837	ENST00000360228	protein_coding	KNOWN	CCDS45998	1388	7521	2506	13317256	13617038	-1	CACNL1A4, SCA6, MHP1, MHP	Cav2.1, EA2, APCA, HPCA, FHM
19	CACNA1A	ENSG00000141837	ENST00000587525	protein_coding	PUTATIVE	None	1388	2946	981	13317308	13368214	-1	CACNL1A4, SCA6, MHP1, MHP	Cav2.1, EA2, APCA, HPCA, FHM
19	CACNA1A	ENSG00000141837	ENST00000585802	protein_coding	PUTATIVE	None	1388	3543	1180	13318115	13386710	-1	CACNL1A4, SCA6, MHP1, MHP	Cav2.1, EA2, APCA, HPCA, FHM
19	CACNA1A	ENSG00000141837	ENST00000573710	protein_coding	KNOWN	CCDS45999	1388	6786	2261	13318115	13617317	-1	CACNL1A4, SCA6, MHP1, MHP	Cav2.1, EA2, APCA, HPCA, FHM
19	CACNA1A	ENSG00000141837	ENST00000586190	retained_intron	KNOWN	None	1388	None	None	13325254	13335770	-1	CACNL1A4, SCA6, MHP1, MHP	Cav2.1, EA2, APCA, HPCA, FHM
19	CACNA1A	ENSG00000141837	ENST00000574822	processed_transcript	KNOWN	None	1388	None	None	13339894	13363894	-1	CACNL1A4, SCA6, MHP1, MHP	Cav2.1, EA2, APCA, HPCA, FHM
19	CACNA1A	ENSG00000141837	ENST00000573891	nonsense_mediated_decay	KNOWN	None	1388	238	78	13342524	13365912	-1	CACNL1A4, SCA6, MHP1, MHP	Cav2.1, EA2, APCA, HPCA, FHM
19	CACNA1A	ENSG00000141837	ENST00000593267	retained_intron	KNOWN	None	1388	None	None	13345637	13346699	-1	CACNL1A4, SCA6, MHP1, MHP	Cav2.1, EA2, APCA, HPCA, FHM
19	CACNA1A	ENSG00000141837	ENST00000590205	retained_intron	KNOWN	None	1388	None	None	13372278	13373715	-1	CACNL1A4, SCA6, MHP1, MHP	Cav2.1, EA2, APCA, HPCA, FHM
19	CACNA1A	ENSG00000141837	ENST00000593160	retained_intron	KNOWN	None	1388	None	None	13444869	13476134	-1	CACNL1A4, SCA6, MHP1, MHP	Cav2.1, EA2, APCA, HPCA, FHM
19	CACNA1A	ENSG00000141837	ENST00000574974	protein_coding	PUTATIVE	None	1388	309	102	13482575	13734804	-1	CACNL1A4, SCA6, MHP1, MHP	Cav2.1, EA2, APCA, HPCA, FHM
19	CACNA1A	ENSG00000141837	ENST00000587451	protein_coding	PUTATIVE	None	1388	27	8	13629789	13631071	-1	CACNL1A4, SCA6, MHP1, MHP	Cav2.1, EA2, APCA, HPCA, FHM
19	CACNA1A	ENSG00000141837	ENST00000592864	protein_coding	PUTATIVE	None	1388	108	35	13629789	13710781	-1	CACNL1A4, SCA6, MHP1, MHP	Cav2.1, EA2, APCA, HPCA, FHM
15	FAM227B	ENSG00000166262	ENST00000559573	protein_coding	PUTATIVE	None	26543	458	151	49619159	49688639	-1	C15orf33	FLJ32800
15	FAM227B	ENSG00000166262	ENST00000299338	protein_coding	KNOWN	CCDS32237	26543	1527	508	49620588	49913128	-1	C15orf33	FLJ32800
15	FAM227B	ENSG00000166262	ENST00000560557	processed_transcript	PUTATIVE	None	26543	None	None	49620590	49626499	-1	C15orf33	FLJ32800
15	FAM227B	ENSG00000166262	ENST00000561064	protein_coding	KNOWN	None	26543	915	304	49714597	49913126	-1	C15orf33	FLJ32800
15	FAM227B	ENSG00000166262	ENST00000559351	processed_transcript	PUTATIVE	None	26543	None	None	49781258	49800491	-1	C15orf33	FLJ32800
15	FAM227B	ENSG00000166262	ENST00000561319	retained_intron	KNOWN	None	26543	None	None	49866935	49907368	-1	C15orf33	FLJ32800
15	FAM227B	ENSG00000166262	ENST00000558615	retained_intron	KNOWN	None	26543	None	None	49867058	49913019	-1	C15orf33	FLJ32800
15	FAM227B	ENSG00000166262	ENST00000558579	protein_coding	PUTATIVE	None	26543	404	133	49868333	49882140	-1	C15orf33	FLJ32800
15	FAM227B	ENSG00000166262	ENST00000558594	protein_coding	PUTATIVE	None	26543	501	166	49868691	49913015	-1	C15orf33	FLJ32800
15	FAM227B	ENSG00000166262	ENST00000561116	nonsense_mediated_decay	KNOWN	None	26543	144	47	49868757	49907435	-1	C15orf33	FLJ32800
15	FAM227B	ENSG00000166262	ENST00000559905	protein_coding	KNOWN	None	26543	546	181	49868938	49912944	-1	C15orf33	FLJ32800
15	FAM227B	ENSG00000166262	ENST00000560246	protein_coding	PUTATIVE	None	26543	537	178	49868958	49913006	-1	C15orf33	FLJ32800
15	FAM227B	ENSG00000166262	ENST00000558862	processed_transcript	KNOWN	None	26543	None	None	49881971	49913094	-1	C15orf33	FLJ32800
15	FAM227B	ENSG00000166262	ENST00000557892	retained_intron	KNOWN	None	26543	None	None	49906989	49913013	-1	C15orf33	FLJ32800
9	EHMT1	ENSG00000181090	ENST00000462484	protein_coding	NOVEL	CCDS56595	24650	2427	808	140513444	140678845	1	None	Eu-HMTase1, FLJ12879, KIAA1876, bA188C12.1, KMT1D
9	EHMT1	ENSG00000181090	ENST00000460843	protein_coding	KNOWN	CCDS7050	24650	3897	1298	140513454	140730576	1	None	Eu-HMTase1, FLJ12879, KIAA1876, bA188C12.1, KMT1D
9	EHMT1	ENSG00000181090	ENST00000371394	processed_transcript	KNOWN	None	24650	None	None	140513465	140686705	1	None	Eu-HMTase1, FLJ12879, KIAA1876, bA188C12.1, KMT1D
9	EHMT1	ENSG00000181090	ENST00000492232	processed_transcript	KNOWN	None	24650	None	None	140561459	140611502	1	None	Eu-HMTase1, FLJ12879, KIAA1876, bA188C12.1, KMT1D
9	EHMT1	ENSG00000181090	ENST00000460486	processed_transcript	KNOWN	None	24650	None	None	140561802	140611631	1	None	Eu-HMTase1, FLJ12879, KIAA1876, bA188C12.1, KMT1D
9	EHMT1	ENSG00000181090	ENST00000495657	processed_transcript	KNOWN	None	24650	None	None	140611547	140638471	1	None	Eu-HMTase1, FLJ12879, KIAA1876, bA188C12.1, KMT1D
9	EHMT1	ENSG00000181090	ENST00000478940	processed_transcript	KNOWN	None	24650	None	None	140637418	140640054	1	None	Eu-HMTase1, FLJ12879, KIAA1876, bA188C12.1, KMT1D
9	EHMT1	ENSG00000181090	ENST00000462942	nonsense_mediated_decay	KNOWN	None	24650	2412	803	140638516	140764468	1	None	Eu-HMTase1, FLJ12879, KIAA1876, bA188C12.1, KMT1D
9	EHMT1	ENSG00000181090	ENST00000465566	processed_transcript	KNOWN	None	24650	None	None	140648683	140671233	1	None	Eu-HMTase1, FLJ12879, KIAA1876, bA188C12.1, KMT1D
9	EHMT1	ENSG00000181090	ENST00000493484	processed_transcript	KNOWN	None	24650	None	None	140683216	140697174	1	None	Eu-HMTase1, FLJ12879, KIAA1876, bA188C12.1, KMT1D
9	EHMT1	ENSG00000181090	ENST00000482340	processed_transcript	KNOWN	None	24650	None	None	140685285	140697651	1	None	Eu-HMTase1, FLJ12879, KIAA1876, bA188C12.1, KMT1D
9	EHMT1	ENSG00000181090	ENST00000486164	processed_transcript	KNOWN	None	24650	None	None	140685340	140707896	1	None	Eu-HMTase1, FLJ12879, KIAA1876, bA188C12.1, KMT1D
9	EHMT1	ENSG00000181090	ENST00000488242	processed_transcript	KNOWN	None	24650	None	None	140694895	140708961	1	None	Eu-HMTase1, FLJ12879, KIAA1876, bA188C12.1, KMT1D
9	EHMT1	ENSG00000181090	ENST00000483653	retained_intron	KNOWN	None	24650	None	None	140707943	140709279	1	None	Eu-HMTase1, FLJ12879, KIAA1876, bA188C12.1, KMT1D
9	EHMT1	ENSG00000181090	ENST00000494249	retained_intron	KNOWN	None	24650	None	None	140709788	140730193	1	None	Eu-HMTase1, FLJ12879, KIAA1876, bA188C12.1, KMT1D
9	EHMT1	ENSG00000181090	ENST00000475564	retained_intron	KNOWN	None	24650	None	None	140710793	140730569	1	None	Eu-HMTase1, FLJ12879, KIAA1876, bA188C12.1, KMT1D
9	EHMT1	ENSG00000181090	ENST00000472849	processed_transcript	KNOWN	None	24650	None	None	140727084	140729444	1	None	Eu-HMTase1, FLJ12879, KIAA1876, bA188C12.1, KMT1D
9	EHMT1	ENSG00000181090	ENST00000475704	retained_intron	KNOWN	None	24650	None	None	140728531	140729469	1	None	Eu-HMTase1, FLJ12879, KIAA1876, bA188C12.1, KMT1D
9	EHMT1	ENSG00000181090	ENST00000334856	protein_coding	KNOWN	None	24650	2478	825	140513444	140686572	1	None	Eu-HMTase1, FLJ12879, KIAA1876, bA188C12.1, KMT1D
5	None	ENSG00000250921	ENST00000503415	lincRNA	KNOWN	None	None	None	None	4135795	4143761	1	None	None
9	CRAT	ENSG00000095321	ENST00000318080	protein_coding	KNOWN	CCDS6919	2342	1881	626	131857089	131873083	-1	None	CAT1
9	CRAT	ENSG00000095321	ENST00000455396	protein_coding	NOVEL	None	2342	604	200	131857485	131860650	-1	None	CAT1
9	CRAT	ENSG00000095321	ENST00000458362	nonsense_mediated_decay	KNOWN	None	2342	123	40	131857676	131873061	-1	None	CAT1
9	CRAT	ENSG00000095321	ENST00000467343	processed_transcript	KNOWN	None	2342	None	None	131857735	131860315	-1	None	CAT1
9	CRAT	ENSG00000095321	ENST00000464290	processed_transcript	KNOWN	None	2342	None	None	131864186	131873468	-1	None	CAT1
9	CRAT	ENSG00000095321	ENST00000415948	nonsense_mediated_decay	KNOWN	None	2342	95	30	131864721	131871555	-1	None	CAT1
9	CRAT	ENSG00000095321	ENST00000441796	nonsense_mediated_decay	KNOWN	None	2342	123	40	131866476	131873048	-1	None	CAT1
9	CRAT	ENSG00000095321	ENST00000393384	protein_coding	PUTATIVE	None	2342	486	161	131869613	131872990	-1	None	CAT1
9	CRAT	ENSG00000095321	ENST00000455830	protein_coding	NOVEL	None	2342	294	97	131870093	131872951	-1	None	CAT1
16	IL17C	ENSG00000124391	ENST00000569133	retained_intron	KNOWN	None	5983	None	None	88704999	88706530	1	None	IL-17C, CX2, IL-21, MGC126884, MGC138401
16	IL17C	ENSG00000124391	ENST00000244241	protein_coding	KNOWN	CCDS42217	5983	594	197	88705001	88706881	1	None	IL-17C, CX2, IL-21, MGC126884, MGC138401
1	ANKRD35	ENSG00000198483	ENST00000355594	protein_coding	KNOWN	CCDS919	26323	3006	1001	145549230	145568526	1	None	FLJ25124
1	ANKRD35	ENSG00000198483	ENST00000544626	protein_coding	KNOWN	None	26323	414	137	145549244	145561166	1	None	FLJ25124
5	None	ENSG00000260763	ENST00000562127	lincRNA	KNOWN	None	None	None	None	4436963	4440372	-1	None	None
HSCHR6_MHC_MANN	APOM	ENSG00000231974	ENST00000440956	protein_coding	KNOWN	None	13916	390	129	31659685	31665351	1	None	ApoM, G3a, NG20
HSCHR6_MHC_MANN	APOM	ENSG00000231974	ENST00000443975	protein_coding	KNOWN	None	13916	351	116	31659686	31665479	1	None	ApoM, G3a, NG20
HSCHR6_MHC_MANN	APOM	ENSG00000231974	ENST00000436931	protein_coding	KNOWN	None	13916	567	188	31663163	31665479	1	None	ApoM, G3a, NG20
5	None	ENSG00000248973	ENST00000507435	lincRNA	KNOWN	None	None	None	None	4452043	4866334	-1	None	None
5	None	ENSG00000231291	ENST00000503188	lincRNA	KNOWN	None	None	None	None	4512375	4516889	1	None	None
5	None	ENSG00000251371	ENST00000513925	lincRNA	KNOWN	None	None	None	None	4640844	4648367	1	None	None
20	None	ENSG00000268628	ENST00000598007	protein_coding	KNOWN	None	None	384	127	19738296	19738679	-1	None	None
5	None	ENSG00000249521	ENST00000503757	lincRNA	KNOWN	None	None	None	None	4773594	4774978	1	None	None
21	PWP2	ENSG00000241945	ENST00000291576	protein_coding	KNOWN	CCDS33579	9711	2760	919	45527171	45551063	1	PWP2H	EHOC-17, UTP1
21	PWP2	ENSG00000241945	ENST00000456705	protein_coding	PUTATIVE	None	9711	560	185	45527254	45535625	1	PWP2H	EHOC-17, UTP1
21	PWP2	ENSG00000241945	ENST00000486126	processed_transcript	PUTATIVE	None	9711	None	None	45534457	45537724	1	PWP2H	EHOC-17, UTP1
21	PWP2	ENSG00000241945	ENST00000471490	retained_intron	KNOWN	None	9711	None	None	45539040	45547736	1	PWP2H	EHOC-17, UTP1
21	PWP2	ENSG00000241945	ENST00000494310	processed_transcript	KNOWN	None	9711	None	None	45545892	45548480	1	PWP2H	EHOC-17, UTP1
21	PWP2	ENSG00000241945	ENST00000476948	retained_intron	KNOWN	None	9711	None	None	45547680	45548532	1	PWP2H	EHOC-17, UTP1
7	None	ENSG00000236669	ENST00000444154	protein_coding	KNOWN	None	None	492	163	157318477	157320019	1	None	None
3	MYLK	ENSG00000065534	ENST00000360772	protein_coding	KNOWN	CCDS3023	7590	5592	1863	123328896	123603178	-1	None	MLCK, smMLCK, MYLK1, MLCK1
3	MYLK	ENSG00000065534	ENST00000418370	protein_coding	KNOWN	CCDS46897	7590	465	154	123331157	123344163	-1	None	MLCK, smMLCK, MYLK1, MLCK1
3	MYLK	ENSG00000065534	ENST00000578202	protein_coding	NOVEL	CCDS58849	7590	462	153	123332187	123339361	-1	None	MLCK, smMLCK, MYLK1, MLCK1
3	MYLK	ENSG00000065534	ENST00000464489	nonsense_mediated_decay	KNOWN	None	7590	213	70	123332876	123603155	-1	None	MLCK, smMLCK, MYLK1, MLCK1
3	MYLK	ENSG00000065534	ENST00000346322	protein_coding	KNOWN	CCDS43141	7590	5538	1845	123332892	123603161	-1	None	MLCK, smMLCK, MYLK1, MLCK1
3	MYLK	ENSG00000065534	ENST00000583087	protein_coding	KNOWN	CCDS46897	7590	465	154	123332911	123339473	-1	None	MLCK, smMLCK, MYLK1, MLCK1
3	MYLK	ENSG00000065534	ENST00000475616	protein_coding	KNOWN	CCDS46896	7590	5745	1914	123332952	123512688	-1	None	MLCK, smMLCK, MYLK1, MLCK1
3	MYLK	ENSG00000065534	ENST00000515434	retained_intron	KNOWN	None	7590	None	None	123335199	123342925	-1	None	MLCK, smMLCK, MYLK1, MLCK1
3	MYLK	ENSG00000065534	ENST00000514895	processed_transcript	KNOWN	None	7590	None	None	123359226	123367911	-1	None	MLCK, smMLCK, MYLK1, MLCK1
3	MYLK	ENSG00000065534	ENST00000513111	retained_intron	KNOWN	None	7590	None	None	123365807	123368041	-1	None	MLCK, smMLCK, MYLK1, MLCK1
3	MYLK	ENSG00000065534	ENST00000508240	protein_coding	PUTATIVE	None	7590	688	228	123375973	123411226	-1	None	MLCK, smMLCK, MYLK1, MLCK1
3	MYLK	ENSG00000065534	ENST00000510775	processed_transcript	KNOWN	None	7590	None	None	123385090	123417821	-1	None	MLCK, smMLCK, MYLK1, MLCK1
3	MYLK	ENSG00000065534	ENST00000511058	retained_intron	KNOWN	None	7590	None	None	123385766	123401157	-1	None	MLCK, smMLCK, MYLK1, MLCK1
3	MYLK	ENSG00000065534	ENST00000504946	retained_intron	KNOWN	None	7590	None	None	123399877	123420304	-1	None	MLCK, smMLCK, MYLK1, MLCK1
3	MYLK	ENSG00000065534	ENST00000503644	processed_transcript	KNOWN	None	7590	None	None	123411582	123412462	-1	None	MLCK, smMLCK, MYLK1, MLCK1
3	MYLK	ENSG00000065534	ENST00000514623	retained_intron	KNOWN	None	7590	None	None	123428005	123454617	-1	None	MLCK, smMLCK, MYLK1, MLCK1
3	MYLK	ENSG00000065534	ENST00000506361	retained_intron	KNOWN	None	7590	None	None	123456088	123519035	-1	None	MLCK, smMLCK, MYLK1, MLCK1
3	MYLK	ENSG00000065534	ENST00000510571	retained_intron	KNOWN	None	7590	None	None	123457811	123512734	-1	None	MLCK, smMLCK, MYLK1, MLCK1
3	MYLK	ENSG00000065534	ENST00000360304	protein_coding	KNOWN	CCDS46896	7590	5745	1914	123331145	123603149	-1	None	MLCK, smMLCK, MYLK1, MLCK1
3	MYLK	ENSG00000065534	ENST00000359169	protein_coding	KNOWN	CCDS3023	7590	5592	1863	123331145	123603149	-1	None	MLCK, smMLCK, MYLK1, MLCK1
3	MYLK	ENSG00000065534	ENST00000354792	protein_coding	KNOWN	None	7590	2145	714	123332892	123411226	-1	None	MLCK, smMLCK, MYLK1, MLCK1
6	CCHCR1	ENSG00000204536	ENST00000396268	protein_coding	KNOWN	CCDS43445	13930	2616	871	31110216	31125566	-1	C6orf18	HCR
6	CCHCR1	ENSG00000204536	ENST00000376266	protein_coding	KNOWN	CCDS4695	13930	2349	782	31110216	31126015	-1	C6orf18	HCR
6	CCHCR1	ENSG00000204536	ENST00000396263	protein_coding	NOVEL	None	13930	2190	729	31110221	31125978	-1	C6orf18	HCR
6	CCHCR1	ENSG00000204536	ENST00000451521	protein_coding	KNOWN	CCDS47397	13930	2508	835	31110297	31125384	-1	C6orf18	HCR
6	CCHCR1	ENSG00000204536	ENST00000467553	retained_intron	KNOWN	None	13930	None	None	31110837	31113236	-1	C6orf18	HCR
6	CCHCR1	ENSG00000204536	ENST00000486060	retained_intron	KNOWN	None	13930	None	None	31110873	31112892	-1	C6orf18	HCR
6	CCHCR1	ENSG00000204536	ENST00000509552	retained_intron	KNOWN	None	13930	None	None	31112297	31125971	-1	C6orf18	HCR
6	CCHCR1	ENSG00000204536	ENST00000480060	processed_transcript	KNOWN	None	13930	None	None	31116937	31125968	-1	C6orf18	HCR
6	CCHCR1	ENSG00000204536	ENST00000512418	nonsense_mediated_decay	KNOWN	None	13930	135	44	31118279	31125971	-1	C6orf18	HCR
6	CCHCR1	ENSG00000204536	ENST00000508852	nonsense_mediated_decay	KNOWN	None	13930	243	80	31118522	31125971	-1	C6orf18	HCR
6	CCHCR1	ENSG00000204536	ENST00000507459	nonsense_mediated_decay	KNOWN	None	13930	243	80	31118525	31125971	-1	C6orf18	HCR
6	CCHCR1	ENSG00000204536	ENST00000464012	retained_intron	KNOWN	None	13930	None	None	31118644	31122528	-1	C6orf18	HCR
6	CCHCR1	ENSG00000204536	ENST00000505392	retained_intron	KNOWN	None	13930	None	None	31118662	31125971	-1	C6orf18	HCR
6	CCHCR1	ENSG00000204536	ENST00000448141	protein_coding	NOVEL	None	13930	574	190	31118752	31125986	-1	C6orf18	HCR
6	CCHCR1	ENSG00000204536	ENST00000508683	protein_coding	NOVEL	None	13930	479	158	31118847	31125980	-1	C6orf18	HCR
6	CCHCR1	ENSG00000204536	ENST00000448162	protein_coding	KNOWN	None	13930	565	187	31118869	31125858	-1	C6orf18	HCR
6	CCHCR1	ENSG00000204536	ENST00000513222	protein_coding	PUTATIVE	None	13930	421	139	31122308	31125971	-1	C6orf18	HCR
6	CCHCR1	ENSG00000204536	ENST00000503420	protein_coding	NOVEL	None	13930	379	125	31122320	31125937	-1	C6orf18	HCR
6	CCHCR1	ENSG00000204536	ENST00000507751	protein_coding	KNOWN	None	13930	474	157	31122333	31125850	-1	C6orf18	HCR
6	CCHCR1	ENSG00000204536	ENST00000455279	protein_coding	KNOWN	None	13930	458	151	31122349	31125994	-1	C6orf18	HCR
6	CCHCR1	ENSG00000204536	ENST00000503934	protein_coding	NOVEL	None	13930	419	138	31122388	31125971	-1	C6orf18	HCR
6	CCHCR1	ENSG00000204536	ENST00000426967	protein_coding	NOVEL	None	13930	650	215	31122451	31125565	-1	C6orf18	HCR
6	CCHCR1	ENSG00000204536	ENST00000502557	protein_coding	KNOWN	None	13930	356	117	31122451	31125916	-1	C6orf18	HCR
6	CCHCR1	ENSG00000204536	ENST00000507829	protein_coding	KNOWN	None	13930	347	114	31122460	31125991	-1	C6orf18	HCR
6	CCHCR1	ENSG00000204536	ENST00000428174	protein_coding	NOVEL	None	13930	380	125	31122505	31125982	-1	C6orf18	HCR
6	CCHCR1	ENSG00000204536	ENST00000507226	protein_coding	KNOWN	None	13930	288	95	31122519	31125966	-1	C6orf18	HCR
6	CCHCR1	ENSG00000204536	ENST00000475684	retained_intron	KNOWN	None	13930	None	None	31124009	31125949	-1	C6orf18	HCR
6	CCHCR1	ENSG00000204536	ENST00000488920	nonsense_mediated_decay	KNOWN	None	13930	243	80	31124528	31125549	-1	C6orf18	HCR
6	CCHCR1	ENSG00000204536	ENST00000507892	protein_coding	KNOWN	None	13930	123	40	31124615	31125937	-1	C6orf18	HCR
6	CCHCR1	ENSG00000204536	ENST00000506831	protein_coding	KNOWN	None	13930	108	35	31124630	31125568	-1	C6orf18	HCR
X	ZC4H2	ENSG00000126970	ENST00000374839	protein_coding	KNOWN	CCDS14380	24931	675	224	64136261	64196364	-1	KIAA1166, WWS	HCA127
X	ZC4H2	ENSG00000126970	ENST00000337990	protein_coding	KNOWN	CCDS55431	24931	606	201	64136262	64254593	-1	KIAA1166, WWS	HCA127
X	ZC4H2	ENSG00000126970	ENST00000488608	processed_transcript	KNOWN	None	24931	None	None	64136368	64196413	-1	KIAA1166, WWS	HCA127
X	ZC4H2	ENSG00000126970	ENST00000488406	processed_transcript	KNOWN	None	24931	None	None	64137280	64140007	-1	KIAA1166, WWS	HCA127
X	ZC4H2	ENSG00000126970	ENST00000492653	processed_transcript	KNOWN	None	24931	None	None	64137660	64196353	-1	KIAA1166, WWS	HCA127
X	ZC4H2	ENSG00000126970	ENST00000488831	processed_transcript	KNOWN	None	24931	None	None	64137720	64254549	-1	KIAA1166, WWS	HCA127
X	ZC4H2	ENSG00000126970	ENST00000476032	processed_transcript	KNOWN	None	24931	None	None	64137738	64196243	-1	KIAA1166, WWS	HCA127
X	ZC4H2	ENSG00000126970	ENST00000447788	protein_coding	KNOWN	CCDS55432	24931	531	176	64136250	64196413	-1	KIAA1166, WWS	HCA127
X	ZC4H2	ENSG00000126970	ENST00000545618	protein_coding	KNOWN	None	24931	660	219	64136250	64196328	-1	KIAA1166, WWS	HCA127
20	RIN2	ENSG00000132669	ENST00000255006	protein_coding	KNOWN	CCDS56182	18750	2835	944	19867165	19983101	1	None	RASSF4
20	RIN2	ENSG00000132669	ENST00000459721	processed_transcript	KNOWN	None	18750	None	None	19870019	19937451	1	None	RASSF4
20	RIN2	ENSG00000132669	ENST00000467569	processed_transcript	KNOWN	None	18750	None	None	19870031	19951573	1	None	RASSF4
20	RIN2	ENSG00000132669	ENST00000488077	processed_transcript	KNOWN	None	18750	None	None	19870054	19916194	1	None	RASSF4
20	RIN2	ENSG00000132669	ENST00000465815	processed_transcript	KNOWN	None	18750	None	None	19870210	19876591	1	None	RASSF4
20	RIN2	ENSG00000132669	ENST00000484638	processed_transcript	KNOWN	None	18750	None	None	19915769	19983101	1	None	RASSF4
20	RIN2	ENSG00000132669	ENST00000440354	protein_coding	KNOWN	None	18750	1389	462	19870210	19981992	1	None	RASSF4
16	CYBA	ENSG00000051523	ENST00000261623	protein_coding	KNOWN	CCDS32504	2577	588	195	88709691	88717560	-1	None	p22-PHOX
16	CYBA	ENSG00000051523	ENST00000565588	protein_coding	PUTATIVE	None	2577	221	72	88709922	88713233	-1	None	p22-PHOX
16	CYBA	ENSG00000051523	ENST00000566534	retained_intron	KNOWN	None	2577	None	None	88709922	88717443	-1	None	p22-PHOX
16	CYBA	ENSG00000051523	ENST00000566229	protein_coding	PUTATIVE	None	2577	390	129	88709948	88716722	-1	None	p22-PHOX
16	CYBA	ENSG00000051523	ENST00000567174	protein_coding	PUTATIVE	None	2577	633	210	88711150	88717449	-1	None	p22-PHOX
16	CYBA	ENSG00000051523	ENST00000569359	protein_coding	PUTATIVE	None	2577	387	128	88711495	88717438	-1	None	p22-PHOX
16	CYBA	ENSG00000051523	ENST00000563526	retained_intron	KNOWN	None	2577	None	None	88712373	88717396	-1	None	p22-PHOX
16	CYBA	ENSG00000051523	ENST00000568278	protein_coding	NOVEL	None	2577	437	144	88712540	88717423	-1	None	p22-PHOX
16	CYBA	ENSG00000051523	ENST00000562209	retained_intron	KNOWN	None	2577	None	None	88712549	88717439	-1	None	p22-PHOX
16	CYBA	ENSG00000051523	ENST00000561972	processed_transcript	KNOWN	None	2577	None	None	88714101	88717462	-1	None	p22-PHOX
2	DCAF17	ENSG00000115827	ENST00000468592	processed_transcript	KNOWN	None	25784	None	None	172290727	172338668	1	C2orf37	FLJ13096
2	DCAF17	ENSG00000115827	ENST00000375255	protein_coding	KNOWN	CCDS2243	25784	1563	520	172290761	172341562	1	C2orf37	FLJ13096
2	DCAF17	ENSG00000115827	ENST00000495925	processed_transcript	KNOWN	None	25784	None	None	172291167	172306435	1	C2orf37	FLJ13096
2	DCAF17	ENSG00000115827	ENST00000436317	nonsense_mediated_decay	KNOWN	None	25784	385	127	172291174	172314579	1	C2orf37	FLJ13096
2	DCAF17	ENSG00000115827	ENST00000490217	processed_transcript	KNOWN	None	25784	None	None	172291212	172306468	1	C2orf37	FLJ13096
2	DCAF17	ENSG00000115827	ENST00000480855	retained_intron	KNOWN	None	25784	None	None	172299647	172306585	1	C2orf37	FLJ13096
2	DCAF17	ENSG00000115827	ENST00000339506	protein_coding	NOVEL	None	25784	815	270	172309634	172337677	1	C2orf37	FLJ13096
2	DCAF17	ENSG00000115827	ENST00000493106	retained_intron	KNOWN	None	25784	None	None	172325487	172330894	1	C2orf37	FLJ13096
2	DCAF17	ENSG00000115827	ENST00000431110	protein_coding	NOVEL	None	25784	668	221	172329380	172337789	1	C2orf37	FLJ13096
2	DCAF17	ENSG00000115827	ENST00000498486	retained_intron	KNOWN	None	25784	None	None	172336166	172337642	1	C2orf37	FLJ13096
2	DCAF17	ENSG00000115827	ENST00000539783	protein_coding	KNOWN	CCDS54419	25784	1362	453	172290761	172341558	1	C2orf37	FLJ13096
1	PIAS3	ENSG00000131788	ENST00000393046	protein_coding	PUTATIVE	None	16861	777	258	145575233	145580322	1	None	FLJ14651, ZMIZ5
1	PIAS3	ENSG00000131788	ENST00000463514	protein_coding	PUTATIVE	None	16861	276	91	145575324	145578307	1	None	FLJ14651, ZMIZ5
1	PIAS3	ENSG00000131788	ENST00000393045	protein_coding	KNOWN	CCDS920	16861	1887	628	145575989	145586546	1	None	FLJ14651, ZMIZ5
1	PIAS3	ENSG00000131788	ENST00000369298	protein_coding	NOVEL	None	16861	1782	593	145576024	145586546	1	None	FLJ14651, ZMIZ5
1	PIAS3	ENSG00000131788	ENST00000484423	retained_intron	KNOWN	None	16861	None	None	145576034	145579288	1	None	FLJ14651, ZMIZ5
1	PIAS3	ENSG00000131788	ENST00000498436	retained_intron	KNOWN	None	16861	None	None	145578322	145580458	1	None	FLJ14651, ZMIZ5
1	PIAS3	ENSG00000131788	ENST00000475261	retained_intron	KNOWN	None	16861	None	None	145580404	145586546	1	None	FLJ14651, ZMIZ5
1	PIAS3	ENSG00000131788	ENST00000472114	retained_intron	KNOWN	None	16861	None	None	145583714	145586546	1	None	FLJ14651, ZMIZ5
1	PIAS3	ENSG00000131788	ENST00000369299	protein_coding	KNOWN	None	16861	873	290	145575290	145580662	1	None	FLJ14651, ZMIZ5
HSCHR6_MHC_QBL	HLA-B	ENSG00000206450	ENST00000490054	retained_intron	KNOWN	None	4932	None	None	31311768	31312692	-1	AS	None
HSCHR6_MHC_QBL	HLA-B	ENSG00000206450	ENST00000479990	retained_intron	KNOWN	None	4932	None	None	31311768	31312962	-1	AS	None
HSCHR6_MHC_QBL	HLA-B	ENSG00000206450	ENST00000418147	protein_coding	KNOWN	None	4932	725	240	31311768	31314298	-1	AS	None
HSCHR6_MHC_QBL	HLA-B	ENSG00000206450	ENST00000359635	protein_coding	KNOWN	None	4932	1089	362	31311768	31315097	-1	AS	None
HSCHR6_MHC_QBL	HLA-B	ENSG00000206450	ENST00000475493	retained_intron	KNOWN	None	4932	None	None	31313008	31313696	-1	AS	None
HSCHR6_MHC_QBL	HLA-B	ENSG00000206450	ENST00000479203	nonsense_mediated_decay	KNOWN	None	4932	675	224	31313068	31315056	-1	AS	None
HSCHR6_MHC_QBL	HLA-B	ENSG00000206450	ENST00000493512	retained_intron	KNOWN	None	4932	None	None	31313288	31315075	-1	AS	None
HSCHR6_MHC_QBL	HLA-B	ENSG00000206450	ENST00000466304	retained_intron	KNOWN	None	4932	None	None	31313404	31315084	-1	AS	None
13	None	ENSG00000215462	ENST00000400396	protein_coding	KNOWN	None	None	225	74	50007495	50020554	-1	None	None
5	None	ENSG00000248311	ENST00000506059	lincRNA	KNOWN	None	None	None	None	4775589	4805882	-1	None	None
5	None	ENSG00000248467	ENST00000515656	lincRNA	KNOWN	None	None	None	None	4831812	4849913	-1	None	None
17	ENGASE	ENSG00000167280	ENST00000578419	nonsense_mediated_decay	KNOWN	None	24622	441	146	77071021	77078631	1	None	FLJ21865
17	ENGASE	ENSG00000167280	ENST00000579016	protein_coding	KNOWN	CCDS42394	24622	2232	743	77071027	77082778	1	None	FLJ21865
17	ENGASE	ENSG00000167280	ENST00000311595	protein_coding	NOVEL	None	24622	1097	364	77071151	77078612	1	None	FLJ21865
17	ENGASE	ENSG00000167280	ENST00000300682	nonsense_mediated_decay	KNOWN	None	24622	551	182	77076394	77084681	1	None	FLJ21865
17	ENGASE	ENSG00000167280	ENST00000583646	retained_intron	KNOWN	None	24622	None	None	77077102	77078396	1	None	FLJ21865
17	ENGASE	ENSG00000167280	ENST00000584568	processed_transcript	PUTATIVE	None	24622	None	None	77078111	77080648	1	None	FLJ21865
17	ENGASE	ENSG00000167280	ENST00000577783	retained_intron	KNOWN	None	24622	None	None	77079168	77080316	1	None	FLJ21865
17	ENGASE	ENSG00000167280	ENST00000583041	retained_intron	KNOWN	None	24622	None	None	77079383	77080033	1	None	FLJ21865
17	ENGASE	ENSG00000167280	ENST00000579809	retained_intron	KNOWN	None	24622	None	None	77080329	77082778	1	None	FLJ21865
17	ENGASE	ENSG00000167280	ENST00000585160	processed_transcript	KNOWN	None	24622	None	None	77081372	77081932	1	None	FLJ21865
17	ENGASE	ENSG00000167280	ENST00000539857	protein_coding	KNOWN	None	24622	663	220	77071021	77078631	1	None	FLJ21865
4	None	ENSG00000261121	ENST00000569621	lincRNA	KNOWN	None	None	None	None	24661479	24673191	1	None	None
1	CAP1	ENSG00000131236	ENST00000372797	protein_coding	KNOWN	CCDS41309	20040	1428	475	40505905	40538321	1	None	CAP
1	CAP1	ENSG00000131236	ENST00000372802	protein_coding	KNOWN	None	20040	1425	474	40505912	40538187	1	None	CAP
1	CAP1	ENSG00000131236	ENST00000449311	protein_coding	KNOWN	None	20040	523	173	40505995	40530230	1	None	CAP
1	CAP1	ENSG00000131236	ENST00000421589	protein_coding	KNOWN	None	20040	610	202	40506255	40531972	1	None	CAP
1	CAP1	ENSG00000131236	ENST00000414893	protein_coding	KNOWN	None	20040	436	144	40506392	40535436	1	None	CAP
1	CAP1	ENSG00000131236	ENST00000414281	protein_coding	KNOWN	None	20040	624	207	40506404	40531986	1	None	CAP
1	CAP1	ENSG00000131236	ENST00000420216	protein_coding	KNOWN	None	20040	539	178	40506405	40531901	1	None	CAP
1	CAP1	ENSG00000131236	ENST00000372792	protein_coding	KNOWN	CCDS41309	20040	1428	475	40506421	40537207	1	None	CAP
1	CAP1	ENSG00000131236	ENST00000372798	protein_coding	KNOWN	None	20040	1425	474	40506424	40537280	1	None	CAP
1	CAP1	ENSG00000131236	ENST00000340450	protein_coding	KNOWN	None	20040	1425	474	40506425	40538313	1	None	CAP
1	CAP1	ENSG00000131236	ENST00000372805	protein_coding	KNOWN	CCDS41309	20040	1428	475	40506433	40537943	1	None	CAP
1	CAP1	ENSG00000131236	ENST00000435719	protein_coding	KNOWN	None	20040	788	261	40506437	40533372	1	None	CAP
1	CAP1	ENSG00000131236	ENST00000427843	protein_coding	KNOWN	None	20040	647	214	40506439	40533228	1	None	CAP
1	CAP1	ENSG00000131236	ENST00000417287	protein_coding	KNOWN	None	20040	528	175	40506452	40531890	1	None	CAP
1	CAP1	ENSG00000131236	ENST00000424977	protein_coding	KNOWN	None	20040	605	200	40506452	40531967	1	None	CAP
1	CAP1	ENSG00000131236	ENST00000446031	protein_coding	KNOWN	None	20040	176	57	40506554	40525802	1	None	CAP
1	CAP1	ENSG00000131236	ENST00000479759	processed_transcript	KNOWN	None	20040	None	None	40532942	40537253	1	None	CAP
1	CAP1	ENSG00000131236	ENST00000461993	processed_transcript	KNOWN	None	20040	None	None	40535238	40537317	1	None	CAP
1	CAP1	ENSG00000131236	ENST00000494114	processed_transcript	KNOWN	None	20040	None	None	40536142	40537355	1	None	CAP
4	None	ENSG00000251638	ENST00000508068	processed_pseudogene	KNOWN	None	None	None	None	24769671	24769953	1	None	None
4	HNRNPA1P65	ENSG00000248444	ENST00000508873	processed_pseudogene	KNOWN	None	48795	None	None	24773089	24774042	1	None	None
19	ZNF415	ENSG00000170954	ENST00000600120	nonsense_mediated_decay	KNOWN	None	20636	180	59	53611132	53636128	-1	None	None
19	ZNF415	ENSG00000170954	ENST00000601493	protein_coding	PUTATIVE	None	20636	978	325	53611132	53636128	-1	None	None
19	ZNF415	ENSG00000170954	ENST00000597503	protein_coding	PUTATIVE	None	20636	222	73	53611132	53636139	-1	None	None
19	ZNF415	ENSG00000170954	ENST00000243643	protein_coding	KNOWN	CCDS12860	20636	1668	555	53611132	53636145	-1	None	None
19	ZNF415	ENSG00000170954	ENST00000595193	protein_coding	PUTATIVE	None	20636	330	109	53611132	53636148	-1	None	None
19	ZNF415	ENSG00000170954	ENST00000594011	protein_coding	PUTATIVE	None	20636	330	109	53611133	53636145	-1	None	None
19	ZNF415	ENSG00000170954	ENST00000500065	protein_coding	KNOWN	CCDS54313	20636	1668	555	53611136	53636141	-1	None	None
19	ZNF415	ENSG00000170954	ENST00000597748	protein_coding	PUTATIVE	None	20636	222	73	53611151	53626902	-1	None	None
19	ZNF415	ENSG00000170954	ENST00000598578	nonsense_mediated_decay	KNOWN	None	20636	180	59	53611354	53636134	-1	None	None
19	ZNF415	ENSG00000170954	ENST00000602024	processed_transcript	KNOWN	None	20636	None	None	53612860	53636157	-1	None	None
19	ZNF415	ENSG00000170954	ENST00000601215	protein_coding	PUTATIVE	None	20636	321	106	53612925	53632918	-1	None	None
19	ZNF415	ENSG00000170954	ENST00000595174	protein_coding	PUTATIVE	None	20636	491	162	53612945	53632962	-1	None	None
19	ZNF415	ENSG00000170954	ENST00000601110	protein_coding	KNOWN	None	20636	318	105	53612980	53636157	-1	None	None
19	ZNF415	ENSG00000170954	ENST00000595359	processed_transcript	KNOWN	None	20636	None	None	53612991	53636330	-1	None	None
19	ZNF415	ENSG00000170954	ENST00000595813	protein_coding	PUTATIVE	None	20636	222	73	53613059	53636153	-1	None	None
19	ZNF415	ENSG00000170954	ENST00000599261	protein_coding	PUTATIVE	None	20636	330	109	53613130	53636137	-1	None	None
19	ZNF415	ENSG00000170954	ENST00000598024	nonsense_mediated_decay	KNOWN	None	20636	180	59	53618488	53636157	-1	None	None
19	ZNF415	ENSG00000170954	ENST00000602110	processed_transcript	KNOWN	None	20636	None	None	53618511	53636153	-1	None	None
19	ZNF415	ENSG00000170954	ENST00000596683	processed_transcript	KNOWN	None	20636	None	None	53618987	53636145	-1	None	None
19	ZNF415	ENSG00000170954	ENST00000596106	processed_transcript	KNOWN	None	20636	None	None	53619010	53636153	-1	None	None
19	ZNF415	ENSG00000170954	ENST00000594286	processed_transcript	KNOWN	None	20636	None	None	53619037	53636173	-1	None	None
19	ZNF415	ENSG00000170954	ENST00000597877	nonsense_mediated_decay	KNOWN	None	20636	312	103	53619100	53632952	-1	None	None
19	ZNF415	ENSG00000170954	ENST00000600574	protein_coding	PUTATIVE	None	20636	228	75	53619358	53636153	-1	None	None
19	ZNF415	ENSG00000170954	ENST00000600098	retained_intron	KNOWN	None	20636	None	None	53619513	53636169	-1	None	None
19	ZNF415	ENSG00000170954	ENST00000596051	protein_coding	KNOWN	None	20636	70	22	53619632	53636153	-1	None	None
19	ZNF415	ENSG00000170954	ENST00000448501	protein_coding	KNOWN	None	20636	1812	603	53611133	53636148	-1	None	None
19	ZNF415	ENSG00000170954	ENST00000421033	protein_coding	KNOWN	None	20636	1704	567	53611133	53636148	-1	None	None
19	ZNF415	ENSG00000170954	ENST00000455735	protein_coding	KNOWN	None	20636	1812	603	53611133	53636145	-1	None	None
19	ZNF415	ENSG00000170954	ENST00000440291	protein_coding	KNOWN	None	20636	1629	542	53611133	53636148	-1	None	None
4	None	ENSG00000271172	ENST00000604448	lincRNA	KNOWN	None	None	None	None	25222025	25222535	1	None	None
12	KLRK1	ENSG00000213809	ENST00000240618	protein_coding	KNOWN	CCDS8623	18788	651	216	10524952	10542617	-1	D12S2489E	NKG2D, KLR, NKG2-D, CD314
12	KLRK1	ENSG00000213809	ENST00000540267	retained_intron	KNOWN	None	18788	None	None	10525015	10534781	-1	D12S2489E	NKG2D, KLR, NKG2-D, CD314
12	KLRK1	ENSG00000213809	ENST00000544449	retained_intron	KNOWN	None	18788	None	None	10525406	10542624	-1	D12S2489E	NKG2D, KLR, NKG2-D, CD314
12	KLRK1	ENSG00000213809	ENST00000540818	protein_coding	KNOWN	CCDS8623	18788	651	216	10525579	10541575	-1	D12S2489E	NKG2D, KLR, NKG2-D, CD314
12	KLRK1	ENSG00000213809	ENST00000396451	nonsense_mediated_decay	KNOWN	None	18788	243	80	10525784	10544473	-1	D12S2489E	NKG2D, KLR, NKG2-D, CD314
4	None	ENSG00000264496	ENST00000580712	miRNA	NOVEL	None	None	None	None	25355592	25355693	1	None	None
14	NFKBIA	ENSG00000100906	ENST00000216797	protein_coding	KNOWN	CCDS9656	7797	954	317	35870717	35873952	-1	NFKBI	IKBA, MAD-3, IkappaBalpha
14	NFKBIA	ENSG00000100906	ENST00000554001	nonsense_mediated_decay	KNOWN	None	7797	249	82	35870740	35873922	-1	NFKBI	IKBA, MAD-3, IkappaBalpha
14	NFKBIA	ENSG00000100906	ENST00000557140	protein_coding	NOVEL	None	7797	825	274	35870746	35873952	-1	NFKBI	IKBA, MAD-3, IkappaBalpha
14	NFKBIA	ENSG00000100906	ENST00000557389	protein_coding	PUTATIVE	None	7797	684	227	35870751	35873346	-1	NFKBI	IKBA, MAD-3, IkappaBalpha
14	NFKBIA	ENSG00000100906	ENST00000555371	retained_intron	KNOWN	None	7797	None	None	35871132	35872444	-1	NFKBI	IKBA, MAD-3, IkappaBalpha
14	NFKBIA	ENSG00000100906	ENST00000557100	processed_transcript	KNOWN	None	7797	None	None	35871648	35873906	-1	NFKBI	IKBA, MAD-3, IkappaBalpha
14	NFKBIA	ENSG00000100906	ENST00000556664	retained_intron	KNOWN	None	7797	None	None	35871859	35872636	-1	NFKBI	IKBA, MAD-3, IkappaBalpha
14	NFKBIA	ENSG00000100906	ENST00000557459	retained_intron	KNOWN	None	7797	None	None	35872221	35873948	-1	NFKBI	IKBA, MAD-3, IkappaBalpha
14	NFKBIA	ENSG00000100906	ENST00000555629	retained_intron	KNOWN	None	7797	None	None	35872738	35873955	-1	NFKBI	IKBA, MAD-3, IkappaBalpha
14	NFKBIA	ENSG00000100906	ENST00000553342	protein_coding	NOVEL	None	7797	206	67	35872954	35873856	-1	NFKBI	IKBA, MAD-3, IkappaBalpha
4	None	ENSG00000249320	ENST00000513686	processed_pseudogene	KNOWN	None	None	None	None	25474139	25475437	1	None	None
19	P2RY11	ENSG00000244165	ENST00000321826	protein_coding	KNOWN	CCDS12226	8540	1125	374	10222214	10226048	1	None	P2Y11
19	P2RY11	ENSG00000244165	ENST00000471843	processed_transcript	KNOWN	None	8540	None	None	10222780	10224510	1	None	P2Y11
5	PDLIM7	ENSG00000196923	ENST00000493815	nonsense_mediated_decay	KNOWN	None	22958	462	153	176910395	176924562	-1	None	ENIGMA
5	PDLIM7	ENSG00000196923	ENST00000359895	protein_coding	KNOWN	CCDS4423	22958	1272	423	176910395	176924562	-1	None	ENIGMA
5	PDLIM7	ENSG00000196923	ENST00000355841	protein_coding	KNOWN	CCDS4422	22958	1374	457	176910397	176924584	-1	None	ENIGMA
5	PDLIM7	ENSG00000196923	ENST00000486828	nonsense_mediated_decay	KNOWN	None	22958	576	191	176910399	176924602	-1	None	ENIGMA
5	PDLIM7	ENSG00000196923	ENST00000504380	retained_intron	KNOWN	None	22958	None	None	176910696	176911474	-1	None	ENIGMA
5	PDLIM7	ENSG00000196923	ENST00000505746	processed_transcript	KNOWN	None	22958	None	None	176910876	176912015	-1	None	ENIGMA
5	PDLIM7	ENSG00000196923	ENST00000393551	protein_coding	PUTATIVE	None	22958	864	287	176914898	176924584	-1	None	ENIGMA
5	PDLIM7	ENSG00000196923	ENST00000505074	protein_coding	NOVEL	None	22958	861	286	176916812	176924587	-1	None	ENIGMA
5	PDLIM7	ENSG00000196923	ENST00000355572	protein_coding	KNOWN	CCDS4424	22958	669	222	176917247	176924574	-1	None	ENIGMA
5	PDLIM7	ENSG00000196923	ENST00000393546	protein_coding	NOVEL	None	22958	586	194	176918011	176924602	-1	None	ENIGMA
5	PDLIM7	ENSG00000196923	ENST00000506161	protein_coding	KNOWN	None	22958	520	172	176918026	176923832	-1	None	ENIGMA
5	PDLIM7	ENSG00000196923	ENST00000504318	retained_intron	KNOWN	None	22958	None	None	176918073	176919573	-1	None	ENIGMA
5	PDLIM7	ENSG00000196923	ENST00000503346	retained_intron	KNOWN	None	22958	None	None	176918074	176919971	-1	None	ENIGMA
5	PDLIM7	ENSG00000196923	ENST00000503827	nonsense_mediated_decay	KNOWN	None	22958	362	119	176918097	176923428	-1	None	ENIGMA
5	PDLIM7	ENSG00000196923	ENST00000463411	retained_intron	KNOWN	None	22958	None	None	176918760	176924607	-1	None	ENIGMA
5	PDLIM7	ENSG00000196923	ENST00000506537	protein_coding	KNOWN	None	22958	271	89	176919414	176923878	-1	None	ENIGMA
5	PDLIM7	ENSG00000196923	ENST00000356618	protein_coding	KNOWN	None	22958	864	287	176910395	176924602	-1	None	ENIGMA
22	TCN2	ENSG00000185339	ENST00000215838	protein_coding	KNOWN	CCDS13881	11653	1284	427	31002825	31023265	1	None	D22S676, D22S750, TC2
22	TCN2	ENSG00000185339	ENST00000423350	protein_coding	NOVEL	None	11653	308	101	31002990	31007101	1	None	D22S676, D22S750, TC2
22	TCN2	ENSG00000185339	ENST00000450638	nonsense_mediated_decay	KNOWN	None	11653	90	29	31003070	31023033	1	None	D22S676, D22S750, TC2
22	TCN2	ENSG00000185339	ENST00000405742	protein_coding	NOVEL	None	11653	1272	423	31003139	31022992	1	None	D22S676, D22S750, TC2
22	TCN2	ENSG00000185339	ENST00000407817	protein_coding	NOVEL	CCDS54519	11653	1203	400	31003191	31023047	1	None	D22S676, D22S750, TC2
22	TCN2	ENSG00000185339	ENST00000471659	retained_intron	KNOWN	None	11653	None	None	31011679	31013704	1	None	D22S676, D22S750, TC2
22	TCN2	ENSG00000185339	ENST00000493542	retained_intron	KNOWN	None	11653	None	None	31011703	31019283	1	None	D22S676, D22S750, TC2
4	None	ENSG00000248608	ENST00000504166	processed_pseudogene	KNOWN	None	None	None	None	25506619	25508297	1	None	None
4	RNU7-126P	ENSG00000238632	ENST00000459120	snRNA	KNOWN	None	45660	None	None	25600186	25600247	-1	None	None
15	FANCI	ENSG00000140525	ENST00000300027	protein_coding	KNOWN	CCDS10349	25568	3807	1268	89787180	89860492	1	KIAA1794	FLJ10719
15	FANCI	ENSG00000140525	ENST00000310775	protein_coding	KNOWN	CCDS45346	25568	3987	1328	89787198	89860360	1	KIAA1794	FLJ10719
15	FANCI	ENSG00000140525	ENST00000568670	processed_transcript	KNOWN	None	25568	None	None	89787204	89803996	1	KIAA1794	FLJ10719
15	FANCI	ENSG00000140525	ENST00000567891	protein_coding	KNOWN	None	25568	472	156	89787206	89805078	1	KIAA1794	FLJ10719
15	FANCI	ENSG00000140525	ENST00000564920	protein_coding	KNOWN	None	25568	377	124	89787221	89804904	1	KIAA1794	FLJ10719
15	FANCI	ENSG00000140525	ENST00000565255	protein_coding	PUTATIVE	None	25568	680	225	89787221	89807268	1	KIAA1794	FLJ10719
15	FANCI	ENSG00000140525	ENST00000447611	nonsense_mediated_decay	KNOWN	None	25568	3288	1095	89787235	89859712	1	KIAA1794	FLJ10719
15	FANCI	ENSG00000140525	ENST00000570110	retained_intron	KNOWN	None	25568	None	None	89787239	89802299	1	KIAA1794	FLJ10719
15	FANCI	ENSG00000140525	ENST00000567996	protein_coding	PUTATIVE	None	25568	759	252	89787248	89807878	1	KIAA1794	FLJ10719
15	FANCI	ENSG00000140525	ENST00000563250	protein_coding	PUTATIVE	None	25568	647	214	89787265	89807235	1	KIAA1794	FLJ10719
15	FANCI	ENSG00000140525	ENST00000565522	processed_transcript	KNOWN	None	25568	None	None	89787481	89857877	1	KIAA1794	FLJ10719
15	FANCI	ENSG00000140525	ENST00000564636	retained_intron	KNOWN	None	25568	None	None	89790833	89802581	1	KIAA1794	FLJ10719
15	FANCI	ENSG00000140525	ENST00000570225	protein_coding	PUTATIVE	None	25568	438	145	89805069	89811862	1	KIAA1794	FLJ10719
15	FANCI	ENSG00000140525	ENST00000561894	protein_coding	PUTATIVE	None	25568	3268	1088	89806668	89859675	1	KIAA1794	FLJ10719
15	FANCI	ENSG00000140525	ENST00000566895	retained_intron	KNOWN	None	25568	None	None	89821911	89860359	1	KIAA1794	FLJ10719
15	FANCI	ENSG00000140525	ENST00000564350	retained_intron	KNOWN	None	25568	None	None	89826224	89833823	1	KIAA1794	FLJ10719
15	FANCI	ENSG00000140525	ENST00000566615	processed_transcript	KNOWN	None	25568	None	None	89851090	89859657	1	KIAA1794	FLJ10719
15	FANCI	ENSG00000140525	ENST00000451393	protein_coding	KNOWN	None	25568	222	73	89787248	89807873	1	KIAA1794	FLJ10719
13	SETDB2	ENSG00000136169	ENST00000317257	protein_coding	KNOWN	CCDS9417	20263	2160	719	50018510	50066306	1	C13orf4	CLLD8, CLLL8, KMT1F
13	SETDB2	ENSG00000136169	ENST00000481439	processed_transcript	KNOWN	None	20263	None	None	50018820	50020088	1	C13orf4	CLLD8, CLLL8, KMT1F
13	SETDB2	ENSG00000136169	ENST00000258672	protein_coding	PUTATIVE	None	20263	1647	548	50018895	50059981	1	C13orf4	CLLD8, CLLL8, KMT1F
13	SETDB2	ENSG00000136169	ENST00000354234	protein_coding	KNOWN	CCDS53868	20263	2124	707	50018429	50069138	1	C13orf4	CLLD8, CLLL8, KMT1F
HSCHR6_MHC_MANN	C6orf47	ENSG00000228177	ENST00000442972	protein_coding	KNOWN	None	19076	885	294	31665567	31668042	-1	None	D6S53E, G4
4	None	ENSG00000248545	ENST00000515188	lincRNA	KNOWN	None	None	None	None	25610333	25621087	1	None	None
6	RWDD1	ENSG00000111832	ENST00000466444	protein_coding	KNOWN	CCDS34520	20993	732	243	116892530	116918838	1	None	PTD013
6	RWDD1	ENSG00000111832	ENST00000368590	protein_coding	KNOWN	None	20993	153	50	116892572	116911461	1	None	PTD013
6	RWDD1	ENSG00000111832	ENST00000487832	protein_coding	KNOWN	CCDS43496	20993	444	147	116892652	116914751	1	None	PTD013
6	RWDD1	ENSG00000111832	ENST00000517800	processed_transcript	KNOWN	None	20993	None	None	116892672	116905994	1	None	PTD013
6	RWDD1	ENSG00000111832	ENST00000518117	protein_coding	KNOWN	None	20993	216	71	116892726	116911524	1	None	PTD013
6	RWDD1	ENSG00000111832	ENST00000468204	protein_coding	KNOWN	None	20993	202	66	116901370	116911510	1	None	PTD013
6	RWDD1	ENSG00000111832	ENST00000392526	protein_coding	KNOWN	CCDS43496	20993	444	147	116892583	116914432	1	None	PTD013
11	ACP2	ENSG00000134575	ENST00000256997	protein_coding	KNOWN	CCDS7928	123	1272	423	47260853	47270457	-1	None	None
11	ACP2	ENSG00000134575	ENST00000534752	processed_transcript	PUTATIVE	None	123	None	None	47260860	47267127	-1	None	None
11	ACP2	ENSG00000134575	ENST00000529444	protein_coding	NOVEL	None	123	1083	360	47261044	47270353	-1	None	None
11	ACP2	ENSG00000134575	ENST00000534448	retained_intron	KNOWN	None	123	None	None	47261106	47270367	-1	None	None
11	ACP2	ENSG00000134575	ENST00000527256	protein_coding	NOVEL	None	123	1176	391	47261374	47270370	-1	None	None
11	ACP2	ENSG00000134575	ENST00000531004	nonsense_mediated_decay	KNOWN	None	123	456	151	47261436	47270365	-1	None	None
11	ACP2	ENSG00000134575	ENST00000533929	protein_coding	NOVEL	None	123	1188	395	47261603	47270179	-1	None	None
11	ACP2	ENSG00000134575	ENST00000525230	processed_transcript	KNOWN	None	123	None	None	47261637	47266511	-1	None	None
11	ACP2	ENSG00000134575	ENST00000531547	nonsense_mediated_decay	KNOWN	None	123	483	160	47264391	47270365	-1	None	None
11	ACP2	ENSG00000134575	ENST00000529663	protein_coding	NOVEL	None	123	916	304	47264397	47270391	-1	None	None
11	ACP2	ENSG00000134575	ENST00000524769	processed_transcript	PUTATIVE	None	123	None	None	47264790	47266929	-1	None	None
11	ACP2	ENSG00000134575	ENST00000530453	protein_coding	NOVEL	None	123	489	162	47266450	47270356	-1	None	None
11	ACP2	ENSG00000134575	ENST00000444355	protein_coding	PUTATIVE	CCDS44583	123	483	160	47267117	47270367	-1	None	None
11	ACP2	ENSG00000134575	ENST00000529788	protein_coding	PUTATIVE	None	123	369	122	47268944	47270365	-1	None	None
11	ACP2	ENSG00000134575	ENST00000537863	protein_coding	KNOWN	None	123	711	236	47261436	47270365	-1	None	None
1	NUDT17	ENSG00000186364	ENST00000334513	protein_coding	KNOWN	CCDS30830	26618	987	328	145586115	145589439	-1	None	FLJ34433
1	NUDT17	ENSG00000186364	ENST00000444015	protein_coding	PUTATIVE	None	26618	553	183	145586484	145588963	-1	None	FLJ34433
1	NUDT17	ENSG00000186364	ENST00000467151	retained_intron	KNOWN	None	26618	None	None	145586501	145590461	-1	None	FLJ34433
1	NUDT17	ENSG00000186364	ENST00000498192	retained_intron	KNOWN	None	26618	None	None	145586804	145589097	-1	None	FLJ34433
1	NUDT17	ENSG00000186364	ENST00000477878	retained_intron	KNOWN	None	26618	None	None	145586807	145589435	-1	None	FLJ34433
1	NUDT17	ENSG00000186364	ENST00000460879	retained_intron	KNOWN	None	26618	None	None	145587379	145589409	-1	None	FLJ34433
2	CYBRD1	ENSG00000071967	ENST00000409484	protein_coding	PUTATIVE	CCDS58736	20797	687	228	172378757	172412117	1	None	DCYTB, FLJ23462, FRRS3, CYB561A2
2	CYBRD1	ENSG00000071967	ENST00000468308	processed_transcript	KNOWN	None	20797	None	None	172378858	172407650	1	None	DCYTB, FLJ23462, FRRS3, CYB561A2
2	CYBRD1	ENSG00000071967	ENST00000321348	protein_coding	KNOWN	CCDS2244	20797	861	286	172378858	172414643	1	None	DCYTB, FLJ23462, FRRS3, CYB561A2
2	CYBRD1	ENSG00000071967	ENST00000375252	protein_coding	KNOWN	CCDS46449	20797	474	157	172378987	172414156	1	None	DCYTB, FLJ23462, FRRS3, CYB561A2
2	CYBRD1	ENSG00000071967	ENST00000474182	processed_transcript	KNOWN	None	20797	None	None	172379020	172398282	1	None	DCYTB, FLJ23462, FRRS3, CYB561A2
2	CYBRD1	ENSG00000071967	ENST00000494587	processed_transcript	KNOWN	None	20797	None	None	172379021	172397638	1	None	DCYTB, FLJ23462, FRRS3, CYB561A2
2	CYBRD1	ENSG00000071967	ENST00000445146	protein_coding	PUTATIVE	None	20797	524	173	172379589	172411117	1	None	DCYTB, FLJ23462, FRRS3, CYB561A2
X	ZC3H12B	ENSG00000102053	ENST00000338957	protein_coding	KNOWN	CCDS48131	17407	2511	836	64708615	64727767	1	CXorf32	MCPIP2
X	ZC3H12B	ENSG00000102053	ENST00000423889	protein_coding	KNOWN	None	17407	2478	825	64708615	64727766	1	CXorf32	MCPIP2
7	PTPRN2	ENSG00000155093	ENST00000389413	protein_coding	KNOWN	CCDS5949	9677	2961	986	157331750	158380465	-1	None	KIAA0387, phogrin, ICAAR, IA-2beta
7	PTPRN2	ENSG00000155093	ENST00000409483	protein_coding	KNOWN	None	9677	2934	977	157331750	158380480	-1	None	KIAA0387, phogrin, ICAAR, IA-2beta
7	PTPRN2	ENSG00000155093	ENST00000389416	protein_coding	KNOWN	CCDS5948	9677	2997	998	157331755	158380403	-1	None	KIAA0387, phogrin, ICAAR, IA-2beta
7	PTPRN2	ENSG00000155093	ENST00000389418	protein_coding	KNOWN	CCDS5947	9677	3048	1015	157331760	158380371	-1	None	KIAA0387, phogrin, ICAAR, IA-2beta
7	PTPRN2	ENSG00000155093	ENST00000404321	protein_coding	KNOWN	None	9677	3117	1038	157333408	158334298	-1	None	KIAA0387, phogrin, ICAAR, IA-2beta
HSCHR6_MHC_COX	PSORS1C1	ENSG00000235487	ENST00000495389	processed_transcript	KNOWN	None	17202	None	None	31075027	31079094	1	C6orf16	SEEK1
HSCHR6_MHC_COX	PSORS1C1	ENSG00000235487	ENST00000487306	processed_transcript	KNOWN	None	17202	None	None	31075102	31077573	1	C6orf16	SEEK1
HSCHR6_MHC_COX	PSORS1C1	ENSG00000235487	ENST00000448455	protein_coding	KNOWN	None	17202	459	152	31075108	31100333	1	C6orf16	SEEK1
HSCHR6_MHC_COX	PSORS1C1	ENSG00000235487	ENST00000470522	processed_transcript	KNOWN	None	17202	None	None	31075108	31100333	1	C6orf16	SEEK1
20	NAA20	ENSG00000173418	ENST00000334982	protein_coding	KNOWN	CCDS13141	15908	537	178	19997760	20014273	1	NAT5	dJ1002M8.1, NAT3
20	NAA20	ENSG00000173418	ENST00000484480	processed_transcript	KNOWN	None	15908	None	None	19997954	20014273	1	NAT5	dJ1002M8.1, NAT3
20	NAA20	ENSG00000173418	ENST00000310450	protein_coding	NOVEL	CCDS13142	15908	336	111	19997954	20014273	1	NAT5	dJ1002M8.1, NAT3
20	NAA20	ENSG00000173418	ENST00000463154	processed_transcript	KNOWN	None	15908	None	None	19997992	20014273	1	NAT5	dJ1002M8.1, NAT3
20	NAA20	ENSG00000173418	ENST00000480550	processed_transcript	KNOWN	None	15908	None	None	19998003	20014273	1	NAT5	dJ1002M8.1, NAT3
20	NAA20	ENSG00000173418	ENST00000398602	protein_coding	NOVEL	CCDS42854	15908	501	166	19998034	20014299	1	NAT5	dJ1002M8.1, NAT3
20	NAA20	ENSG00000173418	ENST00000481837	retained_intron	KNOWN	None	15908	None	None	19998445	20003299	1	NAT5	dJ1002M8.1, NAT3
HSCHR6_MHC_MANN	GPANK1	ENSG00000223932	ENST00000416384	protein_coding	KNOWN	None	13920	1071	356	31668499	31673553	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_MANN	GPANK1	ENSG00000223932	ENST00000418502	protein_coding	KNOWN	None	13920	1071	356	31669346	31672660	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_MANN	GPANK1	ENSG00000223932	ENST00000429266	protein_coding	KNOWN	None	13920	1071	356	31669346	31672900	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_MANN	GPANK1	ENSG00000223932	ENST00000440777	protein_coding	KNOWN	None	13920	1071	356	31669346	31673120	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_MANN	GPANK1	ENSG00000223932	ENST00000422131	protein_coding	KNOWN	None	13920	1071	356	31669346	31673131	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_MANN	GPANK1	ENSG00000223932	ENST00000429097	protein_coding	KNOWN	None	13920	596	197	31671153	31673067	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_MANN	GPANK1	ENSG00000223932	ENST00000412886	protein_coding	KNOWN	None	13920	494	163	31671255	31672712	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_MANN	GPANK1	ENSG00000223932	ENST00000415256	protein_coding	KNOWN	None	13920	456	151	31671293	31672460	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_MANN	GPANK1	ENSG00000223932	ENST00000430230	protein_coding	KNOWN	None	13920	321	106	31671428	31673104	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
HSCHR6_MHC_MANN	GPANK1	ENSG00000223932	ENST00000442498	protein_coding	KNOWN	None	13920	269	88	31671480	31672455	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
5	None	ENSG00000249941	ENST00000505404	lincRNA	KNOWN	None	None	None	None	4866634	4874872	1	None	None
5	None	ENSG00000251506	ENST00000511721	lincRNA	KNOWN	None	None	None	None	4967877	4970538	-1	None	None
12	NDUFA12	ENSG00000184752	ENST00000552205	nonsense_mediated_decay	KNOWN	None	23987	163	53	95290831	95397436	-1	None	DAP13, B17.2
12	NDUFA12	ENSG00000184752	ENST00000547447	processed_transcript	PUTATIVE	None	23987	None	None	95290868	95318582	-1	None	DAP13, B17.2
12	NDUFA12	ENSG00000184752	ENST00000550187	processed_transcript	PUTATIVE	None	23987	None	None	95365108	95391223	-1	None	DAP13, B17.2
12	NDUFA12	ENSG00000184752	ENST00000547157	protein_coding	PUTATIVE	None	23987	168	55	95365108	95397476	-1	None	DAP13, B17.2
12	NDUFA12	ENSG00000184752	ENST00000538372	retained_intron	KNOWN	None	23987	None	None	95365109	95388129	-1	None	DAP13, B17.2
12	NDUFA12	ENSG00000184752	ENST00000551991	nonsense_mediated_decay	KNOWN	None	23987	144	47	95365109	95397384	-1	None	DAP13, B17.2
12	NDUFA12	ENSG00000184752	ENST00000327772	protein_coding	KNOWN	CCDS9050	23987	438	145	95365109	95397546	-1	None	DAP13, B17.2
12	NDUFA12	ENSG00000184752	ENST00000547986	protein_coding	PUTATIVE	CCDS58263	23987	192	63	95365112	95397489	-1	None	DAP13, B17.2
12	NDUFA12	ENSG00000184752	ENST00000546788	nonsense_mediated_decay	KNOWN	None	23987	300	99	95365254	95397524	-1	None	DAP13, B17.2
5	None	ENSG00000250481	ENST00000509057	lincRNA	KNOWN	None	None	None	None	4974803	5034380	-1	None	None
1	POLR3C	ENSG00000186141	ENST00000334163	protein_coding	KNOWN	CCDS921	30076	1605	534	145592605	145610884	-1	None	RPC62, RPC3
1	POLR3C	ENSG00000186141	ENST00000369294	protein_coding	KNOWN	None	30076	1236	411	145592617	145610937	-1	None	RPC62, RPC3
1	POLR3C	ENSG00000186141	ENST00000489436	processed_transcript	KNOWN	None	30076	None	None	145594703	145598573	-1	None	RPC62, RPC3
1	POLR3C	ENSG00000186141	ENST00000479819	processed_transcript	PUTATIVE	None	30076	None	None	145595119	145595595	-1	None	RPC62, RPC3
1	POLR3C	ENSG00000186141	ENST00000471254	processed_transcript	KNOWN	None	30076	None	None	145598256	145611025	-1	None	RPC62, RPC3
1	POLR3C	ENSG00000186141	ENST00000466003	processed_transcript	KNOWN	None	30076	None	None	145601756	145610730	-1	None	RPC62, RPC3
20	AURKA	ENSG00000087586	ENST00000371356	protein_coding	KNOWN	CCDS13451	11393	1212	403	54944446	54967252	-1	STK15, STK6	BTAK, AurA, STK7, ARK1, PPP1R47, AIK
20	AURKA	ENSG00000087586	ENST00000347343	protein_coding	KNOWN	CCDS13451	11393	1212	403	54944446	54967261	-1	STK15, STK6	BTAK, AurA, STK7, ARK1, PPP1R47, AIK
20	AURKA	ENSG00000087586	ENST00000395911	protein_coding	KNOWN	CCDS13451	11393	1212	403	54944446	54967271	-1	STK15, STK6	BTAK, AurA, STK7, ARK1, PPP1R47, AIK
20	AURKA	ENSG00000087586	ENST00000312783	protein_coding	KNOWN	CCDS13451	11393	1212	403	54944446	54967351	-1	STK15, STK6	BTAK, AurA, STK7, ARK1, PPP1R47, AIK
20	AURKA	ENSG00000087586	ENST00000395915	protein_coding	KNOWN	CCDS13451	11393	1212	403	54944446	54967352	-1	STK15, STK6	BTAK, AurA, STK7, ARK1, PPP1R47, AIK
20	AURKA	ENSG00000087586	ENST00000395913	protein_coding	KNOWN	CCDS13451	11393	1212	403	54944446	54967393	-1	STK15, STK6	BTAK, AurA, STK7, ARK1, PPP1R47, AIK
20	AURKA	ENSG00000087586	ENST00000395907	protein_coding	PUTATIVE	None	11393	1044	347	54944721	54967271	-1	STK15, STK6	BTAK, AurA, STK7, ARK1, PPP1R47, AIK
20	AURKA	ENSG00000087586	ENST00000441357	protein_coding	KNOWN	None	11393	814	270	54948504	54967271	-1	STK15, STK6	BTAK, AurA, STK7, ARK1, PPP1R47, AIK
20	AURKA	ENSG00000087586	ENST00000420474	protein_coding	KNOWN	None	11393	566	187	54958041	54967323	-1	STK15, STK6	BTAK, AurA, STK7, ARK1, PPP1R47, AIK
20	AURKA	ENSG00000087586	ENST00000422322	protein_coding	KNOWN	None	11393	440	145	54958167	54967187	-1	STK15, STK6	BTAK, AurA, STK7, ARK1, PPP1R47, AIK
20	AURKA	ENSG00000087586	ENST00000456249	protein_coding	KNOWN	None	11393	319	105	54961313	54967276	-1	STK15, STK6	BTAK, AurA, STK7, ARK1, PPP1R47, AIK
20	AURKA	ENSG00000087586	ENST00000451915	protein_coding	KNOWN	None	11393	239	78	54961393	54967258	-1	STK15, STK6	BTAK, AurA, STK7, ARK1, PPP1R47, AIK
20	AURKA	ENSG00000087586	ENST00000395909	protein_coding	KNOWN	CCDS13451	11393	1212	403	54944445	54967351	-1	STK15, STK6	BTAK, AurA, STK7, ARK1, PPP1R47, AIK
20	AURKA	ENSG00000087586	ENST00000395914	protein_coding	KNOWN	CCDS13451	11393	1212	403	54944445	54967351	-1	STK15, STK6	BTAK, AurA, STK7, ARK1, PPP1R47, AIK
5	None	ENSG00000215231	ENST00000508201	lincRNA	KNOWN	None	None	None	None	5034472	5070117	1	None	None
5	None	ENSG00000215231	ENST00000509382	lincRNA	KNOWN	None	None	None	None	5034576	5059794	1	None	None
5	None	ENSG00000215231	ENST00000507599	lincRNA	KNOWN	None	None	None	None	5038799	5057986	1	None	None
5	None	ENSG00000215231	ENST00000514474	lincRNA	KNOWN	None	None	None	None	5057844	5067442	1	None	None
7	SAP25	ENSG00000205307	ENST00000538735	protein_coding	KNOWN	CCDS55137	41908	600	199	100169855	100171270	-1	None	FLJ00248
5	None	ENSG00000251426	ENST00000511514	lincRNA	KNOWN	None	None	None	None	5046909	5049610	-1	None	None
5	None	ENSG00000251426	ENST00000502893	lincRNA	KNOWN	None	None	None	None	5047093	5047567	-1	None	None
17	RBFOX3	ENSG00000167281	ENST00000583458	protein_coding	NOVEL	None	27097	1077	358	77085427	77478680	-1	None	FOX-3, NeuN, HRNBP3
17	RBFOX3	ENSG00000167281	ENST00000582043	protein_coding	PUTATIVE	None	27097	987	328	77086882	77231887	-1	None	FOX-3, NeuN, HRNBP3
17	RBFOX3	ENSG00000167281	ENST00000581393	retained_intron	KNOWN	None	27097	None	None	77086898	77094590	-1	None	FOX-3, NeuN, HRNBP3
17	RBFOX3	ENSG00000167281	ENST00000580155	protein_coding	KNOWN	CCDS45805	27097	939	312	77086898	77512230	-1	None	FOX-3, NeuN, HRNBP3
17	RBFOX3	ENSG00000167281	ENST00000578998	retained_intron	KNOWN	None	27097	None	None	77086929	77096492	-1	None	FOX-3, NeuN, HRNBP3
17	RBFOX3	ENSG00000167281	ENST00000582880	protein_coding	PUTATIVE	None	27097	227	74	77088029	77092775	-1	None	FOX-3, NeuN, HRNBP3
17	RBFOX3	ENSG00000167281	ENST00000582894	protein_coding	PUTATIVE	None	27097	394	130	77088462	77093808	-1	None	FOX-3, NeuN, HRNBP3
17	RBFOX3	ENSG00000167281	ENST00000584778	protein_coding	NOVEL	None	27097	978	325	77090339	77504950	-1	None	FOX-3, NeuN, HRNBP3
17	RBFOX3	ENSG00000167281	ENST00000580508	protein_coding	PUTATIVE	None	27097	156	51	77111780	77179554	-1	None	FOX-3, NeuN, HRNBP3
17	RBFOX3	ENSG00000167281	ENST00000582139	protein_coding	PUTATIVE	None	27097	13	3	77111785	77204638	-1	None	FOX-3, NeuN, HRNBP3
17	RBFOX3	ENSG00000167281	ENST00000578887	processed_transcript	KNOWN	None	27097	None	None	77229709	77420202	-1	None	FOX-3, NeuN, HRNBP3
17	RBFOX3	ENSG00000167281	ENST00000582344	processed_transcript	KNOWN	None	27097	None	None	77294286	77303909	-1	None	FOX-3, NeuN, HRNBP3
17	RBFOX3	ENSG00000167281	ENST00000415831	protein_coding	KNOWN	CCDS45805	27097	939	312	77085428	77478563	-1	None	FOX-3, NeuN, HRNBP3
17	RBFOX3	ENSG00000167281	ENST00000453134	protein_coding	KNOWN	CCDS45805	27097	939	312	77086898	77613550	-1	None	FOX-3, NeuN, HRNBP3
12	None	ENSG00000257955	ENST00000547602	protein_coding	PUTATIVE	None	None	399	132	48413554	48419165	-1	None	None
22	SLC35E4	ENSG00000100036	ENST00000343605	protein_coding	KNOWN	CCDS13882	17058	1053	350	31031639	31043880	1	None	None
22	SLC35E4	ENSG00000100036	ENST00000406566	protein_coding	KNOWN	None	17058	705	234	31032310	31059286	1	None	None
22	SLC35E4	ENSG00000100036	ENST00000451479	protein_coding	PUTATIVE	None	17058	612	203	31032510	31065003	1	None	None
22	SLC35E4	ENSG00000100036	ENST00000300385	protein_coding	KNOWN	None	17058	705	234	31031793	31045232	1	None	None
10	C10orf131	ENSG00000173088	ENST00000602648	protein_coding	KNOWN	None	31667	184	60	97667360	97684569	1	None	bA690P14.3
10	C10orf131	ENSG00000173088	ENST00000423344	protein_coding	KNOWN	CCDS58090	31667	531	176	97667722	97698480	1	None	bA690P14.3
16	None	ENSG00000214325	ENST00000398113	protein_coding	KNOWN	None	None	450	149	75728367	75734044	-1	None	None
16	None	ENSG00000214325	ENST00000538623	protein_coding	KNOWN	None	None	456	151	75729841	75734089	-1	None	None
5	GCNT4	ENSG00000176928	ENST00000322348	protein_coding	KNOWN	CCDS4026	17973	1362	453	74323289	74326724	-1	None	C2GNT3
6	LIN28B	ENSG00000187772	ENST00000345080	protein_coding	KNOWN	CCDS34504	32207	753	250	105404923	105531207	1	None	FLJ16517, CSDD2
22	DUSP18	ENSG00000167065	ENST00000430175	nonsense_mediated_decay	KNOWN	None	18484	70	22	31048038	31059493	-1	None	DUSP20
22	DUSP18	ENSG00000167065	ENST00000404885	protein_coding	KNOWN	CCDS13883	18484	567	188	31048038	31063830	-1	None	DUSP20
22	DUSP18	ENSG00000167065	ENST00000407308	protein_coding	KNOWN	CCDS13883	18484	567	188	31048038	31063847	-1	None	DUSP20
22	DUSP18	ENSG00000167065	ENST00000461301	processed_transcript	PUTATIVE	None	18484	None	None	31048083	31063874	-1	None	DUSP20
22	DUSP18	ENSG00000167065	ENST00000377087	nonsense_mediated_decay	KNOWN	CCDS13883	18484	567	188	31050133	31063796	-1	None	DUSP20
22	DUSP18	ENSG00000167065	ENST00000412865	nonsense_mediated_decay	KNOWN	None	18484	21	6	31050171	31059444	-1	None	DUSP20
22	DUSP18	ENSG00000167065	ENST00000403268	protein_coding	PUTATIVE	None	18484	354	117	31057432	31063842	-1	None	DUSP20
22	DUSP18	ENSG00000167065	ENST00000334679	protein_coding	KNOWN	CCDS13883	18484	567	188	31058018	31063877	-1	None	DUSP20
22	DUSP18	ENSG00000167065	ENST00000342474	protein_coding	KNOWN	None	18484	489	162	31059502	31063872	-1	None	DUSP20
22	DUSP18	ENSG00000167065	ENST00000442752	protein_coding	KNOWN	None	18484	33	10	31059958	31063340	-1	None	DUSP20
11	FAM86C1	ENSG00000158483	ENST00000346333	protein_coding	KNOWN	CCDS8202	25561	396	131	71498556	71512280	1	FAM86C	FLJ10661, FLJ27199
11	FAM86C1	ENSG00000158483	ENST00000526393	nonsense_mediated_decay	KNOWN	None	25561	162	53	71498557	71507986	1	FAM86C	FLJ10661, FLJ27199
11	FAM86C1	ENSG00000158483	ENST00000510443	nonsense_mediated_decay	KNOWN	None	25561	162	53	71498560	71511770	1	FAM86C	FLJ10661, FLJ27199
11	FAM86C1	ENSG00000158483	ENST00000359244	protein_coding	KNOWN	CCDS41686	25561	498	165	71498560	71512282	1	FAM86C	FLJ10661, FLJ27199
11	FAM86C1	ENSG00000158483	ENST00000426628	protein_coding	KNOWN	CCDS44664	25561	477	158	71498564	71511149	1	FAM86C	FLJ10661, FLJ27199
11	FAM86C1	ENSG00000158483	ENST00000528685	protein_coding	PUTATIVE	None	25561	378	125	71498583	71511145	1	FAM86C	FLJ10661, FLJ27199
15	NPTN	ENSG00000156642	ENST00000345330	protein_coding	KNOWN	CCDS10249	17867	1197	398	73852355	73925754	-1	SDFR1	SDR1, GP55, GP65, np65, np55
15	NPTN	ENSG00000156642	ENST00000351217	protein_coding	KNOWN	CCDS10250	17867	849	282	73852355	73926475	-1	SDFR1	SDR1, GP55, GP65, np65, np55
15	NPTN	ENSG00000156642	ENST00000565325	protein_coding	PUTATIVE	None	17867	554	183	73853158	73925586	-1	SDFR1	SDR1, GP55, GP65, np65, np55
15	NPTN	ENSG00000156642	ENST00000562924	protein_coding	KNOWN	CCDS58379	17867	837	278	73853175	73925584	-1	SDFR1	SDR1, GP55, GP65, np65, np55
15	NPTN	ENSG00000156642	ENST00000561898	retained_intron	KNOWN	None	17867	None	None	73853275	73855833	-1	SDFR1	SDR1, GP55, GP65, np65, np55
15	NPTN	ENSG00000156642	ENST00000563691	protein_coding	KNOWN	CCDS58380	17867	1185	394	73854251	73925585	-1	SDFR1	SDR1, GP55, GP65, np65, np55
15	NPTN	ENSG00000156642	ENST00000565282	protein_coding	PUTATIVE	None	17867	925	307	73862569	73925146	-1	SDFR1	SDR1, GP55, GP65, np65, np55
15	NPTN	ENSG00000156642	ENST00000564551	processed_transcript	KNOWN	None	17867	None	None	73862615	73925568	-1	SDFR1	SDR1, GP55, GP65, np65, np55
15	NPTN	ENSG00000156642	ENST00000563753	retained_intron	KNOWN	None	17867	None	None	73883977	73925562	-1	SDFR1	SDR1, GP55, GP65, np65, np55
15	NPTN	ENSG00000156642	ENST00000567198	protein_coding	PUTATIVE	None	17867	458	151	73884349	73925104	-1	SDFR1	SDR1, GP55, GP65, np65, np55
15	NPTN	ENSG00000156642	ENST00000542234	protein_coding	KNOWN	None	17867	582	193	73853158	73925586	-1	SDFR1	SDR1, GP55, GP65, np65, np55
15	NPTN	ENSG00000156642	ENST00000545878	protein_coding	KNOWN	None	17867	1185	394	73854251	73925744	-1	SDFR1	SDR1, GP55, GP65, np65, np55
15	NPTN	ENSG00000156642	ENST00000287226	protein_coding	KNOWN	None	17867	1017	338	73862539	73925744	-1	SDFR1	SDR1, GP55, GP65, np65, np55
10	None	ENSG00000269948	ENST00000472454	protein_coding	NOVEL	None	None	1326	441	97709725	97744452	1	None	None
10	None	ENSG00000269948	ENST00000469549	nonsense_mediated_decay	KNOWN	None	None	442	146	97715183	97744785	1	None	None
10	None	ENSG00000269948	ENST00000484685	retained_intron	KNOWN	None	None	None	None	97721331	97725710	1	None	None
X	LAS1L	ENSG00000001497	ENST00000374807	protein_coding	KNOWN	CCDS55434	25726	2154	717	64732462	64754634	-1	None	FLJ12525
X	LAS1L	ENSG00000001497	ENST00000374811	protein_coding	KNOWN	CCDS14381	25726	2205	734	64732462	64754636	-1	None	FLJ12525
X	LAS1L	ENSG00000001497	ENST00000374804	protein_coding	KNOWN	CCDS55433	25726	2028	675	64732463	64754636	-1	None	FLJ12525
X	LAS1L	ENSG00000001497	ENST00000484069	nonsense_mediated_decay	KNOWN	None	25726	876	291	64732463	64754655	-1	None	FLJ12525
X	LAS1L	ENSG00000001497	ENST00000469091	protein_coding	PUTATIVE	None	25726	221	72	64740309	64743497	-1	None	FLJ12525
X	LAS1L	ENSG00000001497	ENST00000312391	protein_coding	KNOWN	None	25726	876	291	64732463	64754636	-1	None	FLJ12525
7	NCF1	ENSG00000158517	ENST00000289473	protein_coding	KNOWN	CCDS34657	7660	1173	390	74188309	74203657	1	None	p47phox, NOXO2, NCF1A, SH3PXD1A
7	NCF1	ENSG00000158517	ENST00000438106	processed_transcript	KNOWN	None	7660	None	None	74188358	74195968	1	None	p47phox, NOXO2, NCF1A, SH3PXD1A
7	NCF1	ENSG00000158517	ENST00000433458	protein_coding	NOVEL	None	7660	563	186	74188358	74197323	1	None	p47phox, NOXO2, NCF1A, SH3PXD1A
7	NCF1	ENSG00000158517	ENST00000449343	retained_intron	KNOWN	None	7660	None	None	74188358	74197883	1	None	p47phox, NOXO2, NCF1A, SH3PXD1A
7	NCF1	ENSG00000158517	ENST00000398421	retained_intron	KNOWN	None	7660	None	None	74188358	74203658	1	None	p47phox, NOXO2, NCF1A, SH3PXD1A
7	NCF1	ENSG00000158517	ENST00000455062	retained_intron	KNOWN	None	7660	None	None	74188372	74203659	1	None	p47phox, NOXO2, NCF1A, SH3PXD1A
7	NCF1	ENSG00000158517	ENST00000443956	processed_transcript	KNOWN	None	7660	None	None	74191155	74197975	1	None	p47phox, NOXO2, NCF1A, SH3PXD1A
7	NCF1	ENSG00000158517	ENST00000442021	protein_coding	NOVEL	None	7660	439	145	74191613	74195148	1	None	p47phox, NOXO2, NCF1A, SH3PXD1A
7	NCF1	ENSG00000158517	ENST00000464878	retained_intron	KNOWN	None	7660	None	None	74193730	74197960	1	None	p47phox, NOXO2, NCF1A, SH3PXD1A
7	NCF1	ENSG00000158517	ENST00000488197	retained_intron	KNOWN	None	7660	None	None	74194742	74197748	1	None	p47phox, NOXO2, NCF1A, SH3PXD1A
7	NCF1	ENSG00000158517	ENST00000486097	processed_transcript	PUTATIVE	None	7660	None	None	74197786	74199892	1	None	p47phox, NOXO2, NCF1A, SH3PXD1A
HSCHR6_MHC_DBB	NCR3	ENSG00000237103	ENST00000495644	processed_transcript	KNOWN	None	19077	None	None	31538820	31542737	-1	LY117	1C7, NKp30, CD337
HSCHR6_MHC_DBB	NCR3	ENSG00000237103	ENST00000491762	processed_transcript	KNOWN	None	19077	None	None	31538820	31542884	-1	LY117	1C7, NKp30, CD337
HSCHR6_MHC_DBB	NCR3	ENSG00000237103	ENST00000415123	protein_coding	KNOWN	None	19077	606	201	31538820	31542910	-1	LY117	1C7, NKp30, CD337
HSCHR6_MHC_DBB	NCR3	ENSG00000237103	ENST00000439584	protein_coding	KNOWN	None	19077	534	177	31538820	31542910	-1	LY117	1C7, NKp30, CD337
HSCHR6_MHC_DBB	NCR3	ENSG00000237103	ENST00000436623	protein_coding	KNOWN	None	19077	573	190	31539199	31542910	-1	LY117	1C7, NKp30, CD337
HSCHR6_MHC_DBB	NCR3	ENSG00000237103	ENST00000455448	protein_coding	KNOWN	None	19077	498	165	31539222	31542674	-1	LY117	1C7, NKp30, CD337
HSCHR6_MHC_DBB	NCR3	ENSG00000237103	ENST00000480313	nonsense_mediated_decay	KNOWN	None	19077	348	115	31539222	31542674	-1	LY117	1C7, NKp30, CD337
1	RNF115	ENSG00000121848	ENST00000369291	protein_coding	KNOWN	CCDS922	18154	915	304	145611036	145690661	1	ZNF364	CL469780
1	RNF115	ENSG00000121848	ENST00000539368	nonsense_mediated_decay	KNOWN	None	18154	168	55	145611050	145687091	1	ZNF364	CL469780
1	RNF115	ENSG00000121848	ENST00000542738	nonsense_mediated_decay	KNOWN	None	18154	143	46	145611295	145663273	1	ZNF364	CL469780
1	PPT1	ENSG00000131238	ENST00000433473	protein_coding	KNOWN	CCDS447	9325	921	306	40538379	40563375	-1	PPT	CLN1, INCL
1	PPT1	ENSG00000131238	ENST00000529905	nonsense_mediated_decay	KNOWN	CCDS447	9325	921	306	40538610	40562917	-1	PPT	CLN1, INCL
1	PPT1	ENSG00000131238	ENST00000530704	nonsense_mediated_decay	KNOWN	None	9325	447	148	40539424	40562924	-1	PPT	CLN1, INCL
1	PPT1	ENSG00000131238	ENST00000372775	processed_transcript	KNOWN	None	9325	None	None	40539488	40544507	-1	PPT	CLN1, INCL
1	PPT1	ENSG00000131238	ENST00000449045	protein_coding	KNOWN	CCDS44119	9325	612	203	40539510	40562924	-1	PPT	CLN1, INCL
1	PPT1	ENSG00000131238	ENST00000439754	protein_coding	NOVEL	None	9325	534	177	40539608	40557763	-1	PPT	CLN1, INCL
1	PPT1	ENSG00000131238	ENST00000530076	protein_coding	PUTATIVE	None	9325	264	87	40539706	40547993	-1	PPT	CLN1, INCL
1	PPT1	ENSG00000131238	ENST00000527311	protein_coding	NOVEL	None	9325	614	203	40539815	40562919	-1	PPT	CLN1, INCL
1	PPT1	ENSG00000131238	ENST00000372779	protein_coding	NOVEL	None	9325	813	270	40544232	40562924	-1	PPT	CLN1, INCL
1	PPT1	ENSG00000131238	ENST00000527107	protein_coding	NOVEL	None	9325	547	181	40544294	40562925	-1	PPT	CLN1, INCL
1	PPT1	ENSG00000131238	ENST00000526547	protein_coding	PUTATIVE	None	9325	294	97	40555174	40562725	-1	PPT	CLN1, INCL
19	EIF3G	ENSG00000130811	ENST00000253108	protein_coding	KNOWN	CCDS12227	3274	963	320	10225693	10230578	-1	EIF3S4	eIF3-delta, eIF3-p44, eIF3g
19	EIF3G	ENSG00000130811	ENST00000593054	protein_coding	NOVEL	None	3274	357	118	10225694	10227503	-1	EIF3S4	eIF3-delta, eIF3-p44, eIF3g
19	EIF3G	ENSG00000130811	ENST00000590158	retained_intron	KNOWN	None	3274	None	None	10225738	10227364	-1	EIF3S4	eIF3-delta, eIF3-p44, eIF3g
19	EIF3G	ENSG00000130811	ENST00000589454	protein_coding	NOVEL	None	3274	868	288	10226210	10230540	-1	EIF3S4	eIF3-delta, eIF3-p44, eIF3g
19	EIF3G	ENSG00000130811	ENST00000587146	protein_coding	NOVEL	None	3274	682	226	10226413	10230562	-1	EIF3S4	eIF3-delta, eIF3-p44, eIF3g
19	EIF3G	ENSG00000130811	ENST00000588709	protein_coding	NOVEL	None	3274	788	261	10226418	10230575	-1	EIF3S4	eIF3-delta, eIF3-p44, eIF3g
19	EIF3G	ENSG00000130811	ENST00000589009	retained_intron	KNOWN	None	3274	None	None	10226726	10230581	-1	EIF3S4	eIF3-delta, eIF3-p44, eIF3g
19	EIF3G	ENSG00000130811	ENST00000587590	retained_intron	KNOWN	None	3274	None	None	10227094	10230551	-1	EIF3S4	eIF3-delta, eIF3-p44, eIF3g
19	EIF3G	ENSG00000130811	ENST00000593066	nonsense_mediated_decay	KNOWN	None	3274	159	52	10227512	10230545	-1	EIF3S4	eIF3-delta, eIF3-p44, eIF3g
19	EIF3G	ENSG00000130811	ENST00000589674	retained_intron	KNOWN	None	3274	None	None	10227577	10228266	-1	EIF3S4	eIF3-delta, eIF3-p44, eIF3g
19	EIF3G	ENSG00000130811	ENST00000593095	nonsense_mediated_decay	KNOWN	None	3274	450	149	10227612	10230594	-1	EIF3S4	eIF3-delta, eIF3-p44, eIF3g
19	EIF3G	ENSG00000130811	ENST00000587993	nonsense_mediated_decay	KNOWN	None	3274	123	40	10227619	10230554	-1	EIF3S4	eIF3-delta, eIF3-p44, eIF3g
19	EIF3G	ENSG00000130811	ENST00000586151	nonsense_mediated_decay	KNOWN	None	3274	159	52	10227761	10230551	-1	EIF3S4	eIF3-delta, eIF3-p44, eIF3g
19	EIF3G	ENSG00000130811	ENST00000590940	retained_intron	KNOWN	None	3274	None	None	10228752	10230376	-1	EIF3S4	eIF3-delta, eIF3-p44, eIF3g
19	EIF3G	ENSG00000130811	ENST00000589458	retained_intron	KNOWN	None	3274	None	None	10228774	10230596	-1	EIF3S4	eIF3-delta, eIF3-p44, eIF3g
19	EIF3G	ENSG00000130811	ENST00000587681	retained_intron	KNOWN	None	3274	None	None	10229046	10230584	-1	EIF3S4	eIF3-delta, eIF3-p44, eIF3g
19	EIF3G	ENSG00000130811	ENST00000587168	processed_transcript	KNOWN	None	3274	None	None	10229560	10230524	-1	EIF3S4	eIF3-delta, eIF3-p44, eIF3g
19	EIF3G	ENSG00000130811	ENST00000592485	retained_intron	KNOWN	None	3274	None	None	10229563	10230594	-1	EIF3S4	eIF3-delta, eIF3-p44, eIF3g
19	EIF3G	ENSG00000130811	ENST00000590647	retained_intron	KNOWN	None	3274	None	None	10229697	10230127	-1	EIF3S4	eIF3-delta, eIF3-p44, eIF3g
13	PHF11	ENSG00000136147	ENST00000482487	retained_intron	KNOWN	None	17024	None	None	50069746	50095169	1	None	NY-REN-34, BCAP, IGER
13	PHF11	ENSG00000136147	ENST00000481509	processed_transcript	KNOWN	None	17024	None	None	50069801	50092196	1	None	NY-REN-34, BCAP, IGER
13	PHF11	ENSG00000136147	ENST00000378319	protein_coding	KNOWN	CCDS31975	17024	996	331	50070097	50103123	1	None	NY-REN-34, BCAP, IGER
13	PHF11	ENSG00000136147	ENST00000496623	retained_intron	KNOWN	None	17024	None	None	50070106	50092970	1	None	NY-REN-34, BCAP, IGER
13	PHF11	ENSG00000136147	ENST00000467763	processed_transcript	KNOWN	None	17024	None	None	50070120	50096196	1	None	NY-REN-34, BCAP, IGER
13	PHF11	ENSG00000136147	ENST00000476953	processed_transcript	KNOWN	None	17024	None	None	50070149	50096224	1	None	NY-REN-34, BCAP, IGER
13	PHF11	ENSG00000136147	ENST00000426879	protein_coding	KNOWN	None	17024	860	285	50070152	50102844	1	None	NY-REN-34, BCAP, IGER
13	PHF11	ENSG00000136147	ENST00000487433	processed_transcript	KNOWN	None	17024	None	None	50070372	50092287	1	None	NY-REN-34, BCAP, IGER
13	PHF11	ENSG00000136147	ENST00000496612	protein_coding	PUTATIVE	None	17024	399	132	50070491	50097343	1	None	NY-REN-34, BCAP, IGER
13	PHF11	ENSG00000136147	ENST00000485919	protein_coding	KNOWN	None	17024	295	97	50070533	50092241	1	None	NY-REN-34, BCAP, IGER
13	PHF11	ENSG00000136147	ENST00000465045	nonsense_mediated_decay	KNOWN	None	17024	681	226	50070533	50103112	1	None	NY-REN-34, BCAP, IGER
13	PHF11	ENSG00000136147	ENST00000442195	protein_coding	KNOWN	None	17024	504	167	50070536	50097361	1	None	NY-REN-34, BCAP, IGER
13	PHF11	ENSG00000136147	ENST00000488958	protein_coding	KNOWN	CCDS41887	17024	879	292	50071249	50103112	1	None	NY-REN-34, BCAP, IGER
13	PHF11	ENSG00000136147	ENST00000495157	processed_transcript	KNOWN	None	17024	None	None	50096065	50102672	1	None	NY-REN-34, BCAP, IGER
13	PHF11	ENSG00000136147	ENST00000460489	processed_transcript	KNOWN	None	17024	None	None	50096073	50098216	1	None	NY-REN-34, BCAP, IGER
13	PHF11	ENSG00000136147	ENST00000488605	processed_transcript	KNOWN	None	17024	None	None	50096092	50101490	1	None	NY-REN-34, BCAP, IGER
13	PHF11	ENSG00000136147	ENST00000486276	retained_intron	KNOWN	None	17024	None	None	50100325	50103112	1	None	NY-REN-34, BCAP, IGER
13	PHF11	ENSG00000136147	ENST00000357596	protein_coding	KNOWN	CCDS41887	17024	879	292	50070528	50103117	1	None	NY-REN-34, BCAP, IGER
5	ANKRD31	ENSG00000145700	ENST00000504022	processed_transcript	KNOWN	None	26853	None	None	74364100	74464990	-1	None	FLJ40191
5	ANKRD31	ENSG00000145700	ENST00000510320	protein_coding	PUTATIVE	None	26853	579	192	74364122	74400169	-1	None	FLJ40191
5	ANKRD31	ENSG00000145700	ENST00000506364	protein_coding	PUTATIVE	None	26853	2174	723	74443062	74532703	-1	None	FLJ40191
5	ANKRD31	ENSG00000145700	ENST00000274361	protein_coding	KNOWN	None	26853	5622	1873	74364122	74532703	-1	None	FLJ40191
HSCHR6_MHC_MANN	None	ENSG00000257421	ENST00000547707	protein_coding	NOVEL	None	None	285	94	31670223	31701614	1	None	None
1	CD160	ENSG00000117281	ENST00000369288	protein_coding	KNOWN	CCDS923	17013	546	181	145695933	145715565	-1	None	BY55, NK1, NK28
1	CD160	ENSG00000117281	ENST00000369290	protein_coding	PUTATIVE	None	17013	378	125	145695933	145715614	-1	None	BY55, NK1, NK28
1	CD160	ENSG00000117281	ENST00000235933	protein_coding	KNOWN	CCDS923	17013	546	181	145695798	145706861	-1	None	BY55, NK1, NK28
1	CD160	ENSG00000117281	ENST00000401557	protein_coding	KNOWN	CCDS923	17013	546	181	145696593	145715614	-1	None	BY55, NK1, NK28
12	SENP1	ENSG00000079387	ENST00000552189	nonsense_mediated_decay	KNOWN	None	17927	393	130	48436681	48499617	-1	None	None
12	SENP1	ENSG00000079387	ENST00000551330	protein_coding	KNOWN	CCDS44868	17927	1935	644	48437348	48499591	-1	None	None
12	SENP1	ENSG00000079387	ENST00000549595	protein_coding	KNOWN	None	17927	1932	643	48439105	48495255	-1	None	None
12	SENP1	ENSG00000079387	ENST00000549518	protein_coding	KNOWN	CCDS44868	17927	1935	644	48439105	48500091	-1	None	None
12	SENP1	ENSG00000079387	ENST00000551358	retained_intron	KNOWN	None	17927	None	None	48457414	48459463	-1	None	None
12	SENP1	ENSG00000079387	ENST00000547886	processed_transcript	KNOWN	None	17927	None	None	48473867	48490210	-1	None	None
12	SENP1	ENSG00000079387	ENST00000551592	processed_transcript	KNOWN	None	17927	None	None	48473876	48491817	-1	None	None
12	SENP1	ENSG00000079387	ENST00000551798	protein_coding	PUTATIVE	None	17927	427	141	48477478	48499835	-1	None	None
12	SENP1	ENSG00000079387	ENST00000547181	retained_intron	KNOWN	None	17927	None	None	48482336	48499829	-1	None	None
12	SENP1	ENSG00000079387	ENST00000549882	retained_intron	KNOWN	None	17927	None	None	48491520	48499849	-1	None	None
12	SENP1	ENSG00000079387	ENST00000004980	protein_coding	KNOWN	CCDS44868	17927	1935	644	48436681	48499619	-1	None	None
12	SENP1	ENSG00000079387	ENST00000448372	protein_coding	KNOWN	None	17927	1932	643	48436757	48499641	-1	None	None
12	SENP1	ENSG00000079387	ENST00000339976	protein_coding	KNOWN	None	17927	489	162	48436681	48499619	-1	None	None
5	None	ENSG00000250529	ENST00000507950	lincRNA	KNOWN	None	None	None	None	5069305	5078424	-1	None	None
5	RN7SKP73	ENSG00000223007	ENST00000411075	misc_RNA	KNOWN	None	45797	None	None	5126159	5126450	1	None	None
5	None	ENSG00000250579	ENST00000512155	antisense	KNOWN	None	None	None	None	5132893	5140167	-1	None	None
16	C16orf89	ENSG00000153446	ENST00000586629	retained_intron	KNOWN	None	28687	None	None	5094123	5105378	-1	None	MGC45438
16	C16orf89	ENSG00000153446	ENST00000474471	protein_coding	NOVEL	None	28687	1305	434	5094123	5115972	-1	None	MGC45438
16	C16orf89	ENSG00000153446	ENST00000472572	protein_coding	KNOWN	CCDS45404	28687	1086	361	5094123	5116041	-1	None	MGC45438
16	C16orf89	ENSG00000153446	ENST00000315997	protein_coding	KNOWN	CCDS42116	28687	1209	402	5094123	5116111	-1	None	MGC45438
16	C16orf89	ENSG00000153446	ENST00000592343	retained_intron	KNOWN	None	28687	None	None	5097879	5108621	-1	None	MGC45438
16	C16orf89	ENSG00000153446	ENST00000591875	retained_intron	KNOWN	None	28687	None	None	5110225	5115920	-1	None	MGC45438
16	C16orf89	ENSG00000153446	ENST00000422873	protein_coding	KNOWN	None	28687	1200	399	5094124	5116111	-1	None	MGC45438
16	C16orf89	ENSG00000153446	ENST00000350219	protein_coding	KNOWN	None	28687	1323	440	5094124	5116111	-1	None	MGC45438
5	None	ENSG00000250866	ENST00000514848	antisense	KNOWN	None	None	None	None	5142251	5176327	-1	None	None
4	AGPAT9	ENSG00000138678	ENST00000514309	processed_transcript	PUTATIVE	None	28157	None	None	84457067	84465766	1	None	MGC11324, LPAAT-theta, MAG1, HMFN0839
4	AGPAT9	ENSG00000138678	ENST00000506766	processed_transcript	PUTATIVE	None	28157	None	None	84457128	84465766	1	None	MGC11324, LPAAT-theta, MAG1, HMFN0839
4	AGPAT9	ENSG00000138678	ENST00000395226	protein_coding	KNOWN	CCDS3606	28157	1305	434	84457261	84527028	1	None	MGC11324, LPAAT-theta, MAG1, HMFN0839
4	AGPAT9	ENSG00000138678	ENST00000509412	processed_transcript	PUTATIVE	None	28157	None	None	84457460	84465756	1	None	MGC11324, LPAAT-theta, MAG1, HMFN0839
4	AGPAT9	ENSG00000138678	ENST00000264409	protein_coding	KNOWN	CCDS3606	28157	1305	434	84457564	84527028	1	None	MGC11324, LPAAT-theta, MAG1, HMFN0839
4	AGPAT9	ENSG00000138678	ENST00000513683	retained_intron	KNOWN	None	28157	None	None	84509411	84516488	1	None	MGC11324, LPAAT-theta, MAG1, HMFN0839
4	AGPAT9	ENSG00000138678	ENST00000509044	processed_transcript	PUTATIVE	None	28157	None	None	84519682	84526292	1	None	MGC11324, LPAAT-theta, MAG1, HMFN0839
11	MACROD1	ENSG00000133315	ENST00000255681	protein_coding	KNOWN	CCDS8056	29598	978	325	63766030	63933533	-1	None	LRP16
11	MACROD1	ENSG00000133315	ENST00000542105	retained_intron	KNOWN	None	29598	None	None	63766032	63766694	-1	None	LRP16
11	MACROD1	ENSG00000133315	ENST00000538042	processed_transcript	KNOWN	None	29598	None	None	63766038	63766862	-1	None	LRP16
11	MACROD1	ENSG00000133315	ENST00000541041	processed_transcript	KNOWN	None	29598	None	None	63766042	63766833	-1	None	LRP16
11	MACROD1	ENSG00000133315	ENST00000543422	processed_transcript	KNOWN	None	29598	None	None	63766855	63894406	-1	None	LRP16
11	MACROD1	ENSG00000133315	ENST00000545464	retained_intron	KNOWN	None	29598	None	None	63767546	63933578	-1	None	LRP16
11	MACROD1	ENSG00000133315	ENST00000542359	processed_transcript	KNOWN	None	29598	None	None	63776485	63933247	-1	None	LRP16
11	MACROD1	ENSG00000133315	ENST00000538595	processed_transcript	KNOWN	None	29598	None	None	63916219	63933529	-1	None	LRP16
1	RLF	ENSG00000117000	ENST00000372771	protein_coding	KNOWN	CCDS448	10025	5745	1914	40627045	40706593	1	None	ZNF292L, Zn-15L
20	CRNKL1	ENSG00000101343	ENST00000377327	protein_coding	KNOWN	None	15762	2511	836	20015012	20036690	-1	None	CRN, CLF, SYF3, Clf1
20	CRNKL1	ENSG00000101343	ENST00000377340	protein_coding	KNOWN	CCDS33446	15762	2547	848	20015012	20036690	-1	None	CRN, CLF, SYF3, Clf1
20	CRNKL1	ENSG00000101343	ENST00000490910	nonsense_mediated_decay	KNOWN	None	15762	315	104	20015012	20036690	-1	None	CRN, CLF, SYF3, Clf1
20	CRNKL1	ENSG00000101343	ENST00000496549	nonsense_mediated_decay	KNOWN	None	15762	225	74	20015012	20036690	-1	None	CRN, CLF, SYF3, Clf1
20	CRNKL1	ENSG00000101343	ENST00000536226	protein_coding	PUTATIVE	None	15762	2064	687	20015018	20033110	-1	None	CRN, CLF, SYF3, Clf1
20	CRNKL1	ENSG00000101343	ENST00000521379	processed_transcript	PUTATIVE	None	15762	None	None	20016650	20019096	-1	None	CRN, CLF, SYF3, Clf1
20	CRNKL1	ENSG00000101343	ENST00000490258	retained_intron	KNOWN	None	15762	None	None	20016786	20019255	-1	None	CRN, CLF, SYF3, Clf1
HSCHR6_MHC_MANN	CSNK2B	ENSG00000232960	ENST00000428483	protein_coding	PUTATIVE	None	2460	705	234	31672506	31677340	1	None	None
HSCHR6_MHC_MANN	CSNK2B	ENSG00000232960	ENST00000454382	protein_coding	KNOWN	None	2460	648	215	31673334	31677340	1	None	None
HSCHR6_MHC_MANN	CSNK2B	ENSG00000232960	ENST00000461323	retained_intron	KNOWN	None	2460	None	None	31673351	31677613	1	None	None
HSCHR6_MHC_MANN	CSNK2B	ENSG00000232960	ENST00000485658	retained_intron	KNOWN	None	2460	None	None	31673357	31675511	1	None	None
HSCHR6_MHC_MANN	CSNK2B	ENSG00000232960	ENST00000471828	retained_intron	KNOWN	None	2460	None	None	31673364	31676734	1	None	None
HSCHR6_MHC_MANN	CSNK2B	ENSG00000232960	ENST00000468132	processed_transcript	KNOWN	None	2460	None	None	31673368	31677340	1	None	None
HSCHR6_MHC_MANN	CSNK2B	ENSG00000232960	ENST00000454511	protein_coding	KNOWN	None	2460	648	215	31673562	31677340	1	None	None
HSCHR6_MHC_MANN	CSNK2B	ENSG00000232960	ENST00000448596	protein_coding	KNOWN	None	2460	648	215	31673625	31677340	1	None	None
22	MAPK11	ENSG00000185386	ENST00000330651	protein_coding	KNOWN	CCDS14090	6873	1095	364	50702142	50708822	-1	PRKM11	p38-2, p38Beta, SAPK2
22	MAPK11	ENSG00000185386	ENST00000395764	nonsense_mediated_decay	KNOWN	CCDS14090	6873	1095	364	50702144	50708822	-1	PRKM11	p38-2, p38Beta, SAPK2
22	MAPK11	ENSG00000185386	ENST00000417877	nonsense_mediated_decay	KNOWN	None	6873	492	163	50702168	50708822	-1	PRKM11	p38-2, p38Beta, SAPK2
22	MAPK11	ENSG00000185386	ENST00000495277	processed_transcript	KNOWN	None	6873	None	None	50705567	50709196	-1	PRKM11	p38-2, p38Beta, SAPK2
22	MAPK11	ENSG00000185386	ENST00000449719	protein_coding	KNOWN	None	6873	642	213	50704578	50708793	-1	PRKM11	p38-2, p38Beta, SAPK2
7	FBXO24	ENSG00000106336	ENST00000461079	protein_coding	PUTATIVE	None	13595	391	129	100181605	100187980	1	None	FBX24
7	FBXO24	ENSG00000106336	ENST00000498195	processed_transcript	KNOWN	None	13595	None	None	100182855	100189469	1	None	FBX24
7	FBXO24	ENSG00000106336	ENST00000241071	protein_coding	KNOWN	CCDS5698	13595	1743	580	100183927	100198733	1	None	FBX24
7	FBXO24	ENSG00000106336	ENST00000488079	nonsense_mediated_decay	KNOWN	None	13595	114	37	100183969	100198740	1	None	FBX24
7	FBXO24	ENSG00000106336	ENST00000474649	retained_intron	KNOWN	None	13595	None	None	100184011	100190555	1	None	FBX24
7	FBXO24	ENSG00000106336	ENST00000465843	protein_coding	KNOWN	None	13595	957	318	100184249	100193244	1	None	FBX24
7	FBXO24	ENSG00000106336	ENST00000466053	protein_coding	PUTATIVE	None	13595	563	186	100184303	100189515	1	None	FBX24
7	FBXO24	ENSG00000106336	ENST00000468962	protein_coding	PUTATIVE	CCDS55138	13595	1707	568	100187196	100198648	1	None	FBX24
7	FBXO24	ENSG00000106336	ENST00000427939	protein_coding	KNOWN	CCDS5699	13595	1857	618	100187252	100198740	1	None	FBX24
7	FBXO24	ENSG00000106336	ENST00000360609	protein_coding	KNOWN	None	13595	957	318	100183956	100198738	1	None	FBX24
1	PDZK1	ENSG00000174827	ENST00000443667	protein_coding	KNOWN	None	8821	793	263	145726918	145754150	1	None	PDZD1, NHERF3
1	PDZK1	ENSG00000174827	ENST00000344770	protein_coding	KNOWN	CCDS924	8821	1560	519	145743263	145764074	1	None	PDZD1, NHERF3
1	PDZK1	ENSG00000174827	ENST00000429537	processed_transcript	KNOWN	None	8821	None	None	145761303	145764073	1	None	PDZD1, NHERF3
1	PDZK1	ENSG00000174827	ENST00000465595	processed_transcript	KNOWN	None	8821	None	None	145761349	145764072	1	None	PDZD1, NHERF3
1	PDZK1	ENSG00000174827	ENST00000466386	processed_transcript	KNOWN	None	8821	None	None	145762211	145764074	1	None	PDZD1, NHERF3
1	PDZK1	ENSG00000174827	ENST00000417171	protein_coding	KNOWN	CCDS924	8821	1560	519	145727724	145764067	1	None	PDZD1, NHERF3
1	PDZK1	ENSG00000174827	ENST00000451928	protein_coding	KNOWN	CCDS55629	8821	1227	408	145727725	145763793	1	None	PDZD1, NHERF3
16	CNTNAP4	ENSG00000152910	ENST00000469589	processed_transcript	KNOWN	None	18747	None	None	76311176	76593135	1	None	CASPR4, KIAA1763
16	CNTNAP4	ENSG00000152910	ENST00000469667	processed_transcript	KNOWN	None	18747	None	None	76311561	76592580	1	None	CASPR4, KIAA1763
16	CNTNAP4	ENSG00000152910	ENST00000471618	retained_intron	KNOWN	None	18747	None	None	76343750	76529095	1	None	CASPR4, KIAA1763
16	CNTNAP4	ENSG00000152910	ENST00000463177	processed_transcript	KNOWN	None	18747	None	None	76343777	76466457	1	None	CASPR4, KIAA1763
16	CNTNAP4	ENSG00000152910	ENST00000478060	protein_coding	KNOWN	CCDS10924	18747	3708	1235	76343794	76592580	1	None	CASPR4, KIAA1763
16	CNTNAP4	ENSG00000152910	ENST00000476707	protein_coding	PUTATIVE	None	18747	3936	1311	76350077	76592860	1	None	CASPR4, KIAA1763
16	CNTNAP4	ENSG00000152910	ENST00000307431	protein_coding	KNOWN	None	18747	3924	1307	76311176	76593128	1	None	CASPR4, KIAA1763
16	CNTNAP4	ENSG00000152910	ENST00000377504	protein_coding	KNOWN	None	18747	3780	1259	76311176	76593128	1	None	CASPR4, KIAA1763
1	TMCO2	ENSG00000188800	ENST00000468258	processed_transcript	KNOWN	None	23312	None	None	40711619	40717355	1	None	dJ39G22.2
1	TMCO2	ENSG00000188800	ENST00000372766	protein_coding	KNOWN	CCDS30684	23312	549	182	40713573	40717363	1	None	dJ39G22.2
7	DLD	ENSG00000091140	ENST00000205402	protein_coding	KNOWN	CCDS5749	2898	1530	509	107531415	107561648	1	LAD, GCSL	DLDH
7	DLD	ENSG00000091140	ENST00000485066	retained_intron	KNOWN	None	2898	None	None	107531607	107533999	1	LAD, GCSL	DLDH
7	DLD	ENSG00000091140	ENST00000415325	nonsense_mediated_decay	KNOWN	None	2898	177	58	107531609	107560038	1	LAD, GCSL	DLDH
7	DLD	ENSG00000091140	ENST00000417551	nonsense_mediated_decay	KNOWN	CCDS5749	2898	1530	509	107531609	107572175	1	LAD, GCSL	DLDH
7	DLD	ENSG00000091140	ENST00000440410	protein_coding	NOVEL	None	2898	1461	486	107531618	107560158	1	LAD, GCSL	DLDH
7	DLD	ENSG00000091140	ENST00000437604	protein_coding	NOVEL	None	2898	1386	461	107531619	107560100	1	LAD, GCSL	DLDH
7	DLD	ENSG00000091140	ENST00000453354	processed_transcript	KNOWN	None	2898	None	None	107531631	107545442	1	LAD, GCSL	DLDH
7	DLD	ENSG00000091140	ENST00000450038	nonsense_mediated_decay	KNOWN	None	2898	345	114	107531631	107545503	1	LAD, GCSL	DLDH
7	DLD	ENSG00000091140	ENST00000451081	nonsense_mediated_decay	KNOWN	None	2898	348	115	107531631	107556040	1	LAD, GCSL	DLDH
7	DLD	ENSG00000091140	ENST00000460577	retained_intron	KNOWN	None	2898	None	None	107531662	107544221	1	LAD, GCSL	DLDH
7	DLD	ENSG00000091140	ENST00000494441	processed_transcript	KNOWN	None	2898	None	None	107531875	107545834	1	LAD, GCSL	DLDH
7	DLD	ENSG00000091140	ENST00000478414	retained_intron	KNOWN	None	2898	None	None	107543948	107546208	1	LAD, GCSL	DLDH
7	DLD	ENSG00000091140	ENST00000489184	retained_intron	KNOWN	None	2898	None	None	107545113	107546814	1	LAD, GCSL	DLDH
7	DLD	ENSG00000091140	ENST00000537148	protein_coding	KNOWN	None	2898	1233	410	107531609	107560038	1	LAD, GCSL	DLDH
1	ZMPSTE24	ENSG00000084073	ENST00000372759	protein_coding	KNOWN	CCDS449	12877	1428	475	40723779	40759856	1	None	FACE-1, Ste24p, STE24, HGPS, PRO1
1	ZMPSTE24	ENSG00000084073	ENST00000479131	processed_transcript	KNOWN	None	12877	None	None	40723908	40728577	1	None	FACE-1, Ste24p, STE24, HGPS, PRO1
1	ZMPSTE24	ENSG00000084073	ENST00000472583	processed_transcript	KNOWN	None	12877	None	None	40723911	40733508	1	None	FACE-1, Ste24p, STE24, HGPS, PRO1
1	ZMPSTE24	ENSG00000084073	ENST00000474142	retained_intron	KNOWN	None	12877	None	None	40756317	40758293	1	None	FACE-1, Ste24p, STE24, HGPS, PRO1
4	None	ENSG00000228154	ENST00000506450	processed_pseudogene	KNOWN	None	None	None	None	25624399	25625223	1	None	None
12	ANAPC5	ENSG00000089053	ENST00000422342	retained_intron	KNOWN	None	15713	None	None	121746048	121748197	-1	None	APC5
12	ANAPC5	ENSG00000089053	ENST00000535641	retained_intron	KNOWN	None	15713	None	None	121746135	121773412	-1	None	APC5
12	ANAPC5	ENSG00000089053	ENST00000539079	nonsense_mediated_decay	KNOWN	None	15713	1189	395	121746160	121775196	-1	None	APC5
12	ANAPC5	ENSG00000089053	ENST00000441917	protein_coding	KNOWN	CCDS45000	15713	1932	643	121746160	121785686	-1	None	APC5
12	ANAPC5	ENSG00000089053	ENST00000534976	retained_intron	KNOWN	None	15713	None	None	121746160	121790107	-1	None	APC5
12	ANAPC5	ENSG00000089053	ENST00000541887	protein_coding	NOVEL	None	15713	2229	742	121746160	121790191	-1	None	APC5
12	ANAPC5	ENSG00000089053	ENST00000261819	protein_coding	KNOWN	CCDS9220	15713	2268	755	121746160	121790265	-1	None	APC5
12	ANAPC5	ENSG00000089053	ENST00000535482	protein_coding	PUTATIVE	None	15713	1266	421	121746161	121769194	-1	None	APC5
12	ANAPC5	ENSG00000089053	ENST00000544314	processed_transcript	KNOWN	None	15713	None	None	121746161	121773485	-1	None	APC5
12	ANAPC5	ENSG00000089053	ENST00000545218	processed_transcript	KNOWN	None	15713	None	None	121755693	121775134	-1	None	APC5
12	ANAPC5	ENSG00000089053	ENST00000366333	retained_intron	KNOWN	None	15713	None	None	121756338	121758914	-1	None	APC5
12	ANAPC5	ENSG00000089053	ENST00000535472	processed_transcript	KNOWN	None	15713	None	None	121764156	121775170	-1	None	APC5
12	ANAPC5	ENSG00000089053	ENST00000538334	retained_intron	KNOWN	None	15713	None	None	121764289	121772975	-1	None	APC5
12	ANAPC5	ENSG00000089053	ENST00000535463	retained_intron	KNOWN	None	15713	None	None	121766060	121766638	-1	None	APC5
12	ANAPC5	ENSG00000089053	ENST00000538223	processed_transcript	KNOWN	None	15713	None	None	121766802	121775198	-1	None	APC5
12	ANAPC5	ENSG00000089053	ENST00000539612	retained_intron	KNOWN	None	15713	None	None	121768386	121779874	-1	None	APC5
12	ANAPC5	ENSG00000089053	ENST00000541652	retained_intron	KNOWN	None	15713	None	None	121773320	121785678	-1	None	APC5
12	ANAPC5	ENSG00000089053	ENST00000544442	protein_coding	PUTATIVE	None	15713	653	216	121773336	121790188	-1	None	APC5
12	ANAPC5	ENSG00000089053	ENST00000536416	processed_transcript	KNOWN	None	15713	None	None	121783643	121790220	-1	None	APC5
12	ANAPC5	ENSG00000089053	ENST00000539871	protein_coding	NOVEL	None	15713	649	215	121783727	121790198	-1	None	APC5
12	ANAPC5	ENSG00000089053	ENST00000536837	protein_coding	KNOWN	None	15713	133	43	121783802	121837699	-1	None	APC5
12	ANAPC5	ENSG00000089053	ENST00000545801	retained_intron	KNOWN	None	15713	None	None	121784598	121790130	-1	None	APC5
12	ANAPC5	ENSG00000089053	ENST00000344395	protein_coding	KNOWN	CCDS45000	15713	1932	643	121746283	121784798	-1	None	APC5
12	ANAPC5	ENSG00000089053	ENST00000536366	protein_coding	KNOWN	None	15713	660	219	121766228	121783868	-1	None	APC5
4	None	ENSG00000242640	ENST00000496507	processed_pseudogene	KNOWN	None	None	None	None	25680472	25680642	1	None	None
4	KIT	ENSG00000157404	ENST00000412167	protein_coding	NOVEL	CCDS47058	6342	2919	972	55524085	55605177	1	PBT	CD117, SCFR, C-Kit
4	KIT	ENSG00000157404	ENST00000288135	protein_coding	KNOWN	CCDS3496	6342	2931	976	55524085	55606881	1	PBT	CD117, SCFR, C-Kit
4	KIT	ENSG00000157404	ENST00000514582	retained_intron	KNOWN	None	6342	None	None	55524106	55562072	1	PBT	CD117, SCFR, C-Kit
4	KIT	ENSG00000157404	ENST00000512959	retained_intron	KNOWN	None	6342	None	None	55595458	55599567	1	PBT	CD117, SCFR, C-Kit
4	None	ENSG00000249277	ENST00000511788	processed_pseudogene	KNOWN	None	None	None	None	25687824	25688080	-1	None	None
11	MRVI1	ENSG00000072952	ENST00000423302	protein_coding	NOVEL	CCDS55746	7237	2739	912	10594642	10715299	-1	None	JAW1L, IRAG
11	MRVI1	ENSG00000072952	ENST00000558540	protein_coding	KNOWN	CCDS44540	7237	1794	597	10597307	10715099	-1	None	JAW1L, IRAG
11	MRVI1	ENSG00000072952	ENST00000541483	protein_coding	NOVEL	CCDS55745	7237	2121	706	10597552	10715169	-1	None	JAW1L, IRAG
11	MRVI1	ENSG00000072952	ENST00000531107	protein_coding	NOVEL	CCDS44538	7237	2715	904	10597771	10673833	-1	None	JAW1L, IRAG
11	MRVI1	ENSG00000072952	ENST00000527509	protein_coding	KNOWN	CCDS44539	7237	2466	821	10597853	10715123	-1	None	JAW1L, IRAG
11	MRVI1	ENSG00000072952	ENST00000534266	protein_coding	NOVEL	CCDS44540	7237	1794	597	10597871	10673923	-1	None	JAW1L, IRAG
11	MRVI1	ENSG00000072952	ENST00000529448	nonsense_mediated_decay	KNOWN	None	7237	264	87	10597871	10715161	-1	None	JAW1L, IRAG
11	MRVI1	ENSG00000072952	ENST00000526414	nonsense_mediated_decay	KNOWN	None	7237	1287	428	10603453	10715069	-1	None	JAW1L, IRAG
11	MRVI1	ENSG00000072952	ENST00000529471	retained_intron	KNOWN	None	7237	None	None	10613123	10615570	-1	None	JAW1L, IRAG
11	MRVI1	ENSG00000072952	ENST00000533631	nonsense_mediated_decay	KNOWN	None	7237	354	117	10631308	10655531	-1	None	JAW1L, IRAG
11	MRVI1	ENSG00000072952	ENST00000532037	processed_transcript	KNOWN	None	7237	None	None	10651232	10715504	-1	None	JAW1L, IRAG
11	MRVI1	ENSG00000072952	ENST00000529547	protein_coding	PUTATIVE	None	7237	207	68	10653575	10715061	-1	None	JAW1L, IRAG
11	MRVI1	ENSG00000072952	ENST00000531786	processed_transcript	KNOWN	None	7237	None	None	10653579	10715351	-1	None	JAW1L, IRAG
11	MRVI1	ENSG00000072952	ENST00000529068	nonsense_mediated_decay	KNOWN	None	7237	191	62	10655515	10715133	-1	None	JAW1L, IRAG
11	MRVI1	ENSG00000072952	ENST00000531308	nonsense_mediated_decay	KNOWN	None	7237	207	68	10673651	10715169	-1	None	JAW1L, IRAG
11	MRVI1	ENSG00000072952	ENST00000421747	protein_coding	KNOWN	None	7237	2712	903	10594638	10673848	-1	None	JAW1L, IRAG
11	MRVI1	ENSG00000072952	ENST00000436272	protein_coding	KNOWN	None	7237	2658	885	10594638	10673848	-1	None	JAW1L, IRAG
11	MRVI1	ENSG00000072952	ENST00000547195	protein_coding	KNOWN	CCDS44539	7237	2466	821	10594638	10715535	-1	None	JAW1L, IRAG
11	MRVI1	ENSG00000072952	ENST00000552103	protein_coding	KNOWN	CCDS44539	7237	2466	821	10594638	10673848	-1	None	JAW1L, IRAG
11	MRVI1	ENSG00000072952	ENST00000545852	protein_coding	KNOWN	CCDS44540	7237	1794	597	10594638	10673848	-1	None	JAW1L, IRAG
11	MRVI1	ENSG00000072952	ENST00000424001	protein_coding	KNOWN	CCDS44540	7237	1794	597	10594638	10673732	-1	None	JAW1L, IRAG
4	NELFA	ENSG00000185049	ENST00000382882	protein_coding	KNOWN	CCDS3358	12768	1620	539	1984441	2011837	-1	WHSC2	NELF-A
4	NELFA	ENSG00000185049	ENST00000467661	retained_intron	KNOWN	None	12768	None	None	1984450	1988287	-1	WHSC2	NELF-A
4	NELFA	ENSG00000185049	ENST00000463820	retained_intron	KNOWN	None	12768	None	None	1984457	1993971	-1	WHSC2	NELF-A
4	NELFA	ENSG00000185049	ENST00000416258	protein_coding	NOVEL	None	12768	1599	532	1984457	1994351	-1	WHSC2	NELF-A
4	NELFA	ENSG00000185049	ENST00000333877	nonsense_mediated_decay	KNOWN	None	12768	261	86	1984457	2010910	-1	WHSC2	NELF-A
4	NELFA	ENSG00000185049	ENST00000453740	protein_coding	NOVEL	None	12768	738	245	1986535	1992228	-1	WHSC2	NELF-A
4	NELFA	ENSG00000185049	ENST00000431323	protein_coding	NOVEL	None	12768	883	293	1987841	2010724	-1	WHSC2	NELF-A
4	NELFA	ENSG00000185049	ENST00000455762	protein_coding	PUTATIVE	None	12768	624	207	1987842	2043630	-1	WHSC2	NELF-A
4	NELFA	ENSG00000185049	ENST00000488452	retained_intron	KNOWN	None	12768	None	None	1988007	1991781	-1	WHSC2	NELF-A
4	NELFA	ENSG00000185049	ENST00000421397	nonsense_mediated_decay	KNOWN	None	12768	198	65	1988109	2010575	-1	WHSC2	NELF-A
4	NELFA	ENSG00000185049	ENST00000484545	retained_intron	KNOWN	None	12768	None	None	1989228	1991483	-1	WHSC2	NELF-A
4	NELFA	ENSG00000185049	ENST00000411649	protein_coding	NOVEL	None	12768	561	186	1989669	2010562	-1	WHSC2	NELF-A
4	NELFA	ENSG00000185049	ENST00000443203	nonsense_mediated_decay	KNOWN	None	12768	309	102	1993315	2010699	-1	WHSC2	NELF-A
4	NELFA	ENSG00000185049	ENST00000458616	nonsense_mediated_decay	KNOWN	None	12768	376	124	2005565	2010669	-1	WHSC2	NELF-A
4	NELFA	ENSG00000185049	ENST00000411638	protein_coding	KNOWN	None	12768	1587	528	1984746	2011837	-1	WHSC2	NELF-A
4	NELFA	ENSG00000185049	ENST00000542778	protein_coding	KNOWN	None	12768	1182	393	1984457	2010694	-1	WHSC2	NELF-A
16	MVD	ENSG00000167508	ENST00000565149	retained_intron	KNOWN	None	7529	None	None	88718343	88723674	-1	None	MPD
16	MVD	ENSG00000167508	ENST00000301012	protein_coding	KNOWN	CCDS10968	7529	1203	400	88718343	88729518	-1	None	MPD
16	MVD	ENSG00000167508	ENST00000562981	retained_intron	KNOWN	None	7529	None	None	88718762	88719992	-1	None	MPD
16	MVD	ENSG00000167508	ENST00000561895	retained_intron	KNOWN	None	7529	None	None	88718918	88721393	-1	None	MPD
16	MVD	ENSG00000167508	ENST00000569177	protein_coding	NOVEL	None	7529	813	270	88721793	88729545	-1	None	MPD
16	MVD	ENSG00000167508	ENST00000567064	nonsense_mediated_decay	KNOWN	None	7529	156	51	88722065	88729499	-1	None	MPD
16	MVD	ENSG00000167508	ENST00000568133	nonsense_mediated_decay	KNOWN	None	7529	276	91	88722071	88729490	-1	None	MPD
16	MVD	ENSG00000167508	ENST00000563785	retained_intron	KNOWN	None	7529	None	None	88722242	88729502	-1	None	MPD
16	MVD	ENSG00000167508	ENST00000568709	processed_transcript	KNOWN	None	7529	None	None	88722513	88729437	-1	None	MPD
16	MVD	ENSG00000167508	ENST00000563170	retained_intron	KNOWN	None	7529	None	None	88722529	88729473	-1	None	MPD
16	MVD	ENSG00000167508	ENST00000566636	retained_intron	KNOWN	None	7529	None	None	88722578	88725191	-1	None	MPD
16	MVD	ENSG00000167508	ENST00000565720	processed_transcript	KNOWN	None	7529	None	None	88722669	88723915	-1	None	MPD
16	MVD	ENSG00000167508	ENST00000562651	retained_intron	KNOWN	None	7529	None	None	88723844	88727280	-1	None	MPD
16	MVD	ENSG00000167508	ENST00000565610	nonsense_mediated_decay	KNOWN	None	7529	126	41	88724352	88729556	-1	None	MPD
16	MVD	ENSG00000167508	ENST00000563463	processed_transcript	KNOWN	None	7529	None	None	88725381	88729487	-1	None	MPD
16	MVD	ENSG00000167508	ENST00000562741	processed_transcript	KNOWN	None	7529	None	None	88728510	88729569	-1	None	MPD
16	MVD	ENSG00000167508	ENST00000565842	processed_transcript	KNOWN	None	7529	None	None	88728523	88729454	-1	None	MPD
3	SLC25A20	ENSG00000178537	ENST00000430379	protein_coding	NOVEL	None	1421	687	228	48894369	48936337	-1	CACT	CAC
3	SLC25A20	ENSG00000178537	ENST00000319017	protein_coding	KNOWN	CCDS2779	1421	906	301	48894369	48936426	-1	CACT	CAC
3	SLC25A20	ENSG00000178537	ENST00000479050	retained_intron	KNOWN	None	1421	None	None	48894674	48896101	-1	CACT	CAC
3	SLC25A20	ENSG00000178537	ENST00000440964	nonsense_mediated_decay	KNOWN	None	1421	231	76	48894825	48936325	-1	CACT	CAC
3	SLC25A20	ENSG00000178537	ENST00000544097	protein_coding	KNOWN	None	1421	756	251	48894825	48936325	-1	CACT	CAC
HSCHR6_MHC_QBL	MICA	ENSG00000183214	ENST00000400322	protein_coding	KNOWN	None	7090	738	245	31357610	31373183	1	None	PERB11.1
HSCHR6_MHC_QBL	MICA	ENSG00000183214	ENST00000493320	processed_transcript	KNOWN	None	7090	None	None	31358473	31370152	1	None	PERB11.1
HSCHR6_MHC_QBL	MICA	ENSG00000183214	ENST00000400325	protein_coding	KNOWN	None	7090	1152	383	31358575	31373183	1	None	PERB11.1
HSCHR6_MHC_QBL	MICA	ENSG00000183214	ENST00000460798	nonsense_mediated_decay	KNOWN	None	7090	639	212	31361365	31374165	1	None	PERB11.1
HSCHR6_MHC_QBL	MICA	ENSG00000183214	ENST00000436191	protein_coding	KNOWN	None	7090	825	274	31361498	31373239	1	None	PERB11.1
HSCHR6_MHC_QBL	MICA	ENSG00000183214	ENST00000468652	retained_intron	KNOWN	None	7090	None	None	31368790	31370384	1	None	PERB11.1
HSCHR6_MHC_QBL	MICA	ENSG00000183214	ENST00000547609	protein_coding	KNOWN	None	7090	1152	383	31361420	31373237	1	None	PERB11.1
2	UGP2	ENSG00000169764	ENST00000394417	protein_coding	KNOWN	CCDS42690	12527	1494	497	64068074	64118696	1	UGP1	UGPP1
2	UGP2	ENSG00000169764	ENST00000466642	nonsense_mediated_decay	KNOWN	None	12527	159	52	64068086	64111244	1	UGP1	UGPP1
2	UGP2	ENSG00000169764	ENST00000484142	protein_coding	KNOWN	None	12527	147	48	64068088	64083567	1	UGP1	UGPP1
2	UGP2	ENSG00000169764	ENST00000482668	protein_coding	KNOWN	None	12527	314	103	64068103	64109691	1	UGP1	UGPP1
2	UGP2	ENSG00000169764	ENST00000467648	protein_coding	KNOWN	CCDS42690	12527	1494	497	64068103	64118585	1	UGP1	UGPP1
2	UGP2	ENSG00000169764	ENST00000497510	nonsense_mediated_decay	KNOWN	None	12527	231	76	64068105	64109735	1	UGP1	UGPP1
2	UGP2	ENSG00000169764	ENST00000483461	retained_intron	KNOWN	None	12527	None	None	64068127	64109854	1	UGP1	UGPP1
2	UGP2	ENSG00000169764	ENST00000480679	protein_coding	KNOWN	None	12527	114	37	64068128	64083567	1	UGP1	UGPP1
2	UGP2	ENSG00000169764	ENST00000483108	nonsense_mediated_decay	KNOWN	None	12527	147	48	64068138	64109637	1	UGP1	UGPP1
2	UGP2	ENSG00000169764	ENST00000487469	processed_transcript	KNOWN	None	12527	None	None	64068142	64113646	1	UGP1	UGPP1
2	UGP2	ENSG00000169764	ENST00000493222	nonsense_mediated_decay	KNOWN	None	12527	147	48	64068144	64109740	1	UGP1	UGPP1
2	UGP2	ENSG00000169764	ENST00000467400	nonsense_mediated_decay	KNOWN	None	12527	231	76	64068177	64109741	1	UGP1	UGPP1
2	UGP2	ENSG00000169764	ENST00000487640	nonsense_mediated_decay	KNOWN	None	12527	159	52	64068266	64090034	1	UGP1	UGPP1
2	UGP2	ENSG00000169764	ENST00000337130	protein_coding	KNOWN	CCDS1875	12527	1527	508	64068844	64118696	1	UGP1	UGPP1
2	UGP2	ENSG00000169764	ENST00000475550	retained_intron	KNOWN	None	12527	None	None	64068985	64118696	1	UGP1	UGPP1
2	UGP2	ENSG00000169764	ENST00000484056	processed_transcript	KNOWN	None	12527	None	None	64068991	64084752	1	UGP1	UGPP1
2	UGP2	ENSG00000169764	ENST00000488245	protein_coding	KNOWN	None	12527	406	134	64069036	64109783	1	UGP1	UGPP1
2	UGP2	ENSG00000169764	ENST00000497883	protein_coding	PUTATIVE	None	12527	525	174	64069240	64111201	1	UGP1	UGPP1
2	UGP2	ENSG00000169764	ENST00000445915	protein_coding	NOVEL	None	12527	1554	517	64069459	64118695	1	UGP1	UGPP1
2	UGP2	ENSG00000169764	ENST00000496334	nonsense_mediated_decay	KNOWN	None	12527	114	37	64069515	64111118	1	UGP1	UGPP1
2	UGP2	ENSG00000169764	ENST00000467999	nonsense_mediated_decay	KNOWN	None	12527	90	29	64069550	64111166	1	UGP1	UGPP1
2	UGP2	ENSG00000169764	ENST00000475462	protein_coding	KNOWN	None	12527	512	169	64069572	64111197	1	UGP1	UGPP1
2	UGP2	ENSG00000169764	ENST00000487042	nonsense_mediated_decay	KNOWN	None	12527	159	52	64069575	64112855	1	UGP1	UGPP1
2	UGP2	ENSG00000169764	ENST00000491621	protein_coding	KNOWN	None	12527	638	211	64073208	64112818	1	UGP1	UGPP1
2	UGP2	ENSG00000169764	ENST00000472047	protein_coding	KNOWN	None	12527	452	149	64081979	64111137	1	UGP1	UGPP1
2	UGP2	ENSG00000169764	ENST00000465515	retained_intron	KNOWN	None	12527	None	None	64083043	64085105	1	UGP1	UGPP1
2	UGP2	ENSG00000169764	ENST00000494536	retained_intron	KNOWN	None	12527	None	None	64083388	64109892	1	UGP1	UGPP1
2	UGP2	ENSG00000169764	ENST00000495020	processed_transcript	KNOWN	None	12527	None	None	64083898	64111152	1	UGP1	UGPP1
21	C21orf33	ENSG00000160221	ENST00000291577	protein_coding	KNOWN	CCDS33580	1273	807	268	45553487	45565605	1	None	KNP-Ia, GT335, ES1, HES1, D21S2048E, KNPI, KNPH, KNP-I
21	C21orf33	ENSG00000160221	ENST00000495007	retained_intron	KNOWN	None	1273	None	None	45553498	45564894	1	None	KNP-Ia, GT335, ES1, HES1, D21S2048E, KNPI, KNPH, KNP-I
21	C21orf33	ENSG00000160221	ENST00000427803	protein_coding	PUTATIVE	None	1273	654	217	45553500	45561299	1	None	KNP-Ia, GT335, ES1, HES1, D21S2048E, KNPI, KNPH, KNP-I
21	C21orf33	ENSG00000160221	ENST00000493883	processed_transcript	KNOWN	None	1273	None	None	45553521	45561299	1	None	KNP-Ia, GT335, ES1, HES1, D21S2048E, KNPI, KNPH, KNP-I
21	C21orf33	ENSG00000160221	ENST00000480786	retained_intron	KNOWN	None	1273	None	None	45553556	45560486	1	None	KNP-Ia, GT335, ES1, HES1, D21S2048E, KNPI, KNPH, KNP-I
21	C21orf33	ENSG00000160221	ENST00000348499	protein_coding	KNOWN	CCDS33581	1273	714	237	45553562	45565605	1	None	KNP-Ia, GT335, ES1, HES1, D21S2048E, KNPI, KNPH, KNP-I
21	C21orf33	ENSG00000160221	ENST00000389690	protein_coding	PUTATIVE	None	1273	675	224	45553661	45561299	1	None	KNP-Ia, GT335, ES1, HES1, D21S2048E, KNPI, KNPH, KNP-I
21	C21orf33	ENSG00000160221	ENST00000449622	protein_coding	NOVEL	None	1273	772	256	45553696	45565605	1	None	KNP-Ia, GT335, ES1, HES1, D21S2048E, KNPI, KNPH, KNP-I
21	C21orf33	ENSG00000160221	ENST00000488392	retained_intron	KNOWN	None	1273	None	None	45555989	45557457	1	None	KNP-Ia, GT335, ES1, HES1, D21S2048E, KNPI, KNPH, KNP-I
21	C21orf33	ENSG00000160221	ENST00000419699	protein_coding	PUTATIVE	None	1273	575	190	45556001	45565605	1	None	KNP-Ia, GT335, ES1, HES1, D21S2048E, KNPI, KNPH, KNP-I
21	C21orf33	ENSG00000160221	ENST00000470545	retained_intron	KNOWN	None	1273	None	None	45556756	45557448	1	None	KNP-Ia, GT335, ES1, HES1, D21S2048E, KNPI, KNPH, KNP-I
3	BFSP2	ENSG00000170819	ENST00000302334	protein_coding	KNOWN	CCDS33859	1041	1248	415	133118839	133194037	1	None	CP47, CP49, LIFL-L, phakinin
3	BFSP2	ENSG00000170819	ENST00000513441	processed_transcript	KNOWN	None	1041	None	None	133118918	133123718	1	None	CP47, CP49, LIFL-L, phakinin
3	BFSP2	ENSG00000170819	ENST00000511140	processed_transcript	KNOWN	None	1041	None	None	133119306	133131394	1	None	CP47, CP49, LIFL-L, phakinin
3	BFSP2	ENSG00000170819	ENST00000511434	processed_transcript	KNOWN	None	1041	None	None	133167910	133191359	1	None	CP47, CP49, LIFL-L, phakinin
3	BFSP2	ENSG00000170819	ENST00000510039	processed_transcript	KNOWN	None	1041	None	None	133169267	133194066	1	None	CP47, CP49, LIFL-L, phakinin
3	BFSP2	ENSG00000170819	ENST00000503047	retained_intron	KNOWN	None	1041	None	None	133191186	133194050	1	None	CP47, CP49, LIFL-L, phakinin
9	SEC16A	ENSG00000148396	ENST00000467838	processed_transcript	KNOWN	None	29006	None	None	139334553	139338534	-1	KIAA0310	p250
9	SEC16A	ENSG00000148396	ENST00000277537	protein_coding	KNOWN	None	29006	2256	751	139334553	139357413	-1	KIAA0310	p250
9	SEC16A	ENSG00000148396	ENST00000453963	protein_coding	KNOWN	None	29006	3180	1059	139334553	139361503	-1	KIAA0310	p250
9	SEC16A	ENSG00000148396	ENST00000371706	protein_coding	KNOWN	None	29006	6405	2134	139334553	139371567	-1	KIAA0310	p250
9	SEC16A	ENSG00000148396	ENST00000313084	protein_coding	KNOWN	None	29006	1158	385	139334555	139343294	-1	KIAA0310	p250
9	SEC16A	ENSG00000148396	ENST00000472305	processed_transcript	KNOWN	None	29006	None	None	139357395	139360498	-1	KIAA0310	p250
9	SEC16A	ENSG00000148396	ENST00000313050	protein_coding	KNOWN	CCDS55351	29006	7074	2357	139334549	139372141	-1	KIAA0310	p250
9	SEC16A	ENSG00000148396	ENST00000290037	protein_coding	KNOWN	None	29006	6480	2159	139336131	139371533	-1	KIAA0310	p250
9	SEC16A	ENSG00000148396	ENST00000431893	protein_coding	KNOWN	None	29006	6465	2154	139336131	139371533	-1	KIAA0310	p250
9	SEC16A	ENSG00000148396	ENST00000398335	protein_coding	KNOWN	None	29006	423	140	139340916	139345270	-1	KIAA0310	p250
8	PTK2B	ENSG00000120899	ENST00000397501	protein_coding	PUTATIVE	CCDS6057	9612	3030	1009	27168999	27316903	1	FAK2	CAKB, PYK2, RAFTK, PTK, CADTK
8	PTK2B	ENSG00000120899	ENST00000519650	processed_transcript	KNOWN	None	9612	None	None	27169084	27180334	1	FAK2	CAKB, PYK2, RAFTK, PTK, CADTK
8	PTK2B	ENSG00000120899	ENST00000522338	protein_coding	PUTATIVE	None	9612	205	67	27169146	27255306	1	FAK2	CAKB, PYK2, RAFTK, PTK, CADTK
8	PTK2B	ENSG00000120899	ENST00000521164	protein_coding	PUTATIVE	None	9612	311	102	27182862	27277518	1	FAK2	CAKB, PYK2, RAFTK, PTK, CADTK
8	PTK2B	ENSG00000120899	ENST00000346049	protein_coding	KNOWN	CCDS6057	9612	3030	1009	27182996	27316903	1	FAK2	CAKB, PYK2, RAFTK, PTK, CADTK
8	PTK2B	ENSG00000120899	ENST00000522517	protein_coding	PUTATIVE	None	9612	553	183	27184340	27279902	1	FAK2	CAKB, PYK2, RAFTK, PTK, CADTK
8	PTK2B	ENSG00000120899	ENST00000412793	protein_coding	PUTATIVE	None	9612	639	212	27238168	27287905	1	FAK2	CAKB, PYK2, RAFTK, PTK, CADTK
8	PTK2B	ENSG00000120899	ENST00000496920	processed_transcript	PUTATIVE	None	9612	None	None	27238171	27253812	1	FAK2	CAKB, PYK2, RAFTK, PTK, CADTK
8	PTK2B	ENSG00000120899	ENST00000517339	protein_coding	KNOWN	CCDS6058	9612	2904	967	27254969	27316903	1	FAK2	CAKB, PYK2, RAFTK, PTK, CADTK
8	PTK2B	ENSG00000120899	ENST00000521000	retained_intron	KNOWN	None	9612	None	None	27279793	27288723	1	FAK2	CAKB, PYK2, RAFTK, PTK, CADTK
8	PTK2B	ENSG00000120899	ENST00000519512	protein_coding	PUTATIVE	None	9612	582	193	27288404	27293825	1	FAK2	CAKB, PYK2, RAFTK, PTK, CADTK
8	PTK2B	ENSG00000120899	ENST00000397497	protein_coding	PUTATIVE	None	9612	1791	596	27288416	27310076	1	FAK2	CAKB, PYK2, RAFTK, PTK, CADTK
8	PTK2B	ENSG00000120899	ENST00000461615	retained_intron	KNOWN	None	9612	None	None	27289620	27292039	1	FAK2	CAKB, PYK2, RAFTK, PTK, CADTK
8	PTK2B	ENSG00000120899	ENST00000495097	retained_intron	KNOWN	None	9612	None	None	27294972	27295509	1	FAK2	CAKB, PYK2, RAFTK, PTK, CADTK
8	PTK2B	ENSG00000120899	ENST00000482543	retained_intron	KNOWN	None	9612	None	None	27310374	27312104	1	FAK2	CAKB, PYK2, RAFTK, PTK, CADTK
8	PTK2B	ENSG00000120899	ENST00000522245	retained_intron	KNOWN	None	9612	None	None	27311548	27315991	1	FAK2	CAKB, PYK2, RAFTK, PTK, CADTK
8	PTK2B	ENSG00000120899	ENST00000338238	protein_coding	KNOWN	CCDS6058	9612	2904	967	27168999	27316903	1	FAK2	CAKB, PYK2, RAFTK, PTK, CADTK
8	PTK2B	ENSG00000120899	ENST00000544172	protein_coding	KNOWN	CCDS6057	9612	3030	1009	27168999	27316903	1	FAK2	CAKB, PYK2, RAFTK, PTK, CADTK
8	PTK2B	ENSG00000120899	ENST00000420218	protein_coding	KNOWN	CCDS6058	9612	2904	967	27183081	27316903	1	FAK2	CAKB, PYK2, RAFTK, PTK, CADTK
13	UPF3A	ENSG00000169062	ENST00000375299	protein_coding	KNOWN	CCDS9543	20332	1431	476	115047059	115071283	1	None	RENT3A, UPF3, HUPF3A
13	UPF3A	ENSG00000169062	ENST00000492270	processed_transcript	PUTATIVE	None	20332	None	None	115047078	115047745	1	None	RENT3A, UPF3, HUPF3A
13	UPF3A	ENSG00000169062	ENST00000351487	protein_coding	KNOWN	CCDS9544	20332	1332	443	115047103	115071283	1	None	RENT3A, UPF3, HUPF3A
13	UPF3A	ENSG00000169062	ENST00000484246	processed_transcript	KNOWN	None	20332	None	None	115047120	115057232	1	None	RENT3A, UPF3, HUPF3A
13	UPF3A	ENSG00000169062	ENST00000480362	processed_transcript	KNOWN	None	20332	None	None	115047195	115070424	1	None	RENT3A, UPF3, HUPF3A
13	UPF3A	ENSG00000169062	ENST00000474056	processed_transcript	KNOWN	None	20332	None	None	115047400	115067267	1	None	RENT3A, UPF3, HUPF3A
13	UPF3A	ENSG00000169062	ENST00000493727	processed_transcript	KNOWN	None	20332	None	None	115047428	115067231	1	None	RENT3A, UPF3, HUPF3A
13	UPF3A	ENSG00000169062	ENST00000481131	processed_transcript	KNOWN	None	20332	None	None	115051450	115057193	1	None	RENT3A, UPF3, HUPF3A
13	UPF3A	ENSG00000169062	ENST00000479712	processed_transcript	KNOWN	None	20332	None	None	115051849	115057219	1	None	RENT3A, UPF3, HUPF3A
13	UPF3A	ENSG00000169062	ENST00000475218	processed_transcript	KNOWN	None	20332	None	None	115051860	115071283	1	None	RENT3A, UPF3, HUPF3A
17	SLFN11	ENSG00000172716	ENST00000308377	protein_coding	KNOWN	CCDS11294	26633	2706	901	33677324	33700626	-1	None	FLJ34922
17	SLFN11	ENSG00000172716	ENST00000394566	protein_coding	KNOWN	CCDS11294	26633	2706	901	33677324	33700639	-1	None	FLJ34922
17	SLFN11	ENSG00000172716	ENST00000592108	protein_coding	PUTATIVE	None	26633	152	49	33678918	33680150	-1	None	FLJ34922
17	SLFN11	ENSG00000172716	ENST00000586099	retained_intron	KNOWN	None	26633	None	None	33687038	33690011	-1	None	FLJ34922
17	SLFN11	ENSG00000172716	ENST00000591682	protein_coding	KNOWN	None	26633	369	122	33690458	33700641	-1	None	FLJ34922
17	SLFN11	ENSG00000172716	ENST00000441608	protein_coding	KNOWN	None	26633	335	110	33690492	33700714	-1	None	FLJ34922
17	SLFN11	ENSG00000172716	ENST00000589811	protein_coding	KNOWN	None	26633	301	99	33690526	33700639	-1	None	FLJ34922
17	SLFN11	ENSG00000172716	ENST00000430814	protein_coding	KNOWN	None	26633	272	89	33690555	33700639	-1	None	FLJ34922
17	SLFN11	ENSG00000172716	ENST00000427966	protein_coding	KNOWN	None	26633	271	89	33690556	33700639	-1	None	FLJ34922
17	SLFN11	ENSG00000172716	ENST00000588579	protein_coding	KNOWN	None	26633	240	79	33690587	33700639	-1	None	FLJ34922
17	SLFN11	ENSG00000172716	ENST00000589562	retained_intron	KNOWN	None	26633	None	None	33690641	33694313	-1	None	FLJ34922
17	SLFN11	ENSG00000172716	ENST00000592122	protein_coding	KNOWN	None	26633	146	47	33690681	33700720	-1	None	FLJ34922
17	SLFN11	ENSG00000172716	ENST00000498396	retained_intron	KNOWN	None	26633	None	None	33694285	33700639	-1	None	FLJ34922
6	DOM3Z	ENSG00000204348	ENST00000491327	retained_intron	KNOWN	None	2992	None	None	31937587	31939462	-1	DOM3Z	None
6	DOM3Z	ENSG00000204348	ENST00000485557	retained_intron	KNOWN	None	2992	None	None	31937587	31939986	-1	DOM3Z	None
6	DOM3Z	ENSG00000204348	ENST00000477826	retained_intron	KNOWN	None	2992	None	None	31937587	31940029	-1	DOM3Z	None
6	DOM3Z	ENSG00000204348	ENST00000337523	protein_coding	KNOWN	CCDS4732	2992	1191	396	31937587	31940069	-1	DOM3Z	None
6	DOM3Z	ENSG00000204348	ENST00000375349	protein_coding	KNOWN	CCDS4732	2992	1191	396	31937590	31940067	-1	DOM3Z	None
6	DOM3Z	ENSG00000204348	ENST00000495340	protein_coding	NOVEL	None	2992	524	173	31937592	31938700	-1	DOM3Z	None
6	DOM3Z	ENSG00000204348	ENST00000473976	retained_intron	KNOWN	None	2992	None	None	31937592	31939872	-1	DOM3Z	None
6	DOM3Z	ENSG00000204348	ENST00000478221	processed_transcript	KNOWN	None	2992	None	None	31937594	31940015	-1	DOM3Z	None
6	DOM3Z	ENSG00000204348	ENST00000375356	protein_coding	KNOWN	CCDS4732	2992	1191	396	31937621	31939761	-1	DOM3Z	None
6	DOM3Z	ENSG00000204348	ENST00000498357	retained_intron	KNOWN	None	2992	None	None	31937664	31939460	-1	DOM3Z	None
6	DOM3Z	ENSG00000204348	ENST00000480240	nonsense_mediated_decay	KNOWN	None	2992	633	210	31937684	31939913	-1	DOM3Z	None
6	DOM3Z	ENSG00000204348	ENST00000474587	processed_transcript	KNOWN	None	2992	None	None	31937725	31939875	-1	DOM3Z	None
6	DOM3Z	ENSG00000204348	ENST00000492946	retained_intron	KNOWN	None	2992	None	None	31938219	31939939	-1	DOM3Z	None
6	DOM3Z	ENSG00000204348	ENST00000487914	processed_transcript	KNOWN	None	2992	None	None	31938420	31939766	-1	DOM3Z	None
6	DOM3Z	ENSG00000204348	ENST00000460058	retained_intron	KNOWN	None	2992	None	None	31938675	31939786	-1	DOM3Z	None
7	None	ENSG00000214841	ENST00000399077	protein_coding	NOVEL	None	None	84	27	34685709	34699772	-1	None	None
14	INSM2	ENSG00000168348	ENST00000307169	protein_coding	KNOWN	CCDS9657	17539	1701	566	36003248	36006260	1	None	IA-6
12	PPP1R1A	ENSG00000135447	ENST00000547431	protein_coding	NOVEL	None	9286	462	153	54969171	54982300	-1	None	None
12	PPP1R1A	ENSG00000135447	ENST00000257905	protein_coding	KNOWN	CCDS44912	9286	516	171	54973032	54982443	-1	None	None
12	PPP1R1A	ENSG00000135447	ENST00000553113	protein_coding	NOVEL	None	9286	272	89	54973896	54978100	-1	None	None
12	PPP1R1A	ENSG00000135447	ENST00000547826	nonsense_mediated_decay	KNOWN	None	9286	195	64	54974039	54982299	-1	None	None
14	EML5	ENSG00000165521	ENST00000554922	protein_coding	KNOWN	CCDS45148	18197	5934	1977	89078775	89259096	-1	None	HuEMAP-2, EMAP-2
14	EML5	ENSG00000165521	ENST00000553973	retained_intron	KNOWN	None	18197	None	None	89080065	89086056	-1	None	HuEMAP-2, EMAP-2
14	EML5	ENSG00000165521	ENST00000553526	nonsense_mediated_decay	KNOWN	None	18197	183	60	89081215	89131705	-1	None	HuEMAP-2, EMAP-2
14	EML5	ENSG00000165521	ENST00000380664	protein_coding	KNOWN	None	18197	5910	1969	89082162	89258847	-1	None	HuEMAP-2, EMAP-2
14	EML5	ENSG00000165521	ENST00000555823	protein_coding	NOVEL	None	18197	770	255	89084992	89093244	-1	None	HuEMAP-2, EMAP-2
14	EML5	ENSG00000165521	ENST00000553320	processed_transcript	PUTATIVE	None	18197	None	None	89087554	89093285	-1	None	HuEMAP-2, EMAP-2
14	EML5	ENSG00000165521	ENST00000553281	nonsense_mediated_decay	KNOWN	None	18197	617	204	89088101	89181474	-1	None	HuEMAP-2, EMAP-2
14	EML5	ENSG00000165521	ENST00000553962	retained_intron	KNOWN	None	18197	None	None	89094092	89111081	-1	None	HuEMAP-2, EMAP-2
14	EML5	ENSG00000165521	ENST00000352093	protein_coding	KNOWN	None	18197	5796	1931	89081174	89259096	-1	None	HuEMAP-2, EMAP-2
1	COL9A2	ENSG00000049089	ENST00000372748	protein_coding	KNOWN	CCDS450	2218	2070	689	40766159	40782966	-1	EDM2	MED
1	COL9A2	ENSG00000049089	ENST00000482722	retained_intron	KNOWN	None	2218	None	None	40766340	40783060	-1	EDM2	MED
1	COL9A2	ENSG00000049089	ENST00000466267	processed_transcript	KNOWN	None	2218	None	None	40767484	40770669	-1	EDM2	MED
1	COL9A2	ENSG00000049089	ENST00000427563	protein_coding	PUTATIVE	None	2218	548	181	40768293	40770173	-1	EDM2	MED
1	COL9A2	ENSG00000049089	ENST00000488463	retained_intron	KNOWN	None	2218	None	None	40773375	40781110	-1	EDM2	MED
1	COL9A2	ENSG00000049089	ENST00000417105	protein_coding	PUTATIVE	None	2218	677	224	40775962	40782362	-1	EDM2	MED
1	COL9A2	ENSG00000049089	ENST00000496215	retained_intron	KNOWN	None	2218	None	None	40777172	40782374	-1	EDM2	MED
1	COL9A2	ENSG00000049089	ENST00000372736	protein_coding	PUTATIVE	None	2218	249	82	40777343	40782939	-1	EDM2	MED
1	COL9A2	ENSG00000049089	ENST00000461118	retained_intron	KNOWN	None	2218	None	None	40777902	40783488	-1	EDM2	MED
1	COL9A2	ENSG00000049089	ENST00000490132	processed_transcript	PUTATIVE	None	2218	None	None	40780912	40781707	-1	EDM2	MED
1	COL9A2	ENSG00000049089	ENST00000495948	processed_transcript	PUTATIVE	None	2218	None	None	40781065	40782945	-1	EDM2	MED
HSCHR6_MHC_DBB	AIF1	ENSG00000234836	ENST00000425748	protein_coding	KNOWN	None	352	444	147	31565139	31566976	1	None	IRT-1, AIF-1, Em:AF129756.17, IBA1
HSCHR6_MHC_DBB	AIF1	ENSG00000234836	ENST00000469692	retained_intron	KNOWN	None	352	None	None	31565172	31566295	1	None	IRT-1, AIF-1, Em:AF129756.17, IBA1
HSCHR6_MHC_DBB	AIF1	ENSG00000234836	ENST00000454372	protein_coding	KNOWN	None	352	486	161	31565182	31566976	1	None	IRT-1, AIF-1, Em:AF129756.17, IBA1
HSCHR6_MHC_DBB	AIF1	ENSG00000234836	ENST00000489685	retained_intron	KNOWN	None	352	None	None	31565235	31566976	1	None	IRT-1, AIF-1, Em:AF129756.17, IBA1
HSCHR6_MHC_DBB	AIF1	ENSG00000234836	ENST00000471330	retained_intron	KNOWN	None	352	None	None	31565581	31566976	1	None	IRT-1, AIF-1, Em:AF129756.17, IBA1
HSCHR6_MHC_DBB	AIF1	ENSG00000234836	ENST00000416422	protein_coding	KNOWN	None	352	282	93	31565946	31566976	1	None	IRT-1, AIF-1, Em:AF129756.17, IBA1
5	ALG3P1	ENSG00000251568	ENST00000508806	processed_pseudogene	KNOWN	None	45159	None	None	5375836	5376949	-1	None	None
5	None	ENSG00000248729	ENST00000515244	processed_pseudogene	KNOWN	None	None	None	None	5395491	5396070	-1	None	None
5	None	ENSG00000250808	ENST00000503662	processed_pseudogene	KNOWN	None	None	None	None	5396085	5396448	-1	None	None
5	None	ENSG00000251476	ENST00000506355	processed_pseudogene	KNOWN	None	None	None	None	5396590	5397081	-1	None	None
14	EML1	ENSG00000066629	ENST00000554479	protein_coding	PUTATIVE	None	3330	1137	378	100204030	100375753	1	EMAPL	EMAP, HuEMAP, ELP79
14	EML1	ENSG00000066629	ENST00000555145	protein_coding	PUTATIVE	None	3330	469	155	100204086	100344889	1	EMAPL	EMAP, HuEMAP, ELP79
14	EML1	ENSG00000066629	ENST00000327921	protein_coding	PUTATIVE	None	3330	2412	803	100239286	100406661	1	EMAPL	EMAP, HuEMAP, ELP79
14	EML1	ENSG00000066629	ENST00000556199	protein_coding	PUTATIVE	None	3330	255	84	100240041	100331948	1	EMAPL	EMAP, HuEMAP, ELP79
14	EML1	ENSG00000066629	ENST00000556835	protein_coding	PUTATIVE	None	3330	323	106	100259021	100344854	1	EMAPL	EMAP, HuEMAP, ELP79
14	EML1	ENSG00000066629	ENST00000262233	protein_coding	KNOWN	CCDS32155	3330	2448	815	100259675	100408397	1	EMAPL	EMAP, HuEMAP, ELP79
14	EML1	ENSG00000066629	ENST00000334192	protein_coding	KNOWN	CCDS32154	3330	2505	834	100259680	100407874	1	EMAPL	EMAP, HuEMAP, ELP79
14	EML1	ENSG00000066629	ENST00000555096	nonsense_mediated_decay	KNOWN	None	3330	258	85	100259750	100344858	1	EMAPL	EMAP, HuEMAP, ELP79
14	EML1	ENSG00000066629	ENST00000556714	protein_coding	PUTATIVE	None	3330	855	284	100259772	100367316	1	EMAPL	EMAP, HuEMAP, ELP79
14	EML1	ENSG00000066629	ENST00000553720	protein_coding	PUTATIVE	None	3330	277	91	100275788	100331934	1	EMAPL	EMAP, HuEMAP, ELP79
14	EML1	ENSG00000066629	ENST00000556947	protein_coding	PUTATIVE	None	3330	385	127	100305379	100331967	1	EMAPL	EMAP, HuEMAP, ELP79
14	EML1	ENSG00000066629	ENST00000556758	processed_transcript	KNOWN	None	3330	None	None	100317187	100349883	1	EMAPL	EMAP, HuEMAP, ELP79
14	EML1	ENSG00000066629	ENST00000557741	protein_coding	PUTATIVE	None	3330	201	66	100331946	100352442	1	EMAPL	EMAP, HuEMAP, ELP79
14	EML1	ENSG00000066629	ENST00000555277	retained_intron	KNOWN	None	3330	None	None	100360790	100367319	1	EMAPL	EMAP, HuEMAP, ELP79
14	EML1	ENSG00000066629	ENST00000554553	nonsense_mediated_decay	KNOWN	None	3330	366	121	100363579	100376659	1	EMAPL	EMAP, HuEMAP, ELP79
14	EML1	ENSG00000066629	ENST00000554386	protein_coding	NOVEL	None	3330	546	181	100364570	100377888	1	EMAPL	EMAP, HuEMAP, ELP79
14	EML1	ENSG00000066629	ENST00000555812	processed_transcript	KNOWN	None	3330	None	None	100365749	100377775	1	EMAPL	EMAP, HuEMAP, ELP79
14	EML1	ENSG00000066629	ENST00000554111	retained_intron	KNOWN	None	3330	None	None	100373209	100381749	1	EMAPL	EMAP, HuEMAP, ELP79
14	EML1	ENSG00000066629	ENST00000557313	nonsense_mediated_decay	KNOWN	None	3330	230	75	100380913	100405568	1	EMAPL	EMAP, HuEMAP, ELP79
14	EML1	ENSG00000066629	ENST00000553313	retained_intron	KNOWN	None	3330	None	None	100402504	100406511	1	EMAPL	EMAP, HuEMAP, ELP79
5	None	ENSG00000261037	ENST00000564741	lincRNA	KNOWN	None	None	None	None	6019142	6022396	-1	None	None
5	None	ENSG00000259861	ENST00000568962	lincRNA	KNOWN	None	None	None	None	6030148	6030954	1	None	None
5	None	ENSG00000221568	ENST00000408641	miRNA	NOVEL	None	None	None	None	6112224	6112313	1	None	None
5	HMGB3P3	ENSG00000250730	ENST00000510526	processed_pseudogene	KNOWN	None	39102	None	None	6289970	6290737	1	None	None
5	None	ENSG00000250490	ENST00000507444	lincRNA	KNOWN	None	None	None	None	6310554	6337405	-1	None	None
5	None	ENSG00000250490	ENST00000502644	lincRNA	KNOWN	None	None	None	None	6337352	6339997	-1	None	None
1	GPR89A	ENSG00000117262	ENST00000313835	protein_coding	KNOWN	CCDS41377	31984	1368	455	145764411	145827073	-1	None	UNQ192
1	GPR89A	ENSG00000117262	ENST00000465185	retained_intron	KNOWN	None	31984	None	None	145764596	145788795	-1	None	UNQ192
1	GPR89A	ENSG00000117262	ENST00000460277	nonsense_mediated_decay	KNOWN	None	31984	375	124	145764596	145827073	-1	None	UNQ192
1	GPR89A	ENSG00000117262	ENST00000493684	retained_intron	KNOWN	None	31984	None	None	145764599	145790953	-1	None	UNQ192
1	GPR89A	ENSG00000117262	ENST00000534502	protein_coding	PUTATIVE	CCDS44207	31984	1293	430	145764875	145827015	-1	None	UNQ192
1	GPR89A	ENSG00000117262	ENST00000462900	protein_coding	PUTATIVE	CCDS44207	31984	1293	430	145764881	145826450	-1	None	UNQ192
1	GPR89A	ENSG00000117262	ENST00000478703	processed_transcript	KNOWN	None	31984	None	None	145771640	145804365	-1	None	UNQ192
1	GPR89A	ENSG00000117262	ENST00000466593	nonsense_mediated_decay	KNOWN	None	31984	690	229	145787803	145827030	-1	None	UNQ192
1	GPR89A	ENSG00000117262	ENST00000528944	nonsense_mediated_decay	KNOWN	None	31984	375	124	145787821	145827036	-1	None	UNQ192
1	GPR89A	ENSG00000117262	ENST00000492401	retained_intron	KNOWN	None	31984	None	None	145789111	145804338	-1	None	UNQ192
1	GPR89A	ENSG00000117262	ENST00000527989	processed_transcript	KNOWN	None	31984	None	None	145811342	145823596	-1	None	UNQ192
1	GPR89A	ENSG00000117262	ENST00000532574	retained_intron	KNOWN	None	31984	None	None	145811832	145827044	-1	None	UNQ192
1	GPR89A	ENSG00000117262	ENST00000524525	nonsense_mediated_decay	KNOWN	None	31984	168	55	145816709	145827015	-1	None	UNQ192
1	GPR89A	ENSG00000117262	ENST00000454423	protein_coding	KNOWN	None	31984	1008	335	145764599	145827103	-1	None	UNQ192
22	PLXNB2	ENSG00000196576	ENST00000479818	retained_intron	KNOWN	None	9104	None	None	50713408	50717269	-1	None	MM1, KIAA0315, PLEXB2
22	PLXNB2	ENSG00000196576	ENST00000479701	retained_intron	KNOWN	None	9104	None	None	50713408	50720991	-1	None	MM1, KIAA0315, PLEXB2
22	PLXNB2	ENSG00000196576	ENST00000449103	protein_coding	KNOWN	CCDS43035	9104	5517	1838	50713408	50746056	-1	None	MM1, KIAA0315, PLEXB2
22	PLXNB2	ENSG00000196576	ENST00000463165	retained_intron	KNOWN	None	9104	None	None	50713414	50720363	-1	None	MM1, KIAA0315, PLEXB2
22	PLXNB2	ENSG00000196576	ENST00000411680	protein_coding	PUTATIVE	None	9104	704	233	50716282	50727990	-1	None	MM1, KIAA0315, PLEXB2
22	PLXNB2	ENSG00000196576	ENST00000492578	retained_intron	KNOWN	None	9104	None	None	50719556	50720435	-1	None	MM1, KIAA0315, PLEXB2
22	PLXNB2	ENSG00000196576	ENST00000427829	protein_coding	PUTATIVE	None	9104	567	188	50720003	50721309	-1	None	MM1, KIAA0315, PLEXB2
22	PLXNB2	ENSG00000196576	ENST00000496720	processed_transcript	KNOWN	None	9104	None	None	50721767	50724682	-1	None	MM1, KIAA0315, PLEXB2
22	PLXNB2	ENSG00000196576	ENST00000434732	protein_coding	PUTATIVE	None	9104	253	83	50722596	50724272	-1	None	MM1, KIAA0315, PLEXB2
22	PLXNB2	ENSG00000196576	ENST00000432455	protein_coding	KNOWN	None	9104	1431	476	50726416	50739891	-1	None	MM1, KIAA0315, PLEXB2
22	PLXNB2	ENSG00000196576	ENST00000425954	protein_coding	KNOWN	None	9104	485	160	50728529	50746032	-1	None	MM1, KIAA0315, PLEXB2
22	PLXNB2	ENSG00000196576	ENST00000359337	protein_coding	KNOWN	CCDS43035	9104	5517	1838	50713408	50746017	-1	None	MM1, KIAA0315, PLEXB2
4	NEK1	ENSG00000137601	ENST00000439128	protein_coding	KNOWN	CCDS47162	7744	3777	1258	170314426	170533763	-1	None	NY-REN-55, KIAA1901
4	NEK1	ENSG00000137601	ENST00000511633	protein_coding	NOVEL	CCDS56350	7744	3729	1242	170314432	170533778	-1	None	NY-REN-55, KIAA1901
4	NEK1	ENSG00000137601	ENST00000510533	protein_coding	KNOWN	CCDS56349	7744	3645	1214	170314541	170533734	-1	None	NY-REN-55, KIAA1901
4	NEK1	ENSG00000137601	ENST00000507142	protein_coding	KNOWN	CCDS56351	7744	3861	1286	170314546	170533780	-1	None	NY-REN-55, KIAA1901
4	NEK1	ENSG00000137601	ENST00000512193	protein_coding	KNOWN	CCDS56348	7744	3570	1189	170315379	170533778	-1	None	NY-REN-55, KIAA1901
4	NEK1	ENSG00000137601	ENST00000509912	retained_intron	KNOWN	None	7744	None	None	170475194	170520294	-1	None	NY-REN-55, KIAA1901
4	NEK1	ENSG00000137601	ENST00000505119	protein_coding	PUTATIVE	None	7744	370	122	170497755	170506650	-1	None	NY-REN-55, KIAA1901
4	NEK1	ENSG00000137601	ENST00000510108	nonsense_mediated_decay	KNOWN	None	7744	138	45	170506500	170533732	-1	None	NY-REN-55, KIAA1901
7	CCT6A	ENSG00000146731	ENST00000275603	protein_coding	KNOWN	CCDS5523	1620	1596	531	56119323	56131682	1	CCT6	TTCP20, TCPZ, Cctz, HTR3, TCP20
7	CCT6A	ENSG00000146731	ENST00000335503	protein_coding	KNOWN	CCDS34640	1620	1461	486	56119378	56131682	1	CCT6	TTCP20, TCPZ, Cctz, HTR3, TCP20
7	CCT6A	ENSG00000146731	ENST00000493855	retained_intron	KNOWN	None	1620	None	None	56122169	56123549	1	CCT6	TTCP20, TCPZ, Cctz, HTR3, TCP20
7	CCT6A	ENSG00000146731	ENST00000482776	retained_intron	KNOWN	None	1620	None	None	56124005	56126703	1	CCT6	TTCP20, TCPZ, Cctz, HTR3, TCP20
7	CCT6A	ENSG00000146731	ENST00000492618	retained_intron	KNOWN	None	1620	None	None	56127237	56129752	1	CCT6	TTCP20, TCPZ, Cctz, HTR3, TCP20
7	CCT6A	ENSG00000146731	ENST00000466572	retained_intron	KNOWN	None	1620	None	None	56127558	56128633	1	CCT6	TTCP20, TCPZ, Cctz, HTR3, TCP20
7	CCT6A	ENSG00000146731	ENST00000462133	processed_transcript	KNOWN	None	1620	None	None	56128304	56130992	1	CCT6	TTCP20, TCPZ, Cctz, HTR3, TCP20
7	CCT6A	ENSG00000146731	ENST00000494736	retained_intron	KNOWN	None	1620	None	None	56129371	56130871	1	CCT6	TTCP20, TCPZ, Cctz, HTR3, TCP20
7	CCT6A	ENSG00000146731	ENST00000466479	retained_intron	KNOWN	None	1620	None	None	56130312	56131313	1	CCT6	TTCP20, TCPZ, Cctz, HTR3, TCP20
7	CCT6A	ENSG00000146731	ENST00000540286	protein_coding	KNOWN	None	1620	1503	500	56119467	56131094	1	CCT6	TTCP20, TCPZ, Cctz, HTR3, TCP20
19	None	ENSG00000268000	ENST00000602157	protein_coding	KNOWN	None	None	834	277	50003781	50004614	1	None	None
16	TK2	ENSG00000166548	ENST00000561905	protein_coding	PUTATIVE	None	11831	68	21	66541993	66547686	-1	None	None
16	TK2	ENSG00000166548	ENST00000451102	protein_coding	KNOWN	CCDS10805	11831	798	265	66543282	66584315	-1	None	None
16	TK2	ENSG00000166548	ENST00000527800	protein_coding	PUTATIVE	None	11831	507	168	66544647	66583701	-1	None	None
16	TK2	ENSG00000166548	ENST00000527284	protein_coding	NOVEL	CCDS54018	11831	705	234	66544647	66584194	-1	None	None
16	TK2	ENSG00000166548	ENST00000568170	processed_transcript	PUTATIVE	None	11831	None	None	66544649	66545155	-1	None	None
16	TK2	ENSG00000166548	ENST00000567357	nonsense_mediated_decay	KNOWN	None	11831	363	120	66544650	66584116	-1	None	None
16	TK2	ENSG00000166548	ENST00000545043	protein_coding	NOVEL	CCDS54016	11831	723	240	66545535	66584025	-1	None	None
16	TK2	ENSG00000166548	ENST00000562552	retained_intron	KNOWN	None	11831	None	None	66545587	66552045	-1	None	None
16	TK2	ENSG00000166548	ENST00000564917	protein_coding	KNOWN	None	11831	849	282	66545609	66584009	-1	None	None
16	TK2	ENSG00000166548	ENST00000525974	protein_coding	PUTATIVE	None	11831	507	168	66545616	66583728	-1	None	None
16	TK2	ENSG00000166548	ENST00000563099	retained_intron	KNOWN	None	11831	None	None	66545625	66551183	-1	None	None
16	TK2	ENSG00000166548	ENST00000569718	protein_coding	PUTATIVE	None	11831	428	141	66545645	66584173	-1	None	None
16	TK2	ENSG00000166548	ENST00000417693	protein_coding	NOVEL	CCDS54017	11831	744	247	66545698	66584093	-1	None	None
16	TK2	ENSG00000166548	ENST00000563369	protein_coding	PUTATIVE	None	11831	507	168	66545857	66583763	-1	None	None
16	TK2	ENSG00000166548	ENST00000564792	processed_transcript	KNOWN	None	11831	None	None	66545906	66558864	-1	None	None
16	TK2	ENSG00000166548	ENST00000563478	protein_coding	PUTATIVE	None	11831	391	129	66547651	66585637	-1	None	None
16	TK2	ENSG00000166548	ENST00000562484	protein_coding	PUTATIVE	None	11831	266	87	66551100	66586447	-1	None	None
16	TK2	ENSG00000166548	ENST00000565729	processed_transcript	PUTATIVE	None	11831	None	None	66580460	66582786	-1	None	None
16	TK2	ENSG00000166548	ENST00000299697	protein_coding	KNOWN	None	11831	924	307	66541906	66584315	-1	None	None
16	TK2	ENSG00000166548	ENST00000544898	protein_coding	KNOWN	None	11831	651	216	66544650	66584116	-1	None	None
12	NR2C1	ENSG00000120798	ENST00000333003	protein_coding	KNOWN	CCDS9051	7971	1812	603	95414005	95467479	-1	TR2	TR2-11
12	NR2C1	ENSG00000120798	ENST00000551647	protein_coding	PUTATIVE	None	7971	220	72	95415669	95434374	-1	TR2	TR2-11
12	NR2C1	ENSG00000120798	ENST00000552861	retained_intron	KNOWN	None	7971	None	None	95415669	95467345	-1	TR2	TR2-11
12	NR2C1	ENSG00000120798	ENST00000549617	retained_intron	KNOWN	None	7971	None	None	95415697	95419125	-1	TR2	TR2-11
12	NR2C1	ENSG00000120798	ENST00000546416	retained_intron	KNOWN	None	7971	None	None	95416110	95443268	-1	TR2	TR2-11
12	NR2C1	ENSG00000120798	ENST00000547594	processed_transcript	KNOWN	None	7971	None	None	95420609	95451533	-1	TR2	TR2-11
12	NR2C1	ENSG00000120798	ENST00000552484	retained_intron	KNOWN	None	7971	None	None	95421882	95425170	-1	TR2	TR2-11
12	NR2C1	ENSG00000120798	ENST00000545833	processed_transcript	KNOWN	None	7971	None	None	95422234	95461160	-1	TR2	TR2-11
12	NR2C1	ENSG00000120798	ENST00000552791	nonsense_mediated_decay	KNOWN	None	7971	142	46	95424185	95445645	-1	TR2	TR2-11
12	NR2C1	ENSG00000120798	ENST00000393101	protein_coding	KNOWN	CCDS41821	7971	1404	467	95424185	95467356	-1	TR2	TR2-11
12	NR2C1	ENSG00000120798	ENST00000330677	protein_coding	KNOWN	CCDS44953	7971	1452	483	95424194	95467313	-1	TR2	TR2-11
12	NR2C1	ENSG00000120798	ENST00000548252	processed_transcript	KNOWN	None	7971	None	None	95442904	95452169	-1	TR2	TR2-11
12	NR2C1	ENSG00000120798	ENST00000546367	processed_transcript	KNOWN	None	7971	None	None	95452129	95467286	-1	TR2	TR2-11
12	NR2C1	ENSG00000120798	ENST00000548966	processed_transcript	KNOWN	None	7971	None	None	95452185	95467321	-1	TR2	TR2-11
12	NR2C1	ENSG00000120798	ENST00000552417	processed_transcript	KNOWN	None	7971	None	None	95452196	95461146	-1	TR2	TR2-11
12	NR2C1	ENSG00000120798	ENST00000551386	processed_transcript	KNOWN	None	7971	None	None	95453696	95467391	-1	TR2	TR2-11
12	NR2C1	ENSG00000120798	ENST00000549482	retained_intron	KNOWN	None	7971	None	None	95460704	95467279	-1	TR2	TR2-11
12	NR2C1	ENSG00000120798	ENST00000547469	protein_coding	KNOWN	None	7971	48	15	95461113	95466793	-1	TR2	TR2-11
12	LACRT	ENSG00000135413	ENST00000546721	protein_coding	PUTATIVE	None	16430	258	85	55024595	55026985	-1	None	LACRITIN
12	LACRT	ENSG00000135413	ENST00000547511	protein_coding	NOVEL	None	16430	384	127	55024595	55028664	-1	None	LACRITIN
12	LACRT	ENSG00000135413	ENST00000257867	protein_coding	KNOWN	CCDS8883	16430	417	138	55024596	55028679	-1	None	LACRITIN
12	LACRT	ENSG00000135413	ENST00000549816	retained_intron	KNOWN	None	16430	None	None	55025711	55028671	-1	None	LACRITIN
6	TREML2	ENSG00000112195	ENST00000483722	protein_coding	KNOWN	CCDS4853	21092	966	321	41158015	41168932	-1	C6orf76	FLJ13693, TLT2, dJ238O23.1
5	None	ENSG00000271230	ENST00000603257	processed_pseudogene	KNOWN	None	None	None	None	6533004	6533313	-1	None	None
HSCHR6_MHC_QBL	MICB	ENSG00000206449	ENST00000400313	protein_coding	KNOWN	None	7091	1023	340	31456185	31469201	1	None	PERB11.2
HSCHR6_MHC_QBL	MICB	ENSG00000206449	ENST00000428416	protein_coding	KNOWN	None	7091	1152	383	31456214	31469201	1	None	PERB11.2
HSCHR6_MHC_QBL	MICB	ENSG00000206449	ENST00000477414	retained_intron	KNOWN	None	7091	None	None	31464020	31465616	1	None	PERB11.2
HSCHR6_MHC_QBL	MICB	ENSG00000206449	ENST00000549014	protein_coding	KNOWN	None	7091	126	41	31456244	31456793	1	None	PERB11.2
4	MTND4P9	ENSG00000250050	ENST00000507819	unprocessed_pseudogene	KNOWN	None	42226	None	None	25719704	25721367	-1	None	None
5	None	ENSG00000250056	ENST00000507628	lincRNA	KNOWN	None	None	None	None	6582249	6583836	1	None	None
5	None	ENSG00000250056	ENST00000505626	lincRNA	KNOWN	None	None	None	None	6582251	6588612	1	None	None
5	None	ENSG00000250056	ENST00000513844	lincRNA	KNOWN	None	None	None	None	6582259	6586011	1	None	None
5	None	ENSG00000250056	ENST00000507582	lincRNA	KNOWN	None	None	None	None	6583389	6587783	1	None	None
17	ENPP7	ENSG00000182156	ENST00000328313	protein_coding	KNOWN	CCDS11763	23764	1377	458	77704681	77716021	1	None	alk-SMase
17	ENPP7	ENSG00000182156	ENST00000576512	protein_coding	PUTATIVE	None	23764	480	159	77709340	77713367	1	None	alk-SMase
7	NPSR1	ENSG00000187258	ENST00000381553	protein_coding	KNOWN	None	23631	432	143	34697851	34819452	1	GPR154	PGR14, GPRA
7	NPSR1	ENSG00000187258	ENST00000465305	protein_coding	KNOWN	None	23631	285	94	34697897	34725768	1	GPR154	PGR14, GPRA
7	NPSR1	ENSG00000187258	ENST00000360581	protein_coding	KNOWN	CCDS5444	23631	1116	371	34697897	34889590	1	GPR154	PGR14, GPRA
7	NPSR1	ENSG00000187258	ENST00000396095	nonsense_mediated_decay	KNOWN	None	23631	411	136	34697897	34889590	1	GPR154	PGR14, GPRA
7	NPSR1	ENSG00000187258	ENST00000381542	protein_coding	KNOWN	None	23631	918	305	34697897	34889590	1	GPR154	PGR14, GPRA
7	NPSR1	ENSG00000187258	ENST00000381544	nonsense_mediated_decay	KNOWN	None	23631	477	158	34697897	34889590	1	GPR154	PGR14, GPRA
7	NPSR1	ENSG00000187258	ENST00000359791	protein_coding	KNOWN	CCDS5443	23631	1134	377	34697897	34917944	1	GPR154	PGR14, GPRA
7	NPSR1	ENSG00000187258	ENST00000531252	protein_coding	PUTATIVE	None	23631	1101	366	34697897	34917944	1	GPR154	PGR14, GPRA
7	NPSR1	ENSG00000187258	ENST00000381539	protein_coding	KNOWN	None	23631	1173	390	34698021	34889280	1	GPR154	PGR14, GPRA
12	DCD	ENSG00000161634	ENST00000293371	protein_coding	KNOWN	CCDS8884	14669	333	110	55038375	55042277	-1	None	AIDD, PIF, DSEP, HCAP, DCD-1
12	DCD	ENSG00000161634	ENST00000546807	nonsense_mediated_decay	KNOWN	None	14669	234	77	55038414	55042277	-1	None	AIDD, PIF, DSEP, HCAP, DCD-1
12	DCD	ENSG00000161634	ENST00000456047	protein_coding	PUTATIVE	None	14669	366	121	55038414	55042277	-1	None	AIDD, PIF, DSEP, HCAP, DCD-1
5	ARRDC3	ENSG00000113369	ENST00000265138	protein_coding	KNOWN	CCDS34202	29263	1245	414	90664541	90679176	-1	None	KIAA1376
5	ARRDC3	ENSG00000113369	ENST00000511391	retained_intron	KNOWN	None	29263	None	None	90666615	90669662	-1	None	KIAA1376
5	ARRDC3	ENSG00000113369	ENST00000505631	retained_intron	KNOWN	None	29263	None	None	90670042	90671161	-1	None	KIAA1376
5	ARRDC3	ENSG00000113369	ENST00000514284	processed_transcript	KNOWN	None	29263	None	None	90670817	90675906	-1	None	KIAA1376
5	ARRDC3	ENSG00000113369	ENST00000508948	processed_transcript	KNOWN	None	29263	None	None	90671338	90676837	-1	None	KIAA1376
5	ARRDC3	ENSG00000113369	ENST00000503192	processed_transcript	PUTATIVE	None	29263	None	None	90671344	90675968	-1	None	KIAA1376
5	ARRDC3	ENSG00000113369	ENST00000507075	retained_intron	KNOWN	None	29263	None	None	90672376	90678692	-1	None	KIAA1376
17	CBX2	ENSG00000173894	ENST00000310942	protein_coding	KNOWN	CCDS32757	1552	1599	532	77751931	77761782	1	CDCA6	MGC10561
17	CBX2	ENSG00000173894	ENST00000571484	retained_intron	KNOWN	None	1552	None	None	77751962	77753538	1	CDCA6	MGC10561
17	CBX2	ENSG00000173894	ENST00000269399	protein_coding	KNOWN	CCDS11764	1552	636	211	77751993	77756331	1	CDCA6	MGC10561
18	NPC1	ENSG00000141458	ENST00000591107	protein_coding	PUTATIVE	None	7897	538	178	21086307	21115586	-1	None	None
18	NPC1	ENSG00000141458	ENST00000590723	protein_coding	PUTATIVE	None	7897	180	59	21102279	21113481	-1	None	None
18	NPC1	ENSG00000141458	ENST00000593280	protein_coding	PUTATIVE	None	7897	127	41	21108363	21113404	-1	None	None
18	NPC1	ENSG00000141458	ENST00000586150	protein_coding	PUTATIVE	None	7897	526	174	21109257	21115664	-1	None	None
18	NPC1	ENSG00000141458	ENST00000269228	protein_coding	KNOWN	CCDS11878	7897	3837	1278	21111401	21166862	-1	None	None
18	NPC1	ENSG00000141458	ENST00000588867	retained_intron	KNOWN	None	7897	None	None	21111686	21115664	-1	None	None
18	NPC1	ENSG00000141458	ENST00000591051	protein_coding	PUTATIVE	None	7897	2915	970	21111910	21140306	-1	None	None
18	NPC1	ENSG00000141458	ENST00000587163	retained_intron	KNOWN	None	7897	None	None	21113166	21114524	-1	None	None
18	NPC1	ENSG00000141458	ENST00000591955	retained_intron	KNOWN	None	7897	None	None	21116664	21118889	-1	None	None
18	NPC1	ENSG00000141458	ENST00000591075	retained_intron	KNOWN	None	7897	None	None	21116706	21119862	-1	None	None
18	NPC1	ENSG00000141458	ENST00000540608	processed_transcript	KNOWN	None	7897	None	None	21119694	21166451	-1	None	None
18	NPC1	ENSG00000141458	ENST00000586718	retained_intron	KNOWN	None	7897	None	None	21119787	21121336	-1	None	None
18	NPC1	ENSG00000141458	ENST00000590301	retained_intron	KNOWN	None	7897	None	None	21131510	21134949	-1	None	None
18	NPC1	ENSG00000141458	ENST00000587223	processed_transcript	KNOWN	None	7897	None	None	21153416	21156911	-1	None	None
18	NPC1	ENSG00000141458	ENST00000412552	protein_coding	KNOWN	None	7897	2883	960	21111910	21140306	-1	None	None
19	FCGRT	ENSG00000104870	ENST00000596147	retained_intron	KNOWN	None	3621	None	None	50010073	50028037	1	None	FCRN, alpha-chain
19	FCGRT	ENSG00000104870	ENST00000221466	protein_coding	KNOWN	CCDS12770	3621	1098	365	50015536	50029590	1	None	FCRN, alpha-chain
19	FCGRT	ENSG00000104870	ENST00000598491	protein_coding	KNOWN	None	3621	424	140	50015632	50017566	1	None	FCRN, alpha-chain
19	FCGRT	ENSG00000104870	ENST00000599701	protein_coding	PUTATIVE	None	3621	116	37	50015892	50017678	1	None	FCRN, alpha-chain
19	FCGRT	ENSG00000104870	ENST00000598927	nonsense_mediated_decay	KNOWN	None	3621	678	225	50015919	50029554	1	None	FCRN, alpha-chain
19	FCGRT	ENSG00000104870	ENST00000426395	protein_coding	KNOWN	CCDS12770	3621	1098	365	50016411	50029590	1	None	FCRN, alpha-chain
19	FCGRT	ENSG00000104870	ENST00000595677	processed_transcript	KNOWN	None	3621	None	None	50016434	50025070	1	None	FCRN, alpha-chain
19	FCGRT	ENSG00000104870	ENST00000600273	protein_coding	KNOWN	None	3621	503	166	50016436	50017645	1	None	FCRN, alpha-chain
19	FCGRT	ENSG00000104870	ENST00000595881	retained_intron	KNOWN	None	3621	None	None	50016452	50029588	1	None	FCRN, alpha-chain
19	FCGRT	ENSG00000104870	ENST00000594823	processed_transcript	KNOWN	None	3621	None	None	50016454	50027921	1	None	FCRN, alpha-chain
19	FCGRT	ENSG00000104870	ENST00000599988	protein_coding	NOVEL	None	3621	300	99	50016512	50029590	1	None	FCRN, alpha-chain
19	FCGRT	ENSG00000104870	ENST00000596975	protein_coding	NOVEL	None	3621	822	273	50016636	50029586	1	None	FCRN, alpha-chain
19	FCGRT	ENSG00000104870	ENST00000598936	retained_intron	KNOWN	None	3621	None	None	50016647	50027825	1	None	FCRN, alpha-chain
19	FCGRT	ENSG00000104870	ENST00000452439	retained_intron	KNOWN	None	3621	None	None	50016652	50028421	1	None	FCRN, alpha-chain
19	FCGRT	ENSG00000104870	ENST00000593431	retained_intron	KNOWN	None	3621	None	None	50016655	50028269	1	None	FCRN, alpha-chain
19	FCGRT	ENSG00000104870	ENST00000598319	nonsense_mediated_decay	KNOWN	None	3621	636	211	50016661	50028520	1	None	FCRN, alpha-chain
19	FCGRT	ENSG00000104870	ENST00000598949	nonsense_mediated_decay	KNOWN	None	3621	636	211	50016661	50028520	1	None	FCRN, alpha-chain
19	FCGRT	ENSG00000104870	ENST00000593381	protein_coding	NOVEL	None	3621	566	187	50017175	50027901	1	None	FCRN, alpha-chain
19	FCGRT	ENSG00000104870	ENST00000598076	protein_coding	NOVEL	None	3621	462	153	50017315	50029590	1	None	FCRN, alpha-chain
2	PXDN	ENSG00000130508	ENST00000252804	protein_coding	KNOWN	CCDS46221	14966	4440	1479	1635659	1748278	-1	None	KIAA0230, PRG2, MG50, D2S448, D2S448E, PXN
2	PXDN	ENSG00000130508	ENST00000493654	retained_intron	KNOWN	None	14966	None	None	1636957	1640836	-1	None	KIAA0230, PRG2, MG50, D2S448, D2S448E, PXN
2	PXDN	ENSG00000130508	ENST00000478155	retained_intron	KNOWN	None	14966	None	None	1637664	1680279	-1	None	KIAA0230, PRG2, MG50, D2S448, D2S448E, PXN
2	PXDN	ENSG00000130508	ENST00000453308	nonsense_mediated_decay	KNOWN	None	14966	229	75	1637695	1647243	-1	None	KIAA0230, PRG2, MG50, D2S448, D2S448E, PXN
2	PXDN	ENSG00000130508	ENST00000477093	processed_transcript	KNOWN	None	14966	None	None	1647164	1649942	-1	None	KIAA0230, PRG2, MG50, D2S448, D2S448E, PXN
2	PXDN	ENSG00000130508	ENST00000493779	retained_intron	KNOWN	None	14966	None	None	1653015	1657738	-1	None	KIAA0230, PRG2, MG50, D2S448, D2S448E, PXN
2	PXDN	ENSG00000130508	ENST00000465809	processed_transcript	KNOWN	None	14966	None	None	1653137	1657752	-1	None	KIAA0230, PRG2, MG50, D2S448, D2S448E, PXN
2	PXDN	ENSG00000130508	ENST00000433670	protein_coding	KNOWN	None	14966	2171	722	1656848	1748214	-1	None	KIAA0230, PRG2, MG50, D2S448, D2S448E, PXN
2	PXDN	ENSG00000130508	ENST00000467191	processed_transcript	KNOWN	None	14966	None	None	1668763	1680268	-1	None	KIAA0230, PRG2, MG50, D2S448, D2S448E, PXN
2	PXDN	ENSG00000130508	ENST00000483018	processed_transcript	KNOWN	None	14966	None	None	1670030	1680235	-1	None	KIAA0230, PRG2, MG50, D2S448, D2S448E, PXN
2	PXDN	ENSG00000130508	ENST00000477810	processed_transcript	KNOWN	None	14966	None	None	1670128	1680350	-1	None	KIAA0230, PRG2, MG50, D2S448, D2S448E, PXN
2	PXDN	ENSG00000130508	ENST00000447941	protein_coding	PUTATIVE	None	14966	588	195	1680729	1696342	-1	None	KIAA0230, PRG2, MG50, D2S448, D2S448E, PXN
2	PXDN	ENSG00000130508	ENST00000425171	protein_coding	NOVEL	None	14966	673	223	1680802	1748274	-1	None	KIAA0230, PRG2, MG50, D2S448, D2S448E, PXN
2	PXDN	ENSG00000130508	ENST00000485177	processed_transcript	KNOWN	None	14966	None	None	1684025	1748624	-1	None	KIAA0230, PRG2, MG50, D2S448, D2S448E, PXN
HSCHR6_MHC_MCF	MSH5-SAPCD1	ENSG00000266442	ENST00000469644	nonsense_mediated_decay	KNOWN	None	41994	2556	851	31784084	31808928	1	MSH5-C6orf26	None
HSCHR6_MHC_MCF	MSH5-SAPCD1	ENSG00000266442	ENST00000482009	nonsense_mediated_decay	KNOWN	None	41994	793	263	31803522	31808928	1	MSH5-C6orf26	None
HSCHR6_MHC_MCF	MSH5-SAPCD1	ENSG00000266442	ENST00000465533	nonsense_mediated_decay	KNOWN	None	41994	88	28	31806521	31808928	1	MSH5-C6orf26	None
3	UBE2E2	ENSG00000182247	ENST00000425792	protein_coding	KNOWN	CCDS2637	12478	606	201	23244511	23631713	1	None	UbcH8, FLJ25157
3	UBE2E2	ENSG00000182247	ENST00000452894	protein_coding	PUTATIVE	None	12478	494	163	23244591	23574106	1	None	UbcH8, FLJ25157
3	UBE2E2	ENSG00000182247	ENST00000335798	nonsense_mediated_decay	KNOWN	None	12478	279	92	23244653	23632070	1	None	UbcH8, FLJ25157
3	UBE2E2	ENSG00000182247	ENST00000396703	protein_coding	KNOWN	CCDS2637	12478	606	201	23244784	23633284	1	None	UbcH8, FLJ25157
3	UBE2E2	ENSG00000182247	ENST00000427371	nonsense_mediated_decay	KNOWN	None	12478	270	89	23244821	23312649	1	None	UbcH8, FLJ25157
4	None	ENSG00000248133	ENST00000508209	unprocessed_pseudogene	KNOWN	None	None	None	None	25721377	25721652	-1	None	None
6	RSPH4A	ENSG00000111834	ENST00000229554	protein_coding	KNOWN	CCDS34521	21558	2151	716	116937650	116954141	1	RSHL3	dJ412I7.1, FLJ37974, RSPH6B, CILD11
6	RSPH4A	ENSG00000111834	ENST00000368580	protein_coding	KNOWN	None	21558	1410	469	116937787	116953604	1	RSHL3	dJ412I7.1, FLJ37974, RSPH6B, CILD11
6	RSPH4A	ENSG00000111834	ENST00000368581	protein_coding	KNOWN	CCDS55051	21558	1803	600	116937642	116954148	1	RSHL3	dJ412I7.1, FLJ37974, RSPH6B, CILD11
17	CBX8	ENSG00000141570	ENST00000269385	protein_coding	KNOWN	CCDS11765	15962	1170	389	77765931	77770915	-1	None	RC1, HPC3, PC3
17	CBX8	ENSG00000141570	ENST00000413392	protein_coding	PUTATIVE	None	15962	726	241	77768848	77772130	-1	None	RC1, HPC3, PC3
17	CBX8	ENSG00000141570	ENST00000427800	protein_coding	PUTATIVE	None	15962	526	174	77769003	77775332	-1	None	RC1, HPC3, PC3
17	CBX8	ENSG00000141570	ENST00000485449	processed_transcript	KNOWN	None	15962	None	None	77769193	77775482	-1	None	RC1, HPC3, PC3
4	MTND3P5	ENSG00000251353	ENST00000512798	unprocessed_pseudogene	KNOWN	None	42154	None	None	25721721	25722053	-1	None	None
X	BCORL1	ENSG00000085185	ENST00000488135	processed_transcript	KNOWN	None	25657	None	None	129115083	129147127	1	CXorf10	FLJ11362
X	BCORL1	ENSG00000085185	ENST00000218147	protein_coding	KNOWN	CCDS14616	25657	5136	1711	129116586	129191638	1	CXorf10	FLJ11362
X	BCORL1	ENSG00000085185	ENST00000456822	protein_coding	KNOWN	None	25657	4158	1385	129147949	129191601	1	CXorf10	FLJ11362
X	BCORL1	ENSG00000085185	ENST00000441294	protein_coding	KNOWN	None	25657	2221	739	129148443	129162836	1	CXorf10	FLJ11362
X	BCORL1	ENSG00000085185	ENST00000303743	protein_coding	KNOWN	None	25657	5358	1785	129116669	129191573	1	CXorf10	FLJ11362
X	BCORL1	ENSG00000085185	ENST00000359304	protein_coding	KNOWN	None	25657	4746	1581	129116669	129191573	1	CXorf10	FLJ11362
X	BCORL1	ENSG00000085185	ENST00000540052	protein_coding	KNOWN	CCDS14616	25657	5136	1711	129139164	129192058	1	CXorf10	FLJ11362
4	None	ENSG00000248654	ENST00000510977	unprocessed_pseudogene	KNOWN	None	None	None	None	25722138	25722678	-1	None	None
6	BVES	ENSG00000112276	ENST00000314641	protein_coding	KNOWN	CCDS5051	1152	1083	360	105544697	105585049	-1	None	HBVES, POP1, POPDC1
6	BVES	ENSG00000112276	ENST00000336775	protein_coding	KNOWN	CCDS5051	1152	1083	360	105548488	105584560	-1	None	HBVES, POP1, POPDC1
6	BVES	ENSG00000112276	ENST00000446408	protein_coding	KNOWN	CCDS5051	1152	1083	360	105548706	105584223	-1	None	HBVES, POP1, POPDC1
5	None	ENSG00000272520	ENST00000606434	lincRNA	KNOWN	None	None	None	None	6671219	6674499	1	None	None
2	DYNC1I2	ENSG00000077380	ENST00000452242	protein_coding	PUTATIVE	None	2964	752	249	172543919	172582591	1	DNCI2	None
2	DYNC1I2	ENSG00000077380	ENST00000340296	protein_coding	KNOWN	None	2964	1839	612	172543919	172604921	1	DNCI2	None
2	DYNC1I2	ENSG00000077380	ENST00000397119	protein_coding	KNOWN	CCDS46450	2964	1917	638	172543980	172604919	1	DNCI2	None
2	DYNC1I2	ENSG00000077380	ENST00000410079	protein_coding	NOVEL	None	2964	1893	630	172543981	172604499	1	DNCI2	None
2	DYNC1I2	ENSG00000077380	ENST00000471482	retained_intron	KNOWN	None	2964	None	None	172543982	172549594	1	DNCI2	None
2	DYNC1I2	ENSG00000077380	ENST00000438879	protein_coding	PUTATIVE	None	2964	643	213	172543982	172582223	1	DNCI2	None
2	DYNC1I2	ENSG00000077380	ENST00000508530	protein_coding	KNOWN	None	2964	1836	611	172544011	172604921	1	DNCI2	None
2	DYNC1I2	ENSG00000077380	ENST00000409197	protein_coding	KNOWN	None	2964	1839	612	172544182	172604921	1	DNCI2	None
2	DYNC1I2	ENSG00000077380	ENST00000456808	protein_coding	PUTATIVE	None	2964	563	186	172544215	172582203	1	DNCI2	None
2	DYNC1I2	ENSG00000077380	ENST00000409317	protein_coding	KNOWN	None	2964	1899	632	172544218	172604521	1	DNCI2	None
2	DYNC1I2	ENSG00000077380	ENST00000409773	protein_coding	KNOWN	CCDS46450	2964	1917	638	172544254	172604926	1	DNCI2	None
2	DYNC1I2	ENSG00000077380	ENST00000411953	protein_coding	PUTATIVE	None	2964	454	150	172544265	172571860	1	DNCI2	None
2	DYNC1I2	ENSG00000077380	ENST00000409453	protein_coding	KNOWN	None	2964	1914	637	172544286	172604930	1	DNCI2	None
2	DYNC1I2	ENSG00000077380	ENST00000445378	nonsense_mediated_decay	KNOWN	None	2964	366	121	172544302	172582465	1	DNCI2	None
2	DYNC1I2	ENSG00000077380	ENST00000435234	protein_coding	PUTATIVE	None	2964	915	304	172544391	172583423	1	DNCI2	None
2	DYNC1I2	ENSG00000077380	ENST00000443458	protein_coding	PUTATIVE	None	2964	419	138	172544516	172571861	1	DNCI2	None
2	DYNC1I2	ENSG00000077380	ENST00000412370	protein_coding	PUTATIVE	None	2964	412	136	172544521	172571878	1	DNCI2	None
2	DYNC1I2	ENSG00000077380	ENST00000423910	protein_coding	PUTATIVE	None	2964	520	172	172544813	172582160	1	DNCI2	None
2	DYNC1I2	ENSG00000077380	ENST00000425485	protein_coding	PUTATIVE	None	2964	557	184	172544813	172582456	1	DNCI2	None
2	DYNC1I2	ENSG00000077380	ENST00000430778	protein_coding	PUTATIVE	None	2964	330	109	172544820	172569289	1	DNCI2	None
2	DYNC1I2	ENSG00000077380	ENST00000422646	protein_coding	PUTATIVE	None	2964	553	183	172546655	172582187	1	DNCI2	None
2	DYNC1I2	ENSG00000077380	ENST00000482454	retained_intron	KNOWN	None	2964	None	None	172563400	172604919	1	DNCI2	None
2	DYNC1I2	ENSG00000077380	ENST00000476551	retained_intron	KNOWN	None	2964	None	None	172568912	172571886	1	DNCI2	None
2	DYNC1I2	ENSG00000077380	ENST00000470286	retained_intron	KNOWN	None	2964	None	None	172571900	172583362	1	DNCI2	None
2	DYNC1I2	ENSG00000077380	ENST00000479806	retained_intron	KNOWN	None	2964	None	None	172583068	172604917	1	DNCI2	None
2	DYNC1I2	ENSG00000077380	ENST00000534253	protein_coding	KNOWN	None	2964	1917	638	172543979	172604919	1	DNCI2	None
2	DYNC1I2	ENSG00000077380	ENST00000263811	protein_coding	KNOWN	None	2964	1899	632	172543979	172604919	1	DNCI2	None
2	DYNC1I2	ENSG00000077380	ENST00000358002	protein_coding	KNOWN	None	2964	1893	630	172544302	172604626	1	DNCI2	None
16	SBK1	ENSG00000188322	ENST00000341901	protein_coding	KNOWN	CCDS32416	17699	1275	424	28303840	28335170	1	None	Sbk
HSCHR6_MHC_MANN	None	ENSG00000258543	ENST00000457089	protein_coding	PUTATIVE	None	None	687	228	31673372	31679599	1	None	None
HSCHR6_MHC_MANN	None	ENSG00000258543	ENST00000451335	protein_coding	PUTATIVE	None	None	639	212	31676388	31679720	1	None	None
5	None	ENSG00000248677	ENST00000503989	lincRNA	KNOWN	None	None	None	None	6686438	6707824	-1	None	None
5	None	ENSG00000248677	ENST00000514788	lincRNA	KNOWN	None	None	None	None	6705263	6706385	-1	None	None
4	None	ENSG00000250541	ENST00000510905	antisense	KNOWN	None	None	None	None	25771888	25775199	1	None	None
1	SMAP2	ENSG00000084070	ENST00000435168	protein_coding	PUTATIVE	None	25082	523	173	40810522	40879912	1	SMAP1L	None
1	SMAP2	ENSG00000084070	ENST00000372718	protein_coding	KNOWN	CCDS451	25082	1290	429	40839369	40888998	1	SMAP1L	None
1	SMAP2	ENSG00000084070	ENST00000372708	protein_coding	KNOWN	CCDS55592	25082	1200	399	40840320	40888998	1	SMAP1L	None
1	SMAP2	ENSG00000084070	ENST00000487871	processed_transcript	KNOWN	None	25082	None	None	40879649	40881041	1	SMAP1L	None
1	SMAP2	ENSG00000084070	ENST00000539317	protein_coding	KNOWN	CCDS55593	25082	1050	349	40862507	40887932	1	SMAP1L	None
4	None	ENSG00000251009	ENST00000503085	lincRNA	KNOWN	None	None	None	None	25866503	25871172	-1	None	None
17	CBX4	ENSG00000141582	ENST00000269397	protein_coding	KNOWN	CCDS32758	1554	1683	560	77806955	77813228	-1	None	hPC2, PC2, NBP16
17	CBX4	ENSG00000141582	ENST00000448310	protein_coding	PUTATIVE	None	1554	183	60	77808843	77813186	-1	None	hPC2, PC2, NBP16
17	CBX4	ENSG00000141582	ENST00000495122	protein_coding	PUTATIVE	None	1554	271	89	77808942	77811680	-1	None	hPC2, PC2, NBP16
17	CBX4	ENSG00000141582	ENST00000494546	retained_intron	KNOWN	None	1554	None	None	77811545	77813212	-1	None	hPC2, PC2, NBP16
4	None	ENSG00000248452	ENST00000511272	processed_pseudogene	KNOWN	None	None	None	None	26113487	26115461	1	None	None
11	FLRT1	ENSG00000126500	ENST00000246841	protein_coding	KNOWN	CCDS8057	3760	2025	674	63870660	63886645	1	None	MGC21624
HSCHR6_MHC_MANN	LY6G5B	ENSG00000240433	ENST00000436449	retained_intron	KNOWN	None	13931	None	None	31677649	31680816	1	C6orf19	G5b
HSCHR6_MHC_MANN	LY6G5B	ENSG00000240433	ENST00000480515	protein_coding	KNOWN	None	13931	606	201	31678221	31680816	1	C6orf19	G5b
5	None	ENSG00000251365	ENST00000506093	lincRNA	KNOWN	None	None	None	None	6766004	6772066	1	None	None
5	None	ENSG00000272071	ENST00000606566	lincRNA	KNOWN	None	None	None	None	6779571	6780111	1	None	None
16	None	ENSG00000267824	ENST00000593357	protein_coding	KNOWN	None	None	408	135	20499024	20500981	1	None	None
5	None	ENSG00000249734	ENST00000508881	lincRNA	KNOWN	None	None	None	None	6795993	6826841	1	None	None
12	None	ENSG00000258052	ENST00000550437	nonsense_mediated_decay	KNOWN	None	None	231	76	70195449	70249143	1	None	None
3	CDV3	ENSG00000091527	ENST00000264993	protein_coding	KNOWN	CCDS3079	26928	777	258	133292574	133309105	1	None	H41
3	CDV3	ENSG00000091527	ENST00000431519	protein_coding	KNOWN	CCDS46917	26928	642	213	133292820	133306262	1	None	H41
3	CDV3	ENSG00000091527	ENST00000503932	protein_coding	PUTATIVE	None	26928	563	186	133292924	133306815	1	None	H41
3	CDV3	ENSG00000091527	ENST00000508481	protein_coding	PUTATIVE	None	26928	471	156	133293278	133306896	1	None	H41
3	CDV3	ENSG00000091527	ENST00000420115	protein_coding	KNOWN	CCDS46918	26928	333	110	133293301	133309104	1	None	H41
3	CDV3	ENSG00000091527	ENST00000504867	protein_coding	PUTATIVE	None	26928	160	52	133293342	133302994	1	None	H41
3	CDV3	ENSG00000091527	ENST00000507408	protein_coding	NOVEL	None	26928	277	91	133293482	133305526	1	None	H41
3	CDV3	ENSG00000091527	ENST00000511392	protein_coding	PUTATIVE	None	26928	327	108	133293482	133306060	1	None	H41
3	CDV3	ENSG00000091527	ENST00000515421	protein_coding	NOVEL	None	26928	327	108	133293492	133308006	1	None	H41
1	GPR89C	ENSG00000196644	ENST00000447947	protein_coding	KNOWN	None	31985	963	320	145883868	145924373	1	None	None
1	GPR89C	ENSG00000196644	ENST00000544317	retained_intron	KNOWN	None	31985	None	None	145883878	145899138	1	None	None
1	GPR89C	ENSG00000196644	ENST00000542566	nonsense_mediated_decay	KNOWN	None	31985	368	121	145883878	145916799	1	None	None
1	GPR89C	ENSG00000196644	ENST00000422044	processed_transcript	KNOWN	None	31985	None	None	145883878	145924047	1	None	None
1	GPR89C	ENSG00000196644	ENST00000535851	retained_intron	KNOWN	None	31985	None	None	145897302	145923863	1	None	None
1	GPR89C	ENSG00000196644	ENST00000421247	retained_intron	KNOWN	None	31985	None	None	145899466	145923866	1	None	None
6	POPDC3	ENSG00000132429	ENST00000254765	protein_coding	KNOWN	CCDS5052	17649	876	291	105606155	105627735	-1	None	POP3, MGC22671, bA355M14.1
6	POPDC3	ENSG00000132429	ENST00000489134	processed_transcript	KNOWN	None	17649	None	None	105606175	105611640	-1	None	POP3, MGC22671, bA355M14.1
6	POPDC3	ENSG00000132429	ENST00000474760	processed_transcript	KNOWN	None	17649	None	None	105606235	105627870	-1	None	POP3, MGC22671, bA355M14.1
6	POPDC3	ENSG00000132429	ENST00000429112	protein_coding	PUTATIVE	None	17649	303	100	105606456	105607996	-1	None	POP3, MGC22671, bA355M14.1
6	TEAD3	ENSG00000007866	ENST00000402886	protein_coding	NOVEL	None	11716	1128	375	35441374	35464727	-1	TEAD5	TEF-5, ETFR-1
6	TEAD3	ENSG00000007866	ENST00000338863	protein_coding	KNOWN	CCDS47414	11716	1308	435	35441374	35464853	-1	TEAD5	TEF-5, ETFR-1
6	TEAD3	ENSG00000007866	ENST00000433586	protein_coding	NOVEL	None	11716	657	218	35443460	35447899	-1	TEAD5	TEF-5, ETFR-1
7	None	ENSG00000222012	ENST00000409610	protein_coding	PUTATIVE	None	None	351	116	157406715	157411457	1	None	None
HSCHR6_MHC_MCF	SAPCD1	ENSG00000234951	ENST00000425286	protein_coding	KNOWN	None	13938	444	147	31806876	31808928	1	C6orf26	NG23
HSCHR6_MHC_MCF	SAPCD1	ENSG00000234951	ENST00000453534	protein_coding	NOVEL	None	13938	537	178	31807073	31808928	1	C6orf26	NG23
HSCHR6_MHC_MCF	SAPCD1	ENSG00000234951	ENST00000491492	retained_intron	KNOWN	None	13938	None	None	31807697	31808376	1	C6orf26	NG23
HSCHR6_MHC_MCF	SAPCD1	ENSG00000234951	ENST00000551778	protein_coding	KNOWN	None	13938	447	148	31807073	31808922	1	C6orf26	NG23
20	CSTF1	ENSG00000101138	ENST00000498689	retained_intron	KNOWN	None	2483	None	None	54967427	54970993	1	None	None
20	CSTF1	ENSG00000101138	ENST00000415828	protein_coding	KNOWN	None	2483	1036	344	54967427	54974413	1	None	None
20	CSTF1	ENSG00000101138	ENST00000217109	protein_coding	KNOWN	CCDS13452	2483	1296	431	54967450	54979518	1	None	None
20	CSTF1	ENSG00000101138	ENST00000428552	protein_coding	KNOWN	None	2483	426	141	54967467	54972519	1	None	None
20	CSTF1	ENSG00000101138	ENST00000452950	protein_coding	KNOWN	None	2483	1036	344	54967707	54974413	1	None	None
20	CSTF1	ENSG00000101138	ENST00000493039	processed_transcript	KNOWN	None	2483	None	None	54967739	54979518	1	None	None
20	CSTF1	ENSG00000101138	ENST00000490539	processed_transcript	KNOWN	None	2483	None	None	54967751	54974217	1	None	None
22	CLDN5	ENSG00000184113	ENST00000406028	protein_coding	KNOWN	CCDS13763	2047	912	303	19510547	19515068	-1	AWAL, TMVCF	CPETRL1, BEC1
22	CLDN5	ENSG00000184113	ENST00000403084	protein_coding	KNOWN	CCDS13763	2047	912	303	19510550	19512906	-1	AWAL, TMVCF	CPETRL1, BEC1
22	CLDN5	ENSG00000184113	ENST00000413119	protein_coding	KNOWN	CCDS13763	2047	912	303	19510575	19512946	-1	AWAL, TMVCF	CPETRL1, BEC1
5	FAXDC2	ENSG00000170271	ENST00000326080	protein_coding	KNOWN	CCDS43390	1334	1002	333	154198051	154230466	-1	C5orf4	FLJ13758
5	FAXDC2	ENSG00000170271	ENST00000423554	retained_intron	KNOWN	None	1334	None	None	154198054	154230169	-1	C5orf4	FLJ13758
5	FAXDC2	ENSG00000170271	ENST00000524250	retained_intron	KNOWN	None	1334	None	None	154199310	154204268	-1	C5orf4	FLJ13758
5	FAXDC2	ENSG00000170271	ENST00000517938	protein_coding	KNOWN	None	1334	933	310	154199754	154230169	-1	C5orf4	FLJ13758
5	FAXDC2	ENSG00000170271	ENST00000520581	nonsense_mediated_decay	KNOWN	None	1334	183	60	154199929	154230157	-1	C5orf4	FLJ13758
5	FAXDC2	ENSG00000170271	ENST00000521518	nonsense_mediated_decay	KNOWN	None	1334	153	50	154202030	154230163	-1	C5orf4	FLJ13758
5	FAXDC2	ENSG00000170271	ENST00000524363	nonsense_mediated_decay	KNOWN	None	1334	300	99	154202055	154214514	-1	C5orf4	FLJ13758
5	FAXDC2	ENSG00000170271	ENST00000522825	nonsense_mediated_decay	KNOWN	None	1334	132	43	154202087	154214648	-1	C5orf4	FLJ13758
5	FAXDC2	ENSG00000170271	ENST00000519501	protein_coding	KNOWN	None	1334	440	145	154203010	154230163	-1	C5orf4	FLJ13758
5	FAXDC2	ENSG00000170271	ENST00000519258	retained_intron	KNOWN	None	1334	None	None	154203064	154210858	-1	C5orf4	FLJ13758
5	FAXDC2	ENSG00000170271	ENST00000523997	processed_transcript	KNOWN	None	1334	None	None	154203121	154215882	-1	C5orf4	FLJ13758
5	FAXDC2	ENSG00000170271	ENST00000518651	protein_coding	PUTATIVE	None	1334	345	114	154204021	154230163	-1	C5orf4	FLJ13758
5	FAXDC2	ENSG00000170271	ENST00000520968	protein_coding	PUTATIVE	None	1334	309	102	154204044	154238812	-1	C5orf4	FLJ13758
5	FAXDC2	ENSG00000170271	ENST00000517448	retained_intron	KNOWN	None	1334	None	None	154209887	154230150	-1	C5orf4	FLJ13758
5	FAXDC2	ENSG00000170271	ENST00000517874	retained_intron	KNOWN	None	1334	None	None	154210450	154214834	-1	C5orf4	FLJ13758
5	FAXDC2	ENSG00000170271	ENST00000520461	protein_coding	KNOWN	None	1334	95	30	154214448	154230173	-1	C5orf4	FLJ13758
22	OSBP2	ENSG00000184792	ENST00000438716	protein_coding	PUTATIVE	None	8504	356	117	31089769	31137354	1	OSBPL1	KIAA1664, ORP-4, ORP4
22	OSBP2	ENSG00000184792	ENST00000407373	protein_coding	NOVEL	None	8504	2232	743	31090063	31303619	1	OSBPL1	KIAA1664, ORP-4, ORP4
22	OSBP2	ENSG00000184792	ENST00000332585	protein_coding	KNOWN	CCDS43002	8504	2751	916	31090793	31303811	1	OSBPL1	KIAA1664, ORP-4, ORP4
22	OSBP2	ENSG00000184792	ENST00000446658	protein_coding	NOVEL	None	8504	2748	915	31090876	31302393	1	OSBPL1	KIAA1664, ORP-4, ORP4
22	OSBP2	ENSG00000184792	ENST00000477355	processed_transcript	KNOWN	None	8504	None	None	31160240	31266600	1	OSBPL1	KIAA1664, ORP-4, ORP4
22	OSBP2	ENSG00000184792	ENST00000445781	protein_coding	PUTATIVE	None	8504	75	24	31160240	31283478	1	OSBPL1	KIAA1664, ORP-4, ORP4
22	OSBP2	ENSG00000184792	ENST00000401475	protein_coding	PUTATIVE	None	8504	1650	549	31160240	31302759	1	OSBPL1	KIAA1664, ORP-4, ORP4
22	OSBP2	ENSG00000184792	ENST00000464341	processed_transcript	KNOWN	None	8504	None	None	31160323	31240674	1	OSBPL1	KIAA1664, ORP-4, ORP4
22	OSBP2	ENSG00000184792	ENST00000496367	processed_transcript	PUTATIVE	None	8504	None	None	31166647	31268510	1	OSBPL1	KIAA1664, ORP-4, ORP4
22	OSBP2	ENSG00000184792	ENST00000424224	protein_coding	PUTATIVE	None	8504	524	173	31199073	31285622	1	OSBPL1	KIAA1664, ORP-4, ORP4
22	OSBP2	ENSG00000184792	ENST00000454145	protein_coding	PUTATIVE	None	8504	589	195	31277668	31285604	1	OSBPL1	KIAA1664, ORP-4, ORP4
22	OSBP2	ENSG00000184792	ENST00000453621	protein_coding	NOVEL	None	8504	895	297	31277668	31289122	1	OSBPL1	KIAA1664, ORP-4, ORP4
22	OSBP2	ENSG00000184792	ENST00000431368	protein_coding	NOVEL	None	8504	1766	587	31277668	31303610	1	OSBPL1	KIAA1664, ORP-4, ORP4
22	OSBP2	ENSG00000184792	ENST00000452656	protein_coding	NOVEL	None	8504	1353	450	31283413	31303630	1	OSBPL1	KIAA1664, ORP-4, ORP4
22	OSBP2	ENSG00000184792	ENST00000496575	processed_transcript	PUTATIVE	None	8504	None	None	31286936	31290248	1	OSBPL1	KIAA1664, ORP-4, ORP4
22	OSBP2	ENSG00000184792	ENST00000433183	protein_coding	PUTATIVE	None	8504	226	74	31289228	31290450	1	OSBPL1	KIAA1664, ORP-4, ORP4
22	OSBP2	ENSG00000184792	ENST00000403222	protein_coding	KNOWN	None	8504	2253	750	31089769	31302541	1	OSBPL1	KIAA1664, ORP-4, ORP4
22	OSBP2	ENSG00000184792	ENST00000382310	protein_coding	KNOWN	None	8504	2625	874	31090861	31302551	1	OSBPL1	KIAA1664, ORP-4, ORP4
22	OSBP2	ENSG00000184792	ENST00000437268	protein_coding	KNOWN	None	8504	1980	659	31218503	31302701	1	OSBPL1	KIAA1664, ORP-4, ORP4
22	OSBP2	ENSG00000184792	ENST00000535268	protein_coding	KNOWN	None	8504	1383	460	31277668	31302608	1	OSBPL1	KIAA1664, ORP-4, ORP4
6	PREP	ENSG00000085377	ENST00000369110	protein_coding	KNOWN	CCDS5053	9358	2133	710	105725440	105850959	-1	None	None
6	PREP	ENSG00000085377	ENST00000448705	protein_coding	KNOWN	None	9358	137	44	105770130	105771643	-1	None	None
X	RPL10	ENSG00000147403	ENST00000474786	retained_intron	KNOWN	None	10298	None	None	153618315	153628507	1	None	NOV, QM, DXS648E, DXS648, FLJ23544, L10
X	RPL10	ENSG00000147403	ENST00000369817	protein_coding	KNOWN	CCDS14746	10298	645	214	153625495	153629258	1	None	NOV, QM, DXS648E, DXS648, FLJ23544, L10
X	RPL10	ENSG00000147403	ENST00000479366	processed_transcript	KNOWN	None	10298	None	None	153626090	153626960	1	None	NOV, QM, DXS648E, DXS648, FLJ23544, L10
X	RPL10	ENSG00000147403	ENST00000436473	protein_coding	KNOWN	None	10298	602	199	153626708	153629152	1	None	NOV, QM, DXS648E, DXS648, FLJ23544, L10
X	RPL10	ENSG00000147403	ENST00000344746	protein_coding	KNOWN	CCDS14746	10298	645	214	153626713	153630680	1	None	NOV, QM, DXS648E, DXS648, FLJ23544, L10
X	RPL10	ENSG00000147403	ENST00000489200	retained_intron	KNOWN	None	10298	None	None	153626718	153629239	1	None	NOV, QM, DXS648E, DXS648, FLJ23544, L10
X	RPL10	ENSG00000147403	ENST00000491035	retained_intron	KNOWN	None	10298	None	None	153626718	153629254	1	None	NOV, QM, DXS648E, DXS648, FLJ23544, L10
X	RPL10	ENSG00000147403	ENST00000458500	protein_coding	PUTATIVE	None	10298	545	180	153626719	153629258	1	None	NOV, QM, DXS648E, DXS648, FLJ23544, L10
X	RPL10	ENSG00000147403	ENST00000485196	retained_intron	KNOWN	None	10298	None	None	153626720	153629158	1	None	NOV, QM, DXS648E, DXS648, FLJ23544, L10
X	RPL10	ENSG00000147403	ENST00000482732	retained_intron	KNOWN	None	10298	None	None	153626729	153629254	1	None	NOV, QM, DXS648E, DXS648, FLJ23544, L10
X	RPL10	ENSG00000147403	ENST00000492572	retained_intron	KNOWN	None	10298	None	None	153626837	153629238	1	None	NOV, QM, DXS648E, DXS648, FLJ23544, L10
X	RPL10	ENSG00000147403	ENST00000467168	retained_intron	KNOWN	None	10298	None	None	153626838	153629254	1	None	NOV, QM, DXS648E, DXS648, FLJ23544, L10
X	RPL10	ENSG00000147403	ENST00000406022	protein_coding	PUTATIVE	None	10298	492	163	153627231	153629250	1	None	NOV, QM, DXS648E, DXS648, FLJ23544, L10
X	RPL10	ENSG00000147403	ENST00000451365	protein_coding	PUTATIVE	None	10298	327	108	153627707	153632038	1	None	NOV, QM, DXS648E, DXS648, FLJ23544, L10
X	RPL10	ENSG00000147403	ENST00000449494	protein_coding	PUTATIVE	None	10298	87	28	153628224	153631831	1	None	NOV, QM, DXS648E, DXS648, FLJ23544, L10
X	RPL10	ENSG00000147403	ENST00000427682	protein_coding	PUTATIVE	None	10298	396	131	153628224	153631838	1	None	NOV, QM, DXS648E, DXS648, FLJ23544, L10
X	RPL10	ENSG00000147403	ENST00000428169	protein_coding	PUTATIVE	None	10298	276	91	153628224	153637504	1	None	NOV, QM, DXS648E, DXS648, FLJ23544, L10
X	RPL10	ENSG00000147403	ENST00000424325	protein_coding	KNOWN	CCDS14746	10298	645	214	153626571	153630680	1	None	NOV, QM, DXS648E, DXS648, FLJ23544, L10
1	ZFP69B	ENSG00000187801	ENST00000469416	retained_intron	KNOWN	None	28053	None	None	40915774	40929386	1	ZNF643	ZKSCAN23B, FLJ34293, ZSCAN54B
1	ZFP69B	ENSG00000187801	ENST00000484445	protein_coding	PUTATIVE	None	28053	396	131	40915779	40929352	1	ZNF643	ZKSCAN23B, FLJ34293, ZSCAN54B
1	ZFP69B	ENSG00000187801	ENST00000411995	protein_coding	KNOWN	CCDS452	28053	1605	534	40915779	40929390	1	ZNF643	ZKSCAN23B, FLJ34293, ZSCAN54B
1	ZFP69B	ENSG00000187801	ENST00000361584	protein_coding	KNOWN	None	28053	1299	432	40915779	40929352	1	ZNF643	ZKSCAN23B, FLJ34293, ZSCAN54B
HSCHR6_MHC_MANN	LY6G5C	ENSG00000228883	ENST00000492872	processed_transcript	KNOWN	None	13932	None	None	31683954	31687635	-1	C6orf20	G5c, NG33
HSCHR6_MHC_MANN	LY6G5C	ENSG00000228883	ENST00000471869	retained_intron	KNOWN	None	13932	None	None	31683954	31687635	-1	C6orf20	G5c, NG33
HSCHR6_MHC_MANN	LY6G5C	ENSG00000228883	ENST00000418117	protein_coding	KNOWN	None	13932	453	150	31683954	31687648	-1	C6orf20	G5c, NG33
HSCHR6_MHC_MANN	LY6G5C	ENSG00000228883	ENST00000484757	processed_transcript	KNOWN	None	13932	None	None	31683954	31688747	-1	C6orf20	G5c, NG33
HSCHR6_MHC_MANN	LY6G5C	ENSG00000228883	ENST00000481927	processed_transcript	KNOWN	None	13932	None	None	31683954	31690480	-1	C6orf20	G5c, NG33
HSCHR6_MHC_MANN	LY6G5C	ENSG00000228883	ENST00000481901	processed_transcript	KNOWN	None	13932	None	None	31683954	31691310	-1	C6orf20	G5c, NG33
HSCHR6_MHC_MANN	LY6G5C	ENSG00000228883	ENST00000449871	protein_coding	KNOWN	None	13932	677	224	31683954	31691310	-1	C6orf20	G5c, NG33
HSCHR6_MHC_MANN	LY6G5C	ENSG00000228883	ENST00000471882	processed_transcript	KNOWN	None	13932	None	None	31688619	31689231	-1	C6orf20	G5c, NG33
HSCHR6_MHC_MANN	LY6G5C	ENSG00000228883	ENST00000548179	protein_coding	KNOWN	None	13932	447	148	31683954	31691310	-1	C6orf20	G5c, NG33
6	DLL1	ENSG00000198719	ENST00000366756	protein_coding	KNOWN	CCDS5313	2908	2172	723	170591294	170599561	-1	None	None
11	STIP1	ENSG00000168439	ENST00000358794	protein_coding	PUTATIVE	None	11387	1773	590	63952744	63972015	1	None	HOP, STI1
11	STIP1	ENSG00000168439	ENST00000305218	protein_coding	KNOWN	CCDS8058	11387	1632	543	63953587	63972015	1	None	HOP, STI1
11	STIP1	ENSG00000168439	ENST00000536973	nonsense_mediated_decay	KNOWN	None	11387	417	138	63953657	63971691	1	None	HOP, STI1
11	STIP1	ENSG00000168439	ENST00000538945	protein_coding	NOVEL	None	11387	1560	519	63953676	63971880	1	None	HOP, STI1
11	STIP1	ENSG00000168439	ENST00000543847	protein_coding	PUTATIVE	None	11387	711	236	63953697	63963348	1	None	HOP, STI1
11	STIP1	ENSG00000168439	ENST00000540736	retained_intron	KNOWN	None	11387	None	None	63953706	63960911	1	None	HOP, STI1
11	STIP1	ENSG00000168439	ENST00000540501	processed_transcript	KNOWN	None	11387	None	None	63953775	63963283	1	None	HOP, STI1
11	STIP1	ENSG00000168439	ENST00000544739	processed_transcript	KNOWN	None	11387	None	None	63964308	63965446	1	None	HOP, STI1
11	STIP1	ENSG00000168439	ENST00000537479	processed_transcript	KNOWN	None	11387	None	None	63964468	63967480	1	None	HOP, STI1
11	STIP1	ENSG00000168439	ENST00000538497	retained_intron	KNOWN	None	11387	None	None	63964662	63967693	1	None	HOP, STI1
11	STIP1	ENSG00000168439	ENST00000540887	protein_coding	PUTATIVE	None	11387	414	137	63967724	63971615	1	None	HOP, STI1
11	STIP1	ENSG00000168439	ENST00000355603	retained_intron	KNOWN	None	11387	None	None	63969877	63970616	1	None	HOP, STI1
10	MRPL43	ENSG00000055950	ENST00000523148	protein_coding	PUTATIVE	None	14517	445	147	102729215	102746953	-1	None	bMRP36a
10	MRPL43	ENSG00000055950	ENST00000318325	protein_coding	KNOWN	CCDS7502	14517	648	215	102737578	102747254	-1	None	bMRP36a
10	MRPL43	ENSG00000055950	ENST00000370241	protein_coding	KNOWN	None	14517	555	184	102738486	102747213	-1	None	bMRP36a
10	MRPL43	ENSG00000055950	ENST00000370242	protein_coding	KNOWN	None	14517	786	261	102738955	102747254	-1	None	bMRP36a
10	MRPL43	ENSG00000055950	ENST00000476012	processed_transcript	KNOWN	None	14517	None	None	102741133	102747027	-1	None	bMRP36a
10	MRPL43	ENSG00000055950	ENST00000448244	protein_coding	KNOWN	None	14517	509	168	102741133	102747190	-1	None	bMRP36a
10	MRPL43	ENSG00000055950	ENST00000299179	protein_coding	KNOWN	CCDS7503	14517	609	202	102741133	102747251	-1	None	bMRP36a
10	MRPL43	ENSG00000055950	ENST00000370236	protein_coding	KNOWN	CCDS7505	14517	480	159	102746031	102747240	-1	None	bMRP36a
10	MRPL43	ENSG00000055950	ENST00000493646	processed_transcript	KNOWN	None	14517	None	None	102746033	102747043	-1	None	bMRP36a
10	MRPL43	ENSG00000055950	ENST00000318364	protein_coding	KNOWN	CCDS7505	14517	480	159	102746033	102747272	-1	None	bMRP36a
10	MRPL43	ENSG00000055950	ENST00000477279	protein_coding	PUTATIVE	None	14517	135	44	102746033	102747272	-1	None	bMRP36a
10	MRPL43	ENSG00000055950	ENST00000370234	protein_coding	KNOWN	None	14517	495	164	102746037	102747240	-1	None	bMRP36a
10	MRPL43	ENSG00000055950	ENST00000487059	retained_intron	KNOWN	None	14517	None	None	102746345	102747270	-1	None	bMRP36a
10	MRPL43	ENSG00000055950	ENST00000342071	protein_coding	KNOWN	CCDS7504	14517	708	235	102741134	102747272	-1	None	bMRP36a
17	TBC1D16	ENSG00000167291	ENST00000310924	protein_coding	KNOWN	CCDS11766	28356	2304	767	77906142	78009647	-1	None	MGC25062, FLJ20748
17	TBC1D16	ENSG00000167291	ENST00000576768	protein_coding	PUTATIVE	None	28356	1179	392	77909591	77924656	-1	None	MGC25062, FLJ20748
17	TBC1D16	ENSG00000167291	ENST00000340848	protein_coding	PUTATIVE	None	28356	1218	405	77911707	77924635	-1	None	MGC25062, FLJ20748
17	TBC1D16	ENSG00000167291	ENST00000572862	protein_coding	PUTATIVE	None	28356	837	278	77917655	77924627	-1	None	MGC25062, FLJ20748
17	TBC1D16	ENSG00000167291	ENST00000570373	protein_coding	PUTATIVE	None	28356	840	279	77917844	77924633	-1	None	MGC25062, FLJ20748
17	TBC1D16	ENSG00000167291	ENST00000574241	protein_coding	PUTATIVE	None	28356	770	255	77921444	77925812	-1	None	MGC25062, FLJ20748
17	TBC1D16	ENSG00000167291	ENST00000573782	protein_coding	PUTATIVE	None	28356	570	189	77921447	77924629	-1	None	MGC25062, FLJ20748
17	TBC1D16	ENSG00000167291	ENST00000574427	protein_coding	PUTATIVE	None	28356	565	187	77921494	77924632	-1	None	MGC25062, FLJ20748
17	TBC1D16	ENSG00000167291	ENST00000571872	protein_coding	PUTATIVE	None	28356	392	129	77924370	77967433	-1	None	MGC25062, FLJ20748
3	UBE2E1	ENSG00000170142	ENST00000306627	protein_coding	KNOWN	CCDS2638	12477	582	193	23847394	23932807	1	None	UbcH6
3	UBE2E1	ENSG00000170142	ENST00000484048	retained_intron	KNOWN	None	12477	None	None	23847446	23849379	1	None	UbcH6
3	UBE2E1	ENSG00000170142	ENST00000346855	protein_coding	NOVEL	CCDS2639	12477	531	176	23847456	23932807	1	None	UbcH6
3	UBE2E1	ENSG00000170142	ENST00000495141	retained_intron	KNOWN	None	12477	None	None	23847457	23929280	1	None	UbcH6
3	UBE2E1	ENSG00000170142	ENST00000481622	processed_transcript	PUTATIVE	None	12477	None	None	23847475	23850326	1	None	UbcH6
3	UBE2E1	ENSG00000170142	ENST00000442670	protein_coding	NOVEL	None	12477	441	146	23848580	23930707	1	None	UbcH6
3	UBE2E1	ENSG00000170142	ENST00000467766	protein_coding	PUTATIVE	None	12477	504	167	23851934	23930917	1	None	UbcH6
3	UBE2E1	ENSG00000170142	ENST00000424381	protein_coding	PUTATIVE	CCDS56244	12477	483	160	23851934	23932805	1	None	UbcH6
3	UBE2E1	ENSG00000170142	ENST00000475680	processed_transcript	KNOWN	None	12477	None	None	23852286	23932580	1	None	UbcH6
3	UBE2E1	ENSG00000170142	ENST00000452012	protein_coding	NOVEL	None	12477	456	151	23852949	23932807	1	None	UbcH6
3	UBE2E1	ENSG00000170142	ENST00000493707	processed_transcript	KNOWN	None	12477	None	None	23907762	23932363	1	None	UbcH6
HSCHR6_MHC_QBL	None	ENSG00000268728	ENST00000597898	protein_coding	NOVEL	None	None	72	23	31474803	31475278	1	None	None
1	ZFP69	ENSG00000187815	ENST00000372706	protein_coding	KNOWN	CCDS30686	24708	1581	526	40942887	40962015	1	ZNF642	ZKSCAN23A, FLJ16030, ZFP69A, ZSCAN54A
1	ZFP69	ENSG00000187815	ENST00000372705	protein_coding	KNOWN	CCDS30686	24708	1581	526	40943302	40961960	1	ZNF642	ZKSCAN23A, FLJ16030, ZFP69A, ZSCAN54A
1	ZFP69	ENSG00000187815	ENST00000482712	processed_transcript	KNOWN	None	24708	None	None	40954818	40956828	1	ZNF642	ZKSCAN23A, FLJ16030, ZFP69A, ZSCAN54A
HSCHR6_MHC_QBL	MCCD1	ENSG00000206447	ENST00000383512	protein_coding	KNOWN	None	20668	360	119	31486778	31488293	1	None	None
12	MYRFL	ENSG00000166268	ENST00000552032	protein_coding	PUTATIVE	None	26316	2733	910	70219084	70352503	1	C12orf15, C12orf28	FLJ25056, bcm1377
12	MYRFL	ENSG00000166268	ENST00000547771	protein_coding	PUTATIVE	None	26316	2697	898	70219096	70352877	1	C12orf15, C12orf28	FLJ25056, bcm1377
12	MYRFL	ENSG00000166268	ENST00000548892	protein_coding	NOVEL	None	26316	1127	374	70320355	70352503	1	C12orf15, C12orf28	FLJ25056, bcm1377
12	MYRFL	ENSG00000166268	ENST00000535034	protein_coding	PUTATIVE	None	26316	753	250	70326316	70352387	1	C12orf15, C12orf28	FLJ25056, bcm1377
12	MYRFL	ENSG00000166268	ENST00000299350	protein_coding	KNOWN	None	26316	828	275	70320437	70352503	1	C12orf15, C12orf28	FLJ25056, bcm1377
16	DDX28	ENSG00000182810	ENST00000332395	protein_coding	KNOWN	CCDS10858	17330	1623	540	68055179	68057770	-1	None	MDDX28, FLJ11282
16	ACSM2B	ENSG00000066813	ENST00000329697	protein_coding	KNOWN	CCDS10586	30931	1734	577	20547548	20587689	-1	ACSM2	HXMA, HYST1046
16	ACSM2B	ENSG00000066813	ENST00000566998	retained_intron	KNOWN	None	30931	None	None	20548046	20559790	-1	ACSM2	HXMA, HYST1046
16	ACSM2B	ENSG00000066813	ENST00000565322	protein_coding	PUTATIVE	None	30931	1497	498	20548413	20587638	-1	ACSM2	HXMA, HYST1046
16	ACSM2B	ENSG00000066813	ENST00000565232	protein_coding	KNOWN	CCDS10586	30931	1734	577	20548462	20587608	-1	ACSM2	HXMA, HYST1046
16	ACSM2B	ENSG00000066813	ENST00000567001	protein_coding	KNOWN	CCDS10586	30931	1734	577	20548467	20587626	-1	ACSM2	HXMA, HYST1046
16	ACSM2B	ENSG00000066813	ENST00000568098	protein_coding	NOVEL	None	30931	332	109	20548507	20556492	-1	ACSM2	HXMA, HYST1046
16	ACSM2B	ENSG00000066813	ENST00000564849	retained_intron	KNOWN	None	30931	None	None	20548614	20552638	-1	ACSM2	HXMA, HYST1046
16	ACSM2B	ENSG00000066813	ENST00000569131	retained_intron	KNOWN	None	30931	None	None	20553023	20558638	-1	ACSM2	HXMA, HYST1046
16	ACSM2B	ENSG00000066813	ENST00000569364	retained_intron	KNOWN	None	30931	None	None	20554010	20587695	-1	ACSM2	HXMA, HYST1046
16	ACSM2B	ENSG00000066813	ENST00000563943	retained_intron	KNOWN	None	30931	None	None	20554147	20587634	-1	ACSM2	HXMA, HYST1046
16	ACSM2B	ENSG00000066813	ENST00000567288	processed_transcript	KNOWN	None	30931	None	None	20555850	20565145	-1	ACSM2	HXMA, HYST1046
16	ACSM2B	ENSG00000066813	ENST00000569327	nonsense_mediated_decay	KNOWN	None	30931	627	208	20559702	20587603	-1	ACSM2	HXMA, HYST1046
16	ACSM2B	ENSG00000066813	ENST00000569163	protein_coding	PUTATIVE	None	30931	450	149	20560933	20566616	-1	ACSM2	HXMA, HYST1046
16	ACSM2B	ENSG00000066813	ENST00000568882	protein_coding	PUTATIVE	None	30931	185	60	20566765	20587749	-1	ACSM2	HXMA, HYST1046
16	ACSM2B	ENSG00000066813	ENST00000566384	protein_coding	KNOWN	None	30931	354	117	20570593	20587599	-1	ACSM2	HXMA, HYST1046
16	ACSM2B	ENSG00000066813	ENST00000569344	protein_coding	KNOWN	None	30931	317	104	20570630	20587673	-1	ACSM2	HXMA, HYST1046
16	ACSM2B	ENSG00000066813	ENST00000562026	processed_transcript	KNOWN	None	30931	None	None	20585447	20587606	-1	ACSM2	HXMA, HYST1046
16	ACSM2B	ENSG00000066813	ENST00000564855	processed_transcript	KNOWN	None	30931	None	None	20585631	20587662	-1	ACSM2	HXMA, HYST1046
16	ACSM2B	ENSG00000066813	ENST00000414188	protein_coding	KNOWN	None	30931	627	208	20565469	20587695	-1	ACSM2	HXMA, HYST1046
X	IL3RA	ENSG00000185291	ENST00000331035	protein_coding	KNOWN	CCDS14113	6012	1137	378	1455509	1501578	1	None	CD123
X	IL3RA	ENSG00000185291	ENST00000432757	protein_coding	KNOWN	None	6012	493	163	1455689	1475224	1	None	CD123
X	IL3RA	ENSG00000185291	ENST00000381469	protein_coding	KNOWN	CCDS59158	6012	903	300	1460659	1501358	1	None	CD123
14	ENTPD5	ENSG00000187097	ENST00000557325	protein_coding	PUTATIVE	None	3367	1224	407	74424713	74482631	-1	CD39L4, PCPH	NTPDase-5
14	ENTPD5	ENSG00000187097	ENST00000555829	protein_coding	PUTATIVE	None	3367	242	79	74427787	74439637	-1	CD39L4, PCPH	NTPDase-5
14	ENTPD5	ENSG00000187097	ENST00000334696	protein_coding	KNOWN	CCDS9825	3367	1287	428	74429396	74486035	-1	CD39L4, PCPH	NTPDase-5
14	ENTPD5	ENSG00000187097	ENST00000553284	protein_coding	PUTATIVE	None	3367	633	210	74443036	74463011	-1	CD39L4, PCPH	NTPDase-5
14	ENTPD5	ENSG00000187097	ENST00000556242	protein_coding	PUTATIVE	None	3367	276	91	74452927	74486013	-1	CD39L4, PCPH	NTPDase-5
14	ENTPD5	ENSG00000187097	ENST00000554664	processed_transcript	KNOWN	None	3367	None	None	74454850	74486102	-1	CD39L4, PCPH	NTPDase-5
14	ENTPD5	ENSG00000187097	ENST00000556108	processed_transcript	KNOWN	None	3367	None	None	74463220	74486000	-1	CD39L4, PCPH	NTPDase-5
14	ENTPD5	ENSG00000187097	ENST00000557681	retained_intron	KNOWN	None	3367	None	None	74475633	74485974	-1	CD39L4, PCPH	NTPDase-5
17	MIEN1	ENSG00000141741	ENST00000582963	retained_intron	KNOWN	None	28230	None	None	37884749	37886747	-1	C17orf37	MGC14832, ORB3, XTP4, C35, Rdx12
17	MIEN1	ENSG00000141741	ENST00000469568	retained_intron	KNOWN	None	28230	None	None	37885409	37886744	-1	C17orf37	MGC14832, ORB3, XTP4, C35, Rdx12
17	MIEN1	ENSG00000141741	ENST00000474210	processed_transcript	KNOWN	None	28230	None	None	37885409	37886785	-1	C17orf37	MGC14832, ORB3, XTP4, C35, Rdx12
17	MIEN1	ENSG00000141741	ENST00000394231	protein_coding	KNOWN	CCDS11344	28230	348	115	37885409	37887040	-1	C17orf37	MGC14832, ORB3, XTP4, C35, Rdx12
17	MIEN1	ENSG00000141741	ENST00000577810	protein_coding	PUTATIVE	None	28230	351	116	37885411	37886763	-1	C17orf37	MGC14832, ORB3, XTP4, C35, Rdx12
17	MIEN1	ENSG00000141741	ENST00000498164	retained_intron	KNOWN	None	28230	None	None	37885413	37886769	-1	C17orf37	MGC14832, ORB3, XTP4, C35, Rdx12
14	RALGAPA1	ENSG00000174373	ENST00000554573	protein_coding	NOVEL	None	17770	1070	355	36007558	36096482	-1	GARNL1	GRIPE, DKFZp667F074, KIAA0884, Tulip1, RalGAPalpha1
14	RALGAPA1	ENSG00000174373	ENST00000389698	protein_coding	KNOWN	CCDS32065	17770	6111	2036	36007558	36278432	-1	GARNL1	GRIPE, DKFZp667F074, KIAA0884, Tulip1, RalGAPalpha1
14	RALGAPA1	ENSG00000174373	ENST00000307138	protein_coding	KNOWN	CCDS32064	17770	6252	2083	36007558	36278510	-1	GARNL1	GRIPE, DKFZp667F074, KIAA0884, Tulip1, RalGAPalpha1
14	RALGAPA1	ENSG00000174373	ENST00000554259	protein_coding	KNOWN	None	17770	2169	722	36007563	36121082	-1	GARNL1	GRIPE, DKFZp667F074, KIAA0884, Tulip1, RalGAPalpha1
14	RALGAPA1	ENSG00000174373	ENST00000556106	processed_transcript	KNOWN	None	17770	None	None	36008366	36011730	-1	GARNL1	GRIPE, DKFZp667F074, KIAA0884, Tulip1, RalGAPalpha1
14	RALGAPA1	ENSG00000174373	ENST00000382366	protein_coding	NOVEL	None	17770	6150	2049	36008841	36278140	-1	GARNL1	GRIPE, DKFZp667F074, KIAA0884, Tulip1, RalGAPalpha1
14	RALGAPA1	ENSG00000174373	ENST00000553892	protein_coding	NOVEL	None	17770	6250	2082	36017739	36278041	-1	GARNL1	GRIPE, DKFZp667F074, KIAA0884, Tulip1, RalGAPalpha1
14	RALGAPA1	ENSG00000174373	ENST00000554355	retained_intron	KNOWN	None	17770	None	None	36018380	36042066	-1	GARNL1	GRIPE, DKFZp667F074, KIAA0884, Tulip1, RalGAPalpha1
14	RALGAPA1	ENSG00000174373	ENST00000556837	processed_transcript	KNOWN	None	17770	None	None	36033579	36041886	-1	GARNL1	GRIPE, DKFZp667F074, KIAA0884, Tulip1, RalGAPalpha1
14	RALGAPA1	ENSG00000174373	ENST00000554652	retained_intron	KNOWN	None	17770	None	None	36145435	36230100	-1	GARNL1	GRIPE, DKFZp667F074, KIAA0884, Tulip1, RalGAPalpha1
14	RALGAPA1	ENSG00000174373	ENST00000557638	retained_intron	KNOWN	None	17770	None	None	36152652	36154180	-1	GARNL1	GRIPE, DKFZp667F074, KIAA0884, Tulip1, RalGAPalpha1
14	RALGAPA1	ENSG00000174373	ENST00000556839	retained_intron	KNOWN	None	17770	None	None	36155748	36193082	-1	GARNL1	GRIPE, DKFZp667F074, KIAA0884, Tulip1, RalGAPalpha1
14	RALGAPA1	ENSG00000174373	ENST00000553917	retained_intron	KNOWN	None	17770	None	None	36158740	36192323	-1	GARNL1	GRIPE, DKFZp667F074, KIAA0884, Tulip1, RalGAPalpha1
14	RALGAPA1	ENSG00000174373	ENST00000554704	processed_transcript	KNOWN	None	17770	None	None	36175840	36230063	-1	GARNL1	GRIPE, DKFZp667F074, KIAA0884, Tulip1, RalGAPalpha1
14	RALGAPA1	ENSG00000174373	ENST00000557069	retained_intron	KNOWN	None	17770	None	None	36197547	36211732	-1	GARNL1	GRIPE, DKFZp667F074, KIAA0884, Tulip1, RalGAPalpha1
14	RALGAPA1	ENSG00000174373	ENST00000557104	retained_intron	KNOWN	None	17770	None	None	36217606	36219735	-1	GARNL1	GRIPE, DKFZp667F074, KIAA0884, Tulip1, RalGAPalpha1
14	RALGAPA1	ENSG00000174373	ENST00000555828	processed_transcript	KNOWN	None	17770	None	None	36217998	36226090	-1	GARNL1	GRIPE, DKFZp667F074, KIAA0884, Tulip1, RalGAPalpha1
14	RALGAPA1	ENSG00000174373	ENST00000556192	processed_transcript	KNOWN	None	17770	None	None	36277011	36278322	-1	GARNL1	GRIPE, DKFZp667F074, KIAA0884, Tulip1, RalGAPalpha1
14	RALGAPA1	ENSG00000174373	ENST00000258840	protein_coding	KNOWN	None	17770	6252	2083	36007559	36278432	-1	GARNL1	GRIPE, DKFZp667F074, KIAA0884, Tulip1, RalGAPalpha1
5	RN7SKP79	ENSG00000200243	ENST00000363373	misc_RNA	KNOWN	None	45803	None	None	6848240	6848575	-1	None	None
4	None	ENSG00000265627	ENST00000580172	miRNA	NOVEL	None	None	None	None	26639012	26639112	-1	None	None
4	None	ENSG00000200999	ENST00000364129	snoRNA	NOVEL	None	None	None	None	26703931	26704010	1	None	None
12	MUCL1	ENSG00000172551	ENST00000547990	processed_transcript	KNOWN	None	30588	None	None	55224303	55252044	1	None	SBEM
12	MUCL1	ENSG00000172551	ENST00000546809	protein_coding	PUTATIVE	None	30588	258	85	55233153	55252171	1	None	SBEM
12	MUCL1	ENSG00000172551	ENST00000547958	retained_intron	KNOWN	None	30588	None	None	55248300	55249264	1	None	SBEM
12	MUCL1	ENSG00000172551	ENST00000308796	protein_coding	KNOWN	CCDS8885	30588	273	90	55248321	55252177	1	None	SBEM
7	None	ENSG00000260070	ENST00000561845	antisense	KNOWN	None	None	None	None	36359384	36360088	1	None	None
1	NFASC	ENSG00000163531	ENST00000404977	processed_transcript	KNOWN	None	29866	None	None	204797779	204980052	1	None	NRCAML, KIAA0756, FLJ46866, NF
1	NFASC	ENSG00000163531	ENST00000446412	protein_coding	KNOWN	None	29866	908	301	204797804	204938015	1	None	NRCAML, KIAA0756, FLJ46866, NF
1	NFASC	ENSG00000163531	ENST00000403080	protein_coding	KNOWN	CCDS53461	29866	1860	619	204797823	204946267	1	None	NRCAML, KIAA0756, FLJ46866, NF
1	NFASC	ENSG00000163531	ENST00000493914	processed_transcript	KNOWN	None	29866	None	None	204839732	204914160	1	None	NRCAML, KIAA0756, FLJ46866, NF
1	NFASC	ENSG00000163531	ENST00000404076	protein_coding	NOVEL	None	29866	3474	1157	204839959	204987499	1	None	NRCAML, KIAA0756, FLJ46866, NF
1	NFASC	ENSG00000163531	ENST00000514644	retained_intron	KNOWN	None	29866	None	None	204839990	204943811	1	None	NRCAML, KIAA0756, FLJ46866, NF
1	NFASC	ENSG00000163531	ENST00000401399	protein_coding	KNOWN	CCDS53460	29866	3723	1240	204889760	204991950	1	None	NRCAML, KIAA0756, FLJ46866, NF
1	NFASC	ENSG00000163531	ENST00000505079	protein_coding	KNOWN	None	29866	389	128	204898537	204923489	1	None	NRCAML, KIAA0756, FLJ46866, NF
1	NFASC	ENSG00000163531	ENST00000404907	protein_coding	KNOWN	CCDS53462	29866	3525	1174	204913354	204987499	1	None	NRCAML, KIAA0756, FLJ46866, NF
1	NFASC	ENSG00000163531	ENST00000513543	protein_coding	KNOWN	CCDS30982	29866	3510	1169	204913379	204986066	1	None	NRCAML, KIAA0756, FLJ46866, NF
1	NFASC	ENSG00000163531	ENST00000504476	nonsense_mediated_decay	KNOWN	None	29866	1461	486	204913379	204986066	1	None	NRCAML, KIAA0756, FLJ46866, NF
1	NFASC	ENSG00000163531	ENST00000430393	protein_coding	KNOWN	None	29866	3498	1165	204913516	204987499	1	None	NRCAML, KIAA0756, FLJ46866, NF
1	NFASC	ENSG00000163531	ENST00000367173	protein_coding	NOVEL	None	29866	3125	1040	204919685	204987499	1	None	NRCAML, KIAA0756, FLJ46866, NF
1	NFASC	ENSG00000163531	ENST00000504149	processed_transcript	PUTATIVE	None	29866	None	None	204926786	204937953	1	None	NRCAML, KIAA0756, FLJ46866, NF
1	NFASC	ENSG00000163531	ENST00000512826	retained_intron	KNOWN	None	29866	None	None	204926823	204959691	1	None	NRCAML, KIAA0756, FLJ46866, NF
1	NFASC	ENSG00000163531	ENST00000471392	processed_transcript	KNOWN	None	29866	None	None	204948516	204953457	1	None	NRCAML, KIAA0756, FLJ46866, NF
1	NFASC	ENSG00000163531	ENST00000425360	protein_coding	NOVEL	None	29866	896	297	204950984	204987499	1	None	NRCAML, KIAA0756, FLJ46866, NF
1	NFASC	ENSG00000163531	ENST00000468328	processed_transcript	KNOWN	None	29866	None	None	204951012	204957934	1	None	NRCAML, KIAA0756, FLJ46866, NF
1	NFASC	ENSG00000163531	ENST00000495396	processed_transcript	KNOWN	None	29866	None	None	204955803	204991950	1	None	NRCAML, KIAA0756, FLJ46866, NF
1	NFASC	ENSG00000163531	ENST00000492085	processed_transcript	KNOWN	None	29866	None	None	204956598	204969974	1	None	NRCAML, KIAA0756, FLJ46866, NF
1	NFASC	ENSG00000163531	ENST00000413225	protein_coding	NOVEL	None	29866	709	235	204957792	204985514	1	None	NRCAML, KIAA0756, FLJ46866, NF
1	NFASC	ENSG00000163531	ENST00000447819	protein_coding	NOVEL	None	29866	657	218	204966312	204987867	1	None	NRCAML, KIAA0756, FLJ46866, NF
1	NFASC	ENSG00000163531	ENST00000503221	retained_intron	KNOWN	None	29866	None	None	204977573	204990159	1	None	NRCAML, KIAA0756, FLJ46866, NF
1	NFASC	ENSG00000163531	ENST00000367172	protein_coding	KNOWN	None	29866	4044	1347	204797782	204991949	1	None	NRCAML, KIAA0756, FLJ46866, NF
1	NFASC	ENSG00000163531	ENST00000367171	protein_coding	KNOWN	None	29866	3999	1332	204797782	204991949	1	None	NRCAML, KIAA0756, FLJ46866, NF
1	NFASC	ENSG00000163531	ENST00000367170	protein_coding	KNOWN	None	29866	3807	1268	204797782	204991949	1	None	NRCAML, KIAA0756, FLJ46866, NF
1	NFASC	ENSG00000163531	ENST00000338515	protein_coding	KNOWN	None	29866	3774	1257	204797782	204991949	1	None	NRCAML, KIAA0756, FLJ46866, NF
1	NFASC	ENSG00000163531	ENST00000339876	protein_coding	KNOWN	CCDS53460	29866	3723	1240	204797782	204991949	1	None	NRCAML, KIAA0756, FLJ46866, NF
1	NFASC	ENSG00000163531	ENST00000338586	protein_coding	KNOWN	None	29866	3675	1224	204797782	204991949	1	None	NRCAML, KIAA0756, FLJ46866, NF
1	NFASC	ENSG00000163531	ENST00000539706	protein_coding	KNOWN	CCDS53462	29866	3525	1174	204797782	204991949	1	None	NRCAML, KIAA0756, FLJ46866, NF
1	NFASC	ENSG00000163531	ENST00000360049	protein_coding	KNOWN	CCDS30982	29866	3510	1169	204797782	204991949	1	None	NRCAML, KIAA0756, FLJ46866, NF
1	NFASC	ENSG00000163531	ENST00000367169	protein_coding	KNOWN	None	29866	3216	1071	204797782	204991949	1	None	NRCAML, KIAA0756, FLJ46866, NF
11	DEFB108B	ENSG00000184276	ENST00000328698	protein_coding	KNOWN	CCDS31631	29966	222	73	71544246	71548608	1	None	None
11	DEFB108B	ENSG00000184276	ENST00000529157	processed_transcript	PUTATIVE	None	29966	None	None	71545758	71548756	1	None	None
19	RPS16	ENSG00000105193	ENST00000599539	protein_coding	PUTATIVE	None	10396	303	100	39923847	39926555	-1	None	S16
19	RPS16	ENSG00000105193	ENST00000339471	protein_coding	NOVEL	None	10396	459	152	39923847	39926576	-1	None	S16
19	RPS16	ENSG00000105193	ENST00000251453	protein_coding	KNOWN	CCDS12535	10396	441	146	39923847	39926588	-1	None	S16
19	RPS16	ENSG00000105193	ENST00000601655	protein_coding	NOVEL	None	10396	390	129	39923857	39926581	-1	None	S16
19	RPS16	ENSG00000105193	ENST00000602153	protein_coding	PUTATIVE	None	10396	153	50	39923863	39924401	-1	None	S16
19	RPS16	ENSG00000105193	ENST00000601390	retained_intron	KNOWN	None	10396	None	None	39923863	39926588	-1	None	S16
19	RPS16	ENSG00000105193	ENST00000595386	retained_intron	KNOWN	None	10396	None	None	39923893	39925030	-1	None	S16
19	RPS16	ENSG00000105193	ENST00000599705	protein_coding	PUTATIVE	None	10396	258	85	39923900	39926345	-1	None	S16
4	NKX6-1	ENSG00000163623	ENST00000515820	protein_coding	PUTATIVE	None	7839	282	93	85413140	85418103	-1	NKX6A	Nkx6.1
4	NKX6-1	ENSG00000163623	ENST00000295886	protein_coding	KNOWN	CCDS3607	7839	1104	367	85413140	85419603	-1	NKX6A	Nkx6.1
1	EXO5	ENSG00000164002	ENST00000358527	protein_coding	KNOWN	CCDS453	26115	1122	373	40974413	40981708	1	C1orf176, DEM1	FLJ21144
1	EXO5	ENSG00000164002	ENST00000372703	protein_coding	KNOWN	CCDS453	26115	1122	373	40974419	40981709	1	C1orf176, DEM1	FLJ21144
1	EXO5	ENSG00000164002	ENST00000420209	protein_coding	KNOWN	None	26115	678	225	40974426	40980894	1	C1orf176, DEM1	FLJ21144
1	EXO5	ENSG00000164002	ENST00000296380	protein_coding	KNOWN	CCDS453	26115	1122	373	40974433	40982228	1	C1orf176, DEM1	FLJ21144
1	EXO5	ENSG00000164002	ENST00000432259	protein_coding	KNOWN	None	26115	302	99	40974439	40980518	1	C1orf176, DEM1	FLJ21144
1	EXO5	ENSG00000164002	ENST00000418186	protein_coding	KNOWN	None	26115	672	223	40974447	40980888	1	C1orf176, DEM1	FLJ21144
1	EXO5	ENSG00000164002	ENST00000415550	protein_coding	KNOWN	None	26115	483	160	40974462	40980699	1	C1orf176, DEM1	FLJ21144
1	EXO5	ENSG00000164002	ENST00000443729	protein_coding	KNOWN	None	26115	742	246	40974470	40980958	1	C1orf176, DEM1	FLJ21144
1	EXO5	ENSG00000164002	ENST00000419161	protein_coding	KNOWN	None	26115	742	246	40974478	40980958	1	C1orf176, DEM1	FLJ21144
1	EXO5	ENSG00000164002	ENST00000471429	processed_transcript	KNOWN	None	26115	None	None	40974757	40980295	1	C1orf176, DEM1	FLJ21144
5	None	ENSG00000250060	ENST00000510622	lincRNA	KNOWN	None	None	None	None	6868672	6886900	1	None	None
5	None	ENSG00000250974	ENST00000512838	lincRNA	KNOWN	None	None	None	None	6933783	7190925	1	None	None
16	NPIPB6	ENSG00000198156	ENST00000533640	protein_coding	NOVEL	None	37454	1224	407	28353876	28367975	-1	None	None
16	NPIPB6	ENSG00000198156	ENST00000532254	protein_coding	NOVEL	None	37454	1278	425	28353876	28374829	-1	None	None
5	RNA5SP176	ENSG00000212258	ENST00000390956	rRNA	KNOWN	None	43076	None	None	7047340	7047449	1	RN5S176	None
5	None	ENSG00000248775	ENST00000504093	processed_pseudogene	KNOWN	None	None	None	None	7288037	7288590	-1	None	None
13	CHAMP1	ENSG00000198824	ENST00000361283	protein_coding	KNOWN	CCDS9545	20311	2439	812	115079988	115092796	1	C13orf8, ZNF828	CAMP, CHAMP
13	CHAMP1	ENSG00000198824	ENST00000463003	protein_coding	KNOWN	None	20311	437	144	115086601	115089754	1	C13orf8, ZNF828	CAMP, CHAMP
13	CHAMP1	ENSG00000198824	ENST00000478022	processed_transcript	KNOWN	None	20311	None	None	115086616	115087916	1	C13orf8, ZNF828	CAMP, CHAMP
5	None	ENSG00000247732	ENST00000500762	unprocessed_pseudogene	KNOWN	None	None	None	None	7290936	7296458	1	None	None
4	None	ENSG00000240005	ENST00000489096	antisense	KNOWN	None	None	None	None	26861428	26862203	-1	None	None
4	None	ENSG00000240005	ENST00000467484	antisense	KNOWN	None	None	None	None	26861428	26862221	-1	None	None
4	None	ENSG00000240005	ENST00000472346	antisense	KNOWN	None	None	None	None	26861431	26861866	-1	None	None
7	None	ENSG00000201432	ENST00000364562	misc_RNA	NOVEL	None	None	None	None	36377276	36377387	-1	None	None
5	None	ENSG00000205976	ENST00000512854	unprocessed_pseudogene	KNOWN	None	None	None	None	7299887	7306705	-1	None	None
4	None	ENSG00000248340	ENST00000511723	processed_pseudogene	KNOWN	None	None	None	None	26875183	26875971	-1	None	None
4	CDS1	ENSG00000163624	ENST00000295887	protein_coding	KNOWN	CCDS3608	1800	1386	461	85504132	85572491	1	None	None
4	CDS1	ENSG00000163624	ENST00000511298	nonsense_mediated_decay	KNOWN	None	1800	246	81	85504422	85540664	1	None	None
13	ZNF962P	ENSG00000215604	ENST00000443465	unprocessed_pseudogene	KNOWN	None	39250	None	None	19041312	19059588	-1	None	None
2	None	ENSG00000268821	ENST00000598148	protein_coding	NOVEL	None	None	66	21	172560844	172567314	-1	None	None
7	None	ENSG00000237400	ENST00000435254	antisense	KNOWN	None	None	None	None	36502632	36544121	1	None	None
13	None	ENSG00000270496	ENST00000605641	processed_pseudogene	KNOWN	None	None	None	None	19066044	19066559	1	None	None
20	CASS4	ENSG00000087589	ENST00000360314	protein_coding	KNOWN	CCDS33492	15878	2361	786	54987168	55033836	1	C20orf32	HEFL, HEPL
20	CASS4	ENSG00000087589	ENST00000434344	protein_coding	KNOWN	CCDS54475	15878	1050	349	54987317	55034395	1	C20orf32	HEFL, HEPL
20	CASS4	ENSG00000087589	ENST00000497244	retained_intron	KNOWN	None	15878	None	None	54987364	55028952	1	C20orf32	HEFL, HEPL
20	CASS4	ENSG00000087589	ENST00000371336	protein_coding	KNOWN	CCDS33492	15878	2361	786	54987314	55034396	1	C20orf32	HEFL, HEPL
13	LINC00349	ENSG00000231238	ENST00000448748	lincRNA	KNOWN	None	42667	None	None	19114637	19124837	1	None	None
13	LONRF2P2	ENSG00000233905	ENST00000439212	processed_pseudogene	KNOWN	None	39829	None	None	19183272	19183842	1	None	None
11	TMEM258	ENSG00000134825	ENST00000535042	processed_transcript	KNOWN	None	1164	None	None	61535973	61558075	-1	C11orf10	None
11	TMEM258	ENSG00000134825	ENST00000537328	protein_coding	KNOWN	CCDS8009	1164	240	79	61556435	61560082	-1	C11orf10	None
11	TMEM258	ENSG00000134825	ENST00000541893	nonsense_mediated_decay	KNOWN	None	1164	150	49	61556602	61560052	-1	C11orf10	None
11	TMEM258	ENSG00000134825	ENST00000545210	nonsense_mediated_decay	KNOWN	None	1164	150	49	61556602	61560066	-1	C11orf10	None
11	TMEM258	ENSG00000134825	ENST00000257262	nonsense_mediated_decay	KNOWN	CCDS8009	1164	240	79	61556602	61560073	-1	C11orf10	None
11	TMEM258	ENSG00000134825	ENST00000535297	nonsense_mediated_decay	KNOWN	None	1164	150	49	61556602	61560088	-1	C11orf10	None
11	TMEM258	ENSG00000134825	ENST00000543510	protein_coding	PUTATIVE	None	1164	225	74	61556603	61560274	-1	C11orf10	None
11	TMEM258	ENSG00000134825	ENST00000540434	retained_intron	KNOWN	None	1164	None	None	61557569	61560074	-1	C11orf10	None
13	LINC00388	ENSG00000229788	ENST00000412714	lincRNA	KNOWN	None	42716	None	None	19184438	19185815	-1	None	None
13	FEM1AP4	ENSG00000235876	ENST00000443167	processed_pseudogene	KNOWN	None	39832	None	None	19239375	19241361	1	None	None
10	ANKRD16	ENSG00000134461	ENST00000380094	protein_coding	KNOWN	CCDS31136	23471	1086	361	5903580	5931861	-1	None	DKFZP434N1511
10	ANKRD16	ENSG00000134461	ENST00000380092	protein_coding	KNOWN	CCDS31136	23471	1086	361	5920050	5931834	-1	None	DKFZP434N1511
10	ANKRD16	ENSG00000134461	ENST00000191063	protein_coding	KNOWN	CCDS31137	23471	915	304	5920085	5931869	-1	None	DKFZP434N1511
10	ANKRD16	ENSG00000134461	ENST00000492368	retained_intron	KNOWN	None	23471	None	None	5924666	5929933	-1	None	DKFZP434N1511
11	None	ENSG00000254469	ENST00000532852	protein_coding	PUTATIVE	None	None	426	141	71576555	71630003	-1	None	None
11	None	ENSG00000254469	ENST00000528511	protein_coding	PUTATIVE	None	None	622	206	71595359	71639641	-1	None	None
11	None	ENSG00000254469	ENST00000528560	protein_coding	PUTATIVE	None	None	304	100	71614706	71628284	-1	None	None
11	None	ENSG00000254469	ENST00000529844	protein_coding	NOVEL	None	None	429	142	71627641	71639700	-1	None	None
11	None	ENSG00000254469	ENST00000529513	protein_coding	PUTATIVE	None	None	405	134	71628237	71639483	-1	None	None
11	None	ENSG00000254469	ENST00000533047	protein_coding	NOVEL	None	None	266	87	71628744	71639670	-1	None	None
11	None	ENSG00000254469	ENST00000534704	protein_coding	NOVEL	None	None	247	81	71628763	71639449	-1	None	None
11	None	ENSG00000254469	ENST00000528184	protein_coding	NOVEL	None	None	148	48	71629970	71639640	-1	None	None
11	None	ENSG00000254469	ENST00000531488	processed_transcript	PUTATIVE	None	None	None	None	71638624	71639493	-1	None	None
1	ZNF684	ENSG00000117010	ENST00000372699	protein_coding	KNOWN	CCDS454	28418	1137	378	40997233	41013841	1	None	MGC27466
1	ZNF684	ENSG00000117010	ENST00000465152	processed_transcript	KNOWN	None	28418	None	None	40997325	41012437	1	None	MGC27466
1	ZNF684	ENSG00000117010	ENST00000372697	protein_coding	KNOWN	None	28418	360	119	40997335	41010709	1	None	MGC27466
1	ZNF684	ENSG00000117010	ENST00000372696	protein_coding	KNOWN	None	28418	279	92	40997335	41010709	1	None	MGC27466
1	ZNF684	ENSG00000117010	ENST00000493756	processed_transcript	KNOWN	None	28418	None	None	40997394	41013457	1	None	MGC27466
1	ZNF684	ENSG00000117010	ENST00000472043	processed_transcript	KNOWN	None	28418	None	None	41006986	41012380	1	None	MGC27466
13	LINC00387	ENSG00000231914	ENST00000422609	lincRNA	KNOWN	None	42715	None	None	19246967	19250303	1	None	None
13	TERF1P5	ENSG00000226361	ENST00000477545	processed_pseudogene	KNOWN	None	39686	None	None	19254634	19255840	1	None	None
13	TERF1P5	ENSG00000226361	ENST00000342224	processed_pseudogene	KNOWN	None	39686	None	None	19254635	19255846	1	None	None
1	NBPF11	ENSG00000152042	ENST00000604938	protein_coding	KNOWN	None	31993	2598	865	146032647	146082765	-1	None	None
1	NBPF11	ENSG00000152042	ENST00000604393	retained_intron	KNOWN	None	31993	None	None	146032648	146040412	-1	None	None
1	NBPF11	ENSG00000152042	ENST00000603515	nonsense_mediated_decay	KNOWN	None	31993	1626	541	146032769	146082431	-1	None	None
1	NBPF11	ENSG00000152042	ENST00000604517	nonsense_mediated_decay	KNOWN	None	31993	900	299	146034139	146057622	-1	None	None
1	NBPF11	ENSG00000152042	ENST00000604906	nonsense_mediated_decay	KNOWN	None	31993	900	299	146034139	146057622	-1	None	None
1	NBPF11	ENSG00000152042	ENST00000605317	protein_coding	NOVEL	None	31993	2760	919	146034239	146082633	-1	None	None
1	NBPF11	ENSG00000152042	ENST00000479926	protein_coding	NOVEL	None	31993	2085	694	146035071	146068245	-1	None	None
1	NBPF11	ENSG00000152042	ENST00000604894	protein_coding	NOVEL	None	31993	1497	498	146035102	146068184	-1	None	None
1	NBPF11	ENSG00000152042	ENST00000401010	protein_coding	KNOWN	None	31993	1101	366	146032648	146040968	-1	None	None
1	NBPF11	ENSG00000152042	ENST00000339388	protein_coding	KNOWN	None	31993	2517	838	146032648	146082765	-1	None	None
1	NBPF11	ENSG00000152042	ENST00000369323	protein_coding	KNOWN	None	31993	2373	790	146034019	146068245	-1	None	None
1	NBPF11	ENSG00000152042	ENST00000401009	protein_coding	KNOWN	None	31993	255	84	146041003	146054494	-1	None	None
12	C1R	ENSG00000159403	ENST00000602480	protein_coding	NOVEL	None	1246	845	280	7187513	7189410	-1	None	None
12	C1R	ENSG00000159403	ENST00000602286	protein_coding	NOVEL	None	1246	845	280	7187725	7189410	-1	None	None
12	C1R	ENSG00000159403	ENST00000602298	processed_transcript	KNOWN	None	1246	None	None	7239877	7240440	-1	None	None
12	C1R	ENSG00000159403	ENST00000536053	protein_coding	PUTATIVE	None	1246	1080	359	7241206	7244488	-1	None	None
12	C1R	ENSG00000159403	ENST00000540394	retained_intron	KNOWN	None	1246	None	None	7241206	7245037	-1	None	None
12	C1R	ENSG00000159403	ENST00000535233	protein_coding	NOVEL	None	1246	936	311	7241206	7245068	-1	None	None
12	C1R	ENSG00000159403	ENST00000542220	protein_coding	KNOWN	None	1246	1038	345	7241206	7245203	-1	None	None
12	C1R	ENSG00000159403	ENST00000543362	nonsense_mediated_decay	KNOWN	None	1246	435	144	7241954	7245026	-1	None	None
12	C1R	ENSG00000159403	ENST00000540610	protein_coding	PUTATIVE	None	1246	281	92	7242061	7245136	-1	None	None
12	C1R	ENSG00000159403	ENST00000543835	protein_coding	NOVEL	None	1246	468	155	7242211	7245037	-1	None	None
12	C1R	ENSG00000159403	ENST00000541042	protein_coding	PUTATIVE	None	1246	215	70	7242224	7245089	-1	None	None
12	C1R	ENSG00000159403	ENST00000543851	retained_intron	KNOWN	None	1246	None	None	7242244	7242954	-1	None	None
12	C1R	ENSG00000159403	ENST00000540242	protein_coding	NOVEL	None	1246	470	155	7242251	7245089	-1	None	None
12	C1R	ENSG00000159403	ENST00000538050	protein_coding	PUTATIVE	None	1246	147	48	7242292	7244487	-1	None	None
12	C1R	ENSG00000159403	ENST00000545466	retained_intron	KNOWN	None	1246	None	None	7242532	7245037	-1	None	None
12	C1R	ENSG00000159403	ENST00000536092	retained_intron	KNOWN	None	1246	None	None	7243752	7245089	-1	None	None
12	C1R	ENSG00000159403	ENST00000542285	protein_coding	KNOWN	None	1246	1962	653	7187836	7245131	-1	None	None
13	FAM207BP	ENSG00000228797	ENST00000447172	processed_pseudogene	KNOWN	None	39715	None	None	19271143	19271647	1	None	None
10	CC2D2B	ENSG00000188649	ENST00000424464	protein_coding	PUTATIVE	None	31666	586	194	97759848	97773629	1	C10orf130	bA248J23.4
10	CC2D2B	ENSG00000188649	ENST00000410012	protein_coding	KNOWN	CCDS53560	31666	1206	401	97759869	97792140	1	C10orf130	bA248J23.4
10	CC2D2B	ENSG00000188649	ENST00000344386	protein_coding	KNOWN	CCDS41555	31666	969	322	97759883	97792441	1	C10orf130	bA248J23.4
10	CC2D2B	ENSG00000188649	ENST00000371198	protein_coding	KNOWN	None	31666	417	138	97733786	97792432	1	C10orf130	bA248J23.4
13	None	ENSG00000236169	ENST00000444605	lincRNA	KNOWN	None	None	None	None	19292907	19293869	-1	None	None
7	AOAH-IT1	ENSG00000230539	ENST00000449672	sense_intronic	KNOWN	None	41307	None	None	36637440	36639726	-1	None	None
13	GXYLT1P1	ENSG00000230931	ENST00000446657	processed_pseudogene	KNOWN	None	39676	None	None	19298555	19299044	-1	None	None
13	CNN2P12	ENSG00000204718	ENST00000330492	processed_pseudogene	KNOWN	None	39834	None	None	19300846	19301554	1	None	None
X	SLC25A6	ENSG00000169100	ENST00000381401	protein_coding	KNOWN	CCDS14114	10992	897	298	1505045	1511617	-1	ANT3	ANT3Y, MGC17525
X	SLC25A6	ENSG00000169100	ENST00000475167	processed_transcript	KNOWN	None	10992	None	None	1506204	1510996	-1	ANT3	ANT3Y, MGC17525
X	SLC25A6	ENSG00000169100	ENST00000484026	processed_transcript	KNOWN	None	10992	None	None	1506238	1510981	-1	ANT3	ANT3Y, MGC17525
11	FEN1	ENSG00000168496	ENST00000305885	protein_coding	KNOWN	CCDS8010	3650	1143	380	61560109	61564716	1	RAD2	FEN-1, MF1
11	FEN1	ENSG00000168496	ENST00000535723	protein_coding	KNOWN	None	3650	495	164	61560423	61563328	1	RAD2	FEN-1, MF1
11	FEN1	ENSG00000168496	ENST00000535307	protein_coding	PUTATIVE	None	3650	463	153	61563412	61564704	1	RAD2	FEN-1, MF1
16	EIF3CL	ENSG00000205609	ENST00000380876	protein_coding	KNOWN	CCDS42136	26347	2745	914	28390902	28415200	-1	None	None
16	EIF3CL	ENSG00000205609	ENST00000398944	protein_coding	KNOWN	CCDS42136	26347	2745	914	28390900	28415162	-1	None	None
16	EIF3CL	ENSG00000205609	ENST00000398943	protein_coding	KNOWN	CCDS42136	26347	2745	914	28390905	28415165	-1	None	None
22	SEPT5	ENSG00000184702	ENST00000455784	protein_coding	KNOWN	CCDS13764	9164	1110	369	19701987	19710842	1	PNUTL1	HCDCREL-1, H5
22	SEPT5	ENSG00000184702	ENST00000406395	protein_coding	PUTATIVE	None	9164	1014	337	19702027	19710797	1	PNUTL1	HCDCREL-1, H5
22	SEPT5	ENSG00000184702	ENST00000406172	nonsense_mediated_decay	KNOWN	None	9164	747	248	19702052	19710842	1	PNUTL1	HCDCREL-1, H5
22	SEPT5	ENSG00000184702	ENST00000412544	protein_coding	PUTATIVE	None	9164	904	300	19702198	19709854	1	PNUTL1	HCDCREL-1, H5
22	SEPT5	ENSG00000184702	ENST00000455843	nonsense_mediated_decay	KNOWN	None	9164	1137	378	19704743	19711739	1	PNUTL1	HCDCREL-1, H5
22	SEPT5	ENSG00000184702	ENST00000431124	protein_coding	PUTATIVE	None	9164	912	303	19704793	19709243	1	PNUTL1	HCDCREL-1, H5
22	SEPT5	ENSG00000184702	ENST00000490204	processed_transcript	PUTATIVE	None	9164	None	None	19705682	19706578	1	PNUTL1	HCDCREL-1, H5
22	SEPT5	ENSG00000184702	ENST00000383045	protein_coding	KNOWN	None	9164	1137	378	19705955	19710152	1	PNUTL1	HCDCREL-1, H5
22	SEPT5	ENSG00000184702	ENST00000438754	protein_coding	PUTATIVE	CCDS56224	9164	1041	346	19705981	19710842	1	PNUTL1	HCDCREL-1, H5
22	SEPT5	ENSG00000184702	ENST00000431044	nonsense_mediated_decay	KNOWN	None	9164	969	322	19705992	19712295	1	PNUTL1	HCDCREL-1, H5
22	SEPT5	ENSG00000184702	ENST00000395109	protein_coding	PUTATIVE	None	9164	540	179	19706958	19708356	1	PNUTL1	HCDCREL-1, H5
22	SEPT5	ENSG00000184702	ENST00000477238	retained_intron	KNOWN	None	9164	None	None	19707053	19707736	1	PNUTL1	HCDCREL-1, H5
22	SEPT5	ENSG00000184702	ENST00000413258	protein_coding	NOVEL	None	9164	318	105	19707711	19708397	1	PNUTL1	HCDCREL-1, H5
22	SEPT5	ENSG00000184702	ENST00000480423	retained_intron	KNOWN	None	9164	None	None	19707865	19709392	1	PNUTL1	HCDCREL-1, H5
22	SEPT5	ENSG00000184702	ENST00000470814	retained_intron	KNOWN	None	9164	None	None	19708077	19711747	1	PNUTL1	HCDCREL-1, H5
1	RIMS3	ENSG00000117016	ENST00000372684	protein_coding	KNOWN	CCDS30687	21292	927	308	41086351	41131329	-1	None	RIM3, NIM3
1	RIMS3	ENSG00000117016	ENST00000372683	protein_coding	KNOWN	CCDS30687	21292	927	308	41091886	41131117	-1	None	RIM3, NIM3
7	None	ENSG00000221561	ENST00000408634	miRNA	NOVEL	None	None	None	None	36681752	36681849	-1	None	None
2	VPS54	ENSG00000143952	ENST00000354504	protein_coding	PUTATIVE	None	18652	2475	824	64120035	64202736	-1	None	HCC8
2	VPS54	ENSG00000143952	ENST00000272322	protein_coding	KNOWN	CCDS33208	18652	2934	977	64120190	64246206	-1	None	HCC8
2	VPS54	ENSG00000143952	ENST00000409558	protein_coding	KNOWN	CCDS46302	18652	2898	965	64120190	64246206	-1	None	HCC8
2	VPS54	ENSG00000143952	ENST00000416400	nonsense_mediated_decay	KNOWN	None	18652	420	139	64120206	64147064	-1	None	HCC8
2	SLC25A12	ENSG00000115840	ENST00000422440	protein_coding	KNOWN	CCDS33327	10982	2037	678	172640880	172750762	-1	None	Aralar
2	SLC25A12	ENSG00000115840	ENST00000263812	nonsense_mediated_decay	KNOWN	None	10982	264	87	172641285	172750733	-1	None	Aralar
2	SLC25A12	ENSG00000115840	ENST00000472070	retained_intron	KNOWN	None	10982	None	None	172641342	172645452	-1	None	Aralar
2	SLC25A12	ENSG00000115840	ENST00000494892	processed_transcript	PUTATIVE	None	10982	None	None	172665935	172666790	-1	None	Aralar
2	SLC25A12	ENSG00000115840	ENST00000485880	retained_intron	KNOWN	None	10982	None	None	172671619	172690845	-1	None	Aralar
2	SLC25A12	ENSG00000115840	ENST00000426896	nonsense_mediated_decay	KNOWN	None	10982	633	210	172690541	172750754	-1	None	Aralar
2	SLC25A12	ENSG00000115840	ENST00000475360	nonsense_mediated_decay	KNOWN	None	10982	528	175	172693659	172749768	-1	None	Aralar
2	SLC25A12	ENSG00000115840	ENST00000472748	processed_transcript	KNOWN	None	10982	None	None	172700879	172864762	-1	None	Aralar
2	SLC25A12	ENSG00000115840	ENST00000484227	processed_transcript	KNOWN	None	10982	None	None	172712311	172864699	-1	None	Aralar
2	SLC25A12	ENSG00000115840	ENST00000464063	processed_transcript	KNOWN	None	10982	None	None	172712437	172864766	-1	None	Aralar
2	SLC25A12	ENSG00000115840	ENST00000392592	protein_coding	KNOWN	None	10982	1716	571	172641285	172750733	-1	None	Aralar
12	TESPA1	ENSG00000135426	ENST00000524622	protein_coding	PUTATIVE	CCDS58240	29109	1152	383	55341802	55367714	-1	KIAA0748	None
12	TESPA1	ENSG00000135426	ENST00000524923	nonsense_mediated_decay	KNOWN	None	29109	204	67	55343735	55367367	-1	KIAA0748	None
12	TESPA1	ENSG00000135426	ENST00000528240	protein_coding	PUTATIVE	None	29109	450	149	55343862	55356481	-1	KIAA0748	None
12	TESPA1	ENSG00000135426	ENST00000532804	protein_coding	PUTATIVE	CCDS58240	29109	1152	383	55343864	55367467	-1	KIAA0748	None
12	TESPA1	ENSG00000135426	ENST00000449076	protein_coding	KNOWN	CCDS44913	29109	1566	521	55343865	55378456	-1	KIAA0748	None
12	TESPA1	ENSG00000135426	ENST00000316577	protein_coding	KNOWN	CCDS44913	29109	1566	521	55343954	55375622	-1	KIAA0748	None
12	TESPA1	ENSG00000135426	ENST00000532757	protein_coding	PUTATIVE	None	29109	302	99	55344114	55367342	-1	KIAA0748	None
12	TESPA1	ENSG00000135426	ENST00000531122	protein_coding	PUTATIVE	CCDS58240	29109	1152	383	55344138	55367470	-1	KIAA0748	None
12	TESPA1	ENSG00000135426	ENST00000524959	processed_transcript	KNOWN	None	29109	None	None	55356927	55367386	-1	KIAA0748	None
12	TESPA1	ENSG00000135426	ENST00000526532	protein_coding	PUTATIVE	None	29109	242	79	55357525	55367338	-1	KIAA0748	None
12	TESPA1	ENSG00000135426	ENST00000533446	protein_coding	PUTATIVE	None	29109	182	59	55357585	55367507	-1	KIAA0748	None
12	TESPA1	ENSG00000135426	ENST00000525978	nonsense_mediated_decay	KNOWN	None	29109	242	79	55357643	55368342	-1	KIAA0748	None
12	TESPA1	ENSG00000135426	ENST00000524668	protein_coding	KNOWN	None	29109	246	81	55361637	55378515	-1	KIAA0748	None
12	TESPA1	ENSG00000135426	ENST00000533607	protein_coding	KNOWN	None	29109	143	46	55368204	55378530	-1	KIAA0748	None
17	GRB7	ENSG00000141738	ENST00000577695	protein_coding	PUTATIVE	None	4567	355	117	37894180	37899175	1	None	None
17	GRB7	ENSG00000141738	ENST00000309156	protein_coding	KNOWN	CCDS11345	4567	1599	532	37894180	37903537	1	None	None
17	GRB7	ENSG00000141738	ENST00000485182	retained_intron	KNOWN	None	4567	None	None	37894202	37899307	1	None	None
17	GRB7	ENSG00000141738	ENST00000583813	nonsense_mediated_decay	KNOWN	None	4567	159	52	37894215	37899534	1	None	None
17	GRB7	ENSG00000141738	ENST00000584853	processed_transcript	KNOWN	None	4567	None	None	37894227	37895235	1	None	None
17	GRB7	ENSG00000141738	ENST00000584819	retained_intron	KNOWN	None	4567	None	None	37894559	37900857	1	None	None
17	GRB7	ENSG00000141738	ENST00000394211	protein_coding	KNOWN	CCDS11345	4567	1599	532	37894590	37903538	1	None	None
17	GRB7	ENSG00000141738	ENST00000578702	processed_transcript	KNOWN	None	4567	None	None	37894606	37900356	1	None	None
17	GRB7	ENSG00000141738	ENST00000445327	protein_coding	KNOWN	CCDS56028	4567	1668	555	37895024	37903544	1	None	None
17	GRB7	ENSG00000141738	ENST00000394209	protein_coding	KNOWN	CCDS11345	4567	1599	532	37896220	37903241	1	None	None
17	GRB7	ENSG00000141738	ENST00000584053	retained_intron	KNOWN	None	4567	None	None	37896385	37899147	1	None	None
17	GRB7	ENSG00000141738	ENST00000394204	protein_coding	PUTATIVE	None	4567	1344	447	37898505	37903256	1	None	None
17	GRB7	ENSG00000141738	ENST00000461756	retained_intron	KNOWN	None	4567	None	None	37899187	37899865	1	None	None
17	GRB7	ENSG00000141738	ENST00000473071	retained_intron	KNOWN	None	4567	None	None	37899525	37900681	1	None	None
17	GRB7	ENSG00000141738	ENST00000309185	protein_coding	KNOWN	None	4567	1344	447	37894187	37903535	1	None	None
4	None	ENSG00000251080	ENST00000506878	lincRNA	KNOWN	None	None	None	None	27135618	27141673	-1	None	None
4	None	ENSG00000205830	ENST00000382007	lincRNA	KNOWN	None	None	None	None	27209127	27220026	-1	None	None
4	None	ENSG00000249699	ENST00000512873	lincRNA	KNOWN	None	None	None	None	27219101	27283847	1	None	None
4	None	ENSG00000222206	ENST00000410274	misc_RNA	NOVEL	None	None	None	None	27224941	27225049	-1	None	None
4	None	ENSG00000251325	ENST00000513616	lincRNA	KNOWN	None	None	None	None	27264128	27268876	-1	None	None
4	IGBP1P5	ENSG00000250858	ENST00000507524	processed_pseudogene	KNOWN	None	43614	None	None	27586767	27587766	1	None	None
16	PRSS8	ENSG00000052344	ENST00000317508	protein_coding	KNOWN	CCDS45469	9491	1032	343	31142756	31147083	-1	None	None
16	PRSS8	ENSG00000052344	ENST00000568261	protein_coding	NOVEL	None	9491	870	289	31143215	31147048	-1	None	None
16	PRSS8	ENSG00000052344	ENST00000567531	protein_coding	NOVEL	None	9491	587	194	31143760	31146961	-1	None	None
16	PRSS8	ENSG00000052344	ENST00000567797	protein_coding	NOVEL	None	9491	323	106	31144200	31147048	-1	None	None
16	PRSS8	ENSG00000052344	ENST00000564025	retained_intron	KNOWN	None	9491	None	None	31144521	31147048	-1	None	None
16	PRSS8	ENSG00000052344	ENST00000567833	retained_intron	KNOWN	None	9491	None	None	31145363	31147024	-1	None	None
4	None	ENSG00000251410	ENST00000509666	lincRNA	KNOWN	None	None	None	None	27969345	27986685	-1	None	None
7	NCAPG2	ENSG00000146918	ENST00000432615	nonsense_mediated_decay	KNOWN	None	21904	1170	389	158424003	158496395	-1	LUZP5	FLJ20311, MTB, CAP-G2, hCAP-G2
7	NCAPG2	ENSG00000146918	ENST00000356309	protein_coding	KNOWN	CCDS43686	21904	3432	1143	158424005	158497520	-1	LUZP5	FLJ20311, MTB, CAP-G2, hCAP-G2
7	NCAPG2	ENSG00000146918	ENST00000409423	protein_coding	KNOWN	CCDS43686	21904	3432	1143	158424006	158497495	-1	LUZP5	FLJ20311, MTB, CAP-G2, hCAP-G2
7	NCAPG2	ENSG00000146918	ENST00000441982	protein_coding	KNOWN	None	21904	2696	897	158424128	158482587	-1	LUZP5	FLJ20311, MTB, CAP-G2, hCAP-G2
7	NCAPG2	ENSG00000146918	ENST00000467785	retained_intron	KNOWN	None	21904	None	None	158424358	158486031	-1	LUZP5	FLJ20311, MTB, CAP-G2, hCAP-G2
7	NCAPG2	ENSG00000146918	ENST00000409339	protein_coding	KNOWN	None	21904	3471	1156	158432488	158497489	-1	LUZP5	FLJ20311, MTB, CAP-G2, hCAP-G2
7	NCAPG2	ENSG00000146918	ENST00000474940	processed_transcript	KNOWN	None	21904	None	None	158449294	158458078	-1	LUZP5	FLJ20311, MTB, CAP-G2, hCAP-G2
7	NCAPG2	ENSG00000146918	ENST00000475918	processed_transcript	KNOWN	None	21904	None	None	158451030	158457924	-1	LUZP5	FLJ20311, MTB, CAP-G2, hCAP-G2
7	NCAPG2	ENSG00000146918	ENST00000491792	processed_transcript	KNOWN	None	21904	None	None	158454918	158459930	-1	LUZP5	FLJ20311, MTB, CAP-G2, hCAP-G2
7	NCAPG2	ENSG00000146918	ENST00000472591	processed_transcript	KNOWN	None	21904	None	None	158454932	158460887	-1	LUZP5	FLJ20311, MTB, CAP-G2, hCAP-G2
7	NCAPG2	ENSG00000146918	ENST00000479022	processed_transcript	KNOWN	None	21904	None	None	158486104	158489342	-1	LUZP5	FLJ20311, MTB, CAP-G2, hCAP-G2
7	NCAPG2	ENSG00000146918	ENST00000275830	protein_coding	KNOWN	None	21904	2667	888	158424130	158482587	-1	LUZP5	FLJ20311, MTB, CAP-G2, hCAP-G2
7	NCAPG2	ENSG00000146918	ENST00000541468	protein_coding	KNOWN	None	21904	1794	597	158424003	158459930	-1	LUZP5	FLJ20311, MTB, CAP-G2, hCAP-G2
7	NCAPG2	ENSG00000146918	ENST00000449727	protein_coding	KNOWN	None	21904	3471	1156	158434156	158497457	-1	LUZP5	FLJ20311, MTB, CAP-G2, hCAP-G2
15	FGF7	ENSG00000140285	ENST00000267843	protein_coding	KNOWN	CCDS10131	3685	585	194	49715293	49780972	1	None	KGF
15	FGF7	ENSG00000140285	ENST00000560270	protein_coding	PUTATIVE	None	3685	294	97	49715434	49717712	1	None	KGF
15	FGF7	ENSG00000140285	ENST00000560765	nonsense_mediated_decay	KNOWN	CCDS10131	3685	585	194	49715455	49776756	1	None	KGF
15	FGF7	ENSG00000140285	ENST00000560979	protein_coding	PUTATIVE	None	3685	367	121	49715457	49776657	1	None	KGF
15	FGF7	ENSG00000140285	ENST00000560704	processed_transcript	PUTATIVE	None	3685	None	None	49726593	49776717	1	None	KGF
4	None	ENSG00000250064	ENST00000509416	lincRNA	KNOWN	None	None	None	None	28437071	28601897	1	None	None
4	RN7SL101P	ENSG00000243548	ENST00000496350	misc_RNA	KNOWN	None	46117	None	None	28712820	28713094	1	None	None
4	MESTP3	ENSG00000250927	ENST00000503460	processed_pseudogene	KNOWN	None	38553	None	None	28824866	28825833	-1	None	None
4	None	ENSG00000250190	ENST00000514802	lincRNA	KNOWN	None	None	None	None	28998146	29016216	1	None	None
9	AQP7	ENSG00000165269	ENST00000447660	protein_coding	KNOWN	None	640	426	141	33384948	33386411	-1	AQP7L	AQP9, AQPap
9	AQP7	ENSG00000165269	ENST00000379507	protein_coding	KNOWN	None	640	1026	341	33384948	33395243	-1	AQP7L	AQP9, AQPap
9	AQP7	ENSG00000165269	ENST00000297988	protein_coding	KNOWN	CCDS6541	640	1029	342	33384948	33402517	-1	AQP7L	AQP9, AQPap
9	AQP7	ENSG00000165269	ENST00000439678	protein_coding	KNOWN	None	640	509	168	33385247	33395233	-1	AQP7L	AQP9, AQPap
9	AQP7	ENSG00000165269	ENST00000379506	protein_coding	KNOWN	None	640	771	256	33385342	33395233	-1	AQP7L	AQP9, AQPap
9	AQP7	ENSG00000165269	ENST00000379503	protein_coding	KNOWN	None	640	582	193	33385563	33391571	-1	AQP7L	AQP9, AQPap
9	AQP7	ENSG00000165269	ENST00000377425	protein_coding	KNOWN	None	640	651	216	33384949	33402506	-1	AQP7L	AQP9, AQPap
9	AQP7	ENSG00000165269	ENST00000541274	protein_coding	KNOWN	None	640	426	141	33385456	33402643	-1	AQP7L	AQP9, AQPap
9	AQP7	ENSG00000165269	ENST00000539936	protein_coding	KNOWN	None	640	774	257	33385359	33402584	-1	AQP7L	AQP9, AQPap
9	AQP7	ENSG00000165269	ENST00000537089	protein_coding	KNOWN	None	640	498	165	33384765	33402512	-1	AQP7L	AQP9, AQPap
4	None	ENSG00000249228	ENST00000514855	lincRNA	KNOWN	None	None	None	None	29048213	29050387	1	None	None
20	RTFDC1	ENSG00000022277	ENST00000023939	protein_coding	KNOWN	CCDS13453	15890	921	306	55043647	55093943	1	C20orf43	HSPC164, CDAO5
20	RTFDC1	ENSG00000022277	ENST00000395881	protein_coding	PUTATIVE	None	15890	693	230	55043670	55093943	1	C20orf43	HSPC164, CDAO5
20	RTFDC1	ENSG00000022277	ENST00000484084	processed_transcript	KNOWN	None	15890	None	None	55043714	55048416	1	C20orf43	HSPC164, CDAO5
20	RTFDC1	ENSG00000022277	ENST00000449062	protein_coding	PUTATIVE	None	15890	832	276	55043734	55092257	1	C20orf43	HSPC164, CDAO5
20	RTFDC1	ENSG00000022277	ENST00000487211	processed_transcript	KNOWN	None	15890	None	None	55043735	55049815	1	C20orf43	HSPC164, CDAO5
20	RTFDC1	ENSG00000022277	ENST00000466260	processed_transcript	KNOWN	None	15890	None	None	55043742	55052088	1	C20orf43	HSPC164, CDAO5
20	RTFDC1	ENSG00000022277	ENST00000477485	retained_intron	KNOWN	None	15890	None	None	55088447	55093301	1	C20orf43	HSPC164, CDAO5
20	RTFDC1	ENSG00000022277	ENST00000477573	retained_intron	KNOWN	None	15890	None	None	55090750	55093943	1	C20orf43	HSPC164, CDAO5
20	RTFDC1	ENSG00000022277	ENST00000357348	protein_coding	KNOWN	None	15890	1011	336	55043698	55093730	1	C20orf43	HSPC164, CDAO5
20	RTFDC1	ENSG00000022277	ENST00000435342	protein_coding	KNOWN	None	15890	129	42	55043734	55046003	1	C20orf43	HSPC164, CDAO5
21	None	ENSG00000267913	ENST00000598764	protein_coding	NOVEL	None	None	621	206	45587818	45593580	-1	None	None
14	DAAM1	ENSG00000100592	ENST00000556596	retained_intron	KNOWN	None	18142	None	None	59655364	59732879	1	None	KIAA0666
14	DAAM1	ENSG00000100592	ENST00000360909	protein_coding	KNOWN	CCDS58323	18142	3207	1068	59655398	59836471	1	None	KIAA0666
14	DAAM1	ENSG00000100592	ENST00000556135	protein_coding	PUTATIVE	None	18142	291	96	59655417	59758226	1	None	KIAA0666
14	DAAM1	ENSG00000100592	ENST00000395125	protein_coding	KNOWN	CCDS9737	18142	3237	1078	59730173	59838123	1	None	KIAA0666
14	DAAM1	ENSG00000100592	ENST00000557327	processed_transcript	PUTATIVE	None	18142	None	None	59766433	59789775	1	None	KIAA0666
14	DAAM1	ENSG00000100592	ENST00000556894	retained_intron	KNOWN	None	18142	None	None	59791068	59792833	1	None	KIAA0666
14	DAAM1	ENSG00000100592	ENST00000554459	processed_transcript	PUTATIVE	None	18142	None	None	59798148	59822002	1	None	KIAA0666
14	DAAM1	ENSG00000100592	ENST00000553966	processed_transcript	KNOWN	None	18142	None	None	59814265	59836471	1	None	KIAA0666
14	DAAM1	ENSG00000100592	ENST00000553307	retained_intron	KNOWN	None	18142	None	None	59821879	59836152	1	None	KIAA0666
14	DAAM1	ENSG00000100592	ENST00000557029	processed_transcript	KNOWN	None	18142	None	None	59824019	59834265	1	None	KIAA0666
14	DAAM1	ENSG00000100592	ENST00000557628	retained_intron	KNOWN	None	18142	None	None	59825973	59834265	1	None	KIAA0666
14	DAAM1	ENSG00000100592	ENST00000553472	retained_intron	KNOWN	None	18142	None	None	59827360	59834267	1	None	KIAA0666
14	DAAM1	ENSG00000100592	ENST00000555651	retained_intron	KNOWN	None	18142	None	None	59828979	59836471	1	None	KIAA0666
14	DAAM1	ENSG00000100592	ENST00000351081	protein_coding	KNOWN	CCDS9737	18142	3237	1078	59655399	59836471	1	None	KIAA0666
5	None	ENSG00000251250	ENST00000512746	lincRNA	KNOWN	None	None	None	None	7326177	7326722	1	None	None
3	NT5DC2	ENSG00000168268	ENST00000463947	protein_coding	NOVEL	None	25717	585	194	52558401	52561700	-1	None	FLJ12442
3	NT5DC2	ENSG00000168268	ENST00000479024	retained_intron	KNOWN	None	25717	None	None	52558403	52560507	-1	None	FLJ12442
3	NT5DC2	ENSG00000168268	ENST00000307076	protein_coding	KNOWN	CCDS2858	25717	1563	520	52558403	52569070	-1	None	FLJ12442
3	NT5DC2	ENSG00000168268	ENST00000422318	protein_coding	KNOWN	CCDS46843	25717	1674	557	52558405	52567793	-1	None	FLJ12442
3	NT5DC2	ENSG00000168268	ENST00000462261	retained_intron	KNOWN	None	25717	None	None	52558417	52560306	-1	None	FLJ12442
3	NT5DC2	ENSG00000168268	ENST00000459839	protein_coding	NOVEL	None	25717	1599	532	52558486	52567793	-1	None	FLJ12442
3	NT5DC2	ENSG00000168268	ENST00000492555	nonsense_mediated_decay	KNOWN	None	25717	336	111	52558486	52569022	-1	None	FLJ12442
3	NT5DC2	ENSG00000168268	ENST00000469616	retained_intron	KNOWN	None	25717	None	None	52558539	52559076	-1	None	FLJ12442
3	NT5DC2	ENSG00000168268	ENST00000466112	retained_intron	KNOWN	None	25717	None	None	52558629	52561784	-1	None	FLJ12442
3	NT5DC2	ENSG00000168268	ENST00000478091	retained_intron	KNOWN	None	25717	None	None	52559076	52562090	-1	None	FLJ12442
3	NT5DC2	ENSG00000168268	ENST00000489316	protein_coding	NOVEL	None	25717	772	256	52561310	52567547	-1	None	FLJ12442
3	NT5DC2	ENSG00000168268	ENST00000486792	retained_intron	KNOWN	None	25717	None	None	52562023	52562781	-1	None	FLJ12442
3	NT5DC2	ENSG00000168268	ENST00000471522	protein_coding	PUTATIVE	None	25717	257	84	52562037	52563960	-1	None	FLJ12442
3	NT5DC2	ENSG00000168268	ENST00000487779	processed_transcript	KNOWN	None	25717	None	None	52562208	52568325	-1	None	FLJ12442
3	NT5DC2	ENSG00000168268	ENST00000490681	processed_transcript	KNOWN	None	25717	None	None	52562929	52566530	-1	None	FLJ12442
3	NT5DC2	ENSG00000168268	ENST00000307092	protein_coding	KNOWN	None	25717	1386	461	52558386	52567793	-1	None	FLJ12442
5	NR2F1	ENSG00000175745	ENST00000327111	protein_coding	KNOWN	CCDS4068	7975	1272	423	92919043	92930321	1	ERBAL3, TFCOUP1	EAR-3, COUP-TFI, TCFCOUP1, SVP44
5	NR2F1	ENSG00000175745	ENST00000512697	processed_transcript	PUTATIVE	None	7975	None	None	92922807	92924039	1	ERBAL3, TFCOUP1	EAR-3, COUP-TFI, TCFCOUP1, SVP44
5	NR2F1	ENSG00000175745	ENST00000502982	processed_transcript	PUTATIVE	None	7975	None	None	92923166	92924094	1	ERBAL3, TFCOUP1	EAR-3, COUP-TFI, TCFCOUP1, SVP44
5	NR2F1	ENSG00000175745	ENST00000506162	processed_transcript	PUTATIVE	None	7975	None	None	92927679	92929849	1	ERBAL3, TFCOUP1	EAR-3, COUP-TFI, TCFCOUP1, SVP44
2	HAT1	ENSG00000128708	ENST00000412731	nonsense_mediated_decay	KNOWN	None	4821	141	46	172778958	172848596	1	None	KAT1
2	HAT1	ENSG00000128708	ENST00000460481	processed_transcript	PUTATIVE	None	4821	None	None	172778972	172779985	1	None	KAT1
2	HAT1	ENSG00000128708	ENST00000457761	nonsense_mediated_decay	KNOWN	None	4821	378	125	172778972	172844908	1	None	KAT1
2	HAT1	ENSG00000128708	ENST00000264108	protein_coding	KNOWN	CCDS2245	4821	1260	419	172778975	172848596	1	None	KAT1
2	HAT1	ENSG00000128708	ENST00000494601	retained_intron	KNOWN	None	4821	None	None	172779117	172848537	1	None	KAT1
2	HAT1	ENSG00000128708	ENST00000477327	retained_intron	KNOWN	None	4821	None	None	172821355	172845768	1	None	KAT1
2	HAT1	ENSG00000128708	ENST00000392584	protein_coding	KNOWN	None	4821	1005	334	172778958	172848599	1	None	KAT1
17	SLFN12	ENSG00000172123	ENST00000394562	protein_coding	KNOWN	CCDS11295	25500	1737	578	33738079	33760215	-1	None	FLJ10260
17	SLFN12	ENSG00000172123	ENST00000304905	protein_coding	KNOWN	CCDS11295	25500	1737	578	33738088	33759543	-1	None	FLJ10260
17	SLFN12	ENSG00000172123	ENST00000452764	protein_coding	KNOWN	CCDS11295	25500	1737	578	33738090	33760302	-1	None	FLJ10260
17	SLFN12	ENSG00000172123	ENST00000460530	processed_transcript	PUTATIVE	None	25500	None	None	33738336	33747784	-1	None	FLJ10260
17	SLFN12	ENSG00000172123	ENST00000479326	retained_intron	KNOWN	None	25500	None	None	33738387	33747854	-1	None	FLJ10260
17	SLFN12	ENSG00000172123	ENST00000447040	protein_coding	KNOWN	None	25500	346	114	33749702	33760218	-1	None	FLJ10260
17	SLFN12	ENSG00000172123	ENST00000445092	protein_coding	KNOWN	None	25500	208	68	33749840	33760164	-1	None	FLJ10260
17	SLFN12	ENSG00000172123	ENST00000428476	processed_transcript	PUTATIVE	None	25500	None	None	33758902	33760184	-1	None	FLJ10260
4	None	ENSG00000248176	ENST00000503299	lincRNA	KNOWN	None	None	None	None	29119930	29204392	1	None	None
4	None	ENSG00000248338	ENST00000512268	lincRNA	KNOWN	None	None	None	None	29216020	29222784	1	None	None
4	None	ENSG00000251373	ENST00000513866	processed_pseudogene	KNOWN	None	None	None	None	29408722	29409634	1	None	None
6	ZUFSP	ENSG00000153975	ENST00000485498	processed_transcript	KNOWN	None	21224	None	None	116956781	116967421	-1	C6orf113	dJ412I7.3
6	ZUFSP	ENSG00000153975	ENST00000368576	protein_coding	KNOWN	CCDS5110	21224	1737	578	116956781	116989957	-1	C6orf113	dJ412I7.3
6	ZUFSP	ENSG00000153975	ENST00000368573	protein_coding	KNOWN	None	21224	843	280	116973167	116989957	-1	C6orf113	dJ412I7.3
6	ZUFSP	ENSG00000153975	ENST00000471919	processed_transcript	KNOWN	None	21224	None	None	116973167	116989957	-1	C6orf113	dJ412I7.3
4	None	ENSG00000251113	ENST00000515413	processed_pseudogene	KNOWN	None	None	None	None	29467323	29469472	-1	None	None
21	ICOSLG	ENSG00000160223	ENST00000344330	protein_coding	KNOWN	None	17087	930	309	45642874	45660723	-1	ICOSL	KIAA0653, GL50, B7-H2, B7RP-1, B7H2, B7RP1, ICOS-L, CD275
21	ICOSLG	ENSG00000160223	ENST00000407780	protein_coding	KNOWN	CCDS42952	17087	909	302	45642874	45660828	-1	ICOSL	KIAA0653, GL50, B7-H2, B7RP-1, B7H2, B7RP1, ICOS-L, CD275
21	ICOSLG	ENSG00000160223	ENST00000400379	protein_coding	PUTATIVE	None	17087	1422	473	45646717	45660828	-1	ICOSL	KIAA0653, GL50, B7-H2, B7RP-1, B7H2, B7RP1, ICOS-L, CD275
21	ICOSLG	ENSG00000160223	ENST00000400377	protein_coding	NOVEL	None	17087	558	185	45646717	45660849	-1	ICOSL	KIAA0653, GL50, B7-H2, B7RP-1, B7H2, B7RP1, ICOS-L, CD275
4	RNU6-1221P	ENSG00000252303	ENST00000516494	snRNA	KNOWN	None	48184	None	None	29512257	29512359	1	None	None
4	EEF1A1P21	ENSG00000249542	ENST00000512363	processed_pseudogene	KNOWN	None	37894	None	None	29750379	29751722	1	None	None
16	RHOT2	ENSG00000140983	ENST00000315082	protein_coding	KNOWN	CCDS10417	21169	1857	618	718086	724174	1	C16orf39, ARHT2	MIRO-2
16	RHOT2	ENSG00000140983	ENST00000563776	retained_intron	KNOWN	None	21169	None	None	718105	721162	1	C16orf39, ARHT2	MIRO-2
16	RHOT2	ENSG00000140983	ENST00000561983	nonsense_mediated_decay	KNOWN	None	21169	408	135	718105	721199	1	C16orf39, ARHT2	MIRO-2
16	RHOT2	ENSG00000140983	ENST00000563134	protein_coding	NOVEL	None	21169	642	213	718106	720993	1	C16orf39, ARHT2	MIRO-2
16	RHOT2	ENSG00000140983	ENST00000562708	retained_intron	KNOWN	None	21169	None	None	718112	720525	1	C16orf39, ARHT2	MIRO-2
16	RHOT2	ENSG00000140983	ENST00000570092	retained_intron	KNOWN	None	21169	None	None	718124	720507	1	C16orf39, ARHT2	MIRO-2
16	RHOT2	ENSG00000140983	ENST00000569706	retained_intron	KNOWN	None	21169	None	None	718132	718881	1	C16orf39, ARHT2	MIRO-2
16	RHOT2	ENSG00000140983	ENST00000569675	retained_intron	KNOWN	None	21169	None	None	718135	724174	1	C16orf39, ARHT2	MIRO-2
16	RHOT2	ENSG00000140983	ENST00000566214	nonsense_mediated_decay	KNOWN	None	21169	243	80	718151	720773	1	C16orf39, ARHT2	MIRO-2
16	RHOT2	ENSG00000140983	ENST00000563637	nonsense_mediated_decay	KNOWN	None	21169	219	72	718151	721934	1	C16orf39, ARHT2	MIRO-2
16	RHOT2	ENSG00000140983	ENST00000570280	nonsense_mediated_decay	KNOWN	None	21169	168	55	718153	721131	1	C16orf39, ARHT2	MIRO-2
16	RHOT2	ENSG00000140983	ENST00000567017	retained_intron	KNOWN	None	21169	None	None	718162	721933	1	C16orf39, ARHT2	MIRO-2
16	RHOT2	ENSG00000140983	ENST00000568950	retained_intron	KNOWN	None	21169	None	None	718178	722297	1	C16orf39, ARHT2	MIRO-2
16	RHOT2	ENSG00000140983	ENST00000602564	retained_intron	KNOWN	None	21169	None	None	718180	723308	1	C16orf39, ARHT2	MIRO-2
16	RHOT2	ENSG00000140983	ENST00000562693	retained_intron	KNOWN	None	21169	None	None	718180	724125	1	C16orf39, ARHT2	MIRO-2
16	RHOT2	ENSG00000140983	ENST00000562598	retained_intron	KNOWN	None	21169	None	None	718182	720538	1	C16orf39, ARHT2	MIRO-2
16	RHOT2	ENSG00000140983	ENST00000562333	nonsense_mediated_decay	KNOWN	None	21169	408	135	718187	721993	1	C16orf39, ARHT2	MIRO-2
16	RHOT2	ENSG00000140983	ENST00000561929	protein_coding	NOVEL	None	21169	625	207	718209	720940	1	C16orf39, ARHT2	MIRO-2
16	RHOT2	ENSG00000140983	ENST00000569943	processed_transcript	KNOWN	None	21169	None	None	718353	720959	1	C16orf39, ARHT2	MIRO-2
16	RHOT2	ENSG00000140983	ENST00000566965	retained_intron	KNOWN	None	21169	None	None	718560	721785	1	C16orf39, ARHT2	MIRO-2
16	RHOT2	ENSG00000140983	ENST00000568636	retained_intron	KNOWN	None	21169	None	None	718658	724125	1	C16orf39, ARHT2	MIRO-2
16	RHOT2	ENSG00000140983	ENST00000569358	retained_intron	KNOWN	None	21169	None	None	720455	723059	1	C16orf39, ARHT2	MIRO-2
16	RHOT2	ENSG00000140983	ENST00000567589	retained_intron	KNOWN	None	21169	None	None	720528	721312	1	C16orf39, ARHT2	MIRO-2
16	RHOT2	ENSG00000140983	ENST00000565004	retained_intron	KNOWN	None	21169	None	None	721082	723057	1	C16orf39, ARHT2	MIRO-2
16	RHOT2	ENSG00000140983	ENST00000561711	retained_intron	KNOWN	None	21169	None	None	721917	722817	1	C16orf39, ARHT2	MIRO-2
16	RHOT2	ENSG00000140983	ENST00000564659	retained_intron	KNOWN	None	21169	None	None	722668	723972	1	C16orf39, ARHT2	MIRO-2
16	RHOT2	ENSG00000140983	ENST00000569197	protein_coding	PUTATIVE	None	21169	467	154	722749	724165	1	C16orf39, ARHT2	MIRO-2
16	RHOT2	ENSG00000140983	ENST00000562957	retained_intron	KNOWN	None	21169	None	None	722792	723537	1	C16orf39, ARHT2	MIRO-2
19	ZNF554	ENSG00000172006	ENST00000317243	protein_coding	KNOWN	CCDS42462	26629	1617	538	2819872	2835771	1	None	FLJ34817
19	ZNF554	ENSG00000172006	ENST00000590116	nonsense_mediated_decay	KNOWN	None	26629	207	68	2819917	2835469	1	None	FLJ34817
19	ZNF554	ENSG00000172006	ENST00000591265	protein_coding	PUTATIVE	None	26629	546	181	2819948	2834152	1	None	FLJ34817
19	ZNF554	ENSG00000172006	ENST00000588534	retained_intron	KNOWN	None	26629	None	None	2830556	2835770	1	None	FLJ34817
6	TULP1	ENSG00000112041	ENST00000322263	protein_coding	KNOWN	None	12423	1470	489	35465651	35480653	-1	RP14	TUBL1
6	TULP1	ENSG00000112041	ENST00000229771	protein_coding	KNOWN	CCDS4807	12423	1629	542	35465651	35480715	-1	RP14	TUBL1
6	TULP1	ENSG00000112041	ENST00000495781	retained_intron	KNOWN	None	12423	None	None	35467847	35471913	-1	RP14	TUBL1
6	TULP1	ENSG00000112041	ENST00000496434	retained_intron	KNOWN	None	12423	None	None	35471163	35473795	-1	RP14	TUBL1
6	TULP1	ENSG00000112041	ENST00000373892	retained_intron	KNOWN	None	12423	None	None	35471528	35479744	-1	RP14	TUBL1
6	TULP1	ENSG00000112041	ENST00000428978	protein_coding	NOVEL	None	12423	484	160	35477501	35480643	-1	RP14	TUBL1
6	TULP1	ENSG00000112041	ENST00000448446	retained_intron	KNOWN	None	12423	None	None	35478483	35480051	-1	RP14	TUBL1
3	DNAJB11	ENSG00000090520	ENST00000439351	protein_coding	KNOWN	CCDS3277	14889	1077	358	186285192	186303589	1	None	EDJ, HEDJ, ERdj3
3	DNAJB11	ENSG00000090520	ENST00000464877	retained_intron	KNOWN	None	14889	None	None	186289893	186295849	1	None	EDJ, HEDJ, ERdj3
3	DNAJB11	ENSG00000090520	ENST00000495390	retained_intron	KNOWN	None	14889	None	None	186296087	186303582	1	None	EDJ, HEDJ, ERdj3
3	DNAJB11	ENSG00000090520	ENST00000418776	protein_coding	PUTATIVE	None	14889	501	166	186299784	186314892	1	None	EDJ, HEDJ, ERdj3
3	DNAJB11	ENSG00000090520	ENST00000265028	protein_coding	KNOWN	CCDS3277	14889	1077	358	186288467	186303588	1	None	EDJ, HEDJ, ERdj3
3	DNAJB11	ENSG00000090520	ENST00000538831	protein_coding	KNOWN	None	14889	228	75	186314753	186315061	1	None	EDJ, HEDJ, ERdj3
HSCHR6_MHC_QBL	DDX39B	ENSG00000215425	ENST00000460555	retained_intron	KNOWN	None	13917	None	None	31488280	31489804	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_QBL	DDX39B	ENSG00000215425	ENST00000495997	nonsense_mediated_decay	KNOWN	None	13917	424	140	31488280	31493535	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_QBL	DDX39B	ENSG00000215425	ENST00000400293	protein_coding	KNOWN	None	13917	1278	425	31488280	31498592	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_QBL	DDX39B	ENSG00000215425	ENST00000485534	retained_intron	KNOWN	None	13917	None	None	31488280	31500072	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_QBL	DDX39B	ENSG00000215425	ENST00000400296	protein_coding	KNOWN	None	13917	1287	428	31488280	31500503	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_QBL	DDX39B	ENSG00000215425	ENST00000400295	protein_coding	KNOWN	None	13917	1287	428	31488280	31500503	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_QBL	DDX39B	ENSG00000215425	ENST00000383508	protein_coding	KNOWN	None	13917	1287	428	31488280	31504633	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_QBL	DDX39B	ENSG00000215425	ENST00000445602	protein_coding	KNOWN	None	13917	561	186	31488839	31492571	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_QBL	DDX39B	ENSG00000215425	ENST00000465016	retained_intron	KNOWN	None	13917	None	None	31489176	31489731	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_QBL	DDX39B	ENSG00000215425	ENST00000495391	processed_transcript	KNOWN	None	13917	None	None	31489334	31500456	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_QBL	DDX39B	ENSG00000215425	ENST00000446328	protein_coding	KNOWN	None	13917	737	244	31489362	31500036	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_QBL	DDX39B	ENSG00000215425	ENST00000462954	retained_intron	KNOWN	None	13917	None	None	31490473	31500056	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_QBL	DDX39B	ENSG00000215425	ENST00000435182	protein_coding	KNOWN	None	13917	867	288	31490840	31499586	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_QBL	DDX39B	ENSG00000215425	ENST00000446272	protein_coding	KNOWN	None	13917	714	237	31493448	31500073	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_QBL	DDX39B	ENSG00000215425	ENST00000449863	protein_coding	KNOWN	None	13917	707	234	31493455	31499539	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_QBL	DDX39B	ENSG00000215425	ENST00000415027	protein_coding	KNOWN	None	13917	695	230	31493467	31499992	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_QBL	DDX39B	ENSG00000215425	ENST00000432466	protein_coding	KNOWN	None	13917	591	196	31494669	31500044	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_QBL	DDX39B	ENSG00000215425	ENST00000442537	protein_coding	KNOWN	None	13917	562	186	31494683	31499784	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_QBL	DDX39B	ENSG00000215425	ENST00000423951	protein_coding	KNOWN	None	13917	376	124	31496877	31500041	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_QBL	DDX39B	ENSG00000215425	ENST00000438883	protein_coding	KNOWN	None	13917	409	135	31496889	31500046	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_QBL	DDX39B	ENSG00000215425	ENST00000452414	protein_coding	KNOWN	None	13917	397	131	31496940	31500058	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_QBL	DDX39B	ENSG00000215425	ENST00000425047	protein_coding	KNOWN	None	13917	287	94	31497257	31499928	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_QBL	DDX39B	ENSG00000215425	ENST00000548340	protein_coding	KNOWN	None	13917	1332	443	31488314	31500041	-1	BAT1	D6S81E, UAP56
HSCHR6_MHC_QBL	DDX39B	ENSG00000215425	ENST00000548331	protein_coding	KNOWN	None	13917	972	323	31489153	31500041	-1	BAT1	D6S81E, UAP56
15	DTWD1	ENSG00000104047	ENST00000403028	protein_coding	KNOWN	CCDS10132	30926	915	304	49913177	49936246	1	None	MDS009, MGC111207
15	DTWD1	ENSG00000104047	ENST00000557968	nonsense_mediated_decay	KNOWN	None	30926	330	109	49913234	49922164	1	None	MDS009, MGC111207
15	DTWD1	ENSG00000104047	ENST00000559223	processed_transcript	KNOWN	None	30926	None	None	49913242	49926927	1	None	MDS009, MGC111207
15	DTWD1	ENSG00000104047	ENST00000558653	protein_coding	KNOWN	CCDS10132	30926	915	304	49913262	49935807	1	None	MDS009, MGC111207
15	DTWD1	ENSG00000104047	ENST00000561188	retained_intron	KNOWN	None	30926	None	None	49913266	49917718	1	None	MDS009, MGC111207
15	DTWD1	ENSG00000104047	ENST00000557988	nonsense_mediated_decay	KNOWN	None	30926	309	102	49913271	49935854	1	None	MDS009, MGC111207
15	DTWD1	ENSG00000104047	ENST00000560735	processed_transcript	PUTATIVE	None	30926	None	None	49913277	49923257	1	None	MDS009, MGC111207
15	DTWD1	ENSG00000104047	ENST00000559164	protein_coding	NOVEL	None	30926	580	192	49913277	49926811	1	None	MDS009, MGC111207
15	DTWD1	ENSG00000104047	ENST00000560632	protein_coding	NOVEL	None	30926	456	151	49913279	49926792	1	None	MDS009, MGC111207
15	DTWD1	ENSG00000104047	ENST00000559405	protein_coding	KNOWN	None	30926	283	93	49913282	49924374	1	None	MDS009, MGC111207
15	DTWD1	ENSG00000104047	ENST00000251250	protein_coding	KNOWN	CCDS10132	30926	915	304	49913296	49937333	1	None	MDS009, MGC111207
15	DTWD1	ENSG00000104047	ENST00000329873	protein_coding	KNOWN	None	30926	330	109	49913226	49919006	1	None	MDS009, MGC111207
15	DTWD1	ENSG00000104047	ENST00000415425	protein_coding	KNOWN	None	30926	654	217	49924219	49937333	1	None	MDS009, MGC111207
5	None	ENSG00000251678	ENST00000504494	lincRNA	KNOWN	None	None	None	None	7344692	7346034	1	None	None
7	PCOLCE	ENSG00000106333	ENST00000223061	protein_coding	KNOWN	CCDS5700	8738	1350	449	100199800	100205798	1	None	PCPE, PCPE1
7	PCOLCE	ENSG00000106333	ENST00000496269	processed_transcript	KNOWN	None	8738	None	None	100200026	100202528	1	None	PCPE, PCPE1
7	PCOLCE	ENSG00000106333	ENST00000462260	retained_intron	KNOWN	None	8738	None	None	100200786	100201759	1	None	PCPE, PCPE1
7	PCOLCE	ENSG00000106333	ENST00000482863	retained_intron	KNOWN	None	8738	None	None	100201409	100202855	1	None	PCPE, PCPE1
7	PCOLCE	ENSG00000106333	ENST00000487172	retained_intron	KNOWN	None	8738	None	None	100201655	100203213	1	None	PCPE, PCPE1
7	PCOLCE	ENSG00000106333	ENST00000468214	retained_intron	KNOWN	None	8738	None	None	100202061	100203189	1	None	PCPE, PCPE1
7	PCOLCE	ENSG00000106333	ENST00000460002	retained_intron	KNOWN	None	8738	None	None	100202440	100203175	1	None	PCPE, PCPE1
7	PCOLCE	ENSG00000106333	ENST00000490909	retained_intron	KNOWN	None	8738	None	None	100202611	100203388	1	None	PCPE, PCPE1
7	PCOLCE	ENSG00000106333	ENST00000486440	processed_transcript	KNOWN	None	8738	None	None	100202776	100205366	1	None	PCPE, PCPE1
7	PCOLCE	ENSG00000106333	ENST00000472348	retained_intron	KNOWN	None	8738	None	None	100203772	100205794	1	None	PCPE, PCPE1
9	SH2D3C	ENSG00000095370	ENST00000373277	protein_coding	KNOWN	CCDS6878	16884	2112	703	130500596	130533717	-1	None	NSP3
9	SH2D3C	ENSG00000095370	ENST00000420366	protein_coding	NOVEL	CCDS48026	16884	2109	702	130500597	130517583	-1	None	NSP3
9	SH2D3C	ENSG00000095370	ENST00000314830	protein_coding	KNOWN	CCDS6877	16884	2583	860	130500598	130541020	-1	None	NSP3
9	SH2D3C	ENSG00000095370	ENST00000468969	processed_transcript	KNOWN	None	16884	None	None	130504124	130540989	-1	None	NSP3
9	SH2D3C	ENSG00000095370	ENST00000484160	processed_transcript	KNOWN	None	16884	None	None	130504938	130506999	-1	None	NSP3
9	SH2D3C	ENSG00000095370	ENST00000471939	processed_transcript	KNOWN	None	16884	None	None	130505128	130536423	-1	None	NSP3
9	SH2D3C	ENSG00000095370	ENST00000440630	protein_coding	PUTATIVE	None	16884	976	324	130507177	130524695	-1	None	NSP3
9	SH2D3C	ENSG00000095370	ENST00000464239	processed_transcript	KNOWN	None	16884	None	None	130507297	130524467	-1	None	NSP3
9	SH2D3C	ENSG00000095370	ENST00000488685	processed_transcript	KNOWN	None	16884	None	None	130509426	130524566	-1	None	NSP3
9	SH2D3C	ENSG00000095370	ENST00000414380	protein_coding	PUTATIVE	None	16884	589	195	130511491	130517309	-1	None	NSP3
9	SH2D3C	ENSG00000095370	ENST00000373276	protein_coding	KNOWN	CCDS59145	16884	2379	792	130500597	130529490	-1	None	NSP3
9	SH2D3C	ENSG00000095370	ENST00000373274	protein_coding	KNOWN	CCDS48027	16884	2103	700	130500597	130517561	-1	None	NSP3
9	SH2D3C	ENSG00000095370	ENST00000429553	protein_coding	KNOWN	CCDS48028	16884	1521	506	130500597	130524697	-1	None	NSP3
16	SNAI3	ENSG00000185669	ENST00000332281	protein_coding	KNOWN	CCDS32505	18411	879	292	88744090	88752901	-1	ZNF293	SMUC, Zfp293
22	None	ENSG00000268427	ENST00000595015	protein_coding	KNOWN	None	None	168	55	50714103	50714350	1	None	None
20	C20orf26	ENSG00000089101	ENST00000340348	protein_coding	PUTATIVE	None	15872	1112	369	20033158	20147085	1	None	DKFZP434K156, dJ1002M8.3
20	C20orf26	ENSG00000089101	ENST00000377306	protein_coding	KNOWN	CCDS54452	15872	1413	470	20033196	20152980	1	None	DKFZP434K156, dJ1002M8.3
20	C20orf26	ENSG00000089101	ENST00000245957	protein_coding	KNOWN	CCDS33447	15872	3714	1237	20033196	20341346	1	None	DKFZP434K156, dJ1002M8.3
20	C20orf26	ENSG00000089101	ENST00000494029	nonsense_mediated_decay	KNOWN	None	15872	168	55	20033202	20055022	1	None	DKFZP434K156, dJ1002M8.3
20	C20orf26	ENSG00000089101	ENST00000377303	protein_coding	KNOWN	None	15872	567	188	20033202	20056260	1	None	DKFZP434K156, dJ1002M8.3
20	C20orf26	ENSG00000089101	ENST00000475466	protein_coding	KNOWN	None	15872	407	134	20033223	20055868	1	None	DKFZP434K156, dJ1002M8.3
20	C20orf26	ENSG00000089101	ENST00000472660	protein_coding	PUTATIVE	None	15872	482	159	20054536	20079393	1	None	DKFZP434K156, dJ1002M8.3
20	C20orf26	ENSG00000089101	ENST00000442372	nonsense_mediated_decay	KNOWN	None	15872	204	67	20066106	20147072	1	None	DKFZP434K156, dJ1002M8.3
20	C20orf26	ENSG00000089101	ENST00000431753	protein_coding	PUTATIVE	None	15872	683	226	20150023	20209091	1	None	DKFZP434K156, dJ1002M8.3
20	C20orf26	ENSG00000089101	ENST00000471716	processed_transcript	KNOWN	None	15872	None	None	20165205	20177358	1	None	DKFZP434K156, dJ1002M8.3
20	C20orf26	ENSG00000089101	ENST00000468719	processed_transcript	KNOWN	None	15872	None	None	20177297	20232407	1	None	DKFZP434K156, dJ1002M8.3
20	C20orf26	ENSG00000089101	ENST00000476414	processed_transcript	KNOWN	None	15872	None	None	20177297	20232407	1	None	DKFZP434K156, dJ1002M8.3
20	C20orf26	ENSG00000089101	ENST00000493330	processed_transcript	KNOWN	None	15872	None	None	20200773	20205966	1	None	DKFZP434K156, dJ1002M8.3
20	C20orf26	ENSG00000089101	ENST00000497372	processed_transcript	KNOWN	None	15872	None	None	20200811	20213570	1	None	DKFZP434K156, dJ1002M8.3
20	C20orf26	ENSG00000089101	ENST00000377293	protein_coding	KNOWN	None	15872	603	200	20202584	20246477	1	None	DKFZP434K156, dJ1002M8.3
20	C20orf26	ENSG00000089101	ENST00000377308	nonsense_mediated_decay	KNOWN	None	15872	963	320	20206105	20341342	1	None	DKFZP434K156, dJ1002M8.3
20	C20orf26	ENSG00000089101	ENST00000486624	processed_transcript	KNOWN	None	15872	None	None	20206731	20209258	1	None	DKFZP434K156, dJ1002M8.3
20	C20orf26	ENSG00000089101	ENST00000488640	processed_transcript	KNOWN	None	15872	None	None	20243615	20271001	1	None	DKFZP434K156, dJ1002M8.3
20	C20orf26	ENSG00000089101	ENST00000469994	processed_transcript	KNOWN	None	15872	None	None	20270946	20303458	1	None	DKFZP434K156, dJ1002M8.3
20	C20orf26	ENSG00000089101	ENST00000451767	protein_coding	KNOWN	CCDS54452	15872	1413	470	20037290	20152977	1	None	DKFZP434K156, dJ1002M8.3
20	C20orf26	ENSG00000089101	ENST00000377309	protein_coding	KNOWN	None	15872	963	320	20033158	20341346	1	None	DKFZP434K156, dJ1002M8.3
20	C20orf26	ENSG00000089101	ENST00000389656	protein_coding	KNOWN	None	15872	603	200	20033158	20246090	1	None	DKFZP434K156, dJ1002M8.3
2	METAP1D	ENSG00000172878	ENST00000315796	protein_coding	KNOWN	CCDS2246	32583	1008	335	172864490	172947158	1	None	MAP1D, Metap1l
2	METAP1D	ENSG00000172878	ENST00000493035	processed_transcript	KNOWN	None	32583	None	None	172864850	172929142	1	None	MAP1D, Metap1l
2	METAP1D	ENSG00000172878	ENST00000493742	processed_transcript	PUTATIVE	None	32583	None	None	172864862	172926722	1	None	MAP1D, Metap1l
2	METAP1D	ENSG00000172878	ENST00000491440	processed_transcript	PUTATIVE	None	32583	None	None	172886703	172928478	1	None	MAP1D, Metap1l
2	METAP1D	ENSG00000172878	ENST00000488581	processed_transcript	KNOWN	None	32583	None	None	172926301	172945227	1	None	MAP1D, Metap1l
2	METAP1D	ENSG00000172878	ENST00000392582	processed_transcript	KNOWN	None	32583	None	None	172930332	172937182	1	None	MAP1D, Metap1l
2	METAP1D	ENSG00000172878	ENST00000468537	processed_transcript	KNOWN	None	32583	None	None	172935391	172945207	1	None	MAP1D, Metap1l
1	NBPF12	ENSG00000186275	ENST00000442909	protein_coding	NOVEL	None	24297	9996	3331	146374056	146467744	1	KIAA1245	COAS1
1	NBPF12	ENSG00000186275	ENST00000446760	protein_coding	KNOWN	None	24297	2517	838	146373546	146467638	1	KIAA1245	COAS1
1	NBPF12	ENSG00000186275	ENST00000309471	protein_coding	KNOWN	None	24297	2373	790	146384521	146466267	1	KIAA1245	COAS1
1	NBPF12	ENSG00000186275	ENST00000439206	protein_coding	KNOWN	None	24297	204	67	146404596	146418190	1	KIAA1245	COAS1
1	NBPF12	ENSG00000186275	ENST00000446080	protein_coding	KNOWN	None	24297	231	76	146420024	146464436	1	KIAA1245	COAS1
1	NBPF12	ENSG00000186275	ENST00000447862	protein_coding	KNOWN	None	24297	288	95	146439964	146441561	1	KIAA1245	COAS1
1	NBPF12	ENSG00000186275	ENST00000438910	protein_coding	KNOWN	None	24297	231	76	146442180	146445463	1	KIAA1245	COAS1
1	NBPF12	ENSG00000186275	ENST00000414957	protein_coding	KNOWN	None	24297	231	76	146446971	146454864	1	KIAA1245	COAS1
1	NBPF12	ENSG00000186275	ENST00000438411	protein_coding	KNOWN	None	24297	231	76	146451725	146453309	1	KIAA1245	COAS1
1	NBPF12	ENSG00000186275	ENST00000537773	protein_coding	KNOWN	None	24297	231	76	146456496	146459624	1	KIAA1245	COAS1
13	RCBTB1	ENSG00000136144	ENST00000378302	protein_coding	KNOWN	CCDS9418	18243	1596	531	50106090	50159719	-1	None	FLJ10716, CLLD7, CLLL7
13	RCBTB1	ENSG00000136144	ENST00000471984	processed_transcript	KNOWN	None	18243	None	None	50108054	50113639	-1	None	FLJ10716, CLLD7, CLLL7
13	RCBTB1	ENSG00000136144	ENST00000490058	processed_transcript	KNOWN	None	18243	None	None	50125307	50126388	-1	None	FLJ10716, CLLD7, CLLL7
13	RCBTB1	ENSG00000136144	ENST00000258646	protein_coding	KNOWN	CCDS9418	18243	1596	531	50106082	50141459	-1	None	FLJ10716, CLLD7, CLLL7
13	RCBTB1	ENSG00000136144	ENST00000546015	protein_coding	KNOWN	None	18243	1068	355	50120638	50159714	-1	None	FLJ10716, CLLD7, CLLL7
6	FAM120B	ENSG00000112584	ENST00000366751	nonsense_mediated_decay	KNOWN	None	21109	2676	891	170615830	170702071	1	KIAA1838	PGCC1, CCPG
6	FAM120B	ENSG00000112584	ENST00000476287	protein_coding	KNOWN	CCDS5314	21109	2733	910	170615844	170716153	1	KIAA1838	PGCC1, CCPG
6	FAM120B	ENSG00000112584	ENST00000467012	processed_transcript	KNOWN	None	21109	None	None	170703282	170714166	1	KIAA1838	PGCC1, CCPG
6	FAM120B	ENSG00000112584	ENST00000496635	processed_transcript	KNOWN	None	21109	None	None	170713267	170714166	1	KIAA1838	PGCC1, CCPG
6	FAM120B	ENSG00000112584	ENST00000540480	protein_coding	KNOWN	None	21109	2769	922	170599791	170714436	1	KIAA1838	PGCC1, CCPG
6	FAM120B	ENSG00000112584	ENST00000537664	protein_coding	KNOWN	None	21109	2802	933	170604409	170714164	1	KIAA1838	PGCC1, CCPG
6	FAM120B	ENSG00000112584	ENST00000252510	protein_coding	KNOWN	None	21109	729	242	170615846	170714730	1	KIAA1838	PGCC1, CCPG
22	DENND6B	ENSG00000205593	ENST00000413817	protein_coding	KNOWN	CCDS46732	32690	1758	585	50750392	50765489	-1	FAM116B	MGC33692, AFI1B
22	DENND6B	ENSG00000205593	ENST00000495607	retained_intron	KNOWN	None	32690	None	None	50750395	50765406	-1	FAM116B	MGC33692, AFI1B
22	DENND6B	ENSG00000205593	ENST00000471942	retained_intron	KNOWN	None	32690	None	None	50752632	50757396	-1	FAM116B	MGC33692, AFI1B
22	DENND6B	ENSG00000205593	ENST00000433760	protein_coding	PUTATIVE	None	32690	894	297	50753251	50757524	-1	FAM116B	MGC33692, AFI1B
22	DENND6B	ENSG00000205593	ENST00000460087	retained_intron	KNOWN	None	32690	None	None	50755083	50757399	-1	FAM116B	MGC33692, AFI1B
1	CNTN2	ENSG00000184144	ENST00000331830	protein_coding	KNOWN	CCDS1449	2172	3123	1040	205012325	205047627	1	TAX, AXT	TAG-1, TAX1
1	CNTN2	ENSG00000184144	ENST00000532366	retained_intron	KNOWN	None	2172	None	None	205026866	205027542	1	TAX, AXT	TAG-1, TAX1
1	CNTN2	ENSG00000184144	ENST00000530117	retained_intron	KNOWN	None	2172	None	None	205027511	205031463	1	TAX, AXT	TAG-1, TAX1
1	CNTN2	ENSG00000184144	ENST00000481872	retained_intron	KNOWN	None	2172	None	None	205027733	205044084	1	TAX, AXT	TAG-1, TAX1
1	CNTN2	ENSG00000184144	ENST00000527340	retained_intron	KNOWN	None	2172	None	None	205030962	205033856	1	TAX, AXT	TAG-1, TAX1
1	CNTN2	ENSG00000184144	ENST00000530594	retained_intron	KNOWN	None	2172	None	None	205034352	205035417	1	TAX, AXT	TAG-1, TAX1
1	CNTN2	ENSG00000184144	ENST00000525433	retained_intron	KNOWN	None	2172	None	None	205041163	205042097	1	TAX, AXT	TAG-1, TAX1
17	CCDC40	ENSG00000141519	ENST00000397545	protein_coding	KNOWN	CCDS42395	26090	3429	1142	78010435	78074412	1	None	FLJ20753, KIAA1640, FLJ32021, CILD15
17	CCDC40	ENSG00000141519	ENST00000572270	processed_transcript	KNOWN	None	26090	None	None	78010451	78013964	1	None	FLJ20753, KIAA1640, FLJ32021, CILD15
17	CCDC40	ENSG00000141519	ENST00000269318	protein_coding	KNOWN	None	26090	1740	579	78010451	78041700	1	None	FLJ20753, KIAA1640, FLJ32021, CILD15
17	CCDC40	ENSG00000141519	ENST00000374876	protein_coding	KNOWN	None	26090	1437	478	78010457	78040569	1	None	FLJ20753, KIAA1640, FLJ32021, CILD15
17	CCDC40	ENSG00000141519	ENST00000576033	protein_coding	PUTATIVE	None	26090	297	98	78010460	78013904	1	None	FLJ20753, KIAA1640, FLJ32021, CILD15
17	CCDC40	ENSG00000141519	ENST00000574099	protein_coding	PUTATIVE	None	26090	379	125	78010460	78013986	1	None	FLJ20753, KIAA1640, FLJ32021, CILD15
17	CCDC40	ENSG00000141519	ENST00000572083	retained_intron	KNOWN	None	26090	None	None	78010463	78014334	1	None	FLJ20753, KIAA1640, FLJ32021, CILD15
17	CCDC40	ENSG00000141519	ENST00000576241	retained_intron	KNOWN	None	26090	None	None	78010476	78021253	1	None	FLJ20753, KIAA1640, FLJ32021, CILD15
17	CCDC40	ENSG00000141519	ENST00000573474	nonsense_mediated_decay	KNOWN	None	26090	257	84	78013804	78024023	1	None	FLJ20753, KIAA1640, FLJ32021, CILD15
17	CCDC40	ENSG00000141519	ENST00000574799	retained_intron	KNOWN	None	26090	None	None	78022169	78074403	1	None	FLJ20753, KIAA1640, FLJ32021, CILD15
17	CCDC40	ENSG00000141519	ENST00000571028	protein_coding	PUTATIVE	None	26090	251	82	78032724	78041087	1	None	FLJ20753, KIAA1640, FLJ32021, CILD15
17	CCDC40	ENSG00000141519	ENST00000572253	retained_intron	KNOWN	None	26090	None	None	78055242	78071733	1	None	FLJ20753, KIAA1640, FLJ32021, CILD15
17	CCDC40	ENSG00000141519	ENST00000575431	retained_intron	KNOWN	None	26090	None	None	78061313	78069136	1	None	FLJ20753, KIAA1640, FLJ32021, CILD15
17	CCDC40	ENSG00000141519	ENST00000574933	retained_intron	KNOWN	None	26090	None	None	78061502	78062011	1	None	FLJ20753, KIAA1640, FLJ32021, CILD15
17	CCDC40	ENSG00000141519	ENST00000573903	processed_transcript	KNOWN	None	26090	None	None	78061904	78065944	1	None	FLJ20753, KIAA1640, FLJ32021, CILD15
17	CCDC40	ENSG00000141519	ENST00000374877	protein_coding	KNOWN	CCDS58604	26090	3093	1030	78010435	78064198	1	None	FLJ20753, KIAA1640, FLJ32021, CILD15
4	C4orf48	ENSG00000243449	ENST00000409248	protein_coding	NOVEL	CCDS54707	34437	387	128	2043720	2045691	1	None	None
4	C4orf48	ENSG00000243449	ENST00000409860	protein_coding	NOVEL	CCDS47000	34437	288	95	2043777	2045691	1	None	None
4	C4orf48	ENSG00000243449	ENST00000382878	protein_coding	KNOWN	None	34437	420	139	2043689	2045697	1	None	None
16	NFATC3	ENSG00000072736	ENST00000553077	retained_intron	KNOWN	None	7777	None	None	68118654	68226115	1	None	NFAT4, NFATX
16	NFATC3	ENSG00000072736	ENST00000569766	processed_transcript	KNOWN	None	7777	None	None	68118654	68260374	1	None	NFAT4, NFATX
16	NFATC3	ENSG00000072736	ENST00000563319	processed_transcript	KNOWN	None	7777	None	None	68118654	68260837	1	None	NFAT4, NFATX
16	NFATC3	ENSG00000072736	ENST00000549350	retained_intron	KNOWN	None	7777	None	None	68118681	68226115	1	None	NFAT4, NFATX
16	NFATC3	ENSG00000072736	ENST00000566301	processed_transcript	KNOWN	None	7777	None	None	68118681	68260837	1	None	NFAT4, NFATX
16	NFATC3	ENSG00000072736	ENST00000566893	processed_transcript	KNOWN	None	7777	None	None	68118742	68200918	1	None	NFAT4, NFATX
16	NFATC3	ENSG00000072736	ENST00000575270	protein_coding	PUTATIVE	None	7777	3144	1047	68119247	68251993	1	None	NFAT4, NFATX
16	NFATC3	ENSG00000072736	ENST00000561714	nonsense_mediated_decay	KNOWN	None	7777	117	38	68119269	68200918	1	None	NFAT4, NFATX
16	NFATC3	ENSG00000072736	ENST00000568466	nonsense_mediated_decay	KNOWN	None	7777	117	38	68119292	68208417	1	None	NFAT4, NFATX
16	NFATC3	ENSG00000072736	ENST00000539828	nonsense_mediated_decay	KNOWN	None	7777	117	38	68119344	68226113	1	None	NFAT4, NFATX
16	NFATC3	ENSG00000072736	ENST00000562171	nonsense_mediated_decay	KNOWN	None	7777	126	41	68119349	68191976	1	None	NFAT4, NFATX
16	NFATC3	ENSG00000072736	ENST00000349223	protein_coding	KNOWN	CCDS10861	7777	3198	1065	68119361	68263161	1	None	NFAT4, NFATX
16	NFATC3	ENSG00000072736	ENST00000379165	retained_intron	KNOWN	None	7777	None	None	68119561	68226131	1	None	NFAT4, NFATX
16	NFATC3	ENSG00000072736	ENST00000346183	protein_coding	KNOWN	CCDS10860	7777	3228	1075	68119561	68263162	1	None	NFAT4, NFATX
16	NFATC3	ENSG00000072736	ENST00000329524	protein_coding	KNOWN	CCDS10862	7777	3207	1068	68119561	68263162	1	None	NFAT4, NFATX
16	NFATC3	ENSG00000072736	ENST00000570212	protein_coding	PUTATIVE	None	7777	3181	1059	68119764	68260374	1	None	NFAT4, NFATX
16	NFATC3	ENSG00000072736	ENST00000562926	protein_coding	PUTATIVE	None	7777	3160	1052	68119764	68260837	1	None	NFAT4, NFATX
16	NFATC3	ENSG00000072736	ENST00000567152	processed_transcript	KNOWN	None	7777	None	None	68120541	68260374	1	None	NFAT4, NFATX
16	NFATC3	ENSG00000072736	ENST00000563796	processed_transcript	KNOWN	None	7777	None	None	68120541	68260837	1	None	NFAT4, NFATX
16	NFATC3	ENSG00000072736	ENST00000563288	processed_transcript	KNOWN	None	7777	None	None	68120604	68260837	1	None	NFAT4, NFATX
16	NFATC3	ENSG00000072736	ENST00000535127	processed_transcript	KNOWN	None	7777	None	None	68122604	68260837	1	None	NFAT4, NFATX
16	NFATC3	ENSG00000072736	ENST00000565750	protein_coding	PUTATIVE	None	7777	504	167	68156933	68172687	1	None	NFAT4, NFATX
5	FAM172A	ENSG00000113391	ENST00000395965	protein_coding	KNOWN	CCDS4069	25365	1251	416	92953775	93447340	-1	C5orf21	DKFZP564D172
5	FAM172A	ENSG00000113391	ENST00000505869	protein_coding	PUTATIVE	CCDS54879	25365	921	306	92956397	93447353	-1	C5orf21	DKFZP564D172
5	FAM172A	ENSG00000113391	ENST00000509739	protein_coding	PUTATIVE	None	25365	810	269	92956589	93410425	-1	C5orf21	DKFZP564D172
5	FAM172A	ENSG00000113391	ENST00000509163	protein_coding	PUTATIVE	CCDS54880	25365	1113	370	92956635	93447381	-1	C5orf21	DKFZP564D172
5	FAM172A	ENSG00000113391	ENST00000502503	nonsense_mediated_decay	KNOWN	None	25365	918	305	92956787	93447404	-1	C5orf21	DKFZP564D172
5	FAM172A	ENSG00000113391	ENST00000511139	retained_intron	KNOWN	None	25365	None	None	93111864	93159960	-1	C5orf21	DKFZP564D172
5	FAM172A	ENSG00000113391	ENST00000510445	retained_intron	KNOWN	None	25365	None	None	93119901	93217307	-1	C5orf21	DKFZP564D172
5	FAM172A	ENSG00000113391	ENST00000506398	retained_intron	KNOWN	None	25365	None	None	93217017	93410476	-1	C5orf21	DKFZP564D172
5	FAM172A	ENSG00000113391	ENST00000504768	processed_transcript	KNOWN	None	25365	None	None	93246401	93410476	-1	C5orf21	DKFZP564D172
2	DLX1	ENSG00000144355	ENST00000361609	protein_coding	KNOWN	None	2914	514	170	172949468	172951582	1	None	None
2	DLX1	ENSG00000144355	ENST00000469444	protein_coding	KNOWN	None	2914	562	186	172949477	172952779	1	None	None
2	DLX1	ENSG00000144355	ENST00000361725	protein_coding	KNOWN	CCDS2247	2914	768	255	172949954	172954405	1	None	None
2	DLX1	ENSG00000144355	ENST00000341900	protein_coding	KNOWN	CCDS33328	2914	390	129	172950264	172954405	1	None	None
2	DLX1	ENSG00000144355	ENST00000409492	retained_intron	KNOWN	None	2914	None	None	172950285	172951866	1	None	None
2	DLX1	ENSG00000144355	ENST00000475989	retained_intron	KNOWN	None	2914	None	None	172950995	172954040	1	None	None
2	DLX1	ENSG00000144355	ENST00000550686	processed_transcript	KNOWN	None	2914	None	None	172952095	172953101	1	None	None
11	KCTD14	ENSG00000151364	ENST00000353172	protein_coding	KNOWN	CCDS8255	23295	768	255	77726761	77734340	-1	None	MGC2376
11	KCTD14	ENSG00000151364	ENST00000533144	protein_coding	PUTATIVE	None	23295	678	225	77727639	77757237	-1	None	MGC2376
X	MSN	ENSG00000147065	ENST00000360270	protein_coding	KNOWN	CCDS14382	7373	1734	577	64887537	64961791	1	None	None
X	MSN	ENSG00000147065	ENST00000486030	processed_transcript	KNOWN	None	7373	None	None	64956768	64961266	1	None	None
11	CLMP	ENSG00000166250	ENST00000448775	protein_coding	KNOWN	CCDS8441	24039	1122	373	122943035	123065989	-1	None	ASAM, FLJ22415, ACAM
11	CLMP	ENSG00000166250	ENST00000530371	processed_transcript	KNOWN	None	24039	None	None	122944193	122954444	-1	None	ASAM, FLJ22415, ACAM
11	CLMP	ENSG00000166250	ENST00000527977	retained_intron	KNOWN	None	24039	None	None	122944414	122955422	-1	None	ASAM, FLJ22415, ACAM
11	CLMP	ENSG00000166250	ENST00000529128	retained_intron	KNOWN	None	24039	None	None	122953790	122968674	-1	None	ASAM, FLJ22415, ACAM
7	GTF2IRD2	ENSG00000196275	ENST00000405086	protein_coding	KNOWN	CCDS5576	30775	2850	949	74210483	74267847	-1	None	FLJ37938, GTF2IRD2A
7	GTF2IRD2	ENSG00000196275	ENST00000361071	protein_coding	PUTATIVE	None	30775	1314	437	74213351	74267836	-1	None	FLJ37938, GTF2IRD2A
7	GTF2IRD2	ENSG00000196275	ENST00000484624	retained_intron	KNOWN	None	30775	None	None	74233337	74235754	-1	None	FLJ37938, GTF2IRD2A
7	GTF2IRD2	ENSG00000196275	ENST00000457594	retained_intron	KNOWN	None	30775	None	None	74236064	74267832	-1	None	FLJ37938, GTF2IRD2A
7	GTF2IRD2	ENSG00000196275	ENST00000417115	protein_coding	PUTATIVE	None	30775	327	108	74247766	74267846	-1	None	FLJ37938, GTF2IRD2A
7	GTF2IRD2	ENSG00000196275	ENST00000451013	protein_coding	KNOWN	None	30775	1491	496	74210490	74221288	-1	None	FLJ37938, GTF2IRD2A
7	GTF2IRD2	ENSG00000196275	ENST00000453619	protein_coding	KNOWN	None	30775	681	226	74213369	74267836	-1	None	FLJ37938, GTF2IRD2A
21	DNMT3L	ENSG00000142182	ENST00000436357	protein_coding	PUTATIVE	None	2980	545	180	45666222	45671121	-1	None	MGC1090
21	DNMT3L	ENSG00000142182	ENST00000270172	protein_coding	KNOWN	CCDS13705	2980	1164	387	45666222	45682099	-1	None	MGC1090
21	DNMT3L	ENSG00000142182	ENST00000431166	protein_coding	NOVEL	None	2980	864	287	45670693	45681765	-1	None	MGC1090
21	DNMT3L	ENSG00000142182	ENST00000418993	protein_coding	KNOWN	CCDS46650	2980	1161	386	45666223	45682099	-1	None	MGC1090
11	NDUFC2-KCTD14	ENSG00000259112	ENST00000528251	protein_coding	KNOWN	None	42956	201	66	77728017	77790890	-1	None	None
11	NDUFC2-KCTD14	ENSG00000259112	ENST00000530054	protein_coding	KNOWN	CCDS55780	42956	345	114	77728092	77790911	-1	None	None
11	ARFIP2	ENSG00000132254	ENST00000254584	protein_coding	KNOWN	CCDS7765	17160	1026	341	6496910	6502542	-1	None	POR1
11	ARFIP2	ENSG00000132254	ENST00000396777	protein_coding	KNOWN	CCDS7765	17160	1026	341	6497749	6502666	-1	None	POR1
11	ARFIP2	ENSG00000132254	ENST00000531037	nonsense_mediated_decay	KNOWN	None	17160	480	159	6497784	6502554	-1	None	POR1
11	ARFIP2	ENSG00000132254	ENST00000525235	protein_coding	PUTATIVE	None	17160	609	202	6499314	6502544	-1	None	POR1
11	ARFIP2	ENSG00000132254	ENST00000530410	retained_intron	KNOWN	None	17160	None	None	6500536	6502527	-1	None	POR1
11	ARFIP2	ENSG00000132254	ENST00000529847	retained_intron	KNOWN	None	17160	None	None	6500887	6502573	-1	None	POR1
11	ARFIP2	ENSG00000132254	ENST00000525329	retained_intron	KNOWN	None	17160	None	None	6501937	6502553	-1	None	POR1
11	ARFIP2	ENSG00000132254	ENST00000423813	protein_coding	KNOWN	CCDS55740	17160	912	303	6498044	6502664	-1	None	POR1
11	ARFIP2	ENSG00000132254	ENST00000445086	protein_coding	KNOWN	CCDS55739	17160	771	256	6497964	6502573	-1	None	POR1
2	DLX2	ENSG00000115844	ENST00000234198	protein_coding	KNOWN	CCDS2248	2915	987	328	172964167	172967628	-1	None	TES-1
2	DLX2	ENSG00000115844	ENST00000466293	protein_coding	PUTATIVE	None	2915	654	217	172965285	172967628	-1	None	TES-1
1	TMEM81	ENSG00000174529	ENST00000367167	protein_coding	KNOWN	CCDS1450	32349	768	255	205052258	205053645	-1	None	UNQ2788, MGC75217, HC3107, KVLA2788
11	RNF121	ENSG00000137522	ENST00000361756	protein_coding	KNOWN	CCDS8203	21070	984	327	71639747	71708641	1	None	FLJ11099
11	RNF121	ENSG00000137522	ENST00000530058	nonsense_mediated_decay	KNOWN	None	21070	246	81	71640064	71701709	1	None	FLJ11099
11	RNF121	ENSG00000137522	ENST00000393711	nonsense_mediated_decay	KNOWN	None	21070	342	113	71640073	71698074	1	None	FLJ11099
11	RNF121	ENSG00000137522	ENST00000530655	nonsense_mediated_decay	KNOWN	None	21070	159	52	71640073	71707321	1	None	FLJ11099
11	RNF121	ENSG00000137522	ENST00000533380	protein_coding	PUTATIVE	None	21070	504	167	71640078	71707639	1	None	FLJ11099
11	RNF121	ENSG00000137522	ENST00000393713	protein_coding	PUTATIVE	None	21070	618	205	71640080	71708643	1	None	FLJ11099
11	RNF121	ENSG00000137522	ENST00000490867	processed_transcript	KNOWN	None	21070	None	None	71640092	71705823	1	None	FLJ11099
11	RNF121	ENSG00000137522	ENST00000528683	retained_intron	KNOWN	None	21070	None	None	71640093	71701842	1	None	FLJ11099
11	RNF121	ENSG00000137522	ENST00000526549	nonsense_mediated_decay	KNOWN	None	21070	150	49	71640097	71708641	1	None	FLJ11099
11	RNF121	ENSG00000137522	ENST00000525243	nonsense_mediated_decay	KNOWN	None	21070	439	145	71640122	71707466	1	None	FLJ11099
11	RNF121	ENSG00000137522	ENST00000530137	protein_coding	PUTATIVE	None	21070	888	295	71640128	71708637	1	None	FLJ11099
11	RNF121	ENSG00000137522	ENST00000526903	retained_intron	KNOWN	None	21070	None	None	71668285	71694216	1	None	FLJ11099
11	RNF121	ENSG00000137522	ENST00000525176	processed_transcript	PUTATIVE	None	21070	None	None	71694703	71701748	1	None	FLJ11099
11	RNF121	ENSG00000137522	ENST00000532379	retained_intron	KNOWN	None	21070	None	None	71706292	71707568	1	None	FLJ11099
11	RNF121	ENSG00000137522	ENST00000545854	protein_coding	KNOWN	None	21070	741	246	71640102	71708641	1	None	FLJ11099
1	NFYC	ENSG00000066136	ENST00000467203	retained_intron	KNOWN	None	7806	None	None	41157320	41224120	1	None	CBF-C, NF-YC
1	NFYC	ENSG00000066136	ENST00000424419	retained_intron	KNOWN	None	7806	None	None	41157358	41232915	1	None	CBF-C, NF-YC
1	NFYC	ENSG00000066136	ENST00000427410	protein_coding	KNOWN	CCDS44123	7806	894	297	41157361	41236798	1	None	CBF-C, NF-YC
1	NFYC	ENSG00000066136	ENST00000447388	protein_coding	KNOWN	CCDS455	7806	1008	335	41157381	41237275	1	None	CBF-C, NF-YC
1	NFYC	ENSG00000066136	ENST00000425457	protein_coding	KNOWN	CCDS44120	7806	1065	354	41157388	41236811	1	None	CBF-C, NF-YC
1	NFYC	ENSG00000066136	ENST00000453631	protein_coding	KNOWN	None	7806	387	128	41157389	41218918	1	None	CBF-C, NF-YC
1	NFYC	ENSG00000066136	ENST00000456393	protein_coding	KNOWN	CCDS44121	7806	1005	334	41157415	41237273	1	None	CBF-C, NF-YC
1	NFYC	ENSG00000066136	ENST00000372654	protein_coding	KNOWN	CCDS455	7806	1008	335	41157510	41236774	1	None	CBF-C, NF-YC
1	NFYC	ENSG00000066136	ENST00000534399	protein_coding	KNOWN	None	7806	156	51	41157680	41213256	1	None	CBF-C, NF-YC
1	NFYC	ENSG00000066136	ENST00000372653	protein_coding	KNOWN	CCDS44122	7806	906	301	41157685	41236778	1	None	CBF-C, NF-YC
1	NFYC	ENSG00000066136	ENST00000372669	protein_coding	PUTATIVE	None	7806	939	312	41157962	41232359	1	None	CBF-C, NF-YC
1	NFYC	ENSG00000066136	ENST00000372652	protein_coding	KNOWN	None	7806	1320	439	41175029	41237275	1	None	CBF-C, NF-YC
1	NFYC	ENSG00000066136	ENST00000372651	protein_coding	KNOWN	CCDS455	7806	1008	335	41175215	41236612	1	None	CBF-C, NF-YC
1	NFYC	ENSG00000066136	ENST00000531464	protein_coding	KNOWN	None	7806	181	59	41200520	41215248	1	None	CBF-C, NF-YC
1	NFYC	ENSG00000066136	ENST00000440226	protein_coding	KNOWN	CCDS455	7806	1008	335	41200987	41236765	1	None	CBF-C, NF-YC
1	NFYC	ENSG00000066136	ENST00000525290	protein_coding	NOVEL	None	7806	423	140	41204506	41223831	1	None	CBF-C, NF-YC
1	NFYC	ENSG00000066136	ENST00000530965	protein_coding	NOVEL	None	7806	285	94	41204508	41218888	1	None	CBF-C, NF-YC
1	NFYC	ENSG00000066136	ENST00000416859	protein_coding	NOVEL	None	7806	539	178	41204508	41228633	1	None	CBF-C, NF-YC
1	NFYC	ENSG00000066136	ENST00000308733	protein_coding	KNOWN	None	7806	1377	458	41204510	41237275	1	None	CBF-C, NF-YC
1	NFYC	ENSG00000066136	ENST00000414185	protein_coding	PUTATIVE	None	7806	559	185	41218885	41237275	1	None	CBF-C, NF-YC
1	NFYC	ENSG00000066136	ENST00000525349	retained_intron	KNOWN	None	7806	None	None	41223625	41232354	1	None	CBF-C, NF-YC
1	NFYC	ENSG00000066136	ENST00000483091	processed_transcript	PUTATIVE	None	7806	None	None	41231762	41232603	1	None	CBF-C, NF-YC
1	NFYC	ENSG00000066136	ENST00000488635	retained_intron	KNOWN	None	7806	None	None	41234318	41236779	1	None	CBF-C, NF-YC
1	NFYC	ENSG00000066136	ENST00000496608	retained_intron	KNOWN	None	7806	None	None	41234402	41237273	1	None	CBF-C, NF-YC
3	TOPBP1	ENSG00000163781	ENST00000503338	processed_transcript	KNOWN	None	17008	None	None	133317019	133327540	-1	None	KIAA0259, TOP2BP1
3	TOPBP1	ENSG00000163781	ENST00000503464	processed_transcript	KNOWN	None	17008	None	None	133317019	133327540	-1	None	KIAA0259, TOP2BP1
3	TOPBP1	ENSG00000163781	ENST00000260810	protein_coding	KNOWN	CCDS46919	17008	4569	1522	133319417	133380737	-1	None	KIAA0259, TOP2BP1
3	TOPBP1	ENSG00000163781	ENST00000505804	retained_intron	KNOWN	None	17008	None	None	133335665	133336370	-1	None	KIAA0259, TOP2BP1
3	TOPBP1	ENSG00000163781	ENST00000513818	retained_intron	KNOWN	None	17008	None	None	133336977	133347235	-1	None	KIAA0259, TOP2BP1
3	TOPBP1	ENSG00000163781	ENST00000506779	retained_intron	KNOWN	None	17008	None	None	133346951	133347574	-1	None	KIAA0259, TOP2BP1
3	TOPBP1	ENSG00000163781	ENST00000511439	processed_transcript	KNOWN	None	17008	None	None	133362941	133375602	-1	None	KIAA0259, TOP2BP1
3	TOPBP1	ENSG00000163781	ENST00000509162	retained_intron	KNOWN	None	17008	None	None	133362957	133368786	-1	None	KIAA0259, TOP2BP1
3	TOPBP1	ENSG00000163781	ENST00000572787	nonsense_mediated_decay	KNOWN	None	17008	153	50	133368449	133372312	-1	None	KIAA0259, TOP2BP1
3	TOPBP1	ENSG00000163781	ENST00000508524	protein_coding	PUTATIVE	None	17008	618	205	133368778	133375598	-1	None	KIAA0259, TOP2BP1
X	ASMTL	ENSG00000169093	ENST00000381317	protein_coding	KNOWN	CCDS43917	751	1866	621	1522034	1571766	-1	None	None
X	ASMTL	ENSG00000169093	ENST00000381333	protein_coding	KNOWN	CCDS55363	751	1818	605	1522034	1571822	-1	None	None
X	ASMTL	ENSG00000169093	ENST00000463763	processed_transcript	KNOWN	None	751	None	None	1546620	1554284	-1	None	None
X	ASMTL	ENSG00000169093	ENST00000462195	processed_transcript	KNOWN	None	751	None	None	1550795	1554621	-1	None	None
X	ASMTL	ENSG00000169093	ENST00000474865	processed_transcript	KNOWN	None	751	None	None	1560485	1571765	-1	None	None
X	ASMTL	ENSG00000169093	ENST00000416733	protein_coding	KNOWN	None	751	1638	545	1522032	1571768	-1	None	None
X	ASMTL	ENSG00000169093	ENST00000534940	protein_coding	KNOWN	CCDS55362	751	1692	563	1522032	1572655	-1	None	None
11	TMEM80	ENSG00000177042	ENST00000397510	protein_coding	KNOWN	CCDS41587	27453	507	168	695616	703412	1	None	FLJ38216
11	TMEM80	ENSG00000177042	ENST00000397512	protein_coding	KNOWN	CCDS7711	27453	483	160	695643	704129	1	None	FLJ38216
11	TMEM80	ENSG00000177042	ENST00000526170	protein_coding	PUTATIVE	None	27453	665	220	695796	705028	1	None	FLJ38216
11	TMEM80	ENSG00000177042	ENST00000492023	retained_intron	KNOWN	None	27453	None	None	695802	704121	1	None	FLJ38216
11	TMEM80	ENSG00000177042	ENST00000488769	protein_coding	PUTATIVE	None	27453	287	94	695805	701127	1	None	FLJ38216
11	TMEM80	ENSG00000177042	ENST00000528024	processed_transcript	KNOWN	None	27453	None	None	703007	704129	1	None	FLJ38216
2	PELI1	ENSG00000197329	ENST00000358912	protein_coding	KNOWN	CCDS1876	8827	1257	418	64319786	64371588	-1	None	None
2	PELI1	ENSG00000197329	ENST00000466177	processed_transcript	KNOWN	None	8827	None	None	64327532	64371496	-1	None	None
2	PELI1	ENSG00000197329	ENST00000494203	processed_transcript	KNOWN	None	8827	None	None	64333312	64371554	-1	None	None
2	PELI1	ENSG00000197329	ENST00000468869	processed_transcript	KNOWN	None	8827	None	None	64335486	64371530	-1	None	None
1	PRKAB2	ENSG00000131791	ENST00000254101	protein_coding	KNOWN	CCDS925	9379	819	272	146626685	146644123	-1	None	None
1	PRKAB2	ENSG00000131791	ENST00000496858	processed_transcript	KNOWN	None	9379	None	None	146630798	146634089	-1	None	None
1	PRKAB2	ENSG00000131791	ENST00000474939	processed_transcript	KNOWN	None	9379	None	None	146634091	146644129	-1	None	None
1	PRKAB2	ENSG00000131791	ENST00000425272	protein_coding	KNOWN	None	9379	573	190	146631069	146644046	-1	None	None
3	DAG1	ENSG00000173402	ENST00000469139	processed_transcript	KNOWN	None	2666	None	None	49506146	49548069	1	None	A3a, 156DAG, AGRNR, DAG
3	DAG1	ENSG00000173402	ENST00000421560	protein_coding	KNOWN	None	2666	320	105	49507565	49568264	1	None	A3a, 156DAG, AGRNR, DAG
3	DAG1	ENSG00000173402	ENST00000308775	protein_coding	KNOWN	CCDS2799	2666	2688	895	49507565	49573044	1	None	A3a, 156DAG, AGRNR, DAG
3	DAG1	ENSG00000173402	ENST00000418588	protein_coding	KNOWN	None	2666	265	87	49507569	49548232	1	None	A3a, 156DAG, AGRNR, DAG
3	DAG1	ENSG00000173402	ENST00000431960	protein_coding	KNOWN	None	2666	353	116	49507680	49568297	1	None	A3a, 156DAG, AGRNR, DAG
3	DAG1	ENSG00000173402	ENST00000452317	protein_coding	KNOWN	None	2666	123	40	49507710	49548090	1	None	A3a, 156DAG, AGRNR, DAG
3	DAG1	ENSG00000173402	ENST00000435508	protein_coding	KNOWN	None	2666	157	51	49507710	49548198	1	None	A3a, 156DAG, AGRNR, DAG
3	DAG1	ENSG00000173402	ENST00000452060	protein_coding	KNOWN	None	2666	260	85	49507712	49548227	1	None	A3a, 156DAG, AGRNR, DAG
3	DAG1	ENSG00000173402	ENST00000466701	processed_transcript	KNOWN	None	2666	None	None	49507722	49547923	1	None	A3a, 156DAG, AGRNR, DAG
3	DAG1	ENSG00000173402	ENST00000428779	protein_coding	KNOWN	None	2666	287	94	49507733	49548254	1	None	A3a, 156DAG, AGRNR, DAG
3	DAG1	ENSG00000173402	ENST00000461987	processed_transcript	KNOWN	None	2666	None	None	49507735	49524848	1	None	A3a, 156DAG, AGRNR, DAG
3	DAG1	ENSG00000173402	ENST00000461492	processed_transcript	KNOWN	None	2666	None	None	49507739	49568644	1	None	A3a, 156DAG, AGRNR, DAG
3	DAG1	ENSG00000173402	ENST00000419218	protein_coding	KNOWN	None	2666	46	14	49507749	49548013	1	None	A3a, 156DAG, AGRNR, DAG
3	DAG1	ENSG00000173402	ENST00000430636	protein_coding	KNOWN	None	2666	26	7	49507752	49547993	1	None	A3a, 156DAG, AGRNR, DAG
3	DAG1	ENSG00000173402	ENST00000496474	processed_transcript	KNOWN	None	2666	None	None	49507787	49547949	1	None	A3a, 156DAG, AGRNR, DAG
3	DAG1	ENSG00000173402	ENST00000475424	processed_transcript	KNOWN	None	2666	None	None	49530149	49548174	1	None	A3a, 156DAG, AGRNR, DAG
3	DAG1	ENSG00000173402	ENST00000479935	processed_transcript	KNOWN	None	2666	None	None	49547657	49568344	1	None	A3a, 156DAG, AGRNR, DAG
3	DAG1	ENSG00000173402	ENST00000515359	protein_coding	KNOWN	CCDS2799	2666	2688	895	49506146	49573048	1	None	A3a, 156DAG, AGRNR, DAG
3	DAG1	ENSG00000173402	ENST00000545947	protein_coding	KNOWN	CCDS2799	2666	2688	895	49507565	49573048	1	None	A3a, 156DAG, AGRNR, DAG
3	DAG1	ENSG00000173402	ENST00000541308	protein_coding	KNOWN	CCDS2799	2666	2688	895	49507565	49573048	1	None	A3a, 156DAG, AGRNR, DAG
3	DAG1	ENSG00000173402	ENST00000539901	protein_coding	KNOWN	CCDS2799	2666	2688	895	49507565	49573048	1	None	A3a, 156DAG, AGRNR, DAG
3	DAG1	ENSG00000173402	ENST00000538711	protein_coding	KNOWN	CCDS2799	2666	2688	895	49507565	49573048	1	None	A3a, 156DAG, AGRNR, DAG
1	RBBP5	ENSG00000117222	ENST00000264515	protein_coding	KNOWN	CCDS30983	9888	1617	538	205055270	205091143	-1	None	RBQ3, SWD1
1	RBBP5	ENSG00000117222	ENST00000367164	protein_coding	KNOWN	CCDS53463	9888	1503	500	205055270	205091143	-1	None	RBQ3, SWD1
1	RBBP5	ENSG00000117222	ENST00000484379	processed_transcript	KNOWN	None	9888	None	None	205074215	205091094	-1	None	RBQ3, SWD1
13	ZNF965P	ENSG00000227784	ENST00000432501	processed_pseudogene	KNOWN	None	42025	None	None	19308220	19309036	1	None	None
10	FGFR2	ENSG00000066468	ENST00000358487	protein_coding	KNOWN	CCDS31298	3689	2466	821	123237855	123357598	-1	KGFR, BEK, CFD1, JWS	CEK3, TK14, TK25, ECT1, K-SAM, CD332
10	FGFR2	ENSG00000066468	ENST00000478859	protein_coding	PUTATIVE	None	3689	1782	593	123237878	123290828	-1	KGFR, BEK, CFD1, JWS	CEK3, TK14, TK25, ECT1, K-SAM, CD332
10	FGFR2	ENSG00000066468	ENST00000356226	protein_coding	KNOWN	CCDS44485	3689	2115	704	123238586	123357972	-1	KGFR, BEK, CFD1, JWS	CEK3, TK14, TK25, ECT1, K-SAM, CD332
10	FGFR2	ENSG00000066468	ENST00000369060	protein_coding	KNOWN	CCDS44487	3689	2118	705	123238732	123357812	-1	KGFR, BEK, CFD1, JWS	CEK3, TK14, TK25, ECT1, K-SAM, CD332
10	FGFR2	ENSG00000066468	ENST00000604236	nonsense_mediated_decay	KNOWN	None	3689	756	251	123238741	123357927	-1	KGFR, BEK, CFD1, JWS	CEK3, TK14, TK25, ECT1, K-SAM, CD332
10	FGFR2	ENSG00000066468	ENST00000369059	protein_coding	NOVEL	None	3689	2124	707	123239133	123357966	-1	KGFR, BEK, CFD1, JWS	CEK3, TK14, TK25, ECT1, K-SAM, CD332
10	FGFR2	ENSG00000066468	ENST00000467584	processed_transcript	KNOWN	None	3689	None	None	123239299	123239999	-1	KGFR, BEK, CFD1, JWS	CEK3, TK14, TK25, ECT1, K-SAM, CD332
10	FGFR2	ENSG00000066468	ENST00000429361	protein_coding	PUTATIVE	None	3689	1116	371	123239369	123274693	-1	KGFR, BEK, CFD1, JWS	CEK3, TK14, TK25, ECT1, K-SAM, CD332
10	FGFR2	ENSG00000066468	ENST00000346997	protein_coding	KNOWN	None	3689	2460	819	123239371	123353343	-1	KGFR, BEK, CFD1, JWS	CEK3, TK14, TK25, ECT1, K-SAM, CD332
10	FGFR2	ENSG00000066468	ENST00000457416	protein_coding	KNOWN	CCDS7620	3689	2469	822	123239371	123357917	-1	KGFR, BEK, CFD1, JWS	CEK3, TK14, TK25, ECT1, K-SAM, CD332
10	FGFR2	ENSG00000066468	ENST00000360144	protein_coding	NOVEL	CCDS44488	3689	2043	680	123241349	123357946	-1	KGFR, BEK, CFD1, JWS	CEK3, TK14, TK25, ECT1, K-SAM, CD332
10	FGFR2	ENSG00000066468	ENST00000369056	protein_coding	KNOWN	CCDS44489	3689	2310	769	123241370	123353355	-1	KGFR, BEK, CFD1, JWS	CEK3, TK14, TK25, ECT1, K-SAM, CD332
10	FGFR2	ENSG00000066468	ENST00000369058	protein_coding	PUTATIVE	None	3689	2304	767	123243212	123357748	-1	KGFR, BEK, CFD1, JWS	CEK3, TK14, TK25, ECT1, K-SAM, CD332
10	FGFR2	ENSG00000066468	ENST00000336553	protein_coding	PUTATIVE	None	3689	2008	668	123243232	123357910	-1	KGFR, BEK, CFD1, JWS	CEK3, TK14, TK25, ECT1, K-SAM, CD332
10	FGFR2	ENSG00000066468	ENST00000463870	processed_transcript	KNOWN	None	3689	None	None	123274741	123278343	-1	KGFR, BEK, CFD1, JWS	CEK3, TK14, TK25, ECT1, K-SAM, CD332
10	FGFR2	ENSG00000066468	ENST00000490349	processed_transcript	KNOWN	None	3689	None	None	123276848	123357586	-1	KGFR, BEK, CFD1, JWS	CEK3, TK14, TK25, ECT1, K-SAM, CD332
10	FGFR2	ENSG00000066468	ENST00000359354	protein_coding	KNOWN	None	3689	765	254	123297480	123357812	-1	KGFR, BEK, CFD1, JWS	CEK3, TK14, TK25, ECT1, K-SAM, CD332
10	FGFR2	ENSG00000066468	ENST00000491475	retained_intron	KNOWN	None	3689	None	None	123323838	123325425	-1	KGFR, BEK, CFD1, JWS	CEK3, TK14, TK25, ECT1, K-SAM, CD332
10	FGFR2	ENSG00000066468	ENST00000491111	processed_transcript	KNOWN	None	3689	None	None	123342816	123353667	-1	KGFR, BEK, CFD1, JWS	CEK3, TK14, TK25, ECT1, K-SAM, CD332
10	FGFR2	ENSG00000066468	ENST00000357555	protein_coding	KNOWN	CCDS53584	3689	2124	707	123237848	123356159	-1	KGFR, BEK, CFD1, JWS	CEK3, TK14, TK25, ECT1, K-SAM, CD332
10	FGFR2	ENSG00000066468	ENST00000369061	protein_coding	KNOWN	CCDS44486	3689	2130	709	123237848	123353481	-1	KGFR, BEK, CFD1, JWS	CEK3, TK14, TK25, ECT1, K-SAM, CD332
10	FGFR2	ENSG00000066468	ENST00000351936	protein_coding	KNOWN	None	3689	2358	785	123239565	123357972	-1	KGFR, BEK, CFD1, JWS	CEK3, TK14, TK25, ECT1, K-SAM, CD332
13	CYP4F34P	ENSG00000244155	ENST00000425951	unprocessed_pseudogene	KNOWN	None	39953	None	None	19315870	19316858	-1	None	CYP4F-se7[6:7:8]
13	SNX18P26	ENSG00000227568	ENST00000458433	processed_pseudogene	KNOWN	None	39634	None	None	19381419	19382158	-1	None	None
4	None	ENSG00000212045	ENST00000390756	miRNA	NOVEL	None	None	None	None	29751818	29751932	1	None	None
4	None	ENSG00000249564	ENST00000510945	processed_pseudogene	KNOWN	None	None	None	None	29909281	29909413	-1	None	None
5	None	ENSG00000250668	ENST00000514869	lincRNA	KNOWN	None	None	None	None	7347099	7348090	-1	None	None
13	LINC00328-2P	ENSG00000225016	ENST00000436585	processed_pseudogene	KNOWN	None	42027	None	None	19383970	19384188	1	NCRNA00328B, NCRNA00328-2P	None
4	None	ENSG00000244031	ENST00000472594	processed_pseudogene	KNOWN	None	None	None	None	29964266	29965380	-1	None	None
5	None	ENSG00000249638	ENST00000504765	lincRNA	KNOWN	None	None	None	None	7363092	7364644	-1	None	None
13	ANKRD20A9P	ENSG00000206192	ENST00000457997	unprocessed_pseudogene	KNOWN	None	42023	None	None	19390858	19446107	-1	None	None
3	NKIRAS1	ENSG00000197885	ENST00000388759	protein_coding	KNOWN	CCDS33717	17899	579	192	23933151	23958460	-1	None	KBRAS1, kappaB-Ras1
3	NKIRAS1	ENSG00000197885	ENST00000443659	protein_coding	KNOWN	CCDS33717	17899	579	192	23933552	23958206	-1	None	KBRAS1, kappaB-Ras1
3	NKIRAS1	ENSG00000197885	ENST00000421515	protein_coding	KNOWN	CCDS33717	17899	579	192	23933555	23988082	-1	None	KBRAS1, kappaB-Ras1
3	NKIRAS1	ENSG00000197885	ENST00000425478	protein_coding	KNOWN	CCDS33717	17899	579	192	23933572	23958556	-1	None	KBRAS1, kappaB-Ras1
3	NKIRAS1	ENSG00000197885	ENST00000437230	protein_coding	NOVEL	None	17899	579	192	23933588	23958460	-1	None	KBRAS1, kappaB-Ras1
3	NKIRAS1	ENSG00000197885	ENST00000412028	protein_coding	NOVEL	None	17899	579	192	23933798	23958454	-1	None	KBRAS1, kappaB-Ras1
3	NKIRAS1	ENSG00000197885	ENST00000415901	protein_coding	NOVEL	None	17899	579	192	23933801	23958415	-1	None	KBRAS1, kappaB-Ras1
3	NKIRAS1	ENSG00000197885	ENST00000416026	protein_coding	KNOWN	CCDS33717	17899	579	192	23934556	23958443	-1	None	KBRAS1, kappaB-Ras1
5	None	ENSG00000249865	ENST00000513219	antisense	KNOWN	None	None	None	None	7368042	7373187	-1	None	None
4	None	ENSG00000248281	ENST00000505272	processed_pseudogene	KNOWN	None	None	None	None	30008573	30009938	-1	None	None
4	None	ENSG00000249678	ENST00000509136	antisense	KNOWN	None	None	None	None	30777879	30795592	-1	None	None
13	RHOT1P3	ENSG00000242756	ENST00000436571	processed_pseudogene	KNOWN	None	37839	None	None	19411908	19412238	-1	None	None
13	None	ENSG00000227332	ENST00000418741	lincRNA	KNOWN	None	None	None	None	19433967	19434882	1	None	None
7	None	ENSG00000229424	ENST00000419326	lincRNA	KNOWN	None	None	None	None	36790292	36802686	1	None	None
11	THRSP	ENSG00000151365	ENST00000281030	protein_coding	KNOWN	CCDS8256	11800	441	146	77774907	77779397	1	LPGP1	SPOT14, Lpgp, S14, THRP
10	FBXO18	ENSG00000134452	ENST00000362091	protein_coding	KNOWN	CCDS7072	13620	3132	1043	5932194	5979556	1	None	FBH1, FLJ14590, Fbx18
10	FBXO18	ENSG00000134452	ENST00000470089	processed_transcript	KNOWN	None	13620	None	None	5932211	5952917	1	None	FBH1, FLJ14590, Fbx18
10	FBXO18	ENSG00000134452	ENST00000462507	processed_transcript	KNOWN	None	13620	None	None	5932243	5948584	1	None	FBH1, FLJ14590, Fbx18
10	FBXO18	ENSG00000134452	ENST00000379999	protein_coding	KNOWN	CCDS7073	13620	3285	1094	5936349	5979556	1	None	FBH1, FLJ14590, Fbx18
10	FBXO18	ENSG00000134452	ENST00000469009	processed_transcript	KNOWN	None	13620	None	None	5945129	5951200	1	None	FBH1, FLJ14590, Fbx18
10	FBXO18	ENSG00000134452	ENST00000494526	processed_transcript	KNOWN	None	13620	None	None	5948469	5951441	1	None	FBH1, FLJ14590, Fbx18
10	FBXO18	ENSG00000134452	ENST00000379994	protein_coding	KNOWN	None	13620	1215	404	5948550	5979556	1	None	FBH1, FLJ14590, Fbx18
10	FBXO18	ENSG00000134452	ENST00000460453	processed_transcript	KNOWN	None	13620	None	None	5956141	5957907	1	None	FBH1, FLJ14590, Fbx18
10	FBXO18	ENSG00000134452	ENST00000489042	processed_transcript	KNOWN	None	13620	None	None	5959025	5959584	1	None	FBH1, FLJ14590, Fbx18
10	FBXO18	ENSG00000134452	ENST00000475867	processed_transcript	KNOWN	None	13620	None	None	5963309	5966361	1	None	FBH1, FLJ14590, Fbx18
10	FBXO18	ENSG00000134452	ENST00000461504	processed_transcript	KNOWN	None	13620	None	None	5963317	5979091	1	None	FBH1, FLJ14590, Fbx18
10	FBXO18	ENSG00000134452	ENST00000485290	processed_transcript	KNOWN	None	13620	None	None	5965534	5969481	1	None	FBH1, FLJ14590, Fbx18
10	FBXO18	ENSG00000134452	ENST00000496013	processed_transcript	KNOWN	None	13620	None	None	5967227	5969504	1	None	FBH1, FLJ14590, Fbx18
10	FBXO18	ENSG00000134452	ENST00000479433	processed_transcript	KNOWN	None	13620	None	None	5967374	5970636	1	None	FBH1, FLJ14590, Fbx18
10	FBXO18	ENSG00000134452	ENST00000470353	processed_transcript	KNOWN	None	13620	None	None	5967374	5971829	1	None	FBH1, FLJ14590, Fbx18
10	FBXO18	ENSG00000134452	ENST00000481029	processed_transcript	KNOWN	None	13620	None	None	5978596	5979474	1	None	FBH1, FLJ14590, Fbx18
10	FBXO18	ENSG00000134452	ENST00000397269	protein_coding	KNOWN	None	13620	1644	547	5931535	5979549	1	None	FBH1, FLJ14590, Fbx18
5	HMGCR	ENSG00000113161	ENST00000511206	protein_coding	KNOWN	CCDS4027	5006	2667	888	74632154	74656583	1	None	None
5	HMGCR	ENSG00000113161	ENST00000287936	protein_coding	KNOWN	CCDS4027	5006	2667	888	74632993	74657929	1	None	None
5	HMGCR	ENSG00000113161	ENST00000343975	protein_coding	KNOWN	CCDS47234	5006	2508	835	74633057	74657248	1	None	None
5	HMGCR	ENSG00000113161	ENST00000509431	retained_intron	KNOWN	None	5006	None	None	74633071	74639855	1	None	None
5	HMGCR	ENSG00000113161	ENST00000507942	protein_coding	KNOWN	None	5006	333	110	74633958	74640125	1	None	None
5	HMGCR	ENSG00000113161	ENST00000442032	protein_coding	KNOWN	None	5006	55	17	74635357	74638485	1	None	None
5	HMGCR	ENSG00000113161	ENST00000504466	retained_intron	KNOWN	None	5006	None	None	74645688	74647435	1	None	None
5	HMGCR	ENSG00000113161	ENST00000515776	retained_intron	KNOWN	None	5006	None	None	74650133	74650991	1	None	None
5	HMGCR	ENSG00000113161	ENST00000508070	retained_intron	KNOWN	None	5006	None	None	74651005	74652274	1	None	None
5	HMGCR	ENSG00000113161	ENST00000509085	protein_coding	PUTATIVE	None	5006	497	164	74654507	74656307	1	None	None
5	HMGCR	ENSG00000113161	ENST00000511986	protein_coding	PUTATIVE	None	5006	348	115	74654515	74656306	1	None	None
5	HMGCR	ENSG00000113161	ENST00000514315	retained_intron	KNOWN	None	5006	None	None	74654555	74655586	1	None	None
5	HMGCR	ENSG00000113161	ENST00000512053	retained_intron	KNOWN	None	5006	None	None	74655742	74656354	1	None	None
7	None	ENSG00000235728	ENST00000415356	lincRNA	KNOWN	None	None	None	None	36820613	36822394	1	None	None
16	RNF166	ENSG00000158717	ENST00000312838	protein_coding	KNOWN	CCDS10969	28856	714	237	88762903	88772829	-1	None	MGC2647, MGC14381
16	RNF166	ENSG00000158717	ENST00000567408	protein_coding	PUTATIVE	None	28856	139	45	88762907	88766114	-1	None	MGC2647, MGC14381
16	RNF166	ENSG00000158717	ENST00000562544	protein_coding	PUTATIVE	None	28856	447	148	88762907	88772670	-1	None	MGC2647, MGC14381
16	RNF166	ENSG00000158717	ENST00000537718	protein_coding	KNOWN	CCDS54056	28856	387	128	88762910	88767011	-1	None	MGC2647, MGC14381
16	RNF166	ENSG00000158717	ENST00000541206	protein_coding	KNOWN	CCDS54056	28856	387	128	88762944	88770025	-1	None	MGC2647, MGC14381
16	RNF166	ENSG00000158717	ENST00000565083	processed_transcript	KNOWN	None	28856	None	None	88763704	88764591	-1	None	MGC2647, MGC14381
16	RNF166	ENSG00000158717	ENST00000568683	protein_coding	PUTATIVE	None	28856	498	165	88763802	88766464	-1	None	MGC2647, MGC14381
16	RNF166	ENSG00000158717	ENST00000567844	protein_coding	KNOWN	CCDS54057	28856	471	156	88763887	88772806	-1	None	MGC2647, MGC14381
16	RNF166	ENSG00000158717	ENST00000564894	processed_transcript	KNOWN	None	28856	None	None	88767164	88768058	-1	None	MGC2647, MGC14381
16	RNF166	ENSG00000158717	ENST00000562499	processed_transcript	KNOWN	None	28856	None	None	88767705	88770010	-1	None	MGC2647, MGC14381
16	RNF166	ENSG00000158717	ENST00000569478	processed_transcript	KNOWN	None	28856	None	None	88767725	88769649	-1	None	MGC2647, MGC14381
3	ARIH2OS	ENSG00000221883	ENST00000408959	protein_coding	KNOWN	CCDS43088	34425	873	290	48955221	48956818	-1	C3orf71	None
4	RAB33B	ENSG00000172007	ENST00000507271	processed_transcript	KNOWN	None	16075	None	None	140374386	140375439	1	None	DKFZP434G099
4	RAB33B	ENSG00000172007	ENST00000305626	protein_coding	KNOWN	CCDS3747	16075	690	229	140374961	140397763	1	None	DKFZP434G099
1	FMO5	ENSG00000131781	ENST00000527849	nonsense_mediated_decay	KNOWN	None	3773	837	278	146646930	146714700	-1	None	None
1	FMO5	ENSG00000131781	ENST00000441068	protein_coding	KNOWN	CCDS44209	3773	1395	464	146655884	146696945	-1	None	None
1	FMO5	ENSG00000131781	ENST00000254090	protein_coding	KNOWN	CCDS926	3773	1602	533	146657838	146697230	-1	None	None
1	FMO5	ENSG00000131781	ENST00000369272	protein_coding	KNOWN	CCDS44210	3773	858	285	146657840	146696901	-1	None	None
1	FMO5	ENSG00000131781	ENST00000465173	processed_transcript	KNOWN	None	3773	None	None	146679999	146697220	-1	None	None
1	FMO5	ENSG00000131781	ENST00000533174	protein_coding	KNOWN	None	3773	576	191	146684015	146697223	-1	None	None
1	FMO5	ENSG00000131781	ENST00000533848	protein_coding	KNOWN	None	3773	436	144	146684926	146697465	-1	None	None
1	FMO5	ENSG00000131781	ENST00000478432	processed_transcript	KNOWN	None	3773	None	None	146686352	146696931	-1	None	None
17	GAA	ENSG00000171298	ENST00000570803	protein_coding	KNOWN	None	4065	854	283	78075355	78081517	1	None	None
17	GAA	ENSG00000171298	ENST00000577106	protein_coding	KNOWN	None	4065	626	207	78075386	78079627	1	None	None
17	GAA	ENSG00000171298	ENST00000390015	protein_coding	KNOWN	CCDS32760	4065	2859	952	78075393	78093676	1	None	None
17	GAA	ENSG00000171298	ENST00000574376	processed_transcript	KNOWN	None	4065	None	None	78075396	78076532	1	None	None
17	GAA	ENSG00000171298	ENST00000302262	protein_coding	KNOWN	CCDS32760	4065	2859	952	78075503	78093678	1	None	None
17	GAA	ENSG00000171298	ENST00000572080	nonsense_mediated_decay	KNOWN	None	4065	281	92	78084801	78090881	1	None	None
17	GAA	ENSG00000171298	ENST00000572803	retained_intron	KNOWN	None	4065	None	None	78085532	78086747	1	None	None
17	GAA	ENSG00000171298	ENST00000570716	retained_intron	KNOWN	None	4065	None	None	78086183	78087070	1	None	None
17	GAA	ENSG00000171298	ENST00000573556	retained_intron	KNOWN	None	4065	None	None	78090625	78093074	1	None	None
19	ZNF347	ENSG00000197937	ENST00000601804	protein_coding	PUTATIVE	None	16447	105	34	53627325	53662306	-1	None	ZNF1111
19	ZNF347	ENSG00000197937	ENST00000334197	protein_coding	KNOWN	CCDS33097	16447	2520	839	53641957	53662284	-1	None	ZNF1111
19	ZNF347	ENSG00000197937	ENST00000601469	protein_coding	KNOWN	CCDS54314	16447	2523	840	53643363	53662306	-1	None	ZNF1111
19	ZNF347	ENSG00000197937	ENST00000597183	protein_coding	PUTATIVE	None	16447	376	124	53645531	53662300	-1	None	ZNF1111
19	ZNF347	ENSG00000197937	ENST00000595967	protein_coding	PUTATIVE	None	16447	306	101	53645667	53652788	-1	None	ZNF1111
19	ZNF347	ENSG00000197937	ENST00000595710	retained_intron	KNOWN	None	16447	None	None	53652145	53662328	-1	None	ZNF1111
19	ZNF347	ENSG00000197937	ENST00000599096	protein_coding	KNOWN	None	16447	104	33	53652532	53662257	-1	None	ZNF1111
19	ZNF347	ENSG00000197937	ENST00000452676	protein_coding	KNOWN	CCDS54314	16447	2523	840	53641958	53662313	-1	None	ZNF1111
7	NPM1P18	ENSG00000225739	ENST00000434232	processed_pseudogene	KNOWN	None	7920	None	None	36858564	36859295	1	None	None
15	ATP8B4	ENSG00000104043	ENST00000558498	protein_coding	NOVEL	None	13536	851	282	50150435	50168892	-1	None	ATPIM, KIAA1939
15	ATP8B4	ENSG00000104043	ENST00000559726	nonsense_mediated_decay	KNOWN	None	13536	369	122	50150436	50405513	-1	None	ATPIM, KIAA1939
15	ATP8B4	ENSG00000104043	ENST00000559829	protein_coding	KNOWN	CCDS32238	13536	3579	1192	50151197	50406701	-1	None	ATPIM, KIAA1939
15	ATP8B4	ENSG00000104043	ENST00000560479	protein_coding	NOVEL	None	13536	1487	494	50151199	50200290	-1	None	ATPIM, KIAA1939
15	ATP8B4	ENSG00000104043	ENST00000557955	nonsense_mediated_decay	KNOWN	None	13536	2154	717	50151836	50411415	-1	None	ATPIM, KIAA1939
15	ATP8B4	ENSG00000104043	ENST00000558906	nonsense_mediated_decay	KNOWN	None	13536	369	122	50151836	50411423	-1	None	ATPIM, KIAA1939
15	ATP8B4	ENSG00000104043	ENST00000558203	retained_intron	KNOWN	None	13536	None	None	50152411	50171785	-1	None	ATPIM, KIAA1939
15	ATP8B4	ENSG00000104043	ENST00000560354	retained_intron	KNOWN	None	13536	None	None	50152654	50168803	-1	None	ATPIM, KIAA1939
15	ATP8B4	ENSG00000104043	ENST00000560161	processed_transcript	KNOWN	None	13536	None	None	50175356	50190418	-1	None	ATPIM, KIAA1939
15	ATP8B4	ENSG00000104043	ENST00000561385	retained_intron	KNOWN	None	13536	None	None	50187089	50194480	-1	None	ATPIM, KIAA1939
15	ATP8B4	ENSG00000104043	ENST00000559998	retained_intron	KNOWN	None	13536	None	None	50189632	50209473	-1	None	ATPIM, KIAA1939
15	ATP8B4	ENSG00000104043	ENST00000561104	retained_intron	KNOWN	None	13536	None	None	50190343	50209467	-1	None	ATPIM, KIAA1939
15	ATP8B4	ENSG00000104043	ENST00000558458	nonsense_mediated_decay	KNOWN	None	13536	253	83	50212471	50223431	-1	None	ATPIM, KIAA1939
15	ATP8B4	ENSG00000104043	ENST00000558959	processed_transcript	KNOWN	None	13536	None	None	50271803	50336871	-1	None	ATPIM, KIAA1939
15	ATP8B4	ENSG00000104043	ENST00000560437	processed_transcript	PUTATIVE	None	13536	None	None	50279709	50411654	-1	None	ATPIM, KIAA1939
15	ATP8B4	ENSG00000104043	ENST00000558024	protein_coding	PUTATIVE	None	13536	286	94	50301469	50339584	-1	None	ATPIM, KIAA1939
15	ATP8B4	ENSG00000104043	ENST00000558829	protein_coding	KNOWN	None	13536	160	52	50339589	50475014	-1	None	ATPIM, KIAA1939
15	ATP8B4	ENSG00000104043	ENST00000284509	protein_coding	KNOWN	CCDS32238	13536	3579	1192	50150435	50411419	-1	None	ATPIM, KIAA1939
22	MORC2	ENSG00000133422	ENST00000397641	protein_coding	KNOWN	None	23573	3099	1032	31322596	31364284	-1	ZCWCC1	ZCW3, KIAA0852, AC004542.C22.1
22	MORC2	ENSG00000133422	ENST00000429468	protein_coding	NOVEL	None	23573	270	89	31322598	31324215	-1	ZCWCC1	ZCW3, KIAA0852, AC004542.C22.1
22	MORC2	ENSG00000133422	ENST00000445980	protein_coding	NOVEL	None	23573	574	190	31322598	31328881	-1	ZCWCC1	ZCW3, KIAA0852, AC004542.C22.1
22	MORC2	ENSG00000133422	ENST00000215862	protein_coding	PUTATIVE	CCDS33636	23573	2913	970	31322598	31364187	-1	ZCWCC1	ZCW3, KIAA0852, AC004542.C22.1
22	MORC2	ENSG00000133422	ENST00000469915	processed_transcript	KNOWN	None	23573	None	None	31332565	31338238	-1	ZCWCC1	ZCW3, KIAA0852, AC004542.C22.1
22	MORC2	ENSG00000133422	ENST00000476152	retained_intron	KNOWN	None	23573	None	None	31337887	31354870	-1	ZCWCC1	ZCW3, KIAA0852, AC004542.C22.1
5	None	ENSG00000223597	ENST00000500616	lincRNA	KNOWN	None	None	None	None	7373230	7379903	1	None	None
5	None	ENSG00000250761	ENST00000514105	antisense	KNOWN	None	None	None	None	7707915	7749879	-1	None	None
5	None	ENSG00000251168	ENST00000511758	lincRNA	KNOWN	None	None	None	None	7924405	7925511	1	None	None
5	RNU1-76P	ENSG00000199773	ENST00000362903	snRNA	KNOWN	None	48418	None	None	7980259	7980417	1	None	None
16	PRSS36	ENSG00000178226	ENST00000268281	protein_coding	KNOWN	CCDS32436	26906	2568	855	31150246	31161415	-1	None	FLJ90661
16	PRSS36	ENSG00000178226	ENST00000562368	retained_intron	KNOWN	None	26906	None	None	31150249	31160855	-1	None	FLJ90661
16	PRSS36	ENSG00000178226	ENST00000418068	protein_coding	NOVEL	CCDS58452	26906	2259	752	31150303	31161387	-1	None	FLJ90661
16	PRSS36	ENSG00000178226	ENST00000569305	protein_coding	NOVEL	CCDS58453	26906	2553	850	31150315	31161382	-1	None	FLJ90661
16	PRSS36	ENSG00000178226	ENST00000571878	nonsense_mediated_decay	KNOWN	None	26906	86	27	31150388	31152055	-1	None	FLJ90661
16	PRSS36	ENSG00000178226	ENST00000563693	retained_intron	KNOWN	None	26906	None	None	31152785	31154179	-1	None	FLJ90661
16	PRSS36	ENSG00000178226	ENST00000569614	retained_intron	KNOWN	None	26906	None	None	31159787	31160855	-1	None	FLJ90661
16	PRSS36	ENSG00000178226	ENST00000561897	retained_intron	KNOWN	None	26906	None	None	31160422	31161329	-1	None	FLJ90661
16	PRSS36	ENSG00000178226	ENST00000562390	retained_intron	KNOWN	None	26906	None	None	31160593	31161404	-1	None	FLJ90661
1	DSTYK	ENSG00000133059	ENST00000367161	protein_coding	KNOWN	CCDS1452	29043	2655	884	205111633	205180694	-1	RIPK5	KIAA0472, DustyPK, RIP5
1	DSTYK	ENSG00000133059	ENST00000367162	protein_coding	KNOWN	CCDS1451	29043	2790	929	205111633	205180694	-1	RIPK5	KIAA0472, DustyPK, RIP5
1	DSTYK	ENSG00000133059	ENST00000367160	protein_coding	KNOWN	None	29043	1767	588	205111632	205180727	-1	RIPK5	KIAA0472, DustyPK, RIP5
10	TMEM161BP1	ENSG00000237970	ENST00000457388	processed_pseudogene	KNOWN	None	44973	None	None	37626343	37627799	1	None	None
5	None	ENSG00000249486	ENST00000511351	unprocessed_pseudogene	KNOWN	None	None	None	None	8157654	8157901	-1	None	None
5	None	ENSG00000245729	ENST00000501071	lincRNA	KNOWN	None	None	None	None	8333596	8457671	-1	None	None
11	NDUFC2	ENSG00000151366	ENST00000281031	protein_coding	KNOWN	CCDS8257	7706	360	119	77779350	77791265	-1	None	B14.5b, HLC-1
11	NDUFC2	ENSG00000151366	ENST00000527806	protein_coding	PUTATIVE	CCDS55781	7706	267	88	77779395	77790887	-1	None	B14.5b, HLC-1
11	NDUFC2	ENSG00000151366	ENST00000534029	protein_coding	NOVEL	None	7706	216	71	77780902	77790865	-1	None	B14.5b, HLC-1
11	NDUFC2	ENSG00000151366	ENST00000525085	protein_coding	NOVEL	CCDS55779	7706	291	96	77780904	77790865	-1	None	B14.5b, HLC-1
11	NDUFC2	ENSG00000151366	ENST00000528164	protein_coding	PUTATIVE	None	7706	324	107	77783910	77790907	-1	None	B14.5b, HLC-1
7	None	ENSG00000230831	ENST00000439998	antisense	KNOWN	None	None	None	None	36878577	36880978	1	None	None
5	None	ENSG00000249159	ENST00000512406	lincRNA	KNOWN	None	None	None	None	8387751	8457677	-1	None	None
5	None	ENSG00000249159	ENST00000607662	lincRNA	KNOWN	None	None	None	None	8446214	8457645	-1	None	None
5	None	ENSG00000251549	ENST00000506236	unprocessed_pseudogene	KNOWN	None	None	None	None	8410902	8411109	-1	None	None
7	MIR1200	ENSG00000221325	ENST00000408398	miRNA	KNOWN	None	35266	None	None	36958962	36959037	-1	MIRN1200	hsa-mir-1200
2	LGALSL	ENSG00000119862	ENST00000464281	protein_coding	KNOWN	None	25012	375	124	64681103	64683599	1	None	HSPC159, GRP
2	LGALSL	ENSG00000119862	ENST00000238875	protein_coding	KNOWN	CCDS1877	25012	519	172	64681226	64688515	1	None	HSPC159, GRP
2	LGALSL	ENSG00000119862	ENST00000462737	nonsense_mediated_decay	KNOWN	None	25012	162	53	64681581	64685574	1	None	HSPC159, GRP
2	LGALSL	ENSG00000119862	ENST00000420552	nonsense_mediated_decay	KNOWN	None	25012	234	77	64681655	64685546	1	None	HSPC159, GRP
2	LGALSL	ENSG00000119862	ENST00000409537	protein_coding	PUTATIVE	None	25012	303	100	64681676	64688515	1	None	HSPC159, GRP
10	VN1R53P	ENSG00000236313	ENST00000429536	processed_pseudogene	KNOWN	None	37373	None	None	37637544	37638500	1	None	None
6	STK19	ENSG00000204344	ENST00000466132	retained_intron	KNOWN	None	11398	None	None	31938868	31949223	1	None	D6S60, G11, RP1
6	STK19	ENSG00000204344	ENST00000460018	protein_coding	KNOWN	None	11398	338	111	31938943	31940196	1	None	D6S60, G11, RP1
6	STK19	ENSG00000204344	ENST00000479644	retained_intron	KNOWN	None	11398	None	None	31939608	31941153	1	None	D6S60, G11, RP1
6	STK19	ENSG00000204344	ENST00000375331	protein_coding	KNOWN	CCDS34417	11398	1095	364	31939608	31949228	1	None	D6S60, G11, RP1
6	STK19	ENSG00000204344	ENST00000492583	retained_intron	KNOWN	None	11398	None	None	31939676	31948941	1	None	D6S60, G11, RP1
6	STK19	ENSG00000204344	ENST00000375333	protein_coding	KNOWN	CCDS4733	11398	1107	368	31939721	31949223	1	None	D6S60, G11, RP1
6	STK19	ENSG00000204344	ENST00000473983	retained_intron	KNOWN	None	11398	None	None	31940117	31948986	1	None	D6S60, G11, RP1
6	STK19	ENSG00000204344	ENST00000478486	retained_intron	KNOWN	None	11398	None	None	31940129	31947394	1	None	D6S60, G11, RP1
6	STK19	ENSG00000204344	ENST00000463823	processed_transcript	KNOWN	None	11398	None	None	31940151	31947499	1	None	D6S60, G11, RP1
6	STK19	ENSG00000204344	ENST00000483801	nonsense_mediated_decay	KNOWN	None	11398	211	69	31940158	31949206	1	None	D6S60, G11, RP1
6	STK19	ENSG00000204344	ENST00000519179	nonsense_mediated_decay	KNOWN	None	11398	211	69	31940158	31950598	1	None	D6S60, G11, RP1
6	STK19	ENSG00000204344	ENST00000466336	processed_transcript	KNOWN	None	11398	None	None	31940174	31948501	1	None	D6S60, G11, RP1
6	STK19	ENSG00000204344	ENST00000471028	retained_intron	KNOWN	None	11398	None	None	31940312	31947390	1	None	D6S60, G11, RP1
6	STK19	ENSG00000204344	ENST00000491861	retained_intron	KNOWN	None	11398	None	None	31940332	31949223	1	None	D6S60, G11, RP1
6	STK19	ENSG00000204344	ENST00000484540	retained_intron	KNOWN	None	11398	None	None	31940355	31947639	1	None	D6S60, G11, RP1
6	STK19	ENSG00000204344	ENST00000469907	retained_intron	KNOWN	None	11398	None	None	31940359	31948966	1	None	D6S60, G11, RP1
6	STK19	ENSG00000204344	ENST00000490822	retained_intron	KNOWN	None	11398	None	None	31948168	31949223	1	None	D6S60, G11, RP1
7	ELMO1-AS1	ENSG00000224101	ENST00000419535	antisense	KNOWN	None	40765	None	None	37037401	37053235	1	None	None
13	RNU6-55P	ENSG00000223024	ENST00000411092	snRNA	KNOWN	None	42545	None	None	19443325	19443431	-1	RNU6-55	None
1	KCNQ4	ENSG00000117013	ENST00000347132	protein_coding	KNOWN	CCDS456	6298	2088	695	41249684	41306124	1	DFNA2	Kv7.4
1	KCNQ4	ENSG00000117013	ENST00000509682	protein_coding	NOVEL	None	6298	1926	641	41249766	41304195	1	DFNA2	Kv7.4
1	KCNQ4	ENSG00000117013	ENST00000443478	protein_coding	NOVEL	None	6298	1669	555	41282937	41304961	1	DFNA2	Kv7.4
1	KCNQ4	ENSG00000117013	ENST00000506017	processed_transcript	KNOWN	None	6298	None	None	41284636	41306123	1	DFNA2	Kv7.4
13	RNU6-76P	ENSG00000206787	ENST00000384060	snRNA	KNOWN	None	42566	None	None	19454194	19454297	1	RNU6-76	None
13	SNX19P2	ENSG00000235500	ENST00000452841	processed_pseudogene	KNOWN	None	38115	None	None	19466400	19469370	-1	None	None
HSCHR6_MHC_DBB	PRRC2A	ENSG00000231370	ENST00000439762	protein_coding	KNOWN	None	13918	6474	2157	31570672	31587723	1	BAT2	G2, D6S51E
HSCHR6_MHC_DBB	PRRC2A	ENSG00000231370	ENST00000473169	processed_transcript	KNOWN	None	13918	None	None	31570676	31576814	1	BAT2	G2, D6S51E
HSCHR6_MHC_DBB	PRRC2A	ENSG00000231370	ENST00000416335	protein_coding	KNOWN	None	13918	6474	2157	31570677	31587723	1	BAT2	G2, D6S51E
HSCHR6_MHC_DBB	PRRC2A	ENSG00000231370	ENST00000462508	retained_intron	KNOWN	None	13918	None	None	31574854	31575449	1	BAT2	G2, D6S51E
HSCHR6_MHC_DBB	PRRC2A	ENSG00000231370	ENST00000466203	retained_intron	KNOWN	None	13918	None	None	31575706	31577026	1	BAT2	G2, D6S51E
HSCHR6_MHC_DBB	PRRC2A	ENSG00000231370	ENST00000466339	retained_intron	KNOWN	None	13918	None	None	31578592	31579720	1	BAT2	G2, D6S51E
HSCHR6_MHC_DBB	PRRC2A	ENSG00000231370	ENST00000462547	retained_intron	KNOWN	None	13918	None	None	31583906	31584708	1	BAT2	G2, D6S51E
HSCHR6_MHC_DBB	PRRC2A	ENSG00000231370	ENST00000469943	retained_intron	KNOWN	None	13918	None	None	31584359	31585268	1	BAT2	G2, D6S51E
HSCHR6_MHC_DBB	PRRC2A	ENSG00000231370	ENST00000487442	retained_intron	KNOWN	None	13918	None	None	31585194	31585661	1	BAT2	G2, D6S51E
HSCHR6_MHC_DBB	PRRC2A	ENSG00000231370	ENST00000493573	retained_intron	KNOWN	None	13918	None	None	31585312	31586202	1	BAT2	G2, D6S51E
HSCHR6_MHC_DBB	PRRC2A	ENSG00000231370	ENST00000496540	retained_intron	KNOWN	None	13918	None	None	31585328	31586763	1	BAT2	G2, D6S51E
HSCHR6_MHC_DBB	PRRC2A	ENSG00000231370	ENST00000468109	retained_intron	KNOWN	None	13918	None	None	31586199	31587723	1	BAT2	G2, D6S51E
HSCHR6_MHC_DBB	PRRC2A	ENSG00000231370	ENST00000476928	retained_intron	KNOWN	None	13918	None	None	31586488	31587723	1	BAT2	G2, D6S51E
HSCHR6_MHC_DBB	PRRC2A	ENSG00000231370	ENST00000488326	retained_intron	KNOWN	None	13918	None	None	31586787	31587723	1	BAT2	G2, D6S51E
HSCHR6_MHC_DBB	PRRC2A	ENSG00000231370	ENST00000550674	protein_coding	KNOWN	None	13918	6450	2149	31570625	31587712	1	BAT2	G2, D6S51E
HSCHR6_MHC_DBB	PRRC2A	ENSG00000231370	ENST00000548373	protein_coding	KNOWN	None	13918	6417	2138	31570625	31587712	1	BAT2	G2, D6S51E
13	None	ENSG00000226250	ENST00000447784	lincRNA	KNOWN	None	None	None	None	19479579	19481950	1	None	None
13	None	ENSG00000231358	ENST00000422082	lincRNA	KNOWN	None	None	None	None	19496029	19497905	-1	None	None
13	PHF2P2	ENSG00000226057	ENST00000444553	transcribed_unprocessed_pseudogene	KNOWN	None	38808	None	None	19520895	19636858	-1	None	None
13	PHF2P2	ENSG00000226057	ENST00000416576	processed_transcript	KNOWN	None	38808	None	None	19521042	19526727	-1	None	None
19	SUPT5H	ENSG00000196235	ENST00000594990	protein_coding	KNOWN	None	11469	162	53	39926796	39944082	1	None	SPT5H, SPT5, FLJ34157
19	SUPT5H	ENSG00000196235	ENST00000599117	protein_coding	KNOWN	CCDS12536	11469	3264	1087	39932283	39967310	1	None	SPT5H, SPT5, FLJ34157
19	SUPT5H	ENSG00000196235	ENST00000601515	protein_coding	KNOWN	None	11469	307	101	39936198	39948380	1	None	SPT5H, SPT5, FLJ34157
19	SUPT5H	ENSG00000196235	ENST00000595368	retained_intron	KNOWN	None	11469	None	None	39936222	39948589	1	None	SPT5H, SPT5, FLJ34157
19	SUPT5H	ENSG00000196235	ENST00000594729	protein_coding	KNOWN	None	11469	307	101	39936233	39948380	1	None	SPT5H, SPT5, FLJ34157
19	SUPT5H	ENSG00000196235	ENST00000601978	retained_intron	KNOWN	None	11469	None	None	39936248	39948572	1	None	SPT5H, SPT5, FLJ34157
19	SUPT5H	ENSG00000196235	ENST00000359191	protein_coding	KNOWN	CCDS46072	11469	3252	1083	39936284	39967310	1	None	SPT5H, SPT5, FLJ34157
19	SUPT5H	ENSG00000196235	ENST00000598725	protein_coding	KNOWN	CCDS12536	11469	3264	1087	39936324	39967310	1	None	SPT5H, SPT5, FLJ34157
19	SUPT5H	ENSG00000196235	ENST00000598459	retained_intron	KNOWN	None	11469	None	None	39948315	39950765	1	None	SPT5H, SPT5, FLJ34157
19	SUPT5H	ENSG00000196235	ENST00000593727	protein_coding	NOVEL	None	11469	493	163	39948341	39957360	1	None	SPT5H, SPT5, FLJ34157
19	SUPT5H	ENSG00000196235	ENST00000598786	retained_intron	KNOWN	None	11469	None	None	39948816	39949682	1	None	SPT5H, SPT5, FLJ34157
19	SUPT5H	ENSG00000196235	ENST00000599907	retained_intron	KNOWN	None	11469	None	None	39948992	39955525	1	None	SPT5H, SPT5, FLJ34157
19	SUPT5H	ENSG00000196235	ENST00000598520	retained_intron	KNOWN	None	11469	None	None	39957113	39957731	1	None	SPT5H, SPT5, FLJ34157
19	SUPT5H	ENSG00000196235	ENST00000599335	retained_intron	KNOWN	None	11469	None	None	39958094	39965865	1	None	SPT5H, SPT5, FLJ34157
19	SUPT5H	ENSG00000196235	ENST00000598117	retained_intron	KNOWN	None	11469	None	None	39960203	39961163	1	None	SPT5H, SPT5, FLJ34157
19	SUPT5H	ENSG00000196235	ENST00000596208	retained_intron	KNOWN	None	11469	None	None	39962081	39962504	1	None	SPT5H, SPT5, FLJ34157
19	SUPT5H	ENSG00000196235	ENST00000600818	retained_intron	KNOWN	None	11469	None	None	39966514	39967310	1	None	SPT5H, SPT5, FLJ34157
19	SUPT5H	ENSG00000196235	ENST00000432763	protein_coding	KNOWN	CCDS12536	11469	3264	1087	39936186	39967306	1	None	SPT5H, SPT5, FLJ34157
19	SUPT5H	ENSG00000196235	ENST00000402194	protein_coding	KNOWN	CCDS46072	11469	3252	1083	39936186	39967306	1	None	SPT5H, SPT5, FLJ34157
22	PPP6R2	ENSG00000100239	ENST00000359139	protein_coding	KNOWN	CCDS56236	19253	2784	927	50781733	50883514	1	KIAA0685, SAPS2	dJ579N16.1, SAP190
22	PPP6R2	ENSG00000100239	ENST00000395741	protein_coding	KNOWN	CCDS56235	19253	2802	933	50781752	50882803	1	KIAA0685, SAPS2	dJ579N16.1, SAP190
22	PPP6R2	ENSG00000100239	ENST00000395744	protein_coding	KNOWN	CCDS33681	19253	2799	932	50781760	50882803	1	KIAA0685, SAPS2	dJ579N16.1, SAP190
22	PPP6R2	ENSG00000100239	ENST00000216061	protein_coding	KNOWN	None	19253	2901	966	50810501	50882820	1	KIAA0685, SAPS2	dJ579N16.1, SAP190
22	PPP6R2	ENSG00000100239	ENST00000401672	protein_coding	NOVEL	None	19253	2056	684	50857871	50882819	1	KIAA0685, SAPS2	dJ579N16.1, SAP190
22	PPP6R2	ENSG00000100239	ENST00000427222	protein_coding	NOVEL	None	19253	1687	561	50862034	50882800	1	KIAA0685, SAPS2	dJ579N16.1, SAP190
22	PPP6R2	ENSG00000100239	ENST00000473283	retained_intron	KNOWN	None	19253	None	None	50878182	50879503	1	KIAA0685, SAPS2	dJ579N16.1, SAP190
22	PPP6R2	ENSG00000100239	ENST00000470046	retained_intron	KNOWN	None	19253	None	None	50881516	50882807	1	KIAA0685, SAPS2	dJ579N16.1, SAP190
13	LINC00442	ENSG00000232685	ENST00000456737	antisense	KNOWN	None	42779	None	None	19582399	19586699	1	None	None
13	LINC00442	ENSG00000232685	ENST00000428086	antisense	KNOWN	None	42779	None	None	19582404	19585989	1	None	None
13	LINC00442	ENSG00000232685	ENST00000542070	antisense	KNOWN	None	42779	None	None	19582399	19586157	1	None	None
3	ARIH2	ENSG00000177479	ENST00000452882	protein_coding	PUTATIVE	None	690	323	106	48956254	48999112	1	None	TRIAD1
3	ARIH2	ENSG00000177479	ENST00000430423	protein_coding	PUTATIVE	None	690	414	137	48956254	49004584	1	None	TRIAD1
3	ARIH2	ENSG00000177479	ENST00000478224	processed_transcript	KNOWN	None	690	None	None	48956254	49004708	1	None	TRIAD1
3	ARIH2	ENSG00000177479	ENST00000356401	protein_coding	KNOWN	CCDS2780	690	1482	493	48956254	49023815	1	None	TRIAD1
3	ARIH2	ENSG00000177479	ENST00000498314	processed_transcript	KNOWN	None	690	None	None	48956256	49008099	1	None	TRIAD1
3	ARIH2	ENSG00000177479	ENST00000474618	processed_transcript	KNOWN	None	690	None	None	48956262	49002415	1	None	TRIAD1
3	ARIH2	ENSG00000177479	ENST00000492077	retained_intron	KNOWN	None	690	None	None	48956265	48962650	1	None	TRIAD1
3	ARIH2	ENSG00000177479	ENST00000463738	retained_intron	KNOWN	None	690	None	None	48956269	48962515	1	None	TRIAD1
3	ARIH2	ENSG00000177479	ENST00000490095	processed_transcript	KNOWN	None	690	None	None	48956269	49017046	1	None	TRIAD1
3	ARIH2	ENSG00000177479	ENST00000449376	protein_coding	KNOWN	CCDS2780	690	1482	493	48956269	49021053	1	None	TRIAD1
3	ARIH2	ENSG00000177479	ENST00000495761	processed_transcript	KNOWN	None	690	None	None	48956275	49012301	1	None	TRIAD1
3	ARIH2	ENSG00000177479	ENST00000482427	processed_transcript	KNOWN	None	690	None	None	48956277	49004716	1	None	TRIAD1
3	ARIH2	ENSG00000177479	ENST00000483333	processed_transcript	KNOWN	None	690	None	None	48956277	49008077	1	None	TRIAD1
3	ARIH2	ENSG00000177479	ENST00000488963	processed_transcript	KNOWN	None	690	None	None	48956281	49002417	1	None	TRIAD1
3	ARIH2	ENSG00000177479	ENST00000420814	protein_coding	PUTATIVE	None	690	323	106	48956286	48999112	1	None	TRIAD1
3	ARIH2	ENSG00000177479	ENST00000486316	processed_transcript	KNOWN	None	690	None	None	48956289	49006014	1	None	TRIAD1
3	ARIH2	ENSG00000177479	ENST00000449729	protein_coding	PUTATIVE	None	690	255	84	48956290	48965246	1	None	TRIAD1
3	ARIH2	ENSG00000177479	ENST00000433170	protein_coding	PUTATIVE	None	690	167	54	48956297	48965158	1	None	TRIAD1
3	ARIH2	ENSG00000177479	ENST00000474936	processed_transcript	KNOWN	None	690	None	None	48956328	49006088	1	None	TRIAD1
3	ARIH2	ENSG00000177479	ENST00000466850	retained_intron	KNOWN	None	690	None	None	48960194	48965389	1	None	TRIAD1
3	ARIH2	ENSG00000177479	ENST00000470296	processed_transcript	KNOWN	None	690	None	None	48960198	48999071	1	None	TRIAD1
3	ARIH2	ENSG00000177479	ENST00000484999	processed_transcript	KNOWN	None	690	None	None	48960198	49004708	1	None	TRIAD1
3	ARIH2	ENSG00000177479	ENST00000463204	processed_transcript	KNOWN	None	690	None	None	48962149	48982614	1	None	TRIAD1
3	ARIH2	ENSG00000177479	ENST00000452385	nonsense_mediated_decay	KNOWN	None	690	321	106	48964151	49021112	1	None	TRIAD1
3	ARIH2	ENSG00000177479	ENST00000495507	processed_transcript	KNOWN	None	690	None	None	48965212	48986529	1	None	TRIAD1
3	ARIH2	ENSG00000177479	ENST00000472640	processed_transcript	KNOWN	None	690	None	None	48980619	49004603	1	None	TRIAD1
3	ARIH2	ENSG00000177479	ENST00000459976	processed_transcript	KNOWN	None	690	None	None	49002351	49006065	1	None	TRIAD1
3	ARIH2	ENSG00000177479	ENST00000465217	processed_transcript	KNOWN	None	690	None	None	49004639	49012128	1	None	TRIAD1
3	ARIH2	ENSG00000177479	ENST00000482342	retained_intron	KNOWN	None	690	None	None	49005767	49008146	1	None	TRIAD1
3	ARIH2	ENSG00000177479	ENST00000469038	retained_intron	KNOWN	None	690	None	None	49011048	49012544	1	None	TRIAD1
3	ARIH2	ENSG00000177479	ENST00000487891	retained_intron	KNOWN	None	690	None	None	49020143	49020855	1	None	TRIAD1
1	TMCC2	ENSG00000133069	ENST00000358024	protein_coding	KNOWN	CCDS30984	24239	2130	709	205197304	205242471	1	None	HUCEP11, FLJ38497
1	TMCC2	ENSG00000133069	ENST00000495538	processed_transcript	KNOWN	None	24239	None	None	205198860	205242471	1	None	HUCEP11, FLJ38497
1	TMCC2	ENSG00000133069	ENST00000367159	protein_coding	KNOWN	None	24239	768	255	205215624	205238686	1	None	HUCEP11, FLJ38497
1	TMCC2	ENSG00000133069	ENST00000330675	protein_coding	KNOWN	None	24239	1455	484	205215748	205242471	1	None	HUCEP11, FLJ38497
1	TMCC2	ENSG00000133069	ENST00000468846	processed_transcript	KNOWN	None	24239	None	None	205225329	205241380	1	None	HUCEP11, FLJ38497
1	TMCC2	ENSG00000133069	ENST00000329800	protein_coding	KNOWN	None	24239	1410	469	205225329	205242471	1	None	HUCEP11, FLJ38497
1	TMCC2	ENSG00000133069	ENST00000481950	processed_transcript	KNOWN	None	24239	None	None	205226359	205242471	1	None	HUCEP11, FLJ38497
1	TMCC2	ENSG00000133069	ENST00000545499	protein_coding	KNOWN	CCDS55676	24239	1896	631	205198059	205241431	1	None	HUCEP11, FLJ38497
4	NAT8L	ENSG00000185818	ENST00000331662	protein_coding	KNOWN	None	26742	405	134	2061539	2070816	1	None	FLJ37478, Hcml3
4	NAT8L	ENSG00000185818	ENST00000423729	protein_coding	KNOWN	CCDS3359	26742	909	302	2061239	2070815	1	None	FLJ37478, Hcml3
13	USP24P1	ENSG00000229375	ENST00000433802	unprocessed_pseudogene	KNOWN	None	42014	None	None	19589627	19593476	-1	None	None
10	TACC1P1	ENSG00000224920	ENST00000425494	unprocessed_pseudogene	KNOWN	None	44974	None	None	37811939	37833629	1	None	None
3	PDHB	ENSG00000168291	ENST00000302746	protein_coding	KNOWN	CCDS2890	8808	1080	359	58413357	58419579	-1	None	None
3	PDHB	ENSG00000168291	ENST00000383714	protein_coding	KNOWN	None	8808	1026	341	58413357	58419584	-1	None	None
3	PDHB	ENSG00000168291	ENST00000469364	nonsense_mediated_decay	KNOWN	None	8808	756	251	58413378	58419547	-1	None	None
3	PDHB	ENSG00000168291	ENST00000485460	protein_coding	NOVEL	CCDS54602	8808	1026	341	58413399	58419545	-1	None	None
3	PDHB	ENSG00000168291	ENST00000479945	retained_intron	KNOWN	None	8808	None	None	58413408	58419543	-1	None	None
3	PDHB	ENSG00000168291	ENST00000474765	protein_coding	PUTATIVE	None	8808	1053	350	58413410	58419541	-1	None	None
3	PDHB	ENSG00000168291	ENST00000461692	retained_intron	KNOWN	None	8808	None	None	58413419	58419566	-1	None	None
3	PDHB	ENSG00000168291	ENST00000480626	retained_intron	KNOWN	None	8808	None	None	58415937	58419545	-1	None	None
3	PDHB	ENSG00000168291	ENST00000482894	retained_intron	KNOWN	None	8808	None	None	58417061	58419555	-1	None	None
3	PDHB	ENSG00000168291	ENST00000469827	retained_intron	KNOWN	None	8808	None	None	58417159	58419556	-1	None	None
13	GTF2IP3	ENSG00000187721	ENST00000433887	unprocessed_pseudogene	KNOWN	None	42640	None	None	19600141	19606766	-1	None	None
13	GTF2IP3	ENSG00000187721	ENST00000560687	unprocessed_pseudogene	KNOWN	None	42640	None	None	19600138	19606764	-1	None	None
3	RPL15	ENSG00000174748	ENST00000307839	protein_coding	KNOWN	CCDS2640	10306	615	204	23958036	23962468	1	None	RPL10, RPLY10, RPYL10, EC45, L15
3	RPL15	ENSG00000174748	ENST00000422218	protein_coding	NOVEL	None	10306	400	132	23958082	23960777	1	None	RPL10, RPLY10, RPYL10, EC45, L15
3	RPL15	ENSG00000174748	ENST00000434031	protein_coding	KNOWN	None	10306	523	173	23958470	23960900	1	None	RPL10, RPLY10, RPYL10, EC45, L15
3	RPL15	ENSG00000174748	ENST00000413699	protein_coding	KNOWN	CCDS2640	10306	615	204	23958622	23962311	1	None	RPL10, RPLY10, RPYL10, EC45, L15
3	RPL15	ENSG00000174748	ENST00000412097	protein_coding	NOVEL	None	10306	525	174	23958638	23960902	1	None	RPL10, RPLY10, RPYL10, EC45, L15
3	RPL15	ENSG00000174748	ENST00000415719	protein_coding	KNOWN	CCDS2640	10306	615	204	23958639	23961038	1	None	RPL10, RPLY10, RPYL10, EC45, L15
3	RPL15	ENSG00000174748	ENST00000490223	retained_intron	KNOWN	None	10306	None	None	23958639	23961042	1	None	RPL10, RPLY10, RPYL10, EC45, L15
3	RPL15	ENSG00000174748	ENST00000465786	retained_intron	KNOWN	None	10306	None	None	23958639	23961043	1	None	RPL10, RPLY10, RPYL10, EC45, L15
3	RPL15	ENSG00000174748	ENST00000435882	protein_coding	KNOWN	CCDS2640	10306	615	204	23958639	23961282	1	None	RPL10, RPLY10, RPYL10, EC45, L15
3	RPL15	ENSG00000174748	ENST00000354811	protein_coding	KNOWN	CCDS2640	10306	615	204	23959196	23961042	1	None	RPL10, RPLY10, RPYL10, EC45, L15
3	RPL15	ENSG00000174748	ENST00000436146	nonsense_mediated_decay	KNOWN	None	10306	180	59	23959338	23962338	1	None	RPL10, RPLY10, RPYL10, EC45, L15
3	RPL15	ENSG00000174748	ENST00000456530	protein_coding	KNOWN	CCDS58818	10306	438	145	23958630	23965183	1	None	RPL10, RPLY10, RPYL10, EC45, L15
1	CITED4	ENSG00000179862	ENST00000372638	protein_coding	KNOWN	CCDS458	18696	555	184	41326729	41328018	-1	None	None
7	LAMB1	ENSG00000091136	ENST00000472714	retained_intron	KNOWN	None	6486	None	None	107564244	107570422	-1	CLM	None
7	LAMB1	ENSG00000091136	ENST00000393561	protein_coding	NOVEL	None	6486	5433	1810	107564248	107642472	-1	CLM	None
7	LAMB1	ENSG00000091136	ENST00000222399	protein_coding	KNOWN	CCDS5750	6486	5361	1786	107564263	107643700	-1	CLM	None
7	LAMB1	ENSG00000091136	ENST00000474380	processed_transcript	PUTATIVE	None	6486	None	None	107569894	107577604	-1	CLM	None
7	LAMB1	ENSG00000091136	ENST00000468518	processed_transcript	PUTATIVE	None	6486	None	None	107571802	107573069	-1	CLM	None
7	LAMB1	ENSG00000091136	ENST00000491196	processed_transcript	PUTATIVE	None	6486	None	None	107575801	107577615	-1	CLM	None
7	LAMB1	ENSG00000091136	ENST00000470995	processed_transcript	PUTATIVE	None	6486	None	None	107575819	107577608	-1	CLM	None
7	LAMB1	ENSG00000091136	ENST00000468999	processed_transcript	PUTATIVE	None	6486	None	None	107577535	107581009	-1	CLM	None
7	LAMB1	ENSG00000091136	ENST00000476039	processed_transcript	PUTATIVE	None	6486	None	None	107582844	107594094	-1	CLM	None
7	LAMB1	ENSG00000091136	ENST00000479448	processed_transcript	PUTATIVE	None	6486	None	None	107591546	107592535	-1	CLM	None
7	LAMB1	ENSG00000091136	ENST00000393560	protein_coding	PUTATIVE	None	6486	2553	850	107599951	107643632	-1	CLM	None
7	LAMB1	ENSG00000091136	ENST00000439976	protein_coding	PUTATIVE	None	6486	551	182	107638858	107643621	-1	CLM	None
7	LAMB1	ENSG00000091136	ENST00000393559	protein_coding	KNOWN	None	6486	275	90	107638876	107643605	-1	CLM	None
6	KAAG1	ENSG00000146049	ENST00000274766	protein_coding	KNOWN	CCDS4551	21031	255	84	24357131	24358512	1	None	RU2, RU2AS
19	VAV1	ENSG00000141968	ENST00000304076	protein_coding	KNOWN	CCDS59341	12657	2472	823	6772725	6857377	1	VAV	None
19	VAV1	ENSG00000141968	ENST00000602142	protein_coding	KNOWN	CCDS12174	12657	2538	845	6772737	6857118	1	VAV	None
19	VAV1	ENSG00000141968	ENST00000596764	protein_coding	KNOWN	CCDS59342	12657	2442	813	6772739	6857371	1	VAV	None
19	VAV1	ENSG00000141968	ENST00000599806	protein_coding	PUTATIVE	None	12657	2373	790	6784129	6857377	1	VAV	None
19	VAV1	ENSG00000141968	ENST00000594082	retained_intron	KNOWN	None	12657	None	None	6822448	6827115	1	VAV	None
19	VAV1	ENSG00000141968	ENST00000597967	retained_intron	KNOWN	None	12657	None	None	6828326	6832185	1	VAV	None
19	VAV1	ENSG00000141968	ENST00000601452	retained_intron	KNOWN	None	12657	None	None	6828457	6833744	1	VAV	None
19	VAV1	ENSG00000141968	ENST00000600396	retained_intron	KNOWN	None	12657	None	None	6828473	6833636	1	VAV	None
19	VAV1	ENSG00000141968	ENST00000598270	retained_intron	KNOWN	None	12657	None	None	6835820	6837037	1	VAV	None
19	VAV1	ENSG00000141968	ENST00000539284	protein_coding	KNOWN	None	12657	2247	748	6772969	6857371	1	VAV	None
1	NUAK2	ENSG00000163545	ENST00000367157	protein_coding	KNOWN	CCDS1453	29558	1887	628	205271187	205290883	-1	None	SNARK, FLJ90349
6	TREML4	ENSG00000188056	ENST00000341495	protein_coding	KNOWN	CCDS34446	30807	603	200	41196062	41206120	1	None	TLT4
6	TREML4	ENSG00000188056	ENST00000448827	protein_coding	KNOWN	CCDS34446	30807	603	200	41196077	41204838	1	None	TLT4
6	TREML4	ENSG00000188056	ENST00000461240	nonsense_mediated_decay	KNOWN	None	30807	215	70	41196693	41206620	1	None	TLT4
10	MTND1P18	ENSG00000225276	ENST00000448191	processed_pseudogene	KNOWN	None	42067	None	None	37889724	37890296	-1	None	None
16	NPIPB7	ENSG00000233232	ENST00000452313	protein_coding	NOVEL	None	33832	1245	414	28467693	28481868	-1	NPIPL1	LOC440350
4	None	ENSG00000250624	ENST00000513621	unprocessed_pseudogene	KNOWN	None	None	None	None	30886065	30886804	-1	None	None
1	CHD1L	ENSG00000131778	ENST00000488864	processed_transcript	KNOWN	None	1916	None	None	146714334	146747921	1	None	ALC1
1	CHD1L	ENSG00000131778	ENST00000369258	protein_coding	KNOWN	CCDS927	1916	2694	897	146714334	146767443	1	None	ALC1
1	CHD1L	ENSG00000131778	ENST00000467213	processed_transcript	KNOWN	None	1916	None	None	146714334	146767443	1	None	ALC1
1	CHD1L	ENSG00000131778	ENST00000492728	processed_transcript	KNOWN	None	1916	None	None	146714396	146731700	1	None	ALC1
1	CHD1L	ENSG00000131778	ENST00000485113	processed_transcript	KNOWN	None	1916	None	None	146742565	146747072	1	None	ALC1
1	CHD1L	ENSG00000131778	ENST00000469625	processed_transcript	KNOWN	None	1916	None	None	146743830	146747911	1	None	ALC1
1	CHD1L	ENSG00000131778	ENST00000431239	protein_coding	KNOWN	None	1916	2412	803	146714291	146767441	1	None	ALC1
1	CHD1L	ENSG00000131778	ENST00000369259	protein_coding	KNOWN	CCDS58021	1916	2082	693	146714291	146767441	1	None	ALC1
1	CHD1L	ENSG00000131778	ENST00000361293	protein_coding	KNOWN	CCDS58022	1916	1851	616	146714356	146767441	1	None	ALC1
4	None	ENSG00000251182	ENST00000515292	lincRNA	KNOWN	None	None	None	None	31172766	31213297	1	None	None
2	AFTPH	ENSG00000119844	ENST00000238856	protein_coding	KNOWN	CCDS1878	25951	2730	909	64751465	64820139	1	None	MGC33965, FLJ20080, FLJ23793, Nbla10388
2	AFTPH	ENSG00000119844	ENST00000498706	retained_intron	KNOWN	None	25951	None	None	64751661	64819268	1	None	MGC33965, FLJ20080, FLJ23793, Nbla10388
2	AFTPH	ENSG00000119844	ENST00000409933	protein_coding	KNOWN	CCDS46303	25951	2811	936	64778609	64819169	1	None	MGC33965, FLJ20080, FLJ23793, Nbla10388
2	AFTPH	ENSG00000119844	ENST00000409183	protein_coding	NOVEL	None	25951	1707	568	64779646	64819266	1	None	MGC33965, FLJ20080, FLJ23793, Nbla10388
2	AFTPH	ENSG00000119844	ENST00000487769	processed_transcript	KNOWN	None	25951	None	None	64780010	64812679	1	None	MGC33965, FLJ20080, FLJ23793, Nbla10388
2	AFTPH	ENSG00000119844	ENST00000422803	protein_coding	KNOWN	None	25951	2814	937	64751465	64820131	1	None	MGC33965, FLJ20080, FLJ23793, Nbla10388
2	AFTPH	ENSG00000119844	ENST00000238855	protein_coding	KNOWN	CCDS46303	25951	2811	936	64751465	64820131	1	None	MGC33965, FLJ20080, FLJ23793, Nbla10388
16	None	ENSG00000261832	ENST00000568224	nonsense_mediated_decay	KNOWN	None	None	1083	360	28477974	28503333	-1	None	None
16	SNX20	ENSG00000167208	ENST00000423026	protein_coding	KNOWN	CCDS45481	30390	309	102	50700211	50715223	-1	None	SLIC-1, SLIC1
16	SNX20	ENSG00000167208	ENST00000300590	protein_coding	KNOWN	CCDS10744	30390	390	129	50700211	50715264	-1	None	SLIC-1, SLIC1
16	SNX20	ENSG00000167208	ENST00000568993	nonsense_mediated_decay	KNOWN	CCDS10744	30390	390	129	50700469	50715213	-1	None	SLIC-1, SLIC1
16	SNX20	ENSG00000167208	ENST00000330943	protein_coding	KNOWN	CCDS10745	30390	951	316	50705536	50715263	-1	None	SLIC-1, SLIC1
4	None	ENSG00000251434	ENST00000505636	lincRNA	KNOWN	None	None	None	None	31351906	31353347	1	None	None
11	TIMM10B	ENSG00000132286	ENST00000254616	protein_coding	KNOWN	CCDS7766	4022	312	103	6502677	6505909	1	FXC1	Tim9b, TIM10B
11	TIMM10B	ENSG00000132286	ENST00000528908	retained_intron	KNOWN	None	4022	None	None	6502731	6503515	1	FXC1	Tim9b, TIM10B
11	TIMM10B	ENSG00000132286	ENST00000530751	protein_coding	NOVEL	None	4022	216	71	6502731	6504028	1	FXC1	Tim9b, TIM10B
11	TIMM10B	ENSG00000132286	ENST00000531462	nonsense_mediated_decay	KNOWN	None	4022	216	71	6502736	6504290	1	FXC1	Tim9b, TIM10B
11	TIMM10B	ENSG00000132286	ENST00000533379	nonsense_mediated_decay	KNOWN	CCDS7766	4022	312	103	6502738	6504288	1	FXC1	Tim9b, TIM10B
4	None	ENSG00000249882	ENST00000510420	lincRNA	KNOWN	None	None	None	None	31508288	31560443	1	None	None
4	POLN	ENSG00000130997	ENST00000511885	protein_coding	KNOWN	CCDS3360	18870	2703	900	2073645	2243848	-1	None	None
4	POLN	ENSG00000130997	ENST00000503371	processed_transcript	KNOWN	None	18870	None	None	2073649	2078785	-1	None	None
4	POLN	ENSG00000130997	ENST00000511098	protein_coding	NOVEL	None	18870	1574	523	2073677	2181114	-1	None	None
4	POLN	ENSG00000130997	ENST00000514521	processed_transcript	KNOWN	None	18870	None	None	2073687	2078174	-1	None	None
4	POLN	ENSG00000130997	ENST00000511777	retained_intron	KNOWN	None	18870	None	None	2073687	2082780	-1	None	None
4	POLN	ENSG00000130997	ENST00000509623	processed_transcript	KNOWN	None	18870	None	None	2080212	2082768	-1	None	None
4	POLN	ENSG00000130997	ENST00000514858	retained_intron	KNOWN	None	18870	None	None	2080219	2209838	-1	None	None
4	POLN	ENSG00000130997	ENST00000508568	processed_transcript	KNOWN	None	18870	None	None	2082837	2084737	-1	None	None
4	POLN	ENSG00000130997	ENST00000503601	retained_intron	KNOWN	None	18870	None	None	2083123	2092032	-1	None	None
4	POLN	ENSG00000130997	ENST00000515357	processed_transcript	KNOWN	None	18870	None	None	2158121	2243848	-1	None	None
4	POLN	ENSG00000130997	ENST00000510344	retained_intron	KNOWN	None	18870	None	None	2158224	2160938	-1	None	None
4	POLN	ENSG00000130997	ENST00000506518	processed_transcript	KNOWN	None	18870	None	None	2210054	2233870	-1	None	None
4	POLN	ENSG00000130997	ENST00000382865	protein_coding	KNOWN	CCDS3360	18870	2703	900	2073645	2230958	-1	None	None
14	CCDC176	ENSG00000119636	ENST00000464394	protein_coding	PUTATIVE	None	19855	372	123	74486056	74514777	1	C14orf45	None
14	CCDC176	ENSG00000119636	ENST00000394009	protein_coding	KNOWN	CCDS32119	19855	1590	529	74486059	74532795	1	C14orf45	None
14	CCDC176	ENSG00000119636	ENST00000489323	processed_transcript	KNOWN	None	19855	None	None	74486149	74514778	1	C14orf45	None
14	CCDC176	ENSG00000119636	ENST00000463558	retained_intron	KNOWN	None	19855	None	None	74486151	74507520	1	C14orf45	None
14	CCDC176	ENSG00000119636	ENST00000477986	retained_intron	KNOWN	None	19855	None	None	74512794	74515295	1	C14orf45	None
14	CCDC176	ENSG00000119636	ENST00000492247	protein_coding	PUTATIVE	None	19855	330	109	74522236	74524162	1	C14orf45	None
14	CCDC176	ENSG00000119636	ENST00000553773	protein_coding	KNOWN	None	19855	798	265	74498500	74549566	1	C14orf45	None
5	None	ENSG00000272049	ENST00000607691	lincRNA	KNOWN	None	None	None	None	8445062	8445648	-1	None	None
5	MIR4458	ENSG00000247516	ENST00000605918	lincRNA	KNOWN	None	41674	None	None	8450856	8460200	1	None	hsa-mir-4458
5	MIR4458	ENSG00000247516	ENST00000502001	lincRNA	KNOWN	None	41674	None	None	8457606	8460776	1	None	hsa-mir-4458
5	MIR4458	ENSG00000247516	ENST00000606459	lincRNA	KNOWN	None	41674	None	None	8457804	8463208	1	None	hsa-mir-4458
5	MIR4458	ENSG00000247516	ENST00000578872	miRNA	KNOWN	None	41674	None	None	8461038	8461112	1	None	hsa-mir-4458
1	CTPS1	ENSG00000171793	ENST00000372621	protein_coding	KNOWN	CCDS459	2519	1776	591	41445007	41478235	1	CTPS	None
1	CTPS1	ENSG00000171793	ENST00000470271	processed_transcript	KNOWN	None	2519	None	None	41445780	41450660	1	CTPS	None
1	CTPS1	ENSG00000171793	ENST00000475060	processed_transcript	KNOWN	None	2519	None	None	41446257	41449117	1	CTPS	None
1	CTPS1	ENSG00000171793	ENST00000479480	processed_transcript	KNOWN	None	2519	None	None	41447599	41457493	1	CTPS	None
1	CTPS1	ENSG00000171793	ENST00000372616	protein_coding	KNOWN	CCDS459	2519	1776	591	41448833	41477451	1	CTPS	None
1	CTPS1	ENSG00000171793	ENST00000480420	processed_transcript	KNOWN	None	2519	None	None	41454169	41466786	1	CTPS	None
1	CTPS1	ENSG00000171793	ENST00000463285	processed_transcript	KNOWN	None	2519	None	None	41461652	41469922	1	CTPS	None
1	CTPS1	ENSG00000171793	ENST00000486889	processed_transcript	KNOWN	None	2519	None	None	41462797	41467908	1	CTPS	None
1	CTPS1	ENSG00000171793	ENST00000497210	processed_transcript	KNOWN	None	2519	None	None	41466485	41468848	1	CTPS	None
1	CTPS1	ENSG00000171793	ENST00000464283	processed_transcript	KNOWN	None	2519	None	None	41467211	41475261	1	CTPS	None
1	CTPS1	ENSG00000171793	ENST00000463423	processed_transcript	KNOWN	None	2519	None	None	41468828	41475926	1	CTPS	None
1	CTPS1	ENSG00000171793	ENST00000498694	processed_transcript	KNOWN	None	2519	None	None	41471736	41477426	1	CTPS	None
1	CTPS1	ENSG00000171793	ENST00000543104	protein_coding	KNOWN	None	2519	945	314	41447609	41462029	1	CTPS	None
1	CTPS1	ENSG00000171793	ENST00000541520	protein_coding	KNOWN	None	2519	1083	360	41445427	41477736	1	CTPS	None
10	None	ENSG00000269920	ENST00000475252	nonsense_mediated_decay	KNOWN	None	None	519	172	97733786	97792432	1	None	None
20	GCNT7	ENSG00000124091	ENST00000243913	protein_coding	PUTATIVE	None	16099	927	308	55066548	55100981	-1	C20orf105	dJ1153D9.2
5	None	ENSG00000250037	ENST00000512324	unprocessed_pseudogene	KNOWN	None	None	None	None	8456059	8456671	-1	None	None
5	None	ENSG00000249782	ENST00000505784	lincRNA	KNOWN	None	None	None	None	8525291	8528791	1	None	None
5	MTND6P2	ENSG00000250389	ENST00000512226	processed_pseudogene	KNOWN	None	39465	None	None	8618693	8619216	-1	None	None
1	KLHDC8A	ENSG00000162873	ENST00000367155	protein_coding	KNOWN	CCDS30985	25573	1053	350	205305220	205326039	-1	None	FLJ10748
1	KLHDC8A	ENSG00000162873	ENST00000367156	protein_coding	KNOWN	CCDS30985	25573	1053	350	205305220	205326166	-1	None	FLJ10748
1	KLHDC8A	ENSG00000162873	ENST00000460687	protein_coding	PUTATIVE	None	25573	651	216	205306443	205325706	-1	None	FLJ10748
1	KLHDC8A	ENSG00000162873	ENST00000606181	protein_coding	PUTATIVE	None	25573	527	174	205306651	205308989	-1	None	FLJ10748
1	KLHDC8A	ENSG00000162873	ENST00000607826	protein_coding	PUTATIVE	None	25573	249	82	205308929	205313310	-1	None	FLJ10748
1	KLHDC8A	ENSG00000162873	ENST00000607173	protein_coding	KNOWN	None	25573	237	78	205312496	205326218	-1	None	FLJ10748
1	KLHDC8A	ENSG00000162873	ENST00000491471	protein_coding	KNOWN	None	25573	198	65	205312535	205326006	-1	None	FLJ10748
1	KLHDC8A	ENSG00000162873	ENST00000606887	protein_coding	KNOWN	None	25573	79	25	205312654	205326166	-1	None	FLJ10748
1	KLHDC8A	ENSG00000162873	ENST00000606111	processed_transcript	KNOWN	None	25573	None	None	205312817	205326166	-1	None	FLJ10748
1	KLHDC8A	ENSG00000162873	ENST00000606529	processed_transcript	KNOWN	None	25573	None	None	205313324	205325964	-1	None	FLJ10748
1	KLHDC8A	ENSG00000162873	ENST00000607193	processed_transcript	KNOWN	None	25573	None	None	205313539	205325964	-1	None	FLJ10748
1	KLHDC8A	ENSG00000162873	ENST00000537168	protein_coding	KNOWN	None	25573	714	237	205306018	205325916	-1	None	FLJ10748
1	KLHDC8A	ENSG00000162873	ENST00000539253	protein_coding	KNOWN	CCDS30985	25573	1053	350	205305649	205313310	-1	None	FLJ10748
20	FAM209A	ENSG00000124103	ENST00000481560	processed_transcript	KNOWN	None	16100	None	None	55092243	55101131	1	C20orf106	dJ1153D9.3
20	FAM209A	ENSG00000124103	ENST00000371328	protein_coding	KNOWN	CCDS33493	16100	516	171	55099542	55101198	1	C20orf106	dJ1153D9.3
5	PPP2CA	ENSG00000113575	ENST00000481195	protein_coding	KNOWN	CCDS4173	9299	930	309	133530025	133561833	-1	None	PP2Calpha
5	PPP2CA	ENSG00000113575	ENST00000472253	retained_intron	KNOWN	None	9299	None	None	133533327	133535141	-1	None	PP2Calpha
5	PPP2CA	ENSG00000113575	ENST00000495833	retained_intron	KNOWN	None	9299	None	None	133536665	133538176	-1	None	PP2Calpha
5	PPP2CA	ENSG00000113575	ENST00000522385	protein_coding	PUTATIVE	None	9299	378	125	133536679	133561245	-1	None	PP2Calpha
5	PPP2CA	ENSG00000113575	ENST00000523082	protein_coding	PUTATIVE	None	9299	436	144	133537550	133560084	-1	None	PP2Calpha
5	PPP2CA	ENSG00000113575	ENST00000231504	processed_transcript	PUTATIVE	None	9299	None	None	133539216	133561764	-1	None	PP2Calpha
20	FAM209B	ENSG00000213714	ENST00000371325	protein_coding	KNOWN	CCDS33494	16101	516	171	55108302	55111576	1	C20orf107	dJ1153D9.4
2	ITGA6	ENSG00000091409	ENST00000412899	protein_coding	PUTATIVE	None	6142	693	230	173292082	173339705	1	None	CD49f
2	ITGA6	ENSG00000091409	ENST00000409532	protein_coding	KNOWN	None	6142	2865	954	173292146	173369262	1	None	CD49f
2	ITGA6	ENSG00000091409	ENST00000264107	protein_coding	KNOWN	CCDS2249	6142	3222	1073	173292283	173370958	1	None	CD49f
2	ITGA6	ENSG00000091409	ENST00000442250	protein_coding	KNOWN	None	6142	3390	1129	173292517	173368977	1	None	CD49f
2	ITGA6	ENSG00000091409	ENST00000458358	protein_coding	KNOWN	None	6142	3258	1085	173292517	173368977	1	None	CD49f
2	ITGA6	ENSG00000091409	ENST00000409080	protein_coding	KNOWN	CCDS46451	6142	3276	1091	173292517	173371002	1	None	CD49f
2	ITGA6	ENSG00000091409	ENST00000497107	retained_intron	KNOWN	None	6142	None	None	173333726	173338840	1	None	CD49f
2	ITGA6	ENSG00000091409	ENST00000416789	protein_coding	PUTATIVE	None	6142	777	258	173352690	173369056	1	None	CD49f
2	ITGA6	ENSG00000091409	ENST00000469534	retained_intron	KNOWN	None	6142	None	None	173352733	173354656	1	None	CD49f
2	ITGA6	ENSG00000091409	ENST00000470259	retained_intron	KNOWN	None	6142	None	None	173355520	173355982	1	None	CD49f
2	ITGA6	ENSG00000091409	ENST00000475302	retained_intron	KNOWN	None	6142	None	None	173355657	173366546	1	None	CD49f
2	ITGA6	ENSG00000091409	ENST00000264106	protein_coding	KNOWN	None	6142	3393	1130	173292314	173371181	1	None	CD49f
2	ITGA6	ENSG00000091409	ENST00000375221	protein_coding	KNOWN	None	6142	3339	1112	173292314	173371181	1	None	CD49f
2	ITGA6	ENSG00000091409	ENST00000343713	protein_coding	KNOWN	None	6142	3207	1068	173292314	173371181	1	None	CD49f
10	CCNJ	ENSG00000107443	ENST00000403870	protein_coding	KNOWN	CCDS44463	23434	1116	371	97803151	97819345	1	None	FLJ10895, bA690P14.1
10	CCNJ	ENSG00000107443	ENST00000265992	protein_coding	KNOWN	CCDS7445	23434	1119	372	97803151	97820627	1	None	FLJ10895, bA690P14.1
10	CCNJ	ENSG00000107443	ENST00000465148	protein_coding	KNOWN	CCDS44462	23434	1152	383	97803340	97819345	1	None	FLJ10895, bA690P14.1
10	CCNJ	ENSG00000107443	ENST00000534974	protein_coding	KNOWN	CCDS7445	23434	1119	372	97803340	97820623	1	None	FLJ10895, bA690P14.1
HSCHR6_MHC_MCF	VWA7	ENSG00000223757	ENST00000438725	protein_coding	KNOWN	None	13939	2676	891	31809667	31821371	-1	C6orf27	G7c, NG37
HSCHR6_MHC_MCF	VWA7	ENSG00000223757	ENST00000472532	retained_intron	KNOWN	None	13939	None	None	31810114	31811764	-1	C6orf27	G7c, NG37
HSCHR6_MHC_MCF	VWA7	ENSG00000223757	ENST00000484598	processed_transcript	KNOWN	None	13939	None	None	31810366	31821349	-1	C6orf27	G7c, NG37
HSCHR6_MHC_MCF	VWA7	ENSG00000223757	ENST00000474111	processed_transcript	KNOWN	None	13939	None	None	31815347	31817084	-1	C6orf27	G7c, NG37
HSCHR6_MHC_MCF	VWA7	ENSG00000223757	ENST00000467033	processed_transcript	PUTATIVE	None	13939	None	None	31820136	31820996	-1	C6orf27	G7c, NG37
HSCHR6_MHC_MCF	VWA7	ENSG00000223757	ENST00000547402	protein_coding	KNOWN	None	13939	2559	852	31809671	31821408	-1	C6orf27	G7c, NG37
HSCHR6_MHC_MCF	VWA7	ENSG00000223757	ENST00000550140	protein_coding	KNOWN	None	13939	2067	688	31810637	31821408	-1	C6orf27	G7c, NG37
20	TFAP2C	ENSG00000087510	ENST00000201031	protein_coding	KNOWN	CCDS13454	11744	1353	450	55204358	55214339	1	None	AP2-GAMMA, ERF1, TFAP2G, hAP-2g
20	TFAP2C	ENSG00000087510	ENST00000416606	protein_coding	PUTATIVE	None	11744	355	117	55205290	55206603	1	None	AP2-GAMMA, ERF1, TFAP2G, hAP-2g
20	TFAP2C	ENSG00000087510	ENST00000544508	protein_coding	KNOWN	None	11744	846	281	55205938	55213331	1	None	AP2-GAMMA, ERF1, TFAP2G, hAP-2g
6	KPNA5	ENSG00000196911	ENST00000413340	protein_coding	KNOWN	None	6398	426	141	117002350	117019961	1	None	SRP6, IPOA6
6	KPNA5	ENSG00000196911	ENST00000368564	protein_coding	KNOWN	CCDS5111	6398	1620	539	117002350	117056807	1	None	SRP6, IPOA6
6	KPNA5	ENSG00000196911	ENST00000392517	protein_coding	KNOWN	None	6398	367	121	117050726	117063029	1	None	SRP6, IPOA6
6	KPNA5	ENSG00000196911	ENST00000356348	protein_coding	KNOWN	CCDS5111	6398	1620	539	117002367	117063029	1	None	SRP6, IPOA6
17	EIF4A3	ENSG00000141543	ENST00000269349	protein_coding	KNOWN	CCDS11767	18683	1236	411	78109013	78120982	-1	DDX48	KIAA0111, EIF4AIII
17	EIF4A3	ENSG00000141543	ENST00000575978	retained_intron	KNOWN	None	18683	None	None	78109054	78113286	-1	DDX48	KIAA0111, EIF4AIII
17	EIF4A3	ENSG00000141543	ENST00000570625	retained_intron	KNOWN	None	18683	None	None	78109063	78110121	-1	DDX48	KIAA0111, EIF4AIII
17	EIF4A3	ENSG00000141543	ENST00000576573	retained_intron	KNOWN	None	18683	None	None	78109063	78111402	-1	DDX48	KIAA0111, EIF4AIII
17	EIF4A3	ENSG00000141543	ENST00000575668	retained_intron	KNOWN	None	18683	None	None	78110602	78112072	-1	DDX48	KIAA0111, EIF4AIII
17	EIF4A3	ENSG00000141543	ENST00000570837	retained_intron	KNOWN	None	18683	None	None	78113485	78114275	-1	DDX48	KIAA0111, EIF4AIII
17	EIF4A3	ENSG00000141543	ENST00000576547	protein_coding	NOVEL	None	18683	375	124	78113874	78120938	-1	DDX48	KIAA0111, EIF4AIII
17	EIF4A3	ENSG00000141543	ENST00000575957	retained_intron	KNOWN	None	18683	None	None	78115494	78120938	-1	DDX48	KIAA0111, EIF4AIII
6	TREM1	ENSG00000124731	ENST00000589614	protein_coding	PUTATIVE	None	17760	753	250	41235664	41254403	-1	None	TREM-1, CD354
6	TREM1	ENSG00000124731	ENST00000244709	protein_coding	KNOWN	CCDS4854	17760	705	234	41242942	41254457	-1	None	TREM-1, CD354
6	TREM1	ENSG00000124731	ENST00000334475	protein_coding	KNOWN	CCDS56427	17760	453	150	41243359	41254420	-1	None	TREM-1, CD354
6	TREM1	ENSG00000124731	ENST00000589695	retained_intron	KNOWN	None	17760	None	None	41243724	41248972	-1	None	TREM-1, CD354
6	TREM1	ENSG00000124731	ENST00000591620	protein_coding	PUTATIVE	CCDS59499	17760	678	225	41247277	41254420	-1	None	TREM-1, CD354
6	TREM1	ENSG00000124731	ENST00000589882	retained_intron	KNOWN	None	17760	None	None	41247929	41249804	-1	None	TREM-1, CD354
6	TREM1	ENSG00000124731	ENST00000586287	retained_intron	KNOWN	None	17760	None	None	41249992	41254420	-1	None	TREM-1, CD354
5	NDFIP1	ENSG00000131507	ENST00000253814	protein_coding	KNOWN	CCDS4273	17592	666	221	141488070	141534005	1	None	N4WBP5, MGC10924
5	NDFIP1	ENSG00000131507	ENST00000509436	processed_transcript	KNOWN	None	17592	None	None	141488353	141513633	1	None	N4WBP5, MGC10924
5	NDFIP1	ENSG00000131507	ENST00000505614	retained_intron	KNOWN	None	17592	None	None	141515295	141517757	1	None	N4WBP5, MGC10924
5	NDFIP1	ENSG00000131507	ENST00000503388	retained_intron	KNOWN	None	17592	None	None	141522543	141533760	1	None	N4WBP5, MGC10924
1	LEMD1	ENSG00000186007	ENST00000367152	protein_coding	KNOWN	CCDS55678	18725	423	140	205350506	205389702	-1	None	LEMP-1, CT50
1	LEMD1	ENSG00000186007	ENST00000476884	processed_transcript	KNOWN	None	18725	None	None	205350506	205391158	-1	None	LEMP-1, CT50
1	LEMD1	ENSG00000186007	ENST00000367153	protein_coding	KNOWN	CCDS55679	18725	546	181	205350506	205391182	-1	None	LEMP-1, CT50
1	LEMD1	ENSG00000186007	ENST00000367154	protein_coding	KNOWN	CCDS30986	18725	327	108	205350506	205419059	-1	None	LEMP-1, CT50
1	LEMD1	ENSG00000186007	ENST00000495594	processed_transcript	KNOWN	None	18725	None	None	205350506	205425082	-1	None	LEMP-1, CT50
1	LEMD1	ENSG00000186007	ENST00000367151	protein_coding	KNOWN	CCDS55678	18725	423	140	205350513	205391214	-1	None	LEMP-1, CT50
1	LEMD1	ENSG00000186007	ENST00000391936	protein_coding	KNOWN	CCDS30986	18725	327	108	205350513	205391214	-1	None	LEMP-1, CT50
1	LEMD1	ENSG00000186007	ENST00000367149	protein_coding	KNOWN	CCDS55677	18725	204	67	205350513	205391214	-1	None	LEMP-1, CT50
6	FKBP5	ENSG00000096060	ENST00000357266	protein_coding	KNOWN	CCDS4808	3721	1374	457	35541367	35656714	-1	None	FKBP51, FKBP54, PPIase, P54, Ptg-10
6	FKBP5	ENSG00000096060	ENST00000536438	protein_coding	KNOWN	CCDS4808	3721	1374	457	35541362	35696360	-1	None	FKBP51, FKBP54, PPIase, P54, Ptg-10
6	FKBP5	ENSG00000096060	ENST00000539068	protein_coding	KNOWN	CCDS4808	3721	1374	457	35541362	35656692	-1	None	FKBP51, FKBP54, PPIase, P54, Ptg-10
6	FKBP5	ENSG00000096060	ENST00000540787	protein_coding	KNOWN	None	3721	837	278	35543176	35656692	-1	None	FKBP51, FKBP54, PPIase, P54, Ptg-10
6	FKBP5	ENSG00000096060	ENST00000542713	protein_coding	KNOWN	CCDS54996	3721	807	268	35548334	35656719	-1	None	FKBP51, FKBP54, PPIase, P54, Ptg-10
17	NME1-NME2	ENSG00000243678	ENST00000514264	protein_coding	KNOWN	CCDS11580	33531	459	152	49242796	49249105	1	None	NM23-LV, NMELV
17	NME1-NME2	ENSG00000243678	ENST00000513177	protein_coding	KNOWN	CCDS11580	33531	459	152	49243176	49249104	1	None	NM23-LV, NMELV
17	NME1-NME2	ENSG00000243678	ENST00000512737	protein_coding	KNOWN	CCDS11580	33531	459	152	49243639	49249108	1	None	NM23-LV, NMELV
17	NME1-NME2	ENSG00000243678	ENST00000503064	protein_coding	KNOWN	CCDS11580	33531	459	152	49243779	49249105	1	None	NM23-LV, NMELV
17	NME1-NME2	ENSG00000243678	ENST00000485076	retained_intron	KNOWN	None	33531	None	None	49243798	49244680	1	None	NM23-LV, NMELV
17	NME1-NME2	ENSG00000243678	ENST00000393190	protein_coding	KNOWN	CCDS11580	33531	459	152	49243925	49249105	1	None	NM23-LV, NMELV
17	NME1-NME2	ENSG00000243678	ENST00000570801	retained_intron	KNOWN	None	33531	None	None	49245380	49248974	1	None	NM23-LV, NMELV
17	NME1-NME2	ENSG00000243678	ENST00000573262	retained_intron	KNOWN	None	33531	None	None	49246744	49248969	1	None	NM23-LV, NMELV
X	P2RY8	ENSG00000182162	ENST00000381297	protein_coding	KNOWN	CCDS14115	15524	1080	359	1581465	1656000	-1	None	P2Y8
X	P2RY8	ENSG00000182162	ENST00000460672	processed_transcript	KNOWN	None	15524	None	None	1585330	1613246	-1	None	P2Y8
12	KLRC4	ENSG00000183542	ENST00000309384	protein_coding	KNOWN	CCDS8624	6377	477	158	10559983	10562356	-1	None	NKG2-F
17	PHF23	ENSG00000040633	ENST00000320316	protein_coding	KNOWN	CCDS42250	28428	1212	403	7138347	7142825	-1	None	MGC2941, FLJ16355
17	PHF23	ENSG00000040633	ENST00000571362	protein_coding	NOVEL	None	28428	1011	336	7138348	7142758	-1	None	MGC2941, FLJ16355
17	PHF23	ENSG00000040633	ENST00000576955	protein_coding	PUTATIVE	None	28428	822	273	7138357	7142774	-1	None	MGC2941, FLJ16355
17	PHF23	ENSG00000040633	ENST00000454255	protein_coding	PUTATIVE	None	28428	1200	399	7138606	7142249	-1	None	MGC2941, FLJ16355
17	PHF23	ENSG00000040633	ENST00000572789	protein_coding	PUTATIVE	None	28428	603	200	7139253	7141577	-1	None	MGC2941, FLJ16355
17	PHF23	ENSG00000040633	ENST00000573826	protein_coding	PUTATIVE	None	28428	610	202	7139609	7142201	-1	None	MGC2941, FLJ16355
17	PHF23	ENSG00000040633	ENST00000574323	protein_coding	PUTATIVE	None	28428	178	58	7139678	7142034	-1	None	MGC2941, FLJ16355
17	PHF23	ENSG00000040633	ENST00000570899	protein_coding	PUTATIVE	None	28428	558	185	7139700	7143041	-1	None	MGC2941, FLJ16355
17	PHF23	ENSG00000040633	ENST00000574236	protein_coding	PUTATIVE	None	28428	108	35	7139748	7141490	-1	None	MGC2941, FLJ16355
17	PHF23	ENSG00000040633	ENST00000574407	protein_coding	PUTATIVE	None	28428	18	5	7139838	7141896	-1	None	MGC2941, FLJ16355
17	PHF23	ENSG00000040633	ENST00000570753	processed_transcript	PUTATIVE	None	28428	None	None	7139936	7141113	-1	None	MGC2941, FLJ16355
17	PHF23	ENSG00000040633	ENST00000574899	processed_transcript	KNOWN	None	28428	None	None	7139956	7141490	-1	None	MGC2941, FLJ16355
12	CNOT2	ENSG00000111596	ENST00000552231	protein_coding	KNOWN	None	7878	963	320	70636774	70732285	1	NOT2	CDC36, NOT2H
12	CNOT2	ENSG00000111596	ENST00000547780	protein_coding	KNOWN	None	7878	77	24	70636782	70704703	1	NOT2	CDC36, NOT2H
12	CNOT2	ENSG00000111596	ENST00000418359	protein_coding	KNOWN	CCDS31857	7878	1623	540	70636810	70748773	1	NOT2	CDC36, NOT2H
12	CNOT2	ENSG00000111596	ENST00000552319	nonsense_mediated_decay	KNOWN	None	7878	165	54	70637190	70724239	1	NOT2	CDC36, NOT2H
12	CNOT2	ENSG00000111596	ENST00000550160	protein_coding	NOVEL	None	7878	829	275	70637192	70735948	1	NOT2	CDC36, NOT2H
12	CNOT2	ENSG00000111596	ENST00000551661	nonsense_mediated_decay	KNOWN	None	7878	231	76	70637201	70713143	1	NOT2	CDC36, NOT2H
12	CNOT2	ENSG00000111596	ENST00000553078	processed_transcript	KNOWN	None	7878	None	None	70637204	70687903	1	NOT2	CDC36, NOT2H
12	CNOT2	ENSG00000111596	ENST00000551132	protein_coding	PUTATIVE	None	7878	245	80	70637204	70723269	1	NOT2	CDC36, NOT2H
12	CNOT2	ENSG00000111596	ENST00000548021	retained_intron	KNOWN	None	7878	None	None	70637205	70729552	1	NOT2	CDC36, NOT2H
12	CNOT2	ENSG00000111596	ENST00000552915	protein_coding	NOVEL	None	7878	928	308	70637213	70732535	1	NOT2	CDC36, NOT2H
12	CNOT2	ENSG00000111596	ENST00000549443	processed_transcript	KNOWN	None	7878	None	None	70637216	70729283	1	NOT2	CDC36, NOT2H
12	CNOT2	ENSG00000111596	ENST00000548741	nonsense_mediated_decay	KNOWN	None	7878	111	36	70637218	70695610	1	NOT2	CDC36, NOT2H
12	CNOT2	ENSG00000111596	ENST00000552483	protein_coding	PUTATIVE	None	7878	433	143	70637222	70731264	1	NOT2	CDC36, NOT2H
12	CNOT2	ENSG00000111596	ENST00000552422	processed_transcript	KNOWN	None	7878	None	None	70637223	70701681	1	NOT2	CDC36, NOT2H
12	CNOT2	ENSG00000111596	ENST00000551179	retained_intron	KNOWN	None	7878	None	None	70637225	70672230	1	NOT2	CDC36, NOT2H
12	CNOT2	ENSG00000111596	ENST00000547321	retained_intron	KNOWN	None	7878	None	None	70637228	70723413	1	NOT2	CDC36, NOT2H
12	CNOT2	ENSG00000111596	ENST00000550641	protein_coding	PUTATIVE	None	7878	589	195	70637228	70726626	1	NOT2	CDC36, NOT2H
12	CNOT2	ENSG00000111596	ENST00000553020	nonsense_mediated_decay	KNOWN	None	7878	111	36	70637229	70713131	1	NOT2	CDC36, NOT2H
12	CNOT2	ENSG00000111596	ENST00000548159	protein_coding	PUTATIVE	None	7878	1594	530	70637494	70747693	1	NOT2	CDC36, NOT2H
12	CNOT2	ENSG00000111596	ENST00000549750	protein_coding	KNOWN	None	7878	548	181	70637528	70724228	1	NOT2	CDC36, NOT2H
12	CNOT2	ENSG00000111596	ENST00000551043	protein_coding	KNOWN	None	7878	1621	539	70637531	70747693	1	NOT2	CDC36, NOT2H
12	CNOT2	ENSG00000111596	ENST00000547867	protein_coding	PUTATIVE	None	7878	204	67	70671912	70713137	1	NOT2	CDC36, NOT2H
12	CNOT2	ENSG00000111596	ENST00000551873	protein_coding	PUTATIVE	None	7878	394	130	70671912	70726626	1	NOT2	CDC36, NOT2H
12	CNOT2	ENSG00000111596	ENST00000550194	protein_coding	NOVEL	None	7878	652	216	70671912	70729244	1	NOT2	CDC36, NOT2H
12	CNOT2	ENSG00000111596	ENST00000548599	nonsense_mediated_decay	KNOWN	None	7878	189	62	70671912	70732348	1	NOT2	CDC36, NOT2H
12	CNOT2	ENSG00000111596	ENST00000552151	retained_intron	KNOWN	None	7878	None	None	70704743	70724671	1	NOT2	CDC36, NOT2H
12	CNOT2	ENSG00000111596	ENST00000548863	retained_intron	KNOWN	None	7878	None	None	70712804	70729613	1	NOT2	CDC36, NOT2H
12	CNOT2	ENSG00000111596	ENST00000547149	processed_transcript	KNOWN	None	7878	None	None	70721287	70726586	1	NOT2	CDC36, NOT2H
12	CNOT2	ENSG00000111596	ENST00000548230	processed_transcript	KNOWN	None	7878	None	None	70721287	70729246	1	NOT2	CDC36, NOT2H
12	CNOT2	ENSG00000111596	ENST00000550155	protein_coding	PUTATIVE	None	7878	472	156	70726178	70732466	1	NOT2	CDC36, NOT2H
12	CNOT2	ENSG00000111596	ENST00000551483	protein_coding	KNOWN	None	7878	576	191	70728215	70747717	1	NOT2	CDC36, NOT2H
12	CNOT2	ENSG00000111596	ENST00000549947	processed_transcript	KNOWN	None	7878	None	None	70729219	70732498	1	NOT2	CDC36, NOT2H
12	CNOT2	ENSG00000111596	ENST00000552599	protein_coding	PUTATIVE	None	7878	559	185	70731263	70739846	1	NOT2	CDC36, NOT2H
12	CNOT2	ENSG00000111596	ENST00000548939	retained_intron	KNOWN	None	7878	None	None	70732216	70736153	1	NOT2	CDC36, NOT2H
12	CNOT2	ENSG00000111596	ENST00000546673	nonsense_mediated_decay	KNOWN	None	7878	548	181	70732254	70747718	1	NOT2	CDC36, NOT2H
12	CNOT2	ENSG00000111596	ENST00000548338	protein_coding	PUTATIVE	None	7878	298	98	70732546	70747693	1	NOT2	CDC36, NOT2H
12	CNOT2	ENSG00000111596	ENST00000551434	retained_intron	KNOWN	None	7878	None	None	70735770	70747682	1	NOT2	CDC36, NOT2H
12	CNOT2	ENSG00000111596	ENST00000548686	processed_transcript	PUTATIVE	None	7878	None	None	70735888	70737958	1	NOT2	CDC36, NOT2H
12	CNOT2	ENSG00000111596	ENST00000549709	nonsense_mediated_decay	KNOWN	None	7878	139	45	70735890	70747700	1	NOT2	CDC36, NOT2H
12	CNOT2	ENSG00000111596	ENST00000551710	protein_coding	PUTATIVE	None	7878	315	104	70736049	70740406	1	NOT2	CDC36, NOT2H
12	CNOT2	ENSG00000111596	ENST00000550705	retained_intron	KNOWN	None	7878	None	None	70737727	70747703	1	NOT2	CDC36, NOT2H
12	CNOT2	ENSG00000111596	ENST00000549705	processed_transcript	PUTATIVE	None	7878	None	None	70741374	70747706	1	NOT2	CDC36, NOT2H
12	CNOT2	ENSG00000111596	ENST00000229195	protein_coding	KNOWN	CCDS31857	7878	1623	540	70636777	70748773	1	NOT2	CDC36, NOT2H
2	SERTAD2	ENSG00000179833	ENST00000313349	protein_coding	KNOWN	CCDS33210	30784	945	314	64858755	64881047	-1	None	TRIP-Br2, KIAA0127, Sei-2
2	SERTAD2	ENSG00000179833	ENST00000476805	processed_transcript	KNOWN	None	30784	None	None	64863667	64977449	-1	None	TRIP-Br2, KIAA0127, Sei-2
1	SLFNL1	ENSG00000171790	ENST00000302946	protein_coding	KNOWN	CCDS460	26313	1224	407	41481269	41487387	-1	None	FLJ23878
1	SLFNL1	ENSG00000171790	ENST00000372613	protein_coding	KNOWN	None	26313	1080	359	41481269	41487397	-1	None	FLJ23878
1	SLFNL1	ENSG00000171790	ENST00000372611	protein_coding	KNOWN	None	26313	1047	348	41481269	41487415	-1	None	FLJ23878
1	SLFNL1	ENSG00000171790	ENST00000359345	protein_coding	KNOWN	CCDS460	26313	1224	407	41481269	41488909	-1	None	FLJ23878
1	SLFNL1	ENSG00000171790	ENST00000439569	protein_coding	KNOWN	CCDS460	26313	1224	407	41481269	41487397	-1	None	FLJ23878
1	SLFNL1	ENSG00000171790	ENST00000397197	protein_coding	KNOWN	None	26313	1080	359	41481269	41487397	-1	None	FLJ23878
5	None	ENSG00000248765	ENST00000510642	processed_pseudogene	KNOWN	None	None	None	None	8619290	8620422	1	None	None
5	None	ENSG00000260981	ENST00000569381	lincRNA	KNOWN	None	None	None	None	8785154	8785580	-1	None	None
5	None	ENSG00000250198	ENST00000510229	lincRNA	KNOWN	None	None	None	None	8839844	8881352	1	None	None
5	None	ENSG00000250198	ENST00000506655	lincRNA	KNOWN	None	None	None	None	8839871	8842572	1	None	None
5	None	ENSG00000250198	ENST00000510067	lincRNA	KNOWN	None	None	None	None	8839877	8881637	1	None	None
1	BCL9	ENSG00000116128	ENST00000234739	protein_coding	KNOWN	CCDS30833	1008	4281	1426	147013182	147098017	1	None	None
1	BCL9	ENSG00000116128	ENST00000497938	processed_transcript	KNOWN	None	1008	None	None	147071988	147083492	1	None	None
1	BCL9	ENSG00000116128	ENST00000473292	processed_transcript	KNOWN	None	1008	None	None	147083412	147087702	1	None	None
11	ALG8	ENSG00000159063	ENST00000530608	protein_coding	NOVEL	None	23161	686	227	77811982	77824987	-1	None	MGC2840
11	ALG8	ENSG00000159063	ENST00000299626	protein_coding	KNOWN	CCDS8258	23161	1581	526	77811988	77850706	-1	None	MGC2840
11	ALG8	ENSG00000159063	ENST00000525783	protein_coding	PUTATIVE	None	23161	263	86	77811991	77823797	-1	None	MGC2840
11	ALG8	ENSG00000159063	ENST00000531213	retained_intron	KNOWN	None	23161	None	None	77811992	77815595	-1	None	MGC2840
11	ALG8	ENSG00000159063	ENST00000526849	protein_coding	NOVEL	None	23161	594	197	77811992	77820572	-1	None	MGC2840
11	ALG8	ENSG00000159063	ENST00000376156	protein_coding	KNOWN	CCDS41692	23161	1404	467	77811993	77850638	-1	None	MGC2840
11	ALG8	ENSG00000159063	ENST00000526737	nonsense_mediated_decay	KNOWN	None	23161	402	133	77812012	77850695	-1	None	MGC2840
11	ALG8	ENSG00000159063	ENST00000532306	protein_coding	NOVEL	None	23161	844	280	77812107	77832209	-1	None	MGC2840
11	ALG8	ENSG00000159063	ENST00000532552	processed_transcript	KNOWN	None	23161	None	None	77812210	77850660	-1	None	MGC2840
11	ALG8	ENSG00000159063	ENST00000532440	protein_coding	NOVEL	None	23161	680	225	77817853	77825438	-1	None	MGC2840
11	ALG8	ENSG00000159063	ENST00000524925	processed_transcript	KNOWN	None	23161	None	None	77817856	77825422	-1	None	MGC2840
11	ALG8	ENSG00000159063	ENST00000529139	protein_coding	PUTATIVE	None	23161	473	156	77823426	77832122	-1	None	MGC2840
11	ALG8	ENSG00000159063	ENST00000525755	protein_coding	PUTATIVE	None	23161	728	241	77823713	77850670	-1	None	MGC2840
11	ALG8	ENSG00000159063	ENST00000530454	protein_coding	NOVEL	None	23161	847	281	77823750	77850668	-1	None	MGC2840
11	ALG8	ENSG00000159063	ENST00000525870	protein_coding	PUTATIVE	None	23161	518	171	77823812	77850665	-1	None	MGC2840
11	ALG8	ENSG00000159063	ENST00000532050	nonsense_mediated_decay	KNOWN	None	23161	711	236	77824946	77850668	-1	None	MGC2840
11	ALG8	ENSG00000159063	ENST00000527099	protein_coding	PUTATIVE	None	23161	409	135	77825312	77850672	-1	None	MGC2840
11	ALG8	ENSG00000159063	ENST00000530910	protein_coding	PUTATIVE	None	23161	379	125	77832183	77850304	-1	None	MGC2840
11	ALG8	ENSG00000159063	ENST00000525761	protein_coding	PUTATIVE	None	23161	291	96	77835066	77850676	-1	None	MGC2840
11	ALG8	ENSG00000159063	ENST00000526928	processed_transcript	PUTATIVE	None	23161	None	None	77846335	77850690	-1	None	MGC2840
19	RABAC1	ENSG00000105404	ENST00000598057	retained_intron	KNOWN	None	9794	None	None	42460833	42461494	-1	None	PRA1, PRAF1, YIP3
19	RABAC1	ENSG00000105404	ENST00000600292	protein_coding	PUTATIVE	None	9794	448	148	42460833	42463418	-1	None	PRA1, PRAF1, YIP3
19	RABAC1	ENSG00000105404	ENST00000601891	protein_coding	NOVEL	None	9794	456	151	42460833	42463451	-1	None	PRA1, PRAF1, YIP3
19	RABAC1	ENSG00000105404	ENST00000222008	protein_coding	KNOWN	CCDS12593	9794	558	185	42460833	42463542	-1	None	PRA1, PRAF1, YIP3
19	RABAC1	ENSG00000105404	ENST00000601028	protein_coding	PUTATIVE	None	9794	330	109	42460838	42463066	-1	None	PRA1, PRAF1, YIP3
19	RABAC1	ENSG00000105404	ENST00000595226	retained_intron	KNOWN	None	9794	None	None	42460844	42461651	-1	None	PRA1, PRAF1, YIP3
19	RABAC1	ENSG00000105404	ENST00000601078	protein_coding	PUTATIVE	None	9794	276	91	42460933	42463427	-1	None	PRA1, PRAF1, YIP3
19	RABAC1	ENSG00000105404	ENST00000596171	retained_intron	KNOWN	None	9794	None	None	42461186	42463462	-1	None	PRA1, PRAF1, YIP3
19	RABAC1	ENSG00000105404	ENST00000601476	retained_intron	KNOWN	None	9794	None	None	42462011	42463421	-1	None	PRA1, PRAF1, YIP3
19	RABAC1	ENSG00000105404	ENST00000599219	retained_intron	KNOWN	None	9794	None	None	42462304	42463454	-1	None	PRA1, PRAF1, YIP3
19	CYP4F11	ENSG00000171903	ENST00000326742	protein_coding	NOVEL	None	13265	1365	454	16023182	16045220	-1	None	None
19	CYP4F11	ENSG00000171903	ENST00000591841	retained_intron	KNOWN	None	13265	None	None	16023749	16038921	-1	None	None
19	CYP4F11	ENSG00000171903	ENST00000402119	protein_coding	KNOWN	CCDS12337	13265	1575	524	16024486	16045645	-1	None	None
19	CYP4F11	ENSG00000171903	ENST00000248041	protein_coding	KNOWN	CCDS12337	13265	1575	524	16024486	16045677	-1	None	None
2	SLC1A4	ENSG00000115902	ENST00000493121	processed_transcript	KNOWN	None	10942	None	None	65215611	65243688	1	None	SATT, ASCT1
2	SLC1A4	ENSG00000115902	ENST00000471551	processed_transcript	KNOWN	None	10942	None	None	65215624	65245261	1	None	SATT, ASCT1
2	SLC1A4	ENSG00000115902	ENST00000531327	protein_coding	PUTATIVE	CCDS54362	10942	705	234	65215624	65248528	1	None	SATT, ASCT1
2	SLC1A4	ENSG00000115902	ENST00000234256	protein_coding	KNOWN	CCDS1879	10942	1599	532	65216535	65250999	1	None	SATT, ASCT1
2	SLC1A4	ENSG00000115902	ENST00000480594	retained_intron	KNOWN	None	10942	None	None	65226582	65250997	1	None	SATT, ASCT1
X	VSIG4	ENSG00000155659	ENST00000427538	protein_coding	KNOWN	None	17032	823	273	65241580	65253506	-1	None	Z39IG
X	VSIG4	ENSG00000155659	ENST00000374737	protein_coding	KNOWN	CCDS14383	17032	1200	399	65241580	65259949	-1	None	Z39IG
X	VSIG4	ENSG00000155659	ENST00000412866	protein_coding	KNOWN	CCDS48132	17032	918	305	65241611	65259902	-1	None	Z39IG
X	VSIG4	ENSG00000155659	ENST00000423830	protein_coding	KNOWN	None	17032	604	200	65247291	65259952	-1	None	Z39IG
X	VSIG4	ENSG00000155659	ENST00000455586	protein_coding	KNOWN	CCDS55435	17032	966	321	65241582	65259967	-1	None	Z39IG
15	CD276	ENSG00000103855	ENST00000567189	protein_coding	KNOWN	None	19137	398	131	73976307	73994914	1	None	B7-H3, B7H3, B7RP-2
15	CD276	ENSG00000103855	ENST00000318443	protein_coding	KNOWN	CCDS32288	19137	1605	534	73976554	74006859	1	None	B7-H3, B7H3, B7RP-2
15	CD276	ENSG00000103855	ENST00000537340	protein_coding	PUTATIVE	None	19137	1167	388	73976610	74006018	1	None	B7-H3, B7H3, B7RP-2
15	CD276	ENSG00000103855	ENST00000558689	protein_coding	KNOWN	None	19137	410	135	73976724	73994926	1	None	B7-H3, B7H3, B7RP-2
15	CD276	ENSG00000103855	ENST00000560786	protein_coding	KNOWN	None	19137	468	155	73976724	73995162	1	None	B7-H3, B7H3, B7RP-2
15	CD276	ENSG00000103855	ENST00000561213	protein_coding	KNOWN	None	19137	1602	533	73976732	74004495	1	None	B7-H3, B7H3, B7RP-2
15	CD276	ENSG00000103855	ENST00000563584	protein_coding	PUTATIVE	None	19137	439	145	73976779	73994838	1	None	B7-H3, B7H3, B7RP-2
15	CD276	ENSG00000103855	ENST00000560928	nonsense_mediated_decay	KNOWN	None	19137	117	38	73976779	74005921	1	None	B7-H3, B7H3, B7RP-2
15	CD276	ENSG00000103855	ENST00000561416	protein_coding	KNOWN	None	19137	155	50	73976843	73994671	1	None	B7-H3, B7H3, B7RP-2
15	CD276	ENSG00000103855	ENST00000560995	protein_coding	KNOWN	None	19137	398	131	73977072	73994914	1	None	B7-H3, B7H3, B7RP-2
15	CD276	ENSG00000103855	ENST00000567582	nonsense_mediated_decay	KNOWN	None	19137	117	38	73977113	73995293	1	None	B7-H3, B7H3, B7RP-2
15	CD276	ENSG00000103855	ENST00000561260	protein_coding	KNOWN	None	19137	496	164	73977347	73995190	1	None	B7-H3, B7H3, B7RP-2
15	CD276	ENSG00000103855	ENST00000564751	protein_coding	KNOWN	CCDS10251	19137	951	316	73991981	74005297	1	None	B7-H3, B7H3, B7RP-2
15	CD276	ENSG00000103855	ENST00000561176	protein_coding	NOVEL	None	19137	598	198	73996250	74005339	1	None	B7-H3, B7H3, B7RP-2
15	CD276	ENSG00000103855	ENST00000557951	retained_intron	KNOWN	None	19137	None	None	73996292	74001030	1	None	B7-H3, B7H3, B7RP-2
15	CD276	ENSG00000103855	ENST00000559073	nonsense_mediated_decay	KNOWN	None	19137	512	169	73996538	74006855	1	None	B7-H3, B7H3, B7RP-2
15	CD276	ENSG00000103855	ENST00000559978	retained_intron	KNOWN	None	19137	None	None	74001906	74006394	1	None	B7-H3, B7H3, B7RP-2
15	CD276	ENSG00000103855	ENST00000559465	retained_intron	KNOWN	None	19137	None	None	74003473	74006855	1	None	B7-H3, B7H3, B7RP-2
15	CD276	ENSG00000103855	ENST00000318424	protein_coding	KNOWN	CCDS10251	19137	951	316	73976622	74006850	1	None	B7-H3, B7H3, B7RP-2
5	None	ENSG00000250619	ENST00000506519	antisense	KNOWN	None	None	None	None	9001886	9046052	1	None	None
12	C1RL	ENSG00000139178	ENST00000539803	nonsense_mediated_decay	KNOWN	None	21265	200	65	7242183	7252556	-1	None	C1r-LP, C1RL1
12	C1RL	ENSG00000139178	ENST00000545280	protein_coding	PUTATIVE	None	21265	333	110	7246303	7261793	-1	None	C1r-LP, C1RL1
12	C1RL	ENSG00000139178	ENST00000266542	protein_coding	KNOWN	CCDS8573	21265	1464	487	7247150	7261869	-1	None	C1r-LP, C1RL1
12	C1RL	ENSG00000139178	ENST00000504702	processed_transcript	PUTATIVE	None	21265	None	None	7247350	7249854	-1	None	C1r-LP, C1RL1
12	C1RL	ENSG00000139178	ENST00000544702	protein_coding	PUTATIVE	None	21265	945	314	7248987	7261834	-1	None	C1r-LP, C1RL1
12	C1RL	ENSG00000139178	ENST00000534950	protein_coding	NOVEL	None	21265	582	193	7249366	7254681	-1	None	C1r-LP, C1RL1
12	C1RL	ENSG00000139178	ENST00000543933	protein_coding	NOVEL	None	21265	575	190	7249750	7261793	-1	None	C1r-LP, C1RL1
12	C1RL	ENSG00000139178	ENST00000537833	nonsense_mediated_decay	KNOWN	None	21265	256	84	7250892	7260899	-1	None	C1r-LP, C1RL1
12	C1RL	ENSG00000139178	ENST00000534969	nonsense_mediated_decay	KNOWN	None	21265	252	83	7250893	7260895	-1	None	C1r-LP, C1RL1
12	C1RL	ENSG00000139178	ENST00000545337	protein_coding	PUTATIVE	None	21265	564	187	7254201	7261806	-1	None	C1r-LP, C1RL1
12	C1RL	ENSG00000139178	ENST00000543941	retained_intron	KNOWN	None	21265	None	None	7254496	7261197	-1	None	C1r-LP, C1RL1
12	C1RL	ENSG00000139178	ENST00000539927	retained_intron	KNOWN	None	21265	None	None	7260741	7261724	-1	None	C1r-LP, C1RL1
1	ACP6	ENSG00000162836	ENST00000460583	processed_transcript	KNOWN	None	29609	None	None	147119170	147122485	-1	None	LPAP, ACPL1
1	ACP6	ENSG00000162836	ENST00000369238	protein_coding	KNOWN	CCDS928	29609	1287	428	147119172	147142618	-1	None	LPAP, ACPL1
1	ACP6	ENSG00000162836	ENST00000487562	processed_transcript	KNOWN	None	29609	None	None	147121620	147126389	-1	None	LPAP, ACPL1
1	ACP6	ENSG00000162836	ENST00000493129	processed_transcript	KNOWN	None	29609	None	None	147131076	147142574	-1	None	LPAP, ACPL1
1	ACP6	ENSG00000162836	ENST00000392988	protein_coding	KNOWN	None	29609	816	271	147124415	147142364	-1	None	LPAP, ACPL1
10	BLNK	ENSG00000095585	ENST00000224337	protein_coding	KNOWN	CCDS7446	14211	1371	456	97951458	98031297	-1	None	SLP65, Ly57, SLP-65, BLNK-s, BASH, bca
10	BLNK	ENSG00000095585	ENST00000371176	protein_coding	NOVEL	CCDS44464	14211	1302	433	97951458	98031297	-1	None	SLP65, Ly57, SLP-65, BLNK-s, BASH, bca
10	BLNK	ENSG00000095585	ENST00000485193	retained_intron	KNOWN	None	14211	None	None	97959722	97964610	-1	None	SLP65, Ly57, SLP-65, BLNK-s, BASH, bca
10	BLNK	ENSG00000095585	ENST00000467799	nonsense_mediated_decay	KNOWN	None	14211	366	121	97964288	98031344	-1	None	SLP65, Ly57, SLP-65, BLNK-s, BASH, bca
10	BLNK	ENSG00000095585	ENST00000468252	retained_intron	KNOWN	None	14211	None	None	97964353	97970059	-1	None	SLP65, Ly57, SLP-65, BLNK-s, BASH, bca
10	BLNK	ENSG00000095585	ENST00000472763	retained_intron	KNOWN	None	14211	None	None	97975605	97987253	-1	None	SLP65, Ly57, SLP-65, BLNK-s, BASH, bca
10	BLNK	ENSG00000095585	ENST00000495266	protein_coding	PUTATIVE	None	14211	198	65	97998644	98031155	-1	None	SLP65, Ly57, SLP-65, BLNK-s, BASH, bca
10	BLNK	ENSG00000095585	ENST00000427367	protein_coding	KNOWN	None	14211	1266	421	97951463	98031333	-1	None	SLP65, Ly57, SLP-65, BLNK-s, BASH, bca
10	BLNK	ENSG00000095585	ENST00000413476	protein_coding	KNOWN	CCDS58091	14211	1215	404	97951463	98031333	-1	None	SLP65, Ly57, SLP-65, BLNK-s, BASH, bca
16	NOD2	ENSG00000167207	ENST00000526417	processed_transcript	KNOWN	None	5331	None	None	50727514	50744862	1	IBD1, CARD15	BLAU, CD, PSORAS1, CLR16.3, NLRC2
16	NOD2	ENSG00000167207	ENST00000531674	protein_coding	PUTATIVE	None	5331	438	145	50727537	50733844	1	IBD1, CARD15	BLAU, CD, PSORAS1, CLR16.3, NLRC2
16	NOD2	ENSG00000167207	ENST00000300589	protein_coding	KNOWN	CCDS10746	5331	3123	1040	50731050	50766988	1	IBD1, CARD15	BLAU, CD, PSORAS1, CLR16.3, NLRC2
16	NOD2	ENSG00000167207	ENST00000527070	nonsense_mediated_decay	KNOWN	None	5331	108	35	50731051	50744702	1	IBD1, CARD15	BLAU, CD, PSORAS1, CLR16.3, NLRC2
16	NOD2	ENSG00000167207	ENST00000532206	processed_transcript	KNOWN	None	5331	None	None	50731051	50744702	1	IBD1, CARD15	BLAU, CD, PSORAS1, CLR16.3, NLRC2
16	NOD2	ENSG00000167207	ENST00000534067	nonsense_mediated_decay	KNOWN	None	5331	181	59	50746105	50757285	1	IBD1, CARD15	BLAU, CD, PSORAS1, CLR16.3, NLRC2
16	NOD2	ENSG00000167207	ENST00000529633	nonsense_mediated_decay	KNOWN	None	5331	181	59	50746105	50757285	1	IBD1, CARD15	BLAU, CD, PSORAS1, CLR16.3, NLRC2
16	NOD2	ENSG00000167207	ENST00000524712	nonsense_mediated_decay	KNOWN	None	5331	181	59	50746105	50757285	1	IBD1, CARD15	BLAU, CD, PSORAS1, CLR16.3, NLRC2
16	NOD2	ENSG00000167207	ENST00000527052	nonsense_mediated_decay	KNOWN	None	5331	181	59	50746105	50757285	1	IBD1, CARD15	BLAU, CD, PSORAS1, CLR16.3, NLRC2
16	NOD2	ENSG00000167207	ENST00000534057	protein_coding	NOVEL	None	5331	506	167	50746105	50757285	1	IBD1, CARD15	BLAU, CD, PSORAS1, CLR16.3, NLRC2
11	FERMT3	ENSG00000149781	ENST00000544997	protein_coding	KNOWN	None	23151	858	285	63974150	63986794	1	None	URP2, KIND3, MIG2B, MGC10966, MIG-2, UNC112C
11	FERMT3	ENSG00000149781	ENST00000345728	protein_coding	KNOWN	CCDS8059	23151	1992	663	63974206	63991354	1	None	URP2, KIND3, MIG2B, MGC10966, MIG-2, UNC112C
11	FERMT3	ENSG00000149781	ENST00000279227	protein_coding	KNOWN	CCDS8060	23151	2004	667	63974206	63991354	1	None	URP2, KIND3, MIG2B, MGC10966, MIG-2, UNC112C
11	FERMT3	ENSG00000149781	ENST00000541252	protein_coding	PUTATIVE	None	23151	244	80	63975289	63979217	1	None	URP2, KIND3, MIG2B, MGC10966, MIG-2, UNC112C
11	FERMT3	ENSG00000149781	ENST00000541326	retained_intron	KNOWN	None	23151	None	None	63979122	63988070	1	None	URP2, KIND3, MIG2B, MGC10966, MIG-2, UNC112C
11	FERMT3	ENSG00000149781	ENST00000546255	retained_intron	KNOWN	None	23151	None	None	63979176	63987488	1	None	URP2, KIND3, MIG2B, MGC10966, MIG-2, UNC112C
11	FERMT3	ENSG00000149781	ENST00000540957	retained_intron	KNOWN	None	23151	None	None	63986949	63987922	1	None	URP2, KIND3, MIG2B, MGC10966, MIG-2, UNC112C
11	FERMT3	ENSG00000149781	ENST00000545896	protein_coding	PUTATIVE	None	23151	555	184	63987909	63991320	1	None	URP2, KIND3, MIG2B, MGC10966, MIG-2, UNC112C
11	FERMT3	ENSG00000149781	ENST00000540554	retained_intron	KNOWN	None	23151	None	None	63988307	63990592	1	None	URP2, KIND3, MIG2B, MGC10966, MIG-2, UNC112C
X	AKAP17A	ENSG00000197976	ENST00000313871	protein_coding	KNOWN	CCDS14116	18783	2088	695	1710486	1721407	1	CXYorf3, SFRS17A	XE7, XE7Y, DXYS155E, MGC39904, 721P, CCDC133
X	AKAP17A	ENSG00000197976	ENST00000474361	nonsense_mediated_decay	KNOWN	None	18783	1158	385	1710516	1721395	1	CXYorf3, SFRS17A	XE7, XE7Y, DXYS155E, MGC39904, 721P, CCDC133
X	AKAP17A	ENSG00000197976	ENST00000381261	protein_coding	KNOWN	None	18783	1341	446	1710518	1719196	1	CXYorf3, SFRS17A	XE7, XE7Y, DXYS155E, MGC39904, 721P, CCDC133
11	None	ENSG00000265264	ENST00000464330	nonsense_mediated_decay	NOVEL	None	None	216	71	6502715	6530208	1	None	None
11	None	ENSG00000265264	ENST00000472836	nonsense_mediated_decay	KNOWN	CCDS7766	None	312	103	6502731	6519469	1	None	None
11	FADS2	ENSG00000134824	ENST00000574708	protein_coding	PUTATIVE	None	3575	168	55	61560452	61593984	1	LLCDL2	FADSD6, D6D, TU13, DES6, SLL0262
11	FADS2	ENSG00000134824	ENST00000257261	protein_coding	KNOWN	None	3575	1269	422	61583728	61634826	1	LLCDL2	FADSD6, D6D, TU13, DES6, SLL0262
11	FADS2	ENSG00000134824	ENST00000522639	protein_coding	PUTATIVE	None	3575	168	55	61583875	61593984	1	LLCDL2	FADSD6, D6D, TU13, DES6, SLL0262
11	FADS2	ENSG00000134824	ENST00000522056	protein_coding	PUTATIVE	None	3575	1242	413	61583876	61633429	1	LLCDL2	FADSD6, D6D, TU13, DES6, SLL0262
11	FADS2	ENSG00000134824	ENST00000517839	protein_coding	PUTATIVE	None	3575	159	52	61584018	61593984	1	LLCDL2	FADSD6, D6D, TU13, DES6, SLL0262
11	FADS2	ENSG00000134824	ENST00000518606	protein_coding	PUTATIVE	None	3575	311	102	61594864	61615689	1	LLCDL2	FADSD6, D6D, TU13, DES6, SLL0262
11	FADS2	ENSG00000134824	ENST00000278840	protein_coding	KNOWN	CCDS8012	3575	1335	444	61595233	61634826	1	LLCDL2	FADSD6, D6D, TU13, DES6, SLL0262
11	FADS2	ENSG00000134824	ENST00000517312	protein_coding	PUTATIVE	None	3575	280	92	61595651	61615658	1	LLCDL2	FADSD6, D6D, TU13, DES6, SLL0262
11	FADS2	ENSG00000134824	ENST00000521849	protein_coding	KNOWN	None	3575	1161	386	61595752	61631693	1	LLCDL2	FADSD6, D6D, TU13, DES6, SLL0262
11	FADS2	ENSG00000134824	ENST00000521571	protein_coding	PUTATIVE	None	3575	286	94	61607769	61630549	1	LLCDL2	FADSD6, D6D, TU13, DES6, SLL0262
11	FADS2	ENSG00000134824	ENST00000520145	retained_intron	KNOWN	None	3575	None	None	61608114	61615636	1	LLCDL2	FADSD6, D6D, TU13, DES6, SLL0262
11	FADS2	ENSG00000134824	ENST00000355484	protein_coding	PUTATIVE	None	3575	455	150	61614063	61631258	1	LLCDL2	FADSD6, D6D, TU13, DES6, SLL0262
11	FADS2	ENSG00000134824	ENST00000543584	retained_intron	KNOWN	None	3575	None	None	61615636	61617272	1	LLCDL2	FADSD6, D6D, TU13, DES6, SLL0262
11	FADS2	ENSG00000134824	ENST00000523235	retained_intron	KNOWN	None	3575	None	None	61621659	61634819	1	LLCDL2	FADSD6, D6D, TU13, DES6, SLL0262
11	FADS2	ENSG00000134824	ENST00000522359	retained_intron	KNOWN	None	3575	None	None	61629445	61632791	1	LLCDL2	FADSD6, D6D, TU13, DES6, SLL0262
4	HAUS3	ENSG00000214367	ENST00000506763	protein_coding	PUTATIVE	None	28719	1470	489	2229191	2243848	-1	C4orf15	MGC4701, IT1, dgt3
4	HAUS3	ENSG00000214367	ENST00000243706	protein_coding	KNOWN	CCDS33941	28719	1812	603	2230076	2243860	-1	C4orf15	MGC4701, IT1, dgt3
4	HAUS3	ENSG00000214367	ENST00000443786	protein_coding	KNOWN	CCDS33941	28719	1812	603	2233568	2243891	-1	C4orf15	MGC4701, IT1, dgt3
4	HAUS3	ENSG00000214367	ENST00000514395	protein_coding	KNOWN	None	28719	100	32	2242574	2243848	-1	C4orf15	MGC4701, IT1, dgt3
4	HAUS3	ENSG00000214367	ENST00000502440	protein_coding	KNOWN	None	28719	31	9	2242643	2243855	-1	C4orf15	MGC4701, IT1, dgt3
19	ZNF665	ENSG00000197497	ENST00000596564	processed_transcript	KNOWN	None	25885	None	None	53662466	53667152	-1	None	FLJ14345
19	ZNF665	ENSG00000197497	ENST00000600412	protein_coding	PUTATIVE	None	25885	1842	613	53667391	53696627	-1	None	FLJ14345
19	ZNF665	ENSG00000197497	ENST00000396424	protein_coding	KNOWN	CCDS46169	25885	2037	678	53667638	53696609	-1	None	FLJ14345
19	ZNF665	ENSG00000197497	ENST00000597544	processed_transcript	KNOWN	None	25885	None	None	53682821	53696639	-1	None	FLJ14345
19	ZNF665	ENSG00000197497	ENST00000596373	processed_transcript	KNOWN	None	25885	None	None	53682950	53696580	-1	None	FLJ14345
19	ZNF665	ENSG00000197497	ENST00000598440	processed_transcript	KNOWN	None	25885	None	None	53683900	53696619	-1	None	FLJ14345
12	None	ENSG00000255641	ENST00000539033	protein_coding	KNOWN	None	None	723	240	10564911	10588600	-1	None	None
1	GJA5	ENSG00000143140	ENST00000369237	protein_coding	KNOWN	CCDS929	4279	1077	358	147229306	147232685	-1	None	CX40
1	GJA5	ENSG00000143140	ENST00000430508	protein_coding	KNOWN	None	4279	755	250	147230592	147245458	-1	None	CX40
1	GJA5	ENSG00000143140	ENST00000271348	protein_coding	KNOWN	CCDS929	4279	1077	358	147228332	147245484	-1	None	CX40
1	CDK18	ENSG00000117266	ENST00000429964	protein_coding	KNOWN	CCDS44300	8751	1425	474	205473723	205500506	1	PCTK3	PCTAIRE3
1	CDK18	ENSG00000117266	ENST00000512922	nonsense_mediated_decay	KNOWN	None	8751	219	72	205473724	205495963	1	PCTK3	PCTAIRE3
1	CDK18	ENSG00000117266	ENST00000504648	nonsense_mediated_decay	KNOWN	None	8751	219	72	205473725	205500890	1	PCTK3	PCTAIRE3
1	CDK18	ENSG00000117266	ENST00000506784	protein_coding	KNOWN	CCDS1454	8751	1515	504	205473726	205500914	1	PCTK3	PCTAIRE3
1	CDK18	ENSG00000117266	ENST00000360066	protein_coding	KNOWN	CCDS44300	8751	1425	474	205473727	205501921	1	PCTK3	PCTAIRE3
1	CDK18	ENSG00000117266	ENST00000507067	processed_transcript	KNOWN	None	8751	None	None	205473787	205492814	1	PCTK3	PCTAIRE3
1	CDK18	ENSG00000117266	ENST00000462976	nonsense_mediated_decay	KNOWN	None	8751	219	72	205473816	205493483	1	PCTK3	PCTAIRE3
1	CDK18	ENSG00000117266	ENST00000478560	protein_coding	PUTATIVE	None	8751	542	179	205473822	205497001	1	PCTK3	PCTAIRE3
1	CDK18	ENSG00000117266	ENST00000443813	protein_coding	NOVEL	None	8751	478	158	205473833	205494318	1	PCTK3	PCTAIRE3
1	CDK18	ENSG00000117266	ENST00000506215	protein_coding	PUTATIVE	None	8751	194	63	205473877	205493457	1	PCTK3	PCTAIRE3
1	CDK18	ENSG00000117266	ENST00000419301	protein_coding	KNOWN	None	8751	851	282	205473930	205496953	1	PCTK3	PCTAIRE3
1	CDK18	ENSG00000117266	ENST00000509056	processed_transcript	KNOWN	None	8751	None	None	205484479	205501915	1	PCTK3	PCTAIRE3
1	CDK18	ENSG00000117266	ENST00000507240	processed_transcript	PUTATIVE	None	8751	None	None	205485945	205492407	1	PCTK3	PCTAIRE3
1	CDK18	ENSG00000117266	ENST00000515494	nonsense_mediated_decay	KNOWN	None	8751	219	72	205491557	205501913	1	PCTK3	PCTAIRE3
1	CDK18	ENSG00000117266	ENST00000476153	retained_intron	KNOWN	None	8751	None	None	205492682	205496391	1	PCTK3	PCTAIRE3
1	CDK18	ENSG00000117266	ENST00000505932	processed_transcript	KNOWN	None	8751	None	None	205492688	205499144	1	PCTK3	PCTAIRE3
1	CDK18	ENSG00000117266	ENST00000489617	retained_intron	KNOWN	None	8751	None	None	205496538	205501921	1	PCTK3	PCTAIRE3
1	CDK18	ENSG00000117266	ENST00000506489	processed_transcript	PUTATIVE	None	8751	None	None	205496956	205498122	1	PCTK3	PCTAIRE3
1	CDK18	ENSG00000117266	ENST00000468954	processed_transcript	KNOWN	None	8751	None	None	205497183	205498707	1	PCTK3	PCTAIRE3
1	CDK18	ENSG00000117266	ENST00000504162	retained_intron	KNOWN	None	8751	None	None	205497259	205498644	1	PCTK3	PCTAIRE3
1	CDK18	ENSG00000117266	ENST00000512008	processed_transcript	KNOWN	None	8751	None	None	205498322	205500532	1	PCTK3	PCTAIRE3
1	CDK18	ENSG00000117266	ENST00000484080	processed_transcript	KNOWN	None	8751	None	None	205498329	205501070	1	PCTK3	PCTAIRE3
1	CDK18	ENSG00000117266	ENST00000515514	processed_transcript	KNOWN	None	8751	None	None	205498347	205500680	1	PCTK3	PCTAIRE3
1	CDK18	ENSG00000117266	ENST00000459862	processed_transcript	KNOWN	None	8751	None	None	205499441	205500794	1	PCTK3	PCTAIRE3
6	PSMB1	ENSG00000008018	ENST00000262193	protein_coding	KNOWN	CCDS34577	9537	726	241	170844205	170862429	-1	None	PMSB1, HC5
6	PSMB1	ENSG00000008018	ENST00000462957	processed_transcript	KNOWN	None	9537	None	None	170844310	170859529	-1	None	PMSB1, HC5
X	ELF4	ENSG00000102034	ENST00000335997	protein_coding	KNOWN	CCDS14617	3319	1992	663	129198849	129244691	-1	None	MEF, ELFR
X	ELF4	ENSG00000102034	ENST00000308167	protein_coding	KNOWN	CCDS14617	3319	1992	663	129198903	129244470	-1	None	MEF, ELFR
X	ELF4	ENSG00000102034	ENST00000434609	protein_coding	KNOWN	None	3319	230	75	129208080	129244336	-1	None	MEF, ELFR
5	MIR4636	ENSG00000266415	ENST00000582271	miRNA	KNOWN	None	41798	None	None	9053928	9054007	-1	None	hsa-mir-4636
1	GJA8	ENSG00000121634	ENST00000369235	protein_coding	KNOWN	CCDS30834	4281	1302	433	147380083	147381384	1	CAE1, CZP1, CAE	CX50
1	GJA8	ENSG00000121634	ENST00000240986	protein_coding	KNOWN	CCDS30834	4281	1302	433	147374946	147381393	1	CAE1, CZP1, CAE	CX50
5	None	ENSG00000248537	ENST00000511310	antisense	KNOWN	None	None	None	None	9363387	9422593	1	None	None
5	None	ENSG00000251370	ENST00000510879	lincRNA	KNOWN	None	None	None	None	9511445	9518198	1	None	None
12	KLRC3	ENSG00000205810	ENST00000396439	protein_coding	KNOWN	CCDS41755	6376	723	240	10564911	10573194	-1	None	NKG2-E
12	KLRC3	ENSG00000205810	ENST00000381903	protein_coding	KNOWN	CCDS31744	6376	774	257	10568183	10573149	-1	None	NKG2-E
12	KLRC3	ENSG00000205810	ENST00000381904	protein_coding	KNOWN	None	6376	723	240	10564921	10573149	-1	None	NKG2-E
8	PTK2	ENSG00000169398	ENST00000522684	protein_coding	KNOWN	CCDS6381	9611	3159	1052	141667999	142011332	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000519654	protein_coding	NOVEL	None	9611	3052	1016	141668488	141900867	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000519465	protein_coding	PUTATIVE	None	9611	2043	680	141668501	141774622	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000517887	protein_coding	PUTATIVE	None	9611	3291	1096	141668501	141931318	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000521059	protein_coding	KNOWN	CCDS6381	9611	3159	1052	141668501	142011295	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000517712	protein_coding	PUTATIVE	None	9611	348	115	141668504	141680363	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000523539	protein_coding	NOVEL	None	9611	2175	724	141668504	141810645	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000340930	protein_coding	NOVEL	CCDS56557	9611	3198	1065	141668504	142011257	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000519993	nonsense_mediated_decay	KNOWN	None	9611	201	66	141668504	142011478	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000519419	protein_coding	PUTATIVE	None	9611	3291	1096	141668729	141964934	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000524202	nonsense_mediated_decay	KNOWN	None	9611	959	318	141669170	141856389	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000430260	protein_coding	PUTATIVE	None	9611	1089	362	141669172	141728833	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000521986	protein_coding	NOVEL	None	9611	2262	753	141669434	141810642	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000523435	protein_coding	PUTATIVE	None	9611	360	119	141669586	141673183	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000522950	protein_coding	PUTATIVE	None	9611	204	67	141669719	141673187	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000523805	processed_transcript	KNOWN	None	9611	None	None	141678378	141696877	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000520460	processed_transcript	KNOWN	None	9611	None	None	141678388	141685878	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000521985	processed_transcript	PUTATIVE	None	9611	None	None	141696969	141712814	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000518173	retained_intron	KNOWN	None	9611	None	None	141710869	141716267	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000522424	protein_coding	PUTATIVE	None	9611	399	132	141711020	141731887	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000521562	protein_coding	PUTATIVE	None	9611	396	131	141711023	141728454	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000521250	nonsense_mediated_decay	KNOWN	None	9611	219	72	141711042	141810648	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000523388	protein_coding	PUTATIVE	None	9611	202	66	141712764	141728147	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000521981	nonsense_mediated_decay	KNOWN	None	9611	387	128	141712797	141810642	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000521029	nonsense_mediated_decay	KNOWN	None	9611	240	79	141716256	141774452	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000518509	processed_transcript	KNOWN	None	9611	None	None	141727788	141754902	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000520917	retained_intron	KNOWN	None	9611	None	None	141745144	141754801	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000520151	protein_coding	PUTATIVE	None	9611	375	124	141753336	141774512	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000523670	nonsense_mediated_decay	KNOWN	None	9611	219	72	141753389	141774518	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000519024	protein_coding	PUTATIVE	None	9611	506	167	141754784	141774520	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000523746	processed_transcript	KNOWN	None	9611	None	None	141754796	141809396	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000510126	retained_intron	KNOWN	None	9611	None	None	141754800	141757371	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000523474	processed_transcript	KNOWN	None	9611	None	None	141754846	141781065	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000519899	retained_intron	KNOWN	None	9611	None	None	141756549	141774500	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000519361	processed_transcript	KNOWN	None	9611	None	None	141756933	141775335	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000520843	processed_transcript	KNOWN	None	9611	None	None	141760302	141774359	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000521172	processed_transcript	KNOWN	None	9611	None	None	141762331	141781543	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000524357	protein_coding	NOVEL	None	9611	367	121	141829083	142011359	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000521791	nonsense_mediated_decay	KNOWN	None	9611	201	66	141840575	142011025	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000523067	nonsense_mediated_decay	KNOWN	None	9611	201	66	141856706	142011266	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000520828	protein_coding	PUTATIVE	None	9611	177	58	141856748	142011263	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000520475	protein_coding	KNOWN	None	9611	470	155	141856758	141944659	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000519881	protein_coding	PUTATIVE	None	9611	366	121	141889261	142011383	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000520892	protein_coding	PUTATIVE	None	9611	366	121	141889540	142011036	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000523803	protein_coding	KNOWN	None	9611	362	119	141889570	141994138	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000521907	protein_coding	KNOWN	None	9611	357	118	141889575	141994093	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000517453	protein_coding	KNOWN	None	9611	353	116	141889579	142012209	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000520045	protein_coding	KNOWN	None	9611	351	116	141889581	142011384	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000521395	protein_coding	KNOWN	None	9611	321	106	141889611	141944689	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000523675	retained_intron	KNOWN	None	9611	None	None	141900415	141931108	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000521332	protein_coding	KNOWN	None	9611	195	64	141900642	142011365	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000524040	protein_coding	KNOWN	None	9611	154	50	141900683	142011365	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000523679	protein_coding	PUTATIVE	None	9611	44	13	141930969	142011276	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000524257	protein_coding	PUTATIVE	None	9611	24	7	141930989	142011263	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000523797	processed_transcript	PUTATIVE	None	9611	None	None	141935687	142011221	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000519635	processed_transcript	PUTATIVE	None	9611	None	None	141935788	142012315	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000535192	protein_coding	KNOWN	None	9611	3021	1006	141668490	141900867	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000395218	protein_coding	KNOWN	None	9611	3198	1065	141668501	142011332	-1	None	FAK, FADK, FAK1, PPP1R71
8	PTK2	ENSG00000169398	ENST00000538769	protein_coding	KNOWN	None	9611	2163	720	141668504	141810645	-1	None	FAK, FADK, FAK1, PPP1R71
5	None	ENSG00000250001	ENST00000515377	sense_intronic	KNOWN	None	None	None	None	9519965	9523290	-1	None	None
20	BMP7	ENSG00000101144	ENST00000395863	protein_coding	KNOWN	CCDS13455	1074	1296	431	55743804	55841684	-1	None	OP-1
20	BMP7	ENSG00000101144	ENST00000395864	protein_coding	NOVEL	None	1074	1098	365	55745587	55841398	-1	None	OP-1
20	BMP7	ENSG00000101144	ENST00000476877	retained_intron	KNOWN	None	1074	None	None	55745973	55748645	-1	None	OP-1
20	BMP7	ENSG00000101144	ENST00000460817	processed_transcript	KNOWN	None	1074	None	None	55746095	55799741	-1	None	OP-1
20	BMP7	ENSG00000101144	ENST00000450594	protein_coding	NOVEL	None	1074	1239	412	55748052	55841685	-1	None	OP-1
20	BMP7	ENSG00000101144	ENST00000433911	protein_coding	NOVEL	None	1074	890	295	55748276	55840834	-1	None	OP-1
20	BMP7	ENSG00000101144	ENST00000463939	processed_transcript	KNOWN	None	1074	None	None	55752752	55762212	-1	None	OP-1
20	BMP7	ENSG00000101144	ENST00000524700	processed_transcript	PUTATIVE	None	1074	None	None	55777530	55799896	-1	None	OP-1
20	BMP7	ENSG00000101144	ENST00000530870	processed_transcript	PUTATIVE	None	1074	None	None	55777530	55819090	-1	None	OP-1
10	None	ENSG00000226578	ENST00000432530	lincRNA	KNOWN	None	None	None	None	38064299	38073059	-1	None	None
5	None	ENSG00000250786	ENST00000508179	lincRNA	KNOWN	None	None	None	None	9546312	9550721	1	None	None
5	None	ENSG00000250786	ENST00000509788	lincRNA	KNOWN	None	None	None	None	9546402	9549702	1	None	None
19	RCN3	ENSG00000142552	ENST00000270645	protein_coding	KNOWN	CCDS12771	21145	987	328	50030875	50046895	1	None	RLP49
19	RCN3	ENSG00000142552	ENST00000597801	protein_coding	PUTATIVE	None	21145	451	149	50031547	50040389	1	None	RLP49
19	RCN3	ENSG00000142552	ENST00000593644	processed_transcript	KNOWN	None	21145	None	None	50031801	50040341	1	None	RLP49
19	RCN3	ENSG00000142552	ENST00000598833	protein_coding	PUTATIVE	None	21145	510	169	50031883	50050219	1	None	RLP49
19	RCN3	ENSG00000142552	ENST00000593483	protein_coding	PUTATIVE	None	21145	175	57	50045859	50046890	1	None	RLP49
1	SCMH1	ENSG00000010803	ENST00000326197	protein_coding	KNOWN	CCDS30688	19003	1983	660	41492874	41626570	-1	None	Scml3
1	SCMH1	ENSG00000010803	ENST00000372595	protein_coding	KNOWN	CCDS53302	19003	1800	599	41492874	41628689	-1	None	Scml3
1	SCMH1	ENSG00000010803	ENST00000337495	protein_coding	KNOWN	CCDS53304	19003	1947	648	41492874	41707782	-1	None	Scml3
1	SCMH1	ENSG00000010803	ENST00000372597	protein_coding	KNOWN	CCDS461	19003	1776	591	41492874	41707788	-1	None	Scml3
1	SCMH1	ENSG00000010803	ENST00000372596	protein_coding	KNOWN	CCDS53301	19003	1734	577	41492874	41707788	-1	None	Scml3
1	SCMH1	ENSG00000010803	ENST00000472037	processed_transcript	KNOWN	None	19003	None	None	41492876	41503124	-1	None	Scml3
1	SCMH1	ENSG00000010803	ENST00000460215	processed_transcript	KNOWN	None	19003	None	None	41494256	41511508	-1	None	Scml3
1	SCMH1	ENSG00000010803	ENST00000498793	processed_transcript	KNOWN	None	19003	None	None	41494314	41512341	-1	None	Scml3
1	SCMH1	ENSG00000010803	ENST00000489421	processed_transcript	KNOWN	None	19003	None	None	41503034	41514432	-1	None	Scml3
1	SCMH1	ENSG00000010803	ENST00000482530	processed_transcript	KNOWN	None	19003	None	None	41507094	41536303	-1	None	Scml3
1	SCMH1	ENSG00000010803	ENST00000488592	processed_transcript	KNOWN	None	19003	None	None	41651656	41707826	-1	None	Scml3
1	SCMH1	ENSG00000010803	ENST00000361705	protein_coding	KNOWN	CCDS461	19003	1776	591	41492872	41627153	-1	None	Scml3
1	SCMH1	ENSG00000010803	ENST00000456518	protein_coding	KNOWN	CCDS53303	19003	1443	480	41492872	41625605	-1	None	Scml3
1	SCMH1	ENSG00000010803	ENST00000402904	protein_coding	KNOWN	CCDS30688	19003	1983	660	41492872	41627104	-1	None	Scml3
1	SCMH1	ENSG00000010803	ENST00000397174	protein_coding	KNOWN	None	19003	1857	618	41492872	41627104	-1	None	Scml3
1	SCMH1	ENSG00000010803	ENST00000397171	protein_coding	KNOWN	CCDS53301	19003	1734	577	41492872	41627153	-1	None	Scml3
1	SCMH1	ENSG00000010803	ENST00000361191	protein_coding	KNOWN	CCDS53301	19003	1734	577	41492872	41627153	-1	None	Scml3
15	SLC27A2	ENSG00000140284	ENST00000267842	protein_coding	KNOWN	CCDS10133	10996	1863	620	50474393	50528592	1	FACVL1	FATP2, hFACVL1, VLACS, VLCS, HsT17226, ACSVL1
15	SLC27A2	ENSG00000140284	ENST00000380902	protein_coding	KNOWN	CCDS53943	10996	1704	567	50474430	50528575	1	FACVL1	FATP2, hFACVL1, VLACS, VLCS, HsT17226, ACSVL1
15	SLC27A2	ENSG00000140284	ENST00000544960	protein_coding	PUTATIVE	None	10996	1158	385	50483198	50528581	1	FACVL1	FATP2, hFACVL1, VLACS, VLCS, HsT17226, ACSVL1
15	SLC27A2	ENSG00000140284	ENST00000559938	retained_intron	KNOWN	None	10996	None	None	50497550	50518331	1	FACVL1	FATP2, hFACVL1, VLACS, VLCS, HsT17226, ACSVL1
8	None	ENSG00000212997	ENST00000391679	protein_coding	KNOWN	None	None	246	81	95558771	95560630	1	None	None
2	PDK1	ENSG00000152256	ENST00000443353	protein_coding	PUTATIVE	None	8809	463	153	173420101	173429801	1	None	None
2	PDK1	ENSG00000152256	ENST00000436490	nonsense_mediated_decay	KNOWN	None	8809	189	62	173420355	173429415	1	None	None
2	PDK1	ENSG00000152256	ENST00000282077	protein_coding	KNOWN	CCDS2250	8809	1311	436	173420697	173461193	1	None	None
2	PDK1	ENSG00000152256	ENST00000392571	protein_coding	NOVEL	None	8809	1371	456	173420735	173460697	1	None	None
2	PDK1	ENSG00000152256	ENST00000410055	protein_coding	KNOWN	CCDS2250	8809	1311	436	173420779	173463862	1	None	None
2	PDK1	ENSG00000152256	ENST00000431718	nonsense_mediated_decay	KNOWN	None	8809	495	164	173420830	173435548	1	None	None
2	PDK1	ENSG00000152256	ENST00000416991	protein_coding	PUTATIVE	None	8809	687	228	173421041	173435540	1	None	None
2	PDK1	ENSG00000152256	ENST00000439519	protein_coding	PUTATIVE	None	8809	463	153	173421293	173429801	1	None	None
2	PDK1	ENSG00000152256	ENST00000466437	retained_intron	KNOWN	None	8809	None	None	173435313	173460690	1	None	None
2	PDK1	ENSG00000152256	ENST00000543905	protein_coding	KNOWN	None	8809	1083	360	173420101	173489823	1	None	None
2	PDK1	ENSG00000152256	ENST00000544863	protein_coding	KNOWN	None	8809	846	281	173420353	173460746	1	None	None
10	None	ENSG00000260137	ENST00000564417	lincRNA	KNOWN	None	None	None	None	38080508	38080865	1	None	None
19	ZNF677	ENSG00000197928	ENST00000598513	protein_coding	KNOWN	CCDS12861	28730	1755	584	53738634	53758111	-1	None	MGC48625
19	ZNF677	ENSG00000197928	ENST00000594517	protein_coding	KNOWN	None	28730	437	144	53741543	53757941	-1	None	MGC48625
19	ZNF677	ENSG00000197928	ENST00000599328	retained_intron	KNOWN	None	28730	None	None	53741850	53745056	-1	None	MGC48625
19	ZNF677	ENSG00000197928	ENST00000599012	protein_coding	PUTATIVE	None	28730	234	77	53744645	53758113	-1	None	MGC48625
19	ZNF677	ENSG00000197928	ENST00000594681	protein_coding	PUTATIVE	None	28730	243	80	53745177	53758084	-1	None	MGC48625
19	ZNF677	ENSG00000197928	ENST00000598806	protein_coding	PUTATIVE	None	28730	216	71	53745334	53758132	-1	None	MGC48625
19	ZNF677	ENSG00000197928	ENST00000593539	retained_intron	KNOWN	None	28730	None	None	53745464	53747264	-1	None	MGC48625
19	ZNF677	ENSG00000197928	ENST00000601828	protein_coding	PUTATIVE	None	28730	207	68	53746586	53758099	-1	None	MGC48625
19	ZNF677	ENSG00000197928	ENST00000601413	protein_coding	PUTATIVE	None	28730	207	68	53746809	53758074	-1	None	MGC48625
19	ZNF677	ENSG00000197928	ENST00000595293	processed_transcript	KNOWN	None	28730	None	None	53752375	53758151	-1	None	MGC48625
19	ZNF677	ENSG00000197928	ENST00000333952	protein_coding	KNOWN	CCDS12861	28730	1755	584	53731577	53758126	-1	None	MGC48625
17	CARD14	ENSG00000141527	ENST00000576785	protein_coding	KNOWN	None	16446	131	42	78143791	78155368	1	None	CARMA2, BIMP2
17	CARD14	ENSG00000141527	ENST00000573489	processed_transcript	KNOWN	None	16446	None	None	78143802	78152932	1	None	CARMA2, BIMP2
17	CARD14	ENSG00000141527	ENST00000573882	protein_coding	KNOWN	CCDS11768	16446	3015	1004	78143811	78183130	1	None	CARMA2, BIMP2
17	CARD14	ENSG00000141527	ENST00000575465	protein_coding	KNOWN	None	16446	211	69	78143833	78155448	1	None	CARMA2, BIMP2
17	CARD14	ENSG00000141527	ENST00000575500	nonsense_mediated_decay	KNOWN	None	16446	1482	493	78143833	78182762	1	None	CARMA2, BIMP2
17	CARD14	ENSG00000141527	ENST00000571427	processed_transcript	KNOWN	None	16446	None	None	78144076	78152454	1	None	CARMA2, BIMP2
17	CARD14	ENSG00000141527	ENST00000570421	protein_coding	PUTATIVE	CCDS58605	16446	2223	740	78152298	78176430	1	None	CARMA2, BIMP2
17	CARD14	ENSG00000141527	ENST00000572838	retained_intron	KNOWN	None	16446	None	None	78157950	78162640	1	None	CARMA2, BIMP2
17	CARD14	ENSG00000141527	ENST00000571450	nonsense_mediated_decay	KNOWN	None	16446	1426	474	78157974	78178034	1	None	CARMA2, BIMP2
17	CARD14	ENSG00000141527	ENST00000573754	processed_transcript	KNOWN	None	16446	None	None	78161599	78172723	1	None	CARMA2, BIMP2
17	CARD14	ENSG00000141527	ENST00000571861	retained_intron	KNOWN	None	16446	None	None	78162022	78169829	1	None	CARMA2, BIMP2
17	CARD14	ENSG00000141527	ENST00000574148	processed_transcript	KNOWN	None	16446	None	None	78165961	78171956	1	None	CARMA2, BIMP2
17	CARD14	ENSG00000141527	ENST00000575666	retained_intron	KNOWN	None	16446	None	None	78166179	78171331	1	None	CARMA2, BIMP2
17	CARD14	ENSG00000141527	ENST00000344227	protein_coding	KNOWN	CCDS11768	16446	3015	1004	78152274	78182855	1	None	CARMA2, BIMP2
17	CARD14	ENSG00000141527	ENST00000392434	protein_coding	KNOWN	None	16446	1326	441	78157974	78177684	1	None	CARMA2, BIMP2
1	GPR89B	ENSG00000188092	ENST00000314163	protein_coding	KNOWN	CCDS930	13840	1368	455	147400506	147465571	1	GPR89	SH120
1	GPR89B	ENSG00000188092	ENST00000488165	processed_transcript	KNOWN	None	13840	None	None	147400506	147465571	1	GPR89	SH120
1	GPR89B	ENSG00000188092	ENST00000478307	processed_transcript	KNOWN	None	13840	None	None	147400506	147465753	1	GPR89	SH120
1	GPR89B	ENSG00000188092	ENST00000468618	protein_coding	PUTATIVE	None	13840	649	215	147400549	147438877	1	GPR89	SH120
1	GPR89B	ENSG00000188092	ENST00000491975	processed_transcript	KNOWN	None	13840	None	None	147425576	147458505	1	GPR89	SH120
1	GPR89B	ENSG00000188092	ENST00000461786	processed_transcript	KNOWN	None	13840	None	None	147425669	147458521	1	GPR89	SH120
1	GPR89B	ENSG00000188092	ENST00000488603	processed_transcript	KNOWN	None	13840	None	None	147439003	147465571	1	GPR89	SH120
1	GPR89B	ENSG00000188092	ENST00000490955	processed_transcript	KNOWN	None	13840	None	None	147441167	147465571	1	GPR89	SH120
6	MRS2	ENSG00000124532	ENST00000483634	processed_transcript	KNOWN	None	13785	None	None	24403182	24419469	1	MRS2L	None
6	MRS2	ENSG00000124532	ENST00000378353	protein_coding	KNOWN	None	13785	1227	408	24403182	24423704	1	MRS2L	None
6	MRS2	ENSG00000124532	ENST00000378386	protein_coding	KNOWN	CCDS4552	13785	1332	443	24403182	24425810	1	MRS2L	None
6	MRS2	ENSG00000124532	ENST00000446191	protein_coding	KNOWN	None	13785	546	181	24403420	24418789	1	MRS2L	None
6	MRS2	ENSG00000124532	ENST00000535061	protein_coding	KNOWN	None	13785	1182	393	24403164	24424251	1	MRS2L	None
6	MRS2	ENSG00000124532	ENST00000443868	protein_coding	KNOWN	None	13785	1341	446	24403187	24424067	1	MRS2L	None
6	MRS2	ENSG00000124532	ENST00000274747	protein_coding	KNOWN	None	13785	354	117	24403153	24425809	1	MRS2L	None
6	MRS2	ENSG00000124532	ENST00000543597	protein_coding	KNOWN	None	13785	459	152	24403159	24424122	1	MRS2L	None
10	ZNF33BP1	ENSG00000225192	ENST00000452497	processed_pseudogene	KNOWN	None	44975	None	None	38083204	38085037	-1	None	None
9	PPP2R4	ENSG00000119383	ENST00000358994	protein_coding	KNOWN	CCDS6920	9308	972	323	131873229	131911223	1	None	PTPA, PR53
9	PPP2R4	ENSG00000119383	ENST00000455292	protein_coding	NOVEL	None	9308	751	249	131873243	131898835	1	None	PTPA, PR53
9	PPP2R4	ENSG00000119383	ENST00000393370	protein_coding	KNOWN	CCDS6920	9308	972	323	131873597	131911225	1	None	PTPA, PR53
9	PPP2R4	ENSG00000119383	ENST00000348141	protein_coding	NOVEL	None	9308	990	329	131873615	131911225	1	None	PTPA, PR53
9	PPP2R4	ENSG00000119383	ENST00000347048	protein_coding	NOVEL	None	9308	315	104	131873688	131911225	1	None	PTPA, PR53
9	PPP2R4	ENSG00000119383	ENST00000445241	protein_coding	NOVEL	None	9308	761	252	131873692	131898845	1	None	PTPA, PR53
9	PPP2R4	ENSG00000119383	ENST00000355007	protein_coding	KNOWN	None	9308	846	281	131873693	131911225	1	None	PTPA, PR53
9	PPP2R4	ENSG00000119383	ENST00000414331	protein_coding	PUTATIVE	None	9308	397	131	131873714	131897121	1	None	PTPA, PR53
9	PPP2R4	ENSG00000119383	ENST00000417728	protein_coding	PUTATIVE	None	9308	789	262	131873967	131904831	1	None	PTPA, PR53
9	PPP2R4	ENSG00000119383	ENST00000453358	protein_coding	PUTATIVE	None	9308	388	128	131874147	131897106	1	None	PTPA, PR53
9	PPP2R4	ENSG00000119383	ENST00000417504	protein_coding	PUTATIVE	None	9308	529	175	131881301	131893918	1	None	PTPA, PR53
9	PPP2R4	ENSG00000119383	ENST00000440346	protein_coding	PUTATIVE	None	9308	192	63	131881792	131891344	1	None	PTPA, PR53
9	PPP2R4	ENSG00000119383	ENST00000455240	protein_coding	PUTATIVE	None	9308	361	119	131898750	131900390	1	None	PTPA, PR53
9	PPP2R4	ENSG00000119383	ENST00000411917	protein_coding	PUTATIVE	None	9308	656	217	131898776	131905261	1	None	PTPA, PR53
9	PPP2R4	ENSG00000119383	ENST00000423100	protein_coding	PUTATIVE	None	9308	186	61	131901661	131910277	1	None	PTPA, PR53
9	PPP2R4	ENSG00000119383	ENST00000436883	protein_coding	PUTATIVE	None	9308	126	41	131902287	131905933	1	None	PTPA, PR53
9	PPP2R4	ENSG00000119383	ENST00000414510	protein_coding	PUTATIVE	None	9308	186	61	131902287	131910566	1	None	PTPA, PR53
9	PPP2R4	ENSG00000119383	ENST00000432124	protein_coding	PUTATIVE	None	9308	234	77	131902379	131905366	1	None	PTPA, PR53
9	PPP2R4	ENSG00000119383	ENST00000435305	protein_coding	PUTATIVE	None	9308	456	151	131902397	131905219	1	None	PTPA, PR53
9	PPP2R4	ENSG00000119383	ENST00000419582	protein_coding	PUTATIVE	None	9308	186	61	131903925	131910236	1	None	PTPA, PR53
9	PPP2R4	ENSG00000119383	ENST00000432651	protein_coding	PUTATIVE	None	9308	186	61	131904233	131910285	1	None	PTPA, PR53
9	PPP2R4	ENSG00000119383	ENST00000435132	protein_coding	PUTATIVE	None	9308	186	61	131904273	131910051	1	None	PTPA, PR53
9	PPP2R4	ENSG00000119383	ENST00000434095	protein_coding	PUTATIVE	None	9308	186	61	131904304	131910274	1	None	PTPA, PR53
9	PPP2R4	ENSG00000119383	ENST00000337738	protein_coding	KNOWN	None	9308	1077	358	131873613	131911223	1	None	PTPA, PR53
9	PPP2R4	ENSG00000119383	ENST00000357197	protein_coding	KNOWN	None	9308	885	294	131873688	131911224	1	None	PTPA, PR53
9	PPP2R4	ENSG00000119383	ENST00000452489	protein_coding	KNOWN	None	9308	1125	374	131873667	131905584	1	None	PTPA, PR53
9	PPP2R4	ENSG00000119383	ENST00000524946	protein_coding	KNOWN	None	9308	456	151	131901736	131905734	1	None	PTPA, PR53
1	FOXO6	ENSG00000204060	ENST00000372591	protein_coding	PUTATIVE	None	24814	1680	559	41827594	41849262	1	None	None
X	ASMT	ENSG00000196433	ENST00000381241	protein_coding	KNOWN	CCDS14117	750	1122	373	1733894	1761974	1	None	HIOMT, ASMTY, HIOMTY
X	ASMT	ENSG00000196433	ENST00000381229	protein_coding	KNOWN	None	750	1038	345	1734057	1761920	1	None	HIOMT, ASMTY, HIOMTY
X	ASMT	ENSG00000196433	ENST00000381233	protein_coding	KNOWN	CCDS55364	750	897	298	1734068	1761974	1	None	HIOMT, ASMTY, HIOMTY
X	ASMT	ENSG00000196433	ENST00000432523	protein_coding	KNOWN	None	750	375	124	1755291	1761974	1	None	HIOMT, ASMTY, HIOMTY
7	None	ENSG00000221157	ENST00000408230	miRNA	NOVEL	None	None	None	None	37145128	37145215	-1	None	None
14	BRMS1L	ENSG00000100916	ENST00000216807	protein_coding	KNOWN	CCDS32066	20512	972	323	36295524	36341169	1	BRMS1	MGC11296, FLJ39177
14	BRMS1L	ENSG00000100916	ENST00000552677	nonsense_mediated_decay	KNOWN	None	20512	147	48	36295647	36340066	1	BRMS1	MGC11296, FLJ39177
14	BRMS1L	ENSG00000100916	ENST00000547420	nonsense_mediated_decay	KNOWN	None	20512	147	48	36295652	36327887	1	BRMS1	MGC11296, FLJ39177
14	BRMS1L	ENSG00000100916	ENST00000548758	retained_intron	KNOWN	None	20512	None	None	36295663	36335257	1	BRMS1	MGC11296, FLJ39177
14	BRMS1L	ENSG00000100916	ENST00000551774	protein_coding	PUTATIVE	None	20512	647	214	36302207	36401531	1	BRMS1	MGC11296, FLJ39177
14	BRMS1L	ENSG00000100916	ENST00000552849	retained_intron	KNOWN	None	20512	None	None	36336983	36339599	1	BRMS1	MGC11296, FLJ39177
14	BRMS1L	ENSG00000100916	ENST00000543183	protein_coding	KNOWN	None	20512	828	275	36295647	36340066	1	BRMS1	MGC11296, FLJ39177
1	EDN2	ENSG00000127129	ENST00000372587	protein_coding	KNOWN	CCDS462	3177	537	178	41944446	41950342	-1	None	ET2
1	EDN2	ENSG00000127129	ENST00000490783	processed_transcript	KNOWN	None	3177	None	None	41944798	41950344	-1	None	ET2
1	EDN2	ENSG00000127129	ENST00000467046	processed_transcript	KNOWN	None	3177	None	None	41945125	41949756	-1	None	ET2
1	EDN2	ENSG00000127129	ENST00000467872	processed_transcript	KNOWN	None	3177	None	None	41945125	41949756	-1	None	ET2
1	EDN2	ENSG00000127129	ENST00000460255	processed_transcript	KNOWN	None	3177	None	None	41945125	41949756	-1	None	ET2
16	ACSM3	ENSG00000005187	ENST00000568235	protein_coding	KNOWN	None	10522	301	99	20621565	20787242	1	SAH	SA
16	ACSM3	ENSG00000005187	ENST00000501740	processed_transcript	KNOWN	None	10522	None	None	20685832	20766930	1	SAH	SA
16	ACSM3	ENSG00000005187	ENST00000561584	protein_coding	KNOWN	None	10522	157	51	20685930	20781513	1	SAH	SA
16	ACSM3	ENSG00000005187	ENST00000564701	protein_coding	KNOWN	None	10522	75	24	20760740	20781431	1	SAH	SA
16	ACSM3	ENSG00000005187	ENST00000289416	protein_coding	KNOWN	CCDS10589	10522	1761	586	20775024	20808903	1	SAH	SA
16	ACSM3	ENSG00000005187	ENST00000440284	protein_coding	KNOWN	CCDS45435	10522	1317	438	20775362	20797636	1	SAH	SA
16	ACSM3	ENSG00000005187	ENST00000561795	protein_coding	KNOWN	None	10522	475	157	20776005	20788739	1	SAH	SA
16	ACSM3	ENSG00000005187	ENST00000562251	protein_coding	NOVEL	None	10522	1747	581	20781482	20808478	1	SAH	SA
16	ACSM3	ENSG00000005187	ENST00000563914	protein_coding	NOVEL	None	10522	706	234	20791203	20797638	1	SAH	SA
16	ACSM3	ENSG00000005187	ENST00000567387	processed_transcript	KNOWN	None	10522	None	None	20794573	20808314	1	SAH	SA
16	ACSM3	ENSG00000005187	ENST00000561499	processed_transcript	KNOWN	None	10522	None	None	20794586	20797474	1	SAH	SA
16	ACSM3	ENSG00000005187	ENST00000569141	protein_coding	NOVEL	None	10522	405	134	20796372	20808251	1	SAH	SA
16	ACSM3	ENSG00000005187	ENST00000567711	processed_transcript	KNOWN	None	10522	None	None	20807400	20808478	1	SAH	SA
16	ACSM3	ENSG00000005187	ENST00000567006	retained_intron	KNOWN	None	10522	None	None	20807560	20808475	1	SAH	SA
16	ACSM3	ENSG00000005187	ENST00000450120	protein_coding	KNOWN	None	10522	1737	578	20781482	20808478	1	SAH	SA
7	RPS17P13	ENSG00000224706	ENST00000448974	processed_pseudogene	KNOWN	None	36664	None	None	37156384	37156790	1	None	None
5	CDKL3	ENSG00000006837	ENST00000520515	retained_intron	KNOWN	None	15483	None	None	133541305	133706734	-1	None	NKIAMRE
5	CDKL3	ENSG00000006837	ENST00000518409	processed_transcript	KNOWN	None	15483	None	None	133541645	133706735	-1	None	NKIAMRE
5	CDKL3	ENSG00000006837	ENST00000520693	nonsense_mediated_decay	KNOWN	None	15483	249	82	133622041	133706733	-1	None	NKIAMRE
5	CDKL3	ENSG00000006837	ENST00000519312	nonsense_mediated_decay	KNOWN	None	15483	321	106	133622129	133706738	-1	None	NKIAMRE
5	CDKL3	ENSG00000006837	ENST00000265334	protein_coding	KNOWN	CCDS47264	15483	1779	592	133634113	133702765	-1	None	NKIAMRE
5	CDKL3	ENSG00000006837	ENST00000518990	protein_coding	PUTATIVE	None	15483	221	72	133634123	133640113	-1	None	NKIAMRE
5	CDKL3	ENSG00000006837	ENST00000523054	protein_coding	PUTATIVE	None	15483	1206	401	133634320	133706732	-1	None	NKIAMRE
5	CDKL3	ENSG00000006837	ENST00000521118	protein_coding	KNOWN	None	15483	1773	590	133635116	133702761	-1	None	NKIAMRE
5	CDKL3	ENSG00000006837	ENST00000520592	nonsense_mediated_decay	KNOWN	None	15483	56	17	133643692	133655080	-1	None	NKIAMRE
5	CDKL3	ENSG00000006837	ENST00000523832	protein_coding	KNOWN	CCDS47265	15483	1368	455	133643692	133702214	-1	None	NKIAMRE
5	CDKL3	ENSG00000006837	ENST00000521755	protein_coding	PUTATIVE	None	15483	135	44	133643692	133706695	-1	None	NKIAMRE
5	CDKL3	ENSG00000006837	ENST00000522501	processed_transcript	KNOWN	None	15483	None	None	133654722	133706734	-1	None	NKIAMRE
5	CDKL3	ENSG00000006837	ENST00000435240	protein_coding	KNOWN	None	15483	1092	363	133622041	133706733	-1	None	NKIAMRE
5	CDKL3	ENSG00000006837	ENST00000536186	protein_coding	KNOWN	None	15483	876	291	133621932	133706734	-1	None	NKIAMRE
5	CDKL3	ENSG00000006837	ENST00000435211	protein_coding	KNOWN	CCDS47265	15483	1368	455	133643693	133702765	-1	None	NKIAMRE
17	SLFN13	ENSG00000154760	ENST00000285013	protein_coding	KNOWN	CCDS32620	26481	2694	897	33762115	33775856	-1	None	FLJ31952
17	SLFN13	ENSG00000154760	ENST00000526861	protein_coding	KNOWN	CCDS32620	26481	2694	897	33764562	33775801	-1	None	FLJ31952
17	SLFN13	ENSG00000154760	ENST00000530782	nonsense_mediated_decay	KNOWN	None	26481	360	119	33766003	33775856	-1	None	FLJ31952
17	SLFN13	ENSG00000154760	ENST00000534689	protein_coding	KNOWN	None	26481	1740	579	33766499	33775783	-1	None	FLJ31952
17	SLFN13	ENSG00000154760	ENST00000533791	protein_coding	KNOWN	CCDS32620	26481	2694	897	33766517	33773029	-1	None	FLJ31952
17	SLFN13	ENSG00000154760	ENST00000532774	retained_intron	KNOWN	None	26481	None	None	33768909	33770973	-1	None	FLJ31952
17	SLFN13	ENSG00000154760	ENST00000532210	protein_coding	PUTATIVE	None	26481	392	129	33769119	33775783	-1	None	FLJ31952
17	SLFN13	ENSG00000154760	ENST00000524511	protein_coding	KNOWN	None	26481	319	105	33772381	33775388	-1	None	FLJ31952
17	SLFN13	ENSG00000154760	ENST00000531588	protein_coding	KNOWN	None	26481	233	76	33772467	33775804	-1	None	FLJ31952
17	SLFN13	ENSG00000154760	ENST00000526483	retained_intron	KNOWN	None	26481	None	None	33774005	33775774	-1	None	FLJ31952
17	SLFN13	ENSG00000154760	ENST00000360502	protein_coding	KNOWN	None	26481	1740	579	33762115	33772699	-1	None	FLJ31952
17	SLFN13	ENSG00000154760	ENST00000542635	protein_coding	KNOWN	CCDS32620	26481	2694	897	33764564	33774413	-1	None	FLJ31952
11	DNHD1	ENSG00000179532	ENST00000473019	retained_intron	KNOWN	None	26532	None	None	6518490	6525430	1	DHCD1, C11orf47, DNHD1L, CCDC35	FLJ32752, FLJ46184, FLJ35709, DKFZp686J0796
11	DNHD1	ENSG00000179532	ENST00000496802	protein_coding	KNOWN	None	26532	17	4	6518526	6519462	1	DHCD1, C11orf47, DNHD1L, CCDC35	FLJ32752, FLJ46184, FLJ35709, DKFZp686J0796
11	DNHD1	ENSG00000179532	ENST00000354685	protein_coding	KNOWN	CCDS7767	26532	1794	597	6518531	6542090	1	DHCD1, C11orf47, DNHD1L, CCDC35	FLJ32752, FLJ46184, FLJ35709, DKFZp686J0796
11	DNHD1	ENSG00000179532	ENST00000477562	processed_transcript	KNOWN	None	26532	None	None	6518535	6519919	1	DHCD1, C11orf47, DNHD1L, CCDC35	FLJ32752, FLJ46184, FLJ35709, DKFZp686J0796
11	DNHD1	ENSG00000179532	ENST00000527990	protein_coding	NOVEL	CCDS44532	26532	14262	4753	6519446	6593252	1	DHCD1, C11orf47, DNHD1L, CCDC35	FLJ32752, FLJ46184, FLJ35709, DKFZp686J0796
11	DNHD1	ENSG00000179532	ENST00000472080	retained_intron	KNOWN	None	26532	None	None	6529443	6542088	1	DHCD1, C11orf47, DNHD1L, CCDC35	FLJ32752, FLJ46184, FLJ35709, DKFZp686J0796
11	DNHD1	ENSG00000179532	ENST00000534210	retained_intron	KNOWN	None	26532	None	None	6550207	6614988	1	DHCD1, C11orf47, DNHD1L, CCDC35	FLJ32752, FLJ46184, FLJ35709, DKFZp686J0796
11	DNHD1	ENSG00000179532	ENST00000532027	nonsense_mediated_decay	KNOWN	None	26532	477	158	6555154	6570265	1	DHCD1, C11orf47, DNHD1L, CCDC35	FLJ32752, FLJ46184, FLJ35709, DKFZp686J0796
11	DNHD1	ENSG00000179532	ENST00000533649	retained_intron	KNOWN	None	26532	None	None	6567273	6570267	1	DHCD1, C11orf47, DNHD1L, CCDC35	FLJ32752, FLJ46184, FLJ35709, DKFZp686J0796
11	DNHD1	ENSG00000179532	ENST00000531903	retained_intron	KNOWN	None	26532	None	None	6579284	6584547	1	DHCD1, C11orf47, DNHD1L, CCDC35	FLJ32752, FLJ46184, FLJ35709, DKFZp686J0796
11	DNHD1	ENSG00000179532	ENST00000524401	nonsense_mediated_decay	KNOWN	None	26532	1082	359	6579284	6585248	1	DHCD1, C11orf47, DNHD1L, CCDC35	FLJ32752, FLJ46184, FLJ35709, DKFZp686J0796
11	DNHD1	ENSG00000179532	ENST00000526027	retained_intron	KNOWN	None	26532	None	None	6580164	6585249	1	DHCD1, C11orf47, DNHD1L, CCDC35	FLJ32752, FLJ46184, FLJ35709, DKFZp686J0796
11	DNHD1	ENSG00000179532	ENST00000529821	retained_intron	KNOWN	None	26532	None	None	6585307	6593252	1	DHCD1, C11orf47, DNHD1L, CCDC35	FLJ32752, FLJ46184, FLJ35709, DKFZp686J0796
11	DNHD1	ENSG00000179532	ENST00000533635	retained_intron	KNOWN	None	26532	None	None	6585667	6593257	1	DHCD1, C11orf47, DNHD1L, CCDC35	FLJ32752, FLJ46184, FLJ35709, DKFZp686J0796
11	DNHD1	ENSG00000179532	ENST00000525883	retained_intron	KNOWN	None	26532	None	None	6585979	6593257	1	DHCD1, C11orf47, DNHD1L, CCDC35	FLJ32752, FLJ46184, FLJ35709, DKFZp686J0796
11	DNHD1	ENSG00000179532	ENST00000530197	retained_intron	KNOWN	None	26532	None	None	6587335	6593249	1	DHCD1, C11orf47, DNHD1L, CCDC35	FLJ32752, FLJ46184, FLJ35709, DKFZp686J0796
11	DNHD1	ENSG00000179532	ENST00000525080	protein_coding	NOVEL	None	26532	587	194	6587837	6588582	1	DHCD1, C11orf47, DNHD1L, CCDC35	FLJ32752, FLJ46184, FLJ35709, DKFZp686J0796
11	DNHD1	ENSG00000179532	ENST00000532467	retained_intron	KNOWN	None	26532	None	None	6588579	6593257	1	DHCD1, C11orf47, DNHD1L, CCDC35	FLJ32752, FLJ46184, FLJ35709, DKFZp686J0796
11	DNHD1	ENSG00000179532	ENST00000527143	protein_coding	PUTATIVE	None	26532	427	141	6589935	6593044	1	DHCD1, C11orf47, DNHD1L, CCDC35	FLJ32752, FLJ46184, FLJ35709, DKFZp686J0796
11	DNHD1	ENSG00000179532	ENST00000254579	protein_coding	KNOWN	CCDS44532	26532	14262	4753	6518526	6593252	1	DHCD1, C11orf47, DNHD1L, CCDC35	FLJ32752, FLJ46184, FLJ35709, DKFZp686J0796
16	CTU2	ENSG00000174177	ENST00000453996	protein_coding	KNOWN	CCDS45545	28005	1548	515	88772871	88781794	1	C16orf84	NCS2
16	CTU2	ENSG00000174177	ENST00000564105	nonsense_mediated_decay	KNOWN	None	28005	210	69	88772891	88781728	1	C16orf84	NCS2
16	CTU2	ENSG00000174177	ENST00000312060	protein_coding	KNOWN	CCDS32506	28005	1458	485	88772891	88781794	1	C16orf84	NCS2
16	CTU2	ENSG00000174177	ENST00000567949	protein_coding	KNOWN	None	28005	1761	586	88772930	88781794	1	C16orf84	NCS2
16	CTU2	ENSG00000174177	ENST00000565071	retained_intron	KNOWN	None	28005	None	None	88772953	88777316	1	C16orf84	NCS2
16	CTU2	ENSG00000174177	ENST00000564921	protein_coding	PUTATIVE	None	28005	269	88	88772997	88778790	1	C16orf84	NCS2
16	CTU2	ENSG00000174177	ENST00000566637	retained_intron	KNOWN	None	28005	None	None	88776367	88781794	1	C16orf84	NCS2
16	CTU2	ENSG00000174177	ENST00000564584	retained_intron	KNOWN	None	28005	None	None	88779888	88781772	1	C16orf84	NCS2
16	CTU2	ENSG00000174177	ENST00000567316	protein_coding	PUTATIVE	None	28005	327	108	88781090	88781784	1	C16orf84	NCS2
16	CTU2	ENSG00000174177	ENST00000562011	retained_intron	KNOWN	None	28005	None	None	88781393	88781791	1	C16orf84	NCS2
16	CTU2	ENSG00000174177	ENST00000378384	protein_coding	KNOWN	None	28005	1287	428	88772891	88781728	1	C16orf84	NCS2
7	None	ENSG00000238772	ENST00000459167	snoRNA	NOVEL	None	None	None	None	37209283	37209384	-1	None	None
1	MFSD4	ENSG00000174514	ENST00000475956	processed_transcript	KNOWN	None	25433	None	None	205538013	205568379	1	None	DKFZp761N1114, FLJ34577, UNQ3064, FLJ25004
1	MFSD4	ENSG00000174514	ENST00000367147	protein_coding	KNOWN	CCDS1455	25433	1545	514	205538105	205572046	1	None	DKFZp761N1114, FLJ34577, UNQ3064, FLJ25004
1	MFSD4	ENSG00000174514	ENST00000489709	processed_transcript	KNOWN	None	25433	None	None	205538149	205572046	1	None	DKFZp761N1114, FLJ34577, UNQ3064, FLJ25004
1	MFSD4	ENSG00000174514	ENST00000465651	processed_transcript	KNOWN	None	25433	None	None	205561165	205569678	1	None	DKFZp761N1114, FLJ34577, UNQ3064, FLJ25004
1	MFSD4	ENSG00000174514	ENST00000471425	processed_transcript	KNOWN	None	25433	None	None	205561257	205567269	1	None	DKFZp761N1114, FLJ34577, UNQ3064, FLJ25004
1	MFSD4	ENSG00000174514	ENST00000478555	processed_transcript	KNOWN	None	25433	None	None	205567168	205572046	1	None	DKFZp761N1114, FLJ34577, UNQ3064, FLJ25004
1	MFSD4	ENSG00000174514	ENST00000536357	protein_coding	KNOWN	None	25433	1284	427	205538185	205569612	1	None	DKFZp761N1114, FLJ34577, UNQ3064, FLJ25004
1	MFSD4	ENSG00000174514	ENST00000539267	protein_coding	KNOWN	None	25433	1323	440	205538112	205569912	1	None	DKFZp761N1114, FLJ34577, UNQ3064, FLJ25004
7	RNU6-565P	ENSG00000222869	ENST00000410937	snRNA	KNOWN	None	47528	None	None	37390747	37390846	1	None	None
4	MXD4	ENSG00000123933	ENST00000337190	protein_coding	KNOWN	CCDS3361	13906	630	209	2249159	2264021	-1	None	MAD4, MSTP149, MST149, bHLHc12
4	MXD4	ENSG00000123933	ENST00000513372	retained_intron	KNOWN	None	13906	None	None	2251191	2256961	-1	None	MAD4, MSTP149, MST149, bHLHc12
4	MXD4	ENSG00000123933	ENST00000513380	nonsense_mediated_decay	KNOWN	None	13906	247	81	2252385	2263526	-1	None	MAD4, MSTP149, MST149, bHLHc12
4	MXD4	ENSG00000123933	ENST00000515378	processed_transcript	KNOWN	None	13906	None	None	2256736	2263749	-1	None	MAD4, MSTP149, MST149, bHLHc12
4	MXD4	ENSG00000123933	ENST00000510822	nonsense_mediated_decay	KNOWN	None	13906	324	107	2256870	2263749	-1	None	MAD4, MSTP149, MST149, bHLHc12
20	SPO11	ENSG00000054796	ENST00000371263	protein_coding	KNOWN	CCDS13456	11250	1191	396	55904815	55919050	1	None	CT35, SPATA43, TOPVIA
20	SPO11	ENSG00000054796	ENST00000345868	protein_coding	KNOWN	CCDS13457	11250	1077	358	55904869	55919050	1	None	CT35, SPATA43, TOPVIA
20	SPO11	ENSG00000054796	ENST00000371260	protein_coding	PUTATIVE	None	11250	1065	354	55904915	55919050	1	None	CT35, SPATA43, TOPVIA
20	SPO11	ENSG00000054796	ENST00000418127	protein_coding	PUTATIVE	None	11250	810	269	55904990	55914082	1	None	CT35, SPATA43, TOPVIA
20	SPO11	ENSG00000054796	ENST00000494972	nonsense_mediated_decay	KNOWN	None	11250	372	123	55909806	55919050	1	None	CT35, SPATA43, TOPVIA
12	FGD6	ENSG00000180263	ENST00000343958	protein_coding	KNOWN	CCDS31878	21740	4293	1430	95470525	95611240	-1	None	ZFYVE24, FLJ11183
12	FGD6	ENSG00000180263	ENST00000548069	protein_coding	PUTATIVE	None	21740	401	132	95474946	95485563	-1	None	ZFYVE24, FLJ11183
12	FGD6	ENSG00000180263	ENST00000451107	nonsense_mediated_decay	KNOWN	None	21740	180	59	95475174	95611258	-1	None	ZFYVE24, FLJ11183
12	FGD6	ENSG00000180263	ENST00000546711	protein_coding	KNOWN	None	21740	4125	1374	95479319	95611240	-1	None	ZFYVE24, FLJ11183
12	FGD6	ENSG00000180263	ENST00000551521	protein_coding	PUTATIVE	None	21740	838	278	95485483	95510749	-1	None	ZFYVE24, FLJ11183
12	FGD6	ENSG00000180263	ENST00000549499	protein_coding	KNOWN	None	21740	3618	1205	95486604	95611155	-1	None	ZFYVE24, FLJ11183
12	FGD6	ENSG00000180263	ENST00000550368	processed_transcript	PUTATIVE	None	21740	None	None	95582968	95602732	-1	None	ZFYVE24, FLJ11183
7	RPS10P14	ENSG00000213744	ENST00000440748	processed_pseudogene	KNOWN	None	35880	None	None	37415125	37415626	1	None	None
6	NCR2	ENSG00000096264	ENST00000373083	protein_coding	KNOWN	CCDS56429	6732	777	258	41303393	41318596	1	LY95	NK-p44, CD336
6	NCR2	ENSG00000096264	ENST00000373089	protein_coding	KNOWN	CCDS4855	6732	831	276	41303527	41318625	1	LY95	NK-p44, CD336
6	NCR2	ENSG00000096264	ENST00000373086	protein_coding	KNOWN	CCDS56428	6732	813	270	41303589	41318602	1	LY95	NK-p44, CD336
1	ELK4	ENSG00000158711	ENST00000357992	protein_coding	KNOWN	CCDS1456	3326	1296	431	205577071	205601090	-1	None	SAP1
1	ELK4	ENSG00000158711	ENST00000289703	protein_coding	KNOWN	CCDS1457	3326	1218	405	205588396	205601090	-1	None	SAP1
1	ELK4	ENSG00000158711	ENST00000468523	processed_transcript	KNOWN	None	3326	None	None	205589742	205594795	-1	None	SAP1
2	CEP68	ENSG00000011523	ENST00000475851	processed_transcript	KNOWN	None	29076	None	None	65283500	65298978	1	KIAA0582	None
2	CEP68	ENSG00000011523	ENST00000377990	protein_coding	KNOWN	CCDS1880	29076	2274	757	65283506	65314138	1	KIAA0582	None
2	CEP68	ENSG00000011523	ENST00000260569	protein_coding	NOVEL	None	29076	1863	620	65283599	65314138	1	KIAA0582	None
2	CEP68	ENSG00000011523	ENST00000497039	processed_transcript	KNOWN	None	29076	None	None	65297863	65301618	1	KIAA0582	None
2	CEP68	ENSG00000011523	ENST00000546106	protein_coding	KNOWN	None	29076	2013	670	65283550	65309811	1	KIAA0582	None
2	CEP68	ENSG00000011523	ENST00000537589	protein_coding	KNOWN	None	29076	885	294	65283586	65302385	1	KIAA0582	None
7	MOSPD3	ENSG00000106330	ENST00000223054	protein_coding	KNOWN	CCDS5701	25078	708	235	100209725	100212949	1	None	CDS3, NET30
7	MOSPD3	ENSG00000106330	ENST00000462372	nonsense_mediated_decay	KNOWN	None	25078	210	69	100209781	100213007	1	None	CDS3, NET30
7	MOSPD3	ENSG00000106330	ENST00000490309	retained_intron	KNOWN	None	25078	None	None	100209807	100211327	1	None	CDS3, NET30
7	MOSPD3	ENSG00000106330	ENST00000493970	protein_coding	NOVEL	None	25078	677	224	100209995	100212655	1	None	CDS3, NET30
7	MOSPD3	ENSG00000106330	ENST00000393950	protein_coding	KNOWN	CCDS5701	25078	708	235	100210133	100213007	1	None	CDS3, NET30
7	MOSPD3	ENSG00000106330	ENST00000424091	protein_coding	NOVEL	CCDS47662	25078	678	225	100210179	100213007	1	None	CDS3, NET30
7	MOSPD3	ENSG00000106330	ENST00000497456	retained_intron	KNOWN	None	25078	None	None	100210438	100211412	1	None	CDS3, NET30
7	MOSPD3	ENSG00000106330	ENST00000379527	protein_coding	KNOWN	CCDS5701	25078	708	235	100210053	100212996	1	None	CDS3, NET30
1	NBPF24	ENSG00000203836	ENST00000480568	nonsense_mediated_decay	KNOWN	None	27299	1626	541	147574428	147624267	-1	None	None
1	NBPF24	ENSG00000203836	ENST00000474625	nonsense_mediated_decay	KNOWN	None	27299	1797	598	147575583	147624601	-1	None	None
1	NBPF24	ENSG00000203836	ENST00000369226	protein_coding	KNOWN	None	27299	2373	790	147575800	147610081	-1	None	None
1	NBPF24	ENSG00000203836	ENST00000369228	protein_coding	KNOWN	CCDS41381	27299	2598	865	147575937	147599549	-1	None	None
1	NBPF24	ENSG00000203836	ENST00000481201	processed_transcript	KNOWN	None	27299	None	None	147586431	147588810	-1	None	None
1	NBPF24	ENSG00000203836	ENST00000475597	processed_transcript	KNOWN	None	27299	None	None	147588755	147591184	-1	None	None
1	NBPF24	ENSG00000203836	ENST00000469181	processed_transcript	PUTATIVE	None	27299	None	None	147594624	147596613	-1	None	None
1	NBPF24	ENSG00000203836	ENST00000470042	processed_transcript	KNOWN	None	27299	None	None	147596184	147615861	-1	None	None
1	NBPF24	ENSG00000203836	ENST00000606982	processed_transcript	KNOWN	None	27299	None	None	147608220	147634886	-1	None	None
5	SNORD123	ENSG00000239112	ENST00000459473	snoRNA	KNOWN	None	33562	None	None	9548948	9549017	1	None	None
X	DHRSX	ENSG00000169084	ENST00000334651	protein_coding	KNOWN	CCDS35195	18399	993	330	2137557	2419019	-1	None	DHRS5X, DHRSXY, DHRSY, DHRS5Y, SDR46C1
X	DHRSX	ENSG00000169084	ENST00000412516	protein_coding	NOVEL	None	18399	696	231	2161103	2419014	-1	None	DHRS5X, DHRSXY, DHRSY, DHRS5Y, SDR46C1
X	DHRSX	ENSG00000169084	ENST00000464935	processed_transcript	KNOWN	None	18399	None	None	2179435	2184978	-1	None	DHRS5X, DHRSXY, DHRSY, DHRS5Y, SDR46C1
X	DHRSX	ENSG00000169084	ENST00000444280	protein_coding	PUTATIVE	None	18399	365	120	2184811	2418691	-1	None	DHRS5X, DHRSXY, DHRSY, DHRS5Y, SDR46C1
X	DHRSX	ENSG00000169084	ENST00000441131	nonsense_mediated_decay	KNOWN	None	18399	192	63	2184895	2420846	-1	None	DHRS5X, DHRSXY, DHRSY, DHRS5Y, SDR46C1
X	DHRSX	ENSG00000169084	ENST00000478825	nonsense_mediated_decay	KNOWN	None	18399	464	153	2209543	2418630	-1	None	DHRS5X, DHRSXY, DHRSY, DHRS5Y, SDR46C1
X	DHRSX	ENSG00000169084	ENST00000430536	processed_transcript	KNOWN	None	18399	None	None	2255872	2419001	-1	None	DHRS5X, DHRSXY, DHRSY, DHRS5Y, SDR46C1
5	None	ENSG00000248525	ENST00000504182	sense_overlapping	KNOWN	None	None	None	None	9621489	9658570	-1	None	None
8	ESRP1	ENSG00000104413	ENST00000423620	protein_coding	KNOWN	CCDS47895	25966	1980	659	95653302	95719694	1	RBM35A	FLJ20171
8	ESRP1	ENSG00000104413	ENST00000433389	protein_coding	KNOWN	CCDS47897	25966	2046	681	95653357	95719651	1	RBM35A	FLJ20171
8	ESRP1	ENSG00000104413	ENST00000358397	protein_coding	KNOWN	CCDS47898	25966	2034	677	95653402	95719694	1	RBM35A	FLJ20171
8	ESRP1	ENSG00000104413	ENST00000454170	protein_coding	KNOWN	CCDS47896	25966	1827	608	95653427	95719694	1	RBM35A	FLJ20171
8	ESRP1	ENSG00000104413	ENST00000520385	protein_coding	PUTATIVE	None	25966	72	23	95653840	95674561	1	RBM35A	FLJ20171
8	ESRP1	ENSG00000104413	ENST00000522920	retained_intron	KNOWN	None	25966	None	None	95655528	95658680	1	RBM35A	FLJ20171
8	ESRP1	ENSG00000104413	ENST00000522756	protein_coding	PUTATIVE	None	25966	282	93	95658401	95677426	1	RBM35A	FLJ20171
8	ESRP1	ENSG00000104413	ENST00000519505	protein_coding	PUTATIVE	None	25966	1507	501	95658425	95719694	1	RBM35A	FLJ20171
8	ESRP1	ENSG00000104413	ENST00000517610	protein_coding	NOVEL	None	25966	1569	522	95658444	95718743	1	RBM35A	FLJ20171
8	ESRP1	ENSG00000104413	ENST00000517556	retained_intron	KNOWN	None	25966	None	None	95677385	95680593	1	RBM35A	FLJ20171
8	ESRP1	ENSG00000104413	ENST00000523347	processed_transcript	KNOWN	None	25966	None	None	95717882	95719694	1	RBM35A	FLJ20171
5	None	ENSG00000249781	ENST00000512976	lincRNA	KNOWN	None	None	None	None	9641417	9658905	-1	None	None
5	None	ENSG00000249781	ENST00000511616	lincRNA	KNOWN	None	None	None	None	9641427	9903938	-1	None	None
5	None	ENSG00000249781	ENST00000606744	lincRNA	KNOWN	None	None	None	None	9641517	9712348	-1	None	None
5	None	ENSG00000249781	ENST00000606222	lincRNA	KNOWN	None	None	None	None	9862994	9884140	-1	None	None
5	None	ENSG00000249781	ENST00000606169	lincRNA	KNOWN	None	None	None	None	9863035	9902790	-1	None	None
1	SLC45A3	ENSG00000158715	ENST00000460934	processed_transcript	KNOWN	None	8642	None	None	205626979	205631796	-1	PCANAP6, PCANAP2, PCANAP8	IPCA-6, prostein, IPCA-2, IPCA-8
1	SLC45A3	ENSG00000158715	ENST00000367145	protein_coding	KNOWN	CCDS1458	8642	1662	553	205626979	205649587	-1	PCANAP6, PCANAP2, PCANAP8	IPCA-6, prostein, IPCA-2, IPCA-8
1	HIVEP3	ENSG00000127124	ENST00000372583	protein_coding	KNOWN	CCDS463	13561	7221	2406	41972036	42384169	-1	None	KRC, KBP1, KBP-1, SHN3, FLJ16752, KIAA1555, ZAS3, Schnurri-3, ZNF40C
1	HIVEP3	ENSG00000127124	ENST00000372584	protein_coding	KNOWN	CCDS44124	13561	7218	2405	41972036	42384378	-1	None	KRC, KBP1, KBP-1, SHN3, FLJ16752, KIAA1555, ZAS3, Schnurri-3, ZNF40C
1	HIVEP3	ENSG00000127124	ENST00000460604	processed_transcript	KNOWN	None	13561	None	None	41975901	42045571	-1	None	KRC, KBP1, KBP-1, SHN3, FLJ16752, KIAA1555, ZAS3, Schnurri-3, ZNF40C
1	HIVEP3	ENSG00000127124	ENST00000491442	processed_transcript	KNOWN	None	13561	None	None	42312862	42384340	-1	None	KRC, KBP1, KBP-1, SHN3, FLJ16752, KIAA1555, ZAS3, Schnurri-3, ZNF40C
1	HIVEP3	ENSG00000127124	ENST00000489103	processed_transcript	KNOWN	None	13561	None	None	42312862	42501596	-1	None	KRC, KBP1, KBP-1, SHN3, FLJ16752, KIAA1555, ZAS3, Schnurri-3, ZNF40C
1	HIVEP3	ENSG00000127124	ENST00000479350	processed_transcript	KNOWN	None	13561	None	None	42313619	42335301	-1	None	KRC, KBP1, KBP-1, SHN3, FLJ16752, KIAA1555, ZAS3, Schnurri-3, ZNF40C
1	HIVEP3	ENSG00000127124	ENST00000247584	protein_coding	KNOWN	CCDS463	13561	7221	2406	41975684	42166672	-1	None	KRC, KBP1, KBP-1, SHN3, FLJ16752, KIAA1555, ZAS3, Schnurri-3, ZNF40C
1	HIVEP3	ENSG00000127124	ENST00000429157	protein_coding	KNOWN	CCDS44124	13561	7218	2405	41976122	42166672	-1	None	KRC, KBP1, KBP-1, SHN3, FLJ16752, KIAA1555, ZAS3, Schnurri-3, ZNF40C
12	KLRC2	ENSG00000205809	ENST00000535069	nonsense_mediated_decay	KNOWN	None	6375	312	103	10579453	10588504	-1	None	NKG2-C, CD159c
12	KLRC2	ENSG00000205809	ENST00000381902	protein_coding	KNOWN	CCDS31745	6375	696	231	10583198	10588592	-1	None	NKG2-C, CD159c
12	KLRC2	ENSG00000205809	ENST00000536833	protein_coding	PUTATIVE	None	6375	519	172	10583579	10594899	-1	None	NKG2-C, CD159c
12	KLRC2	ENSG00000205809	ENST00000537017	protein_coding	PUTATIVE	None	6375	257	84	10583619	10586505	-1	None	NKG2-C, CD159c
12	KLRC2	ENSG00000205809	ENST00000381901	protein_coding	KNOWN	None	6375	696	231	10583210	10588592	-1	None	NKG2-C, CD159c
4	None	ENSG00000251129	ENST00000513211	lincRNA	KNOWN	None	None	None	None	31999019	32157028	1	None	None
12	PFKM	ENSG00000152556	ENST00000550345	protein_coding	KNOWN	None	8877	473	156	48498922	48527143	1	PFKX	PFK-1
12	PFKM	ENSG00000152556	ENST00000549003	protein_coding	KNOWN	None	8877	350	115	48499265	48526763	1	PFKX	PFK-1
12	PFKM	ENSG00000152556	ENST00000550924	protein_coding	KNOWN	None	8877	254	83	48499404	48526667	1	PFKX	PFK-1
12	PFKM	ENSG00000152556	ENST00000549941	protein_coding	PUTATIVE	None	8877	458	151	48499694	48526772	1	PFKX	PFK-1
12	PFKM	ENSG00000152556	ENST00000550257	protein_coding	PUTATIVE	None	8877	447	148	48499706	48525164	1	PFKX	PFK-1
12	PFKM	ENSG00000152556	ENST00000340802	protein_coding	PUTATIVE	CCDS53786	8877	2556	851	48499706	48539887	1	PFKX	PFK-1
12	PFKM	ENSG00000152556	ENST00000547581	nonsense_mediated_decay	KNOWN	None	8877	531	176	48499889	48539887	1	PFKX	PFK-1
12	PFKM	ENSG00000152556	ENST00000546755	protein_coding	PUTATIVE	None	8877	376	124	48499890	48516624	1	PFKX	PFK-1
12	PFKM	ENSG00000152556	ENST00000549366	protein_coding	PUTATIVE	None	8877	495	164	48499899	48525125	1	PFKX	PFK-1
12	PFKM	ENSG00000152556	ENST00000552792	protein_coding	PUTATIVE	None	8877	449	148	48499927	48525175	1	PFKX	PFK-1
12	PFKM	ENSG00000152556	ENST00000548288	protein_coding	PUTATIVE	None	8877	425	140	48500171	48525151	1	PFKX	PFK-1
12	PFKM	ENSG00000152556	ENST00000359794	protein_coding	KNOWN	CCDS8760	8877	2343	780	48513009	48539887	1	PFKX	PFK-1
12	PFKM	ENSG00000152556	ENST00000547066	nonsense_mediated_decay	KNOWN	None	8877	222	73	48513047	48525166	1	PFKX	PFK-1
12	PFKM	ENSG00000152556	ENST00000546964	retained_intron	KNOWN	None	8877	None	None	48513126	48539887	1	PFKX	PFK-1
12	PFKM	ENSG00000152556	ENST00000548720	retained_intron	KNOWN	None	8877	None	None	48513131	48525502	1	PFKX	PFK-1
12	PFKM	ENSG00000152556	ENST00000552989	nonsense_mediated_decay	KNOWN	None	8877	180	59	48513134	48531598	1	PFKX	PFK-1
12	PFKM	ENSG00000152556	ENST00000551548	processed_transcript	KNOWN	None	8877	None	None	48513135	48525703	1	PFKX	PFK-1
12	PFKM	ENSG00000152556	ENST00000551485	nonsense_mediated_decay	KNOWN	None	8877	309	102	48513135	48527103	1	PFKX	PFK-1
12	PFKM	ENSG00000152556	ENST00000551339	protein_coding	KNOWN	None	8877	419	138	48513147	48526832	1	PFKX	PFK-1
12	PFKM	ENSG00000152556	ENST00000548345	protein_coding	NOVEL	None	8877	468	155	48513174	48528612	1	PFKX	PFK-1
12	PFKM	ENSG00000152556	ENST00000551804	protein_coding	KNOWN	None	8877	2250	749	48513570	48539887	1	PFKX	PFK-1
12	PFKM	ENSG00000152556	ENST00000549022	protein_coding	KNOWN	None	8877	483	160	48516357	48527153	1	PFKX	PFK-1
12	PFKM	ENSG00000152556	ENST00000547587	protein_coding	KNOWN	CCDS8760	8877	2343	780	48516430	48539887	1	PFKX	PFK-1
12	PFKM	ENSG00000152556	ENST00000546465	protein_coding	NOVEL	None	8877	530	175	48516503	48536596	1	PFKX	PFK-1
12	PFKM	ENSG00000152556	ENST00000547148	retained_intron	KNOWN	None	8877	None	None	48531140	48535099	1	PFKX	PFK-1
12	PFKM	ENSG00000152556	ENST00000552752	nonsense_mediated_decay	KNOWN	None	8877	125	40	48531574	48536649	1	PFKX	PFK-1
12	PFKM	ENSG00000152556	ENST00000550802	retained_intron	KNOWN	None	8877	None	None	48535121	48537856	1	PFKX	PFK-1
12	PFKM	ENSG00000152556	ENST00000552214	retained_intron	KNOWN	None	8877	None	None	48535455	48536680	1	PFKX	PFK-1
12	PFKM	ENSG00000152556	ENST00000552818	retained_intron	KNOWN	None	8877	None	None	48535488	48536161	1	PFKX	PFK-1
12	PFKM	ENSG00000152556	ENST00000553055	protein_coding	NOVEL	None	8877	289	95	48535756	48538834	1	PFKX	PFK-1
12	PFKM	ENSG00000152556	ENST00000395233	protein_coding	KNOWN	None	8877	2250	749	48513161	48539887	1	PFKX	PFK-1
12	PFKM	ENSG00000152556	ENST00000312352	protein_coding	KNOWN	CCDS8760	8877	2343	780	48516430	48540187	1	PFKX	PFK-1
1	NUCKS1	ENSG00000069275	ENST00000367142	protein_coding	KNOWN	CCDS30987	29923	732	243	205681947	205719404	-1	None	NUCKS
1	NUCKS1	ENSG00000069275	ENST00000464938	processed_transcript	PUTATIVE	None	29923	None	None	205687580	205688854	-1	None	NUCKS
1	None	ENSG00000269647	ENST00000599640	protein_coding	KNOWN	None	None	462	153	147631967	147632428	-1	None	None
1	PPIAL4A	ENSG00000255963	ENST00000539781	protein_coding	KNOWN	CCDS30835	24369	495	164	147954635	147955419	-1	PPIAL4	COAS2
19	EMR1	ENSG00000174837	ENST00000250572	protein_coding	KNOWN	CCDS58644	3336	2466	821	6887577	6940470	1	TM7LN3	None
19	EMR1	ENSG00000174837	ENST00000381407	protein_coding	NOVEL	CCDS58646	3336	2238	745	6887582	6940451	1	TM7LN3	None
19	EMR1	ENSG00000174837	ENST00000312053	protein_coding	KNOWN	CCDS12175	3336	2661	886	6887583	6940470	1	TM7LN3	None
19	EMR1	ENSG00000174837	ENST00000450315	protein_coding	NOVEL	CCDS58643	3336	2130	709	6887588	6940445	1	TM7LN3	None
19	EMR1	ENSG00000174837	ENST00000381404	protein_coding	NOVEL	CCDS58645	3336	2604	867	6887590	6940462	1	TM7LN3	None
19	EMR1	ENSG00000174837	ENST00000601198	processed_transcript	KNOWN	None	3336	None	None	6891161	6901966	1	TM7LN3	None
19	EMR1	ENSG00000174837	ENST00000596944	retained_intron	KNOWN	None	3336	None	None	6896390	6897936	1	TM7LN3	None
19	EMR1	ENSG00000174837	ENST00000595026	protein_coding	NOVEL	None	3336	956	317	6896417	6913746	1	TM7LN3	None
1	GUCA2B	ENSG00000044012	ENST00000372581	protein_coding	KNOWN	CCDS464	4683	339	112	42619092	42621495	1	None	None
2	RAB1A	ENSG00000138069	ENST00000494188	processed_transcript	KNOWN	None	9758	None	None	65297835	65357220	-1	RAB1	YPT1
2	RAB1A	ENSG00000138069	ENST00000409892	protein_coding	NOVEL	None	9758	426	141	65313989	65357239	-1	RAB1	YPT1
2	RAB1A	ENSG00000138069	ENST00000409784	protein_coding	KNOWN	CCDS46306	9758	618	205	65313989	65357240	-1	RAB1	YPT1
2	RAB1A	ENSG00000138069	ENST00000398529	protein_coding	NOVEL	CCDS46305	9758	390	129	65315005	65357235	-1	RAB1	YPT1
2	RAB1A	ENSG00000138069	ENST00000409751	protein_coding	NOVEL	None	9758	522	173	65315005	65357238	-1	RAB1	YPT1
2	RAB1A	ENSG00000138069	ENST00000356214	protein_coding	KNOWN	None	9758	522	173	65315431	65357238	-1	RAB1	YPT1
2	RAB1A	ENSG00000138069	ENST00000260638	protein_coding	KNOWN	None	9758	390	129	65315014	65333524	-1	RAB1	YPT1
15	None	ENSG00000259458	ENST00000558940	protein_coding	PUTATIVE	None	None	345	114	62929371	62937490	-1	None	None
15	None	ENSG00000259458	ENST00000560347	protein_coding	PUTATIVE	None	None	141	46	62929835	62937380	-1	None	None
1	GUCA2A	ENSG00000197273	ENST00000357001	protein_coding	KNOWN	CCDS465	4682	348	115	42628362	42630389	-1	GUCA2	STARA
1	None	ENSG00000268313	ENST00000598338	protein_coding	NOVEL	None	None	249	82	205682497	205684153	1	None	None
3	AHSG	ENSG00000145192	ENST00000411641	protein_coding	KNOWN	CCDS3278	349	1104	367	186330712	186339107	1	None	FETUA, A2HS, HSGA
3	AHSG	ENSG00000145192	ENST00000273784	protein_coding	NOVEL	None	349	1107	368	186330855	186339089	1	None	FETUA, A2HS, HSGA
3	AHSG	ENSG00000145192	ENST00000478441	retained_intron	KNOWN	None	349	None	None	186330874	186335778	1	None	FETUA, A2HS, HSGA
3	TF	ENSG00000091513	ENST00000402696	protein_coding	KNOWN	CCDS3080	11740	2097	698	133464800	133497850	1	None	PRO1557, PRO2086
3	TF	ENSG00000091513	ENST00000466911	protein_coding	PUTATIVE	None	11740	227	74	133464884	133473372	1	None	PRO1557, PRO2086
3	TF	ENSG00000091513	ENST00000474287	retained_intron	KNOWN	None	11740	None	None	133465172	133472754	1	None	PRO1557, PRO2086
3	TF	ENSG00000091513	ENST00000460531	retained_intron	KNOWN	None	11740	None	None	133465237	133472924	1	None	PRO1557, PRO2086
3	TF	ENSG00000091513	ENST00000414694	nonsense_mediated_decay	KNOWN	None	11740	348	115	133465237	133473426	1	None	PRO1557, PRO2086
3	TF	ENSG00000091513	ENST00000494430	nonsense_mediated_decay	KNOWN	None	11740	363	120	133465237	133474258	1	None	PRO1557, PRO2086
3	TF	ENSG00000091513	ENST00000493011	retained_intron	KNOWN	None	11740	None	None	133465237	133474655	1	None	PRO1557, PRO2086
3	TF	ENSG00000091513	ENST00000482271	protein_coding	PUTATIVE	None	11740	403	133	133465237	133475767	1	None	PRO1557, PRO2086
3	TF	ENSG00000091513	ENST00000485977	nonsense_mediated_decay	KNOWN	None	11740	309	102	133465237	133478137	1	None	PRO1557, PRO2086
3	TF	ENSG00000091513	ENST00000475382	processed_transcript	KNOWN	None	11740	None	None	133465994	133473507	1	None	PRO1557, PRO2086
3	TF	ENSG00000091513	ENST00000498622	retained_intron	KNOWN	None	11740	None	None	133466984	133473503	1	None	PRO1557, PRO2086
3	TF	ENSG00000091513	ENST00000461695	nonsense_mediated_decay	KNOWN	None	11740	431	142	133485122	133497626	1	None	PRO1557, PRO2086
3	TF	ENSG00000091513	ENST00000462495	retained_intron	KNOWN	None	11740	None	None	133486876	133489800	1	None	PRO1557, PRO2086
3	TF	ENSG00000091513	ENST00000467842	retained_intron	KNOWN	None	11740	None	None	133491596	133497628	1	None	PRO1557, PRO2086
3	TF	ENSG00000091513	ENST00000264998	protein_coding	KNOWN	None	11740	1716	571	133465237	133497635	1	None	PRO1557, PRO2086
20	RAE1	ENSG00000101146	ENST00000395841	protein_coding	KNOWN	CCDS13458	9828	1107	368	55926066	55954267	1	None	Mnrp41
20	RAE1	ENSG00000101146	ENST00000371242	protein_coding	KNOWN	CCDS13458	9828	1107	368	55926279	55954267	1	None	Mnrp41
20	RAE1	ENSG00000101146	ENST00000527947	protein_coding	PUTATIVE	None	9828	1314	437	55926308	55950162	1	None	Mnrp41
20	RAE1	ENSG00000101146	ENST00000492498	nonsense_mediated_decay	KNOWN	None	9828	654	217	55926330	55953155	1	None	Mnrp41
20	RAE1	ENSG00000101146	ENST00000411894	protein_coding	KNOWN	None	9828	412	136	55926566	55941899	1	None	Mnrp41
20	RAE1	ENSG00000101146	ENST00000429339	protein_coding	KNOWN	None	9828	412	136	55926566	55941899	1	None	Mnrp41
20	RAE1	ENSG00000101146	ENST00000395840	protein_coding	KNOWN	CCDS13458	9828	1107	368	55926600	55954267	1	None	Mnrp41
20	RAE1	ENSG00000101146	ENST00000452119	protein_coding	KNOWN	None	9828	262	86	55926633	55931568	1	None	Mnrp41
20	RAE1	ENSG00000101146	ENST00000462438	retained_intron	KNOWN	None	9828	None	None	55946190	55953519	1	None	Mnrp41
19	NOSIP	ENSG00000142546	ENST00000601015	non_stop_decay	KNOWN	None	17946	697	231	50058968	50063887	-1	None	CGI-25
19	NOSIP	ENSG00000142546	ENST00000598820	retained_intron	KNOWN	None	17946	None	None	50058968	50083792	-1	None	CGI-25
19	NOSIP	ENSG00000142546	ENST00000339093	protein_coding	NOVEL	None	17946	915	304	50058968	50083815	-1	None	CGI-25
19	NOSIP	ENSG00000142546	ENST00000596358	protein_coding	KNOWN	CCDS12772	17946	906	301	50058968	50083829	-1	None	CGI-25
19	NOSIP	ENSG00000142546	ENST00000601340	retained_intron	KNOWN	None	17946	None	None	50058970	50083812	-1	None	CGI-25
19	NOSIP	ENSG00000142546	ENST00000596477	retained_intron	KNOWN	None	17946	None	None	50058975	50060552	-1	None	CGI-25
19	NOSIP	ENSG00000142546	ENST00000598550	retained_intron	KNOWN	None	17946	None	None	50059645	50063306	-1	None	CGI-25
19	NOSIP	ENSG00000142546	ENST00000599537	protein_coding	KNOWN	None	17946	725	240	50059806	50093519	-1	None	CGI-25
19	NOSIP	ENSG00000142546	ENST00000598296	protein_coding	NOVEL	None	17946	529	175	50059840	50063948	-1	None	CGI-25
19	NOSIP	ENSG00000142546	ENST00000594932	nonsense_mediated_decay	KNOWN	None	17946	192	63	50059860	50083789	-1	None	CGI-25
19	NOSIP	ENSG00000142546	ENST00000600019	nonsense_mediated_decay	KNOWN	None	17946	192	63	50060236	50083813	-1	None	CGI-25
19	NOSIP	ENSG00000142546	ENST00000598544	protein_coding	KNOWN	None	17946	290	95	50060475	50082535	-1	None	CGI-25
19	NOSIP	ENSG00000142546	ENST00000599425	retained_intron	KNOWN	None	17946	None	None	50060530	50063307	-1	None	CGI-25
19	NOSIP	ENSG00000142546	ENST00000598839	retained_intron	KNOWN	None	17946	None	None	50061134	50063654	-1	None	CGI-25
19	NOSIP	ENSG00000142546	ENST00000601107	retained_intron	KNOWN	None	17946	None	None	50061690	50063294	-1	None	CGI-25
19	NOSIP	ENSG00000142546	ENST00000593345	retained_intron	KNOWN	None	17946	None	None	50062468	50083804	-1	None	CGI-25
19	NOSIP	ENSG00000142546	ENST00000391853	protein_coding	KNOWN	CCDS12772	17946	906	301	50058970	50083803	-1	None	CGI-25
1	RAB7L1	ENSG00000117280	ENST00000367139	protein_coding	KNOWN	CCDS1459	9789	612	203	205737114	205744574	-1	RAB7L	None
1	RAB7L1	ENSG00000117280	ENST00000235932	protein_coding	KNOWN	CCDS1459	9789	612	203	205738565	205744577	-1	RAB7L	None
1	RAB7L1	ENSG00000117280	ENST00000528078	nonsense_mediated_decay	KNOWN	None	9789	129	42	205738575	205744588	-1	RAB7L	None
1	RAB7L1	ENSG00000117280	ENST00000437324	protein_coding	KNOWN	CCDS44302	9789	396	131	205738831	205744579	-1	RAB7L	None
1	RAB7L1	ENSG00000117280	ENST00000446390	protein_coding	KNOWN	CCDS44301	9789	540	179	205738846	205744361	-1	RAB7L	None
1	RAB7L1	ENSG00000117280	ENST00000468887	processed_transcript	KNOWN	None	9789	None	None	205739289	205744568	-1	RAB7L	None
1	RAB7L1	ENSG00000117280	ENST00000414729	protein_coding	KNOWN	CCDS1459	9789	612	203	205739428	205744587	-1	RAB7L	None
1	RAB7L1	ENSG00000117280	ENST00000492534	retained_intron	KNOWN	None	9789	None	None	205740190	205744279	-1	RAB7L	None
1	RAB7L1	ENSG00000117280	ENST00000533111	processed_transcript	KNOWN	None	9789	None	None	205740726	205744337	-1	RAB7L	None
4	SETD7	ENSG00000145391	ENST00000506866	protein_coding	NOVEL	None	30412	1089	362	140417095	140477392	-1	None	KIAA1717, SET7, SET7/9, Set9, KMT7
4	SETD7	ENSG00000145391	ENST00000515101	retained_intron	KNOWN	None	30412	None	None	140417243	140441550	-1	None	KIAA1717, SET7, SET7/9, Set9, KMT7
4	SETD7	ENSG00000145391	ENST00000274031	protein_coding	KNOWN	CCDS3748	30412	1101	366	140427190	140477928	-1	None	KIAA1717, SET7, SET7/9, Set9, KMT7
4	SETD7	ENSG00000145391	ENST00000404104	protein_coding	PUTATIVE	None	30412	408	135	140453733	140477923	-1	None	KIAA1717, SET7, SET7/9, Set9, KMT7
4	SETD7	ENSG00000145391	ENST00000406354	protein_coding	PUTATIVE	None	30412	210	69	140453736	140477362	-1	None	KIAA1717, SET7, SET7/9, Set9, KMT7
16	FUS	ENSG00000089280	ENST00000254108	protein_coding	KNOWN	CCDS10707	4010	1581	526	31191431	31203127	1	ALS6	TLS, FUS1, hnRNP-P2, HNRNPP2
16	FUS	ENSG00000089280	ENST00000566605	nonsense_mediated_decay	KNOWN	None	4010	792	263	31191459	31202923	1	ALS6	TLS, FUS1, hnRNP-P2, HNRNPP2
16	FUS	ENSG00000089280	ENST00000487045	retained_intron	KNOWN	None	4010	None	None	31191460	31194671	1	ALS6	TLS, FUS1, hnRNP-P2, HNRNPP2
16	FUS	ENSG00000089280	ENST00000380244	protein_coding	KNOWN	CCDS58454	4010	1578	525	31191460	31202923	1	ALS6	TLS, FUS1, hnRNP-P2, HNRNPP2
16	FUS	ENSG00000089280	ENST00000487509	retained_intron	KNOWN	None	4010	None	None	31191471	31202923	1	ALS6	TLS, FUS1, hnRNP-P2, HNRNPP2
16	FUS	ENSG00000089280	ENST00000568685	protein_coding	NOVEL	None	4010	1584	527	31191472	31202896	1	ALS6	TLS, FUS1, hnRNP-P2, HNRNPP2
16	FUS	ENSG00000089280	ENST00000487974	retained_intron	KNOWN	None	4010	None	None	31194871	31195719	1	ALS6	TLS, FUS1, hnRNP-P2, HNRNPP2
16	FUS	ENSG00000089280	ENST00000570090	retained_intron	KNOWN	None	4010	None	None	31196401	31198566	1	ALS6	TLS, FUS1, hnRNP-P2, HNRNPP2
16	FUS	ENSG00000089280	ENST00000474990	processed_transcript	KNOWN	None	4010	None	None	31196820	31202423	1	ALS6	TLS, FUS1, hnRNP-P2, HNRNPP2
16	FUS	ENSG00000089280	ENST00000568901	retained_intron	KNOWN	None	4010	None	None	31199473	31201441	1	ALS6	TLS, FUS1, hnRNP-P2, HNRNPP2
16	FUS	ENSG00000089280	ENST00000564766	retained_intron	KNOWN	None	4010	None	None	31199788	31201016	1	ALS6	TLS, FUS1, hnRNP-P2, HNRNPP2
16	FUS	ENSG00000089280	ENST00000569760	retained_intron	KNOWN	None	4010	None	None	31201537	31202926	1	ALS6	TLS, FUS1, hnRNP-P2, HNRNPP2
16	FUS	ENSG00000089280	ENST00000483853	retained_intron	KNOWN	None	4010	None	None	31201694	31202879	1	ALS6	TLS, FUS1, hnRNP-P2, HNRNPP2
17	ELAC2	ENSG00000006744	ENST00000480891	retained_intron	KNOWN	None	14198	None	None	12895708	12909863	-1	None	FLJ10530, HPC2
17	ELAC2	ENSG00000006744	ENST00000484122	retained_intron	KNOWN	None	14198	None	None	12895708	12920945	-1	None	FLJ10530, HPC2
17	ELAC2	ENSG00000006744	ENST00000338034	protein_coding	KNOWN	CCDS11164	14198	2481	826	12895708	12921504	-1	None	FLJ10530, HPC2
17	ELAC2	ENSG00000006744	ENST00000395962	protein_coding	NOVEL	None	14198	2424	807	12895709	12921338	-1	None	FLJ10530, HPC2
17	ELAC2	ENSG00000006744	ENST00000465825	retained_intron	KNOWN	None	14198	None	None	12895710	12904214	-1	None	FLJ10530, HPC2
17	ELAC2	ENSG00000006744	ENST00000487229	retained_intron	KNOWN	None	14198	None	None	12895710	12907425	-1	None	FLJ10530, HPC2
17	ELAC2	ENSG00000006744	ENST00000426905	protein_coding	NOVEL	CCDS54093	14198	2361	786	12895877	12921316	-1	None	FLJ10530, HPC2
17	ELAC2	ENSG00000006744	ENST00000584650	protein_coding	NOVEL	None	14198	1880	625	12895928	12916556	-1	None	FLJ10530, HPC2
17	ELAC2	ENSG00000006744	ENST00000491478	retained_intron	KNOWN	None	14198	None	None	12897747	12901825	-1	None	FLJ10530, HPC2
17	ELAC2	ENSG00000006744	ENST00000492559	retained_intron	KNOWN	None	14198	None	None	12899020	12905701	-1	None	FLJ10530, HPC2
17	ELAC2	ENSG00000006744	ENST00000446899	protein_coding	PUTATIVE	None	14198	858	285	12901729	12914987	-1	None	FLJ10530, HPC2
17	ELAC2	ENSG00000006744	ENST00000578991	retained_intron	KNOWN	None	14198	None	None	12901766	12906042	-1	None	FLJ10530, HPC2
17	ELAC2	ENSG00000006744	ENST00000476042	nonsense_mediated_decay	KNOWN	None	14198	137	44	12903494	12906871	-1	None	FLJ10530, HPC2
17	ELAC2	ENSG00000006744	ENST00000578104	retained_intron	KNOWN	None	14198	None	None	12903542	12907103	-1	None	FLJ10530, HPC2
17	ELAC2	ENSG00000006744	ENST00000580504	protein_coding	KNOWN	None	14198	444	147	12909089	12920981	-1	None	FLJ10530, HPC2
17	ELAC2	ENSG00000006744	ENST00000581499	protein_coding	KNOWN	None	14198	397	131	12914980	12920960	-1	None	FLJ10530, HPC2
17	ELAC2	ENSG00000006744	ENST00000583371	protein_coding	KNOWN	None	14198	367	121	12915010	12921382	-1	None	FLJ10530, HPC2
17	ELAC2	ENSG00000006744	ENST00000578071	processed_transcript	KNOWN	None	14198	None	None	12915041	12921283	-1	None	FLJ10530, HPC2
6	FOXP4	ENSG00000137166	ENST00000373063	protein_coding	KNOWN	CCDS4856	20842	2004	667	41514164	41570122	1	None	FLJ40908
6	FOXP4	ENSG00000137166	ENST00000409208	protein_coding	NOVEL	None	20842	2007	668	41514311	41567697	1	None	FLJ40908
6	FOXP4	ENSG00000137166	ENST00000373057	protein_coding	KNOWN	CCDS34448	20842	2037	678	41514386	41567701	1	None	FLJ40908
6	FOXP4	ENSG00000137166	ENST00000307972	protein_coding	KNOWN	CCDS34447	20842	2043	680	41533487	41568364	1	None	FLJ40908
6	FOXP4	ENSG00000137166	ENST00000451305	protein_coding	PUTATIVE	None	20842	263	86	41537912	41552556	1	None	FLJ40908
6	FOXP4	ENSG00000137166	ENST00000373060	protein_coding	KNOWN	CCDS34447	20842	2043	680	41514164	41570121	1	None	FLJ40908
3	EIF4G1	ENSG00000114867	ENST00000346169	protein_coding	NOVEL	CCDS3259	3296	4800	1599	184032283	184053141	1	EIF4G, EIF4F	p220, PARK18
3	EIF4G1	ENSG00000114867	ENST00000414031	protein_coding	NOVEL	None	3296	4680	1559	184032290	184053141	1	EIF4G, EIF4F	p220, PARK18
3	EIF4G1	ENSG00000114867	ENST00000392537	protein_coding	NOVEL	CCDS3260	3296	4539	1512	184032330	184053139	1	EIF4G, EIF4F	p220, PARK18
3	EIF4G1	ENSG00000114867	ENST00000444134	protein_coding	KNOWN	None	3296	382	126	184032338	184039342	1	EIF4G, EIF4F	p220, PARK18
3	EIF4G1	ENSG00000114867	ENST00000442406	nonsense_mediated_decay	KNOWN	None	3296	153	50	184032339	184053141	1	EIF4G, EIF4F	p220, PARK18
3	EIF4G1	ENSG00000114867	ENST00000450424	protein_coding	NOVEL	None	3296	2501	832	184032340	184042014	1	EIF4G, EIF4F	p220, PARK18
3	EIF4G1	ENSG00000114867	ENST00000421110	protein_coding	NOVEL	None	3296	2608	868	184032350	184042100	1	EIF4G, EIF4F	p220, PARK18
3	EIF4G1	ENSG00000114867	ENST00000382330	protein_coding	NOVEL	CCDS54687	3296	4821	1606	184032355	184052805	1	EIF4G, EIF4F	p220, PARK18
3	EIF4G1	ENSG00000114867	ENST00000413967	nonsense_mediated_decay	KNOWN	None	3296	216	71	184032356	184043087	1	EIF4G, EIF4F	p220, PARK18
3	EIF4G1	ENSG00000114867	ENST00000426123	protein_coding	NOVEL	None	3296	2710	902	184032357	184043087	1	EIF4G, EIF4F	p220, PARK18
3	EIF4G1	ENSG00000114867	ENST00000350481	protein_coding	NOVEL	CCDS3261	3296	4308	1435	184032394	184053141	1	EIF4G, EIF4F	p220, PARK18
3	EIF4G1	ENSG00000114867	ENST00000455679	protein_coding	KNOWN	None	3296	261	86	184032396	184035561	1	EIF4G, EIF4F	p220, PARK18
3	EIF4G1	ENSG00000114867	ENST00000485712	retained_intron	KNOWN	None	3296	None	None	184032401	184033905	1	EIF4G, EIF4F	p220, PARK18
3	EIF4G1	ENSG00000114867	ENST00000440448	protein_coding	NOVEL	None	3296	431	142	184032407	184037516	1	EIF4G, EIF4F	p220, PARK18
3	EIF4G1	ENSG00000114867	ENST00000427141	protein_coding	KNOWN	None	3296	276	91	184032442	184037589	1	EIF4G, EIF4F	p220, PARK18
3	EIF4G1	ENSG00000114867	ENST00000427845	protein_coding	KNOWN	None	3296	4542	1513	184032952	184052696	1	EIF4G, EIF4F	p220, PARK18
3	EIF4G1	ENSG00000114867	ENST00000342981	protein_coding	KNOWN	CCDS54688	3296	4803	1600	184032954	184053146	1	EIF4G, EIF4F	p220, PARK18
3	EIF4G1	ENSG00000114867	ENST00000424196	protein_coding	NOVEL	CCDS54687	3296	4821	1606	184033196	184053139	1	EIF4G, EIF4F	p220, PARK18
3	EIF4G1	ENSG00000114867	ENST00000456033	protein_coding	NOVEL	None	3296	480	159	184033551	184038510	1	EIF4G, EIF4F	p220, PARK18
3	EIF4G1	ENSG00000114867	ENST00000411531	protein_coding	KNOWN	None	3296	4683	1560	184033980	184052696	1	EIF4G, EIF4F	p220, PARK18
3	EIF4G1	ENSG00000114867	ENST00000444861	protein_coding	NOVEL	None	3296	2271	756	184036987	184042809	1	EIF4G, EIF4F	p220, PARK18
3	EIF4G1	ENSG00000114867	ENST00000484862	retained_intron	KNOWN	None	3296	None	None	184037413	184039322	1	EIF4G, EIF4F	p220, PARK18
3	EIF4G1	ENSG00000114867	ENST00000441154	protein_coding	KNOWN	None	3296	4311	1436	184037545	184052696	1	EIF4G, EIF4F	p220, PARK18
3	EIF4G1	ENSG00000114867	ENST00000428387	protein_coding	KNOWN	None	3296	431	142	184038085	184039391	1	EIF4G, EIF4F	p220, PARK18
3	EIF4G1	ENSG00000114867	ENST00000434061	protein_coding	KNOWN	CCDS46970	3296	4215	1404	184038101	184053139	1	EIF4G, EIF4F	p220, PARK18
3	EIF4G1	ENSG00000114867	ENST00000427607	protein_coding	KNOWN	None	3296	489	162	184038234	184039449	1	EIF4G, EIF4F	p220, PARK18
3	EIF4G1	ENSG00000114867	ENST00000457456	protein_coding	KNOWN	None	3296	855	284	184038249	184039815	1	EIF4G, EIF4F	p220, PARK18
3	EIF4G1	ENSG00000114867	ENST00000493299	retained_intron	KNOWN	None	3296	None	None	184038273	184039295	1	EIF4G, EIF4F	p220, PARK18
3	EIF4G1	ENSG00000114867	ENST00000435046	protein_coding	PUTATIVE	None	3296	4212	1403	184038452	184053135	1	EIF4G, EIF4F	p220, PARK18
3	EIF4G1	ENSG00000114867	ENST00000448284	protein_coding	NOVEL	None	3296	677	224	184042892	184045091	1	EIF4G, EIF4F	p220, PARK18
3	EIF4G1	ENSG00000114867	ENST00000466311	retained_intron	KNOWN	None	3296	None	None	184043087	184044696	1	EIF4G, EIF4F	p220, PARK18
3	EIF4G1	ENSG00000114867	ENST00000482303	retained_intron	KNOWN	None	3296	None	None	184045074	184045703	1	EIF4G, EIF4F	p220, PARK18
3	EIF4G1	ENSG00000114867	ENST00000422614	nonsense_mediated_decay	KNOWN	None	3296	541	179	184045737	184049874	1	EIF4G, EIF4F	p220, PARK18
3	EIF4G1	ENSG00000114867	ENST00000460829	retained_intron	KNOWN	None	3296	None	None	184045905	184052842	1	EIF4G, EIF4F	p220, PARK18
3	EIF4G1	ENSG00000114867	ENST00000475721	retained_intron	KNOWN	None	3296	None	None	184046404	184053105	1	EIF4G, EIF4F	p220, PARK18
3	EIF4G1	ENSG00000114867	ENST00000464548	retained_intron	KNOWN	None	3296	None	None	184046457	184049641	1	EIF4G, EIF4F	p220, PARK18
3	EIF4G1	ENSG00000114867	ENST00000478291	retained_intron	KNOWN	None	3296	None	None	184049102	184049893	1	EIF4G, EIF4F	p220, PARK18
3	EIF4G1	ENSG00000114867	ENST00000352767	protein_coding	KNOWN	CCDS54687	3296	4821	1606	184032441	184052805	1	EIF4G, EIF4F	p220, PARK18
3	EIF4G1	ENSG00000114867	ENST00000319274	protein_coding	KNOWN	CCDS3259	3296	4800	1599	184032971	184053145	1	EIF4G, EIF4F	p220, PARK18
4	KDR	ENSG00000128052	ENST00000263923	protein_coding	KNOWN	CCDS3497	6307	4071	1356	55944644	55991756	-1	None	FLK1, VEGFR, VEGFR2, CD309
4	KDR	ENSG00000128052	ENST00000509309	retained_intron	KNOWN	None	6307	None	None	55961017	55962887	-1	None	FLK1, VEGFR, VEGFR2, CD309
4	KDR	ENSG00000128052	ENST00000512566	retained_intron	KNOWN	None	6307	None	None	55970760	55991460	-1	None	FLK1, VEGFR, VEGFR2, CD309
9	CDK9	ENSG00000136807	ENST00000421939	protein_coding	KNOWN	None	1780	583	193	130547958	130549854	1	CDC2L4	PITALRE, C-2k, TAK
9	CDK9	ENSG00000136807	ENST00000373264	protein_coding	KNOWN	CCDS6879	1780	1119	372	130548328	130553066	1	CDC2L4	PITALRE, C-2k, TAK
9	CDK9	ENSG00000136807	ENST00000480353	processed_transcript	KNOWN	None	1780	None	None	130548353	130550691	1	CDC2L4	PITALRE, C-2k, TAK
9	CDK9	ENSG00000136807	ENST00000491521	processed_transcript	KNOWN	None	1780	None	None	130549779	130550884	1	CDC2L4	PITALRE, C-2k, TAK
9	CDK9	ENSG00000136807	ENST00000498339	processed_transcript	KNOWN	None	1780	None	None	130550701	130551643	1	CDC2L4	PITALRE, C-2k, TAK
9	CDK9	ENSG00000136807	ENST00000373265	protein_coding	KNOWN	None	1780	1470	489	130548077	130553052	1	CDC2L4	PITALRE, C-2k, TAK
X	HEPH	ENSG00000089472	ENST00000519389	protein_coding	KNOWN	CCDS14384	4866	3639	1212	65382391	65488709	1	None	KIAA0698, CPL
X	HEPH	ENSG00000089472	ENST00000336279	protein_coding	KNOWN	CCDS14385	4866	2676	891	65384109	65487228	1	None	KIAA0698, CPL
X	HEPH	ENSG00000089472	ENST00000458621	protein_coding	KNOWN	None	4866	624	207	65384112	65393642	1	None	KIAA0698, CPL
X	HEPH	ENSG00000089472	ENST00000429547	nonsense_mediated_decay	KNOWN	None	4866	192	63	65384140	65392270	1	None	KIAA0698, CPL
X	HEPH	ENSG00000089472	ENST00000441993	protein_coding	NOVEL	CCDS48133	4866	3483	1160	65384201	65487225	1	None	KIAA0698, CPL
X	HEPH	ENSG00000089472	ENST00000419594	protein_coding	NOVEL	None	4866	2910	969	65384207	65487188	1	None	KIAA0698, CPL
X	HEPH	ENSG00000089472	ENST00000343002	protein_coding	KNOWN	None	4866	3477	1158	65389749	65487227	1	None	KIAA0698, CPL
X	HEPH	ENSG00000089472	ENST00000425114	protein_coding	NOVEL	None	4866	2434	810	65390388	65428088	1	None	KIAA0698, CPL
X	HEPH	ENSG00000089472	ENST00000471121	retained_intron	KNOWN	None	4866	None	None	65420294	65428103	1	None	KIAA0698, CPL
X	HEPH	ENSG00000089472	ENST00000374727	protein_coding	KNOWN	None	4866	3486	1161	65382433	65487228	1	None	KIAA0698, CPL
1	FOXJ3	ENSG00000198815	ENST00000372571	protein_coding	NOVEL	None	29178	411	136	42642210	42655480	-1	None	KIAA1041
1	FOXJ3	ENSG00000198815	ENST00000372572	protein_coding	NOVEL	CCDS30689	29178	1869	622	42642210	42800636	-1	None	KIAA1041
1	FOXJ3	ENSG00000198815	ENST00000372573	protein_coding	KNOWN	CCDS30689	29178	1869	622	42642210	42801548	-1	None	KIAA1041
1	FOXJ3	ENSG00000198815	ENST00000445886	protein_coding	NOVEL	None	29178	1146	381	42657077	42800892	-1	None	KIAA1041
1	FOXJ3	ENSG00000198815	ENST00000422278	protein_coding	PUTATIVE	None	29178	260	85	42660668	42671682	-1	None	KIAA1041
1	FOXJ3	ENSG00000198815	ENST00000454417	protein_coding	PUTATIVE	None	29178	378	125	42730602	42744258	-1	None	KIAA1041
1	FOXJ3	ENSG00000198815	ENST00000361346	protein_coding	KNOWN	CCDS30689	29178	1869	622	42642216	42800903	-1	None	KIAA1041
1	FOXJ3	ENSG00000198815	ENST00000361776	protein_coding	KNOWN	CCDS55594	29178	1767	588	42642216	42800903	-1	None	KIAA1041
1	FOXJ3	ENSG00000198815	ENST00000545068	protein_coding	KNOWN	CCDS30689	29178	1869	622	42642220	42781130	-1	None	KIAA1041
1	SLC41A1	ENSG00000133065	ENST00000367137	protein_coding	KNOWN	CCDS30988	19429	1542	513	205758221	205782304	-1	None	MgtE
1	SLC41A1	ENSG00000133065	ENST00000468057	processed_transcript	KNOWN	None	19429	None	None	205758222	205770616	-1	None	MgtE
1	SLC41A1	ENSG00000133065	ENST00000484228	processed_transcript	KNOWN	None	19429	None	None	205760048	205765744	-1	None	MgtE
1	SLC41A1	ENSG00000133065	ENST00000484000	processed_transcript	KNOWN	None	19429	None	None	205779427	205782876	-1	None	MgtE
1	NBPF14	ENSG00000122497	ENST00000310701	protein_coding	KNOWN	None	25232	2783	926	148003642	148025848	-1	None	DJ328E19.C1.1
1	NBPF14	ENSG00000122497	ENST00000444640	protein_coding	KNOWN	None	25232	1534	510	148005466	148025863	-1	None	DJ328E19.C1.1
1	NBPF14	ENSG00000122497	ENST00000431121	protein_coding	KNOWN	None	25232	1534	510	148005466	148025863	-1	None	DJ328E19.C1.1
1	NBPF14	ENSG00000122497	ENST00000436356	protein_coding	KNOWN	None	25232	1534	510	148005466	148025863	-1	None	DJ328E19.C1.1
1	NBPF14	ENSG00000122497	ENST00000448574	protein_coding	KNOWN	None	25232	1534	510	148005466	148025863	-1	None	DJ328E19.C1.1
1	NBPF14	ENSG00000122497	ENST00000458135	protein_coding	KNOWN	None	25232	1534	510	148005466	148025863	-1	None	DJ328E19.C1.1
1	NBPF14	ENSG00000122497	ENST00000392972	protein_coding	KNOWN	None	25232	1534	510	148005466	148025863	-1	None	DJ328E19.C1.1
1	NBPF14	ENSG00000122497	ENST00000426874	protein_coding	KNOWN	None	25232	1534	510	148011743	148025863	-1	None	DJ328E19.C1.1
1	NBPF14	ENSG00000122497	ENST00000369219	protein_coding	KNOWN	None	25232	2766	921	148003660	148025848	-1	None	DJ328E19.C1.1
19	VN1R2	ENSG00000196131	ENST00000341702	protein_coding	KNOWN	CCDS12862	19872	1188	395	53761545	53762855	1	None	V1RL2
19	VN1R2	ENSG00000196131	ENST00000598458	processed_transcript	KNOWN	None	19872	None	None	53762463	53765090	1	None	V1RL2
17	SGSH	ENSG00000181523	ENST00000575484	processed_transcript	KNOWN	None	10818	None	None	78180515	78183341	-1	None	HSS, MPS3A, SFMD
17	SGSH	ENSG00000181523	ENST00000571156	processed_transcript	KNOWN	None	10818	None	None	78181404	78183673	-1	None	HSS, MPS3A, SFMD
17	SGSH	ENSG00000181523	ENST00000572257	protein_coding	PUTATIVE	None	10818	581	192	78181455	78188521	-1	None	HSS, MPS3A, SFMD
17	SGSH	ENSG00000181523	ENST00000326317	protein_coding	KNOWN	CCDS11770	10818	1509	502	78183063	78194199	-1	None	HSS, MPS3A, SFMD
17	SGSH	ENSG00000181523	ENST00000575282	retained_intron	KNOWN	None	10818	None	None	78183081	78194121	-1	None	HSS, MPS3A, SFMD
17	SGSH	ENSG00000181523	ENST00000573150	nonsense_mediated_decay	KNOWN	None	10818	684	227	78183089	78194159	-1	None	HSS, MPS3A, SFMD
17	SGSH	ENSG00000181523	ENST00000576856	protein_coding	PUTATIVE	None	10818	204	67	78184196	78186017	-1	None	HSS, MPS3A, SFMD
17	SGSH	ENSG00000181523	ENST00000570923	protein_coding	PUTATIVE	None	10818	825	274	78185333	78194137	-1	None	HSS, MPS3A, SFMD
17	SGSH	ENSG00000181523	ENST00000576941	nonsense_mediated_decay	KNOWN	None	10818	327	108	78186004	78194132	-1	None	HSS, MPS3A, SFMD
17	SGSH	ENSG00000181523	ENST00000574505	nonsense_mediated_decay	KNOWN	None	10818	320	105	78187620	78194057	-1	None	HSS, MPS3A, SFMD
17	SGSH	ENSG00000181523	ENST00000572208	processed_transcript	KNOWN	None	10818	None	None	78187631	78194130	-1	None	HSS, MPS3A, SFMD
17	SGSH	ENSG00000181523	ENST00000571051	retained_intron	KNOWN	None	10818	None	None	78187965	78194132	-1	None	HSS, MPS3A, SFMD
17	SGSH	ENSG00000181523	ENST00000576707	protein_coding	PUTATIVE	None	10818	331	109	78188042	78194722	-1	None	HSS, MPS3A, SFMD
17	SGSH	ENSG00000181523	ENST00000570427	protein_coding	NOVEL	None	10818	563	186	78188089	78194132	-1	None	HSS, MPS3A, SFMD
17	SGSH	ENSG00000181523	ENST00000571675	retained_intron	KNOWN	None	10818	None	None	78188369	78194132	-1	None	HSS, MPS3A, SFMD
17	SGSH	ENSG00000181523	ENST00000575188	retained_intron	KNOWN	None	10818	None	None	78188654	78194132	-1	None	HSS, MPS3A, SFMD
17	SGSH	ENSG00000181523	ENST00000571075	retained_intron	KNOWN	None	10818	None	None	78190522	78194132	-1	None	HSS, MPS3A, SFMD
17	SGSH	ENSG00000181523	ENST00000534910	protein_coding	KNOWN	None	10818	900	299	78183089	78194159	-1	None	HSS, MPS3A, SFMD
1	RIMKLA	ENSG00000177181	ENST00000410070	protein_coding	PUTATIVE	None	28725	291	96	42846466	42875836	1	FAM80A	MGC47816, RP11-157D18.1, NAAGS-II
1	RIMKLA	ENSG00000177181	ENST00000431473	protein_coding	KNOWN	CCDS466	28725	1176	391	42846477	42888249	1	FAM80A	MGC47816, RP11-157D18.1, NAAGS-II
19	OR10H4	ENSG00000176231	ENST00000322107	protein_coding	KNOWN	CCDS32941	15388	951	316	16059818	16060768	1	None	None
15	MAPKBP1	ENSG00000137802	ENST00000512970	nonsense_mediated_decay	KNOWN	None	29536	996	331	42066632	42117815	1	None	KIAA0596
15	MAPKBP1	ENSG00000137802	ENST00000457542	protein_coding	KNOWN	CCDS32201	29536	4527	1508	42066632	42120053	1	None	KIAA0596
15	MAPKBP1	ENSG00000137802	ENST00000505373	nonsense_mediated_decay	KNOWN	None	29536	210	69	42066691	42117814	1	None	KIAA0596
15	MAPKBP1	ENSG00000137802	ENST00000456763	protein_coding	KNOWN	CCDS45239	29536	4545	1514	42066722	42120051	1	None	KIAA0596
15	MAPKBP1	ENSG00000137802	ENST00000514566	protein_coding	KNOWN	CCDS58359	29536	3696	1231	42066740	42119154	1	None	KIAA0596
15	MAPKBP1	ENSG00000137802	ENST00000502292	retained_intron	KNOWN	None	29536	None	None	42066746	42108816	1	None	KIAA0596
15	MAPKBP1	ENSG00000137802	ENST00000510535	protein_coding	KNOWN	None	29536	469	155	42066900	42104296	1	None	KIAA0596
15	MAPKBP1	ENSG00000137802	ENST00000505061	retained_intron	KNOWN	None	29536	None	None	42067509	42118375	1	None	KIAA0596
15	MAPKBP1	ENSG00000137802	ENST00000507762	processed_transcript	KNOWN	None	29536	None	None	42067533	42103942	1	None	KIAA0596
15	MAPKBP1	ENSG00000137802	ENST00000515164	retained_intron	KNOWN	None	29536	None	None	42102890	42104907	1	None	KIAA0596
15	MAPKBP1	ENSG00000137802	ENST00000507147	retained_intron	KNOWN	None	29536	None	None	42102959	42103524	1	None	KIAA0596
15	MAPKBP1	ENSG00000137802	ENST00000503526	retained_intron	KNOWN	None	29536	None	None	42108477	42109195	1	None	KIAA0596
15	MAPKBP1	ENSG00000137802	ENST00000508050	retained_intron	KNOWN	None	29536	None	None	42113568	42114500	1	None	KIAA0596
15	MAPKBP1	ENSG00000137802	ENST00000506301	retained_intron	KNOWN	None	29536	None	None	42114164	42115010	1	None	KIAA0596
15	MAPKBP1	ENSG00000137802	ENST00000502695	retained_intron	KNOWN	None	29536	None	None	42114171	42114861	1	None	KIAA0596
15	MAPKBP1	ENSG00000137802	ENST00000512433	retained_intron	KNOWN	None	29536	None	None	42114848	42115674	1	None	KIAA0596
15	MAPKBP1	ENSG00000137802	ENST00000221214	protein_coding	KNOWN	None	29536	4176	1391	42066632	42120051	1	None	KIAA0596
15	MAPKBP1	ENSG00000137802	ENST00000260357	protein_coding	KNOWN	None	29536	4044	1347	42066691	42117814	1	None	KIAA0596
19	ATP1A3	ENSG00000105409	ENST00000441343	non_stop_decay	KNOWN	None	801	3680	1225	42470734	42498366	-1	DYT12	None
19	ATP1A3	ENSG00000105409	ENST00000302102	protein_coding	KNOWN	CCDS12594	801	3042	1013	42470734	42498379	-1	DYT12	None
19	ATP1A3	ENSG00000105409	ENST00000545399	protein_coding	NOVEL	CCDS58664	801	3081	1026	42470736	42498382	-1	DYT12	None
19	ATP1A3	ENSG00000105409	ENST00000543770	protein_coding	PUTATIVE	CCDS58663	801	3075	1024	42470773	42497619	-1	DYT12	None
19	ATP1A3	ENSG00000105409	ENST00000602133	protein_coding	PUTATIVE	None	801	2952	983	42470934	42498231	-1	DYT12	None
19	ATP1A3	ENSG00000105409	ENST00000485672	retained_intron	KNOWN	None	801	None	None	42488413	42489494	-1	DYT12	None
19	ATP1A3	ENSG00000105409	ENST00000473086	protein_coding	PUTATIVE	None	801	534	177	42489558	42501649	-1	DYT12	None
19	ATP1A3	ENSG00000105409	ENST00000468774	processed_transcript	KNOWN	None	801	None	None	42492224	42497674	-1	DYT12	None
19	ATP1A3	ENSG00000105409	ENST00000465007	processed_transcript	PUTATIVE	None	801	None	None	42492357	42492709	-1	DYT12	None
6	TBP	ENSG00000112592	ENST00000421512	protein_coding	NOVEL	None	11588	625	207	170863390	170876045	1	GTF2D1, SCA17	TFIID
6	TBP	ENSG00000112592	ENST00000230354	protein_coding	KNOWN	CCDS5315	11588	1020	339	170863467	170881958	1	GTF2D1, SCA17	TFIID
6	TBP	ENSG00000112592	ENST00000423353	protein_coding	NOVEL	None	11588	452	149	170863693	170871276	1	GTF2D1, SCA17	TFIID
6	TBP	ENSG00000112592	ENST00000446829	protein_coding	NOVEL	None	11588	304	100	170878700	170881941	1	GTF2D1, SCA17	TFIID
6	TBP	ENSG00000112592	ENST00000392092	protein_coding	KNOWN	CCDS5315	11588	1020	339	170863421	170881957	1	GTF2D1, SCA17	TFIID
6	TBP	ENSG00000112592	ENST00000540980	protein_coding	KNOWN	CCDS55077	11588	960	319	170863421	170881957	1	GTF2D1, SCA17	TFIID
4	WDFY3	ENSG00000163625	ENST00000295888	protein_coding	KNOWN	CCDS3609	20751	10581	3526	85590763	85887544	-1	None	KIAA0993, ALFY, ZFYVE25
4	WDFY3	ENSG00000163625	ENST00000425179	retained_intron	KNOWN	None	20751	None	None	85593444	85604101	-1	None	KIAA0993, ALFY, ZFYVE25
4	WDFY3	ENSG00000163625	ENST00000514711	protein_coding	PUTATIVE	None	20751	1918	638	85612879	85654615	-1	None	KIAA0993, ALFY, ZFYVE25
4	WDFY3	ENSG00000163625	ENST00000504839	retained_intron	KNOWN	None	20751	None	None	85656259	85660483	-1	None	KIAA0993, ALFY, ZFYVE25
4	WDFY3	ENSG00000163625	ENST00000509825	retained_intron	KNOWN	None	20751	None	None	85672401	85676552	-1	None	KIAA0993, ALFY, ZFYVE25
4	WDFY3	ENSG00000163625	ENST00000505923	processed_transcript	KNOWN	None	20751	None	None	85722935	85731260	-1	None	KIAA0993, ALFY, ZFYVE25
4	WDFY3	ENSG00000163625	ENST00000512267	processed_transcript	KNOWN	None	20751	None	None	85722943	85725327	-1	None	KIAA0993, ALFY, ZFYVE25
4	WDFY3	ENSG00000163625	ENST00000426414	retained_intron	KNOWN	None	20751	None	None	85730019	85818094	-1	None	KIAA0993, ALFY, ZFYVE25
4	WDFY3	ENSG00000163625	ENST00000514071	protein_coding	NOVEL	None	20751	240	79	85762345	85771168	-1	None	KIAA0993, ALFY, ZFYVE25
4	WDFY3	ENSG00000163625	ENST00000504990	retained_intron	KNOWN	None	20751	None	None	85770826	85781716	-1	None	KIAA0993, ALFY, ZFYVE25
4	WDFY3	ENSG00000163625	ENST00000509172	protein_coding	KNOWN	None	20751	180	59	85781565	85887503	-1	None	KIAA0993, ALFY, ZFYVE25
4	WDFY3	ENSG00000163625	ENST00000502713	protein_coding	KNOWN	None	20751	28	8	85781717	85887544	-1	None	KIAA0993, ALFY, ZFYVE25
4	WDFY3	ENSG00000163625	ENST00000322366	protein_coding	KNOWN	None	20751	10530	3509	85590704	85887544	-1	None	KIAA0993, ALFY, ZFYVE25
1	PM20D1	ENSG00000162877	ENST00000367136	protein_coding	KNOWN	CCDS1460	26518	1509	502	205797150	205819245	-1	None	FLJ32569, Cps1
1	PM20D1	ENSG00000162877	ENST00000460624	processed_transcript	KNOWN	None	26518	None	None	205797154	205819260	-1	None	FLJ32569, Cps1
1	PM20D1	ENSG00000162877	ENST00000469861	processed_transcript	PUTATIVE	None	26518	None	None	205797461	205799417	-1	None	FLJ32569, Cps1
1	PM20D1	ENSG00000162877	ENST00000461807	processed_transcript	KNOWN	None	26518	None	None	205797481	205811007	-1	None	FLJ32569, Cps1
1	ZMYND12	ENSG00000066185	ENST00000372565	protein_coding	KNOWN	CCDS467	21192	1098	365	42896000	42921938	-1	None	DKFZp434N2435
1	ZMYND12	ENSG00000066185	ENST00000475426	processed_transcript	KNOWN	None	21192	None	None	42898531	42901193	-1	None	DKFZp434N2435
1	ZMYND12	ENSG00000066185	ENST00000461083	processed_transcript	KNOWN	None	21192	None	None	42902092	42921682	-1	None	DKFZp434N2435
1	ZMYND12	ENSG00000066185	ENST00000433602	protein_coding	KNOWN	CCDS53305	21192	768	255	42896006	42921938	-1	None	DKFZp434N2435
2	RAPGEF4	ENSG00000091428	ENST00000484331	processed_transcript	KNOWN	None	16626	None	None	173600002	173782565	1	None	cAMP-GEFII, CGEF2
2	RAPGEF4	ENSG00000091428	ENST00000397081	protein_coding	KNOWN	CCDS42775	16626	3036	1011	173600569	173917615	1	None	cAMP-GEFII, CGEF2
2	RAPGEF4	ENSG00000091428	ENST00000409036	protein_coding	NOVEL	None	16626	2832	943	173600695	173917621	1	None	cAMP-GEFII, CGEF2
2	RAPGEF4	ENSG00000091428	ENST00000464976	processed_transcript	KNOWN	None	16626	None	None	173608866	173679468	1	None	cAMP-GEFII, CGEF2
2	RAPGEF4	ENSG00000091428	ENST00000397087	protein_coding	PUTATIVE	CCDS42776	16626	2604	867	173686303	173917621	1	None	cAMP-GEFII, CGEF2
2	RAPGEF4	ENSG00000091428	ENST00000473003	processed_transcript	KNOWN	None	16626	None	None	173724766	173830366	1	None	cAMP-GEFII, CGEF2
2	RAPGEF4	ENSG00000091428	ENST00000473043	processed_transcript	KNOWN	None	16626	None	None	173754529	173855653	1	None	cAMP-GEFII, CGEF2
2	RAPGEF4	ENSG00000091428	ENST00000466030	processed_transcript	KNOWN	None	16626	None	None	173792880	173832125	1	None	cAMP-GEFII, CGEF2
2	RAPGEF4	ENSG00000091428	ENST00000473182	retained_intron	KNOWN	None	16626	None	None	173829869	173832044	1	None	cAMP-GEFII, CGEF2
2	RAPGEF4	ENSG00000091428	ENST00000459852	processed_transcript	PUTATIVE	None	16626	None	None	173831837	173853001	1	None	cAMP-GEFII, CGEF2
2	RAPGEF4	ENSG00000091428	ENST00000397085	protein_coding	PUTATIVE	None	16626	564	187	173891354	173901523	1	None	cAMP-GEFII, CGEF2
2	RAPGEF4	ENSG00000091428	ENST00000484645	retained_intron	KNOWN	None	16626	None	None	173912856	173916682	1	None	cAMP-GEFII, CGEF2
2	RAPGEF4	ENSG00000091428	ENST00000264111	protein_coding	KNOWN	None	16626	3033	1010	173600525	173917613	1	None	cAMP-GEFII, CGEF2
2	RAPGEF4	ENSG00000091428	ENST00000538974	protein_coding	KNOWN	None	16626	2523	840	173724771	173916630	1	None	cAMP-GEFII, CGEF2
2	RAPGEF4	ENSG00000091428	ENST00000540783	protein_coding	KNOWN	None	16626	2577	858	173724803	173916907	1	None	cAMP-GEFII, CGEF2
2	RAPGEF4	ENSG00000091428	ENST00000539331	protein_coding	KNOWN	None	16626	2577	858	173754502	173916754	1	None	cAMP-GEFII, CGEF2
2	RAPGEF4	ENSG00000091428	ENST00000535187	protein_coding	KNOWN	None	16626	2376	791	173793009	173916706	1	None	cAMP-GEFII, CGEF2
1	PPIAL4D	ENSG00000256374	ENST00000544708	protein_coding	KNOWN	CCDS59199	33998	495	164	148201752	148202536	-1	None	None
19	ZNF555	ENSG00000186300	ENST00000334241	protein_coding	KNOWN	CCDS12096	28382	1887	628	2841433	2860482	1	None	MGC26707
19	ZNF555	ENSG00000186300	ENST00000585966	protein_coding	PUTATIVE	None	28382	335	110	2841435	2852494	1	None	MGC26707
19	ZNF555	ENSG00000186300	ENST00000591539	protein_coding	NOVEL	CCDS59329	28382	1884	627	2841442	2854207	1	None	MGC26707
1	PPCS	ENSG00000127125	ENST00000372562	protein_coding	KNOWN	CCDS41312	25686	417	138	42921788	42925752	1	None	FLJ11838
1	PPCS	ENSG00000127125	ENST00000372560	protein_coding	KNOWN	None	25686	642	213	42922210	42923175	1	None	FLJ11838
1	PPCS	ENSG00000127125	ENST00000472013	processed_transcript	KNOWN	None	25686	None	None	42922215	42926083	1	None	FLJ11838
1	PPCS	ENSG00000127125	ENST00000372561	protein_coding	KNOWN	CCDS41311	25686	936	311	42922230	42926085	1	None	FLJ11838
1	PPCS	ENSG00000127125	ENST00000372556	protein_coding	NOVEL	None	25686	171	56	42922232	42926085	1	None	FLJ11838
1	PPCS	ENSG00000127125	ENST00000471420	processed_transcript	KNOWN	None	25686	None	None	42922472	42939056	1	None	FLJ11838
1	PPCS	ENSG00000127125	ENST00000482168	processed_transcript	KNOWN	None	25686	None	None	42922965	42925687	1	None	FLJ11838
1	PPCS	ENSG00000127125	ENST00000469615	processed_transcript	KNOWN	None	25686	None	None	42924875	42925949	1	None	FLJ11838
1	PPCS	ENSG00000127125	ENST00000455780	protein_coding	KNOWN	CCDS41312	25686	417	138	42922173	42926086	1	None	FLJ11838
19	VN1R4	ENSG00000228567	ENST00000311170	protein_coding	KNOWN	CCDS33099	19871	906	301	53769929	53770972	-1	None	V1RL4
7	TFR2	ENSG00000106327	ENST00000490084	nonsense_mediated_decay	KNOWN	None	11762	509	168	100218043	100230727	-1	None	HFE3, TFRC2
7	TFR2	ENSG00000106327	ENST00000465294	retained_intron	KNOWN	None	11762	None	None	100218043	100239137	-1	None	HFE3, TFRC2
7	TFR2	ENSG00000106327	ENST00000462107	protein_coding	KNOWN	CCDS34707	11762	2406	801	100218043	100240344	-1	None	HFE3, TFRC2
7	TFR2	ENSG00000106327	ENST00000462090	retained_intron	KNOWN	None	11762	None	None	100218078	100230713	-1	None	HFE3, TFRC2
7	TFR2	ENSG00000106327	ENST00000476304	retained_intron	KNOWN	None	11762	None	None	100218086	100231273	-1	None	HFE3, TFRC2
7	TFR2	ENSG00000106327	ENST00000461176	retained_intron	KNOWN	None	11762	None	None	100224176	100225227	-1	None	HFE3, TFRC2
7	TFR2	ENSG00000106327	ENST00000473374	retained_intron	KNOWN	None	11762	None	None	100225064	100231027	-1	None	HFE3, TFRC2
7	TFR2	ENSG00000106327	ENST00000473963	retained_intron	KNOWN	None	11762	None	None	100225225	100229683	-1	None	HFE3, TFRC2
7	TFR2	ENSG00000106327	ENST00000473571	retained_intron	KNOWN	None	11762	None	None	100228608	100231031	-1	None	HFE3, TFRC2
7	TFR2	ENSG00000106327	ENST00000475011	retained_intron	KNOWN	None	11762	None	None	100230392	100231181	-1	None	HFE3, TFRC2
7	TFR2	ENSG00000106327	ENST00000474947	retained_intron	KNOWN	None	11762	None	None	100237426	100240402	-1	None	HFE3, TFRC2
7	TFR2	ENSG00000106327	ENST00000223051	protein_coding	KNOWN	CCDS34707	11762	2406	801	100218039	100239173	-1	None	HFE3, TFRC2
7	TFR2	ENSG00000106327	ENST00000544242	protein_coding	KNOWN	None	11762	1029	342	100218048	100230727	-1	None	HFE3, TFRC2
7	TFR2	ENSG00000106327	ENST00000431692	protein_coding	KNOWN	None	11762	1068	355	100218039	100239173	-1	None	HFE3, TFRC2
19	BIRC8	ENSG00000163098	ENST00000426466	protein_coding	KNOWN	CCDS12863	14878	711	236	53792856	53794875	-1	None	ILP-2, hILP2
2	ACTR2	ENSG00000138071	ENST00000260641	protein_coding	KNOWN	CCDS1881	169	1185	394	65454887	65498387	1	None	ARP2
2	ACTR2	ENSG00000138071	ENST00000476840	processed_transcript	KNOWN	None	169	None	None	65454922	65473871	1	None	ARP2
2	ACTR2	ENSG00000138071	ENST00000471552	processed_transcript	KNOWN	None	169	None	None	65454967	65473852	1	None	ARP2
2	ACTR2	ENSG00000138071	ENST00000377982	protein_coding	KNOWN	CCDS46307	169	1200	399	65454971	65497280	1	None	ARP2
2	ACTR2	ENSG00000138071	ENST00000542850	protein_coding	KNOWN	None	169	918	305	65454967	65492501	1	None	ARP2
7	None	ENSG00000200113	ENST00000363243	snoRNA	NOVEL	None	None	None	None	37459231	37459370	1	None	None
19	TPM4	ENSG00000167460	ENST00000589897	protein_coding	KNOWN	None	12013	209	68	16177831	16186951	1	None	None
19	TPM4	ENSG00000167460	ENST00000344824	protein_coding	KNOWN	CCDS46007	12013	855	284	16178317	16212600	1	None	None
19	TPM4	ENSG00000167460	ENST00000586499	protein_coding	PUTATIVE	None	12013	511	169	16178510	16198903	1	None	None
19	TPM4	ENSG00000167460	ENST00000586833	protein_coding	PUTATIVE	None	12013	537	178	16186496	16204354	1	None	None
19	TPM4	ENSG00000167460	ENST00000588507	protein_coding	PUTATIVE	None	12013	290	95	16186910	16204374	1	None	None
19	TPM4	ENSG00000167460	ENST00000300933	protein_coding	KNOWN	CCDS12338	12013	747	248	16187116	16213691	1	None	None
19	TPM4	ENSG00000167460	ENST00000587201	retained_intron	KNOWN	None	12013	None	None	16187309	16199262	1	None	None
19	TPM4	ENSG00000167460	ENST00000588410	protein_coding	PUTATIVE	None	12013	415	137	16187831	16198876	1	None	None
19	TPM4	ENSG00000167460	ENST00000590180	processed_transcript	PUTATIVE	None	12013	None	None	16190866	16192856	1	None	None
19	TPM4	ENSG00000167460	ENST00000588483	protein_coding	PUTATIVE	None	12013	50	15	16191636	16197286	1	None	None
19	TPM4	ENSG00000167460	ENST00000592138	protein_coding	PUTATIVE	None	12013	307	101	16192533	16204391	1	None	None
19	TPM4	ENSG00000167460	ENST00000588032	nonsense_mediated_decay	KNOWN	None	12013	331	109	16198869	16213187	1	None	None
19	TPM4	ENSG00000167460	ENST00000586193	retained_intron	KNOWN	None	12013	None	None	16199449	16204408	1	None	None
19	TPM4	ENSG00000167460	ENST00000591645	processed_transcript	KNOWN	None	12013	None	None	16203917	16212567	1	None	None
19	TPM4	ENSG00000167460	ENST00000592822	protein_coding	PUTATIVE	None	12013	180	59	16204382	16206238	1	None	None
19	TPM4	ENSG00000167460	ENST00000591226	retained_intron	KNOWN	None	12013	None	None	16210477	16213148	1	None	None
19	TPM4	ENSG00000167460	ENST00000538887	protein_coding	KNOWN	CCDS46007	12013	855	284	16178348	16213813	1	None	None
7	None	ENSG00000201566	ENST00000364696	misc_RNA	NOVEL	None	None	None	None	37474718	37474819	1	None	None
22	SBF1	ENSG00000100241	ENST00000380817	protein_coding	KNOWN	CCDS14091	10542	5682	1893	50885184	50913453	-1	None	MTMR5, DENND7A
22	SBF1	ENSG00000100241	ENST00000348911	protein_coding	NOVEL	None	10542	5607	1868	50885235	50913371	-1	None	MTMR5, DENND7A
22	SBF1	ENSG00000100241	ENST00000418590	protein_coding	PUTATIVE	None	10542	1246	414	50885239	50893806	-1	None	MTMR5, DENND7A
22	SBF1	ENSG00000100241	ENST00000470434	retained_intron	KNOWN	None	10542	None	None	50885255	50894418	-1	None	MTMR5, DENND7A
22	SBF1	ENSG00000100241	ENST00000473724	retained_intron	KNOWN	None	10542	None	None	50885512	50886038	-1	None	MTMR5, DENND7A
22	SBF1	ENSG00000100241	ENST00000476293	processed_transcript	PUTATIVE	None	10542	None	None	50895018	50895776	-1	None	MTMR5, DENND7A
22	SBF1	ENSG00000100241	ENST00000477234	retained_intron	KNOWN	None	10542	None	None	50904625	50905784	-1	None	MTMR5, DENND7A
22	SBF1	ENSG00000100241	ENST00000399627	retained_intron	KNOWN	None	10542	None	None	50904860	50913278	-1	None	MTMR5, DENND7A
22	SBF1	ENSG00000100241	ENST00000390679	protein_coding	KNOWN	None	10542	5604	1867	50885571	50913454	-1	None	MTMR5, DENND7A
3	NR1D2	ENSG00000174738	ENST00000312521	protein_coding	KNOWN	CCDS33718	7963	1740	579	23986751	24022109	1	None	BD73, RVR, EAR-1r, HZF2, Hs.37288
3	NR1D2	ENSG00000174738	ENST00000383773	nonsense_mediated_decay	KNOWN	None	7963	1227	408	23986866	24019988	1	None	BD73, RVR, EAR-1r, HZF2, Hs.37288
3	NR1D2	ENSG00000174738	ENST00000492552	processed_transcript	KNOWN	None	7963	None	None	23987612	24019034	1	None	BD73, RVR, EAR-1r, HZF2, Hs.37288
3	NR1D2	ENSG00000174738	ENST00000468700	retained_intron	KNOWN	None	7963	None	None	23996117	24003825	1	None	BD73, RVR, EAR-1r, HZF2, Hs.37288
3	NR1D2	ENSG00000174738	ENST00000472780	retained_intron	KNOWN	None	7963	None	None	24006255	24009504	1	None	BD73, RVR, EAR-1r, HZF2, Hs.37288
4	CLCN3	ENSG00000109572	ENST00000511092	protein_coding	KNOWN	None	2021	521	172	170533784	170610296	1	None	CLC3, ClC-3
4	CLCN3	ENSG00000109572	ENST00000513761	protein_coding	KNOWN	CCDS34101	2021	2457	818	170541672	170644824	1	None	CLC3, ClC-3
4	CLCN3	ENSG00000109572	ENST00000347613	protein_coding	KNOWN	CCDS34100	2021	2601	866	170541677	170641696	1	None	CLC3, ClC-3
4	CLCN3	ENSG00000109572	ENST00000360642	protein_coding	NOVEL	CCDS58932	2021	2376	791	170541680	170641429	1	None	CLC3, ClC-3
4	CLCN3	ENSG00000109572	ENST00000512813	protein_coding	KNOWN	None	2021	416	137	170541703	170608906	1	None	CLC3, ClC-3
4	CLCN3	ENSG00000109572	ENST00000506924	processed_transcript	PUTATIVE	None	2021	None	None	170557134	170564319	1	None	CLC3, ClC-3
4	CLCN3	ENSG00000109572	ENST00000507875	protein_coding	PUTATIVE	None	2021	2177	724	170581213	170634338	1	None	CLC3, ClC-3
4	CLCN3	ENSG00000109572	ENST00000502998	processed_transcript	PUTATIVE	None	2021	None	None	170601219	170601882	1	None	CLC3, ClC-3
4	CLCN3	ENSG00000109572	ENST00000515420	protein_coding	NOVEL	None	2021	735	244	170616782	170628039	1	None	CLC3, ClC-3
4	CLCN3	ENSG00000109572	ENST00000504131	protein_coding	KNOWN	None	2021	2406	801	170541988	170641514	1	None	CLC3, ClC-3
19	ZNF845	ENSG00000213799	ENST00000601857	protein_coding	KNOWN	None	25112	409	135	53837002	53854337	1	None	None
19	ZNF845	ENSG00000213799	ENST00000595091	protein_coding	KNOWN	CCDS46170	25112	2913	970	53837002	53857799	1	None	None
19	ZNF845	ENSG00000213799	ENST00000458035	protein_coding	KNOWN	CCDS46170	25112	2913	970	53837002	53858122	1	None	None
7	NECAP1P1	ENSG00000178503	ENST00000320802	processed_pseudogene	KNOWN	None	43912	None	None	37625103	37625932	-1	None	None
4	ZFYVE28	ENSG00000159733	ENST00000508471	protein_coding	NOVEL	None	29334	579	192	2271309	2289442	-1	None	KIAA1643
4	ZFYVE28	ENSG00000159733	ENST00000290974	protein_coding	KNOWN	CCDS33942	29334	2664	887	2271325	2420390	-1	None	KIAA1643
4	ZFYVE28	ENSG00000159733	ENST00000511071	protein_coding	KNOWN	CCDS54711	29334	2574	857	2272066	2420363	-1	None	KIAA1643
4	ZFYVE28	ENSG00000159733	ENST00000515312	protein_coding	KNOWN	CCDS54708	29334	2454	817	2272222	2366604	-1	None	KIAA1643
4	ZFYVE28	ENSG00000159733	ENST00000514248	retained_intron	KNOWN	None	29334	None	None	2272645	2273478	-1	None	KIAA1643
4	ZFYVE28	ENSG00000159733	ENST00000515169	protein_coding	PUTATIVE	CCDS54709	29334	492	163	2330261	2366531	-1	None	KIAA1643
4	ZFYVE28	ENSG00000159733	ENST00000509171	protein_coding	PUTATIVE	CCDS54710	29334	519	172	2330533	2420378	-1	None	KIAA1643
4	ZFYVE28	ENSG00000159733	ENST00000503000	protein_coding	NOVEL	CCDS54712	29334	864	287	2331889	2420336	-1	None	KIAA1643
4	ZFYVE28	ENSG00000159733	ENST00000508184	protein_coding	PUTATIVE	None	29334	247	81	2341244	2408392	-1	None	KIAA1643
4	ZFYVE28	ENSG00000159733	ENST00000504743	processed_transcript	PUTATIVE	None	29334	None	None	2343043	2366554	-1	None	KIAA1643
4	ZFYVE28	ENSG00000159733	ENST00000505421	processed_transcript	KNOWN	None	29334	None	None	2344308	2345251	-1	None	KIAA1643
1	SLC26A9	ENSG00000174502	ENST00000340781	protein_coding	KNOWN	CCDS30989	14469	2664	887	205882176	205904950	-1	None	None
1	SLC26A9	ENSG00000174502	ENST00000367135	protein_coding	KNOWN	CCDS30990	14469	2376	791	205882176	205912588	-1	None	None
1	SLC26A9	ENSG00000174502	ENST00000491127	retained_intron	KNOWN	None	14469	None	None	205882182	205897514	-1	None	None
1	SLC26A9	ENSG00000174502	ENST00000461505	retained_intron	KNOWN	None	14469	None	None	205892279	205893873	-1	None	None
1	SLC26A9	ENSG00000174502	ENST00000469392	retained_intron	KNOWN	None	14469	None	None	205896620	205899420	-1	None	None
1	SLC26A9	ENSG00000174502	ENST00000367134	protein_coding	KNOWN	CCDS30989	14469	2664	887	205882182	205912588	-1	None	None
2	SPRED2	ENSG00000198369	ENST00000356388	protein_coding	KNOWN	CCDS33211	17722	1257	418	65537985	65659311	-1	None	Spred-2, FLJ21897, FLJ31917
2	SPRED2	ENSG00000198369	ENST00000443619	protein_coding	KNOWN	CCDS46308	17722	1248	415	65540127	65593784	-1	None	Spred-2, FLJ21897, FLJ31917
2	SPRED2	ENSG00000198369	ENST00000452315	protein_coding	PUTATIVE	None	17722	1298	431	65540639	65604884	-1	None	Spred-2, FLJ21897, FLJ31917
2	SPRED2	ENSG00000198369	ENST00000421087	protein_coding	NOVEL	None	17722	701	232	65540837	65561907	-1	None	Spred-2, FLJ21897, FLJ31917
2	SPRED2	ENSG00000198369	ENST00000474228	processed_transcript	KNOWN	None	17722	None	None	65543868	65593886	-1	None	Spred-2, FLJ21897, FLJ31917
2	SPRED2	ENSG00000198369	ENST00000426832	nonsense_mediated_decay	KNOWN	None	17722	312	103	65559338	65571933	-1	None	Spred-2, FLJ21897, FLJ31917
2	SPRED2	ENSG00000198369	ENST00000440972	protein_coding	KNOWN	None	17722	349	115	65561763	65659771	-1	None	Spred-2, FLJ21897, FLJ31917
2	SPRED2	ENSG00000198369	ENST00000427238	protein_coding	PUTATIVE	None	17722	143	46	65571330	65571920	-1	None	Spred-2, FLJ21897, FLJ31917
6	PRDM1	ENSG00000057657	ENST00000369091	protein_coding	NOVEL	None	9346	2370	789	106534195	106555383	1	BLIMP1	PRDI-BF1
6	PRDM1	ENSG00000057657	ENST00000369096	protein_coding	KNOWN	CCDS5054	9346	2478	825	106534195	106557813	1	BLIMP1	PRDI-BF1
6	PRDM1	ENSG00000057657	ENST00000424894	protein_coding	NOVEL	None	9346	189	62	106535455	106543495	1	BLIMP1	PRDI-BF1
6	PRDM1	ENSG00000057657	ENST00000489365	retained_intron	KNOWN	None	9346	None	None	106536229	106544042	1	BLIMP1	PRDI-BF1
6	PRDM1	ENSG00000057657	ENST00000450060	protein_coding	PUTATIVE	None	9346	515	170	106546481	106552913	1	BLIMP1	PRDI-BF1
6	PRDM1	ENSG00000057657	ENST00000481163	retained_intron	KNOWN	None	9346	None	None	106546800	106547584	1	BLIMP1	PRDI-BF1
6	PRDM1	ENSG00000057657	ENST00000369089	protein_coding	NOVEL	CCDS34505	9346	2076	691	106546815	106557814	1	BLIMP1	PRDI-BF1
X	INE1	ENSG00000224975	ENST00000456273	protein_coding	KNOWN	None	6060	156	51	47064320	47065264	1	None	NCRNA00010
1	NBPF20	ENSG00000203832	ENST00000369202	protein_coding	KNOWN	None	32000	13866	4621	148250249	148347051	-1	None	None
1	NBPF20	ENSG00000203832	ENST00000369188	protein_coding	NOVEL	None	32000	2525	840	148305263	148346932	-1	None	None
1	NBPF20	ENSG00000203832	ENST00000369189	protein_coding	NOVEL	None	32000	2297	764	148305266	148347506	-1	None	None
1	NBPF20	ENSG00000203832	ENST00000414710	protein_coding	KNOWN	None	32000	777	258	148341796	148346929	-1	None	None
1	CCDC30	ENSG00000186409	ENST00000475614	processed_transcript	KNOWN	None	26103	None	None	42929001	42948667	1	None	FLJ20972, PFD6L, LOC728621
1	CCDC30	ENSG00000186409	ENST00000477155	nonsense_mediated_decay	KNOWN	None	26103	1446	481	42929025	43119857	1	None	FLJ20972, PFD6L, LOC728621
1	CCDC30	ENSG00000186409	ENST00000468651	processed_transcript	KNOWN	None	26103	None	None	42929097	42939088	1	None	FLJ20972, PFD6L, LOC728621
1	CCDC30	ENSG00000186409	ENST00000492422	processed_transcript	KNOWN	None	26103	None	None	42929593	42939231	1	None	FLJ20972, PFD6L, LOC728621
1	CCDC30	ENSG00000186409	ENST00000462063	processed_transcript	KNOWN	None	26103	None	None	42933415	42939056	1	None	FLJ20972, PFD6L, LOC728621
1	CCDC30	ENSG00000186409	ENST00000495044	retained_intron	KNOWN	None	26103	None	None	42948365	43003656	1	None	FLJ20972, PFD6L, LOC728621
1	CCDC30	ENSG00000186409	ENST00000507855	protein_coding	PUTATIVE	None	26103	1719	572	42955600	43119857	1	None	FLJ20972, PFD6L, LOC728621
1	CCDC30	ENSG00000186409	ENST00000509712	nonsense_mediated_decay	KNOWN	None	26103	939	312	42962782	43047087	1	None	FLJ20972, PFD6L, LOC728621
1	CCDC30	ENSG00000186409	ENST00000471390	nonsense_mediated_decay	KNOWN	None	26103	186	61	42999550	43119861	1	None	FLJ20972, PFD6L, LOC728621
1	CCDC30	ENSG00000186409	ENST00000340612	protein_coding	KNOWN	CCDS30690	26103	2352	783	43002156	43120011	1	None	FLJ20972, PFD6L, LOC728621
1	CCDC30	ENSG00000186409	ENST00000514642	retained_intron	KNOWN	None	26103	None	None	43002244	43061244	1	None	FLJ20972, PFD6L, LOC728621
1	CCDC30	ENSG00000186409	ENST00000471699	processed_transcript	KNOWN	None	26103	None	None	43047105	43056132	1	None	FLJ20972, PFD6L, LOC728621
1	CCDC30	ENSG00000186409	ENST00000428554	protein_coding	KNOWN	CCDS30690	26103	2352	783	42929025	43119852	1	None	FLJ20972, PFD6L, LOC728621
1	CCDC30	ENSG00000186409	ENST00000342022	protein_coding	KNOWN	CCDS30690	26103	2352	783	43000560	43120335	1	None	FLJ20972, PFD6L, LOC728621
1	CCDC30	ENSG00000186409	ENST00000390640	protein_coding	KNOWN	None	26103	1719	572	43008460	43119852	1	None	FLJ20972, PFD6L, LOC728621
17	SMCR7	ENSG00000177427	ENST00000323019	protein_coding	KNOWN	CCDS11193	17920	1365	454	18163848	18169866	1	SMCR7	MGC23130, MiD49
17	SMCR7	ENSG00000177427	ENST00000578174	protein_coding	PUTATIVE	None	17920	354	117	18163911	18166860	1	SMCR7	MGC23130, MiD49
17	SMCR7	ENSG00000177427	ENST00000395704	protein_coding	KNOWN	CCDS45625	17920	618	205	18163911	18169518	1	SMCR7	MGC23130, MiD49
17	SMCR7	ENSG00000177427	ENST00000395703	protein_coding	NOVEL	None	17920	492	163	18163918	18166829	1	SMCR7	MGC23130, MiD49
17	SMCR7	ENSG00000177427	ENST00000577216	processed_transcript	PUTATIVE	None	17920	None	None	18163930	18167441	1	SMCR7	MGC23130, MiD49
17	SMCR7	ENSG00000177427	ENST00000578621	protein_coding	PUTATIVE	None	17920	366	121	18163959	18167116	1	SMCR7	MGC23130, MiD49
17	SMCR7	ENSG00000177427	ENST00000579341	protein_coding	NOVEL	None	17920	479	158	18163975	18167195	1	SMCR7	MGC23130, MiD49
17	SMCR7	ENSG00000177427	ENST00000583745	retained_intron	KNOWN	None	17920	None	None	18163976	18166495	1	SMCR7	MGC23130, MiD49
17	SMCR7	ENSG00000177427	ENST00000395706	protein_coding	NOVEL	CCDS45624	17920	1398	465	18164424	18169095	1	SMCR7	MGC23130, MiD49
11	TCP11L1	ENSG00000176148	ENST00000532687	retained_intron	KNOWN	None	25655	None	None	33060963	33065658	1	None	FLJ11336
11	TCP11L1	ENSG00000176148	ENST00000530419	protein_coding	KNOWN	None	25655	432	143	33060963	33079479	1	None	FLJ11336
11	TCP11L1	ENSG00000176148	ENST00000334274	protein_coding	KNOWN	CCDS7882	25655	1530	509	33060963	33095109	1	None	FLJ11336
11	TCP11L1	ENSG00000176148	ENST00000527661	nonsense_mediated_decay	KNOWN	None	25655	1788	595	33061118	33127488	1	None	FLJ11336
11	TCP11L1	ENSG00000176148	ENST00000530171	processed_transcript	PUTATIVE	None	25655	None	None	33061133	33079642	1	None	FLJ11336
11	TCP11L1	ENSG00000176148	ENST00000528107	nonsense_mediated_decay	KNOWN	None	25655	465	154	33061332	33094391	1	None	FLJ11336
11	TCP11L1	ENSG00000176148	ENST00000602733	protein_coding	KNOWN	None	25655	318	105	33061348	33078682	1	None	FLJ11336
11	TCP11L1	ENSG00000176148	ENST00000528898	protein_coding	KNOWN	None	25655	163	53	33061574	33065482	1	None	FLJ11336
11	TCP11L1	ENSG00000176148	ENST00000531632	protein_coding	KNOWN	CCDS7882	25655	1530	509	33061577	33094394	1	None	FLJ11336
11	TCP11L1	ENSG00000176148	ENST00000528962	protein_coding	PUTATIVE	None	25655	475	157	33090233	33127489	1	None	FLJ11336
11	TCP11L1	ENSG00000176148	ENST00000432887	protein_coding	KNOWN	CCDS7882	25655	1530	509	33061561	33095109	1	None	FLJ11336
11	TCP11L1	ENSG00000176148	ENST00000324357	protein_coding	KNOWN	None	25655	1125	374	33080518	33127488	1	None	FLJ11336
11	NR1H3	ENSG00000025434	ENST00000495866	processed_transcript	KNOWN	None	7966	None	None	47269851	47282057	1	None	LXR-a, RLD-1
11	NR1H3	ENSG00000025434	ENST00000527464	processed_transcript	KNOWN	None	7966	None	None	47269851	47283525	1	None	LXR-a, RLD-1
11	NR1H3	ENSG00000025434	ENST00000529540	processed_transcript	KNOWN	None	7966	None	None	47269862	47290389	1	None	LXR-a, RLD-1
11	NR1H3	ENSG00000025434	ENST00000395397	protein_coding	NOVEL	CCDS44585	7966	1209	402	47270467	47290363	1	None	LXR-a, RLD-1
11	NR1H3	ENSG00000025434	ENST00000405576	protein_coding	PUTATIVE	None	7966	1029	342	47270467	47290394	1	None	LXR-a, RLD-1
11	NR1H3	ENSG00000025434	ENST00000481020	retained_intron	KNOWN	None	7966	None	None	47270475	47290382	1	None	LXR-a, RLD-1
11	NR1H3	ENSG00000025434	ENST00000481889	protein_coding	PUTATIVE	None	7966	1401	466	47270475	47290382	1	None	LXR-a, RLD-1
11	NR1H3	ENSG00000025434	ENST00000436778	protein_coding	KNOWN	None	7966	606	201	47270478	47282898	1	None	LXR-a, RLD-1
11	NR1H3	ENSG00000025434	ENST00000487913	retained_intron	KNOWN	None	7966	None	None	47270478	47283570	1	None	LXR-a, RLD-1
11	NR1H3	ENSG00000025434	ENST00000531660	protein_coding	PUTATIVE	None	7966	502	166	47270478	47289559	1	None	LXR-a, RLD-1
11	NR1H3	ENSG00000025434	ENST00000532630	processed_transcript	KNOWN	None	7966	None	None	47270478	47290367	1	None	LXR-a, RLD-1
11	NR1H3	ENSG00000025434	ENST00000407404	protein_coding	KNOWN	CCDS44584	7966	1164	387	47270507	47290332	1	None	LXR-a, RLD-1
11	NR1H3	ENSG00000025434	ENST00000444396	protein_coding	KNOWN	None	7966	581	192	47279155	47282873	1	None	LXR-a, RLD-1
11	NR1H3	ENSG00000025434	ENST00000457932	protein_coding	KNOWN	None	7966	232	76	47279174	47281530	1	None	LXR-a, RLD-1
11	NR1H3	ENSG00000025434	ENST00000412937	protein_coding	NOVEL	None	7966	404	133	47279209	47282831	1	None	LXR-a, RLD-1
11	NR1H3	ENSG00000025434	ENST00000449369	protein_coding	KNOWN	None	7966	615	204	47279248	47282907	1	None	LXR-a, RLD-1
11	NR1H3	ENSG00000025434	ENST00000486991	retained_intron	KNOWN	None	7966	None	None	47279259	47280057	1	None	LXR-a, RLD-1
11	NR1H3	ENSG00000025434	ENST00000419652	nonsense_mediated_decay	KNOWN	None	7966	165	54	47279261	47281374	1	None	LXR-a, RLD-1
11	NR1H3	ENSG00000025434	ENST00000461778	processed_transcript	KNOWN	None	7966	None	None	47279468	47282831	1	None	LXR-a, RLD-1
11	NR1H3	ENSG00000025434	ENST00000441012	protein_coding	KNOWN	CCDS7929	7966	1344	447	47279513	47290335	1	None	LXR-a, RLD-1
11	NR1H3	ENSG00000025434	ENST00000437276	protein_coding	KNOWN	None	7966	205	67	47279514	47281503	1	None	LXR-a, RLD-1
11	NR1H3	ENSG00000025434	ENST00000525441	processed_transcript	KNOWN	None	7966	None	None	47279521	47282972	1	None	LXR-a, RLD-1
11	NR1H3	ENSG00000025434	ENST00000436029	protein_coding	PUTATIVE	None	7966	636	211	47279522	47282928	1	None	LXR-a, RLD-1
11	NR1H3	ENSG00000025434	ENST00000467728	protein_coding	KNOWN	CCDS7929	7966	1344	447	47279530	47290396	1	None	LXR-a, RLD-1
11	NR1H3	ENSG00000025434	ENST00000420369	nonsense_mediated_decay	KNOWN	None	7966	345	114	47279547	47282896	1	None	LXR-a, RLD-1
11	NR1H3	ENSG00000025434	ENST00000405853	protein_coding	KNOWN	CCDS44584	7966	1164	387	47279549	47290394	1	None	LXR-a, RLD-1
11	NR1H3	ENSG00000025434	ENST00000476086	processed_transcript	KNOWN	None	7966	None	None	47279552	47282229	1	None	LXR-a, RLD-1
11	NR1H3	ENSG00000025434	ENST00000530310	processed_transcript	KNOWN	None	7966	None	None	47279657	47282167	1	None	LXR-a, RLD-1
11	NR1H3	ENSG00000025434	ENST00000498548	retained_intron	KNOWN	None	7966	None	None	47280431	47281520	1	None	LXR-a, RLD-1
11	NR1H3	ENSG00000025434	ENST00000473222	processed_transcript	KNOWN	None	7966	None	None	47281015	47282176	1	None	LXR-a, RLD-1
11	NR1H3	ENSG00000025434	ENST00000483882	retained_intron	KNOWN	None	7966	None	None	47281138	47282138	1	None	LXR-a, RLD-1
11	NR1H3	ENSG00000025434	ENST00000527949	protein_coding	NOVEL	None	7966	891	296	47281948	47290368	1	None	LXR-a, RLD-1
11	NR1H3	ENSG00000025434	ENST00000462051	retained_intron	KNOWN	None	7966	None	None	47289496	47290395	1	None	LXR-a, RLD-1
11	NR1H3	ENSG00000025434	ENST00000494018	retained_intron	KNOWN	None	7966	None	None	47289692	47290395	1	None	LXR-a, RLD-1
10	CASP7	ENSG00000165806	ENST00000429617	protein_coding	KNOWN	None	1508	667	221	115438942	115486178	1	None	MCH3, CMH-1, ICE-LAP3
10	CASP7	ENSG00000165806	ENST00000369331	protein_coding	KNOWN	CCDS7582	1508	762	253	115438963	115490655	1	None	MCH3, CMH-1, ICE-LAP3
10	CASP7	ENSG00000165806	ENST00000345633	protein_coding	KNOWN	CCDS7581	1508	912	303	115439428	115490662	1	None	MCH3, CMH-1, ICE-LAP3
10	CASP7	ENSG00000165806	ENST00000369318	protein_coding	KNOWN	CCDS7581	1508	912	303	115439636	115490662	1	None	MCH3, CMH-1, ICE-LAP3
10	CASP7	ENSG00000165806	ENST00000369315	protein_coding	KNOWN	CCDS7581	1508	912	303	115439699	115490662	1	None	MCH3, CMH-1, ICE-LAP3
10	CASP7	ENSG00000165806	ENST00000468790	processed_transcript	KNOWN	None	1508	None	None	115478969	115481445	1	None	MCH3, CMH-1, ICE-LAP3
10	CASP7	ENSG00000165806	ENST00000487232	retained_intron	KNOWN	None	1508	None	None	115480757	115489262	1	None	MCH3, CMH-1, ICE-LAP3
10	CASP7	ENSG00000165806	ENST00000369321	protein_coding	KNOWN	CCDS7580	1508	1011	336	115439426	115490662	1	None	MCH3, CMH-1, ICE-LAP3
10	CASP7	ENSG00000165806	ENST00000452490	protein_coding	KNOWN	CCDS58096	1508	837	278	115469143	115489582	1	None	MCH3, CMH-1, ICE-LAP3
5	RNA5SP177	ENSG00000222054	ENST00000410122	rRNA	KNOWN	None	43077	None	None	9761019	9761125	1	RN5S177	None
5	None	ENSG00000250814	ENST00000508097	lincRNA	KNOWN	None	None	None	None	9854489	9890049	1	None	None
5	None	ENSG00000249807	ENST00000506299	lincRNA	KNOWN	None	None	None	None	10137250	10138477	1	None	None
12	NEUROD4	ENSG00000123307	ENST00000242994	protein_coding	KNOWN	CCDS8886	13802	996	331	55413729	55423798	1	None	Atoh3, ATH-3, MATH-3, bHLHa4
5	None	ENSG00000260515	ENST00000566945	lincRNA	KNOWN	None	None	None	None	10195233	10197740	-1	None	None
X	ZBED1	ENSG00000214717	ENST00000381222	protein_coding	KNOWN	CCDS14118	447	2085	694	2404477	2419008	-1	ALTE	TRAMP, KIAA0785, DREF, hDREF
X	ZBED1	ENSG00000214717	ENST00000381218	protein_coding	KNOWN	CCDS14118	447	2085	694	2406227	2418596	-1	ALTE	TRAMP, KIAA0785, DREF, hDREF
X	ZBED1	ENSG00000214717	ENST00000461691	protein_coding	KNOWN	None	447	815	270	2407946	2418936	-1	ALTE	TRAMP, KIAA0785, DREF, hDREF
X	ZBED1	ENSG00000214717	ENST00000381223	protein_coding	KNOWN	CCDS14118	447	2085	694	2404455	2419008	-1	ALTE	TRAMP, KIAA0785, DREF, hDREF
15	HDC	ENSG00000140287	ENST00000559816	retained_intron	KNOWN	None	4855	None	None	50534144	50545502	-1	None	None
15	HDC	ENSG00000140287	ENST00000267845	protein_coding	KNOWN	CCDS10134	4855	1989	662	50534144	50558223	-1	None	None
15	HDC	ENSG00000140287	ENST00000543581	protein_coding	NOVEL	None	4855	1890	629	50534210	50557863	-1	None	None
15	HDC	ENSG00000140287	ENST00000558761	retained_intron	KNOWN	None	4855	None	None	50545117	50557923	-1	None	None
15	HDC	ENSG00000140287	ENST00000559190	retained_intron	KNOWN	None	4855	None	None	50545321	50555512	-1	None	None
15	HDC	ENSG00000140287	ENST00000558679	retained_intron	KNOWN	None	4855	None	None	50545923	50558162	-1	None	None
15	HDC	ENSG00000140287	ENST00000559683	protein_coding	PUTATIVE	None	4855	536	177	50546749	50555626	-1	None	None
12	OR9K2	ENSG00000170605	ENST00000305377	protein_coding	KNOWN	CCDS31814	15339	1008	335	55523465	55524586	1	None	None
1	FAM72A	ENSG00000196550	ENST00000470041	processed_transcript	KNOWN	None	24044	None	None	206136916	206154164	1	None	MGC57827, RP11-312O7.1
1	FAM72A	ENSG00000196550	ENST00000468509	protein_coding	PUTATIVE	None	24044	213	70	206137237	206138150	1	None	MGC57827, RP11-312O7.1
1	FAM72A	ENSG00000196550	ENST00000367129	protein_coding	PUTATIVE	None	24044	450	149	206137265	206154207	1	None	MGC57827, RP11-312O7.1
1	FAM72A	ENSG00000196550	ENST00000367128	protein_coding	KNOWN	CCDS41458	24044	450	149	206138457	206155151	1	None	MGC57827, RP11-312O7.1
1	FAM72A	ENSG00000196550	ENST00000481737	processed_transcript	KNOWN	None	24044	None	None	206138479	206145490	1	None	MGC57827, RP11-312O7.1
1	FAM72A	ENSG00000196550	ENST00000431655	protein_coding	PUTATIVE	None	24044	361	119	206138503	206154049	1	None	MGC57827, RP11-312O7.1
1	FAM72A	ENSG00000196550	ENST00000341209	protein_coding	NOVEL	None	24044	330	109	206138884	206155074	1	None	MGC57827, RP11-312O7.1
1	FAM72A	ENSG00000196550	ENST00000607379	protein_coding	PUTATIVE	None	24044	156	51	206138911	206140049	1	None	MGC57827, RP11-312O7.1
5	None	ENSG00000271998	ENST00000606203	lincRNA	KNOWN	None	None	None	None	10195299	10197734	-1	None	None
11	IL18BP	ENSG00000137496	ENST00000393703	protein_coding	KNOWN	CCDS8206	5987	585	194	71709587	71713573	1	None	IL18BPa
11	IL18BP	ENSG00000137496	ENST00000497194	protein_coding	PUTATIVE	None	5987	600	199	71709659	71714799	1	None	IL18BPa
11	IL18BP	ENSG00000137496	ENST00000393705	protein_coding	KNOWN	CCDS8206	5987	585	194	71709938	71713573	1	None	IL18BPa
11	IL18BP	ENSG00000137496	ENST00000525932	processed_transcript	PUTATIVE	None	5987	None	None	71709955	71710747	1	None	IL18BPa
11	IL18BP	ENSG00000137496	ENST00000414358	processed_transcript	PUTATIVE	None	5987	None	None	71709955	71710984	1	None	IL18BPa
11	IL18BP	ENSG00000137496	ENST00000531777	processed_transcript	PUTATIVE	None	5987	None	None	71709957	71710754	1	None	IL18BPa
11	IL18BP	ENSG00000137496	ENST00000337131	protein_coding	KNOWN	CCDS8206	5987	585	194	71709958	71713573	1	None	IL18BPa
11	IL18BP	ENSG00000137496	ENST00000531053	protein_coding	PUTATIVE	None	5987	600	199	71709971	71712791	1	None	IL18BPa
11	IL18BP	ENSG00000137496	ENST00000343898	nonsense_mediated_decay	KNOWN	None	5987	492	163	71709975	71716761	1	None	IL18BPa
11	IL18BP	ENSG00000137496	ENST00000534583	nonsense_mediated_decay	KNOWN	CCDS8206	5987	585	194	71710647	71713743	1	None	IL18BPa
11	IL18BP	ENSG00000137496	ENST00000393707	protein_coding	KNOWN	CCDS44666	5987	348	115	71710973	71713573	1	None	IL18BPa
11	IL18BP	ENSG00000137496	ENST00000404792	protein_coding	KNOWN	CCDS8206	5987	585	194	71710109	71713572	1	None	IL18BPa
11	IL18BP	ENSG00000137496	ENST00000260049	protein_coding	KNOWN	CCDS8206	5987	585	194	71710663	71713572	1	None	IL18BPa
7	GATSL1	ENSG00000183086	ENST00000361825	protein_coding	KNOWN	CCDS56493	37072	990	329	74379083	74438803	1	None	None
2	ATP6V1C2	ENSG00000143882	ENST00000272238	protein_coding	KNOWN	CCDS42653	18264	1284	427	10861775	10923561	1	None	VMA5, ATP6C2
2	ATP6V1C2	ENSG00000143882	ENST00000381661	protein_coding	KNOWN	CCDS1674	18264	1146	381	10861775	10925236	1	None	VMA5, ATP6C2
2	ATP6V1C2	ENSG00000143882	ENST00000480289	retained_intron	KNOWN	None	18264	None	None	10918614	10923369	1	None	VMA5, ATP6C2
5	COL4A3BP	ENSG00000113163	ENST00000357457	protein_coding	KNOWN	None	2205	704	233	74664311	74696046	-1	None	GPBP, STARD11, CERT
5	COL4A3BP	ENSG00000113163	ENST00000604926	retained_intron	KNOWN	None	2205	None	None	74664312	74667666	-1	None	GPBP, STARD11, CERT
5	COL4A3BP	ENSG00000113163	ENST00000380494	protein_coding	KNOWN	CCDS47235	2205	2259	752	74666928	74807963	-1	None	GPBP, STARD11, CERT
5	COL4A3BP	ENSG00000113163	ENST00000405807	protein_coding	KNOWN	CCDS4028	2205	1875	624	74669480	74807454	-1	None	GPBP, STARD11, CERT
5	COL4A3BP	ENSG00000113163	ENST00000508692	processed_transcript	KNOWN	None	2205	None	None	74669788	74681748	-1	None	GPBP, STARD11, CERT
5	COL4A3BP	ENSG00000113163	ENST00000261415	protein_coding	KNOWN	CCDS4029	2205	1797	598	74669983	74807454	-1	None	GPBP, STARD11, CERT
5	COL4A3BP	ENSG00000113163	ENST00000508809	protein_coding	KNOWN	None	2205	379	125	74674857	74677894	-1	None	GPBP, STARD11, CERT
5	None	ENSG00000196193	ENST00000358163	pseudogene	KNOWN	None	None	None	None	10201621	10201960	1	None	None
X	DNASE1L1	ENSG00000013563	ENST00000369807	protein_coding	KNOWN	CCDS14747	2957	909	302	153630099	153637612	-1	DNL1L	DNAS1L1, XIB, DNASEX
X	DNASE1L1	ENSG00000013563	ENST00000369808	protein_coding	KNOWN	CCDS14747	2957	909	302	153630099	153637614	-1	DNL1L	DNAS1L1, XIB, DNASEX
X	DNASE1L1	ENSG00000013563	ENST00000014935	protein_coding	KNOWN	CCDS14747	2957	909	302	153630099	153638375	-1	DNL1L	DNAS1L1, XIB, DNASEX
X	DNASE1L1	ENSG00000013563	ENST00000309585	protein_coding	KNOWN	CCDS14747	2957	909	302	153630102	153640449	-1	DNL1L	DNAS1L1, XIB, DNASEX
X	DNASE1L1	ENSG00000013563	ENST00000497242	retained_intron	KNOWN	None	2957	None	None	153630828	153631937	-1	DNL1L	DNAS1L1, XIB, DNASEX
X	DNASE1L1	ENSG00000013563	ENST00000447892	protein_coding	NOVEL	None	2957	255	84	153631063	153633951	-1	DNL1L	DNAS1L1, XIB, DNASEX
X	DNASE1L1	ENSG00000013563	ENST00000451865	protein_coding	KNOWN	None	2957	624	207	153631433	153640420	-1	DNL1L	DNAS1L1, XIB, DNASEX
X	DNASE1L1	ENSG00000013563	ENST00000412184	protein_coding	NOVEL	None	2957	188	61	153631479	153633959	-1	DNL1L	DNAS1L1, XIB, DNASEX
X	DNASE1L1	ENSG00000013563	ENST00000424626	protein_coding	KNOWN	None	2957	311	102	153633169	153640428	-1	DNL1L	DNAS1L1, XIB, DNASEX
X	DNASE1L1	ENSG00000013563	ENST00000432135	protein_coding	KNOWN	None	2957	80	25	153633830	153640426	-1	DNL1L	DNAS1L1, XIB, DNASEX
X	DNASE1L1	ENSG00000013563	ENST00000488225	processed_transcript	PUTATIVE	None	2957	None	None	153638305	153640417	-1	DNL1L	DNAS1L1, XIB, DNASEX
X	DNASE1L1	ENSG00000013563	ENST00000369809	protein_coding	KNOWN	CCDS14747	2957	909	302	153629579	153640427	-1	DNL1L	DNAS1L1, XIB, DNASEX
X	DNASE1L1	ENSG00000013563	ENST00000393638	protein_coding	KNOWN	CCDS14747	2957	909	302	153629579	153640427	-1	DNL1L	DNAS1L1, XIB, DNASEX
X	AIFM1	ENSG00000156709	ENST00000460436	protein_coding	NOVEL	None	8768	825	274	129263337	129272015	-1	PDCD8	AIF
X	AIFM1	ENSG00000156709	ENST00000416073	nonsense_mediated_decay	KNOWN	CCDS48167	8768	975	324	129263337	129299638	-1	PDCD8	AIF
X	AIFM1	ENSG00000156709	ENST00000527892	nonsense_mediated_decay	KNOWN	None	8768	132	43	129263337	129299638	-1	PDCD8	AIF
X	AIFM1	ENSG00000156709	ENST00000346424	protein_coding	NOVEL	None	8768	981	326	129263337	129299654	-1	PDCD8	AIF
X	AIFM1	ENSG00000156709	ENST00000319908	protein_coding	KNOWN	CCDS14619	8768	1830	609	129263337	129299853	-1	PDCD8	AIF
X	AIFM1	ENSG00000156709	ENST00000287295	protein_coding	KNOWN	CCDS14618	8768	1842	613	129263345	129299861	-1	PDCD8	AIF
X	AIFM1	ENSG00000156709	ENST00000533719	retained_intron	KNOWN	None	8768	None	None	129270640	129281903	-1	PDCD8	AIF
X	AIFM1	ENSG00000156709	ENST00000529877	nonsense_mediated_decay	KNOWN	None	8768	270	89	129281584	129299733	-1	PDCD8	AIF
X	AIFM1	ENSG00000156709	ENST00000440263	protein_coding	KNOWN	CCDS48166	8768	786	261	129263337	129272015	-1	PDCD8	AIF
X	AIFM1	ENSG00000156709	ENST00000535724	protein_coding	KNOWN	None	8768	714	237	129263337	129299638	-1	PDCD8	AIF
9	ZNF618	ENSG00000157657	ENST00000374126	protein_coding	KNOWN	None	29416	2865	954	116638562	116812501	1	None	KIAA1952, NEDD10
9	ZNF618	ENSG00000157657	ENST00000452710	protein_coding	KNOWN	None	29416	911	302	116638630	116795003	1	None	KIAA1952, NEDD10
9	ZNF618	ENSG00000157657	ENST00000374124	protein_coding	KNOWN	None	29416	1125	374	116638630	116795004	1	None	KIAA1952, NEDD10
9	ZNF618	ENSG00000157657	ENST00000481558	processed_transcript	KNOWN	None	29416	None	None	116638662	116793162	1	None	KIAA1952, NEDD10
9	ZNF618	ENSG00000157657	ENST00000470105	processed_transcript	KNOWN	None	29416	None	None	116790201	116812501	1	None	KIAA1952, NEDD10
9	ZNF618	ENSG00000157657	ENST00000288466	protein_coding	KNOWN	CCDS48008	29416	2586	861	116638562	116818871	1	None	KIAA1952, NEDD10
1	PPIH	ENSG00000171960	ENST00000304979	protein_coding	KNOWN	CCDS469	14651	534	177	43124096	43142429	1	None	USA-CYP, CYP-20, SnuCyp-20, CYPH, MGC5016
1	PPIH	ENSG00000171960	ENST00000372550	protein_coding	KNOWN	None	14651	405	134	43124127	43133111	1	None	USA-CYP, CYP-20, SnuCyp-20, CYPH, MGC5016
1	PPIH	ENSG00000171960	ENST00000440068	protein_coding	KNOWN	None	14651	434	143	43124183	43133068	1	None	USA-CYP, CYP-20, SnuCyp-20, CYPH, MGC5016
1	PPIH	ENSG00000171960	ENST00000372549	protein_coding	KNOWN	None	14651	174	57	43124391	43125036	1	None	USA-CYP, CYP-20, SnuCyp-20, CYPH, MGC5016
1	PPIH	ENSG00000171960	ENST00000436387	protein_coding	KNOWN	None	14651	204	67	43124916	43126626	1	None	USA-CYP, CYP-20, SnuCyp-20, CYPH, MGC5016
1	PPIH	ENSG00000171960	ENST00000461351	nonsense_mediated_decay	KNOWN	None	14651	291	96	43130534	43142429	1	None	USA-CYP, CYP-20, SnuCyp-20, CYPH, MGC5016
1	PPIH	ENSG00000171960	ENST00000455203	protein_coding	KNOWN	None	14651	405	134	43124588	43133568	1	None	USA-CYP, CYP-20, SnuCyp-20, CYPH, MGC5016
12	OR10A7	ENSG00000179919	ENST00000326258	protein_coding	KNOWN	CCDS31815	15329	951	316	55614809	55615759	1	None	None
1	AVPR1B	ENSG00000198049	ENST00000367126	protein_coding	KNOWN	CCDS30994	896	1275	424	206223976	206231639	1	AVPR3	None
5	None	ENSG00000272417	ENST00000607861	lincRNA	KNOWN	None	None	None	None	10203712	10204152	-1	None	None
5	None	ENSG00000248968	ENST00000509915	antisense	KNOWN	None	None	None	None	10248437	10250027	1	None	None
12	OR6C74	ENSG00000197706	ENST00000343870	protein_coding	KNOWN	CCDS31816	31303	939	312	55640982	55642086	1	None	None
5	PHAX	ENSG00000164902	ENST00000297540	protein_coding	KNOWN	CCDS4138	10241	1185	394	125935960	125962944	1	RNUXA	FLJ13193
5	PHAX	ENSG00000164902	ENST00000514725	processed_transcript	PUTATIVE	None	10241	None	None	125936617	125939756	1	RNUXA	FLJ13193
5	PHAX	ENSG00000164902	ENST00000505674	retained_intron	KNOWN	None	10241	None	None	125939253	125953025	1	RNUXA	FLJ13193
5	PHAX	ENSG00000164902	ENST00000511371	retained_intron	KNOWN	None	10241	None	None	125944049	125960901	1	RNUXA	FLJ13193
5	PHAX	ENSG00000164902	ENST00000513813	retained_intron	KNOWN	None	10241	None	None	125952927	125961170	1	RNUXA	FLJ13193
5	None	ENSG00000271980	ENST00000606194	antisense	KNOWN	None	None	None	None	10264709	10267258	-1	None	None
1	C1orf186	ENSG00000196533	ENST00000331555	protein_coding	NOVEL	CCDS30995	25341	519	172	206238872	206288647	-1	None	FLJ16052
1	C1orf186	ENSG00000196533	ENST00000469540	processed_transcript	KNOWN	None	25341	None	None	206279114	206288525	-1	None	FLJ16052
1	C1orf186	ENSG00000196533	ENST00000485683	processed_transcript	PUTATIVE	None	25341	None	None	206279458	206280213	-1	None	FLJ16052
1	C1orf186	ENSG00000196533	ENST00000484045	processed_transcript	KNOWN	None	25341	None	None	206279604	206288217	-1	None	FLJ16052
6	FAM162B	ENSG00000183807	ENST00000368557	protein_coding	KNOWN	CCDS43497	21549	489	162	117073363	117086886	-1	C6orf189	bA86F4.2
7	None	ENSG00000225314	ENST00000437554	processed_pseudogene	KNOWN	None	None	None	None	37860812	37861212	1	None	None
7	TRGVB	ENSG00000231202	ENST00000453257	TR_V_pseudogene	KNOWN	None	12297	None	None	38335364	38335834	-1	TCRGVB	V6P
5	None	ENSG00000271715	ENST00000607847	lincRNA	KNOWN	None	None	None	None	10269601	10270030	-1	None	None
7	None	ENSG00000231916	ENST00000440505	processed_pseudogene	KNOWN	None	None	None	None	38350984	38351409	1	None	None
7	TRGVA	ENSG00000225992	ENST00000413819	TR_V_pseudogene	KNOWN	None	12296	None	None	38362047	38362331	-1	TCRGVA	V5P
7	TRGV7	ENSG00000249978	ENST00000427089	TR_V_pseudogene	KNOWN	None	12293	None	None	38374642	38375115	-1	TCRGV7	V1S7P
12	OR6C6	ENSG00000188324	ENST00000358433	protein_coding	KNOWN	CCDS31817	31293	945	314	55688072	55689016	-1	None	None
9	C9orf163	ENSG00000196366	ENST00000354376	protein_coding	KNOWN	CCDS7001	26718	612	203	139377947	139380518	1	None	FLJ36779
7	TRGV6	ENSG00000226212	ENST00000417928	TR_V_pseudogene	KNOWN	None	12292	None	None	38380301	38380599	-1	TCRGV6	V1S5P, TCRGV5P
5	None	ENSG00000252341	ENST00000516532	misc_RNA	NOVEL	None	None	None	None	10292153	10292260	-1	None	None
5	None	ENSG00000252671	ENST00000516862	misc_RNA	NOVEL	None	None	None	None	10337389	10337498	1	None	None
7	TRGV5P	ENSG00000228668	ENST00000419915	TR_V_pseudogene	KNOWN	None	12291	None	None	38384631	38385100	-1	TCRGV5P	V1S5P
7	RN7SL83P	ENSG00000241756	ENST00000468131	misc_RNA	KNOWN	None	46099	None	None	38570643	38570939	-1	None	None
7	KRT8P20	ENSG00000227404	ENST00000423953	processed_pseudogene	KNOWN	None	33372	None	None	38694805	38696213	1	None	None
12	OR6C1	ENSG00000205330	ENST00000379668	protein_coding	KNOWN	CCDS31818	8355	939	312	55714346	55715408	1	None	OST267
5	None	ENSG00000259802	ENST00000561606	antisense	KNOWN	None	None	None	None	10352813	10353713	-1	None	None
2	MYT1L	ENSG00000186487	ENST00000399161	protein_coding	KNOWN	None	7623	3561	1186	1792885	2334966	-1	None	KIAA1106, NZF1, ZC2HC4B
2	MYT1L	ENSG00000186487	ENST00000407844	protein_coding	KNOWN	None	7623	555	184	1792908	1846658	-1	None	KIAA1106, NZF1, ZC2HC4B
2	MYT1L	ENSG00000186487	ENST00000399157	protein_coding	NOVEL	None	7623	609	202	1794947	1844551	-1	None	KIAA1106, NZF1, ZC2HC4B
2	MYT1L	ENSG00000186487	ENST00000428368	protein_coding	KNOWN	CCDS46222	7623	3555	1184	1795014	2334888	-1	None	KIAA1106, NZF1, ZC2HC4B
2	MYT1L	ENSG00000186487	ENST00000471668	processed_transcript	KNOWN	None	7623	None	None	1819953	1846679	-1	None	KIAA1106, NZF1, ZC2HC4B
2	MYT1L	ENSG00000186487	ENST00000602387	nonsense_mediated_decay	KNOWN	None	7623	1032	343	1887649	1926502	-1	None	KIAA1106, NZF1, ZC2HC4B
2	MYT1L	ENSG00000186487	ENST00000470954	retained_intron	KNOWN	None	7623	None	None	1888955	1891277	-1	None	KIAA1106, NZF1, ZC2HC4B
2	MYT1L	ENSG00000186487	ENST00000490585	retained_intron	KNOWN	None	7623	None	None	1889958	1906899	-1	None	KIAA1106, NZF1, ZC2HC4B
2	MYT1L	ENSG00000186487	ENST00000485547	retained_intron	KNOWN	None	7623	None	None	1906497	1915847	-1	None	KIAA1106, NZF1, ZC2HC4B
2	MYT1L	ENSG00000186487	ENST00000485348	processed_transcript	KNOWN	None	7623	None	None	1978187	1983322	-1	None	KIAA1106, NZF1, ZC2HC4B
2	MYT1L	ENSG00000186487	ENST00000479156	processed_transcript	KNOWN	None	7623	None	None	2001055	2328307	-1	None	KIAA1106, NZF1, ZC2HC4B
2	MYT1L	ENSG00000186487	ENST00000476547	processed_transcript	KNOWN	None	7623	None	None	2288249	2330326	-1	None	KIAA1106, NZF1, ZC2HC4B
2	MYT1L	ENSG00000186487	ENST00000460585	processed_transcript	KNOWN	None	7623	None	None	2307255	2335032	-1	None	KIAA1106, NZF1, ZC2HC4B
17	SLFN12L	ENSG00000205045	ENST00000587436	retained_intron	KNOWN	None	33920	None	None	33791268	33805488	-1	None	None
17	SLFN12L	ENSG00000205045	ENST00000590802	retained_intron	KNOWN	None	33920	None	None	33791276	33805245	-1	None	None
17	SLFN12L	ENSG00000205045	ENST00000260908	protein_coding	NOVEL	CCDS56026	33920	1767	588	33800708	33814876	-1	None	None
17	SLFN12L	ENSG00000205045	ENST00000361112	protein_coding	KNOWN	None	33920	1854	617	33801923	33864880	-1	None	None
17	SLFN12L	ENSG00000205045	ENST00000449046	protein_coding	KNOWN	None	33920	1860	619	33801926	33814853	-1	None	None
1	CTSE	ENSG00000196188	ENST00000358184	protein_coding	KNOWN	CCDS1462	2530	1191	396	206317459	206332104	1	None	None
1	CTSE	ENSG00000196188	ENST00000360218	protein_coding	KNOWN	CCDS1461	2530	1092	363	206317473	206332103	1	None	None
1	CTSE	ENSG00000196188	ENST00000468617	processed_transcript	KNOWN	None	2530	None	None	206319994	206327594	1	None	None
1	CTSE	ENSG00000196188	ENST00000486757	processed_transcript	PUTATIVE	None	2530	None	None	206327238	206329037	1	None	None
1	CTSE	ENSG00000196188	ENST00000361052	protein_coding	KNOWN	None	2530	1206	401	206317459	206332104	1	None	None
1	CTSE	ENSG00000196188	ENST00000432969	protein_coding	KNOWN	None	2530	867	288	206317606	206331560	1	None	None
2	None	ENSG00000091436	ENST00000409176	protein_coding	KNOWN	CCDS42777	None	2403	800	173940442	174131511	1	None	None
2	None	ENSG00000091436	ENST00000468408	processed_transcript	KNOWN	None	None	None	None	173940564	174055900	1	None	None
2	None	ENSG00000091436	ENST00000338983	protein_coding	KNOWN	CCDS2251	None	1368	455	173940570	174091874	1	None	None
2	None	ENSG00000091436	ENST00000476618	retained_intron	KNOWN	None	None	None	None	173940596	174077553	1	None	None
2	None	ENSG00000091436	ENST00000375213	protein_coding	KNOWN	CCDS42777	None	2403	800	173940687	174132738	1	None	None
2	None	ENSG00000091436	ENST00000422149	protein_coding	KNOWN	None	None	415	137	173955347	174052351	1	None	None
2	None	ENSG00000091436	ENST00000480606	processed_transcript	KNOWN	None	None	None	None	174024738	174055905	1	None	None
2	None	ENSG00000091436	ENST00000539448	protein_coding	KNOWN	CCDS2251	None	1368	455	173940163	174086932	1	None	None
2	None	ENSG00000091436	ENST00000431503	protein_coding	KNOWN	None	None	1065	354	173940607	174086708	1	None	None
X	CDK16	ENSG00000102225	ENST00000517997	processed_transcript	KNOWN	None	8749	None	None	47077259	47081779	1	PCTK1	PCTAIRE, PCTAIRE1, PCTGAIRE, FLJ16665
X	CDK16	ENSG00000102225	ENST00000517479	processed_transcript	KNOWN	None	8749	None	None	47077426	47081729	1	PCTK1	PCTAIRE, PCTAIRE1, PCTGAIRE, FLJ16665
X	CDK16	ENSG00000102225	ENST00000457458	protein_coding	KNOWN	CCDS48101	8749	1509	502	47077632	47089396	1	PCTK1	PCTAIRE, PCTAIRE1, PCTGAIRE, FLJ16665
X	CDK16	ENSG00000102225	ENST00000522883	protein_coding	KNOWN	None	8749	171	56	47077710	47083127	1	PCTK1	PCTAIRE, PCTAIRE1, PCTGAIRE, FLJ16665
X	CDK16	ENSG00000102225	ENST00000520295	nonsense_mediated_decay	KNOWN	None	8749	252	83	47077786	47083872	1	PCTK1	PCTAIRE, PCTAIRE1, PCTGAIRE, FLJ16665
X	CDK16	ENSG00000102225	ENST00000357227	protein_coding	KNOWN	CCDS14276	8749	1491	496	47078087	47089396	1	PCTK1	PCTAIRE, PCTAIRE1, PCTGAIRE, FLJ16665
X	CDK16	ENSG00000102225	ENST00000519758	protein_coding	KNOWN	None	8749	450	149	47078090	47084130	1	PCTK1	PCTAIRE, PCTAIRE1, PCTGAIRE, FLJ16665
X	CDK16	ENSG00000102225	ENST00000520893	protein_coding	KNOWN	None	8749	459	152	47078109	47084139	1	PCTK1	PCTAIRE, PCTAIRE1, PCTGAIRE, FLJ16665
X	CDK16	ENSG00000102225	ENST00000517426	protein_coding	PUTATIVE	None	8749	1180	392	47078117	47088814	1	PCTK1	PCTAIRE, PCTAIRE1, PCTGAIRE, FLJ16665
X	CDK16	ENSG00000102225	ENST00000522234	retained_intron	KNOWN	None	8749	None	None	47078175	47085977	1	PCTK1	PCTAIRE, PCTAIRE1, PCTGAIRE, FLJ16665
X	CDK16	ENSG00000102225	ENST00000518391	protein_coding	KNOWN	None	8749	568	188	47081531	47084435	1	PCTK1	PCTAIRE, PCTAIRE1, PCTGAIRE, FLJ16665
X	CDK16	ENSG00000102225	ENST00000428400	retained_intron	KNOWN	None	8749	None	None	47082252	47088389	1	PCTK1	PCTAIRE, PCTAIRE1, PCTGAIRE, FLJ16665
X	CDK16	ENSG00000102225	ENST00000518022	protein_coding	KNOWN	CCDS14276	8749	1491	496	47082408	47088389	1	PCTK1	PCTAIRE, PCTAIRE1, PCTGAIRE, FLJ16665
X	CDK16	ENSG00000102225	ENST00000523034	protein_coding	PUTATIVE	None	8749	454	150	47083037	47084443	1	PCTK1	PCTAIRE, PCTAIRE1, PCTGAIRE, FLJ16665
X	CDK16	ENSG00000102225	ENST00000523344	protein_coding	NOVEL	None	8749	783	260	47085364	47088650	1	PCTK1	PCTAIRE, PCTAIRE1, PCTGAIRE, FLJ16665
X	CDK16	ENSG00000102225	ENST00000523699	retained_intron	KNOWN	None	8749	None	None	47085495	47086622	1	PCTK1	PCTAIRE, PCTAIRE1, PCTGAIRE, FLJ16665
X	CDK16	ENSG00000102225	ENST00000523543	retained_intron	KNOWN	None	8749	None	None	47085891	47086851	1	PCTK1	PCTAIRE, PCTAIRE1, PCTGAIRE, FLJ16665
X	CDK16	ENSG00000102225	ENST00000493213	retained_intron	KNOWN	None	8749	None	None	47086522	47087542	1	PCTK1	PCTAIRE, PCTAIRE1, PCTGAIRE, FLJ16665
X	CDK16	ENSG00000102225	ENST00000520141	protein_coding	PUTATIVE	None	8749	498	165	47086580	47088390	1	PCTK1	PCTAIRE, PCTAIRE1, PCTGAIRE, FLJ16665
X	CDK16	ENSG00000102225	ENST00000462827	protein_coding	PUTATIVE	None	8749	253	83	47086580	47088870	1	PCTK1	PCTAIRE, PCTAIRE1, PCTGAIRE, FLJ16665
X	CDK16	ENSG00000102225	ENST00000462483	retained_intron	KNOWN	None	8749	None	None	47087603	47088215	1	PCTK1	PCTAIRE, PCTAIRE1, PCTGAIRE, FLJ16665
X	CDK16	ENSG00000102225	ENST00000276052	protein_coding	KNOWN	CCDS55408	8749	1713	570	47082417	47089392	1	PCTK1	PCTAIRE, PCTAIRE1, PCTGAIRE, FLJ16665
17	SLC26A11	ENSG00000181045	ENST00000577155	protein_coding	KNOWN	None	14471	459	152	78193498	78197082	1	None	None
17	SLC26A11	ENSG00000181045	ENST00000573809	protein_coding	PUTATIVE	None	14471	193	63	78194226	78197071	1	None	None
17	SLC26A11	ENSG00000181045	ENST00000361193	protein_coding	KNOWN	CCDS11771	14471	1821	606	78194229	78227299	1	None	None
17	SLC26A11	ENSG00000181045	ENST00000574967	protein_coding	KNOWN	None	14471	233	76	78194237	78195592	1	None	None
17	SLC26A11	ENSG00000181045	ENST00000572652	retained_intron	KNOWN	None	14471	None	None	78194237	78196174	1	None	None
17	SLC26A11	ENSG00000181045	ENST00000576126	protein_coding	NOVEL	None	14471	400	132	78194237	78199715	1	None	None
17	SLC26A11	ENSG00000181045	ENST00000571888	retained_intron	KNOWN	None	14471	None	None	78194237	78219172	1	None	None
17	SLC26A11	ENSG00000181045	ENST00000411502	protein_coding	KNOWN	CCDS11771	14471	1821	606	78194237	78227297	1	None	None
17	SLC26A11	ENSG00000181045	ENST00000546047	protein_coding	KNOWN	CCDS11771	14471	1821	606	78194237	78227299	1	None	None
17	SLC26A11	ENSG00000181045	ENST00000571602	processed_transcript	KNOWN	None	14471	None	None	78194246	78197054	1	None	None
17	SLC26A11	ENSG00000181045	ENST00000571564	processed_transcript	KNOWN	None	14471	None	None	78194268	78210902	1	None	None
17	SLC26A11	ENSG00000181045	ENST00000572725	protein_coding	KNOWN	CCDS11771	14471	1821	606	78194268	78226515	1	None	None
17	SLC26A11	ENSG00000181045	ENST00000572226	processed_transcript	PUTATIVE	None	14471	None	None	78195099	78197106	1	None	None
17	SLC26A11	ENSG00000181045	ENST00000571176	protein_coding	KNOWN	None	14471	630	209	78195145	78201653	1	None	None
17	SLC26A11	ENSG00000181045	ENST00000571072	retained_intron	KNOWN	None	14471	None	None	78199381	78210809	1	None	None
17	SLC26A11	ENSG00000181045	ENST00000571215	protein_coding	NOVEL	None	14471	591	196	78201651	78219044	1	None	None
17	SLC26A11	ENSG00000181045	ENST00000575019	protein_coding	PUTATIVE	None	14471	176	57	78222013	78226698	1	None	None
17	IKZF3	ENSG00000161405	ENST00000346872	protein_coding	KNOWN	CCDS11346	13178	1530	509	37921198	38020441	-1	ZNFN1A3	Aiolos
17	IKZF3	ENSG00000161405	ENST00000439167	protein_coding	KNOWN	CCDS58539	13178	1311	436	37921537	38020441	-1	ZNFN1A3	Aiolos
17	IKZF3	ENSG00000161405	ENST00000348427	nonsense_mediated_decay	KNOWN	None	13178	624	207	37921537	38020441	-1	ZNFN1A3	Aiolos
17	IKZF3	ENSG00000161405	ENST00000293068	nonsense_mediated_decay	KNOWN	None	13178	792	263	37921537	38020441	-1	ZNFN1A3	Aiolos
17	IKZF3	ENSG00000161405	ENST00000377945	protein_coding	KNOWN	CCDS58545	13178	1128	375	37921537	38020441	-1	ZNFN1A3	Aiolos
17	IKZF3	ENSG00000161405	ENST00000394189	protein_coding	KNOWN	CCDS58542	13178	984	327	37921537	38020441	-1	ZNFN1A3	Aiolos
17	IKZF3	ENSG00000161405	ENST00000377944	protein_coding	KNOWN	CCDS58543	13178	1101	366	37921537	38020441	-1	ZNFN1A3	Aiolos
17	IKZF3	ENSG00000161405	ENST00000377958	protein_coding	KNOWN	CCDS58544	13178	1269	422	37921537	38020441	-1	ZNFN1A3	Aiolos
17	IKZF3	ENSG00000161405	ENST00000535189	protein_coding	KNOWN	CCDS58540	13178	1428	475	37921537	38020441	-1	ZNFN1A3	Aiolos
17	IKZF3	ENSG00000161405	ENST00000377952	protein_coding	NOVEL	CCDS58541	13178	867	288	37921537	38020441	-1	ZNFN1A3	Aiolos
17	IKZF3	ENSG00000161405	ENST00000583368	protein_coding	PUTATIVE	None	13178	789	262	37921749	37934478	-1	ZNFN1A3	Aiolos
17	IKZF3	ENSG00000161405	ENST00000351680	protein_coding	KNOWN	CCDS11348	13178	1413	470	37922043	38020379	-1	ZNFN1A3	Aiolos
17	IKZF3	ENSG00000161405	ENST00000346243	protein_coding	KNOWN	CCDS11351	13178	1296	431	37922043	38020379	-1	ZNFN1A3	Aiolos
17	IKZF3	ENSG00000161405	ENST00000350532	protein_coding	KNOWN	CCDS11349	13178	1413	470	37922043	38020379	-1	ZNFN1A3	Aiolos
17	IKZF3	ENSG00000161405	ENST00000467757	protein_coding	KNOWN	CCDS11347	13178	1362	453	37922043	38020379	-1	ZNFN1A3	Aiolos
17	IKZF3	ENSG00000161405	ENST00000439016	protein_coding	KNOWN	CCDS11350	13178	1245	414	37922043	38020380	-1	ZNFN1A3	Aiolos
14	MBIP	ENSG00000151332	ENST00000416007	protein_coding	KNOWN	CCDS9658	20427	1035	344	36767770	36789882	-1	None	None
14	MBIP	ENSG00000151332	ENST00000318473	protein_coding	KNOWN	CCDS45096	20427	1032	343	36767774	36789833	-1	None	None
14	MBIP	ENSG00000151332	ENST00000359527	protein_coding	NOVEL	None	20427	849	282	36767796	36789813	-1	None	None
14	MBIP	ENSG00000151332	ENST00000604154	processed_transcript	PUTATIVE	None	20427	None	None	36768323	36770226	-1	None	None
14	MBIP	ENSG00000151332	ENST00000604768	processed_transcript	KNOWN	None	20427	None	None	36768324	36780796	-1	None	None
14	MBIP	ENSG00000151332	ENST00000605579	protein_coding	PUTATIVE	None	20427	898	298	36777223	36789783	-1	None	None
14	MBIP	ENSG00000151332	ENST00000604336	protein_coding	PUTATIVE	None	20427	844	280	36777363	36789803	-1	None	None
14	MBIP	ENSG00000151332	ENST00000603913	processed_transcript	KNOWN	None	20427	None	None	36780779	36783519	-1	None	None
14	MBIP	ENSG00000151332	ENST00000603139	protein_coding	PUTATIVE	None	20427	666	221	36780783	36789830	-1	None	None
14	MBIP	ENSG00000151332	ENST00000604160	protein_coding	PUTATIVE	None	20427	338	111	36783907	36789076	-1	None	None
7	WBSCR16	ENSG00000174374	ENST00000329959	protein_coding	KNOWN	CCDS5577	14948	1395	464	74456291	74489629	-1	None	None
7	WBSCR16	ENSG00000174374	ENST00000467007	retained_intron	KNOWN	None	14948	None	None	74457082	74480541	-1	None	None
7	WBSCR16	ENSG00000174374	ENST00000478352	retained_intron	KNOWN	None	14948	None	None	74469682	74489626	-1	None	None
7	WBSCR16	ENSG00000174374	ENST00000455375	protein_coding	PUTATIVE	None	14948	461	152	74479129	74490064	-1	None	None
7	WBSCR16	ENSG00000174374	ENST00000503250	protein_coding	KNOWN	None	14948	1365	454	74441226	74489643	-1	None	None
7	WBSCR16	ENSG00000174374	ENST00000543840	protein_coding	KNOWN	None	14948	1077	358	74470624	74489699	-1	None	None
9	NOTCH1	ENSG00000148400	ENST00000277541	protein_coding	KNOWN	CCDS43905	7881	7668	2555	139388896	139440314	-1	TAN1	None
9	NOTCH1	ENSG00000148400	ENST00000494783	processed_transcript	KNOWN	None	7881	None	None	139396898	139399297	-1	TAN1	None
9	NOTCH1	ENSG00000148400	ENST00000491649	processed_transcript	KNOWN	None	7881	None	None	139417080	139418350	-1	TAN1	None
17	SLFN14	ENSG00000236320	ENST00000415846	protein_coding	KNOWN	CCDS45650	32689	2739	912	33875144	33885117	-1	None	None
3	FETUB	ENSG00000090512	ENST00000431018	protein_coding	PUTATIVE	None	3658	311	102	186353758	186369065	1	None	None
3	FETUB	ENSG00000090512	ENST00000450521	protein_coding	KNOWN	CCDS3279	3658	1149	382	186353758	186370420	1	None	None
3	FETUB	ENSG00000090512	ENST00000382134	protein_coding	NOVEL	None	3658	954	317	186358149	186370420	1	None	None
3	FETUB	ENSG00000090512	ENST00000265029	protein_coding	KNOWN	CCDS3279	3658	1149	382	186358149	186370797	1	None	None
3	FETUB	ENSG00000090512	ENST00000435961	nonsense_mediated_decay	KNOWN	None	3658	360	119	186358181	186370930	1	None	None
3	FETUB	ENSG00000090512	ENST00000420570	nonsense_mediated_decay	KNOWN	None	3658	279	92	186358196	186370774	1	None	None
3	FETUB	ENSG00000090512	ENST00000488561	processed_transcript	PUTATIVE	None	3658	None	None	186358230	186362701	1	None	None
3	FETUB	ENSG00000090512	ENST00000382136	protein_coding	NOVEL	None	3658	1038	345	186358248	186370420	1	None	None
3	FETUB	ENSG00000090512	ENST00000539949	protein_coding	KNOWN	None	3658	705	234	186353761	186370879	1	None	None
1	YBX1	ENSG00000065978	ENST00000321358	protein_coding	KNOWN	CCDS470	8014	975	324	43148098	43168020	1	NSEP1	YB-1, YB1, DBPB, NSEP-1, MDR-NF1, BP-8, CSDB, CSDA2
1	YBX1	ENSG00000065978	ENST00000332220	protein_coding	KNOWN	None	8014	650	215	43148111	43162933	1	NSEP1	YB-1, YB1, DBPB, NSEP-1, MDR-NF1, BP-8, CSDB, CSDA2
1	YBX1	ENSG00000065978	ENST00000436427	protein_coding	KNOWN	None	8014	1124	373	43148658	43168020	1	NSEP1	YB-1, YB1, DBPB, NSEP-1, MDR-NF1, BP-8, CSDB, CSDA2
1	YBX1	ENSG00000065978	ENST00000467957	processed_transcript	KNOWN	None	8014	None	None	43148827	43162882	1	NSEP1	YB-1, YB1, DBPB, NSEP-1, MDR-NF1, BP-8, CSDB, CSDA2
7	DPY19L1	ENSG00000173852	ENST00000310974	protein_coding	KNOWN	CCDS43567	22205	2028	675	34968488	35077653	-1	None	KIAA0877
7	DPY19L1	ENSG00000173852	ENST00000428054	protein_coding	PUTATIVE	None	22205	250	82	34971180	34978980	-1	None	KIAA0877
7	DPY19L1	ENSG00000173852	ENST00000446375	protein_coding	NOVEL	None	22205	619	205	34985295	35013217	-1	None	KIAA0877
7	DPY19L1	ENSG00000173852	ENST00000493989	retained_intron	KNOWN	None	22205	None	None	34994158	34994979	-1	None	KIAA0877
7	DPY19L1	ENSG00000173852	ENST00000462134	processed_transcript	KNOWN	None	22205	None	None	34994941	35027846	-1	None	KIAA0877
7	DPY19L1	ENSG00000173852	ENST00000463538	processed_transcript	KNOWN	None	22205	None	None	35013125	35040314	-1	None	KIAA0877
7	DPY19L1	ENSG00000173852	ENST00000481923	processed_transcript	KNOWN	None	22205	None	None	35050080	35077883	-1	None	KIAA0877
17	PEX12	ENSG00000108733	ENST00000225873	protein_coding	KNOWN	CCDS11296	8854	1080	359	33901814	33905648	-1	None	None
17	PEX12	ENSG00000108733	ENST00000586663	non_stop_decay	KNOWN	None	8854	1076	357	33902805	33905571	-1	None	None
17	PEX12	ENSG00000108733	ENST00000585380	protein_coding	KNOWN	None	8854	663	220	33904074	33905882	-1	None	None
16	CYLD	ENSG00000083799	ENST00000569681	protein_coding	KNOWN	None	2584	499	165	50775961	50784108	1	CYLD1	KIAA0849, USPL2
16	CYLD	ENSG00000083799	ENST00000569418	protein_coding	KNOWN	CCDS42164	2584	2862	953	50775961	50830792	1	CYLD1	KIAA0849, USPL2
16	CYLD	ENSG00000083799	ENST00000569891	retained_intron	KNOWN	None	2584	None	None	50775981	50820692	1	CYLD1	KIAA0849, USPL2
16	CYLD	ENSG00000083799	ENST00000311559	protein_coding	KNOWN	CCDS45482	2584	2871	956	50775985	50832528	1	CYLD1	KIAA0849, USPL2
16	CYLD	ENSG00000083799	ENST00000564326	protein_coding	KNOWN	CCDS42164	2584	2862	953	50775992	50830622	1	CYLD1	KIAA0849, USPL2
16	CYLD	ENSG00000083799	ENST00000566206	protein_coding	PUTATIVE	None	2584	2733	910	50775997	50829635	1	CYLD1	KIAA0849, USPL2
16	CYLD	ENSG00000083799	ENST00000566679	protein_coding	KNOWN	None	2584	913	303	50776021	50788335	1	CYLD1	KIAA0849, USPL2
16	CYLD	ENSG00000083799	ENST00000564634	protein_coding	KNOWN	None	2584	100	32	50776029	50783709	1	CYLD1	KIAA0849, USPL2
16	CYLD	ENSG00000083799	ENST00000398568	protein_coding	KNOWN	CCDS42164	2584	2862	953	50776031	50830793	1	CYLD1	KIAA0849, USPL2
16	CYLD	ENSG00000083799	ENST00000427738	protein_coding	KNOWN	CCDS45482	2584	2871	956	50776671	50835846	1	CYLD1	KIAA0849, USPL2
16	CYLD	ENSG00000083799	ENST00000568704	protein_coding	NOVEL	None	2584	2316	771	50783460	50831245	1	CYLD1	KIAA0849, USPL2
16	CYLD	ENSG00000083799	ENST00000563629	retained_intron	KNOWN	None	2584	None	None	50783874	50821657	1	CYLD1	KIAA0849, USPL2
16	CYLD	ENSG00000083799	ENST00000563976	retained_intron	KNOWN	None	2584	None	None	50810112	50812205	1	CYLD1	KIAA0849, USPL2
16	CYLD	ENSG00000083799	ENST00000562884	protein_coding	PUTATIVE	None	2584	315	104	50827528	50828799	1	CYLD1	KIAA0849, USPL2
16	CYLD	ENSG00000083799	ENST00000566024	protein_coding	PUTATIVE	None	2584	200	65	50828205	50835844	1	CYLD1	KIAA0849, USPL2
16	CYLD	ENSG00000083799	ENST00000568744	retained_intron	KNOWN	None	2584	None	None	50834590	50835841	1	CYLD1	KIAA0849, USPL2
16	CYLD	ENSG00000083799	ENST00000540145	protein_coding	KNOWN	None	2584	2871	956	50775961	50835846	1	CYLD1	KIAA0849, USPL2
12	OR6C3	ENSG00000205329	ENST00000379667	protein_coding	KNOWN	CCDS31819	15437	936	311	55725485	55726420	1	None	OST709
5	ROPN1L-AS1	ENSG00000250600	ENST00000513037	antisense	KNOWN	None	39984	None	None	10441402	10441904	-1	None	None
7	POU6F2-AS2	ENSG00000233854	ENST00000420243	antisense	KNOWN	None	21887	None	None	39023843	39053151	-1	None	FLJ12971
16	ACSM1	ENSG00000166743	ENST00000519031	retained_intron	KNOWN	None	18049	None	None	20634559	20687483	-1	BUCS1	MACS1
16	ACSM1	ENSG00000166743	ENST00000307493	protein_coding	KNOWN	CCDS10587	18049	1734	577	20634559	20702578	-1	BUCS1	MACS1
16	ACSM1	ENSG00000166743	ENST00000519745	nonsense_mediated_decay	KNOWN	None	18049	615	204	20634710	20702578	-1	BUCS1	MACS1
16	ACSM1	ENSG00000166743	ENST00000524149	protein_coding	NOVEL	None	18049	749	248	20634748	20681177	-1	BUCS1	MACS1
16	ACSM1	ENSG00000166743	ENST00000520010	protein_coding	KNOWN	CCDS10587	18049	1734	577	20634808	20709066	-1	BUCS1	MACS1
16	ACSM1	ENSG00000166743	ENST00000523065	protein_coding	KNOWN	None	18049	462	153	20693727	20710212	-1	BUCS1	MACS1
16	ACSM1	ENSG00000166743	ENST00000219151	protein_coding	KNOWN	None	18049	687	228	20634559	20702578	-1	BUCS1	MACS1
7	SUMF2	ENSG00000129103	ENST00000395436	protein_coding	KNOWN	CCDS43588	20415	918	305	56131695	56147817	1	None	DKFZp566I1024
7	SUMF2	ENSG00000129103	ENST00000434526	protein_coding	KNOWN	CCDS5524	20415	963	320	56131917	56148363	1	None	DKFZp566I1024
7	SUMF2	ENSG00000129103	ENST00000395435	protein_coding	KNOWN	CCDS43589	20415	711	236	56131947	56147880	1	None	DKFZp566I1024
7	SUMF2	ENSG00000129103	ENST00000413952	protein_coding	KNOWN	None	20415	881	292	56131948	56146195	1	None	DKFZp566I1024
7	SUMF2	ENSG00000129103	ENST00000342190	protein_coding	KNOWN	CCDS47589	20415	1077	358	56131948	56148363	1	None	DKFZp566I1024
7	SUMF2	ENSG00000129103	ENST00000452216	nonsense_mediated_decay	KNOWN	None	20415	156	51	56131958	56147422	1	None	DKFZp566I1024
7	SUMF2	ENSG00000129103	ENST00000436782	nonsense_mediated_decay	KNOWN	None	20415	309	102	56131970	56148358	1	None	DKFZp566I1024
7	SUMF2	ENSG00000129103	ENST00000437307	protein_coding	NOVEL	None	20415	699	232	56131977	56147525	1	None	DKFZp566I1024
7	SUMF2	ENSG00000129103	ENST00000413756	protein_coding	NOVEL	None	20415	1059	352	56131982	56147429	1	None	DKFZp566I1024
7	SUMF2	ENSG00000129103	ENST00000483327	retained_intron	KNOWN	None	20415	None	None	56131994	56141649	1	None	DKFZp566I1024
7	SUMF2	ENSG00000129103	ENST00000423763	nonsense_mediated_decay	KNOWN	None	20415	498	165	56131994	56148331	1	None	DKFZp566I1024
7	SUMF2	ENSG00000129103	ENST00000498777	retained_intron	KNOWN	None	20415	None	None	56131998	56142090	1	None	DKFZp566I1024
7	SUMF2	ENSG00000129103	ENST00000438133	nonsense_mediated_decay	KNOWN	None	20415	453	150	56132001	56148362	1	None	DKFZp566I1024
7	SUMF2	ENSG00000129103	ENST00000447501	nonsense_mediated_decay	KNOWN	None	20415	552	183	56132003	56147568	1	None	DKFZp566I1024
7	SUMF2	ENSG00000129103	ENST00000451338	protein_coding	NOVEL	None	20415	912	303	56132014	56147260	1	None	DKFZp566I1024
7	SUMF2	ENSG00000129103	ENST00000529457	retained_intron	KNOWN	None	20415	None	None	56132025	56142482	1	None	DKFZp566I1024
7	SUMF2	ENSG00000129103	ENST00000461912	retained_intron	KNOWN	None	20415	None	None	56144221	56145961	1	None	DKFZp566I1024
7	SUMF2	ENSG00000129103	ENST00000531229	retained_intron	KNOWN	None	20415	None	None	56144296	56147440	1	None	DKFZp566I1024
7	SUMF2	ENSG00000129103	ENST00000275607	protein_coding	KNOWN	CCDS55111	20415	642	213	56131917	56148362	1	None	DKFZp566I1024
11	None	ENSG00000254667	ENST00000533341	protein_coding	PUTATIVE	None	None	408	135	123301058	123306427	1	None	None
1	NBPF15	ENSG00000243452	ENST00000464336	processed_transcript	KNOWN	None	28791	None	None	148555979	148593723	1	None	MGC8902
1	NBPF15	ENSG00000243452	ENST00000478419	processed_transcript	KNOWN	None	28791	None	None	148556009	148568877	1	None	MGC8902
1	NBPF15	ENSG00000243452	ENST00000488031	processed_transcript	KNOWN	None	28791	None	None	148556095	148577660	1	None	MGC8902
1	NBPF15	ENSG00000243452	ENST00000492711	processed_transcript	KNOWN	None	28791	None	None	148560891	148568826	1	None	MGC8902
1	NBPF15	ENSG00000243452	ENST00000369187	protein_coding	KNOWN	CCDS932	28791	2013	670	148560990	148596263	1	None	MGC8902
1	NBPF15	ENSG00000243452	ENST00000442702	protein_coding	KNOWN	CCDS932	28791	2013	670	148560843	148596267	1	None	MGC8902
19	PRRG2	ENSG00000126460	ENST00000596877	protein_coding	KNOWN	None	9470	296	97	50083903	50087204	1	None	PRGP2
19	PRRG2	ENSG00000126460	ENST00000246794	protein_coding	KNOWN	CCDS12773	9470	609	202	50084583	50094272	1	None	PRGP2
19	PRRG2	ENSG00000126460	ENST00000596700	processed_transcript	KNOWN	None	9470	None	None	50084604	50093782	1	None	PRGP2
19	PRRG2	ENSG00000126460	ENST00000597121	nonsense_mediated_decay	KNOWN	None	9470	291	96	50084605	50094261	1	None	PRGP2
19	PRRG2	ENSG00000126460	ENST00000543867	retained_intron	KNOWN	None	9470	None	None	50084630	50094261	1	None	PRGP2
6	GPRC6A	ENSG00000173612	ENST00000310357	protein_coding	KNOWN	CCDS5112	18510	2781	926	117113248	117150198	-1	None	bA86F4.3
6	GPRC6A	ENSG00000173612	ENST00000368549	protein_coding	KNOWN	None	18510	2568	855	117113275	117150200	-1	None	bA86F4.3
6	GPRC6A	ENSG00000173612	ENST00000530250	protein_coding	KNOWN	None	18510	2256	751	117113275	117150200	-1	None	bA86F4.3
HSCHR6_MHC_COX	PRRC2A	ENSG00000225164	ENST00000435971	protein_coding	KNOWN	None	13918	6474	2157	31575910	31592960	1	BAT2	G2, D6S51E
HSCHR6_MHC_COX	PRRC2A	ENSG00000225164	ENST00000485195	processed_transcript	KNOWN	None	13918	None	None	31575914	31582050	1	BAT2	G2, D6S51E
HSCHR6_MHC_COX	PRRC2A	ENSG00000225164	ENST00000428775	protein_coding	KNOWN	None	13918	6474	2157	31575915	31592960	1	BAT2	G2, D6S51E
HSCHR6_MHC_COX	PRRC2A	ENSG00000225164	ENST00000471879	retained_intron	KNOWN	None	13918	None	None	31580090	31580685	1	BAT2	G2, D6S51E
HSCHR6_MHC_COX	PRRC2A	ENSG00000225164	ENST00000493561	retained_intron	KNOWN	None	13918	None	None	31580942	31582262	1	BAT2	G2, D6S51E
HSCHR6_MHC_COX	PRRC2A	ENSG00000225164	ENST00000467947	retained_intron	KNOWN	None	13918	None	None	31583828	31584956	1	BAT2	G2, D6S51E
HSCHR6_MHC_COX	PRRC2A	ENSG00000225164	ENST00000484138	retained_intron	KNOWN	None	13918	None	None	31589143	31589945	1	BAT2	G2, D6S51E
HSCHR6_MHC_COX	PRRC2A	ENSG00000225164	ENST00000470224	retained_intron	KNOWN	None	13918	None	None	31589596	31590505	1	BAT2	G2, D6S51E
HSCHR6_MHC_COX	PRRC2A	ENSG00000225164	ENST00000467347	retained_intron	KNOWN	None	13918	None	None	31590431	31590898	1	BAT2	G2, D6S51E
HSCHR6_MHC_COX	PRRC2A	ENSG00000225164	ENST00000469743	retained_intron	KNOWN	None	13918	None	None	31590549	31591439	1	BAT2	G2, D6S51E
HSCHR6_MHC_COX	PRRC2A	ENSG00000225164	ENST00000464106	retained_intron	KNOWN	None	13918	None	None	31590565	31592000	1	BAT2	G2, D6S51E
HSCHR6_MHC_COX	PRRC2A	ENSG00000225164	ENST00000464841	retained_intron	KNOWN	None	13918	None	None	31591436	31592960	1	BAT2	G2, D6S51E
HSCHR6_MHC_COX	PRRC2A	ENSG00000225164	ENST00000464400	retained_intron	KNOWN	None	13918	None	None	31591725	31592960	1	BAT2	G2, D6S51E
HSCHR6_MHC_COX	PRRC2A	ENSG00000225164	ENST00000462141	retained_intron	KNOWN	None	13918	None	None	31592024	31592960	1	BAT2	G2, D6S51E
HSCHR6_MHC_COX	PRRC2A	ENSG00000225164	ENST00000551794	protein_coding	KNOWN	None	13918	6450	2149	31575863	31592949	1	BAT2	G2, D6S51E
HSCHR6_MHC_COX	PRRC2A	ENSG00000225164	ENST00000549037	protein_coding	KNOWN	None	13918	6417	2138	31575863	31592949	1	BAT2	G2, D6S51E
12	RBP5	ENSG00000139194	ENST00000266560	protein_coding	KNOWN	CCDS8574	15847	408	135	7276280	7281538	-1	None	CRBPIII
12	RBP5	ENSG00000139194	ENST00000542784	retained_intron	KNOWN	None	15847	None	None	7276663	7281157	-1	None	CRBPIII
12	RBP5	ENSG00000139194	ENST00000542370	protein_coding	PUTATIVE	None	15847	294	97	7280095	7281469	-1	None	CRBPIII
12	RBP5	ENSG00000139194	ENST00000543045	nonsense_mediated_decay	KNOWN	None	15847	210	69	7280146	7281458	-1	None	CRBPIII
1	SRGAP2	ENSG00000163486	ENST00000295713	protein_coding	NOVEL	None	19751	2956	984	206516200	206637776	1	FNBP2	KIAA0456, ARHGAP34, SRGAP2A
1	SRGAP2	ENSG00000163486	ENST00000483628	retained_intron	KNOWN	None	19751	None	None	206566213	206580621	1	FNBP2	KIAA0456, ARHGAP34, SRGAP2A
1	SRGAP2	ENSG00000163486	ENST00000467419	retained_intron	KNOWN	None	19751	None	None	206578322	206581391	1	FNBP2	KIAA0456, ARHGAP34, SRGAP2A
1	SRGAP2	ENSG00000163486	ENST00000439126	protein_coding	KNOWN	None	19751	1353	450	206579736	206629507	1	FNBP2	KIAA0456, ARHGAP34, SRGAP2A
1	SRGAP2	ENSG00000163486	ENST00000471256	processed_transcript	KNOWN	None	19751	None	None	206619421	206629477	1	FNBP2	KIAA0456, ARHGAP34, SRGAP2A
1	SRGAP2	ENSG00000163486	ENST00000426388	protein_coding	KNOWN	None	19751	690	229	206623784	206632264	1	FNBP2	KIAA0456, ARHGAP34, SRGAP2A
1	SRGAP2	ENSG00000163486	ENST00000488049	processed_transcript	KNOWN	None	19751	None	None	206626691	206627855	1	FNBP2	KIAA0456, ARHGAP34, SRGAP2A
1	SRGAP2	ENSG00000163486	ENST00000414007	protein_coding	KNOWN	None	19751	2796	931	206557366	206637783	1	FNBP2	KIAA0456, ARHGAP34, SRGAP2A
1	SRGAP2	ENSG00000163486	ENST00000419187	protein_coding	KNOWN	None	19751	756	251	206557368	206632263	1	FNBP2	KIAA0456, ARHGAP34, SRGAP2A
5	None	ENSG00000246016	ENST00000416930	antisense	KNOWN	None	None	None	None	10479483	10482421	1	None	None
1	CLDN19	ENSG00000164007	ENST00000296387	protein_coding	KNOWN	CCDS471	2040	675	224	43198764	43205925	-1	None	None
1	CLDN19	ENSG00000164007	ENST00000372539	protein_coding	KNOWN	CCDS44125	2040	636	211	43200666	43205811	-1	None	None
1	CLDN19	ENSG00000164007	ENST00000539749	protein_coding	KNOWN	CCDS53306	2040	657	218	43198764	43205925	-1	None	None
17	MBTD1	ENSG00000011258	ENST00000586178	protein_coding	KNOWN	CCDS11581	19866	1887	628	49254786	49337427	-1	None	SA49P01, FLJ20055
17	MBTD1	ENSG00000011258	ENST00000405860	nonsense_mediated_decay	KNOWN	None	19866	510	169	49268945	49337302	-1	None	SA49P01, FLJ20055
17	MBTD1	ENSG00000011258	ENST00000586898	nonsense_mediated_decay	KNOWN	None	19866	270	89	49269467	49270377	-1	None	SA49P01, FLJ20055
17	MBTD1	ENSG00000011258	ENST00000591270	retained_intron	KNOWN	None	19866	None	None	49269614	49337524	-1	None	SA49P01, FLJ20055
17	MBTD1	ENSG00000011258	ENST00000593259	processed_transcript	PUTATIVE	None	19866	None	None	49302544	49334190	-1	None	SA49P01, FLJ20055
17	MBTD1	ENSG00000011258	ENST00000415868	protein_coding	KNOWN	CCDS11581	19866	1887	628	49254788	49302585	-1	None	SA49P01, FLJ20055
17	MBTD1	ENSG00000011258	ENST00000376381	protein_coding	KNOWN	None	19866	1293	430	49269614	49337398	-1	None	SA49P01, FLJ20055
12	OR6C75	ENSG00000187857	ENST00000343399	protein_coding	KNOWN	CCDS31820	31304	939	312	55758895	55759833	1	None	None
5	RPL30P7	ENSG00000244361	ENST00000479312	processed_pseudogene	KNOWN	None	36402	None	None	10488932	10489254	1	None	None
12	OR6C65	ENSG00000205328	ENST00000379665	protein_coding	KNOWN	CCDS31821	31295	939	312	55794214	55795289	1	None	None
5	None	ENSG00000249166	ENST00000510562	lincRNA	KNOWN	None	None	None	None	10493403	10494206	-1	None	None
19	ZNF525	ENSG00000203326	ENST00000497729	retained_intron	KNOWN	None	29423	None	None	53868946	53879410	1	None	KIAA1979
19	ZNF525	ENSG00000203326	ENST00000474037	protein_coding	PUTATIVE	None	29423	1440	479	53868946	53887588	1	None	KIAA1979
19	ZNF525	ENSG00000203326	ENST00000491101	protein_coding	PUTATIVE	None	29423	360	119	53868957	53879695	1	None	KIAA1979
19	ZNF525	ENSG00000203326	ENST00000467003	protein_coding	PUTATIVE	None	29423	1332	443	53868960	53889846	1	None	KIAA1979
19	ZNF525	ENSG00000203326	ENST00000475179	protein_coding	PUTATIVE	None	29423	153	50	53868966	53889834	1	None	KIAA1979
19	ZNF525	ENSG00000203326	ENST00000593918	protein_coding	PUTATIVE	None	29423	159	52	53868982	53895470	1	None	KIAA1979
19	ZNF525	ENSG00000203326	ENST00000600148	processed_transcript	KNOWN	None	29423	None	None	53882634	53884302	1	None	KIAA1979
19	ZNF525	ENSG00000203326	ENST00000601790	processed_transcript	KNOWN	None	29423	None	None	53887176	53888484	1	None	KIAA1979
19	ZNF525	ENSG00000203326	ENST00000355326	protein_coding	KNOWN	None	29423	594	197	53884679	53885272	1	None	KIAA1979
5	None	ENSG00000249396	ENST00000515243	lincRNA	KNOWN	None	None	None	None	10493639	10502840	-1	None	None
12	OR6C76	ENSG00000185821	ENST00000328314	protein_coding	KNOWN	CCDS31823	31305	939	312	55820038	55820976	1	None	None
5	None	ENSG00000214179	ENST00000397725	pseudogene	KNOWN	None	None	None	None	10541568	10541807	1	None	None
5	ANKRD33B-AS1	ENSG00000250106	ENST00000506304	antisense	KNOWN	None	41298	None	None	10627372	10628337	-1	None	None
16	FAM86A	ENSG00000118894	ENST00000458008	protein_coding	KNOWN	CCDS10530	32221	891	296	5134305	5147789	-1	None	SB153, MGC19636
16	FAM86A	ENSG00000118894	ENST00000427587	protein_coding	KNOWN	CCDS10529	32221	993	330	5134305	5147809	-1	None	SB153, MGC19636
16	FAM86A	ENSG00000118894	ENST00000585436	nonsense_mediated_decay	KNOWN	None	32221	222	73	5134719	5147755	-1	None	SB153, MGC19636
16	FAM86A	ENSG00000118894	ENST00000587161	nonsense_mediated_decay	KNOWN	None	32221	177	58	5135364	5147767	-1	None	SB153, MGC19636
16	FAM86A	ENSG00000118894	ENST00000587608	retained_intron	KNOWN	None	32221	None	None	5135537	5139429	-1	None	SB153, MGC19636
16	FAM86A	ENSG00000118894	ENST00000587133	protein_coding	NOVEL	None	32221	810	269	5135573	5147743	-1	None	SB153, MGC19636
16	FAM86A	ENSG00000118894	ENST00000587200	nonsense_mediated_decay	KNOWN	None	32221	222	73	5135616	5147775	-1	None	SB153, MGC19636
16	FAM86A	ENSG00000118894	ENST00000585975	retained_intron	KNOWN	None	32221	None	None	5139177	5147779	-1	None	SB153, MGC19636
16	FAM86A	ENSG00000118894	ENST00000586444	retained_intron	KNOWN	None	32221	None	None	5140242	5147787	-1	None	SB153, MGC19636
12	OR6C2	ENSG00000179695	ENST00000322678	protein_coding	KNOWN	CCDS31824	15436	939	312	55845998	55846936	1	None	OR6C67
6	ARMC12	ENSG00000157343	ENST00000373869	protein_coding	KNOWN	None	21099	993	330	35704809	35716688	1	C6orf81	FLJ25390
6	ARMC12	ENSG00000157343	ENST00000288065	protein_coding	KNOWN	CCDS4809	21099	1104	367	35704859	35716685	1	C6orf81	FLJ25390
6	ARMC12	ENSG00000157343	ENST00000373866	protein_coding	KNOWN	None	21099	1023	340	35704864	35716856	1	C6orf81	FLJ25390
6	ARMC12	ENSG00000157343	ENST00000471400	nonsense_mediated_decay	KNOWN	None	21099	168	55	35704869	35706286	1	C6orf81	FLJ25390
5	None	ENSG00000251196	ENST00000508690	unprocessed_pseudogene	KNOWN	None	None	None	None	10652323	10656037	-1	None	None
7	None	ENSG00000266481	ENST00000582398	miRNA	NOVEL	None	None	None	None	39333906	39334005	-1	None	None
12	OR6C70	ENSG00000184954	ENST00000327335	protein_coding	KNOWN	CCDS31825	31299	939	312	55862984	55863922	-1	None	None
7	None	ENSG00000206947	ENST00000384220	snoRNA	NOVEL	None	None	None	None	39368602	39368733	-1	None	None
5	None	ENSG00000272016	ENST00000607560	lincRNA	KNOWN	None	None	None	None	10654332	10657928	1	None	None
7	POU6F2-AS1	ENSG00000224122	ENST00000433519	antisense	KNOWN	None	40979	None	None	39444197	39445945	-1	None	None
7	None	ENSG00000227172	ENST00000439751	antisense	KNOWN	None	None	None	None	39585245	39605838	-1	None	None
7	None	ENSG00000236015	ENST00000438427	processed_pseudogene	KNOWN	None	None	None	None	39608975	39609797	-1	None	None
1	NBPF16	ENSG00000203827	ENST00000417839	protein_coding	KNOWN	CCDS41384	31996	2013	670	148739443	148758311	1	None	None
7	None	ENSG00000231951	ENST00000420748	antisense	KNOWN	None	None	None	None	39649209	39649889	-1	None	None
2	CDCA7	ENSG00000144354	ENST00000347703	protein_coding	KNOWN	CCDS2253	14628	1116	371	174219548	174233632	1	None	FLJ14736, JPO1
2	CDCA7	ENSG00000144354	ENST00000306721	protein_coding	KNOWN	CCDS2252	14628	1353	450	174219589	174233725	1	None	FLJ14736, JPO1
2	CDCA7	ENSG00000144354	ENST00000410101	protein_coding	NOVEL	None	14628	1221	406	174219600	174232448	1	None	FLJ14736, JPO1
2	CDCA7	ENSG00000144354	ENST00000410019	protein_coding	NOVEL	None	14628	990	329	174219600	174232798	1	None	FLJ14736, JPO1
2	CDCA7	ENSG00000144354	ENST00000496441	retained_intron	KNOWN	None	14628	None	None	174219600	174233228	1	None	FLJ14736, JPO1
2	CDCA7	ENSG00000144354	ENST00000435616	nonsense_mediated_decay	KNOWN	None	14628	171	56	174219616	174229601	1	None	FLJ14736, JPO1
2	CDCA7	ENSG00000144354	ENST00000467411	retained_intron	KNOWN	None	14628	None	None	174219621	174233632	1	None	FLJ14736, JPO1
2	CDCA7	ENSG00000144354	ENST00000468359	retained_intron	KNOWN	None	14628	None	None	174223235	174230244	1	None	FLJ14736, JPO1
2	CDCA7	ENSG00000144354	ENST00000392567	protein_coding	KNOWN	None	14628	966	321	174219580	174233719	1	None	FLJ14736, JPO1
12	OR6C68	ENSG00000205327	ENST00000548615	protein_coding	KNOWN	CCDS31826	31297	939	312	55886162	55887100	1	None	None
12	OR6C68	ENSG00000205327	ENST00000379662	protein_coding	KNOWN	None	31297	954	317	55886147	55887100	1	None	None
7	None	ENSG00000106540	ENST00000446267	processed_pseudogene	KNOWN	None	None	None	None	39649316	39649879	1	None	None
19	ZNF765	ENSG00000196417	ENST00000504146	processed_transcript	KNOWN	None	25092	None	None	53893046	53926350	1	None	None
19	ZNF765	ENSG00000196417	ENST00000504235	nonsense_mediated_decay	KNOWN	None	25092	183	60	53898397	53930574	1	None	None
19	ZNF765	ENSG00000196417	ENST00000396408	protein_coding	KNOWN	CCDS46171	25092	1572	523	53898403	53915260	1	None	None
19	ZNF765	ENSG00000196417	ENST00000507045	nonsense_mediated_decay	KNOWN	None	25092	258	85	53898408	53928821	1	None	None
19	ZNF765	ENSG00000196417	ENST00000505866	protein_coding	PUTATIVE	None	25092	384	127	53898414	53911351	1	None	None
19	ZNF765	ENSG00000196417	ENST00000594030	protein_coding	PUTATIVE	None	25092	183	60	53898426	53926864	1	None	None
19	ZNF765	ENSG00000196417	ENST00000594627	processed_transcript	KNOWN	None	25092	None	None	53926573	53930141	1	None	None
19	ZNF765	ENSG00000196417	ENST00000596086	processed_transcript	KNOWN	None	25092	None	None	53926628	53930408	1	None	None
7	None	ENSG00000228554	ENST00000435766	antisense	KNOWN	None	None	None	None	39739940	39742895	-1	None	None
5	None	ENSG00000251548	ENST00000504159	processed_pseudogene	KNOWN	None	None	None	None	10664607	10665225	-1	None	None
7	LINC00265	ENSG00000188185	ENST00000340510	processed_transcript	KNOWN	None	28019	None	None	39773231	39832691	1	NCRNA00265	NCRNA00265-1
7	LINC00265	ENSG00000188185	ENST00000448955	retained_intron	KNOWN	None	28019	None	None	39821288	39829024	1	NCRNA00265	NCRNA00265-1
5	C5orf48	ENSG00000196900	ENST00000357147	protein_coding	KNOWN	CCDS4139	33767	405	134	125967414	125971979	1	None	MGC163367, MGC163369, FLJ27505
5	C5orf48	ENSG00000196900	ENST00000506701	retained_intron	KNOWN	None	33767	None	None	125968226	125971934	1	None	MGC163367, MGC163369, FLJ27505
7	RNU6-719P	ENSG00000252480	ENST00000516671	snRNA	KNOWN	None	47682	None	None	39807940	39808043	1	None	None
7	None	ENSG00000270797	ENST00000603383	processed_pseudogene	KNOWN	None	None	None	None	39828566	39828903	-1	None	None
15	GABPB1	ENSG00000104064	ENST00000380877	protein_coding	KNOWN	CCDS10135	4074	1152	383	50569389	50647605	-1	GABPB2	E4TF1-47, GABPB
15	GABPB1	ENSG00000104064	ENST00000220429	protein_coding	KNOWN	CCDS32239	4074	1188	395	50569460	50647350	-1	GABPB2	E4TF1-47, GABPB
15	GABPB1	ENSG00000104064	ENST00000543881	protein_coding	PUTATIVE	None	4074	960	319	50570599	50647321	-1	GABPB2	E4TF1-47, GABPB
15	GABPB1	ENSG00000104064	ENST00000561010	protein_coding	PUTATIVE	None	4074	610	202	50570739	50593512	-1	GABPB2	E4TF1-47, GABPB
15	GABPB1	ENSG00000104064	ENST00000429662	protein_coding	KNOWN	CCDS45258	4074	1083	360	50578077	50647350	-1	GABPB2	E4TF1-47, GABPB
15	GABPB1	ENSG00000104064	ENST00000396464	protein_coding	KNOWN	CCDS10136	4074	1047	348	50578077	50647395	-1	GABPB2	E4TF1-47, GABPB
15	GABPB1	ENSG00000104064	ENST00000560825	protein_coding	NOVEL	None	4074	1044	347	50578091	50647399	-1	GABPB2	E4TF1-47, GABPB
15	GABPB1	ENSG00000104064	ENST00000559100	retained_intron	KNOWN	None	4074	None	None	50593310	50596196	-1	GABPB2	E4TF1-47, GABPB
15	GABPB1	ENSG00000104064	ENST00000558335	protein_coding	KNOWN	None	4074	269	88	50596170	50619526	-1	GABPB2	E4TF1-47, GABPB
15	GABPB1	ENSG00000104064	ENST00000558970	protein_coding	KNOWN	None	4074	268	88	50596171	50647388	-1	GABPB2	E4TF1-47, GABPB
15	GABPB1	ENSG00000104064	ENST00000359031	protein_coding	KNOWN	CCDS10136	4074	1047	348	50578079	50647605	-1	GABPB2	E4TF1-47, GABPB
1	FAM72C	ENSG00000203817	ENST00000492131	processed_transcript	KNOWN	None	30602	None	None	149438750	149459468	-1	None	RP5-998N21.9
1	FAM72C	ENSG00000203817	ENST00000369175	protein_coding	NOVEL	None	30602	220	72	149449934	149459549	-1	None	RP5-998N21.9
11	GRAMD1B	ENSG00000023171	ENST00000456860	protein_coding	NOVEL	None	29214	2238	745	123396344	123493357	1	None	KIAA1201
11	GRAMD1B	ENSG00000023171	ENST00000529750	protein_coding	KNOWN	CCDS53720	29214	2217	738	123396530	123498482	1	None	KIAA1201
11	GRAMD1B	ENSG00000023171	ENST00000532581	retained_intron	KNOWN	None	29214	None	None	123430970	123490189	1	None	KIAA1201
11	GRAMD1B	ENSG00000023171	ENST00000529432	protein_coding	PUTATIVE	None	29214	2097	698	123430970	123497109	1	None	KIAA1201
11	GRAMD1B	ENSG00000023171	ENST00000534764	protein_coding	PUTATIVE	None	29214	1324	440	123430985	123480610	1	None	KIAA1201
11	GRAMD1B	ENSG00000023171	ENST00000450171	protein_coding	PUTATIVE	None	29214	1278	425	123478517	123493763	1	None	KIAA1201
11	GRAMD1B	ENSG00000023171	ENST00000525945	retained_intron	KNOWN	None	29214	None	None	123483833	123493408	1	None	KIAA1201
11	GRAMD1B	ENSG00000023171	ENST00000322282	protein_coding	KNOWN	None	29214	2217	738	123396528	123493518	1	None	KIAA1201
1	PPIAL4C	ENSG00000198161	ENST00000369222	protein_coding	KNOWN	CCDS44212	33995	495	164	149553003	149553787	1	None	None
10	None	ENSG00000228828	ENST00000414066	processed_pseudogene	KNOWN	None	None	None	None	38107534	38109910	-1	None	None
12	KLRC1	ENSG00000134545	ENST00000536188	protein_coding	PUTATIVE	None	6374	687	228	10594863	10607284	-1	NKG2	NKG2-A, NKG2-B, CD159a
12	KLRC1	ENSG00000134545	ENST00000359151	protein_coding	KNOWN	CCDS8625	6374	702	233	10598627	10605947	-1	NKG2	NKG2-A, NKG2-B, CD159a
12	KLRC1	ENSG00000134545	ENST00000408006	protein_coding	KNOWN	CCDS8626	6374	648	215	10598627	10607215	-1	NKG2	NKG2-A, NKG2-B, CD159a
12	KLRC1	ENSG00000134545	ENST00000347831	protein_coding	KNOWN	CCDS8626	6374	648	215	10598630	10605929	-1	NKG2	NKG2-A, NKG2-B, CD159a
12	KLRC1	ENSG00000134545	ENST00000543893	protein_coding	PUTATIVE	None	6374	233	76	10599830	10601963	-1	NKG2	NKG2-A, NKG2-B, CD159a
12	KLRC1	ENSG00000134545	ENST00000537699	retained_intron	KNOWN	None	6374	None	None	10602591	10603893	-1	NKG2	NKG2-A, NKG2-B, CD159a
12	KLRC1	ENSG00000134545	ENST00000544822	protein_coding	KNOWN	CCDS8625	6374	702	233	10598642	10607215	-1	NKG2	NKG2-A, NKG2-B, CD159a
1	None	ENSG00000203815	ENST00000369173	protein_coding	NOVEL	None	None	510	169	149675978	149676609	1	None	None
10	NRP1	ENSG00000099250	ENST00000374875	protein_coding	KNOWN	None	8004	2208	735	33466420	33623564	-1	None	NRP, VEGF165R, CD304
10	NRP1	ENSG00000099250	ENST00000265371	protein_coding	KNOWN	CCDS7177	8004	2772	923	33466420	33625190	-1	None	NRP, VEGF165R, CD304
10	NRP1	ENSG00000099250	ENST00000413802	protein_coding	KNOWN	None	8004	318	105	33468825	33474583	-1	None	NRP, VEGF165R, CD304
10	NRP1	ENSG00000099250	ENST00000418675	protein_coding	KNOWN	None	8004	233	76	33483300	33491923	-1	None	NRP, VEGF165R, CD304
10	NRP1	ENSG00000099250	ENST00000466932	processed_transcript	KNOWN	None	8004	None	None	33483300	33502489	-1	None	NRP, VEGF165R, CD304
10	NRP1	ENSG00000099250	ENST00000431894	protein_coding	KNOWN	None	8004	302	99	33484352	33496553	-1	None	NRP, VEGF165R, CD304
10	NRP1	ENSG00000099250	ENST00000374821	protein_coding	KNOWN	CCDS31179	8004	1830	609	33486549	33623450	-1	None	NRP, VEGF165R, CD304
10	NRP1	ENSG00000099250	ENST00000374822	protein_coding	KNOWN	CCDS31180	8004	1935	644	33486549	33623570	-1	None	NRP, VEGF165R, CD304
10	NRP1	ENSG00000099250	ENST00000374823	protein_coding	KNOWN	None	8004	2115	704	33489946	33623310	-1	None	NRP, VEGF165R, CD304
10	NRP1	ENSG00000099250	ENST00000432372	protein_coding	KNOWN	None	8004	709	235	33502238	33515217	-1	None	NRP, VEGF165R, CD304
10	NRP1	ENSG00000099250	ENST00000455749	protein_coding	KNOWN	None	8004	511	169	33538342	33552632	-1	None	NRP, VEGF165R, CD304
10	NRP1	ENSG00000099250	ENST00000374867	protein_coding	KNOWN	CCDS7177	8004	2772	923	33466422	33623833	-1	None	NRP, VEGF165R, CD304
10	NRP1	ENSG00000099250	ENST00000395995	protein_coding	KNOWN	None	8004	2721	906	33469004	33623310	-1	None	NRP, VEGF165R, CD304
10	NRP1	ENSG00000099250	ENST00000374816	protein_coding	KNOWN	None	8004	1926	641	33494377	33623450	-1	None	NRP, VEGF165R, CD304
1	IKBKE	ENSG00000143466	ENST00000367120	protein_coding	KNOWN	CCDS30996	14552	2151	716	206643791	206670223	1	None	IKKE, IKK-i, KIAA0151
1	IKBKE	ENSG00000143466	ENST00000462698	processed_transcript	KNOWN	None	14552	None	None	206643819	206670220	1	None	IKKE, IKK-i, KIAA0151
1	IKBKE	ENSG00000143466	ENST00000463979	processed_transcript	KNOWN	None	14552	None	None	206643841	206648471	1	None	IKKE, IKK-i, KIAA0151
1	IKBKE	ENSG00000143466	ENST00000476449	processed_transcript	PUTATIVE	None	14552	None	None	206643982	206648478	1	None	IKKE, IKK-i, KIAA0151
1	IKBKE	ENSG00000143466	ENST00000492570	processed_transcript	KNOWN	None	14552	None	None	206653409	206656741	1	None	IKKE, IKK-i, KIAA0151
1	IKBKE	ENSG00000143466	ENST00000537984	protein_coding	KNOWN	CCDS53464	14552	1896	631	206643838	206669607	1	None	IKKE, IKK-i, KIAA0151
5	CNOT8	ENSG00000155508	ENST00000521174	processed_transcript	KNOWN	None	9207	None	None	154237113	154242780	1	POP2	CAF1, hCAF1, CALIF
5	CNOT8	ENSG00000155508	ENST00000523270	processed_transcript	KNOWN	None	9207	None	None	154237779	154239430	1	POP2	CAF1, hCAF1, CALIF
5	CNOT8	ENSG00000155508	ENST00000518782	processed_transcript	KNOWN	None	9207	None	None	154237801	154238999	1	POP2	CAF1, hCAF1, CALIF
5	CNOT8	ENSG00000155508	ENST00000523698	protein_coding	KNOWN	None	9207	561	186	154237809	154255016	1	POP2	CAF1, hCAF1, CALIF
5	CNOT8	ENSG00000155508	ENST00000517876	protein_coding	KNOWN	CCDS4329	9207	879	292	154237812	154256352	1	POP2	CAF1, hCAF1, CALIF
5	CNOT8	ENSG00000155508	ENST00000520472	protein_coding	KNOWN	None	9207	398	131	154237822	154250307	1	POP2	CAF1, hCAF1, CALIF
5	CNOT8	ENSG00000155508	ENST00000519211	protein_coding	KNOWN	None	9207	356	117	154238042	154250265	1	POP2	CAF1, hCAF1, CALIF
5	CNOT8	ENSG00000155508	ENST00000522458	protein_coding	KNOWN	None	9207	363	120	154238075	154251341	1	POP2	CAF1, hCAF1, CALIF
5	CNOT8	ENSG00000155508	ENST00000519903	protein_coding	KNOWN	None	9207	257	84	154238077	154251391	1	POP2	CAF1, hCAF1, CALIF
5	CNOT8	ENSG00000155508	ENST00000521450	protein_coding	KNOWN	None	9207	561	186	154238077	154255432	1	POP2	CAF1, hCAF1, CALIF
5	CNOT8	ENSG00000155508	ENST00000403027	protein_coding	KNOWN	CCDS4329	9207	879	292	154238077	154256352	1	POP2	CAF1, hCAF1, CALIF
5	CNOT8	ENSG00000155508	ENST00000517568	protein_coding	KNOWN	None	9207	355	117	154238097	154250264	1	POP2	CAF1, hCAF1, CALIF
5	CNOT8	ENSG00000155508	ENST00000524105	protein_coding	KNOWN	None	9207	387	128	154238099	154255073	1	POP2	CAF1, hCAF1, CALIF
5	CNOT8	ENSG00000155508	ENST00000285896	protein_coding	KNOWN	CCDS4329	9207	879	292	154238106	154256353	1	POP2	CAF1, hCAF1, CALIF
5	CNOT8	ENSG00000155508	ENST00000519430	protein_coding	KNOWN	None	9207	167	54	154238185	154244801	1	POP2	CAF1, hCAF1, CALIF
5	CNOT8	ENSG00000155508	ENST00000520671	protein_coding	KNOWN	None	9207	561	186	154238187	154255018	1	POP2	CAF1, hCAF1, CALIF
5	CNOT8	ENSG00000155508	ENST00000521583	protein_coding	KNOWN	None	9207	561	186	154238187	154255145	1	POP2	CAF1, hCAF1, CALIF
5	CNOT8	ENSG00000155508	ENST00000518028	protein_coding	KNOWN	None	9207	166	54	154238195	154244800	1	POP2	CAF1, hCAF1, CALIF
5	CNOT8	ENSG00000155508	ENST00000519404	protein_coding	NOVEL	None	9207	717	238	154238212	154255038	1	POP2	CAF1, hCAF1, CALIF
5	CNOT8	ENSG00000155508	ENST00000519394	protein_coding	NOVEL	None	9207	270	89	154238214	154244904	1	POP2	CAF1, hCAF1, CALIF
5	CNOT8	ENSG00000155508	ENST00000521729	nonsense_mediated_decay	KNOWN	None	9207	159	52	154238214	154255147	1	POP2	CAF1, hCAF1, CALIF
5	CNOT8	ENSG00000155508	ENST00000518775	protein_coding	KNOWN	None	9207	676	224	154238222	154254958	1	POP2	CAF1, hCAF1, CALIF
5	CNOT8	ENSG00000155508	ENST00000522644	nonsense_mediated_decay	KNOWN	None	9207	354	117	154238249	154252208	1	POP2	CAF1, hCAF1, CALIF
5	CNOT8	ENSG00000155508	ENST00000521402	processed_transcript	KNOWN	None	9207	None	None	154239227	154247293	1	POP2	CAF1, hCAF1, CALIF
5	CNOT8	ENSG00000155508	ENST00000522139	retained_intron	KNOWN	None	9207	None	None	154250004	154252142	1	POP2	CAF1, hCAF1, CALIF
1	FCGR1A	ENSG00000150337	ENST00000444948	protein_coding	KNOWN	None	3613	722	239	149754227	149762946	1	None	CD64, CD64A
1	FCGR1A	ENSG00000150337	ENST00000369168	protein_coding	KNOWN	CCDS933	3613	1125	374	149754246	149764074	1	None	CD64, CD64A
1	FCGR1A	ENSG00000150337	ENST00000489479	processed_transcript	KNOWN	None	3613	None	None	149754284	149755507	1	None	CD64, CD64A
1	FCGR1A	ENSG00000150337	ENST00000489704	processed_transcript	KNOWN	None	3613	None	None	149761924	149763231	1	None	CD64, CD64A
5	LMNB1	ENSG00000113368	ENST00000460265	processed_transcript	KNOWN	None	6637	None	None	126112315	126172706	1	None	None
5	LMNB1	ENSG00000113368	ENST00000261366	protein_coding	KNOWN	CCDS4140	6637	1761	586	126112840	126172712	1	None	None
5	LMNB1	ENSG00000113368	ENST00000504788	processed_transcript	KNOWN	None	6637	None	None	126112845	126172263	1	None	None
5	LMNB1	ENSG00000113368	ENST00000492190	processed_transcript	KNOWN	None	6637	None	None	126112853	126140606	1	None	None
5	LMNB1	ENSG00000113368	ENST00000472034	processed_transcript	KNOWN	None	6637	None	None	126112853	126154671	1	None	None
5	LMNB1	ENSG00000113368	ENST00000395354	protein_coding	PUTATIVE	None	6637	1164	387	126112881	126154926	1	None	None
5	LMNB1	ENSG00000113368	ENST00000463908	processed_transcript	KNOWN	None	6637	None	None	126113071	126145947	1	None	None
5	LMNB1	ENSG00000113368	ENST00000494185	processed_transcript	KNOWN	None	6637	None	None	126147405	126156773	1	None	None
5	LMNB1	ENSG00000113368	ENST00000512460	retained_intron	KNOWN	None	6637	None	None	126154620	126161801	1	None	None
10	None	ENSG00000266800	ENST00000583461	miRNA	NOVEL	None	None	None	None	38120817	38120899	1	None	None
1	LEPRE1	ENSG00000117385	ENST00000460031	retained_intron	KNOWN	None	19316	None	None	43212045	43232660	-1	None	GROS1, P3H1, LEPRECAN, MGC117314
1	LEPRE1	ENSG00000117385	ENST00000236040	protein_coding	KNOWN	CCDS57986	19316	2415	804	43212046	43232683	-1	None	GROS1, P3H1, LEPRECAN, MGC117314
1	LEPRE1	ENSG00000117385	ENST00000495874	retained_intron	KNOWN	None	19316	None	None	43212046	43232693	-1	None	GROS1, P3H1, LEPRECAN, MGC117314
1	LEPRE1	ENSG00000117385	ENST00000296388	protein_coding	KNOWN	CCDS472	19316	2211	736	43212046	43232694	-1	None	GROS1, P3H1, LEPRECAN, MGC117314
1	LEPRE1	ENSG00000117385	ENST00000462474	processed_transcript	KNOWN	None	19316	None	None	43212179	43213469	-1	None	GROS1, P3H1, LEPRECAN, MGC117314
1	LEPRE1	ENSG00000117385	ENST00000472802	retained_intron	KNOWN	None	19316	None	None	43212202	43213247	-1	None	GROS1, P3H1, LEPRECAN, MGC117314
1	LEPRE1	ENSG00000117385	ENST00000431412	nonsense_mediated_decay	KNOWN	None	19316	667	221	43213394	43220880	-1	None	GROS1, P3H1, LEPRECAN, MGC117314
1	LEPRE1	ENSG00000117385	ENST00000460831	retained_intron	KNOWN	None	19316	None	None	43213429	43214414	-1	None	GROS1, P3H1, LEPRECAN, MGC117314
1	LEPRE1	ENSG00000117385	ENST00000481465	retained_intron	KNOWN	None	19316	None	None	43215572	43220607	-1	None	GROS1, P3H1, LEPRECAN, MGC117314
1	LEPRE1	ENSG00000117385	ENST00000447502	protein_coding	KNOWN	None	19316	453	150	43217396	43220658	-1	None	GROS1, P3H1, LEPRECAN, MGC117314
1	LEPRE1	ENSG00000117385	ENST00000463465	retained_intron	KNOWN	None	19316	None	None	43220651	43228074	-1	None	GROS1, P3H1, LEPRECAN, MGC117314
1	LEPRE1	ENSG00000117385	ENST00000372526	protein_coding	PUTATIVE	None	19316	623	206	43224928	43232673	-1	None	GROS1, P3H1, LEPRECAN, MGC117314
1	LEPRE1	ENSG00000117385	ENST00000492956	retained_intron	KNOWN	None	19316	None	None	43225657	43232688	-1	None	GROS1, P3H1, LEPRECAN, MGC117314
1	LEPRE1	ENSG00000117385	ENST00000397054	protein_coding	KNOWN	CCDS53307	19316	2094	697	43212006	43232755	-1	None	GROS1, P3H1, LEPRECAN, MGC117314
14	ALDH6A1	ENSG00000119711	ENST00000553458	protein_coding	KNOWN	CCDS9826	7179	1608	535	74523553	74551196	-1	MMSDH	None
14	ALDH6A1	ENSG00000119711	ENST00000554501	retained_intron	KNOWN	None	7179	None	None	74526950	74551152	-1	MMSDH	None
14	ALDH6A1	ENSG00000119711	ENST00000350259	protein_coding	NOVEL	None	7179	1569	522	74527098	74551150	-1	MMSDH	None
14	ALDH6A1	ENSG00000119711	ENST00000555126	protein_coding	PUTATIVE	None	7179	759	252	74527118	74535961	-1	MMSDH	None
14	ALDH6A1	ENSG00000119711	ENST00000554231	retained_intron	KNOWN	None	7179	None	None	74537403	74551195	-1	MMSDH	None
14	ALDH6A1	ENSG00000119711	ENST00000553814	processed_transcript	KNOWN	None	7179	None	None	74538071	74551123	-1	MMSDH	None
14	ALDH6A1	ENSG00000119711	ENST00000556852	processed_transcript	KNOWN	None	7179	None	None	74538581	74551150	-1	MMSDH	None
11	TRPT1	ENSG00000149743	ENST00000394547	protein_coding	KNOWN	CCDS44639	20316	615	204	63991271	63993622	-1	None	MGC11134
11	TRPT1	ENSG00000149743	ENST00000546133	protein_coding	PUTATIVE	None	20316	336	111	63991302	63992138	-1	None	MGC11134
11	TRPT1	ENSG00000149743	ENST00000536158	retained_intron	KNOWN	None	20316	None	None	63991302	63992296	-1	None	MGC11134
11	TRPT1	ENSG00000149743	ENST00000539436	retained_intron	KNOWN	None	20316	None	None	63991302	63993701	-1	None	MGC11134
11	TRPT1	ENSG00000149743	ENST00000544286	protein_coding	PUTATIVE	None	20316	346	114	63991305	63992106	-1	None	MGC11134
11	TRPT1	ENSG00000149743	ENST00000537907	retained_intron	KNOWN	None	20316	None	None	63991305	63993636	-1	None	MGC11134
11	TRPT1	ENSG00000149743	ENST00000541928	retained_intron	KNOWN	None	20316	None	None	63991314	63992141	-1	None	MGC11134
11	TRPT1	ENSG00000149743	ENST00000317459	protein_coding	KNOWN	CCDS31595	20316	762	253	63991317	63993681	-1	None	MGC11134
11	TRPT1	ENSG00000149743	ENST00000546089	protein_coding	KNOWN	None	20316	504	167	63991325	63993342	-1	None	MGC11134
11	TRPT1	ENSG00000149743	ENST00000539595	retained_intron	KNOWN	None	20316	None	None	63991328	63993630	-1	None	MGC11134
11	TRPT1	ENSG00000149743	ENST00000536234	retained_intron	KNOWN	None	20316	None	None	63991349	63993705	-1	None	MGC11134
11	TRPT1	ENSG00000149743	ENST00000545812	protein_coding	NOVEL	None	20316	573	190	63991675	63993620	-1	None	MGC11134
11	TRPT1	ENSG00000149743	ENST00000542040	retained_intron	KNOWN	None	20316	None	None	63992231	63993613	-1	None	MGC11134
11	TRPT1	ENSG00000149743	ENST00000540472	processed_transcript	PUTATIVE	None	20316	None	None	63992273	63993706	-1	None	MGC11134
11	TRPT1	ENSG00000149743	ENST00000394546	protein_coding	KNOWN	CCDS53652	20316	768	255	63991272	63993726	-1	None	MGC11134
11	TRPT1	ENSG00000149743	ENST00000541278	protein_coding	KNOWN	CCDS53653	20316	651	216	63991272	63993726	-1	None	MGC11134
2	MEIS1	ENSG00000143995	ENST00000496248	processed_transcript	KNOWN	None	7000	None	None	66660584	66667099	1	None	None
2	MEIS1	ENSG00000143995	ENST00000560281	protein_coding	PUTATIVE	None	7000	1113	370	66662265	66795668	1	None	None
2	MEIS1	ENSG00000143995	ENST00000491706	nonsense_mediated_decay	KNOWN	None	7000	291	96	66662301	66670904	1	None	None
2	MEIS1	ENSG00000143995	ENST00000272369	protein_coding	KNOWN	CCDS46309	7000	1173	390	66662532	66801001	1	None	None
2	MEIS1	ENSG00000143995	ENST00000488550	protein_coding	PUTATIVE	None	7000	1137	378	66662690	66799586	1	None	None
2	MEIS1	ENSG00000143995	ENST00000490726	processed_transcript	KNOWN	None	7000	None	None	66664049	66668572	1	None	None
2	MEIS1	ENSG00000143995	ENST00000398506	protein_coding	KNOWN	None	7000	1392	463	66664525	66799590	1	None	None
2	MEIS1	ENSG00000143995	ENST00000495021	protein_coding	PUTATIVE	None	7000	978	325	66666453	66798968	1	None	None
2	MEIS1	ENSG00000143995	ENST00000409622	nonsense_mediated_decay	KNOWN	None	7000	15	4	66667229	66739323	1	None	None
2	MEIS1	ENSG00000143995	ENST00000437869	protein_coding	NOVEL	None	7000	363	120	66667810	66691352	1	None	None
2	MEIS1	ENSG00000143995	ENST00000466811	nonsense_mediated_decay	KNOWN	None	7000	85	27	66667839	66681867	1	None	None
2	MEIS1	ENSG00000143995	ENST00000498705	retained_intron	KNOWN	None	7000	None	None	66669907	66739426	1	None	None
2	MEIS1	ENSG00000143995	ENST00000606455	protein_coding	NOVEL	None	7000	483	160	66670097	66795846	1	None	None
2	MEIS1	ENSG00000143995	ENST00000475239	nonsense_mediated_decay	KNOWN	None	7000	184	60	66672325	66794632	1	None	None
2	MEIS1	ENSG00000143995	ENST00000409517	processed_transcript	KNOWN	None	7000	None	None	66688930	66798432	1	None	None
2	MEIS1	ENSG00000143995	ENST00000542964	nonsense_mediated_decay	KNOWN	None	7000	147	48	66723158	66798383	1	None	None
2	MEIS1	ENSG00000143995	ENST00000450027	protein_coding	NOVEL	None	7000	558	185	66736059	66795877	1	None	None
2	MEIS1	ENSG00000143995	ENST00000407092	protein_coding	KNOWN	None	7000	1398	465	66662532	66799890	1	None	None
2	MEIS1	ENSG00000143995	ENST00000444274	protein_coding	KNOWN	None	7000	663	220	66664939	66798990	1	None	None
3	CCDC14	ENSG00000175455	ENST00000463996	processed_transcript	KNOWN	None	25766	None	None	123616152	123680055	-1	None	FLJ12892, DKFZp434L1050
3	CCDC14	ENSG00000175455	ENST00000479903	protein_coding	PUTATIVE	None	25766	770	255	123616358	123665739	-1	None	FLJ12892, DKFZp434L1050
3	CCDC14	ENSG00000175455	ENST00000485727	protein_coding	KNOWN	None	25766	2262	753	123632564	123675930	-1	None	FLJ12892, DKFZp434L1050
3	CCDC14	ENSG00000175455	ENST00000409657	nonsense_mediated_decay	KNOWN	None	25766	159	52	123632572	123680119	-1	None	FLJ12892, DKFZp434L1050
3	CCDC14	ENSG00000175455	ENST00000495381	retained_intron	KNOWN	None	25766	None	None	123632572	123680196	-1	None	FLJ12892, DKFZp434L1050
3	CCDC14	ENSG00000175455	ENST00000489746	protein_coding	KNOWN	None	25766	2262	753	123632574	123677747	-1	None	FLJ12892, DKFZp434L1050
3	CCDC14	ENSG00000175455	ENST00000433542	protein_coding	KNOWN	CCDS3025	25766	2739	912	123633166	123680564	-1	None	FLJ12892, DKFZp434L1050
3	CCDC14	ENSG00000175455	ENST00000409697	protein_coding	NOVEL	None	25766	2805	934	123633469	123680107	-1	None	FLJ12892, DKFZp434L1050
3	CCDC14	ENSG00000175455	ENST00000483247	processed_transcript	KNOWN	None	25766	None	None	123633509	123680059	-1	None	FLJ12892, DKFZp434L1050
3	CCDC14	ENSG00000175455	ENST00000419247	protein_coding	PUTATIVE	None	25766	936	311	123634046	123668160	-1	None	FLJ12892, DKFZp434L1050
3	CCDC14	ENSG00000175455	ENST00000487498	retained_intron	KNOWN	None	25766	None	None	123649619	123650306	-1	None	FLJ12892, DKFZp434L1050
3	CCDC14	ENSG00000175455	ENST00000485949	retained_intron	KNOWN	None	25766	None	None	123652372	123665715	-1	None	FLJ12892, DKFZp434L1050
3	CCDC14	ENSG00000175455	ENST00000471054	retained_intron	KNOWN	None	25766	None	None	123652374	123667780	-1	None	FLJ12892, DKFZp434L1050
3	CCDC14	ENSG00000175455	ENST00000426152	protein_coding	NOVEL	None	25766	522	173	123665651	123668339	-1	None	FLJ12892, DKFZp434L1050
3	CCDC14	ENSG00000175455	ENST00000435910	nonsense_mediated_decay	KNOWN	None	25766	112	36	123665860	123680072	-1	None	FLJ12892, DKFZp434L1050
3	CCDC14	ENSG00000175455	ENST00000434954	protein_coding	KNOWN	None	25766	352	116	123666043	123668422	-1	None	FLJ12892, DKFZp434L1050
3	CCDC14	ENSG00000175455	ENST00000477268	processed_transcript	KNOWN	None	25766	None	None	123666148	123680228	-1	None	FLJ12892, DKFZp434L1050
3	CCDC14	ENSG00000175455	ENST00000438440	retained_intron	KNOWN	None	25766	None	None	123667555	123680056	-1	None	FLJ12892, DKFZp434L1050
3	CCDC14	ENSG00000175455	ENST00000417438	nonsense_mediated_decay	KNOWN	None	25766	195	64	123667793	123680228	-1	None	FLJ12892, DKFZp434L1050
3	CCDC14	ENSG00000175455	ENST00000478956	retained_intron	KNOWN	None	25766	None	None	123674924	123680065	-1	None	FLJ12892, DKFZp434L1050
3	CCDC14	ENSG00000175455	ENST00000488653	protein_coding	KNOWN	None	25766	2862	953	123632300	123680255	-1	None	FLJ12892, DKFZp434L1050
3	CCDC14	ENSG00000175455	ENST00000310351	protein_coding	KNOWN	None	25766	2382	793	123632300	123671457	-1	None	FLJ12892, DKFZp434L1050
1	HIST2H2BF	ENSG00000203814	ENST00000469483	processed_transcript	KNOWN	None	24700	None	None	149775158	149783893	-1	None	None
1	HIST2H2BF	ENSG00000203814	ENST00000369167	protein_coding	KNOWN	CCDS30846	24700	381	126	149783283	149783914	-1	None	None
1	HIST2H2BF	ENSG00000203814	ENST00000545683	protein_coding	KNOWN	CCDS53359	24700	405	134	149754245	149783928	-1	None	None
1	HIST2H2BF	ENSG00000203814	ENST00000427880	protein_coding	KNOWN	None	24700	501	166	149765021	149783925	-1	None	None
1	HIST2H3D	ENSG00000183598	ENST00000331491	protein_coding	KNOWN	CCDS41388	25311	411	136	149784826	149785236	-1	None	None
5	DOK3	ENSG00000146094	ENST00000312943	protein_coding	KNOWN	CCDS47350	24583	993	330	176928908	176937386	-1	None	FLJ22570
5	DOK3	ENSG00000146094	ENST00000500323	retained_intron	KNOWN	None	24583	None	None	176929089	176935878	-1	None	FLJ22570
5	DOK3	ENSG00000146094	ENST00000377112	protein_coding	KNOWN	CCDS47349	24583	687	228	176929089	176937383	-1	None	FLJ22570
5	DOK3	ENSG00000146094	ENST00000357198	protein_coding	KNOWN	CCDS4426	24583	1491	496	176930751	176936858	-1	None	FLJ22570
5	DOK3	ENSG00000146094	ENST00000501403	protein_coding	NOVEL	None	24583	1323	440	176930785	176937383	-1	None	FLJ22570
5	DOK3	ENSG00000146094	ENST00000510380	protein_coding	KNOWN	None	24583	641	212	176931748	176936847	-1	None	FLJ22570
5	DOK3	ENSG00000146094	ENST00000506493	protein_coding	KNOWN	None	24583	470	155	176932014	176936830	-1	None	FLJ22570
5	DOK3	ENSG00000146094	ENST00000502885	protein_coding	KNOWN	None	24583	432	143	176932052	176936827	-1	None	FLJ22570
5	DOK3	ENSG00000146094	ENST00000510898	protein_coding	KNOWN	None	24583	255	84	176935355	176936853	-1	None	FLJ22570
5	DOK3	ENSG00000146094	ENST00000509310	protein_coding	KNOWN	None	24583	131	42	176935479	176938275	-1	None	FLJ22570
5	DOK3	ENSG00000146094	ENST00000502380	retained_intron	KNOWN	None	24583	None	None	176935785	176937383	-1	None	FLJ22570
5	DOK3	ENSG00000146094	ENST00000512660	retained_intron	KNOWN	None	24583	None	None	176936167	176936827	-1	None	FLJ22570
5	DOK3	ENSG00000146094	ENST00000510389	protein_coding	KNOWN	None	24583	39	12	176936503	176938268	-1	None	FLJ22570
1	C1orf147	ENSG00000162888	ENST00000367119	protein_coding	KNOWN	None	32061	813	270	206664449	206671061	-1	None	FLJ32597
2	SP3	ENSG00000172845	ENST00000310015	protein_coding	KNOWN	CCDS2254	11208	2346	781	174771187	174830430	-1	None	SPR-2
2	SP3	ENSG00000172845	ENST00000418194	protein_coding	KNOWN	CCDS46452	11208	2142	713	174773258	174828947	-1	None	SPR-2
2	SP3	ENSG00000172845	ENST00000416195	protein_coding	NOVEL	None	11208	2216	737	174773258	174829281	-1	None	SPR-2
2	SP3	ENSG00000172845	ENST00000465379	retained_intron	KNOWN	None	11208	None	None	174773260	174781560	-1	None	SPR-2
2	SP3	ENSG00000172845	ENST00000462904	processed_transcript	KNOWN	None	11208	None	None	174820545	174830038	-1	None	SPR-2
2	SP3	ENSG00000172845	ENST00000483084	processed_transcript	KNOWN	None	11208	None	None	174820802	174828107	-1	None	SPR-2
2	SP3	ENSG00000172845	ENST00000490182	processed_transcript	KNOWN	None	11208	None	None	174820809	174829613	-1	None	SPR-2
2	SP3	ENSG00000172845	ENST00000455789	protein_coding	KNOWN	None	11208	2187	728	174771187	174830430	-1	None	SPR-2
14	SFTA3	ENSG00000229415	ENST00000519052	retained_intron	KNOWN	None	18387	None	None	36942493	36947171	-1	SFTPH	None
14	SFTA3	ENSG00000229415	ENST00000518529	protein_coding	KNOWN	CCDS45097	18387	285	94	36942493	36983034	-1	SFTPH	None
14	SFTA3	ENSG00000229415	ENST00000518002	nonsense_mediated_decay	KNOWN	None	18387	288	95	36942799	36982375	-1	SFTPH	None
14	SFTA3	ENSG00000229415	ENST00000521114	nonsense_mediated_decay	KNOWN	None	18387	231	76	36942907	36982736	-1	SFTPH	None
14	SFTA3	ENSG00000229415	ENST00000518987	processed_transcript	KNOWN	None	18387	None	None	36943883	36982711	-1	SFTPH	None
14	SFTA3	ENSG00000229415	ENST00000524122	nonsense_mediated_decay	KNOWN	None	18387	231	76	36943917	36982440	-1	SFTPH	None
14	SFTA3	ENSG00000229415	ENST00000518446	nonsense_mediated_decay	KNOWN	None	18387	231	76	36943954	36982980	-1	SFTPH	None
14	SFTA3	ENSG00000229415	ENST00000418548	retained_intron	KNOWN	None	18387	None	None	36945671	36982457	-1	SFTPH	None
14	SFTA3	ENSG00000229415	ENST00000521380	processed_transcript	PUTATIVE	None	18387	None	None	36946224	36946833	-1	SFTPH	None
1	HIST2H4A	ENSG00000183941	ENST00000369165	protein_coding	KNOWN	CCDS30847	4794	312	103	149804221	149806197	1	H4F2, H4FN, HIST2H4, H4/n	None
1	HIST2H4A	ENSG00000183941	ENST00000392939	protein_coding	KNOWN	CCDS30847	4794	312	103	149804232	149806197	1	H4F2, H4FN, HIST2H4, H4/n	None
1	HIST2H4A	ENSG00000183941	ENST00000392938	protein_coding	KNOWN	CCDS30847	4794	312	103	149804242	149811339	1	H4F2, H4FN, HIST2H4, H4/n	None
X	CD99	ENSG00000002586	ENST00000381192	protein_coding	KNOWN	CCDS14119	7082	558	185	2609220	2659350	1	MIC2	None
X	CD99	ENSG00000002586	ENST00000381187	protein_coding	KNOWN	CCDS48071	7082	510	169	2609317	2659142	1	MIC2	None
X	CD99	ENSG00000002586	ENST00000381184	protein_coding	KNOWN	None	7082	534	177	2609321	2651708	1	MIC2	None
X	CD99	ENSG00000002586	ENST00000482405	processed_transcript	KNOWN	None	7082	None	None	2609351	2651713	1	MIC2	None
X	CD99	ENSG00000002586	ENST00000381180	protein_coding	KNOWN	None	7082	231	76	2609402	2610291	1	MIC2	None
X	CD99	ENSG00000002586	ENST00000449611	protein_coding	KNOWN	None	7082	604	200	2609541	2644414	1	MIC2	None
X	CD99	ENSG00000002586	ENST00000482293	processed_transcript	KNOWN	None	7082	None	None	2635415	2644404	1	MIC2	None
X	CD99	ENSG00000002586	ENST00000497752	processed_transcript	KNOWN	None	7082	None	None	2637109	2641405	1	MIC2	None
X	CD99	ENSG00000002586	ENST00000381177	nonsense_mediated_decay	KNOWN	None	7082	186	61	2644382	2659166	1	MIC2	None
1	HIST2H3C	ENSG00000203811	ENST00000369158	protein_coding	KNOWN	CCDS30848	20503	411	136	149811110	149812765	-1	H3F2, H3FM	MGC9629, H3/m, H3, H3.2, H3/M
5	SPRY4	ENSG00000187678	ENST00000344120	protein_coding	KNOWN	CCDS4274	15533	969	322	141689992	141704566	-1	None	None
5	SPRY4	ENSG00000187678	ENST00000434127	protein_coding	KNOWN	CCDS47296	15533	900	299	141692539	141704605	-1	None	None
5	SPRY4	ENSG00000187678	ENST00000511815	protein_coding	KNOWN	None	15533	151	49	141694523	141703747	-1	None	None
5	SPRY4	ENSG00000187678	ENST00000503582	processed_transcript	KNOWN	None	15533	None	None	141694674	141703982	-1	None	None
5	SPRY4	ENSG00000187678	ENST00000509364	processed_transcript	KNOWN	None	15533	None	None	141704464	141706020	-1	None	None
1	HIST2H2AA3	ENSG00000183558	ENST00000369161	protein_coding	KNOWN	CCDS934	4736	393	130	149813505	149814478	-1	H2AFO, HIST2H2AA	H2A.2, H2A/q
4	None	ENSG00000249428	ENST00000506607	protein_coding	PUTATIVE	None	None	1380	459	2451700	2464668	1	None	None
5	None	ENSG00000272324	ENST00000606513	antisense	KNOWN	None	None	None	None	10761177	10770406	1	None	None
5	None	ENSG00000272324	ENST00000606588	antisense	KNOWN	None	None	None	None	10767736	10770392	1	None	None
1	HIST2H2AA4	ENSG00000203812	ENST00000369159	protein_coding	KNOWN	CCDS30849	29668	393	130	149822643	149823191	1	None	H2A/r
12	RNF34	ENSG00000170633	ENST00000361234	protein_coding	KNOWN	CCDS31915	17297	1119	372	121837844	121862154	1	None	RIFF, FLJ21786, RIF
12	RNF34	ENSG00000170633	ENST00000392465	protein_coding	KNOWN	CCDS9221	17297	1122	373	121837922	121862151	1	None	RIFF, FLJ21786, RIF
12	RNF34	ENSG00000170633	ENST00000556562	retained_intron	KNOWN	None	17297	None	None	121837931	121854412	1	None	RIFF, FLJ21786, RIF
12	RNF34	ENSG00000170633	ENST00000553407	retained_intron	KNOWN	None	17297	None	None	121837932	121856543	1	None	RIFF, FLJ21786, RIF
12	RNF34	ENSG00000170633	ENST00000554606	protein_coding	PUTATIVE	None	17297	490	162	121837945	121855592	1	None	RIFF, FLJ21786, RIF
12	RNF34	ENSG00000170633	ENST00000392464	protein_coding	PUTATIVE	None	17297	1524	507	121837947	121868389	1	None	RIFF, FLJ21786, RIF
12	RNF34	ENSG00000170633	ENST00000555076	protein_coding	PUTATIVE	None	17297	138	45	121837950	121861709	1	None	RIFF, FLJ21786, RIF
12	RNF34	ENSG00000170633	ENST00000554868	protein_coding	PUTATIVE	None	17297	222	73	121847258	121855324	1	None	RIFF, FLJ21786, RIF
12	RNF34	ENSG00000170633	ENST00000557402	protein_coding	PUTATIVE	None	17297	113	36	121847278	121854089	1	None	RIFF, FLJ21786, RIF
12	RNF34	ENSG00000170633	ENST00000554484	retained_intron	KNOWN	None	17297	None	None	121857701	121862152	1	None	RIFF, FLJ21786, RIF
1	RASSF5	ENSG00000136653	ENST00000355294	protein_coding	KNOWN	CCDS30998	17609	1257	418	206680879	206761044	1	None	Maxp1, NORE1, RAPL
1	RASSF5	ENSG00000136653	ENST00000367117	protein_coding	KNOWN	CCDS1463	17609	1011	336	206680879	206761044	1	None	Maxp1, NORE1, RAPL
1	RASSF5	ENSG00000136653	ENST00000338603	protein_coding	KNOWN	None	17609	1179	392	206680879	206762607	1	None	Maxp1, NORE1, RAPL
1	RASSF5	ENSG00000136653	ENST00000304534	protein_coding	KNOWN	CCDS1464	17609	798	265	206730493	206762599	1	None	Maxp1, NORE1, RAPL
1	RASSF5	ENSG00000136653	ENST00000491368	processed_transcript	PUTATIVE	None	17609	None	None	206756604	206762604	1	None	Maxp1, NORE1, RAPL
1	RASSF5	ENSG00000136653	ENST00000481486	processed_transcript	PUTATIVE	None	17609	None	None	206757807	206762616	1	None	Maxp1, NORE1, RAPL
1	HIST2H3A	ENSG00000203852	ENST00000403683	protein_coding	KNOWN	CCDS30850	20505	411	136	149824181	149825836	1	None	H3/n, H3/o
9	AQP3	ENSG00000165272	ENST00000297991	protein_coding	KNOWN	CCDS6542	636	879	292	33441152	33447609	-1	None	GIL
9	AQP3	ENSG00000165272	ENST00000493581	processed_transcript	KNOWN	None	636	None	None	33441154	33447594	-1	None	GIL
9	AQP3	ENSG00000165272	ENST00000494313	processed_transcript	KNOWN	None	636	None	None	33441181	33443107	-1	None	GIL
9	AQP3	ENSG00000165272	ENST00000463983	processed_transcript	KNOWN	None	636	None	None	33442302	33447580	-1	None	GIL
9	AQP3	ENSG00000165272	ENST00000473153	processed_transcript	KNOWN	None	636	None	None	33442379	33447507	-1	None	GIL
1	HIST2H4B	ENSG00000182217	ENST00000392933	protein_coding	KNOWN	CCDS30851	29607	312	103	149825607	149832704	-1	None	H4/o
1	HIST2H4B	ENSG00000182217	ENST00000369157	protein_coding	KNOWN	CCDS30851	29607	312	103	149830749	149832712	-1	None	H4/o
1	HIST2H4B	ENSG00000182217	ENST00000392932	protein_coding	KNOWN	CCDS30851	29607	312	103	149830749	149832714	-1	None	H4/o
16	None	ENSG00000261833	ENST00000563764	protein_coding	PUTATIVE	None	None	162	53	76587314	76669520	1	None	None
17	GABARAP	ENSG00000170296	ENST00000302386	protein_coding	KNOWN	CCDS11092	4067	354	117	7143333	7146089	-1	None	MM46, ATG8A
17	GABARAP	ENSG00000170296	ENST00000577035	protein_coding	PUTATIVE	None	4067	84	27	7143727	7145138	-1	None	MM46, ATG8A
17	GABARAP	ENSG00000170296	ENST00000570856	nonsense_mediated_decay	KNOWN	None	4067	111	36	7143893	7145677	-1	None	MM46, ATG8A
17	GABARAP	ENSG00000170296	ENST00000571129	protein_coding	PUTATIVE	None	4067	84	27	7143947	7145475	-1	None	MM46, ATG8A
17	GABARAP	ENSG00000170296	ENST00000571253	protein_coding	PUTATIVE	None	4067	84	27	7144173	7145571	-1	None	MM46, ATG8A
17	GABARAP	ENSG00000170296	ENST00000573928	protein_coding	PUTATIVE	None	4067	297	98	7144590	7145766	-1	None	MM46, ATG8A
9	FPGS	ENSG00000136877	ENST00000479147	processed_transcript	KNOWN	None	3824	None	None	130556876	130569961	1	None	None
9	FPGS	ENSG00000136877	ENST00000479375	processed_transcript	KNOWN	None	3824	None	None	130556961	130570580	1	None	None
9	FPGS	ENSG00000136877	ENST00000373247	protein_coding	KNOWN	CCDS35148	3824	1764	587	130565154	130576343	1	None	None
9	FPGS	ENSG00000136877	ENST00000488307	processed_transcript	KNOWN	None	3824	None	None	130565172	130571161	1	None	None
9	FPGS	ENSG00000136877	ENST00000373228	protein_coding	KNOWN	None	3824	1128	375	130565190	130575703	1	None	None
9	FPGS	ENSG00000136877	ENST00000481552	processed_transcript	KNOWN	None	3824	None	None	130565196	130569967	1	None	None
9	FPGS	ENSG00000136877	ENST00000460181	processed_transcript	KNOWN	None	3824	None	None	130565197	130576337	1	None	None
9	FPGS	ENSG00000136877	ENST00000475765	processed_transcript	KNOWN	None	3824	None	None	130565211	130570128	1	None	None
9	FPGS	ENSG00000136877	ENST00000496586	processed_transcript	KNOWN	None	3824	None	None	130565303	130569558	1	None	None
9	FPGS	ENSG00000136877	ENST00000373225	protein_coding	KNOWN	CCDS35149	3824	1614	537	130565487	130576338	1	None	None
9	FPGS	ENSG00000136877	ENST00000431857	protein_coding	KNOWN	None	3824	794	263	130565531	130571994	1	None	None
9	FPGS	ENSG00000136877	ENST00000423577	protein_coding	KNOWN	None	3824	584	193	130565603	130570580	1	None	None
9	FPGS	ENSG00000136877	ENST00000469310	processed_transcript	KNOWN	None	3824	None	None	130566565	130567136	1	None	None
9	FPGS	ENSG00000136877	ENST00000497386	processed_transcript	KNOWN	None	3824	None	None	130568776	130570984	1	None	None
9	FPGS	ENSG00000136877	ENST00000488506	processed_transcript	KNOWN	None	3824	None	None	130569952	130575563	1	None	None
9	FPGS	ENSG00000136877	ENST00000489522	processed_transcript	KNOWN	None	3824	None	None	130570426	130572316	1	None	None
9	FPGS	ENSG00000136877	ENST00000467826	processed_transcript	KNOWN	None	3824	None	None	130570543	130576606	1	None	None
9	FPGS	ENSG00000136877	ENST00000473536	processed_transcript	KNOWN	None	3824	None	None	130571001	130572337	1	None	None
9	FPGS	ENSG00000136877	ENST00000475270	processed_transcript	KNOWN	None	3824	None	None	130572273	130575853	1	None	None
9	FPGS	ENSG00000136877	ENST00000393706	protein_coding	KNOWN	None	3824	1686	561	130565161	130576263	1	None	None
9	FPGS	ENSG00000136877	ENST00000373245	protein_coding	KNOWN	None	3824	1128	375	130565154	130576556	1	None	None
9	GNA14	ENSG00000156049	ENST00000341700	protein_coding	KNOWN	CCDS6657	4382	1068	355	80037995	80263223	-1	None	None
9	GNA14	ENSG00000156049	ENST00000464095	processed_transcript	KNOWN	None	4382	None	None	80039044	80046604	-1	None	None
1	HIST2H2BE	ENSG00000184678	ENST00000369155	protein_coding	KNOWN	CCDS936	4760	381	126	149856010	149858232	-1	H2B, H2BFQ	H2B/q, H2B.1
7	LAMB4	ENSG00000091128	ENST00000205386	protein_coding	KNOWN	CCDS34732	6491	5286	1761	107663993	107770800	-1	None	None
7	LAMB4	ENSG00000091128	ENST00000483484	processed_transcript	KNOWN	None	6491	None	None	107664256	107677907	-1	None	None
7	LAMB4	ENSG00000091128	ENST00000422975	protein_coding	PUTATIVE	None	6491	2250	749	107667006	107704344	-1	None	None
7	LAMB4	ENSG00000091128	ENST00000475572	processed_transcript	KNOWN	None	6491	None	None	107671390	107684715	-1	None	None
7	LAMB4	ENSG00000091128	ENST00000471677	retained_intron	KNOWN	None	6491	None	None	107702842	107706303	-1	None	None
7	LAMB4	ENSG00000091128	ENST00000475469	retained_intron	KNOWN	None	6491	None	None	107702915	107770801	-1	None	None
7	LAMB4	ENSG00000091128	ENST00000418464	protein_coding	PUTATIVE	None	6491	2125	707	107715982	107770800	-1	None	None
7	LAMB4	ENSG00000091128	ENST00000388781	protein_coding	KNOWN	CCDS34732	6491	5286	1761	107663996	107770801	-1	None	None
7	LAMB4	ENSG00000091128	ENST00000388780	protein_coding	KNOWN	None	6491	5172	1723	107667335	107770801	-1	None	None
7	LAMB4	ENSG00000091128	ENST00000414450	protein_coding	KNOWN	None	6491	2319	772	107716183	107770801	-1	None	None
10	None	ENSG00000236514	ENST00000429214	antisense	KNOWN	None	None	None	None	38146668	38148038	1	None	None
1	HIST2H2AC	ENSG00000184260	ENST00000331380	protein_coding	KNOWN	CCDS937	4738	390	129	149858525	149858961	1	H2A, H2AFQ	H2A/q
12	CLSTN3	ENSG00000139182	ENST00000541953	protein_coding	KNOWN	None	18371	402	133	7282294	7287941	1	None	CSTN3, KIAA0726, CDHR14
12	CLSTN3	ENSG00000139182	ENST00000266546	protein_coding	KNOWN	CCDS8575	18371	2871	956	7282795	7311541	1	None	CSTN3, KIAA0726, CDHR14
12	CLSTN3	ENSG00000139182	ENST00000541667	processed_transcript	KNOWN	None	18371	None	None	7283024	7289440	1	None	CSTN3, KIAA0726, CDHR14
12	CLSTN3	ENSG00000139182	ENST00000545663	protein_coding	PUTATIVE	None	18371	427	141	7283351	7288077	1	None	CSTN3, KIAA0726, CDHR14
12	CLSTN3	ENSG00000139182	ENST00000535452	protein_coding	PUTATIVE	None	18371	389	128	7283684	7288039	1	None	CSTN3, KIAA0726, CDHR14
12	CLSTN3	ENSG00000139182	ENST00000534830	protein_coding	PUTATIVE	None	18371	464	153	7283916	7288114	1	None	CSTN3, KIAA0726, CDHR14
12	CLSTN3	ENSG00000139182	ENST00000539982	protein_coding	PUTATIVE	None	18371	530	175	7284382	7288120	1	None	CSTN3, KIAA0726, CDHR14
12	CLSTN3	ENSG00000139182	ENST00000537408	protein_coding	PUTATIVE	None	18371	2907	968	7284982	7311528	1	None	CSTN3, KIAA0726, CDHR14
12	CLSTN3	ENSG00000139182	ENST00000538933	retained_intron	KNOWN	None	18371	None	None	7285501	7286509	1	None	CSTN3, KIAA0726, CDHR14
12	CLSTN3	ENSG00000139182	ENST00000540931	retained_intron	KNOWN	None	18371	None	None	7288045	7289911	1	None	CSTN3, KIAA0726, CDHR14
12	CLSTN3	ENSG00000139182	ENST00000535668	processed_transcript	KNOWN	None	18371	None	None	7288897	7291411	1	None	CSTN3, KIAA0726, CDHR14
12	CLSTN3	ENSG00000139182	ENST00000544584	processed_transcript	KNOWN	None	18371	None	None	7291278	7295794	1	None	CSTN3, KIAA0726, CDHR14
12	CLSTN3	ENSG00000139182	ENST00000541770	retained_intron	KNOWN	None	18371	None	None	7295734	7302285	1	None	CSTN3, KIAA0726, CDHR14
12	CLSTN3	ENSG00000139182	ENST00000542663	retained_intron	KNOWN	None	18371	None	None	7303119	7303746	1	None	CSTN3, KIAA0726, CDHR14
12	CLSTN3	ENSG00000139182	ENST00000331148	processed_transcript	KNOWN	None	18371	None	None	7308501	7311541	1	None	CSTN3, KIAA0726, CDHR14
12	CLSTN3	ENSG00000139182	ENST00000535313	processed_transcript	PUTATIVE	None	18371	None	None	7309307	7310901	1	None	CSTN3, KIAA0726, CDHR14
1	C1orf50	ENSG00000164008	ENST00000372525	protein_coding	KNOWN	CCDS473	28795	600	199	43232940	43241418	1	None	MGC955
1	C1orf50	ENSG00000164008	ENST00000464081	nonsense_mediated_decay	KNOWN	None	28795	129	42	43232963	43260164	1	None	MGC955
1	C1orf50	ENSG00000164008	ENST00000603943	nonsense_mediated_decay	KNOWN	None	28795	330	109	43232977	43255608	1	None	MGC955
1	C1orf50	ENSG00000164008	ENST00000468913	processed_transcript	KNOWN	None	28795	None	None	43235349	43241099	1	None	MGC955
1	C1orf50	ENSG00000164008	ENST00000494155	processed_transcript	KNOWN	None	28795	None	None	43238858	43240441	1	None	MGC955
1	C1orf50	ENSG00000164008	ENST00000421630	protein_coding	PUTATIVE	None	28795	697	231	43255480	43263968	1	None	MGC955
1	C1orf50	ENSG00000164008	ENST00000438946	protein_coding	PUTATIVE	None	28795	385	127	43259318	43263628	1	None	MGC955
1	C1orf50	ENSG00000164008	ENST00000605272	protein_coding	PUTATIVE	None	28795	496	164	43259336	43262465	1	None	MGC955
1	C1orf50	ENSG00000164008	ENST00000536543	protein_coding	KNOWN	None	28795	687	228	43232977	43263875	1	None	MGC955
20	MTRNR2L3	ENSG00000256222	ENST00000543500	protein_coding	KNOWN	CCDS54476	37157	75	24	55933496	55934878	-1	None	None
2	ETAA1	ENSG00000143971	ENST00000272342	protein_coding	KNOWN	CCDS1882	24648	2781	926	67624451	67637677	1	None	ETAA16
2	ETAA1	ENSG00000143971	ENST00000462772	processed_transcript	KNOWN	None	24648	None	None	67629926	67632467	1	None	ETAA16
1	HIST2H2AB	ENSG00000184270	ENST00000331128	protein_coding	KNOWN	CCDS938	20508	393	130	149859019	149859466	-1	None	None
7	TBX20	ENSG00000164532	ENST00000408931	protein_coding	KNOWN	CCDS43568	11598	1344	447	35242042	35293758	-1	None	None
7	TBX20	ENSG00000164532	ENST00000492961	retained_intron	KNOWN	None	11598	None	None	35271112	35293242	-1	None	None
2	PDIA6	ENSG00000143870	ENST00000272227	protein_coding	KNOWN	CCDS1675	30168	1323	440	10923517	10952970	-1	TXNDC7	P5, ERp5
2	PDIA6	ENSG00000143870	ENST00000404371	protein_coding	PUTATIVE	None	30168	1479	492	10923519	10972611	-1	TXNDC7	P5, ERp5
2	PDIA6	ENSG00000143870	ENST00000404824	protein_coding	PUTATIVE	None	30168	1467	488	10923987	10978103	-1	TXNDC7	P5, ERp5
2	PDIA6	ENSG00000143870	ENST00000489662	processed_transcript	KNOWN	None	30168	None	None	10937225	10952880	-1	TXNDC7	P5, ERp5
2	PDIA6	ENSG00000143870	ENST00000458536	protein_coding	KNOWN	None	30168	34	10	10959400	10972466	-1	TXNDC7	P5, ERp5
2	PDIA6	ENSG00000143870	ENST00000381611	protein_coding	KNOWN	None	30168	1338	445	10924162	10972571	-1	TXNDC7	P5, ERp5
2	PDIA6	ENSG00000143870	ENST00000540494	protein_coding	KNOWN	None	30168	1314	437	10924138	10952880	-1	TXNDC7	P5, ERp5
1	BOLA1	ENSG00000178096	ENST00000369153	protein_coding	KNOWN	CCDS939	24263	414	137	149859440	149872044	1	None	CGI-143
1	BOLA1	ENSG00000178096	ENST00000369152	protein_coding	KNOWN	CCDS939	24263	414	137	149871150	149872345	1	None	CGI-143
1	BOLA1	ENSG00000178096	ENST00000476344	processed_transcript	KNOWN	None	24263	None	None	149871159	149872351	1	None	CGI-143
1	BOLA1	ENSG00000178096	ENST00000369150	protein_coding	KNOWN	CCDS939	24263	414	137	149871179	149872101	1	None	CGI-143
14	HAUS4	ENSG00000092036	ENST00000490506	protein_coding	KNOWN	None	20163	720	239	23415437	23426303	-1	C14orf94	FLJ20424
14	HAUS4	ENSG00000092036	ENST00000206474	protein_coding	KNOWN	CCDS9580	20163	1092	363	23415437	23426363	-1	C14orf94	FLJ20424
14	HAUS4	ENSG00000092036	ENST00000554446	processed_transcript	KNOWN	None	20163	None	None	23415438	23424385	-1	C14orf94	FLJ20424
14	HAUS4	ENSG00000092036	ENST00000342454	protein_coding	KNOWN	CCDS53886	20163	957	318	23415445	23426338	-1	C14orf94	FLJ20424
14	HAUS4	ENSG00000092036	ENST00000347758	protein_coding	KNOWN	None	20163	714	237	23415445	23426357	-1	C14orf94	FLJ20424
14	HAUS4	ENSG00000092036	ENST00000555367	protein_coding	KNOWN	CCDS53886	20163	957	318	23415470	23426335	-1	C14orf94	FLJ20424
14	HAUS4	ENSG00000092036	ENST00000555986	protein_coding	KNOWN	CCDS53886	20163	957	318	23415479	23426346	-1	C14orf94	FLJ20424
14	HAUS4	ENSG00000092036	ENST00000556421	retained_intron	KNOWN	None	20163	None	None	23415770	23417443	-1	C14orf94	FLJ20424
14	HAUS4	ENSG00000092036	ENST00000553859	nonsense_mediated_decay	KNOWN	None	20163	435	144	23415826	23421614	-1	C14orf94	FLJ20424
14	HAUS4	ENSG00000092036	ENST00000554063	retained_intron	KNOWN	None	20163	None	None	23416518	23417313	-1	C14orf94	FLJ20424
14	HAUS4	ENSG00000092036	ENST00000555040	protein_coding	KNOWN	None	20163	839	278	23416810	23426370	-1	C14orf94	FLJ20424
14	HAUS4	ENSG00000092036	ENST00000556915	protein_coding	NOVEL	None	20163	457	151	23416911	23426231	-1	C14orf94	FLJ20424
14	HAUS4	ENSG00000092036	ENST00000554349	processed_transcript	KNOWN	None	20163	None	None	23417077	23426259	-1	C14orf94	FLJ20424
14	HAUS4	ENSG00000092036	ENST00000553794	processed_transcript	PUTATIVE	None	20163	None	None	23417096	23426300	-1	C14orf94	FLJ20424
14	HAUS4	ENSG00000092036	ENST00000554373	processed_transcript	KNOWN	None	20163	None	None	23417129	23426152	-1	C14orf94	FLJ20424
14	HAUS4	ENSG00000092036	ENST00000554651	processed_transcript	KNOWN	None	20163	None	None	23417170	23426282	-1	C14orf94	FLJ20424
14	HAUS4	ENSG00000092036	ENST00000554516	protein_coding	KNOWN	None	20163	562	186	23419523	23426353	-1	C14orf94	FLJ20424
14	HAUS4	ENSG00000092036	ENST00000557591	protein_coding	KNOWN	None	20163	481	159	23419604	23426270	-1	C14orf94	FLJ20424
14	HAUS4	ENSG00000092036	ENST00000553420	protein_coding	PUTATIVE	None	20163	443	146	23420701	23421892	-1	C14orf94	FLJ20424
14	HAUS4	ENSG00000092036	ENST00000554406	protein_coding	KNOWN	None	20163	52	16	23420805	23426303	-1	C14orf94	FLJ20424
14	HAUS4	ENSG00000092036	ENST00000541587	protein_coding	KNOWN	CCDS9580	20163	1092	363	23415438	23426351	-1	C14orf94	FLJ20424
14	HAUS4	ENSG00000092036	ENST00000397409	protein_coding	KNOWN	None	20163	714	237	23415445	23426297	-1	C14orf94	FLJ20424
20	RBM38	ENSG00000132819	ENST00000356208	protein_coding	KNOWN	CCDS46617	15818	720	239	55966463	55984389	1	RNPC1	HSRNASEB, SEB4D, seb4B, dJ800J21.2
20	RBM38	ENSG00000132819	ENST00000440234	protein_coding	KNOWN	CCDS46618	15818	366	121	55966484	55982769	1	RNPC1	HSRNASEB, SEB4D, seb4B, dJ800J21.2
20	RBM38	ENSG00000132819	ENST00000342690	nonsense_mediated_decay	KNOWN	None	15818	234	77	55966509	55982832	1	RNPC1	HSRNASEB, SEB4D, seb4B, dJ800J21.2
20	RBM38	ENSG00000132819	ENST00000344785	nonsense_mediated_decay	KNOWN	None	15818	372	123	55966693	55984389	1	RNPC1	HSRNASEB, SEB4D, seb4B, dJ800J21.2
20	RBM38	ENSG00000132819	ENST00000371219	protein_coding	KNOWN	None	15818	477	158	55967286	55982916	1	RNPC1	HSRNASEB, SEB4D, seb4B, dJ800J21.2
1	CCDC23	ENSG00000177868	ENST00000372522	protein_coding	KNOWN	CCDS474	29204	201	66	43272723	43282475	-1	None	MGC45441
1	CCDC23	ENSG00000177868	ENST00000372521	protein_coding	KNOWN	CCDS474	29204	201	66	43272727	43282923	-1	None	MGC45441
1	CCDC23	ENSG00000177868	ENST00000497437	processed_transcript	KNOWN	None	29204	None	None	43279081	43282923	-1	None	MGC45441
1	CCDC23	ENSG00000177868	ENST00000537227	protein_coding	KNOWN	CCDS474	29204	201	66	43272841	43282954	-1	None	MGC45441
3	TMEM158	ENSG00000249992	ENST00000503771	protein_coding	KNOWN	CCDS54573	30293	903	300	45265958	45267770	-1	None	RIS1, p40BBp
1	EIF2D	ENSG00000143486	ENST00000472709	processed_transcript	KNOWN	None	6583	None	None	206744620	206770466	-1	None	LGTN
1	EIF2D	ENSG00000143486	ENST00000367114	protein_coding	KNOWN	CCDS55680	6583	1383	460	206764974	206785812	-1	None	LGTN
1	EIF2D	ENSG00000143486	ENST00000271764	protein_coding	KNOWN	CCDS1465	6583	1755	584	206764977	206785904	-1	None	LGTN
1	EIF2D	ENSG00000143486	ENST00000468891	processed_transcript	KNOWN	None	6583	None	None	206769051	206773190	-1	None	LGTN
1	EIF2D	ENSG00000143486	ENST00000484492	processed_transcript	KNOWN	None	6583	None	None	206769052	206775807	-1	None	LGTN
1	EIF2D	ENSG00000143486	ENST00000437518	protein_coding	NOVEL	None	6583	812	269	206775696	206785803	-1	None	LGTN
1	EIF2D	ENSG00000143486	ENST00000461334	processed_transcript	KNOWN	None	6583	None	None	206776437	206781648	-1	None	LGTN
1	EIF2D	ENSG00000143486	ENST00000474408	processed_transcript	KNOWN	None	6583	None	None	206782729	206785812	-1	None	LGTN
4	RNF4	ENSG00000063978	ENST00000503659	protein_coding	KNOWN	None	10067	15	4	2463947	2498739	1	None	RES4-26, SNURF, SLX5
4	RNF4	ENSG00000063978	ENST00000504224	protein_coding	PUTATIVE	None	10067	204	67	2470456	2502465	1	None	RES4-26, SNURF, SLX5
4	RNF4	ENSG00000063978	ENST00000314289	protein_coding	KNOWN	CCDS47001	10067	573	190	2470664	2517582	1	None	RES4-26, SNURF, SLX5
4	RNF4	ENSG00000063978	ENST00000502316	protein_coding	NOVEL	None	10067	565	187	2470824	2515538	1	None	RES4-26, SNURF, SLX5
4	RNF4	ENSG00000063978	ENST00000509388	processed_transcript	PUTATIVE	None	10067	None	None	2470831	2514858	1	None	RES4-26, SNURF, SLX5
4	RNF4	ENSG00000063978	ENST00000507247	protein_coding	PUTATIVE	None	10067	305	100	2470832	2515438	1	None	RES4-26, SNURF, SLX5
4	RNF4	ENSG00000063978	ENST00000509258	protein_coding	NOVEL	None	10067	270	89	2470833	2514061	1	None	RES4-26, SNURF, SLX5
4	RNF4	ENSG00000063978	ENST00000511843	processed_transcript	PUTATIVE	None	10067	None	None	2470833	2514317	1	None	RES4-26, SNURF, SLX5
4	RNF4	ENSG00000063978	ENST00000504782	retained_intron	KNOWN	None	10067	None	None	2470834	2492525	1	None	RES4-26, SNURF, SLX5
4	RNF4	ENSG00000063978	ENST00000513284	nonsense_mediated_decay	KNOWN	None	10067	132	43	2470834	2514238	1	None	RES4-26, SNURF, SLX5
4	RNF4	ENSG00000063978	ENST00000507784	retained_intron	KNOWN	None	10067	None	None	2470864	2499027	1	None	RES4-26, SNURF, SLX5
4	RNF4	ENSG00000063978	ENST00000513578	nonsense_mediated_decay	KNOWN	None	10067	144	47	2470866	2502475	1	None	RES4-26, SNURF, SLX5
4	RNF4	ENSG00000063978	ENST00000511892	processed_transcript	KNOWN	None	10067	None	None	2470867	2498806	1	None	RES4-26, SNURF, SLX5
4	RNF4	ENSG00000063978	ENST00000511859	protein_coding	NOVEL	CCDS54713	10067	342	113	2470867	2516230	1	None	RES4-26, SNURF, SLX5
4	RNF4	ENSG00000063978	ENST00000513643	processed_transcript	KNOWN	None	10067	None	None	2470886	2514324	1	None	RES4-26, SNURF, SLX5
4	RNF4	ENSG00000063978	ENST00000503123	processed_transcript	PUTATIVE	None	10067	None	None	2470908	2498830	1	None	RES4-26, SNURF, SLX5
4	RNF4	ENSG00000063978	ENST00000509206	processed_transcript	KNOWN	None	10067	None	None	2470921	2498806	1	None	RES4-26, SNURF, SLX5
4	RNF4	ENSG00000063978	ENST00000506706	protein_coding	KNOWN	CCDS47001	10067	573	190	2471180	2516201	1	None	RES4-26, SNURF, SLX5
4	RNF4	ENSG00000063978	ENST00000511600	protein_coding	KNOWN	CCDS47001	10067	573	190	2481580	2517581	1	None	RES4-26, SNURF, SLX5
4	RNF4	ENSG00000063978	ENST00000513450	protein_coding	KNOWN	None	10067	164	53	2491538	2502425	1	None	RES4-26, SNURF, SLX5
4	RNF4	ENSG00000063978	ENST00000508235	nonsense_mediated_decay	KNOWN	None	10067	320	105	2514204	2627047	1	None	RES4-26, SNURF, SLX5
4	RNF4	ENSG00000063978	ENST00000541204	protein_coding	KNOWN	None	10067	573	190	2470807	2517584	1	None	RES4-26, SNURF, SLX5
16	MON1B	ENSG00000103111	ENST00000569610	protein_coding	KNOWN	None	25020	501	166	77224732	77228257	1	None	SAND2, HSRG1, KIAA0872
16	MON1B	ENSG00000103111	ENST00000248248	protein_coding	KNOWN	CCDS10925	25020	1644	547	77224816	77236302	1	None	SAND2, HSRG1, KIAA0872
16	MON1B	ENSG00000103111	ENST00000567291	protein_coding	KNOWN	None	25020	766	254	77224824	77228522	1	None	SAND2, HSRG1, KIAA0872
16	MON1B	ENSG00000103111	ENST00000563612	protein_coding	KNOWN	None	25020	332	109	77224838	77227531	1	None	SAND2, HSRG1, KIAA0872
16	MON1B	ENSG00000103111	ENST00000563279	protein_coding	KNOWN	None	25020	304	100	77224860	77227503	1	None	SAND2, HSRG1, KIAA0872
16	MON1B	ENSG00000103111	ENST00000566963	retained_intron	KNOWN	None	25020	None	None	77224895	77227843	1	None	SAND2, HSRG1, KIAA0872
16	MON1B	ENSG00000103111	ENST00000564006	nonsense_mediated_decay	KNOWN	None	25020	360	119	77224928	77228452	1	None	SAND2, HSRG1, KIAA0872
16	MON1B	ENSG00000103111	ENST00000439557	protein_coding	NOVEL	None	25020	1317	438	77225089	77232570	1	None	SAND2, HSRG1, KIAA0872
16	MON1B	ENSG00000103111	ENST00000545553	protein_coding	PUTATIVE	None	25020	1206	401	77225097	77232791	1	None	SAND2, HSRG1, KIAA0872
16	MON1B	ENSG00000103111	ENST00000566455	retained_intron	KNOWN	None	25020	None	None	77227865	77233533	1	None	SAND2, HSRG1, KIAA0872
16	MON1B	ENSG00000103111	ENST00000320859	protein_coding	KNOWN	None	25020	438	145	77224836	77229583	1	None	SAND2, HSRG1, KIAA0872
7	HERPUD2	ENSG00000122557	ENST00000396081	protein_coding	KNOWN	CCDS5446	21915	1221	406	35672269	35734745	-1	None	FLJ22313
7	HERPUD2	ENSG00000122557	ENST00000311350	protein_coding	KNOWN	CCDS5446	21915	1221	406	35672679	35734745	-1	None	FLJ22313
7	HERPUD2	ENSG00000122557	ENST00000426180	processed_transcript	KNOWN	None	21915	None	None	35673922	35708189	-1	None	FLJ22313
7	HERPUD2	ENSG00000122557	ENST00000438224	protein_coding	NOVEL	None	21915	540	179	35674954	35734211	-1	None	FLJ22313
7	HERPUD2	ENSG00000122557	ENST00000413517	protein_coding	NOVEL	None	21915	572	189	35675036	35734176	-1	None	FLJ22313
7	HERPUD2	ENSG00000122557	ENST00000427455	protein_coding	NOVEL	None	21915	182	59	35707164	35734633	-1	None	FLJ22313
7	HERPUD2	ENSG00000122557	ENST00000603731	protein_coding	KNOWN	None	21915	56	17	35733885	35735181	-1	None	FLJ22313
1	ERMAP	ENSG00000164010	ENST00000487556	processed_transcript	KNOWN	None	15743	None	None	43282795	43310654	1	RD, SC	None
1	ERMAP	ENSG00000164010	ENST00000372517	protein_coding	KNOWN	CCDS475	15743	1428	475	43282802	43310654	1	RD, SC	None
1	ERMAP	ENSG00000164010	ENST00000470938	processed_transcript	KNOWN	None	15743	None	None	43290107	43291461	1	RD, SC	None
1	ERMAP	ENSG00000164010	ENST00000372514	protein_coding	KNOWN	CCDS475	15743	1428	475	43291231	43310660	1	RD, SC	None
1	ERMAP	ENSG00000164010	ENST00000328249	protein_coding	KNOWN	None	15743	1158	385	43295586	43310656	1	RD, SC	None
2	OLA1	ENSG00000138430	ENST00000284719	protein_coding	KNOWN	CCDS2255	28833	1191	396	174937175	175113426	-1	GTPBP9	PTD004
2	OLA1	ENSG00000138430	ENST00000344357	protein_coding	KNOWN	CCDS42779	28833	717	238	174939736	175113327	-1	GTPBP9	PTD004
2	OLA1	ENSG00000138430	ENST00000428402	protein_coding	KNOWN	None	28833	837	278	174939738	175113203	-1	GTPBP9	PTD004
2	OLA1	ENSG00000138430	ENST00000497760	retained_intron	KNOWN	None	28833	None	None	174939918	174944079	-1	GTPBP9	PTD004
2	OLA1	ENSG00000138430	ENST00000409546	protein_coding	PUTATIVE	None	28833	1251	416	174939965	175113088	-1	GTPBP9	PTD004
2	OLA1	ENSG00000138430	ENST00000392560	processed_transcript	KNOWN	None	28833	None	None	174940137	174989043	-1	GTPBP9	PTD004
2	OLA1	ENSG00000138430	ENST00000462000	retained_intron	KNOWN	None	28833	None	None	174945636	174988398	-1	GTPBP9	PTD004
2	OLA1	ENSG00000138430	ENST00000429575	protein_coding	KNOWN	None	28833	309	102	174946738	175082674	-1	GTPBP9	PTD004
2	OLA1	ENSG00000138430	ENST00000427472	protein_coding	KNOWN	None	28833	349	115	175087785	175112015	-1	GTPBP9	PTD004
1	SV2A	ENSG00000159164	ENST00000369146	protein_coding	KNOWN	CCDS940	20566	2229	742	149874870	149889434	-1	None	SV2, KIAA0736
1	SV2A	ENSG00000159164	ENST00000369145	protein_coding	KNOWN	None	20566	2049	682	149877024	149889393	-1	None	SV2, KIAA0736
17	TOP3A	ENSG00000177302	ENST00000493648	nonsense_mediated_decay	KNOWN	None	11992	157	51	18174742	18178272	-1	TOP3	None
17	TOP3A	ENSG00000177302	ENST00000489131	protein_coding	PUTATIVE	None	11992	76	24	18176152	18178191	-1	TOP3	None
17	TOP3A	ENSG00000177302	ENST00000469739	retained_intron	KNOWN	None	11992	None	None	18177281	18210473	-1	TOP3	None
17	TOP3A	ENSG00000177302	ENST00000321105	protein_coding	KNOWN	CCDS11194	11992	3006	1001	18177281	18218307	-1	TOP3	None
17	TOP3A	ENSG00000177302	ENST00000584582	nonsense_mediated_decay	KNOWN	None	11992	210	69	18177542	18218307	-1	TOP3	None
17	TOP3A	ENSG00000177302	ENST00000582981	nonsense_mediated_decay	KNOWN	None	11992	270	89	18178038	18218321	-1	TOP3	None
17	TOP3A	ENSG00000177302	ENST00000580095	protein_coding	PUTATIVE	None	11992	2929	975	18178118	18218017	-1	TOP3	None
17	TOP3A	ENSG00000177302	ENST00000477508	retained_intron	KNOWN	None	11992	None	None	18183489	18186127	-1	TOP3	None
17	TOP3A	ENSG00000177302	ENST00000582122	nonsense_mediated_decay	KNOWN	None	11992	402	133	18186105	18194230	-1	TOP3	None
17	TOP3A	ENSG00000177302	ENST00000581536	nonsense_mediated_decay	KNOWN	None	11992	490	162	18188742	18205675	-1	TOP3	None
17	TOP3A	ENSG00000177302	ENST00000583804	retained_intron	KNOWN	None	11992	None	None	18193871	18206404	-1	TOP3	None
17	TOP3A	ENSG00000177302	ENST00000461127	nonsense_mediated_decay	KNOWN	None	11992	420	139	18205918	18218258	-1	TOP3	None
17	TOP3A	ENSG00000177302	ENST00000584669	processed_transcript	KNOWN	None	11992	None	None	18206000	18218244	-1	TOP3	None
17	TOP3A	ENSG00000177302	ENST00000583328	retained_intron	KNOWN	None	11992	None	None	18209864	18218088	-1	TOP3	None
17	TOP3A	ENSG00000177302	ENST00000472959	retained_intron	KNOWN	None	11992	None	None	18209902	18218274	-1	TOP3	None
17	TOP3A	ENSG00000177302	ENST00000585031	nonsense_mediated_decay	KNOWN	None	11992	288	95	18210248	18218288	-1	TOP3	None
17	TOP3A	ENSG00000177302	ENST00000582230	processed_transcript	KNOWN	None	11992	None	None	18210840	18218283	-1	TOP3	None
17	TOP3A	ENSG00000177302	ENST00000584887	processed_transcript	KNOWN	None	11992	None	None	18210846	18218284	-1	TOP3	None
17	TOP3A	ENSG00000177302	ENST00000580713	retained_intron	KNOWN	None	11992	None	None	18211996	18218126	-1	TOP3	None
17	TOP3A	ENSG00000177302	ENST00000542570	protein_coding	KNOWN	None	11992	2721	906	18178038	18218238	-1	TOP3	None
17	TOP3A	ENSG00000177302	ENST00000540524	protein_coding	KNOWN	None	11992	1596	531	18178022	18202921	-1	TOP3	None
17	None	ENSG00000262526	ENST00000570760	nonsense_mediated_decay	KNOWN	None	None	89	28	7143746	7147954	-1	None	None
6	CLPSL2	ENSG00000196748	ENST00000481904	processed_transcript	KNOWN	None	21250	None	None	35744371	35747329	1	C6orf126	dJ510O8.5, UNQ3045
6	CLPSL2	ENSG00000196748	ENST00000360454	protein_coding	KNOWN	None	21250	462	153	35744392	35747329	1	C6orf126	dJ510O8.5, UNQ3045
6	CLPSL2	ENSG00000196748	ENST00000403376	protein_coding	KNOWN	CCDS4810	21250	303	100	35744396	35747329	1	C6orf126	dJ510O8.5, UNQ3045
6	CLPSL2	ENSG00000196748	ENST00000467122	processed_transcript	KNOWN	None	21250	None	None	35744467	35747329	1	C6orf126	dJ510O8.5, UNQ3045
16	CLN3	ENSG00000188603	ENST00000564091	nonsense_mediated_decay	KNOWN	None	2074	406	134	28488600	28493698	-1	BTS	JNCL
16	CLN3	ENSG00000188603	ENST00000569430	protein_coding	KNOWN	CCDS10632	2074	1317	438	28488600	28506855	-1	BTS	JNCL
16	CLN3	ENSG00000188603	ENST00000333496	protein_coding	NOVEL	None	2074	1245	414	28488601	28503363	-1	BTS	JNCL
16	CLN3	ENSG00000188603	ENST00000563874	retained_intron	KNOWN	None	2074	None	None	28488601	28505897	-1	BTS	JNCL
16	CLN3	ENSG00000188603	ENST00000357806	protein_coding	NOVEL	None	2074	1020	339	28488612	28503304	-1	BTS	JNCL
16	CLN3	ENSG00000188603	ENST00000357857	protein_coding	PUTATIVE	None	2074	1155	384	28488650	28503174	-1	BTS	JNCL
16	CLN3	ENSG00000188603	ENST00000567963	protein_coding	NOVEL	None	2074	1026	341	28488650	28503376	-1	BTS	JNCL
16	CLN3	ENSG00000188603	ENST00000395653	protein_coding	PUTATIVE	None	2074	1017	338	28488682	28503344	-1	BTS	JNCL
16	CLN3	ENSG00000188603	ENST00000565354	retained_intron	KNOWN	None	2074	None	None	28488708	28495335	-1	BTS	JNCL
16	CLN3	ENSG00000188603	ENST00000568422	nonsense_mediated_decay	KNOWN	None	2074	399	132	28488804	28503177	-1	BTS	JNCL
16	CLN3	ENSG00000188603	ENST00000566057	nonsense_mediated_decay	KNOWN	None	2074	318	105	28488837	28503080	-1	BTS	JNCL
16	CLN3	ENSG00000188603	ENST00000569030	nonsense_mediated_decay	KNOWN	None	2074	762	253	28488837	28503080	-1	BTS	JNCL
16	CLN3	ENSG00000188603	ENST00000565316	protein_coding	KNOWN	None	2074	1266	421	28488837	28503080	-1	BTS	JNCL
16	CLN3	ENSG00000188603	ENST00000568452	retained_intron	KNOWN	None	2074	None	None	28488837	28503080	-1	BTS	JNCL
16	CLN3	ENSG00000188603	ENST00000568076	retained_intron	KNOWN	None	2074	None	None	28488837	28503080	-1	BTS	JNCL
16	CLN3	ENSG00000188603	ENST00000561689	retained_intron	KNOWN	None	2074	None	None	28488837	28503080	-1	BTS	JNCL
16	CLN3	ENSG00000188603	ENST00000565140	nonsense_mediated_decay	KNOWN	None	2074	546	181	28488837	28503080	-1	BTS	JNCL
16	CLN3	ENSG00000188603	ENST00000568558	protein_coding	PUTATIVE	None	2074	552	183	28493471	28503180	-1	BTS	JNCL
16	CLN3	ENSG00000188603	ENST00000568472	processed_transcript	KNOWN	None	2074	None	None	28493485	28503094	-1	BTS	JNCL
16	CLN3	ENSG00000188603	ENST00000564574	retained_intron	KNOWN	None	2074	None	None	28493499	28503391	-1	BTS	JNCL
16	CLN3	ENSG00000188603	ENST00000568497	nonsense_mediated_decay	KNOWN	None	2074	249	82	28493677	28503179	-1	BTS	JNCL
16	CLN3	ENSG00000188603	ENST00000567495	nonsense_mediated_decay	KNOWN	None	2074	546	181	28493798	28503153	-1	BTS	JNCL
16	CLN3	ENSG00000188603	ENST00000566824	retained_intron	KNOWN	None	2074	None	None	28493824	28503393	-1	BTS	JNCL
16	CLN3	ENSG00000188603	ENST00000566083	retained_intron	KNOWN	None	2074	None	None	28493833	28503158	-1	BTS	JNCL
16	CLN3	ENSG00000188603	ENST00000565778	protein_coding	NOVEL	None	2074	501	166	28493834	28503148	-1	BTS	JNCL
16	CLN3	ENSG00000188603	ENST00000565047	processed_transcript	KNOWN	None	2074	None	None	28493837	28503147	-1	BTS	JNCL
16	CLN3	ENSG00000188603	ENST00000565688	protein_coding	NOVEL	None	2074	530	175	28495338	28503384	-1	BTS	JNCL
16	CLN3	ENSG00000188603	ENST00000561505	protein_coding	PUTATIVE	None	2074	362	119	28497683	28503370	-1	BTS	JNCL
16	CLN3	ENSG00000188603	ENST00000568443	protein_coding	NOVEL	None	2074	527	174	28498983	28503623	-1	BTS	JNCL
16	CLN3	ENSG00000188603	ENST00000567804	protein_coding	KNOWN	None	2074	222	73	28500611	28504094	-1	BTS	JNCL
16	CLN3	ENSG00000188603	ENST00000565236	processed_transcript	KNOWN	None	2074	None	None	28500635	28503363	-1	BTS	JNCL
16	CLN3	ENSG00000188603	ENST00000566040	processed_transcript	KNOWN	None	2074	None	None	28503426	28506896	-1	BTS	JNCL
16	CLN3	ENSG00000188603	ENST00000566472	processed_transcript	KNOWN	None	2074	None	None	28503458	28505307	-1	BTS	JNCL
16	CLN3	ENSG00000188603	ENST00000567160	processed_transcript	KNOWN	None	2074	None	None	28503511	28506866	-1	BTS	JNCL
16	CLN3	ENSG00000188603	ENST00000566816	processed_transcript	KNOWN	None	2074	None	None	28504875	28506877	-1	BTS	JNCL
16	CLN3	ENSG00000188603	ENST00000360019	protein_coding	KNOWN	CCDS10632	2074	1317	438	28488600	28503623	-1	BTS	JNCL
16	CLN3	ENSG00000188603	ENST00000359984	protein_coding	KNOWN	CCDS10632	2074	1317	438	28488600	28503403	-1	BTS	JNCL
16	CLN3	ENSG00000188603	ENST00000354630	protein_coding	KNOWN	None	2074	1266	421	28488601	28503381	-1	BTS	JNCL
16	CLN3	ENSG00000188603	ENST00000355477	protein_coding	KNOWN	None	2074	1173	390	28488601	28503381	-1	BTS	JNCL
16	CLN3	ENSG00000188603	ENST00000535392	protein_coding	KNOWN	None	2074	1083	360	28477983	28503333	-1	BTS	JNCL
16	CLN3	ENSG00000188603	ENST00000357076	protein_coding	KNOWN	None	2074	762	253	28491051	28503381	-1	BTS	JNCL
12	KRT18	ENSG00000111057	ENST00000550600	protein_coding	PUTATIVE	None	6430	1176	391	53342670	53346596	1	None	None
12	KRT18	ENSG00000111057	ENST00000388835	protein_coding	KNOWN	CCDS31809	6430	1293	430	53342748	53346685	1	None	None
12	KRT18	ENSG00000111057	ENST00000549078	retained_intron	KNOWN	None	6430	None	None	53342911	53346656	1	None	None
12	KRT18	ENSG00000111057	ENST00000548015	retained_intron	KNOWN	None	6430	None	None	53343589	53345429	1	None	None
12	KRT18	ENSG00000111057	ENST00000546656	retained_intron	KNOWN	None	6430	None	None	53345280	53346062	1	None	None
12	KRT18	ENSG00000111057	ENST00000548496	retained_intron	KNOWN	None	6430	None	None	53345526	53346599	1	None	None
12	KRT18	ENSG00000111057	ENST00000388837	protein_coding	KNOWN	CCDS31809	6430	1293	430	53342655	53346684	1	None	None
1	ZNF691	ENSG00000164011	ENST00000372508	protein_coding	KNOWN	CCDS476	28028	855	284	43312280	43318148	1	None	Zfp691
1	ZNF691	ENSG00000164011	ENST00000372507	protein_coding	KNOWN	CCDS476	28028	855	284	43312297	43318148	1	None	Zfp691
1	ZNF691	ENSG00000164011	ENST00000372506	protein_coding	KNOWN	CCDS476	28028	855	284	43312299	43318148	1	None	Zfp691
1	ZNF691	ENSG00000164011	ENST00000372504	protein_coding	KNOWN	None	28028	921	306	43312308	43318148	1	None	Zfp691
1	ZNF691	ENSG00000164011	ENST00000397034	protein_coding	KNOWN	None	28028	399	132	43314962	43316935	1	None	Zfp691
1	ZNF691	ENSG00000164011	ENST00000372503	protein_coding	KNOWN	None	28028	889	295	43315226	43317425	1	None	Zfp691
1	ZNF691	ENSG00000164011	ENST00000397044	protein_coding	KNOWN	CCDS55595	28028	948	315	43312307	43317598	1	None	Zfp691
1	ZNF691	ENSG00000164011	ENST00000372502	protein_coding	KNOWN	None	28028	921	306	43316358	43318144	1	None	Zfp691
14	EVL	ENSG00000196405	ENST00000402714	protein_coding	KNOWN	None	20234	1251	416	100437786	100610573	1	None	RNB6
14	EVL	ENSG00000196405	ENST00000544450	protein_coding	PUTATIVE	None	20234	1173	390	100485719	100606454	1	None	RNB6
14	EVL	ENSG00000196405	ENST00000554460	processed_transcript	KNOWN	None	20234	None	None	100485913	100568684	1	None	RNB6
14	EVL	ENSG00000196405	ENST00000392920	protein_coding	KNOWN	CCDS9955	20234	1257	418	100531615	100610573	1	None	RNB6
14	EVL	ENSG00000196405	ENST00000557023	retained_intron	KNOWN	None	20234	None	None	100531754	100551435	1	None	RNB6
14	EVL	ENSG00000196405	ENST00000553771	processed_transcript	KNOWN	None	20234	None	None	100531758	100568762	1	None	RNB6
14	EVL	ENSG00000196405	ENST00000555706	protein_coding	PUTATIVE	None	20234	345	114	100531758	100589907	1	None	RNB6
14	EVL	ENSG00000196405	ENST00000555048	processed_transcript	KNOWN	None	20234	None	None	100531762	100574407	1	None	RNB6
14	EVL	ENSG00000196405	ENST00000553875	nonsense_mediated_decay	KNOWN	None	20234	375	124	100531767	100595058	1	None	RNB6
14	EVL	ENSG00000196405	ENST00000554045	nonsense_mediated_decay	KNOWN	None	20234	366	121	100531769	100610567	1	None	RNB6
14	EVL	ENSG00000196405	ENST00000557637	retained_intron	KNOWN	None	20234	None	None	100531782	100564082	1	None	RNB6
14	EVL	ENSG00000196405	ENST00000557153	protein_coding	PUTATIVE	None	20234	505	167	100532774	100594918	1	None	RNB6
14	EVL	ENSG00000196405	ENST00000556921	processed_transcript	PUTATIVE	None	20234	None	None	100551168	100573050	1	None	RNB6
14	EVL	ENSG00000196405	ENST00000557384	protein_coding	PUTATIVE	None	20234	646	214	100563284	100602305	1	None	RNB6
14	EVL	ENSG00000196405	ENST00000553910	processed_transcript	KNOWN	None	20234	None	None	100580867	100594930	1	None	RNB6
14	EVL	ENSG00000196405	ENST00000554695	protein_coding	NOVEL	None	20234	639	212	100594924	100610555	1	None	RNB6
14	EVL	ENSG00000196405	ENST00000554031	nonsense_mediated_decay	KNOWN	None	20234	314	103	100594958	100608104	1	None	RNB6
14	EVL	ENSG00000196405	ENST00000553799	processed_transcript	PUTATIVE	None	20234	None	None	100601345	100603943	1	None	RNB6
14	EVL	ENSG00000196405	ENST00000554518	retained_intron	KNOWN	None	20234	None	None	100602108	100604336	1	None	RNB6
14	EVL	ENSG00000196405	ENST00000553694	retained_intron	KNOWN	None	20234	None	None	100603443	100610200	1	None	RNB6
14	EVL	ENSG00000196405	ENST00000555999	processed_transcript	PUTATIVE	None	20234	None	None	100604905	100607566	1	None	RNB6
14	EVL	ENSG00000196405	ENST00000555606	processed_transcript	KNOWN	None	20234	None	None	100605149	100610569	1	None	RNB6
14	EVL	ENSG00000196405	ENST00000555848	retained_intron	KNOWN	None	20234	None	None	100606630	100610572	1	None	RNB6
14	EVL	ENSG00000196405	ENST00000556258	retained_intron	KNOWN	None	20234	None	None	100607517	100608572	1	None	RNB6
1	DYRK3	ENSG00000143479	ENST00000367109	protein_coding	KNOWN	CCDS30999	3094	1767	588	206808881	206822538	1	None	RED, REDK, hYAK3-2
1	DYRK3	ENSG00000143479	ENST00000367108	protein_coding	KNOWN	CCDS31000	3094	1707	568	206808924	206822542	1	None	RED, REDK, hYAK3-2
1	DYRK3	ENSG00000143479	ENST00000489878	processed_transcript	KNOWN	None	3094	None	None	206809073	206857764	1	None	RED, REDK, hYAK3-2
1	DYRK3	ENSG00000143479	ENST00000441486	protein_coding	KNOWN	None	3094	731	242	206809119	206821334	1	None	RED, REDK, hYAK3-2
1	DYRK3	ENSG00000143479	ENST00000367106	protein_coding	KNOWN	CCDS31000	3094	1707	568	206809174	206822459	1	None	RED, REDK, hYAK3-2
7	CICP22	ENSG00000226220	ENST00000432801	processed_pseudogene	KNOWN	None	48838	None	None	39836192	39837510	-1	None	None
7	None	ENSG00000237251	ENST00000413879	unprocessed_pseudogene	KNOWN	None	None	None	None	39856148	39907739	1	None	None
7	None	ENSG00000233225	ENST00000395959	processed_pseudogene	KNOWN	None	None	None	None	39873170	39874317	1	None	None
7	None	ENSG00000233225	ENST00000457532	pseudogene	KNOWN	None	None	None	None	39872813	39874544	1	None	None
7	None	ENSG00000231198	ENST00000428627	processed_pseudogene	KNOWN	None	None	None	None	39872885	39873392	-1	None	None
9	CACNA1B	ENSG00000148408	ENST00000277551	protein_coding	NOVEL	CCDS59523	1389	6714	2237	140772241	141016631	1	CACNL1A5	Cav2.2, CACNN
9	CACNA1B	ENSG00000148408	ENST00000371372	protein_coding	KNOWN	CCDS59522	1389	7020	2339	140772241	141019076	1	CACNL1A5	Cav2.2, CACNN
9	CACNA1B	ENSG00000148408	ENST00000371363	protein_coding	NOVEL	None	1389	7014	2337	140772267	141019076	1	CACNL1A5	Cav2.2, CACNN
9	CACNA1B	ENSG00000148408	ENST00000371357	protein_coding	NOVEL	None	1389	7017	2338	140772386	141019076	1	CACNL1A5	Cav2.2, CACNN
9	CACNA1B	ENSG00000148408	ENST00000413253	protein_coding	PUTATIVE	None	1389	492	163	140970321	141000230	1	CACNL1A5	Cav2.2, CACNN
9	CACNA1B	ENSG00000148408	ENST00000371355	protein_coding	KNOWN	None	1389	7023	2340	140772386	141019076	1	CACNL1A5	Cav2.2, CACNN
9	CACNA1B	ENSG00000148408	ENST00000277550	protein_coding	KNOWN	None	1389	303	100	140904497	140917562	1	CACNL1A5	Cav2.2, CACNN
9	CACNA1B	ENSG00000148408	ENST00000277549	protein_coding	KNOWN	None	1389	4602	1533	140772241	141019076	1	CACNL1A5	Cav2.2, CACNN
9	CACNA1B	ENSG00000148408	ENST00000545473	protein_coding	KNOWN	None	1389	561	186	140918244	140943749	1	CACNL1A5	Cav2.2, CACNN
9	CACNA1B	ENSG00000148408	ENST00000371367	protein_coding	KNOWN	None	1389	327	108	140918123	140927222	1	CACNL1A5	Cav2.2, CACNN
9	CACNA1B	ENSG00000148408	ENST00000371365	protein_coding	KNOWN	None	1389	492	163	140970277	141006967	1	CACNL1A5	Cav2.2, CACNN
7	RWDD4P2	ENSG00000175741	ENST00000426392	processed_pseudogene	KNOWN	None	23754	None	None	39894093	39894655	-1	FAM28CP	None
7	RWDD4P2	ENSG00000175741	ENST00000412688	pseudogene	KNOWN	None	23754	None	None	39894093	39894655	-1	FAM28CP	None
X	EDA2R	ENSG00000131080	ENST00000374719	protein_coding	KNOWN	CCDS14386	17756	894	297	65815479	65858883	-1	None	XEDAR, EDA-A2R, EDAA2R, TNFRSF27
X	EDA2R	ENSG00000131080	ENST00000253392	protein_coding	KNOWN	CCDS56603	17756	957	318	65819326	65835862	-1	None	XEDAR, EDA-A2R, EDAA2R, TNFRSF27
X	EDA2R	ENSG00000131080	ENST00000396050	protein_coding	KNOWN	CCDS14386	17756	894	297	65815484	65835873	-1	None	XEDAR, EDA-A2R, EDAA2R, TNFRSF27
X	EDA2R	ENSG00000131080	ENST00000456230	protein_coding	KNOWN	CCDS14386	17756	894	297	65819326	65859108	-1	None	XEDAR, EDA-A2R, EDAA2R, TNFRSF27
X	EDA2R	ENSG00000131080	ENST00000450752	protein_coding	KNOWN	CCDS56603	17756	957	318	65819326	65858883	-1	None	XEDAR, EDA-A2R, EDAA2R, TNFRSF27
X	EDA2R	ENSG00000131080	ENST00000451436	protein_coding	KNOWN	None	17756	522	173	65817620	65858892	-1	None	XEDAR, EDA-A2R, EDAA2R, TNFRSF27
1	SF3B4	ENSG00000143368	ENST00000271628	protein_coding	KNOWN	CCDS941	10771	1275	424	149895209	149900236	-1	None	SAP49, SF3b49, Hsh49
1	SF3B4	ENSG00000143368	ENST00000457312	protein_coding	KNOWN	None	10771	571	189	149898274	149899483	-1	None	SAP49, SF3b49, Hsh49
7	RN7SL496P	ENSG00000242855	ENST00000470372	misc_RNA	KNOWN	None	46512	None	None	39927972	39928261	1	None	None
9	NOL6	ENSG00000165271	ENST00000353159	protein_coding	KNOWN	CCDS6544	19910	2100	699	33461439	33473928	-1	None	bA311H10.1, Nrap, FLJ21959, MGC14896, MGC14921, MGC20838, UTP22
9	NOL6	ENSG00000165271	ENST00000379470	protein_coding	KNOWN	None	19910	603	200	33461450	33465192	-1	None	bA311H10.1, Nrap, FLJ21959, MGC14896, MGC14921, MGC20838, UTP22
9	NOL6	ENSG00000165271	ENST00000297990	protein_coding	KNOWN	CCDS6543	19910	3441	1146	33461450	33473928	-1	None	bA311H10.1, Nrap, FLJ21959, MGC14896, MGC14921, MGC20838, UTP22
9	NOL6	ENSG00000165271	ENST00000379471	protein_coding	NOVEL	None	19910	3024	1007	33461450	33473928	-1	None	bA311H10.1, Nrap, FLJ21959, MGC14896, MGC14921, MGC20838, UTP22
9	NOL6	ENSG00000165271	ENST00000464829	processed_transcript	KNOWN	None	19910	None	None	33462112	33473900	-1	None	bA311H10.1, Nrap, FLJ21959, MGC14896, MGC14921, MGC20838, UTP22
9	NOL6	ENSG00000165271	ENST00000496319	processed_transcript	KNOWN	None	19910	None	None	33470414	33472679	-1	None	bA311H10.1, Nrap, FLJ21959, MGC14896, MGC14921, MGC20838, UTP22
9	NOL6	ENSG00000165271	ENST00000455041	protein_coding	KNOWN	None	19910	3285	1094	33462595	33473900	-1	None	bA311H10.1, Nrap, FLJ21959, MGC14896, MGC14921, MGC20838, UTP22
7	None	ENSG00000259826	ENST00000569710	antisense	KNOWN	None	None	None	None	39987121	39989354	-1	None	None
6	PDCD2	ENSG00000071994	ENST00000541970	protein_coding	KNOWN	CCDS5316	8762	1035	344	170884383	170893748	-1	None	ZMYND7, RP8
6	PDCD2	ENSG00000071994	ENST00000543284	retained_intron	KNOWN	None	8762	None	None	170884416	170888809	-1	None	ZMYND7, RP8
6	PDCD2	ENSG00000071994	ENST00000167218	nonsense_mediated_decay	KNOWN	None	8762	666	221	170886524	170893733	-1	None	ZMYND7, RP8
6	PDCD2	ENSG00000071994	ENST00000392090	protein_coding	NOVEL	CCDS56461	8762	936	311	170886647	170893669	-1	None	ZMYND7, RP8
6	PDCD2	ENSG00000071994	ENST00000545869	nonsense_mediated_decay	KNOWN	None	8762	300	99	170886682	170893693	-1	None	ZMYND7, RP8
6	PDCD2	ENSG00000071994	ENST00000542896	protein_coding	PUTATIVE	None	8762	897	298	170887570	170893700	-1	None	ZMYND7, RP8
6	PDCD2	ENSG00000071994	ENST00000544866	nonsense_mediated_decay	KNOWN	None	8762	108	35	170887595	170893477	-1	None	ZMYND7, RP8
6	PDCD2	ENSG00000071994	ENST00000539212	nonsense_mediated_decay	KNOWN	None	8762	123	40	170887971	170893492	-1	None	ZMYND7, RP8
6	PDCD2	ENSG00000071994	ENST00000538195	protein_coding	PUTATIVE	None	8762	65	20	170889181	170893314	-1	None	ZMYND7, RP8
6	PDCD2	ENSG00000071994	ENST00000453163	protein_coding	KNOWN	CCDS47521	8762	687	228	170890177	170893700	-1	None	ZMYND7, RP8
6	PDCD2	ENSG00000071994	ENST00000537445	protein_coding	PUTATIVE	CCDS56462	8762	567	188	170890833	170893703	-1	None	ZMYND7, RP8
6	PDCD2	ENSG00000071994	ENST00000544336	nonsense_mediated_decay	KNOWN	None	8762	300	99	170890835	170893780	-1	None	ZMYND7, RP8
6	PDCD2	ENSG00000071994	ENST00000443345	protein_coding	NOVEL	CCDS56460	8762	588	195	170890880	170893742	-1	None	ZMYND7, RP8
6	PDCD2	ENSG00000071994	ENST00000544755	nonsense_mediated_decay	KNOWN	None	8762	140	45	170891937	170893509	-1	None	ZMYND7, RP8
3	HRG	ENSG00000113905	ENST00000468154	processed_transcript	PUTATIVE	None	5181	None	None	186378005	186383970	1	None	HRGP, HPRG
3	HRG	ENSG00000113905	ENST00000232003	protein_coding	KNOWN	CCDS3280	5181	1578	525	186383741	186396029	1	None	HRGP, HPRG
3	HRG	ENSG00000113905	ENST00000495413	retained_intron	KNOWN	None	5181	None	None	186386767	186396020	1	None	HRGP, HPRG
19	None	ENSG00000204752	ENST00000377296	protein_coding	KNOWN	None	None	246	81	7011514	7013338	1	None	None
1	SLC2A1	ENSG00000117394	ENST00000426263	protein_coding	KNOWN	CCDS477	11005	1479	492	43391052	43424501	-1	GLUT1, GLUT, HTLVR	DYT18
1	SLC2A1	ENSG00000117394	ENST00000475162	processed_transcript	KNOWN	None	11005	None	None	43392467	43396877	-1	GLUT1, GLUT, HTLVR	DYT18
1	SLC2A1	ENSG00000117394	ENST00000439722	protein_coding	KNOWN	None	11005	749	248	43394819	43396796	-1	GLUT1, GLUT, HTLVR	DYT18
1	SLC2A1	ENSG00000117394	ENST00000415851	protein_coding	KNOWN	None	11005	363	120	43395018	43424500	-1	GLUT1, GLUT, HTLVR	DYT18
1	SLC2A1	ENSG00000117394	ENST00000372500	protein_coding	KNOWN	None	11005	705	234	43395990	43424530	-1	GLUT1, GLUT, HTLVR	DYT18
1	SLC2A1	ENSG00000117394	ENST00000460369	processed_transcript	KNOWN	None	11005	None	None	43417361	43424530	-1	GLUT1, GLUT, HTLVR	DYT18
19	MBD3L5	ENSG00000237247	ENST00000329753	protein_coding	KNOWN	CCDS45942	37204	627	208	7030589	7033022	1	None	None
1	MAPKAPK2	ENSG00000162889	ENST00000294981	protein_coding	KNOWN	CCDS1466	6887	1113	370	206858289	206906208	1	None	None
1	MAPKAPK2	ENSG00000162889	ENST00000367103	protein_coding	KNOWN	CCDS31001	6887	1203	400	206858382	206907628	1	None	None
1	MAPKAPK2	ENSG00000162889	ENST00000493447	processed_transcript	PUTATIVE	None	6887	None	None	206902279	206902815	1	None	None
1	MAPKAPK2	ENSG00000162889	ENST00000479009	processed_transcript	PUTATIVE	None	6887	None	None	206904633	206905461	1	None	None
7	None	ENSG00000270577	ENST00000603944	processed_pseudogene	KNOWN	None	None	None	None	40155284	40155542	1	None	None
19	MBD3L4	ENSG00000205718	ENST00000381394	protein_coding	KNOWN	CCDS54205	37206	627	208	7037759	7040190	-1	None	None
7	None	ENSG00000199273	ENST00000362403	misc_RNA	KNOWN	None	None	None	None	40167720	40167831	-1	None	None
7	None	ENSG00000248711	ENST00000506556	unprocessed_pseudogene	KNOWN	None	None	None	None	40191212	40193750	1	None	None
2	SP9	ENSG00000217236	ENST00000394967	protein_coding	NOVEL	CCDS46453	30690	1455	484	175199674	175203220	1	None	ZNF990
12	OR6C4	ENSG00000179626	ENST00000394256	protein_coding	KNOWN	CCDS31827	19632	930	309	55944983	55946028	1	None	None
7	None	ENSG00000203446	ENST00000415237	antisense	KNOWN	None	None	None	None	40577726	40586527	-1	None	None
19	MBD3L2	ENSG00000230522	ENST00000381393	protein_coding	KNOWN	CCDS42483	18532	627	208	7049332	7051746	1	None	None
7	None	ENSG00000227658	ENST00000432405	sense_intronic	KNOWN	None	None	None	None	40815157	40824816	1	None	None
5	None	ENSG00000250576	ENST00000503953	lincRNA	KNOWN	None	None	None	None	10775170	10777174	-1	None	None
3	THRB	ENSG00000151090	ENST00000356447	protein_coding	KNOWN	CCDS2641	11799	1386	461	24159705	24536313	-1	ERBA2, PRTH	THRB1, THRB2, NR1A2, THR1, ERBA-BETA, GRTH
3	THRB	ENSG00000151090	ENST00000416420	protein_coding	KNOWN	CCDS2641	11799	1386	461	24163699	24536302	-1	ERBA2, PRTH	THRB1, THRB2, NR1A2, THR1, ERBA-BETA, GRTH
3	THRB	ENSG00000151090	ENST00000280696	protein_coding	PUTATIVE	None	11799	1431	476	24164329	24207086	-1	ERBA2, PRTH	THRB1, THRB2, NR1A2, THR1, ERBA-BETA, GRTH
3	THRB	ENSG00000151090	ENST00000413780	protein_coding	PUTATIVE	None	11799	396	131	24188209	24536496	-1	ERBA2, PRTH	THRB1, THRB2, NR1A2, THR1, ERBA-BETA, GRTH
3	THRB	ENSG00000151090	ENST00000415021	protein_coding	NOVEL	None	11799	366	121	24193899	24536222	-1	ERBA2, PRTH	THRB1, THRB2, NR1A2, THR1, ERBA-BETA, GRTH
3	THRB	ENSG00000151090	ENST00000447875	protein_coding	NOVEL	None	11799	366	121	24193899	24536242	-1	ERBA2, PRTH	THRB1, THRB2, NR1A2, THR1, ERBA-BETA, GRTH
3	THRB	ENSG00000151090	ENST00000453729	protein_coding	KNOWN	None	11799	364	120	24193901	24536453	-1	ERBA2, PRTH	THRB1, THRB2, NR1A2, THR1, ERBA-BETA, GRTH
3	THRB	ENSG00000151090	ENST00000431815	protein_coding	NOVEL	None	11799	343	113	24193922	24536288	-1	ERBA2, PRTH	THRB1, THRB2, NR1A2, THR1, ERBA-BETA, GRTH
3	THRB	ENSG00000151090	ENST00000447414	protein_coding	NOVEL	None	11799	311	102	24193954	24536773	-1	ERBA2, PRTH	THRB1, THRB2, NR1A2, THR1, ERBA-BETA, GRTH
3	THRB	ENSG00000151090	ENST00000428492	protein_coding	NOVEL	None	11799	203	66	24231645	24536262	-1	ERBA2, PRTH	THRB1, THRB2, NR1A2, THR1, ERBA-BETA, GRTH
3	THRB	ENSG00000151090	ENST00000418247	protein_coding	NOVEL	None	11799	189	62	24231659	24536294	-1	ERBA2, PRTH	THRB1, THRB2, NR1A2, THR1, ERBA-BETA, GRTH
3	THRB	ENSG00000151090	ENST00000396671	protein_coding	KNOWN	CCDS2641	11799	1386	461	24158651	24536266	-1	ERBA2, PRTH	THRB1, THRB2, NR1A2, THR1, ERBA-BETA, GRTH
20	CTCFL	ENSG00000124092	ENST00000243914	protein_coding	KNOWN	CCDS13459	16234	1992	663	56072224	56100265	-1	None	dJ579F20.2, BORIS, CT27
20	CTCFL	ENSG00000124092	ENST00000371196	protein_coding	KNOWN	CCDS13459	16234	1992	663	56072224	56100635	-1	None	dJ579F20.2, BORIS, CT27
20	CTCFL	ENSG00000124092	ENST00000481655	processed_transcript	KNOWN	None	16234	None	None	56093554	56094433	-1	None	dJ579F20.2, BORIS, CT27
20	CTCFL	ENSG00000124092	ENST00000423479	protein_coding	KNOWN	CCDS58780	16234	2103	700	56071021	56100163	-1	None	dJ579F20.2, BORIS, CT27
20	CTCFL	ENSG00000124092	ENST00000429804	protein_coding	KNOWN	CCDS58779	16234	1842	613	56072224	56100633	-1	None	dJ579F20.2, BORIS, CT27
20	CTCFL	ENSG00000124092	ENST00000433949	protein_coding	KNOWN	CCDS58781	16234	1998	665	56074610	56099923	-1	None	dJ579F20.2, BORIS, CT27
20	CTCFL	ENSG00000124092	ENST00000502686	protein_coding	KNOWN	CCDS58776	16234	1212	403	56074610	56100163	-1	None	dJ579F20.2, BORIS, CT27
20	CTCFL	ENSG00000124092	ENST00000422109	protein_coding	KNOWN	None	16234	1284	427	56074610	56099923	-1	None	dJ579F20.2, BORIS, CT27
20	CTCFL	ENSG00000124092	ENST00000432255	protein_coding	KNOWN	CCDS58778	16234	1452	483	56081798	56099923	-1	None	dJ579F20.2, BORIS, CT27
20	CTCFL	ENSG00000124092	ENST00000539382	protein_coding	KNOWN	CCDS58777	16234	1269	422	56081798	56100163	-1	None	dJ579F20.2, BORIS, CT27
20	CTCFL	ENSG00000124092	ENST00000422869	protein_coding	KNOWN	CCDS58782	16234	1722	573	56081798	56100708	-1	None	dJ579F20.2, BORIS, CT27
20	CTCFL	ENSG00000124092	ENST00000426658	protein_coding	KNOWN	None	16234	1356	451	56074610	56099923	-1	None	dJ579F20.2, BORIS, CT27
7	None	ENSG00000232458	ENST00000443406	lincRNA	KNOWN	None	None	None	None	41004266	41019537	-1	None	None
2	None	ENSG00000268241	ENST00000595354	protein_coding	KNOWN	None	None	1551	516	175200601	175202151	-1	None	None
17	CTDNEP1	ENSG00000175826	ENST00000570828	protein_coding	PUTATIVE	None	19085	626	207	7146910	7150658	-1	DULLARD	HSA011916, NET56
17	CTDNEP1	ENSG00000175826	ENST00000574322	protein_coding	KNOWN	CCDS11093	19085	735	244	7146910	7154994	-1	DULLARD	HSA011916, NET56
17	CTDNEP1	ENSG00000175826	ENST00000573600	protein_coding	KNOWN	CCDS11093	19085	735	244	7146937	7155400	-1	DULLARD	HSA011916, NET56
17	CTDNEP1	ENSG00000175826	ENST00000574205	nonsense_mediated_decay	KNOWN	CCDS11093	19085	735	244	7146969	7155001	-1	DULLARD	HSA011916, NET56
17	CTDNEP1	ENSG00000175826	ENST00000318988	protein_coding	KNOWN	CCDS11093	19085	735	244	7147158	7155280	-1	DULLARD	HSA011916, NET56
17	CTDNEP1	ENSG00000175826	ENST00000572043	protein_coding	PUTATIVE	None	19085	336	111	7147358	7155810	-1	DULLARD	HSA011916, NET56
17	CTDNEP1	ENSG00000175826	ENST00000570484	retained_intron	KNOWN	None	19085	None	None	7147460	7148157	-1	DULLARD	HSA011916, NET56
17	CTDNEP1	ENSG00000175826	ENST00000576613	protein_coding	NOVEL	None	19085	606	201	7147551	7154605	-1	DULLARD	HSA011916, NET56
17	CTDNEP1	ENSG00000175826	ENST00000575783	protein_coding	KNOWN	None	19085	670	222	7147874	7155373	-1	DULLARD	HSA011916, NET56
17	CTDNEP1	ENSG00000175826	ENST00000570385	retained_intron	KNOWN	None	19085	None	None	7149353	7149997	-1	DULLARD	HSA011916, NET56
17	CTDNEP1	ENSG00000175826	ENST00000570380	nonsense_mediated_decay	KNOWN	None	19085	204	67	7149573	7154649	-1	DULLARD	HSA011916, NET56
17	CTDNEP1	ENSG00000175826	ENST00000571409	protein_coding	KNOWN	None	19085	375	124	7149675	7155793	-1	DULLARD	HSA011916, NET56
12	OR2AP1	ENSG00000179615	ENST00000321688	protein_coding	KNOWN	CCDS58241	15335	930	309	55968199	55969128	1	OR2AP1P	None
5	RNU6-429P	ENSG00000207312	ENST00000384582	snRNA	KNOWN	None	47392	None	None	11027312	11027419	1	None	None
5	RNU6-679P	ENSG00000212305	ENST00000391003	snRNA	KNOWN	None	47642	None	None	12297511	12297616	-1	None	None
5	None	ENSG00000248783	ENST00000502209	lincRNA	KNOWN	None	None	None	None	12554002	12574749	-1	None	None
14	NKX2-1	ENSG00000136352	ENST00000354822	protein_coding	KNOWN	CCDS41945	11825	1206	401	36985602	36989433	-1	NKX2A, BCH, TITF1	TTF-1, TTF1
14	NKX2-1	ENSG00000136352	ENST00000498187	protein_coding	KNOWN	CCDS9659	11825	1116	371	36985605	36988898	-1	NKX2A, BCH, TITF1	TTF-1, TTF1
14	NKX2-1	ENSG00000136352	ENST00000518149	protein_coding	KNOWN	CCDS9659	11825	1116	371	36985622	36990354	-1	NKX2A, BCH, TITF1	TTF-1, TTF1
14	NKX2-1	ENSG00000136352	ENST00000522719	protein_coding	KNOWN	CCDS9659	11825	1116	371	36986422	36989339	-1	NKX2A, BCH, TITF1	TTF-1, TTF1
14	NKX2-1	ENSG00000136352	ENST00000546983	protein_coding	KNOWN	None	11825	103	33	36988792	36990154	-1	NKX2A, BCH, TITF1	TTF-1, TTF1
7	None	ENSG00000224017	ENST00000440213	lincRNA	KNOWN	None	None	None	None	41141202	41173105	1	None	None
10	DNTT	ENSG00000107447	ENST00000371174	protein_coding	KNOWN	CCDS7447	2983	1530	509	98064153	98098321	1	None	TDT
10	DNTT	ENSG00000107447	ENST00000419175	protein_coding	KNOWN	CCDS44465	2983	1527	508	98064085	98098300	1	None	TDT
6	RFX6	ENSG00000185002	ENST00000487683	retained_intron	KNOWN	None	21478	None	None	117198375	117244691	1	RFXDC1	MGC33442, dJ955L16.1
6	RFX6	ENSG00000185002	ENST00000332958	protein_coding	KNOWN	CCDS5113	21478	2787	928	117198423	117253326	1	RFXDC1	MGC33442, dJ955L16.1
6	RFX6	ENSG00000185002	ENST00000471966	processed_transcript	KNOWN	None	21478	None	None	117205952	117239273	1	RFXDC1	MGC33442, dJ955L16.1
14	NKX2-8	ENSG00000136327	ENST00000258829	protein_coding	KNOWN	CCDS9660	16364	720	239	37049784	37051812	-1	NKX2H	NKX2.8, Nkx2-9
1	IL10	ENSG00000136634	ENST00000423557	protein_coding	KNOWN	CCDS1467	5962	537	178	206940947	206945839	-1	None	CSIF, TGIF, IL10A, IL-10
1	IL10	ENSG00000136634	ENST00000471071	processed_transcript	KNOWN	None	5962	None	None	206942040	206944544	-1	None	CSIF, TGIF, IL10A, IL-10
1	IL10	ENSG00000136634	ENST00000367099	retained_intron	KNOWN	None	5962	None	None	206942966	206944534	-1	None	CSIF, TGIF, IL10A, IL-10
2	CIR1	ENSG00000138433	ENST00000342016	protein_coding	KNOWN	CCDS2256	24217	1353	450	175212750	175260443	-1	None	CIR
2	CIR1	ENSG00000138433	ENST00000464393	retained_intron	KNOWN	None	24217	None	None	175213863	175216691	-1	None	CIR
2	CIR1	ENSG00000138433	ENST00000377973	protein_coding	PUTATIVE	None	24217	289	95	175222901	175245408	-1	None	CIR
2	CIR1	ENSG00000138433	ENST00000461454	retained_intron	KNOWN	None	24217	None	None	175243415	175260434	-1	None	CIR
2	CIR1	ENSG00000138433	ENST00000472169	retained_intron	KNOWN	None	24217	None	None	175251991	175260437	-1	None	CIR
2	CIR1	ENSG00000138433	ENST00000362053	protein_coding	KNOWN	None	24217	609	202	175212880	175260443	-1	None	CIR
5	IL31RA	ENSG00000164509	ENST00000396836	protein_coding	KNOWN	None	18969	1749	582	55147207	55204972	1	None	CRL3, GLM-R, CRL, Glmr, IL-31RA
5	IL31RA	ENSG00000164509	ENST00000396834	protein_coding	KNOWN	CCDS56366	18969	1989	662	55147324	55218678	1	None	CRL3, GLM-R, CRL, Glmr, IL-31RA
5	IL31RA	ENSG00000164509	ENST00000447346	protein_coding	KNOWN	CCDS3970	18969	2295	764	55147334	55213165	1	None	CRL3, GLM-R, CRL, Glmr, IL-31RA
5	IL31RA	ENSG00000164509	ENST00000359040	protein_coding	KNOWN	CCDS56365	18969	2046	681	55147334	55218678	1	None	CRL3, GLM-R, CRL, Glmr, IL-31RA
5	IL31RA	ENSG00000164509	ENST00000490985	protein_coding	KNOWN	CCDS56367	18969	1869	622	55149358	55212948	1	None	CRL3, GLM-R, CRL, Glmr, IL-31RA
5	IL31RA	ENSG00000164509	ENST00000354961	protein_coding	KNOWN	CCDS56366	18969	1989	662	55149358	55218260	1	None	CRL3, GLM-R, CRL, Glmr, IL-31RA
5	IL31RA	ENSG00000164509	ENST00000297015	protein_coding	KNOWN	None	18969	1323	440	55149150	55204885	1	None	CRL3, GLM-R, CRL, Glmr, IL-31RA
1	FAM183A	ENSG00000186973	ENST00000410048	protein_coding	PUTATIVE	None	34347	321	106	43610824	43622067	1	None	LOC440585, hCG23177
1	FAM183A	ENSG00000186973	ENST00000409337	processed_transcript	KNOWN	None	34347	None	None	43613538	43622067	1	None	LOC440585, hCG23177
1	FAM183A	ENSG00000186973	ENST00000410025	nonsense_mediated_decay	KNOWN	None	34347	177	58	43613588	43622067	1	None	LOC440585, hCG23177
1	FAM183A	ENSG00000186973	ENST00000409396	protein_coding	NOVEL	None	34347	419	138	43613594	43621950	1	None	LOC440585, hCG23177
1	FAM183A	ENSG00000186973	ENST00000335282	protein_coding	NOVEL	CCDS44126	34347	405	134	43613623	43622067	1	None	LOC440585, hCG23177
1	FAM183A	ENSG00000186973	ENST00000481753	retained_intron	KNOWN	None	34347	None	None	43618429	43622067	1	None	LOC440585, hCG23177
11	KCTD21	ENSG00000188997	ENST00000340067	protein_coding	KNOWN	CCDS31645	27452	783	260	77882295	77899868	-1	None	KCASH2
11	KCTD21	ENSG00000188997	ENST00000526208	protein_coding	KNOWN	None	27452	496	164	77885105	77899634	-1	None	KCASH2
11	KCTD21	ENSG00000188997	ENST00000525447	protein_coding	KNOWN	None	27452	421	139	77885180	77887348	-1	None	KCASH2
11	KCTD21	ENSG00000188997	ENST00000529350	protein_coding	KNOWN	None	27452	347	114	77885254	77899664	-1	None	KCASH2
11	KCTD21	ENSG00000188997	ENST00000530018	protein_coding	KNOWN	None	27452	215	70	77885370	77899670	-1	None	KCASH2
11	KCTD21	ENSG00000188997	ENST00000528776	protein_coding	KNOWN	None	27452	112	36	77885489	77899670	-1	None	KCASH2
12	OR10P1	ENSG00000175398	ENST00000309675	protein_coding	KNOWN	CCDS31828	15378	942	313	56030644	56031638	1	OR10P1P, OR10P2P, OR10P3P	OST701
19	MBD3L3	ENSG00000182315	ENST00000333843	protein_coding	KNOWN	CCDS45944	37205	627	208	7056220	7058651	-1	None	None
3	KNG1	ENSG00000113889	ENST00000287611	protein_coding	KNOWN	CCDS3281	6383	1284	427	186435065	186461743	1	KNG, BDK	BK
3	KNG1	ENSG00000113889	ENST00000265023	protein_coding	KNOWN	CCDS43183	6383	1935	644	186435120	186461408	1	KNG, BDK	BK
3	KNG1	ENSG00000113889	ENST00000447445	protein_coding	KNOWN	CCDS54695	6383	1176	391	186435137	186461594	1	KNG, BDK	BK
5	CT49	ENSG00000248131	ENST00000505877	lincRNA	KNOWN	None	37171	None	None	12574969	12655799	1	None	TAG
5	CT49	ENSG00000248131	ENST00000513051	lincRNA	KNOWN	None	37171	None	None	12574969	12759760	1	None	TAG
5	CT49	ENSG00000248131	ENST00000505196	lincRNA	KNOWN	None	37171	None	None	12574969	12804475	1	None	TAG
1	IL19	ENSG00000142224	ENST00000340758	protein_coding	KNOWN	CCDS1468	5990	648	215	206972215	207016324	1	None	IL-19, MDA1, ZMDA1, IL-10C, NG.1
1	IL19	ENSG00000142224	ENST00000270218	protein_coding	KNOWN	CCDS1469	5990	534	177	207002222	207015967	1	None	IL-19, MDA1, ZMDA1, IL-10C, NG.1
1	IL19	ENSG00000142224	ENST00000476097	retained_intron	KNOWN	None	5990	None	None	207010008	207013959	1	None	IL-19, MDA1, ZMDA1, IL-10C, NG.1
9	GNAQ	ENSG00000156052	ENST00000286548	protein_coding	KNOWN	CCDS6658	4390	1080	359	80331003	80646374	-1	None	G-ALPHA-q, GAQ
9	GNAQ	ENSG00000156052	ENST00000411677	protein_coding	KNOWN	None	4390	510	169	80412444	80645520	-1	None	G-ALPHA-q, GAQ
9	GNAQ	ENSG00000156052	ENST00000397476	protein_coding	KNOWN	None	4390	474	157	80335834	80437915	-1	None	G-ALPHA-q, GAQ
4	C4orf27	ENSG00000056050	ENST00000393381	protein_coding	KNOWN	CCDS3813	26051	1041	346	170650616	170679104	-1	None	FLJ20534
4	C4orf27	ENSG00000056050	ENST00000515204	retained_intron	KNOWN	None	26051	None	None	170650628	170653169	-1	None	FLJ20534
4	C4orf27	ENSG00000056050	ENST00000506125	retained_intron	KNOWN	None	26051	None	None	170671623	170679055	-1	None	FLJ20534
12	METTL7B	ENSG00000170439	ENST00000394252	protein_coding	KNOWN	CCDS8887	28276	735	244	56075330	56078395	1	None	MGC17301, ALDI
9	EGFL7	ENSG00000172889	ENST00000371699	protein_coding	KNOWN	CCDS7002	20594	822	273	139553308	139567130	1	None	ZNEU1
9	EGFL7	ENSG00000172889	ENST00000406555	protein_coding	KNOWN	CCDS7002	20594	822	273	139557382	139567130	1	None	ZNEU1
9	EGFL7	ENSG00000172889	ENST00000492862	protein_coding	PUTATIVE	None	20594	197	64	139557384	139563125	1	None	ZNEU1
9	EGFL7	ENSG00000172889	ENST00000490469	processed_transcript	KNOWN	None	20594	None	None	139557385	139564126	1	None	ZNEU1
9	EGFL7	ENSG00000172889	ENST00000492002	processed_transcript	KNOWN	None	20594	None	None	139560240	139566445	1	None	ZNEU1
9	EGFL7	ENSG00000172889	ENST00000371698	protein_coding	KNOWN	CCDS7002	20594	822	273	139560244	139567130	1	None	ZNEU1
9	EGFL7	ENSG00000172889	ENST00000308874	protein_coding	KNOWN	CCDS7002	20594	822	273	139557377	139567129	1	None	ZNEU1
19	ZNF813	ENSG00000198346	ENST00000468450	protein_coding	PUTATIVE	None	33257	375	124	53970989	53994020	1	None	FLJ16542
19	ZNF813	ENSG00000198346	ENST00000396403	protein_coding	KNOWN	CCDS46172	33257	1854	617	53970989	53999509	1	None	FLJ16542
19	ZNF813	ENSG00000198346	ENST00000490956	protein_coding	NOVEL	None	33257	439	145	53970997	53993832	1	None	FLJ16542
19	ZNF813	ENSG00000198346	ENST00000396421	protein_coding	KNOWN	None	33257	183	60	53971000	54006950	1	None	FLJ16542
1	EBNA1BP2	ENSG00000117395	ENST00000236051	protein_coding	KNOWN	CCDS478	15531	921	306	43629855	43637931	-1	None	NOBP, EBP2, P40
1	EBNA1BP2	ENSG00000117395	ENST00000463906	processed_transcript	KNOWN	None	15531	None	None	43630017	43636792	-1	None	NOBP, EBP2, P40
1	EBNA1BP2	ENSG00000117395	ENST00000491223	processed_transcript	KNOWN	None	15531	None	None	43636489	43638222	-1	None	NOBP, EBP2, P40
1	EBNA1BP2	ENSG00000117395	ENST00000472982	processed_transcript	KNOWN	None	15531	None	None	43636615	43637939	-1	None	NOBP, EBP2, P40
1	EBNA1BP2	ENSG00000117395	ENST00000483082	processed_transcript	KNOWN	None	15531	None	None	43637112	43637953	-1	None	NOBP, EBP2, P40
1	EBNA1BP2	ENSG00000117395	ENST00000461557	processed_transcript	KNOWN	None	15531	None	None	43637281	43736607	-1	None	NOBP, EBP2, P40
1	EBNA1BP2	ENSG00000117395	ENST00000466927	processed_transcript	KNOWN	None	15531	None	None	43647353	43727581	-1	None	NOBP, EBP2, P40
1	EBNA1BP2	ENSG00000117395	ENST00000474566	processed_transcript	KNOWN	None	15531	None	None	43660355	43716062	-1	None	NOBP, EBP2, P40
1	EBNA1BP2	ENSG00000117395	ENST00000431635	protein_coding	KNOWN	CCDS53308	15531	1086	361	43629846	43638241	-1	None	NOBP, EBP2, P40
15	C15orf59	ENSG00000205363	ENST00000569673	protein_coding	KNOWN	CCDS32289	33753	882	293	74032141	74045088	-1	None	MGC131524, LOC388135
15	C15orf59	ENSG00000205363	ENST00000558834	processed_transcript	KNOWN	None	33753	None	None	74032268	74032956	-1	None	MGC131524, LOC388135
15	C15orf59	ENSG00000205363	ENST00000559817	protein_coding	PUTATIVE	None	33753	459	152	74032597	74044719	-1	None	MGC131524, LOC388135
15	C15orf59	ENSG00000205363	ENST00000379822	protein_coding	KNOWN	CCDS32289	33753	882	293	74032152	74043816	-1	None	MGC131524, LOC388135
1	IL20	ENSG00000162891	ENST00000367098	protein_coding	KNOWN	CCDS1470	6002	531	176	207038699	207042568	1	None	ZCYTO10, IL10D, IL-20
1	IL20	ENSG00000162891	ENST00000367096	protein_coding	KNOWN	CCDS1470	6002	531	176	207039154	207042259	1	None	ZCYTO10, IL10D, IL-20
1	IL20	ENSG00000162891	ENST00000391930	protein_coding	KNOWN	None	6002	456	151	207039198	207041909	1	None	ZCYTO10, IL10D, IL-20
X	AR	ENSG00000169083	ENST00000374690	protein_coding	KNOWN	CCDS14387	644	2763	920	66764465	66950461	1	DHTR, SBMA	AIS, NR3C4, SMAX1, HUMARA
X	AR	ENSG00000169083	ENST00000513847	processed_transcript	KNOWN	None	644	None	None	66764662	66909605	1	DHTR, SBMA	AIS, NR3C4, SMAX1, HUMARA
X	AR	ENSG00000169083	ENST00000504326	protein_coding	PUTATIVE	None	644	1935	644	66764662	66915917	1	DHTR, SBMA	AIS, NR3C4, SMAX1, HUMARA
X	AR	ENSG00000169083	ENST00000514029	nonsense_mediated_decay	KNOWN	None	644	1803	600	66764662	66915917	1	DHTR, SBMA	AIS, NR3C4, SMAX1, HUMARA
X	AR	ENSG00000169083	ENST00000396043	protein_coding	KNOWN	CCDS43965	644	1167	388	66788731	66944130	1	DHTR, SBMA	AIS, NR3C4, SMAX1, HUMARA
X	AR	ENSG00000169083	ENST00000396044	protein_coding	KNOWN	None	644	2205	734	66764986	66943778	1	DHTR, SBMA	AIS, NR3C4, SMAX1, HUMARA
3	KCTD6	ENSG00000168301	ENST00000404589	protein_coding	KNOWN	CCDS2891	22235	714	237	58477841	58488079	1	None	MGC27385, KCASH3
3	KCTD6	ENSG00000168301	ENST00000490264	protein_coding	KNOWN	CCDS2891	22235	714	237	58477846	58488054	1	None	MGC27385, KCASH3
3	KCTD6	ENSG00000168301	ENST00000491093	protein_coding	PUTATIVE	None	22235	222	73	58477874	58486894	1	None	MGC27385, KCASH3
3	KCTD6	ENSG00000168301	ENST00000479179	protein_coding	KNOWN	None	22235	27	8	58479642	58484509	1	None	MGC27385, KCASH3
3	KCTD6	ENSG00000168301	ENST00000355076	protein_coding	KNOWN	CCDS2891	22235	714	237	58483500	58488087	1	None	MGC27385, KCASH3
3	KCTD6	ENSG00000168301	ENST00000479470	processed_transcript	PUTATIVE	None	22235	None	None	58484155	58486819	1	None	MGC27385, KCASH3
3	P4HTM	ENSG00000178467	ENST00000383729	protein_coding	KNOWN	CCDS43089	28858	1509	502	49027319	49044587	1	None	P4H-TM, PHD4, PH4, HIFPH4, FLJ20262, EGLN4, PH-4
3	P4HTM	ENSG00000178467	ENST00000343546	protein_coding	KNOWN	CCDS2781	28858	1692	563	49027322	49044548	1	None	P4H-TM, PHD4, PH4, HIFPH4, FLJ20262, EGLN4, PH-4
3	P4HTM	ENSG00000178467	ENST00000472301	retained_intron	KNOWN	None	28858	None	None	49027341	49044548	1	None	P4H-TM, PHD4, PH4, HIFPH4, FLJ20262, EGLN4, PH-4
3	P4HTM	ENSG00000178467	ENST00000484115	retained_intron	KNOWN	None	28858	None	None	49027371	49044548	1	None	P4H-TM, PHD4, PH4, HIFPH4, FLJ20262, EGLN4, PH-4
3	P4HTM	ENSG00000178467	ENST00000475629	processed_transcript	KNOWN	None	28858	None	None	49027771	49037217	1	None	P4H-TM, PHD4, PH4, HIFPH4, FLJ20262, EGLN4, PH-4
3	P4HTM	ENSG00000178467	ENST00000444213	protein_coding	PUTATIVE	None	28858	678	225	49027836	49041696	1	None	P4H-TM, PHD4, PH4, HIFPH4, FLJ20262, EGLN4, PH-4
3	P4HTM	ENSG00000178467	ENST00000468374	processed_transcript	KNOWN	None	28858	None	None	49028038	49041628	1	None	P4H-TM, PHD4, PH4, HIFPH4, FLJ20262, EGLN4, PH-4
3	P4HTM	ENSG00000178467	ENST00000486817	processed_transcript	KNOWN	None	28858	None	None	49033561	49040027	1	None	P4H-TM, PHD4, PH4, HIFPH4, FLJ20262, EGLN4, PH-4
3	P4HTM	ENSG00000178467	ENST00000485210	retained_intron	KNOWN	None	28858	None	None	49038506	49040409	1	None	P4H-TM, PHD4, PH4, HIFPH4, FLJ20262, EGLN4, PH-4
3	P4HTM	ENSG00000178467	ENST00000491739	processed_transcript	KNOWN	None	28858	None	None	49038907	49044548	1	None	P4H-TM, PHD4, PH4, HIFPH4, FLJ20262, EGLN4, PH-4
3	P4HTM	ENSG00000178467	ENST00000472796	retained_intron	KNOWN	None	28858	None	None	49039931	49041939	1	None	P4H-TM, PHD4, PH4, HIFPH4, FLJ20262, EGLN4, PH-4
4	SRD5A3	ENSG00000128039	ENST00000264228	protein_coding	KNOWN	CCDS3498	25812	957	318	56212276	56239263	1	None	FLJ13352, SRD5A2L, SRD5A2L1
4	SRD5A3	ENSG00000128039	ENST00000505210	protein_coding	NOVEL	None	25812	549	182	56212579	56236477	1	None	FLJ13352, SRD5A2L, SRD5A2L1
4	SRD5A3	ENSG00000128039	ENST00000514398	processed_transcript	KNOWN	None	25812	None	None	56225167	56236142	1	None	FLJ13352, SRD5A2L, SRD5A2L1
X	XG	ENSG00000124343	ENST00000381174	protein_coding	KNOWN	CCDS14120	12806	543	180	2670091	2733968	1	PBDX	None
X	XG	ENSG00000124343	ENST00000419513	protein_coding	KNOWN	CCDS48073	12806	588	195	2670093	2732589	1	PBDX	None
X	XG	ENSG00000124343	ENST00000509484	protein_coding	NOVEL	None	12806	444	147	2670186	2729477	1	PBDX	None
X	XG	ENSG00000124343	ENST00000503018	retained_intron	KNOWN	None	12806	None	None	2670337	2693037	1	PBDX	None
X	XG	ENSG00000124343	ENST00000519244	retained_intron	KNOWN	None	12806	None	None	2712576	2726418	1	PBDX	None
X	XG	ENSG00000124343	ENST00000426774	protein_coding	KNOWN	None	12806	546	181	2670093	2734539	1	PBDX	None
5	None	ENSG00000264921	ENST00000581763	miRNA	NOVEL	None	None	None	None	12599735	12599812	1	None	None
1	MTMR11	ENSG00000014914	ENST00000466496	processed_transcript	KNOWN	None	24307	None	None	149900543	149908718	-1	None	CRA
1	MTMR11	ENSG00000014914	ENST00000482025	processed_transcript	KNOWN	None	24307	None	None	149900543	149908762	-1	None	CRA
1	MTMR11	ENSG00000014914	ENST00000369140	protein_coding	KNOWN	CCDS942	24307	1923	640	149900544	149908243	-1	None	CRA
1	MTMR11	ENSG00000014914	ENST00000482343	retained_intron	KNOWN	None	24307	None	None	149900544	149908727	-1	None	CRA
1	MTMR11	ENSG00000014914	ENST00000492824	processed_transcript	KNOWN	None	24307	None	None	149900544	149908727	-1	None	CRA
1	MTMR11	ENSG00000014914	ENST00000495054	processed_transcript	KNOWN	None	24307	None	None	149901566	149903484	-1	None	CRA
1	MTMR11	ENSG00000014914	ENST00000490310	processed_transcript	KNOWN	None	24307	None	None	149901969	149903279	-1	None	CRA
1	MTMR11	ENSG00000014914	ENST00000493562	processed_transcript	KNOWN	None	24307	None	None	149903260	149905800	-1	None	CRA
1	MTMR11	ENSG00000014914	ENST00000479272	processed_transcript	KNOWN	None	24307	None	None	149906076	149907379	-1	None	CRA
1	MTMR11	ENSG00000014914	ENST00000439741	protein_coding	KNOWN	CCDS53360	24307	2130	709	149900546	149908791	-1	None	CRA
1	MTMR11	ENSG00000014914	ENST00000361405	protein_coding	KNOWN	None	24307	819	272	149900546	149908791	-1	None	CRA
1	MTMR11	ENSG00000014914	ENST00000406732	protein_coding	KNOWN	None	24307	1065	354	149900546	149908791	-1	None	CRA
5	None	ENSG00000251112	ENST00000513713	processed_pseudogene	KNOWN	None	None	None	None	12794212	12794843	-1	None	None
17	AP2B1	ENSG00000006125	ENST00000589774	protein_coding	KNOWN	None	563	453	150	33905065	33935334	1	ADTB2, CLAPB1	None
17	AP2B1	ENSG00000006125	ENST00000262325	protein_coding	KNOWN	CCDS32622	563	2814	937	33913918	34053436	1	ADTB2, CLAPB1	None
17	AP2B1	ENSG00000006125	ENST00000592191	nonsense_mediated_decay	KNOWN	None	563	150	49	33914317	34051108	1	ADTB2, CLAPB1	None
17	AP2B1	ENSG00000006125	ENST00000592545	protein_coding	NOVEL	None	563	2742	913	33914333	34051105	1	ADTB2, CLAPB1	None
17	AP2B1	ENSG00000006125	ENST00000590538	nonsense_mediated_decay	KNOWN	None	563	192	63	33914341	33935184	1	ADTB2, CLAPB1	None
17	AP2B1	ENSG00000006125	ENST00000591610	nonsense_mediated_decay	KNOWN	None	563	192	63	33914341	33935311	1	ADTB2, CLAPB1	None
17	AP2B1	ENSG00000006125	ENST00000312678	protein_coding	KNOWN	CCDS32621	563	2856	951	33914341	34051394	1	ADTB2, CLAPB1	None
17	AP2B1	ENSG00000006125	ENST00000589344	protein_coding	KNOWN	CCDS32621	563	2856	951	33914386	34050784	1	ADTB2, CLAPB1	None
17	AP2B1	ENSG00000006125	ENST00000590432	protein_coding	KNOWN	None	563	240	79	33914435	33932820	1	ADTB2, CLAPB1	None
17	AP2B1	ENSG00000006125	ENST00000537622	protein_coding	KNOWN	CCDS32621	563	2856	951	33914471	34051108	1	ADTB2, CLAPB1	None
17	AP2B1	ENSG00000006125	ENST00000588093	processed_transcript	KNOWN	None	563	None	None	33914550	33928056	1	ADTB2, CLAPB1	None
17	AP2B1	ENSG00000006125	ENST00000592167	nonsense_mediated_decay	KNOWN	None	563	192	63	33914585	33932785	1	ADTB2, CLAPB1	None
17	AP2B1	ENSG00000006125	ENST00000593014	protein_coding	KNOWN	None	563	398	131	33914757	33935279	1	ADTB2, CLAPB1	None
17	AP2B1	ENSG00000006125	ENST00000591561	processed_transcript	KNOWN	None	563	None	None	33934856	33953739	1	ADTB2, CLAPB1	None
17	AP2B1	ENSG00000006125	ENST00000545922	processed_transcript	KNOWN	None	563	None	None	33948294	34050939	1	ADTB2, CLAPB1	None
17	AP2B1	ENSG00000006125	ENST00000588116	nonsense_mediated_decay	KNOWN	None	563	495	164	33951601	33984634	1	ADTB2, CLAPB1	None
17	AP2B1	ENSG00000006125	ENST00000587805	protein_coding	PUTATIVE	None	563	546	181	33977669	33987139	1	ADTB2, CLAPB1	None
17	AP2B1	ENSG00000006125	ENST00000588493	retained_intron	KNOWN	None	563	None	None	34037195	34051169	1	ADTB2, CLAPB1	None
17	AP2B1	ENSG00000006125	ENST00000538556	protein_coding	KNOWN	None	563	2643	880	33914333	34051105	1	ADTB2, CLAPB1	None
19	ZNF557	ENSG00000130544	ENST00000252840	protein_coding	KNOWN	CCDS42485	28632	1293	430	7069455	7084229	1	None	MGC4054
19	ZNF557	ENSG00000130544	ENST00000439035	protein_coding	KNOWN	CCDS45945	28632	1272	423	7069716	7084907	1	None	MGC4054
19	ZNF557	ENSG00000130544	ENST00000414706	protein_coding	KNOWN	CCDS42485	28632	1293	430	7069471	7087979	1	None	MGC4054
5	None	ENSG00000249053	ENST00000506935	processed_pseudogene	KNOWN	None	None	None	None	12794843	12795634	1	None	None
17	RNF213	ENSG00000173821	ENST00000508628	protein_coding	NOVEL	None	14539	15771	5256	78234665	78369112	1	C17orf27, KIAA1618, MYMY2	KIAA1554, NET57
17	RNF213	ENSG00000173821	ENST00000582970	protein_coding	KNOWN	CCDS58606	14539	15624	5207	78234667	78372586	1	C17orf27, KIAA1618, MYMY2	KIAA1554, NET57
17	RNF213	ENSG00000173821	ENST00000319921	protein_coding	KNOWN	CCDS11772	14539	3192	1063	78234669	78295263	1	C17orf27, KIAA1618, MYMY2	KIAA1554, NET57
17	RNF213	ENSG00000173821	ENST00000559070	retained_intron	KNOWN	None	14539	None	None	78261758	78310700	1	C17orf27, KIAA1618, MYMY2	KIAA1554, NET57
17	RNF213	ENSG00000173821	ENST00000573548	retained_intron	KNOWN	None	14539	None	None	78263560	78265806	1	C17orf27, KIAA1618, MYMY2	KIAA1554, NET57
17	RNF213	ENSG00000173821	ENST00000574060	retained_intron	KNOWN	None	14539	None	None	78269529	78272575	1	C17orf27, KIAA1618, MYMY2	KIAA1554, NET57
17	RNF213	ENSG00000173821	ENST00000571908	retained_intron	KNOWN	None	14539	None	None	78311314	78313246	1	C17orf27, KIAA1618, MYMY2	KIAA1554, NET57
17	RNF213	ENSG00000173821	ENST00000558116	retained_intron	KNOWN	None	14539	None	None	78327912	78355988	1	C17orf27, KIAA1618, MYMY2	KIAA1554, NET57
17	RNF213	ENSG00000173821	ENST00000560694	retained_intron	KNOWN	None	14539	None	None	78328259	78334189	1	C17orf27, KIAA1618, MYMY2	KIAA1554, NET57
17	RNF213	ENSG00000173821	ENST00000558488	retained_intron	KNOWN	None	14539	None	None	78337153	78338320	1	C17orf27, KIAA1618, MYMY2	KIAA1554, NET57
17	RNF213	ENSG00000173821	ENST00000559603	retained_intron	KNOWN	None	14539	None	None	78337471	78339169	1	C17orf27, KIAA1618, MYMY2	KIAA1554, NET57
17	RNF213	ENSG00000173821	ENST00000411702	retained_intron	KNOWN	None	14539	None	None	78345451	78369053	1	C17orf27, KIAA1618, MYMY2	KIAA1554, NET57
17	RNF213	ENSG00000173821	ENST00000573038	protein_coding	PUTATIVE	None	14539	319	105	78346869	78348859	1	C17orf27, KIAA1618, MYMY2	KIAA1554, NET57
17	RNF213	ENSG00000173821	ENST00000559864	retained_intron	KNOWN	None	14539	None	None	78349616	78350977	1	C17orf27, KIAA1618, MYMY2	KIAA1554, NET57
17	RNF213	ENSG00000173821	ENST00000574909	retained_intron	KNOWN	None	14539	None	None	78351478	78353598	1	C17orf27, KIAA1618, MYMY2	KIAA1554, NET57
17	RNF213	ENSG00000173821	ENST00000572622	retained_intron	KNOWN	None	14539	None	None	78353256	78354691	1	C17orf27, KIAA1618, MYMY2	KIAA1554, NET57
17	RNF213	ENSG00000173821	ENST00000427003	processed_transcript	KNOWN	None	14539	None	None	78356163	78369112	1	C17orf27, KIAA1618, MYMY2	KIAA1554, NET57
17	RNF213	ENSG00000173821	ENST00000570776	retained_intron	KNOWN	None	14539	None	None	78358673	78360210	1	C17orf27, KIAA1618, MYMY2	KIAA1554, NET57
17	RNF213	ENSG00000173821	ENST00000560083	retained_intron	KNOWN	None	14539	None	None	78360186	78370078	1	C17orf27, KIAA1618, MYMY2	KIAA1554, NET57
17	RNF213	ENSG00000173821	ENST00000573919	retained_intron	KNOWN	None	14539	None	None	78362330	78363688	1	C17orf27, KIAA1618, MYMY2	KIAA1554, NET57
17	RNF213	ENSG00000173821	ENST00000456466	protein_coding	KNOWN	None	14539	4653	1550	78234667	78310304	1	C17orf27, KIAA1618, MYMY2	KIAA1554, NET57
17	RNF213	ENSG00000173821	ENST00000336301	protein_coding	KNOWN	None	14539	9843	3280	78313949	78369106	1	C17orf27, KIAA1618, MYMY2	KIAA1554, NET57
5	None	ENSG00000248457	ENST00000510065	lincRNA	KNOWN	None	None	None	None	12914180	13032998	-1	None	None
6	CLPSL1	ENSG00000204140	ENST00000373861	protein_coding	KNOWN	CCDS43456	21251	366	121	35748794	35755929	1	C6orf127	dJ510O8.6
6	CLPSL1	ENSG00000204140	ENST00000428710	protein_coding	PUTATIVE	None	21251	129	42	35754817	35761452	1	C6orf127	dJ510O8.6
6	CLPSL1	ENSG00000204140	ENST00000542261	protein_coding	KNOWN	None	21251	363	120	35748821	35755929	1	C6orf127	dJ510O8.6
12	EIF4B	ENSG00000063046	ENST00000262056	protein_coding	KNOWN	CCDS41788	3285	1836	611	53399942	53435993	1	None	None
12	EIF4B	ENSG00000063046	ENST00000551527	processed_transcript	KNOWN	None	3285	None	None	53400066	53415542	1	None	None
12	EIF4B	ENSG00000063046	ENST00000549077	nonsense_mediated_decay	KNOWN	None	3285	528	175	53400215	53421640	1	None	None
12	EIF4B	ENSG00000063046	ENST00000549645	processed_transcript	KNOWN	None	3285	None	None	53400232	53415619	1	None	None
12	EIF4B	ENSG00000063046	ENST00000551002	protein_coding	NOVEL	None	3285	509	168	53400240	53416391	1	None	None
12	EIF4B	ENSG00000063046	ENST00000420463	protein_coding	NOVEL	None	3285	1851	616	53400240	53434064	1	None	None
12	EIF4B	ENSG00000063046	ENST00000416762	protein_coding	NOVEL	None	3285	1719	572	53400241	53434246	1	None	None
12	EIF4B	ENSG00000063046	ENST00000550704	nonsense_mediated_decay	KNOWN	None	3285	684	227	53400243	53431218	1	None	None
12	EIF4B	ENSG00000063046	ENST00000549481	protein_coding	NOVEL	None	3285	1081	359	53400252	53428403	1	None	None
12	EIF4B	ENSG00000063046	ENST00000552490	protein_coding	NOVEL	None	3285	826	274	53400253	53421957	1	None	None
12	EIF4B	ENSG00000063046	ENST00000550390	nonsense_mediated_decay	KNOWN	None	3285	558	185	53400268	53421656	1	None	None
12	EIF4B	ENSG00000063046	ENST00000550025	retained_intron	KNOWN	None	3285	None	None	53412644	53415700	1	None	None
12	EIF4B	ENSG00000063046	ENST00000553209	retained_intron	KNOWN	None	3285	None	None	53428430	53431508	1	None	None
12	EIF4B	ENSG00000063046	ENST00000549592	retained_intron	KNOWN	None	3285	None	None	53431510	53434136	1	None	None
2	SCRN3	ENSG00000144306	ENST00000437944	nonsense_mediated_decay	KNOWN	None	30382	354	117	175260458	175292592	1	None	FLJ23142
2	SCRN3	ENSG00000144306	ENST00000548868	nonsense_mediated_decay	KNOWN	None	30382	354	117	175260458	175293045	1	None	FLJ23142
2	SCRN3	ENSG00000144306	ENST00000458563	protein_coding	KNOWN	None	30382	649	215	175260469	175268938	1	None	FLJ23142
2	SCRN3	ENSG00000144306	ENST00000490927	processed_transcript	KNOWN	None	30382	None	None	175260471	175289298	1	None	FLJ23142
2	SCRN3	ENSG00000144306	ENST00000409673	protein_coding	PUTATIVE	CCDS54420	30382	1254	417	175260473	175293145	1	None	FLJ23142
2	SCRN3	ENSG00000144306	ENST00000272732	protein_coding	KNOWN	CCDS2258	30382	1275	424	175260473	175294303	1	None	FLJ23142
2	SCRN3	ENSG00000144306	ENST00000435964	protein_coding	KNOWN	None	30382	31	9	175260480	175263042	1	None	FLJ23142
2	SCRN3	ENSG00000144306	ENST00000424069	protein_coding	KNOWN	None	30382	341	112	175260520	175264831	1	None	FLJ23142
2	SCRN3	ENSG00000144306	ENST00000488349	processed_transcript	PUTATIVE	None	30382	None	None	175260523	175262132	1	None	FLJ23142
2	SCRN3	ENSG00000144306	ENST00000427038	protein_coding	KNOWN	None	30382	406	134	175260536	175265782	1	None	FLJ23142
2	SCRN3	ENSG00000144306	ENST00000548031	protein_coding	KNOWN	None	30382	629	208	175262923	175268918	1	None	FLJ23142
2	SCRN3	ENSG00000144306	ENST00000548921	processed_transcript	PUTATIVE	None	30382	None	None	175274765	175293587	1	None	FLJ23142
2	SCRN3	ENSG00000144306	ENST00000549848	processed_transcript	PUTATIVE	None	30382	None	None	175274810	175292623	1	None	FLJ23142
2	SCRN3	ENSG00000144306	ENST00000475928	processed_transcript	PUTATIVE	None	30382	None	None	175275072	175292763	1	None	FLJ23142
1	IL24	ENSG00000162892	ENST00000391929	protein_coding	NOVEL	CCDS53465	11346	624	207	207070788	207076825	1	ST16	mda-7, IL10B, Mob-5, C49A, FISP, IL-24
1	IL24	ENSG00000162892	ENST00000294984	protein_coding	KNOWN	CCDS1471	11346	621	206	207070789	207077210	1	ST16	mda-7, IL10B, Mob-5, C49A, FISP, IL-24
1	IL24	ENSG00000162892	ENST00000367095	nonsense_mediated_decay	KNOWN	None	11346	156	51	207070789	207077484	1	ST16	mda-7, IL10B, Mob-5, C49A, FISP, IL-24
1	IL24	ENSG00000162892	ENST00000367093	protein_coding	NOVEL	CCDS53466	11346	465	154	207070789	207077484	1	ST16	mda-7, IL10B, Mob-5, C49A, FISP, IL-24
1	IL24	ENSG00000162892	ENST00000491169	processed_transcript	KNOWN	None	11346	None	None	207070810	207076495	1	ST16	mda-7, IL10B, Mob-5, C49A, FISP, IL-24
1	IL24	ENSG00000162892	ENST00000480741	protein_coding	NOVEL	None	11346	182	59	207071178	207075417	1	ST16	mda-7, IL10B, Mob-5, C49A, FISP, IL-24
15	TBC1D21	ENSG00000167139	ENST00000535547	protein_coding	NOVEL	None	28536	903	300	74165949	74181442	1	None	MGC34741, MgcRabGAP
15	TBC1D21	ENSG00000167139	ENST00000300504	protein_coding	KNOWN	CCDS10252	28536	1011	336	74165968	74181555	1	None	MGC34741, MgcRabGAP
15	TBC1D21	ENSG00000167139	ENST00000562056	protein_coding	NOVEL	None	28536	900	299	74165987	74181443	1	None	MGC34741, MgcRabGAP
14	PAX9	ENSG00000198807	ENST00000553267	processed_transcript	PUTATIVE	None	8623	None	None	37126773	37131213	1	None	None
14	PAX9	ENSG00000198807	ENST00000555639	processed_transcript	PUTATIVE	None	8623	None	None	37126876	37132348	1	None	None
14	PAX9	ENSG00000198807	ENST00000361487	protein_coding	KNOWN	CCDS9662	8623	1026	341	37131070	37148920	1	None	None
14	PAX9	ENSG00000198807	ENST00000554201	protein_coding	PUTATIVE	None	8623	291	96	37131779	37145611	1	None	None
14	PAX9	ENSG00000198807	ENST00000557107	processed_transcript	KNOWN	None	8623	None	None	37135195	37145560	1	None	None
14	PAX9	ENSG00000198807	ENST00000402703	protein_coding	KNOWN	CCDS9662	8623	1026	341	37126773	37147007	1	None	None
22	ADM2	ENSG00000128165	ENST00000395738	protein_coding	KNOWN	CCDS33682	28898	447	148	50919985	50924869	1	None	AM2, FLJ21135
22	ADM2	ENSG00000128165	ENST00000395737	protein_coding	KNOWN	CCDS33682	28898	447	148	50920153	50921369	1	None	AM2, FLJ21135
22	ADM2	ENSG00000128165	ENST00000362068	protein_coding	KNOWN	None	28898	699	232	50920012	50924866	1	None	AM2, FLJ21135
3	PDCD6IP	ENSG00000170248	ENST00000307296	protein_coding	KNOWN	CCDS2660	8766	2607	868	33839844	33911194	1	None	Alix, AIP1, Hp95
3	PDCD6IP	ENSG00000170248	ENST00000435909	nonsense_mediated_decay	KNOWN	None	8766	219	72	33840103	33866740	1	None	Alix, AIP1, Hp95
3	PDCD6IP	ENSG00000170248	ENST00000430877	nonsense_mediated_decay	KNOWN	None	8766	237	78	33840113	33863491	1	None	Alix, AIP1, Hp95
3	PDCD6IP	ENSG00000170248	ENST00000413073	protein_coding	NOVEL	None	8766	460	152	33840115	33866826	1	None	Alix, AIP1, Hp95
3	PDCD6IP	ENSG00000170248	ENST00000477798	processed_transcript	KNOWN	None	8766	None	None	33840122	33866832	1	None	Alix, AIP1, Hp95
3	PDCD6IP	ENSG00000170248	ENST00000498147	processed_transcript	KNOWN	None	8766	None	None	33840432	33863524	1	None	Alix, AIP1, Hp95
3	PDCD6IP	ENSG00000170248	ENST00000484478	processed_transcript	KNOWN	None	8766	None	None	33852555	33868031	1	None	Alix, AIP1, Hp95
3	PDCD6IP	ENSG00000170248	ENST00000494810	retained_intron	KNOWN	None	8766	None	None	33854769	33866817	1	None	Alix, AIP1, Hp95
3	PDCD6IP	ENSG00000170248	ENST00000459659	retained_intron	KNOWN	None	8766	None	None	33863465	33868369	1	None	Alix, AIP1, Hp95
3	PDCD6IP	ENSG00000170248	ENST00000412887	nonsense_mediated_decay	KNOWN	None	8766	288	95	33866733	33885715	1	None	Alix, AIP1, Hp95
3	PDCD6IP	ENSG00000170248	ENST00000482561	processed_transcript	KNOWN	None	8766	None	None	33869072	33877664	1	None	Alix, AIP1, Hp95
3	PDCD6IP	ENSG00000170248	ENST00000487821	retained_intron	KNOWN	None	8766	None	None	33869973	33879733	1	None	Alix, AIP1, Hp95
3	PDCD6IP	ENSG00000170248	ENST00000465122	retained_intron	KNOWN	None	8766	None	None	33885583	33905609	1	None	Alix, AIP1, Hp95
3	PDCD6IP	ENSG00000170248	ENST00000495235	processed_transcript	KNOWN	None	8766	None	None	33894100	33896821	1	None	Alix, AIP1, Hp95
3	PDCD6IP	ENSG00000170248	ENST00000489869	retained_intron	KNOWN	None	8766	None	None	33896110	33906809	1	None	Alix, AIP1, Hp95
3	PDCD6IP	ENSG00000170248	ENST00000473593	retained_intron	KNOWN	None	8766	None	None	33905388	33907960	1	None	Alix, AIP1, Hp95
3	PDCD6IP	ENSG00000170248	ENST00000457054	protein_coding	KNOWN	CCDS54561	8766	2622	873	33840066	33911194	1	None	Alix, AIP1, Hp95
9	CEP78	ENSG00000148019	ENST00000424347	protein_coding	KNOWN	None	25740	2070	689	80850978	80894606	1	C9orf81	FLJ12643
9	CEP78	ENSG00000148019	ENST00000536374	retained_intron	KNOWN	None	25740	None	None	80850997	80865369	1	C9orf81	FLJ12643
9	CEP78	ENSG00000148019	ENST00000476652	processed_transcript	PUTATIVE	None	25740	None	None	80851057	80881703	1	C9orf81	FLJ12643
9	CEP78	ENSG00000148019	ENST00000415759	protein_coding	KNOWN	CCDS47985	25740	2121	706	80851078	80881991	1	C9orf81	FLJ12643
9	CEP78	ENSG00000148019	ENST00000376597	protein_coding	KNOWN	CCDS47984	25740	2169	722	80851123	80881983	1	C9orf81	FLJ12643
9	CEP78	ENSG00000148019	ENST00000277082	protein_coding	NOVEL	None	25740	2118	705	80851148	80881983	1	C9orf81	FLJ12643
9	CEP78	ENSG00000148019	ENST00000376598	protein_coding	NOVEL	None	25740	2118	705	80851267	80886053	1	C9orf81	FLJ12643
9	CEP78	ENSG00000148019	ENST00000487108	processed_transcript	KNOWN	None	25740	None	None	80868223	80879144	1	C9orf81	FLJ12643
9	CEP78	ENSG00000148019	ENST00000498582	retained_intron	KNOWN	None	25740	None	None	80869390	80879157	1	C9orf81	FLJ12643
9	CEP78	ENSG00000148019	ENST00000459817	retained_intron	KNOWN	None	25740	None	None	80869619	80880317	1	C9orf81	FLJ12643
9	CEP78	ENSG00000148019	ENST00000447629	retained_intron	KNOWN	None	25740	None	None	80878966	80886799	1	C9orf81	FLJ12643
6	TCF19	ENSG00000137310	ENST00000376257	protein_coding	KNOWN	CCDS43446	11629	1038	345	31126319	31131992	1	None	SC1
6	TCF19	ENSG00000137310	ENST00000376255	protein_coding	KNOWN	CCDS43446	11629	1038	345	31126324	31131992	1	None	SC1
6	TCF19	ENSG00000137310	ENST00000542218	protein_coding	KNOWN	None	11629	654	217	31129226	31134936	1	None	SC1
6	TCF19	ENSG00000137310	ENST00000496421	processed_transcript	PUTATIVE	None	11629	None	None	31129261	31130784	1	None	SC1
1	WDR65	ENSG00000243710	ENST00000372492	protein_coding	NOVEL	None	26485	3753	1250	43637820	43720029	1	None	FLJ32000
1	WDR65	ENSG00000243710	ENST00000528956	protein_coding	KNOWN	CCDS479	26485	2097	698	43638001	43676549	1	None	FLJ32000
1	WDR65	ENSG00000243710	ENST00000529956	protein_coding	KNOWN	None	26485	498	165	43638015	43649285	1	None	FLJ32000
1	WDR65	ENSG00000243710	ENST00000525227	nonsense_mediated_decay	KNOWN	None	26485	192	63	43638085	43647350	1	None	FLJ32000
1	WDR65	ENSG00000243710	ENST00000533339	nonsense_mediated_decay	KNOWN	None	26485	192	63	43638093	43675789	1	None	FLJ32000
1	WDR65	ENSG00000243710	ENST00000534615	retained_intron	KNOWN	None	26485	None	None	43650549	43652456	1	None	FLJ32000
1	WDR65	ENSG00000243710	ENST00000428122	nonsense_mediated_decay	KNOWN	None	26485	235	77	43681027	43687949	1	None	FLJ32000
8	CHRNA2	ENSG00000120903	ENST00000520933	protein_coding	KNOWN	CCDS6059	1956	1590	529	27317295	27328729	-1	None	None
8	CHRNA2	ENSG00000120903	ENST00000520600	retained_intron	KNOWN	None	1956	None	None	27318093	27325034	-1	None	None
8	CHRNA2	ENSG00000120903	ENST00000523529	retained_intron	KNOWN	None	1956	None	None	27318615	27328700	-1	None	None
8	CHRNA2	ENSG00000120903	ENST00000523695	nonsense_mediated_decay	KNOWN	None	1956	465	154	27318615	27336731	-1	None	None
8	CHRNA2	ENSG00000120903	ENST00000240132	protein_coding	PUTATIVE	None	1956	1545	514	27319120	27336778	-1	None	None
8	CHRNA2	ENSG00000120903	ENST00000522008	retained_intron	KNOWN	None	1956	None	None	27321145	27326925	-1	None	None
8	CHRNA2	ENSG00000120903	ENST00000524096	protein_coding	PUTATIVE	None	1956	325	107	27326866	27337400	-1	None	None
8	CHRNA2	ENSG00000120903	ENST00000518712	protein_coding	PUTATIVE	None	1956	243	80	27327329	27336446	-1	None	None
8	CHRNA2	ENSG00000120903	ENST00000520650	retained_intron	KNOWN	None	1956	None	None	27327349	27336530	-1	None	None
8	CHRNA2	ENSG00000120903	ENST00000521921	protein_coding	PUTATIVE	None	1956	150	49	27327422	27333019	-1	None	None
8	CHRNA2	ENSG00000120903	ENST00000520208	protein_coding	PUTATIVE	None	1956	57	18	27328519	27337374	-1	None	None
8	CHRNA2	ENSG00000120903	ENST00000407991	protein_coding	KNOWN	CCDS6059	1956	1590	529	27317279	27336813	-1	None	None
10	PLEKHS1	ENSG00000148735	ENST00000369310	protein_coding	KNOWN	CCDS53580	26285	1398	465	115524578	115537485	1	C10orf81	FLJ23537, bA211N11.2
10	PLEKHS1	ENSG00000148735	ENST00000369309	protein_coding	PUTATIVE	None	26285	849	282	115531012	115542192	1	C10orf81	FLJ23537, bA211N11.2
10	PLEKHS1	ENSG00000148735	ENST00000354462	protein_coding	KNOWN	None	26285	597	198	115531787	115543188	1	C10orf81	FLJ23537, bA211N11.2
10	PLEKHS1	ENSG00000148735	ENST00000448805	protein_coding	KNOWN	None	26285	589	195	115534675	115537489	1	C10orf81	FLJ23537, bA211N11.2
10	PLEKHS1	ENSG00000148735	ENST00000361048	protein_coding	KNOWN	CCDS7583	26285	1092	363	115511213	115542191	1	C10orf81	FLJ23537, bA211N11.2
10	PLEKHS1	ENSG00000148735	ENST00000369312	protein_coding	KNOWN	CCDS53581	26285	1101	366	115511441	115540739	1	C10orf81	FLJ23537, bA211N11.2
14	SLC25A21	ENSG00000183032	ENST00000555449	protein_coding	PUTATIVE	CCDS55913	14411	897	298	37147636	37641628	-1	None	ODC1, ODC
14	SLC25A21	ENSG00000183032	ENST00000331299	protein_coding	KNOWN	CCDS9663	14411	900	299	37148494	37642071	-1	None	ODC1, ODC
14	SLC25A21	ENSG00000183032	ENST00000556444	retained_intron	KNOWN	None	14411	None	None	37180522	37194884	-1	None	ODC1, ODC
14	SLC25A21	ENSG00000183032	ENST00000546428	retained_intron	KNOWN	None	14411	None	None	37194358	37228923	-1	None	ODC1, ODC
14	SLC25A21	ENSG00000183032	ENST00000557611	processed_transcript	KNOWN	None	14411	None	None	37339680	37641551	-1	None	ODC1, ODC
22	MIOX	ENSG00000100253	ENST00000395733	protein_coding	KNOWN	None	14522	696	231	50925213	50928465	1	ALDRL6	None
22	MIOX	ENSG00000100253	ENST00000216075	protein_coding	KNOWN	CCDS14092	14522	858	285	50925253	50928483	1	ALDRL6	None
22	MIOX	ENSG00000100253	ENST00000395732	protein_coding	PUTATIVE	None	14522	813	270	50925305	50929077	1	ALDRL6	None
22	MIOX	ENSG00000100253	ENST00000451761	protein_coding	PUTATIVE	None	14522	798	265	50925814	50928405	1	ALDRL6	None
16	THUMPD1	ENSG00000066654	ENST00000381337	protein_coding	KNOWN	CCDS10588	23807	1062	353	20744986	20753406	-1	None	FLJ20274
16	THUMPD1	ENSG00000066654	ENST00000396083	protein_coding	KNOWN	CCDS10588	23807	1062	353	20746697	20753118	-1	None	FLJ20274
16	THUMPD1	ENSG00000066654	ENST00000570231	retained_intron	KNOWN	None	23807	None	None	20748134	20749594	-1	None	FLJ20274
16	THUMPD1	ENSG00000066654	ENST00000565248	nonsense_mediated_decay	KNOWN	None	23807	438	145	20748411	20753125	-1	None	FLJ20274
16	THUMPD1	ENSG00000066654	ENST00000569768	retained_intron	KNOWN	None	23807	None	None	20750066	20753137	-1	None	FLJ20274
16	THUMPD1	ENSG00000066654	ENST00000431224	protein_coding	KNOWN	None	23807	1320	439	20744991	20753406	-1	None	FLJ20274
8	DPY19L4	ENSG00000156162	ENST00000522422	protein_coding	NOVEL	None	27829	384	127	95731931	95752007	1	None	None
8	DPY19L4	ENSG00000156162	ENST00000520774	nonsense_mediated_decay	KNOWN	None	27829	135	44	95732103	95751989	1	None	None
8	DPY19L4	ENSG00000156162	ENST00000414645	protein_coding	KNOWN	CCDS34924	27829	2172	723	95732128	95806064	1	None	None
8	DPY19L4	ENSG00000156162	ENST00000519353	protein_coding	NOVEL	None	27829	340	112	95738624	95751953	1	None	None
8	DPY19L4	ENSG00000156162	ENST00000519176	protein_coding	PUTATIVE	None	27829	573	190	95738630	95757312	1	None	None
8	DPY19L4	ENSG00000156162	ENST00000521525	protein_coding	PUTATIVE	None	27829	204	67	95751748	95757211	1	None	None
8	DPY19L4	ENSG00000156162	ENST00000523020	protein_coding	NOVEL	None	27829	828	275	95751878	95782775	1	None	None
8	DPY19L4	ENSG00000156162	ENST00000522669	nonsense_mediated_decay	KNOWN	None	27829	226	74	95789906	95802063	1	None	None
1	FAIM3	ENSG00000162894	ENST00000367091	protein_coding	KNOWN	CCDS1473	14315	1173	390	207077731	207095343	-1	None	TOSO
1	FAIM3	ENSG00000162894	ENST00000474041	retained_intron	KNOWN	None	14315	None	None	207077870	207083290	-1	None	TOSO
1	FAIM3	ENSG00000162894	ENST00000442471	protein_coding	KNOWN	CCDS44304	14315	837	278	207077904	207095343	-1	None	TOSO
1	FAIM3	ENSG00000162894	ENST00000528654	processed_transcript	KNOWN	None	14315	None	None	207078059	207095300	-1	None	TOSO
1	FAIM3	ENSG00000162894	ENST00000463473	nonsense_mediated_decay	KNOWN	None	14315	378	125	207078239	207095286	-1	None	TOSO
1	FAIM3	ENSG00000162894	ENST00000525793	protein_coding	KNOWN	None	14315	453	150	207086308	207096541	-1	None	TOSO
1	FAIM3	ENSG00000162894	ENST00000529560	protein_coding	KNOWN	None	14315	443	146	207086318	207096592	-1	None	TOSO
1	FAIM3	ENSG00000162894	ENST00000533312	retained_intron	KNOWN	None	14315	None	None	207086977	207095286	-1	None	TOSO
1	FAIM3	ENSG00000162894	ENST00000530505	protein_coding	KNOWN	None	14315	424	140	207087146	207095342	-1	None	TOSO
1	FAIM3	ENSG00000162894	ENST00000420007	protein_coding	KNOWN	CCDS53467	14315	921	306	207078364	207095212	-1	None	TOSO
11	ACRV1	ENSG00000134940	ENST00000533904	protein_coding	KNOWN	CCDS8460	127	798	265	125541417	125551018	-1	None	SPACA2, SP-10, D11S4365
11	ACRV1	ENSG00000134940	ENST00000315608	protein_coding	KNOWN	None	127	738	245	125542238	125550726	-1	None	SPACA2, SP-10, D11S4365
11	ACRV1	ENSG00000134940	ENST00000530048	protein_coding	KNOWN	None	127	630	209	125542378	125550726	-1	None	SPACA2, SP-10, D11S4365
11	ACRV1	ENSG00000134940	ENST00000527795	protein_coding	KNOWN	None	127	585	194	125542388	125550769	-1	None	SPACA2, SP-10, D11S4365
11	ACRV1	ENSG00000134940	ENST00000433875	protein_coding	KNOWN	CCDS44759	127	741	246	125542230	125550942	-1	None	SPACA2, SP-10, D11S4365
11	ACRV1	ENSG00000134940	ENST00000257382	protein_coding	KNOWN	CCDS8461	127	633	210	125542230	125550942	-1	None	SPACA2, SP-10, D11S4365
11	ACRV1	ENSG00000134940	ENST00000426183	protein_coding	KNOWN	CCDS44761	127	588	195	125542230	125550942	-1	None	SPACA2, SP-10, D11S4365
11	ACRV1	ENSG00000134940	ENST00000453509	protein_coding	KNOWN	None	127	531	176	125542230	125550942	-1	None	SPACA2, SP-10, D11S4365
11	ACRV1	ENSG00000134940	ENST00000445562	protein_coding	KNOWN	None	127	513	170	125542230	125550942	-1	None	SPACA2, SP-10, D11S4365
11	ACRV1	ENSG00000134940	ENST00000348856	protein_coding	KNOWN	None	127	498	165	125542230	125550942	-1	None	SPACA2, SP-10, D11S4365
11	ACRV1	ENSG00000134940	ENST00000345274	protein_coding	KNOWN	None	127	468	155	125542230	125550942	-1	None	SPACA2, SP-10, D11S4365
11	ACRV1	ENSG00000134940	ENST00000425431	protein_coding	KNOWN	None	127	366	121	125542230	125550942	-1	None	SPACA2, SP-10, D11S4365
11	ACRV1	ENSG00000134940	ENST00000353070	protein_coding	KNOWN	None	127	246	81	125542230	125550942	-1	None	SPACA2, SP-10, D11S4365
4	None	ENSG00000251329	ENST00000515181	lincRNA	KNOWN	None	None	None	None	32352660	32354842	1	None	None
4	None	ENSG00000250076	ENST00000506459	processed_pseudogene	KNOWN	None	None	None	None	33012570	33013368	-1	None	None
1	OTUD7B	ENSG00000163113	ENST00000369135	protein_coding	KNOWN	CCDS41389	16683	2532	843	149912231	149982625	-1	ZA20D1	CEZANNE
1	OTUD7B	ENSG00000163113	ENST00000417191	protein_coding	KNOWN	None	16683	1283	426	149919192	149982624	-1	ZA20D1	CEZANNE
1	OTUD7B	ENSG00000163113	ENST00000479905	processed_transcript	KNOWN	None	16683	None	None	149932851	149943189	-1	ZA20D1	CEZANNE
19	ZNF556	ENSG00000172000	ENST00000586470	nonsense_mediated_decay	KNOWN	None	25669	210	69	2867333	2877440	1	None	FLJ11637
19	ZNF556	ENSG00000172000	ENST00000307635	protein_coding	KNOWN	CCDS12097	25669	1371	456	2867333	2878501	1	None	FLJ11637
19	ZNF556	ENSG00000172000	ENST00000586426	protein_coding	NOVEL	None	25669	1368	455	2867333	2878515	1	None	FLJ11637
6	CLPS	ENSG00000137392	ENST00000259938	protein_coding	KNOWN	CCDS4811	2085	339	112	35762759	35765088	-1	None	None
2	GPR155	ENSG00000163328	ENST00000392552	protein_coding	KNOWN	CCDS2259	22951	2613	870	175296966	175351808	-1	None	DEPDC3, DEP.7, FLJ31819, PGR22
2	GPR155	ENSG00000163328	ENST00000392551	protein_coding	KNOWN	CCDS2259	22951	2613	870	175298880	175351822	-1	None	DEPDC3, DEP.7, FLJ31819, PGR22
2	GPR155	ENSG00000163328	ENST00000295500	protein_coding	KNOWN	CCDS2259	22951	2613	870	175299872	175351765	-1	None	DEPDC3, DEP.7, FLJ31819, PGR22
2	GPR155	ENSG00000163328	ENST00000459996	processed_transcript	KNOWN	None	22951	None	None	175301034	175310150	-1	None	DEPDC3, DEP.7, FLJ31819, PGR22
2	GPR155	ENSG00000163328	ENST00000497620	processed_transcript	PUTATIVE	None	22951	None	None	175347601	175351728	-1	None	DEPDC3, DEP.7, FLJ31819, PGR22
1	TMEM125	ENSG00000179178	ENST00000439858	protein_coding	KNOWN	CCDS480	28275	660	219	43735665	43739673	1	None	MGC17299
1	TMEM125	ENSG00000179178	ENST00000432792	protein_coding	KNOWN	CCDS480	28275	660	219	43735696	43739673	1	None	MGC17299
1	TMEM125	ENSG00000179178	ENST00000442284	processed_transcript	KNOWN	None	28275	None	None	43735718	43736491	1	None	MGC17299
1	TMEM125	ENSG00000179178	ENST00000456751	protein_coding	KNOWN	None	28275	47	14	43736617	43738440	1	None	MGC17299
6	LHFPL5	ENSG00000197753	ENST00000373853	protein_coding	KNOWN	CCDS4812	21253	660	219	35773070	35787224	1	DFNB67	MGC33835, dJ510O8.8, Tmhs
6	LHFPL5	ENSG00000197753	ENST00000496656	processed_transcript	KNOWN	None	21253	None	None	35779022	35801651	1	DFNB67	MGC33835, dJ510O8.8, Tmhs
6	LHFPL5	ENSG00000197753	ENST00000360215	protein_coding	KNOWN	CCDS4812	21253	660	219	35773071	35791852	1	DFNB67	MGC33835, dJ510O8.8, Tmhs
4	MFAP3L	ENSG00000198948	ENST00000393704	protein_coding	KNOWN	CCDS43281	29083	921	306	170907748	170924935	-1	None	KIAA0626, NYD-sp9
4	MFAP3L	ENSG00000198948	ENST00000361618	protein_coding	KNOWN	CCDS34103	29083	1230	409	170907749	170947559	-1	None	KIAA0626, NYD-sp9
4	MFAP3L	ENSG00000198948	ENST00000512698	protein_coding	KNOWN	None	29083	470	155	170912980	170947467	-1	None	KIAA0626, NYD-sp9
4	MFAP3L	ENSG00000198948	ENST00000502832	protein_coding	KNOWN	None	29083	191	62	170913259	170924907	-1	None	KIAA0626, NYD-sp9
4	MFAP3L	ENSG00000198948	ENST00000507601	protein_coding	PUTATIVE	None	29083	134	43	170913316	170947446	-1	None	KIAA0626, NYD-sp9
4	MFAP3L	ENSG00000198948	ENST00000393702	protein_coding	PUTATIVE	None	29083	309	102	170926142	170948361	-1	None	KIAA0626, NYD-sp9
4	MFAP3L	ENSG00000198948	ENST00000506110	protein_coding	PUTATIVE	None	29083	309	102	170926684	170953363	-1	None	KIAA0626, NYD-sp9
4	MFAP3L	ENSG00000198948	ENST00000504999	protein_coding	KNOWN	None	29083	294	97	170926735	170947490	-1	None	KIAA0626, NYD-sp9
4	MFAP3L	ENSG00000198948	ENST00000506764	protein_coding	KNOWN	None	29083	270	89	170926759	170947581	-1	None	KIAA0626, NYD-sp9
4	MFAP3L	ENSG00000198948	ENST00000510306	protein_coding	KNOWN	None	29083	219	72	170926810	170928126	-1	None	KIAA0626, NYD-sp9
4	MFAP3L	ENSG00000198948	ENST00000514683	processed_transcript	PUTATIVE	None	29083	None	None	170952925	170954182	-1	None	KIAA0626, NYD-sp9
1	C1orf210	ENSG00000253313	ENST00000523677	protein_coding	KNOWN	CCDS481	28755	342	113	43747554	43751250	-1	None	MGC52423
1	C1orf210	ENSG00000253313	ENST00000423420	protein_coding	KNOWN	CCDS481	28755	342	113	43748332	43751288	-1	None	MGC52423
5	UBE2B	ENSG00000119048	ENST00000265339	protein_coding	KNOWN	CCDS4174	12473	459	152	133706870	133727683	1	None	UBC2, HHR6B, RAD6B
5	UBE2B	ENSG00000119048	ENST00000510021	nonsense_mediated_decay	KNOWN	None	12473	135	44	133707160	133725989	1	None	UBC2, HHR6B, RAD6B
5	UBE2B	ENSG00000119048	ENST00000511807	processed_transcript	KNOWN	None	12473	None	None	133707193	133726127	1	None	UBC2, HHR6B, RAD6B
5	UBE2B	ENSG00000119048	ENST00000506787	protein_coding	PUTATIVE	None	12473	417	138	133707290	133726012	1	None	UBC2, HHR6B, RAD6B
5	UBE2B	ENSG00000119048	ENST00000507277	protein_coding	NOVEL	None	12473	424	140	133707295	133726264	1	None	UBC2, HHR6B, RAD6B
5	UBE2B	ENSG00000119048	ENST00000504431	retained_intron	KNOWN	None	12473	None	None	133707297	133710274	1	None	UBC2, HHR6B, RAD6B
5	UBE2B	ENSG00000119048	ENST00000499038	processed_transcript	KNOWN	None	12473	None	None	133721294	133726474	1	None	UBC2, HHR6B, RAD6B
5	UBE2B	ENSG00000119048	ENST00000503080	retained_intron	KNOWN	None	12473	None	None	133723829	133726296	1	None	UBC2, HHR6B, RAD6B
5	MARCH3	ENSG00000173926	ENST00000308660	protein_coding	KNOWN	CCDS4141	28728	762	253	126203406	126366500	-1	None	MGC48332, MARCH-III, RNF173
5	MARCH3	ENSG00000173926	ENST00000506088	retained_intron	KNOWN	None	28728	None	None	126205883	126214089	-1	None	MGC48332, MARCH-III, RNF173
5	MARCH3	ENSG00000173926	ENST00000504239	processed_transcript	PUTATIVE	None	28728	None	None	126234565	126250682	-1	None	MGC48332, MARCH-III, RNF173
5	MARCH3	ENSG00000173926	ENST00000515241	protein_coding	PUTATIVE	None	28728	417	138	126250353	126253920	-1	None	MGC48332, MARCH-III, RNF173
5	MARCH3	ENSG00000173926	ENST00000502289	processed_transcript	KNOWN	None	28728	None	None	126250623	126365861	-1	None	MGC48332, MARCH-III, RNF173
1	PIGR	ENSG00000162896	ENST00000356495	protein_coding	KNOWN	CCDS1474	8968	2295	764	207101863	207119811	-1	None	None
1	PIGR	ENSG00000162896	ENST00000487208	processed_transcript	PUTATIVE	None	8968	None	None	207104779	207105178	-1	None	None
1	PIGR	ENSG00000162896	ENST00000491503	processed_transcript	PUTATIVE	None	8968	None	None	207110891	207112811	-1	None	None
7	None	ENSG00000236310	ENST00000416150	processed_transcript	PUTATIVE	None	None	None	None	41706766	41744933	-1	None	None
11	TALDO1	ENSG00000177156	ENST00000319006	protein_coding	KNOWN	CCDS7712	11559	1014	337	747329	765024	1	None	None
11	TALDO1	ENSG00000177156	ENST00000528070	nonsense_mediated_decay	KNOWN	None	11559	153	50	747415	763520	1	None	None
11	TALDO1	ENSG00000177156	ENST00000532685	retained_intron	KNOWN	None	11559	None	None	747417	756284	1	None	None
11	TALDO1	ENSG00000177156	ENST00000528097	protein_coding	PUTATIVE	None	11559	957	318	747428	765012	1	None	None
11	TALDO1	ENSG00000177156	ENST00000530440	nonsense_mediated_decay	KNOWN	None	11559	282	93	747454	763850	1	None	None
11	TALDO1	ENSG00000177156	ENST00000530119	retained_intron	KNOWN	None	11559	None	None	747464	760965	1	None	None
11	TALDO1	ENSG00000177156	ENST00000533796	retained_intron	KNOWN	None	11559	None	None	755744	760257	1	None	None
11	TALDO1	ENSG00000177156	ENST00000530666	retained_intron	KNOWN	None	11559	None	None	763982	764947	1	None	None
11	TALDO1	ENSG00000177156	ENST00000532202	processed_transcript	PUTATIVE	None	11559	None	None	764370	765005	1	None	None
7	SEPT7	ENSG00000122545	ENST00000435235	protein_coding	NOVEL	None	1717	1155	384	35840542	35944917	1	CDC10	CDC3, SEPT7A
7	SEPT7	ENSG00000122545	ENST00000493626	processed_transcript	KNOWN	None	1717	None	None	35840829	35872455	1	CDC10	CDC3, SEPT7A
7	SEPT7	ENSG00000122545	ENST00000475109	processed_transcript	KNOWN	None	1717	None	None	35840829	35919550	1	CDC10	CDC3, SEPT7A
7	SEPT7	ENSG00000122545	ENST00000425198	nonsense_mediated_decay	KNOWN	None	1717	1122	373	35872408	35944915	1	CDC10	CDC3, SEPT7A
7	SEPT7	ENSG00000122545	ENST00000473201	retained_intron	KNOWN	None	1717	None	None	35903162	35913728	1	CDC10	CDC3, SEPT7A
7	SEPT7	ENSG00000122545	ENST00000492940	retained_intron	KNOWN	None	1717	None	None	35930128	35938137	1	CDC10	CDC3, SEPT7A
7	SEPT7	ENSG00000122545	ENST00000485569	processed_transcript	KNOWN	None	1717	None	None	35930354	35942799	1	CDC10	CDC3, SEPT7A
7	SEPT7	ENSG00000122545	ENST00000399034	protein_coding	KNOWN	None	1717	1317	438	35840627	35944915	1	CDC10	CDC3, SEPT7A
7	SEPT7	ENSG00000122545	ENST00000350320	protein_coding	KNOWN	None	1717	1311	436	35840627	35944915	1	CDC10	CDC3, SEPT7A
7	SEPT7	ENSG00000122545	ENST00000399035	protein_coding	KNOWN	None	1717	1311	436	35840820	35944915	1	CDC10	CDC3, SEPT7A
7	SEPT7	ENSG00000122545	ENST00000469679	protein_coding	KNOWN	None	1717	705	234	35840627	35928455	1	CDC10	CDC3, SEPT7A
7	SEPT7	ENSG00000122545	ENST00000494488	protein_coding	KNOWN	None	1717	1146	381	35871700	35944915	1	CDC10	CDC3, SEPT7A
7	SEPT7	ENSG00000122545	ENST00000432293	protein_coding	KNOWN	None	1717	267	88	35919526	35944915	1	CDC10	CDC3, SEPT7A
6	ATG5	ENSG00000057663	ENST00000475645	processed_transcript	KNOWN	None	589	None	None	106632351	106650304	-1	APG5L	ASP, APG5, hAPG5
6	ATG5	ENSG00000057663	ENST00000343245	protein_coding	KNOWN	CCDS5055	589	828	275	106632351	106773292	-1	APG5L	ASP, APG5, hAPG5
6	ATG5	ENSG00000057663	ENST00000369076	protein_coding	KNOWN	CCDS5055	589	828	275	106632351	106773666	-1	APG5L	ASP, APG5, hAPG5
6	ATG5	ENSG00000057663	ENST00000369070	protein_coding	KNOWN	None	589	594	197	106632351	106773666	-1	APG5L	ASP, APG5, hAPG5
6	ATG5	ENSG00000057663	ENST00000476518	processed_transcript	KNOWN	None	589	None	None	106649621	106727698	-1	APG5L	ASP, APG5, hAPG5
6	ATG5	ENSG00000057663	ENST00000360666	protein_coding	KNOWN	None	589	276	91	106632366	106773532	-1	APG5L	ASP, APG5, hAPG5
6	MDFI	ENSG00000112559	ENST00000432027	protein_coding	KNOWN	None	6967	640	212	41604620	41621212	1	None	I-mfa
6	MDFI	ENSG00000112559	ENST00000419164	protein_coding	KNOWN	None	6967	694	230	41604770	41621266	1	None	I-mfa
6	MDFI	ENSG00000112559	ENST00000373051	protein_coding	KNOWN	CCDS4857	6967	741	246	41604806	41621977	1	None	I-mfa
6	MDFI	ENSG00000112559	ENST00000441667	protein_coding	KNOWN	None	6967	294	97	41606176	41617391	1	None	I-mfa
6	MDFI	ENSG00000112559	ENST00000230321	protein_coding	KNOWN	CCDS4857	6967	741	246	41606185	41621984	1	None	I-mfa
6	MDFI	ENSG00000112559	ENST00000373050	protein_coding	NOVEL	None	6967	558	185	41606215	41621377	1	None	I-mfa
6	MDFI	ENSG00000112559	ENST00000446650	protein_coding	KNOWN	None	6967	384	127	41606237	41617481	1	None	I-mfa
6	MDFI	ENSG00000112559	ENST00000435476	protein_coding	NOVEL	None	6967	427	141	41606265	41621182	1	None	I-mfa
6	MDFI	ENSG00000112559	ENST00000471092	retained_intron	KNOWN	None	6967	None	None	41613992	41617850	1	None	I-mfa
4	TMEM165	ENSG00000134851	ENST00000506198	protein_coding	PUTATIVE	None	30760	390	129	56262124	56291824	1	None	TMPT27, TPARL, GDT1
4	TMEM165	ENSG00000134851	ENST00000381334	protein_coding	KNOWN	CCDS3499	30760	975	324	56262124	56292339	1	None	TMPT27, TPARL, GDT1
4	TMEM165	ENSG00000134851	ENST00000508404	nonsense_mediated_decay	KNOWN	None	30760	231	76	56262130	56291971	1	None	TMPT27, TPARL, GDT1
4	TMEM165	ENSG00000134851	ENST00000514070	processed_transcript	KNOWN	None	30760	None	None	56262418	56263572	1	None	TMPT27, TPARL, GDT1
4	TMEM165	ENSG00000134851	ENST00000511710	processed_transcript	KNOWN	None	30760	None	None	56265090	56283412	1	None	TMPT27, TPARL, GDT1
4	TMEM165	ENSG00000134851	ENST00000502797	retained_intron	KNOWN	None	30760	None	None	56269410	56278323	1	None	TMPT27, TPARL, GDT1
4	TMEM165	ENSG00000134851	ENST00000514904	processed_transcript	KNOWN	None	30760	None	None	56281438	56291712	1	None	TMPT27, TPARL, GDT1
4	TMEM165	ENSG00000134851	ENST00000508561	processed_transcript	KNOWN	None	30760	None	None	56283090	56291704	1	None	TMPT27, TPARL, GDT1
4	TMEM165	ENSG00000134851	ENST00000509575	retained_intron	KNOWN	None	30760	None	None	56283858	56290979	1	None	TMPT27, TPARL, GDT1
4	TMEM165	ENSG00000134851	ENST00000506103	retained_intron	KNOWN	None	30760	None	None	56284003	56291893	1	None	TMPT27, TPARL, GDT1
4	TMEM165	ENSG00000134851	ENST00000515591	retained_intron	KNOWN	None	30760	None	None	56289281	56291798	1	None	TMPT27, TPARL, GDT1
4	TMEM165	ENSG00000134851	ENST00000542052	protein_coding	KNOWN	None	30760	786	261	56262130	56291971	1	None	TMPT27, TPARL, GDT1
1	TIE1	ENSG00000066056	ENST00000372476	protein_coding	KNOWN	CCDS482	11809	3417	1138	43766664	43788779	1	TIE	JTK14
1	TIE1	ENSG00000066056	ENST00000485125	processed_transcript	KNOWN	None	11809	None	None	43768121	43771014	1	TIE	JTK14
1	TIE1	ENSG00000066056	ENST00000480269	processed_transcript	KNOWN	None	11809	None	None	43772813	43774716	1	TIE	JTK14
1	TIE1	ENSG00000066056	ENST00000488437	processed_transcript	KNOWN	None	11809	None	None	43774718	43778272	1	TIE	JTK14
1	TIE1	ENSG00000066056	ENST00000471187	processed_transcript	KNOWN	None	11809	None	None	43778845	43779821	1	TIE	JTK14
1	TIE1	ENSG00000066056	ENST00000461061	processed_transcript	KNOWN	None	11809	None	None	43778859	43780962	1	TIE	JTK14
1	TIE1	ENSG00000066056	ENST00000473014	processed_transcript	KNOWN	None	11809	None	None	43778963	43786551	1	TIE	JTK14
1	TIE1	ENSG00000066056	ENST00000492599	processed_transcript	KNOWN	None	11809	None	None	43783601	43785153	1	TIE	JTK14
1	TIE1	ENSG00000066056	ENST00000492874	processed_transcript	KNOWN	None	11809	None	None	43785134	43786094	1	TIE	JTK14
1	TIE1	ENSG00000066056	ENST00000441333	protein_coding	KNOWN	None	11809	954	317	43766743	43775099	1	TIE	JTK14
1	TIE1	ENSG00000066056	ENST00000538015	protein_coding	KNOWN	None	11809	1140	379	43766743	43774639	1	TIE	JTK14
1	TIE1	ENSG00000066056	ENST00000433781	protein_coding	KNOWN	None	11809	2352	783	43772891	43788496	1	TIE	JTK14
2	C1D	ENSG00000197223	ENST00000355848	protein_coding	KNOWN	CCDS1883	29911	426	141	68268262	68290115	-1	None	SUNCOR, SUN-CoR, LRP1
2	C1D	ENSG00000197223	ENST00000407324	protein_coding	PUTATIVE	None	29911	543	180	68269341	68290114	-1	None	SUNCOR, SUN-CoR, LRP1
2	C1D	ENSG00000197223	ENST00000410067	protein_coding	KNOWN	CCDS1883	29911	426	141	68269788	68290157	-1	None	SUNCOR, SUN-CoR, LRP1
2	C1D	ENSG00000197223	ENST00000409302	protein_coding	KNOWN	CCDS1883	29911	426	141	68269809	68290141	-1	None	SUNCOR, SUN-CoR, LRP1
2	C1D	ENSG00000197223	ENST00000479484	retained_intron	KNOWN	None	29911	None	None	68269846	68273700	-1	None	SUNCOR, SUN-CoR, LRP1
2	C1D	ENSG00000197223	ENST00000485709	retained_intron	KNOWN	None	29911	None	None	68269964	68290126	-1	None	SUNCOR, SUN-CoR, LRP1
2	C1D	ENSG00000197223	ENST00000470189	processed_transcript	KNOWN	None	29911	None	None	68274409	68338080	-1	None	SUNCOR, SUN-CoR, LRP1
17	UTP18	ENSG00000011260	ENST00000225298	protein_coding	KNOWN	CCDS42362	24274	1671	556	49337889	49375294	1	WDR50	CGI-48
17	UTP18	ENSG00000011260	ENST00000508506	nonsense_mediated_decay	KNOWN	None	24274	130	42	49353229	49365541	1	WDR50	CGI-48
17	UTP18	ENSG00000011260	ENST00000583725	protein_coding	PUTATIVE	None	24274	534	177	49354524	49365438	1	WDR50	CGI-48
17	UTP18	ENSG00000011260	ENST00000583205	nonsense_mediated_decay	KNOWN	None	24274	432	143	49357377	49375239	1	WDR50	CGI-48
17	UTP18	ENSG00000011260	ENST00000579261	protein_coding	PUTATIVE	None	24274	371	122	49357811	49375297	1	WDR50	CGI-48
17	UTP18	ENSG00000011260	ENST00000582832	protein_coding	PUTATIVE	None	24274	348	115	49362629	49375291	1	WDR50	CGI-48
17	UTP18	ENSG00000011260	ENST00000582150	retained_intron	KNOWN	None	24274	None	None	49373616	49375290	1	WDR50	CGI-48
X	GYG2	ENSG00000056998	ENST00000398806	protein_coding	KNOWN	CCDS48074	4700	1413	470	2746829	2799481	1	None	GN-2
X	GYG2	ENSG00000056998	ENST00000381163	protein_coding	KNOWN	CCDS14121	4700	1506	501	2746863	2800859	1	None	GN-2
X	GYG2	ENSG00000056998	ENST00000381161	processed_transcript	KNOWN	None	4700	None	None	2746955	2800858	1	None	GN-2
X	GYG2	ENSG00000056998	ENST00000520904	protein_coding	KNOWN	None	4700	413	136	2747313	2773122	1	None	GN-2
X	GYG2	ENSG00000056998	ENST00000469234	processed_transcript	KNOWN	None	4700	None	None	2748102	2774664	1	None	GN-2
X	GYG2	ENSG00000056998	ENST00000353656	processed_transcript	KNOWN	None	4700	None	None	2761039	2799254	1	None	GN-2
X	GYG2	ENSG00000056998	ENST00000453106	processed_transcript	KNOWN	None	4700	None	None	2772101	2795484	1	None	GN-2
X	GYG2	ENSG00000056998	ENST00000381157	protein_coding	NOVEL	None	4700	731	242	2773162	2799132	1	None	GN-2
X	GYG2	ENSG00000056998	ENST00000338623	protein_coding	KNOWN	None	4700	1398	465	2746863	2800851	1	None	GN-2
X	GYG2	ENSG00000056998	ENST00000542787	protein_coding	KNOWN	CCDS55365	4700	1293	430	2746863	2800851	1	None	GN-2
4	MGST2	ENSG00000085871	ENST00000265498	protein_coding	KNOWN	CCDS3749	7063	444	147	140586922	140625407	1	None	MGST-II
4	MGST2	ENSG00000085871	ENST00000506797	protein_coding	PUTATIVE	CCDS56339	7063	234	77	140586989	140625378	1	None	MGST-II
4	MGST2	ENSG00000085871	ENST00000515137	processed_transcript	KNOWN	None	7063	None	None	140587087	140661899	1	None	MGST-II
4	MGST2	ENSG00000085871	ENST00000502587	retained_intron	KNOWN	None	7063	None	None	140587151	140600278	1	None	MGST-II
4	MGST2	ENSG00000085871	ENST00000503816	nonsense_mediated_decay	KNOWN	CCDS3749	7063	444	147	140587170	140652589	1	None	MGST-II
4	MGST2	ENSG00000085871	ENST00000515067	processed_transcript	KNOWN	None	7063	None	None	140587182	140625222	1	None	MGST-II
19	PRR12	ENSG00000126464	ENST00000418929	protein_coding	NOVEL	CCDS46143	29217	6111	2036	50094900	50129696	1	KIAA1205	None
19	PRR12	ENSG00000126464	ENST00000593853	retained_intron	KNOWN	None	29217	None	None	50123706	50125017	1	KIAA1205	None
1	FCAMR	ENSG00000162897	ENST00000324863	nonsense_mediated_decay	KNOWN	None	24692	153	50	207131310	207143805	-1	None	FKSG87, FCA/MR, CD351
1	FCAMR	ENSG00000162897	ENST00000324852	protein_coding	NOVEL	CCDS53468	24692	1734	577	207131465	207143945	-1	None	FKSG87, FCA/MR, CD351
1	FCAMR	ENSG00000162897	ENST00000450945	protein_coding	KNOWN	CCDS41460	24692	798	265	207131510	207143494	-1	None	FKSG87, FCA/MR, CD351
1	FCAMR	ENSG00000162897	ENST00000486178	processed_transcript	KNOWN	None	24692	None	None	207131853	207134180	-1	None	FKSG87, FCA/MR, CD351
1	FCAMR	ENSG00000162897	ENST00000487149	processed_transcript	KNOWN	None	24692	None	None	207135638	207143827	-1	None	FKSG87, FCA/MR, CD351
1	FCAMR	ENSG00000162897	ENST00000488345	processed_transcript	KNOWN	None	24692	None	None	207135700	207143845	-1	None	FKSG87, FCA/MR, CD351
1	FCAMR	ENSG00000162897	ENST00000400962	protein_coding	KNOWN	CCDS41460	24692	798	265	207131312	207143970	-1	None	FKSG87, FCA/MR, CD351
12	VEZT	ENSG00000028203	ENST00000549589	processed_transcript	KNOWN	None	18258	None	None	95611522	95650957	1	None	DKFZP761C241
12	VEZT	ENSG00000028203	ENST00000550803	nonsense_mediated_decay	KNOWN	None	18258	240	79	95611522	95656850	1	None	DKFZP761C241
12	VEZT	ENSG00000028203	ENST00000436874	protein_coding	KNOWN	CCDS44954	18258	2340	779	95611522	95696566	1	None	DKFZP761C241
12	VEZT	ENSG00000028203	ENST00000547611	nonsense_mediated_decay	KNOWN	None	18258	198	65	95611529	95681495	1	None	DKFZP761C241
12	VEZT	ENSG00000028203	ENST00000547997	nonsense_mediated_decay	KNOWN	None	18258	240	79	95611537	95694948	1	None	DKFZP761C241
12	VEZT	ENSG00000028203	ENST00000549002	protein_coding	NOVEL	None	18258	477	158	95611538	95660265	1	None	DKFZP761C241
12	VEZT	ENSG00000028203	ENST00000546557	nonsense_mediated_decay	KNOWN	None	18258	240	79	95611540	95668667	1	None	DKFZP761C241
12	VEZT	ENSG00000028203	ENST00000551746	processed_transcript	KNOWN	None	18258	None	None	95611556	95660260	1	None	DKFZP761C241
12	VEZT	ENSG00000028203	ENST00000548838	nonsense_mediated_decay	KNOWN	None	18258	198	65	95611575	95694946	1	None	DKFZP761C241
12	VEZT	ENSG00000028203	ENST00000547484	nonsense_mediated_decay	KNOWN	None	18258	240	79	95611584	95656188	1	None	DKFZP761C241
12	VEZT	ENSG00000028203	ENST00000551472	protein_coding	NOVEL	None	18258	567	188	95611586	95660208	1	None	DKFZP761C241
12	VEZT	ENSG00000028203	ENST00000551792	retained_intron	KNOWN	None	18258	None	None	95611587	95646216	1	None	DKFZP761C241
12	VEZT	ENSG00000028203	ENST00000553063	processed_transcript	KNOWN	None	18258	None	None	95611587	95660211	1	None	DKFZP761C241
12	VEZT	ENSG00000028203	ENST00000548455	nonsense_mediated_decay	KNOWN	None	18258	240	79	95611587	95663963	1	None	DKFZP761C241
12	VEZT	ENSG00000028203	ENST00000546398	processed_transcript	KNOWN	None	18258	None	None	95611587	95687960	1	None	DKFZP761C241
12	VEZT	ENSG00000028203	ENST00000552031	processed_transcript	KNOWN	None	18258	None	None	95611588	95651015	1	None	DKFZP761C241
12	VEZT	ENSG00000028203	ENST00000548822	nonsense_mediated_decay	KNOWN	None	18258	297	98	95611588	95656849	1	None	DKFZP761C241
12	VEZT	ENSG00000028203	ENST00000549624	nonsense_mediated_decay	KNOWN	None	18258	240	79	95611588	95656857	1	None	DKFZP761C241
12	VEZT	ENSG00000028203	ENST00000548245	nonsense_mediated_decay	KNOWN	None	18258	300	99	95611588	95660204	1	None	DKFZP761C241
12	VEZT	ENSG00000028203	ENST00000552626	processed_transcript	KNOWN	None	18258	None	None	95611588	95660365	1	None	DKFZP761C241
12	VEZT	ENSG00000028203	ENST00000552660	nonsense_mediated_decay	KNOWN	None	18258	240	79	95611588	95694697	1	None	DKFZP761C241
12	VEZT	ENSG00000028203	ENST00000551039	nonsense_mediated_decay	KNOWN	None	18258	105	34	95611594	95660160	1	None	DKFZP761C241
12	VEZT	ENSG00000028203	ENST00000551994	nonsense_mediated_decay	KNOWN	None	18258	180	59	95611594	95694430	1	None	DKFZP761C241
12	VEZT	ENSG00000028203	ENST00000549192	retained_intron	KNOWN	None	18258	None	None	95611600	95690732	1	None	DKFZP761C241
12	VEZT	ENSG00000028203	ENST00000552821	protein_coding	NOVEL	None	18258	457	151	95611602	95660182	1	None	DKFZP761C241
12	VEZT	ENSG00000028203	ENST00000548371	nonsense_mediated_decay	KNOWN	None	18258	198	65	95611618	95681640	1	None	DKFZP761C241
12	VEZT	ENSG00000028203	ENST00000550106	processed_transcript	KNOWN	None	18258	None	None	95611841	95694948	1	None	DKFZP761C241
12	VEZT	ENSG00000028203	ENST00000547894	processed_transcript	KNOWN	None	18258	None	None	95611892	95656855	1	None	DKFZP761C241
12	VEZT	ENSG00000028203	ENST00000551695	processed_transcript	PUTATIVE	None	18258	None	None	95611905	95693212	1	None	DKFZP761C241
12	VEZT	ENSG00000028203	ENST00000551356	processed_transcript	KNOWN	None	18258	None	None	95612005	95660283	1	None	DKFZP761C241
12	VEZT	ENSG00000028203	ENST00000551311	protein_coding	PUTATIVE	None	18258	268	88	95612006	95656835	1	None	DKFZP761C241
12	VEZT	ENSG00000028203	ENST00000546365	processed_transcript	KNOWN	None	18258	None	None	95612030	95660200	1	None	DKFZP761C241
12	VEZT	ENSG00000028203	ENST00000551902	processed_transcript	KNOWN	None	18258	None	None	95612031	95660409	1	None	DKFZP761C241
12	VEZT	ENSG00000028203	ENST00000546445	protein_coding	PUTATIVE	None	18258	296	97	95612037	95660228	1	None	DKFZP761C241
12	VEZT	ENSG00000028203	ENST00000546409	processed_transcript	KNOWN	None	18258	None	None	95612086	95660251	1	None	DKFZP761C241
12	VEZT	ENSG00000028203	ENST00000397792	protein_coding	PUTATIVE	None	18258	2169	722	95625188	95694410	1	None	DKFZP761C241
12	VEZT	ENSG00000028203	ENST00000356859	processed_transcript	KNOWN	None	18258	None	None	95645721	95694948	1	None	DKFZP761C241
12	VEZT	ENSG00000028203	ENST00000552827	retained_intron	KNOWN	None	18258	None	None	95663600	95676307	1	None	DKFZP761C241
12	VEZT	ENSG00000028203	ENST00000552306	processed_transcript	PUTATIVE	None	18258	None	None	95688048	95694338	1	None	DKFZP761C241
12	VEZT	ENSG00000028203	ENST00000546951	processed_transcript	PUTATIVE	None	18258	None	None	95689845	95693258	1	None	DKFZP761C241
12	VEZT	ENSG00000028203	ENST00000261219	protein_coding	KNOWN	None	18258	2196	731	95611584	95694944	1	None	DKFZP761C241
8	EPHX2	ENSG00000120915	ENST00000521400	protein_coding	KNOWN	CCDS6060	3402	1668	555	27348296	27403081	1	None	None
8	EPHX2	ENSG00000120915	ENST00000518328	protein_coding	PUTATIVE	None	3402	475	157	27348298	27362601	1	None	None
8	EPHX2	ENSG00000120915	ENST00000520623	retained_intron	KNOWN	None	3402	None	None	27348642	27396772	1	None	None
8	EPHX2	ENSG00000120915	ENST00000517536	protein_coding	NOVEL	None	3402	1119	372	27348642	27402436	1	None	None
8	EPHX2	ENSG00000120915	ENST00000521780	protein_coding	NOVEL	CCDS59098	3402	1470	489	27348668	27402436	1	None	None
8	EPHX2	ENSG00000120915	ENST00000380476	protein_coding	PUTATIVE	CCDS59097	3402	1509	502	27348683	27402430	1	None	None
8	EPHX2	ENSG00000120915	ENST00000518379	protein_coding	PUTATIVE	None	3402	1572	523	27348709	27402409	1	None	None
8	EPHX2	ENSG00000120915	ENST00000520666	processed_transcript	KNOWN	None	3402	None	None	27348712	27364421	1	None	None
8	EPHX2	ENSG00000120915	ENST00000521684	protein_coding	PUTATIVE	None	3402	935	310	27348727	27380026	1	None	None
8	EPHX2	ENSG00000120915	ENST00000523827	processed_transcript	KNOWN	None	3402	None	None	27350359	27361276	1	None	None
8	EPHX2	ENSG00000120915	ENST00000521924	retained_intron	KNOWN	None	3402	None	None	27362564	27369617	1	None	None
8	EPHX2	ENSG00000120915	ENST00000523326	retained_intron	KNOWN	None	3402	None	None	27372980	27380004	1	None	None
12	None	ENSG00000180574	ENST00000322446	protein_coding	PUTATIVE	None	None	1401	466	10658201	10675734	1	None	None
12	None	ENSG00000180574	ENST00000538173	protein_coding	KNOWN	None	None	1419	472	10658489	10660090	1	None	None
16	ERI2	ENSG00000196678	ENST00000300005	protein_coding	KNOWN	CCDS10590	30541	987	328	20791515	20817795	-1	EXOD1	KIAA1504, MGC16943
16	ERI2	ENSG00000196678	ENST00000562987	retained_intron	KNOWN	None	30541	None	None	20802100	20812075	-1	EXOD1	KIAA1504, MGC16943
16	ERI2	ENSG00000196678	ENST00000564349	protein_coding	KNOWN	None	30541	1797	598	20807662	20911671	-1	EXOD1	KIAA1504, MGC16943
16	ERI2	ENSG00000196678	ENST00000562215	retained_intron	KNOWN	None	30541	None	None	20807666	20811511	-1	EXOD1	KIAA1504, MGC16943
16	ERI2	ENSG00000196678	ENST00000569729	protein_coding	KNOWN	None	30541	840	279	20807666	20817798	-1	EXOD1	KIAA1504, MGC16943
16	ERI2	ENSG00000196678	ENST00000568805	nonsense_mediated_decay	KNOWN	None	30541	471	156	20808506	20817794	-1	EXOD1	KIAA1504, MGC16943
16	ERI2	ENSG00000196678	ENST00000563117	protein_coding	KNOWN	None	30541	1797	598	20808696	20817998	-1	EXOD1	KIAA1504, MGC16943
16	ERI2	ENSG00000196678	ENST00000567859	retained_intron	KNOWN	None	30541	None	None	20812469	20817768	-1	EXOD1	KIAA1504, MGC16943
16	ERI2	ENSG00000196678	ENST00000563537	processed_transcript	KNOWN	None	30541	None	None	20814225	20817791	-1	EXOD1	KIAA1504, MGC16943
16	ERI2	ENSG00000196678	ENST00000565884	processed_transcript	KNOWN	None	30541	None	None	20814240	20817441	-1	EXOD1	KIAA1504, MGC16943
16	ERI2	ENSG00000196678	ENST00000567562	processed_transcript	KNOWN	None	30541	None	None	20814240	20817772	-1	EXOD1	KIAA1504, MGC16943
16	ERI2	ENSG00000196678	ENST00000562277	processed_transcript	KNOWN	None	30541	None	None	20814747	20817427	-1	EXOD1	KIAA1504, MGC16943
16	ERI2	ENSG00000196678	ENST00000566223	processed_transcript	KNOWN	None	30541	None	None	20814790	20817772	-1	EXOD1	KIAA1504, MGC16943
16	ERI2	ENSG00000196678	ENST00000568251	processed_transcript	KNOWN	None	30541	None	None	20817109	20817772	-1	EXOD1	KIAA1504, MGC16943
16	ERI2	ENSG00000196678	ENST00000357967	protein_coding	KNOWN	CCDS45436	30541	2076	691	20807666	20817795	-1	EXOD1	KIAA1504, MGC16943
16	ERI2	ENSG00000196678	ENST00000389345	protein_coding	KNOWN	None	30541	1281	426	20808506	20817794	-1	EXOD1	KIAA1504, MGC16943
15	USP8	ENSG00000138592	ENST00000560297	protein_coding	KNOWN	None	12631	290	95	50716577	50741637	1	None	HumORF8, KIAA0055, UBPY
15	USP8	ENSG00000138592	ENST00000560954	processed_transcript	KNOWN	None	12631	None	None	50716579	50751331	1	None	HumORF8, KIAA0055, UBPY
15	USP8	ENSG00000138592	ENST00000307179	protein_coding	KNOWN	CCDS10137	12631	3357	1118	50716579	50791973	1	None	HumORF8, KIAA0055, UBPY
15	USP8	ENSG00000138592	ENST00000396444	protein_coding	KNOWN	CCDS10137	12631	3357	1118	50716579	50793280	1	None	HumORF8, KIAA0055, UBPY
15	USP8	ENSG00000138592	ENST00000425032	protein_coding	NOVEL	None	12631	3039	1012	50716584	50791612	1	None	HumORF8, KIAA0055, UBPY
15	USP8	ENSG00000138592	ENST00000558892	processed_transcript	KNOWN	None	12631	None	None	50716596	50736813	1	None	HumORF8, KIAA0055, UBPY
15	USP8	ENSG00000138592	ENST00000560885	processed_transcript	KNOWN	None	12631	None	None	50716602	50754502	1	None	HumORF8, KIAA0055, UBPY
15	USP8	ENSG00000138592	ENST00000559329	non_stop_decay	KNOWN	None	12631	1440	479	50716602	50773899	1	None	HumORF8, KIAA0055, UBPY
15	USP8	ENSG00000138592	ENST00000560730	nonsense_mediated_decay	KNOWN	None	12631	411	136	50716612	50773902	1	None	HumORF8, KIAA0055, UBPY
15	USP8	ENSG00000138592	ENST00000560982	protein_coding	KNOWN	None	12631	219	72	50716645	50733660	1	None	HumORF8, KIAA0055, UBPY
15	USP8	ENSG00000138592	ENST00000561211	nonsense_mediated_decay	KNOWN	None	12631	189	62	50716691	50757370	1	None	HumORF8, KIAA0055, UBPY
15	USP8	ENSG00000138592	ENST00000558091	protein_coding	KNOWN	None	12631	406	134	50719091	50751267	1	None	HumORF8, KIAA0055, UBPY
15	USP8	ENSG00000138592	ENST00000559242	nonsense_mediated_decay	KNOWN	None	12631	189	62	50731223	50754507	1	None	HumORF8, KIAA0055, UBPY
15	USP8	ENSG00000138592	ENST00000561330	nonsense_mediated_decay	KNOWN	None	12631	378	125	50731240	50773902	1	None	HumORF8, KIAA0055, UBPY
15	USP8	ENSG00000138592	ENST00000560527	processed_transcript	KNOWN	None	12631	None	None	50750700	50763932	1	None	HumORF8, KIAA0055, UBPY
15	USP8	ENSG00000138592	ENST00000561206	retained_intron	KNOWN	None	12631	None	None	50781691	50782627	1	None	HumORF8, KIAA0055, UBPY
15	USP8	ENSG00000138592	ENST00000419830	retained_intron	KNOWN	None	12631	None	None	50785382	50791892	1	None	HumORF8, KIAA0055, UBPY
15	USP8	ENSG00000138592	ENST00000560379	retained_intron	KNOWN	None	12631	None	None	50790694	50791604	1	None	HumORF8, KIAA0055, UBPY
15	USP8	ENSG00000138592	ENST00000433963	protein_coding	KNOWN	CCDS10137	12631	3357	1118	50716579	50793276	1	None	HumORF8, KIAA0055, UBPY
1	VPS45	ENSG00000136631	ENST00000369130	protein_coding	KNOWN	CCDS944	14579	1713	570	150039369	150117505	1	VPS45B, VPS45A	h-vps45, H1
1	VPS45	ENSG00000136631	ENST00000462852	processed_transcript	KNOWN	None	14579	None	None	150039405	150049857	1	VPS45B, VPS45A	h-vps45, H1
1	VPS45	ENSG00000136631	ENST00000478999	processed_transcript	KNOWN	None	14579	None	None	150039426	150040916	1	VPS45B, VPS45A	h-vps45, H1
1	VPS45	ENSG00000136631	ENST00000460366	processed_transcript	KNOWN	None	14579	None	None	150039823	150049168	1	VPS45B, VPS45A	h-vps45, H1
1	VPS45	ENSG00000136631	ENST00000497638	processed_transcript	KNOWN	None	14579	None	None	150039866	150049107	1	VPS45B, VPS45A	h-vps45, H1
1	VPS45	ENSG00000136631	ENST00000419023	protein_coding	KNOWN	None	14579	947	314	150039885	150064080	1	VPS45B, VPS45A	h-vps45, H1
1	VPS45	ENSG00000136631	ENST00000477558	processed_transcript	KNOWN	None	14579	None	None	150049269	150055386	1	VPS45B, VPS45A	h-vps45, H1
1	VPS45	ENSG00000136631	ENST00000472756	processed_transcript	KNOWN	None	14579	None	None	150064099	150064656	1	VPS45B, VPS45A	h-vps45, H1
1	VPS45	ENSG00000136631	ENST00000491789	processed_transcript	KNOWN	None	14579	None	None	150070958	150117505	1	VPS45B, VPS45A	h-vps45, H1
1	VPS45	ENSG00000136631	ENST00000484306	processed_transcript	KNOWN	None	14579	None	None	150081289	150117103	1	VPS45B, VPS45A	h-vps45, H1
1	VPS45	ENSG00000136631	ENST00000535106	protein_coding	KNOWN	None	14579	1305	434	150039864	150116900	1	VPS45B, VPS45A	h-vps45, H1
1	VPS45	ENSG00000136631	ENST00000369128	protein_coding	KNOWN	None	14579	1617	538	150039439	150117466	1	VPS45B, VPS45A	h-vps45, H1
14	LIN52	ENSG00000205659	ENST00000555028	protein_coding	KNOWN	CCDS32120	19856	351	116	74551499	74667936	1	C14orf46	None
14	LIN52	ENSG00000205659	ENST00000554938	protein_coding	NOVEL	None	19856	292	96	74551659	74665954	1	C14orf46	None
14	LIN52	ENSG00000205659	ENST00000553404	retained_intron	KNOWN	None	19856	None	None	74551663	74667141	1	C14orf46	None
14	LIN52	ENSG00000205659	ENST00000554076	processed_transcript	KNOWN	None	19856	None	None	74551666	74580998	1	C14orf46	None
14	LIN52	ENSG00000205659	ENST00000554289	retained_intron	KNOWN	None	19856	None	None	74552208	74564563	1	C14orf46	None
7	INHBA-AS1	ENSG00000224116	ENST00000415848	antisense	KNOWN	None	40303	None	None	41733514	41818986	1	None	None
7	INHBA-AS1	ENSG00000224116	ENST00000422822	antisense	KNOWN	None	40303	None	None	41733535	41752355	1	None	None
7	INHBA-AS1	ENSG00000224116	ENST00000420821	antisense	KNOWN	None	40303	None	None	41733546	41752792	1	None	None
11	NUP160	ENSG00000030066	ENST00000378460	protein_coding	KNOWN	CCDS31484	18017	4311	1436	47799639	47870019	-1	None	KIAA0197, FLJ22583
11	NUP160	ENSG00000030066	ENST00000530326	protein_coding	NOVEL	None	18017	3708	1235	47799789	47869865	-1	None	KIAA0197, FLJ22583
11	NUP160	ENSG00000030066	ENST00000532773	processed_transcript	KNOWN	None	18017	None	None	47806216	47808631	-1	None	KIAA0197, FLJ22583
11	NUP160	ENSG00000030066	ENST00000528071	protein_coding	NOVEL	None	18017	3114	1037	47813564	47862140	-1	None	KIAA0197, FLJ22583
11	NUP160	ENSG00000030066	ENST00000526569	processed_transcript	KNOWN	None	18017	None	None	47824989	47828067	-1	None	KIAA0197, FLJ22583
11	NUP160	ENSG00000030066	ENST00000527750	processed_transcript	PUTATIVE	None	18017	None	None	47825906	47827792	-1	None	KIAA0197, FLJ22583
11	NUP160	ENSG00000030066	ENST00000528501	protein_coding	NOVEL	None	18017	780	259	47830035	47843734	-1	None	KIAA0197, FLJ22583
11	NUP160	ENSG00000030066	ENST00000531016	processed_transcript	PUTATIVE	None	18017	None	None	47836643	47837572	-1	None	KIAA0197, FLJ22583
11	NUP160	ENSG00000030066	ENST00000527126	processed_transcript	KNOWN	None	18017	None	None	47842928	47843719	-1	None	KIAA0197, FLJ22583
11	NUP160	ENSG00000030066	ENST00000532747	protein_coding	PUTATIVE	None	18017	297	98	47857231	47869882	-1	None	KIAA0197, FLJ22583
11	NUP160	ENSG00000030066	ENST00000526870	protein_coding	KNOWN	None	18017	675	224	47861053	47870107	-1	None	KIAA0197, FLJ22583
11	NUP160	ENSG00000030066	ENST00000529863	processed_transcript	KNOWN	None	18017	None	None	47861498	47869886	-1	None	KIAA0197, FLJ22583
7	HMGN2P30	ENSG00000213721	ENST00000423237	processed_pseudogene	KNOWN	None	39397	None	None	42152964	42153219	1	None	None
7	None	ENSG00000238284	ENST00000455947	processed_transcript	KNOWN	None	None	None	None	42701325	42746046	-1	None	None
7	TCP1P1	ENSG00000229161	ENST00000412860	unprocessed_pseudogene	KNOWN	None	11659	None	None	42834505	42842093	1	TCP1L1	None
7	None	ENSG00000231539	ENST00000433315	lincRNA	KNOWN	None	None	None	None	42869271	42884037	-1	None	None
7	ACTL6B	ENSG00000077080	ENST00000160382	protein_coding	KNOWN	CCDS5702	160	1281	426	100240720	100254084	-1	ACTL6	BAF53B
7	ACTL6B	ENSG00000077080	ENST00000487125	retained_intron	KNOWN	None	160	None	None	100240765	100245361	-1	ACTL6	BAF53B
7	ACTL6B	ENSG00000077080	ENST00000485601	retained_intron	KNOWN	None	160	None	None	100245851	100254058	-1	ACTL6	BAF53B
7	ACTL6B	ENSG00000077080	ENST00000487225	retained_intron	KNOWN	None	160	None	None	100246352	100253989	-1	ACTL6	BAF53B
7	ACTL6B	ENSG00000077080	ENST00000489904	retained_intron	KNOWN	None	160	None	None	100247584	100253076	-1	ACTL6	BAF53B
7	ACTL6B	ENSG00000077080	ENST00000461605	protein_coding	PUTATIVE	None	160	199	65	100247686	100254056	-1	ACTL6	BAF53B
7	None	ENSG00000261019	ENST00000569883	lincRNA	KNOWN	None	None	None	None	42940871	42942238	-1	None	None
7	None	ENSG00000234983	ENST00000295493	processed_pseudogene	KNOWN	None	None	None	None	42958340	42959683	1	None	None
12	MAGOHB	ENSG00000111196	ENST00000398874	retained_intron	KNOWN	None	25504	None	None	10758612	10760639	-1	None	FLJ10292, MGN2
12	MAGOHB	ENSG00000111196	ENST00000539554	protein_coding	PUTATIVE	None	25504	309	102	10758612	10766190	-1	None	FLJ10292, MGN2
12	MAGOHB	ENSG00000111196	ENST00000544850	nonsense_mediated_decay	KNOWN	None	25504	273	90	10758612	10766193	-1	None	FLJ10292, MGN2
12	MAGOHB	ENSG00000111196	ENST00000537852	retained_intron	KNOWN	None	25504	None	None	10758612	10766199	-1	None	FLJ10292, MGN2
12	MAGOHB	ENSG00000111196	ENST00000320756	protein_coding	KNOWN	CCDS8628	25504	447	148	10758612	10766222	-1	None	FLJ10292, MGN2
12	MAGOHB	ENSG00000111196	ENST00000540074	nonsense_mediated_decay	KNOWN	None	25504	135	44	10758859	10766190	-1	None	FLJ10292, MGN2
12	MAGOHB	ENSG00000111196	ENST00000545236	nonsense_mediated_decay	KNOWN	None	25504	246	81	10758869	10766208	-1	None	FLJ10292, MGN2
12	MAGOHB	ENSG00000111196	ENST00000543929	nonsense_mediated_decay	KNOWN	None	25504	246	81	10761813	10766199	-1	None	FLJ10292, MGN2
12	MAGOHB	ENSG00000111196	ENST00000546173	nonsense_mediated_decay	KNOWN	None	25504	246	81	10761876	10766172	-1	None	FLJ10292, MGN2
12	MAGOHB	ENSG00000111196	ENST00000544176	retained_intron	KNOWN	None	25504	None	None	10762203	10766199	-1	None	FLJ10292, MGN2
12	MAGOHB	ENSG00000111196	ENST00000381881	protein_coding	KNOWN	None	25504	336	111	10758612	10766193	-1	None	FLJ10292, MGN2
7	None	ENSG00000232006	ENST00000588324	processed_transcript	PUTATIVE	None	None	None	None	42993734	43002942	-1	None	None
7	None	ENSG00000232006	ENST00000585996	processed_transcript	PUTATIVE	None	None	None	None	42995621	43087661	-1	None	None
2	WDR92	ENSG00000243667	ENST00000492039	processed_transcript	KNOWN	None	25176	None	None	68350068	68384678	-1	None	FLJ31741, Monad
2	WDR92	ENSG00000243667	ENST00000295121	protein_coding	KNOWN	CCDS1884	25176	1074	357	68356935	68384692	-1	None	FLJ31741, Monad
2	WDR92	ENSG00000243667	ENST00000457114	protein_coding	PUTATIVE	None	25176	278	91	68358892	68365917	-1	None	FLJ31741, Monad
2	WDR92	ENSG00000243667	ENST00000406245	protein_coding	PUTATIVE	None	25176	564	187	68361216	68384605	-1	None	FLJ31741, Monad
2	WDR92	ENSG00000243667	ENST00000409164	protein_coding	PUTATIVE	CCDS58712	25176	867	288	68361222	68384614	-1	None	FLJ31741, Monad
2	WDR92	ENSG00000243667	ENST00000468984	retained_intron	KNOWN	None	25176	None	None	68374599	68384681	-1	None	FLJ31741, Monad
1	C1orf116	ENSG00000182795	ENST00000359470	protein_coding	KNOWN	CCDS1475	28667	1806	601	207191866	207206092	-1	None	SARG, FLJ36507, MGC2742, MGC4309
1	C1orf116	ENSG00000182795	ENST00000461135	protein_coding	PUTATIVE	CCDS44306	28667	1068	355	207194040	207206101	-1	None	SARG, FLJ36507, MGC2742, MGC4309
2	WIPF1	ENSG00000115935	ENST00000392547	protein_coding	KNOWN	CCDS2260	12736	1512	503	175424300	175499307	-1	WASPIP	WIP
2	WIPF1	ENSG00000115935	ENST00000272746	protein_coding	KNOWN	None	12736	1533	510	175425498	175547627	-1	WASPIP	WIP
2	WIPF1	ENSG00000115935	ENST00000359761	protein_coding	KNOWN	CCDS2260	12736	1512	503	175426932	175547611	-1	WASPIP	WIP
2	WIPF1	ENSG00000115935	ENST00000392546	protein_coding	KNOWN	CCDS2260	12736	1512	503	175426939	175462934	-1	WASPIP	WIP
2	WIPF1	ENSG00000115935	ENST00000409891	protein_coding	KNOWN	None	12736	1482	493	175430889	175462493	-1	WASPIP	WIP
2	WIPF1	ENSG00000115935	ENST00000467149	processed_transcript	KNOWN	None	12736	None	None	175431805	175435374	-1	WASPIP	WIP
2	WIPF1	ENSG00000115935	ENST00000409415	protein_coding	NOVEL	None	12736	1212	403	175435897	175547599	-1	WASPIP	WIP
2	WIPF1	ENSG00000115935	ENST00000455428	protein_coding	NOVEL	None	12736	472	156	175437052	175450317	-1	WASPIP	WIP
2	WIPF1	ENSG00000115935	ENST00000410117	protein_coding	PUTATIVE	None	12736	396	131	175439458	175462497	-1	WASPIP	WIP
2	WIPF1	ENSG00000115935	ENST00000436221	protein_coding	KNOWN	None	12736	299	98	175439991	175462939	-1	WASPIP	WIP
2	WIPF1	ENSG00000115935	ENST00000480400	retained_intron	KNOWN	None	12736	None	None	175445868	175462532	-1	WASPIP	WIP
2	WIPF1	ENSG00000115935	ENST00000470752	processed_transcript	KNOWN	None	12736	None	None	175488209	175499333	-1	WASPIP	WIP
2	WIPF1	ENSG00000115935	ENST00000474332	retained_intron	KNOWN	None	12736	None	None	175490352	175495157	-1	WASPIP	WIP
2	WIPF1	ENSG00000115935	ENST00000488830	retained_intron	KNOWN	None	12736	None	None	175490438	175499264	-1	WASPIP	WIP
2	WIPF1	ENSG00000115935	ENST00000490887	processed_transcript	KNOWN	None	12736	None	None	175490585	175499307	-1	WASPIP	WIP
2	WIPF1	ENSG00000115935	ENST00000469002	processed_transcript	PUTATIVE	None	12736	None	None	175537995	175547575	-1	WASPIP	WIP
2	WIPF1	ENSG00000115935	ENST00000487291	processed_transcript	PUTATIVE	None	12736	None	None	175541065	175547644	-1	WASPIP	WIP
1	MPL	ENSG00000117400	ENST00000372470	protein_coding	KNOWN	CCDS483	7217	1908	635	43803478	43818443	1	None	CD110, TPOR
1	MPL	ENSG00000117400	ENST00000413998	protein_coding	KNOWN	None	7217	1650	549	43803520	43815208	1	None	CD110, TPOR
15	LOXL1	ENSG00000129038	ENST00000566011	nonsense_mediated_decay	KNOWN	None	6665	1296	431	74218330	74244260	1	None	LOXL, LOL
15	LOXL1	ENSG00000129038	ENST00000261921	protein_coding	KNOWN	CCDS10253	6665	1725	574	74218799	74244478	1	None	LOXL, LOL
15	LOXL1	ENSG00000129038	ENST00000566530	retained_intron	KNOWN	None	6665	None	None	74238709	74241916	1	None	LOXL, LOL
15	LOXL1	ENSG00000129038	ENST00000562548	retained_intron	KNOWN	None	6665	None	None	74239557	74244478	1	None	LOXL, LOL
15	LOXL1	ENSG00000129038	ENST00000567675	processed_transcript	KNOWN	None	6665	None	None	74240169	74244477	1	None	LOXL, LOL
19	RRAS	ENSG00000126458	ENST00000246792	protein_coding	KNOWN	CCDS12774	10447	657	218	50138549	50143458	-1	None	None
19	RRAS	ENSG00000126458	ENST00000601532	retained_intron	KNOWN	None	10447	None	None	50139069	50143379	-1	None	None
1	YOD1	ENSG00000180667	ENST00000315927	protein_coding	KNOWN	CCDS31002	25035	1047	348	207217194	207224422	-1	None	DKFZp451J1719, OTUD2, DUBA8
1	YOD1	ENSG00000180667	ENST00000367084	protein_coding	KNOWN	None	25035	915	304	207217194	207226325	-1	None	DKFZp451J1719, OTUD2, DUBA8
1	YOD1	ENSG00000180667	ENST00000391927	protein_coding	KNOWN	None	25035	915	304	207217194	207225580	-1	None	DKFZp451J1719, OTUD2, DUBA8
5	GEMIN5	ENSG00000082516	ENST00000285873	protein_coding	KNOWN	CCDS4330	20043	4527	1508	154266976	154317769	-1	None	None
5	GEMIN5	ENSG00000082516	ENST00000522075	retained_intron	KNOWN	None	20043	None	None	154270994	154272210	-1	None	None
5	GEMIN5	ENSG00000082516	ENST00000523355	retained_intron	KNOWN	None	20043	None	None	154306946	154311276	-1	None	None
X	TAZ	ENSG00000102125	ENST00000369793	retained_intron	KNOWN	None	11577	None	None	153639854	153649999	1	CMD3A, EFE2, EFE	BTHS, XAP-2, G4.5
X	TAZ	ENSG00000102125	ENST00000476307	retained_intron	KNOWN	None	11577	None	None	153639860	153648381	1	CMD3A, EFE2, EFE	BTHS, XAP-2, G4.5
X	TAZ	ENSG00000102125	ENST00000426834	protein_coding	PUTATIVE	None	11577	512	169	153639877	153642525	1	CMD3A, EFE2, EFE	BTHS, XAP-2, G4.5
X	TAZ	ENSG00000102125	ENST00000369790	protein_coding	KNOWN	CCDS35450	11577	747	248	153639877	153650032	1	CMD3A, EFE2, EFE	BTHS, XAP-2, G4.5
X	TAZ	ENSG00000102125	ENST00000454722	protein_coding	NOVEL	None	11577	589	195	153639892	153648412	1	CMD3A, EFE2, EFE	BTHS, XAP-2, G4.5
X	TAZ	ENSG00000102125	ENST00000350743	protein_coding	KNOWN	CCDS14749	11577	789	262	153639892	153650059	1	CMD3A, EFE2, EFE	BTHS, XAP-2, G4.5
X	TAZ	ENSG00000102125	ENST00000299328	protein_coding	KNOWN	CCDS14748	11577	879	292	153639892	153650065	1	CMD3A, EFE2, EFE	BTHS, XAP-2, G4.5
X	TAZ	ENSG00000102125	ENST00000465540	retained_intron	KNOWN	None	11577	None	None	153639895	153642006	1	CMD3A, EFE2, EFE	BTHS, XAP-2, G4.5
X	TAZ	ENSG00000102125	ENST00000455296	nonsense_mediated_decay	KNOWN	None	11577	288	95	153639897	153650065	1	CMD3A, EFE2, EFE	BTHS, XAP-2, G4.5
X	TAZ	ENSG00000102125	ENST00000445994	nonsense_mediated_decay	KNOWN	None	11577	288	95	153639898	153641904	1	CMD3A, EFE2, EFE	BTHS, XAP-2, G4.5
X	TAZ	ENSG00000102125	ENST00000433313	nonsense_mediated_decay	KNOWN	None	11577	288	95	153639910	153649023	1	CMD3A, EFE2, EFE	BTHS, XAP-2, G4.5
X	TAZ	ENSG00000102125	ENST00000351413	protein_coding	KNOWN	CCDS14750	11577	837	278	153639941	153650059	1	CMD3A, EFE2, EFE	BTHS, XAP-2, G4.5
X	TAZ	ENSG00000102125	ENST00000480812	retained_intron	KNOWN	None	11577	None	None	153639961	153641020	1	CMD3A, EFE2, EFE	BTHS, XAP-2, G4.5
X	TAZ	ENSG00000102125	ENST00000369776	protein_coding	PUTATIVE	None	11577	789	262	153640096	153650065	1	CMD3A, EFE2, EFE	BTHS, XAP-2, G4.5
X	TAZ	ENSG00000102125	ENST00000439735	protein_coding	NOVEL	None	11577	553	183	153640167	153648433	1	CMD3A, EFE2, EFE	BTHS, XAP-2, G4.5
X	TAZ	ENSG00000102125	ENST00000475699	protein_coding	KNOWN	None	11577	798	265	153640181	153649343	1	CMD3A, EFE2, EFE	BTHS, XAP-2, G4.5
X	TAZ	ENSG00000102125	ENST00000426231	nonsense_mediated_decay	KNOWN	None	11577	104	33	153640498	153649331	1	CMD3A, EFE2, EFE	BTHS, XAP-2, G4.5
X	TAZ	ENSG00000102125	ENST00000483780	retained_intron	KNOWN	None	11577	None	None	153640540	153648125	1	CMD3A, EFE2, EFE	BTHS, XAP-2, G4.5
X	TAZ	ENSG00000102125	ENST00000476679	retained_intron	KNOWN	None	11577	None	None	153641052	153648291	1	CMD3A, EFE2, EFE	BTHS, XAP-2, G4.5
X	TAZ	ENSG00000102125	ENST00000479875	processed_transcript	KNOWN	None	11577	None	None	153641058	153641904	1	CMD3A, EFE2, EFE	BTHS, XAP-2, G4.5
X	TAZ	ENSG00000102125	ENST00000483674	retained_intron	KNOWN	None	11577	None	None	153641302	153648168	1	CMD3A, EFE2, EFE	BTHS, XAP-2, G4.5
X	TAZ	ENSG00000102125	ENST00000476800	retained_intron	KNOWN	None	11577	None	None	153641428	153642478	1	CMD3A, EFE2, EFE	BTHS, XAP-2, G4.5
X	TAZ	ENSG00000102125	ENST00000470127	processed_transcript	KNOWN	None	11577	None	None	153641866	153648480	1	CMD3A, EFE2, EFE	BTHS, XAP-2, G4.5
X	TAZ	ENSG00000102125	ENST00000494912	retained_intron	KNOWN	None	11577	None	None	153646814	153650061	1	CMD3A, EFE2, EFE	BTHS, XAP-2, G4.5
X	TAZ	ENSG00000102125	ENST00000498029	processed_transcript	KNOWN	None	11577	None	None	153648330	153649663	1	CMD3A, EFE2, EFE	BTHS, XAP-2, G4.5
6	SRPK1	ENSG00000096063	ENST00000373825	protein_coding	KNOWN	CCDS47415	11305	1968	655	35800743	35889119	-1	None	SFRSK1
6	SRPK1	ENSG00000096063	ENST00000361690	protein_coding	NOVEL	None	11305	2016	671	35800811	35888824	-1	None	SFRSK1
6	SRPK1	ENSG00000096063	ENST00000346162	retained_intron	KNOWN	None	11305	None	None	35800811	35888842	-1	None	SFRSK1
6	SRPK1	ENSG00000096063	ENST00000423325	protein_coding	PUTATIVE	None	11305	1920	639	35800811	35888924	-1	None	SFRSK1
6	SRPK1	ENSG00000096063	ENST00000505885	retained_intron	KNOWN	None	11305	None	None	35803205	35806618	-1	None	SFRSK1
6	SRPK1	ENSG00000096063	ENST00000507292	nonsense_mediated_decay	KNOWN	None	11305	129	42	35824711	35837328	-1	None	SFRSK1
6	SRPK1	ENSG00000096063	ENST00000502969	retained_intron	KNOWN	None	11305	None	None	35837366	35838767	-1	None	SFRSK1
6	SRPK1	ENSG00000096063	ENST00000510290	protein_coding	PUTATIVE	None	11305	440	145	35837444	35888905	-1	None	SFRSK1
6	SRPK1	ENSG00000096063	ENST00000373821	processed_transcript	KNOWN	None	11305	None	None	35842017	35863496	-1	None	SFRSK1
6	SRPK1	ENSG00000096063	ENST00000508473	nonsense_mediated_decay	KNOWN	None	11305	231	76	35854503	35889119	-1	None	SFRSK1
6	SRPK1	ENSG00000096063	ENST00000512445	protein_coding	PUTATIVE	None	11305	467	154	35854560	35888849	-1	None	SFRSK1
6	SRPK1	ENSG00000096063	ENST00000513367	retained_intron	KNOWN	None	11305	None	None	35855602	35888878	-1	None	SFRSK1
6	SRPK1	ENSG00000096063	ENST00000507909	protein_coding	PUTATIVE	None	11305	355	117	35858726	35888872	-1	None	SFRSK1
6	SRPK1	ENSG00000096063	ENST00000373822	protein_coding	KNOWN	None	11305	1644	547	35800811	35888956	-1	None	SFRSK1
14	VSX2	ENSG00000119614	ENST00000261980	protein_coding	KNOWN	CCDS9827	1975	1086	361	74706175	74729441	1	HOX10, CHX10	RET1
10	OPALIN	ENSG00000197430	ENST00000371172	protein_coding	KNOWN	CCDS7448	20707	426	141	98102973	98119059	-1	TMEM10	TMP10, HTMP10
10	OPALIN	ENSG00000197430	ENST00000393871	protein_coding	KNOWN	CCDS41556	20707	357	118	98102973	98119092	-1	TMEM10	TMP10, HTMP10
10	OPALIN	ENSG00000197430	ENST00000393870	protein_coding	KNOWN	None	20707	393	130	98104765	98118738	-1	TMEM10	TMP10, HTMP10
10	OPALIN	ENSG00000197430	ENST00000419479	protein_coding	KNOWN	CCDS44466	20707	396	131	98102973	98119092	-1	TMEM10	TMP10, HTMP10
10	OPALIN	ENSG00000197430	ENST00000536387	protein_coding	KNOWN	CCDS44466	20707	396	131	98105256	98116916	-1	TMEM10	TMP10, HTMP10
20	PCK1	ENSG00000124253	ENST00000467047	retained_intron	KNOWN	None	8724	None	None	56136136	56141423	1	None	PEPCK-C
20	PCK1	ENSG00000124253	ENST00000319441	protein_coding	KNOWN	CCDS13460	8724	1869	622	56136136	56141513	1	None	PEPCK-C
20	PCK1	ENSG00000124253	ENST00000475833	retained_intron	KNOWN	None	8724	None	None	56136159	56137363	1	None	PEPCK-C
20	PCK1	ENSG00000124253	ENST00000498194	retained_intron	KNOWN	None	8724	None	None	56137404	56138663	1	None	PEPCK-C
20	PCK1	ENSG00000124253	ENST00000470051	retained_intron	KNOWN	None	8724	None	None	56137890	56138647	1	None	PEPCK-C
20	PCK1	ENSG00000124253	ENST00000485958	retained_intron	KNOWN	None	8724	None	None	56139140	56140448	1	None	PEPCK-C
20	PCK1	ENSG00000124253	ENST00000543666	protein_coding	KNOWN	None	8724	918	305	56136166	56141033	1	None	PEPCK-C
20	PCK1	ENSG00000124253	ENST00000535860	protein_coding	KNOWN	None	8724	942	313	56136571	56140546	1	None	PEPCK-C
1	CDC20	ENSG00000117399	ENST00000310955	protein_coding	KNOWN	CCDS484	1723	1500	499	43824626	43828874	1	None	p55CDC, CDC20A
1	CDC20	ENSG00000117399	ENST00000372462	protein_coding	KNOWN	CCDS484	1723	1500	499	43824684	43828874	1	None	p55CDC, CDC20A
1	CDC20	ENSG00000117399	ENST00000478882	processed_transcript	KNOWN	None	1723	None	None	43825438	43826535	1	None	p55CDC, CDC20A
1	CDC20	ENSG00000117399	ENST00000482046	processed_transcript	KNOWN	None	1723	None	None	43826729	43828737	1	None	p55CDC, CDC20A
15	None	ENSG00000268632	ENST00000597767	protein_coding	NOVEL	None	None	183	60	42073346	42076229	-1	None	None
10	SAMD8	ENSG00000156671	ENST00000447533	protein_coding	KNOWN	None	26320	761	252	76859344	76928385	1	None	FLJ25082
10	SAMD8	ENSG00000156671	ENST00000372690	protein_coding	KNOWN	None	26320	1437	478	76871229	76936589	1	None	FLJ25082
10	SAMD8	ENSG00000156671	ENST00000372687	protein_coding	KNOWN	CCDS7347	26320	981	326	76871467	76937536	1	None	FLJ25082
10	SAMD8	ENSG00000156671	ENST00000542569	protein_coding	KNOWN	CCDS53543	26320	1248	415	76871393	76941881	1	None	FLJ25082
11	CTR9	ENSG00000198730	ENST00000361367	protein_coding	KNOWN	CCDS7805	16850	3522	1173	10772534	10801290	1	SH2BP1	KIAA0155, TSBP, p150TSP
11	CTR9	ENSG00000198730	ENST00000524523	protein_coding	NOVEL	None	16850	902	299	10772999	10785281	1	SH2BP1	KIAA0155, TSBP, p150TSP
11	CTR9	ENSG00000198730	ENST00000526874	retained_intron	KNOWN	None	16850	None	None	10787881	10790023	1	SH2BP1	KIAA0155, TSBP, p150TSP
11	CTR9	ENSG00000198730	ENST00000529355	retained_intron	KNOWN	None	16850	None	None	10788598	10790006	1	SH2BP1	KIAA0155, TSBP, p150TSP
11	CTR9	ENSG00000198730	ENST00000529898	retained_intron	KNOWN	None	16850	None	None	10794054	10795856	1	SH2BP1	KIAA0155, TSBP, p150TSP
2	PPP3R1	ENSG00000221823	ENST00000406334	nonsense_mediated_decay	KNOWN	None	9317	996	331	68358370	68488362	-1	None	CALNB1, CNB, CNB1
2	PPP3R1	ENSG00000221823	ENST00000234310	protein_coding	KNOWN	CCDS46310	9317	513	170	68405989	68479663	-1	None	CALNB1, CNB, CNB1
2	PPP3R1	ENSG00000221823	ENST00000409752	protein_coding	PUTATIVE	None	9317	570	189	68407936	68483369	-1	None	CALNB1, CNB, CNB1
2	PPP3R1	ENSG00000221823	ENST00000409377	protein_coding	PUTATIVE	None	9317	483	160	68408079	68478280	-1	None	CALNB1, CNB, CNB1
12	ITGA7	ENSG00000135424	ENST00000553804	protein_coding	KNOWN	CCDS55832	6143	3426	1141	56078352	56101485	-1	None	None
12	ITGA7	ENSG00000135424	ENST00000257879	protein_coding	KNOWN	CCDS8888	6143	3414	1137	56078352	56101682	-1	None	None
12	ITGA7	ENSG00000135424	ENST00000554327	nonsense_mediated_decay	KNOWN	None	6143	328	108	56078356	56090211	-1	None	None
12	ITGA7	ENSG00000135424	ENST00000347027	protein_coding	NOVEL	None	6143	3396	1131	56078356	56101668	-1	None	None
12	ITGA7	ENSG00000135424	ENST00000452168	protein_coding	KNOWN	CCDS44914	6143	3135	1044	56078356	56106195	-1	None	None
12	ITGA7	ENSG00000135424	ENST00000555728	protein_coding	KNOWN	None	6143	3546	1181	56078487	56101495	-1	None	None
12	ITGA7	ENSG00000135424	ENST00000557555	protein_coding	NOVEL	None	6143	617	204	56078642	56082675	-1	None	None
12	ITGA7	ENSG00000135424	ENST00000557058	retained_intron	KNOWN	None	6143	None	None	56088434	56090200	-1	None	None
12	ITGA7	ENSG00000135424	ENST00000557488	retained_intron	KNOWN	None	6143	None	None	56091536	56091946	-1	None	None
12	ITGA7	ENSG00000135424	ENST00000556273	nonsense_mediated_decay	KNOWN	None	6143	297	98	56091543	56109827	-1	None	None
12	ITGA7	ENSG00000135424	ENST00000554543	retained_intron	KNOWN	None	6143	None	None	56092307	56094098	-1	None	None
12	ITGA7	ENSG00000135424	ENST00000557257	protein_coding	PUTATIVE	None	6143	460	152	56092558	56105902	-1	None	None
12	ITGA7	ENSG00000135424	ENST00000553276	retained_intron	KNOWN	None	6143	None	None	56092642	56105988	-1	None	None
12	ITGA7	ENSG00000135424	ENST00000555687	nonsense_mediated_decay	KNOWN	None	6143	168	55	56093762	56106065	-1	None	None
12	ITGA7	ENSG00000135424	ENST00000554724	nonsense_mediated_decay	KNOWN	None	6143	106	34	56094456	56105869	-1	None	None
12	ITGA7	ENSG00000135424	ENST00000553737	retained_intron	KNOWN	None	6143	None	None	56094560	56109821	-1	None	None
12	ITGA7	ENSG00000135424	ENST00000556371	retained_intron	KNOWN	None	6143	None	None	56094567	56106089	-1	None	None
12	ITGA7	ENSG00000135424	ENST00000553893	nonsense_mediated_decay	KNOWN	None	6143	147	48	56094773	56109814	-1	None	None
12	ITGA7	ENSG00000135424	ENST00000555809	nonsense_mediated_decay	KNOWN	None	6143	147	48	56094781	56106041	-1	None	None
12	ITGA7	ENSG00000135424	ENST00000554359	retained_intron	KNOWN	None	6143	None	None	56096612	56101497	-1	None	None
12	ITGA7	ENSG00000135424	ENST00000257880	protein_coding	KNOWN	None	6143	3489	1162	56078373	56101686	-1	None	None
12	ITGA7	ENSG00000135424	ENST00000394230	protein_coding	KNOWN	None	6143	3369	1122	56078373	56101686	-1	None	None
12	ITGA7	ENSG00000135424	ENST00000394229	protein_coding	KNOWN	None	6143	3357	1118	56078373	56101686	-1	None	None
10	SEMA4G	ENSG00000095539	ENST00000519649	protein_coding	KNOWN	None	10735	1566	521	102729275	102740677	1	None	FLJ20590, KIAA1619
10	SEMA4G	ENSG00000095539	ENST00000521006	nonsense_mediated_decay	KNOWN	None	10735	2517	838	102729280	102745373	1	None	FLJ20590, KIAA1619
10	SEMA4G	ENSG00000095539	ENST00000518124	protein_coding	KNOWN	None	10735	512	169	102729284	102738128	1	None	FLJ20590, KIAA1619
10	SEMA4G	ENSG00000095539	ENST00000518244	processed_transcript	KNOWN	None	10735	None	None	102729287	102732642	1	None	FLJ20590, KIAA1619
10	SEMA4G	ENSG00000095539	ENST00000370250	protein_coding	KNOWN	None	10735	2517	838	102732297	102744594	1	None	FLJ20590, KIAA1619
10	SEMA4G	ENSG00000095539	ENST00000517724	protein_coding	PUTATIVE	CCDS55724	10735	2109	702	102732469	102745015	1	None	FLJ20590, KIAA1619
10	SEMA4G	ENSG00000095539	ENST00000210633	protein_coding	KNOWN	CCDS7501	10735	2532	843	102732592	102745372	1	None	FLJ20590, KIAA1619
10	SEMA4G	ENSG00000095539	ENST00000519756	processed_transcript	KNOWN	None	10735	None	None	102732752	102739025	1	None	FLJ20590, KIAA1619
10	SEMA4G	ENSG00000095539	ENST00000518948	retained_intron	KNOWN	None	10735	None	None	102740617	102741177	1	None	FLJ20590, KIAA1619
10	SEMA4G	ENSG00000095539	ENST00000476171	protein_coding	PUTATIVE	None	10735	393	130	102743474	102744547	1	None	FLJ20590, KIAA1619
10	SEMA4G	ENSG00000095539	ENST00000484128	processed_transcript	KNOWN	None	10735	None	None	102743969	102745628	1	None	FLJ20590, KIAA1619
5	CDKN2AIPNL	ENSG00000237190	ENST00000458198	protein_coding	KNOWN	CCDS4175	30545	351	116	133737778	133747589	-1	None	MGC13017
5	CDKN2AIPNL	ENSG00000237190	ENST00000395009	protein_coding	KNOWN	None	30545	258	85	133746240	133747572	-1	None	MGC13017
2	PNO1	ENSG00000115946	ENST00000263657	protein_coding	KNOWN	CCDS1885	32790	759	252	68384976	68403370	1	KHRBP1	RRP20
2	PNO1	ENSG00000115946	ENST00000430742	nonsense_mediated_decay	KNOWN	None	32790	411	136	68385049	68389405	1	KHRBP1	RRP20
2	PNO1	ENSG00000115946	ENST00000488728	retained_intron	KNOWN	None	32790	None	None	68400239	68402096	1	KHRBP1	RRP20
17	None	ENSG00000262302	ENST00000577138	nonsense_mediated_decay	KNOWN	None	None	252	83	7150148	7165408	-1	None	None
5	DDX41	ENSG00000183258	ENST00000512334	retained_intron	KNOWN	None	18674	None	None	176938578	176939546	-1	None	ABS, MGC8828
5	DDX41	ENSG00000183258	ENST00000330503	protein_coding	PUTATIVE	None	18674	1923	640	176938578	176943917	-1	None	ABS, MGC8828
5	DDX41	ENSG00000183258	ENST00000507955	protein_coding	KNOWN	CCDS4427	18674	1869	622	176938578	176944470	-1	None	ABS, MGC8828
5	DDX41	ENSG00000183258	ENST00000505081	retained_intron	KNOWN	None	18674	None	None	176938579	176943951	-1	None	ABS, MGC8828
5	DDX41	ENSG00000183258	ENST00000503078	retained_intron	KNOWN	None	18674	None	None	176938579	176943962	-1	None	ABS, MGC8828
5	DDX41	ENSG00000183258	ENST00000507900	retained_intron	KNOWN	None	18674	None	None	176938601	176942334	-1	None	ABS, MGC8828
5	DDX41	ENSG00000183258	ENST00000504807	retained_intron	KNOWN	None	18674	None	None	176939497	176941747	-1	None	ABS, MGC8828
5	DDX41	ENSG00000183258	ENST00000512027	retained_intron	KNOWN	None	18674	None	None	176940003	176940785	-1	None	ABS, MGC8828
5	DDX41	ENSG00000183258	ENST00000511040	retained_intron	KNOWN	None	18674	None	None	176940073	176942354	-1	None	ABS, MGC8828
5	DDX41	ENSG00000183258	ENST00000508279	nonsense_mediated_decay	KNOWN	None	18674	520	172	176940400	176942732	-1	None	ABS, MGC8828
5	DDX41	ENSG00000183258	ENST00000513562	retained_intron	KNOWN	None	18674	None	None	176940436	176942040	-1	None	ABS, MGC8828
5	DDX41	ENSG00000183258	ENST00000512431	retained_intron	KNOWN	None	18674	None	None	176941930	176943936	-1	None	ABS, MGC8828
5	DDX41	ENSG00000183258	ENST00000504781	nonsense_mediated_decay	KNOWN	None	18674	381	126	176941939	176943325	-1	None	ABS, MGC8828
5	DDX41	ENSG00000183258	ENST00000509576	nonsense_mediated_decay	KNOWN	None	18674	606	201	176941982	176943951	-1	None	ABS, MGC8828
5	DDX41	ENSG00000183258	ENST00000506965	processed_transcript	KNOWN	None	18674	None	None	176942023	176943951	-1	None	ABS, MGC8828
5	DDX41	ENSG00000183258	ENST00000515562	retained_intron	KNOWN	None	18674	None	None	176942342	176943896	-1	None	ABS, MGC8828
5	DDX41	ENSG00000183258	ENST00000510171	nonsense_mediated_decay	KNOWN	None	18674	150	49	176942773	176943962	-1	None	ABS, MGC8828
6	POU5F1	ENSG00000204531	ENST00000441888	protein_coding	PUTATIVE	None	9221	495	164	31132119	31148508	-1	OTF3	OCT3, Oct4, MGC22487
6	POU5F1	ENSG00000204531	ENST00000259915	protein_coding	KNOWN	CCDS34391	9221	1083	360	31132120	31138470	-1	OTF3	OCT3, Oct4, MGC22487
6	POU5F1	ENSG00000204531	ENST00000512818	protein_coding	PUTATIVE	None	9221	495	164	31132128	31134615	-1	OTF3	OCT3, Oct4, MGC22487
6	POU5F1	ENSG00000204531	ENST00000606567	protein_coding	PUTATIVE	None	9221	573	190	31132128	31134615	-1	OTF3	OCT3, Oct4, MGC22487
6	POU5F1	ENSG00000204531	ENST00000513407	protein_coding	PUTATIVE	None	9221	495	164	31132128	31134947	-1	OTF3	OCT3, Oct4, MGC22487
6	POU5F1	ENSG00000204531	ENST00000471529	protein_coding	PUTATIVE	None	9221	495	164	31132129	31134615	-1	OTF3	OCT3, Oct4, MGC22487
6	POU5F1	ENSG00000204531	ENST00000461401	retained_intron	KNOWN	None	9221	None	None	31133477	31138435	-1	OTF3	OCT3, Oct4, MGC22487
1	PFKFB2	ENSG00000123836	ENST00000367080	protein_coding	KNOWN	CCDS31004	8873	1518	505	207226605	207251168	1	None	None
1	PFKFB2	ENSG00000123836	ENST00000464777	processed_transcript	KNOWN	None	8873	None	None	207226620	207236512	1	None	None
1	PFKFB2	ENSG00000123836	ENST00000468857	processed_transcript	PUTATIVE	None	8873	None	None	207226628	207228300	1	None	None
1	PFKFB2	ENSG00000123836	ENST00000367079	protein_coding	KNOWN	CCDS31003	8873	1416	471	207226656	207254369	1	None	None
1	PFKFB2	ENSG00000123836	ENST00000473310	processed_transcript	KNOWN	None	8873	None	None	207242769	207253020	1	None	None
1	PFKFB2	ENSG00000123836	ENST00000483688	processed_transcript	KNOWN	None	8873	None	None	207243990	207248910	1	None	None
1	PFKFB2	ENSG00000123836	ENST00000545806	protein_coding	KNOWN	None	8873	1419	472	207228045	207245750	1	None	None
1	PFKFB2	ENSG00000123836	ENST00000411990	protein_coding	KNOWN	None	8873	1122	373	207222801	207252479	1	None	None
1	PFKFB2	ENSG00000123836	ENST00000541914	protein_coding	KNOWN	None	8873	795	264	207238349	207252731	1	None	None
19	SUGP1	ENSG00000105705	ENST00000589144	nonsense_mediated_decay	KNOWN	None	18643	93	30	19386827	19414637	-1	SF4	F23858, DKFZp434E2216, RBP
19	SUGP1	ENSG00000105705	ENST00000591007	retained_intron	KNOWN	None	18643	None	None	19387318	19413264	-1	SF4	F23858, DKFZp434E2216, RBP
19	SUGP1	ENSG00000105705	ENST00000588731	nonsense_mediated_decay	KNOWN	None	18643	665	220	19387318	19431301	-1	SF4	F23858, DKFZp434E2216, RBP
19	SUGP1	ENSG00000105705	ENST00000247001	protein_coding	KNOWN	CCDS12399	18643	1938	645	19387320	19431653	-1	SF4	F23858, DKFZp434E2216, RBP
19	SUGP1	ENSG00000105705	ENST00000587119	nonsense_mediated_decay	KNOWN	None	18643	390	129	19387323	19431318	-1	SF4	F23858, DKFZp434E2216, RBP
19	SUGP1	ENSG00000105705	ENST00000592188	retained_intron	KNOWN	None	18643	None	None	19387324	19392301	-1	SF4	F23858, DKFZp434E2216, RBP
19	SUGP1	ENSG00000105705	ENST00000585763	processed_transcript	KNOWN	None	18643	None	None	19407980	19431318	-1	SF4	F23858, DKFZp434E2216, RBP
19	SUGP1	ENSG00000105705	ENST00000586387	retained_intron	KNOWN	None	18643	None	None	19407983	19414495	-1	SF4	F23858, DKFZp434E2216, RBP
19	SUGP1	ENSG00000105705	ENST00000535070	nonsense_mediated_decay	KNOWN	None	18643	558	185	19412468	19431318	-1	SF4	F23858, DKFZp434E2216, RBP
19	SUGP1	ENSG00000105705	ENST00000591350	nonsense_mediated_decay	KNOWN	None	18643	111	36	19414160	19431318	-1	SF4	F23858, DKFZp434E2216, RBP
19	SUGP1	ENSG00000105705	ENST00000587716	processed_transcript	KNOWN	None	18643	None	None	19414171	19431318	-1	SF4	F23858, DKFZp434E2216, RBP
19	SUGP1	ENSG00000105705	ENST00000606725	processed_transcript	KNOWN	None	18643	None	None	19414533	19431306	-1	SF4	F23858, DKFZp434E2216, RBP
19	SUGP1	ENSG00000105705	ENST00000590439	processed_transcript	KNOWN	None	18643	None	None	19414590	19431318	-1	SF4	F23858, DKFZp434E2216, RBP
19	SUGP1	ENSG00000105705	ENST00000588580	retained_intron	KNOWN	None	18643	None	None	19416455	19431279	-1	SF4	F23858, DKFZp434E2216, RBP
19	SUGP1	ENSG00000105705	ENST00000585444	nonsense_mediated_decay	KNOWN	None	18643	210	69	19416852	19431318	-1	SF4	F23858, DKFZp434E2216, RBP
19	SUGP1	ENSG00000105705	ENST00000586132	protein_coding	PUTATIVE	None	18643	256	84	19416859	19432123	-1	SF4	F23858, DKFZp434E2216, RBP
19	SUGP1	ENSG00000105705	ENST00000334782	protein_coding	KNOWN	None	18643	669	222	19414722	19431318	-1	SF4	F23858, DKFZp434E2216, RBP
19	RAB8A	ENSG00000167461	ENST00000300935	protein_coding	KNOWN	CCDS12339	7007	624	207	16222439	16245044	1	MEL	RAB8
19	RAB8A	ENSG00000167461	ENST00000590899	retained_intron	KNOWN	None	7007	None	None	16222702	16232942	1	MEL	RAB8
19	RAB8A	ENSG00000167461	ENST00000588105	processed_transcript	PUTATIVE	None	7007	None	None	16222705	16223567	1	MEL	RAB8
19	RAB8A	ENSG00000167461	ENST00000587156	retained_intron	KNOWN	None	7007	None	None	16222707	16238471	1	MEL	RAB8
19	RAB8A	ENSG00000167461	ENST00000586682	protein_coding	NOVEL	None	7007	624	207	16222707	16243820	1	MEL	RAB8
19	RAB8A	ENSG00000167461	ENST00000589697	retained_intron	KNOWN	None	7007	None	None	16222725	16237800	1	MEL	RAB8
19	RAB8A	ENSG00000167461	ENST00000592971	retained_intron	KNOWN	None	7007	None	None	16238761	16243129	1	MEL	RAB8
1	ELOVL1	ENSG00000066322	ENST00000372458	protein_coding	KNOWN	CCDS485	14418	840	279	43829068	43833689	-1	None	Ssc1
1	ELOVL1	ENSG00000066322	ENST00000468865	processed_transcript	KNOWN	None	14418	None	None	43829399	43830939	-1	None	Ssc1
1	ELOVL1	ENSG00000066322	ENST00000464204	processed_transcript	KNOWN	None	14418	None	None	43829427	43833678	-1	None	Ssc1
1	ELOVL1	ENSG00000066322	ENST00000470968	processed_transcript	KNOWN	None	14418	None	None	43829442	43833696	-1	None	Ssc1
1	ELOVL1	ENSG00000066322	ENST00000487209	processed_transcript	KNOWN	None	14418	None	None	43829507	43833670	-1	None	Ssc1
1	ELOVL1	ENSG00000066322	ENST00000470769	processed_transcript	KNOWN	None	14418	None	None	43829546	43832258	-1	None	Ssc1
1	ELOVL1	ENSG00000066322	ENST00000497569	processed_transcript	KNOWN	None	14418	None	None	43829665	43832775	-1	None	Ssc1
1	ELOVL1	ENSG00000066322	ENST00000482302	processed_transcript	KNOWN	None	14418	None	None	43829686	43833087	-1	None	Ssc1
1	ELOVL1	ENSG00000066322	ENST00000497050	processed_transcript	KNOWN	None	14418	None	None	43829721	43833409	-1	None	Ssc1
1	ELOVL1	ENSG00000066322	ENST00000478481	processed_transcript	KNOWN	None	14418	None	None	43830018	43830885	-1	None	Ssc1
1	ELOVL1	ENSG00000066322	ENST00000479439	processed_transcript	KNOWN	None	14418	None	None	43830213	43832000	-1	None	Ssc1
1	ELOVL1	ENSG00000066322	ENST00000465321	processed_transcript	KNOWN	None	14418	None	None	43830215	43833674	-1	None	Ssc1
1	ELOVL1	ENSG00000066322	ENST00000479686	processed_transcript	KNOWN	None	14418	None	None	43830231	43833287	-1	None	Ssc1
1	ELOVL1	ENSG00000066322	ENST00000496932	processed_transcript	KNOWN	None	14418	None	None	43830247	43833636	-1	None	Ssc1
1	ELOVL1	ENSG00000066322	ENST00000413844	protein_coding	KNOWN	CCDS57987	14418	759	252	43829073	43833682	-1	None	Ssc1
3	SRPRB	ENSG00000144867	ENST00000466490	protein_coding	KNOWN	CCDS3081	24085	816	271	133502877	133540336	1	None	APMCF1
3	SRPRB	ENSG00000144867	ENST00000484684	protein_coding	KNOWN	None	24085	278	91	133524459	133526618	1	None	APMCF1
3	SRPRB	ENSG00000144867	ENST00000494297	retained_intron	KNOWN	None	24085	None	None	133525397	133538447	1	None	APMCF1
3	SRPRB	ENSG00000144867	ENST00000481356	retained_intron	KNOWN	None	24085	None	None	133529106	133538753	1	None	APMCF1
3	SRPRB	ENSG00000144867	ENST00000466636	nonsense_mediated_decay	KNOWN	None	24085	482	159	133529968	133544616	1	None	APMCF1
15	JMJD7-PLA2G4B	ENSG00000168970	ENST00000490848	retained_intron	KNOWN	None	34449	None	None	42120293	42140353	1	None	None
15	JMJD7-PLA2G4B	ENSG00000168970	ENST00000382448	protein_coding	KNOWN	CCDS32202	34449	3039	1012	42120314	42140341	1	None	None
15	JMJD7-PLA2G4B	ENSG00000168970	ENST00000491746	retained_intron	KNOWN	None	34449	None	None	42120314	42140341	1	None	None
15	JMJD7-PLA2G4B	ENSG00000168970	ENST00000342159	protein_coding	NOVEL	CCDS55961	34449	2682	893	42120315	42140164	1	None	None
15	JMJD7-PLA2G4B	ENSG00000168970	ENST00000476036	processed_transcript	KNOWN	None	34449	None	None	42127244	42132724	1	None	None
15	JMJD7-PLA2G4B	ENSG00000168970	ENST00000487292	nonsense_mediated_decay	KNOWN	None	34449	245	80	42128983	42140341	1	None	None
15	JMJD7-PLA2G4B	ENSG00000168970	ENST00000542534	protein_coding	KNOWN	CCDS45240	34449	951	316	42120283	42129784	1	None	None
15	JMJD7-PLA2G4B	ENSG00000168970	ENST00000458483	protein_coding	KNOWN	CCDS45241	34449	2346	781	42131011	42140345	1	None	None
2	CNRIP1	ENSG00000119865	ENST00000409559	protein_coding	KNOWN	CCDS46311	24546	387	128	68511303	68546532	-1	C2orf32	DKFZP566K1924, CRIP1, CRIP1a, CRIP1b
2	CNRIP1	ENSG00000119865	ENST00000263655	protein_coding	KNOWN	CCDS1886	24546	495	164	68520142	68547138	-1	C2orf32	DKFZP566K1924, CRIP1, CRIP1a, CRIP1b
2	CNRIP1	ENSG00000119865	ENST00000481714	processed_transcript	KNOWN	None	24546	None	None	68520198	68547183	-1	C2orf32	DKFZP566K1924, CRIP1, CRIP1a, CRIP1b
2	CNRIP1	ENSG00000119865	ENST00000409862	protein_coding	PUTATIVE	None	24546	414	137	68543053	68547019	-1	C2orf32	DKFZP566K1924, CRIP1, CRIP1a, CRIP1b
12	OGFOD2	ENSG00000111325	ENST00000397389	protein_coding	KNOWN	CCDS41855	25823	873	290	123459127	123464589	1	None	FLJ13491, FLJ37501
12	OGFOD2	ENSG00000111325	ENST00000536615	processed_transcript	KNOWN	None	25823	None	None	123459227	123463535	1	None	FLJ13491, FLJ37501
12	OGFOD2	ENSG00000111325	ENST00000538755	protein_coding	PUTATIVE	None	25823	561	186	123459250	123464309	1	None	FLJ13491, FLJ37501
12	OGFOD2	ENSG00000111325	ENST00000536150	protein_coding	PUTATIVE	None	25823	561	186	123459274	123464590	1	None	FLJ13491, FLJ37501
12	OGFOD2	ENSG00000111325	ENST00000406539	retained_intron	KNOWN	None	25823	None	None	123459289	123464080	1	None	FLJ13491, FLJ37501
12	OGFOD2	ENSG00000111325	ENST00000545056	protein_coding	PUTATIVE	None	25823	480	159	123459295	123463812	1	None	FLJ13491, FLJ37501
12	OGFOD2	ENSG00000111325	ENST00000545612	protein_coding	PUTATIVE	None	25823	561	186	123459299	123463985	1	None	FLJ13491, FLJ37501
12	OGFOD2	ENSG00000111325	ENST00000538628	protein_coding	PUTATIVE	None	25823	561	186	123459299	123463985	1	None	FLJ13491, FLJ37501
12	OGFOD2	ENSG00000111325	ENST00000542117	processed_transcript	KNOWN	None	25823	None	None	123459325	123463552	1	None	FLJ13491, FLJ37501
12	OGFOD2	ENSG00000111325	ENST00000545317	protein_coding	PUTATIVE	None	25823	561	186	123459364	123463985	1	None	FLJ13491, FLJ37501
12	OGFOD2	ENSG00000111325	ENST00000535970	processed_transcript	KNOWN	None	25823	None	None	123459385	123463116	1	None	FLJ13491, FLJ37501
12	OGFOD2	ENSG00000111325	ENST00000544358	processed_transcript	KNOWN	None	25823	None	None	123459408	123463094	1	None	FLJ13491, FLJ37501
12	OGFOD2	ENSG00000111325	ENST00000544852	processed_transcript	KNOWN	None	25823	None	None	123459414	123463415	1	None	FLJ13491, FLJ37501
12	OGFOD2	ENSG00000111325	ENST00000454694	protein_coding	PUTATIVE	None	25823	561	186	123459518	123464309	1	None	FLJ13491, FLJ37501
12	OGFOD2	ENSG00000111325	ENST00000228922	protein_coding	KNOWN	None	25823	1053	350	123459767	123464588	1	None	FLJ13491, FLJ37501
12	OGFOD2	ENSG00000111325	ENST00000537966	protein_coding	PUTATIVE	None	25823	622	206	123459786	123461517	1	None	FLJ13491, FLJ37501
12	OGFOD2	ENSG00000111325	ENST00000545396	retained_intron	KNOWN	None	25823	None	None	123459786	123463986	1	None	FLJ13491, FLJ37501
12	OGFOD2	ENSG00000111325	ENST00000420319	retained_intron	KNOWN	None	25823	None	None	123459789	123462200	1	None	FLJ13491, FLJ37501
12	OGFOD2	ENSG00000111325	ENST00000545033	processed_transcript	KNOWN	None	25823	None	None	123459792	123463557	1	None	FLJ13491, FLJ37501
12	OGFOD2	ENSG00000111325	ENST00000541360	processed_transcript	KNOWN	None	25823	None	None	123459799	123462603	1	None	FLJ13491, FLJ37501
12	OGFOD2	ENSG00000111325	ENST00000540324	nonsense_mediated_decay	KNOWN	None	25823	390	129	123459799	123464587	1	None	FLJ13491, FLJ37501
12	OGFOD2	ENSG00000111325	ENST00000542940	processed_transcript	KNOWN	None	25823	None	None	123460011	123463396	1	None	FLJ13491, FLJ37501
12	OGFOD2	ENSG00000111325	ENST00000542037	retained_intron	KNOWN	None	25823	None	None	123460675	123463528	1	None	FLJ13491, FLJ37501
12	OGFOD2	ENSG00000111325	ENST00000545976	retained_intron	KNOWN	None	25823	None	None	123461432	123463377	1	None	FLJ13491, FLJ37501
12	OGFOD2	ENSG00000111325	ENST00000536439	protein_coding	PUTATIVE	None	25823	480	159	123461972	123463812	1	None	FLJ13491, FLJ37501
2	CHRNA1	ENSG00000138435	ENST00000348749	protein_coding	KNOWN	CCDS2261	1955	1374	457	175612320	175629200	-1	CHRNA	None
2	CHRNA1	ENSG00000138435	ENST00000261007	protein_coding	KNOWN	CCDS33331	1955	1449	482	175612388	175629189	-1	CHRNA	None
2	CHRNA1	ENSG00000138435	ENST00000409542	protein_coding	NOVEL	None	1955	1128	375	175612538	175629140	-1	CHRNA	None
2	CHRNA1	ENSG00000138435	ENST00000409219	protein_coding	NOVEL	None	1955	1134	377	175612538	175629140	-1	CHRNA	None
2	CHRNA1	ENSG00000138435	ENST00000435083	nonsense_mediated_decay	KNOWN	None	1955	246	81	175612538	175629140	-1	CHRNA	None
2	CHRNA1	ENSG00000138435	ENST00000409323	protein_coding	NOVEL	None	1955	810	269	175617483	175629181	-1	CHRNA	None
22	LMF2	ENSG00000100258	ENST00000474879	protein_coding	KNOWN	CCDS14093	25096	2124	707	50941378	50946120	-1	TMEM153, TMEM112B	None
22	LMF2	ENSG00000100258	ENST00000216080	protein_coding	KNOWN	None	25096	2049	682	50941380	50946113	-1	TMEM153, TMEM112B	None
22	LMF2	ENSG00000100258	ENST00000504717	retained_intron	KNOWN	None	25096	None	None	50941690	50943686	-1	TMEM153, TMEM112B	None
22	LMF2	ENSG00000100258	ENST00000514938	retained_intron	KNOWN	None	25096	None	None	50943263	50944649	-1	TMEM153, TMEM112B	None
22	LMF2	ENSG00000100258	ENST00000505981	processed_transcript	KNOWN	None	25096	None	None	50944125	50945595	-1	TMEM153, TMEM112B	None
22	LMF2	ENSG00000100258	ENST00000507607	retained_intron	KNOWN	None	25096	None	None	50944825	50945679	-1	TMEM153, TMEM112B	None
22	LMF2	ENSG00000100258	ENST00000380796	protein_coding	KNOWN	None	25096	1785	594	50941376	50946135	-1	TMEM153, TMEM112B	None
4	ANKRD17	ENSG00000132466	ENST00000358602	protein_coding	KNOWN	CCDS34004	23575	7812	2603	73939093	74124502	-1	None	GTAR, KIAA0697, FLJ22206, NY-BR-16
4	ANKRD17	ENSG00000132466	ENST00000558247	protein_coding	KNOWN	None	23575	7463	2486	73940955	74124039	-1	None	GTAR, KIAA0697, FLJ22206, NY-BR-16
4	ANKRD17	ENSG00000132466	ENST00000509867	protein_coding	PUTATIVE	None	23575	7473	2490	73941403	74088831	-1	None	GTAR, KIAA0697, FLJ22206, NY-BR-16
4	ANKRD17	ENSG00000132466	ENST00000330838	protein_coding	KNOWN	CCDS34003	23575	7059	2352	73941403	74124515	-1	None	GTAR, KIAA0697, FLJ22206, NY-BR-16
4	ANKRD17	ENSG00000132466	ENST00000510127	processed_transcript	KNOWN	None	23575	None	None	73943086	73946527	-1	None	GTAR, KIAA0697, FLJ22206, NY-BR-16
4	ANKRD17	ENSG00000132466	ENST00000513908	retained_intron	KNOWN	None	23575	None	None	73963790	73968496	-1	None	GTAR, KIAA0697, FLJ22206, NY-BR-16
4	ANKRD17	ENSG00000132466	ENST00000560507	processed_transcript	PUTATIVE	None	23575	None	None	73966578	73969797	-1	None	GTAR, KIAA0697, FLJ22206, NY-BR-16
4	ANKRD17	ENSG00000132466	ENST00000561029	protein_coding	NOVEL	None	23575	2587	861	73968180	74124515	-1	None	GTAR, KIAA0697, FLJ22206, NY-BR-16
4	ANKRD17	ENSG00000132466	ENST00000560372	nonsense_mediated_decay	KNOWN	None	23575	2486	827	73968192	74027065	-1	None	GTAR, KIAA0697, FLJ22206, NY-BR-16
4	ANKRD17	ENSG00000132466	ENST00000514252	processed_transcript	KNOWN	None	23575	None	None	73978801	74019652	-1	None	GTAR, KIAA0697, FLJ22206, NY-BR-16
4	ANKRD17	ENSG00000132466	ENST00000559367	processed_transcript	KNOWN	None	23575	None	None	74026909	74088756	-1	None	GTAR, KIAA0697, FLJ22206, NY-BR-16
1	PLEKHO1	ENSG00000023902	ENST00000369126	protein_coding	KNOWN	None	24310	681	226	150121373	150131825	1	None	CKIP-1, OC120
1	PLEKHO1	ENSG00000023902	ENST00000369124	protein_coding	NOVEL	CCDS945	24310	1230	409	150122170	150132260	1	None	CKIP-1, OC120
1	PLEKHO1	ENSG00000023902	ENST00000479194	processed_transcript	KNOWN	None	24310	None	None	150122797	150131238	1	None	CKIP-1, OC120
1	PLEKHO1	ENSG00000023902	ENST00000492304	processed_transcript	KNOWN	None	24310	None	None	150122827	150125215	1	None	CKIP-1, OC120
1	PLEKHO1	ENSG00000023902	ENST00000466659	retained_intron	KNOWN	None	24310	None	None	150125675	150131823	1	None	CKIP-1, OC120
1	PLEKHO1	ENSG00000023902	ENST00000477309	processed_transcript	KNOWN	None	24310	None	None	150127984	150129389	1	None	CKIP-1, OC120
1	PLEKHO1	ENSG00000023902	ENST00000441340	protein_coding	PUTATIVE	None	24310	671	222	150129123	150131519	1	None	CKIP-1, OC120
1	PLEKHO1	ENSG00000023902	ENST00000485470	processed_transcript	KNOWN	None	24310	None	None	150129211	150131181	1	None	CKIP-1, OC120
1	PLEKHO1	ENSG00000023902	ENST00000502767	processed_transcript	KNOWN	None	24310	None	None	150131600	150136916	1	None	CKIP-1, OC120
1	PLEKHO1	ENSG00000023902	ENST00000025469	protein_coding	KNOWN	None	24310	1128	375	150122108	150131790	1	None	CKIP-1, OC120
2	PLEK	ENSG00000115956	ENST00000234313	protein_coding	KNOWN	CCDS1887	9070	1053	350	68592305	68624585	1	None	P47
2	PLEK	ENSG00000115956	ENST00000474788	retained_intron	KNOWN	None	9070	None	None	68615074	68622849	1	None	P47
4	None	ENSG00000249452	ENST00000515630	processed_pseudogene	KNOWN	None	None	None	None	33239861	33240292	-1	None	None
4	None	ENSG00000249766	ENST00000507715	processed_pseudogene	KNOWN	None	None	None	None	33402160	33402301	1	None	None
4	None	ENSG00000248417	ENST00000515263	lincRNA	KNOWN	None	None	None	None	33435132	33439499	1	None	None
9	AGPAT2	ENSG00000169692	ENST00000371694	protein_coding	KNOWN	CCDS35181	325	741	246	139567595	139581850	-1	BSCL	None
9	AGPAT2	ENSG00000169692	ENST00000371696	protein_coding	KNOWN	CCDS7003	325	837	278	139567595	139581875	-1	BSCL	None
9	AGPAT2	ENSG00000169692	ENST00000472820	retained_intron	KNOWN	None	325	None	None	139568161	139571832	-1	BSCL	None
9	AGPAT2	ENSG00000169692	ENST00000470861	retained_intron	KNOWN	None	325	None	None	139571479	139581817	-1	BSCL	None
9	AGPAT2	ENSG00000169692	ENST00000538402	protein_coding	KNOWN	CCDS7003	325	837	278	139567602	139581848	-1	BSCL	None
2	FBXO48	ENSG00000204923	ENST00000377957	protein_coding	KNOWN	CCDS33213	33857	468	155	68689486	68694390	-1	None	None
1	MED8	ENSG00000159479	ENST00000290663	protein_coding	KNOWN	CCDS486	19971	906	301	43849588	43855479	-1	None	MGC17544, MGC19641, ARC32
1	MED8	ENSG00000159479	ENST00000372457	protein_coding	KNOWN	CCDS487	19971	807	268	43849640	43855479	-1	None	MGC17544, MGC19641, ARC32
1	MED8	ENSG00000159479	ENST00000372455	protein_coding	PUTATIVE	None	19971	540	179	43850397	43855455	-1	None	MGC17544, MGC19641, ARC32
1	MED8	ENSG00000159479	ENST00000460803	retained_intron	KNOWN	None	19971	None	None	43851344	43852602	-1	None	MGC17544, MGC19641, ARC32
1	MED8	ENSG00000159479	ENST00000473560	retained_intron	KNOWN	None	19971	None	None	43851649	43853318	-1	None	MGC17544, MGC19641, ARC32
11	USP35	ENSG00000118369	ENST00000530267	protein_coding	PUTATIVE	None	20061	1761	586	77899858	77925072	1	None	KIAA1372
11	USP35	ENSG00000118369	ENST00000530535	processed_transcript	KNOWN	None	20061	None	None	77899869	77925184	1	None	KIAA1372
11	USP35	ENSG00000118369	ENST00000528910	protein_coding	PUTATIVE	None	20061	895	297	77899949	77920528	1	None	KIAA1372
11	USP35	ENSG00000118369	ENST00000529308	protein_coding	KNOWN	CCDS41693	20061	3057	1018	77899953	77925757	1	None	KIAA1372
11	USP35	ENSG00000118369	ENST00000530546	nonsense_mediated_decay	KNOWN	None	20061	325	107	77907843	77925465	1	None	KIAA1372
11	USP35	ENSG00000118369	ENST00000526425	protein_coding	PUTATIVE	None	20061	2250	749	77910016	77925753	1	None	KIAA1372
11	USP35	ENSG00000118369	ENST00000530521	retained_intron	KNOWN	None	20061	None	None	77918283	77920597	1	None	KIAA1372
11	USP35	ENSG00000118369	ENST00000441408	protein_coding	KNOWN	None	20061	1815	604	77907843	77925465	1	None	KIAA1372
19	ZNF57	ENSG00000171970	ENST00000306908	protein_coding	KNOWN	CCDS12098	13125	1668	555	2900896	2918474	1	ZNF424	None
19	ZNF57	ENSG00000171970	ENST00000522294	protein_coding	PUTATIVE	None	13125	442	146	2907106	2917157	1	ZNF424	None
19	ZNF57	ENSG00000171970	ENST00000523428	protein_coding	PUTATIVE	None	13125	1572	523	2907106	2918344	1	ZNF424	None
19	ZNF57	ENSG00000171970	ENST00000590305	protein_coding	PUTATIVE	None	13125	453	150	2915443	2917168	1	ZNF424	None
2	APLF	ENSG00000169621	ENST00000303795	protein_coding	KNOWN	CCDS1888	28724	1536	511	68694693	68807294	1	C2orf13	MGC47799, Xip1
2	APLF	ENSG00000169621	ENST00000529851	nonsense_mediated_decay	KNOWN	None	28724	558	185	68694704	68806389	1	C2orf13	MGC47799, Xip1
2	APLF	ENSG00000169621	ENST00000445692	nonsense_mediated_decay	KNOWN	None	28724	843	280	68694735	68807294	1	C2orf13	MGC47799, Xip1
2	APLF	ENSG00000169621	ENST00000471727	processed_transcript	KNOWN	None	28724	None	None	68756770	68857856	1	C2orf13	MGC47799, Xip1
2	APLF	ENSG00000169621	ENST00000488585	processed_transcript	KNOWN	None	28724	None	None	68855012	68858004	1	C2orf13	MGC47799, Xip1
19	INSR	ENSG00000171105	ENST00000341500	protein_coding	KNOWN	CCDS42487	6091	4113	1370	7112266	7293942	-1	None	CD220
19	INSR	ENSG00000171105	ENST00000302850	protein_coding	KNOWN	CCDS12176	6091	4149	1382	7116638	7294045	-1	None	CD220
19	INSR	ENSG00000171105	ENST00000601099	retained_intron	KNOWN	None	6091	None	None	7120631	7123169	-1	None	CD220
19	INSR	ENSG00000171105	ENST00000593970	retained_intron	KNOWN	None	6091	None	None	7122581	7125397	-1	None	CD220
19	INSR	ENSG00000171105	ENST00000597211	retained_intron	KNOWN	None	6091	None	None	7141521	7143051	-1	None	CD220
19	INSR	ENSG00000171105	ENST00000598216	retained_intron	KNOWN	None	6091	None	None	7151982	7293877	-1	None	CD220
19	INSR	ENSG00000171105	ENST00000600492	protein_coding	PUTATIVE	None	6091	459	152	7159434	7167989	-1	None	CD220
7	None	ENSG00000201933	ENST00000365063	misc_RNA	NOVEL	None	None	None	None	43136331	43136443	1	None	None
1	C4BPB	ENSG00000123843	ENST00000367078	protein_coding	KNOWN	CCDS1476	1328	759	252	207262187	207273338	1	C4BP	None
1	C4BPB	ENSG00000123843	ENST00000492730	retained_intron	KNOWN	None	1328	None	None	207262239	207265217	1	C4BP	None
1	C4BPB	ENSG00000123843	ENST00000452902	protein_coding	KNOWN	None	1328	543	180	207262558	207271534	1	C4BP	None
1	C4BPB	ENSG00000123843	ENST00000243611	protein_coding	KNOWN	CCDS1476	1328	759	252	207262583	207273338	1	C4BP	None
1	C4BPB	ENSG00000123843	ENST00000367076	protein_coding	KNOWN	CCDS31005	1328	756	251	207262584	207273338	1	C4BP	None
1	C4BPB	ENSG00000123843	ENST00000469326	retained_intron	KNOWN	None	1328	None	None	207268279	207273328	1	C4BP	None
1	C4BPB	ENSG00000123843	ENST00000470767	processed_transcript	PUTATIVE	None	1328	None	None	207271163	207273338	1	C4BP	None
1	C4BPB	ENSG00000123843	ENST00000391923	protein_coding	KNOWN	CCDS1476	1328	759	252	207262628	207273335	1	C4BP	None
1	C4BPB	ENSG00000123843	ENST00000451804	protein_coding	KNOWN	None	1328	657	218	207262887	207269240	1	C4BP	None
7	HECW1-IT1	ENSG00000181211	ENST00000322220	sense_intronic	KNOWN	None	41465	None	None	43157495	43202786	1	None	None
7	MIR3943	ENSG00000264069	ENST00000585069	miRNA	KNOWN	None	38888	None	None	43190494	43190593	1	None	hsa-mir-3943
5	None	ENSG00000222717	ENST00000410785	miRNA	NOVEL	None	None	None	None	13174877	13174960	-1	None	None
7	RNU7-35P	ENSG00000252983	ENST00000517174	snRNA	KNOWN	None	34131	None	None	43234020	43234081	1	None	U7.35
5	None	ENSG00000248145	ENST00000513283	lincRNA	KNOWN	None	None	None	None	13175958	13179684	1	None	None
16	RHBDL1	ENSG00000103269	ENST00000352681	protein_coding	KNOWN	None	10007	1122	373	725666	728268	1	RHBDL	RRP
16	RHBDL1	ENSG00000103269	ENST00000561556	protein_coding	NOVEL	None	10007	688	228	725683	727843	1	RHBDL	RRP
16	RHBDL1	ENSG00000103269	ENST00000450775	retained_intron	KNOWN	None	10007	None	None	725722	728267	1	RHBDL	RRP
16	RHBDL1	ENSG00000103269	ENST00000219551	protein_coding	KNOWN	CCDS10418	10007	1317	438	726075	728268	1	RHBDL	RRP
7	RNU6-575P	ENSG00000223258	ENST00000411326	snRNA	KNOWN	None	47538	None	None	43247361	43247465	-1	None	None
5	RPS23P5	ENSG00000242608	ENST00000495419	processed_pseudogene	KNOWN	None	35726	None	None	13250347	13250774	-1	None	None
16	SYCE1L	ENSG00000205078	ENST00000378644	protein_coding	KNOWN	CCDS45533	37236	729	242	77233294	77246902	1	None	MRP2
16	SYCE1L	ENSG00000205078	ENST00000568925	retained_intron	KNOWN	None	37236	None	None	77246305	77247112	1	None	MRP2
16	SYCE1L	ENSG00000205078	ENST00000563157	protein_coding	PUTATIVE	None	37236	75	24	77246490	77246902	1	None	MRP2
7	None	ENSG00000228680	ENST00000457315	antisense	KNOWN	None	None	None	None	43278665	43288867	-1	None	None
7	None	ENSG00000228680	ENST00000458680	antisense	KNOWN	None	None	None	None	43280669	43288846	-1	None	None
7	None	ENSG00000228680	ENST00000458590	antisense	KNOWN	None	None	None	None	43284962	43288841	-1	None	None
5	None	ENSG00000248462	ENST00000503735	processed_pseudogene	KNOWN	None	None	None	None	13553763	13554075	-1	None	None
7	None	ENSG00000213717	ENST00000455430	processed_pseudogene	KNOWN	None	None	None	None	43313758	43314181	1	None	None
20	ZBP1	ENSG00000124256	ENST00000371173	protein_coding	KNOWN	CCDS13461	16176	1290	429	56178902	56195529	-1	C20orf183	dJ718J7.3, DLM1, DLM-1, DAI
20	ZBP1	ENSG00000124256	ENST00000395822	protein_coding	PUTATIVE	CCDS54477	16176	1065	354	56178902	56195632	-1	C20orf183	dJ718J7.3, DLM1, DLM-1, DAI
20	ZBP1	ENSG00000124256	ENST00000461547	retained_intron	KNOWN	None	16176	None	None	56179111	56193137	-1	C20orf183	dJ718J7.3, DLM1, DLM-1, DAI
20	ZBP1	ENSG00000124256	ENST00000453793	protein_coding	PUTATIVE	None	16176	357	118	56182117	56185321	-1	C20orf183	dJ718J7.3, DLM1, DLM-1, DAI
20	ZBP1	ENSG00000124256	ENST00000541799	protein_coding	KNOWN	CCDS54478	16176	747	248	56187947	56195450	-1	C20orf183	dJ718J7.3, DLM1, DLM-1, DAI
20	ZBP1	ENSG00000124256	ENST00000480037	retained_intron	KNOWN	None	16176	None	None	56187947	56195483	-1	C20orf183	dJ718J7.3, DLM1, DLM-1, DAI
20	ZBP1	ENSG00000124256	ENST00000546110	processed_transcript	KNOWN	None	16176	None	None	56189960	56195536	-1	C20orf183	dJ718J7.3, DLM1, DLM-1, DAI
20	ZBP1	ENSG00000124256	ENST00000538947	processed_transcript	KNOWN	None	16176	None	None	56190082	56195534	-1	C20orf183	dJ718J7.3, DLM1, DLM-1, DAI
20	ZBP1	ENSG00000124256	ENST00000432548	processed_transcript	KNOWN	None	16176	None	None	56190180	56195546	-1	C20orf183	dJ718J7.3, DLM1, DLM-1, DAI
20	ZBP1	ENSG00000124256	ENST00000340462	protein_coding	KNOWN	None	16176	1221	406	56178906	56195632	-1	C20orf183	dJ718J7.3, DLM1, DLM-1, DAI
20	ZBP1	ENSG00000124256	ENST00000343535	protein_coding	KNOWN	None	16176	1341	446	56182109	56195632	-1	C20orf183	dJ718J7.3, DLM1, DLM-1, DAI
7	None	ENSG00000231638	ENST00000436105	antisense	KNOWN	None	None	None	None	43548327	43562141	-1	None	None
7	None	ENSG00000252308	ENST00000516499	miRNA	NOVEL	None	None	None	None	43618487	43618571	1	None	None
2	PROKR1	ENSG00000169618	ENST00000303786	protein_coding	KNOWN	CCDS1889	4524	1182	393	68870721	68882708	1	GPR73	PKR1, ZAQ, GPR73a
2	PROKR1	ENSG00000169618	ENST00000394342	protein_coding	KNOWN	CCDS1889	4524	1182	393	68872954	68882708	1	GPR73	PKR1, ZAQ, GPR73a
7	None	ENSG00000229497	ENST00000431286	processed_pseudogene	KNOWN	None	None	None	None	43806889	43807198	1	None	None
7	TUBG1P	ENSG00000237972	ENST00000418303	processed_pseudogene	KNOWN	None	12418	None	None	43958296	43959653	1	None	None
6	TFEB	ENSG00000112561	ENST00000406563	protein_coding	NOVEL	None	11753	1005	334	41651716	41658780	-1	None	TCFEB, bHLHe35
6	TFEB	ENSG00000112561	ENST00000343317	protein_coding	PUTATIVE	None	11753	1689	562	41651716	41659214	-1	None	TCFEB, bHLHe35
6	TFEB	ENSG00000112561	ENST00000230323	protein_coding	KNOWN	CCDS4858	11753	1431	476	41651716	41702798	-1	None	TCFEB, bHLHe35
6	TFEB	ENSG00000112561	ENST00000358871	protein_coding	PUTATIVE	None	11753	1473	490	41651716	41703997	-1	None	TCFEB, bHLHe35
6	TFEB	ENSG00000112561	ENST00000373033	protein_coding	KNOWN	CCDS4858	11753	1431	476	41651718	41703346	-1	None	TCFEB, bHLHe35
6	TFEB	ENSG00000112561	ENST00000394283	protein_coding	PUTATIVE	None	11753	807	268	41654267	41701591	-1	None	TCFEB, bHLHe35
6	TFEB	ENSG00000112561	ENST00000494822	retained_intron	KNOWN	None	11753	None	None	41654832	41655938	-1	None	TCFEB, bHLHe35
6	TFEB	ENSG00000112561	ENST00000419396	protein_coding	KNOWN	None	11753	803	266	41654832	41702139	-1	None	TCFEB, bHLHe35
6	TFEB	ENSG00000112561	ENST00000416140	protein_coding	KNOWN	None	11753	734	243	41654901	41691464	-1	None	TCFEB, bHLHe35
6	TFEB	ENSG00000112561	ENST00000419574	protein_coding	KNOWN	None	11753	668	221	41655648	41673678	-1	None	TCFEB, bHLHe35
6	TFEB	ENSG00000112561	ENST00000424495	protein_coding	KNOWN	None	11753	237	78	41658632	41701428	-1	None	TCFEB, bHLHe35
6	TFEB	ENSG00000112561	ENST00000445214	protein_coding	KNOWN	None	11753	213	70	41658739	41673678	-1	None	TCFEB, bHLHe35
6	TFEB	ENSG00000112561	ENST00000425401	protein_coding	KNOWN	None	11753	98	31	41658854	41702798	-1	None	TCFEB, bHLHe35
6	TFEB	ENSG00000112561	ENST00000445700	protein_coding	KNOWN	None	11753	36	11	41658916	41701566	-1	None	TCFEB, bHLHe35
6	TFEB	ENSG00000112561	ENST00000433032	protein_coding	KNOWN	None	11753	36	11	41658916	41701932	-1	None	TCFEB, bHLHe35
6	TFEB	ENSG00000112561	ENST00000403298	protein_coding	KNOWN	CCDS4858	11753	1431	476	41651717	41703997	-1	None	TCFEB, bHLHe35
6	TFEB	ENSG00000112561	ENST00000420312	protein_coding	KNOWN	None	11753	1176	391	41651717	41702798	-1	None	TCFEB, bHLHe35
7	POLR2J4	ENSG00000214783	ENST00000427076	processed_transcript	KNOWN	None	28195	None	None	43980494	44058748	-1	None	MGC13098
7	POLR2J4	ENSG00000214783	ENST00000454572	processed_transcript	KNOWN	None	28195	None	None	43991509	44058750	-1	None	MGC13098
7	POLR2J4	ENSG00000214783	ENST00000422304	processed_transcript	KNOWN	None	28195	None	None	44005939	44058774	-1	None	MGC13098
7	POLR2J4	ENSG00000214783	ENST00000326391	processed_transcript	KNOWN	None	28195	None	None	44053161	44058769	-1	None	MGC13098
7	POLR2J4	ENSG00000214783	ENST00000418424	transcribed_unprocessed_pseudogene	KNOWN	None	28195	None	None	44054202	44058712	-1	None	MGC13098
X	USP11	ENSG00000102226	ENST00000377107	protein_coding	KNOWN	None	12609	2763	920	47092089	47107727	1	None	UHX1
X	USP11	ENSG00000102226	ENST00000478596	retained_intron	KNOWN	None	12609	None	None	47092383	47099770	1	None	UHX1
X	USP11	ENSG00000102226	ENST00000469080	retained_intron	KNOWN	None	12609	None	None	47092429	47107707	1	None	UHX1
X	USP11	ENSG00000102226	ENST00000377080	protein_coding	PUTATIVE	None	12609	130	42	47092791	47100267	1	None	UHX1
X	USP11	ENSG00000102226	ENST00000377078	protein_coding	PUTATIVE	None	12609	422	139	47093171	47101031	1	None	UHX1
X	USP11	ENSG00000102226	ENST00000489111	retained_intron	KNOWN	None	12609	None	None	47099801	47100577	1	None	UHX1
X	USP11	ENSG00000102226	ENST00000489030	retained_intron	KNOWN	None	12609	None	None	47100853	47101574	1	None	UHX1
X	USP11	ENSG00000102226	ENST00000480104	retained_intron	KNOWN	None	12609	None	None	47101555	47103924	1	None	UHX1
X	USP11	ENSG00000102226	ENST00000488848	retained_intron	KNOWN	None	12609	None	None	47102795	47104724	1	None	UHX1
X	USP11	ENSG00000102226	ENST00000497179	retained_intron	KNOWN	None	12609	None	None	47103912	47107096	1	None	UHX1
X	USP11	ENSG00000102226	ENST00000467378	retained_intron	KNOWN	None	12609	None	None	47106481	47107351	1	None	UHX1
X	USP11	ENSG00000102226	ENST00000218348	protein_coding	KNOWN	CCDS14277	12609	2892	963	47092314	47107726	1	None	UHX1
3	SMIM4	ENSG00000168273	ENST00000491607	processed_transcript	KNOWN	None	37257	None	None	52568029	52574542	1	C3orf78	None
3	SMIM4	ENSG00000168273	ENST00000482728	processed_transcript	KNOWN	None	37257	None	None	52568541	52574542	1	C3orf78	None
3	SMIM4	ENSG00000168273	ENST00000307106	protein_coding	PUTATIVE	None	37257	114	37	52570618	52574541	1	C3orf78	None
3	SMIM4	ENSG00000168273	ENST00000477703	protein_coding	KNOWN	CCDS46844	37257	213	70	52570621	52575907	1	C3orf78	None
3	SMIM4	ENSG00000168273	ENST00000476842	protein_coding	PUTATIVE	None	37257	180	59	52570621	52613253	1	C3orf78	None
2	CHN1	ENSG00000128656	ENST00000409900	protein_coding	KNOWN	CCDS46455	1943	1380	459	175664091	175869954	-1	CHN, DURS2	RhoGAP2, ARHGAP2, n-chimerin
2	CHN1	ENSG00000128656	ENST00000295497	protein_coding	KNOWN	CCDS56147	1943	1005	334	175664220	175712277	-1	CHN, DURS2	RhoGAP2, ARHGAP2, n-chimerin
2	CHN1	ENSG00000128656	ENST00000488080	processed_transcript	KNOWN	None	1943	None	None	175664223	175870092	-1	CHN, DURS2	RhoGAP2, ARHGAP2, n-chimerin
2	CHN1	ENSG00000128656	ENST00000409597	protein_coding	PUTATIVE	None	1943	828	275	175664243	175711133	-1	CHN, DURS2	RhoGAP2, ARHGAP2, n-chimerin
2	CHN1	ENSG00000128656	ENST00000492964	retained_intron	KNOWN	None	1943	None	None	175664625	175666785	-1	CHN, DURS2	RhoGAP2, ARHGAP2, n-chimerin
2	CHN1	ENSG00000128656	ENST00000409156	protein_coding	NOVEL	CCDS46454	1943	1302	433	175664717	175870097	-1	CHN, DURS2	RhoGAP2, ARHGAP2, n-chimerin
2	CHN1	ENSG00000128656	ENST00000409089	protein_coding	PUTATIVE	None	1943	584	193	175666435	175712109	-1	CHN, DURS2	RhoGAP2, ARHGAP2, n-chimerin
2	CHN1	ENSG00000128656	ENST00000444394	protein_coding	PUTATIVE	None	1943	519	172	175666449	175712293	-1	CHN, DURS2	RhoGAP2, ARHGAP2, n-chimerin
2	CHN1	ENSG00000128656	ENST00000413882	protein_coding	PUTATIVE	None	1943	556	184	175673633	175711143	-1	CHN, DURS2	RhoGAP2, ARHGAP2, n-chimerin
2	CHN1	ENSG00000128656	ENST00000443238	protein_coding	PUTATIVE	None	1943	558	185	175673655	175712479	-1	CHN, DURS2	RhoGAP2, ARHGAP2, n-chimerin
2	CHN1	ENSG00000128656	ENST00000491801	retained_intron	KNOWN	None	1943	None	None	175675628	175677081	-1	CHN, DURS2	RhoGAP2, ARHGAP2, n-chimerin
2	CHN1	ENSG00000128656	ENST00000425395	nonsense_mediated_decay	KNOWN	None	1943	72	23	175676261	175870073	-1	CHN, DURS2	RhoGAP2, ARHGAP2, n-chimerin
2	CHN1	ENSG00000128656	ENST00000485882	retained_intron	KNOWN	None	1943	None	None	175676826	175711693	-1	CHN, DURS2	RhoGAP2, ARHGAP2, n-chimerin
2	CHN1	ENSG00000128656	ENST00000444573	protein_coding	PUTATIVE	None	1943	494	163	175677105	175711926	-1	CHN, DURS2	RhoGAP2, ARHGAP2, n-chimerin
2	CHN1	ENSG00000128656	ENST00000481174	processed_transcript	KNOWN	None	1943	None	None	175701841	175742669	-1	CHN, DURS2	RhoGAP2, ARHGAP2, n-chimerin
2	CHN1	ENSG00000128656	ENST00000490654	retained_intron	KNOWN	None	1943	None	None	175711642	175780020	-1	CHN, DURS2	RhoGAP2, ARHGAP2, n-chimerin
2	CHN1	ENSG00000128656	ENST00000469597	processed_transcript	PUTATIVE	None	1943	None	None	175742638	175869947	-1	CHN, DURS2	RhoGAP2, ARHGAP2, n-chimerin
2	CHN1	ENSG00000128656	ENST00000451799	nonsense_mediated_decay	KNOWN	None	1943	69	22	175779795	175869991	-1	CHN, DURS2	RhoGAP2, ARHGAP2, n-chimerin
4	FAM193A	ENSG00000125386	ENST00000509050	protein_coding	KNOWN	None	16822	130	42	2626988	2632861	1	C4orf8	RES4-22
4	FAM193A	ENSG00000125386	ENST00000382839	protein_coding	KNOWN	CCDS33943	16822	3675	1224	2627159	2734279	1	C4orf8	RES4-22
4	FAM193A	ENSG00000125386	ENST00000512465	nonsense_mediated_decay	KNOWN	None	16822	2379	792	2627159	2734279	1	C4orf8	RES4-22
4	FAM193A	ENSG00000125386	ENST00000324666	protein_coding	KNOWN	CCDS58875	16822	3798	1265	2627159	2734292	1	C4orf8	RES4-22
4	FAM193A	ENSG00000125386	ENST00000502458	protein_coding	NOVEL	CCDS58874	16822	3741	1246	2627189	2733616	1	C4orf8	RES4-22
4	FAM193A	ENSG00000125386	ENST00000513898	nonsense_mediated_decay	KNOWN	None	16822	2415	804	2627189	2733616	1	C4orf8	RES4-22
4	FAM193A	ENSG00000125386	ENST00000505311	protein_coding	PUTATIVE	CCDS58876	16822	3636	1211	2627189	2733616	1	C4orf8	RES4-22
4	FAM193A	ENSG00000125386	ENST00000513350	protein_coding	KNOWN	None	16822	3018	1005	2656148	2702228	1	C4orf8	RES4-22
4	FAM193A	ENSG00000125386	ENST00000506904	retained_intron	KNOWN	None	16822	None	None	2661615	2664930	1	C4orf8	RES4-22
4	FAM193A	ENSG00000125386	ENST00000506120	retained_intron	KNOWN	None	16822	None	None	2698001	2701665	1	C4orf8	RES4-22
4	FAM193A	ENSG00000125386	ENST00000545951	protein_coding	KNOWN	CCDS58876	16822	3636	1211	2627159	2721761	1	C4orf8	RES4-22
1	C4BPA	ENSG00000123838	ENST00000367070	protein_coding	KNOWN	CCDS1477	1325	1794	597	207277607	207318317	1	C4BP	None
1	C4BPA	ENSG00000123838	ENST00000421786	protein_coding	KNOWN	None	1325	456	151	207277651	207297294	1	C4BP	None
1	C4BPA	ENSG00000123838	ENST00000424088	nonsense_mediated_decay	KNOWN	None	1325	357	118	207277723	207288810	1	C4BP	None
1	ANP32E	ENSG00000143401	ENST00000314136	protein_coding	KNOWN	CCDS946	16673	807	268	150190717	150208504	-1	None	LANPL, MGC5350, LANP-L
1	ANP32E	ENSG00000143401	ENST00000369119	protein_coding	KNOWN	CCDS44215	16673	663	220	150190855	150207026	-1	None	LANPL, MGC5350, LANP-L
1	ANP32E	ENSG00000143401	ENST00000436748	protein_coding	KNOWN	CCDS44214	16673	684	227	150192574	150208370	-1	None	LANPL, MGC5350, LANP-L
1	ANP32E	ENSG00000143401	ENST00000534437	protein_coding	NOVEL	None	16673	303	100	150192680	150199062	-1	None	LANPL, MGC5350, LANP-L
1	ANP32E	ENSG00000143401	ENST00000369114	protein_coding	NOVEL	None	16673	450	149	150192694	150208433	-1	None	LANPL, MGC5350, LANP-L
1	ANP32E	ENSG00000143401	ENST00000369115	protein_coding	NOVEL	None	16673	411	136	150192763	150208447	-1	None	LANPL, MGC5350, LANP-L
1	ANP32E	ENSG00000143401	ENST00000533654	protein_coding	PUTATIVE	None	16673	498	165	150192840	150208303	-1	None	LANPL, MGC5350, LANP-L
1	ANP32E	ENSG00000143401	ENST00000534220	protein_coding	NOVEL	None	16673	315	104	150198940	150208331	-1	None	LANPL, MGC5350, LANP-L
1	ANP32E	ENSG00000143401	ENST00000532744	protein_coding	NOVEL	None	16673	343	113	150201405	150208412	-1	None	LANPL, MGC5350, LANP-L
1	ANP32E	ENSG00000143401	ENST00000369116	protein_coding	KNOWN	None	16673	411	136	150190861	150208460	-1	None	LANPL, MGC5350, LANP-L
10	TLL2	ENSG00000095587	ENST00000357947	protein_coding	KNOWN	CCDS7449	11844	3048	1015	98124363	98273668	-1	None	None
10	TLL2	ENSG00000095587	ENST00000506028	retained_intron	KNOWN	None	11844	None	None	98132870	98135118	-1	None	None
10	TLL2	ENSG00000095587	ENST00000469598	processed_transcript	KNOWN	None	11844	None	None	98154950	98273675	-1	None	None
3	RARB	ENSG00000077092	ENST00000383772	protein_coding	PUTATIVE	None	9865	1207	401	25215823	25637946	1	None	HAP, NR1B2, RRB2
3	RARB	ENSG00000077092	ENST00000437042	protein_coding	KNOWN	CCDS46775	9865	1011	336	25469754	25639423	1	None	HAP, NR1B2, RRB2
3	RARB	ENSG00000077092	ENST00000330688	protein_coding	KNOWN	CCDS2642	9865	1347	448	25469802	25639423	1	None	HAP, NR1B2, RRB2
3	RARB	ENSG00000077092	ENST00000489694	processed_transcript	PUTATIVE	None	9865	None	None	25470192	25504036	1	None	HAP, NR1B2, RRB2
3	RARB	ENSG00000077092	ENST00000480001	processed_transcript	KNOWN	None	9865	None	None	25470207	25638140	1	None	HAP, NR1B2, RRB2
3	RARB	ENSG00000077092	ENST00000462272	processed_transcript	KNOWN	None	9865	None	None	25470207	25638140	1	None	HAP, NR1B2, RRB2
3	RARB	ENSG00000077092	ENST00000479097	processed_transcript	KNOWN	None	9865	None	None	25470207	25638140	1	None	HAP, NR1B2, RRB2
3	RARB	ENSG00000077092	ENST00000458646	protein_coding	KNOWN	CCDS46775	9865	1011	336	25499801	25639423	1	None	HAP, NR1B2, RRB2
3	RARB	ENSG00000077092	ENST00000404969	protein_coding	KNOWN	None	9865	1368	455	25215889	25638107	1	None	HAP, NR1B2, RRB2
4	MAML3	ENSG00000196782	ENST00000509479	protein_coding	KNOWN	CCDS54805	16272	3417	1138	140637907	141075338	-1	TNRC3	KIAA1816, MAM2, CAGH3, GDN
4	MAML3	ENSG00000196782	ENST00000502696	protein_coding	PUTATIVE	None	16272	559	185	140641366	141074123	-1	TNRC3	KIAA1816, MAM2, CAGH3, GDN
4	MAML3	ENSG00000196782	ENST00000327122	protein_coding	KNOWN	None	16272	1629	542	140809739	140812121	-1	TNRC3	KIAA1816, MAM2, CAGH3, GDN
4	MAML3	ENSG00000196782	ENST00000398940	protein_coding	KNOWN	None	16272	831	276	140810337	140811206	-1	TNRC3	KIAA1816, MAM2, CAGH3, GDN
14	None	ENSG00000259132	ENST00000555074	protein_coding	PUTATIVE	None	None	580	192	23415479	23451467	-1	None	None
15	POLG	ENSG00000140521	ENST00000268124	protein_coding	KNOWN	CCDS10350	9179	3720	1239	89859534	89878078	-1	None	POLG1, POLGA
15	POLG	ENSG00000140521	ENST00000442287	protein_coding	KNOWN	CCDS10350	9179	3720	1239	89859551	89878092	-1	None	POLG1, POLGA
15	POLG	ENSG00000140521	ENST00000530292	nonsense_mediated_decay	KNOWN	None	9179	591	196	89859570	89864061	-1	None	POLG1, POLGA
15	POLG	ENSG00000140521	ENST00000526671	retained_intron	KNOWN	None	9179	None	None	89859748	89861059	-1	None	POLG1, POLGA
15	POLG	ENSG00000140521	ENST00000530715	nonsense_mediated_decay	KNOWN	None	9179	207	68	89862499	89866658	-1	None	POLG1, POLGA
15	POLG	ENSG00000140521	ENST00000528881	nonsense_mediated_decay	KNOWN	None	9179	208	68	89864051	89866668	-1	None	POLG1, POLGA
15	POLG	ENSG00000140521	ENST00000532584	retained_intron	KNOWN	None	9179	None	None	89865006	89868831	-1	None	POLG1, POLGA
15	POLG	ENSG00000140521	ENST00000526314	protein_coding	NOVEL	None	9179	686	227	89865973	89869922	-1	None	POLG1, POLGA
15	POLG	ENSG00000140521	ENST00000526398	nonsense_mediated_decay	KNOWN	None	9179	154	50	89866036	89868818	-1	None	POLG1, POLGA
15	POLG	ENSG00000140521	ENST00000526573	retained_intron	KNOWN	None	9179	None	None	89866745	89868715	-1	None	POLG1, POLGA
15	POLG	ENSG00000140521	ENST00000533857	retained_intron	KNOWN	None	9179	None	None	89866751	89867522	-1	None	POLG1, POLGA
15	POLG	ENSG00000140521	ENST00000532363	retained_intron	KNOWN	None	9179	None	None	89870244	89871929	-1	None	POLG1, POLGA
15	POLG	ENSG00000140521	ENST00000525806	processed_transcript	PUTATIVE	None	9179	None	None	89875560	89876475	-1	None	POLG1, POLGA
7	GTF2IRD2B	ENSG00000174428	ENST00000529695	processed_transcript	PUTATIVE	None	33125	None	None	74508364	74510270	1	None	None
7	GTF2IRD2B	ENSG00000174428	ENST00000398546	retained_intron	KNOWN	None	33125	None	None	74508364	74539810	1	None	None
7	GTF2IRD2B	ENSG00000174428	ENST00000356115	protein_coding	PUTATIVE	None	33125	1314	437	74508382	74562756	1	None	None
7	GTF2IRD2B	ENSG00000174428	ENST00000312575	protein_coding	KNOWN	CCDS34659	33125	2850	949	74508387	74565623	1	None	None
7	GTF2IRD2B	ENSG00000174428	ENST00000483059	retained_intron	KNOWN	None	33125	None	None	74508394	74528505	1	None	None
7	GTF2IRD2B	ENSG00000174428	ENST00000423666	nonsense_mediated_decay	KNOWN	None	33125	681	226	74508403	74565623	1	None	None
7	GTF2IRD2B	ENSG00000174428	ENST00000528574	retained_intron	KNOWN	None	33125	None	None	74536428	74538990	1	None	None
7	GTF2IRD2B	ENSG00000174428	ENST00000526399	retained_intron	KNOWN	None	33125	None	None	74540516	74542936	1	None	None
7	GTF2IRD2B	ENSG00000174428	ENST00000472837	retained_intron	KNOWN	None	33125	None	None	74541458	74565623	1	None	None
7	GTF2IRD2B	ENSG00000174428	ENST00000394939	protein_coding	PUTATIVE	None	33125	646	214	74548963	74559875	1	None	None
7	GTF2IRD2B	ENSG00000174428	ENST00000478628	processed_transcript	PUTATIVE	None	33125	None	None	74554720	74557190	1	None	None
7	GTF2IRD2B	ENSG00000174428	ENST00000430511	protein_coding	KNOWN	None	33125	681	226	74508383	74562737	1	None	None
7	GTF2IRD2B	ENSG00000174428	ENST00000418185	protein_coding	KNOWN	None	33125	1491	496	74556904	74565616	1	None	None
1	SZT2	ENSG00000198198	ENST00000372450	protein_coding	KNOWN	None	29040	537	178	43855553	43872565	1	C1orf84, KIAA0467	FLJ10387, SZT2B, RP11-506B15.1, FLJ34502, SZT2A
1	SZT2	ENSG00000198198	ENST00000357658	retained_intron	KNOWN	None	29040	None	None	43855576	43876224	1	C1orf84, KIAA0467	FLJ10387, SZT2B, RP11-506B15.1, FLJ34502, SZT2A
1	SZT2	ENSG00000198198	ENST00000406439	nonsense_mediated_decay	KNOWN	None	29040	507	168	43855635	43878462	1	C1orf84, KIAA0467	FLJ10387, SZT2B, RP11-506B15.1, FLJ34502, SZT2A
1	SZT2	ENSG00000198198	ENST00000562955	protein_coding	KNOWN	CCDS30694	29040	10128	3375	43855640	43918304	1	C1orf84, KIAA0467	FLJ10387, SZT2B, RP11-506B15.1, FLJ34502, SZT2A
1	SZT2	ENSG00000198198	ENST00000470139	retained_intron	KNOWN	None	29040	None	None	43886428	43895160	1	C1orf84, KIAA0467	FLJ10387, SZT2B, RP11-506B15.1, FLJ34502, SZT2A
1	SZT2	ENSG00000198198	ENST00000478140	retained_intron	KNOWN	None	29040	None	None	43895513	43896368	1	C1orf84, KIAA0467	FLJ10387, SZT2B, RP11-506B15.1, FLJ34502, SZT2A
1	SZT2	ENSG00000198198	ENST00000470897	retained_intron	KNOWN	None	29040	None	None	43903265	43903820	1	C1orf84, KIAA0467	FLJ10387, SZT2B, RP11-506B15.1, FLJ34502, SZT2A
1	SZT2	ENSG00000198198	ENST00000471177	processed_transcript	KNOWN	None	29040	None	None	43903694	43905309	1	C1orf84, KIAA0467	FLJ10387, SZT2B, RP11-506B15.1, FLJ34502, SZT2A
1	SZT2	ENSG00000198198	ENST00000460536	retained_intron	KNOWN	None	29040	None	None	43910923	43918321	1	C1orf84, KIAA0467	FLJ10387, SZT2B, RP11-506B15.1, FLJ34502, SZT2A
1	SZT2	ENSG00000198198	ENST00000310739	protein_coding	KNOWN	None	29040	543	180	43855553	43872564	1	C1orf84, KIAA0467	FLJ10387, SZT2B, RP11-506B15.1, FLJ34502, SZT2A
1	SZT2	ENSG00000198198	ENST00000372442	protein_coding	KNOWN	None	29040	7602	2533	43888797	43918304	1	C1orf84, KIAA0467	FLJ10387, SZT2B, RP11-506B15.1, FLJ34502, SZT2A
14	ABCD4	ENSG00000119688	ENST00000356924	protein_coding	KNOWN	CCDS9828	68	1821	606	74752126	74769759	-1	PXMP1L	PMP69, P70R, EST352188
14	ABCD4	ENSG00000119688	ENST00000481348	nonsense_mediated_decay	KNOWN	None	68	554	183	74752699	74757155	-1	PXMP1L	PMP69, P70R, EST352188
14	ABCD4	ENSG00000119688	ENST00000481935	nonsense_mediated_decay	KNOWN	None	68	171	56	74752717	74769640	-1	PXMP1L	PMP69, P70R, EST352188
14	ABCD4	ENSG00000119688	ENST00000555904	protein_coding	PUTATIVE	None	68	476	157	74752987	74755471	-1	PXMP1L	PMP69, P70R, EST352188
14	ABCD4	ENSG00000119688	ENST00000553486	nonsense_mediated_decay	KNOWN	None	68	171	56	74753048	74769648	-1	PXMP1L	PMP69, P70R, EST352188
14	ABCD4	ENSG00000119688	ENST00000556517	protein_coding	PUTATIVE	None	68	554	183	74753100	74757155	-1	PXMP1L	PMP69, P70R, EST352188
14	ABCD4	ENSG00000119688	ENST00000465085	retained_intron	KNOWN	None	68	None	None	74753229	74755344	-1	PXMP1L	PMP69, P70R, EST352188
14	ABCD4	ENSG00000119688	ENST00000553745	nonsense_mediated_decay	KNOWN	None	68	120	39	74753273	74769672	-1	PXMP1L	PMP69, P70R, EST352188
14	ABCD4	ENSG00000119688	ENST00000474270	nonsense_mediated_decay	KNOWN	None	68	520	172	74753413	74759529	-1	PXMP1L	PMP69, P70R, EST352188
14	ABCD4	ENSG00000119688	ENST00000484380	retained_intron	KNOWN	None	68	None	None	74754514	74756656	-1	PXMP1L	PMP69, P70R, EST352188
14	ABCD4	ENSG00000119688	ENST00000496015	retained_intron	KNOWN	None	68	None	None	74755782	74762617	-1	PXMP1L	PMP69, P70R, EST352188
14	ABCD4	ENSG00000119688	ENST00000466822	retained_intron	KNOWN	None	68	None	None	74756004	74757202	-1	PXMP1L	PMP69, P70R, EST352188
14	ABCD4	ENSG00000119688	ENST00000557554	processed_transcript	KNOWN	None	68	None	None	74757050	74769700	-1	PXMP1L	PMP69, P70R, EST352188
14	ABCD4	ENSG00000119688	ENST00000469672	nonsense_mediated_decay	KNOWN	None	68	120	39	74757081	74769695	-1	PXMP1L	PMP69, P70R, EST352188
14	ABCD4	ENSG00000119688	ENST00000556119	nonsense_mediated_decay	KNOWN	None	68	120	39	74759015	74769619	-1	PXMP1L	PMP69, P70R, EST352188
14	ABCD4	ENSG00000119688	ENST00000460308	nonsense_mediated_decay	KNOWN	None	68	171	56	74759025	74769758	-1	PXMP1L	PMP69, P70R, EST352188
14	ABCD4	ENSG00000119688	ENST00000553998	nonsense_mediated_decay	KNOWN	None	68	283	93	74759254	74762643	-1	PXMP1L	PMP69, P70R, EST352188
14	ABCD4	ENSG00000119688	ENST00000555617	nonsense_mediated_decay	KNOWN	None	68	120	39	74759307	74769662	-1	PXMP1L	PMP69, P70R, EST352188
14	ABCD4	ENSG00000119688	ENST00000554453	nonsense_mediated_decay	KNOWN	None	68	297	98	74759451	74769621	-1	PXMP1L	PMP69, P70R, EST352188
14	ABCD4	ENSG00000119688	ENST00000557588	protein_coding	PUTATIVE	None	68	612	203	74759478	74769690	-1	PXMP1L	PMP69, P70R, EST352188
14	ABCD4	ENSG00000119688	ENST00000556971	protein_coding	PUTATIVE	None	68	617	204	74759534	74769613	-1	PXMP1L	PMP69, P70R, EST352188
14	ABCD4	ENSG00000119688	ENST00000489678	retained_intron	KNOWN	None	68	None	None	74760757	74764772	-1	PXMP1L	PMP69, P70R, EST352188
14	ABCD4	ENSG00000119688	ENST00000475240	retained_intron	KNOWN	None	68	None	None	74762433	74769637	-1	PXMP1L	PMP69, P70R, EST352188
14	ABCD4	ENSG00000119688	ENST00000470637	nonsense_mediated_decay	KNOWN	None	68	171	56	74762582	74769662	-1	PXMP1L	PMP69, P70R, EST352188
14	ABCD4	ENSG00000119688	ENST00000477803	retained_intron	KNOWN	None	68	None	None	74764539	74769690	-1	PXMP1L	PMP69, P70R, EST352188
14	ABCD4	ENSG00000119688	ENST00000493427	retained_intron	KNOWN	None	68	None	None	74765764	74769698	-1	PXMP1L	PMP69, P70R, EST352188
14	ABCD4	ENSG00000119688	ENST00000493752	retained_intron	KNOWN	None	68	None	None	74765881	74769679	-1	PXMP1L	PMP69, P70R, EST352188
14	ABCD4	ENSG00000119688	ENST00000489207	processed_transcript	KNOWN	None	68	None	None	74766602	74769700	-1	PXMP1L	PMP69, P70R, EST352188
14	ABCD4	ENSG00000119688	ENST00000298816	protein_coding	KNOWN	None	68	1467	488	74753273	74769672	-1	PXMP1L	PMP69, P70R, EST352188
17	CA10	ENSG00000154975	ENST00000570565	protein_coding	PUTATIVE	None	1369	762	253	49707674	50237362	-1	None	CARPX, CA-RPX, HUCEP-15
17	CA10	ENSG00000154975	ENST00000442502	protein_coding	KNOWN	CCDS32684	1369	987	328	49707674	50237377	-1	None	CARPX, CA-RPX, HUCEP-15
17	CA10	ENSG00000154975	ENST00000571371	nonsense_mediated_decay	KNOWN	None	1369	129	42	49707681	50235423	-1	None	CARPX, CA-RPX, HUCEP-15
17	CA10	ENSG00000154975	ENST00000451037	protein_coding	KNOWN	CCDS32684	1369	987	328	49707684	50236087	-1	None	CARPX, CA-RPX, HUCEP-15
17	CA10	ENSG00000154975	ENST00000285273	protein_coding	NOVEL	CCDS32684	1369	987	328	49708130	50237161	-1	None	CARPX, CA-RPX, HUCEP-15
17	CA10	ENSG00000154975	ENST00000575181	protein_coding	KNOWN	None	1369	828	275	49710973	50237343	-1	None	CARPX, CA-RPX, HUCEP-15
17	CA10	ENSG00000154975	ENST00000571918	processed_transcript	PUTATIVE	None	1369	None	None	49713216	49825904	-1	None	CARPX, CA-RPX, HUCEP-15
17	CA10	ENSG00000154975	ENST00000575097	protein_coding	PUTATIVE	None	1369	171	56	49738953	49825148	-1	None	CARPX, CA-RPX, HUCEP-15
17	CA10	ENSG00000154975	ENST00000573294	processed_transcript	KNOWN	None	1369	None	None	50008424	50235423	-1	None	CARPX, CA-RPX, HUCEP-15
17	CA10	ENSG00000154975	ENST00000340813	protein_coding	KNOWN	None	1369	1005	334	49707682	50235423	-1	None	CARPX, CA-RPX, HUCEP-15
11	NUMA1	ENSG00000137497	ENST00000540626	retained_intron	KNOWN	None	8059	None	None	71713910	71718962	-1	None	None
11	NUMA1	ENSG00000137497	ENST00000541584	protein_coding	NOVEL	None	8059	2894	963	71713910	71725082	-1	None	None
11	NUMA1	ENSG00000137497	ENST00000351960	protein_coding	NOVEL	None	8059	2940	979	71713910	71791435	-1	None	None
11	NUMA1	ENSG00000137497	ENST00000358965	protein_coding	KNOWN	None	8059	6306	2101	71713910	71791561	-1	None	None
11	NUMA1	ENSG00000137497	ENST00000393695	protein_coding	KNOWN	CCDS31633	8059	6348	2115	71713910	71791733	-1	None	None
11	NUMA1	ENSG00000137497	ENST00000541262	processed_transcript	KNOWN	None	8059	None	None	71716289	71719074	-1	None	None
11	NUMA1	ENSG00000137497	ENST00000545721	nonsense_mediated_decay	KNOWN	None	8059	1060	352	71716332	71724358	-1	None	None
11	NUMA1	ENSG00000137497	ENST00000546036	retained_intron	KNOWN	None	8059	None	None	71719484	71720196	-1	None	None
11	NUMA1	ENSG00000137497	ENST00000540588	retained_intron	KNOWN	None	8059	None	None	71723305	71723972	-1	None	None
11	NUMA1	ENSG00000137497	ENST00000542977	protein_coding	KNOWN	None	8059	2555	850	71725994	71752183	-1	None	None
11	NUMA1	ENSG00000137497	ENST00000537217	protein_coding	KNOWN	None	8059	2074	690	71726475	71791520	-1	None	None
11	NUMA1	ENSG00000137497	ENST00000534987	processed_transcript	KNOWN	None	8059	None	None	71728022	71781109	-1	None	None
11	NUMA1	ENSG00000137497	ENST00000540843	processed_transcript	KNOWN	None	8059	None	None	71728022	71791540	-1	None	None
11	NUMA1	ENSG00000137497	ENST00000536119	processed_transcript	KNOWN	None	8059	None	None	71728326	71752132	-1	None	None
11	NUMA1	ENSG00000137497	ENST00000544238	protein_coding	KNOWN	None	8059	662	219	71729949	71752571	-1	None	None
11	NUMA1	ENSG00000137497	ENST00000543937	protein_coding	KNOWN	None	8059	603	200	71730008	71791588	-1	None	None
11	NUMA1	ENSG00000137497	ENST00000543009	protein_coding	KNOWN	None	8059	522	173	71730602	71753188	-1	None	None
11	NUMA1	ENSG00000137497	ENST00000537930	protein_coding	KNOWN	None	8059	479	158	71730645	71752838	-1	None	None
11	NUMA1	ENSG00000137497	ENST00000544129	protein_coding	KNOWN	None	8059	477	158	71730647	71750871	-1	None	None
11	NUMA1	ENSG00000137497	ENST00000535947	protein_coding	KNOWN	None	8059	438	145	71732272	71751756	-1	None	None
11	NUMA1	ENSG00000137497	ENST00000534971	retained_intron	KNOWN	None	8059	None	None	71733248	71735896	-1	None	None
11	NUMA1	ENSG00000137497	ENST00000535087	protein_coding	KNOWN	None	8059	328	108	71733429	71781133	-1	None	None
11	NUMA1	ENSG00000137497	ENST00000368959	protein_coding	KNOWN	None	8059	274	90	71734128	71791588	-1	None	None
11	NUMA1	ENSG00000137497	ENST00000541719	protein_coding	KNOWN	None	8059	248	81	71734154	71791477	-1	None	None
11	NUMA1	ENSG00000137497	ENST00000366394	protein_coding	KNOWN	None	8059	226	74	71734176	71791524	-1	None	None
11	NUMA1	ENSG00000137497	ENST00000541641	protein_coding	KNOWN	None	8059	218	71	71734184	71791600	-1	None	None
11	NUMA1	ENSG00000137497	ENST00000537905	retained_intron	KNOWN	None	8059	None	None	71735117	71791588	-1	None	None
11	NUMA1	ENSG00000137497	ENST00000535111	protein_coding	KNOWN	None	8059	183	60	71735345	71791509	-1	None	None
11	NUMA1	ENSG00000137497	ENST00000535838	protein_coding	KNOWN	None	8059	177	58	71735351	71781139	-1	None	None
11	NUMA1	ENSG00000137497	ENST00000546131	protein_coding	KNOWN	None	8059	169	55	71735359	71791582	-1	None	None
11	NUMA1	ENSG00000137497	ENST00000543450	processed_transcript	KNOWN	None	8059	None	None	71776245	71791739	-1	None	None
14	AJUBA	ENSG00000129474	ENST00000262713	protein_coding	KNOWN	CCDS9581	20250	1617	538	23440383	23451851	-1	JUB	MGC15563
14	AJUBA	ENSG00000129474	ENST00000397388	protein_coding	KNOWN	CCDS9582	20250	366	121	23441024	23446432	-1	JUB	MGC15563
14	AJUBA	ENSG00000129474	ENST00000553592	protein_coding	KNOWN	None	20250	240	79	23443256	23446052	-1	JUB	MGC15563
14	AJUBA	ENSG00000129474	ENST00000556731	protein_coding	KNOWN	None	20250	240	79	23443256	23446946	-1	JUB	MGC15563
14	AJUBA	ENSG00000129474	ENST00000553911	protein_coding	KNOWN	None	20250	194	63	23443302	23446013	-1	JUB	MGC15563
14	AJUBA	ENSG00000129474	ENST00000555479	retained_intron	KNOWN	None	20250	None	None	23443864	23444504	-1	JUB	MGC15563
14	AJUBA	ENSG00000129474	ENST00000553736	protein_coding	PUTATIVE	None	20250	430	142	23447821	23450795	-1	JUB	MGC15563
14	AJUBA	ENSG00000129474	ENST00000361265	protein_coding	KNOWN	CCDS9581	20250	1617	538	23441028	23451547	-1	JUB	MGC15563
5	PHF15	ENSG00000043143	ENST00000512386	protein_coding	KNOWN	None	22984	449	148	133860003	133895657	1	None	KIAA0239
5	PHF15	ENSG00000043143	ENST00000282605	protein_coding	NOVEL	None	22984	2505	834	133861347	133915164	1	None	KIAA0239
5	PHF15	ENSG00000043143	ENST00000515554	processed_transcript	KNOWN	None	22984	None	None	133861352	133872480	1	None	KIAA0239
5	PHF15	ENSG00000043143	ENST00000361895	protein_coding	NOVEL	None	22984	2376	791	133861363	133915504	1	None	KIAA0239
5	PHF15	ENSG00000043143	ENST00000402835	protein_coding	PUTATIVE	None	22984	1530	509	133861432	133915165	1	None	KIAA0239
5	PHF15	ENSG00000043143	ENST00000395003	protein_coding	KNOWN	CCDS4176	22984	2373	790	133861798	133918918	1	None	KIAA0239
5	PHF15	ENSG00000043143	ENST00000431355	protein_coding	KNOWN	None	22984	765	254	133862327	133897970	1	None	KIAA0239
5	PHF15	ENSG00000043143	ENST00000453515	processed_transcript	KNOWN	None	22984	None	None	133880126	133896561	1	None	KIAA0239
5	PHF15	ENSG00000043143	ENST00000470876	retained_intron	KNOWN	None	22984	None	None	133899862	133911427	1	None	KIAA0239
5	PHF15	ENSG00000043143	ENST00000430087	nonsense_mediated_decay	KNOWN	None	22984	143	46	133909447	133915165	1	None	KIAA0239
5	C5orf63	ENSG00000164241	ENST00000508527	nonsense_mediated_decay	KNOWN	None	40051	168	55	126381051	126409172	-1	None	YDR286C, FLJ44606
5	C5orf63	ENSG00000164241	ENST00000606937	protein_coding	KNOWN	CCDS54895	40051	417	138	126383219	126407315	-1	None	YDR286C, FLJ44606
5	C5orf63	ENSG00000164241	ENST00000607731	protein_coding	PUTATIVE	None	40051	270	89	126386996	126409159	-1	None	YDR286C, FLJ44606
5	C5orf63	ENSG00000164241	ENST00000606042	protein_coding	PUTATIVE	None	40051	174	57	126387304	126394609	-1	None	YDR286C, FLJ44606
5	C5orf63	ENSG00000164241	ENST00000509733	protein_coding	KNOWN	None	40051	180	59	126388074	126409184	-1	None	YDR286C, FLJ44606
5	C5orf63	ENSG00000164241	ENST00000515558	retained_intron	KNOWN	None	40051	None	None	126394445	126409081	-1	None	YDR286C, FLJ44606
5	C5orf63	ENSG00000164241	ENST00000535381	protein_coding	KNOWN	CCDS54895	40051	417	138	126378250	126409184	-1	None	YDR286C, FLJ44606
5	C5orf63	ENSG00000164241	ENST00000296662	protein_coding	KNOWN	CCDS54896	40051	348	115	126386996	126409184	-1	None	YDR286C, FLJ44606
19	ZNF331	ENSG00000130844	ENST00000513929	processed_transcript	KNOWN	None	15489	None	None	54024235	54026769	1	None	RITA, ZNF463, ZNF361
19	ZNF331	ENSG00000130844	ENST00000253144	protein_coding	KNOWN	CCDS33102	15489	1392	463	54024278	54083523	1	None	RITA, ZNF463, ZNF361
19	ZNF331	ENSG00000130844	ENST00000502248	protein_coding	KNOWN	None	15489	190	62	54025093	54080004	1	None	RITA, ZNF463, ZNF361
19	ZNF331	ENSG00000130844	ENST00000511593	protein_coding	KNOWN	CCDS33102	15489	1392	463	54025110	54081335	1	None	RITA, ZNF463, ZNF361
19	ZNF331	ENSG00000130844	ENST00000504033	processed_transcript	KNOWN	None	15489	None	None	54040507	54059106	1	None	RITA, ZNF463, ZNF361
19	ZNF331	ENSG00000130844	ENST00000514374	protein_coding	KNOWN	None	15489	299	98	54040939	54080113	1	None	RITA, ZNF463, ZNF361
19	ZNF331	ENSG00000130844	ENST00000411977	protein_coding	KNOWN	CCDS33102	15489	1392	463	54041333	54081640	1	None	RITA, ZNF463, ZNF361
19	ZNF331	ENSG00000130844	ENST00000511154	protein_coding	KNOWN	CCDS33102	15489	1392	463	54041397	54081640	1	None	RITA, ZNF463, ZNF361
19	ZNF331	ENSG00000130844	ENST00000509069	retained_intron	KNOWN	None	15489	None	None	54041399	54042778	1	None	RITA, ZNF463, ZNF361
19	ZNF331	ENSG00000130844	ENST00000509047	protein_coding	KNOWN	None	15489	260	85	54041540	54080074	1	None	RITA, ZNF463, ZNF361
19	ZNF331	ENSG00000130844	ENST00000509585	protein_coding	KNOWN	None	15489	141	46	54041559	54079955	1	None	RITA, ZNF463, ZNF361
19	ZNF331	ENSG00000130844	ENST00000504940	retained_intron	KNOWN	None	15489	None	None	54041577	54042611	1	None	RITA, ZNF463, ZNF361
19	ZNF331	ENSG00000130844	ENST00000513999	protein_coding	KNOWN	CCDS33102	15489	1392	463	54042042	54081335	1	None	RITA, ZNF463, ZNF361
19	ZNF331	ENSG00000130844	ENST00000512387	protein_coding	KNOWN	CCDS33102	15489	1392	463	54057784	54081643	1	None	RITA, ZNF463, ZNF361
19	ZNF331	ENSG00000130844	ENST00000511567	protein_coding	KNOWN	None	15489	315	104	54057855	54080129	1	None	RITA, ZNF463, ZNF361
19	ZNF331	ENSG00000130844	ENST00000514022	protein_coding	KNOWN	None	15489	500	165	54057867	54080314	1	None	RITA, ZNF463, ZNF361
19	ZNF331	ENSG00000130844	ENST00000505949	protein_coding	KNOWN	None	15489	532	176	54058081	54080346	1	None	RITA, ZNF463, ZNF361
19	ZNF331	ENSG00000130844	ENST00000513265	protein_coding	PUTATIVE	None	15489	297	98	54058081	54080944	1	None	RITA, ZNF463, ZNF361
19	ZNF331	ENSG00000130844	ENST00000502616	protein_coding	KNOWN	None	15489	257	84	54058494	54080071	1	None	RITA, ZNF463, ZNF361
19	ZNF331	ENSG00000130844	ENST00000504493	protein_coding	KNOWN	None	15489	199	65	54058561	54080013	1	None	RITA, ZNF463, ZNF361
19	ZNF331	ENSG00000130844	ENST00000505426	protein_coding	KNOWN	None	15489	193	63	54058741	54080007	1	None	RITA, ZNF463, ZNF361
19	ZNF331	ENSG00000130844	ENST00000449416	protein_coding	KNOWN	CCDS33102	15489	1392	463	54039577	54083523	1	None	RITA, ZNF463, ZNF361
X	OPHN1	ENSG00000079482	ENST00000355520	protein_coding	KNOWN	CCDS14388	8148	2409	802	67262186	67653647	-1	MRX60	OPN1, ARHGAP41
X	OPHN1	ENSG00000079482	ENST00000484842	processed_transcript	KNOWN	None	8148	None	None	67283696	67332264	-1	MRX60	OPN1, ARHGAP41
X	OPHN1	ENSG00000079482	ENST00000467444	processed_transcript	KNOWN	None	8148	None	None	67412584	67430110	-1	MRX60	OPN1, ARHGAP41
X	OPHN1	ENSG00000079482	ENST00000486068	processed_transcript	KNOWN	None	8148	None	None	67518843	67556294	-1	MRX60	OPN1, ARHGAP41
X	OPHN1	ENSG00000079482	ENST00000491714	processed_transcript	KNOWN	None	8148	None	None	67652773	67653755	-1	MRX60	OPN1, ARHGAP41
X	OPHN1	ENSG00000079482	ENST00000540071	protein_coding	KNOWN	None	8148	2085	694	67266504	67653369	-1	MRX60	OPN1, ARHGAP41
2	ARHGAP25	ENSG00000163219	ENST00000463483	nonsense_mediated_decay	KNOWN	None	28951	852	283	68906733	69043443	1	None	KIAA0053
2	ARHGAP25	ENSG00000163219	ENST00000481684	processed_transcript	KNOWN	None	28951	None	None	68906978	69015054	1	None	KIAA0053
2	ARHGAP25	ENSG00000163219	ENST00000491237	processed_transcript	KNOWN	None	28951	None	None	68907094	69009418	1	None	KIAA0053
2	ARHGAP25	ENSG00000163219	ENST00000409202	protein_coding	KNOWN	CCDS33214	28951	1941	646	68961967	69053965	1	None	KIAA0053
2	ARHGAP25	ENSG00000163219	ENST00000456116	processed_transcript	KNOWN	None	28951	None	None	68961997	69040526	1	None	KIAA0053
2	ARHGAP25	ENSG00000163219	ENST00000467265	protein_coding	NOVEL	CCDS54363	28951	1821	606	68962014	69053434	1	None	KIAA0053
2	ARHGAP25	ENSG00000163219	ENST00000485573	processed_transcript	KNOWN	None	28951	None	None	68962084	69002549	1	None	KIAA0053
2	ARHGAP25	ENSG00000163219	ENST00000488795	nonsense_mediated_decay	KNOWN	None	28951	420	139	68962208	69043684	1	None	KIAA0053
2	ARHGAP25	ENSG00000163219	ENST00000463061	processed_transcript	KNOWN	None	28951	None	None	68962241	69002270	1	None	KIAA0053
2	ARHGAP25	ENSG00000163219	ENST00000485700	processed_transcript	KNOWN	None	28951	None	None	68962444	69034612	1	None	KIAA0053
2	ARHGAP25	ENSG00000163219	ENST00000496266	processed_transcript	KNOWN	None	28951	None	None	68962509	69002371	1	None	KIAA0053
2	ARHGAP25	ENSG00000163219	ENST00000409030	protein_coding	KNOWN	CCDS46312	28951	1917	638	69001933	69053965	1	None	KIAA0053
2	ARHGAP25	ENSG00000163219	ENST00000409220	protein_coding	NOVEL	CCDS54364	28951	1920	639	69001933	69053965	1	None	KIAA0053
2	ARHGAP25	ENSG00000163219	ENST00000473986	nonsense_mediated_decay	KNOWN	None	28951	258	85	69002036	69045127	1	None	KIAA0053
2	ARHGAP25	ENSG00000163219	ENST00000497079	protein_coding	KNOWN	None	28951	1377	458	69002072	69046874	1	None	KIAA0053
2	ARHGAP25	ENSG00000163219	ENST00000497259	protein_coding	PUTATIVE	None	28951	1517	504	69034363	69053905	1	None	KIAA0053
2	ARHGAP25	ENSG00000163219	ENST00000479844	protein_coding	NOVEL	None	28951	1020	339	69043834	69053965	1	None	KIAA0053
2	ARHGAP25	ENSG00000163219	ENST00000295381	protein_coding	KNOWN	None	28951	1938	645	68961913	69053948	1	None	KIAA0053
2	ARHGAP25	ENSG00000163219	ENST00000544262	protein_coding	KNOWN	None	28951	852	283	68937634	69043443	1	None	KIAA0053
11	RRP8	ENSG00000132275	ENST00000254605	protein_coding	KNOWN	CCDS31411	29030	1371	456	6616305	6624850	-1	KIAA0409	None
11	RRP8	ENSG00000132275	ENST00000534343	protein_coding	PUTATIVE	None	29030	423	140	6621150	6624809	-1	KIAA0409	None
11	RRP8	ENSG00000132275	ENST00000526352	retained_intron	KNOWN	None	29030	None	None	6621173	6622534	-1	KIAA0409	None
11	RRP8	ENSG00000132275	ENST00000533907	nonsense_mediated_decay	KNOWN	None	29030	921	306	6621173	6624834	-1	KIAA0409	None
11	RRP8	ENSG00000132275	ENST00000530762	nonsense_mediated_decay	KNOWN	None	29030	237	78	6622484	6624827	-1	KIAA0409	None
1	CA14	ENSG00000118298	ENST00000369111	protein_coding	KNOWN	CCDS947	1372	1014	337	150229554	150237478	1	None	None
1	CA14	ENSG00000118298	ENST00000607751	retained_intron	KNOWN	None	1372	None	None	150230246	150233730	1	None	None
1	CA14	ENSG00000118298	ENST00000607652	retained_intron	KNOWN	None	1372	None	None	150230270	150236230	1	None	None
1	CA14	ENSG00000118298	ENST00000483993	nonsense_mediated_decay	KNOWN	None	1372	129	42	150230489	150235596	1	None	None
1	CA14	ENSG00000118298	ENST00000607082	protein_coding	PUTATIVE	None	1372	393	130	150235443	150237291	1	None	None
5	None	ENSG00000243744	ENST00000473590	processed_pseudogene	KNOWN	None	None	None	None	13638028	13638490	-1	None	None
5	None	ENSG00000251423	ENST00000503244	antisense	KNOWN	None	None	None	None	13860447	13897880	1	None	None
5	None	ENSG00000248791	ENST00000503819	processed_pseudogene	KNOWN	None	None	None	None	14620129	14621422	1	None	None
5	CCT6P2	ENSG00000250526	ENST00000507234	processed_pseudogene	KNOWN	None	35150	None	None	14639535	14641127	-1	None	None
5	EEF1A1P13	ENSG00000250182	ENST00000503537	processed_pseudogene	KNOWN	None	3196	None	None	14652050	14653438	-1	EEF1AL11	None
5	EEF1A1P13	ENSG00000250182	ENST00000599509	processed_pseudogene	KNOWN	None	3196	None	None	14652047	14653435	-1	EEF1AL11	None
22	NCAPH2	ENSG00000025770	ENST00000420993	protein_coding	KNOWN	CCDS14094	25071	1818	605	50946645	50961901	1	None	384D8-2, hCAP-H2, CAP-H2
22	NCAPH2	ENSG00000025770	ENST00000395698	protein_coding	KNOWN	CCDS43038	25071	900	299	50946672	50958181	1	None	384D8-2, hCAP-H2, CAP-H2
22	NCAPH2	ENSG00000025770	ENST00000395701	protein_coding	PUTATIVE	None	25071	1770	589	50946673	50961901	1	None	384D8-2, hCAP-H2, CAP-H2
22	NCAPH2	ENSG00000025770	ENST00000518394	nonsense_mediated_decay	KNOWN	None	25071	117	38	50946674	50956705	1	None	384D8-2, hCAP-H2, CAP-H2
22	NCAPH2	ENSG00000025770	ENST00000523045	protein_coding	NOVEL	None	25071	878	291	50946675	50960018	1	None	384D8-2, hCAP-H2, CAP-H2
22	NCAPH2	ENSG00000025770	ENST00000418794	nonsense_mediated_decay	KNOWN	None	25071	189	62	50946688	50956487	1	None	384D8-2, hCAP-H2, CAP-H2
22	NCAPH2	ENSG00000025770	ENST00000299821	protein_coding	KNOWN	CCDS54546	25071	1821	606	50946689	50961901	1	None	384D8-2, hCAP-H2, CAP-H2
22	NCAPH2	ENSG00000025770	ENST00000520297	processed_transcript	KNOWN	None	25071	None	None	50957976	50960847	1	None	384D8-2, hCAP-H2, CAP-H2
22	NCAPH2	ENSG00000025770	ENST00000522048	retained_intron	KNOWN	None	25071	None	None	50958839	50960998	1	None	384D8-2, hCAP-H2, CAP-H2
22	NCAPH2	ENSG00000025770	ENST00000522304	protein_coding	NOVEL	None	25071	425	140	50960954	50961900	1	None	384D8-2, hCAP-H2, CAP-H2
19	DNMT1	ENSG00000130816	ENST00000586588	retained_intron	KNOWN	None	2976	None	None	10244021	10255430	-1	DNMT	MCMT, CXXC9
19	DNMT1	ENSG00000130816	ENST00000592705	nonsense_mediated_decay	KNOWN	None	2976	270	89	10244022	10305610	-1	DNMT	MCMT, CXXC9
19	DNMT1	ENSG00000130816	ENST00000340748	protein_coding	KNOWN	CCDS12228	2976	4851	1616	10244022	10305811	-1	DNMT	MCMT, CXXC9
19	DNMT1	ENSG00000130816	ENST00000591798	processed_transcript	KNOWN	None	2976	None	None	10244027	10246193	-1	DNMT	MCMT, CXXC9
19	DNMT1	ENSG00000130816	ENST00000588913	nonsense_mediated_decay	KNOWN	None	2976	1169	388	10244043	10250806	-1	DNMT	MCMT, CXXC9
19	DNMT1	ENSG00000130816	ENST00000359526	protein_coding	KNOWN	CCDS45958	2976	4899	1632	10244216	10305755	-1	DNMT	MCMT, CXXC9
19	DNMT1	ENSG00000130816	ENST00000589294	retained_intron	KNOWN	None	2976	None	None	10248143	10249146	-1	DNMT	MCMT, CXXC9
19	DNMT1	ENSG00000130816	ENST00000587197	retained_intron	KNOWN	None	2976	None	None	10248564	10250871	-1	DNMT	MCMT, CXXC9
19	DNMT1	ENSG00000130816	ENST00000589538	processed_transcript	KNOWN	None	2976	None	None	10250706	10254577	-1	DNMT	MCMT, CXXC9
19	DNMT1	ENSG00000130816	ENST00000589351	retained_intron	KNOWN	None	2976	None	None	10250930	10252248	-1	DNMT	MCMT, CXXC9
19	DNMT1	ENSG00000130816	ENST00000593049	processed_transcript	KNOWN	None	2976	None	None	10250956	10253572	-1	DNMT	MCMT, CXXC9
19	DNMT1	ENSG00000130816	ENST00000587604	retained_intron	KNOWN	None	2976	None	None	10251205	10252750	-1	DNMT	MCMT, CXXC9
19	DNMT1	ENSG00000130816	ENST00000589091	retained_intron	KNOWN	None	2976	None	None	10251365	10252122	-1	DNMT	MCMT, CXXC9
19	DNMT1	ENSG00000130816	ENST00000591239	retained_intron	KNOWN	None	2976	None	None	10252373	10254467	-1	DNMT	MCMT, CXXC9
19	DNMT1	ENSG00000130816	ENST00000586667	retained_intron	KNOWN	None	2976	None	None	10259601	10262373	-1	DNMT	MCMT, CXXC9
19	DNMT1	ENSG00000130816	ENST00000586799	nonsense_mediated_decay	KNOWN	None	2976	166	54	10260624	10265653	-1	DNMT	MCMT, CXXC9
19	DNMT1	ENSG00000130816	ENST00000585843	retained_intron	KNOWN	None	2976	None	None	10265340	10270939	-1	DNMT	MCMT, CXXC9
19	DNMT1	ENSG00000130816	ENST00000589349	retained_intron	KNOWN	None	2976	None	None	10270588	10277347	-1	DNMT	MCMT, CXXC9
19	DNMT1	ENSG00000130816	ENST00000591764	retained_intron	KNOWN	None	2976	None	None	10270620	10277342	-1	DNMT	MCMT, CXXC9
19	DNMT1	ENSG00000130816	ENST00000585920	retained_intron	KNOWN	None	2976	None	None	10270883	10273659	-1	DNMT	MCMT, CXXC9
19	DNMT1	ENSG00000130816	ENST00000586988	nonsense_mediated_decay	KNOWN	None	2976	123	40	10279006	10305580	-1	DNMT	MCMT, CXXC9
19	DNMT1	ENSG00000130816	ENST00000588952	protein_coding	PUTATIVE	None	2976	357	118	10283766	10341962	-1	DNMT	MCMT, CXXC9
19	DNMT1	ENSG00000130816	ENST00000588118	protein_coding	PUTATIVE	None	2976	765	254	10286216	10311868	-1	DNMT	MCMT, CXXC9
19	DNMT1	ENSG00000130816	ENST00000592342	protein_coding	PUTATIVE	None	2976	283	93	10286218	10341949	-1	DNMT	MCMT, CXXC9
19	DNMT1	ENSG00000130816	ENST00000592054	protein_coding	PUTATIVE	None	2976	214	70	10286239	10305302	-1	DNMT	MCMT, CXXC9
19	DNMT1	ENSG00000130816	ENST00000590619	protein_coding	NOVEL	None	2976	231	76	10287995	10291057	-1	DNMT	MCMT, CXXC9
19	DNMT1	ENSG00000130816	ENST00000586800	protein_coding	PUTATIVE	None	2976	77	24	10291031	10311873	-1	DNMT	MCMT, CXXC9
19	DNMT1	ENSG00000130816	ENST00000586086	processed_transcript	KNOWN	None	2976	None	None	10291139	10295235	-1	DNMT	MCMT, CXXC9
19	DNMT1	ENSG00000130816	ENST00000540357	protein_coding	KNOWN	None	2976	4860	1619	10244023	10305755	-1	DNMT	MCMT, CXXC9
1	CD55	ENSG00000196352	ENST00000367064	protein_coding	KNOWN	CCDS31006	2665	1146	381	207494853	207534311	1	DAF	CR, TC, CROM
1	CD55	ENSG00000196352	ENST00000367063	protein_coding	PUTATIVE	None	2665	1335	444	207494877	207514111	1	DAF	CR, TC, CROM
1	CD55	ENSG00000196352	ENST00000391921	protein_coding	NOVEL	None	2665	954	317	207494988	207534311	1	DAF	CR, TC, CROM
1	CD55	ENSG00000196352	ENST00000488171	retained_intron	KNOWN	None	2665	None	None	207495032	207511004	1	DAF	CR, TC, CROM
1	CD55	ENSG00000196352	ENST00000314754	protein_coding	KNOWN	CCDS44307	2665	1323	440	207495046	207533846	1	DAF	CR, TC, CROM
1	CD55	ENSG00000196352	ENST00000482390	nonsense_mediated_decay	KNOWN	None	2665	1134	377	207495111	207533022	1	DAF	CR, TC, CROM
1	CD55	ENSG00000196352	ENST00000343420	protein_coding	NOVEL	None	2665	978	325	207495136	207510133	1	DAF	CR, TC, CROM
1	CD55	ENSG00000196352	ENST00000465534	processed_transcript	KNOWN	None	2665	None	None	207498003	207533058	1	DAF	CR, TC, CROM
1	CD55	ENSG00000196352	ENST00000476590	retained_intron	KNOWN	None	2665	None	None	207498003	207533847	1	DAF	CR, TC, CROM
1	CD55	ENSG00000196352	ENST00000367065	protein_coding	KNOWN	None	2665	1320	439	207495093	207533221	1	DAF	CR, TC, CROM
1	CD55	ENSG00000196352	ENST00000391920	protein_coding	KNOWN	None	2665	1155	384	207495093	207533221	1	DAF	CR, TC, CROM
1	CD55	ENSG00000196352	ENST00000367062	protein_coding	KNOWN	None	2665	1095	364	207495093	207533221	1	DAF	CR, TC, CROM
1	CD55	ENSG00000196352	ENST00000367067	protein_coding	KNOWN	None	2665	390	129	207495029	207533110	1	DAF	CR, TC, CROM
4	ARHGAP24	ENSG00000138639	ENST00000395184	protein_coding	KNOWN	CCDS34025	25361	2247	748	86396267	86923823	1	None	DKFZP564B1162, FLJ33877, FilGAP
4	ARHGAP24	ENSG00000138639	ENST00000503995	protein_coding	KNOWN	None	25361	741	246	86396391	86893520	1	None	DKFZP564B1162, FLJ33877, FilGAP
4	ARHGAP24	ENSG00000138639	ENST00000506421	processed_transcript	KNOWN	None	25361	None	None	86396596	86644885	1	None	DKFZP564B1162, FLJ33877, FilGAP
4	ARHGAP24	ENSG00000138639	ENST00000505856	retained_intron	KNOWN	None	25361	None	None	86396639	86492085	1	None	DKFZP564B1162, FLJ33877, FilGAP
4	ARHGAP24	ENSG00000138639	ENST00000509709	retained_intron	KNOWN	None	25361	None	None	86491746	86643539	1	None	DKFZP564B1162, FLJ33877, FilGAP
4	ARHGAP24	ENSG00000138639	ENST00000512201	protein_coding	KNOWN	None	25361	246	81	86525306	86863358	1	None	DKFZP564B1162, FLJ33877, FilGAP
4	ARHGAP24	ENSG00000138639	ENST00000395183	protein_coding	KNOWN	CCDS43246	25361	1962	653	86699859	86922376	1	None	DKFZP564B1162, FLJ33877, FilGAP
4	ARHGAP24	ENSG00000138639	ENST00000509300	protein_coding	PUTATIVE	None	25361	354	117	86748898	86893321	1	None	DKFZP564B1162, FLJ33877, FilGAP
4	ARHGAP24	ENSG00000138639	ENST00000514229	protein_coding	PUTATIVE	None	25361	1866	621	86749046	86921749	1	None	DKFZP564B1162, FLJ33877, FilGAP
4	ARHGAP24	ENSG00000138639	ENST00000502537	processed_transcript	KNOWN	None	25361	None	None	86844887	86896919	1	None	DKFZP564B1162, FLJ33877, FilGAP
4	ARHGAP24	ENSG00000138639	ENST00000503917	processed_transcript	PUTATIVE	None	25361	None	None	86845850	86863603	1	None	DKFZP564B1162, FLJ33877, FilGAP
4	ARHGAP24	ENSG00000138639	ENST00000264343	protein_coding	KNOWN	CCDS3611	25361	1968	655	86851426	86923821	1	None	DKFZP564B1162, FLJ33877, FilGAP
19	CCDC130	ENSG00000104957	ENST00000540216	retained_intron	KNOWN	None	28118	None	None	13842574	13869935	1	None	MGC10471
19	CCDC130	ENSG00000104957	ENST00000586600	protein_coding	KNOWN	CCDS12296	28118	1191	396	13842574	13874110	1	None	MGC10471
19	CCDC130	ENSG00000104957	ENST00000587098	retained_intron	KNOWN	None	28118	None	None	13842576	13843416	1	None	MGC10471
19	CCDC130	ENSG00000104957	ENST00000588071	retained_intron	KNOWN	None	28118	None	None	13842581	13869967	1	None	MGC10471
19	CCDC130	ENSG00000104957	ENST00000221554	protein_coding	KNOWN	CCDS12296	28118	1191	396	13858593	13874106	1	None	MGC10471
19	CCDC130	ENSG00000104957	ENST00000593174	retained_intron	KNOWN	None	28118	None	None	13858678	13874093	1	None	MGC10471
19	CCDC130	ENSG00000104957	ENST00000586666	protein_coding	PUTATIVE	None	28118	712	236	13858711	13873550	1	None	MGC10471
19	CCDC130	ENSG00000104957	ENST00000588809	protein_coding	PUTATIVE	None	28118	571	189	13867022	13870292	1	None	MGC10471
19	CCDC130	ENSG00000104957	ENST00000589096	protein_coding	PUTATIVE	None	28118	183	60	13869722	13870441	1	None	MGC10471
19	CCDC130	ENSG00000104957	ENST00000587019	processed_transcript	KNOWN	None	28118	None	None	13869890	13873745	1	None	MGC10471
19	CCDC130	ENSG00000104957	ENST00000585844	protein_coding	PUTATIVE	None	28118	309	102	13869925	13873837	1	None	MGC10471
19	CCDC130	ENSG00000104957	ENST00000589669	protein_coding	PUTATIVE	None	28118	106	34	13872205	13873787	1	None	MGC10471
9	AMBP	ENSG00000106927	ENST00000265132	protein_coding	KNOWN	CCDS6800	453	1059	352	116822407	116840752	-1	ITI, ITIL	UTI, HCP, EDC1, HI30, IATIL, ITILC
9	AMBP	ENSG00000106927	ENST00000540645	retained_intron	KNOWN	None	453	None	None	116823190	116839888	-1	ITI, ITIL	UTI, HCP, EDC1, HI30, IATIL, ITILC
9	AMBP	ENSG00000106927	ENST00000466610	protein_coding	PUTATIVE	None	453	579	192	116823272	116837249	-1	ITI, ITIL	UTI, HCP, EDC1, HI30, IATIL, ITILC
9	AMBP	ENSG00000106927	ENST00000603230	nonsense_mediated_decay	KNOWN	None	453	717	238	116823780	116840608	-1	ITI, ITIL	UTI, HCP, EDC1, HI30, IATIL, ITILC
3	ACOX2	ENSG00000168306	ENST00000481527	processed_transcript	KNOWN	None	120	None	None	58490863	58508714	-1	None	BRCACOX, BRCOX, THCCox
3	ACOX2	ENSG00000168306	ENST00000467738	retained_intron	KNOWN	None	120	None	None	58490863	58512476	-1	None	BRCACOX, BRCOX, THCCox
3	ACOX2	ENSG00000168306	ENST00000459701	protein_coding	NOVEL	None	120	2004	667	58490863	58523010	-1	None	BRCACOX, BRCOX, THCCox
3	ACOX2	ENSG00000168306	ENST00000302819	protein_coding	KNOWN	CCDS33775	120	2046	681	58490863	58523046	-1	None	BRCACOX, BRCOX, THCCox
3	ACOX2	ENSG00000168306	ENST00000460921	nonsense_mediated_decay	KNOWN	None	120	282	93	58490865	58503114	-1	None	BRCACOX, BRCOX, THCCox
3	ACOX2	ENSG00000168306	ENST00000489472	nonsense_mediated_decay	KNOWN	None	120	324	107	58510189	58519280	-1	None	BRCACOX, BRCOX, THCCox
3	ACOX2	ENSG00000168306	ENST00000459888	retained_intron	KNOWN	None	120	None	None	58512232	58514933	-1	None	BRCACOX, BRCOX, THCCox
3	ACOX2	ENSG00000168306	ENST00000466810	retained_intron	KNOWN	None	120	None	None	58517037	58519552	-1	None	BRCACOX, BRCOX, THCCox
3	ACOX2	ENSG00000168306	ENST00000492530	nonsense_mediated_decay	KNOWN	None	120	41	12	58517048	58520706	-1	None	BRCACOX, BRCOX, THCCox
3	ACOX2	ENSG00000168306	ENST00000474098	protein_coding	KNOWN	None	120	514	170	58519241	58522905	-1	None	BRCACOX, BRCOX, THCCox
3	ACOX2	ENSG00000168306	ENST00000475143	processed_transcript	KNOWN	None	120	None	None	58519785	58522899	-1	None	BRCACOX, BRCOX, THCCox
3	ACOX2	ENSG00000168306	ENST00000466689	retained_intron	KNOWN	None	120	None	None	58519845	58522902	-1	None	BRCACOX, BRCOX, THCCox
3	ACOX2	ENSG00000168306	ENST00000480791	retained_intron	KNOWN	None	120	None	None	58520304	58522874	-1	None	BRCACOX, BRCOX, THCCox
3	RAB6B	ENSG00000154917	ENST00000285208	protein_coding	KNOWN	CCDS3082	14902	627	208	133543083	133614660	-1	None	None
3	RAB6B	ENSG00000154917	ENST00000469959	protein_coding	PUTATIVE	None	14902	216	71	133546592	133614477	-1	None	None
3	RAB6B	ENSG00000154917	ENST00000486858	protein_coding	PUTATIVE	None	14902	588	195	133547497	133614297	-1	None	None
3	RAB6B	ENSG00000154917	ENST00000477759	protein_coding	PUTATIVE	None	14902	372	123	133557034	133614330	-1	None	None
3	RAB6B	ENSG00000154917	ENST00000460865	protein_coding	PUTATIVE	None	14902	250	82	133557093	133614680	-1	None	None
3	RAB6B	ENSG00000154917	ENST00000488969	protein_coding	PUTATIVE	None	14902	149	48	133560170	133613563	-1	None	None
3	RAB6B	ENSG00000154917	ENST00000543906	protein_coding	KNOWN	CCDS3082	14902	627	208	133543087	133614439	-1	None	None
19	SCAF1	ENSG00000126461	ENST00000360565	protein_coding	KNOWN	CCDS33074	30403	3939	1312	50145382	50161899	1	None	SR-A1, FLJ00034
19	SCAF1	ENSG00000126461	ENST00000598359	protein_coding	KNOWN	None	30403	609	202	50145917	50154255	1	None	SR-A1, FLJ00034
19	SCAF1	ENSG00000126461	ENST00000601038	protein_coding	KNOWN	None	30403	294	97	50148087	50149815	1	None	SR-A1, FLJ00034
19	SCAF1	ENSG00000126461	ENST00000595242	protein_coding	NOVEL	None	30403	359	118	50148180	50149876	1	None	SR-A1, FLJ00034
5	None	ENSG00000261360	ENST00000563101	antisense	KNOWN	None	None	None	None	14661917	14664713	-1	None	None
5	None	ENSG00000261360	ENST00000567048	antisense	KNOWN	None	None	None	None	14663210	14664682	-1	None	None
5	None	ENSG00000261360	ENST00000564167	antisense	KNOWN	None	None	None	None	14663212	14664384	-1	None	None
5	POLK	ENSG00000122008	ENST00000241436	protein_coding	KNOWN	CCDS4030	9183	2613	870	74807581	74896969	1	DINB1	POLQ, DINP
5	POLK	ENSG00000122008	ENST00000503479	nonsense_mediated_decay	KNOWN	None	9183	1191	396	74807670	74893865	1	DINB1	POLQ, DINP
5	POLK	ENSG00000122008	ENST00000510815	nonsense_mediated_decay	KNOWN	None	9183	1119	372	74807716	74893992	1	DINB1	POLQ, DINP
5	POLK	ENSG00000122008	ENST00000506928	processed_transcript	KNOWN	None	9183	None	None	74807716	74894927	1	DINB1	POLQ, DINP
5	POLK	ENSG00000122008	ENST00000505774	nonsense_mediated_decay	KNOWN	None	9183	273	90	74807890	74865194	1	DINB1	POLQ, DINP
5	POLK	ENSG00000122008	ENST00000514296	protein_coding	KNOWN	None	9183	424	140	74807894	74869662	1	DINB1	POLQ, DINP
5	POLK	ENSG00000122008	ENST00000508867	retained_intron	KNOWN	None	9183	None	None	74842835	74878790	1	DINB1	POLQ, DINP
5	POLK	ENSG00000122008	ENST00000515295	protein_coding	KNOWN	None	9183	1419	472	74842835	74886334	1	DINB1	POLQ, DINP
5	POLK	ENSG00000122008	ENST00000514141	nonsense_mediated_decay	KNOWN	None	9183	1284	427	74842835	74895659	1	DINB1	POLQ, DINP
5	POLK	ENSG00000122008	ENST00000511527	nonsense_mediated_decay	KNOWN	None	9183	273	90	74842848	74893839	1	DINB1	POLQ, DINP
5	POLK	ENSG00000122008	ENST00000504026	protein_coding	PUTATIVE	None	9183	1386	461	74842848	74893843	1	DINB1	POLQ, DINP
5	POLK	ENSG00000122008	ENST00000505975	nonsense_mediated_decay	KNOWN	None	9183	273	90	74842848	74893843	1	DINB1	POLQ, DINP
5	POLK	ENSG00000122008	ENST00000508526	protein_coding	KNOWN	None	9183	2019	672	74842848	74893843	1	DINB1	POLQ, DINP
5	POLK	ENSG00000122008	ENST00000509126	nonsense_mediated_decay	KNOWN	None	9183	1470	489	74842848	74893843	1	DINB1	POLQ, DINP
5	POLK	ENSG00000122008	ENST00000507073	processed_transcript	KNOWN	None	9183	None	None	74848296	74872742	1	DINB1	POLQ, DINP
5	POLK	ENSG00000122008	ENST00000505069	retained_intron	KNOWN	None	9183	None	None	74892939	74893865	1	DINB1	POLQ, DINP
5	POLK	ENSG00000122008	ENST00000502567	retained_intron	KNOWN	None	9183	None	None	74893242	74893813	1	DINB1	POLQ, DINP
5	POLK	ENSG00000122008	ENST00000352007	protein_coding	KNOWN	None	9183	2019	672	74807657	74895646	1	DINB1	POLQ, DINP
5	POLK	ENSG00000122008	ENST00000380481	protein_coding	KNOWN	None	9183	2343	780	74842848	74893843	1	DINB1	POLQ, DINP
8	CLU	ENSG00000120885	ENST00000316403	protein_coding	KNOWN	CCDS47832	2095	1350	449	27454434	27472548	-1	CLI, APOJ	SGP-2, SP-40, TRPM-2, KUB1, CLU1, CLU2
8	CLU	ENSG00000120885	ENST00000405140	protein_coding	KNOWN	CCDS47832	2095	1350	449	27455325	27468948	-1	CLI, APOJ	SGP-2, SP-40, TRPM-2, KUB1, CLU1, CLU2
8	CLU	ENSG00000120885	ENST00000523500	protein_coding	PUTATIVE	CCDS47832	2095	1350	449	27455513	27468874	-1	CLI, APOJ	SGP-2, SP-40, TRPM-2, KUB1, CLU1, CLU2
8	CLU	ENSG00000120885	ENST00000522299	retained_intron	KNOWN	None	2095	None	None	27455513	27472210	-1	CLI, APOJ	SGP-2, SP-40, TRPM-2, KUB1, CLU1, CLU2
8	CLU	ENSG00000120885	ENST00000521770	protein_coding	PUTATIVE	None	2095	422	139	27455660	27457532	-1	CLI, APOJ	SGP-2, SP-40, TRPM-2, KUB1, CLU1, CLU2
8	CLU	ENSG00000120885	ENST00000522098	protein_coding	PUTATIVE	None	2095	850	282	27456054	27462856	-1	CLI, APOJ	SGP-2, SP-40, TRPM-2, KUB1, CLU1, CLU2
8	CLU	ENSG00000120885	ENST00000522502	retained_intron	KNOWN	None	2095	None	None	27461735	27462856	-1	CLI, APOJ	SGP-2, SP-40, TRPM-2, KUB1, CLU1, CLU2
8	CLU	ENSG00000120885	ENST00000523589	protein_coding	PUTATIVE	None	2095	813	270	27461827	27472207	-1	CLI, APOJ	SGP-2, SP-40, TRPM-2, KUB1, CLU1, CLU2
8	CLU	ENSG00000120885	ENST00000560566	protein_coding	PUTATIVE	None	2095	892	296	27461883	27469268	-1	CLI, APOJ	SGP-2, SP-40, TRPM-2, KUB1, CLU1, CLU2
8	CLU	ENSG00000120885	ENST00000520796	protein_coding	PUTATIVE	None	2095	612	203	27462658	27468722	-1	CLI, APOJ	SGP-2, SP-40, TRPM-2, KUB1, CLU1, CLU2
8	CLU	ENSG00000120885	ENST00000519742	protein_coding	PUTATIVE	None	2095	417	138	27463871	27469483	-1	CLI, APOJ	SGP-2, SP-40, TRPM-2, KUB1, CLU1, CLU2
8	CLU	ENSG00000120885	ENST00000520491	protein_coding	PUTATIVE	None	2095	407	134	27463881	27468735	-1	CLI, APOJ	SGP-2, SP-40, TRPM-2, KUB1, CLU1, CLU2
8	CLU	ENSG00000120885	ENST00000522413	protein_coding	PUTATIVE	None	2095	389	128	27463899	27472209	-1	CLI, APOJ	SGP-2, SP-40, TRPM-2, KUB1, CLU1, CLU2
8	CLU	ENSG00000120885	ENST00000518050	retained_intron	KNOWN	None	2095	None	None	27466058	27472217	-1	CLI, APOJ	SGP-2, SP-40, TRPM-2, KUB1, CLU1, CLU2
8	CLU	ENSG00000120885	ENST00000519472	protein_coding	PUTATIVE	None	2095	247	81	27466454	27472198	-1	CLI, APOJ	SGP-2, SP-40, TRPM-2, KUB1, CLU1, CLU2
8	CLU	ENSG00000120885	ENST00000523396	protein_coding	PUTATIVE	None	2095	247	81	27466454	27472215	-1	CLI, APOJ	SGP-2, SP-40, TRPM-2, KUB1, CLU1, CLU2
8	CLU	ENSG00000120885	ENST00000522238	protein_coding	PUTATIVE	None	2095	96	31	27467993	27471760	-1	CLI, APOJ	SGP-2, SP-40, TRPM-2, KUB1, CLU1, CLU2
8	CLU	ENSG00000120885	ENST00000560366	protein_coding	KNOWN	None	2095	1506	501	27454452	27472327	-1	CLI, APOJ	SGP-2, SP-40, TRPM-2, KUB1, CLU1, CLU2
8	CLU	ENSG00000120885	ENST00000546343	protein_coding	KNOWN	None	2095	1383	460	27454452	27469268	-1	CLI, APOJ	SGP-2, SP-40, TRPM-2, KUB1, CLU1, CLU2
1	APH1A	ENSG00000117362	ENST00000369109	protein_coding	KNOWN	CCDS41390	29509	798	265	150237804	150241399	-1	None	APH-1A, CGI-78
1	APH1A	ENSG00000117362	ENST00000360244	protein_coding	KNOWN	CCDS41391	29509	744	247	150237806	150241703	-1	None	APH-1A, CGI-78
1	APH1A	ENSG00000117362	ENST00000461320	processed_transcript	KNOWN	None	29509	None	None	150238749	150241415	-1	None	APH-1A, CGI-78
1	APH1A	ENSG00000117362	ENST00000236017	protein_coding	KNOWN	None	29509	450	149	150239045	150241423	-1	None	APH-1A, CGI-78
1	APH1A	ENSG00000117362	ENST00000486308	processed_transcript	KNOWN	None	29509	None	None	150239356	150240166	-1	None	APH-1A, CGI-78
1	APH1A	ENSG00000117362	ENST00000486720	processed_transcript	KNOWN	None	29509	None	None	150239497	150240096	-1	None	APH-1A, CGI-78
1	APH1A	ENSG00000117362	ENST00000476538	processed_transcript	KNOWN	None	29509	None	None	150239770	150240966	-1	None	APH-1A, CGI-78
1	APH1A	ENSG00000117362	ENST00000493092	processed_transcript	KNOWN	None	29509	None	None	150241301	150241980	-1	None	APH-1A, CGI-78
1	APH1A	ENSG00000117362	ENST00000414276	protein_coding	KNOWN	CCDS58025	29509	588	195	150237823	150241416	-1	None	APH-1A, CGI-78
3	EIF4A2	ENSG00000156976	ENST00000441007	protein_coding	KNOWN	None	3284	171	56	186500994	186502448	1	EIF4F	DDX2B, EIF4A, BM-010
3	EIF4A2	ENSG00000156976	ENST00000445596	protein_coding	KNOWN	None	3284	294	97	186501094	186502836	1	EIF4F	DDX2B, EIF4A, BM-010
3	EIF4A2	ENSG00000156976	ENST00000323963	protein_coding	KNOWN	CCDS3282	3284	1224	407	186501336	186507689	1	EIF4F	DDX2B, EIF4A, BM-010
3	EIF4A2	ENSG00000156976	ENST00000426808	nonsense_mediated_decay	KNOWN	None	3284	291	96	186501361	186507686	1	EIF4F	DDX2B, EIF4A, BM-010
3	EIF4A2	ENSG00000156976	ENST00000465222	retained_intron	KNOWN	None	3284	None	None	186501364	186502831	1	EIF4F	DDX2B, EIF4A, BM-010
3	EIF4A2	ENSG00000156976	ENST00000491473	retained_intron	KNOWN	None	3284	None	None	186501366	186502733	1	EIF4F	DDX2B, EIF4A, BM-010
3	EIF4A2	ENSG00000156976	ENST00000486805	retained_intron	KNOWN	None	3284	None	None	186501366	186502830	1	EIF4F	DDX2B, EIF4A, BM-010
3	EIF4A2	ENSG00000156976	ENST00000465032	retained_intron	KNOWN	None	3284	None	None	186501366	186503086	1	EIF4F	DDX2B, EIF4A, BM-010
3	EIF4A2	ENSG00000156976	ENST00000465267	retained_intron	KNOWN	None	3284	None	None	186501366	186503559	1	EIF4F	DDX2B, EIF4A, BM-010
3	EIF4A2	ENSG00000156976	ENST00000495049	retained_intron	KNOWN	None	3284	None	None	186501366	186504005	1	EIF4F	DDX2B, EIF4A, BM-010
3	EIF4A2	ENSG00000156976	ENST00000429589	nonsense_mediated_decay	KNOWN	None	3284	291	96	186501366	186506929	1	EIF4F	DDX2B, EIF4A, BM-010
3	EIF4A2	ENSG00000156976	ENST00000425053	nonsense_mediated_decay	KNOWN	None	3284	1089	362	186501366	186507670	1	EIF4F	DDX2B, EIF4A, BM-010
3	EIF4A2	ENSG00000156976	ENST00000440191	protein_coding	KNOWN	None	3284	1227	408	186501366	186507686	1	EIF4F	DDX2B, EIF4A, BM-010
3	EIF4A2	ENSG00000156976	ENST00000485101	retained_intron	KNOWN	None	3284	None	None	186501367	186507683	1	EIF4F	DDX2B, EIF4A, BM-010
3	EIF4A2	ENSG00000156976	ENST00000475653	retained_intron	KNOWN	None	3284	None	None	186501382	186505175	1	EIF4F	DDX2B, EIF4A, BM-010
3	EIF4A2	ENSG00000156976	ENST00000443963	nonsense_mediated_decay	KNOWN	None	3284	294	97	186501386	186507686	1	EIF4F	DDX2B, EIF4A, BM-010
3	EIF4A2	ENSG00000156976	ENST00000498746	protein_coding	PUTATIVE	None	3284	328	108	186501992	186503702	1	EIF4F	DDX2B, EIF4A, BM-010
3	EIF4A2	ENSG00000156976	ENST00000467585	retained_intron	KNOWN	None	3284	None	None	186501992	186503833	1	EIF4F	DDX2B, EIF4A, BM-010
3	EIF4A2	ENSG00000156976	ENST00000466362	retained_intron	KNOWN	None	3284	None	None	186502850	186504287	1	EIF4F	DDX2B, EIF4A, BM-010
3	EIF4A2	ENSG00000156976	ENST00000468362	retained_intron	KNOWN	None	3284	None	None	186503751	186506157	1	EIF4F	DDX2B, EIF4A, BM-010
3	EIF4A2	ENSG00000156976	ENST00000492144	retained_intron	KNOWN	None	3284	None	None	186503784	186506045	1	EIF4F	DDX2B, EIF4A, BM-010
3	EIF4A2	ENSG00000156976	ENST00000465792	retained_intron	KNOWN	None	3284	None	None	186503865	186505079	1	EIF4F	DDX2B, EIF4A, BM-010
3	EIF4A2	ENSG00000156976	ENST00000475409	retained_intron	KNOWN	None	3284	None	None	186504280	186505311	1	EIF4F	DDX2B, EIF4A, BM-010
3	EIF4A2	ENSG00000156976	ENST00000497177	retained_intron	KNOWN	None	3284	None	None	186504429	186506296	1	EIF4F	DDX2B, EIF4A, BM-010
3	EIF4A2	ENSG00000156976	ENST00000494445	retained_intron	KNOWN	None	3284	None	None	186505103	186507080	1	EIF4F	DDX2B, EIF4A, BM-010
3	EIF4A2	ENSG00000156976	ENST00000461021	retained_intron	KNOWN	None	3284	None	None	186505196	186505988	1	EIF4F	DDX2B, EIF4A, BM-010
3	EIF4A2	ENSG00000156976	ENST00000496382	retained_intron	KNOWN	None	3284	None	None	186505565	186507266	1	EIF4F	DDX2B, EIF4A, BM-010
3	EIF4A2	ENSG00000156976	ENST00000356531	protein_coding	KNOWN	None	3284	939	312	186501386	186507683	1	EIF4F	DDX2B, EIF4A, BM-010
11	EIF4G2	ENSG00000110321	ENST00000526148	protein_coding	KNOWN	CCDS31428	3297	2724	907	10818597	10829520	-1	None	DAP5, NAT1, p97
11	EIF4G2	ENSG00000110321	ENST00000525681	protein_coding	KNOWN	CCDS31428	3297	2724	907	10818600	10829009	-1	None	DAP5, NAT1, p97
11	EIF4G2	ENSG00000110321	ENST00000532383	retained_intron	KNOWN	None	3297	None	None	10818601	10829575	-1	None	DAP5, NAT1, p97
11	EIF4G2	ENSG00000110321	ENST00000339995	protein_coding	KNOWN	CCDS31428	3297	2724	907	10818601	10830657	-1	None	DAP5, NAT1, p97
11	EIF4G2	ENSG00000110321	ENST00000396525	protein_coding	KNOWN	CCDS41618	3297	2610	869	10818717	10830255	-1	None	DAP5, NAT1, p97
11	EIF4G2	ENSG00000110321	ENST00000532120	processed_transcript	KNOWN	None	3297	None	None	10819259	10823893	-1	None	DAP5, NAT1, p97
11	EIF4G2	ENSG00000110321	ENST00000525606	retained_intron	KNOWN	None	3297	None	None	10819275	10821173	-1	None	DAP5, NAT1, p97
11	EIF4G2	ENSG00000110321	ENST00000534470	retained_intron	KNOWN	None	3297	None	None	10820290	10820908	-1	None	DAP5, NAT1, p97
11	EIF4G2	ENSG00000110321	ENST00000534272	processed_transcript	KNOWN	None	3297	None	None	10820539	10821842	-1	None	DAP5, NAT1, p97
11	EIF4G2	ENSG00000110321	ENST00000528839	protein_coding	NOVEL	None	3297	702	233	10820539	10822029	-1	None	DAP5, NAT1, p97
11	EIF4G2	ENSG00000110321	ENST00000531180	protein_coding	NOVEL	None	3297	557	184	10821639	10822562	-1	None	DAP5, NAT1, p97
11	EIF4G2	ENSG00000110321	ENST00000530564	retained_intron	KNOWN	None	3297	None	None	10822078	10823135	-1	None	DAP5, NAT1, p97
11	EIF4G2	ENSG00000110321	ENST00000531416	protein_coding	KNOWN	None	3297	1332	443	10822602	10829631	-1	None	DAP5, NAT1, p97
11	EIF4G2	ENSG00000110321	ENST00000531647	nonsense_mediated_decay	KNOWN	None	3297	255	84	10823607	10828881	-1	None	DAP5, NAT1, p97
11	EIF4G2	ENSG00000110321	ENST00000532082	protein_coding	KNOWN	None	3297	847	281	10824808	10829856	-1	None	DAP5, NAT1, p97
11	EIF4G2	ENSG00000110321	ENST00000532349	retained_intron	KNOWN	None	3297	None	None	10825059	10826085	-1	None	DAP5, NAT1, p97
11	EIF4G2	ENSG00000110321	ENST00000524932	protein_coding	KNOWN	None	3297	732	243	10825108	10830487	-1	None	DAP5, NAT1, p97
11	EIF4G2	ENSG00000110321	ENST00000527015	retained_intron	KNOWN	None	3297	None	None	10825489	10826153	-1	None	DAP5, NAT1, p97
11	EIF4G2	ENSG00000110321	ENST00000534605	nonsense_mediated_decay	KNOWN	None	3297	62	19	10825728	10827496	-1	None	DAP5, NAT1, p97
11	EIF4G2	ENSG00000110321	ENST00000532152	retained_intron	KNOWN	None	3297	None	None	10825839	10827810	-1	None	DAP5, NAT1, p97
11	EIF4G2	ENSG00000110321	ENST00000527419	protein_coding	NOVEL	None	3297	266	87	10825844	10830470	-1	None	DAP5, NAT1, p97
11	EIF4G2	ENSG00000110321	ENST00000531507	processed_transcript	KNOWN	None	3297	None	None	10825887	10830470	-1	None	DAP5, NAT1, p97
11	EIF4G2	ENSG00000110321	ENST00000525972	processed_transcript	KNOWN	None	3297	None	None	10825911	10830470	-1	None	DAP5, NAT1, p97
11	EIF4G2	ENSG00000110321	ENST00000528562	nonsense_mediated_decay	KNOWN	None	3297	141	46	10825919	10830471	-1	None	DAP5, NAT1, p97
11	EIF4G2	ENSG00000110321	ENST00000532570	protein_coding	KNOWN	None	3297	389	128	10825928	10830487	-1	None	DAP5, NAT1, p97
11	EIF4G2	ENSG00000110321	ENST00000530211	protein_coding	KNOWN	None	3297	348	115	10826463	10830470	-1	None	DAP5, NAT1, p97
11	EIF4G2	ENSG00000110321	ENST00000527526	protein_coding	KNOWN	None	3297	337	111	10826474	10829423	-1	None	DAP5, NAT1, p97
11	EIF4G2	ENSG00000110321	ENST00000530702	protein_coding	NOVEL	None	3297	252	83	10826493	10830476	-1	None	DAP5, NAT1, p97
11	EIF4G2	ENSG00000110321	ENST00000525995	processed_transcript	KNOWN	None	3297	None	None	10826532	10830177	-1	None	DAP5, NAT1, p97
11	EIF4G2	ENSG00000110321	ENST00000533485	retained_intron	KNOWN	None	3297	None	None	10828050	10829224	-1	None	DAP5, NAT1, p97
11	EIF4G2	ENSG00000110321	ENST00000534246	retained_intron	KNOWN	None	3297	None	None	10828621	10830466	-1	None	DAP5, NAT1, p97
6	VGLL2	ENSG00000170162	ENST00000352536	protein_coding	KNOWN	CCDS5114	20232	432	143	117586721	117594728	1	None	None
6	VGLL2	ENSG00000170162	ENST00000326274	protein_coding	KNOWN	CCDS5115	20232	954	317	117586737	117594725	1	None	None
8	POLB	ENSG00000070501	ENST00000532157	protein_coding	PUTATIVE	None	9174	115	37	42195972	42214721	1	None	None
8	POLB	ENSG00000070501	ENST00000265421	protein_coding	KNOWN	CCDS6129	9174	1008	335	42195973	42229326	1	None	None
8	POLB	ENSG00000070501	ENST00000520008	protein_coding	PUTATIVE	None	9174	155	50	42195977	42218879	1	None	None
8	POLB	ENSG00000070501	ENST00000518925	protein_coding	NOVEL	None	9174	840	279	42196000	42226815	1	None	None
8	POLB	ENSG00000070501	ENST00000519094	retained_intron	KNOWN	None	9174	None	None	42196012	42196898	1	None	None
8	POLB	ENSG00000070501	ENST00000530566	processed_transcript	KNOWN	None	9174	None	None	42196012	42197665	1	None	None
8	POLB	ENSG00000070501	ENST00000522297	retained_intron	KNOWN	None	9174	None	None	42196012	42206807	1	None	None
8	POLB	ENSG00000070501	ENST00000522610	nonsense_mediated_decay	KNOWN	None	9174	582	193	42196025	42229283	1	None	None
8	POLB	ENSG00000070501	ENST00000519771	nonsense_mediated_decay	KNOWN	None	9174	129	42	42196123	42226847	1	None	None
8	POLB	ENSG00000070501	ENST00000524208	nonsense_mediated_decay	KNOWN	None	9174	90	29	42202478	42227506	1	None	None
8	POLB	ENSG00000070501	ENST00000521290	protein_coding	NOVEL	None	9174	712	236	42206557	42229326	1	None	None
8	POLB	ENSG00000070501	ENST00000519524	retained_intron	KNOWN	None	9174	None	None	42212977	42219230	1	None	None
8	POLB	ENSG00000070501	ENST00000518579	protein_coding	PUTATIVE	None	9174	719	238	42214692	42229270	1	None	None
8	POLB	ENSG00000070501	ENST00000523465	retained_intron	KNOWN	None	9174	None	None	42214716	42215460	1	None	None
8	POLB	ENSG00000070501	ENST00000517393	protein_coding	PUTATIVE	None	9174	320	105	42218816	42229326	1	None	None
8	POLB	ENSG00000070501	ENST00000521492	protein_coding	PUTATIVE	None	9174	165	54	42226454	42229326	1	None	None
8	POLB	ENSG00000070501	ENST00000521418	retained_intron	KNOWN	None	9174	None	None	42227125	42229326	1	None	None
8	POLB	ENSG00000070501	ENST00000538005	protein_coding	KNOWN	None	9174	546	181	42196012	42229326	1	None	None
1	HYI	ENSG00000178922	ENST00000483618	retained_intron	KNOWN	None	26948	None	None	43916824	43917411	-1	None	HT036
1	HYI	ENSG00000178922	ENST00000372433	protein_coding	NOVEL	None	26948	640	212	43916825	43919387	-1	None	HT036
1	HYI	ENSG00000178922	ENST00000372434	protein_coding	NOVEL	None	26948	909	302	43916825	43919496	-1	None	HT036
1	HYI	ENSG00000178922	ENST00000470662	protein_coding	NOVEL	None	26948	560	185	43916829	43919123	-1	None	HT036
1	HYI	ENSG00000178922	ENST00000487366	protein_coding	NOVEL	None	26948	485	160	43916829	43919138	-1	None	HT036
1	HYI	ENSG00000178922	ENST00000372430	protein_coding	KNOWN	None	26948	716	237	43916829	43919346	-1	None	HT036
1	HYI	ENSG00000178922	ENST00000372432	protein_coding	KNOWN	CCDS488	26948	744	247	43916829	43919634	-1	None	HT036
1	HYI	ENSG00000178922	ENST00000372427	retained_intron	KNOWN	None	26948	None	None	43916831	43919580	-1	None	HT036
1	HYI	ENSG00000178922	ENST00000486909	protein_coding	PUTATIVE	None	26948	831	276	43916991	43919519	-1	None	HT036
1	HYI	ENSG00000178922	ENST00000496142	retained_intron	KNOWN	None	26948	None	None	43917338	43917890	-1	None	HT036
1	HYI	ENSG00000178922	ENST00000469587	retained_intron	KNOWN	None	26948	None	None	43918832	43919479	-1	None	HT036
1	HYI	ENSG00000178922	ENST00000372425	protein_coding	KNOWN	CCDS53309	26948	834	277	43916824	43919660	-1	None	HT036
1	HYI	ENSG00000178922	ENST00000583037	protein_coding	KNOWN	None	26948	615	204	43916824	43919660	-1	None	HT036
1	HYI	ENSG00000178922	ENST00000372426	protein_coding	KNOWN	None	26948	690	229	43916831	43919148	-1	None	HT036
5	RBBP4P1	ENSG00000249485	ENST00000502424	processed_pseudogene	KNOWN	None	42368	None	None	14797234	14798509	-1	None	None
11	GAB2	ENSG00000033327	ENST00000340149	protein_coding	KNOWN	CCDS8260	14458	1917	638	77926343	78052926	-1	None	KIAA0571
11	GAB2	ENSG00000033327	ENST00000361507	protein_coding	KNOWN	CCDS8259	14458	2031	676	77926343	78128852	-1	None	KIAA0571
11	GAB2	ENSG00000033327	ENST00000528329	processed_transcript	PUTATIVE	None	14458	None	None	77937666	77942978	-1	None	KIAA0571
11	GAB2	ENSG00000033327	ENST00000526030	processed_transcript	KNOWN	None	14458	None	None	77938003	78128868	-1	None	KIAA0571
11	GAB2	ENSG00000033327	ENST00000528886	protein_coding	KNOWN	None	14458	392	129	77961317	78129394	-1	None	KIAA0571
11	GAB2	ENSG00000033327	ENST00000530915	protein_coding	KNOWN	None	14458	306	101	77961403	78128825	-1	None	KIAA0571
11	GAB2	ENSG00000033327	ENST00000534823	retained_intron	KNOWN	None	14458	None	None	77991506	78128817	-1	None	KIAA0571
5	MIR4637	ENSG00000264792	ENST00000582405	miRNA	KNOWN	None	41651	None	None	14826038	14826121	-1	None	hsa-mir-4637
5	None	ENSG00000272057	ENST00000607026	lincRNA	KNOWN	None	None	None	None	14872441	14872822	1	None	None
5	UQCRBP3	ENSG00000249928	ENST00000509483	processed_pseudogene	KNOWN	None	39033	None	None	14874509	14874820	-1	None	None
5	HNRNPKP5	ENSG00000250662	ENST00000515300	processed_pseudogene	KNOWN	None	42378	None	None	14877776	14878028	-1	None	None
2	ATF2	ENSG00000115966	ENST00000264110	protein_coding	KNOWN	CCDS2262	784	1518	505	175936978	176032934	-1	CREB2	TREB7, CRE-BP1, HB16
2	ATF2	ENSG00000115966	ENST00000345739	protein_coding	NOVEL	CCDS58737	784	1344	447	175936978	176032934	-1	CREB2	TREB7, CRE-BP1, HB16
2	ATF2	ENSG00000115966	ENST00000409437	protein_coding	NOVEL	None	784	1170	389	175936993	176015810	-1	CREB2	TREB7, CRE-BP1, HB16
2	ATF2	ENSG00000115966	ENST00000409635	protein_coding	NOVEL	CCDS58737	784	1344	447	175939008	176032931	-1	CREB2	TREB7, CRE-BP1, HB16
2	ATF2	ENSG00000115966	ENST00000435004	protein_coding	NOVEL	None	784	797	264	175939120	175994933	-1	CREB2	TREB7, CRE-BP1, HB16
2	ATF2	ENSG00000115966	ENST00000428760	nonsense_mediated_decay	KNOWN	None	784	1188	395	175939202	176032897	-1	CREB2	TREB7, CRE-BP1, HB16
2	ATF2	ENSG00000115966	ENST00000392544	protein_coding	KNOWN	CCDS2262	784	1518	505	175939233	176032897	-1	CREB2	TREB7, CRE-BP1, HB16
2	ATF2	ENSG00000115966	ENST00000417080	nonsense_mediated_decay	KNOWN	None	784	1188	395	175939233	176032897	-1	CREB2	TREB7, CRE-BP1, HB16
2	ATF2	ENSG00000115966	ENST00000456655	nonsense_mediated_decay	KNOWN	None	784	132	43	175939233	176032897	-1	CREB2	TREB7, CRE-BP1, HB16
2	ATF2	ENSG00000115966	ENST00000421438	nonsense_mediated_decay	KNOWN	None	784	714	237	175939233	176032897	-1	CREB2	TREB7, CRE-BP1, HB16
2	ATF2	ENSG00000115966	ENST00000429579	nonsense_mediated_decay	KNOWN	None	784	1188	395	175939233	176032897	-1	CREB2	TREB7, CRE-BP1, HB16
2	ATF2	ENSG00000115966	ENST00000415955	nonsense_mediated_decay	KNOWN	None	784	132	43	175939233	176032897	-1	CREB2	TREB7, CRE-BP1, HB16
2	ATF2	ENSG00000115966	ENST00000409499	protein_coding	PUTATIVE	None	784	435	144	175939233	176032897	-1	CREB2	TREB7, CRE-BP1, HB16
2	ATF2	ENSG00000115966	ENST00000478905	retained_intron	KNOWN	None	784	None	None	175944991	175957982	-1	CREB2	TREB7, CRE-BP1, HB16
2	ATF2	ENSG00000115966	ENST00000435231	nonsense_mediated_decay	KNOWN	None	784	132	43	175976375	176032896	-1	CREB2	TREB7, CRE-BP1, HB16
2	ATF2	ENSG00000115966	ENST00000437522	protein_coding	NOVEL	None	784	567	188	175978722	176033110	-1	CREB2	TREB7, CRE-BP1, HB16
2	ATF2	ENSG00000115966	ENST00000409833	protein_coding	PUTATIVE	CCDS58739	784	630	209	175978971	176032897	-1	CREB2	TREB7, CRE-BP1, HB16
2	ATF2	ENSG00000115966	ENST00000413123	processed_transcript	KNOWN	None	784	None	None	175991521	176032872	-1	CREB2	TREB7, CRE-BP1, HB16
2	ATF2	ENSG00000115966	ENST00000445349	processed_transcript	KNOWN	None	784	None	None	175991721	176033110	-1	CREB2	TREB7, CRE-BP1, HB16
2	ATF2	ENSG00000115966	ENST00000426833	protein_coding	KNOWN	CCDS58738	784	1464	487	175939233	176032897	-1	CREB2	TREB7, CRE-BP1, HB16
2	ATF2	ENSG00000115966	ENST00000392543	protein_coding	KNOWN	None	784	381	126	175939233	176032897	-1	CREB2	TREB7, CRE-BP1, HB16
2	ATF2	ENSG00000115966	ENST00000538946	protein_coding	KNOWN	None	784	1134	377	175939233	176032897	-1	CREB2	TREB7, CRE-BP1, HB16
2	ATF2	ENSG00000115966	ENST00000487334	protein_coding	KNOWN	None	784	660	219	175939233	176032897	-1	CREB2	TREB7, CRE-BP1, HB16
5	None	ENSG00000212036	ENST00000390747	miRNA	NOVEL	None	None	None	None	14910667	14910749	-1	None	None
5	SEPHS1P5	ENSG00000250247	ENST00000511618	processed_pseudogene	KNOWN	None	42165	None	None	14960341	14961502	1	SEPHS1P5	None
16	STUB1	ENSG00000103266	ENST00000565677	protein_coding	KNOWN	None	11427	696	231	730224	732746	1	None	UBOX1, CHIP, SDCCAG7, HSPABP2, NY-CO-7
16	STUB1	ENSG00000103266	ENST00000219548	protein_coding	KNOWN	CCDS10419	11427	912	303	730276	732799	1	None	UBOX1, CHIP, SDCCAG7, HSPABP2, NY-CO-7
16	STUB1	ENSG00000103266	ENST00000569248	retained_intron	KNOWN	None	11427	None	None	730419	732717	1	None	UBOX1, CHIP, SDCCAG7, HSPABP2, NY-CO-7
16	STUB1	ENSG00000103266	ENST00000567173	protein_coding	NOVEL	None	11427	641	212	730424	732193	1	None	UBOX1, CHIP, SDCCAG7, HSPABP2, NY-CO-7
16	STUB1	ENSG00000103266	ENST00000563505	retained_intron	KNOWN	None	11427	None	None	730430	732066	1	None	UBOX1, CHIP, SDCCAG7, HSPABP2, NY-CO-7
16	STUB1	ENSG00000103266	ENST00000567790	retained_intron	KNOWN	None	11427	None	None	730439	731390	1	None	UBOX1, CHIP, SDCCAG7, HSPABP2, NY-CO-7
16	STUB1	ENSG00000103266	ENST00000564370	protein_coding	KNOWN	None	11427	696	231	731037	732496	1	None	UBOX1, CHIP, SDCCAG7, HSPABP2, NY-CO-7
16	STUB1	ENSG00000103266	ENST00000566181	processed_transcript	KNOWN	None	11427	None	None	731224	732213	1	None	UBOX1, CHIP, SDCCAG7, HSPABP2, NY-CO-7
16	STUB1	ENSG00000103266	ENST00000566408	protein_coding	PUTATIVE	None	11427	557	184	731276	732462	1	None	UBOX1, CHIP, SDCCAG7, HSPABP2, NY-CO-7
16	STUB1	ENSG00000103266	ENST00000564316	protein_coding	NOVEL	None	11427	472	156	731481	732746	1	None	UBOX1, CHIP, SDCCAG7, HSPABP2, NY-CO-7
15	STOML1	ENSG00000067221	ENST00000564777	protein_coding	NOVEL	CCDS58383	14560	1044	347	74275547	74284638	-1	None	hUNC-24, SLP-1, STORP, FLJ36370
15	STOML1	ENSG00000067221	ENST00000316900	protein_coding	KNOWN	CCDS10254	14560	1197	398	74275547	74284689	-1	None	hUNC-24, SLP-1, STORP, FLJ36370
15	STOML1	ENSG00000067221	ENST00000561480	retained_intron	KNOWN	None	14560	None	None	74275561	74278841	-1	None	hUNC-24, SLP-1, STORP, FLJ36370
15	STOML1	ENSG00000067221	ENST00000561656	protein_coding	PUTATIVE	CCDS58381	14560	933	310	74275578	74286963	-1	None	hUNC-24, SLP-1, STORP, FLJ36370
15	STOML1	ENSG00000067221	ENST00000359750	protein_coding	NOVEL	CCDS58385	14560	984	327	74276278	74284564	-1	None	hUNC-24, SLP-1, STORP, FLJ36370
15	STOML1	ENSG00000067221	ENST00000563229	retained_intron	KNOWN	None	14560	None	None	74278704	74286949	-1	None	hUNC-24, SLP-1, STORP, FLJ36370
15	STOML1	ENSG00000067221	ENST00000565240	protein_coding	PUTATIVE	None	14560	413	136	74280995	74284175	-1	None	hUNC-24, SLP-1, STORP, FLJ36370
15	STOML1	ENSG00000067221	ENST00000566081	protein_coding	PUTATIVE	None	14560	278	91	74280995	74284659	-1	None	hUNC-24, SLP-1, STORP, FLJ36370
15	STOML1	ENSG00000067221	ENST00000567052	retained_intron	KNOWN	None	14560	None	None	74281007	74284592	-1	None	hUNC-24, SLP-1, STORP, FLJ36370
15	STOML1	ENSG00000067221	ENST00000562453	protein_coding	PUTATIVE	None	14560	275	90	74281133	74284571	-1	None	hUNC-24, SLP-1, STORP, FLJ36370
15	STOML1	ENSG00000067221	ENST00000567876	retained_intron	KNOWN	None	14560	None	None	74282368	74284597	-1	None	hUNC-24, SLP-1, STORP, FLJ36370
15	STOML1	ENSG00000067221	ENST00000316911	protein_coding	KNOWN	CCDS58384	14560	1047	348	74275561	74284635	-1	None	hUNC-24, SLP-1, STORP, FLJ36370
15	STOML1	ENSG00000067221	ENST00000541638	protein_coding	KNOWN	CCDS58382	14560	1068	355	74276162	74284571	-1	None	hUNC-24, SLP-1, STORP, FLJ36370
5	MEGF10	ENSG00000145794	ENST00000503335	protein_coding	KNOWN	CCDS4142	29634	3423	1140	126626523	126796914	1	None	KIAA1780
5	MEGF10	ENSG00000145794	ENST00000508365	protein_coding	PUTATIVE	None	29634	1704	567	126626538	126760473	1	None	KIAA1780
5	MEGF10	ENSG00000145794	ENST00000418761	protein_coding	KNOWN	None	29634	1704	567	126626539	126760296	1	None	KIAA1780
5	MEGF10	ENSG00000145794	ENST00000274473	protein_coding	KNOWN	CCDS4142	29634	3423	1140	126626551	126796914	1	None	KIAA1780
5	MEGF10	ENSG00000145794	ENST00000515002	processed_transcript	PUTATIVE	None	29634	None	None	126745284	126753361	1	None	KIAA1780
5	MEGF10	ENSG00000145794	ENST00000506709	processed_transcript	KNOWN	None	29634	None	None	126758384	126776539	1	None	KIAA1780
5	MEGF10	ENSG00000145794	ENST00000510513	retained_intron	KNOWN	None	29634	None	None	126780105	126781236	1	None	KIAA1780
5	MEGF10	ENSG00000145794	ENST00000510828	processed_transcript	KNOWN	None	29634	None	None	126780944	126791254	1	None	KIAA1780
5	MEGF10	ENSG00000145794	ENST00000507158	retained_intron	KNOWN	None	29634	None	None	126781169	126784894	1	None	KIAA1780
5	MEGF10	ENSG00000145794	ENST00000515622	processed_transcript	KNOWN	None	29634	None	None	126783320	126801429	1	None	KIAA1780
X	ARSD	ENSG00000006756	ENST00000381154	protein_coding	KNOWN	CCDS35196	717	1782	593	2822011	2847392	-1	None	None
X	ARSD	ENSG00000006756	ENST00000458014	protein_coding	PUTATIVE	None	717	480	159	2822959	2827961	-1	None	None
X	ARSD	ENSG00000006756	ENST00000495294	processed_transcript	KNOWN	None	717	None	None	2824197	2847390	-1	None	None
X	ARSD	ENSG00000006756	ENST00000217890	processed_transcript	KNOWN	None	717	None	None	2831655	2847316	-1	None	None
X	ARSD	ENSG00000006756	ENST00000481340	processed_transcript	KNOWN	None	717	None	None	2832538	2835919	-1	None	None
X	ARSD	ENSG00000006756	ENST00000494870	retained_intron	KNOWN	None	717	None	None	2838422	2847320	-1	None	None
X	ARSD	ENSG00000006756	ENST00000559324	nonsense_mediated_decay	KNOWN	None	717	249	82	2838717	2847380	-1	None	None
17	ZPBP2	ENSG00000186075	ENST00000348931	protein_coding	KNOWN	CCDS11352	20678	1017	338	38024417	38033397	1	None	ZPBPL, MGC41930
17	ZPBP2	ENSG00000186075	ENST00000583811	protein_coding	NOVEL	None	20678	656	217	38024469	38033055	1	None	ZPBPL, MGC41930
17	ZPBP2	ENSG00000186075	ENST00000584588	protein_coding	KNOWN	None	20678	798	265	38024469	38033402	1	None	ZPBPL, MGC41930
17	ZPBP2	ENSG00000186075	ENST00000377940	protein_coding	KNOWN	CCDS11353	20678	951	316	38024469	38034149	1	None	ZPBPL, MGC41930
7	GNB2	ENSG00000172354	ENST00000303210	protein_coding	KNOWN	CCDS5703	4398	1023	340	100271154	100276797	1	None	None
7	GNB2	ENSG00000172354	ENST00000451587	protein_coding	KNOWN	None	4398	754	250	100271190	100276075	1	None	None
7	GNB2	ENSG00000172354	ENST00000436220	protein_coding	PUTATIVE	None	4398	891	296	100271368	100276771	1	None	None
7	GNB2	ENSG00000172354	ENST00000424361	protein_coding	PUTATIVE	None	4398	891	296	100271372	100276761	1	None	None
7	GNB2	ENSG00000172354	ENST00000419828	protein_coding	PUTATIVE	None	4398	723	240	100271446	100276788	1	None	None
7	GNB2	ENSG00000172354	ENST00000427895	protein_coding	PUTATIVE	None	4398	723	240	100271501	100276768	1	None	None
7	GNB2	ENSG00000172354	ENST00000393926	protein_coding	KNOWN	CCDS5703	4398	1023	340	100272909	100276797	1	None	None
7	GNB2	ENSG00000172354	ENST00000431068	protein_coding	KNOWN	None	4398	697	231	100273350	100275920	1	None	None
7	GNB2	ENSG00000172354	ENST00000412215	protein_coding	KNOWN	None	4398	456	151	100273744	100275400	1	None	None
7	GNB2	ENSG00000172354	ENST00000393924	protein_coding	KNOWN	CCDS5703	4398	1023	340	100273761	100276797	1	None	None
7	GNB2	ENSG00000172354	ENST00000480159	retained_intron	KNOWN	None	4398	None	None	100273846	100275157	1	None	None
7	GNB2	ENSG00000172354	ENST00000469287	retained_intron	KNOWN	None	4398	None	None	100274459	100276790	1	None	None
7	GNB2	ENSG00000172354	ENST00000470354	retained_intron	KNOWN	None	4398	None	None	100274993	100276433	1	None	None
17	ENDOV	ENSG00000173818	ENST00000520537	retained_intron	KNOWN	None	26640	None	None	78388965	78390053	1	None	FLJ35220
17	ENDOV	ENSG00000173818	ENST00000520484	nonsense_mediated_decay	KNOWN	None	26640	372	123	78388965	78403618	1	None	FLJ35220
17	ENDOV	ENSG00000173818	ENST00000522577	nonsense_mediated_decay	KNOWN	None	26640	417	138	78388967	78403642	1	None	FLJ35220
17	ENDOV	ENSG00000173818	ENST00000518137	protein_coding	KNOWN	CCDS54172	26640	849	282	78388967	78411881	1	None	FLJ35220
17	ENDOV	ENSG00000173818	ENST00000520367	protein_coding	KNOWN	CCDS54173	26640	714	237	78388967	78411881	1	None	FLJ35220
17	ENDOV	ENSG00000173818	ENST00000523999	protein_coding	PUTATIVE	None	26640	318	105	78388978	78394333	1	None	FLJ35220
17	ENDOV	ENSG00000173818	ENST00000519117	nonsense_mediated_decay	KNOWN	None	26640	294	97	78388978	78399375	1	None	FLJ35220
17	ENDOV	ENSG00000173818	ENST00000323854	protein_coding	KNOWN	CCDS54174	26640	795	264	78388984	78404143	1	None	FLJ35220
17	ENDOV	ENSG00000173818	ENST00000521330	processed_transcript	KNOWN	None	26640	None	None	78388986	78402281	1	None	FLJ35220
17	ENDOV	ENSG00000173818	ENST00000522751	protein_coding	PUTATIVE	None	26640	348	115	78389115	78404124	1	None	FLJ35220
17	ENDOV	ENSG00000173818	ENST00000520136	protein_coding	PUTATIVE	None	26640	10	2	78389252	78399298	1	None	FLJ35220
17	ENDOV	ENSG00000173818	ENST00000520284	protein_coding	PUTATIVE	None	26640	198	65	78389252	78411882	1	None	FLJ35220
17	ENDOV	ENSG00000173818	ENST00000517795	protein_coding	PUTATIVE	None	26640	267	88	78389252	78411886	1	None	FLJ35220
17	ENDOV	ENSG00000173818	ENST00000523228	protein_coding	PUTATIVE	None	26640	151	49	78389253	78396042	1	None	FLJ35220
17	ENDOV	ENSG00000173818	ENST00000523828	protein_coding	PUTATIVE	None	26640	25	7	78389253	78399313	1	None	FLJ35220
17	ENDOV	ENSG00000173818	ENST00000522200	protein_coding	PUTATIVE	None	26640	465	154	78389253	78399420	1	None	FLJ35220
17	ENDOV	ENSG00000173818	ENST00000520118	retained_intron	KNOWN	None	26640	None	None	78389255	78397616	1	None	FLJ35220
17	ENDOV	ENSG00000173818	ENST00000521565	protein_coding	PUTATIVE	None	26640	293	96	78389258	78398857	1	None	FLJ35220
17	ENDOV	ENSG00000173818	ENST00000518907	protein_coding	PUTATIVE	None	26640	198	65	78389258	78411886	1	None	FLJ35220
17	ENDOV	ENSG00000173818	ENST00000521847	processed_transcript	KNOWN	None	26640	None	None	78389269	78392637	1	None	FLJ35220
17	ENDOV	ENSG00000173818	ENST00000521830	processed_transcript	PUTATIVE	None	26640	None	None	78389269	78397411	1	None	FLJ35220
17	ENDOV	ENSG00000173818	ENST00000518644	protein_coding	PUTATIVE	None	26640	318	105	78389269	78398148	1	None	FLJ35220
17	ENDOV	ENSG00000173818	ENST00000518901	protein_coding	PUTATIVE	None	26640	267	88	78389287	78411882	1	None	FLJ35220
17	ENDOV	ENSG00000173818	ENST00000523165	processed_transcript	PUTATIVE	None	26640	None	None	78389453	78390945	1	None	FLJ35220
17	ENDOV	ENSG00000173818	ENST00000517295	protein_coding	PUTATIVE	None	26640	711	236	78389469	78403952	1	None	FLJ35220
17	ENDOV	ENSG00000173818	ENST00000520910	processed_transcript	PUTATIVE	None	26640	None	None	78391217	78392406	1	None	FLJ35220
17	ENDOV	ENSG00000173818	ENST00000520565	retained_intron	KNOWN	None	26640	None	None	78391421	78397387	1	None	FLJ35220
17	ENDOV	ENSG00000173818	ENST00000521634	protein_coding	PUTATIVE	None	26640	395	130	78397320	78404141	1	None	FLJ35220
17	ENDOV	ENSG00000173818	ENST00000572886	protein_coding	PUTATIVE	None	26640	329	108	78397365	78398084	1	None	FLJ35220
17	ENDOV	ENSG00000173818	ENST00000519331	protein_coding	PUTATIVE	None	26640	513	170	78399304	78404143	1	None	FLJ35220
14	SLC25A21-AS1	ENSG00000258708	ENST00000556667	protein_coding	PUTATIVE	None	44298	276	91	37641093	37643016	1	None	None
12	STYK1	ENSG00000060140	ENST00000075503	protein_coding	KNOWN	CCDS8629	18889	1269	422	10771538	10826891	-1	None	SuRTK106, DKFZp761P1010, NOK
12	STYK1	ENSG00000060140	ENST00000542924	protein_coding	NOVEL	None	18889	249	82	10780239	10782237	-1	None	SuRTK106, DKFZp761P1010, NOK
12	STYK1	ENSG00000060140	ENST00000542562	protein_coding	KNOWN	None	18889	262	86	10783833	10826649	-1	None	SuRTK106, DKFZp761P1010, NOK
12	STYK1	ENSG00000060140	ENST00000538867	protein_coding	KNOWN	None	18889	249	82	10783846	10826257	-1	None	SuRTK106, DKFZp761P1010, NOK
12	STYK1	ENSG00000060140	ENST00000535345	protein_coding	KNOWN	None	18889	196	64	10786580	10826629	-1	None	SuRTK106, DKFZp761P1010, NOK
12	STYK1	ENSG00000060140	ENST00000541561	protein_coding	KNOWN	None	18889	122	39	10786654	10826917	-1	None	SuRTK106, DKFZp761P1010, NOK
6	None	ENSG00000271530	ENST00000604449	processed_pseudogene	KNOWN	None	None	None	None	95124	95454	1	None	None
4	None	ENSG00000265035	ENST00000582495	miRNA	NOVEL	None	None	None	None	33538366	33538464	1	None	None
6	OR4F1P	ENSG00000220212	ENST00000405102	unprocessed_pseudogene	KNOWN	None	8298	None	None	105919	106856	-1	OR4F1	HSDJ0609N19
4	None	ENSG00000250954	ENST00000512581	lincRNA	KNOWN	None	None	None	None	33777969	34041504	-1	None	None
4	None	ENSG00000250954	ENST00000505018	lincRNA	KNOWN	None	None	None	None	33897961	34041515	-1	None	None
1	CR2	ENSG00000117322	ENST00000367058	protein_coding	KNOWN	CCDS1478	2336	3102	1033	207627575	207663240	1	None	CD21
1	CR2	ENSG00000117322	ENST00000367057	protein_coding	KNOWN	CCDS31007	2336	3279	1092	207627575	207663240	1	None	CD21
1	CR2	ENSG00000117322	ENST00000367059	protein_coding	KNOWN	None	2336	2916	971	207627575	207663240	1	None	CD21
1	CR2	ENSG00000117322	ENST00000479186	processed_transcript	PUTATIVE	None	2336	None	None	207627996	207640101	1	None	CD21
1	CR2	ENSG00000117322	ENST00000485707	processed_transcript	KNOWN	None	2336	None	None	207641651	207643278	1	None	CD21
1	CR2	ENSG00000117322	ENST00000475194	processed_transcript	KNOWN	None	2336	None	None	207644360	207645317	1	None	CD21
1	CR2	ENSG00000117322	ENST00000458541	protein_coding	KNOWN	None	2336	3021	1006	207627710	207663234	1	None	CD21
3	C3orf36	ENSG00000221972	ENST00000408895	protein_coding	KNOWN	CCDS3083	26170	498	165	133646992	133648656	-1	None	FLJ22173
4	RNU7-131P	ENSG00000251755	ENST00000515946	snRNA	KNOWN	None	45665	None	None	33786557	33786615	1	None	None
6	LINC00266-3	ENSG00000170590	ENST00000436899	lincRNA	KNOWN	None	21112	None	None	131910	144885	-1	C6orf88, NCRNA00266C, NCRNA00266-3	dJ24O22.2
4	None	ENSG00000250723	ENST00000504795	lincRNA	KNOWN	None	None	None	None	33852213	33893771	1	None	None
4	None	ENSG00000250723	ENST00000505326	lincRNA	KNOWN	None	None	None	None	33883237	33981558	1	None	None
4	None	ENSG00000250723	ENST00000506650	lincRNA	KNOWN	None	None	None	None	33883320	33981429	1	None	None
4	None	ENSG00000250723	ENST00000515733	lincRNA	KNOWN	None	None	None	None	33890590	33976135	1	None	None
1	C1orf54	ENSG00000118292	ENST00000369102	protein_coding	KNOWN	CCDS948	26258	396	131	150240600	150253327	1	None	FLJ23221
1	C1orf54	ENSG00000118292	ENST00000369099	protein_coding	KNOWN	CCDS948	26258	396	131	150245102	150253327	1	None	FLJ23221
1	C1orf54	ENSG00000118292	ENST00000369098	protein_coding	KNOWN	None	26258	366	121	150245183	150253325	1	None	FLJ23221
7	None	ENSG00000241057	ENST00000418645	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	44001189	44012924	-1	None	None
7	None	ENSG00000239556	ENST00000420754	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	44024597	44029806	-1	None	None
7	None	ENSG00000228434	ENST00000447643	processed_transcript	KNOWN	None	None	None	None	44043645	44047465	-1	None	None
16	PYCARD	ENSG00000103490	ENST00000247470	protein_coding	KNOWN	CCDS10708	16608	588	195	31212806	31214313	-1	None	TMS-1, CARD5, ASC
16	PYCARD	ENSG00000103490	ENST00000565022	retained_intron	KNOWN	None	16608	None	None	31212807	31213761	-1	None	TMS-1, CARD5, ASC
16	PYCARD	ENSG00000103490	ENST00000350605	protein_coding	KNOWN	CCDS10709	16608	531	176	31212807	31214077	-1	None	TMS-1, CARD5, ASC
16	PYCARD	ENSG00000103490	ENST00000561508	protein_coding	NOVEL	None	16608	377	124	31213515	31214771	-1	None	TMS-1, CARD5, ASC
20	PMEPA1	ENSG00000124225	ENST00000341744	protein_coding	KNOWN	CCDS13463	14107	864	287	56223448	56284958	-1	TMEPAI	STAG1
20	PMEPA1	ENSG00000124225	ENST00000395816	protein_coding	KNOWN	CCDS13464	14107	714	237	56223448	56285625	-1	TMEPAI	STAG1
20	PMEPA1	ENSG00000124225	ENST00000347215	protein_coding	KNOWN	CCDS13462	14107	759	252	56223448	56285645	-1	TMEPAI	STAG1
20	PMEPA1	ENSG00000124225	ENST00000395814	protein_coding	KNOWN	CCDS13464	14107	714	237	56227093	56266886	-1	TMEPAI	STAG1
20	PMEPA1	ENSG00000124225	ENST00000414037	protein_coding	PUTATIVE	None	14107	625	207	56227264	56265680	-1	TMEPAI	STAG1
20	PMEPA1	ENSG00000124225	ENST00000395819	protein_coding	PUTATIVE	None	14107	681	226	56227463	56284816	-1	TMEPAI	STAG1
20	PMEPA1	ENSG00000124225	ENST00000472841	processed_transcript	KNOWN	None	14107	None	None	56234606	56286592	-1	TMEPAI	STAG1
20	PMEPA1	ENSG00000124225	ENST00000265626	protein_coding	KNOWN	CCDS13464	14107	714	237	56223454	56286541	-1	TMEPAI	STAG1
6	ROS1	ENSG00000047936	ENST00000368508	protein_coding	KNOWN	CCDS5116	10261	7044	2347	117609463	117747018	-1	None	MCF3, ROS, c-ros-1
6	ROS1	ENSG00000047936	ENST00000368507	protein_coding	KNOWN	None	10261	7026	2341	117609463	117747018	-1	None	MCF3, ROS, c-ros-1
6	ROS1	ENSG00000047936	ENST00000403284	protein_coding	KNOWN	None	10261	294	97	117649583	117658503	-1	None	MCF3, ROS, c-ros-1
7	RASA4CP	ENSG00000228903	ENST00000446874	processed_transcript	KNOWN	None	44185	None	None	44066550	44078607	-1	None	None
7	RASA4CP	ENSG00000228903	ENST00000425524	processed_transcript	KNOWN	None	44185	None	None	44068826	44078601	-1	None	None
7	RASA4CP	ENSG00000228903	ENST00000424092	transcribed_unprocessed_pseudogene	KNOWN	None	44185	None	None	44068936	44081491	-1	None	None
7	RASA4CP	ENSG00000228903	ENST00000545716	unprocessed_pseudogene	KNOWN	None	44185	None	None	44068567	44078572	-1	None	None
7	LINC00957	ENSG00000235314	ENST00000416824	processed_transcript	KNOWN	None	22332	None	None	44078770	44080702	1	None	None
7	LINC00957	ENSG00000235314	ENST00000441052	processed_transcript	KNOWN	None	22332	None	None	44079122	44081905	1	None	None
7	None	ENSG00000239775	ENST00000445938	processed_transcript	KNOWN	None	None	None	None	44104507	44105678	1	None	None
7	None	ENSG00000239775	ENST00000425727	processed_transcript	PUTATIVE	None	None	None	None	44104604	44105678	1	None	None
3	SLCO2A1	ENSG00000174640	ENST00000310926	protein_coding	KNOWN	CCDS3084	10955	1932	643	133651540	133748920	-1	SLC21A2, MATR1	PGT, OATP2A1
3	SLCO2A1	ENSG00000174640	ENST00000493729	protein_coding	NOVEL	None	10955	1704	567	133653455	133748758	-1	SLC21A2, MATR1	PGT, OATP2A1
3	SLCO2A1	ENSG00000174640	ENST00000481359	nonsense_mediated_decay	KNOWN	None	10955	1248	415	133653483	133748767	-1	SLC21A2, MATR1	PGT, OATP2A1
3	SLCO2A1	ENSG00000174640	ENST00000462770	retained_intron	KNOWN	None	10955	None	None	133661156	133748769	-1	SLC21A2, MATR1	PGT, OATP2A1
3	SLCO2A1	ENSG00000174640	ENST00000477061	retained_intron	KNOWN	None	10955	None	None	133667498	133668060	-1	SLC21A2, MATR1	PGT, OATP2A1
3	SLCO2A1	ENSG00000174640	ENST00000464676	retained_intron	KNOWN	None	10955	None	None	133669796	133748769	-1	SLC21A2, MATR1	PGT, OATP2A1
3	SLCO2A1	ENSG00000174640	ENST00000478651	processed_transcript	KNOWN	None	10955	None	None	133674187	133748769	-1	SLC21A2, MATR1	PGT, OATP2A1
3	SLCO2A1	ENSG00000174640	ENST00000478662	processed_transcript	PUTATIVE	None	10955	None	None	133698391	133771028	-1	SLC21A2, MATR1	PGT, OATP2A1
2	ATP5G3	ENSG00000154518	ENST00000284727	protein_coding	KNOWN	CCDS2263	843	429	142	176040986	176049335	-1	None	None
2	ATP5G3	ENSG00000154518	ENST00000409194	protein_coding	KNOWN	CCDS2263	843	429	142	176042795	176046438	-1	None	None
2	ATP5G3	ENSG00000154518	ENST00000392541	protein_coding	KNOWN	CCDS2263	843	429	142	176042873	176046391	-1	None	None
2	ATP5G3	ENSG00000154518	ENST00000497075	retained_intron	KNOWN	None	843	None	None	176042914	176046438	-1	None	None
2	ATP5G3	ENSG00000154518	ENST00000472782	retained_intron	KNOWN	None	843	None	None	176044373	176046423	-1	None	None
4	AADAT	ENSG00000109576	ENST00000337664	protein_coding	KNOWN	CCDS3814	17929	1278	425	170981373	171011118	-1	None	KATII, KAT2
4	AADAT	ENSG00000109576	ENST00000509167	protein_coding	KNOWN	None	17929	1290	429	170981373	171011365	-1	None	KATII, KAT2
4	AADAT	ENSG00000109576	ENST00000515480	protein_coding	KNOWN	CCDS3814	17929	1278	425	170981373	171011538	-1	None	KATII, KAT2
4	AADAT	ENSG00000109576	ENST00000353187	protein_coding	KNOWN	CCDS3814	17929	1278	425	170981380	171011372	-1	None	KATII, KAT2
4	AADAT	ENSG00000109576	ENST00000505906	retained_intron	KNOWN	None	17929	None	None	170991628	171009581	-1	None	KATII, KAT2
4	AADAT	ENSG00000109576	ENST00000510340	protein_coding	PUTATIVE	None	17929	661	219	170991770	171010545	-1	None	KATII, KAT2
4	AADAT	ENSG00000109576	ENST00000507375	protein_coding	KNOWN	None	17929	629	208	170994312	171011447	-1	None	KATII, KAT2
4	AADAT	ENSG00000109576	ENST00000502392	protein_coding	KNOWN	None	17929	540	179	170994401	171012850	-1	None	KATII, KAT2
8	None	ENSG00000253896	ENST00000522481	protein_coding	PUTATIVE	None	None	189	62	22601	29775	1	None	None
8	None	ENSG00000253896	ENST00000518652	protein_coding	PUTATIVE	None	None	189	62	22617	29244	1	None	None
3	CAMK1	ENSG00000134072	ENST00000256460	protein_coding	KNOWN	CCDS2582	1459	1113	370	9799026	9811661	-1	None	CaMKI
3	CAMK1	ENSG00000134072	ENST00000496534	retained_intron	KNOWN	None	1459	None	None	9799031	9802254	-1	None	CaMKI
3	CAMK1	ENSG00000134072	ENST00000421120	protein_coding	PUTATIVE	None	1459	781	259	9799032	9803409	-1	None	CaMKI
3	CAMK1	ENSG00000134072	ENST00000482803	retained_intron	KNOWN	None	1459	None	None	9799038	9799731	-1	None	CaMKI
3	CAMK1	ENSG00000134072	ENST00000397277	nonsense_mediated_decay	KNOWN	None	1459	120	39	9799076	9811645	-1	None	CaMKI
3	CAMK1	ENSG00000134072	ENST00000411972	protein_coding	PUTATIVE	None	1459	367	121	9803372	9811676	-1	None	CaMKI
11	PATE1	ENSG00000171053	ENST00000305738	protein_coding	KNOWN	CCDS8464	24664	381	126	125616188	125619762	1	None	PATE
11	PATE1	ENSG00000171053	ENST00000525969	retained_intron	KNOWN	None	24664	None	None	125616189	125617941	1	None	PATE
11	PATE1	ENSG00000171053	ENST00000437148	protein_coding	KNOWN	None	24664	345	114	125616192	125618732	1	None	PATE
8	OR4F21	ENSG00000176269	ENST00000320901	protein_coding	KNOWN	CCDS34792	19583	939	312	116049	117043	-1	OR4F21P	None
9	PSAT1	ENSG00000135069	ENST00000347159	protein_coding	KNOWN	CCDS6659	19129	975	324	80912059	80944370	1	None	PSA
9	PSAT1	ENSG00000135069	ENST00000376588	protein_coding	KNOWN	CCDS6660	19129	1113	370	80912059	80945009	1	None	PSA
8	None	ENSG00000250210	ENST00000523795	protein_coding	KNOWN	None	None	258	85	142091	150563	-1	None	None
19	HSH2D	ENSG00000196684	ENST00000593154	protein_coding	PUTATIVE	None	24920	903	300	16244838	16269381	1	None	ALX, HSH2, FLJ14886
19	HSH2D	ENSG00000196684	ENST00000586872	nonsense_mediated_decay	KNOWN	None	24920	219	72	16254495	16265673	1	None	ALX, HSH2, FLJ14886
19	HSH2D	ENSG00000196684	ENST00000588246	protein_coding	PUTATIVE	None	24920	903	300	16254495	16269386	1	None	ALX, HSH2, FLJ14886
19	HSH2D	ENSG00000196684	ENST00000589463	nonsense_mediated_decay	KNOWN	None	24920	210	69	16254501	16269375	1	None	ALX, HSH2, FLJ14886
19	HSH2D	ENSG00000196684	ENST00000535834	nonsense_mediated_decay	KNOWN	None	24920	489	162	16254505	16266471	1	None	ALX, HSH2, FLJ14886
19	HSH2D	ENSG00000196684	ENST00000587963	nonsense_mediated_decay	KNOWN	None	24920	258	85	16254525	16268959	1	None	ALX, HSH2, FLJ14886
19	HSH2D	ENSG00000196684	ENST00000593031	protein_coding	PUTATIVE	None	24920	519	172	16254546	16268139	1	None	ALX, HSH2, FLJ14886
19	HSH2D	ENSG00000196684	ENST00000591154	nonsense_mediated_decay	KNOWN	None	24920	122	39	16263362	16268058	1	None	ALX, HSH2, FLJ14886
19	HSH2D	ENSG00000196684	ENST00000397372	protein_coding	KNOWN	None	24920	789	262	16244838	16269344	1	None	ALX, HSH2, FLJ14886
19	HSH2D	ENSG00000196684	ENST00000253680	protein_coding	KNOWN	None	24920	1059	352	16244838	16269344	1	None	ALX, HSH2, FLJ14886
7	MIR4649	ENSG00000264652	ENST00000582839	miRNA	KNOWN	None	41852	None	None	44150448	44150511	1	None	hsa-mir-4649
7	RNA5SP230	ENSG00000252848	ENST00000517039	rRNA	KNOWN	None	43130	None	None	44165351	44165472	-1	RN5S230	None
10	DCLRE1A	ENSG00000198924	ENST00000361384	protein_coding	KNOWN	CCDS7584	17660	3123	1040	115594488	115613859	-1	None	SNM1, PSO2, KIAA0086, hSNM1
10	DCLRE1A	ENSG00000198924	ENST00000369305	protein_coding	KNOWN	CCDS7584	17660	3123	1040	115594488	115614142	-1	None	SNM1, PSO2, KIAA0086, hSNM1
10	DCLRE1A	ENSG00000198924	ENST00000476112	processed_transcript	KNOWN	None	17660	None	None	115613002	115614099	-1	None	SNM1, PSO2, KIAA0086, hSNM1
7	None	ENSG00000146677	ENST00000487895	processed_pseudogene	KNOWN	None	None	None	None	44507496	44507903	1	None	None
7	None	ENSG00000146677	ENST00000392422	processed_pseudogene	KNOWN	None	None	None	None	44507441	44507939	1	None	None
14	C14orf93	ENSG00000100802	ENST00000299088	protein_coding	KNOWN	CCDS9583	20162	1617	538	23456110	23479360	-1	None	FLJ12154
14	C14orf93	ENSG00000100802	ENST00000341470	protein_coding	PUTATIVE	None	20162	1497	498	23456111	23479341	-1	None	FLJ12154
14	C14orf93	ENSG00000100802	ENST00000397379	protein_coding	KNOWN	CCDS9583	20162	1617	538	23456332	23479337	-1	None	FLJ12154
14	C14orf93	ENSG00000100802	ENST00000397382	protein_coding	KNOWN	CCDS9583	20162	1617	538	23456338	23479375	-1	None	FLJ12154
14	C14orf93	ENSG00000100802	ENST00000397377	protein_coding	PUTATIVE	None	20162	1077	358	23456354	23479331	-1	None	FLJ12154
14	C14orf93	ENSG00000100802	ENST00000397376	protein_coding	PUTATIVE	None	20162	378	125	23465157	23479352	-1	None	FLJ12154
14	C14orf93	ENSG00000100802	ENST00000397380	protein_coding	KNOWN	None	20162	626	207	23465449	23471978	-1	None	FLJ12154
14	C14orf93	ENSG00000100802	ENST00000553675	protein_coding	KNOWN	None	20162	597	198	23467636	23479352	-1	None	FLJ12154
14	C14orf93	ENSG00000100802	ENST00000553931	protein_coding	KNOWN	None	20162	409	135	23467824	23479352	-1	None	FLJ12154
14	C14orf93	ENSG00000100802	ENST00000554536	processed_transcript	KNOWN	None	20162	None	None	23467830	23479342	-1	None	FLJ12154
14	C14orf93	ENSG00000100802	ENST00000555575	protein_coding	KNOWN	None	20162	319	105	23467914	23479352	-1	None	FLJ12154
14	C14orf93	ENSG00000100802	ENST00000556812	processed_transcript	KNOWN	None	20162	None	None	23467930	23479305	-1	None	FLJ12154
14	C14orf93	ENSG00000100802	ENST00000553958	protein_coding	KNOWN	None	20162	251	82	23467982	23479352	-1	None	FLJ12154
14	C14orf93	ENSG00000100802	ENST00000555098	protein_coding	KNOWN	None	20162	236	77	23467997	23479352	-1	None	FLJ12154
14	C14orf93	ENSG00000100802	ENST00000555998	protein_coding	KNOWN	None	20162	149	48	23468084	23479342	-1	None	FLJ12154
14	C14orf93	ENSG00000100802	ENST00000556419	protein_coding	KNOWN	None	20162	33	10	23468200	23479352	-1	None	FLJ12154
14	C14orf93	ENSG00000100802	ENST00000553606	protein_coding	KNOWN	None	20162	28	8	23468205	23479352	-1	None	FLJ12154
14	C14orf93	ENSG00000100802	ENST00000554179	protein_coding	KNOWN	None	20162	28	8	23468205	23479360	-1	None	FLJ12154
14	C14orf93	ENSG00000100802	ENST00000557513	processed_transcript	KNOWN	None	20162	None	None	23468254	23479352	-1	None	FLJ12154
14	C14orf93	ENSG00000100802	ENST00000553316	processed_transcript	PUTATIVE	None	20162	None	None	23468312	23479352	-1	None	FLJ12154
14	C14orf93	ENSG00000100802	ENST00000556896	processed_transcript	PUTATIVE	None	20162	None	None	23468330	23476332	-1	None	FLJ12154
14	C14orf93	ENSG00000100802	ENST00000406429	protein_coding	KNOWN	None	20162	1497	498	23456424	23479337	-1	None	FLJ12154
7	RNU6-1097P	ENSG00000200456	ENST00000363586	snRNA	KNOWN	None	48060	None	None	44543372	44543478	-1	None	None
7	None	ENSG00000225443	ENST00000438468	processed_pseudogene	KNOWN	None	None	None	None	44550624	44550931	-1	None	None
6	CICP18	ENSG00000217929	ENST00000406017	processed_pseudogene	KNOWN	None	48828	None	None	142272	145083	-1	None	None
7	None	ENSG00000271586	ENST00000603255	processed_pseudogene	KNOWN	None	None	None	None	44640631	44641086	1	None	None
7	None	ENSG00000228596	ENST00000425077	antisense	KNOWN	None	None	None	None	44824649	44826939	-1	None	None
14	MIPOL1	ENSG00000151338	ENST00000556615	protein_coding	KNOWN	None	21460	312	103	37667118	37737923	1	None	None
14	MIPOL1	ENSG00000151338	ENST00000327441	protein_coding	KNOWN	CCDS9664	21460	1329	442	37667155	38021566	1	None	None
14	MIPOL1	ENSG00000151338	ENST00000554930	processed_transcript	KNOWN	None	21460	None	None	37667215	37854984	1	None	None
14	MIPOL1	ENSG00000151338	ENST00000539062	protein_coding	PUTATIVE	None	21460	1236	411	37667215	38016868	1	None	None
14	MIPOL1	ENSG00000151338	ENST00000556451	protein_coding	PUTATIVE	None	21460	1275	424	37667233	38015264	1	None	None
14	MIPOL1	ENSG00000151338	ENST00000555870	nonsense_mediated_decay	KNOWN	None	21460	543	180	37667242	37976995	1	None	None
14	MIPOL1	ENSG00000151338	ENST00000556753	protein_coding	KNOWN	None	21460	385	127	37667292	37737996	1	None	None
14	MIPOL1	ENSG00000151338	ENST00000554114	processed_transcript	KNOWN	None	21460	None	None	37709629	37736374	1	None	None
14	MIPOL1	ENSG00000151338	ENST00000539174	processed_transcript	KNOWN	None	21460	None	None	37736272	37748077	1	None	None
14	MIPOL1	ENSG00000151338	ENST00000553349	processed_transcript	KNOWN	None	21460	None	None	37754578	37893015	1	None	None
14	MIPOL1	ENSG00000151338	ENST00000556940	retained_intron	KNOWN	None	21460	None	None	37777663	37839144	1	None	None
14	MIPOL1	ENSG00000151338	ENST00000396294	protein_coding	KNOWN	CCDS9664	21460	1329	442	37667293	38016337	1	None	None
14	MIPOL1	ENSG00000151338	ENST00000537471	protein_coding	KNOWN	CCDS9664	21460	1329	442	37688757	38016692	1	None	None
14	MIPOL1	ENSG00000151338	ENST00000545536	protein_coding	KNOWN	None	21460	1275	424	37688757	38015258	1	None	None
14	MIPOL1	ENSG00000151338	ENST00000536774	protein_coding	KNOWN	None	21460	786	261	37667155	38016859	1	None	None
6	None	ENSG00000218577	ENST00000407941	unprocessed_pseudogene	KNOWN	None	None	None	None	167607	170631	-1	None	None
2	None	ENSG00000232056	ENST00000418835	protein_coding	PUTATIVE	None	None	282	93	10987703	10995081	1	None	None
7	None	ENSG00000234183	ENST00000443162	antisense	KNOWN	None	None	None	None	44888015	44889167	1	None	None
7	None	ENSG00000234183	ENST00000450016	antisense	KNOWN	None	None	None	None	44888658	44889164	1	None	None
1	C1orf51	ENSG00000159208	ENST00000447007	protein_coding	NOVEL	None	25200	677	224	150254953	150259149	1	None	BC017397
1	C1orf51	ENSG00000159208	ENST00000369095	protein_coding	KNOWN	CCDS949	25200	1158	385	150254953	150259505	1	None	BC017397
1	C1orf51	ENSG00000159208	ENST00000369094	protein_coding	NOVEL	None	25200	894	297	150254953	150259505	1	None	BC017397
1	C1orf51	ENSG00000159208	ENST00000417398	protein_coding	NOVEL	None	25200	716	237	150255182	150259188	1	None	BC017397
1	C1orf51	ENSG00000159208	ENST00000290363	protein_coding	KNOWN	CCDS949	25200	1158	385	150255229	150259505	1	None	BC017397
1	C1orf51	ENSG00000159208	ENST00000469255	processed_transcript	KNOWN	None	25200	None	None	150255259	150257945	1	None	BC017397
1	C1orf51	ENSG00000159208	ENST00000497211	processed_transcript	KNOWN	None	25200	None	None	150255944	150259045	1	None	BC017397
2	KCNF1	ENSG00000162975	ENST00000295082	protein_coding	KNOWN	CCDS1676	6246	1485	494	11052063	11054350	1	KCNF	Kv5.1, kH1, IK8
4	None	ENSG00000239983	ENST00000482574	processed_pseudogene	KNOWN	None	None	None	None	33969796	33970148	1	None	None
7	MIR4657	ENSG00000264326	ENST00000578157	miRNA	KNOWN	None	41706	None	None	44921347	44921399	-1	None	hsa-mir-4657
4	None	ENSG00000248685	ENST00000513843	lincRNA	KNOWN	None	None	None	None	34122516	34260749	-1	None	None
4	None	ENSG00000248685	ENST00000514877	lincRNA	KNOWN	None	None	None	None	34125128	34271369	-1	None	None
6	HCG27	ENSG00000206344	ENST00000383331	protein_coding	PUTATIVE	None	27366	569	188	31165537	31171745	1	None	bPG299F13.9, bCX101P6.9, bQB115I13.2, FLJ40123
6	HCG27	ENSG00000206344	ENST00000424675	protein_coding	PUTATIVE	None	27366	490	162	31165915	31170999	1	None	bPG299F13.9, bCX101P6.9, bQB115I13.2, FLJ40123
6	HCG27	ENSG00000206344	ENST00000414008	processed_transcript	KNOWN	None	27366	None	None	31165917	31168261	1	None	bPG299F13.9, bCX101P6.9, bQB115I13.2, FLJ40123
6	HCG27	ENSG00000206344	ENST00000415276	processed_transcript	KNOWN	None	27366	None	None	31169790	31170778	1	None	bPG299F13.9, bCX101P6.9, bQB115I13.2, FLJ40123
5	None	ENSG00000202269	ENST00000365399	snoRNA	NOVEL	None	None	None	None	15110895	15111029	-1	None	None
5	None	ENSG00000249332	ENST00000502680	lincRNA	KNOWN	None	None	None	None	15112486	15117116	-1	None	None
14	DEGS2	ENSG00000168350	ENST00000305631	protein_coding	KNOWN	CCDS9956	20113	972	323	100612756	100626500	-1	C14orf66	DES2, FADS8
14	DEGS2	ENSG00000168350	ENST00000553834	protein_coding	PUTATIVE	None	20113	165	54	100612914	100625932	-1	C14orf66	DES2, FADS8
14	DEGS2	ENSG00000168350	ENST00000557117	processed_transcript	PUTATIVE	None	20113	None	None	100615322	100622054	-1	C14orf66	DES2, FADS8
4	None	ENSG00000263814	ENST00000582673	miRNA	NOVEL	None	None	None	None	34388376	34388459	-1	None	None
9	FAM69B	ENSG00000165716	ENST00000371692	protein_coding	KNOWN	CCDS7004	28290	1296	431	139607022	139618502	1	None	MGC20262, C9orf136
9	FAM69B	ENSG00000165716	ENST00000371691	protein_coding	KNOWN	None	28290	1035	344	139615337	139618502	1	None	MGC20262, C9orf136
5	None	ENSG00000248486	ENST00000511443	lincRNA	KNOWN	None	None	None	None	15192248	15266650	-1	None	None
4	None	ENSG00000250597	ENST00000514737	lincRNA	KNOWN	None	None	None	None	34659228	34670362	1	None	None
4	None	ENSG00000250597	ENST00000513564	lincRNA	KNOWN	None	None	None	None	34659228	34671018	1	None	None
4	None	ENSG00000250597	ENST00000505967	lincRNA	KNOWN	None	None	None	None	34670388	34671054	1	None	None
11	PATE2	ENSG00000196844	ENST00000358524	protein_coding	KNOWN	CCDS8465	32249	342	113	125646008	125648714	-1	C11orf38	UNQ3112, LVLF3112, PATE-M
11	PATE2	ENSG00000196844	ENST00000436890	protein_coding	KNOWN	None	32249	213	70	125646789	125648705	-1	C11orf38	UNQ3112, LVLF3112, PATE-M
5	MARK2P5	ENSG00000248834	ENST00000507649	processed_pseudogene	KNOWN	None	39796	None	None	15384329	15384962	1	None	None
4	None	ENSG00000238694	ENST00000458842	snoRNA	NOVEL	None	None	None	None	34967863	34967966	-1	None	None
4	SEC63P2	ENSG00000250416	ENST00000503863	processed_pseudogene	KNOWN	None	41954	None	None	35489434	35491372	1	None	None
4	RNU6-573P	ENSG00000206665	ENST00000383938	snRNA	KNOWN	None	47536	None	None	35497520	35497625	1	None	None
4	None	ENSG00000248466	ENST00000514630	processed_pseudogene	KNOWN	None	None	None	None	36066682	36067348	-1	None	None
7	None	ENSG00000230160	ENST00000440356	processed_pseudogene	KNOWN	None	None	None	None	44959268	44959928	1	None	None
8	ZNF596	ENSG00000172748	ENST00000521145	protein_coding	PUTATIVE	None	27268	440	145	182137	195287	1	None	None
8	ZNF596	ENSG00000172748	ENST00000523418	nonsense_mediated_decay	KNOWN	None	27268	204	67	182184	195436	1	None	None
8	ZNF596	ENSG00000172748	ENST00000308811	protein_coding	KNOWN	CCDS5951	27268	1515	504	182200	197342	1	None	None
8	ZNF596	ENSG00000172748	ENST00000523162	nonsense_mediated_decay	KNOWN	None	27268	234	77	182238	195550	1	None	None
8	ZNF596	ENSG00000172748	ENST00000522866	processed_transcript	KNOWN	None	27268	None	None	182384	195248	1	None	None
8	ZNF596	ENSG00000172748	ENST00000518414	protein_coding	PUTATIVE	None	27268	219	72	182422	193801	1	None	None
8	ZNF596	ENSG00000172748	ENST00000521270	protein_coding	PUTATIVE	None	27268	131	42	182442	193005	1	None	None
8	ZNF596	ENSG00000172748	ENST00000518320	processed_transcript	KNOWN	None	27268	None	None	182456	194701	1	None	None
8	ZNF596	ENSG00000172748	ENST00000521238	processed_transcript	PUTATIVE	None	27268	None	None	182586	190908	1	None	None
8	ZNF596	ENSG00000172748	ENST00000523333	retained_intron	KNOWN	None	27268	None	None	190635	194654	1	None	None
8	ZNF596	ENSG00000172748	ENST00000521350	retained_intron	KNOWN	None	27268	None	None	194143	195249	1	None	None
8	ZNF596	ENSG00000172748	ENST00000320552	protein_coding	KNOWN	None	27268	1305	434	182200	196362	1	None	None
8	ZNF596	ENSG00000172748	ENST00000398612	protein_coding	KNOWN	CCDS5951	27268	1515	504	182384	197332	1	None	None
2	BMP10	ENSG00000163217	ENST00000295379	protein_coding	KNOWN	CCDS1890	20869	1275	424	69092613	69098649	-1	None	None
4	None	ENSG00000247193	ENST00000499292	antisense	KNOWN	None	None	None	None	36245738	36275842	1	None	None
4	None	ENSG00000247193	ENST00000502245	antisense	KNOWN	None	None	None	None	36258140	36275562	1	None	None
2	C2orf50	ENSG00000150873	ENST00000381585	protein_coding	KNOWN	CCDS1678	26324	489	162	11273179	11286150	1	None	FLJ25143
2	C2orf50	ENSG00000150873	ENST00000405022	protein_coding	KNOWN	CCDS1678	26324	489	162	11273255	11286916	1	None	FLJ25143
5	POU5F2	ENSG00000248483	ENST00000606183	processed_transcript	KNOWN	None	26367	None	None	93070508	93076829	-1	None	SPRM-1, FLJ25680
5	POU5F2	ENSG00000248483	ENST00000510627	protein_coding	KNOWN	CCDS59489	26367	987	328	93075976	93077343	-1	None	SPRM-1, FLJ25680
4	None	ENSG00000251438	ENST00000504344	antisense	KNOWN	None	None	None	None	36312812	36394032	-1	None	None
2	KIAA1715	ENSG00000144320	ENST00000272748	protein_coding	KNOWN	CCDS33332	21610	1287	428	176788620	176867073	-1	None	ulnaless, Ul
2	KIAA1715	ENSG00000144320	ENST00000409660	protein_coding	KNOWN	None	21610	918	305	176793901	176867002	-1	None	ulnaless, Ul
2	KIAA1715	ENSG00000144320	ENST00000479012	retained_intron	KNOWN	None	21610	None	None	176794667	176802584	-1	None	ulnaless, Ul
2	KIAA1715	ENSG00000144320	ENST00000475515	processed_transcript	KNOWN	None	21610	None	None	176794674	176803064	-1	None	ulnaless, Ul
2	KIAA1715	ENSG00000144320	ENST00000431754	nonsense_mediated_decay	KNOWN	None	21610	210	69	176794697	176812238	-1	None	ulnaless, Ul
2	KIAA1715	ENSG00000144320	ENST00000489827	retained_intron	KNOWN	None	21610	None	None	176802196	176803535	-1	None	ulnaless, Ul
2	KIAA1715	ENSG00000144320	ENST00000480788	retained_intron	KNOWN	None	21610	None	None	176802206	176804482	-1	None	ulnaless, Ul
2	KIAA1715	ENSG00000144320	ENST00000392540	protein_coding	PUTATIVE	None	21610	342	113	176835492	176866991	-1	None	ulnaless, Ul
2	KIAA1715	ENSG00000144320	ENST00000483230	processed_transcript	KNOWN	None	21610	None	None	176856959	176867007	-1	None	ulnaless, Ul
2	KIAA1715	ENSG00000144320	ENST00000445472	protein_coding	KNOWN	None	21610	249	82	176856967	176867567	-1	None	ulnaless, Ul
2	KIAA1715	ENSG00000144320	ENST00000466445	processed_transcript	KNOWN	None	21610	None	None	176857909	176867514	-1	None	ulnaless, Ul
2	KIAA1715	ENSG00000144320	ENST00000544803	protein_coding	KNOWN	None	21610	1380	459	176794673	176867003	-1	None	ulnaless, Ul
2	KIAA1715	ENSG00000144320	ENST00000535310	protein_coding	KNOWN	None	21610	840	279	176794711	176867514	-1	None	ulnaless, Ul
7	None	ENSG00000260997	ENST00000568457	sense_overlapping	KNOWN	None	None	None	None	44998598	45000508	-1	None	None
2	GKN2	ENSG00000183607	ENST00000328895	protein_coding	KNOWN	CCDS33215	24588	555	184	69172364	69180102	-1	None	TFIZ1, PRO813, VLTI465, blottin, GDDR, BRICD1B
2	GKN2	ENSG00000183607	ENST00000481498	protein_coding	PUTATIVE	None	24588	486	161	69172429	69180012	-1	None	TFIZ1, PRO813, VLTI465, blottin, GDDR, BRICD1B
4	None	ENSG00000248215	ENST00000510597	lincRNA	KNOWN	None	None	None	None	36498159	36643522	-1	None	None
4	None	ENSG00000248215	ENST00000505298	lincRNA	KNOWN	None	None	None	None	36498315	36643522	-1	None	None
4	None	ENSG00000248215	ENST00000515128	lincRNA	KNOWN	None	None	None	None	36550506	36584352	-1	None	None
1	MRPS21	ENSG00000187145	ENST00000309092	protein_coding	KNOWN	CCDS950	14046	264	87	150266289	150281414	1	None	None
1	MRPS21	ENSG00000187145	ENST00000369084	protein_coding	KNOWN	CCDS950	14046	264	87	150266340	150281414	1	None	None
12	YBX3	ENSG00000060138	ENST00000279550	protein_coding	KNOWN	CCDS44831	2428	912	303	10851683	10875906	-1	CSDA	dbpA, ZONAB, CSDA1
12	YBX3	ENSG00000060138	ENST00000228251	protein_coding	KNOWN	CCDS8630	2428	1119	372	10851812	10875911	-1	CSDA	dbpA, ZONAB, CSDA1
12	YBX3	ENSG00000060138	ENST00000540447	retained_intron	KNOWN	None	2428	None	None	10851826	10875510	-1	CSDA	dbpA, ZONAB, CSDA1
12	YBX3	ENSG00000060138	ENST00000540975	processed_transcript	KNOWN	None	2428	None	None	10851916	10855074	-1	CSDA	dbpA, ZONAB, CSDA1
12	YBX3	ENSG00000060138	ENST00000546164	processed_transcript	KNOWN	None	2428	None	None	10852026	10862719	-1	CSDA	dbpA, ZONAB, CSDA1
12	YBX3	ENSG00000060138	ENST00000536823	retained_intron	KNOWN	None	2428	None	None	10852077	10857037	-1	CSDA	dbpA, ZONAB, CSDA1
12	YBX3	ENSG00000060138	ENST00000366286	processed_transcript	KNOWN	None	2428	None	None	10852209	10855241	-1	CSDA	dbpA, ZONAB, CSDA1
12	YBX3	ENSG00000060138	ENST00000542002	retained_intron	KNOWN	None	2428	None	None	10853852	10868747	-1	CSDA	dbpA, ZONAB, CSDA1
12	YBX3	ENSG00000060138	ENST00000366290	retained_intron	KNOWN	None	2428	None	None	10853853	10854970	-1	CSDA	dbpA, ZONAB, CSDA1
12	YBX3	ENSG00000060138	ENST00000542641	retained_intron	KNOWN	None	2428	None	None	10853873	10870714	-1	CSDA	dbpA, ZONAB, CSDA1
12	YBX3	ENSG00000060138	ENST00000541351	nonsense_mediated_decay	KNOWN	None	2428	511	169	10853874	10863313	-1	CSDA	dbpA, ZONAB, CSDA1
12	YBX3	ENSG00000060138	ENST00000544504	processed_transcript	KNOWN	None	2428	None	None	10854609	10863285	-1	CSDA	dbpA, ZONAB, CSDA1
12	YBX3	ENSG00000060138	ENST00000539204	processed_transcript	KNOWN	None	2428	None	None	10856622	10871029	-1	CSDA	dbpA, ZONAB, CSDA1
12	YBX3	ENSG00000060138	ENST00000544622	processed_transcript	KNOWN	None	2428	None	None	10862950	10870720	-1	CSDA	dbpA, ZONAB, CSDA1
12	YBX3	ENSG00000060138	ENST00000546298	processed_transcript	KNOWN	None	2428	None	None	10865828	10874645	-1	CSDA	dbpA, ZONAB, CSDA1
12	YBX3	ENSG00000060138	ENST00000544501	processed_transcript	KNOWN	None	2428	None	None	10868294	10870713	-1	CSDA	dbpA, ZONAB, CSDA1
12	YBX3	ENSG00000060138	ENST00000536107	retained_intron	KNOWN	None	2428	None	None	10870407	10875508	-1	CSDA	dbpA, ZONAB, CSDA1
12	YBX3	ENSG00000060138	ENST00000540747	processed_transcript	KNOWN	None	2428	None	None	10870716	10874995	-1	CSDA	dbpA, ZONAB, CSDA1
15	JMJD7	ENSG00000243789	ENST00000397299	protein_coding	KNOWN	CCDS45240	34397	951	316	42120283	42129779	1	None	None
15	JMJD7	ENSG00000243789	ENST00000408047	protein_coding	PUTATIVE	None	34397	654	217	42120300	42129650	1	None	None
15	JMJD7	ENSG00000243789	ENST00000431823	protein_coding	PUTATIVE	None	34397	405	134	42120305	42128749	1	None	None
15	JMJD7	ENSG00000243789	ENST00000405106	processed_transcript	KNOWN	None	34397	None	None	42120311	42127002	1	None	None
15	JMJD7	ENSG00000243789	ENST00000562035	processed_transcript	KNOWN	None	34397	None	None	42124627	42127118	1	None	None
15	JMJD7	ENSG00000243789	ENST00000478178	retained_intron	KNOWN	None	34397	None	None	42128248	42129358	1	None	None
6	HLA-C	ENSG00000204525	ENST00000466892	retained_intron	KNOWN	None	4933	None	None	31236526	31237443	-1	HLA-JY3, D6S204	None
6	HLA-C	ENSG00000204525	ENST00000470363	retained_intron	KNOWN	None	4933	None	None	31236526	31238199	-1	HLA-JY3, D6S204	None
6	HLA-C	ENSG00000204525	ENST00000487245	retained_intron	KNOWN	None	4933	None	None	31236526	31239827	-1	HLA-JY3, D6S204	None
6	HLA-C	ENSG00000204525	ENST00000376228	protein_coding	KNOWN	CCDS34393	4933	1101	366	31236526	31239863	-1	HLA-JY3, D6S204	None
6	HLA-C	ENSG00000204525	ENST00000383329	protein_coding	KNOWN	None	4933	1119	372	31236526	31239863	-1	HLA-JY3, D6S204	None
6	HLA-C	ENSG00000204525	ENST00000376237	nonsense_mediated_decay	KNOWN	None	4933	396	131	31236526	31239882	-1	HLA-JY3, D6S204	None
6	HLA-C	ENSG00000204525	ENST00000415537	protein_coding	NOVEL	None	4933	782	259	31237991	31239846	-1	HLA-JY3, D6S204	None
6	HLA-C	ENSG00000204525	ENST00000495835	retained_intron	KNOWN	None	4933	None	None	31237998	31239907	-1	HLA-JY3, D6S204	None
6	HLA-C	ENSG00000204525	ENST00000484378	retained_intron	KNOWN	None	4933	None	None	31238876	31239867	-1	HLA-JY3, D6S204	None
7	SNHG15	ENSG00000232956	ENST00000577700	lincRNA	KNOWN	None	27797	None	None	45022622	45026236	-1	C7orf40	FLJ38860
7	SNHG15	ENSG00000232956	ENST00000578968	lincRNA	KNOWN	None	27797	None	None	45022622	45026433	-1	C7orf40	FLJ38860
7	SNHG15	ENSG00000232956	ENST00000579383	lincRNA	KNOWN	None	27797	None	None	45022625	45026255	-1	C7orf40	FLJ38860
7	SNHG15	ENSG00000232956	ENST00000585030	lincRNA	KNOWN	None	27797	None	None	45022625	45026268	-1	C7orf40	FLJ38860
7	SNHG15	ENSG00000232956	ENST00000580458	lincRNA	KNOWN	None	27797	None	None	45022633	45026249	-1	C7orf40	FLJ38860
7	SNHG15	ENSG00000232956	ENST00000438705	lincRNA	KNOWN	None	27797	None	None	45022684	45026169	-1	C7orf40	FLJ38860
7	SNHG15	ENSG00000232956	ENST00000584327	lincRNA	KNOWN	None	27797	None	None	45022736	45026159	-1	C7orf40	FLJ38860
7	SNHG15	ENSG00000232956	ENST00000582727	lincRNA	KNOWN	None	27797	None	None	45023214	45026273	-1	C7orf40	FLJ38860
7	SNHG15	ENSG00000232956	ENST00000584686	lincRNA	KNOWN	None	27797	None	None	45023446	45026267	-1	C7orf40	FLJ38860
7	SNHG15	ENSG00000232956	ENST00000580528	lincRNA	KNOWN	None	27797	None	None	45025061	45026560	-1	C7orf40	FLJ38860
7	SNHG15	ENSG00000232956	ENST00000384215	snoRNA	KNOWN	None	27797	None	None	45024977	45025109	-1	C7orf40	FLJ38860
X	YIPF6	ENSG00000181704	ENST00000462683	protein_coding	KNOWN	CCDS14389	28304	711	236	67718165	67757127	1	None	MGC21416, FinGER6
X	YIPF6	ENSG00000181704	ENST00000451537	protein_coding	KNOWN	None	28304	565	187	67718404	67751824	1	None	MGC21416, FinGER6
X	YIPF6	ENSG00000181704	ENST00000470730	processed_transcript	KNOWN	None	28304	None	None	67718876	67735182	1	None	MGC21416, FinGER6
X	YIPF6	ENSG00000181704	ENST00000374643	processed_transcript	KNOWN	None	28304	None	None	67718891	67751812	1	None	MGC21416, FinGER6
X	YIPF6	ENSG00000181704	ENST00000462972	processed_transcript	KNOWN	None	28304	None	None	67718923	67733247	1	None	MGC21416, FinGER6
X	YIPF6	ENSG00000181704	ENST00000496576	processed_transcript	KNOWN	None	28304	None	None	67731649	67733483	1	None	MGC21416, FinGER6
X	YIPF6	ENSG00000181704	ENST00000374622	protein_coding	KNOWN	CCDS56604	28304	582	193	67718894	67752679	1	None	MGC21416, FinGER6
17	NPTX1	ENSG00000171246	ENST00000535681	retained_intron	KNOWN	None	7952	None	None	78440948	78448498	-1	None	None
17	NPTX1	ENSG00000171246	ENST00000306773	protein_coding	KNOWN	CCDS32762	7952	1299	432	78440948	78450404	-1	None	None
17	NPTX1	ENSG00000171246	ENST00000571100	retained_intron	KNOWN	None	7952	None	None	78445703	78449612	-1	None	None
17	NPTX1	ENSG00000171246	ENST00000575212	processed_transcript	KNOWN	None	7952	None	None	78447214	78451643	-1	None	None
20	C20orf85	ENSG00000124237	ENST00000371168	protein_coding	KNOWN	CCDS13465	16216	414	137	56725960	56736206	1	None	bA196N14.1, LLC1
11	MADD	ENSG00000110514	ENST00000453571	protein_coding	PUTATIVE	None	6766	226	74	47290712	47296277	1	None	DENN, KIAA0358, RAB3GEP
11	MADD	ENSG00000110514	ENST00000342922	protein_coding	KNOWN	CCDS7931	6766	4767	1588	47290927	47351582	1	None	DENN, KIAA0358, RAB3GEP
11	MADD	ENSG00000110514	ENST00000428807	protein_coding	PUTATIVE	None	6766	463	153	47291223	47299749	1	None	DENN, KIAA0358, RAB3GEP
11	MADD	ENSG00000110514	ENST00000402799	protein_coding	KNOWN	CCDS44588	6766	4638	1545	47291225	47351582	1	None	DENN, KIAA0358, RAB3GEP
11	MADD	ENSG00000110514	ENST00000406482	protein_coding	KNOWN	CCDS44590	6766	4440	1479	47291225	47351582	1	None	DENN, KIAA0358, RAB3GEP
11	MADD	ENSG00000110514	ENST00000349238	protein_coding	KNOWN	CCDS7932	6766	4827	1608	47291225	47351582	1	None	DENN, KIAA0358, RAB3GEP
11	MADD	ENSG00000110514	ENST00000311027	protein_coding	KNOWN	CCDS7930	6766	4944	1647	47291225	47351582	1	None	DENN, KIAA0358, RAB3GEP
11	MADD	ENSG00000110514	ENST00000407859	protein_coding	KNOWN	CCDS44587	6766	4698	1565	47291225	47351582	1	None	DENN, KIAA0358, RAB3GEP
11	MADD	ENSG00000110514	ENST00000534808	processed_transcript	PUTATIVE	None	6766	None	None	47291228	47296548	1	None	DENN, KIAA0358, RAB3GEP
11	MADD	ENSG00000110514	ENST00000395344	protein_coding	KNOWN	CCDS44589	6766	4626	1541	47291235	47350908	1	None	DENN, KIAA0358, RAB3GEP
11	MADD	ENSG00000110514	ENST00000444117	protein_coding	PUTATIVE	None	6766	409	135	47291244	47296460	1	None	DENN, KIAA0358, RAB3GEP
11	MADD	ENSG00000110514	ENST00000395336	protein_coding	KNOWN	CCDS41642	6766	4746	1581	47291699	47351582	1	None	DENN, KIAA0358, RAB3GEP
11	MADD	ENSG00000110514	ENST00000526603	processed_transcript	PUTATIVE	None	6766	None	None	47291707	47296556	1	None	DENN, KIAA0358, RAB3GEP
11	MADD	ENSG00000110514	ENST00000402192	protein_coding	KNOWN	CCDS44586	6766	4764	1587	47291707	47351581	1	None	DENN, KIAA0358, RAB3GEP
11	MADD	ENSG00000110514	ENST00000422579	protein_coding	PUTATIVE	None	6766	405	134	47293795	47296456	1	None	DENN, KIAA0358, RAB3GEP
11	MADD	ENSG00000110514	ENST00000489415	processed_transcript	KNOWN	None	6766	None	None	47297579	47304146	1	None	DENN, KIAA0358, RAB3GEP
11	MADD	ENSG00000110514	ENST00000524530	processed_transcript	KNOWN	None	6766	None	None	47306497	47311620	1	None	DENN, KIAA0358, RAB3GEP
11	MADD	ENSG00000110514	ENST00000524686	processed_transcript	KNOWN	None	6766	None	None	47306822	47311472	1	None	DENN, KIAA0358, RAB3GEP
11	MADD	ENSG00000110514	ENST00000405573	protein_coding	NOVEL	None	6766	1320	439	47314078	47346586	1	None	DENN, KIAA0358, RAB3GEP
11	MADD	ENSG00000110514	ENST00000460452	retained_intron	KNOWN	None	6766	None	None	47345222	47348737	1	None	DENN, KIAA0358, RAB3GEP
11	MADD	ENSG00000110514	ENST00000494403	processed_transcript	KNOWN	None	6766	None	None	47345849	47346847	1	None	DENN, KIAA0358, RAB3GEP
11	MADD	ENSG00000110514	ENST00000469699	retained_intron	KNOWN	None	6766	None	None	47349693	47350957	1	None	DENN, KIAA0358, RAB3GEP
16	PIEZO1	ENSG00000103335	ENST00000518793	protein_coding	PUTATIVE	None	28993	106	34	88781751	88782685	-1	FAM38A	KIAA0233
16	PIEZO1	ENSG00000103335	ENST00000484567	retained_intron	KNOWN	None	28993	None	None	88781751	88784726	-1	FAM38A	KIAA0233
16	PIEZO1	ENSG00000103335	ENST00000419505	nonsense_mediated_decay	KNOWN	None	28993	267	88	88781751	88786298	-1	FAM38A	KIAA0233
16	PIEZO1	ENSG00000103335	ENST00000301015	protein_coding	NOVEL	CCDS54058	28993	7566	2521	88781754	88851619	-1	FAM38A	KIAA0233
16	PIEZO1	ENSG00000103335	ENST00000521877	retained_intron	KNOWN	None	28993	None	None	88781857	88782620	-1	FAM38A	KIAA0233
16	PIEZO1	ENSG00000103335	ENST00000472168	retained_intron	KNOWN	None	28993	None	None	88782224	88783200	-1	FAM38A	KIAA0233
16	PIEZO1	ENSG00000103335	ENST00000495568	retained_intron	KNOWN	None	28993	None	None	88783431	88786881	-1	FAM38A	KIAA0233
16	PIEZO1	ENSG00000103335	ENST00000466823	protein_coding	PUTATIVE	None	28993	554	183	88784130	88786666	-1	FAM38A	KIAA0233
16	PIEZO1	ENSG00000103335	ENST00000497793	retained_intron	KNOWN	None	28993	None	None	88785380	88786795	-1	FAM38A	KIAA0233
16	PIEZO1	ENSG00000103335	ENST00000566414	retained_intron	KNOWN	None	28993	None	None	88788931	88790342	-1	FAM38A	KIAA0233
16	PIEZO1	ENSG00000103335	ENST00000474606	protein_coding	NOVEL	None	28993	544	180	88789390	88792752	-1	FAM38A	KIAA0233
16	PIEZO1	ENSG00000103335	ENST00000475586	retained_intron	KNOWN	None	28993	None	None	88790355	88792433	-1	FAM38A	KIAA0233
16	PIEZO1	ENSG00000103335	ENST00000491917	retained_intron	KNOWN	None	28993	None	None	88793482	88794251	-1	FAM38A	KIAA0233
16	PIEZO1	ENSG00000103335	ENST00000490756	retained_intron	KNOWN	None	28993	None	None	88798872	88799388	-1	FAM38A	KIAA0233
16	PIEZO1	ENSG00000103335	ENST00000327397	protein_coding	KNOWN	None	28993	1122	373	88781755	88786298	-1	FAM38A	KIAA0233
X	ZNF157	ENSG00000147117	ENST00000377073	protein_coding	KNOWN	CCDS14278	12942	1521	506	47229982	47273704	1	None	HZF22
2	GKN1	ENSG00000169605	ENST00000377938	protein_coding	KNOWN	CCDS1891	23217	600	199	69201705	69208106	1	None	AMP18, CA11, BRICD1
2	GKN1	ENSG00000169605	ENST00000478888	retained_intron	KNOWN	None	23217	None	None	69201768	69205241	1	None	AMP18, CA11, BRICD1
2	EVX2	ENSG00000174279	ENST00000308618	protein_coding	KNOWN	CCDS33333	3507	1431	476	176942200	176948641	-1	None	None
15	PLA2G4B	ENSG00000243708	ENST00000452633	protein_coding	KNOWN	CCDS45241	9036	2346	781	42129973	42140345	1	None	cPLA2-beta, HsT16992
15	PLA2G4B	ENSG00000243708	ENST00000461382	retained_intron	KNOWN	None	9036	None	None	42131011	42136728	1	None	cPLA2-beta, HsT16992
15	PLA2G4B	ENSG00000243708	ENST00000483748	retained_intron	KNOWN	None	9036	None	None	42134027	42140338	1	None	cPLA2-beta, HsT16992
15	PLA2G4B	ENSG00000243708	ENST00000566076	retained_intron	KNOWN	None	9036	None	None	42138079	42138898	1	None	cPLA2-beta, HsT16992
15	PLA2G4B	ENSG00000243708	ENST00000569354	protein_coding	NOVEL	None	9036	92	29	42138999	42140230	1	None	cPLA2-beta, HsT16992
14	FOXA1	ENSG00000129514	ENST00000250448	protein_coding	KNOWN	CCDS9665	5021	1419	472	38059189	38064239	-1	HNF3A	None
14	FOXA1	ENSG00000129514	ENST00000545425	processed_transcript	KNOWN	None	5021	None	None	38060298	38063467	-1	HNF3A	None
14	FOXA1	ENSG00000129514	ENST00000553751	nonsense_mediated_decay	KNOWN	None	5021	111	36	38061721	38064315	-1	HNF3A	None
14	FOXA1	ENSG00000129514	ENST00000554607	processed_transcript	KNOWN	None	5021	None	None	38063080	38064155	-1	HNF3A	None
14	FOXA1	ENSG00000129514	ENST00000557418	processed_transcript	KNOWN	None	5021	None	None	38064229	38065264	-1	HNF3A	None
14	FOXA1	ENSG00000129514	ENST00000540786	protein_coding	KNOWN	None	5021	1320	439	38060254	38069245	-1	HNF3A	None
2	HOXD13	ENSG00000128714	ENST00000392539	protein_coding	PUTATIVE	CCDS2264	5136	1032	343	176957619	176960666	1	HOX4I, SPD	None
X	ARSE	ENSG00000157399	ENST00000381134	protein_coding	KNOWN	CCDS14122	719	1770	589	2852857	2882311	-1	CDPX, CDPX1	None
X	ARSE	ENSG00000157399	ENST00000438544	protein_coding	KNOWN	None	719	535	177	2867664	2882305	-1	CDPX, CDPX1	None
X	ARSE	ENSG00000157399	ENST00000483425	processed_transcript	KNOWN	None	719	None	None	2870872	2871269	-1	CDPX, CDPX1	None
X	ARSE	ENSG00000157399	ENST00000496095	processed_transcript	KNOWN	None	719	None	None	2876452	2882305	-1	CDPX, CDPX1	None
X	ARSE	ENSG00000157399	ENST00000540563	protein_coding	KNOWN	None	719	1635	544	2852699	2886286	-1	CDPX, CDPX1	None
X	ARSE	ENSG00000157399	ENST00000545496	protein_coding	KNOWN	None	719	1845	614	2852852	2882325	-1	CDPX, CDPX1	None
2	PQLC3	ENSG00000162976	ENST00000445402	protein_coding	PUTATIVE	None	28503	545	180	11295324	11312172	1	C2orf22	MGC33602
2	PQLC3	ENSG00000162976	ENST00000295083	protein_coding	KNOWN	CCDS1679	28503	609	202	11295498	11319000	1	C2orf22	MGC33602
2	PQLC3	ENSG00000162976	ENST00000445921	nonsense_mediated_decay	KNOWN	None	28503	510	169	11295557	11318083	1	C2orf22	MGC33602
2	PQLC3	ENSG00000162976	ENST00000464700	retained_intron	KNOWN	None	28503	None	None	11295641	11300945	1	C2orf22	MGC33602
2	PQLC3	ENSG00000162976	ENST00000476787	processed_transcript	KNOWN	None	28503	None	None	11295659	11312155	1	C2orf22	MGC33602
2	PQLC3	ENSG00000162976	ENST00000402361	protein_coding	PUTATIVE	None	28503	363	120	11295661	11318150	1	C2orf22	MGC33602
2	PQLC3	ENSG00000162976	ENST00000428481	protein_coding	PUTATIVE	None	28503	247	81	11295735	11318405	1	C2orf22	MGC33602
2	PQLC3	ENSG00000162976	ENST00000496444	retained_intron	KNOWN	None	28503	None	None	11300416	11300879	1	C2orf22	MGC33602
2	PQLC3	ENSG00000162976	ENST00000487471	processed_transcript	KNOWN	None	28503	None	None	11312138	11318294	1	C2orf22	MGC33602
2	PQLC3	ENSG00000162976	ENST00000441908	protein_coding	KNOWN	None	28503	567	188	11295603	11318348	1	C2orf22	MGC33602
2	HOXD12	ENSG00000170178	ENST00000406506	protein_coding	KNOWN	CCDS46456	5135	813	270	176964458	176966408	1	HOX4H	None
2	HOXD12	ENSG00000170178	ENST00000404162	protein_coding	NOVEL	None	5135	741	246	176964530	176965488	1	HOX4H	None
11	ILK	ENSG00000166333	ENST00000299421	protein_coding	KNOWN	CCDS7768	6040	1359	452	6624961	6632101	1	None	None
11	ILK	ENSG00000166333	ENST00000532063	nonsense_mediated_decay	KNOWN	None	6040	123	40	6624961	6632102	1	None	None
11	ILK	ENSG00000166333	ENST00000527327	nonsense_mediated_decay	KNOWN	None	6040	660	219	6624974	6632066	1	None	None
11	ILK	ENSG00000166333	ENST00000420936	protein_coding	KNOWN	CCDS7768	6040	1359	452	6624988	6632064	1	None	None
11	ILK	ENSG00000166333	ENST00000526114	nonsense_mediated_decay	KNOWN	None	6040	111	36	6625003	6630387	1	None	None
11	ILK	ENSG00000166333	ENST00000527394	nonsense_mediated_decay	KNOWN	None	6040	630	209	6625004	6631842	1	None	None
11	ILK	ENSG00000166333	ENST00000527121	nonsense_mediated_decay	KNOWN	None	6040	111	36	6625012	6630624	1	None	None
11	ILK	ENSG00000166333	ENST00000528995	protein_coding	NOVEL	None	6040	1176	391	6625017	6632097	1	None	None
11	ILK	ENSG00000166333	ENST00000534565	processed_transcript	PUTATIVE	None	6040	None	None	6625026	6625956	1	None	None
11	ILK	ENSG00000166333	ENST00000396751	protein_coding	KNOWN	CCDS7768	6040	1359	452	6625046	6632101	1	None	None
11	ILK	ENSG00000166333	ENST00000526318	processed_transcript	KNOWN	None	6040	None	None	6625526	6632102	1	None	None
11	ILK	ENSG00000166333	ENST00000524735	processed_transcript	PUTATIVE	None	6040	None	None	6628901	6629648	1	None	None
11	ILK	ENSG00000166333	ENST00000528784	processed_transcript	KNOWN	None	6040	None	None	6629496	6631262	1	None	None
11	ILK	ENSG00000166333	ENST00000534706	processed_transcript	KNOWN	None	6040	None	None	6629976	6631046	1	None	None
11	ILK	ENSG00000166333	ENST00000530016	processed_transcript	KNOWN	None	6040	None	None	6630110	6630872	1	None	None
11	ILK	ENSG00000166333	ENST00000526711	processed_transcript	KNOWN	None	6040	None	None	6630172	6631511	1	None	None
11	ILK	ENSG00000166333	ENST00000537806	protein_coding	KNOWN	None	6040	957	318	6624961	6632102	1	None	None
8	INTS8	ENSG00000164941	ENST00000522171	protein_coding	PUTATIVE	None	26048	614	203	95825539	95844386	1	C8orf52	FLJ20530, INT8, MGC131633
8	INTS8	ENSG00000164941	ENST00000523808	protein_coding	PUTATIVE	None	26048	588	195	95835079	95839581	1	C8orf52	FLJ20530, INT8, MGC131633
8	INTS8	ENSG00000164941	ENST00000521860	protein_coding	PUTATIVE	None	26048	548	181	95835438	95844235	1	C8orf52	FLJ20530, INT8, MGC131633
8	INTS8	ENSG00000164941	ENST00000519457	protein_coding	NOVEL	None	26048	439	145	95835518	95844229	1	C8orf52	FLJ20530, INT8, MGC131633
8	INTS8	ENSG00000164941	ENST00000519053	protein_coding	PUTATIVE	None	26048	283	93	95835526	95844259	1	C8orf52	FLJ20530, INT8, MGC131633
8	INTS8	ENSG00000164941	ENST00000524333	nonsense_mediated_decay	KNOWN	None	26048	876	291	95835527	95892555	1	C8orf52	FLJ20530, INT8, MGC131633
8	INTS8	ENSG00000164941	ENST00000523731	protein_coding	KNOWN	CCDS34925	26048	2988	995	95835527	95893974	1	C8orf52	FLJ20530, INT8, MGC131633
8	INTS8	ENSG00000164941	ENST00000523321	retained_intron	KNOWN	None	26048	None	None	95835535	95872575	1	C8orf52	FLJ20530, INT8, MGC131633
8	INTS8	ENSG00000164941	ENST00000343161	nonsense_mediated_decay	KNOWN	None	26048	2277	758	95835604	95892678	1	C8orf52	FLJ20530, INT8, MGC131633
8	INTS8	ENSG00000164941	ENST00000523206	nonsense_mediated_decay	KNOWN	None	26048	876	291	95835604	95892678	1	C8orf52	FLJ20530, INT8, MGC131633
8	INTS8	ENSG00000164941	ENST00000520526	protein_coding	NOVEL	None	26048	2402	799	95841220	95892542	1	C8orf52	FLJ20530, INT8, MGC131633
8	INTS8	ENSG00000164941	ENST00000520845	processed_transcript	KNOWN	None	26048	None	None	95866022	95879554	1	C8orf52	FLJ20530, INT8, MGC131633
8	INTS8	ENSG00000164941	ENST00000520315	nonsense_mediated_decay	KNOWN	None	26048	396	131	95869191	95879536	1	C8orf52	FLJ20530, INT8, MGC131633
8	INTS8	ENSG00000164941	ENST00000517918	processed_transcript	KNOWN	None	26048	None	None	95876921	95884115	1	C8orf52	FLJ20530, INT8, MGC131633
8	INTS8	ENSG00000164941	ENST00000520853	retained_intron	KNOWN	None	26048	None	None	95877848	95878579	1	C8orf52	FLJ20530, INT8, MGC131633
8	INTS8	ENSG00000164941	ENST00000519736	retained_intron	KNOWN	None	26048	None	None	95878965	95886813	1	C8orf52	FLJ20530, INT8, MGC131633
8	INTS8	ENSG00000164941	ENST00000521155	retained_intron	KNOWN	None	26048	None	None	95879259	95888370	1	C8orf52	FLJ20530, INT8, MGC131633
8	INTS8	ENSG00000164941	ENST00000522261	retained_intron	KNOWN	None	26048	None	None	95879401	95880068	1	C8orf52	FLJ20530, INT8, MGC131633
8	INTS8	ENSG00000164941	ENST00000523352	retained_intron	KNOWN	None	26048	None	None	95879556	95885980	1	C8orf52	FLJ20530, INT8, MGC131633
8	INTS8	ENSG00000164941	ENST00000523998	retained_intron	KNOWN	None	26048	None	None	95888179	95888874	1	C8orf52	FLJ20530, INT8, MGC131633
8	INTS8	ENSG00000164941	ENST00000447247	protein_coding	KNOWN	None	26048	2937	978	95835534	95892720	1	C8orf52	FLJ20530, INT8, MGC131633
1	PRPF3	ENSG00000117360	ENST00000324862	protein_coding	KNOWN	CCDS951	17348	2052	683	150293925	150325671	1	RP18	Prp3, hPrp3, SNRNP90
1	PRPF3	ENSG00000117360	ENST00000496202	processed_transcript	KNOWN	None	17348	None	None	150293928	150307501	1	RP18	Prp3, hPrp3, SNRNP90
1	PRPF3	ENSG00000117360	ENST00000467329	processed_transcript	KNOWN	None	17348	None	None	150300234	150325671	1	RP18	Prp3, hPrp3, SNRNP90
1	PRPF3	ENSG00000117360	ENST00000467514	processed_transcript	KNOWN	None	17348	None	None	150302221	150307450	1	RP18	Prp3, hPrp3, SNRNP90
1	PRPF3	ENSG00000117360	ENST00000493553	processed_transcript	KNOWN	None	17348	None	None	150315627	150316851	1	RP18	Prp3, hPrp3, SNRNP90
1	PRPF3	ENSG00000117360	ENST00000476970	processed_transcript	KNOWN	None	17348	None	None	150318016	150321685	1	RP18	Prp3, hPrp3, SNRNP90
1	PRPF3	ENSG00000117360	ENST00000470824	processed_transcript	KNOWN	None	17348	None	None	150321160	150325671	1	RP18	Prp3, hPrp3, SNRNP90
1	PRPF3	ENSG00000117360	ENST00000414970	protein_coding	KNOWN	None	17348	1905	634	150294002	150325608	1	RP18	Prp3, hPrp3, SNRNP90
1	PRPF3	ENSG00000117360	ENST00000543398	protein_coding	KNOWN	None	17348	846	281	150294002	150318563	1	RP18	Prp3, hPrp3, SNRNP90
2	HOXD11	ENSG00000128713	ENST00000498438	processed_transcript	KNOWN	None	5134	None	None	176968944	176974482	1	HOX4, HOX4F	None
2	HOXD11	ENSG00000128713	ENST00000249504	protein_coding	KNOWN	CCDS2265	5134	1017	338	176972014	176974722	1	HOX4, HOX4F	None
1	PTPRF	ENSG00000142949	ENST00000496043	processed_transcript	KNOWN	None	9670	None	None	43990858	44019190	1	LAR	None
1	PTPRF	ENSG00000142949	ENST00000481019	processed_transcript	KNOWN	None	9670	None	None	43994233	44019210	1	LAR	None
1	PTPRF	ENSG00000142949	ENST00000359947	protein_coding	KNOWN	CCDS489	9670	5724	1907	43996547	44089337	1	LAR	None
1	PTPRF	ENSG00000142949	ENST00000438120	protein_coding	KNOWN	CCDS490	9670	5697	1898	43996561	44088028	1	LAR	None
1	PTPRF	ENSG00000142949	ENST00000436724	processed_transcript	KNOWN	None	9670	None	None	43996574	44045749	1	LAR	None
1	PTPRF	ENSG00000142949	ENST00000372405	processed_transcript	KNOWN	None	9670	None	None	44003869	44045749	1	LAR	None
1	PTPRF	ENSG00000142949	ENST00000437607	protein_coding	PUTATIVE	None	9670	788	261	44010747	44044955	1	LAR	None
1	PTPRF	ENSG00000142949	ENST00000467464	processed_transcript	KNOWN	None	9670	None	None	44048151	44056789	1	LAR	None
1	PTPRF	ENSG00000142949	ENST00000412568	protein_coding	NOVEL	None	9670	3874	1290	44056692	44087954	1	LAR	None
1	PTPRF	ENSG00000142949	ENST00000429895	protein_coding	NOVEL	None	9670	4661	1552	44056724	44089325	1	LAR	None
1	PTPRF	ENSG00000142949	ENST00000414879	protein_coding	NOVEL	None	9670	3997	1331	44057121	44088513	1	LAR	None
1	PTPRF	ENSG00000142949	ENST00000496447	processed_transcript	KNOWN	None	9670	None	None	44063745	44089337	1	LAR	None
1	PTPRF	ENSG00000142949	ENST00000372407	protein_coding	NOVEL	None	9670	2940	979	44064510	44089334	1	LAR	None
1	PTPRF	ENSG00000142949	ENST00000463041	processed_transcript	KNOWN	None	9670	None	None	44071253	44072539	1	LAR	None
1	PTPRF	ENSG00000142949	ENST00000477970	processed_transcript	KNOWN	None	9670	None	None	44078811	44088534	1	LAR	None
1	PTPRF	ENSG00000142949	ENST00000372414	protein_coding	KNOWN	CCDS489	9670	5724	1907	44010701	44089343	1	LAR	None
1	PTPRF	ENSG00000142949	ENST00000372413	protein_coding	KNOWN	CCDS490	9670	5697	1898	44010701	44089343	1	LAR	None
1	PTPRF	ENSG00000142949	ENST00000422171	protein_coding	KNOWN	None	9670	3801	1266	44057121	44088513	1	LAR	None
5	None	ENSG00000248699	ENST00000502306	processed_pseudogene	KNOWN	None	None	None	None	15450810	15451920	1	None	None
5	SAR1B	ENSG00000152700	ENST00000402673	protein_coding	KNOWN	CCDS4177	10535	597	198	133936834	133968678	-1	SARA2	None
5	SAR1B	ENSG00000152700	ENST00000507419	protein_coding	PUTATIVE	None	10535	393	130	133942119	133984961	-1	SARA2	None
5	SAR1B	ENSG00000152700	ENST00000508363	retained_intron	KNOWN	None	10535	None	None	133942120	133950593	-1	SARA2	None
5	SAR1B	ENSG00000152700	ENST00000502539	protein_coding	PUTATIVE	None	10535	393	130	133942428	133948776	-1	SARA2	None
5	SAR1B	ENSG00000152700	ENST00000439578	protein_coding	KNOWN	CCDS4177	10535	597	198	133942492	133968464	-1	SARA2	None
5	SAR1B	ENSG00000152700	ENST00000509937	protein_coding	PUTATIVE	None	10535	393	130	133942639	133948800	-1	SARA2	None
5	SAR1B	ENSG00000152700	ENST00000509730	protein_coding	PUTATIVE	None	10535	356	117	133942677	133948827	-1	SARA2	None
5	SAR1B	ENSG00000152700	ENST00000503318	nonsense_mediated_decay	KNOWN	None	10535	435	144	133942680	133959727	-1	SARA2	None
5	SAR1B	ENSG00000152700	ENST00000505758	protein_coding	KNOWN	None	10535	510	169	133942727	133968459	-1	SARA2	None
5	SAR1B	ENSG00000152700	ENST00000502286	protein_coding	KNOWN	None	10535	309	102	133945300	133968515	-1	SARA2	None
5	SAR1B	ENSG00000152700	ENST00000504242	processed_transcript	KNOWN	None	10535	None	None	133967292	133968499	-1	SARA2	None
X	ZNF41	ENSG00000147124	ENST00000313116	protein_coding	KNOWN	CCDS14279	13107	2340	779	47305278	47341984	-1	None	MGC8941, MRX89
X	ZNF41	ENSG00000147124	ENST00000377065	protein_coding	KNOWN	CCDS14279	13107	2340	779	47305278	47342345	-1	None	MGC8941, MRX89
X	ZNF41	ENSG00000147124	ENST00000432977	protein_coding	KNOWN	None	13107	536	177	47308663	47326947	-1	None	MGC8941, MRX89
X	ZNF41	ENSG00000147124	ENST00000465311	processed_transcript	KNOWN	None	13107	None	None	47308663	47326947	-1	None	MGC8941, MRX89
X	ZNF41	ENSG00000147124	ENST00000397050	protein_coding	KNOWN	None	13107	2370	789	47305561	47342345	-1	None	MGC8941, MRX89
20	ANKRD60	ENSG00000124227	ENST00000371167	protein_coding	KNOWN	None	16217	1024	340	56793551	56803695	-1	C20orf86	bA196N14.3
20	ANKRD60	ENSG00000124227	ENST00000457363	protein_coding	KNOWN	None	16217	1038	345	56793551	56803709	-1	C20orf86	bA196N14.3
2	HOXD10	ENSG00000128710	ENST00000490088	processed_transcript	KNOWN	None	5133	None	None	176973518	176984122	1	HOX4, HOX4D	None
2	HOXD10	ENSG00000128710	ENST00000549469	processed_transcript	KNOWN	None	5133	None	None	176973605	176983971	1	HOX4, HOX4D	None
2	HOXD10	ENSG00000128710	ENST00000249501	protein_coding	KNOWN	CCDS2266	5133	1023	340	176981307	176984670	1	HOX4, HOX4D	None
5	None	ENSG00000250250	ENST00000510456	antisense	KNOWN	None	None	None	None	15602298	15607457	-1	None	None
5	None	ENSG00000250250	ENST00000509228	antisense	KNOWN	None	None	None	None	15606869	15607358	-1	None	None
11	PDDC1	ENSG00000177225	ENST00000465313	protein_coding	PUTATIVE	None	26616	262	86	767220	771427	-1	None	FLJ34283
11	PDDC1	ENSG00000177225	ENST00000528309	protein_coding	PUTATIVE	None	26616	489	162	767222	774068	-1	None	FLJ34283
11	PDDC1	ENSG00000177225	ENST00000397472	protein_coding	KNOWN	None	26616	753	250	767222	777471	-1	None	FLJ34283
11	PDDC1	ENSG00000177225	ENST00000319863	protein_coding	KNOWN	CCDS7713	26616	663	220	767225	777484	-1	None	FLJ34283
11	PDDC1	ENSG00000177225	ENST00000354286	nonsense_mediated_decay	KNOWN	None	26616	555	184	767225	777488	-1	None	FLJ34283
11	PDDC1	ENSG00000177225	ENST00000526650	protein_coding	PUTATIVE	None	26616	435	144	767228	774026	-1	None	FLJ34283
11	PDDC1	ENSG00000177225	ENST00000526325	protein_coding	PUTATIVE	None	26616	561	186	767228	777487	-1	None	FLJ34283
11	PDDC1	ENSG00000177225	ENST00000524550	protein_coding	KNOWN	None	26616	555	184	770470	777475	-1	None	FLJ34283
11	PDDC1	ENSG00000177225	ENST00000532320	retained_intron	KNOWN	None	26616	None	None	770550	777485	-1	None	FLJ34283
11	PDDC1	ENSG00000177225	ENST00000530209	retained_intron	KNOWN	None	26616	None	None	770698	772614	-1	None	FLJ34283
11	PDDC1	ENSG00000177225	ENST00000534603	nonsense_mediated_decay	KNOWN	None	26616	363	120	770812	777483	-1	None	FLJ34283
11	PDDC1	ENSG00000177225	ENST00000529966	processed_transcript	KNOWN	None	26616	None	None	770812	777483	-1	None	FLJ34283
11	PDDC1	ENSG00000177225	ENST00000533960	retained_intron	KNOWN	None	26616	None	None	770844	771370	-1	None	FLJ34283
11	PDDC1	ENSG00000177225	ENST00000532839	processed_transcript	KNOWN	None	26616	None	None	771035	777484	-1	None	FLJ34283
11	PDDC1	ENSG00000177225	ENST00000528602	retained_intron	KNOWN	None	26616	None	None	773330	777484	-1	None	FLJ34283
11	PDDC1	ENSG00000177225	ENST00000529362	processed_transcript	PUTATIVE	None	26616	None	None	775065	777179	-1	None	FLJ34283
11	PDDC1	ENSG00000177225	ENST00000442059	protein_coding	KNOWN	None	26616	513	170	770208	777487	-1	None	FLJ34283
5	MIR887	ENSG00000216077	ENST00000401258	miRNA	KNOWN	None	33661	None	None	15935291	15935369	1	MIRN887	hsa-mir-887
11	PATE3	ENSG00000236027	ENST00000445202	protein_coding	KNOWN	CCDS44764	35426	297	98	125658006	125661495	1	None	PATE-DJ, HEL-127
17	None	ENSG00000226364	ENST00000412360	protein_coding	PUTATIVE	None	None	168	55	50939481	50976948	1	None	None
2	HOXD9	ENSG00000128709	ENST00000249499	protein_coding	KNOWN	CCDS2267	5140	1059	352	176987088	176989853	1	HOX4C, HOX4	None
11	PATE4	ENSG00000237353	ENST00000525411	processed_transcript	KNOWN	None	35427	None	None	125703211	125705795	1	None	FLJ41047, PATE-B
11	PATE4	ENSG00000237353	ENST00000534411	protein_coding	NOVEL	None	35427	180	59	125703211	125708995	1	None	FLJ41047, PATE-B
11	PATE4	ENSG00000237353	ENST00000457514	protein_coding	KNOWN	CCDS44765	35427	297	98	125703211	125709964	1	None	FLJ41047, PATE-B
14	TTC6	ENSG00000139865	ENST00000556845	protein_coding	NOVEL	None	19739	115	37	38065052	38091523	1	NCRNA00291, C14orf25	None
14	TTC6	ENSG00000139865	ENST00000533625	nonsense_mediated_decay	KNOWN	None	19739	1323	440	38080456	38510647	1	NCRNA00291, C14orf25	None
14	TTC6	ENSG00000139865	ENST00000553443	protein_coding	NOVEL	None	19739	5661	1886	38091270	38311668	1	NCRNA00291, C14orf25	None
14	TTC6	ENSG00000139865	ENST00000476979	protein_coding	KNOWN	None	19739	1563	520	38241588	38311899	1	NCRNA00291, C14orf25	None
14	TTC6	ENSG00000139865	ENST00000478811	nonsense_mediated_decay	KNOWN	None	19739	1662	553	38264513	38311553	1	NCRNA00291, C14orf25	None
14	TTC6	ENSG00000139865	ENST00000554555	processed_transcript	KNOWN	None	19739	None	None	38265499	38271595	1	NCRNA00291, C14orf25	None
14	TTC6	ENSG00000139865	ENST00000555921	nonsense_mediated_decay	KNOWN	None	19739	237	78	38296506	38310900	1	NCRNA00291, C14orf25	None
14	TTC6	ENSG00000139865	ENST00000553887	processed_transcript	KNOWN	None	19739	None	None	38441194	38510647	1	NCRNA00291, C14orf25	None
14	TTC6	ENSG00000139865	ENST00000267368	protein_coding	KNOWN	None	19739	1563	520	38264418	38311890	1	NCRNA00291, C14orf25	None
14	TTC6	ENSG00000139865	ENST00000382320	protein_coding	KNOWN	None	19739	1611	536	38264513	38311553	1	NCRNA00291, C14orf25	None
6	None	ENSG00000268275	ENST00000597468	protein_coding	NOVEL	None	None	36	11	41653964	41654127	1	None	None
11	NUDT22	ENSG00000149761	ENST00000539325	protein_coding	KNOWN	None	28189	371	122	63993413	63994495	1	None	MGC13045
11	NUDT22	ENSG00000149761	ENST00000543358	nonsense_mediated_decay	KNOWN	None	28189	498	165	63993740	63997691	1	None	MGC13045
11	NUDT22	ENSG00000149761	ENST00000422364	retained_intron	KNOWN	None	28189	None	None	63993747	63996458	1	None	MGC13045
11	NUDT22	ENSG00000149761	ENST00000535000	nonsense_mediated_decay	KNOWN	None	28189	498	165	63993762	63997455	1	None	MGC13045
11	NUDT22	ENSG00000149761	ENST00000441250	protein_coding	KNOWN	CCDS44640	28189	813	270	63993762	63997479	1	None	MGC13045
11	NUDT22	ENSG00000149761	ENST00000279206	protein_coding	KNOWN	CCDS8061	28189	912	303	63993762	63997488	1	None	MGC13045
11	NUDT22	ENSG00000149761	ENST00000537707	retained_intron	KNOWN	None	28189	None	None	63993772	63994964	1	None	MGC13045
11	NUDT22	ENSG00000149761	ENST00000428347	protein_coding	NOVEL	None	28189	832	276	63994081	63997011	1	None	MGC13045
11	NUDT22	ENSG00000149761	ENST00000537094	retained_intron	KNOWN	None	28189	None	None	63996603	63997488	1	None	MGC13045
11	NUDT22	ENSG00000149761	ENST00000543501	retained_intron	KNOWN	None	28189	None	None	63996735	63997487	1	None	MGC13045
11	NUDT22	ENSG00000149761	ENST00000545184	retained_intron	KNOWN	None	28189	None	None	63996774	63997487	1	None	MGC13045
11	NUDT22	ENSG00000149761	ENST00000534929	nonsense_mediated_decay	KNOWN	None	28189	171	56	63997014	63998158	1	None	MGC13045
17	C17orf112	ENSG00000227011	ENST00000441889	protein_coding	PUTATIVE	CCDS56040	42963	345	114	51062880	51065012	1	None	None
2	HOXD8	ENSG00000175879	ENST00000429017	protein_coding	PUTATIVE	CCDS56149	5139	321	106	176994422	176997375	1	HOX4, HOX4E	None
2	HOXD8	ENSG00000175879	ENST00000313173	protein_coding	KNOWN	CCDS2268	5139	873	290	176994468	176997423	1	HOX4, HOX4E	None
2	HOXD8	ENSG00000175879	ENST00000548663	protein_coding	NOVEL	None	5139	561	186	176995053	176996343	1	HOX4, HOX4E	None
2	HOXD8	ENSG00000175879	ENST00000450510	protein_coding	NOVEL	CCDS56148	5139	870	289	176995085	176996728	1	HOX4, HOX4E	None
2	HOXD8	ENSG00000175879	ENST00000544999	protein_coding	KNOWN	CCDS56148	5139	870	289	176994641	176997076	1	HOX4, HOX4E	None
1	CR1	ENSG00000203710	ENST00000367050	processed_transcript	KNOWN	None	2334	None	None	207669492	207732829	1	None	CD35, KN
1	CR1	ENSG00000203710	ENST00000367052	protein_coding	KNOWN	None	2334	6120	2039	207669502	207813992	1	None	CD35, KN
1	CR1	ENSG00000203710	ENST00000367051	protein_coding	KNOWN	None	2334	6120	2039	207669502	207813992	1	None	CD35, KN
1	CR1	ENSG00000203710	ENST00000367053	protein_coding	KNOWN	None	2334	6120	2039	207669502	207813992	1	None	CD35, KN
1	CR1	ENSG00000203710	ENST00000400960	protein_coding	KNOWN	CCDS44309	2334	6120	2039	207669573	207813553	1	None	CD35, KN
1	CR1	ENSG00000203710	ENST00000530487	retained_intron	KNOWN	None	2334	None	None	207669583	207680955	1	None	CD35, KN
1	CR1	ENSG00000203710	ENST00000534202	protein_coding	NOVEL	None	2334	3453	1150	207669606	207782891	1	None	CD35, KN
1	CR1	ENSG00000203710	ENST00000367049	protein_coding	KNOWN	CCDS44308	2334	7470	2489	207669613	207812754	1	None	CD35, KN
1	CR1	ENSG00000203710	ENST00000434033	retained_intron	KNOWN	None	2334	None	None	207669686	207708340	1	None	CD35, KN
1	CR1	ENSG00000203710	ENST00000450439	retained_intron	KNOWN	None	2334	None	None	207669686	207726895	1	None	CD35, KN
1	CR1	ENSG00000203710	ENST00000436595	retained_intron	KNOWN	None	2334	None	None	207669686	207743990	1	None	CD35, KN
1	CR1	ENSG00000203710	ENST00000529814	protein_coding	NOVEL	None	2334	1981	659	207669686	207803972	1	None	CD35, KN
17	KIF2B	ENSG00000141200	ENST00000268919	protein_coding	KNOWN	CCDS32685	29443	2022	673	51900239	51902573	1	None	None
6	PGC	ENSG00000096088	ENST00000373025	protein_coding	KNOWN	CCDS4859	8890	1167	388	41704449	41715135	-1	None	None
6	PGC	ENSG00000096088	ENST00000356667	protein_coding	NOVEL	None	8890	419	138	41708340	41715133	-1	None	None
6	PGC	ENSG00000096088	ENST00000415707	protein_coding	PUTATIVE	None	8890	258	85	41712217	41721847	-1	None	None
6	PGC	ENSG00000096088	ENST00000425343	protein_coding	KNOWN	CCDS55000	8890	948	315	41708576	41715139	-1	None	None
20	PPP4R1L	ENSG00000124224	ENST00000497138	nonsense_mediated_decay	KNOWN	None	15755	1029	342	56806188	56821300	-1	C20orf192	bA196N14.4, bA196N14.5
20	PPP4R1L	ENSG00000124224	ENST00000457990	protein_coding	PUTATIVE	None	15755	709	235	56807833	56815604	-1	C20orf192	bA196N14.4, bA196N14.5
20	PPP4R1L	ENSG00000124224	ENST00000467784	retained_intron	KNOWN	None	15755	None	None	56807860	56810943	-1	C20orf192	bA196N14.4, bA196N14.5
20	PPP4R1L	ENSG00000124224	ENST00000493688	nonsense_mediated_decay	KNOWN	None	15755	819	272	56812975	56884495	-1	C20orf192	bA196N14.4, bA196N14.5
20	PPP4R1L	ENSG00000124224	ENST00000606437	retained_intron	KNOWN	None	15755	None	None	56814560	56815043	-1	C20orf192	bA196N14.4, bA196N14.5
20	PPP4R1L	ENSG00000124224	ENST00000473210	processed_transcript	KNOWN	None	15755	None	None	56814811	56818761	-1	C20orf192	bA196N14.4, bA196N14.5
20	PPP4R1L	ENSG00000124224	ENST00000495058	retained_intron	KNOWN	None	15755	None	None	56817426	56847881	-1	C20orf192	bA196N14.4, bA196N14.5
20	PPP4R1L	ENSG00000124224	ENST00000475130	processed_transcript	KNOWN	None	15755	None	None	56818592	56884370	-1	C20orf192	bA196N14.4, bA196N14.5
20	PPP4R1L	ENSG00000124224	ENST00000244070	protein_coding	PUTATIVE	None	15755	1161	386	56820802	56884495	-1	C20orf192	bA196N14.4, bA196N14.5
20	PPP4R1L	ENSG00000124224	ENST00000422302	protein_coding	PUTATIVE	None	15755	466	154	56822112	56826822	-1	C20orf192	bA196N14.4, bA196N14.5
20	PPP4R1L	ENSG00000124224	ENST00000462333	processed_transcript	KNOWN	None	15755	None	None	56823178	56884495	-1	C20orf192	bA196N14.4, bA196N14.5
20	PPP4R1L	ENSG00000124224	ENST00000334187	protein_coding	KNOWN	None	15755	1248	415	56807833	56884495	-1	C20orf192	bA196N14.4, bA196N14.5
19	IRF3	ENSG00000126456	ENST00000599680	processed_transcript	KNOWN	None	6118	None	None	50162826	50164781	-1	None	None
19	IRF3	ENSG00000126456	ENST00000309877	protein_coding	KNOWN	CCDS12775	6118	1284	427	50162829	50168426	-1	None	None
19	IRF3	ENSG00000126456	ENST00000600911	protein_coding	PUTATIVE	None	6118	1227	408	50162829	50168488	-1	None	None
19	IRF3	ENSG00000126456	ENST00000596822	protein_coding	PUTATIVE	None	6118	408	135	50162829	50169012	-1	None	None
19	IRF3	ENSG00000126456	ENST00000601291	protein_coding	PUTATIVE	CCDS59409	6118	1359	452	50162829	50169059	-1	None	None
19	IRF3	ENSG00000126456	ENST00000377139	protein_coding	KNOWN	CCDS12775	6118	1284	427	50162829	50169132	-1	None	None
19	IRF3	ENSG00000126456	ENST00000597198	protein_coding	KNOWN	CCDS12775	6118	1284	427	50162830	50169114	-1	None	None
19	IRF3	ENSG00000126456	ENST00000596644	retained_intron	KNOWN	None	6118	None	None	50162832	50164260	-1	None	None
19	IRF3	ENSG00000126456	ENST00000597636	nonsense_mediated_decay	KNOWN	None	6118	990	329	50162832	50169114	-1	None	None
19	IRF3	ENSG00000126456	ENST00000599223	protein_coding	KNOWN	CCDS56099	6118	903	300	50162836	50168962	-1	None	None
19	IRF3	ENSG00000126456	ENST00000593922	protein_coding	PUTATIVE	CCDS59408	6118	846	281	50162836	50168962	-1	None	None
19	IRF3	ENSG00000126456	ENST00000600022	protein_coding	PUTATIVE	CCDS59407	6118	465	154	50162836	50168962	-1	None	None
19	IRF3	ENSG00000126456	ENST00000596765	protein_coding	PUTATIVE	CCDS59407	6118	465	154	50162836	50168962	-1	None	None
19	IRF3	ENSG00000126456	ENST00000599144	protein_coding	PUTATIVE	CCDS59408	6118	846	281	50162836	50168988	-1	None	None
19	IRF3	ENSG00000126456	ENST00000598808	protein_coding	PUTATIVE	CCDS59408	6118	846	281	50162889	50169099	-1	None	None
19	IRF3	ENSG00000126456	ENST00000596756	protein_coding	KNOWN	None	6118	793	263	50163015	50168870	-1	None	None
19	IRF3	ENSG00000126456	ENST00000602190	processed_transcript	KNOWN	None	6118	None	None	50164852	50165586	-1	None	None
19	IRF3	ENSG00000126456	ENST00000598108	protein_coding	KNOWN	None	6118	861	286	50165326	50169036	-1	None	None
19	IRF3	ENSG00000126456	ENST00000595034	protein_coding	PUTATIVE	None	6118	359	118	50165390	50169045	-1	None	None
19	IRF3	ENSG00000126456	ENST00000593818	protein_coding	PUTATIVE	None	6118	317	104	50165432	50169104	-1	None	None
19	IRF3	ENSG00000126456	ENST00000601373	protein_coding	PUTATIVE	None	6118	253	83	50165496	50169041	-1	None	None
19	IRF3	ENSG00000126456	ENST00000593337	protein_coding	PUTATIVE	None	6118	461	152	50165558	50169092	-1	None	None
19	IRF3	ENSG00000126456	ENST00000595240	retained_intron	KNOWN	None	6118	None	None	50165632	50167780	-1	None	None
19	IRF3	ENSG00000126456	ENST00000594387	retained_intron	KNOWN	None	6118	None	None	50165684	50169037	-1	None	None
19	IRF3	ENSG00000126456	ENST00000601809	protein_coding	KNOWN	None	6118	572	189	50165711	50169116	-1	None	None
19	IRF3	ENSG00000126456	ENST00000596788	nonsense_mediated_decay	KNOWN	None	6118	215	70	50165842	50167980	-1	None	None
19	IRF3	ENSG00000126456	ENST00000597369	retained_intron	KNOWN	None	6118	None	None	50166493	50167126	-1	None	None
19	IRF3	ENSG00000126456	ENST00000600453	protein_coding	KNOWN	None	6118	307	101	50166630	50169100	-1	None	None
19	IRF3	ENSG00000126456	ENST00000597180	processed_transcript	KNOWN	None	6118	None	None	50166678	50169011	-1	None	None
19	IRF3	ENSG00000126456	ENST00000377135	protein_coding	KNOWN	CCDS56099	6118	903	300	50162905	50168095	-1	None	None
19	IRF3	ENSG00000126456	ENST00000442265	protein_coding	KNOWN	None	6118	315	104	50165796	50168095	-1	None	None
5	RNA5SP178	ENSG00000222312	ENST00000410380	rRNA	KNOWN	None	43078	None	None	16033338	16033465	-1	RN5S178	None
5	None	ENSG00000250981	ENST00000502834	antisense	KNOWN	None	None	None	None	16129287	16141711	1	None	None
16	None	ENSG00000005189	ENST00000568894	protein_coding	KNOWN	None	None	516	171	20817751	20833124	1	None	None
16	None	ENSG00000005189	ENST00000568046	protein_coding	KNOWN	None	None	307	101	20817767	20826304	1	None	None
16	None	ENSG00000005189	ENST00000566993	nonsense_mediated_decay	KNOWN	None	None	258	85	20817818	20860961	1	None	None
16	None	ENSG00000005189	ENST00000261377	protein_coding	KNOWN	CCDS10591	None	2325	774	20817821	20860987	1	None	None
16	None	ENSG00000005189	ENST00000348433	protein_coding	KNOWN	CCDS45437	None	2232	743	20817843	20860987	1	None	None
16	None	ENSG00000005189	ENST00000568501	protein_coding	PUTATIVE	None	None	236	77	20817849	20833156	1	None	None
16	None	ENSG00000005189	ENST00000566276	protein_coding	PUTATIVE	None	None	638	211	20817874	20838508	1	None	None
16	None	ENSG00000005189	ENST00000568476	processed_transcript	KNOWN	None	None	None	None	20817939	20837219	1	None	None
16	None	ENSG00000005189	ENST00000565340	protein_coding	PUTATIVE	None	None	431	142	20817946	20843521	1	None	None
16	None	ENSG00000005189	ENST00000568647	protein_coding	KNOWN	None	None	485	160	20817979	20833093	1	None	None
16	None	ENSG00000005189	ENST00000566518	nonsense_mediated_decay	KNOWN	None	None	267	88	20817985	20839857	1	None	None
16	None	ENSG00000005189	ENST00000564274	protein_coding	KNOWN	CCDS10591	None	2325	774	20818020	20860802	1	None	None
16	None	ENSG00000005189	ENST00000563068	protein_coding	KNOWN	None	None	317	104	20818030	20826314	1	None	None
16	None	ENSG00000005189	ENST00000567297	processed_transcript	KNOWN	None	None	None	None	20818079	20837228	1	None	None
16	None	ENSG00000005189	ENST00000563617	protein_coding	PUTATIVE	None	None	432	143	20818479	20837193	1	None	None
16	None	ENSG00000005189	ENST00000564200	processed_transcript	KNOWN	None	None	None	None	20832359	20839857	1	None	None
16	None	ENSG00000005189	ENST00000563045	retained_intron	KNOWN	None	None	None	None	20836884	20838508	1	None	None
16	None	ENSG00000005189	ENST00000561474	protein_coding	NOVEL	None	None	617	204	20839846	20856398	1	None	None
16	None	ENSG00000005189	ENST00000568334	retained_intron	KNOWN	None	None	None	None	20851175	20855984	1	None	None
5	None	ENSG00000250448	ENST00000509037	antisense	KNOWN	None	None	None	None	16180347	16185694	1	None	None
15	SPTBN5	ENSG00000137877	ENST00000320955	protein_coding	KNOWN	None	15680	11025	3674	42140345	42186275	-1	None	HUSPECV, BSPECV, HUBSPECV
15	SPTBN5	ENSG00000137877	ENST00000563899	retained_intron	KNOWN	None	15680	None	None	42140569	42142770	-1	None	HUSPECV, BSPECV, HUBSPECV
5	None	ENSG00000248403	ENST00000509572	processed_pseudogene	KNOWN	None	None	None	None	16192197	16192818	-1	None	None
5	None	ENSG00000248150	ENST00000513157	lincRNA	KNOWN	None	None	None	None	16373470	16440190	-1	None	None
2	HOXD3	ENSG00000128652	ENST00000459979	processed_transcript	KNOWN	None	5137	None	None	177001340	177004391	1	HOX4A, HOX4, HOX1D	None
2	HOXD3	ENSG00000128652	ENST00000432796	protein_coding	KNOWN	None	5137	301	99	177001685	177034143	1	HOX4A, HOX4, HOX1D	None
2	HOXD3	ENSG00000128652	ENST00000468418	protein_coding	KNOWN	CCDS2270	5137	1299	432	177015122	177037825	1	HOX4A, HOX4, HOX1D	None
2	HOXD3	ENSG00000128652	ENST00000410016	protein_coding	KNOWN	CCDS2270	5137	1299	432	177025619	177037813	1	HOX4A, HOX4, HOX1D	None
2	HOXD3	ENSG00000128652	ENST00000249440	protein_coding	KNOWN	CCDS2270	5137	1299	432	177028805	177037830	1	HOX4A, HOX4, HOX1D	None
5	None	ENSG00000249737	ENST00000513041	antisense	KNOWN	None	None	None	None	16428645	16432545	1	None	None
5	None	ENSG00000246214	ENST00000499131	antisense	KNOWN	None	None	None	None	16616035	16630078	1	None	None
17	RPTOR	ENSG00000141564	ENST00000574767	nonsense_mediated_decay	KNOWN	None	30287	288	95	78518619	78831924	1	None	KOG1, Mip1, KIAA1303, raptor
17	RPTOR	ENSG00000141564	ENST00000577161	processed_transcript	KNOWN	None	30287	None	None	78518631	78883667	1	None	KOG1, Mip1, KIAA1303, raptor
17	RPTOR	ENSG00000141564	ENST00000570891	protein_coding	KNOWN	None	30287	1140	379	78518677	78797420	1	None	KOG1, Mip1, KIAA1303, raptor
17	RPTOR	ENSG00000141564	ENST00000306801	protein_coding	KNOWN	CCDS11773	30287	4008	1335	78519068	78940168	1	None	KOG1, Mip1, KIAA1303, raptor
17	RPTOR	ENSG00000141564	ENST00000544334	protein_coding	KNOWN	CCDS54175	30287	3534	1177	78519268	78940168	1	None	KOG1, Mip1, KIAA1303, raptor
17	RPTOR	ENSG00000141564	ENST00000573746	processed_transcript	PUTATIVE	None	30287	None	None	78519466	78567605	1	None	KOG1, Mip1, KIAA1303, raptor
17	RPTOR	ENSG00000141564	ENST00000572733	processed_transcript	PUTATIVE	None	30287	None	None	78682733	78727904	1	None	KOG1, Mip1, KIAA1303, raptor
17	RPTOR	ENSG00000141564	ENST00000575542	processed_transcript	KNOWN	None	30287	None	None	78717087	78940171	1	None	KOG1, Mip1, KIAA1303, raptor
17	RPTOR	ENSG00000141564	ENST00000576366	protein_coding	PUTATIVE	None	30287	708	235	78896524	78897972	1	None	KOG1, Mip1, KIAA1303, raptor
17	RPTOR	ENSG00000141564	ENST00000573837	retained_intron	KNOWN	None	30287	None	None	78919367	78923345	1	None	KOG1, Mip1, KIAA1303, raptor
17	RPTOR	ENSG00000141564	ENST00000573163	processed_transcript	KNOWN	None	30287	None	None	78922350	78935244	1	None	KOG1, Mip1, KIAA1303, raptor
17	RPTOR	ENSG00000141564	ENST00000537330	protein_coding	KNOWN	None	30287	990	329	78518619	78831924	1	None	KOG1, Mip1, KIAA1303, raptor
2	HOXD4	ENSG00000170166	ENST00000306324	protein_coding	KNOWN	CCDS2269	5138	768	255	177015950	177017954	1	HOX4B, HOX4	None
2	HOXD1	ENSG00000128645	ENST00000331462	protein_coding	KNOWN	CCDS2271	5132	987	328	177053307	177055688	1	HOX4, HOX4G	None
7	NRCAM	ENSG00000091129	ENST00000522550	processed_transcript	KNOWN	None	7994	None	None	107788068	107797082	-1	None	KIAA0343, Bravo
7	NRCAM	ENSG00000091129	ENST00000351718	protein_coding	KNOWN	CCDS5751	7994	3552	1183	107788107	108096783	-1	None	KIAA0343, Bravo
7	NRCAM	ENSG00000091129	ENST00000379024	protein_coding	NOVEL	CCDS55153	7994	3579	1192	107788562	108096765	-1	None	KIAA0343, Bravo
7	NRCAM	ENSG00000091129	ENST00000425651	protein_coding	KNOWN	CCDS47686	7994	3915	1304	107790355	107880508	-1	None	KIAA0343, Bravo
7	NRCAM	ENSG00000091129	ENST00000445634	protein_coding	NOVEL	None	7994	569	188	107790397	107815802	-1	None	KIAA0343, Bravo
7	NRCAM	ENSG00000091129	ENST00000415105	retained_intron	KNOWN	None	7994	None	None	107790494	107817218	-1	None	KIAA0343, Bravo
7	NRCAM	ENSG00000091129	ENST00000465585	processed_transcript	KNOWN	None	7994	None	None	107796832	107818559	-1	None	KIAA0343, Bravo
7	NRCAM	ENSG00000091129	ENST00000417701	protein_coding	KNOWN	None	7994	1294	430	107838439	107883684	-1	None	KIAA0343, Bravo
7	NRCAM	ENSG00000091129	ENST00000489800	retained_intron	KNOWN	None	7994	None	None	107847672	107850047	-1	None	KIAA0343, Bravo
7	NRCAM	ENSG00000091129	ENST00000442580	protein_coding	KNOWN	None	7994	354	117	107872843	107968932	-1	None	KIAA0343, Bravo
7	NRCAM	ENSG00000091129	ENST00000419936	protein_coding	KNOWN	None	7994	318	105	107872861	107953739	-1	None	KIAA0343, Bravo
7	NRCAM	ENSG00000091129	ENST00000456431	protein_coding	KNOWN	None	7994	318	105	107872861	107969099	-1	None	KIAA0343, Bravo
7	NRCAM	ENSG00000091129	ENST00000418239	protein_coding	KNOWN	None	7994	183	60	107875074	108097161	-1	None	KIAA0343, Bravo
7	NRCAM	ENSG00000091129	ENST00000379028	protein_coding	KNOWN	CCDS47686	7994	3915	1304	107788082	108096826	-1	None	KIAA0343, Bravo
7	NRCAM	ENSG00000091129	ENST00000413765	protein_coding	KNOWN	None	7994	3543	1180	107788082	108096826	-1	None	KIAA0343, Bravo
7	NRCAM	ENSG00000091129	ENST00000379022	protein_coding	KNOWN	None	7994	3711	1236	107791165	108096826	-1	None	KIAA0343, Bravo
3	FAM107A	ENSG00000168309	ENST00000360997	protein_coding	KNOWN	CCDS2892	30827	435	144	58549844	58563491	-1	None	DRR1, TU3A
3	FAM107A	ENSG00000168309	ENST00000394481	protein_coding	KNOWN	CCDS2892	30827	435	144	58549844	58563491	-1	None	DRR1, TU3A
3	FAM107A	ENSG00000168309	ENST00000464064	protein_coding	KNOWN	None	30827	408	135	58551188	58563115	-1	None	DRR1, TU3A
3	FAM107A	ENSG00000168309	ENST00000474531	protein_coding	PUTATIVE	None	30827	528	175	58551188	58613337	-1	None	DRR1, TU3A
3	FAM107A	ENSG00000168309	ENST00000447756	protein_coding	PUTATIVE	None	30827	519	172	58551579	58572840	-1	None	DRR1, TU3A
3	FAM107A	ENSG00000168309	ENST00000465970	protein_coding	KNOWN	None	30827	316	104	58552946	58613337	-1	None	DRR1, TU3A
3	FAM107A	ENSG00000168309	ENST00000497310	processed_transcript	PUTATIVE	None	30827	None	None	58594601	58613147	-1	None	DRR1, TU3A
X	STARD8	ENSG00000130052	ENST00000488088	processed_transcript	KNOWN	None	19161	None	None	67867508	67876393	1	None	KIAA0189, ARHGAP38
X	STARD8	ENSG00000130052	ENST00000523864	nonsense_mediated_decay	KNOWN	None	19161	159	52	67867511	67945684	1	None	KIAA0189, ARHGAP38
X	STARD8	ENSG00000130052	ENST00000374599	protein_coding	KNOWN	CCDS48134	19161	3312	1103	67867610	67945678	1	None	KIAA0189, ARHGAP38
X	STARD8	ENSG00000130052	ENST00000374597	protein_coding	KNOWN	CCDS14390	19161	3072	1023	67913493	67945675	1	None	KIAA0189, ARHGAP38
X	STARD8	ENSG00000130052	ENST00000252336	protein_coding	KNOWN	CCDS14390	19161	3072	1023	67867511	67945682	1	None	KIAA0189, ARHGAP38
X	CXorf24	ENSG00000196741	ENST00000357412	protein_coding	KNOWN	None	27333	285	94	47342970	47344207	1	None	None
X	ARSH	ENSG00000205667	ENST00000381130	protein_coding	KNOWN	CCDS35198	32488	1689	562	2924654	2951612	1	None	None
16	SALL1	ENSG00000103449	ENST00000251020	protein_coding	KNOWN	CCDS10747	10524	3975	1324	51169886	51185186	-1	TBS	Hsal1, ZNF794
16	SALL1	ENSG00000103449	ENST00000566102	protein_coding	NOVEL	None	10524	105	34	51170975	51185152	-1	TBS	Hsal1, ZNF794
16	SALL1	ENSG00000103449	ENST00000570206	protein_coding	KNOWN	None	10524	3464	1153	51171243	51184508	-1	TBS	Hsal1, ZNF794
16	SALL1	ENSG00000103449	ENST00000562674	processed_transcript	KNOWN	None	10524	None	None	51177115	51185278	-1	TBS	Hsal1, ZNF794
16	SALL1	ENSG00000103449	ENST00000541611	protein_coding	KNOWN	None	10524	444	147	51170975	51185152	-1	TBS	Hsal1, ZNF794
16	SALL1	ENSG00000103449	ENST00000440970	protein_coding	KNOWN	CCDS45483	10524	3684	1227	51169886	51184508	-1	TBS	Hsal1, ZNF794
1	KDM4A	ENSG00000066135	ENST00000372396	protein_coding	KNOWN	CCDS491	22978	3195	1064	44115829	44171186	1	JMJD2, JMJD2A	KIAA0677, JHDM3A, TDRD14A
1	KDM4A	ENSG00000066135	ENST00000463151	processed_transcript	KNOWN	None	22978	None	None	44116207	44132692	1	JMJD2, JMJD2A	KIAA0677, JHDM3A, TDRD14A
1	KDM4A	ENSG00000066135	ENST00000485249	processed_transcript	KNOWN	None	22978	None	None	44118977	44132692	1	JMJD2, JMJD2A	KIAA0677, JHDM3A, TDRD14A
1	KDM4A	ENSG00000066135	ENST00000472265	processed_transcript	KNOWN	None	22978	None	None	44131956	44132733	1	JMJD2, JMJD2A	KIAA0677, JHDM3A, TDRD14A
1	KDM4A	ENSG00000066135	ENST00000481296	processed_transcript	KNOWN	None	22978	None	None	44156261	44157949	1	JMJD2, JMJD2A	KIAA0677, JHDM3A, TDRD14A
2	MTX2	ENSG00000128654	ENST00000420864	nonsense_mediated_decay	KNOWN	None	7506	114	37	177134123	177202753	1	None	None
2	MTX2	ENSG00000128654	ENST00000249442	protein_coding	KNOWN	CCDS2272	7506	792	263	177134147	177202753	1	None	None
2	MTX2	ENSG00000128654	ENST00000423461	nonsense_mediated_decay	KNOWN	None	7506	138	45	177134180	177193050	1	None	None
2	MTX2	ENSG00000128654	ENST00000443241	protein_coding	NOVEL	None	7506	624	207	177134198	177202407	1	None	None
2	MTX2	ENSG00000128654	ENST00000452865	protein_coding	NOVEL	None	7506	689	228	177134230	177202358	1	None	None
2	MTX2	ENSG00000128654	ENST00000392529	protein_coding	KNOWN	None	7506	762	253	177134187	177202746	1	None	None
X	ARAF	ENSG00000078061	ENST00000377045	protein_coding	KNOWN	CCDS35232	646	1821	606	47420516	47431299	1	ARAF1	None
X	ARAF	ENSG00000078061	ENST00000377039	protein_coding	KNOWN	CCDS59164	646	561	186	47420621	47425374	1	ARAF1	None
X	ARAF	ENSG00000078061	ENST00000489496	processed_transcript	KNOWN	None	646	None	None	47422451	47424632	1	ARAF1	None
X	ARAF	ENSG00000078061	ENST00000469505	processed_transcript	KNOWN	None	646	None	None	47428858	47429651	1	ARAF1	None
X	ARAF	ENSG00000078061	ENST00000470206	processed_transcript	KNOWN	None	646	None	None	47429385	47431307	1	ARAF1	None
X	ARAF	ENSG00000078061	ENST00000290277	protein_coding	KNOWN	None	646	567	188	47420606	47428267	1	ARAF1	None
5	None	ENSG00000250415	ENST00000504935	lincRNA	KNOWN	None	None	None	None	16617334	16621385	1	None	None
5	None	ENSG00000201370	ENST00000364500	misc_RNA	NOVEL	None	None	None	None	16623113	16623204	-1	None	None
5	RNA5SP179	ENSG00000253093	ENST00000517284	rRNA	KNOWN	None	43079	None	None	16854103	16854223	1	RN5S179	None
5	None	ENSG00000243538	ENST00000470806	processed_pseudogene	KNOWN	None	None	None	None	16902403	16902750	-1	None	None
5	RNU6-660P	ENSG00000201436	ENST00000364566	snRNA	KNOWN	None	47623	None	None	16941952	16942060	-1	None	None
5	None	ENSG00000271892	ENST00000606282	lincRNA	KNOWN	None	None	None	None	17107469	17107898	-1	None	None
X	ARSF	ENSG00000062096	ENST00000381127	protein_coding	KNOWN	CCDS14123	721	1773	590	2959512	3030767	1	None	None
X	ARSF	ENSG00000062096	ENST00000359361	protein_coding	KNOWN	CCDS14123	721	1773	590	2984874	3030747	1	None	None
X	ARSF	ENSG00000062096	ENST00000537104	protein_coding	KNOWN	None	721	1773	590	2976652	3030747	1	None	None
1	CR1L	ENSG00000197721	ENST00000531844	retained_intron	KNOWN	None	2335	None	None	207818458	207857381	1	None	None
1	CR1L	ENSG00000197721	ENST00000508064	protein_coding	KNOWN	CCDS44310	2335	1710	569	207818519	207897048	1	None	None
1	CR1L	ENSG00000197721	ENST00000430248	processed_transcript	KNOWN	None	2335	None	None	207842461	207851612	1	None	None
1	CR1L	ENSG00000197721	ENST00000530905	processed_transcript	KNOWN	None	2335	None	None	207842784	207884163	1	None	None
1	CR1L	ENSG00000197721	ENST00000294997	nonsense_mediated_decay	KNOWN	None	2335	1167	388	207850805	207911761	1	None	None
4	TNIP2	ENSG00000168884	ENST00000510267	protein_coding	KNOWN	CCDS54714	19118	969	322	2743375	2758058	-1	None	ABIN-2, MGC4289, KLIP, FLIP1
4	TNIP2	ENSG00000168884	ENST00000315423	protein_coding	KNOWN	CCDS3362	19118	1290	429	2743387	2758103	-1	None	ABIN-2, MGC4289, KLIP, FLIP1
4	TNIP2	ENSG00000168884	ENST00000503235	protein_coding	NOVEL	None	19118	1041	346	2743425	2758069	-1	None	ABIN-2, MGC4289, KLIP, FLIP1
4	TNIP2	ENSG00000168884	ENST00000502256	retained_intron	KNOWN	None	19118	None	None	2743802	2746590	-1	None	ABIN-2, MGC4289, KLIP, FLIP1
4	TNIP2	ENSG00000168884	ENST00000505186	processed_transcript	KNOWN	None	19118	None	None	2743857	2747885	-1	None	ABIN-2, MGC4289, KLIP, FLIP1
4	TNIP2	ENSG00000168884	ENST00000507686	retained_intron	KNOWN	None	19118	None	None	2747063	2757751	-1	None	ABIN-2, MGC4289, KLIP, FLIP1
4	TNIP2	ENSG00000168884	ENST00000511352	retained_intron	KNOWN	None	19118	None	None	2749177	2757751	-1	None	ABIN-2, MGC4289, KLIP, FLIP1
5	KIAA0825	ENSG00000185261	ENST00000513200	protein_coding	KNOWN	None	28532	3828	1275	93488671	93954276	-1	C5orf36	DKFZp686F0372, MGC34713
5	KIAA0825	ENSG00000185261	ENST00000504117	retained_intron	KNOWN	None	28532	None	None	93748679	93812889	-1	C5orf36	DKFZp686F0372, MGC34713
5	KIAA0825	ENSG00000185261	ENST00000329378	protein_coding	KNOWN	CCDS4070	28532	975	324	93854911	93954302	-1	C5orf36	DKFZp686F0372, MGC34713
5	KIAA0825	ENSG00000185261	ENST00000427991	protein_coding	KNOWN	None	28532	3828	1275	93489712	93872831	-1	C5orf36	DKFZp686F0372, MGC34713
5	KIAA0825	ENSG00000185261	ENST00000312498	protein_coding	KNOWN	None	28532	2817	938	93752766	93954309	-1	C5orf36	DKFZp686F0372, MGC34713
10	TM9SF3	ENSG00000077147	ENST00000371142	protein_coding	KNOWN	CCDS7450	21529	1770	589	98277866	98346809	-1	None	SMBP
10	TM9SF3	ENSG00000077147	ENST00000485093	processed_transcript	KNOWN	None	21529	None	None	98282034	98287930	-1	None	SMBP
10	TM9SF3	ENSG00000077147	ENST00000490192	processed_transcript	KNOWN	None	21529	None	None	98303358	98312700	-1	None	SMBP
10	TM9SF3	ENSG00000077147	ENST00000443638	protein_coding	KNOWN	None	21529	761	252	98311068	98347209	-1	None	SMBP
10	TM9SF3	ENSG00000077147	ENST00000464654	processed_transcript	KNOWN	None	21529	None	None	98312781	98337299	-1	None	SMBP
10	TM9SF3	ENSG00000077147	ENST00000475401	processed_transcript	KNOWN	None	21529	None	None	98336102	98346516	-1	None	SMBP
1	RPRD2	ENSG00000163125	ENST00000492220	processed_transcript	KNOWN	None	29039	None	None	150335567	150446032	1	KIAA0460	FLJ32145, HSPC099
1	RPRD2	ENSG00000163125	ENST00000401000	protein_coding	KNOWN	None	29039	4308	1435	150337126	150449042	1	KIAA0460	FLJ32145, HSPC099
1	RPRD2	ENSG00000163125	ENST00000369067	protein_coding	KNOWN	None	29039	459	152	150337184	150414099	1	KIAA0460	FLJ32145, HSPC099
1	RPRD2	ENSG00000163125	ENST00000369068	protein_coding	KNOWN	CCDS44216	29039	4386	1461	150337187	150446032	1	KIAA0460	FLJ32145, HSPC099
1	RPRD2	ENSG00000163125	ENST00000539519	protein_coding	KNOWN	None	29039	2805	934	150337169	150444519	1	KIAA0460	FLJ32145, HSPC099
8	DKK4	ENSG00000104371	ENST00000220812	protein_coding	KNOWN	CCDS6130	2894	675	224	42231586	42234750	-1	None	None
12	KCNMB4	ENSG00000135643	ENST00000258111	protein_coding	KNOWN	CCDS8997	6289	633	210	70760056	70828072	1	None	None
12	KCNMB4	ENSG00000135643	ENST00000531884	nonsense_mediated_decay	KNOWN	None	6289	134	43	70793990	70824466	1	None	None
14	PSMB5	ENSG00000100804	ENST00000555895	protein_coding	PUTATIVE	None	9542	356	117	23485752	23503936	-1	None	X, MB1
14	PSMB5	ENSG00000100804	ENST00000361611	protein_coding	KNOWN	CCDS9584	9542	792	263	23495060	23504354	-1	None	X, MB1
14	PSMB5	ENSG00000100804	ENST00000493471	protein_coding	KNOWN	CCDS45084	9542	612	203	23495067	23504099	-1	None	X, MB1
14	PSMB5	ENSG00000100804	ENST00000460922	protein_coding	PUTATIVE	None	9542	255	84	23495067	23504103	-1	None	X, MB1
14	PSMB5	ENSG00000100804	ENST00000425762	protein_coding	KNOWN	CCDS45083	9542	483	160	23495111	23504439	-1	None	X, MB1
14	PSMB5	ENSG00000100804	ENST00000334454	nonsense_mediated_decay	KNOWN	None	9542	234	77	23495506	23504094	-1	None	X, MB1
15	USP50	ENSG00000170236	ENST00000532404	protein_coding	KNOWN	CCDS53944	20079	1005	334	50792759	50838896	-1	None	None
15	USP50	ENSG00000170236	ENST00000559105	nonsense_mediated_decay	KNOWN	None	20079	186	61	50792996	50838863	-1	None	None
15	USP50	ENSG00000170236	ENST00000530218	processed_transcript	KNOWN	None	20079	None	None	50793083	50838905	-1	None	None
15	USP50	ENSG00000170236	ENST00000529349	nonsense_mediated_decay	KNOWN	None	20079	258	85	50805607	50831033	-1	None	None
19	GRIK5	ENSG00000105737	ENST00000454993	retained_intron	KNOWN	None	4583	None	None	42502473	42547053	-1	GRIK2	GluK5, KA2
19	GRIK5	ENSG00000105737	ENST00000262895	protein_coding	KNOWN	CCDS12595	4583	2943	980	42502473	42569922	-1	GRIK2	GluK5, KA2
19	GRIK5	ENSG00000105737	ENST00000593562	protein_coding	KNOWN	CCDS12595	4583	2943	980	42502966	42573650	-1	GRIK2	GluK5, KA2
19	GRIK5	ENSG00000105737	ENST00000602210	retained_intron	KNOWN	None	4583	None	None	42503395	42507916	-1	GRIK2	GluK5, KA2
19	GRIK5	ENSG00000105737	ENST00000301218	protein_coding	KNOWN	None	4583	2946	981	42505938	42569957	-1	GRIK2	GluK5, KA2
19	GRIK5	ENSG00000105737	ENST00000594528	nonsense_mediated_decay	KNOWN	None	4583	333	110	42525483	42569957	-1	GRIK2	GluK5, KA2
8	FBXO25	ENSG00000147364	ENST00000518240	protein_coding	KNOWN	None	13596	374	123	356428	385700	1	None	FBX25
8	FBXO25	ENSG00000147364	ENST00000350302	protein_coding	KNOWN	CCDS5952	13596	1077	358	356808	419690	1	None	FBX25
8	FBXO25	ENSG00000147364	ENST00000276326	protein_coding	KNOWN	CCDS5953	13596	1104	367	356955	419873	1	None	FBX25
8	FBXO25	ENSG00000147364	ENST00000382824	protein_coding	KNOWN	CCDS5954	13596	876	291	363072	419055	1	None	FBX25
8	FBXO25	ENSG00000147364	ENST00000524125	processed_transcript	KNOWN	None	13596	None	None	370397	401320	1	None	FBX25
8	FBXO25	ENSG00000147364	ENST00000524015	retained_intron	KNOWN	None	13596	None	None	385448	401380	1	None	FBX25
8	FBXO25	ENSG00000147364	ENST00000519376	processed_transcript	KNOWN	None	13596	None	None	408369	418014	1	None	FBX25
8	FBXO25	ENSG00000147364	ENST00000517464	retained_intron	KNOWN	None	13596	None	None	408510	418180	1	None	FBX25
8	FBXO25	ENSG00000147364	ENST00000519274	nonsense_mediated_decay	KNOWN	None	13596	90	29	418715	421225	1	None	FBX25
8	FBXO25	ENSG00000147364	ENST00000352684	protein_coding	KNOWN	CCDS5954	13596	876	291	356808	419871	1	None	FBX25
4	CLOCK	ENSG00000134852	ENST00000309964	protein_coding	KNOWN	CCDS3500	2082	2541	846	56294070	56376194	-1	None	KIAA0334, KAT13D, bHLHe8
4	CLOCK	ENSG00000134852	ENST00000511124	retained_intron	KNOWN	None	2082	None	None	56298643	56315593	-1	None	KIAA0334, KAT13D, bHLHe8
4	CLOCK	ENSG00000134852	ENST00000381322	protein_coding	NOVEL	CCDS3500	2082	2541	846	56300990	56412099	-1	None	KIAA0334, KAT13D, bHLHe8
4	CLOCK	ENSG00000134852	ENST00000513440	protein_coding	KNOWN	CCDS3500	2082	2541	846	56301189	56413305	-1	None	KIAA0334, KAT13D, bHLHe8
4	CLOCK	ENSG00000134852	ENST00000479384	retained_intron	KNOWN	None	2082	None	None	56308445	56309922	-1	None	KIAA0334, KAT13D, bHLHe8
4	CLOCK	ENSG00000134852	ENST00000506747	retained_intron	KNOWN	None	2082	None	None	56319927	56376233	-1	None	KIAA0334, KAT13D, bHLHe8
4	CLOCK	ENSG00000134852	ENST00000435527	protein_coding	KNOWN	None	2082	546	181	56329865	56412713	-1	None	KIAA0334, KAT13D, bHLHe8
4	CLOCK	ENSG00000134852	ENST00000508049	retained_intron	KNOWN	None	2082	None	None	56336911	56345227	-1	None	KIAA0334, KAT13D, bHLHe8
4	CLOCK	ENSG00000134852	ENST00000506923	processed_transcript	KNOWN	None	2082	None	None	56345014	56413048	-1	None	KIAA0334, KAT13D, bHLHe8
4	CLOCK	ENSG00000134852	ENST00000509151	processed_transcript	KNOWN	None	2082	None	None	56348940	56412822	-1	None	KIAA0334, KAT13D, bHLHe8
4	CLOCK	ENSG00000134852	ENST00000513033	processed_transcript	KNOWN	None	2082	None	None	56352561	56412813	-1	None	KIAA0334, KAT13D, bHLHe8
17	TOM1L1	ENSG00000141198	ENST00000570371	protein_coding	PUTATIVE	None	11983	1041	346	52976748	53014677	1	None	SRCASM
17	TOM1L1	ENSG00000141198	ENST00000574744	processed_transcript	PUTATIVE	None	11983	None	None	52977163	52977870	1	None	SRCASM
17	TOM1L1	ENSG00000141198	ENST00000575882	protein_coding	KNOWN	CCDS11582	11983	1431	476	52977874	53039310	1	None	SRCASM
17	TOM1L1	ENSG00000141198	ENST00000570965	nonsense_mediated_decay	KNOWN	None	11983	117	38	52978083	53007567	1	None	SRCASM
17	TOM1L1	ENSG00000141198	ENST00000445275	protein_coding	NOVEL	None	11983	1398	465	52978113	53039310	1	None	SRCASM
17	TOM1L1	ENSG00000141198	ENST00000348161	protein_coding	PUTATIVE	None	11983	1200	399	52978167	53039083	1	None	SRCASM
17	TOM1L1	ENSG00000141198	ENST00000572405	protein_coding	PUTATIVE	None	11983	678	225	52978195	52994813	1	None	SRCASM
17	TOM1L1	ENSG00000141198	ENST00000576932	nonsense_mediated_decay	KNOWN	None	11983	981	326	52978195	53024672	1	None	SRCASM
17	TOM1L1	ENSG00000141198	ENST00000572158	protein_coding	NOVEL	None	11983	1410	469	52978197	53038675	1	None	SRCASM
17	TOM1L1	ENSG00000141198	ENST00000572298	protein_coding	PUTATIVE	None	11983	320	105	52978214	52992052	1	None	SRCASM
17	TOM1L1	ENSG00000141198	ENST00000536554	protein_coding	PUTATIVE	None	11983	1200	399	52978214	53038836	1	None	SRCASM
17	TOM1L1	ENSG00000141198	ENST00000571319	nonsense_mediated_decay	KNOWN	None	11983	192	63	52978214	53038858	1	None	SRCASM
17	TOM1L1	ENSG00000141198	ENST00000575333	protein_coding	PUTATIVE	None	11983	1041	346	52978218	53015394	1	None	SRCASM
17	TOM1L1	ENSG00000141198	ENST00000572360	nonsense_mediated_decay	KNOWN	None	11983	279	92	52978224	52992066	1	None	SRCASM
17	TOM1L1	ENSG00000141198	ENST00000570499	protein_coding	NOVEL	None	11983	596	197	52978231	52993208	1	None	SRCASM
17	TOM1L1	ENSG00000141198	ENST00000572576	protein_coding	NOVEL	None	11983	754	250	52978238	53014070	1	None	SRCASM
17	TOM1L1	ENSG00000141198	ENST00000573607	protein_coding	PUTATIVE	None	11983	366	121	52978464	52991207	1	None	SRCASM
17	TOM1L1	ENSG00000141198	ENST00000575909	protein_coding	PUTATIVE	None	11983	688	228	52978495	52993221	1	None	SRCASM
17	TOM1L1	ENSG00000141198	ENST00000570977	retained_intron	KNOWN	None	11983	None	None	52991180	53007740	1	None	SRCASM
17	TOM1L1	ENSG00000141198	ENST00000570623	retained_intron	KNOWN	None	11983	None	None	53013774	53014845	1	None	SRCASM
17	TOM1L1	ENSG00000141198	ENST00000572905	retained_intron	KNOWN	None	11983	None	None	53015938	53024714	1	None	SRCASM
17	TOM1L1	ENSG00000141198	ENST00000574653	retained_intron	KNOWN	None	11983	None	None	53016142	53038774	1	None	SRCASM
17	TOM1L1	ENSG00000141198	ENST00000574318	protein_coding	PUTATIVE	None	11983	377	124	53016285	53036855	1	None	SRCASM
17	TOM1L1	ENSG00000141198	ENST00000540336	protein_coding	KNOWN	None	11983	1095	364	52978212	53038858	1	None	SRCASM
4	None	ENSG00000251588	ENST00000508893	processed_pseudogene	KNOWN	None	None	None	None	36507665	36510491	1	None	None
4	None	ENSG00000261761	ENST00000562049	lincRNA	KNOWN	None	None	None	None	37003438	37022330	1	None	None
2	HNRNPA3	ENSG00000170144	ENST00000392524	protein_coding	KNOWN	CCDS2273	24941	1137	378	178077291	178084813	1	HNRPA3	None
2	HNRNPA3	ENSG00000170144	ENST00000411529	protein_coding	KNOWN	None	24941	1071	356	178077477	178088686	1	HNRPA3	None
2	HNRNPA3	ENSG00000170144	ENST00000435711	protein_coding	KNOWN	CCDS2273	24941	1137	378	178077500	178084593	1	HNRPA3	None
2	HNRNPA3	ENSG00000170144	ENST00000432457	protein_coding	PUTATIVE	None	24941	348	115	178081254	178084415	1	HNRPA3	None
2	HNRNPA3	ENSG00000170144	ENST00000483137	retained_intron	KNOWN	None	24941	None	None	178083821	178084534	1	HNRPA3	None
4	None	ENSG00000247810	ENST00000508199	lincRNA	KNOWN	None	None	None	None	37080199	37127046	1	None	None
4	None	ENSG00000247810	ENST00000501725	lincRNA	KNOWN	None	None	None	None	37080204	37112665	1	None	None
6	None	ENSG00000263667	ENST00000580119	lincRNA	KNOWN	None	None	None	None	181466	205484	-1	None	None
6	None	ENSG00000205653	ENST00000381078	lincRNA	KNOWN	None	None	None	None	203313	206392	1	None	None
4	MIR4801	ENSG00000264319	ENST00000582704	miRNA	KNOWN	None	41840	None	None	37243532	37243613	-1	None	hsa-mir-4801
6	None	ENSG00000230433	ENST00000430842	antisense	KNOWN	None	None	None	None	524171	525581	1	None	None
4	None	ENSG00000248936	ENST00000503034	antisense	KNOWN	None	None	None	None	37589709	37590497	-1	None	None
3	ROPN1	ENSG00000065371	ENST00000184183	protein_coding	KNOWN	CCDS3026	17692	639	212	123687368	123710199	-1	None	ODF6, ropporin, ROPN1A, CT91
3	ROPN1	ENSG00000065371	ENST00000405845	protein_coding	KNOWN	CCDS3026	17692	639	212	123687862	123710984	-1	None	ODF6, ropporin, ROPN1A, CT91
3	ROPN1	ENSG00000065371	ENST00000487124	retained_intron	KNOWN	None	17692	None	None	123693393	123710930	-1	None	ODF6, ropporin, ROPN1A, CT91
3	ROPN1	ENSG00000065371	ENST00000467907	protein_coding	KNOWN	None	17692	389	128	123694233	123710893	-1	None	ODF6, ropporin, ROPN1A, CT91
3	ROPN1	ENSG00000065371	ENST00000460743	protein_coding	KNOWN	None	17692	349	115	123694273	123710975	-1	None	ODF6, ropporin, ROPN1A, CT91
3	ROPN1	ENSG00000065371	ENST00000496145	protein_coding	KNOWN	None	17692	233	76	123695712	123711025	-1	None	ODF6, ropporin, ROPN1A, CT91
3	ROPN1	ENSG00000065371	ENST00000459660	protein_coding	PUTATIVE	None	17692	177	58	123697522	123710934	-1	None	ODF6, ropporin, ROPN1A, CT91
3	ROPN1	ENSG00000065371	ENST00000479867	protein_coding	PUTATIVE	None	17692	177	58	123697522	123711005	-1	None	ODF6, ropporin, ROPN1A, CT91
3	ROPN1	ENSG00000065371	ENST00000495093	protein_coding	PUTATIVE	None	17692	177	58	123698264	123710956	-1	None	ODF6, ropporin, ROPN1A, CT91
3	ROPN1	ENSG00000065371	ENST00000484329	protein_coding	PUTATIVE	None	17692	177	58	123699152	123710988	-1	None	ODF6, ropporin, ROPN1A, CT91
4	None	ENSG00000207075	ENST00000384347	misc_RNA	NOVEL	None	None	None	None	37701517	37701624	-1	None	None
6	None	ENSG00000219712	ENST00000407035	processed_pseudogene	KNOWN	None	None	None	None	669081	670307	-1	None	None
4	None	ENSG00000239532	ENST00000493466	processed_pseudogene	KNOWN	None	None	None	None	37822983	37823460	1	None	None
3	WDR6	ENSG00000178252	ENST00000395474	protein_coding	KNOWN	CCDS2782	12758	3456	1151	49044495	49053386	1	None	None
3	WDR6	ENSG00000178252	ENST00000429900	processed_transcript	PUTATIVE	None	12758	None	None	49044786	49049139	1	None	None
3	WDR6	ENSG00000178252	ENST00000488572	nonsense_mediated_decay	KNOWN	None	12758	186	61	49044795	49049796	1	None	None
3	WDR6	ENSG00000178252	ENST00000462064	processed_transcript	KNOWN	None	12758	None	None	49044823	49049398	1	None	None
3	WDR6	ENSG00000178252	ENST00000489684	processed_transcript	KNOWN	None	12758	None	None	49044823	49050783	1	None	None
3	WDR6	ENSG00000178252	ENST00000473238	processed_transcript	KNOWN	None	12758	None	None	49044826	49049398	1	None	None
3	WDR6	ENSG00000178252	ENST00000438660	protein_coding	PUTATIVE	None	12758	813	270	49044826	49049684	1	None	None
3	WDR6	ENSG00000178252	ENST00000415265	protein_coding	NOVEL	None	12758	1710	569	49044829	49052858	1	None	None
3	WDR6	ENSG00000178252	ENST00000452875	nonsense_mediated_decay	KNOWN	None	12758	207	68	49044830	49053022	1	None	None
3	WDR6	ENSG00000178252	ENST00000420783	nonsense_mediated_decay	KNOWN	None	12758	186	61	49044836	49052791	1	None	None
3	WDR6	ENSG00000178252	ENST00000471162	retained_intron	KNOWN	None	12758	None	None	49044836	49052798	1	None	None
3	WDR6	ENSG00000178252	ENST00000472878	processed_transcript	KNOWN	None	12758	None	None	49045041	49049860	1	None	None
3	WDR6	ENSG00000178252	ENST00000448293	protein_coding	NOVEL	None	12758	3213	1070	49045041	49052780	1	None	None
3	WDR6	ENSG00000178252	ENST00000419837	protein_coding	PUTATIVE	None	12758	297	98	49045044	49049342	1	None	None
3	WDR6	ENSG00000178252	ENST00000461687	processed_transcript	KNOWN	None	12758	None	None	49045058	49049867	1	None	None
3	WDR6	ENSG00000178252	ENST00000489427	processed_transcript	KNOWN	None	12758	None	None	49045494	49049495	1	None	None
3	WDR6	ENSG00000178252	ENST00000491365	processed_transcript	KNOWN	None	12758	None	None	49045499	49049225	1	None	None
3	WDR6	ENSG00000178252	ENST00000498023	retained_intron	KNOWN	None	12758	None	None	49051338	49052152	1	None	None
3	WDR6	ENSG00000178252	ENST00000492780	retained_intron	KNOWN	None	12758	None	None	49051672	49052414	1	None	None
4	None	ENSG00000249863	ENST00000509020	processed_pseudogene	KNOWN	None	None	None	None	37869913	37871599	1	None	None
6	None	ENSG00000272463	ENST00000606285	lincRNA	KNOWN	None	None	None	None	708592	711405	-1	None	None
6	None	ENSG00000271727	ENST00000607644	lincRNA	KNOWN	None	None	None	None	711533	750729	1	None	None
5	None	ENSG00000206814	ENST00000384087	misc_RNA	NOVEL	None	None	None	None	17117685	17117795	-1	None	None
6	None	ENSG00000271911	ENST00000607084	lincRNA	KNOWN	None	None	None	None	761675	780648	1	None	None
8	SCARA3	ENSG00000168077	ENST00000337221	protein_coding	KNOWN	CCDS34870	19000	1401	466	27491385	27534293	1	None	CSR1, CSR, MSLR1, APC7, MSRL1
8	SCARA3	ENSG00000168077	ENST00000301904	protein_coding	KNOWN	CCDS34871	19000	1821	606	27491698	27530537	1	None	CSR1, CSR, MSLR1, APC7, MSRL1
5	None	ENSG00000215196	ENST00000399760	antisense	KNOWN	None	None	None	None	17130137	17217156	-1	None	None
6	None	ENSG00000272485	ENST00000606622	lincRNA	KNOWN	None	None	None	None	774747	780214	-1	None	None
5	RNA5SP180	ENSG00000251990	ENST00000516181	rRNA	KNOWN	None	43080	None	None	17157080	17157180	-1	RN5S180	None
6	None	ENSG00000260982	ENST00000569502	lincRNA	KNOWN	None	None	None	None	905462	909594	-1	None	None
5	DCAF13P2	ENSG00000250816	ENST00000514188	processed_pseudogene	KNOWN	None	43867	None	None	17202383	17203254	1	None	None
5	RNU6-1003P	ENSG00000252908	ENST00000517099	snRNA	KNOWN	None	47966	None	None	17240720	17240824	1	None	None
5	None	ENSG00000185296	ENST00000505520	processed_pseudogene	KNOWN	None	None	None	None	17306490	17307069	1	None	None
5	RN7SKP133	ENSG00000201715	ENST00000364845	misc_RNA	KNOWN	None	45857	None	None	17345725	17346064	1	None	None
5	FTH1P10	ENSG00000223361	ENST00000401830	processed_transcript	KNOWN	None	3980	None	None	17353804	17354733	-1	FTHL10	None
5	FTH1P10	ENSG00000223361	ENST00000430907	transcribed_processed_pseudogene	KNOWN	None	3980	None	None	17353984	17354533	-1	FTHL10	None
2	ANTXR1	ENSG00000169604	ENST00000303714	protein_coding	KNOWN	CCDS1892	21014	1695	564	69240310	69476459	1	None	TEM8, FLJ21776, FLJ10601, ATR
2	ANTXR1	ENSG00000169604	ENST00000409829	protein_coding	KNOWN	CCDS46314	21014	1002	333	69240438	69373533	1	None	TEM8, FLJ21776, FLJ10601, ATR
2	ANTXR1	ENSG00000169604	ENST00000463335	retained_intron	KNOWN	None	21014	None	None	69240489	69330564	1	None	TEM8, FLJ21776, FLJ10601, ATR
2	ANTXR1	ENSG00000169604	ENST00000409349	protein_coding	KNOWN	CCDS46313	21014	1107	368	69240529	69399690	1	None	TEM8, FLJ21776, FLJ10601, ATR
2	ANTXR1	ENSG00000169604	ENST00000482235	protein_coding	PUTATIVE	None	21014	539	178	69302735	69362301	1	None	TEM8, FLJ21776, FLJ10601, ATR
2	ANTXR1	ENSG00000169604	ENST00000481119	retained_intron	KNOWN	None	21014	None	None	69304362	69318033	1	None	TEM8, FLJ21776, FLJ10601, ATR
2	ANTXR1	ENSG00000169604	ENST00000497197	retained_intron	KNOWN	None	21014	None	None	69317778	69330179	1	None	TEM8, FLJ21776, FLJ10601, ATR
X	CXorf28	ENSG00000228459	ENST00000457435	protein_coding	KNOWN	None	27336	189	62	3189861	3202694	1	None	None
X	CXorf28	ENSG00000228459	ENST00000420429	protein_coding	KNOWN	None	27336	270	89	3189861	3195134	1	None	None
14	NDRG2	ENSG00000165795	ENST00000298687	protein_coding	KNOWN	CCDS9565	14460	1116	371	21484922	21493935	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000350792	protein_coding	KNOWN	CCDS9564	14460	1074	357	21484922	21493982	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000556716	retained_intron	KNOWN	None	14460	None	None	21484931	21488828	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000557633	protein_coding	PUTATIVE	None	14460	420	139	21484931	21490602	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000554104	protein_coding	PUTATIVE	None	14460	855	284	21484931	21490979	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000555158	protein_coding	KNOWN	CCDS9564	14460	1074	357	21484931	21493185	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000553503	protein_coding	KNOWN	CCDS9564	14460	1074	357	21484931	21493198	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000397853	protein_coding	KNOWN	CCDS9565	14460	1116	371	21484931	21493253	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000360463	protein_coding	KNOWN	CCDS9564	14460	1074	357	21484931	21493978	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000556147	protein_coding	KNOWN	CCDS9565	14460	1116	371	21484932	21493123	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000557353	nonsense_mediated_decay	KNOWN	None	14460	414	137	21484932	21493220	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000554143	protein_coding	KNOWN	CCDS9564	14460	1074	357	21484932	21493264	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000397851	protein_coding	KNOWN	CCDS9565	14460	1116	371	21484932	21493264	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000397847	protein_coding	KNOWN	None	14460	1083	360	21484932	21494007	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000298684	protein_coding	KNOWN	None	14460	987	328	21484970	21491486	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000555650	retained_intron	KNOWN	None	14460	None	None	21484997	21486973	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000397844	protein_coding	KNOWN	None	14460	1026	341	21485010	21493804	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000403829	protein_coding	PUTATIVE	None	14460	1104	367	21485380	21539031	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000553593	protein_coding	PUTATIVE	None	14460	863	286	21485640	21489281	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000553793	retained_intron	KNOWN	None	14460	None	None	21485906	21488450	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000556008	protein_coding	NOVEL	None	14460	902	299	21486151	21493220	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000557416	retained_intron	KNOWN	None	14460	None	None	21486154	21488268	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000556366	protein_coding	PUTATIVE	None	14460	655	217	21486179	21490420	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000556974	protein_coding	NOVEL	None	14460	819	272	21486616	21493911	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000555026	protein_coding	NOVEL	None	14460	819	272	21486616	21516692	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000554277	processed_transcript	KNOWN	None	14460	None	None	21486958	21489990	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000553867	protein_coding	KNOWN	None	14460	756	251	21487280	21493206	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000449431	protein_coding	NOVEL	None	14460	545	180	21487305	21490656	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000557169	protein_coding	KNOWN	None	14460	674	223	21487798	21491651	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000555695	nonsense_mediated_decay	KNOWN	None	14460	411	136	21487798	21492219	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000555869	protein_coding	KNOWN	None	14460	665	220	21487807	21493685	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000557182	protein_coding	NOVEL	None	14460	520	172	21487829	21493220	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000555733	protein_coding	KNOWN	None	14460	657	218	21487857	21493201	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000555384	protein_coding	KNOWN	None	14460	584	193	21488107	21493192	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000554094	protein_coding	KNOWN	None	14460	523	173	21488126	21492113	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000366204	retained_intron	KNOWN	None	14460	None	None	21488279	21489246	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000553741	retained_intron	KNOWN	None	14460	None	None	21488423	21492237	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000557728	retained_intron	KNOWN	None	14460	None	None	21488451	21490392	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000553567	retained_intron	KNOWN	None	14460	None	None	21488522	21489200	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000557305	retained_intron	KNOWN	None	14460	None	None	21488607	21489410	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000557198	retained_intron	KNOWN	None	14460	None	None	21488624	21493220	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000553442	protein_coding	KNOWN	None	14460	502	166	21488666	21493649	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000556420	protein_coding	KNOWN	None	14460	480	159	21488688	21493192	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000553784	protein_coding	KNOWN	None	14460	518	171	21488692	21491899	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000557149	protein_coding	KNOWN	None	14460	460	152	21488708	21492444	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000555142	protein_coding	KNOWN	None	14460	460	152	21488708	21493298	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000555767	nonsense_mediated_decay	KNOWN	None	14460	234	77	21488711	21493688	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000554531	protein_coding	PUTATIVE	None	14460	464	153	21488713	21491311	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000557264	protein_coding	KNOWN	None	14460	450	149	21488718	21492444	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000557676	protein_coding	KNOWN	None	14460	448	148	21488720	21493299	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000556924	protein_coding	KNOWN	None	14460	433	143	21488735	21493448	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000556329	protein_coding	KNOWN	None	14460	426	141	21488943	21493253	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000554379	nonsense_mediated_decay	KNOWN	None	14460	369	122	21488957	21493252	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000554398	protein_coding	KNOWN	None	14460	448	148	21488963	21492255	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000554472	protein_coding	KNOWN	None	14460	444	147	21488967	21492444	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000554483	protein_coding	KNOWN	None	14460	401	132	21488968	21493220	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000555657	protein_coding	KNOWN	None	14460	383	126	21488986	21493173	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000557616	nonsense_mediated_decay	KNOWN	None	14460	369	122	21488986	21493240	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000557274	protein_coding	KNOWN	None	14460	381	126	21488988	21493180	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000556457	protein_coding	KNOWN	None	14460	423	140	21488988	21493691	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000556688	protein_coding	KNOWN	None	14460	422	139	21488989	21493231	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000553862	retained_intron	KNOWN	None	14460	None	None	21489576	21490502	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000557669	retained_intron	KNOWN	None	14460	None	None	21489746	21493891	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000557113	retained_intron	KNOWN	None	14460	None	None	21489835	21492190	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000553900	retained_intron	KNOWN	None	14460	None	None	21489871	21493220	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000557318	retained_intron	KNOWN	None	14460	None	None	21489914	21493227	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000554561	protein_coding	KNOWN	None	14460	360	119	21489981	21492454	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000554419	protein_coding	KNOWN	None	14460	387	128	21489996	21493914	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000553563	protein_coding	NOVEL	None	14460	324	107	21490000	21491681	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000554489	protein_coding	KNOWN	None	14460	325	107	21490016	21493159	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000556561	protein_coding	KNOWN	None	14460	354	117	21490029	21492874	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000554893	protein_coding	KNOWN	None	14460	276	91	21490247	21493192	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000554833	protein_coding	KNOWN	None	14460	297	98	21490268	21493185	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000554415	protein_coding	KNOWN	None	14460	259	85	21490306	21493851	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000557167	retained_intron	KNOWN	None	14460	None	None	21491039	21492443	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000397858	protein_coding	KNOWN	CCDS9565	14460	1116	371	21484923	21493935	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000397856	protein_coding	KNOWN	None	14460	1026	341	21484932	21493219	-1	None	KIAA1248, SYLD
14	NDRG2	ENSG00000165795	ENST00000397855	protein_coding	KNOWN	None	14460	987	328	21484932	21493219	-1	None	KIAA1248, SYLD
15	EHD4	ENSG00000103966	ENST00000220325	protein_coding	KNOWN	CCDS10081	3245	1626	541	42190950	42264776	-1	PAST4	None
15	EHD4	ENSG00000103966	ENST00000569223	retained_intron	KNOWN	None	3245	None	None	42233802	42264750	-1	PAST4	None
8	VDAC3	ENSG00000078668	ENST00000518563	protein_coding	PUTATIVE	None	12674	326	107	42249142	42259404	1	None	HD-VDAC3
8	VDAC3	ENSG00000078668	ENST00000520115	protein_coding	KNOWN	None	12674	495	164	42249364	42259477	1	None	HD-VDAC3
8	VDAC3	ENSG00000078668	ENST00000522069	protein_coding	KNOWN	None	12674	476	157	42249374	42259458	1	None	HD-VDAC3
8	VDAC3	ENSG00000078668	ENST00000522572	protein_coding	NOVEL	None	12674	405	134	42249382	42263267	1	None	HD-VDAC3
8	VDAC3	ENSG00000078668	ENST00000519072	retained_intron	KNOWN	None	12674	None	None	42249405	42255117	1	None	HD-VDAC3
8	VDAC3	ENSG00000078668	ENST00000521348	retained_intron	KNOWN	None	12674	None	None	42249408	42259682	1	None	HD-VDAC3
8	VDAC3	ENSG00000078668	ENST00000518495	nonsense_mediated_decay	KNOWN	None	12674	174	57	42249420	42259419	1	None	HD-VDAC3
8	VDAC3	ENSG00000078668	ENST00000521158	protein_coding	KNOWN	CCDS47850	12674	855	284	42249421	42263006	1	None	HD-VDAC3
8	VDAC3	ENSG00000078668	ENST00000022615	protein_coding	KNOWN	CCDS6131	12674	852	283	42249421	42263415	1	None	HD-VDAC3
8	VDAC3	ENSG00000078668	ENST00000522010	nonsense_mediated_decay	KNOWN	None	12674	303	100	42251728	42260959	1	None	HD-VDAC3
8	VDAC3	ENSG00000078668	ENST00000522178	retained_intron	KNOWN	None	12674	None	None	42257068	42259423	1	None	HD-VDAC3
8	VDAC3	ENSG00000078668	ENST00000524291	retained_intron	KNOWN	None	12674	None	None	42260550	42262933	1	None	HD-VDAC3
8	VDAC3	ENSG00000078668	ENST00000392935	protein_coding	KNOWN	None	12674	855	284	42249346	42263411	1	None	HD-VDAC3
11	DNAJC4	ENSG00000110011	ENST00000321685	protein_coding	KNOWN	CCDS41666	5271	726	241	63997750	64001753	1	HSPF2	MCG18
11	DNAJC4	ENSG00000110011	ENST00000355040	protein_coding	PUTATIVE	None	5271	204	67	63998039	64001656	1	HSPF2	MCG18
11	DNAJC4	ENSG00000110011	ENST00000536006	nonsense_mediated_decay	KNOWN	None	5271	144	47	63998124	64000184	1	HSPF2	MCG18
11	DNAJC4	ENSG00000110011	ENST00000321460	protein_coding	PUTATIVE	None	5271	750	249	63998230	64001753	1	HSPF2	MCG18
11	DNAJC4	ENSG00000110011	ENST00000537109	retained_intron	KNOWN	None	5271	None	None	63999088	64000516	1	HSPF2	MCG18
11	DNAJC4	ENSG00000110011	ENST00000543685	retained_intron	KNOWN	None	5271	None	None	63999273	64000002	1	HSPF2	MCG18
11	DNAJC4	ENSG00000110011	ENST00000543791	retained_intron	KNOWN	None	5271	None	None	63999350	64000356	1	HSPF2	MCG18
11	DNAJC4	ENSG00000110011	ENST00000542376	retained_intron	KNOWN	None	5271	None	None	63999350	64000449	1	HSPF2	MCG18
11	DNAJC4	ENSG00000110011	ENST00000535246	protein_coding	NOVEL	None	5271	502	166	63999364	64001619	1	HSPF2	MCG18
11	DNAJC4	ENSG00000110011	ENST00000538961	retained_intron	KNOWN	None	5271	None	None	63999434	64000518	1	HSPF2	MCG18
11	DNAJC4	ENSG00000110011	ENST00000540945	retained_intron	KNOWN	None	5271	None	None	64000964	64001758	1	HSPF2	MCG18
X	MXRA5	ENSG00000101825	ENST00000217939	protein_coding	KNOWN	CCDS14124	7539	8487	2828	3226606	3264682	-1	None	DKFZp564I1922
3	TADA3	ENSG00000171148	ENST00000301964	protein_coding	KNOWN	CCDS2583	19422	1299	432	9821544	9834431	-1	TADA3L	FLJ20221, FLJ21329, ADA3, hADA3, NGG1
3	TADA3	ENSG00000171148	ENST00000492103	retained_intron	KNOWN	None	19422	None	None	9821651	9829767	-1	TADA3L	FLJ20221, FLJ21329, ADA3, hADA3, NGG1
3	TADA3	ENSG00000171148	ENST00000440161	protein_coding	KNOWN	CCDS2583	19422	1299	432	9821940	9834695	-1	TADA3L	FLJ20221, FLJ21329, ADA3, hADA3, NGG1
3	TADA3	ENSG00000171148	ENST00000343450	protein_coding	KNOWN	CCDS2584	19422	1110	369	9824812	9834420	-1	TADA3L	FLJ20221, FLJ21329, ADA3, hADA3, NGG1
3	TADA3	ENSG00000171148	ENST00000492635	processed_transcript	KNOWN	None	19422	None	None	9831387	9834092	-1	TADA3L	FLJ20221, FLJ21329, ADA3, hADA3, NGG1
3	TADA3	ENSG00000171148	ENST00000439043	protein_coding	KNOWN	None	19422	286	94	9831569	9834467	-1	TADA3L	FLJ20221, FLJ21329, ADA3, hADA3, NGG1
X	SYN1	ENSG00000008056	ENST00000295987	protein_coding	KNOWN	CCDS14280	11494	2118	705	47431303	47479252	-1	None	None
X	SYN1	ENSG00000008056	ENST00000340666	protein_coding	KNOWN	CCDS35233	11494	2010	669	47431303	47479252	-1	None	None
X	PRKX	ENSG00000183943	ENST00000262848	protein_coding	KNOWN	CCDS14125	9441	1077	358	3522411	3631649	-1	None	PKX1
X	PRKX	ENSG00000183943	ENST00000462736	processed_transcript	KNOWN	None	9441	None	None	3526666	3530322	-1	None	PKX1
X	PRKX	ENSG00000183943	ENST00000496648	processed_transcript	KNOWN	None	9441	None	None	3528992	3530296	-1	None	PKX1
X	PRKX	ENSG00000183943	ENST00000425240	processed_transcript	KNOWN	None	9441	None	None	3530351	3588256	-1	None	PKX1
5	None	ENSG00000248223	ENST00000511821	lincRNA	KNOWN	None	None	None	None	17354019	17355008	1	None	None
5	None	ENSG00000249199	ENST00000511182	lincRNA	KNOWN	None	None	None	None	17369334	17375686	-1	None	None
4	GALNTL6	ENSG00000174473	ENST00000511251	protein_coding	PUTATIVE	None	33844	186	61	172733405	172736730	1	None	GALNT17
4	GALNTL6	ENSG00000174473	ENST00000506823	protein_coding	KNOWN	CCDS34104	33844	1806	601	172734654	173962710	1	None	GALNT17
4	GALNTL6	ENSG00000174473	ENST00000504379	processed_transcript	KNOWN	None	33844	None	None	172734674	172737342	1	None	GALNT17
4	GALNTL6	ENSG00000174473	ENST00000513061	processed_transcript	KNOWN	None	33844	None	None	172734674	172737504	1	None	GALNT17
4	GALNTL6	ENSG00000174473	ENST00000508122	protein_coding	PUTATIVE	None	33844	1755	584	172973596	173961251	1	None	GALNT17
4	GALNTL6	ENSG00000174473	ENST00000457021	processed_transcript	KNOWN	None	33844	None	None	173187305	173590358	1	None	GALNT17
14	PSMB11	ENSG00000222028	ENST00000408907	protein_coding	KNOWN	CCDS41923	31963	903	300	23511376	23513269	1	None	beta5t
5	None	ENSG00000250822	ENST00000505158	lincRNA	KNOWN	None	None	None	None	17379015	17387419	-1	None	None
12	PEX5	ENSG00000139197	ENST00000536883	protein_coding	PUTATIVE	None	9719	347	114	7341281	7354391	1	PXR1	PTS1R
12	PEX5	ENSG00000139197	ENST00000542539	protein_coding	KNOWN	None	9719	745	247	7341320	7354939	1	PXR1	PTS1R
12	PEX5	ENSG00000139197	ENST00000455147	protein_coding	KNOWN	CCDS44823	9719	1920	639	7341759	7371167	1	PXR1	PTS1R
12	PEX5	ENSG00000139197	ENST00000540398	protein_coding	KNOWN	None	9719	306	101	7341809	7343944	1	PXR1	PTS1R
12	PEX5	ENSG00000139197	ENST00000266563	protein_coding	KNOWN	CCDS44824	9719	1809	602	7342180	7364079	1	PXR1	PTS1R
12	PEX5	ENSG00000139197	ENST00000543974	protein_coding	PUTATIVE	None	9719	356	117	7342207	7354400	1	PXR1	PTS1R
12	PEX5	ENSG00000139197	ENST00000545220	processed_transcript	KNOWN	None	9719	None	None	7342282	7354932	1	PXR1	PTS1R
12	PEX5	ENSG00000139197	ENST00000434354	protein_coding	KNOWN	CCDS44822	9719	1965	654	7342283	7363027	1	PXR1	PTS1R
12	PEX5	ENSG00000139197	ENST00000544456	protein_coding	KNOWN	None	9719	314	103	7342293	7343952	1	PXR1	PTS1R
12	PEX5	ENSG00000139197	ENST00000545574	protein_coding	NOVEL	None	9719	818	271	7342303	7356146	1	PXR1	PTS1R
12	PEX5	ENSG00000139197	ENST00000420616	protein_coding	KNOWN	CCDS44823	9719	1920	639	7342311	7362858	1	PXR1	PTS1R
12	PEX5	ENSG00000139197	ENST00000412720	protein_coding	PUTATIVE	None	9719	1983	660	7342441	7362852	1	PXR1	PTS1R
12	PEX5	ENSG00000139197	ENST00000396637	protein_coding	KNOWN	None	9719	1231	409	7342552	7361192	1	PXR1	PTS1R
12	PEX5	ENSG00000139197	ENST00000535486	retained_intron	KNOWN	None	9719	None	None	7342685	7343389	1	PXR1	PTS1R
12	PEX5	ENSG00000139197	ENST00000536841	protein_coding	KNOWN	None	9719	342	113	7342749	7344190	1	PXR1	PTS1R
12	PEX5	ENSG00000139197	ENST00000537873	protein_coding	PUTATIVE	None	9719	505	167	7342957	7354387	1	PXR1	PTS1R
12	PEX5	ENSG00000139197	ENST00000266564	protein_coding	KNOWN	CCDS8576	9719	1896	631	7342957	7364076	1	PXR1	PTS1R
12	PEX5	ENSG00000139197	ENST00000545845	protein_coding	PUTATIVE	None	9719	384	127	7343408	7354428	1	PXR1	PTS1R
12	PEX5	ENSG00000139197	ENST00000539304	retained_intron	KNOWN	None	9719	None	None	7344168	7354822	1	PXR1	PTS1R
12	PEX5	ENSG00000139197	ENST00000541850	nonsense_mediated_decay	KNOWN	None	9719	94	30	7362726	7371170	1	PXR1	PTS1R
11	HYLS1	ENSG00000198331	ENST00000356438	protein_coding	KNOWN	CCDS8467	26558	900	299	125753509	125770539	1	None	FLJ32915
11	HYLS1	ENSG00000198331	ENST00000425380	protein_coding	PUTATIVE	CCDS8467	26558	900	299	125756955	125770543	1	None	FLJ32915
11	HYLS1	ENSG00000198331	ENST00000526028	protein_coding	NOVEL	CCDS8467	26558	900	299	125757677	125770512	1	None	FLJ32915
5	None	ENSG00000248455	ENST00000508677	lincRNA	KNOWN	None	None	None	None	17404128	17441803	1	None	None
5	None	ENSG00000248455	ENST00000507730	lincRNA	KNOWN	None	None	None	None	17404255	17441787	1	None	None
5	None	ENSG00000248455	ENST00000505844	lincRNA	KNOWN	None	None	None	None	17436846	17441787	1	None	None
20	RAB22A	ENSG00000124209	ENST00000244040	protein_coding	KNOWN	CCDS33497	9764	585	194	56884752	56942563	1	None	None
20	RAB22A	ENSG00000124209	ENST00000488949	processed_transcript	KNOWN	None	9764	None	None	56884814	56921104	1	None	None
5	None	ENSG00000249662	ENST00000503267	lincRNA	KNOWN	None	None	None	None	17444119	17446039	1	None	None
5	None	ENSG00000249662	ENST00000504998	lincRNA	KNOWN	None	None	None	None	17444119	17484055	1	None	None
6	FBXO9	ENSG00000112146	ENST00000459845	protein_coding	KNOWN	None	13588	146	47	52916789	52938436	1	None	FBX9, NY-REN-57
6	FBXO9	ENSG00000112146	ENST00000498744	protein_coding	KNOWN	None	13588	436	144	52919355	52945896	1	None	FBX9, NY-REN-57
6	FBXO9	ENSG00000112146	ENST00000370939	protein_coding	KNOWN	CCDS55024	13588	1212	403	52929796	52962686	1	None	FBX9, NY-REN-57
6	FBXO9	ENSG00000112146	ENST00000461222	processed_transcript	PUTATIVE	None	13588	None	None	52930246	52932792	1	None	FBX9, NY-REN-57
6	FBXO9	ENSG00000112146	ENST00000323557	protein_coding	KNOWN	CCDS55022	13588	1314	437	52930257	52964401	1	None	FBX9, NY-REN-57
6	FBXO9	ENSG00000112146	ENST00000473337	protein_coding	KNOWN	None	13588	356	117	52930835	52945816	1	None	FBX9, NY-REN-57
6	FBXO9	ENSG00000112146	ENST00000244426	protein_coding	KNOWN	CCDS55023	13588	1344	447	52935650	52965671	1	None	FBX9, NY-REN-57
6	FBXO9	ENSG00000112146	ENST00000468481	retained_intron	KNOWN	None	13588	None	None	52935770	52938562	1	None	FBX9, NY-REN-57
6	FBXO9	ENSG00000112146	ENST00000480463	retained_intron	KNOWN	None	13588	None	None	52938408	52958114	1	None	FBX9, NY-REN-57
6	FBXO9	ENSG00000112146	ENST00000484812	retained_intron	KNOWN	None	13588	None	None	52943663	52957489	1	None	FBX9, NY-REN-57
6	FBXO9	ENSG00000112146	ENST00000474457	retained_intron	KNOWN	None	13588	None	None	52955690	52962702	1	None	FBX9, NY-REN-57
6	FBXO9	ENSG00000112146	ENST00000484436	retained_intron	KNOWN	None	13588	None	None	52958254	52963166	1	None	FBX9, NY-REN-57
6	FBXO9	ENSG00000112146	ENST00000473318	protein_coding	NOVEL	None	13588	574	190	52958275	52962612	1	None	FBX9, NY-REN-57
5	None	ENSG00000251304	ENST00000511360	processed_pseudogene	KNOWN	None	None	None	None	17486340	17486934	1	None	None
5	None	ENSG00000251304	ENST00000595234	processed_pseudogene	KNOWN	None	None	None	None	17486336	17486938	1	None	None
14	SSTR1	ENSG00000139874	ENST00000267377	protein_coding	KNOWN	CCDS9666	11330	1176	391	38677204	38682272	1	None	None
17	GSDMB	ENSG00000073605	ENST00000479136	retained_intron	KNOWN	None	23690	None	None	38060848	38063992	-1	GSDML	PRO2521
17	GSDMB	ENSG00000073605	ENST00000360317	protein_coding	KNOWN	CCDS54120	23690	1251	416	38060848	38073569	-1	GSDML	PRO2521
17	GSDMB	ENSG00000073605	ENST00000394175	protein_coding	KNOWN	CCDS11354	23690	1185	394	38060848	38073793	-1	GSDML	PRO2521
17	GSDMB	ENSG00000073605	ENST00000309481	protein_coding	KNOWN	CCDS42313	23690	1212	403	38060848	38074843	-1	GSDML	PRO2521
17	GSDMB	ENSG00000073605	ENST00000477054	retained_intron	KNOWN	None	23690	None	None	38060849	38076107	-1	GSDML	PRO2521
17	GSDMB	ENSG00000073605	ENST00000520542	protein_coding	KNOWN	CCDS54119	23690	1224	407	38060850	38074888	-1	GSDML	PRO2521
17	GSDMB	ENSG00000073605	ENST00000523371	nonsense_mediated_decay	KNOWN	None	23690	603	200	38061065	38073569	-1	GSDML	PRO2521
17	GSDMB	ENSG00000073605	ENST00000522564	nonsense_mediated_decay	KNOWN	None	23690	552	183	38061065	38073569	-1	GSDML	PRO2521
17	GSDMB	ENSG00000073605	ENST00000524039	nonsense_mediated_decay	KNOWN	None	23690	612	203	38061065	38073569	-1	GSDML	PRO2521
17	GSDMB	ENSG00000073605	ENST00000486560	retained_intron	KNOWN	None	23690	None	None	38061524	38062191	-1	GSDML	PRO2521
17	GSDMB	ENSG00000073605	ENST00000468820	nonsense_mediated_decay	KNOWN	None	23690	223	73	38062218	38068596	-1	GSDML	PRO2521
17	GSDMB	ENSG00000073605	ENST00000519429	retained_intron	KNOWN	None	23690	None	None	38062448	38063752	-1	GSDML	PRO2521
17	GSDMB	ENSG00000073605	ENST00000464556	retained_intron	KNOWN	None	23690	None	None	38065706	38073400	-1	GSDML	PRO2521
17	GSDMB	ENSG00000073605	ENST00000418519	protein_coding	KNOWN	CCDS54120	23690	1251	416	38060850	38074903	-1	GSDML	PRO2521
17	GSDMB	ENSG00000073605	ENST00000394179	protein_coding	KNOWN	None	23690	1236	411	38060850	38074903	-1	GSDML	PRO2521
14	CLEC14A	ENSG00000176435	ENST00000342213	protein_coding	KNOWN	CCDS9667	19832	1473	490	38723308	38725574	-1	C14orf27	None
4	None	ENSG00000227325	ENST00000455272	pseudogene	NOVEL	None	None	None	None	37962056	37962665	1	None	None
4	None	ENSG00000251332	ENST00000505310	processed_pseudogene	KNOWN	None	None	None	None	37997115	37997824	-1	None	None
4	MRPS33P2	ENSG00000249649	ENST00000507850	processed_pseudogene	KNOWN	None	29765	None	None	38008405	38008726	-1	None	None
4	None	ENSG00000221495	ENST00000408568	miRNA	NOVEL	None	None	None	None	38240234	38240317	1	None	None
2	NFE2L2	ENSG00000116044	ENST00000458603	protein_coding	PUTATIVE	None	7782	144	47	178092323	178097215	-1	None	NRF2
2	NFE2L2	ENSG00000116044	ENST00000397063	protein_coding	KNOWN	CCDS46457	7782	1770	589	178095033	178128528	-1	None	NRF2
2	NFE2L2	ENSG00000116044	ENST00000397062	protein_coding	KNOWN	CCDS42782	7782	1818	605	178095033	178129859	-1	None	NRF2
2	NFE2L2	ENSG00000116044	ENST00000446151	protein_coding	NOVEL	CCDS46458	7782	1749	582	178095036	178128300	-1	None	NRF2
2	NFE2L2	ENSG00000116044	ENST00000464747	protein_coding	KNOWN	CCDS46457	7782	1770	589	178095036	178257425	-1	None	NRF2
2	NFE2L2	ENSG00000116044	ENST00000449627	protein_coding	NOVEL	None	7782	797	264	178095718	178128239	-1	None	NRF2
2	NFE2L2	ENSG00000116044	ENST00000448782	protein_coding	KNOWN	None	7782	841	279	178096442	178128295	-1	None	NRF2
2	NFE2L2	ENSG00000116044	ENST00000430047	protein_coding	NOVEL	None	7782	204	67	178096518	178129551	-1	None	NRF2
2	NFE2L2	ENSG00000116044	ENST00000586532	protein_coding	PUTATIVE	None	7782	795	264	178096533	178176005	-1	None	NRF2
2	NFE2L2	ENSG00000116044	ENST00000421929	protein_coding	KNOWN	None	7782	704	233	178096579	178128528	-1	None	NRF2
2	NFE2L2	ENSG00000116044	ENST00000423513	protein_coding	PUTATIVE	None	7782	426	141	178097005	178128182	-1	None	NRF2
2	NFE2L2	ENSG00000116044	ENST00000588123	protein_coding	KNOWN	None	7782	439	145	178097227	178152505	-1	None	NRF2
2	NFE2L2	ENSG00000116044	ENST00000477534	retained_intron	KNOWN	None	7782	None	None	178098205	178128265	-1	None	NRF2
2	NFE2L2	ENSG00000116044	ENST00000462023	retained_intron	KNOWN	None	7782	None	None	178098607	178129387	-1	None	NRF2
19	None	ENSG00000263264	ENST00000576789	protein_coding	NOVEL	None	None	1149	382	7413848	7448271	1	None	None
4	None	ENSG00000251642	ENST00000506010	lincRNA	KNOWN	None	None	None	None	38288615	38289112	1	None	None
4	None	ENSG00000248227	ENST00000503465	lincRNA	KNOWN	None	None	None	None	38368535	38387380	1	None	None
3	FAM3D	ENSG00000198643	ENST00000358781	protein_coding	KNOWN	CCDS2893	18665	675	224	58619673	58652575	-1	None	EF7, OIT1
3	FAM3D	ENSG00000198643	ENST00000483787	protein_coding	NOVEL	None	18665	454	150	58622869	58643493	-1	None	EF7, OIT1
3	FAM3D	ENSG00000198643	ENST00000489857	protein_coding	NOVEL	None	18665	336	111	58622879	58652561	-1	None	EF7, OIT1
3	FAM3D	ENSG00000198643	ENST00000482623	nonsense_mediated_decay	KNOWN	None	18665	120	39	58622882	58643423	-1	None	EF7, OIT1
3	FAM3D	ENSG00000198643	ENST00000498347	protein_coding	KNOWN	None	18665	308	101	58629403	58643475	-1	None	EF7, OIT1
4	None	ENSG00000249534	ENST00000512517	lincRNA	KNOWN	None	None	None	None	38422283	38524801	-1	None	None
X	None	ENSG00000205664	ENST00000461011	processed_transcript	KNOWN	None	None	None	None	3735569	3740612	-1	None	None
X	None	ENSG00000205664	ENST00000469903	processed_transcript	KNOWN	None	None	None	None	3735569	3743244	-1	None	None
X	None	ENSG00000205664	ENST00000483854	processed_transcript	KNOWN	None	None	None	None	3735569	3746900	-1	None	None
X	None	ENSG00000205664	ENST00000475317	processed_transcript	KNOWN	None	None	None	None	3735569	3746991	-1	None	None
X	None	ENSG00000205664	ENST00000425492	protein_coding	PUTATIVE	None	None	234	77	3735569	3761898	-1	None	None
X	None	ENSG00000205664	ENST00000471090	processed_transcript	KNOWN	None	None	None	None	3735576	3742639	-1	None	None
X	None	ENSG00000205664	ENST00000486571	processed_transcript	KNOWN	None	None	None	None	3739722	3746638	-1	None	None
X	None	ENSG00000205664	ENST00000490920	processed_transcript	KNOWN	None	None	None	None	3746934	3761607	-1	None	None
1	TARS2	ENSG00000143374	ENST00000369054	protein_coding	KNOWN	None	30740	1767	588	150459890	150479734	1	TARSL1	FLJ12528
1	TARS2	ENSG00000143374	ENST00000369064	protein_coding	KNOWN	CCDS952	30740	2157	718	150459893	150480078	1	TARSL1	FLJ12528
1	TARS2	ENSG00000143374	ENST00000606933	protein_coding	KNOWN	None	30740	1911	636	150459896	150479760	1	TARSL1	FLJ12528
1	TARS2	ENSG00000143374	ENST00000369053	retained_intron	KNOWN	None	30740	None	None	150459907	150461784	1	TARSL1	FLJ12528
1	TARS2	ENSG00000143374	ENST00000369051	nonsense_mediated_decay	KNOWN	None	30740	408	135	150459911	150480074	1	TARSL1	FLJ12528
1	TARS2	ENSG00000143374	ENST00000479372	retained_intron	KNOWN	None	30740	None	None	150459918	150461108	1	TARSL1	FLJ12528
1	TARS2	ENSG00000143374	ENST00000467982	nonsense_mediated_decay	KNOWN	None	30740	432	143	150460346	150479659	1	TARSL1	FLJ12528
1	TARS2	ENSG00000143374	ENST00000466989	retained_intron	KNOWN	None	30740	None	None	150460467	150464194	1	TARSL1	FLJ12528
1	TARS2	ENSG00000143374	ENST00000480070	processed_transcript	KNOWN	None	30740	None	None	150463934	150476912	1	TARSL1	FLJ12528
1	TARS2	ENSG00000143374	ENST00000463555	processed_transcript	KNOWN	None	30740	None	None	150464065	150476912	1	TARSL1	FLJ12528
1	TARS2	ENSG00000143374	ENST00000460794	retained_intron	KNOWN	None	30740	None	None	150464466	150470073	1	TARSL1	FLJ12528
1	TARS2	ENSG00000143374	ENST00000462578	retained_intron	KNOWN	None	30740	None	None	150464661	150470063	1	TARSL1	FLJ12528
1	TARS2	ENSG00000143374	ENST00000483046	processed_transcript	KNOWN	None	30740	None	None	150476809	150479411	1	TARSL1	FLJ12528
1	TARS2	ENSG00000143374	ENST00000438568	protein_coding	KNOWN	None	30740	510	169	150459887	150471711	1	TARSL1	FLJ12528
19	None	ENSG00000268861	ENST00000593531	protein_coding	PUTATIVE	None	None	3342	1113	7445850	7535131	1	None	None
14	CDH24	ENSG00000139880	ENST00000485922	processed_transcript	KNOWN	None	14265	None	None	23516279	23519348	-1	None	CDH11L
14	CDH24	ENSG00000139880	ENST00000554034	protein_coding	KNOWN	CCDS9586	14265	2346	781	23516869	23525035	-1	None	CDH11L
14	CDH24	ENSG00000139880	ENST00000267383	protein_coding	KNOWN	CCDS9585	14265	2460	819	23516869	23525035	-1	None	CDH11L
14	CDH24	ENSG00000139880	ENST00000397359	protein_coding	KNOWN	CCDS9585	14265	2460	819	23516271	23526747	-1	None	CDH11L
14	CDH24	ENSG00000139880	ENST00000487137	protein_coding	KNOWN	CCDS9586	14265	2346	781	23516271	23526747	-1	None	CDH11L
5	None	ENSG00000268799	ENST00000600799	processed_pseudogene	KNOWN	None	None	None	None	17491470	17491878	-1	None	None
5	None	ENSG00000268799	ENST00000594062	processed_pseudogene	KNOWN	None	None	None	None	17491470	17491877	-1	None	None
17	ELP5	ENSG00000170291	ENST00000573699	protein_coding	KNOWN	None	30617	629	208	7154735	7160347	1	C17orf81	DERP6
17	ELP5	ENSG00000170291	ENST00000573513	protein_coding	KNOWN	None	30617	691	229	7155343	7161958	1	C17orf81	DERP6
17	ELP5	ENSG00000170291	ENST00000574255	protein_coding	KNOWN	None	30617	540	179	7155375	7158232	1	C17orf81	DERP6
17	ELP5	ENSG00000170291	ENST00000396627	protein_coding	KNOWN	CCDS11094	30617	951	316	7155551	7163259	1	C17orf81	DERP6
17	ELP5	ENSG00000170291	ENST00000570500	protein_coding	KNOWN	None	30617	287	94	7155556	7157952	1	C17orf81	DERP6
17	ELP5	ENSG00000170291	ENST00000574993	protein_coding	KNOWN	CCDS11095	30617	840	279	7155605	7163259	1	C17orf81	DERP6
17	ELP5	ENSG00000170291	ENST00000396628	protein_coding	KNOWN	CCDS11094	30617	951	316	7155605	7163259	1	C17orf81	DERP6
17	ELP5	ENSG00000170291	ENST00000573657	protein_coding	KNOWN	None	30617	540	179	7155695	7158225	1	C17orf81	DERP6
17	ELP5	ENSG00000170291	ENST00000570322	protein_coding	PUTATIVE	None	30617	737	244	7155844	7163259	1	C17orf81	DERP6
17	ELP5	ENSG00000170291	ENST00000576496	protein_coding	PUTATIVE	None	30617	788	261	7155874	7162398	1	C17orf81	DERP6
17	ELP5	ENSG00000170291	ENST00000574841	protein_coding	PUTATIVE	None	30617	130	42	7155942	7158122	1	C17orf81	DERP6
17	ELP5	ENSG00000170291	ENST00000571146	nonsense_mediated_decay	KNOWN	None	30617	354	117	7156088	7162287	1	C17orf81	DERP6
17	ELP5	ENSG00000170291	ENST00000572104	protein_coding	PUTATIVE	None	30617	325	107	7157902	7162101	1	C17orf81	DERP6
17	ELP5	ENSG00000170291	ENST00000354429	protein_coding	KNOWN	CCDS11094	30617	951	316	7155372	7163250	1	C17orf81	DERP6
17	ELP5	ENSG00000170291	ENST00000356683	protein_coding	KNOWN	CCDS11095	30617	840	279	7155551	7163250	1	C17orf81	DERP6
2	GFPT1	ENSG00000198380	ENST00000361060	protein_coding	KNOWN	CCDS33216	4241	2046	681	69552403	69614380	-1	GFPT	GFAT, GFA, GFAT1
2	GFPT1	ENSG00000198380	ENST00000493759	processed_transcript	KNOWN	None	4241	None	None	69577230	69590724	-1	GFPT	GFAT, GFA, GFAT1
2	GFPT1	ENSG00000198380	ENST00000494201	processed_transcript	KNOWN	None	4241	None	None	69590743	69614382	-1	GFPT	GFAT, GFA, GFAT1
2	GFPT1	ENSG00000198380	ENST00000357308	protein_coding	KNOWN	CCDS58713	4241	2100	699	69546905	69614382	-1	GFPT	GFAT, GFA, GFAT1
17	SMCR8	ENSG00000176994	ENST00000406438	protein_coding	KNOWN	CCDS11195	17921	2814	937	18218624	18226517	1	None	FLJ34716
5	ANKRD32	ENSG00000133302	ENST00000265140	protein_coding	KNOWN	CCDS4071	25408	3177	1058	93954052	94033326	1	BRCTD1	DKFZp761C121, DKFZp564C0469
5	ANKRD32	ENSG00000133302	ENST00000508130	nonsense_mediated_decay	KNOWN	None	25408	540	179	93954383	93990456	1	BRCTD1	DKFZp761C121, DKFZp564C0469
5	ANKRD32	ENSG00000133302	ENST00000508383	processed_transcript	KNOWN	None	25408	None	None	93954390	93965425	1	BRCTD1	DKFZp761C121, DKFZp564C0469
5	ANKRD32	ENSG00000133302	ENST00000504099	protein_coding	KNOWN	None	25408	392	129	93954392	93966409	1	BRCTD1	DKFZp761C121, DKFZp564C0469
5	ANKRD32	ENSG00000133302	ENST00000466957	nonsense_mediated_decay	KNOWN	None	25408	388	128	93964587	94001631	1	BRCTD1	DKFZp761C121, DKFZp564C0469
5	ANKRD32	ENSG00000133302	ENST00000450932	retained_intron	KNOWN	None	25408	None	None	94014104	94031576	1	BRCTD1	DKFZp761C121, DKFZp564C0469
5	ANKRD32	ENSG00000133302	ENST00000475916	retained_intron	KNOWN	None	25408	None	None	94026900	94027885	1	BRCTD1	DKFZp761C121, DKFZp564C0469
5	ANKRD32	ENSG00000133302	ENST00000493934	processed_transcript	KNOWN	None	25408	None	None	94027891	94075141	1	BRCTD1	DKFZp761C121, DKFZp564C0469
7	GATSL2	ENSG00000198750	ENST00000426327	protein_coding	KNOWN	CCDS47616	37073	990	329	74807499	74867509	-1	None	None
7	GATSL2	ENSG00000198750	ENST00000332301	retained_intron	KNOWN	None	37073	None	None	74810297	74824359	-1	None	None
3	PBRM1	ENSG00000163939	ENST00000356770	protein_coding	KNOWN	None	30064	4809	1602	52579368	52713730	-1	None	BAF180, PB1
3	PBRM1	ENSG00000163939	ENST00000394830	protein_coding	KNOWN	CCDS43099	30064	4749	1582	52581857	52719852	-1	None	BAF180, PB1
3	PBRM1	ENSG00000163939	ENST00000296302	protein_coding	KNOWN	None	30064	5070	1689	52582006	52713729	-1	None	BAF180, PB1
3	PBRM1	ENSG00000163939	ENST00000337303	protein_coding	KNOWN	None	30064	4749	1582	52582006	52713730	-1	None	BAF180, PB1
3	PBRM1	ENSG00000163939	ENST00000412587	nonsense_mediated_decay	KNOWN	None	30064	2571	856	52582006	52713730	-1	None	BAF180, PB1
3	PBRM1	ENSG00000163939	ENST00000409057	protein_coding	KNOWN	None	30064	4905	1634	52582007	52713730	-1	None	BAF180, PB1
3	PBRM1	ENSG00000163939	ENST00000410007	protein_coding	NOVEL	None	30064	4830	1609	52582007	52713730	-1	None	BAF180, PB1
3	PBRM1	ENSG00000163939	ENST00000409114	protein_coding	NOVEL	None	30064	4959	1652	52582026	52713730	-1	None	BAF180, PB1
3	PBRM1	ENSG00000163939	ENST00000409767	protein_coding	NOVEL	None	30064	4794	1597	52582027	52713730	-1	None	BAF180, PB1
3	PBRM1	ENSG00000163939	ENST00000423351	protein_coding	NOVEL	None	30064	4382	1459	52588799	52713730	-1	None	BAF180, PB1
3	PBRM1	ENSG00000163939	ENST00000462207	retained_intron	KNOWN	None	30064	None	None	52619489	52643477	-1	None	BAF180, PB1
3	PBRM1	ENSG00000163939	ENST00000446103	protein_coding	NOVEL	None	30064	3256	1084	52620446	52712583	-1	None	BAF180, PB1
3	PBRM1	ENSG00000163939	ENST00000480064	retained_intron	KNOWN	None	30064	None	None	52643102	52649415	-1	None	BAF180, PB1
3	PBRM1	ENSG00000163939	ENST00000431678	protein_coding	KNOWN	None	30064	692	229	52685780	52719866	-1	None	BAF180, PB1
3	PBRM1	ENSG00000163939	ENST00000420148	protein_coding	KNOWN	None	30064	457	151	52696220	52719933	-1	None	BAF180, PB1
3	PBRM1	ENSG00000163939	ENST00000449505	protein_coding	KNOWN	None	30064	355	117	52702543	52719598	-1	None	BAF180, PB1
3	PBRM1	ENSG00000163939	ENST00000450271	protein_coding	KNOWN	None	30064	261	86	52702637	52719866	-1	None	BAF180, PB1
3	PBRM1	ENSG00000163939	ENST00000439181	protein_coding	KNOWN	None	30064	130	42	52713598	52719594	-1	None	BAF180, PB1
3	PBRM1	ENSG00000163939	ENST00000458294	protein_coding	KNOWN	None	30064	129	42	52713599	52719898	-1	None	BAF180, PB1
3	PBRM1	ENSG00000163939	ENST00000424867	protein_coding	KNOWN	None	30064	78	25	52713650	52719810	-1	None	BAF180, PB1
6	None	ENSG00000229796	ENST00000434292	lincRNA	KNOWN	None	None	None	None	958563	962511	-1	None	None
19	ARHGEF18	ENSG00000104880	ENST00000319670	protein_coding	KNOWN	CCDS12177	17090	3048	1015	7459999	7537363	1	None	P114-RhoGEF, KIAA0521, MGC15913
19	ARHGEF18	ENSG00000104880	ENST00000599752	protein_coding	KNOWN	None	17090	260	85	7460038	7506876	1	None	P114-RhoGEF, KIAA0521, MGC15913
19	ARHGEF18	ENSG00000104880	ENST00000359920	protein_coding	KNOWN	CCDS45946	17090	3522	1173	7504574	7537363	1	None	P114-RhoGEF, KIAA0521, MGC15913
19	ARHGEF18	ENSG00000104880	ENST00000595600	retained_intron	KNOWN	None	17090	None	None	7506605	7509315	1	None	P114-RhoGEF, KIAA0521, MGC15913
19	ARHGEF18	ENSG00000104880	ENST00000594665	protein_coding	NOVEL	None	17090	2437	811	7511949	7537363	1	None	P114-RhoGEF, KIAA0521, MGC15913
5	None	ENSG00000250667	ENST00000505444	processed_pseudogene	KNOWN	None	None	None	None	17495767	17495935	-1	None	None
14	SEC23A	ENSG00000100934	ENST00000554615	retained_intron	KNOWN	None	10701	None	None	39501123	39510637	-1	None	None
14	SEC23A	ENSG00000100934	ENST00000537403	protein_coding	NOVEL	None	10701	1692	563	39501123	39557927	-1	None	None
14	SEC23A	ENSG00000100934	ENST00000307712	protein_coding	KNOWN	CCDS9668	10701	2298	765	39501124	39572732	-1	None	None
14	SEC23A	ENSG00000100934	ENST00000545328	protein_coding	NOVEL	None	10701	2211	736	39502145	39572439	-1	None	None
14	SEC23A	ENSG00000100934	ENST00000555363	retained_intron	KNOWN	None	10701	None	None	39502408	39510448	-1	None	None
14	SEC23A	ENSG00000100934	ENST00000553925	processed_transcript	PUTATIVE	None	10701	None	None	39533753	39536415	-1	None	None
14	SEC23A	ENSG00000100934	ENST00000555682	processed_transcript	PUTATIVE	None	10701	None	None	39560574	39561798	-1	None	None
14	SEC23A	ENSG00000100934	ENST00000555017	protein_coding	KNOWN	None	10701	507	168	39560777	39572856	-1	None	None
14	SEC23A	ENSG00000100934	ENST00000556092	protein_coding	KNOWN	None	10701	422	139	39560862	39572437	-1	None	None
14	SEC23A	ENSG00000100934	ENST00000548032	protein_coding	PUTATIVE	None	10701	327	108	39561965	39572416	-1	None	None
14	SEC23A	ENSG00000100934	ENST00000555425	protein_coding	KNOWN	None	10701	281	92	39562389	39578850	-1	None	None
14	SEC23A	ENSG00000100934	ENST00000557280	protein_coding	PUTATIVE	None	10701	258	85	39564102	39572437	-1	None	None
14	SEC23A	ENSG00000100934	ENST00000553970	protein_coding	PUTATIVE	None	10701	261	86	39564102	39572447	-1	None	None
14	SEC23A	ENSG00000100934	ENST00000557437	protein_coding	KNOWN	None	10701	120	39	39565203	39573033	-1	None	None
14	SEC23A	ENSG00000100934	ENST00000536508	protein_coding	KNOWN	None	10701	1992	663	39501951	39572279	-1	None	None
5	None	ENSG00000185041	ENST00000503531	processed_pseudogene	KNOWN	None	None	None	None	17498340	17498934	1	None	None
5	None	ENSG00000185041	ENST00000330110	processed_pseudogene	KNOWN	None	None	None	None	17498334	17498936	1	None	None
X	NLGN4X	ENSG00000146938	ENST00000477079	processed_transcript	KNOWN	None	14287	None	None	5758678	5821394	-1	NLGN4	KIAA1260, NLGN, HLNX
X	NLGN4X	ENSG00000146938	ENST00000381095	protein_coding	KNOWN	CCDS14126	14287	2451	816	5808067	6146904	-1	NLGN4	KIAA1260, NLGN, HLNX
X	NLGN4X	ENSG00000146938	ENST00000275857	protein_coding	KNOWN	CCDS14126	14287	2451	816	5808319	6145888	-1	NLGN4	KIAA1260, NLGN, HLNX
X	NLGN4X	ENSG00000146938	ENST00000381092	protein_coding	KNOWN	CCDS14126	14287	2451	816	5810246	6146656	-1	NLGN4	KIAA1260, NLGN, HLNX
X	NLGN4X	ENSG00000146938	ENST00000469740	processed_transcript	KNOWN	None	14287	None	None	6069050	6144806	-1	NLGN4	KIAA1260, NLGN, HLNX
X	NLGN4X	ENSG00000146938	ENST00000483337	processed_transcript	KNOWN	None	14287	None	None	6069331	6105079	-1	NLGN4	KIAA1260, NLGN, HLNX
X	NLGN4X	ENSG00000146938	ENST00000381093	protein_coding	KNOWN	None	14287	2511	836	5808085	6145888	-1	NLGN4	KIAA1260, NLGN, HLNX
X	NLGN4X	ENSG00000146938	ENST00000538097	protein_coding	KNOWN	CCDS14126	14287	2451	816	5810559	6145116	-1	NLGN4	KIAA1260, NLGN, HLNX
2	AGPS	ENSG00000018510	ENST00000264167	protein_coding	KNOWN	CCDS2275	327	1977	658	178257372	178408564	1	None	ADHAPS, ADAS, ALDHPSY, ADPS, ADAP-S
2	AGPS	ENSG00000018510	ENST00000409888	protein_coding	PUTATIVE	None	327	570	189	178257496	178403146	1	None	ADHAPS, ADAS, ALDHPSY, ADPS, ADAP-S
2	AGPS	ENSG00000018510	ENST00000460342	retained_intron	KNOWN	None	327	None	None	178301712	178306197	1	None	ADHAPS, ADAS, ALDHPSY, ADPS, ADAP-S
3	ARPP21	ENSG00000172995	ENST00000450234	protein_coding	KNOWN	None	16968	312	103	35680437	35729281	1	None	ARPP-21, TARPP, R3HDM3
3	ARPP21	ENSG00000172995	ENST00000428373	protein_coding	KNOWN	CCDS43063	16968	270	89	35681081	35727379	1	None	ARPP-21, TARPP, R3HDM3
3	ARPP21	ENSG00000172995	ENST00000421492	protein_coding	KNOWN	None	16968	96	31	35681747	35723339	1	None	ARPP-21, TARPP, R3HDM3
3	ARPP21	ENSG00000172995	ENST00000444190	protein_coding	KNOWN	CCDS58824	16968	2382	793	35682456	35835949	1	None	ARPP-21, TARPP, R3HDM3
3	ARPP21	ENSG00000172995	ENST00000449196	protein_coding	KNOWN	None	16968	162	53	35682913	35724372	1	None	ARPP-21, TARPP, R3HDM3
3	ARPP21	ENSG00000172995	ENST00000187397	protein_coding	KNOWN	CCDS2661	16968	2439	812	35683657	35835988	1	None	ARPP-21, TARPP, R3HDM3
3	ARPP21	ENSG00000172995	ENST00000452563	protein_coding	NOVEL	None	16968	289	95	35683782	35725335	1	None	ARPP-21, TARPP, R3HDM3
3	ARPP21	ENSG00000172995	ENST00000438577	protein_coding	NOVEL	None	16968	283	93	35683829	35729252	1	None	ARPP-21, TARPP, R3HDM3
3	ARPP21	ENSG00000172995	ENST00000414496	nonsense_mediated_decay	KNOWN	None	16968	297	98	35683832	35732390	1	None	ARPP-21, TARPP, R3HDM3
3	ARPP21	ENSG00000172995	ENST00000419330	protein_coding	KNOWN	None	16968	129	42	35685113	35723372	1	None	ARPP-21, TARPP, R3HDM3
3	ARPP21	ENSG00000172995	ENST00000427542	protein_coding	KNOWN	CCDS43063	16968	270	89	35720311	35725581	1	None	ARPP-21, TARPP, R3HDM3
3	ARPP21	ENSG00000172995	ENST00000474696	protein_coding	KNOWN	CCDS43063	16968	270	89	35721112	35725538	1	None	ARPP-21, TARPP, R3HDM3
3	ARPP21	ENSG00000172995	ENST00000412048	protein_coding	KNOWN	CCDS43063	16968	270	89	35721113	35727379	1	None	ARPP-21, TARPP, R3HDM3
3	ARPP21	ENSG00000172995	ENST00000396482	protein_coding	KNOWN	CCDS43063	16968	270	89	35721116	35727377	1	None	ARPP-21, TARPP, R3HDM3
3	ARPP21	ENSG00000172995	ENST00000432682	protein_coding	KNOWN	CCDS43063	16968	270	89	35721119	35725887	1	None	ARPP-21, TARPP, R3HDM3
3	ARPP21	ENSG00000172995	ENST00000432450	protein_coding	NOVEL	None	16968	304	100	35721136	35725350	1	None	ARPP-21, TARPP, R3HDM3
3	ARPP21	ENSG00000172995	ENST00000413378	protein_coding	KNOWN	None	16968	296	97	35721237	35729265	1	None	ARPP-21, TARPP, R3HDM3
3	ARPP21	ENSG00000172995	ENST00000417925	protein_coding	KNOWN	CCDS58823	16968	2442	813	35721277	35835880	1	None	ARPP-21, TARPP, R3HDM3
3	ARPP21	ENSG00000172995	ENST00000396481	protein_coding	KNOWN	CCDS43063	16968	270	89	35722429	35726283	1	None	ARPP-21, TARPP, R3HDM3
3	ARPP21	ENSG00000172995	ENST00000434383	retained_intron	KNOWN	None	16968	None	None	35722453	35727379	1	None	ARPP-21, TARPP, R3HDM3
3	ARPP21	ENSG00000172995	ENST00000441454	protein_coding	KNOWN	CCDS43063	16968	270	89	35722492	35727379	1	None	ARPP-21, TARPP, R3HDM3
3	ARPP21	ENSG00000172995	ENST00000436702	protein_coding	KNOWN	CCDS43063	16968	270	89	35722844	35725633	1	None	ARPP-21, TARPP, R3HDM3
3	ARPP21	ENSG00000172995	ENST00000438071	protein_coding	KNOWN	CCDS43063	16968	270	89	35722989	35726250	1	None	ARPP-21, TARPP, R3HDM3
3	ARPP21	ENSG00000172995	ENST00000461826	processed_transcript	KNOWN	None	16968	None	None	35723922	35725902	1	None	ARPP-21, TARPP, R3HDM3
3	ARPP21	ENSG00000172995	ENST00000446068	nonsense_mediated_decay	KNOWN	None	16968	436	144	35730806	35763123	1	None	ARPP-21, TARPP, R3HDM3
3	ARPP21	ENSG00000172995	ENST00000425289	protein_coding	PUTATIVE	None	16968	781	259	35731564	35771033	1	None	ARPP-21, TARPP, R3HDM3
3	ARPP21	ENSG00000172995	ENST00000427590	nonsense_mediated_decay	KNOWN	None	16968	373	123	35731567	35778744	1	None	ARPP-21, TARPP, R3HDM3
3	ARPP21	ENSG00000172995	ENST00000476327	processed_transcript	KNOWN	None	16968	None	None	35732417	35771018	1	None	ARPP-21, TARPP, R3HDM3
3	ARPP21	ENSG00000172995	ENST00000494494	retained_intron	KNOWN	None	16968	None	None	35748466	35757287	1	None	ARPP-21, TARPP, R3HDM3
3	ARPP21	ENSG00000172995	ENST00000481854	retained_intron	KNOWN	None	16968	None	None	35756456	35770828	1	None	ARPP-21, TARPP, R3HDM3
3	ARPP21	ENSG00000172995	ENST00000457165	nonsense_mediated_decay	KNOWN	None	16968	726	241	35763128	35835951	1	None	ARPP-21, TARPP, R3HDM3
3	ARPP21	ENSG00000172995	ENST00000462173	processed_transcript	KNOWN	None	16968	None	None	35779724	35826724	1	None	ARPP-21, TARPP, R3HDM3
3	ARPP21	ENSG00000172995	ENST00000463970	processed_transcript	KNOWN	None	16968	None	None	35816284	35835237	1	None	ARPP-21, TARPP, R3HDM3
3	ARPP21	ENSG00000172995	ENST00000473138	processed_transcript	KNOWN	None	16968	None	None	35822944	35835292	1	None	ARPP-21, TARPP, R3HDM3
3	ARPP21	ENSG00000172995	ENST00000476052	processed_transcript	KNOWN	None	16968	None	None	35833669	35835942	1	None	ARPP-21, TARPP, R3HDM3
3	ARPP21	ENSG00000172995	ENST00000458225	protein_coding	KNOWN	CCDS58823	16968	2442	813	35681878	35835880	1	None	ARPP-21, TARPP, R3HDM3
3	ARPP21	ENSG00000172995	ENST00000337271	protein_coding	KNOWN	CCDS58824	16968	2382	793	35681878	35835880	1	None	ARPP-21, TARPP, R3HDM3
12	ARL6IP4	ENSG00000182196	ENST00000544323	protein_coding	PUTATIVE	None	18076	743	246	123464333	123466609	1	None	SR-25, SRp25, SFRS20, SRrp37
12	ARL6IP4	ENSG00000182196	ENST00000543566	protein_coding	KNOWN	CCDS53843	18076	1026	341	123464607	123467456	1	None	SR-25, SRp25, SFRS20, SRrp37
12	ARL6IP4	ENSG00000182196	ENST00000315580	protein_coding	KNOWN	CCDS31923	18076	1083	360	123464607	123467456	1	None	SR-25, SRp25, SFRS20, SRrp37
12	ARL6IP4	ENSG00000182196	ENST00000539770	nonsense_mediated_decay	KNOWN	None	18076	648	215	123464726	123467455	1	None	SR-25, SRp25, SFRS20, SRrp37
12	ARL6IP4	ENSG00000182196	ENST00000542099	protein_coding	PUTATIVE	None	18076	922	306	123464738	123466620	1	None	SR-25, SRp25, SFRS20, SRrp37
12	ARL6IP4	ENSG00000182196	ENST00000392435	protein_coding	KNOWN	CCDS41856	18076	1017	338	123464738	123467258	1	None	SR-25, SRp25, SFRS20, SRrp37
12	ARL6IP4	ENSG00000182196	ENST00000413381	protein_coding	PUTATIVE	None	18076	633	210	123464778	123467085	1	None	SR-25, SRp25, SFRS20, SRrp37
12	ARL6IP4	ENSG00000182196	ENST00000426960	protein_coding	PUTATIVE	None	18076	657	218	123464810	123467342	1	None	SR-25, SRp25, SFRS20, SRrp37
12	ARL6IP4	ENSG00000182196	ENST00000453766	protein_coding	KNOWN	CCDS45004	18076	1059	352	123464873	123467456	1	None	SR-25, SRp25, SFRS20, SRrp37
12	ARL6IP4	ENSG00000182196	ENST00000454885	protein_coding	PUTATIVE	None	18076	681	226	123465042	123467456	1	None	SR-25, SRp25, SFRS20, SRrp37
12	ARL6IP4	ENSG00000182196	ENST00000539576	retained_intron	KNOWN	None	18076	None	None	123465229	123467453	1	None	SR-25, SRp25, SFRS20, SRrp37
12	ARL6IP4	ENSG00000182196	ENST00000442210	retained_intron	KNOWN	None	18076	None	None	123465243	123467312	1	None	SR-25, SRp25, SFRS20, SRrp37
12	ARL6IP4	ENSG00000182196	ENST00000412505	protein_coding	PUTATIVE	None	18076	513	170	123465250	123467407	1	None	SR-25, SRp25, SFRS20, SRrp37
12	ARL6IP4	ENSG00000182196	ENST00000540708	retained_intron	KNOWN	None	18076	None	None	123465263	123467437	1	None	SR-25, SRp25, SFRS20, SRrp37
12	ARL6IP4	ENSG00000182196	ENST00000536502	retained_intron	KNOWN	None	18076	None	None	123465268	123467420	1	None	SR-25, SRp25, SFRS20, SRrp37
12	ARL6IP4	ENSG00000182196	ENST00000540382	retained_intron	KNOWN	None	18076	None	None	123465280	123467430	1	None	SR-25, SRp25, SFRS20, SRrp37
12	ARL6IP4	ENSG00000182196	ENST00000439686	protein_coding	PUTATIVE	None	18076	690	229	123465295	123467253	1	None	SR-25, SRp25, SFRS20, SRrp37
12	ARL6IP4	ENSG00000182196	ENST00000392433	retained_intron	KNOWN	None	18076	None	None	123465475	123467456	1	None	SR-25, SRp25, SFRS20, SRrp37
12	ARL6IP4	ENSG00000182196	ENST00000456762	protein_coding	PUTATIVE	None	18076	651	216	123465684	123467278	1	None	SR-25, SRp25, SFRS20, SRrp37
12	ARL6IP4	ENSG00000182196	ENST00000357866	protein_coding	PUTATIVE	None	18076	546	181	123465687	123467223	1	None	SR-25, SRp25, SFRS20, SRrp37
12	ARL6IP4	ENSG00000182196	ENST00000536073	retained_intron	KNOWN	None	18076	None	None	123466500	123467455	1	None	SR-25, SRp25, SFRS20, SRrp37
11	NARS2	ENSG00000137513	ENST00000281038	protein_coding	KNOWN	CCDS8261	26274	1434	477	78147007	78285909	-1	None	FLJ23441, SLM5
11	NARS2	ENSG00000137513	ENST00000529771	protein_coding	NOVEL	None	26274	244	80	78147235	78154805	-1	None	FLJ23441, SLM5
11	NARS2	ENSG00000137513	ENST00000528850	protein_coding	PUTATIVE	CCDS58164	26274	753	250	78147269	78284575	-1	None	FLJ23441, SLM5
11	NARS2	ENSG00000137513	ENST00000525345	nonsense_mediated_decay	KNOWN	None	26274	319	105	78147779	78277313	-1	None	FLJ23441, SLM5
11	NARS2	ENSG00000137513	ENST00000529880	protein_coding	NOVEL	None	26274	725	240	78176929	78285563	-1	None	FLJ23441, SLM5
11	NARS2	ENSG00000137513	ENST00000529571	protein_coding	PUTATIVE	None	26274	8	1	78239888	78285919	-1	None	FLJ23441, SLM5
11	NARS2	ENSG00000137513	ENST00000526709	retained_intron	KNOWN	None	26274	None	None	78279761	78282715	-1	None	FLJ23441, SLM5
17	CHMP6	ENSG00000176108	ENST00000572525	protein_coding	PUTATIVE	None	25675	340	112	78965398	78972945	1	None	FLJ11749, VPS20
17	CHMP6	ENSG00000176108	ENST00000325167	protein_coding	KNOWN	CCDS11774	25675	606	201	78965641	78973933	1	None	FLJ11749, VPS20
17	CHMP6	ENSG00000176108	ENST00000572778	protein_coding	PUTATIVE	None	25675	675	224	78968381	78972470	1	None	FLJ11749, VPS20
17	CHMP6	ENSG00000176108	ENST00000571457	protein_coding	PUTATIVE	None	25675	522	173	78968444	78983317	1	None	FLJ11749, VPS20
9	None	ENSG00000204003	ENST00000435202	nonsense_mediated_decay	KNOWN	None	None	462	153	139632619	139642905	-1	None	None
9	None	ENSG00000204003	ENST00000480584	processed_transcript	KNOWN	None	None	None	None	139636333	139640305	-1	None	None
4	None	ENSG00000249667	ENST00000507056	lincRNA	KNOWN	None	None	None	None	38511388	38519677	1	None	None
16	C16orf98	ENSG00000261359	ENST00000561916	protein_coding	PUTATIVE	None	45036	615	204	31213206	31214773	1	None	None
10	IL15RA	ENSG00000134470	ENST00000435171	protein_coding	PUTATIVE	None	5978	596	197	5990855	6002530	-1	None	CD215, IL-15RA
10	IL15RA	ENSG00000134470	ENST00000379977	protein_coding	KNOWN	CCDS7074	5978	804	267	5994334	6019553	-1	None	CD215, IL-15RA
10	IL15RA	ENSG00000134470	ENST00000534292	processed_transcript	KNOWN	None	5978	None	None	5994349	6020008	-1	None	CD215, IL-15RA
10	IL15RA	ENSG00000134470	ENST00000532948	processed_transcript	KNOWN	None	5978	None	None	5994356	6020001	-1	None	CD215, IL-15RA
10	IL15RA	ENSG00000134470	ENST00000379972	processed_transcript	KNOWN	None	5978	None	None	5994356	6020150	-1	None	CD215, IL-15RA
10	IL15RA	ENSG00000134470	ENST00000528354	protein_coding	KNOWN	CCDS7075	5978	705	234	5994756	6019485	-1	None	CD215, IL-15RA
10	IL15RA	ENSG00000134470	ENST00000447291	protein_coding	PUTATIVE	None	5978	467	154	5994784	6005795	-1	None	CD215, IL-15RA
10	IL15RA	ENSG00000134470	ENST00000379974	processed_transcript	KNOWN	None	5978	None	None	5994861	6020142	-1	None	CD215, IL-15RA
10	IL15RA	ENSG00000134470	ENST00000532039	protein_coding	PUTATIVE	None	5978	629	208	5995008	6008302	-1	None	CD215, IL-15RA
10	IL15RA	ENSG00000134470	ENST00000397250	protein_coding	KNOWN	None	5978	510	169	5995014	6019485	-1	None	CD215, IL-15RA
10	IL15RA	ENSG00000134470	ENST00000379971	protein_coding	KNOWN	None	5978	465	154	5995115	6019470	-1	None	CD215, IL-15RA
10	IL15RA	ENSG00000134470	ENST00000530685	protein_coding	KNOWN	None	5978	660	219	5995223	6019455	-1	None	CD215, IL-15RA
10	IL15RA	ENSG00000134470	ENST00000397255	protein_coding	KNOWN	None	5978	759	252	5995223	6019455	-1	None	CD215, IL-15RA
10	IL15RA	ENSG00000134470	ENST00000397246	protein_coding	PUTATIVE	None	5978	486	161	5998341	6019798	-1	None	CD215, IL-15RA
10	IL15RA	ENSG00000134470	ENST00000429135	protein_coding	PUTATIVE	None	5978	517	171	6001717	6019485	-1	None	CD215, IL-15RA
10	IL15RA	ENSG00000134470	ENST00000453922	protein_coding	PUTATIVE	None	5978	444	147	6002358	6019177	-1	None	CD215, IL-15RA
10	IL15RA	ENSG00000134470	ENST00000397251	protein_coding	KNOWN	None	5978	609	202	5994335	6019574	-1	None	CD215, IL-15RA
10	IL15RA	ENSG00000134470	ENST00000397248	protein_coding	KNOWN	CCDS58069	5978	696	231	5994335	6019574	-1	None	CD215, IL-15RA
10	IL15RA	ENSG00000134470	ENST00000525219	protein_coding	KNOWN	CCDS58069	5978	696	231	5994344	6020014	-1	None	CD215, IL-15RA
2	TTC30B	ENSG00000196659	ENST00000408939	protein_coding	KNOWN	CCDS42784	26425	1998	665	178414973	178417742	-1	None	FLJ30990, fleer, IFT70
4	GALNT7	ENSG00000109586	ENST00000265000	protein_coding	KNOWN	CCDS3815	4129	1974	657	174089904	174245118	1	None	GALNAC-T7
4	GALNT7	ENSG00000109586	ENST00000512285	protein_coding	PUTATIVE	None	4129	1152	383	174089962	174219522	1	None	GALNAC-T7
4	GALNT7	ENSG00000109586	ENST00000502407	processed_transcript	PUTATIVE	None	4129	None	None	174203586	174216911	1	None	GALNAC-T7
4	GALNT7	ENSG00000109586	ENST00000505308	protein_coding	NOVEL	None	4129	1364	453	174213282	174243162	1	None	GALNAC-T7
4	GALNT7	ENSG00000109586	ENST00000506317	retained_intron	KNOWN	None	4129	None	None	174219187	174235188	1	None	GALNAC-T7
4	GALNT7	ENSG00000109586	ENST00000503213	protein_coding	PUTATIVE	None	4129	598	198	174225170	174239811	1	None	GALNAC-T7
4	GALNT7	ENSG00000109586	ENST00000515862	retained_intron	KNOWN	None	4129	None	None	174236992	174244278	1	None	GALNAC-T7
20	VAPB	ENSG00000124164	ENST00000475243	protein_coding	KNOWN	CCDS33498	12649	732	243	56964178	57026157	1	None	VAP-B, VAP-C, ALS8
20	VAPB	ENSG00000124164	ENST00000395802	protein_coding	KNOWN	CCDS56198	12649	300	99	56964369	57020608	1	None	VAP-B, VAP-C, ALS8
20	VAPB	ENSG00000124164	ENST00000520497	nonsense_mediated_decay	KNOWN	None	12649	216	71	56964422	57019587	1	None	VAP-B, VAP-C, ALS8
20	VAPB	ENSG00000124164	ENST00000265619	processed_transcript	KNOWN	None	12649	None	None	56964431	57021961	1	None	VAP-B, VAP-C, ALS8
20	VAPB	ENSG00000124164	ENST00000463370	processed_transcript	KNOWN	None	12649	None	None	57006089	57020608	1	None	VAP-B, VAP-C, ALS8
20	VAPB	ENSG00000124164	ENST00000476395	retained_intron	KNOWN	None	12649	None	None	57014033	57020608	1	None	VAP-B, VAP-C, ALS8
16	TRIM72	ENSG00000177238	ENST00000322122	protein_coding	KNOWN	CCDS32437	32671	1434	477	31225342	31236510	1	None	None
16	ESRP2	ENSG00000103067	ENST00000565858	protein_coding	KNOWN	None	26152	2184	727	68263014	68270035	-1	RBM35B	FLJ21918
16	ESRP2	ENSG00000103067	ENST00000251366	retained_intron	KNOWN	None	26152	None	None	68263020	68269973	-1	RBM35B	FLJ21918
16	ESRP2	ENSG00000103067	ENST00000473183	protein_coding	KNOWN	CCDS10863	26152	2154	717	68263029	68270487	-1	RBM35B	FLJ21918
16	ESRP2	ENSG00000103067	ENST00000566774	nonsense_mediated_decay	KNOWN	None	26152	197	64	68263305	68266718	-1	RBM35B	FLJ21918
16	ESRP2	ENSG00000103067	ENST00000565213	retained_intron	KNOWN	None	26152	None	None	68265870	68266409	-1	RBM35B	FLJ21918
16	ESRP2	ENSG00000103067	ENST00000562738	retained_intron	KNOWN	None	26152	None	None	68266444	68268073	-1	RBM35B	FLJ21918
16	ESRP2	ENSG00000103067	ENST00000562567	retained_intron	KNOWN	None	26152	None	None	68267075	68268906	-1	RBM35B	FLJ21918
16	ESRP2	ENSG00000103067	ENST00000569964	retained_intron	KNOWN	None	26152	None	None	68267102	68269652	-1	RBM35B	FLJ21918
16	ESRP2	ENSG00000103067	ENST00000563159	retained_intron	KNOWN	None	26152	None	None	68267241	68268067	-1	RBM35B	FLJ21918
16	ESRP2	ENSG00000103067	ENST00000564465	retained_intron	KNOWN	None	26152	None	None	68267241	68269611	-1	RBM35B	FLJ21918
16	ESRP2	ENSG00000103067	ENST00000564382	protein_coding	PUTATIVE	None	26152	247	81	68267260	68271970	-1	RBM35B	FLJ21918
16	ESRP2	ENSG00000103067	ENST00000562724	protein_coding	PUTATIVE	None	26152	130	42	68267719	68272005	-1	RBM35B	FLJ21918
8	CCDC25	ENSG00000147419	ENST00000356537	protein_coding	KNOWN	CCDS6062	25591	627	208	27590835	27630151	-1	None	FLJ10853
8	CCDC25	ENSG00000147419	ENST00000520486	nonsense_mediated_decay	KNOWN	None	25591	129	42	27590835	27630170	-1	None	FLJ10853
8	CCDC25	ENSG00000147419	ENST00000520202	nonsense_mediated_decay	KNOWN	None	25591	129	42	27592569	27630156	-1	None	FLJ10853
8	CCDC25	ENSG00000147419	ENST00000523841	nonsense_mediated_decay	KNOWN	None	25591	279	92	27593330	27630124	-1	None	FLJ10853
8	CCDC25	ENSG00000147419	ENST00000519509	nonsense_mediated_decay	KNOWN	None	25591	279	92	27593379	27630157	-1	None	FLJ10853
8	CCDC25	ENSG00000147419	ENST00000522915	protein_coding	PUTATIVE	None	25591	423	140	27593569	27630151	-1	None	FLJ10853
8	CCDC25	ENSG00000147419	ENST00000521220	retained_intron	KNOWN	None	25591	None	None	27593595	27605992	-1	None	FLJ10853
8	CCDC25	ENSG00000147419	ENST00000524084	nonsense_mediated_decay	KNOWN	None	25591	261	86	27593680	27630144	-1	None	FLJ10853
8	CCDC25	ENSG00000147419	ENST00000519299	retained_intron	KNOWN	None	25591	None	None	27605270	27606065	-1	None	FLJ10853
8	CCDC25	ENSG00000147419	ENST00000519843	retained_intron	KNOWN	None	25591	None	None	27605394	27610106	-1	None	FLJ10853
8	CCDC25	ENSG00000147419	ENST00000517979	nonsense_mediated_decay	KNOWN	None	25591	81	26	27605589	27630130	-1	None	FLJ10853
8	CCDC25	ENSG00000147419	ENST00000539095	protein_coding	KNOWN	None	25591	423	140	27593386	27630157	-1	None	FLJ10853
10	VDAC2	ENSG00000165637	ENST00000298468	protein_coding	PUTATIVE	None	12672	847	281	76969912	76990709	1	None	None
10	VDAC2	ENSG00000165637	ENST00000344036	protein_coding	PUTATIVE	None	12672	584	193	76970403	76980728	1	None	None
10	VDAC2	ENSG00000165637	ENST00000332211	protein_coding	KNOWN	CCDS7348	12672	885	294	76970509	76991206	1	None	None
10	VDAC2	ENSG00000165637	ENST00000472137	processed_transcript	KNOWN	None	12672	None	None	76970533	76982036	1	None	None
10	VDAC2	ENSG00000165637	ENST00000470745	retained_intron	KNOWN	None	12672	None	None	76970562	76977996	1	None	None
10	VDAC2	ENSG00000165637	ENST00000475142	retained_intron	KNOWN	None	12672	None	None	76970571	76980620	1	None	None
10	VDAC2	ENSG00000165637	ENST00000481876	retained_intron	KNOWN	None	12672	None	None	76970572	76980728	1	None	None
10	VDAC2	ENSG00000165637	ENST00000313132	protein_coding	KNOWN	CCDS53544	12672	930	309	76970606	76991035	1	None	None
10	VDAC2	ENSG00000165637	ENST00000498394	processed_transcript	KNOWN	None	12672	None	None	76970614	76982017	1	None	None
10	VDAC2	ENSG00000165637	ENST00000468285	processed_transcript	KNOWN	None	12672	None	None	76970622	76980790	1	None	None
10	VDAC2	ENSG00000165637	ENST00000447677	protein_coding	PUTATIVE	None	12672	613	203	76970792	76982038	1	None	None
10	VDAC2	ENSG00000165637	ENST00000413289	protein_coding	PUTATIVE	None	12672	329	108	76971214	76978954	1	None	None
10	VDAC2	ENSG00000165637	ENST00000460044	retained_intron	KNOWN	None	12672	None	None	76989068	76991033	1	None	None
10	VDAC2	ENSG00000165637	ENST00000543351	protein_coding	KNOWN	CCDS7348	12672	885	294	76969912	76991202	1	None	None
10	VDAC2	ENSG00000165637	ENST00000535553	protein_coding	KNOWN	None	12672	768	255	76970587	76991204	1	None	None
2	TTC30A	ENSG00000197557	ENST00000355689	protein_coding	KNOWN	CCDS2276	25853	1998	665	178479026	178483694	-1	None	FLJ13946
10	C10orf2	ENSG00000107815	ENST00000476766	processed_transcript	KNOWN	None	1160	None	None	102747124	102753120	1	IOSCA	PEO, PEO1, TWINKLE, FLJ21832, TWINL
10	C10orf2	ENSG00000107815	ENST00000473656	processed_transcript	KNOWN	None	1160	None	None	102747307	102753337	1	IOSCA	PEO, PEO1, TWINKLE, FLJ21832, TWINL
10	C10orf2	ENSG00000107815	ENST00000459764	processed_transcript	KNOWN	None	1160	None	None	102747552	102749641	1	IOSCA	PEO, PEO1, TWINKLE, FLJ21832, TWINL
10	C10orf2	ENSG00000107815	ENST00000311916	protein_coding	KNOWN	CCDS7506	1160	2055	684	102747783	102754158	1	IOSCA	PEO, PEO1, TWINKLE, FLJ21832, TWINL
10	C10orf2	ENSG00000107815	ENST00000370228	protein_coding	KNOWN	CCDS53570	1160	1749	582	102747783	102754158	1	IOSCA	PEO, PEO1, TWINKLE, FLJ21832, TWINL
10	NHLRC2	ENSG00000196865	ENST00000369301	protein_coding	KNOWN	CCDS7585	24731	2181	726	115614420	115676953	1	None	FLJ25621, FLJ20147, FLJ33312, MGC45492, DKFZp779F115
10	NHLRC2	ENSG00000196865	ENST00000468890	retained_intron	KNOWN	None	24731	None	None	115614583	115618611	1	None	FLJ25621, FLJ20147, FLJ33312, MGC45492, DKFZp779F115
6	None	ENSG00000270937	ENST00000603854	lincRNA	KNOWN	None	None	None	None	1026729	1027460	-1	None	None
6	None	ENSG00000238438	ENST00000459140	snoRNA	NOVEL	None	None	None	None	1186753	1186855	1	None	None
6	None	ENSG00000261730	ENST00000568244	antisense	KNOWN	None	None	None	None	1384025	1385301	-1	None	None
17	SHMT1	ENSG00000176974	ENST00000395684	retained_intron	KNOWN	None	10850	None	None	18231187	18244969	-1	None	CSHMT, SHMT, MGC15229, MGC24556
17	SHMT1	ENSG00000176974	ENST00000316694	protein_coding	KNOWN	CCDS11196	10850	1452	483	18231187	18266801	-1	None	CSHMT, SHMT, MGC15229, MGC24556
17	SHMT1	ENSG00000176974	ENST00000580002	nonsense_mediated_decay	KNOWN	None	10850	387	128	18231784	18266809	-1	None	CSHMT, SHMT, MGC15229, MGC24556
17	SHMT1	ENSG00000176974	ENST00000354098	protein_coding	KNOWN	CCDS11197	10850	1335	444	18231842	18266765	-1	None	CSHMT, SHMT, MGC15229, MGC24556
17	SHMT1	ENSG00000176974	ENST00000582352	retained_intron	KNOWN	None	10850	None	None	18233998	18236753	-1	None	CSHMT, SHMT, MGC15229, MGC24556
17	SHMT1	ENSG00000176974	ENST00000579558	retained_intron	KNOWN	None	10850	None	None	18243719	18266815	-1	None	CSHMT, SHMT, MGC15229, MGC24556
17	SHMT1	ENSG00000176974	ENST00000582653	protein_coding	KNOWN	None	10850	501	166	18250828	18266660	-1	None	CSHMT, SHMT, MGC15229, MGC24556
17	SHMT1	ENSG00000176974	ENST00000395682	retained_intron	KNOWN	None	10850	None	None	18256824	18266832	-1	None	CSHMT, SHMT, MGC15229, MGC24556
17	SHMT1	ENSG00000176974	ENST00000583780	protein_coding	KNOWN	None	10850	3	0	18259293	18266856	-1	None	CSHMT, SHMT, MGC15229, MGC24556
17	SHMT1	ENSG00000176974	ENST00000352886	protein_coding	KNOWN	None	10850	1212	403	18231195	18266721	-1	None	CSHMT, SHMT, MGC15229, MGC24556
17	SHMT1	ENSG00000176974	ENST00000539052	protein_coding	KNOWN	None	10850	1038	345	18231784	18266809	-1	None	CSHMT, SHMT, MGC15229, MGC24556
6	RN7SL352P	ENSG00000243439	ENST00000466002	misc_RNA	KNOWN	None	46368	None	None	1507557	1507851	1	None	None
6	None	ENSG00000218027	ENST00000404600	processed_pseudogene	KNOWN	None	None	None	None	1513933	1515524	-1	None	None
7	SNORA5A	ENSG00000206838	ENST00000384111	snoRNA	KNOWN	None	32588	None	None	45143948	45144081	-1	None	ACA5
8	TDRP	ENSG00000180190	ENST00000324079	protein_coding	KNOWN	CCDS47759	26951	558	185	439803	494998	-1	C8orf42	INM01, TDRP1, TDRP2
8	TDRP	ENSG00000180190	ENST00000523656	protein_coding	PUTATIVE	CCDS59090	26951	597	198	439803	495781	-1	C8orf42	INM01, TDRP1, TDRP2
8	TDRP	ENSG00000180190	ENST00000524229	processed_transcript	PUTATIVE	None	26951	None	None	442630	445010	-1	C8orf42	INM01, TDRP1, TDRP2
8	TDRP	ENSG00000180190	ENST00000427263	protein_coding	KNOWN	CCDS59090	26951	597	198	439943	494837	-1	C8orf42	INM01, TDRP1, TDRP2
19	PEX11G	ENSG00000104883	ENST00000221480	protein_coding	KNOWN	CCDS12178	20208	726	241	7541761	7553905	-1	None	None
19	PEX11G	ENSG00000104883	ENST00000593942	protein_coding	KNOWN	None	20208	516	171	7541762	7562335	-1	None	None
19	PEX11G	ENSG00000104883	ENST00000599519	processed_transcript	KNOWN	None	20208	None	None	7541780	7548198	-1	None	None
19	PEX11G	ENSG00000104883	ENST00000593547	protein_coding	PUTATIVE	None	20208	505	167	7541787	7553858	-1	None	None
4	None	ENSG00000251635	ENST00000512170	lincRNA	KNOWN	None	None	None	None	38565624	38572292	1	None	None
11	PUS3	ENSG00000110060	ENST00000530811	protein_coding	KNOWN	CCDS8466	25461	1446	481	125763382	125766225	-1	None	FKSG32
11	PUS3	ENSG00000110060	ENST00000534158	protein_coding	PUTATIVE	None	25461	507	168	125765556	125773116	-1	None	FKSG32
11	PUS3	ENSG00000110060	ENST00000529801	protein_coding	PUTATIVE	None	25461	315	104	125765865	125773116	-1	None	FKSG32
11	PUS3	ENSG00000110060	ENST00000227474	protein_coding	KNOWN	CCDS8466	25461	1446	481	125763381	125773116	-1	None	FKSG32
6	SLC17A5	ENSG00000119899	ENST00000355773	protein_coding	KNOWN	CCDS4981	10933	1488	495	74303102	74363878	-1	SIASD	AST, SD, ISSD, NSD, SIALIN, SLD
6	SLC17A5	ENSG00000119899	ENST00000481996	processed_transcript	KNOWN	None	10933	None	None	74344956	74354186	-1	SIASD	AST, SD, ISSD, NSD, SIALIN, SLD
6	SLC17A5	ENSG00000119899	ENST00000393019	protein_coding	KNOWN	None	10933	546	181	74310146	74363696	-1	SIASD	AST, SD, ISSD, NSD, SIALIN, SLD
7	SNORA5C	ENSG00000201772	ENST00000364902	snoRNA	KNOWN	None	32590	None	None	45144505	45144641	-1	None	ACA5c
4	None	ENSG00000231160	ENST00000440181	antisense	KNOWN	None	None	None	None	38614322	38666249	-1	None	None
4	None	ENSG00000231160	ENST00000504219	antisense	KNOWN	None	None	None	None	38621311	38626196	-1	None	None
4	None	ENSG00000231160	ENST00000507091	antisense	KNOWN	None	None	None	None	38626955	38666476	-1	None	None
4	None	ENSG00000231160	ENST00000505240	antisense	KNOWN	None	None	None	None	38626955	38666504	-1	None	None
7	SNORA5B	ENSG00000200656	ENST00000363786	snoRNA	KNOWN	None	32589	None	None	45145567	45145698	-1	None	ACA5b
7	ELK1P1	ENSG00000234359	ENST00000485699	processed_pseudogene	KNOWN	None	39021	None	None	45431225	45431804	-1	None	None
7	None	ENSG00000225537	ENST00000443714	lincRNA	KNOWN	None	None	None	None	45500311	45581781	1	None	None
4	None	ENSG00000271958	ENST00000515436	lincRNA	KNOWN	None	None	None	None	38619886	38621058	-1	None	None
7	None	ENSG00000226999	ENST00000339545	processed_pseudogene	KNOWN	None	None	None	None	45574122	45574280	-1	None	None
4	RNA5SP158	ENSG00000222230	ENST00000410298	rRNA	KNOWN	None	43058	None	None	38760412	38760513	-1	RN5S158	None
3	RYK	ENSG00000163785	ENST00000484106	processed_transcript	PUTATIVE	None	10481	None	None	133784147	133794057	-1	JTK5A	D3S3195, RYK1, JTK5
3	RYK	ENSG00000163785	ENST00000472234	protein_coding	PUTATIVE	None	10481	470	155	133794023	133901877	-1	JTK5A	D3S3195, RYK1, JTK5
3	RYK	ENSG00000163785	ENST00000460933	protein_coding	KNOWN	None	10481	1763	586	133875977	133969437	-1	JTK5A	D3S3195, RYK1, JTK5
3	RYK	ENSG00000163785	ENST00000473208	retained_intron	KNOWN	None	10481	None	None	133875978	133900516	-1	JTK5A	D3S3195, RYK1, JTK5
3	RYK	ENSG00000163785	ENST00000486725	nonsense_mediated_decay	KNOWN	None	10481	280	92	133878127	133910760	-1	JTK5A	D3S3195, RYK1, JTK5
3	RYK	ENSG00000163785	ENST00000481382	retained_intron	KNOWN	None	10481	None	None	133894547	133902247	-1	JTK5A	D3S3195, RYK1, JTK5
3	RYK	ENSG00000163785	ENST00000480381	retained_intron	KNOWN	None	10481	None	None	133901846	133914183	-1	JTK5A	D3S3195, RYK1, JTK5
3	RYK	ENSG00000163785	ENST00000464879	retained_intron	KNOWN	None	10481	None	None	133921381	133926369	-1	JTK5A	D3S3195, RYK1, JTK5
3	RYK	ENSG00000163785	ENST00000296084	protein_coding	KNOWN	None	10481	1827	608	133875978	133969494	-1	JTK5A	D3S3195, RYK1, JTK5
3	RYK	ENSG00000163785	ENST00000427044	protein_coding	KNOWN	None	10481	1257	418	133875978	133969689	-1	JTK5A	D3S3195, RYK1, JTK5
2	NFU1	ENSG00000169599	ENST00000410022	protein_coding	KNOWN	CCDS33217	16287	765	254	69622882	69664760	-1	HIRIP5	CGI-33, NifU, NIFUC
2	NFU1	ENSG00000169599	ENST00000471185	processed_transcript	KNOWN	None	16287	None	None	69623247	69664567	-1	HIRIP5	CGI-33, NifU, NIFUC
2	NFU1	ENSG00000169599	ENST00000474230	nonsense_mediated_decay	KNOWN	None	16287	381	126	69623252	69642431	-1	HIRIP5	CGI-33, NifU, NIFUC
2	NFU1	ENSG00000169599	ENST00000303698	protein_coding	KNOWN	CCDS46315	16287	693	230	69623252	69664607	-1	HIRIP5	CGI-33, NifU, NIFUC
2	NFU1	ENSG00000169599	ENST00000462320	protein_coding	KNOWN	CCDS42694	16287	342	113	69623255	69643336	-1	HIRIP5	CGI-33, NifU, NIFUC
2	NFU1	ENSG00000169599	ENST00000450796	protein_coding	KNOWN	None	16287	298	98	69627495	69664549	-1	HIRIP5	CGI-33, NifU, NIFUC
2	NFU1	ENSG00000169599	ENST00000484177	protein_coding	KNOWN	None	16287	288	95	69627505	69664557	-1	HIRIP5	CGI-33, NifU, NIFUC
2	NFU1	ENSG00000169599	ENST00000419370	nonsense_mediated_decay	KNOWN	None	16287	129	42	69633165	69664566	-1	HIRIP5	CGI-33, NifU, NIFUC
2	NFU1	ENSG00000169599	ENST00000438184	nonsense_mediated_decay	KNOWN	None	16287	120	39	69637935	69664527	-1	HIRIP5	CGI-33, NifU, NIFUC
2	NFU1	ENSG00000169599	ENST00000394305	protein_coding	KNOWN	CCDS42694	16287	342	113	69623252	69664753	-1	HIRIP5	CGI-33, NifU, NIFUC
22	SCO2	ENSG00000130489	ENST00000395693	protein_coding	KNOWN	CCDS14095	10604	801	266	50961997	50964035	-1	None	SCO1L
22	SCO2	ENSG00000130489	ENST00000252785	protein_coding	KNOWN	CCDS14095	10604	801	266	50962025	50964033	-1	None	SCO1L
22	SCO2	ENSG00000130489	ENST00000439934	protein_coding	KNOWN	None	10604	410	135	50962431	50964574	-1	None	SCO1L
22	SCO2	ENSG00000130489	ENST00000423348	protein_coding	KNOWN	None	10604	410	135	50962431	50964868	-1	None	SCO1L
22	SCO2	ENSG00000130489	ENST00000543927	protein_coding	KNOWN	CCDS14095	10604	801	266	50961997	50964868	-1	None	SCO1L
22	SCO2	ENSG00000130489	ENST00000535425	protein_coding	KNOWN	CCDS14095	10604	801	266	50961997	50964574	-1	None	SCO1L
9	LCN10	ENSG00000187922	ENST00000494294	retained_intron	KNOWN	None	20892	None	None	139632619	139636456	-1	None	None
9	LCN10	ENSG00000187922	ENST00000341040	nonsense_mediated_decay	KNOWN	None	20892	261	86	139632619	139637392	-1	None	None
9	LCN10	ENSG00000187922	ENST00000406721	retained_intron	KNOWN	None	20892	None	None	139632619	139637808	-1	None	None
9	LCN10	ENSG00000187922	ENST00000497771	protein_coding	KNOWN	CCDS35182	20892	603	200	139633913	139637411	-1	None	None
9	LCN10	ENSG00000187922	ENST00000527229	protein_coding	NOVEL	None	20892	495	164	139633913	139637411	-1	None	None
9	LCN10	ENSG00000187922	ENST00000532006	nonsense_mediated_decay	KNOWN	None	20892	228	75	139633913	139637411	-1	None	None
9	LCN10	ENSG00000187922	ENST00000529013	nonsense_mediated_decay	KNOWN	None	20892	112	36	139633976	139636440	-1	None	None
9	LCN10	ENSG00000187922	ENST00000474369	protein_coding	KNOWN	None	20892	564	187	139633977	139637355	-1	None	None
4	MIR574	ENSG00000207944	ENST00000385209	miRNA	KNOWN	None	32830	None	None	38869653	38869748	1	MIRN574	hsa-mir-574
4	None	ENSG00000249207	ENST00000509449	antisense	KNOWN	None	None	None	None	39114297	39128438	-1	None	None
1	CD46	ENSG00000117335	ENST00000358170	protein_coding	KNOWN	CCDS1485	6953	1179	392	207925402	207968858	1	MIC10, MCP	TRA2.10, MGC26544, TLX
1	CD46	ENSG00000117335	ENST00000354848	protein_coding	KNOWN	CCDS1480	6953	1155	384	207925402	207968858	1	MIC10, MCP	TRA2.10, MGC26544, TLX
1	CD46	ENSG00000117335	ENST00000322918	protein_coding	KNOWN	CCDS1479	6953	1050	349	207925402	207968858	1	MIC10, MCP	TRA2.10, MGC26544, TLX
1	CD46	ENSG00000117335	ENST00000367042	protein_coding	KNOWN	CCDS31008	6953	1134	377	207925402	207968858	1	MIC10, MCP	TRA2.10, MGC26544, TLX
1	CD46	ENSG00000117335	ENST00000367041	protein_coding	KNOWN	CCDS31009	6953	1089	362	207925402	207968858	1	MIC10, MCP	TRA2.10, MGC26544, TLX
1	CD46	ENSG00000117335	ENST00000357714	protein_coding	KNOWN	CCDS1481	6953	1110	369	207925402	207968858	1	MIC10, MCP	TRA2.10, MGC26544, TLX
1	CD46	ENSG00000117335	ENST00000322875	protein_coding	KNOWN	CCDS1482	6953	1200	399	207925402	207968858	1	MIC10, MCP	TRA2.10, MGC26544, TLX
1	CD46	ENSG00000117335	ENST00000367047	protein_coding	KNOWN	None	6953	1011	336	207925402	207968858	1	MIC10, MCP	TRA2.10, MGC26544, TLX
1	CD46	ENSG00000117335	ENST00000493796	processed_transcript	KNOWN	None	6953	None	None	207925413	207933069	1	MIC10, MCP	TRA2.10, MGC26544, TLX
1	CD46	ENSG00000117335	ENST00000469535	processed_transcript	KNOWN	None	6953	None	None	207925413	207968858	1	MIC10, MCP	TRA2.10, MGC26544, TLX
1	CD46	ENSG00000117335	ENST00000360212	protein_coding	KNOWN	CCDS1484	6953	1068	355	207925460	207968851	1	MIC10, MCP	TRA2.10, MGC26544, TLX
1	CD46	ENSG00000117335	ENST00000480003	protein_coding	KNOWN	None	6953	1113	370	207925468	207966991	1	MIC10, MCP	TRA2.10, MGC26544, TLX
1	CD46	ENSG00000117335	ENST00000464082	retained_intron	KNOWN	None	6953	None	None	207934330	207940462	1	MIC10, MCP	TRA2.10, MGC26544, TLX
1	CD46	ENSG00000117335	ENST00000496723	retained_intron	KNOWN	None	6953	None	None	207940550	207943707	1	MIC10, MCP	TRA2.10, MGC26544, TLX
1	CD46	ENSG00000117335	ENST00000488596	processed_transcript	KNOWN	None	6953	None	None	207943386	207967218	1	MIC10, MCP	TRA2.10, MGC26544, TLX
1	CD46	ENSG00000117335	ENST00000490278	retained_intron	KNOWN	None	6953	None	None	207943398	207957073	1	MIC10, MCP	TRA2.10, MGC26544, TLX
1	CD46	ENSG00000117335	ENST00000471987	retained_intron	KNOWN	None	6953	None	None	207943655	207959407	1	MIC10, MCP	TRA2.10, MGC26544, TLX
1	CD46	ENSG00000117335	ENST00000462968	protein_coding	KNOWN	None	6953	236	77	207943684	207968569	1	MIC10, MCP	TRA2.10, MGC26544, TLX
1	CD46	ENSG00000117335	ENST00000441839	protein_coding	KNOWN	None	6953	1095	364	207925402	207968858	1	MIC10, MCP	TRA2.10, MGC26544, TLX
1	CD46	ENSG00000117335	ENST00000361067	protein_coding	KNOWN	None	6953	1158	385	207925402	207968858	1	MIC10, MCP	TRA2.10, MGC26544, TLX
4	None	ENSG00000249685	ENST00000507579	lincRNA	KNOWN	None	None	None	None	39135533	39137228	1	None	None
6	HLA-B	ENSG00000234745	ENST00000481849	retained_intron	KNOWN	None	4932	None	None	31321649	31322583	-1	AS	None
6	HLA-B	ENSG00000234745	ENST00000497377	retained_intron	KNOWN	None	4932	None	None	31321649	31322853	-1	AS	None
6	HLA-B	ENSG00000234745	ENST00000412585	protein_coding	KNOWN	CCDS34394	4932	1089	362	31321649	31324964	-1	AS	None
6	HLA-B	ENSG00000234745	ENST00000463574	retained_intron	KNOWN	None	4932	None	None	31322899	31323579	-1	AS	None
6	HLA-B	ENSG00000234745	ENST00000498007	retained_intron	KNOWN	None	4932	None	None	31323168	31324956	-1	AS	None
6	HLA-B	ENSG00000234745	ENST00000434333	protein_coding	PUTATIVE	None	4932	738	245	31323284	31324965	-1	AS	None
6	HLA-B	ENSG00000234745	ENST00000474381	retained_intron	KNOWN	None	4932	None	None	31323299	31324682	-1	AS	None
15	TRPM7	ENSG00000092439	ENST00000561267	protein_coding	PUTATIVE	None	17994	703	233	50844670	50867205	-1	None	CHAK1, LTRPC7, TRP-PLIK
15	TRPM7	ENSG00000092439	ENST00000560955	protein_coding	NOVEL	None	17994	5595	1864	50852490	50978968	-1	None	CHAK1, LTRPC7, TRP-PLIK
15	TRPM7	ENSG00000092439	ENST00000313478	protein_coding	KNOWN	CCDS42035	17994	5598	1865	50852492	50979012	-1	None	CHAK1, LTRPC7, TRP-PLIK
15	TRPM7	ENSG00000092439	ENST00000561443	processed_transcript	KNOWN	None	17994	None	None	50853837	50874666	-1	None	CHAK1, LTRPC7, TRP-PLIK
15	TRPM7	ENSG00000092439	ENST00000560516	retained_intron	KNOWN	None	17994	None	None	50862166	50867282	-1	None	CHAK1, LTRPC7, TRP-PLIK
15	TRPM7	ENSG00000092439	ENST00000558444	processed_transcript	KNOWN	None	17994	None	None	50867156	50874661	-1	None	CHAK1, LTRPC7, TRP-PLIK
15	TRPM7	ENSG00000092439	ENST00000560849	processed_transcript	KNOWN	None	17994	None	None	50867225	50878779	-1	None	CHAK1, LTRPC7, TRP-PLIK
15	TRPM7	ENSG00000092439	ENST00000560284	retained_intron	KNOWN	None	17994	None	None	50885816	50891862	-1	None	CHAK1, LTRPC7, TRP-PLIK
15	TRPM7	ENSG00000092439	ENST00000560638	protein_coding	PUTATIVE	None	17994	1608	535	50896144	50916413	-1	None	CHAK1, LTRPC7, TRP-PLIK
5	None	ENSG00000248205	ENST00000515105	processed_pseudogene	KNOWN	None	None	None	None	17502152	17502472	-1	None	None
5	None	ENSG00000249620	ENST00000510266	processed_pseudogene	KNOWN	None	None	None	None	17511942	17512347	-1	None	None
5	None	ENSG00000248861	ENST00000510838	processed_pseudogene	KNOWN	None	None	None	None	17518475	17519069	1	None	None
1	ECM1	ENSG00000143369	ENST00000470432	processed_transcript	KNOWN	None	3153	None	None	150480538	150486029	1	None	None
1	ECM1	ENSG00000143369	ENST00000369049	protein_coding	KNOWN	CCDS55632	3153	1704	567	150480552	150486030	1	None	None
1	ECM1	ENSG00000143369	ENST00000498579	processed_transcript	KNOWN	None	3153	None	None	150480558	150483622	1	None	None
1	ECM1	ENSG00000143369	ENST00000369047	protein_coding	KNOWN	CCDS953	3153	1623	540	150480561	150486265	1	None	None
1	ECM1	ENSG00000143369	ENST00000496744	processed_transcript	KNOWN	None	3153	None	None	150480570	150483028	1	None	None
1	ECM1	ENSG00000143369	ENST00000346569	protein_coding	KNOWN	CCDS954	3153	1248	415	150480583	150486036	1	None	None
1	ECM1	ENSG00000143369	ENST00000490346	processed_transcript	KNOWN	None	3153	None	None	150481778	150482628	1	None	None
5	None	ENSG00000249339	ENST00000512357	processed_pseudogene	KNOWN	None	None	None	None	17521910	17522504	1	None	None
8	ERICH1	ENSG00000104714	ENST00000522706	protein_coding	NOVEL	None	27234	1038	345	564746	681197	-1	None	None
8	ERICH1	ENSG00000104714	ENST00000523415	nonsense_mediated_decay	KNOWN	None	27234	373	123	564749	623326	-1	None	None
8	ERICH1	ENSG00000104714	ENST00000519909	processed_transcript	PUTATIVE	None	27234	None	None	566526	590632	-1	None	None
8	ERICH1	ENSG00000104714	ENST00000523709	processed_transcript	PUTATIVE	None	27234	None	None	587536	591207	-1	None	None
8	ERICH1	ENSG00000104714	ENST00000262109	protein_coding	KNOWN	CCDS5955	27234	1332	443	614200	681239	-1	None	None
8	ERICH1	ENSG00000104714	ENST00000523053	retained_intron	KNOWN	None	27234	None	None	614622	619277	-1	None	None
8	ERICH1	ENSG00000104714	ENST00000522893	protein_coding	PUTATIVE	None	27234	671	222	615992	623657	-1	None	None
8	ERICH1	ENSG00000104714	ENST00000518895	processed_transcript	KNOWN	None	27234	None	None	621794	623462	-1	None	None
8	ERICH1	ENSG00000104714	ENST00000524138	processed_transcript	KNOWN	None	27234	None	None	623767	665927	-1	None	None
8	ERICH1	ENSG00000104714	ENST00000518313	processed_transcript	KNOWN	None	27234	None	None	623844	636724	-1	None	None
8	ERICH1	ENSG00000104714	ENST00000518277	processed_transcript	KNOWN	None	27234	None	None	623865	688106	-1	None	None
10	PARD3	ENSG00000148498	ENST00000374789	protein_coding	KNOWN	CCDS7178	16051	4071	1356	34398489	35104249	-1	None	PAR3, PARD3A, Bazooka, Baz, ASIP
10	PARD3	ENSG00000148498	ENST00000374788	protein_coding	KNOWN	CCDS53515	16051	4062	1353	34398489	35104249	-1	None	PAR3, PARD3A, Bazooka, Baz, ASIP
10	PARD3	ENSG00000148498	ENST00000346874	protein_coding	KNOWN	CCDS53514	16051	3960	1319	34398489	35104249	-1	None	PAR3, PARD3A, Bazooka, Baz, ASIP
10	PARD3	ENSG00000148498	ENST00000374794	protein_coding	KNOWN	CCDS53509	16051	3735	1244	34398489	35104249	-1	None	PAR3, PARD3A, Bazooka, Baz, ASIP
10	PARD3	ENSG00000148498	ENST00000350537	protein_coding	KNOWN	CCDS53512	16051	3933	1310	34398489	35104249	-1	None	PAR3, PARD3A, Bazooka, Baz, ASIP
10	PARD3	ENSG00000148498	ENST00000374790	protein_coding	KNOWN	None	16051	3891	1296	34398489	35104249	-1	None	PAR3, PARD3A, Bazooka, Baz, ASIP
10	PARD3	ENSG00000148498	ENST00000466092	processed_transcript	KNOWN	None	16051	None	None	34558715	34625248	-1	None	PAR3, PARD3A, Bazooka, Baz, ASIP
10	PARD3	ENSG00000148498	ENST00000374776	protein_coding	KNOWN	CCDS53513	16051	2967	988	34601184	35104249	-1	None	PAR3, PARD3A, Bazooka, Baz, ASIP
10	PARD3	ENSG00000148498	ENST00000374773	protein_coding	KNOWN	None	16051	3006	1001	34601192	35104249	-1	None	PAR3, PARD3A, Bazooka, Baz, ASIP
10	PARD3	ENSG00000148498	ENST00000374768	protein_coding	KNOWN	None	16051	540	179	34635126	34661461	-1	None	PAR3, PARD3A, Bazooka, Baz, ASIP
10	PARD3	ENSG00000148498	ENST00000545693	protein_coding	KNOWN	CCDS53511	16051	4023	1340	34398488	35104253	-1	None	PAR3, PARD3A, Bazooka, Baz, ASIP
10	PARD3	ENSG00000148498	ENST00000545260	protein_coding	KNOWN	CCDS53510	16051	3801	1266	34398488	35104253	-1	None	PAR3, PARD3A, Bazooka, Baz, ASIP
10	PARD3	ENSG00000148498	ENST00000340077	protein_coding	KNOWN	CCDS53516	16051	3096	1031	34601188	35104253	-1	None	PAR3, PARD3A, Bazooka, Baz, ASIP
10	PARD3	ENSG00000148498	ENST00000544292	protein_coding	KNOWN	None	16051	2244	747	34601192	34715659	-1	None	PAR3, PARD3A, Bazooka, Baz, ASIP
6	None	ENSG00000272279	ENST00000607350	lincRNA	KNOWN	None	None	None	None	1528599	1529146	-1	None	None
16	PYDC1	ENSG00000169900	ENST00000568383	processed_transcript	PUTATIVE	None	30261	None	None	31227283	31227691	-1	None	ASC2, POP1
16	PYDC1	ENSG00000169900	ENST00000302964	protein_coding	KNOWN	CCDS10710	30261	270	89	31227283	31228680	-1	None	ASC2, POP1
15	PLA2G4E	ENSG00000188089	ENST00000399518	protein_coding	NOVEL	CCDS55962	24791	2607	868	42273780	42343388	-1	None	FLJ45651
15	PLA2G4E	ENSG00000188089	ENST00000547930	retained_intron	KNOWN	None	24791	None	None	42273782	42289720	-1	None	FLJ45651
15	PLA2G4E	ENSG00000188089	ENST00000551073	retained_intron	KNOWN	None	24791	None	None	42279076	42282400	-1	None	FLJ45651
15	PLA2G4E	ENSG00000188089	ENST00000413860	protein_coding	KNOWN	None	24791	2520	839	42275952	42302445	-1	None	FLJ45651
9	ANKRD18B	ENSG00000230453	ENST00000290943	protein_coding	KNOWN	None	23644	3036	1011	33524392	33572999	1	None	bA255A11.3
9	ANKRD18B	ENSG00000230453	ENST00000496561	retained_intron	KNOWN	None	23644	None	None	33528630	33533845	1	None	bA255A11.3
9	ANKRD18B	ENSG00000230453	ENST00000474881	processed_transcript	PUTATIVE	None	23644	None	None	33533440	33539556	1	None	bA255A11.3
9	ANKRD18B	ENSG00000230453	ENST00000484634	processed_transcript	PUTATIVE	None	23644	None	None	33533484	33541225	1	None	bA255A11.3
9	ANKRD18B	ENSG00000230453	ENST00000605687	protein_coding	NOVEL	None	23644	223	73	33536885	33547947	1	None	bA255A11.3
9	ANKRD18B	ENSG00000230453	ENST00000357927	protein_coding	PUTATIVE	None	23644	1206	401	33548830	33573007	1	None	bA255A11.3
9	ANKRD18B	ENSG00000230453	ENST00000426460	processed_transcript	PUTATIVE	None	23644	None	None	33566970	33568883	1	None	bA255A11.3
9	ANKRD18B	ENSG00000230453	ENST00000465094	protein_coding	PUTATIVE	None	23644	483	160	33567101	33569124	1	None	bA255A11.3
5	MRPL22	ENSG00000082515	ENST00000523037	protein_coding	KNOWN	CCDS4331	14480	621	206	154320630	154348971	1	None	MRP-L25, RPML25, HSPC158
5	MRPL22	ENSG00000082515	ENST00000265229	protein_coding	KNOWN	CCDS43391	14480	381	126	154320653	154348971	1	None	MRP-L25, RPML25, HSPC158
5	MRPL22	ENSG00000082515	ENST00000439747	protein_coding	PUTATIVE	None	14480	699	232	154320655	154346526	1	None	MRP-L25, RPML25, HSPC158
5	MRPL22	ENSG00000082515	ENST00000522038	protein_coding	NOVEL	None	14480	639	212	154320662	154348971	1	None	MRP-L25, RPML25, HSPC158
5	MRPL22	ENSG00000082515	ENST00000519059	nonsense_mediated_decay	KNOWN	None	14480	117	38	154320737	154346453	1	None	MRP-L25, RPML25, HSPC158
5	MRPL22	ENSG00000082515	ENST00000520040	retained_intron	KNOWN	None	14480	None	None	154334759	154346505	1	None	MRP-L25, RPML25, HSPC158
5	MRPL22	ENSG00000082515	ENST00000518364	processed_transcript	KNOWN	None	14480	None	None	154338611	154346531	1	None	MRP-L25, RPML25, HSPC158
7	FAM20C	ENSG00000177706	ENST00000313766	protein_coding	KNOWN	CCDS47522	22140	1755	584	192969	300711	1	None	IMAGE:4942737, DKFZp547D065, DMP4
7	FAM20C	ENSG00000177706	ENST00000477004	processed_transcript	KNOWN	None	22140	None	None	195242	208976	1	None	IMAGE:4942737, DKFZp547D065, DMP4
7	FAM20C	ENSG00000177706	ENST00000471328	processed_transcript	PUTATIVE	None	22140	None	None	195625	197575	1	None	IMAGE:4942737, DKFZp547D065, DMP4
7	FAM20C	ENSG00000177706	ENST00000515795	retained_intron	KNOWN	None	22140	None	None	285861	300711	1	None	IMAGE:4942737, DKFZp547D065, DMP4
7	FAM20C	ENSG00000177706	ENST00000512382	retained_intron	KNOWN	None	22140	None	None	296161	297419	1	None	IMAGE:4942737, DKFZp547D065, DMP4
2	PDE11A	ENSG00000128655	ENST00000286063	protein_coding	KNOWN	CCDS33334	8773	2802	933	178492797	178937482	-1	None	None
2	PDE11A	ENSG00000128655	ENST00000358450	protein_coding	KNOWN	CCDS42785	8773	2052	683	178492797	178973066	-1	None	None
2	PDE11A	ENSG00000128655	ENST00000436700	protein_coding	NOVEL	None	8773	409	135	178493340	178540388	-1	None	None
2	PDE11A	ENSG00000128655	ENST00000409504	protein_coding	KNOWN	CCDS46459	8773	1728	575	178493775	178787522	-1	None	None
2	PDE11A	ENSG00000128655	ENST00000478646	retained_intron	KNOWN	None	8773	None	None	178493903	178540280	-1	None	None
2	PDE11A	ENSG00000128655	ENST00000389683	protein_coding	KNOWN	CCDS42786	8773	1470	489	178493974	178753465	-1	None	None
2	PDE11A	ENSG00000128655	ENST00000488399	processed_transcript	KNOWN	None	8773	None	None	178494151	178540822	-1	None	None
2	PDE11A	ENSG00000128655	ENST00000466790	processed_transcript	KNOWN	None	8773	None	None	178534259	178548198	-1	None	None
2	PDE11A	ENSG00000128655	ENST00000433879	protein_coding	NOVEL	None	8773	1310	435	178540183	178769901	-1	None	None
2	PDE11A	ENSG00000128655	ENST00000497003	processed_transcript	KNOWN	None	8773	None	None	178551435	178791736	-1	None	None
2	PDE11A	ENSG00000128655	ENST00000492761	processed_transcript	KNOWN	None	8773	None	None	178661799	178753503	-1	None	None
2	PDE11A	ENSG00000128655	ENST00000427127	nonsense_mediated_decay	KNOWN	None	8773	111	36	178762841	178787564	-1	None	None
2	PDE11A	ENSG00000128655	ENST00000449286	protein_coding	KNOWN	CCDS46459	8773	1728	575	178494127	178787564	-1	None	None
2	PDE11A	ENSG00000128655	ENST00000450799	protein_coding	KNOWN	None	8773	375	124	178493340	178540388	-1	None	None
6	None	ENSG00000250903	ENST00000530346	lincRNA	KNOWN	None	None	None	None	2245982	2399235	1	None	None
6	None	ENSG00000250903	ENST00000524770	lincRNA	KNOWN	None	None	None	None	2246002	2397580	1	None	None
6	None	ENSG00000250903	ENST00000532124	lincRNA	KNOWN	None	None	None	None	2246002	2399000	1	None	None
6	None	ENSG00000250903	ENST00000531092	lincRNA	KNOWN	None	None	None	None	2246005	2398898	1	None	None
6	None	ENSG00000250903	ENST00000456943	lincRNA	KNOWN	None	None	None	None	2246011	2284008	1	None	None
6	None	ENSG00000250903	ENST00000529893	lincRNA	KNOWN	None	None	None	None	2246016	2398981	1	None	None
6	None	ENSG00000250903	ENST00000530833	lincRNA	KNOWN	None	None	None	None	2246059	2264362	1	None	None
6	None	ENSG00000250903	ENST00000525811	lincRNA	KNOWN	None	None	None	None	2246075	2284007	1	None	None
6	None	ENSG00000250903	ENST00000534441	lincRNA	KNOWN	None	None	None	None	2246076	2413064	1	None	None
6	None	ENSG00000250903	ENST00000533653	lincRNA	KNOWN	None	None	None	None	2246087	2270247	1	None	None
6	None	ENSG00000250903	ENST00000534468	lincRNA	KNOWN	None	None	None	None	2246089	2367549	1	None	None
6	None	ENSG00000250903	ENST00000534160	lincRNA	KNOWN	None	None	None	None	2306527	2352936	1	None	None
6	None	ENSG00000250903	ENST00000505870	lincRNA	KNOWN	None	None	None	None	2391780	2413825	1	None	None
6	None	ENSG00000250903	ENST00000532564	lincRNA	KNOWN	None	None	None	None	2398811	2413782	1	None	None
6	None	ENSG00000250903	ENST00000607519	lincRNA	KNOWN	None	None	None	None	2398891	2481352	1	None	None
6	None	ENSG00000250903	ENST00000606884	lincRNA	KNOWN	None	None	None	None	2452645	2482256	1	None	None
7	MRPL32	ENSG00000106591	ENST00000223324	protein_coding	KNOWN	CCDS5468	14035	567	188	42971799	42977456	1	None	HSPC283, L32mt, MRP-L32, bMRP-59b
7	MRPL32	ENSG00000106591	ENST00000432845	nonsense_mediated_decay	KNOWN	None	14035	324	107	42971975	42977226	1	None	HSPC283, L32mt, MRP-L32, bMRP-59b
7	MRPL32	ENSG00000106591	ENST00000413995	nonsense_mediated_decay	KNOWN	None	14035	128	41	42974620	42977456	1	None	HSPC283, L32mt, MRP-L32, bMRP-59b
7	MRPL32	ENSG00000106591	ENST00000496564	processed_transcript	KNOWN	None	14035	None	None	42974642	42988557	1	None	HSPC283, L32mt, MRP-L32, bMRP-59b
11	DDX25	ENSG00000109832	ENST00000525943	processed_transcript	KNOWN	None	18698	None	None	125773271	125792978	1	None	GRTH
11	DDX25	ENSG00000109832	ENST00000263576	protein_coding	KNOWN	CCDS44766	18698	1452	483	125774258	125793005	1	None	GRTH
11	DDX25	ENSG00000109832	ENST00000530414	protein_coding	PUTATIVE	None	18698	1407	468	125774404	125792151	1	None	GRTH
11	DDX25	ENSG00000109832	ENST00000530129	protein_coding	PUTATIVE	None	18698	574	190	125774564	125780289	1	None	GRTH
11	DDX25	ENSG00000109832	ENST00000526875	protein_coding	NOVEL	None	18698	1222	406	125775964	125792999	1	None	GRTH
11	DDX25	ENSG00000109832	ENST00000531000	retained_intron	KNOWN	None	18698	None	None	125790853	125793158	1	None	GRTH
11	DDX25	ENSG00000109832	ENST00000584970	nonsense_mediated_decay	KNOWN	None	18698	202	66	125791084	125792777	1	None	GRTH
11	DDX25	ENSG00000109832	ENST00000532928	retained_intron	KNOWN	None	18698	None	None	125791114	125792559	1	None	GRTH
19	MRI1	ENSG00000037757	ENST00000588526	retained_intron	KNOWN	None	28469	None	None	13875346	13879494	1	None	MGC3207, Ypr118w, mtnA, MRDI
19	MRI1	ENSG00000037757	ENST00000319545	protein_coding	KNOWN	CCDS12297	28469	969	322	13875346	13885096	1	None	MGC3207, Ypr118w, mtnA, MRDI
19	MRI1	ENSG00000037757	ENST00000593245	protein_coding	PUTATIVE	None	28469	746	247	13875363	13879371	1	None	MGC3207, Ypr118w, mtnA, MRDI
19	MRI1	ENSG00000037757	ENST00000591688	retained_intron	KNOWN	None	28469	None	None	13875363	13879684	1	None	MGC3207, Ypr118w, mtnA, MRDI
19	MRI1	ENSG00000037757	ENST00000040663	protein_coding	KNOWN	CCDS32923	28469	1110	369	13875363	13883680	1	None	MGC3207, Ypr118w, mtnA, MRDI
19	MRI1	ENSG00000037757	ENST00000589290	retained_intron	KNOWN	None	28469	None	None	13875395	13879395	1	None	MGC3207, Ypr118w, mtnA, MRDI
19	ZNF574	ENSG00000105732	ENST00000222339	protein_coding	KNOWN	None	26166	2961	986	42572629	42585562	1	None	FLJ22059
19	ZNF574	ENSG00000105732	ENST00000600245	protein_coding	KNOWN	CCDS12596	26166	2691	896	42574518	42585701	1	None	FLJ22059
19	ZNF574	ENSG00000105732	ENST00000597391	protein_coding	KNOWN	None	26166	376	124	42578823	42583134	1	None	FLJ22059
19	ZNF574	ENSG00000105732	ENST00000359044	protein_coding	KNOWN	CCDS12596	26166	2691	896	42580318	42585557	1	None	FLJ22059
16	C16orf97	ENSG00000261190	ENST00000568524	processed_transcript	KNOWN	None	44658	None	None	52039399	52112386	-1	None	None
16	C16orf97	ENSG00000261190	ENST00000566314	protein_coding	PUTATIVE	None	44658	147	48	52039402	52061283	-1	None	None
16	C16orf97	ENSG00000261190	ENST00000564986	retained_intron	KNOWN	None	44658	None	None	52039404	52041319	-1	None	None
16	C16orf97	ENSG00000261190	ENST00000564911	retained_intron	KNOWN	None	44658	None	None	52060264	52061282	-1	None	None
16	C16orf97	ENSG00000261190	ENST00000562818	protein_coding	PUTATIVE	CCDS58461	44658	381	126	52060264	52107814	-1	None	None
16	C16orf97	ENSG00000261190	ENST00000566628	protein_coding	PUTATIVE	None	44658	291	96	52060264	52108863	-1	None	None
5	None	ENSG00000250055	ENST00000510009	processed_pseudogene	KNOWN	None	None	None	None	17525344	17525938	1	None	None
5	None	ENSG00000250296	ENST00000510538	processed_pseudogene	KNOWN	None	None	None	None	17528778	17529372	1	None	None
X	RAB33A	ENSG00000134594	ENST00000257017	protein_coding	KNOWN	CCDS14621	9773	714	237	129305623	129318844	1	None	RabS10
19	None	ENSG00000268864	ENST00000600193	protein_coding	PUTATIVE	None	None	429	142	54102882	54106751	-1	None	None
17	None	ENSG00000175911	ENST00000321930	protein_coding	KNOWN	None	None	471	156	78977135	78978932	1	None	None
19	DPRX	ENSG00000204595	ENST00000376650	protein_coding	KNOWN	CCDS33103	32166	576	191	54135310	54140263	1	None	None
X	TIMP1	ENSG00000102265	ENST00000218388	protein_coding	KNOWN	CCDS14281	11820	624	207	47441712	47446188	1	TIMP, CLGI	EPO
X	TIMP1	ENSG00000102265	ENST00000456754	protein_coding	KNOWN	None	11820	411	136	47441807	47445422	1	TIMP, CLGI	EPO
X	TIMP1	ENSG00000102265	ENST00000377017	protein_coding	KNOWN	None	11820	432	143	47441849	47446188	1	TIMP, CLGI	EPO
X	TIMP1	ENSG00000102265	ENST00000441738	protein_coding	KNOWN	None	11820	287	94	47441908	47444653	1	TIMP, CLGI	EPO
X	TIMP1	ENSG00000102265	ENST00000445623	protein_coding	KNOWN	None	11820	497	164	47444741	47446188	1	TIMP, CLGI	EPO
X	TIMP1	ENSG00000102265	ENST00000377018	protein_coding	KNOWN	None	11820	786	261	47441736	47445482	1	TIMP, CLGI	EPO
16	TOX3	ENSG00000103460	ENST00000407228	protein_coding	KNOWN	CCDS54008	11972	1716	571	52471917	52581714	-1	TNRC9	CAGF9
16	TOX3	ENSG00000103460	ENST00000566696	retained_intron	KNOWN	None	11972	None	None	52471918	52479638	-1	TNRC9	CAGF9
16	TOX3	ENSG00000103460	ENST00000219746	protein_coding	KNOWN	CCDS54009	11972	1731	576	52471920	52580920	-1	TNRC9	CAGF9
16	TOX3	ENSG00000103460	ENST00000563091	protein_coding	PUTATIVE	None	11972	499	165	52484260	52581331	-1	TNRC9	CAGF9
16	TOX3	ENSG00000103460	ENST00000568436	nonsense_mediated_decay	KNOWN	None	11972	183	60	52497930	52580752	-1	TNRC9	CAGF9
6	GOPC	ENSG00000047932	ENST00000467125	processed_transcript	KNOWN	None	17643	None	None	117639374	117894734	-1	None	dJ94G16.2, PIST, FIG, GOPC1, CAL
6	GOPC	ENSG00000047932	ENST00000368498	protein_coding	KNOWN	CCDS5117	17643	1389	462	117881432	117923527	-1	None	dJ94G16.2, PIST, FIG, GOPC1, CAL
6	GOPC	ENSG00000047932	ENST00000052569	protein_coding	KNOWN	CCDS34523	17643	1365	454	117881432	117923691	-1	None	dJ94G16.2, PIST, FIG, GOPC1, CAL
6	GOPC	ENSG00000047932	ENST00000535237	protein_coding	KNOWN	None	17643	1389	462	117881432	117923681	-1	None	dJ94G16.2, PIST, FIG, GOPC1, CAL
19	C19orf45	ENSG00000198723	ENST00000596132	protein_coding	KNOWN	None	24745	670	222	7557862	7569099	1	None	FLJ35784
19	C19orf45	ENSG00000198723	ENST00000361664	protein_coding	KNOWN	CCDS12179	24745	1518	505	7562445	7573336	1	None	FLJ35784
19	C19orf45	ENSG00000198723	ENST00000597207	protein_coding	KNOWN	None	24745	542	179	7563813	7566250	1	None	FLJ35784
19	C19orf45	ENSG00000198723	ENST00000601176	protein_coding	KNOWN	None	24745	577	191	7564528	7566285	1	None	FLJ35784
19	C19orf45	ENSG00000198723	ENST00000596524	nonsense_mediated_decay	KNOWN	None	24745	273	90	7566159	7570952	1	None	FLJ35784
19	C19orf45	ENSG00000198723	ENST00000600112	retained_intron	KNOWN	None	24745	None	None	7570406	7571586	1	None	FLJ35784
19	C19orf45	ENSG00000198723	ENST00000601292	retained_intron	KNOWN	None	24745	None	None	7571681	7573333	1	None	FLJ35784
16	ADAMTS18	ENSG00000140873	ENST00000562332	protein_coding	PUTATIVE	None	17110	188	61	77281710	77323256	-1	ADAMTS21	None
16	ADAMTS18	ENSG00000140873	ENST00000282849	protein_coding	KNOWN	CCDS10926	17110	3666	1221	77316025	77469011	-1	ADAMTS21	None
16	ADAMTS18	ENSG00000140873	ENST00000568393	retained_intron	KNOWN	None	17110	None	None	77333936	77355033	-1	ADAMTS21	None
16	ADAMTS18	ENSG00000140873	ENST00000449265	nonsense_mediated_decay	KNOWN	None	17110	825	274	77389848	77468931	-1	ADAMTS21	None
16	ADAMTS18	ENSG00000140873	ENST00000562345	protein_coding	KNOWN	None	17110	556	184	77398249	77465484	-1	ADAMTS21	None
16	ADAMTS18	ENSG00000140873	ENST00000567914	retained_intron	KNOWN	None	17110	None	None	77401334	77465530	-1	ADAMTS21	None
16	ADAMTS18	ENSG00000140873	ENST00000567121	processed_transcript	PUTATIVE	None	17110	None	None	77401380	77466345	-1	ADAMTS21	None
16	ADAMTS18	ENSG00000140873	ENST00000564369	processed_transcript	PUTATIVE	None	17110	None	None	77401468	77468418	-1	ADAMTS21	None
16	ADAMTS18	ENSG00000140873	ENST00000569309	retained_intron	KNOWN	None	17110	None	None	77401507	77465643	-1	ADAMTS21	None
22	TYMP	ENSG00000025708	ENST00000395680	protein_coding	KNOWN	CCDS14096	3148	1449	482	50964181	50968428	-1	MNGIE, ECGF1	None
22	TYMP	ENSG00000025708	ENST00000395681	protein_coding	NOVEL	CCDS58811	3148	1464	487	50964181	50968444	-1	MNGIE, ECGF1	None
22	TYMP	ENSG00000025708	ENST00000252029	protein_coding	KNOWN	CCDS14096	3148	1449	482	50964181	50968485	-1	MNGIE, ECGF1	None
22	TYMP	ENSG00000025708	ENST00000487577	retained_intron	KNOWN	None	3148	None	None	50964184	50968425	-1	MNGIE, ECGF1	None
22	TYMP	ENSG00000025708	ENST00000395678	protein_coding	KNOWN	CCDS14096	3148	1449	482	50964185	50968461	-1	MNGIE, ECGF1	None
22	TYMP	ENSG00000025708	ENST00000476284	retained_intron	KNOWN	None	3148	None	None	50964186	50968447	-1	MNGIE, ECGF1	None
22	TYMP	ENSG00000025708	ENST00000425169	protein_coding	NOVEL	None	3148	1335	444	50964214	50968419	-1	MNGIE, ECGF1	None
22	TYMP	ENSG00000025708	ENST00000487162	retained_intron	KNOWN	None	3148	None	None	50966221	50968441	-1	MNGIE, ECGF1	None
X	ZNF280C	ENSG00000056277	ENST00000370978	protein_coding	KNOWN	CCDS14622	25955	2214	737	129336685	129402873	-1	SUHW3	FLJ20095, ZNF633
X	ZNF280C	ENSG00000056277	ENST00000447817	protein_coding	KNOWN	None	25955	1832	609	129349167	129402857	-1	SUHW3	FLJ20095, ZNF633
15	PLA2G4D	ENSG00000159337	ENST00000560932	retained_intron	KNOWN	None	30038	None	None	42359207	42364076	-1	None	cPLA2delta
15	PLA2G4D	ENSG00000159337	ENST00000290472	protein_coding	KNOWN	CCDS32203	30038	2457	818	42359881	42386752	-1	None	cPLA2delta
15	PLA2G4D	ENSG00000159337	ENST00000560132	retained_intron	KNOWN	None	30038	None	None	42373315	42376236	-1	None	cPLA2delta
16	ITGAM	ENSG00000169896	ENST00000287497	protein_coding	KNOWN	CCDS45470	6149	3459	1152	31271311	31343089	1	CR3A, CD11B	MAC-1, CD11b
16	ITGAM	ENSG00000169896	ENST00000544665	protein_coding	KNOWN	CCDS54004	6149	3462	1153	31271315	31344213	1	CR3A, CD11B	MAC-1, CD11b
16	ITGAM	ENSG00000169896	ENST00000570242	retained_intron	KNOWN	None	6149	None	None	31283206	31285005	1	CR3A, CD11B	MAC-1, CD11b
16	ITGAM	ENSG00000169896	ENST00000567031	protein_coding	NOVEL	None	6149	494	163	31286913	31335760	1	CR3A, CD11B	MAC-1, CD11b
16	ITGAM	ENSG00000169896	ENST00000561838	retained_intron	KNOWN	None	6149	None	None	31335999	31338289	1	CR3A, CD11B	MAC-1, CD11b
16	ITGAM	ENSG00000169896	ENST00000567178	retained_intron	KNOWN	None	6149	None	None	31339358	31341226	1	CR3A, CD11B	MAC-1, CD11b
16	ITGAM	ENSG00000169896	ENST00000569746	retained_intron	KNOWN	None	6149	None	None	31340323	31341373	1	CR3A, CD11B	MAC-1, CD11b
16	ITGAM	ENSG00000169896	ENST00000565142	protein_coding	PUTATIVE	None	6149	354	117	31341701	31342857	1	CR3A, CD11B	MAC-1, CD11b
19	CIB3	ENSG00000141977	ENST00000269878	protein_coding	KNOWN	CCDS12340	24580	564	187	16272179	16284336	-1	None	KIP3
19	CIB3	ENSG00000141977	ENST00000379859	protein_coding	NOVEL	None	24580	417	138	16272226	16284286	-1	None	KIP3
19	CIB3	ENSG00000141977	ENST00000597251	nonsense_mediated_decay	KNOWN	None	24580	138	45	16272226	16284286	-1	None	KIP3
19	CIB3	ENSG00000141977	ENST00000541493	processed_transcript	KNOWN	None	24580	None	None	16272226	16284286	-1	None	KIP3
5	None	ENSG00000250807	ENST00000506051	processed_pseudogene	KNOWN	None	None	None	None	17585271	17585867	-1	None	None
5	None	ENSG00000250807	ENST00000425811	processed_pseudogene	KNOWN	None	None	None	None	17585271	17585876	-1	None	None
4	HMGB2	ENSG00000164104	ENST00000296503	protein_coding	KNOWN	CCDS3816	5000	630	209	174252846	174256276	-1	HMG2	None
4	HMGB2	ENSG00000164104	ENST00000438704	protein_coding	KNOWN	CCDS3816	5000	630	209	174252852	174254823	-1	HMG2	None
4	HMGB2	ENSG00000164104	ENST00000446922	protein_coding	KNOWN	CCDS3816	5000	630	209	174252852	174255542	-1	HMG2	None
4	HMGB2	ENSG00000164104	ENST00000511316	retained_intron	KNOWN	None	5000	None	None	174252856	174255583	-1	HMG2	None
4	HMGB2	ENSG00000164104	ENST00000506267	protein_coding	KNOWN	None	5000	403	133	174254040	174255400	-1	HMG2	None
11	VEGFB	ENSG00000173511	ENST00000309422	protein_coding	KNOWN	CCDS8062	12681	624	207	64002010	64006259	1	VRF	VEGFL
11	VEGFB	ENSG00000173511	ENST00000426086	protein_coding	KNOWN	CCDS58144	12681	567	188	64002292	64006247	1	VRF	VEGFL
11	VEGFB	ENSG00000173511	ENST00000543462	retained_intron	KNOWN	None	12681	None	None	64004599	64006259	1	VRF	VEGFL
11	VEGFB	ENSG00000173511	ENST00000541681	protein_coding	PUTATIVE	None	12681	98	31	64005008	64005373	1	VRF	VEGFL
2	RBM45	ENSG00000155636	ENST00000424000	retained_intron	KNOWN	None	24468	None	None	178977151	178994383	1	None	DRB1, FLJ44612
2	RBM45	ENSG00000155636	ENST00000286070	protein_coding	KNOWN	CCDS33335	24468	1425	474	178977182	178994383	1	None	DRB1, FLJ44612
2	RBM45	ENSG00000155636	ENST00000493048	retained_intron	KNOWN	None	24468	None	None	178985731	178989017	1	None	DRB1, FLJ44612
2	RBM45	ENSG00000155636	ENST00000455903	protein_coding	KNOWN	None	24468	407	134	178988590	179001531	1	None	DRB1, FLJ44612
2	RBM45	ENSG00000155636	ENST00000424099	protein_coding	NOVEL	None	24468	220	72	178990452	178994383	1	None	DRB1, FLJ44612
2	RBM45	ENSG00000155636	ENST00000464647	processed_transcript	KNOWN	None	24468	None	None	178990866	179001503	1	None	DRB1, FLJ44612
7	None	ENSG00000268891	ENST00000594196	protein_coding	NOVEL	None	None	78	25	74999908	75005425	-1	None	None
6	CD109	ENSG00000156535	ENST00000287097	protein_coding	KNOWN	CCDS4982	21685	4338	1445	74405827	74538037	1	None	FLJ38569, DKFZp762L1111, CPAMD7
6	CD109	ENSG00000156535	ENST00000474094	processed_transcript	KNOWN	None	21685	None	None	74502378	74513799	1	None	FLJ38569, DKFZp762L1111, CPAMD7
6	CD109	ENSG00000156535	ENST00000437994	protein_coding	KNOWN	CCDS55038	21685	4287	1428	74405508	74538040	1	None	FLJ38569, DKFZp762L1111, CPAMD7
6	CD109	ENSG00000156535	ENST00000422508	protein_coding	KNOWN	CCDS55039	21685	4107	1368	74405508	74538040	1	None	FLJ38569, DKFZp762L1111, CPAMD7
1	C1orf132	ENSG00000203709	ENST00000487977	processed_transcript	KNOWN	None	32018	None	None	207986905	207996048	-1	None	FLJ35650
1	C1orf132	ENSG00000203709	ENST00000415882	protein_coding	KNOWN	None	32018	437	144	207990582	208042495	-1	None	FLJ35650
2	ROCK2	ENSG00000134318	ENST00000315872	protein_coding	KNOWN	CCDS42654	10252	4167	1388	11319887	11484711	-1	None	None
2	ROCK2	ENSG00000134318	ENST00000401753	protein_coding	PUTATIVE	None	10252	3438	1145	11323457	11374796	-1	None	None
2	ROCK2	ENSG00000134318	ENST00000493096	retained_intron	KNOWN	None	10252	None	None	11332802	11335336	-1	None	None
2	ROCK2	ENSG00000134318	ENST00000460262	retained_intron	KNOWN	None	10252	None	None	11334036	11335242	-1	None	None
2	ROCK2	ENSG00000134318	ENST00000261535	nonsense_mediated_decay	KNOWN	None	10252	1341	446	11355486	11484267	-1	None	None
2	ROCK2	ENSG00000134318	ENST00000484951	retained_intron	KNOWN	None	10252	None	None	11357902	11361466	-1	None	None
2	ROCK2	ENSG00000134318	ENST00000431087	protein_coding	PUTATIVE	None	10252	611	202	11361453	11427863	-1	None	None
2	ROCK2	ENSG00000134318	ENST00000462366	processed_transcript	KNOWN	None	10252	None	None	11376010	11488456	-1	None	None
5	SEC24A	ENSG00000113615	ENST00000398844	protein_coding	KNOWN	CCDS43363	10703	3282	1093	133984479	134063513	1	None	None
5	SEC24A	ENSG00000113615	ENST00000322887	protein_coding	PUTATIVE	CCDS58967	10703	1842	613	133984514	134029388	1	None	None
5	SEC24A	ENSG00000113615	ENST00000513123	protein_coding	PUTATIVE	None	10703	452	149	134015401	134028581	1	None	None
X	VCX3A	ENSG00000169059	ENST00000381089	protein_coding	KNOWN	CCDS35199	18159	561	186	6451659	6453159	-1	VCX3	VCX-8r, VCX-8R, VCX-A
X	VCX3A	ENSG00000169059	ENST00000398729	protein_coding	KNOWN	None	18159	501	166	6451786	6453159	-1	VCX3	VCX-8r, VCX-8R, VCX-A
7	TRIM73	ENSG00000178809	ENST00000450434	protein_coding	PUTATIVE	None	18162	360	119	75024337	75034896	1	TRIM50B	None
7	TRIM73	ENSG00000178809	ENST00000463766	processed_transcript	PUTATIVE	None	18162	None	None	75024435	75028314	1	TRIM50B	None
7	TRIM73	ENSG00000178809	ENST00000430211	protein_coding	PUTATIVE	None	18162	849	282	75025030	75040279	1	TRIM50B	None
7	TRIM73	ENSG00000178809	ENST00000437796	protein_coding	KNOWN	CCDS34665	18162	753	250	75028199	75034888	1	TRIM50B	None
7	TRIM73	ENSG00000178809	ENST00000483979	retained_intron	KNOWN	None	18162	None	None	75030902	75034888	1	TRIM50B	None
7	TRIM73	ENSG00000178809	ENST00000323819	protein_coding	KNOWN	CCDS34665	18162	753	250	75024903	75034888	1	TRIM50B	None
7	TRIM73	ENSG00000178809	ENST00000447409	protein_coding	KNOWN	None	18162	750	249	75027418	75034888	1	TRIM50B	None
19	NLRP12	ENSG00000142405	ENST00000324134	protein_coding	KNOWN	CCDS12864	22938	3186	1061	54296857	54327597	-1	NALP12	RNO2, PYPAF7, Monarch1, PAN6, CLR19.3
19	NLRP12	ENSG00000142405	ENST00000391775	protein_coding	NOVEL	None	22938	3015	1004	54296996	54327571	-1	NALP12	RNO2, PYPAF7, Monarch1, PAN6, CLR19.3
19	NLRP12	ENSG00000142405	ENST00000492915	retained_intron	KNOWN	None	22938	None	None	54296997	54311959	-1	NALP12	RNO2, PYPAF7, Monarch1, PAN6, CLR19.3
19	NLRP12	ENSG00000142405	ENST00000391773	protein_coding	NOVEL	None	22938	3189	1062	54296997	54327648	-1	NALP12	RNO2, PYPAF7, Monarch1, PAN6, CLR19.3
19	NLRP12	ENSG00000142405	ENST00000345770	protein_coding	KNOWN	None	22938	3021	1006	54296997	54327648	-1	NALP12	RNO2, PYPAF7, Monarch1, PAN6, CLR19.3
19	NLRP12	ENSG00000142405	ENST00000391772	protein_coding	NOVEL	None	22938	2679	892	54296997	54327648	-1	NALP12	RNO2, PYPAF7, Monarch1, PAN6, CLR19.3
19	NLRP12	ENSG00000142405	ENST00000535162	protein_coding	KNOWN	None	22938	3015	1004	54296857	54327648	-1	NALP12	RNO2, PYPAF7, Monarch1, PAN6, CLR19.3
19	NLRP12	ENSG00000142405	ENST00000351894	protein_coding	KNOWN	None	22938	2850	949	54296857	54327648	-1	NALP12	RNO2, PYPAF7, Monarch1, PAN6, CLR19.3
19	NLRP12	ENSG00000142405	ENST00000354278	protein_coding	KNOWN	None	22938	2679	892	54296857	54327648	-1	NALP12	RNO2, PYPAF7, Monarch1, PAN6, CLR19.3
5	None	ENSG00000250088	ENST00000504574	processed_pseudogene	KNOWN	None	None	None	None	17587399	17587632	-1	None	None
5	None	ENSG00000250558	ENST00000505742	processed_pseudogene	KNOWN	None	None	None	None	17590473	17591069	-1	None	None
5	None	ENSG00000249427	ENST00000505258	processed_pseudogene	KNOWN	None	None	None	None	17593907	17594503	-1	None	None
20	APCDD1L	ENSG00000198768	ENST00000371149	protein_coding	KNOWN	CCDS13467	26892	1506	501	57034157	57089994	-1	None	FLJ90166
20	APCDD1L	ENSG00000198768	ENST00000491015	processed_transcript	KNOWN	None	26892	None	None	57036181	57037036	-1	None	FLJ90166
20	APCDD1L	ENSG00000198768	ENST00000425773	protein_coding	PUTATIVE	None	26892	240	79	57042696	57090187	-1	None	FLJ90166
20	APCDD1L	ENSG00000198768	ENST00000439429	protein_coding	KNOWN	None	26892	1539	512	57035673	57089953	-1	None	FLJ90166
9	ENG	ENSG00000106991	ENST00000373203	protein_coding	KNOWN	CCDS48029	3349	1977	658	130577291	130617035	-1	ORW1, ORW	END, HHT1, CD105
9	ENG	ENSG00000106991	ENST00000344849	protein_coding	KNOWN	CCDS6880	3349	1878	625	130577296	130616915	-1	ORW1, ORW	END, HHT1, CD105
9	ENG	ENSG00000106991	ENST00000480266	processed_transcript	KNOWN	None	3349	None	None	130579428	130587543	-1	ORW1, ORW	END, HHT1, CD105
9	ENG	ENSG00000106991	ENST00000486329	processed_transcript	KNOWN	None	3349	None	None	130581517	130586684	-1	ORW1, ORW	END, HHT1, CD105
9	ENG	ENSG00000106991	ENST00000462196	processed_transcript	KNOWN	None	3349	None	None	130588068	130592083	-1	ORW1, ORW	END, HHT1, CD105
6	C4A	ENSG00000244731	ENST00000428956	protein_coding	KNOWN	CCDS47404	1323	5235	1744	31949801	31970458	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
6	C4A	ENSG00000244731	ENST00000498271	protein_coding	NOVEL	CCDS59005	1323	5097	1698	31949845	31970449	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
6	C4A	ENSG00000244731	ENST00000467749	retained_intron	KNOWN	None	1323	None	None	31950620	31951336	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
6	C4A	ENSG00000244731	ENST00000467948	processed_transcript	KNOWN	None	1323	None	None	31950658	31952175	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
6	C4A	ENSG00000244731	ENST00000460841	retained_intron	KNOWN	None	1323	None	None	31959954	31961753	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
6	C4A	ENSG00000244731	ENST00000483974	retained_intron	KNOWN	None	1323	None	None	31962185	31963129	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
6	C4A	ENSG00000244731	ENST00000496659	retained_intron	KNOWN	None	1323	None	None	31962358	31963404	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
6	C4A	ENSG00000244731	ENST00000480795	retained_intron	KNOWN	None	1323	None	None	31964294	31965173	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
6	C4A	ENSG00000244731	ENST00000470365	retained_intron	KNOWN	None	1323	None	None	31965435	31968831	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
6	C4A	ENSG00000244731	ENST00000460060	retained_intron	KNOWN	None	1323	None	None	31965519	31967496	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
6	C4A	ENSG00000244731	ENST00000471624	retained_intron	KNOWN	None	1323	None	None	31966628	31967307	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
6	C4A	ENSG00000244731	ENST00000463034	retained_intron	KNOWN	None	1323	None	None	31966932	31970375	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
6	C4A	ENSG00000244731	ENST00000491876	retained_intron	KNOWN	None	1323	None	None	31966977	31970274	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
6	C4A	ENSG00000244731	ENST00000469975	retained_intron	KNOWN	None	1323	None	None	31968775	31970441	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
6	C4A	ENSG00000244731	ENST00000465724	retained_intron	KNOWN	None	1323	None	None	31968904	31970032	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
6	C4A	ENSG00000244731	ENST00000477424	retained_intron	KNOWN	None	1323	None	None	31968984	31969555	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
6	C4A	ENSG00000244731	ENST00000490663	retained_intron	KNOWN	None	1323	None	None	31969037	31969645	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
6	C4A	ENSG00000244731	ENST00000537134	protein_coding	KNOWN	None	1323	813	270	31950150	31952193	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
1	CD34	ENSG00000174059	ENST00000485761	processed_transcript	KNOWN	None	1662	None	None	208057594	208072479	-1	None	None
1	CD34	ENSG00000174059	ENST00000367036	protein_coding	KNOWN	None	1662	684	227	208059884	208063837	-1	None	None
1	CD34	ENSG00000174059	ENST00000310833	protein_coding	KNOWN	CCDS31011	1662	1158	385	208059884	208084747	-1	None	None
1	CD34	ENSG00000174059	ENST00000356522	protein_coding	KNOWN	CCDS31012	1662	987	328	208059884	208084747	-1	None	None
1	CD34	ENSG00000174059	ENST00000537704	protein_coding	KNOWN	None	1662	753	250	208060661	208084461	-1	None	None
12	PTPRB	ENSG00000127329	ENST00000334414	protein_coding	KNOWN	CCDS44943	9665	6648	2215	70910630	71031220	-1	PTPB	None
12	PTPRB	ENSG00000127329	ENST00000550358	protein_coding	NOVEL	None	9665	6384	2127	70915096	71031201	-1	PTPB	None
12	PTPRB	ENSG00000127329	ENST00000538708	protein_coding	NOVEL	CCDS55846	9665	5724	1907	70915183	71003623	-1	PTPB	None
12	PTPRB	ENSG00000127329	ENST00000550857	protein_coding	KNOWN	CCDS55845	9665	5724	1907	70915183	71003623	-1	PTPB	None
12	PTPRB	ENSG00000127329	ENST00000261266	protein_coding	KNOWN	CCDS44944	9665	5994	1997	70915183	71003624	-1	PTPB	None
12	PTPRB	ENSG00000127329	ENST00000549400	retained_intron	KNOWN	None	9665	None	None	70933194	70933839	-1	PTPB	None
12	PTPRB	ENSG00000127329	ENST00000551525	protein_coding	PUTATIVE	None	9665	4752	1583	70952568	71031200	-1	PTPB	None
12	PTPRB	ENSG00000127329	ENST00000548122	protein_coding	NOVEL	None	9665	4221	1406	70953253	71031191	-1	PTPB	None
12	PTPRB	ENSG00000127329	ENST00000538174	processed_transcript	KNOWN	None	9665	None	None	70978745	71031194	-1	PTPB	None
12	PTPRB	ENSG00000127329	ENST00000552253	retained_intron	KNOWN	None	9665	None	None	70985514	71031220	-1	PTPB	None
12	PTPRB	ENSG00000127329	ENST00000547715	protein_coding	PUTATIVE	None	9665	310	102	71002509	71003568	-1	PTPB	None
12	PTPRB	ENSG00000127329	ENST00000451516	protein_coding	KNOWN	None	9665	5724	1907	70910630	71003594	-1	PTPB	None
1	ADAMTSL4	ENSG00000143382	ENST00000369041	protein_coding	KNOWN	CCDS30852	19706	2634	877	150521884	150531224	1	TSRC1	DKFZP434K1772
1	ADAMTSL4	ENSG00000143382	ENST00000483335	processed_transcript	KNOWN	None	19706	None	None	150521897	150524382	1	TSRC1	DKFZP434K1772
1	ADAMTSL4	ENSG00000143382	ENST00000369038	protein_coding	KNOWN	CCDS955	19706	3225	1074	150524564	150533413	1	TSRC1	DKFZP434K1772
1	ADAMTSL4	ENSG00000143382	ENST00000489159	retained_intron	KNOWN	None	19706	None	None	150530730	150533413	1	TSRC1	DKFZP434K1772
1	ADAMTSL4	ENSG00000143382	ENST00000271643	protein_coding	KNOWN	CCDS955	19706	3225	1074	150521898	150533408	1	TSRC1	DKFZP434K1772
1	ADAMTSL4	ENSG00000143382	ENST00000369039	protein_coding	KNOWN	None	19706	3294	1097	150522315	150533143	1	TSRC1	DKFZP434K1772
4	SH3BP2	ENSG00000087266	ENST00000452765	protein_coding	KNOWN	CCDS33944	10825	1686	561	2794750	2836020	1	None	RES4-23, CRBM
4	SH3BP2	ENSG00000087266	ENST00000503219	protein_coding	KNOWN	None	10825	428	141	2794798	2826923	1	None	RES4-23, CRBM
4	SH3BP2	ENSG00000087266	ENST00000512131	retained_intron	KNOWN	None	10825	None	None	2794799	2826644	1	None	RES4-23, CRBM
4	SH3BP2	ENSG00000087266	ENST00000510193	processed_transcript	KNOWN	None	10825	None	None	2795451	2798373	1	None	RES4-23, CRBM
4	SH3BP2	ENSG00000087266	ENST00000511237	retained_intron	KNOWN	None	10825	None	None	2795886	2826509	1	None	RES4-23, CRBM
4	SH3BP2	ENSG00000087266	ENST00000510074	retained_intron	KNOWN	None	10825	None	None	2795886	2826641	1	None	RES4-23, CRBM
4	SH3BP2	ENSG00000087266	ENST00000504294	protein_coding	KNOWN	None	10825	517	171	2800291	2829045	1	None	RES4-23, CRBM
4	SH3BP2	ENSG00000087266	ENST00000508385	protein_coding	KNOWN	None	10825	564	187	2800725	2829379	1	None	RES4-23, CRBM
4	SH3BP2	ENSG00000087266	ENST00000513020	nonsense_mediated_decay	KNOWN	None	10825	294	97	2800796	2826947	1	None	RES4-23, CRBM
4	SH3BP2	ENSG00000087266	ENST00000511663	retained_intron	KNOWN	None	10825	None	None	2811506	2829044	1	None	RES4-23, CRBM
4	SH3BP2	ENSG00000087266	ENST00000512014	protein_coding	KNOWN	None	10825	582	193	2813525	2829397	1	None	RES4-23, CRBM
4	SH3BP2	ENSG00000087266	ENST00000513095	protein_coding	KNOWN	None	10825	410	135	2813657	2826905	1	None	RES4-23, CRBM
4	SH3BP2	ENSG00000087266	ENST00000502260	protein_coding	KNOWN	None	10825	428	141	2814017	2826923	1	None	RES4-23, CRBM
4	SH3BP2	ENSG00000087266	ENST00000511185	retained_intron	KNOWN	None	10825	None	None	2814028	2829023	1	None	RES4-23, CRBM
4	SH3BP2	ENSG00000087266	ENST00000435136	protein_coding	KNOWN	CCDS33944	10825	1686	561	2814031	2836015	1	None	RES4-23, CRBM
4	SH3BP2	ENSG00000087266	ENST00000508338	processed_transcript	KNOWN	None	10825	None	None	2816561	2819952	1	None	RES4-23, CRBM
4	SH3BP2	ENSG00000087266	ENST00000511747	protein_coding	KNOWN	CCDS33944	10825	1686	561	2819912	2836016	1	None	RES4-23, CRBM
4	SH3BP2	ENSG00000087266	ENST00000509677	retained_intron	KNOWN	None	10825	None	None	2820443	2826828	1	None	RES4-23, CRBM
4	SH3BP2	ENSG00000087266	ENST00000515737	nonsense_mediated_decay	KNOWN	None	10825	294	97	2820541	2836014	1	None	RES4-23, CRBM
4	SH3BP2	ENSG00000087266	ENST00000356331	protein_coding	KNOWN	CCDS33944	10825	1686	561	2820541	2842825	1	None	RES4-23, CRBM
4	SH3BP2	ENSG00000087266	ENST00000506932	retained_intron	KNOWN	None	10825	None	None	2822396	2826509	1	None	RES4-23, CRBM
4	SH3BP2	ENSG00000087266	ENST00000515183	processed_transcript	KNOWN	None	10825	None	None	2826392	2831461	1	None	RES4-23, CRBM
4	SH3BP2	ENSG00000087266	ENST00000505941	retained_intron	KNOWN	None	10825	None	None	2826478	2831532	1	None	RES4-23, CRBM
4	SH3BP2	ENSG00000087266	ENST00000510204	retained_intron	KNOWN	None	10825	None	None	2828052	2836016	1	None	RES4-23, CRBM
4	SH3BP2	ENSG00000087266	ENST00000515802	retained_intron	KNOWN	None	10825	None	None	2828423	2836016	1	None	RES4-23, CRBM
4	SH3BP2	ENSG00000087266	ENST00000504450	retained_intron	KNOWN	None	10825	None	None	2828577	2834775	1	None	RES4-23, CRBM
4	SH3BP2	ENSG00000087266	ENST00000513069	nonsense_mediated_decay	KNOWN	None	10825	571	189	2831524	2835687	1	None	RES4-23, CRBM
4	SH3BP2	ENSG00000087266	ENST00000442312	protein_coding	KNOWN	CCDS54715	10825	1770	589	2813946	2842823	1	None	RES4-23, CRBM
4	SH3BP2	ENSG00000087266	ENST00000503393	protein_coding	KNOWN	CCDS54716	10825	1857	618	2819912	2842823	1	None	RES4-23, CRBM
4	SH3BP2	ENSG00000087266	ENST00000389838	protein_coding	KNOWN	None	10825	294	97	2794750	2825176	1	None	RES4-23, CRBM
6	FRS3	ENSG00000137218	ENST00000373018	protein_coding	KNOWN	CCDS4860	16970	1479	492	41737914	41747638	-1	None	SNT-2, FRS2beta, FRS2B
6	FRS3	ENSG00000137218	ENST00000426290	protein_coding	PUTATIVE	None	16970	441	146	41740582	41748204	-1	None	SNT-2, FRS2beta, FRS2B
6	FRS3	ENSG00000137218	ENST00000422888	protein_coding	KNOWN	None	16970	109	35	41743301	41754280	-1	None	SNT-2, FRS2beta, FRS2B
6	FRS3	ENSG00000137218	ENST00000466420	processed_transcript	KNOWN	None	16970	None	None	41744157	41745914	-1	None	SNT-2, FRS2beta, FRS2B
6	FRS3	ENSG00000137218	ENST00000259748	protein_coding	KNOWN	CCDS4860	16970	1479	492	41737914	41745919	-1	None	SNT-2, FRS2beta, FRS2B
6	HMGN2P28	ENSG00000236086	ENST00000606102	processed_pseudogene	KNOWN	None	39395	None	None	2341684	2341945	1	None	None
6	HMGN2P28	ENSG00000236086	ENST00000457049	processed_pseudogene	KNOWN	None	39395	None	None	2341684	2341950	1	None	None
6	None	ENSG00000266252	ENST00000581432	miRNA	NOVEL	None	None	None	None	2409770	2409869	-1	None	None
6	None	ENSG00000272465	ENST00000606542	lincRNA	KNOWN	None	None	None	None	2437783	2438483	1	None	None
X	HDHD1	ENSG00000130021	ENST00000381077	protein_coding	KNOWN	CCDS48075	16818	687	228	6966961	7066231	-1	FAM16AX, HDHD1A	DXF68S1E, GS1
X	HDHD1	ENSG00000130021	ENST00000412827	protein_coding	NOVEL	CCDS55367	16818	558	185	6967559	7066194	-1	FAM16AX, HDHD1A	DXF68S1E, GS1
X	HDHD1	ENSG00000130021	ENST00000424830	protein_coding	KNOWN	CCDS48076	16818	756	251	6967804	7066199	-1	FAM16AX, HDHD1A	DXF68S1E, GS1
X	HDHD1	ENSG00000130021	ENST00000486446	protein_coding	NOVEL	None	16818	574	190	6975801	7066166	-1	FAM16AX, HDHD1A	DXF68S1E, GS1
X	HDHD1	ENSG00000130021	ENST00000498474	processed_transcript	KNOWN	None	16818	None	None	7002792	7066193	-1	FAM16AX, HDHD1A	DXF68S1E, GS1
X	HDHD1	ENSG00000130021	ENST00000540122	protein_coding	KNOWN	CCDS55366	16818	627	208	6975627	7066231	-1	FAM16AX, HDHD1A	DXF68S1E, GS1
6	None	ENSG00000228718	ENST00000440848	lincRNA	KNOWN	None	None	None	None	2637170	2640235	1	None	None
6	MIR4645	ENSG00000266750	ENST00000583158	miRNA	KNOWN	None	41689	None	None	2854265	2854341	-1	None	hsa-mir-4645
7	None	ENSG00000249852	ENST00000514988	protein_coding	PUTATIVE	None	None	465	154	227554	229557	-1	None	None
6	None	ENSG00000230438	ENST00000545177	lincRNA	KNOWN	None	None	None	None	2854891	2876661	-1	None	None
6	None	ENSG00000230438	ENST00000420981	lincRNA	KNOWN	None	None	None	None	2855160	2876744	-1	None	None
1	ST3GAL3	ENSG00000126091	ENST00000532911	nonsense_mediated_decay	KNOWN	None	10866	258	85	44171495	44303918	1	SIAT6	None
1	ST3GAL3	ENSG00000126091	ENST00000489897	nonsense_mediated_decay	KNOWN	None	10866	366	121	44173216	44395891	1	SIAT6	None
1	ST3GAL3	ENSG00000126091	ENST00000530154	nonsense_mediated_decay	KNOWN	None	10866	321	106	44173218	44385889	1	SIAT6	None
1	ST3GAL3	ENSG00000126091	ENST00000361392	protein_coding	KNOWN	CCDS492	10866	1128	375	44173218	44396831	1	SIAT6	None
1	ST3GAL3	ENSG00000126091	ENST00000361400	protein_coding	KNOWN	CCDS497	10866	1080	359	44173218	44396831	1	SIAT6	None
1	ST3GAL3	ENSG00000126091	ENST00000479383	nonsense_mediated_decay	KNOWN	None	10866	258	85	44173229	44303923	1	SIAT6	None
1	ST3GAL3	ENSG00000126091	ENST00000347631	protein_coding	KNOWN	CCDS494	10866	1173	390	44173244	44395893	1	SIAT6	None
1	ST3GAL3	ENSG00000126091	ENST00000484868	processed_transcript	KNOWN	None	10866	None	None	44173311	44237670	1	SIAT6	None
1	ST3GAL3	ENSG00000126091	ENST00000461066	nonsense_mediated_decay	KNOWN	None	10866	303	100	44173314	44303983	1	SIAT6	None
1	ST3GAL3	ENSG00000126091	ENST00000361812	protein_coding	KNOWN	CCDS499	10866	513	170	44201934	44395874	1	SIAT6	None
1	ST3GAL3	ENSG00000126091	ENST00000372362	protein_coding	KNOWN	CCDS500	10866	468	155	44201934	44395874	1	SIAT6	None
1	ST3GAL3	ENSG00000126091	ENST00000531451	protein_coding	KNOWN	CCDS53310	10866	420	139	44201934	44395874	1	SIAT6	None
1	ST3GAL3	ENSG00000126091	ENST00000372369	protein_coding	KNOWN	CCDS57988	10866	1038	345	44201934	44395893	1	SIAT6	None
1	ST3GAL3	ENSG00000126091	ENST00000361746	protein_coding	KNOWN	CCDS493	10866	1335	444	44201934	44395893	1	SIAT6	None
1	ST3GAL3	ENSG00000126091	ENST00000372367	protein_coding	KNOWN	CCDS57993	10866	606	201	44201934	44395893	1	SIAT6	None
1	ST3GAL3	ENSG00000126091	ENST00000372366	protein_coding	KNOWN	CCDS57994	10866	558	185	44201934	44395893	1	SIAT6	None
1	ST3GAL3	ENSG00000126091	ENST00000372365	protein_coding	KNOWN	None	10866	561	186	44201934	44395893	1	SIAT6	None
1	ST3GAL3	ENSG00000126091	ENST00000372368	protein_coding	KNOWN	CCDS496	10866	1290	429	44201934	44395893	1	SIAT6	None
1	ST3GAL3	ENSG00000126091	ENST00000372372	protein_coding	KNOWN	CCDS498	10866	1242	413	44201934	44395893	1	SIAT6	None
1	ST3GAL3	ENSG00000126091	ENST00000490541	nonsense_mediated_decay	KNOWN	None	10866	222	73	44201934	44395893	1	SIAT6	None
1	ST3GAL3	ENSG00000126091	ENST00000469715	nonsense_mediated_decay	KNOWN	None	10866	570	189	44201934	44395893	1	SIAT6	None
1	ST3GAL3	ENSG00000126091	ENST00000528371	protein_coding	KNOWN	CCDS57991	10866	561	186	44201934	44395893	1	SIAT6	None
1	ST3GAL3	ENSG00000126091	ENST00000531993	protein_coding	KNOWN	CCDS57990	10866	786	261	44201934	44395893	1	SIAT6	None
1	ST3GAL3	ENSG00000126091	ENST00000533933	protein_coding	KNOWN	CCDS495	10866	834	277	44201934	44395893	1	SIAT6	None
1	ST3GAL3	ENSG00000126091	ENST00000533212	nonsense_mediated_decay	KNOWN	None	10866	456	151	44201934	44395893	1	SIAT6	None
1	ST3GAL3	ENSG00000126091	ENST00000533997	nonsense_mediated_decay	KNOWN	None	10866	348	115	44201934	44395893	1	SIAT6	None
1	ST3GAL3	ENSG00000126091	ENST00000530581	nonsense_mediated_decay	KNOWN	None	10866	687	228	44201934	44395893	1	SIAT6	None
1	ST3GAL3	ENSG00000126091	ENST00000332628	protein_coding	KNOWN	CCDS57989	10866	1035	344	44201934	44395893	1	SIAT6	None
1	ST3GAL3	ENSG00000126091	ENST00000531816	protein_coding	KNOWN	CCDS57992	10866	306	101	44201934	44395893	1	SIAT6	None
1	ST3GAL3	ENSG00000126091	ENST00000461375	processed_transcript	KNOWN	None	10866	None	None	44257779	44386176	1	SIAT6	None
1	ST3GAL3	ENSG00000126091	ENST00000490502	protein_coding	PUTATIVE	None	10866	592	196	44365260	44395848	1	SIAT6	None
1	ST3GAL3	ENSG00000126091	ENST00000495482	retained_intron	KNOWN	None	10866	None	None	44385795	44396115	1	SIAT6	None
1	ST3GAL3	ENSG00000126091	ENST00000262915	protein_coding	KNOWN	CCDS493	10866	1335	444	44173218	44396830	1	SIAT6	None
1	ST3GAL3	ENSG00000126091	ENST00000372375	protein_coding	KNOWN	CCDS496	10866	1290	429	44173218	44396830	1	SIAT6	None
1	ST3GAL3	ENSG00000126091	ENST00000351035	protein_coding	KNOWN	CCDS498	10866	1242	413	44173218	44396830	1	SIAT6	None
1	ST3GAL3	ENSG00000126091	ENST00000372374	protein_coding	KNOWN	CCDS57989	10866	1035	344	44173218	44396830	1	SIAT6	None
1	ST3GAL3	ENSG00000126091	ENST00000353126	protein_coding	KNOWN	CCDS495	10866	834	277	44173218	44396830	1	SIAT6	None
1	ST3GAL3	ENSG00000126091	ENST00000545417	protein_coding	KNOWN	CCDS499	10866	513	170	44173218	44396830	1	SIAT6	None
1	ST3GAL3	ENSG00000126091	ENST00000330208	protein_coding	KNOWN	CCDS500	10866	468	155	44173218	44396830	1	SIAT6	None
1	ST3GAL3	ENSG00000126091	ENST00000335430	protein_coding	KNOWN	None	10866	687	228	44173218	44396830	1	SIAT6	None
1	ST3GAL3	ENSG00000126091	ENST00000372377	protein_coding	KNOWN	None	10866	456	151	44173218	44396830	1	SIAT6	None
7	None	ENSG00000269396	ENST00000599994	protein_coding	KNOWN	None	None	501	166	302918	304070	1	None	None
9	DDX11L5	ENSG00000236875	ENST00000421620	unprocessed_pseudogene	KNOWN	None	37106	None	None	12134	13439	1	None	None
9	DDX11L5	ENSG00000236875	ENST00000426146	unprocessed_pseudogene	KNOWN	None	37106	None	None	11987	14522	1	None	None
14	YY1	ENSG00000100811	ENST00000554371	protein_coding	KNOWN	None	12856	102	33	100704635	100705683	1	None	NF-E1, DELTA, UCRBP, YIN-YANG-1, INO80S
14	YY1	ENSG00000100811	ENST00000262238	protein_coding	KNOWN	CCDS9957	12856	1245	414	100705322	100749129	1	None	NF-E1, DELTA, UCRBP, YIN-YANG-1, INO80S
14	YY1	ENSG00000100811	ENST00000553625	protein_coding	PUTATIVE	None	12856	370	122	100706091	100742915	1	None	NF-E1, DELTA, UCRBP, YIN-YANG-1, INO80S
14	YY1	ENSG00000100811	ENST00000554804	protein_coding	NOVEL	None	12856	572	189	100706096	100744479	1	None	NF-E1, DELTA, UCRBP, YIN-YANG-1, INO80S
14	YY1	ENSG00000100811	ENST00000554579	retained_intron	KNOWN	None	12856	None	None	100742536	100744130	1	None	NF-E1, DELTA, UCRBP, YIN-YANG-1, INO80S
7	SEPT7P2	ENSG00000214765	ENST00000444755	processed_transcript	KNOWN	None	32339	None	None	45763379	45767909	-1	SEPT7B, SEPT13	DKFZp313J1114
7	SEPT7P2	ENSG00000214765	ENST00000429741	processed_transcript	KNOWN	None	32339	None	None	45763386	45808553	-1	SEPT7B, SEPT13	DKFZp313J1114
7	SEPT7P2	ENSG00000214765	ENST00000338231	processed_transcript	KNOWN	None	32339	None	None	45763387	45797776	-1	SEPT7B, SEPT13	DKFZp313J1114
7	SEPT7P2	ENSG00000214765	ENST00000428414	processed_transcript	KNOWN	None	32339	None	None	45763649	45808563	-1	SEPT7B, SEPT13	DKFZp313J1114
7	SEPT7P2	ENSG00000214765	ENST00000413357	retained_intron	KNOWN	None	32339	None	None	45765644	45768589	-1	SEPT7B, SEPT13	DKFZp313J1114
7	SEPT7P2	ENSG00000214765	ENST00000413875	retained_intron	KNOWN	None	32339	None	None	45767426	45788263	-1	SEPT7B, SEPT13	DKFZp313J1114
7	SEPT7P2	ENSG00000214765	ENST00000398921	transcribed_unprocessed_pseudogene	KNOWN	None	32339	None	None	45776386	45805411	-1	SEPT7B, SEPT13	DKFZp313J1114
7	SEPT7P2	ENSG00000214765	ENST00000428867	retained_intron	KNOWN	None	32339	None	None	45797583	45799071	-1	SEPT7B, SEPT13	DKFZp313J1114
7	SEPT7P2	ENSG00000214765	ENST00000450436	processed_transcript	KNOWN	None	32339	None	None	45797710	45808584	-1	SEPT7B, SEPT13	DKFZp313J1114
7	SEPT7P2	ENSG00000214765	ENST00000535085	unprocessed_pseudogene	KNOWN	None	32339	None	None	45763396	45784643	-1	SEPT7B, SEPT13	DKFZp313J1114
7	SEPT7P2	ENSG00000214765	ENST00000417129	unprocessed_pseudogene	KNOWN	None	32339	None	None	45765191	45808617	-1	SEPT7B, SEPT13	DKFZp313J1114
7	SEPT7P2	ENSG00000214765	ENST00000443269	unprocessed_pseudogene	KNOWN	None	32339	None	None	45765191	45808617	-1	SEPT7B, SEPT13	DKFZp313J1114
10	None	ENSG00000151963	ENST00000406795	unprocessed_pseudogene	KNOWN	None	None	None	None	38172522	38173037	1	None	None
7	PDGFA	ENSG00000197461	ENST00000402802	protein_coding	KNOWN	CCDS47524	8799	591	196	536895	559046	-1	None	PDGF1, PDGF-A
7	PDGFA	ENSG00000197461	ENST00000354513	protein_coding	KNOWN	CCDS34578	8799	636	211	537946	559031	-1	None	PDGF1, PDGF-A
7	PDGFA	ENSG00000197461	ENST00000400761	protein_coding	PUTATIVE	None	8799	618	205	538130	558145	-1	None	PDGF1, PDGF-A
7	PDGFA	ENSG00000197461	ENST00000482462	retained_intron	KNOWN	None	8799	None	None	540415	553104	-1	None	PDGF1, PDGF-A
7	PDGFA	ENSG00000197461	ENST00000405692	protein_coding	KNOWN	None	8799	259	85	551994	559933	-1	None	PDGF1, PDGF-A
7	PDGFA	ENSG00000197461	ENST00000426681	processed_transcript	KNOWN	None	8799	None	None	552082	559845	-1	None	PDGF1, PDGF-A
12	ASB8	ENSG00000177981	ENST00000317697	protein_coding	KNOWN	CCDS8761	17183	867	288	48541571	48551378	-1	None	MGC5540, FLJ21255
12	ASB8	ENSG00000177981	ENST00000536549	protein_coding	KNOWN	CCDS8761	17183	867	288	48541572	48551378	-1	None	MGC5540, FLJ21255
12	ASB8	ENSG00000177981	ENST00000537754	processed_transcript	PUTATIVE	None	17183	None	None	48543213	48551303	-1	None	MGC5540, FLJ21255
12	ASB8	ENSG00000177981	ENST00000536938	retained_intron	KNOWN	None	17183	None	None	48543240	48545169	-1	None	MGC5540, FLJ21255
12	ASB8	ENSG00000177981	ENST00000536953	protein_coding	PUTATIVE	None	17183	258	85	48543312	48551373	-1	None	MGC5540, FLJ21255
12	ASB8	ENSG00000177981	ENST00000539528	protein_coding	PUTATIVE	None	17183	258	85	48543392	48551285	-1	None	MGC5540, FLJ21255
12	ASB8	ENSG00000177981	ENST00000535055	protein_coding	PUTATIVE	None	17183	258	85	48543575	48551374	-1	None	MGC5540, FLJ21255
12	ASB8	ENSG00000177981	ENST00000539865	nonsense_mediated_decay	KNOWN	None	17183	198	65	48543586	48551260	-1	None	MGC5540, FLJ21255
12	ASB8	ENSG00000177981	ENST00000536071	protein_coding	PUTATIVE	None	17183	288	95	48543622	48551298	-1	None	MGC5540, FLJ21255
12	ASB8	ENSG00000177981	ENST00000539503	protein_coding	KNOWN	None	17183	382	126	48543634	48574996	-1	None	MGC5540, FLJ21255
12	ASB8	ENSG00000177981	ENST00000540143	nonsense_mediated_decay	KNOWN	None	17183	201	66	48543644	48551298	-1	None	MGC5540, FLJ21255
12	ASB8	ENSG00000177981	ENST00000545791	protein_coding	KNOWN	None	17183	342	113	48543674	48551300	-1	None	MGC5540, FLJ21255
12	ASB8	ENSG00000177981	ENST00000540212	protein_coding	KNOWN	None	17183	337	111	48543679	48551247	-1	None	MGC5540, FLJ21255
12	ASB8	ENSG00000177981	ENST00000539464	nonsense_mediated_decay	KNOWN	None	17183	201	66	48543703	48551374	-1	None	MGC5540, FLJ21255
12	ASB8	ENSG00000177981	ENST00000540782	protein_coding	PUTATIVE	None	17183	261	86	48544699	48551352	-1	None	MGC5540, FLJ21255
12	ASB8	ENSG00000177981	ENST00000535988	protein_coding	PUTATIVE	None	17183	261	86	48544701	48551370	-1	None	MGC5540, FLJ21255
12	ASB8	ENSG00000177981	ENST00000548228	protein_coding	KNOWN	None	17183	153	50	48545065	48547708	-1	None	MGC5540, FLJ21255
8	DLGAP2	ENSG00000198010	ENST00000421627	protein_coding	KNOWN	CCDS47760	2906	2928	975	1449532	1656642	1	None	DAP-2
8	DLGAP2	ENSG00000198010	ENST00000520901	protein_coding	KNOWN	None	2906	2936	977	1496810	1650151	1	None	DAP-2
8	DLGAP2	ENSG00000198010	ENST00000522499	retained_intron	KNOWN	None	2906	None	None	1624703	1626929	1	None	DAP-2
8	DLGAP2	ENSG00000198010	ENST00000524065	processed_transcript	KNOWN	None	2906	None	None	1626466	1636595	1	None	DAP-2
8	DLGAP2	ENSG00000198010	ENST00000518530	retained_intron	KNOWN	None	2906	None	None	1626537	1629012	1	None	DAP-2
1	None	ENSG00000225996	ENST00000538795	protein_coding	KNOWN	None	None	465	154	150521897	150524367	1	None	None
2	OSBPL6	ENSG00000079156	ENST00000392505	protein_coding	NOVEL	CCDS56150	16388	2880	959	179059208	179260499	1	None	ORP6
2	OSBPL6	ENSG00000079156	ENST00000477646	processed_transcript	KNOWN	None	16388	None	None	179059216	179149765	1	None	ORP6
2	OSBPL6	ENSG00000079156	ENST00000357080	protein_coding	NOVEL	None	16388	1527	508	179059227	179247506	1	None	ORP6
2	OSBPL6	ENSG00000079156	ENST00000409045	protein_coding	NOVEL	CCDS56152	16388	2712	903	179059250	179260499	1	None	ORP6
2	OSBPL6	ENSG00000079156	ENST00000190611	protein_coding	KNOWN	CCDS2277	16388	2805	934	179059376	179264160	1	None	ORP6
2	OSBPL6	ENSG00000079156	ENST00000409631	protein_coding	NOVEL	CCDS56151	16388	2697	898	179149654	179260512	1	None	ORP6
2	OSBPL6	ENSG00000079156	ENST00000315022	protein_coding	KNOWN	CCDS2278	16388	2817	938	179184971	179260348	1	None	ORP6
2	OSBPL6	ENSG00000079156	ENST00000477097	processed_transcript	KNOWN	None	16388	None	None	179188297	179197428	1	None	ORP6
2	OSBPL6	ENSG00000079156	ENST00000359685	protein_coding	KNOWN	CCDS56151	16388	2697	898	179059208	179260499	1	None	ORP6
16	DCUN1D3	ENSG00000188215	ENST00000324344	protein_coding	KNOWN	CCDS10592	28734	915	304	20869396	20911706	-1	None	MGC48972, FLJ41725, DKFZp686O0290
16	DCUN1D3	ENSG00000188215	ENST00000563934	protein_coding	KNOWN	CCDS10592	28734	915	304	20870318	20880302	-1	None	MGC48972, FLJ41725, DKFZp686O0290
1	C1orf138	ENSG00000203804	ENST00000369035	protein_coding	KNOWN	None	32041	390	129	150533480	150533969	-1	C1orf138	FLJ45786
1	PLXNA2	ENSG00000076356	ENST00000367033	protein_coding	KNOWN	CCDS31013	9100	5685	1894	208195587	208417665	-1	PLXN2	OCT, FLJ11751, FLJ30634, KIAA0463
1	PLXNA2	ENSG00000076356	ENST00000483048	processed_transcript	KNOWN	None	9100	None	None	208199449	208203648	-1	PLXN2	OCT, FLJ11751, FLJ30634, KIAA0463
1	PLXNA2	ENSG00000076356	ENST00000480053	processed_transcript	PUTATIVE	None	9100	None	None	208204387	208204998	-1	PLXN2	OCT, FLJ11751, FLJ30634, KIAA0463
1	PLXNA2	ENSG00000076356	ENST00000463510	processed_transcript	KNOWN	None	9100	None	None	208212252	208213609	-1	PLXN2	OCT, FLJ11751, FLJ30634, KIAA0463
1	PLXNA2	ENSG00000076356	ENST00000460870	processed_transcript	PUTATIVE	None	9100	None	None	208383332	208390359	-1	PLXN2	OCT, FLJ11751, FLJ30634, KIAA0463
1	PLXNA2	ENSG00000076356	ENST00000486969	processed_transcript	PUTATIVE	None	9100	None	None	208403536	208417646	-1	PLXN2	OCT, FLJ11751, FLJ30634, KIAA0463
9	None	ENSG00000181404	ENST00000442926	unprocessed_pseudogene	KNOWN	None	None	None	None	14812	29259	-1	None	None
9	None	ENSG00000181404	ENST00000442898	unprocessed_pseudogene	KNOWN	None	None	None	None	14511	29739	-1	None	None
9	None	ENSG00000181404	ENST00000330546	unprocessed_pseudogene	KNOWN	None	None	None	None	14552	25007	-1	None	None
9	None	ENSG00000181404	ENST00000399972	unprocessed_pseudogene	KNOWN	None	None	None	None	14552	19145	-1	None	None
11	FADS1	ENSG00000149485	ENST00000350997	protein_coding	KNOWN	CCDS8011	3574	1506	501	61567099	61584634	-1	LLCDL1	D5D, FADSD5, TU12, FADS6
11	FADS1	ENSG00000149485	ENST00000536991	protein_coding	PUTATIVE	None	3574	579	192	61569479	61574000	-1	LLCDL1	D5D, FADSD5, TU12, FADS6
11	FADS1	ENSG00000149485	ENST00000433932	protein_coding	PUTATIVE	None	3574	1083	360	61569530	61583620	-1	LLCDL1	D5D, FADSD5, TU12, FADS6
11	FADS1	ENSG00000149485	ENST00000460649	protein_coding	PUTATIVE	None	3574	441	146	61569690	61572152	-1	LLCDL1	D5D, FADSD5, TU12, FADS6
11	FADS1	ENSG00000149485	ENST00000542506	protein_coding	PUTATIVE	None	3574	1083	360	61569785	61582763	-1	LLCDL1	D5D, FADSD5, TU12, FADS6
11	FADS1	ENSG00000149485	ENST00000496123	processed_transcript	KNOWN	None	3574	None	None	61570308	61579955	-1	LLCDL1	D5D, FADSD5, TU12, FADS6
11	FADS1	ENSG00000149485	ENST00000539999	protein_coding	PUTATIVE	None	3574	372	123	61570898	61578357	-1	LLCDL1	D5D, FADSD5, TU12, FADS6
11	FADS1	ENSG00000149485	ENST00000424501	nonsense_mediated_decay	KNOWN	None	3574	685	227	61578214	61584243	-1	LLCDL1	D5D, FADSD5, TU12, FADS6
11	FADS1	ENSG00000149485	ENST00000540767	protein_coding	PUTATIVE	None	3574	495	164	61578220	61583932	-1	LLCDL1	D5D, FADSD5, TU12, FADS6
11	FADS1	ENSG00000149485	ENST00000545245	protein_coding	PUTATIVE	None	3574	492	163	61578223	61582604	-1	LLCDL1	D5D, FADSD5, TU12, FADS6
11	FADS1	ENSG00000149485	ENST00000545405	protein_coding	PUTATIVE	None	3574	459	152	61578256	61582620	-1	LLCDL1	D5D, FADSD5, TU12, FADS6
11	FADS1	ENSG00000149485	ENST00000421879	protein_coding	PUTATIVE	None	3574	417	138	61578298	61596790	-1	LLCDL1	D5D, FADSD5, TU12, FADS6
11	FADS1	ENSG00000149485	ENST00000491310	protein_coding	PUTATIVE	None	3574	525	174	61578445	61584250	-1	LLCDL1	D5D, FADSD5, TU12, FADS6
11	FADS1	ENSG00000149485	ENST00000544696	protein_coding	PUTATIVE	None	3574	337	111	61578472	61583580	-1	LLCDL1	D5D, FADSD5, TU12, FADS6
11	FADS1	ENSG00000149485	ENST00000466716	protein_coding	PUTATIVE	None	3574	332	109	61578477	61583933	-1	LLCDL1	D5D, FADSD5, TU12, FADS6
11	FADS1	ENSG00000149485	ENST00000544309	protein_coding	PUTATIVE	None	3574	327	108	61578482	61584669	-1	LLCDL1	D5D, FADSD5, TU12, FADS6
11	FADS1	ENSG00000149485	ENST00000539419	protein_coding	PUTATIVE	None	3574	260	85	61579944	61582583	-1	LLCDL1	D5D, FADSD5, TU12, FADS6
11	FADS1	ENSG00000149485	ENST00000448607	protein_coding	PUTATIVE	None	3574	143	46	61580061	61596781	-1	LLCDL1	D5D, FADSD5, TU12, FADS6
11	FADS1	ENSG00000149485	ENST00000473263	protein_coding	PUTATIVE	None	3574	49	15	61580729	61583620	-1	LLCDL1	D5D, FADSD5, TU12, FADS6
11	FADS1	ENSG00000149485	ENST00000545986	processed_transcript	KNOWN	None	3574	None	None	61580975	61582121	-1	LLCDL1	D5D, FADSD5, TU12, FADS6
11	FADS1	ENSG00000149485	ENST00000541683	processed_transcript	KNOWN	None	3574	None	None	61581811	61584074	-1	LLCDL1	D5D, FADSD5, TU12, FADS6
14	ACIN1	ENSG00000100813	ENST00000557515	protein_coding	NOVEL	None	17066	1749	582	23527773	23540774	-1	ACINUS	KIAA0670, fSAP152
14	ACIN1	ENSG00000100813	ENST00000473758	retained_intron	KNOWN	None	17066	None	None	23527776	23538734	-1	ACINUS	KIAA0670, fSAP152
14	ACIN1	ENSG00000100813	ENST00000338631	protein_coding	KNOWN	CCDS53888	17066	1845	614	23527776	23540770	-1	ACINUS	KIAA0670, fSAP152
14	ACIN1	ENSG00000100813	ENST00000357481	protein_coding	KNOWN	CCDS53887	17066	1752	583	23527776	23540826	-1	ACINUS	KIAA0670, fSAP152
14	ACIN1	ENSG00000100813	ENST00000605057	protein_coding	NOVEL	None	17066	3852	1283	23527776	23564362	-1	ACINUS	KIAA0670, fSAP152
14	ACIN1	ENSG00000100813	ENST00000262710	protein_coding	KNOWN	CCDS9587	17066	4026	1341	23527776	23564823	-1	ACINUS	KIAA0670, fSAP152
14	ACIN1	ENSG00000100813	ENST00000397341	protein_coding	KNOWN	CCDS53887	17066	1752	583	23527789	23540774	-1	ACINUS	KIAA0670, fSAP152
14	ACIN1	ENSG00000100813	ENST00000555053	protein_coding	NOVEL	CCDS55905	17066	3987	1328	23528268	23564592	-1	ACINUS	KIAA0670, fSAP152
14	ACIN1	ENSG00000100813	ENST00000555478	retained_intron	KNOWN	None	17066	None	None	23530711	23533838	-1	ACINUS	KIAA0670, fSAP152
14	ACIN1	ENSG00000100813	ENST00000555395	retained_intron	KNOWN	None	17066	None	None	23530781	23531979	-1	ACINUS	KIAA0670, fSAP152
14	ACIN1	ENSG00000100813	ENST00000554680	retained_intron	KNOWN	None	17066	None	None	23531642	23533919	-1	ACINUS	KIAA0670, fSAP152
14	ACIN1	ENSG00000100813	ENST00000553790	retained_intron	KNOWN	None	17066	None	None	23532249	23533628	-1	ACINUS	KIAA0670, fSAP152
14	ACIN1	ENSG00000100813	ENST00000556052	retained_intron	KNOWN	None	17066	None	None	23532641	23533913	-1	ACINUS	KIAA0670, fSAP152
14	ACIN1	ENSG00000100813	ENST00000555566	protein_coding	NOVEL	None	17066	583	193	23532663	23540747	-1	ACINUS	KIAA0670, fSAP152
14	ACIN1	ENSG00000100813	ENST00000557039	retained_intron	KNOWN	None	17066	None	None	23532669	23535532	-1	ACINUS	KIAA0670, fSAP152
14	ACIN1	ENSG00000100813	ENST00000555807	retained_intron	KNOWN	None	17066	None	None	23532674	23535705	-1	ACINUS	KIAA0670, fSAP152
14	ACIN1	ENSG00000100813	ENST00000553721	retained_intron	KNOWN	None	17066	None	None	23537572	23540764	-1	ACINUS	KIAA0670, fSAP152
14	ACIN1	ENSG00000100813	ENST00000557432	retained_intron	KNOWN	None	17066	None	None	23537600	23540759	-1	ACINUS	KIAA0670, fSAP152
14	ACIN1	ENSG00000100813	ENST00000555352	processed_transcript	KNOWN	None	17066	None	None	23537690	23548079	-1	ACINUS	KIAA0670, fSAP152
14	ACIN1	ENSG00000100813	ENST00000553501	retained_intron	KNOWN	None	17066	None	None	23538242	23540766	-1	ACINUS	KIAA0670, fSAP152
14	ACIN1	ENSG00000100813	ENST00000554979	retained_intron	KNOWN	None	17066	None	None	23538538	23540410	-1	ACINUS	KIAA0670, fSAP152
14	ACIN1	ENSG00000100813	ENST00000554708	retained_intron	KNOWN	None	17066	None	None	23547006	23548802	-1	ACINUS	KIAA0670, fSAP152
14	ACIN1	ENSG00000100813	ENST00000457657	protein_coding	KNOWN	CCDS53889	17066	3906	1301	23527776	23564823	-1	ACINUS	KIAA0670, fSAP152
1	MCL1	ENSG00000143384	ENST00000369026	protein_coding	KNOWN	CCDS957	6943	1053	350	150547032	150552066	-1	None	BCL2L3, Mcl-1
1	MCL1	ENSG00000143384	ENST00000464132	processed_transcript	KNOWN	None	6943	None	None	150549403	150551253	-1	None	BCL2L3, Mcl-1
1	MCL1	ENSG00000143384	ENST00000307940	protein_coding	KNOWN	CCDS956	6943	816	271	150549546	150552006	-1	None	BCL2L3, Mcl-1
17	BAIAP2	ENSG00000175866	ENST00000576470	retained_intron	KNOWN	None	947	None	None	79008948	79058900	1	None	BAP2
17	BAIAP2	ENSG00000175866	ENST00000575750	nonsense_mediated_decay	KNOWN	None	947	321	106	79008950	79060299	1	None	BAP2
17	BAIAP2	ENSG00000175866	ENST00000570913	processed_transcript	KNOWN	None	947	None	None	79008951	79050302	1	None	BAP2
17	BAIAP2	ENSG00000175866	ENST00000575989	protein_coding	PUTATIVE	None	947	239	78	79008951	79060304	1	None	BAP2
17	BAIAP2	ENSG00000175866	ENST00000321280	protein_coding	KNOWN	CCDS11777	947	1566	521	79008951	79083038	1	None	BAP2
17	BAIAP2	ENSG00000175866	ENST00000572329	nonsense_mediated_decay	KNOWN	None	947	450	149	79008951	79083172	1	None	BAP2
17	BAIAP2	ENSG00000175866	ENST00000428708	protein_coding	KNOWN	CCDS45806	947	1605	534	79008951	79090025	1	None	BAP2
17	BAIAP2	ENSG00000175866	ENST00000575712	protein_coding	KNOWN	None	947	1539	512	79008956	79083187	1	None	BAP2
17	BAIAP2	ENSG00000175866	ENST00000575245	protein_coding	NOVEL	None	947	1662	553	79008958	79090025	1	None	BAP2
17	BAIAP2	ENSG00000175866	ENST00000435091	protein_coding	KNOWN	CCDS11776	947	1563	520	79008962	79090024	1	None	BAP2
17	BAIAP2	ENSG00000175866	ENST00000321300	protein_coding	KNOWN	CCDS11775	947	1659	552	79008962	79091232	1	None	BAP2
17	BAIAP2	ENSG00000175866	ENST00000573894	processed_transcript	KNOWN	None	947	None	None	79008976	79060822	1	None	BAP2
17	BAIAP2	ENSG00000175866	ENST00000571530	protein_coding	PUTATIVE	None	947	421	139	79009803	79060372	1	None	BAP2
17	BAIAP2	ENSG00000175866	ENST00000573017	processed_transcript	KNOWN	None	947	None	None	79027162	79073777	1	None	BAP2
17	BAIAP2	ENSG00000175866	ENST00000572918	protein_coding	PUTATIVE	None	947	527	174	79027162	79073825	1	None	BAP2
17	BAIAP2	ENSG00000175866	ENST00000575958	protein_coding	PUTATIVE	None	947	407	134	79030162	79073819	1	None	BAP2
17	BAIAP2	ENSG00000175866	ENST00000573659	protein_coding	PUTATIVE	None	947	343	113	79031136	79073755	1	None	BAP2
17	BAIAP2	ENSG00000175866	ENST00000572073	protein_coding	PUTATIVE	None	947	704	233	79031415	79077720	1	None	BAP2
17	BAIAP2	ENSG00000175866	ENST00000573677	protein_coding	PUTATIVE	None	947	541	179	79031534	79077374	1	None	BAP2
17	BAIAP2	ENSG00000175866	ENST00000574804	nonsense_mediated_decay	KNOWN	None	947	177	58	79031544	79077379	1	None	BAP2
17	BAIAP2	ENSG00000175866	ENST00000576364	processed_transcript	KNOWN	None	947	None	None	79037540	79073880	1	None	BAP2
17	BAIAP2	ENSG00000175866	ENST00000574688	processed_transcript	KNOWN	None	947	None	None	79056789	79060264	1	None	BAP2
17	BAIAP2	ENSG00000175866	ENST00000577097	retained_intron	KNOWN	None	947	None	None	79057367	79077547	1	None	BAP2
17	BAIAP2	ENSG00000175866	ENST00000576225	retained_intron	KNOWN	None	947	None	None	79058895	79090024	1	None	BAP2
17	BAIAP2	ENSG00000175866	ENST00000575841	protein_coding	PUTATIVE	None	947	294	97	79060261	79084312	1	None	BAP2
17	BAIAP2	ENSG00000175866	ENST00000574027	processed_transcript	PUTATIVE	None	947	None	None	79061292	79077396	1	None	BAP2
17	BAIAP2	ENSG00000175866	ENST00000576756	protein_coding	PUTATIVE	None	947	390	129	79071379	79078366	1	None	BAP2
17	BAIAP2	ENSG00000175866	ENST00000416299	protein_coding	PUTATIVE	None	947	1128	375	79071918	79082627	1	None	BAP2
17	BAIAP2	ENSG00000175866	ENST00000572498	protein_coding	NOVEL	None	947	649	215	79077802	79089848	1	None	BAP2
17	BAIAP2	ENSG00000175866	ENST00000576995	retained_intron	KNOWN	None	947	None	None	79078886	79083172	1	None	BAP2
17	BAIAP2	ENSG00000175866	ENST00000392411	protein_coding	KNOWN	None	947	1371	456	79008950	79089778	1	None	BAP2
14	SLC25A29	ENSG00000197119	ENST00000359232	protein_coding	KNOWN	CCDS32156	20116	912	303	100757448	100772870	-1	C14orf69	FLJ38975
14	SLC25A29	ENSG00000197119	ENST00000554912	protein_coding	PUTATIVE	None	20116	714	237	100757453	100762882	-1	C14orf69	FLJ38975
14	SLC25A29	ENSG00000197119	ENST00000392908	protein_coding	PUTATIVE	None	20116	438	145	100757455	100772778	-1	C14orf69	FLJ38975
14	SLC25A29	ENSG00000197119	ENST00000556505	protein_coding	PUTATIVE	None	20116	714	237	100758023	100762071	-1	C14orf69	FLJ38975
14	SLC25A29	ENSG00000197119	ENST00000555927	protein_coding	PUTATIVE	None	20116	714	237	100758567	100762198	-1	C14orf69	FLJ38975
14	SLC25A29	ENSG00000197119	ENST00000554224	nonsense_mediated_decay	KNOWN	None	20116	108	35	100758795	100772884	-1	C14orf69	FLJ38975
14	SLC25A29	ENSG00000197119	ENST00000556715	nonsense_mediated_decay	KNOWN	None	20116	108	35	100758862	100772852	-1	C14orf69	FLJ38975
14	SLC25A29	ENSG00000197119	ENST00000554291	protein_coding	PUTATIVE	None	20116	389	128	100758945	100760536	-1	C14orf69	FLJ38975
14	SLC25A29	ENSG00000197119	ENST00000554060	protein_coding	NOVEL	None	20116	416	137	100759072	100772827	-1	C14orf69	FLJ38975
14	SLC25A29	ENSG00000197119	ENST00000556868	nonsense_mediated_decay	KNOWN	None	20116	369	122	100759118	100772854	-1	C14orf69	FLJ38975
14	SLC25A29	ENSG00000197119	ENST00000555475	processed_transcript	PUTATIVE	None	20116	None	None	100759924	100760725	-1	C14orf69	FLJ38975
14	SLC25A29	ENSG00000197119	ENST00000553359	processed_transcript	KNOWN	None	20116	None	None	100762030	100772870	-1	C14orf69	FLJ38975
14	SLC25A29	ENSG00000197119	ENST00000556873	processed_transcript	KNOWN	None	20116	None	None	100762032	100765413	-1	C14orf69	FLJ38975
14	SLC25A29	ENSG00000197119	ENST00000553574	processed_transcript	PUTATIVE	None	20116	None	None	100762230	100764585	-1	C14orf69	FLJ38975
14	SLC25A29	ENSG00000197119	ENST00000555051	retained_intron	KNOWN	None	20116	None	None	100762234	100765581	-1	C14orf69	FLJ38975
14	SLC25A29	ENSG00000197119	ENST00000555949	processed_transcript	KNOWN	None	20116	None	None	100764356	100772869	-1	C14orf69	FLJ38975
14	SLC25A29	ENSG00000197119	ENST00000557438	retained_intron	KNOWN	None	20116	None	None	100764935	100772781	-1	C14orf69	FLJ38975
14	SLC25A29	ENSG00000197119	ENST00000555888	retained_intron	KNOWN	None	20116	None	None	100764982	100765866	-1	C14orf69	FLJ38975
14	SLC25A29	ENSG00000197119	ENST00000556201	processed_transcript	PUTATIVE	None	20116	None	None	100771252	100772146	-1	C14orf69	FLJ38975
14	SLC25A29	ENSG00000197119	ENST00000556844	processed_transcript	PUTATIVE	None	20116	None	None	100771290	100772761	-1	C14orf69	FLJ38975
14	SLC25A29	ENSG00000197119	ENST00000539621	protein_coding	KNOWN	None	20116	714	237	100757455	100772778	-1	C14orf69	FLJ38975
X	EFNB1	ENSG00000090776	ENST00000204961	protein_coding	KNOWN	CCDS14391	3226	1041	346	68048840	68061990	1	EPLG2, CFNS	LERK2, Elk-L
3	AMOTL2	ENSG00000114019	ENST00000249883	protein_coding	KNOWN	CCDS33860	17812	2343	780	134074716	134093436	-1	None	LCCP
3	AMOTL2	ENSG00000114019	ENST00000422605	protein_coding	KNOWN	None	17812	2340	779	134074719	134093289	-1	None	LCCP
3	AMOTL2	ENSG00000114019	ENST00000514516	protein_coding	NOVEL	None	17812	2514	837	134074719	134094321	-1	None	LCCP
3	AMOTL2	ENSG00000114019	ENST00000506326	retained_intron	KNOWN	None	17812	None	None	134075027	134085683	-1	None	LCCP
3	AMOTL2	ENSG00000114019	ENST00000513145	protein_coding	KNOWN	None	17812	2334	777	134076393	134093287	-1	None	LCCP
3	AMOTL2	ENSG00000114019	ENST00000512955	processed_transcript	KNOWN	None	17812	None	None	134086496	134093402	-1	None	LCCP
3	AMOTL2	ENSG00000114019	ENST00000511759	processed_transcript	KNOWN	None	17812	None	None	134086595	134093404	-1	None	LCCP
3	AMOTL2	ENSG00000114019	ENST00000510560	protein_coding	KNOWN	None	17812	594	197	134089682	134092630	-1	None	LCCP
3	AMOTL2	ENSG00000114019	ENST00000504234	protein_coding	KNOWN	None	17812	453	150	134089823	134092636	-1	None	LCCP
3	AMOTL2	ENSG00000114019	ENST00000505596	protein_coding	KNOWN	None	17812	434	143	134089842	134090754	-1	None	LCCP
3	AMOTL2	ENSG00000114019	ENST00000506107	protein_coding	KNOWN	None	17812	382	126	134089894	134093760	-1	None	LCCP
3	AMOTL2	ENSG00000114019	ENST00000515172	protein_coding	KNOWN	None	17812	370	122	134089906	134092639	-1	None	LCCP
3	AMOTL2	ENSG00000114019	ENST00000502491	protein_coding	KNOWN	None	17812	99	32	134090177	134093096	-1	None	LCCP
20	None	ENSG00000268941	ENST00000598340	protein_coding	KNOWN	None	None	288	95	57209828	57210772	1	None	None
7	None	ENSG00000205745	ENST00000381493	protein_coding	NOVEL	None	None	372	123	36118694	36125346	1	None	None
16	LYRM1	ENSG00000102897	ENST00000564457	processed_transcript	KNOWN	None	25074	None	None	20911190	20911813	1	None	A211C6.1
16	LYRM1	ENSG00000102897	ENST00000568663	protein_coding	KNOWN	CCDS10593	25074	369	122	20911224	20935585	1	None	A211C6.1
16	LYRM1	ENSG00000102897	ENST00000412082	protein_coding	PUTATIVE	None	25074	102	33	20911557	20936326	1	None	A211C6.1
16	LYRM1	ENSG00000102897	ENST00000567165	nonsense_mediated_decay	KNOWN	None	25074	324	107	20911733	20932785	1	None	A211C6.1
16	LYRM1	ENSG00000102897	ENST00000569023	protein_coding	KNOWN	CCDS10593	25074	369	122	20911772	20935438	1	None	A211C6.1
16	LYRM1	ENSG00000102897	ENST00000568820	nonsense_mediated_decay	KNOWN	None	25074	324	107	20911813	20933329	1	None	A211C6.1
16	LYRM1	ENSG00000102897	ENST00000562740	protein_coding	PUTATIVE	None	25074	102	33	20911988	20935703	1	None	A211C6.1
16	LYRM1	ENSG00000102897	ENST00000567954	protein_coding	KNOWN	CCDS10593	25074	369	122	20912121	20935438	1	None	A211C6.1
16	LYRM1	ENSG00000102897	ENST00000396052	protein_coding	KNOWN	CCDS10593	25074	369	122	20912426	20936328	1	None	A211C6.1
16	LYRM1	ENSG00000102897	ENST00000439021	protein_coding	KNOWN	CCDS10593	25074	369	122	20911557	20936326	1	None	A211C6.1
16	LYRM1	ENSG00000102897	ENST00000219168	protein_coding	KNOWN	CCDS10593	25074	369	122	20912075	20936326	1	None	A211C6.1
3	TOP2B	ENSG00000077097	ENST00000413971	nonsense_mediated_decay	KNOWN	None	11990	213	70	25639475	25660340	-1	None	None
3	TOP2B	ENSG00000077097	ENST00000435706	protein_coding	KNOWN	CCDS46776	11990	4866	1621	25639477	25705990	-1	None	None
3	TOP2B	ENSG00000077097	ENST00000475717	processed_transcript	KNOWN	None	11990	None	None	25654062	25657432	-1	None	None
3	TOP2B	ENSG00000077097	ENST00000424225	protein_coding	KNOWN	None	11990	3450	1149	25656964	25706398	-1	None	None
3	TOP2B	ENSG00000077097	ENST00000470132	retained_intron	KNOWN	None	11990	None	None	25665843	25666529	-1	None	None
3	TOP2B	ENSG00000077097	ENST00000491510	retained_intron	KNOWN	None	11990	None	None	25668548	25671646	-1	None	None
3	TOP2B	ENSG00000077097	ENST00000264331	protein_coding	KNOWN	None	11990	4881	1626	25639490	25705788	-1	None	None
3	TOP2B	ENSG00000077097	ENST00000542520	protein_coding	KNOWN	None	11990	1437	478	25639475	25661364	-1	None	None
3	TOP2B	ENSG00000077097	ENST00000540199	protein_coding	KNOWN	None	11990	1437	478	25639592	25657432	-1	None	None
7	EEPD1	ENSG00000122547	ENST00000242108	protein_coding	KNOWN	CCDS34619	22223	1710	569	36192758	36341152	1	None	KIAA1706
7	EEPD1	ENSG00000122547	ENST00000487069	retained_intron	KNOWN	None	22223	None	None	36320692	36336796	1	None	KIAA1706
7	EEPD1	ENSG00000122547	ENST00000468591	retained_intron	KNOWN	None	22223	None	None	36327198	36338801	1	None	KIAA1706
7	EEPD1	ENSG00000122547	ENST00000444777	protein_coding	NOVEL	None	22223	103	33	36336753	36339334	1	None	KIAA1706
7	EEPD1	ENSG00000122547	ENST00000534978	protein_coding	KNOWN	CCDS34619	22223	1710	569	36192877	36339334	1	None	KIAA1706
3	RFC4	ENSG00000163918	ENST00000433496	protein_coding	NOVEL	None	9972	1011	336	186507669	186522513	-1	None	A1, RFC37
3	RFC4	ENSG00000163918	ENST00000479307	retained_intron	KNOWN	None	9972	None	None	186507681	186512583	-1	None	A1, RFC37
3	RFC4	ENSG00000163918	ENST00000296273	protein_coding	KNOWN	CCDS3283	9972	1092	363	186507689	186524290	-1	None	A1, RFC37
3	RFC4	ENSG00000163918	ENST00000417876	protein_coding	PUTATIVE	None	9972	336	111	186507692	186509639	-1	None	A1, RFC37
3	RFC4	ENSG00000163918	ENST00000494047	retained_intron	KNOWN	None	9972	None	None	186509112	186524257	-1	None	A1, RFC37
3	RFC4	ENSG00000163918	ENST00000460408	retained_intron	KNOWN	None	9972	None	None	186509479	186512648	-1	None	A1, RFC37
3	RFC4	ENSG00000163918	ENST00000418288	protein_coding	KNOWN	None	9972	643	213	186510311	186524260	-1	None	A1, RFC37
3	RFC4	ENSG00000163918	ENST00000449502	nonsense_mediated_decay	KNOWN	None	9972	294	97	186510339	186524247	-1	None	A1, RFC37
3	RFC4	ENSG00000163918	ENST00000447345	protein_coding	KNOWN	None	9972	503	166	186510644	186524484	-1	None	A1, RFC37
3	RFC4	ENSG00000163918	ENST00000489028	retained_intron	KNOWN	None	9972	None	None	186512455	186519246	-1	None	A1, RFC37
3	RFC4	ENSG00000163918	ENST00000427785	protein_coding	KNOWN	None	9972	369	122	186512488	186524144	-1	None	A1, RFC37
3	RFC4	ENSG00000163918	ENST00000448497	protein_coding	KNOWN	None	9972	286	94	186515328	186522669	-1	None	A1, RFC37
3	RFC4	ENSG00000163918	ENST00000411792	protein_coding	KNOWN	None	9972	131	42	186522372	186524847	-1	None	A1, RFC37
3	RFC4	ENSG00000163918	ENST00000392481	protein_coding	KNOWN	CCDS3283	9972	1092	363	186507684	186524484	-1	None	A1, RFC37
5	ANKDD1B	ENSG00000189045	ENST00000601380	protein_coding	PUTATIVE	None	32525	1587	528	74907284	74967671	1	None	None
5	ANKDD1B	ENSG00000189045	ENST00000506596	processed_transcript	KNOWN	None	32525	None	None	74907301	74967671	1	None	None
5	ANKDD1B	ENSG00000189045	ENST00000504514	retained_intron	KNOWN	None	32525	None	None	74930477	74959236	1	None	None
5	ANKDD1B	ENSG00000189045	ENST00000594319	retained_intron	KNOWN	None	32525	None	None	74931137	74955129	1	None	None
X	PJA1	ENSG00000181191	ENST00000471141	protein_coding	PUTATIVE	None	16648	203	66	68380694	68382537	-1	None	FLJ11830, RNF70
X	PJA1	ENSG00000181191	ENST00000374583	protein_coding	KNOWN	CCDS14393	16648	1932	643	68380697	68383388	-1	None	FLJ11830, RNF70
X	PJA1	ENSG00000181191	ENST00000374584	protein_coding	KNOWN	CCDS14392	16648	1368	455	68380697	68385280	-1	None	FLJ11830, RNF70
X	PJA1	ENSG00000181191	ENST00000361478	protein_coding	KNOWN	CCDS14393	16648	1932	643	68380705	68385364	-1	None	FLJ11830, RNF70
X	PJA1	ENSG00000181191	ENST00000374571	protein_coding	KNOWN	CCDS35316	16648	1767	588	68380734	68385636	-1	None	FLJ11830, RNF70
X	PJA1	ENSG00000181191	ENST00000477231	processed_transcript	KNOWN	None	16648	None	None	68382169	68385292	-1	None	FLJ11830, RNF70
X	PJA1	ENSG00000181191	ENST00000590146	protein_coding	KNOWN	None	16648	434	143	68382648	68385294	-1	None	FLJ11830, RNF70
19	None	ENSG00000267952	ENST00000597384	retained_intron	KNOWN	None	None	None	None	7571938	7584508	1	None	None
19	None	ENSG00000267952	ENST00000599312	protein_coding	PUTATIVE	None	None	144	47	7571968	7584412	1	None	None
6	None	ENSG00000232999	ENST00000454998	unitary_pseudogene	KNOWN	None	None	None	None	2910847	2912347	-1	None	None
6	PRICKLE4	ENSG00000124593	ENST00000456057	nonsense_mediated_decay	KNOWN	None	16805	213	70	41748087	41757879	1	C6orf49	OEBT, DKFZp761H221
6	PRICKLE4	ENSG00000124593	ENST00000487182	retained_intron	KNOWN	None	16805	None	None	41748510	41757629	1	C6orf49	OEBT, DKFZp761H221
6	PRICKLE4	ENSG00000124593	ENST00000335515	nonsense_mediated_decay	KNOWN	CCDS34449	16805	1155	384	41748684	41757633	1	C6orf49	OEBT, DKFZp761H221
6	PRICKLE4	ENSG00000124593	ENST00000394263	protein_coding	NOVEL	CCDS34449	16805	1155	384	41751212	41754867	1	C6orf49	OEBT, DKFZp761H221
6	PRICKLE4	ENSG00000124593	ENST00000394259	protein_coding	KNOWN	None	16805	939	312	41751857	41754449	1	C6orf49	OEBT, DKFZp761H221
6	PRICKLE4	ENSG00000124593	ENST00000394260	protein_coding	KNOWN	None	16805	1035	344	41751857	41754867	1	C6orf49	OEBT, DKFZp761H221
6	PRICKLE4	ENSG00000124593	ENST00000463606	processed_transcript	PUTATIVE	None	16805	None	None	41752530	41753159	1	C6orf49	OEBT, DKFZp761H221
6	PRICKLE4	ENSG00000124593	ENST00000483200	retained_intron	KNOWN	None	16805	None	None	41752744	41754474	1	C6orf49	OEBT, DKFZp761H221
6	PRICKLE4	ENSG00000124593	ENST00000458694	protein_coding	KNOWN	CCDS34449	16805	1155	384	41748500	41755110	1	C6orf49	OEBT, DKFZp761H221
6	PRICKLE4	ENSG00000124593	ENST00000359201	protein_coding	KNOWN	None	16805	1059	352	41748682	41754449	1	C6orf49	OEBT, DKFZp761H221
6	None	ENSG00000228365	ENST00000437718	lincRNA	KNOWN	None	None	None	None	2917128	2917967	1	None	None
7	None	ENSG00000234536	ENST00000438487	unprocessed_pseudogene	KNOWN	None	None	None	None	45813194	45822756	1	None	None
6	None	ENSG00000244041	ENST00000450238	lincRNA	KNOWN	None	None	None	None	2988201	2990582	1	None	None
6	None	ENSG00000244041	ENST00000445000	lincRNA	KNOWN	None	None	None	None	2988201	2991400	1	None	None
6	None	ENSG00000244041	ENST00000605901	lincRNA	KNOWN	None	None	None	None	2988882	2991407	1	None	None
6	None	ENSG00000244041	ENST00000454015	lincRNA	KNOWN	None	None	None	None	2988892	2990486	1	None	None
6	None	ENSG00000244041	ENST00000597787	lincRNA	KNOWN	None	None	None	None	2988933	2991401	1	None	None
7	RNU6-241P	ENSG00000212450	ENST00000391148	snRNA	KNOWN	None	47204	None	None	45829184	45829287	1	None	None
4	SAP30	ENSG00000164105	ENST00000504618	processed_transcript	PUTATIVE	None	10532	None	None	174291120	174292383	1	None	None
4	SAP30	ENSG00000164105	ENST00000296504	protein_coding	KNOWN	CCDS3817	10532	663	220	174292094	174298683	1	None	None
7	CICP20	ENSG00000235955	ENST00000443330	processed_pseudogene	KNOWN	None	48830	None	None	45855815	45858615	-1	None	None
4	RNU6-32P	ENSG00000206675	ENST00000383948	snRNA	KNOWN	None	34276	None	None	39299225	39299331	-1	RNU6-32	None
7	None	ENSG00000226838	ENST00000413839	unprocessed_pseudogene	KNOWN	None	None	None	None	45856156	45860663	1	None	None
4	RNU6-887P	ENSG00000222592	ENST00000410660	snRNA	KNOWN	None	47850	None	None	39400769	39400868	1	None	None
7	None	ENSG00000251378	ENST00000510860	unprocessed_pseudogene	KNOWN	None	None	None	None	45858181	45858696	1	None	None
4	MIR5591	ENSG00000264621	ENST00000578248	miRNA	KNOWN	None	43531	None	None	39413530	39413594	1	None	hsa-mir-5591
4	None	ENSG00000238797	ENST00000459360	misc_RNA	NOVEL	None	None	None	None	39443285	39443384	1	None	None
7	RNU6-326P	ENSG00000202350	ENST00000365480	snRNA	KNOWN	None	47289	None	None	45883233	45883339	1	None	None
7	None	ENSG00000237471	ENST00000416708	lincRNA	KNOWN	None	None	None	None	46009256	46019790	1	None	None
4	None	ENSG00000224097	ENST00000513652	processed_transcript	KNOWN	None	None	None	None	39481875	39483525	1	None	None
4	None	ENSG00000224097	ENST00000597991	processed_transcript	KNOWN	None	None	None	None	39481977	39483385	1	None	None
4	None	ENSG00000224097	ENST00000507033	transcribed_processed_pseudogene	KNOWN	None	None	None	None	39482105	39483086	1	None	None
7	RNU7-76P	ENSG00000239004	ENST00000458888	snRNA	KNOWN	None	34172	None	None	46014976	46015037	-1	None	U7.76
X	FAM155B	ENSG00000130054	ENST00000252338	protein_coding	KNOWN	CCDS35317	30701	1419	472	68725084	68752351	1	TMEM28, CXorf63	TED
7	None	ENSG00000229628	ENST00000436056	lincRNA	KNOWN	None	None	None	None	46030504	46040497	1	None	None
4	UGDH-AS1	ENSG00000249348	ENST00000504032	antisense	KNOWN	None	40601	None	None	39529639	39596327	1	None	None
7	FTLP15	ENSG00000233952	ENST00000455449	processed_pseudogene	KNOWN	None	37965	None	None	46037139	46037670	-1	None	None
19	ZNF358	ENSG00000198816	ENST00000596712	protein_coding	KNOWN	None	16838	509	168	7580178	7584637	1	None	FLJ10390, ZFEND
19	ZNF358	ENSG00000198816	ENST00000597229	protein_coding	KNOWN	CCDS32890	16838	1707	568	7581004	7585912	1	None	FLJ10390, ZFEND
19	ZNF358	ENSG00000198816	ENST00000394341	protein_coding	KNOWN	CCDS32890	16838	1707	568	7584088	7585911	1	None	FLJ10390, ZFEND
19	POU2F2	ENSG00000028277	ENST00000389341	protein_coding	KNOWN	CCDS33035	9213	1392	463	42590263	42636630	-1	OTF2	OCT2
19	POU2F2	ENSG00000028277	ENST00000533720	protein_coding	PUTATIVE	None	9213	1761	586	42595182	42636628	-1	OTF2	OCT2
19	POU2F2	ENSG00000028277	ENST00000560804	protein_coding	PUTATIVE	None	9213	1857	618	42595230	42636551	-1	OTF2	OCT2
19	POU2F2	ENSG00000028277	ENST00000526816	protein_coding	KNOWN	CCDS56095	9213	1440	479	42595232	42636579	-1	OTF2	OCT2
19	POU2F2	ENSG00000028277	ENST00000529067	protein_coding	KNOWN	CCDS58665	9213	1203	400	42595238	42636617	-1	OTF2	OCT2
19	POU2F2	ENSG00000028277	ENST00000534559	nonsense_mediated_decay	KNOWN	None	9213	354	117	42595301	42636608	-1	OTF2	OCT2
19	POU2F2	ENSG00000028277	ENST00000533548	protein_coding	PUTATIVE	None	9213	596	197	42595312	42599557	-1	OTF2	OCT2
19	POU2F2	ENSG00000028277	ENST00000560558	protein_coding	NOVEL	None	9213	1275	424	42595382	42636571	-1	OTF2	OCT2
19	POU2F2	ENSG00000028277	ENST00000560398	protein_coding	PUTATIVE	None	9213	1458	485	42595382	42636571	-1	OTF2	OCT2
19	POU2F2	ENSG00000028277	ENST00000529952	protein_coding	KNOWN	CCDS56094	9213	1404	467	42595980	42636625	-1	OTF2	OCT2
19	POU2F2	ENSG00000028277	ENST00000598842	protein_coding	PUTATIVE	None	9213	373	123	42597622	42599763	-1	OTF2	OCT2
19	POU2F2	ENSG00000028277	ENST00000528894	protein_coding	NOVEL	None	9213	785	260	42599940	42636543	-1	OTF2	OCT2
19	POU2F2	ENSG00000028277	ENST00000526831	protein_coding	NOVEL	None	9213	660	219	42599961	42621039	-1	OTF2	OCT2
19	POU2F2	ENSG00000028277	ENST00000530982	retained_intron	KNOWN	None	9213	None	None	42603481	42636564	-1	OTF2	OCT2
19	POU2F2	ENSG00000028277	ENST00000531773	processed_transcript	KNOWN	None	9213	None	None	42603867	42627381	-1	OTF2	OCT2
19	POU2F2	ENSG00000028277	ENST00000524801	processed_transcript	KNOWN	None	9213	None	None	42620935	42680177	-1	OTF2	OCT2
19	POU2F2	ENSG00000028277	ENST00000532176	processed_transcript	KNOWN	None	9213	None	None	42621418	42700737	-1	OTF2	OCT2
19	POU2F2	ENSG00000028277	ENST00000558596	protein_coding	PUTATIVE	None	9213	195	64	42626245	42626732	-1	OTF2	OCT2
19	POU2F2	ENSG00000028277	ENST00000342301	protein_coding	KNOWN	None	9213	1809	602	42592675	42636630	-1	OTF2	OCT2
4	None	ENSG00000238206	ENST00000412595	lincRNA	KNOWN	None	None	None	None	39549456	39551432	1	None	None
16	PLA2G15	ENSG00000103066	ENST00000413021	protein_coding	NOVEL	None	17163	957	318	68279207	68293826	1	LYPLA3	LLPL, GXVPLA2
16	PLA2G15	ENSG00000103066	ENST00000565744	protein_coding	NOVEL	None	17163	491	162	68279244	68289756	1	LYPLA3	LLPL, GXVPLA2
16	PLA2G15	ENSG00000103066	ENST00000219345	protein_coding	KNOWN	CCDS10864	17163	1239	412	68279247	68294961	1	LYPLA3	LLPL, GXVPLA2
16	PLA2G15	ENSG00000103066	ENST00000566978	nonsense_mediated_decay	KNOWN	None	17163	261	86	68279274	68288941	1	LYPLA3	LLPL, GXVPLA2
16	PLA2G15	ENSG00000103066	ENST00000564827	protein_coding	NOVEL	None	17163	727	241	68279276	68293077	1	LYPLA3	LLPL, GXVPLA2
16	PLA2G15	ENSG00000103066	ENST00000566188	protein_coding	NOVEL	None	17163	711	236	68279276	68293595	1	LYPLA3	LLPL, GXVPLA2
16	PLA2G15	ENSG00000103066	ENST00000444212	protein_coding	NOVEL	None	17163	639	212	68279276	68293810	1	LYPLA3	LLPL, GXVPLA2
16	PLA2G15	ENSG00000103066	ENST00000562966	retained_intron	KNOWN	None	17163	None	None	68279283	68289306	1	LYPLA3	LLPL, GXVPLA2
16	PLA2G15	ENSG00000103066	ENST00000568082	protein_coding	NOVEL	None	17163	894	297	68279295	68293155	1	LYPLA3	LLPL, GXVPLA2
16	PLA2G15	ENSG00000103066	ENST00000568599	processed_transcript	PUTATIVE	None	17163	None	None	68282190	68283327	1	LYPLA3	LLPL, GXVPLA2
16	PLA2G15	ENSG00000103066	ENST00000562449	retained_intron	KNOWN	None	17163	None	None	68288256	68289834	1	LYPLA3	LLPL, GXVPLA2
16	PLA2G15	ENSG00000103066	ENST00000565460	retained_intron	KNOWN	None	17163	None	None	68288684	68294959	1	LYPLA3	LLPL, GXVPLA2
4	RNU7-11P	ENSG00000252796	ENST00000516987	snRNA	KNOWN	None	34107	None	None	39622632	39622693	1	None	U7.11
1	CAMK1G	ENSG00000008118	ENST00000009105	protein_coding	KNOWN	CCDS1486	14585	1431	476	209757062	209787283	1	None	VWS1, CLICKIII, dJ272L16.1
1	CAMK1G	ENSG00000008118	ENST00000423146	protein_coding	PUTATIVE	None	14585	735	244	209757074	209783258	1	None	VWS1, CLICKIII, dJ272L16.1
1	CAMK1G	ENSG00000008118	ENST00000361322	protein_coding	KNOWN	CCDS1486	14585	1431	476	209757074	209787283	1	None	VWS1, CLICKIII, dJ272L16.1
1	CAMK1G	ENSG00000008118	ENST00000494990	processed_transcript	KNOWN	None	14585	None	None	209781139	209785289	1	None	VWS1, CLICKIII, dJ272L16.1
1	ENSA	ENSG00000143420	ENST00000369016	protein_coding	PUTATIVE	None	3360	564	187	150573327	150602042	-1	None	MGC4319, MGC8394, MGC78563, ARPP-19e
1	ENSA	ENSG00000143420	ENST00000369014	protein_coding	KNOWN	CCDS958	3360	366	121	150593727	150602072	-1	None	MGC4319, MGC8394, MGC78563, ARPP-19e
1	ENSA	ENSG00000143420	ENST00000361532	protein_coding	KNOWN	CCDS961	3360	354	117	150594917	150601616	-1	None	MGC4319, MGC8394, MGC78563, ARPP-19e
1	ENSA	ENSG00000143420	ENST00000361631	protein_coding	KNOWN	CCDS960	3360	402	133	150595020	150601604	-1	None	MGC4319, MGC8394, MGC78563, ARPP-19e
1	ENSA	ENSG00000143420	ENST00000509582	nonsense_mediated_decay	KNOWN	CCDS965	3360	318	105	150595205	150601978	-1	None	MGC4319, MGC8394, MGC78563, ARPP-19e
1	ENSA	ENSG00000143420	ENST00000339643	protein_coding	KNOWN	CCDS959	3360	414	137	150595207	150602052	-1	None	MGC4319, MGC8394, MGC78563, ARPP-19e
1	ENSA	ENSG00000143420	ENST00000271690	protein_coding	KNOWN	CCDS963	3360	354	117	150595757	150602053	-1	None	MGC4319, MGC8394, MGC78563, ARPP-19e
1	ENSA	ENSG00000143420	ENST00000356527	protein_coding	KNOWN	None	3360	423	140	150596098	150602053	-1	None	MGC4319, MGC8394, MGC78563, ARPP-19e
1	ENSA	ENSG00000143420	ENST00000513281	protein_coding	KNOWN	CCDS964	3360	342	113	150597098	150601592	-1	None	MGC4319, MGC8394, MGC78563, ARPP-19e
1	ENSA	ENSG00000143420	ENST00000505321	processed_transcript	KNOWN	None	3360	None	None	150597676	150602088	-1	None	MGC4319, MGC8394, MGC78563, ARPP-19e
1	ENSA	ENSG00000143420	ENST00000503345	protein_coding	KNOWN	CCDS965	3360	318	105	150597941	150602057	-1	None	MGC4319, MGC8394, MGC78563, ARPP-19e
1	ENSA	ENSG00000143420	ENST00000354702	processed_transcript	KNOWN	None	3360	None	None	150597982	150601615	-1	None	MGC4319, MGC8394, MGC78563, ARPP-19e
1	ENSA	ENSG00000143420	ENST00000503241	protein_coding	KNOWN	CCDS962	3360	402	133	150598031	150602035	-1	None	MGC4319, MGC8394, MGC78563, ARPP-19e
1	ENSA	ENSG00000143420	ENST00000362052	protein_coding	KNOWN	CCDS965	3360	318	105	150599530	150602053	-1	None	MGC4319, MGC8394, MGC78563, ARPP-19e
1	ENSA	ENSG00000143420	ENST00000369009	protein_coding	KNOWN	None	3360	435	144	150594604	150602072	-1	None	MGC4319, MGC8394, MGC78563, ARPP-19e
4	SCRG1	ENSG00000164106	ENST00000296506	protein_coding	KNOWN	CCDS3818	17036	297	98	174309299	174320687	-1	None	SCRG-1
4	SCRG1	ENSG00000164106	ENST00000512188	nonsense_mediated_decay	KNOWN	None	17036	279	92	174309313	174327531	-1	None	SCRG-1
4	None	ENSG00000255458	ENST00000529094	lincRNA	KNOWN	None	None	None	None	39640760	39653031	1	None	None
4	None	ENSG00000255458	ENST00000533736	lincRNA	KNOWN	None	None	None	None	39640760	39653692	1	None	None
4	None	ENSG00000255458	ENST00000532680	lincRNA	KNOWN	None	None	None	None	39640801	39652934	1	None	None
4	None	ENSG00000255458	ENST00000526807	lincRNA	KNOWN	None	None	None	None	39654824	39668264	1	None	None
4	None	ENSG00000255458	ENST00000529314	lincRNA	KNOWN	None	None	None	None	39655027	39668188	1	None	None
12	TAS2R7	ENSG00000121377	ENST00000240687	protein_coding	KNOWN	CCDS8631	14913	957	318	10954131	10955226	-1	None	T2R7, TRB4
4	None	ENSG00000252975	ENST00000517166	misc_RNA	NOVEL	None	None	None	None	39711705	39711796	-1	None	None
12	TAS2R8	ENSG00000121314	ENST00000240615	protein_coding	KNOWN	CCDS8632	14915	930	309	10958650	10959892	-1	None	T2R8, TRB5
4	None	ENSG00000249019	ENST00000513977	processed_pseudogene	KNOWN	None	None	None	None	39715462	39716071	-1	None	None
2	PRKRA	ENSG00000180228	ENST00000325748	protein_coding	KNOWN	CCDS2279	9438	942	313	179296141	179315958	-1	None	PACT, RAX, HSD14, DYT16
2	PRKRA	ENSG00000180228	ENST00000490501	retained_intron	KNOWN	None	9438	None	None	179296142	179308734	-1	None	PACT, RAX, HSD14, DYT16
2	PRKRA	ENSG00000180228	ENST00000424699	nonsense_mediated_decay	KNOWN	None	9438	318	105	179296381	179315878	-1	None	PACT, RAX, HSD14, DYT16
2	PRKRA	ENSG00000180228	ENST00000487082	protein_coding	KNOWN	CCDS46461	9438	867	288	179296693	179315491	-1	None	PACT, RAX, HSD14, DYT16
2	PRKRA	ENSG00000180228	ENST00000432031	protein_coding	KNOWN	CCDS46460	9438	909	302	179296703	179315484	-1	None	PACT, RAX, HSD14, DYT16
2	PRKRA	ENSG00000180228	ENST00000474793	retained_intron	KNOWN	None	9438	None	None	179301001	179310610	-1	None	PACT, RAX, HSD14, DYT16
2	PRKRA	ENSG00000180228	ENST00000448279	nonsense_mediated_decay	KNOWN	None	9438	288	95	179308016	179315211	-1	None	PACT, RAX, HSD14, DYT16
2	PRKRA	ENSG00000180228	ENST00000457633	protein_coding	NOVEL	None	9438	326	107	179308070	179315786	-1	None	PACT, RAX, HSD14, DYT16
2	PRKRA	ENSG00000180228	ENST00000470200	processed_transcript	KNOWN	None	9438	None	None	179310153	179316239	-1	None	PACT, RAX, HSD14, DYT16
2	PRKRA	ENSG00000180228	ENST00000460433	processed_transcript	KNOWN	None	9438	None	None	179310222	179315456	-1	None	PACT, RAX, HSD14, DYT16
2	PRKRA	ENSG00000180228	ENST00000466165	retained_intron	KNOWN	None	9438	None	None	179312047	179315840	-1	None	PACT, RAX, HSD14, DYT16
2	PRKRA	ENSG00000180228	ENST00000463882	retained_intron	KNOWN	None	9438	None	None	179314806	179315900	-1	None	PACT, RAX, HSD14, DYT16
2	PRKRA	ENSG00000180228	ENST00000438687	protein_coding	KNOWN	None	9438	603	200	179296381	179315878	-1	None	PACT, RAX, HSD14, DYT16
12	TAS2R9	ENSG00000121381	ENST00000240691	protein_coding	KNOWN	CCDS8633	14917	939	312	10961693	10962767	-1	None	T2R9, TRB6
X	CFP	ENSG00000126759	ENST00000478222	retained_intron	KNOWN	None	8864	None	None	47483612	47485979	-1	PFC	None
X	CFP	ENSG00000126759	ENST00000396992	protein_coding	KNOWN	CCDS14282	8864	1410	469	47483613	47489364	-1	PFC	None
X	CFP	ENSG00000126759	ENST00000485991	retained_intron	KNOWN	None	8864	None	None	47483958	47489294	-1	PFC	None
X	CFP	ENSG00000126759	ENST00000377005	protein_coding	PUTATIVE	None	8864	1248	415	47485387	47489364	-1	PFC	None
X	CFP	ENSG00000126759	ENST00000469388	protein_coding	PUTATIVE	None	8864	501	166	47486206	47489294	-1	PFC	None
X	CFP	ENSG00000126759	ENST00000480317	processed_transcript	KNOWN	None	8864	None	None	47487521	47489351	-1	PFC	None
X	CFP	ENSG00000126759	ENST00000247153	protein_coding	KNOWN	CCDS14282	8864	1410	469	47483613	47489704	-1	PFC	None
11	TENM4	ENSG00000149256	ENST00000278550	protein_coding	KNOWN	CCDS44688	29945	8310	2769	78363876	79151695	-1	ODZ4	KIAA1302, Ten-M4
11	TENM4	ENSG00000149256	ENST00000530738	protein_coding	PUTATIVE	None	29945	2856	951	78368852	78413049	-1	ODZ4	KIAA1302, Ten-M4
11	TENM4	ENSG00000149256	ENST00000533525	protein_coding	NOVEL	None	29945	453	150	78482037	78516456	-1	ODZ4	KIAA1302, Ten-M4
11	TENM4	ENSG00000149256	ENST00000533013	processed_transcript	KNOWN	None	29945	None	None	78600911	78673264	-1	ODZ4	KIAA1302, Ten-M4
11	TENM4	ENSG00000149256	ENST00000533074	protein_coding	PUTATIVE	None	29945	471	156	78600978	78614931	-1	ODZ4	KIAA1302, Ten-M4
11	TENM4	ENSG00000149256	ENST00000529798	processed_transcript	PUTATIVE	None	29945	None	None	78635501	78732838	-1	ODZ4	KIAA1302, Ten-M4
11	TENM4	ENSG00000149256	ENST00000532654	retained_intron	KNOWN	None	29945	None	None	78775644	78980718	-1	ODZ4	KIAA1302, Ten-M4
11	TENM4	ENSG00000149256	ENST00000533038	processed_transcript	PUTATIVE	None	29945	None	None	78778948	78787438	-1	ODZ4	KIAA1302, Ten-M4
11	TENM4	ENSG00000149256	ENST00000527736	protein_coding	KNOWN	None	29945	3	0	78780987	78926954	-1	ODZ4	KIAA1302, Ten-M4
11	TENM4	ENSG00000149256	ENST00000528688	processed_transcript	KNOWN	None	29945	None	None	78859775	79150244	-1	ODZ4	KIAA1302, Ten-M4
11	TENM4	ENSG00000149256	ENST00000531583	processed_transcript	KNOWN	None	29945	None	None	78859846	79151992	-1	ODZ4	KIAA1302, Ten-M4
6	AIM1	ENSG00000112297	ENST00000369066	protein_coding	KNOWN	CCDS34506	356	5172	1723	106959730	107018326	1	None	ST4, CRYBG1
6	AIM1	ENSG00000112297	ENST00000457437	protein_coding	KNOWN	None	356	948	315	106989009	107003772	1	None	ST4, CRYBG1
6	AIM1	ENSG00000112297	ENST00000487681	processed_transcript	KNOWN	None	356	None	None	106992459	107000189	1	None	ST4, CRYBG1
6	AIM1	ENSG00000112297	ENST00000535438	protein_coding	KNOWN	None	356	1629	542	106989029	107017103	1	None	ST4, CRYBG1
20	STX16	ENSG00000124222	ENST00000458280	protein_coding	PUTATIVE	None	11431	368	121	57226328	57244480	1	None	hsyn16, SYN16
20	STX16	ENSG00000124222	ENST00000355957	protein_coding	KNOWN	CCDS46620	11431	927	308	57226328	57254582	1	None	hsyn16, SYN16
20	STX16	ENSG00000124222	ENST00000312283	protein_coding	PUTATIVE	None	11431	613	203	57226329	57246333	1	None	hsyn16, SYN16
20	STX16	ENSG00000124222	ENST00000412911	protein_coding	PUTATIVE	None	11431	362	119	57226335	57244474	1	None	hsyn16, SYN16
20	STX16	ENSG00000124222	ENST00000460655	nonsense_mediated_decay	KNOWN	None	11431	141	46	57226339	57245603	1	None	hsyn16, SYN16
20	STX16	ENSG00000124222	ENST00000359617	protein_coding	KNOWN	CCDS56199	11431	819	272	57226339	57254556	1	None	hsyn16, SYN16
20	STX16	ENSG00000124222	ENST00000371141	protein_coding	KNOWN	CCDS13468	11431	978	325	57226339	57254582	1	None	hsyn16, SYN16
20	STX16	ENSG00000124222	ENST00000476384	nonsense_mediated_decay	KNOWN	None	11431	240	79	57226359	57251347	1	None	hsyn16, SYN16
20	STX16	ENSG00000124222	ENST00000483434	nonsense_mediated_decay	KNOWN	None	11431	240	79	57226360	57251404	1	None	hsyn16, SYN16
20	STX16	ENSG00000124222	ENST00000496117	processed_transcript	KNOWN	None	11431	None	None	57226369	57246275	1	None	hsyn16, SYN16
20	STX16	ENSG00000124222	ENST00000490700	processed_transcript	KNOWN	None	11431	None	None	57226372	57251452	1	None	hsyn16, SYN16
20	STX16	ENSG00000124222	ENST00000371132	protein_coding	KNOWN	CCDS13469	11431	915	304	57226661	57254582	1	None	hsyn16, SYN16
20	STX16	ENSG00000124222	ENST00000496003	processed_transcript	KNOWN	None	11431	None	None	57226802	57248767	1	None	hsyn16, SYN16
20	STX16	ENSG00000124222	ENST00000467096	nonsense_mediated_decay	KNOWN	None	11431	348	115	57226922	57251384	1	None	hsyn16, SYN16
20	STX16	ENSG00000124222	ENST00000358029	protein_coding	KNOWN	CCDS46619	11431	966	321	57226935	57254582	1	None	hsyn16, SYN16
20	STX16	ENSG00000124222	ENST00000464640	nonsense_mediated_decay	KNOWN	None	11431	609	202	57227063	57248767	1	None	hsyn16, SYN16
20	STX16	ENSG00000124222	ENST00000493301	nonsense_mediated_decay	KNOWN	None	11431	380	125	57227082	57246340	1	None	hsyn16, SYN16
20	STX16	ENSG00000124222	ENST00000468590	processed_transcript	KNOWN	None	11431	None	None	57227153	57246353	1	None	hsyn16, SYN16
20	STX16	ENSG00000124222	ENST00000438253	protein_coding	PUTATIVE	None	11431	660	219	57242576	57251542	1	None	hsyn16, SYN16
20	STX16	ENSG00000124222	ENST00000361770	protein_coding	KNOWN	None	11431	927	308	57226328	57254582	1	None	hsyn16, SYN16
20	STX16	ENSG00000124222	ENST00000361830	protein_coding	KNOWN	None	11431	978	325	57227063	57254582	1	None	hsyn16, SYN16
5	KIF4B	ENSG00000226650	ENST00000435029	protein_coding	KNOWN	CCDS47324	6322	3705	1234	154393260	154397685	1	None	None
8	SLC20A2	ENSG00000168575	ENST00000342228	protein_coding	KNOWN	CCDS6132	10947	1959	652	42273993	42397069	-1	MLVAR, GLVR2	PiT-2, Glvr-2
8	SLC20A2	ENSG00000168575	ENST00000520262	protein_coding	KNOWN	CCDS6132	10947	1959	652	42274982	42358978	-1	MLVAR, GLVR2	PiT-2, Glvr-2
8	SLC20A2	ENSG00000168575	ENST00000520179	protein_coding	KNOWN	CCDS6132	10947	1959	652	42275321	42396655	-1	MLVAR, GLVR2	PiT-2, Glvr-2
8	SLC20A2	ENSG00000168575	ENST00000518660	processed_transcript	KNOWN	None	10947	None	None	42294993	42320889	-1	MLVAR, GLVR2	PiT-2, Glvr-2
8	SLC20A2	ENSG00000168575	ENST00000522401	retained_intron	KNOWN	None	10947	None	None	42296985	42317686	-1	MLVAR, GLVR2	PiT-2, Glvr-2
8	SLC20A2	ENSG00000168575	ENST00000524211	nonsense_mediated_decay	KNOWN	None	10947	318	105	42320596	42390139	-1	MLVAR, GLVR2	PiT-2, Glvr-2
8	SLC20A2	ENSG00000168575	ENST00000518717	protein_coding	KNOWN	None	10947	234	77	42329675	42396197	-1	MLVAR, GLVR2	PiT-2, Glvr-2
8	SLC20A2	ENSG00000168575	ENST00000517366	protein_coding	KNOWN	None	10947	212	69	42329697	42358761	-1	MLVAR, GLVR2	PiT-2, Glvr-2
8	SLC20A2	ENSG00000168575	ENST00000522707	protein_coding	KNOWN	None	10947	142	46	42329767	42360146	-1	MLVAR, GLVR2	PiT-2, Glvr-2
8	SLC20A2	ENSG00000168575	ENST00000518384	protein_coding	KNOWN	None	10947	85	27	42329824	42396724	-1	MLVAR, GLVR2	PiT-2, Glvr-2
8	SLC20A2	ENSG00000168575	ENST00000524237	processed_transcript	KNOWN	None	10947	None	None	42329857	42396854	-1	MLVAR, GLVR2	PiT-2, Glvr-2
8	SLC20A2	ENSG00000168575	ENST00000523340	processed_transcript	KNOWN	None	10947	None	None	42389803	42396646	-1	MLVAR, GLVR2	PiT-2, Glvr-2
8	SLC20A2	ENSG00000168575	ENST00000519463	processed_transcript	KNOWN	None	10947	None	None	42390330	42391736	-1	MLVAR, GLVR2	PiT-2, Glvr-2
8	SLC20A2	ENSG00000168575	ENST00000521455	processed_transcript	KNOWN	None	10947	None	None	42391498	42396351	-1	MLVAR, GLVR2	PiT-2, Glvr-2
19	MCOLN1	ENSG00000090674	ENST00000264079	protein_coding	KNOWN	CCDS12180	13356	1743	580	7587512	7598895	1	None	TRPML1, ML4, MLIV, MST080, MSTP080, TRPM-L1
19	MCOLN1	ENSG00000090674	ENST00000596390	retained_intron	KNOWN	None	13356	None	None	7587521	7590877	1	None	TRPML1, ML4, MLIV, MST080, MSTP080, TRPM-L1
19	MCOLN1	ENSG00000090674	ENST00000394321	retained_intron	KNOWN	None	13356	None	None	7587557	7598876	1	None	TRPML1, ML4, MLIV, MST080, MSTP080, TRPM-L1
19	MCOLN1	ENSG00000090674	ENST00000601003	protein_coding	PUTATIVE	None	13356	602	199	7587573	7592780	1	None	TRPML1, ML4, MLIV, MST080, MSTP080, TRPM-L1
19	MCOLN1	ENSG00000090674	ENST00000596008	retained_intron	KNOWN	None	13356	None	None	7591126	7592051	1	None	TRPML1, ML4, MLIV, MST080, MSTP080, TRPM-L1
19	MCOLN1	ENSG00000090674	ENST00000598406	retained_intron	KNOWN	None	13356	None	None	7591267	7592657	1	None	TRPML1, ML4, MLIV, MST080, MSTP080, TRPM-L1
19	MCOLN1	ENSG00000090674	ENST00000595860	retained_intron	KNOWN	None	13356	None	None	7593540	7595387	1	None	TRPML1, ML4, MLIV, MST080, MSTP080, TRPM-L1
19	MCOLN1	ENSG00000090674	ENST00000599334	protein_coding	PUTATIVE	None	13356	548	181	7593846	7598876	1	None	TRPML1, ML4, MLIV, MST080, MSTP080, TRPM-L1
19	MCOLN1	ENSG00000090674	ENST00000594692	retained_intron	KNOWN	None	13356	None	None	7593857	7595286	1	None	TRPML1, ML4, MLIV, MST080, MSTP080, TRPM-L1
19	MCOLN1	ENSG00000090674	ENST00000602227	retained_intron	KNOWN	None	13356	None	None	7598280	7598876	1	None	TRPML1, ML4, MLIV, MST080, MSTP080, TRPM-L1
1	ARTN	ENSG00000117407	ENST00000372359	protein_coding	KNOWN	CCDS501	727	663	220	44398992	44402913	1	None	NBN, EVN, ENOVIN
1	ARTN	ENSG00000117407	ENST00000477048	protein_coding	KNOWN	None	727	199	65	44399347	44401903	1	None	NBN, EVN, ENOVIN
1	ARTN	ENSG00000117407	ENST00000471394	protein_coding	KNOWN	None	727	199	65	44399391	44401903	1	None	NBN, EVN, ENOVIN
1	ARTN	ENSG00000117407	ENST00000498139	protein_coding	KNOWN	CCDS502	727	687	228	44399484	44402912	1	None	NBN, EVN, ENOVIN
1	ARTN	ENSG00000117407	ENST00000491846	protein_coding	KNOWN	None	727	268	88	44399518	44402018	1	None	NBN, EVN, ENOVIN
1	ARTN	ENSG00000117407	ENST00000479128	protein_coding	PUTATIVE	None	727	231	76	44399867	44402018	1	None	NBN, EVN, ENOVIN
1	ARTN	ENSG00000117407	ENST00000472435	protein_coding	PUTATIVE	None	727	231	76	44399870	44402017	1	None	NBN, EVN, ENOVIN
1	ARTN	ENSG00000117407	ENST00000474592	protein_coding	KNOWN	None	727	268	88	44400059	44402018	1	None	NBN, EVN, ENOVIN
1	ARTN	ENSG00000117407	ENST00000372354	protein_coding	KNOWN	CCDS501	727	663	220	44401031	44402479	1	None	NBN, EVN, ENOVIN
1	ARTN	ENSG00000117407	ENST00000438616	protein_coding	NOVEL	None	727	714	237	44401479	44402437	1	None	NBN, EVN, ENOVIN
1	ARTN	ENSG00000117407	ENST00000414809	protein_coding	KNOWN	CCDS502	727	687	228	44398992	44402911	1	None	NBN, EVN, ENOVIN
19	None	ENSG00000213922	ENST00000396843	protein_coding	KNOWN	None	None	468	155	39930212	39932082	1	None	None
9	LCN6	ENSG00000267206	ENST00000341206	protein_coding	KNOWN	CCDS7005	17337	492	163	139638463	139642980	-1	None	None
9	LCN6	ENSG00000267206	ENST00000476567	protein_coding	PUTATIVE	None	17337	237	78	139638469	139640474	-1	None	None
9	LCN6	ENSG00000267206	ENST00000471509	processed_transcript	KNOWN	None	17337	None	None	139638519	139640304	-1	None	None
9	LCN6	ENSG00000267206	ENST00000497749	processed_transcript	KNOWN	None	17337	None	None	139638521	139640303	-1	None	None
9	LCN6	ENSG00000267206	ENST00000494091	processed_transcript	KNOWN	None	17337	None	None	139638530	139640303	-1	None	None
9	LCN6	ENSG00000267206	ENST00000480347	processed_transcript	KNOWN	None	17337	None	None	139639169	139640301	-1	None	None
12	None	ENSG00000258247	ENST00000549961	protein_coding	PUTATIVE	None	None	195	64	95770984	95774672	-1	None	None
6	None	ENSG00000224846	ENST00000456189	antisense	KNOWN	None	None	None	None	2989960	2998977	-1	None	None
6	None	ENSG00000224846	ENST00000429319	antisense	KNOWN	None	None	None	None	2989960	2999368	-1	None	None
5	SGCD	ENSG00000170624	ENST00000517913	protein_coding	KNOWN	CCDS47326	10807	771	256	155297354	156185066	1	None	DAGD, LGMD2F, CMD1L
5	SGCD	ENSG00000170624	ENST00000435422	protein_coding	KNOWN	CCDS47327	10807	870	289	155753756	156194799	1	None	DAGD, LGMD2F, CMD1L
5	SGCD	ENSG00000170624	ENST00000337851	protein_coding	KNOWN	CCDS47325	10807	873	290	155753767	156186615	1	None	DAGD, LGMD2F, CMD1L
5	SGCD	ENSG00000170624	ENST00000524347	nonsense_mediated_decay	KNOWN	None	10807	249	82	155753958	156016244	1	None	DAGD, LGMD2F, CMD1L
5	SGCD	ENSG00000170624	ENST00000447401	protein_coding	KNOWN	CCDS47326	10807	771	256	155753767	156185068	1	None	DAGD, LGMD2F, CMD1L
1	LAMB3	ENSG00000196878	ENST00000356082	protein_coding	KNOWN	CCDS1487	6490	3519	1172	209788215	209825811	-1	LAMNB1	nicein-125kDa, kalinin-140kDa, BM600-125kDa
1	LAMB3	ENSG00000196878	ENST00000367030	protein_coding	KNOWN	CCDS1487	6490	3519	1172	209788322	209825674	-1	LAMNB1	nicein-125kDa, kalinin-140kDa, BM600-125kDa
1	LAMB3	ENSG00000196878	ENST00000455193	protein_coding	KNOWN	None	6490	479	158	209789926	209792143	-1	LAMNB1	nicein-125kDa, kalinin-140kDa, BM600-125kDa
1	LAMB3	ENSG00000196878	ENST00000415782	protein_coding	KNOWN	None	6490	564	187	209807792	209824739	-1	LAMNB1	nicein-125kDa, kalinin-140kDa, BM600-125kDa
1	LAMB3	ENSG00000196878	ENST00000391911	protein_coding	KNOWN	CCDS1487	6490	3519	1172	209788220	209824679	-1	LAMNB1	nicein-125kDa, kalinin-140kDa, BM600-125kDa
11	CDON	ENSG00000064309	ENST00000392693	protein_coding	KNOWN	CCDS58192	17104	3864	1287	125825691	125933187	-1	None	ORCAM, CDO, CDON1
11	CDON	ENSG00000064309	ENST00000531738	protein_coding	PUTATIVE	None	17104	1926	641	125827347	125874340	-1	None	ORCAM, CDO, CDON1
11	CDON	ENSG00000064309	ENST00000263577	protein_coding	PUTATIVE	CCDS8468	17104	3795	1264	125830574	125933187	-1	None	ORCAM, CDO, CDON1
11	CDON	ENSG00000064309	ENST00000534661	protein_coding	PUTATIVE	None	17104	1948	648	125873801	125891417	-1	None	ORCAM, CDO, CDON1
11	CDON	ENSG00000064309	ENST00000531830	nonsense_mediated_decay	KNOWN	None	17104	731	242	125875288	125888368	-1	None	ORCAM, CDO, CDON1
11	CDON	ENSG00000064309	ENST00000525625	retained_intron	KNOWN	None	17104	None	None	125884713	125893434	-1	None	ORCAM, CDO, CDON1
11	CDON	ENSG00000064309	ENST00000531586	protein_coding	PUTATIVE	None	17104	496	164	125889514	125933187	-1	None	ORCAM, CDO, CDON1
11	CDON	ENSG00000064309	ENST00000527967	protein_coding	PUTATIVE	None	17104	428	141	125889582	125932706	-1	None	ORCAM, CDO, CDON1
11	CDON	ENSG00000064309	ENST00000534818	protein_coding	PUTATIVE	None	17104	334	110	125891158	125933230	-1	None	ORCAM, CDO, CDON1
5	None	ENSG00000249329	ENST00000503077	processed_pseudogene	KNOWN	None	None	None	None	17597341	17597937	-1	None	None
1	GOLPH3L	ENSG00000143457	ENST00000271732	protein_coding	KNOWN	CCDS966	24882	858	285	150618701	150669500	-1	None	GPP34R
1	GOLPH3L	ENSG00000143457	ENST00000427665	protein_coding	KNOWN	None	24882	808	268	150620913	150669620	-1	None	GPP34R
1	GOLPH3L	ENSG00000143457	ENST00000479757	processed_transcript	KNOWN	None	24882	None	None	150666988	150669584	-1	None	GPP34R
1	GOLPH3L	ENSG00000143457	ENST00000540514	protein_coding	KNOWN	None	24882	726	241	150620687	150669630	-1	None	GPP34R
2	DFNB59	ENSG00000204311	ENST00000409117	protein_coding	KNOWN	CCDS42787	29502	1059	352	179316163	179326117	1	None	pejvakin
2	DFNB59	ENSG00000204311	ENST00000437056	retained_intron	KNOWN	None	29502	None	None	179317978	179326014	1	None	pejvakin
2	DFNB59	ENSG00000204311	ENST00000375129	protein_coding	KNOWN	CCDS42787	29502	1059	352	179317994	179326001	1	None	pejvakin
2	DFNB59	ENSG00000204311	ENST00000442710	protein_coding	PUTATIVE	None	29502	469	155	179318295	179325931	1	None	pejvakin
2	DFNB59	ENSG00000204311	ENST00000444615	nonsense_mediated_decay	KNOWN	None	29502	317	104	179319206	179325159	1	None	pejvakin
2	DFNB59	ENSG00000204311	ENST00000605419	processed_transcript	KNOWN	None	29502	None	None	179320736	179323354	1	None	pejvakin
19	C19orf53	ENSG00000104979	ENST00000588234	protein_coding	KNOWN	CCDS12298	24991	300	99	13884982	13889275	1	None	HSPC023, LYDG10
19	C19orf53	ENSG00000104979	ENST00000221576	protein_coding	NOVEL	None	24991	243	80	13885293	13889273	1	None	HSPC023, LYDG10
19	C19orf53	ENSG00000104979	ENST00000588858	nonsense_mediated_decay	KNOWN	None	24991	149	48	13885332	13889275	1	None	HSPC023, LYDG10
19	C19orf53	ENSG00000104979	ENST00000588841	nonsense_mediated_decay	KNOWN	None	24991	18	5	13885375	13889217	1	None	HSPC023, LYDG10
19	C19orf53	ENSG00000104979	ENST00000592760	nonsense_mediated_decay	KNOWN	None	24991	94	30	13885381	13889021	1	None	HSPC023, LYDG10
19	C19orf53	ENSG00000104979	ENST00000593274	protein_coding	PUTATIVE	None	24991	171	56	13885638	13889276	1	None	HSPC023, LYDG10
X	STS	ENSG00000101846	ENST00000217961	protein_coding	KNOWN	CCDS14127	11425	1752	583	7137497	7272851	1	ARSC1	ARSC
10	None	ENSG00000234631	ENST00000451472	protein_coding	KNOWN	None	None	372	123	115674530	115676949	1	None	None
1	IPO13	ENSG00000117408	ENST00000372343	protein_coding	KNOWN	CCDS503	16853	2892	963	44412611	44433694	1	None	IMP13, KIAA0724, RANBP13
1	IPO13	ENSG00000117408	ENST00000489061	processed_transcript	KNOWN	None	16853	None	None	44413227	44415217	1	None	IMP13, KIAA0724, RANBP13
1	IPO13	ENSG00000117408	ENST00000489773	processed_transcript	KNOWN	None	16853	None	None	44413242	44422516	1	None	IMP13, KIAA0724, RANBP13
1	IPO13	ENSG00000117408	ENST00000492152	processed_transcript	KNOWN	None	16853	None	None	44418889	44423221	1	None	IMP13, KIAA0724, RANBP13
1	IPO13	ENSG00000117408	ENST00000480902	processed_transcript	KNOWN	None	16853	None	None	44422781	44423221	1	None	IMP13, KIAA0724, RANBP13
1	IPO13	ENSG00000117408	ENST00000372339	protein_coding	KNOWN	None	16853	546	181	44431611	44433424	1	None	IMP13, KIAA0724, RANBP13
1	IPO13	ENSG00000117408	ENST00000486876	processed_transcript	KNOWN	None	16853	None	None	44432832	44433335	1	None	IMP13, KIAA0724, RANBP13
15	PLA2G4F	ENSG00000168907	ENST00000562320	nonsense_mediated_decay	KNOWN	None	27396	261	86	42433396	42437785	-1	None	PLA2G4F/Z
15	PLA2G4F	ENSG00000168907	ENST00000382396	protein_coding	KNOWN	CCDS32204	27396	2550	849	42433399	42448834	-1	None	PLA2G4F/Z
15	PLA2G4F	ENSG00000168907	ENST00000290497	nonsense_mediated_decay	KNOWN	None	27396	183	60	42433402	42448809	-1	None	PLA2G4F/Z
15	PLA2G4F	ENSG00000168907	ENST00000569985	nonsense_mediated_decay	KNOWN	None	27396	891	296	42433407	42448816	-1	None	PLA2G4F/Z
15	PLA2G4F	ENSG00000168907	ENST00000561893	retained_intron	KNOWN	None	27396	None	None	42438873	42439931	-1	None	PLA2G4F/Z
15	PLA2G4F	ENSG00000168907	ENST00000561627	nonsense_mediated_decay	KNOWN	None	27396	360	119	42442863	42448807	-1	None	PLA2G4F/Z
15	PLA2G4F	ENSG00000168907	ENST00000565553	nonsense_mediated_decay	KNOWN	None	27396	213	70	42446320	42448834	-1	None	PLA2G4F/Z
15	PLA2G4F	ENSG00000168907	ENST00000397272	protein_coding	KNOWN	None	27396	2556	851	42433332	42448839	-1	None	PLA2G4F/Z
10	ADRB1	ENSG00000043591	ENST00000369295	protein_coding	KNOWN	CCDS7586	285	1434	477	115803806	115806667	1	ADRB1R	None
2	AAK1	ENSG00000115977	ENST00000409068	protein_coding	PUTATIVE	None	19679	2025	674	69688532	69870786	-1	None	KIAA1048, DKFZp686K16132
2	AAK1	ENSG00000115977	ENST00000409085	protein_coding	KNOWN	CCDS1893	19679	2886	961	69694919	69870849	-1	None	KIAA1048, DKFZp686K16132
2	AAK1	ENSG00000115977	ENST00000489327	retained_intron	KNOWN	None	19679	None	None	69705588	69736625	-1	None	KIAA1048, DKFZp686K16132
2	AAK1	ENSG00000115977	ENST00000406297	protein_coding	KNOWN	None	19679	2592	863	69708188	69870849	-1	None	KIAA1048, DKFZp686K16132
2	AAK1	ENSG00000115977	ENST00000470281	processed_transcript	PUTATIVE	None	19679	None	None	69758849	69771641	-1	None	KIAA1048, DKFZp686K16132
2	AAK1	ENSG00000115977	ENST00000495836	retained_intron	KNOWN	None	19679	None	None	69771371	69870849	-1	None	KIAA1048, DKFZp686K16132
2	AAK1	ENSG00000115977	ENST00000495239	processed_transcript	PUTATIVE	None	19679	None	None	69870009	69871092	-1	None	KIAA1048, DKFZp686K16132
2	AAK1	ENSG00000115977	ENST00000471775	processed_transcript	PUTATIVE	None	19679	None	None	69870038	69871082	-1	None	KIAA1048, DKFZp686K16132
2	AAK1	ENSG00000115977	ENST00000461002	processed_transcript	PUTATIVE	None	19679	None	None	69870217	69901481	-1	None	KIAA1048, DKFZp686K16132
2	AAK1	ENSG00000115977	ENST00000492192	processed_transcript	PUTATIVE	None	19679	None	None	69870225	69870977	-1	None	KIAA1048, DKFZp686K16132
1	G0S2	ENSG00000123689	ENST00000367029	protein_coding	KNOWN	CCDS1488	30229	312	103	209848765	209849733	1	None	None
19	None	ENSG00000214109	ENST00000397557	protein_coding	NOVEL	None	None	384	127	13890884	13900972	-1	None	None
4	HAND2	ENSG00000164107	ENST00000503024	nonsense_mediated_decay	KNOWN	None	4808	277	91	174446120	174450063	-1	None	dHand, Thing2, Hed, bHLHa26
4	HAND2	ENSG00000164107	ENST00000359562	protein_coding	KNOWN	CCDS3819	4808	654	217	174447242	174451380	-1	None	dHand, Thing2, Hed, bHLHa26
4	HAND2	ENSG00000164107	ENST00000505300	processed_transcript	KNOWN	None	4808	None	None	174449230	174451357	-1	None	dHand, Thing2, Hed, bHLHa26
15	PML	ENSG00000140464	ENST00000395135	protein_coding	KNOWN	CCDS45297	9113	1902	633	74287014	74335678	1	None	MYL, TRIM19, RNF71
15	PML	ENSG00000140464	ENST00000395132	protein_coding	KNOWN	CCDS10256	9113	1308	435	74287058	74328735	1	None	MYL, TRIM19, RNF71
15	PML	ENSG00000140464	ENST00000268059	protein_coding	KNOWN	CCDS10257	9113	2490	829	74287058	74328735	1	None	MYL, TRIM19, RNF71
15	PML	ENSG00000140464	ENST00000354026	protein_coding	KNOWN	CCDS10258	9113	2346	781	74287058	74328735	1	None	MYL, TRIM19, RNF71
15	PML	ENSG00000140464	ENST00000268058	protein_coding	KNOWN	CCDS10255	9113	2649	882	74287058	74339112	1	None	MYL, TRIM19, RNF71
15	PML	ENSG00000140464	ENST00000565898	protein_coding	KNOWN	None	9113	2505	834	74287070	74340153	1	None	MYL, TRIM19, RNF71
15	PML	ENSG00000140464	ENST00000569477	protein_coding	KNOWN	None	9113	1926	641	74287072	74327931	1	None	MYL, TRIM19, RNF71
15	PML	ENSG00000140464	ENST00000569965	protein_coding	KNOWN	CCDS45299	9113	1683	560	74287074	74335679	1	None	MYL, TRIM19, RNF71
15	PML	ENSG00000140464	ENST00000567543	protein_coding	KNOWN	CCDS45300	9113	1272	423	74287085	74326899	1	None	MYL, TRIM19, RNF71
15	PML	ENSG00000140464	ENST00000436891	protein_coding	KNOWN	CCDS45299	9113	1683	560	74287085	74328735	1	None	MYL, TRIM19, RNF71
15	PML	ENSG00000140464	ENST00000435786	protein_coding	KNOWN	CCDS45298	9113	1836	611	74287085	74328735	1	None	MYL, TRIM19, RNF71
15	PML	ENSG00000140464	ENST00000564428	protein_coding	KNOWN	CCDS58386	9113	1758	585	74287085	74335679	1	None	MYL, TRIM19, RNF71
15	PML	ENSG00000140464	ENST00000359928	protein_coding	KNOWN	CCDS45300	9113	1272	423	74287085	74335679	1	None	MYL, TRIM19, RNF71
15	PML	ENSG00000140464	ENST00000563500	protein_coding	PUTATIVE	None	9113	1707	568	74287144	74328734	1	None	MYL, TRIM19, RNF71
15	PML	ENSG00000140464	ENST00000564725	retained_intron	KNOWN	None	9113	None	None	74290365	74320783	1	None	MYL, TRIM19, RNF71
15	PML	ENSG00000140464	ENST00000569161	processed_transcript	KNOWN	None	9113	None	None	74315246	74325055	1	None	MYL, TRIM19, RNF71
15	PML	ENSG00000140464	ENST00000565239	protein_coding	NOVEL	None	9113	721	239	74315253	74328463	1	None	MYL, TRIM19, RNF71
15	PML	ENSG00000140464	ENST00000567606	protein_coding	PUTATIVE	None	9113	784	260	74315322	74328735	1	None	MYL, TRIM19, RNF71
15	PML	ENSG00000140464	ENST00000566068	protein_coding	PUTATIVE	None	9113	653	216	74315636	74327676	1	None	MYL, TRIM19, RNF71
15	PML	ENSG00000140464	ENST00000562086	protein_coding	PUTATIVE	None	9113	333	110	74317221	74328735	1	None	MYL, TRIM19, RNF71
15	PML	ENSG00000140464	ENST00000570213	retained_intron	KNOWN	None	9113	None	None	74324736	74325546	1	None	MYL, TRIM19, RNF71
15	PML	ENSG00000140464	ENST00000565317	processed_transcript	KNOWN	None	9113	None	None	74333670	74335683	1	None	MYL, TRIM19, RNF71
X	EDA	ENSG00000158813	ENST00000525810	protein_coding	KNOWN	CCDS35318	3157	408	135	68835911	69080892	1	ED1, EDA2, ODT1	EDA1, XLHED, HED, XHED, ED1-A1, ED1-A2, EDA-A1, EDA-A2
X	EDA	ENSG00000158813	ENST00000527388	protein_coding	NOVEL	CCDS55436	3157	447	148	68835911	69080892	1	ED1, EDA2, ODT1	EDA1, XLHED, HED, XHED, ED1-A1, ED1-A2, EDA-A1, EDA-A2
X	EDA	ENSG00000158813	ENST00000533317	retained_intron	KNOWN	None	3157	None	None	68835911	69177327	1	ED1, EDA2, ODT1	EDA1, XLHED, HED, XHED, ED1-A1, ED1-A2, EDA-A1, EDA-A2
X	EDA	ENSG00000158813	ENST00000374548	retained_intron	KNOWN	None	3157	None	None	68835911	69177354	1	ED1, EDA2, ODT1	EDA1, XLHED, HED, XHED, ED1-A1, ED1-A2, EDA-A1, EDA-A2
X	EDA	ENSG00000158813	ENST00000502251	processed_transcript	KNOWN	None	3157	None	None	68835911	69177354	1	ED1, EDA2, ODT1	EDA1, XLHED, HED, XHED, ED1-A1, ED1-A2, EDA-A1, EDA-A2
X	EDA	ENSG00000158813	ENST00000374553	protein_coding	KNOWN	CCDS43966	3157	1170	389	68835911	69259319	1	ED1, EDA2, ODT1	EDA1, XLHED, HED, XHED, ED1-A1, ED1-A2, EDA-A1, EDA-A2
X	EDA	ENSG00000158813	ENST00000374552	protein_coding	KNOWN	CCDS14394	3157	1176	391	68835911	69259319	1	ED1, EDA2, ODT1	EDA1, XLHED, HED, XHED, ED1-A1, ED1-A2, EDA-A1, EDA-A2
X	EDA	ENSG00000158813	ENST00000524573	protein_coding	NOVEL	CCDS35319	3157	1161	386	68835961	69255487	1	ED1, EDA2, ODT1	EDA1, XLHED, HED, XHED, ED1-A1, ED1-A2, EDA-A1, EDA-A2
X	EDA	ENSG00000158813	ENST00000503592	protein_coding	PUTATIVE	None	3157	410	135	68840254	69253260	1	ED1, EDA2, ODT1	EDA1, XLHED, HED, XHED, ED1-A1, ED1-A2, EDA-A1, EDA-A2
X	EDA	ENSG00000158813	ENST00000510681	processed_transcript	KNOWN	None	3157	None	None	68840273	69080948	1	ED1, EDA2, ODT1	EDA1, XLHED, HED, XHED, ED1-A1, ED1-A2, EDA-A1, EDA-A2
X	EDA	ENSG00000158813	ENST00000530321	processed_transcript	KNOWN	None	3157	None	None	68840300	69080892	1	ED1, EDA2, ODT1	EDA1, XLHED, HED, XHED, ED1-A1, ED1-A2, EDA-A1, EDA-A2
X	EDA	ENSG00000158813	ENST00000338901	protein_coding	KNOWN	CCDS55436	3157	447	148	68835911	68890104	1	ED1, EDA2, ODT1	EDA1, XLHED, HED, XHED, ED1-A1, ED1-A2, EDA-A1, EDA-A2
8	CLN8	ENSG00000182372	ENST00000524258	processed_transcript	KNOWN	None	2079	None	None	1703944	1719460	1	EPMR, C8orf61	FLJ39417
8	CLN8	ENSG00000182372	ENST00000518780	processed_transcript	KNOWN	None	2079	None	None	1703947	1707667	1	EPMR, C8orf61	FLJ39417
8	CLN8	ENSG00000182372	ENST00000517514	processed_transcript	KNOWN	None	2079	None	None	1703954	1707677	1	EPMR, C8orf61	FLJ39417
8	CLN8	ENSG00000182372	ENST00000331222	protein_coding	KNOWN	CCDS5956	2079	861	286	1711928	1734738	1	EPMR, C8orf61	FLJ39417
8	CLN8	ENSG00000182372	ENST00000520991	retained_intron	KNOWN	None	2079	None	None	1711969	1719733	1	EPMR, C8orf61	FLJ39417
8	CLN8	ENSG00000182372	ENST00000519254	processed_transcript	KNOWN	None	2079	None	None	1721090	1728938	1	EPMR, C8orf61	FLJ39417
8	CLN8	ENSG00000182372	ENST00000523237	processed_transcript	PUTATIVE	None	2079	None	None	1721750	1728932	1	EPMR, C8orf61	FLJ39417
17	CLDN7	ENSG00000181885	ENST00000360325	protein_coding	KNOWN	CCDS11096	2049	636	211	7163222	7165797	-1	CEPTRL2, CPETRL2	Hs.84359
17	CLDN7	ENSG00000181885	ENST00000397317	protein_coding	KNOWN	CCDS11096	2049	636	211	7163456	7166532	-1	CEPTRL2, CPETRL2	Hs.84359
17	CLDN7	ENSG00000181885	ENST00000574070	protein_coding	PUTATIVE	None	2049	299	98	7163781	7164464	-1	CEPTRL2, CPETRL2	Hs.84359
17	CLDN7	ENSG00000181885	ENST00000575313	protein_coding	PUTATIVE	None	2049	581	192	7163808	7166519	-1	CEPTRL2, CPETRL2	Hs.84359
17	CLDN7	ENSG00000181885	ENST00000571881	protein_coding	PUTATIVE	None	2049	423	140	7163973	7165662	-1	CEPTRL2, CPETRL2	Hs.84359
17	CLDN7	ENSG00000181885	ENST00000571932	protein_coding	PUTATIVE	None	2049	388	128	7164140	7167302	-1	CEPTRL2, CPETRL2	Hs.84359
17	CLDN7	ENSG00000181885	ENST00000573745	processed_transcript	PUTATIVE	None	2049	None	None	7165386	7166523	-1	CEPTRL2, CPETRL2	Hs.84359
17	CLDN7	ENSG00000181885	ENST00000538261	protein_coding	KNOWN	CCDS54081	2049	438	145	7163223	7166264	-1	CEPTRL2, CPETRL2	Hs.84359
2	FKBP7	ENSG00000079150	ENST00000424785	protein_coding	KNOWN	CCDS2280	3723	669	222	179328391	179343285	-1	None	FKBP23
2	FKBP7	ENSG00000079150	ENST00000464248	processed_transcript	KNOWN	None	3723	None	None	179329983	179343280	-1	None	FKBP23
2	FKBP7	ENSG00000079150	ENST00000233092	nonsense_mediated_decay	KNOWN	None	3723	384	127	179330326	179343302	-1	None	FKBP23
2	FKBP7	ENSG00000079150	ENST00000435079	nonsense_mediated_decay	KNOWN	None	3723	225	74	179330418	179343280	-1	None	FKBP23
2	FKBP7	ENSG00000079150	ENST00000470945	processed_transcript	KNOWN	None	3723	None	None	179330426	179343327	-1	None	FKBP23
2	FKBP7	ENSG00000079150	ENST00000419184	nonsense_mediated_decay	KNOWN	None	3723	261	86	179330472	179343322	-1	None	FKBP23
2	FKBP7	ENSG00000079150	ENST00000434643	protein_coding	KNOWN	CCDS46462	3723	666	221	179330497	179343226	-1	None	FKBP23
2	FKBP7	ENSG00000079150	ENST00000412612	nonsense_mediated_decay	KNOWN	None	3723	202	66	179332534	179343044	-1	None	FKBP23
1	HSD11B1	ENSG00000117594	ENST00000367028	protein_coding	KNOWN	CCDS1489	5208	879	292	209859510	209908295	1	HSD11B, HSD11	SDR26C1
1	HSD11B1	ENSG00000117594	ENST00000367027	protein_coding	KNOWN	CCDS1489	5208	879	292	209878191	209908209	1	HSD11B, HSD11	SDR26C1
1	HSD11B1	ENSG00000117594	ENST00000261465	protein_coding	KNOWN	CCDS1489	5208	879	292	209859550	209908295	1	HSD11B, HSD11	SDR26C1
7	TTC4P1	ENSG00000221971	ENST00000427137	processed_pseudogene	KNOWN	None	12395	None	None	46039220	46040377	-1	TTC4P	None
7	None	ENSG00000224547	ENST00000446539	processed_pseudogene	KNOWN	None	None	None	None	46184535	46185286	1	None	None
7	None	ENSG00000229459	ENST00000414915	lincRNA	KNOWN	None	None	None	None	46300662	46334067	1	None	None
7	None	ENSG00000237760	ENST00000436266	lincRNA	KNOWN	None	None	None	None	46341718	46383219	1	None	None
X	VCX	ENSG00000182583	ENST00000381059	protein_coding	KNOWN	CCDS14128	12667	621	206	7810303	7812184	1	None	VCX1, VCX10R, VCX-10r, VCX-B1
X	VCX	ENSG00000182583	ENST00000341408	protein_coding	KNOWN	None	12667	561	186	7810303	7812057	1	None	VCX1, VCX10R, VCX-10r, VCX-B1
19	ZSWIM4	ENSG00000132003	ENST00000254323	protein_coding	KNOWN	CCDS32924	25704	2970	989	13906274	13943044	1	None	FLJ12221
19	ZSWIM4	ENSG00000132003	ENST00000590508	protein_coding	NOVEL	None	25704	2697	898	13915875	13942088	1	None	FLJ12221
19	ZSWIM4	ENSG00000132003	ENST00000592227	protein_coding	PUTATIVE	None	25704	719	238	13928513	13941229	1	None	FLJ12221
19	ZSWIM4	ENSG00000132003	ENST00000440752	protein_coding	KNOWN	None	25704	2472	823	13915875	13942088	1	None	FLJ12221
3	C3orf67	ENSG00000163689	ENST00000486145	protein_coding	PUTATIVE	None	24763	238	78	58703092	58817451	-1	None	FLJ42117, FLJ42930
3	C3orf67	ENSG00000163689	ENST00000470454	nonsense_mediated_decay	KNOWN	None	24763	80	25	58703094	58739570	-1	None	FLJ42117, FLJ42930
3	C3orf67	ENSG00000163689	ENST00000484535	nonsense_mediated_decay	KNOWN	None	24763	561	186	58711595	58834952	-1	None	FLJ42117, FLJ42930
3	C3orf67	ENSG00000163689	ENST00000460459	nonsense_mediated_decay	KNOWN	None	24763	133	43	58713697	58739590	-1	None	FLJ42117, FLJ42930
3	C3orf67	ENSG00000163689	ENST00000295966	protein_coding	KNOWN	CCDS33776	24763	1692	563	58727733	59035810	-1	None	FLJ42117, FLJ42930
3	C3orf67	ENSG00000163689	ENST00000482387	protein_coding	KNOWN	None	24763	2070	689	58727737	58923488	-1	None	FLJ42117, FLJ42930
3	C3orf67	ENSG00000163689	ENST00000468415	nonsense_mediated_decay	KNOWN	None	24763	591	196	58739427	59035758	-1	None	FLJ42117, FLJ42930
3	C3orf67	ENSG00000163689	ENST00000495572	nonsense_mediated_decay	KNOWN	None	24763	123	40	58739430	58817465	-1	None	FLJ42117, FLJ42930
3	C3orf67	ENSG00000163689	ENST00000472469	protein_coding	PUTATIVE	None	24763	1005	334	58846954	59035738	-1	None	FLJ42117, FLJ42930
3	C3orf67	ENSG00000163689	ENST00000479931	nonsense_mediated_decay	KNOWN	None	24763	576	191	58873072	59035485	-1	None	FLJ42117, FLJ42930
3	C3orf67	ENSG00000163689	ENST00000491845	protein_coding	PUTATIVE	None	24763	225	74	58899296	59035717	-1	None	FLJ42117, FLJ42930
3	C3orf67	ENSG00000163689	ENST00000471288	protein_coding	NOVEL	None	24763	498	165	58899486	59035776	-1	None	FLJ42117, FLJ42930
3	C3orf67	ENSG00000163689	ENST00000478363	processed_transcript	PUTATIVE	None	24763	None	None	58939213	59032037	-1	None	FLJ42117, FLJ42930
19	TIMM50	ENSG00000105197	ENST00000314349	protein_coding	KNOWN	CCDS33023	23656	1371	456	39971052	39980568	1	None	TIM50L
19	TIMM50	ENSG00000105197	ENST00000601358	nonsense_mediated_decay	KNOWN	None	23656	426	141	39971124	39980568	1	None	TIM50L
19	TIMM50	ENSG00000105197	ENST00000607714	protein_coding	KNOWN	None	23656	1062	353	39971472	39980714	1	None	TIM50L
19	TIMM50	ENSG00000105197	ENST00000599794	protein_coding	NOVEL	None	23656	474	157	39971481	39980759	1	None	TIM50L
19	TIMM50	ENSG00000105197	ENST00000598125	retained_intron	KNOWN	None	23656	None	None	39971486	39973834	1	None	TIM50L
19	TIMM50	ENSG00000105197	ENST00000597666	protein_coding	NOVEL	None	23656	600	199	39971490	39978814	1	None	TIM50L
19	TIMM50	ENSG00000105197	ENST00000601403	protein_coding	NOVEL	None	23656	768	255	39971493	39978826	1	None	TIM50L
19	TIMM50	ENSG00000105197	ENST00000602028	protein_coding	NOVEL	None	23656	770	255	39971496	39978857	1	None	TIM50L
19	TIMM50	ENSG00000105197	ENST00000595286	retained_intron	KNOWN	None	23656	None	None	39971498	39974185	1	None	TIM50L
19	TIMM50	ENSG00000105197	ENST00000597782	nonsense_mediated_decay	KNOWN	None	23656	335	110	39971522	39976242	1	None	TIM50L
19	TIMM50	ENSG00000105197	ENST00000599733	nonsense_mediated_decay	KNOWN	None	23656	349	115	39971568	39977135	1	None	TIM50L
19	TIMM50	ENSG00000105197	ENST00000602265	nonsense_mediated_decay	KNOWN	None	23656	352	116	39971568	39979244	1	None	TIM50L
19	TIMM50	ENSG00000105197	ENST00000594583	protein_coding	PUTATIVE	None	23656	680	225	39971865	39977135	1	None	TIM50L
19	TIMM50	ENSG00000105197	ENST00000596239	retained_intron	KNOWN	None	23656	None	None	39975679	39976446	1	None	TIM50L
19	TIMM50	ENSG00000105197	ENST00000595961	retained_intron	KNOWN	None	23656	None	None	39976231	39981870	1	None	TIM50L
19	TIMM50	ENSG00000105197	ENST00000597552	retained_intron	KNOWN	None	23656	None	None	39978646	39980408	1	None	TIM50L
19	TIMM50	ENSG00000105197	ENST00000601252	nonsense_mediated_decay	KNOWN	None	23656	313	103	39978754	39983362	1	None	TIM50L
19	TIMM50	ENSG00000105197	ENST00000595527	retained_intron	KNOWN	None	23656	None	None	39982152	39984422	1	None	TIM50L
19	TIMM50	ENSG00000105197	ENST00000600878	processed_transcript	KNOWN	None	23656	None	None	39983057	39984355	1	None	TIM50L
19	TIMM50	ENSG00000105197	ENST00000544017	protein_coding	KNOWN	None	23656	723	240	39971518	39980561	1	None	TIM50L
9	TLE4	ENSG00000106829	ENST00000376552	protein_coding	KNOWN	CCDS43837	11840	2322	773	82186688	82340414	1	None	E(spI), ESG, GRG4
9	TLE4	ENSG00000106829	ENST00000461758	nonsense_mediated_decay	KNOWN	None	11840	306	101	82186856	82191717	1	None	E(spI), ESG, GRG4
9	TLE4	ENSG00000106829	ENST00000470872	nonsense_mediated_decay	KNOWN	None	11840	273	90	82187490	82340258	1	None	E(spI), ESG, GRG4
9	TLE4	ENSG00000106829	ENST00000435650	protein_coding	NOVEL	None	11840	639	212	82187507	82267714	1	None	E(spI), ESG, GRG4
9	TLE4	ENSG00000106829	ENST00000414465	protein_coding	NOVEL	None	11840	385	127	82187526	82267544	1	None	E(spI), ESG, GRG4
9	TLE4	ENSG00000106829	ENST00000376537	protein_coding	NOVEL	None	11840	2418	805	82187530	82340258	1	None	E(spI), ESG, GRG4
9	TLE4	ENSG00000106829	ENST00000462803	nonsense_mediated_decay	KNOWN	None	11840	780	259	82187540	82340255	1	None	E(spI), ESG, GRG4
9	TLE4	ENSG00000106829	ENST00000376524	processed_transcript	KNOWN	None	11840	None	None	82187549	82195033	1	None	E(spI), ESG, GRG4
9	TLE4	ENSG00000106829	ENST00000476523	processed_transcript	KNOWN	None	11840	None	None	82187553	82195100	1	None	E(spI), ESG, GRG4
9	TLE4	ENSG00000106829	ENST00000376525	retained_intron	KNOWN	None	11840	None	None	82187627	82189944	1	None	E(spI), ESG, GRG4
9	TLE4	ENSG00000106829	ENST00000265284	protein_coding	NOVEL	None	11840	2247	748	82187660	82340148	1	None	E(spI), ESG, GRG4
9	TLE4	ENSG00000106829	ENST00000425506	protein_coding	PUTATIVE	None	11840	586	194	82188177	82267709	1	None	E(spI), ESG, GRG4
9	TLE4	ENSG00000106829	ENST00000485159	retained_intron	KNOWN	None	11840	None	None	82188212	82242667	1	None	E(spI), ESG, GRG4
9	TLE4	ENSG00000106829	ENST00000466428	retained_intron	KNOWN	None	11840	None	None	82188418	82242363	1	None	E(spI), ESG, GRG4
9	TLE4	ENSG00000106829	ENST00000428713	protein_coding	NOVEL	None	11840	967	321	82188604	82323165	1	None	E(spI), ESG, GRG4
9	TLE4	ENSG00000106829	ENST00000455913	processed_transcript	KNOWN	None	11840	None	None	82188848	82267714	1	None	E(spI), ESG, GRG4
9	TLE4	ENSG00000106829	ENST00000496853	processed_transcript	KNOWN	None	11840	None	None	82190694	82267652	1	None	E(spI), ESG, GRG4
9	TLE4	ENSG00000106829	ENST00000474519	processed_transcript	KNOWN	None	11840	None	None	82190695	82267618	1	None	E(spI), ESG, GRG4
9	TLE4	ENSG00000106829	ENST00000483597	processed_transcript	KNOWN	None	11840	None	None	82195142	82264639	1	None	E(spI), ESG, GRG4
9	TLE4	ENSG00000106829	ENST00000490347	protein_coding	NOVEL	None	11840	717	238	82267508	82323698	1	None	E(spI), ESG, GRG4
9	TLE4	ENSG00000106829	ENST00000493163	processed_transcript	KNOWN	None	11840	None	None	82267601	82286472	1	None	E(spI), ESG, GRG4
9	TLE4	ENSG00000106829	ENST00000463431	processed_transcript	KNOWN	None	11840	None	None	82278365	82323077	1	None	E(spI), ESG, GRG4
9	TLE4	ENSG00000106829	ENST00000495170	retained_intron	KNOWN	None	11840	None	None	82319560	82323141	1	None	E(spI), ESG, GRG4
9	TLE4	ENSG00000106829	ENST00000467142	protein_coding	NOVEL	None	11840	497	164	82319698	82324587	1	None	E(spI), ESG, GRG4
9	TLE4	ENSG00000106829	ENST00000496114	protein_coding	NOVEL	None	11840	1028	341	82319718	82333878	1	None	E(spI), ESG, GRG4
9	TLE4	ENSG00000106829	ENST00000417836	protein_coding	NOVEL	None	11840	632	209	82321681	82324612	1	None	E(spI), ESG, GRG4
9	TLE4	ENSG00000106829	ENST00000478290	processed_transcript	KNOWN	None	11840	None	None	82323508	82337516	1	None	E(spI), ESG, GRG4
9	TLE4	ENSG00000106829	ENST00000376544	protein_coding	KNOWN	None	11840	2115	704	82186878	82341658	1	None	E(spI), ESG, GRG4
9	TLE4	ENSG00000106829	ENST00000376520	protein_coding	KNOWN	None	11840	2418	805	82186878	82341658	1	None	E(spI), ESG, GRG4
9	TLE4	ENSG00000106829	ENST00000376534	protein_coding	KNOWN	None	11840	1233	410	82187540	82340255	1	None	E(spI), ESG, GRG4
2	PLEKHA3	ENSG00000116095	ENST00000234453	protein_coding	KNOWN	CCDS33336	14338	903	300	179345195	179370093	1	None	FAPP1
2	PLEKHA3	ENSG00000116095	ENST00000453653	nonsense_mediated_decay	KNOWN	None	14338	186	61	179345460	179360337	1	None	FAPP1
2	PLEKHA3	ENSG00000116095	ENST00000461474	processed_transcript	KNOWN	None	14338	None	None	179346588	179358716	1	None	FAPP1
2	PLEKHA3	ENSG00000116095	ENST00000421187	protein_coding	PUTATIVE	None	14338	345	114	179360346	179368688	1	None	FAPP1
22	ODF3B	ENSG00000177989	ENST00000468249	retained_intron	KNOWN	None	34388	None	None	50968139	50970251	-1	None	None
22	ODF3B	ENSG00000177989	ENST00000401779	protein_coding	PUTATIVE	None	34388	729	242	50968838	50970613	-1	None	None
22	ODF3B	ENSG00000177989	ENST00000403326	protein_coding	PUTATIVE	None	34388	558	185	50968855	50970537	-1	None	None
22	ODF3B	ENSG00000177989	ENST00000405135	protein_coding	PUTATIVE	None	34388	846	281	50968870	50970576	-1	None	None
22	ODF3B	ENSG00000177989	ENST00000428989	protein_coding	KNOWN	CCDS43039	34388	762	253	50968909	50970506	-1	None	None
22	ODF3B	ENSG00000177989	ENST00000463472	retained_intron	KNOWN	None	34388	None	None	50968968	50969852	-1	None	None
22	ODF3B	ENSG00000177989	ENST00000469660	retained_intron	KNOWN	None	34388	None	None	50969067	50970108	-1	None	None
22	ODF3B	ENSG00000177989	ENST00000437588	protein_coding	PUTATIVE	None	34388	138	45	50970174	50971009	-1	None	None
22	ODF3B	ENSG00000177989	ENST00000329363	protein_coding	KNOWN	CCDS43039	34388	762	253	50968838	50971008	-1	None	None
1	DPH2	ENSG00000132768	ENST00000471934	processed_transcript	KNOWN	None	3004	None	None	44435672	44436685	1	DPH2L2	None
1	DPH2	ENSG00000132768	ENST00000476260	nonsense_mediated_decay	KNOWN	None	3004	309	102	44435672	44437198	1	DPH2L2	None
1	DPH2	ENSG00000132768	ENST00000255108	protein_coding	KNOWN	CCDS504	3004	1470	489	44435676	44439041	1	DPH2L2	None
1	DPH2	ENSG00000132768	ENST00000524776	nonsense_mediated_decay	KNOWN	None	3004	444	147	44435680	44438393	1	DPH2L2	None
1	DPH2	ENSG00000132768	ENST00000530988	retained_intron	KNOWN	None	3004	None	None	44435682	44436596	1	DPH2L2	None
1	DPH2	ENSG00000132768	ENST00000495421	nonsense_mediated_decay	KNOWN	None	3004	282	93	44435682	44439041	1	DPH2L2	None
1	DPH2	ENSG00000132768	ENST00000527567	retained_intron	KNOWN	None	3004	None	None	44435695	44436791	1	DPH2L2	None
1	DPH2	ENSG00000132768	ENST00000492306	nonsense_mediated_decay	KNOWN	None	3004	303	100	44435695	44437212	1	DPH2L2	None
1	DPH2	ENSG00000132768	ENST00000490861	retained_intron	KNOWN	None	3004	None	None	44435696	44437297	1	DPH2L2	None
1	DPH2	ENSG00000132768	ENST00000396758	protein_coding	KNOWN	CCDS41314	3004	786	261	44435697	44439012	1	DPH2L2	None
1	DPH2	ENSG00000132768	ENST00000477294	processed_transcript	KNOWN	None	3004	None	None	44435701	44436861	1	DPH2L2	None
1	DPH2	ENSG00000132768	ENST00000529729	processed_transcript	KNOWN	None	3004	None	None	44435701	44437396	1	DPH2L2	None
1	DPH2	ENSG00000132768	ENST00000532140	nonsense_mediated_decay	KNOWN	None	3004	159	52	44435739	44436778	1	DPH2L2	None
1	DPH2	ENSG00000132768	ENST00000534786	retained_intron	KNOWN	None	3004	None	None	44435777	44436774	1	DPH2L2	None
1	DPH2	ENSG00000132768	ENST00000534655	retained_intron	KNOWN	None	3004	None	None	44436542	44437296	1	DPH2L2	None
1	DPH2	ENSG00000132768	ENST00000459879	protein_coding	NOVEL	None	3004	789	262	44436786	44438435	1	DPH2L2	None
1	DPH2	ENSG00000132768	ENST00000527319	nonsense_mediated_decay	KNOWN	None	3004	106	34	44437141	44438480	1	DPH2L2	None
1	DPH2	ENSG00000132768	ENST00000412950	protein_coding	KNOWN	None	3004	1065	354	44435680	44438393	1	DPH2L2	None
X	ELK1	ENSG00000126767	ENST00000247161	protein_coding	KNOWN	CCDS14283	3321	1287	428	47494920	47509887	-1	None	None
X	ELK1	ENSG00000126767	ENST00000592066	protein_coding	PUTATIVE	None	3321	1125	374	47495566	47509887	-1	None	None
X	ELK1	ENSG00000126767	ENST00000376983	protein_coding	KNOWN	CCDS14283	3321	1287	428	47495566	47509990	-1	None	None
X	ELK1	ENSG00000126767	ENST00000480157	processed_transcript	KNOWN	None	3321	None	None	47496210	47509990	-1	None	None
X	ELK1	ENSG00000126767	ENST00000468956	processed_transcript	KNOWN	None	3321	None	None	47508286	47510003	-1	None	None
X	ELK1	ENSG00000126767	ENST00000343894	protein_coding	KNOWN	CCDS59165	3321	288	95	47496434	47510003	-1	None	None
5	None	ENSG00000248422	ENST00000512613	processed_pseudogene	KNOWN	None	None	None	None	17598541	17598668	-1	None	None
5	None	ENSG00000249282	ENST00000511476	processed_pseudogene	KNOWN	None	None	None	None	17601991	17602243	-1	None	None
10	C10orf118	ENSG00000165813	ENST00000369287	protein_coding	KNOWN	CCDS7587	24349	2697	898	115880621	115933979	-1	None	FLJ10188, FLJ35301
10	C10orf118	ENSG00000165813	ENST00000428953	protein_coding	NOVEL	None	24349	1309	435	115884688	115904361	-1	None	FLJ10188, FLJ35301
10	C10orf118	ENSG00000165813	ENST00000497592	processed_transcript	KNOWN	None	24349	None	None	115889958	115891095	-1	None	FLJ10188, FLJ35301
10	C10orf118	ENSG00000165813	ENST00000490661	retained_intron	KNOWN	None	24349	None	None	115890785	115891853	-1	None	FLJ10188, FLJ35301
10	C10orf118	ENSG00000165813	ENST00000369285	protein_coding	KNOWN	None	24349	636	211	115921367	115933961	-1	None	FLJ10188, FLJ35301
10	C10orf118	ENSG00000165813	ENST00000369286	protein_coding	KNOWN	None	24349	636	211	115921367	115933979	-1	None	FLJ10188, FLJ35301
10	C10orf118	ENSG00000165813	ENST00000543782	protein_coding	KNOWN	None	24349	1218	405	115884688	115904361	-1	None	FLJ10188, FLJ35301
1	HORMAD1	ENSG00000143452	ENST00000368995	protein_coding	KNOWN	None	25245	945	314	150670536	150693352	-1	None	DKFZP434A1315, CT46
1	HORMAD1	ENSG00000143452	ENST00000322343	protein_coding	KNOWN	CCDS55633	25245	1164	387	150670638	150693361	-1	None	DKFZP434A1315, CT46
1	HORMAD1	ENSG00000143452	ENST00000361824	protein_coding	KNOWN	CCDS967	25245	1185	394	150670729	150693352	-1	None	DKFZP434A1315, CT46
1	HORMAD1	ENSG00000143452	ENST00000470397	processed_transcript	KNOWN	None	25245	None	None	150670867	150676783	-1	None	DKFZP434A1315, CT46
1	HORMAD1	ENSG00000143452	ENST00000486497	processed_transcript	KNOWN	None	25245	None	None	150671030	150679299	-1	None	DKFZP434A1315, CT46
1	HORMAD1	ENSG00000143452	ENST00000368987	protein_coding	KNOWN	None	25245	572	189	150679048	150693316	-1	None	DKFZP434A1315, CT46
1	HORMAD1	ENSG00000143452	ENST00000442853	protein_coding	KNOWN	None	25245	493	163	150679106	150693344	-1	None	DKFZP434A1315, CT46
1	HORMAD1	ENSG00000143452	ENST00000476530	processed_transcript	KNOWN	None	25245	None	None	150686204	150693364	-1	None	DKFZP434A1315, CT46
1	HORMAD1	ENSG00000143452	ENST00000368993	protein_coding	KNOWN	None	25245	1185	394	150670542	150693352	-1	None	DKFZP434A1315, CT46
X	PNPLA4	ENSG00000006757	ENST00000381042	protein_coding	KNOWN	CCDS14129	24887	762	253	7866288	7895484	-1	None	DXS1283E, GS2, iPLA2eta
X	PNPLA4	ENSG00000006757	ENST00000442940	protein_coding	KNOWN	None	24887	570	189	7870090	7895780	-1	None	DXS1283E, GS2, iPLA2eta
X	PNPLA4	ENSG00000006757	ENST00000444736	protein_coding	KNOWN	CCDS14129	24887	762	253	7866804	7895780	-1	None	DXS1283E, GS2, iPLA2eta
X	PNPLA4	ENSG00000006757	ENST00000537427	protein_coding	KNOWN	CCDS55368	24887	501	166	7866804	7895780	-1	None	DXS1283E, GS2, iPLA2eta
5	POC5	ENSG00000152359	ENST00000428202	protein_coding	KNOWN	CCDS47236	26658	1728	575	74969949	75013306	-1	C5orf37	FLJ35779, MGC120442, MGC120443, MGC120444, hPOC5
5	POC5	ENSG00000152359	ENST00000514838	protein_coding	NOVEL	None	26658	1644	547	74970027	75013223	-1	C5orf37	FLJ35779, MGC120442, MGC120443, MGC120444, hPOC5
5	POC5	ENSG00000152359	ENST00000510798	protein_coding	KNOWN	None	26658	1200	399	74970256	75008257	-1	C5orf37	FLJ35779, MGC120442, MGC120443, MGC120444, hPOC5
5	POC5	ENSG00000152359	ENST00000446329	protein_coding	KNOWN	CCDS47237	26658	1653	550	74970256	75008280	-1	C5orf37	FLJ35779, MGC120442, MGC120443, MGC120444, hPOC5
5	POC5	ENSG00000152359	ENST00000503521	retained_intron	KNOWN	None	26658	None	None	74973346	74981193	-1	C5orf37	FLJ35779, MGC120442, MGC120443, MGC120444, hPOC5
5	POC5	ENSG00000152359	ENST00000503835	protein_coding	KNOWN	None	26658	486	161	74986346	75013273	-1	C5orf37	FLJ35779, MGC120442, MGC120443, MGC120444, hPOC5
5	POC5	ENSG00000152359	ENST00000357564	processed_transcript	KNOWN	None	26658	None	None	74988219	74991936	-1	C5orf37	FLJ35779, MGC120442, MGC120443, MGC120444, hPOC5
5	POC5	ENSG00000152359	ENST00000504862	processed_transcript	KNOWN	None	26658	None	None	74990484	75008250	-1	C5orf37	FLJ35779, MGC120442, MGC120443, MGC120444, hPOC5
5	POC5	ENSG00000152359	ENST00000515285	nonsense_mediated_decay	KNOWN	None	26658	177	58	74990577	75013249	-1	C5orf37	FLJ35779, MGC120442, MGC120443, MGC120444, hPOC5
5	POC5	ENSG00000152359	ENST00000502826	protein_coding	KNOWN	None	26658	152	49	74998440	75013251	-1	C5orf37	FLJ35779, MGC120442, MGC120443, MGC120444, hPOC5
5	POC5	ENSG00000152359	ENST00000506164	protein_coding	KNOWN	None	26658	97	31	74998495	75013250	-1	C5orf37	FLJ35779, MGC120442, MGC120443, MGC120444, hPOC5
5	POC5	ENSG00000152359	ENST00000512125	retained_intron	KNOWN	None	26658	None	None	75001064	75013260	-1	C5orf37	FLJ35779, MGC120442, MGC120443, MGC120444, hPOC5
5	POC5	ENSG00000152359	ENST00000508467	retained_intron	KNOWN	None	26658	None	None	75001398	75013255	-1	C5orf37	FLJ35779, MGC120442, MGC120443, MGC120444, hPOC5
5	POC5	ENSG00000152359	ENST00000507421	retained_intron	KNOWN	None	26658	None	None	75003309	75013169	-1	C5orf37	FLJ35779, MGC120442, MGC120443, MGC120444, hPOC5
5	POC5	ENSG00000152359	ENST00000380475	protein_coding	KNOWN	None	26658	1200	399	74970033	75013313	-1	C5orf37	FLJ35779, MGC120442, MGC120443, MGC120444, hPOC5
2	E2F6	ENSG00000169016	ENST00000428221	nonsense_mediated_decay	KNOWN	None	3120	192	63	11584501	11606272	-1	None	E2F-6
2	E2F6	ENSG00000169016	ENST00000381525	protein_coding	KNOWN	CCDS1680	3120	846	281	11584501	11606275	-1	None	E2F-6
2	E2F6	ENSG00000169016	ENST00000444832	nonsense_mediated_decay	KNOWN	None	3120	153	50	11584501	11606282	-1	None	E2F-6
2	E2F6	ENSG00000169016	ENST00000455198	nonsense_mediated_decay	KNOWN	None	3120	153	50	11585426	11606005	-1	None	E2F-6
2	E2F6	ENSG00000169016	ENST00000471343	retained_intron	KNOWN	None	3120	None	None	11586323	11591822	-1	None	E2F-6
2	E2F6	ENSG00000169016	ENST00000437573	nonsense_mediated_decay	KNOWN	None	3120	168	55	11586603	11606279	-1	None	E2F-6
2	E2F6	ENSG00000169016	ENST00000421117	nonsense_mediated_decay	KNOWN	None	3120	117	38	11587882	11606297	-1	None	E2F-6
2	E2F6	ENSG00000169016	ENST00000468775	retained_intron	KNOWN	None	3120	None	None	11591476	11606229	-1	None	E2F-6
2	E2F6	ENSG00000169016	ENST00000498701	retained_intron	KNOWN	None	3120	None	None	11597137	11606284	-1	None	E2F-6
2	E2F6	ENSG00000169016	ENST00000307236	protein_coding	KNOWN	None	3120	750	249	11586603	11606005	-1	None	E2F-6
2	E2F6	ENSG00000169016	ENST00000542100	protein_coding	KNOWN	None	3120	621	206	11586603	11606005	-1	None	E2F-6
2	E2F6	ENSG00000169016	ENST00000546212	protein_coding	KNOWN	None	3120	621	206	11586603	11606005	-1	None	E2F-6
2	E2F6	ENSG00000169016	ENST00000362009	protein_coding	KNOWN	None	3120	402	133	11586370	11606275	-1	None	E2F-6
15	TPM1	ENSG00000140416	ENST00000288398	protein_coding	KNOWN	CCDS10181	12010	855	284	63334831	63358292	1	C15orf13, CMH3	None
15	TPM1	ENSG00000140416	ENST00000560975	retained_intron	KNOWN	None	12010	None	None	63334883	63363522	1	C15orf13, CMH3	None
15	TPM1	ENSG00000140416	ENST00000358278	protein_coding	KNOWN	CCDS32263	12010	855	284	63334884	63364088	1	C15orf13, CMH3	None
15	TPM1	ENSG00000140416	ENST00000560445	protein_coding	PUTATIVE	None	12010	213	70	63334946	63358375	1	C15orf13, CMH3	None
15	TPM1	ENSG00000140416	ENST00000403994	protein_coding	KNOWN	CCDS45273	12010	855	284	63334949	63358212	1	C15orf13, CMH3	None
15	TPM1	ENSG00000140416	ENST00000561425	nonsense_mediated_decay	KNOWN	None	12010	123	40	63334950	63349209	1	C15orf13, CMH3	None
15	TPM1	ENSG00000140416	ENST00000558314	retained_intron	KNOWN	None	12010	None	None	63334950	63353464	1	C15orf13, CMH3	None
15	TPM1	ENSG00000140416	ENST00000357980	protein_coding	NOVEL	None	12010	981	326	63334950	63364111	1	C15orf13, CMH3	None
15	TPM1	ENSG00000140416	ENST00000558347	nonsense_mediated_decay	KNOWN	None	12010	474	157	63334954	63364084	1	C15orf13, CMH3	None
15	TPM1	ENSG00000140416	ENST00000559556	protein_coding	KNOWN	CCDS58369	12010	855	284	63334957	63363421	1	C15orf13, CMH3	None
15	TPM1	ENSG00000140416	ENST00000559397	protein_coding	KNOWN	CCDS58368	12010	855	284	63334957	63364099	1	C15orf13, CMH3	None
15	TPM1	ENSG00000140416	ENST00000267996	protein_coding	KNOWN	CCDS32262	12010	855	284	63334957	63364114	1	C15orf13, CMH3	None
15	TPM1	ENSG00000140416	ENST00000560970	protein_coding	KNOWN	None	12010	797	264	63335087	63358292	1	C15orf13, CMH3	None
15	TPM1	ENSG00000140416	ENST00000561266	protein_coding	NOVEL	None	12010	671	222	63335975	63356345	1	C15orf13, CMH3	None
15	TPM1	ENSG00000140416	ENST00000559831	nonsense_mediated_decay	KNOWN	None	12010	429	142	63336340	63354797	1	C15orf13, CMH3	None
15	TPM1	ENSG00000140416	ENST00000334895	protein_coding	KNOWN	CCDS32264	12010	738	245	63340565	63362831	1	C15orf13, CMH3	None
15	TPM1	ENSG00000140416	ENST00000404484	protein_coding	NOVEL	None	12010	747	248	63340666	63364083	1	C15orf13, CMH3	None
15	TPM1	ENSG00000140416	ENST00000558544	nonsense_mediated_decay	KNOWN	None	12010	150	49	63340699	63364081	1	C15orf13, CMH3	None
15	TPM1	ENSG00000140416	ENST00000558868	retained_intron	KNOWN	None	12010	None	None	63340736	63353297	1	C15orf13, CMH3	None
15	TPM1	ENSG00000140416	ENST00000560959	protein_coding	PUTATIVE	None	12010	828	275	63340761	63355091	1	C15orf13, CMH3	None
15	TPM1	ENSG00000140416	ENST00000559281	protein_coding	NOVEL	None	12010	747	248	63340775	63358202	1	C15orf13, CMH3	None
15	TPM1	ENSG00000140416	ENST00000317516	protein_coding	NOVEL	None	12010	738	245	63340775	63362142	1	C15orf13, CMH3	None
15	TPM1	ENSG00000140416	ENST00000560615	protein_coding	PUTATIVE	None	12010	324	107	63341012	63354476	1	C15orf13, CMH3	None
15	TPM1	ENSG00000140416	ENST00000560679	protein_coding	PUTATIVE	None	12010	24	7	63346648	63351789	1	C15orf13, CMH3	None
15	TPM1	ENSG00000140416	ENST00000558264	nonsense_mediated_decay	KNOWN	None	12010	279	92	63347928	63364111	1	C15orf13, CMH3	None
15	TPM1	ENSG00000140416	ENST00000558400	retained_intron	KNOWN	None	12010	None	None	63349060	63352161	1	C15orf13, CMH3	None
15	TPM1	ENSG00000140416	ENST00000561395	nonsense_mediated_decay	KNOWN	None	12010	207	68	63349205	63358290	1	C15orf13, CMH3	None
15	TPM1	ENSG00000140416	ENST00000561242	retained_intron	KNOWN	None	12010	None	None	63353433	63354531	1	C15orf13, CMH3	None
15	TPM1	ENSG00000140416	ENST00000558072	retained_intron	KNOWN	None	12010	None	None	63354256	63363522	1	C15orf13, CMH3	None
15	TPM1	ENSG00000140416	ENST00000559108	retained_intron	KNOWN	None	12010	None	None	63354307	63358291	1	C15orf13, CMH3	None
15	TPM1	ENSG00000140416	ENST00000558910	protein_coding	PUTATIVE	None	12010	100	32	63354828	63357027	1	C15orf13, CMH3	None
15	TPM1	ENSG00000140416	ENST00000560131	retained_intron	KNOWN	None	12010	None	None	63356003	63358292	1	C15orf13, CMH3	None
14	GEMIN2	ENSG00000092208	ENST00000308317	protein_coding	KNOWN	CCDS9669	10884	843	280	39583427	39606177	1	SIP1	None
14	GEMIN2	ENSG00000092208	ENST00000525153	nonsense_mediated_decay	KNOWN	None	10884	450	149	39583489	39606177	1	SIP1	None
14	GEMIN2	ENSG00000092208	ENST00000396249	protein_coding	KNOWN	CCDS41946	10884	753	250	39583510	39605700	1	SIP1	None
14	GEMIN2	ENSG00000092208	ENST00000412033	nonsense_mediated_decay	KNOWN	None	10884	135	44	39583510	39605745	1	SIP1	None
14	GEMIN2	ENSG00000092208	ENST00000250379	protein_coding	KNOWN	CCDS32068	10884	798	265	39583510	39605979	1	SIP1	None
14	GEMIN2	ENSG00000092208	ENST00000531684	nonsense_mediated_decay	KNOWN	None	10884	136	44	39583524	39601227	1	SIP1	None
14	GEMIN2	ENSG00000092208	ENST00000534684	protein_coding	NOVEL	None	10884	658	218	39583527	39601272	1	SIP1	None
14	GEMIN2	ENSG00000092208	ENST00000525430	retained_intron	KNOWN	None	10884	None	None	39583528	39591905	1	SIP1	None
14	GEMIN2	ENSG00000092208	ENST00000527381	protein_coding	NOVEL	None	10884	592	196	39583535	39597545	1	SIP1	None
14	GEMIN2	ENSG00000092208	ENST00000524980	retained_intron	KNOWN	None	10884	None	None	39600977	39605950	1	SIP1	None
14	GEMIN2	ENSG00000092208	ENST00000529365	retained_intron	KNOWN	None	10884	None	None	39600991	39603165	1	SIP1	None
14	GEMIN2	ENSG00000092208	ENST00000524781	protein_coding	PUTATIVE	None	10884	69	22	39602865	39603574	1	SIP1	None
12	METAP2	ENSG00000111142	ENST00000535095	nonsense_mediated_decay	KNOWN	None	16672	987	328	95867296	95908118	1	None	MNPEP, p67, MAP2
12	METAP2	ENSG00000111142	ENST00000323666	protein_coding	KNOWN	CCDS9052	16672	1437	478	95867727	95909615	1	None	MNPEP, p67, MAP2
12	METAP2	ENSG00000111142	ENST00000546753	protein_coding	NOVEL	None	16672	1368	455	95867857	95908075	1	None	MNPEP, p67, MAP2
12	METAP2	ENSG00000111142	ENST00000261220	protein_coding	NOVEL	None	16672	1368	455	95867926	95908118	1	None	MNPEP, p67, MAP2
12	METAP2	ENSG00000111142	ENST00000549502	protein_coding	NOVEL	None	16672	485	160	95867928	95879730	1	None	MNPEP, p67, MAP2
12	METAP2	ENSG00000111142	ENST00000553151	protein_coding	NOVEL	None	16672	536	177	95867928	95888750	1	None	MNPEP, p67, MAP2
12	METAP2	ENSG00000111142	ENST00000550777	protein_coding	NOVEL	None	16672	1329	442	95867931	95908105	1	None	MNPEP, p67, MAP2
12	METAP2	ENSG00000111142	ENST00000551840	protein_coding	NOVEL	None	16672	1434	477	95867938	95908102	1	None	MNPEP, p67, MAP2
12	METAP2	ENSG00000111142	ENST00000549136	retained_intron	KNOWN	None	16672	None	None	95869847	95877270	1	None	MNPEP, p67, MAP2
12	METAP2	ENSG00000111142	ENST00000549808	protein_coding	PUTATIVE	None	16672	489	162	95878570	95888925	1	None	MNPEP, p67, MAP2
12	METAP2	ENSG00000111142	ENST00000546478	retained_intron	KNOWN	None	16672	None	None	95879585	95887890	1	None	MNPEP, p67, MAP2
16	CDT1	ENSG00000167513	ENST00000301019	protein_coding	KNOWN	CCDS32510	24576	1641	546	88869621	88875666	1	None	DUP, RIS2
16	CDT1	ENSG00000167513	ENST00000562747	retained_intron	KNOWN	None	24576	None	None	88871019	88872625	1	None	DUP, RIS2
16	CDT1	ENSG00000167513	ENST00000569140	protein_coding	NOVEL	None	24576	571	189	88872176	88873750	1	None	DUP, RIS2
2	ANXA4	ENSG00000196975	ENST00000418066	processed_transcript	KNOWN	None	542	None	None	69871557	70008692	1	ANX4	None
2	ANXA4	ENSG00000196975	ENST00000477632	retained_intron	KNOWN	None	542	None	None	69947923	70052906	1	ANX4	None
2	ANXA4	ENSG00000196975	ENST00000409920	protein_coding	NOVEL	None	542	900	299	69969106	70052913	1	ANX4	None
2	ANXA4	ENSG00000196975	ENST00000394295	protein_coding	KNOWN	CCDS1894	542	966	321	69969106	70053596	1	ANX4	None
2	ANXA4	ENSG00000196975	ENST00000460439	processed_transcript	KNOWN	None	542	None	None	69969234	70035128	1	ANX4	None
2	ANXA4	ENSG00000196975	ENST00000460942	processed_transcript	KNOWN	None	542	None	None	69969237	70037752	1	ANX4	None
2	ANXA4	ENSG00000196975	ENST00000487351	processed_transcript	KNOWN	None	542	None	None	69969265	70037857	1	ANX4	None
2	ANXA4	ENSG00000196975	ENST00000484219	processed_transcript	KNOWN	None	542	None	None	70008294	70031721	1	ANX4	None
2	ANXA4	ENSG00000196975	ENST00000468815	processed_transcript	PUTATIVE	None	542	None	None	70035110	70038034	1	ANX4	None
2	ANXA4	ENSG00000196975	ENST00000472124	processed_transcript	PUTATIVE	None	542	None	None	70035114	70038556	1	ANX4	None
2	ANXA4	ENSG00000196975	ENST00000471395	retained_intron	KNOWN	None	542	None	None	70041919	70052915	1	ANX4	None
2	ANXA4	ENSG00000196975	ENST00000536030	protein_coding	KNOWN	None	542	714	237	69969236	70053231	1	ANX4	None
3	LARS2	ENSG00000011376	ENST00000265537	protein_coding	KNOWN	CCDS2728	17095	2712	903	45429998	45590329	1	None	KIAA0028, LEURS, MGC26121
3	LARS2	ENSG00000011376	ENST00000415258	protein_coding	KNOWN	CCDS2728	17095	2712	903	45430053	45590913	1	None	KIAA0028, LEURS, MGC26121
3	LARS2	ENSG00000011376	ENST00000431023	protein_coding	NOVEL	None	17095	432	143	45430056	45488427	1	None	KIAA0028, LEURS, MGC26121
3	LARS2	ENSG00000011376	ENST00000414984	protein_coding	NOVEL	None	17095	2583	860	45430056	45589101	1	None	KIAA0028, LEURS, MGC26121
3	LARS2	ENSG00000011376	ENST00000430399	protein_coding	KNOWN	None	17095	343	113	45430111	45441845	1	None	KIAA0028, LEURS, MGC26121
3	LARS2	ENSG00000011376	ENST00000467936	processed_transcript	KNOWN	None	17095	None	None	45542033	45579955	1	None	KIAA0028, LEURS, MGC26121
3	LARS2	ENSG00000011376	ENST00000485461	processed_transcript	KNOWN	None	17095	None	None	45559455	45588896	1	None	KIAA0028, LEURS, MGC26121
3	LARS2	ENSG00000011376	ENST00000474585	processed_transcript	PUTATIVE	None	17095	None	None	45583086	45589046	1	None	KIAA0028, LEURS, MGC26121
3	DALRD3	ENSG00000178149	ENST00000481001	retained_intron	KNOWN	None	25536	None	None	49052921	49053716	-1	None	FLJ10496
3	DALRD3	ENSG00000178149	ENST00000438585	protein_coding	PUTATIVE	None	25536	556	184	49052921	49053946	-1	None	FLJ10496
3	DALRD3	ENSG00000178149	ENST00000441576	protein_coding	KNOWN	None	25536	1551	516	49052921	49055997	-1	None	FLJ10496
3	DALRD3	ENSG00000178149	ENST00000460505	retained_intron	KNOWN	None	25536	None	None	49052921	49055999	-1	None	FLJ10496
3	DALRD3	ENSG00000178149	ENST00000341949	protein_coding	KNOWN	CCDS33754	25536	1632	543	49052921	49056004	-1	None	FLJ10496
3	DALRD3	ENSG00000178149	ENST00000498498	retained_intron	KNOWN	None	25536	None	None	49052924	49054789	-1	None	FLJ10496
3	DALRD3	ENSG00000178149	ENST00000498794	retained_intron	KNOWN	None	25536	None	None	49052924	49056009	-1	None	FLJ10496
3	DALRD3	ENSG00000178149	ENST00000440857	protein_coding	NOVEL	None	25536	1161	386	49052926	49058491	-1	None	FLJ10496
3	DALRD3	ENSG00000178149	ENST00000313778	protein_coding	KNOWN	CCDS2783	25536	1131	376	49052926	49058684	-1	None	FLJ10496
3	DALRD3	ENSG00000178149	ENST00000472331	retained_intron	KNOWN	None	25536	None	None	49052957	49054283	-1	None	FLJ10496
3	DALRD3	ENSG00000178149	ENST00000467457	retained_intron	KNOWN	None	25536	None	None	49052958	49055454	-1	None	FLJ10496
3	DALRD3	ENSG00000178149	ENST00000484831	retained_intron	KNOWN	None	25536	None	None	49053010	49056004	-1	None	FLJ10496
3	DALRD3	ENSG00000178149	ENST00000420952	protein_coding	NOVEL	None	25536	881	292	49054222	49055997	-1	None	FLJ10496
3	DALRD3	ENSG00000178149	ENST00000496568	processed_transcript	KNOWN	None	25536	None	None	49055046	49059726	-1	None	FLJ10496
3	DALRD3	ENSG00000178149	ENST00000492585	processed_transcript	KNOWN	None	25536	None	None	49055629	49059724	-1	None	FLJ10496
3	DALRD3	ENSG00000178149	ENST00000395462	protein_coding	KNOWN	CCDS2783	25536	1131	376	49052924	49056010	-1	None	FLJ10496
6	RTN4IP1	ENSG00000130347	ENST00000369063	protein_coding	KNOWN	CCDS5056	18647	1191	396	107019846	107077362	-1	None	NIMP
6	RTN4IP1	ENSG00000130347	ENST00000498091	processed_transcript	KNOWN	None	18647	None	None	107019850	107031506	-1	None	NIMP
6	RTN4IP1	ENSG00000130347	ENST00000493619	processed_transcript	KNOWN	None	18647	None	None	107019852	107020286	-1	None	NIMP
6	RTN4IP1	ENSG00000130347	ENST00000539449	protein_coding	KNOWN	None	18647	681	226	107018903	107077373	-1	None	NIMP
9	TRBV20OR9-2	ENSG00000205274	ENST00000379435	TR_V_gene	KNOWN	None	12197	390	129	33617760	33618504	1	TCRBV2O	TRBV20/OR9-2, TCRBV20S2, TCRBV2S2O
9	TRBV21OR9-2	ENSG00000183938	ENST00000331828	TR_V_gene	KNOWN	None	12199	367	121	33629119	33629584	1	TCRBV10O	TRBV21/OR9-2, TCRBV10S2O, TCRBV21S2
8	ESCO2	ENSG00000171320	ENST00000523566	protein_coding	PUTATIVE	None	27230	562	186	27629466	27634387	1	RBS	EFO2
8	ESCO2	ENSG00000171320	ENST00000305188	protein_coding	KNOWN	CCDS34872	27230	1806	601	27631903	27662833	1	RBS	EFO2
8	ESCO2	ENSG00000171320	ENST00000522378	nonsense_mediated_decay	KNOWN	None	27230	873	290	27632071	27670157	1	RBS	EFO2
8	ESCO2	ENSG00000171320	ENST00000519637	protein_coding	PUTATIVE	None	27230	399	132	27632186	27634224	1	RBS	EFO2
8	ESCO2	ENSG00000171320	ENST00000524293	retained_intron	KNOWN	None	27230	None	None	27633014	27637612	1	RBS	EFO2
8	ESCO2	ENSG00000171320	ENST00000523910	processed_transcript	PUTATIVE	None	27230	None	None	27634027	27637721	1	RBS	EFO2
8	ESCO2	ENSG00000171320	ENST00000518262	protein_coding	PUTATIVE	None	27230	528	175	27637716	27657118	1	RBS	EFO2
8	ESCO2	ENSG00000171320	ENST00000397418	protein_coding	KNOWN	None	27230	720	239	27632071	27670141	1	RBS	EFO2
1	TRAF3IP3	ENSG00000009790	ENST00000400959	protein_coding	PUTATIVE	None	30766	1215	404	209929377	209953000	1	None	T3JAM
1	TRAF3IP3	ENSG00000009790	ENST00000367025	protein_coding	KNOWN	CCDS1490	30766	1656	551	209929394	209955660	1	None	T3JAM
1	TRAF3IP3	ENSG00000009790	ENST00000478359	nonsense_mediated_decay	KNOWN	None	30766	1062	353	209929411	209953000	1	None	T3JAM
1	TRAF3IP3	ENSG00000009790	ENST00000479796	protein_coding	KNOWN	None	30766	78	25	209929481	209933462	1	None	T3JAM
1	TRAF3IP3	ENSG00000009790	ENST00000468672	processed_transcript	KNOWN	None	30766	None	None	209929481	209935941	1	None	T3JAM
1	TRAF3IP3	ENSG00000009790	ENST00000367026	protein_coding	KNOWN	None	30766	1596	531	209929524	209955665	1	None	T3JAM
1	TRAF3IP3	ENSG00000009790	ENST00000367024	protein_coding	KNOWN	CCDS1490	30766	1656	551	209931843	209955652	1	None	T3JAM
1	TRAF3IP3	ENSG00000009790	ENST00000367023	protein_coding	PUTATIVE	None	30766	549	182	209941833	209953001	1	None	T3JAM
1	TRAF3IP3	ENSG00000009790	ENST00000476050	retained_intron	KNOWN	None	30766	None	None	209941940	209952998	1	None	T3JAM
1	TRAF3IP3	ENSG00000009790	ENST00000487271	protein_coding	PUTATIVE	None	30766	294	97	209941950	209950729	1	None	T3JAM
1	TRAF3IP3	ENSG00000009790	ENST00000474496	retained_intron	KNOWN	None	30766	None	None	209941950	209950766	1	None	T3JAM
1	TRAF3IP3	ENSG00000009790	ENST00000477431	protein_coding	PUTATIVE	None	30766	471	156	209941960	209955658	1	None	T3JAM
1	TRAF3IP3	ENSG00000009790	ENST00000480569	processed_transcript	KNOWN	None	30766	None	None	209946293	209955668	1	None	T3JAM
1	TRAF3IP3	ENSG00000009790	ENST00000488702	processed_transcript	KNOWN	None	30766	None	None	209949153	209952709	1	None	T3JAM
1	TRAF3IP3	ENSG00000009790	ENST00000471368	nonsense_mediated_decay	KNOWN	None	30766	210	69	209950784	209955665	1	None	T3JAM
1	TRAF3IP3	ENSG00000009790	ENST00000460314	retained_intron	KNOWN	None	30766	None	None	209951712	209955652	1	None	T3JAM
1	TRAF3IP3	ENSG00000009790	ENST00000467830	processed_transcript	KNOWN	None	30766	None	None	209954184	209955528	1	None	T3JAM
1	TRAF3IP3	ENSG00000009790	ENST00000010338	protein_coding	KNOWN	None	30766	1596	531	209933385	209955664	1	None	T3JAM
9	TRBV23OR9-2	ENSG00000229063	ENST00000390389	TR_V_gene	KNOWN	None	12202	335	110	33638033	33638492	1	None	TRBV23/OR9-2, TRBV23OR92, TCRBV19S2O, TCRBV23S2
5	None	ENSG00000249357	ENST00000505613	processed_pseudogene	KNOWN	None	None	None	None	17604890	17605486	1	None	None
5	None	ENSG00000249357	ENST00000600847	processed_pseudogene	KNOWN	None	None	None	None	17604866	17605486	1	None	None
5	None	ENSG00000249156	ENST00000503184	processed_pseudogene	KNOWN	None	None	None	None	17611099	17611692	1	None	None
1	ATP6V0B	ENSG00000117410	ENST00000472505	protein_coding	KNOWN	None	861	258	85	44440159	44442495	1	ATP6F	VMA16, HATPL
1	ATP6V0B	ENSG00000117410	ENST00000472174	protein_coding	KNOWN	CCDS505	861	618	205	44440320	44443966	1	ATP6F	VMA16, HATPL
1	ATP6V0B	ENSG00000117410	ENST00000532642	protein_coding	PUTATIVE	None	861	786	261	44440616	44443885	1	ATP6F	VMA16, HATPL
1	ATP6V0B	ENSG00000117410	ENST00000236067	protein_coding	KNOWN	CCDS41315	861	477	158	44440620	44443961	1	ATP6F	VMA16, HATPL
1	ATP6V0B	ENSG00000117410	ENST00000471859	protein_coding	NOVEL	None	861	759	252	44440623	44443695	1	ATP6F	VMA16, HATPL
1	ATP6V0B	ENSG00000117410	ENST00000472277	processed_transcript	KNOWN	None	861	None	None	44440630	44442869	1	ATP6F	VMA16, HATPL
1	ATP6V0B	ENSG00000117410	ENST00000461670	nonsense_mediated_decay	KNOWN	None	861	141	46	44440632	44442297	1	ATP6F	VMA16, HATPL
1	ATP6V0B	ENSG00000117410	ENST00000468183	retained_intron	KNOWN	None	861	None	None	44440643	44443967	1	ATP6F	VMA16, HATPL
1	ATP6V0B	ENSG00000117410	ENST00000473485	retained_intron	KNOWN	None	861	None	None	44440644	44443964	1	ATP6F	VMA16, HATPL
1	ATP6V0B	ENSG00000117410	ENST00000496131	retained_intron	KNOWN	None	861	None	None	44440651	44442786	1	ATP6F	VMA16, HATPL
1	ATP6V0B	ENSG00000117410	ENST00000498208	nonsense_mediated_decay	KNOWN	None	861	265	87	44440772	44442051	1	ATP6F	VMA16, HATPL
1	ATP6V0B	ENSG00000117410	ENST00000532072	retained_intron	KNOWN	None	861	None	None	44441509	44442213	1	ATP6F	VMA16, HATPL
1	ATP6V0B	ENSG00000117410	ENST00000498664	protein_coding	KNOWN	CCDS41315	861	477	158	44441727	44443967	1	ATP6F	VMA16, HATPL
5	None	ENSG00000271296	ENST00000603531	processed_pseudogene	KNOWN	None	None	None	None	17614890	17615220	-1	None	None
9	LCN8	ENSG00000204001	ENST00000480597	processed_transcript	KNOWN	None	27038	None	None	139648838	139651507	-1	LCN5	None
9	LCN8	ENSG00000204001	ENST00000479767	processed_transcript	KNOWN	None	27038	None	None	139648838	139651909	-1	LCN5	None
9	LCN8	ENSG00000204001	ENST00000482893	processed_transcript	KNOWN	None	27038	None	None	139648838	139651990	-1	LCN5	None
9	LCN8	ENSG00000204001	ENST00000371688	protein_coding	KNOWN	CCDS35183	27038	459	152	139648838	139652678	-1	LCN5	None
5	None	ENSG00000250351	ENST00000511694	processed_pseudogene	KNOWN	None	None	None	None	17620642	17621048	-1	None	None
5	None	ENSG00000250386	ENST00000510454	processed_pseudogene	KNOWN	None	None	None	None	17625660	17626068	-1	None	None
5	None	ENSG00000249666	ENST00000515381	processed_pseudogene	KNOWN	None	None	None	None	17632197	17632792	1	None	None
6	None	ENSG00000270346	ENST00000603222	lincRNA	KNOWN	None	None	None	None	3020388	3022984	1	None	None
6	HTATSF1P2	ENSG00000271361	ENST00000604204	processed_pseudogene	KNOWN	None	38586	None	None	3023376	3024006	-1	None	None
16	CHD9	ENSG00000177200	ENST00000566029	protein_coding	KNOWN	CCDS45485	25701	8646	2881	53088945	53363062	1	None	FLJ12178, KIAA0308, BC022889
16	CHD9	ENSG00000177200	ENST00000561869	processed_transcript	KNOWN	None	25701	None	None	53088951	53155892	1	None	FLJ12178, KIAA0308, BC022889
16	CHD9	ENSG00000177200	ENST00000565832	protein_coding	KNOWN	None	25701	1896	631	53133072	53256667	1	None	FLJ12178, KIAA0308, BC022889
16	CHD9	ENSG00000177200	ENST00000564582	processed_transcript	KNOWN	None	25701	None	None	53133092	53156086	1	None	FLJ12178, KIAA0308, BC022889
16	CHD9	ENSG00000177200	ENST00000564845	protein_coding	KNOWN	CCDS45485	25701	8646	2881	53164833	53361363	1	None	FLJ12178, KIAA0308, BC022889
16	CHD9	ENSG00000177200	ENST00000563410	protein_coding	KNOWN	None	25701	159	52	53165046	53190160	1	None	FLJ12178, KIAA0308, BC022889
16	CHD9	ENSG00000177200	ENST00000398510	protein_coding	KNOWN	None	25701	8694	2897	53189915	53361363	1	None	FLJ12178, KIAA0308, BC022889
16	CHD9	ENSG00000177200	ENST00000562785	protein_coding	PUTATIVE	None	25701	275	90	53189918	53191374	1	None	FLJ12178, KIAA0308, BC022889
16	CHD9	ENSG00000177200	ENST00000564255	retained_intron	KNOWN	None	25701	None	None	53191076	53284087	1	None	FLJ12178, KIAA0308, BC022889
16	CHD9	ENSG00000177200	ENST00000565803	protein_coding	PUTATIVE	None	25701	3296	1097	53241901	53302039	1	None	FLJ12178, KIAA0308, BC022889
16	CHD9	ENSG00000177200	ENST00000569794	processed_transcript	KNOWN	None	25701	None	None	53241944	53243725	1	None	FLJ12178, KIAA0308, BC022889
16	CHD9	ENSG00000177200	ENST00000565442	protein_coding	PUTATIVE	None	25701	375	124	53242363	53256667	1	None	FLJ12178, KIAA0308, BC022889
16	CHD9	ENSG00000177200	ENST00000562791	processed_transcript	KNOWN	None	25701	None	None	53243692	53260315	1	None	FLJ12178, KIAA0308, BC022889
16	CHD9	ENSG00000177200	ENST00000569225	retained_intron	KNOWN	None	25701	None	None	53269049	53282075	1	None	FLJ12178, KIAA0308, BC022889
16	CHD9	ENSG00000177200	ENST00000219084	retained_intron	KNOWN	None	25701	None	None	53269049	53361363	1	None	FLJ12178, KIAA0308, BC022889
16	CHD9	ENSG00000177200	ENST00000565119	processed_transcript	KNOWN	None	25701	None	None	53279645	53284561	1	None	FLJ12178, KIAA0308, BC022889
16	CHD9	ENSG00000177200	ENST00000562806	retained_intron	KNOWN	None	25701	None	None	53283813	53288583	1	None	FLJ12178, KIAA0308, BC022889
16	CHD9	ENSG00000177200	ENST00000564600	nonsense_mediated_decay	KNOWN	None	25701	368	121	53348418	53355475	1	None	FLJ12178, KIAA0308, BC022889
16	CHD9	ENSG00000177200	ENST00000564641	nonsense_mediated_decay	KNOWN	None	25701	340	112	53348779	53358053	1	None	FLJ12178, KIAA0308, BC022889
16	CHD9	ENSG00000177200	ENST00000447540	protein_coding	KNOWN	None	25701	8649	2882	53088945	53361413	1	None	FLJ12178, KIAA0308, BC022889
6	None	ENSG00000261015	ENST00000563388	sense_overlapping	KNOWN	None	None	None	None	3025025	3027659	1	None	None
6	FAM136BP	ENSG00000232654	ENST00000428729	processed_pseudogene	KNOWN	None	21110	None	None	3045618	3046034	1	C6orf87, FAM136B	dJ40E16.3
7	None	ENSG00000240355	ENST00000436501	lincRNA	KNOWN	None	None	None	None	46516055	46517538	-1	None	None
7	None	ENSG00000230680	ENST00000440935	lincRNA	KNOWN	None	None	None	None	46517420	46521176	-1	None	None
6	SERPINB8P1	ENSG00000217707	ENST00000401898	unprocessed_pseudogene	KNOWN	None	8953	None	None	3049069	3049445	1	PI8L1, SERPINB11, SERPINBP1	None
6	None	ENSG00000229282	ENST00000433761	lincRNA	KNOWN	None	None	None	None	3056124	3056995	1	None	None
6	None	ENSG00000272277	ENST00000606441	antisense	KNOWN	None	None	None	None	3068279	3069128	-1	None	None
6	RNA5SP201	ENSG00000222248	ENST00000410316	rRNA	KNOWN	None	43101	None	None	3088920	3089043	-1	RN5S201	None
X	UXT	ENSG00000126756	ENST00000333119	protein_coding	KNOWN	CCDS14285	12641	474	157	47511197	47518560	-1	None	ART-27, STAP1
X	UXT	ENSG00000126756	ENST00000460840	processed_transcript	KNOWN	None	12641	None	None	47511200	47516898	-1	None	ART-27, STAP1
X	UXT	ENSG00000126756	ENST00000485641	nonsense_mediated_decay	KNOWN	None	12641	300	99	47511200	47518506	-1	None	ART-27, STAP1
X	UXT	ENSG00000126756	ENST00000335890	protein_coding	KNOWN	CCDS14284	12641	510	169	47511204	47518516	-1	None	ART-27, STAP1
X	UXT	ENSG00000126756	ENST00000376964	retained_intron	KNOWN	None	12641	None	None	47516514	47518551	-1	None	ART-27, STAP1
8	SMIM19	ENSG00000176209	ENST00000438528	protein_coding	KNOWN	CCDS6133	25166	324	107	42396298	42409603	1	C8orf40	None
8	SMIM19	ENSG00000176209	ENST00000518574	protein_coding	PUTATIVE	None	25166	109	35	42396741	42403923	1	C8orf40	None
8	SMIM19	ENSG00000176209	ENST00000417410	protein_coding	KNOWN	CCDS6133	25166	324	107	42396751	42408123	1	C8orf40	None
8	SMIM19	ENSG00000176209	ENST00000414154	protein_coding	KNOWN	CCDS6133	25166	324	107	42396756	42408123	1	C8orf40	None
8	SMIM19	ENSG00000176209	ENST00000498447	nonsense_mediated_decay	KNOWN	None	25166	261	86	42396801	42407972	1	C8orf40	None
8	SMIM19	ENSG00000176209	ENST00000529505	processed_transcript	KNOWN	None	25166	None	None	42396805	42403587	1	C8orf40	None
8	SMIM19	ENSG00000176209	ENST00000416469	protein_coding	KNOWN	CCDS6133	25166	324	107	42396936	42407751	1	C8orf40	None
8	SMIM19	ENSG00000176209	ENST00000490331	protein_coding	KNOWN	CCDS6133	25166	324	107	42401571	42407869	1	C8orf40	None
9	PRSS3	ENSG00000010438	ENST00000361005	protein_coding	KNOWN	CCDS47958	9486	915	304	33750515	33799229	1	PRSS4	TRY3, TRY4
9	PRSS3	ENSG00000010438	ENST00000468152	processed_transcript	KNOWN	None	9486	None	None	33750677	33797922	1	PRSS4	TRY3, TRY4
9	PRSS3	ENSG00000010438	ENST00000457896	protein_coding	KNOWN	None	9486	533	176	33750688	33798526	1	PRSS4	TRY3, TRY4
9	PRSS3	ENSG00000010438	ENST00000379405	protein_coding	KNOWN	CCDS6545	9486	744	247	33795533	33799229	1	PRSS4	TRY3, TRY4
9	PRSS3	ENSG00000010438	ENST00000477653	processed_transcript	KNOWN	None	9486	None	None	33795568	33797975	1	PRSS4	TRY3, TRY4
9	PRSS3	ENSG00000010438	ENST00000495682	processed_transcript	KNOWN	None	9486	None	None	33798516	33799227	1	PRSS4	TRY3, TRY4
9	PRSS3	ENSG00000010438	ENST00000429677	protein_coding	KNOWN	CCDS56570	9486	723	240	33750819	33799228	1	PRSS4	TRY3, TRY4
9	PRSS3	ENSG00000010438	ENST00000342836	protein_coding	KNOWN	CCDS56571	9486	786	261	33750688	33799230	1	PRSS4	TRY3, TRY4
5	PRRC1	ENSG00000164244	ENST00000296666	protein_coding	KNOWN	CCDS4143	28164	1338	445	126853301	126890781	1	None	FLJ32875
5	PRRC1	ENSG00000164244	ENST00000512871	retained_intron	KNOWN	None	28164	None	None	126853332	126859717	1	None	FLJ32875
5	PRRC1	ENSG00000164244	ENST00000442138	protein_coding	KNOWN	None	28164	1257	418	126853343	126887843	1	None	FLJ32875
5	PRRC1	ENSG00000164244	ENST00000512635	protein_coding	KNOWN	None	28164	1389	462	126853348	126890773	1	None	FLJ32875
5	PRRC1	ENSG00000164244	ENST00000507774	retained_intron	KNOWN	None	28164	None	None	126853638	126859800	1	None	FLJ32875
5	PRRC1	ENSG00000164244	ENST00000513427	processed_transcript	KNOWN	None	28164	None	None	126883527	126888148	1	None	FLJ32875
1	CTSS	ENSG00000163131	ENST00000368985	protein_coding	KNOWN	CCDS968	2545	996	331	150702672	150738433	-1	None	None
1	CTSS	ENSG00000163131	ENST00000472977	nonsense_mediated_decay	KNOWN	None	2545	289	95	150703358	150722567	-1	None	None
1	CTSS	ENSG00000163131	ENST00000607427	nonsense_mediated_decay	KNOWN	None	2545	17	4	150703362	150705538	-1	None	None
1	CTSS	ENSG00000163131	ENST00000448301	protein_coding	KNOWN	CCDS55634	2545	846	281	150705043	150738268	-1	None	None
1	CTSS	ENSG00000163131	ENST00000483930	nonsense_mediated_decay	KNOWN	None	2545	354	117	150705314	150724310	-1	None	None
1	CTSS	ENSG00000163131	ENST00000480760	processed_transcript	KNOWN	None	2545	None	None	150720272	150737178	-1	None	None
7	POM121C	ENSG00000135213	ENST00000476072	retained_intron	KNOWN	None	34005	None	None	75046066	75050568	-1	None	None
7	POM121C	ENSG00000135213	ENST00000257665	protein_coding	KNOWN	None	34005	3690	1229	75046069	75071993	-1	None	None
7	POM121C	ENSG00000135213	ENST00000453279	protein_coding	KNOWN	CCDS47617	34005	2964	987	75046069	75115548	-1	None	None
7	POM121C	ENSG00000135213	ENST00000473609	retained_intron	KNOWN	None	34005	None	None	75052385	75054092	-1	None	None
7	POM121C	ENSG00000135213	ENST00000473168	processed_transcript	KNOWN	None	34005	None	None	75052453	75066831	-1	None	None
7	POM121C	ENSG00000135213	ENST00000439629	protein_coding	PUTATIVE	None	34005	322	106	75054419	75069979	-1	None	None
7	POM121C	ENSG00000135213	ENST00000479864	retained_intron	KNOWN	None	34005	None	None	75054815	75066946	-1	None	None
7	POM121C	ENSG00000135213	ENST00000398379	protein_coding	KNOWN	None	34005	127	41	75070332	75113605	-1	None	None
19	MYADM	ENSG00000179820	ENST00000421337	protein_coding	KNOWN	None	7544	727	241	54369477	54377510	1	None	None
19	MYADM	ENSG00000179820	ENST00000448420	protein_coding	KNOWN	None	7544	565	187	54371137	54377348	1	None	None
19	MYADM	ENSG00000179820	ENST00000439000	protein_coding	KNOWN	None	7544	778	258	54371137	54377561	1	None	None
19	MYADM	ENSG00000179820	ENST00000391770	protein_coding	KNOWN	CCDS12866	7544	969	322	54371137	54379691	1	None	None
19	MYADM	ENSG00000179820	ENST00000391769	protein_coding	KNOWN	CCDS12866	7544	969	322	54372660	54379689	1	None	None
19	MYADM	ENSG00000179820	ENST00000391768	protein_coding	KNOWN	CCDS12866	7544	969	322	54372693	54377873	1	None	None
19	MYADM	ENSG00000179820	ENST00000414489	protein_coding	KNOWN	None	7544	440	145	54373019	54377223	1	None	None
19	MYADM	ENSG00000179820	ENST00000336967	protein_coding	KNOWN	CCDS12866	7544	969	322	54369611	54379682	1	None	None
19	MYADM	ENSG00000179820	ENST00000391771	protein_coding	KNOWN	CCDS12866	7544	969	322	54371137	54379682	1	None	None
1	C1orf74	ENSG00000162757	ENST00000294811	protein_coding	KNOWN	CCDS1491	26319	810	269	209955661	209957904	-1	None	FLJ25078
X	AWAT2	ENSG00000147160	ENST00000276101	protein_coding	KNOWN	CCDS35320	23251	1002	333	69260392	69269788	-1	DGAT2L4	MFAT
X	AWAT2	ENSG00000147160	ENST00000440401	nonsense_mediated_decay	KNOWN	None	23251	501	166	69261330	69263433	-1	DGAT2L4	MFAT
X	AWAT2	ENSG00000147160	ENST00000443056	retained_intron	KNOWN	None	23251	None	None	69262762	69263844	-1	DGAT2L4	MFAT
1	B4GALT2	ENSG00000117411	ENST00000498543	processed_transcript	KNOWN	None	925	None	None	44444615	44446999	1	None	beta4Gal-T2
1	B4GALT2	ENSG00000117411	ENST00000497866	processed_transcript	KNOWN	None	925	None	None	44444909	44447595	1	None	beta4Gal-T2
1	B4GALT2	ENSG00000117411	ENST00000434555	protein_coding	KNOWN	None	925	921	306	44445108	44456840	1	None	beta4Gal-T2
1	B4GALT2	ENSG00000117411	ENST00000356836	protein_coding	KNOWN	CCDS506	925	1119	372	44445549	44456840	1	None	beta4Gal-T2
1	B4GALT2	ENSG00000117411	ENST00000485678	processed_transcript	KNOWN	None	925	None	None	44445690	44451071	1	None	beta4Gal-T2
1	B4GALT2	ENSG00000117411	ENST00000481924	processed_transcript	KNOWN	None	925	None	None	44450537	44451878	1	None	beta4Gal-T2
1	B4GALT2	ENSG00000117411	ENST00000309519	protein_coding	KNOWN	CCDS55596	925	1206	401	44445659	44456151	1	None	beta4Gal-T2
1	B4GALT2	ENSG00000117411	ENST00000372324	protein_coding	KNOWN	CCDS506	925	1119	372	44444866	44456839	1	None	beta4Gal-T2
X	ZNF81	ENSG00000197779	ENST00000376954	protein_coding	KNOWN	CCDS43933	13156	1986	661	47696301	47781610	1	MRX45	HFZ20
X	ZNF81	ENSG00000197779	ENST00000334937	protein_coding	KNOWN	None	13156	210	69	47696345	47747609	1	MRX45	HFZ20
X	ZNF81	ENSG00000197779	ENST00000376950	protein_coding	KNOWN	None	13156	311	102	47696369	47861960	1	MRX45	HFZ20
X	ZNF81	ENSG00000197779	ENST00000483520	processed_transcript	KNOWN	None	13156	None	None	47705572	47720444	1	MRX45	HFZ20
X	ZNF81	ENSG00000197779	ENST00000338637	protein_coding	KNOWN	CCDS43933	13156	1986	661	47696301	47781655	1	MRX45	HFZ20
3	KALRN	ENSG00000160145	ENST00000448253	protein_coding	PUTATIVE	None	4814	804	267	123798870	123987860	1	HAPIP	duo, Hs.8004, TRAD, DUET, Kalirin, ARHGEF24
3	KALRN	ENSG00000160145	ENST00000477496	processed_transcript	KNOWN	None	4814	None	None	123798888	123883532	1	HAPIP	duo, Hs.8004, TRAD, DUET, Kalirin, ARHGEF24
3	KALRN	ENSG00000160145	ENST00000488825	processed_transcript	KNOWN	None	4814	None	None	123813508	123882417	1	HAPIP	duo, Hs.8004, TRAD, DUET, Kalirin, ARHGEF24
3	KALRN	ENSG00000160145	ENST00000460856	protein_coding	NOVEL	None	4814	4965	1654	123813528	124238696	1	HAPIP	duo, Hs.8004, TRAD, DUET, Kalirin, ARHGEF24
3	KALRN	ENSG00000160145	ENST00000240874	protein_coding	KNOWN	CCDS3027	4814	4992	1663	123813528	124238697	1	HAPIP	duo, Hs.8004, TRAD, DUET, Kalirin, ARHGEF24
3	KALRN	ENSG00000160145	ENST00000483658	processed_transcript	KNOWN	None	4814	None	None	123813600	123883533	1	HAPIP	duo, Hs.8004, TRAD, DUET, Kalirin, ARHGEF24
3	KALRN	ENSG00000160145	ENST00000354186	protein_coding	NOVEL	None	4814	8867	2954	123946837	124440036	1	HAPIP	duo, Hs.8004, TRAD, DUET, Kalirin, ARHGEF24
3	KALRN	ENSG00000160145	ENST00000498499	retained_intron	KNOWN	None	4814	None	None	123987438	124044932	1	HAPIP	duo, Hs.8004, TRAD, DUET, Kalirin, ARHGEF24
3	KALRN	ENSG00000160145	ENST00000439170	protein_coding	PUTATIVE	None	4814	648	215	124053274	124114407	1	HAPIP	duo, Hs.8004, TRAD, DUET, Kalirin, ARHGEF24
3	KALRN	ENSG00000160145	ENST00000522553	retained_intron	KNOWN	None	4814	None	None	124103410	124117718	1	HAPIP	duo, Hs.8004, TRAD, DUET, Kalirin, ARHGEF24
3	KALRN	ENSG00000160145	ENST00000484224	retained_intron	KNOWN	None	4814	None	None	124103566	124141739	1	HAPIP	duo, Hs.8004, TRAD, DUET, Kalirin, ARHGEF24
3	KALRN	ENSG00000160145	ENST00000393501	retained_intron	KNOWN	None	4814	None	None	124103672	124207712	1	HAPIP	duo, Hs.8004, TRAD, DUET, Kalirin, ARHGEF24
3	KALRN	ENSG00000160145	ENST00000494648	retained_intron	KNOWN	None	4814	None	None	124173982	124181521	1	HAPIP	duo, Hs.8004, TRAD, DUET, Kalirin, ARHGEF24
3	KALRN	ENSG00000160145	ENST00000473056	retained_intron	KNOWN	None	4814	None	None	124207135	124210537	1	HAPIP	duo, Hs.8004, TRAD, DUET, Kalirin, ARHGEF24
3	KALRN	ENSG00000160145	ENST00000393496	protein_coding	NOVEL	None	4814	2217	738	124223586	124394274	1	HAPIP	duo, Hs.8004, TRAD, DUET, Kalirin, ARHGEF24
3	KALRN	ENSG00000160145	ENST00000471431	retained_intron	KNOWN	None	4814	None	None	124281547	124351445	1	HAPIP	duo, Hs.8004, TRAD, DUET, Kalirin, ARHGEF24
3	KALRN	ENSG00000160145	ENST00000291478	protein_coding	KNOWN	CCDS3028	4814	3870	1289	124303506	124440036	1	HAPIP	duo, Hs.8004, TRAD, DUET, Kalirin, ARHGEF24
3	KALRN	ENSG00000160145	ENST00000454902	protein_coding	PUTATIVE	None	4814	582	193	124303529	124369762	1	HAPIP	duo, Hs.8004, TRAD, DUET, Kalirin, ARHGEF24
3	KALRN	ENSG00000160145	ENST00000459915	protein_coding	PUTATIVE	None	4814	1470	489	124355944	124393805	1	HAPIP	duo, Hs.8004, TRAD, DUET, Kalirin, ARHGEF24
3	KALRN	ENSG00000160145	ENST00000484542	retained_intron	KNOWN	None	4814	None	None	124393423	124397484	1	HAPIP	duo, Hs.8004, TRAD, DUET, Kalirin, ARHGEF24
3	KALRN	ENSG00000160145	ENST00000462213	protein_coding	PUTATIVE	None	4814	372	123	124396187	124398596	1	HAPIP	duo, Hs.8004, TRAD, DUET, Kalirin, ARHGEF24
3	KALRN	ENSG00000160145	ENST00000360013	protein_coding	KNOWN	None	4814	8961	2986	123813558	124440035	1	HAPIP	duo, Hs.8004, TRAD, DUET, Kalirin, ARHGEF24
3	KALRN	ENSG00000160145	ENST00000428018	protein_coding	KNOWN	None	4814	3774	1257	124303669	124440035	1	HAPIP	duo, Hs.8004, TRAD, DUET, Kalirin, ARHGEF24
4	PDCL2	ENSG00000163440	ENST00000295645	protein_coding	KNOWN	CCDS47059	29524	726	241	56422692	56458379	-1	None	GCPHLP
X	OTUD6A	ENSG00000189401	ENST00000338352	protein_coding	KNOWN	CCDS14395	32312	867	288	69282341	69284029	1	None	FLJ25831, HSHIN6, DUBA2
14	VRTN	ENSG00000133980	ENST00000557177	protein_coding	KNOWN	None	20223	250	82	74769772	74823736	1	C14orf115	FLJ10811, vertnin
14	VRTN	ENSG00000133980	ENST00000256362	protein_coding	KNOWN	CCDS9830	20223	2109	702	74815116	74826711	1	C14orf115	FLJ10811, vertnin
15	RHCG	ENSG00000140519	ENST00000560081	nonsense_mediated_decay	KNOWN	None	18140	996	331	90014629	90039802	-1	C15orf6	RHGK, PDRC2, SLC42A3
15	RHCG	ENSG00000140519	ENST00000268122	protein_coding	KNOWN	CCDS10351	18140	1440	479	90014638	90039844	-1	C15orf6	RHGK, PDRC2, SLC42A3
15	RHCG	ENSG00000140519	ENST00000558360	protein_coding	KNOWN	None	18140	712	236	90014676	90022661	-1	C15orf6	RHGK, PDRC2, SLC42A3
15	RHCG	ENSG00000140519	ENST00000558030	nonsense_mediated_decay	KNOWN	None	18140	702	233	90014988	90039813	-1	C15orf6	RHGK, PDRC2, SLC42A3
15	RHCG	ENSG00000140519	ENST00000558184	nonsense_mediated_decay	KNOWN	None	18140	411	136	90020959	90039820	-1	C15orf6	RHGK, PDRC2, SLC42A3
15	RHCG	ENSG00000140519	ENST00000559638	retained_intron	KNOWN	None	18140	None	None	90021030	90022967	-1	C15orf6	RHGK, PDRC2, SLC42A3
15	RHCG	ENSG00000140519	ENST00000544600	protein_coding	KNOWN	None	18140	1338	445	89998680	90039814	-1	C15orf6	RHGK, PDRC2, SLC42A3
1	IRF6	ENSG00000117595	ENST00000367021	protein_coding	KNOWN	CCDS1492	6121	1404	467	209959036	209979389	-1	VWS, LPS	OFC6, VWS1
1	IRF6	ENSG00000117595	ENST00000456314	protein_coding	KNOWN	None	6121	829	275	209964071	209975511	-1	VWS, LPS	OFC6, VWS1
1	IRF6	ENSG00000117595	ENST00000464698	retained_intron	KNOWN	None	6121	None	None	209964083	209966059	-1	VWS, LPS	OFC6, VWS1
1	IRF6	ENSG00000117595	ENST00000542854	protein_coding	KNOWN	CCDS55681	6121	1119	372	209961697	209979465	-1	VWS, LPS	OFC6, VWS1
6	None	ENSG00000228170	ENST00000447644	antisense	KNOWN	None	None	None	None	3138628	3153296	-1	None	None
9	LCN15	ENSG00000177984	ENST00000495223	processed_transcript	KNOWN	None	33777	None	None	139654086	139658916	-1	None	UNQ2541, PRO6093
9	LCN15	ENSG00000177984	ENST00000316144	protein_coding	KNOWN	CCDS7006	33777	555	184	139654086	139658965	-1	None	UNQ2541, PRO6093
9	LCN15	ENSG00000177984	ENST00000482511	processed_transcript	KNOWN	None	33777	None	None	139654088	139660707	-1	None	UNQ2541, PRO6093
6	TUBB2BP1	ENSG00000216819	ENST00000404155	unprocessed_pseudogene	KNOWN	None	42332	None	None	3177278	3179998	-1	None	None
7	KIAA0895	ENSG00000164542	ENST00000297063	protein_coding	KNOWN	CCDS43570	22206	1563	520	36363830	36429734	-1	None	None
7	KIAA0895	ENSG00000164542	ENST00000338533	protein_coding	KNOWN	CCDS56483	22206	1524	507	36363832	36406522	-1	None	None
7	KIAA0895	ENSG00000164542	ENST00000317020	protein_coding	KNOWN	CCDS47573	22206	1410	469	36363839	36406850	-1	None	None
7	KIAA0895	ENSG00000164542	ENST00000440378	protein_coding	NOVEL	CCDS56484	22206	1554	517	36365743	36406810	-1	None	None
7	KIAA0895	ENSG00000164542	ENST00000436884	protein_coding	PUTATIVE	CCDS56482	22206	1254	417	36366105	36406878	-1	None	None
7	KIAA0895	ENSG00000164542	ENST00000453212	protein_coding	PUTATIVE	None	22206	828	275	36366314	36406780	-1	None	None
7	KIAA0895	ENSG00000164542	ENST00000483360	processed_transcript	KNOWN	None	22206	None	None	36373464	36406839	-1	None	None
7	KIAA0895	ENSG00000164542	ENST00000480192	processed_transcript	KNOWN	None	22206	None	None	36373465	36407966	-1	None	None
7	KIAA0895	ENSG00000164542	ENST00000483526	processed_transcript	KNOWN	None	22206	None	None	36373652	36406850	-1	None	None
7	KIAA0895	ENSG00000164542	ENST00000431396	protein_coding	PUTATIVE	None	22206	292	96	36373744	36406823	-1	None	None
7	KIAA0895	ENSG00000164542	ENST00000415803	protein_coding	KNOWN	None	22206	915	304	36394805	36406782	-1	None	None
7	KIAA0895	ENSG00000164542	ENST00000493327	retained_intron	KNOWN	None	22206	None	None	36395977	36406810	-1	None	None
7	KIAA0895	ENSG00000164542	ENST00000429651	protein_coding	NOVEL	None	22206	425	140	36396554	36429695	-1	None	None
8	PBK	ENSG00000168078	ENST00000301905	protein_coding	KNOWN	CCDS6063	18282	969	322	27667137	27695612	-1	None	TOPK, FLJ14385, Nori-3, SPK, CT84
8	PBK	ENSG00000168078	ENST00000522944	protein_coding	PUTATIVE	None	18282	1002	333	27667718	27695599	-1	None	TOPK, FLJ14385, Nori-3, SPK, CT84
8	PBK	ENSG00000168078	ENST00000524266	nonsense_mediated_decay	KNOWN	None	18282	192	63	27667811	27695300	-1	None	TOPK, FLJ14385, Nori-3, SPK, CT84
8	PBK	ENSG00000168078	ENST00000521226	nonsense_mediated_decay	KNOWN	None	18282	96	31	27678121	27695326	-1	None	TOPK, FLJ14385, Nori-3, SPK, CT84
11	FKBP2	ENSG00000173486	ENST00000536642	retained_intron	KNOWN	None	3718	None	None	64008475	64011141	1	None	FKBP-13, PPIase
11	FKBP2	ENSG00000173486	ENST00000309366	protein_coding	KNOWN	CCDS8063	3718	429	142	64008476	64011596	1	None	FKBP-13, PPIase
11	FKBP2	ENSG00000173486	ENST00000541388	retained_intron	KNOWN	None	3718	None	None	64008546	64011575	1	None	FKBP-13, PPIase
11	FKBP2	ENSG00000173486	ENST00000449942	protein_coding	KNOWN	CCDS8063	3718	429	142	64008628	64011598	1	None	FKBP-13, PPIase
11	FKBP2	ENSG00000173486	ENST00000535135	protein_coding	KNOWN	None	3718	306	101	64009138	64010944	1	None	FKBP-13, PPIase
11	FKBP2	ENSG00000173486	ENST00000394540	protein_coding	KNOWN	CCDS8063	3718	429	142	64009220	64011604	1	None	FKBP-13, PPIase
1	CCDC24	ENSG00000159214	ENST00000486064	processed_transcript	KNOWN	None	28688	None	None	44457031	44462196	1	None	MGC45441
1	CCDC24	ENSG00000159214	ENST00000372318	protein_coding	KNOWN	CCDS507	28688	924	307	44457280	44462200	1	None	MGC45441
1	CCDC24	ENSG00000159214	ENST00000460543	processed_transcript	KNOWN	None	28688	None	None	44457285	44460830	1	None	MGC45441
1	CCDC24	ENSG00000159214	ENST00000463846	processed_transcript	KNOWN	None	28688	None	None	44457320	44462200	1	None	MGC45441
1	CCDC24	ENSG00000159214	ENST00000490563	processed_transcript	KNOWN	None	28688	None	None	44457338	44462200	1	None	MGC45441
1	CCDC24	ENSG00000159214	ENST00000490064	processed_transcript	KNOWN	None	28688	None	None	44457446	44461827	1	None	MGC45441
1	CCDC24	ENSG00000159214	ENST00000486504	processed_transcript	KNOWN	None	28688	None	None	44457456	44461951	1	None	MGC45441
1	CCDC24	ENSG00000159214	ENST00000485811	processed_transcript	KNOWN	None	28688	None	None	44457474	44461528	1	None	MGC45441
1	CCDC24	ENSG00000159214	ENST00000466180	processed_transcript	KNOWN	None	28688	None	None	44457514	44461782	1	None	MGC45441
1	CCDC24	ENSG00000159214	ENST00000479055	processed_transcript	KNOWN	None	28688	None	None	44457894	44461786	1	None	MGC45441
1	CCDC24	ENSG00000159214	ENST00000472562	processed_transcript	KNOWN	None	28688	None	None	44461065	44461652	1	None	MGC45441
8	ARHGEF10	ENSG00000104728	ENST00000349830	protein_coding	KNOWN	CCDS34794	14103	4035	1344	1772142	1906799	1	None	KIAA0294, Gef10
8	ARHGEF10	ENSG00000104728	ENST00000520359	protein_coding	NOVEL	None	14103	3921	1306	1772154	1906807	1	None	KIAA0294, Gef10
8	ARHGEF10	ENSG00000104728	ENST00000518288	protein_coding	KNOWN	None	14103	4107	1368	1772181	1906807	1	None	KIAA0294, Gef10
8	ARHGEF10	ENSG00000104728	ENST00000382795	processed_transcript	KNOWN	None	14103	None	None	1806921	1817446	1	None	KIAA0294, Gef10
8	ARHGEF10	ENSG00000104728	ENST00000520972	retained_intron	KNOWN	None	14103	None	None	1808060	1852276	1	None	KIAA0294, Gef10
8	ARHGEF10	ENSG00000104728	ENST00000522969	retained_intron	KNOWN	None	14103	None	None	1808081	1819297	1	None	KIAA0294, Gef10
8	ARHGEF10	ENSG00000104728	ENST00000523711	retained_intron	KNOWN	None	14103	None	None	1824217	1875679	1	None	KIAA0294, Gef10
8	ARHGEF10	ENSG00000104728	ENST00000522435	protein_coding	NOVEL	None	14103	2967	988	1830822	1906805	1	None	KIAA0294, Gef10
8	ARHGEF10	ENSG00000104728	ENST00000524212	processed_transcript	KNOWN	None	14103	None	None	1852401	1871656	1	None	KIAA0294, Gef10
8	ARHGEF10	ENSG00000104728	ENST00000519641	retained_intron	KNOWN	None	14103	None	None	1871362	1872040	1	None	KIAA0294, Gef10
8	ARHGEF10	ENSG00000104728	ENST00000523596	processed_transcript	PUTATIVE	None	14103	None	None	1891760	1900940	1	None	KIAA0294, Gef10
8	ARHGEF10	ENSG00000104728	ENST00000523980	retained_intron	KNOWN	None	14103	None	None	1891761	1894085	1	None	KIAA0294, Gef10
8	ARHGEF10	ENSG00000104728	ENST00000521927	processed_transcript	KNOWN	None	14103	None	None	1891820	1905371	1	None	KIAA0294, Gef10
8	ARHGEF10	ENSG00000104728	ENST00000398564	protein_coding	KNOWN	None	14103	4110	1369	1774277	1906799	1	None	KIAA0294, Gef10
8	ARHGEF10	ENSG00000104728	ENST00000262112	protein_coding	KNOWN	None	14103	4023	1340	1774277	1906799	1	None	KIAA0294, Gef10
8	ARHGEF10	ENSG00000104728	ENST00000398560	protein_coding	KNOWN	None	14103	1833	610	1772181	1851671	1	None	KIAA0294, Gef10
7	HECW1	ENSG00000002746	ENST00000395891	protein_coding	KNOWN	CCDS5469	22195	4821	1606	43152198	43602938	1	None	KIAA0322, NEDL1
7	HECW1	ENSG00000002746	ENST00000490954	processed_transcript	KNOWN	None	22195	None	None	43152228	43351583	1	None	KIAA0322, NEDL1
7	HECW1	ENSG00000002746	ENST00000453890	protein_coding	NOVEL	None	22195	4719	1572	43152244	43601651	1	None	KIAA0322, NEDL1
7	HECW1	ENSG00000002746	ENST00000492310	processed_transcript	KNOWN	None	22195	None	None	43153340	43478362	1	None	KIAA0322, NEDL1
7	HECW1	ENSG00000002746	ENST00000471527	processed_transcript	KNOWN	None	22195	None	None	43288186	43298308	1	None	KIAA0322, NEDL1
7	HECW1	ENSG00000002746	ENST00000493057	processed_transcript	KNOWN	None	22195	None	None	43288535	43298339	1	None	KIAA0322, NEDL1
7	HECW1	ENSG00000002746	ENST00000464944	processed_transcript	KNOWN	None	22195	None	None	43288736	43351592	1	None	KIAA0322, NEDL1
7	HECW1	ENSG00000002746	ENST00000481031	processed_transcript	KNOWN	None	22195	None	None	43417377	43447330	1	None	KIAA0322, NEDL1
7	HECW1	ENSG00000002746	ENST00000471043	processed_transcript	KNOWN	None	22195	None	None	43436272	43480196	1	None	KIAA0322, NEDL1
7	HECW1	ENSG00000002746	ENST00000461842	processed_transcript	KNOWN	None	22195	None	None	43519207	43524214	1	None	KIAA0322, NEDL1
7	HECW1	ENSG00000002746	ENST00000429529	protein_coding	PUTATIVE	None	22195	415	137	43519252	43581593	1	None	KIAA0322, NEDL1
17	ORMDL3	ENSG00000172057	ENST00000304046	protein_coding	KNOWN	CCDS11355	16038	462	153	38077294	38083854	-1	None	None
17	ORMDL3	ENSG00000172057	ENST00000579695	protein_coding	KNOWN	CCDS11355	16038	462	153	38077294	38083854	-1	None	None
17	ORMDL3	ENSG00000172057	ENST00000579287	processed_transcript	KNOWN	None	16038	None	None	38077296	38078002	-1	None	None
17	ORMDL3	ENSG00000172057	ENST00000581284	nonsense_mediated_decay	KNOWN	None	16038	307	101	38078351	38080301	-1	None	None
17	ORMDL3	ENSG00000172057	ENST00000394169	protein_coding	KNOWN	CCDS11355	16038	462	153	38078530	38083094	-1	None	None
17	ORMDL3	ENSG00000172057	ENST00000584220	protein_coding	NOVEL	None	16038	414	137	38078803	38080456	-1	None	None
17	ORMDL3	ENSG00000172057	ENST00000584000	protein_coding	KNOWN	None	16038	387	128	38078878	38083482	-1	None	None
17	ORMDL3	ENSG00000172057	ENST00000582052	processed_transcript	KNOWN	None	16038	None	None	38082049	38083099	-1	None	None
19	NANOS3	ENSG00000187556	ENST00000591727	protein_coding	PUTATIVE	None	22048	12	3	13972877	13991569	1	None	NANOS1L, NOS3
19	NANOS3	ENSG00000187556	ENST00000591161	protein_coding	PUTATIVE	None	22048	12	3	13976231	13991571	1	None	NANOS1L, NOS3
19	NANOS3	ENSG00000187556	ENST00000339133	protein_coding	KNOWN	CCDS42511	22048	579	192	13988061	13991317	1	None	NANOS1L, NOS3
19	NANOS3	ENSG00000187556	ENST00000397555	protein_coding	KNOWN	None	22048	522	173	13988063	13991571	1	None	NANOS1L, NOS3
15	SPPL2A	ENSG00000138600	ENST00000261854	protein_coding	KNOWN	CCDS10138	30227	1563	520	50999506	51058005	-1	None	IMP3, PSL2
15	SPPL2A	ENSG00000138600	ENST00000558934	protein_coding	NOVEL	None	30227	1070	355	50999645	51039728	-1	None	IMP3, PSL2
15	SPPL2A	ENSG00000138600	ENST00000559293	processed_transcript	PUTATIVE	None	30227	None	None	51014338	51018524	-1	None	IMP3, PSL2
15	SPPL2A	ENSG00000138600	ENST00000558146	retained_intron	KNOWN	None	30227	None	None	51014370	51017716	-1	None	IMP3, PSL2
15	SPPL2A	ENSG00000138600	ENST00000559527	retained_intron	KNOWN	None	30227	None	None	51018113	51039705	-1	None	IMP3, PSL2
15	SPPL2A	ENSG00000138600	ENST00000558414	protein_coding	PUTATIVE	None	30227	449	148	51039701	51056758	-1	None	IMP3, PSL2
15	SPPL2A	ENSG00000138600	ENST00000560288	retained_intron	KNOWN	None	30227	None	None	51040194	51057906	-1	None	IMP3, PSL2
1	CTSK	ENSG00000143387	ENST00000271651	protein_coding	KNOWN	CCDS969	2536	990	329	150768684	150780799	-1	CTSO2, CTSO, PYCD	PKND
1	CTSK	ENSG00000143387	ENST00000480670	processed_transcript	KNOWN	None	2536	None	None	150776488	150779244	-1	CTSO2, CTSO, PYCD	PKND
1	CTSK	ENSG00000143387	ENST00000443913	protein_coding	KNOWN	None	2536	775	257	150776517	150779910	-1	CTSO2, CTSO, PYCD	PKND
17	AATK	ENSG00000181409	ENST00000326724	protein_coding	KNOWN	CCDS45807	21	4125	1374	79091095	79139817	-1	None	AATYK, KIAA0641, LMTK1, LMR1, AATYK1
17	AATK	ENSG00000181409	ENST00000570932	nonsense_mediated_decay	KNOWN	None	21	318	105	79091098	79095305	-1	None	AATYK, KIAA0641, LMTK1, LMR1, AATYK1
17	AATK	ENSG00000181409	ENST00000374792	nonsense_mediated_decay	KNOWN	None	21	2640	879	79091098	79139872	-1	None	AATYK, KIAA0641, LMTK1, LMR1, AATYK1
17	AATK	ENSG00000181409	ENST00000417379	protein_coding	PUTATIVE	CCDS58607	21	3816	1271	79091104	79105748	-1	None	AATYK, KIAA0641, LMTK1, LMR1, AATYK1
17	AATK	ENSG00000181409	ENST00000573469	retained_intron	KNOWN	None	21	None	None	79091800	79102700	-1	None	AATYK, KIAA0641, LMTK1, LMR1, AATYK1
17	AATK	ENSG00000181409	ENST00000573441	processed_transcript	KNOWN	None	21	None	None	79096309	79098814	-1	None	AATYK, KIAA0641, LMTK1, LMR1, AATYK1
17	AATK	ENSG00000181409	ENST00000572339	processed_transcript	KNOWN	None	21	None	None	79098762	79102688	-1	None	AATYK, KIAA0641, LMTK1, LMR1, AATYK1
17	AATK	ENSG00000181409	ENST00000576053	retained_intron	KNOWN	None	21	None	None	79100246	79102725	-1	None	AATYK, KIAA0641, LMTK1, LMR1, AATYK1
17	AATK	ENSG00000181409	ENST00000575363	protein_coding	PUTATIVE	None	21	349	115	79101653	79106647	-1	None	AATYK, KIAA0641, LMTK1, LMR1, AATYK1
17	AATK	ENSG00000181409	ENST00000572798	processed_transcript	KNOWN	None	21	None	None	79108168	79139877	-1	None	AATYK, KIAA0641, LMTK1, LMR1, AATYK1
16	DNAH3	ENSG00000158486	ENST00000261383	protein_coding	KNOWN	CCDS10594	2949	12351	4116	20944433	21170762	-1	None	Dnahc3b, DLP3, Hsadhc3, DKFZp434N074
16	DNAH3	ENSG00000158486	ENST00000572640	retained_intron	KNOWN	None	2949	None	None	21008181	21074321	-1	None	Dnahc3b, DLP3, Hsadhc3, DKFZp434N074
16	DNAH3	ENSG00000158486	ENST00000572931	retained_intron	KNOWN	None	2949	None	None	21030469	21051185	-1	None	Dnahc3b, DLP3, Hsadhc3, DKFZp434N074
16	DNAH3	ENSG00000158486	ENST00000396036	retained_intron	KNOWN	None	2949	None	None	21115223	21162132	-1	None	Dnahc3b, DLP3, Hsadhc3, DKFZp434N074
16	DNAH3	ENSG00000158486	ENST00000575024	retained_intron	KNOWN	None	2949	None	None	21145470	21147893	-1	None	Dnahc3b, DLP3, Hsadhc3, DKFZp434N074
16	DNAH3	ENSG00000158486	ENST00000575491	processed_transcript	KNOWN	None	2949	None	None	21151529	21162128	-1	None	Dnahc3b, DLP3, Hsadhc3, DKFZp434N074
16	DNAH3	ENSG00000158486	ENST00000415178	protein_coding	KNOWN	None	2949	5664	1887	20944476	21170762	-1	None	Dnahc3b, DLP3, Hsadhc3, DKFZp434N074
1	DIEXF	ENSG00000117597	ENST00000491415	protein_coding	KNOWN	CCDS1493	28440	2271	756	210001352	210030910	1	C1orf107	MGC29875, DEF, UTP25
1	DIEXF	ENSG00000117597	ENST00000457820	protein_coding	KNOWN	None	28440	746	247	210012150	210017977	1	C1orf107	MGC29875, DEF, UTP25
5	None	ENSG00000250782	ENST00000512227	processed_pseudogene	KNOWN	None	None	None	None	17634569	17635162	1	None	None
12	PITPNM2	ENSG00000090975	ENST00000280562	protein_coding	KNOWN	None	21044	4032	1343	123468027	123595042	-1	None	RDGBA2, RDGB2, NIR3
12	PITPNM2	ENSG00000090975	ENST00000542749	protein_coding	KNOWN	CCDS9242	21044	4050	1349	123468028	123519201	-1	None	RDGBA2, RDGB2, NIR3
12	PITPNM2	ENSG00000090975	ENST00000436074	retained_intron	KNOWN	None	21044	None	None	123481985	123490667	-1	None	RDGBA2, RDGB2, NIR3
12	PITPNM2	ENSG00000090975	ENST00000546049	protein_coding	PUTATIVE	None	21044	1437	478	123484850	123565880	-1	None	RDGBA2, RDGB2, NIR3
12	PITPNM2	ENSG00000090975	ENST00000451868	processed_transcript	KNOWN	None	21044	None	None	123484851	123590046	-1	None	RDGBA2, RDGB2, NIR3
12	PITPNM2	ENSG00000090975	ENST00000542210	protein_coding	KNOWN	None	21044	125	40	123498543	123634562	-1	None	RDGBA2, RDGB2, NIR3
12	PITPNM2	ENSG00000090975	ENST00000535289	retained_intron	KNOWN	None	21044	None	None	123518799	123595036	-1	None	RDGBA2, RDGB2, NIR3
12	PITPNM2	ENSG00000090975	ENST00000541244	protein_coding	KNOWN	None	21044	46	14	123519092	123560642	-1	None	RDGBA2, RDGB2, NIR3
12	PITPNM2	ENSG00000090975	ENST00000320201	protein_coding	KNOWN	CCDS9242	21044	4050	1349	123468027	123594975	-1	None	RDGBA2, RDGB2, NIR3
12	PITPNM2	ENSG00000090975	ENST00000392428	protein_coding	KNOWN	None	21044	3213	1070	123468027	123594975	-1	None	RDGBA2, RDGB2, NIR3
5	None	ENSG00000248471	ENST00000511894	processed_pseudogene	KNOWN	None	None	None	None	17643071	17643337	-1	None	None
5	None	ENSG00000248160	ENST00000503894	processed_pseudogene	KNOWN	None	None	None	None	17647821	17648053	-1	None	None
4	NMU	ENSG00000109255	ENST00000511469	protein_coding	NOVEL	None	7859	477	158	56461396	56502451	-1	None	None
4	NMU	ENSG00000109255	ENST00000264218	protein_coding	KNOWN	CCDS3501	7859	525	174	56461398	56502465	-1	None	None
4	NMU	ENSG00000109255	ENST00000505262	protein_coding	PUTATIVE	None	7859	444	147	56461401	56502426	-1	None	None
4	NMU	ENSG00000109255	ENST00000507338	protein_coding	NOVEL	None	7859	450	149	56461451	56502435	-1	None	None
4	NMU	ENSG00000109255	ENST00000515325	processed_transcript	KNOWN	None	7859	None	None	56461484	56502865	-1	None	None
4	NMU	ENSG00000109255	ENST00000509371	processed_transcript	KNOWN	None	7859	None	None	56465319	56496629	-1	None	None
5	None	ENSG00000248542	ENST00000509526	processed_pseudogene	KNOWN	None	None	None	None	17649155	17649752	1	None	None
5	None	ENSG00000248337	ENST00000515727	processed_pseudogene	KNOWN	None	None	None	None	17654482	17654752	-1	None	None
5	None	ENSG00000269466	ENST00000598383	processed_pseudogene	KNOWN	None	None	None	None	17655238	17655647	-1	None	None
5	None	ENSG00000269466	ENST00000509027	processed_pseudogene	KNOWN	None	None	None	None	17655237	17655647	-1	None	None
6	None	ENSG00000230269	ENST00000425384	lincRNA	KNOWN	None	None	None	None	3182978	3195981	-1	None	None
6	None	ENSG00000230269	ENST00000435043	lincRNA	KNOWN	None	None	None	None	3182978	3195990	-1	None	None
6	None	ENSG00000272320	ENST00000607565	antisense	KNOWN	None	None	None	None	3311896	3313884	1	None	None
6	None	ENSG00000228793	ENST00000443445	lincRNA	KNOWN	None	None	None	None	3594481	3624981	-1	None	None
6	None	ENSG00000270477	ENST00000605153	processed_pseudogene	KNOWN	None	None	None	None	3694157	3694309	-1	None	None
6	None	ENSG00000270504	ENST00000603791	antisense	KNOWN	None	None	None	None	3751345	3754105	1	None	None
6	None	ENSG00000219992	ENST00000402155	processed_pseudogene	KNOWN	None	None	None	None	3754333	3755074	1	None	None
6	None	ENSG00000238158	ENST00000602854	sense_overlapping	KNOWN	None	None	None	None	3832167	3834130	1	None	None
6	None	ENSG00000238158	ENST00000454396	sense_overlapping	KNOWN	None	None	None	None	3832167	3855971	1	None	None
6	None	ENSG00000233068	ENST00000450255	lincRNA	KNOWN	None	None	None	None	3893360	3894524	1	None	None
6	None	ENSG00000233068	ENST00000445883	lincRNA	KNOWN	None	None	None	None	3894074	3894524	1	None	None
6	None	ENSG00000260604	ENST00000566733	lincRNA	KNOWN	None	None	None	None	3905144	3912213	-1	None	None
6	None	ENSG00000218472	ENST00000404787	processed_pseudogene	KNOWN	None	None	None	None	3914156	3914526	-1	None	None
11	FAM181B	ENSG00000182103	ENST00000329203	protein_coding	KNOWN	CCDS31648	28512	1281	426	82443053	82444906	-1	None	LOC220382, MGC33846
6	None	ENSG00000217135	ENST00000405321	processed_pseudogene	KNOWN	None	None	None	None	3922081	3922380	1	None	None
17	SLC2A4	ENSG00000181856	ENST00000317370	protein_coding	KNOWN	CCDS11097	11009	1530	509	7184986	7191576	1	GLUT4	None
17	SLC2A4	ENSG00000181856	ENST00000572485	nonsense_mediated_decay	KNOWN	None	11009	1248	415	7185054	7191152	1	GLUT4	None
17	SLC2A4	ENSG00000181856	ENST00000571308	protein_coding	PUTATIVE	None	11009	1386	461	7185055	7189470	1	GLUT4	None
17	SLC2A4	ENSG00000181856	ENST00000570783	nonsense_mediated_decay	KNOWN	None	11009	660	219	7185127	7190220	1	GLUT4	None
17	SLC2A4	ENSG00000181856	ENST00000424875	protein_coding	PUTATIVE	None	11009	1356	451	7185449	7189486	1	GLUT4	None
X	IGBP1	ENSG00000089289	ENST00000342206	protein_coding	KNOWN	CCDS14396	5461	1020	339	69353299	69386174	1	IBP1	None
X	IGBP1	ENSG00000089289	ENST00000356413	protein_coding	KNOWN	CCDS14396	5461	1020	339	69353313	69386174	1	IBP1	None
12	PRR4	ENSG00000111215	ENST00000538332	processed_transcript	KNOWN	None	18020	None	None	10977559	11035256	-1	PROL4	LPRP
12	PRR4	ENSG00000111215	ENST00000542881	processed_transcript	KNOWN	None	18020	None	None	10998448	11001533	-1	PROL4	LPRP
12	PRR4	ENSG00000111215	ENST00000544994	protein_coding	PUTATIVE	CCDS55804	18020	198	65	10998448	11002069	-1	PROL4	LPRP
12	PRR4	ENSG00000111215	ENST00000228811	protein_coding	KNOWN	CCDS41756	18020	405	134	10998448	11002074	-1	PROL4	LPRP
12	PRR4	ENSG00000111215	ENST00000536668	processed_transcript	KNOWN	None	18020	None	None	10998448	11324197	-1	PROL4	LPRP
12	PRR4	ENSG00000111215	ENST00000535024	processed_transcript	KNOWN	None	18020	None	None	10998448	11324212	-1	PROL4	LPRP
12	PRR4	ENSG00000111215	ENST00000540107	protein_coding	NOVEL	None	18020	237	78	10998450	11002074	-1	PROL4	LPRP
12	PRR4	ENSG00000111215	ENST00000539285	processed_transcript	KNOWN	None	18020	None	None	10998483	11001574	-1	PROL4	LPRP
12	PRR4	ENSG00000111215	ENST00000539179	retained_intron	KNOWN	None	18020	None	None	10999591	11002060	-1	PROL4	LPRP
12	PRR4	ENSG00000111215	ENST00000540808	processed_transcript	KNOWN	None	18020	None	None	10999805	11001158	-1	PROL4	LPRP
12	PRR4	ENSG00000111215	ENST00000542658	processed_transcript	KNOWN	None	18020	None	None	11000964	11002074	-1	PROL4	LPRP
12	PRR4	ENSG00000111215	ENST00000543480	processed_transcript	KNOWN	None	18020	None	None	11033567	11035697	-1	PROL4	LPRP
12	PRR4	ENSG00000111215	ENST00000539853	processed_transcript	KNOWN	None	18020	None	None	11034821	11199789	-1	PROL4	LPRP
12	PRR4	ENSG00000111215	ENST00000543626	processed_transcript	KNOWN	None	18020	None	None	11034835	11036816	-1	PROL4	LPRP
12	PRR4	ENSG00000111215	ENST00000541977	processed_transcript	KNOWN	None	18020	None	None	11035186	11324143	-1	PROL4	LPRP
12	PRR4	ENSG00000111215	ENST00000536086	processed_transcript	KNOWN	None	18020	None	None	11044060	11199640	-1	PROL4	LPRP
12	PRR4	ENSG00000111215	ENST00000546317	processed_transcript	KNOWN	None	18020	None	None	11047700	11126305	-1	PROL4	LPRP
12	PRR4	ENSG00000111215	ENST00000534923	processed_transcript	KNOWN	None	18020	None	None	11125883	11199713	-1	PROL4	LPRP
12	PRR4	ENSG00000111215	ENST00000541456	processed_transcript	KNOWN	None	18020	None	None	11158533	11199736	-1	PROL4	LPRP
12	PRR4	ENSG00000111215	ENST00000546265	processed_transcript	KNOWN	None	18020	None	None	11199612	11324207	-1	PROL4	LPRP
12	PRR4	ENSG00000111215	ENST00000541175	processed_transcript	KNOWN	None	18020	None	None	11273435	11324059	-1	PROL4	LPRP
9	UBE2R2	ENSG00000107341	ENST00000263228	protein_coding	KNOWN	CCDS6546	19907	717	238	33817565	33920402	1	None	UBC3B, CDC34B, FLJ20419, MGC10481
7	HMGN1P19	ENSG00000224519	ENST00000436976	processed_pseudogene	KNOWN	None	39363	None	None	46674212	46674544	1	None	None
7	EPS15P1	ENSG00000242948	ENST00000459691	processed_transcript	KNOWN	None	18166	None	None	46820971	46823041	1	EPS15L2	PRO1866
7	EPS15P1	ENSG00000242948	ENST00000448836	transcribed_processed_pseudogene	KNOWN	None	18166	None	None	46822398	46822733	1	EPS15L2	PRO1866
2	GMCL1	ENSG00000087338	ENST00000282570	protein_coding	KNOWN	CCDS1895	23843	1548	515	70056774	70108528	1	None	FLJ13057, BTBD13, GCL1, SPATA29
2	GMCL1	ENSG00000087338	ENST00000468386	processed_transcript	KNOWN	None	23843	None	None	70056818	70067308	1	None	FLJ13057, BTBD13, GCL1, SPATA29
2	GMCL1	ENSG00000087338	ENST00000471404	retained_intron	KNOWN	None	23843	None	None	70069832	70081992	1	None	FLJ13057, BTBD13, GCL1, SPATA29
2	GMCL1	ENSG00000087338	ENST00000495047	processed_transcript	PUTATIVE	None	23843	None	None	70096689	70106122	1	None	FLJ13057, BTBD13, GCL1, SPATA29
7	None	ENSG00000232072	ENST00000424359	processed_transcript	PUTATIVE	None	None	None	None	46930223	46940530	-1	None	None
7	None	ENSG00000232072	ENST00000433337	processed_transcript	PUTATIVE	None	None	None	None	46930225	47089276	-1	None	None
6	SLC26A8	ENSG00000112053	ENST00000490799	protein_coding	KNOWN	CCDS4813	14468	2913	970	35911291	35992632	-1	None	None
6	SLC26A8	ENSG00000112053	ENST00000466805	retained_intron	KNOWN	None	14468	None	None	35911295	35937599	-1	None	None
6	SLC26A8	ENSG00000112053	ENST00000394602	protein_coding	KNOWN	CCDS4814	14468	2598	865	35911297	35992270	-1	None	None
6	SLC26A8	ENSG00000112053	ENST00000355574	protein_coding	KNOWN	CCDS4813	14468	2913	970	35911298	35992365	-1	None	None
6	SLC26A8	ENSG00000112053	ENST00000465492	nonsense_mediated_decay	KNOWN	None	14468	961	319	35911472	35936672	-1	None	None
6	SLC26A8	ENSG00000112053	ENST00000486155	retained_intron	KNOWN	None	14468	None	None	35927704	35992633	-1	None	None
6	SLC26A8	ENSG00000112053	ENST00000469847	nonsense_mediated_decay	KNOWN	None	14468	554	183	35965615	35992557	-1	None	None
6	SLC26A8	ENSG00000112053	ENST00000480663	protein_coding	PUTATIVE	None	14468	570	189	35980026	35992645	-1	None	None
15	VPS39	ENSG00000166887	ENST00000318006	protein_coding	KNOWN	CCDS10083	20593	2628	875	42450899	42500514	-1	None	KIAA0770, VAM6
15	VPS39	ENSG00000166887	ENST00000562258	retained_intron	KNOWN	None	20593	None	None	42450914	42458417	-1	None	KIAA0770, VAM6
15	VPS39	ENSG00000166887	ENST00000564994	nonsense_mediated_decay	KNOWN	None	20593	144	47	42452629	42454250	-1	None	KIAA0770, VAM6
15	VPS39	ENSG00000166887	ENST00000348544	protein_coding	KNOWN	None	20593	2661	886	42452952	42500351	-1	None	KIAA0770, VAM6
15	VPS39	ENSG00000166887	ENST00000568755	retained_intron	KNOWN	None	20593	None	None	42453917	42454755	-1	None	KIAA0770, VAM6
15	VPS39	ENSG00000166887	ENST00000562662	retained_intron	KNOWN	None	20593	None	None	42453922	42454870	-1	None	KIAA0770, VAM6
15	VPS39	ENSG00000166887	ENST00000561818	retained_intron	KNOWN	None	20593	None	None	42455759	42456924	-1	None	KIAA0770, VAM6
15	VPS39	ENSG00000166887	ENST00000561797	retained_intron	KNOWN	None	20593	None	None	42456803	42457951	-1	None	KIAA0770, VAM6
15	VPS39	ENSG00000166887	ENST00000563692	processed_transcript	KNOWN	None	20593	None	None	42456983	42459073	-1	None	KIAA0770, VAM6
15	VPS39	ENSG00000166887	ENST00000568029	retained_intron	KNOWN	None	20593	None	None	42462049	42471301	-1	None	KIAA0770, VAM6
15	VPS39	ENSG00000166887	ENST00000570023	retained_intron	KNOWN	None	20593	None	None	42465835	42470536	-1	None	KIAA0770, VAM6
15	VPS39	ENSG00000166887	ENST00000570062	retained_intron	KNOWN	None	20593	None	None	42476390	42483368	-1	None	KIAA0770, VAM6
15	VPS39	ENSG00000166887	ENST00000568357	processed_transcript	KNOWN	None	20593	None	None	42483459	42500505	-1	None	KIAA0770, VAM6
7	None	ENSG00000223829	ENST00000445615	lincRNA	KNOWN	None	None	None	None	47009300	47023027	1	None	None
7	None	ENSG00000223829	ENST00000423781	lincRNA	KNOWN	None	None	None	None	47009314	47067079	1	None	None
7	None	ENSG00000223829	ENST00000438639	retained_intron	KNOWN	None	None	None	None	47009319	47012290	1	None	None
19	ZNF77	ENSG00000175691	ENST00000314531	protein_coding	KNOWN	CCDS12099	13150	1638	545	2933216	2944931	-1	None	pT1
19	ZNF77	ENSG00000175691	ENST00000588050	processed_transcript	KNOWN	None	13150	None	None	2939388	2944969	-1	None	pT1
12	C12orf68	ENSG00000177875	ENST00000316554	protein_coding	KNOWN	CCDS31785	33749	585	194	48577366	48579709	1	None	LOC387856
X	VCX2	ENSG00000177504	ENST00000317103	protein_coding	KNOWN	CCDS35200	18158	420	139	8137989	8139308	-1	None	VCX-2r, VCX-2R
3	ADIPOQ	ENSG00000181092	ENST00000320741	protein_coding	KNOWN	CCDS3284	13633	735	244	186560479	186576252	1	ACDC	ACRP30, AdipoQ, apM1, GBP28, adiponectin
3	ADIPOQ	ENSG00000181092	ENST00000444204	protein_coding	KNOWN	CCDS3284	13633	735	244	186560493	186576252	1	ACDC	ACRP30, AdipoQ, apM1, GBP28, adiponectin
3	ADIPOQ	ENSG00000181092	ENST00000412955	protein_coding	KNOWN	CCDS3284	13633	735	244	186560463	186576252	1	ACDC	ACRP30, AdipoQ, apM1, GBP28, adiponectin
14	SYNDIG1L	ENSG00000183379	ENST00000554823	protein_coding	KNOWN	CCDS41970	32388	717	238	74872597	74876509	-1	TMEM90A	capucin, IFITMD4
14	SYNDIG1L	ENSG00000183379	ENST00000554953	protein_coding	KNOWN	None	32388	240	79	74876208	74892805	-1	TMEM90A	capucin, IFITMD4
14	SYNDIG1L	ENSG00000183379	ENST00000331628	protein_coding	KNOWN	CCDS41970	32388	717	238	74872596	74892805	-1	TMEM90A	capucin, IFITMD4
1	SYT14	ENSG00000143469	ENST00000367019	protein_coding	KNOWN	CCDS53470	23143	1725	574	210111576	210335568	1	None	sytXIV, FLJ34198
1	SYT14	ENSG00000143469	ENST00000472886	protein_coding	KNOWN	CCDS31014	23143	1668	555	210111596	210335671	1	None	sytXIV, FLJ34198
1	SYT14	ENSG00000143469	ENST00000271745	processed_transcript	KNOWN	None	23143	None	None	210126054	210337636	1	None	sytXIV, FLJ34198
1	SYT14	ENSG00000143469	ENST00000367015	protein_coding	KNOWN	CCDS58058	23143	1554	517	210126054	210337636	1	None	sytXIV, FLJ34198
1	SYT14	ENSG00000143469	ENST00000469604	processed_transcript	KNOWN	None	23143	None	None	210194391	210336312	1	None	sytXIV, FLJ34198
1	SYT14	ENSG00000143469	ENST00000422431	protein_coding	KNOWN	CCDS53469	23143	1860	619	210111538	210337631	1	None	sytXIV, FLJ34198
1	SYT14	ENSG00000143469	ENST00000534859	protein_coding	KNOWN	None	23143	1746	581	210111538	210337631	1	None	sytXIV, FLJ34198
1	SYT14	ENSG00000143469	ENST00000399639	protein_coding	KNOWN	None	23143	1377	458	210111538	210337631	1	None	sytXIV, FLJ34198
1	SYT14	ENSG00000143469	ENST00000537238	protein_coding	KNOWN	CCDS58058	23143	1554	517	210111538	210337631	1	None	sytXIV, FLJ34198
7	None	ENSG00000229192	ENST00000455078	processed_transcript	KNOWN	None	None	None	None	47040218	47118711	-1	None	None
7	None	ENSG00000229192	ENST00000412996	processed_transcript	KNOWN	None	None	None	None	47040219	47118726	-1	None	None
5	TIMD4	ENSG00000145850	ENST00000274532	protein_coding	KNOWN	CCDS4332	25132	1137	378	156346293	156390266	-1	None	None
5	TIMD4	ENSG00000145850	ENST00000406964	protein_coding	PUTATIVE	None	25132	243	80	156346366	156362687	-1	None	None
5	TIMD4	ENSG00000145850	ENST00000407087	protein_coding	NOVEL	CCDS54943	25132	1053	350	156346400	156390233	-1	None	None
X	VCX3B	ENSG00000205642	ENST00000381032	protein_coding	NOVEL	CCDS48077	31838	741	246	8432871	8434547	1	None	VCX-C
X	VCX3B	ENSG00000205642	ENST00000453306	protein_coding	KNOWN	None	31838	561	186	8432871	8434550	1	None	VCX-C
X	VCX3B	ENSG00000205642	ENST00000444481	protein_coding	KNOWN	None	31838	651	216	8432871	8434424	1	None	VCX-C
X	VCX3B	ENSG00000205642	ENST00000440654	protein_coding	KNOWN	None	31838	561	186	8433376	8434522	1	None	VCX-C
X	VCX3B	ENSG00000205642	ENST00000381029	protein_coding	KNOWN	None	31838	645	214	8433467	8434510	1	None	VCX-C
19	FAM32A	ENSG00000105058	ENST00000589852	protein_coding	PUTATIVE	None	24563	279	92	16296191	16302425	1	None	DKFZP586O0120
19	FAM32A	ENSG00000105058	ENST00000263384	protein_coding	KNOWN	CCDS12341	24563	339	112	16296229	16302857	1	None	DKFZP586O0120
19	FAM32A	ENSG00000105058	ENST00000588367	protein_coding	NOVEL	None	24563	285	94	16296234	16302259	1	None	DKFZP586O0120
19	FAM32A	ENSG00000105058	ENST00000585831	nonsense_mediated_decay	KNOWN	None	24563	324	107	16296244	16302189	1	None	DKFZP586O0120
19	FAM32A	ENSG00000105058	ENST00000587351	protein_coding	PUTATIVE	None	24563	249	82	16296266	16297460	1	None	DKFZP586O0120
1	SLC6A9	ENSG00000196517	ENST00000372307	protein_coding	PUTATIVE	None	11056	1725	574	44457172	44482228	-1	None	GLYT1
1	SLC6A9	ENSG00000196517	ENST00000372306	protein_coding	PUTATIVE	None	11056	1740	579	44457503	44497032	-1	None	GLYT1
1	SLC6A9	ENSG00000196517	ENST00000372310	protein_coding	KNOWN	CCDS30695	11056	1902	633	44462155	44497058	-1	None	GLYT1
1	SLC6A9	ENSG00000196517	ENST00000475075	protein_coding	PUTATIVE	None	11056	1569	522	44463115	44497058	-1	None	GLYT1
1	SLC6A9	ENSG00000196517	ENST00000360584	protein_coding	KNOWN	CCDS41317	11056	2121	706	44463200	44482997	-1	None	GLYT1
1	SLC6A9	ENSG00000196517	ENST00000357730	protein_coding	KNOWN	CCDS41316	11056	1959	652	44463200	44482997	-1	None	GLYT1
1	SLC6A9	ENSG00000196517	ENST00000492434	processed_transcript	KNOWN	None	11056	None	None	44474187	44497139	-1	None	GLYT1
1	SLC6A9	ENSG00000196517	ENST00000528803	protein_coding	KNOWN	None	11056	403	133	44474269	44483004	-1	None	GLYT1
1	SLC6A9	ENSG00000196517	ENST00000489764	retained_intron	KNOWN	None	11056	None	None	44475864	44497101	-1	None	GLYT1
1	SLC6A9	ENSG00000196517	ENST00000466926	protein_coding	NOVEL	None	11056	349	115	44476398	44497134	-1	None	GLYT1
1	SLC6A9	ENSG00000196517	ENST00000533007	processed_transcript	PUTATIVE	None	11056	None	None	44480302	44483012	-1	None	GLYT1
1	SLC6A9	ENSG00000196517	ENST00000537678	protein_coding	KNOWN	None	11056	1161	386	44466479	44497134	-1	None	GLYT1
4	FBXO8	ENSG00000164117	ENST00000393674	protein_coding	KNOWN	CCDS3820	13587	960	319	175157809	175205415	-1	None	FBX8, FBS
4	FBXO8	ENSG00000164117	ENST00000503293	protein_coding	NOVEL	None	13587	837	278	175158120	175204818	-1	None	FBX8, FBS
4	FBXO8	ENSG00000164117	ENST00000515664	nonsense_mediated_decay	KNOWN	None	13587	510	169	175158510	175204797	-1	None	FBX8, FBS
4	FBXO8	ENSG00000164117	ENST00000513696	protein_coding	KNOWN	None	13587	552	183	175162274	175204814	-1	None	FBX8, FBS
22	KLHDC7B	ENSG00000130487	ENST00000395676	protein_coding	KNOWN	CCDS14097	25145	1785	594	50986462	50989451	1	None	MGC16635
11	PRCP	ENSG00000137509	ENST00000313010	protein_coding	KNOWN	CCDS8262	9344	1491	496	82534544	82611639	-1	None	PCP, HUMPCP
11	PRCP	ENSG00000137509	ENST00000393399	protein_coding	KNOWN	CCDS41695	9344	1554	517	82535410	82611472	-1	None	PCP, HUMPCP
11	PRCP	ENSG00000137509	ENST00000532709	retained_intron	KNOWN	None	9344	None	None	82535415	82551885	-1	None	PCP, HUMPCP
11	PRCP	ENSG00000137509	ENST00000525772	processed_transcript	KNOWN	None	9344	None	None	82536027	82556848	-1	None	PCP, HUMPCP
11	PRCP	ENSG00000137509	ENST00000524642	processed_transcript	PUTATIVE	None	9344	None	None	82549429	82556764	-1	None	PCP, HUMPCP
11	PRCP	ENSG00000137509	ENST00000526918	processed_transcript	KNOWN	None	9344	None	None	82549490	82556776	-1	None	PCP, HUMPCP
11	PRCP	ENSG00000137509	ENST00000531283	processed_transcript	KNOWN	None	9344	None	None	82549545	82556864	-1	None	PCP, HUMPCP
11	PRCP	ENSG00000137509	ENST00000532476	processed_transcript	PUTATIVE	None	9344	None	None	82550324	82557221	-1	None	PCP, HUMPCP
11	PRCP	ENSG00000137509	ENST00000531801	protein_coding	PUTATIVE	None	9344	701	232	82550373	82612700	-1	None	PCP, HUMPCP
11	PRCP	ENSG00000137509	ENST00000534631	protein_coding	PUTATIVE	None	9344	578	191	82560119	82612699	-1	None	PCP, HUMPCP
11	PRCP	ENSG00000137509	ENST00000527444	protein_coding	PUTATIVE	None	9344	550	182	82560147	82612782	-1	None	PCP, HUMPCP
11	PRCP	ENSG00000137509	ENST00000531128	protein_coding	PUTATIVE	None	9344	443	146	82560254	82612731	-1	None	PCP, HUMPCP
11	PRCP	ENSG00000137509	ENST00000534396	protein_coding	PUTATIVE	None	9344	436	144	82560956	82681626	-1	None	PCP, HUMPCP
11	PRCP	ENSG00000137509	ENST00000529671	protein_coding	PUTATIVE	None	9344	491	162	82561093	82611988	-1	None	PCP, HUMPCP
11	PRCP	ENSG00000137509	ENST00000528082	protein_coding	PUTATIVE	None	9344	299	98	82561093	82612575	-1	None	PCP, HUMPCP
11	PRCP	ENSG00000137509	ENST00000532809	protein_coding	PUTATIVE	None	9344	349	115	82561448	82611874	-1	None	PCP, HUMPCP
11	PRCP	ENSG00000137509	ENST00000533126	protein_coding	PUTATIVE	None	9344	129	42	82561515	82612578	-1	None	PCP, HUMPCP
11	PRCP	ENSG00000137509	ENST00000534264	protein_coding	PUTATIVE	None	9344	79	25	82564236	82569813	-1	None	PCP, HUMPCP
11	PRCP	ENSG00000137509	ENST00000535099	protein_coding	KNOWN	None	9344	1176	391	82535832	82612733	-1	None	PCP, HUMPCP
17	COX11	ENSG00000166260	ENST00000576370	nonsense_mediated_decay	KNOWN	CCDS11583	2261	831	276	53029263	53046014	-1	None	COX11P
17	COX11	ENSG00000166260	ENST00000576084	retained_intron	KNOWN	None	2261	None	None	53029267	53031466	-1	None	COX11P
17	COX11	ENSG00000166260	ENST00000572088	retained_intron	KNOWN	None	2261	None	None	53029267	53032510	-1	None	COX11P
17	COX11	ENSG00000166260	ENST00000573912	processed_transcript	PUTATIVE	None	2261	None	None	53029267	53038626	-1	None	COX11P
17	COX11	ENSG00000166260	ENST00000572558	nonsense_mediated_decay	KNOWN	CCDS58579	2261	696	231	53029270	53046015	-1	None	COX11P
17	COX11	ENSG00000166260	ENST00000574821	nonsense_mediated_decay	KNOWN	None	2261	154	50	53029296	53040775	-1	None	COX11P
17	COX11	ENSG00000166260	ENST00000574989	processed_transcript	PUTATIVE	None	2261	None	None	53036562	53038500	-1	None	COX11P
17	COX11	ENSG00000166260	ENST00000299335	protein_coding	KNOWN	CCDS11583	2261	831	276	53038567	53046146	-1	None	COX11P
17	COX11	ENSG00000166260	ENST00000571584	protein_coding	PUTATIVE	None	2261	693	230	53040264	53046064	-1	None	COX11P
12	OR10AD1	ENSG00000172640	ENST00000310248	protein_coding	KNOWN	CCDS31787	14819	954	317	48596081	48597170	-1	OR10AD1P	None
12	None	ENSG00000269514	ENST00000595310	protein_coding	KNOWN	None	None	396	131	48592170	48595814	1	None	None
1	SERTAD4	ENSG00000082497	ENST00000367012	protein_coding	KNOWN	CCDS1494	25236	1071	356	210406144	210419600	1	None	DJ667H12.2
1	SERTAD4	ENSG00000082497	ENST00000490620	processed_transcript	KNOWN	None	25236	None	None	210410627	210415510	1	None	DJ667H12.2
1	SERTAD4	ENSG00000082497	ENST00000482421	processed_transcript	KNOWN	None	25236	None	None	210411288	210419973	1	None	DJ667H12.2
1	SERTAD4	ENSG00000082497	ENST00000483884	processed_transcript	KNOWN	None	25236	None	None	210411323	210419976	1	None	DJ667H12.2
4	MAPK10	ENSG00000109339	ENST00000395169	protein_coding	KNOWN	CCDS3612	6872	1281	426	86936276	87281269	-1	PRKM10	JNK3, p493F12, p54bSAPK
4	MAPK10	ENSG00000109339	ENST00000395157	protein_coding	PUTATIVE	None	6872	960	319	86937631	87028483	-1	PRKM10	JNK3, p493F12, p54bSAPK
4	MAPK10	ENSG00000109339	ENST00000359221	protein_coding	KNOWN	CCDS34026	6872	1395	464	86937631	87281216	-1	PRKM10	JNK3, p493F12, p54bSAPK
4	MAPK10	ENSG00000109339	ENST00000310816	nonsense_mediated_decay	KNOWN	None	6872	432	143	86937631	87374298	-1	PRKM10	JNK3, p493F12, p54bSAPK
4	MAPK10	ENSG00000109339	ENST00000361569	protein_coding	KNOWN	CCDS43247	6872	1269	422	86937632	87374283	-1	PRKM10	JNK3, p493F12, p54bSAPK
4	MAPK10	ENSG00000109339	ENST00000508262	retained_intron	KNOWN	None	6872	None	None	86937633	87020430	-1	PRKM10	JNK3, p493F12, p54bSAPK
4	MAPK10	ENSG00000109339	ENST00000395160	protein_coding	KNOWN	CCDS3613	6872	834	277	86937633	87028806	-1	PRKM10	JNK3, p493F12, p54bSAPK
4	MAPK10	ENSG00000109339	ENST00000395166	protein_coding	KNOWN	CCDS3612	6872	1281	426	86937633	87280023	-1	PRKM10	JNK3, p493F12, p54bSAPK
4	MAPK10	ENSG00000109339	ENST00000515400	protein_coding	NOVEL	None	6872	1006	334	86938187	87028478	-1	PRKM10	JNK3, p493F12, p54bSAPK
4	MAPK10	ENSG00000109339	ENST00000489368	processed_transcript	PUTATIVE	None	6872	None	None	86988977	87010702	-1	PRKM10	JNK3, p493F12, p54bSAPK
4	MAPK10	ENSG00000109339	ENST00000472236	processed_transcript	KNOWN	None	6872	None	None	87016288	87023075	-1	PRKM10	JNK3, p493F12, p54bSAPK
4	MAPK10	ENSG00000109339	ENST00000468020	processed_transcript	KNOWN	None	6872	None	None	87016579	87022367	-1	PRKM10	JNK3, p493F12, p54bSAPK
4	MAPK10	ENSG00000109339	ENST00000479377	processed_transcript	KNOWN	None	6872	None	None	87020317	87024397	-1	PRKM10	JNK3, p493F12, p54bSAPK
4	MAPK10	ENSG00000109339	ENST00000486985	processed_transcript	KNOWN	None	6872	None	None	87022275	87038932	-1	PRKM10	JNK3, p493F12, p54bSAPK
4	MAPK10	ENSG00000109339	ENST00000513839	processed_transcript	KNOWN	None	6872	None	None	87023095	87515263	-1	PRKM10	JNK3, p493F12, p54bSAPK
4	MAPK10	ENSG00000109339	ENST00000430389	retained_intron	KNOWN	None	6872	None	None	87024062	87028425	-1	PRKM10	JNK3, p493F12, p54bSAPK
4	MAPK10	ENSG00000109339	ENST00000512017	protein_coding	KNOWN	None	6872	423	140	87024341	87279284	-1	PRKM10	JNK3, p493F12, p54bSAPK
4	MAPK10	ENSG00000109339	ENST00000475679	retained_intron	KNOWN	None	6872	None	None	87027960	87038919	-1	PRKM10	JNK3, p493F12, p54bSAPK
4	MAPK10	ENSG00000109339	ENST00000512564	protein_coding	KNOWN	None	6872	252	83	87028376	87279283	-1	PRKM10	JNK3, p493F12, p54bSAPK
4	MAPK10	ENSG00000109339	ENST00000511167	protein_coding	KNOWN	None	6872	364	120	87028378	87279048	-1	PRKM10	JNK3, p493F12, p54bSAPK
4	MAPK10	ENSG00000109339	ENST00000511328	protein_coding	KNOWN	None	6872	352	116	87028390	87374333	-1	PRKM10	JNK3, p493F12, p54bSAPK
4	MAPK10	ENSG00000109339	ENST00000509464	protein_coding	KNOWN	None	6872	221	72	87028407	87278857	-1	PRKM10	JNK3, p493F12, p54bSAPK
4	MAPK10	ENSG00000109339	ENST00000506773	protein_coding	KNOWN	None	6872	274	90	87028468	87279527	-1	PRKM10	JNK3, p493F12, p54bSAPK
4	MAPK10	ENSG00000109339	ENST00000512689	protein_coding	KNOWN	None	6872	155	50	87028473	87279665	-1	PRKM10	JNK3, p493F12, p54bSAPK
4	MAPK10	ENSG00000109339	ENST00000502302	protein_coding	KNOWN	None	6872	100	32	87080473	87515263	-1	PRKM10	JNK3, p493F12, p54bSAPK
4	MAPK10	ENSG00000109339	ENST00000503911	protein_coding	KNOWN	None	6872	152	49	87080535	87374336	-1	PRKM10	JNK3, p493F12, p54bSAPK
4	MAPK10	ENSG00000109339	ENST00000513186	protein_coding	KNOWN	None	6872	146	47	87080541	87515284	-1	PRKM10	JNK3, p493F12, p54bSAPK
4	MAPK10	ENSG00000109339	ENST00000505356	processed_transcript	KNOWN	None	6872	None	None	87085599	87275797	-1	PRKM10	JNK3, p493F12, p54bSAPK
4	MAPK10	ENSG00000109339	ENST00000504397	processed_transcript	KNOWN	None	6872	None	None	87221733	87320959	-1	PRKM10	JNK3, p493F12, p54bSAPK
4	MAPK10	ENSG00000109339	ENST00000506385	processed_transcript	KNOWN	None	6872	None	None	87275681	87281177	-1	PRKM10	JNK3, p493F12, p54bSAPK
4	MAPK10	ENSG00000109339	ENST00000514856	processed_transcript	KNOWN	None	6872	None	None	87275683	87281377	-1	PRKM10	JNK3, p493F12, p54bSAPK
4	MAPK10	ENSG00000109339	ENST00000512046	processed_transcript	KNOWN	None	6872	None	None	87275721	87515272	-1	PRKM10	JNK3, p493F12, p54bSAPK
4	MAPK10	ENSG00000109339	ENST00000515650	processed_transcript	KNOWN	None	6872	None	None	87278020	87281229	-1	PRKM10	JNK3, p493F12, p54bSAPK
4	MAPK10	ENSG00000109339	ENST00000449047	protein_coding	KNOWN	None	6872	960	319	86937633	87292043	-1	PRKM10	JNK3, p493F12, p54bSAPK
4	MAPK10	ENSG00000109339	ENST00000395161	protein_coding	KNOWN	CCDS43247	6872	1269	422	86938512	87281375	-1	PRKM10	JNK3, p493F12, p54bSAPK
7	MRPL42P4	ENSG00000242552	ENST00000453267	processed_pseudogene	KNOWN	None	29713	None	None	47065726	47066168	-1	None	None
7	GIGYF1	ENSG00000146830	ENST00000275732	protein_coding	KNOWN	CCDS34708	9126	3108	1035	100277130	100287071	-1	PERQ1	GYF1
7	GIGYF1	ENSG00000146830	ENST00000472105	retained_intron	KNOWN	None	9126	None	None	100281502	100282214	-1	PERQ1	GYF1
7	GIGYF1	ENSG00000146830	ENST00000471340	processed_transcript	KNOWN	None	9126	None	None	100282461	100285861	-1	PERQ1	GYF1
7	GIGYF1	ENSG00000146830	ENST00000464111	retained_intron	KNOWN	None	9126	None	None	100283020	100284382	-1	PERQ1	GYF1
7	None	ENSG00000214754	ENST00000315132	processed_pseudogene	KNOWN	None	None	None	None	47092391	47093272	1	None	None
7	None	ENSG00000236078	ENST00000429010	lincRNA	KNOWN	None	None	None	None	47661537	47669491	1	None	None
1	KLF17	ENSG00000171872	ENST00000372299	protein_coding	KNOWN	CCDS508	18830	1170	389	44584522	44600812	1	ZNF393	Zfp393, FLJ40160
1	KLF17	ENSG00000171872	ENST00000476802	processed_transcript	KNOWN	None	18830	None	None	44584542	44596388	1	ZNF393	Zfp393, FLJ40160
6	TDGF1P4	ENSG00000217566	ENST00000401555	processed_pseudogene	KNOWN	None	11704	None	None	3941516	3942035	1	TDGF4	CR-4, CRIPTO-4
12	TENC1	ENSG00000111077	ENST00000379902	protein_coding	KNOWN	CCDS8844	19737	3858	1285	53440753	53458153	1	None	KIAA1075, C1-TEN, TNS2
12	TENC1	ENSG00000111077	ENST00000314276	protein_coding	KNOWN	CCDS8842	19737	4260	1419	53442733	53458155	1	None	KIAA1075, C1-TEN, TNS2
12	TENC1	ENSG00000111077	ENST00000549498	retained_intron	KNOWN	None	19737	None	None	53442973	53450161	1	None	KIAA1075, C1-TEN, TNS2
12	TENC1	ENSG00000111077	ENST00000551302	retained_intron	KNOWN	None	19737	None	None	53442992	53446156	1	None	KIAA1075, C1-TEN, TNS2
12	TENC1	ENSG00000111077	ENST00000314250	protein_coding	KNOWN	CCDS8843	19737	4230	1409	53443680	53458156	1	None	KIAA1075, C1-TEN, TNS2
12	TENC1	ENSG00000111077	ENST00000552403	retained_intron	KNOWN	None	19737	None	None	53443816	53447394	1	None	KIAA1075, C1-TEN, TNS2
12	TENC1	ENSG00000111077	ENST00000549311	retained_intron	KNOWN	None	19737	None	None	53443835	53458156	1	None	KIAA1075, C1-TEN, TNS2
12	TENC1	ENSG00000111077	ENST00000546602	protein_coding	NOVEL	None	19737	3939	1312	53443970	53458156	1	None	KIAA1075, C1-TEN, TNS2
12	TENC1	ENSG00000111077	ENST00000552570	protein_coding	NOVEL	None	19737	4224	1407	53443970	53458156	1	None	KIAA1075, C1-TEN, TNS2
12	TENC1	ENSG00000111077	ENST00000549700	protein_coding	NOVEL	None	19737	4035	1344	53443970	53458156	1	None	KIAA1075, C1-TEN, TNS2
12	TENC1	ENSG00000111077	ENST00000551693	retained_intron	KNOWN	None	19737	None	None	53447811	53449590	1	None	KIAA1075, C1-TEN, TNS2
12	TENC1	ENSG00000111077	ENST00000549789	retained_intron	KNOWN	None	19737	None	None	53451530	53452178	1	None	KIAA1075, C1-TEN, TNS2
12	TENC1	ENSG00000111077	ENST00000547223	retained_intron	KNOWN	None	19737	None	None	53451712	53452526	1	None	KIAA1075, C1-TEN, TNS2
12	TENC1	ENSG00000111077	ENST00000602335	protein_coding	PUTATIVE	None	19737	590	195	53451858	53453054	1	None	KIAA1075, C1-TEN, TNS2
12	TENC1	ENSG00000111077	ENST00000546759	retained_intron	KNOWN	None	19737	None	None	53452330	53453166	1	None	KIAA1075, C1-TEN, TNS2
12	TENC1	ENSG00000111077	ENST00000551583	retained_intron	KNOWN	None	19737	None	None	53454129	53454772	1	None	KIAA1075, C1-TEN, TNS2
12	TENC1	ENSG00000111077	ENST00000546772	nonsense_mediated_decay	KNOWN	None	19737	103	33	53454334	53455679	1	None	KIAA1075, C1-TEN, TNS2
12	TENC1	ENSG00000111077	ENST00000550660	retained_intron	KNOWN	None	19737	None	None	53455458	53457020	1	None	KIAA1075, C1-TEN, TNS2
12	TENC1	ENSG00000111077	ENST00000552168	retained_intron	KNOWN	None	19737	None	None	53455496	53458096	1	None	KIAA1075, C1-TEN, TNS2
12	TENC1	ENSG00000111077	ENST00000550048	retained_intron	KNOWN	None	19737	None	None	53456684	53457295	1	None	KIAA1075, C1-TEN, TNS2
12	TENC1	ENSG00000111077	ENST00000451358	protein_coding	KNOWN	None	19737	4200	1399	53443680	53458155	1	None	KIAA1075, C1-TEN, TNS2
6	None	ENSG00000216657	ENST00000405027	processed_pseudogene	KNOWN	None	None	None	None	3978296	3979333	1	None	None
19	C19orf57	ENSG00000132016	ENST00000588115	protein_coding	NOVEL	None	28153	264	87	13993161	13999193	-1	None	MGC11271
19	C19orf57	ENSG00000132016	ENST00000586783	protein_coding	NOVEL	None	28153	2007	668	13993168	14015705	-1	None	MGC11271
19	C19orf57	ENSG00000132016	ENST00000346736	protein_coding	KNOWN	CCDS12299	28153	1914	637	13993168	14016978	-1	None	MGC11271
19	C19orf57	ENSG00000132016	ENST00000591586	protein_coding	NOVEL	None	28153	732	243	13993202	14016920	-1	None	MGC11271
19	C19orf57	ENSG00000132016	ENST00000586500	retained_intron	KNOWN	None	28153	None	None	13993414	13994413	-1	None	MGC11271
19	C19orf57	ENSG00000132016	ENST00000591439	protein_coding	PUTATIVE	None	28153	420	139	13995748	14000249	-1	None	MGC11271
19	C19orf57	ENSG00000132016	ENST00000589393	protein_coding	NOVEL	None	28153	886	294	13996083	14000754	-1	None	MGC11271
19	C19orf57	ENSG00000132016	ENST00000585755	protein_coding	PUTATIVE	None	28153	75	24	14003993	14017265	-1	None	MGC11271
19	C19orf57	ENSG00000132016	ENST00000454313	protein_coding	KNOWN	None	28153	2007	668	13993168	14016909	-1	None	MGC11271
17	LRRC3C	ENSG00000204913	ENST00000377924	protein_coding	KNOWN	CCDS54121	40034	828	275	38097727	38101000	1	None	None
7	POP7	ENSG00000172336	ENST00000303151	protein_coding	KNOWN	CCDS5704	19949	423	140	100303676	100305118	1	None	RPP20, RPP2
7	POP7	ENSG00000172336	ENST00000457480	protein_coding	KNOWN	None	19949	412	136	100303959	100304865	1	None	RPP20, RPP2
7	PRKAR1B	ENSG00000188191	ENST00000406797	protein_coding	KNOWN	CCDS34579	9390	1146	381	588835	752844	-1	None	None
7	PRKAR1B	ENSG00000188191	ENST00000403562	protein_coding	KNOWN	CCDS34579	9390	1146	381	589379	767287	-1	None	None
7	PRKAR1B	ENSG00000188191	ENST00000360274	protein_coding	KNOWN	CCDS34579	9390	1146	381	589387	752209	-1	None	None
7	PRKAR1B	ENSG00000188191	ENST00000400758	protein_coding	NOVEL	None	9390	728	241	589907	642320	-1	None	None
7	PRKAR1B	ENSG00000188191	ENST00000430040	protein_coding	KNOWN	None	9390	891	296	618893	752577	-1	None	None
7	PRKAR1B	ENSG00000188191	ENST00000414568	protein_coding	PUTATIVE	None	9390	509	168	635817	731431	-1	None	None
7	PRKAR1B	ENSG00000188191	ENST00000417852	protein_coding	KNOWN	None	9390	497	164	647033	766978	-1	None	None
7	PRKAR1B	ENSG00000188191	ENST00000456696	protein_coding	KNOWN	None	9390	348	115	720193	752706	-1	None	None
7	PRKAR1B	ENSG00000188191	ENST00000488474	processed_transcript	KNOWN	None	9390	None	None	736350	766874	-1	None	None
7	PRKAR1B	ENSG00000188191	ENST00000478198	processed_transcript	KNOWN	None	9390	None	None	756256	766614	-1	None	None
7	PRKAR1B	ENSG00000188191	ENST00000537384	protein_coding	KNOWN	CCDS34579	9390	1146	381	588834	766978	-1	None	None
7	PRKAR1B	ENSG00000188191	ENST00000544935	protein_coding	KNOWN	CCDS34579	9390	1146	381	588834	752577	-1	None	None
6	None	ENSG00000272248	ENST00000606564	lincRNA	KNOWN	None	None	None	None	4018947	4019436	1	None	None
10	PIK3AP1	ENSG00000155629	ENST00000339364	protein_coding	KNOWN	CCDS31259	30034	2418	805	98353069	98480271	-1	None	BCAP, FLJ35564
10	PIK3AP1	ENSG00000155629	ENST00000371110	protein_coding	KNOWN	None	30034	1884	627	98354252	98429368	-1	None	BCAP, FLJ35564
10	PIK3AP1	ENSG00000155629	ENST00000371109	protein_coding	KNOWN	None	30034	1215	404	98354965	98392998	-1	None	BCAP, FLJ35564
10	PIK3AP1	ENSG00000155629	ENST00000467625	processed_transcript	KNOWN	None	30034	None	None	98355322	98378545	-1	None	BCAP, FLJ35564
10	PIK3AP1	ENSG00000155629	ENST00000489982	processed_transcript	KNOWN	None	30034	None	None	98363497	98380168	-1	None	BCAP, FLJ35564
10	PIK3AP1	ENSG00000155629	ENST00000468783	processed_transcript	KNOWN	None	30034	None	None	98388155	98460635	-1	None	BCAP, FLJ35564
16	SLC7A6	ENSG00000103064	ENST00000219343	protein_coding	KNOWN	CCDS32470	11064	1548	515	68298433	68335722	1	None	y+LAT-2, KIAA0245, LAT3, LAT-2
16	SLC7A6	ENSG00000103064	ENST00000379152	nonsense_mediated_decay	KNOWN	None	11064	690	229	68298451	68335722	1	None	y+LAT-2, KIAA0245, LAT3, LAT-2
16	SLC7A6	ENSG00000103064	ENST00000566834	protein_coding	NOVEL	None	11064	294	97	68298453	68321246	1	None	y+LAT-2, KIAA0245, LAT3, LAT-2
16	SLC7A6	ENSG00000103064	ENST00000566454	protein_coding	KNOWN	CCDS32470	11064	1548	515	68298463	68335722	1	None	y+LAT-2, KIAA0245, LAT3, LAT-2
16	SLC7A6	ENSG00000103064	ENST00000568088	protein_coding	KNOWN	None	11064	85	27	68298472	68308714	1	None	y+LAT-2, KIAA0245, LAT3, LAT-2
16	SLC7A6	ENSG00000103064	ENST00000564708	protein_coding	KNOWN	None	11064	222	73	68298485	68308851	1	None	y+LAT-2, KIAA0245, LAT3, LAT-2
16	SLC7A6	ENSG00000103064	ENST00000562727	protein_coding	KNOWN	None	11064	72	23	68299419	68308701	1	None	y+LAT-2, KIAA0245, LAT3, LAT-2
16	SLC7A6	ENSG00000103064	ENST00000563080	nonsense_mediated_decay	KNOWN	None	11064	645	214	68300494	68325561	1	None	y+LAT-2, KIAA0245, LAT3, LAT-2
16	SLC7A6	ENSG00000103064	ENST00000563146	protein_coding	KNOWN	None	11064	275	90	68300505	68308904	1	None	y+LAT-2, KIAA0245, LAT3, LAT-2
16	SLC7A6	ENSG00000103064	ENST00000568024	protein_coding	KNOWN	None	11064	369	122	68306882	68308998	1	None	y+LAT-2, KIAA0245, LAT3, LAT-2
16	SLC7A6	ENSG00000103064	ENST00000566579	nonsense_mediated_decay	KNOWN	None	11064	383	126	68308772	68325481	1	None	y+LAT-2, KIAA0245, LAT3, LAT-2
16	SLC7A6	ENSG00000103064	ENST00000567346	nonsense_mediated_decay	KNOWN	None	11064	153	50	68321663	68328810	1	None	y+LAT-2, KIAA0245, LAT3, LAT-2
16	SLC7A6	ENSG00000103064	ENST00000563208	retained_intron	KNOWN	None	11064	None	None	68324865	68328704	1	None	y+LAT-2, KIAA0245, LAT3, LAT-2
16	SLC7A6	ENSG00000103064	ENST00000562863	retained_intron	KNOWN	None	11064	None	None	68325189	68328650	1	None	y+LAT-2, KIAA0245, LAT3, LAT-2
16	SLC7A6	ENSG00000103064	ENST00000567325	retained_intron	KNOWN	None	11064	None	None	68328581	68331336	1	None	y+LAT-2, KIAA0245, LAT3, LAT-2
7	EPO	ENSG00000130427	ENST00000252723	protein_coding	KNOWN	CCDS5705	3415	582	193	100318423	100321323	1	None	EP
1	ARNT	ENSG00000143437	ENST00000358595	protein_coding	KNOWN	CCDS970	700	2370	789	150782181	150849244	-1	None	HIF-1beta, bHLHe2
1	ARNT	ENSG00000143437	ENST00000471844	nonsense_mediated_decay	KNOWN	None	700	1251	416	150782570	150849181	-1	None	HIF-1beta, bHLHe2
1	ARNT	ENSG00000143437	ENST00000354396	protein_coding	NOVEL	None	700	2364	787	150783335	150849055	-1	None	HIF-1beta, bHLHe2
1	ARNT	ENSG00000143437	ENST00000515192	protein_coding	KNOWN	None	700	2328	775	150784157	150849184	-1	None	HIF-1beta, bHLHe2
1	ARNT	ENSG00000143437	ENST00000505755	protein_coding	KNOWN	CCDS971	700	2325	774	150784437	150849085	-1	None	HIF-1beta, bHLHe2
1	ARNT	ENSG00000143437	ENST00000510273	retained_intron	KNOWN	None	700	None	None	150789870	150790917	-1	None	HIF-1beta, bHLHe2
1	ARNT	ENSG00000143437	ENST00000478972	retained_intron	KNOWN	None	700	None	None	150801586	150802858	-1	None	HIF-1beta, bHLHe2
1	ARNT	ENSG00000143437	ENST00000512296	retained_intron	KNOWN	None	700	None	None	150802385	150807339	-1	None	HIF-1beta, bHLHe2
1	ARNT	ENSG00000143437	ENST00000468970	processed_transcript	KNOWN	None	700	None	None	150803962	150808975	-1	None	HIF-1beta, bHLHe2
1	ARNT	ENSG00000143437	ENST00000497108	processed_transcript	KNOWN	None	700	None	None	150808900	150849044	-1	None	HIF-1beta, bHLHe2
1	ARNT	ENSG00000143437	ENST00000505979	retained_intron	KNOWN	None	700	None	None	150811875	150849085	-1	None	HIF-1beta, bHLHe2
1	ARNT	ENSG00000143437	ENST00000504358	nonsense_mediated_decay	KNOWN	None	700	168	55	150812084	150849172	-1	None	HIF-1beta, bHLHe2
4	ADD1	ENSG00000087274	ENST00000508684	retained_intron	KNOWN	None	243	None	None	2845584	2902040	1	None	None
4	ADD1	ENSG00000087274	ENST00000510101	nonsense_mediated_decay	KNOWN	None	243	210	69	2845599	2896411	1	None	None
4	ADD1	ENSG00000087274	ENST00000511797	protein_coding	KNOWN	None	243	413	136	2845672	2886296	1	None	None
4	ADD1	ENSG00000087274	ENST00000539108	processed_transcript	KNOWN	None	243	None	None	2845680	2856677	1	None	None
4	ADD1	ENSG00000087274	ENST00000513328	protein_coding	NOVEL	None	243	1899	632	2845700	2931034	1	None	None
4	ADD1	ENSG00000087274	ENST00000509039	retained_intron	KNOWN	None	243	None	None	2845706	2901504	1	None	None
4	ADD1	ENSG00000087274	ENST00000508277	protein_coding	NOVEL	None	243	428	141	2845709	2896460	1	None	None
4	ADD1	ENSG00000087274	ENST00000503455	protein_coding	NOVEL	None	243	1992	663	2845714	2931054	1	None	None
4	ADD1	ENSG00000087274	ENST00000540541	retained_intron	KNOWN	None	243	None	None	2845716	2878132	1	None	None
4	ADD1	ENSG00000087274	ENST00000355842	protein_coding	NOVEL	None	243	1989	662	2845877	2931789	1	None	None
4	ADD1	ENSG00000087274	ENST00000374281	processed_transcript	KNOWN	None	243	None	None	2854861	2869822	1	None	None
4	ADD1	ENSG00000087274	ENST00000503169	retained_intron	KNOWN	None	243	None	None	2869602	2907448	1	None	None
4	ADD1	ENSG00000087274	ENST00000398123	protein_coding	KNOWN	CCDS3364	243	1989	662	2877623	2930250	1	None	None
4	ADD1	ENSG00000087274	ENST00000398129	protein_coding	KNOWN	CCDS43205	243	2214	737	2877623	2931803	1	None	None
4	ADD1	ENSG00000087274	ENST00000534870	retained_intron	KNOWN	None	243	None	None	2883327	2896409	1	None	None
4	ADD1	ENSG00000087274	ENST00000506157	retained_intron	KNOWN	None	243	None	None	2889231	2904641	1	None	None
4	ADD1	ENSG00000087274	ENST00000514940	protein_coding	KNOWN	None	243	1332	443	2900158	2930158	1	None	None
4	ADD1	ENSG00000087274	ENST00000536078	retained_intron	KNOWN	None	243	None	None	2906391	2909540	1	None	None
4	ADD1	ENSG00000087274	ENST00000541051	retained_intron	KNOWN	None	243	None	None	2908931	2927827	1	None	None
4	ADD1	ENSG00000087274	ENST00000513762	retained_intron	KNOWN	None	243	None	None	2909104	2931803	1	None	None
4	ADD1	ENSG00000087274	ENST00000536424	protein_coding	PUTATIVE	None	243	318	105	2909557	2930287	1	None	None
4	ADD1	ENSG00000087274	ENST00000539149	retained_intron	KNOWN	None	243	None	None	2916432	2927864	1	None	None
4	ADD1	ENSG00000087274	ENST00000541843	protein_coding	PUTATIVE	None	243	344	113	2916669	2930073	1	None	None
4	ADD1	ENSG00000087274	ENST00000503062	retained_intron	KNOWN	None	243	None	None	2928036	2930018	1	None	None
4	ADD1	ENSG00000087274	ENST00000538860	processed_transcript	KNOWN	None	243	None	None	2930330	2931789	1	None	None
4	ADD1	ENSG00000087274	ENST00000264758	protein_coding	KNOWN	CCDS3363	243	2307	768	2845584	2931787	1	None	None
4	ADD1	ENSG00000087274	ENST00000446856	protein_coding	KNOWN	CCDS43205	243	2214	737	2845584	2931787	1	None	None
4	ADD1	ENSG00000087274	ENST00000398125	protein_coding	KNOWN	CCDS3364	243	1989	662	2845584	2931789	1	None	None
X	ZNF182	ENSG00000147118	ENST00000376943	protein_coding	NOVEL	CCDS35235	13001	1863	620	47834250	47863354	-1	ZNF21	KOX14, HHZ150, Zfp182
X	ZNF182	ENSG00000147118	ENST00000396965	protein_coding	KNOWN	CCDS35236	13001	1920	639	47834251	47863377	-1	ZNF21	KOX14, HHZ150, Zfp182
X	ZNF182	ENSG00000147118	ENST00000305127	protein_coding	KNOWN	CCDS35236	13001	1920	639	47834259	47863377	-1	ZNF21	KOX14, HHZ150, Zfp182
9	TMEM141	ENSG00000244187	ENST00000290079	protein_coding	KNOWN	CCDS7007	28211	327	108	139685807	139687709	1	None	MGC14141
9	TMEM141	ENSG00000244187	ENST00000465017	processed_transcript	KNOWN	None	28211	None	None	139685820	139687708	1	None	MGC14141
9	TMEM141	ENSG00000244187	ENST00000483187	processed_transcript	KNOWN	None	28211	None	None	139685824	139687708	1	None	MGC14141
9	TMEM141	ENSG00000244187	ENST00000479737	retained_intron	KNOWN	None	28211	None	None	139685831	139687354	1	None	MGC14141
9	TMEM141	ENSG00000244187	ENST00000456614	processed_transcript	KNOWN	None	28211	None	None	139685831	139695010	1	None	MGC14141
9	TMEM141	ENSG00000244187	ENST00000484854	retained_intron	KNOWN	None	28211	None	None	139685843	139686798	1	None	MGC14141
9	TMEM141	ENSG00000244187	ENST00000489739	retained_intron	KNOWN	None	28211	None	None	139685856	139687321	1	None	MGC14141
3	ST6GAL1	ENSG00000073849	ENST00000169298	protein_coding	KNOWN	CCDS3285	10860	1221	406	186648274	186796341	1	SIAT1	None
3	ST6GAL1	ENSG00000073849	ENST00000463542	processed_transcript	PUTATIVE	None	10860	None	None	186648291	186681675	1	SIAT1	None
3	ST6GAL1	ENSG00000073849	ENST00000487031	processed_transcript	PUTATIVE	None	10860	None	None	186648315	186681600	1	SIAT1	None
3	ST6GAL1	ENSG00000073849	ENST00000455441	protein_coding	PUTATIVE	None	10860	65	20	186648321	186790689	1	SIAT1	None
3	ST6GAL1	ENSG00000073849	ENST00000427315	protein_coding	PUTATIVE	None	10860	157	51	186648323	186791992	1	SIAT1	None
3	ST6GAL1	ENSG00000073849	ENST00000468614	retained_intron	KNOWN	None	10860	None	None	186648562	186682152	1	SIAT1	None
3	ST6GAL1	ENSG00000073849	ENST00000458216	protein_coding	KNOWN	None	10860	77	24	186648568	186760568	1	SIAT1	None
3	ST6GAL1	ENSG00000073849	ENST00000430309	protein_coding	KNOWN	None	10860	128	41	186648876	186760619	1	SIAT1	None
3	ST6GAL1	ENSG00000073849	ENST00000417392	protein_coding	KNOWN	None	10860	340	112	186649141	186760831	1	SIAT1	None
3	ST6GAL1	ENSG00000073849	ENST00000438590	protein_coding	KNOWN	None	10860	292	96	186692745	186760783	1	SIAT1	None
3	ST6GAL1	ENSG00000073849	ENST00000448408	protein_coding	KNOWN	None	10860	295	97	186704104	186760786	1	SIAT1	None
3	ST6GAL1	ENSG00000073849	ENST00000485105	processed_transcript	PUTATIVE	None	10860	None	None	186714410	186724339	1	SIAT1	None
3	ST6GAL1	ENSG00000073849	ENST00000440338	protein_coding	KNOWN	None	10860	136	44	186739643	186760627	1	SIAT1	None
3	ST6GAL1	ENSG00000073849	ENST00000448044	protein_coding	KNOWN	CCDS3285	10860	1221	406	186739644	186796341	1	SIAT1	None
3	ST6GAL1	ENSG00000073849	ENST00000416235	protein_coding	KNOWN	None	10860	224	73	186742476	186760715	1	SIAT1	None
3	ST6GAL1	ENSG00000073849	ENST00000423451	protein_coding	KNOWN	None	10860	381	126	186743267	186760872	1	SIAT1	None
3	ST6GAL1	ENSG00000073849	ENST00000446170	protein_coding	KNOWN	None	10860	274	90	186743271	186760765	1	SIAT1	None
3	ST6GAL1	ENSG00000073849	ENST00000448449	nonsense_mediated_decay	KNOWN	None	10860	537	178	186760804	186793640	1	SIAT1	None
3	ST6GAL1	ENSG00000073849	ENST00000464827	retained_intron	KNOWN	None	10860	None	None	186760896	186769327	1	SIAT1	None
3	ST6GAL1	ENSG00000073849	ENST00000442023	protein_coding	PUTATIVE	None	10860	347	114	186761531	186793410	1	SIAT1	None
3	ST6GAL1	ENSG00000073849	ENST00000470633	retained_intron	KNOWN	None	10860	None	None	186789762	186796339	1	SIAT1	None
3	ST6GAL1	ENSG00000073849	ENST00000457772	protein_coding	KNOWN	CCDS46973	10860	528	175	186648315	186796341	1	SIAT1	None
11	TAF10	ENSG00000166337	ENST00000526743	retained_intron	KNOWN	None	11543	None	None	6627526	6633179	-1	TAF2H, TAF2A	TAFII30
11	TAF10	ENSG00000166337	ENST00000299424	protein_coding	KNOWN	CCDS7769	11543	657	218	6632073	6633898	-1	TAF2H, TAF2A	TAFII30
11	TAF10	ENSG00000166337	ENST00000527248	processed_transcript	KNOWN	None	11543	None	None	6632076	6633372	-1	TAF2H, TAF2A	TAFII30
11	TAF10	ENSG00000166337	ENST00000531760	processed_transcript	KNOWN	None	11543	None	None	6632419	6633770	-1	TAF2H, TAF2A	TAFII30
11	TAF10	ENSG00000166337	ENST00000532344	retained_intron	KNOWN	None	11543	None	None	6632632	6633408	-1	TAF2H, TAF2A	TAFII30
14	C14orf119	ENSG00000179933	ENST00000319074	protein_coding	KNOWN	CCDS9588	20270	423	140	23563974	23569665	1	None	FLJ20671
14	C14orf119	ENSG00000179933	ENST00000554203	protein_coding	KNOWN	CCDS9588	20270	423	140	23564734	23567480	1	None	FLJ20671
15	PSTPIP1	ENSG00000140368	ENST00000558407	protein_coding	PUTATIVE	None	9580	527	174	77285700	77317923	1	None	PSTPIP, CD2BP1L, CD2BP1, CD2BP1S, H-PIP, PAPAS
15	PSTPIP1	ENSG00000140368	ENST00000559785	nonsense_mediated_decay	KNOWN	None	9580	1254	417	77287021	77329642	1	None	PSTPIP, CD2BP1L, CD2BP1, CD2BP1S, H-PIP, PAPAS
15	PSTPIP1	ENSG00000140368	ENST00000558012	protein_coding	KNOWN	CCDS45312	9580	1251	416	77287426	77329673	1	None	PSTPIP, CD2BP1L, CD2BP1, CD2BP1S, H-PIP, PAPAS
15	PSTPIP1	ENSG00000140368	ENST00000560223	nonsense_mediated_decay	KNOWN	None	9580	117	38	77287463	77329557	1	None	PSTPIP, CD2BP1L, CD2BP1, CD2BP1S, H-PIP, PAPAS
15	PSTPIP1	ENSG00000140368	ENST00000559795	retained_intron	KNOWN	None	9580	None	None	77287467	77316768	1	None	PSTPIP, CD2BP1L, CD2BP1, CD2BP1S, H-PIP, PAPAS
15	PSTPIP1	ENSG00000140368	ENST00000379595	protein_coding	NOVEL	None	9580	1242	413	77287472	77329672	1	None	PSTPIP, CD2BP1L, CD2BP1, CD2BP1S, H-PIP, PAPAS
15	PSTPIP1	ENSG00000140368	ENST00000559750	nonsense_mediated_decay	KNOWN	None	9580	411	136	77287513	77324102	1	None	PSTPIP, CD2BP1L, CD2BP1, CD2BP1S, H-PIP, PAPAS
15	PSTPIP1	ENSG00000140368	ENST00000560621	processed_transcript	KNOWN	None	9580	None	None	77287703	77317659	1	None	PSTPIP, CD2BP1L, CD2BP1, CD2BP1S, H-PIP, PAPAS
15	PSTPIP1	ENSG00000140368	ENST00000560377	retained_intron	KNOWN	None	9580	None	None	77287726	77325204	1	None	PSTPIP, CD2BP1L, CD2BP1, CD2BP1S, H-PIP, PAPAS
15	PSTPIP1	ENSG00000140368	ENST00000560796	nonsense_mediated_decay	KNOWN	None	9580	306	101	77287753	77321897	1	None	PSTPIP, CD2BP1L, CD2BP1, CD2BP1S, H-PIP, PAPAS
15	PSTPIP1	ENSG00000140368	ENST00000559161	protein_coding	NOVEL	None	9580	626	207	77287760	77322915	1	None	PSTPIP, CD2BP1L, CD2BP1, CD2BP1S, H-PIP, PAPAS
15	PSTPIP1	ENSG00000140368	ENST00000559295	protein_coding	NOVEL	None	9580	1194	397	77287915	77329672	1	None	PSTPIP, CD2BP1L, CD2BP1, CD2BP1S, H-PIP, PAPAS
15	PSTPIP1	ENSG00000140368	ENST00000559859	protein_coding	PUTATIVE	None	9580	435	144	77308152	77320939	1	None	PSTPIP, CD2BP1L, CD2BP1, CD2BP1S, H-PIP, PAPAS
15	PSTPIP1	ENSG00000140368	ENST00000559856	protein_coding	PUTATIVE	None	9580	756	251	77310799	77324734	1	None	PSTPIP, CD2BP1L, CD2BP1, CD2BP1S, H-PIP, PAPAS
15	PSTPIP1	ENSG00000140368	ENST00000561315	retained_intron	KNOWN	None	9580	None	None	77320066	77323667	1	None	PSTPIP, CD2BP1L, CD2BP1, CD2BP1S, H-PIP, PAPAS
15	PSTPIP1	ENSG00000140368	ENST00000557995	processed_transcript	KNOWN	None	9580	None	None	77320684	77329654	1	None	PSTPIP, CD2BP1L, CD2BP1, CD2BP1S, H-PIP, PAPAS
15	PSTPIP1	ENSG00000140368	ENST00000558870	protein_coding	PUTATIVE	None	9580	400	132	77324658	77329673	1	None	PSTPIP, CD2BP1L, CD2BP1, CD2BP1S, H-PIP, PAPAS
15	PSTPIP1	ENSG00000140368	ENST00000560064	retained_intron	KNOWN	None	9580	None	None	77328035	77329673	1	None	PSTPIP, CD2BP1L, CD2BP1, CD2BP1S, H-PIP, PAPAS
15	PSTPIP1	ENSG00000140368	ENST00000267939	protein_coding	KNOWN	None	9580	1191	396	77287465	77329671	1	None	PSTPIP, CD2BP1L, CD2BP1, CD2BP1S, H-PIP, PAPAS
14	CEBPE	ENSG00000092067	ENST00000206513	protein_coding	KNOWN	CCDS9589	1836	846	281	23586513	23588825	-1	None	CRP1
12	H1FNT	ENSG00000187166	ENST00000335017	protein_coding	KNOWN	CCDS8762	24893	768	255	48722763	48724062	1	None	HANP1, H1T2
4	SCOC	ENSG00000153130	ENST00000394205	protein_coding	KNOWN	CCDS3750	20335	369	122	141178440	141303710	1	None	HRIHFB2072, SCOCO
4	SCOC	ENSG00000153130	ENST00000338517	protein_coding	KNOWN	CCDS3750	20335	369	122	141264597	141303708	1	None	HRIHFB2072, SCOCO
4	SCOC	ENSG00000153130	ENST00000506322	protein_coding	PUTATIVE	None	20335	249	82	141264755	141302434	1	None	HRIHFB2072, SCOCO
4	SCOC	ENSG00000153130	ENST00000512749	protein_coding	PUTATIVE	None	20335	249	82	141294628	141302729	1	None	HRIHFB2072, SCOCO
4	SCOC	ENSG00000153130	ENST00000394201	protein_coding	KNOWN	CCDS54806	20335	480	159	141294664	141303708	1	None	HRIHFB2072, SCOCO
4	SCOC	ENSG00000153130	ENST00000506597	protein_coding	NOVEL	CCDS54807	20335	396	131	141294690	141303699	1	None	HRIHFB2072, SCOCO
4	SCOC	ENSG00000153130	ENST00000510586	nonsense_mediated_decay	KNOWN	None	20335	368	121	141294803	141303703	1	None	HRIHFB2072, SCOCO
4	SCOC	ENSG00000153130	ENST00000502535	protein_coding	PUTATIVE	None	20335	249	82	141297575	141302280	1	None	HRIHFB2072, SCOCO
4	SCOC	ENSG00000153130	ENST00000394203	protein_coding	KNOWN	CCDS3750	20335	369	122	141264615	141303710	1	None	HRIHFB2072, SCOCO
6	MICA	ENSG00000204520	ENST00000449934	protein_coding	KNOWN	CCDS56412	7090	999	332	31371356	31383092	1	None	PERB11.1
6	MICA	ENSG00000204520	ENST00000421350	protein_coding	NOVEL	None	7090	672	223	31371449	31383092	1	None	PERB11.1
19	PRKCG	ENSG00000126583	ENST00000479081	protein_coding	PUTATIVE	None	9402	58	18	54382444	54393184	1	PKCG, SCA14	PKCC, MGC57564
19	PRKCG	ENSG00000126583	ENST00000474397	protein_coding	PUTATIVE	None	9402	299	98	54385038	54395081	1	PKCG, SCA14	PKCC, MGC57564
19	PRKCG	ENSG00000126583	ENST00000263431	protein_coding	KNOWN	CCDS12867	9402	2094	697	54385467	54410906	1	PKCG, SCA14	PKCC, MGC57564
19	PRKCG	ENSG00000126583	ENST00000419486	protein_coding	PUTATIVE	None	9402	107	34	54385483	54393233	1	PKCG, SCA14	PKCC, MGC57564
19	PRKCG	ENSG00000126583	ENST00000540413	protein_coding	KNOWN	None	9402	2133	710	54385454	54410441	1	PKCG, SCA14	PKCC, MGC57564
19	PRKCG	ENSG00000126583	ENST00000536044	protein_coding	KNOWN	None	9402	984	327	54385453	54401797	1	PKCG, SCA14	PKCC, MGC57564
19	PRKCG	ENSG00000126583	ENST00000542049	protein_coding	KNOWN	None	9402	1647	548	54386913	54410226	1	PKCG, SCA14	PKCC, MGC57564
10	ZNF33AP1	ENSG00000235197	ENST00000432492	processed_pseudogene	KNOWN	None	30957	None	None	38183565	38185594	1	ZNF33CP	BA393J16.4
X	SLC25A14	ENSG00000102078	ENST00000495156	processed_transcript	KNOWN	None	10984	None	None	129473874	129498699	1	None	BMCP1, UCP5
X	SLC25A14	ENSG00000102078	ENST00000464342	processed_transcript	KNOWN	None	10984	None	None	129473884	129499537	1	None	BMCP1, UCP5
X	SLC25A14	ENSG00000102078	ENST00000464184	processed_transcript	KNOWN	None	10984	None	None	129473885	129492961	1	None	BMCP1, UCP5
X	SLC25A14	ENSG00000102078	ENST00000424447	protein_coding	KNOWN	None	10984	595	197	129473887	129492710	1	None	BMCP1, UCP5
X	SLC25A14	ENSG00000102078	ENST00000218197	protein_coding	KNOWN	CCDS14623	10984	978	325	129474026	129507335	1	None	BMCP1, UCP5
X	SLC25A14	ENSG00000102078	ENST00000467496	processed_transcript	KNOWN	None	10984	None	None	129474108	129499649	1	None	BMCP1, UCP5
X	SLC25A14	ENSG00000102078	ENST00000361980	protein_coding	KNOWN	CCDS14624	10984	969	322	129474253	129506924	1	None	BMCP1, UCP5
X	SLC25A14	ENSG00000102078	ENST00000339231	protein_coding	KNOWN	None	10984	1062	353	129474253	129506924	1	None	BMCP1, UCP5
X	SLC25A14	ENSG00000102078	ENST00000478474	processed_transcript	KNOWN	None	10984	None	None	129479159	129506979	1	None	BMCP1, UCP5
X	SLC25A14	ENSG00000102078	ENST00000467346	processed_transcript	KNOWN	None	10984	None	None	129479160	129483648	1	None	BMCP1, UCP5
X	SLC25A14	ENSG00000102078	ENST00000471795	processed_transcript	KNOWN	None	10984	None	None	129483222	129499010	1	None	BMCP1, UCP5
X	SLC25A14	ENSG00000102078	ENST00000465988	processed_transcript	KNOWN	None	10984	None	None	129499216	129507288	1	None	BMCP1, UCP5
X	SLC25A14	ENSG00000102078	ENST00000545805	protein_coding	KNOWN	None	10984	723	240	129473928	129498831	1	None	BMCP1, UCP5
X	SLC25A14	ENSG00000102078	ENST00000543953	protein_coding	KNOWN	None	10984	618	205	129473932	129505571	1	None	BMCP1, UCP5
7	LINC00525	ENSG00000146666	ENST00000412730	antisense	KNOWN	None	40290	None	None	47801074	47806370	1	None	None
7	LINC00525	ENSG00000146666	ENST00000541385	antisense	KNOWN	None	40290	None	None	47802947	47806369	1	None	None
10	None	ENSG00000266684	ENST00000582458	miRNA	NOVEL	None	None	None	None	38243850	38243919	-1	None	None
7	None	ENSG00000225507	ENST00000411911	processed_pseudogene	KNOWN	None	None	None	None	47996390	47996915	1	None	None
7	None	ENSG00000228173	ENST00000456513	lincRNA	KNOWN	None	None	None	None	48700171	48702901	-1	None	None
7	None	ENSG00000225705	ENST00000424687	processed_pseudogene	KNOWN	None	None	None	None	48886022	48892494	-1	None	None
7	GDI2P1	ENSG00000229165	ENST00000429312	processed_pseudogene	KNOWN	None	4228	None	None	48942152	48943487	-1	GDI2P	None
7	None	ENSG00000218305	ENST00000428251	processed_pseudogene	KNOWN	None	None	None	None	48959361	48965609	1	None	None
7	None	ENSG00000218305	ENST00000406468	processed_pseudogene	KNOWN	None	None	None	None	48959361	48965612	1	None	None
7	None	ENSG00000234686	ENST00000440455	lincRNA	KNOWN	None	None	None	None	49269733	49294412	1	None	None
7	None	ENSG00000270763	ENST00000604753	processed_pseudogene	KNOWN	None	None	None	None	49298089	49299442	-1	None	None
8	CHRNB3	ENSG00000147432	ENST00000531610	processed_transcript	KNOWN	None	1963	None	None	42552519	42563901	1	None	None
8	CHRNB3	ENSG00000147432	ENST00000534391	protein_coding	PUTATIVE	None	1963	28	8	42552519	42565578	1	None	None
8	CHRNB3	ENSG00000147432	ENST00000289957	protein_coding	KNOWN	CCDS6134	1963	1377	458	42552562	42592550	1	None	None
7	None	ENSG00000223893	ENST00000451274	processed_pseudogene	KNOWN	None	None	None	None	49981847	49984036	-1	None	None
1	DMAP1	ENSG00000178028	ENST00000361745	protein_coding	KNOWN	CCDS509	18291	1404	467	44679127	44686353	1	None	DNMAP1, FLJ11543, KIAA1425, DNMTAP1, EAF2, MEAF2, SWC4
1	DMAP1	ENSG00000178028	ENST00000446292	protein_coding	KNOWN	None	18291	906	301	44679131	44684913	1	None	DNMAP1, FLJ11543, KIAA1425, DNMTAP1, EAF2, MEAF2, SWC4
1	DMAP1	ENSG00000178028	ENST00000440641	protein_coding	KNOWN	None	18291	712	236	44679143	44684419	1	None	DNMAP1, FLJ11543, KIAA1425, DNMTAP1, EAF2, MEAF2, SWC4
1	DMAP1	ENSG00000178028	ENST00000436069	protein_coding	KNOWN	None	18291	453	150	44679145	44680552	1	None	DNMAP1, FLJ11543, KIAA1425, DNMTAP1, EAF2, MEAF2, SWC4
1	DMAP1	ENSG00000178028	ENST00000437511	protein_coding	KNOWN	None	18291	857	284	44679145	44684786	1	None	DNMAP1, FLJ11543, KIAA1425, DNMTAP1, EAF2, MEAF2, SWC4
1	DMAP1	ENSG00000178028	ENST00000475794	processed_transcript	KNOWN	None	18291	None	None	44679150	44681208	1	None	DNMAP1, FLJ11543, KIAA1425, DNMTAP1, EAF2, MEAF2, SWC4
1	DMAP1	ENSG00000178028	ENST00000471829	processed_transcript	KNOWN	None	18291	None	None	44679155	44684052	1	None	DNMAP1, FLJ11543, KIAA1425, DNMTAP1, EAF2, MEAF2, SWC4
1	DMAP1	ENSG00000178028	ENST00000487922	processed_transcript	KNOWN	None	18291	None	None	44679156	44683963	1	None	DNMAP1, FLJ11543, KIAA1425, DNMTAP1, EAF2, MEAF2, SWC4
1	DMAP1	ENSG00000178028	ENST00000315913	protein_coding	KNOWN	CCDS509	18291	1404	467	44679160	44686353	1	None	DNMAP1, FLJ11543, KIAA1425, DNMTAP1, EAF2, MEAF2, SWC4
1	DMAP1	ENSG00000178028	ENST00000372289	protein_coding	KNOWN	CCDS509	18291	1404	467	44679163	44686353	1	None	DNMAP1, FLJ11543, KIAA1425, DNMTAP1, EAF2, MEAF2, SWC4
1	DMAP1	ENSG00000178028	ENST00000463950	processed_transcript	KNOWN	None	18291	None	None	44679175	44680396	1	None	DNMAP1, FLJ11543, KIAA1425, DNMTAP1, EAF2, MEAF2, SWC4
1	DMAP1	ENSG00000178028	ENST00000372290	protein_coding	KNOWN	None	18291	396	131	44679513	44684102	1	None	DNMAP1, FLJ11543, KIAA1425, DNMTAP1, EAF2, MEAF2, SWC4
1	DMAP1	ENSG00000178028	ENST00000488433	processed_transcript	KNOWN	None	18291	None	None	44680505	44686353	1	None	DNMAP1, FLJ11543, KIAA1425, DNMTAP1, EAF2, MEAF2, SWC4
1	DMAP1	ENSG00000178028	ENST00000483741	processed_transcript	KNOWN	None	18291	None	None	44684037	44685502	1	None	DNMAP1, FLJ11543, KIAA1425, DNMTAP1, EAF2, MEAF2, SWC4
1	DMAP1	ENSG00000178028	ENST00000494092	processed_transcript	KNOWN	None	18291	None	None	44685092	44686353	1	None	DNMAP1, FLJ11543, KIAA1425, DNMTAP1, EAF2, MEAF2, SWC4
1	HHAT	ENSG00000054392	ENST00000261458	protein_coding	KNOWN	CCDS1495	18270	1482	493	210502297	210849638	1	None	FLJ10724, MART-2, MART2, Skn, ski, rasp, sit, GUP2
1	HHAT	ENSG00000054392	ENST00000367010	protein_coding	KNOWN	CCDS1495	18270	1482	493	210502644	210849638	1	None	FLJ10724, MART-2, MART2, Skn, ski, rasp, sit, GUP2
1	HHAT	ENSG00000054392	ENST00000426968	protein_coding	KNOWN	None	18270	623	206	210536196	210637999	1	None	FLJ10724, MART-2, MART2, Skn, ski, rasp, sit, GUP2
1	HHAT	ENSG00000054392	ENST00000367009	protein_coding	KNOWN	None	18270	552	183	210612927	210849638	1	None	FLJ10724, MART-2, MART2, Skn, ski, rasp, sit, GUP2
1	HHAT	ENSG00000054392	ENST00000545154	protein_coding	KNOWN	CCDS53471	18270	1485	494	210502250	210849638	1	None	FLJ10724, MART-2, MART2, Skn, ski, rasp, sit, GUP2
1	HHAT	ENSG00000054392	ENST00000413764	protein_coding	KNOWN	CCDS1495	18270	1482	493	210501596	210849638	1	None	FLJ10724, MART-2, MART2, Skn, ski, rasp, sit, GUP2
1	HHAT	ENSG00000054392	ENST00000541565	protein_coding	KNOWN	CCDS53473	18270	1071	356	210501596	210849638	1	None	FLJ10724, MART-2, MART2, Skn, ski, rasp, sit, GUP2
1	HHAT	ENSG00000054392	ENST00000537898	protein_coding	KNOWN	CCDS53472	18270	1287	428	210502250	210849638	1	None	FLJ10724, MART-2, MART2, Skn, ski, rasp, sit, GUP2
1	HHAT	ENSG00000054392	ENST00000391905	protein_coding	KNOWN	None	18270	1557	518	210502250	210804507	1	None	FLJ10724, MART-2, MART2, Skn, ski, rasp, sit, GUP2
1	HHAT	ENSG00000054392	ENST00000308852	protein_coding	KNOWN	None	18270	1347	448	210502297	210847751	1	None	FLJ10724, MART-2, MART2, Skn, ski, rasp, sit, GUP2
1	HHAT	ENSG00000054392	ENST00000545781	protein_coding	KNOWN	None	18270	1293	430	210502264	210847796	1	None	FLJ10724, MART-2, MART2, Skn, ski, rasp, sit, GUP2
17	AZI1	ENSG00000141577	ENST00000374782	protein_coding	KNOWN	CCDS32764	29511	3135	1044	79163393	79196745	-1	None	AZ1, KIAA1118, CEP131
17	AZI1	ENSG00000141577	ENST00000269392	protein_coding	KNOWN	None	29511	3252	1083	79163396	79196799	-1	None	AZ1, KIAA1118, CEP131
17	AZI1	ENSG00000141577	ENST00000570817	protein_coding	PUTATIVE	None	29511	923	306	79163397	79167828	-1	None	AZ1, KIAA1118, CEP131
17	AZI1	ENSG00000141577	ENST00000573053	protein_coding	NOVEL	None	29511	1575	524	79163397	79170819	-1	None	AZ1, KIAA1118, CEP131
17	AZI1	ENSG00000141577	ENST00000450824	protein_coding	KNOWN	CCDS45808	29511	3243	1080	79163448	79196730	-1	None	AZ1, KIAA1118, CEP131
17	AZI1	ENSG00000141577	ENST00000575907	protein_coding	NOVEL	None	29511	3144	1047	79163448	79196730	-1	None	AZ1, KIAA1118, CEP131
17	AZI1	ENSG00000141577	ENST00000571292	protein_coding	NOVEL	None	29511	619	205	79163627	79166176	-1	None	AZ1, KIAA1118, CEP131
17	AZI1	ENSG00000141577	ENST00000570482	processed_transcript	KNOWN	None	29511	None	None	79173618	79177871	-1	None	AZ1, KIAA1118, CEP131
12	ZNF641	ENSG00000167528	ENST00000544117	protein_coding	KNOWN	CCDS8763	31834	1317	438	48733910	48744554	-1	None	FLJ31295
12	ZNF641	ENSG00000167528	ENST00000448928	protein_coding	KNOWN	CCDS53787	31834	1248	415	48736204	48745021	-1	None	FLJ31295
12	ZNF641	ENSG00000167528	ENST00000547026	protein_coding	KNOWN	CCDS53788	31834	1275	424	48736339	48744674	-1	None	FLJ31295
12	ZNF641	ENSG00000167528	ENST00000549512	retained_intron	KNOWN	None	31834	None	None	48737244	48738556	-1	None	FLJ31295
12	ZNF641	ENSG00000167528	ENST00000546874	protein_coding	PUTATIVE	None	31834	154	50	48738204	48739150	-1	None	FLJ31295
12	ZNF641	ENSG00000167528	ENST00000549125	protein_coding	NOVEL	None	31834	246	81	48738434	48744587	-1	None	FLJ31295
12	ZNF641	ENSG00000167528	ENST00000548932	protein_coding	KNOWN	None	31834	410	135	48739166	48744577	-1	None	FLJ31295
12	ZNF641	ENSG00000167528	ENST00000550181	protein_coding	KNOWN	None	31834	323	106	48739211	48745197	-1	None	FLJ31295
12	ZNF641	ENSG00000167528	ENST00000550342	protein_coding	KNOWN	None	31834	231	76	48741080	48744201	-1	None	FLJ31295
12	ZNF641	ENSG00000167528	ENST00000301042	protein_coding	KNOWN	CCDS8763	31834	1317	438	48733791	48744674	-1	None	FLJ31295
16	ITGAX	ENSG00000140678	ENST00000564308	retained_intron	KNOWN	None	6152	None	None	31366455	31367599	1	CD11C	CD11c
16	ITGAX	ENSG00000140678	ENST00000268296	protein_coding	KNOWN	CCDS10711	6152	3492	1163	31366455	31394318	1	CD11C	CD11c
16	ITGAX	ENSG00000140678	ENST00000562918	processed_transcript	KNOWN	None	6152	None	None	31366495	31369235	1	CD11C	CD11c
16	ITGAX	ENSG00000140678	ENST00000567409	retained_intron	KNOWN	None	6152	None	None	31366509	31369183	1	CD11C	CD11c
16	ITGAX	ENSG00000140678	ENST00000562522	protein_coding	NOVEL	None	6152	3510	1169	31366543	31394264	1	CD11C	CD11c
16	ITGAX	ENSG00000140678	ENST00000571644	retained_intron	KNOWN	None	6152	None	None	31371258	31394253	1	CD11C	CD11c
16	ITGAX	ENSG00000140678	ENST00000562138	retained_intron	KNOWN	None	6152	None	None	31382795	31383975	1	CD11C	CD11c
X	DGAT2L6	ENSG00000184210	ENST00000333026	protein_coding	KNOWN	CCDS14397	23250	1014	337	69397333	69425395	1	None	DC3, FLJ25989
16	JMJD8	ENSG00000161999	ENST00000412368	protein_coding	KNOWN	CCDS45369	14148	858	285	731671	734439	-1	C16orf20	None
16	JMJD8	ENSG00000161999	ENST00000567120	retained_intron	KNOWN	None	14148	None	None	731671	734528	-1	C16orf20	None
16	JMJD8	ENSG00000161999	ENST00000565302	retained_intron	KNOWN	None	14148	None	None	731698	734336	-1	C16orf20	None
16	JMJD8	ENSG00000161999	ENST00000568689	retained_intron	KNOWN	None	14148	None	None	731699	734344	-1	C16orf20	None
16	JMJD8	ENSG00000161999	ENST00000568313	retained_intron	KNOWN	None	14148	None	None	732074	733106	-1	C16orf20	None
16	JMJD8	ENSG00000161999	ENST00000569441	retained_intron	KNOWN	None	14148	None	None	732406	734320	-1	C16orf20	None
16	JMJD8	ENSG00000161999	ENST00000562824	protein_coding	PUTATIVE	None	14148	705	234	732528	734363	-1	C16orf20	None
16	JMJD8	ENSG00000161999	ENST00000563088	retained_intron	KNOWN	None	14148	None	None	732543	734155	-1	C16orf20	None
16	JMJD8	ENSG00000161999	ENST00000564436	retained_intron	KNOWN	None	14148	None	None	732575	733586	-1	C16orf20	None
16	JMJD8	ENSG00000161999	ENST00000570037	retained_intron	KNOWN	None	14148	None	None	732658	734101	-1	C16orf20	None
16	JMJD8	ENSG00000161999	ENST00000562111	protein_coding	PUTATIVE	None	14148	660	219	732658	734346	-1	C16orf20	None
16	JMJD8	ENSG00000161999	ENST00000565258	nonsense_mediated_decay	KNOWN	None	14148	245	80	732772	733600	-1	C16orf20	None
16	JMJD8	ENSG00000161999	ENST00000569396	retained_intron	KNOWN	None	14148	None	None	733185	734331	-1	C16orf20	None
16	JMJD8	ENSG00000161999	ENST00000566199	retained_intron	KNOWN	None	14148	None	None	733343	734314	-1	C16orf20	None
16	JMJD8	ENSG00000161999	ENST00000567901	retained_intron	KNOWN	None	14148	None	None	733355	734303	-1	C16orf20	None
16	JMJD8	ENSG00000161999	ENST00000293882	protein_coding	KNOWN	None	14148	1005	334	731676	734529	-1	C16orf20	None
16	JMJD8	ENSG00000161999	ENST00000454700	protein_coding	KNOWN	None	14148	915	304	731676	734529	-1	C16orf20	None
14	SLC7A8	ENSG00000092068	ENST00000339733	nonsense_mediated_decay	KNOWN	None	11066	692	229	23594504	23624518	-1	None	LPI-PC1, LAT2
14	SLC7A8	ENSG00000092068	ENST00000316902	protein_coding	KNOWN	CCDS9590	11066	1608	535	23594504	23652849	-1	None	LPI-PC1, LAT2
14	SLC7A8	ENSG00000092068	ENST00000397310	retained_intron	KNOWN	None	11066	None	None	23594506	23599352	-1	None	LPI-PC1, LAT2
14	SLC7A8	ENSG00000092068	ENST00000469263	protein_coding	PUTATIVE	None	11066	870	289	23594511	23652850	-1	None	LPI-PC1, LAT2
14	SLC7A8	ENSG00000092068	ENST00000453702	protein_coding	KNOWN	CCDS41924	11066	999	332	23595877	23623610	-1	None	LPI-PC1, LAT2
14	SLC7A8	ENSG00000092068	ENST00000529705	protein_coding	PUTATIVE	CCDS58305	11066	1293	430	23595960	23624667	-1	None	LPI-PC1, LAT2
14	SLC7A8	ENSG00000092068	ENST00000528860	nonsense_mediated_decay	KNOWN	None	11066	150	49	23595968	23623602	-1	None	LPI-PC1, LAT2
14	SLC7A8	ENSG00000092068	ENST00000528806	retained_intron	KNOWN	None	11066	None	None	23598470	23607228	-1	None	LPI-PC1, LAT2
14	SLC7A8	ENSG00000092068	ENST00000528186	retained_intron	KNOWN	None	11066	None	None	23598807	23607420	-1	None	LPI-PC1, LAT2
14	SLC7A8	ENSG00000092068	ENST00000532568	processed_transcript	KNOWN	None	11066	None	None	23608633	23616141	-1	None	LPI-PC1, LAT2
14	SLC7A8	ENSG00000092068	ENST00000524758	protein_coding	KNOWN	None	11066	283	93	23635618	23652883	-1	None	LPI-PC1, LAT2
14	SLC7A8	ENSG00000092068	ENST00000525062	protein_coding	KNOWN	None	11066	234	77	23635667	23652859	-1	None	LPI-PC1, LAT2
14	SLC7A8	ENSG00000092068	ENST00000422941	protein_coding	KNOWN	CCDS58304	11066	936	311	23595968	23623602	-1	None	LPI-PC1, LAT2
17	GSDMA	ENSG00000167914	ENST00000301659	protein_coding	KNOWN	CCDS45669	13311	1338	445	38119226	38134019	1	GSDM, GSDM1	FLJ39120
17	GSDMA	ENSG00000167914	ENST00000577447	protein_coding	KNOWN	None	13311	476	157	38121776	38126818	1	GSDM, GSDM1	FLJ39120
4	CEP44	ENSG00000164118	ENST00000503780	protein_coding	KNOWN	CCDS34106	29356	1173	390	175204828	175241481	1	KIAA1712	None
4	CEP44	ENSG00000164118	ENST00000505124	protein_coding	KNOWN	None	29356	336	111	175204881	175224952	1	KIAA1712	None
4	CEP44	ENSG00000164118	ENST00000457424	protein_coding	KNOWN	CCDS47163	29356	1200	399	175205055	175254531	1	KIAA1712	None
4	CEP44	ENSG00000164118	ENST00000396791	nonsense_mediated_decay	KNOWN	CCDS34106	29356	1173	390	175205056	175253444	1	KIAA1712	None
4	CEP44	ENSG00000164118	ENST00000514712	protein_coding	KNOWN	None	29356	337	111	175205074	175224953	1	KIAA1712	None
4	CEP44	ENSG00000164118	ENST00000515299	protein_coding	KNOWN	None	29356	594	197	175205120	175229926	1	KIAA1712	None
4	CEP44	ENSG00000164118	ENST00000503053	protein_coding	KNOWN	None	29356	418	138	175205169	175225431	1	KIAA1712	None
4	CEP44	ENSG00000164118	ENST00000508483	retained_intron	KNOWN	None	29356	None	None	175229951	175237837	1	KIAA1712	None
4	CEP44	ENSG00000164118	ENST00000426172	protein_coding	KNOWN	CCDS47163	29356	1200	399	175220221	175254531	1	KIAA1712	None
4	CEP44	ENSG00000164118	ENST00000296519	protein_coding	KNOWN	CCDS34106	29356	1173	390	175220221	175241482	1	KIAA1712	None
10	ATE1	ENSG00000107669	ENST00000369043	protein_coding	KNOWN	CCDS31299	782	1557	518	123499939	123687551	-1	None	None
10	ATE1	ENSG00000107669	ENST00000423243	protein_coding	KNOWN	None	782	1546	514	123502710	123687453	-1	None	None
10	ATE1	ENSG00000107669	ENST00000485281	processed_transcript	KNOWN	None	782	None	None	123542009	123549741	-1	None	None
10	ATE1	ENSG00000107669	ENST00000481784	processed_transcript	KNOWN	None	782	None	None	123600634	123662053	-1	None	None
10	ATE1	ENSG00000107669	ENST00000455628	protein_coding	PUTATIVE	None	782	666	221	123662032	123687977	-1	None	None
10	ATE1	ENSG00000107669	ENST00000540606	protein_coding	KNOWN	None	782	1536	511	123502817	123687967	-1	None	None
10	ATE1	ENSG00000107669	ENST00000224652	protein_coding	KNOWN	CCDS31300	782	1557	518	123502626	123687550	-1	None	None
10	ATE1	ENSG00000107669	ENST00000369040	protein_coding	KNOWN	None	782	1269	422	123502699	123687536	-1	None	None
10	ATE1	ENSG00000107669	ENST00000543447	protein_coding	KNOWN	None	782	1212	403	123502984	123687416	-1	None	None
10	ATE1	ENSG00000107669	ENST00000535655	protein_coding	KNOWN	None	782	660	219	123502456	123688316	-1	None	None
8	CHRNA6	ENSG00000147434	ENST00000276410	protein_coding	KNOWN	CCDS6135	15963	1485	494	42607763	42623929	-1	None	None
8	CHRNA6	ENSG00000147434	ENST00000534622	protein_coding	NOVEL	CCDS56536	15963	1440	479	42608070	42623753	-1	None	None
8	CHRNA6	ENSG00000147434	ENST00000533810	protein_coding	PUTATIVE	None	15963	333	110	42611772	42651535	-1	None	None
8	CHRNA6	ENSG00000147434	ENST00000530869	processed_transcript	KNOWN	None	15963	None	None	42612083	42623775	-1	None	None
8	CHRNA6	ENSG00000147434	ENST00000529467	retained_intron	KNOWN	None	15963	None	None	42620116	42623791	-1	None	None
6	None	ENSG00000230648	ENST00000415144	antisense	KNOWN	None	None	None	None	4019077	4021449	-1	None	None
6	None	ENSG00000252668	ENST00000516859	snoRNA	NOVEL	None	None	None	None	4076623	4076707	1	None	None
6	None	ENSG00000254821	ENST00000527831	antisense	KNOWN	None	None	None	None	4135657	4146287	1	None	None
6	None	ENSG00000234817	ENST00000427049	lincRNA	KNOWN	None	None	None	None	4136306	4157619	1	None	None
17	STXBP4	ENSG00000166263	ENST00000461444	retained_intron	KNOWN	None	19694	None	None	53046088	53068349	1	None	Synip, MGC50337
17	STXBP4	ENSG00000166263	ENST00000376352	protein_coding	KNOWN	CCDS11584	19694	1662	553	53046126	53241646	1	None	Synip, MGC50337
17	STXBP4	ENSG00000166263	ENST00000405898	protein_coding	NOVEL	None	19694	963	320	53046136	53122137	1	None	Synip, MGC50337
17	STXBP4	ENSG00000166263	ENST00000434978	protein_coding	NOVEL	None	19694	1596	531	53046137	53238287	1	None	Synip, MGC50337
17	STXBP4	ENSG00000166263	ENST00000464340	retained_intron	KNOWN	None	19694	None	None	53046153	53069213	1	None	Synip, MGC50337
17	STXBP4	ENSG00000166263	ENST00000398391	protein_coding	KNOWN	None	19694	738	245	53046156	53122137	1	None	Synip, MGC50337
17	STXBP4	ENSG00000166263	ENST00000463234	protein_coding	PUTATIVE	None	19694	246	81	53077177	53120727	1	None	Synip, MGC50337
17	STXBP4	ENSG00000166263	ENST00000468837	retained_intron	KNOWN	None	19694	None	None	53108168	53120736	1	None	Synip, MGC50337
17	STXBP4	ENSG00000166263	ENST00000299341	protein_coding	KNOWN	None	19694	738	245	53046126	53120990	1	None	Synip, MGC50337
X	AWAT1	ENSG00000204195	ENST00000480702	processed_transcript	KNOWN	None	23252	None	None	69454505	69457167	1	DGAT2L3	None
X	AWAT1	ENSG00000204195	ENST00000374521	protein_coding	KNOWN	CCDS35321	23252	987	328	69454505	69460477	1	DGAT2L3	None
3	ANAPC13	ENSG00000129055	ENST00000510994	protein_coding	KNOWN	CCDS3085	24540	225	74	134196548	134204865	-1	None	SWM1, APC13, DKFZP566D193
3	ANAPC13	ENSG00000129055	ENST00000354910	protein_coding	KNOWN	CCDS3085	24540	225	74	134196550	134204868	-1	None	SWM1, APC13, DKFZP566D193
3	ANAPC13	ENSG00000129055	ENST00000514612	protein_coding	KNOWN	CCDS3085	24540	225	74	134196553	134204831	-1	None	SWM1, APC13, DKFZP566D193
3	ANAPC13	ENSG00000129055	ENST00000511751	protein_coding	KNOWN	CCDS3085	24540	225	74	134196918	134205558	-1	None	SWM1, APC13, DKFZP566D193
3	ANAPC13	ENSG00000129055	ENST00000508755	retained_intron	KNOWN	None	24540	None	None	134197320	134202095	-1	None	SWM1, APC13, DKFZP566D193
3	ANAPC13	ENSG00000129055	ENST00000503439	retained_intron	KNOWN	None	24540	None	None	134201584	134204545	-1	None	SWM1, APC13, DKFZP566D193
5	HAVCR1	ENSG00000113249	ENST00000522693	protein_coding	PUTATIVE	None	17866	1206	401	156456424	156486130	-1	None	HAVCR-1, TIM-1, TIM1, HAVCR, TIMD1
5	HAVCR1	ENSG00000113249	ENST00000523175	protein_coding	KNOWN	CCDS43392	17866	1095	364	156456437	156485966	-1	None	HAVCR-1, TIM-1, TIM1, HAVCR, TIMD1
5	HAVCR1	ENSG00000113249	ENST00000339252	protein_coding	KNOWN	CCDS43392	17866	1095	364	156456527	156485487	-1	None	HAVCR-1, TIM-1, TIM1, HAVCR, TIMD1
5	HAVCR1	ENSG00000113249	ENST00000517644	processed_transcript	KNOWN	None	17866	None	None	156456751	156476160	-1	None	HAVCR-1, TIM-1, TIM1, HAVCR, TIMD1
5	HAVCR1	ENSG00000113249	ENST00000518745	protein_coding	KNOWN	None	17866	669	222	156479376	156485407	-1	None	HAVCR-1, TIM-1, TIM1, HAVCR, TIMD1
5	HAVCR1	ENSG00000113249	ENST00000425854	protein_coding	KNOWN	None	17866	1206	401	156456531	156485487	-1	None	HAVCR-1, TIM-1, TIM1, HAVCR, TIMD1
5	HAVCR1	ENSG00000113249	ENST00000544197	protein_coding	KNOWN	CCDS43392	17866	1095	364	156456531	156485487	-1	None	HAVCR-1, TIM-1, TIM1, HAVCR, TIMD1
6	None	ENSG00000237716	ENST00000427591	lincRNA	KNOWN	None	None	None	None	4186858	4188343	-1	None	None
6	None	ENSG00000216307	ENST00000403917	processed_pseudogene	KNOWN	None	None	None	None	4189350	4190040	1	None	None
9	KIAA1984	ENSG00000213213	ENST00000479371	nonsense_mediated_decay	KNOWN	None	28236	957	318	139690802	139702193	1	None	MGC15438, bA216L13.7
9	KIAA1984	ENSG00000213213	ENST00000371682	processed_transcript	KNOWN	None	28236	None	None	139690812	139700980	1	None	MGC15438, bA216L13.7
9	KIAA1984	ENSG00000213213	ENST00000338005	protein_coding	KNOWN	CCDS43906	28236	1605	534	139690815	139702173	1	None	MGC15438, bA216L13.7
9	KIAA1984	ENSG00000213213	ENST00000415992	retained_intron	KNOWN	None	28236	None	None	139693675	139704487	1	None	MGC15438, bA216L13.7
9	KIAA1984	ENSG00000213213	ENST00000430612	retained_intron	KNOWN	None	28236	None	None	139693867	139702192	1	None	MGC15438, bA216L13.7
9	KIAA1984	ENSG00000213213	ENST00000481601	retained_intron	KNOWN	None	28236	None	None	139694767	139702192	1	None	MGC15438, bA216L13.7
9	KIAA1984	ENSG00000213213	ENST00000496839	processed_transcript	KNOWN	None	28236	None	None	139699814	139702133	1	None	MGC15438, bA216L13.7
9	KIAA1984	ENSG00000213213	ENST00000459985	retained_intron	KNOWN	None	28236	None	None	139700634	139704494	1	None	MGC15438, bA216L13.7
9	KIAA1984	ENSG00000213213	ENST00000484858	processed_transcript	KNOWN	None	28236	None	None	139701237	139702193	1	None	MGC15438, bA216L13.7
14	TRAPPC6B	ENSG00000182400	ENST00000469361	retained_intron	KNOWN	None	23066	None	None	39617015	39639736	-1	None	None
14	TRAPPC6B	ENSG00000182400	ENST00000330149	protein_coding	NOVEL	CCDS41947	23066	477	158	39617016	39639526	-1	None	None
14	TRAPPC6B	ENSG00000182400	ENST00000347691	protein_coding	KNOWN	CCDS9670	23066	393	130	39617016	39639597	-1	None	None
14	TRAPPC6B	ENSG00000182400	ENST00000557764	processed_transcript	KNOWN	None	23066	None	None	39619194	39639518	-1	None	None
14	TRAPPC6B	ENSG00000182400	ENST00000555269	nonsense_mediated_decay	KNOWN	None	23066	153	50	39619322	39639557	-1	None	None
14	TRAPPC6B	ENSG00000182400	ENST00000554018	protein_coding	PUTATIVE	None	23066	307	101	39621001	39639533	-1	None	None
14	TRAPPC6B	ENSG00000182400	ENST00000556765	nonsense_mediated_decay	KNOWN	None	23066	153	50	39621015	39639634	-1	None	None
1	KCNH1	ENSG00000143473	ENST00000271751	protein_coding	KNOWN	CCDS1496	6250	2970	989	210856555	211307315	-1	None	Kv10.1, eag, h-eag, eag1
1	KCNH1	ENSG00000143473	ENST00000367007	protein_coding	KNOWN	CCDS31015	6250	2889	962	210856580	211307457	-1	None	Kv10.1, eag, h-eag, eag1
14	SLC25A47	ENSG00000140107	ENST00000361529	protein_coding	KNOWN	CCDS9959	20115	927	308	100789674	100796715	1	C14orf68	None
14	SLC25A47	ENSG00000140107	ENST00000557052	protein_coding	PUTATIVE	None	20115	489	162	100789679	100796473	1	C14orf68	None
6	MICB	ENSG00000204516	ENST00000399150	protein_coding	KNOWN	None	7091	1023	340	31465863	31478901	1	None	PERB11.2
6	MICB	ENSG00000204516	ENST00000252229	protein_coding	KNOWN	CCDS43449	7091	1152	383	31465892	31478901	1	None	PERB11.2
6	MICB	ENSG00000204516	ENST00000494577	retained_intron	KNOWN	None	7091	None	None	31473712	31475308	1	None	PERB11.2
6	MICB	ENSG00000204516	ENST00000427115	protein_coding	KNOWN	None	7091	126	41	31465922	31466483	1	None	PERB11.2
6	MICB	ENSG00000204516	ENST00000538442	protein_coding	KNOWN	None	7091	1056	351	31462658	31477974	1	None	PERB11.2
7	None	ENSG00000228005	ENST00000454877	antisense	KNOWN	None	None	None	None	50181136	50182419	-1	None	None
7	None	ENSG00000231681	ENST00000457592	lincRNA	KNOWN	None	None	None	None	50241835	50243914	-1	None	None
7	None	ENSG00000235620	ENST00000440351	lincRNA	KNOWN	None	None	None	None	50314386	50315218	-1	None	None
7	RNU6-1091P	ENSG00000200815	ENST00000363945	snRNA	KNOWN	None	48054	None	None	50503078	50503184	1	None	None
7	None	ENSG00000226122	ENST00000454521	antisense	KNOWN	None	None	None	None	50599457	50611161	1	None	None
7	None	ENSG00000236046	ENST00000422831	lincRNA	KNOWN	None	None	None	None	50907060	50909689	-1	None	None
7	None	ENSG00000228085	ENST00000443146	processed_pseudogene	KNOWN	None	None	None	None	50911275	50911429	-1	None	None
7	None	ENSG00000228204	ENST00000420449	antisense	KNOWN	None	None	None	None	50934444	51088749	1	None	None
7	None	ENSG00000228204	ENST00000582616	antisense	KNOWN	None	None	None	None	51085160	51090687	1	None	None
5	CAMLG	ENSG00000164615	ENST00000297156	protein_coding	KNOWN	CCDS4178	1471	891	296	134074191	134087847	1	None	CAML
5	CAMLG	ENSG00000164615	ENST00000514518	protein_coding	PUTATIVE	None	1471	243	80	134074273	134087067	1	None	CAML
7	None	ENSG00000201133	ENST00000364263	snoRNA	NOVEL	None	None	None	None	51003047	51003190	-1	None	None
2	SNRNP27	ENSG00000124380	ENST00000244227	protein_coding	KNOWN	CCDS33219	30240	468	155	70120692	70132349	1	None	RY1
2	SNRNP27	ENSG00000124380	ENST00000409116	protein_coding	NOVEL	None	30240	477	158	70121091	70132350	1	None	RY1
2	SNRNP27	ENSG00000124380	ENST00000450162	nonsense_mediated_decay	KNOWN	CCDS33219	30240	468	155	70121096	70131803	1	None	RY1
2	SNRNP27	ENSG00000124380	ENST00000488986	processed_transcript	PUTATIVE	None	30240	None	None	70123652	70130539	1	None	RY1
2	SNRNP27	ENSG00000124380	ENST00000487029	nonsense_mediated_decay	KNOWN	None	30240	55	17	70131386	70132707	1	None	RY1
7	RPL7L1P2	ENSG00000231490	ENST00000446889	processed_pseudogene	KNOWN	None	39484	None	None	51327126	51327864	-1	None	None
7	CICP17	ENSG00000227233	ENST00000418553	processed_pseudogene	KNOWN	None	48827	None	None	51449981	51452357	1	None	None
7	None	ENSG00000251564	ENST00000543904	pseudogene	NOVEL	None	None	None	None	51452463	51452868	1	None	None
7	None	ENSG00000228897	ENST00000444843	processed_pseudogene	KNOWN	None	None	None	None	51454060	51454798	-1	None	None
X	P2RY4	ENSG00000186912	ENST00000374519	protein_coding	KNOWN	CCDS14398	8542	1098	365	69478016	69479654	-1	None	NRU, P2Y4, UNR, P2P
7	None	ENSG00000227080	ENST00000446669	processed_pseudogene	KNOWN	None	None	None	None	51456127	51456811	-1	None	None
7	PHKG1	ENSG00000164776	ENST00000297373	protein_coding	KNOWN	CCDS5525	8930	1164	387	56148675	56160689	-1	PHKG	None
7	PHKG1	ENSG00000164776	ENST00000446428	protein_coding	PUTATIVE	None	8930	352	116	56149410	56160625	-1	PHKG	None
7	PHKG1	ENSG00000164776	ENST00000432123	protein_coding	NOVEL	None	8930	437	144	56149707	56160639	-1	PHKG	None
7	PHKG1	ENSG00000164776	ENST00000471665	retained_intron	KNOWN	None	8930	None	None	56150844	56155386	-1	PHKG	None
7	PHKG1	ENSG00000164776	ENST00000395428	nonsense_mediated_decay	KNOWN	None	8930	267	88	56151034	56160645	-1	PHKG	None
7	PHKG1	ENSG00000164776	ENST00000489604	processed_transcript	KNOWN	None	8930	None	None	56151854	56160644	-1	PHKG	None
7	PHKG1	ENSG00000164776	ENST00000467726	retained_intron	KNOWN	None	8930	None	None	56154568	56160670	-1	PHKG	None
7	PHKG1	ENSG00000164776	ENST00000492124	retained_intron	KNOWN	None	8930	None	None	56156247	56160689	-1	PHKG	None
7	PHKG1	ENSG00000164776	ENST00000452681	protein_coding	KNOWN	CCDS59057	8930	1260	419	56148440	56160644	-1	PHKG	None
7	PHKG1	ENSG00000164776	ENST00000537360	protein_coding	KNOWN	None	8930	1002	333	56148440	56160644	-1	PHKG	None
14	NPC2	ENSG00000119655	ENST00000434013	protein_coding	PUTATIVE	None	14537	606	201	74942895	74960010	-1	None	HE1, NP-C2, EDDM1
14	NPC2	ENSG00000119655	ENST00000541064	protein_coding	NOVEL	None	14537	378	125	74945926	74959984	-1	None	HE1, NP-C2, EDDM1
14	NPC2	ENSG00000119655	ENST00000555619	protein_coding	KNOWN	CCDS32121	14537	456	151	74946636	74960215	-1	None	HE1, NP-C2, EDDM1
14	NPC2	ENSG00000119655	ENST00000554482	nonsense_mediated_decay	KNOWN	None	14537	162	53	74946645	74959945	-1	None	HE1, NP-C2, EDDM1
14	NPC2	ENSG00000119655	ENST00000238633	protein_coding	NOVEL	None	14537	447	148	74946645	74959994	-1	None	HE1, NP-C2, EDDM1
14	NPC2	ENSG00000119655	ENST00000553490	protein_coding	NOVEL	None	14537	664	220	74946785	74960042	-1	None	HE1, NP-C2, EDDM1
14	NPC2	ENSG00000119655	ENST00000556009	protein_coding	PUTATIVE	None	14537	521	172	74946799	74960880	-1	None	HE1, NP-C2, EDDM1
14	NPC2	ENSG00000119655	ENST00000557510	protein_coding	PUTATIVE	None	14537	525	174	74946890	74960050	-1	None	HE1, NP-C2, EDDM1
14	NPC2	ENSG00000119655	ENST00000555592	protein_coding	KNOWN	None	14537	367	121	74951114	74960311	-1	None	HE1, NP-C2, EDDM1
11	RPUSD4	ENSG00000165526	ENST00000298317	protein_coding	KNOWN	CCDS8469	25898	1134	377	126071993	126081587	-1	None	FLJ14494
11	RPUSD4	ENSG00000165526	ENST00000533628	protein_coding	NOVEL	CCDS53721	25898	1041	346	126072309	126081541	-1	None	FLJ14494
11	RPUSD4	ENSG00000165526	ENST00000526942	retained_intron	KNOWN	None	25898	None	None	126072677	126081524	-1	None	FLJ14494
11	RPUSD4	ENSG00000165526	ENST00000530903	retained_intron	KNOWN	None	25898	None	None	126073217	126076407	-1	None	FLJ14494
11	RPUSD4	ENSG00000165526	ENST00000532674	protein_coding	PUTATIVE	None	25898	525	174	126075362	126081587	-1	None	FLJ14494
11	RPUSD4	ENSG00000165526	ENST00000534393	processed_transcript	KNOWN	None	25898	None	None	126075466	126081302	-1	None	FLJ14494
11	RPUSD4	ENSG00000165526	ENST00000530036	processed_transcript	KNOWN	None	25898	None	None	126075614	126079618	-1	None	FLJ14494
11	RPUSD4	ENSG00000165526	ENST00000532800	retained_intron	KNOWN	None	25898	None	None	126078935	126081525	-1	None	FLJ14494
11	RPUSD4	ENSG00000165526	ENST00000525812	retained_intron	KNOWN	None	25898	None	None	126079446	126081192	-1	None	FLJ14494
11	ZBED5	ENSG00000236287	ENST00000525350	processed_transcript	KNOWN	None	30803	None	None	10833621	10877765	-1	None	Buster1
11	ZBED5	ENSG00000236287	ENST00000533903	processed_transcript	KNOWN	None	30803	None	None	10834553	10848129	-1	None	Buster1
11	ZBED5	ENSG00000236287	ENST00000533925	processed_transcript	KNOWN	None	30803	None	None	10871444	10879620	-1	None	Buster1
11	ZBED5	ENSG00000236287	ENST00000432999	protein_coding	PUTATIVE	None	30803	2082	693	10874251	10879620	-1	None	Buster1
11	ZBED5	ENSG00000236287	ENST00000413761	protein_coding	PUTATIVE	None	30803	2082	693	10874411	10879583	-1	None	Buster1
11	ZBED5	ENSG00000236287	ENST00000526020	protein_coding	PUTATIVE	None	30803	327	108	10876166	10880343	-1	None	Buster1
11	ZBED5	ENSG00000236287	ENST00000526852	protein_coding	PUTATIVE	None	30803	278	91	10876215	10879366	-1	None	Buster1
11	ZBED5	ENSG00000236287	ENST00000534690	protein_coding	PUTATIVE	None	30803	209	68	10876284	10879184	-1	None	Buster1
11	ZBED5	ENSG00000236287	ENST00000528289	protein_coding	PUTATIVE	None	30803	179	58	10876314	10879612	-1	None	Buster1
11	ZBED5	ENSG00000236287	ENST00000530570	processed_transcript	KNOWN	None	30803	None	None	10877205	10879612	-1	None	Buster1
X	ARR3	ENSG00000120500	ENST00000374495	protein_coding	KNOWN	None	710	1080	359	69488155	69501082	1	None	ARRX
X	ARR3	ENSG00000120500	ENST00000477379	retained_intron	KNOWN	None	710	None	None	69488184	69489859	1	None	ARRX
X	ARR3	ENSG00000120500	ENST00000480877	protein_coding	PUTATIVE	None	710	291	96	69488196	69496557	1	None	ARRX
X	ARR3	ENSG00000120500	ENST00000307959	protein_coding	KNOWN	CCDS14399	710	1167	388	69488202	69501690	1	None	ARRX
X	ZNF630	ENSG00000221994	ENST00000428463	nonsense_mediated_decay	KNOWN	None	28855	267	88	47842756	47930508	-1	None	BC037316, dJ54B20.2, FLJ20573, MGC138344
X	ZNF630	ENSG00000221994	ENST00000409324	protein_coding	KNOWN	CCDS35237	28855	1974	657	47917603	47930483	-1	None	BC037316, dJ54B20.2, FLJ20573, MGC138344
X	ZNF630	ENSG00000221994	ENST00000276054	protein_coding	NOVEL	None	28855	1602	533	47917603	47931025	-1	None	BC037316, dJ54B20.2, FLJ20573, MGC138344
X	ZNF630	ENSG00000221994	ENST00000428686	protein_coding	KNOWN	None	28855	644	213	47919187	47931001	-1	None	BC037316, dJ54B20.2, FLJ20573, MGC138344
X	ZNF630	ENSG00000221994	ENST00000421903	protein_coding	NOVEL	None	28855	122	39	47919337	47926448	-1	None	BC037316, dJ54B20.2, FLJ20573, MGC138344
X	ZNF630	ENSG00000221994	ENST00000442455	protein_coding	KNOWN	CCDS55409	28855	1932	643	47917571	47931001	-1	None	BC037316, dJ54B20.2, FLJ20573, MGC138344
1	ERI3	ENSG00000117419	ENST00000456170	protein_coding	KNOWN	None	17276	615	204	44686742	44785422	-1	PRNPIP	FLJ22943, PINT1
1	ERI3	ENSG00000117419	ENST00000372259	protein_coding	KNOWN	None	17276	669	222	44686742	44788715	-1	PRNPIP	FLJ22943, PINT1
1	ERI3	ENSG00000117419	ENST00000372257	protein_coding	KNOWN	CCDS30696	17276	1014	337	44686742	44820880	-1	PRNPIP	FLJ22943, PINT1
1	ERI3	ENSG00000117419	ENST00000489710	processed_transcript	KNOWN	None	17276	None	None	44687101	44713638	-1	PRNPIP	FLJ22943, PINT1
1	ERI3	ENSG00000117419	ENST00000479101	processed_transcript	KNOWN	None	17276	None	None	44687176	44713674	-1	PRNPIP	FLJ22943, PINT1
1	ERI3	ENSG00000117419	ENST00000462341	processed_transcript	KNOWN	None	17276	None	None	44687265	44722593	-1	PRNPIP	FLJ22943, PINT1
1	ERI3	ENSG00000117419	ENST00000452396	protein_coding	KNOWN	None	17276	530	175	44713658	44820932	-1	PRNPIP	FLJ22943, PINT1
1	ERI3	ENSG00000117419	ENST00000495828	processed_transcript	KNOWN	None	17276	None	None	44750502	44820910	-1	PRNPIP	FLJ22943, PINT1
1	ERI3	ENSG00000117419	ENST00000457571	protein_coding	KNOWN	None	17276	752	249	44773982	44820921	-1	PRNPIP	FLJ22943, PINT1
1	ERI3	ENSG00000117419	ENST00000537474	protein_coding	KNOWN	None	17276	483	160	44686766	44818599	-1	PRNPIP	FLJ22943, PINT1
2	MXD1	ENSG00000059728	ENST00000435990	protein_coding	PUTATIVE	None	6761	545	180	70124820	70165391	1	MAD	MAD1, bHLHc58
2	MXD1	ENSG00000059728	ENST00000264444	protein_coding	KNOWN	CCDS1896	6761	666	221	70142203	70170077	1	MAD	MAD1, bHLHc58
2	MXD1	ENSG00000059728	ENST00000409442	nonsense_mediated_decay	KNOWN	None	6761	222	73	70142241	70165324	1	MAD	MAD1, bHLHc58
2	MXD1	ENSG00000059728	ENST00000410000	retained_intron	KNOWN	None	6761	None	None	70142264	70143578	1	MAD	MAD1, bHLHc58
2	MXD1	ENSG00000059728	ENST00000465446	processed_transcript	PUTATIVE	None	6761	None	None	70165284	70170074	1	MAD	MAD1, bHLHc58
2	MXD1	ENSG00000059728	ENST00000540449	protein_coding	KNOWN	CCDS56123	6761	636	211	70142320	70165449	1	MAD	MAD1, bHLHc58
9	AK1	ENSG00000106992	ENST00000373176	protein_coding	KNOWN	CCDS6881	361	585	194	130628759	130640022	-1	None	None
9	AK1	ENSG00000106992	ENST00000550143	nonsense_mediated_decay	KNOWN	None	361	156	51	130630120	130634992	-1	None	None
9	AK1	ENSG00000106992	ENST00000413016	protein_coding	PUTATIVE	None	361	407	134	130630169	130635333	-1	None	None
9	AK1	ENSG00000106992	ENST00000373156	protein_coding	NOVEL	CCDS6881	361	585	194	130630278	130637286	-1	None	None
9	AK1	ENSG00000106992	ENST00000223836	protein_coding	PUTATIVE	None	361	633	210	130630280	130635823	-1	None	None
9	AK1	ENSG00000106992	ENST00000550992	nonsense_mediated_decay	KNOWN	None	361	99	32	130630742	130639950	-1	None	None
7	ROBO2P1	ENSG00000229478	ENST00000422054	processed_pseudogene	KNOWN	None	44386	None	None	51667982	51668269	-1	None	None
7	None	ENSG00000229403	ENST00000414409	lincRNA	KNOWN	None	None	None	None	51681947	51698566	1	None	None
7	RN7SL292P	ENSG00000242650	ENST00000473305	misc_RNA	KNOWN	None	46308	None	None	51784354	51784615	1	None	None
7	None	ENSG00000233960	ENST00000441295	lincRNA	KNOWN	None	None	None	None	52232931	52260609	-1	None	None
7	None	ENSG00000253028	ENST00000517219	snoRNA	NOVEL	None	None	None	None	52337133	52337265	-1	None	None
7	None	ENSG00000238506	ENST00000459429	snoRNA	NOVEL	None	None	None	None	52391494	52391585	-1	None	None
7	None	ENSG00000234304	ENST00000429458	processed_pseudogene	KNOWN	None	None	None	None	52959530	52965500	-1	None	None
1	SETDB1	ENSG00000143379	ENST00000525956	protein_coding	KNOWN	None	10761	490	162	150898739	150913847	1	None	KG1T, KIAA0067, ESET, KMT1E, TDRD21
1	SETDB1	ENSG00000143379	ENST00000487584	processed_transcript	KNOWN	None	10761	None	None	150898739	150913853	1	None	KG1T, KIAA0067, ESET, KMT1E, TDRD21
1	SETDB1	ENSG00000143379	ENST00000463774	retained_intron	KNOWN	None	10761	None	None	150898781	150900705	1	None	KG1T, KIAA0067, ESET, KMT1E, TDRD21
1	SETDB1	ENSG00000143379	ENST00000271640	protein_coding	KNOWN	CCDS44217	10761	3876	1291	150898815	150937211	1	None	KG1T, KIAA0067, ESET, KMT1E, TDRD21
1	SETDB1	ENSG00000143379	ENST00000448029	protein_coding	KNOWN	None	10761	470	155	150898821	150913827	1	None	KG1T, KIAA0067, ESET, KMT1E, TDRD21
1	SETDB1	ENSG00000143379	ENST00000368962	protein_coding	KNOWN	CCDS58026	10761	1194	397	150898825	150917796	1	None	KG1T, KIAA0067, ESET, KMT1E, TDRD21
1	SETDB1	ENSG00000143379	ENST00000534805	protein_coding	NOVEL	None	10761	1909	635	150898871	150923259	1	None	KG1T, KIAA0067, ESET, KMT1E, TDRD21
1	SETDB1	ENSG00000143379	ENST00000368969	protein_coding	KNOWN	CCDS972	10761	3873	1290	150898888	150937213	1	None	KG1T, KIAA0067, ESET, KMT1E, TDRD21
1	SETDB1	ENSG00000143379	ENST00000368963	protein_coding	PUTATIVE	None	10761	750	249	150898900	150917586	1	None	KG1T, KIAA0067, ESET, KMT1E, TDRD21
1	SETDB1	ENSG00000143379	ENST00000459773	processed_transcript	KNOWN	None	10761	None	None	150898900	150933366	1	None	KG1T, KIAA0067, ESET, KMT1E, TDRD21
1	SETDB1	ENSG00000143379	ENST00000498193	protein_coding	KNOWN	None	10761	3779	1258	150898957	150936327	1	None	KG1T, KIAA0067, ESET, KMT1E, TDRD21
1	SETDB1	ENSG00000143379	ENST00000368964	nonsense_mediated_decay	KNOWN	None	10761	336	111	150898963	150913894	1	None	KG1T, KIAA0067, ESET, KMT1E, TDRD21
1	SETDB1	ENSG00000143379	ENST00000423081	protein_coding	PUTATIVE	None	10761	452	149	150899116	150902592	1	None	KG1T, KIAA0067, ESET, KMT1E, TDRD21
1	SETDB1	ENSG00000143379	ENST00000481219	retained_intron	KNOWN	None	10761	None	None	150900318	150902932	1	None	KG1T, KIAA0067, ESET, KMT1E, TDRD21
1	SETDB1	ENSG00000143379	ENST00000497314	retained_intron	KNOWN	None	10761	None	None	150933793	150937211	1	None	KG1T, KIAA0067, ESET, KMT1E, TDRD21
1	SETDB1	ENSG00000143379	ENST00000528749	retained_intron	KNOWN	None	10761	None	None	150934604	150935558	1	None	KG1T, KIAA0067, ESET, KMT1E, TDRD21
1	SETDB1	ENSG00000143379	ENST00000533529	retained_intron	KNOWN	None	10761	None	None	150935450	150936324	1	None	KG1T, KIAA0067, ESET, KMT1E, TDRD21
7	None	ENSG00000223970	ENST00000418013	processed_pseudogene	KNOWN	None	None	None	None	53070113	53071122	1	None	None
7	HAUS6P1	ENSG00000227344	ENST00000421150	processed_pseudogene	KNOWN	None	43764	None	None	53255081	53256631	1	None	None
7	None	ENSG00000271194	ENST00000603490	processed_pseudogene	KNOWN	None	None	None	None	53383842	53384433	1	None	None
11	TPP1	ENSG00000166340	ENST00000299427	protein_coding	KNOWN	CCDS7770	2073	1692	563	6634000	6640692	-1	CLN2	None
11	TPP1	ENSG00000166340	ENST00000533371	protein_coding	NOVEL	None	2073	963	320	6634003	6640585	-1	CLN2	None
11	TPP1	ENSG00000166340	ENST00000524611	processed_transcript	PUTATIVE	None	2073	None	None	6635877	6636704	-1	CLN2	None
11	TPP1	ENSG00000166340	ENST00000532191	processed_transcript	PUTATIVE	None	2073	None	None	6636447	6636991	-1	CLN2	None
11	TPP1	ENSG00000166340	ENST00000524924	processed_transcript	PUTATIVE	None	2073	None	None	6636493	6637335	-1	CLN2	None
11	TPP1	ENSG00000166340	ENST00000436873	protein_coding	PUTATIVE	None	2073	531	176	6637654	6640660	-1	CLN2	None
11	TPP1	ENSG00000166340	ENST00000528807	processed_transcript	PUTATIVE	None	2073	None	None	6637743	6638442	-1	CLN2	None
11	TPP1	ENSG00000166340	ENST00000524788	processed_transcript	PUTATIVE	None	2073	None	None	6637925	6638592	-1	CLN2	None
11	TPP1	ENSG00000166340	ENST00000528571	nonsense_mediated_decay	KNOWN	None	2073	120	39	6638214	6640653	-1	CLN2	None
11	TPP1	ENSG00000166340	ENST00000428886	retained_intron	KNOWN	None	2073	None	None	6638221	6640653	-1	CLN2	None
11	TPP1	ENSG00000166340	ENST00000534644	processed_transcript	KNOWN	None	2073	None	None	6638242	6640640	-1	CLN2	None
11	TPP1	ENSG00000166340	ENST00000530040	processed_transcript	KNOWN	None	2073	None	None	6638601	6640627	-1	CLN2	None
11	TPP1	ENSG00000166340	ENST00000528917	retained_intron	KNOWN	None	2073	None	None	6638979	6640652	-1	CLN2	None
11	TPP1	ENSG00000166340	ENST00000531754	retained_intron	KNOWN	None	2073	None	None	6639674	6640679	-1	CLN2	None
11	TPP1	ENSG00000166340	ENST00000524903	processed_transcript	PUTATIVE	None	2073	None	None	6639777	6640612	-1	CLN2	None
11	TPP1	ENSG00000166340	ENST00000528657	protein_coding	NOVEL	None	2073	93	30	6639960	6640653	-1	CLN2	None
8	THAP1	ENSG00000131931	ENST00000254250	protein_coding	KNOWN	CCDS6136	20856	642	213	42691817	42698468	-1	DYT6	FLJ10477, 4833431A01Rik
8	THAP1	ENSG00000131931	ENST00000345117	protein_coding	KNOWN	CCDS6137	20856	162	53	42691819	42698448	-1	DYT6	FLJ10477, 4833431A01Rik
8	THAP1	ENSG00000131931	ENST00000529779	protein_coding	NOVEL	None	20856	354	117	42693288	42698344	-1	DYT6	FLJ10477, 4833431A01Rik
8	THAP1	ENSG00000131931	ENST00000532093	processed_transcript	KNOWN	None	20856	None	None	42694351	42697931	-1	DYT6	FLJ10477, 4833431A01Rik
7	ANLN	ENSG00000011426	ENST00000265748	protein_coding	KNOWN	CCDS5447	14082	3375	1124	36429415	36493400	1	None	ANILLIN, Scraps, scra
7	ANLN	ENSG00000011426	ENST00000396068	protein_coding	KNOWN	None	14082	3264	1087	36429430	36493400	1	None	ANILLIN, Scraps, scra
7	ANLN	ENSG00000011426	ENST00000424865	protein_coding	PUTATIVE	None	14082	507	168	36429780	36445875	1	None	ANILLIN, Scraps, scra
7	ANLN	ENSG00000011426	ENST00000418118	protein_coding	PUTATIVE	None	14082	108	35	36429844	36436030	1	None	ANILLIN, Scraps, scra
7	ANLN	ENSG00000011426	ENST00000460598	processed_transcript	PUTATIVE	None	14082	None	None	36443102	36447451	1	None	ANILLIN, Scraps, scra
7	ANLN	ENSG00000011426	ENST00000429082	nonsense_mediated_decay	KNOWN	None	14082	222	73	36446011	36450275	1	None	ANILLIN, Scraps, scra
7	ANLN	ENSG00000011426	ENST00000441696	nonsense_mediated_decay	KNOWN	None	14082	209	68	36446012	36455392	1	None	ANILLIN, Scraps, scra
7	ANLN	ENSG00000011426	ENST00000452877	nonsense_mediated_decay	KNOWN	None	14082	79	25	36446142	36455494	1	None	ANILLIN, Scraps, scra
7	ANLN	ENSG00000011426	ENST00000495714	processed_transcript	KNOWN	None	14082	None	None	36446160	36456757	1	None	ANILLIN, Scraps, scra
7	ANLN	ENSG00000011426	ENST00000428612	protein_coding	NOVEL	None	14082	707	234	36450169	36489409	1	None	ANILLIN, Scraps, scra
7	ANLN	ENSG00000011426	ENST00000446635	protein_coding	NOVEL	None	14082	829	275	36459833	36465643	1	None	ANILLIN, Scraps, scra
7	ANLN	ENSG00000011426	ENST00000457743	protein_coding	NOVEL	None	14082	757	251	36462332	36489287	1	None	ANILLIN, Scraps, scra
7	ANLN	ENSG00000011426	ENST00000491782	retained_intron	KNOWN	None	14082	None	None	36488548	36493264	1	None	ANILLIN, Scraps, scra
7	PNPLA8	ENSG00000135241	ENST00000426128	protein_coding	NOVEL	CCDS59508	28900	2163	720	108110866	108166515	-1	None	IPLA2G, IPLA2-2, iPLA2gamma
7	PNPLA8	ENSG00000135241	ENST00000257694	protein_coding	KNOWN	CCDS34733	28900	2349	782	108111999	108166638	-1	None	IPLA2G, IPLA2-2, iPLA2gamma
7	PNPLA8	ENSG00000135241	ENST00000422087	protein_coding	NOVEL	CCDS34733	28900	2349	782	108112071	108166638	-1	None	IPLA2G, IPLA2-2, iPLA2gamma
7	PNPLA8	ENSG00000135241	ENST00000453144	protein_coding	PUTATIVE	CCDS59075	28900	2049	682	108112071	108166759	-1	None	IPLA2G, IPLA2-2, iPLA2gamma
7	PNPLA8	ENSG00000135241	ENST00000436062	protein_coding	NOVEL	CCDS34733	28900	2349	782	108112105	108166762	-1	None	IPLA2G, IPLA2-2, iPLA2gamma
7	PNPLA8	ENSG00000135241	ENST00000453085	protein_coding	PUTATIVE	None	28900	1919	638	108112975	108168605	-1	None	IPLA2G, IPLA2-2, iPLA2gamma
7	PNPLA8	ENSG00000135241	ENST00000483879	processed_transcript	KNOWN	None	28900	None	None	108136871	108166607	-1	None	IPLA2G, IPLA2-2, iPLA2gamma
7	PNPLA8	ENSG00000135241	ENST00000476592	processed_transcript	KNOWN	None	28900	None	None	108137029	108166564	-1	None	IPLA2G, IPLA2-2, iPLA2gamma
7	PNPLA8	ENSG00000135241	ENST00000462466	retained_intron	KNOWN	None	28900	None	None	108137036	108143232	-1	None	IPLA2G, IPLA2-2, iPLA2gamma
7	PNPLA8	ENSG00000135241	ENST00000489738	processed_transcript	KNOWN	None	28900	None	None	108137925	108210110	-1	None	IPLA2G, IPLA2-2, iPLA2gamma
7	PNPLA8	ENSG00000135241	ENST00000427008	protein_coding	KNOWN	None	28900	578	191	108155358	108166567	-1	None	IPLA2G, IPLA2-2, iPLA2gamma
7	PNPLA8	ENSG00000135241	ENST00000415498	protein_coding	KNOWN	None	28900	165	54	108155771	108168379	-1	None	IPLA2G, IPLA2-2, iPLA2gamma
7	PNPLA8	ENSG00000135241	ENST00000388728	protein_coding	KNOWN	None	28900	2163	720	108111999	108166568	-1	None	IPLA2G, IPLA2-2, iPLA2gamma
3	RPL39L	ENSG00000163923	ENST00000455270	protein_coding	KNOWN	CCDS3286	17094	156	51	186838736	186857272	-1	RPL39L1	None
3	RPL39L	ENSG00000163923	ENST00000296277	protein_coding	KNOWN	CCDS3286	17094	156	51	186838736	186857311	-1	RPL39L1	None
3	RPL39L	ENSG00000163923	ENST00000433055	protein_coding	KNOWN	CCDS3286	17094	156	51	186838736	186898696	-1	RPL39L1	None
16	NUDT7	ENSG00000140876	ENST00000564085	protein_coding	PUTATIVE	CCDS58479	8054	513	170	77756411	77775866	1	None	None
16	NUDT7	ENSG00000140876	ENST00000268533	protein_coding	KNOWN	CCDS42195	8054	717	238	77756411	77776157	1	None	None
16	NUDT7	ENSG00000140876	ENST00000568787	protein_coding	PUTATIVE	None	8054	363	120	77756413	77770146	1	None	None
16	NUDT7	ENSG00000140876	ENST00000437314	protein_coding	NOVEL	CCDS58480	8054	558	185	77756416	77776155	1	None	None
16	NUDT7	ENSG00000140876	ENST00000563839	protein_coding	PUTATIVE	None	8054	48	15	77756442	77775721	1	None	None
16	NUDT7	ENSG00000140876	ENST00000564031	processed_transcript	PUTATIVE	None	8054	None	None	77771302	77776154	1	None	None
7	RNU1-14P	ENSG00000199629	ENST00000362759	snRNA	KNOWN	None	10139	None	None	53433751	53433902	1	RNU1P7	U1P17
7	RN7SKP218	ENSG00000222154	ENST00000410222	misc_RNA	KNOWN	None	45942	None	None	53557841	53558132	-1	None	None
7	None	ENSG00000234105	ENST00000457372	lincRNA	KNOWN	None	None	None	None	53582685	53584809	-1	None	None
2	None	ENSG00000268328	ENST00000599032	protein_coding	NOVEL	None	None	192	63	70129482	70129841	-1	None	None
2	ASPRV1	ENSG00000244617	ENST00000320256	protein_coding	KNOWN	CCDS1897	26321	1032	343	70187226	70189397	-1	None	Taps, SASPase, FLJ25084
7	None	ENSG00000228627	ENST00000412800	lincRNA	KNOWN	None	None	None	None	53626907	53635942	-1	None	None
5	DDX46	ENSG00000145833	ENST00000507392	nonsense_mediated_decay	KNOWN	None	18681	1416	471	134094469	134164729	1	None	KIAA0801, FLJ25329, PRPF5, Prp5
5	DDX46	ENSG00000145833	ENST00000452510	protein_coding	KNOWN	None	18681	3099	1032	134094471	134166828	1	None	KIAA0801, FLJ25329, PRPF5, Prp5
5	DDX46	ENSG00000145833	ENST00000354283	protein_coding	KNOWN	CCDS34240	18681	3096	1031	134094494	134164986	1	None	KIAA0801, FLJ25329, PRPF5, Prp5
5	DDX46	ENSG00000145833	ENST00000509255	retained_intron	KNOWN	None	18681	None	None	134109475	134113584	1	None	KIAA0801, FLJ25329, PRPF5, Prp5
5	DDX46	ENSG00000145833	ENST00000513987	retained_intron	KNOWN	None	18681	None	None	134116426	134117642	1	None	KIAA0801, FLJ25329, PRPF5, Prp5
5	DDX46	ENSG00000145833	ENST00000505592	retained_intron	KNOWN	None	18681	None	None	134116831	134120383	1	None	KIAA0801, FLJ25329, PRPF5, Prp5
5	DDX46	ENSG00000145833	ENST00000513592	nonsense_mediated_decay	KNOWN	None	18681	89	28	134117741	134130614	1	None	KIAA0801, FLJ25329, PRPF5, Prp5
5	DDX46	ENSG00000145833	ENST00000509178	processed_transcript	KNOWN	None	18681	None	None	134117760	134130658	1	None	KIAA0801, FLJ25329, PRPF5, Prp5
5	DDX46	ENSG00000145833	ENST00000503946	retained_intron	KNOWN	None	18681	None	None	134125843	134165622	1	None	KIAA0801, FLJ25329, PRPF5, Prp5
5	DDX46	ENSG00000145833	ENST00000507053	nonsense_mediated_decay	KNOWN	None	18681	211	69	134154606	134190823	1	None	KIAA0801, FLJ25329, PRPF5, Prp5
5	DDX46	ENSG00000145833	ENST00000506332	retained_intron	KNOWN	None	18681	None	None	134161503	134164729	1	None	KIAA0801, FLJ25329, PRPF5, Prp5
1	RCOR3	ENSG00000117625	ENST00000534478	protein_coding	KNOWN	None	25594	259	85	211431719	211449677	1	None	FLJ10876
1	RCOR3	ENSG00000117625	ENST00000533469	protein_coding	KNOWN	None	25594	449	148	211431750	211451565	1	None	FLJ10876
1	RCOR3	ENSG00000117625	ENST00000367006	protein_coding	KNOWN	CCDS44313	25594	1311	436	211432621	211487933	1	None	FLJ10876
1	RCOR3	ENSG00000117625	ENST00000452621	protein_coding	KNOWN	CCDS44314	25594	1350	449	211432730	211486640	1	None	FLJ10876
1	RCOR3	ENSG00000117625	ENST00000528926	nonsense_mediated_decay	KNOWN	None	25594	1125	374	211432738	211486146	1	None	FLJ10876
1	RCOR3	ENSG00000117625	ENST00000419091	protein_coding	NOVEL	CCDS44312	25594	1662	553	211432775	211487361	1	None	FLJ10876
1	RCOR3	ENSG00000117625	ENST00000528408	retained_intron	KNOWN	None	25594	None	None	211432895	211444912	1	None	FLJ10876
1	RCOR3	ENSG00000117625	ENST00000472734	processed_transcript	KNOWN	None	25594	None	None	211432948	211434544	1	None	FLJ10876
1	RCOR3	ENSG00000117625	ENST00000529572	nonsense_mediated_decay	KNOWN	None	25594	135	44	211433289	211452618	1	None	FLJ10876
1	RCOR3	ENSG00000117625	ENST00000367005	protein_coding	KNOWN	CCDS31016	25594	1488	495	211433317	211489727	1	None	FLJ10876
1	RCOR3	ENSG00000117625	ENST00000534460	protein_coding	NOVEL	None	25594	427	141	211452580	211486816	1	None	FLJ10876
1	RCOR3	ENSG00000117625	ENST00000529763	protein_coding	NOVEL	None	25594	720	239	211462520	211487014	1	None	FLJ10876
1	RCOR3	ENSG00000117625	ENST00000485186	nonsense_mediated_decay	KNOWN	None	25594	224	73	211462674	211486161	1	None	FLJ10876
1	RCOR3	ENSG00000117625	ENST00000486666	retained_intron	KNOWN	None	25594	None	None	211474803	211487929	1	None	FLJ10876
1	RCOR3	ENSG00000117625	ENST00000528066	retained_intron	KNOWN	None	25594	None	None	211477353	211486367	1	None	FLJ10876
1	RCOR3	ENSG00000117625	ENST00000526255	processed_transcript	KNOWN	None	25594	None	None	211485579	211487181	1	None	FLJ10876
7	None	ENSG00000205628	ENST00000380970	processed_transcript	KNOWN	None	None	None	None	53723202	53879624	-1	None	None
8	CCNE2	ENSG00000175305	ENST00000520509	protein_coding	KNOWN	CCDS6264	1590	1215	404	95891998	95908906	-1	None	CYCE2
8	CCNE2	ENSG00000175305	ENST00000396133	protein_coding	PUTATIVE	None	1590	1125	374	95893842	95907482	-1	None	CYCE2
8	CCNE2	ENSG00000175305	ENST00000524224	protein_coding	PUTATIVE	None	1590	458	151	95895947	95902686	-1	None	CYCE2
8	CCNE2	ENSG00000175305	ENST00000523476	processed_transcript	KNOWN	None	1590	None	None	95897680	95905818	-1	None	CYCE2
8	CCNE2	ENSG00000175305	ENST00000521809	nonsense_mediated_decay	KNOWN	None	1590	228	75	95897691	95907426	-1	None	CYCE2
8	CCNE2	ENSG00000175305	ENST00000519889	nonsense_mediated_decay	KNOWN	None	1590	186	61	95902741	95907429	-1	None	CYCE2
8	CCNE2	ENSG00000175305	ENST00000517487	retained_intron	KNOWN	None	1590	None	None	95905883	95906878	-1	None	CYCE2
8	CCNE2	ENSG00000175305	ENST00000308108	protein_coding	KNOWN	CCDS6264	1590	1215	404	95892455	95907484	-1	None	CYCE2
2	PCBP1	ENSG00000169564	ENST00000303577	protein_coding	KNOWN	CCDS1898	8647	1071	356	70314585	70316332	1	None	HNRPE1, hnRNP-E1, HNRPX, hnRNP-X
8	SCARA5	ENSG00000168079	ENST00000354914	protein_coding	KNOWN	CCDS6064	28701	1488	495	27727399	27850244	-1	None	FLJ23907, MGC45780, NET33
8	SCARA5	ENSG00000168079	ENST00000380385	protein_coding	KNOWN	None	28701	813	270	27727753	27850181	-1	None	FLJ23907, MGC45780, NET33
8	SCARA5	ENSG00000168079	ENST00000524352	protein_coding	KNOWN	None	28701	1203	400	27761886	27850141	-1	None	FLJ23907, MGC45780, NET33
8	SCARA5	ENSG00000168079	ENST00000518030	protein_coding	KNOWN	None	28701	1074	357	27762245	27845132	-1	None	FLJ23907, MGC45780, NET33
8	SCARA5	ENSG00000168079	ENST00000301906	protein_coding	KNOWN	None	28701	1074	357	27762245	27850198	-1	None	FLJ23907, MGC45780, NET33
6	None	ENSG00000231811	ENST00000437430	lincRNA	KNOWN	None	None	None	None	4345977	4347271	-1	None	None
8	RNF170	ENSG00000120925	ENST00000319104	protein_coding	KNOWN	CCDS55230	25358	603	200	42704780	42751728	-1	None	DKFZP564A022
8	RNF170	ENSG00000120925	ENST00000527424	protein_coding	KNOWN	CCDS6138	25358	777	258	42708444	42751864	-1	None	DKFZP564A022
8	RNF170	ENSG00000120925	ENST00000240159	nonsense_mediated_decay	KNOWN	None	25358	351	116	42710391	42751798	-1	None	DKFZP564A022
8	RNF170	ENSG00000120925	ENST00000526349	protein_coding	PUTATIVE	CCDS55229	25358	525	174	42710850	42751849	-1	None	DKFZP564A022
8	RNF170	ENSG00000120925	ENST00000528318	retained_intron	KNOWN	None	25358	None	None	42716473	42751866	-1	None	DKFZP564A022
8	RNF170	ENSG00000120925	ENST00000531440	protein_coding	KNOWN	None	25358	346	114	42720609	42751741	-1	None	DKFZP564A022
8	RNF170	ENSG00000120925	ENST00000524954	protein_coding	KNOWN	None	25358	137	44	42742871	42752433	-1	None	DKFZP564A022
8	RNF170	ENSG00000120925	ENST00000534961	protein_coding	KNOWN	CCDS6138	25358	777	258	42708440	42751866	-1	None	DKFZP564A022
8	RNF170	ENSG00000120925	ENST00000319073	protein_coding	KNOWN	None	25358	489	162	42708440	42751866	-1	None	DKFZP564A022
6	RNA5SP202	ENSG00000201185	ENST00000364315	rRNA	KNOWN	None	43102	None	None	4428197	4428315	1	RN5S202	None
10	LCOR	ENSG00000196233	ENST00000371103	protein_coding	KNOWN	CCDS7451	29503	1302	433	98592039	98718690	1	None	MLR2, FLJ38026, KIAA1795
10	LCOR	ENSG00000196233	ENST00000356016	protein_coding	KNOWN	CCDS7451	29503	1302	433	98592712	98718648	1	None	MLR2, FLJ38026, KIAA1795
10	LCOR	ENSG00000196233	ENST00000371097	protein_coding	KNOWN	CCDS7451	29503	1302	433	98592737	98718683	1	None	MLR2, FLJ38026, KIAA1795
10	LCOR	ENSG00000196233	ENST00000493486	processed_transcript	KNOWN	None	29503	None	None	98667042	98708883	1	None	MLR2, FLJ38026, KIAA1795
10	LCOR	ENSG00000196233	ENST00000469510	retained_intron	KNOWN	None	29503	None	None	98667043	98667847	1	None	MLR2, FLJ38026, KIAA1795
10	LCOR	ENSG00000196233	ENST00000498444	processed_transcript	KNOWN	None	29503	None	None	98708899	98740800	1	None	MLR2, FLJ38026, KIAA1795
10	LCOR	ENSG00000196233	ENST00000463415	processed_transcript	KNOWN	None	29503	None	None	98708980	98718272	1	None	MLR2, FLJ38026, KIAA1795
10	LCOR	ENSG00000196233	ENST00000540664	protein_coding	KNOWN	CCDS53561	29503	1221	406	98592017	98724188	1	None	MLR2, FLJ38026, KIAA1795
6	None	ENSG00000260239	ENST00000563079	lincRNA	KNOWN	None	None	None	None	4492041	4496003	1	None	None
8	DENND3	ENSG00000105339	ENST00000519291	protein_coding	PUTATIVE	None	29134	374	123	142127377	142151375	1	None	KIAA0870
8	DENND3	ENSG00000105339	ENST00000518347	protein_coding	NOVEL	None	29134	627	208	142138711	142151554	1	None	KIAA0870
8	DENND3	ENSG00000105339	ENST00000518198	nonsense_mediated_decay	KNOWN	None	29134	204	67	142138720	142152610	1	None	KIAA0870
8	DENND3	ENSG00000105339	ENST00000519811	protein_coding	NOVEL	None	29134	3837	1278	142138737	142205907	1	None	KIAA0870
8	DENND3	ENSG00000105339	ENST00000520986	protein_coding	PUTATIVE	None	29134	840	279	142138748	142161936	1	None	KIAA0870
8	DENND3	ENSG00000105339	ENST00000523058	protein_coding	PUTATIVE	None	29134	873	290	142138774	142161007	1	None	KIAA0870
8	DENND3	ENSG00000105339	ENST00000518668	protein_coding	NOVEL	None	29134	3610	1202	142138878	142205907	1	None	KIAA0870
8	DENND3	ENSG00000105339	ENST00000518249	protein_coding	PUTATIVE	None	29134	309	102	142151302	142153107	1	None	KIAA0870
8	DENND3	ENSG00000105339	ENST00000523015	retained_intron	KNOWN	None	29134	None	None	142154013	142160988	1	None	KIAA0870
8	DENND3	ENSG00000105339	ENST00000521477	processed_transcript	KNOWN	None	29134	None	None	142165993	142176332	1	None	KIAA0870
8	DENND3	ENSG00000105339	ENST00000520482	retained_intron	KNOWN	None	29134	None	None	142167494	142186365	1	None	KIAA0870
8	DENND3	ENSG00000105339	ENST00000523066	processed_transcript	PUTATIVE	None	29134	None	None	142183604	142186751	1	None	KIAA0870
8	DENND3	ENSG00000105339	ENST00000518806	processed_transcript	KNOWN	None	29134	None	None	142187186	142195322	1	None	KIAA0870
8	DENND3	ENSG00000105339	ENST00000517985	protein_coding	PUTATIVE	None	29134	369	122	142188220	142195557	1	None	KIAA0870
8	DENND3	ENSG00000105339	ENST00000517813	retained_intron	KNOWN	None	29134	None	None	142194587	142205906	1	None	KIAA0870
8	DENND3	ENSG00000105339	ENST00000523308	protein_coding	PUTATIVE	None	29134	747	248	142198448	142205901	1	None	KIAA0870
8	DENND3	ENSG00000105339	ENST00000520571	retained_intron	KNOWN	None	29134	None	None	142198997	142200723	1	None	KIAA0870
8	DENND3	ENSG00000105339	ENST00000523530	retained_intron	KNOWN	None	29134	None	None	142201373	142203000	1	None	KIAA0870
8	DENND3	ENSG00000105339	ENST00000521835	retained_intron	KNOWN	None	29134	None	None	142201373	142205898	1	None	KIAA0870
8	DENND3	ENSG00000105339	ENST00000520725	protein_coding	PUTATIVE	None	29134	512	169	142202430	142203169	1	None	KIAA0870
8	DENND3	ENSG00000105339	ENST00000262585	protein_coding	KNOWN	CCDS34947	29134	3597	1198	142138720	142205895	1	None	KIAA0870
8	DENND3	ENSG00000105339	ENST00000424248	protein_coding	KNOWN	None	29134	3441	1146	142138720	142205895	1	None	KIAA0870
9	MIR1302-2	ENSG00000227518	ENST00000422679	antisense	KNOWN	None	35294	None	None	27657	30891	1	MIRN1302-2	hsa-mir-1302-2
9	MIR1302-2	ENSG00000227518	ENST00000408365	miRNA	KNOWN	None	35294	None	None	30144	30281	1	MIRN1302-2	hsa-mir-1302-2
9	MIR1302-9	ENSG00000227518	ENST00000422679	antisense	KNOWN	None	38218	None	None	27657	30891	1	None	hsa-mir-1302-9
9	MIR1302-9	ENSG00000227518	ENST00000408365	miRNA	KNOWN	None	38218	None	None	30144	30281	1	None	hsa-mir-1302-9
9	MIR1302-10	ENSG00000227518	ENST00000422679	antisense	KNOWN	None	38233	None	None	27657	30891	1	None	hsa-mir-1302-10
9	MIR1302-10	ENSG00000227518	ENST00000408365	miRNA	KNOWN	None	38233	None	None	30144	30281	1	None	hsa-mir-1302-10
9	MIR1302-11	ENSG00000227518	ENST00000422679	antisense	KNOWN	None	38246	None	None	27657	30891	1	None	hsa-mir-1302-11
9	MIR1302-11	ENSG00000227518	ENST00000408365	miRNA	KNOWN	None	38246	None	None	30144	30281	1	None	hsa-mir-1302-11
19	None	ENSG00000268614	ENST00000601870	nonsense_mediated_decay	KNOWN	None	None	91	29	7598481	7604945	1	None	None
9	FAM138C	ENSG00000218839	ENST00000449442	lincRNA	KNOWN	None	32333	None	None	34394	35841	-1	None	F379
9	FAM138C	ENSG00000218839	ENST00000305248	lincRNA	KNOWN	None	32333	None	None	35028	35856	-1	None	F379
17	YBX2	ENSG00000006047	ENST00000007699	protein_coding	KNOWN	CCDS11098	17948	1095	364	7191571	7197883	-1	None	MSY2, CSDA3
17	YBX2	ENSG00000006047	ENST00000571834	retained_intron	KNOWN	None	17948	None	None	7191582	7197254	-1	None	MSY2, CSDA3
17	YBX2	ENSG00000006047	ENST00000571485	retained_intron	KNOWN	None	17948	None	None	7191582	7197908	-1	None	MSY2, CSDA3
17	YBX2	ENSG00000006047	ENST00000571464	protein_coding	PUTATIVE	None	17948	493	163	7191688	7193711	-1	None	MSY2, CSDA3
17	YBX2	ENSG00000006047	ENST00000570720	retained_intron	KNOWN	None	17948	None	None	7192856	7193882	-1	None	MSY2, CSDA3
17	YBX2	ENSG00000006047	ENST00000570627	processed_transcript	KNOWN	None	17948	None	None	7193686	7197934	-1	None	MSY2, CSDA3
17	YBX2	ENSG00000006047	ENST00000571127	retained_intron	KNOWN	None	17948	None	None	7196394	7197875	-1	None	MSY2, CSDA3
X	SPACA5	ENSG00000171489	ENST00000376940	protein_coding	KNOWN	CCDS14286	31353	480	159	47867194	47869126	1	None	SLLP2, LYZL5, LYC5, UNQ6288, dJ54B20.3, PNPK6288
X	SPACA5	ENSG00000171489	ENST00000304355	protein_coding	KNOWN	CCDS14286	31353	480	159	47863734	47869126	1	None	SLLP2, LYZL5, LYC5, UNQ6288, dJ54B20.3, PNPK6288
6	TOMM6	ENSG00000214736	ENST00000398884	protein_coding	NOVEL	CCDS47424	34528	225	74	41755400	41757636	1	None	OBTP
6	TOMM6	ENSG00000214736	ENST00000398881	protein_coding	NOVEL	CCDS47424	34528	225	74	41755403	41757634	1	None	OBTP
12	USP44	ENSG00000136014	ENST00000258499	protein_coding	KNOWN	CCDS9053	20064	2139	712	95910336	95945266	-1	None	FLJ14528
12	USP44	ENSG00000136014	ENST00000393091	protein_coding	KNOWN	CCDS9053	20064	2139	712	95911052	95942620	-1	None	FLJ14528
12	USP44	ENSG00000136014	ENST00000552440	protein_coding	PUTATIVE	None	20064	1491	496	95911919	95928102	-1	None	FLJ14528
12	USP44	ENSG00000136014	ENST00000537435	protein_coding	KNOWN	CCDS9053	20064	2139	712	95911930	95942048	-1	None	FLJ14528
12	USP44	ENSG00000136014	ENST00000552237	retained_intron	KNOWN	None	20064	None	None	95918296	95922776	-1	None	FLJ14528
12	USP44	ENSG00000136014	ENST00000551837	protein_coding	KNOWN	None	20064	493	163	95927540	95942595	-1	None	FLJ14528
12	USP44	ENSG00000136014	ENST00000549639	protein_coding	KNOWN	None	20064	334	110	95927699	95942574	-1	None	FLJ14528
12	USP44	ENSG00000136014	ENST00000547951	processed_transcript	PUTATIVE	None	20064	None	None	95940226	95942445	-1	None	FLJ14528
5	FGF1	ENSG00000113578	ENST00000359370	protein_coding	KNOWN	CCDS4275	3665	468	155	141971743	142000907	-1	FGFA	AFGF, ECGF, ECGFA, ECGFB, HBGF1, ECGF-beta, FGF-alpha, GLIO703
5	FGF1	ENSG00000113578	ENST00000378046	protein_coding	KNOWN	CCDS4275	3665	468	155	141972934	142065237	-1	FGFA	AFGF, ECGF, ECGFA, ECGFB, HBGF1, ECGF-beta, FGF-alpha, GLIO703
5	FGF1	ENSG00000113578	ENST00000337706	protein_coding	KNOWN	CCDS4275	3665	468	155	141974317	142065950	-1	FGFA	AFGF, ECGF, ECGFA, ECGFB, HBGF1, ECGF-beta, FGF-alpha, GLIO703
5	FGF1	ENSG00000113578	ENST00000360966	protein_coding	PUTATIVE	CCDS4276	3665	183	60	141974653	142065616	-1	FGFA	AFGF, ECGF, ECGFA, ECGFB, HBGF1, ECGF-beta, FGF-alpha, GLIO703
5	FGF1	ENSG00000113578	ENST00000489937	retained_intron	KNOWN	None	3665	None	None	141974726	142077617	-1	FGFA	AFGF, ECGF, ECGFA, ECGFB, HBGF1, ECGF-beta, FGF-alpha, GLIO703
5	FGF1	ENSG00000113578	ENST00000407758	protein_coding	PUTATIVE	None	3665	282	93	141974796	142077586	-1	FGFA	AFGF, ECGF, ECGFA, ECGFB, HBGF1, ECGF-beta, FGF-alpha, GLIO703
5	FGF1	ENSG00000113578	ENST00000494344	retained_intron	KNOWN	None	3665	None	None	141974796	142077617	-1	FGFA	AFGF, ECGF, ECGFA, ECGFB, HBGF1, ECGF-beta, FGF-alpha, GLIO703
5	FGF1	ENSG00000113578	ENST00000441680	protein_coding	KNOWN	CCDS4275	3665	468	155	141974808	142077611	-1	FGFA	AFGF, ECGF, ECGFA, ECGFB, HBGF1, ECGF-beta, FGF-alpha, GLIO703
5	FGF1	ENSG00000113578	ENST00000419524	protein_coding	KNOWN	CCDS4275	3665	468	155	141974808	142077611	-1	FGFA	AFGF, ECGF, ECGFA, ECGFB, HBGF1, ECGF-beta, FGF-alpha, GLIO703
5	FGF1	ENSG00000113578	ENST00000494579	processed_transcript	KNOWN	None	3665	None	None	141974808	142077617	-1	FGFA	AFGF, ECGF, ECGFA, ECGFB, HBGF1, ECGF-beta, FGF-alpha, GLIO703
5	FGF1	ENSG00000113578	ENST00000394496	protein_coding	KNOWN	None	3665	175	57	141980365	142023766	-1	FGFA	AFGF, ECGF, ECGFA, ECGFB, HBGF1, ECGF-beta, FGF-alpha, GLIO703
5	FGF1	ENSG00000113578	ENST00000411960	protein_coding	KNOWN	None	3665	123	40	141993570	142065631	-1	FGFA	AFGF, ECGF, ECGFA, ECGFB, HBGF1, ECGF-beta, FGF-alpha, GLIO703
5	FAM193B	ENSG00000146067	ENST00000514747	protein_coding	NOVEL	CCDS54954	25524	2469	822	176946789	176981508	-1	None	KIAA1931, FLJ10404
5	FAM193B	ENSG00000146067	ENST00000513282	nonsense_mediated_decay	KNOWN	None	25524	91	29	176946790	176951014	-1	None	KIAA1931, FLJ10404
5	FAM193B	ENSG00000146067	ENST00000505569	retained_intron	KNOWN	None	25524	None	None	176946790	176952488	-1	None	KIAA1931, FLJ10404
5	FAM193B	ENSG00000146067	ENST00000510479	nonsense_mediated_decay	KNOWN	None	25524	363	120	176946791	176966067	-1	None	KIAA1931, FLJ10404
5	FAM193B	ENSG00000146067	ENST00000506955	nonsense_mediated_decay	KNOWN	None	25524	429	142	176946791	176981542	-1	None	KIAA1931, FLJ10404
5	FAM193B	ENSG00000146067	ENST00000506879	retained_intron	KNOWN	None	25524	None	None	176946792	176949163	-1	None	KIAA1931, FLJ10404
5	FAM193B	ENSG00000146067	ENST00000510163	nonsense_mediated_decay	KNOWN	None	25524	325	107	176946792	176963391	-1	None	KIAA1931, FLJ10404
5	FAM193B	ENSG00000146067	ENST00000524677	protein_coding	NOVEL	None	25524	1525	507	176946793	176959534	-1	None	KIAA1931, FLJ10404
5	FAM193B	ENSG00000146067	ENST00000504130	processed_transcript	KNOWN	None	25524	None	None	176946932	176950000	-1	None	KIAA1931, FLJ10404
5	FAM193B	ENSG00000146067	ENST00000507212	nonsense_mediated_decay	KNOWN	None	25524	420	139	176947057	176951495	-1	None	KIAA1931, FLJ10404
5	FAM193B	ENSG00000146067	ENST00000505241	processed_transcript	KNOWN	None	25524	None	None	176950181	176951422	-1	None	KIAA1931, FLJ10404
5	FAM193B	ENSG00000146067	ENST00000513502	retained_intron	KNOWN	None	25524	None	None	176952055	176958835	-1	None	KIAA1931, FLJ10404
5	FAM193B	ENSG00000146067	ENST00000508298	processed_transcript	KNOWN	None	25524	None	None	176952198	176981459	-1	None	KIAA1931, FLJ10404
5	FAM193B	ENSG00000146067	ENST00000506064	processed_transcript	KNOWN	None	25524	None	None	176958339	176959613	-1	None	KIAA1931, FLJ10404
5	FAM193B	ENSG00000146067	ENST00000515394	retained_intron	KNOWN	None	25524	None	None	176963305	176965020	-1	None	KIAA1931, FLJ10404
5	FAM193B	ENSG00000146067	ENST00000502403	protein_coding	PUTATIVE	None	25524	235	77	176964988	176966352	-1	None	KIAA1931, FLJ10404
5	FAM193B	ENSG00000146067	ENST00000510429	protein_coding	PUTATIVE	None	25524	216	71	176965007	176980767	-1	None	KIAA1931, FLJ10404
5	FAM193B	ENSG00000146067	ENST00000506432	protein_coding	PUTATIVE	None	25524	137	44	176965086	176980267	-1	None	KIAA1931, FLJ10404
5	FAM193B	ENSG00000146067	ENST00000507587	nonsense_mediated_decay	KNOWN	None	25524	222	73	176965912	176981348	-1	None	KIAA1931, FLJ10404
5	FAM193B	ENSG00000146067	ENST00000443375	protein_coding	KNOWN	None	25524	2370	789	176946791	176981508	-1	None	KIAA1931, FLJ10404
5	FAM193B	ENSG00000146067	ENST00000329540	protein_coding	KNOWN	None	25524	1347	448	176946791	176981508	-1	None	KIAA1931, FLJ10404
X	SSX6	ENSG00000171483	ENST00000376932	protein_coding	KNOWN	None	19652	567	188	47967365	47980073	1	SSXP2	psiSSX2
X	SSX6	ENSG00000171483	ENST00000412590	retained_intron	KNOWN	None	19652	None	None	47967377	47973694	1	SSXP2	psiSSX2
X	SSX6	ENSG00000171483	ENST00000509958	nonsense_mediated_decay	KNOWN	None	19652	165	54	47976466	47979592	1	SSXP2	psiSSX2
X	SSX6	ENSG00000171483	ENST00000319275	protein_coding	KNOWN	None	19652	273	90	47967367	47980068	1	SSXP2	psiSSX2
11	GALNT18	ENSG00000110328	ENST00000227756	protein_coding	KNOWN	CCDS7807	30488	1824	607	11292423	11643552	-1	GALNTL4	MGC71806, GALNT15, GalNAc-T18
11	GALNT18	ENSG00000110328	ENST00000526064	processed_transcript	KNOWN	None	30488	None	None	11496724	11643305	-1	GALNTL4	MGC71806, GALNT15, GalNAc-T18
14	PNN	ENSG00000100941	ENST00000553331	protein_coding	PUTATIVE	None	9162	375	124	39644387	39648450	1	None	memA
14	PNN	ENSG00000100941	ENST00000216832	protein_coding	KNOWN	CCDS9671	9162	2154	717	39644417	39652422	1	None	memA
14	PNN	ENSG00000100941	ENST00000556530	protein_coding	PUTATIVE	None	9162	354	117	39644434	39646912	1	None	memA
14	PNN	ENSG00000100941	ENST00000554117	retained_intron	KNOWN	None	9162	None	None	39644486	39645794	1	None	memA
14	PNN	ENSG00000100941	ENST00000554902	retained_intron	KNOWN	None	9162	None	None	39648206	39649905	1	None	memA
14	PNN	ENSG00000100941	ENST00000557680	processed_transcript	KNOWN	None	9162	None	None	39648294	39651954	1	None	memA
12	None	ENSG00000269282	ENST00000598930	protein_coding	KNOWN	None	None	453	150	48759919	48761738	1	None	None
1	RNF220	ENSG00000187147	ENST00000355387	protein_coding	KNOWN	CCDS510	25552	1701	566	44870866	45117395	1	C1orf164	FLJ10597
1	RNF220	ENSG00000187147	ENST00000361799	protein_coding	KNOWN	CCDS510	25552	1701	566	44870960	45117395	1	C1orf164	FLJ10597
1	RNF220	ENSG00000187147	ENST00000487332	processed_transcript	KNOWN	None	25552	None	None	44874374	44877793	1	C1orf164	FLJ10597
1	RNF220	ENSG00000187147	ENST00000470498	processed_transcript	KNOWN	None	25552	None	None	44878370	44885544	1	C1orf164	FLJ10597
1	RNF220	ENSG00000187147	ENST00000496262	processed_transcript	KNOWN	None	25552	None	None	45079937	45092729	1	C1orf164	FLJ10597
1	RNF220	ENSG00000187147	ENST00000453863	protein_coding	KNOWN	None	25552	361	119	45091998	45101824	1	C1orf164	FLJ10597
1	RNF220	ENSG00000187147	ENST00000335497	protein_coding	KNOWN	None	25552	780	259	45097404	45115441	1	C1orf164	FLJ10597
1	RNF220	ENSG00000187147	ENST00000440132	protein_coding	KNOWN	None	25552	777	258	45097404	45115629	1	C1orf164	FLJ10597
1	RNF220	ENSG00000187147	ENST00000474064	processed_transcript	KNOWN	None	25552	None	None	45097640	45117395	1	C1orf164	FLJ10597
1	RNF220	ENSG00000187147	ENST00000471494	processed_transcript	KNOWN	None	25552	None	None	45097647	45110753	1	C1orf164	FLJ10597
1	RNF220	ENSG00000187147	ENST00000488865	nonsense_mediated_decay	KNOWN	None	25552	138	45	45097656	45102167	1	C1orf164	FLJ10597
1	RNF220	ENSG00000187147	ENST00000497469	processed_transcript	KNOWN	None	25552	None	None	45097907	45110753	1	C1orf164	FLJ10597
1	RNF220	ENSG00000187147	ENST00000475378	processed_transcript	KNOWN	None	25552	None	None	45097927	45116480	1	C1orf164	FLJ10597
1	RNF220	ENSG00000187147	ENST00000484745	processed_transcript	KNOWN	None	25552	None	None	45098317	45117395	1	C1orf164	FLJ10597
1	RNF220	ENSG00000187147	ENST00000474394	processed_transcript	KNOWN	None	25552	None	None	45103968	45116562	1	C1orf164	FLJ10597
1	RNF220	ENSG00000187147	ENST00000480686	processed_transcript	KNOWN	None	25552	None	None	45108804	45117395	1	C1orf164	FLJ10597
1	RNF220	ENSG00000187147	ENST00000474956	processed_transcript	KNOWN	None	25552	None	None	45113980	45117395	1	C1orf164	FLJ10597
1	RNF220	ENSG00000187147	ENST00000372247	protein_coding	KNOWN	CCDS510	25552	1701	566	44877770	45117396	1	C1orf164	FLJ10597
1	RNF220	ENSG00000187147	ENST00000443020	protein_coding	KNOWN	None	25552	1062	353	44889712	45116737	1	C1orf164	FLJ10597
12	ANP32D	ENSG00000139223	ENST00000266594	protein_coding	KNOWN	CCDS31788	16676	396	131	48866448	48866843	1	None	PP32R2
10	IL2RA	ENSG00000134460	ENST00000379959	protein_coding	KNOWN	CCDS7076	6008	819	272	6052652	6104288	-1	IL2R	CD25
10	IL2RA	ENSG00000134460	ENST00000379954	protein_coding	KNOWN	None	6008	603	200	6054034	6104272	-1	IL2R	CD25
10	IL2RA	ENSG00000134460	ENST00000256876	protein_coding	KNOWN	None	6008	792	263	6054760	6104253	-1	IL2R	CD25
10	IL2RA	ENSG00000134460	ENST00000447847	protein_coding	KNOWN	None	6008	326	107	6061416	6067964	-1	IL2R	CD25
1	TRAF5	ENSG00000082512	ENST00000462410	processed_transcript	KNOWN	None	12035	None	None	211499957	211538851	1	None	RNF84
1	TRAF5	ENSG00000082512	ENST00000488428	processed_transcript	KNOWN	None	12035	None	None	211500040	211534490	1	None	RNF84
1	TRAF5	ENSG00000082512	ENST00000494355	processed_transcript	KNOWN	None	12035	None	None	211500175	211526960	1	None	RNF84
1	TRAF5	ENSG00000082512	ENST00000261464	protein_coding	KNOWN	CCDS1497	12035	1674	557	211500179	211548288	1	None	RNF84
1	TRAF5	ENSG00000082512	ENST00000367004	protein_coding	KNOWN	CCDS1497	12035	1674	557	211519706	211546137	1	None	RNF84
1	TRAF5	ENSG00000082512	ENST00000473385	processed_transcript	KNOWN	None	12035	None	None	211542271	211548127	1	None	RNF84
1	TRAF5	ENSG00000082512	ENST00000336184	protein_coding	KNOWN	CCDS1497	12035	1674	557	211499957	211548282	1	None	RNF84
1	TRAF5	ENSG00000082512	ENST00000427925	protein_coding	KNOWN	None	12035	1356	451	211500169	211546246	1	None	RNF84
12	C12orf54	ENSG00000177627	ENST00000548364	protein_coding	KNOWN	CCDS8764	28553	384	127	48877023	48890169	1	None	MGC35033
12	C12orf54	ENSG00000177627	ENST00000380491	nonsense_mediated_decay	KNOWN	None	28553	306	101	48877044	48890124	1	None	MGC35033
12	C12orf54	ENSG00000177627	ENST00000548913	processed_transcript	KNOWN	None	28553	None	None	48880491	48882283	1	None	MGC35033
12	C12orf54	ENSG00000177627	ENST00000549398	nonsense_mediated_decay	KNOWN	None	28553	216	71	48884595	48890169	1	None	MGC35033
12	C12orf54	ENSG00000177627	ENST00000551266	retained_intron	KNOWN	None	28553	None	None	48886677	48890169	1	None	MGC35033
12	C12orf54	ENSG00000177627	ENST00000314014	protein_coding	KNOWN	CCDS8764	28553	384	127	48876286	48890295	1	None	MGC35033
2	C2orf42	ENSG00000115998	ENST00000264434	protein_coding	KNOWN	CCDS1899	26056	1725	574	70377012	70418203	-1	None	FLJ20558
2	C2orf42	ENSG00000115998	ENST00000420306	protein_coding	KNOWN	CCDS1899	26056	1725	574	70377030	70409127	-1	None	FLJ20558
2	C2orf42	ENSG00000115998	ENST00000447804	protein_coding	KNOWN	None	26056	506	167	70408612	70418149	-1	None	FLJ20558
2	C2orf42	ENSG00000115998	ENST00000417865	protein_coding	KNOWN	None	26056	477	158	70408641	70418136	-1	None	FLJ20558
2	C2orf42	ENSG00000115998	ENST00000419381	protein_coding	KNOWN	None	26056	383	126	70408735	70410067	-1	None	FLJ20558
2	C2orf42	ENSG00000115998	ENST00000470096	processed_transcript	PUTATIVE	None	26056	None	None	70408762	70475747	-1	None	FLJ20558
2	C2orf42	ENSG00000115998	ENST00000457952	protein_coding	KNOWN	None	26056	336	111	70408782	70417831	-1	None	FLJ20558
2	C2orf42	ENSG00000115998	ENST00000428010	protein_coding	KNOWN	None	26056	180	59	70408938	70418136	-1	None	FLJ20558
2	C2orf42	ENSG00000115998	ENST00000425268	protein_coding	KNOWN	None	26056	177	58	70408941	70418032	-1	None	FLJ20558
2	C2orf42	ENSG00000115998	ENST00000428751	protein_coding	KNOWN	None	26056	94	30	70409024	70418109	-1	None	FLJ20558
2	C2orf42	ENSG00000115998	ENST00000417203	protein_coding	KNOWN	None	26056	67	21	70409051	70418134	-1	None	FLJ20558
2	C2orf42	ENSG00000115998	ENST00000495353	processed_transcript	PUTATIVE	None	26056	None	None	70409529	70418039	-1	None	FLJ20558
2	C2orf42	ENSG00000115998	ENST00000487560	processed_transcript	PUTATIVE	None	26056	None	None	70409921	70418085	-1	None	FLJ20558
2	C2orf42	ENSG00000115998	ENST00000464505	processed_transcript	PUTATIVE	None	26056	None	None	70409973	70417831	-1	None	FLJ20558
X	RAB41	ENSG00000147127	ENST00000509895	protein_coding	PUTATIVE	None	18293	104	33	69501943	69503137	1	None	None
X	RAB41	ENSG00000147127	ENST00000374473	protein_coding	KNOWN	None	18293	669	222	69502022	69504852	1	None	None
X	RAB41	ENSG00000147127	ENST00000276066	protein_coding	KNOWN	CCDS35322	18293	666	221	69502022	69504852	1	None	None
8	NUGGC	ENSG00000189233	ENST00000413272	protein_coding	KNOWN	CCDS47833	33550	2391	796	27879481	27941388	-1	C8orf80	HMFN0672, SLIP-GC
8	NUGGC	ENSG00000189233	ENST00000418860	protein_coding	NOVEL	None	33550	230	75	27927160	27941367	-1	C8orf80	HMFN0672, SLIP-GC
8	NUGGC	ENSG00000189233	ENST00000341513	protein_coding	KNOWN	None	33550	2391	796	27879483	27941388	-1	C8orf80	HMFN0672, SLIP-GC
19	CC2D1A	ENSG00000132024	ENST00000318003	protein_coding	KNOWN	CCDS42512	30237	2856	951	14017014	14041692	1	None	FLJ20241, MRT3
19	CC2D1A	ENSG00000132024	ENST00000585896	retained_intron	KNOWN	None	30237	None	None	14017016	14031194	1	None	FLJ20241, MRT3
19	CC2D1A	ENSG00000132024	ENST00000589606	protein_coding	NOVEL	None	30237	2853	950	14017255	14041472	1	None	FLJ20241, MRT3
19	CC2D1A	ENSG00000132024	ENST00000586955	nonsense_mediated_decay	KNOWN	None	30237	1136	377	14024066	14041692	1	None	FLJ20241, MRT3
19	CC2D1A	ENSG00000132024	ENST00000589138	retained_intron	KNOWN	None	30237	None	None	14029320	14040350	1	None	FLJ20241, MRT3
19	CC2D1A	ENSG00000132024	ENST00000589679	retained_intron	KNOWN	None	30237	None	None	14030507	14034212	1	None	FLJ20241, MRT3
19	CC2D1A	ENSG00000132024	ENST00000588932	retained_intron	KNOWN	None	30237	None	None	14031090	14034566	1	None	FLJ20241, MRT3
19	CC2D1A	ENSG00000132024	ENST00000587508	protein_coding	PUTATIVE	None	30237	1217	404	14034141	14041658	1	None	FLJ20241, MRT3
19	CC2D1A	ENSG00000132024	ENST00000589224	retained_intron	KNOWN	None	30237	None	None	14034392	14038366	1	None	FLJ20241, MRT3
1	RD3	ENSG00000198570	ENST00000484910	processed_transcript	KNOWN	None	19689	None	None	211649864	211665373	-1	C1orf36	LCA12
1	RD3	ENSG00000198570	ENST00000367002	protein_coding	KNOWN	CCDS1498	19689	588	195	211649864	211666259	-1	C1orf36	LCA12
17	HS3ST3A1	ENSG00000153976	ENST00000284110	protein_coding	KNOWN	CCDS11165	5196	1221	406	13399006	13505244	-1	None	3OST3A1, 30ST3A1
17	HS3ST3A1	ENSG00000153976	ENST00000578576	protein_coding	PUTATIVE	None	5196	615	204	13399487	13459360	-1	None	3OST3A1, 30ST3A1
5	HAVCR2	ENSG00000135077	ENST00000307851	protein_coding	KNOWN	CCDS4333	18437	906	301	156512843	156536725	-1	None	Tim-3, TIM3, FLJ14428, TIMD3
5	HAVCR2	ENSG00000135077	ENST00000522593	protein_coding	NOVEL	None	18437	822	273	156514099	156536133	-1	None	Tim-3, TIM3, FLJ14428, TIMD3
5	HAVCR2	ENSG00000135077	ENST00000524219	protein_coding	PUTATIVE	None	18437	223	73	156522419	156569880	-1	None	Tim-3, TIM3, FLJ14428, TIMD3
5	HAVCR2	ENSG00000135077	ENST00000521665	retained_intron	KNOWN	None	18437	None	None	156522461	156534294	-1	None	Tim-3, TIM3, FLJ14428, TIMD3
5	HAVCR2	ENSG00000135077	ENST00000522902	retained_intron	KNOWN	None	18437	None	None	156533131	156536103	-1	None	Tim-3, TIM3, FLJ14428, TIMD3
5	HAVCR2	ENSG00000135077	ENST00000517358	processed_transcript	PUTATIVE	None	18437	None	None	156533665	156534313	-1	None	Tim-3, TIM3, FLJ14428, TIMD3
12	MPHOSPH9	ENSG00000051825	ENST00000544217	processed_transcript	KNOWN	None	7215	None	None	123636867	123640363	-1	None	MPP9
12	MPHOSPH9	ENSG00000051825	ENST00000541603	protein_coding	PUTATIVE	None	7215	647	214	123636871	123648508	-1	None	MPP9
12	MPHOSPH9	ENSG00000051825	ENST00000541076	protein_coding	NOVEL	None	7215	3462	1153	123638762	123714993	-1	None	MPP9
12	MPHOSPH9	ENSG00000051825	ENST00000606320	protein_coding	NOVEL	None	7215	3552	1183	123638762	123717670	-1	None	MPP9
12	MPHOSPH9	ENSG00000051825	ENST00000545974	retained_intron	KNOWN	None	7215	None	None	123640946	123647573	-1	None	MPP9
12	MPHOSPH9	ENSG00000051825	ENST00000302373	nonsense_mediated_decay	KNOWN	None	7215	2523	840	123641183	123706394	-1	None	MPP9
12	MPHOSPH9	ENSG00000051825	ENST00000545556	nonsense_mediated_decay	KNOWN	None	7215	270	89	123641183	123717658	-1	None	MPP9
12	MPHOSPH9	ENSG00000051825	ENST00000606704	nonsense_mediated_decay	KNOWN	None	7215	93	30	123641321	123647583	-1	None	MPP9
12	MPHOSPH9	ENSG00000051825	ENST00000539024	nonsense_mediated_decay	KNOWN	None	7215	2026	674	123644241	123703025	-1	None	MPP9
12	MPHOSPH9	ENSG00000051825	ENST00000536198	retained_intron	KNOWN	None	7215	None	None	123645815	123647947	-1	None	MPP9
12	MPHOSPH9	ENSG00000051825	ENST00000538250	retained_intron	KNOWN	None	7215	None	None	123647320	123650009	-1	None	MPP9
12	MPHOSPH9	ENSG00000051825	ENST00000607619	retained_intron	KNOWN	None	7215	None	None	123647631	123650153	-1	None	MPP9
12	MPHOSPH9	ENSG00000051825	ENST00000606321	protein_coding	PUTATIVE	None	7215	492	163	123648316	123661263	-1	None	MPP9
12	MPHOSPH9	ENSG00000051825	ENST00000541823	retained_intron	KNOWN	None	7215	None	None	123650908	123664527	-1	None	MPP9
12	MPHOSPH9	ENSG00000051825	ENST00000606326	nonsense_mediated_decay	KNOWN	None	7215	165	54	123679056	123687385	-1	None	MPP9
12	MPHOSPH9	ENSG00000051825	ENST00000539336	protein_coding	PUTATIVE	None	7215	1090	362	123687432	123707674	-1	None	MPP9
12	MPHOSPH9	ENSG00000051825	ENST00000537854	protein_coding	PUTATIVE	None	7215	146	47	123703005	123717717	-1	None	MPP9
12	MPHOSPH9	ENSG00000051825	ENST00000539639	processed_transcript	KNOWN	None	7215	None	None	123706212	123717785	-1	None	MPP9
12	MPHOSPH9	ENSG00000051825	ENST00000541437	protein_coding	PUTATIVE	None	7215	379	125	123706240	123717654	-1	None	MPP9
12	MPHOSPH9	ENSG00000051825	ENST00000538169	processed_transcript	KNOWN	None	7215	None	None	123706355	123717683	-1	None	MPP9
12	MPHOSPH9	ENSG00000051825	ENST00000535049	nonsense_mediated_decay	KNOWN	None	7215	141	46	123706390	123717673	-1	None	MPP9
12	MPHOSPH9	ENSG00000051825	ENST00000545406	protein_coding	NOVEL	None	7215	253	83	123712015	123728561	-1	None	MPP9
12	MPHOSPH9	ENSG00000051825	ENST00000369865	retained_intron	KNOWN	None	7215	None	None	123714584	123717648	-1	None	MPP9
12	MPHOSPH9	ENSG00000051825	ENST00000563178	processed_transcript	KNOWN	None	7215	None	None	123725076	123728499	-1	None	MPP9
12	MPHOSPH9	ENSG00000051825	ENST00000302349	protein_coding	KNOWN	None	7215	3087	1028	123637080	123706441	-1	None	MPP9
12	MPHOSPH9	ENSG00000051825	ENST00000392425	protein_coding	KNOWN	CCDS9243	7215	3096	1031	123640948	123706441	-1	None	MPP9
1	SLC30A1	ENSG00000170385	ENST00000367001	protein_coding	KNOWN	CCDS1499	11012	1524	507	211744910	211752084	-1	ZNT1	ZRC1
1	CERS2	ENSG00000143418	ENST00000482825	retained_intron	KNOWN	None	14076	None	None	150933059	150940107	-1	LASS2	SP260, FLJ10243
1	CERS2	ENSG00000143418	ENST00000561294	protein_coding	PUTATIVE	None	14076	1134	377	150936146	150941588	-1	LASS2	SP260, FLJ10243
1	CERS2	ENSG00000143418	ENST00000560793	protein_coding	NOVEL	None	14076	686	227	150937649	150940201	-1	LASS2	SP260, FLJ10243
1	CERS2	ENSG00000143418	ENST00000345896	processed_transcript	KNOWN	None	14076	None	None	150937649	150947319	-1	LASS2	SP260, FLJ10243
1	CERS2	ENSG00000143418	ENST00000368954	protein_coding	KNOWN	CCDS973	14076	1143	380	150937649	150947479	-1	LASS2	SP260, FLJ10243
1	CERS2	ENSG00000143418	ENST00000460664	retained_intron	KNOWN	None	14076	None	None	150938963	150940648	-1	LASS2	SP260, FLJ10243
1	CERS2	ENSG00000143418	ENST00000368949	protein_coding	KNOWN	None	14076	914	303	150939040	150944411	-1	LASS2	SP260, FLJ10243
1	CERS2	ENSG00000143418	ENST00000361419	protein_coding	KNOWN	None	14076	748	248	150939543	150947302	-1	LASS2	SP260, FLJ10243
1	CERS2	ENSG00000143418	ENST00000559660	retained_intron	KNOWN	None	14076	None	None	150939607	150940608	-1	LASS2	SP260, FLJ10243
1	CERS2	ENSG00000143418	ENST00000558062	protein_coding	KNOWN	None	14076	668	221	150939623	150941794	-1	LASS2	SP260, FLJ10243
1	CERS2	ENSG00000143418	ENST00000559020	retained_intron	KNOWN	None	14076	None	None	150939858	150940954	-1	LASS2	SP260, FLJ10243
1	CERS2	ENSG00000143418	ENST00000421609	protein_coding	KNOWN	None	14076	577	191	150939903	150946953	-1	LASS2	SP260, FLJ10243
1	CERS2	ENSG00000143418	ENST00000457392	protein_coding	KNOWN	None	14076	386	127	150940583	150946911	-1	LASS2	SP260, FLJ10243
1	CERS2	ENSG00000143418	ENST00000271688	protein_coding	KNOWN	CCDS973	14076	1143	380	150937649	150947440	-1	LASS2	SP260, FLJ10243
X	SPACA5B	ENSG00000171478	ENST00000304270	protein_coding	KNOWN	CCDS35238	19142	480	159	47990039	47991995	1	None	None
17	COX10	ENSG00000006695	ENST00000429152	protein_coding	PUTATIVE	None	2260	516	171	13972813	13980639	1	None	None
17	COX10	ENSG00000006695	ENST00000261643	protein_coding	KNOWN	CCDS11166	2260	1332	443	13972846	14111994	1	None	None
17	COX10	ENSG00000006695	ENST00000581931	nonsense_mediated_decay	KNOWN	None	2260	507	168	13972921	14110830	1	None	None
17	COX10	ENSG00000006695	ENST00000580561	nonsense_mediated_decay	KNOWN	None	2260	189	62	13972921	14110902	1	None	None
17	COX10	ENSG00000006695	ENST00000536205	protein_coding	KNOWN	None	2260	756	251	13972921	14110830	1	None	None
17	COX10	ENSG00000006695	ENST00000537334	protein_coding	KNOWN	None	2260	681	226	13972921	14110902	1	None	None
19	AP1M1	ENSG00000072958	ENST00000291439	protein_coding	KNOWN	CCDS12342	13667	1272	423	16308389	16346160	1	None	AP47, CLAPM2
19	AP1M1	ENSG00000072958	ENST00000590263	protein_coding	KNOWN	None	13667	410	135	16308665	16319852	1	None	AP47, CLAPM2
19	AP1M1	ENSG00000072958	ENST00000590756	protein_coding	NOVEL	None	13667	1056	351	16308665	16345722	1	None	AP47, CLAPM2
19	AP1M1	ENSG00000072958	ENST00000429941	protein_coding	NOVEL	None	13667	1113	370	16308722	16345595	1	None	AP47, CLAPM2
19	AP1M1	ENSG00000072958	ENST00000589991	retained_intron	KNOWN	None	13667	None	None	16308724	16319073	1	None	AP47, CLAPM2
19	AP1M1	ENSG00000072958	ENST00000444449	protein_coding	KNOWN	CCDS46008	13667	1308	435	16308745	16346156	1	None	AP47, CLAPM2
19	AP1M1	ENSG00000072958	ENST00000589822	protein_coding	PUTATIVE	None	13667	315	104	16308782	16318955	1	None	AP47, CLAPM2
19	AP1M1	ENSG00000072958	ENST00000590945	protein_coding	PUTATIVE	None	13667	192	63	16308954	16317222	1	None	AP47, CLAPM2
19	AP1M1	ENSG00000072958	ENST00000591775	protein_coding	PUTATIVE	None	13667	376	124	16308968	16319896	1	None	AP47, CLAPM2
19	AP1M1	ENSG00000072958	ENST00000586957	retained_intron	KNOWN	None	13667	None	None	16314274	16317305	1	None	AP47, CLAPM2
19	AP1M1	ENSG00000072958	ENST00000589782	retained_intron	KNOWN	None	13667	None	None	16314417	16320067	1	None	AP47, CLAPM2
19	AP1M1	ENSG00000072958	ENST00000591966	retained_intron	KNOWN	None	13667	None	None	16319661	16338445	1	None	AP47, CLAPM2
19	AP1M1	ENSG00000072958	ENST00000586461	retained_intron	KNOWN	None	13667	None	None	16319770	16337557	1	None	AP47, CLAPM2
19	AP1M1	ENSG00000072958	ENST00000586543	protein_coding	PUTATIVE	None	13667	530	175	16338416	16346156	1	None	AP47, CLAPM2
19	AP1M1	ENSG00000072958	ENST00000592703	retained_intron	KNOWN	None	13667	None	None	16344855	16345575	1	None	AP47, CLAPM2
19	AP1M1	ENSG00000072958	ENST00000541844	protein_coding	KNOWN	None	13667	1056	351	16308665	16345722	1	None	AP47, CLAPM2
X	SSX5	ENSG00000165583	ENST00000376923	protein_coding	KNOWN	CCDS14289	11339	567	188	48045656	48054794	-1	None	None
X	SSX5	ENSG00000165583	ENST00000311798	protein_coding	KNOWN	CCDS14288	11339	690	229	48045656	48056199	-1	None	None
X	SSX5	ENSG00000165583	ENST00000403001	protein_coding	KNOWN	None	11339	387	128	48046211	48051817	-1	None	None
X	SSX5	ENSG00000165583	ENST00000347757	protein_coding	KNOWN	CCDS14289	11339	567	188	48045656	48056199	-1	None	None
1	NEK2	ENSG00000117650	ENST00000366999	protein_coding	NOVEL	CCDS1500	7745	1338	445	211836114	211848960	-1	None	NLK1, NEK2A
1	NEK2	ENSG00000117650	ENST00000462283	processed_transcript	KNOWN	None	7745	None	None	211836745	211844626	-1	None	NLK1, NEK2A
1	NEK2	ENSG00000117650	ENST00000489633	processed_transcript	KNOWN	None	7745	None	None	211836867	211842861	-1	None	NLK1, NEK2A
1	NEK2	ENSG00000117650	ENST00000366998	protein_coding	NOVEL	CCDS55682	7745	1155	384	211839772	211848899	-1	None	NLK1, NEK2A
1	NEK2	ENSG00000117650	ENST00000540251	protein_coding	KNOWN	None	7745	1209	402	211836481	211848933	-1	None	NLK1, NEK2A
1	TMEM53	ENSG00000126106	ENST00000372242	protein_coding	KNOWN	None	26186	606	201	45100910	45140131	-1	None	FLJ22353, NET4
1	TMEM53	ENSG00000126106	ENST00000372243	protein_coding	KNOWN	None	26186	336	111	45100910	45140134	-1	None	FLJ22353, NET4
1	TMEM53	ENSG00000126106	ENST00000372244	protein_coding	KNOWN	None	26186	237	78	45100910	45140149	-1	None	FLJ22353, NET4
1	TMEM53	ENSG00000126106	ENST00000495630	processed_transcript	KNOWN	None	26186	None	None	45101720	45140138	-1	None	FLJ22353, NET4
1	TMEM53	ENSG00000126106	ENST00000476724	processed_transcript	KNOWN	None	26186	None	None	45118919	45140114	-1	None	FLJ22353, NET4
1	TMEM53	ENSG00000126106	ENST00000468117	processed_transcript	KNOWN	None	26186	None	None	45118919	45140149	-1	None	FLJ22353, NET4
1	TMEM53	ENSG00000126106	ENST00000372237	protein_coding	KNOWN	CCDS511	26186	834	277	45118919	45140227	-1	None	FLJ22353, NET4
1	TMEM53	ENSG00000126106	ENST00000372235	protein_coding	KNOWN	None	26186	744	247	45120137	45140115	-1	None	FLJ22353, NET4
1	TMEM53	ENSG00000126106	ENST00000420706	protein_coding	KNOWN	None	26186	404	133	45120568	45140074	-1	None	FLJ22353, NET4
17	PSMD3	ENSG00000108344	ENST00000264639	protein_coding	KNOWN	CCDS11356	9560	1605	534	38137050	38154213	1	TSTA2	S3, P58, Rpn3
17	PSMD3	ENSG00000108344	ENST00000415039	nonsense_mediated_decay	KNOWN	None	9560	261	86	38137089	38153864	1	TSTA2	S3, P58, Rpn3
17	PSMD3	ENSG00000108344	ENST00000540504	protein_coding	PUTATIVE	None	9560	353	116	38142862	38154208	1	TSTA2	S3, P58, Rpn3
17	PSMD3	ENSG00000108344	ENST00000580980	retained_intron	KNOWN	None	9560	None	None	38142937	38146405	1	TSTA2	S3, P58, Rpn3
17	PSMD3	ENSG00000108344	ENST00000485835	retained_intron	KNOWN	None	9560	None	None	38149251	38152373	1	TSTA2	S3, P58, Rpn3
17	PSMD3	ENSG00000108344	ENST00000541736	protein_coding	KNOWN	None	9560	1071	356	38137089	38153864	1	TSTA2	S3, P58, Rpn3
15	AP4E1	ENSG00000081014	ENST00000561441	nonsense_mediated_decay	KNOWN	None	573	1107	368	51200869	51242346	1	None	AP-4-EPSILON, SPG51
15	AP4E1	ENSG00000081014	ENST00000561393	nonsense_mediated_decay	KNOWN	None	573	657	218	51200870	51295414	1	None	AP-4-EPSILON, SPG51
15	AP4E1	ENSG00000081014	ENST00000558439	nonsense_mediated_decay	KNOWN	None	573	966	321	51200870	51295414	1	None	AP-4-EPSILON, SPG51
15	AP4E1	ENSG00000081014	ENST00000261842	protein_coding	KNOWN	CCDS32240	573	3414	1137	51200870	51298097	1	None	AP-4-EPSILON, SPG51
15	AP4E1	ENSG00000081014	ENST00000560508	protein_coding	PUTATIVE	CCDS58362	573	3189	1062	51200992	51298091	1	None	AP-4-EPSILON, SPG51
15	AP4E1	ENSG00000081014	ENST00000561004	processed_transcript	PUTATIVE	None	573	None	None	51207753	51210312	1	None	AP-4-EPSILON, SPG51
15	AP4E1	ENSG00000081014	ENST00000561397	processed_transcript	PUTATIVE	None	573	None	None	51289946	51295638	1	None	AP-4-EPSILON, SPG51
16	VAT1L	ENSG00000171724	ENST00000302536	protein_coding	KNOWN	CCDS32492	29315	1260	419	77822427	78014004	1	None	KIAA1576
16	VAT1L	ENSG00000171724	ENST00000563850	processed_transcript	PUTATIVE	None	29315	None	None	77896645	77916305	1	None	KIAA1576
X	HNRNPH2	ENSG00000126945	ENST00000316594	protein_coding	KNOWN	CCDS14485	5042	1350	449	100663283	100669121	1	HNRPH2	hnRNPH', FTP3, HNRPH'
17	ENTHD2	ENSG00000167302	ENST00000573295	retained_intron	KNOWN	None	26458	None	None	79202077	79212841	-1	C17orf56	FLJ31528
17	ENTHD2	ENSG00000167302	ENST00000300714	protein_coding	KNOWN	CCDS11779	26458	1578	525	79202077	79212891	-1	C17orf56	FLJ31528
17	ENTHD2	ENSG00000167302	ENST00000576090	retained_intron	KNOWN	None	26458	None	None	79202079	79212203	-1	C17orf56	FLJ31528
17	ENTHD2	ENSG00000167302	ENST00000571115	nonsense_mediated_decay	KNOWN	None	26458	158	51	79203057	79205477	-1	C17orf56	FLJ31528
17	ENTHD2	ENSG00000167302	ENST00000574944	retained_intron	KNOWN	None	26458	None	None	79205662	79208034	-1	C17orf56	FLJ31528
17	ENTHD2	ENSG00000167302	ENST00000571094	protein_coding	PUTATIVE	None	26458	341	112	79207794	79211398	-1	C17orf56	FLJ31528
17	ENTHD2	ENSG00000167302	ENST00000570854	nonsense_mediated_decay	KNOWN	None	26458	552	183	79207803	79212857	-1	C17orf56	FLJ31528
17	ENTHD2	ENSG00000167302	ENST00000574517	retained_intron	KNOWN	None	26458	None	None	79210459	79211328	-1	C17orf56	FLJ31528
17	ENTHD2	ENSG00000167302	ENST00000572050	nonsense_mediated_decay	KNOWN	None	26458	292	96	79211187	79212810	-1	C17orf56	FLJ31528
17	ENTHD2	ENSG00000167302	ENST00000575961	processed_transcript	KNOWN	None	26458	None	None	79211424	79212840	-1	C17orf56	FLJ31528
17	ENTHD2	ENSG00000167302	ENST00000575891	processed_transcript	KNOWN	None	26458	None	None	79211933	79212842	-1	C17orf56	FLJ31528
17	ENTHD2	ENSG00000167302	ENST00000571601	retained_intron	KNOWN	None	26458	None	None	79212012	79212833	-1	C17orf56	FLJ31528
17	ENTHD2	ENSG00000167302	ENST00000374769	protein_coding	KNOWN	None	26458	1326	441	79202079	79212855	-1	C17orf56	FLJ31528
1	LPGAT1	ENSG00000123684	ENST00000366997	protein_coding	KNOWN	CCDS31018	28985	1113	370	211916799	212004114	-1	FAM34A	KIAA0205, FAM34A1, NET8
1	LPGAT1	ENSG00000123684	ENST00000366996	protein_coding	NOVEL	CCDS31018	28985	1113	370	211923135	212003580	-1	FAM34A	KIAA0205, FAM34A1, NET8
1	LPGAT1	ENSG00000123684	ENST00000498690	processed_transcript	PUTATIVE	None	28985	None	None	211952342	211966668	-1	FAM34A	KIAA0205, FAM34A1, NET8
1	LPGAT1	ENSG00000123684	ENST00000488600	processed_transcript	KNOWN	None	28985	None	None	212002521	212004064	-1	FAM34A	KIAA0205, FAM34A1, NET8
9	None	ENSG00000144140	ENST00000438175	unprocessed_pseudogene	KNOWN	None	None	None	None	52452	73323	-1	None	None
19	PNPLA6	ENSG00000032444	ENST00000221249	protein_coding	KNOWN	CCDS32891	16268	3984	1327	7598890	7626650	1	None	NTE, sws, iPLA2delta, SPG39
19	PNPLA6	ENSG00000032444	ENST00000594754	retained_intron	KNOWN	None	16268	None	None	7599038	7600468	1	None	NTE, sws, iPLA2delta, SPG39
19	PNPLA6	ENSG00000032444	ENST00000601668	protein_coding	KNOWN	None	16268	403	133	7599039	7604910	1	None	NTE, sws, iPLA2delta, SPG39
19	PNPLA6	ENSG00000032444	ENST00000594098	retained_intron	KNOWN	None	16268	None	None	7599077	7599720	1	None	NTE, sws, iPLA2delta, SPG39
19	PNPLA6	ENSG00000032444	ENST00000601001	protein_coding	KNOWN	None	16268	543	180	7599085	7605140	1	None	NTE, sws, iPLA2delta, SPG39
19	PNPLA6	ENSG00000032444	ENST00000545201	protein_coding	KNOWN	CCDS54207	16268	3903	1300	7599128	7626647	1	None	NTE, sws, iPLA2delta, SPG39
19	PNPLA6	ENSG00000032444	ENST00000596515	protein_coding	KNOWN	None	16268	115	37	7599403	7600906	1	None	NTE, sws, iPLA2delta, SPG39
19	PNPLA6	ENSG00000032444	ENST00000414982	protein_coding	KNOWN	CCDS54206	16268	4128	1375	7599636	7626647	1	None	NTE, sws, iPLA2delta, SPG39
19	PNPLA6	ENSG00000032444	ENST00000450331	protein_coding	KNOWN	CCDS32891	16268	3984	1327	7599636	7626650	1	None	NTE, sws, iPLA2delta, SPG39
19	PNPLA6	ENSG00000032444	ENST00000600942	protein_coding	KNOWN	None	16268	461	152	7599833	7605058	1	None	NTE, sws, iPLA2delta, SPG39
19	PNPLA6	ENSG00000032444	ENST00000593924	protein_coding	KNOWN	None	16268	353	116	7599911	7604860	1	None	NTE, sws, iPLA2delta, SPG39
19	PNPLA6	ENSG00000032444	ENST00000600737	protein_coding	PUTATIVE	CCDS59343	16268	4098	1365	7600592	7626462	1	None	NTE, sws, iPLA2delta, SPG39
19	PNPLA6	ENSG00000032444	ENST00000602191	retained_intron	KNOWN	None	16268	None	None	7600867	7605044	1	None	NTE, sws, iPLA2delta, SPG39
19	PNPLA6	ENSG00000032444	ENST00000598462	retained_intron	KNOWN	None	16268	None	None	7601229	7605595	1	None	NTE, sws, iPLA2delta, SPG39
19	PNPLA6	ENSG00000032444	ENST00000595264	protein_coding	PUTATIVE	None	16268	800	265	7604869	7607556	1	None	NTE, sws, iPLA2delta, SPG39
19	PNPLA6	ENSG00000032444	ENST00000594551	protein_coding	PUTATIVE	None	16268	574	190	7604924	7606518	1	None	NTE, sws, iPLA2delta, SPG39
19	PNPLA6	ENSG00000032444	ENST00000599311	retained_intron	KNOWN	None	16268	None	None	7606281	7615261	1	None	NTE, sws, iPLA2delta, SPG39
19	PNPLA6	ENSG00000032444	ENST00000595176	retained_intron	KNOWN	None	16268	None	None	7606334	7615299	1	None	NTE, sws, iPLA2delta, SPG39
19	PNPLA6	ENSG00000032444	ENST00000595889	retained_intron	KNOWN	None	16268	None	None	7607394	7614985	1	None	NTE, sws, iPLA2delta, SPG39
19	PNPLA6	ENSG00000032444	ENST00000594864	processed_transcript	KNOWN	None	16268	None	None	7614587	7615916	1	None	NTE, sws, iPLA2delta, SPG39
19	PNPLA6	ENSG00000032444	ENST00000599951	retained_intron	KNOWN	None	16268	None	None	7615712	7619129	1	None	NTE, sws, iPLA2delta, SPG39
19	PNPLA6	ENSG00000032444	ENST00000595352	retained_intron	KNOWN	None	16268	None	None	7621400	7622405	1	None	NTE, sws, iPLA2delta, SPG39
19	PNPLA6	ENSG00000032444	ENST00000599947	protein_coding	PUTATIVE	None	16268	467	154	7623853	7626650	1	None	NTE, sws, iPLA2delta, SPG39
19	PNPLA6	ENSG00000032444	ENST00000597202	retained_intron	KNOWN	None	16268	None	None	7625477	7626650	1	None	NTE, sws, iPLA2delta, SPG39
2	None	ENSG00000269074	ENST00000598929	protein_coding	NOVEL	None	None	36	11	11603927	11606274	1	None	None
9	None	ENSG00000225655	ENST00000429980	antisense	KNOWN	None	None	None	None	72701	88826	1	None	None
9	None	ENSG00000225655	ENST00000458364	antisense	KNOWN	None	None	None	None	72706	75298	1	None	None
9	None	ENSG00000225655	ENST00000442069	antisense	KNOWN	None	None	None	None	72716	75298	1	None	None
1	ANXA9	ENSG00000143412	ENST00000368947	protein_coding	KNOWN	CCDS975	547	1038	345	150954493	150968110	1	ANX31	None
1	ANXA9	ENSG00000143412	ENST00000474997	processed_transcript	KNOWN	None	547	None	None	150954725	150956847	1	ANX31	None
14	C14orf164	ENSG00000215277	ENST00000399910	protein_coding	PUTATIVE	None	20438	903	300	23654525	23742614	1	None	None
14	C14orf164	ENSG00000215277	ENST00000492621	protein_coding	PUTATIVE	None	20438	251	82	23654545	23742054	1	None	None
14	C14orf164	ENSG00000215277	ENST00000498441	processed_transcript	PUTATIVE	None	20438	None	None	23654577	23657522	1	None	None
14	C14orf164	ENSG00000215277	ENST00000399905	protein_coding	PUTATIVE	None	20438	252	83	23727694	23742686	1	None	None
14	C14orf164	ENSG00000215277	ENST00000470456	protein_coding	PUTATIVE	None	20438	226	74	23727758	23733880	1	None	None
14	C14orf164	ENSG00000215277	ENST00000492355	processed_transcript	KNOWN	None	20438	None	None	23730515	23742611	1	None	None
14	C14orf164	ENSG00000215277	ENST00000470818	processed_transcript	KNOWN	None	20438	None	None	23731889	23742120	1	None	None
14	C14orf164	ENSG00000215277	ENST00000463881	processed_transcript	KNOWN	None	20438	None	None	23732141	23739843	1	None	None
14	C14orf164	ENSG00000215277	ENST00000430154	protein_coding	KNOWN	None	20438	903	300	23709555	23742611	1	None	None
6	QRSL1	ENSG00000130348	ENST00000369046	protein_coding	KNOWN	CCDS5057	21020	1587	528	107077453	107116292	1	None	GatA, FLJ10989, FLJ12189, DKFZP564C1278, FLJ13447
6	QRSL1	ENSG00000130348	ENST00000467262	processed_transcript	KNOWN	None	21020	None	None	107077474	107088737	1	None	GatA, FLJ10989, FLJ12189, DKFZP564C1278, FLJ13447
6	QRSL1	ENSG00000130348	ENST00000369044	protein_coding	KNOWN	None	21020	960	319	107077489	107101698	1	None	GatA, FLJ10989, FLJ12189, DKFZP564C1278, FLJ13447
X	PDZD11	ENSG00000120509	ENST00000239666	protein_coding	KNOWN	CCDS14400	28034	423	140	69506445	69509829	-1	PDZK11	None
X	PDZD11	ENSG00000120509	ENST00000374454	protein_coding	KNOWN	CCDS14400	28034	423	140	69506742	69509795	-1	PDZK11	None
X	PDZD11	ENSG00000120509	ENST00000473667	processed_transcript	KNOWN	None	28034	None	None	69507585	69509763	-1	PDZK11	None
X	PDZD11	ENSG00000120509	ENST00000486461	processed_transcript	KNOWN	None	28034	None	None	69507617	69510364	-1	PDZK11	None
6	None	ENSG00000270695	ENST00000603277	processed_pseudogene	KNOWN	None	None	None	None	4529956	4530242	1	None	None
6	None	ENSG00000260673	ENST00000568110	lincRNA	KNOWN	None	None	None	None	4599521	4602654	-1	None	None
6	None	ENSG00000205444	ENST00000380106	lincRNA	KNOWN	None	None	None	None	4610890	4611538	1	None	None
1	C1orf228	ENSG00000198520	ENST00000424484	retained_intron	KNOWN	None	34345	None	None	45140364	45190146	1	NCRNA00082	MGC33556, p40
1	C1orf228	ENSG00000198520	ENST00000418644	protein_coding	NOVEL	None	34345	346	114	45140385	45163805	1	NCRNA00082	MGC33556, p40
1	C1orf228	ENSG00000198520	ENST00000455805	nonsense_mediated_decay	KNOWN	None	34345	180	59	45140385	45169783	1	NCRNA00082	MGC33556, p40
1	C1orf228	ENSG00000198520	ENST00000458657	protein_coding	KNOWN	CCDS53311	34345	1323	440	45140385	45191263	1	NCRNA00082	MGC33556, p40
1	C1orf228	ENSG00000198520	ENST00000441519	protein_coding	NOVEL	None	34345	662	219	45140394	45169783	1	NCRNA00082	MGC33556, p40
1	C1orf228	ENSG00000198520	ENST00000357508	retained_intron	KNOWN	None	34345	None	None	45140394	45191261	1	NCRNA00082	MGC33556, p40
1	C1orf228	ENSG00000198520	ENST00000445071	protein_coding	NOVEL	None	34345	629	208	45140398	45166781	1	NCRNA00082	MGC33556, p40
1	C1orf228	ENSG00000198520	ENST00000453711	protein_coding	NOVEL	None	34345	245	80	45140427	45162812	1	NCRNA00082	MGC33556, p40
1	C1orf228	ENSG00000198520	ENST00000421398	processed_transcript	KNOWN	None	34345	None	None	45140430	45190034	1	NCRNA00082	MGC33556, p40
1	C1orf228	ENSG00000198520	ENST00000444751	processed_transcript	KNOWN	None	34345	None	None	45140452	45190015	1	NCRNA00082	MGC33556, p40
1	C1orf228	ENSG00000198520	ENST00000434068	protein_coding	NOVEL	None	34345	490	162	45155506	45190052	1	NCRNA00082	MGC33556, p40
1	C1orf228	ENSG00000198520	ENST00000434520	processed_transcript	KNOWN	None	34345	None	None	45166645	45190051	1	NCRNA00082	MGC33556, p40
1	C1orf228	ENSG00000198520	ENST00000427321	retained_intron	KNOWN	None	34345	None	None	45189457	45190099	1	NCRNA00082	MGC33556, p40
1	C1orf228	ENSG00000198520	ENST00000446792	processed_transcript	KNOWN	None	34345	None	None	45189464	45190050	1	NCRNA00082	MGC33556, p40
1	C1orf228	ENSG00000198520	ENST00000444525	retained_intron	KNOWN	None	34345	None	None	45189467	45189976	1	NCRNA00082	MGC33556, p40
1	C1orf228	ENSG00000198520	ENST00000440383	retained_intron	KNOWN	None	34345	None	None	45189503	45190034	1	NCRNA00082	MGC33556, p40
1	C1orf228	ENSG00000198520	ENST00000427336	retained_intron	KNOWN	None	34345	None	None	45189516	45190052	1	NCRNA00082	MGC33556, p40
1	C1orf228	ENSG00000198520	ENST00000418779	retained_intron	KNOWN	None	34345	None	None	45190045	45191263	1	NCRNA00082	MGC33556, p40
1	C1orf228	ENSG00000198520	ENST00000568406	retained_intron	KNOWN	None	34345	None	None	45190179	45191263	1	NCRNA00082	MGC33556, p40
1	C1orf228	ENSG00000198520	ENST00000535358	protein_coding	KNOWN	CCDS53311	34345	1323	440	45140394	45191263	1	NCRNA00082	MGC33556, p40
6	None	ENSG00000238801	ENST00000459550	snoRNA	NOVEL	None	None	None	None	4643996	4644088	1	None	None
6	PSMC1P11	ENSG00000217385	ENST00000405257	processed_pseudogene	KNOWN	None	39786	None	None	4702697	4704013	1	None	None
6	GPLD1	ENSG00000112293	ENST00000492917	processed_transcript	KNOWN	None	4459	None	None	24424793	24436108	-1	None	None
6	GPLD1	ENSG00000112293	ENST00000230036	protein_coding	KNOWN	CCDS4553	4459	2523	840	24428405	24489850	-1	None	None
6	GPLD1	ENSG00000112293	ENST00000474784	processed_transcript	KNOWN	None	4459	None	None	24466924	24495433	-1	None	None
6	GPLD1	ENSG00000112293	ENST00000378243	retained_intron	KNOWN	None	4459	None	None	24473307	24489799	-1	None	None
6	GPLD1	ENSG00000112293	ENST00000486892	retained_intron	KNOWN	None	4459	None	None	24473653	24489807	-1	None	None
6	GPLD1	ENSG00000112293	ENST00000475417	processed_transcript	KNOWN	None	4459	None	None	24475349	24495427	-1	None	None
6	USP49	ENSG00000164663	ENST00000394253	protein_coding	KNOWN	None	20078	2067	688	41757634	41861898	-1	None	MGC20741
6	USP49	ENSG00000164663	ENST00000373010	protein_coding	PUTATIVE	None	20078	1758	585	41764236	41855067	-1	None	MGC20741
6	USP49	ENSG00000164663	ENST00000448078	nonsense_mediated_decay	KNOWN	None	20078	157	51	41764415	41773483	-1	None	MGC20741
6	USP49	ENSG00000164663	ENST00000373006	protein_coding	KNOWN	CCDS4861	20078	1923	640	41765383	41863099	-1	None	MGC20741
6	USP49	ENSG00000164663	ENST00000437061	protein_coding	KNOWN	None	20078	113	36	41774609	41839713	-1	None	MGC20741
6	USP49	ENSG00000164663	ENST00000423567	protein_coding	KNOWN	None	20078	45	14	41774677	41862193	-1	None	MGC20741
6	USP49	ENSG00000164663	ENST00000373009	protein_coding	KNOWN	None	20078	2067	688	41764271	41774721	-1	None	MGC20741
6	USP49	ENSG00000164663	ENST00000297229	protein_coding	KNOWN	CCDS4861	20078	1923	640	41765384	41839381	-1	None	MGC20741
14	MIA2	ENSG00000150526	ENST00000557148	protein_coding	PUTATIVE	None	18432	277	91	39699435	39709792	1	None	FLJ22404
14	MIA2	ENSG00000150526	ENST00000555143	protein_coding	PUTATIVE	None	18432	374	123	39703114	39706474	1	None	FLJ22404
14	MIA2	ENSG00000150526	ENST00000280082	protein_coding	NOVEL	CCDS9672	18432	1965	654	39703120	39722859	1	None	FLJ22404
14	MIA2	ENSG00000150526	ENST00000556784	protein_coding	PUTATIVE	None	18432	1626	541	39703319	39717407	1	None	FLJ22404
14	WARS	ENSG00000140105	ENST00000392882	protein_coding	KNOWN	CCDS9960	12729	1416	471	100800125	100841981	-1	IFI53	IFP53
14	WARS	ENSG00000140105	ENST00000358655	protein_coding	KNOWN	CCDS9961	12729	1293	430	100800139	100842672	-1	IFI53	IFP53
14	WARS	ENSG00000140105	ENST00000355338	protein_coding	KNOWN	CCDS9960	12729	1416	471	100800155	100843142	-1	IFI53	IFP53
14	WARS	ENSG00000140105	ENST00000344102	protein_coding	KNOWN	CCDS9961	12729	1293	430	100800165	100841945	-1	IFI53	IFP53
14	WARS	ENSG00000140105	ENST00000557135	protein_coding	KNOWN	CCDS9960	12729	1416	471	100800816	100841684	-1	IFI53	IFP53
14	WARS	ENSG00000140105	ENST00000556645	protein_coding	KNOWN	CCDS9961	12729	1293	430	100800830	100842588	-1	IFI53	IFP53
14	WARS	ENSG00000140105	ENST00000554950	retained_intron	KNOWN	None	12729	None	None	100801264	100820760	-1	IFI53	IFP53
14	WARS	ENSG00000140105	ENST00000557614	retained_intron	KNOWN	None	12729	None	None	100803178	100808871	-1	IFI53	IFP53
14	WARS	ENSG00000140105	ENST00000554601	protein_coding	PUTATIVE	None	12729	557	184	100808387	100813166	-1	IFI53	IFP53
14	WARS	ENSG00000140105	ENST00000553395	protein_coding	KNOWN	None	12729	680	225	100813106	100841944	-1	IFI53	IFP53
14	WARS	ENSG00000140105	ENST00000556504	protein_coding	KNOWN	None	12729	671	222	100813115	100842624	-1	IFI53	IFP53
14	WARS	ENSG00000140105	ENST00000554084	processed_transcript	KNOWN	None	12729	None	None	100819220	100828260	-1	IFI53	IFP53
14	WARS	ENSG00000140105	ENST00000557722	protein_coding	KNOWN	None	12729	638	211	100820111	100842648	-1	IFI53	IFP53
14	WARS	ENSG00000140105	ENST00000557297	protein_coding	KNOWN	None	12729	463	153	100820163	100841670	-1	IFI53	IFP53
14	WARS	ENSG00000140105	ENST00000556435	protein_coding	KNOWN	None	12729	461	152	100820165	100842639	-1	IFI53	IFP53
14	WARS	ENSG00000140105	ENST00000553808	retained_intron	KNOWN	None	12729	None	None	100820530	100841810	-1	IFI53	IFP53
14	WARS	ENSG00000140105	ENST00000554331	retained_intron	KNOWN	None	12729	None	None	100820639	100842667	-1	IFI53	IFP53
14	WARS	ENSG00000140105	ENST00000555063	retained_intron	KNOWN	None	12729	None	None	100820738	100842680	-1	IFI53	IFP53
14	WARS	ENSG00000140105	ENST00000556338	protein_coding	KNOWN	None	12729	421	139	100820782	100841949	-1	IFI53	IFP53
14	WARS	ENSG00000140105	ENST00000556698	protein_coding	KNOWN	None	12729	458	151	100820868	100841684	-1	IFI53	IFP53
14	WARS	ENSG00000140105	ENST00000557239	processed_transcript	KNOWN	None	12729	None	None	100820868	100842645	-1	IFI53	IFP53
14	WARS	ENSG00000140105	ENST00000553524	protein_coding	KNOWN	None	12729	450	149	100820876	100842671	-1	IFI53	IFP53
14	WARS	ENSG00000140105	ENST00000555410	protein_coding	NOVEL	None	12729	531	176	100820897	100841692	-1	IFI53	IFP53
14	WARS	ENSG00000140105	ENST00000556579	retained_intron	KNOWN	None	12729	None	None	100826861	100842636	-1	IFI53	IFP53
14	WARS	ENSG00000140105	ENST00000554772	protein_coding	KNOWN	None	12729	373	123	100826940	100842644	-1	IFI53	IFP53
14	WARS	ENSG00000140105	ENST00000556660	protein_coding	KNOWN	None	12729	344	113	100826969	100841279	-1	IFI53	IFP53
14	WARS	ENSG00000140105	ENST00000556783	nonsense_mediated_decay	KNOWN	None	12729	111	36	100826979	100842642	-1	IFI53	IFP53
14	WARS	ENSG00000140105	ENST00000553413	protein_coding	KNOWN	None	12729	322	106	100826991	100842648	-1	IFI53	IFP53
14	WARS	ENSG00000140105	ENST00000557094	retained_intron	KNOWN	None	12729	None	None	100828040	100841810	-1	IFI53	IFP53
14	WARS	ENSG00000140105	ENST00000553769	protein_coding	KNOWN	None	12729	313	103	100828045	100842646	-1	IFI53	IFP53
14	WARS	ENSG00000140105	ENST00000553545	protein_coding	KNOWN	None	12729	291	96	100828067	100841944	-1	IFI53	IFP53
14	WARS	ENSG00000140105	ENST00000554820	protein_coding	KNOWN	None	12729	258	85	100828100	100841812	-1	IFI53	IFP53
14	WARS	ENSG00000140105	ENST00000557347	nonsense_mediated_decay	KNOWN	None	12729	123	40	100828139	100841812	-1	IFI53	IFP53
14	WARS	ENSG00000140105	ENST00000554509	protein_coding	NOVEL	None	12729	316	104	100828144	100841684	-1	IFI53	IFP53
14	WARS	ENSG00000140105	ENST00000556209	protein_coding	KNOWN	None	12729	211	69	100828147	100842622	-1	IFI53	IFP53
14	WARS	ENSG00000140105	ENST00000554605	protein_coding	KNOWN	None	12729	204	67	100828154	100842646	-1	IFI53	IFP53
14	WARS	ENSG00000140105	ENST00000555813	protein_coding	KNOWN	None	12729	190	62	100828168	100841681	-1	IFI53	IFP53
14	WARS	ENSG00000140105	ENST00000556695	protein_coding	KNOWN	None	12729	176	57	100828182	100841286	-1	IFI53	IFP53
14	WARS	ENSG00000140105	ENST00000556295	protein_coding	KNOWN	None	12729	174	57	100828184	100841804	-1	IFI53	IFP53
14	WARS	ENSG00000140105	ENST00000555031	protein_coding	KNOWN	None	12729	165	54	100828193	100841930	-1	IFI53	IFP53
14	WARS	ENSG00000140105	ENST00000553934	protein_coding	KNOWN	None	12729	99	32	100835424	100842081	-1	IFI53	IFP53
14	WARS	ENSG00000140105	ENST00000553581	protein_coding	KNOWN	None	12729	77	24	100835446	100842645	-1	IFI53	IFP53
14	WARS	ENSG00000140105	ENST00000555464	processed_transcript	PUTATIVE	None	12729	None	None	100836716	100841884	-1	IFI53	IFP53
9	None	ENSG00000227917	ENST00000435421	lincRNA	KNOWN	None	None	None	None	100804	102850	-1	None	None
9	None	ENSG00000227917	ENST00000427318	lincRNA	KNOWN	None	None	None	None	101002	102941	-1	None	None
10	TDRD1	ENSG00000095627	ENST00000369282	protein_coding	KNOWN	None	11712	3342	1113	115939029	115991486	1	None	CT41.1
10	TDRD1	ENSG00000095627	ENST00000369280	protein_coding	KNOWN	None	11712	3315	1104	115939349	115988176	1	None	CT41.1
10	TDRD1	ENSG00000095627	ENST00000251864	protein_coding	KNOWN	CCDS7588	11712	3570	1189	115939029	115992063	1	None	CT41.1
10	TDRD1	ENSG00000095627	ENST00000369281	protein_coding	KNOWN	None	11712	3228	1075	115939029	115992063	1	None	CT41.1
10	TDRD1	ENSG00000095627	ENST00000422662	protein_coding	KNOWN	None	11712	2154	717	115939029	115992063	1	None	CT41.1
16	CLEC3A	ENSG00000166509	ENST00000299642	protein_coding	KNOWN	CCDS10927	2052	621	206	78056412	78066003	1	CLECSF1	None
16	CLEC3A	ENSG00000166509	ENST00000567430	nonsense_mediated_decay	KNOWN	None	2052	153	50	78056412	78100658	1	CLECSF1	None
16	CLEC3A	ENSG00000166509	ENST00000565808	processed_transcript	PUTATIVE	None	2052	None	None	78062986	78064848	1	CLECSF1	None
16	CLEC3A	ENSG00000166509	ENST00000575655	protein_coding	KNOWN	None	2052	594	197	78056443	78065994	1	CLECSF1	None
12	TAS2R10	ENSG00000121318	ENST00000240619	protein_coding	KNOWN	CCDS8634	14918	924	307	10977916	10978957	-1	None	T2R10, TRB2
1	FAM63A	ENSG00000143409	ENST00000312210	protein_coding	KNOWN	CCDS30854	25648	984	327	150969025	150979333	-1	None	FLJ11280
1	FAM63A	ENSG00000143409	ENST00000361936	protein_coding	KNOWN	CCDS976	25648	1410	469	150969311	150980841	-1	None	FLJ11280
1	FAM63A	ENSG00000143409	ENST00000361738	protein_coding	KNOWN	CCDS53361	25648	1554	517	150969576	150980851	-1	None	FLJ11280
1	FAM63A	ENSG00000143409	ENST00000493834	protein_coding	KNOWN	CCDS55635	25648	1125	374	150969584	150978961	-1	None	FLJ11280
1	FAM63A	ENSG00000143409	ENST00000497067	protein_coding	PUTATIVE	None	25648	428	141	150969837	150970646	-1	None	FLJ11280
1	FAM63A	ENSG00000143409	ENST00000470877	processed_transcript	KNOWN	None	25648	None	None	150971887	150979347	-1	None	FLJ11280
9	None	ENSG00000231808	ENST00000416242	lincRNA	KNOWN	None	None	None	None	112716	113754	-1	None	None
11	CSNK2A3	ENSG00000254598	ENST00000528848	protein_coding	NOVEL	CCDS59224	2458	1176	391	11373489	11374904	-1	CSNK2A1P	None
12	PRH1	ENSG00000231887	ENST00000428168	protein_coding	KNOWN	None	9366	501	166	11033610	11036854	-1	None	Pa
9	None	ENSG00000235880	ENST00000429661	antisense	KNOWN	None	None	None	None	267966	273002	-1	None	None
11	None	ENSG00000268242	ENST00000601641	protein_coding	NOVEL	None	None	198	65	11747060	11747257	-1	None	None
1	INTS7	ENSG00000143493	ENST00000469606	processed_transcript	KNOWN	None	24484	None	None	212113741	212208878	-1	C1orf73	DKFZP434B168, INT7
1	INTS7	ENSG00000143493	ENST00000366994	protein_coding	NOVEL	CCDS1501	24484	2889	962	212113743	212208884	-1	C1orf73	DKFZP434B168, INT7
1	INTS7	ENSG00000143493	ENST00000366993	protein_coding	NOVEL	CCDS55685	24484	2847	948	212114690	212208878	-1	C1orf73	DKFZP434B168, INT7
1	INTS7	ENSG00000143493	ENST00000366992	protein_coding	NOVEL	CCDS55684	24484	2829	942	212114698	212208862	-1	C1orf73	DKFZP434B168, INT7
1	INTS7	ENSG00000143493	ENST00000475798	processed_transcript	KNOWN	None	24484	None	None	212119949	212150000	-1	C1orf73	DKFZP434B168, INT7
1	INTS7	ENSG00000143493	ENST00000461212	processed_transcript	KNOWN	None	24484	None	None	212125769	212148684	-1	C1orf73	DKFZP434B168, INT7
1	INTS7	ENSG00000143493	ENST00000462910	processed_transcript	KNOWN	None	24484	None	None	212139466	212142049	-1	C1orf73	DKFZP434B168, INT7
1	INTS7	ENSG00000143493	ENST00000460867	processed_transcript	KNOWN	None	24484	None	None	212180007	212184969	-1	C1orf73	DKFZP434B168, INT7
1	INTS7	ENSG00000143493	ENST00000440600	protein_coding	KNOWN	CCDS55683	24484	2742	913	212114883	212208881	-1	C1orf73	DKFZP434B168, INT7
2	GREB1	ENSG00000196208	ENST00000381486	protein_coding	KNOWN	CCDS42655	24885	5850	1949	11674242	11782914	1	None	KIAA0575
2	GREB1	ENSG00000196208	ENST00000263834	protein_coding	KNOWN	CCDS33147	24885	1230	409	11679969	11728369	1	None	KIAA0575
2	GREB1	ENSG00000196208	ENST00000389825	protein_coding	PUTATIVE	None	24885	762	253	11682816	11721391	1	None	KIAA0575
2	GREB1	ENSG00000196208	ENST00000381483	protein_coding	KNOWN	CCDS33146	24885	1374	457	11682851	11732272	1	None	KIAA0575
2	GREB1	ENSG00000196208	ENST00000470980	retained_intron	KNOWN	None	24885	None	None	11696744	11703267	1	None	KIAA0575
2	GREB1	ENSG00000196208	ENST00000432985	protein_coding	PUTATIVE	None	24885	1623	540	11728382	11750868	1	None	KIAA0575
2	GREB1	ENSG00000196208	ENST00000396123	protein_coding	PUTATIVE	None	24885	2844	947	11752385	11782914	1	None	KIAA0575
2	GREB1	ENSG00000196208	ENST00000472040	retained_intron	KNOWN	None	24885	None	None	11752469	11758426	1	None	KIAA0575
2	GREB1	ENSG00000196208	ENST00000234142	protein_coding	KNOWN	CCDS42655	24885	5850	1949	11696479	11782912	1	None	KIAA0575
4	MFSD10	ENSG00000109736	ENST00000514800	protein_coding	NOVEL	None	16894	1443	480	2932288	2935674	-1	None	TETRAN, IT10C3
4	MFSD10	ENSG00000109736	ENST00000514031	retained_intron	KNOWN	None	16894	None	None	2932292	2933613	-1	None	TETRAN, IT10C3
4	MFSD10	ENSG00000109736	ENST00000355443	protein_coding	KNOWN	CCDS3365	16894	1368	455	2932292	2936586	-1	None	TETRAN, IT10C3
4	MFSD10	ENSG00000109736	ENST00000329687	protein_coding	KNOWN	CCDS3365	16894	1368	455	2932295	2936185	-1	None	TETRAN, IT10C3
4	MFSD10	ENSG00000109736	ENST00000503596	nonsense_mediated_decay	KNOWN	None	16894	729	242	2932310	2936543	-1	None	TETRAN, IT10C3
4	MFSD10	ENSG00000109736	ENST00000508221	protein_coding	NOVEL	None	16894	1071	356	2932330	2936542	-1	None	TETRAN, IT10C3
4	MFSD10	ENSG00000109736	ENST00000507272	nonsense_mediated_decay	KNOWN	None	16894	303	100	2932332	2935724	-1	None	TETRAN, IT10C3
4	MFSD10	ENSG00000109736	ENST00000507555	protein_coding	NOVEL	None	16894	1101	366	2932338	2936561	-1	None	TETRAN, IT10C3
4	MFSD10	ENSG00000109736	ENST00000508276	retained_intron	KNOWN	None	16894	None	None	2932867	2933663	-1	None	TETRAN, IT10C3
4	MFSD10	ENSG00000109736	ENST00000512781	retained_intron	KNOWN	None	16894	None	None	2932954	2934425	-1	None	TETRAN, IT10C3
4	MFSD10	ENSG00000109736	ENST00000509676	retained_intron	KNOWN	None	16894	None	None	2933792	2936523	-1	None	TETRAN, IT10C3
2	TIA1	ENSG00000116001	ENST00000433529	protein_coding	KNOWN	CCDS1901	11802	1161	386	70436576	70475773	-1	None	None
2	TIA1	ENSG00000116001	ENST00000415783	protein_coding	KNOWN	CCDS1900	11802	1128	375	70436576	70475792	-1	None	None
2	TIA1	ENSG00000116001	ENST00000282574	protein_coding	NOVEL	None	11802	1158	385	70437336	70475712	-1	None	None
2	TIA1	ENSG00000116001	ENST00000445587	protein_coding	NOVEL	None	11802	858	285	70439449	70475742	-1	None	None
2	TIA1	ENSG00000116001	ENST00000486392	retained_intron	KNOWN	None	11802	None	None	70439808	70442454	-1	None	None
2	TIA1	ENSG00000116001	ENST00000495774	retained_intron	KNOWN	None	11802	None	None	70439881	70442792	-1	None	None
2	TIA1	ENSG00000116001	ENST00000454815	protein_coding	PUTATIVE	None	11802	344	113	70441484	70456450	-1	None	None
2	TIA1	ENSG00000116001	ENST00000468787	processed_transcript	KNOWN	None	11802	None	None	70441496	70443976	-1	None	None
2	TIA1	ENSG00000116001	ENST00000482876	processed_transcript	KNOWN	None	11802	None	None	70442257	70451724	-1	None	None
2	TIA1	ENSG00000116001	ENST00000497672	retained_intron	KNOWN	None	11802	None	None	70443251	70443960	-1	None	None
2	TIA1	ENSG00000116001	ENST00000477415	retained_intron	KNOWN	None	11802	None	None	70443285	70454955	-1	None	None
2	TIA1	ENSG00000116001	ENST00000496096	retained_intron	KNOWN	None	11802	None	None	70443366	70454971	-1	None	None
2	TIA1	ENSG00000116001	ENST00000484065	retained_intron	KNOWN	None	11802	None	None	70443557	70444292	-1	None	None
2	TIA1	ENSG00000116001	ENST00000416149	protein_coding	PUTATIVE	None	11802	645	214	70443804	70475586	-1	None	None
2	TIA1	ENSG00000116001	ENST00000474699	retained_intron	KNOWN	None	11802	None	None	70443954	70452198	-1	None	None
2	TIA1	ENSG00000116001	ENST00000474809	nonsense_mediated_decay	KNOWN	None	11802	435	144	70443980	70475790	-1	None	None
2	TIA1	ENSG00000116001	ENST00000477044	nonsense_mediated_decay	KNOWN	None	11802	486	161	70451556	70475743	-1	None	None
2	TIA1	ENSG00000116001	ENST00000361692	protein_coding	PUTATIVE	None	11802	457	151	70451558	70463307	-1	None	None
2	TIA1	ENSG00000116001	ENST00000496452	retained_intron	KNOWN	None	11802	None	None	70456030	70475772	-1	None	None
2	TIA1	ENSG00000116001	ENST00000481650	retained_intron	KNOWN	None	11802	None	None	70456322	70475754	-1	None	None
5	CTXN3	ENSG00000205279	ENST00000379445	protein_coding	KNOWN	CCDS34221	31110	246	81	126984736	126994322	1	None	None
5	CTXN3	ENSG00000205279	ENST00000514851	processed_transcript	KNOWN	None	31110	None	None	126988707	126989383	1	None	None
5	CTXN3	ENSG00000205279	ENST00000395322	protein_coding	KNOWN	CCDS34221	31110	246	81	126988741	126994322	1	None	None
19	NFKBID	ENSG00000167604	ENST00000590828	nonsense_mediated_decay	KNOWN	None	15671	197	64	36378555	36387161	-1	None	TA-NFKBH, IkappaBNS
19	NFKBID	ENSG00000167604	ENST00000396901	protein_coding	KNOWN	CCDS42552	15671	942	313	36379143	36391552	-1	None	TA-NFKBH, IkappaBNS
19	NFKBID	ENSG00000167604	ENST00000606253	protein_coding	KNOWN	CCDS42552	15671	942	313	36379143	36393205	-1	None	TA-NFKBH, IkappaBNS
19	NFKBID	ENSG00000167604	ENST00000586361	retained_intron	KNOWN	None	15671	None	None	36381348	36391434	-1	None	TA-NFKBH, IkappaBNS
19	NFKBID	ENSG00000167604	ENST00000588497	retained_intron	KNOWN	None	15671	None	None	36386881	36388569	-1	None	TA-NFKBH, IkappaBNS
19	NFKBID	ENSG00000167604	ENST00000590094	retained_intron	KNOWN	None	15671	None	None	36387023	36387960	-1	None	TA-NFKBH, IkappaBNS
19	NFKBID	ENSG00000167604	ENST00000591730	retained_intron	KNOWN	None	15671	None	None	36387175	36391423	-1	None	TA-NFKBH, IkappaBNS
19	NFKBID	ENSG00000167604	ENST00000585925	protein_coding	PUTATIVE	None	15671	450	149	36387294	36391564	-1	None	TA-NFKBH, IkappaBNS
19	NFKBID	ENSG00000167604	ENST00000588039	retained_intron	KNOWN	None	15671	None	None	36388391	36391450	-1	None	TA-NFKBH, IkappaBNS
19	NFKBID	ENSG00000167604	ENST00000585544	processed_transcript	KNOWN	None	15671	None	None	36388677	36390642	-1	None	TA-NFKBH, IkappaBNS
19	NFKBID	ENSG00000167604	ENST00000352614	protein_coding	KNOWN	None	15671	1398	465	36379143	36393185	-1	None	TA-NFKBH, IkappaBNS
19	NFKBID	ENSG00000167604	ENST00000340950	protein_coding	KNOWN	None	15671	453	150	36379143	36381596	-1	None	TA-NFKBH, IkappaBNS
3	CEP63	ENSG00000182923	ENST00000332047	protein_coding	KNOWN	CCDS43154	25815	1488	495	134204585	134280610	1	None	FLJ13386
3	CEP63	ENSG00000182923	ENST00000354446	protein_coding	KNOWN	CCDS43152	25815	1428	475	134204633	134293853	1	None	FLJ13386
3	CEP63	ENSG00000182923	ENST00000514412	retained_intron	KNOWN	None	25815	None	None	134204887	134214214	1	None	FLJ13386
3	CEP63	ENSG00000182923	ENST00000511574	protein_coding	KNOWN	None	25815	488	161	134204888	134256043	1	None	FLJ13386
3	CEP63	ENSG00000182923	ENST00000504013	processed_transcript	KNOWN	None	25815	None	None	134204899	134251666	1	None	FLJ13386
3	CEP63	ENSG00000182923	ENST00000383229	protein_coding	KNOWN	CCDS43153	25815	1626	541	134204899	134280608	1	None	FLJ13386
3	CEP63	ENSG00000182923	ENST00000512894	protein_coding	KNOWN	None	25815	189	62	134205047	134226095	1	None	FLJ13386
3	CEP63	ENSG00000182923	ENST00000513612	protein_coding	KNOWN	CCDS3086	25815	2112	703	134205069	134280741	1	None	FLJ13386
3	CEP63	ENSG00000182923	ENST00000606977	protein_coding	KNOWN	CCDS3086	25815	2112	703	134205096	134280737	1	None	FLJ13386
3	CEP63	ENSG00000182923	ENST00000508778	protein_coding	NOVEL	None	25815	464	153	134250691	134264619	1	None	FLJ13386
3	CEP63	ENSG00000182923	ENST00000510625	retained_intron	KNOWN	None	25815	None	None	134254185	134293859	1	None	FLJ13386
3	CEP63	ENSG00000182923	ENST00000504929	protein_coding	NOVEL	None	25815	735	244	134264998	134277185	1	None	FLJ13386
3	CEP63	ENSG00000182923	ENST00000514678	protein_coding	NOVEL	None	25815	585	194	134266229	134293855	1	None	FLJ13386
3	CEP63	ENSG00000182923	ENST00000513295	retained_intron	KNOWN	None	25815	None	None	134267935	134272391	1	None	FLJ13386
3	CEP63	ENSG00000182923	ENST00000337090	protein_coding	KNOWN	CCDS3086	25815	2112	703	134204897	134283870	1	None	FLJ13386
11	FADS3	ENSG00000221968	ENST00000527697	protein_coding	PUTATIVE	None	3576	993	330	61640991	61659523	-1	LLCDL3	CYB5RP
11	FADS3	ENSG00000221968	ENST00000533676	retained_intron	KNOWN	None	3576	None	None	61640996	61649998	-1	LLCDL3	CYB5RP
11	FADS3	ENSG00000221968	ENST00000278829	protein_coding	KNOWN	CCDS8013	3576	1338	445	61640998	61659006	-1	LLCDL3	CYB5RP
11	FADS3	ENSG00000221968	ENST00000529404	retained_intron	KNOWN	None	3576	None	None	61640999	61648174	-1	LLCDL3	CYB5RP
11	FADS3	ENSG00000221968	ENST00000527379	protein_coding	PUTATIVE	None	3576	689	228	61641207	61646054	-1	LLCDL3	CYB5RP
11	FADS3	ENSG00000221968	ENST00000525094	protein_coding	PUTATIVE	None	3576	349	115	61641232	61644343	-1	LLCDL3	CYB5RP
11	FADS3	ENSG00000221968	ENST00000525588	protein_coding	NOVEL	None	3576	1254	417	61641286	61658853	-1	LLCDL3	CYB5RP
11	FADS3	ENSG00000221968	ENST00000531956	protein_coding	PUTATIVE	None	3576	599	198	61644350	61647935	-1	LLCDL3	CYB5RP
11	FADS3	ENSG00000221968	ENST00000534223	protein_coding	PUTATIVE	None	3576	565	187	61644384	61653803	-1	LLCDL3	CYB5RP
11	FADS3	ENSG00000221968	ENST00000526294	retained_intron	KNOWN	None	3576	None	None	61644918	61646905	-1	LLCDL3	CYB5RP
11	FADS3	ENSG00000221968	ENST00000414624	retained_intron	KNOWN	None	3576	None	None	61645056	61658926	-1	LLCDL3	CYB5RP
11	FADS3	ENSG00000221968	ENST00000534426	retained_intron	KNOWN	None	3576	None	None	61646113	61647665	-1	LLCDL3	CYB5RP
11	FADS3	ENSG00000221968	ENST00000529525	processed_transcript	KNOWN	None	3576	None	None	61657685	61658979	-1	LLCDL3	CYB5RP
11	FADS3	ENSG00000221968	ENST00000540820	protein_coding	KNOWN	None	3576	1158	385	61641273	61658926	-1	LLCDL3	CYB5RP
4	HPGD	ENSG00000164120	ENST00000296522	protein_coding	KNOWN	CCDS3821	5154	801	266	175411328	175444049	-1	None	SDR36C1
4	HPGD	ENSG00000164120	ENST00000510835	nonsense_mediated_decay	KNOWN	None	5154	114	37	175412255	175443626	-1	None	SDR36C1
4	HPGD	ENSG00000164120	ENST00000296521	protein_coding	PUTATIVE	CCDS54821	5154	537	178	175412609	175443638	-1	None	SDR36C1
4	HPGD	ENSG00000164120	ENST00000510901	protein_coding	PUTATIVE	CCDS58933	5154	438	145	175412722	175444216	-1	None	SDR36C1
4	HPGD	ENSG00000164120	ENST00000511499	retained_intron	KNOWN	None	5154	None	None	175412906	175416980	-1	None	SDR36C1
4	HPGD	ENSG00000164120	ENST00000422112	protein_coding	NOVEL	CCDS58934	5154	597	198	175412936	175443639	-1	None	SDR36C1
4	HPGD	ENSG00000164120	ENST00000508330	nonsense_mediated_decay	KNOWN	None	5154	264	87	175412945	175443792	-1	None	SDR36C1
4	HPGD	ENSG00000164120	ENST00000509512	retained_intron	KNOWN	None	5154	None	None	175413021	175414612	-1	None	SDR36C1
4	HPGD	ENSG00000164120	ENST00000506910	protein_coding	PUTATIVE	None	5154	298	98	175414303	175444305	-1	None	SDR36C1
4	HPGD	ENSG00000164120	ENST00000514584	protein_coding	PUTATIVE	None	5154	291	96	175414310	175443484	-1	None	SDR36C1
4	HPGD	ENSG00000164120	ENST00000512410	retained_intron	KNOWN	None	5154	None	None	175416512	175443583	-1	None	SDR36C1
4	HPGD	ENSG00000164120	ENST00000504433	protein_coding	PUTATIVE	None	5154	531	176	175427894	175443650	-1	None	SDR36C1
4	HPGD	ENSG00000164120	ENST00000541923	protein_coding	KNOWN	CCDS58933	5154	438	145	175412945	175443792	-1	None	SDR36C1
4	HPGD	ENSG00000164120	ENST00000542498	protein_coding	KNOWN	CCDS58935	5154	432	143	175413084	175443602	-1	None	SDR36C1
3	RTP1	ENSG00000175077	ENST00000312295	protein_coding	KNOWN	CCDS3287	28580	792	263	186915274	186919253	1	None	MGC35450
7	RNU2-29P	ENSG00000222355	ENST00000410423	snRNA	KNOWN	None	48522	None	None	53843829	53844017	1	None	None
7	None	ENSG00000271306	ENST00000604990	processed_pseudogene	KNOWN	None	None	None	None	53847476	53847956	1	None	None
HSCHR6_MHC_COX	LY6G5B	ENSG00000241713	ENST00000455499	protein_coding	KNOWN	None	13931	639	212	31624311	31628739	1	C6orf19	G5b
HSCHR6_MHC_COX	LY6G5B	ENSG00000241713	ENST00000444549	retained_intron	KNOWN	None	13931	None	None	31625572	31628739	1	C6orf19	G5b
HSCHR6_MHC_COX	LY6G5B	ENSG00000241713	ENST00000480530	protein_coding	KNOWN	None	13931	606	201	31626144	31628739	1	C6orf19	G5b
7	None	ENSG00000232418	ENST00000426503	processed_pseudogene	KNOWN	None	None	None	None	53854860	53854991	1	None	None
7	None	ENSG00000235454	ENST00000456660	processed_pseudogene	KNOWN	None	None	None	None	53929926	53931032	1	None	None
1	PRUNE	ENSG00000143363	ENST00000467771	processed_transcript	KNOWN	None	13420	None	None	150980896	151001429	1	None	DRES-17, HTCD37
1	PRUNE	ENSG00000143363	ENST00000462440	processed_transcript	KNOWN	None	13420	None	None	150980926	151006331	1	None	DRES-17, HTCD37
1	PRUNE	ENSG00000143363	ENST00000475722	processed_transcript	KNOWN	None	13420	None	None	150980943	151006442	1	None	DRES-17, HTCD37
1	PRUNE	ENSG00000143363	ENST00000450884	protein_coding	KNOWN	None	13420	419	138	150980953	151006313	1	None	DRES-17, HTCD37
1	PRUNE	ENSG00000143363	ENST00000271620	protein_coding	KNOWN	CCDS977	13420	1362	453	150980953	151008189	1	None	DRES-17, HTCD37
1	PRUNE	ENSG00000143363	ENST00000368937	protein_coding	KNOWN	None	13420	657	218	150980954	151007683	1	None	DRES-17, HTCD37
1	PRUNE	ENSG00000143363	ENST00000431193	protein_coding	KNOWN	None	13420	536	177	150980958	151006589	1	None	DRES-17, HTCD37
1	PRUNE	ENSG00000143363	ENST00000368936	protein_coding	KNOWN	None	13420	816	271	150980959	151008189	1	None	DRES-17, HTCD37
1	PRUNE	ENSG00000143363	ENST00000368935	protein_coding	KNOWN	None	13420	507	168	150981006	151008189	1	None	DRES-17, HTCD37
1	PRUNE	ENSG00000143363	ENST00000368934	protein_coding	KNOWN	None	13420	657	218	150997218	151008187	1	None	DRES-17, HTCD37
1	PRUNE	ENSG00000143363	ENST00000271619	protein_coding	KNOWN	None	13420	726	241	150980953	151008189	1	None	DRES-17, HTCD37
16	NOB1	ENSG00000141101	ENST00000268802	protein_coding	KNOWN	CCDS10884	29540	1239	412	69775770	69788843	-1	PSMD8BP1	NOB1P, ART-4, MST158
16	NOB1	ENSG00000141101	ENST00000569871	nonsense_mediated_decay	KNOWN	None	29540	201	66	69776479	69788827	-1	PSMD8BP1	NOB1P, ART-4, MST158
16	NOB1	ENSG00000141101	ENST00000564620	nonsense_mediated_decay	KNOWN	None	29540	201	66	69778806	69788817	-1	PSMD8BP1	NOB1P, ART-4, MST158
16	NOB1	ENSG00000141101	ENST00000561677	retained_intron	KNOWN	None	29540	None	None	69782651	69786156	-1	PSMD8BP1	NOB1P, ART-4, MST158
16	NOB1	ENSG00000141101	ENST00000563055	retained_intron	KNOWN	None	29540	None	None	69782956	69788695	-1	PSMD8BP1	NOB1P, ART-4, MST158
16	NOB1	ENSG00000141101	ENST00000562416	retained_intron	KNOWN	None	29540	None	None	69783213	69788820	-1	PSMD8BP1	NOB1P, ART-4, MST158
11	USP47	ENSG00000170242	ENST00000339865	protein_coding	KNOWN	CCDS41619	20076	3864	1287	11862970	11980870	1	None	None
11	USP47	ENSG00000170242	ENST00000525257	processed_transcript	KNOWN	None	20076	None	None	11863487	11906046	1	None	None
11	USP47	ENSG00000170242	ENST00000527733	protein_coding	NOVEL	None	20076	4068	1355	11863522	11977968	1	None	None
11	USP47	ENSG00000170242	ENST00000399455	protein_coding	KNOWN	None	20076	4128	1375	11863613	11980870	1	None	None
11	USP47	ENSG00000170242	ENST00000525367	retained_intron	KNOWN	None	20076	None	None	11901733	11906252	1	None	None
11	USP47	ENSG00000170242	ENST00000525078	retained_intron	KNOWN	None	20076	None	None	11959877	11964696	1	None	None
11	USP47	ENSG00000170242	ENST00000531513	retained_intron	KNOWN	None	20076	None	None	11964497	11970621	1	None	None
11	USP47	ENSG00000170242	ENST00000530041	processed_transcript	KNOWN	None	20076	None	None	11964974	11971522	1	None	None
11	USP47	ENSG00000170242	ENST00000530369	retained_intron	KNOWN	None	20076	None	None	11969571	11974324	1	None	None
11	USP47	ENSG00000170242	ENST00000305481	processed_transcript	KNOWN	None	20076	None	None	11971990	11980701	1	None	None
11	USP47	ENSG00000170242	ENST00000529813	retained_intron	KNOWN	None	20076	None	None	11972420	11978492	1	None	None
11	USP47	ENSG00000170242	ENST00000539466	protein_coding	KNOWN	None	20076	474	157	11863522	11977952	1	None	None
6	None	ENSG00000236336	ENST00000436283	antisense	KNOWN	None	None	None	None	4774760	4775642	-1	None	None
1	KIF2C	ENSG00000142945	ENST00000452259	protein_coding	KNOWN	None	6393	1009	335	45205490	45223643	1	KNSL6	MCAK
1	KIF2C	ENSG00000142945	ENST00000372224	protein_coding	KNOWN	CCDS512	6393	2178	725	45205492	45233439	1	KNSL6	MCAK
1	KIF2C	ENSG00000142945	ENST00000493027	processed_transcript	KNOWN	None	6393	None	None	45205497	45223640	1	KNSL6	MCAK
1	KIF2C	ENSG00000142945	ENST00000455186	protein_coding	KNOWN	None	6393	861	286	45205625	45221820	1	KNSL6	MCAK
1	KIF2C	ENSG00000142945	ENST00000480574	processed_transcript	KNOWN	None	6393	None	None	45212078	45218825	1	KNSL6	MCAK
1	KIF2C	ENSG00000142945	ENST00000372217	protein_coding	KNOWN	None	6393	2016	671	45212078	45233439	1	KNSL6	MCAK
1	KIF2C	ENSG00000142945	ENST00000423289	protein_coding	KNOWN	None	6393	320	105	45226152	45228285	1	KNSL6	MCAK
1	KIF2C	ENSG00000142945	ENST00000472235	processed_transcript	KNOWN	None	6393	None	None	45227812	45232551	1	KNSL6	MCAK
1	KIF2C	ENSG00000142945	ENST00000372218	protein_coding	KNOWN	None	6393	2055	684	45205534	45233436	1	KNSL6	MCAK
1	KIF2C	ENSG00000142945	ENST00000372222	protein_coding	KNOWN	None	6393	1839	612	45212066	45232880	1	KNSL6	MCAK
6	None	ENSG00000217030	ENST00000404109	processed_pseudogene	KNOWN	None	None	None	None	4979306	4979728	1	None	None
6	None	ENSG00000272142	ENST00000606761	lincRNA	KNOWN	None	None	None	None	5030206	5043683	1	None	None
6	None	ENSG00000272142	ENST00000607327	lincRNA	KNOWN	None	None	None	None	5030265	5043174	1	None	None
6	None	ENSG00000272142	ENST00000606767	lincRNA	KNOWN	None	None	None	None	5030310	5031359	1	None	None
5	SLC12A2	ENSG00000064651	ENST00000262461	protein_coding	KNOWN	CCDS4144	10911	3639	1212	127419458	127525380	1	None	NKCC1, BSC, BSC2
5	SLC12A2	ENSG00000064651	ENST00000509205	nonsense_mediated_decay	KNOWN	None	10911	3453	1150	127419483	127522717	1	None	NKCC1, BSC, BSC2
5	SLC12A2	ENSG00000064651	ENST00000343225	protein_coding	KNOWN	CCDS58965	10911	3591	1196	127419540	127524134	1	None	NKCC1, BSC, BSC2
5	SLC12A2	ENSG00000064651	ENST00000504416	retained_intron	KNOWN	None	10911	None	None	127493680	127506787	1	None	NKCC1, BSC, BSC2
5	SLC12A2	ENSG00000064651	ENST00000509616	retained_intron	KNOWN	None	10911	None	None	127493741	127507574	1	None	NKCC1, BSC, BSC2
5	SLC12A2	ENSG00000064651	ENST00000507791	processed_transcript	KNOWN	None	10911	None	None	127513241	127520199	1	None	NKCC1, BSC, BSC2
5	SLC12A2	ENSG00000064651	ENST00000502849	retained_intron	KNOWN	None	10911	None	None	127514072	127518613	1	None	NKCC1, BSC, BSC2
6	None	ENSG00000271978	ENST00000606227	lincRNA	KNOWN	None	None	None	None	5031990	5054657	-1	None	None
17	C17orf89	ENSG00000224877	ENST00000431388	protein_coding	KNOWN	CCDS45809	33551	225	74	79213039	79215081	1	None	None
17	C17orf89	ENSG00000224877	ENST00000577158	nonsense_mediated_decay	KNOWN	None	33551	72	23	79213105	79214881	1	None	None
17	C17orf89	ENSG00000224877	ENST00000573090	retained_intron	KNOWN	None	33551	None	None	79213111	79215014	1	None	None
17	C17orf89	ENSG00000224877	ENST00000576002	protein_coding	PUTATIVE	None	33551	239	78	79213411	79215079	1	None	None
17	C17orf89	ENSG00000224877	ENST00000575067	processed_transcript	PUTATIVE	None	33551	None	None	79213429	79213698	1	None	None
17	C17orf89	ENSG00000224877	ENST00000573173	processed_transcript	PUTATIVE	None	33551	None	None	79213714	79214969	1	None	None
6	RMRPP2	ENSG00000252419	ENST00000516610	misc_RNA	KNOWN	None	47032	None	None	5045818	5046335	-1	None	None
9	UBAP2	ENSG00000137073	ENST00000379238	protein_coding	KNOWN	CCDS6547	14185	3360	1119	33921691	34048899	-1	None	KIAA1491, bA176F3.5, FLJ22435
9	UBAP2	ENSG00000137073	ENST00000379235	protein_coding	KNOWN	None	14185	1077	358	33921857	33928833	-1	None	KIAA1491, bA176F3.5, FLJ22435
9	UBAP2	ENSG00000137073	ENST00000474372	processed_transcript	KNOWN	None	14185	None	None	33923823	33934352	-1	None	KIAA1491, bA176F3.5, FLJ22435
9	UBAP2	ENSG00000137073	ENST00000488443	nonsense_mediated_decay	KNOWN	None	14185	354	117	33927025	33941709	-1	None	KIAA1491, bA176F3.5, FLJ22435
9	UBAP2	ENSG00000137073	ENST00000379225	protein_coding	KNOWN	None	14185	978	325	33935320	33948964	-1	None	KIAA1491, bA176F3.5, FLJ22435
9	UBAP2	ENSG00000137073	ENST00000412543	protein_coding	KNOWN	None	14185	1236	411	33944513	34048947	-1	None	KIAA1491, bA176F3.5, FLJ22435
9	UBAP2	ENSG00000137073	ENST00000421278	protein_coding	PUTATIVE	None	14185	829	275	33948372	33989041	-1	None	KIAA1491, bA176F3.5, FLJ22435
9	UBAP2	ENSG00000137073	ENST00000462799	processed_transcript	KNOWN	None	14185	None	None	33948380	33963780	-1	None	KIAA1491, bA176F3.5, FLJ22435
9	UBAP2	ENSG00000137073	ENST00000480885	processed_transcript	KNOWN	None	14185	None	None	33994479	34048870	-1	None	KIAA1491, bA176F3.5, FLJ22435
9	UBAP2	ENSG00000137073	ENST00000459988	processed_transcript	KNOWN	None	14185	None	None	33996476	34048885	-1	None	KIAA1491, bA176F3.5, FLJ22435
9	UBAP2	ENSG00000137073	ENST00000449054	protein_coding	KNOWN	CCDS6547	14185	3360	1119	33921691	34048883	-1	None	KIAA1491, bA176F3.5, FLJ22435
9	UBAP2	ENSG00000137073	ENST00000360802	protein_coding	KNOWN	CCDS6547	14185	3360	1119	33921691	34048947	-1	None	KIAA1491, bA176F3.5, FLJ22435
9	UBAP2	ENSG00000137073	ENST00000539807	protein_coding	KNOWN	None	14185	2625	874	33922276	34048885	-1	None	KIAA1491, bA176F3.5, FLJ22435
9	UBAP2	ENSG00000137073	ENST00000379239	protein_coding	KNOWN	None	14185	2559	852	33922139	34048885	-1	None	KIAA1491, bA176F3.5, FLJ22435
9	UBAP2	ENSG00000137073	ENST00000418786	protein_coding	KNOWN	None	14185	2061	686	33927850	34048927	-1	None	KIAA1491, bA176F3.5, FLJ22435
6	MCCD1	ENSG00000204511	ENST00000376191	protein_coding	KNOWN	CCDS34396	20668	360	119	31496494	31498009	1	None	None
6	None	ENSG00000220685	ENST00000405549	processed_pseudogene	KNOWN	None	None	None	None	5066029	5067216	-1	None	None
6	None	ENSG00000220685	ENST00000539017	processed_pseudogene	KNOWN	None	None	None	None	5066809	5067216	-1	None	None
1	DTL	ENSG00000143476	ENST00000366991	protein_coding	KNOWN	CCDS1502	30288	2193	730	212208919	212278348	1	None	RAMP, L2DTL, DCAF2
1	DTL	ENSG00000143476	ENST00000475419	processed_transcript	KNOWN	None	30288	None	None	212209188	212277936	1	None	RAMP, L2DTL, DCAF2
1	DTL	ENSG00000143476	ENST00000489149	processed_transcript	KNOWN	None	30288	None	None	212245416	212274042	1	None	RAMP, L2DTL, DCAF2
1	DTL	ENSG00000143476	ENST00000463791	processed_transcript	KNOWN	None	30288	None	None	212253711	212273768	1	None	RAMP, L2DTL, DCAF2
1	DTL	ENSG00000143476	ENST00000496442	processed_transcript	KNOWN	None	30288	None	None	212273988	212280742	1	None	RAMP, L2DTL, DCAF2
1	DTL	ENSG00000143476	ENST00000542077	protein_coding	KNOWN	None	30288	2067	688	212209092	212276604	1	None	RAMP, L2DTL, DCAF2
17	CDRT15	ENSG00000223510	ENST00000420162	protein_coding	KNOWN	CCDS32569	14395	567	188	14138990	14140166	-1	None	None
17	CDRT15	ENSG00000223510	ENST00000431716	protein_coding	NOVEL	None	14395	369	122	14138990	14140179	-1	None	None
6	ATP6V1G2-DDX39B	ENSG00000254870	ENST00000376185	nonsense_mediated_decay	KNOWN	None	41999	300	99	31497996	31514359	-1	None	None
6	ATP6V1G2-DDX39B	ENSG00000254870	ENST00000480131	nonsense_mediated_decay	KNOWN	None	41999	300	99	31508191	31514385	-1	None	None
6	ATP6V1G2-DDX39B	ENSG00000254870	ENST00000475917	processed_transcript	KNOWN	None	41999	None	None	31509975	31514370	-1	None	None
15	TICRR	ENSG00000140534	ENST00000268138	protein_coding	KNOWN	CCDS10352	28704	5733	1910	90118713	90171250	1	C15orf42	MGC45866, FLJ41618, Treslin, SLD3
15	TICRR	ENSG00000140534	ENST00000560985	protein_coding	PUTATIVE	None	28704	5730	1909	90118818	90171243	1	C15orf42	MGC45866, FLJ41618, Treslin, SLD3
15	TICRR	ENSG00000140534	ENST00000561095	nonsense_mediated_decay	KNOWN	None	28704	644	213	90168631	90174287	1	C15orf42	MGC45866, FLJ41618, Treslin, SLD3
6	FAM46A	ENSG00000112773	ENST00000412306	protein_coding	KNOWN	None	18345	265	87	82201156	82461529	-1	C6orf37	FLJ20037
6	FAM46A	ENSG00000112773	ENST00000369754	protein_coding	KNOWN	None	18345	1386	461	82455447	82462425	-1	C6orf37	FLJ20037
6	FAM46A	ENSG00000112773	ENST00000320172	protein_coding	KNOWN	CCDS34489	18345	1329	442	82455447	82462425	-1	C6orf37	FLJ20037
6	FAM46A	ENSG00000112773	ENST00000369756	protein_coding	KNOWN	None	18345	1572	523	82455447	82462491	-1	C6orf37	FLJ20037
6	FAM46A	ENSG00000112773	ENST00000423467	protein_coding	PUTATIVE	None	18345	260	85	82459587	82461470	-1	C6orf37	FLJ20037
6	COL12A1	ENSG00000111799	ENST00000425443	protein_coding	NOVEL	None	2188	2271	756	75794042	75829189	-1	COL12A1L	None
6	COL12A1	ENSG00000111799	ENST00000322507	protein_coding	KNOWN	CCDS43482	2188	9192	3063	75794042	75915767	-1	COL12A1L	None
6	COL12A1	ENSG00000111799	ENST00000345356	protein_coding	KNOWN	CCDS43481	2188	5700	1899	75796187	75915567	-1	COL12A1L	None
6	COL12A1	ENSG00000111799	ENST00000416123	protein_coding	PUTATIVE	None	2188	8964	2987	75796263	75912508	-1	COL12A1L	None
6	COL12A1	ENSG00000111799	ENST00000483888	protein_coding	NOVEL	None	2188	9189	3062	75796906	75915538	-1	COL12A1L	None
6	COL12A1	ENSG00000111799	ENST00000511023	processed_transcript	KNOWN	None	2188	None	None	75798876	75811627	-1	COL12A1L	None
6	COL12A1	ENSG00000111799	ENST00000493109	protein_coding	PUTATIVE	None	2188	624	207	75822738	75828774	-1	COL12A1L	None
6	COL12A1	ENSG00000111799	ENST00000419671	protein_coding	NOVEL	None	2188	1914	637	75843092	75861905	-1	COL12A1L	None
6	COL12A1	ENSG00000111799	ENST00000474564	retained_intron	KNOWN	None	2188	None	None	75852920	75856001	-1	COL12A1L	None
6	COL12A1	ENSG00000111799	ENST00000486533	retained_intron	KNOWN	None	2188	None	None	75887368	75898180	-1	COL12A1L	None
14	None	ENSG00000258941	ENST00000553728	protein_coding	NOVEL	None	None	4020	1339	39703106	39819627	1	None	None
14	None	ENSG00000258941	ENST00000603904	protein_coding	KNOWN	CCDS9676	None	2328	775	39735502	39820397	1	None	None
3	MASP1	ENSG00000127241	ENST00000337774	protein_coding	KNOWN	CCDS33907	6901	2100	699	186935942	187009810	-1	CRARF, PRSS5	MASP
3	MASP1	ENSG00000127241	ENST00000468121	processed_transcript	KNOWN	None	6901	None	None	186944015	186961373	-1	CRARF, PRSS5	MASP
3	MASP1	ENSG00000127241	ENST00000480349	retained_intron	KNOWN	None	6901	None	None	186951870	186962764	-1	CRARF, PRSS5	MASP
3	MASP1	ENSG00000127241	ENST00000296280	protein_coding	KNOWN	CCDS33908	6901	2187	728	186951870	187009646	-1	CRARF, PRSS5	MASP
3	MASP1	ENSG00000127241	ENST00000392472	protein_coding	PUTATIVE	None	6901	1848	615	186951872	187009765	-1	CRARF, PRSS5	MASP
3	MASP1	ENSG00000127241	ENST00000495249	processed_transcript	PUTATIVE	None	6901	None	None	186953655	187009542	-1	CRARF, PRSS5	MASP
3	MASP1	ENSG00000127241	ENST00000169293	protein_coding	KNOWN	CCDS33909	6901	1143	380	186964149	187009745	-1	CRARF, PRSS5	MASP
3	MASP1	ENSG00000127241	ENST00000392470	protein_coding	PUTATIVE	None	6901	1065	354	186964947	187009670	-1	CRARF, PRSS5	MASP
3	MASP1	ENSG00000127241	ENST00000483719	retained_intron	KNOWN	None	6901	None	None	186969165	186970989	-1	CRARF, PRSS5	MASP
3	MASP1	ENSG00000127241	ENST00000460839	retained_intron	KNOWN	None	6901	None	None	186974373	187003796	-1	CRARF, PRSS5	MASP
3	MASP1	ENSG00000127241	ENST00000490558	processed_transcript	KNOWN	None	6901	None	None	186974588	186981044	-1	CRARF, PRSS5	MASP
3	MASP1	ENSG00000127241	ENST00000392475	protein_coding	NOVEL	None	6901	614	203	186974603	187009768	-1	CRARF, PRSS5	MASP
3	MASP1	ENSG00000127241	ENST00000465015	processed_transcript	PUTATIVE	None	6901	None	None	186978558	186994609	-1	CRARF, PRSS5	MASP
3	MASP1	ENSG00000127241	ENST00000439271	protein_coding	PUTATIVE	None	6901	355	117	186980469	187009746	-1	CRARF, PRSS5	MASP
3	MASP1	ENSG00000127241	ENST00000425937	protein_coding	PUTATIVE	None	6901	166	54	186980502	187009485	-1	CRARF, PRSS5	MASP
1	BNIPL	ENSG00000163141	ENST00000368931	protein_coding	KNOWN	CCDS978	16976	1074	357	151009046	151020076	1	None	BNIPl-1, BNIPL-2, PP753
1	BNIPL	ENSG00000163141	ENST00000295294	protein_coding	KNOWN	CCDS53362	16976	828	275	151009091	151020062	1	None	BNIPl-1, BNIPL-2, PP753
1	BNIPL	ENSG00000163141	ENST00000361277	protein_coding	NOVEL	None	16976	1025	340	151010045	151019321	1	None	BNIPl-1, BNIPL-2, PP753
1	BNIPL	ENSG00000163141	ENST00000392802	protein_coding	KNOWN	None	16976	300	99	151010875	151015544	1	None	BNIPl-1, BNIPL-2, PP753
1	BNIPL	ENSG00000163141	ENST00000485855	nonsense_mediated_decay	KNOWN	None	16976	615	204	151011316	151019163	1	None	BNIPl-1, BNIPL-2, PP753
1	BNIPL	ENSG00000163141	ENST00000491386	processed_transcript	KNOWN	None	16976	None	None	151018035	151018636	1	None	BNIPl-1, BNIPL-2, PP753
5	SV2C	ENSG00000122012	ENST00000502798	protein_coding	KNOWN	CCDS43331	30670	2184	727	75378997	75625904	1	None	None
5	SV2C	ENSG00000122012	ENST00000322285	protein_coding	PUTATIVE	None	30670	2031	676	75379239	75649764	1	None	None
5	SV2C	ENSG00000122012	ENST00000506257	retained_intron	KNOWN	None	30670	None	None	75587590	75591947	1	None	None
12	NTN4	ENSG00000074527	ENST00000343702	protein_coding	KNOWN	CCDS9054	13658	1887	628	96051583	96184536	-1	None	None
12	NTN4	ENSG00000074527	ENST00000344911	protein_coding	PUTATIVE	None	13658	1776	591	96051583	96184542	-1	None	None
12	NTN4	ENSG00000074527	ENST00000538383	protein_coding	KNOWN	None	13658	1776	591	96052764	96184930	-1	None	None
12	NTN4	ENSG00000074527	ENST00000553059	protein_coding	KNOWN	None	13658	1818	605	96052862	96184087	-1	None	None
12	NTN4	ENSG00000074527	ENST00000550074	processed_transcript	PUTATIVE	None	13658	None	None	96057173	96059635	-1	None	None
12	NTN4	ENSG00000074527	ENST00000552603	processed_transcript	PUTATIVE	None	13658	None	None	96107075	96133773	-1	None	None
12	NTN4	ENSG00000074527	ENST00000547980	protein_coding	PUTATIVE	None	13658	530	175	96131867	96183726	-1	None	None
17	SLC38A10	ENSG00000157637	ENST00000374759	protein_coding	KNOWN	CCDS42397	28237	3360	1119	79218800	79269105	-1	None	MGC15523, PP1744
17	SLC38A10	ENSG00000157637	ENST00000539643	retained_intron	KNOWN	None	28237	None	None	79218804	79221435	-1	None	MGC15523, PP1744
17	SLC38A10	ENSG00000157637	ENST00000540966	protein_coding	NOVEL	None	28237	896	297	79219978	79226073	-1	None	MGC15523, PP1744
17	SLC38A10	ENSG00000157637	ENST00000576151	protein_coding	NOVEL	None	28237	774	257	79220072	79226072	-1	None	MGC15523, PP1744
17	SLC38A10	ENSG00000157637	ENST00000542075	retained_intron	KNOWN	None	28237	None	None	79220415	79259514	-1	None	MGC15523, PP1744
17	SLC38A10	ENSG00000157637	ENST00000573058	retained_intron	KNOWN	None	28237	None	None	79224677	79226303	-1	None	MGC15523, PP1744
17	SLC38A10	ENSG00000157637	ENST00000288439	protein_coding	KNOWN	CCDS11780	28237	2343	780	79224996	79269067	-1	None	MGC15523, PP1744
17	SLC38A10	ENSG00000157637	ENST00000546352	processed_transcript	KNOWN	None	28237	None	None	79234161	79256016	-1	None	MGC15523, PP1744
17	SLC38A10	ENSG00000157637	ENST00000543204	protein_coding	PUTATIVE	None	28237	211	69	79253499	79256064	-1	None	MGC15523, PP1744
17	SLC38A10	ENSG00000157637	ENST00000539748	protein_coding	PUTATIVE	None	28237	357	118	79255989	79269347	-1	None	MGC15523, PP1744
17	SLC38A10	ENSG00000157637	ENST00000540233	processed_transcript	PUTATIVE	None	28237	None	None	79262533	79268714	-1	None	MGC15523, PP1744
16	WWOX	ENSG00000186153	ENST00000566780	protein_coding	KNOWN	CCDS42196	12799	1245	414	78133310	79246564	1	None	FOR, WOX1, SDR41C1
16	WWOX	ENSG00000186153	ENST00000569332	nonsense_mediated_decay	KNOWN	None	12799	138	45	78133523	79246216	1	None	FOR, WOX1, SDR41C1
16	WWOX	ENSG00000186153	ENST00000402655	protein_coding	KNOWN	None	12799	936	311	78133551	79246564	1	None	FOR, WOX1, SDR41C1
16	WWOX	ENSG00000186153	ENST00000406884	protein_coding	KNOWN	None	12799	705	234	78133551	79246564	1	None	FOR, WOX1, SDR41C1
16	WWOX	ENSG00000186153	ENST00000539474	protein_coding	PUTATIVE	None	12799	642	213	78133551	79246564	1	None	FOR, WOX1, SDR41C1
16	WWOX	ENSG00000186153	ENST00000562214	processed_transcript	PUTATIVE	None	12799	None	None	78133553	78152973	1	None	FOR, WOX1, SDR41C1
16	WWOX	ENSG00000186153	ENST00000566662	nonsense_mediated_decay	KNOWN	None	12799	138	45	78133553	78458853	1	None	FOR, WOX1, SDR41C1
16	WWOX	ENSG00000186153	ENST00000569818	protein_coding	KNOWN	CCDS58481	12799	111	36	78133572	78134096	1	None	FOR, WOX1, SDR41C1
16	WWOX	ENSG00000186153	ENST00000355860	protein_coding	KNOWN	CCDS42197	12799	570	189	78133576	78312593	1	None	FOR, WOX1, SDR41C1
16	WWOX	ENSG00000186153	ENST00000408984	protein_coding	KNOWN	None	12799	1092	363	78133591	78814346	1	None	FOR, WOX1, SDR41C1
16	WWOX	ENSG00000186153	ENST00000565562	processed_transcript	PUTATIVE	None	12799	None	None	78133631	78145889	1	None	FOR, WOX1, SDR41C1
16	WWOX	ENSG00000186153	ENST00000561846	processed_transcript	PUTATIVE	None	12799	None	None	78133632	78314946	1	None	FOR, WOX1, SDR41C1
16	WWOX	ENSG00000186153	ENST00000563358	processed_transcript	PUTATIVE	None	12799	None	None	78133683	78312600	1	None	FOR, WOX1, SDR41C1
16	WWOX	ENSG00000186153	ENST00000562639	processed_transcript	PUTATIVE	None	12799	None	None	78163946	78466500	1	None	FOR, WOX1, SDR41C1
16	WWOX	ENSG00000186153	ENST00000565791	processed_transcript	PUTATIVE	None	12799	None	None	78179814	78304483	1	None	FOR, WOX1, SDR41C1
16	WWOX	ENSG00000186153	ENST00000566103	processed_transcript	PUTATIVE	None	12799	None	None	79230256	79246197	1	None	FOR, WOX1, SDR41C1
9	None	ENSG00000227155	ENST00000415004	antisense	KNOWN	None	None	None	None	454304	492112	-1	None	None
9	None	ENSG00000227155	ENST00000585944	antisense	KNOWN	None	None	None	None	454432	456988	-1	None	None
9	None	ENSG00000227155	ENST00000589287	antisense	KNOWN	None	None	None	None	454447	469802	-1	None	None
9	None	ENSG00000227155	ENST00000591577	antisense	KNOWN	None	None	None	None	454457	469836	-1	None	None
9	None	ENSG00000227155	ENST00000589387	antisense	KNOWN	None	None	None	None	454576	469802	-1	None	None
9	None	ENSG00000227155	ENST00000586805	antisense	KNOWN	None	None	None	None	454585	470961	-1	None	None
9	None	ENSG00000227155	ENST00000585631	antisense	KNOWN	None	None	None	None	456201	460507	-1	None	None
9	None	ENSG00000227155	ENST00000593137	antisense	KNOWN	None	None	None	None	456204	470816	-1	None	None
9	None	ENSG00000227155	ENST00000590240	antisense	KNOWN	None	None	None	None	456211	460227	-1	None	None
9	None	ENSG00000227155	ENST00000592805	antisense	KNOWN	None	None	None	None	456518	467390	-1	None	None
9	None	ENSG00000227155	ENST00000585819	antisense	KNOWN	None	None	None	None	456521	470934	-1	None	None
9	None	ENSG00000227155	ENST00000588474	antisense	KNOWN	None	None	None	None	456530	466866	-1	None	None
9	None	ENSG00000227155	ENST00000590518	antisense	KNOWN	None	None	None	None	456545	467336	-1	None	None
9	None	ENSG00000227155	ENST00000588989	antisense	KNOWN	None	None	None	None	457004	467219	-1	None	None
1	PPP2R5A	ENSG00000066027	ENST00000261461	protein_coding	KNOWN	CCDS1503	9309	1461	486	212458879	212535200	1	None	PR61A, B56A
1	PPP2R5A	ENSG00000066027	ENST00000537030	protein_coding	KNOWN	CCDS55686	9309	1290	429	212475148	212534264	1	None	PR61A, B56A
1	PPP2R5A	ENSG00000066027	ENST00000498123	processed_transcript	KNOWN	None	9309	None	None	212475205	212492887	1	None	PR61A, B56A
1	PPP2R5A	ENSG00000066027	ENST00000479259	processed_transcript	KNOWN	None	9309	None	None	212475205	212515622	1	None	PR61A, B56A
1	PPP2R5A	ENSG00000066027	ENST00000498129	processed_transcript	KNOWN	None	9309	None	None	212475205	212519225	1	None	PR61A, B56A
1	RPS8	ENSG00000142937	ENST00000497035	processed_transcript	KNOWN	None	10441	None	None	45240923	45243759	1	None	S8
1	RPS8	ENSG00000142937	ENST00000396651	protein_coding	KNOWN	CCDS513	10441	627	208	45241109	45244451	1	None	S8
1	RPS8	ENSG00000142937	ENST00000372209	protein_coding	KNOWN	None	10441	567	188	45241245	45244451	1	None	S8
1	RPS8	ENSG00000142937	ENST00000470475	processed_transcript	KNOWN	None	10441	None	None	45241250	45243197	1	None	S8
1	RPS8	ENSG00000142937	ENST00000485390	processed_transcript	KNOWN	None	10441	None	None	45241308	45244451	1	None	S8
1	RPS8	ENSG00000142937	ENST00000464658	processed_transcript	KNOWN	None	10441	None	None	45242898	45244451	1	None	S8
1	RPS8	ENSG00000142937	ENST00000484599	processed_transcript	KNOWN	None	10441	None	None	45243222	45244335	1	None	S8
1	RPS8	ENSG00000142937	ENST00000474582	processed_transcript	KNOWN	None	10441	None	None	45243575	45244411	1	None	S8
5	GABRB2	ENSG00000145864	ENST00000393959	protein_coding	KNOWN	CCDS4355	4082	1539	512	160715436	160973649	-1	None	None
5	GABRB2	ENSG00000145864	ENST00000520240	protein_coding	KNOWN	CCDS4354	4082	1425	474	160720871	160975130	-1	None	None
5	GABRB2	ENSG00000145864	ENST00000517901	protein_coding	PUTATIVE	None	4082	1236	411	160720871	160975141	-1	None	None
5	GABRB2	ENSG00000145864	ENST00000353437	protein_coding	KNOWN	CCDS4354	4082	1425	474	160720871	160975233	-1	None	None
5	GABRB2	ENSG00000145864	ENST00000517547	protein_coding	PUTATIVE	None	4082	945	314	160720905	160973703	-1	None	None
5	GABRB2	ENSG00000145864	ENST00000522758	retained_intron	KNOWN	None	4082	None	None	160886141	160973731	-1	None	None
5	GABRB2	ENSG00000145864	ENST00000523730	processed_transcript	KNOWN	None	4082	None	None	160973752	160976050	-1	None	None
5	GABRB2	ENSG00000145864	ENST00000274547	protein_coding	KNOWN	CCDS4355	4082	1539	512	160715460	160975130	-1	None	None
1	C1orf56	ENSG00000143443	ENST00000368926	protein_coding	KNOWN	CCDS980	26045	1026	341	151020216	151023896	1	None	FLJ20519, MENT
1	C1orf56	ENSG00000143443	ENST00000465135	processed_transcript	KNOWN	None	26045	None	None	151021045	151024462	1	None	FLJ20519, MENT
1	C1orf56	ENSG00000143443	ENST00000473308	processed_transcript	KNOWN	None	26045	None	None	151021139	151022189	1	None	FLJ20519, MENT
X	ATP6AP1	ENSG00000071553	ENST00000369762	protein_coding	KNOWN	CCDS35451	868	1413	470	153656978	153664862	1	ATP6S1, ATP6IP1	ORF, XAP-3, VATPS1, 16A, Ac45, XAP3, CF2
X	ATP6AP1	ENSG00000071553	ENST00000422890	protein_coding	NOVEL	None	868	819	272	153656991	153663725	1	ATP6S1, ATP6IP1	ORF, XAP-3, VATPS1, 16A, Ac45, XAP3, CF2
X	ATP6AP1	ENSG00000071553	ENST00000449556	protein_coding	NOVEL	None	868	690	229	153657009	153662565	1	ATP6S1, ATP6IP1	ORF, XAP-3, VATPS1, 16A, Ac45, XAP3, CF2
X	ATP6AP1	ENSG00000071553	ENST00000439372	nonsense_mediated_decay	KNOWN	None	868	405	134	153657033	153659946	1	ATP6S1, ATP6IP1	ORF, XAP-3, VATPS1, 16A, Ac45, XAP3, CF2
X	ATP6AP1	ENSG00000071553	ENST00000446552	nonsense_mediated_decay	KNOWN	None	868	405	134	153657035	153660225	1	ATP6S1, ATP6IP1	ORF, XAP-3, VATPS1, 16A, Ac45, XAP3, CF2
X	ATP6AP1	ENSG00000071553	ENST00000455205	nonsense_mediated_decay	KNOWN	None	868	400	132	153657044	153664861	1	ATP6S1, ATP6IP1	ORF, XAP-3, VATPS1, 16A, Ac45, XAP3, CF2
X	ATP6AP1	ENSG00000071553	ENST00000429585	nonsense_mediated_decay	KNOWN	None	868	387	128	153657087	153663725	1	ATP6S1, ATP6IP1	ORF, XAP-3, VATPS1, 16A, Ac45, XAP3, CF2
X	ATP6AP1	ENSG00000071553	ENST00000491569	retained_intron	KNOWN	None	868	None	None	153657191	153664861	1	ATP6S1, ATP6IP1	ORF, XAP-3, VATPS1, 16A, Ac45, XAP3, CF2
X	ATP6AP1	ENSG00000071553	ENST00000484908	processed_transcript	KNOWN	None	868	None	None	153660068	153662615	1	ATP6S1, ATP6IP1	ORF, XAP-3, VATPS1, 16A, Ac45, XAP3, CF2
7	None	ENSG00000238131	ENST00000418679	lincRNA	KNOWN	None	None	None	None	53994369	54015437	-1	None	None
6	MIR3691	ENSG00000265083	ENST00000578066	miRNA	KNOWN	None	38909	None	None	5148467	5148556	-1	None	hsa-mir-3691
6	None	ENSG00000264541	ENST00000577593	miRNA	NOVEL	None	None	None	None	5224961	5225030	-1	None	None
7	None	ENSG00000231427	ENST00000458615	lincRNA	KNOWN	None	None	None	None	54398390	54417542	1	None	None
7	None	ENSG00000231427	ENST00000426205	lincRNA	KNOWN	None	None	None	None	54398472	54417290	1	None	None
6	None	ENSG00000220446	ENST00000402778	processed_pseudogene	KNOWN	None	None	None	None	5291263	5291621	-1	None	None
6	None	ENSG00000269985	ENST00000602674	antisense	KNOWN	None	None	None	None	5451916	5458266	-1	None	None
6	None	ENSG00000269985	ENST00000602284	antisense	KNOWN	None	None	None	None	5452701	5458308	-1	None	None
6	HNRNPA1P37	ENSG00000218574	ENST00000404243	processed_pseudogene	KNOWN	None	48766	None	None	5609460	5610428	-1	None	None
6	None	ENSG00000270174	ENST00000602500	antisense	KNOWN	None	None	None	None	5665218	5695505	-1	None	None
6	None	ENSG00000217239	ENST00000407959	processed_pseudogene	KNOWN	None	None	None	None	5788579	5788932	-1	None	None
6	None	ENSG00000217239	ENST00000538951	processed_pseudogene	KNOWN	None	None	None	None	5788579	5788893	-1	None	None
6	None	ENSG00000216360	ENST00000403053	processed_pseudogene	KNOWN	None	None	None	None	5817654	5818599	-1	None	None
6	None	ENSG00000233064	ENST00000454882	lincRNA	KNOWN	None	None	None	None	5851739	5870453	1	None	None
1	BEST4	ENSG00000142959	ENST00000372207	protein_coding	KNOWN	CCDS514	17106	1422	473	45249257	45253377	-1	VMD2L2	None
6	RN7SL221P	ENSG00000239472	ENST00000466190	misc_RNA	KNOWN	None	46237	None	None	5918793	5919077	-1	None	None
6	PKMP5	ENSG00000215057	ENST00000454707	processed_pseudogene	KNOWN	None	44247	None	None	5972645	5974245	1	None	None
7	ZAN	ENSG00000146839	ENST00000349350	polymorphic_pseudogene	KNOWN	None	12857	8438	2811	100331249	100395419	1	None	None
7	ZAN	ENSG00000146839	ENST00000427578	polymorphic_pseudogene	KNOWN	None	12857	8174	2723	100331249	100395419	1	None	None
7	ZAN	ENSG00000146839	ENST00000443370	polymorphic_pseudogene	KNOWN	None	12857	7874	2623	100331249	100395419	1	None	None
7	ZAN	ENSG00000146839	ENST00000421100	polymorphic_pseudogene	KNOWN	None	12857	7805	2600	100331249	100395419	1	None	None
7	ZAN	ENSG00000146839	ENST00000449052	polymorphic_pseudogene	KNOWN	None	12857	8069	2688	100331249	100395419	1	None	None
7	ZAN	ENSG00000146839	ENST00000348028	polymorphic_pseudogene	KNOWN	None	12857	8165	2720	100331249	100395419	1	None	None
7	ZAN	ENSG00000146839	ENST00000546292	protein_coding	KNOWN	None	12857	8163	2720	100331644	100395418	1	None	None
7	ZAN	ENSG00000146839	ENST00000538115	protein_coding	KNOWN	None	12857	7872	2623	100331644	100395418	1	None	None
7	ZAN	ENSG00000146839	ENST00000542585	protein_coding	KNOWN	None	12857	8067	2688	100331644	100395418	1	None	None
7	ZAN	ENSG00000146839	ENST00000546213	protein_coding	KNOWN	None	12857	3555	1184	100331644	100395418	1	None	None
1	TMEM206	ENSG00000065600	ENST00000261455	protein_coding	KNOWN	CCDS1504	25593	1053	350	212537273	212588237	-1	C1orf75	FLJ10874
1	TMEM206	ENSG00000065600	ENST00000478166	processed_transcript	KNOWN	None	25593	None	None	212548563	212551048	-1	C1orf75	FLJ10874
1	TMEM206	ENSG00000065600	ENST00000467822	processed_transcript	KNOWN	None	25593	None	None	212548590	212583506	-1	C1orf75	FLJ10874
1	TMEM206	ENSG00000065600	ENST00000471937	processed_transcript	KNOWN	None	25593	None	None	212558616	212588237	-1	C1orf75	FLJ10874
1	TMEM206	ENSG00000065600	ENST00000535273	protein_coding	KNOWN	CCDS55687	25593	1236	411	212537824	212588243	-1	C1orf75	FLJ10874
7	HEATR2	ENSG00000164818	ENST00000297440	protein_coding	KNOWN	CCDS34580	26013	2568	855	766338	826112	1	None	FLJ20397, FLJ31671, FLJ39381, FLJ25564, CILD18
7	HEATR2	ENSG00000164818	ENST00000437419	protein_coding	NOVEL	None	26013	585	194	766856	796429	1	None	FLJ20397, FLJ31671, FLJ39381, FLJ25564, CILD18
7	HEATR2	ENSG00000164818	ENST00000438961	processed_transcript	KNOWN	None	26013	None	None	766889	790590	1	None	FLJ20397, FLJ31671, FLJ39381, FLJ25564, CILD18
7	HEATR2	ENSG00000164818	ENST00000440747	protein_coding	NOVEL	None	26013	1972	656	766892	825668	1	None	FLJ20397, FLJ31671, FLJ39381, FLJ25564, CILD18
7	HEATR2	ENSG00000164818	ENST00000491496	retained_intron	KNOWN	None	26013	None	None	803544	812612	1	None	FLJ20397, FLJ31671, FLJ39381, FLJ25564, CILD18
7	HEATR2	ENSG00000164818	ENST00000403952	protein_coding	PUTATIVE	None	26013	843	280	808112	825681	1	None	FLJ20397, FLJ31671, FLJ39381, FLJ25564, CILD18
7	HEATR2	ENSG00000164818	ENST00000486546	processed_transcript	KNOWN	None	26013	None	None	817819	819621	1	None	FLJ20397, FLJ31671, FLJ39381, FLJ25564, CILD18
7	HEATR2	ENSG00000164818	ENST00000461576	retained_intron	KNOWN	None	26013	None	None	819541	825210	1	None	FLJ20397, FLJ31671, FLJ39381, FLJ25564, CILD18
7	HEATR2	ENSG00000164818	ENST00000313147	protein_coding	KNOWN	None	26013	2532	843	766338	829190	1	None	FLJ20397, FLJ31671, FLJ39381, FLJ25564, CILD18
17	HLF	ENSG00000108924	ENST00000226067	protein_coding	KNOWN	CCDS11585	4977	888	295	53342373	53402426	1	None	MGC33822
17	HLF	ENSG00000108924	ENST00000430986	protein_coding	PUTATIVE	None	4977	633	210	53343171	53398775	1	None	MGC33822
17	HLF	ENSG00000108924	ENST00000573945	protein_coding	PUTATIVE	None	4977	633	210	53343583	53400350	1	None	MGC33822
17	HLF	ENSG00000108924	ENST00000575345	protein_coding	PUTATIVE	None	4977	633	210	53344952	53400896	1	None	MGC33822
17	HLF	ENSG00000108924	ENST00000570962	nonsense_mediated_decay	KNOWN	None	4977	234	77	53344976	53398646	1	None	MGC33822
17	HLF	ENSG00000108924	ENST00000572002	protein_coding	NOVEL	None	4977	711	236	53345177	53398780	1	None	MGC33822
17	HLF	ENSG00000108924	ENST00000573020	processed_transcript	PUTATIVE	None	4977	None	None	53360843	53392785	1	None	MGC33822
17	HLF	ENSG00000108924	ENST00000572234	processed_transcript	PUTATIVE	None	4977	None	None	53360857	53366291	1	None	MGC33822
17	HLF	ENSG00000108924	ENST00000573422	processed_transcript	PUTATIVE	None	4977	None	None	53361061	53398218	1	None	MGC33822
17	HLF	ENSG00000108924	ENST00000575868	processed_transcript	PUTATIVE	None	4977	None	None	53361081	53398027	1	None	MGC33822
17	HLF	ENSG00000108924	ENST00000575307	processed_transcript	PUTATIVE	None	4977	None	None	53396314	53398504	1	None	MGC33822
19	CACNG7	ENSG00000105605	ENST00000468076	processed_transcript	PUTATIVE	None	13626	None	None	54412589	54444847	1	None	None
19	CACNG7	ENSG00000105605	ENST00000391767	protein_coding	KNOWN	CCDS12868	13626	828	275	54412589	54447195	1	None	None
19	CACNG7	ENSG00000105605	ENST00000222212	protein_coding	KNOWN	CCDS12868	13626	828	275	54415991	54445640	1	None	None
19	CACNG7	ENSG00000105605	ENST00000391766	protein_coding	PUTATIVE	None	13626	597	198	54416071	54444915	1	None	None
1	CDC42SE1	ENSG00000197622	ENST00000439374	protein_coding	NOVEL	CCDS981	17719	240	79	151023447	151042801	-1	None	SCIP1, SPEC1
1	CDC42SE1	ENSG00000197622	ENST00000483763	retained_intron	KNOWN	None	17719	None	None	151024590	151032050	-1	None	SCIP1, SPEC1
1	CDC42SE1	ENSG00000197622	ENST00000492796	processed_transcript	KNOWN	None	17719	None	None	151025422	151032091	-1	None	SCIP1, SPEC1
1	CDC42SE1	ENSG00000197622	ENST00000470278	processed_transcript	KNOWN	None	17719	None	None	151026713	151032249	-1	None	SCIP1, SPEC1
1	CDC42SE1	ENSG00000197622	ENST00000491825	processed_transcript	KNOWN	None	17719	None	None	151028059	151032249	-1	None	SCIP1, SPEC1
1	CDC42SE1	ENSG00000197622	ENST00000540998	protein_coding	KNOWN	CCDS981	17719	240	79	151023449	151032125	-1	None	SCIP1, SPEC1
1	CDC42SE1	ENSG00000197622	ENST00000357235	protein_coding	KNOWN	CCDS981	17719	240	79	151023449	151032125	-1	None	SCIP1, SPEC1
1	PLK3	ENSG00000173846	ENST00000372201	protein_coding	KNOWN	CCDS515	2154	1941	646	45265897	45271662	1	CNK	FNK, PRK
1	PLK3	ENSG00000173846	ENST00000465443	processed_transcript	KNOWN	None	2154	None	None	45266060	45271662	1	CNK	FNK, PRK
1	PLK3	ENSG00000173846	ENST00000476731	processed_transcript	KNOWN	None	2154	None	None	45267306	45269293	1	CNK	FNK, PRK
1	PLK3	ENSG00000173846	ENST00000492398	processed_transcript	KNOWN	None	2154	None	None	45268940	45271622	1	CNK	FNK, PRK
1	PLK3	ENSG00000173846	ENST00000461358	processed_transcript	KNOWN	None	2154	None	None	45269009	45270361	1	CNK	FNK, PRK
1	PLK3	ENSG00000173846	ENST00000461769	processed_transcript	KNOWN	None	2154	None	None	45269890	45270793	1	CNK	FNK, PRK
1	PLK3	ENSG00000173846	ENST00000493100	processed_transcript	KNOWN	None	2154	None	None	45270293	45271272	1	CNK	FNK, PRK
17	HS3ST3B1	ENSG00000125430	ENST00000466596	nonsense_mediated_decay	KNOWN	CCDS11167	5198	1173	390	14204400	14252461	1	None	3OST3B1, 30ST3B1
17	HS3ST3B1	ENSG00000125430	ENST00000360954	protein_coding	KNOWN	CCDS11167	5198	1173	390	14204400	14252721	1	None	3OST3B1, 30ST3B1
6	None	ENSG00000264121	ENST00000579540	miRNA	NOVEL	None	None	None	None	6046676	6046777	1	None	None
6	MIR5683	ENSG00000263572	ENST00000584820	miRNA	KNOWN	None	43453	None	None	6169567	6169642	1	None	hsa-mir-5683
7	None	ENSG00000238354	ENST00000459440	snoRNA	NOVEL	None	None	None	None	54427585	54427688	1	None	None
1	NENF	ENSG00000117691	ENST00000366988	protein_coding	KNOWN	CCDS1505	30384	519	172	212606229	212619714	1	None	CIR2, SCIRP10, SPUF
1	NENF	ENSG00000117691	ENST00000479589	processed_transcript	KNOWN	None	30384	None	None	212606265	212619714	1	None	CIR2, SCIRP10, SPUF
1	NENF	ENSG00000117691	ENST00000473900	processed_transcript	KNOWN	None	30384	None	None	212606315	212619714	1	None	CIR2, SCIRP10, SPUF
1	NENF	ENSG00000117691	ENST00000472389	processed_transcript	KNOWN	None	30384	None	None	212606333	212608375	1	None	CIR2, SCIRP10, SPUF
7	CHCHD2	ENSG00000106153	ENST00000395422	protein_coding	KNOWN	CCDS5526	21645	456	151	56169262	56174269	-1	C7orf17	None
7	CHCHD2	ENSG00000106153	ENST00000473095	retained_intron	KNOWN	None	21645	None	None	56170329	56174124	-1	C7orf17	None
6	LY86-AS1	ENSG00000216863	ENST00000429345	antisense	KNOWN	None	26593	None	None	6346698	6622977	-1	LY86AS, LY86-AS	FLJ33708
6	LY86-AS1	ENSG00000216863	ENST00000435641	antisense	KNOWN	None	26593	None	None	6360824	6622928	-1	LY86AS, LY86-AS	FLJ33708
6	LY86-AS1	ENSG00000216863	ENST00000447858	antisense	KNOWN	None	26593	None	None	6366365	6587426	-1	LY86AS, LY86-AS	FLJ33708
6	LY86-AS1	ENSG00000216863	ENST00000606992	antisense	KNOWN	None	26593	None	None	6475539	6493217	-1	LY86AS, LY86-AS	FLJ33708
6	LY86-AS1	ENSG00000216863	ENST00000607278	antisense	KNOWN	None	26593	None	None	6621080	6623004	-1	LY86AS, LY86-AS	FLJ33708
6	LY86-AS1	ENSG00000216863	ENST00000606044	antisense	KNOWN	None	26593	None	None	6621197	6622930	-1	LY86AS, LY86-AS	FLJ33708
3	BSN	ENSG00000164061	ENST00000296452	protein_coding	KNOWN	CCDS2800	1117	11781	3926	49591922	49708978	1	ZNF231	None
3	BSN	ENSG00000164061	ENST00000467456	retained_intron	KNOWN	None	1117	None	None	49680462	49688782	1	ZNF231	None
12	TAS2R13	ENSG00000212128	ENST00000390677	protein_coding	KNOWN	CCDS8635	14919	912	303	11060525	11062161	-1	None	T2R13, TRB3
9	RABL6	ENSG00000196642	ENST00000471502	processed_transcript	KNOWN	None	24703	None	None	139694818	139723918	1	C9orf86	FLJ10101, FLJ13045, pp8875, bA216L13.9, Parf, RBEL1
9	RABL6	ENSG00000196642	ENST00000484471	nonsense_mediated_decay	KNOWN	None	24703	1455	484	139702413	139735634	1	C9orf86	FLJ10101, FLJ13045, pp8875, bA216L13.9, Parf, RBEL1
9	RABL6	ENSG00000196642	ENST00000311502	protein_coding	KNOWN	CCDS48058	24703	2190	729	139702413	139735639	1	C9orf86	FLJ10101, FLJ13045, pp8875, bA216L13.9, Parf, RBEL1
9	RABL6	ENSG00000196642	ENST00000357466	protein_coding	PUTATIVE	None	24703	1563	520	139702611	139735639	1	C9orf86	FLJ10101, FLJ13045, pp8875, bA216L13.9, Parf, RBEL1
9	RABL6	ENSG00000196642	ENST00000464941	nonsense_mediated_decay	KNOWN	None	24703	1416	471	139715781	139735639	1	C9orf86	FLJ10101, FLJ13045, pp8875, bA216L13.9, Parf, RBEL1
9	RABL6	ENSG00000196642	ENST00000436380	protein_coding	KNOWN	None	24703	646	214	139717978	139728792	1	C9orf86	FLJ10101, FLJ13045, pp8875, bA216L13.9, Parf, RBEL1
9	RABL6	ENSG00000196642	ENST00000425121	protein_coding	KNOWN	None	24703	676	224	139720235	139728622	1	C9orf86	FLJ10101, FLJ13045, pp8875, bA216L13.9, Parf, RBEL1
9	RABL6	ENSG00000196642	ENST00000466096	processed_transcript	KNOWN	None	24703	None	None	139721049	139731450	1	C9orf86	FLJ10101, FLJ13045, pp8875, bA216L13.9, Parf, RBEL1
9	RABL6	ENSG00000196642	ENST00000461992	processed_transcript	KNOWN	None	24703	None	None	139722924	139732042	1	C9orf86	FLJ10101, FLJ13045, pp8875, bA216L13.9, Parf, RBEL1
9	RABL6	ENSG00000196642	ENST00000435930	protein_coding	KNOWN	None	24703	1344	447	139729623	139734637	1	C9orf86	FLJ10101, FLJ13045, pp8875, bA216L13.9, Parf, RBEL1
9	RABL6	ENSG00000196642	ENST00000371663	protein_coding	KNOWN	CCDS55352	24703	2193	730	139702374	139735639	1	C9orf86	FLJ10101, FLJ13045, pp8875, bA216L13.9, Parf, RBEL1
9	RABL6	ENSG00000196642	ENST00000371671	protein_coding	KNOWN	CCDS55353	24703	945	314	139702374	139728794	1	C9orf86	FLJ10101, FLJ13045, pp8875, bA216L13.9, Parf, RBEL1
9	RABL6	ENSG00000196642	ENST00000432842	protein_coding	KNOWN	None	24703	1416	471	139715781	139734665	1	C9orf86	FLJ10101, FLJ13045, pp8875, bA216L13.9, Parf, RBEL1
9	RABL6	ENSG00000196642	ENST00000371675	protein_coding	KNOWN	None	24703	1845	614	139719104	139735639	1	C9orf86	FLJ10101, FLJ13045, pp8875, bA216L13.9, Parf, RBEL1
2	PCYOX1	ENSG00000116005	ENST00000422380	protein_coding	PUTATIVE	None	20588	389	128	70484518	70502216	1	None	KIAA0908, PCL1
2	PCYOX1	ENSG00000116005	ENST00000414812	protein_coding	PUTATIVE	None	20588	628	208	70484858	70502798	1	None	KIAA0908, PCL1
2	PCYOX1	ENSG00000116005	ENST00000433351	protein_coding	KNOWN	CCDS1902	20588	1518	505	70485269	70508323	1	None	KIAA0908, PCL1
2	PCYOX1	ENSG00000116005	ENST00000264441	protein_coding	PUTATIVE	None	20588	882	293	70485281	70506235	1	None	KIAA0908, PCL1
2	PCYOX1	ENSG00000116005	ENST00000451279	protein_coding	PUTATIVE	None	20588	463	153	70485551	70502290	1	None	KIAA0908, PCL1
2	PCYOX1	ENSG00000116005	ENST00000480949	retained_intron	KNOWN	None	20588	None	None	70501890	70503919	1	None	KIAA0908, PCL1
2	PCYOX1	ENSG00000116005	ENST00000505044	protein_coding	KNOWN	None	20588	1287	428	70484842	70504712	1	None	KIAA0908, PCL1
2	PCYOX1	ENSG00000116005	ENST00000545138	protein_coding	KNOWN	None	20588	1284	427	70485551	70504925	1	None	KIAA0908, PCL1
1	MLLT11	ENSG00000213190	ENST00000368921	protein_coding	KNOWN	CCDS982	16997	273	90	151030234	151040970	1	None	AF1Q
16	WDR24	ENSG00000127580	ENST00000293883	protein_coding	KNOWN	CCDS10420	20852	2373	790	734622	740400	-1	C16orf21	DKFZp434F054, JFP7
16	WDR24	ENSG00000127580	ENST00000567014	retained_intron	KNOWN	None	20852	None	None	735450	736929	-1	C16orf21	DKFZp434F054, JFP7
16	WDR24	ENSG00000127580	ENST00000248142	protein_coding	KNOWN	None	20852	2763	920	734622	740444	-1	C16orf21	DKFZp434F054, JFP7
12	PRH2	ENSG00000134551	ENST00000381847	protein_coding	KNOWN	CCDS8636	9367	501	166	11081835	11083763	1	None	Pr
12	PRH2	ENSG00000134551	ENST00000396400	protein_coding	KNOWN	CCDS8636	9367	501	166	11081835	11084940	1	None	Pr
6	None	ENSG00000269494	ENST00000597800	protein_coding	NOVEL	None	None	231	76	82262307	82262537	-1	None	None
10	RBM17	ENSG00000134453	ENST00000379888	protein_coding	KNOWN	CCDS7077	16944	1206	401	6130950	6158843	1	None	SPF45, MGC14439
10	RBM17	ENSG00000134453	ENST00000437845	protein_coding	PUTATIVE	None	16944	720	239	6131017	6154284	1	None	SPF45, MGC14439
10	RBM17	ENSG00000134453	ENST00000432931	protein_coding	KNOWN	None	16944	664	220	6131034	6152053	1	None	SPF45, MGC14439
10	RBM17	ENSG00000134453	ENST00000418631	protein_coding	KNOWN	None	16944	636	211	6138873	6152022	1	None	SPF45, MGC14439
10	RBM17	ENSG00000134453	ENST00000467214	retained_intron	KNOWN	None	16944	None	None	6146909	6148340	1	None	SPF45, MGC14439
10	RBM17	ENSG00000134453	ENST00000447032	protein_coding	KNOWN	None	16944	676	224	6146934	6154424	1	None	SPF45, MGC14439
10	RBM17	ENSG00000134453	ENST00000481147	processed_transcript	KNOWN	None	16944	None	None	6150451	6154386	1	None	SPF45, MGC14439
10	RBM17	ENSG00000134453	ENST00000476706	processed_transcript	KNOWN	None	16944	None	None	6154665	6157729	1	None	SPF45, MGC14439
10	RBM17	ENSG00000134453	ENST00000465906	retained_intron	KNOWN	None	16944	None	None	6155326	6157797	1	None	SPF45, MGC14439
10	RBM17	ENSG00000134453	ENST00000467080	retained_intron	KNOWN	None	16944	None	None	6155870	6157797	1	None	SPF45, MGC14439
10	RBM17	ENSG00000134453	ENST00000496762	retained_intron	KNOWN	None	16944	None	None	6156110	6157835	1	None	SPF45, MGC14439
10	RBM17	ENSG00000134453	ENST00000446108	protein_coding	KNOWN	CCDS7077	16944	1206	401	6131309	6159420	1	None	SPF45, MGC14439
1	TCTEX1D4	ENSG00000188396	ENST00000339355	protein_coding	KNOWN	CCDS30699	32315	666	221	45271585	45272347	-1	None	None
1	TCTEX1D4	ENSG00000188396	ENST00000372200	protein_coding	KNOWN	CCDS30699	32315	666	221	45271588	45272957	-1	None	None
X	KIF4A	ENSG00000090889	ENST00000374403	protein_coding	KNOWN	CCDS14401	13339	3699	1232	69509940	69640682	1	None	KIF4-G1, KIF4, HSA271784, FLJ12530, FLJ12655, FLJ14204, FLJ20631
X	KIF4A	ENSG00000090889	ENST00000485406	processed_transcript	KNOWN	None	13339	None	None	69509962	69517038	1	None	KIF4-G1, KIF4, HSA271784, FLJ12530, FLJ12655, FLJ14204, FLJ20631
X	KIF4A	ENSG00000090889	ENST00000374388	protein_coding	KNOWN	None	13339	3384	1127	69509879	69635312	1	None	KIF4-G1, KIF4, HSA271784, FLJ12530, FLJ12655, FLJ14204, FLJ20631
12	TAS2R14	ENSG00000212127	ENST00000537503	protein_coding	KNOWN	CCDS8637	14920	954	317	11090005	11091862	-1	None	T2R14, TRB1
12	TAS2R14	ENSG00000212127	ENST00000381852	processed_transcript	KNOWN	None	14920	None	None	11090007	11324172	-1	None	T2R14, TRB1
8	ELP3	ENSG00000134014	ENST00000520270	protein_coding	KNOWN	None	20696	339	112	27947190	27965481	1	None	FLJ10422, KAT9
8	ELP3	ENSG00000134014	ENST00000521015	protein_coding	KNOWN	None	20696	1602	533	27947748	28048673	1	None	FLJ10422, KAT9
8	ELP3	ENSG00000134014	ENST00000521570	protein_coding	KNOWN	None	20696	575	190	27947863	27970690	1	None	FLJ10422, KAT9
8	ELP3	ENSG00000134014	ENST00000256398	protein_coding	KNOWN	CCDS6065	20696	1644	547	27950355	28048673	1	None	FLJ10422, KAT9
8	ELP3	ENSG00000134014	ENST00000523687	nonsense_mediated_decay	KNOWN	None	20696	138	45	27950619	28047611	1	None	FLJ10422, KAT9
8	ELP3	ENSG00000134014	ENST00000523760	processed_transcript	KNOWN	None	20696	None	None	27950629	27971339	1	None	FLJ10422, KAT9
8	ELP3	ENSG00000134014	ENST00000524103	protein_coding	PUTATIVE	None	20696	1428	475	27950629	28047509	1	None	FLJ10422, KAT9
8	ELP3	ENSG00000134014	ENST00000518112	nonsense_mediated_decay	KNOWN	None	20696	138	45	27950656	28047720	1	None	FLJ10422, KAT9
8	ELP3	ENSG00000134014	ENST00000519261	nonsense_mediated_decay	KNOWN	None	20696	126	41	27950657	28047611	1	None	FLJ10422, KAT9
8	ELP3	ENSG00000134014	ENST00000521938	retained_intron	KNOWN	None	20696	None	None	27950665	27968430	1	None	FLJ10422, KAT9
8	ELP3	ENSG00000134014	ENST00000520288	protein_coding	PUTATIVE	None	20696	404	133	27950739	27967939	1	None	FLJ10422, KAT9
8	ELP3	ENSG00000134014	ENST00000521099	protein_coding	PUTATIVE	None	20696	319	105	27950964	27965461	1	None	FLJ10422, KAT9
8	ELP3	ENSG00000134014	ENST00000522063	processed_transcript	KNOWN	None	20696	None	None	27957355	27970218	1	None	FLJ10422, KAT9
8	ELP3	ENSG00000134014	ENST00000520110	processed_transcript	KNOWN	None	20696	None	None	27976415	28016142	1	None	FLJ10422, KAT9
8	ELP3	ENSG00000134014	ENST00000520011	retained_intron	KNOWN	None	20696	None	None	27986836	27989921	1	None	FLJ10422, KAT9
8	ELP3	ENSG00000134014	ENST00000523357	protein_coding	PUTATIVE	None	20696	423	140	28016097	28047604	1	None	FLJ10422, KAT9
8	ELP3	ENSG00000134014	ENST00000517975	protein_coding	PUTATIVE	None	20696	201	66	28016115	28047606	1	None	FLJ10422, KAT9
8	ELP3	ENSG00000134014	ENST00000380353	protein_coding	KNOWN	None	20696	1368	455	27950702	28047726	1	None	FLJ10422, KAT9
8	ELP3	ENSG00000134014	ENST00000537665	protein_coding	KNOWN	None	20696	1287	428	27950680	28047489	1	None	FLJ10422, KAT9
8	ELP3	ENSG00000134014	ENST00000542181	protein_coding	KNOWN	None	20696	1257	418	27950619	28047611	1	None	FLJ10422, KAT9
1	BTBD19	ENSG00000222009	ENST00000409335	protein_coding	PUTATIVE	None	27145	762	253	45274195	45279598	1	None	None
1	BTBD19	ENSG00000222009	ENST00000439563	nonsense_mediated_decay	KNOWN	None	27145	489	162	45274239	45278948	1	None	None
1	BTBD19	ENSG00000222009	ENST00000485668	retained_intron	KNOWN	None	27145	None	None	45274268	45281257	1	None	None
1	BTBD19	ENSG00000222009	ENST00000482715	retained_intron	KNOWN	None	27145	None	None	45274483	45279051	1	None	None
1	BTBD19	ENSG00000222009	ENST00000475105	retained_intron	KNOWN	None	27145	None	None	45276332	45279122	1	None	None
1	BTBD19	ENSG00000222009	ENST00000495433	retained_intron	KNOWN	None	27145	None	None	45277352	45279637	1	None	None
1	BTBD19	ENSG00000222009	ENST00000489976	retained_intron	KNOWN	None	27145	None	None	45278846	45279522	1	None	None
1	BTBD19	ENSG00000222009	ENST00000464114	processed_transcript	PUTATIVE	None	27145	None	None	45279170	45279771	1	None	None
1	BTBD19	ENSG00000222009	ENST00000450269	protein_coding	KNOWN	None	27145	876	291	45274154	45279801	1	None	None
1	BTBD19	ENSG00000222009	ENST00000453418	protein_coding	KNOWN	None	27145	489	162	45274154	45279801	1	None	None
1	GABPB2	ENSG00000143458	ENST00000462520	processed_transcript	KNOWN	None	28441	None	None	151043054	151070391	1	None	MGC29891
1	GABPB2	ENSG00000143458	ENST00000368918	protein_coding	KNOWN	CCDS983	28441	1347	448	151043080	151098018	1	None	MGC29891
1	GABPB2	ENSG00000143458	ENST00000489549	processed_transcript	KNOWN	None	28441	None	None	151043253	151079653	1	None	MGC29891
1	GABPB2	ENSG00000143458	ENST00000486076	processed_transcript	KNOWN	None	28441	None	None	151043280	151070478	1	None	MGC29891
1	GABPB2	ENSG00000143458	ENST00000368916	protein_coding	KNOWN	None	28441	1233	410	151060634	151091147	1	None	MGC29891
1	GABPB2	ENSG00000143458	ENST00000467551	processed_transcript	KNOWN	None	28441	None	None	151065722	151090971	1	None	MGC29891
1	GABPB2	ENSG00000143458	ENST00000368917	protein_coding	KNOWN	None	28441	1233	410	151043080	151092396	1	None	MGC29891
17	TMEM105	ENSG00000185332	ENST00000332900	protein_coding	KNOWN	CCDS11781	26794	390	129	79285074	79304474	-1	None	FLJ38792
17	TMEM105	ENSG00000185332	ENST00000574093	protein_coding	PUTATIVE	None	26794	222	73	79287553	79304215	-1	None	FLJ38792
17	TMEM105	ENSG00000185332	ENST00000576919	processed_transcript	PUTATIVE	None	26794	None	None	79297567	79304451	-1	None	FLJ38792
17	TMEM105	ENSG00000185332	ENST00000571868	processed_transcript	PUTATIVE	None	26794	None	None	79301395	79304229	-1	None	FLJ38792
17	TMEM105	ENSG00000185332	ENST00000577027	processed_transcript	PUTATIVE	None	26794	None	None	79301560	79303317	-1	None	FLJ38792
11	FAM118B	ENSG00000197798	ENST00000533050	protein_coding	KNOWN	CCDS8470	26110	1056	351	126081309	126132881	1	None	FLJ21103
11	FAM118B	ENSG00000197798	ENST00000525728	processed_transcript	KNOWN	None	26110	None	None	126081661	126124272	1	None	FLJ21103
11	FAM118B	ENSG00000197798	ENST00000528985	protein_coding	PUTATIVE	None	26110	1040	345	126081667	126131380	1	None	FLJ21103
11	FAM118B	ENSG00000197798	ENST00000529731	protein_coding	NOVEL	None	26110	828	275	126081668	126132163	1	None	FLJ21103
11	FAM118B	ENSG00000197798	ENST00000360194	protein_coding	PUTATIVE	None	26110	1053	350	126081668	126132526	1	None	FLJ21103
11	FAM118B	ENSG00000197798	ENST00000530043	protein_coding	PUTATIVE	None	26110	459	152	126081672	126120520	1	None	FLJ21103
11	FAM118B	ENSG00000197798	ENST00000527247	retained_intron	KNOWN	None	26110	None	None	126099119	126111176	1	None	FLJ21103
11	FAM118B	ENSG00000197798	ENST00000525338	protein_coding	PUTATIVE	None	26110	707	234	126099119	126126700	1	None	FLJ21103
11	FAM118B	ENSG00000197798	ENST00000531935	retained_intron	KNOWN	None	26110	None	None	126130294	126132816	1	None	FLJ21103
6	MED20	ENSG00000124641	ENST00000265350	protein_coding	KNOWN	CCDS4862	16840	639	212	41873092	41888837	-1	TRFP	DKFZp586D2223, PRO0213
6	MED20	ENSG00000124641	ENST00000467535	processed_transcript	KNOWN	None	16840	None	None	41873093	41888681	-1	TRFP	DKFZp586D2223, PRO0213
6	MED20	ENSG00000124641	ENST00000482361	processed_transcript	KNOWN	None	16840	None	None	41873934	41888877	-1	TRFP	DKFZp586D2223, PRO0213
6	MED20	ENSG00000124641	ENST00000409312	protein_coding	KNOWN	None	16840	372	123	41874542	41888857	-1	TRFP	DKFZp586D2223, PRO0213
6	MED20	ENSG00000124641	ENST00000394251	protein_coding	PUTATIVE	None	16840	420	139	41875005	41885352	-1	TRFP	DKFZp586D2223, PRO0213
6	MED20	ENSG00000124641	ENST00000409060	protein_coding	PUTATIVE	None	16840	438	145	41876690	41888831	-1	TRFP	DKFZp586D2223, PRO0213
6	MED20	ENSG00000124641	ENST00000434077	protein_coding	PUTATIVE	None	16840	182	59	41884594	41888843	-1	TRFP	DKFZp586D2223, PRO0213
1	ATF3	ENSG00000162772	ENST00000366981	protein_coding	KNOWN	None	785	526	174	212738676	212792877	1	None	None
1	ATF3	ENSG00000162772	ENST00000465155	processed_transcript	KNOWN	None	785	None	None	212782012	212792589	1	None	None
1	ATF3	ENSG00000162772	ENST00000341491	protein_coding	KNOWN	CCDS1506	785	546	181	212782012	212794119	1	None	None
1	ATF3	ENSG00000162772	ENST00000366985	protein_coding	KNOWN	CCDS58059	785	375	124	212782257	212792953	1	None	None
1	ATF3	ENSG00000162772	ENST00000492118	processed_transcript	KNOWN	None	785	None	None	212786778	212794119	1	None	None
1	ATF3	ENSG00000162772	ENST00000336937	protein_coding	KNOWN	CCDS55688	785	321	106	212788364	212792608	1	None	None
1	ATF3	ENSG00000162772	ENST00000464547	nonsense_mediated_decay	KNOWN	CCDS41464	785	408	135	212788364	212792897	1	None	None
1	ATF3	ENSG00000162772	ENST00000366983	protein_coding	KNOWN	CCDS41464	785	408	135	212788364	212792897	1	None	None
1	ATF3	ENSG00000162772	ENST00000366987	protein_coding	KNOWN	CCDS1506	785	546	181	212738697	212794114	1	None	None
15	KIF7	ENSG00000166813	ENST00000558928	processed_transcript	KNOWN	None	30497	None	None	90152020	90172011	-1	None	JBTS12
15	KIF7	ENSG00000166813	ENST00000394412	protein_coding	KNOWN	CCDS32325	30497	4032	1343	90171208	90198682	-1	None	JBTS12
15	KIF7	ENSG00000166813	ENST00000445906	nonsense_mediated_decay	KNOWN	None	30497	444	147	90191734	90198682	-1	None	JBTS12
17	PMP22	ENSG00000109099	ENST00000395938	protein_coding	KNOWN	CCDS11168	9118	483	160	15133095	15165906	-1	None	HNPP, GAS-3, Sp110
17	PMP22	ENSG00000109099	ENST00000312280	protein_coding	KNOWN	CCDS11168	9118	483	160	15133095	15168624	-1	None	HNPP, GAS-3, Sp110
17	PMP22	ENSG00000109099	ENST00000494511	protein_coding	NOVEL	None	9118	486	161	15133833	15168636	-1	None	HNPP, GAS-3, Sp110
17	PMP22	ENSG00000109099	ENST00000395936	protein_coding	PUTATIVE	None	9118	357	118	15134114	15165858	-1	None	HNPP, GAS-3, Sp110
17	PMP22	ENSG00000109099	ENST00000580584	protein_coding	PUTATIVE	None	9118	154	50	15134384	15168643	-1	None	HNPP, GAS-3, Sp110
17	PMP22	ENSG00000109099	ENST00000426385	protein_coding	PUTATIVE	None	9118	378	125	15142658	15165833	-1	None	HNPP, GAS-3, Sp110
17	PMP22	ENSG00000109099	ENST00000580497	retained_intron	KNOWN	None	9118	None	None	15162054	15164085	-1	None	HNPP, GAS-3, Sp110
17	PMP22	ENSG00000109099	ENST00000471150	retained_intron	KNOWN	None	9118	None	None	15163597	15168625	-1	None	HNPP, GAS-3, Sp110
11	C11orf82	ENSG00000165490	ENST00000532277	protein_coding	KNOWN	None	26351	226	74	82611017	82639931	1	None	FLJ38838, FLJ25416, noxin
11	C11orf82	ENSG00000165490	ENST00000524921	protein_coding	PUTATIVE	None	26351	363	120	82612740	82642864	1	None	FLJ38838, FLJ25416, noxin
11	C11orf82	ENSG00000165490	ENST00000528759	protein_coding	PUTATIVE	None	26351	201	66	82612740	82645697	1	None	FLJ38838, FLJ25416, noxin
11	C11orf82	ENSG00000165490	ENST00000525361	protein_coding	KNOWN	None	26351	537	178	82612740	82669319	1	None	FLJ38838, FLJ25416, noxin
11	C11orf82	ENSG00000165490	ENST00000533655	protein_coding	KNOWN	CCDS8263	26351	2997	998	82612769	82645701	1	None	FLJ38838, FLJ25416, noxin
11	C11orf82	ENSG00000165490	ENST00000532764	protein_coding	PUTATIVE	None	26351	677	224	82612772	82642874	1	None	FLJ38838, FLJ25416, noxin
11	C11orf82	ENSG00000165490	ENST00000532589	protein_coding	KNOWN	None	26351	228	75	82612778	82639933	1	None	FLJ38838, FLJ25416, noxin
11	C11orf82	ENSG00000165490	ENST00000528189	retained_intron	KNOWN	None	26351	None	None	82612778	82639984	1	None	FLJ38838, FLJ25416, noxin
11	C11orf82	ENSG00000165490	ENST00000525388	protein_coding	PUTATIVE	None	26351	363	120	82612784	82643258	1	None	FLJ38838, FLJ25416, noxin
11	C11orf82	ENSG00000165490	ENST00000528262	protein_coding	KNOWN	None	26351	370	122	82620300	82641293	1	None	FLJ38838, FLJ25416, noxin
11	C11orf82	ENSG00000165490	ENST00000533750	processed_transcript	KNOWN	None	26351	None	None	82633656	82642998	1	None	FLJ38838, FLJ25416, noxin
11	C11orf82	ENSG00000165490	ENST00000430323	protein_coding	KNOWN	CCDS8263	26351	2997	998	82612740	82645377	1	None	FLJ38838, FLJ25416, noxin
11	C11orf82	ENSG00000165490	ENST00000329143	protein_coding	KNOWN	None	26351	2094	697	82625731	82645697	1	None	FLJ38838, FLJ25416, noxin
X	ARMCX4	ENSG00000196440	ENST00000433011	nonsense_mediated_decay	KNOWN	None	28615	1083	360	100673275	100788446	1	CXorf35	MGC40053
X	ARMCX4	ENSG00000196440	ENST00000430461	processed_transcript	KNOWN	None	28615	None	None	100673286	100701120	1	CXorf35	MGC40053
X	ARMCX4	ENSG00000196440	ENST00000453574	processed_transcript	KNOWN	None	28615	None	None	100673287	100674171	1	CXorf35	MGC40053
X	ARMCX4	ENSG00000196440	ENST00000431677	processed_transcript	KNOWN	None	28615	None	None	100673770	100702865	1	CXorf35	MGC40053
X	ARMCX4	ENSG00000196440	ENST00000445416	nonsense_mediated_decay	KNOWN	None	28615	156	51	100740241	100771941	1	CXorf35	MGC40053
X	ARMCX4	ENSG00000196440	ENST00000452188	nonsense_mediated_decay	KNOWN	None	28615	1083	360	100740420	100788446	1	CXorf35	MGC40053
X	ARMCX4	ENSG00000196440	ENST00000455331	nonsense_mediated_decay	KNOWN	None	28615	1047	348	100740440	100754031	1	CXorf35	MGC40053
X	ARMCX4	ENSG00000196440	ENST00000442270	nonsense_mediated_decay	KNOWN	None	28615	156	51	100740443	100788446	1	CXorf35	MGC40053
X	ARMCX4	ENSG00000196440	ENST00000354842	nonsense_mediated_decay	KNOWN	None	28615	1047	348	100740462	100788446	1	CXorf35	MGC40053
X	ARMCX4	ENSG00000196440	ENST00000423738	protein_coding	PUTATIVE	CCDS59170	28615	6873	2290	100743031	100750794	1	CXorf35	MGC40053
9	None	ENSG00000235330	ENST00000598100	processed_transcript	KNOWN	None	None	None	None	477750	478423	1	None	None
9	None	ENSG00000235330	ENST00000455592	transcribed_processed_pseudogene	KNOWN	None	None	None	None	477856	478349	1	None	None
2	SNRPG	ENSG00000143977	ENST00000272348	protein_coding	KNOWN	CCDS1903	11163	231	76	70508494	70520903	-1	None	Sm-G
2	SNRPG	ENSG00000143977	ENST00000429728	processed_transcript	KNOWN	None	11163	None	None	70508499	70520872	-1	None	Sm-G
2	SNRPG	ENSG00000143977	ENST00000482975	protein_coding	PUTATIVE	None	11163	195	64	70508636	70520570	-1	None	Sm-G
2	SNRPG	ENSG00000143977	ENST00000438261	protein_coding	PUTATIVE	None	11163	195	64	70508637	70520580	-1	None	Sm-G
2	SNRPG	ENSG00000143977	ENST00000449935	protein_coding	PUTATIVE	None	11163	195	64	70508639	70519908	-1	None	Sm-G
2	SNRPG	ENSG00000143977	ENST00000413456	protein_coding	PUTATIVE	None	11163	207	68	70508639	70520356	-1	None	Sm-G
2	SNRPG	ENSG00000143977	ENST00000454893	protein_coding	PUTATIVE	None	11163	291	96	70508639	70520843	-1	None	Sm-G
2	SNRPG	ENSG00000143977	ENST00000480370	retained_intron	KNOWN	None	11163	None	None	70514940	70520851	-1	None	Sm-G
2	SNRPG	ENSG00000143977	ENST00000488400	retained_intron	KNOWN	None	11163	None	None	70515068	70520862	-1	None	Sm-G
6	DDX39B	ENSG00000198563	ENST00000474961	retained_intron	KNOWN	None	13917	None	None	31497996	31499521	-1	BAT1	D6S81E, UAP56
6	DDX39B	ENSG00000198563	ENST00000484566	nonsense_mediated_decay	KNOWN	None	13917	424	140	31497996	31503252	-1	BAT1	D6S81E, UAP56
6	DDX39B	ENSG00000198563	ENST00000376177	protein_coding	KNOWN	None	13917	1278	425	31497996	31508313	-1	BAT1	D6S81E, UAP56
6	DDX39B	ENSG00000198563	ENST00000462256	retained_intron	KNOWN	None	13917	None	None	31497996	31509794	-1	BAT1	D6S81E, UAP56
6	DDX39B	ENSG00000198563	ENST00000458640	protein_coding	KNOWN	CCDS4697	13917	1287	428	31497996	31510225	-1	BAT1	D6S81E, UAP56
6	DDX39B	ENSG00000198563	ENST00000396172	protein_coding	KNOWN	CCDS4697	13917	1287	428	31497996	31510225	-1	BAT1	D6S81E, UAP56
6	DDX39B	ENSG00000198563	ENST00000462421	processed_transcript	PUTATIVE	None	13917	None	None	31498020	31498712	-1	BAT1	D6S81E, UAP56
6	DDX39B	ENSG00000198563	ENST00000417023	protein_coding	PUTATIVE	None	13917	561	186	31498556	31502288	-1	BAT1	D6S81E, UAP56
6	DDX39B	ENSG00000198563	ENST00000478365	retained_intron	KNOWN	None	13917	None	None	31498893	31499448	-1	BAT1	D6S81E, UAP56
6	DDX39B	ENSG00000198563	ENST00000482195	retained_intron	KNOWN	None	13917	None	None	31499051	31510178	-1	BAT1	D6S81E, UAP56
6	DDX39B	ENSG00000198563	ENST00000431908	protein_coding	KNOWN	None	13917	737	244	31499079	31509758	-1	BAT1	D6S81E, UAP56
6	DDX39B	ENSG00000198563	ENST00000481456	retained_intron	KNOWN	None	13917	None	None	31500190	31509778	-1	BAT1	D6S81E, UAP56
6	DDX39B	ENSG00000198563	ENST00000427214	protein_coding	KNOWN	None	13917	867	288	31500557	31509308	-1	BAT1	D6S81E, UAP56
6	DDX39B	ENSG00000198563	ENST00000428098	protein_coding	KNOWN	None	13917	714	237	31503165	31509795	-1	BAT1	D6S81E, UAP56
6	DDX39B	ENSG00000198563	ENST00000419338	protein_coding	KNOWN	None	13917	707	234	31503172	31509261	-1	BAT1	D6S81E, UAP56
6	DDX39B	ENSG00000198563	ENST00000456662	protein_coding	KNOWN	None	13917	695	230	31503184	31509714	-1	BAT1	D6S81E, UAP56
6	DDX39B	ENSG00000198563	ENST00000428450	protein_coding	KNOWN	None	13917	591	196	31504386	31509766	-1	BAT1	D6S81E, UAP56
6	DDX39B	ENSG00000198563	ENST00000449757	protein_coding	KNOWN	None	13917	562	186	31504400	31509506	-1	BAT1	D6S81E, UAP56
6	DDX39B	ENSG00000198563	ENST00000456976	protein_coding	KNOWN	None	13917	376	124	31506596	31509763	-1	BAT1	D6S81E, UAP56
6	DDX39B	ENSG00000198563	ENST00000418897	protein_coding	KNOWN	None	13917	409	135	31506608	31509768	-1	BAT1	D6S81E, UAP56
6	DDX39B	ENSG00000198563	ENST00000419020	protein_coding	KNOWN	None	13917	397	131	31506659	31509780	-1	BAT1	D6S81E, UAP56
6	DDX39B	ENSG00000198563	ENST00000417556	protein_coding	KNOWN	None	13917	1332	443	31497996	31510225	-1	BAT1	D6S81E, UAP56
6	DDX39B	ENSG00000198563	ENST00000415382	protein_coding	KNOWN	None	13917	1053	350	31498030	31509780	-1	BAT1	D6S81E, UAP56
6	DDX39B	ENSG00000198563	ENST00000453105	protein_coding	KNOWN	None	13917	732	243	31502588	31509768	-1	BAT1	D6S81E, UAP56
6	DDX39B	ENSG00000198563	ENST00000449074	protein_coding	KNOWN	None	13917	420	139	31504332	31509780	-1	BAT1	D6S81E, UAP56
17	EIF5A	ENSG00000132507	ENST00000336452	protein_coding	KNOWN	CCDS45601	3300	555	184	7210318	7215774	1	None	EIF5A1, EIF-5A, MGC99547, MGC104255
17	EIF5A	ENSG00000132507	ENST00000355068	retained_intron	KNOWN	None	3300	None	None	7210645	7213772	1	None	EIF5A1, EIF-5A, MGC99547, MGC104255
17	EIF5A	ENSG00000132507	ENST00000336458	protein_coding	KNOWN	CCDS11099	3300	465	154	7210692	7215774	1	None	EIF5A1, EIF-5A, MGC99547, MGC104255
17	EIF5A	ENSG00000132507	ENST00000576930	protein_coding	KNOWN	CCDS11099	3300	465	154	7210859	7215774	1	None	EIF5A1, EIF-5A, MGC99547, MGC104255
17	EIF5A	ENSG00000132507	ENST00000572815	protein_coding	NOVEL	None	3300	561	186	7210901	7215187	1	None	EIF5A1, EIF-5A, MGC99547, MGC104255
17	EIF5A	ENSG00000132507	ENST00000573542	protein_coding	KNOWN	CCDS11099	3300	465	154	7210921	7215563	1	None	EIF5A1, EIF-5A, MGC99547, MGC104255
17	EIF5A	ENSG00000132507	ENST00000575001	retained_intron	KNOWN	None	3300	None	None	7210950	7213420	1	None	EIF5A1, EIF-5A, MGC99547, MGC104255
17	EIF5A	ENSG00000132507	ENST00000419711	protein_coding	KNOWN	CCDS11099	3300	465	154	7211293	7215774	1	None	EIF5A1, EIF-5A, MGC99547, MGC104255
17	EIF5A	ENSG00000132507	ENST00000571955	protein_coding	KNOWN	CCDS11099	3300	465	154	7211293	7215774	1	None	EIF5A1, EIF-5A, MGC99547, MGC104255
17	EIF5A	ENSG00000132507	ENST00000573714	protein_coding	KNOWN	None	3300	440	145	7211312	7214934	1	None	EIF5A1, EIF-5A, MGC99547, MGC104255
17	EIF5A	ENSG00000132507	ENST00000416016	protein_coding	KNOWN	CCDS11099	3300	465	154	7211690	7215774	1	None	EIF5A1, EIF-5A, MGC99547, MGC104255
5	C5orf24	ENSG00000181904	ENST00000338051	protein_coding	KNOWN	CCDS4179	26746	567	188	134181370	134194799	1	None	FLJ37562
5	C5orf24	ENSG00000181904	ENST00000394976	protein_coding	KNOWN	CCDS4179	26746	567	188	134181678	134195427	1	None	FLJ37562
5	C5orf24	ENSG00000181904	ENST00000504727	protein_coding	PUTATIVE	None	26746	468	155	134181786	134195422	1	None	FLJ37562
5	C5orf24	ENSG00000181904	ENST00000435259	protein_coding	KNOWN	CCDS4179	26746	567	188	134181844	134191178	1	None	FLJ37562
5	C5orf24	ENSG00000181904	ENST00000508791	protein_coding	KNOWN	None	26746	22	6	134181936	134190612	1	None	FLJ37562
5	C5orf24	ENSG00000181904	ENST00000507390	protein_coding	PUTATIVE	None	26746	254	83	134190640	134193102	1	None	FLJ37562
16	ITGAD	ENSG00000156886	ENST00000389202	protein_coding	KNOWN	CCDS32438	6146	3486	1161	31404633	31437826	1	None	CD11d, ADB2
16	ITGAD	ENSG00000156886	ENST00000444228	retained_intron	KNOWN	None	6146	None	None	31404656	31419940	1	None	CD11d, ADB2
16	ITGAD	ENSG00000156886	ENST00000567308	retained_intron	KNOWN	None	6146	None	None	31435263	31436036	1	None	CD11d, ADB2
7	SLC25A5P3	ENSG00000213673	ENST00000444439	processed_pseudogene	KNOWN	None	507	None	None	54487137	54488021	1	ANTP1	None
1	FAM71A	ENSG00000162771	ENST00000294829	protein_coding	KNOWN	CCDS1507	26541	1785	594	212797789	212800120	1	None	FLJ32796
7	None	ENSG00000224223	ENST00000456049	processed_transcript	KNOWN	None	None	None	None	54624663	54639419	1	None	None
7	NUPR1L	ENSG00000185290	ENST00000329309	protein_coding	KNOWN	CCDS59058	44164	294	97	56182374	56184093	-1	None	None
7	None	ENSG00000228735	ENST00000439027	lincRNA	KNOWN	None	None	None	None	54643745	54646487	-1	None	None
17	None	ENSG00000263053	ENST00000574717	protein_coding	KNOWN	None	None	178	58	79369275	79373717	1	None	None
17	None	ENSG00000263053	ENST00000572324	processed_transcript	KNOWN	None	None	None	None	79373574	79375658	1	None	None
7	RNU6-1125P	ENSG00000200471	ENST00000363601	snRNA	KNOWN	None	48088	None	None	54688718	54688824	1	None	None
7	None	ENSG00000232612	ENST00000431058	processed_pseudogene	KNOWN	None	None	None	None	54724051	54724427	1	None	None
1	BATF3	ENSG00000123685	ENST00000471382	processed_transcript	KNOWN	None	28915	None	None	212859760	212860851	-1	None	JUNDM1, SNFT, JDP1
1	BATF3	ENSG00000123685	ENST00000478275	processed_transcript	KNOWN	None	28915	None	None	212859760	212872097	-1	None	JUNDM1, SNFT, JDP1
1	BATF3	ENSG00000123685	ENST00000243440	protein_coding	KNOWN	CCDS1508	28915	384	127	212859760	212873327	-1	None	JUNDM1, SNFT, JDP1
7	None	ENSG00000234707	ENST00000439413	antisense	KNOWN	None	None	None	None	54827118	54872621	1	None	None
9	None	ENSG00000228115	ENST00000442442	sense_intronic	KNOWN	None	None	None	None	487774	495610	1	None	None
16	FBXL16	ENSG00000127585	ENST00000562648	retained_intron	KNOWN	None	14150	None	None	742500	745532	-1	C16orf22	MGC33974, Fbl16
16	FBXL16	ENSG00000127585	ENST00000397621	protein_coding	KNOWN	CCDS10421	14150	1440	479	742500	755829	-1	C16orf22	MGC33974, Fbl16
16	FBXL16	ENSG00000127585	ENST00000562563	protein_coding	PUTATIVE	None	14150	804	267	742927	746025	-1	C16orf22	MGC33974, Fbl16
16	FBXL16	ENSG00000127585	ENST00000562585	processed_transcript	KNOWN	None	14150	None	None	744658	745263	-1	C16orf22	MGC33974, Fbl16
16	FBXL16	ENSG00000127585	ENST00000324361	protein_coding	KNOWN	CCDS10421	14150	1440	479	742518	755808	-1	C16orf22	MGC33974, Fbl16
7	None	ENSG00000252054	ENST00000516245	snoRNA	NOVEL	None	None	None	None	54933511	54933717	1	None	None
7	ZNF479	ENSG00000185177	ENST00000331162	protein_coding	KNOWN	CCDS43590	23258	1575	524	57187321	57207571	-1	None	KR19
7	None	ENSG00000218586	ENST00000407916	processed_pseudogene	KNOWN	None	None	None	None	55001392	55005877	1	None	None
1	PTCH2	ENSG00000117425	ENST00000438067	protein_coding	KNOWN	None	9586	265	87	45285516	45288932	-1	None	None
1	PTCH2	ENSG00000117425	ENST00000372192	protein_coding	KNOWN	CCDS516	9586	3612	1203	45287605	45308735	-1	None	None
1	PTCH2	ENSG00000117425	ENST00000447098	protein_coding	KNOWN	CCDS53312	9586	3441	1146	45285516	45308616	-1	None	None
12	TAS2R50	ENSG00000212126	ENST00000506868	protein_coding	KNOWN	CCDS8638	18882	900	299	11138512	11139511	-1	None	T2R51
7	EGFR-AS1	ENSG00000224057	ENST00000442411	antisense	KNOWN	None	40207	None	None	55247443	55256627	-1	None	None
9	RN7SL412P	ENSG00000264949	ENST00000578371	misc_RNA	KNOWN	None	46428	None	None	507258	507553	-1	None	None
7	THAP5	ENSG00000177683	ENST00000468884	processed_transcript	PUTATIVE	None	23188	None	None	108194987	108210041	-1	None	DKFZp313O1132
7	THAP5	ENSG00000177683	ENST00000415914	protein_coding	KNOWN	CCDS47687	23188	1188	395	108202671	108210167	-1	None	DKFZp313O1132
7	THAP5	ENSG00000177683	ENST00000313516	protein_coding	KNOWN	CCDS34734	23188	1062	353	108204530	108209897	-1	None	DKFZp313O1132
7	THAP5	ENSG00000177683	ENST00000493722	processed_transcript	PUTATIVE	None	23188	None	None	108204826	108210089	-1	None	DKFZp313O1132
7	THAP5	ENSG00000177683	ENST00000438865	protein_coding	PUTATIVE	None	23188	168	55	108205014	108210194	-1	None	DKFZp313O1132
7	THAP5	ENSG00000177683	ENST00000446771	processed_transcript	KNOWN	None	23188	None	None	108205437	108209700	-1	None	DKFZp313O1132
7	THAP5	ENSG00000177683	ENST00000412935	processed_transcript	KNOWN	None	23188	None	None	108205437	108210113	-1	None	DKFZp313O1132
7	THAP5	ENSG00000177683	ENST00000484452	retained_intron	KNOWN	None	23188	None	None	108205615	108210132	-1	None	DKFZp313O1132
9	None	ENSG00000226403	ENST00000441028	sense_intronic	KNOWN	None	None	None	None	547317	549531	1	None	None
9	None	ENSG00000226403	ENST00000444793	sense_intronic	KNOWN	None	None	None	None	547318	549531	1	None	None
7	None	ENSG00000237210	ENST00000425993	processed_pseudogene	KNOWN	None	None	None	None	55311940	55313374	1	None	None
7	CALM1P2	ENSG00000230564	ENST00000452941	processed_pseudogene	KNOWN	None	1444	None	None	55327502	55327949	-1	None	TCAG_1643085
7	None	ENSG00000230936	ENST00000421633	processed_pseudogene	KNOWN	None	None	None	None	55410009	55412651	1	None	None
12	TAS2R20	ENSG00000255837	ENST00000538986	protein_coding	KNOWN	CCDS8639	19109	930	309	11149094	11150474	-1	TAS2R49	T2R20, T2R56
7	None	ENSG00000223475	ENST00000454777	antisense	KNOWN	None	None	None	None	55640864	55656029	1	None	None
7	None	ENSG00000233977	ENST00000421500	lincRNA	KNOWN	None	None	None	None	55659767	55660886	1	None	None
12	TAS2R19	ENSG00000212124	ENST00000390673	protein_coding	KNOWN	CCDS8640	19108	900	299	11174218	11175219	-1	TAS2R48, TAS2R23	T2R19, T2R23
7	None	ENSG00000231394	ENST00000449899	lincRNA	KNOWN	None	None	None	None	55661470	55662699	1	None	None
9	RNU6-1327P	ENSG00000202172	ENST00000365302	snRNA	KNOWN	None	48290	None	None	558826	558930	1	None	None
7	CDC42P2	ENSG00000234844	ENST00000448566	processed_pseudogene	KNOWN	None	33952	None	None	55705967	55706535	-1	None	None
9	None	ENSG00000229875	ENST00000421436	processed_pseudogene	KNOWN	None	None	None	None	659986	660326	1	None	None
15	TNFAIP8L3	ENSG00000183578	ENST00000327536	protein_coding	KNOWN	CCDS32241	20620	879	292	51348795	51397473	-1	None	FLJ41287
7	TUBBP6	ENSG00000235207	ENST00000416519	processed_pseudogene	KNOWN	None	42175	None	None	55713313	55714644	1	None	None
7	None	ENSG00000231317	ENST00000432235	unprocessed_pseudogene	KNOWN	None	None	None	None	55724461	55746183	-1	None	None
12	TAS2R31	ENSG00000256436	ENST00000390675	protein_coding	KNOWN	CCDS53747	19113	930	309	11182986	11184006	-1	TAS2R44	T2R31, T2R53
19	DLL3	ENSG00000090932	ENST00000600437	retained_intron	KNOWN	None	2909	None	None	39989535	39996293	1	None	SCDO1
19	DLL3	ENSG00000090932	ENST00000356433	protein_coding	KNOWN	CCDS12537	2909	1764	587	39989535	39999108	1	None	SCDO1
19	DLL3	ENSG00000090932	ENST00000596614	protein_coding	NOVEL	None	2909	660	219	39989607	39997929	1	None	SCDO1
19	DLL3	ENSG00000090932	ENST00000600579	processed_transcript	KNOWN	None	2909	None	None	39989608	39990112	1	None	SCDO1
19	DLL3	ENSG00000090932	ENST00000205143	protein_coding	KNOWN	CCDS12538	2909	1857	618	39989608	39999121	1	None	SCDO1
9	None	ENSG00000227914	ENST00000421645	antisense	KNOWN	None	None	None	None	673478	685555	-1	None	None
19	CACNG8	ENSG00000142408	ENST00000270458	protein_coding	KNOWN	CCDS33104	13628	1278	425	54466294	54493469	1	None	None
7	FKBP9L	ENSG00000176826	ENST00000455909	processed_transcript	KNOWN	None	23568	None	None	55748767	55756994	-1	None	MGC20531
7	FKBP9L	ENSG00000176826	ENST00000441699	transcribed_unprocessed_pseudogene	KNOWN	None	23568	None	None	55750345	55780945	-1	None	MGC20531
7	FKBP9L	ENSG00000176826	ENST00000324256	unprocessed_pseudogene	KNOWN	None	23568	None	None	55750321	55755681	-1	None	MGC20531
12	None	ENSG00000268301	ENST00000601123	protein_coding	NOVEL	None	None	189	62	11187087	11187275	1	None	None
X	SSX1	ENSG00000126752	ENST00000376919	protein_coding	KNOWN	CCDS14290	11335	567	188	48114752	48126879	1	None	CT5.1
1	NSL1	ENSG00000117697	ENST00000366978	protein_coding	KNOWN	None	24548	228	75	212899495	212964923	-1	C1orf48	DC8, DKFZP566O1646, MIS14
1	NSL1	ENSG00000117697	ENST00000366977	protein_coding	KNOWN	CCDS1509	24548	846	281	212910298	212965124	-1	C1orf48	DC8, DKFZP566O1646, MIS14
1	NSL1	ENSG00000117697	ENST00000366976	protein_coding	KNOWN	None	24548	519	172	212911825	212965124	-1	C1orf48	DC8, DKFZP566O1646, MIS14
1	NSL1	ENSG00000117697	ENST00000473995	processed_transcript	KNOWN	None	24548	None	None	212955274	212964957	-1	C1orf48	DC8, DKFZP566O1646, MIS14
1	NSL1	ENSG00000117697	ENST00000487995	processed_transcript	KNOWN	None	24548	None	None	212957483	212965124	-1	C1orf48	DC8, DKFZP566O1646, MIS14
1	NSL1	ENSG00000117697	ENST00000366975	protein_coding	KNOWN	None	24548	723	240	212911269	212965119	-1	C1orf48	DC8, DKFZP566O1646, MIS14
1	NSL1	ENSG00000117697	ENST00000422588	protein_coding	KNOWN	CCDS53474	24548	642	213	212910985	212965119	-1	C1orf48	DC8, DKFZP566O1646, MIS14
12	TAS2R46	ENSG00000226761	ENST00000533467	protein_coding	KNOWN	CCDS53748	18877	930	309	11213964	11214893	-1	None	T2R54
6	SNAPC5P1	ENSG00000241216	ENST00000403621	transcribed_processed_pseudogene	KNOWN	None	38667	None	None	6347314	6347614	-1	None	None
9	RNU6-1073P	ENSG00000252991	ENST00000517182	snRNA	KNOWN	None	48036	None	None	1001858	1001963	-1	None	None
6	CNN3P1	ENSG00000218868	ENST00000401596	processed_pseudogene	KNOWN	None	38666	None	None	6534930	6535864	1	None	None
6	None	ENSG00000261211	ENST00000563225	lincRNA	KNOWN	None	None	None	None	6680542	6683866	-1	None	None
12	TAS2R43	ENSG00000255374	ENST00000531678	protein_coding	KNOWN	CCDS53749	18875	930	309	11243886	11244912	-1	None	T2R52
6	None	ENSG00000226281	ENST00000432823	lincRNA	KNOWN	None	None	None	None	6692977	6711235	-1	None	None
9	None	ENSG00000228783	ENST00000437555	processed_pseudogene	KNOWN	None	None	None	None	1011085	1011799	1	None	None
12	OR8S1	ENSG00000197376	ENST00000551654	processed_transcript	KNOWN	None	19628	None	None	48901137	48923680	1	None	None
12	OR8S1	ENSG00000197376	ENST00000310194	protein_coding	KNOWN	CCDS31789	19628	1080	359	48919415	48921886	1	None	None
12	TAS2R30	ENSG00000256188	ENST00000539585	protein_coding	KNOWN	CCDS53750	19112	960	319	11285557	11287243	-1	TAS2R47	T2R30
9	None	ENSG00000224836	ENST00000443334	processed_pseudogene	KNOWN	None	None	None	None	1151807	1152140	-1	None	None
6	IBTK	ENSG00000005700	ENST00000306270	protein_coding	KNOWN	CCDS34490	17853	4062	1353	82879700	82957471	-1	BTKI	DKFZP564B116, BTBD26
6	IBTK	ENSG00000005700	ENST00000505222	retained_intron	KNOWN	None	17853	None	None	82879703	82950282	-1	BTKI	DKFZP564B116, BTBD26
6	IBTK	ENSG00000005700	ENST00000508381	retained_intron	KNOWN	None	17853	None	None	82879953	82883295	-1	BTKI	DKFZP564B116, BTBD26
6	IBTK	ENSG00000005700	ENST00000445419	retained_intron	KNOWN	None	17853	None	None	82879956	82915646	-1	BTKI	DKFZP564B116, BTBD26
6	IBTK	ENSG00000005700	ENST00000503400	nonsense_mediated_decay	KNOWN	None	17853	717	238	82880460	82957388	-1	BTKI	DKFZP564B116, BTBD26
6	IBTK	ENSG00000005700	ENST00000503631	protein_coding	NOVEL	None	17853	3459	1152	82881120	82950282	-1	BTKI	DKFZP564B116, BTBD26
6	IBTK	ENSG00000005700	ENST00000510291	protein_coding	NOVEL	None	17853	4017	1338	82881129	82950282	-1	BTKI	DKFZP564B116, BTBD26
6	IBTK	ENSG00000005700	ENST00000471036	nonsense_mediated_decay	KNOWN	None	17853	387	128	82881225	82901571	-1	BTKI	DKFZP564B116, BTBD26
6	IBTK	ENSG00000005700	ENST00000369751	retained_intron	KNOWN	None	17853	None	None	82901048	82957471	-1	BTKI	DKFZP564B116, BTBD26
17	MMD	ENSG00000108960	ENST00000262065	protein_coding	KNOWN	CCDS11586	7153	717	238	53469974	53499353	-1	None	MMA, PAQR11
17	MMD	ENSG00000108960	ENST00000571578	protein_coding	NOVEL	None	7153	441	146	53478830	53499285	-1	None	MMA, PAQR11
17	MMD	ENSG00000108960	ENST00000577038	processed_transcript	KNOWN	None	7153	None	None	53497453	53499158	-1	None	MMA, PAQR11
17	None	ENSG00000171282	ENST00000571813	protein_coding	PUTATIVE	None	None	7562	2519	79405396	79433357	1	None	None
17	None	ENSG00000171282	ENST00000570375	processed_transcript	KNOWN	None	None	None	None	79410491	79411299	1	None	None
17	None	ENSG00000171282	ENST00000576071	retained_intron	KNOWN	None	None	None	None	79423184	79425387	1	None	None
17	None	ENSG00000171282	ENST00000576039	retained_intron	KNOWN	None	None	None	None	79426417	79428218	1	None	None
17	None	ENSG00000171282	ENST00000571612	retained_intron	KNOWN	None	None	None	None	79429585	79430781	1	None	None
17	None	ENSG00000171282	ENST00000307745	protein_coding	KNOWN	None	None	7827	2608	79373540	79433357	1	None	None
1	SEMA6C	ENSG00000143434	ENST00000368913	protein_coding	KNOWN	CCDS53364	10740	2889	962	151104161	151118933	-1	None	KIAA1869
1	SEMA6C	ENSG00000143434	ENST00000368912	protein_coding	KNOWN	CCDS53363	10740	2769	922	151104161	151118933	-1	None	KIAA1869
1	SEMA6C	ENSG00000143434	ENST00000368914	protein_coding	KNOWN	CCDS984	10740	2793	930	151104161	151119104	-1	None	KIAA1869
1	SEMA6C	ENSG00000143434	ENST00000341697	protein_coding	KNOWN	CCDS984	10740	2793	930	151104183	151119087	-1	None	KIAA1869
1	SEMA6C	ENSG00000143434	ENST00000479820	processed_transcript	KNOWN	None	10740	None	None	151104543	151105344	-1	None	KIAA1869
1	SEMA6C	ENSG00000143434	ENST00000464018	processed_transcript	KNOWN	None	10740	None	None	151106675	151107742	-1	None	KIAA1869
1	SEMA6C	ENSG00000143434	ENST00000489944	processed_transcript	KNOWN	None	10740	None	None	151106807	151107351	-1	None	KIAA1869
1	SEMA6C	ENSG00000143434	ENST00000485745	processed_transcript	KNOWN	None	10740	None	None	151110188	151111937	-1	None	KIAA1869
4	EXOC1	ENSG00000090989	ENST00000381295	protein_coding	KNOWN	CCDS3502	30380	2685	894	56719782	56771179	1	SEC3L1	SEC3, FLJ10893, BM-102, Sec3p
4	EXOC1	ENSG00000090989	ENST00000346134	protein_coding	KNOWN	CCDS3502	30380	2685	894	56719841	56771200	1	SEC3L1	SEC3, FLJ10893, BM-102, Sec3p
4	EXOC1	ENSG00000090989	ENST00000349598	protein_coding	KNOWN	CCDS3503	30380	2640	879	56719905	56771200	1	SEC3L1	SEC3, FLJ10893, BM-102, Sec3p
4	EXOC1	ENSG00000090989	ENST00000505501	retained_intron	KNOWN	None	30380	None	None	56724505	56734919	1	SEC3L1	SEC3, FLJ10893, BM-102, Sec3p
4	EXOC1	ENSG00000090989	ENST00000511971	retained_intron	KNOWN	None	30380	None	None	56748893	56771173	1	SEC3L1	SEC3, FLJ10893, BM-102, Sec3p
4	EXOC1	ENSG00000090989	ENST00000509302	retained_intron	KNOWN	None	30380	None	None	56749934	56759793	1	SEC3L1	SEC3, FLJ10893, BM-102, Sec3p
4	EXOC1	ENSG00000090989	ENST00000504321	retained_intron	KNOWN	None	30380	None	None	56754976	56759807	1	SEC3L1	SEC3, FLJ10893, BM-102, Sec3p
4	EXOC1	ENSG00000090989	ENST00000506936	retained_intron	KNOWN	None	30380	None	None	56768293	56770743	1	SEC3L1	SEC3, FLJ10893, BM-102, Sec3p
19	CACNG6	ENSG00000130433	ENST00000252729	protein_coding	KNOWN	CCDS12870	13625	783	260	54495542	54515923	1	None	None
19	CACNG6	ENSG00000130433	ENST00000346968	protein_coding	KNOWN	CCDS12871	13625	645	214	54496132	54515443	1	None	None
19	CACNG6	ENSG00000130433	ENST00000352529	protein_coding	KNOWN	None	13625	570	189	54495542	54515918	1	None	None
12	TAS2R42	ENSG00000186136	ENST00000334266	protein_coding	KNOWN	CCDS31747	18888	945	314	11338599	11339543	-1	None	T2R24, T2R55, hT2R55, TAS2R55
9	None	ENSG00000236594	ENST00000422868	processed_pseudogene	KNOWN	None	None	None	None	1164414	1164867	-1	None	None
8	EIF3E	ENSG00000104408	ENST00000523674	retained_intron	KNOWN	None	3277	None	None	109213445	109215575	-1	INT6, EIF3S6	eIF3-p48, eIF3e
8	EIF3E	ENSG00000104408	ENST00000522352	protein_coding	PUTATIVE	None	3277	469	155	109213972	109241365	-1	INT6, EIF3S6	eIF3-p48, eIF3e
8	EIF3E	ENSG00000104408	ENST00000220849	protein_coding	KNOWN	CCDS6308	3277	1338	445	109213972	109260994	-1	INT6, EIF3S6	eIF3-p48, eIF3e
8	EIF3E	ENSG00000104408	ENST00000519030	protein_coding	PUTATIVE	None	3277	1059	352	109214009	109260927	-1	INT6, EIF3S6	eIF3-p48, eIF3e
8	EIF3E	ENSG00000104408	ENST00000521614	retained_intron	KNOWN	None	3277	None	None	109214094	109255062	-1	INT6, EIF3S6	eIF3-p48, eIF3e
8	EIF3E	ENSG00000104408	ENST00000519517	processed_transcript	KNOWN	None	3277	None	None	109215699	109244137	-1	INT6, EIF3S6	eIF3-p48, eIF3e
8	EIF3E	ENSG00000104408	ENST00000519627	protein_coding	NOVEL	None	3277	680	225	109226836	109260948	-1	INT6, EIF3S6	eIF3-p48, eIF3e
8	EIF3E	ENSG00000104408	ENST00000519413	processed_transcript	KNOWN	None	3277	None	None	109228705	109240161	-1	INT6, EIF3S6	eIF3-p48, eIF3e
8	EIF3E	ENSG00000104408	ENST00000522445	nonsense_mediated_decay	KNOWN	None	3277	228	75	109229610	109260947	-1	INT6, EIF3S6	eIF3-p48, eIF3e
8	EIF3E	ENSG00000104408	ENST00000523646	retained_intron	KNOWN	None	3277	None	None	109240406	109241627	-1	INT6, EIF3S6	eIF3-p48, eIF3e
8	EIF3E	ENSG00000104408	ENST00000521440	protein_coding	PUTATIVE	None	3277	515	170	109245623	109260927	-1	INT6, EIF3S6	eIF3-p48, eIF3e
8	EIF3E	ENSG00000104408	ENST00000518442	retained_intron	KNOWN	None	3277	None	None	109246513	109261031	-1	INT6, EIF3S6	eIF3-p48, eIF3e
8	EIF3E	ENSG00000104408	ENST00000518100	nonsense_mediated_decay	KNOWN	None	3277	138	45	109247260	109260945	-1	INT6, EIF3S6	eIF3-p48, eIF3e
8	EIF3E	ENSG00000104408	ENST00000522887	nonsense_mediated_decay	KNOWN	None	3277	171	56	109247283	109260946	-1	INT6, EIF3S6	eIF3-p48, eIF3e
8	EIF3E	ENSG00000104408	ENST00000521297	protein_coding	PUTATIVE	None	3277	223	73	109247323	109260897	-1	INT6, EIF3S6	eIF3-p48, eIF3e
8	EIF3E	ENSG00000104408	ENST00000518345	protein_coding	PUTATIVE	None	3277	225	74	109247326	109260946	-1	INT6, EIF3S6	eIF3-p48, eIF3e
8	EIF3E	ENSG00000104408	ENST00000518634	processed_transcript	PUTATIVE	None	3277	None	None	109254122	109367955	-1	INT6, EIF3S6	eIF3-p48, eIF3e
8	EIF3E	ENSG00000104408	ENST00000522088	processed_transcript	PUTATIVE	None	3277	None	None	109321251	109447562	-1	INT6, EIF3S6	eIF3-p48, eIF3e
8	SLC45A4	ENSG00000022567	ENST00000519067	protein_coding	KNOWN	None	29196	2154	717	142217265	142238669	-1	None	KIAA1126
8	SLC45A4	ENSG00000022567	ENST00000517878	protein_coding	KNOWN	None	29196	2427	808	142220628	142264328	-1	None	KIAA1126
8	SLC45A4	ENSG00000022567	ENST00000024061	protein_coding	KNOWN	CCDS34948	29196	2397	798	142220700	142238673	-1	None	KIAA1126
8	SLC45A4	ENSG00000022567	ENST00000520137	protein_coding	PUTATIVE	None	29196	287	94	142228873	142318404	-1	None	KIAA1126
8	SLC45A4	ENSG00000022567	ENST00000519986	protein_coding	PUTATIVE	None	29196	306	101	142229846	142240447	-1	None	KIAA1126
8	SLC45A4	ENSG00000022567	ENST00000521804	processed_transcript	PUTATIVE	None	29196	None	None	142264200	142318391	-1	None	KIAA1126
8	SLC45A4	ENSG00000022567	ENST00000433583	protein_coding	KNOWN	None	29196	2253	750	142220628	142264225	-1	None	KIAA1126
7	RNU6-389P	ENSG00000252857	ENST00000517048	snRNA	KNOWN	None	47352	None	None	55753670	55753774	1	None	None
5	TMED9	ENSG00000184840	ENST00000332598	protein_coding	KNOWN	CCDS4428	24878	708	235	177019159	177023125	1	None	HSGP25L2G
5	TMED9	ENSG00000184840	ENST00000505521	retained_intron	KNOWN	None	24878	None	None	177019218	177021116	1	None	HSGP25L2G
5	TMED9	ENSG00000184840	ENST00000507723	retained_intron	KNOWN	None	24878	None	None	177019273	177022421	1	None	HSGP25L2G
5	TMED9	ENSG00000184840	ENST00000513799	retained_intron	KNOWN	None	24878	None	None	177019489	177022578	1	None	HSGP25L2G
5	TMED9	ENSG00000184840	ENST00000507578	processed_transcript	KNOWN	None	24878	None	None	177019651	177021196	1	None	HSGP25L2G
5	TMED9	ENSG00000184840	ENST00000510499	retained_intron	KNOWN	None	24878	None	None	177020223	177022387	1	None	HSGP25L2G
7	SUMO2P3	ENSG00000224971	ENST00000438311	processed_pseudogene	KNOWN	None	39013	None	None	55799837	55800124	1	None	None
6	None	ENSG00000224532	ENST00000435429	lincRNA	KNOWN	None	None	None	None	6758509	6759524	-1	None	None
6	BTF3P7	ENSG00000219986	ENST00000407097	processed_pseudogene	KNOWN	None	38569	None	None	6795148	6795635	-1	None	None
7	CICP11	ENSG00000237799	ENST00000434745	processed_pseudogene	KNOWN	None	37903	None	None	55804472	55807289	1	None	None
7	PSPHP1	ENSG00000226278	ENST00000450062	unprocessed_pseudogene	KNOWN	None	9578	None	None	55832490	55840981	1	PSPHL	CO9
7	RNU6-1126P	ENSG00000206729	ENST00000384002	snRNA	KNOWN	None	48089	None	None	55857061	55857167	1	None	None
19	SBSN	ENSG00000189001	ENST00000588674	protein_coding	PUTATIVE	None	24950	450	149	36014269	36019123	-1	None	UNQ698, HLAR698
19	SBSN	ENSG00000189001	ENST00000452271	protein_coding	NOVEL	CCDS54253	24950	1773	590	36014269	36019212	-1	None	UNQ698, HLAR698
19	SBSN	ENSG00000189001	ENST00000518157	protein_coding	KNOWN	CCDS12464	24950	744	247	36014269	36019253	-1	None	UNQ698, HLAR698
7	DNAJB9	ENSG00000128590	ENST00000249356	protein_coding	KNOWN	CCDS5752	6968	672	223	108210012	108215294	1	MDG1	None
7	DNAJB9	ENSG00000128590	ENST00000491582	retained_intron	KNOWN	None	6968	None	None	108210311	108212507	1	MDG1	None
7	DNAJB9	ENSG00000128590	ENST00000465725	processed_transcript	PUTATIVE	None	6968	None	None	108212159	108215204	1	MDG1	None
12	PRB3	ENSG00000197870	ENST00000279573	polymorphic_pseudogene	KNOWN	None	9339	991	329	11418889	11422739	-1	None	PRG
12	PRB3	ENSG00000197870	ENST00000440870	processed_transcript	KNOWN	None	9339	None	None	11418890	11422641	-1	None	PRG
12	PRB3	ENSG00000197870	ENST00000539835	retained_intron	KNOWN	None	9339	None	None	11420714	11421673	-1	None	PRG
12	PRB3	ENSG00000197870	ENST00000381842	protein_coding	KNOWN	None	9339	930	309	11418857	11422641	-1	None	PRG
12	PRB3	ENSG00000197870	ENST00000538488	protein_coding	KNOWN	None	9339	930	309	11418890	11422641	-1	None	PRG
6	None	ENSG00000223342	ENST00000422310	lincRNA	KNOWN	None	None	None	None	6901255	6918948	-1	None	None
17	TMEM100	ENSG00000166292	ENST00000424486	protein_coding	KNOWN	CCDS11587	25607	405	134	53796988	53800217	-1	None	FLJ10970, FLJ37856
17	TMEM100	ENSG00000166292	ENST00000575734	protein_coding	KNOWN	CCDS11587	25607	405	134	53797279	53809482	-1	None	FLJ10970, FLJ37856
17	TMEM100	ENSG00000166292	ENST00000571679	protein_coding	KNOWN	None	25607	388	128	53798044	53799159	-1	None	FLJ10970, FLJ37856
17	TMEM100	ENSG00000166292	ENST00000575685	processed_transcript	KNOWN	None	25607	None	None	53798824	53800385	-1	None	FLJ10970, FLJ37856
17	TMEM100	ENSG00000166292	ENST00000570586	processed_transcript	KNOWN	None	25607	None	None	53798862	53800225	-1	None	FLJ10970, FLJ37856
17	TMEM100	ENSG00000166292	ENST00000575806	retained_intron	KNOWN	None	25607	None	None	53799917	53809245	-1	None	FLJ10970, FLJ37856
12	None	ENSG00000258292	ENST00000553095	protein_coding	PUTATIVE	None	None	189	62	96196875	96217085	1	None	None
6	RN7SL554P	ENSG00000240936	ENST00000468197	misc_RNA	KNOWN	None	46570	None	None	6938835	6939130	-1	None	None
6	None	ENSG00000203498	ENST00000423568	lincRNA	KNOWN	None	None	None	None	6993424	6995787	1	None	None
2	FAM136A	ENSG00000035141	ENST00000037869	protein_coding	KNOWN	CCDS1904	25911	417	138	70523107	70529222	-1	None	FLJ14668
2	FAM136A	ENSG00000035141	ENST00000460307	retained_intron	KNOWN	None	25911	None	None	70523108	70529188	-1	None	FLJ14668
2	FAM136A	ENSG00000035141	ENST00000450256	protein_coding	NOVEL	None	25911	318	105	70524143	70529188	-1	None	FLJ14668
2	FAM136A	ENSG00000035141	ENST00000430566	protein_coding	NOVEL	None	25911	738	245	70524308	70529177	-1	None	FLJ14668
2	FAM136A	ENSG00000035141	ENST00000438759	protein_coding	NOVEL	None	25911	490	162	70524558	70529126	-1	None	FLJ14668
2	FAM136A	ENSG00000035141	ENST00000498665	retained_intron	KNOWN	None	25911	None	None	70527640	70529144	-1	None	FLJ14668
10	C10orf12	ENSG00000155640	ENST00000286067	protein_coding	KNOWN	CCDS7452	23420	3744	1247	98741041	98745582	1	None	DKFZP564P1916, FLJ13022
7	None	ENSG00000235738	ENST00000457211	processed_pseudogene	KNOWN	None	None	None	None	55865639	55866173	-1	None	None
7	CICP12	ENSG00000225270	ENST00000455801	processed_pseudogene	KNOWN	None	37905	None	None	55865727	55866569	1	None	None
7	ZNF716	ENSG00000182111	ENST00000420713	protein_coding	KNOWN	CCDS55112	32458	1488	495	57509883	57533252	1	None	FLJ46189
12	SNRPF	ENSG00000139343	ENST00000266735	protein_coding	KNOWN	CCDS9055	11162	261	86	96252706	96260831	1	None	Sm-F
12	SNRPF	ENSG00000139343	ENST00000551316	retained_intron	KNOWN	None	11162	None	None	96252742	96255619	1	None	Sm-F
12	SNRPF	ENSG00000139343	ENST00000553192	protein_coding	PUTATIVE	None	11162	204	67	96252743	96273779	1	None	Sm-F
12	SNRPF	ENSG00000139343	ENST00000552085	protein_coding	PUTATIVE	None	11162	384	127	96252747	96297606	1	None	Sm-F
12	SNRPF	ENSG00000139343	ENST00000549580	retained_intron	KNOWN	None	11162	None	None	96258857	96260229	1	None	Sm-F
1	EIF2B3	ENSG00000070785	ENST00000439363	protein_coding	KNOWN	None	3259	668	221	45316450	45392327	-1	None	EIF2Bgamma, EIF-2B
1	EIF2B3	ENSG00000070785	ENST00000360403	protein_coding	KNOWN	CCDS517	3259	1359	452	45316450	45452282	-1	None	EIF2Bgamma, EIF-2B
1	EIF2B3	ENSG00000070785	ENST00000486491	processed_transcript	KNOWN	None	3259	None	None	45328676	45341294	-1	None	EIF2Bgamma, EIF-2B
1	EIF2B3	ENSG00000070785	ENST00000372183	protein_coding	KNOWN	CCDS53313	3259	1239	412	45340199	45452259	-1	None	EIF2Bgamma, EIF-2B
1	EIF2B3	ENSG00000070785	ENST00000480675	processed_transcript	KNOWN	None	3259	None	None	45390630	45452271	-1	None	EIF2Bgamma, EIF-2B
1	EIF2B3	ENSG00000070785	ENST00000477953	processed_transcript	KNOWN	None	3259	None	None	45392300	45452258	-1	None	EIF2Bgamma, EIF-2B
1	EIF2B3	ENSG00000070785	ENST00000372182	protein_coding	KNOWN	None	3259	592	196	45406301	45452268	-1	None	EIF2Bgamma, EIF-2B
1	EIF2B3	ENSG00000070785	ENST00000487532	processed_transcript	KNOWN	None	3259	None	None	45424233	45452267	-1	None	EIF2Bgamma, EIF-2B
1	EIF2B3	ENSG00000070785	ENST00000497010	processed_transcript	KNOWN	None	3259	None	None	45435660	45452267	-1	None	EIF2Bgamma, EIF-2B
15	TMEM87A	ENSG00000103978	ENST00000389834	protein_coding	KNOWN	CCDS32205	24522	1668	555	42502730	42565861	-1	None	DKFZP564G2022
15	TMEM87A	ENSG00000103978	ENST00000568067	retained_intron	KNOWN	None	24522	None	None	42503337	42510204	-1	None	DKFZP564G2022
15	TMEM87A	ENSG00000103978	ENST00000564329	retained_intron	KNOWN	None	24522	None	None	42518801	42521002	-1	None	DKFZP564G2022
15	TMEM87A	ENSG00000103978	ENST00000566014	protein_coding	NOVEL	None	24522	583	193	42519003	42529673	-1	None	DKFZP564G2022
15	TMEM87A	ENSG00000103978	ENST00000562946	retained_intron	KNOWN	None	24522	None	None	42519813	42565631	-1	None	DKFZP564G2022
15	TMEM87A	ENSG00000103978	ENST00000569075	nonsense_mediated_decay	KNOWN	None	24522	174	57	42525077	42565630	-1	None	DKFZP564G2022
15	TMEM87A	ENSG00000103978	ENST00000568400	protein_coding	PUTATIVE	None	24522	510	169	42528553	42565276	-1	None	DKFZP564G2022
15	TMEM87A	ENSG00000103978	ENST00000563371	protein_coding	PUTATIVE	None	24522	332	109	42529743	42565221	-1	None	DKFZP564G2022
15	TMEM87A	ENSG00000103978	ENST00000561578	protein_coding	PUTATIVE	None	24522	263	86	42531866	42563799	-1	None	DKFZP564G2022
15	TMEM87A	ENSG00000103978	ENST00000566474	protein_coding	PUTATIVE	None	24522	117	38	42536330	42565058	-1	None	DKFZP564G2022
15	TMEM87A	ENSG00000103978	ENST00000307216	protein_coding	KNOWN	CCDS45243	24522	546	181	42550133	42565634	-1	None	DKFZP564G2022
15	TMEM87A	ENSG00000103978	ENST00000568432	protein_coding	PUTATIVE	None	24522	123	40	42550989	42565276	-1	None	DKFZP564G2022
15	TMEM87A	ENSG00000103978	ENST00000448392	protein_coding	KNOWN	None	24522	1485	494	42503355	42565638	-1	None	DKFZP564G2022
16	METRN	ENSG00000103260	ENST00000568223	protein_coding	KNOWN	CCDS10422	14151	882	293	765115	769655	1	C16orf23	MGC2601
16	METRN	ENSG00000103260	ENST00000570132	nonsense_mediated_decay	KNOWN	None	14151	210	69	765237	767247	1	C16orf23	MGC2601
16	METRN	ENSG00000103260	ENST00000219542	protein_coding	PUTATIVE	None	14151	564	187	765338	767390	1	C16orf23	MGC2601
16	METRN	ENSG00000103260	ENST00000567076	protein_coding	PUTATIVE	None	14151	523	173	765641	767477	1	C16orf23	MGC2601
16	METRN	ENSG00000103260	ENST00000564661	retained_intron	KNOWN	None	14151	None	None	766427	767817	1	C16orf23	MGC2601
16	METRN	ENSG00000103260	ENST00000568415	protein_coding	PUTATIVE	None	14151	483	160	766574	767480	1	C16orf23	MGC2601
6	MAPK14	ENSG00000112062	ENST00000229795	protein_coding	KNOWN	CCDS4815	6876	1083	360	35995488	36079013	1	CSPB1, CSBP1, CSBP2	PRKM14, p38, Mxi2, PRKM15
6	MAPK14	ENSG00000112062	ENST00000229794	protein_coding	KNOWN	CCDS4816	6876	1083	360	35995547	36078532	1	CSPB1, CSBP1, CSBP2	PRKM14, p38, Mxi2, PRKM15
6	MAPK14	ENSG00000112062	ENST00000468133	protein_coding	NOVEL	None	6876	852	283	35995559	36076447	1	CSPB1, CSBP1, CSBP2	PRKM14, p38, Mxi2, PRKM15
6	MAPK14	ENSG00000112062	ENST00000496250	retained_intron	KNOWN	None	6876	None	None	35995935	36065831	1	CSPB1, CSBP1, CSBP2	PRKM14, p38, Mxi2, PRKM15
6	MAPK14	ENSG00000112062	ENST00000491957	nonsense_mediated_decay	KNOWN	None	6876	522	173	35995935	36065831	1	CSPB1, CSBP1, CSBP2	PRKM14, p38, Mxi2, PRKM15
6	MAPK14	ENSG00000112062	ENST00000310795	protein_coding	KNOWN	CCDS4817	6876	924	307	35995935	36076286	1	CSPB1, CSBP1, CSBP2	PRKM14, p38, Mxi2, PRKM15
6	MAPK14	ENSG00000112062	ENST00000474429	nonsense_mediated_decay	KNOWN	None	6876	271	89	35995976	36075306	1	CSPB1, CSBP1, CSBP2	PRKM14, p38, Mxi2, PRKM15
6	MAPK14	ENSG00000112062	ENST00000472333	protein_coding	NOVEL	None	6876	398	131	35996866	36044332	1	CSPB1, CSBP1, CSBP2	PRKM14, p38, Mxi2, PRKM15
6	MAPK14	ENSG00000112062	ENST00000490379	retained_intron	KNOWN	None	6876	None	None	36043642	36044665	1	CSPB1, CSBP1, CSBP2	PRKM14, p38, Mxi2, PRKM15
16	SLC7A6OS	ENSG00000103061	ENST00000568315	nonsense_mediated_decay	KNOWN	None	25807	118	38	68318406	68338034	-1	None	FLJ13291
16	SLC7A6OS	ENSG00000103061	ENST00000263997	protein_coding	KNOWN	CCDS10865	25807	930	309	68331938	68344848	-1	None	FLJ13291
16	SLC7A6OS	ENSG00000103061	ENST00000561933	retained_intron	KNOWN	None	25807	None	None	68332069	68344849	-1	None	FLJ13291
16	SLC7A6OS	ENSG00000103061	ENST00000561590	protein_coding	PUTATIVE	None	25807	360	119	68335903	68338132	-1	None	FLJ13291
16	SLC7A6OS	ENSG00000103061	ENST00000568538	retained_intron	KNOWN	None	25807	None	None	68337635	68344725	-1	None	FLJ13291
5	TXNDC15	ENSG00000113621	ENST00000358387	protein_coding	KNOWN	CCDS4180	20652	1083	360	134209493	134237215	1	C5orf14	2310047H23Rik, FLJ22625
5	TXNDC15	ENSG00000113621	ENST00000511070	nonsense_mediated_decay	KNOWN	None	20652	135	44	134210061	134235729	1	C5orf14	2310047H23Rik, FLJ22625
5	TXNDC15	ENSG00000113621	ENST00000506916	protein_coding	NOVEL	None	20652	465	154	134210066	134223752	1	C5orf14	2310047H23Rik, FLJ22625
5	TXNDC15	ENSG00000113621	ENST00000507024	nonsense_mediated_decay	KNOWN	None	20652	135	44	134210087	134237201	1	C5orf14	2310047H23Rik, FLJ22625
5	TXNDC15	ENSG00000113621	ENST00000508810	protein_coding	PUTATIVE	None	20652	538	178	134210786	134223870	1	C5orf14	2310047H23Rik, FLJ22625
5	TXNDC15	ENSG00000113621	ENST00000508779	protein_coding	PUTATIVE	None	20652	1034	343	134211032	134235818	1	C5orf14	2310047H23Rik, FLJ22625
5	TXNDC15	ENSG00000113621	ENST00000506350	processed_transcript	KNOWN	None	20652	None	None	134223843	134231966	1	C5orf14	2310047H23Rik, FLJ22625
5	TXNDC15	ENSG00000113621	ENST00000505174	retained_intron	KNOWN	None	20652	None	None	134227868	134235589	1	C5orf14	2310047H23Rik, FLJ22625
5	TXNDC15	ENSG00000113621	ENST00000509954	protein_coding	NOVEL	None	20652	346	114	134229316	134235547	1	C5orf14	2310047H23Rik, FLJ22625
5	TXNDC15	ENSG00000113621	ENST00000502625	processed_transcript	KNOWN	None	20652	None	None	134235627	134237201	1	C5orf14	2310047H23Rik, FLJ22625
5	TXNDC15	ENSG00000113621	ENST00000546290	protein_coding	KNOWN	None	20652	1014	337	134211032	134235818	1	C5orf14	2310047H23Rik, FLJ22625
6	C6orf203	ENSG00000130349	ENST00000311381	protein_coding	KNOWN	CCDS5058	17971	723	240	107349417	107372546	1	None	HSPC230, PRED31
6	C6orf203	ENSG00000130349	ENST00000489790	processed_transcript	KNOWN	None	17971	None	None	107361196	107362111	1	None	HSPC230, PRED31
6	C6orf203	ENSG00000130349	ENST00000443043	protein_coding	KNOWN	CCDS55046	17971	738	245	107349407	107372544	1	None	HSPC230, PRED31
6	C6orf203	ENSG00000130349	ENST00000405204	protein_coding	KNOWN	CCDS5058	17971	723	240	107349407	107372544	1	None	HSPC230, PRED31
6	None	ENSG00000251762	ENST00000515953	snoRNA	NOVEL	None	None	None	None	7040693	7040779	-1	None	None
6	None	ENSG00000225092	ENST00000451355	sense_intronic	KNOWN	None	None	None	None	7183316	7185520	1	None	None
6	None	ENSG00000201483	ENST00000364613	misc_RNA	NOVEL	None	None	None	None	7187815	7187919	-1	None	None
6	None	ENSG00000238221	ENST00000379928	antisense	KNOWN	None	None	None	None	7276264	7299105	1	None	None
1	TNFAIP8L2	ENSG00000163154	ENST00000368910	protein_coding	KNOWN	CCDS985	26277	555	184	151129105	151132225	1	None	FLJ23467
7	C7orf66	ENSG00000205174	ENST00000379007	protein_coding	PUTATIVE	CCDS34735	33712	348	115	108524032	108524644	-1	None	None
6	None	ENSG00000219375	ENST00000404326	processed_pseudogene	KNOWN	None	None	None	None	7331519	7331909	-1	None	None
7	None	ENSG00000230000	ENST00000456890	protein_coding	KNOWN	None	None	447	148	62809239	62812151	1	None	None
7	None	ENSG00000268181	ENST00000593633	protein_coding	NOVEL	None	None	447	148	62858414	62858860	-1	None	None
7	ZNF727	ENSG00000257482	ENST00000550760	protein_coding	KNOWN	CCDS55113	22785	1500	499	63505821	63538927	1	None	None
12	LALBA	ENSG00000167531	ENST00000301046	protein_coding	KNOWN	CCDS8765	6480	429	142	48961467	48963829	-1	None	LYZL7
12	LALBA	ENSG00000167531	ENST00000549817	protein_coding	PUTATIVE	None	6480	372	123	48961471	48963849	-1	None	LYZL7
15	PLIN1	ENSG00000166819	ENST00000300055	protein_coding	KNOWN	CCDS10353	9076	1569	522	90207596	90222633	-1	PLIN	None
15	PLIN1	ENSG00000166819	ENST00000560330	protein_coding	PUTATIVE	None	9076	222	73	90207598	90210871	-1	PLIN	None
15	PLIN1	ENSG00000166819	ENST00000430628	protein_coding	KNOWN	CCDS10353	9076	1569	522	90207603	90222658	-1	PLIN	None
15	PLIN1	ENSG00000166819	ENST00000531697	retained_intron	KNOWN	None	9076	None	None	90219857	90222648	-1	PLIN	None
9	None	ENSG00000233575	ENST00000432346	processed_pseudogene	KNOWN	None	None	None	None	1328664	1328987	1	None	None
1	SCNM1	ENSG00000163156	ENST00000602841	protein_coding	KNOWN	CCDS55636	23136	588	195	151129140	151141609	1	None	MGC3180
1	SCNM1	ENSG00000163156	ENST00000461862	processed_transcript	KNOWN	None	23136	None	None	151138498	151140455	1	None	MGC3180
1	SCNM1	ENSG00000163156	ENST00000368905	protein_coding	KNOWN	CCDS987	23136	693	230	151138518	151142773	1	None	MGC3180
1	SCNM1	ENSG00000163156	ENST00000471039	processed_transcript	PUTATIVE	None	23136	None	None	151138542	151139426	1	None	MGC3180
1	SCNM1	ENSG00000163156	ENST00000368902	protein_coding	KNOWN	CCDS55636	23136	588	195	151138555	151141614	1	None	MGC3180
1	SCNM1	ENSG00000163156	ENST00000497147	processed_transcript	KNOWN	None	23136	None	None	151139145	151141587	1	None	MGC3180
1	SCNM1	ENSG00000163156	ENST00000459799	processed_transcript	KNOWN	None	23136	None	None	151140344	151141609	1	None	MGC3180
11	SRPR	ENSG00000182934	ENST00000332118	protein_coding	KNOWN	CCDS31717	11307	1917	638	126132814	126138854	-1	None	SRP-alpha, Sralpha
11	SRPR	ENSG00000182934	ENST00000532259	protein_coding	NOVEL	CCDS53722	11307	1833	610	126133369	126138877	-1	None	SRP-alpha, Sralpha
11	SRPR	ENSG00000182934	ENST00000532268	retained_intron	KNOWN	None	11307	None	None	126133736	126134650	-1	None	SRP-alpha, Sralpha
11	SRPR	ENSG00000182934	ENST00000531104	retained_intron	KNOWN	None	11307	None	None	126134916	126135552	-1	None	SRP-alpha, Sralpha
11	SRPR	ENSG00000182934	ENST00000527817	retained_intron	KNOWN	None	11307	None	None	126134975	126136296	-1	None	SRP-alpha, Sralpha
11	SRPR	ENSG00000182934	ENST00000528744	retained_intron	KNOWN	None	11307	None	None	126137069	126138815	-1	None	SRP-alpha, Sralpha
11	SRPR	ENSG00000182934	ENST00000530680	processed_transcript	KNOWN	None	11307	None	None	126137473	126139039	-1	None	SRP-alpha, Sralpha
7	ZNF679	ENSG00000197123	ENST00000421025	protein_coding	KNOWN	CCDS47592	28650	1236	411	63688852	63727309	1	None	MGC42415
7	ZNF679	ENSG00000197123	ENST00000255746	protein_coding	KNOWN	CCDS47592	28650	1236	411	63709496	63727300	1	None	MGC42415
14	ISCA2	ENSG00000165898	ENST00000556816	protein_coding	KNOWN	CCDS32122	19857	465	154	74960423	74963809	1	HBLD1	ISA2
14	ISCA2	ENSG00000165898	ENST00000298818	protein_coding	PUTATIVE	None	19857	327	108	74960459	74962069	1	HBLD1	ISA2
14	ISCA2	ENSG00000165898	ENST00000554924	protein_coding	PUTATIVE	None	19857	183	60	74960468	74961833	1	HBLD1	ISA2
14	ISCA2	ENSG00000165898	ENST00000555139	retained_intron	KNOWN	None	19857	None	None	74960475	74961725	1	HBLD1	ISA2
10	ARHGAP19-SLIT1	ENSG00000269891	ENST00000475285	retained_intron	KNOWN	None	48348	None	None	98912802	98915190	-1	None	None
10	ARHGAP19-SLIT1	ENSG00000269891	ENST00000479633	nonsense_mediated_decay	KNOWN	None	48348	1554	517	98912803	99052394	-1	None	None
10	ARHGAP19-SLIT1	ENSG00000269891	ENST00000453547	protein_coding	KNOWN	None	48348	1554	517	98757795	99052384	-1	None	None
10	ARHGAP19-SLIT1	ENSG00000269891	ENST00000316676	protein_coding	KNOWN	None	48348	1485	494	98978996	99052413	-1	None	None
10	ARHGAP19-SLIT1	ENSG00000269891	ENST00000358308	protein_coding	KNOWN	None	48348	1398	465	98988830	99052413	-1	None	None
1	TATDN3	ENSG00000203705	ENST00000532324	protein_coding	NOVEL	CCDS53475	27010	846	281	212965170	212988939	1	None	None
1	TATDN3	ENSG00000203705	ENST00000366974	protein_coding	KNOWN	CCDS31019	27010	825	274	212965170	212989968	1	None	None
1	TATDN3	ENSG00000203705	ENST00000530441	protein_coding	PUTATIVE	None	27010	186	61	212965193	212977846	1	None	None
1	TATDN3	ENSG00000203705	ENST00000526641	protein_coding	NOVEL	CCDS53477	27010	762	253	212965212	212988757	1	None	None
1	TATDN3	ENSG00000203705	ENST00000531963	protein_coding	PUTATIVE	CCDS53476	27010	723	240	212965226	212988939	1	None	None
1	TATDN3	ENSG00000203705	ENST00000366973	protein_coding	KNOWN	CCDS41465	27010	822	273	212965226	212989959	1	None	None
1	TATDN3	ENSG00000203705	ENST00000526997	protein_coding	PUTATIVE	None	27010	576	191	212965248	212988567	1	None	None
1	TATDN3	ENSG00000203705	ENST00000533650	nonsense_mediated_decay	KNOWN	None	27010	306	101	212965253	212985624	1	None	None
1	TATDN3	ENSG00000203705	ENST00000532433	retained_intron	KNOWN	None	27010	None	None	212965263	212970319	1	None	None
1	TATDN3	ENSG00000203705	ENST00000488246	protein_coding	PUTATIVE	None	27010	433	143	212965266	212977840	1	None	None
1	TATDN3	ENSG00000203705	ENST00000525574	nonsense_mediated_decay	KNOWN	None	27010	182	59	212965268	212989968	1	None	None
1	TATDN3	ENSG00000203705	ENST00000497768	processed_transcript	KNOWN	None	27010	None	None	212966265	212976093	1	None	None
1	TATDN3	ENSG00000203705	ENST00000530399	protein_coding	PUTATIVE	None	27010	484	160	212968025	212977993	1	None	None
1	TATDN3	ENSG00000203705	ENST00000525569	processed_transcript	KNOWN	None	27010	None	None	212968212	212988517	1	None	None
1	TATDN3	ENSG00000203705	ENST00000530392	processed_transcript	KNOWN	None	27010	None	None	212968327	212977866	1	None	None
1	TATDN3	ENSG00000203705	ENST00000606486	protein_coding	PUTATIVE	None	27010	95	30	212970474	212971024	1	None	None
1	TATDN3	ENSG00000203705	ENST00000527693	protein_coding	PUTATIVE	None	27010	125	40	212977961	212989186	1	None	None
15	CYP19A1	ENSG00000137869	ENST00000396402	protein_coding	KNOWN	CCDS10139	2594	1512	503	51500254	51630807	-1	CYP19	ARO, P-450AROM, CPV1, ARO1, CYAR, aromatase
15	CYP19A1	ENSG00000137869	ENST00000396404	protein_coding	KNOWN	CCDS10139	2594	1512	503	51502378	51630793	-1	CYP19	ARO, P-450AROM, CPV1, ARO1, CYAR, aromatase
15	CYP19A1	ENSG00000137869	ENST00000559878	protein_coding	KNOWN	CCDS10139	2594	1512	503	51502711	51535261	-1	CYP19	ARO, P-450AROM, CPV1, ARO1, CYAR, aromatase
15	CYP19A1	ENSG00000137869	ENST00000490076	retained_intron	KNOWN	None	2594	None	None	51503178	51508184	-1	CYP19	ARO, P-450AROM, CPV1, ARO1, CYAR, aromatase
15	CYP19A1	ENSG00000137869	ENST00000559653	protein_coding	PUTATIVE	None	2594	415	137	51504456	51507421	-1	CYP19	ARO, P-450AROM, CPV1, ARO1, CYAR, aromatase
15	CYP19A1	ENSG00000137869	ENST00000557934	non_stop_decay	KNOWN	None	2594	1056	351	51504724	51630793	-1	CYP19	ARO, P-450AROM, CPV1, ARO1, CYAR, aromatase
15	CYP19A1	ENSG00000137869	ENST00000439712	non_stop_decay	KNOWN	None	2594	1056	351	51504724	51630795	-1	CYP19	ARO, P-450AROM, CPV1, ARO1, CYAR, aromatase
15	CYP19A1	ENSG00000137869	ENST00000558066	retained_intron	KNOWN	None	2594	None	None	51507229	51514551	-1	CYP19	ARO, P-450AROM, CPV1, ARO1, CYAR, aromatase
15	CYP19A1	ENSG00000137869	ENST00000561075	protein_coding	NOVEL	None	2594	732	243	51507379	51630793	-1	CYP19	ARO, P-450AROM, CPV1, ARO1, CYAR, aromatase
15	CYP19A1	ENSG00000137869	ENST00000558328	protein_coding	KNOWN	None	2594	850	282	51507908	51630777	-1	CYP19	ARO, P-450AROM, CPV1, ARO1, CYAR, aromatase
15	CYP19A1	ENSG00000137869	ENST00000478421	processed_transcript	KNOWN	None	2594	None	None	51507984	51510745	-1	CYP19	ARO, P-450AROM, CPV1, ARO1, CYAR, aromatase
15	CYP19A1	ENSG00000137869	ENST00000453807	protein_coding	KNOWN	None	2594	726	241	51510755	51630798	-1	CYP19	ARO, P-450AROM, CPV1, ARO1, CYAR, aromatase
15	CYP19A1	ENSG00000137869	ENST00000405913	protein_coding	PUTATIVE	None	2594	657	218	51513576	51535208	-1	CYP19	ARO, P-450AROM, CPV1, ARO1, CYAR, aromatase
15	CYP19A1	ENSG00000137869	ENST00000557858	protein_coding	PUTATIVE	None	2594	657	218	51514461	51630772	-1	CYP19	ARO, P-450AROM, CPV1, ARO1, CYAR, aromatase
15	CYP19A1	ENSG00000137869	ENST00000559980	protein_coding	KNOWN	None	2594	516	171	51514658	51630795	-1	CYP19	ARO, P-450AROM, CPV1, ARO1, CYAR, aromatase
15	CYP19A1	ENSG00000137869	ENST00000405011	protein_coding	KNOWN	None	2594	498	165	51514676	51630794	-1	CYP19	ARO, P-450AROM, CPV1, ARO1, CYAR, aromatase
15	CYP19A1	ENSG00000137869	ENST00000559646	protein_coding	KNOWN	None	2594	494	163	51514680	51610689	-1	CYP19	ARO, P-450AROM, CPV1, ARO1, CYAR, aromatase
15	CYP19A1	ENSG00000137869	ENST00000561066	processed_transcript	PUTATIVE	None	2594	None	None	51569333	51570357	-1	CYP19	ARO, P-450AROM, CPV1, ARO1, CYAR, aromatase
15	CYP19A1	ENSG00000137869	ENST00000492852	processed_transcript	KNOWN	None	2594	None	None	51604424	51630778	-1	CYP19	ARO, P-450AROM, CPV1, ARO1, CYAR, aromatase
15	CYP19A1	ENSG00000137869	ENST00000260433	protein_coding	KNOWN	CCDS10139	2594	1512	503	51500255	51616121	-1	CYP19	ARO, P-450AROM, CPV1, ARO1, CYAR, aromatase
3	NDUFAF3	ENSG00000178057	ENST00000326912	protein_coding	KNOWN	CCDS2785	29918	384	127	49057892	49060720	1	C3orf60	MGC10527, DKFZP564J0123, E3-3, 2P1
3	NDUFAF3	ENSG00000178057	ENST00000326925	protein_coding	KNOWN	CCDS2784	29918	555	184	49058444	49060928	1	C3orf60	MGC10527, DKFZP564J0123, E3-3, 2P1
3	NDUFAF3	ENSG00000178057	ENST00000395458	protein_coding	KNOWN	CCDS2785	29918	384	127	49058618	49060720	1	C3orf60	MGC10527, DKFZP564J0123, E3-3, 2P1
3	NDUFAF3	ENSG00000178057	ENST00000451378	protein_coding	KNOWN	CCDS2785	29918	384	127	49059038	49060721	1	C3orf60	MGC10527, DKFZP564J0123, E3-3, 2P1
3	NDUFAF3	ENSG00000178057	ENST00000496152	retained_intron	KNOWN	None	29918	None	None	49059546	49060720	1	C3orf60	MGC10527, DKFZP564J0123, E3-3, 2P1
3	NDUFAF3	ENSG00000178057	ENST00000480392	retained_intron	KNOWN	None	29918	None	None	49059554	49060609	1	C3orf60	MGC10527, DKFZP564J0123, E3-3, 2P1
19	VSTM1	ENSG00000189068	ENST00000419106	protein_coding	NOVEL	None	29455	381	126	54544079	54561677	-1	None	UNQ3033
19	VSTM1	ENSG00000189068	ENST00000338372	protein_coding	KNOWN	CCDS12872	29455	711	236	54544079	54567207	-1	None	UNQ3033
19	VSTM1	ENSG00000189068	ENST00000447872	nonsense_mediated_decay	KNOWN	None	29455	525	174	54544083	54567207	-1	None	UNQ3033
19	VSTM1	ENSG00000189068	ENST00000376626	protein_coding	KNOWN	None	29455	618	205	54544087	54567207	-1	None	UNQ3033
19	VSTM1	ENSG00000189068	ENST00000366170	protein_coding	KNOWN	None	29455	447	148	54544204	54567042	-1	None	UNQ3033
19	VSTM1	ENSG00000189068	ENST00000425006	protein_coding	KNOWN	None	29455	432	143	54544204	54567042	-1	None	UNQ3033
7	ZNF736	ENSG00000234444	ENST00000493036	processed_transcript	KNOWN	None	32467	None	None	63767837	63774395	1	None	None
7	ZNF736	ENSG00000234444	ENST00000465343	processed_transcript	KNOWN	None	32467	None	None	63767916	63770851	1	None	None
7	ZNF736	ENSG00000234444	ENST00000492322	retained_intron	KNOWN	None	32467	None	None	63768535	63769169	1	None	None
7	ZNF736	ENSG00000234444	ENST00000606716	processed_transcript	KNOWN	None	32467	None	None	63770437	63770860	1	None	None
7	ZNF736	ENSG00000234444	ENST00000438373	protein_coding	NOVEL	None	32467	30	9	63771206	63796663	1	None	None
7	ZNF736	ENSG00000234444	ENST00000488621	retained_intron	KNOWN	None	32467	None	None	63774392	63797740	1	None	None
7	ZNF736	ENSG00000234444	ENST00000423484	protein_coding	NOVEL	CCDS55114	32467	1284	427	63774407	63809884	1	None	None
7	ZNF736	ENSG00000234444	ENST00000355095	protein_coding	KNOWN	CCDS55114	32467	1284	427	63773186	63810017	1	None	None
1	LYSMD1	ENSG00000163155	ENST00000368908	protein_coding	KNOWN	CCDS986	32070	684	227	151132224	151138395	-1	None	SB145, MGC35223, RP11-68I18.5
1	LYSMD1	ENSG00000163155	ENST00000440902	protein_coding	KNOWN	CCDS44218	32070	540	179	151133061	151138424	-1	None	SB145, MGC35223, RP11-68I18.5
X	SSX9	ENSG00000204648	ENST00000376909	protein_coding	KNOWN	None	19655	567	188	48154885	48165675	-1	None	None
X	SSX9	ENSG00000204648	ENST00000407081	protein_coding	KNOWN	None	19655	567	188	48156255	48165614	-1	None	None
7	None	ENSG00000229762	ENST00000443044	processed_pseudogene	KNOWN	None	None	None	None	55878472	55879104	-1	None	None
5	MED7	ENSG00000155868	ENST00000286317	protein_coding	KNOWN	CCDS4334	2378	702	233	156564423	156570195	-1	CRSP9	CRSP33
5	MED7	ENSG00000155868	ENST00000524289	protein_coding	KNOWN	None	2378	586	194	156565857	156586030	-1	CRSP9	CRSP33
5	MED7	ENSG00000155868	ENST00000420343	protein_coding	KNOWN	CCDS4334	2378	702	233	156565453	156569786	-1	CRSP9	CRSP33
12	ACSM4	ENSG00000215009	ENST00000399422	protein_coding	NOVEL	CCDS44825	32016	1743	580	7456880	7481320	1	None	None
12	ACSM4	ENSG00000215009	ENST00000533292	retained_intron	KNOWN	None	32016	None	None	7463269	7471113	1	None	None
12	TUBA1C	ENSG00000167553	ENST00000549554	processed_transcript	KNOWN	None	20768	None	None	49582519	49602684	1	TUBA6	MGC14580, MGC10851, bcm948
12	TUBA1C	ENSG00000167553	ENST00000550574	processed_transcript	KNOWN	None	20768	None	None	49602329	49650272	1	TUBA6	MGC14580, MGC10851, bcm948
12	TUBA1C	ENSG00000167553	ENST00000541364	protein_coding	PUTATIVE	None	20768	1560	519	49621709	49667114	1	TUBA6	MGC14580, MGC10851, bcm948
12	TUBA1C	ENSG00000167553	ENST00000549818	nonsense_mediated_decay	KNOWN	None	20768	267	88	49621710	49663310	1	TUBA6	MGC14580, MGC10851, bcm948
12	TUBA1C	ENSG00000167553	ENST00000552448	nonsense_mediated_decay	KNOWN	None	20768	267	88	49621713	49667111	1	TUBA6	MGC14580, MGC10851, bcm948
12	TUBA1C	ENSG00000167553	ENST00000552125	nonsense_mediated_decay	KNOWN	None	20768	247	81	49621826	49663720	1	TUBA6	MGC14580, MGC10851, bcm948
12	TUBA1C	ENSG00000167553	ENST00000301072	protein_coding	KNOWN	CCDS8782	20768	1350	449	49658690	49667109	1	TUBA6	MGC14580, MGC10851, bcm948
12	TUBA1C	ENSG00000167553	ENST00000549183	protein_coding	PUTATIVE	None	20768	393	130	49658864	49663979	1	TUBA6	MGC14580, MGC10851, bcm948
12	TUBA1C	ENSG00000167553	ENST00000548470	retained_intron	KNOWN	None	20768	None	None	49663569	49666949	1	TUBA6	MGC14580, MGC10851, bcm948
1	HECTD3	ENSG00000126107	ENST00000486132	processed_transcript	KNOWN	None	26117	None	None	45468212	45471260	-1	None	FLJ21156
1	HECTD3	ENSG00000126107	ENST00000372168	protein_coding	KNOWN	None	26117	1416	471	45468212	45474223	-1	None	FLJ21156
1	HECTD3	ENSG00000126107	ENST00000372172	protein_coding	KNOWN	CCDS41318	26117	2586	861	45468212	45477001	-1	None	FLJ21156
1	HECTD3	ENSG00000126107	ENST00000486296	processed_transcript	KNOWN	None	26117	None	None	45469527	45471896	-1	None	FLJ21156
1	HECTD3	ENSG00000126107	ENST00000466423	processed_transcript	KNOWN	None	26117	None	None	45469732	45472900	-1	None	FLJ21156
1	HECTD3	ENSG00000126107	ENST00000487488	processed_transcript	KNOWN	None	26117	None	None	45471317	45472639	-1	None	FLJ21156
1	HECTD3	ENSG00000126107	ENST00000484564	processed_transcript	KNOWN	None	26117	None	None	45471745	45472788	-1	None	FLJ21156
7	None	ENSG00000225018	ENST00000420654	processed_pseudogene	KNOWN	None	None	None	None	55944431	55944717	-1	None	None
X	GDI1	ENSG00000203879	ENST00000447750	protein_coding	KNOWN	CCDS35452	4226	1344	447	153665266	153671814	1	MRX48, MRX41, GDIL	RABGDIA, XAP-4, OPHN2, FLJ41411
X	GDI1	ENSG00000203879	ENST00000475976	processed_transcript	KNOWN	None	4226	None	None	153665500	153667597	1	MRX48, MRX41, GDIL	RABGDIA, XAP-4, OPHN2, FLJ41411
X	GDI1	ENSG00000203879	ENST00000445564	nonsense_mediated_decay	KNOWN	None	4226	123	40	153665500	153668319	1	MRX48, MRX41, GDIL	RABGDIA, XAP-4, OPHN2, FLJ41411
X	GDI1	ENSG00000203879	ENST00000434049	nonsense_mediated_decay	KNOWN	None	4226	444	147	153665510	153668536	1	MRX48, MRX41, GDIL	RABGDIA, XAP-4, OPHN2, FLJ41411
X	GDI1	ENSG00000203879	ENST00000415109	nonsense_mediated_decay	KNOWN	None	4226	141	46	153665512	153667398	1	MRX48, MRX41, GDIL	RABGDIA, XAP-4, OPHN2, FLJ41411
X	GDI1	ENSG00000203879	ENST00000481304	retained_intron	KNOWN	None	4226	None	None	153665535	153668847	1	MRX48, MRX41, GDIL	RABGDIA, XAP-4, OPHN2, FLJ41411
X	GDI1	ENSG00000203879	ENST00000485143	processed_transcript	KNOWN	None	4226	None	None	153666006	153667439	1	MRX48, MRX41, GDIL	RABGDIA, XAP-4, OPHN2, FLJ41411
X	GDI1	ENSG00000203879	ENST00000491154	retained_intron	KNOWN	None	4226	None	None	153666352	153671812	1	MRX48, MRX41, GDIL	RABGDIA, XAP-4, OPHN2, FLJ41411
X	GDI1	ENSG00000203879	ENST00000489589	retained_intron	KNOWN	None	4226	None	None	153668340	153670589	1	MRX48, MRX41, GDIL	RABGDIA, XAP-4, OPHN2, FLJ41411
X	GDI1	ENSG00000203879	ENST00000471972	processed_transcript	PUTATIVE	None	4226	None	None	153668615	153669737	1	MRX48, MRX41, GDIL	RABGDIA, XAP-4, OPHN2, FLJ41411
X	GDI1	ENSG00000203879	ENST00000468483	retained_intron	KNOWN	None	4226	None	None	153668871	153671812	1	MRX48, MRX41, GDIL	RABGDIA, XAP-4, OPHN2, FLJ41411
X	GDI1	ENSG00000203879	ENST00000476540	retained_intron	KNOWN	None	4226	None	None	153668998	153670445	1	MRX48, MRX41, GDIL	RABGDIA, XAP-4, OPHN2, FLJ41411
X	GDI1	ENSG00000203879	ENST00000465640	processed_transcript	KNOWN	None	4226	None	None	153670113	153671075	1	MRX48, MRX41, GDIL	RABGDIA, XAP-4, OPHN2, FLJ41411
X	GDI1	ENSG00000203879	ENST00000460984	retained_intron	KNOWN	None	4226	None	None	153670396	153671065	1	MRX48, MRX41, GDIL	RABGDIA, XAP-4, OPHN2, FLJ41411
7	None	ENSG00000227499	ENST00000452998	processed_pseudogene	KNOWN	None	None	None	None	55945605	55945857	1	None	None
7	RN7SL64P	ENSG00000265676	ENST00000580923	misc_RNA	KNOWN	None	46080	None	None	55960419	55960689	1	None	None
7	None	ENSG00000206603	ENST00000383876	snoRNA	NOVEL	None	None	None	None	56123058	56123195	1	None	None
7	SNORA15	ENSG00000207168	ENST00000384439	snoRNA	KNOWN	None	32604	None	None	56128163	56128295	1	None	ACA15
6	BEND3	ENSG00000178409	ENST00000369042	protein_coding	KNOWN	CCDS34507	23040	2487	828	107386386	107436473	-1	KIAA1553	None
6	BEND3	ENSG00000178409	ENST00000429433	protein_coding	KNOWN	CCDS34507	23040	2487	828	107386401	107435636	-1	KIAA1553	None
7	None	ENSG00000238673	ENST00000458988	snoRNA	NOVEL	None	None	None	None	56168352	56168445	1	None	None
X	SSX3	ENSG00000165584	ENST00000298396	protein_coding	KNOWN	CCDS14291	11337	567	188	48205863	48216101	-1	None	CT5.3
X	SSX3	ENSG00000165584	ENST00000376895	protein_coding	KNOWN	None	11337	303	100	48206061	48211682	-1	None	CT5.3
X	SSX3	ENSG00000165584	ENST00000376893	protein_coding	KNOWN	CCDS35239	11337	513	170	48207692	48216142	-1	None	CT5.3
7	None	ENSG00000230191	ENST00000442064	processed_pseudogene	KNOWN	None	None	None	None	56230838	56231226	1	None	None
7	None	ENSG00000233028	ENST00000450065	processed_pseudogene	KNOWN	None	None	None	None	56243327	56244105	1	None	None
6	None	ENSG00000220472	ENST00000407940	processed_pseudogene	KNOWN	None	None	None	None	7339072	7339801	-1	None	None
7	None	ENSG00000269185	ENST00000602237	protein_coding	KNOWN	None	None	267	88	108540389	108540655	-1	None	None
1	TMOD4	ENSG00000163157	ENST00000466891	protein_coding	PUTATIVE	None	11874	371	122	151142462	151144791	-1	None	Sk-Tmod
1	TMOD4	ENSG00000163157	ENST00000295314	protein_coding	KNOWN	CCDS988	11874	1038	345	151142463	151148492	-1	None	Sk-Tmod
1	TMOD4	ENSG00000163157	ENST00000463543	nonsense_mediated_decay	KNOWN	None	11874	132	43	151142464	151148457	-1	None	Sk-Tmod
1	TMOD4	ENSG00000163157	ENST00000488488	processed_transcript	KNOWN	None	11874	None	None	151143909	151148425	-1	None	Sk-Tmod
1	TMOD4	ENSG00000163157	ENST00000441701	protein_coding	KNOWN	None	11874	426	141	151144805	151148452	-1	None	Sk-Tmod
1	TMOD4	ENSG00000163157	ENST00000601585	processed_transcript	KNOWN	None	11874	None	None	151148093	151148760	-1	None	Sk-Tmod
1	TMOD4	ENSG00000163157	ENST00000416280	protein_coding	KNOWN	None	11874	831	276	151142464	151148457	-1	None	Sk-Tmod
2	NTSR2	ENSG00000169006	ENST00000306928	protein_coding	KNOWN	CCDS1681	8040	1233	410	11798304	11810290	-1	None	NTR2
7	CCNJP1	ENSG00000227491	ENST00000450600	processed_pseudogene	KNOWN	None	22512	None	None	56296327	56297475	-1	CCNJP	None
7	None	ENSG00000265887	ENST00000584159	miRNA	NOVEL	None	None	None	None	56337476	56337544	-1	None	None
19	None	ENSG00000186838	ENST00000335426	protein_coding	KNOWN	CCDS54266	None	1041	346	40005753	40011326	1	None	None
19	None	ENSG00000186838	ENST00000597876	retained_intron	KNOWN	None	None	None	None	40006086	40009448	1	None	None
19	None	ENSG00000186838	ENST00000600586	nonsense_mediated_decay	KNOWN	None	None	221	72	40006454	40010904	1	None	None
19	None	ENSG00000186838	ENST00000423711	protein_coding	KNOWN	None	None	1041	346	40005753	40011326	1	None	None
19	BCL2L12	ENSG00000126453	ENST00000441864	protein_coding	KNOWN	CCDS46144	13787	1002	333	50168823	50177116	1	None	None
19	BCL2L12	ENSG00000126453	ENST00000246785	protein_coding	KNOWN	CCDS12776	13787	1005	334	50168823	50177173	1	None	None
19	BCL2L12	ENSG00000126453	ENST00000594157	protein_coding	PUTATIVE	None	13787	394	130	50169218	50177173	1	None	None
19	BCL2L12	ENSG00000126453	ENST00000598979	nonsense_mediated_decay	KNOWN	None	13787	394	130	50169218	50177173	1	None	None
19	BCL2L12	ENSG00000126453	ENST00000601168	retained_intron	KNOWN	None	13787	None	None	50169255	50170287	1	None	None
19	BCL2L12	ENSG00000126453	ENST00000600947	protein_coding	PUTATIVE	None	13787	494	163	50169256	50177173	1	None	None
19	BCL2L12	ENSG00000126453	ENST00000598306	protein_coding	PUTATIVE	None	13787	342	113	50169270	50177173	1	None	None
19	BCL2L12	ENSG00000126453	ENST00000594793	processed_transcript	KNOWN	None	13787	None	None	50175366	50177172	1	None	None
19	BCL2L12	ENSG00000126453	ENST00000246784	protein_coding	KNOWN	None	13787	531	176	50169081	50177172	1	None	None
1	C1orf227	ENSG00000185523	ENST00000332912	protein_coding	KNOWN	CCDS31020	33709	297	98	213003483	213020991	-1	None	LOC149643
7	IMMP2L	ENSG00000184903	ENST00000405709	protein_coding	KNOWN	CCDS5753	14598	528	175	110303110	111202347	-1	None	IMP2
7	IMMP2L	ENSG00000184903	ENST00000331762	protein_coding	KNOWN	CCDS5753	14598	528	175	110303110	111202573	-1	None	IMP2
7	IMMP2L	ENSG00000184903	ENST00000487733	processed_transcript	PUTATIVE	None	14598	None	None	110303264	110603621	-1	None	IMP2
7	IMMP2L	ENSG00000184903	ENST00000489381	processed_transcript	KNOWN	None	14598	None	None	110303357	111030806	-1	None	IMP2
7	IMMP2L	ENSG00000184903	ENST00000452895	protein_coding	KNOWN	CCDS5753	14598	528	175	110303472	111202543	-1	None	IMP2
7	IMMP2L	ENSG00000184903	ENST00000450877	protein_coding	PUTATIVE	None	14598	474	157	110303482	111032971	-1	None	IMP2
7	IMMP2L	ENSG00000184903	ENST00000447215	protein_coding	PUTATIVE	None	14598	333	110	110602364	111201980	-1	None	IMP2
7	IMMP2L	ENSG00000184903	ENST00000492938	processed_transcript	KNOWN	None	14598	None	None	111123490	111201957	-1	None	IMP2
7	IMMP2L	ENSG00000184903	ENST00000452753	protein_coding	KNOWN	None	14598	237	78	111127296	111202560	-1	None	IMP2
7	IMMP2L	ENSG00000184903	ENST00000415362	protein_coding	KNOWN	CCDS5753	14598	528	175	110303658	111161503	-1	None	IMP2
7	IMMP2L	ENSG00000184903	ENST00000437687	protein_coding	KNOWN	None	14598	333	110	110603119	111161503	-1	None	IMP2
14	HOMEZ	ENSG00000215271	ENST00000357460	protein_coding	KNOWN	CCDS45085	20164	1653	550	23741666	23755326	-1	KIAA1443	None
14	HOMEZ	ENSG00000215271	ENST00000561013	protein_coding	PUTATIVE	None	20164	1659	552	23744696	23768656	-1	KIAA1443	None
14	HOMEZ	ENSG00000215271	ENST00000606731	protein_coding	NOVEL	None	20164	811	269	23745114	23746152	-1	KIAA1443	None
14	HOMEZ	ENSG00000215271	ENST00000606006	protein_coding	NOVEL	None	20164	532	176	23745906	23747309	-1	KIAA1443	None
14	HOMEZ	ENSG00000215271	ENST00000561396	processed_transcript	KNOWN	None	20164	None	None	23754124	23755213	-1	KIAA1443	None
14	HOMEZ	ENSG00000215271	ENST00000558278	processed_transcript	KNOWN	None	20164	None	None	23754200	23755326	-1	KIAA1443	None
14	HOMEZ	ENSG00000215271	ENST00000431326	protein_coding	KNOWN	None	20164	1659	552	23744697	23762787	-1	KIAA1443	None
6	PDSS2	ENSG00000164494	ENST00000369037	protein_coding	KNOWN	CCDS5059	23041	1200	399	107473761	107780767	-1	C6orf210	bA59I9.3
6	PDSS2	ENSG00000164494	ENST00000449027	protein_coding	KNOWN	None	23041	241	79	107519045	107533363	-1	C6orf210	bA59I9.3
6	PDSS2	ENSG00000164494	ENST00000369031	protein_coding	KNOWN	None	23041	723	240	107585390	107780768	-1	C6orf210	bA59I9.3
6	PDSS2	ENSG00000164494	ENST00000453874	protein_coding	KNOWN	None	23041	894	297	107475650	107780760	-1	C6orf210	bA59I9.3
1	VPS72	ENSG00000163159	ENST00000491094	retained_intron	KNOWN	None	11644	None	None	151142463	151162664	-1	TCFL1	YL-1, YL1, Swc2
1	VPS72	ENSG00000163159	ENST00000368892	protein_coding	KNOWN	CCDS989	11644	1095	364	151148780	151162689	-1	TCFL1	YL-1, YL1, Swc2
1	VPS72	ENSG00000163159	ENST00000354473	protein_coding	NOVEL	CCDS59201	11644	1128	375	151148938	151162634	-1	TCFL1	YL-1, YL1, Swc2
1	VPS72	ENSG00000163159	ENST00000496809	processed_transcript	KNOWN	None	11644	None	None	151149207	151162621	-1	TCFL1	YL-1, YL1, Swc2
1	VPS72	ENSG00000163159	ENST00000471423	retained_intron	KNOWN	None	11644	None	None	151157998	151162619	-1	TCFL1	YL-1, YL1, Swc2
1	VPS72	ENSG00000163159	ENST00000463470	processed_transcript	KNOWN	None	11644	None	None	151158016	151167797	-1	TCFL1	YL-1, YL1, Swc2
6	None	ENSG00000230570	ENST00000419672	processed_pseudogene	KNOWN	None	None	None	None	7341087	7342289	-1	None	None
1	FLVCR1	ENSG00000162769	ENST00000366971	protein_coding	KNOWN	CCDS1510	24682	1668	555	213031597	213072705	1	AXPC1	FLVCR, MFSD7B, PCA
1	FLVCR1	ENSG00000162769	ENST00000419102	protein_coding	NOVEL	None	24682	1064	353	213032258	213068676	1	AXPC1	FLVCR, MFSD7B, PCA
1	FLVCR1	ENSG00000162769	ENST00000579295	processed_transcript	KNOWN	None	24682	None	None	213036973	213043508	1	AXPC1	FLVCR, MFSD7B, PCA
1	FLVCR1	ENSG00000162769	ENST00000474693	processed_transcript	KNOWN	None	24682	None	None	213037754	213058907	1	AXPC1	FLVCR, MFSD7B, PCA
1	FLVCR1	ENSG00000162769	ENST00000483790	processed_transcript	KNOWN	None	24682	None	None	213056751	213068736	1	AXPC1	FLVCR, MFSD7B, PCA
X	SSX4	ENSG00000204645	ENST00000376886	protein_coding	KNOWN	CCDS35240	11338	567	188	48242863	48252785	1	None	CT5.4
X	SSX4	ENSG00000204645	ENST00000375517	protein_coding	KNOWN	CCDS43934	11338	462	153	48242939	48252290	1	None	CT5.4
17	PCTP	ENSG00000141179	ENST00000268896	protein_coding	KNOWN	CCDS11588	8752	645	214	53828340	53854735	1	None	STARD2
17	PCTP	ENSG00000141179	ENST00000576183	protein_coding	PUTATIVE	None	8752	612	203	53828422	53854729	1	None	STARD2
17	PCTP	ENSG00000141179	ENST00000573500	protein_coding	PUTATIVE	None	8752	660	219	53828455	53900451	1	None	STARD2
17	PCTP	ENSG00000141179	ENST00000417982	nonsense_mediated_decay	KNOWN	None	8752	195	64	53828466	53854734	1	None	STARD2
17	PCTP	ENSG00000141179	ENST00000325214	protein_coding	KNOWN	CCDS45741	8752	429	142	53828761	53854735	1	None	STARD2
17	PCTP	ENSG00000141179	ENST00000571489	retained_intron	KNOWN	None	8752	None	None	53846208	53854748	1	None	STARD2
17	PCTP	ENSG00000141179	ENST00000576221	processed_transcript	KNOWN	None	8752	None	None	53848538	53920191	1	None	STARD2
17	PCTP	ENSG00000141179	ENST00000572536	protein_coding	PUTATIVE	None	8752	441	146	53851097	53900451	1	None	STARD2
17	RASL10B	ENSG00000141150	ENST00000268864	protein_coding	KNOWN	CCDS11297	30295	612	203	34058668	34070540	1	None	VTS58635, RRP17
17	RASL10B	ENSG00000141150	ENST00000587350	processed_transcript	PUTATIVE	None	30295	None	None	34062356	34064091	1	None	VTS58635, RRP17
16	FAM173A	ENSG00000103254	ENST00000566525	retained_intron	KNOWN	None	14152	None	None	770581	772589	1	C16orf24	MGC2494
16	FAM173A	ENSG00000103254	ENST00000569529	protein_coding	KNOWN	CCDS10423	14152	708	235	770975	772601	1	C16orf24	MGC2494
16	FAM173A	ENSG00000103254	ENST00000564000	protein_coding	PUTATIVE	None	14152	525	174	771097	772585	1	C16orf24	MGC2494
16	FAM173A	ENSG00000103254	ENST00000219535	protein_coding	NOVEL	CCDS59254	14152	657	218	771142	772573	1	C16orf24	MGC2494
16	FAM173A	ENSG00000103254	ENST00000564640	retained_intron	KNOWN	None	14152	None	None	771146	772312	1	C16orf24	MGC2494
16	FAM173A	ENSG00000103254	ENST00000566437	retained_intron	KNOWN	None	14152	None	None	771225	772508	1	C16orf24	MGC2494
16	FAM173A	ENSG00000103254	ENST00000568916	protein_coding	PUTATIVE	None	14152	421	139	771672	772590	1	C16orf24	MGC2494
16	FAM173A	ENSG00000103254	ENST00000570237	retained_intron	KNOWN	None	14152	None	None	771942	772590	1	C16orf24	MGC2494
8	HOOK3	ENSG00000168172	ENST00000307602	protein_coding	KNOWN	CCDS6139	23576	2157	718	42752075	42885682	1	None	HK3
8	HOOK3	ENSG00000168172	ENST00000527306	retained_intron	KNOWN	None	23576	None	None	42752089	42853299	1	None	HK3
8	HOOK3	ENSG00000168172	ENST00000526882	nonsense_mediated_decay	KNOWN	None	23576	305	100	42829260	42865491	1	None	HK3
8	HOOK3	ENSG00000168172	ENST00000533539	protein_coding	NOVEL	None	23576	485	160	42852733	42873535	1	None	HK3
8	HOOK3	ENSG00000168172	ENST00000524839	processed_transcript	KNOWN	None	23576	None	None	42855962	42868264	1	None	HK3
8	HOOK3	ENSG00000168172	ENST00000533338	protein_coding	PUTATIVE	None	23576	94	30	42873548	42883255	1	None	HK3
19	EID2B	ENSG00000176401	ENST00000326282	protein_coding	KNOWN	CCDS12539	26796	486	161	40021630	40023494	-1	None	EID-3, FLJ38944
19	EID2B	ENSG00000176401	ENST00000601837	processed_transcript	KNOWN	None	26796	None	None	40021977	40023483	-1	None	EID-3, FLJ38944
9	ST6GALNAC6	ENSG00000160408	ENST00000373146	protein_coding	KNOWN	CCDS6882	23364	1002	333	130647600	130661932	-1	SIAT7F	ST6GALNACVI
9	ST6GALNAC6	ENSG00000160408	ENST00000373141	protein_coding	PUTATIVE	None	23364	900	299	130647601	130659687	-1	SIAT7F	ST6GALNACVI
9	ST6GALNAC6	ENSG00000160408	ENST00000373142	protein_coding	PUTATIVE	None	23364	1125	374	130647601	130661925	-1	SIAT7F	ST6GALNACVI
9	ST6GALNAC6	ENSG00000160408	ENST00000373144	protein_coding	PUTATIVE	None	23364	900	299	130647601	130661934	-1	SIAT7F	ST6GALNACVI
9	ST6GALNAC6	ENSG00000160408	ENST00000485320	processed_transcript	KNOWN	None	23364	None	None	130647605	130661853	-1	SIAT7F	ST6GALNACVI
9	ST6GALNAC6	ENSG00000160408	ENST00000463086	processed_transcript	KNOWN	None	23364	None	None	130649033	130661872	-1	SIAT7F	ST6GALNACVI
9	ST6GALNAC6	ENSG00000160408	ENST00000480417	processed_transcript	KNOWN	None	23364	None	None	130649814	130661885	-1	SIAT7F	ST6GALNACVI
9	ST6GALNAC6	ENSG00000160408	ENST00000447681	protein_coding	PUTATIVE	None	23364	602	199	130652916	130667609	-1	SIAT7F	ST6GALNACVI
9	ST6GALNAC6	ENSG00000160408	ENST00000494541	processed_transcript	KNOWN	None	23364	None	None	130652977	130661883	-1	SIAT7F	ST6GALNACVI
9	ST6GALNAC6	ENSG00000160408	ENST00000481355	processed_transcript	KNOWN	None	23364	None	None	130656801	130661695	-1	SIAT7F	ST6GALNACVI
9	ST6GALNAC6	ENSG00000160408	ENST00000478319	processed_transcript	KNOWN	None	23364	None	None	130656828	130661814	-1	SIAT7F	ST6GALNACVI
9	ST6GALNAC6	ENSG00000160408	ENST00000494611	processed_transcript	KNOWN	None	23364	None	None	130658525	130667687	-1	SIAT7F	ST6GALNACVI
9	ST6GALNAC6	ENSG00000160408	ENST00000483353	retained_intron	KNOWN	None	23364	None	None	130665294	130667603	-1	SIAT7F	ST6GALNACVI
9	ST6GALNAC6	ENSG00000160408	ENST00000291839	protein_coding	KNOWN	CCDS6882	23364	1002	333	130647601	130660291	-1	SIAT7F	ST6GALNACVI
9	ST6GALNAC6	ENSG00000160408	ENST00000542456	protein_coding	KNOWN	None	23364	402	133	130648421	130659569	-1	SIAT7F	ST6GALNACVI
12	KANSL2	ENSG00000139620	ENST00000548147	nonsense_mediated_decay	KNOWN	None	26024	77	24	49047184	49073476	-1	C12orf41	FLJ20436, NSL2
12	KANSL2	ENSG00000139620	ENST00000546701	nonsense_mediated_decay	KNOWN	None	26024	468	155	49047185	49075994	-1	C12orf41	FLJ20436, NSL2
12	KANSL2	ENSG00000139620	ENST00000550347	protein_coding	PUTATIVE	None	26024	2028	675	49047185	49076008	-1	C12orf41	FLJ20436, NSL2
12	KANSL2	ENSG00000139620	ENST00000420613	protein_coding	KNOWN	CCDS44869	26024	1479	492	49047199	49076008	-1	C12orf41	FLJ20436, NSL2
12	KANSL2	ENSG00000139620	ENST00000549463	processed_transcript	KNOWN	None	26024	None	None	49047472	49052457	-1	C12orf41	FLJ20436, NSL2
12	KANSL2	ENSG00000139620	ENST00000548701	processed_transcript	KNOWN	None	26024	None	None	49047493	49056375	-1	C12orf41	FLJ20436, NSL2
12	KANSL2	ENSG00000139620	ENST00000547087	protein_coding	NOVEL	None	26024	621	206	49047617	49063008	-1	C12orf41	FLJ20436, NSL2
12	KANSL2	ENSG00000139620	ENST00000549574	nonsense_mediated_decay	KNOWN	None	26024	1022	339	49047652	49075393	-1	C12orf41	FLJ20436, NSL2
12	KANSL2	ENSG00000139620	ENST00000553086	protein_coding	NOVEL	None	26024	1365	454	49047672	49075941	-1	C12orf41	FLJ20436, NSL2
12	KANSL2	ENSG00000139620	ENST00000547582	nonsense_mediated_decay	KNOWN	None	26024	225	74	49065582	49075199	-1	C12orf41	FLJ20436, NSL2
12	KANSL2	ENSG00000139620	ENST00000547536	retained_intron	KNOWN	None	26024	None	None	49065641	49073841	-1	C12orf41	FLJ20436, NSL2
12	KANSL2	ENSG00000139620	ENST00000550931	protein_coding	NOVEL	None	26024	400	132	49065702	49076021	-1	C12orf41	FLJ20436, NSL2
12	KANSL2	ENSG00000139620	ENST00000550870	protein_coding	NOVEL	None	26024	324	107	49073544	49076021	-1	C12orf41	FLJ20436, NSL2
12	KANSL2	ENSG00000139620	ENST00000548254	retained_intron	KNOWN	None	26024	None	None	49075007	49076019	-1	C12orf41	FLJ20436, NSL2
12	KANSL2	ENSG00000139620	ENST00000548304	protein_coding	KNOWN	None	26024	209	68	49075207	49076000	-1	C12orf41	FLJ20436, NSL2
12	KANSL2	ENSG00000139620	ENST00000357861	protein_coding	KNOWN	None	26024	459	152	49056367	49076003	-1	C12orf41	FLJ20436, NSL2
14	PPP1R3E	ENSG00000235194	ENST00000452015	protein_coding	KNOWN	None	14943	840	279	23764852	23772057	-1	None	FLJ00089
14	PPP1R3E	ENSG00000235194	ENST00000561426	processed_transcript	KNOWN	None	14943	None	None	23765124	23766076	-1	None	FLJ00089
14	PPP1R3E	ENSG00000235194	ENST00000558058	protein_coding	KNOWN	None	14943	148	48	23765244	23770792	-1	None	FLJ00089
14	PPP1R3E	ENSG00000235194	ENST00000559314	protein_coding	KNOWN	None	14943	104	33	23765586	23770748	-1	None	FLJ00089
14	PPP1R3E	ENSG00000235194	ENST00000560913	protein_coding	KNOWN	None	14943	90	29	23767461	23770734	-1	None	FLJ00089
14	PPP1R3E	ENSG00000235194	ENST00000560073	processed_transcript	KNOWN	None	14943	None	None	23767502	23770452	-1	None	FLJ00089
14	PPP1R3E	ENSG00000235194	ENST00000559942	protein_coding	KNOWN	None	14943	57	18	23767502	23770701	-1	None	FLJ00089
14	PPP1R3E	ENSG00000235194	ENST00000561178	retained_intron	KNOWN	None	14943	None	None	23767508	23770149	-1	None	FLJ00089
14	PPP1R3E	ENSG00000235194	ENST00000561437	protein_coding	KNOWN	None	14943	40	12	23767796	23770684	-1	None	FLJ00089
3	APEH	ENSG00000164062	ENST00000296456	protein_coding	KNOWN	CCDS2801	586	2199	732	49711435	49721396	1	D3F15S2, DNF15S2, D3S48E	None
3	APEH	ENSG00000164062	ENST00000449966	protein_coding	PUTATIVE	None	586	697	231	49711447	49714458	1	D3F15S2, DNF15S2, D3S48E	None
3	APEH	ENSG00000164062	ENST00000483715	retained_intron	KNOWN	None	586	None	None	49711467	49713785	1	D3F15S2, DNF15S2, D3S48E	None
3	APEH	ENSG00000164062	ENST00000446089	nonsense_mediated_decay	KNOWN	None	586	177	58	49711793	49717078	1	D3F15S2, DNF15S2, D3S48E	None
3	APEH	ENSG00000164062	ENST00000491799	retained_intron	KNOWN	None	586	None	None	49711795	49713949	1	D3F15S2, DNF15S2, D3S48E	None
3	APEH	ENSG00000164062	ENST00000442186	protein_coding	PUTATIVE	None	586	924	307	49711800	49716373	1	D3F15S2, DNF15S2, D3S48E	None
3	APEH	ENSG00000164062	ENST00000438011	protein_coding	NOVEL	None	586	2214	737	49711800	49720775	1	D3F15S2, DNF15S2, D3S48E	None
3	APEH	ENSG00000164062	ENST00000463995	retained_intron	KNOWN	None	586	None	None	49711812	49714428	1	D3F15S2, DNF15S2, D3S48E	None
3	APEH	ENSG00000164062	ENST00000462439	retained_intron	KNOWN	None	586	None	None	49711816	49713939	1	D3F15S2, DNF15S2, D3S48E	None
3	APEH	ENSG00000164062	ENST00000447436	nonsense_mediated_decay	KNOWN	None	586	153	50	49711818	49717078	1	D3F15S2, DNF15S2, D3S48E	None
3	APEH	ENSG00000164062	ENST00000463616	retained_intron	KNOWN	None	586	None	None	49711919	49713665	1	D3F15S2, DNF15S2, D3S48E	None
3	APEH	ENSG00000164062	ENST00000457042	protein_coding	PUTATIVE	None	586	853	283	49711919	49714458	1	D3F15S2, DNF15S2, D3S48E	None
3	APEH	ENSG00000164062	ENST00000447541	nonsense_mediated_decay	KNOWN	None	586	165	54	49713127	49716368	1	D3F15S2, DNF15S2, D3S48E	None
3	APEH	ENSG00000164062	ENST00000482301	retained_intron	KNOWN	None	586	None	None	49714103	49717713	1	D3F15S2, DNF15S2, D3S48E	None
3	APEH	ENSG00000164062	ENST00000469362	nonsense_mediated_decay	KNOWN	None	586	144	47	49716344	49720378	1	D3F15S2, DNF15S2, D3S48E	None
3	APEH	ENSG00000164062	ENST00000480772	retained_intron	KNOWN	None	586	None	None	49720034	49720936	1	D3F15S2, DNF15S2, D3S48E	None
7	None	ENSG00000223559	ENST00000449426	processed_pseudogene	KNOWN	None	None	None	None	56355923	56359118	1	None	None
7	None	ENSG00000224155	ENST00000417282	processed_pseudogene	KNOWN	None	None	None	None	56372371	56373219	-1	None	None
7	ZNF680	ENSG00000173041	ENST00000309683	protein_coding	KNOWN	CCDS34644	26897	1593	530	63980262	64023484	-1	None	FLJ90430
7	ZNF680	ENSG00000173041	ENST00000476563	processed_transcript	KNOWN	None	26897	None	None	63982304	64023400	-1	None	FLJ90430
7	ZNF680	ENSG00000173041	ENST00000470847	retained_intron	KNOWN	None	26897	None	None	63982828	64004597	-1	None	FLJ90430
7	ZNF680	ENSG00000173041	ENST00000447137	protein_coding	PUTATIVE	CCDS47594	26897	372	123	63985077	64023419	-1	None	FLJ90430
7	ZNF680	ENSG00000173041	ENST00000473601	processed_transcript	KNOWN	None	26897	None	None	64004724	64023453	-1	None	FLJ90430
8	NDUFAF6	ENSG00000156170	ENST00000523378	protein_coding	PUTATIVE	None	28625	401	132	95907995	96059318	1	C8orf38	MGC40214
8	NDUFAF6	ENSG00000156170	ENST00000396113	protein_coding	PUTATIVE	None	28625	726	241	95908041	96070938	1	C8orf38	MGC40214
8	NDUFAF6	ENSG00000156170	ENST00000519136	protein_coding	PUTATIVE	None	28625	285	94	95908065	96059259	1	C8orf38	MGC40214
8	NDUFAF6	ENSG00000156170	ENST00000396111	protein_coding	PUTATIVE	None	28625	726	241	95970236	96070938	1	C8orf38	MGC40214
8	NDUFAF6	ENSG00000156170	ENST00000521587	processed_transcript	KNOWN	None	28625	None	None	95986836	95996412	1	C8orf38	MGC40214
8	NDUFAF6	ENSG00000156170	ENST00000521840	processed_transcript	PUTATIVE	None	28625	None	None	95993136	96001576	1	C8orf38	MGC40214
8	NDUFAF6	ENSG00000156170	ENST00000396124	protein_coding	KNOWN	CCDS6266	28625	1002	333	96037214	96070938	1	C8orf38	MGC40214
8	NDUFAF6	ENSG00000156170	ENST00000518258	nonsense_mediated_decay	KNOWN	None	28625	366	121	96037222	96070180	1	C8orf38	MGC40214
8	NDUFAF6	ENSG00000156170	ENST00000523337	nonsense_mediated_decay	KNOWN	None	28625	366	121	96037234	96059315	1	C8orf38	MGC40214
8	NDUFAF6	ENSG00000156170	ENST00000517976	nonsense_mediated_decay	KNOWN	None	28625	294	97	96037249	96070174	1	C8orf38	MGC40214
8	NDUFAF6	ENSG00000156170	ENST00000520632	nonsense_mediated_decay	KNOWN	None	28625	282	93	96037261	96059263	1	C8orf38	MGC40214
8	NDUFAF6	ENSG00000156170	ENST00000522683	nonsense_mediated_decay	KNOWN	None	28625	309	102	96037294	96048629	1	C8orf38	MGC40214
8	NDUFAF6	ENSG00000156170	ENST00000518608	nonsense_mediated_decay	KNOWN	None	28625	175	57	96037296	96059242	1	C8orf38	MGC40214
8	NDUFAF6	ENSG00000156170	ENST00000454358	nonsense_mediated_decay	KNOWN	None	28625	247	81	96037296	96070164	1	C8orf38	MGC40214
8	NDUFAF6	ENSG00000156170	ENST00000520757	nonsense_mediated_decay	KNOWN	None	28625	427	141	96037296	96088396	1	C8orf38	MGC40214
8	NDUFAF6	ENSG00000156170	ENST00000519804	protein_coding	PUTATIVE	None	28625	308	101	96046877	96059282	1	C8orf38	MGC40214
8	NDUFAF6	ENSG00000156170	ENST00000523184	processed_transcript	KNOWN	None	28625	None	None	96060694	96128683	1	C8orf38	MGC40214
8	NDUFAF6	ENSG00000156170	ENST00000521063	processed_transcript	PUTATIVE	None	28625	None	None	96112622	96115685	1	C8orf38	MGC40214
8	NDUFAF6	ENSG00000156170	ENST00000542894	protein_coding	KNOWN	None	28625	846	281	95993161	96070179	1	C8orf38	MGC40214
8	NDUFAF6	ENSG00000156170	ENST00000286687	protein_coding	KNOWN	None	28625	480	159	96037296	96088396	1	C8orf38	MGC40214
6	MYCT1	ENSG00000120279	ENST00000367245	protein_coding	KNOWN	CCDS5239	23172	708	235	153019030	153045702	1	None	MTLC, FLJ21269
6	MYCT1	ENSG00000120279	ENST00000529453	protein_coding	PUTATIVE	None	23172	204	67	153019032	153044419	1	None	MTLC, FLJ21269
6	MYCT1	ENSG00000120279	ENST00000532295	protein_coding	KNOWN	None	23172	650	215	153019096	153045636	1	None	MTLC, FLJ21269
1	UROD	ENSG00000126088	ENST00000246337	protein_coding	KNOWN	CCDS518	12591	1104	367	45477819	45481247	1	None	None
1	UROD	ENSG00000126088	ENST00000491773	processed_transcript	KNOWN	None	12591	None	None	45477834	45479628	1	None	None
1	UROD	ENSG00000126088	ENST00000463092	processed_transcript	KNOWN	None	12591	None	None	45477857	45479561	1	None	None
1	UROD	ENSG00000126088	ENST00000461035	processed_transcript	KNOWN	None	12591	None	None	45477884	45479132	1	None	None
1	UROD	ENSG00000126088	ENST00000491300	processed_transcript	KNOWN	None	12591	None	None	45477888	45480239	1	None	None
1	UROD	ENSG00000126088	ENST00000434478	protein_coding	KNOWN	None	12591	580	192	45477918	45480117	1	None	None
1	UROD	ENSG00000126088	ENST00000494399	processed_transcript	KNOWN	None	12591	None	None	45477924	45481247	1	None	None
1	UROD	ENSG00000126088	ENST00000460334	processed_transcript	KNOWN	None	12591	None	None	45477930	45479742	1	None	None
1	UROD	ENSG00000126088	ENST00000462688	processed_transcript	KNOWN	None	12591	None	None	45477937	45480248	1	None	None
1	UROD	ENSG00000126088	ENST00000460906	processed_transcript	KNOWN	None	12591	None	None	45477940	45479792	1	None	None
1	UROD	ENSG00000126088	ENST00000490385	processed_transcript	KNOWN	None	12591	None	None	45477940	45479892	1	None	None
1	UROD	ENSG00000126088	ENST00000469548	processed_transcript	KNOWN	None	12591	None	None	45478363	45480481	1	None	None
1	UROD	ENSG00000126088	ENST00000486699	processed_transcript	KNOWN	None	12591	None	None	45478458	45480481	1	None	None
1	UROD	ENSG00000126088	ENST00000478467	processed_transcript	KNOWN	None	12591	None	None	45478476	45480487	1	None	None
1	UROD	ENSG00000126088	ENST00000428106	protein_coding	KNOWN	None	12591	682	226	45478579	45480497	1	None	None
1	UROD	ENSG00000126088	ENST00000496439	processed_transcript	KNOWN	None	12591	None	None	45478580	45479810	1	None	None
1	UROD	ENSG00000126088	ENST00000473012	processed_transcript	KNOWN	None	12591	None	None	45478607	45479691	1	None	None
1	UROD	ENSG00000126088	ENST00000472254	processed_transcript	KNOWN	None	12591	None	None	45479722	45481247	1	None	None
1	UROD	ENSG00000126088	ENST00000466193	processed_transcript	KNOWN	None	12591	None	None	45480211	45481064	1	None	None
1	UROD	ENSG00000126088	ENST00000465678	processed_transcript	KNOWN	None	12591	None	None	45480219	45481077	1	None	None
X	SSX4B	ENSG00000198946	ENST00000376884	protein_coding	KNOWN	CCDS35241	16880	567	188	48261524	48271344	-1	None	OTTHUMT00000056510
X	SSX4B	ENSG00000198946	ENST00000396928	protein_coding	KNOWN	CCDS43935	16880	462	153	48261524	48271344	-1	None	OTTHUMT00000056510
19	EID2	ENSG00000176396	ENST00000390658	protein_coding	KNOWN	CCDS12540	28292	711	236	40028890	40030870	-1	CRI2	EID-2, MGC20452
3	NGLY1	ENSG00000151092	ENST00000489271	retained_intron	KNOWN	None	17646	None	None	25760435	25772041	-1	None	FLJ11005, PNG1
3	NGLY1	ENSG00000151092	ENST00000280700	protein_coding	KNOWN	CCDS33719	17646	1965	654	25760604	25825042	-1	None	FLJ11005, PNG1
3	NGLY1	ENSG00000151092	ENST00000493324	retained_intron	KNOWN	None	17646	None	None	25760761	25824905	-1	None	FLJ11005, PNG1
3	NGLY1	ENSG00000151092	ENST00000396649	protein_coding	KNOWN	CCDS46779	17646	1677	558	25760762	25824929	-1	None	FLJ11005, PNG1
3	NGLY1	ENSG00000151092	ENST00000467224	processed_transcript	KNOWN	None	17646	None	None	25760766	25775475	-1	None	FLJ11005, PNG1
3	NGLY1	ENSG00000151092	ENST00000308710	protein_coding	KNOWN	None	17646	1902	633	25760767	25824872	-1	None	FLJ11005, PNG1
3	NGLY1	ENSG00000151092	ENST00000496726	retained_intron	KNOWN	None	17646	None	None	25760770	25777837	-1	None	FLJ11005, PNG1
3	NGLY1	ENSG00000151092	ENST00000280699	nonsense_mediated_decay	KNOWN	None	17646	721	239	25760770	25824855	-1	None	FLJ11005, PNG1
3	NGLY1	ENSG00000151092	ENST00000417874	protein_coding	PUTATIVE	CCDS46777	17646	1839	612	25760902	25831530	-1	None	FLJ11005, PNG1
3	NGLY1	ENSG00000151092	ENST00000427041	protein_coding	PUTATIVE	None	17646	344	113	25792672	25824363	-1	None	FLJ11005, PNG1
3	NGLY1	ENSG00000151092	ENST00000461491	processed_transcript	KNOWN	None	17646	None	None	25805620	25825647	-1	None	FLJ11005, PNG1
3	NGLY1	ENSG00000151092	ENST00000474611	processed_transcript	KNOWN	None	17646	None	None	25819192	25824973	-1	None	FLJ11005, PNG1
3	NGLY1	ENSG00000151092	ENST00000478991	retained_intron	KNOWN	None	17646	None	None	25819753	25824905	-1	None	FLJ11005, PNG1
3	NGLY1	ENSG00000151092	ENST00000463611	processed_transcript	PUTATIVE	None	17646	None	None	25820132	25824905	-1	None	FLJ11005, PNG1
3	NGLY1	ENSG00000151092	ENST00000428257	protein_coding	KNOWN	CCDS46778	17646	1911	636	25760436	25824989	-1	None	FLJ11005, PNG1
3	NGLY1	ENSG00000151092	ENST00000422724	protein_coding	KNOWN	None	17646	516	171	25760770	25820164	-1	None	FLJ11005, PNG1
1	VASH2	ENSG00000143494	ENST00000366966	protein_coding	KNOWN	CCDS44315	25723	873	290	213123862	213162040	1	None	FLJ12505
1	VASH2	ENSG00000143494	ENST00000366968	protein_coding	KNOWN	CCDS44315	25723	873	290	213123936	213164927	1	None	FLJ12505
1	VASH2	ENSG00000143494	ENST00000490792	protein_coding	KNOWN	None	25723	75	24	213123937	213125154	1	None	FLJ12505
1	VASH2	ENSG00000143494	ENST00000366965	protein_coding	KNOWN	CCDS1511	25723	936	311	213123977	213164252	1	None	FLJ12505
1	VASH2	ENSG00000143494	ENST00000271776	processed_transcript	KNOWN	None	25723	None	None	213123983	213148269	1	None	FLJ12505
1	VASH2	ENSG00000143494	ENST00000366967	protein_coding	KNOWN	CCDS44316	25723	756	251	213124009	213162266	1	None	FLJ12505
1	VASH2	ENSG00000143494	ENST00000493155	processed_transcript	PUTATIVE	None	25723	None	None	213124870	213126133	1	None	FLJ12505
1	VASH2	ENSG00000143494	ENST00000517399	protein_coding	KNOWN	None	25723	1068	355	213124885	213161926	1	None	FLJ12505
1	VASH2	ENSG00000143494	ENST00000481097	retained_intron	KNOWN	None	25723	None	None	213134569	213139497	1	None	FLJ12505
1	VASH2	ENSG00000143494	ENST00000366969	processed_transcript	KNOWN	None	25723	None	None	213140299	213146260	1	None	FLJ12505
1	VASH2	ENSG00000143494	ENST00000519906	processed_transcript	PUTATIVE	None	25723	None	None	213162469	213165379	1	None	FLJ12505
1	VASH2	ENSG00000143494	ENST00000366964	protein_coding	KNOWN	None	25723	471	156	213123887	213146783	1	None	FLJ12505
17	GAS2L2	ENSG00000132139	ENST00000254466	protein_coding	KNOWN	CCDS11298	24846	2643	880	34071530	34079897	-1	None	GAR17
17	GAS2L2	ENSG00000132139	ENST00000587565	protein_coding	NOVEL	None	24846	2595	864	34071835	34079897	-1	None	GAR17
5	B4GALT7	ENSG00000027847	ENST00000029410	protein_coding	KNOWN	CCDS4429	930	984	327	177027101	177037348	1	None	XGALT-1, beta4Gal-T7
5	B4GALT7	ENSG00000027847	ENST00000502420	retained_intron	KNOWN	None	930	None	None	177027133	177035215	1	None	XGALT-1, beta4Gal-T7
5	B4GALT7	ENSG00000027847	ENST00000505433	nonsense_mediated_decay	KNOWN	None	930	513	170	177027163	177036708	1	None	XGALT-1, beta4Gal-T7
5	B4GALT7	ENSG00000027847	ENST00000510761	protein_coding	PUTATIVE	None	930	127	41	177027207	177034358	1	None	XGALT-1, beta4Gal-T7
5	B4GALT7	ENSG00000027847	ENST00000505468	protein_coding	PUTATIVE	None	930	108	35	177027231	177034339	1	None	XGALT-1, beta4Gal-T7
5	B4GALT7	ENSG00000027847	ENST00000507061	protein_coding	PUTATIVE	None	930	234	77	177031313	177032225	1	None	XGALT-1, beta4Gal-T7
5	B4GALT7	ENSG00000027847	ENST00000505145	retained_intron	KNOWN	None	930	None	None	177032792	177037267	1	None	XGALT-1, beta4Gal-T7
5	B4GALT7	ENSG00000027847	ENST00000515353	retained_intron	KNOWN	None	930	None	None	177034366	177037329	1	None	XGALT-1, beta4Gal-T7
14	BCL2L2	ENSG00000129473	ENST00000553824	protein_coding	KNOWN	None	995	155	50	23767999	23777131	1	None	KIAA0271, BCL-W, PPP1R51
14	BCL2L2	ENSG00000129473	ENST00000250405	protein_coding	KNOWN	CCDS9591	995	582	193	23775971	23780968	1	None	KIAA0271, BCL-W, PPP1R51
14	BCL2L2	ENSG00000129473	ENST00000557236	protein_coding	KNOWN	None	995	447	148	23776069	23778039	1	None	KIAA0271, BCL-W, PPP1R51
14	BCL2L2	ENSG00000129473	ENST00000557579	protein_coding	KNOWN	None	995	432	143	23776083	23777408	1	None	KIAA0271, BCL-W, PPP1R51
14	BCL2L2	ENSG00000129473	ENST00000554635	protein_coding	KNOWN	None	995	215	70	23776167	23777191	1	None	KIAA0271, BCL-W, PPP1R51
14	BCL2L2	ENSG00000129473	ENST00000556599	protein_coding	PUTATIVE	None	995	502	166	23777150	23780353	1	None	KIAA0271, BCL-W, PPP1R51
1	PIP5K1A	ENSG00000143398	ENST00000447555	protein_coding	PUTATIVE	None	8994	304	100	151170425	151204237	1	None	None
1	PIP5K1A	ENSG00000143398	ENST00000349792	protein_coding	KNOWN	CCDS990	8994	1650	549	151171027	151222012	1	None	None
1	PIP5K1A	ENSG00000143398	ENST00000409426	protein_coding	NOVEL	None	8994	1653	550	151171028	151221980	1	None	None
1	PIP5K1A	ENSG00000143398	ENST00000441902	protein_coding	KNOWN	CCDS44220	8994	1569	522	151171029	151220625	1	None	None
1	PIP5K1A	ENSG00000143398	ENST00000368890	protein_coding	KNOWN	CCDS44221	8994	1503	500	151171029	151222007	1	None	None
1	PIP5K1A	ENSG00000143398	ENST00000424999	protein_coding	PUTATIVE	None	8994	124	40	151171030	151188476	1	None	None
1	PIP5K1A	ENSG00000143398	ENST00000368888	protein_coding	KNOWN	CCDS44219	8994	1689	562	151171051	151220364	1	None	None
1	PIP5K1A	ENSG00000143398	ENST00000454769	nonsense_mediated_decay	KNOWN	None	8994	120	39	151171201	151199837	1	None	None
1	PIP5K1A	ENSG00000143398	ENST00000418435	protein_coding	PUTATIVE	None	8994	260	85	151185993	151204277	1	None	None
1	PIP5K1A	ENSG00000143398	ENST00000468772	retained_intron	KNOWN	None	8994	None	None	151196356	151204821	1	None	None
1	PIP5K1A	ENSG00000143398	ENST00000461816	retained_intron	KNOWN	None	8994	None	None	151196615	151204783	1	None	None
1	PIP5K1A	ENSG00000143398	ENST00000481713	retained_intron	KNOWN	None	8994	None	None	151199743	151205117	1	None	None
1	PIP5K1A	ENSG00000143398	ENST00000486048	processed_transcript	KNOWN	None	8994	None	None	151204728	151206843	1	None	None
1	PIP5K1A	ENSG00000143398	ENST00000464105	processed_transcript	PUTATIVE	None	8994	None	None	151206098	151209223	1	None	None
1	PIP5K1A	ENSG00000143398	ENST00000460157	retained_intron	KNOWN	None	8994	None	None	151209110	151211081	1	None	None
1	PIP5K1A	ENSG00000143398	ENST00000486866	retained_intron	KNOWN	None	8994	None	None	151209110	151212767	1	None	None
1	PIP5K1A	ENSG00000143398	ENST00000489625	retained_intron	KNOWN	None	8994	None	None	151214588	151220959	1	None	None
1	PIP5K1A	ENSG00000143398	ENST00000414290	protein_coding	KNOWN	None	8994	597	198	151206921	151221068	1	None	None
16	TMEM159	ENSG00000011638	ENST00000573487	nonsense_mediated_decay	KNOWN	None	30136	492	163	21169698	21191308	1	None	promethin
16	TMEM159	ENSG00000011638	ENST00000233047	protein_coding	KNOWN	CCDS10595	30136	486	161	21169698	21191937	1	None	promethin
16	TMEM159	ENSG00000011638	ENST00000572258	protein_coding	PUTATIVE	None	30136	273	90	21169982	21190930	1	None	promethin
16	TMEM159	ENSG00000011638	ENST00000574092	processed_transcript	KNOWN	None	30136	None	None	21169995	21184683	1	None	promethin
16	TMEM159	ENSG00000011638	ENST00000261388	protein_coding	KNOWN	CCDS10595	30136	486	161	21170000	21191930	1	None	promethin
16	TMEM159	ENSG00000011638	ENST00000451578	protein_coding	NOVEL	None	30136	558	185	21170010	21191541	1	None	promethin
16	TMEM159	ENSG00000011638	ENST00000572599	protein_coding	KNOWN	CCDS10595	30136	486	161	21170026	21190933	1	None	promethin
16	TMEM159	ENSG00000011638	ENST00000577162	protein_coding	NOVEL	None	30136	139	45	21170031	21178203	1	None	promethin
16	TMEM159	ENSG00000011638	ENST00000573688	nonsense_mediated_decay	KNOWN	None	30136	295	97	21181793	21191826	1	None	promethin
5	ITK	ENSG00000113263	ENST00000521769	protein_coding	PUTATIVE	None	6171	221	72	156569944	156649973	1	None	EMT, PSCTK2, LYK
5	ITK	ENSG00000113263	ENST00000422843	protein_coding	KNOWN	CCDS4336	6171	1863	620	156607837	156682201	1	None	EMT, PSCTK2, LYK
5	ITK	ENSG00000113263	ENST00000522616	processed_transcript	KNOWN	None	6171	None	None	156607848	156622918	1	None	EMT, PSCTK2, LYK
5	ITK	ENSG00000113263	ENST00000520555	retained_intron	KNOWN	None	6171	None	None	156607851	156638522	1	None	EMT, PSCTK2, LYK
5	ITK	ENSG00000113263	ENST00000519402	retained_intron	KNOWN	None	6171	None	None	156607854	156682109	1	None	EMT, PSCTK2, LYK
5	ITK	ENSG00000113263	ENST00000517779	nonsense_mediated_decay	KNOWN	None	6171	351	116	156607878	156641221	1	None	EMT, PSCTK2, LYK
5	ITK	ENSG00000113263	ENST00000519759	retained_intron	KNOWN	None	6171	None	None	156649759	156667141	1	None	EMT, PSCTK2, LYK
5	ITK	ENSG00000113263	ENST00000520173	retained_intron	KNOWN	None	6171	None	None	156667103	156671285	1	None	EMT, PSCTK2, LYK
5	ITK	ENSG00000113263	ENST00000519749	processed_transcript	KNOWN	None	6171	None	None	156668601	156682195	1	None	EMT, PSCTK2, LYK
5	ITK	ENSG00000113263	ENST00000523926	retained_intron	KNOWN	None	6171	None	None	156671901	156672986	1	None	EMT, PSCTK2, LYK
6	VIP	ENSG00000146469	ENST00000367244	protein_coding	KNOWN	CCDS5240	12693	513	170	153071933	153080900	1	None	None
6	VIP	ENSG00000146469	ENST00000367243	protein_coding	KNOWN	CCDS5241	12693	510	169	153071933	153080900	1	None	None
6	VIP	ENSG00000146469	ENST00000431366	protein_coding	KNOWN	None	12693	358	118	153075346	153080900	1	None	None
4	NOP14	ENSG00000087269	ENST00000507120	processed_transcript	KNOWN	None	16821	None	None	2939660	2943443	-1	C4orf9, NOL14	RES4-25, UTP2
4	NOP14	ENSG00000087269	ENST00000416614	protein_coding	KNOWN	CCDS33945	16821	2574	857	2939660	2965112	-1	C4orf9, NOL14	RES4-25, UTP2
4	NOP14	ENSG00000087269	ENST00000314262	protein_coding	NOVEL	CCDS33945	16821	2574	857	2939669	2965095	-1	C4orf9, NOL14	RES4-25, UTP2
4	NOP14	ENSG00000087269	ENST00000502735	protein_coding	PUTATIVE	None	16821	2367	788	2939679	2965083	-1	C4orf9, NOL14	RES4-25, UTP2
4	NOP14	ENSG00000087269	ENST00000398071	protein_coding	KNOWN	None	16821	2421	806	2939840	2965060	-1	C4orf9, NOL14	RES4-25, UTP2
17	CSF3	ENSG00000108342	ENST00000583218	protein_coding	NOVEL	None	2438	465	154	38171614	38173170	1	GCSF, G-CSF, C17orf33	MGC45931
17	CSF3	ENSG00000108342	ENST00000394149	protein_coding	KNOWN	CCDS42314	2438	615	204	38171614	38174066	1	GCSF, G-CSF, C17orf33	MGC45931
17	CSF3	ENSG00000108342	ENST00000582798	retained_intron	KNOWN	None	2438	None	None	38171688	38172415	1	GCSF, G-CSF, C17orf33	MGC45931
17	CSF3	ENSG00000108342	ENST00000225474	protein_coding	KNOWN	CCDS11357	2438	624	207	38171697	38174066	1	GCSF, G-CSF, C17orf33	MGC45931
17	CSF3	ENSG00000108342	ENST00000579852	nonsense_mediated_decay	KNOWN	None	2438	174	57	38171699	38174011	1	GCSF, G-CSF, C17orf33	MGC45931
17	CSF3	ENSG00000108342	ENST00000479880	retained_intron	KNOWN	None	2438	None	None	38171700	38173196	1	GCSF, G-CSF, C17orf33	MGC45931
17	CSF3	ENSG00000108342	ENST00000331769	protein_coding	NOVEL	None	2438	603	200	38171700	38174066	1	GCSF, G-CSF, C17orf33	MGC45931
17	CSF3	ENSG00000108342	ENST00000394148	protein_coding	KNOWN	CCDS11358	2438	516	171	38171720	38173310	1	GCSF, G-CSF, C17orf33	MGC45931
17	CSF3	ENSG00000108342	ENST00000577675	protein_coding	NOVEL	None	2438	495	164	38171740	38173901	1	GCSF, G-CSF, C17orf33	MGC45931
7	SUN1	ENSG00000164828	ENST00000427969	processed_transcript	KNOWN	None	18587	None	None	856252	882205	1	UNC84A	KIAA0810, FLJ12407
7	SUN1	ENSG00000164828	ENST00000450538	processed_transcript	KNOWN	None	18587	None	None	856252	882643	1	UNC84A	KIAA0810, FLJ12407
7	SUN1	ENSG00000164828	ENST00000389574	protein_coding	KNOWN	CCDS43533	18587	2109	702	856252	914539	1	UNC84A	KIAA0810, FLJ12407
7	SUN1	ENSG00000164828	ENST00000435699	protein_coding	KNOWN	None	18587	523	173	856260	883022	1	UNC84A	KIAA0810, FLJ12407
7	SUN1	ENSG00000164828	ENST00000440380	protein_coding	KNOWN	None	18587	266	87	856280	878623	1	UNC84A	KIAA0810, FLJ12407
7	SUN1	ENSG00000164828	ENST00000439679	protein_coding	KNOWN	None	18587	407	134	856392	881723	1	UNC84A	KIAA0810, FLJ12407
7	SUN1	ENSG00000164828	ENST00000424128	protein_coding	KNOWN	None	18587	266	87	856503	878623	1	UNC84A	KIAA0810, FLJ12407
7	SUN1	ENSG00000164828	ENST00000457598	protein_coding	KNOWN	None	18587	356	117	870567	881672	1	UNC84A	KIAA0810, FLJ12407
7	SUN1	ENSG00000164828	ENST00000421580	protein_coding	KNOWN	None	18587	340	112	871559	881656	1	UNC84A	KIAA0810, FLJ12407
7	SUN1	ENSG00000164828	ENST00000340926	retained_intron	KNOWN	None	18587	None	None	872138	890404	1	UNC84A	KIAA0810, FLJ12407
7	SUN1	ENSG00000164828	ENST00000405266	protein_coding	NOVEL	None	18587	2469	822	872138	914537	1	UNC84A	KIAA0810, FLJ12407
7	SUN1	ENSG00000164828	ENST00000413171	retained_intron	KNOWN	None	18587	None	None	872138	914539	1	UNC84A	KIAA0810, FLJ12407
7	SUN1	ENSG00000164828	ENST00000401592	protein_coding	KNOWN	CCDS47525	18587	2358	785	872138	914539	1	UNC84A	KIAA0810, FLJ12407
7	SUN1	ENSG00000164828	ENST00000403868	protein_coding	KNOWN	CCDS55079	18587	774	257	872140	883455	1	UNC84A	KIAA0810, FLJ12407
7	SUN1	ENSG00000164828	ENST00000467483	retained_intron	KNOWN	None	18587	None	None	872142	883471	1	UNC84A	KIAA0810, FLJ12407
7	SUN1	ENSG00000164828	ENST00000483996	retained_intron	KNOWN	None	18587	None	None	872144	878817	1	UNC84A	KIAA0810, FLJ12407
7	SUN1	ENSG00000164828	ENST00000469755	processed_transcript	KNOWN	None	18587	None	None	872592	881710	1	UNC84A	KIAA0810, FLJ12407
7	SUN1	ENSG00000164828	ENST00000450881	protein_coding	NOVEL	None	18587	513	170	878433	892288	1	UNC84A	KIAA0810, FLJ12407
7	SUN1	ENSG00000164828	ENST00000493681	retained_intron	KNOWN	None	18587	None	None	881453	888058	1	UNC84A	KIAA0810, FLJ12407
7	SUN1	ENSG00000164828	ENST00000477950	retained_intron	KNOWN	None	18587	None	None	881549	883306	1	UNC84A	KIAA0810, FLJ12407
7	SUN1	ENSG00000164828	ENST00000471349	retained_intron	KNOWN	None	18587	None	None	882558	888131	1	UNC84A	KIAA0810, FLJ12407
7	SUN1	ENSG00000164828	ENST00000419312	protein_coding	NOVEL	None	18587	473	156	882978	891118	1	UNC84A	KIAA0810, FLJ12407
7	SUN1	ENSG00000164828	ENST00000429178	protein_coding	NOVEL	None	18587	2133	710	883007	914536	1	UNC84A	KIAA0810, FLJ12407
7	SUN1	ENSG00000164828	ENST00000433212	protein_coding	NOVEL	None	18587	1903	633	888245	914539	1	UNC84A	KIAA0810, FLJ12407
7	SUN1	ENSG00000164828	ENST00000464442	retained_intron	KNOWN	None	18587	None	None	889438	892544	1	UNC84A	KIAA0810, FLJ12407
7	SUN1	ENSG00000164828	ENST00000480475	retained_intron	KNOWN	None	18587	None	None	889454	892515	1	UNC84A	KIAA0810, FLJ12407
7	SUN1	ENSG00000164828	ENST00000488628	retained_intron	KNOWN	None	18587	None	None	890804	892461	1	UNC84A	KIAA0810, FLJ12407
7	SUN1	ENSG00000164828	ENST00000463848	retained_intron	KNOWN	None	18587	None	None	891187	892410	1	UNC84A	KIAA0810, FLJ12407
7	SUN1	ENSG00000164828	ENST00000457861	nonsense_mediated_decay	KNOWN	None	18587	1283	426	891587	936072	1	UNC84A	KIAA0810, FLJ12407
7	SUN1	ENSG00000164828	ENST00000459810	retained_intron	KNOWN	None	18587	None	None	891829	892539	1	UNC84A	KIAA0810, FLJ12407
7	SUN1	ENSG00000164828	ENST00000475971	retained_intron	KNOWN	None	18587	None	None	891884	914539	1	UNC84A	KIAA0810, FLJ12407
7	SUN1	ENSG00000164828	ENST00000497943	retained_intron	KNOWN	None	18587	None	None	908111	914539	1	UNC84A	KIAA0810, FLJ12407
7	SUN1	ENSG00000164828	ENST00000456758	protein_coding	KNOWN	None	18587	2925	974	855528	914557	1	UNC84A	KIAA0810, FLJ12407
7	SUN1	ENSG00000164828	ENST00000457378	protein_coding	KNOWN	CCDS55078	18587	837	278	856252	883509	1	UNC84A	KIAA0810, FLJ12407
7	SUN1	ENSG00000164828	ENST00000452783	protein_coding	KNOWN	CCDS55080	18587	2049	682	856252	914557	1	UNC84A	KIAA0810, FLJ12407
7	SUN1	ENSG00000164828	ENST00000425407	protein_coding	KNOWN	CCDS43533	18587	2109	702	872142	914557	1	UNC84A	KIAA0810, FLJ12407
7	SUN1	ENSG00000164828	ENST00000413514	protein_coding	KNOWN	None	18587	1752	583	888141	913026	1	UNC84A	KIAA0810, FLJ12407
19	LGALS13	ENSG00000105198	ENST00000221797	protein_coding	KNOWN	CCDS33024	15449	420	139	40093164	40098116	1	None	PP13, PLAC8
19	LGALS13	ENSG00000105198	ENST00000600141	protein_coding	NOVEL	None	15449	250	82	40093177	40097899	1	None	PP13, PLAC8
19	LGALS13	ENSG00000105198	ENST00000600546	retained_intron	KNOWN	None	15449	None	None	40095732	40098113	1	None	PP13, PLAC8
2	LPIN1	ENSG00000134324	ENST00000495907	processed_transcript	KNOWN	None	13345	None	None	11864475	11905725	1	None	KIAA0188
2	LPIN1	ENSG00000134324	ENST00000464517	processed_transcript	KNOWN	None	13345	None	None	11864476	11886256	1	None	KIAA0188
2	LPIN1	ENSG00000134324	ENST00000480315	processed_transcript	KNOWN	None	13345	None	None	11864476	11886256	1	None	KIAA0188
2	LPIN1	ENSG00000134324	ENST00000396098	protein_coding	PUTATIVE	CCDS58700	13345	1380	459	11864478	11924071	1	None	KIAA0188
2	LPIN1	ENSG00000134324	ENST00000396099	protein_coding	PUTATIVE	None	13345	2799	932	11864478	11964989	1	None	KIAA0188
2	LPIN1	ENSG00000134324	ENST00000256720	protein_coding	KNOWN	CCDS1682	13345	2673	890	11886714	11967535	1	None	KIAA0188
2	LPIN1	ENSG00000134324	ENST00000441684	protein_coding	KNOWN	None	13345	288	95	11886760	11907984	1	None	KIAA0188
2	LPIN1	ENSG00000134324	ENST00000423495	protein_coding	KNOWN	None	13345	84	27	11886764	11905751	1	None	KIAA0188
2	LPIN1	ENSG00000134324	ENST00000396097	protein_coding	PUTATIVE	None	13345	1863	620	11917333	11966656	1	None	KIAA0188
2	LPIN1	ENSG00000134324	ENST00000460096	retained_intron	KNOWN	None	13345	None	None	11922490	11924439	1	None	KIAA0188
2	LPIN1	ENSG00000134324	ENST00000475286	retained_intron	KNOWN	None	13345	None	None	11923995	11924975	1	None	KIAA0188
2	LPIN1	ENSG00000134324	ENST00000464953	retained_intron	KNOWN	None	13345	None	None	11927173	11932475	1	None	KIAA0188
2	LPIN1	ENSG00000134324	ENST00000454151	protein_coding	NOVEL	None	13345	583	193	11927256	11944645	1	None	KIAA0188
2	LPIN1	ENSG00000134324	ENST00000487346	retained_intron	KNOWN	None	13345	None	None	11944566	11945641	1	None	KIAA0188
2	LPIN1	ENSG00000134324	ENST00000475922	retained_intron	KNOWN	None	13345	None	None	11956279	11966639	1	None	KIAA0188
2	LPIN1	ENSG00000134324	ENST00000487576	processed_transcript	KNOWN	None	13345	None	None	11963206	11965196	1	None	KIAA0188
2	LPIN1	ENSG00000134324	ENST00000449576	protein_coding	KNOWN	CCDS58699	13345	2928	975	11817721	11965013	1	None	KIAA0188
2	LPIN1	ENSG00000134324	ENST00000425416	protein_coding	KNOWN	CCDS58701	13345	2691	896	11864481	11965021	1	None	KIAA0188
2	LPIN1	ENSG00000134324	ENST00000404113	protein_coding	KNOWN	None	13345	1176	391	11927199	11965045	1	None	KIAA0188
11	RAB3IL1	ENSG00000167994	ENST00000394836	protein_coding	KNOWN	CCDS8014	9780	1149	382	61664773	61684997	-1	None	None
11	RAB3IL1	ENSG00000167994	ENST00000301773	protein_coding	KNOWN	None	9780	1071	356	61664773	61687741	-1	None	None
11	RAB3IL1	ENSG00000167994	ENST00000526200	protein_coding	NOVEL	None	9780	198	65	61665312	61666810	-1	None	None
11	RAB3IL1	ENSG00000167994	ENST00000533136	retained_intron	KNOWN	None	9780	None	None	61665401	61667211	-1	None	None
11	RAB3IL1	ENSG00000167994	ENST00000530888	retained_intron	KNOWN	None	9780	None	None	61669982	61672174	-1	None	None
11	RAB3IL1	ENSG00000167994	ENST00000531922	protein_coding	NOVEL	None	9780	791	262	61673945	61687739	-1	None	None
1	ZSWIM5	ENSG00000162415	ENST00000359600	protein_coding	KNOWN	CCDS41319	29299	3558	1185	45482071	45672228	-1	None	KIAA1511
1	ZSWIM5	ENSG00000162415	ENST00000464588	processed_transcript	KNOWN	None	29299	None	None	45553747	45771881	-1	None	KIAA1511
1	HPDL	ENSG00000186603	ENST00000334815	protein_coding	KNOWN	CCDS519	28242	1116	371	45792545	45794347	1	GLOXD1	MGC15668, 4-HPPD-L
1	ANGEL2	ENSG00000174606	ENST00000366962	protein_coding	KNOWN	CCDS1512	30534	1635	544	213165524	213189168	-1	None	KIAA0759L, FLJ12793
1	ANGEL2	ENSG00000174606	ENST00000360506	protein_coding	KNOWN	None	30534	1128	375	213165524	213189168	-1	None	KIAA0759L, FLJ12793
1	ANGEL2	ENSG00000174606	ENST00000473303	processed_transcript	KNOWN	None	30534	None	None	213168071	213175576	-1	None	KIAA0759L, FLJ12793
1	ANGEL2	ENSG00000174606	ENST00000498650	processed_transcript	KNOWN	None	30534	None	None	213170542	213173912	-1	None	KIAA0759L, FLJ12793
1	ANGEL2	ENSG00000174606	ENST00000476904	processed_transcript	KNOWN	None	30534	None	None	213178467	213184805	-1	None	KIAA0759L, FLJ12793
1	ANGEL2	ENSG00000174606	ENST00000460337	processed_transcript	KNOWN	None	30534	None	None	213179881	213186760	-1	None	KIAA0759L, FLJ12793
1	ANGEL2	ENSG00000174606	ENST00000481918	processed_transcript	KNOWN	None	30534	None	None	213181552	213188835	-1	None	KIAA0759L, FLJ12793
1	ANGEL2	ENSG00000174606	ENST00000540642	protein_coding	KNOWN	None	30534	1257	418	213168304	213189091	-1	None	KIAA0759L, FLJ12793
1	ANGEL2	ENSG00000174606	ENST00000544555	protein_coding	KNOWN	None	30534	1128	375	213168271	213188820	-1	None	KIAA0759L, FLJ12793
1	ANGEL2	ENSG00000174606	ENST00000535388	protein_coding	KNOWN	None	30534	639	212	213168335	213189127	-1	None	KIAA0759L, FLJ12793
17	MMP28	ENSG00000129270	ENST00000587687	protein_coding	PUTATIVE	None	14366	270	89	34083268	34095345	-1	None	MMP-25, MM28, EPILYSIN, MMP-28
17	MMP28	ENSG00000129270	ENST00000587639	nonsense_mediated_decay	KNOWN	None	14366	678	225	34083269	34122711	-1	None	MMP-25, MM28, EPILYSIN, MMP-28
17	MMP28	ENSG00000129270	ENST00000589103	nonsense_mediated_decay	KNOWN	None	14366	678	225	34092892	34122651	-1	None	MMP-25, MM28, EPILYSIN, MMP-28
17	MMP28	ENSG00000129270	ENST00000589061	nonsense_mediated_decay	KNOWN	None	14366	678	225	34093359	34122586	-1	None	MMP-25, MM28, EPILYSIN, MMP-28
17	MMP28	ENSG00000129270	ENST00000590643	nonsense_mediated_decay	KNOWN	None	14366	678	225	34093359	34122628	-1	None	MMP-25, MM28, EPILYSIN, MMP-28
17	MMP28	ENSG00000129270	ENST00000587923	nonsense_mediated_decay	KNOWN	None	14366	136	44	34095334	34106315	-1	None	MMP-25, MM28, EPILYSIN, MMP-28
17	MMP28	ENSG00000129270	ENST00000593125	protein_coding	PUTATIVE	None	14366	327	108	34105509	34106372	-1	None	MMP-25, MM28, EPILYSIN, MMP-28
17	MMP28	ENSG00000129270	ENST00000250144	protein_coding	KNOWN	CCDS45651	14366	393	130	34105509	34122711	-1	None	MMP-25, MM28, EPILYSIN, MMP-28
11	RAB30	ENSG00000137502	ENST00000533486	protein_coding	KNOWN	CCDS8264	9770	612	203	82684175	82782908	-1	None	None
11	RAB30	ENSG00000137502	ENST00000534141	protein_coding	PUTATIVE	None	9770	495	164	82690310	82782965	-1	None	None
11	RAB30	ENSG00000137502	ENST00000260056	protein_coding	KNOWN	CCDS8264	9770	612	203	82692832	82745611	-1	None	None
11	RAB30	ENSG00000137502	ENST00000533014	protein_coding	NOVEL	None	9770	504	167	82693131	82703425	-1	None	None
11	RAB30	ENSG00000137502	ENST00000527633	protein_coding	KNOWN	CCDS8264	9770	612	203	82693199	82782896	-1	None	None
11	RAB30	ENSG00000137502	ENST00000531021	protein_coding	KNOWN	None	9770	505	167	82693314	82745243	-1	None	None
11	RAB30	ENSG00000137502	ENST00000534301	protein_coding	KNOWN	None	9770	418	138	82693401	82708520	-1	None	None
11	RAB30	ENSG00000137502	ENST00000525117	protein_coding	PUTATIVE	None	9770	285	94	82698066	82708455	-1	None	None
11	RAB30	ENSG00000137502	ENST00000532548	protein_coding	PUTATIVE	None	9770	369	122	82698443	82708455	-1	None	None
11	RAB30	ENSG00000137502	ENST00000524635	protein_coding	PUTATIVE	None	9770	227	74	82698625	82782870	-1	None	None
11	RAB30	ENSG00000137502	ENST00000526205	protein_coding	KNOWN	None	9770	342	113	82698648	82782871	-1	None	None
11	RAB30	ENSG00000137502	ENST00000534103	protein_coding	KNOWN	None	9770	300	99	82698690	82746736	-1	None	None
11	RAB30	ENSG00000137502	ENST00000530224	protein_coding	NOVEL	None	9770	112	36	82698794	82745675	-1	None	None
11	RAB30	ENSG00000137502	ENST00000533276	protein_coding	KNOWN	None	9770	177	58	82705081	82782938	-1	None	None
11	RAB30	ENSG00000137502	ENST00000528379	protein_coding	KNOWN	None	9770	167	54	82705091	82746597	-1	None	None
7	None	ENSG00000203462	ENST00000366280	unprocessed_pseudogene	KNOWN	None	None	None	None	56390497	56391294	1	None	None
17	TEKT3	ENSG00000125409	ENST00000462175	processed_transcript	PUTATIVE	None	14293	None	None	15207128	15210318	-1	None	FLJ32828
17	TEKT3	ENSG00000125409	ENST00000578011	retained_intron	KNOWN	None	14293	None	None	15207128	15212180	-1	None	FLJ32828
17	TEKT3	ENSG00000125409	ENST00000395930	protein_coding	KNOWN	CCDS11169	14293	1473	490	15207128	15244958	-1	None	FLJ32828
17	TEKT3	ENSG00000125409	ENST00000395931	nonsense_mediated_decay	KNOWN	None	14293	678	225	15207133	15244914	-1	None	FLJ32828
17	TEKT3	ENSG00000125409	ENST00000539245	protein_coding	PUTATIVE	None	14293	580	192	15215599	15244914	-1	None	FLJ32828
17	TEKT3	ENSG00000125409	ENST00000470325	retained_intron	KNOWN	None	14293	None	None	15231087	15234931	-1	None	FLJ32828
17	TEKT3	ENSG00000125409	ENST00000536146	protein_coding	KNOWN	None	14293	443	146	15234460	15241873	-1	None	FLJ32828
17	TEKT3	ENSG00000125409	ENST00000539316	protein_coding	KNOWN	None	14293	420	139	15234483	15244949	-1	None	FLJ32828
17	TEKT3	ENSG00000125409	ENST00000543896	protein_coding	KNOWN	None	14293	246	81	15234657	15244910	-1	None	FLJ32828
17	TEKT3	ENSG00000125409	ENST00000338696	protein_coding	KNOWN	CCDS11169	14293	1473	490	15207131	15244899	-1	None	FLJ32828
3	RTP4	ENSG00000136514	ENST00000259030	protein_coding	KNOWN	CCDS33910	23992	741	246	187086120	187089864	1	None	IFRG28
7	RNU6-1335P	ENSG00000202296	ENST00000365426	snRNA	KNOWN	None	48298	None	None	56407924	56408030	-1	None	None
12	CD163L1	ENSG00000177675	ENST00000539726	protein_coding	KNOWN	None	30375	328	108	7499281	7521566	-1	None	M160, CD163B
12	CD163L1	ENSG00000177675	ENST00000542055	retained_intron	KNOWN	None	30375	None	None	7507556	7510202	-1	None	M160, CD163B
12	CD163L1	ENSG00000177675	ENST00000543841	retained_intron	KNOWN	None	30375	None	None	7507556	7520144	-1	None	M160, CD163B
12	CD163L1	ENSG00000177675	ENST00000313599	protein_coding	KNOWN	CCDS8577	30375	4362	1453	7507556	7596781	-1	None	M160, CD163B
12	CD163L1	ENSG00000177675	ENST00000416109	protein_coding	NOVEL	None	30375	4392	1463	7507559	7596742	-1	None	M160, CD163B
12	CD163L1	ENSG00000177675	ENST00000546182	nonsense_mediated_decay	KNOWN	None	30375	175	57	7507638	7521566	-1	None	M160, CD163B
12	CD163L1	ENSG00000177675	ENST00000545597	retained_intron	KNOWN	None	30375	None	None	7521433	7522089	-1	None	M160, CD163B
12	CD163L1	ENSG00000177675	ENST00000544331	processed_transcript	KNOWN	None	30375	None	None	7528106	7531862	-1	None	M160, CD163B
12	CD163L1	ENSG00000177675	ENST00000545926	protein_coding	NOVEL	None	30375	568	188	7548790	7556476	-1	None	M160, CD163B
12	CD163L1	ENSG00000177675	ENST00000543276	protein_coding	PUTATIVE	None	30375	185	60	7585305	7632493	-1	None	M160, CD163B
12	CD163L1	ENSG00000177675	ENST00000396630	protein_coding	KNOWN	None	30375	4266	1421	7507559	7596749	-1	None	M160, CD163B
7	None	ENSG00000231299	ENST00000447236	unprocessed_pseudogene	KNOWN	None	None	None	None	56428055	56428234	-1	None	None
7	CICP8	ENSG00000225371	ENST00000455800	processed_pseudogene	KNOWN	None	37757	None	None	56430151	56432963	1	None	None
16	WWP2	ENSG00000198373	ENST00000359154	protein_coding	KNOWN	CCDS10885	16804	2613	870	69796209	69975644	1	None	AIP2
16	WWP2	ENSG00000198373	ENST00000561780	protein_coding	KNOWN	None	16804	321	106	69796231	69833179	1	None	AIP2
16	WWP2	ENSG00000198373	ENST00000569620	nonsense_mediated_decay	KNOWN	None	16804	351	116	69796231	69874047	1	None	AIP2
16	WWP2	ENSG00000198373	ENST00000568845	processed_transcript	KNOWN	None	16804	None	None	69796235	69822105	1	None	AIP2
16	WWP2	ENSG00000198373	ENST00000563659	protein_coding	KNOWN	None	16804	185	60	69796265	69832699	1	None	AIP2
16	WWP2	ENSG00000198373	ENST00000569658	retained_intron	KNOWN	None	16804	None	None	69796265	69833396	1	None	AIP2
16	WWP2	ENSG00000198373	ENST00000569174	protein_coding	PUTATIVE	CCDS58475	16804	1008	335	69810090	69944153	1	None	AIP2
16	WWP2	ENSG00000198373	ENST00000544162	processed_transcript	KNOWN	None	16804	None	None	69832768	69974081	1	None	AIP2
16	WWP2	ENSG00000198373	ENST00000567986	retained_intron	KNOWN	None	16804	None	None	69832949	69905768	1	None	AIP2
16	WWP2	ENSG00000198373	ENST00000563618	processed_transcript	KNOWN	None	16804	None	None	69872640	69922061	1	None	AIP2
16	WWP2	ENSG00000198373	ENST00000570104	retained_intron	KNOWN	None	16804	None	None	69905616	69942785	1	None	AIP2
16	WWP2	ENSG00000198373	ENST00000569297	processed_transcript	KNOWN	None	16804	None	None	69924701	69974524	1	None	AIP2
16	WWP2	ENSG00000198373	ENST00000567579	processed_transcript	KNOWN	None	16804	None	None	69928865	69963369	1	None	AIP2
16	WWP2	ENSG00000198373	ENST00000566463	retained_intron	KNOWN	None	16804	None	None	69951486	69974079	1	None	AIP2
16	WWP2	ENSG00000198373	ENST00000568684	protein_coding	PUTATIVE	CCDS58477	16804	1296	431	69958893	69975641	1	None	AIP2
16	WWP2	ENSG00000198373	ENST00000568185	processed_transcript	KNOWN	None	16804	None	None	69958915	69959999	1	None	AIP2
16	WWP2	ENSG00000198373	ENST00000568818	retained_intron	KNOWN	None	16804	None	None	69964069	69967884	1	None	AIP2
16	WWP2	ENSG00000198373	ENST00000567161	retained_intron	KNOWN	None	16804	None	None	69967954	69970699	1	None	AIP2
16	WWP2	ENSG00000198373	ENST00000567303	retained_intron	KNOWN	None	16804	None	None	69970823	69973300	1	None	AIP2
16	WWP2	ENSG00000198373	ENST00000448661	protein_coding	KNOWN	CCDS10885	16804	2613	870	69796267	69975643	1	None	AIP2
16	WWP2	ENSG00000198373	ENST00000356003	protein_coding	KNOWN	CCDS10885	16804	2613	870	69820888	69975643	1	None	AIP2
16	WWP2	ENSG00000198373	ENST00000542271	protein_coding	KNOWN	CCDS58476	16804	2265	754	69872640	69973986	1	None	AIP2
3	SST	ENSG00000157005	ENST00000287641	protein_coding	KNOWN	CCDS3288	11329	351	116	187386694	187388187	-1	None	SMST
1	PSMD4	ENSG00000159352	ENST00000368884	protein_coding	KNOWN	CCDS991	9561	1134	377	151227179	151239955	1	None	S5A, AF-1, AF, Rpn10
1	PSMD4	ENSG00000159352	ENST00000368881	protein_coding	NOVEL	None	9561	1143	380	151227185	151239935	1	None	S5A, AF-1, AF, Rpn10
1	PSMD4	ENSG00000159352	ENST00000461434	retained_intron	KNOWN	None	9561	None	None	151227234	151235386	1	None	S5A, AF-1, AF, Rpn10
1	PSMD4	ENSG00000159352	ENST00000462970	retained_intron	KNOWN	None	9561	None	None	151227239	151238064	1	None	S5A, AF-1, AF, Rpn10
1	PSMD4	ENSG00000159352	ENST00000476855	retained_intron	KNOWN	None	9561	None	None	151227245	151239708	1	None	S5A, AF-1, AF, Rpn10
1	PSMD4	ENSG00000159352	ENST00000437736	protein_coding	PUTATIVE	None	9561	609	202	151231539	151238085	1	None	S5A, AF-1, AF, Rpn10
1	PSMD4	ENSG00000159352	ENST00000469786	processed_transcript	PUTATIVE	None	9561	None	None	151235036	151237415	1	None	S5A, AF-1, AF, Rpn10
1	PSMD4	ENSG00000159352	ENST00000445776	protein_coding	NOVEL	None	9561	580	192	151237364	151239942	1	None	S5A, AF-1, AF, Rpn10
1	PSMD4	ENSG00000159352	ENST00000491857	retained_intron	KNOWN	None	9561	None	None	151237720	151238574	1	None	S5A, AF-1, AF, Rpn10
1	PSMD4	ENSG00000159352	ENST00000427779	nonsense_mediated_decay	KNOWN	None	9561	119	38	151238514	151239936	1	None	S5A, AF-1, AF, Rpn10
1	PSMD4	ENSG00000159352	ENST00000470396	retained_intron	KNOWN	None	9561	None	None	151238784	151239201	1	None	S5A, AF-1, AF, Rpn10
1	PSMD4	ENSG00000159352	ENST00000453615	protein_coding	NOVEL	None	9561	254	83	151239020	151239936	1	None	S5A, AF-1, AF, Rpn10
4	GRK4	ENSG00000125388	ENST00000398051	protein_coding	KNOWN	None	4543	1503	500	2965335	3042454	1	GPRK2L	GPRK4
4	GRK4	ENSG00000125388	ENST00000503518	protein_coding	PUTATIVE	None	4543	255	84	2965361	2968616	1	GPRK2L	GPRK4
4	GRK4	ENSG00000125388	ENST00000398052	protein_coding	KNOWN	CCDS33946	4543	1737	578	2965455	3042474	1	GPRK2L	GPRK4
4	GRK4	ENSG00000125388	ENST00000345167	protein_coding	KNOWN	CCDS47002	4543	1641	546	2965548	3042474	1	GPRK2L	GPRK4
4	GRK4	ENSG00000125388	ENST00000504933	protein_coding	KNOWN	CCDS33947	4543	1599	532	2965548	3042474	1	GPRK2L	GPRK4
4	GRK4	ENSG00000125388	ENST00000507230	retained_intron	KNOWN	None	4543	None	None	2970896	2972919	1	GPRK2L	GPRK4
4	GRK4	ENSG00000125388	ENST00000505271	processed_transcript	KNOWN	None	4543	None	None	3024139	3042474	1	GPRK2L	GPRK4
4	GRK4	ENSG00000125388	ENST00000509545	processed_transcript	KNOWN	None	4543	None	None	3029638	3040605	1	GPRK2L	GPRK4
4	GRK4	ENSG00000125388	ENST00000511827	processed_transcript	KNOWN	None	4543	None	None	3029638	3042474	1	GPRK2L	GPRK4
4	GRK4	ENSG00000125388	ENST00000504308	processed_transcript	KNOWN	None	4543	None	None	3031050	3040305	1	GPRK2L	GPRK4
4	GRK4	ENSG00000125388	ENST00000442472	protein_coding	KNOWN	None	4543	405	134	2965588	2967725	1	GPRK2L	GPRK4
14	LTBP2	ENSG00000119681	ENST00000261978	protein_coding	KNOWN	CCDS9831	6715	5466	1821	74964873	75079034	-1	LTBP3, C14orf141	None
14	LTBP2	ENSG00000119681	ENST00000553939	nonsense_mediated_decay	KNOWN	None	6715	5310	1769	74967114	75079081	-1	LTBP3, C14orf141	None
14	LTBP2	ENSG00000119681	ENST00000554861	retained_intron	KNOWN	None	6715	None	None	74967408	74968681	-1	LTBP3, C14orf141	None
14	LTBP2	ENSG00000119681	ENST00000556690	protein_coding	NOVEL	None	6715	5334	1777	74967435	75078775	-1	LTBP3, C14orf141	None
14	LTBP2	ENSG00000119681	ENST00000556206	protein_coding	NOVEL	None	6715	699	232	74973409	74976510	-1	LTBP3, C14orf141	None
14	LTBP2	ENSG00000119681	ENST00000556359	protein_coding	PUTATIVE	None	6715	204	67	74992782	75079306	-1	LTBP3, C14orf141	None
14	LTBP2	ENSG00000119681	ENST00000557425	processed_transcript	KNOWN	None	6715	None	None	75002635	75078871	-1	LTBP3, C14orf141	None
7	None	ENSG00000224370	ENST00000450682	processed_pseudogene	KNOWN	None	None	None	None	56448669	56449005	1	None	None
8	CHD7	ENSG00000171316	ENST00000423902	protein_coding	KNOWN	CCDS47865	20626	8994	2997	61591337	61779465	1	None	KIAA1416, FLJ20357, FLJ20361
8	CHD7	ENSG00000171316	ENST00000526846	protein_coding	KNOWN	None	20626	98	31	61592123	61654089	1	None	KIAA1416, FLJ20357, FLJ20361
8	CHD7	ENSG00000171316	ENST00000524602	protein_coding	NOVEL	None	20626	2847	948	61653924	61779033	1	None	KIAA1416, FLJ20357, FLJ20361
8	CHD7	ENSG00000171316	ENST00000525508	protein_coding	PUTATIVE	None	20626	3417	1138	61653992	61737974	1	None	KIAA1416, FLJ20357, FLJ20361
8	CHD7	ENSG00000171316	ENST00000527825	nonsense_mediated_decay	KNOWN	None	20626	58	18	61654414	61693683	1	None	KIAA1416, FLJ20357, FLJ20361
8	CHD7	ENSG00000171316	ENST00000527900	nonsense_mediated_decay	KNOWN	None	20626	120	39	61655591	61713085	1	None	KIAA1416, FLJ20357, FLJ20361
8	CHD7	ENSG00000171316	ENST00000527921	processed_transcript	KNOWN	None	20626	None	None	61763296	61765198	1	None	KIAA1416, FLJ20357, FLJ20361
8	CHD7	ENSG00000171316	ENST00000529472	processed_transcript	PUTATIVE	None	20626	None	None	61767652	61769446	1	None	KIAA1416, FLJ20357, FLJ20361
8	CHD7	ENSG00000171316	ENST00000531695	retained_intron	KNOWN	None	20626	None	None	61769416	61773937	1	None	KIAA1416, FLJ20357, FLJ20361
8	CHD7	ENSG00000171316	ENST00000532149	retained_intron	KNOWN	None	20626	None	None	61774503	61777692	1	None	KIAA1416, FLJ20357, FLJ20361
8	CHD7	ENSG00000171316	ENST00000528280	retained_intron	KNOWN	None	20626	None	None	61775090	61778018	1	None	KIAA1416, FLJ20357, FLJ20361
7	RNU6-1052P	ENSG00000223330	ENST00000411398	snRNA	KNOWN	None	48015	None	None	56469763	56469866	-1	None	None
7	None	ENSG00000232944	ENST00000430165	processed_pseudogene	KNOWN	None	None	None	None	56476392	56476903	-1	None	None
3	RTP2	ENSG00000198471	ENST00000358241	protein_coding	KNOWN	CCDS33911	32486	678	225	187416047	187420345	-1	None	MGC78665
7	None	ENSG00000237268	ENST00000422212	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	56489550	56500395	-1	None	None
7	None	ENSG00000237268	ENST00000443198	processed_transcript	KNOWN	None	None	None	None	56494552	56516068	-1	None	None
19	LGALS16	ENSG00000249861	ENST00000392051	protein_coding	KNOWN	CCDS54267	40039	429	142	40146534	40151287	1	None	None
19	LGALS16	ENSG00000249861	ENST00000594480	nonsense_mediated_decay	KNOWN	None	40039	183	60	40146559	40151287	1	None	None
X	SLC38A5	ENSG00000017483	ENST00000376876	protein_coding	KNOWN	CCDS14293	18070	1419	472	48316920	48328565	-1	None	SN2, JM24
X	SLC38A5	ENSG00000017483	ENST00000376875	protein_coding	KNOWN	None	18070	1266	421	48316922	48325880	-1	None	SN2, JM24
X	SLC38A5	ENSG00000017483	ENST00000497336	processed_transcript	KNOWN	None	18070	None	None	48316928	48325447	-1	None	SN2, JM24
X	SLC38A5	ENSG00000017483	ENST00000462359	processed_transcript	KNOWN	None	18070	None	None	48317076	48319240	-1	None	SN2, JM24
X	SLC38A5	ENSG00000017483	ENST00000480105	processed_transcript	KNOWN	None	18070	None	None	48317606	48319363	-1	None	SN2, JM24
X	SLC38A5	ENSG00000017483	ENST00000494034	processed_transcript	KNOWN	None	18070	None	None	48319372	48325259	-1	None	SN2, JM24
X	SLC38A5	ENSG00000017483	ENST00000440085	protein_coding	KNOWN	None	18070	838	278	48320117	48326698	-1	None	SN2, JM24
X	SLC38A5	ENSG00000017483	ENST00000441948	protein_coding	KNOWN	None	18070	817	271	48320138	48326944	-1	None	SN2, JM24
X	SLC38A5	ENSG00000017483	ENST00000413668	protein_coding	KNOWN	None	18070	656	217	48320508	48326775	-1	None	SN2, JM24
X	SLC38A5	ENSG00000017483	ENST00000416711	protein_coding	KNOWN	None	18070	574	190	48321283	48327405	-1	None	SN2, JM24
X	SLC38A5	ENSG00000017483	ENST00000488083	processed_transcript	KNOWN	None	18070	None	None	48324402	48327945	-1	None	SN2, JM24
X	SLC38A5	ENSG00000017483	ENST00000429543	protein_coding	KNOWN	None	18070	491	162	48324402	48328631	-1	None	SN2, JM24
X	SLC38A5	ENSG00000017483	ENST00000317669	protein_coding	KNOWN	CCDS14293	18070	1419	472	48316928	48328644	-1	None	SN2, JM24
3	None	ENSG00000228804	ENST00000449623	protein_coding	PUTATIVE	None	None	390	129	187420101	187451637	1	None	None
3	None	ENSG00000228804	ENST00000437407	protein_coding	PUTATIVE	None	None	153	50	187420154	187450203	1	None	None
6	BYSL	ENSG00000112578	ENST00000230340	protein_coding	KNOWN	CCDS34450	1157	1314	437	41888926	41900784	1	None	None
6	BYSL	ENSG00000112578	ENST00000494032	retained_intron	KNOWN	None	1157	None	None	41889268	41895382	1	None	None
6	BYSL	ENSG00000112578	ENST00000489290	nonsense_mediated_decay	KNOWN	None	1157	585	194	41889272	41900393	1	None	None
6	BYSL	ENSG00000112578	ENST00000475702	retained_intron	KNOWN	None	1157	None	None	41889288	41898095	1	None	None
6	BYSL	ENSG00000112578	ENST00000372996	nonsense_mediated_decay	KNOWN	None	1157	550	182	41895173	41900734	1	None	None
7	None	ENSG00000225488	ENST00000436042	lincRNA	KNOWN	None	None	None	None	56549798	56550988	-1	None	None
17	ACTG1	ENSG00000184009	ENST00000331925	protein_coding	KNOWN	CCDS11782	144	1128	375	79476997	79479900	-1	ACTG, DFNA20, DFNA26	None
17	ACTG1	ENSG00000184009	ENST00000573283	protein_coding	KNOWN	CCDS11782	144	1128	375	79477014	79479806	-1	ACTG, DFNA20, DFNA26	None
17	ACTG1	ENSG00000184009	ENST00000575842	protein_coding	KNOWN	CCDS11782	144	1128	375	79477015	79479807	-1	ACTG, DFNA20, DFNA26	None
17	ACTG1	ENSG00000184009	ENST00000576917	retained_intron	KNOWN	None	144	None	None	79477018	79479806	-1	ACTG, DFNA20, DFNA26	None
17	ACTG1	ENSG00000184009	ENST00000574671	retained_intron	KNOWN	None	144	None	None	79477025	79478874	-1	ACTG, DFNA20, DFNA26	None
17	ACTG1	ENSG00000184009	ENST00000576209	retained_intron	KNOWN	None	144	None	None	79477031	79479176	-1	ACTG, DFNA20, DFNA26	None
17	ACTG1	ENSG00000184009	ENST00000575087	protein_coding	KNOWN	CCDS11782	144	1128	375	79477034	79479816	-1	ACTG, DFNA20, DFNA26	None
17	ACTG1	ENSG00000184009	ENST00000576544	nonsense_mediated_decay	KNOWN	CCDS11782	144	1128	375	79477039	79479817	-1	ACTG, DFNA20, DFNA26	None
17	ACTG1	ENSG00000184009	ENST00000572105	nonsense_mediated_decay	KNOWN	None	144	597	198	79477771	79479807	-1	ACTG, DFNA20, DFNA26	None
17	ACTG1	ENSG00000184009	ENST00000576214	retained_intron	KNOWN	None	144	None	None	79478111	79479774	-1	ACTG, DFNA20, DFNA26	None
17	ACTG1	ENSG00000184009	ENST00000571691	protein_coding	NOVEL	None	144	725	240	79478264	79479789	-1	ACTG, DFNA20, DFNA26	None
17	ACTG1	ENSG00000184009	ENST00000575994	protein_coding	KNOWN	None	144	644	213	79478372	79490873	-1	ACTG, DFNA20, DFNA26	None
17	ACTG1	ENSG00000184009	ENST00000575659	protein_coding	KNOWN	None	144	642	213	79478374	79481666	-1	ACTG, DFNA20, DFNA26	None
17	ACTG1	ENSG00000184009	ENST00000571721	protein_coding	KNOWN	None	144	492	163	79478524	79479804	-1	ACTG, DFNA20, DFNA26	None
17	ACTG1	ENSG00000184009	ENST00000570382	protein_coding	NOVEL	None	144	399	132	79478545	79479825	-1	ACTG, DFNA20, DFNA26	None
6	SOBP	ENSG00000112320	ENST00000317357	protein_coding	KNOWN	CCDS43488	29256	2622	873	107811162	107981357	1	None	FLJ10159
6	SOBP	ENSG00000112320	ENST00000477448	retained_intron	KNOWN	None	29256	None	None	107811310	107879491	1	None	FLJ10159
6	SOBP	ENSG00000112320	ENST00000494935	processed_transcript	KNOWN	None	29256	None	None	107956194	107957520	1	None	FLJ10159
9	RNA5SP279	ENSG00000202383	ENST00000365513	rRNA	KNOWN	None	43179	None	None	1333837	1333953	1	RN5S279	None
9	None	ENSG00000224092	ENST00000436102	processed_pseudogene	KNOWN	None	None	None	None	1977784	1978547	-1	None	None
9	None	ENSG00000236199	ENST00000426860	antisense	KNOWN	None	None	None	None	2041900	2046023	-1	None	None
9	RNU2-25P	ENSG00000222973	ENST00000411041	snRNA	KNOWN	None	48518	None	None	2162763	2162953	-1	None	None
9	RN7SL592P	ENSG00000264615	ENST00000585082	misc_RNA	KNOWN	None	46608	None	None	2228963	2229241	-1	None	None
19	LGALS14	ENSG00000006659	ENST00000392052	protein_coding	KNOWN	CCDS46073	30054	420	139	40194946	40200084	1	None	PPL13, CLC2
19	LGALS14	ENSG00000006659	ENST00000360675	protein_coding	KNOWN	CCDS12542	30054	507	168	40195121	40199953	1	None	PPL13, CLC2
19	LGALS14	ENSG00000006659	ENST00000601802	protein_coding	PUTATIVE	None	30054	370	122	40195142	40200052	1	None	PPL13, CLC2
9	None	ENSG00000236404	ENST00000416826	antisense	KNOWN	None	None	None	None	2422702	2621413	-1	None	None
9	None	ENSG00000236404	ENST00000447278	antisense	KNOWN	None	None	None	None	2503280	2522019	-1	None	None
9	None	ENSG00000236404	ENST00000424605	antisense	KNOWN	None	None	None	None	2535652	2570754	-1	None	None
9	None	ENSG00000236404	ENST00000453601	antisense	KNOWN	None	None	None	None	2535652	2622373	-1	None	None
9	None	ENSG00000236404	ENST00000599229	antisense	KNOWN	None	None	None	None	2622090	2641395	-1	None	None
1	None	ENSG00000232671	ENST00000494138	processed_transcript	PUTATIVE	None	None	None	None	151252500	151254356	-1	None	None
1	None	ENSG00000232671	ENST00000447795	protein_coding	PUTATIVE	None	None	180	59	151252500	151254405	-1	None	None
3	EPHB1	ENSG00000154928	ENST00000467013	processed_transcript	PUTATIVE	None	3392	None	None	134316643	134319961	1	EPHT2	Hek6
3	EPHB1	ENSG00000154928	ENST00000472904	processed_transcript	PUTATIVE	None	3392	None	None	134316666	134346946	1	EPHT2	Hek6
3	EPHB1	ENSG00000154928	ENST00000467708	processed_transcript	KNOWN	None	3392	None	None	134316721	134498741	1	EPHT2	Hek6
3	EPHB1	ENSG00000154928	ENST00000460895	protein_coding	PUTATIVE	None	3392	338	111	134334207	134670493	1	EPHT2	Hek6
3	EPHB1	ENSG00000154928	ENST00000482618	nonsense_mediated_decay	KNOWN	None	3392	846	281	134514104	134851608	1	EPHT2	Hek6
3	EPHB1	ENSG00000154928	ENST00000398015	protein_coding	KNOWN	CCDS46921	3392	2955	984	134514104	134979309	1	EPHT2	Hek6
3	EPHB1	ENSG00000154928	ENST00000488154	processed_transcript	KNOWN	None	3392	None	None	134514474	134851657	1	EPHT2	Hek6
3	EPHB1	ENSG00000154928	ENST00000497173	protein_coding	PUTATIVE	None	3392	128	41	134514983	134670283	1	EPHT2	Hek6
3	EPHB1	ENSG00000154928	ENST00000473867	protein_coding	PUTATIVE	None	3392	308	101	134542690	134670463	1	EPHT2	Hek6
3	EPHB1	ENSG00000154928	ENST00000474732	protein_coding	PUTATIVE	None	3392	449	148	134571348	134670604	1	EPHT2	Hek6
3	EPHB1	ENSG00000154928	ENST00000493838	protein_coding	PUTATIVE	None	3392	1638	545	134786374	134978212	1	EPHT2	Hek6
3	EPHB1	ENSG00000154928	ENST00000488992	retained_intron	KNOWN	None	3392	None	None	134851634	134873244	1	EPHT2	Hek6
12	PRB4	ENSG00000230657	ENST00000535904	protein_coding	KNOWN	CCDS8641	9340	744	247	11461155	11463366	-1	None	None
12	PRB4	ENSG00000230657	ENST00000445719	protein_coding	NOVEL	CCDS58208	9340	537	178	11461161	11463369	-1	None	None
12	PRB4	ENSG00000230657	ENST00000279575	protein_coding	KNOWN	CCDS8641	9340	744	247	11460017	11463366	-1	None	None
19	PODNL1	ENSG00000132000	ENST00000587954	protein_coding	PUTATIVE	None	26275	408	135	14042000	14043757	-1	None	FLJ23447, SLRR5B
19	PODNL1	ENSG00000132000	ENST00000588872	protein_coding	PUTATIVE	None	26275	716	237	14042274	14044026	-1	None	FLJ23447, SLRR5B
19	PODNL1	ENSG00000132000	ENST00000538517	protein_coding	KNOWN	CCDS54225	26275	1266	421	14042285	14064193	-1	None	FLJ23447, SLRR5B
19	PODNL1	ENSG00000132000	ENST00000339560	protein_coding	KNOWN	CCDS12300	26275	1539	512	14043166	14049289	-1	None	FLJ23447, SLRR5B
19	PODNL1	ENSG00000132000	ENST00000254320	protein_coding	NOVEL	None	26275	1293	430	14043168	14048878	-1	None	FLJ23447, SLRR5B
19	PODNL1	ENSG00000132000	ENST00000538371	protein_coding	KNOWN	CCDS54226	26275	1533	510	14043481	14064204	-1	None	FLJ23447, SLRR5B
19	PODNL1	ENSG00000132000	ENST00000588764	protein_coding	PUTATIVE	None	26275	545	180	14044022	14046842	-1	None	FLJ23447, SLRR5B
19	PODNL1	ENSG00000132000	ENST00000591353	protein_coding	PUTATIVE	None	26275	454	150	14044051	14045175	-1	None	FLJ23447, SLRR5B
19	PODNL1	ENSG00000132000	ENST00000586075	protein_coding	NOVEL	None	26275	492	163	14044052	14048909	-1	None	FLJ23447, SLRR5B
19	PODNL1	ENSG00000132000	ENST00000587288	processed_transcript	KNOWN	None	26275	None	None	14044692	14048698	-1	None	FLJ23447, SLRR5B
19	PODNL1	ENSG00000132000	ENST00000585607	protein_coding	PUTATIVE	None	26275	371	122	14044770	14064114	-1	None	FLJ23447, SLRR5B
19	PODNL1	ENSG00000132000	ENST00000587458	protein_coding	PUTATIVE	None	26275	97	31	14047242	14064195	-1	None	FLJ23447, SLRR5B
19	PODNL1	ENSG00000132000	ENST00000588317	processed_transcript	KNOWN	None	26275	None	None	14060100	14064089	-1	None	FLJ23447, SLRR5B
1	RPS6KC1	ENSG00000136643	ENST00000366960	protein_coding	KNOWN	CCDS1513	10439	3201	1066	213224597	213448116	1	None	humS6PKh1
1	RPS6KC1	ENSG00000136643	ENST00000366959	protein_coding	KNOWN	CCDS44317	10439	3165	1054	213224597	213448116	1	None	humS6PKh1
1	RPS6KC1	ENSG00000136643	ENST00000490299	processed_transcript	KNOWN	None	10439	None	None	213246280	213448116	1	None	humS6PKh1
1	RPS6KC1	ENSG00000136643	ENST00000468069	processed_transcript	KNOWN	None	10439	None	None	213302870	213350047	1	None	humS6PKh1
1	RPS6KC1	ENSG00000136643	ENST00000491616	processed_transcript	KNOWN	None	10439	None	None	213415403	213436159	1	None	humS6PKh1
1	RPS6KC1	ENSG00000136643	ENST00000543470	protein_coding	KNOWN	None	10439	2565	854	213224589	213446127	1	None	humS6PKh1
1	RPS6KC1	ENSG00000136643	ENST00000543354	protein_coding	KNOWN	None	10439	1983	660	213224604	213445887	1	None	humS6PKh1
14	BCL2L2-PABPN1	ENSG00000258643	ENST00000553781	protein_coding	PUTATIVE	CCDS55906	42959	1002	333	23776044	23794578	1	None	None
14	BCL2L2-PABPN1	ENSG00000258643	ENST00000556100	protein_coding	PUTATIVE	None	42959	514	170	23776059	23789025	1	None	None
14	BCL2L2-PABPN1	ENSG00000258643	ENST00000557008	protein_coding	PUTATIVE	CCDS55906	42959	1002	333	23776176	23794538	1	None	None
3	BCL6	ENSG00000113916	ENST00000406870	protein_coding	KNOWN	CCDS3289	1001	2121	706	187439165	187463515	-1	ZNF51	ZBTB27, LAZ3, BCL5, BCL6A
3	BCL6	ENSG00000113916	ENST00000419510	nonsense_mediated_decay	KNOWN	None	1001	168	55	187439175	187454876	-1	ZNF51	ZBTB27, LAZ3, BCL5, BCL6A
3	BCL6	ENSG00000113916	ENST00000232014	protein_coding	KNOWN	CCDS3289	1001	2121	706	187440186	187454357	-1	ZNF51	ZBTB27, LAZ3, BCL5, BCL6A
3	BCL6	ENSG00000113916	ENST00000450123	protein_coding	NOVEL	CCDS46975	1001	1953	650	187440220	187452670	-1	ZNF51	ZBTB27, LAZ3, BCL5, BCL6A
3	BCL6	ENSG00000113916	ENST00000479110	retained_intron	KNOWN	None	1001	None	None	187442357	187443411	-1	ZNF51	ZBTB27, LAZ3, BCL5, BCL6A
3	BCL6	ENSG00000113916	ENST00000430339	protein_coding	KNOWN	None	1001	365	120	187449515	187452735	-1	ZNF51	ZBTB27, LAZ3, BCL5, BCL6A
3	BCL6	ENSG00000113916	ENST00000480458	processed_transcript	KNOWN	None	1001	None	None	187449553	187463225	-1	ZNF51	ZBTB27, LAZ3, BCL5, BCL6A
3	BCL6	ENSG00000113916	ENST00000438077	protein_coding	KNOWN	None	1001	312	103	187449568	187455732	-1	ZNF51	ZBTB27, LAZ3, BCL5, BCL6A
3	BCL6	ENSG00000113916	ENST00000470319	retained_intron	KNOWN	None	1001	None	None	187452233	187463260	-1	ZNF51	ZBTB27, LAZ3, BCL5, BCL6A
3	BCL6	ENSG00000113916	ENST00000496823	processed_transcript	PUTATIVE	None	1001	None	None	187453975	187463247	-1	ZNF51	ZBTB27, LAZ3, BCL5, BCL6A
16	PRMT7	ENSG00000132600	ENST00000566657	protein_coding	KNOWN	None	25557	240	79	68344877	68358693	1	None	FLJ10640, KIAA1933
16	PRMT7	ENSG00000132600	ENST00000562381	nonsense_mediated_decay	KNOWN	None	25557	325	107	68344877	68371474	1	None	FLJ10640, KIAA1933
16	PRMT7	ENSG00000132600	ENST00000565745	protein_coding	KNOWN	None	25557	216	71	68344919	68358669	1	None	FLJ10640, KIAA1933
16	PRMT7	ENSG00000132600	ENST00000569571	protein_coding	KNOWN	None	25557	669	222	68344943	68373389	1	None	FLJ10640, KIAA1933
16	PRMT7	ENSG00000132600	ENST00000566341	nonsense_mediated_decay	KNOWN	None	25557	102	33	68344953	68371424	1	None	FLJ10640, KIAA1933
16	PRMT7	ENSG00000132600	ENST00000564050	processed_transcript	KNOWN	None	25557	None	None	68344957	68380183	1	None	FLJ10640, KIAA1933
16	PRMT7	ENSG00000132600	ENST00000569047	protein_coding	KNOWN	None	25557	509	168	68344959	68373229	1	None	FLJ10640, KIAA1933
16	PRMT7	ENSG00000132600	ENST00000449359	protein_coding	KNOWN	CCDS54033	25557	1929	642	68344959	68391162	1	None	FLJ10640, KIAA1933
16	PRMT7	ENSG00000132600	ENST00000564441	processed_transcript	KNOWN	None	25557	None	None	68344966	68373866	1	None	FLJ10640, KIAA1933
16	PRMT7	ENSG00000132600	ENST00000565356	retained_intron	KNOWN	None	25557	None	None	68344967	68386563	1	None	FLJ10640, KIAA1933
16	PRMT7	ENSG00000132600	ENST00000562050	nonsense_mediated_decay	KNOWN	None	25557	102	33	68344971	68373871	1	None	FLJ10640, KIAA1933
16	PRMT7	ENSG00000132600	ENST00000563520	processed_transcript	KNOWN	None	25557	None	None	68344973	68373848	1	None	FLJ10640, KIAA1933
16	PRMT7	ENSG00000132600	ENST00000565983	processed_transcript	KNOWN	None	25557	None	None	68345017	68349860	1	None	FLJ10640, KIAA1933
16	PRMT7	ENSG00000132600	ENST00000339507	protein_coding	KNOWN	CCDS10866	25557	2079	692	68345037	68392456	1	None	FLJ10640, KIAA1933
16	PRMT7	ENSG00000132600	ENST00000568975	nonsense_mediated_decay	KNOWN	None	25557	1704	567	68349098	68391162	1	None	FLJ10640, KIAA1933
16	PRMT7	ENSG00000132600	ENST00000563562	processed_transcript	KNOWN	None	25557	None	None	68349745	68371428	1	None	FLJ10640, KIAA1933
16	PRMT7	ENSG00000132600	ENST00000561806	retained_intron	KNOWN	None	25557	None	None	68349783	68363129	1	None	FLJ10640, KIAA1933
16	PRMT7	ENSG00000132600	ENST00000562456	retained_intron	KNOWN	None	25557	None	None	68349854	68358768	1	None	FLJ10640, KIAA1933
16	PRMT7	ENSG00000132600	ENST00000566430	retained_intron	KNOWN	None	25557	None	None	68349882	68355614	1	None	FLJ10640, KIAA1933
16	PRMT7	ENSG00000132600	ENST00000565761	processed_transcript	KNOWN	None	25557	None	None	68357592	68363062	1	None	FLJ10640, KIAA1933
16	PRMT7	ENSG00000132600	ENST00000567542	retained_intron	KNOWN	None	25557	None	None	68357886	68392466	1	None	FLJ10640, KIAA1933
16	PRMT7	ENSG00000132600	ENST00000563443	processed_transcript	KNOWN	None	25557	None	None	68358602	68362413	1	None	FLJ10640, KIAA1933
16	PRMT7	ENSG00000132600	ENST00000566687	retained_intron	KNOWN	None	25557	None	None	68380024	68382336	1	None	FLJ10640, KIAA1933
16	PRMT7	ENSG00000132600	ENST00000566708	processed_transcript	PUTATIVE	None	25557	None	None	68382310	68385959	1	None	FLJ10640, KIAA1933
16	PRMT7	ENSG00000132600	ENST00000563608	retained_intron	KNOWN	None	25557	None	None	68385972	68390652	1	None	FLJ10640, KIAA1933
16	PRMT7	ENSG00000132600	ENST00000568463	retained_intron	KNOWN	None	25557	None	None	68388232	68391152	1	None	FLJ10640, KIAA1933
16	PRMT7	ENSG00000132600	ENST00000441236	protein_coding	KNOWN	CCDS54033	25557	1929	642	68345035	68391162	1	None	FLJ10640, KIAA1933
16	PRMT7	ENSG00000132600	ENST00000348497	protein_coding	KNOWN	None	25557	1635	544	68345035	68391162	1	None	FLJ10640, KIAA1933
7	ZNF107	ENSG00000196247	ENST00000360117	protein_coding	KNOWN	None	12887	275	90	64126511	64166957	1	ZNF588	ZFD25, smap-7
7	ZNF107	ENSG00000196247	ENST00000344930	protein_coding	KNOWN	CCDS5527	12887	2352	783	64126576	64171404	1	ZNF588	ZFD25, smap-7
7	ZNF107	ENSG00000196247	ENST00000395391	protein_coding	KNOWN	CCDS5527	12887	2352	783	64149733	64171401	1	ZNF588	ZFD25, smap-7
7	ZNF107	ENSG00000196247	ENST00000423627	protein_coding	KNOWN	CCDS5527	12887	2352	783	64139551	64171399	1	ZNF588	ZFD25, smap-7
5	IQGAP2	ENSG00000145703	ENST00000274364	protein_coding	KNOWN	CCDS34188	6111	4728	1575	75699074	76003957	1	None	None
5	IQGAP2	ENSG00000145703	ENST00000514350	protein_coding	PUTATIVE	None	6111	2474	823	75700249	75960876	1	None	None
5	IQGAP2	ENSG00000145703	ENST00000505766	protein_coding	PUTATIVE	None	6111	4208	1401	75843234	75993963	1	None	None
5	IQGAP2	ENSG00000145703	ENST00000504815	retained_intron	KNOWN	None	6111	None	None	75892899	75896703	1	None	None
5	IQGAP2	ENSG00000145703	ENST00000514001	protein_coding	PUTATIVE	None	6111	1528	508	75904920	75967609	1	None	None
5	IQGAP2	ENSG00000145703	ENST00000396234	protein_coding	KNOWN	None	6111	3216	1071	75904920	76003229	1	None	None
5	IQGAP2	ENSG00000145703	ENST00000509074	protein_coding	PUTATIVE	None	6111	503	166	75904944	75932929	1	None	None
5	IQGAP2	ENSG00000145703	ENST00000502745	protein_coding	PUTATIVE	None	6111	3216	1071	75904950	76003236	1	None	None
5	IQGAP2	ENSG00000145703	ENST00000504254	nonsense_mediated_decay	KNOWN	None	6111	183	60	75904963	75923321	1	None	None
5	IQGAP2	ENSG00000145703	ENST00000513534	nonsense_mediated_decay	KNOWN	None	6111	333	110	75904963	75927826	1	None	None
5	IQGAP2	ENSG00000145703	ENST00000515505	processed_transcript	KNOWN	None	6111	None	None	75904963	75932933	1	None	None
5	IQGAP2	ENSG00000145703	ENST00000514579	processed_transcript	PUTATIVE	None	6111	None	None	75950794	75956150	1	None	None
5	IQGAP2	ENSG00000145703	ENST00000512383	processed_transcript	KNOWN	None	6111	None	None	75964583	75969798	1	None	None
5	IQGAP2	ENSG00000145703	ENST00000504558	retained_intron	KNOWN	None	6111	None	None	75967695	75969606	1	None	None
5	IQGAP2	ENSG00000145703	ENST00000504477	nonsense_mediated_decay	KNOWN	None	6111	240	79	75970347	76003921	1	None	None
5	IQGAP2	ENSG00000145703	ENST00000509741	retained_intron	KNOWN	None	6111	None	None	75970466	75973367	1	None	None
5	IQGAP2	ENSG00000145703	ENST00000512256	retained_intron	KNOWN	None	6111	None	None	75972979	75991331	1	None	None
5	IQGAP2	ENSG00000145703	ENST00000508410	processed_transcript	PUTATIVE	None	6111	None	None	75997532	76003449	1	None	None
5	IQGAP2	ENSG00000145703	ENST00000379730	protein_coding	KNOWN	None	6111	3234	1077	75699149	76003957	1	None	None
4	PTPN13	ENSG00000163629	ENST00000427191	protein_coding	KNOWN	CCDS47095	9646	7401	2466	87515468	87736310	1	None	PTP1E, PTP-BAS, PTPL1, PTP-BL
4	PTPN13	ENSG00000163629	ENST00000502971	protein_coding	PUTATIVE	None	9646	684	227	87515470	87611456	1	None	PTP1E, PTP-BAS, PTPL1, PTP-BL
4	PTPN13	ENSG00000163629	ENST00000316707	protein_coding	KNOWN	CCDS47096	9646	6885	2294	87515885	87736302	1	None	PTP1E, PTP-BAS, PTPL1, PTP-BL
4	PTPN13	ENSG00000163629	ENST00000411767	protein_coding	KNOWN	CCDS47094	9646	7458	2485	87515885	87736302	1	None	PTP1E, PTP-BAS, PTPL1, PTP-BL
4	PTPN13	ENSG00000163629	ENST00000507902	protein_coding	KNOWN	None	9646	417	138	87516846	87610214	1	None	PTP1E, PTP-BAS, PTPL1, PTP-BL
4	PTPN13	ENSG00000163629	ENST00000511467	protein_coding	KNOWN	CCDS47093	9646	7473	2490	87556405	87736302	1	None	PTP1E, PTP-BAS, PTPL1, PTP-BL
4	PTPN13	ENSG00000163629	ENST00000508063	retained_intron	KNOWN	None	9646	None	None	87679822	87684087	1	None	PTP1E, PTP-BAS, PTPL1, PTP-BL
4	PTPN13	ENSG00000163629	ENST00000511105	retained_intron	KNOWN	None	9646	None	None	87684162	87687806	1	None	PTP1E, PTP-BAS, PTPL1, PTP-BL
4	PTPN13	ENSG00000163629	ENST00000436978	protein_coding	KNOWN	CCDS47093	9646	7473	2490	87515468	87736324	1	None	PTP1E, PTP-BAS, PTPL1, PTP-BL
6	HNRNPLP1	ENSG00000233503	ENST00000421896	processed_pseudogene	KNOWN	None	48748	None	None	7481327	7482827	-1	None	None
19	HCST	ENSG00000126264	ENST00000246551	protein_coding	KNOWN	CCDS32998	16977	282	93	36393382	36395279	1	PIK3AP	DAP10, DKFZP586C1522, KAP10
19	HCST	ENSG00000126264	ENST00000437550	protein_coding	KNOWN	CCDS46057	16977	279	92	36393440	36395172	1	PIK3AP	DAP10, DKFZP586C1522, KAP10
6	None	ENSG00000219993	ENST00000405131	processed_pseudogene	KNOWN	None	None	None	None	7506436	7506782	1	None	None
6	None	ENSG00000234115	ENST00000440581	processed_pseudogene	KNOWN	None	None	None	None	7516833	7518073	-1	None	None
16	None	ENSG00000268977	ENST00000594986	protein_coding	KNOWN	None	None	93	30	79015647	79015739	-1	None	None
6	None	ENSG00000261189	ENST00000561592	antisense	KNOWN	None	None	None	None	7540684	7541571	-1	None	None
10	NSMCE4A	ENSG00000107672	ENST00000369023	protein_coding	KNOWN	CCDS7624	25935	1158	385	123716603	123734732	-1	C10orf86	FLJ20003, bA500G22.3, NSE4A
10	NSMCE4A	ENSG00000107672	ENST00000459911	processed_transcript	KNOWN	None	25935	None	None	123716606	123719300	-1	C10orf86	FLJ20003, bA500G22.3, NSE4A
10	NSMCE4A	ENSG00000107672	ENST00000477289	retained_intron	KNOWN	None	25935	None	None	123716606	123719312	-1	C10orf86	FLJ20003, bA500G22.3, NSE4A
10	NSMCE4A	ENSG00000107672	ENST00000489266	processed_transcript	KNOWN	None	25935	None	None	123716656	123734731	-1	C10orf86	FLJ20003, bA500G22.3, NSE4A
10	NSMCE4A	ENSG00000107672	ENST00000468209	processed_transcript	KNOWN	None	25935	None	None	123718880	123733800	-1	C10orf86	FLJ20003, bA500G22.3, NSE4A
10	NSMCE4A	ENSG00000107672	ENST00000483541	retained_intron	KNOWN	None	25935	None	None	123719433	123724819	-1	C10orf86	FLJ20003, bA500G22.3, NSE4A
10	NSMCE4A	ENSG00000107672	ENST00000369017	protein_coding	KNOWN	None	25935	951	316	123721272	123734709	-1	C10orf86	FLJ20003, bA500G22.3, NSE4A
10	NSMCE4A	ENSG00000107672	ENST00000464321	processed_transcript	KNOWN	None	25935	None	None	123724858	123734322	-1	C10orf86	FLJ20003, bA500G22.3, NSE4A
10	NSMCE4A	ENSG00000107672	ENST00000481320	retained_intron	KNOWN	None	25935	None	None	123726893	123734303	-1	C10orf86	FLJ20003, bA500G22.3, NSE4A
10	NSMCE4A	ENSG00000107672	ENST00000472431	processed_transcript	KNOWN	None	25935	None	None	123727161	123734269	-1	C10orf86	FLJ20003, bA500G22.3, NSE4A
10	NSMCE4A	ENSG00000107672	ENST00000465189	processed_transcript	KNOWN	None	25935	None	None	123727208	123734637	-1	C10orf86	FLJ20003, bA500G22.3, NSE4A
10	NSMCE4A	ENSG00000107672	ENST00000538652	protein_coding	KNOWN	None	25935	519	172	123719613	123734273	-1	C10orf86	FLJ20003, bA500G22.3, NSE4A
7	RBM22P3	ENSG00000226485	ENST00000430648	processed_pseudogene	KNOWN	None	39696	None	None	56558375	56559328	1	None	None
7	None	ENSG00000261275	ENST00000566570	lincRNA	KNOWN	None	None	None	None	56560817	56564978	1	None	None
16	MAF	ENSG00000178573	ENST00000569649	protein_coding	NOVEL	None	6776	1152	383	79619740	79633799	-1	None	c-MAF
16	MAF	ENSG00000178573	ENST00000326043	protein_coding	KNOWN	CCDS10928	6776	1212	403	79627735	79634611	-1	None	c-MAF
16	MAF	ENSG00000178573	ENST00000393350	protein_coding	KNOWN	CCDS42198	6776	1122	373	79628228	79634611	-1	None	c-MAF
14	PABPN1	ENSG00000100836	ENST00000216727	protein_coding	KNOWN	CCDS9592	8565	921	306	23790498	23795394	1	OPMD, PABP2	PAB2
14	PABPN1	ENSG00000100836	ENST00000397276	protein_coding	KNOWN	None	8565	891	296	23790666	23795372	1	OPMD, PABP2	PAB2
14	PABPN1	ENSG00000100836	ENST00000556821	protein_coding	PUTATIVE	None	8565	537	178	23790752	23794507	1	OPMD, PABP2	PAB2
14	PABPN1	ENSG00000100836	ENST00000556809	retained_intron	KNOWN	None	8565	None	None	23791023	23792694	1	OPMD, PABP2	PAB2
14	PABPN1	ENSG00000100836	ENST00000557702	protein_coding	PUTATIVE	None	8565	507	168	23791231	23793587	1	OPMD, PABP2	PAB2
14	PABPN1	ENSG00000100836	ENST00000554062	retained_intron	KNOWN	None	8565	None	None	23791748	23793426	1	OPMD, PABP2	PAB2
14	PABPN1	ENSG00000100836	ENST00000553960	retained_intron	KNOWN	None	8565	None	None	23792472	23793854	1	OPMD, PABP2	PAB2
14	PABPN1	ENSG00000100836	ENST00000555295	protein_coding	PUTATIVE	None	8565	289	95	23792654	23794543	1	OPMD, PABP2	PAB2
19	PRMT1	ENSG00000126457	ENST00000529284	protein_coding	KNOWN	None	5187	480	159	50179043	50188073	1	HRMT1L2	HCP1, ANM1
19	PRMT1	ENSG00000126457	ENST00000532489	protein_coding	PUTATIVE	None	5187	978	325	50179154	50191704	1	HRMT1L2	HCP1, ANM1
19	PRMT1	ENSG00000126457	ENST00000527382	protein_coding	KNOWN	None	5187	616	204	50179483	50188289	1	HRMT1L2	HCP1, ANM1
19	PRMT1	ENSG00000126457	ENST00000528623	protein_coding	PUTATIVE	None	5187	190	62	50179498	50185236	1	HRMT1L2	HCP1, ANM1
19	PRMT1	ENSG00000126457	ENST00000534465	protein_coding	KNOWN	None	5187	627	208	50180330	50188300	1	HRMT1L2	HCP1, ANM1
19	PRMT1	ENSG00000126457	ENST00000391851	protein_coding	KNOWN	CCDS42592	5187	1062	353	50180409	50191704	1	HRMT1L2	HCP1, ANM1
19	PRMT1	ENSG00000126457	ENST00000534280	nonsense_mediated_decay	KNOWN	None	5187	165	54	50180430	50187326	1	HRMT1L2	HCP1, ANM1
19	PRMT1	ENSG00000126457	ENST00000534676	retained_intron	KNOWN	None	5187	None	None	50180506	50188472	1	HRMT1L2	HCP1, ANM1
19	PRMT1	ENSG00000126457	ENST00000525915	retained_intron	KNOWN	None	5187	None	None	50180524	50183376	1	HRMT1L2	HCP1, ANM1
19	PRMT1	ENSG00000126457	ENST00000454376	protein_coding	KNOWN	CCDS46145	5187	1116	371	50180529	50191704	1	HRMT1L2	HCP1, ANM1
19	PRMT1	ENSG00000126457	ENST00000525616	retained_intron	KNOWN	None	5187	None	None	50180534	50188285	1	HRMT1L2	HCP1, ANM1
19	PRMT1	ENSG00000126457	ENST00000524771	protein_coding	PUTATIVE	None	5187	713	236	50180551	50188219	1	HRMT1L2	HCP1, ANM1
19	PRMT1	ENSG00000126457	ENST00000529836	protein_coding	PUTATIVE	None	5187	330	109	50180759	50185506	1	HRMT1L2	HCP1, ANM1
19	PRMT1	ENSG00000126457	ENST00000526224	protein_coding	KNOWN	None	5187	482	159	50181482	50188075	1	HRMT1L2	HCP1, ANM1
19	PRMT1	ENSG00000126457	ENST00000527412	protein_coding	PUTATIVE	None	5187	339	112	50183032	50185506	1	HRMT1L2	HCP1, ANM1
19	PRMT1	ENSG00000126457	ENST00000529650	retained_intron	KNOWN	None	5187	None	None	50186892	50188054	1	HRMT1L2	HCP1, ANM1
19	PRMT1	ENSG00000126457	ENST00000530070	processed_transcript	KNOWN	None	5187	None	None	50188084	50188812	1	HRMT1L2	HCP1, ANM1
19	PRMT1	ENSG00000126457	ENST00000530361	processed_transcript	KNOWN	None	5187	None	None	50188562	50191676	1	HRMT1L2	HCP1, ANM1
19	PRMT1	ENSG00000126457	ENST00000528126	retained_intron	KNOWN	None	5187	None	None	50188981	50189983	1	HRMT1L2	HCP1, ANM1
19	PRMT1	ENSG00000126457	ENST00000527866	processed_transcript	KNOWN	None	5187	None	None	50191110	50192286	1	HRMT1L2	HCP1, ANM1
1	ZNF687	ENSG00000143373	ENST00000443959	protein_coding	PUTATIVE	None	29277	441	146	151254094	151259181	1	None	KIAA1441
1	ZNF687	ENSG00000143373	ENST00000336715	protein_coding	KNOWN	CCDS992	29277	3714	1237	151254743	151264656	1	None	KIAA1441
1	ZNF687	ENSG00000143373	ENST00000449313	nonsense_mediated_decay	KNOWN	None	29277	2358	785	151254764	151264371	1	None	KIAA1441
1	ZNF687	ENSG00000143373	ENST00000324048	protein_coding	KNOWN	CCDS992	29277	3714	1237	151254788	151264379	1	None	KIAA1441
1	ZNF687	ENSG00000143373	ENST00000426871	protein_coding	KNOWN	None	29277	2120	705	151259960	151264379	1	None	KIAA1441
1	ZNF687	ENSG00000143373	ENST00000459919	retained_intron	KNOWN	None	29277	None	None	151260667	151262015	1	None	KIAA1441
1	ZNF687	ENSG00000143373	ENST00000436614	protein_coding	PUTATIVE	None	29277	300	99	151262927	151263813	1	None	KIAA1441
1	ZNF687	ENSG00000143373	ENST00000368879	protein_coding	KNOWN	None	29277	3312	1103	151254791	151264380	1	None	KIAA1441
12	CCDC38	ENSG00000165972	ENST00000546816	retained_intron	KNOWN	None	26843	None	None	96260826	96263580	-1	None	FLJ40089
12	CCDC38	ENSG00000165972	ENST00000549876	nonsense_mediated_decay	KNOWN	None	26843	272	89	96260826	96273449	-1	None	FLJ40089
12	CCDC38	ENSG00000165972	ENST00000344280	protein_coding	KNOWN	CCDS9056	26843	1692	563	96260827	96336752	-1	None	FLJ40089
12	CCDC38	ENSG00000165972	ENST00000548771	retained_intron	KNOWN	None	26843	None	None	96290296	96292521	-1	None	FLJ40089
12	CCDC38	ENSG00000165972	ENST00000546947	protein_coding	PUTATIVE	None	26843	186	61	96310905	96336377	-1	None	FLJ40089
12	CCDC38	ENSG00000165972	ENST00000546803	nonsense_mediated_decay	KNOWN	None	26843	144	47	96312658	96336386	-1	None	FLJ40089
12	CCDC38	ENSG00000165972	ENST00000549752	processed_transcript	KNOWN	None	26843	None	None	96312720	96336379	-1	None	FLJ40089
12	CCDC38	ENSG00000165972	ENST00000546386	protein_coding	PUTATIVE	None	26843	42	13	96326963	96336413	-1	None	FLJ40089
12	PRPH	ENSG00000135406	ENST00000551194	processed_transcript	KNOWN	None	9461	None	None	49687035	49687780	1	NEF4	PRPH1
12	PRPH	ENSG00000135406	ENST00000257860	protein_coding	KNOWN	CCDS8783	9461	1413	470	49687485	49692465	1	NEF4	PRPH1
12	PRPH	ENSG00000135406	ENST00000451891	protein_coding	PUTATIVE	None	9461	622	206	49689145	49691021	1	NEF4	PRPH1
12	PRPH	ENSG00000135406	ENST00000533401	retained_intron	KNOWN	None	9461	None	None	49689534	49691207	1	NEF4	PRPH1
12	PRPH	ENSG00000135406	ENST00000537252	retained_intron	KNOWN	None	9461	None	None	49689549	49690673	1	NEF4	PRPH1
12	PRPH	ENSG00000135406	ENST00000532332	protein_coding	NOVEL	None	9461	601	199	49690785	49692375	1	NEF4	PRPH1
12	PRPH	ENSG00000135406	ENST00000530631	retained_intron	KNOWN	None	9461	None	None	49690904	49692431	1	NEF4	PRPH1
6	None	ENSG00000236512	ENST00000456647	processed_pseudogene	KNOWN	None	None	None	None	7620655	7621111	1	None	None
6	None	ENSG00000217746	ENST00000405326	processed_pseudogene	KNOWN	None	None	None	None	7938663	7939555	-1	None	None
6	PIP5K1P1	ENSG00000219294	ENST00000460661	processed_pseudogene	KNOWN	None	28372	None	None	7986770	7988425	1	None	MGC26597
6	PIP5K1P1	ENSG00000219294	ENST00000438779	processed_pseudogene	KNOWN	None	28372	None	None	7986730	7988308	1	None	MGC26597
6	None	ENSG00000232234	ENST00000439891	lincRNA	KNOWN	None	None	None	None	8329888	8342688	1	None	None
6	None	ENSG00000234763	ENST00000415575	lincRNA	KNOWN	None	None	None	None	8342170	8343254	-1	None	None
12	PRB1	ENSG00000251655	ENST00000545626	protein_coding	KNOWN	CCDS55805	9337	537	178	11504757	11508520	-1	None	PM, PMF, PMS, PRB1M, PRB1L
12	PRB1	ENSG00000251655	ENST00000240636	retained_intron	KNOWN	None	9337	None	None	11504757	11508524	-1	None	PM, PMF, PMS, PRB1M, PRB1L
12	PRB1	ENSG00000251655	ENST00000500254	protein_coding	KNOWN	CCDS8642	9337	597	198	11504757	11508525	-1	None	PM, PMF, PMS, PRB1M, PRB1L
12	PRB1	ENSG00000251655	ENST00000546254	protein_coding	KNOWN	None	9337	597	198	11504757	11548500	-1	None	PM, PMF, PMS, PRB1M, PRB1L
6	HULC	ENSG00000251164	ENST00000503668	lincRNA	KNOWN	None	34232	None	None	8652370	8654079	1	None	NCRNA00078, LINC00078, HCCAT1
6	None	ENSG00000230939	ENST00000429060	lincRNA	KNOWN	None	None	None	None	8784411	8785678	1	None	None
1	PROX1	ENSG00000117707	ENST00000471129	protein_coding	KNOWN	None	9459	690	229	214156524	214170568	1	None	None
1	PROX1	ENSG00000117707	ENST00000498508	protein_coding	KNOWN	CCDS31021	9459	2214	737	214161274	214209775	1	None	None
1	PROX1	ENSG00000117707	ENST00000366958	protein_coding	KNOWN	CCDS31021	9459	2214	737	214161286	214214595	1	None	None
1	PROX1	ENSG00000117707	ENST00000607726	processed_transcript	KNOWN	None	9459	None	None	214161297	214161990	1	None	None
1	PROX1	ENSG00000117707	ENST00000607425	protein_coding	KNOWN	None	9459	429	142	214163061	214170307	1	None	None
1	PROX1	ENSG00000117707	ENST00000435016	protein_coding	KNOWN	None	9459	2214	737	214161860	214209760	1	None	None
1	PROX1	ENSG00000117707	ENST00000261454	protein_coding	KNOWN	CCDS31021	9459	2214	737	214169879	214209760	1	None	None
6	None	ENSG00000225775	ENST00000431369	lincRNA	KNOWN	None	None	None	None	9124454	9162010	-1	None	None
9	None	ENSG00000231052	ENST00000445631	lincRNA	KNOWN	None	None	None	None	2541097	2541635	1	None	None
19	KLF2	ENSG00000127528	ENST00000248071	protein_coding	KNOWN	CCDS12343	6347	1068	355	16435628	16438685	1	None	LKLF
19	KLF2	ENSG00000127528	ENST00000592003	protein_coding	PUTATIVE	None	6347	237	78	16435651	16438071	1	None	LKLF
16	DYNLRB2	ENSG00000168589	ENST00000562982	protein_coding	PUTATIVE	None	15467	378	125	80574631	80584538	1	DNCL2B	DNLC2B, ROBLD2
16	DYNLRB2	ENSG00000168589	ENST00000305904	protein_coding	KNOWN	CCDS10929	15467	291	96	80574854	80584541	1	DNCL2B	DNLC2B, ROBLD2
16	DYNLRB2	ENSG00000168589	ENST00000568035	protein_coding	NOVEL	None	15467	123	40	80574890	80584657	1	DNCL2B	DNLC2B, ROBLD2
16	DYNLRB2	ENSG00000168589	ENST00000338542	nonsense_mediated_decay	KNOWN	None	15467	165	54	80574922	80584536	1	DNCL2B	DNLC2B, ROBLD2
16	DYNLRB2	ENSG00000168589	ENST00000561880	nonsense_mediated_decay	KNOWN	None	15467	135	44	80574925	80584545	1	DNCL2B	DNLC2B, ROBLD2
16	DYNLRB2	ENSG00000168589	ENST00000570222	processed_transcript	PUTATIVE	None	15467	None	None	80578596	80584541	1	DNCL2B	DNLC2B, ROBLD2
9	None	ENSG00000236496	ENST00000411761	processed_pseudogene	KNOWN	None	None	None	None	2875442	2876427	-1	None	None
9	None	ENSG00000229184	ENST00000433885	processed_pseudogene	KNOWN	None	None	None	None	2900320	2900804	-1	None	None
7	LRRN3	ENSG00000173114	ENST00000308478	protein_coding	KNOWN	CCDS5754	17200	2127	708	110731062	110764988	1	None	NLRR3, FLJ11129, FIGLER5
7	LRRN3	ENSG00000173114	ENST00000422987	protein_coding	KNOWN	CCDS5754	17200	2127	708	110731088	110765510	1	None	NLRR3, FLJ11129, FIGLER5
7	LRRN3	ENSG00000173114	ENST00000421101	protein_coding	NOVEL	None	17200	821	272	110731099	110763649	1	None	NLRR3, FLJ11129, FIGLER5
7	LRRN3	ENSG00000173114	ENST00000464835	processed_transcript	PUTATIVE	None	17200	None	None	110731150	110737372	1	None	NLRR3, FLJ11129, FIGLER5
7	LRRN3	ENSG00000173114	ENST00000451085	protein_coding	KNOWN	CCDS5754	17200	2127	708	110731062	110765507	1	None	NLRR3, FLJ11129, FIGLER5
9	CARM1P1	ENSG00000227835	ENST00000426329	transcribed_unprocessed_pseudogene	KNOWN	None	23392	None	None	2907073	3053408	-1	CARM1L	None
9	CARM1P1	ENSG00000227835	ENST00000497195	processed_transcript	KNOWN	None	23392	None	None	2919099	2943654	-1	CARM1L	None
9	CARM1P1	ENSG00000227835	ENST00000492533	processed_transcript	KNOWN	None	23392	None	None	2943507	2949586	-1	CARM1L	None
9	CARM1P1	ENSG00000227835	ENST00000515723	processed_transcript	KNOWN	None	23392	None	None	2992062	3014177	-1	CARM1L	None
19	GAPDHS	ENSG00000105679	ENST00000222286	protein_coding	KNOWN	CCDS12465	24864	1227	408	36024314	36036218	1	GAPDS	GAPDH-2, GAPD2
19	GAPDHS	ENSG00000105679	ENST00000586334	nonsense_mediated_decay	KNOWN	None	24864	135	44	36024357	36033891	1	GAPDS	GAPDH-2, GAPD2
19	GAPDHS	ENSG00000105679	ENST00000585510	protein_coding	PUTATIVE	None	24864	537	178	36027685	36033928	1	GAPDS	GAPDH-2, GAPD2
5	GABRA6	ENSG00000145863	ENST00000522269	processed_transcript	KNOWN	None	4080	None	None	160974069	161116000	1	None	None
5	GABRA6	ENSG00000145863	ENST00000518888	processed_transcript	KNOWN	None	4080	None	None	161058736	161112977	1	None	None
5	GABRA6	ENSG00000145863	ENST00000274545	protein_coding	KNOWN	CCDS4356	4080	1362	453	161112563	161129112	1	None	None
5	GABRA6	ENSG00000145863	ENST00000523217	protein_coding	KNOWN	None	4080	1332	443	161112754	161129598	1	None	None
5	GABRA6	ENSG00000145863	ENST00000524220	retained_intron	KNOWN	None	4080	None	None	161113068	161116173	1	None	None
5	GABRA6	ENSG00000145863	ENST00000520000	protein_coding	PUTATIVE	None	4080	591	196	161114486	161117305	1	None	None
5	GABRA6	ENSG00000145863	ENST00000517823	protein_coding	PUTATIVE	None	4080	555	184	161114502	161117247	1	None	None
5	GABRA6	ENSG00000145863	ENST00000523691	protein_coding	NOVEL	None	4080	573	190	161116045	161117346	1	None	None
5	GABRA6	ENSG00000145863	ENST00000521520	retained_intron	KNOWN	None	4080	None	None	161116541	161129599	1	None	None
6	None	ENSG00000216368	ENST00000401715	processed_pseudogene	KNOWN	None	None	None	None	10118685	10119486	1	None	None
6	None	ENSG00000229765	ENST00000417077	processed_pseudogene	KNOWN	None	None	None	None	10214114	10214595	-1	None	None
6	RNU6ATAC21P	ENSG00000221583	ENST00000408656	snRNA	KNOWN	None	46920	None	None	10222269	10222394	1	None	None
6	None	ENSG00000216781	ENST00000405921	processed_pseudogene	KNOWN	None	None	None	None	10365826	10366815	-1	None	None
4	GLRA3	ENSG00000145451	ENST00000274093	protein_coding	KNOWN	CCDS3822	4328	1395	464	175558065	175750465	-1	None	None
4	GLRA3	ENSG00000145451	ENST00000340217	protein_coding	KNOWN	CCDS43283	4328	1350	449	175563638	175750378	-1	None	None
4	GLRA3	ENSG00000145451	ENST00000483010	processed_transcript	KNOWN	None	4328	None	None	175633666	175634924	-1	None	None
4	GLRA3	ENSG00000145451	ENST00000436738	processed_transcript	PUTATIVE	None	4328	None	None	175643775	175649849	-1	None	None
15	GANC	ENSG00000214013	ENST00000561871	protein_coding	KNOWN	None	4139	29	8	42565431	42566708	1	None	None
15	GANC	ENSG00000214013	ENST00000562170	protein_coding	KNOWN	None	4139	203	66	42565484	42570790	1	None	None
15	GANC	ENSG00000214013	ENST00000562859	protein_coding	KNOWN	None	4139	421	139	42565493	42585024	1	None	None
15	GANC	ENSG00000214013	ENST00000566442	protein_coding	PUTATIVE	None	4139	1074	357	42565856	42607031	1	None	None
15	GANC	ENSG00000214013	ENST00000440615	protein_coding	PUTATIVE	None	4139	849	282	42566440	42576587	1	None	None
15	GANC	ENSG00000214013	ENST00000318010	protein_coding	KNOWN	CCDS10084	4139	2745	914	42566440	42645864	1	None	None
15	GANC	ENSG00000214013	ENST00000567784	nonsense_mediated_decay	KNOWN	None	4139	114	37	42566442	42579920	1	None	None
15	GANC	ENSG00000214013	ENST00000570013	nonsense_mediated_decay	KNOWN	None	4139	114	37	42566462	42576100	1	None	None
15	GANC	ENSG00000214013	ENST00000568687	retained_intron	KNOWN	None	4139	None	None	42568470	42573310	1	None	None
15	GANC	ENSG00000214013	ENST00000567421	retained_intron	KNOWN	None	4139	None	None	42568544	42619693	1	None	None
15	GANC	ENSG00000214013	ENST00000568953	retained_intron	KNOWN	None	4139	None	None	42618499	42621702	1	None	None
15	GANC	ENSG00000214013	ENST00000567596	protein_coding	PUTATIVE	None	4139	341	112	42635540	42644306	1	None	None
15	GANC	ENSG00000214013	ENST00000566690	protein_coding	PUTATIVE	None	4139	311	102	42636893	42644276	1	None	None
6	None	ENSG00000229950	ENST00000420777	antisense	KNOWN	None	None	None	None	10409573	10416679	1	None	None
6	None	ENSG00000229950	ENST00000443546	antisense	KNOWN	None	None	None	None	10414811	10415955	1	None	None
6	None	ENSG00000228478	ENST00000420389	lincRNA	KNOWN	None	None	None	None	10423373	10426409	-1	None	None
6	FBXO5	ENSG00000112029	ENST00000477822	processed_transcript	KNOWN	None	13584	None	None	153291664	153295120	-1	None	FBX5, Fbxo31, EMI1
6	FBXO5	ENSG00000112029	ENST00000229758	protein_coding	KNOWN	CCDS5242	13584	1344	447	153291664	153304153	-1	None	FBX5, Fbxo31, EMI1
6	FBXO5	ENSG00000112029	ENST00000367241	protein_coding	KNOWN	CCDS47501	13584	1206	401	153291664	153304714	-1	None	FBX5, Fbxo31, EMI1
5	FBN2	ENSG00000138829	ENST00000508053	protein_coding	KNOWN	CCDS34222	3604	8739	2912	127593729	127994878	-1	CCA	DA9
5	FBN2	ENSG00000138829	ENST00000507835	protein_coding	PUTATIVE	None	3604	1071	356	127663762	127674883	-1	CCA	DA9
5	FBN2	ENSG00000138829	ENST00000508989	protein_coding	PUTATIVE	None	3604	4422	1473	127663991	127873514	-1	CCA	DA9
5	FBN2	ENSG00000138829	ENST00000511489	processed_transcript	KNOWN	None	3604	None	None	127700863	127713514	-1	CCA	DA9
5	FBN2	ENSG00000138829	ENST00000502468	protein_coding	PUTATIVE	None	3604	1026	341	127777691	127873916	-1	CCA	DA9
5	FBN2	ENSG00000138829	ENST00000514742	retained_intron	KNOWN	None	3604	None	None	127781769	127873916	-1	CCA	DA9
5	FBN2	ENSG00000138829	ENST00000262464	protein_coding	KNOWN	CCDS34222	3604	8739	2912	127593601	127873735	-1	CCA	DA9
12	AMDHD1	ENSG00000139344	ENST00000266736	protein_coding	KNOWN	CCDS9057	28577	1281	426	96337071	96362370	1	None	MGC35366
12	AMDHD1	ENSG00000139344	ENST00000548310	nonsense_mediated_decay	KNOWN	None	28577	335	110	96337298	96362367	1	None	MGC35366
12	AMDHD1	ENSG00000139344	ENST00000553023	protein_coding	PUTATIVE	None	28577	18	5	96340834	96350474	1	None	MGC35366
12	AMDHD1	ENSG00000139344	ENST00000549171	retained_intron	KNOWN	None	28577	None	None	96350419	96354391	1	None	MGC35366
6	SCML4	ENSG00000146285	ENST00000369022	protein_coding	NOVEL	None	21397	1071	356	108025308	108145521	-1	None	dJ47M23.1
6	SCML4	ENSG00000146285	ENST00000369025	protein_coding	PUTATIVE	None	21397	519	172	108025855	108053599	-1	None	dJ47M23.1
6	SCML4	ENSG00000146285	ENST00000369020	protein_coding	NOVEL	CCDS5060	21397	1245	414	108026404	108145516	-1	None	dJ47M23.1
6	SCML4	ENSG00000146285	ENST00000476798	retained_intron	KNOWN	None	21397	None	None	108039649	108053307	-1	None	dJ47M23.1
6	SCML4	ENSG00000146285	ENST00000473515	retained_intron	KNOWN	None	21397	None	None	108040159	108145516	-1	None	dJ47M23.1
6	SCML4	ENSG00000146285	ENST00000459992	retained_intron	KNOWN	None	21397	None	None	108040934	108093455	-1	None	dJ47M23.1
6	SCML4	ENSG00000146285	ENST00000463507	retained_intron	KNOWN	None	21397	None	None	108041875	108145498	-1	None	dJ47M23.1
6	SCML4	ENSG00000146285	ENST00000479803	processed_transcript	KNOWN	None	21397	None	None	108041913	108065258	-1	None	dJ47M23.1
6	SCML4	ENSG00000146285	ENST00000426221	nonsense_mediated_decay	KNOWN	None	21397	516	171	108061269	108145490	-1	None	dJ47M23.1
6	SCML4	ENSG00000146285	ENST00000440927	protein_coding	PUTATIVE	None	21397	595	197	108066153	108093455	-1	None	dJ47M23.1
6	SCML4	ENSG00000146285	ENST00000369021	protein_coding	KNOWN	None	21397	918	305	108041441	108076843	-1	None	dJ47M23.1
1	SMYD2	ENSG00000143499	ENST00000491455	processed_transcript	KNOWN	None	20982	None	None	214454445	214510474	1	None	HSKM-B, ZMYND14, KMT3C
1	SMYD2	ENSG00000143499	ENST00000471645	retained_intron	KNOWN	None	20982	None	None	214454468	214510473	1	None	HSKM-B, ZMYND14, KMT3C
1	SMYD2	ENSG00000143499	ENST00000460580	processed_transcript	KNOWN	None	20982	None	None	214454565	214510474	1	None	HSKM-B, ZMYND14, KMT3C
1	SMYD2	ENSG00000143499	ENST00000366957	protein_coding	KNOWN	CCDS31022	20982	1302	433	214454576	214510474	1	None	HSKM-B, ZMYND14, KMT3C
1	SMYD2	ENSG00000143499	ENST00000484459	processed_transcript	PUTATIVE	None	20982	None	None	214500837	214504413	1	None	HSKM-B, ZMYND14, KMT3C
1	SMYD2	ENSG00000143499	ENST00000416415	protein_coding	NOVEL	None	20982	291	96	214504320	214510474	1	None	HSKM-B, ZMYND14, KMT3C
1	SMYD2	ENSG00000143499	ENST00000415093	protein_coding	KNOWN	None	20982	819	272	214454576	214510177	1	None	HSKM-B, ZMYND14, KMT3C
2	TGFA	ENSG00000163235	ENST00000295400	protein_coding	KNOWN	CCDS1905	11765	483	160	70674412	70781147	-1	None	None
2	TGFA	ENSG00000163235	ENST00000419940	protein_coding	PUTATIVE	None	11765	395	130	70676451	70692865	-1	None	None
2	TGFA	ENSG00000163235	ENST00000445399	protein_coding	PUTATIVE	None	11765	486	161	70676451	70780904	-1	None	None
2	TGFA	ENSG00000163235	ENST00000418333	protein_coding	KNOWN	CCDS46316	11765	480	159	70677305	70780958	-1	None	None
2	TGFA	ENSG00000163235	ENST00000450929	protein_coding	PUTATIVE	None	11765	498	165	70677788	70780622	-1	None	None
2	TGFA	ENSG00000163235	ENST00000444975	protein_coding	PUTATIVE	None	11765	501	166	70677904	70780770	-1	None	None
2	TGFA	ENSG00000163235	ENST00000394241	protein_coding	NOVEL	None	11765	362	119	70683471	70781105	-1	None	None
2	TGFA	ENSG00000163235	ENST00000460808	processed_transcript	KNOWN	None	11765	None	None	70683498	70780958	-1	None	None
2	TGFA	ENSG00000163235	ENST00000474101	processed_transcript	PUTATIVE	None	11765	None	None	70741991	70781325	-1	None	None
6	LINC00518	ENSG00000183674	ENST00000496285	lincRNA	KNOWN	None	28626	None	None	10429488	10435055	-1	C6orf218	MGC40222
6	LINC00518	ENSG00000183674	ENST00000487130	lincRNA	KNOWN	None	28626	None	None	10429781	10435107	-1	C6orf218	MGC40222
6	LINC00518	ENSG00000183674	ENST00000472178	lincRNA	KNOWN	None	28626	None	None	10429942	10434728	-1	C6orf218	MGC40222
6	LINC00518	ENSG00000183674	ENST00000479822	lincRNA	KNOWN	None	28626	None	None	10429951	10435068	-1	C6orf218	MGC40222
6	LINC00518	ENSG00000183674	ENST00000491317	lincRNA	KNOWN	None	28626	None	None	10430029	10435050	-1	C6orf218	MGC40222
19	TYROBP	ENSG00000011600	ENST00000587837	nonsense_mediated_decay	KNOWN	None	12449	108	35	36395303	36399197	-1	PLOSL	DAP12, PLO-SL, KARAP
19	TYROBP	ENSG00000011600	ENST00000424586	protein_coding	PUTATIVE	CCDS59378	12449	306	101	36395303	36399197	-1	PLOSL	DAP12, PLO-SL, KARAP
19	TYROBP	ENSG00000011600	ENST00000585901	protein_coding	PUTATIVE	None	12449	435	144	36395305	36399149	-1	PLOSL	DAP12, PLO-SL, KARAP
19	TYROBP	ENSG00000011600	ENST00000544690	protein_coding	KNOWN	CCDS54255	12449	309	102	36395305	36399177	-1	PLOSL	DAP12, PLO-SL, KARAP
19	TYROBP	ENSG00000011600	ENST00000262629	protein_coding	KNOWN	CCDS12482	12449	342	113	36395312	36399197	-1	PLOSL	DAP12, PLO-SL, KARAP
19	TYROBP	ENSG00000011600	ENST00000586946	nonsense_mediated_decay	KNOWN	None	12449	108	35	36395348	36399197	-1	PLOSL	DAP12, PLO-SL, KARAP
19	TYROBP	ENSG00000011600	ENST00000588439	retained_intron	KNOWN	None	12449	None	None	36395363	36399125	-1	PLOSL	DAP12, PLO-SL, KARAP
19	TYROBP	ENSG00000011600	ENST00000589517	protein_coding	KNOWN	CCDS46058	12449	339	112	36395462	36399197	-1	PLOSL	DAP12, PLO-SL, KARAP
19	TYROBP	ENSG00000011600	ENST00000585626	retained_intron	KNOWN	None	12449	None	None	36398196	36399197	-1	PLOSL	DAP12, PLO-SL, KARAP
8	None	ENSG00000254019	ENST00000518520	protein_coding	PUTATIVE	None	None	420	139	142264664	142266916	1	None	None
17	C17orf50	ENSG00000154768	ENST00000586491	protein_coding	PUTATIVE	None	29581	411	136	34087916	34091633	1	None	None
17	C17orf50	ENSG00000154768	ENST00000588628	protein_coding	PUTATIVE	None	29581	522	173	34087928	34091616	1	None	None
17	C17orf50	ENSG00000154768	ENST00000285023	protein_coding	KNOWN	CCDS42298	29581	525	174	34087929	34092098	1	None	None
3	IMPDH2	ENSG00000178035	ENST00000472328	retained_intron	KNOWN	None	6053	None	None	49061758	49062409	-1	None	None
3	IMPDH2	ENSG00000178035	ENST00000466147	retained_intron	KNOWN	None	6053	None	None	49061758	49062626	-1	None	None
3	IMPDH2	ENSG00000178035	ENST00000429182	protein_coding	PUTATIVE	None	6053	1411	469	49061758	49065906	-1	None	None
3	IMPDH2	ENSG00000178035	ENST00000326739	protein_coding	KNOWN	CCDS2786	6053	1545	514	49061758	49066823	-1	None	None
3	IMPDH2	ENSG00000178035	ENST00000463903	retained_intron	KNOWN	None	6053	None	None	49061762	49062271	-1	None	None
3	IMPDH2	ENSG00000178035	ENST00000484872	retained_intron	KNOWN	None	6053	None	None	49061776	49062676	-1	None	None
3	IMPDH2	ENSG00000178035	ENST00000481274	retained_intron	KNOWN	None	6053	None	None	49061924	49062848	-1	None	None
3	IMPDH2	ENSG00000178035	ENST00000462980	retained_intron	KNOWN	None	6053	None	None	49063757	49065575	-1	None	None
3	IMPDH2	ENSG00000178035	ENST00000442157	protein_coding	PUTATIVE	None	6053	837	278	49063950	49066811	-1	None	None
3	IMPDH2	ENSG00000178035	ENST00000491610	retained_intron	KNOWN	None	6053	None	None	49063978	49065560	-1	None	None
3	IMPDH2	ENSG00000178035	ENST00000485500	retained_intron	KNOWN	None	6053	None	None	49065144	49066831	-1	None	None
3	IMPDH2	ENSG00000178035	ENST00000496837	retained_intron	KNOWN	None	6053	None	None	49065303	49066841	-1	None	None
8	GPR20	ENSG00000204882	ENST00000377741	protein_coding	KNOWN	CCDS34949	4475	1077	358	142366600	142377367	-1	None	None
16	ZP2	ENSG00000103310	ENST00000574091	protein_coding	NOVEL	None	13188	2211	736	21208773	21222868	-1	None	None
16	ZP2	ENSG00000103310	ENST00000574002	protein_coding	KNOWN	CCDS10596	13188	2238	745	21208773	21225831	-1	None	None
16	ZP2	ENSG00000103310	ENST00000573114	retained_intron	KNOWN	None	13188	None	None	21213099	21213610	-1	None	None
16	ZP2	ENSG00000103310	ENST00000576162	retained_intron	KNOWN	None	13188	None	None	21215112	21222895	-1	None	None
16	ZP2	ENSG00000103310	ENST00000572752	retained_intron	KNOWN	None	13188	None	None	21216887	21222880	-1	None	None
16	ZP2	ENSG00000103310	ENST00000219593	protein_coding	KNOWN	CCDS10596	13188	2238	745	21208773	21222868	-1	None	None
1	PI4KB	ENSG00000143393	ENST00000368874	protein_coding	KNOWN	CCDS55638	8984	2406	801	151264273	151300191	-1	PIK4CB	PI4K-BETA, pi4K92
1	PI4KB	ENSG00000143393	ENST00000368875	protein_coding	KNOWN	CCDS993	8984	2487	828	151264413	151300133	-1	PIK4CB	PI4K-BETA, pi4K92
1	PI4KB	ENSG00000143393	ENST00000368873	protein_coding	KNOWN	None	8984	2451	816	151264608	151299887	-1	PIK4CB	PI4K-BETA, pi4K92
1	PI4KB	ENSG00000143393	ENST00000529142	protein_coding	KNOWN	CCDS55637	8984	1455	484	151264609	151300133	-1	PIK4CB	PI4K-BETA, pi4K92
1	PI4KB	ENSG00000143393	ENST00000368872	protein_coding	KNOWN	CCDS55638	8984	2406	801	151264955	151299895	-1	PIK4CB	PI4K-BETA, pi4K92
1	PI4KB	ENSG00000143393	ENST00000455060	protein_coding	NOVEL	None	8984	684	227	151265078	151271468	-1	PIK4CB	PI4K-BETA, pi4K92
1	PI4KB	ENSG00000143393	ENST00000446339	protein_coding	PUTATIVE	None	8984	221	72	151265099	151266949	-1	PIK4CB	PI4K-BETA, pi4K92
1	PI4KB	ENSG00000143393	ENST00000489889	protein_coding	PUTATIVE	None	8984	552	183	151266095	151271510	-1	PIK4CB	PI4K-BETA, pi4K92
1	PI4KB	ENSG00000143393	ENST00000469239	retained_intron	KNOWN	None	8984	None	None	151270901	151274342	-1	PIK4CB	PI4K-BETA, pi4K92
1	PI4KB	ENSG00000143393	ENST00000430800	protein_coding	KNOWN	None	8984	575	190	151274724	151299892	-1	PIK4CB	PI4K-BETA, pi4K92
1	PI4KB	ENSG00000143393	ENST00000460323	retained_intron	KNOWN	None	8984	None	None	151275830	151278909	-1	PIK4CB	PI4K-BETA, pi4K92
1	PI4KB	ENSG00000143393	ENST00000489223	protein_coding	KNOWN	None	8984	286	94	151278740	151299876	-1	PIK4CB	PI4K-BETA, pi4K92
1	PI4KB	ENSG00000143393	ENST00000438243	protein_coding	KNOWN	None	8984	842	279	151288116	151299853	-1	PIK4CB	PI4K-BETA, pi4K92
1	PI4KB	ENSG00000143393	ENST00000271657	protein_coding	KNOWN	CCDS993	8984	2487	828	151264413	151298724	-1	PIK4CB	PI4K-BETA, pi4K92
15	PEX11A	ENSG00000166821	ENST00000557982	processed_transcript	KNOWN	None	8852	None	None	90220995	90234013	-1	None	PEX11-ALPHA, MGC119947, MGC138534
15	PEX11A	ENSG00000166821	ENST00000561224	protein_coding	PUTATIVE	None	8852	195	64	90224536	90233984	-1	None	PEX11-ALPHA, MGC119947, MGC138534
15	PEX11A	ENSG00000166821	ENST00000300056	protein_coding	KNOWN	CCDS10354	8852	744	247	90224762	90234013	-1	None	PEX11-ALPHA, MGC119947, MGC138534
15	PEX11A	ENSG00000166821	ENST00000561257	protein_coding	NOVEL	None	8852	651	216	90226311	90233893	-1	None	PEX11-ALPHA, MGC119947, MGC138534
15	PEX11A	ENSG00000166821	ENST00000559170	protein_coding	PUTATIVE	None	8852	99	32	90226482	90234014	-1	None	PEX11-ALPHA, MGC119947, MGC138534
8	PNOC	ENSG00000168081	ENST00000518479	protein_coding	KNOWN	None	9163	463	153	28174503	28196893	1	None	PPNOC
8	PNOC	ENSG00000168081	ENST00000301908	protein_coding	KNOWN	CCDS6066	9163	531	176	28174649	28200872	1	None	PPNOC
8	PNOC	ENSG00000168081	ENST00000519592	retained_intron	KNOWN	None	9163	None	None	28196165	28197725	1	None	PPNOC
8	PNOC	ENSG00000168081	ENST00000522209	protein_coding	PUTATIVE	None	9163	339	112	28196165	28200872	1	None	PPNOC
7	STK17A	ENSG00000164543	ENST00000462448	processed_transcript	KNOWN	None	11395	None	None	43622357	43659322	1	None	DRAK1
7	STK17A	ENSG00000164543	ENST00000319357	protein_coding	KNOWN	CCDS5470	11395	1245	414	43622664	43666385	1	None	DRAK1
7	STK17A	ENSG00000164543	ENST00000474211	retained_intron	KNOWN	None	11395	None	None	43661888	43664783	1	None	DRAK1
7	ZNF138	ENSG00000197008	ENST00000307355	protein_coding	NOVEL	None	12922	960	319	64254766	64292580	1	None	pHZ-32
7	ZNF138	ENSG00000197008	ENST00000494380	protein_coding	PUTATIVE	CCDS55115	12922	381	126	64254803	64292181	1	None	pHZ-32
7	ZNF138	ENSG00000197008	ENST00000440155	protein_coding	NOVEL	CCDS34645	12922	882	293	64254803	64292620	1	None	pHZ-32
7	ZNF138	ENSG00000197008	ENST00000440598	protein_coding	PUTATIVE	None	12922	189	62	64254806	64293705	1	None	pHZ-32
7	ZNF138	ENSG00000197008	ENST00000437743	protein_coding	PUTATIVE	None	12922	864	287	64254806	64294042	1	None	pHZ-32
7	ZNF138	ENSG00000197008	ENST00000430838	processed_transcript	KNOWN	None	12922	None	None	64254868	64294054	1	None	pHZ-32
7	ZNF138	ENSG00000197008	ENST00000359735	protein_coding	KNOWN	None	12922	789	262	64254771	64294026	1	None	pHZ-32
7	ZNF138	ENSG00000197008	ENST00000397136	protein_coding	KNOWN	None	12922	789	262	64275995	64294026	1	None	pHZ-32
8	PTP4A3	ENSG00000184489	ENST00000521578	protein_coding	KNOWN	CCDS6383	9636	522	173	142402093	142441394	1	None	PRL-3, PRL-R, PRL3
8	PTP4A3	ENSG00000184489	ENST00000520105	protein_coding	KNOWN	CCDS6382	9636	447	148	142402095	142441620	1	None	PRL-3, PRL-R, PRL3
8	PTP4A3	ENSG00000184489	ENST00000523147	protein_coding	KNOWN	None	9636	211	69	142402121	142437051	1	None	PRL-3, PRL-R, PRL3
8	PTP4A3	ENSG00000184489	ENST00000524028	protein_coding	PUTATIVE	None	9636	264	87	142432118	142441620	1	None	PRL-3, PRL-R, PRL3
8	PTP4A3	ENSG00000184489	ENST00000329397	protein_coding	KNOWN	CCDS6383	9636	522	173	142432007	142441620	1	None	PRL-3, PRL-R, PRL3
8	PTP4A3	ENSG00000184489	ENST00000349124	protein_coding	KNOWN	CCDS6382	9636	447	148	142432007	142441620	1	None	PRL-3, PRL-R, PRL3
19	TLE6	ENSG00000104953	ENST00000246112	protein_coding	KNOWN	CCDS45910	30788	1719	572	2977444	2995177	1	None	FLJ14009, GRG6
19	TLE6	ENSG00000104953	ENST00000453329	protein_coding	NOVEL	None	30788	464	153	2977536	2987159	1	None	FLJ14009, GRG6
19	TLE6	ENSG00000104953	ENST00000482627	protein_coding	PUTATIVE	None	30788	138	45	2977548	2980405	1	None	FLJ14009, GRG6
19	TLE6	ENSG00000104953	ENST00000468176	processed_transcript	KNOWN	None	30788	None	None	2977562	2987972	1	None	FLJ14009, GRG6
19	TLE6	ENSG00000104953	ENST00000452088	protein_coding	KNOWN	CCDS12100	30788	1350	449	2977578	2995177	1	None	FLJ14009, GRG6
19	TLE6	ENSG00000104953	ENST00000591953	processed_transcript	KNOWN	None	30788	None	None	2983904	2987185	1	None	FLJ14009, GRG6
19	TLE6	ENSG00000104953	ENST00000478073	processed_transcript	KNOWN	None	30788	None	None	2984146	2989758	1	None	FLJ14009, GRG6
19	TLE6	ENSG00000104953	ENST00000474207	retained_intron	KNOWN	None	30788	None	None	2984175	2988062	1	None	FLJ14009, GRG6
19	TLE6	ENSG00000104953	ENST00000497878	retained_intron	KNOWN	None	30788	None	None	2987409	2995149	1	None	FLJ14009, GRG6
19	TLE6	ENSG00000104953	ENST00000469572	retained_intron	KNOWN	None	30788	None	None	2988947	2991937	1	None	FLJ14009, GRG6
2	TTN	ENSG00000155657	ENST00000342992	protein_coding	KNOWN	CCDS54424	12403	100272	33423	179390716	179672148	-1	CMD1G	CMPD4, FLJ32040, TMD, CMH9, LGMD2J, MYLK5
2	TTN	ENSG00000155657	ENST00000460472	protein_coding	KNOWN	CCDS54421	12403	80781	26926	179390716	179672150	-1	CMD1G	CMPD4, FLJ32040, TMD, CMH9, LGMD2J, MYLK5
2	TTN	ENSG00000155657	ENST00000589042	protein_coding	PUTATIVE	CCDS59435	12403	107976	35991	179390716	179672150	-1	CMD1G	CMPD4, FLJ32040, TMD, CMH9, LGMD2J, MYLK5
2	TTN	ENSG00000155657	ENST00000591111	protein_coding	PUTATIVE	None	12403	103053	34350	179390716	179672150	-1	CMD1G	CMPD4, FLJ32040, TMD, CMH9, LGMD2J, MYLK5
2	TTN	ENSG00000155657	ENST00000414766	protein_coding	NOVEL	None	12403	2887	961	179501479	179567247	-1	CMD1G	CMPD4, FLJ32040, TMD, CMH9, LGMD2J, MYLK5
2	TTN	ENSG00000155657	ENST00000426232	protein_coding	NOVEL	None	12403	766	254	179504499	179516247	-1	CMD1G	CMPD4, FLJ32040, TMD, CMH9, LGMD2J, MYLK5
2	TTN	ENSG00000155657	ENST00000446966	protein_coding	NOVEL	None	12403	1118	371	179504804	179516243	-1	CMD1G	CMPD4, FLJ32040, TMD, CMH9, LGMD2J, MYLK5
2	TTN	ENSG00000155657	ENST00000425332	protein_coding	NOVEL	None	12403	723	240	179528354	179532034	-1	CMD1G	CMPD4, FLJ32040, TMD, CMH9, LGMD2J, MYLK5
2	TTN	ENSG00000155657	ENST00000448510	protein_coding	NOVEL	None	12403	519	172	179534352	179537145	-1	CMD1G	CMPD4, FLJ32040, TMD, CMH9, LGMD2J, MYLK5
2	TTN	ENSG00000155657	ENST00000360870	protein_coding	KNOWN	CCDS33337	12403	16815	5604	179609132	179672148	-1	CMD1G	CMPD4, FLJ32040, TMD, CMH9, LGMD2J, MYLK5
2	TTN	ENSG00000155657	ENST00000436599	protein_coding	NOVEL	None	12403	641	212	179650816	179659681	-1	CMD1G	CMPD4, FLJ32040, TMD, CMH9, LGMD2J, MYLK5
2	TTN	ENSG00000155657	ENST00000470257	retained_intron	KNOWN	None	12403	None	None	179663222	179672135	-1	CMD1G	CMPD4, FLJ32040, TMD, CMH9, LGMD2J, MYLK5
2	TTN	ENSG00000155657	ENST00000412264	protein_coding	KNOWN	None	12403	146	47	179667014	179695529	-1	CMD1G	CMPD4, FLJ32040, TMD, CMH9, LGMD2J, MYLK5
2	TTN	ENSG00000155657	ENST00000342175	protein_coding	KNOWN	CCDS54422	12403	81357	27118	179390716	179672150	-1	CMD1G	CMPD4, FLJ32040, TMD, CMH9, LGMD2J, MYLK5
2	TTN	ENSG00000155657	ENST00000359218	protein_coding	KNOWN	CCDS54423	12403	81156	27051	179390716	179672150	-1	CMD1G	CMPD4, FLJ32040, TMD, CMH9, LGMD2J, MYLK5
10	VWA2	ENSG00000165816	ENST00000298715	retained_intron	KNOWN	None	24709	None	None	115999089	116049751	1	None	FLJ45857, FLJ16213, CCSP-2, AMACO, NET42
10	VWA2	ENSG00000165816	ENST00000392982	protein_coding	KNOWN	None	24709	2268	755	115999089	116051272	1	None	FLJ45857, FLJ16213, CCSP-2, AMACO, NET42
10	VWA2	ENSG00000165816	ENST00000603594	protein_coding	KNOWN	CCDS7589	24709	2178	725	115999018	116049751	1	None	FLJ45857, FLJ16213, CCSP-2, AMACO, NET42
19	CLC	ENSG00000105205	ENST00000221804	protein_coding	KNOWN	CCDS33025	2014	429	142	40221890	40228668	-1	None	LGALS10, MGC149659, Gal-10
8	ZNF395	ENSG00000186918	ENST00000344423	protein_coding	KNOWN	CCDS6067	18737	1542	513	28203102	28243983	-1	None	PRF-1, HDBP2, PBF, DKFZp434K1210
8	ZNF395	ENSG00000186918	ENST00000520535	protein_coding	PUTATIVE	None	18737	93	30	28205795	28209083	-1	None	PRF-1, HDBP2, PBF, DKFZp434K1210
8	ZNF395	ENSG00000186918	ENST00000523202	protein_coding	KNOWN	CCDS6067	18737	1542	513	28206046	28242914	-1	None	PRF-1, HDBP2, PBF, DKFZp434K1210
8	ZNF395	ENSG00000186918	ENST00000523095	protein_coding	KNOWN	CCDS6067	18737	1542	513	28206076	28243590	-1	None	PRF-1, HDBP2, PBF, DKFZp434K1210
8	ZNF395	ENSG00000186918	ENST00000517372	retained_intron	KNOWN	None	18737	None	None	28208935	28210771	-1	None	PRF-1, HDBP2, PBF, DKFZp434K1210
8	ZNF395	ENSG00000186918	ENST00000521912	protein_coding	KNOWN	None	18737	563	186	28214207	28232896	-1	None	PRF-1, HDBP2, PBF, DKFZp434K1210
8	ZNF395	ENSG00000186918	ENST00000520290	protein_coding	KNOWN	None	18737	470	155	28217112	28243963	-1	None	PRF-1, HDBP2, PBF, DKFZp434K1210
8	ZNF395	ENSG00000186918	ENST00000521185	protein_coding	KNOWN	None	18737	373	123	28217209	28243945	-1	None	PRF-1, HDBP2, PBF, DKFZp434K1210
8	ZNF395	ENSG00000186918	ENST00000522795	protein_coding	KNOWN	None	18737	308	101	28217274	28243655	-1	None	PRF-1, HDBP2, PBF, DKFZp434K1210
8	ZNF395	ENSG00000186918	ENST00000517459	protein_coding	KNOWN	None	18737	142	46	28218500	28260218	-1	None	PRF-1, HDBP2, PBF, DKFZp434K1210
8	ZNF395	ENSG00000186918	ENST00000519730	processed_transcript	KNOWN	None	18737	None	None	28222865	28232895	-1	None	PRF-1, HDBP2, PBF, DKFZp434K1210
4	ADAM29	ENSG00000168594	ENST00000507652	processed_transcript	KNOWN	None	207	None	None	175750819	175791938	1	None	svph1, CT73
4	ADAM29	ENSG00000168594	ENST00000507969	processed_transcript	KNOWN	None	207	None	None	175750840	175852325	1	None	svph1, CT73
4	ADAM29	ENSG00000168594	ENST00000513477	retained_intron	KNOWN	None	207	None	None	175839509	175852549	1	None	svph1, CT73
4	ADAM29	ENSG00000168594	ENST00000505141	protein_coding	KNOWN	None	207	43	13	175839509	175896719	1	None	svph1, CT73
4	ADAM29	ENSG00000168594	ENST00000502940	protein_coding	KNOWN	None	207	269	88	175839517	175896945	1	None	svph1, CT73
4	ADAM29	ENSG00000168594	ENST00000502305	protein_coding	KNOWN	None	207	132	43	175839523	175896808	1	None	svph1, CT73
4	ADAM29	ENSG00000168594	ENST00000510280	processed_transcript	KNOWN	None	207	None	None	175839526	175858128	1	None	svph1, CT73
4	ADAM29	ENSG00000168594	ENST00000515538	processed_transcript	KNOWN	None	207	None	None	175839557	175896553	1	None	svph1, CT73
4	ADAM29	ENSG00000168594	ENST00000404450	protein_coding	KNOWN	CCDS3823	207	2463	820	175839557	175899331	1	None	svph1, CT73
4	ADAM29	ENSG00000168594	ENST00000514159	protein_coding	KNOWN	CCDS3823	207	2463	820	175839562	175899256	1	None	svph1, CT73
4	ADAM29	ENSG00000168594	ENST00000359240	protein_coding	KNOWN	CCDS3823	207	2463	820	175839509	175899331	1	None	svph1, CT73
4	ADAM29	ENSG00000168594	ENST00000445694	protein_coding	KNOWN	CCDS3823	207	2463	820	175839509	175899331	1	None	svph1, CT73
16	COX6A2	ENSG00000156885	ENST00000287490	protein_coding	KNOWN	CCDS10712	2279	294	97	31439052	31439749	-1	None	None
16	COX6A2	ENSG00000156885	ENST00000565462	retained_intron	KNOWN	None	2279	None	None	31439097	31439967	-1	None	None
1	PTPN14	ENSG00000152104	ENST00000366956	protein_coding	KNOWN	CCDS1514	9647	3564	1187	214522039	214724566	-1	None	PEZ
1	PTPN14	ENSG00000152104	ENST00000473261	processed_transcript	KNOWN	None	9647	None	None	214545589	214549749	-1	None	PEZ
1	PTPN14	ENSG00000152104	ENST00000486173	processed_transcript	KNOWN	None	9647	None	None	214638045	214725792	-1	None	PEZ
1	PTPN14	ENSG00000152104	ENST00000491277	processed_transcript	PUTATIVE	None	9647	None	None	214701619	214724945	-1	None	PEZ
1	PTPN14	ENSG00000152104	ENST00000543945	protein_coding	KNOWN	None	9647	636	211	214531268	214638146	-1	None	PEZ
14	None	ENSG00000268702	ENST00000594872	protein_coding	NOVEL	None	None	279	92	23790839	23791484	-1	None	None
5	GABRA1	ENSG00000022355	ENST00000023897	protein_coding	KNOWN	CCDS4357	4075	1371	456	161274197	161324672	1	None	EJM5
5	GABRA1	ENSG00000022355	ENST00000428797	protein_coding	KNOWN	CCDS4357	4075	1371	456	161274685	161326975	1	None	EJM5
5	GABRA1	ENSG00000022355	ENST00000393943	protein_coding	KNOWN	CCDS4357	4075	1371	456	161274940	161324672	1	None	EJM5
5	GABRA1	ENSG00000022355	ENST00000437025	protein_coding	KNOWN	CCDS4357	4075	1371	456	161275450	161326960	1	None	EJM5
5	GABRA1	ENSG00000022355	ENST00000521339	protein_coding	PUTATIVE	None	4075	273	90	161275898	161292794	1	None	EJM5
5	GABRA1	ENSG00000022355	ENST00000522651	protein_coding	PUTATIVE	None	4075	256	84	161277392	161292795	1	None	EJM5
5	GABRA1	ENSG00000022355	ENST00000519621	protein_coding	KNOWN	None	4075	369	122	161277603	161300236	1	None	EJM5
5	GABRA1	ENSG00000022355	ENST00000519542	retained_intron	KNOWN	None	4075	None	None	161300104	161318008	1	None	EJM5
5	GABRA1	ENSG00000022355	ENST00000420560	protein_coding	KNOWN	CCDS4357	4075	1371	456	161275898	161326965	1	None	EJM5
5	GABRA1	ENSG00000022355	ENST00000444819	protein_coding	KNOWN	CCDS4357	4075	1371	456	161277392	161326965	1	None	EJM5
1	MUTYH	ENSG00000132781	ENST00000529984	protein_coding	NOVEL	None	7527	651	216	45794835	45806119	-1	None	MYH
1	MUTYH	ENSG00000132781	ENST00000485271	nonsense_mediated_decay	KNOWN	None	7527	134	43	45794914	45796942	-1	None	MYH
1	MUTYH	ENSG00000132781	ENST00000372104	protein_coding	KNOWN	CCDS41322	7527	1566	521	45794914	45805607	-1	None	MYH
1	MUTYH	ENSG00000132781	ENST00000448481	protein_coding	KNOWN	None	7527	1599	532	45794914	45805607	-1	None	MYH
1	MUTYH	ENSG00000132781	ENST00000456914	protein_coding	KNOWN	CCDS41322	7527	1566	521	45794914	45805626	-1	None	MYH
1	MUTYH	ENSG00000132781	ENST00000354383	protein_coding	KNOWN	CCDS41321	7527	1569	522	45794914	45805752	-1	None	MYH
1	MUTYH	ENSG00000132781	ENST00000475516	nonsense_mediated_decay	KNOWN	None	7527	123	40	45794914	45805752	-1	None	MYH
1	MUTYH	ENSG00000132781	ENST00000355498	protein_coding	KNOWN	CCDS41322	7527	1566	521	45794914	45805787	-1	None	MYH
1	MUTYH	ENSG00000132781	ENST00000372098	protein_coding	KNOWN	CCDS520	7527	1641	546	45794914	45806060	-1	None	MYH
1	MUTYH	ENSG00000132781	ENST00000481571	nonsense_mediated_decay	KNOWN	None	7527	165	54	45794914	45806060	-1	None	MYH
1	MUTYH	ENSG00000132781	ENST00000372110	protein_coding	KNOWN	None	7527	1611	536	45794914	45806060	-1	None	MYH
1	MUTYH	ENSG00000132781	ENST00000372115	protein_coding	KNOWN	CCDS41320	7527	1608	535	45794914	45806142	-1	None	MYH
1	MUTYH	ENSG00000132781	ENST00000488731	protein_coding	NOVEL	None	7527	651	216	45794915	45805667	-1	None	MYH
1	MUTYH	ENSG00000132781	ENST00000531105	protein_coding	PUTATIVE	None	7527	189	62	45794918	45805835	-1	None	MYH
1	MUTYH	ENSG00000132781	ENST00000467459	nonsense_mediated_decay	KNOWN	None	7527	555	184	45794944	45798160	-1	None	MYH
1	MUTYH	ENSG00000132781	ENST00000482094	retained_intron	KNOWN	None	7527	None	None	45794945	45797755	-1	None	MYH
1	MUTYH	ENSG00000132781	ENST00000529892	protein_coding	NOVEL	None	7527	641	212	45794946	45797950	-1	None	MYH
1	MUTYH	ENSG00000132781	ENST00000533178	nonsense_mediated_decay	KNOWN	None	7527	300	99	45794948	45800183	-1	None	MYH
1	MUTYH	ENSG00000132781	ENST00000412971	protein_coding	NOVEL	None	7527	645	214	45797406	45806053	-1	None	MYH
1	MUTYH	ENSG00000132781	ENST00000462388	retained_intron	KNOWN	None	7527	None	None	45797419	45798617	-1	None	MYH
1	MUTYH	ENSG00000132781	ENST00000466231	retained_intron	KNOWN	None	7527	None	None	45797442	45798051	-1	None	MYH
1	MUTYH	ENSG00000132781	ENST00000470256	nonsense_mediated_decay	KNOWN	None	7527	558	185	45797697	45805682	-1	None	MYH
1	MUTYH	ENSG00000132781	ENST00000461495	nonsense_mediated_decay	KNOWN	None	7527	165	54	45797708	45806087	-1	None	MYH
1	MUTYH	ENSG00000132781	ENST00000435155	protein_coding	KNOWN	None	7527	873	290	45797847	45805672	-1	None	MYH
1	MUTYH	ENSG00000132781	ENST00000467940	nonsense_mediated_decay	KNOWN	None	7527	138	45	45797892	45806059	-1	None	MYH
1	MUTYH	ENSG00000132781	ENST00000478796	retained_intron	KNOWN	None	7527	None	None	45797895	45798996	-1	None	MYH
1	MUTYH	ENSG00000132781	ENST00000528013	protein_coding	NOVEL	None	7527	746	247	45798063	45805618	-1	None	MYH
1	MUTYH	ENSG00000132781	ENST00000525160	nonsense_mediated_decay	KNOWN	None	7527	168	55	45798076	45806086	-1	None	MYH
1	MUTYH	ENSG00000132781	ENST00000479746	retained_intron	KNOWN	None	7527	None	None	45798239	45805627	-1	None	MYH
1	MUTYH	ENSG00000132781	ENST00000492494	retained_intron	KNOWN	None	7527	None	None	45798251	45805627	-1	None	MYH
1	MUTYH	ENSG00000132781	ENST00000483642	retained_intron	KNOWN	None	7527	None	None	45798287	45806069	-1	None	MYH
1	MUTYH	ENSG00000132781	ENST00000481139	retained_intron	KNOWN	None	7527	None	None	45798349	45806087	-1	None	MYH
1	MUTYH	ENSG00000132781	ENST00000485484	retained_intron	KNOWN	None	7527	None	None	45798418	45805614	-1	None	MYH
1	MUTYH	ENSG00000132781	ENST00000476789	retained_intron	KNOWN	None	7527	None	None	45798435	45806104	-1	None	MYH
1	MUTYH	ENSG00000132781	ENST00000462387	retained_intron	KNOWN	None	7527	None	None	45798512	45806104	-1	None	MYH
1	MUTYH	ENSG00000132781	ENST00000474703	retained_intron	KNOWN	None	7527	None	None	45798725	45805763	-1	None	MYH
1	MUTYH	ENSG00000132781	ENST00000483127	protein_coding	PUTATIVE	None	7527	282	93	45799085	45805617	-1	None	MYH
1	MUTYH	ENSG00000132781	ENST00000534453	retained_intron	KNOWN	None	7527	None	None	45799772	45805907	-1	None	MYH
1	MUTYH	ENSG00000132781	ENST00000528332	protein_coding	KNOWN	None	7527	693	230	45794835	45806119	-1	None	MYH
1	MUTYH	ENSG00000132781	ENST00000450313	protein_coding	KNOWN	None	7527	1650	549	45794915	45806142	-1	None	MYH
1	MUTYH	ENSG00000132781	ENST00000372100	protein_coding	KNOWN	None	7527	1599	532	45794915	45805787	-1	None	MYH
9	TLE1	ENSG00000196781	ENST00000376499	protein_coding	KNOWN	CCDS6661	11837	2313	770	84198598	84304220	-1	None	ESG1, GRG1, ESG
9	TLE1	ENSG00000196781	ENST00000376484	protein_coding	KNOWN	None	11837	384	127	84214780	84228437	-1	None	ESG1, GRG1, ESG
9	TLE1	ENSG00000196781	ENST00000491534	processed_transcript	KNOWN	None	11837	None	None	84226721	84235472	-1	None	ESG1, GRG1, ESG
9	TLE1	ENSG00000196781	ENST00000464999	processed_transcript	KNOWN	None	11837	None	None	84226758	84235454	-1	None	ESG1, GRG1, ESG
9	TLE1	ENSG00000196781	ENST00000418319	protein_coding	KNOWN	None	11837	728	241	84235369	84303363	-1	None	ESG1, GRG1, ESG
9	TLE1	ENSG00000196781	ENST00000376463	protein_coding	KNOWN	None	11837	435	144	84248384	84302283	-1	None	ESG1, GRG1, ESG
9	TLE1	ENSG00000196781	ENST00000376472	protein_coding	KNOWN	None	11837	384	127	84215004	84303596	-1	None	ESG1, GRG1, ESG
11	DCHS1	ENSG00000166341	ENST00000299441	protein_coding	KNOWN	CCDS7771	13681	9897	3298	6642556	6677085	-1	CDH25, PCDH16	FIB1, KIAA1773, FLJ11790, CDHR6
14	SLC22A17	ENSG00000092096	ENST00000354772	protein_coding	KNOWN	CCDS9594	23095	1563	520	23815515	23822121	-1	None	BOCT, BOIT, NGALR
14	SLC22A17	ENSG00000092096	ENST00000397260	protein_coding	PUTATIVE	None	23095	1230	409	23815523	23822069	-1	None	BOCT, BOIT, NGALR
14	SLC22A17	ENSG00000092096	ENST00000474057	processed_transcript	KNOWN	None	23095	None	None	23815525	23822117	-1	None	BOCT, BOIT, NGALR
14	SLC22A17	ENSG00000092096	ENST00000206544	protein_coding	KNOWN	CCDS9593	23095	1617	538	23815527	23821760	-1	None	BOCT, BOIT, NGALR
14	SLC22A17	ENSG00000092096	ENST00000473917	retained_intron	KNOWN	None	23095	None	None	23815533	23818971	-1	None	BOCT, BOIT, NGALR
14	SLC22A17	ENSG00000092096	ENST00000474774	processed_transcript	KNOWN	None	23095	None	None	23816368	23817430	-1	None	BOCT, BOIT, NGALR
14	SLC22A17	ENSG00000092096	ENST00000557699	retained_intron	KNOWN	None	23095	None	None	23817836	23821785	-1	None	BOCT, BOIT, NGALR
14	SLC22A17	ENSG00000092096	ENST00000556803	retained_intron	KNOWN	None	23095	None	None	23820128	23821252	-1	None	BOCT, BOIT, NGALR
14	SLC22A17	ENSG00000092096	ENST00000397267	protein_coding	KNOWN	CCDS9593	23095	1617	538	23815539	23822080	-1	None	BOCT, BOIT, NGALR
16	ZNF843	ENSG00000176723	ENST00000564218	protein_coding	PUTATIVE	None	28710	882	293	31445569	31454346	-1	None	MGC46336
16	ZNF843	ENSG00000176723	ENST00000315678	protein_coding	KNOWN	CCDS45471	28710	1047	348	31446759	31454346	-1	None	MGC46336
11	PTPRJ	ENSG00000149177	ENST00000418331	protein_coding	KNOWN	CCDS7945	9673	4014	1337	48002113	48189670	1	None	DEP1, HPTPeta, CD148
11	PTPRJ	ENSG00000149177	ENST00000440289	protein_coding	KNOWN	CCDS44596	9673	1620	539	48002132	48154272	1	None	DEP1, HPTPeta, CD148
11	PTPRJ	ENSG00000149177	ENST00000534219	protein_coding	NOVEL	None	9673	360	119	48002279	48142799	1	None	DEP1, HPTPeta, CD148
11	PTPRJ	ENSG00000149177	ENST00000527952	protein_coding	NOVEL	None	9673	440	145	48002279	48145252	1	None	DEP1, HPTPeta, CD148
11	PTPRJ	ENSG00000149177	ENST00000526550	processed_transcript	KNOWN	None	9673	None	None	48066356	48142699	1	None	DEP1, HPTPeta, CD148
11	PTPRJ	ENSG00000149177	ENST00000527026	retained_intron	KNOWN	None	9673	None	None	48166630	48171418	1	None	DEP1, HPTPeta, CD148
17	TAF15	ENSG00000172660	ENST00000588240	protein_coding	KNOWN	CCDS32623	11547	1779	592	34136459	34174246	1	TAF2N	hTAFII68, RBP56, Npl3
17	TAF15	ENSG00000172660	ENST00000590273	protein_coding	NOVEL	None	11547	719	238	34136485	34163190	1	TAF2N	hTAFII68, RBP56, Npl3
17	TAF15	ENSG00000172660	ENST00000592969	retained_intron	KNOWN	None	11547	None	None	34136486	34138588	1	TAF2N	hTAFII68, RBP56, Npl3
17	TAF15	ENSG00000172660	ENST00000588441	protein_coding	PUTATIVE	None	11547	96	31	34136488	34149722	1	TAF2N	hTAFII68, RBP56, Npl3
17	TAF15	ENSG00000172660	ENST00000587272	protein_coding	NOVEL	None	11547	323	106	34136488	34149761	1	TAF2N	hTAFII68, RBP56, Npl3
17	TAF15	ENSG00000172660	ENST00000591957	retained_intron	KNOWN	None	11547	None	None	34136488	34151116	1	TAF2N	hTAFII68, RBP56, Npl3
17	TAF15	ENSG00000172660	ENST00000590051	nonsense_mediated_decay	KNOWN	None	11547	366	121	34136488	34171318	1	TAF2N	hTAFII68, RBP56, Npl3
17	TAF15	ENSG00000172660	ENST00000592237	protein_coding	PUTATIVE	None	11547	1350	449	34136488	34174238	1	TAF2N	hTAFII68, RBP56, Npl3
17	TAF15	ENSG00000172660	ENST00000311979	protein_coding	KNOWN	CCDS59279	11547	1770	589	34136493	34174238	1	TAF2N	hTAFII68, RBP56, Npl3
17	TAF15	ENSG00000172660	ENST00000591527	retained_intron	KNOWN	None	11547	None	None	34136510	34151293	1	TAF2N	hTAFII68, RBP56, Npl3
17	TAF15	ENSG00000172660	ENST00000591763	retained_intron	KNOWN	None	11547	None	None	34160528	34169381	1	TAF2N	hTAFII68, RBP56, Npl3
17	TAF15	ENSG00000172660	ENST00000586970	retained_intron	KNOWN	None	11547	None	None	34161269	34169376	1	TAF2N	hTAFII68, RBP56, Npl3
17	TAF15	ENSG00000172660	ENST00000585577	protein_coding	NOVEL	None	11547	644	213	34171081	34174196	1	TAF2N	hTAFII68, RBP56, Npl3
17	TAF15	ENSG00000172660	ENST00000586593	protein_coding	PUTATIVE	None	11547	309	102	34171939	34191619	1	TAF2N	hTAFII68, RBP56, Npl3
17	TAF15	ENSG00000172660	ENST00000586104	retained_intron	KNOWN	None	11547	None	None	34190940	34191616	1	TAF2N	hTAFII68, RBP56, Npl3
19	EPS15L1	ENSG00000127527	ENST00000594851	protein_coding	NOVEL	None	24634	215	70	16466050	16472764	-1	None	eps15R
19	EPS15L1	ENSG00000127527	ENST00000602022	nonsense_mediated_decay	KNOWN	CCDS58653	24634	2265	754	16466050	16582772	-1	None	eps15R
19	EPS15L1	ENSG00000127527	ENST00000455140	protein_coding	KNOWN	CCDS58654	24634	2733	910	16466050	16582823	-1	None	eps15R
19	EPS15L1	ENSG00000127527	ENST00000592031	nonsense_mediated_decay	KNOWN	None	24634	240	79	16472390	16582781	-1	None	eps15R
19	EPS15L1	ENSG00000127527	ENST00000248070	protein_coding	KNOWN	CCDS32944	24634	2595	864	16472392	16582896	-1	None	eps15R
19	EPS15L1	ENSG00000127527	ENST00000535753	protein_coding	PUTATIVE	CCDS58653	24634	2265	754	16472408	16582787	-1	None	eps15R
19	EPS15L1	ENSG00000127527	ENST00000594975	protein_coding	PUTATIVE	None	24634	2271	756	16472700	16582896	-1	None	eps15R
19	EPS15L1	ENSG00000127527	ENST00000599790	protein_coding	PUTATIVE	None	24634	640	212	16493800	16514556	-1	None	eps15R
19	EPS15L1	ENSG00000127527	ENST00000602009	protein_coding	PUTATIVE	None	24634	1344	447	16511442	16546107	-1	None	eps15R
19	EPS15L1	ENSG00000127527	ENST00000597937	protein_coding	PUTATIVE	CCDS59363	24634	1806	601	16511442	16582761	-1	None	eps15R
19	EPS15L1	ENSG00000127527	ENST00000596151	retained_intron	KNOWN	None	24634	None	None	16528250	16532244	-1	None	eps15R
19	EPS15L1	ENSG00000127527	ENST00000593760	nonsense_mediated_decay	KNOWN	None	24634	252	83	16535903	16582770	-1	None	eps15R
19	EPS15L1	ENSG00000127527	ENST00000596037	nonsense_mediated_decay	KNOWN	None	24634	333	110	16539513	16582762	-1	None	eps15R
19	EPS15L1	ENSG00000127527	ENST00000597559	retained_intron	KNOWN	None	24634	None	None	16547407	16582786	-1	None	eps15R
19	EPS15L1	ENSG00000127527	ENST00000602151	protein_coding	PUTATIVE	None	24634	271	89	16551464	16582754	-1	None	eps15R
19	EPS15L1	ENSG00000127527	ENST00000595845	retained_intron	KNOWN	None	24634	None	None	16552322	16582777	-1	None	eps15R
5	FAM153A	ENSG00000170074	ENST00000506011	processed_transcript	KNOWN	None	29940	None	None	177134982	177144253	-1	None	NY-REN-7
5	FAM153A	ENSG00000170074	ENST00000360669	nonsense_mediated_decay	KNOWN	CCDS34305	29940	933	310	177138070	177207466	-1	None	NY-REN-7
5	FAM153A	ENSG00000170074	ENST00000509607	processed_transcript	KNOWN	None	29940	None	None	177140026	177143364	-1	None	NY-REN-7
5	FAM153A	ENSG00000170074	ENST00000514899	processed_transcript	KNOWN	None	29940	None	None	177140070	177141153	-1	None	NY-REN-7
5	FAM153A	ENSG00000170074	ENST00000510276	protein_coding	NOVEL	CCDS34305	29940	933	310	177149296	177210399	-1	None	NY-REN-7
5	FAM153A	ENSG00000170074	ENST00000512544	processed_transcript	KNOWN	None	29940	None	None	177149337	177150157	-1	None	NY-REN-7
5	FAM153A	ENSG00000170074	ENST00000440605	protein_coding	NOVEL	CCDS34305	29940	933	310	177150365	177207677	-1	None	NY-REN-7
5	FAM153A	ENSG00000170074	ENST00000513554	protein_coding	NOVEL	None	29940	435	144	177150578	177207634	-1	None	NY-REN-7
5	FAM153A	ENSG00000170074	ENST00000505531	protein_coding	NOVEL	None	29940	389	128	177151160	177209838	-1	None	NY-REN-7
5	FAM153A	ENSG00000170074	ENST00000512612	processed_transcript	KNOWN	None	29940	None	None	177158575	177172215	-1	None	NY-REN-7
5	FAM153A	ENSG00000170074	ENST00000515787	nonsense_mediated_decay	KNOWN	None	29940	108	35	177164049	177180276	-1	None	NY-REN-7
5	FAM153A	ENSG00000170074	ENST00000503845	nonsense_mediated_decay	KNOWN	None	29940	126	41	177166616	177180298	-1	None	NY-REN-7
5	FAM153A	ENSG00000170074	ENST00000504518	protein_coding	NOVEL	None	29940	358	118	177166636	177180297	-1	None	NY-REN-7
5	FAM153A	ENSG00000170074	ENST00000505683	processed_transcript	KNOWN	None	29940	None	None	177167194	177180264	-1	None	NY-REN-7
5	FAM153A	ENSG00000170074	ENST00000503909	processed_transcript	KNOWN	None	29940	None	None	177168295	177177395	-1	None	NY-REN-7
5	FAM153A	ENSG00000170074	ENST00000507615	retained_intron	KNOWN	None	29940	None	None	177174455	177180264	-1	None	NY-REN-7
5	FAM153A	ENSG00000170074	ENST00000506354	retained_intron	KNOWN	None	29940	None	None	177174528	177180276	-1	None	NY-REN-7
5	FAM153A	ENSG00000170074	ENST00000503567	protein_coding	NOVEL	None	29940	73	23	177174725	177209966	-1	None	NY-REN-7
5	FAM153A	ENSG00000170074	ENST00000503136	processed_transcript	KNOWN	None	29940	None	None	177189930	177210365	-1	None	NY-REN-7
5	FAM153A	ENSG00000170074	ENST00000513363	processed_transcript	KNOWN	None	29940	None	None	177206498	177208685	-1	None	NY-REN-7
5	FAM153A	ENSG00000170074	ENST00000506229	processed_transcript	KNOWN	None	29940	None	None	177206557	177209814	-1	None	NY-REN-7
5	FAM153A	ENSG00000170074	ENST00000393518	protein_coding	KNOWN	None	29940	435	144	177149148	177209832	-1	None	NY-REN-7
1	CENPF	ENSG00000117724	ENST00000464322	processed_transcript	KNOWN	None	1857	None	None	214776538	214788533	1	None	hcp-1
1	CENPF	ENSG00000117724	ENST00000366955	protein_coding	KNOWN	CCDS31023	1857	9345	3114	214776538	214837931	1	None	hcp-1
1	CENPF	ENSG00000117724	ENST00000495259	processed_transcript	KNOWN	None	1857	None	None	214776827	214787236	1	None	hcp-1
1	CENPF	ENSG00000117724	ENST00000467765	processed_transcript	KNOWN	None	1857	None	None	214822018	214827762	1	None	hcp-1
1	CENPF	ENSG00000117724	ENST00000469862	processed_transcript	KNOWN	None	1857	None	None	214828491	214830753	1	None	hcp-1
14	CTAGE5	ENSG00000150527	ENST00000554392	protein_coding	PUTATIVE	None	7057	416	137	39734488	39762515	1	MGEA, MGEA6	MEA6, cTAGE-5A, cTAGE-5B, cTAGE-5C, cTAGE-5D, MGEA11
14	CTAGE5	ENSG00000150527	ENST00000555716	protein_coding	PUTATIVE	None	7057	454	150	39734495	39763276	1	MGEA, MGEA6	MEA6, cTAGE-5A, cTAGE-5B, cTAGE-5C, cTAGE-5D, MGEA11
14	CTAGE5	ENSG00000150527	ENST00000341749	protein_coding	KNOWN	CCDS9673	7057	2379	792	39734496	39819898	1	MGEA, MGEA6	MEA6, cTAGE-5A, cTAGE-5B, cTAGE-5C, cTAGE-5D, MGEA11
14	CTAGE5	ENSG00000150527	ENST00000557038	protein_coding	NOVEL	None	7057	2175	724	39734513	39819894	1	MGEA, MGEA6	MEA6, cTAGE-5A, cTAGE-5B, cTAGE-5C, cTAGE-5D, MGEA11
14	CTAGE5	ENSG00000150527	ENST00000396165	protein_coding	KNOWN	CCDS9676	7057	2328	775	39735172	39819627	1	MGEA, MGEA6	MEA6, cTAGE-5A, cTAGE-5B, cTAGE-5C, cTAGE-5D, MGEA11
14	CTAGE5	ENSG00000150527	ENST00000556990	processed_transcript	KNOWN	None	7057	None	None	39736290	39763257	1	MGEA, MGEA6	MEA6, cTAGE-5A, cTAGE-5B, cTAGE-5C, cTAGE-5D, MGEA11
14	CTAGE5	ENSG00000150527	ENST00000280083	protein_coding	KNOWN	CCDS9674	7057	2415	804	39736350	39820599	1	MGEA, MGEA6	MEA6, cTAGE-5A, cTAGE-5B, cTAGE-5C, cTAGE-5D, MGEA11
14	CTAGE5	ENSG00000150527	ENST00000556148	protein_coding	NOVEL	CCDS58317	7057	2190	729	39736615	39819625	1	MGEA, MGEA6	MEA6, cTAGE-5A, cTAGE-5B, cTAGE-5C, cTAGE-5D, MGEA11
14	CTAGE5	ENSG00000150527	ENST00000348007	protein_coding	KNOWN	CCDS9675	7057	2286	761	39736618	39819898	1	MGEA, MGEA6	MEA6, cTAGE-5A, cTAGE-5B, cTAGE-5C, cTAGE-5D, MGEA11
14	CTAGE5	ENSG00000150527	ENST00000553352	protein_coding	NOVEL	CCDS9676	7057	2328	775	39745430	39819849	1	MGEA, MGEA6	MEA6, cTAGE-5A, cTAGE-5B, cTAGE-5C, cTAGE-5D, MGEA11
14	CTAGE5	ENSG00000150527	ENST00000556593	retained_intron	KNOWN	None	7057	None	None	39782605	39784506	1	MGEA, MGEA6	MEA6, cTAGE-5A, cTAGE-5B, cTAGE-5C, cTAGE-5D, MGEA11
14	CTAGE5	ENSG00000150527	ENST00000553383	processed_transcript	PUTATIVE	None	7057	None	None	39816749	39819849	1	MGEA, MGEA6	MEA6, cTAGE-5A, cTAGE-5B, cTAGE-5C, cTAGE-5D, MGEA11
14	CTAGE5	ENSG00000150527	ENST00000341502	protein_coding	KNOWN	None	7057	2316	771	39736328	39856156	1	MGEA, MGEA6	MEA6, cTAGE-5A, cTAGE-5B, cTAGE-5C, cTAGE-5D, MGEA11
14	CTAGE5	ENSG00000150527	ENST00000396158	protein_coding	KNOWN	CCDS58316	7057	2430	809	39736328	39820397	1	MGEA, MGEA6	MEA6, cTAGE-5A, cTAGE-5B, cTAGE-5C, cTAGE-5D, MGEA11
7	AOAH	ENSG00000136250	ENST00000258749	protein_coding	KNOWN	CCDS5448	548	1728	575	36552607	36764153	-1	None	None
7	AOAH	ENSG00000136250	ENST00000471806	retained_intron	KNOWN	None	548	None	None	36552610	36554282	-1	None	None
7	AOAH	ENSG00000136250	ENST00000431169	protein_coding	PUTATIVE	None	548	1992	663	36552610	36764054	-1	None	None
7	AOAH	ENSG00000136250	ENST00000483864	retained_intron	KNOWN	None	548	None	None	36552611	36570290	-1	None	None
7	AOAH	ENSG00000136250	ENST00000491444	processed_transcript	KNOWN	None	548	None	None	36570040	36589862	-1	None	None
7	AOAH	ENSG00000136250	ENST00000487014	processed_transcript	KNOWN	None	548	None	None	36571936	36634262	-1	None	None
7	AOAH	ENSG00000136250	ENST00000495942	retained_intron	KNOWN	None	548	None	None	36571940	36634159	-1	None	None
7	AOAH	ENSG00000136250	ENST00000480201	retained_intron	KNOWN	None	548	None	None	36579917	36634159	-1	None	None
7	AOAH	ENSG00000136250	ENST00000543742	processed_transcript	KNOWN	None	548	None	None	36662796	36700905	-1	None	None
7	AOAH	ENSG00000136250	ENST00000435386	protein_coding	PUTATIVE	None	548	326	107	36677485	36764105	-1	None	None
7	AOAH	ENSG00000136250	ENST00000414637	nonsense_mediated_decay	KNOWN	None	548	159	52	36726386	36764079	-1	None	None
7	AOAH	ENSG00000136250	ENST00000535891	protein_coding	KNOWN	CCDS55102	548	1632	543	36552557	36764154	-1	None	None
7	AOAH	ENSG00000136250	ENST00000538464	protein_coding	KNOWN	None	548	894	297	36552456	36634262	-1	None	None
10	PFKFB3	ENSG00000170525	ENST00000379789	protein_coding	KNOWN	CCDS44353	8874	1503	500	6186897	6277495	1	None	None
10	PFKFB3	ENSG00000170525	ENST00000317350	protein_coding	KNOWN	None	8874	1542	513	6244829	6270247	1	None	None
10	PFKFB3	ENSG00000170525	ENST00000461744	nonsense_mediated_decay	KNOWN	None	8874	1368	455	6244829	6270258	1	None	None
10	PFKFB3	ENSG00000170525	ENST00000467491	nonsense_mediated_decay	KNOWN	None	8874	1368	455	6244829	6274915	1	None	None
10	PFKFB3	ENSG00000170525	ENST00000490474	nonsense_mediated_decay	KNOWN	None	8874	1368	455	6244829	6274922	1	None	None
10	PFKFB3	ENSG00000170525	ENST00000477914	nonsense_mediated_decay	KNOWN	None	8874	1368	455	6244829	6274922	1	None	None
10	PFKFB3	ENSG00000170525	ENST00000379785	protein_coding	KNOWN	None	8874	1581	526	6244829	6275053	1	None	None
10	PFKFB3	ENSG00000170525	ENST00000360521	protein_coding	KNOWN	None	8874	1545	514	6244863	6274922	1	None	None
10	PFKFB3	ENSG00000170525	ENST00000379775	protein_coding	KNOWN	CCDS7078	8874	1563	520	6244894	6277495	1	None	None
10	PFKFB3	ENSG00000170525	ENST00000450232	protein_coding	KNOWN	None	8874	430	142	6263367	6275070	1	None	None
10	PFKFB3	ENSG00000170525	ENST00000487989	retained_intron	KNOWN	None	8874	None	None	6264671	6268410	1	None	None
10	PFKFB3	ENSG00000170525	ENST00000475881	nonsense_mediated_decay	KNOWN	None	8874	186	61	6266129	6275053	1	None	None
10	PFKFB3	ENSG00000170525	ENST00000414237	protein_coding	KNOWN	None	8874	279	92	6266129	6275053	1	None	None
10	PFKFB3	ENSG00000170525	ENST00000441697	protein_coding	KNOWN	None	8874	96	31	6266129	6275053	1	None	None
10	PFKFB3	ENSG00000170525	ENST00000536985	protein_coding	KNOWN	None	8874	555	184	6186881	6277494	1	None	None
10	PFKFB3	ENSG00000170525	ENST00000540253	protein_coding	KNOWN	None	8874	1605	534	6188279	6275331	1	None	None
10	PFKFB3	ENSG00000170525	ENST00000379782	protein_coding	KNOWN	None	8874	1581	526	6244840	6273268	1	None	None
10	SLIT1	ENSG00000187122	ENST00000266058	protein_coding	KNOWN	CCDS7453	11085	4605	1534	98757795	98945677	-1	SLIL1	slit1, MEGF4, Slit-1, SLIT3
10	SLIT1	ENSG00000187122	ENST00000494968	processed_transcript	KNOWN	None	11085	None	None	98757877	98759423	-1	SLIL1	slit1, MEGF4, Slit-1, SLIT3
10	SLIT1	ENSG00000187122	ENST00000371070	protein_coding	NOVEL	None	11085	4386	1461	98760870	98945515	-1	SLIL1	slit1, MEGF4, Slit-1, SLIT3
10	SLIT1	ENSG00000187122	ENST00000314867	protein_coding	NOVEL	None	11085	2345	780	98797455	98945380	-1	SLIL1	slit1, MEGF4, Slit-1, SLIT3
10	SLIT1	ENSG00000187122	ENST00000371041	protein_coding	PUTATIVE	None	11085	1230	409	98817499	98945677	-1	SLIL1	slit1, MEGF4, Slit-1, SLIT3
10	SLIT1	ENSG00000187122	ENST00000497714	processed_transcript	KNOWN	None	11085	None	None	98825270	98862313	-1	SLIL1	slit1, MEGF4, Slit-1, SLIT3
10	SLIT1	ENSG00000187122	ENST00000456008	processed_transcript	KNOWN	None	11085	None	None	98917091	98945610	-1	SLIL1	slit1, MEGF4, Slit-1, SLIT3
16	ARMC5	ENSG00000140691	ENST00000408912	protein_coding	KNOWN	None	25781	3093	1030	31469401	31478426	1	None	FLJ13063
16	ARMC5	ENSG00000140691	ENST00000457010	protein_coding	KNOWN	CCDS42155	25781	2178	725	31470145	31478487	1	None	FLJ13063
16	ARMC5	ENSG00000140691	ENST00000563544	protein_coding	KNOWN	CCDS45472	25781	2808	935	31470173	31478405	1	None	FLJ13063
16	ARMC5	ENSG00000140691	ENST00000564900	protein_coding	NOVEL	None	25781	1796	597	31471282	31478486	1	None	FLJ13063
16	ARMC5	ENSG00000140691	ENST00000564514	nonsense_mediated_decay	KNOWN	None	25781	32	9	31471315	31473644	1	None	FLJ13063
16	ARMC5	ENSG00000140691	ENST00000570119	retained_intron	KNOWN	None	25781	None	None	31476654	31477472	1	None	FLJ13063
16	ARMC5	ENSG00000140691	ENST00000538189	protein_coding	KNOWN	None	25781	2904	967	31470268	31478405	1	None	FLJ13063
16	ARMC5	ENSG00000140691	ENST00000268314	protein_coding	KNOWN	CCDS45472	25781	2808	935	31470317	31478485	1	None	FLJ13063
16	ARMC5	ENSG00000140691	ENST00000412665	protein_coding	KNOWN	None	25781	1740	579	31471282	31478486	1	None	FLJ13063
1	RFX5	ENSG00000143390	ENST00000290524	protein_coding	KNOWN	CCDS994	9986	1851	616	151313116	151319727	-1	None	None
1	RFX5	ENSG00000143390	ENST00000368870	protein_coding	KNOWN	CCDS994	9986	1851	616	151314305	151319802	-1	None	None
1	RFX5	ENSG00000143390	ENST00000436637	protein_coding	PUTATIVE	None	9986	708	235	151314436	151317232	-1	None	None
1	RFX5	ENSG00000143390	ENST00000452671	protein_coding	KNOWN	CCDS994	9986	1851	616	151314436	151319833	-1	None	None
1	RFX5	ENSG00000143390	ENST00000392746	protein_coding	KNOWN	None	9986	1790	595	151314723	151319298	-1	None	None
1	RFX5	ENSG00000143390	ENST00000475144	retained_intron	KNOWN	None	9986	None	None	151316173	151317143	-1	None	None
1	RFX5	ENSG00000143390	ENST00000422595	protein_coding	KNOWN	None	9986	689	228	151316225	151319497	-1	None	None
1	RFX5	ENSG00000143390	ENST00000450506	protein_coding	KNOWN	None	9986	553	183	151316675	151319449	-1	None	None
1	RFX5	ENSG00000143390	ENST00000458484	protein_coding	KNOWN	None	9986	496	164	151316732	151319082	-1	None	None
1	RFX5	ENSG00000143390	ENST00000469513	retained_intron	KNOWN	None	9986	None	None	151316809	151317653	-1	None	None
1	RFX5	ENSG00000143390	ENST00000421986	nonsense_mediated_decay	KNOWN	None	9986	135	44	151316991	151319682	-1	None	None
1	RFX5	ENSG00000143390	ENST00000430227	protein_coding	KNOWN	None	9986	369	122	151316997	151319704	-1	None	None
1	RFX5	ENSG00000143390	ENST00000435314	nonsense_mediated_decay	KNOWN	None	9986	129	42	151317036	151319294	-1	None	None
1	RFX5	ENSG00000143390	ENST00000478564	processed_transcript	KNOWN	None	9986	None	None	151317053	151319717	-1	None	None
1	RFX5	ENSG00000143390	ENST00000412774	protein_coding	KNOWN	None	9986	353	116	151317204	151319704	-1	None	None
1	RFX5	ENSG00000143390	ENST00000437327	protein_coding	KNOWN	None	9986	317	104	151317240	151319768	-1	None	None
1	RFX5	ENSG00000143390	ENST00000436271	protein_coding	KNOWN	None	9986	289	95	151317268	151319348	-1	None	None
1	RFX5	ENSG00000143390	ENST00000494217	retained_intron	KNOWN	None	9986	None	None	151317438	151319770	-1	None	None
1	RFX5	ENSG00000143390	ENST00000479681	retained_intron	KNOWN	None	9986	None	None	151317465	151319332	-1	None	None
1	RFX5	ENSG00000143390	ENST00000444392	nonsense_mediated_decay	KNOWN	None	9986	153	50	151317598	151319769	-1	None	None
1	RFX5	ENSG00000143390	ENST00000452456	nonsense_mediated_decay	KNOWN	None	9986	153	50	151317618	151319311	-1	None	None
1	RFX5	ENSG00000143390	ENST00000452513	protein_coding	KNOWN	None	9986	1731	576	151314507	151319769	-1	None	None
7	COA1	ENSG00000106603	ENST00000415076	nonsense_mediated_decay	KNOWN	CCDS5471	21868	441	146	43648055	43769112	-1	C7orf44	FLJ10803, MITRAC15
7	COA1	ENSG00000106603	ENST00000446330	nonsense_mediated_decay	KNOWN	CCDS5471	21868	441	146	43648418	43769112	-1	C7orf44	FLJ10803, MITRAC15
7	COA1	ENSG00000106603	ENST00000446564	nonsense_mediated_decay	KNOWN	CCDS5471	21868	441	146	43648832	43769082	-1	C7orf44	FLJ10803, MITRAC15
7	COA1	ENSG00000106603	ENST00000438444	nonsense_mediated_decay	KNOWN	CCDS5471	21868	441	146	43670751	43769316	-1	C7orf44	FLJ10803, MITRAC15
7	COA1	ENSG00000106603	ENST00000490251	retained_intron	KNOWN	None	21868	None	None	43678398	43686024	-1	C7orf44	FLJ10803, MITRAC15
7	COA1	ENSG00000106603	ENST00000488813	processed_transcript	KNOWN	None	21868	None	None	43678856	43681763	-1	C7orf44	FLJ10803, MITRAC15
7	COA1	ENSG00000106603	ENST00000395879	protein_coding	KNOWN	CCDS5471	21868	441	146	43678856	43689895	-1	C7orf44	FLJ10803, MITRAC15
7	COA1	ENSG00000106603	ENST00000310564	protein_coding	KNOWN	CCDS5471	21868	441	146	43678856	43769088	-1	C7orf44	FLJ10803, MITRAC15
7	COA1	ENSG00000106603	ENST00000415798	protein_coding	KNOWN	None	21868	341	112	43680172	43769122	-1	C7orf44	FLJ10803, MITRAC15
7	COA1	ENSG00000106603	ENST00000431651	protein_coding	KNOWN	None	21868	264	87	43684850	43769104	-1	C7orf44	FLJ10803, MITRAC15
7	COA1	ENSG00000106603	ENST00000451651	nonsense_mediated_decay	KNOWN	None	21868	126	41	43685896	43769073	-1	C7orf44	FLJ10803, MITRAC15
7	COA1	ENSG00000106603	ENST00000418140	nonsense_mediated_decay	KNOWN	None	21868	192	63	43686071	43769082	-1	C7orf44	FLJ10803, MITRAC15
7	COA1	ENSG00000106603	ENST00000459713	processed_transcript	PUTATIVE	None	21868	None	None	43686815	43688353	-1	C7orf44	FLJ10803, MITRAC15
7	COA1	ENSG00000106603	ENST00000448704	nonsense_mediated_decay	KNOWN	None	21868	105	34	43686827	43769100	-1	C7orf44	FLJ10803, MITRAC15
7	COA1	ENSG00000106603	ENST00000470156	processed_transcript	PUTATIVE	None	21868	None	None	43686874	43769082	-1	C7orf44	FLJ10803, MITRAC15
7	COA1	ENSG00000106603	ENST00000457939	nonsense_mediated_decay	KNOWN	None	21868	192	63	43686950	43769096	-1	C7orf44	FLJ10803, MITRAC15
7	COA1	ENSG00000106603	ENST00000420441	nonsense_mediated_decay	KNOWN	None	21868	105	34	43687787	43769109	-1	C7orf44	FLJ10803, MITRAC15
7	COA1	ENSG00000106603	ENST00000478504	processed_transcript	PUTATIVE	None	21868	None	None	43696821	43769098	-1	C7orf44	FLJ10803, MITRAC15
7	COA1	ENSG00000106603	ENST00000395880	protein_coding	KNOWN	CCDS5471	21868	441	146	43678856	43769051	-1	C7orf44	FLJ10803, MITRAC15
7	COA1	ENSG00000106603	ENST00000223336	protein_coding	KNOWN	CCDS5471	21868	441	146	43678859	43769083	-1	C7orf44	FLJ10803, MITRAC15
X	FTSJ1	ENSG00000068438	ENST00000492562	processed_transcript	KNOWN	None	13254	None	None	48334541	48340872	1	MRX9, MRX44	JM23, CDLIV, SPB1, TRM7, TRMT7
X	FTSJ1	ENSG00000068438	ENST00000019019	protein_coding	KNOWN	CCDS14295	13254	984	327	48334549	48344687	1	MRX9, MRX44	JM23, CDLIV, SPB1, TRM7, TRMT7
X	FTSJ1	ENSG00000068438	ENST00000348411	protein_coding	KNOWN	CCDS14294	13254	990	329	48334549	48344693	1	MRX9, MRX44	JM23, CDLIV, SPB1, TRM7, TRMT7
X	FTSJ1	ENSG00000068438	ENST00000485486	processed_transcript	KNOWN	None	13254	None	None	48334591	48337458	1	MRX9, MRX44	JM23, CDLIV, SPB1, TRM7, TRMT7
X	FTSJ1	ENSG00000068438	ENST00000473235	processed_transcript	KNOWN	None	13254	None	None	48334606	48340992	1	MRX9, MRX44	JM23, CDLIV, SPB1, TRM7, TRMT7
X	FTSJ1	ENSG00000068438	ENST00000487353	processed_transcript	KNOWN	None	13254	None	None	48334648	48337504	1	MRX9, MRX44	JM23, CDLIV, SPB1, TRM7, TRMT7
X	FTSJ1	ENSG00000068438	ENST00000490202	processed_transcript	KNOWN	None	13254	None	None	48337069	48341342	1	MRX9, MRX44	JM23, CDLIV, SPB1, TRM7, TRMT7
X	FTSJ1	ENSG00000068438	ENST00000496365	processed_transcript	KNOWN	None	13254	None	None	48337426	48344699	1	MRX9, MRX44	JM23, CDLIV, SPB1, TRM7, TRMT7
X	FTSJ1	ENSG00000068438	ENST00000466371	processed_transcript	KNOWN	None	13254	None	None	48339553	48341342	1	MRX9, MRX44	JM23, CDLIV, SPB1, TRM7, TRMT7
X	FTSJ1	ENSG00000068438	ENST00000467954	processed_transcript	KNOWN	None	13254	None	None	48339814	48344204	1	MRX9, MRX44	JM23, CDLIV, SPB1, TRM7, TRMT7
X	FTSJ1	ENSG00000068438	ENST00000475806	processed_transcript	KNOWN	None	13254	None	None	48339870	48341342	1	MRX9, MRX44	JM23, CDLIV, SPB1, TRM7, TRMT7
X	FTSJ1	ENSG00000068438	ENST00000489599	processed_transcript	KNOWN	None	13254	None	None	48340020	48344372	1	MRX9, MRX44	JM23, CDLIV, SPB1, TRM7, TRMT7
X	FTSJ1	ENSG00000068438	ENST00000456787	protein_coding	KNOWN	CCDS14295	13254	984	327	48336380	48344752	1	MRX9, MRX44	JM23, CDLIV, SPB1, TRM7, TRMT7
X	FTSJ1	ENSG00000068438	ENST00000396894	protein_coding	KNOWN	None	13254	579	192	48334585	48344686	1	MRX9, MRX44	JM23, CDLIV, SPB1, TRM7, TRMT7
9	C9orf172	ENSG00000232434	ENST00000436881	protein_coding	KNOWN	CCDS48059	37284	2931	976	139738867	139741797	1	None	None
9	PHPT1	ENSG00000054148	ENST00000371661	protein_coding	KNOWN	CCDS48060	30033	375	124	139743176	139745474	1	None	PHP14, HSPC141, CGI-202, DKFZp564M173, bA216L13.10
9	PHPT1	ENSG00000054148	ENST00000492540	processed_transcript	KNOWN	None	30033	None	None	139743543	139745474	1	None	PHP14, HSPC141, CGI-202, DKFZp564M173, bA216L13.10
9	PHPT1	ENSG00000054148	ENST00000247665	protein_coding	KNOWN	CCDS7009	30033	378	125	139743546	139745474	1	None	PHP14, HSPC141, CGI-202, DKFZp564M173, bA216L13.10
9	PHPT1	ENSG00000054148	ENST00000462205	processed_transcript	KNOWN	None	30033	None	None	139743877	139745476	1	None	PHP14, HSPC141, CGI-202, DKFZp564M173, bA216L13.10
9	PHPT1	ENSG00000054148	ENST00000497413	processed_transcript	KNOWN	None	30033	None	None	139743878	139745479	1	None	PHP14, HSPC141, CGI-202, DKFZp564M173, bA216L13.10
9	PHPT1	ENSG00000054148	ENST00000463215	processed_transcript	KNOWN	None	30033	None	None	139744231	139745474	1	None	PHP14, HSPC141, CGI-202, DKFZp564M173, bA216L13.10
9	PHPT1	ENSG00000054148	ENST00000545326	protein_coding	KNOWN	CCDS48060	30033	375	124	139743256	139745488	1	None	PHP14, HSPC141, CGI-202, DKFZp564M173, bA216L13.10
16	CCDC78	ENSG00000162004	ENST00000345165	protein_coding	PUTATIVE	None	14153	959	318	772582	775274	-1	C16orf25	FLJ34512
16	CCDC78	ENSG00000162004	ENST00000485091	retained_intron	KNOWN	None	14153	None	None	772582	776429	-1	C16orf25	FLJ34512
16	CCDC78	ENSG00000162004	ENST00000463539	retained_intron	KNOWN	None	14153	None	None	772582	776430	-1	C16orf25	FLJ34512
16	CCDC78	ENSG00000162004	ENST00000482878	retained_intron	KNOWN	None	14153	None	None	772582	776456	-1	C16orf25	FLJ34512
16	CCDC78	ENSG00000162004	ENST00000293889	protein_coding	KNOWN	CCDS32353	14153	1317	438	772582	776473	-1	C16orf25	FLJ34512
16	CCDC78	ENSG00000162004	ENST00000478979	retained_intron	KNOWN	None	14153	None	None	772583	776443	-1	C16orf25	FLJ34512
16	CCDC78	ENSG00000162004	ENST00000481804	retained_intron	KNOWN	None	14153	None	None	772588	776443	-1	C16orf25	FLJ34512
16	CCDC78	ENSG00000162004	ENST00000466708	retained_intron	KNOWN	None	14153	None	None	772588	776880	-1	C16orf25	FLJ34512
16	CCDC78	ENSG00000162004	ENST00000482152	retained_intron	KNOWN	None	14153	None	None	772625	774635	-1	C16orf25	FLJ34512
16	CCDC78	ENSG00000162004	ENST00000538176	retained_intron	KNOWN	None	14153	None	None	774542	776437	-1	C16orf25	FLJ34512
16	CCDC78	ENSG00000162004	ENST00000439619	retained_intron	KNOWN	None	14153	None	None	774550	776444	-1	C16orf25	FLJ34512
16	CCDC78	ENSG00000162004	ENST00000460023	retained_intron	KNOWN	None	14153	None	None	774907	776367	-1	C16orf25	FLJ34512
16	CCDC78	ENSG00000162004	ENST00000423653	protein_coding	PUTATIVE	None	14153	170	55	774927	776846	-1	C16orf25	FLJ34512
16	CCDC78	ENSG00000162004	ENST00000544996	retained_intron	KNOWN	None	14153	None	None	774984	775855	-1	C16orf25	FLJ34512
16	CCDC78	ENSG00000162004	ENST00000471861	retained_intron	KNOWN	None	14153	None	None	775001	776954	-1	C16orf25	FLJ34512
16	CCDC78	ENSG00000162004	ENST00000474647	retained_intron	KNOWN	None	14153	None	None	775123	776868	-1	C16orf25	FLJ34512
1	KCNK2	ENSG00000082482	ENST00000486921	nonsense_mediated_decay	KNOWN	None	6277	459	152	215179118	215409584	1	None	K2p2.1, TREK-1
1	KCNK2	ENSG00000082482	ENST00000467031	nonsense_mediated_decay	KNOWN	None	6277	687	228	215179193	215408534	1	None	K2p2.1, TREK-1
1	KCNK2	ENSG00000082482	ENST00000391895	protein_coding	KNOWN	CCDS41466	6277	1269	422	215179198	215408562	1	None	K2p2.1, TREK-1
1	KCNK2	ENSG00000082482	ENST00000478774	protein_coding	PUTATIVE	None	6277	354	117	215255136	215342588	1	None	K2p2.1, TREK-1
1	KCNK2	ENSG00000082482	ENST00000391894	protein_coding	KNOWN	CCDS31024	6277	1236	411	215256467	215408560	1	None	K2p2.1, TREK-1
1	KCNK2	ENSG00000082482	ENST00000470177	nonsense_mediated_decay	KNOWN	None	6277	471	156	215256578	215368400	1	None	K2p2.1, TREK-1
1	KCNK2	ENSG00000082482	ENST00000474771	nonsense_mediated_decay	KNOWN	None	6277	654	217	215256578	215408497	1	None	K2p2.1, TREK-1
1	KCNK2	ENSG00000082482	ENST00000444842	protein_coding	KNOWN	CCDS41467	6277	1281	426	215256579	215410436	1	None	K2p2.1, TREK-1
1	KCNK2	ENSG00000082482	ENST00000457122	protein_coding	PUTATIVE	None	6277	374	123	215256860	215342608	1	None	K2p2.1, TREK-1
11	MRPL17	ENSG00000158042	ENST00000288937	protein_coding	KNOWN	CCDS31412	14053	528	175	6702013	6704632	-1	None	RPML26, MRP-L26
11	MRPL17	ENSG00000158042	ENST00000532676	processed_transcript	PUTATIVE	None	14053	None	None	6702382	6703631	-1	None	RPML26, MRP-L26
11	MRPL17	ENSG00000158042	ENST00000529958	retained_intron	KNOWN	None	14053	None	None	6703182	6704527	-1	None	RPML26, MRP-L26
11	MRPL17	ENSG00000158042	ENST00000532203	protein_coding	NOVEL	None	14053	428	141	6703380	6704547	-1	None	RPML26, MRP-L26
19	TMEM147	ENSG00000105677	ENST00000222284	protein_coding	KNOWN	CCDS12466	30414	675	224	36036497	36038428	1	None	NIFIE14, MGC1936
19	TMEM147	ENSG00000105677	ENST00000593027	nonsense_mediated_decay	KNOWN	None	30414	96	31	36036502	36038425	1	None	NIFIE14, MGC1936
19	TMEM147	ENSG00000105677	ENST00000392204	protein_coding	NOVEL	CCDS56091	30414	528	175	36036532	36038428	1	None	NIFIE14, MGC1936
19	TMEM147	ENSG00000105677	ENST00000477168	retained_intron	KNOWN	None	30414	None	None	36036542	36038424	1	None	NIFIE14, MGC1936
19	TMEM147	ENSG00000105677	ENST00000595180	retained_intron	KNOWN	None	30414	None	None	36036547	36037731	1	None	NIFIE14, MGC1936
19	TMEM147	ENSG00000105677	ENST00000596232	retained_intron	KNOWN	None	30414	None	None	36036554	36037186	1	None	NIFIE14, MGC1936
19	TMEM147	ENSG00000105677	ENST00000595467	retained_intron	KNOWN	None	30414	None	None	36036560	36038425	1	None	NIFIE14, MGC1936
19	TMEM147	ENSG00000105677	ENST00000599895	retained_intron	KNOWN	None	30414	None	None	36036576	36038428	1	None	NIFIE14, MGC1936
19	TMEM147	ENSG00000105677	ENST00000392205	protein_coding	NOVEL	None	30414	555	184	36036583	36038299	1	None	NIFIE14, MGC1936
1	TOE1	ENSG00000132773	ENST00000372090	protein_coding	KNOWN	CCDS521	15954	1533	510	45805342	45809647	1	None	None
1	TOE1	ENSG00000132773	ENST00000477731	processed_transcript	KNOWN	None	15954	None	None	45805724	45808433	1	None	None
1	TOE1	ENSG00000132773	ENST00000471337	processed_transcript	KNOWN	None	15954	None	None	45805847	45808650	1	None	None
1	TOE1	ENSG00000132773	ENST00000495703	processed_transcript	KNOWN	None	15954	None	None	45805893	45809636	1	None	None
1	TOE1	ENSG00000132773	ENST00000460057	processed_transcript	KNOWN	None	15954	None	None	45806968	45808531	1	None	None
1	TOE1	ENSG00000132773	ENST00000539779	protein_coding	KNOWN	None	15954	1293	430	45805728	45809431	1	None	None
7	DOCK4	ENSG00000128512	ENST00000423057	protein_coding	PUTATIVE	None	19192	4169	1388	111366166	111517184	-1	None	FLJ34238, KIAA0716
7	DOCK4	ENSG00000128512	ENST00000428084	protein_coding	KNOWN	None	19192	5928	1975	111366534	111846466	-1	None	FLJ34238, KIAA0716
7	DOCK4	ENSG00000128512	ENST00000486186	retained_intron	KNOWN	None	19192	None	None	111366803	111380270	-1	None	FLJ34238, KIAA0716
7	DOCK4	ENSG00000128512	ENST00000437633	protein_coding	KNOWN	CCDS47688	19192	5901	1966	111368276	111846450	-1	None	FLJ34238, KIAA0716
7	DOCK4	ENSG00000128512	ENST00000445943	protein_coding	NOVEL	None	19192	5999	1998	111368330	111644186	-1	None	FLJ34238, KIAA0716
7	DOCK4	ENSG00000128512	ENST00000494769	processed_transcript	PUTATIVE	None	19192	None	None	111368477	111372570	-1	None	FLJ34238, KIAA0716
7	DOCK4	ENSG00000128512	ENST00000428053	nonsense_mediated_decay	KNOWN	None	19192	141	46	111400280	111424482	-1	None	FLJ34238, KIAA0716
7	DOCK4	ENSG00000128512	ENST00000437129	protein_coding	PUTATIVE	None	19192	578	191	111405211	111424484	-1	None	FLJ34238, KIAA0716
7	DOCK4	ENSG00000128512	ENST00000450156	protein_coding	PUTATIVE	None	19192	564	187	111405252	111424535	-1	None	FLJ34238, KIAA0716
7	DOCK4	ENSG00000128512	ENST00000492436	processed_transcript	KNOWN	None	19192	None	None	111407137	111429316	-1	None	FLJ34238, KIAA0716
7	DOCK4	ENSG00000128512	ENST00000417165	protein_coding	PUTATIVE	None	19192	394	130	111409713	111429080	-1	None	FLJ34238, KIAA0716
7	DOCK4	ENSG00000128512	ENST00000464338	retained_intron	KNOWN	None	19192	None	None	111418383	111428976	-1	None	FLJ34238, KIAA0716
7	DOCK4	ENSG00000128512	ENST00000469898	retained_intron	KNOWN	None	19192	None	None	111428557	111462480	-1	None	FLJ34238, KIAA0716
7	DOCK4	ENSG00000128512	ENST00000476846	processed_transcript	KNOWN	None	19192	None	None	111502939	111846449	-1	None	FLJ34238, KIAA0716
7	DOCK4	ENSG00000128512	ENST00000492532	processed_transcript	PUTATIVE	None	19192	None	None	111509516	111512403	-1	None	FLJ34238, KIAA0716
7	DOCK4	ENSG00000128512	ENST00000468571	processed_transcript	KNOWN	None	19192	None	None	111616593	111644187	-1	None	FLJ34238, KIAA0716
7	DOCK4	ENSG00000128512	ENST00000494651	protein_coding	KNOWN	None	19192	2550	849	111368100	111424539	-1	None	FLJ34238, KIAA0716
19	LRFN3	ENSG00000126243	ENST00000585876	processed_transcript	PUTATIVE	None	28370	None	None	36426260	36427694	1	None	MGC2656, SALM4, FIGLER1
19	LRFN3	ENSG00000126243	ENST00000588831	protein_coding	KNOWN	CCDS12483	28370	1887	628	36426452	36436669	1	None	MGC2656, SALM4, FIGLER1
19	LRFN3	ENSG00000126243	ENST00000587257	processed_transcript	PUTATIVE	None	28370	None	None	36426595	36427928	1	None	MGC2656, SALM4, FIGLER1
19	LRFN3	ENSG00000126243	ENST00000246529	protein_coding	KNOWN	CCDS12483	28370	1887	628	36428022	36436095	1	None	MGC2656, SALM4, FIGLER1
12	PRB2	ENSG00000121335	ENST00000389362	protein_coding	KNOWN	CCDS41757	9338	1251	416	11544476	11548499	-1	None	PRPPRB1, Ps, cP7
12	PRB2	ENSG00000121335	ENST00000545829	processed_transcript	KNOWN	None	9338	None	None	11546906	11653975	-1	None	PRPPRB1, Ps, cP7
12	PRB2	ENSG00000121335	ENST00000565533	protein_coding	KNOWN	None	9338	64	20	11548400	11548499	-1	None	PRPPRB1, Ps, cP7
16	ANKS4B	ENSG00000175311	ENST00000311620	protein_coding	KNOWN	CCDS42130	26795	1254	417	21244986	21263750	1	None	FLJ38819, HARP
11	BEST1	ENSG00000167995	ENST00000378043	protein_coding	KNOWN	CCDS31580	12703	1758	585	61717293	61731933	1	VMD2	BMD, BEST, RP50
11	BEST1	ENSG00000167995	ENST00000534553	protein_coding	PUTATIVE	None	12703	168	55	61717535	61730816	1	VMD2	BMD, BEST, RP50
11	BEST1	ENSG00000167995	ENST00000529265	retained_intron	KNOWN	None	12703	None	None	61717825	61726401	1	VMD2	BMD, BEST, RP50
11	BEST1	ENSG00000167995	ENST00000533521	retained_intron	KNOWN	None	12703	None	None	61717828	61724338	1	VMD2	BMD, BEST, RP50
11	BEST1	ENSG00000167995	ENST00000524877	retained_intron	KNOWN	None	12703	None	None	61717832	61731766	1	VMD2	BMD, BEST, RP50
11	BEST1	ENSG00000167995	ENST00000524926	nonsense_mediated_decay	KNOWN	None	12703	1308	435	61717832	61731933	1	VMD2	BMD, BEST, RP50
11	BEST1	ENSG00000167995	ENST00000449131	protein_coding	KNOWN	CCDS44623	12703	1815	604	61717842	61732987	1	VMD2	BMD, BEST, RP50
11	BEST1	ENSG00000167995	ENST00000526988	protein_coding	PUTATIVE	None	12703	990	329	61722629	61729843	1	VMD2	BMD, BEST, RP50
11	BEST1	ENSG00000167995	ENST00000435278	protein_coding	KNOWN	None	12703	813	270	61717823	61729922	1	VMD2	BMD, BEST, RP50
11	BEST1	ENSG00000167995	ENST00000378042	protein_coding	KNOWN	None	12703	1497	498	61717356	61731935	1	VMD2	BMD, BEST, RP50
11	BEST1	ENSG00000167995	ENST00000301774	protein_coding	KNOWN	None	12703	879	292	61717535	61730816	1	VMD2	BMD, BEST, RP50
15	GOLGA6A	ENSG00000159289	ENST00000290438	protein_coding	KNOWN	CCDS32290	13567	2082	693	74362198	74374891	-1	GOLGA6	GLP
15	GOLGA6A	ENSG00000159289	ENST00000562157	retained_intron	KNOWN	None	13567	None	None	74362987	74363651	-1	GOLGA6	GLP
15	GOLGA6A	ENSG00000159289	ENST00000569486	retained_intron	KNOWN	None	13567	None	None	74364592	74365354	-1	GOLGA6	GLP
15	GOLGA6A	ENSG00000159289	ENST00000568723	retained_intron	KNOWN	None	13567	None	None	74369417	74374891	-1	GOLGA6	GLP
15	GLDN	ENSG00000186417	ENST00000335449	protein_coding	KNOWN	CCDS10140	29514	1656	551	51633826	51700210	1	COLM	CRG-L2, CLOM, colmedin, UNC-112
15	GLDN	ENSG00000186417	ENST00000560215	retained_intron	KNOWN	None	29514	None	None	51633995	51676230	1	COLM	CRG-L2, CLOM, colmedin, UNC-112
15	GLDN	ENSG00000186417	ENST00000558286	retained_intron	KNOWN	None	29514	None	None	51634071	51676831	1	COLM	CRG-L2, CLOM, colmedin, UNC-112
15	GLDN	ENSG00000186417	ENST00000560690	retained_intron	KNOWN	None	29514	None	None	51634143	51676830	1	COLM	CRG-L2, CLOM, colmedin, UNC-112
15	GLDN	ENSG00000186417	ENST00000559317	retained_intron	KNOWN	None	29514	None	None	51652451	51676611	1	COLM	CRG-L2, CLOM, colmedin, UNC-112
15	GLDN	ENSG00000186417	ENST00000464150	retained_intron	KNOWN	None	29514	None	None	51669455	51677749	1	COLM	CRG-L2, CLOM, colmedin, UNC-112
15	GLDN	ENSG00000186417	ENST00000396399	protein_coding	KNOWN	None	29514	1284	427	51669455	51700202	1	COLM	CRG-L2, CLOM, colmedin, UNC-112
15	GLDN	ENSG00000186417	ENST00000561194	retained_intron	KNOWN	None	29514	None	None	51669545	51676419	1	COLM	CRG-L2, CLOM, colmedin, UNC-112
15	GLDN	ENSG00000186417	ENST00000558426	protein_coding	PUTATIVE	None	29514	495	164	51669549	51692408	1	COLM	CRG-L2, CLOM, colmedin, UNC-112
8	FBXO16	ENSG00000214050	ENST00000521548	nonsense_mediated_decay	KNOWN	None	13618	1050	349	28205804	28347773	-1	None	FBX16
8	FBXO16	ENSG00000214050	ENST00000518248	protein_coding	NOVEL	None	13618	284	93	28285925	28314323	-1	None	FBX16
8	FBXO16	ENSG00000214050	ENST00000380254	protein_coding	KNOWN	CCDS6068	13618	879	292	28285929	28347835	-1	None	FBX16
8	FBXO16	ENSG00000214050	ENST00000522609	retained_intron	KNOWN	None	13618	None	None	28285941	28286929	-1	None	FBX16
8	FBXO16	ENSG00000214050	ENST00000346498	protein_coding	NOVEL	None	13618	951	316	28285965	28347795	-1	None	FBX16
8	FBXO16	ENSG00000214050	ENST00000518734	protein_coding	NOVEL	CCDS59099	13618	843	280	28286160	28347754	-1	None	FBX16
8	FBXO16	ENSG00000214050	ENST00000520481	retained_intron	KNOWN	None	13618	None	None	28304480	28321182	-1	None	FBX16
8	FBXO16	ENSG00000214050	ENST00000517436	processed_transcript	KNOWN	None	13618	None	None	28309779	28347743	-1	None	FBX16
8	FBXO16	ENSG00000214050	ENST00000517673	protein_coding	NOVEL	None	13618	552	183	28309784	28347741	-1	None	FBX16
8	FBXO16	ENSG00000214050	ENST00000518016	retained_intron	KNOWN	None	13618	None	None	28314175	28331303	-1	None	FBX16
8	FBXO16	ENSG00000214050	ENST00000519471	protein_coding	PUTATIVE	None	13618	210	69	28322716	28340979	-1	None	FBX16
2	ADD2	ENSG00000075340	ENST00000403045	nonsense_mediated_decay	KNOWN	CCDS1906	244	2181	726	70834750	70995330	-1	None	ADDB
2	ADD2	ENSG00000075340	ENST00000264436	protein_coding	KNOWN	CCDS1906	244	2181	726	70887327	70995309	-1	None	ADDB
2	ADD2	ENSG00000075340	ENST00000407644	protein_coding	KNOWN	CCDS1906	244	2181	726	70889262	70994847	-1	None	ADDB
2	ADD2	ENSG00000075340	ENST00000355733	protein_coding	PUTATIVE	CCDS1909	244	1932	643	70890615	70995309	-1	None	ADDB
2	ADD2	ENSG00000075340	ENST00000481675	retained_intron	KNOWN	None	244	None	None	70890630	70900480	-1	None	ADDB
2	ADD2	ENSG00000075340	ENST00000522886	protein_coding	NOVEL	None	244	839	278	70900443	70933575	-1	None	ADDB
2	ADD2	ENSG00000075340	ENST00000456320	protein_coding	NOVEL	None	244	997	331	70901810	70933540	-1	None	ADDB
2	ADD2	ENSG00000075340	ENST00000413157	protein_coding	KNOWN	CCDS46318	244	1680	559	70902225	70995344	-1	None	ADDB
2	ADD2	ENSG00000075340	ENST00000430656	protein_coding	KNOWN	CCDS54365	244	1728	575	70903535	70995329	-1	None	ADDB
2	ADD2	ENSG00000075340	ENST00000415348	protein_coding	KNOWN	None	244	680	225	70919560	70944910	-1	None	ADDB
2	ADD2	ENSG00000075340	ENST00000425976	protein_coding	KNOWN	None	244	428	141	70923423	70994601	-1	None	ADDB
2	ADD2	ENSG00000075340	ENST00000447731	protein_coding	KNOWN	None	244	52	16	70933489	70995328	-1	None	ADDB
2	ADD2	ENSG00000075340	ENST00000473232	processed_transcript	KNOWN	None	244	None	None	70933545	70995332	-1	None	ADDB
2	ADD2	ENSG00000075340	ENST00000496178	processed_transcript	PUTATIVE	None	244	None	None	70940202	70995357	-1	None	ADDB
3	MST1	ENSG00000173531	ENST00000448220	protein_coding	PUTATIVE	None	7380	586	194	49721380	49722523	-1	D3F15S2, HGFL, DNF15S2	MSP, NF15S2
3	MST1	ENSG00000173531	ENST00000449682	protein_coding	KNOWN	CCDS33757	7380	2178	725	49721380	49726486	-1	D3F15S2, HGFL, DNF15S2	MSP, NF15S2
3	MST1	ENSG00000173531	ENST00000479115	retained_intron	KNOWN	None	7380	None	None	49721409	49724285	-1	D3F15S2, HGFL, DNF15S2	MSP, NF15S2
3	MST1	ENSG00000173531	ENST00000492329	retained_intron	KNOWN	None	7380	None	None	49721409	49724393	-1	D3F15S2, HGFL, DNF15S2	MSP, NF15S2
3	MST1	ENSG00000173531	ENST00000488350	retained_intron	KNOWN	None	7380	None	None	49721409	49726926	-1	D3F15S2, HGFL, DNF15S2	MSP, NF15S2
3	MST1	ENSG00000173531	ENST00000493836	retained_intron	KNOWN	None	7380	None	None	49721482	49722832	-1	D3F15S2, HGFL, DNF15S2	MSP, NF15S2
3	MST1	ENSG00000173531	ENST00000484144	retained_intron	KNOWN	None	7380	None	None	49721758	49722731	-1	D3F15S2, HGFL, DNF15S2	MSP, NF15S2
3	MST1	ENSG00000173531	ENST00000481930	retained_intron	KNOWN	None	7380	None	None	49722171	49723218	-1	D3F15S2, HGFL, DNF15S2	MSP, NF15S2
3	MST1	ENSG00000173531	ENST00000484269	retained_intron	KNOWN	None	7380	None	None	49722171	49724895	-1	D3F15S2, HGFL, DNF15S2	MSP, NF15S2
3	MST1	ENSG00000173531	ENST00000498021	retained_intron	KNOWN	None	7380	None	None	49722277	49723307	-1	D3F15S2, HGFL, DNF15S2	MSP, NF15S2
3	MST1	ENSG00000173531	ENST00000497359	retained_intron	KNOWN	None	7380	None	None	49722294	49724299	-1	D3F15S2, HGFL, DNF15S2	MSP, NF15S2
3	MST1	ENSG00000173531	ENST00000480268	retained_intron	KNOWN	None	7380	None	None	49722840	49723703	-1	D3F15S2, HGFL, DNF15S2	MSP, NF15S2
3	MST1	ENSG00000173531	ENST00000494809	retained_intron	KNOWN	None	7380	None	None	49722915	49724290	-1	D3F15S2, HGFL, DNF15S2	MSP, NF15S2
3	MST1	ENSG00000173531	ENST00000468847	retained_intron	KNOWN	None	7380	None	None	49723116	49723620	-1	D3F15S2, HGFL, DNF15S2	MSP, NF15S2
3	MST1	ENSG00000173531	ENST00000489007	retained_intron	KNOWN	None	7380	None	None	49723178	49724236	-1	D3F15S2, HGFL, DNF15S2	MSP, NF15S2
3	MST1	ENSG00000173531	ENST00000484673	retained_intron	KNOWN	None	7380	None	None	49723318	49726106	-1	D3F15S2, HGFL, DNF15S2	MSP, NF15S2
3	MST1	ENSG00000173531	ENST00000492370	retained_intron	KNOWN	None	7380	None	None	49723601	49726106	-1	D3F15S2, HGFL, DNF15S2	MSP, NF15S2
3	MST1	ENSG00000173531	ENST00000494828	processed_transcript	KNOWN	None	7380	None	None	49724175	49726104	-1	D3F15S2, HGFL, DNF15S2	MSP, NF15S2
3	MST1	ENSG00000173531	ENST00000490966	retained_intron	KNOWN	None	7380	None	None	49724401	49726091	-1	D3F15S2, HGFL, DNF15S2	MSP, NF15S2
3	MST1	ENSG00000173531	ENST00000481055	retained_intron	KNOWN	None	7380	None	None	49724473	49725501	-1	D3F15S2, HGFL, DNF15S2	MSP, NF15S2
3	MST1	ENSG00000173531	ENST00000491943	processed_transcript	PUTATIVE	None	7380	None	None	49725246	49726934	-1	D3F15S2, HGFL, DNF15S2	MSP, NF15S2
3	MST1	ENSG00000173531	ENST00000383728	protein_coding	KNOWN	None	7380	795	264	49722757	49726104	-1	D3F15S2, HGFL, DNF15S2	MSP, NF15S2
3	MST1	ENSG00000173531	ENST00000545762	protein_coding	KNOWN	None	7380	495	164	49723742	49726106	-1	D3F15S2, HGFL, DNF15S2	MSP, NF15S2
16	CRYM	ENSG00000103316	ENST00000574448	nonsense_mediated_decay	KNOWN	None	2418	498	165	21250195	21289596	-1	None	DFNA40
16	CRYM	ENSG00000103316	ENST00000570401	protein_coding	PUTATIVE	None	2418	293	96	21255193	21273479	-1	None	DFNA40
16	CRYM	ENSG00000103316	ENST00000219599	protein_coding	KNOWN	CCDS10597	2418	945	314	21269842	21314372	-1	None	DFNA40
16	CRYM	ENSG00000103316	ENST00000572113	retained_intron	KNOWN	None	2418	None	None	21272404	21273657	-1	None	DFNA40
16	CRYM	ENSG00000103316	ENST00000576703	protein_coding	KNOWN	None	2418	724	240	21272605	21314404	-1	None	DFNA40
16	CRYM	ENSG00000103316	ENST00000571666	retained_intron	KNOWN	None	2418	None	None	21272613	21289566	-1	None	DFNA40
16	CRYM	ENSG00000103316	ENST00000572914	protein_coding	KNOWN	None	2418	422	139	21281178	21289846	-1	None	DFNA40
16	CRYM	ENSG00000103316	ENST00000571358	protein_coding	KNOWN	None	2418	77	24	21289496	21295425	-1	None	DFNA40
16	CRYM	ENSG00000103316	ENST00000574787	processed_transcript	KNOWN	None	2418	None	None	21290042	21295033	-1	None	DFNA40
16	CRYM	ENSG00000103316	ENST00000543948	protein_coding	KNOWN	CCDS10597	2418	945	314	21269839	21290281	-1	None	DFNA40
16	CRYM	ENSG00000103316	ENST00000396023	protein_coding	KNOWN	CCDS10597	2418	945	314	21269843	21289641	-1	None	DFNA40
16	CRYM	ENSG00000103316	ENST00000415987	protein_coding	KNOWN	CCDS45438	2418	819	272	21269843	21289641	-1	None	DFNA40
1	KCTD3	ENSG00000136636	ENST00000259154	protein_coding	KNOWN	CCDS1515	21305	2448	815	215740735	215795149	1	None	NY-REN-45
1	KCTD3	ENSG00000136636	ENST00000448333	protein_coding	KNOWN	None	21305	640	212	215747129	215754522	1	None	NY-REN-45
1	KCTD3	ENSG00000136636	ENST00000452413	protein_coding	KNOWN	None	21305	505	167	215775512	215792293	1	None	NY-REN-45
1	KCTD3	ENSG00000136636	ENST00000495537	processed_transcript	KNOWN	None	21305	None	None	215791587	215795073	1	None	NY-REN-45
1	KCTD3	ENSG00000136636	ENST00000465650	processed_transcript	KNOWN	None	21305	None	None	215792047	215793545	1	None	NY-REN-45
17	CDRT4	ENSG00000239704	ENST00000312177	protein_coding	KNOWN	None	14383	456	151	15339332	15370925	-1	None	FLJ36674
17	CDRT4	ENSG00000239704	ENST00000519354	processed_transcript	PUTATIVE	None	14383	None	None	15341049	15355934	-1	None	FLJ36674
17	CDRT4	ENSG00000239704	ENST00000520956	processed_transcript	PUTATIVE	None	14383	None	None	15341176	15379042	-1	None	FLJ36674
17	CDRT4	ENSG00000239704	ENST00000524205	protein_coding	KNOWN	None	14383	71	22	15341475	15406922	-1	None	FLJ36674
1	TESK2	ENSG00000070759	ENST00000372084	protein_coding	KNOWN	None	11732	1629	542	45809555	45923471	-1	None	None
1	TESK2	ENSG00000070759	ENST00000372086	protein_coding	KNOWN	CCDS41323	11732	1716	571	45809555	45956838	-1	None	None
1	TESK2	ENSG00000070759	ENST00000486676	processed_transcript	KNOWN	None	11732	None	None	45809556	45956833	-1	None	None
1	TESK2	ENSG00000070759	ENST00000493974	processed_transcript	KNOWN	None	11732	None	None	45864405	45923293	-1	None	None
1	TESK2	ENSG00000070759	ENST00000341771	protein_coding	KNOWN	None	11732	1629	542	45809555	45956840	-1	None	None
1	TESK2	ENSG00000070759	ENST00000538496	protein_coding	KNOWN	None	11732	1467	488	45809971	45956815	-1	None	None
1	TESK2	ENSG00000070759	ENST00000451835	protein_coding	KNOWN	None	11732	381	126	45864586	45956872	-1	None	None
10	AFAP1L2	ENSG00000169129	ENST00000304129	protein_coding	KNOWN	CCDS31286	25901	2457	818	116054583	116164244	-1	KIAA1914	FLJ14564, Em:AC005383.4, XB130
10	AFAP1L2	ENSG00000169129	ENST00000369271	protein_coding	KNOWN	CCDS31287	25901	2445	814	116054583	116164515	-1	KIAA1914	FLJ14564, Em:AC005383.4, XB130
10	AFAP1L2	ENSG00000169129	ENST00000491814	processed_transcript	KNOWN	None	25901	None	None	116054585	116061776	-1	KIAA1914	FLJ14564, Em:AC005383.4, XB130
10	AFAP1L2	ENSG00000169129	ENST00000486300	processed_transcript	KNOWN	None	25901	None	None	116060275	116064892	-1	KIAA1914	FLJ14564, Em:AC005383.4, XB130
10	AFAP1L2	ENSG00000169129	ENST00000419268	protein_coding	KNOWN	None	25901	936	311	116070113	116164239	-1	KIAA1914	FLJ14564, Em:AC005383.4, XB130
10	AFAP1L2	ENSG00000169129	ENST00000483496	processed_transcript	KNOWN	None	25901	None	None	116082936	116164247	-1	KIAA1914	FLJ14564, Em:AC005383.4, XB130
10	AFAP1L2	ENSG00000169129	ENST00000545353	protein_coding	KNOWN	None	25901	2616	871	116055531	116164260	-1	KIAA1914	FLJ14564, Em:AC005383.4, XB130
19	LEUTX	ENSG00000213921	ENST00000396841	protein_coding	NOVEL	None	31953	507	168	40267235	40276775	1	None	None
15	WDR93	ENSG00000140527	ENST00000268130	protein_coding	KNOWN	CCDS32326	26924	2061	686	90234028	90286869	1	None	None
15	WDR93	ENSG00000140527	ENST00000560294	protein_coding	KNOWN	None	26924	1977	658	90234060	90286869	1	None	None
15	WDR93	ENSG00000140527	ENST00000558000	protein_coding	PUTATIVE	None	26924	522	173	90234075	90247709	1	None	None
15	WDR93	ENSG00000140527	ENST00000557825	protein_coding	PUTATIVE	None	26924	322	106	90262837	90272961	1	None	None
15	WDR93	ENSG00000140527	ENST00000444934	protein_coding	PUTATIVE	None	26924	1212	403	90264341	90286868	1	None	None
6	CCND3	ENSG00000112576	ENST00000372991	protein_coding	KNOWN	CCDS4863	1585	879	292	41902671	41909586	-1	None	None
6	CCND3	ENSG00000112576	ENST00000511642	protein_coding	KNOWN	CCDS47426	1585	636	211	41902672	42018095	-1	None	None
6	CCND3	ENSG00000112576	ENST00000372987	protein_coding	PUTATIVE	None	1585	729	242	41902694	41909257	-1	None	None
6	CCND3	ENSG00000112576	ENST00000415497	protein_coding	KNOWN	CCDS47427	1585	291	96	41902694	42016632	-1	None	None
6	CCND3	ENSG00000112576	ENST00000372988	protein_coding	KNOWN	CCDS47426	1585	636	211	41902694	42016706	-1	None	None
6	CCND3	ENSG00000112576	ENST00000414200	protein_coding	KNOWN	CCDS47425	1585	663	220	41902723	41909493	-1	None	None
6	CCND3	ENSG00000112576	ENST00000510503	protein_coding	PUTATIVE	None	1585	588	195	41903173	42016446	-1	None	None
6	CCND3	ENSG00000112576	ENST00000511686	processed_transcript	KNOWN	None	1585	None	None	41903634	42016442	-1	None	None
6	CCND3	ENSG00000112576	ENST00000512426	protein_coding	PUTATIVE	None	1585	530	175	41903934	41909191	-1	None	None
6	CCND3	ENSG00000112576	ENST00000513956	processed_transcript	KNOWN	None	1585	None	None	41904222	42016428	-1	None	None
6	CCND3	ENSG00000112576	ENST00000506555	processed_transcript	KNOWN	None	1585	None	None	41904387	41906004	-1	None	None
6	CCND3	ENSG00000112576	ENST00000508143	protein_coding	KNOWN	None	1585	30	9	41904390	42016426	-1	None	None
6	CCND3	ENSG00000112576	ENST00000505064	protein_coding	KNOWN	None	1585	354	117	41904411	41908464	-1	None	None
6	CCND3	ENSG00000112576	ENST00000510058	retained_intron	KNOWN	None	1585	None	None	41904522	41909504	-1	None	None
6	CCND3	ENSG00000112576	ENST00000505672	retained_intron	KNOWN	None	1585	None	None	41904593	42016414	-1	None	None
6	CCND3	ENSG00000112576	ENST00000511161	retained_intron	KNOWN	None	1585	None	None	41904744	42016428	-1	None	None
6	CCND3	ENSG00000112576	ENST00000505884	retained_intron	KNOWN	None	1585	None	None	41904913	42016428	-1	None	None
6	CCND3	ENSG00000112576	ENST00000514382	processed_transcript	KNOWN	None	1585	None	None	41905451	42016426	-1	None	None
6	CCND3	ENSG00000112576	ENST00000502771	protein_coding	KNOWN	None	1585	131	42	41908148	42016424	-1	None	None
6	CCND3	ENSG00000112576	ENST00000514588	protein_coding	PUTATIVE	None	1585	140	45	41908232	42016426	-1	None	None
6	CCND3	ENSG00000112576	ENST00000512381	processed_transcript	KNOWN	None	1585	None	None	41978576	42016440	-1	None	None
3	UMPS	ENSG00000114491	ENST00000232607	protein_coding	KNOWN	CCDS3029	12563	1443	480	124449213	124464040	1	None	None
3	UMPS	ENSG00000114491	ENST00000462091	nonsense_mediated_decay	KNOWN	None	12563	174	57	124449280	124463604	1	None	None
3	UMPS	ENSG00000114491	ENST00000467167	nonsense_mediated_decay	KNOWN	None	12563	201	66	124449292	124463604	1	None	None
3	UMPS	ENSG00000114491	ENST00000474588	nonsense_mediated_decay	KNOWN	None	12563	429	142	124449299	124463604	1	None	None
3	UMPS	ENSG00000114491	ENST00000497791	nonsense_mediated_decay	KNOWN	None	12563	174	57	124449299	124463604	1	None	None
3	UMPS	ENSG00000114491	ENST00000460034	nonsense_mediated_decay	KNOWN	None	12563	201	66	124449299	124463604	1	None	None
3	UMPS	ENSG00000114491	ENST00000479719	nonsense_mediated_decay	KNOWN	None	12563	1029	342	124449299	124463604	1	None	None
3	UMPS	ENSG00000114491	ENST00000498715	processed_transcript	PUTATIVE	None	12563	None	None	124456042	124457218	1	None	None
3	UMPS	ENSG00000114491	ENST00000487622	retained_intron	KNOWN	None	12563	None	None	124456978	124461512	1	None	None
3	UMPS	ENSG00000114491	ENST00000495751	processed_transcript	KNOWN	None	12563	None	None	124457472	124462917	1	None	None
3	UMPS	ENSG00000114491	ENST00000536109	protein_coding	KNOWN	None	12563	1167	388	124449299	124463604	1	None	None
3	UMPS	ENSG00000114491	ENST00000538242	protein_coding	KNOWN	None	12563	909	302	124449299	124463604	1	None	None
3	UMPS	ENSG00000114491	ENST00000413078	protein_coding	KNOWN	None	12563	618	205	124449299	124463604	1	None	None
1	CCDC163P	ENSG00000236624	ENST00000415578	nonsense_mediated_decay	KNOWN	None	27003	357	118	45959538	45965751	-1	C1orf231	LOC126661
1	CCDC163P	ENSG00000236624	ENST00000515561	nonsense_mediated_decay	KNOWN	None	27003	201	66	45959598	45965720	-1	C1orf231	LOC126661
1	CCDC163P	ENSG00000236624	ENST00000502793	processed_transcript	KNOWN	None	27003	None	None	45959609	45964297	-1	C1orf231	LOC126661
1	CCDC163P	ENSG00000236624	ENST00000490551	protein_coding	PUTATIVE	None	27003	357	118	45960064	45965646	-1	C1orf231	LOC126661
1	CCDC163P	ENSG00000236624	ENST00000432082	protein_coding	PUTATIVE	None	27003	438	145	45960581	45965646	-1	C1orf231	LOC126661
1	CCDC163P	ENSG00000236624	ENST00000514299	nonsense_mediated_decay	KNOWN	None	27003	294	97	45960581	45965646	-1	C1orf231	LOC126661
1	CCDC163P	ENSG00000236624	ENST00000486476	processed_transcript	KNOWN	None	27003	None	None	45961104	45965725	-1	C1orf231	LOC126661
1	CCDC163P	ENSG00000236624	ENST00000488405	protein_coding	PUTATIVE	None	27003	495	164	45961883	45965525	-1	C1orf231	LOC126661
15	ISLR2	ENSG00000167178	ENST00000561975	processed_transcript	KNOWN	None	29286	None	None	74392652	74430881	1	None	KIAA1465
15	ISLR2	ENSG00000167178	ENST00000569886	protein_coding	KNOWN	None	29286	268	88	74420467	74425363	1	None	KIAA1465
15	ISLR2	ENSG00000167178	ENST00000361742	protein_coding	KNOWN	CCDS10259	29286	2238	745	74421715	74429143	1	None	KIAA1465
15	ISLR2	ENSG00000167178	ENST00000565068	processed_transcript	PUTATIVE	None	29286	None	None	74421987	74422369	1	None	KIAA1465
15	ISLR2	ENSG00000167178	ENST00000565159	protein_coding	KNOWN	CCDS10259	29286	2238	745	74422000	74427418	1	None	KIAA1465
15	ISLR2	ENSG00000167178	ENST00000567206	protein_coding	KNOWN	None	29286	15	4	74422007	74425110	1	None	KIAA1465
15	ISLR2	ENSG00000167178	ENST00000561740	protein_coding	KNOWN	None	29286	414	137	74422587	74425509	1	None	KIAA1465
15	ISLR2	ENSG00000167178	ENST00000453268	protein_coding	KNOWN	CCDS10259	29286	2238	745	74422641	74427467	1	None	KIAA1465
15	ISLR2	ENSG00000167178	ENST00000565332	protein_coding	KNOWN	None	29286	342	113	74423422	74425437	1	None	KIAA1465
15	ISLR2	ENSG00000167178	ENST00000565540	protein_coding	KNOWN	CCDS10259	29286	2238	745	74424243	74427759	1	None	KIAA1465
15	ISLR2	ENSG00000167178	ENST00000445793	protein_coding	KNOWN	CCDS10259	29286	2238	745	74421699	74429141	1	None	KIAA1465
15	ISLR2	ENSG00000167178	ENST00000435464	protein_coding	KNOWN	CCDS10259	29286	2238	745	74422590	74429141	1	None	KIAA1465
15	ISLR2	ENSG00000167178	ENST00000419208	protein_coding	KNOWN	CCDS10259	29286	2238	745	74424243	74429141	1	None	KIAA1465
X	GDPD2	ENSG00000130055	ENST00000374382	protein_coding	KNOWN	CCDS14402	25974	1620	539	69642991	69653234	1	None	OBDPF, FLJ20207, GDE3
X	GDPD2	ENSG00000130055	ENST00000472623	processed_transcript	KNOWN	None	25974	None	None	69645671	69653230	1	None	OBDPF, FLJ20207, GDE3
X	GDPD2	ENSG00000130055	ENST00000453994	protein_coding	KNOWN	CCDS55437	25974	1773	590	69642881	69653240	1	None	OBDPF, FLJ20207, GDE3
X	GDPD2	ENSG00000130055	ENST00000536730	protein_coding	KNOWN	CCDS55438	25974	1383	460	69642881	69653240	1	None	OBDPF, FLJ20207, GDE3
X	GDPD2	ENSG00000130055	ENST00000538649	protein_coding	KNOWN	CCDS55438	25974	1383	460	69642881	69653240	1	None	OBDPF, FLJ20207, GDE3
9	RNF38	ENSG00000137075	ENST00000259605	protein_coding	KNOWN	CCDS6603	18052	1548	515	36336393	36400213	-1	None	None
9	RNF38	ENSG00000137075	ENST00000353739	protein_coding	KNOWN	CCDS6604	18052	1398	465	36336393	36400296	-1	None	None
9	RNF38	ENSG00000137075	ENST00000377877	protein_coding	PUTATIVE	None	18052	1320	439	36339578	36400869	-1	None	None
9	RNF38	ENSG00000137075	ENST00000491349	processed_transcript	KNOWN	None	18052	None	None	36356337	36401193	-1	None	None
9	RNF38	ENSG00000137075	ENST00000484621	processed_transcript	KNOWN	None	18052	None	None	36369720	36401195	-1	None	None
9	RNF38	ENSG00000137075	ENST00000488058	processed_transcript	KNOWN	None	18052	None	None	36376005	36487545	-1	None	None
9	RNF38	ENSG00000137075	ENST00000377885	protein_coding	KNOWN	None	18052	1299	432	36336401	36401195	-1	None	None
9	RNF38	ENSG00000137075	ENST00000357058	protein_coding	KNOWN	None	18052	1299	432	36336401	36400920	-1	None	None
9	RNF38	ENSG00000137075	ENST00000350199	protein_coding	KNOWN	None	18052	1299	432	36336401	36400920	-1	None	None
1	SELENBP1	ENSG00000143416	ENST00000368868	protein_coding	KNOWN	CCDS995	10719	1419	472	151336778	151345209	-1	None	hSP56, hSBP, LPSB
1	SELENBP1	ENSG00000143416	ENST00000493560	retained_intron	KNOWN	None	10719	None	None	151336780	151345170	-1	None	hSP56, hSBP, LPSB
1	SELENBP1	ENSG00000143416	ENST00000447402	protein_coding	KNOWN	CCDS58027	10719	1233	410	151336781	151345176	-1	None	hSP56, hSBP, LPSB
1	SELENBP1	ENSG00000143416	ENST00000426705	protein_coding	KNOWN	None	10719	1545	514	151336781	151345179	-1	None	hSP56, hSBP, LPSB
1	SELENBP1	ENSG00000143416	ENST00000474352	retained_intron	KNOWN	None	10719	None	None	151336781	151345181	-1	None	hSP56, hSBP, LPSB
1	SELENBP1	ENSG00000143416	ENST00000443708	nonsense_mediated_decay	KNOWN	None	10719	372	123	151336784	151345183	-1	None	hSP56, hSBP, LPSB
1	SELENBP1	ENSG00000143416	ENST00000470345	retained_intron	KNOWN	None	10719	None	None	151336785	151345182	-1	None	hSP56, hSBP, LPSB
1	SELENBP1	ENSG00000143416	ENST00000455397	nonsense_mediated_decay	KNOWN	None	10719	372	123	151336788	151345167	-1	None	hSP56, hSBP, LPSB
1	SELENBP1	ENSG00000143416	ENST00000427977	nonsense_mediated_decay	KNOWN	None	10719	372	123	151336811	151345183	-1	None	hSP56, hSBP, LPSB
1	SELENBP1	ENSG00000143416	ENST00000423070	nonsense_mediated_decay	KNOWN	None	10719	498	165	151336815	151345168	-1	None	hSP56, hSBP, LPSB
1	SELENBP1	ENSG00000143416	ENST00000463664	retained_intron	KNOWN	None	10719	None	None	151336821	151345170	-1	None	hSP56, hSBP, LPSB
1	SELENBP1	ENSG00000143416	ENST00000424475	protein_coding	PUTATIVE	None	10719	916	304	151338049	151342317	-1	None	hSP56, hSBP, LPSB
1	SELENBP1	ENSG00000143416	ENST00000458566	protein_coding	NOVEL	None	10719	887	294	151338148	151345159	-1	None	hSP56, hSBP, LPSB
1	SELENBP1	ENSG00000143416	ENST00000455839	nonsense_mediated_decay	KNOWN	None	10719	144	47	151338917	151345181	-1	None	hSP56, hSBP, LPSB
1	SELENBP1	ENSG00000143416	ENST00000465273	retained_intron	KNOWN	None	10719	None	None	151339157	151340792	-1	None	hSP56, hSBP, LPSB
1	SELENBP1	ENSG00000143416	ENST00000473693	processed_transcript	KNOWN	None	10719	None	None	151339364	151345181	-1	None	hSP56, hSBP, LPSB
1	SELENBP1	ENSG00000143416	ENST00000492643	retained_intron	KNOWN	None	10719	None	None	151339684	151345183	-1	None	hSP56, hSBP, LPSB
1	SELENBP1	ENSG00000143416	ENST00000498494	processed_transcript	KNOWN	None	10719	None	None	151339697	151345167	-1	None	hSP56, hSBP, LPSB
1	SELENBP1	ENSG00000143416	ENST00000427867	protein_coding	PUTATIVE	None	10719	242	79	151341544	151342761	-1	None	hSP56, hSBP, LPSB
1	SELENBP1	ENSG00000143416	ENST00000435071	protein_coding	KNOWN	None	10719	1227	408	151336781	151345179	-1	None	hSP56, hSBP, LPSB
1	MMACHC	ENSG00000132763	ENST00000401061	protein_coding	KNOWN	CCDS41324	24525	849	282	45965725	45976739	1	None	DKFZP564I122, cblC
1	MMACHC	ENSG00000132763	ENST00000477188	processed_transcript	PUTATIVE	None	24525	None	None	45975105	45976177	1	None	DKFZP564I122, cblC
4	GPM6A	ENSG00000150625	ENST00000280187	protein_coding	KNOWN	CCDS3824	4460	837	278	176554085	176923483	-1	GPM6	None
4	GPM6A	ENSG00000150625	ENST00000507080	retained_intron	KNOWN	None	4460	None	None	176554596	176562896	-1	GPM6	None
4	GPM6A	ENSG00000150625	ENST00000393658	protein_coding	KNOWN	CCDS3824	4460	837	278	176554596	176733902	-1	GPM6	None
4	GPM6A	ENSG00000150625	ENST00000506894	protein_coding	KNOWN	CCDS54822	4460	804	267	176554598	176923815	-1	GPM6	None
4	GPM6A	ENSG00000150625	ENST00000515090	protein_coding	PUTATIVE	CCDS58936	4460	816	271	176555697	176708827	-1	GPM6	None
4	GPM6A	ENSG00000150625	ENST00000506219	processed_transcript	KNOWN	None	4460	None	None	176555859	176563233	-1	GPM6	None
4	GPM6A	ENSG00000150625	ENST00000508323	processed_transcript	KNOWN	None	4460	None	None	176556071	176575474	-1	GPM6	None
4	GPM6A	ENSG00000150625	ENST00000503397	protein_coding	PUTATIVE	None	4460	655	217	176561285	176892118	-1	GPM6	None
4	GPM6A	ENSG00000150625	ENST00000512610	protein_coding	PUTATIVE	None	4460	359	118	176572978	176793881	-1	GPM6	None
4	GPM6A	ENSG00000150625	ENST00000502754	protein_coding	PUTATIVE	None	4460	352	116	176572985	176893139	-1	GPM6	None
4	GPM6A	ENSG00000150625	ENST00000507520	protein_coding	PUTATIVE	None	4460	316	104	176573021	176708538	-1	GPM6	None
4	GPM6A	ENSG00000150625	ENST00000513667	protein_coding	PUTATIVE	None	4460	296	97	176573041	176828324	-1	GPM6	None
4	GPM6A	ENSG00000150625	ENST00000512509	protein_coding	PUTATIVE	None	4460	261	86	176573064	176923507	-1	GPM6	None
4	GPM6A	ENSG00000150625	ENST00000505561	protein_coding	PUTATIVE	None	4460	268	88	176573069	176728768	-1	GPM6	None
4	GPM6A	ENSG00000150625	ENST00000505375	protein_coding	PUTATIVE	None	4460	246	81	176573091	176733415	-1	GPM6	None
4	GPM6A	ENSG00000150625	ENST00000513365	protein_coding	KNOWN	None	4460	387	128	176594831	176828319	-1	GPM6	None
4	GPM6A	ENSG00000150625	ENST00000509865	protein_coding	PUTATIVE	None	4460	149	48	176594880	176892098	-1	GPM6	None
4	GPM6A	ENSG00000150625	ENST00000512897	protein_coding	PUTATIVE	None	4460	131	42	176594898	176709230	-1	GPM6	None
4	GPM6A	ENSG00000150625	ENST00000507540	protein_coding	PUTATIVE	None	4460	124	40	176594905	176812905	-1	GPM6	None
4	GPM6A	ENSG00000150625	ENST00000505304	protein_coding	PUTATIVE	None	4460	199	65	176622736	176709206	-1	GPM6	None
4	GPM6A	ENSG00000150625	ENST00000503563	protein_coding	KNOWN	None	4460	31	9	176733348	176828467	-1	GPM6	None
8	MROH5	ENSG00000226807	ENST00000523857	nonsense_mediated_decay	KNOWN	None	42976	120	39	142443929	142517330	-1	None	FLJ43860
8	MROH5	ENSG00000226807	ENST00000521053	nonsense_mediated_decay	KNOWN	None	42976	120	39	142443929	142517330	-1	None	FLJ43860
8	MROH5	ENSG00000226807	ENST00000430863	polymorphic_pseudogene	KNOWN	None	42976	3957	1318	142443932	142517330	-1	None	FLJ43860
8	MROH5	ENSG00000226807	ENST00000521161	protein_coding	PUTATIVE	None	42976	330	109	142505011	142506859	-1	None	FLJ43860
2	CCDC141	ENSG00000163492	ENST00000472828	processed_transcript	KNOWN	None	26821	None	None	179694996	179701864	-1	None	FLJ39502, CAMDI
2	CCDC141	ENSG00000163492	ENST00000480419	processed_transcript	KNOWN	None	26821	None	None	179697808	179710469	-1	None	FLJ39502, CAMDI
2	CCDC141	ENSG00000163492	ENST00000343876	protein_coding	KNOWN	None	26821	2685	894	179700483	179749678	-1	None	FLJ39502, CAMDI
2	CCDC141	ENSG00000163492	ENST00000443758	protein_coding	NOVEL	None	26821	2865	954	179720984	179914790	-1	None	FLJ39502, CAMDI
2	CCDC141	ENSG00000163492	ENST00000446116	protein_coding	NOVEL	None	26821	1884	627	179736860	179914813	-1	None	FLJ39502, CAMDI
2	CCDC141	ENSG00000163492	ENST00000409284	protein_coding	PUTATIVE	None	26821	1959	652	179737748	179914786	-1	None	FLJ39502, CAMDI
2	CCDC141	ENSG00000163492	ENST00000498142	processed_transcript	KNOWN	None	26821	None	None	179780478	179791392	-1	None	FLJ39502, CAMDI
2	CCDC141	ENSG00000163492	ENST00000420890	protein_coding	KNOWN	None	26821	4593	1530	179694484	179914786	-1	None	FLJ39502, CAMDI
2	CCDC141	ENSG00000163492	ENST00000295723	protein_coding	KNOWN	None	26821	2628	875	179700492	179749678	-1	None	FLJ39502, CAMDI
19	DYRK1B	ENSG00000105204	ENST00000593685	protein_coding	KNOWN	CCDS12543	3092	1890	629	40315990	40324274	-1	None	MIRK
19	DYRK1B	ENSG00000105204	ENST00000323039	protein_coding	KNOWN	CCDS12543	3092	1890	629	40315990	40324841	-1	None	MIRK
19	DYRK1B	ENSG00000105204	ENST00000597639	protein_coding	KNOWN	CCDS12544	3092	1806	601	40316355	40322507	-1	None	MIRK
19	DYRK1B	ENSG00000105204	ENST00000430012	protein_coding	KNOWN	CCDS46075	3092	1770	589	40316355	40324798	-1	None	MIRK
19	DYRK1B	ENSG00000105204	ENST00000601696	retained_intron	KNOWN	None	3092	None	None	40319042	40320783	-1	None	MIRK
19	DYRK1B	ENSG00000105204	ENST00000600611	protein_coding	KNOWN	None	3092	518	171	40320522	40324278	-1	None	MIRK
19	DYRK1B	ENSG00000105204	ENST00000601972	protein_coding	PUTATIVE	None	3092	414	137	40320846	40324792	-1	None	MIRK
19	DYRK1B	ENSG00000105204	ENST00000348817	protein_coding	KNOWN	CCDS12544	3092	1806	601	40315993	40324841	-1	None	MIRK
19	DCAF15	ENSG00000132017	ENST00000254337	protein_coding	KNOWN	CCDS32926	25095	1803	600	14063304	14072254	1	C19orf72	MGC99481
19	DCAF15	ENSG00000132017	ENST00000591802	nonsense_mediated_decay	KNOWN	None	25095	165	54	14063328	14065249	1	C19orf72	MGC99481
19	DCAF15	ENSG00000132017	ENST00000585468	protein_coding	PUTATIVE	None	25095	815	270	14067221	14070659	1	C19orf72	MGC99481
19	DCAF15	ENSG00000132017	ENST00000587307	protein_coding	PUTATIVE	None	25095	605	200	14070373	14071913	1	C19orf72	MGC99481
19	DCAF15	ENSG00000132017	ENST00000588523	retained_intron	KNOWN	None	25095	None	None	14070396	14072141	1	C19orf72	MGC99481
19	DCAF15	ENSG00000132017	ENST00000591385	retained_intron	KNOWN	None	25095	None	None	14070798	14071301	1	C19orf72	MGC99481
5	PCBD2	ENSG00000132570	ENST00000254908	protein_coding	KNOWN	CCDS43364	24474	393	130	134240596	134296967	1	None	DCOHM, DCOH2
5	PCBD2	ENSG00000132570	ENST00000512783	protein_coding	KNOWN	CCDS43364	24474	393	130	134240810	134305350	1	None	DCOHM, DCOH2
5	PCBD2	ENSG00000132570	ENST00000504352	nonsense_mediated_decay	KNOWN	None	24474	360	119	134240863	134343649	1	None	DCOHM, DCOH2
5	PCBD2	ENSG00000132570	ENST00000510013	processed_transcript	KNOWN	None	24474	None	None	134244520	134294785	1	None	DCOHM, DCOH2
1	PRDX1	ENSG00000117450	ENST00000319248	protein_coding	KNOWN	CCDS522	9352	600	199	45976719	45987628	-1	PAGA	NKEFA
1	PRDX1	ENSG00000117450	ENST00000372079	protein_coding	KNOWN	None	9352	294	97	45976723	45987526	-1	PAGA	NKEFA
1	PRDX1	ENSG00000117450	ENST00000447184	protein_coding	KNOWN	None	9352	514	170	45980179	45987610	-1	PAGA	NKEFA
1	PRDX1	ENSG00000117450	ENST00000424390	protein_coding	KNOWN	None	9352	514	170	45980179	45988719	-1	PAGA	NKEFA
1	PRDX1	ENSG00000117450	ENST00000483583	processed_transcript	KNOWN	None	9352	None	None	45981326	45987539	-1	PAGA	NKEFA
1	PRDX1	ENSG00000117450	ENST00000262746	protein_coding	KNOWN	CCDS522	9352	600	199	45976708	45987609	-1	PAGA	NKEFA
11	OR2AG2	ENSG00000188124	ENST00000338569	protein_coding	NOVEL	CCDS31413	15143	951	316	6789218	6790286	-1	OR2AG2P	None
X	ARMCX1	ENSG00000126947	ENST00000372829	protein_coding	KNOWN	CCDS14487	18073	1362	453	100805514	100809683	1	None	ALEX1
12	TROAP	ENSG00000135451	ENST00000549275	protein_coding	PUTATIVE	None	12327	207	68	49717019	49718079	1	None	TASTIN
12	TROAP	ENSG00000135451	ENST00000551245	protein_coding	NOVEL	None	12327	2607	868	49717027	49725453	1	None	TASTIN
12	TROAP	ENSG00000135451	ENST00000380327	protein_coding	KNOWN	CCDS41779	12327	435	144	49717038	49718175	1	None	TASTIN
12	TROAP	ENSG00000135451	ENST00000548311	protein_coding	PUTATIVE	None	12327	381	126	49717038	49718199	1	None	TASTIN
12	TROAP	ENSG00000135451	ENST00000549891	nonsense_mediated_decay	KNOWN	None	12327	162	53	49717038	49723417	1	None	TASTIN
12	TROAP	ENSG00000135451	ENST00000550346	protein_coding	NOVEL	None	12327	541	179	49717039	49721114	1	None	TASTIN
12	TROAP	ENSG00000135451	ENST00000550709	protein_coding	PUTATIVE	None	12327	381	126	49717040	49718163	1	None	TASTIN
12	TROAP	ENSG00000135451	ENST00000546735	nonsense_mediated_decay	KNOWN	None	12327	162	53	49717040	49723381	1	None	TASTIN
12	TROAP	ENSG00000135451	ENST00000549534	protein_coding	PUTATIVE	None	12327	159	52	49717056	49718148	1	None	TASTIN
12	TROAP	ENSG00000135451	ENST00000546776	nonsense_mediated_decay	KNOWN	None	12327	264	87	49717062	49722844	1	None	TASTIN
12	TROAP	ENSG00000135451	ENST00000257909	protein_coding	KNOWN	CCDS8784	12327	2337	778	49717062	49725514	1	None	TASTIN
12	TROAP	ENSG00000135451	ENST00000551192	nonsense_mediated_decay	KNOWN	None	12327	477	158	49717066	49723568	1	None	TASTIN
12	TROAP	ENSG00000135451	ENST00000547807	protein_coding	NOVEL	None	12327	870	289	49717093	49721110	1	None	TASTIN
12	TROAP	ENSG00000135451	ENST00000551567	protein_coding	KNOWN	None	12327	342	113	49717157	49719288	1	None	TASTIN
12	TROAP	ENSG00000135451	ENST00000548817	retained_intron	KNOWN	None	12327	None	None	49719236	49720503	1	None	TASTIN
12	TROAP	ENSG00000135451	ENST00000547923	protein_coding	PUTATIVE	None	12327	1374	457	49720424	49725491	1	None	TASTIN
3	STAC	ENSG00000144681	ENST00000273183	protein_coding	KNOWN	CCDS2662	11353	1209	402	36421836	36589499	1	None	STAC1
3	STAC	ENSG00000144681	ENST00000457375	protein_coding	NOVEL	None	11353	1026	341	36421995	36587980	1	None	STAC1
3	STAC	ENSG00000144681	ENST00000427486	nonsense_mediated_decay	KNOWN	None	11353	156	51	36422020	36534721	1	None	STAC1
3	STAC	ENSG00000144681	ENST00000434649	protein_coding	NOVEL	None	11353	756	251	36422065	36570239	1	None	STAC1
3	STAC	ENSG00000144681	ENST00000476388	processed_transcript	KNOWN	None	11353	None	None	36422161	36547278	1	None	STAC1
3	STAC	ENSG00000144681	ENST00000486143	processed_transcript	KNOWN	None	11353	None	None	36422177	36500833	1	None	STAC1
3	STAC	ENSG00000144681	ENST00000473452	retained_intron	KNOWN	None	11353	None	None	36527663	36547729	1	None	STAC1
3	STAC	ENSG00000144681	ENST00000465064	processed_transcript	KNOWN	None	11353	None	None	36570201	36570731	1	None	STAC1
9	ST6GALNAC4	ENSG00000136840	ENST00000335791	protein_coding	KNOWN	CCDS6883	17846	909	302	130670165	130679305	-1	SIAT7D	ST6GALNACIV, SIAT3C
9	ST6GALNAC4	ENSG00000136840	ENST00000495983	processed_transcript	KNOWN	None	17846	None	None	130670597	130677041	-1	SIAT7D	ST6GALNACIV, SIAT3C
9	ST6GALNAC4	ENSG00000136840	ENST00000474282	processed_transcript	KNOWN	None	17846	None	None	130670604	130674673	-1	SIAT7D	ST6GALNACIV, SIAT3C
9	ST6GALNAC4	ENSG00000136840	ENST00000467674	processed_transcript	KNOWN	None	17846	None	None	130670623	130679297	-1	SIAT7D	ST6GALNACIV, SIAT3C
9	ST6GALNAC4	ENSG00000136840	ENST00000361444	protein_coding	PUTATIVE	None	17846	602	199	130670726	130679275	-1	SIAT7D	ST6GALNACIV, SIAT3C
9	ST6GALNAC4	ENSG00000136840	ENST00000483438	processed_transcript	KNOWN	None	17846	None	None	130674666	130677145	-1	SIAT7D	ST6GALNACIV, SIAT3C
9	ST6GALNAC4	ENSG00000136840	ENST00000479747	processed_transcript	KNOWN	None	17846	None	None	130678255	130679317	-1	SIAT7D	ST6GALNACIV, SIAT3C
9	ST6GALNAC4	ENSG00000136840	ENST00000343609	protein_coding	KNOWN	None	17846	657	218	130670166	130679305	-1	SIAT7D	ST6GALNACIV, SIAT3C
17	TVP23C-CDRT4	ENSG00000259024	ENST00000522212	protein_coding	PUTATIVE	CCDS56021	42961	495	164	15339338	15466875	-1	FAM18B2-CDRT4	None
17	TVP23C-CDRT4	ENSG00000259024	ENST00000557349	nonsense_mediated_decay	KNOWN	None	42961	114	37	15341205	15466873	-1	FAM18B2-CDRT4	None
17	TVP23C-CDRT4	ENSG00000259024	ENST00000481756	nonsense_mediated_decay	KNOWN	None	42961	114	37	15341381	15466786	-1	FAM18B2-CDRT4	None
17	TVP23C-CDRT4	ENSG00000259024	ENST00000518506	nonsense_mediated_decay	KNOWN	None	42961	162	53	15341458	15466762	-1	FAM18B2-CDRT4	None
1	AKR1A1	ENSG00000117448	ENST00000372070	protein_coding	KNOWN	CCDS523	380	978	325	46016215	46035721	1	None	ALR, DD3
1	AKR1A1	ENSG00000117448	ENST00000434299	protein_coding	KNOWN	None	380	443	146	46016476	46033740	1	None	ALR, DD3
1	AKR1A1	ENSG00000117448	ENST00000496999	processed_transcript	KNOWN	None	380	None	None	46016518	46032885	1	None	ALR, DD3
1	AKR1A1	ENSG00000117448	ENST00000476957	processed_transcript	KNOWN	None	380	None	None	46016526	46034296	1	None	ALR, DD3
1	AKR1A1	ENSG00000117448	ENST00000481885	processed_transcript	KNOWN	None	380	None	None	46016739	46033697	1	None	ALR, DD3
1	AKR1A1	ENSG00000117448	ENST00000351829	protein_coding	KNOWN	CCDS523	380	978	325	46016739	46035721	1	None	ALR, DD3
1	AKR1A1	ENSG00000117448	ENST00000471651	processed_transcript	KNOWN	None	380	None	None	46016740	46033260	1	None	ALR, DD3
1	AKR1A1	ENSG00000117448	ENST00000497973	processed_transcript	KNOWN	None	380	None	None	46032541	46035721	1	None	ALR, DD3
1	AKR1A1	ENSG00000117448	ENST00000473038	processed_transcript	KNOWN	None	380	None	None	46033221	46035721	1	None	ALR, DD3
1	AKR1A1	ENSG00000117448	ENST00000495913	processed_transcript	KNOWN	None	380	None	None	46033654	46035721	1	None	ALR, DD3
1	AKR1A1	ENSG00000117448	ENST00000487654	processed_transcript	KNOWN	None	380	None	None	46033819	46035716	1	None	ALR, DD3
1	AKR1A1	ENSG00000117448	ENST00000475919	processed_transcript	KNOWN	None	380	None	None	46034286	46035719	1	None	ALR, DD3
1	AKR1A1	ENSG00000117448	ENST00000475985	processed_transcript	KNOWN	None	380	None	None	46034722	46035717	1	None	ALR, DD3
9	MAMDC4	ENSG00000177943	ENST00000485732	processed_transcript	KNOWN	None	24083	None	None	139745395	139755249	1	None	AEGP, DKFZp434M1411
9	MAMDC4	ENSG00000177943	ENST00000317446	protein_coding	KNOWN	CCDS7010	24083	3414	1137	139746819	139755249	1	None	AEGP, DKFZp434M1411
9	MAMDC4	ENSG00000177943	ENST00000481327	processed_transcript	KNOWN	None	24083	None	None	139750011	139750671	1	None	AEGP, DKFZp434M1411
9	MAMDC4	ENSG00000177943	ENST00000479475	nonsense_mediated_decay	KNOWN	None	24083	711	236	139751457	139755249	1	None	AEGP, DKFZp434M1411
9	MAMDC4	ENSG00000177943	ENST00000445819	protein_coding	KNOWN	None	24083	3651	1216	139746819	139755249	1	None	AEGP, DKFZp434M1411
14	WDR25	ENSG00000176473	ENST00000555775	processed_transcript	KNOWN	None	21064	None	None	100842755	100996192	1	C14orf67	MGC4645
14	WDR25	ENSG00000176473	ENST00000554998	protein_coding	KNOWN	CCDS32157	21064	1635	544	100842770	100996608	1	C14orf67	MGC4645
14	WDR25	ENSG00000176473	ENST00000402312	protein_coding	KNOWN	CCDS32157	21064	1635	544	100842776	100996640	1	C14orf67	MGC4645
14	WDR25	ENSG00000176473	ENST00000335290	protein_coding	KNOWN	CCDS32157	21064	1635	544	100842831	100996640	1	C14orf67	MGC4645
14	WDR25	ENSG00000176473	ENST00000554492	processed_transcript	KNOWN	None	21064	None	None	100842837	100992232	1	C14orf67	MGC4645
14	WDR25	ENSG00000176473	ENST00000554175	protein_coding	PUTATIVE	None	21064	825	274	100842878	100921849	1	C14orf67	MGC4645
14	WDR25	ENSG00000176473	ENST00000557710	nonsense_mediated_decay	KNOWN	None	21064	870	289	100847247	100996627	1	C14orf67	MGC4645
14	WDR25	ENSG00000176473	ENST00000542471	protein_coding	KNOWN	None	21064	864	287	100848337	100996627	1	C14orf67	MGC4645
14	WDR25	ENSG00000176473	ENST00000555865	processed_transcript	KNOWN	None	21064	None	None	100942811	100996344	1	C14orf67	MGC4645
14	WDR25	ENSG00000176473	ENST00000557502	processed_transcript	KNOWN	None	21064	None	None	100970037	100996358	1	C14orf67	MGC4645
14	WDR25	ENSG00000176473	ENST00000555201	protein_coding	PUTATIVE	None	21064	365	120	100992283	100995961	1	C14orf67	MGC4645
2	SESTD1	ENSG00000187231	ENST00000428443	protein_coding	KNOWN	CCDS33338	18379	2091	696	179966419	180129517	-1	None	DKFZp434O0515, Solo
2	SESTD1	ENSG00000187231	ENST00000446758	nonsense_mediated_decay	KNOWN	None	18379	632	209	179974049	179989194	-1	None	DKFZp434O0515, Solo
2	SESTD1	ENSG00000187231	ENST00000335289	nonsense_mediated_decay	KNOWN	None	18379	320	105	179974079	180014108	-1	None	DKFZp434O0515, Solo
2	SESTD1	ENSG00000187231	ENST00000426988	nonsense_mediated_decay	KNOWN	None	18379	678	225	179986521	180011186	-1	None	DKFZp434O0515, Solo
2	SESTD1	ENSG00000187231	ENST00000489901	retained_intron	KNOWN	None	18379	None	None	179996772	180011186	-1	None	DKFZp434O0515, Solo
2	SESTD1	ENSG00000187231	ENST00000440010	protein_coding	KNOWN	None	18379	438	145	180016050	180129000	-1	None	DKFZp434O0515, Solo
2	SESTD1	ENSG00000187231	ENST00000435047	protein_coding	KNOWN	None	18379	429	142	180016059	180128930	-1	None	DKFZp434O0515, Solo
2	SESTD1	ENSG00000187231	ENST00000486468	processed_transcript	KNOWN	None	18379	None	None	180027210	180056593	-1	None	DKFZp434O0515, Solo
2	SESTD1	ENSG00000187231	ENST00000452991	nonsense_mediated_decay	KNOWN	None	18379	282	93	180039133	180129352	-1	None	DKFZp434O0515, Solo
1	PSMB4	ENSG00000159377	ENST00000290541	protein_coding	KNOWN	CCDS996	9541	795	264	151372010	151374420	1	None	HN3, PROS26
1	PSMB4	ENSG00000159377	ENST00000495288	retained_intron	KNOWN	None	9541	None	None	151372036	151373528	1	None	HN3, PROS26
1	PSMB4	ENSG00000159377	ENST00000495805	retained_intron	KNOWN	None	9541	None	None	151372055	151373547	1	None	HN3, PROS26
1	PSMB4	ENSG00000159377	ENST00000476467	retained_intron	KNOWN	None	9541	None	None	151372063	151374382	1	None	HN3, PROS26
1	PSMB4	ENSG00000159377	ENST00000493673	retained_intron	KNOWN	None	9541	None	None	151372066	151374410	1	None	HN3, PROS26
1	PSMB4	ENSG00000159377	ENST00000474100	retained_intron	KNOWN	None	9541	None	None	151372650	151374412	1	None	HN3, PROS26
1	PSMB4	ENSG00000159377	ENST00000466425	retained_intron	KNOWN	None	9541	None	None	151373377	151374413	1	None	HN3, PROS26
4	HTT	ENSG00000197386	ENST00000355072	protein_coding	KNOWN	CCDS43206	4851	9429	3142	3076408	3245676	1	HD	IT15
4	HTT	ENSG00000197386	ENST00000506137	retained_intron	KNOWN	None	4851	None	None	3117056	3123439	1	HD	IT15
4	HTT	ENSG00000197386	ENST00000512909	retained_intron	KNOWN	None	4851	None	None	3123127	3125193	1	HD	IT15
4	HTT	ENSG00000197386	ENST00000510626	retained_intron	KNOWN	None	4851	None	None	3130066	3245667	1	HD	IT15
4	HTT	ENSG00000197386	ENST00000509618	protein_coding	PUTATIVE	None	4851	337	111	3162089	3174954	1	HD	IT15
4	HTT	ENSG00000197386	ENST00000513639	retained_intron	KNOWN	None	4851	None	None	3180074	3182400	1	HD	IT15
4	HTT	ENSG00000197386	ENST00000513326	retained_intron	KNOWN	None	4851	None	None	3180074	3182514	1	HD	IT15
4	HTT	ENSG00000197386	ENST00000509043	retained_intron	KNOWN	None	4851	None	None	3180074	3182521	1	HD	IT15
4	HTT	ENSG00000197386	ENST00000502820	processed_transcript	KNOWN	None	4851	None	None	3204733	3208306	1	HD	IT15
4	HTT	ENSG00000197386	ENST00000509751	retained_intron	KNOWN	None	4851	None	None	3213639	3214782	1	HD	IT15
4	HTT	ENSG00000197386	ENST00000512068	retained_intron	KNOWN	None	4851	None	None	3230372	3231649	1	HD	IT15
4	HTT	ENSG00000197386	ENST00000513806	processed_transcript	KNOWN	None	4851	None	None	3230440	3237123	1	HD	IT15
4	HTT	ENSG00000197386	ENST00000508321	retained_intron	KNOWN	None	4851	None	None	3237151	3237906	1	HD	IT15
6	MTRF1L	ENSG00000112031	ENST00000461949	processed_transcript	KNOWN	None	21051	None	None	153308497	153315777	-1	None	None
6	MTRF1L	ENSG00000112031	ENST00000414771	protein_coding	KNOWN	None	21051	696	231	153308497	153316454	-1	None	None
6	MTRF1L	ENSG00000112031	ENST00000367233	protein_coding	KNOWN	CCDS5243	21051	1143	380	153308497	153323820	-1	None	None
6	MTRF1L	ENSG00000112031	ENST00000464135	processed_transcript	KNOWN	None	21051	None	None	153308497	153323820	-1	None	None
6	MTRF1L	ENSG00000112031	ENST00000367231	protein_coding	KNOWN	CCDS47502	21051	816	271	153308497	153323820	-1	None	None
6	MTRF1L	ENSG00000112031	ENST00000367230	protein_coding	KNOWN	None	21051	708	235	153308497	153323820	-1	None	None
6	MTRF1L	ENSG00000112031	ENST00000485512	processed_transcript	KNOWN	None	21051	None	None	153308497	153323820	-1	None	None
6	MTRF1L	ENSG00000112031	ENST00000485283	processed_transcript	KNOWN	None	21051	None	None	153312320	153319877	-1	None	None
6	MTRF1L	ENSG00000112031	ENST00000463251	processed_transcript	KNOWN	None	21051	None	None	153312320	153323820	-1	None	None
6	MTRF1L	ENSG00000112031	ENST00000448966	protein_coding	KNOWN	None	21051	491	162	153312363	153315943	-1	None	None
6	MTRF1L	ENSG00000112031	ENST00000482526	processed_transcript	KNOWN	None	21051	None	None	153319428	153323671	-1	None	None
14	AREL1	ENSG00000119682	ENST00000554070	nonsense_mediated_decay	KNOWN	None	20363	270	89	75120140	75130768	-1	KIAA0317	None
14	AREL1	ENSG00000119682	ENST00000557401	processed_transcript	KNOWN	None	20363	None	None	75126924	75179811	-1	KIAA0317	None
14	AREL1	ENSG00000119682	ENST00000356357	protein_coding	KNOWN	CCDS41971	20363	2472	823	75127955	75179818	-1	KIAA0317	None
14	AREL1	ENSG00000119682	ENST00000555330	nonsense_mediated_decay	KNOWN	None	20363	1515	504	75127975	75152363	-1	KIAA0317	None
14	AREL1	ENSG00000119682	ENST00000557688	retained_intron	KNOWN	None	20363	None	None	75130374	75131657	-1	KIAA0317	None
14	AREL1	ENSG00000119682	ENST00000556202	protein_coding	PUTATIVE	None	20363	1895	630	75130517	75179790	-1	KIAA0317	None
14	AREL1	ENSG00000119682	ENST00000481010	nonsense_mediated_decay	KNOWN	None	20363	358	118	75136390	75142411	-1	KIAA0317	None
14	AREL1	ENSG00000119682	ENST00000556327	retained_intron	KNOWN	None	20363	None	None	75136774	75142727	-1	KIAA0317	None
14	AREL1	ENSG00000119682	ENST00000469797	retained_intron	KNOWN	None	20363	None	None	75137345	75179770	-1	KIAA0317	None
14	AREL1	ENSG00000119682	ENST00000490805	protein_coding	NOVEL	None	20363	394	130	75139887	75142918	-1	KIAA0317	None
14	AREL1	ENSG00000119682	ENST00000553411	nonsense_mediated_decay	KNOWN	None	20363	246	81	75142491	75150098	-1	KIAA0317	None
14	AREL1	ENSG00000119682	ENST00000553279	nonsense_mediated_decay	KNOWN	None	20363	300	99	75142569	75152349	-1	KIAA0317	None
14	AREL1	ENSG00000119682	ENST00000556589	processed_transcript	KNOWN	None	20363	None	None	75149999	75179801	-1	KIAA0317	None
14	AREL1	ENSG00000119682	ENST00000555249	protein_coding	KNOWN	None	20363	388	128	75150092	75179783	-1	KIAA0317	None
14	AREL1	ENSG00000119682	ENST00000473934	processed_transcript	KNOWN	None	20363	None	None	75157762	75179790	-1	KIAA0317	None
14	AREL1	ENSG00000119682	ENST00000554525	processed_transcript	PUTATIVE	None	20363	None	None	75158719	75179646	-1	KIAA0317	None
14	AREL1	ENSG00000119682	ENST00000556860	processed_transcript	KNOWN	None	20363	None	None	75158805	75179790	-1	KIAA0317	None
19	SDHAF1	ENSG00000205138	ENST00000378887	protein_coding	KNOWN	CCDS32999	33867	348	115	36486090	36487220	1	None	LYRM8
11	OR2AG1	ENSG00000170803	ENST00000307401	protein_coding	KNOWN	CCDS31414	15142	951	316	6806248	6807245	1	OR2AG3	None
12	ETV6	ENSG00000139083	ENST00000396373	protein_coding	KNOWN	CCDS8643	3495	1359	452	11802788	12048336	1	None	TEL
12	ETV6	ENSG00000139083	ENST00000541426	processed_transcript	KNOWN	None	3495	None	None	11802878	11979490	1	None	TEL
12	ETV6	ENSG00000139083	ENST00000544715	processed_transcript	PUTATIVE	None	3495	None	None	11802945	11905809	1	None	TEL
12	ETV6	ENSG00000139083	ENST00000545027	protein_coding	PUTATIVE	None	3495	267	88	11905435	11993802	1	None	TEL
12	ETV6	ENSG00000139083	ENST00000266427	protein_coding	PUTATIVE	None	3495	151	49	12038871	12044544	1	None	TEL
16	CDYL2	ENSG00000166446	ENST00000299564	protein_coding	KNOWN	CCDS32493	23030	1521	506	80637609	80838226	-1	None	FLJ38866
16	CDYL2	ENSG00000166446	ENST00000562812	protein_coding	NOVEL	None	23030	1524	507	80637813	80838160	-1	None	FLJ38866
16	CDYL2	ENSG00000166446	ENST00000563890	protein_coding	NOVEL	None	23030	1524	507	80637813	80838160	-1	None	FLJ38866
16	CDYL2	ENSG00000166446	ENST00000566173	protein_coding	NOVEL	None	23030	1524	507	80637813	80838160	-1	None	FLJ38866
16	CDYL2	ENSG00000166446	ENST00000561616	protein_coding	NOVEL	None	23030	655	217	80646537	80673633	-1	None	FLJ38866
16	CDYL2	ENSG00000166446	ENST00000567924	processed_transcript	PUTATIVE	None	23030	None	None	80666534	80667077	-1	None	FLJ38866
16	CDYL2	ENSG00000166446	ENST00000562753	processed_transcript	PUTATIVE	None	23030	None	None	80718501	80769030	-1	None	FLJ38866
19	CAMSAP3	ENSG00000076826	ENST00000160298	protein_coding	KNOWN	CCDS42489	29307	3750	1249	7660788	7682981	1	KIAA1543	Nezha
19	CAMSAP3	ENSG00000076826	ENST00000446248	protein_coding	KNOWN	CCDS45947	29307	3831	1276	7660788	7683190	1	KIAA1543	Nezha
19	CAMSAP3	ENSG00000076826	ENST00000595692	retained_intron	KNOWN	None	29307	None	None	7679520	7682981	1	KIAA1543	Nezha
19	CAMSAP3	ENSG00000076826	ENST00000593434	retained_intron	KNOWN	None	29307	None	None	7681292	7682317	1	KIAA1543	Nezha
1	USH2A	ENSG00000042781	ENST00000307340	protein_coding	KNOWN	CCDS31025	12601	15609	5202	215796236	216596738	-1	USH2	RP39
1	USH2A	ENSG00000042781	ENST00000481786	retained_intron	KNOWN	None	12601	None	None	216256712	216262481	-1	USH2	RP39
1	USH2A	ENSG00000042781	ENST00000463147	retained_intron	KNOWN	None	12601	None	None	216256722	216258450	-1	USH2	RP39
1	USH2A	ENSG00000042781	ENST00000366942	protein_coding	KNOWN	CCDS1516	12601	4641	1546	216347288	216596738	-1	USH2	RP39
1	USH2A	ENSG00000042781	ENST00000366943	protein_coding	KNOWN	None	12601	15681	5226	215796236	216596738	-1	USH2	RP39
9	None	ENSG00000221450	ENST00000408523	miRNA	NOVEL	None	None	None	None	2924323	2924410	-1	None	None
9	None	ENSG00000236511	ENST00000452746	lincRNA	KNOWN	None	None	None	None	3181589	3198517	1	None	None
19	SYNE4	ENSG00000181392	ENST00000505054	retained_intron	KNOWN	None	26703	None	None	36494209	36499512	-1	C19orf46	FLJ36445, Nesprin-4, Nesp4
19	SYNE4	ENSG00000181392	ENST00000397428	protein_coding	PUTATIVE	None	26703	355	117	36494212	36499521	-1	C19orf46	FLJ36445, Nesprin-4, Nesp4
19	SYNE4	ENSG00000181392	ENST00000503121	protein_coding	PUTATIVE	None	26703	453	150	36494212	36499546	-1	C19orf46	FLJ36445, Nesprin-4, Nesp4
19	SYNE4	ENSG00000181392	ENST00000340477	protein_coding	KNOWN	None	26703	876	291	36494212	36499684	-1	C19orf46	FLJ36445, Nesprin-4, Nesp4
19	SYNE4	ENSG00000181392	ENST00000324444	protein_coding	KNOWN	CCDS42553	26703	1215	404	36494212	36499695	-1	C19orf46	FLJ36445, Nesprin-4, Nesp4
19	SYNE4	ENSG00000181392	ENST00000465425	retained_intron	KNOWN	None	26703	None	None	36494212	36499695	-1	C19orf46	FLJ36445, Nesprin-4, Nesp4
19	SYNE4	ENSG00000181392	ENST00000490730	protein_coding	NOVEL	None	26703	1063	353	36494212	36499695	-1	C19orf46	FLJ36445, Nesprin-4, Nesp4
5	CATSPER3	ENSG00000152705	ENST00000282611	protein_coding	KNOWN	CCDS4181	20819	1197	398	134303596	134347392	1	None	CACRC
5	CATSPER3	ENSG00000152705	ENST00000511235	processed_transcript	KNOWN	None	20819	None	None	134303597	134331544	1	None	CACRC
9	None	ENSG00000215297	ENST00000438600	processed_pseudogene	KNOWN	None	None	None	None	3364329	3364792	-1	None	None
9	None	ENSG00000232104	ENST00000423112	lincRNA	KNOWN	None	None	None	None	3526723	3671634	1	None	None
9	None	ENSG00000232104	ENST00000457566	lincRNA	KNOWN	None	None	None	None	3668086	3671646	1	None	None
9	None	ENSG00000237359	ENST00000430387	lincRNA	KNOWN	None	None	None	None	3647335	3648338	1	None	None
9	None	ENSG00000235326	ENST00000427722	lincRNA	KNOWN	None	None	None	None	3674546	3691814	1	None	None
9	None	ENSG00000226669	ENST00000438147	lincRNA	KNOWN	None	None	None	None	3684076	3689626	-1	None	None
9	None	ENSG00000236724	ENST00000422150	antisense	KNOWN	None	None	None	None	3875584	3878809	1	None	None
9	GLIS3-AS1	ENSG00000237009	ENST00000451340	antisense	KNOWN	None	28260	None	None	3898642	3901248	1	C9orf70	MGC16153
2	ZNF385B	ENSG00000144331	ENST00000466398	processed_transcript	KNOWN	None	26332	None	None	180306709	180450632	-1	ZNF533	FLJ25270
2	ZNF385B	ENSG00000144331	ENST00000410066	protein_coding	KNOWN	CCDS33339	26332	1416	471	180306709	180726232	-1	ZNF533	FLJ25270
2	ZNF385B	ENSG00000144331	ENST00000336917	protein_coding	KNOWN	CCDS46464	26332	1110	369	180306720	180427315	-1	ZNF533	FLJ25270
2	ZNF385B	ENSG00000144331	ENST00000409343	protein_coding	KNOWN	CCDS46463	26332	1188	395	180306720	180610769	-1	ZNF533	FLJ25270
2	ZNF385B	ENSG00000144331	ENST00000409692	protein_coding	KNOWN	CCDS46464	26332	1110	369	180307278	180448796	-1	ZNF533	FLJ25270
2	ZNF385B	ENSG00000144331	ENST00000457304	protein_coding	KNOWN	None	26332	789	262	180310277	180502053	-1	ZNF533	FLJ25270
2	ZNF385B	ENSG00000144331	ENST00000469551	processed_transcript	KNOWN	None	26332	None	None	180310335	180427347	-1	ZNF533	FLJ25270
2	ZNF385B	ENSG00000144331	ENST00000475539	processed_transcript	KNOWN	None	26332	None	None	180311361	180610581	-1	ZNF533	FLJ25270
2	ZNF385B	ENSG00000144331	ENST00000495289	processed_transcript	KNOWN	None	26332	None	None	180345621	180401230	-1	ZNF533	FLJ25270
2	ZNF385B	ENSG00000144331	ENST00000439340	protein_coding	NOVEL	None	26332	415	137	180348047	180448794	-1	ZNF533	FLJ25270
2	ZNF385B	ENSG00000144331	ENST00000463918	processed_transcript	KNOWN	None	26332	None	None	180409554	180524909	-1	ZNF533	FLJ25270
2	ZNF385B	ENSG00000144331	ENST00000451732	protein_coding	KNOWN	None	26332	226	74	180634257	180667398	-1	ZNF533	FLJ25270
2	ZNF385B	ENSG00000144331	ENST00000438871	protein_coding	KNOWN	None	26332	94	30	180634389	180661046	-1	ZNF533	FLJ25270
3	GNL3	ENSG00000163938	ENST00000479230	protein_coding	KNOWN	None	29931	404	133	52715172	52723121	1	None	C77032, E2IG3, MGC800, NS, nucleostemin
3	GNL3	ENSG00000163938	ENST00000418458	protein_coding	KNOWN	CCDS2861	29931	1650	549	52719936	52728508	1	None	C77032, E2IG3, MGC800, NS, nucleostemin
3	GNL3	ENSG00000163938	ENST00000468146	processed_transcript	KNOWN	None	29931	None	None	52720021	52723102	1	None	C77032, E2IG3, MGC800, NS, nucleostemin
3	GNL3	ENSG00000163938	ENST00000394799	protein_coding	KNOWN	CCDS43100	29931	1614	537	52720032	52728508	1	None	C77032, E2IG3, MGC800, NS, nucleostemin
3	GNL3	ENSG00000163938	ENST00000468885	retained_intron	KNOWN	None	29931	None	None	52720046	52720971	1	None	C77032, E2IG3, MGC800, NS, nucleostemin
3	GNL3	ENSG00000163938	ENST00000462550	retained_intron	KNOWN	None	29931	None	None	52720048	52721843	1	None	C77032, E2IG3, MGC800, NS, nucleostemin
3	GNL3	ENSG00000163938	ENST00000492349	nonsense_mediated_decay	KNOWN	None	29931	417	138	52720048	52724720	1	None	C77032, E2IG3, MGC800, NS, nucleostemin
3	GNL3	ENSG00000163938	ENST00000496254	retained_intron	KNOWN	None	29931	None	None	52720065	52728475	1	None	C77032, E2IG3, MGC800, NS, nucleostemin
3	GNL3	ENSG00000163938	ENST00000474423	protein_coding	KNOWN	None	29931	289	95	52720187	52721632	1	None	C77032, E2IG3, MGC800, NS, nucleostemin
3	GNL3	ENSG00000163938	ENST00000460073	processed_transcript	KNOWN	None	29931	None	None	52720193	52722206	1	None	C77032, E2IG3, MGC800, NS, nucleostemin
3	GNL3	ENSG00000163938	ENST00000484022	retained_intron	KNOWN	None	29931	None	None	52722941	52726945	1	None	C77032, E2IG3, MGC800, NS, nucleostemin
3	GNL3	ENSG00000163938	ENST00000497356	retained_intron	KNOWN	None	29931	None	None	52727186	52727795	1	None	C77032, E2IG3, MGC800, NS, nucleostemin
5	PITX1	ENSG00000069011	ENST00000265340	protein_coding	KNOWN	CCDS4182	9004	945	314	134363425	134369988	-1	BFT	PTX1, POTX
5	PITX1	ENSG00000069011	ENST00000506438	protein_coding	KNOWN	CCDS4182	9004	945	314	134364243	134370324	-1	BFT	PTX1, POTX
5	PITX1	ENSG00000069011	ENST00000503586	protein_coding	NOVEL	None	9004	624	207	134364912	134368825	-1	BFT	PTX1, POTX
5	PITX1	ENSG00000069011	ENST00000504936	retained_intron	KNOWN	None	9004	None	None	134364977	134367700	-1	BFT	PTX1, POTX
5	PITX1	ENSG00000069011	ENST00000507253	protein_coding	KNOWN	None	9004	392	129	134366976	134370503	-1	BFT	PTX1, POTX
5	PITX1	ENSG00000069011	ENST00000502676	protein_coding	KNOWN	None	9004	342	113	134367026	134370447	-1	BFT	PTX1, POTX
17	GPS2	ENSG00000132522	ENST00000570780	protein_coding	PUTATIVE	None	4550	983	326	7214643	7218442	-1	None	None
17	GPS2	ENSG00000132522	ENST00000573807	retained_intron	KNOWN	None	4550	None	None	7215978	7217076	-1	None	None
17	GPS2	ENSG00000132522	ENST00000572172	retained_intron	KNOWN	None	4550	None	None	7215978	7218640	-1	None	None
17	GPS2	ENSG00000132522	ENST00000571569	retained_intron	KNOWN	None	4550	None	None	7215978	7218647	-1	None	None
17	GPS2	ENSG00000132522	ENST00000573684	protein_coding	PUTATIVE	None	4550	477	158	7215979	7217040	-1	None	None
17	GPS2	ENSG00000132522	ENST00000389167	protein_coding	KNOWN	CCDS11100	4550	984	327	7215979	7218662	-1	None	None
17	GPS2	ENSG00000132522	ENST00000574458	protein_coding	PUTATIVE	None	4550	221	72	7215980	7216589	-1	None	None
17	GPS2	ENSG00000132522	ENST00000380728	protein_coding	KNOWN	CCDS11100	4550	984	327	7215981	7218883	-1	None	None
17	GPS2	ENSG00000132522	ENST00000571697	retained_intron	KNOWN	None	4550	None	None	7216015	7218883	-1	None	None
17	GPS2	ENSG00000132522	ENST00000577040	protein_coding	KNOWN	None	4550	778	258	7216557	7218641	-1	None	None
17	GPS2	ENSG00000132522	ENST00000572363	retained_intron	KNOWN	None	4550	None	None	7216699	7218726	-1	None	None
17	GPS2	ENSG00000132522	ENST00000571098	retained_intron	KNOWN	None	4550	None	None	7216894	7218816	-1	None	None
17	GPS2	ENSG00000132522	ENST00000573059	retained_intron	KNOWN	None	4550	None	None	7216985	7218612	-1	None	None
17	GPS2	ENSG00000132522	ENST00000572707	retained_intron	KNOWN	None	4550	None	None	7216989	7218439	-1	None	None
17	GPS2	ENSG00000132522	ENST00000571695	retained_intron	KNOWN	None	4550	None	None	7217360	7218137	-1	None	None
17	GPS2	ENSG00000132522	ENST00000574201	retained_intron	KNOWN	None	4550	None	None	7217462	7218667	-1	None	None
17	GPS2	ENSG00000132522	ENST00000391950	protein_coding	KNOWN	None	4550	912	303	7214643	7218670	-1	None	None
8	TP53INP1	ENSG00000164938	ENST00000448464	protein_coding	KNOWN	CCDS47899	18022	495	164	95938200	95961594	-1	None	DKFZp434M1317, FLJ22139, P53DINP1, SIP, TP53INP1A, TP53INP1B, Teap
8	TP53INP1	ENSG00000164938	ENST00000342697	protein_coding	KNOWN	CCDS6265	18022	723	240	95938200	95961639	-1	None	DKFZp434M1317, FLJ22139, P53DINP1, SIP, TP53INP1A, TP53INP1B, Teap
8	TP53INP1	ENSG00000164938	ENST00000378776	protein_coding	KNOWN	None	18022	558	185	95942707	95953201	-1	None	DKFZp434M1317, FLJ22139, P53DINP1, SIP, TP53INP1A, TP53INP1B, Teap
9	None	ENSG00000230001	ENST00000457383	sense_intronic	KNOWN	None	None	None	None	4070906	4071884	-1	None	None
16	NPIPB3	ENSG00000169246	ENST00000504841	protein_coding	NOVEL	None	28989	1074	357	21416183	21436599	-1	NPIPL3	KIAA0220
16	NPIPB3	ENSG00000169246	ENST00000419180	protein_coding	PUTATIVE	None	28989	754	250	21416494	21436643	-1	NPIPL3	KIAA0220
16	NPIPB3	ENSG00000169246	ENST00000542953	retained_intron	KNOWN	None	28989	None	None	21418151	21426598	-1	NPIPL3	KIAA0220
16	NPIPB3	ENSG00000169246	ENST00000519305	processed_transcript	KNOWN	None	28989	None	None	21422291	21436723	-1	NPIPL3	KIAA0220
16	NPIPB3	ENSG00000169246	ENST00000521589	protein_coding	PUTATIVE	None	28989	291	96	21422564	21452040	-1	NPIPL3	KIAA0220
16	NPIPB3	ENSG00000169246	ENST00000534903	protein_coding	NOVEL	None	28989	314	103	21422598	21442874	-1	NPIPL3	KIAA0220
16	NPIPB3	ENSG00000169246	ENST00000538439	processed_transcript	KNOWN	None	28989	None	None	21426326	21436675	-1	NPIPL3	KIAA0220
16	NPIPB3	ENSG00000169246	ENST00000545358	processed_transcript	KNOWN	None	28989	None	None	21426327	21459392	-1	NPIPL3	KIAA0220
16	NPIPB3	ENSG00000169246	ENST00000535190	processed_transcript	KNOWN	None	28989	None	None	21430990	21436657	-1	NPIPL3	KIAA0220
16	NPIPB3	ENSG00000169246	ENST00000537983	processed_transcript	KNOWN	None	28989	None	None	21434028	21436702	-1	NPIPL3	KIAA0220
16	NPIPB3	ENSG00000169246	ENST00000543368	retained_intron	KNOWN	None	28989	None	None	21436084	21459360	-1	NPIPL3	KIAA0220
16	NPIPB3	ENSG00000169246	ENST00000544154	processed_transcript	KNOWN	None	28989	None	None	21436376	21459888	-1	NPIPL3	KIAA0220
16	NPIPB3	ENSG00000169246	ENST00000448012	protein_coding	KNOWN	None	28989	2547	848	21413605	21436459	-1	NPIPL3	KIAA0220
16	NPIPB3	ENSG00000169246	ENST00000458643	protein_coding	KNOWN	None	28989	2949	982	21413605	21431078	-1	NPIPL3	KIAA0220
16	NPIPB3	ENSG00000169246	ENST00000542817	protein_coding	KNOWN	None	28989	1263	420	21413558	21416640	-1	NPIPL3	KIAA0220
2	FIGLA	ENSG00000183733	ENST00000332372	protein_coding	KNOWN	CCDS46320	24669	660	219	71004442	71017775	-1	None	bHLHc8
14	GPR135	ENSG00000181619	ENST00000481661	nonsense_mediated_decay	KNOWN	CCDS9738	19991	1485	494	59895740	59932059	-1	None	HUMNPIIY20, PAFR
14	GPR135	ENSG00000181619	ENST00000395116	protein_coding	KNOWN	CCDS9738	19991	1485	494	59927483	59932060	-1	None	HUMNPIIY20, PAFR
12	CD163	ENSG00000177575	ENST00000359156	protein_coding	KNOWN	CCDS8578	1631	3471	1156	7623409	7656489	-1	None	M130, MM130
12	CD163	ENSG00000177575	ENST00000537044	retained_intron	KNOWN	None	1631	None	None	7623412	7656372	-1	None	M130, MM130
12	CD163	ENSG00000177575	ENST00000542705	processed_transcript	PUTATIVE	None	1631	None	None	7623570	7625775	-1	None	M130, MM130
12	CD163	ENSG00000177575	ENST00000534848	processed_transcript	PUTATIVE	None	1631	None	None	7623767	7624532	-1	None	M130, MM130
12	CD163	ENSG00000177575	ENST00000542280	protein_coding	NOVEL	None	1631	375	124	7623772	7636170	-1	None	M130, MM130
12	CD163	ENSG00000177575	ENST00000537626	protein_coding	NOVEL	None	1631	413	136	7623776	7636088	-1	None	M130, MM130
12	CD163	ENSG00000177575	ENST00000541972	protein_coding	PUTATIVE	None	1631	3330	1109	7623776	7655333	-1	None	M130, MM130
12	CD163	ENSG00000177575	ENST00000396620	protein_coding	KNOWN	None	1631	3465	1154	7623776	7656372	-1	None	M130, MM130
12	CD163	ENSG00000177575	ENST00000432237	protein_coding	KNOWN	CCDS53742	1631	3366	1121	7623776	7656372	-1	None	M130, MM130
12	CD163	ENSG00000177575	ENST00000538840	retained_intron	KNOWN	None	1631	None	None	7635890	7638014	-1	None	M130, MM130
12	CD163	ENSG00000177575	ENST00000539632	processed_transcript	PUTATIVE	None	1631	None	None	7635996	7637940	-1	None	M130, MM130
5	GABRG2	ENSG00000113327	ENST00000356592	protein_coding	KNOWN	CCDS4359	4087	1428	475	161494546	161582542	1	None	None
5	GABRG2	ENSG00000113327	ENST00000414552	protein_coding	NOVEL	CCDS47333	4087	1548	515	161494781	161582528	1	None	None
5	GABRG2	ENSG00000113327	ENST00000361925	protein_coding	KNOWN	CCDS4358	4087	1404	467	161494786	161580489	1	None	None
5	GABRG2	ENSG00000113327	ENST00000522990	nonsense_mediated_decay	KNOWN	None	4087	336	111	161494880	161581051	1	None	None
5	GABRG2	ENSG00000113327	ENST00000523372	nonsense_mediated_decay	KNOWN	None	4087	156	51	161495006	161580810	1	None	None
5	GABRG2	ENSG00000113327	ENST00000522053	protein_coding	PUTATIVE	None	4087	667	221	161521540	161576143	1	None	None
5	GABRG2	ENSG00000113327	ENST00000393933	protein_coding	KNOWN	None	4087	1119	372	161495044	161580810	1	None	None
11	OR4B1	ENSG00000175619	ENST00000309562	protein_coding	KNOWN	CCDS31485	8290	930	309	48238344	48239314	1	None	OST208
17	FSCN2	ENSG00000186765	ENST00000417245	protein_coding	KNOWN	CCDS45811	3960	1479	492	79495422	79504156	1	None	RP30, RFSN
17	FSCN2	ENSG00000186765	ENST00000334850	protein_coding	KNOWN	CCDS45810	3960	1551	516	79495558	79504106	1	None	RP30, RFSN
17	FSCN2	ENSG00000186765	ENST00000527221	retained_intron	KNOWN	None	3960	None	None	79503172	79503982	1	None	RP30, RFSN
11	OR4X2	ENSG00000172208	ENST00000302329	protein_coding	KNOWN	CCDS31486	15184	912	303	48266608	48267622	1	None	None
4	CEP135	ENSG00000174799	ENST00000422247	protein_coding	KNOWN	None	29086	750	249	56815037	56827091	1	KIAA0635, CEP4	FLJ13621
4	CEP135	ENSG00000174799	ENST00000506809	retained_intron	KNOWN	None	29086	None	None	56815111	56818719	1	KIAA0635, CEP4	FLJ13621
4	CEP135	ENSG00000174799	ENST00000257287	protein_coding	KNOWN	CCDS33986	29086	3423	1140	56815147	56899529	1	KIAA0635, CEP4	FLJ13621
4	CEP135	ENSG00000174799	ENST00000515081	retained_intron	KNOWN	None	29086	None	None	56820444	56832746	1	KIAA0635, CEP4	FLJ13621
4	CEP135	ENSG00000174799	ENST00000506202	retained_intron	KNOWN	None	29086	None	None	56831032	56899270	1	KIAA0635, CEP4	FLJ13621
7	ZNF273	ENSG00000198039	ENST00000476730	processed_transcript	PUTATIVE	None	13067	None	None	64330550	64350233	1	None	HZF9
7	ZNF273	ENSG00000198039	ENST00000465954	processed_transcript	PUTATIVE	None	13067	None	None	64338038	64340109	1	None	HZF9
7	ZNF273	ENSG00000198039	ENST00000527278	processed_transcript	KNOWN	None	13067	None	None	64342871	64389502	1	None	HZF9
7	ZNF273	ENSG00000198039	ENST00000471926	processed_transcript	PUTATIVE	None	13067	None	None	64342891	64349246	1	None	HZF9
7	ZNF273	ENSG00000198039	ENST00000476120	protein_coding	KNOWN	CCDS5528	13067	1710	569	64363625	64389635	1	None	HZF9
7	ZNF273	ENSG00000198039	ENST00000489672	processed_transcript	KNOWN	None	13067	None	None	64363631	64384809	1	None	HZF9
7	ZNF273	ENSG00000198039	ENST00000395375	nonsense_mediated_decay	KNOWN	None	13067	201	66	64363666	64391344	1	None	HZF9
7	ZNF273	ENSG00000198039	ENST00000545510	protein_coding	KNOWN	None	13067	246	81	64363634	64384595	1	None	HZF9
7	ZNF273	ENSG00000198039	ENST00000319636	protein_coding	KNOWN	None	13067	1515	504	64363631	64389416	1	None	HZF9
11	OR4X1	ENSG00000176567	ENST00000320048	protein_coding	KNOWN	CCDS31487	14854	918	305	48285413	48286330	1	None	None
5	FAM71B	ENSG00000170613	ENST00000302938	protein_coding	KNOWN	CCDS4335	28397	1818	605	156588857	156593275	-1	None	MGC26988
12	BCL2L14	ENSG00000121380	ENST00000589718	protein_coding	KNOWN	CCDS8645	16657	984	327	12202778	12252618	1	None	BCLG, BCL-G
12	BCL2L14	ENSG00000121380	ENST00000591235	processed_transcript	KNOWN	None	16657	None	None	12202795	12225270	1	None	BCLG, BCL-G
12	BCL2L14	ENSG00000121380	ENST00000586576	protein_coding	PUTATIVE	None	16657	1083	360	12202795	12252618	1	None	BCLG, BCL-G
12	BCL2L14	ENSG00000121380	ENST00000545463	processed_transcript	KNOWN	None	16657	None	None	12202797	12225294	1	None	BCLG, BCL-G
12	BCL2L14	ENSG00000121380	ENST00000484949	processed_transcript	KNOWN	None	16657	None	None	12202798	12208718	1	None	BCLG, BCL-G
12	BCL2L14	ENSG00000121380	ENST00000464885	protein_coding	KNOWN	None	16657	173	56	12202798	12232412	1	None	BCLG, BCL-G
12	BCL2L14	ENSG00000121380	ENST00000461264	protein_coding	PUTATIVE	None	16657	375	124	12202825	12232605	1	None	BCLG, BCL-G
12	BCL2L14	ENSG00000121380	ENST00000479717	processed_transcript	KNOWN	None	16657	None	None	12223869	12224774	1	None	BCLG, BCL-G
12	BCL2L14	ENSG00000121380	ENST00000466531	processed_transcript	KNOWN	None	16657	None	None	12223873	12231001	1	None	BCLG, BCL-G
12	BCL2L14	ENSG00000121380	ENST00000308721	protein_coding	KNOWN	CCDS8645	16657	984	327	12223873	12252629	1	None	BCLG, BCL-G
12	BCL2L14	ENSG00000121380	ENST00000396367	protein_coding	KNOWN	CCDS8645	16657	984	327	12224402	12252629	1	None	BCLG, BCL-G
12	BCL2L14	ENSG00000121380	ENST00000266434	protein_coding	KNOWN	CCDS8646	16657	759	252	12224402	12252629	1	None	BCLG, BCL-G
12	BCL2L14	ENSG00000121380	ENST00000588270	protein_coding	KNOWN	None	16657	530	175	12232187	12240243	1	None	BCLG, BCL-G
12	BCL2L14	ENSG00000121380	ENST00000298566	nonsense_mediated_decay	KNOWN	None	16657	831	276	12232233	12364018	1	None	BCLG, BCL-G
12	BCL2L14	ENSG00000121380	ENST00000396369	protein_coding	KNOWN	None	16657	831	276	12224402	12291889	1	None	BCLG, BCL-G
11	OR6A2	ENSG00000184933	ENST00000332601	protein_coding	KNOWN	CCDS7772	15301	984	327	6815756	6817128	-1	OR6A2P, OR6A1	OR11-55
11	OR10A5	ENSG00000166363	ENST00000299454	protein_coding	KNOWN	CCDS7773	15131	954	317	6866883	6867936	1	OR10A1	OR11-403, JCG6
11	OR10A5	ENSG00000166363	ENST00000379831	protein_coding	KNOWN	None	15131	966	321	6866883	6867927	1	OR10A1	OR11-403, JCG6
19	XAB2	ENSG00000076924	ENST00000358368	protein_coding	KNOWN	CCDS32892	14089	2568	855	7684411	7694451	-1	None	HCNP, HCRN, SYF1, NTC90
19	XAB2	ENSG00000076924	ENST00000595288	retained_intron	KNOWN	None	14089	None	None	7684412	7693156	-1	None	HCNP, HCRN, SYF1, NTC90
19	XAB2	ENSG00000076924	ENST00000600230	retained_intron	KNOWN	None	14089	None	None	7685161	7686183	-1	None	HCNP, HCRN, SYF1, NTC90
19	XAB2	ENSG00000076924	ENST00000596134	retained_intron	KNOWN	None	14089	None	None	7685779	7686419	-1	None	HCNP, HCRN, SYF1, NTC90
19	XAB2	ENSG00000076924	ENST00000534844	protein_coding	KNOWN	None	14089	2559	852	7684417	7694451	-1	None	HCNP, HCRN, SYF1, NTC90
11	OR10A2	ENSG00000170790	ENST00000307322	protein_coding	KNOWN	CCDS31415	8161	912	303	6890924	6891976	1	OR10A2P	OST363
17	CD68	ENSG00000129226	ENST00000250092	protein_coding	KNOWN	CCDS11114	1693	1065	354	7482785	7485429	1	None	SCARD1, macrosialin, GP110, DKFZp686M18236, LAMP4
17	CD68	ENSG00000129226	ENST00000380498	protein_coding	KNOWN	CCDS58512	1693	984	327	7482809	7485429	1	None	SCARD1, macrosialin, GP110, DKFZp686M18236, LAMP4
17	CD68	ENSG00000129226	ENST00000584502	protein_coding	PUTATIVE	None	1693	542	179	7482956	7483797	1	None	SCARD1, macrosialin, GP110, DKFZp686M18236, LAMP4
17	CD68	ENSG00000129226	ENST00000584180	protein_coding	PUTATIVE	None	1693	364	120	7483813	7484940	1	None	SCARD1, macrosialin, GP110, DKFZp686M18236, LAMP4
2	CWC22	ENSG00000163510	ENST00000410053	protein_coding	KNOWN	CCDS46465	29322	2727	908	180809603	180871780	-1	None	KIAA1604, EIF4GL, fSAPb, NCM
2	CWC22	ENSG00000163510	ENST00000404136	protein_coding	KNOWN	None	29322	2235	744	180810348	180871840	-1	None	KIAA1604, EIF4GL, fSAPb, NCM
2	CWC22	ENSG00000163510	ENST00000295749	protein_coding	KNOWN	None	29322	2727	908	180809856	180871840	-1	None	KIAA1604, EIF4GL, fSAPb, NCM
X	GPR119	ENSG00000147262	ENST00000276218	protein_coding	KNOWN	CCDS14625	19060	1008	335	129518319	129519511	-1	None	hGPCR2, GPCR2
12	PTPRR	ENSG00000153233	ENST00000440835	protein_coding	KNOWN	CCDS44945	9680	1239	412	71031853	71148441	-1	PTPRQ	PTPBR7, PTP-SL, EC-PTP, PCPTP1
12	PTPRR	ENSG00000153233	ENST00000537619	processed_transcript	KNOWN	None	9680	None	None	71031859	71058457	-1	PTPRQ	PTPBR7, PTP-SL, EC-PTP, PCPTP1
12	PTPRR	ENSG00000153233	ENST00000551219	nonsense_mediated_decay	KNOWN	None	9680	426	141	71031859	71148371	-1	PTPRQ	PTPBR7, PTP-SL, EC-PTP, PCPTP1
12	PTPRR	ENSG00000153233	ENST00000547752	processed_transcript	KNOWN	None	9680	None	None	71031862	71058152	-1	PTPRQ	PTPBR7, PTP-SL, EC-PTP, PCPTP1
12	PTPRR	ENSG00000153233	ENST00000283228	protein_coding	KNOWN	CCDS8998	9680	1974	657	71031862	71314623	-1	PTPRQ	PTPBR7, PTP-SL, EC-PTP, PCPTP1
12	PTPRR	ENSG00000153233	ENST00000342084	protein_coding	PUTATIVE	CCDS55848	9680	1638	545	71032711	71182762	-1	PTPRQ	PTPBR7, PTP-SL, EC-PTP, PCPTP1
12	PTPRR	ENSG00000153233	ENST00000549308	protein_coding	KNOWN	CCDS44945	9680	1239	412	71032840	71148496	-1	PTPRQ	PTPBR7, PTP-SL, EC-PTP, PCPTP1
12	PTPRR	ENSG00000153233	ENST00000549107	processed_transcript	KNOWN	None	9680	None	None	71032910	71078676	-1	PTPRQ	PTPBR7, PTP-SL, EC-PTP, PCPTP1
12	PTPRR	ENSG00000153233	ENST00000548220	processed_transcript	KNOWN	None	9680	None	None	71054770	71148539	-1	PTPRQ	PTPBR7, PTP-SL, EC-PTP, PCPTP1
12	PTPRR	ENSG00000153233	ENST00000550661	protein_coding	KNOWN	None	9680	596	197	71078512	71148515	-1	PTPRQ	PTPBR7, PTP-SL, EC-PTP, PCPTP1
12	PTPRR	ENSG00000153233	ENST00000378778	protein_coding	KNOWN	CCDS55847	9680	1356	451	71031862	71148373	-1	PTPRQ	PTPBR7, PTP-SL, EC-PTP, PCPTP1
12	CCNT1	ENSG00000129315	ENST00000261900	protein_coding	KNOWN	CCDS8766	1599	2181	726	49082247	49110681	-1	HIVE1	CCNT, CYCT1
12	CCNT1	ENSG00000129315	ENST00000417344	nonsense_mediated_decay	KNOWN	None	1599	555	184	49086816	49110458	-1	HIVE1	CCNT, CYCT1
12	CCNT1	ENSG00000129315	ENST00000551989	retained_intron	KNOWN	None	1599	None	None	49087713	49089760	-1	HIVE1	CCNT, CYCT1
12	CCNT1	ENSG00000129315	ENST00000550457	retained_intron	KNOWN	None	1599	None	None	49099407	49108303	-1	HIVE1	CCNT, CYCT1
10	CUL2	ENSG00000108094	ENST00000374746	protein_coding	NOVEL	None	2552	2121	706	35297479	35360267	-1	None	None
10	CUL2	ENSG00000108094	ENST00000374748	protein_coding	KNOWN	CCDS7179	2552	2238	745	35297479	35379292	-1	None	None
10	CUL2	ENSG00000108094	ENST00000374749	protein_coding	KNOWN	CCDS7179	2552	2238	745	35297479	35379294	-1	None	None
10	CUL2	ENSG00000108094	ENST00000374751	protein_coding	KNOWN	CCDS7179	2552	2238	745	35297479	35379570	-1	None	None
10	CUL2	ENSG00000108094	ENST00000374754	nonsense_mediated_decay	KNOWN	None	2552	273	90	35297479	35379570	-1	None	None
10	CUL2	ENSG00000108094	ENST00000421317	protein_coding	KNOWN	None	2552	650	215	35333558	35363214	-1	None	None
10	CUL2	ENSG00000108094	ENST00000468804	processed_transcript	KNOWN	None	2552	None	None	35349802	35378963	-1	None	None
10	CUL2	ENSG00000108094	ENST00000478044	processed_transcript	KNOWN	None	2552	None	None	35352774	35363214	-1	None	None
10	CUL2	ENSG00000108094	ENST00000537177	protein_coding	KNOWN	CCDS55709	2552	2295	764	35299220	35363216	-1	None	None
10	CUL2	ENSG00000108094	ENST00000374742	protein_coding	KNOWN	None	2552	2121	706	35298808	35379570	-1	None	None
10	CUL2	ENSG00000108094	ENST00000602371	protein_coding	KNOWN	None	2552	2067	688	35298808	35379570	-1	None	None
9	None	ENSG00000228322	ENST00000440674	antisense	KNOWN	None	None	None	None	4299390	4306046	1	None	None
9	None	ENSG00000221730	ENST00000408803	miRNA	NOVEL	None	None	None	None	4378423	4378494	-1	None	None
9	RNU6-694P	ENSG00000200941	ENST00000364071	snRNA	KNOWN	None	47657	None	None	4386410	4386556	-1	None	None
9	None	ENSG00000225893	ENST00000429407	processed_pseudogene	KNOWN	None	None	None	None	4633027	4633756	1	None	None
11	OR4S1	ENSG00000176555	ENST00000319988	protein_coding	KNOWN	CCDS31488	14705	930	309	48327775	48328704	1	None	None
9	None	ENSG00000270639	ENST00000604092	processed_pseudogene	KNOWN	None	None	None	None	4768617	4769895	-1	None	None
X	RBMX2	ENSG00000134597	ENST00000305536	protein_coding	KNOWN	CCDS43993	24282	969	322	129535943	129547317	1	None	CGI-79
X	RBMX2	ENSG00000134597	ENST00000469953	processed_transcript	KNOWN	None	24282	None	None	129535975	129545498	1	None	CGI-79
X	RBMX2	ENSG00000134597	ENST00000370947	protein_coding	KNOWN	None	24282	177	58	129535979	129538424	1	None	CGI-79
X	RBMX2	ENSG00000134597	ENST00000487274	processed_transcript	KNOWN	None	24282	None	None	129545177	129546369	1	None	CGI-79
9	None	ENSG00000220105	ENST00000402406	processed_pseudogene	KNOWN	None	None	None	None	4781475	4782078	-1	None	None
11	OR4C3	ENSG00000176547	ENST00000319856	protein_coding	KNOWN	CCDS31489	14697	990	329	48346472	48347507	1	None	None
9	None	ENSG00000233186	ENST00000412782	processed_pseudogene	KNOWN	None	None	None	None	4803788	4804972	-1	None	None
9	MIR101-2	ENSG00000199065	ENST00000362195	miRNA	KNOWN	None	31489	None	None	4850291	4850381	1	MIRN101-2	hsa-mir-101-2
11	OR4C5	ENSG00000176540	ENST00000319813	protein_coding	KNOWN	None	14702	981	326	48387037	48388017	-1	OR4C5P	OR4C5Q
11	OR4A47	ENSG00000237388	ENST00000446524	protein_coding	KNOWN	CCDS31490	31266	930	309	48510269	48511332	1	None	None
5	None	ENSG00000224186	ENST00000432382	protein_coding	PUTATIVE	CCDS59494	None	438	145	134368970	134680375	1	None	None
5	None	ENSG00000224186	ENST00000555438	protein_coding	PUTATIVE	None	None	309	102	134673629	134691744	1	None	None
5	None	ENSG00000224186	ENST00000554670	protein_coding	PUTATIVE	None	None	288	95	134685864	134691254	1	None	None
2	CLEC4F	ENSG00000152672	ENST00000272367	protein_coding	KNOWN	CCDS1910	25357	1770	589	71035775	71047732	-1	CLECSF13	FLJ39110, KCLR
2	CLEC4F	ENSG00000152672	ENST00000426626	protein_coding	PUTATIVE	None	25357	1704	567	71035945	71047679	-1	CLECSF13	FLJ39110, KCLR
17	TVP23C	ENSG00000175106	ENST00000225576	protein_coding	KNOWN	CCDS11170	30453	831	276	15405578	15466858	-1	FAM18B2	MGC8763
17	TVP23C	ENSG00000175106	ENST00000581273	nonsense_mediated_decay	KNOWN	None	30453	183	60	15410186	15449230	-1	FAM18B2	MGC8763
17	TVP23C	ENSG00000175106	ENST00000584811	protein_coding	NOVEL	None	30453	426	141	15440294	15466742	-1	FAM18B2	MGC8763
17	TVP23C	ENSG00000175106	ENST00000438826	protein_coding	NOVEL	None	30453	618	205	15440295	15466850	-1	FAM18B2	MGC8763
17	TVP23C	ENSG00000175106	ENST00000428082	protein_coding	NOVEL	None	30453	618	205	15440295	15466909	-1	FAM18B2	MGC8763
17	TVP23C	ENSG00000175106	ENST00000523573	nonsense_mediated_decay	KNOWN	None	30453	162	53	15441215	15466762	-1	FAM18B2	MGC8763
17	TVP23C	ENSG00000175106	ENST00000521179	nonsense_mediated_decay	KNOWN	None	30453	114	37	15441347	15466786	-1	FAM18B2	MGC8763
17	TVP23C	ENSG00000175106	ENST00000583206	processed_transcript	PUTATIVE	None	30453	None	None	15442295	15443485	-1	FAM18B2	MGC8763
17	TVP23C	ENSG00000175106	ENST00000518321	protein_coding	KNOWN	CCDS45617	30453	612	203	15443397	15466901	-1	FAM18B2	MGC8763
17	TVP23C	ENSG00000175106	ENST00000419890	protein_coding	PUTATIVE	None	30453	330	109	15443816	15466782	-1	FAM18B2	MGC8763
17	TVP23C	ENSG00000175106	ENST00000519970	protein_coding	KNOWN	None	30453	558	185	15341205	15466873	-1	FAM18B2	MGC8763
9	None	ENSG00000228165	ENST00000443970	antisense	KNOWN	None	None	None	None	4850299	4850373	-1	None	None
9	HNRNPA1P41	ENSG00000220937	ENST00000397777	processed_pseudogene	KNOWN	None	48770	None	None	4944670	4945902	-1	None	None
1	NASP	ENSG00000132780	ENST00000437901	protein_coding	KNOWN	None	7644	768	255	46049518	46080803	1	None	FLB7527, FLJ31599, FLJ35510, MGC19722, MGC20372, MGC2297, DKFZp547F162, PRO1999
1	NASP	ENSG00000132780	ENST00000437362	nonsense_mediated_decay	KNOWN	None	7644	117	38	46049661	46080803	1	None	FLB7527, FLJ31599, FLJ35510, MGC19722, MGC20372, MGC2297, DKFZp547F162, PRO1999
1	NASP	ENSG00000132780	ENST00000464190	retained_intron	KNOWN	None	7644	None	None	46049713	46072352	1	None	FLB7527, FLJ31599, FLJ35510, MGC19722, MGC20372, MGC2297, DKFZp547F162, PRO1999
1	NASP	ENSG00000132780	ENST00000528084	nonsense_mediated_decay	KNOWN	None	7644	171	56	46049714	46072204	1	None	FLB7527, FLJ31599, FLJ35510, MGC19722, MGC20372, MGC2297, DKFZp547F162, PRO1999
1	NASP	ENSG00000132780	ENST00000527359	nonsense_mediated_decay	KNOWN	None	7644	114	37	46049714	46081078	1	None	FLB7527, FLJ31599, FLJ35510, MGC19722, MGC20372, MGC2297, DKFZp547F162, PRO1999
1	NASP	ENSG00000132780	ENST00000530840	nonsense_mediated_decay	KNOWN	None	7644	168	55	46049717	46067950	1	None	FLB7527, FLJ31599, FLJ35510, MGC19722, MGC20372, MGC2297, DKFZp547F162, PRO1999
1	NASP	ENSG00000132780	ENST00000531532	nonsense_mediated_decay	KNOWN	None	7644	171	56	46049717	46070688	1	None	FLB7527, FLJ31599, FLJ35510, MGC19722, MGC20372, MGC2297, DKFZp547F162, PRO1999
1	NASP	ENSG00000132780	ENST00000529333	nonsense_mediated_decay	KNOWN	None	7644	117	38	46049717	46073167	1	None	FLB7527, FLJ31599, FLJ35510, MGC19722, MGC20372, MGC2297, DKFZp547F162, PRO1999
1	NASP	ENSG00000132780	ENST00000527470	protein_coding	NOVEL	None	7644	430	142	46049717	46073205	1	None	FLB7527, FLJ31599, FLJ35510, MGC19722, MGC20372, MGC2297, DKFZp547F162, PRO1999
1	NASP	ENSG00000132780	ENST00000525515	protein_coding	NOVEL	None	7644	463	153	46049717	46079789	1	None	FLB7527, FLJ31599, FLJ35510, MGC19722, MGC20372, MGC2297, DKFZp547F162, PRO1999
1	NASP	ENSG00000132780	ENST00000453748	nonsense_mediated_decay	KNOWN	None	7644	117	38	46049717	46081026	1	None	FLB7527, FLJ31599, FLJ35510, MGC19722, MGC20372, MGC2297, DKFZp547F162, PRO1999
1	NASP	ENSG00000132780	ENST00000528238	protein_coding	NOVEL	None	7644	805	267	46049730	46081135	1	None	FLB7527, FLJ31599, FLJ35510, MGC19722, MGC20372, MGC2297, DKFZp547F162, PRO1999
1	NASP	ENSG00000132780	ENST00000534101	processed_transcript	KNOWN	None	7644	None	None	46049732	46073336	1	None	FLB7527, FLJ31599, FLJ35510, MGC19722, MGC20372, MGC2297, DKFZp547F162, PRO1999
1	NASP	ENSG00000132780	ENST00000350030	protein_coding	KNOWN	CCDS524	7644	2367	788	46049732	46084566	1	None	FLB7527, FLJ31599, FLJ35510, MGC19722, MGC20372, MGC2297, DKFZp547F162, PRO1999
1	NASP	ENSG00000132780	ENST00000470768	protein_coding	NOVEL	None	7644	950	315	46049733	46073644	1	None	FLB7527, FLJ31599, FLJ35510, MGC19722, MGC20372, MGC2297, DKFZp547F162, PRO1999
1	NASP	ENSG00000132780	ENST00000372052	protein_coding	NOVEL	None	7644	1269	422	46049735	46083918	1	None	FLB7527, FLJ31599, FLJ35510, MGC19722, MGC20372, MGC2297, DKFZp547F162, PRO1999
1	NASP	ENSG00000132780	ENST00000351223	protein_coding	KNOWN	CCDS525	7644	1350	449	46049737	46083919	1	None	FLB7527, FLJ31599, FLJ35510, MGC19722, MGC20372, MGC2297, DKFZp547F162, PRO1999
1	NASP	ENSG00000132780	ENST00000530073	processed_transcript	KNOWN	None	7644	None	None	46074972	46083916	1	None	FLB7527, FLJ31599, FLJ35510, MGC19722, MGC20372, MGC2297, DKFZp547F162, PRO1999
1	NASP	ENSG00000132780	ENST00000481782	retained_intron	KNOWN	None	7644	None	None	46076226	46083916	1	None	FLB7527, FLJ31599, FLJ35510, MGC19722, MGC20372, MGC2297, DKFZp547F162, PRO1999
1	NASP	ENSG00000132780	ENST00000531612	protein_coding	PUTATIVE	None	7644	866	287	46078841	46083885	1	None	FLB7527, FLJ31599, FLJ35510, MGC19722, MGC20372, MGC2297, DKFZp547F162, PRO1999
1	NASP	ENSG00000132780	ENST00000527932	retained_intron	KNOWN	None	7644	None	None	46080635	46081387	1	None	FLB7527, FLJ31599, FLJ35510, MGC19722, MGC20372, MGC2297, DKFZp547F162, PRO1999
1	NASP	ENSG00000132780	ENST00000534450	protein_coding	NOVEL	None	7644	526	174	46080731	46083919	1	None	FLB7527, FLJ31599, FLJ35510, MGC19722, MGC20372, MGC2297, DKFZp547F162, PRO1999
1	NASP	ENSG00000132780	ENST00000472408	retained_intron	KNOWN	None	7644	None	None	46082909	46083918	1	None	FLB7527, FLJ31599, FLJ35510, MGC19722, MGC20372, MGC2297, DKFZp547F162, PRO1999
1	NASP	ENSG00000132780	ENST00000537798	protein_coding	KNOWN	CCDS55597	7644	2175	724	46049717	46083923	1	None	FLB7527, FLJ31599, FLJ35510, MGC19722, MGC20372, MGC2297, DKFZp547F162, PRO1999
1	NASP	ENSG00000132780	ENST00000402363	protein_coding	KNOWN	None	7644	2373	790	46049717	46083916	1	None	FLB7527, FLJ31599, FLJ35510, MGC19722, MGC20372, MGC2297, DKFZp547F162, PRO1999
8	PLEKHF2	ENSG00000175895	ENST00000315367	protein_coding	KNOWN	CCDS6267	20757	750	249	96146032	96168912	1	None	ZFYVE18, PHAFIN2, FLJ13187
8	PLEKHF2	ENSG00000175895	ENST00000519516	protein_coding	KNOWN	CCDS6267	20757	750	249	96146304	96167146	1	None	ZFYVE18, PHAFIN2, FLJ13187
8	C8orf37	ENSG00000156172	ENST00000286688	protein_coding	KNOWN	CCDS6268	27232	624	207	96257147	96281429	-1	None	FLJ30600, CORD16
8	GDF6	ENSG00000156466	ENST00000287020	protein_coding	KNOWN	CCDS34926	4221	1368	455	97154562	97173020	-1	None	BMP13
16	TGFB1I1	ENSG00000140682	ENST00000565454	protein_coding	KNOWN	None	11767	496	164	31482906	31485911	1	None	Hic-5, TSC-5, ARA55, HIC-5
16	TGFB1I1	ENSG00000140682	ENST00000567066	nonsense_mediated_decay	KNOWN	None	11767	159	52	31483351	31488921	1	None	Hic-5, TSC-5, ARA55, HIC-5
16	TGFB1I1	ENSG00000140682	ENST00000394863	protein_coding	KNOWN	CCDS42156	11767	1386	461	31483380	31489279	1	None	Hic-5, TSC-5, ARA55, HIC-5
16	TGFB1I1	ENSG00000140682	ENST00000567524	retained_intron	KNOWN	None	11767	None	None	31483462	31485260	1	None	Hic-5, TSC-5, ARA55, HIC-5
16	TGFB1I1	ENSG00000140682	ENST00000563712	nonsense_mediated_decay	KNOWN	None	11767	186	61	31483475	31488921	1	None	Hic-5, TSC-5, ARA55, HIC-5
16	TGFB1I1	ENSG00000140682	ENST00000561785	retained_intron	KNOWN	None	11767	None	None	31483476	31485416	1	None	Hic-5, TSC-5, ARA55, HIC-5
16	TGFB1I1	ENSG00000140682	ENST00000569254	retained_intron	KNOWN	None	11767	None	None	31483478	31485560	1	None	Hic-5, TSC-5, ARA55, HIC-5
16	TGFB1I1	ENSG00000140682	ENST00000565360	protein_coding	NOVEL	None	11767	650	215	31483489	31486080	1	None	Hic-5, TSC-5, ARA55, HIC-5
16	TGFB1I1	ENSG00000140682	ENST00000562165	retained_intron	KNOWN	None	11767	None	None	31483492	31485421	1	None	Hic-5, TSC-5, ARA55, HIC-5
16	TGFB1I1	ENSG00000140682	ENST00000564176	retained_intron	KNOWN	None	11767	None	None	31483492	31489279	1	None	Hic-5, TSC-5, ARA55, HIC-5
16	TGFB1I1	ENSG00000140682	ENST00000569703	retained_intron	KNOWN	None	11767	None	None	31483496	31487609	1	None	Hic-5, TSC-5, ARA55, HIC-5
16	TGFB1I1	ENSG00000140682	ENST00000562566	protein_coding	KNOWN	None	11767	269	88	31484401	31485293	1	None	Hic-5, TSC-5, ARA55, HIC-5
16	TGFB1I1	ENSG00000140682	ENST00000394858	protein_coding	KNOWN	CCDS10713	11767	1335	444	31484526	31489281	1	None	Hic-5, TSC-5, ARA55, HIC-5
16	TGFB1I1	ENSG00000140682	ENST00000567607	protein_coding	KNOWN	CCDS10713	11767	1335	444	31484747	31489279	1	None	Hic-5, TSC-5, ARA55, HIC-5
16	TGFB1I1	ENSG00000140682	ENST00000568142	retained_intron	KNOWN	None	11767	None	None	31484755	31488123	1	None	Hic-5, TSC-5, ARA55, HIC-5
16	TGFB1I1	ENSG00000140682	ENST00000564804	nonsense_mediated_decay	KNOWN	None	11767	345	114	31484761	31489227	1	None	Hic-5, TSC-5, ARA55, HIC-5
16	TGFB1I1	ENSG00000140682	ENST00000361773	protein_coding	KNOWN	CCDS10713	11767	1335	444	31483529	31489281	1	None	Hic-5, TSC-5, ARA55, HIC-5
1	ESRRG	ENSG00000196482	ENST00000366940	protein_coding	KNOWN	CCDS1517	3474	1308	435	216676595	217311097	-1	None	None
1	ESRRG	ENSG00000196482	ENST00000366937	protein_coding	PUTATIVE	CCDS58061	3474	1413	470	216676596	216896795	-1	None	None
1	ESRRG	ENSG00000196482	ENST00000408911	protein_coding	KNOWN	CCDS41468	3474	1377	458	216676596	216896795	-1	None	None
1	ESRRG	ENSG00000196482	ENST00000360012	protein_coding	KNOWN	CCDS1517	3474	1308	435	216676596	216978709	-1	None	None
1	ESRRG	ENSG00000196482	ENST00000361395	protein_coding	KNOWN	CCDS1517	3474	1308	435	216676596	217113015	-1	None	None
1	ESRRG	ENSG00000196482	ENST00000366938	protein_coding	KNOWN	CCDS1517	3474	1308	435	216676596	217113015	-1	None	None
1	ESRRG	ENSG00000196482	ENST00000359162	protein_coding	KNOWN	CCDS1517	3474	1308	435	216676596	217262947	-1	None	None
1	ESRRG	ENSG00000196482	ENST00000493603	protein_coding	KNOWN	CCDS1517	3474	1308	435	216676596	217311096	-1	None	None
1	ESRRG	ENSG00000196482	ENST00000463665	protein_coding	NOVEL	CCDS58060	3474	1191	396	216678796	217250273	-1	None	None
1	ESRRG	ENSG00000196482	ENST00000487276	protein_coding	KNOWN	CCDS1517	3474	1308	435	216678832	217113012	-1	None	None
1	ESRRG	ENSG00000196482	ENST00000493748	protein_coding	KNOWN	CCDS1517	3474	1308	435	216680130	217250231	-1	None	None
1	ESRRG	ENSG00000196482	ENST00000475275	protein_coding	KNOWN	None	3474	1063	353	216692494	216896674	-1	None	None
1	ESRRG	ENSG00000196482	ENST00000586199	nonsense_mediated_decay	KNOWN	None	3474	144	47	216741330	217251630	-1	None	None
1	ESRRG	ENSG00000196482	ENST00000469486	protein_coding	KNOWN	None	3474	278	91	216850543	216896758	-1	None	None
1	ESRRG	ENSG00000196482	ENST00000459955	protein_coding	KNOWN	None	3474	167	54	216850654	216896794	-1	None	None
1	ESRRG	ENSG00000196482	ENST00000481543	protein_coding	KNOWN	None	3474	151	49	216850670	216896767	-1	None	None
1	ESRRG	ENSG00000196482	ENST00000469913	processed_transcript	KNOWN	None	3474	None	None	216880762	216896771	-1	None	None
1	ESRRG	ENSG00000196482	ENST00000477799	processed_transcript	KNOWN	None	3474	None	None	217028384	217251702	-1	None	None
1	ESRRG	ENSG00000196482	ENST00000471371	processed_transcript	KNOWN	None	3474	None	None	217035572	217262978	-1	None	None
1	ESRRG	ENSG00000196482	ENST00000488947	processed_transcript	KNOWN	None	3474	None	None	217038403	217263889	-1	None	None
1	ESRRG	ENSG00000196482	ENST00000459825	processed_transcript	KNOWN	None	3474	None	None	217038459	217262955	-1	None	None
1	ESRRG	ENSG00000196482	ENST00000361525	protein_coding	KNOWN	CCDS1517	3474	1308	435	216676588	217262976	-1	None	None
1	ESRRG	ENSG00000196482	ENST00000391890	protein_coding	KNOWN	None	3474	1329	442	216676596	216896795	-1	None	None
19	ALKBH6	ENSG00000239382	ENST00000495116	processed_transcript	KNOWN	None	28243	None	None	36500022	36505124	-1	None	MGC15677
19	ALKBH6	ENSG00000239382	ENST00000461668	nonsense_mediated_decay	KNOWN	None	28243	142	46	36500023	36504324	-1	None	MGC15677
19	ALKBH6	ENSG00000239382	ENST00000490483	nonsense_mediated_decay	KNOWN	None	28243	282	93	36500023	36505085	-1	None	MGC15677
19	ALKBH6	ENSG00000239382	ENST00000490986	nonsense_mediated_decay	KNOWN	None	28243	398	131	36500023	36505110	-1	None	MGC15677
19	ALKBH6	ENSG00000239382	ENST00000471323	retained_intron	KNOWN	None	28243	None	None	36500024	36505114	-1	None	MGC15677
19	ALKBH6	ENSG00000239382	ENST00000486389	protein_coding	NOVEL	None	28243	333	110	36500026	36505139	-1	None	MGC15677
19	ALKBH6	ENSG00000239382	ENST00000378875	protein_coding	KNOWN	CCDS12485	28243	801	266	36500026	36505141	-1	None	MGC15677
19	ALKBH6	ENSG00000239382	ENST00000485128	protein_coding	PUTATIVE	None	28243	402	133	36500077	36505141	-1	None	MGC15677
19	ALKBH6	ENSG00000239382	ENST00000252984	protein_coding	PUTATIVE	None	28243	717	238	36500107	36505129	-1	None	MGC15677
19	ALKBH6	ENSG00000239382	ENST00000497999	nonsense_mediated_decay	KNOWN	None	28243	218	71	36500184	36505092	-1	None	MGC15677
19	ALKBH6	ENSG00000239382	ENST00000462793	retained_intron	KNOWN	None	28243	None	None	36500363	36504205	-1	None	MGC15677
19	ALKBH6	ENSG00000239382	ENST00000392183	retained_intron	KNOWN	None	28243	None	None	36501192	36505115	-1	None	MGC15677
19	ALKBH6	ENSG00000239382	ENST00000468004	retained_intron	KNOWN	None	28243	None	None	36501446	36504490	-1	None	MGC15677
19	ALKBH6	ENSG00000239382	ENST00000481257	nonsense_mediated_decay	KNOWN	None	28243	152	49	36501538	36505104	-1	None	MGC15677
19	ALKBH6	ENSG00000239382	ENST00000466196	retained_intron	KNOWN	None	28243	None	None	36501640	36505115	-1	None	MGC15677
19	ALKBH6	ENSG00000239382	ENST00000475223	retained_intron	KNOWN	None	28243	None	None	36501640	36505137	-1	None	MGC15677
19	ALKBH6	ENSG00000239382	ENST00000592353	retained_intron	KNOWN	None	28243	None	None	36501940	36505101	-1	None	MGC15677
19	ALKBH6	ENSG00000239382	ENST00000590666	retained_intron	KNOWN	None	28243	None	None	36502082	36505115	-1	None	MGC15677
19	ALKBH6	ENSG00000239382	ENST00000470859	retained_intron	KNOWN	None	28243	None	None	36503445	36505120	-1	None	MGC15677
8	None	ENSG00000226490	ENST00000427937	protein_coding	PUTATIVE	None	None	567	188	142524738	142528837	1	None	None
4	WDR17	ENSG00000150627	ENST00000508596	protein_coding	NOVEL	CCDS43284	16661	3852	1283	176986985	177100920	1	None	None
4	WDR17	ENSG00000150627	ENST00000509792	processed_transcript	KNOWN	None	16661	None	None	176987028	177032444	1	None	None
4	WDR17	ENSG00000150627	ENST00000280190	protein_coding	KNOWN	CCDS3825	16661	3969	1322	176987132	177101310	1	None	None
4	WDR17	ENSG00000150627	ENST00000507824	protein_coding	NOVEL	None	16661	3894	1297	177017636	177100920	1	None	None
4	WDR17	ENSG00000150627	ENST00000513261	nonsense_mediated_decay	KNOWN	None	16661	306	101	177017661	177046284	1	None	None
4	WDR17	ENSG00000150627	ENST00000505894	protein_coding	KNOWN	None	16661	677	224	177041018	177058762	1	None	None
4	WDR17	ENSG00000150627	ENST00000443118	protein_coding	NOVEL	None	16661	1672	556	177071642	177103969	1	None	None
4	WDR17	ENSG00000150627	ENST00000508773	retained_intron	KNOWN	None	16661	None	None	177093482	177098302	1	None	None
4	WDR17	ENSG00000150627	ENST00000393643	protein_coding	KNOWN	None	16661	3897	1298	176986985	177103978	1	None	None
9	DCAF12	ENSG00000198876	ENST00000361264	protein_coding	KNOWN	CCDS6549	19911	1362	453	34086385	34126771	-1	KIAA1892, WDR40A	DKFZP434O125, MGC1058, CT102, TCC52
9	DCAF12	ENSG00000198876	ENST00000466402	processed_transcript	KNOWN	None	19911	None	None	34089410	34093777	-1	KIAA1892, WDR40A	DKFZP434O125, MGC1058, CT102, TCC52
9	DCAF12	ENSG00000198876	ENST00000396990	protein_coding	KNOWN	None	19911	681	226	34098382	34127397	-1	KIAA1892, WDR40A	DKFZP434O125, MGC1058, CT102, TCC52
9	DCAF12	ENSG00000198876	ENST00000450964	protein_coding	KNOWN	None	19911	568	188	34098486	34125725	-1	KIAA1892, WDR40A	DKFZP434O125, MGC1058, CT102, TCC52
9	DCAF12	ENSG00000198876	ENST00000463286	processed_transcript	KNOWN	None	19911	None	None	34107359	34125701	-1	KIAA1892, WDR40A	DKFZP434O125, MGC1058, CT102, TCC52
2	UBE2E3	ENSG00000170035	ENST00000602303	protein_coding	KNOWN	None	12479	526	174	181831975	181925539	1	None	UbcH9
2	UBE2E3	ENSG00000170035	ENST00000602959	protein_coding	KNOWN	CCDS2282	12479	624	207	181845100	181927756	1	None	UbcH9
2	UBE2E3	ENSG00000170035	ENST00000602479	protein_coding	KNOWN	None	12479	524	173	181845103	181925537	1	None	UbcH9
2	UBE2E3	ENSG00000170035	ENST00000602291	protein_coding	KNOWN	None	12479	524	173	181845118	181927576	1	None	UbcH9
2	UBE2E3	ENSG00000170035	ENST00000410062	protein_coding	KNOWN	CCDS2282	12479	624	207	181845333	181928168	1	None	UbcH9
2	UBE2E3	ENSG00000170035	ENST00000602475	protein_coding	PUTATIVE	None	12479	336	111	181845534	181854773	1	None	UbcH9
2	UBE2E3	ENSG00000170035	ENST00000602499	protein_coding	NOVEL	None	12479	369	122	181845763	181922543	1	None	UbcH9
2	UBE2E3	ENSG00000170035	ENST00000602710	protein_coding	KNOWN	CCDS2282	12479	624	207	181845851	181928168	1	None	UbcH9
2	UBE2E3	ENSG00000170035	ENST00000602762	processed_transcript	KNOWN	None	12479	None	None	181846745	181940959	1	None	UbcH9
2	UBE2E3	ENSG00000170035	ENST00000602632	protein_coding	PUTATIVE	None	12479	393	130	181846750	181854732	1	None	UbcH9
2	UBE2E3	ENSG00000170035	ENST00000602888	retained_intron	KNOWN	None	12479	None	None	181848733	181927647	1	None	UbcH9
2	UBE2E3	ENSG00000170035	ENST00000602837	processed_transcript	KNOWN	None	12479	None	None	181922418	181941205	1	None	UbcH9
2	UBE2E3	ENSG00000170035	ENST00000602970	processed_transcript	KNOWN	None	12479	None	None	181927617	181941312	1	None	UbcH9
2	UBE2E3	ENSG00000170035	ENST00000392415	protein_coding	KNOWN	CCDS2282	12479	624	207	181845112	181928150	1	None	UbcH9
6	SEC63	ENSG00000025796	ENST00000369002	protein_coding	KNOWN	CCDS5061	21082	2283	760	108188960	108279393	-1	None	SEC63L, PRO2507, ERdj2, DNAJC23
6	SEC63	ENSG00000025796	ENST00000459782	retained_intron	KNOWN	None	21082	None	None	108191969	108198604	-1	None	SEC63L, PRO2507, ERdj2, DNAJC23
6	SEC63	ENSG00000025796	ENST00000473746	retained_intron	KNOWN	None	21082	None	None	108194089	108204671	-1	None	SEC63L, PRO2507, ERdj2, DNAJC23
6	SEC63	ENSG00000025796	ENST00000465210	retained_intron	KNOWN	None	21082	None	None	108202164	108204316	-1	None	SEC63L, PRO2507, ERdj2, DNAJC23
6	SEC63	ENSG00000025796	ENST00000466419	retained_intron	KNOWN	None	21082	None	None	108214784	108224104	-1	None	SEC63L, PRO2507, ERdj2, DNAJC23
6	SEC63	ENSG00000025796	ENST00000489455	retained_intron	KNOWN	None	21082	None	None	108227669	108230363	-1	None	SEC63L, PRO2507, ERdj2, DNAJC23
6	SEC63	ENSG00000025796	ENST00000429168	protein_coding	PUTATIVE	None	21082	484	160	108230212	108278544	-1	None	SEC63L, PRO2507, ERdj2, DNAJC23
6	SEC63	ENSG00000025796	ENST00000484803	retained_intron	KNOWN	None	21082	None	None	108232372	108279135	-1	None	SEC63L, PRO2507, ERdj2, DNAJC23
6	SEC63	ENSG00000025796	ENST00000446496	nonsense_mediated_decay	KNOWN	None	21082	243	80	108246022	108279315	-1	None	SEC63L, PRO2507, ERdj2, DNAJC23
6	SEC63	ENSG00000025796	ENST00000460009	processed_transcript	KNOWN	None	21082	None	None	108275788	108279246	-1	None	SEC63L, PRO2507, ERdj2, DNAJC23
17	MED24	ENSG00000008838	ENST00000394126	protein_coding	PUTATIVE	None	22963	3045	1014	38175350	38210345	-1	THRAP4, CRSP4	TRAP100, KIAA0130, DRIP100, CRSP100
17	MED24	ENSG00000008838	ENST00000356271	protein_coding	KNOWN	CCDS42315	22963	2931	976	38175351	38210660	-1	THRAP4, CRSP4	TRAP100, KIAA0130, DRIP100, CRSP100
17	MED24	ENSG00000008838	ENST00000394128	protein_coding	KNOWN	CCDS11359	22963	2970	989	38175355	38210658	-1	THRAP4, CRSP4	TRAP100, KIAA0130, DRIP100, CRSP100
17	MED24	ENSG00000008838	ENST00000394127	protein_coding	KNOWN	CCDS42315	22963	2931	976	38175361	38210658	-1	THRAP4, CRSP4	TRAP100, KIAA0130, DRIP100, CRSP100
17	MED24	ENSG00000008838	ENST00000491466	nonsense_mediated_decay	KNOWN	None	22963	253	83	38175398	38178695	-1	THRAP4, CRSP4	TRAP100, KIAA0130, DRIP100, CRSP100
17	MED24	ENSG00000008838	ENST00000535508	nonsense_mediated_decay	KNOWN	None	22963	303	100	38175426	38210658	-1	THRAP4, CRSP4	TRAP100, KIAA0130, DRIP100, CRSP100
17	MED24	ENSG00000008838	ENST00000579364	retained_intron	KNOWN	None	22963	None	None	38175702	38176863	-1	THRAP4, CRSP4	TRAP100, KIAA0130, DRIP100, CRSP100
17	MED24	ENSG00000008838	ENST00000422942	protein_coding	NOVEL	None	22963	879	292	38175756	38179413	-1	THRAP4, CRSP4	TRAP100, KIAA0130, DRIP100, CRSP100
17	MED24	ENSG00000008838	ENST00000501516	protein_coding	NOVEL	None	22963	3027	1008	38175782	38209861	-1	THRAP4, CRSP4	TRAP100, KIAA0130, DRIP100, CRSP100
17	MED24	ENSG00000008838	ENST00000470126	processed_transcript	KNOWN	None	22963	None	None	38175885	38177667	-1	THRAP4, CRSP4	TRAP100, KIAA0130, DRIP100, CRSP100
17	MED24	ENSG00000008838	ENST00000535071	protein_coding	PUTATIVE	None	22963	2373	790	38178647	38210661	-1	THRAP4, CRSP4	TRAP100, KIAA0130, DRIP100, CRSP100
17	MED24	ENSG00000008838	ENST00000492176	retained_intron	KNOWN	None	22963	None	None	38178665	38179904	-1	THRAP4, CRSP4	TRAP100, KIAA0130, DRIP100, CRSP100
17	MED24	ENSG00000008838	ENST00000580720	retained_intron	KNOWN	None	22963	None	None	38179395	38182703	-1	THRAP4, CRSP4	TRAP100, KIAA0130, DRIP100, CRSP100
17	MED24	ENSG00000008838	ENST00000580885	protein_coding	PUTATIVE	None	22963	1915	637	38179542	38210661	-1	THRAP4, CRSP4	TRAP100, KIAA0130, DRIP100, CRSP100
17	MED24	ENSG00000008838	ENST00000581058	nonsense_mediated_decay	KNOWN	None	22963	70	22	38179618	38184199	-1	THRAP4, CRSP4	TRAP100, KIAA0130, DRIP100, CRSP100
17	MED24	ENSG00000008838	ENST00000580921	retained_intron	KNOWN	None	22963	None	None	38182431	38183776	-1	THRAP4, CRSP4	TRAP100, KIAA0130, DRIP100, CRSP100
17	MED24	ENSG00000008838	ENST00000584782	retained_intron	KNOWN	None	22963	None	None	38182556	38184312	-1	THRAP4, CRSP4	TRAP100, KIAA0130, DRIP100, CRSP100
17	MED24	ENSG00000008838	ENST00000495586	retained_intron	KNOWN	None	22963	None	None	38182559	38183402	-1	THRAP4, CRSP4	TRAP100, KIAA0130, DRIP100, CRSP100
17	MED24	ENSG00000008838	ENST00000578901	nonsense_mediated_decay	KNOWN	None	22963	173	56	38183268	38209630	-1	THRAP4, CRSP4	TRAP100, KIAA0130, DRIP100, CRSP100
17	MED24	ENSG00000008838	ENST00000584077	retained_intron	KNOWN	None	22963	None	None	38187421	38188686	-1	THRAP4, CRSP4	TRAP100, KIAA0130, DRIP100, CRSP100
17	MED24	ENSG00000008838	ENST00000585249	retained_intron	KNOWN	None	22963	None	None	38188924	38189899	-1	THRAP4, CRSP4	TRAP100, KIAA0130, DRIP100, CRSP100
17	MED24	ENSG00000008838	ENST00000577488	retained_intron	KNOWN	None	22963	None	None	38188926	38189928	-1	THRAP4, CRSP4	TRAP100, KIAA0130, DRIP100, CRSP100
17	MED24	ENSG00000008838	ENST00000428757	protein_coding	PUTATIVE	None	22963	905	300	38188969	38210126	-1	THRAP4, CRSP4	TRAP100, KIAA0130, DRIP100, CRSP100
17	MED24	ENSG00000008838	ENST00000580008	nonsense_mediated_decay	KNOWN	None	22963	417	138	38189309	38209565	-1	THRAP4, CRSP4	TRAP100, KIAA0130, DRIP100, CRSP100
17	MED24	ENSG00000008838	ENST00000479829	processed_transcript	KNOWN	None	22963	None	None	38189960	38210628	-1	THRAP4, CRSP4	TRAP100, KIAA0130, DRIP100, CRSP100
17	MED24	ENSG00000008838	ENST00000543759	protein_coding	PUTATIVE	None	22963	569	188	38191396	38210666	-1	THRAP4, CRSP4	TRAP100, KIAA0130, DRIP100, CRSP100
17	MED24	ENSG00000008838	ENST00000585306	protein_coding	KNOWN	None	22963	478	158	38191451	38217468	-1	THRAP4, CRSP4	TRAP100, KIAA0130, DRIP100, CRSP100
17	MED24	ENSG00000008838	ENST00000537674	protein_coding	PUTATIVE	None	22963	489	162	38191515	38210666	-1	THRAP4, CRSP4	TRAP100, KIAA0130, DRIP100, CRSP100
17	MED24	ENSG00000008838	ENST00000582023	protein_coding	PUTATIVE	None	22963	529	175	38191538	38212943	-1	THRAP4, CRSP4	TRAP100, KIAA0130, DRIP100, CRSP100
17	MED24	ENSG00000008838	ENST00000580517	protein_coding	PUTATIVE	None	22963	416	137	38191549	38210669	-1	THRAP4, CRSP4	TRAP100, KIAA0130, DRIP100, CRSP100
17	MED24	ENSG00000008838	ENST00000578161	protein_coding	PUTATIVE	None	22963	429	142	38191575	38210669	-1	THRAP4, CRSP4	TRAP100, KIAA0130, DRIP100, CRSP100
17	MED24	ENSG00000008838	ENST00000581054	retained_intron	KNOWN	None	22963	None	None	38192154	38210661	-1	THRAP4, CRSP4	TRAP100, KIAA0130, DRIP100, CRSP100
17	MED24	ENSG00000008838	ENST00000580302	protein_coding	KNOWN	None	22963	163	53	38209601	38210995	-1	THRAP4, CRSP4	TRAP100, KIAA0130, DRIP100, CRSP100
17	C17orf70	ENSG00000185504	ENST00000443656	nonsense_mediated_decay	KNOWN	None	26171	294	97	79506911	79519402	-1	None	FLJ22175, FAAP100
17	C17orf70	ENSG00000185504	ENST00000327787	protein_coding	KNOWN	CCDS32765	26171	2646	881	79506911	79519403	-1	None	FLJ22175, FAAP100
17	C17orf70	ENSG00000185504	ENST00000425898	protein_coding	PUTATIVE	None	26171	1593	530	79506912	79515524	-1	None	FLJ22175, FAAP100
17	C17orf70	ENSG00000185504	ENST00000545865	nonsense_mediated_decay	KNOWN	None	26171	333	110	79511030	79514229	-1	None	FLJ22175, FAAP100
17	C17orf70	ENSG00000185504	ENST00000541246	protein_coding	PUTATIVE	None	26171	902	299	79516280	79520135	-1	None	FLJ22175, FAAP100
17	C17orf70	ENSG00000185504	ENST00000544302	protein_coding	PUTATIVE	None	26171	749	248	79517318	79520153	-1	None	FLJ22175, FAAP100
17	C17orf70	ENSG00000185504	ENST00000536161	protein_coding	PUTATIVE	None	26171	517	171	79517823	79520987	-1	None	FLJ22175, FAAP100
17	C17orf70	ENSG00000185504	ENST00000537152	protein_coding	KNOWN	None	26171	2193	730	79506912	79519429	-1	None	FLJ22175, FAAP100
14	BEGAIN	ENSG00000183092	ENST00000355173	protein_coding	KNOWN	CCDS9962	24163	1782	593	101003486	101036131	-1	None	KIAA1446
14	BEGAIN	ENSG00000183092	ENST00000556751	protein_coding	PUTATIVE	None	24163	1590	529	101003490	101016226	-1	None	KIAA1446
14	BEGAIN	ENSG00000183092	ENST00000553553	protein_coding	PUTATIVE	None	24163	899	298	101005225	101034828	-1	None	KIAA1446
14	BEGAIN	ENSG00000183092	ENST00000556188	protein_coding	KNOWN	None	24163	863	286	101005225	101035895	-1	None	KIAA1446
14	BEGAIN	ENSG00000183092	ENST00000554356	protein_coding	PUTATIVE	None	24163	524	173	101005372	101014435	-1	None	KIAA1446
14	BEGAIN	ENSG00000183092	ENST00000557378	protein_coding	KNOWN	None	24163	503	166	101005585	101034407	-1	None	KIAA1446
14	BEGAIN	ENSG00000183092	ENST00000554140	protein_coding	PUTATIVE	None	24163	509	168	101005636	101053750	-1	None	KIAA1446
14	BEGAIN	ENSG00000183092	ENST00000554274	retained_intron	KNOWN	None	24163	None	None	101010279	101011666	-1	None	KIAA1446
14	BEGAIN	ENSG00000183092	ENST00000554747	processed_transcript	KNOWN	None	24163	None	None	101012359	101035423	-1	None	KIAA1446
14	BEGAIN	ENSG00000183092	ENST00000443071	protein_coding	KNOWN	CCDS9962	24163	1782	593	101003490	101034407	-1	None	KIAA1446
X	ARMCX6	ENSG00000198960	ENST00000497931	processed_transcript	KNOWN	None	26094	None	None	100870110	100872900	-1	None	FLJ20811
X	ARMCX6	ENSG00000198960	ENST00000361910	protein_coding	KNOWN	CCDS14488	26094	903	300	100870110	100872991	-1	None	FLJ20811
X	ARMCX6	ENSG00000198960	ENST00000462302	processed_transcript	KNOWN	None	26094	None	None	100870503	100872903	-1	None	FLJ20811
X	ARMCX6	ENSG00000198960	ENST00000467089	processed_transcript	KNOWN	None	26094	None	None	100871203	100872990	-1	None	FLJ20811
X	ARMCX6	ENSG00000198960	ENST00000495964	processed_transcript	KNOWN	None	26094	None	None	100871386	100872966	-1	None	FLJ20811
X	ARMCX6	ENSG00000198960	ENST00000494624	processed_transcript	KNOWN	None	26094	None	None	100871852	100872904	-1	None	FLJ20811
X	ARMCX6	ENSG00000198960	ENST00000539247	protein_coding	KNOWN	CCDS14488	26094	903	300	100870116	100872991	-1	None	FLJ20811
X	ARMCX6	ENSG00000198960	ENST00000538627	protein_coding	KNOWN	CCDS14488	26094	903	300	100870116	100872991	-1	None	FLJ20811
9	PIP5KL1	ENSG00000167103	ENST00000388747	protein_coding	NOVEL	CCDS48030	28711	1185	394	130683158	130693076	-1	None	bA203J24.5, MGC46424
9	PIP5KL1	ENSG00000167103	ENST00000477191	processed_transcript	KNOWN	None	28711	None	None	130683160	130684013	-1	None	bA203J24.5, MGC46424
9	PIP5KL1	ENSG00000167103	ENST00000485562	processed_transcript	KNOWN	None	28711	None	None	130683160	130684190	-1	None	bA203J24.5, MGC46424
9	PIP5KL1	ENSG00000167103	ENST00000300432	protein_coding	KNOWN	CCDS6885	28711	576	191	130683808	130689770	-1	None	bA203J24.5, MGC46424
9	PIP5KL1	ENSG00000167103	ENST00000464759	processed_transcript	KNOWN	None	28711	None	None	130684055	130689663	-1	None	bA203J24.5, MGC46424
9	PIP5KL1	ENSG00000167103	ENST00000495448	processed_transcript	KNOWN	None	28711	None	None	130684069	130689465	-1	None	bA203J24.5, MGC46424
9	PIP5KL1	ENSG00000167103	ENST00000464108	processed_transcript	KNOWN	None	28711	None	None	130687414	130691035	-1	None	bA203J24.5, MGC46424
9	PIP5KL1	ENSG00000167103	ENST00000498783	processed_transcript	KNOWN	None	28711	None	None	130687414	130691049	-1	None	bA203J24.5, MGC46424
9	PIP5KL1	ENSG00000167103	ENST00000490773	processed_transcript	KNOWN	None	28711	None	None	130687415	130691070	-1	None	bA203J24.5, MGC46424
9	PIP5KL1	ENSG00000167103	ENST00000497234	processed_transcript	KNOWN	None	28711	None	None	130687483	130689736	-1	None	bA203J24.5, MGC46424
9	PIP5KL1	ENSG00000167103	ENST00000476624	processed_transcript	KNOWN	None	28711	None	None	130687775	130690406	-1	None	bA203J24.5, MGC46424
9	PIP5KL1	ENSG00000167103	ENST00000492296	processed_transcript	KNOWN	None	28711	None	None	130690056	130693064	-1	None	bA203J24.5, MGC46424
11	OR10A4	ENSG00000170782	ENST00000379829	protein_coding	KNOWN	CCDS7774	15130	948	315	6897856	6898850	1	OR10A4P	None
7	BLVRA	ENSG00000106605	ENST00000265523	protein_coding	KNOWN	CCDS5472	1062	891	296	43798279	43846938	1	BLVR	None
7	BLVRA	ENSG00000106605	ENST00000402924	protein_coding	KNOWN	CCDS5472	1062	891	296	43798286	43846939	1	BLVR	None
7	BLVRA	ENSG00000106605	ENST00000424330	protein_coding	KNOWN	None	1062	307	101	43803790	43832366	1	BLVR	None
7	BLVRA	ENSG00000106605	ENST00000453612	retained_intron	KNOWN	None	1062	None	None	43810734	43831446	1	BLVR	None
7	BLVRA	ENSG00000106605	ENST00000486984	retained_intron	KNOWN	None	1062	None	None	43840008	43843434	1	BLVR	None
1	POGZ	ENSG00000143442	ENST00000392723	protein_coding	KNOWN	CCDS998	18801	4074	1357	151375200	151414680	-1	None	KIAA0461, ZNF635m, ZNF280E
1	POGZ	ENSG00000143442	ENST00000358476	retained_intron	KNOWN	None	18801	None	None	151375200	151431654	-1	None	KIAA0461, ZNF635m, ZNF280E
1	POGZ	ENSG00000143442	ENST00000271715	protein_coding	KNOWN	CCDS997	18801	4233	1410	151375200	151431941	-1	None	KIAA0461, ZNF635m, ZNF280E
1	POGZ	ENSG00000143442	ENST00000368863	protein_coding	KNOWN	CCDS44222	18801	3948	1315	151375201	151431655	-1	None	KIAA0461, ZNF635m, ZNF280E
1	POGZ	ENSG00000143442	ENST00000409503	protein_coding	NOVEL	CCDS53366	18801	4206	1401	151376700	151431655	-1	None	KIAA0461, ZNF635m, ZNF280E
1	POGZ	ENSG00000143442	ENST00000531094	protein_coding	NOVEL	CCDS53365	18801	4047	1348	151376975	151431691	-1	None	KIAA0461, ZNF635m, ZNF280E
1	POGZ	ENSG00000143442	ENST00000491586	protein_coding	KNOWN	None	18801	4101	1366	151377278	151431655	-1	None	KIAA0461, ZNF635m, ZNF280E
1	POGZ	ENSG00000143442	ENST00000529669	protein_coding	NOVEL	None	18801	949	315	151378762	151395897	-1	None	KIAA0461, ZNF635m, ZNF280E
1	POGZ	ENSG00000143442	ENST00000497787	retained_intron	KNOWN	None	18801	None	None	151379375	151380672	-1	None	KIAA0461, ZNF635m, ZNF280E
1	POGZ	ENSG00000143442	ENST00000492528	retained_intron	KNOWN	None	18801	None	None	151379714	151381029	-1	None	KIAA0461, ZNF635m, ZNF280E
1	POGZ	ENSG00000143442	ENST00000482678	retained_intron	KNOWN	None	18801	None	None	151395975	151396939	-1	None	KIAA0461, ZNF635m, ZNF280E
1	POGZ	ENSG00000143442	ENST00000441516	nonsense_mediated_decay	KNOWN	None	18801	181	59	151395998	151400456	-1	None	KIAA0461, ZNF635m, ZNF280E
1	POGZ	ENSG00000143442	ENST00000495253	retained_intron	KNOWN	None	18801	None	None	151396486	151397770	-1	None	KIAA0461, ZNF635m, ZNF280E
1	POGZ	ENSG00000143442	ENST00000485040	retained_intron	KNOWN	None	18801	None	None	151398665	151431655	-1	None	KIAA0461, ZNF635m, ZNF280E
1	POGZ	ENSG00000143442	ENST00000594456	protein_coding	PUTATIVE	None	18801	329	108	151400053	151400613	-1	None	KIAA0461, ZNF635m, ZNF280E
1	POGZ	ENSG00000143442	ENST00000467287	retained_intron	KNOWN	None	18801	None	None	151401876	151431663	-1	None	KIAA0461, ZNF635m, ZNF280E
1	POGZ	ENSG00000143442	ENST00000533461	protein_coding	KNOWN	None	18801	453	150	151403148	151427533	-1	None	KIAA0461, ZNF635m, ZNF280E
1	POGZ	ENSG00000143442	ENST00000533351	protein_coding	KNOWN	None	18801	419	138	151403182	151431655	-1	None	KIAA0461, ZNF635m, ZNF280E
1	POGZ	ENSG00000143442	ENST00000450842	protein_coding	KNOWN	None	18801	252	83	151403190	151427673	-1	None	KIAA0461, ZNF635m, ZNF280E
1	POGZ	ENSG00000143442	ENST00000476128	retained_intron	KNOWN	None	18801	None	None	151413319	151431655	-1	None	KIAA0461, ZNF635m, ZNF280E
1	POGZ	ENSG00000143442	ENST00000439756	protein_coding	KNOWN	None	18801	24	7	151414657	151414954	-1	None	KIAA0461, ZNF635m, ZNF280E
1	POGZ	ENSG00000143442	ENST00000361398	protein_coding	KNOWN	CCDS998	18801	4074	1357	151375200	151431932	-1	None	KIAA0461, ZNF635m, ZNF280E
1	POGZ	ENSG00000143442	ENST00000540984	protein_coding	KNOWN	None	18801	2319	772	151377213	151431663	-1	None	KIAA0461, ZNF635m, ZNF280E
1	GPATCH2	ENSG00000092978	ENST00000366935	protein_coding	KNOWN	CCDS1518	25499	1587	528	217600334	217804424	-1	GPATC2	FLJ10252, CT110, PPP1R30
1	GPATCH2	ENSG00000092978	ENST00000489246	processed_transcript	KNOWN	None	25499	None	None	217664848	217672106	-1	GPATC2	FLJ10252, CT110, PPP1R30
1	GPATCH2	ENSG00000092978	ENST00000470014	processed_transcript	KNOWN	None	25499	None	None	217665843	217783742	-1	GPATC2	FLJ10252, CT110, PPP1R30
1	GPATCH2	ENSG00000092978	ENST00000485274	processed_transcript	KNOWN	None	25499	None	None	217671522	217783721	-1	GPATC2	FLJ10252, CT110, PPP1R30
1	GPATCH2	ENSG00000092978	ENST00000366934	protein_coding	KNOWN	None	25499	1131	376	217781526	217804424	-1	GPATC2	FLJ10252, CT110, PPP1R30
19	RFX1	ENSG00000132005	ENST00000254325	protein_coding	KNOWN	CCDS12301	9982	2940	979	14072350	14117097	-1	None	EF-C
19	RFX1	ENSG00000132005	ENST00000588520	retained_intron	KNOWN	None	9982	None	None	14074516	14074867	-1	None	EF-C
19	RFX1	ENSG00000132005	ENST00000589239	retained_intron	KNOWN	None	9982	None	None	14080452	14117134	-1	None	EF-C
19	RFX1	ENSG00000132005	ENST00000589937	retained_intron	KNOWN	None	9982	None	None	14093840	14117101	-1	None	EF-C
19	RFX1	ENSG00000132005	ENST00000589760	retained_intron	KNOWN	None	9982	None	None	14093881	14117079	-1	None	EF-C
19	RFX1	ENSG00000132005	ENST00000588885	protein_coding	PUTATIVE	None	9982	474	157	14094125	14117074	-1	None	EF-C
19	RFX1	ENSG00000132005	ENST00000586913	processed_transcript	KNOWN	None	9982	None	None	14108980	14117851	-1	None	EF-C
15	DMXL2	ENSG00000104093	ENST00000251076	protein_coding	KNOWN	CCDS10141	2938	9111	3036	51739908	51915030	-1	None	RC3, KIAA0856
15	DMXL2	ENSG00000104093	ENST00000560891	protein_coding	NOVEL	None	2938	3551	1182	51739973	51773676	-1	None	RC3, KIAA0856
15	DMXL2	ENSG00000104093	ENST00000543779	protein_coding	KNOWN	CCDS53946	2938	9114	3037	51739985	51914832	-1	None	RC3, KIAA0856
15	DMXL2	ENSG00000104093	ENST00000559769	retained_intron	KNOWN	None	2938	None	None	51739988	51742870	-1	None	RC3, KIAA0856
15	DMXL2	ENSG00000104093	ENST00000449909	protein_coding	KNOWN	CCDS53945	2938	7203	2400	51741009	51914832	-1	None	RC3, KIAA0856
15	DMXL2	ENSG00000104093	ENST00000559059	protein_coding	PUTATIVE	None	2938	231	76	51742392	51747410	-1	None	RC3, KIAA0856
15	DMXL2	ENSG00000104093	ENST00000559868	retained_intron	KNOWN	None	2938	None	None	51745445	51748515	-1	None	RC3, KIAA0856
15	DMXL2	ENSG00000104093	ENST00000559062	retained_intron	KNOWN	None	2938	None	None	51748510	51751075	-1	None	RC3, KIAA0856
15	DMXL2	ENSG00000104093	ENST00000558124	processed_transcript	KNOWN	None	2938	None	None	51748522	51751979	-1	None	RC3, KIAA0856
15	DMXL2	ENSG00000104093	ENST00000560211	retained_intron	KNOWN	None	2938	None	None	51749569	51751387	-1	None	RC3, KIAA0856
15	DMXL2	ENSG00000104093	ENST00000559498	nonsense_mediated_decay	KNOWN	None	2938	347	114	51749644	51763547	-1	None	RC3, KIAA0856
15	DMXL2	ENSG00000104093	ENST00000561079	retained_intron	KNOWN	None	2938	None	None	51755273	51763433	-1	None	RC3, KIAA0856
15	DMXL2	ENSG00000104093	ENST00000560421	processed_transcript	KNOWN	None	2938	None	None	51839529	51895898	-1	None	RC3, KIAA0856
15	DMXL2	ENSG00000104093	ENST00000558507	retained_intron	KNOWN	None	2938	None	None	51859240	51914967	-1	None	RC3, KIAA0856
11	TRIM49B	ENSG00000182053	ENST00000332682	protein_coding	KNOWN	CCDS55762	42955	1359	452	49050504	49059579	1	None	None
2	CD207	ENSG00000116031	ENST00000410009	protein_coding	KNOWN	None	17935	987	328	71057347	71062952	-1	None	Langerin, CLEC4K
6	ATP6V1G2	ENSG00000213760	ENST00000376151	protein_coding	PUTATIVE	CCDS56413	862	237	78	31512239	31514414	-1	ATP6G, ATP6G2	Vma10, NG38, Em:AC004181.3
6	ATP6V1G2	ENSG00000213760	ENST00000303892	protein_coding	KNOWN	CCDS4698	862	357	118	31512239	31514621	-1	ATP6G, ATP6G2	Vma10, NG38, Em:AC004181.3
6	ATP6V1G2	ENSG00000213760	ENST00000483251	protein_coding	KNOWN	CCDS4699	862	234	77	31513015	31514625	-1	ATP6G, ATP6G2	Vma10, NG38, Em:AC004181.3
6	ATP6V1G2	ENSG00000213760	ENST00000415099	protein_coding	PUTATIVE	None	862	477	158	31513053	31516204	-1	ATP6G, ATP6G2	Vma10, NG38, Em:AC004181.3
6	ATP6V1G2	ENSG00000213760	ENST00000483170	processed_transcript	KNOWN	None	862	None	None	31513061	31514532	-1	ATP6G, ATP6G2	Vma10, NG38, Em:AC004181.3
6	ATP6V1G2	ENSG00000213760	ENST00000481998	retained_intron	KNOWN	None	862	None	None	31513533	31514370	-1	ATP6G, ATP6G2	Vma10, NG38, Em:AC004181.3
2	ITGA4	ENSG00000115232	ENST00000476089	retained_intron	KNOWN	None	6140	None	None	182321929	182324118	1	CD49D	CD49d
2	ITGA4	ENSG00000115232	ENST00000339307	protein_coding	PUTATIVE	None	6140	588	195	182321934	182340945	1	CD49D	CD49d
2	ITGA4	ENSG00000115232	ENST00000397033	protein_coding	KNOWN	CCDS42788	6140	3099	1032	182321952	182400914	1	CD49D	CD49d
2	ITGA4	ENSG00000115232	ENST00000465522	retained_intron	KNOWN	None	6140	None	None	182322131	182351036	1	CD49D	CD49d
2	ITGA4	ENSG00000115232	ENST00000233573	protein_coding	NOVEL	None	6140	1843	613	182322155	182374532	1	CD49D	CD49d
2	ITGA4	ENSG00000115232	ENST00000484404	retained_intron	KNOWN	None	6140	None	None	182322440	182340017	1	CD49D	CD49d
2	ITGA4	ENSG00000115232	ENST00000478440	processed_transcript	KNOWN	None	6140	None	None	182322968	182344443	1	CD49D	CD49d
2	ITGA4	ENSG00000115232	ENST00000473002	retained_intron	KNOWN	None	6140	None	None	182357761	182360559	1	CD49D	CD49d
2	ITGA4	ENSG00000115232	ENST00000490435	retained_intron	KNOWN	None	6140	None	None	182363008	182376498	1	CD49D	CD49d
2	ITGA4	ENSG00000115232	ENST00000476824	retained_intron	KNOWN	None	6140	None	None	182363299	182392177	1	CD49D	CD49d
2	ITGA4	ENSG00000115232	ENST00000468948	retained_intron	KNOWN	None	6140	None	None	182388062	182389092	1	CD49D	CD49d
11	LRTOMT	ENSG00000184154	ENST00000538413	protein_coding	KNOWN	None	25033	277	91	71791383	71804736	1	LRRC51, DFNB63	COMT2
11	LRTOMT	ENSG00000184154	ENST00000535883	nonsense_mediated_decay	KNOWN	None	25033	117	38	71791612	71806611	1	LRRC51, DFNB63	COMT2
11	LRTOMT	ENSG00000184154	ENST00000289488	protein_coding	KNOWN	CCDS8208	25033	579	192	71791693	71807941	1	LRRC51, DFNB63	COMT2
11	LRTOMT	ENSG00000184154	ENST00000412777	retained_intron	KNOWN	None	25033	None	None	71791823	71806226	1	LRRC51, DFNB63	COMT2
11	LRTOMT	ENSG00000184154	ENST00000539271	protein_coding	PUTATIVE	None	25033	132	43	71791823	71806530	1	LRRC51, DFNB63	COMT2
11	LRTOMT	ENSG00000184154	ENST00000423494	protein_coding	PUTATIVE	CCDS55778	25033	525	174	71791858	71807181	1	LRRC51, DFNB63	COMT2
11	LRTOMT	ENSG00000184154	ENST00000539587	protein_coding	PUTATIVE	None	25033	132	43	71791872	71806643	1	LRRC51, DFNB63	COMT2
11	LRTOMT	ENSG00000184154	ENST00000538478	protein_coding	KNOWN	CCDS8208	25033	579	192	71791891	71806664	1	LRRC51, DFNB63	COMT2
11	LRTOMT	ENSG00000184154	ENST00000324866	protein_coding	KNOWN	CCDS59227	25033	441	146	71791905	71807941	1	LRRC51, DFNB63	COMT2
11	LRTOMT	ENSG00000184154	ENST00000439209	protein_coding	PUTATIVE	None	25033	471	156	71791905	71819848	1	LRRC51, DFNB63	COMT2
11	LRTOMT	ENSG00000184154	ENST00000427369	nonsense_mediated_decay	KNOWN	None	25033	684	227	71791905	71821825	1	LRRC51, DFNB63	COMT2
11	LRTOMT	ENSG00000184154	ENST00000544409	nonsense_mediated_decay	KNOWN	None	25033	564	187	71791905	71821828	1	LRRC51, DFNB63	COMT2
11	LRTOMT	ENSG00000184154	ENST00000542846	protein_coding	KNOWN	None	25033	311	102	71794818	71806016	1	LRRC51, DFNB63	COMT2
11	LRTOMT	ENSG00000184154	ENST00000541614	protein_coding	KNOWN	CCDS44667	25033	477	158	71799366	71807941	1	LRRC51, DFNB63	COMT2
11	LRTOMT	ENSG00000184154	ENST00000537483	protein_coding	PUTATIVE	None	25033	196	64	71799370	71800325	1	LRRC51, DFNB63	COMT2
11	LRTOMT	ENSG00000184154	ENST00000536917	protein_coding	PUTATIVE	CCDS59227	25033	441	146	71800113	71806267	1	LRRC51, DFNB63	COMT2
11	LRTOMT	ENSG00000184154	ENST00000440313	protein_coding	PUTATIVE	None	25033	144	47	71806036	71806885	1	LRRC51, DFNB63	COMT2
11	LRTOMT	ENSG00000184154	ENST00000541899	retained_intron	KNOWN	None	25033	None	None	71816841	71819092	1	LRRC51, DFNB63	COMT2
11	LRTOMT	ENSG00000184154	ENST00000447974	protein_coding	KNOWN	CCDS44667	25033	477	158	71791693	71807936	1	LRRC51, DFNB63	COMT2
11	LRTOMT	ENSG00000184154	ENST00000419228	protein_coding	KNOWN	None	25033	756	251	71791382	71821828	1	LRRC51, DFNB63	COMT2
11	LRTOMT	ENSG00000184154	ENST00000435085	protein_coding	KNOWN	CCDS44668	25033	876	291	71791382	71821825	1	LRRC51, DFNB63	COMT2
11	LRTOMT	ENSG00000184154	ENST00000307198	protein_coding	KNOWN	CCDS44668	25033	876	291	71791382	71821825	1	LRRC51, DFNB63	COMT2
11	OR2D2	ENSG00000166368	ENST00000299459	protein_coding	KNOWN	CCDS31416	8244	927	308	6912721	6913830	-1	OR2D1	OR11-610, hg27
2	VAX2	ENSG00000116035	ENST00000234392	protein_coding	KNOWN	CCDS1911	12661	873	290	71127720	71160576	1	None	DRES93
1	SPATA17	ENSG00000162814	ENST00000470448	nonsense_mediated_decay	KNOWN	None	25184	243	80	217804666	217947766	1	None	IQCH
1	SPATA17	ENSG00000162814	ENST00000366933	protein_coding	KNOWN	CCDS1519	25184	1086	361	217804666	218045038	1	None	IQCH
1	SPATA17	ENSG00000162814	ENST00000492747	processed_transcript	KNOWN	None	25184	None	None	217911186	217975110	1	None	IQCH
1	SPATA17	ENSG00000162814	ENST00000471021	processed_transcript	KNOWN	None	25184	None	None	217975060	218040930	1	None	IQCH
1	SPATA17	ENSG00000162814	ENST00000491809	processed_transcript	KNOWN	None	25184	None	None	218036117	218040475	1	None	IQCH
8	TSNARE1	ENSG00000171045	ENST00000524325	protein_coding	KNOWN	None	26437	1539	512	143293441	143484601	-1	None	FLJ31164
8	TSNARE1	ENSG00000171045	ENST00000520166	protein_coding	NOVEL	None	26437	1542	513	143293528	143436124	-1	None	FLJ31164
8	TSNARE1	ENSG00000171045	ENST00000519651	protein_coding	PUTATIVE	None	26437	834	277	143351846	143484529	-1	None	FLJ31164
8	TSNARE1	ENSG00000171045	ENST00000521825	processed_transcript	PUTATIVE	None	26437	None	None	143352928	143361358	-1	None	FLJ31164
8	TSNARE1	ENSG00000171045	ENST00000518928	processed_transcript	KNOWN	None	26437	None	None	143381477	143407586	-1	None	FLJ31164
8	TSNARE1	ENSG00000171045	ENST00000520462	protein_coding	KNOWN	None	26437	451	149	143425621	143484249	-1	None	FLJ31164
8	TSNARE1	ENSG00000171045	ENST00000518720	protein_coding	PUTATIVE	None	26437	406	134	143425714	143484543	-1	None	FLJ31164
8	TSNARE1	ENSG00000171045	ENST00000307180	protein_coding	KNOWN	CCDS6384	26437	1542	513	143293442	143484543	-1	None	FLJ31164
15	None	ENSG00000248540	ENST00000563727	protein_coding	PUTATIVE	None	None	312	103	74418256	74421179	-1	None	None
15	None	ENSG00000248540	ENST00000514871	protein_coding	PUTATIVE	None	None	327	108	74418714	74421619	-1	None	None
1	CCDC17	ENSG00000159588	ENST00000372044	nonsense_mediated_decay	KNOWN	None	26574	180	59	46085716	46089673	-1	None	FLJ33084
1	CCDC17	ENSG00000159588	ENST00000482416	retained_intron	KNOWN	None	26574	None	None	46085716	46089709	-1	None	FLJ33084
1	CCDC17	ENSG00000159588	ENST00000491755	retained_intron	KNOWN	None	26574	None	None	46085716	46089712	-1	None	FLJ33084
1	CCDC17	ENSG00000159588	ENST00000421127	protein_coding	NOVEL	CCDS53314	26574	1842	613	46085717	46089725	-1	None	FLJ33084
1	CCDC17	ENSG00000159588	ENST00000528266	protein_coding	NOVEL	CCDS44131	26574	1869	622	46085783	46089729	-1	None	FLJ33084
1	CCDC17	ENSG00000159588	ENST00000445048	protein_coding	KNOWN	None	26574	333	110	46085895	46089639	-1	None	FLJ33084
1	CCDC17	ENSG00000159588	ENST00000479529	nonsense_mediated_decay	KNOWN	None	26574	1695	564	46086025	46089729	-1	None	FLJ33084
1	CCDC17	ENSG00000159588	ENST00000464739	processed_transcript	KNOWN	None	26574	None	None	46086666	46088445	-1	None	FLJ33084
1	CCDC17	ENSG00000159588	ENST00000525599	retained_intron	KNOWN	None	26574	None	None	46087953	46089721	-1	None	FLJ33084
1	CCDC17	ENSG00000159588	ENST00000343901	protein_coding	KNOWN	None	26574	1773	590	46085717	46089729	-1	None	FLJ33084
6	NFKBIL1	ENSG00000204498	ENST00000376146	protein_coding	KNOWN	CCDS47400	7800	1077	358	31514647	31526606	1	NFKBIL	IKBL
6	NFKBIL1	ENSG00000204498	ENST00000376148	protein_coding	KNOWN	CCDS4700	7800	1146	381	31515358	31526606	1	NFKBIL	IKBL
6	NFKBIL1	ENSG00000204498	ENST00000376145	protein_coding	KNOWN	CCDS47399	7800	1101	366	31515390	31526606	1	NFKBIL	IKBL
6	NFKBIL1	ENSG00000204498	ENST00000496233	nonsense_mediated_decay	KNOWN	None	7800	378	125	31515417	31525482	1	NFKBIL	IKBL
6	NFKBIL1	ENSG00000204498	ENST00000473655	retained_intron	KNOWN	None	7800	None	None	31515438	31525736	1	NFKBIL	IKBL
1	RRP15	ENSG00000067533	ENST00000366932	protein_coding	KNOWN	CCDS1520	24255	849	282	218458629	218511325	1	KIAA0507	CGI-115
1	RRP15	ENSG00000067533	ENST00000491428	processed_transcript	PUTATIVE	None	24255	None	None	218458684	218476013	1	KIAA0507	CGI-115
16	CMC2	ENSG00000103121	ENST00000566918	processed_transcript	PUTATIVE	None	24447	None	None	81009698	81016940	-1	C16orf61	DC13, MGC45036
16	CMC2	ENSG00000103121	ENST00000563779	retained_intron	KNOWN	None	24447	None	None	81009698	81032554	-1	C16orf61	DC13, MGC45036
16	CMC2	ENSG00000103121	ENST00000566231	processed_transcript	PUTATIVE	None	24447	None	None	81009699	81025560	-1	C16orf61	DC13, MGC45036
16	CMC2	ENSG00000103121	ENST00000561614	nonsense_mediated_decay	KNOWN	None	24447	164	53	81009699	81030977	-1	C16orf61	DC13, MGC45036
16	CMC2	ENSG00000103121	ENST00000566047	retained_intron	KNOWN	None	24447	None	None	81009699	81031200	-1	C16orf61	DC13, MGC45036
16	CMC2	ENSG00000103121	ENST00000570195	protein_coding	PUTATIVE	None	24447	282	93	81009699	81040476	-1	C16orf61	DC13, MGC45036
16	CMC2	ENSG00000103121	ENST00000486645	protein_coding	PUTATIVE	None	24447	153	50	81009699	81040500	-1	C16orf61	DC13, MGC45036
16	CMC2	ENSG00000103121	ENST00000219400	protein_coding	KNOWN	CCDS10930	24447	240	79	81009699	81040719	-1	C16orf61	DC13, MGC45036
16	CMC2	ENSG00000103121	ENST00000569187	processed_transcript	PUTATIVE	None	24447	None	None	81009701	81040502	-1	C16orf61	DC13, MGC45036
16	CMC2	ENSG00000103121	ENST00000570086	nonsense_mediated_decay	KNOWN	None	24447	156	51	81009704	81040480	-1	C16orf61	DC13, MGC45036
16	CMC2	ENSG00000103121	ENST00000564249	protein_coding	KNOWN	CCDS10930	24447	240	79	81009750	81032264	-1	C16orf61	DC13, MGC45036
16	CMC2	ENSG00000103121	ENST00000565650	protein_coding	KNOWN	None	24447	215	70	81009825	81040499	-1	C16orf61	DC13, MGC45036
16	CMC2	ENSG00000103121	ENST00000567593	nonsense_mediated_decay	KNOWN	None	24447	111	36	81009833	81040444	-1	C16orf61	DC13, MGC45036
16	CMC2	ENSG00000103121	ENST00000568228	nonsense_mediated_decay	KNOWN	None	24447	156	51	81009888	81040499	-1	C16orf61	DC13, MGC45036
16	CMC2	ENSG00000103121	ENST00000565914	protein_coding	KNOWN	CCDS10930	24447	240	79	81009900	81053875	-1	C16orf61	DC13, MGC45036
16	CMC2	ENSG00000103121	ENST00000565925	protein_coding	PUTATIVE	None	24447	225	74	81009947	81040480	-1	C16orf61	DC13, MGC45036
16	CMC2	ENSG00000103121	ENST00000565108	protein_coding	NOVEL	None	24447	168	55	81009947	81040491	-1	C16orf61	DC13, MGC45036
16	CMC2	ENSG00000103121	ENST00000564174	protein_coding	NOVEL	None	24447	168	55	81009957	81040459	-1	C16orf61	DC13, MGC45036
16	CMC2	ENSG00000103121	ENST00000565613	nonsense_mediated_decay	KNOWN	None	24447	225	74	81010007	81040459	-1	C16orf61	DC13, MGC45036
16	CMC2	ENSG00000103121	ENST00000569666	retained_intron	KNOWN	None	24447	None	None	81010008	81031212	-1	C16orf61	DC13, MGC45036
16	CMC2	ENSG00000103121	ENST00000562713	protein_coding	PUTATIVE	None	24447	225	74	81010014	81040463	-1	C16orf61	DC13, MGC45036
16	CMC2	ENSG00000103121	ENST00000562828	processed_transcript	PUTATIVE	None	24447	None	None	81014394	81040497	-1	C16orf61	DC13, MGC45036
16	CMC2	ENSG00000103121	ENST00000565514	processed_transcript	PUTATIVE	None	24447	None	None	81014435	81040478	-1	C16orf61	DC13, MGC45036
15	MESP1	ENSG00000166823	ENST00000300057	protein_coding	KNOWN	CCDS10355	29658	807	268	90291892	90294541	-1	None	MGC10676, bHLHc5
15	MESP1	ENSG00000166823	ENST00000559894	processed_transcript	KNOWN	None	29658	None	None	90293122	90294368	-1	None	MGC10676, bHLHc5
5	CCNG1	ENSG00000113328	ENST00000512163	protein_coding	PUTATIVE	None	1592	486	161	162864575	162870735	1	CCNG	None
5	CCNG1	ENSG00000113328	ENST00000506186	retained_intron	KNOWN	None	1592	None	None	162864577	162866608	1	CCNG	None
5	CCNG1	ENSG00000113328	ENST00000340828	protein_coding	KNOWN	CCDS4360	1592	888	295	162864587	162872022	1	CCNG	None
5	CCNG1	ENSG00000113328	ENST00000511683	protein_coding	PUTATIVE	None	1592	486	161	162864600	162871084	1	CCNG	None
5	CCNG1	ENSG00000113328	ENST00000510097	protein_coding	KNOWN	None	1592	408	135	162864601	162868227	1	CCNG	None
5	CCNG1	ENSG00000113328	ENST00000511490	protein_coding	KNOWN	None	1592	344	113	162864613	162868163	1	CCNG	None
5	CCNG1	ENSG00000113328	ENST00000510664	protein_coding	PUTATIVE	None	1592	504	167	162864620	162870898	1	CCNG	None
5	CCNG1	ENSG00000113328	ENST00000512532	retained_intron	KNOWN	None	1592	None	None	162866197	162868293	1	CCNG	None
5	CCNG1	ENSG00000113328	ENST00000504553	protein_coding	PUTATIVE	None	1592	324	107	162868184	162871079	1	CCNG	None
5	CCNG1	ENSG00000113328	ENST00000514367	retained_intron	KNOWN	None	1592	None	None	162868662	162869544	1	CCNG	None
5	CCNG1	ENSG00000113328	ENST00000509143	processed_transcript	KNOWN	None	1592	None	None	162870763	162873157	1	CCNG	None
5	CCNG1	ENSG00000113328	ENST00000509425	processed_transcript	KNOWN	None	1592	None	None	162870802	162871971	1	CCNG	None
5	CCNG1	ENSG00000113328	ENST00000393929	protein_coding	KNOWN	CCDS4360	1592	888	295	162864577	162872020	1	CCNG	None
8	UQCRB	ENSG00000156467	ENST00000287022	protein_coding	KNOWN	CCDS6269	12582	336	111	97238148	97247862	-1	UQBP	QP-C, QCR7, UQCR6
8	UQCRB	ENSG00000156467	ENST00000517603	nonsense_mediated_decay	KNOWN	None	12582	81	26	97242705	97247771	-1	UQBP	QP-C, QCR7, UQCR6
8	UQCRB	ENSG00000156467	ENST00000521036	nonsense_mediated_decay	KNOWN	None	12582	486	161	97242943	97247774	-1	UQBP	QP-C, QCR7, UQCR6
8	UQCRB	ENSG00000156467	ENST00000518876	retained_intron	KNOWN	None	12582	None	None	97243164	97247772	-1	UQBP	QP-C, QCR7, UQCR6
8	UQCRB	ENSG00000156467	ENST00000517523	protein_coding	PUTATIVE	None	12582	231	76	97243167	97245447	-1	UQBP	QP-C, QCR7, UQCR6
8	UQCRB	ENSG00000156467	ENST00000518406	protein_coding	PUTATIVE	CCDS59107	12582	423	140	97243170	97247767	-1	UQBP	QP-C, QCR7, UQCR6
8	UQCRB	ENSG00000156467	ENST00000521948	retained_intron	KNOWN	None	12582	None	None	97243291	97246143	-1	UQBP	QP-C, QCR7, UQCR6
8	UQCRB	ENSG00000156467	ENST00000523920	protein_coding	PUTATIVE	None	12582	486	161	97243323	97247774	-1	UQBP	QP-C, QCR7, UQCR6
8	UQCRB	ENSG00000156467	ENST00000519322	retained_intron	KNOWN	None	12582	None	None	97243525	97247773	-1	UQBP	QP-C, QCR7, UQCR6
5	F2RL2	ENSG00000164220	ENST00000296641	protein_coding	KNOWN	CCDS4031	3539	1125	374	75911307	75919259	-1	None	PAR3
5	F2RL2	ENSG00000164220	ENST00000504899	protein_coding	PUTATIVE	CCDS58959	3539	1059	352	75913198	75919238	-1	None	PAR3
6	MAPK13	ENSG00000156711	ENST00000476951	processed_transcript	KNOWN	None	6875	None	None	36095586	36103609	1	PRKM13	SAPK4, p38delta
6	MAPK13	ENSG00000156711	ENST00000211287	protein_coding	KNOWN	CCDS4818	6875	1098	365	36098098	36107842	1	PRKM13	SAPK4, p38delta
6	MAPK13	ENSG00000156711	ENST00000373759	protein_coding	KNOWN	None	6875	459	152	36098440	36106984	1	PRKM13	SAPK4, p38delta
6	MAPK13	ENSG00000156711	ENST00000490334	processed_transcript	KNOWN	None	6875	None	None	36098646	36104292	1	PRKM13	SAPK4, p38delta
6	MAPK13	ENSG00000156711	ENST00000373761	protein_coding	KNOWN	None	6875	1068	355	36098262	36107842	1	PRKM13	SAPK4, p38delta
6	MAPK13	ENSG00000156711	ENST00000373766	protein_coding	KNOWN	None	6875	774	257	36098291	36107799	1	PRKM13	SAPK4, p38delta
2	ATP6V1B1	ENSG00000116039	ENST00000234396	protein_coding	KNOWN	CCDS1912	853	1542	513	71163012	71192527	1	VPP3, ATP6B1	VATB, RTA1B, Vma2
2	ATP6V1B1	ENSG00000116039	ENST00000432367	nonsense_mediated_decay	KNOWN	None	853	747	248	71163032	71192536	1	VPP3, ATP6B1	VATB, RTA1B, Vma2
2	ATP6V1B1	ENSG00000116039	ENST00000412314	protein_coding	KNOWN	None	853	1491	496	71163051	71192531	1	VPP3, ATP6B1	VATB, RTA1B, Vma2
2	ATP6V1B1	ENSG00000116039	ENST00000454446	protein_coding	NOVEL	None	853	748	248	71170504	71188162	1	VPP3, ATP6B1	VATB, RTA1B, Vma2
2	ATP6V1B1	ENSG00000116039	ENST00000432098	protein_coding	NOVEL	None	853	224	73	71170708	71187207	1	VPP3, ATP6B1	VATB, RTA1B, Vma2
2	ATP6V1B1	ENSG00000116039	ENST00000463380	retained_intron	KNOWN	None	853	None	None	71184901	71187096	1	VPP3, ATP6B1	VATB, RTA1B, Vma2
2	ATP6V1B1	ENSG00000116039	ENST00000495118	retained_intron	KNOWN	None	853	None	None	71187069	71188950	1	VPP3, ATP6B1	VATB, RTA1B, Vma2
2	ATP6V1B1	ENSG00000116039	ENST00000433895	protein_coding	PUTATIVE	None	853	355	117	71190752	71192249	1	VPP3, ATP6B1	VATB, RTA1B, Vma2
5	F2R	ENSG00000181104	ENST00000319211	protein_coding	KNOWN	CCDS4032	3537	1278	425	76011868	76031606	1	None	TR, CF2R, PAR1, PAR-1
5	F2R	ENSG00000181104	ENST00000505600	protein_coding	PUTATIVE	None	3537	309	102	76012024	76012613	1	None	TR, CF2R, PAR1, PAR-1
1	TGFB2	ENSG00000092969	ENST00000366930	protein_coding	KNOWN	CCDS1521	11768	1245	414	218519577	218617961	1	None	None
1	TGFB2	ENSG00000092969	ENST00000366929	protein_coding	KNOWN	CCDS44318	11768	1329	442	218519577	218617961	1	None	None
1	TGFB2	ENSG00000092969	ENST00000488793	processed_transcript	KNOWN	None	11768	None	None	218520380	218607654	1	None	None
1	TGFB2	ENSG00000092969	ENST00000479322	processed_transcript	KNOWN	None	11768	None	None	218607468	218615483	1	None	None
7	ZNF117	ENSG00000152926	ENST00000282869	protein_coding	KNOWN	CCDS43593	12897	1452	483	64438360	64451414	-1	None	HPF9, H-plk
7	ZNF117	ENSG00000152926	ENST00000487644	retained_intron	KNOWN	None	12897	None	None	64440301	64467062	-1	None	HPF9, H-plk
7	None	ENSG00000270617	ENST00000603700	protein_coding	PUTATIVE	None	None	333	110	43906157	43946188	-1	None	None
9	DPM2	ENSG00000136908	ENST00000495270	retained_intron	KNOWN	None	3006	None	None	130697378	130700105	-1	None	MGC21559, MGC111193
9	DPM2	ENSG00000136908	ENST00000314392	protein_coding	KNOWN	CCDS6886	3006	255	84	130697378	130700763	-1	None	MGC21559, MGC111193
9	DPM2	ENSG00000136908	ENST00000470181	retained_intron	KNOWN	None	3006	None	None	130697620	130700097	-1	None	MGC21559, MGC111193
9	DPM2	ENSG00000136908	ENST00000473360	retained_intron	KNOWN	None	3006	None	None	130697662	130700058	-1	None	MGC21559, MGC111193
9	DPM2	ENSG00000136908	ENST00000373110	protein_coding	PUTATIVE	None	3006	393	130	130698313	130700122	-1	None	MGC21559, MGC111193
1	GPBP1L1	ENSG00000159592	ENST00000479235	processed_transcript	KNOWN	None	28843	None	None	46092976	46101396	-1	None	SP192
1	GPBP1L1	ENSG00000159592	ENST00000290795	protein_coding	KNOWN	CCDS528	28843	1425	474	46092976	46152208	-1	None	SP192
1	GPBP1L1	ENSG00000159592	ENST00000467032	processed_transcript	KNOWN	None	28843	None	None	46093629	46095387	-1	None	SP192
1	GPBP1L1	ENSG00000159592	ENST00000487436	processed_transcript	KNOWN	None	28843	None	None	46093900	46096429	-1	None	SP192
1	GPBP1L1	ENSG00000159592	ENST00000468724	processed_transcript	KNOWN	None	28843	None	None	46095260	46099503	-1	None	SP192
1	GPBP1L1	ENSG00000159592	ENST00000498128	processed_transcript	KNOWN	None	28843	None	None	46107342	46120918	-1	None	SP192
1	GPBP1L1	ENSG00000159592	ENST00000496278	processed_transcript	KNOWN	None	28843	None	None	46119943	46121831	-1	None	SP192
1	GPBP1L1	ENSG00000159592	ENST00000495616	processed_transcript	KNOWN	None	28843	None	None	46124427	46126061	-1	None	SP192
1	GPBP1L1	ENSG00000159592	ENST00000488278	processed_transcript	KNOWN	None	28843	None	None	46126089	46152805	-1	None	SP192
1	GPBP1L1	ENSG00000159592	ENST00000480941	processed_transcript	KNOWN	None	28843	None	None	46126202	46152818	-1	None	SP192
1	GPBP1L1	ENSG00000159592	ENST00000480083	processed_transcript	KNOWN	None	28843	None	None	46126221	46152325	-1	None	SP192
1	GPBP1L1	ENSG00000159592	ENST00000493083	processed_transcript	KNOWN	None	28843	None	None	46126349	46153785	-1	None	SP192
1	GPBP1L1	ENSG00000159592	ENST00000460859	processed_transcript	KNOWN	None	28843	None	None	46126470	46153785	-1	None	SP192
1	GPBP1L1	ENSG00000159592	ENST00000355105	protein_coding	KNOWN	CCDS528	28843	1425	474	46092978	46152302	-1	None	SP192
3	ITGB5	ENSG00000082781	ENST00000296181	protein_coding	KNOWN	CCDS3030	6160	2400	799	124480795	124606144	-1	None	None
3	ITGB5	ENSG00000082781	ENST00000460797	retained_intron	KNOWN	None	6160	None	None	124481795	124489029	-1	None	None
3	ITGB5	ENSG00000082781	ENST00000461306	processed_transcript	KNOWN	None	6160	None	None	124483304	124499551	-1	None	None
3	ITGB5	ENSG00000082781	ENST00000481591	protein_coding	PUTATIVE	None	6160	1202	399	124485077	124540305	-1	None	None
3	ITGB5	ENSG00000082781	ENST00000572186	retained_intron	KNOWN	None	6160	None	None	124491779	124495362	-1	None	None
3	ITGB5	ENSG00000082781	ENST00000488466	processed_transcript	KNOWN	None	6160	None	None	124492666	124567298	-1	None	None
3	ITGB5	ENSG00000082781	ENST00000474838	processed_transcript	KNOWN	None	6160	None	None	124515387	124528245	-1	None	None
3	ITGB5	ENSG00000082781	ENST00000496703	protein_coding	PUTATIVE	None	6160	789	262	124515438	124560398	-1	None	None
3	ITGB5	ENSG00000082781	ENST00000476988	processed_transcript	KNOWN	None	6160	None	None	124527988	124551867	-1	None	None
3	ITGB5	ENSG00000082781	ENST00000465464	nonsense_mediated_decay	KNOWN	None	6160	234	77	124540178	124606674	-1	None	None
3	ITGB5	ENSG00000082781	ENST00000483168	nonsense_mediated_decay	KNOWN	None	6160	139	45	124567206	124606531	-1	None	None
15	ISLR	ENSG00000129009	ENST00000249842	protein_coding	KNOWN	CCDS10260	6133	1287	428	74466012	74469213	1	None	HsT17563
15	ISLR	ENSG00000129009	ENST00000559510	protein_coding	KNOWN	None	6133	441	146	74466471	74467640	1	None	HsT17563
15	ISLR	ENSG00000129009	ENST00000560862	protein_coding	KNOWN	None	6133	551	182	74466744	74467750	1	None	HsT17563
15	ISLR	ENSG00000129009	ENST00000395118	protein_coding	KNOWN	CCDS10260	6133	1287	428	74466842	74469213	1	None	HsT17563
X	FAM50A	ENSG00000071859	ENST00000393600	protein_coding	KNOWN	CCDS14751	18786	1020	339	153672473	153679002	1	None	DXS9928E, XAP5, HXC-26, 9F
X	FAM50A	ENSG00000071859	ENST00000464419	retained_intron	KNOWN	None	18786	None	None	153672502	153679002	1	None	DXS9928E, XAP5, HXC-26, 9F
X	FAM50A	ENSG00000071859	ENST00000481619	retained_intron	KNOWN	None	18786	None	None	153672595	153677429	1	None	DXS9928E, XAP5, HXC-26, 9F
X	FAM50A	ENSG00000071859	ENST00000158526	protein_coding	PUTATIVE	None	18786	780	259	153672807	153678447	1	None	DXS9928E, XAP5, HXC-26, 9F
X	FAM50A	ENSG00000071859	ENST00000490480	retained_intron	KNOWN	None	18786	None	None	153673791	153674230	1	None	DXS9928E, XAP5, HXC-26, 9F
X	FAM50A	ENSG00000071859	ENST00000478509	retained_intron	KNOWN	None	18786	None	None	153674614	153677483	1	None	DXS9928E, XAP5, HXC-26, 9F
X	FAM50A	ENSG00000071859	ENST00000494278	retained_intron	KNOWN	None	18786	None	None	153678235	153678637	1	None	DXS9928E, XAP5, HXC-26, 9F
12	SPRYD3	ENSG00000167778	ENST00000301463	protein_coding	KNOWN	CCDS8845	25920	1329	442	53458388	53473204	-1	None	FLJ14800
12	SPRYD3	ENSG00000167778	ENST00000547257	nonsense_mediated_decay	KNOWN	None	25920	181	59	53458735	53460143	-1	None	FLJ14800
12	SPRYD3	ENSG00000167778	ENST00000547837	protein_coding	NOVEL	None	25920	1440	479	53459445	53473161	-1	None	FLJ14800
12	SPRYD3	ENSG00000167778	ENST00000537540	nonsense_mediated_decay	KNOWN	None	25920	498	165	53460386	53473188	-1	None	FLJ14800
12	SPRYD3	ENSG00000167778	ENST00000550564	retained_intron	KNOWN	None	25920	None	None	53462075	53473172	-1	None	FLJ14800
12	SPRYD3	ENSG00000167778	ENST00000550252	retained_intron	KNOWN	None	25920	None	None	53466944	53469528	-1	None	FLJ14800
1	C1orf143	ENSG00000228208	ENST00000443836	protein_coding	PUTATIVE	None	32045	312	103	218683438	218699320	1	None	None
1	C1orf143	ENSG00000228208	ENST00000491260	processed_transcript	PUTATIVE	None	32045	None	None	218698182	218699320	1	None	None
11	PCF11	ENSG00000165494	ENST00000298281	protein_coding	KNOWN	CCDS44689	30097	4668	1555	82868030	82898493	1	None	KIAA0824
11	PCF11	ENSG00000165494	ENST00000530660	protein_coding	NOVEL	None	30097	2996	997	82868169	82879980	1	None	KIAA0824
11	PCF11	ENSG00000165494	ENST00000530304	protein_coding	KNOWN	None	30097	2352	783	82868185	82879729	1	None	KIAA0824
11	PCF11	ENSG00000165494	ENST00000533018	protein_coding	NOVEL	None	30097	299	98	82868201	82874827	1	None	KIAA0824
11	PCF11	ENSG00000165494	ENST00000530906	protein_coding	PUTATIVE	None	30097	596	197	82882293	82892969	1	None	KIAA0824
11	PCF11	ENSG00000165494	ENST00000528336	retained_intron	KNOWN	None	30097	None	None	82891464	82894101	1	None	KIAA0824
19	PET100	ENSG00000229833	ENST00000594797	protein_coding	KNOWN	CCDS54208	40038	222	73	7694623	7696842	1	C19orf79	None
19	PET100	ENSG00000229833	ENST00000456958	protein_coding	NOVEL	None	40038	135	44	7694700	7696506	1	C19orf79	None
19	PET100	ENSG00000229833	ENST00000601829	retained_intron	KNOWN	None	40038	None	None	7694710	7695738	1	C19orf79	None
19	PET100	ENSG00000229833	ENST00000601406	protein_coding	PUTATIVE	None	40038	207	68	7694710	7695916	1	C19orf79	None
19	PET100	ENSG00000229833	ENST00000598540	nonsense_mediated_decay	KNOWN	None	40038	139	45	7694725	7696510	1	C19orf79	None
19	PET100	ENSG00000229833	ENST00000600836	retained_intron	KNOWN	None	40038	None	None	7695411	7696510	1	C19orf79	None
11	OR2D3	ENSG00000178358	ENST00000317834	protein_coding	KNOWN	CCDS31417	15146	993	330	6942205	6943264	1	None	None
1	CGN	ENSG00000143375	ENST00000505188	protein_coding	KNOWN	None	17429	510	169	151482986	151491505	1	None	KIAA1319
1	CGN	ENSG00000143375	ENST00000502442	protein_coding	KNOWN	None	17429	510	169	151483412	151491505	1	None	KIAA1319
1	CGN	ENSG00000143375	ENST00000427934	protein_coding	KNOWN	None	17429	873	290	151483863	151491868	1	None	KIAA1319
1	CGN	ENSG00000143375	ENST00000271636	protein_coding	KNOWN	CCDS999	17429	3612	1203	151483873	151511168	1	None	KIAA1319
1	CGN	ENSG00000143375	ENST00000416743	protein_coding	NOVEL	None	17429	394	130	151491846	151496037	1	None	KIAA1319
1	CGN	ENSG00000143375	ENST00000464886	retained_intron	KNOWN	None	17429	None	None	151498070	151501868	1	None	KIAA1319
1	CGN	ENSG00000143375	ENST00000473377	retained_intron	KNOWN	None	17429	None	None	151506616	151511168	1	None	KIAA1319
1	CGN	ENSG00000143375	ENST00000467998	retained_intron	KNOWN	None	17429	None	None	151508354	151509978	1	None	KIAA1319
1	TMEM69	ENSG00000159596	ENST00000372025	protein_coding	KNOWN	CCDS41325	28035	744	247	46152886	46160115	1	C1orf154	FLJ21029
1	TMEM69	ENSG00000159596	ENST00000496366	processed_transcript	KNOWN	None	28035	None	None	46153868	46159517	1	C1orf154	FLJ21029
7	ERV3-1	ENSG00000213462	ENST00000394323	protein_coding	KNOWN	CCDS47595	3454	1815	604	64451187	64467031	-1	ERV3	H-PLK, HERV-R, ERV-R, envR
7	ERV3-1	ENSG00000213462	ENST00000528878	processed_transcript	KNOWN	None	3454	None	None	64464047	64467121	-1	ERV3	H-PLK, HERV-R, ERV-R, envR
7	ERV3-1	ENSG00000213462	ENST00000535538	processed_transcript	KNOWN	None	3454	None	None	64466462	64467037	-1	ERV3	H-PLK, HERV-R, ERV-R, envR
19	ADM5	ENSG00000224420	ENST00000420022	protein_coding	KNOWN	CCDS46146	27293	462	153	50191921	50193832	1	C19orf76	AM5
5	F2RL1	ENSG00000164251	ENST00000514165	protein_coding	PUTATIVE	None	3538	338	111	76114758	76129052	1	GPR11	PAR2
5	F2RL1	ENSG00000164251	ENST00000296677	protein_coding	KNOWN	CCDS4033	3538	1194	397	76114802	76131140	1	GPR11	PAR2
1	LYPLAL1	ENSG00000143353	ENST00000366928	protein_coding	KNOWN	CCDS1522	20440	714	237	219347186	219386207	1	None	Q96AV0
1	LYPLAL1	ENSG00000143353	ENST00000460522	processed_transcript	KNOWN	None	20440	None	None	219347211	219386207	1	None	Q96AV0
1	LYPLAL1	ENSG00000143353	ENST00000366927	protein_coding	KNOWN	None	20440	666	221	219347217	219386207	1	None	Q96AV0
1	LYPLAL1	ENSG00000143353	ENST00000496776	processed_transcript	KNOWN	None	20440	None	None	219347218	219366827	1	None	Q96AV0
1	LYPLAL1	ENSG00000143353	ENST00000477938	processed_transcript	KNOWN	None	20440	None	None	219347226	219386207	1	None	Q96AV0
1	LYPLAL1	ENSG00000143353	ENST00000463964	processed_transcript	KNOWN	None	20440	None	None	219347237	219386207	1	None	Q96AV0
1	LYPLAL1	ENSG00000143353	ENST00000483635	processed_transcript	KNOWN	None	20440	None	None	219347238	219386207	1	None	Q96AV0
1	LYPLAL1	ENSG00000143353	ENST00000474379	processed_transcript	KNOWN	None	20440	None	None	219347269	219386207	1	None	Q96AV0
1	LYPLAL1	ENSG00000143353	ENST00000469590	processed_transcript	KNOWN	None	20440	None	None	219347536	219386207	1	None	Q96AV0
1	LYPLAL1	ENSG00000143353	ENST00000478794	processed_transcript	KNOWN	None	20440	None	None	219348313	219384872	1	None	Q96AV0
1	LYPLAL1	ENSG00000143353	ENST00000475724	processed_transcript	KNOWN	None	20440	None	None	219371885	219386207	1	None	Q96AV0
1	LYPLAL1	ENSG00000143353	ENST00000481007	processed_transcript	KNOWN	None	20440	None	None	219383684	219385169	1	None	Q96AV0
15	CAPN3	ENSG00000092529	ENST00000357568	protein_coding	KNOWN	CCDS32207	1480	2448	815	42651783	42703971	1	LGMD2, LGMD2A	CANP3, p94, nCL-1
15	CAPN3	ENSG00000092529	ENST00000349748	protein_coding	KNOWN	CCDS10085	1480	2190	729	42651783	42704515	1	LGMD2, LGMD2A	CANP3, p94, nCL-1
15	CAPN3	ENSG00000092529	ENST00000397163	protein_coding	KNOWN	CCDS45245	1480	2466	821	42651785	42704514	1	LGMD2, LGMD2A	CANP3, p94, nCL-1
15	CAPN3	ENSG00000092529	ENST00000397200	protein_coding	KNOWN	CCDS45246	1480	930	309	42694588	42704515	1	LGMD2, LGMD2A	CANP3, p94, nCL-1
15	CAPN3	ENSG00000092529	ENST00000569827	protein_coding	NOVEL	None	1480	767	254	42694616	42703539	1	LGMD2, LGMD2A	CANP3, p94, nCL-1
15	CAPN3	ENSG00000092529	ENST00000567071	protein_coding	NOVEL	None	1480	563	186	42694997	42702161	1	LGMD2, LGMD2A	CANP3, p94, nCL-1
15	CAPN3	ENSG00000092529	ENST00000337571	protein_coding	KNOWN	CCDS10086	1480	471	156	42696977	42704513	1	LGMD2, LGMD2A	CANP3, p94, nCL-1
15	CAPN3	ENSG00000092529	ENST00000569136	protein_coding	KNOWN	CCDS10086	1480	471	156	42696978	42704140	1	LGMD2, LGMD2A	CANP3, p94, nCL-1
15	CAPN3	ENSG00000092529	ENST00000561817	protein_coding	PUTATIVE	None	1480	576	191	42696996	42704515	1	LGMD2, LGMD2A	CANP3, p94, nCL-1
15	CAPN3	ENSG00000092529	ENST00000565173	retained_intron	KNOWN	None	1480	None	None	42697025	42700834	1	LGMD2, LGMD2A	CANP3, p94, nCL-1
15	CAPN3	ENSG00000092529	ENST00000397204	protein_coding	KNOWN	CCDS10086	1480	471	156	42697029	42704513	1	LGMD2, LGMD2A	CANP3, p94, nCL-1
15	CAPN3	ENSG00000092529	ENST00000565559	protein_coding	PUTATIVE	None	1480	473	156	42697065	42703109	1	LGMD2, LGMD2A	CANP3, p94, nCL-1
15	CAPN3	ENSG00000092529	ENST00000565274	nonsense_mediated_decay	KNOWN	None	1480	333	110	42698130	42704061	1	LGMD2, LGMD2A	CANP3, p94, nCL-1
15	CAPN3	ENSG00000092529	ENST00000564503	protein_coding	NOVEL	None	1480	509	168	42700512	42704055	1	LGMD2, LGMD2A	CANP3, p94, nCL-1
15	CAPN3	ENSG00000092529	ENST00000466222	retained_intron	KNOWN	None	1480	None	None	42700664	42704516	1	LGMD2, LGMD2A	CANP3, p94, nCL-1
15	CAPN3	ENSG00000092529	ENST00000562199	processed_transcript	KNOWN	None	1480	None	None	42701985	42703199	1	LGMD2, LGMD2A	CANP3, p94, nCL-1
15	CAPN3	ENSG00000092529	ENST00000567817	nonsense_mediated_decay	KNOWN	None	1480	282	93	42702786	42704506	1	LGMD2, LGMD2A	CANP3, p94, nCL-1
15	CAPN3	ENSG00000092529	ENST00000568153	nonsense_mediated_decay	KNOWN	None	1480	203	66	42703082	42704445	1	LGMD2, LGMD2A	CANP3, p94, nCL-1
15	CAPN3	ENSG00000092529	ENST00000356316	protein_coding	KNOWN	None	1480	2187	728	42640301	42704515	1	LGMD2, LGMD2A	CANP3, p94, nCL-1
15	CAPN3	ENSG00000092529	ENST00000318023	protein_coding	KNOWN	None	1480	2448	815	42651783	42703971	1	LGMD2, LGMD2A	CANP3, p94, nCL-1
11	ZNF215	ENSG00000149054	ENST00000527171	processed_transcript	KNOWN	None	13007	None	None	6947635	6977336	1	None	ZKSCAN11, ZSCAN43
11	ZNF215	ENSG00000149054	ENST00000278319	protein_coding	KNOWN	CCDS7775	13007	1554	517	6947654	6979068	1	None	ZKSCAN11, ZSCAN43
11	ZNF215	ENSG00000149054	ENST00000529755	processed_transcript	KNOWN	None	13007	None	None	6947694	6977341	1	None	ZKSCAN11, ZSCAN43
11	ZNF215	ENSG00000149054	ENST00000414517	protein_coding	KNOWN	CCDS7775	13007	1554	517	6947753	6979079	1	None	ZKSCAN11, ZSCAN43
11	ZNF215	ENSG00000149054	ENST00000529903	protein_coding	NOVEL	None	13007	915	304	6953417	7005863	1	None	ZKSCAN11, ZSCAN43
11	ZNF215	ENSG00000149054	ENST00000532533	processed_transcript	KNOWN	None	13007	None	None	6964421	6977764	1	None	ZKSCAN11, ZSCAN43
1	IPP	ENSG00000197429	ENST00000359942	protein_coding	KNOWN	CCDS44132	6108	1749	582	46159996	46216322	-1	None	KLHL27
1	IPP	ENSG00000197429	ENST00000461718	processed_transcript	PUTATIVE	None	6108	None	None	46162731	46163727	-1	None	KLHL27
1	IPP	ENSG00000197429	ENST00000495072	processed_transcript	KNOWN	None	6108	None	None	46162731	46179924	-1	None	KLHL27
1	IPP	ENSG00000197429	ENST00000396478	protein_coding	KNOWN	CCDS30702	6108	1755	584	46164383	46216321	-1	None	KLHL27
19	TARM1	ENSG00000248385	ENST00000446034	protein_coding	PUTATIVE	None	37250	840	279	54573149	54579813	-1	None	None
19	TARM1	ENSG00000248385	ENST00000432826	protein_coding	KNOWN	CCDS46173	37250	816	271	54573201	54584634	-1	None	None
6	None	ENSG00000229401	ENST00000449333	lincRNA	KNOWN	None	None	None	None	10434549	10452480	1	None	None
6	None	ENSG00000229401	ENST00000366312	lincRNA	KNOWN	None	None	None	None	10434562	10457014	1	None	None
4	KIAA1211	ENSG00000109265	ENST00000264229	protein_coding	NOVEL	CCDS43230	29219	3702	1233	57036361	57193986	1	None	None
4	KIAA1211	ENSG00000109265	ENST00000503618	processed_transcript	KNOWN	None	29219	None	None	57112669	57173731	1	None	None
4	KIAA1211	ENSG00000109265	ENST00000504228	protein_coding	KNOWN	CCDS43230	29219	3702	1233	57138570	57194791	1	None	None
4	KIAA1211	ENSG00000109265	ENST00000505410	processed_transcript	KNOWN	None	29219	None	None	57175095	57177787	1	None	None
4	KIAA1211	ENSG00000109265	ENST00000514330	protein_coding	PUTATIVE	None	29219	257	84	57182829	57193869	1	None	None
4	KIAA1211	ENSG00000109265	ENST00000541073	protein_coding	KNOWN	None	29219	3681	1226	57138570	57194258	1	None	None
6	MIR5689	ENSG00000263705	ENST00000581998	miRNA	KNOWN	None	43479	None	None	10439950	10440027	1	None	hsa-mir-5689
15	MESP2	ENSG00000188095	ENST00000560219	protein_coding	PUTATIVE	None	29659	300	99	90303822	90321982	1	None	SCDO2, bHLHc6
15	MESP2	ENSG00000188095	ENST00000558723	processed_transcript	KNOWN	None	29659	None	None	90303832	90321905	1	None	SCDO2, bHLHc6
15	MESP2	ENSG00000188095	ENST00000341735	protein_coding	KNOWN	CCDS42078	29659	1194	397	90319589	90321923	1	None	SCDO2, bHLHc6
6	MRPL48P1	ENSG00000238076	ENST00000445390	processed_pseudogene	KNOWN	None	21379	None	None	10460139	10460774	-1	None	MRPL48L1, dJ290I10.4
16	METTL9	ENSG00000197006	ENST00000563026	processed_transcript	KNOWN	None	24586	None	None	21608539	21609328	1	None	DREV1
16	METTL9	ENSG00000197006	ENST00000567404	protein_coding	PUTATIVE	None	24586	729	242	21608543	21666645	1	None	DREV1
16	METTL9	ENSG00000197006	ENST00000358154	protein_coding	KNOWN	CCDS10598	24586	957	318	21610797	21668794	1	None	DREV1
16	METTL9	ENSG00000197006	ENST00000396014	protein_coding	KNOWN	CCDS45440	24586	954	317	21610879	21667440	1	None	DREV1
16	METTL9	ENSG00000197006	ENST00000562379	nonsense_mediated_decay	KNOWN	None	24586	225	74	21610913	21636435	1	None	DREV1
16	METTL9	ENSG00000197006	ENST00000570074	nonsense_mediated_decay	KNOWN	None	24586	186	61	21611039	21629330	1	None	DREV1
16	METTL9	ENSG00000197006	ENST00000562961	protein_coding	PUTATIVE	None	24586	418	138	21623421	21636436	1	None	DREV1
16	METTL9	ENSG00000197006	ENST00000568826	protein_coding	NOVEL	None	24586	376	124	21624021	21666602	1	None	DREV1
16	METTL9	ENSG00000197006	ENST00000569290	protein_coding	PUTATIVE	None	24586	385	127	21629219	21636554	1	None	DREV1
16	METTL9	ENSG00000197006	ENST00000564733	retained_intron	KNOWN	None	24586	None	None	21663190	21668792	1	None	DREV1
1	SLC30A10	ENSG00000196660	ENST00000484239	processed_transcript	KNOWN	None	25355	None	None	219858769	220131989	-1	None	DKFZp547M236, ZnT-10, ZRC1, ZNT8
1	SLC30A10	ENSG00000196660	ENST00000356609	nonsense_mediated_decay	KNOWN	None	25355	672	223	220086848	220101993	-1	None	DKFZp547M236, ZnT-10, ZRC1, ZNT8
1	SLC30A10	ENSG00000196660	ENST00000484079	processed_transcript	KNOWN	None	25355	None	None	220087606	220092372	-1	None	DKFZp547M236, ZnT-10, ZRC1, ZNT8
1	SLC30A10	ENSG00000196660	ENST00000366926	protein_coding	KNOWN	CCDS31026	25355	1458	485	220088496	220101944	-1	None	DKFZp547M236, ZnT-10, ZRC1, ZNT8
1	SLC30A10	ENSG00000196660	ENST00000536446	protein_coding	KNOWN	None	25355	723	240	220088791	220131989	-1	None	DKFZp547M236, ZnT-10, ZRC1, ZNT8
1	SLC30A10	ENSG00000196660	ENST00000536992	protein_coding	KNOWN	None	25355	672	223	220100454	220101993	-1	None	DKFZp547M236, ZnT-10, ZRC1, ZNT8
17	MPDU1	ENSG00000129255	ENST00000582151	protein_coding	PUTATIVE	None	7207	159	52	7486847	7487574	1	None	SL15, Lec35, PQLC5, CDGIf
17	MPDU1	ENSG00000129255	ENST00000250124	protein_coding	KNOWN	CCDS11115	7207	744	247	7486965	7491510	1	None	SL15, Lec35, PQLC5, CDGIf
17	MPDU1	ENSG00000129255	ENST00000572936	nonsense_mediated_decay	KNOWN	None	7207	186	61	7486984	7490999	1	None	SL15, Lec35, PQLC5, CDGIf
17	MPDU1	ENSG00000129255	ENST00000571822	nonsense_mediated_decay	KNOWN	None	7207	186	61	7487139	7491108	1	None	SL15, Lec35, PQLC5, CDGIf
17	MPDU1	ENSG00000129255	ENST00000396501	protein_coding	PUTATIVE	None	7207	579	192	7487146	7491273	1	None	SL15, Lec35, PQLC5, CDGIf
17	MPDU1	ENSG00000129255	ENST00000571391	retained_intron	KNOWN	None	7207	None	None	7487166	7489756	1	None	SL15, Lec35, PQLC5, CDGIf
17	MPDU1	ENSG00000129255	ENST00000578267	retained_intron	KNOWN	None	7207	None	None	7487166	7490279	1	None	SL15, Lec35, PQLC5, CDGIf
17	MPDU1	ENSG00000129255	ENST00000585188	retained_intron	KNOWN	None	7207	None	None	7487166	7490519	1	None	SL15, Lec35, PQLC5, CDGIf
17	MPDU1	ENSG00000129255	ENST00000359822	nonsense_mediated_decay	KNOWN	None	7207	186	61	7487167	7491014	1	None	SL15, Lec35, PQLC5, CDGIf
17	MPDU1	ENSG00000129255	ENST00000580708	nonsense_mediated_decay	KNOWN	None	7207	306	101	7487170	7489806	1	None	SL15, Lec35, PQLC5, CDGIf
17	MPDU1	ENSG00000129255	ENST00000580834	nonsense_mediated_decay	KNOWN	None	7207	330	109	7487170	7490792	1	None	SL15, Lec35, PQLC5, CDGIf
17	MPDU1	ENSG00000129255	ENST00000572836	retained_intron	KNOWN	None	7207	None	None	7487170	7491494	1	None	SL15, Lec35, PQLC5, CDGIf
17	MPDU1	ENSG00000129255	ENST00000577088	retained_intron	KNOWN	None	7207	None	None	7487170	7491495	1	None	SL15, Lec35, PQLC5, CDGIf
17	MPDU1	ENSG00000129255	ENST00000584378	protein_coding	PUTATIVE	None	7207	464	153	7487170	7495812	1	None	SL15, Lec35, PQLC5, CDGIf
17	MPDU1	ENSG00000129255	ENST00000423172	protein_coding	PUTATIVE	None	7207	561	186	7487171	7496107	1	None	SL15, Lec35, PQLC5, CDGIf
17	MPDU1	ENSG00000129255	ENST00000576066	nonsense_mediated_decay	KNOWN	None	7207	228	75	7487178	7490279	1	None	SL15, Lec35, PQLC5, CDGIf
17	MPDU1	ENSG00000129255	ENST00000584479	nonsense_mediated_decay	KNOWN	None	7207	330	109	7487178	7490361	1	None	SL15, Lec35, PQLC5, CDGIf
17	MPDU1	ENSG00000129255	ENST00000572719	nonsense_mediated_decay	KNOWN	None	7207	330	109	7487178	7491003	1	None	SL15, Lec35, PQLC5, CDGIf
17	MPDU1	ENSG00000129255	ENST00000579445	protein_coding	NOVEL	None	7207	581	192	7487180	7490561	1	None	SL15, Lec35, PQLC5, CDGIf
17	MPDU1	ENSG00000129255	ENST00000581886	retained_intron	KNOWN	None	7207	None	None	7487183	7490913	1	None	SL15, Lec35, PQLC5, CDGIf
17	MPDU1	ENSG00000129255	ENST00000575256	retained_intron	KNOWN	None	7207	None	None	7487188	7489498	1	None	SL15, Lec35, PQLC5, CDGIf
17	MPDU1	ENSG00000129255	ENST00000570458	nonsense_mediated_decay	KNOWN	None	7207	184	60	7487192	7490860	1	None	SL15, Lec35, PQLC5, CDGIf
17	MPDU1	ENSG00000129255	ENST00000585217	protein_coding	PUTATIVE	None	7207	351	116	7487193	7491505	1	None	SL15, Lec35, PQLC5, CDGIf
17	MPDU1	ENSG00000129255	ENST00000576272	nonsense_mediated_decay	KNOWN	None	7207	164	53	7487203	7490961	1	None	SL15, Lec35, PQLC5, CDGIf
17	MPDU1	ENSG00000129255	ENST00000581380	protein_coding	NOVEL	None	7207	456	151	7487211	7490576	1	None	SL15, Lec35, PQLC5, CDGIf
17	MPDU1	ENSG00000129255	ENST00000574558	nonsense_mediated_decay	KNOWN	None	7207	97	31	7487213	7491256	1	None	SL15, Lec35, PQLC5, CDGIf
17	MPDU1	ENSG00000129255	ENST00000571877	retained_intron	KNOWN	None	7207	None	None	7489787	7491135	1	None	SL15, Lec35, PQLC5, CDGIf
17	NPLOC4	ENSG00000182446	ENST00000331134	protein_coding	KNOWN	CCDS45812	18261	1827	608	79523913	79604172	-1	None	NPL4, FLJ20657, KIAA1499
17	NPLOC4	ENSG00000182446	ENST00000572760	protein_coding	PUTATIVE	None	18261	171	56	79525815	79533628	-1	None	NPL4, FLJ20657, KIAA1499
17	NPLOC4	ENSG00000182446	ENST00000574964	processed_transcript	PUTATIVE	None	18261	None	None	79526040	79527915	-1	None	NPL4, FLJ20657, KIAA1499
17	NPLOC4	ENSG00000182446	ENST00000572346	processed_transcript	PUTATIVE	None	18261	None	None	79526090	79534011	-1	None	NPL4, FLJ20657, KIAA1499
17	NPLOC4	ENSG00000182446	ENST00000573519	protein_coding	PUTATIVE	None	18261	436	144	79526117	79536090	-1	None	NPL4, FLJ20657, KIAA1499
17	NPLOC4	ENSG00000182446	ENST00000573876	protein_coding	PUTATIVE	None	18261	171	56	79526151	79533661	-1	None	NPL4, FLJ20657, KIAA1499
17	NPLOC4	ENSG00000182446	ENST00000571714	protein_coding	PUTATIVE	None	18261	549	182	79526208	79539099	-1	None	NPL4, FLJ20657, KIAA1499
17	NPLOC4	ENSG00000182446	ENST00000572824	protein_coding	NOVEL	None	18261	518	171	79526294	79536109	-1	None	NPL4, FLJ20657, KIAA1499
17	NPLOC4	ENSG00000182446	ENST00000573212	nonsense_mediated_decay	KNOWN	None	18261	333	110	79526342	79536128	-1	None	NPL4, FLJ20657, KIAA1499
17	NPLOC4	ENSG00000182446	ENST00000576713	retained_intron	KNOWN	None	18261	None	None	79526422	79539134	-1	None	NPL4, FLJ20657, KIAA1499
17	NPLOC4	ENSG00000182446	ENST00000374747	protein_coding	KNOWN	None	18261	1854	617	79528792	79604086	-1	None	NPL4, FLJ20657, KIAA1499
17	NPLOC4	ENSG00000182446	ENST00000576940	processed_transcript	PUTATIVE	None	18261	None	None	79531239	79534521	-1	None	NPL4, FLJ20657, KIAA1499
17	NPLOC4	ENSG00000182446	ENST00000574897	nonsense_mediated_decay	KNOWN	None	18261	408	135	79531935	79604105	-1	None	NPL4, FLJ20657, KIAA1499
17	NPLOC4	ENSG00000182446	ENST00000572351	processed_transcript	KNOWN	None	18261	None	None	79555117	79564345	-1	None	NPL4, FLJ20657, KIAA1499
17	NPLOC4	ENSG00000182446	ENST00000570324	nonsense_mediated_decay	KNOWN	None	18261	176	57	79571598	79580428	-1	None	NPL4, FLJ20657, KIAA1499
17	NPLOC4	ENSG00000182446	ENST00000573328	retained_intron	KNOWN	None	18261	None	None	79571635	79575938	-1	None	NPL4, FLJ20657, KIAA1499
17	NPLOC4	ENSG00000182446	ENST00000574344	processed_transcript	KNOWN	None	18261	None	None	79571690	79581407	-1	None	NPL4, FLJ20657, KIAA1499
17	NPLOC4	ENSG00000182446	ENST00000570300	processed_transcript	KNOWN	None	18261	None	None	79575837	79615495	-1	None	NPL4, FLJ20657, KIAA1499
17	NPLOC4	ENSG00000182446	ENST00000571562	processed_transcript	KNOWN	None	18261	None	None	79579705	79580373	-1	None	NPL4, FLJ20657, KIAA1499
17	NPLOC4	ENSG00000182446	ENST00000574095	processed_transcript	KNOWN	None	18261	None	None	79603423	79604136	-1	None	NPL4, FLJ20657, KIAA1499
17	NPLOC4	ENSG00000182446	ENST00000539314	protein_coding	KNOWN	None	18261	1371	456	79531935	79604105	-1	None	NPL4, FLJ20657, KIAA1499
3	OXSM	ENSG00000151093	ENST00000460195	processed_transcript	PUTATIVE	None	26063	None	None	25824408	25825600	1	None	KS, FLJ20604, FASN2D
3	OXSM	ENSG00000151093	ENST00000464688	processed_transcript	PUTATIVE	None	26063	None	None	25824530	25831477	1	None	KS, FLJ20604, FASN2D
3	OXSM	ENSG00000151093	ENST00000452098	protein_coding	KNOWN	None	26063	660	219	25824564	25833171	1	None	KS, FLJ20604, FASN2D
3	OXSM	ENSG00000151093	ENST00000280701	protein_coding	KNOWN	CCDS2643	26063	1380	459	25831571	25836025	1	None	KS, FLJ20604, FASN2D
3	OXSM	ENSG00000151093	ENST00000448177	nonsense_mediated_decay	KNOWN	None	26063	309	102	25831581	25836014	1	None	KS, FLJ20604, FASN2D
3	OXSM	ENSG00000151093	ENST00000420173	protein_coding	NOVEL	CCDS46780	26063	1131	376	25831585	25836025	1	None	KS, FLJ20604, FASN2D
3	OXSM	ENSG00000151093	ENST00000449808	processed_transcript	KNOWN	None	26063	None	None	25831971	25833332	1	None	KS, FLJ20604, FASN2D
3	OXSM	ENSG00000151093	ENST00000428266	protein_coding	KNOWN	None	26063	694	230	25832277	25833205	1	None	KS, FLJ20604, FASN2D
19	FBL	ENSG00000105202	ENST00000595545	protein_coding	PUTATIVE	None	3599	690	229	40325098	40331081	-1	None	RNU3IP1, FLRN, FIB
19	FBL	ENSG00000105202	ENST00000221801	protein_coding	KNOWN	CCDS12545	3599	966	321	40325098	40337054	-1	None	RNU3IP1, FLRN, FIB
19	FBL	ENSG00000105202	ENST00000593503	processed_transcript	KNOWN	None	3599	None	None	40325100	40328731	-1	None	RNU3IP1, FLRN, FIB
19	FBL	ENSG00000105202	ENST00000594443	nonsense_mediated_decay	KNOWN	None	3599	123	40	40325143	40337010	-1	None	RNU3IP1, FLRN, FIB
19	FBL	ENSG00000105202	ENST00000597224	protein_coding	NOVEL	None	3599	732	243	40325331	40331362	-1	None	RNU3IP1, FLRN, FIB
19	FBL	ENSG00000105202	ENST00000601274	protein_coding	NOVEL	None	3599	820	272	40325357	40336997	-1	None	RNU3IP1, FLRN, FIB
19	FBL	ENSG00000105202	ENST00000597634	protein_coding	NOVEL	None	3599	684	227	40327196	40336982	-1	None	RNU3IP1, FLRN, FIB
19	FBL	ENSG00000105202	ENST00000598417	protein_coding	NOVEL	None	3599	534	177	40328460	40336987	-1	None	RNU3IP1, FLRN, FIB
19	FBL	ENSG00000105202	ENST00000599159	retained_intron	KNOWN	None	3599	None	None	40328900	40337016	-1	None	RNU3IP1, FLRN, FIB
19	FBL	ENSG00000105202	ENST00000594309	protein_coding	NOVEL	None	3599	546	181	40329675	40336997	-1	None	RNU3IP1, FLRN, FIB
19	FBL	ENSG00000105202	ENST00000599134	protein_coding	NOVEL	None	3599	471	156	40329714	40336969	-1	None	RNU3IP1, FLRN, FIB
2	CERKL	ENSG00000188452	ENST00000410087	protein_coding	KNOWN	CCDS46466	21699	1599	532	182401403	182521834	-1	RP26	None
2	CERKL	ENSG00000188452	ENST00000409440	protein_coding	NOVEL	CCDS54425	21699	1545	514	182402132	182521834	-1	RP26	None
2	CERKL	ENSG00000188452	ENST00000374969	protein_coding	KNOWN	CCDS33340	21699	1260	419	182402841	182521733	-1	RP26	None
2	CERKL	ENSG00000188452	ENST00000452174	nonsense_mediated_decay	KNOWN	None	21699	522	173	182402911	182521733	-1	RP26	None
2	CERKL	ENSG00000188452	ENST00000339098	protein_coding	KNOWN	CCDS42789	21699	1677	558	182402911	182521733	-1	RP26	None
2	CERKL	ENSG00000188452	ENST00000374970	protein_coding	KNOWN	CCDS33341	21699	1392	463	182402911	182521733	-1	RP26	None
2	CERKL	ENSG00000188452	ENST00000374967	nonsense_mediated_decay	KNOWN	None	21699	654	217	182402911	182521733	-1	RP26	None
2	CERKL	ENSG00000188452	ENST00000494398	retained_intron	KNOWN	None	21699	None	None	182402911	182521733	-1	RP26	None
2	CERKL	ENSG00000188452	ENST00000421817	nonsense_mediated_decay	KNOWN	None	21699	522	173	182402911	182521751	-1	RP26	None
2	CERKL	ENSG00000188452	ENST00000479558	processed_transcript	KNOWN	None	21699	None	None	182409455	182545392	-1	RP26	None
2	CERKL	ENSG00000188452	ENST00000466715	processed_transcript	KNOWN	None	21699	None	None	182423379	182514804	-1	RP26	None
2	CERKL	ENSG00000188452	ENST00000460319	processed_transcript	KNOWN	None	21699	None	None	182430785	182514463	-1	RP26	None
2	CERKL	ENSG00000188452	ENST00000476070	processed_transcript	KNOWN	None	21699	None	None	182430789	182521843	-1	RP26	None
2	CERKL	ENSG00000188452	ENST00000497337	processed_transcript	KNOWN	None	21699	None	None	182468590	182545368	-1	RP26	None
4	SPATA4	ENSG00000150628	ENST00000280191	protein_coding	KNOWN	CCDS3826	17333	918	305	177105789	177116822	-1	None	TSARG2, SPEF1B
4	SPATA4	ENSG00000150628	ENST00000515234	protein_coding	PUTATIVE	None	17333	399	132	177105811	177116028	-1	None	TSARG2, SPEF1B
4	SPATA4	ENSG00000150628	ENST00000508699	nonsense_mediated_decay	KNOWN	None	17333	231	76	177114123	177116692	-1	None	TSARG2, SPEF1B
3	KY	ENSG00000174611	ENST00000508956	protein_coding	NOVEL	None	26576	1923	640	134321980	134369860	-1	None	FLJ33207
3	KY	ENSG00000174611	ENST00000423778	protein_coding	KNOWN	CCDS46920	26576	1986	661	134322124	134369864	-1	None	FLJ33207
3	KY	ENSG00000174611	ENST00000503669	protein_coding	NOVEL	None	26576	927	308	134322274	134369863	-1	None	FLJ33207
3	KY	ENSG00000174611	ENST00000506319	retained_intron	KNOWN	None	26576	None	None	134325843	134370478	-1	None	FLJ33207
3	KY	ENSG00000174611	ENST00000508041	processed_transcript	KNOWN	None	26576	None	None	134331802	134346845	-1	None	FLJ33207
15	ANPEP	ENSG00000166825	ENST00000300060	protein_coding	KNOWN	CCDS10356	500	2904	967	90328120	90358094	-1	CD13, PEPN	LAP1, gp150, p150
15	ANPEP	ENSG00000166825	ENST00000558740	retained_intron	KNOWN	None	500	None	None	90334184	90336418	-1	CD13, PEPN	LAP1, gp150, p150
15	ANPEP	ENSG00000166825	ENST00000559761	retained_intron	KNOWN	None	500	None	None	90340676	90342791	-1	CD13, PEPN	LAP1, gp150, p150
15	ANPEP	ENSG00000166825	ENST00000558177	processed_transcript	KNOWN	None	500	None	None	90340806	90345967	-1	CD13, PEPN	LAP1, gp150, p150
15	ANPEP	ENSG00000166825	ENST00000560030	nonsense_mediated_decay	KNOWN	None	500	369	122	90340890	90347200	-1	CD13, PEPN	LAP1, gp150, p150
15	ANPEP	ENSG00000166825	ENST00000559887	retained_intron	KNOWN	None	500	None	None	90347216	90348082	-1	CD13, PEPN	LAP1, gp150, p150
15	ANPEP	ENSG00000166825	ENST00000560028	nonsense_mediated_decay	KNOWN	None	500	198	65	90347508	90348603	-1	CD13, PEPN	LAP1, gp150, p150
15	ANPEP	ENSG00000166825	ENST00000559874	protein_coding	KNOWN	None	500	311	102	90349504	90358633	-1	CD13, PEPN	LAP1, gp150, p150
15	ANPEP	ENSG00000166825	ENST00000560137	protein_coding	KNOWN	None	500	183	60	90349632	90358096	-1	CD13, PEPN	LAP1, gp150, p150
5	S100Z	ENSG00000171643	ENST00000513010	protein_coding	KNOWN	CCDS43333	30367	300	99	76145826	76174044	1	None	Gm625, S100-zeta
5	S100Z	ENSG00000171643	ENST00000317593	protein_coding	KNOWN	CCDS43333	30367	300	99	76145924	76217475	1	None	Gm625, S100-zeta
X	DLG3	ENSG00000082458	ENST00000194900	protein_coding	KNOWN	None	2902	2550	849	69664711	69725337	1	None	NE-Dlg, SAP102, SAP-102, NEDLG, KIAA1232, MRX90
X	DLG3	ENSG00000082458	ENST00000374360	protein_coding	KNOWN	CCDS14403	2902	2454	817	69664819	69725337	1	None	NE-Dlg, SAP102, SAP-102, NEDLG, KIAA1232, MRX90
X	DLG3	ENSG00000082458	ENST00000463252	retained_intron	KNOWN	None	2902	None	None	69664986	69723796	1	None	NE-Dlg, SAP102, SAP-102, NEDLG, KIAA1232, MRX90
X	DLG3	ENSG00000082458	ENST00000374355	protein_coding	PUTATIVE	CCDS43967	2902	1539	512	69672155	69725337	1	None	NE-Dlg, SAP102, SAP-102, NEDLG, KIAA1232, MRX90
X	DLG3	ENSG00000082458	ENST00000489733	processed_transcript	KNOWN	None	2902	None	None	69674953	69718408	1	None	NE-Dlg, SAP102, SAP-102, NEDLG, KIAA1232, MRX90
X	DLG3	ENSG00000082458	ENST00000494493	processed_transcript	KNOWN	None	2902	None	None	69674957	69712087	1	None	NE-Dlg, SAP102, SAP-102, NEDLG, KIAA1232, MRX90
X	DLG3	ENSG00000082458	ENST00000466140	processed_transcript	KNOWN	None	2902	None	None	69698968	69719753	1	None	NE-Dlg, SAP102, SAP-102, NEDLG, KIAA1232, MRX90
X	DLG3	ENSG00000082458	ENST00000461646	processed_transcript	KNOWN	None	2902	None	None	69717015	69722221	1	None	NE-Dlg, SAP102, SAP-102, NEDLG, KIAA1232, MRX90
X	DLG3	ENSG00000082458	ENST00000496931	retained_intron	KNOWN	None	2902	None	None	69719815	69720839	1	None	NE-Dlg, SAP102, SAP-102, NEDLG, KIAA1232, MRX90
X	DLG3	ENSG00000082458	ENST00000542398	protein_coding	KNOWN	CCDS55439	2902	1101	366	69674946	69725335	1	None	NE-Dlg, SAP102, SAP-102, NEDLG, KIAA1232, MRX90
19	None	ENSG00000268400	ENST00000598664	nonsense_mediated_decay	KNOWN	None	None	186	61	7694682	7707934	1	None	None
19	None	ENSG00000268400	ENST00000599243	nonsense_mediated_decay	KNOWN	None	None	156	51	7694698	7704693	1	None	None
19	None	ENSG00000268400	ENST00000595866	nonsense_mediated_decay	KNOWN	None	None	145	47	7694722	7707004	1	None	None
1	TUFT1	ENSG00000143367	ENST00000368849	protein_coding	KNOWN	CCDS1000	12422	1173	390	151512781	151556059	1	None	None
1	TUFT1	ENSG00000143367	ENST00000392712	protein_coding	NOVEL	None	12422	1008	335	151512781	151556059	1	None	None
1	TUFT1	ENSG00000143367	ENST00000368848	protein_coding	KNOWN	CCDS44223	12422	1098	365	151512784	151556059	1	None	None
1	TUFT1	ENSG00000143367	ENST00000498606	retained_intron	KNOWN	None	12422	None	None	151512810	151542302	1	None	None
1	TUFT1	ENSG00000143367	ENST00000461859	retained_intron	KNOWN	None	12422	None	None	151534998	151537497	1	None	None
1	TUFT1	ENSG00000143367	ENST00000490156	retained_intron	KNOWN	None	12422	None	None	151538398	151547403	1	None	None
1	TUFT1	ENSG00000143367	ENST00000353024	protein_coding	KNOWN	None	12422	996	331	151512781	151556058	1	None	None
1	TUFT1	ENSG00000143367	ENST00000538902	protein_coding	KNOWN	None	12422	1230	409	151512785	151554580	1	None	None
9	EDF1	ENSG00000107223	ENST00000371649	protein_coding	KNOWN	None	3164	426	141	139756571	139760737	-1	None	EDF-1
9	EDF1	ENSG00000107223	ENST00000224073	protein_coding	KNOWN	CCDS7011	3164	447	148	139756571	139760738	-1	None	EDF-1
9	EDF1	ENSG00000107223	ENST00000371648	protein_coding	KNOWN	CCDS7012	3164	420	139	139756942	139760718	-1	None	EDF-1
1	EPRS	ENSG00000136628	ENST00000366923	protein_coding	KNOWN	CCDS31027	3418	4539	1512	220141943	220220000	-1	QPRS, QARS	EARS, PARS, GLUPRORS
1	EPRS	ENSG00000136628	ENST00000468487	processed_transcript	KNOWN	None	3418	None	None	220142031	220142589	-1	QPRS, QARS	EARS, PARS, GLUPRORS
1	EPRS	ENSG00000136628	ENST00000485821	processed_transcript	KNOWN	None	3418	None	None	220155852	220157600	-1	QPRS, QARS	EARS, PARS, GLUPRORS
1	EPRS	ENSG00000136628	ENST00000464052	processed_transcript	KNOWN	None	3418	None	None	220170518	220180707	-1	QPRS, QARS	EARS, PARS, GLUPRORS
1	EPRS	ENSG00000136628	ENST00000477030	processed_transcript	KNOWN	None	3418	None	None	220205728	220219798	-1	QPRS, QARS	EARS, PARS, GLUPRORS
6	None	ENSG00000231056	ENST00000431401	lincRNA	KNOWN	None	None	None	None	10474733	10478735	-1	None	None
1	MAST2	ENSG00000086015	ENST00000470809	processed_transcript	KNOWN	None	19035	None	None	46252659	46383181	1	None	MAST205, KIAA0807
1	MAST2	ENSG00000086015	ENST00000361297	protein_coding	KNOWN	CCDS41326	19035	5397	1798	46269285	46501796	1	None	MAST205, KIAA0807
1	MAST2	ENSG00000086015	ENST00000372008	protein_coding	KNOWN	None	19035	2379	792	46379260	46501795	1	None	MAST205, KIAA0807
1	MAST2	ENSG00000086015	ENST00000482881	retained_intron	KNOWN	None	19035	None	None	46425058	46476781	1	None	MAST205, KIAA0807
1	MAST2	ENSG00000086015	ENST00000488619	retained_intron	KNOWN	None	19035	None	None	46468483	46472267	1	None	MAST205, KIAA0807
1	MAST2	ENSG00000086015	ENST00000467367	processed_transcript	KNOWN	None	19035	None	None	46487637	46490036	1	None	MAST205, KIAA0807
1	MAST2	ENSG00000086015	ENST00000498668	processed_transcript	PUTATIVE	None	19035	None	None	46488582	46489188	1	None	MAST205, KIAA0807
1	MAST2	ENSG00000086015	ENST00000477968	processed_transcript	KNOWN	None	19035	None	None	46494837	46496174	1	None	MAST205, KIAA0807
1	MAST2	ENSG00000086015	ENST00000492813	processed_transcript	PUTATIVE	None	19035	None	None	46499540	46500092	1	None	MAST205, KIAA0807
1	MAST2	ENSG00000086015	ENST00000372009	protein_coding	KNOWN	None	19035	4827	1608	46269285	46501738	1	None	MAST205, KIAA0807
6	None	ENSG00000237685	ENST00000413129	antisense	KNOWN	None	None	None	None	10511269	10514779	-1	None	None
6	LTA	ENSG00000226979	ENST00000454783	protein_coding	KNOWN	CCDS4701	6709	618	205	31539831	31542101	1	TNFB	TNFSF1, LT
6	LTA	ENSG00000226979	ENST00000489638	retained_intron	KNOWN	None	6709	None	None	31540047	31542101	1	TNFB	TNFSF1, LT
6	LTA	ENSG00000226979	ENST00000418386	protein_coding	KNOWN	CCDS4701	6709	618	205	31540060	31542101	1	TNFB	TNFSF1, LT
6	LTA	ENSG00000226979	ENST00000471842	retained_intron	KNOWN	None	6709	None	None	31540071	31542101	1	TNFB	TNFSF1, LT
19	RLN3	ENSG00000171136	ENST00000431365	protein_coding	KNOWN	CCDS12302	17135	429	142	14138960	14141854	1	None	ZINS4, RXN3, H3
19	RLN3	ENSG00000171136	ENST00000585987	protein_coding	PUTATIVE	None	17135	330	109	14139017	14141760	1	None	ZINS4, RXN3, H3
11	TRIM64C	ENSG00000214891	ENST00000530230	protein_coding	KNOWN	None	37148	1344	447	49075266	49080664	-1	None	None
7	ZNF92	ENSG00000146757	ENST00000328747	protein_coding	KNOWN	CCDS34646	13168	1761	586	64838712	64866038	1	None	HPF12, TF12
7	ZNF92	ENSG00000146757	ENST00000488849	retained_intron	KNOWN	None	13168	None	None	64838751	64853233	1	None	HPF12, TF12
7	ZNF92	ENSG00000146757	ENST00000431504	protein_coding	PUTATIVE	None	13168	1533	510	64838752	64866038	1	None	HPF12, TF12
7	ZNF92	ENSG00000146757	ENST00000450302	protein_coding	KNOWN	CCDS47596	13168	1554	517	64838794	64865994	1	None	HPF12, TF12
7	ZNF92	ENSG00000146757	ENST00000357512	protein_coding	KNOWN	None	13168	1665	554	64838768	64865997	1	None	HPF12, TF12
19	IL27RA	ENSG00000104998	ENST00000263379	protein_coding	KNOWN	CCDS12303	17290	1911	636	14142560	14163743	1	None	WSX-1, TCCR, CRL1, WSX1, zcytor1, IL-27R
2	None	ENSG00000258881	ENST00000606025	protein_coding	PUTATIVE	None	None	594	197	71166448	71222466	-1	None	None
2	None	ENSG00000258881	ENST00000453130	nonsense_mediated_decay	KNOWN	None	None	148	48	71174670	71221879	-1	None	None
14	L3HYPDH	ENSG00000126790	ENST00000466522	processed_transcript	KNOWN	None	20488	None	None	59927081	59942616	-1	C14orf149	FLJ25436
14	L3HYPDH	ENSG00000126790	ENST00000247194	protein_coding	KNOWN	CCDS9739	20488	1065	354	59939335	59951148	-1	C14orf149	FLJ25436
14	L3HYPDH	ENSG00000126790	ENST00000463432	processed_transcript	KNOWN	None	20488	None	None	59939579	59942829	-1	C14orf149	FLJ25436
14	L3HYPDH	ENSG00000126790	ENST00000478430	retained_intron	KNOWN	None	20488	None	None	59939581	59941657	-1	C14orf149	FLJ25436
14	L3HYPDH	ENSG00000126790	ENST00000532049	retained_intron	KNOWN	None	20488	None	None	59939583	59941831	-1	C14orf149	FLJ25436
14	L3HYPDH	ENSG00000126790	ENST00000543619	processed_transcript	PUTATIVE	None	20488	None	None	59939689	59941926	-1	C14orf149	FLJ25436
14	L3HYPDH	ENSG00000126790	ENST00000487285	protein_coding	PUTATIVE	None	20488	438	145	59941172	59950403	-1	C14orf149	FLJ25436
14	L3HYPDH	ENSG00000126790	ENST00000481608	protein_coding	PUTATIVE	None	20488	426	141	59942587	59950724	-1	C14orf149	FLJ25436
14	L3HYPDH	ENSG00000126790	ENST00000527981	retained_intron	KNOWN	None	20488	None	None	59945444	59951126	-1	C14orf149	FLJ25436
7	MRPS24	ENSG00000062582	ENST00000317534	protein_coding	KNOWN	CCDS5473	14510	504	167	43906157	43909156	-1	None	MRP-S24, HSPC335
7	MRPS24	ENSG00000062582	ENST00000418740	nonsense_mediated_decay	KNOWN	None	14510	90	29	43906161	43909116	-1	None	MRP-S24, HSPC335
7	MRPS24	ENSG00000062582	ENST00000483330	retained_intron	KNOWN	None	14510	None	None	43906377	43908748	-1	None	MRP-S24, HSPC335
7	MRPS24	ENSG00000062582	ENST00000467084	processed_transcript	KNOWN	None	14510	None	None	43906404	43909492	-1	None	MRP-S24, HSPC335
7	MRPS24	ENSG00000062582	ENST00000414932	nonsense_mediated_decay	KNOWN	None	14510	90	29	43907147	43909106	-1	None	MRP-S24, HSPC335
4	ASB5	ENSG00000164122	ENST00000296525	protein_coding	KNOWN	CCDS3827	17180	990	329	177134824	177190373	-1	None	None
4	ASB5	ENSG00000164122	ENST00000512254	protein_coding	PUTATIVE	None	17180	831	276	177136724	177162827	-1	None	None
4	ASB5	ENSG00000164122	ENST00000511879	processed_transcript	KNOWN	None	17180	None	None	177142669	177158725	-1	None	None
4	ASB5	ENSG00000164122	ENST00000510578	processed_transcript	PUTATIVE	None	17180	None	None	177146432	177170709	-1	None	None
4	ASB5	ENSG00000164122	ENST00000505299	protein_coding	KNOWN	None	17180	60	19	177190200	177198722	-1	None	None
11	ZNF214	ENSG00000149050	ENST00000278314	protein_coding	KNOWN	CCDS31418	13006	1821	606	7020549	7041599	-1	None	None
11	ZNF214	ENSG00000149050	ENST00000531083	processed_transcript	KNOWN	None	13006	None	None	7022679	7041545	-1	None	None
11	ZNF214	ENSG00000149050	ENST00000525017	processed_transcript	PUTATIVE	None	13006	None	None	7037051	7041573	-1	None	None
11	ZNF214	ENSG00000149050	ENST00000536068	protein_coding	KNOWN	CCDS31418	13006	1821	606	7020594	7041466	-1	None	None
19	OSCAR	ENSG00000170909	ENST00000391761	protein_coding	PUTATIVE	None	29960	816	271	54597933	54604083	-1	None	None
19	OSCAR	ENSG00000170909	ENST00000356532	protein_coding	KNOWN	CCDS12873	29960	804	267	54597935	54604083	-1	None	None
19	OSCAR	ENSG00000170909	ENST00000359649	protein_coding	PUTATIVE	CCDS12876	29960	861	286	54597935	54604106	-1	None	None
19	OSCAR	ENSG00000170909	ENST00000358375	protein_coding	KNOWN	CCDS12875	29960	792	263	54597935	54604129	-1	None	None
19	OSCAR	ENSG00000170909	ENST00000351806	protein_coding	KNOWN	CCDS12874	29960	759	252	54597935	54604148	-1	None	None
19	OSCAR	ENSG00000170909	ENST00000284648	protein_coding	NOVEL	None	29960	849	282	54597935	54606000	-1	None	None
19	OSCAR	ENSG00000170909	ENST00000391760	protein_coding	PUTATIVE	None	29960	486	161	54599039	54604132	-1	None	None
2	ANKRD53	ENSG00000144031	ENST00000272421	protein_coding	KNOWN	CCDS1913	25691	1032	343	71205510	71212626	1	None	FLJ12056, FLJ36160
2	ANKRD53	ENSG00000144031	ENST00000441349	protein_coding	NOVEL	None	25691	765	254	71205582	71212580	1	None	FLJ12056, FLJ36160
2	ANKRD53	ENSG00000144031	ENST00000457410	protein_coding	PUTATIVE	None	25691	1491	496	71205637	71212471	1	None	FLJ12056, FLJ36160
2	ANKRD53	ENSG00000144031	ENST00000360589	protein_coding	PUTATIVE	CCDS46321	25691	1593	530	71205742	71212469	1	None	FLJ12056, FLJ36160
2	ANKRD53	ENSG00000144031	ENST00000483334	retained_intron	KNOWN	None	25691	None	None	71206137	71209825	1	None	FLJ12056, FLJ36160
2	ANKRD53	ENSG00000144031	ENST00000496088	retained_intron	KNOWN	None	25691	None	None	71206141	71209097	1	None	FLJ12056, FLJ36160
2	ANKRD53	ENSG00000144031	ENST00000460927	retained_intron	KNOWN	None	25691	None	None	71209456	71211355	1	None	FLJ12056, FLJ36160
14	FBXO33	ENSG00000165355	ENST00000298097	protein_coding	KNOWN	CCDS9677	19833	1668	555	39866873	39901704	-1	None	Fbx33
14	FBXO33	ENSG00000165355	ENST00000554190	protein_coding	PUTATIVE	None	19833	270	89	39868770	39901079	-1	None	Fbx33
14	FBXO33	ENSG00000165355	ENST00000554932	protein_coding	KNOWN	None	19833	7	1	39900976	39901670	-1	None	Fbx33
5	CRHBP	ENSG00000145708	ENST00000274368	protein_coding	KNOWN	CCDS4034	2356	969	322	76248538	76265299	1	None	CRF-BP, CRFBP
5	CRHBP	ENSG00000145708	ENST00000506501	protein_coding	PUTATIVE	None	2356	717	238	76248874	76254847	1	None	CRF-BP, CRFBP
5	CRHBP	ENSG00000145708	ENST00000512446	retained_intron	KNOWN	None	2356	None	None	76249242	76254669	1	None	CRF-BP, CRFBP
5	CRHBP	ENSG00000145708	ENST00000514258	processed_transcript	KNOWN	None	2356	None	None	76254522	76276983	1	None	CRF-BP, CRFBP
5	CRHBP	ENSG00000145708	ENST00000503763	retained_intron	KNOWN	None	2356	None	None	76259060	76264781	1	None	CRF-BP, CRFBP
2	NEUROD1	ENSG00000162992	ENST00000496876	processed_transcript	KNOWN	None	7762	None	None	182537815	182545274	-1	NEUROD	BETA2, BHF-1, NeuroD, bHLHa3, MODY6
2	NEUROD1	ENSG00000162992	ENST00000295108	protein_coding	KNOWN	CCDS2283	7762	1071	356	182541194	182545603	-1	NEUROD	BETA2, BHF-1, NeuroD, bHLHa3, MODY6
8	FZD3	ENSG00000104290	ENST00000523546	protein_coding	KNOWN	None	4041	106	34	28351731	28360636	1	None	None
8	FZD3	ENSG00000104290	ENST00000240093	protein_coding	KNOWN	CCDS6069	4041	2001	666	28351773	28431775	1	None	None
8	FZD3	ENSG00000104290	ENST00000517911	processed_transcript	PUTATIVE	None	4041	None	None	28420580	28421498	1	None	None
8	FZD3	ENSG00000104290	ENST00000537916	protein_coding	KNOWN	CCDS6069	4041	2001	666	28351729	28421152	1	None	None
5	CYFIP2	ENSG00000055163	ENST00000523969	nonsense_mediated_decay	KNOWN	None	13760	288	95	156693089	156820241	1	None	PIR121
5	CYFIP2	ENSG00000055163	ENST00000520759	nonsense_mediated_decay	KNOWN	None	13760	288	95	156693091	156820232	1	None	PIR121
5	CYFIP2	ENSG00000055163	ENST00000522463	protein_coding	NOVEL	None	13760	3174	1057	156693133	156820215	1	None	PIR121
5	CYFIP2	ENSG00000055163	ENST00000523119	nonsense_mediated_decay	KNOWN	None	13760	288	95	156693133	156820231	1	None	PIR121
5	CYFIP2	ENSG00000055163	ENST00000522637	nonsense_mediated_decay	KNOWN	None	13760	207	68	156693138	156731282	1	None	PIR121
5	CYFIP2	ENSG00000055163	ENST00000521420	protein_coding	NOVEL	None	13760	3684	1227	156693138	156822603	1	None	PIR121
5	CYFIP2	ENSG00000055163	ENST00000519002	nonsense_mediated_decay	KNOWN	None	13760	288	95	156693146	156731790	1	None	PIR121
5	CYFIP2	ENSG00000055163	ENST00000519252	nonsense_mediated_decay	KNOWN	None	13760	288	95	156693149	156734872	1	None	PIR121
5	CYFIP2	ENSG00000055163	ENST00000520419	nonsense_mediated_decay	KNOWN	None	13760	288	95	156693184	156727901	1	None	PIR121
5	CYFIP2	ENSG00000055163	ENST00000522423	nonsense_mediated_decay	KNOWN	None	13760	288	95	156693721	156729898	1	None	PIR121
5	CYFIP2	ENSG00000055163	ENST00000519153	nonsense_mediated_decay	KNOWN	None	13760	288	95	156696352	156820237	1	None	PIR121
5	CYFIP2	ENSG00000055163	ENST00000518456	processed_transcript	PUTATIVE	None	13760	None	None	156696385	156698586	1	None	PIR121
5	CYFIP2	ENSG00000055163	ENST00000517850	nonsense_mediated_decay	KNOWN	None	13760	216	71	156704069	156731308	1	None	PIR121
5	CYFIP2	ENSG00000055163	ENST00000517753	nonsense_mediated_decay	KNOWN	None	13760	288	95	156712346	156820232	1	None	PIR121
5	CYFIP2	ENSG00000055163	ENST00000518511	retained_intron	KNOWN	None	13760	None	None	156727826	156730131	1	None	PIR121
5	CYFIP2	ENSG00000055163	ENST00000520942	retained_intron	KNOWN	None	13760	None	None	156738046	156741378	1	None	PIR121
5	CYFIP2	ENSG00000055163	ENST00000520960	processed_transcript	KNOWN	None	13760	None	None	156750927	156755018	1	None	PIR121
5	CYFIP2	ENSG00000055163	ENST00000518555	retained_intron	KNOWN	None	13760	None	None	156752608	156755057	1	None	PIR121
5	CYFIP2	ENSG00000055163	ENST00000520424	retained_intron	KNOWN	None	13760	None	None	156754933	156768102	1	None	PIR121
5	CYFIP2	ENSG00000055163	ENST00000522892	retained_intron	KNOWN	None	13760	None	None	156788413	156810588	1	None	PIR121
5	CYFIP2	ENSG00000055163	ENST00000523383	retained_intron	KNOWN	None	13760	None	None	156810240	156820241	1	None	PIR121
5	CYFIP2	ENSG00000055163	ENST00000524058	retained_intron	KNOWN	None	13760	None	None	156810246	156816636	1	None	PIR121
5	CYFIP2	ENSG00000055163	ENST00000519663	retained_intron	KNOWN	None	13760	None	None	156810264	156820241	1	None	PIR121
5	CYFIP2	ENSG00000055163	ENST00000522884	retained_intron	KNOWN	None	13760	None	None	156811314	156816550	1	None	PIR121
5	CYFIP2	ENSG00000055163	ENST00000522775	retained_intron	KNOWN	None	13760	None	None	156811314	156817646	1	None	PIR121
5	CYFIP2	ENSG00000055163	ENST00000318218	protein_coding	KNOWN	None	13760	3837	1278	156693091	156822606	1	None	PIR121
5	CYFIP2	ENSG00000055163	ENST00000347377	protein_coding	KNOWN	None	13760	3762	1253	156693187	156822606	1	None	PIR121
5	CYFIP2	ENSG00000055163	ENST00000377576	protein_coding	KNOWN	None	13760	3762	1253	156696362	156822606	1	None	PIR121
5	CYFIP2	ENSG00000055163	ENST00000541131	protein_coding	KNOWN	None	13760	3537	1178	156712372	156822606	1	None	PIR121
5	CYFIP2	ENSG00000055163	ENST00000435847	protein_coding	KNOWN	None	13760	2859	952	156738045	156822606	1	None	PIR121
5	CYFIP2	ENSG00000055163	ENST00000442283	protein_coding	KNOWN	None	13760	651	216	156693091	156820215	1	None	PIR121
11	FTH1	ENSG00000167996	ENST00000529191	protein_coding	PUTATIVE	None	3976	309	102	61727190	61735103	-1	FTHL6	FTH, PLIF, PIG15, FHC
11	FTH1	ENSG00000167996	ENST00000529631	protein_coding	PUTATIVE	None	3976	246	81	61727190	61735103	-1	FTHL6	FTH, PLIF, PIG15, FHC
11	FTH1	ENSG00000167996	ENST00000530019	protein_coding	PUTATIVE	None	3976	344	113	61727294	61735103	-1	FTHL6	FTH, PLIF, PIG15, FHC
11	FTH1	ENSG00000167996	ENST00000273550	protein_coding	KNOWN	CCDS41655	3976	552	183	61731757	61735132	-1	FTHL6	FTH, PLIF, PIG15, FHC
11	FTH1	ENSG00000167996	ENST00000532829	nonsense_mediated_decay	KNOWN	None	3976	288	95	61732038	61735103	-1	FTHL6	FTH, PLIF, PIG15, FHC
11	FTH1	ENSG00000167996	ENST00000534180	nonsense_mediated_decay	KNOWN	None	3976	153	50	61732038	61735105	-1	FTHL6	FTH, PLIF, PIG15, FHC
11	FTH1	ENSG00000167996	ENST00000526640	protein_coding	NOVEL	None	3976	462	153	61732057	61735079	-1	FTHL6	FTH, PLIF, PIG15, FHC
11	FTH1	ENSG00000167996	ENST00000532601	protein_coding	PUTATIVE	None	3976	342	113	61732073	61734638	-1	FTHL6	FTH, PLIF, PIG15, FHC
11	FTH1	ENSG00000167996	ENST00000534719	retained_intron	KNOWN	None	3976	None	None	61732219	61735058	-1	FTHL6	FTH, PLIF, PIG15, FHC
11	FTH1	ENSG00000167996	ENST00000533138	retained_intron	KNOWN	None	3976	None	None	61732310	61735085	-1	FTHL6	FTH, PLIF, PIG15, FHC
11	FTH1	ENSG00000167996	ENST00000529548	protein_coding	PUTATIVE	None	3976	175	57	61732461	61735103	-1	FTHL6	FTH, PLIF, PIG15, FHC
19	PCP2	ENSG00000174788	ENST00000598935	protein_coding	PUTATIVE	None	30209	363	120	7696497	7697857	-1	None	MGC41903, GPSM4
19	PCP2	ENSG00000174788	ENST00000311069	protein_coding	KNOWN	CCDS32893	30209	411	136	7696501	7698634	-1	None	MGC41903, GPSM4
1	SNX27	ENSG00000143376	ENST00000368841	nonsense_mediated_decay	KNOWN	None	20073	198	65	151584541	151671554	1	None	MY014, KIAA0488, MGC20471
1	SNX27	ENSG00000143376	ENST00000458013	protein_coding	NOVEL	None	20073	1626	541	151584558	151671550	1	None	MY014, KIAA0488, MGC20471
1	SNX27	ENSG00000143376	ENST00000368843	protein_coding	KNOWN	CCDS1001	20073	1587	528	151584558	151671567	1	None	MY014, KIAA0488, MGC20471
1	SNX27	ENSG00000143376	ENST00000368838	protein_coding	KNOWN	None	20073	1308	435	151611332	151666077	1	None	MY014, KIAA0488, MGC20471
1	SNX27	ENSG00000143376	ENST00000482791	processed_transcript	KNOWN	None	20073	None	None	151634720	151641837	1	None	MY014, KIAA0488, MGC20471
6	None	ENSG00000216359	ENST00000401900	processed_pseudogene	KNOWN	None	None	None	None	10514515	10515206	1	None	None
2	TEX261	ENSG00000144043	ENST00000272438	protein_coding	KNOWN	CCDS1914	30712	591	196	71213068	71222075	-1	None	MGC32043, TEG-261
2	TEX261	ENSG00000144043	ENST00000478068	retained_intron	KNOWN	None	30712	None	None	71213074	71216851	-1	None	MGC32043, TEG-261
2	TEX261	ENSG00000144043	ENST00000433258	nonsense_mediated_decay	KNOWN	None	30712	156	51	71215484	71221962	-1	None	MGC32043, TEG-261
2	TEX261	ENSG00000144043	ENST00000466731	processed_transcript	KNOWN	None	30712	None	None	71215730	71221834	-1	None	MGC32043, TEG-261
2	TEX261	ENSG00000144043	ENST00000489894	retained_intron	KNOWN	None	30712	None	None	71216707	71221933	-1	None	MGC32043, TEG-261
2	TEX261	ENSG00000144043	ENST00000473055	retained_intron	KNOWN	None	30712	None	None	71218919	71222003	-1	None	MGC32043, TEG-261
14	DLK1	ENSG00000185559	ENST00000392848	protein_coding	KNOWN	None	2907	291	96	101192042	101198407	1	None	FA1, pG2, Pref-1, ZOG, Delta1
14	DLK1	ENSG00000185559	ENST00000341267	protein_coding	KNOWN	CCDS9963	2907	1152	383	101193164	101201539	1	None	FA1, pG2, Pref-1, ZOG, Delta1
14	DLK1	ENSG00000185559	ENST00000555747	retained_intron	KNOWN	None	2907	None	None	101193230	101195027	1	None	FA1, pG2, Pref-1, ZOG, Delta1
14	DLK1	ENSG00000185559	ENST00000331224	protein_coding	KNOWN	None	2907	933	310	101193246	101201464	1	None	FA1, pG2, Pref-1, ZOG, Delta1
14	DLK1	ENSG00000185559	ENST00000556051	protein_coding	PUTATIVE	None	2907	411	136	101193367	101195571	1	None	FA1, pG2, Pref-1, ZOG, Delta1
14	LRFN5	ENSG00000165379	ENST00000298119	protein_coding	KNOWN	CCDS9678	20360	2160	719	42076773	42373752	1	C14orf146	FIGLER8, SALM5
14	LRFN5	ENSG00000165379	ENST00000555279	processed_transcript	KNOWN	None	20360	None	None	42077472	42236165	1	C14orf146	FIGLER8, SALM5
14	LRFN5	ENSG00000165379	ENST00000553926	processed_transcript	KNOWN	None	20360	None	None	42077581	42079330	1	C14orf146	FIGLER8, SALM5
14	LRFN5	ENSG00000165379	ENST00000554120	protein_coding	NOVEL	None	20360	1398	465	42077618	42373752	1	C14orf146	FIGLER8, SALM5
14	LRFN5	ENSG00000165379	ENST00000554171	protein_coding	PUTATIVE	None	20360	1401	466	42168630	42373752	1	C14orf146	FIGLER8, SALM5
6	None	ENSG00000217181	ENST00000407436	processed_pseudogene	KNOWN	None	None	None	None	10574982	10575460	-1	None	None
5	SLC27A6	ENSG00000113396	ENST00000508645	protein_coding	PUTATIVE	None	11000	486	161	127873706	128351637	1	None	FATP6, VLCS-H1, FACVL2, ACSVL2
5	SLC27A6	ENSG00000113396	ENST00000262462	protein_coding	KNOWN	CCDS4145	11000	1860	619	128300821	128369324	1	None	FATP6, VLCS-H1, FACVL2, ACSVL2
5	SLC27A6	ENSG00000113396	ENST00000395266	protein_coding	KNOWN	CCDS4145	11000	1860	619	128301210	128369335	1	None	FATP6, VLCS-H1, FACVL2, ACSVL2
5	SLC27A6	ENSG00000113396	ENST00000506176	protein_coding	KNOWN	CCDS4145	11000	1860	619	128301221	128368975	1	None	FATP6, VLCS-H1, FACVL2, ACSVL2
10	TACC2	ENSG00000138162	ENST00000492689	retained_intron	KNOWN	None	11523	None	None	123748689	123812212	1	None	AZU-1
10	TACC2	ENSG00000138162	ENST00000369005	protein_coding	KNOWN	CCDS7626	11523	8847	2948	123748709	124014057	1	None	AZU-1
10	TACC2	ENSG00000138162	ENST00000513429	protein_coding	KNOWN	CCDS7625	11523	3285	1094	123748709	124014060	1	None	AZU-1
10	TACC2	ENSG00000138162	ENST00000515273	protein_coding	NOVEL	None	11523	8628	2875	123748721	124013860	1	None	AZU-1
10	TACC2	ENSG00000138162	ENST00000515603	protein_coding	NOVEL	None	11523	8481	2826	123748721	124013863	1	None	AZU-1
10	TACC2	ENSG00000138162	ENST00000498721	processed_transcript	KNOWN	None	11523	None	None	123748778	123838660	1	None	AZU-1
10	TACC2	ENSG00000138162	ENST00000474014	retained_intron	KNOWN	None	11523	None	None	123754147	123783305	1	None	AZU-1
10	TACC2	ENSG00000138162	ENST00000489754	retained_intron	KNOWN	None	11523	None	None	123779263	123781746	1	None	AZU-1
10	TACC2	ENSG00000138162	ENST00000491540	protein_coding	NOVEL	None	11523	547	181	123781508	123842522	1	None	AZU-1
10	TACC2	ENSG00000138162	ENST00000493951	processed_transcript	KNOWN	None	11523	None	None	123872545	123970084	1	None	AZU-1
10	TACC2	ENSG00000138162	ENST00000369001	protein_coding	NOVEL	None	11523	1728	575	123872554	124014057	1	None	AZU-1
10	TACC2	ENSG00000138162	ENST00000492237	processed_transcript	KNOWN	None	11523	None	None	123872571	123970038	1	None	AZU-1
10	TACC2	ENSG00000138162	ENST00000369000	protein_coding	KNOWN	None	11523	1716	571	123886229	124014059	1	None	AZU-1
10	TACC2	ENSG00000138162	ENST00000360561	protein_coding	KNOWN	CCDS7628	11523	2991	996	123922941	124014060	1	None	AZU-1
10	TACC2	ENSG00000138162	ENST00000368999	protein_coding	NOVEL	None	11523	3117	1038	123923105	124013998	1	None	AZU-1
10	TACC2	ENSG00000138162	ENST00000369004	protein_coding	NOVEL	None	11523	3027	1008	123923289	124014060	1	None	AZU-1
10	TACC2	ENSG00000138162	ENST00000260733	protein_coding	KNOWN	CCDS7627	11523	3081	1026	123923359	124014053	1	None	AZU-1
10	TACC2	ENSG00000138162	ENST00000514539	protein_coding	PUTATIVE	None	11523	2008	668	123951963	123985995	1	None	AZU-1
10	TACC2	ENSG00000138162	ENST00000368997	retained_intron	KNOWN	None	11523	None	None	123969557	124013852	1	None	AZU-1
10	TACC2	ENSG00000138162	ENST00000440764	nonsense_mediated_decay	KNOWN	None	11523	554	183	123970401	123987421	1	None	AZU-1
10	TACC2	ENSG00000138162	ENST00000505639	protein_coding	NOVEL	None	11523	567	188	123970418	123976180	1	None	AZU-1
10	TACC2	ENSG00000138162	ENST00000496913	protein_coding	NOVEL	None	11523	1229	408	123970724	123997037	1	None	AZU-1
10	TACC2	ENSG00000138162	ENST00000508411	protein_coding	NOVEL	None	11523	497	164	123971201	123985936	1	None	AZU-1
10	TACC2	ENSG00000138162	ENST00000490979	protein_coding	PUTATIVE	None	11523	461	152	123997474	124014053	1	None	AZU-1
10	TACC2	ENSG00000138162	ENST00000503769	retained_intron	KNOWN	None	11523	None	None	124001149	124008643	1	None	AZU-1
10	TACC2	ENSG00000138162	ENST00000465600	retained_intron	KNOWN	None	11523	None	None	124005988	124014055	1	None	AZU-1
10	TACC2	ENSG00000138162	ENST00000334433	protein_coding	KNOWN	CCDS7626	11523	8847	2948	123781451	124014055	1	None	AZU-1
10	TACC2	ENSG00000138162	ENST00000358010	protein_coding	KNOWN	CCDS7625	11523	3285	1094	123781451	124014055	1	None	AZU-1
10	TACC2	ENSG00000138162	ENST00000453444	protein_coding	KNOWN	None	11523	8628	2875	123781451	124013860	1	None	AZU-1
14	None	ENSG00000258850	ENST00000554042	protein_coding	PUTATIVE	None	None	210	69	42881776	42998091	1	None	None
9	FAM102A	ENSG00000167106	ENST00000373095	protein_coding	KNOWN	CCDS35150	31419	1155	384	130702858	130742792	-1	C9orf132	Eeig1, bA203J24.7, SYM-3A
9	FAM102A	ENSG00000167106	ENST00000465821	retained_intron	KNOWN	None	31419	None	None	130703160	130710438	-1	C9orf132	Eeig1, bA203J24.7, SYM-3A
9	FAM102A	ENSG00000167106	ENST00000373084	protein_coding	KNOWN	CCDS6888	31419	729	242	130703160	130713001	-1	C9orf132	Eeig1, bA203J24.7, SYM-3A
9	FAM102A	ENSG00000167106	ENST00000300434	processed_transcript	KNOWN	None	31419	None	None	130703162	130713001	-1	C9orf132	Eeig1, bA203J24.7, SYM-3A
9	FAM102A	ENSG00000167106	ENST00000479828	processed_transcript	KNOWN	None	31419	None	None	130710478	130726024	-1	C9orf132	Eeig1, bA203J24.7, SYM-3A
9	FAM102A	ENSG00000167106	ENST00000493175	processed_transcript	KNOWN	None	31419	None	None	130715548	130742357	-1	C9orf132	Eeig1, bA203J24.7, SYM-3A
9	FAM102A	ENSG00000167106	ENST00000494606	processed_transcript	KNOWN	None	31419	None	None	130734861	130742740	-1	C9orf132	Eeig1, bA203J24.7, SYM-3A
14	FSCB	ENSG00000189139	ENST00000340446	protein_coding	KNOWN	CCDS9679	20494	2478	825	44973545	44976482	-1	C14orf155	DKFZP434F1017
19	CPT1C	ENSG00000169169	ENST00000594038	nonsense_mediated_decay	KNOWN	None	18540	207	68	50194155	50200640	1	None	FLJ23809, CPTIC, CPT1P
19	CPT1C	ENSG00000169169	ENST00000323446	protein_coding	KNOWN	CCDS12779	18540	2412	803	50194367	50216988	1	None	FLJ23809, CPTIC, CPT1P
19	CPT1C	ENSG00000169169	ENST00000598259	nonsense_mediated_decay	KNOWN	None	18540	207	68	50194369	50216300	1	None	FLJ23809, CPTIC, CPT1P
19	CPT1C	ENSG00000169169	ENST00000599023	retained_intron	KNOWN	None	18540	None	None	50194373	50214322	1	None	FLJ23809, CPTIC, CPT1P
19	CPT1C	ENSG00000169169	ENST00000392518	protein_coding	KNOWN	CCDS12779	18540	2412	803	50194373	50216988	1	None	FLJ23809, CPTIC, CPT1P
19	CPT1C	ENSG00000169169	ENST00000598396	protein_coding	KNOWN	None	18540	771	256	50194393	50208044	1	None	FLJ23809, CPTIC, CPT1P
19	CPT1C	ENSG00000169169	ENST00000598293	protein_coding	KNOWN	CCDS12779	18540	2412	803	50194393	50216929	1	None	FLJ23809, CPTIC, CPT1P
19	CPT1C	ENSG00000169169	ENST00000598714	processed_transcript	KNOWN	None	18540	None	None	50194396	50199840	1	None	FLJ23809, CPTIC, CPT1P
19	CPT1C	ENSG00000169169	ENST00000405931	protein_coding	KNOWN	CCDS46147	18540	2379	792	50194401	50216988	1	None	FLJ23809, CPTIC, CPT1P
19	CPT1C	ENSG00000169169	ENST00000600944	retained_intron	KNOWN	None	18540	None	None	50194405	50201192	1	None	FLJ23809, CPTIC, CPT1P
19	CPT1C	ENSG00000169169	ENST00000596922	nonsense_mediated_decay	KNOWN	None	18540	207	68	50194405	50203951	1	None	FLJ23809, CPTIC, CPT1P
19	CPT1C	ENSG00000169169	ENST00000602019	protein_coding	KNOWN	None	18540	287	94	50194410	50203946	1	None	FLJ23809, CPTIC, CPT1P
19	CPT1C	ENSG00000169169	ENST00000594587	protein_coding	KNOWN	None	18540	533	176	50194821	50204653	1	None	FLJ23809, CPTIC, CPT1P
19	CPT1C	ENSG00000169169	ENST00000595969	protein_coding	NOVEL	None	18540	390	129	50194846	50204760	1	None	FLJ23809, CPTIC, CPT1P
19	CPT1C	ENSG00000169169	ENST00000595568	nonsense_mediated_decay	KNOWN	None	18540	219	72	50194849	50209221	1	None	FLJ23809, CPTIC, CPT1P
19	CPT1C	ENSG00000169169	ENST00000295404	retained_intron	KNOWN	None	18540	None	None	50194895	50213888	1	None	FLJ23809, CPTIC, CPT1P
19	CPT1C	ENSG00000169169	ENST00000596701	retained_intron	KNOWN	None	18540	None	None	50204839	50215600	1	None	FLJ23809, CPTIC, CPT1P
19	CPT1C	ENSG00000169169	ENST00000594431	retained_intron	KNOWN	None	18540	None	None	50207944	50209330	1	None	FLJ23809, CPTIC, CPT1P
19	CPT1C	ENSG00000169169	ENST00000595031	protein_coding	NOVEL	None	18540	1011	336	50209336	50216988	1	None	FLJ23809, CPTIC, CPT1P
19	CPT1C	ENSG00000169169	ENST00000595901	retained_intron	KNOWN	None	18540	None	None	50214821	50216883	1	None	FLJ23809, CPTIC, CPT1P
19	CPT1C	ENSG00000169169	ENST00000599937	retained_intron	KNOWN	None	18540	None	None	50215812	50216988	1	None	FLJ23809, CPTIC, CPT1P
19	CPT1C	ENSG00000169169	ENST00000598647	retained_intron	KNOWN	None	18540	None	None	50215885	50216988	1	None	FLJ23809, CPTIC, CPT1P
19	CPT1C	ENSG00000169169	ENST00000598072	retained_intron	KNOWN	None	18540	None	None	50215976	50216981	1	None	FLJ23809, CPTIC, CPT1P
19	CPT1C	ENSG00000169169	ENST00000597099	protein_coding	PUTATIVE	None	18540	246	81	50216250	50216988	1	None	FLJ23809, CPTIC, CPT1P
19	CPT1C	ENSG00000169169	ENST00000354199	protein_coding	KNOWN	None	18540	2145	714	50194393	50216929	1	None	FLJ23809, CPTIC, CPT1P
19	PALM3	ENSG00000187867	ENST00000340790	protein_coding	KNOWN	CCDS46001	33274	2022	673	14164177	14169971	-1	None	None
19	PALM3	ENSG00000187867	ENST00000589048	protein_coding	PUTATIVE	None	33274	579	192	14165707	14168411	-1	None	None
19	PALM3	ENSG00000187867	ENST00000586368	retained_intron	KNOWN	None	33274	None	None	14165947	14167719	-1	None	None
17	TSPAN10	ENSG00000182612	ENST00000571914	processed_transcript	KNOWN	None	29942	None	None	79604197	79606203	1	None	OCSP
17	TSPAN10	ENSG00000182612	ENST00000574882	processed_transcript	KNOWN	None	29942	None	None	79604224	79612655	1	None	OCSP
17	TSPAN10	ENSG00000182612	ENST00000571707	processed_transcript	KNOWN	None	29942	None	None	79609349	79613607	1	None	OCSP
17	TSPAN10	ENSG00000182612	ENST00000540189	processed_transcript	KNOWN	None	29942	None	None	79609362	79615779	1	None	OCSP
17	TSPAN10	ENSG00000182612	ENST00000572675	polymorphic_pseudogene	KNOWN	None	29942	1072	356	79609439	79615324	1	None	OCSP
17	TSPAN10	ENSG00000182612	ENST00000328585	protein_coding	KNOWN	None	29942	1068	355	79609349	79615779	1	None	OCSP
14	C14orf28	ENSG00000179476	ENST00000325192	protein_coding	KNOWN	CCDS32069	19834	933	310	45366498	45376460	1	None	DRIP-1
14	C14orf28	ENSG00000179476	ENST00000557112	protein_coding	NOVEL	None	19834	843	280	45366538	45374772	1	None	DRIP-1
14	C14orf28	ENSG00000179476	ENST00000555826	retained_intron	KNOWN	None	19834	None	None	45369617	45376459	1	None	DRIP-1
14	C14orf28	ENSG00000179476	ENST00000553841	processed_transcript	KNOWN	None	19834	None	None	45369959	45373732	1	None	DRIP-1
1	PIK3R3	ENSG00000117461	ENST00000262741	protein_coding	KNOWN	CCDS529	8981	1386	461	46505812	46598314	-1	None	p55
1	PIK3R3	ENSG00000117461	ENST00000372006	protein_coding	KNOWN	CCDS529	8981	1386	461	46505812	46598466	-1	None	p55
1	PIK3R3	ENSG00000117461	ENST00000488808	processed_transcript	KNOWN	None	8981	None	None	46508313	46523106	-1	None	p55
1	PIK3R3	ENSG00000117461	ENST00000423209	protein_coding	KNOWN	None	8981	1209	402	46509334	46598288	-1	None	p55
1	PIK3R3	ENSG00000117461	ENST00000493202	processed_transcript	KNOWN	None	8981	None	None	46527622	46598583	-1	None	p55
1	PIK3R3	ENSG00000117461	ENST00000425892	protein_coding	KNOWN	None	8981	619	205	46531728	46598585	-1	None	p55
1	PIK3R3	ENSG00000117461	ENST00000540385	protein_coding	KNOWN	None	8981	1524	507	46509333	46642160	-1	None	p55
1	PIK3R3	ENSG00000117461	ENST00000420542	protein_coding	KNOWN	CCDS529	8981	1386	461	46505814	46598708	-1	None	p55
1	PIK3R3	ENSG00000117461	ENST00000354242	protein_coding	KNOWN	None	8981	1209	402	46505814	46598708	-1	None	p55
1	PIK3R3	ENSG00000117461	ENST00000340332	protein_coding	KNOWN	None	8981	1101	366	46505814	46598708	-1	None	p55
1	BPNT1	ENSG00000162813	ENST00000469520	protein_coding	KNOWN	CCDS41469	1096	927	308	220230826	220263804	-1	None	None
1	BPNT1	ENSG00000162813	ENST00000354807	protein_coding	NOVEL	None	1096	876	291	220231073	220263114	-1	None	None
1	BPNT1	ENSG00000162813	ENST00000482136	processed_transcript	KNOWN	None	1096	None	None	220236141	220263075	-1	None	None
1	BPNT1	ENSG00000162813	ENST00000463953	protein_coding	NOVEL	None	1096	510	169	220236153	220263111	-1	None	None
1	BPNT1	ENSG00000162813	ENST00000498791	protein_coding	NOVEL	None	1096	409	135	220236254	220263169	-1	None	None
1	BPNT1	ENSG00000162813	ENST00000480959	protein_coding	PUTATIVE	None	1096	348	115	220236258	220263175	-1	None	None
1	BPNT1	ENSG00000162813	ENST00000548668	retained_intron	KNOWN	None	1096	None	None	220240357	220247409	-1	None	None
1	BPNT1	ENSG00000162813	ENST00000498237	protein_coding	KNOWN	None	1096	384	127	220242724	220263154	-1	None	None
1	BPNT1	ENSG00000162813	ENST00000322067	protein_coding	KNOWN	CCDS41469	1096	927	308	220230824	220263191	-1	None	None
1	BPNT1	ENSG00000162813	ENST00000414869	protein_coding	KNOWN	None	1096	819	272	220231941	220263139	-1	None	None
1	BPNT1	ENSG00000162813	ENST00000544404	protein_coding	KNOWN	None	1096	762	253	220231792	220263175	-1	None	None
12	HAL	ENSG00000084110	ENST00000261208	protein_coding	KNOWN	CCDS9058	4806	1974	657	96366440	96390143	-1	HIS	None
12	HAL	ENSG00000084110	ENST00000544080	nonsense_mediated_decay	KNOWN	None	4806	504	167	96367408	96390069	-1	HIS	None
12	HAL	ENSG00000084110	ENST00000538703	protein_coding	PUTATIVE	CCDS58265	4806	1776	591	96367625	96390122	-1	HIS	None
12	HAL	ENSG00000084110	ENST00000546999	nonsense_mediated_decay	KNOWN	None	4806	504	167	96367858	96390003	-1	HIS	None
12	HAL	ENSG00000084110	ENST00000548808	protein_coding	PUTATIVE	None	4806	463	153	96369881	96374446	-1	HIS	None
12	HAL	ENSG00000084110	ENST00000548636	retained_intron	KNOWN	None	4806	None	None	96377460	96379745	-1	HIS	None
12	HAL	ENSG00000084110	ENST00000552509	protein_coding	NOVEL	None	4806	1008	335	96380852	96389706	-1	HIS	None
12	HAL	ENSG00000084110	ENST00000551562	processed_transcript	PUTATIVE	None	4806	None	None	96383341	96384285	-1	HIS	None
12	HAL	ENSG00000084110	ENST00000549376	retained_intron	KNOWN	None	4806	None	None	96384067	96386565	-1	HIS	None
12	HAL	ENSG00000084110	ENST00000546579	protein_coding	PUTATIVE	None	4806	473	156	96384283	96388978	-1	HIS	None
12	HAL	ENSG00000084110	ENST00000541929	protein_coding	KNOWN	CCDS58264	4806	1350	449	96367408	96390069	-1	HIS	None
1	TSPAN1	ENSG00000117472	ENST00000498443	processed_transcript	KNOWN	None	20657	None	None	46640745	46650970	1	None	TSPAN-1, NET-1
1	TSPAN1	ENSG00000117472	ENST00000372003	protein_coding	KNOWN	CCDS530	20657	726	241	46640759	46651630	1	None	TSPAN-1, NET-1
1	TSPAN1	ENSG00000117472	ENST00000482928	processed_transcript	KNOWN	None	20657	None	None	46640776	46650335	1	None	TSPAN-1, NET-1
1	TSPAN1	ENSG00000117472	ENST00000469330	processed_transcript	KNOWN	None	20657	None	None	46640789	46650338	1	None	TSPAN-1, NET-1
1	TSPAN1	ENSG00000117472	ENST00000475163	processed_transcript	KNOWN	None	20657	None	None	46640938	46651244	1	None	TSPAN-1, NET-1
1	TSPAN1	ENSG00000117472	ENST00000482143	processed_transcript	KNOWN	None	20657	None	None	46649105	46650554	1	None	TSPAN-1, NET-1
1	TSPAN1	ENSG00000117472	ENST00000464786	processed_transcript	KNOWN	None	20657	None	None	46649105	46650980	1	None	TSPAN-1, NET-1
1	TSPAN1	ENSG00000117472	ENST00000472170	processed_transcript	KNOWN	None	20657	None	None	46649564	46650674	1	None	TSPAN-1, NET-1
1	TSPAN1	ENSG00000117472	ENST00000470318	processed_transcript	KNOWN	None	20657	None	None	46650539	46651414	1	None	TSPAN-1, NET-1
14	KLHL28	ENSG00000179454	ENST00000396128	protein_coding	KNOWN	CCDS9680	19741	1716	571	45393522	45431168	-1	BTBD5	FLJ20081
14	KLHL28	ENSG00000179454	ENST00000355081	protein_coding	PUTATIVE	None	19741	1758	585	45398016	45430335	-1	BTBD5	FLJ20081
14	KLHL28	ENSG00000179454	ENST00000579157	protein_coding	KNOWN	None	19741	696	231	45414436	45431112	-1	BTBD5	FLJ20081
14	KLHL28	ENSG00000179454	ENST00000556500	protein_coding	KNOWN	None	19741	488	161	45414644	45431170	-1	BTBD5	FLJ20081
14	KLHL28	ENSG00000179454	ENST00000556239	protein_coding	KNOWN	None	19741	252	83	45414880	45511511	-1	BTBD5	FLJ20081
14	KLHL28	ENSG00000179454	ENST00000557468	protein_coding	KNOWN	None	19741	137	44	45414995	45431393	-1	BTBD5	FLJ20081
14	KLHL28	ENSG00000179454	ENST00000553817	processed_transcript	KNOWN	None	19741	None	None	45433054	45511525	-1	BTBD5	FLJ20081
11	FOLH1	ENSG00000086205	ENST00000458311	retained_intron	KNOWN	None	3788	None	None	49168187	49207648	-1	FOLH	PSM, PSMA, NAALAD1, NAALAdase, GCP2, GCPII
11	FOLH1	ENSG00000086205	ENST00000256999	protein_coding	KNOWN	CCDS7946	3788	2253	750	49168187	49230222	-1	FOLH	PSM, PSMA, NAALAD1, NAALAdase, GCP2, GCPII
11	FOLH1	ENSG00000086205	ENST00000356696	protein_coding	KNOWN	CCDS31493	3788	2160	719	49168188	49230084	-1	FOLH	PSM, PSMA, NAALAD1, NAALAdase, GCP2, GCPII
11	FOLH1	ENSG00000086205	ENST00000525826	nonsense_mediated_decay	KNOWN	None	3788	225	74	49168188	49230154	-1	FOLH	PSM, PSMA, NAALAD1, NAALAdase, GCP2, GCPII
11	FOLH1	ENSG00000086205	ENST00000340334	protein_coding	PUTATIVE	CCDS53628	3788	2208	735	49168188	49230188	-1	FOLH	PSM, PSMA, NAALAD1, NAALAdase, GCP2, GCPII
11	FOLH1	ENSG00000086205	ENST00000533034	protein_coding	PUTATIVE	CCDS53627	3788	2115	704	49168303	49229924	-1	FOLH	PSM, PSMA, NAALAD1, NAALAdase, GCP2, GCPII
11	FOLH1	ENSG00000086205	ENST00000532018	retained_intron	KNOWN	None	3788	None	None	49175584	49178305	-1	FOLH	PSM, PSMA, NAALAD1, NAALAdase, GCP2, GCPII
11	FOLH1	ENSG00000086205	ENST00000525629	processed_transcript	KNOWN	None	3788	None	None	49184355	49197512	-1	FOLH	PSM, PSMA, NAALAD1, NAALAdase, GCP2, GCPII
11	FOLH1	ENSG00000086205	ENST00000526226	retained_intron	KNOWN	None	3788	None	None	49207146	49208320	-1	FOLH	PSM, PSMA, NAALAD1, NAALAdase, GCP2, GCPII
11	FOLH1	ENSG00000086205	ENST00000529646	retained_intron	KNOWN	None	3788	None	None	49214306	49229879	-1	FOLH	PSM, PSMA, NAALAD1, NAALAdase, GCP2, GCPII
11	FOLH1	ENSG00000086205	ENST00000533510	nonsense_mediated_decay	KNOWN	None	3788	141	46	49214344	49230145	-1	FOLH	PSM, PSMA, NAALAD1, NAALAdase, GCP2, GCPII
11	FOLH1	ENSG00000086205	ENST00000529117	protein_coding	PUTATIVE	None	3788	194	63	49221853	49229712	-1	FOLH	PSM, PSMA, NAALAD1, NAALAdase, GCP2, GCPII
11	FOLH1	ENSG00000086205	ENST00000529648	nonsense_mediated_decay	KNOWN	None	3788	147	48	49221925	49230190	-1	FOLH	PSM, PSMA, NAALAD1, NAALAdase, GCP2, GCPII
11	FOLH1	ENSG00000086205	ENST00000343844	protein_coding	KNOWN	CCDS53626	3788	1329	442	49168188	49230154	-1	FOLH	PSM, PSMA, NAALAD1, NAALAdase, GCP2, GCPII
9	TRAF2	ENSG00000127191	ENST00000419057	protein_coding	KNOWN	None	12032	515	170	139776364	139802670	1	None	TRAP3
9	TRAF2	ENSG00000127191	ENST00000429509	protein_coding	KNOWN	None	12032	580	192	139780517	139804423	1	None	TRAP3
9	TRAF2	ENSG00000127191	ENST00000247668	protein_coding	KNOWN	CCDS7013	12032	1506	501	139780970	139821059	1	None	TRAP3
9	TRAF2	ENSG00000127191	ENST00000414589	protein_coding	KNOWN	None	12032	363	120	139783987	139794969	1	None	TRAP3
9	TRAF2	ENSG00000127191	ENST00000474950	processed_transcript	KNOWN	None	12032	None	None	139794932	139804548	1	None	TRAP3
9	TRAF2	ENSG00000127191	ENST00000482854	processed_transcript	KNOWN	None	12032	None	None	139796396	139814772	1	None	TRAP3
9	TRAF2	ENSG00000127191	ENST00000469701	processed_transcript	KNOWN	None	12032	None	None	139802588	139811129	1	None	TRAP3
9	TRAF2	ENSG00000127191	ENST00000466107	processed_transcript	KNOWN	None	12032	None	None	139815577	139818333	1	None	TRAP3
9	TRAF2	ENSG00000127191	ENST00000536468	protein_coding	KNOWN	CCDS7013	12032	1506	501	139776385	139820463	1	None	TRAP3
9	TRAF2	ENSG00000127191	ENST00000359662	protein_coding	KNOWN	None	12032	1662	553	139780977	139821059	1	None	TRAP3
10	ARHGAP19	ENSG00000213390	ENST00000492211	nonsense_mediated_decay	KNOWN	None	23724	902	299	98981930	99052380	-1	None	FLJ00194, MGC14258
10	ARHGAP19	ENSG00000213390	ENST00000358531	protein_coding	KNOWN	CCDS7454	23724	1485	494	98981930	99052413	-1	None	FLJ00194, MGC14258
10	ARHGAP19	ENSG00000213390	ENST00000487035	processed_transcript	KNOWN	None	23724	None	None	98981937	99016272	-1	None	FLJ00194, MGC14258
10	ARHGAP19	ENSG00000213390	ENST00000371027	protein_coding	PUTATIVE	CCDS58092	23724	1458	485	98985066	99030421	-1	None	FLJ00194, MGC14258
10	ARHGAP19	ENSG00000213390	ENST00000466484	protein_coding	NOVEL	None	23724	593	196	99019187	99052392	-1	None	FLJ00194, MGC14258
10	ARHGAP19	ENSG00000213390	ENST00000493068	retained_intron	KNOWN	None	23724	None	None	99025137	99052394	-1	None	FLJ00194, MGC14258
10	ARHGAP19	ENSG00000213390	ENST00000355366	protein_coding	KNOWN	None	23724	1458	485	98978996	99030421	-1	None	FLJ00194, MGC14258
1	CELF3	ENSG00000159409	ENST00000290585	protein_coding	KNOWN	CCDS53367	11967	1248	415	151674880	151688528	-1	TNRC4	CAGH4, BRUNOL1, ERDA4, MGC57297
1	CELF3	ENSG00000159409	ENST00000470688	processed_transcript	KNOWN	None	11967	None	None	151674881	151682801	-1	TNRC4	CAGH4, BRUNOL1, ERDA4, MGC57297
1	CELF3	ENSG00000159409	ENST00000290583	protein_coding	KNOWN	CCDS1002	11967	1398	465	151674881	151689290	-1	TNRC4	CAGH4, BRUNOL1, ERDA4, MGC57297
1	CELF3	ENSG00000159409	ENST00000420342	protein_coding	KNOWN	None	11967	1400	465	151674891	151689274	-1	TNRC4	CAGH4, BRUNOL1, ERDA4, MGC57297
1	CELF3	ENSG00000159409	ENST00000419910	retained_intron	KNOWN	None	11967	None	None	151679983	151682013	-1	TNRC4	CAGH4, BRUNOL1, ERDA4, MGC57297
1	CELF3	ENSG00000159409	ENST00000479893	processed_transcript	KNOWN	None	11967	None	None	151679985	151688460	-1	TNRC4	CAGH4, BRUNOL1, ERDA4, MGC57297
1	CELF3	ENSG00000159409	ENST00000478829	processed_transcript	KNOWN	None	11967	None	None	151681474	151689259	-1	TNRC4	CAGH4, BRUNOL1, ERDA4, MGC57297
1	CELF3	ENSG00000159409	ENST00000392706	protein_coding	KNOWN	None	11967	783	260	151675426	151680386	-1	TNRC4	CAGH4, BRUNOL1, ERDA4, MGC57297
2	NAGK	ENSG00000124357	ENST00000531799	processed_transcript	PUTATIVE	None	17174	None	None	71291474	71295511	1	None	GNK
2	NAGK	ENSG00000124357	ENST00000497690	retained_intron	KNOWN	None	17174	None	None	71295408	71297749	1	None	GNK
2	NAGK	ENSG00000124357	ENST00000455662	protein_coding	NOVEL	CCDS33220	17174	1173	390	71295431	71305998	1	None	GNK
2	NAGK	ENSG00000124357	ENST00000531934	protein_coding	PUTATIVE	None	17174	282	93	71295438	71303792	1	None	GNK
2	NAGK	ENSG00000124357	ENST00000455197	nonsense_mediated_decay	KNOWN	None	17174	180	59	71295446	71300724	1	None	GNK
2	NAGK	ENSG00000124357	ENST00000418807	protein_coding	PUTATIVE	None	17174	882	293	71295718	71306935	1	None	GNK
2	NAGK	ENSG00000124357	ENST00000443872	nonsense_mediated_decay	KNOWN	None	17174	176	57	71295722	71305715	1	None	GNK
2	NAGK	ENSG00000124357	ENST00000443938	protein_coding	NOVEL	None	17174	1088	361	71295749	71305771	1	None	GNK
2	NAGK	ENSG00000124357	ENST00000484984	retained_intron	KNOWN	None	17174	None	None	71295752	71300261	1	None	GNK
2	NAGK	ENSG00000124357	ENST00000493102	retained_intron	KNOWN	None	17174	None	None	71295761	71302937	1	None	GNK
2	NAGK	ENSG00000124357	ENST00000450272	nonsense_mediated_decay	KNOWN	None	17174	517	171	71295777	71305743	1	None	GNK
2	NAGK	ENSG00000124357	ENST00000465105	retained_intron	KNOWN	None	17174	None	None	71295780	71298149	1	None	GNK
2	NAGK	ENSG00000124357	ENST00000480411	retained_intron	KNOWN	None	17174	None	None	71295780	71298268	1	None	GNK
2	NAGK	ENSG00000124357	ENST00000475709	retained_intron	KNOWN	None	17174	None	None	71295780	71305766	1	None	GNK
2	NAGK	ENSG00000124357	ENST00000533981	nonsense_mediated_decay	KNOWN	None	17174	55	17	71295792	71299820	1	None	GNK
2	NAGK	ENSG00000124357	ENST00000472519	retained_intron	KNOWN	None	17174	None	None	71295795	71305750	1	None	GNK
2	NAGK	ENSG00000124357	ENST00000489309	retained_intron	KNOWN	None	17174	None	None	71296108	71305766	1	None	GNK
2	NAGK	ENSG00000124357	ENST00000464638	retained_intron	KNOWN	None	17174	None	None	71297430	71302760	1	None	GNK
2	NAGK	ENSG00000124357	ENST00000428360	processed_transcript	KNOWN	None	17174	None	None	71297632	71299870	1	None	GNK
2	NAGK	ENSG00000124357	ENST00000524736	nonsense_mediated_decay	KNOWN	None	17174	548	181	71297643	71304766	1	None	GNK
2	NAGK	ENSG00000124357	ENST00000479854	retained_intron	KNOWN	None	17174	None	None	71298679	71303771	1	None	GNK
2	NAGK	ENSG00000124357	ENST00000529236	protein_coding	PUTATIVE	None	17174	411	136	71298921	71304735	1	None	GNK
2	NAGK	ENSG00000124357	ENST00000478659	retained_intron	KNOWN	None	17174	None	None	71299415	71302781	1	None	GNK
2	NAGK	ENSG00000124357	ENST00000524537	protein_coding	NOVEL	None	17174	328	108	71300667	71305763	1	None	GNK
2	NAGK	ENSG00000124357	ENST00000490998	retained_intron	KNOWN	None	17174	None	None	71301750	71305769	1	None	GNK
2	NAGK	ENSG00000124357	ENST00000468601	retained_intron	KNOWN	None	17174	None	None	71302546	71305484	1	None	GNK
2	NAGK	ENSG00000124357	ENST00000498022	retained_intron	KNOWN	None	17174	None	None	71304661	71305765	1	None	GNK
2	NAGK	ENSG00000124357	ENST00000244204	protein_coding	KNOWN	None	17174	1035	344	71295408	71305998	1	None	GNK
6	None	ENSG00000201048	ENST00000364178	misc_RNA	NOVEL	None	None	None	None	10674891	10675001	-1	None	None
3	GLT8D1	ENSG00000016864	ENST00000478968	protein_coding	KNOWN	CCDS2862	24870	1116	371	52728505	52739807	-1	None	AD-017, FLJ14611
3	GLT8D1	ENSG00000016864	ENST00000394783	protein_coding	KNOWN	CCDS2862	24870	1116	371	52728508	52737635	-1	None	AD-017, FLJ14611
3	GLT8D1	ENSG00000016864	ENST00000491606	protein_coding	KNOWN	CCDS2862	24870	1116	371	52728519	52739797	-1	None	AD-017, FLJ14611
3	GLT8D1	ENSG00000016864	ENST00000481643	nonsense_mediated_decay	KNOWN	None	24870	72	23	52728688	52730596	-1	None	AD-017, FLJ14611
3	GLT8D1	ENSG00000016864	ENST00000484163	retained_intron	KNOWN	None	24870	None	None	52728818	52739698	-1	None	AD-017, FLJ14611
3	GLT8D1	ENSG00000016864	ENST00000463827	processed_transcript	KNOWN	None	24870	None	None	52728915	52731550	-1	None	AD-017, FLJ14611
3	GLT8D1	ENSG00000016864	ENST00000480080	retained_intron	KNOWN	None	24870	None	None	52729256	52730653	-1	None	AD-017, FLJ14611
3	GLT8D1	ENSG00000016864	ENST00000485899	retained_intron	KNOWN	None	24870	None	None	52730213	52734513	-1	None	AD-017, FLJ14611
3	GLT8D1	ENSG00000016864	ENST00000479553	protein_coding	KNOWN	None	24870	523	173	52730259	52734673	-1	None	AD-017, FLJ14611
3	GLT8D1	ENSG00000016864	ENST00000489119	protein_coding	KNOWN	None	24870	330	109	52731736	52739802	-1	None	AD-017, FLJ14611
3	GLT8D1	ENSG00000016864	ENST00000497436	protein_coding	KNOWN	None	24870	268	88	52731798	52739856	-1	None	AD-017, FLJ14611
3	GLT8D1	ENSG00000016864	ENST00000497953	protein_coding	KNOWN	None	24870	190	62	52731876	52739670	-1	None	AD-017, FLJ14611
3	GLT8D1	ENSG00000016864	ENST00000487642	protein_coding	KNOWN	None	24870	187	61	52731879	52739780	-1	None	AD-017, FLJ14611
3	GLT8D1	ENSG00000016864	ENST00000464705	protein_coding	KNOWN	None	24870	92	29	52734301	52739787	-1	None	AD-017, FLJ14611
3	GLT8D1	ENSG00000016864	ENST00000463762	processed_transcript	KNOWN	None	24870	None	None	52738829	52740048	-1	None	AD-017, FLJ14611
3	GLT8D1	ENSG00000016864	ENST00000407584	protein_coding	KNOWN	CCDS2862	24870	1116	371	52728508	52740048	-1	None	AD-017, FLJ14611
3	GLT8D1	ENSG00000016864	ENST00000266014	protein_coding	KNOWN	CCDS2862	24870	1116	371	52728508	52740048	-1	None	AD-017, FLJ14611
6	None	ENSG00000272097	ENST00000606522	lincRNA	KNOWN	None	None	None	None	10743557	10747802	-1	None	None
6	None	ENSG00000272097	ENST00000606652	lincRNA	KNOWN	None	None	None	None	10747186	10747896	-1	None	None
6	RNA5SP203	ENSG00000222383	ENST00000410451	rRNA	KNOWN	None	43103	None	None	10753024	10753159	-1	RN5S203	None
6	None	ENSG00000235051	ENST00000436249	antisense	KNOWN	None	None	None	None	10882013	10884447	1	None	None
9	None	ENSG00000238362	ENST00000459392	miRNA	NOVEL	None	None	None	None	4968097	4968185	1	None	None
6	ELOVL2-AS1	ENSG00000230314	ENST00000606532	antisense	KNOWN	None	44156	None	None	11043757	11078309	1	None	None
6	ELOVL2-AS1	ENSG00000230314	ENST00000456190	antisense	KNOWN	None	44156	None	None	11043993	11078299	1	None	None
6	ELOVL2-AS1	ENSG00000230314	ENST00000607275	antisense	KNOWN	None	44156	None	None	11044746	11078051	1	None	None
6	ELOVL2-AS1	ENSG00000230314	ENST00000456616	antisense	KNOWN	None	44156	None	None	11044926	11078459	1	None	None
9	None	ENSG00000234534	ENST00000442675	processed_pseudogene	KNOWN	None	None	None	None	5040945	5041940	1	None	None
6	None	ENSG00000238896	ENST00000459459	snoRNA	NOVEL	None	None	None	None	11079248	11079346	1	None	None
1	IARS2	ENSG00000067704	ENST00000366922	protein_coding	KNOWN	None	29685	2823	940	220267444	220321380	1	None	FLJ10326
1	IARS2	ENSG00000067704	ENST00000490891	processed_transcript	KNOWN	None	29685	None	None	220287793	220308188	1	None	FLJ10326
1	IARS2	ENSG00000067704	ENST00000488777	processed_transcript	KNOWN	None	29685	None	None	220310984	220313560	1	None	FLJ10326
1	IARS2	ENSG00000067704	ENST00000467924	processed_transcript	KNOWN	None	29685	None	None	220313523	220316686	1	None	FLJ10326
1	IARS2	ENSG00000067704	ENST00000302637	protein_coding	KNOWN	CCDS1523	29685	3039	1012	220267455	220321376	1	None	FLJ10326
2	SSFA2	ENSG00000138434	ENST00000480753	retained_intron	KNOWN	None	11319	None	None	182756560	182759422	1	None	CS-1, SPAG13, KRAP, KIAA1927
2	SSFA2	ENSG00000138434	ENST00000431877	protein_coding	KNOWN	CCDS46467	11319	3780	1259	182756615	182795465	1	None	CS-1, SPAG13, KRAP, KIAA1927
2	SSFA2	ENSG00000138434	ENST00000320370	protein_coding	KNOWN	CCDS2284	11319	3771	1256	182756682	182795465	1	None	CS-1, SPAG13, KRAP, KIAA1927
2	SSFA2	ENSG00000138434	ENST00000409001	protein_coding	NOVEL	None	11319	3714	1237	182756712	182795465	1	None	CS-1, SPAG13, KRAP, KIAA1927
2	SSFA2	ENSG00000138434	ENST00000454579	nonsense_mediated_decay	KNOWN	None	11319	141	46	182756923	182794511	1	None	CS-1, SPAG13, KRAP, KIAA1927
2	SSFA2	ENSG00000138434	ENST00000440623	nonsense_mediated_decay	KNOWN	None	11319	141	46	182756923	182795465	1	None	CS-1, SPAG13, KRAP, KIAA1927
2	SSFA2	ENSG00000138434	ENST00000495248	processed_transcript	KNOWN	None	11319	None	None	182757080	182763646	1	None	CS-1, SPAG13, KRAP, KIAA1927
2	SSFA2	ENSG00000138434	ENST00000470129	processed_transcript	KNOWN	None	11319	None	None	182757359	182758577	1	None	CS-1, SPAG13, KRAP, KIAA1927
2	SSFA2	ENSG00000138434	ENST00000416081	nonsense_mediated_decay	KNOWN	None	11319	141	46	182758120	182795465	1	None	CS-1, SPAG13, KRAP, KIAA1927
2	SSFA2	ENSG00000138434	ENST00000470654	retained_intron	KNOWN	None	11319	None	None	182763586	182766701	1	None	CS-1, SPAG13, KRAP, KIAA1927
2	SSFA2	ENSG00000138434	ENST00000491720	retained_intron	KNOWN	None	11319	None	None	182765588	182795465	1	None	CS-1, SPAG13, KRAP, KIAA1927
2	SSFA2	ENSG00000138434	ENST00000409136	protein_coding	NOVEL	None	11319	2307	768	182775232	182795465	1	None	CS-1, SPAG13, KRAP, KIAA1927
2	SSFA2	ENSG00000138434	ENST00000491866	processed_transcript	KNOWN	None	11319	None	None	182781449	182784102	1	None	CS-1, SPAG13, KRAP, KIAA1927
2	SSFA2	ENSG00000138434	ENST00000467172	processed_transcript	KNOWN	None	11319	None	None	182783588	182794404	1	None	CS-1, SPAG13, KRAP, KIAA1927
2	SSFA2	ENSG00000138434	ENST00000451836	protein_coding	PUTATIVE	None	11319	606	201	182785333	182794524	1	None	CS-1, SPAG13, KRAP, KIAA1927
2	SSFA2	ENSG00000138434	ENST00000428267	protein_coding	KNOWN	None	11319	3255	1084	182756923	182794511	1	None	CS-1, SPAG13, KRAP, KIAA1927
6	None	ENSG00000271245	ENST00000605568	processed_pseudogene	KNOWN	None	None	None	None	11155162	11155383	-1	None	None
6	RGS17	ENSG00000091844	ENST00000367225	protein_coding	KNOWN	CCDS5244	14088	633	210	153325594	153365178	-1	None	RGSZ2, RGS-17
6	RGS17	ENSG00000091844	ENST00000206262	protein_coding	KNOWN	CCDS5244	14088	633	210	153331857	153452384	-1	None	RGSZ2, RGS-17
6	None	ENSG00000247925	ENST00000500636	antisense	KNOWN	None	None	None	None	11173685	11259332	1	None	None
11	NLRP14	ENSG00000158077	ENST00000299481	protein_coding	KNOWN	CCDS7776	22939	3282	1093	7041677	7092539	1	NALP14	NOD5, GC-LRR, Nalp-iota, PAN8, CLR11.2
8	BAI1	ENSG00000181790	ENST00000517894	protein_coding	KNOWN	None	943	4755	1584	143530791	143626370	1	None	None
8	BAI1	ENSG00000181790	ENST00000521208	nonsense_mediated_decay	KNOWN	None	943	3480	1159	143531040	143626367	1	None	None
8	BAI1	ENSG00000181790	ENST00000518820	retained_intron	KNOWN	None	943	None	None	143560481	143621381	1	None	None
8	BAI1	ENSG00000181790	ENST00000518812	retained_intron	KNOWN	None	943	None	None	143624862	143626045	1	None	None
8	BAI1	ENSG00000181790	ENST00000323289	protein_coding	KNOWN	None	943	4755	1584	143545377	143626346	1	None	None
6	None	ENSG00000213121	ENST00000392385	protein_coding	KNOWN	None	None	888	295	153552455	153668623	1	None	None
3	LINC00692	ENSG00000230891	ENST00000451284	protein_coding	PUTATIVE	None	27708	333	110	25900024	25915189	-1	None	None
3	LINC00692	ENSG00000230891	ENST00000496997	processed_transcript	KNOWN	None	27708	None	None	25900145	25915191	-1	None	None
19	None	ENSG00000141854	ENST00000591982	processed_transcript	KNOWN	None	None	None	None	14183688	14185874	1	None	None
19	None	ENSG00000141854	ENST00000587086	protein_coding	PUTATIVE	None	None	660	219	14183821	14185874	1	None	None
19	None	ENSG00000141854	ENST00000590772	protein_coding	PUTATIVE	None	None	453	150	14184394	14185790	1	None	None
19	None	ENSG00000141854	ENST00000269720	protein_coding	KNOWN	None	None	1086	361	14183348	14185873	1	None	None
5	None	ENSG00000249109	ENST00000502515	protein_coding	PUTATIVE	None	None	189	62	177209198	177221397	1	None	None
1	RIIAD1	ENSG00000178796	ENST00000326413	protein_coding	PUTATIVE	None	26686	309	102	151682909	151702082	1	NCRNA00166, C1orf230	FLJ36032
1	RIIAD1	ENSG00000178796	ENST00000479191	protein_coding	KNOWN	CCDS53368	26686	279	92	151694013	151702076	1	NCRNA00166, C1orf230	FLJ36032
1	RIIAD1	ENSG00000178796	ENST00000451484	processed_transcript	KNOWN	None	26686	None	None	151694312	151702082	1	NCRNA00166, C1orf230	FLJ36032
1	RIIAD1	ENSG00000178796	ENST00000426175	processed_transcript	PUTATIVE	None	26686	None	None	151694605	151702281	1	NCRNA00166, C1orf230	FLJ36032
1	RIIAD1	ENSG00000178796	ENST00000451222	processed_transcript	PUTATIVE	None	26686	None	None	151700847	151702000	1	NCRNA00166, C1orf230	FLJ36032
1	RIIAD1	ENSG00000178796	ENST00000427205	processed_transcript	PUTATIVE	None	26686	None	None	151700905	151702082	1	NCRNA00166, C1orf230	FLJ36032
5	PROP1	ENSG00000175325	ENST00000308304	protein_coding	KNOWN	CCDS4430	9455	681	226	177419236	177423243	-1	None	None
12	C1QL4	ENSG00000186897	ENST00000334221	protein_coding	KNOWN	CCDS31793	31416	717	238	49726200	49730971	-1	None	C1QTNF11, CTRP11
3	LRRC3B	ENSG00000179796	ENST00000396641	protein_coding	KNOWN	CCDS2644	28105	780	259	26664297	26752267	1	None	LRP15
3	LRRC3B	ENSG00000179796	ENST00000414619	protein_coding	KNOWN	None	28105	164	53	26665191	26751327	1	None	LRP15
3	LRRC3B	ENSG00000179796	ENST00000432040	protein_coding	KNOWN	None	28105	489	162	26665572	26751652	1	None	LRP15
3	LRRC3B	ENSG00000179796	ENST00000417744	protein_coding	KNOWN	CCDS2644	28105	780	259	26666158	26752267	1	None	LRP15
3	LRRC3B	ENSG00000179796	ENST00000469437	processed_transcript	PUTATIVE	None	28105	None	None	26666169	26751074	1	None	LRP15
3	LRRC3B	ENSG00000179796	ENST00000456208	protein_coding	KNOWN	CCDS2644	28105	780	259	26736046	26752267	1	None	LRP15
11	ANKRD42	ENSG00000137494	ENST00000393389	protein_coding	KNOWN	None	26752	597	198	82904781	82926242	1	None	FLJ37874, SARP
11	ANKRD42	ENSG00000137494	ENST00000528722	protein_coding	PUTATIVE	None	26752	258	85	82904793	82923836	1	None	FLJ37874, SARP
11	ANKRD42	ENSG00000137494	ENST00000260047	protein_coding	PUTATIVE	None	26752	1554	517	82904918	82967141	1	None	FLJ37874, SARP
11	ANKRD42	ENSG00000137494	ENST00000526731	protein_coding	PUTATIVE	None	26752	693	230	82905291	82926242	1	None	FLJ37874, SARP
11	ANKRD42	ENSG00000137494	ENST00000531895	protein_coding	PUTATIVE	None	26752	1509	502	82905440	82967037	1	None	FLJ37874, SARP
11	ANKRD42	ENSG00000137494	ENST00000393392	protein_coding	KNOWN	CCDS8265	26752	1170	389	82905551	82960013	1	None	FLJ37874, SARP
11	ANKRD42	ENSG00000137494	ENST00000533342	protein_coding	PUTATIVE	None	26752	1584	527	82905687	82959585	1	None	FLJ37874, SARP
11	ANKRD42	ENSG00000137494	ENST00000531815	protein_coding	PUTATIVE	None	26752	429	142	82938827	82967141	1	None	FLJ37874, SARP
11	ANKRD42	ENSG00000137494	ENST00000528190	processed_transcript	PUTATIVE	None	26752	None	None	82958996	82971736	1	None	FLJ37874, SARP
1	None	ENSG00000240510	ENST00000442233	protein_coding	KNOWN	None	None	414	137	151682909	151702070	1	None	None
17	PDE6G	ENSG00000185527	ENST00000574024	protein_coding	PUTATIVE	None	8789	213	70	79617489	79623601	-1	PDEG	None
17	PDE6G	ENSG00000185527	ENST00000573076	protein_coding	PUTATIVE	None	8789	414	137	79617489	79624089	-1	PDEG	None
17	PDE6G	ENSG00000185527	ENST00000574777	processed_transcript	KNOWN	None	8789	None	None	79617770	79630134	-1	PDEG	None
17	PDE6G	ENSG00000185527	ENST00000571224	protein_coding	KNOWN	CCDS11783	8789	264	87	79617955	79630142	-1	PDEG	None
17	PDE6G	ENSG00000185527	ENST00000571004	protein_coding	KNOWN	CCDS11783	8789	264	87	79617993	79620724	-1	PDEG	None
17	PDE6G	ENSG00000185527	ENST00000331056	protein_coding	KNOWN	CCDS11783	8789	264	87	79617489	79623607	-1	PDEG	None
6	TPBG	ENSG00000146242	ENST00000369750	protein_coding	KNOWN	CCDS4995	12004	1263	420	83073348	83080545	1	None	5T4-AG, 5T4
6	TPBG	ENSG00000146242	ENST00000535040	protein_coding	KNOWN	CCDS4995	12004	1263	420	83072923	83077134	1	None	5T4-AG, 5T4
6	TPBG	ENSG00000146242	ENST00000543496	protein_coding	KNOWN	CCDS4995	12004	1263	420	83073961	83077134	1	None	5T4-AG, 5T4
11	RBMXL2	ENSG00000170748	ENST00000306904	protein_coding	KNOWN	CCDS7777	17886	1179	392	7110165	7112379	1	None	HNRNPG-T, HNRPGT
12	DNAJC22	ENSG00000178401	ENST00000549441	protein_coding	KNOWN	CCDS8785	25802	1026	341	49740700	49745958	1	None	wus, FLJ13236
12	DNAJC22	ENSG00000178401	ENST00000395069	protein_coding	KNOWN	CCDS8785	25802	1026	341	49740821	49745697	1	None	wus, FLJ13236
12	DNAJC22	ENSG00000178401	ENST00000551153	retained_intron	KNOWN	None	25802	None	None	49745068	49747925	1	None	wus, FLJ13236
12	DNAJC22	ENSG00000178401	ENST00000552651	processed_transcript	KNOWN	None	25802	None	None	49745340	49751309	1	None	wus, FLJ13236
5	FAM153C	ENSG00000204677	ENST00000504530	protein_coding	KNOWN	None	33936	118	38	177433406	177466397	1	None	NY-REN-7-like
5	FAM153C	ENSG00000204677	ENST00000505582	retained_intron	KNOWN	None	33936	None	None	177433839	177463082	1	None	NY-REN-7-like
5	FAM153C	ENSG00000204677	ENST00000507848	protein_coding	KNOWN	None	33936	435	144	177433973	177476088	1	None	NY-REN-7-like
5	FAM153C	ENSG00000204677	ENST00000508839	processed_transcript	KNOWN	None	33936	None	None	177433991	177437275	1	None	NY-REN-7-like
5	FAM153C	ENSG00000204677	ENST00000505394	processed_transcript	KNOWN	None	33936	None	None	177435154	177437330	1	None	NY-REN-7-like
5	FAM153C	ENSG00000204677	ENST00000398106	protein_coding	KNOWN	None	33936	345	114	177435986	177474656	1	None	NY-REN-7-like
5	FAM153C	ENSG00000204677	ENST00000511856	protein_coding	NOVEL	None	33936	528	175	177457525	177473896	1	None	NY-REN-7-like
5	FAM153C	ENSG00000204677	ENST00000511189	protein_coding	NOVEL	None	33936	522	173	177457537	177476000	1	None	NY-REN-7-like
5	FAM153C	ENSG00000204677	ENST00000511511	processed_transcript	KNOWN	None	33936	None	None	177475777	177481134	1	None	NY-REN-7-like
5	FAM153C	ENSG00000204677	ENST00000511819	processed_transcript	KNOWN	None	33936	None	None	177479420	177481780	1	None	NY-REN-7-like
5	FAM153C	ENSG00000204677	ENST00000506096	processed_transcript	KNOWN	None	33936	None	None	177479627	177482560	1	None	NY-REN-7-like
5	FAM153C	ENSG00000204677	ENST00000515878	processed_transcript	KNOWN	None	33936	None	None	177480873	177482560	1	None	NY-REN-7-like
1	POMGNT1	ENSG00000085998	ENST00000371984	protein_coding	KNOWN	CCDS531	19139	1983	660	46654355	46664115	-1	MEB	FLJ20277, MGAT1.2, LGMD2O
1	POMGNT1	ENSG00000085998	ENST00000371992	protein_coding	KNOWN	CCDS57995	19139	2247	748	46654355	46685977	-1	MEB	FLJ20277, MGAT1.2, LGMD2O
1	POMGNT1	ENSG00000085998	ENST00000475642	processed_transcript	KNOWN	None	19139	None	None	46654356	46655239	-1	MEB	FLJ20277, MGAT1.2, LGMD2O
1	POMGNT1	ENSG00000085998	ENST00000480972	processed_transcript	KNOWN	None	19139	None	None	46655191	46656644	-1	MEB	FLJ20277, MGAT1.2, LGMD2O
1	POMGNT1	ENSG00000085998	ENST00000485714	processed_transcript	KNOWN	None	19139	None	None	46655789	46659472	-1	MEB	FLJ20277, MGAT1.2, LGMD2O
1	POMGNT1	ENSG00000085998	ENST00000463030	processed_transcript	KNOWN	None	19139	None	None	46657288	46658013	-1	MEB	FLJ20277, MGAT1.2, LGMD2O
1	POMGNT1	ENSG00000085998	ENST00000477114	processed_transcript	KNOWN	None	19139	None	None	46659055	46660323	-1	MEB	FLJ20277, MGAT1.2, LGMD2O
1	POMGNT1	ENSG00000085998	ENST00000497439	processed_transcript	KNOWN	None	19139	None	None	46660254	46664032	-1	MEB	FLJ20277, MGAT1.2, LGMD2O
1	POMGNT1	ENSG00000085998	ENST00000489985	processed_transcript	KNOWN	None	19139	None	None	46661156	46663774	-1	MEB	FLJ20277, MGAT1.2, LGMD2O
1	POMGNT1	ENSG00000085998	ENST00000371986	protein_coding	KNOWN	CCDS57995	19139	2247	748	46654391	46664098	-1	MEB	FLJ20277, MGAT1.2, LGMD2O
1	POMGNT1	ENSG00000085998	ENST00000535522	protein_coding	KNOWN	None	19139	1917	638	46654357	46663147	-1	MEB	FLJ20277, MGAT1.2, LGMD2O
1	POMGNT1	ENSG00000085998	ENST00000396420	protein_coding	KNOWN	None	19139	603	200	46654354	46685963	-1	MEB	FLJ20277, MGAT1.2, LGMD2O
17	OXLD1	ENSG00000204237	ENST00000374741	protein_coding	KNOWN	CCDS32766	27901	444	147	79632066	79633618	-1	C17orf90	MGC104712
17	OXLD1	ENSG00000204237	ENST00000575963	retained_intron	KNOWN	None	27901	None	None	79632066	79633665	-1	C17orf90	MGC104712
17	OXLD1	ENSG00000204237	ENST00000573786	processed_transcript	KNOWN	None	27901	None	None	79632086	79633176	-1	C17orf90	MGC104712
17	OXLD1	ENSG00000204237	ENST00000571503	protein_coding	PUTATIVE	None	27901	279	92	79632131	79633625	-1	C17orf90	MGC104712
17	OXLD1	ENSG00000204237	ENST00000571757	nonsense_mediated_decay	KNOWN	None	27901	279	92	79632171	79633663	-1	C17orf90	MGC104712
17	OXLD1	ENSG00000204237	ENST00000575992	nonsense_mediated_decay	KNOWN	None	27901	239	78	79632186	79633567	-1	C17orf90	MGC104712
17	OXLD1	ENSG00000204237	ENST00000571092	nonsense_mediated_decay	KNOWN	None	27901	279	92	79632491	79633608	-1	C17orf90	MGC104712
X	TEX11	ENSG00000120498	ENST00000374333	protein_coding	KNOWN	CCDS43968	11733	2778	925	69748790	70128581	-1	None	TSGA3, TGC1
X	TEX11	ENSG00000120498	ENST00000374320	protein_coding	KNOWN	None	11733	1848	615	69748791	69944142	-1	None	TSGA3, TGC1
X	TEX11	ENSG00000120498	ENST00000395889	protein_coding	KNOWN	CCDS35323	11733	2823	940	69748791	70128561	-1	None	TSGA3, TGC1
X	TEX11	ENSG00000120498	ENST00000344304	protein_coding	KNOWN	CCDS35323	11733	2823	940	69748791	70117396	-1	None	TSGA3, TGC1
19	STXBP2	ENSG00000076944	ENST00000593535	protein_coding	PUTATIVE	None	11445	335	110	7701767	7705891	1	None	UNC18B, Hunc18b
19	STXBP2	ENSG00000076944	ENST00000597467	retained_intron	KNOWN	None	11445	None	None	7701991	7704350	1	None	UNC18B, Hunc18b
19	STXBP2	ENSG00000076944	ENST00000595950	protein_coding	NOVEL	None	11445	507	168	7701991	7707004	1	None	UNC18B, Hunc18b
19	STXBP2	ENSG00000076944	ENST00000595181	retained_intron	KNOWN	None	11445	None	None	7701999	7705042	1	None	UNC18B, Hunc18b
19	STXBP2	ENSG00000076944	ENST00000441779	protein_coding	NOVEL	None	11445	1815	604	7701999	7712758	1	None	UNC18B, Hunc18b
19	STXBP2	ENSG00000076944	ENST00000599905	retained_intron	KNOWN	None	11445	None	None	7702001	7704371	1	None	UNC18B, Hunc18b
19	STXBP2	ENSG00000076944	ENST00000221283	protein_coding	KNOWN	CCDS12181	11445	1782	593	7702005	7712759	1	None	UNC18B, Hunc18b
19	STXBP2	ENSG00000076944	ENST00000597068	nonsense_mediated_decay	KNOWN	None	11445	1227	408	7702008	7712696	1	None	UNC18B, Hunc18b
19	STXBP2	ENSG00000076944	ENST00000414284	protein_coding	KNOWN	CCDS45948	11445	1773	590	7702013	7712759	1	None	UNC18B, Hunc18b
19	STXBP2	ENSG00000076944	ENST00000599737	nonsense_mediated_decay	KNOWN	None	11445	516	171	7703623	7712730	1	None	UNC18B, Hunc18b
19	STXBP2	ENSG00000076944	ENST00000599648	retained_intron	KNOWN	None	11445	None	None	7705627	7706799	1	None	UNC18B, Hunc18b
19	STXBP2	ENSG00000076944	ENST00000594221	retained_intron	KNOWN	None	11445	None	None	7706716	7708096	1	None	UNC18B, Hunc18b
19	STXBP2	ENSG00000076944	ENST00000595861	retained_intron	KNOWN	None	11445	None	None	7707132	7708160	1	None	UNC18B, Hunc18b
19	STXBP2	ENSG00000076944	ENST00000600702	protein_coding	PUTATIVE	None	11445	661	219	7707667	7712759	1	None	UNC18B, Hunc18b
19	STXBP2	ENSG00000076944	ENST00000599400	nonsense_mediated_decay	KNOWN	None	11445	448	148	7708101	7712724	1	None	UNC18B, Hunc18b
19	STXBP2	ENSG00000076944	ENST00000593854	retained_intron	KNOWN	None	11445	None	None	7709235	7711324	1	None	UNC18B, Hunc18b
19	STXBP2	ENSG00000076944	ENST00000595800	retained_intron	KNOWN	None	11445	None	None	7709399	7712758	1	None	UNC18B, Hunc18b
19	STXBP2	ENSG00000076944	ENST00000599558	retained_intron	KNOWN	None	11445	None	None	7709452	7710280	1	None	UNC18B, Hunc18b
19	STXBP2	ENSG00000076944	ENST00000601061	retained_intron	KNOWN	None	11445	None	None	7710082	7712759	1	None	UNC18B, Hunc18b
19	STXBP2	ENSG00000076944	ENST00000602355	protein_coding	PUTATIVE	None	11445	387	128	7710845	7712696	1	None	UNC18B, Hunc18b
19	STXBP2	ENSG00000076944	ENST00000599278	retained_intron	KNOWN	None	11445	None	None	7711941	7712341	1	None	UNC18B, Hunc18b
6	None	ENSG00000233656	ENST00000419796	lincRNA	KNOWN	None	None	None	None	11417583	11481472	1	None	None
6	None	ENSG00000242753	ENST00000423149	lincRNA	KNOWN	None	None	None	None	11487459	11515943	1	None	None
1	MRPL9	ENSG00000143436	ENST00000368830	protein_coding	KNOWN	CCDS1003	14277	804	267	151732119	151736040	-1	None	None
1	MRPL9	ENSG00000143436	ENST00000467306	processed_transcript	KNOWN	None	14277	None	None	151732123	151735972	-1	None	None
1	MRPL9	ENSG00000143436	ENST00000468006	processed_transcript	KNOWN	None	14277	None	None	151732130	151733995	-1	None	None
1	MRPL9	ENSG00000143436	ENST00000368829	protein_coding	KNOWN	None	14277	702	233	151732351	151735960	-1	None	None
1	MRPL9	ENSG00000143436	ENST00000495867	processed_transcript	KNOWN	None	14277	None	None	151732360	151733396	-1	None	None
1	MRPL9	ENSG00000143436	ENST00000478926	processed_transcript	KNOWN	None	14277	None	None	151733350	151735866	-1	None	None
1	MRPL9	ENSG00000143436	ENST00000486707	processed_transcript	KNOWN	None	14277	None	None	151733951	151735810	-1	None	None
1	MRPL9	ENSG00000143436	ENST00000492684	processed_transcript	KNOWN	None	14277	None	None	151733983	151735543	-1	None	None
1	MRPL9	ENSG00000143436	ENST00000481777	processed_transcript	KNOWN	None	14277	None	None	151734438	151735810	-1	None	None
1	MRPL9	ENSG00000143436	ENST00000461182	processed_transcript	KNOWN	None	14277	None	None	151734794	151735810	-1	None	None
1	MRPL9	ENSG00000143436	ENST00000462783	processed_transcript	KNOWN	None	14277	None	None	151735093	151735965	-1	None	None
6	RNU1-64P	ENSG00000202313	ENST00000365443	snRNA	KNOWN	None	48406	None	None	11503742	11503904	-1	None	None
6	PRKRIRP5	ENSG00000218020	ENST00000405864	transcribed_processed_pseudogene	KNOWN	None	39569	None	None	11514425	11516699	1	None	None
6	None	ENSG00000271897	ENST00000607169	lincRNA	KNOWN	None	None	None	None	11607785	11608214	1	None	None
6	None	ENSG00000207419	ENST00000384688	snoRNA	NOVEL	None	None	None	None	11710052	11710193	1	None	None
6	None	ENSG00000234427	ENST00000412132	lincRNA	KNOWN	None	None	None	None	11810835	11811481	1	None	None
6	None	ENSG00000215124	ENST00000299540	processed_pseudogene	KNOWN	None	None	None	None	11861859	11863203	-1	None	None
19	ATP4A	ENSG00000105675	ENST00000262623	protein_coding	KNOWN	CCDS12467	819	3108	1035	36040945	36054560	-1	None	ATP6A
19	ATP4A	ENSG00000105675	ENST00000592131	retained_intron	KNOWN	None	819	None	None	36041106	36048709	-1	None	ATP6A
19	ATP4A	ENSG00000105675	ENST00000592767	nonsense_mediated_decay	KNOWN	None	819	103	33	36044608	36048639	-1	None	ATP6A
19	ATP4A	ENSG00000105675	ENST00000590916	retained_intron	KNOWN	None	819	None	None	36051721	36054241	-1	None	ATP6A
6	None	ENSG00000225102	ENST00000456036	antisense	KNOWN	None	None	None	None	11990576	11992245	-1	None	None
16	HAGHL	ENSG00000103253	ENST00000549114	protein_coding	KNOWN	None	14177	609	202	776936	779733	1	None	MGC2605
16	HAGHL	ENSG00000103253	ENST00000341413	protein_coding	KNOWN	None	14177	873	290	776958	779715	1	None	MGC2605
16	HAGHL	ENSG00000103253	ENST00000562187	protein_coding	KNOWN	None	14177	40	12	777106	777549	1	None	MGC2605
16	HAGHL	ENSG00000103253	ENST00000564537	protein_coding	KNOWN	None	14177	609	202	777106	779715	1	None	MGC2605
16	HAGHL	ENSG00000103253	ENST00000562141	protein_coding	KNOWN	None	14177	600	199	777119	778895	1	None	MGC2605
16	HAGHL	ENSG00000103253	ENST00000561546	protein_coding	PUTATIVE	None	14177	684	227	777246	779185	1	None	MGC2605
16	HAGHL	ENSG00000103253	ENST00000564545	protein_coding	NOVEL	None	14177	255	84	777262	778985	1	None	MGC2605
16	HAGHL	ENSG00000103253	ENST00000389703	protein_coding	KNOWN	CCDS32354	14177	849	282	777271	779715	1	None	MGC2605
16	HAGHL	ENSG00000103253	ENST00000561750	retained_intron	KNOWN	None	14177	None	None	777275	778532	1	None	MGC2605
16	HAGHL	ENSG00000103253	ENST00000567414	protein_coding	PUTATIVE	None	14177	518	171	777293	778624	1	None	MGC2605
16	HAGHL	ENSG00000103253	ENST00000569143	retained_intron	KNOWN	None	14177	None	None	777318	778166	1	None	MGC2605
16	HAGHL	ENSG00000103253	ENST00000567696	retained_intron	KNOWN	None	14177	None	None	777318	779715	1	None	MGC2605
16	HAGHL	ENSG00000103253	ENST00000568141	protein_coding	KNOWN	None	14177	576	191	777346	778603	1	None	MGC2605
16	HAGHL	ENSG00000103253	ENST00000389701	retained_intron	KNOWN	None	14177	None	None	777405	779715	1	None	MGC2605
16	HAGHL	ENSG00000103253	ENST00000563792	protein_coding	PUTATIVE	None	14177	324	107	777739	778399	1	None	MGC2605
16	HAGHL	ENSG00000103253	ENST00000561561	nonsense_mediated_decay	KNOWN	None	14177	285	94	778352	779087	1	None	MGC2605
16	HAGHL	ENSG00000103253	ENST00000563156	processed_transcript	KNOWN	None	14177	None	None	778514	783847	1	None	MGC2605
16	HAGHL	ENSG00000103253	ENST00000569385	nonsense_mediated_decay	KNOWN	None	14177	65	20	778572	779313	1	None	MGC2605
16	HAGHL	ENSG00000103253	ENST00000569604	processed_transcript	PUTATIVE	None	14177	None	None	783055	785525	1	None	MGC2605
5	H2AFY	ENSG00000113648	ENST00000511689	protein_coding	KNOWN	CCDS4185	4740	1119	372	134669590	134735312	-1	None	macroH2A1.2
5	H2AFY	ENSG00000113648	ENST00000451949	processed_transcript	KNOWN	None	4740	None	None	134670071	134687234	-1	None	macroH2A1.2
5	H2AFY	ENSG00000113648	ENST00000512507	processed_transcript	KNOWN	None	4740	None	None	134670071	134698591	-1	None	macroH2A1.2
5	H2AFY	ENSG00000113648	ENST00000304332	protein_coding	PUTATIVE	CCDS4183	4740	1116	371	134670073	134735577	-1	None	macroH2A1.2
5	H2AFY	ENSG00000113648	ENST00000312469	protein_coding	KNOWN	CCDS4184	4740	1110	369	134670100	134734901	-1	None	macroH2A1.2
5	H2AFY	ENSG00000113648	ENST00000360597	processed_transcript	KNOWN	None	4740	None	None	134670107	134734912	-1	None	macroH2A1.2
5	H2AFY	ENSG00000113648	ENST00000511494	retained_intron	KNOWN	None	4740	None	None	134670125	134683296	-1	None	macroH2A1.2
5	H2AFY	ENSG00000113648	ENST00000506671	nonsense_mediated_decay	KNOWN	None	4740	498	165	134670163	134734928	-1	None	macroH2A1.2
5	H2AFY	ENSG00000113648	ENST00000423969	protein_coding	PUTATIVE	None	4740	603	200	134670546	134734919	-1	None	macroH2A1.2
5	H2AFY	ENSG00000113648	ENST00000510038	protein_coding	PUTATIVE	CCDS4185	4740	1119	372	134670603	134735574	-1	None	macroH2A1.2
5	H2AFY	ENSG00000113648	ENST00000505827	retained_intron	KNOWN	None	4740	None	None	134670791	134681677	-1	None	macroH2A1.2
5	H2AFY	ENSG00000113648	ENST00000513268	retained_intron	KNOWN	None	4740	None	None	134681380	134686645	-1	None	macroH2A1.2
5	H2AFY	ENSG00000113648	ENST00000507868	retained_intron	KNOWN	None	4740	None	None	134686504	134734894	-1	None	macroH2A1.2
5	H2AFY	ENSG00000113648	ENST00000508785	processed_transcript	KNOWN	None	4740	None	None	134695087	134734867	-1	None	macroH2A1.2
5	H2AFY	ENSG00000113648	ENST00000513210	processed_transcript	KNOWN	None	4740	None	None	134695412	134724749	-1	None	macroH2A1.2
5	H2AFY	ENSG00000113648	ENST00000504197	retained_intron	KNOWN	None	4740	None	None	134696106	134705836	-1	None	macroH2A1.2
5	H2AFY	ENSG00000113648	ENST00000508120	processed_transcript	KNOWN	None	4740	None	None	134696209	134734896	-1	None	macroH2A1.2
5	H2AFY	ENSG00000113648	ENST00000506532	processed_transcript	KNOWN	None	4740	None	None	134705058	134735604	-1	None	macroH2A1.2
5	H2AFY	ENSG00000113648	ENST00000506218	retained_intron	KNOWN	None	4740	None	None	134705171	134734904	-1	None	macroH2A1.2
5	H2AFY	ENSG00000113648	ENST00000508962	processed_transcript	PUTATIVE	None	4740	None	None	134724607	134735577	-1	None	macroH2A1.2
6	None	ENSG00000229896	ENST00000437559	lincRNA	KNOWN	None	None	None	None	12007903	12009089	1	None	None
6	None	ENSG00000229896	ENST00000607445	lincRNA	KNOWN	None	None	None	None	12008103	12008876	1	None	None
1	RAB3GAP2	ENSG00000118873	ENST00000358951	protein_coding	KNOWN	CCDS31028	17168	4182	1393	220321635	220445796	-1	None	RAB3-GAP150, KIAA0839, DKFZP434D245
1	RAB3GAP2	ENSG00000118873	ENST00000483278	processed_transcript	KNOWN	None	17168	None	None	220321648	220445772	-1	None	RAB3-GAP150, KIAA0839, DKFZP434D245
1	RAB3GAP2	ENSG00000118873	ENST00000491005	processed_transcript	KNOWN	None	17168	None	None	220324525	220327402	-1	None	RAB3-GAP150, KIAA0839, DKFZP434D245
1	RAB3GAP2	ENSG00000118873	ENST00000474966	processed_transcript	KNOWN	None	17168	None	None	220324598	220327064	-1	None	RAB3-GAP150, KIAA0839, DKFZP434D245
1	RAB3GAP2	ENSG00000118873	ENST00000491305	processed_transcript	KNOWN	None	17168	None	None	220324947	220327770	-1	None	RAB3-GAP150, KIAA0839, DKFZP434D245
1	RAB3GAP2	ENSG00000118873	ENST00000478976	processed_transcript	KNOWN	None	17168	None	None	220358997	220445772	-1	None	RAB3-GAP150, KIAA0839, DKFZP434D245
1	RAB3GAP2	ENSG00000118873	ENST00000237724	retained_intron	KNOWN	None	17168	None	None	220369526	220445756	-1	None	RAB3-GAP150, KIAA0839, DKFZP434D245
1	RAB3GAP2	ENSG00000118873	ENST00000484658	protein_coding	PUTATIVE	None	17168	515	170	220375618	220384719	-1	None	RAB3-GAP150, KIAA0839, DKFZP434D245
1	RAB3GAP2	ENSG00000118873	ENST00000474178	nonsense_mediated_decay	KNOWN	None	17168	249	82	220379249	220445712	-1	None	RAB3-GAP150, KIAA0839, DKFZP434D245
1	RAB3GAP2	ENSG00000118873	ENST00000475769	processed_transcript	KNOWN	None	17168	None	None	220392777	220445679	-1	None	RAB3-GAP150, KIAA0839, DKFZP434D245
1	RAB3GAP2	ENSG00000118873	ENST00000462353	processed_transcript	KNOWN	None	17168	None	None	220439327	220445703	-1	None	RAB3-GAP150, KIAA0839, DKFZP434D245
17	None	ENSG00000181464	ENST00000312127	protein_coding	KNOWN	None	None	732	243	15468797	15469590	-1	None	None
6	None	ENSG00000218893	ENST00000405924	processed_pseudogene	KNOWN	None	None	None	None	12319685	12319824	1	None	None
17	CCDC137	ENSG00000185298	ENST00000329214	protein_coding	KNOWN	CCDS42400	33451	870	289	79633394	79640929	1	None	MGC16597
17	CCDC137	ENSG00000185298	ENST00000575223	nonsense_mediated_decay	KNOWN	CCDS42400	33451	870	289	79633782	79640934	1	None	MGC16597
17	CCDC137	ENSG00000185298	ENST00000574107	protein_coding	NOVEL	None	33451	878	291	79633785	79639715	1	None	MGC16597
17	CCDC137	ENSG00000185298	ENST00000574200	nonsense_mediated_decay	KNOWN	None	33451	133	43	79633802	79637321	1	None	MGC16597
17	CCDC137	ENSG00000185298	ENST00000571916	nonsense_mediated_decay	KNOWN	None	33451	186	61	79634799	79639751	1	None	MGC16597
17	CCDC137	ENSG00000185298	ENST00000572531	retained_intron	KNOWN	None	33451	None	None	79638619	79639132	1	None	MGC16597
2	PPP1R1C	ENSG00000150722	ENST00000495820	processed_transcript	KNOWN	None	14940	None	None	182818968	182982245	1	None	Inhibitor-1-like
2	PPP1R1C	ENSG00000150722	ENST00000486067	processed_transcript	KNOWN	None	14940	None	None	182819219	182982243	1	None	Inhibitor-1-like
2	PPP1R1C	ENSG00000150722	ENST00000475249	processed_transcript	KNOWN	None	14940	None	None	182819223	182994893	1	None	Inhibitor-1-like
2	PPP1R1C	ENSG00000150722	ENST00000464264	processed_transcript	KNOWN	None	14940	None	None	182819251	182993794	1	None	Inhibitor-1-like
2	PPP1R1C	ENSG00000150722	ENST00000490645	processed_transcript	KNOWN	None	14940	None	None	182819258	182982412	1	None	Inhibitor-1-like
2	PPP1R1C	ENSG00000150722	ENST00000465612	processed_transcript	KNOWN	None	14940	None	None	182819286	182982171	1	None	Inhibitor-1-like
2	PPP1R1C	ENSG00000150722	ENST00000409137	protein_coding	KNOWN	CCDS46468	14940	330	109	182850595	182996125	1	None	Inhibitor-1-like
2	PPP1R1C	ENSG00000150722	ENST00000280295	protein_coding	NOVEL	CCDS58740	14940	351	116	182850604	182994745	1	None	Inhibitor-1-like
2	PPP1R1C	ENSG00000150722	ENST00000409702	protein_coding	KNOWN	CCDS46468	14940	330	109	182850749	182994265	1	None	Inhibitor-1-like
2	PPP1R1C	ENSG00000150722	ENST00000479855	processed_transcript	KNOWN	None	14940	None	None	182895610	182982238	1	None	Inhibitor-1-like
2	PPP1R1C	ENSG00000150722	ENST00000461410	retained_intron	KNOWN	None	14940	None	None	182926190	182928850	1	None	Inhibitor-1-like
2	PPP1R1C	ENSG00000150722	ENST00000494189	processed_transcript	KNOWN	None	14940	None	None	182968328	182982644	1	None	Inhibitor-1-like
2	PPP1R1C	ENSG00000150722	ENST00000452904	protein_coding	KNOWN	CCDS46468	14940	330	109	182850551	182982419	1	None	Inhibitor-1-like
6	RN7SKP293	ENSG00000223321	ENST00000411389	misc_RNA	KNOWN	None	46017	None	None	12406718	12407013	-1	None	None
6	RPL15P3	ENSG00000212802	ENST00000391491	processed_pseudogene	KNOWN	None	21538	None	None	12514342	12514956	1	None	bA511S14.1
6	RPL15P3	ENSG00000212802	ENST00000450992	pseudogene	KNOWN	None	21538	None	None	12514342	12515006	1	None	bA511S14.1
17	CACNA1G	ENSG00000006283	ENST00000360761	protein_coding	KNOWN	CCDS54144	1394	6786	2261	48638429	48704431	1	None	Cav3.1, NBR13
17	CACNA1G	ENSG00000006283	ENST00000352832	protein_coding	KNOWN	CCDS45735	1394	6753	2250	48638449	48704835	1	None	Cav3.1, NBR13
17	CACNA1G	ENSG00000006283	ENST00000442258	protein_coding	KNOWN	CCDS54145	1394	6732	2243	48638646	48704431	1	None	Cav3.1, NBR13
17	CACNA1G	ENSG00000006283	ENST00000416767	protein_coding	PUTATIVE	None	1394	4668	1555	48638793	48683833	1	None	Cav3.1, NBR13
17	CACNA1G	ENSG00000006283	ENST00000502264	protein_coding	KNOWN	CCDS45737	1394	6921	2306	48638821	48704112	1	None	Cav3.1, NBR13
17	CACNA1G	ENSG00000006283	ENST00000512389	protein_coding	KNOWN	CCDS54143	1394	6822	2273	48638821	48704127	1	None	Cav3.1, NBR13
17	CACNA1G	ENSG00000006283	ENST00000513964	protein_coding	NOVEL	CCDS58575	1394	6720	2239	48638821	48704127	1	None	Cav3.1, NBR13
17	CACNA1G	ENSG00000006283	ENST00000514717	protein_coding	NOVEL	CCDS58576	1394	6684	2227	48638821	48704127	1	None	Cav3.1, NBR13
17	CACNA1G	ENSG00000006283	ENST00000510366	protein_coding	NOVEL	CCDS58573	1394	6699	2232	48638821	48704127	1	None	Cav3.1, NBR13
17	CACNA1G	ENSG00000006283	ENST00000503485	protein_coding	NOVEL	CCDS58572	1394	6753	2250	48638821	48704127	1	None	Cav3.1, NBR13
17	CACNA1G	ENSG00000006283	ENST00000507510	protein_coding	KNOWN	CCDS45731	1394	6999	2332	48638821	48704127	1	None	Cav3.1, NBR13
17	CACNA1G	ENSG00000006283	ENST00000511765	nonsense_mediated_decay	KNOWN	None	1394	5277	1758	48638821	48704127	1	None	Cav3.1, NBR13
17	CACNA1G	ENSG00000006283	ENST00000507336	protein_coding	NOVEL	CCDS58570	1394	7101	2366	48638821	48704127	1	None	Cav3.1, NBR13
17	CACNA1G	ENSG00000006283	ENST00000506406	nonsense_mediated_decay	KNOWN	None	1394	5331	1776	48638821	48704127	1	None	Cav3.1, NBR13
17	CACNA1G	ENSG00000006283	ENST00000504076	nonsense_mediated_decay	KNOWN	None	1394	5298	1765	48638821	48704127	1	None	Cav3.1, NBR13
17	CACNA1G	ENSG00000006283	ENST00000513689	protein_coding	NOVEL	CCDS58574	1394	6864	2287	48638821	48704127	1	None	Cav3.1, NBR13
17	CACNA1G	ENSG00000006283	ENST00000507609	protein_coding	NOVEL	CCDS58565	1394	6834	2277	48638821	48704127	1	None	Cav3.1, NBR13
17	CACNA1G	ENSG00000006283	ENST00000503436	nonsense_mediated_decay	KNOWN	None	1394	5262	1753	48638821	48704127	1	None	Cav3.1, NBR13
17	CACNA1G	ENSG00000006283	ENST00000510115	protein_coding	KNOWN	CCDS54146	1394	6897	2298	48638821	48704127	1	None	Cav3.1, NBR13
17	CACNA1G	ENSG00000006283	ENST00000515165	protein_coding	KNOWN	CCDS45732	1394	6855	2284	48638821	48704127	1	None	Cav3.1, NBR13
17	CACNA1G	ENSG00000006283	ENST00000514181	protein_coding	NOVEL	CCDS58567	1394	6780	2259	48638821	48704127	1	None	Cav3.1, NBR13
17	CACNA1G	ENSG00000006283	ENST00000515765	protein_coding	KNOWN	CCDS54142	1394	6966	2321	48638821	48704127	1	None	Cav3.1, NBR13
17	CACNA1G	ENSG00000006283	ENST00000514079	protein_coding	NOVEL	CCDS58569	1394	6876	2291	48638821	48704127	1	None	Cav3.1, NBR13
17	CACNA1G	ENSG00000006283	ENST00000507896	protein_coding	NOVEL	CCDS58571	1394	6585	2194	48638821	48704127	1	None	Cav3.1, NBR13
17	CACNA1G	ENSG00000006283	ENST00000511768	nonsense_mediated_decay	KNOWN	None	1394	5241	1746	48638821	48704127	1	None	Cav3.1, NBR13
17	CACNA1G	ENSG00000006283	ENST00000505165	protein_coding	NOVEL	CCDS58566	1394	6618	2205	48638821	48704127	1	None	Cav3.1, NBR13
17	CACNA1G	ENSG00000006283	ENST00000503607	nonsense_mediated_decay	KNOWN	None	1394	5208	1735	48638821	48704127	1	None	Cav3.1, NBR13
17	CACNA1G	ENSG00000006283	ENST00000515411	protein_coding	NOVEL	CCDS58568	1394	6945	2314	48638821	48704127	1	None	Cav3.1, NBR13
17	CACNA1G	ENSG00000006283	ENST00000429973	protein_coding	KNOWN	CCDS45733	1394	6801	2266	48638821	48704431	1	None	Cav3.1, NBR13
17	CACNA1G	ENSG00000006283	ENST00000359106	protein_coding	KNOWN	CCDS45730	1394	7134	2377	48638821	48704626	1	None	Cav3.1, NBR13
17	CACNA1G	ENSG00000006283	ENST00000358244	protein_coding	KNOWN	CCDS45736	1394	6516	2171	48638821	48704626	1	None	Cav3.1, NBR13
17	CACNA1G	ENSG00000006283	ENST00000570567	protein_coding	PUTATIVE	None	1394	834	277	48646526	48651035	1	None	Cav3.1, NBR13
17	CACNA1G	ENSG00000006283	ENST00000506520	protein_coding	PUTATIVE	None	1394	1014	337	48677086	48684871	1	None	Cav3.1, NBR13
17	CACNA1G	ENSG00000006283	ENST00000354983	protein_coding	KNOWN	CCDS45734	1394	7032	2343	48638449	48704542	1	None	Cav3.1, NBR13
17	CDRT1	ENSG00000241322	ENST00000472534	protein_coding	PUTATIVE	None	14379	211	69	15468798	15496722	-1	FBXW10P1	HREP, SM25H2, FBXW10B
17	CDRT1	ENSG00000241322	ENST00000354433	protein_coding	KNOWN	None	14379	759	252	15491702	15502111	-1	FBXW10P1	HREP, SM25H2, FBXW10B
17	CDRT1	ENSG00000241322	ENST00000395906	protein_coding	KNOWN	CCDS45619	14379	2259	752	15491977	15522826	-1	FBXW10P1	HREP, SM25H2, FBXW10B
17	CDRT1	ENSG00000241322	ENST00000583965	protein_coding	PUTATIVE	None	14379	237	78	15492216	15501932	-1	FBXW10P1	HREP, SM25H2, FBXW10B
17	CDRT1	ENSG00000241322	ENST00000571263	nonsense_mediated_decay	KNOWN	None	14379	264	87	15492216	15501932	-1	FBXW10P1	HREP, SM25H2, FBXW10B
17	CDRT1	ENSG00000241322	ENST00000475944	retained_intron	KNOWN	None	14379	None	None	15497867	15499946	-1	FBXW10P1	HREP, SM25H2, FBXW10B
17	CDRT1	ENSG00000241322	ENST00000261644	protein_coding	PUTATIVE	None	14379	902	299	15508538	15519008	-1	FBXW10P1	HREP, SM25H2, FBXW10B
1	OAZ3	ENSG00000143450	ENST00000321531	protein_coding	KNOWN	CCDS58028	8097	573	190	151735445	151743805	1	None	None
1	OAZ3	ENSG00000143450	ENST00000453029	protein_coding	PUTATIVE	None	8097	612	203	151735956	151743797	1	None	None
1	OAZ3	ENSG00000143450	ENST00000479764	protein_coding	PUTATIVE	None	8097	201	66	151736054	151743808	1	None	None
1	OAZ3	ENSG00000143450	ENST00000400999	protein_coding	PUTATIVE	None	8097	201	66	151739131	151743805	1	None	None
1	OAZ3	ENSG00000143450	ENST00000577465	processed_transcript	KNOWN	None	8097	None	None	151739166	151740655	1	None	None
1	OAZ3	ENSG00000143450	ENST00000582415	protein_coding	PUTATIVE	None	8097	102	33	151740645	151743806	1	None	None
1	OAZ3	ENSG00000143450	ENST00000315067	protein_coding	KNOWN	None	8097	573	190	151735445	151743805	1	None	None
4	SPCS3	ENSG00000129128	ENST00000503362	protein_coding	KNOWN	CCDS54823	26212	543	180	177241115	177253396	1	None	FLJ22649, SPC22/23, SPC3, YLR066W, PRO3567
4	SPCS3	ENSG00000129128	ENST00000507678	retained_intron	KNOWN	None	26212	None	None	177241142	177249557	1	None	FLJ22649, SPC22/23, SPC3, YLR066W, PRO3567
4	SPCS3	ENSG00000129128	ENST00000513139	retained_intron	KNOWN	None	26212	None	None	177241153	177248532	1	None	FLJ22649, SPC22/23, SPC3, YLR066W, PRO3567
4	SPCS3	ENSG00000129128	ENST00000507001	processed_transcript	PUTATIVE	None	26212	None	None	177248107	177249504	1	None	FLJ22649, SPC22/23, SPC3, YLR066W, PRO3567
19	NDUFA3	ENSG00000170906	ENST00000417903	nonsense_mediated_decay	KNOWN	None	7686	198	65	54606036	54610268	1	None	B9
19	NDUFA3	ENSG00000170906	ENST00000419113	nonsense_mediated_decay	KNOWN	CCDS12877	7686	255	84	54606129	54612011	1	None	B9
19	NDUFA3	ENSG00000170906	ENST00000485876	protein_coding	KNOWN	CCDS12877	7686	255	84	54606145	54610875	1	None	B9
19	NDUFA3	ENSG00000170906	ENST00000391762	protein_coding	PUTATIVE	None	7686	219	72	54606160	54610268	1	None	B9
19	NDUFA3	ENSG00000170906	ENST00000471292	protein_coding	PUTATIVE	None	7686	222	73	54606163	54609777	1	None	B9
19	NDUFA3	ENSG00000170906	ENST00000451517	nonsense_mediated_decay	KNOWN	None	7686	198	65	54606163	54610268	1	None	B9
19	NDUFA3	ENSG00000170906	ENST00000391763	protein_coding	PUTATIVE	None	7686	186	61	54606177	54610272	1	None	B9
19	NDUFA3	ENSG00000170906	ENST00000391764	protein_coding	PUTATIVE	None	7686	246	81	54606177	54611840	1	None	B9
19	NDUFA3	ENSG00000170906	ENST00000484103	retained_intron	KNOWN	None	7686	None	None	54606185	54610268	1	None	B9
19	NDUFA3	ENSG00000170906	ENST00000303553	protein_coding	PUTATIVE	None	7686	126	41	54606193	54610268	1	None	B9
19	NDUFA3	ENSG00000170906	ENST00000422029	nonsense_mediated_decay	KNOWN	None	7686	209	68	54606422	54612033	1	None	B9
19	NDUFA3	ENSG00000170906	ENST00000420296	protein_coding	PUTATIVE	None	7686	103	33	54609272	54610268	1	None	B9
19	NDUFA3	ENSG00000170906	ENST00000480713	processed_transcript	KNOWN	None	7686	None	None	54611854	54612236	1	None	B9
19	NDUFA3	ENSG00000170906	ENST00000482960	processed_transcript	KNOWN	None	7686	None	None	54612011	54612564	1	None	B9
8	None	ENSG00000254673	ENST00000534420	protein_coding	PUTATIVE	None	None	623	206	42873567	42932477	1	None	None
17	ARL16	ENSG00000214087	ENST00000397498	protein_coding	KNOWN	CCDS45813	27902	594	197	79648204	79650954	-1	None	None
17	ARL16	ENSG00000214087	ENST00000577142	retained_intron	KNOWN	None	27902	None	None	79648217	79650811	-1	None	None
17	ARL16	ENSG00000214087	ENST00000573392	protein_coding	PUTATIVE	None	27902	282	93	79648231	79650696	-1	None	None
17	ARL16	ENSG00000214087	ENST00000571082	retained_intron	KNOWN	None	27902	None	None	79648250	79650773	-1	None	None
17	ARL16	ENSG00000214087	ENST00000570910	retained_intron	KNOWN	None	27902	None	None	79648252	79650768	-1	None	None
17	ARL16	ENSG00000214087	ENST00000574938	protein_coding	PUTATIVE	None	27902	282	93	79648399	79650689	-1	None	None
17	ARL16	ENSG00000214087	ENST00000570561	protein_coding	PUTATIVE	None	27902	336	111	79648496	79650689	-1	None	None
17	ARL16	ENSG00000214087	ENST00000576135	protein_coding	PUTATIVE	None	27902	336	111	79648522	79650698	-1	None	None
17	ARL16	ENSG00000214087	ENST00000573569	retained_intron	KNOWN	None	27902	None	None	79648553	79650764	-1	None	None
17	ARL16	ENSG00000214087	ENST00000573715	nonsense_mediated_decay	KNOWN	None	27902	81	26	79648638	79650698	-1	None	None
17	ARL16	ENSG00000214087	ENST00000576914	nonsense_mediated_decay	KNOWN	None	27902	147	48	79648825	79650156	-1	None	None
17	ARL16	ENSG00000214087	ENST00000572704	retained_intron	KNOWN	None	27902	None	None	79649695	79650655	-1	None	None
17	ARL16	ENSG00000214087	ENST00000572937	retained_intron	KNOWN	None	27902	None	None	79649715	79650717	-1	None	None
7	None	ENSG00000269558	ENST00000593865	protein_coding	NOVEL	None	None	906	301	65112081	65113280	-1	None	None
7	URGCP	ENSG00000106608	ENST00000497914	processed_transcript	KNOWN	None	30890	None	None	43915493	43945910	-1	None	URG4, KIAA1507, FLJ20654, DKFZp666G166, DKFZp686O0457
7	URGCP	ENSG00000106608	ENST00000336086	protein_coding	KNOWN	CCDS43572	30890	2667	888	43915512	43929233	-1	None	URG4, KIAA1507, FLJ20654, DKFZp666G166, DKFZp686O0457
7	URGCP	ENSG00000106608	ENST00000402306	protein_coding	KNOWN	CCDS47577	30890	2769	922	43915512	43946214	-1	None	URG4, KIAA1507, FLJ20654, DKFZp666G166, DKFZp686O0457
7	URGCP	ENSG00000106608	ENST00000443736	protein_coding	KNOWN	CCDS43572	30890	2667	888	43915512	43946225	-1	None	URG4, KIAA1507, FLJ20654, DKFZp666G166, DKFZp686O0457
7	URGCP	ENSG00000106608	ENST00000453200	protein_coding	KNOWN	CCDS47578	30890	2796	931	43915514	43946668	-1	None	URG4, KIAA1507, FLJ20654, DKFZp666G166, DKFZp686O0457
7	URGCP	ENSG00000106608	ENST00000439702	nonsense_mediated_decay	KNOWN	None	30890	45	14	43918390	43946192	-1	None	URG4, KIAA1507, FLJ20654, DKFZp666G166, DKFZp686O0457
7	URGCP	ENSG00000106608	ENST00000426198	protein_coding	KNOWN	None	30890	490	162	43918443	43966010	-1	None	URG4, KIAA1507, FLJ20654, DKFZp666G166, DKFZp686O0457
7	URGCP	ENSG00000106608	ENST00000467410	retained_intron	KNOWN	None	30890	None	None	43918543	43921495	-1	None	URG4, KIAA1507, FLJ20654, DKFZp666G166, DKFZp686O0457
7	URGCP	ENSG00000106608	ENST00000455877	protein_coding	KNOWN	None	30890	367	121	43918566	43965937	-1	None	URG4, KIAA1507, FLJ20654, DKFZp666G166, DKFZp686O0457
7	URGCP	ENSG00000106608	ENST00000474376	retained_intron	KNOWN	None	30890	None	None	43918647	43921652	-1	None	URG4, KIAA1507, FLJ20654, DKFZp666G166, DKFZp686O0457
7	URGCP	ENSG00000106608	ENST00000446958	protein_coding	PUTATIVE	None	30890	291	96	43920737	43946226	-1	None	URG4, KIAA1507, FLJ20654, DKFZp666G166, DKFZp686O0457
7	URGCP	ENSG00000106608	ENST00000478747	retained_intron	KNOWN	None	30890	None	None	43927014	43927706	-1	None	URG4, KIAA1507, FLJ20654, DKFZp666G166, DKFZp686O0457
7	URGCP	ENSG00000106608	ENST00000477768	processed_transcript	KNOWN	None	30890	None	None	43927014	43966010	-1	None	URG4, KIAA1507, FLJ20654, DKFZp666G166, DKFZp686O0457
7	URGCP	ENSG00000106608	ENST00000223341	protein_coding	KNOWN	CCDS43572	30890	2667	888	43915505	43965996	-1	None	URG4, KIAA1507, FLJ20654, DKFZp666G166, DKFZp686O0457
7	URGCP	ENSG00000106608	ENST00000447717	protein_coding	KNOWN	CCDS43572	30890	2667	888	43916042	43966010	-1	None	URG4, KIAA1507, FLJ20654, DKFZp666G166, DKFZp686O0457
14	EFS	ENSG00000100842	ENST00000216733	protein_coding	KNOWN	CCDS9595	16898	1686	561	23825611	23834842	-1	None	EFS2, EFS1, HEFS, SIN, CASS3
14	EFS	ENSG00000100842	ENST00000351354	protein_coding	KNOWN	CCDS9596	16898	1407	468	23825865	23834961	-1	None	EFS2, EFS1, HEFS, SIN, CASS3
14	EFS	ENSG00000100842	ENST00000429593	protein_coding	KNOWN	None	16898	1179	392	23826093	23834419	-1	None	EFS2, EFS1, HEFS, SIN, CASS3
6	TNF	ENSG00000232810	ENST00000449264	protein_coding	KNOWN	CCDS4702	11892	702	233	31543344	31546113	1	TNFA	TNFSF2, DIF, TNF-alpha
7	VKORC1L1	ENSG00000196715	ENST00000360768	protein_coding	KNOWN	CCDS5529	21492	531	176	65338254	65424550	1	None	None
7	VKORC1L1	ENSG00000196715	ENST00000434382	protein_coding	NOVEL	None	21492	534	177	65338356	65420404	1	None	None
9	SPATA31D1	ENSG00000214929	ENST00000344803	protein_coding	KNOWN	CCDS47986	37283	4731	1576	84603687	84610171	1	FAM75D1	FLJ46321
9	SPATA31D1	ENSG00000214929	ENST00000603921	retained_intron	KNOWN	None	37283	None	None	84603703	84605063	1	FAM75D1	FLJ46321
1	LURAP1	ENSG00000171357	ENST00000371980	protein_coding	KNOWN	CCDS30703	32327	720	239	46669006	46686933	1	C1orf190	FLJ25163, LRAP35a
16	IGSF6	ENSG00000140749	ENST00000268389	protein_coding	KNOWN	CCDS10599	5953	726	241	21652609	21663981	-1	None	DORA
16	IGSF6	ENSG00000140749	ENST00000569602	protein_coding	NOVEL	None	5953	360	119	21655611	21663927	-1	None	DORA
16	IGSF6	ENSG00000140749	ENST00000565499	retained_intron	KNOWN	None	5953	None	None	21657707	21663929	-1	None	DORA
9	None	ENSG00000182347	ENST00000422953	processed_pseudogene	KNOWN	None	None	None	None	5084999	5086112	-1	None	None
1	None	ENSG00000224867	ENST00000416839	protein_coding	NOVEL	None	None	153	50	220603286	220608023	-1	None	None
5	AGGF1	ENSG00000164252	ENST00000503538	processed_transcript	KNOWN	None	24684	None	None	76325076	76332399	1	None	VG5Q, HSU84971, FLJ10283, GPATC7, GPATCH7
5	AGGF1	ENSG00000164252	ENST00000312916	protein_coding	KNOWN	CCDS4035	24684	2145	714	76326210	76361059	1	None	VG5Q, HSU84971, FLJ10283, GPATC7, GPATCH7
5	AGGF1	ENSG00000164252	ENST00000502408	nonsense_mediated_decay	KNOWN	None	24684	262	86	76326235	76335511	1	None	VG5Q, HSU84971, FLJ10283, GPATC7, GPATCH7
5	AGGF1	ENSG00000164252	ENST00000506806	protein_coding	KNOWN	None	24684	531	176	76326281	76331883	1	None	VG5Q, HSU84971, FLJ10283, GPATC7, GPATCH7
3	QRICH1	ENSG00000198218	ENST00000395443	protein_coding	KNOWN	CCDS2787	24713	2331	776	49067140	49131796	-1	None	FLJ20259
3	QRICH1	ENSG00000198218	ENST00000498392	retained_intron	KNOWN	None	24713	None	None	49067364	49071263	-1	None	FLJ20259
3	QRICH1	ENSG00000198218	ENST00000357496	protein_coding	KNOWN	CCDS2787	24713	2331	776	49067365	49131495	-1	None	FLJ20259
3	QRICH1	ENSG00000198218	ENST00000424300	protein_coding	KNOWN	CCDS2787	24713	2331	776	49067645	49131044	-1	None	FLJ20259
3	QRICH1	ENSG00000198218	ENST00000489642	retained_intron	KNOWN	None	24713	None	None	49067808	49081875	-1	None	FLJ20259
3	QRICH1	ENSG00000198218	ENST00000477021	processed_transcript	KNOWN	None	24713	None	None	49069616	49070634	-1	None	FLJ20259
3	QRICH1	ENSG00000198218	ENST00000469910	retained_intron	KNOWN	None	24713	None	None	49070052	49070601	-1	None	FLJ20259
3	QRICH1	ENSG00000198218	ENST00000498440	retained_intron	KNOWN	None	24713	None	None	49070480	49083891	-1	None	FLJ20259
3	QRICH1	ENSG00000198218	ENST00000479449	processed_transcript	KNOWN	None	24713	None	None	49070516	49095308	-1	None	FLJ20259
3	QRICH1	ENSG00000198218	ENST00000437939	protein_coding	PUTATIVE	None	24713	311	102	49114140	49131504	-1	None	FLJ20259
3	QRICH1	ENSG00000198218	ENST00000450685	protein_coding	PUTATIVE	None	24713	311	102	49114140	49131663	-1	None	FLJ20259
3	QRICH1	ENSG00000198218	ENST00000411682	protein_coding	PUTATIVE	None	24713	311	102	49114140	49131796	-1	None	FLJ20259
3	QRICH1	ENSG00000198218	ENST00000430979	protein_coding	PUTATIVE	None	24713	145	47	49114306	49131484	-1	None	FLJ20259
2	MCEE	ENSG00000124370	ENST00000413592	protein_coding	NOVEL	None	16732	237	78	71336814	71351581	-1	None	GLOD2
2	MCEE	ENSG00000124370	ENST00000244217	protein_coding	KNOWN	CCDS1915	16732	531	176	71336814	71357367	-1	None	GLOD2
2	MCEE	ENSG00000124370	ENST00000462609	processed_transcript	KNOWN	None	16732	None	None	71336944	71345514	-1	None	GLOD2
2	MCEE	ENSG00000124370	ENST00000494660	protein_coding	PUTATIVE	None	16732	93	30	71351336	71357344	-1	None	GLOD2
2	MCEE	ENSG00000124370	ENST00000486135	protein_coding	PUTATIVE	None	16732	93	30	71351336	71357369	-1	None	GLOD2
1	RAD54L	ENSG00000085999	ENST00000463715	processed_transcript	KNOWN	None	9826	None	None	46713360	46727030	1	None	hHR54, hRAD54, RAD54A
1	RAD54L	ENSG00000085999	ENST00000493985	processed_transcript	KNOWN	None	9826	None	None	46713372	46726687	1	None	hHR54, hRAD54, RAD54A
1	RAD54L	ENSG00000085999	ENST00000371975	protein_coding	KNOWN	CCDS532	9826	2244	747	46713404	46744144	1	None	hHR54, hRAD54, RAD54A
1	RAD54L	ENSG00000085999	ENST00000469835	processed_transcript	KNOWN	None	9826	None	None	46713441	46726529	1	None	hHR54, hRAD54, RAD54A
1	RAD54L	ENSG00000085999	ENST00000493032	processed_transcript	KNOWN	None	9826	None	None	46714184	46726687	1	None	hHR54, hRAD54, RAD54A
1	RAD54L	ENSG00000085999	ENST00000487700	processed_transcript	KNOWN	None	9826	None	None	46714184	46733256	1	None	hHR54, hRAD54, RAD54A
1	RAD54L	ENSG00000085999	ENST00000472889	processed_transcript	KNOWN	None	9826	None	None	46725636	46733280	1	None	hHR54, hRAD54, RAD54A
1	RAD54L	ENSG00000085999	ENST00000473251	processed_transcript	KNOWN	None	9826	None	None	46726520	46738472	1	None	hHR54, hRAD54, RAD54A
1	RAD54L	ENSG00000085999	ENST00000476687	processed_transcript	KNOWN	None	9826	None	None	46727010	46739353	1	None	hHR54, hRAD54, RAD54A
1	RAD54L	ENSG00000085999	ENST00000488942	processed_transcript	KNOWN	None	9826	None	None	46738138	46744111	1	None	hHR54, hRAD54, RAD54A
1	RAD54L	ENSG00000085999	ENST00000459678	processed_transcript	KNOWN	None	9826	None	None	46738177	46743817	1	None	hHR54, hRAD54, RAD54A
1	RAD54L	ENSG00000085999	ENST00000442598	protein_coding	KNOWN	CCDS532	9826	2244	747	46713367	46744145	1	None	hHR54, hRAD54, RAD54A
6	OPRM1	ENSG00000112038	ENST00000520282	protein_coding	PUTATIVE	None	8156	488	161	154331631	154411014	1	None	MOR1
6	OPRM1	ENSG00000112038	ENST00000434900	protein_coding	KNOWN	CCDS47503	8156	1482	493	154331636	154439889	1	None	MOR1
6	OPRM1	ENSG00000112038	ENST00000520708	protein_coding	PUTATIVE	CCDS55071	8156	903	300	154331636	154439944	1	None	MOR1
6	OPRM1	ENSG00000112038	ENST00000518759	protein_coding	PUTATIVE	CCDS55068	8156	960	319	154331636	154439944	1	None	MOR1
6	OPRM1	ENSG00000112038	ENST00000330432	protein_coding	KNOWN	CCDS55070	8156	1203	400	154360443	154440594	1	None	MOR1
6	OPRM1	ENSG00000112038	ENST00000428397	protein_coding	KNOWN	CCDS47508	8156	1179	392	154360484	154412728	1	None	MOR1
6	OPRM1	ENSG00000112038	ENST00000523520	processed_transcript	KNOWN	None	8156	None	None	154360499	154395593	1	None	MOR1
6	OPRM1	ENSG00000112038	ENST00000452687	protein_coding	KNOWN	CCDS47504	8156	1221	406	154360591	154431588	1	None	MOR1
6	OPRM1	ENSG00000112038	ENST00000522739	nonsense_mediated_decay	KNOWN	None	8156	1209	402	154360610	154439942	1	None	MOR1
6	OPRM1	ENSG00000112038	ENST00000524150	nonsense_mediated_decay	KNOWN	None	8156	561	186	154360614	154567994	1	None	MOR1
6	OPRM1	ENSG00000112038	ENST00000229768	protein_coding	KNOWN	CCDS43518	8156	1341	446	154360630	154414655	1	None	MOR1
6	OPRM1	ENSG00000112038	ENST00000419506	protein_coding	KNOWN	CCDS47507	8156	1263	420	154360630	154428787	1	None	MOR1
6	OPRM1	ENSG00000112038	ENST00000524163	protein_coding	KNOWN	CCDS55069	8156	1170	389	154360630	154428787	1	None	MOR1
6	OPRM1	ENSG00000112038	ENST00000519083	nonsense_mediated_decay	KNOWN	None	8156	1209	402	154360630	154430153	1	None	MOR1
6	OPRM1	ENSG00000112038	ENST00000414028	protein_coding	KNOWN	CCDS47506	8156	1212	403	154360630	154430153	1	None	MOR1
6	OPRM1	ENSG00000112038	ENST00000435918	protein_coding	KNOWN	CCDS47505	8156	1194	397	154360630	154430153	1	None	MOR1
6	OPRM1	ENSG00000112038	ENST00000337049	protein_coding	KNOWN	CCDS43517	8156	1257	418	154360630	154568001	1	None	MOR1
6	OPRM1	ENSG00000112038	ENST00000519613	processed_transcript	KNOWN	None	8156	None	None	154404625	154439848	1	None	MOR1
6	OPRM1	ENSG00000112038	ENST00000522555	protein_coding	PUTATIVE	CCDS55071	8156	903	300	154407642	154440104	1	None	MOR1
6	OPRM1	ENSG00000112038	ENST00000522236	protein_coding	PUTATIVE	CCDS55071	8156	903	300	154407642	154440104	1	None	MOR1
6	OPRM1	ENSG00000112038	ENST00000522382	processed_transcript	KNOWN	None	8156	None	None	154410897	154413073	1	None	MOR1
6	OPRM1	ENSG00000112038	ENST00000521106	processed_transcript	KNOWN	None	8156	None	None	154410961	154413092	1	None	MOR1
6	OPRM1	ENSG00000112038	ENST00000360422	protein_coding	KNOWN	None	8156	1209	402	154360443	154415389	1	None	MOR1
6	UBE3D	ENSG00000118420	ENST00000369747	protein_coding	KNOWN	CCDS34491	21381	1170	389	83602117	83775560	-1	C6orf157, UBE2CBP	DKFZp434A1520, H10BH, YJR141W
6	UBE3D	ENSG00000118420	ENST00000237186	nonsense_mediated_decay	KNOWN	None	21381	111	36	83602117	83775560	-1	C6orf157, UBE2CBP	DKFZp434A1520, H10BH, YJR141W
6	UBE3D	ENSG00000118420	ENST00000503942	processed_transcript	KNOWN	None	21381	None	None	83602186	83603752	-1	C6orf157, UBE2CBP	DKFZp434A1520, H10BH, YJR141W
6	UBE3D	ENSG00000118420	ENST00000509102	nonsense_mediated_decay	KNOWN	None	21381	855	284	83602672	83775470	-1	C6orf157, UBE2CBP	DKFZp434A1520, H10BH, YJR141W
6	UBE3D	ENSG00000118420	ENST00000430071	nonsense_mediated_decay	KNOWN	None	21381	369	122	83602744	83775558	-1	C6orf157, UBE2CBP	DKFZp434A1520, H10BH, YJR141W
6	UBE3D	ENSG00000118420	ENST00000369746	nonsense_mediated_decay	KNOWN	None	21381	551	182	83726901	83767688	-1	C6orf157, UBE2CBP	DKFZp434A1520, H10BH, YJR141W
6	UBE3D	ENSG00000118420	ENST00000505226	nonsense_mediated_decay	KNOWN	None	21381	114	37	83745745	83775542	-1	C6orf157, UBE2CBP	DKFZp434A1520, H10BH, YJR141W
6	UBE3D	ENSG00000118420	ENST00000369745	protein_coding	KNOWN	None	21381	114	37	83772928	83775478	-1	C6orf157, UBE2CBP	DKFZp434A1520, H10BH, YJR141W
8	FNTA	ENSG00000168522	ENST00000533559	processed_transcript	KNOWN	None	3782	None	None	42889337	42924726	1	None	FPTA, PGGT1A, PTAR2
8	FNTA	ENSG00000168522	ENST00000302279	protein_coding	KNOWN	CCDS6140	3782	1140	379	42911296	42940931	1	None	FPTA, PGGT1A, PTAR2
8	FNTA	ENSG00000168522	ENST00000526755	nonsense_mediated_decay	KNOWN	None	3782	204	67	42911451	42940931	1	None	FPTA, PGGT1A, PTAR2
8	FNTA	ENSG00000168522	ENST00000527153	processed_transcript	KNOWN	None	3782	None	None	42911471	42932415	1	None	FPTA, PGGT1A, PTAR2
8	FNTA	ENSG00000168522	ENST00000533383	nonsense_mediated_decay	KNOWN	None	3782	204	67	42911473	42940336	1	None	FPTA, PGGT1A, PTAR2
8	FNTA	ENSG00000168522	ENST00000533998	nonsense_mediated_decay	KNOWN	None	3782	354	117	42911474	42939900	1	None	FPTA, PGGT1A, PTAR2
8	FNTA	ENSG00000168522	ENST00000524546	processed_transcript	KNOWN	None	3782	None	None	42911498	42925496	1	None	FPTA, PGGT1A, PTAR2
8	FNTA	ENSG00000168522	ENST00000531266	protein_coding	NOVEL	None	3782	590	195	42911505	42932369	1	None	FPTA, PGGT1A, PTAR2
8	FNTA	ENSG00000168522	ENST00000533368	retained_intron	KNOWN	None	3782	None	None	42911558	42932528	1	None	FPTA, PGGT1A, PTAR2
8	FNTA	ENSG00000168522	ENST00000525699	protein_coding	PUTATIVE	None	3782	180	59	42911735	42927450	1	None	FPTA, PGGT1A, PTAR2
8	FNTA	ENSG00000168522	ENST00000529687	protein_coding	PUTATIVE	None	3782	687	228	42911816	42940923	1	None	FPTA, PGGT1A, PTAR2
8	FNTA	ENSG00000168522	ENST00000533336	protein_coding	PUTATIVE	None	3782	748	248	42914095	42939941	1	None	FPTA, PGGT1A, PTAR2
8	FNTA	ENSG00000168522	ENST00000525099	retained_intron	KNOWN	None	3782	None	None	42931790	42940923	1	None	FPTA, PGGT1A, PTAR2
8	FNTA	ENSG00000168522	ENST00000528400	retained_intron	KNOWN	None	3782	None	None	42939771	42940649	1	None	FPTA, PGGT1A, PTAR2
8	FNTA	ENSG00000168522	ENST00000342116	protein_coding	KNOWN	None	3782	939	312	42911482	42940923	1	None	FPTA, PGGT1A, PTAR2
6	LTB	ENSG00000227507	ENST00000483972	processed_transcript	KNOWN	None	6711	None	None	31548302	31550299	-1	TNFC	p33, TNFSF3
6	LTB	ENSG00000227507	ENST00000429299	protein_coding	KNOWN	CCDS4703	6711	735	244	31548332	31550202	-1	TNFC	p33, TNFSF3
6	LTB	ENSG00000227507	ENST00000446745	protein_coding	KNOWN	CCDS4704	6711	234	77	31548332	31550204	-1	TNFC	p33, TNFSF3
6	LTB	ENSG00000227507	ENST00000482429	retained_intron	KNOWN	None	6711	None	None	31548401	31550183	-1	TNFC	p33, TNFSF3
1	MARK1	ENSG00000116141	ENST00000366918	protein_coding	KNOWN	None	6896	2277	758	220701568	220837803	1	None	MARK, PAR-1C
1	MARK1	ENSG00000116141	ENST00000472121	processed_transcript	KNOWN	None	6896	None	None	220701801	220756233	1	None	MARK, PAR-1C
1	MARK1	ENSG00000116141	ENST00000366917	protein_coding	KNOWN	CCDS31029	6896	2388	795	220701899	220835800	1	None	MARK, PAR-1C
1	MARK1	ENSG00000116141	ENST00000485104	processed_transcript	KNOWN	None	6896	None	None	220702192	220752850	1	None	MARK, PAR-1C
1	MARK1	ENSG00000116141	ENST00000402574	protein_coding	KNOWN	None	6896	1938	645	220701568	220837798	1	None	MARK, PAR-1C
12	LINC00935	ENSG00000257987	ENST00000548380	protein_coding	PUTATIVE	None	48628	396	131	49121218	49159569	1	None	None
12	LINC00935	ENSG00000257987	ENST00000548054	nonsense_mediated_decay	KNOWN	None	48628	141	46	49121240	49159568	1	None	None
16	CENPN	ENSG00000166451	ENST00000305850	protein_coding	NOVEL	CCDS42200	30873	1020	339	81040103	81062927	1	C16orf60	FLJ13607, FLJ22660, BM039
16	CENPN	ENSG00000166451	ENST00000299572	protein_coding	KNOWN	CCDS10931	30873	615	204	81040157	81056490	1	C16orf60	FLJ13607, FLJ22660, BM039
16	CENPN	ENSG00000166451	ENST00000439957	protein_coding	NOVEL	CCDS58483	30873	960	319	81040812	81062914	1	C16orf60	FLJ13607, FLJ22660, BM039
16	CENPN	ENSG00000166451	ENST00000393335	protein_coding	PUTATIVE	CCDS42199	30873	1062	353	81040819	81066719	1	C16orf60	FLJ13607, FLJ22660, BM039
16	CENPN	ENSG00000166451	ENST00000569461	processed_transcript	PUTATIVE	None	30873	None	None	81040828	81053751	1	C16orf60	FLJ13607, FLJ22660, BM039
16	CENPN	ENSG00000166451	ENST00000428963	protein_coding	PUTATIVE	CCDS58482	30873	918	305	81040849	81062265	1	C16orf60	FLJ13607, FLJ22660, BM039
16	CENPN	ENSG00000166451	ENST00000564669	protein_coding	KNOWN	None	30873	531	176	81040862	81053881	1	C16orf60	FLJ13607, FLJ22660, BM039
16	CENPN	ENSG00000166451	ENST00000568445	nonsense_mediated_decay	KNOWN	None	30873	231	76	81040868	81051441	1	C16orf60	FLJ13607, FLJ22660, BM039
16	CENPN	ENSG00000166451	ENST00000562943	protein_coding	PUTATIVE	None	30873	317	104	81051360	81056479	1	C16orf60	FLJ13607, FLJ22660, BM039
11	DKK3	ENSG00000050165	ENST00000527132	processed_transcript	KNOWN	None	2893	None	None	11984653	12030177	-1	None	REIC, RIG
11	DKK3	ENSG00000050165	ENST00000396505	protein_coding	KNOWN	CCDS7808	2893	1053	350	11984653	12030629	-1	None	REIC, RIG
11	DKK3	ENSG00000050165	ENST00000326932	protein_coding	KNOWN	CCDS7808	2893	1053	350	11984653	12030917	-1	None	REIC, RIG
11	DKK3	ENSG00000050165	ENST00000525493	protein_coding	PUTATIVE	None	2893	1095	364	11985938	12031316	-1	None	REIC, RIG
11	DKK3	ENSG00000050165	ENST00000528188	processed_transcript	KNOWN	None	2893	None	None	11986162	12016266	-1	None	REIC, RIG
11	DKK3	ENSG00000050165	ENST00000532372	retained_intron	KNOWN	None	2893	None	None	11987397	11990293	-1	None	REIC, RIG
11	DKK3	ENSG00000050165	ENST00000525927	processed_transcript	KNOWN	None	2893	None	None	11987420	12001463	-1	None	REIC, RIG
11	DKK3	ENSG00000050165	ENST00000532873	processed_transcript	KNOWN	None	2893	None	None	11987427	12030444	-1	None	REIC, RIG
11	DKK3	ENSG00000050165	ENST00000533813	protein_coding	KNOWN	None	2893	704	233	11987482	12030758	-1	None	REIC, RIG
11	DKK3	ENSG00000050165	ENST00000534511	protein_coding	PUTATIVE	None	2893	550	182	11988540	12030171	-1	None	REIC, RIG
11	DKK3	ENSG00000050165	ENST00000529338	protein_coding	PUTATIVE	None	2893	396	131	11989990	12030684	-1	None	REIC, RIG
11	DKK3	ENSG00000050165	ENST00000526218	processed_transcript	KNOWN	None	2893	None	None	12000387	12031272	-1	None	REIC, RIG
11	DKK3	ENSG00000050165	ENST00000531309	retained_intron	KNOWN	None	2893	None	None	12019747	12023973	-1	None	REIC, RIG
11	DKK3	ENSG00000050165	ENST00000530694	processed_transcript	KNOWN	None	2893	None	None	12023222	12031284	-1	None	REIC, RIG
11	DKK3	ENSG00000050165	ENST00000534479	retained_intron	KNOWN	None	2893	None	None	12023296	12030877	-1	None	REIC, RIG
11	DKK3	ENSG00000050165	ENST00000533900	processed_transcript	KNOWN	None	2893	None	None	12023451	12030759	-1	None	REIC, RIG
11	DKK3	ENSG00000050165	ENST00000450094	protein_coding	KNOWN	None	2893	969	322	11985978	12030130	-1	None	REIC, RIG
2	MPHOSPH10	ENSG00000124383	ENST00000244230	protein_coding	KNOWN	CCDS1916	7213	2046	681	71357444	71377231	1	None	MPP10, MPP10P, CT90
2	MPHOSPH10	ENSG00000124383	ENST00000498451	protein_coding	PUTATIVE	None	7213	1389	462	71357762	71366555	1	None	MPP10, MPP10P, CT90
2	MPHOSPH10	ENSG00000124383	ENST00000468427	processed_transcript	PUTATIVE	None	7213	None	None	71357764	71360298	1	None	MPP10, MPP10P, CT90
2	MPHOSPH10	ENSG00000124383	ENST00000476969	retained_intron	KNOWN	None	7213	None	None	71371370	71376417	1	None	MPP10, MPP10P, CT90
2	MPHOSPH10	ENSG00000124383	ENST00000493360	retained_intron	KNOWN	None	7213	None	None	71375236	71377231	1	None	MPP10, MPP10P, CT90
3	PPP2R3A	ENSG00000073711	ENST00000264977	protein_coding	KNOWN	CCDS3087	9307	3453	1150	135684515	135866733	1	PPP2R3	None
3	PPP2R3A	ENSG00000073711	ENST00000490467	protein_coding	NOVEL	CCDS54642	9307	1245	414	135684586	135864226	1	PPP2R3	None
3	PPP2R3A	ENSG00000073711	ENST00000334546	protein_coding	KNOWN	CCDS3088	9307	1590	529	135741577	135864279	1	PPP2R3	None
3	PPP2R3A	ENSG00000073711	ENST00000447251	nonsense_mediated_decay	KNOWN	None	9307	574	190	135745799	135806728	1	PPP2R3	None
3	PPP2R3A	ENSG00000073711	ENST00000469270	processed_transcript	PUTATIVE	None	9307	None	None	135820945	135825762	1	PPP2R3	None
3	PPP2R3A	ENSG00000073711	ENST00000492624	protein_coding	KNOWN	None	9307	486	161	135745799	135801265	1	PPP2R3	None
2	PDE1A	ENSG00000115252	ENST00000435564	protein_coding	KNOWN	CCDS2285	8774	1638	545	183004763	183387304	-1	None	None
2	PDE1A	ENSG00000115252	ENST00000409365	protein_coding	KNOWN	None	8774	1590	529	183011763	183291758	-1	None	None
2	PDE1A	ENSG00000115252	ENST00000410103	protein_coding	KNOWN	CCDS33344	8774	1608	535	183032666	183387465	-1	None	None
2	PDE1A	ENSG00000115252	ENST00000482538	processed_transcript	KNOWN	None	8774	None	None	183088659	183106713	-1	None	None
2	PDE1A	ENSG00000115252	ENST00000462938	processed_transcript	KNOWN	None	8774	None	None	183095790	183387039	-1	None	None
2	PDE1A	ENSG00000115252	ENST00000482782	processed_transcript	KNOWN	None	8774	None	None	183099159	183387833	-1	None	None
2	PDE1A	ENSG00000115252	ENST00000495511	processed_transcript	KNOWN	None	8774	None	None	183099159	183387919	-1	None	None
2	PDE1A	ENSG00000115252	ENST00000331935	protein_coding	KNOWN	CCDS2285	8774	1638	545	183011806	183387103	-1	None	None
2	PDE1A	ENSG00000115252	ENST00000346717	protein_coding	KNOWN	None	8774	1536	511	183007354	183106641	-1	None	None
2	PDE1A	ENSG00000115252	ENST00000536095	protein_coding	KNOWN	None	8774	1326	441	183007354	183387064	-1	None	None
2	PDE1A	ENSG00000115252	ENST00000358139	protein_coding	KNOWN	CCDS33344	8774	1608	535	183032974	183387103	-1	None	None
2	PDE1A	ENSG00000115252	ENST00000351439	protein_coding	KNOWN	CCDS58741	8774	1560	519	183032663	183291749	-1	None	None
2	PDE1A	ENSG00000115252	ENST00000456212	protein_coding	KNOWN	None	8774	1659	552	183050524	183387103	-1	None	None
4	VEGFC	ENSG00000150630	ENST00000280193	protein_coding	KNOWN	CCDS43285	12682	1263	420	177604689	177713881	-1	None	VRP
4	VEGFC	ENSG00000150630	ENST00000507638	processed_transcript	KNOWN	None	12682	None	None	177610454	177650746	-1	None	VRP
15	STRA6	ENSG00000137868	ENST00000395105	protein_coding	KNOWN	CCDS10261	30650	2004	667	74471807	74495220	-1	None	FLJ12541
15	STRA6	ENSG00000137868	ENST00000423167	protein_coding	KNOWN	CCDS45301	30650	1977	658	74471807	74501310	-1	None	FLJ12541
15	STRA6	ENSG00000137868	ENST00000323940	protein_coding	KNOWN	CCDS10261	30650	2004	667	74471807	74501371	-1	None	FLJ12541
15	STRA6	ENSG00000137868	ENST00000449139	protein_coding	KNOWN	CCDS10261	30650	2004	667	74471807	74504566	-1	None	FLJ12541
15	STRA6	ENSG00000137868	ENST00000416286	protein_coding	NOVEL	None	30650	1980	659	74471807	74504608	-1	None	FLJ12541
15	STRA6	ENSG00000137868	ENST00000545137	retained_intron	KNOWN	None	30650	None	None	74471810	74488630	-1	None	FLJ12541
15	STRA6	ENSG00000137868	ENST00000574439	processed_transcript	KNOWN	None	30650	None	None	74471810	74495556	-1	None	FLJ12541
15	STRA6	ENSG00000137868	ENST00000535552	protein_coding	KNOWN	CCDS55974	30650	2115	704	74472156	74502046	-1	None	FLJ12541
15	STRA6	ENSG00000137868	ENST00000563965	protein_coding	KNOWN	CCDS55973	30650	2121	706	74472316	74495199	-1	None	FLJ12541
15	STRA6	ENSG00000137868	ENST00000574278	protein_coding	PUTATIVE	CCDS58387	30650	2049	682	74472343	74500395	-1	None	FLJ12541
15	STRA6	ENSG00000137868	ENST00000572785	protein_coding	NOVEL	None	30650	797	264	74472483	74481574	-1	None	FLJ12541
15	STRA6	ENSG00000137868	ENST00000575272	retained_intron	KNOWN	None	30650	None	None	74474568	74475219	-1	None	FLJ12541
15	STRA6	ENSG00000137868	ENST00000569936	nonsense_mediated_decay	KNOWN	None	30650	1434	477	74474789	74495433	-1	None	FLJ12541
15	STRA6	ENSG00000137868	ENST00000572975	retained_intron	KNOWN	None	30650	None	None	74483226	74484349	-1	None	FLJ12541
15	STRA6	ENSG00000137868	ENST00000432245	protein_coding	KNOWN	CCDS45302	30650	480	159	74486728	74501319	-1	None	FLJ12541
15	STRA6	ENSG00000137868	ENST00000573724	retained_intron	KNOWN	None	30650	None	None	74487672	74494746	-1	None	FLJ12541
15	STRA6	ENSG00000137868	ENST00000573456	processed_transcript	KNOWN	None	30650	None	None	74487764	74494844	-1	None	FLJ12541
15	STRA6	ENSG00000137868	ENST00000573214	retained_intron	KNOWN	None	30650	None	None	74487926	74494791	-1	None	FLJ12541
15	STRA6	ENSG00000137868	ENST00000574570	processed_transcript	KNOWN	None	30650	None	None	74488445	74495190	-1	None	FLJ12541
15	STRA6	ENSG00000137868	ENST00000571341	protein_coding	KNOWN	None	30650	266	87	74489679	74494791	-1	None	FLJ12541
15	STRA6	ENSG00000137868	ENST00000573391	nonsense_mediated_decay	KNOWN	None	30650	264	87	74489680	74495397	-1	None	FLJ12541
1	LRRC41	ENSG00000132128	ENST00000496156	processed_transcript	KNOWN	None	16917	None	None	46726868	46746833	-1	None	MUF1
1	LRRC41	ENSG00000132128	ENST00000343304	protein_coding	KNOWN	CCDS533	16917	2439	812	46744072	46769280	-1	None	MUF1
1	LRRC41	ENSG00000132128	ENST00000472710	processed_transcript	KNOWN	None	16917	None	None	46744076	46765562	-1	None	MUF1
1	LRRC41	ENSG00000132128	ENST00000498402	processed_transcript	KNOWN	None	16917	None	None	46749839	46768946	-1	None	MUF1
1	LRRC41	ENSG00000132128	ENST00000469150	processed_transcript	KNOWN	None	16917	None	None	46762414	46766452	-1	None	MUF1
10	ABLIM1	ENSG00000099204	ENST00000392952	protein_coding	KNOWN	CCDS31289	78	1368	455	116190872	116286690	-1	LIMAB1, ABLIM	abLIM, limatin
10	ABLIM1	ENSG00000099204	ENST00000392955	nonsense_mediated_decay	KNOWN	None	78	1968	655	116190872	116444216	-1	LIMAB1, ABLIM	abLIM, limatin
10	ABLIM1	ENSG00000099204	ENST00000369253	protein_coding	NOVEL	None	78	1206	401	116195200	116286594	-1	LIMAB1, ABLIM	abLIM, limatin
10	ABLIM1	ENSG00000099204	ENST00000369256	nonsense_mediated_decay	KNOWN	None	78	2066	687	116195713	116444762	-1	LIMAB1, ABLIM	abLIM, limatin
10	ABLIM1	ENSG00000099204	ENST00000277895	protein_coding	KNOWN	CCDS7590	78	2337	778	116195797	116418057	-1	LIMAB1, ABLIM	abLIM, limatin
10	ABLIM1	ENSG00000099204	ENST00000485570	retained_intron	KNOWN	None	78	None	None	116199376	116200800	-1	LIMAB1, ABLIM	abLIM, limatin
10	ABLIM1	ENSG00000099204	ENST00000440467	protein_coding	PUTATIVE	None	78	519	172	116209838	116247752	-1	LIMAB1, ABLIM	abLIM, limatin
10	ABLIM1	ENSG00000099204	ENST00000428430	protein_coding	KNOWN	None	78	520	172	116211404	116286677	-1	LIMAB1, ABLIM	abLIM, limatin
10	ABLIM1	ENSG00000099204	ENST00000466400	retained_intron	KNOWN	None	78	None	None	116225224	116228024	-1	LIMAB1, ABLIM	abLIM, limatin
10	ABLIM1	ENSG00000099204	ENST00000481974	retained_intron	KNOWN	None	78	None	None	116307250	116335296	-1	LIMAB1, ABLIM	abLIM, limatin
10	ABLIM1	ENSG00000099204	ENST00000477638	processed_transcript	KNOWN	None	78	None	None	116354761	116370476	-1	LIMAB1, ABLIM	abLIM, limatin
10	ABLIM1	ENSG00000099204	ENST00000533213	protein_coding	KNOWN	None	78	2157	718	116190872	116444414	-1	LIMAB1, ABLIM	abLIM, limatin
10	ABLIM1	ENSG00000099204	ENST00000369252	protein_coding	KNOWN	CCDS31288	78	2157	718	116190872	116444414	-1	LIMAB1, ABLIM	abLIM, limatin
10	ABLIM1	ENSG00000099204	ENST00000369266	protein_coding	KNOWN	None	78	1368	455	116190872	116286685	-1	LIMAB1, ABLIM	abLIM, limatin
1	C1orf115	ENSG00000162817	ENST00000294889	protein_coding	KNOWN	CCDS1524	25873	429	142	220863187	220872499	1	None	FLJ14146
9	MTND6P5	ENSG00000227730	ENST00000448266	unprocessed_pseudogene	KNOWN	None	39468	None	None	5091093	5091604	1	None	None
9	MTND1P11	ENSG00000228166	ENST00000456661	unprocessed_pseudogene	KNOWN	None	42060	None	None	5094139	5095014	1	None	None
1	TDRKH	ENSG00000182134	ENST00000525790	nonsense_mediated_decay	KNOWN	None	11713	423	140	151742583	151762964	-1	None	TDRD2
1	TDRKH	ENSG00000182134	ENST00000368827	protein_coding	KNOWN	CCDS41394	11713	1686	561	151744040	151762998	-1	None	TDRD2
1	TDRKH	ENSG00000182134	ENST00000368825	protein_coding	KNOWN	CCDS41395	11713	1551	516	151745955	151762955	-1	None	TDRD2
1	TDRKH	ENSG00000182134	ENST00000368824	protein_coding	KNOWN	CCDS41394	11713	1686	561	151745960	151762998	-1	None	TDRD2
1	TDRKH	ENSG00000182134	ENST00000368823	protein_coding	NOVEL	None	11713	1674	557	151745968	151762964	-1	None	TDRD2
1	TDRKH	ENSG00000182134	ENST00000368822	protein_coding	KNOWN	CCDS41394	11713	1686	561	151745970	151763892	-1	None	TDRD2
1	TDRKH	ENSG00000182134	ENST00000458431	protein_coding	KNOWN	CCDS41394	11713	1686	561	151745974	151762981	-1	None	TDRD2
1	TDRKH	ENSG00000182134	ENST00000526413	nonsense_mediated_decay	KNOWN	None	11713	423	140	151746575	151762906	-1	None	TDRD2
1	TDRKH	ENSG00000182134	ENST00000484421	processed_transcript	KNOWN	None	11713	None	None	151751109	151755525	-1	None	TDRD2
1	TDRKH	ENSG00000182134	ENST00000486986	retained_intron	KNOWN	None	11713	None	None	151752219	151762959	-1	None	TDRD2
1	TDRKH	ENSG00000182134	ENST00000526378	protein_coding	KNOWN	None	11713	393	130	151752455	151756247	-1	None	TDRD2
1	TDRKH	ENSG00000182134	ENST00000494725	retained_intron	KNOWN	None	11713	None	None	151752466	151755664	-1	None	TDRD2
1	TDRKH	ENSG00000182134	ENST00000530202	nonsense_mediated_decay	KNOWN	None	11713	177	58	151752563	151762909	-1	None	TDRD2
1	TDRKH	ENSG00000182134	ENST00000463553	retained_intron	KNOWN	None	11713	None	None	151755256	151762956	-1	None	TDRD2
1	TDRKH	ENSG00000182134	ENST00000440583	protein_coding	KNOWN	None	11713	1014	337	151746575	151762906	-1	None	TDRD2
9	None	ENSG00000224083	ENST00000429111	unprocessed_pseudogene	KNOWN	None	None	None	None	5096666	5098193	1	None	None
16	CLEC18A	ENSG00000157322	ENST00000393701	protein_coding	KNOWN	CCDS10886	30388	1341	446	69984810	69997889	1	None	MRCL
16	CLEC18A	ENSG00000157322	ENST00000568461	protein_coding	KNOWN	CCDS10886	30388	1341	446	69984889	69997889	1	None	MRCL
16	CLEC18A	ENSG00000157322	ENST00000568102	retained_intron	KNOWN	None	30388	None	None	69985077	69997889	1	None	MRCL
16	CLEC18A	ENSG00000157322	ENST00000288040	protein_coding	KNOWN	CCDS10886	30388	1341	446	69985083	69998141	1	None	MRCL
16	CLEC18A	ENSG00000157322	ENST00000565705	retained_intron	KNOWN	None	30388	None	None	69985180	69995303	1	None	MRCL
16	CLEC18A	ENSG00000157322	ENST00000565245	retained_intron	KNOWN	None	30388	None	None	69985376	69987715	1	None	MRCL
16	CLEC18A	ENSG00000157322	ENST00000561889	protein_coding	PUTATIVE	None	30388	200	65	69985644	69993452	1	None	MRCL
16	CLEC18A	ENSG00000157322	ENST00000449317	protein_coding	KNOWN	None	30388	1368	455	69985136	69997887	1	None	MRCL
3	DCLK3	ENSG00000163673	ENST00000416516	protein_coding	KNOWN	CCDS43064	19005	1947	648	36753913	36781352	-1	DCAMKL3	KIAA1765, DCDC3C
3	DCLK3	ENSG00000163673	ENST00000498047	processed_transcript	PUTATIVE	None	19005	None	None	36759584	36771286	-1	DCAMKL3	KIAA1765, DCDC3C
12	IGFBP6	ENSG00000167779	ENST00000548547	protein_coding	NOVEL	None	5475	717	238	53491220	53496129	1	None	None
12	IGFBP6	ENSG00000167779	ENST00000301464	protein_coding	KNOWN	CCDS8846	5475	723	240	53491229	53496124	1	None	None
12	IGFBP6	ENSG00000167779	ENST00000548176	nonsense_mediated_decay	KNOWN	None	5475	411	136	53491451	53494947	1	None	None
12	IGFBP6	ENSG00000167779	ENST00000549628	processed_transcript	KNOWN	None	5475	None	None	53492708	53496124	1	None	None
1	MARC2	ENSG00000117791	ENST00000469583	nonsense_mediated_decay	KNOWN	None	26064	285	94	220921567	220928402	1	MOSC2	FLJ20605
1	MARC2	ENSG00000117791	ENST00000359316	protein_coding	KNOWN	None	26064	774	257	220921611	220957582	1	MOSC2	FLJ20605
1	MARC2	ENSG00000117791	ENST00000366913	protein_coding	KNOWN	CCDS1525	26064	1008	335	220921676	220958150	1	MOSC2	FLJ20605
1	MARC2	ENSG00000117791	ENST00000425560	protein_coding	KNOWN	None	26064	519	172	220928314	220953491	1	MOSC2	FLJ20605
1	MARC2	ENSG00000117791	ENST00000496078	processed_transcript	KNOWN	None	26064	None	None	220929620	220935106	1	MOSC2	FLJ20605
1	MARC2	ENSG00000117791	ENST00000472447	processed_transcript	KNOWN	None	26064	None	None	220953304	220957526	1	MOSC2	FLJ20605
1	UQCRH	ENSG00000173660	ENST00000311672	protein_coding	KNOWN	CCDS30704	12590	276	91	46769303	46782448	1	None	QCR6, UQCR8
1	UQCRH	ENSG00000173660	ENST00000489056	processed_transcript	KNOWN	None	12590	None	None	46769370	46782448	1	None	QCR6, UQCR8
1	UQCRH	ENSG00000173660	ENST00000486951	processed_transcript	KNOWN	None	12590	None	None	46769379	46775345	1	None	QCR6, UQCR8
1	UQCRH	ENSG00000173660	ENST00000496387	processed_transcript	KNOWN	None	12590	None	None	46769381	46782448	1	None	QCR6, UQCR8
1	UQCRH	ENSG00000173660	ENST00000460947	processed_transcript	KNOWN	None	12590	None	None	46775593	46782448	1	None	QCR6, UQCR8
6	None	ENSG00000234015	ENST00000457945	lincRNA	KNOWN	None	None	None	None	12583147	12585636	-1	None	None
6	None	ENSG00000223291	ENST00000411359	miRNA	NOVEL	None	None	None	None	12753907	12754003	1	None	None
6	RNU1-11P	ENSG00000206702	ENST00000383975	snRNA	KNOWN	None	10137	None	None	13214288	13214451	1	RNU1P5	U1P1A, RNU1P1
9	None	ENSG00000235917	ENST00000431069	unprocessed_pseudogene	KNOWN	None	None	None	None	5098341	5099325	1	None	None
6	None	ENSG00000215022	ENST00000606627	antisense	KNOWN	None	None	None	None	13265093	13274291	-1	None	None
6	None	ENSG00000215022	ENST00000399446	antisense	KNOWN	None	None	None	None	13273623	13283673	-1	None	None
6	None	ENSG00000215022	ENST00000606150	antisense	KNOWN	None	None	None	None	13279527	13295818	-1	None	None
9	None	ENSG00000228097	ENST00000428071	unprocessed_pseudogene	KNOWN	None	None	None	None	5099560	5100229	1	None	None
12	ADCY6	ENSG00000174233	ENST00000547260	retained_intron	KNOWN	None	237	None	None	49159977	49168279	-1	None	AC6
12	ADCY6	ENSG00000174233	ENST00000550422	protein_coding	KNOWN	CCDS8768	237	3348	1115	49159981	49182820	-1	None	AC6
12	ADCY6	ENSG00000174233	ENST00000307885	protein_coding	KNOWN	CCDS8767	237	3507	1168	49160112	49177912	-1	None	AC6
12	ADCY6	ENSG00000174233	ENST00000552099	retained_intron	KNOWN	None	237	None	None	49165040	49168537	-1	None	AC6
12	ADCY6	ENSG00000174233	ENST00000548351	processed_transcript	KNOWN	None	237	None	None	49165526	49167807	-1	None	AC6
12	ADCY6	ENSG00000174233	ENST00000552090	processed_transcript	KNOWN	None	237	None	None	49167726	49170267	-1	None	AC6
12	ADCY6	ENSG00000174233	ENST00000551435	retained_intron	KNOWN	None	237	None	None	49170077	49171968	-1	None	AC6
12	ADCY6	ENSG00000174233	ENST00000548820	protein_coding	PUTATIVE	None	237	248	81	49171455	49172207	-1	None	AC6
12	ADCY6	ENSG00000174233	ENST00000357869	protein_coding	KNOWN	CCDS8768	237	3348	1115	49159975	49177877	-1	None	AC6
9	None	ENSG00000237711	ENST00000455103	unprocessed_pseudogene	KNOWN	None	None	None	None	5100236	5101009	1	None	None
6	None	ENSG00000272379	ENST00000606393	lincRNA	KNOWN	None	None	None	None	13290250	13290722	-1	None	None
6	GFOD1-AS1	ENSG00000237786	ENST00000446001	antisense	KNOWN	None	40956	None	None	13486526	13487084	1	None	None
9	MTND4P14	ENSG00000236254	ENST00000435799	unprocessed_pseudogene	KNOWN	None	42201	None	None	5107937	5109290	1	None	None
1	MARC1	ENSG00000186205	ENST00000366910	protein_coding	KNOWN	CCDS1526	26189	1014	337	220960101	220987730	1	MOSC1	FLJ22390
1	MARC1	ENSG00000186205	ENST00000492847	processed_transcript	KNOWN	None	26189	None	None	220964297	220965006	1	MOSC1	FLJ22390
1	MARC1	ENSG00000186205	ENST00000407981	protein_coding	PUTATIVE	None	26189	790	262	220964833	220987730	1	MOSC1	FLJ22390
1	MARC1	ENSG00000186205	ENST00000496110	processed_transcript	KNOWN	None	26189	None	None	220966531	220987735	1	MOSC1	FLJ22390
1	MARC1	ENSG00000186205	ENST00000463976	nonsense_mediated_decay	KNOWN	None	26189	299	98	220970095	220972247	1	MOSC1	FLJ22390
1	MARC1	ENSG00000186205	ENST00000443880	protein_coding	PUTATIVE	None	26189	360	119	220970097	220982318	1	MOSC1	FLJ22390
1	MARC1	ENSG00000186205	ENST00000472269	processed_transcript	KNOWN	None	26189	None	None	220971104	220978435	1	MOSC1	FLJ22390
4	PACRGL	ENSG00000163138	ENST00000471979	nonsense_mediated_decay	KNOWN	CCDS58895	28442	747	248	20697905	20754530	1	C4orf28	MGC29898
4	PACRGL	ENSG00000163138	ENST00000510051	protein_coding	PUTATIVE	None	28442	735	244	20702036	20715144	1	C4orf28	MGC29898
4	PACRGL	ENSG00000163138	ENST00000503585	protein_coding	KNOWN	CCDS58895	28442	747	248	20702036	20729408	1	C4orf28	MGC29898
4	PACRGL	ENSG00000163138	ENST00000360916	protein_coding	KNOWN	CCDS3427	28442	666	221	20702036	20729980	1	C4orf28	MGC29898
4	PACRGL	ENSG00000163138	ENST00000295290	protein_coding	KNOWN	CCDS3427	28442	666	221	20702042	20729939	1	C4orf28	MGC29898
4	PACRGL	ENSG00000163138	ENST00000514485	protein_coding	KNOWN	None	28442	367	121	20702050	20711397	1	C4orf28	MGC29898
4	PACRGL	ENSG00000163138	ENST00000444671	protein_coding	NOVEL	CCDS47034	28442	372	123	20702059	20729944	1	C4orf28	MGC29898
4	PACRGL	ENSG00000163138	ENST00000508753	processed_transcript	KNOWN	None	28442	None	None	20702061	20704317	1	C4orf28	MGC29898
4	PACRGL	ENSG00000163138	ENST00000510700	protein_coding	PUTATIVE	None	28442	47	14	20702062	20703507	1	C4orf28	MGC29898
4	PACRGL	ENSG00000163138	ENST00000506745	protein_coding	KNOWN	None	28442	254	83	20702081	20709472	1	C4orf28	MGC29898
4	PACRGL	ENSG00000163138	ENST00000514663	protein_coding	KNOWN	None	28442	307	101	20702081	20711337	1	C4orf28	MGC29898
4	PACRGL	ENSG00000163138	ENST00000509469	protein_coding	KNOWN	None	28442	410	135	20702081	20714454	1	C4orf28	MGC29898
4	PACRGL	ENSG00000163138	ENST00000515339	protein_coding	NOVEL	None	28442	237	78	20702081	20715084	1	C4orf28	MGC29898
4	PACRGL	ENSG00000163138	ENST00000513861	protein_coding	NOVEL	None	28442	427	141	20702081	20715139	1	C4orf28	MGC29898
4	PACRGL	ENSG00000163138	ENST00000508952	nonsense_mediated_decay	KNOWN	None	28442	282	93	20702081	20729125	1	C4orf28	MGC29898
4	PACRGL	ENSG00000163138	ENST00000502374	protein_coding	PUTATIVE	CCDS58896	28442	603	200	20702081	20729212	1	C4orf28	MGC29898
4	PACRGL	ENSG00000163138	ENST00000511160	protein_coding	NOVEL	None	28442	43	13	20702082	20706147	1	C4orf28	MGC29898
4	PACRGL	ENSG00000163138	ENST00000504630	protein_coding	KNOWN	None	28442	275	90	20702082	20709493	1	C4orf28	MGC29898
4	PACRGL	ENSG00000163138	ENST00000513590	protein_coding	KNOWN	None	28442	610	202	20702082	20715163	1	C4orf28	MGC29898
4	PACRGL	ENSG00000163138	ENST00000514292	protein_coding	NOVEL	None	28442	316	104	20702082	20715163	1	C4orf28	MGC29898
4	PACRGL	ENSG00000163138	ENST00000502938	protein_coding	NOVEL	None	28442	264	87	20702082	20729165	1	C4orf28	MGC29898
4	PACRGL	ENSG00000163138	ENST00000506702	nonsense_mediated_decay	KNOWN	CCDS3427	28442	666	221	20702082	20754523	1	C4orf28	MGC29898
4	PACRGL	ENSG00000163138	ENST00000509625	protein_coding	PUTATIVE	None	28442	103	33	20702083	20703819	1	C4orf28	MGC29898
4	PACRGL	ENSG00000163138	ENST00000505160	protein_coding	PUTATIVE	None	28442	17	4	20702089	20703477	1	C4orf28	MGC29898
4	PACRGL	ENSG00000163138	ENST00000506951	nonsense_mediated_decay	KNOWN	None	28442	258	85	20702089	20726502	1	C4orf28	MGC29898
4	PACRGL	ENSG00000163138	ENST00000507634	protein_coding	KNOWN	CCDS3427	28442	666	221	20702095	20754484	1	C4orf28	MGC29898
4	PACRGL	ENSG00000163138	ENST00000503747	nonsense_mediated_decay	KNOWN	None	28442	282	93	20702096	20715161	1	C4orf28	MGC29898
4	PACRGL	ENSG00000163138	ENST00000513459	protein_coding	NOVEL	None	28442	507	168	20702099	20729942	1	C4orf28	MGC29898
4	PACRGL	ENSG00000163138	ENST00000467997	nonsense_mediated_decay	KNOWN	CCDS3427	28442	666	221	20702100	20754511	1	C4orf28	MGC29898
4	PACRGL	ENSG00000163138	ENST00000511089	protein_coding	NOVEL	None	28442	452	149	20702104	20715164	1	C4orf28	MGC29898
4	PACRGL	ENSG00000163138	ENST00000506457	protein_coding	PUTATIVE	None	28442	205	67	20709425	20711459	1	C4orf28	MGC29898
4	PACRGL	ENSG00000163138	ENST00000506552	retained_intron	KNOWN	None	28442	None	None	20714322	20726512	1	C4orf28	MGC29898
4	PACRGL	ENSG00000163138	ENST00000506648	retained_intron	KNOWN	None	28442	None	None	20714699	20729020	1	C4orf28	MGC29898
4	PACRGL	ENSG00000163138	ENST00000538990	protein_coding	KNOWN	CCDS47034	28442	372	123	20702081	20729412	1	C4orf28	MGC29898
1	NSUN4	ENSG00000117481	ENST00000474844	protein_coding	KNOWN	CCDS534	31802	1155	384	46805849	46827863	1	None	MGC22960, SHTAP
1	NSUN4	ENSG00000117481	ENST00000474062	processed_transcript	KNOWN	None	31802	None	None	46806397	46827862	1	None	MGC22960, SHTAP
1	NSUN4	ENSG00000117481	ENST00000307089	nonsense_mediated_decay	KNOWN	None	31802	456	151	46806461	46830824	1	None	MGC22960, SHTAP
1	NSUN4	ENSG00000117481	ENST00000486270	processed_transcript	KNOWN	None	31802	None	None	46806474	46826500	1	None	MGC22960, SHTAP
1	NSUN4	ENSG00000117481	ENST00000469918	processed_transcript	KNOWN	None	31802	None	None	46806492	46818630	1	None	MGC22960, SHTAP
1	NSUN4	ENSG00000117481	ENST00000472157	processed_transcript	KNOWN	None	31802	None	None	46806501	46807267	1	None	MGC22960, SHTAP
1	NSUN4	ENSG00000117481	ENST00000471871	processed_transcript	KNOWN	None	31802	None	None	46806859	46827864	1	None	MGC22960, SHTAP
1	NSUN4	ENSG00000117481	ENST00000498008	processed_transcript	KNOWN	None	31802	None	None	46807508	46827864	1	None	MGC22960, SHTAP
1	NSUN4	ENSG00000117481	ENST00000495427	processed_transcript	KNOWN	None	31802	None	None	46809065	46827862	1	None	MGC22960, SHTAP
1	NSUN4	ENSG00000117481	ENST00000475281	processed_transcript	KNOWN	None	31802	None	None	46809684	46811046	1	None	MGC22960, SHTAP
1	NSUN4	ENSG00000117481	ENST00000536062	protein_coding	KNOWN	CCDS57996	31802	1008	335	46806479	46827666	1	None	MGC22960, SHTAP
1	NSUN4	ENSG00000117481	ENST00000537428	protein_coding	KNOWN	CCDS57996	31802	1008	335	46806876	46827782	1	None	MGC22960, SHTAP
17	HGS	ENSG00000185359	ENST00000571518	protein_coding	PUTATIVE	None	4897	177	58	79650356	79655820	1	None	Hrs, ZFYVE8, Vps27
17	HGS	ENSG00000185359	ENST00000329138	protein_coding	KNOWN	CCDS11784	4897	2334	777	79650962	79669149	1	None	Hrs, ZFYVE8, Vps27
17	HGS	ENSG00000185359	ENST00000576393	retained_intron	KNOWN	None	4897	None	None	79651013	79657634	1	None	Hrs, ZFYVE8, Vps27
17	HGS	ENSG00000185359	ENST00000576498	retained_intron	KNOWN	None	4897	None	None	79651014	79658860	1	None	Hrs, ZFYVE8, Vps27
17	HGS	ENSG00000185359	ENST00000572392	protein_coding	NOVEL	None	4897	790	262	79651063	79660780	1	None	Hrs, ZFYVE8, Vps27
17	HGS	ENSG00000185359	ENST00000577012	protein_coding	PUTATIVE	None	4897	214	70	79651138	79655857	1	None	Hrs, ZFYVE8, Vps27
17	HGS	ENSG00000185359	ENST00000576087	retained_intron	KNOWN	None	4897	None	None	79653297	79657860	1	None	Hrs, ZFYVE8, Vps27
17	HGS	ENSG00000185359	ENST00000573080	retained_intron	KNOWN	None	4897	None	None	79658236	79660044	1	None	Hrs, ZFYVE8, Vps27
17	HGS	ENSG00000185359	ENST00000575058	retained_intron	KNOWN	None	4897	None	None	79660705	79662960	1	None	Hrs, ZFYVE8, Vps27
17	HGS	ENSG00000185359	ENST00000571237	protein_coding	NOVEL	None	4897	878	291	79660900	79664017	1	None	Hrs, ZFYVE8, Vps27
17	HGS	ENSG00000185359	ENST00000571885	retained_intron	KNOWN	None	4897	None	None	79662711	79663413	1	None	Hrs, ZFYVE8, Vps27
17	HGS	ENSG00000185359	ENST00000571647	retained_intron	KNOWN	None	4897	None	None	79662986	79665386	1	None	Hrs, ZFYVE8, Vps27
17	HGS	ENSG00000185359	ENST00000573949	retained_intron	KNOWN	None	4897	None	None	79663216	79669145	1	None	Hrs, ZFYVE8, Vps27
17	HGS	ENSG00000185359	ENST00000570355	retained_intron	KNOWN	None	4897	None	None	79663631	79668157	1	None	Hrs, ZFYVE8, Vps27
17	HGS	ENSG00000185359	ENST00000575078	protein_coding	PUTATIVE	None	4897	330	109	79667613	79668378	1	None	Hrs, ZFYVE8, Vps27
17	HGS	ENSG00000185359	ENST00000573320	protein_coding	PUTATIVE	None	4897	191	62	79667822	79669004	1	None	Hrs, ZFYVE8, Vps27
17	HGS	ENSG00000185359	ENST00000570652	nonsense_mediated_decay	KNOWN	None	4897	116	37	79668157	79670168	1	None	Hrs, ZFYVE8, Vps27
16	OTOA	ENSG00000155719	ENST00000286149	protein_coding	KNOWN	None	16378	3462	1153	21689835	21771869	1	DFNB22	CT108
16	OTOA	ENSG00000155719	ENST00000388958	protein_coding	KNOWN	CCDS10600	16378	3420	1139	21689835	21772050	1	DFNB22	CT108
16	OTOA	ENSG00000155719	ENST00000388956	protein_coding	KNOWN	CCDS53994	16378	3183	1060	21695750	21772050	1	DFNB22	CT108
16	OTOA	ENSG00000155719	ENST00000388957	protein_coding	KNOWN	CCDS32403	16378	2448	815	21716284	21772049	1	DFNB22	CT108
16	OTOA	ENSG00000155719	ENST00000569064	processed_transcript	KNOWN	None	16378	None	None	21716288	21721269	1	DFNB22	CT108
16	OTOA	ENSG00000155719	ENST00000563871	retained_intron	KNOWN	None	16378	None	None	21716290	21772047	1	DFNB22	CT108
16	OTOA	ENSG00000155719	ENST00000563506	retained_intron	KNOWN	None	16378	None	None	21740892	21772044	1	DFNB22	CT108
1	HLX	ENSG00000136630	ENST00000366903	protein_coding	KNOWN	CCDS1527	4978	1467	488	221051699	221058401	1	HLX1	HB24
1	HLX	ENSG00000136630	ENST00000427693	protein_coding	PUTATIVE	None	4978	455	150	221054411	221057835	1	HLX1	HB24
1	HLX	ENSG00000136630	ENST00000549319	protein_coding	PUTATIVE	None	4978	825	274	221054584	221058117	1	HLX1	HB24
2	DNAJC10	ENSG00000077232	ENST00000264065	protein_coding	KNOWN	CCDS33345	24637	2382	793	183580999	183644334	1	None	ERdj5, PDIA19
2	DNAJC10	ENSG00000077232	ENST00000491074	retained_intron	KNOWN	None	24637	None	None	183581023	183642191	1	None	ERdj5, PDIA19
2	DNAJC10	ENSG00000077232	ENST00000469118	processed_transcript	KNOWN	None	24637	None	None	183581154	183593385	1	None	ERdj5, PDIA19
2	DNAJC10	ENSG00000077232	ENST00000418559	nonsense_mediated_decay	KNOWN	None	24637	828	275	183582814	183642572	1	None	ERdj5, PDIA19
2	DNAJC10	ENSG00000077232	ENST00000494462	retained_intron	KNOWN	None	24637	None	None	183584807	183593834	1	None	ERdj5, PDIA19
2	DNAJC10	ENSG00000077232	ENST00000459930	retained_intron	KNOWN	None	24637	None	None	183594562	183597464	1	None	ERdj5, PDIA19
2	DNAJC10	ENSG00000077232	ENST00000444005	nonsense_mediated_decay	KNOWN	None	24637	366	121	183594575	183605111	1	None	ERdj5, PDIA19
2	DNAJC10	ENSG00000077232	ENST00000537515	protein_coding	KNOWN	None	24637	999	332	183582794	183604933	1	None	ERdj5, PDIA19
19	C19orf67	ENSG00000188032	ENST00000548523	protein_coding	PUTATIVE	CCDS59360	34354	1077	358	14192431	14196574	-1	None	None
19	C19orf67	ENSG00000188032	ENST00000343945	protein_coding	PUTATIVE	None	34354	648	215	14192703	14196601	-1	None	None
19	C19orf67	ENSG00000188032	ENST00000547589	processed_transcript	KNOWN	None	34354	None	None	14194345	14196687	-1	None	None
17	C17orf66	ENSG00000172653	ENST00000462028	retained_intron	KNOWN	None	26548	None	None	34181955	34195843	-1	None	FLJ32830
17	C17orf66	ENSG00000172653	ENST00000311880	protein_coding	KNOWN	CCDS11299	26548	1713	570	34181955	34195895	-1	None	FLJ32830
17	C17orf66	ENSG00000172653	ENST00000592980	protein_coding	KNOWN	None	26548	1593	530	34181960	34195875	-1	None	FLJ32830
17	C17orf66	ENSG00000172653	ENST00000585840	nonsense_mediated_decay	KNOWN	None	26548	852	283	34182006	34195831	-1	None	FLJ32830
17	C17orf66	ENSG00000172653	ENST00000587573	nonsense_mediated_decay	KNOWN	None	26548	1023	340	34182385	34195895	-1	None	FLJ32830
17	C17orf66	ENSG00000172653	ENST00000589015	nonsense_mediated_decay	KNOWN	None	26548	1143	380	34182750	34195894	-1	None	FLJ32830
17	C17orf66	ENSG00000172653	ENST00000587626	protein_coding	NOVEL	None	26548	420	139	34191277	34195875	-1	None	FLJ32830
17	C17orf66	ENSG00000172653	ENST00000587585	processed_transcript	KNOWN	None	26548	None	None	34191762	34195867	-1	None	FLJ32830
1	FAAH	ENSG00000117480	ENST00000243167	protein_coding	KNOWN	CCDS535	3553	1740	579	46859937	46879517	1	None	FAAH-1
1	FAAH	ENSG00000117480	ENST00000468718	processed_transcript	KNOWN	None	3553	None	None	46860001	46871461	1	None	FAAH-1
1	FAAH	ENSG00000117480	ENST00000493735	processed_transcript	KNOWN	None	3553	None	None	46860043	46874870	1	None	FAAH-1
1	FAAH	ENSG00000117480	ENST00000484697	processed_transcript	KNOWN	None	3553	None	None	46871395	46879520	1	None	FAAH-1
1	FAAH	ENSG00000117480	ENST00000489366	processed_transcript	KNOWN	None	3553	None	None	46871710	46874960	1	None	FAAH-1
1	FAAH	ENSG00000117480	ENST00000493636	processed_transcript	KNOWN	None	3553	None	None	46875724	46877323	1	None	FAAH-1
7	GUSB	ENSG00000169919	ENST00000304895	protein_coding	KNOWN	CCDS5530	4696	1956	651	65425671	65447301	-1	None	None
7	GUSB	ENSG00000169919	ENST00000466883	retained_intron	KNOWN	None	4696	None	None	65425675	65441147	-1	None	None
7	GUSB	ENSG00000169919	ENST00000447929	nonsense_mediated_decay	KNOWN	None	4696	435	144	65425685	65447183	-1	None	None
7	GUSB	ENSG00000169919	ENST00000430730	nonsense_mediated_decay	KNOWN	None	4696	405	134	65425685	65447202	-1	None	None
7	GUSB	ENSG00000169919	ENST00000421103	protein_coding	NOVEL	None	4696	1518	505	65425688	65447198	-1	None	None
7	GUSB	ENSG00000169919	ENST00000461622	retained_intron	KNOWN	None	4696	None	None	65429133	65432895	-1	None	None
7	GUSB	ENSG00000169919	ENST00000462371	retained_intron	KNOWN	None	4696	None	None	65429317	65439834	-1	None	None
7	GUSB	ENSG00000169919	ENST00000465785	processed_transcript	KNOWN	None	4696	None	None	65439281	65444495	-1	None	None
7	GUSB	ENSG00000169919	ENST00000479038	processed_transcript	PUTATIVE	None	4696	None	None	65439344	65445398	-1	None	None
7	GUSB	ENSG00000169919	ENST00000489482	retained_intron	KNOWN	None	4696	None	None	65439391	65439993	-1	None	None
7	GUSB	ENSG00000169919	ENST00000475316	processed_transcript	PUTATIVE	None	4696	None	None	65439490	65447075	-1	None	None
7	GUSB	ENSG00000169919	ENST00000476486	processed_transcript	KNOWN	None	4696	None	None	65439999	65446958	-1	None	None
7	GUSB	ENSG00000169919	ENST00000446111	nonsense_mediated_decay	KNOWN	None	4696	435	144	65440839	65447200	-1	None	None
7	GUSB	ENSG00000169919	ENST00000478118	processed_transcript	KNOWN	None	4696	None	None	65444465	65445816	-1	None	None
7	GUSB	ENSG00000169919	ENST00000345660	protein_coding	KNOWN	None	4696	1803	600	65425688	65447198	-1	None	None
1	LINGO4	ENSG00000213171	ENST00000368820	protein_coding	KNOWN	CCDS30855	31814	1782	593	151772740	151778630	-1	LRRN6D	None
14	FAM179B	ENSG00000198718	ENST00000361577	protein_coding	KNOWN	CCDS9681	19959	5163	1720	45431411	45543634	1	KIAA0423	None
14	FAM179B	ENSG00000198718	ENST00000557423	nonsense_mediated_decay	KNOWN	None	19959	2988	995	45431416	45543634	1	KIAA0423	None
14	FAM179B	ENSG00000198718	ENST00000555607	retained_intron	KNOWN	None	19959	None	None	45431417	45477350	1	KIAA0423	None
14	FAM179B	ENSG00000198718	ENST00000555945	retained_intron	KNOWN	None	19959	None	None	45431422	45466607	1	KIAA0423	None
14	FAM179B	ENSG00000198718	ENST00000361462	protein_coding	NOVEL	None	19959	5322	1773	45431442	45543634	1	KIAA0423	None
14	FAM179B	ENSG00000198718	ENST00000555874	protein_coding	PUTATIVE	None	19959	523	173	45464683	45473491	1	KIAA0423	None
14	FAM179B	ENSG00000198718	ENST00000557250	protein_coding	NOVEL	None	19959	479	158	45465022	45475470	1	KIAA0423	None
14	FAM179B	ENSG00000198718	ENST00000556105	retained_intron	KNOWN	None	19959	None	None	45481090	45497499	1	KIAA0423	None
14	FAM179B	ENSG00000198718	ENST00000555586	retained_intron	KNOWN	None	19959	None	None	45494676	45496537	1	KIAA0423	None
14	FAM179B	ENSG00000198718	ENST00000556823	protein_coding	NOVEL	None	19959	468	155	45537645	45543006	1	KIAA0423	None
14	FAM179B	ENSG00000198718	ENST00000382233	protein_coding	KNOWN	None	19959	2988	995	45431442	45543632	1	KIAA0423	None
1	DUSP10	ENSG00000143507	ENST00000366899	protein_coding	KNOWN	CCDS1528	3065	1449	482	221874766	221915518	-1	None	MKP-5, MKP5
1	DUSP10	ENSG00000143507	ENST00000468085	processed_transcript	KNOWN	None	3065	None	None	221874825	221910242	-1	None	MKP-5, MKP5
1	DUSP10	ENSG00000143507	ENST00000477026	processed_transcript	KNOWN	None	3065	None	None	221875492	221915431	-1	None	MKP-5, MKP5
1	DUSP10	ENSG00000143507	ENST00000494642	processed_transcript	KNOWN	None	3065	None	None	221875769	221885158	-1	None	MKP-5, MKP5
1	DUSP10	ENSG00000143507	ENST00000323825	protein_coding	KNOWN	CCDS1529	3065	423	140	221874766	221915461	-1	None	MKP-5, MKP5
1	DUSP10	ENSG00000143507	ENST00000544095	protein_coding	KNOWN	CCDS1529	3065	423	140	221874766	221910802	-1	None	MKP-5, MKP5
12	SPATS2	ENSG00000123352	ENST00000550997	protein_coding	KNOWN	None	18650	295	97	49760367	49888554	1	None	SPATA10, SCR59, FLJ13117
12	SPATS2	ENSG00000123352	ENST00000549538	protein_coding	KNOWN	None	18650	200	65	49760639	49883342	1	None	SPATA10, SCR59, FLJ13117
12	SPATS2	ENSG00000123352	ENST00000548654	protein_coding	KNOWN	None	18650	25	7	49760688	49854820	1	None	SPATA10, SCR59, FLJ13117
12	SPATS2	ENSG00000123352	ENST00000550643	protein_coding	KNOWN	None	18650	104	33	49760688	49878451	1	None	SPATA10, SCR59, FLJ13117
12	SPATS2	ENSG00000123352	ENST00000549412	nonsense_mediated_decay	KNOWN	None	18650	888	295	49760688	49920148	1	None	SPATA10, SCR59, FLJ13117
12	SPATS2	ENSG00000123352	ENST00000548710	protein_coding	KNOWN	None	18650	202	66	49760692	49883344	1	None	SPATA10, SCR59, FLJ13117
12	SPATS2	ENSG00000123352	ENST00000549179	protein_coding	KNOWN	None	18650	16	4	49760712	49854811	1	None	SPATA10, SCR59, FLJ13117
12	SPATS2	ENSG00000123352	ENST00000548377	protein_coding	KNOWN	None	18650	25	7	49760745	49854820	1	None	SPATA10, SCR59, FLJ13117
12	SPATS2	ENSG00000123352	ENST00000549298	protein_coding	KNOWN	None	18650	109	35	49761167	49878456	1	None	SPATA10, SCR59, FLJ13117
12	SPATS2	ENSG00000123352	ENST00000549375	retained_intron	KNOWN	None	18650	None	None	49761245	49884942	1	None	SPATA10, SCR59, FLJ13117
12	SPATS2	ENSG00000123352	ENST00000553127	protein_coding	KNOWN	CCDS31794	18650	1638	545	49761248	49921205	1	None	SPATA10, SCR59, FLJ13117
12	SPATS2	ENSG00000123352	ENST00000321898	protein_coding	KNOWN	CCDS31794	18650	1638	545	49761258	49921202	1	None	SPATA10, SCR59, FLJ13117
12	SPATS2	ENSG00000123352	ENST00000551540	protein_coding	KNOWN	None	18650	224	73	49761279	49884474	1	None	SPATA10, SCR59, FLJ13117
12	SPATS2	ENSG00000123352	ENST00000552918	protein_coding	KNOWN	CCDS31794	18650	1638	545	49761293	49921009	1	None	SPATA10, SCR59, FLJ13117
12	SPATS2	ENSG00000123352	ENST00000548777	protein_coding	KNOWN	None	18650	99	32	49761301	49878446	1	None	SPATA10, SCR59, FLJ13117
12	SPATS2	ENSG00000123352	ENST00000548388	retained_intron	KNOWN	None	18650	None	None	49761330	49855012	1	None	SPATA10, SCR59, FLJ13117
12	SPATS2	ENSG00000123352	ENST00000547865	protein_coding	PUTATIVE	None	18650	228	75	49761330	49857408	1	None	SPATA10, SCR59, FLJ13117
12	SPATS2	ENSG00000123352	ENST00000552171	protein_coding	KNOWN	None	18650	31	9	49761330	49878378	1	None	SPATA10, SCR59, FLJ13117
12	SPATS2	ENSG00000123352	ENST00000549045	nonsense_mediated_decay	KNOWN	None	18650	192	63	49854662	49888727	1	None	SPATA10, SCR59, FLJ13117
12	SPATS2	ENSG00000123352	ENST00000552557	processed_transcript	KNOWN	None	18650	None	None	49883898	49908396	1	None	SPATA10, SCR59, FLJ13117
12	SPATS2	ENSG00000123352	ENST00000552655	processed_transcript	KNOWN	None	18650	None	None	49883905	49890672	1	None	SPATA10, SCR59, FLJ13117
12	SPATS2	ENSG00000123352	ENST00000548727	retained_intron	KNOWN	None	18650	None	None	49908225	49916636	1	None	SPATA10, SCR59, FLJ13117
12	SPATS2	ENSG00000123352	ENST00000547003	processed_transcript	KNOWN	None	18650	None	None	49916532	49919981	1	None	SPATA10, SCR59, FLJ13117
3	TRANK1	ENSG00000168016	ENST00000428977	protein_coding	KNOWN	None	29011	7128	2375	36868311	36900374	-1	None	LBA1, KIAA0342
3	TRANK1	ENSG00000168016	ENST00000463984	processed_transcript	KNOWN	None	29011	None	None	36884171	36892142	-1	None	LBA1, KIAA0342
3	TRANK1	ENSG00000168016	ENST00000513141	processed_transcript	KNOWN	None	29011	None	None	36902506	36915724	-1	None	LBA1, KIAA0342
3	TRANK1	ENSG00000168016	ENST00000505962	processed_transcript	KNOWN	None	29011	None	None	36931319	36940649	-1	None	LBA1, KIAA0342
3	TRANK1	ENSG00000168016	ENST00000463764	processed_transcript	PUTATIVE	None	29011	None	None	36940598	36950009	-1	None	LBA1, KIAA0342
3	TRANK1	ENSG00000168016	ENST00000511973	processed_transcript	KNOWN	None	29011	None	None	36944636	36986548	-1	None	LBA1, KIAA0342
3	TRANK1	ENSG00000168016	ENST00000429976	protein_coding	KNOWN	CCDS46789	29011	8778	2925	36868311	36986548	-1	None	LBA1, KIAA0342
3	TRANK1	ENSG00000168016	ENST00000301807	protein_coding	KNOWN	None	29011	7128	2375	36868311	36986548	-1	None	LBA1, KIAA0342
11	SYT9	ENSG00000170743	ENST00000524820	nonsense_mediated_decay	KNOWN	None	19265	960	319	7260009	7465778	1	None	None
11	SYT9	ENSG00000170743	ENST00000318881	protein_coding	KNOWN	CCDS7778	19265	1476	491	7273181	7490273	1	None	None
11	SYT9	ENSG00000170743	ENST00000532592	nonsense_mediated_decay	KNOWN	None	19265	522	173	7273401	7490268	1	None	None
11	SYT9	ENSG00000170743	ENST00000396716	protein_coding	KNOWN	None	19265	960	319	7260099	7335427	1	None	None
2	PAIP2B	ENSG00000124374	ENST00000244221	protein_coding	KNOWN	CCDS46322	29200	372	123	71409869	71454213	-1	None	KIAA1155
1	DMBX1	ENSG00000197587	ENST00000360032	protein_coding	KNOWN	CCDS536	19026	1134	377	46972669	46979898	1	OTX3	PAXB
1	DMBX1	ENSG00000197587	ENST00000371956	protein_coding	KNOWN	None	19026	1149	382	46972668	46979884	1	OTX3	PAXB
4	None	ENSG00000249008	ENST00000512516	protein_coding	PUTATIVE	None	None	225	74	178163693	178169927	-1	None	None
1	HHIPL2	ENSG00000143512	ENST00000473144	processed_transcript	KNOWN	None	25842	None	None	222695602	222698581	-1	KIAA1822L	FLJ13840
1	HHIPL2	ENSG00000143512	ENST00000343410	protein_coding	KNOWN	CCDS1530	25842	2175	724	222695602	222721445	-1	KIAA1822L	FLJ13840
1	HHIPL2	ENSG00000143512	ENST00000468172	processed_transcript	KNOWN	None	25842	None	None	222696151	222712185	-1	KIAA1822L	FLJ13840
1	HHIPL2	ENSG00000143512	ENST00000494899	processed_transcript	KNOWN	None	25842	None	None	222712071	222713445	-1	KIAA1822L	FLJ13840
9	MTND5P14	ENSG00000230225	ENST00000441481	unprocessed_pseudogene	KNOWN	None	42276	None	None	5109496	5110762	1	None	None
1	RORC	ENSG00000143365	ENST00000356728	protein_coding	KNOWN	CCDS30856	10260	1494	497	151778547	151798567	-1	None	RZRG, RORG, NR1F3, TOR
1	RORC	ENSG00000143365	ENST00000318247	protein_coding	KNOWN	CCDS1004	10260	1557	518	151779433	151804348	-1	None	RZRG, RORG, NR1F3, TOR
1	RORC	ENSG00000143365	ENST00000480719	processed_transcript	KNOWN	None	10260	None	None	151779434	151787265	-1	None	RZRG, RORG, NR1F3, TOR
1	RORC	ENSG00000143365	ENST00000392697	protein_coding	KNOWN	None	10260	1719	572	151779370	151804226	-1	None	RZRG, RORG, NR1F3, TOR
9	None	ENSG00000236567	ENST00000423021	processed_pseudogene	KNOWN	None	None	None	None	5110913	5112849	1	None	None
11	CCDC90B	ENSG00000137500	ENST00000529689	protein_coding	KNOWN	CCDS8266	28108	765	254	82970139	82997450	-1	None	MDS025, MDS011
11	CCDC90B	ENSG00000137500	ENST00000455220	protein_coding	KNOWN	None	28108	738	245	82972359	82997433	-1	None	MDS025, MDS011
11	CCDC90B	ENSG00000137500	ENST00000525504	processed_transcript	PUTATIVE	None	28108	None	None	82972498	82978514	-1	None	MDS025, MDS011
11	CCDC90B	ENSG00000137500	ENST00000525503	protein_coding	PUTATIVE	None	28108	462	153	82972498	82997394	-1	None	MDS025, MDS011
11	CCDC90B	ENSG00000137500	ENST00000260054	nonsense_mediated_decay	KNOWN	None	28108	489	162	82972498	82997397	-1	None	MDS025, MDS011
11	CCDC90B	ENSG00000137500	ENST00000529611	protein_coding	PUTATIVE	None	28108	462	153	82972504	82997041	-1	None	MDS025, MDS011
11	CCDC90B	ENSG00000137500	ENST00000527495	protein_coding	PUTATIVE	None	28108	402	133	82972772	82989873	-1	None	MDS025, MDS011
11	CCDC90B	ENSG00000137500	ENST00000529745	nonsense_mediated_decay	KNOWN	None	28108	294	97	82972799	82997253	-1	None	MDS025, MDS011
11	CCDC90B	ENSG00000137500	ENST00000533761	nonsense_mediated_decay	KNOWN	None	28108	286	94	82972837	82997007	-1	None	MDS025, MDS011
11	CCDC90B	ENSG00000137500	ENST00000529856	nonsense_mediated_decay	KNOWN	None	28108	174	57	82972838	82997398	-1	None	MDS025, MDS011
11	CCDC90B	ENSG00000137500	ENST00000529312	nonsense_mediated_decay	KNOWN	None	28108	117	38	82972933	82997022	-1	None	MDS025, MDS011
11	CCDC90B	ENSG00000137500	ENST00000529073	protein_coding	PUTATIVE	None	28108	627	208	82972971	82997021	-1	None	MDS025, MDS011
11	CCDC90B	ENSG00000137500	ENST00000534753	nonsense_mediated_decay	KNOWN	None	28108	354	117	82976932	82997031	-1	None	MDS025, MDS011
11	CCDC90B	ENSG00000137500	ENST00000527025	nonsense_mediated_decay	KNOWN	None	28108	117	38	82976942	82997033	-1	None	MDS025, MDS011
11	CCDC90B	ENSG00000137500	ENST00000528149	nonsense_mediated_decay	KNOWN	None	28108	132	43	82976958	82997128	-1	None	MDS025, MDS011
11	CCDC90B	ENSG00000137500	ENST00000526265	nonsense_mediated_decay	KNOWN	None	28108	174	57	82984289	82997031	-1	None	MDS025, MDS011
11	CCDC90B	ENSG00000137500	ENST00000525916	processed_transcript	KNOWN	None	28108	None	None	82984720	82997011	-1	None	MDS025, MDS011
11	CCDC90B	ENSG00000137500	ENST00000530253	retained_intron	KNOWN	None	28108	None	None	82985220	82997007	-1	None	MDS025, MDS011
11	CCDC90B	ENSG00000137500	ENST00000526631	retained_intron	KNOWN	None	28108	None	None	82985486	82997021	-1	None	MDS025, MDS011
9	IGHEP2	ENSG00000254017	ENST00000519308	IG_C_pseudogene	KNOWN	None	5524	None	None	5113549	5114804	1	None	None
9	None	ENSG00000237553	ENST00000448546	processed_pseudogene	KNOWN	None	None	None	None	5193339	5193558	-1	None	None
5	ISOC1	ENSG00000066583	ENST00000514194	protein_coding	NOVEL	None	24254	565	187	128430444	128441040	1	None	CGI-111
5	ISOC1	ENSG00000066583	ENST00000173527	protein_coding	KNOWN	CCDS43357	24254	897	298	128430444	128449721	1	None	CGI-111
1	KNCN	ENSG00000162456	ENST00000294445	retained_intron	KNOWN	None	26488	None	None	47011316	47015684	-1	None	FLJ32011, KINO, L5
1	KNCN	ENSG00000162456	ENST00000524908	processed_transcript	KNOWN	None	26488	None	None	47013021	47015405	-1	None	FLJ32011, KINO, L5
1	KNCN	ENSG00000162456	ENST00000481882	protein_coding	KNOWN	None	26488	375	124	47013052	47017199	-1	None	FLJ32011, KINO, L5
1	KNCN	ENSG00000162456	ENST00000396314	protein_coding	KNOWN	CCDS44133	26488	306	101	47013100	47016887	-1	None	FLJ32011, KINO, L5
4	NEIL3	ENSG00000109674	ENST00000264596	protein_coding	KNOWN	CCDS3828	24573	1818	605	178230990	178284097	1	None	FLJ10858, hFPG2, FPG2, hNEI3
4	NEIL3	ENSG00000109674	ENST00000513321	nonsense_mediated_decay	KNOWN	None	24573	192	63	178231057	178275433	1	None	FLJ10858, hFPG2, FPG2, hNEI3
17	None	ENSG00000251537	ENST00000455584	protein_coding	NOVEL	None	None	2862	953	15474805	15554967	-1	None	None
3	MUC13	ENSG00000173702	ENST00000311075	protein_coding	KNOWN	None	7511	1536	511	124624289	124653595	-1	DRCC1	None
3	MUC13	ENSG00000173702	ENST00000462728	retained_intron	KNOWN	None	7511	None	None	124629318	124631055	-1	DRCC1	None
3	MUC13	ENSG00000173702	ENST00000478191	protein_coding	NOVEL	None	7511	552	183	124635183	124653591	-1	DRCC1	None
3	MUC13	ENSG00000173702	ENST00000490147	retained_intron	KNOWN	None	7511	None	None	124639014	124646618	-1	DRCC1	None
3	MUC13	ENSG00000173702	ENST00000497378	processed_transcript	KNOWN	None	7511	None	None	124646743	124672663	-1	DRCC1	None
9	NAIF1	ENSG00000171169	ENST00000470245	processed_transcript	KNOWN	None	25446	None	None	130823512	130826021	-1	C9orf90	DKFZp762G199, bA379C10.2
9	NAIF1	ENSG00000171169	ENST00000373078	protein_coding	KNOWN	CCDS6889	25446	984	327	130823512	130829600	-1	C9orf90	DKFZp762G199, bA379C10.2
9	NAIF1	ENSG00000171169	ENST00000488519	processed_transcript	KNOWN	None	25446	None	None	130824269	130828563	-1	C9orf90	DKFZp762G199, bA379C10.2
9	NAIF1	ENSG00000171169	ENST00000466139	processed_transcript	KNOWN	None	25446	None	None	130825921	130830485	-1	C9orf90	DKFZp762G199, bA379C10.2
4	MSANTD1	ENSG00000188981	ENST00000507492	protein_coding	PUTATIVE	None	33741	798	265	3246096	3258340	1	C4orf44	LOC345222
4	MSANTD1	ENSG00000188981	ENST00000438480	protein_coding	KNOWN	CCDS47003	33741	837	278	3249203	3258030	1	C4orf44	LOC345222
4	MSANTD1	ENSG00000188981	ENST00000505599	nonsense_mediated_decay	KNOWN	None	33741	804	267	3250767	3273465	1	C4orf44	LOC345222
4	MSANTD1	ENSG00000188981	ENST00000510580	protein_coding	PUTATIVE	None	33741	858	285	3250886	3264268	1	C4orf44	LOC345222
2	FRZB	ENSG00000162998	ENST00000295113	protein_coding	KNOWN	CCDS2286	3959	978	325	183698002	183731890	-1	None	FRZB-PEN, FRZB1, SRFP3, FRP-3, SFRP3, FRE, FRITZ, FRZB-1, FZRB, hFIZ
12	APOBEC1	ENSG00000111701	ENST00000229304	protein_coding	KNOWN	CCDS8579	604	711	236	7801996	7818489	-1	None	BEDP, CDAR1, APOBEC-1, HEPR
12	APOBEC1	ENSG00000111701	ENST00000467171	nonsense_mediated_decay	KNOWN	None	604	111	36	7801996	7818499	-1	None	BEDP, CDAR1, APOBEC-1, HEPR
10	CREM	ENSG00000095794	ENST00000474362	protein_coding	PUTATIVE	None	2352	291	96	35415719	35501053	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000374721	protein_coding	NOVEL	None	2352	810	269	35415738	35501050	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000496626	processed_transcript	KNOWN	None	2352	None	None	35415769	35441326	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000482646	processed_transcript	KNOWN	None	2352	None	None	35415801	35437591	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000489388	processed_transcript	KNOWN	None	2352	None	None	35415834	35468697	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000374726	protein_coding	KNOWN	CCDS7184	2352	414	137	35415851	35468771	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000461968	processed_transcript	KNOWN	None	2352	None	None	35415876	35500686	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000490460	nonsense_mediated_decay	KNOWN	None	2352	189	62	35415887	35500739	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000466251	processed_transcript	KNOWN	None	2352	None	None	35415917	35495880	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000482633	retained_intron	KNOWN	None	2352	None	None	35415976	35468232	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000495960	nonsense_mediated_decay	KNOWN	None	2352	141	46	35415991	35500619	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000429130	protein_coding	NOVEL	None	2352	1038	345	35416019	35500964	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000469949	protein_coding	PUTATIVE	None	2352	180	59	35416030	35443493	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000460270	protein_coding	PUTATIVE	None	2352	288	95	35416045	35501363	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000496019	processed_transcript	KNOWN	None	2352	None	None	35416084	35468390	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000354759	protein_coding	KNOWN	CCDS7182	2352	747	248	35416090	35501082	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000489321	protein_coding	KNOWN	CCDS7184	2352	414	137	35416352	35468426	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000427847	protein_coding	KNOWN	None	2352	470	155	35416385	35477188	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000345491	protein_coding	KNOWN	CCDS7180	2352	903	300	35416388	35501886	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000487132	protein_coding	NOVEL	None	2352	560	185	35416405	35500625	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000337656	protein_coding	KNOWN	CCDS7181	2352	900	299	35426764	35500326	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000374734	protein_coding	KNOWN	CCDS31181	2352	711	236	35426764	35500326	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000479070	protein_coding	KNOWN	None	2352	939	312	35426764	35500731	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000348787	protein_coding	KNOWN	CCDS7183	2352	666	221	35437300	35501886	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000464475	nonsense_mediated_decay	KNOWN	None	2352	160	52	35437329	35500788	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000361599	protein_coding	KNOWN	CCDS7185	2352	813	270	35456444	35501878	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000497686	processed_transcript	KNOWN	None	2352	None	None	35456467	35468513	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000484283	protein_coding	KNOWN	None	2352	660	219	35456654	35500731	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000395887	protein_coding	KNOWN	CCDS58074	2352	849	282	35456654	35500731	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000494479	protein_coding	PUTATIVE	None	2352	347	114	35464515	35495934	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000463314	protein_coding	PUTATIVE	CCDS58075	2352	417	138	35464521	35501088	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000342105	protein_coding	KNOWN	CCDS7186	2352	738	245	35464521	35501424	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000374711	processed_transcript	KNOWN	None	2352	None	None	35464524	35477351	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000495301	protein_coding	PUTATIVE	None	2352	235	77	35464526	35477316	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000463960	protein_coding	KNOWN	None	2352	585	194	35464631	35500731	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000472813	processed_transcript	KNOWN	None	2352	None	None	35464781	35468771	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000487763	protein_coding	KNOWN	CCDS53517	2352	366	121	35484055	35500731	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000473940	protein_coding	KNOWN	CCDS7187	2352	363	120	35484055	35501082	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000488328	protein_coding	KNOWN	CCDS53519	2352	330	109	35484061	35501393	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000356917	protein_coding	KNOWN	CCDS53518	2352	327	108	35484075	35501851	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000488741	protein_coding	KNOWN	CCDS53521	2352	309	102	35484793	35500361	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000474931	protein_coding	KNOWN	CCDS7188	2352	339	112	35484830	35500452	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000468236	protein_coding	NOVEL	CCDS58076	2352	378	125	35484837	35500781	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000344351	protein_coding	KNOWN	None	2352	288	95	35484845	35501423	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000490511	protein_coding	KNOWN	CCDS53520	2352	342	113	35484937	35500804	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000469517	processed_transcript	KNOWN	None	2352	None	None	35485327	35500793	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000395895	protein_coding	KNOWN	None	2352	1086	361	35416388	35501883	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000333809	protein_coding	KNOWN	None	2352	1047	348	35426710	35501883	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000439705	protein_coding	KNOWN	None	2352	858	285	35426710	35501883	1	None	hCREM-2
10	CREM	ENSG00000095794	ENST00000374728	protein_coding	KNOWN	CCDS7183	2352	666	221	35416388	35501883	1	None	hCREM-2
1	C2CD4D	ENSG00000225556	ENST00000454109	protein_coding	KNOWN	CCDS44224	37210	1062	353	151810295	151813033	-1	None	FAM148D
12	SOAT2	ENSG00000167780	ENST00000551896	protein_coding	PUTATIVE	None	11178	510	169	53497302	53509300	1	None	ACAT2
12	SOAT2	ENSG00000167780	ENST00000301466	protein_coding	KNOWN	CCDS8847	11178	1569	522	53497302	53518322	1	None	ACAT2
12	SOAT2	ENSG00000167780	ENST00000542365	nonsense_mediated_decay	KNOWN	None	11178	933	310	53497315	53518134	1	None	ACAT2
1	THEM5	ENSG00000196407	ENST00000368817	protein_coding	KNOWN	CCDS1005	26755	744	247	151819739	151826173	-1	None	FLJ37964
1	THEM5	ENSG00000196407	ENST00000453881	protein_coding	PUTATIVE	None	26755	355	117	151819758	151823639	-1	None	FLJ37964
16	RBL2	ENSG00000103479	ENST00000567964	protein_coding	PUTATIVE	None	9894	385	127	53467889	53487375	1	None	Rb2, p130
16	RBL2	ENSG00000103479	ENST00000262133	protein_coding	KNOWN	CCDS10748	9894	3420	1139	53468332	53525561	1	None	Rb2, p130
16	RBL2	ENSG00000103479	ENST00000544405	protein_coding	PUTATIVE	None	9894	1917	638	53469531	53503991	1	None	Rb2, p130
16	RBL2	ENSG00000103479	ENST00000379935	processed_transcript	KNOWN	None	9894	None	None	53479693	53525560	1	None	Rb2, p130
16	RBL2	ENSG00000103479	ENST00000561512	retained_intron	KNOWN	None	9894	None	None	53495681	53498789	1	None	Rb2, p130
16	RBL2	ENSG00000103479	ENST00000562850	retained_intron	KNOWN	None	9894	None	None	53498203	53500021	1	None	Rb2, p130
16	RBL2	ENSG00000103479	ENST00000562837	retained_intron	KNOWN	None	9894	None	None	53500686	53504169	1	None	Rb2, p130
16	RBL2	ENSG00000103479	ENST00000564605	retained_intron	KNOWN	None	9894	None	None	53513458	53514667	1	None	Rb2, p130
16	RBL2	ENSG00000103479	ENST00000544545	protein_coding	KNOWN	None	9894	1557	518	53483988	53524532	1	None	Rb2, p130
1	THEM4	ENSG00000159445	ENST00000368814	protein_coding	KNOWN	CCDS1006	17947	723	240	151846060	151882284	-1	None	CTMP
1	THEM4	ENSG00000159445	ENST00000471464	nonsense_mediated_decay	KNOWN	None	17947	324	107	151846531	151881978	-1	None	CTMP
1	THEM4	ENSG00000159445	ENST00000483207	retained_intron	KNOWN	None	17947	None	None	151846853	151863916	-1	None	CTMP
1	THEM4	ENSG00000159445	ENST00000477437	processed_transcript	KNOWN	None	17947	None	None	151849563	151862226	-1	None	CTMP
1	THEM4	ENSG00000159445	ENST00000489410	protein_coding	PUTATIVE	None	17947	333	110	151867306	151882113	-1	None	CTMP
15	SCG3	ENSG00000104112	ENST00000220478	protein_coding	KNOWN	CCDS10142	13707	1407	468	51973550	52013223	1	None	SGIII, FLJ90833
15	SCG3	ENSG00000104112	ENST00000542355	protein_coding	KNOWN	CCDS53947	13707	711	236	51973689	52012268	1	None	SGIII, FLJ90833
15	SCG3	ENSG00000104112	ENST00000558709	protein_coding	KNOWN	None	13707	172	56	51973729	51984533	1	None	SGIII, FLJ90833
11	LAMTOR1	ENSG00000149357	ENST00000545249	protein_coding	PUTATIVE	None	26068	429	142	71796941	71814292	-1	C11orf59	FLJ20625, p18, p27RF-Rho, Pdro, Ragulator1
11	LAMTOR1	ENSG00000149357	ENST00000535107	protein_coding	PUTATIVE	None	26068	300	99	71805484	71814283	-1	C11orf59	FLJ20625, p18, p27RF-Rho, Pdro, Ragulator1
11	LAMTOR1	ENSG00000149357	ENST00000544594	protein_coding	PUTATIVE	None	26068	239	78	71808338	71810304	-1	C11orf59	FLJ20625, p18, p27RF-Rho, Pdro, Ragulator1
11	LAMTOR1	ENSG00000149357	ENST00000278671	protein_coding	KNOWN	CCDS8209	26068	486	161	71808338	71814433	-1	C11orf59	FLJ20625, p18, p27RF-Rho, Pdro, Ragulator1
11	LAMTOR1	ENSG00000149357	ENST00000538404	protein_coding	PUTATIVE	None	26068	483	160	71808394	71814282	-1	C11orf59	FLJ20625, p18, p27RF-Rho, Pdro, Ragulator1
11	LAMTOR1	ENSG00000149357	ENST00000535872	nonsense_mediated_decay	KNOWN	None	26068	231	76	71808473	71814343	-1	C11orf59	FLJ20625, p18, p27RF-Rho, Pdro, Ragulator1
11	LAMTOR1	ENSG00000149357	ENST00000539797	processed_transcript	KNOWN	None	26068	None	None	71808866	71811771	-1	C11orf59	FLJ20625, p18, p27RF-Rho, Pdro, Ragulator1
11	LAMTOR1	ENSG00000149357	ENST00000541403	retained_intron	KNOWN	None	26068	None	None	71809583	71814326	-1	C11orf59	FLJ20625, p18, p27RF-Rho, Pdro, Ragulator1
1	TAF1A	ENSG00000143498	ENST00000366890	protein_coding	NOVEL	CCDS1532	11532	1011	336	222731244	222763127	-1	None	TAFI48, SL1
1	TAF1A	ENSG00000143498	ENST00000352967	protein_coding	KNOWN	CCDS1531	11532	1353	450	222731650	222763255	-1	None	TAFI48, SL1
1	TAF1A	ENSG00000143498	ENST00000391883	protein_coding	PUTATIVE	None	11532	859	285	222736627	222763101	-1	None	TAFI48, SL1
1	TAF1A	ENSG00000143498	ENST00000487009	processed_transcript	KNOWN	None	11532	None	None	222737420	222763130	-1	None	TAFI48, SL1
1	TAF1A	ENSG00000143498	ENST00000480065	processed_transcript	KNOWN	None	11532	None	None	222742171	222743905	-1	None	TAFI48, SL1
1	TAF1A	ENSG00000143498	ENST00000465263	processed_transcript	KNOWN	None	11532	None	None	222742879	222763228	-1	None	TAFI48, SL1
1	TAF1A	ENSG00000143498	ENST00000350027	protein_coding	KNOWN	CCDS1531	11532	1353	450	222731244	222763220	-1	None	TAFI48, SL1
1	TAF1A	ENSG00000143498	ENST00000391882	protein_coding	KNOWN	CCDS1532	11532	1011	336	222731666	222763255	-1	None	TAFI48, SL1
1	TAF1A	ENSG00000143498	ENST00000543857	protein_coding	KNOWN	None	11532	936	311	222742635	222763275	-1	None	TAFI48, SL1
6	RPS4XP7	ENSG00000218265	ENST00000406274	processed_pseudogene	KNOWN	None	36885	None	None	13521498	13522277	1	RPS4P7	None
6	RN7SKP204	ENSG00000202351	ENST00000365481	misc_RNA	KNOWN	None	45928	None	None	13547936	13548245	1	None	None
6	None	ENSG00000261071	ENST00000566170	antisense	KNOWN	None	None	None	None	13614343	13615387	-1	None	None
6	RNU7-91P	ENSG00000252966	ENST00000517157	snRNA	KNOWN	None	45625	None	None	13680312	13680373	1	None	None
6	None	ENSG00000233075	ENST00000455176	pseudogene	NOVEL	None	None	None	None	13817713	13817966	1	None	None
1	S100A10	ENSG00000197747	ENST00000368811	protein_coding	KNOWN	CCDS1008	10487	294	97	151955391	151966866	-1	ANX2LG, CAL1L	P11, 42C, CLP11
1	S100A10	ENSG00000197747	ENST00000368809	protein_coding	KNOWN	CCDS1008	10487	294	97	151955394	151965054	-1	ANX2LG, CAL1L	P11, 42C, CLP11
1	S100A10	ENSG00000197747	ENST00000478574	processed_transcript	KNOWN	None	10487	None	None	151955708	151966300	-1	ANX2LG, CAL1L	P11, 42C, CLP11
1	S100A10	ENSG00000197747	ENST00000478348	processed_transcript	KNOWN	None	10487	None	None	151957634	151966305	-1	ANX2LG, CAL1L	P11, 42C, CLP11
6	None	ENSG00000272209	ENST00000607518	lincRNA	KNOWN	None	None	None	None	13825663	13826805	1	None	None
6	MRPL35P1	ENSG00000220868	ENST00000404272	processed_pseudogene	KNOWN	None	29705	None	None	13949326	13949897	1	None	None
6	None	ENSG00000233981	ENST00000427011	lincRNA	KNOWN	None	None	None	None	14005151	14007132	1	None	None
6	RNU7-133P	ENSG00000238987	ENST00000459188	snRNA	KNOWN	None	45667	None	None	14156693	14156754	1	None	None
6	None	ENSG00000230631	ENST00000455973	lincRNA	KNOWN	None	None	None	None	14230006	14231801	-1	None	None
6	None	ENSG00000226673	ENST00000427276	lincRNA	KNOWN	None	None	None	None	14280358	14285376	-1	None	None
6	None	ENSG00000237346	ENST00000456440	lincRNA	KNOWN	None	None	None	None	14391462	14393519	-1	None	None
6	None	ENSG00000234540	ENST00000434947	lincRNA	KNOWN	None	None	None	None	14394557	14404520	1	None	None
1	S100A11	ENSG00000163191	ENST00000271638	protein_coding	KNOWN	CCDS1009	10488	318	105	152004982	152009511	-1	None	S100C
1	S100A11	ENSG00000163191	ENST00000478109	processed_transcript	KNOWN	None	10488	None	None	152004982	152020383	-1	None	S100C
12	None	ENSG00000258053	ENST00000549357	protein_coding	NOVEL	None	None	252	83	71441182	71512027	-1	None	None
10	TRDMT1	ENSG00000107614	ENST00000354631	nonsense_mediated_decay	KNOWN	None	2977	210	69	17184253	17243671	-1	DNMT2	RNMT1
10	TRDMT1	ENSG00000107614	ENST00000377799	protein_coding	KNOWN	CCDS7114	2977	1176	391	17188736	17243681	-1	DNMT2	RNMT1
10	TRDMT1	ENSG00000107614	ENST00000495022	nonsense_mediated_decay	KNOWN	None	2977	192	63	17190915	17243850	-1	DNMT2	RNMT1
10	TRDMT1	ENSG00000107614	ENST00000452380	processed_transcript	KNOWN	None	2977	None	None	17193413	17211418	-1	DNMT2	RNMT1
10	TRDMT1	ENSG00000107614	ENST00000488990	protein_coding	PUTATIVE	None	2977	765	254	17194934	17243656	-1	DNMT2	RNMT1
10	TRDMT1	ENSG00000107614	ENST00000313936	protein_coding	NOVEL	None	2977	682	226	17199443	17216659	-1	DNMT2	RNMT1
10	TRDMT1	ENSG00000107614	ENST00000436968	protein_coding	PUTATIVE	None	2977	257	84	17201152	17216659	-1	DNMT2	RNMT1
10	TRDMT1	ENSG00000107614	ENST00000525762	protein_coding	NOVEL	None	2977	410	135	17201152	17243579	-1	DNMT2	RNMT1
10	TRDMT1	ENSG00000107614	ENST00000424636	nonsense_mediated_decay	KNOWN	None	2977	162	53	17201152	17243579	-1	DNMT2	RNMT1
10	TRDMT1	ENSG00000107614	ENST00000486947	processed_transcript	PUTATIVE	None	2977	None	None	17213555	17243427	-1	DNMT2	RNMT1
10	TRDMT1	ENSG00000107614	ENST00000451253	processed_transcript	PUTATIVE	None	2977	None	None	17213819	17242566	-1	DNMT2	RNMT1
10	TRDMT1	ENSG00000107614	ENST00000479046	processed_transcript	PUTATIVE	None	2977	None	None	17213907	17244053	-1	DNMT2	RNMT1
10	TRDMT1	ENSG00000107614	ENST00000412821	protein_coding	KNOWN	None	2977	1104	367	17190876	17243640	-1	DNMT2	RNMT1
10	TRDMT1	ENSG00000107614	ENST00000351358	protein_coding	KNOWN	None	2977	1038	345	17190876	17243640	-1	DNMT2	RNMT1
10	TRDMT1	ENSG00000107614	ENST00000457442	protein_coding	KNOWN	None	2977	933	310	17190915	17243850	-1	DNMT2	RNMT1
10	TRDMT1	ENSG00000107614	ENST00000377766	protein_coding	KNOWN	None	2977	354	117	17190876	17243640	-1	DNMT2	RNMT1
10	TRDMT1	ENSG00000107614	ENST00000358282	protein_coding	KNOWN	None	2977	216	71	17190876	17243640	-1	DNMT2	RNMT1
6	LST1	ENSG00000204482	ENST00000418507	protein_coding	NOVEL	CCDS4705	14189	201	66	31553901	31556686	1	None	LST-1, B144, D6S49E
6	LST1	ENSG00000204482	ENST00000438075	protein_coding	KNOWN	CCDS43450	14189	294	97	31553956	31556686	1	None	LST-1, B144, D6S49E
6	LST1	ENSG00000204482	ENST00000464526	retained_intron	KNOWN	None	14189	None	None	31553971	31556686	1	None	LST-1, B144, D6S49E
6	LST1	ENSG00000204482	ENST00000376096	protein_coding	KNOWN	None	14189	42	13	31553994	31556686	1	None	LST-1, B144, D6S49E
6	LST1	ENSG00000204482	ENST00000376099	protein_coding	NOVEL	None	14189	87	28	31553994	31556686	1	None	LST-1, B144, D6S49E
6	LST1	ENSG00000204482	ENST00000376110	protein_coding	KNOWN	None	14189	156	51	31553997	31556534	1	None	LST-1, B144, D6S49E
6	LST1	ENSG00000204482	ENST00000339530	protein_coding	NOVEL	CCDS54985	14189	201	66	31554476	31556587	1	None	LST-1, B144, D6S49E
6	LST1	ENSG00000204482	ENST00000211921	protein_coding	NOVEL	None	14189	87	28	31554625	31556587	1	None	LST-1, B144, D6S49E
6	LST1	ENSG00000204482	ENST00000433492	protein_coding	KNOWN	None	14189	109	35	31554672	31555507	1	None	LST-1, B144, D6S49E
6	LST1	ENSG00000204482	ENST00000376090	protein_coding	NOVEL	None	14189	87	28	31554799	31556686	1	None	LST-1, B144, D6S49E
6	LST1	ENSG00000204482	ENST00000376089	protein_coding	NOVEL	CCDS4705	14189	201	66	31554831	31556686	1	None	LST-1, B144, D6S49E
6	LST1	ENSG00000204482	ENST00000419073	processed_transcript	KNOWN	None	14189	None	None	31554863	31555618	1	None	LST-1, B144, D6S49E
6	LST1	ENSG00000204482	ENST00000396112	protein_coding	NOVEL	None	14189	199	65	31554894	31556403	1	None	LST-1, B144, D6S49E
6	LST1	ENSG00000204482	ENST00000376092	protein_coding	KNOWN	None	14189	108	35	31554977	31556439	1	None	LST-1, B144, D6S49E
6	LST1	ENSG00000204482	ENST00000376086	protein_coding	NOVEL	CCDS54987	14189	222	73	31554977	31556685	1	None	LST-1, B144, D6S49E
6	LST1	ENSG00000204482	ENST00000303757	protein_coding	KNOWN	CCDS54986	14189	180	59	31554977	31556686	1	None	LST-1, B144, D6S49E
6	LST1	ENSG00000204482	ENST00000376093	protein_coding	NOVEL	CCDS54984	14189	315	104	31554977	31556686	1	None	LST-1, B144, D6S49E
6	LST1	ENSG00000204482	ENST00000460834	retained_intron	KNOWN	None	14189	None	None	31555032	31556534	1	None	LST-1, B144, D6S49E
6	LST1	ENSG00000204482	ENST00000396101	protein_coding	NOVEL	None	14189	135	44	31555077	31556686	1	None	LST-1, B144, D6S49E
6	LST1	ENSG00000204482	ENST00000490742	protein_coding	NOVEL	None	14189	182	59	31555093	31556453	1	None	LST-1, B144, D6S49E
6	LST1	ENSG00000204482	ENST00000464044	protein_coding	NOVEL	None	14189	106	34	31555446	31556534	1	None	LST-1, B144, D6S49E
6	LST1	ENSG00000204482	ENST00000376100	protein_coding	KNOWN	None	14189	108	35	31553956	31556362	1	None	LST-1, B144, D6S49E
6	LST1	ENSG00000204482	ENST00000376102	protein_coding	KNOWN	None	14189	276	91	31554977	31556685	1	None	LST-1, B144, D6S49E
6	LST1	ENSG00000204482	ENST00000376111	protein_coding	KNOWN	None	14189	192	63	31553956	31556685	1	None	LST-1, B144, D6S49E
1	TCHHL1	ENSG00000182898	ENST00000368806	protein_coding	KNOWN	CCDS30857	31796	2715	904	152056620	152061540	-1	S100A17, THHL1	None
2	NCKAP1	ENSG00000061676	ENST00000361354	protein_coding	KNOWN	CCDS2287	7666	3387	1128	183789605	183903200	-1	None	Nap1, HEM2, NAP125
2	NCKAP1	ENSG00000061676	ENST00000360982	protein_coding	KNOWN	CCDS2288	7666	3405	1134	183789605	183903586	-1	None	Nap1, HEM2, NAP125
2	NCKAP1	ENSG00000061676	ENST00000477988	retained_intron	KNOWN	None	7666	None	None	183790385	183791993	-1	None	Nap1, HEM2, NAP125
2	NCKAP1	ENSG00000061676	ENST00000478449	processed_transcript	KNOWN	None	7666	None	None	183792847	183811890	-1	None	Nap1, HEM2, NAP125
2	NCKAP1	ENSG00000061676	ENST00000471640	processed_transcript	KNOWN	None	7666	None	None	183795453	183806847	-1	None	Nap1, HEM2, NAP125
2	NCKAP1	ENSG00000061676	ENST00000492058	retained_intron	KNOWN	None	7666	None	None	183799130	183800231	-1	None	Nap1, HEM2, NAP125
2	NCKAP1	ENSG00000061676	ENST00000493359	retained_intron	KNOWN	None	7666	None	None	183818028	183821772	-1	None	Nap1, HEM2, NAP125
2	NCKAP1	ENSG00000061676	ENST00000495619	retained_intron	KNOWN	None	7666	None	None	183821869	183829492	-1	None	Nap1, HEM2, NAP125
9	HMGN2P31	ENSG00000214195	ENST00000432430	processed_pseudogene	KNOWN	None	39398	None	None	5311444	5311716	1	None	None
1	TCHH	ENSG00000159450	ENST00000368804	protein_coding	KNOWN	CCDS41396	11791	5832	1943	152078793	152086556	-1	THH	None
12	TSPAN8	ENSG00000127324	ENST00000393330	protein_coding	KNOWN	CCDS8999	11855	714	237	71518865	71835678	-1	TM4SF3	CO-029
12	TSPAN8	ENSG00000127324	ENST00000247829	protein_coding	KNOWN	CCDS8999	11855	714	237	71518880	71551879	-1	TM4SF3	CO-029
12	TSPAN8	ENSG00000127324	ENST00000546561	protein_coding	KNOWN	CCDS8999	11855	714	237	71518881	71551679	-1	TM4SF3	CO-029
12	TSPAN8	ENSG00000127324	ENST00000552128	protein_coding	PUTATIVE	None	11855	465	154	71518933	71533055	-1	TM4SF3	CO-029
12	TSPAN8	ENSG00000127324	ENST00000552786	processed_transcript	KNOWN	None	11855	None	None	71533613	71551753	-1	TM4SF3	CO-029
12	TSPAN8	ENSG00000127324	ENST00000550818	retained_intron	KNOWN	None	11855	None	None	71551011	71551779	-1	TM4SF3	CO-029
12	TSPAN8	ENSG00000127324	ENST00000549421	processed_transcript	KNOWN	None	11855	None	None	71551528	71709536	-1	TM4SF3	CO-029
1	RPTN	ENSG00000215853	ENST00000316073	protein_coding	KNOWN	CCDS41397	26809	2355	784	152126071	152131704	-1	None	FLJ39117
3	NEK10	ENSG00000163491	ENST00000295720	protein_coding	NOVEL	None	18592	1455	484	27151576	27257966	-1	None	FLJ32685
3	NEK10	ENSG00000163491	ENST00000383771	protein_coding	KNOWN	None	18592	1425	474	27152394	27257966	-1	None	FLJ32685
3	NEK10	ENSG00000163491	ENST00000429845	protein_coding	NOVEL	None	18592	3519	1172	27152395	27410883	-1	None	FLJ32685
3	NEK10	ENSG00000163491	ENST00000498182	processed_transcript	KNOWN	None	18592	None	None	27173443	27236167	-1	None	FLJ32685
3	NEK10	ENSG00000163491	ENST00000574215	retained_intron	KNOWN	None	18592	None	None	27203757	27332984	-1	None	FLJ32685
3	NEK10	ENSG00000163491	ENST00000460447	processed_transcript	KNOWN	None	18592	None	None	27215932	27235722	-1	None	FLJ32685
3	NEK10	ENSG00000163491	ENST00000341435	protein_coding	KNOWN	CCDS46781	18592	2139	712	27257098	27410912	-1	None	FLJ32685
3	NEK10	ENSG00000163491	ENST00000435584	protein_coding	PUTATIVE	None	18592	499	165	27296603	27332219	-1	None	FLJ32685
3	NEK10	ENSG00000163491	ENST00000424275	protein_coding	PUTATIVE	None	18592	590	195	27296603	27333048	-1	None	FLJ32685
3	NEK10	ENSG00000163491	ENST00000474938	processed_transcript	PUTATIVE	None	18592	None	None	27320179	27326392	-1	None	FLJ32685
3	NEK10	ENSG00000163491	ENST00000491627	retained_intron	KNOWN	None	18592	None	None	27350648	27410687	-1	None	FLJ32685
3	NEK10	ENSG00000163491	ENST00000435750	protein_coding	KNOWN	None	18592	398	131	27363717	27410951	-1	None	FLJ32685
3	NEK10	ENSG00000163491	ENST00000383770	protein_coding	KNOWN	None	18592	1284	427	27152404	27257966	-1	None	FLJ32685
3	NEK10	ENSG00000163491	ENST00000357467	protein_coding	KNOWN	None	18592	1215	404	27203757	27332889	-1	None	FLJ32685
1	MKNK1	ENSG00000079277	ENST00000342571	nonsense_mediated_decay	KNOWN	None	7110	339	112	47023090	47051643	-1	None	MNK1
1	MKNK1	ENSG00000079277	ENST00000371946	protein_coding	KNOWN	CCDS538	7110	1398	465	47023090	47069886	-1	None	MNK1
1	MKNK1	ENSG00000079277	ENST00000371945	protein_coding	KNOWN	CCDS44134	7110	1275	424	47023091	47069909	-1	None	MNK1
1	MKNK1	ENSG00000079277	ENST00000524749	protein_coding	NOVEL	None	7110	257	84	47023905	47030735	-1	None	MNK1
1	MKNK1	ENSG00000079277	ENST00000528077	nonsense_mediated_decay	KNOWN	None	7110	357	118	47024065	47069940	-1	None	MNK1
1	MKNK1	ENSG00000079277	ENST00000428112	protein_coding	KNOWN	CCDS30705	7110	1044	347	47024371	47069927	-1	None	MNK1
1	MKNK1	ENSG00000079277	ENST00000532897	retained_intron	KNOWN	None	7110	None	None	47024428	47037972	-1	None	MNK1
1	MKNK1	ENSG00000079277	ENST00000530528	retained_intron	KNOWN	None	7110	None	None	47027149	47028707	-1	None	MNK1
1	MKNK1	ENSG00000079277	ENST00000531355	nonsense_mediated_decay	KNOWN	None	7110	171	56	47027154	47069951	-1	None	MNK1
1	MKNK1	ENSG00000079277	ENST00000470237	processed_transcript	KNOWN	None	7110	None	None	47027244	47034109	-1	None	MNK1
1	MKNK1	ENSG00000079277	ENST00000524417	retained_intron	KNOWN	None	7110	None	None	47028371	47031098	-1	None	MNK1
1	MKNK1	ENSG00000079277	ENST00000460098	processed_transcript	PUTATIVE	None	7110	None	None	47028421	47034134	-1	None	MNK1
1	MKNK1	ENSG00000079277	ENST00000532783	protein_coding	PUTATIVE	None	7110	513	170	47034115	47051232	-1	None	MNK1
1	MKNK1	ENSG00000079277	ENST00000496619	protein_coding	KNOWN	None	7110	536	177	47034128	47069966	-1	None	MNK1
1	MKNK1	ENSG00000079277	ENST00000528237	protein_coding	PUTATIVE	None	7110	429	142	47037781	47051931	-1	None	MNK1
1	MKNK1	ENSG00000079277	ENST00000526513	nonsense_mediated_decay	KNOWN	None	7110	183	60	47037830	47069896	-1	None	MNK1
1	MKNK1	ENSG00000079277	ENST00000484301	retained_intron	KNOWN	None	7110	None	None	47039406	47059878	-1	None	MNK1
1	MKNK1	ENSG00000079277	ENST00000486716	retained_intron	KNOWN	None	7110	None	None	47040498	47059903	-1	None	MNK1
1	MKNK1	ENSG00000079277	ENST00000480531	retained_intron	KNOWN	None	7110	None	None	47041940	47051607	-1	None	MNK1
1	MKNK1	ENSG00000079277	ENST00000529170	protein_coding	KNOWN	None	7110	305	100	47042256	47069927	-1	None	MNK1
1	MKNK1	ENSG00000079277	ENST00000531769	protein_coding	KNOWN	None	7110	300	99	47042261	47082515	-1	None	MNK1
1	MKNK1	ENSG00000079277	ENST00000465783	protein_coding	PUTATIVE	None	7110	276	91	47046106	47059952	-1	None	MNK1
1	MKNK1	ENSG00000079277	ENST00000474868	nonsense_mediated_decay	KNOWN	None	7110	114	37	47046112	47059933	-1	None	MNK1
1	MKNK1	ENSG00000079277	ENST00000532110	protein_coding	PUTATIVE	None	7110	378	125	47046268	47060731	-1	None	MNK1
1	MKNK1	ENSG00000079277	ENST00000477883	retained_intron	KNOWN	None	7110	None	None	47050176	47051941	-1	None	MNK1
1	MKNK1	ENSG00000079277	ENST00000525888	processed_transcript	KNOWN	None	7110	None	None	47050219	47069918	-1	None	MNK1
1	MKNK1	ENSG00000079277	ENST00000468852	retained_intron	KNOWN	None	7110	None	None	47059195	47069942	-1	None	MNK1
1	MKNK1	ENSG00000079277	ENST00000371944	protein_coding	KNOWN	None	7110	990	329	47023091	47051643	-1	None	MNK1
1	MKNK1	ENSG00000079277	ENST00000341183	protein_coding	KNOWN	CCDS30705	7110	1044	347	47023091	47069966	-1	None	MNK1
1	MKNK1	ENSG00000079277	ENST00000545730	protein_coding	KNOWN	None	7110	402	133	47040147	47082515	-1	None	MNK1
3	RNF123	ENSG00000164068	ENST00000327697	protein_coding	KNOWN	CCDS33758	21148	3945	1314	49726932	49758960	1	None	FLJ12565
3	RNF123	ENSG00000164068	ENST00000432042	protein_coding	PUTATIVE	None	21148	2289	762	49726971	49750263	1	None	FLJ12565
3	RNF123	ENSG00000164068	ENST00000457726	nonsense_mediated_decay	KNOWN	None	21148	2166	721	49726977	49758960	1	None	FLJ12565
3	RNF123	ENSG00000164068	ENST00000454491	protein_coding	PUTATIVE	None	21148	229	75	49726990	49734637	1	None	FLJ12565
3	RNF123	ENSG00000164068	ENST00000443204	nonsense_mediated_decay	KNOWN	None	21148	207	68	49726990	49734845	1	None	FLJ12565
3	RNF123	ENSG00000164068	ENST00000486102	retained_intron	KNOWN	None	21148	None	None	49726995	49758962	1	None	FLJ12565
3	RNF123	ENSG00000164068	ENST00000487805	retained_intron	KNOWN	None	21148	None	None	49726998	49758960	1	None	FLJ12565
3	RNF123	ENSG00000164068	ENST00000494005	retained_intron	KNOWN	None	21148	None	None	49737933	49739543	1	None	FLJ12565
3	RNF123	ENSG00000164068	ENST00000469978	retained_intron	KNOWN	None	21148	None	None	49749983	49753476	1	None	FLJ12565
3	RNF123	ENSG00000164068	ENST00000433785	protein_coding	PUTATIVE	None	21148	1281	426	49750263	49758959	1	None	FLJ12565
3	RNF123	ENSG00000164068	ENST00000444689	nonsense_mediated_decay	KNOWN	None	21148	78	25	49750960	49753322	1	None	FLJ12565
3	RNF123	ENSG00000164068	ENST00000497099	processed_transcript	KNOWN	None	21148	None	None	49755537	49758323	1	None	FLJ12565
3	RNF123	ENSG00000164068	ENST00000498376	retained_intron	KNOWN	None	21148	None	None	49757992	49758962	1	None	FLJ12565
1	HRNR	ENSG00000197915	ENST00000368801	protein_coding	KNOWN	CCDS30859	20846	8553	2850	152184558	152196669	-1	None	S100a18, S100A16, FLG3
12	LTA4H	ENSG00000111144	ENST00000228740	protein_coding	KNOWN	CCDS9059	6710	1836	611	96394606	96429439	-1	None	None
12	LTA4H	ENSG00000111144	ENST00000537111	retained_intron	KNOWN	None	6710	None	None	96394608	96405036	-1	None	None
12	LTA4H	ENSG00000111144	ENST00000552789	protein_coding	PUTATIVE	CCDS58267	6710	1764	587	96394608	96437255	-1	None	None
12	LTA4H	ENSG00000111144	ENST00000553041	retained_intron	KNOWN	None	6710	None	None	96394611	96429306	-1	None	None
12	LTA4H	ENSG00000111144	ENST00000413268	protein_coding	KNOWN	CCDS58266	6710	1527	508	96394685	96437298	-1	None	None
12	LTA4H	ENSG00000111144	ENST00000548852	nonsense_mediated_decay	KNOWN	None	6710	399	132	96396768	96429419	-1	None	None
12	LTA4H	ENSG00000111144	ENST00000547393	retained_intron	KNOWN	None	6710	None	None	96397372	96407030	-1	None	None
12	LTA4H	ENSG00000111144	ENST00000548375	processed_transcript	KNOWN	None	6710	None	None	96400092	96408912	-1	None	None
12	LTA4H	ENSG00000111144	ENST00000547982	retained_intron	KNOWN	None	6710	None	None	96405073	96408952	-1	None	None
12	LTA4H	ENSG00000111144	ENST00000552091	retained_intron	KNOWN	None	6710	None	None	96407017	96408102	-1	None	None
8	EXTL3	ENSG00000012232	ENST00000522725	processed_transcript	KNOWN	None	3518	None	None	28457986	28573133	1	None	botv, REGR
8	EXTL3	ENSG00000012232	ENST00000523149	protein_coding	PUTATIVE	None	3518	1608	535	28480246	28608420	1	None	botv, REGR
8	EXTL3	ENSG00000012232	ENST00000519288	processed_transcript	KNOWN	None	3518	None	None	28480278	28573303	1	None	botv, REGR
8	EXTL3	ENSG00000012232	ENST00000520940	processed_transcript	KNOWN	None	3518	None	None	28488923	28571030	1	None	botv, REGR
8	EXTL3	ENSG00000012232	ENST00000454906	processed_transcript	KNOWN	None	3518	None	None	28488949	28573127	1	None	botv, REGR
8	EXTL3	ENSG00000012232	ENST00000220562	protein_coding	KNOWN	CCDS6070	3518	2760	919	28558844	28611204	1	None	botv, REGR
8	EXTL3	ENSG00000012232	ENST00000519886	processed_transcript	KNOWN	None	3518	None	None	28559122	28610349	1	None	botv, REGR
8	EXTL3	ENSG00000012232	ENST00000518223	processed_transcript	KNOWN	None	3518	None	None	28567872	28573420	1	None	botv, REGR
8	EXTL3	ENSG00000012232	ENST00000521532	protein_coding	PUTATIVE	None	3518	413	136	28567875	28600700	1	None	botv, REGR
8	EXTL3	ENSG00000012232	ENST00000522698	nonsense_mediated_decay	KNOWN	None	3518	227	74	28574202	28600681	1	None	botv, REGR
8	EXTL3	ENSG00000012232	ENST00000521473	protein_coding	NOVEL	None	3518	601	199	28575577	28608353	1	None	botv, REGR
8	EXTL3	ENSG00000012232	ENST00000517738	protein_coding	PUTATIVE	None	3518	356	117	28587677	28608241	1	None	botv, REGR
8	EXTL3	ENSG00000012232	ENST00000523271	retained_intron	KNOWN	None	3518	None	None	28597418	28613116	1	None	botv, REGR
8	EXTL3	ENSG00000012232	ENST00000520679	processed_transcript	PUTATIVE	None	3518	None	None	28601493	28608611	1	None	botv, REGR
17	TRIM16	ENSG00000221926	ENST00000577886	protein_coding	KNOWN	None	17241	1047	348	15531274	15546278	-1	None	EBBP
17	TRIM16	ENSG00000221926	ENST00000416464	protein_coding	NOVEL	None	17241	1305	434	15531274	15587613	-1	None	EBBP
17	TRIM16	ENSG00000221926	ENST00000578237	protein_coding	KNOWN	CCDS11171	17241	1695	564	15531274	15587614	-1	None	EBBP
17	TRIM16	ENSG00000221926	ENST00000577446	protein_coding	PUTATIVE	None	17241	699	232	15531280	15539457	-1	None	EBBP
17	TRIM16	ENSG00000221926	ENST00000579219	protein_coding	NOVEL	None	17241	423	140	15531962	15546248	-1	None	EBBP
17	TRIM16	ENSG00000221926	ENST00000577326	retained_intron	KNOWN	None	17241	None	None	15532010	15535349	-1	None	EBBP
17	TRIM16	ENSG00000221926	ENST00000580110	protein_coding	PUTATIVE	None	17241	335	110	15532475	15546246	-1	None	EBBP
17	TRIM16	ENSG00000221926	ENST00000473368	retained_intron	KNOWN	None	17241	None	None	15534973	15536237	-1	None	EBBP
17	TRIM16	ENSG00000221926	ENST00000577372	protein_coding	KNOWN	None	17241	345	114	15535845	15546589	-1	None	EBBP
17	TRIM16	ENSG00000221926	ENST00000578744	protein_coding	PUTATIVE	None	17241	552	183	15535908	15584244	-1	None	EBBP
17	TRIM16	ENSG00000221926	ENST00000473540	processed_transcript	KNOWN	None	17241	None	None	15535946	15587587	-1	None	EBBP
17	TRIM16	ENSG00000221926	ENST00000581224	processed_transcript	KNOWN	None	17241	None	None	15539518	15587611	-1	None	EBBP
17	TRIM16	ENSG00000221926	ENST00000581200	protein_coding	PUTATIVE	None	17241	289	95	15539520	15587624	-1	None	EBBP
17	TRIM16	ENSG00000221926	ENST00000460728	processed_transcript	KNOWN	None	17241	None	None	15539536	15587597	-1	None	EBBP
17	TRIM16	ENSG00000221926	ENST00000579272	processed_transcript	KNOWN	None	17241	None	None	15546048	15587611	-1	None	EBBP
17	TRIM16	ENSG00000221926	ENST00000584142	processed_transcript	KNOWN	None	17241	None	None	15555151	15587580	-1	None	EBBP
17	TRIM16	ENSG00000221926	ENST00000473659	processed_transcript	KNOWN	None	17241	None	None	15557576	15587589	-1	None	EBBP
17	TRIM16	ENSG00000221926	ENST00000494759	nonsense_mediated_decay	KNOWN	None	17241	168	55	15557704	15584232	-1	None	EBBP
17	TRIM16	ENSG00000221926	ENST00000579535	processed_transcript	KNOWN	None	17241	None	None	15580489	15587615	-1	None	EBBP
17	TRIM16	ENSG00000221926	ENST00000582182	processed_transcript	KNOWN	None	17241	None	None	15580588	15586690	-1	None	EBBP
17	TRIM16	ENSG00000221926	ENST00000582708	processed_transcript	KNOWN	None	17241	None	None	15580889	15587613	-1	None	EBBP
17	TRIM16	ENSG00000221926	ENST00000580388	processed_transcript	KNOWN	None	17241	None	None	15580945	15587612	-1	None	EBBP
17	TRIM16	ENSG00000221926	ENST00000579843	processed_transcript	KNOWN	None	17241	None	None	15584402	15587613	-1	None	EBBP
17	TRIM16	ENSG00000221926	ENST00000579630	processed_transcript	PUTATIVE	None	17241	None	None	15586168	15587625	-1	None	EBBP
17	TRIM16	ENSG00000221926	ENST00000336708	protein_coding	KNOWN	CCDS11171	17241	1695	564	15531281	15586193	-1	None	EBBP
3	HEG1	ENSG00000173706	ENST00000311127	protein_coding	KNOWN	CCDS46898	29227	4146	1381	124684554	124774802	-1	None	KIAA1237, HEG
3	HEG1	ENSG00000173706	ENST00000487661	protein_coding	PUTATIVE	None	29227	798	265	124686321	124720864	-1	None	KIAA1237, HEG
3	HEG1	ENSG00000173706	ENST00000480667	processed_transcript	PUTATIVE	None	29227	None	None	124689265	124691000	-1	None	KIAA1237, HEG
3	HEG1	ENSG00000173706	ENST00000482699	nonsense_mediated_decay	KNOWN	None	29227	192	63	124689397	124692751	-1	None	KIAA1237, HEG
3	HEG1	ENSG00000173706	ENST00000488654	retained_intron	KNOWN	None	29227	None	None	124728359	124729393	-1	None	KIAA1237, HEG
3	HEG1	ENSG00000173706	ENST00000477536	processed_transcript	PUTATIVE	None	29227	None	None	124732316	124738340	-1	None	KIAA1237, HEG
9	RASEF	ENSG00000165105	ENST00000376447	protein_coding	KNOWN	CCDS6662	26464	2223	740	85594500	85678043	-1	RAB45	FLJ31614
9	RASEF	ENSG00000165105	ENST00000340717	protein_coding	KNOWN	None	26464	570	189	85669575	85678092	-1	RAB45	FLJ31614
7	ELMO1	ENSG00000155849	ENST00000396045	protein_coding	KNOWN	CCDS5450	16286	744	247	36893966	37026114	-1	None	KIAA0281, CED12, ELMO-1, CED-12
7	ELMO1	ENSG00000155849	ENST00000310758	protein_coding	KNOWN	CCDS5449	16286	2184	727	36893966	37488852	-1	None	KIAA0281, CED12, ELMO-1, CED-12
7	ELMO1	ENSG00000155849	ENST00000396040	protein_coding	KNOWN	CCDS5450	16286	744	247	36894067	37024665	-1	None	KIAA0281, CED12, ELMO-1, CED-12
7	ELMO1	ENSG00000155849	ENST00000442504	protein_coding	KNOWN	CCDS5449	16286	2184	727	36894896	37393272	-1	None	KIAA0281, CED12, ELMO-1, CED-12
7	ELMO1	ENSG00000155849	ENST00000497024	retained_intron	KNOWN	None	16286	None	None	36894972	36901755	-1	None	KIAA0281, CED12, ELMO-1, CED-12
7	ELMO1	ENSG00000155849	ENST00000487843	processed_transcript	KNOWN	None	16286	None	None	36895103	37025754	-1	None	KIAA0281, CED12, ELMO-1, CED-12
7	ELMO1	ENSG00000155849	ENST00000448602	protein_coding	KNOWN	CCDS5449	16286	2184	727	36895156	37488826	-1	None	KIAA0281, CED12, ELMO-1, CED-12
7	ELMO1	ENSG00000155849	ENST00000464262	processed_transcript	KNOWN	None	16286	None	None	36909998	37025721	-1	None	KIAA0281, CED12, ELMO-1, CED-12
7	ELMO1	ENSG00000155849	ENST00000420636	nonsense_mediated_decay	KNOWN	None	16286	549	182	36934459	37256294	-1	None	KIAA0281, CED12, ELMO-1, CED-12
7	ELMO1	ENSG00000155849	ENST00000472359	processed_transcript	KNOWN	None	16286	None	None	36934527	37236828	-1	None	KIAA0281, CED12, ELMO-1, CED-12
7	ELMO1	ENSG00000155849	ENST00000433246	protein_coding	NOVEL	None	16286	580	192	37136283	37262293	-1	None	KIAA0281, CED12, ELMO-1, CED-12
7	ELMO1	ENSG00000155849	ENST00000487336	retained_intron	KNOWN	None	16286	None	None	37172611	37264524	-1	None	KIAA0281, CED12, ELMO-1, CED-12
7	ELMO1	ENSG00000155849	ENST00000424212	protein_coding	PUTATIVE	None	16286	375	124	37250690	37256303	-1	None	KIAA0281, CED12, ELMO-1, CED-12
7	ELMO1	ENSG00000155849	ENST00000455119	protein_coding	NOVEL	None	16286	503	166	37272710	37382367	-1	None	KIAA0281, CED12, ELMO-1, CED-12
7	ELMO1	ENSG00000155849	ENST00000455879	protein_coding	KNOWN	None	16286	449	148	37283961	37382783	-1	None	KIAA0281, CED12, ELMO-1, CED-12
7	ELMO1	ENSG00000155849	ENST00000463390	retained_intron	KNOWN	None	16286	None	None	37309059	37488459	-1	None	KIAA0281, CED12, ELMO-1, CED-12
7	ELMO1	ENSG00000155849	ENST00000453399	protein_coding	KNOWN	None	16286	243	80	37311437	37488553	-1	None	KIAA0281, CED12, ELMO-1, CED-12
7	ELMO1	ENSG00000155849	ENST00000445322	protein_coding	KNOWN	None	16286	177	58	37354469	37488789	-1	None	KIAA0281, CED12, ELMO-1, CED-12
7	ELMO1	ENSG00000155849	ENST00000479447	processed_transcript	PUTATIVE	None	16286	None	None	37468860	37488553	-1	None	KIAA0281, CED12, ELMO-1, CED-12
7	ELMO1	ENSG00000155849	ENST00000341056	protein_coding	KNOWN	None	16286	1290	429	36893961	37243905	-1	None	KIAA0281, CED12, ELMO-1, CED-12
12	LRP6	ENSG00000070018	ENST00000261349	protein_coding	KNOWN	CCDS8647	6698	4842	1613	12268959	12419746	-1	None	ADCAD2
12	LRP6	ENSG00000070018	ENST00000538239	nonsense_mediated_decay	KNOWN	None	6698	4436	1477	12268963	12397238	-1	None	ADCAD2
12	LRP6	ENSG00000070018	ENST00000540527	protein_coding	PUTATIVE	None	6698	210	69	12273981	12284764	-1	None	ADCAD2
12	LRP6	ENSG00000070018	ENST00000543091	protein_coding	NOVEL	None	6698	4707	1568	12274027	12419703	-1	None	ADCAD2
12	LRP6	ENSG00000070018	ENST00000540415	processed_transcript	KNOWN	None	6698	None	None	12278296	12288162	-1	None	ADCAD2
12	LRP6	ENSG00000070018	ENST00000545658	retained_intron	KNOWN	None	6698	None	None	12339740	12356257	-1	None	ADCAD2
12	LRP6	ENSG00000070018	ENST00000535731	protein_coding	PUTATIVE	None	6698	226	74	12340022	12419946	-1	None	ADCAD2
1	FLG	ENSG00000143631	ENST00000368799	protein_coding	KNOWN	CCDS30860	3748	12186	4061	152274651	152297679	-1	None	None
2	DUSP19	ENSG00000162999	ENST00000342619	protein_coding	KNOWN	CCDS46469	18894	501	166	183943287	183960627	1	None	SKRP1, DUSP17
2	DUSP19	ENSG00000162999	ENST00000354221	protein_coding	KNOWN	CCDS2289	18894	654	217	183943487	183964733	1	None	SKRP1, DUSP17
2	DUSP19	ENSG00000162999	ENST00000469344	processed_transcript	KNOWN	None	18894	None	None	183943717	183960631	1	None	SKRP1, DUSP17
2	ZNF638	ENSG00000075292	ENST00000494621	processed_transcript	KNOWN	None	17894	None	None	71503691	71592835	1	ZFML	NP220, MGC26130, Zfp638
2	ZNF638	ENSG00000075292	ENST00000466975	processed_transcript	KNOWN	None	17894	None	None	71503723	71592618	1	ZFML	NP220, MGC26130, Zfp638
2	ZNF638	ENSG00000075292	ENST00000410075	processed_transcript	KNOWN	None	17894	None	None	71503723	71622796	1	ZFML	NP220, MGC26130, Zfp638
2	ZNF638	ENSG00000075292	ENST00000466330	processed_transcript	KNOWN	None	17894	None	None	71503775	71592743	1	ZFML	NP220, MGC26130, Zfp638
2	ZNF638	ENSG00000075292	ENST00000437658	protein_coding	KNOWN	None	17894	591	196	71558858	71576675	1	ZFML	NP220, MGC26130, Zfp638
2	ZNF638	ENSG00000075292	ENST00000464375	processed_transcript	KNOWN	None	17894	None	None	71558890	71592668	1	ZFML	NP220, MGC26130, Zfp638
2	ZNF638	ENSG00000075292	ENST00000475743	processed_transcript	KNOWN	None	17894	None	None	71558892	71592644	1	ZFML	NP220, MGC26130, Zfp638
2	ZNF638	ENSG00000075292	ENST00000264447	protein_coding	KNOWN	CCDS1917	17894	5937	1978	71558894	71662191	1	ZFML	NP220, MGC26130, Zfp638
2	ZNF638	ENSG00000075292	ENST00000409544	protein_coding	NOVEL	CCDS1917	17894	5937	1978	71558894	71662191	1	ZFML	NP220, MGC26130, Zfp638
2	ZNF638	ENSG00000075292	ENST00000455226	protein_coding	KNOWN	None	17894	187	61	71558896	71576271	1	ZFML	NP220, MGC26130, Zfp638
2	ZNF638	ENSG00000075292	ENST00000454278	protein_coding	KNOWN	None	17894	187	61	71558896	71576271	1	ZFML	NP220, MGC26130, Zfp638
2	ZNF638	ENSG00000075292	ENST00000487707	processed_transcript	PUTATIVE	None	17894	None	None	71558912	71575968	1	ZFML	NP220, MGC26130, Zfp638
2	ZNF638	ENSG00000075292	ENST00000417778	protein_coding	KNOWN	None	17894	88	28	71558912	71576172	1	ZFML	NP220, MGC26130, Zfp638
2	ZNF638	ENSG00000075292	ENST00000454122	protein_coding	KNOWN	None	17894	109	35	71558912	71576193	1	ZFML	NP220, MGC26130, Zfp638
2	ZNF638	ENSG00000075292	ENST00000601581	protein_coding	PUTATIVE	None	17894	574	190	71592559	71602465	1	ZFML	NP220, MGC26130, Zfp638
2	ZNF638	ENSG00000075292	ENST00000434786	processed_transcript	KNOWN	None	17894	None	None	71601068	71603450	1	ZFML	NP220, MGC26130, Zfp638
2	ZNF638	ENSG00000075292	ENST00000486494	processed_transcript	PUTATIVE	None	17894	None	None	71606646	71607850	1	ZFML	NP220, MGC26130, Zfp638
2	ZNF638	ENSG00000075292	ENST00000491843	retained_intron	KNOWN	None	17894	None	None	71607306	71625887	1	ZFML	NP220, MGC26130, Zfp638
2	ZNF638	ENSG00000075292	ENST00000487638	retained_intron	KNOWN	None	17894	None	None	71622849	71662188	1	ZFML	NP220, MGC26130, Zfp638
2	ZNF638	ENSG00000075292	ENST00000494241	retained_intron	KNOWN	None	17894	None	None	71630980	71653736	1	ZFML	NP220, MGC26130, Zfp638
2	ZNF638	ENSG00000075292	ENST00000409407	protein_coding	PUTATIVE	None	17894	2757	918	71634369	71662190	1	ZFML	NP220, MGC26130, Zfp638
2	ZNF638	ENSG00000075292	ENST00000483421	processed_transcript	KNOWN	None	17894	None	None	71645352	71662182	1	ZFML	NP220, MGC26130, Zfp638
2	ZNF638	ENSG00000075292	ENST00000493576	processed_transcript	KNOWN	None	17894	None	None	71653976	71662188	1	ZFML	NP220, MGC26130, Zfp638
2	ZNF638	ENSG00000075292	ENST00000461991	processed_transcript	KNOWN	None	17894	None	None	71654413	71662199	1	ZFML	NP220, MGC26130, Zfp638
2	ZNF638	ENSG00000075292	ENST00000492262	processed_transcript	KNOWN	None	17894	None	None	71654425	71656093	1	ZFML	NP220, MGC26130, Zfp638
2	ZNF638	ENSG00000075292	ENST00000472758	processed_transcript	KNOWN	None	17894	None	None	71654480	71661999	1	ZFML	NP220, MGC26130, Zfp638
2	ZNF638	ENSG00000075292	ENST00000488126	processed_transcript	KNOWN	None	17894	None	None	71658153	71662188	1	ZFML	NP220, MGC26130, Zfp638
2	ZNF638	ENSG00000075292	ENST00000460310	processed_transcript	PUTATIVE	None	17894	None	None	71658313	71660696	1	ZFML	NP220, MGC26130, Zfp638
2	ZNF638	ENSG00000075292	ENST00000355812	protein_coding	KNOWN	None	17894	3420	1139	71558889	71662187	1	ZFML	NP220, MGC26130, Zfp638
2	ZNF638	ENSG00000075292	ENST00000377802	protein_coding	KNOWN	None	17894	2445	814	71558889	71615610	1	ZFML	NP220, MGC26130, Zfp638
8	ARC	ENSG00000198576	ENST00000356613	protein_coding	KNOWN	CCDS34950	648	1191	396	143692405	143696833	-1	None	KIAA0278, Arg3.1
8	ARC	ENSG00000198576	ENST00000581404	processed_transcript	KNOWN	None	648	None	None	143693426	143694063	-1	None	KIAA0278, Arg3.1
1	MIA3	ENSG00000154305	ENST00000344922	protein_coding	NOVEL	CCDS41470	24008	5724	1907	222791428	222841354	1	None	UNQ6077, FLJ39207, KIAA0268, TANGO
1	MIA3	ENSG00000154305	ENST00000470521	processed_transcript	KNOWN	None	24008	None	None	222791441	222819477	1	None	UNQ6077, FLJ39207, KIAA0268, TANGO
1	MIA3	ENSG00000154305	ENST00000344507	protein_coding	NOVEL	None	24008	1503	500	222791450	222839489	1	None	UNQ6077, FLJ39207, KIAA0268, TANGO
1	MIA3	ENSG00000154305	ENST00000354906	protein_coding	NOVEL	None	24008	3045	1014	222801816	222828003	1	None	UNQ6077, FLJ39207, KIAA0268, TANGO
1	MIA3	ENSG00000154305	ENST00000340535	protein_coding	NOVEL	None	24008	2358	785	222817645	222839165	1	None	UNQ6077, FLJ39207, KIAA0268, TANGO
1	MIA3	ENSG00000154305	ENST00000495210	processed_transcript	KNOWN	None	24008	None	None	222817736	222825625	1	None	UNQ6077, FLJ39207, KIAA0268, TANGO
1	MIA3	ENSG00000154305	ENST00000467190	processed_transcript	PUTATIVE	None	24008	None	None	222822605	222823657	1	None	UNQ6077, FLJ39207, KIAA0268, TANGO
1	MIA3	ENSG00000154305	ENST00000476400	processed_transcript	KNOWN	None	24008	None	None	222831984	222833335	1	None	UNQ6077, FLJ39207, KIAA0268, TANGO
1	MIA3	ENSG00000154305	ENST00000475451	processed_transcript	KNOWN	None	24008	None	None	222833281	222837392	1	None	UNQ6077, FLJ39207, KIAA0268, TANGO
1	MIA3	ENSG00000154305	ENST00000479370	processed_transcript	PUTATIVE	None	24008	None	None	222835425	222835850	1	None	UNQ6077, FLJ39207, KIAA0268, TANGO
1	MIA3	ENSG00000154305	ENST00000450260	protein_coding	NOVEL	None	24008	322	106	222835432	222838563	1	None	UNQ6077, FLJ39207, KIAA0268, TANGO
1	MIA3	ENSG00000154305	ENST00000477519	processed_transcript	PUTATIVE	None	24008	None	None	222837313	222838873	1	None	UNQ6077, FLJ39207, KIAA0268, TANGO
1	MIA3	ENSG00000154305	ENST00000344441	protein_coding	KNOWN	None	24008	5724	1907	222791444	222841351	1	None	UNQ6077, FLJ39207, KIAA0268, TANGO
6	None	ENSG00000229646	ENST00000414740	lincRNA	KNOWN	None	None	None	None	14597745	14599921	-1	None	None
6	RNU6-793P	ENSG00000206960	ENST00000384233	snRNA	KNOWN	None	47756	None	None	14646766	14646869	1	None	None
6	None	ENSG00000234261	ENST00000437648	lincRNA	KNOWN	None	None	None	None	14977019	15090234	-1	None	None
1	FLG2	ENSG00000143520	ENST00000388718	protein_coding	KNOWN	CCDS30861	33276	7176	2391	152321211	152332482	-1	None	IFPS
6	None	ENSG00000216754	ENST00000396909	processed_pseudogene	KNOWN	None	None	None	None	15103177	15104361	-1	None	None
9	SLC25A25	ENSG00000148339	ENST00000373068	protein_coding	KNOWN	CCDS35151	20663	1512	503	130830480	130871523	1	None	KIAA1896, PCSCL, MCSC
9	SLC25A25	ENSG00000148339	ENST00000373069	protein_coding	KNOWN	None	20663	1548	515	130830572	130871524	1	None	KIAA1896, PCSCL, MCSC
9	SLC25A25	ENSG00000148339	ENST00000373066	protein_coding	KNOWN	CCDS59146	20663	1506	501	130853743	130871524	1	None	KIAA1896, PCSCL, MCSC
9	SLC25A25	ENSG00000148339	ENST00000432073	protein_coding	KNOWN	CCDS48031	20663	1470	489	130853743	130871524	1	None	KIAA1896, PCSCL, MCSC
9	SLC25A25	ENSG00000148339	ENST00000373064	protein_coding	KNOWN	CCDS6890	20663	1410	469	130860583	130871524	1	None	KIAA1896, PCSCL, MCSC
9	SLC25A25	ENSG00000148339	ENST00000472769	nonsense_mediated_decay	KNOWN	None	20663	228	75	130860816	130866008	1	None	KIAA1896, PCSCL, MCSC
9	SLC25A25	ENSG00000148339	ENST00000445012	retained_intron	KNOWN	None	20663	None	None	130863146	130866116	1	None	KIAA1896, PCSCL, MCSC
9	SLC25A25	ENSG00000148339	ENST00000466983	protein_coding	PUTATIVE	None	20663	496	164	130866001	130869926	1	None	KIAA1896, PCSCL, MCSC
9	SLC25A25	ENSG00000148339	ENST00000433501	protein_coding	KNOWN	None	20663	1101	366	130860836	130871524	1	None	KIAA1896, PCSCL, MCSC
1	CRNN	ENSG00000143536	ENST00000271835	protein_coding	KNOWN	CCDS1010	1230	1488	495	152381719	152386739	-1	C1orf10	SEP53
9	None	ENSG00000231967	ENST00000415892	processed_pseudogene	KNOWN	None	None	None	None	5356312	5356525	-1	None	None
9	None	ENSG00000214190	ENST00000397754	processed_pseudogene	KNOWN	None	None	None	None	5418373	5418976	-1	None	None
11	None	ENSG00000269089	ENST00000601917	protein_coding	KNOWN	None	None	495	164	61735453	61736755	1	None	None
1	LCE5A	ENSG00000186207	ENST00000334269	protein_coding	KNOWN	CCDS1011	16614	357	118	152483320	152484653	1	SPRL5A	LEP18
1	MOB3C	ENSG00000142961	ENST00000271139	protein_coding	KNOWN	CCDS539	29800	807	268	47073391	47080805	-1	MOBKL2C	MOB1E
1	MOB3C	ENSG00000142961	ENST00000371940	protein_coding	KNOWN	None	29800	720	239	47073397	47082137	-1	MOBKL2C	MOB1E
1	MOB3C	ENSG00000142961	ENST00000477318	processed_transcript	KNOWN	None	29800	None	None	47075674	47082556	-1	MOBKL2C	MOB1E
1	MOB3C	ENSG00000142961	ENST00000319928	protein_coding	KNOWN	CCDS540	29800	651	216	47073387	47082563	-1	MOBKL2C	MOB1E
9	None	ENSG00000231509	ENST00000443792	lincRNA	KNOWN	None	None	None	None	5584490	5588994	1	None	None
1	CRCT1	ENSG00000169509	ENST00000368790	protein_coding	KNOWN	CCDS1012	29875	300	99	152486978	152488486	1	C1orf42	NICE-1
9	None	ENSG00000225408	ENST00000426764	antisense	KNOWN	None	None	None	None	5719021	5720244	-1	None	None
19	TFPT	ENSG00000105619	ENST00000391759	protein_coding	KNOWN	CCDS12878	13630	762	253	54610320	54619055	-1	None	FB1, amida, INO80F
19	TFPT	ENSG00000105619	ENST00000391758	protein_coding	PUTATIVE	None	13630	735	244	54610327	54618454	-1	None	FB1, amida, INO80F
19	TFPT	ENSG00000105619	ENST00000420715	nonsense_mediated_decay	KNOWN	None	13630	318	105	54610327	54618665	-1	None	FB1, amida, INO80F
19	TFPT	ENSG00000105619	ENST00000391757	protein_coding	PUTATIVE	None	13630	582	193	54610327	54618668	-1	None	FB1, amida, INO80F
9	AK4P4	ENSG00000223621	ENST00000419465	processed_pseudogene	KNOWN	None	39067	None	None	5855781	5856426	-1	None	None
9	None	ENSG00000238654	ENST00000459519	snoRNA	NOVEL	None	None	None	None	5890150	5890256	1	None	None
9	MIR4665	ENSG00000263575	ENST00000581132	miRNA	KNOWN	None	41696	None	None	6007826	6007904	1	None	hsa-mir-4665
1	LCE3E	ENSG00000185966	ENST00000368789	protein_coding	KNOWN	CCDS1013	29463	279	92	152538130	152539248	-1	None	LEP17
9	None	ENSG00000228739	ENST00000437881	lincRNA	KNOWN	None	None	None	None	6047360	6066714	1	None	None
2	NUP35	ENSG00000163002	ENST00000442895	protein_coding	PUTATIVE	None	29797	230	75	183982241	183995215	1	None	MP44
2	NUP35	ENSG00000163002	ENST00000446612	protein_coding	PUTATIVE	None	29797	346	114	183982242	183998351	1	None	MP44
2	NUP35	ENSG00000163002	ENST00000409798	protein_coding	PUTATIVE	None	29797	930	309	183982242	184026166	1	None	MP44
2	NUP35	ENSG00000163002	ENST00000472844	retained_intron	KNOWN	None	29797	None	None	183982247	183984790	1	None	MP44
2	NUP35	ENSG00000163002	ENST00000455063	protein_coding	PUTATIVE	None	29797	160	52	183982266	183993185	1	None	MP44
2	NUP35	ENSG00000163002	ENST00000295119	protein_coding	KNOWN	CCDS2290	29797	981	326	183989083	184026408	1	None	MP44
2	NUP35	ENSG00000163002	ENST00000497330	processed_transcript	KNOWN	None	29797	None	None	183989104	183995845	1	None	MP44
2	NUP35	ENSG00000163002	ENST00000374930	nonsense_mediated_decay	KNOWN	None	29797	459	152	183989140	184025972	1	None	MP44
2	NUP35	ENSG00000163002	ENST00000479162	retained_intron	KNOWN	None	29797	None	None	183989147	184026408	1	None	MP44
2	NUP35	ENSG00000163002	ENST00000452137	nonsense_mediated_decay	KNOWN	None	29797	411	136	183989186	183998351	1	None	MP44
2	NUP35	ENSG00000163002	ENST00000541912	protein_coding	KNOWN	None	29797	576	191	183989173	184026366	1	None	MP44
1	LCE3D	ENSG00000163202	ENST00000368787	protein_coding	KNOWN	CCDS1014	16615	279	92	152551857	152552980	-1	SPRL6B, SPRL6A	LEP16
9	None	ENSG00000237274	ENST00000416942	processed_pseudogene	KNOWN	None	None	None	None	6195934	6197248	1	None	None
1	LCE3C	ENSG00000244057	ENST00000333881	protein_coding	KNOWN	CCDS1015	16612	285	94	152573138	152573562	1	SPRL3A	LEP15
X	ENOX2	ENSG00000165675	ENST00000370935	protein_coding	KNOWN	CCDS14627	2259	1746	581	129757350	130037208	-1	COVA1	APK1, tNOX
X	ENOX2	ENSG00000165675	ENST00000370927	protein_coding	KNOWN	CCDS14626	2259	1833	610	129757355	129843287	-1	COVA1	APK1, tNOX
X	ENOX2	ENSG00000165675	ENST00000432489	protein_coding	KNOWN	None	2259	1129	375	129790555	130037178	-1	COVA1	APK1, tNOX
X	ENOX2	ENSG00000165675	ENST00000492263	processed_transcript	KNOWN	None	2259	None	None	129813620	130037166	-1	COVA1	APK1, tNOX
X	ENOX2	ENSG00000165675	ENST00000338144	protein_coding	KNOWN	CCDS14626	2259	1833	610	129757355	130037208	-1	COVA1	APK1, tNOX
X	ENOX2	ENSG00000165675	ENST00000394363	protein_coding	KNOWN	CCDS14627	2259	1746	581	129757355	130037208	-1	COVA1	APK1, tNOX
15	AP3S2	ENSG00000157823	ENST00000336418	protein_coding	KNOWN	CCDS10357	571	582	193	90373831	90437574	-1	None	sigma3b
15	AP3S2	ENSG00000157823	ENST00000423566	nonsense_mediated_decay	KNOWN	None	571	375	124	90378214	90437209	-1	None	sigma3b
15	AP3S2	ENSG00000157823	ENST00000558926	retained_intron	KNOWN	None	571	None	None	90378656	90381186	-1	None	sigma3b
15	AP3S2	ENSG00000157823	ENST00000558011	protein_coding	PUTATIVE	None	571	618	205	90378672	90437226	-1	None	sigma3b
15	AP3S2	ENSG00000157823	ENST00000560940	protein_coding	PUTATIVE	None	571	471	156	90378712	90437213	-1	None	sigma3b
15	AP3S2	ENSG00000157823	ENST00000560771	processed_transcript	KNOWN	None	571	None	None	90378798	90389006	-1	None	sigma3b
15	AP3S2	ENSG00000157823	ENST00000557999	nonsense_mediated_decay	KNOWN	None	571	135	44	90378800	90437226	-1	None	sigma3b
15	AP3S2	ENSG00000157823	ENST00000558806	nonsense_mediated_decay	KNOWN	None	571	111	36	90378826	90437260	-1	None	sigma3b
15	AP3S2	ENSG00000157823	ENST00000561410	processed_transcript	KNOWN	None	571	None	None	90378829	90392239	-1	None	sigma3b
15	AP3S2	ENSG00000157823	ENST00000559162	retained_intron	KNOWN	None	571	None	None	90378832	90431885	-1	None	sigma3b
15	AP3S2	ENSG00000157823	ENST00000558999	nonsense_mediated_decay	KNOWN	None	571	411	136	90380847	90437226	-1	None	sigma3b
15	AP3S2	ENSG00000157823	ENST00000558186	processed_transcript	KNOWN	None	571	None	None	90380850	90395888	-1	None	sigma3b
15	AP3S2	ENSG00000157823	ENST00000560184	processed_transcript	KNOWN	None	571	None	None	90408691	90437202	-1	None	sigma3b
15	AP3S2	ENSG00000157823	ENST00000560251	nonsense_mediated_decay	KNOWN	None	571	375	124	90408845	90437209	-1	None	sigma3b
15	AP3S2	ENSG00000157823	ENST00000559601	retained_intron	KNOWN	None	571	None	None	90431749	90432711	-1	None	sigma3b
6	RN7SL332P	ENSG00000242989	ENST00000482163	misc_RNA	KNOWN	None	46348	None	None	15113199	15113450	1	None	None
1	LCE3B	ENSG00000187238	ENST00000335633	protein_coding	NOVEL	CCDS1016	29462	288	95	152586287	152586574	1	None	LEP14
6	None	ENSG00000264687	ENST00000583406	miRNA	NOVEL	None	None	None	None	15149930	15150030	-1	None	None
6	None	ENSG00000271888	ENST00000607711	lincRNA	KNOWN	None	None	None	None	15244154	15245231	-1	None	None
6	JARID2-AS1	ENSG00000235488	ENST00000441978	antisense	KNOWN	None	40314	None	None	15248046	15248865	-1	None	None
1	LCE3A	ENSG00000185962	ENST00000335674	protein_coding	KNOWN	CCDS1017	29461	270	89	152595310	152595579	-1	None	LEP13
6	RNU6-522P	ENSG00000201367	ENST00000364497	snRNA	KNOWN	None	47485	None	None	15315151	15315257	1	None	None
6	RNU6-645P	ENSG00000201519	ENST00000364649	snRNA	KNOWN	None	47608	None	None	15324598	15324703	-1	None	None
6	ARPC3P5	ENSG00000214027	ENST00000448802	processed_pseudogene	KNOWN	None	39435	None	None	15935013	15935546	1	None	None
1	LCE2D	ENSG00000187223	ENST00000368784	protein_coding	KNOWN	CCDS1018	16518	333	110	152635872	152637135	1	SPRL1A	LEP12
6	None	ENSG00000232947	ENST00000451285	lincRNA	KNOWN	None	None	None	None	15995175	16000028	1	None	None
6	None	ENSG00000217585	ENST00000408034	processed_pseudogene	KNOWN	None	None	None	None	16107853	16108824	1	None	None
6	MIR4639	ENSG00000263712	ENST00000584938	miRNA	KNOWN	None	41645	None	None	16141787	16141855	1	None	hsa-mir-4639
6	None	ENSG00000251793	ENST00000515984	snoRNA	NOVEL	None	None	None	None	16148518	16148676	-1	None	None
6	None	ENSG00000218073	ENST00000407522	processed_pseudogene	KNOWN	None	None	None	None	16161157	16161642	1	None	None
1	LCE2B	ENSG00000159455	ENST00000368780	protein_coding	KNOWN	CCDS1020	16610	333	110	152658599	152659877	1	SPRL1B	LEP10, XP5
1	LCE2B	ENSG00000159455	ENST00000417924	protein_coding	KNOWN	CCDS1020	16610	333	110	152647771	152659872	1	SPRL1B	LEP10, XP5
6	None	ENSG00000217078	ENST00000404531	processed_pseudogene	KNOWN	None	None	None	None	16163608	16163993	-1	None	None
6	MRPL42P2	ENSG00000216364	ENST00000403169	processed_pseudogene	KNOWN	None	29711	None	None	16171837	16172262	1	None	None
10	FRAT1	ENSG00000165879	ENST00000490980	processed_transcript	KNOWN	None	3944	None	None	99080498	99081580	1	None	None
10	FRAT1	ENSG00000165879	ENST00000371021	protein_coding	KNOWN	CCDS7455	3944	840	279	99079022	99081672	1	None	None
6	RNU6-1114P	ENSG00000251831	ENST00000516022	snRNA	KNOWN	None	48077	None	None	16205245	16205351	1	None	None
11	INCENP	ENSG00000149503	ENST00000394818	protein_coding	KNOWN	CCDS44624	6058	2757	918	61891445	61920453	1	None	FLJ31633
11	INCENP	ENSG00000149503	ENST00000533896	protein_coding	KNOWN	None	6058	501	166	61891470	61897500	1	None	FLJ31633
11	INCENP	ENSG00000149503	ENST00000278849	protein_coding	KNOWN	CCDS31582	6058	2745	914	61891470	61920224	1	None	FLJ31633
11	INCENP	ENSG00000149503	ENST00000528037	retained_intron	KNOWN	None	6058	None	None	61891483	61905448	1	None	FLJ31633
11	INCENP	ENSG00000149503	ENST00000528375	retained_intron	KNOWN	None	6058	None	None	61898031	61909217	1	None	FLJ31633
11	INCENP	ENSG00000149503	ENST00000531099	processed_transcript	PUTATIVE	None	6058	None	None	61919954	61920635	1	None	FLJ31633
6	None	ENSG00000207193	ENST00000384464	misc_RNA	NOVEL	None	None	None	None	16232462	16232561	-1	None	None
6	None	ENSG00000265642	ENST00000408068	miRNA	NOVEL	None	None	None	None	16428675	16428754	-1	None	None
1	LCE2C	ENSG00000187180	ENST00000368783	protein_coding	KNOWN	CCDS1019	29460	333	110	152647771	152649050	1	None	LEP11
6	None	ENSG00000229931	ENST00000423260	antisense	KNOWN	None	None	None	None	16761369	16762883	1	None	None
6	None	ENSG00000229931	ENST00000450930	antisense	KNOWN	None	None	None	None	16762143	16762849	1	None	None
6	None	ENSG00000272341	ENST00000606924	lincRNA	KNOWN	None	None	None	None	16764577	16767114	1	None	None
1	LCE2A	ENSG00000187173	ENST00000368779	protein_coding	KNOWN	CCDS1021	29469	321	106	152670840	152671918	1	None	LEP9
X	PORCN	ENSG00000102312	ENST00000359882	protein_coding	KNOWN	CCDS14298	17652	1368	455	48367350	48379194	1	None	MG61, PORC, PPN, por
X	PORCN	ENSG00000102312	ENST00000486272	processed_transcript	KNOWN	None	17652	None	None	48367354	48369763	1	None	MG61, PORC, PPN, por
X	PORCN	ENSG00000102312	ENST00000472520	nonsense_mediated_decay	KNOWN	None	17652	153	50	48367380	48379196	1	None	MG61, PORC, PPN, por
X	PORCN	ENSG00000102312	ENST00000485288	nonsense_mediated_decay	KNOWN	None	17652	261	86	48367382	48379194	1	None	MG61, PORC, PPN, por
X	PORCN	ENSG00000102312	ENST00000355961	protein_coding	KNOWN	CCDS14297	17652	1371	456	48367390	48379202	1	None	MG61, PORC, PPN, por
X	PORCN	ENSG00000102312	ENST00000528612	nonsense_mediated_decay	KNOWN	None	17652	261	86	48367399	48371107	1	None	MG61, PORC, PPN, por
X	PORCN	ENSG00000102312	ENST00000489940	protein_coding	KNOWN	None	17652	293	96	48367418	48369839	1	None	MG61, PORC, PPN, por
X	PORCN	ENSG00000102312	ENST00000491243	retained_intron	KNOWN	None	17652	None	None	48367419	48379194	1	None	MG61, PORC, PPN, por
X	PORCN	ENSG00000102312	ENST00000361988	protein_coding	KNOWN	CCDS14296	17652	1353	450	48367428	48379082	1	None	MG61, PORC, PPN, por
X	PORCN	ENSG00000102312	ENST00000470275	nonsense_mediated_decay	KNOWN	None	17652	261	86	48368064	48370885	1	None	MG61, PORC, PPN, por
X	PORCN	ENSG00000102312	ENST00000326194	protein_coding	KNOWN	CCDS14299	17652	1386	461	48368166	48379190	1	None	MG61, PORC, PPN, por
X	PORCN	ENSG00000102312	ENST00000459953	retained_intron	KNOWN	None	17652	None	None	48373830	48374617	1	None	MG61, PORC, PPN, por
X	PORCN	ENSG00000102312	ENST00000537758	protein_coding	KNOWN	CCDS14299	17652	1386	461	48367376	48378864	1	None	MG61, PORC, PPN, por
X	PORCN	ENSG00000102312	ENST00000355092	protein_coding	KNOWN	CCDS14298	17652	1368	455	48368172	48379202	1	None	MG61, PORC, PPN, por
X	PORCN	ENSG00000102312	ENST00000367574	protein_coding	KNOWN	None	17652	1140	379	48367382	48379194	1	None	MG61, PORC, PPN, por
11	ANAPC15	ENSG00000110200	ENST00000502597	protein_coding	PUTATIVE	None	24531	318	105	71817424	71823750	-1	C11orf51	HSPC020, DKFZP564M082, APC15
11	ANAPC15	ENSG00000110200	ENST00000543050	protein_coding	PUTATIVE	None	24531	573	190	71818205	71822489	-1	C11orf51	HSPC020, DKFZP564M082, APC15
11	ANAPC15	ENSG00000110200	ENST00000538117	nonsense_mediated_decay	KNOWN	None	24531	333	110	71819864	71822543	-1	C11orf51	HSPC020, DKFZP564M082, APC15
11	ANAPC15	ENSG00000110200	ENST00000543587	protein_coding	NOVEL	None	24531	378	125	71820629	71823812	-1	C11orf51	HSPC020, DKFZP564M082, APC15
11	ANAPC15	ENSG00000110200	ENST00000543015	processed_transcript	PUTATIVE	None	24531	None	None	71820633	71821291	-1	C11orf51	HSPC020, DKFZP564M082, APC15
11	ANAPC15	ENSG00000110200	ENST00000545680	protein_coding	NOVEL	None	24531	378	125	71820633	71823800	-1	C11orf51	HSPC020, DKFZP564M082, APC15
11	ANAPC15	ENSG00000110200	ENST00000227618	protein_coding	KNOWN	CCDS8210	24531	366	121	71820633	71823826	-1	C11orf51	HSPC020, DKFZP564M082, APC15
11	ANAPC15	ENSG00000110200	ENST00000542531	protein_coding	KNOWN	CCDS8210	24531	366	121	71820635	71823325	-1	C11orf51	HSPC020, DKFZP564M082, APC15
11	ANAPC15	ENSG00000110200	ENST00000535234	protein_coding	KNOWN	CCDS8210	24531	366	121	71820635	71823820	-1	C11orf51	HSPC020, DKFZP564M082, APC15
11	ANAPC15	ENSG00000110200	ENST00000545944	protein_coding	KNOWN	CCDS8210	24531	366	121	71820636	71823732	-1	C11orf51	HSPC020, DKFZP564M082, APC15
11	ANAPC15	ENSG00000110200	ENST00000538393	protein_coding	KNOWN	CCDS8210	24531	366	121	71820636	71823815	-1	C11orf51	HSPC020, DKFZP564M082, APC15
11	ANAPC15	ENSG00000110200	ENST00000535503	protein_coding	KNOWN	CCDS8210	24531	366	121	71820696	71823826	-1	C11orf51	HSPC020, DKFZP564M082, APC15
11	ANAPC15	ENSG00000110200	ENST00000538919	protein_coding	KNOWN	CCDS8210	24531	366	121	71820848	71823278	-1	C11orf51	HSPC020, DKFZP564M082, APC15
11	ANAPC15	ENSG00000110200	ENST00000537644	protein_coding	PUTATIVE	None	24531	371	122	71821117	71823114	-1	C11orf51	HSPC020, DKFZP564M082, APC15
11	ANAPC15	ENSG00000110200	ENST00000438939	protein_coding	PUTATIVE	None	24531	278	91	71821210	71822529	-1	C11orf51	HSPC020, DKFZP564M082, APC15
11	ANAPC15	ENSG00000110200	ENST00000545333	protein_coding	KNOWN	None	24531	195	64	71821257	71823497	-1	C11orf51	HSPC020, DKFZP564M082, APC15
11	ANAPC15	ENSG00000110200	ENST00000539395	protein_coding	KNOWN	None	24531	134	43	71821636	71823308	-1	C11orf51	HSPC020, DKFZP564M082, APC15
1	LCE4A	ENSG00000187170	ENST00000368777	protein_coding	KNOWN	CCDS1022	16613	300	99	152680636	152681967	1	SPRL4A	LEP8
1	LCE4A	ENSG00000187170	ENST00000335535	protein_coding	KNOWN	CCDS1022	16613	300	99	152681523	152681910	1	SPRL4A	LEP8
4	AGA	ENSG00000038002	ENST00000264595	protein_coding	KNOWN	CCDS3829	318	1041	346	178351924	178363657	-1	None	ASRG
4	AGA	ENSG00000038002	ENST00000502310	protein_coding	NOVEL	None	318	464	153	178354415	178360778	-1	None	ASRG
4	AGA	ENSG00000038002	ENST00000506853	processed_transcript	KNOWN	None	318	None	None	178355538	178363563	-1	None	ASRG
4	AGA	ENSG00000038002	ENST00000510635	protein_coding	NOVEL	None	318	414	137	178355594	178360819	-1	None	ASRG
4	AGA	ENSG00000038002	ENST00000510955	retained_intron	KNOWN	None	318	None	None	178358222	178363563	-1	None	ASRG
4	AGA	ENSG00000038002	ENST00000511231	retained_intron	KNOWN	None	318	None	None	178361196	178363563	-1	None	ASRG
1	C1orf68	ENSG00000198854	ENST00000368775	protein_coding	KNOWN	CCDS44226	29468	753	250	152691998	152692905	1	None	LEP7
5	None	ENSG00000268800	ENST00000599797	protein_coding	NOVEL	None	None	99	32	162866447	162873821	-1	None	None
2	ZNF804A	ENSG00000170396	ENST00000302277	protein_coding	KNOWN	CCDS2291	21711	3630	1209	185463093	185804219	1	C2orf10	None
1	ATPAF1	ENSG00000123472	ENST00000576409	protein_coding	KNOWN	CCDS541	18803	1056	351	47098409	47134126	-1	None	FLJ22351, Atp11p, ATP11
1	ATPAF1	ENSG00000123472	ENST00000492233	protein_coding	PUTATIVE	None	18803	342	113	47099350	47110928	-1	None	FLJ22351, Atp11p, ATP11
1	ATPAF1	ENSG00000123472	ENST00000526821	protein_coding	PUTATIVE	None	18803	525	174	47100751	47131044	-1	None	FLJ22351, Atp11p, ATP11
1	ATPAF1	ENSG00000123472	ENST00000529214	nonsense_mediated_decay	KNOWN	None	18803	138	45	47100998	47131527	-1	None	FLJ22351, Atp11p, ATP11
1	ATPAF1	ENSG00000123472	ENST00000329231	protein_coding	KNOWN	CCDS41327	18803	852	283	47101095	47134099	-1	None	FLJ22351, Atp11p, ATP11
1	ATPAF1	ENSG00000123472	ENST00000534216	protein_coding	NOVEL	None	18803	551	182	47101306	47124399	-1	None	FLJ22351, Atp11p, ATP11
1	ATPAF1	ENSG00000123472	ENST00000532925	protein_coding	PUTATIVE	CCDS57998	18803	723	240	47101380	47131527	-1	None	FLJ22351, Atp11p, ATP11
1	ATPAF1	ENSG00000123472	ENST00000474020	retained_intron	KNOWN	None	18803	None	None	47118093	47133781	-1	None	FLJ22351, Atp11p, ATP11
1	ATPAF1	ENSG00000123472	ENST00000487193	nonsense_mediated_decay	KNOWN	None	18803	259	85	47118276	47133851	-1	None	FLJ22351, Atp11p, ATP11
1	ATPAF1	ENSG00000123472	ENST00000525633	processed_transcript	KNOWN	None	18803	None	None	47124376	47139539	-1	None	FLJ22351, Atp11p, ATP11
1	ATPAF1	ENSG00000123472	ENST00000460928	retained_intron	KNOWN	None	18803	None	None	47130214	47133774	-1	None	FLJ22351, Atp11p, ATP11
1	ATPAF1	ENSG00000123472	ENST00000371937	protein_coding	KNOWN	None	18803	987	328	47098413	47134099	-1	None	FLJ22351, Atp11p, ATP11
1	ATPAF1	ENSG00000123472	ENST00000574428	protein_coding	KNOWN	None	18803	783	260	47098413	47134099	-1	None	FLJ22351, Atp11p, ATP11
1	ATPAF1	ENSG00000123472	ENST00000542495	protein_coding	KNOWN	CCDS57997	18803	534	177	47100998	47131527	-1	None	FLJ22351, Atp11p, ATP11
5	NUDCD2	ENSG00000170584	ENST00000302764	protein_coding	KNOWN	CCDS4361	30535	474	157	162873532	162887146	-1	None	DKFZp686E10109
5	NUDCD2	ENSG00000170584	ENST00000517501	protein_coding	NOVEL	None	30535	399	132	162880929	162887061	-1	None	DKFZp686E10109
5	NUDCD2	ENSG00000170584	ENST00000519395	processed_transcript	KNOWN	None	30535	None	None	162883970	162886496	-1	None	DKFZp686E10109
5	NUDCD2	ENSG00000170584	ENST00000521797	processed_transcript	KNOWN	None	30535	None	None	162883994	162886842	-1	None	DKFZp686E10109
1	KPRP	ENSG00000203786	ENST00000606109	protein_coding	KNOWN	CCDS30862	31823	1740	579	152732037	152734528	1	C1orf45	None
1	KPRP	ENSG00000203786	ENST00000368773	protein_coding	KNOWN	CCDS30862	31823	1740	579	152730506	152734529	1	C1orf45	None
4	RGS12	ENSG00000159788	ENST00000506631	retained_intron	KNOWN	None	9994	None	None	3294755	3419846	1	None	None
4	RGS12	ENSG00000159788	ENST00000344733	protein_coding	KNOWN	CCDS3366	9994	4344	1447	3315874	3441632	1	None	None
4	RGS12	ENSG00000159788	ENST00000502947	retained_intron	KNOWN	None	9994	None	None	3317795	3344916	1	None	None
4	RGS12	ENSG00000159788	ENST00000514268	nonsense_mediated_decay	KNOWN	None	9994	2004	667	3317795	3419177	1	None	None
4	RGS12	ENSG00000159788	ENST00000382788	protein_coding	KNOWN	CCDS3367	9994	4131	1376	3317795	3433977	1	None	None
4	RGS12	ENSG00000159788	ENST00000511805	processed_transcript	KNOWN	None	9994	None	None	3319766	3380318	1	None	None
4	RGS12	ENSG00000159788	ENST00000513784	processed_transcript	KNOWN	None	9994	None	None	3344142	3417848	1	None	None
4	RGS12	ENSG00000159788	ENST00000338806	protein_coding	KNOWN	CCDS3368	9994	2400	799	3371606	3441632	1	None	None
4	RGS12	ENSG00000159788	ENST00000506998	retained_intron	KNOWN	None	9994	None	None	3371913	3419994	1	None	None
4	RGS12	ENSG00000159788	ENST00000508158	processed_transcript	KNOWN	None	9994	None	None	3386873	3430325	1	None	None
4	RGS12	ENSG00000159788	ENST00000505570	processed_transcript	KNOWN	None	9994	None	None	3387331	3415969	1	None	None
4	RGS12	ENSG00000159788	ENST00000512990	processed_transcript	KNOWN	None	9994	None	None	3387408	3415968	1	None	None
4	RGS12	ENSG00000159788	ENST00000503041	processed_transcript	KNOWN	None	9994	None	None	3387426	3416571	1	None	None
4	RGS12	ENSG00000159788	ENST00000504194	retained_intron	KNOWN	None	9994	None	None	3387698	3441632	1	None	None
4	RGS12	ENSG00000159788	ENST00000512266	retained_intron	KNOWN	None	9994	None	None	3414713	3421237	1	None	None
4	RGS12	ENSG00000159788	ENST00000513991	retained_intron	KNOWN	None	9994	None	None	3414956	3430202	1	None	None
4	RGS12	ENSG00000159788	ENST00000515521	processed_transcript	KNOWN	None	9994	None	None	3419240	3429864	1	None	None
4	RGS12	ENSG00000159788	ENST00000510803	retained_intron	KNOWN	None	9994	None	None	3422115	3424251	1	None	None
4	RGS12	ENSG00000159788	ENST00000509746	retained_intron	KNOWN	None	9994	None	None	3424242	3425592	1	None	None
4	RGS12	ENSG00000159788	ENST00000511709	processed_transcript	KNOWN	None	9994	None	None	3424262	3425368	1	None	None
4	RGS12	ENSG00000159788	ENST00000507041	retained_intron	KNOWN	None	9994	None	None	3424262	3432174	1	None	None
4	RGS12	ENSG00000159788	ENST00000507246	processed_transcript	KNOWN	None	9994	None	None	3424280	3429869	1	None	None
4	RGS12	ENSG00000159788	ENST00000504559	processed_transcript	KNOWN	None	9994	None	None	3424657	3425368	1	None	None
4	RGS12	ENSG00000159788	ENST00000509772	processed_transcript	KNOWN	None	9994	None	None	3429816	3441640	1	None	None
4	RGS12	ENSG00000159788	ENST00000336727	protein_coding	KNOWN	CCDS3367	9994	4131	1376	3315874	3433904	1	None	None
4	RGS12	ENSG00000159788	ENST00000543385	protein_coding	KNOWN	None	9994	2004	667	3310762	3419177	1	None	None
4	RGS12	ENSG00000159788	ENST00000306648	protein_coding	KNOWN	None	9994	1668	555	3344155	3432315	1	None	None
4	RGS12	ENSG00000159788	ENST00000538395	protein_coding	KNOWN	None	9994	1500	499	3388061	3432831	1	None	None
6	TAF8	ENSG00000137413	ENST00000372978	protein_coding	KNOWN	None	17300	525	174	42018251	42025527	1	TBN	FLJ32821, TAF(II)43
6	TAF8	ENSG00000137413	ENST00000494547	protein_coding	KNOWN	None	17300	1017	338	42018260	42046610	1	TBN	FLJ32821, TAF(II)43
6	TAF8	ENSG00000137413	ENST00000456846	protein_coding	KNOWN	None	17300	936	311	42018260	42054809	1	TBN	FLJ32821, TAF(II)43
6	TAF8	ENSG00000137413	ENST00000372982	protein_coding	KNOWN	None	17300	1017	338	42018260	42055199	1	TBN	FLJ32821, TAF(II)43
6	TAF8	ENSG00000137413	ENST00000472818	protein_coding	PUTATIVE	None	17300	372	123	42018262	42024089	1	TBN	FLJ32821, TAF(II)43
6	TAF8	ENSG00000137413	ENST00000372977	protein_coding	KNOWN	CCDS43462	17300	933	310	42018262	42051012	1	TBN	FLJ32821, TAF(II)43
6	TAF8	ENSG00000137413	ENST00000486070	retained_intron	KNOWN	None	17300	None	None	42018269	42019518	1	TBN	FLJ32821, TAF(II)43
6	TAF8	ENSG00000137413	ENST00000482926	processed_transcript	KNOWN	None	17300	None	None	42018277	42031497	1	TBN	FLJ32821, TAF(II)43
6	TAF8	ENSG00000137413	ENST00000465926	protein_coding	PUTATIVE	None	17300	705	234	42018614	42045380	1	TBN	FLJ32821, TAF(II)43
6	TAF8	ENSG00000137413	ENST00000482432	protein_coding	PUTATIVE	None	17300	183	60	42018662	42023761	1	TBN	FLJ32821, TAF(II)43
1	LCE1F	ENSG00000240386	ENST00000334371	protein_coding	KNOWN	CCDS1023	29467	357	118	152748848	152749445	1	None	LEP6
1	LCE1E	ENSG00000186226	ENST00000368771	protein_coding	KNOWN	CCDS1024	29466	357	118	152758690	152760178	1	None	LEP5
1	LCE1E	ENSG00000186226	ENST00000368770	protein_coding	KNOWN	CCDS1024	29466	357	118	152758753	152760902	1	None	LEP5
5	ZBED3	ENSG00000132846	ENST00000255198	protein_coding	KNOWN	CCDS4036	20711	705	234	76367897	76383148	-1	None	MGC15435
5	ZBED3	ENSG00000132846	ENST00000511587	protein_coding	KNOWN	None	20711	452	149	76373252	76383008	-1	None	MGC15435
5	ZBED3	ENSG00000132846	ENST00000505685	processed_transcript	PUTATIVE	None	20711	None	None	76374866	76383025	-1	None	MGC15435
1	AIDA	ENSG00000186063	ENST00000340020	protein_coding	NOVEL	CCDS1533	25761	921	306	222841355	222885866	-1	C1orf80	FLJ12806
1	AIDA	ENSG00000186063	ENST00000474863	processed_transcript	KNOWN	None	25761	None	None	222841355	222886079	-1	C1orf80	FLJ12806
1	AIDA	ENSG00000186063	ENST00000355727	protein_coding	NOVEL	None	25761	675	224	222842146	222885770	-1	C1orf80	FLJ12806
1	AIDA	ENSG00000186063	ENST00000495670	processed_transcript	KNOWN	None	25761	None	None	222842741	222849560	-1	C1orf80	FLJ12806
1	AIDA	ENSG00000186063	ENST00000470437	processed_transcript	KNOWN	None	25761	None	None	222843532	222885605	-1	C1orf80	FLJ12806
1	AIDA	ENSG00000186063	ENST00000497112	processed_transcript	KNOWN	None	25761	None	None	222846716	222886552	-1	C1orf80	FLJ12806
1	AIDA	ENSG00000186063	ENST00000541237	protein_coding	KNOWN	None	25761	849	282	222842919	222886526	-1	C1orf80	FLJ12806
1	LCE1D	ENSG00000172155	ENST00000326233	protein_coding	KNOWN	CCDS1025	29465	345	114	152769227	152770657	1	None	LEP4
12	KDM2B	ENSG00000089094	ENST00000377069	protein_coding	KNOWN	CCDS41849	13610	3798	1265	121866900	122018364	-1	FBXL10	PCCX2, CXXC2, Fbl10, JHDM1B
12	KDM2B	ENSG00000089094	ENST00000542973	protein_coding	PUTATIVE	None	13610	2115	704	121867312	121947509	-1	FBXL10	PCCX2, CXXC2, Fbl10, JHDM1B
12	KDM2B	ENSG00000089094	ENST00000538503	retained_intron	KNOWN	None	13610	None	None	121867312	121987544	-1	FBXL10	PCCX2, CXXC2, Fbl10, JHDM1B
12	KDM2B	ENSG00000089094	ENST00000377071	protein_coding	KNOWN	CCDS41850	13610	4011	1336	121867580	122018889	-1	FBXL10	PCCX2, CXXC2, Fbl10, JHDM1B
12	KDM2B	ENSG00000089094	ENST00000543025	nonsense_mediated_decay	KNOWN	None	13610	315	104	121867674	122018859	-1	FBXL10	PCCX2, CXXC2, Fbl10, JHDM1B
12	KDM2B	ENSG00000089094	ENST00000536036	retained_intron	KNOWN	None	13610	None	None	121877716	121879047	-1	FBXL10	PCCX2, CXXC2, Fbl10, JHDM1B
12	KDM2B	ENSG00000089094	ENST00000538243	retained_intron	KNOWN	None	13610	None	None	121881818	121908356	-1	FBXL10	PCCX2, CXXC2, Fbl10, JHDM1B
12	KDM2B	ENSG00000089094	ENST00000538046	protein_coding	PUTATIVE	None	13610	1524	507	121931649	122018920	-1	FBXL10	PCCX2, CXXC2, Fbl10, JHDM1B
12	KDM2B	ENSG00000089094	ENST00000446152	protein_coding	PUTATIVE	None	13610	1531	509	121947375	122017549	-1	FBXL10	PCCX2, CXXC2, Fbl10, JHDM1B
12	KDM2B	ENSG00000089094	ENST00000542030	protein_coding	PUTATIVE	None	13610	377	124	121947746	121962598	-1	FBXL10	PCCX2, CXXC2, Fbl10, JHDM1B
12	KDM2B	ENSG00000089094	ENST00000538379	protein_coding	PUTATIVE	None	13610	514	170	121947810	121973974	-1	FBXL10	PCCX2, CXXC2, Fbl10, JHDM1B
12	KDM2B	ENSG00000089094	ENST00000545022	protein_coding	PUTATIVE	None	13610	464	153	121951096	121972565	-1	FBXL10	PCCX2, CXXC2, Fbl10, JHDM1B
12	KDM2B	ENSG00000089094	ENST00000541318	protein_coding	PUTATIVE	None	13610	125	40	121951131	121974033	-1	FBXL10	PCCX2, CXXC2, Fbl10, JHDM1B
12	KDM2B	ENSG00000089094	ENST00000543852	protein_coding	PUTATIVE	None	13610	372	123	121954150	121975521	-1	FBXL10	PCCX2, CXXC2, Fbl10, JHDM1B
12	KDM2B	ENSG00000089094	ENST00000541511	protein_coding	PUTATIVE	None	13610	293	96	121958849	121974140	-1	FBXL10	PCCX2, CXXC2, Fbl10, JHDM1B
12	KDM2B	ENSG00000089094	ENST00000539394	protein_coding	PUTATIVE	None	13610	540	179	121970751	122018130	-1	FBXL10	PCCX2, CXXC2, Fbl10, JHDM1B
12	KDM2B	ENSG00000089094	ENST00000540191	retained_intron	KNOWN	None	13610	None	None	122012270	122018045	-1	FBXL10	PCCX2, CXXC2, Fbl10, JHDM1B
12	KDM2B	ENSG00000089094	ENST00000536437	protein_coding	KNOWN	None	13610	1680	559	121867674	122018859	-1	FBXL10	PCCX2, CXXC2, Fbl10, JHDM1B
10	FRAT2	ENSG00000181274	ENST00000371019	protein_coding	KNOWN	CCDS7456	16048	702	233	99092255	99094458	-1	None	None
1	LCE1C	ENSG00000197084	ENST00000607093	protein_coding	KNOWN	CCDS1026	29464	357	118	152777311	152777954	-1	None	LEP3
1	LCE1C	ENSG00000197084	ENST00000606576	protein_coding	NOVEL	None	29464	163	53	152777702	152779104	-1	None	LEP3
1	LCE1C	ENSG00000197084	ENST00000368768	protein_coding	KNOWN	CCDS1026	29464	357	118	152777311	152779107	-1	None	LEP3
1	LCE1B	ENSG00000196734	ENST00000360090	protein_coding	KNOWN	CCDS1027	16611	357	118	152784447	152785585	1	SPRL2A	LEP2
1	LCE1A	ENSG00000186844	ENST00000335123	protein_coding	KNOWN	CCDS1028	29459	333	110	152799949	152800573	1	None	LEP1
1	LCE6A	ENSG00000235942	ENST00000431011	protein_coding	KNOWN	CCDS44227	31824	243	80	152815344	152816459	1	C1orf44	None
6	BRPF3	ENSG00000096070	ENST00000357641	protein_coding	KNOWN	CCDS34437	14256	3618	1205	36164521	36200567	1	None	KIAA1286
6	BRPF3	ENSG00000096070	ENST00000339717	protein_coding	NOVEL	None	14256	2808	935	36164743	36200367	1	None	KIAA1286
6	BRPF3	ENSG00000096070	ENST00000534694	protein_coding	NOVEL	None	14256	2616	871	36164743	36200367	1	None	KIAA1286
6	BRPF3	ENSG00000096070	ENST00000449261	nonsense_mediated_decay	KNOWN	None	14256	2466	821	36164743	36200367	1	None	KIAA1286
6	BRPF3	ENSG00000096070	ENST00000446974	protein_coding	KNOWN	None	14256	286	94	36165173	36168385	1	None	KIAA1286
6	BRPF3	ENSG00000096070	ENST00000454960	protein_coding	KNOWN	None	14256	387	128	36165229	36168486	1	None	KIAA1286
6	BRPF3	ENSG00000096070	ENST00000532330	nonsense_mediated_decay	KNOWN	None	14256	1881	626	36168074	36199094	1	None	KIAA1286
6	BRPF3	ENSG00000096070	ENST00000534400	protein_coding	PUTATIVE	None	14256	3321	1106	36168074	36199094	1	None	KIAA1286
6	BRPF3	ENSG00000096070	ENST00000441123	nonsense_mediated_decay	KNOWN	None	14256	1798	598	36168183	36200567	1	None	KIAA1286
6	BRPF3	ENSG00000096070	ENST00000527657	protein_coding	PUTATIVE	None	14256	279	92	36172191	36175125	1	None	KIAA1286
6	BRPF3	ENSG00000096070	ENST00000532538	retained_intron	KNOWN	None	14256	None	None	36178978	36181843	1	None	KIAA1286
6	BRPF3	ENSG00000096070	ENST00000441730	nonsense_mediated_decay	KNOWN	None	14256	739	245	36179225	36200564	1	None	KIAA1286
6	BRPF3	ENSG00000096070	ENST00000543502	protein_coding	KNOWN	None	14256	2808	935	36168069	36200367	1	None	KIAA1286
6	BRPF3	ENSG00000096070	ENST00000443324	protein_coding	KNOWN	None	14256	2616	871	36168069	36200367	1	None	KIAA1286
19	CLIP3	ENSG00000105270	ENST00000360535	protein_coding	KNOWN	CCDS12486	24314	1644	547	36505562	36523795	-1	None	CLIPR-59, RSNL1
19	CLIP3	ENSG00000105270	ENST00000593074	protein_coding	KNOWN	CCDS12486	24314	1644	547	36506938	36523573	-1	None	CLIPR-59, RSNL1
19	CLIP3	ENSG00000105270	ENST00000585466	retained_intron	KNOWN	None	24314	None	None	36515246	36517127	-1	None	CLIPR-59, RSNL1
19	CLIP3	ENSG00000105270	ENST00000592017	protein_coding	KNOWN	None	24314	400	132	36517854	36523773	-1	None	CLIPR-59, RSNL1
19	CLIP3	ENSG00000105270	ENST00000590559	protein_coding	KNOWN	None	24314	400	132	36517854	36524245	-1	None	CLIPR-59, RSNL1
19	CLIP3	ENSG00000105270	ENST00000586457	retained_intron	KNOWN	None	24314	None	None	36523048	36523788	-1	None	CLIPR-59, RSNL1
1	EFCAB14	ENSG00000159658	ENST00000371933	protein_coding	KNOWN	CCDS30706	29051	1488	495	47140831	47184736	-1	KIAA0494	None
1	EFCAB14	ENSG00000159658	ENST00000479745	processed_transcript	KNOWN	None	29051	None	None	47143935	47155363	-1	KIAA0494	None
1	EFCAB14	ENSG00000159658	ENST00000487741	nonsense_mediated_decay	KNOWN	None	29051	200	65	47143962	47155308	-1	KIAA0494	None
1	EFCAB14	ENSG00000159658	ENST00000481623	retained_intron	KNOWN	None	29051	None	None	47144079	47152601	-1	KIAA0494	None
1	EFCAB14	ENSG00000159658	ENST00000459797	processed_transcript	KNOWN	None	29051	None	None	47148894	47150236	-1	KIAA0494	None
1	EFCAB14	ENSG00000159658	ENST00000484461	processed_transcript	KNOWN	None	29051	None	None	47149844	47162268	-1	KIAA0494	None
1	EFCAB14	ENSG00000159658	ENST00000544071	protein_coding	KNOWN	None	29051	1257	418	47124366	47184824	-1	KIAA0494	None
1	SMCP	ENSG00000163206	ENST00000368765	protein_coding	KNOWN	CCDS1029	6962	351	116	152850793	152857523	1	MCSP	None
9	None	ENSG00000228132	ENST00000445989	processed_pseudogene	KNOWN	None	None	None	None	6276640	6276974	1	None	None
9	FRMD3	ENSG00000172159	ENST00000328788	protein_coding	KNOWN	CCDS59131	24125	642	213	85857905	85882202	-1	None	EPB41L4O, MGC20553
9	FRMD3	ENSG00000172159	ENST00000376434	protein_coding	KNOWN	CCDS59132	24125	1089	362	85857905	85946876	-1	None	EPB41L4O, MGC20553
9	FRMD3	ENSG00000172159	ENST00000376438	protein_coding	KNOWN	CCDS59133	24125	1671	556	85857905	86153461	-1	None	EPB41L4O, MGC20553
9	FRMD3	ENSG00000172159	ENST00000304195	protein_coding	KNOWN	CCDS43840	24125	1794	597	85859537	86153353	-1	None	EPB41L4O, MGC20553
9	FRMD3	ENSG00000172159	ENST00000465485	processed_transcript	KNOWN	None	24125	None	None	85862887	85896523	-1	None	EPB41L4O, MGC20553
9	FRMD3	ENSG00000172159	ENST00000431299	protein_coding	KNOWN	None	24125	423	140	85912447	85926881	-1	None	EPB41L4O, MGC20553
9	None	ENSG00000233846	ENST00000456723	processed_pseudogene	KNOWN	None	None	None	None	6278667	6279153	1	None	None
19	PRPF31	ENSG00000105618	ENST00000321030	protein_coding	KNOWN	CCDS12879	15446	1500	499	54618837	54635140	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
19	PRPF31	ENSG00000105618	ENST00000445811	protein_coding	KNOWN	None	15446	853	283	54619134	54628033	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
19	PRPF31	ENSG00000105618	ENST00000445124	protein_coding	KNOWN	None	15446	829	275	54619159	54628009	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
19	PRPF31	ENSG00000105618	ENST00000447810	protein_coding	KNOWN	None	15446	782	259	54619189	54627962	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
19	PRPF31	ENSG00000105618	ENST00000391755	protein_coding	NOVEL	None	15446	1482	493	54621651	54635140	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
19	PRPF31	ENSG00000105618	ENST00000467851	retained_intron	KNOWN	None	15446	None	None	54621786	54622191	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
19	PRPF31	ENSG00000105618	ENST00000466404	retained_intron	KNOWN	None	15446	None	None	54621789	54635140	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
19	PRPF31	ENSG00000105618	ENST00000498612	processed_transcript	KNOWN	None	15446	None	None	54621993	54631572	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
19	PRPF31	ENSG00000105618	ENST00000419967	protein_coding	KNOWN	None	15446	1353	450	54619151	54635140	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
3	EPM2AIP1	ENSG00000178567	ENST00000322716	protein_coding	KNOWN	CCDS46790	19735	1824	607	37027357	37034795	-1	None	KIAA0766, FLJ11207
14	IL25	ENSG00000166090	ENST00000397242	protein_coding	KNOWN	CCDS45086	13765	486	161	23842018	23845189	1	IL17E	IL-25, IL-17E
14	IL25	ENSG00000166090	ENST00000329715	protein_coding	KNOWN	CCDS9597	13765	534	177	23842070	23845612	1	IL17E	IL-25, IL-17E
9	None	ENSG00000233367	ENST00000411561	antisense	KNOWN	None	None	None	None	6415145	6449558	-1	None	None
17	MRPL12	ENSG00000262814	ENST00000333676	protein_coding	KNOWN	CCDS11785	10378	597	198	79670387	79674556	1	RPML12	MRPL7/L12, MRPL7
1	IVL	ENSG00000163207	ENST00000368764	protein_coding	KNOWN	CCDS1030	6187	1758	585	152881021	152884362	1	None	None
1	IVL	ENSG00000163207	ENST00000392667	protein_coding	KNOWN	None	6187	1320	439	152881023	152884360	1	None	None
19	FCGBP	ENSG00000090920	ENST00000221347	protein_coding	KNOWN	CCDS12546	13572	16218	5405	40353963	40440533	-1	None	FC(GAMMA)BP
19	FCGBP	ENSG00000090920	ENST00000595713	processed_transcript	KNOWN	None	13572	None	None	40376906	40377932	-1	None	FC(GAMMA)BP
19	FCGBP	ENSG00000090920	ENST00000601713	protein_coding	PUTATIVE	None	13572	476	157	40389655	40408390	-1	None	FC(GAMMA)BP
1	SPRR4	ENSG00000184148	ENST00000328051	protein_coding	KNOWN	CCDS1031	23173	240	79	152943142	152945050	1	None	None
1	TEX38	ENSG00000186118	ENST00000564071	protein_coding	PUTATIVE	None	29589	419	138	47134527	47138923	1	C1orf223, ATPAF1-AS1	LOC374973, THEG4
1	TEX38	ENSG00000186118	ENST00000334122	protein_coding	KNOWN	CCDS57999	29589	621	206	47137500	47139266	1	C1orf223, ATPAF1-AS1	LOC374973, THEG4
1	TEX38	ENSG00000186118	ENST00000415500	protein_coding	PUTATIVE	None	29589	393	130	47137531	47139148	1	C1orf223, ATPAF1-AS1	LOC374973, THEG4
1	TEX38	ENSG00000186118	ENST00000564373	protein_coding	PUTATIVE	None	29589	459	152	47137550	47139166	1	C1orf223, ATPAF1-AS1	LOC374973, THEG4
1	TEX38	ENSG00000186118	ENST00000569393	protein_coding	KNOWN	None	29589	783	260	47137445	47139249	1	C1orf223, ATPAF1-AS1	LOC374973, THEG4
1	SPRR1A	ENSG00000169474	ENST00000368762	protein_coding	KNOWN	CCDS1032	11259	270	89	152957707	152957976	1	None	None
1	SPRR1A	ENSG00000169474	ENST00000307122	protein_coding	KNOWN	CCDS1032	11259	270	89	152956557	152958289	1	None	None
17	None	ENSG00000262660	ENST00000571730	protein_coding	NOVEL	None	None	1329	442	79670401	79687569	1	None	None
1	SPRR3	ENSG00000163209	ENST00000495845	processed_transcript	KNOWN	None	11268	None	None	152974225	152974876	1	None	None
1	SPRR3	ENSG00000163209	ENST00000443178	protein_coding	KNOWN	None	11268	476	157	152974227	152975972	1	None	None
1	SPRR3	ENSG00000163209	ENST00000295367	protein_coding	KNOWN	CCDS1033	11268	510	169	152974247	152976332	1	None	None
1	SPRR3	ENSG00000163209	ENST00000331860	protein_coding	KNOWN	CCDS1033	11268	510	169	152974223	152976331	1	None	None
1	SPRR3	ENSG00000163209	ENST00000542696	protein_coding	KNOWN	None	11268	486	161	152975497	152976006	1	None	None
1	BROX	ENSG00000162819	ENST00000340934	protein_coding	NOVEL	CCDS1534	26512	1236	411	222885895	222908538	1	C1orf58	FLJ32421
1	BROX	ENSG00000162819	ENST00000496267	processed_transcript	PUTATIVE	None	26512	None	None	222885901	222887327	1	C1orf58	FLJ32421
1	BROX	ENSG00000162819	ENST00000426638	protein_coding	PUTATIVE	None	26512	645	214	222886711	222900574	1	C1orf58	FLJ32421
1	BROX	ENSG00000162819	ENST00000473962	processed_transcript	KNOWN	None	26512	None	None	222886718	222898879	1	C1orf58	FLJ32421
1	BROX	ENSG00000162819	ENST00000469236	processed_transcript	KNOWN	None	26512	None	None	222886723	222892655	1	C1orf58	FLJ32421
1	BROX	ENSG00000162819	ENST00000489191	processed_transcript	KNOWN	None	26512	None	None	222886743	222900551	1	C1orf58	FLJ32421
1	BROX	ENSG00000162819	ENST00000539697	protein_coding	KNOWN	None	26512	1140	379	222886737	222906386	1	C1orf58	FLJ32421
1	BROX	ENSG00000162819	ENST00000537020	protein_coding	KNOWN	None	26512	1017	338	222886718	222906254	1	C1orf58	FLJ32421
14	CMTM5	ENSG00000166091	ENST00000359320	protein_coding	KNOWN	CCDS9598	19176	471	156	23846017	23848981	1	CKLFSF5	FLJ37521
14	CMTM5	ENSG00000166091	ENST00000339180	protein_coding	KNOWN	None	19176	672	223	23846245	23848981	1	CKLFSF5	FLJ37521
14	CMTM5	ENSG00000166091	ENST00000342473	protein_coding	KNOWN	None	19176	225	74	23846246	23848981	1	CKLFSF5	FLJ37521
14	CMTM5	ENSG00000166091	ENST00000397227	protein_coding	KNOWN	None	19176	318	105	23846246	23848981	1	CKLFSF5	FLJ37521
14	CMTM5	ENSG00000166091	ENST00000553750	retained_intron	KNOWN	None	19176	None	None	23846256	23848980	1	CKLFSF5	FLJ37521
14	CMTM5	ENSG00000166091	ENST00000555731	protein_coding	NOVEL	None	19176	357	118	23846272	23848981	1	CKLFSF5	FLJ37521
14	CMTM5	ENSG00000166091	ENST00000382809	protein_coding	KNOWN	CCDS32050	19176	378	125	23846461	23848696	1	CKLFSF5	FLJ37521
14	CMTM5	ENSG00000166091	ENST00000555487	retained_intron	KNOWN	None	19176	None	None	23847128	23848981	1	CKLFSF5	FLJ37521
8	PSCA	ENSG00000167653	ENST00000505305	processed_transcript	KNOWN	None	9500	None	None	143751726	143763334	1	None	None
8	PSCA	ENSG00000167653	ENST00000510969	processed_transcript	KNOWN	None	9500	None	None	143751739	143763717	1	None	None
8	PSCA	ENSG00000167653	ENST00000301258	protein_coding	KNOWN	CCDS47925	9500	345	114	143761874	143764142	1	None	None
8	PSCA	ENSG00000167653	ENST00000513264	protein_coding	PUTATIVE	None	9500	165	54	143761875	143763188	1	None	None
19	SAMD1	ENSG00000141858	ENST00000533683	protein_coding	NOVEL	None	17958	1299	432	14198652	14201520	-1	None	None
19	SAMD1	ENSG00000141858	ENST00000269724	protein_coding	PUTATIVE	None	17958	387	128	14199241	14201848	-1	None	None
19	SAMD1	ENSG00000141858	ENST00000541938	processed_transcript	KNOWN	None	17958	None	None	14201321	14201825	-1	None	None
1	SPRR1B	ENSG00000169469	ENST00000307098	protein_coding	KNOWN	CCDS30863	11260	270	89	153003678	153005376	1	SPRR1	GADD33
1	SPRR1B	ENSG00000169469	ENST00000392661	protein_coding	KNOWN	None	11260	222	73	153004822	153005091	1	SPRR1	GADD33
5	N4BP3	ENSG00000145911	ENST00000274605	protein_coding	KNOWN	CCDS34307	29852	1635	544	177540444	177553088	1	None	LZTS4
9	UBAP1	ENSG00000165006	ENST00000297661	protein_coding	KNOWN	CCDS6550	12461	1509	502	34179011	34252521	1	UBAP	None
9	UBAP1	ENSG00000165006	ENST00000379186	protein_coding	NOVEL	None	12461	1326	441	34179036	34252518	1	UBAP	None
9	UBAP1	ENSG00000165006	ENST00000359544	protein_coding	KNOWN	CCDS6550	12461	1509	502	34220437	34252520	1	UBAP	None
9	UBAP1	ENSG00000165006	ENST00000545103	protein_coding	KNOWN	CCDS55303	12461	1701	566	34179003	34252521	1	UBAP	None
9	UBAP1	ENSG00000165006	ENST00000543944	protein_coding	KNOWN	CCDS55302	12461	1617	538	34179003	34252521	1	UBAP	None
9	UBAP1	ENSG00000165006	ENST00000536252	protein_coding	KNOWN	CCDS6550	12461	1509	502	34179003	34252521	1	UBAP	None
9	UBAP1	ENSG00000165006	ENST00000540348	protein_coding	KNOWN	CCDS6550	12461	1509	502	34179003	34252521	1	UBAP	None
6	None	ENSG00000219314	ENST00000407586	processed_pseudogene	KNOWN	None	None	None	None	17381598	17382351	1	None	None
1	SPRR2D	ENSG00000163216	ENST00000360379	protein_coding	KNOWN	CCDS30864	11264	219	72	153012201	153013594	-1	None	None
1	SPRR2D	ENSG00000163216	ENST00000368758	protein_coding	KNOWN	CCDS30864	11264	219	72	153012220	153014407	-1	None	None
1	SPRR2D	ENSG00000163216	ENST00000368757	protein_coding	KNOWN	CCDS30864	11264	219	72	153012304	153014407	-1	None	None
1	SPRR2D	ENSG00000163216	ENST00000368756	protein_coding	KNOWN	CCDS30864	11264	219	72	153012324	153014404	-1	None	None
8	LY6K	ENSG00000160886	ENST00000292430	protein_coding	KNOWN	CCDS6385	24225	498	165	143781529	143786545	1	None	HSJ001348, FLJ35226, CT97
8	LY6K	ENSG00000160886	ENST00000518841	protein_coding	PUTATIVE	None	24225	303	100	143781531	143784140	1	None	HSJ001348, FLJ35226, CT97
8	LY6K	ENSG00000160886	ENST00000519387	protein_coding	PUTATIVE	CCDS59114	24225	318	105	143781532	143784872	1	None	HSJ001348, FLJ35226, CT97
8	LY6K	ENSG00000160886	ENST00000522591	protein_coding	PUTATIVE	None	24225	258	85	143781890	143785582	1	None	HSJ001348, FLJ35226, CT97
8	LY6K	ENSG00000160886	ENST00000519390	processed_transcript	PUTATIVE	None	24225	None	None	143783017	143784878	1	None	HSJ001348, FLJ35226, CT97
8	LY6K	ENSG00000160886	ENST00000561179	protein_coding	KNOWN	None	24225	672	223	143781529	143785582	1	None	HSJ001348, FLJ35226, CT97
1	SPRR2A	ENSG00000241794	ENST00000392653	protein_coding	KNOWN	CCDS1034	11261	219	72	153028589	153030013	-1	None	None
11	OLFML1	ENSG00000183801	ENST00000530135	protein_coding	KNOWN	CCDS7779	24473	1209	402	7506619	7531580	1	None	UNQ564
11	OLFML1	ENSG00000183801	ENST00000329293	protein_coding	KNOWN	CCDS7779	24473	1209	402	7506713	7532608	1	None	UNQ564
11	OLFML1	ENSG00000183801	ENST00000534244	protein_coding	NOVEL	None	24473	205	67	7506737	7509437	1	None	UNQ564
11	OLFML1	ENSG00000183801	ENST00000528308	retained_intron	KNOWN	None	24473	None	None	7506757	7510196	1	None	UNQ564
11	OLFML1	ENSG00000183801	ENST00000528758	protein_coding	NOVEL	None	24473	171	56	7506837	7531643	1	None	UNQ564
3	SLC12A8	ENSG00000221955	ENST00000430155	protein_coding	KNOWN	None	15595	1548	515	124801480	124839698	-1	None	CCC9
3	SLC12A8	ENSG00000221955	ENST00000393469	protein_coding	KNOWN	CCDS43143	15595	2145	714	124801482	124930243	-1	None	CCC9
3	SLC12A8	ENSG00000221955	ENST00000473262	nonsense_mediated_decay	KNOWN	None	15595	481	159	124801803	124909369	-1	None	CCC9
3	SLC12A8	ENSG00000221955	ENST00000465475	processed_transcript	KNOWN	None	15595	None	None	124801987	124842443	-1	None	CCC9
3	SLC12A8	ENSG00000221955	ENST00000469902	protein_coding	KNOWN	CCDS43143	15595	2145	714	124802001	124931609	-1	None	CCC9
3	SLC12A8	ENSG00000221955	ENST00000479352	processed_transcript	KNOWN	None	15595	None	None	124802494	124844823	-1	None	CCC9
3	SLC12A8	ENSG00000221955	ENST00000483944	processed_transcript	KNOWN	None	15595	None	None	124802655	124842450	-1	None	CCC9
3	SLC12A8	ENSG00000221955	ENST00000461616	processed_transcript	KNOWN	None	15595	None	None	124806900	124826421	-1	None	CCC9
3	SLC12A8	ENSG00000221955	ENST00000485954	retained_intron	KNOWN	None	15595	None	None	124826689	124837988	-1	None	CCC9
3	SLC12A8	ENSG00000221955	ENST00000479231	retained_intron	KNOWN	None	15595	None	None	124826725	124829562	-1	None	CCC9
3	SLC12A8	ENSG00000221955	ENST00000465777	processed_transcript	KNOWN	None	15595	None	None	124826789	124839784	-1	None	CCC9
3	SLC12A8	ENSG00000221955	ENST00000495105	processed_transcript	KNOWN	None	15595	None	None	124826889	124870059	-1	None	CCC9
3	SLC12A8	ENSG00000221955	ENST00000485849	processed_transcript	KNOWN	None	15595	None	None	124826913	124873909	-1	None	CCC9
3	SLC12A8	ENSG00000221955	ENST00000479826	protein_coding	PUTATIVE	None	15595	622	206	124829116	124909294	-1	None	CCC9
3	SLC12A8	ENSG00000221955	ENST00000462437	protein_coding	PUTATIVE	None	15595	338	111	124896775	124911539	-1	None	CCC9
3	SLC12A8	ENSG00000221955	ENST00000481760	processed_transcript	PUTATIVE	None	15595	None	None	124925512	124931708	-1	None	CCC9
3	SLC12A8	ENSG00000221955	ENST00000423114	protein_coding	KNOWN	None	15595	2232	743	124801482	124998021	-1	None	CCC9
3	SLC12A8	ENSG00000221955	ENST00000314584	protein_coding	KNOWN	None	15595	1128	375	124802734	124930243	-1	None	CCC9
1	SPRR2B	ENSG00000196805	ENST00000368755	protein_coding	KNOWN	CCDS30865	11262	219	72	153042700	153043316	-1	None	None
1	SPRR2B	ENSG00000196805	ENST00000341611	protein_coding	KNOWN	CCDS30865	11262	219	72	153042717	153044084	-1	None	None
1	SPRR2B	ENSG00000196805	ENST00000368752	protein_coding	KNOWN	CCDS30865	11262	219	72	153043036	153113927	-1	None	None
6	OSTM1	ENSG00000081087	ENST00000193322	protein_coding	KNOWN	CCDS5062	21652	1005	334	108362613	108395941	-1	None	HSPC019, GL
6	OSTM1	ENSG00000081087	ENST00000492130	processed_transcript	KNOWN	None	21652	None	None	108362676	108365442	-1	None	HSPC019, GL
6	OSTM1	ENSG00000081087	ENST00000472669	processed_transcript	KNOWN	None	21652	None	None	108365583	108372270	-1	None	HSPC019, GL
6	OSTM1	ENSG00000081087	ENST00000477774	processed_transcript	PUTATIVE	None	21652	None	None	108365937	108370872	-1	None	HSPC019, GL
6	OSTM1	ENSG00000081087	ENST00000440575	protein_coding	NOVEL	None	21652	518	171	108366035	108487044	-1	None	HSPC019, GL
6	OSTM1	ENSG00000081087	ENST00000467960	processed_transcript	KNOWN	None	21652	None	None	108385389	108395945	-1	None	HSPC019, GL
6	OSTM1	ENSG00000081087	ENST00000492070	processed_transcript	KNOWN	None	21652	None	None	108443540	108487058	-1	None	HSPC019, GL
1	SPRR2E	ENSG00000203785	ENST00000368750	protein_coding	KNOWN	CCDS30866	11265	219	72	153065611	153067001	-1	None	None
1	SPRR2E	ENSG00000203785	ENST00000368751	protein_coding	KNOWN	CCDS30866	11265	219	72	153065611	153078660	-1	None	None
8	THEM6	ENSG00000130193	ENST00000336138	protein_coding	KNOWN	CCDS6386	29656	627	208	143808621	143818345	1	C8orf55	DSCD75
8	THEM6	ENSG00000130193	ENST00000520217	nonsense_mediated_decay	KNOWN	None	29656	251	82	143809141	143818345	1	C8orf55	DSCD75
8	THEM6	ENSG00000130193	ENST00000518798	retained_intron	KNOWN	None	29656	None	None	143815948	143818343	1	C8orf55	DSCD75
1	SPRR2F	ENSG00000244094	ENST00000468739	protein_coding	KNOWN	CCDS30867	11266	219	72	153084590	153085991	-1	None	None
1	SPRR2G	ENSG00000159516	ENST00000368748	protein_coding	KNOWN	CCDS30868	11267	222	73	153122058	153123345	-1	None	None
14	None	ENSG00000267918	ENST00000596284	protein_coding	NOVEL	None	None	255	84	101295066	101295537	-1	None	None
1	LELP1	ENSG00000203784	ENST00000368747	protein_coding	KNOWN	CCDS30869	32046	297	98	153175919	153177596	1	None	None
1	FAM177B	ENSG00000197520	ENST00000434700	protein_coding	KNOWN	None	34395	301	99	222910549	222922866	1	None	RP11-452F19.2, FLJ43505
1	FAM177B	ENSG00000197520	ENST00000391880	nonsense_mediated_decay	KNOWN	None	34395	363	120	222910558	222924147	1	None	RP11-452F19.2, FLJ43505
1	FAM177B	ENSG00000197520	ENST00000360827	protein_coding	KNOWN	CCDS1535	34395	477	158	222910649	222923538	1	None	RP11-452F19.2, FLJ43505
1	FAM177B	ENSG00000197520	ENST00000460763	retained_intron	KNOWN	None	34395	None	None	222913026	222920789	1	None	RP11-452F19.2, FLJ43505
1	FAM177B	ENSG00000197520	ENST00000456298	protein_coding	KNOWN	None	34395	298	98	222913026	222922863	1	None	RP11-452F19.2, FLJ43505
1	FAM177B	ENSG00000197520	ENST00000445590	protein_coding	KNOWN	CCDS1535	34395	477	158	222910558	222924002	1	None	RP11-452F19.2, FLJ43505
20	RNA5SP477	ENSG00000199509	ENST00000362639	rRNA	KNOWN	None	43377	None	None	21119597	21119715	-1	RN5S477	None
1	PRR9	ENSG00000203783	ENST00000368744	protein_coding	KNOWN	CCDS55639	32057	351	116	153190060	153191793	1	None	None
17	SLC25A10	ENSG00000183048	ENST00000574129	nonsense_mediated_decay	KNOWN	None	10980	120	39	79679294	79687358	1	DIC	None
17	SLC25A10	ENSG00000183048	ENST00000331531	protein_coding	KNOWN	CCDS59301	10980	891	296	79679337	79688042	1	DIC	None
17	SLC25A10	ENSG00000183048	ENST00000350690	protein_coding	KNOWN	CCDS11786	10980	864	287	79679371	79688042	1	DIC	None
17	SLC25A10	ENSG00000183048	ENST00000574884	nonsense_mediated_decay	KNOWN	None	10980	340	112	79681991	79684882	1	DIC	None
17	SLC25A10	ENSG00000183048	ENST00000571876	retained_intron	KNOWN	None	10980	None	None	79682048	79682844	1	DIC	None
17	SLC25A10	ENSG00000183048	ENST00000570310	retained_intron	KNOWN	None	10980	None	None	79682951	79687037	1	DIC	None
17	SLC25A10	ENSG00000183048	ENST00000573246	retained_intron	KNOWN	None	10980	None	None	79683002	79687481	1	DIC	None
17	SLC25A10	ENSG00000183048	ENST00000541223	protein_coding	KNOWN	None	10980	1329	442	79670404	79687569	1	DIC	None
17	SLC25A10	ENSG00000183048	ENST00000545862	protein_coding	KNOWN	None	10980	735	244	79680472	79687358	1	DIC	None
1	CYP4B1	ENSG00000142973	ENST00000546128	processed_transcript	KNOWN	None	2644	None	None	47223510	47276522	1	None	None
1	CYP4B1	ENSG00000142973	ENST00000413093	processed_transcript	KNOWN	None	2644	None	None	47223550	47256171	1	None	None
1	CYP4B1	ENSG00000142973	ENST00000534708	nonsense_mediated_decay	KNOWN	None	2644	264	87	47264670	47284342	1	None	None
1	CYP4B1	ENSG00000142973	ENST00000371923	protein_coding	KNOWN	CCDS41328	2644	1539	512	47264718	47285021	1	None	None
1	CYP4B1	ENSG00000142973	ENST00000271153	protein_coding	KNOWN	CCDS542	2644	1536	511	47264718	47285085	1	None	None
1	CYP4B1	ENSG00000142973	ENST00000529715	nonsense_mediated_decay	KNOWN	None	2644	417	138	47264723	47281083	1	None	None
1	CYP4B1	ENSG00000142973	ENST00000464439	nonsense_mediated_decay	KNOWN	None	2644	978	325	47264736	47285021	1	None	None
1	CYP4B1	ENSG00000142973	ENST00000371919	protein_coding	NOVEL	None	2644	1494	497	47264754	47284486	1	None	None
1	CYP4B1	ENSG00000142973	ENST00000526297	protein_coding	PUTATIVE	None	2644	211	69	47272479	47279660	1	None	None
1	CYP4B1	ENSG00000142973	ENST00000452782	protein_coding	PUTATIVE	None	2644	1050	349	47276745	47284514	1	None	None
1	CYP4B1	ENSG00000142973	ENST00000468637	protein_coding	PUTATIVE	None	2644	715	237	47276775	47282853	1	None	None
1	CYP4B1	ENSG00000142973	ENST00000481248	retained_intron	KNOWN	None	2644	None	None	47280746	47283029	1	None	None
1	CYP4B1	ENSG00000142973	ENST00000497005	processed_transcript	PUTATIVE	None	2644	None	None	47282720	47284687	1	None	None
5	ADAMTS19	ENSG00000145808	ENST00000274487	protein_coding	KNOWN	CCDS4146	17111	3624	1207	128795958	129074376	1	None	None
5	ADAMTS19	ENSG00000145808	ENST00000505791	nonsense_mediated_decay	KNOWN	None	17111	96	31	128795974	128863524	1	None	None
5	ADAMTS19	ENSG00000145808	ENST00000502709	nonsense_mediated_decay	KNOWN	None	17111	436	144	128797369	128864236	1	None	None
5	ADAMTS19	ENSG00000145808	ENST00000509467	processed_transcript	KNOWN	None	17111	None	None	129023793	129070741	1	None	None
10	None	ENSG00000215244	ENST00000399868	protein_coding	KNOWN	None	None	585	194	6319650	6377938	1	None	None
1	LOR	ENSG00000203782	ENST00000368742	protein_coding	KNOWN	CCDS30870	6663	939	312	153232176	153234598	1	None	None
10	None	ENSG00000212743	ENST00000391437	protein_coding	KNOWN	None	None	552	183	6392278	6394723	1	None	None
2	FSIP2	ENSG00000188738	ENST00000424728	protein_coding	KNOWN	None	21675	20724	6907	186603622	186698017	1	None	FLJ34780
2	FSIP2	ENSG00000188738	ENST00000465275	processed_transcript	PUTATIVE	None	21675	None	None	186604013	186608021	1	None	FLJ34780
2	FSIP2	ENSG00000188738	ENST00000469367	retained_intron	KNOWN	None	21675	None	None	186607910	186609794	1	None	FLJ34780
2	FSIP2	ENSG00000188738	ENST00000429412	nonsense_mediated_decay	KNOWN	None	21675	411	136	186610267	186631276	1	None	FLJ34780
2	FSIP2	ENSG00000188738	ENST00000415915	nonsense_mediated_decay	KNOWN	None	21675	2920	972	186659345	186698016	1	None	FLJ34780
2	FSIP2	ENSG00000188738	ENST00000343098	protein_coding	KNOWN	CCDS54426	21675	20991	6996	186603355	186698016	1	None	FLJ34780
2	FSIP2	ENSG00000188738	ENST00000546113	protein_coding	KNOWN	None	21675	393	130	186610267	186631276	1	None	FLJ34780
1	PGLYRP3	ENSG00000159527	ENST00000290722	protein_coding	KNOWN	CCDS1035	30014	1026	341	153270338	153283194	-1	None	PGRPIA, PGLYRPIalpha, PGRP-Ialpha
HSCHR6_MHC_COX	LY6G5C	ENSG00000231325	ENST00000470856	processed_transcript	KNOWN	None	13932	None	None	31631877	31635557	-1	C6orf20	G5c, NG33
HSCHR6_MHC_COX	LY6G5C	ENSG00000231325	ENST00000466236	retained_intron	KNOWN	None	13932	None	None	31631877	31635557	-1	C6orf20	G5c, NG33
HSCHR6_MHC_COX	LY6G5C	ENSG00000231325	ENST00000431114	protein_coding	KNOWN	None	13932	453	150	31631877	31635570	-1	C6orf20	G5c, NG33
HSCHR6_MHC_COX	LY6G5C	ENSG00000231325	ENST00000476242	processed_transcript	KNOWN	None	13932	None	None	31631877	31636669	-1	C6orf20	G5c, NG33
HSCHR6_MHC_COX	LY6G5C	ENSG00000231325	ENST00000473902	processed_transcript	KNOWN	None	13932	None	None	31631877	31638402	-1	C6orf20	G5c, NG33
HSCHR6_MHC_COX	LY6G5C	ENSG00000231325	ENST00000411492	protein_coding	KNOWN	None	13932	677	224	31631877	31639232	-1	C6orf20	G5c, NG33
HSCHR6_MHC_COX	LY6G5C	ENSG00000231325	ENST00000466450	processed_transcript	KNOWN	None	13932	None	None	31631877	31639232	-1	C6orf20	G5c, NG33
HSCHR6_MHC_COX	LY6G5C	ENSG00000231325	ENST00000486119	processed_transcript	KNOWN	None	13932	None	None	31636541	31637153	-1	C6orf20	G5c, NG33
HSCHR6_MHC_COX	LY6G5C	ENSG00000231325	ENST00000549965	protein_coding	KNOWN	None	13932	447	148	31631877	31639232	-1	C6orf20	G5c, NG33
1	DISP1	ENSG00000154309	ENST00000495684	processed_transcript	KNOWN	None	19711	None	None	222988406	223168242	1	None	DISPA, MGC13130, DKFZP434I0428, MGC16796
1	DISP1	ENSG00000154309	ENST00000360254	protein_coding	PUTATIVE	None	19711	555	184	223045613	223153204	1	None	DISPA, MGC13130, DKFZP434I0428, MGC16796
1	DISP1	ENSG00000154309	ENST00000284476	protein_coding	NOVEL	CCDS1536	19711	4575	1524	223101766	223179337	1	None	DISPA, MGC13130, DKFZP434I0428, MGC16796
1	DISP1	ENSG00000154309	ENST00000482856	retained_intron	KNOWN	None	19711	None	None	223101783	223116892	1	None	DISPA, MGC13130, DKFZP434I0428, MGC16796
X	PLXNA3	ENSG00000130827	ENST00000369682	protein_coding	KNOWN	CCDS14752	9101	5616	1871	153686621	153701989	1	PLXN4	SEX, XAP-6, 6.3, Plxn3
X	PLXNA3	ENSG00000130827	ENST00000495040	processed_transcript	KNOWN	None	9101	None	None	153686624	153689714	1	PLXN4	SEX, XAP-6, 6.3, Plxn3
X	PLXNA3	ENSG00000130827	ENST00000482598	retained_intron	KNOWN	None	9101	None	None	153692792	153693323	1	PLXN4	SEX, XAP-6, 6.3, Plxn3
X	PLXNA3	ENSG00000130827	ENST00000478236	retained_intron	KNOWN	None	9101	None	None	153694434	153695108	1	PLXN4	SEX, XAP-6, 6.3, Plxn3
X	PLXNA3	ENSG00000130827	ENST00000467463	processed_transcript	PUTATIVE	None	9101	None	None	153694762	153695518	1	PLXN4	SEX, XAP-6, 6.3, Plxn3
X	PLXNA3	ENSG00000130827	ENST00000480645	processed_transcript	PUTATIVE	None	9101	None	None	153696960	153697212	1	PLXN4	SEX, XAP-6, 6.3, Plxn3
X	PLXNA3	ENSG00000130827	ENST00000491066	retained_intron	KNOWN	None	9101	None	None	153697004	153697693	1	PLXN4	SEX, XAP-6, 6.3, Plxn3
X	PLXNA3	ENSG00000130827	ENST00000493546	processed_transcript	KNOWN	None	9101	None	None	153697425	153699051	1	PLXN4	SEX, XAP-6, 6.3, Plxn3
X	PLXNA3	ENSG00000130827	ENST00000497802	retained_intron	KNOWN	None	9101	None	None	153699190	153701039	1	PLXN4	SEX, XAP-6, 6.3, Plxn3
10	RRP12	ENSG00000052749	ENST00000491313	processed_transcript	KNOWN	None	29100	None	None	99116115	99127133	-1	KIAA0690	None
10	RRP12	ENSG00000052749	ENST00000479481	processed_transcript	KNOWN	None	29100	None	None	99116458	99133350	-1	KIAA0690	None
10	RRP12	ENSG00000052749	ENST00000370992	protein_coding	KNOWN	CCDS7457	29100	3894	1297	99116458	99161100	-1	KIAA0690	None
10	RRP12	ENSG00000052749	ENST00000315563	protein_coding	KNOWN	None	29100	3594	1197	99116459	99161040	-1	KIAA0690	None
10	RRP12	ENSG00000052749	ENST00000465394	processed_transcript	KNOWN	None	29100	None	None	99116863	99123624	-1	KIAA0690	None
10	RRP12	ENSG00000052749	ENST00000487612	processed_transcript	KNOWN	None	29100	None	None	99125647	99126317	-1	KIAA0690	None
10	RRP12	ENSG00000052749	ENST00000490815	processed_transcript	KNOWN	None	29100	None	None	99132818	99140594	-1	KIAA0690	None
10	RRP12	ENSG00000052749	ENST00000479317	processed_transcript	KNOWN	None	29100	None	None	99147754	99148273	-1	KIAA0690	None
10	RRP12	ENSG00000052749	ENST00000414986	protein_coding	KNOWN	CCDS44467	29100	3711	1236	99116459	99161127	-1	KIAA0690	None
10	RRP12	ENSG00000052749	ENST00000536831	protein_coding	KNOWN	None	29100	3048	1015	99116459	99150602	-1	KIAA0690	None
1	PGLYRP4	ENSG00000163218	ENST00000359650	protein_coding	KNOWN	CCDS30871	30015	1122	373	153302596	153321022	-1	None	SBBI67, PGRPIB, PGLYRPIbeta, PGRP-Ibeta
1	PGLYRP4	ENSG00000163218	ENST00000368739	protein_coding	KNOWN	None	30015	1110	369	153302596	153321316	-1	None	SBBI67, PGRPIB, PGLYRPIbeta, PGRP-Ibeta
1	PGLYRP4	ENSG00000163218	ENST00000490266	processed_transcript	KNOWN	None	30015	None	None	153317501	153320454	-1	None	SBBI67, PGRPIB, PGLYRPIbeta, PGRP-Ibeta
5	HMMR	ENSG00000072571	ENST00000416990	protein_coding	PUTATIVE	None	5012	1833	610	162887175	162918941	1	None	RHAMM, CD168
5	HMMR	ENSG00000072571	ENST00000520345	protein_coding	PUTATIVE	None	5012	305	100	162887209	162898469	1	None	RHAMM, CD168
5	HMMR	ENSG00000072571	ENST00000522094	protein_coding	PUTATIVE	None	5012	277	91	162887348	162898441	1	None	RHAMM, CD168
5	HMMR	ENSG00000072571	ENST00000353866	protein_coding	KNOWN	CCDS4363	5012	2130	709	162887372	162918585	1	None	RHAMM, CD168
5	HMMR	ENSG00000072571	ENST00000393915	protein_coding	KNOWN	CCDS47334	5012	2178	725	162887556	162918947	1	None	RHAMM, CD168
5	HMMR	ENSG00000072571	ENST00000432118	protein_coding	KNOWN	CCDS47335	5012	1917	638	162887640	162918244	1	None	RHAMM, CD168
5	HMMR	ENSG00000072571	ENST00000521108	retained_intron	KNOWN	None	5012	None	None	162887659	162892214	1	None	RHAMM, CD168
5	HMMR	ENSG00000072571	ENST00000358715	protein_coding	KNOWN	CCDS4362	5012	2175	724	162887663	162918947	1	None	RHAMM, CD168
5	HMMR	ENSG00000072571	ENST00000517936	retained_intron	KNOWN	None	5012	None	None	162887666	162896916	1	None	RHAMM, CD168
1	S100A9	ENSG00000163220	ENST00000368738	protein_coding	KNOWN	CCDS1036	10499	345	114	153330330	153333503	1	CAGB, CFAG	P14, MIF, NIF, LIAG, MRP14, MAC387, 60B8AG, CGLB
1	S100A12	ENSG00000163221	ENST00000368737	protein_coding	KNOWN	CCDS1037	10489	279	92	153346184	153348125	-1	None	p6, MRP6, CGRP, CAAF1, CAGC, ENRAGE
8	None	ENSG00000185900	ENST00000518991	protein_coding	PUTATIVE	None	None	402	133	42948658	42977369	1	None	None
8	None	ENSG00000185900	ENST00000331373	protein_coding	KNOWN	CCDS6141	None	1053	350	42948661	42978577	1	None	None
19	PRKACA	ENSG00000072062	ENST00000308677	protein_coding	KNOWN	CCDS12304	9380	1056	351	14202500	14228556	-1	None	PKACa
19	PRKACA	ENSG00000072062	ENST00000350356	processed_transcript	KNOWN	None	9380	None	None	14202509	14219202	-1	None	PKACa
19	PRKACA	ENSG00000072062	ENST00000590853	protein_coding	PUTATIVE	None	9380	375	124	14202848	14228544	-1	None	PKACa
19	PRKACA	ENSG00000072062	ENST00000587372	protein_coding	NOVEL	None	9380	755	250	14203855	14217672	-1	None	PKACa
19	PRKACA	ENSG00000072062	ENST00000589994	protein_coding	KNOWN	CCDS12305	9380	1032	343	14203862	14225000	-1	None	PKACa
19	PRKACA	ENSG00000072062	ENST00000588209	retained_intron	KNOWN	None	9380	None	None	14204462	14212090	-1	None	PKACa
19	PRKACA	ENSG00000072062	ENST00000587533	retained_intron	KNOWN	None	9380	None	None	14207183	14209277	-1	None	PKACa
19	PRKACA	ENSG00000072062	ENST00000536649	retained_intron	KNOWN	None	9380	None	None	14207783	14223459	-1	None	PKACa
19	PRKACA	ENSG00000072062	ENST00000593092	protein_coding	PUTATIVE	None	9380	624	207	14208060	14218216	-1	None	PKACa
19	PRKACA	ENSG00000072062	ENST00000589284	protein_coding	PUTATIVE	None	9380	77	24	14213713	14228896	-1	None	PKACa
5	RMND5B	ENSG00000145916	ENST00000313386	protein_coding	KNOWN	CCDS4431	26181	1182	393	177557997	177575569	1	None	FLJ22318, GID2, GID2B
5	RMND5B	ENSG00000145916	ENST00000515098	protein_coding	KNOWN	CCDS4431	26181	1182	393	177557997	177577566	1	None	FLJ22318, GID2, GID2B
5	RMND5B	ENSG00000145916	ENST00000507575	retained_intron	KNOWN	None	26181	None	None	177558012	177575550	1	None	FLJ22318, GID2, GID2B
5	RMND5B	ENSG00000145916	ENST00000502814	protein_coding	KNOWN	None	26181	342	113	177558015	177569909	1	None	FLJ22318, GID2, GID2B
5	RMND5B	ENSG00000145916	ENST00000512663	nonsense_mediated_decay	KNOWN	None	26181	234	77	177558018	177569977	1	None	FLJ22318, GID2, GID2B
5	RMND5B	ENSG00000145916	ENST00000507457	protein_coding	KNOWN	None	26181	444	147	177558026	177570645	1	None	FLJ22318, GID2, GID2B
5	RMND5B	ENSG00000145916	ENST00000508647	protein_coding	KNOWN	None	26181	170	55	177558036	177569614	1	None	FLJ22318, GID2, GID2B
5	RMND5B	ENSG00000145916	ENST00000512811	nonsense_mediated_decay	KNOWN	None	26181	189	62	177565109	177570710	1	None	FLJ22318, GID2, GID2B
5	RMND5B	ENSG00000145916	ENST00000515360	retained_intron	KNOWN	None	26181	None	None	177568341	177575567	1	None	FLJ22318, GID2, GID2B
5	RMND5B	ENSG00000145916	ENST00000513162	retained_intron	KNOWN	None	26181	None	None	177568673	177576992	1	None	FLJ22318, GID2, GID2B
5	RMND5B	ENSG00000145916	ENST00000507937	retained_intron	KNOWN	None	26181	None	None	177572971	177575541	1	None	FLJ22318, GID2, GID2B
5	RMND5B	ENSG00000145916	ENST00000542098	protein_coding	KNOWN	None	26181	1143	380	177558012	177575550	1	None	FLJ22318, GID2, GID2B
1	TLR5	ENSG00000187554	ENST00000366881	protein_coding	KNOWN	CCDS31033	11851	2577	858	223283647	223316624	-1	None	TIL3, SLEB1, FLJ10052, MGC126430, MGC126431
1	TLR5	ENSG00000187554	ENST00000407096	protein_coding	KNOWN	None	11851	64	20	223286310	223316580	-1	None	TIL3, SLEB1, FLJ10052, MGC126430, MGC126431
1	TLR5	ENSG00000187554	ENST00000484766	processed_transcript	KNOWN	None	11851	None	None	223307774	223316588	-1	None	TIL3, SLEB1, FLJ10052, MGC126430, MGC126431
1	TLR5	ENSG00000187554	ENST00000465726	processed_transcript	KNOWN	None	11851	None	None	223314724	223316590	-1	None	TIL3, SLEB1, FLJ10052, MGC126430, MGC126431
1	TLR5	ENSG00000187554	ENST00000540964	protein_coding	KNOWN	CCDS31033	11851	2577	858	223282748	223310629	-1	None	TIL3, SLEB1, FLJ10052, MGC126430, MGC126431
1	TLR5	ENSG00000187554	ENST00000342210	protein_coding	KNOWN	CCDS31033	11851	2577	858	223283707	223308098	-1	None	TIL3, SLEB1, FLJ10052, MGC126430, MGC126431
11	MYBPC3	ENSG00000134571	ENST00000545968	protein_coding	KNOWN	CCDS53621	7551	3825	1274	47352957	47374253	-1	CMH4	MYBP-C, FHC
11	MYBPC3	ENSG00000134571	ENST00000544791	nonsense_mediated_decay	KNOWN	None	7551	2427	808	47357129	47374253	-1	CMH4	MYBP-C, FHC
11	MYBPC3	ENSG00000134571	ENST00000399249	protein_coding	KNOWN	None	7551	3825	1274	47352957	47374253	-1	CMH4	MYBP-C, FHC
11	MYBPC3	ENSG00000134571	ENST00000256993	protein_coding	KNOWN	None	7551	3822	1273	47352957	47374253	-1	CMH4	MYBP-C, FHC
1	S100A8	ENSG00000143546	ENST00000368732	protein_coding	KNOWN	CCDS1038	10498	282	93	153362508	153363452	-1	CAGA, CFAG	P8, MRP8, 60B8AG, CGLA
1	S100A8	ENSG00000143546	ENST00000368733	protein_coding	KNOWN	CCDS1038	10498	282	93	153362508	153363664	-1	CAGA, CFAG	P8, MRP8, 60B8AG, CGLA
1	S100A8	ENSG00000143546	ENST00000477801	processed_transcript	KNOWN	None	10498	None	None	153362680	153363547	-1	CAGA, CFAG	P8, MRP8, 60B8AG, CGLA
2	TSSC1	ENSG00000032389	ENST00000478754	processed_transcript	KNOWN	None	12383	None	None	3192696	3324315	-1	None	None
2	TSSC1	ENSG00000032389	ENST00000398659	protein_coding	NOVEL	None	12383	1245	414	3192696	3381601	-1	None	None
2	TSSC1	ENSG00000032389	ENST00000382125	protein_coding	KNOWN	CCDS1651	12383	1164	387	3192696	3381653	-1	None	None
2	TSSC1	ENSG00000032389	ENST00000496433	retained_intron	KNOWN	None	12383	None	None	3193096	3198162	-1	None	None
2	TSSC1	ENSG00000032389	ENST00000455162	nonsense_mediated_decay	KNOWN	None	12383	177	58	3193231	3381559	-1	None	None
2	TSSC1	ENSG00000032389	ENST00000441271	protein_coding	PUTATIVE	None	12383	536	177	3196185	3381571	-1	None	None
2	TSSC1	ENSG00000032389	ENST00000463662	processed_transcript	KNOWN	None	12383	None	None	3197783	3381241	-1	None	None
2	TSSC1	ENSG00000032389	ENST00000482570	retained_intron	KNOWN	None	12383	None	None	3197854	3261330	-1	None	None
2	TSSC1	ENSG00000032389	ENST00000435721	nonsense_mediated_decay	KNOWN	None	12383	399	132	3197854	3381552	-1	None	None
2	TSSC1	ENSG00000032389	ENST00000470625	retained_intron	KNOWN	None	12383	None	None	3200682	3218223	-1	None	None
2	TSSC1	ENSG00000032389	ENST00000443925	protein_coding	PUTATIVE	None	12383	945	314	3211575	3381561	-1	None	None
2	TSSC1	ENSG00000032389	ENST00000406835	nonsense_mediated_decay	KNOWN	None	12383	264	87	3217920	3381564	-1	None	None
2	TSSC1	ENSG00000032389	ENST00000462515	processed_transcript	KNOWN	None	12383	None	None	3217957	3286597	-1	None	None
2	TSSC1	ENSG00000032389	ENST00000444776	protein_coding	PUTATIVE	None	12383	466	154	3261122	3381588	-1	None	None
10	PRKCQ	ENSG00000065675	ENST00000263125	protein_coding	KNOWN	CCDS7079	9410	2121	706	6469105	6622263	-1	None	None
10	PRKCQ	ENSG00000065675	ENST00000397176	protein_coding	KNOWN	CCDS55701	9410	1932	643	6469134	6622238	-1	None	None
10	PRKCQ	ENSG00000065675	ENST00000539722	protein_coding	KNOWN	None	9410	1746	581	6469983	6622201	-1	None	None
14	RTL1	ENSG00000254656	ENST00000534062	protein_coding	KNOWN	CCDS53910	14665	4077	1358	101346992	101351184	-1	None	PEG11, MART1, Mar1
1	S100A7A	ENSG00000184330	ENST00000368729	protein_coding	KNOWN	CCDS30872	21657	306	101	153389000	153395701	1	S100A15, S100A7L1	S100A7f
1	S100A7A	ENSG00000184330	ENST00000368728	protein_coding	KNOWN	CCDS30872	21657	306	101	153389699	153391846	1	S100A15, S100A7L1	S100A7f
1	S100A7A	ENSG00000184330	ENST00000329256	protein_coding	KNOWN	CCDS30872	21657	306	101	153390420	153391831	1	S100A15, S100A7L1	S100A7f
17	GCGR	ENSG00000215644	ENST00000572185	retained_intron	KNOWN	None	4192	None	None	79762008	79768267	1	None	GGR
17	GCGR	ENSG00000215644	ENST00000400723	protein_coding	KNOWN	CCDS54177	4192	1434	477	79762010	79771889	1	None	GGR
17	GCGR	ENSG00000215644	ENST00000570996	protein_coding	PUTATIVE	None	4192	1572	523	79762025	79771565	1	None	GGR
17	GCGR	ENSG00000215644	ENST00000573428	protein_coding	KNOWN	None	4192	240	79	79762963	79768777	1	None	GGR
17	GCGR	ENSG00000215644	ENST00000574283	retained_intron	KNOWN	None	4192	None	None	79767664	79769217	1	None	GGR
17	GCGR	ENSG00000215644	ENST00000571425	retained_intron	KNOWN	None	4192	None	None	79769567	79770324	1	None	GGR
2	ZC3H15	ENSG00000065548	ENST00000337859	protein_coding	KNOWN	CCDS42791	29528	1281	426	187350883	187374090	1	None	LEREPO4
2	ZC3H15	ENSG00000065548	ENST00000421536	nonsense_mediated_decay	KNOWN	None	29528	318	105	187350980	187370818	1	None	LEREPO4
2	ZC3H15	ENSG00000065548	ENST00000437396	nonsense_mediated_decay	KNOWN	None	29528	225	74	187350990	187366102	1	None	LEREPO4
2	ZC3H15	ENSG00000065548	ENST00000477672	processed_transcript	PUTATIVE	None	29528	None	None	187350994	187360046	1	None	LEREPO4
2	ZC3H15	ENSG00000065548	ENST00000481101	processed_transcript	KNOWN	None	29528	None	None	187351618	187368813	1	None	LEREPO4
2	ZC3H15	ENSG00000065548	ENST00000468120	processed_transcript	KNOWN	None	29528	None	None	187351645	187368826	1	None	LEREPO4
2	ZC3H15	ENSG00000065548	ENST00000496289	processed_transcript	KNOWN	None	29528	None	None	187351997	187368797	1	None	LEREPO4
2	ZC3H15	ENSG00000065548	ENST00000498757	retained_intron	KNOWN	None	29528	None	None	187369818	187373417	1	None	LEREPO4
2	ZC3H15	ENSG00000065548	ENST00000445547	protein_coding	PUTATIVE	None	29528	216	71	187371440	187373841	1	None	LEREPO4
2	ZC3H15	ENSG00000065548	ENST00000544130	protein_coding	KNOWN	None	29528	489	162	187350980	187370818	1	None	LEREPO4
1	CYP4A11	ENSG00000187048	ENST00000310638	protein_coding	KNOWN	CCDS543	2642	1560	519	47394849	47407137	-1	CYP4A2	CYP4AII
1	CYP4A11	ENSG00000187048	ENST00000475477	processed_transcript	KNOWN	None	2642	None	None	47394849	47407156	-1	CYP4A2	CYP4AII
1	CYP4A11	ENSG00000187048	ENST00000462347	processed_transcript	KNOWN	None	2642	None	None	47395309	47407136	-1	CYP4A2	CYP4AII
1	CYP4A11	ENSG00000187048	ENST00000474458	processed_transcript	KNOWN	None	2642	None	None	47395720	47407156	-1	CYP4A2	CYP4AII
1	CYP4A11	ENSG00000187048	ENST00000468629	processed_transcript	KNOWN	None	2642	None	None	47395720	47407156	-1	CYP4A2	CYP4AII
1	CYP4A11	ENSG00000187048	ENST00000465874	processed_transcript	KNOWN	None	2642	None	None	47397178	47407148	-1	CYP4A2	CYP4AII
1	CYP4A11	ENSG00000187048	ENST00000371905	protein_coding	NOVEL	None	2642	1368	455	47398103	47407136	-1	CYP4A2	CYP4AII
1	CYP4A11	ENSG00000187048	ENST00000496519	processed_transcript	KNOWN	None	2642	None	None	47399587	47399918	-1	CYP4A2	CYP4AII
1	CYP4A11	ENSG00000187048	ENST00000371904	protein_coding	KNOWN	None	2642	1563	520	47394852	47407128	-1	CYP4A2	CYP4AII
1	CYP4A11	ENSG00000187048	ENST00000457840	protein_coding	KNOWN	None	2642	474	157	47399625	47407097	-1	CYP4A2	CYP4AII
1	S100A7L2	ENSG00000197364	ENST00000368725	protein_coding	KNOWN	None	21655	339	112	153409534	153412425	-1	None	s100a7b
1	S100A7	ENSG00000143556	ENST00000368722	protein_coding	KNOWN	CCDS1039	10497	306	101	153430220	153432350	-1	PSOR1	S100A7c
1	S100A7	ENSG00000143556	ENST00000368723	protein_coding	KNOWN	CCDS1039	10497	306	101	153430220	153433177	-1	PSOR1	S100A7c
12	GDF3	ENSG00000184344	ENST00000329913	protein_coding	KNOWN	CCDS8581	4218	1095	364	7842378	7848372	-1	None	None
8	INTS9	ENSG00000104299	ENST00000523303	nonsense_mediated_decay	KNOWN	None	25592	1578	525	28625178	28747430	-1	None	FLJ10871, CPSF2L, RC-74
8	INTS9	ENSG00000104299	ENST00000521022	protein_coding	KNOWN	CCDS34873	25592	1977	658	28625178	28747481	-1	None	FLJ10871, CPSF2L, RC-74
8	INTS9	ENSG00000104299	ENST00000416984	protein_coding	NOVEL	CCDS55216	25592	1914	637	28625178	28747759	-1	None	FLJ10871, CPSF2L, RC-74
8	INTS9	ENSG00000104299	ENST00000521777	protein_coding	PUTATIVE	CCDS55215	25592	1905	634	28625275	28747432	-1	None	FLJ10871, CPSF2L, RC-74
8	INTS9	ENSG00000104299	ENST00000517383	protein_coding	NOVEL	None	25592	452	149	28625429	28628581	-1	None	FLJ10871, CPSF2L, RC-74
8	INTS9	ENSG00000104299	ENST00000522363	nonsense_mediated_decay	KNOWN	None	25592	117	38	28625464	28747459	-1	None	FLJ10871, CPSF2L, RC-74
8	INTS9	ENSG00000104299	ENST00000520316	retained_intron	KNOWN	None	25592	None	None	28627118	28633442	-1	None	FLJ10871, CPSF2L, RC-74
8	INTS9	ENSG00000104299	ENST00000519578	processed_transcript	KNOWN	None	25592	None	None	28627406	28633720	-1	None	FLJ10871, CPSF2L, RC-74
8	INTS9	ENSG00000104299	ENST00000520005	retained_intron	KNOWN	None	25592	None	None	28628523	28633788	-1	None	FLJ10871, CPSF2L, RC-74
8	INTS9	ENSG00000104299	ENST00000521070	processed_transcript	KNOWN	None	25592	None	None	28635377	28641517	-1	None	FLJ10871, CPSF2L, RC-74
8	INTS9	ENSG00000104299	ENST00000522074	retained_intron	KNOWN	None	25592	None	None	28638468	28654492	-1	None	FLJ10871, CPSF2L, RC-74
8	INTS9	ENSG00000104299	ENST00000520983	retained_intron	KNOWN	None	25592	None	None	28651246	28747438	-1	None	FLJ10871, CPSF2L, RC-74
8	INTS9	ENSG00000104299	ENST00000523436	protein_coding	NOVEL	None	25592	902	299	28651324	28747426	-1	None	FLJ10871, CPSF2L, RC-74
8	INTS9	ENSG00000104299	ENST00000518510	nonsense_mediated_decay	KNOWN	None	25592	513	170	28654085	28747444	-1	None	FLJ10871, CPSF2L, RC-74
8	INTS9	ENSG00000104299	ENST00000524081	protein_coding	NOVEL	None	25592	668	221	28654136	28717063	-1	None	FLJ10871, CPSF2L, RC-74
8	INTS9	ENSG00000104299	ENST00000523076	retained_intron	KNOWN	None	25592	None	None	28669874	28671217	-1	None	FLJ10871, CPSF2L, RC-74
8	INTS9	ENSG00000104299	ENST00000520437	nonsense_mediated_decay	KNOWN	None	25592	78	25	28671009	28717020	-1	None	FLJ10871, CPSF2L, RC-74
8	INTS9	ENSG00000104299	ENST00000520184	protein_coding	PUTATIVE	None	25592	262	86	28695221	28747451	-1	None	FLJ10871, CPSF2L, RC-74
8	INTS9	ENSG00000104299	ENST00000520831	retained_intron	KNOWN	None	25592	None	None	28707526	28747495	-1	None	FLJ10871, CPSF2L, RC-74
8	INTS9	ENSG00000104299	ENST00000397363	protein_coding	KNOWN	None	25592	1659	552	28625464	28747431	-1	None	FLJ10871, CPSF2L, RC-74
12	LGR5	ENSG00000139292	ENST00000266674	protein_coding	KNOWN	CCDS9000	4504	2724	907	71833550	71980090	1	GPR67, GPR49	HG38, FEX
12	LGR5	ENSG00000139292	ENST00000550851	retained_intron	KNOWN	None	4504	None	None	71833764	71980086	1	GPR67, GPR49	HG38, FEX
12	LGR5	ENSG00000139292	ENST00000536515	protein_coding	NOVEL	None	4504	2508	835	71833813	71978622	1	GPR67, GPR49	HG38, FEX
12	LGR5	ENSG00000139292	ENST00000540815	protein_coding	KNOWN	None	4504	2652	883	71833815	71978616	1	GPR67, GPR49	HG38, FEX
12	LGR5	ENSG00000139292	ENST00000549015	retained_intron	KNOWN	None	4504	None	None	71961042	71966807	1	GPR67, GPR49	HG38, FEX
12	LGR5	ENSG00000139292	ENST00000547310	retained_intron	KNOWN	None	4504	None	None	71965044	71972699	1	GPR67, GPR49	HG38, FEX
1	S100A6	ENSG00000197956	ENST00000496817	protein_coding	KNOWN	CCDS1040	10496	273	90	153507075	153508691	-1	CACY	2A9, PRA, CABP
1	S100A6	ENSG00000197956	ENST00000368719	protein_coding	KNOWN	CCDS1040	10496	273	90	153507075	153508698	-1	CACY	2A9, PRA, CABP
1	S100A6	ENSG00000197956	ENST00000368720	protein_coding	KNOWN	CCDS1040	10496	273	90	153507075	153508720	-1	CACY	2A9, PRA, CABP
1	S100A6	ENSG00000197956	ENST00000462776	protein_coding	KNOWN	None	10496	255	84	153507190	153508467	-1	CACY	2A9, PRA, CABP
1	S100A6	ENSG00000197956	ENST00000462951	retained_intron	KNOWN	None	10496	None	None	153507569	153508467	-1	CACY	2A9, PRA, CABP
1	SUSD4	ENSG00000143502	ENST00000343846	protein_coding	KNOWN	CCDS41471	25470	1473	490	223394161	223537401	-1	None	FLJ10052
1	SUSD4	ENSG00000143502	ENST00000494793	processed_transcript	KNOWN	None	25470	None	None	223394173	223537520	-1	None	FLJ10052
1	SUSD4	ENSG00000143502	ENST00000478605	processed_transcript	KNOWN	None	25470	None	None	223394358	223537425	-1	None	FLJ10052
1	SUSD4	ENSG00000143502	ENST00000483818	processed_transcript	KNOWN	None	25470	None	None	223395501	223537425	-1	None	FLJ10052
1	SUSD4	ENSG00000143502	ENST00000484503	processed_transcript	PUTATIVE	None	25470	None	None	223400945	223402792	-1	None	FLJ10052
1	SUSD4	ENSG00000143502	ENST00000470249	processed_transcript	KNOWN	None	25470	None	None	223400957	223404089	-1	None	FLJ10052
1	SUSD4	ENSG00000143502	ENST00000484758	processed_transcript	KNOWN	None	25470	None	None	223402564	223537472	-1	None	FLJ10052
1	SUSD4	ENSG00000143502	ENST00000344029	protein_coding	KNOWN	CCDS31034	25470	873	290	223408257	223537509	-1	None	FLJ10052
1	SUSD4	ENSG00000143502	ENST00000497669	processed_transcript	PUTATIVE	None	25470	None	None	223437749	223465911	-1	None	FLJ10052
1	SUSD4	ENSG00000143502	ENST00000342943	protein_coding	KNOWN	None	25470	321	106	223532167	223537197	-1	None	FLJ10052
1	SUSD4	ENSG00000143502	ENST00000366878	protein_coding	KNOWN	CCDS41471	25470	1473	490	223394163	223537544	-1	None	FLJ10052
1	SUSD4	ENSG00000143502	ENST00000454695	protein_coding	KNOWN	None	25470	993	330	223395493	223537469	-1	None	FLJ10052
1	SUSD4	ENSG00000143502	ENST00000366877	protein_coding	KNOWN	None	25470	321	106	223532400	223537544	-1	None	FLJ10052
2	None	ENSG00000213953	ENST00000396985	protein_coding	NOVEL	None	None	57	18	187361840	187365393	1	None	None
1	S100A5	ENSG00000196420	ENST00000368718	protein_coding	KNOWN	CCDS1041	10495	279	92	153509623	153514241	-1	S100D	None
1	S100A5	ENSG00000196420	ENST00000368717	protein_coding	KNOWN	CCDS1041	10495	279	92	153509633	153513170	-1	S100D	None
1	S100A5	ENSG00000196420	ENST00000359215	protein_coding	KNOWN	None	10495	333	110	153509623	153514241	-1	S100D	None
2	None	ENSG00000268846	ENST00000595956	protein_coding	NOVEL	None	None	138	45	187367219	187367356	-1	None	None
14	None	ENSG00000214670	ENST00000338772	protein_coding	KNOWN	None	None	411	136	75158879	75179800	-1	None	None
16	None	ENSG00000226232	ENST00000532298	protein_coding	NOVEL	None	None	987	328	70010291	70030091	-1	None	None
16	None	ENSG00000226232	ENST00000525562	processed_transcript	KNOWN	None	None	None	None	70011368	70023987	-1	None	None
16	None	ENSG00000226232	ENST00000526720	processed_transcript	KNOWN	None	None	None	None	70011509	70016368	-1	None	None
16	None	ENSG00000226232	ENST00000325845	protein_coding	KNOWN	None	None	750	249	70011775	70099851	-1	None	None
14	PRPF39	ENSG00000185246	ENST00000355765	protein_coding	KNOWN	CCDS9682	20314	2010	669	45553302	45584804	1	None	FLJ20666, FLJ11128
14	PRPF39	ENSG00000185246	ENST00000553605	protein_coding	NOVEL	None	20314	420	139	45553310	45565431	1	None	FLJ20666, FLJ11128
14	PRPF39	ENSG00000185246	ENST00000556782	retained_intron	KNOWN	None	20314	None	None	45553321	45564936	1	None	FLJ20666, FLJ11128
14	PRPF39	ENSG00000185246	ENST00000477626	retained_intron	KNOWN	None	20314	None	None	45553321	45584804	1	None	FLJ20666, FLJ11128
14	PRPF39	ENSG00000185246	ENST00000424478	nonsense_mediated_decay	KNOWN	None	20314	459	152	45553331	45584804	1	None	FLJ20666, FLJ11128
14	PRPF39	ENSG00000185246	ENST00000554439	nonsense_mediated_decay	KNOWN	None	20314	459	152	45564424	45584837	1	None	FLJ20666, FLJ11128
14	PRPF39	ENSG00000185246	ENST00000554429	nonsense_mediated_decay	KNOWN	None	20314	459	152	45564442	45584804	1	None	FLJ20666, FLJ11128
14	PRPF39	ENSG00000185246	ENST00000556353	retained_intron	KNOWN	None	20314	None	None	45564649	45566069	1	None	FLJ20666, FLJ11128
14	PRPF39	ENSG00000185246	ENST00000554081	nonsense_mediated_decay	KNOWN	None	20314	52	16	45565401	45585485	1	None	FLJ20666, FLJ11128
14	PRPF39	ENSG00000185246	ENST00000557477	nonsense_mediated_decay	KNOWN	None	20314	272	89	45566109	45579379	1	None	FLJ20666, FLJ11128
14	PRPF39	ENSG00000185246	ENST00000554785	retained_intron	KNOWN	None	20314	None	None	45578935	45584799	1	None	FLJ20666, FLJ11128
14	PRPF39	ENSG00000185246	ENST00000556718	retained_intron	KNOWN	None	20314	None	None	45578946	45579872	1	None	FLJ20666, FLJ11128
3	SPCS1	ENSG00000114902	ENST00000423431	protein_coding	PUTATIVE	None	23401	243	80	52738971	52742173	1	None	SPC12, HSPC033, YJR010C-A, SPC1
3	SPCS1	ENSG00000114902	ENST00000233025	protein_coding	KNOWN	CCDS33769	23401	510	169	52739652	52742182	1	None	SPC12, HSPC033, YJR010C-A, SPC1
3	SPCS1	ENSG00000114902	ENST00000602728	protein_coding	KNOWN	None	23401	309	102	52740094	52742182	1	None	SPC12, HSPC033, YJR010C-A, SPC1
3	SPCS1	ENSG00000114902	ENST00000448693	retained_intron	KNOWN	None	23401	None	None	52740125	52741400	1	None	SPC12, HSPC033, YJR010C-A, SPC1
3	SPCS1	ENSG00000114902	ENST00000474945	retained_intron	KNOWN	None	23401	None	None	52740159	52742035	1	None	SPC12, HSPC033, YJR010C-A, SPC1
1	S100A4	ENSG00000196154	ENST00000368715	protein_coding	KNOWN	CCDS1042	10494	306	101	153516089	153517539	-1	MTS1, CAPL	P9KA, 18A2, PEL98, 42A, FSP1
1	S100A4	ENSG00000196154	ENST00000481009	processed_transcript	KNOWN	None	10494	None	None	153516089	153517573	-1	MTS1, CAPL	P9KA, 18A2, PEL98, 42A, FSP1
1	S100A4	ENSG00000196154	ENST00000354332	protein_coding	KNOWN	CCDS1042	10494	306	101	153516089	153518278	-1	MTS1, CAPL	P9KA, 18A2, PEL98, 42A, FSP1
1	S100A4	ENSG00000196154	ENST00000468373	processed_transcript	KNOWN	None	10494	None	None	153516089	153518282	-1	MTS1, CAPL	P9KA, 18A2, PEL98, 42A, FSP1
1	S100A4	ENSG00000196154	ENST00000368716	protein_coding	KNOWN	CCDS1042	10494	306	101	153516089	153518361	-1	MTS1, CAPL	P9KA, 18A2, PEL98, 42A, FSP1
1	S100A4	ENSG00000196154	ENST00000368714	protein_coding	KNOWN	CCDS1042	10494	306	101	153516097	153522612	-1	MTS1, CAPL	P9KA, 18A2, PEL98, 42A, FSP1
1	CYP4X1	ENSG00000186377	ENST00000371901	protein_coding	KNOWN	CCDS544	20244	1530	509	47489240	47516423	1	None	MGC40051
1	CYP4X1	ENSG00000186377	ENST00000466294	processed_transcript	KNOWN	None	20244	None	None	47501780	47505395	1	None	MGC40051
1	CYP4X1	ENSG00000186377	ENST00000538609	protein_coding	KNOWN	None	20244	1527	508	47427036	47516422	1	None	MGC40051
1	C1orf65	ENSG00000178395	ENST00000366875	protein_coding	KNOWN	CCDS1537	26654	1872	623	223566715	223568812	1	None	FLJ35728
17	FAM195B	ENSG00000225663	ENST00000455127	protein_coding	KNOWN	CCDS45814	28007	294	97	79780287	79791144	-1	None	None
17	FAM195B	ENSG00000225663	ENST00000576730	protein_coding	KNOWN	CCDS45814	28007	294	97	79780293	79784538	-1	None	None
17	FAM195B	ENSG00000225663	ENST00000572645	protein_coding	PUTATIVE	None	28007	357	118	79780293	79791144	-1	None	None
17	FAM195B	ENSG00000225663	ENST00000538396	protein_coding	KNOWN	CCDS45814	28007	294	97	79780293	79791167	-1	None	None
17	FAM195B	ENSG00000225663	ENST00000573478	protein_coding	NOVEL	None	28007	192	63	79780305	79791178	-1	None	None
17	FAM195B	ENSG00000225663	ENST00000574190	protein_coding	KNOWN	CCDS45814	28007	294	97	79780330	79784070	-1	None	None
17	FAM195B	ENSG00000225663	ENST00000570507	protein_coding	NOVEL	None	28007	279	92	79780677	79782422	-1	None	None
17	FAM195B	ENSG00000225663	ENST00000575090	processed_transcript	PUTATIVE	None	28007	None	None	79780681	79781696	-1	None	None
17	FAM195B	ENSG00000225663	ENST00000576679	protein_coding	PUTATIVE	None	28007	237	78	79780740	79782363	-1	None	None
17	FAM195B	ENSG00000225663	ENST00000576431	protein_coding	PUTATIVE	None	28007	354	117	79780993	79791118	-1	None	None
17	FAM195B	ENSG00000225663	ENST00000575061	protein_coding	PUTATIVE	None	28007	357	118	79781002	79791132	-1	None	None
11	SCN3B	ENSG00000166257	ENST00000527125	retained_intron	KNOWN	None	20665	None	None	123499895	123511832	-1	None	HSA243396
11	SCN3B	ENSG00000166257	ENST00000392770	protein_coding	KNOWN	CCDS8442	20665	648	215	123499897	123525312	-1	None	HSA243396
11	SCN3B	ENSG00000166257	ENST00000530277	protein_coding	PUTATIVE	CCDS8442	20665	648	215	123501922	123525315	-1	None	HSA243396
11	SCN3B	ENSG00000166257	ENST00000527836	protein_coding	KNOWN	None	20665	424	140	123513175	123525714	-1	None	HSA243396
11	SCN3B	ENSG00000166257	ENST00000528267	protein_coding	PUTATIVE	None	20665	281	92	123513318	123525952	-1	None	HSA243396
11	SCN3B	ENSG00000166257	ENST00000299333	protein_coding	KNOWN	CCDS8442	20665	648	215	123499897	123525315	-1	None	HSA243396
1	S100A3	ENSG00000188015	ENST00000368713	protein_coding	KNOWN	CCDS1043	10493	306	101	153519805	153521848	-1	S100E	None
1	S100A3	ENSG00000188015	ENST00000368712	protein_coding	KNOWN	CCDS1043	10493	306	101	153519989	153521602	-1	S100E	None
16	SLC5A2	ENSG00000140675	ENST00000569576	protein_coding	PUTATIVE	None	11037	446	147	31494323	31497597	1	SGLT2	None
16	SLC5A2	ENSG00000140675	ENST00000419665	nonsense_mediated_decay	KNOWN	None	11037	1377	458	31494439	31501990	1	SGLT2	None
16	SLC5A2	ENSG00000140675	ENST00000330498	protein_coding	KNOWN	CCDS10714	11037	2019	672	31494439	31502089	1	SGLT2	None
16	SLC5A2	ENSG00000140675	ENST00000562006	retained_intron	KNOWN	None	11037	None	None	31494459	31496937	1	SGLT2	None
16	SLC5A2	ENSG00000140675	ENST00000565446	retained_intron	KNOWN	None	11037	None	None	31496068	31497597	1	SGLT2	None
16	SLC5A2	ENSG00000140675	ENST00000568188	retained_intron	KNOWN	None	11037	None	None	31499341	31502090	1	SGLT2	None
16	SLC5A2	ENSG00000140675	ENST00000568891	retained_intron	KNOWN	None	11037	None	None	31499531	31501665	1	SGLT2	None
16	SLC5A2	ENSG00000140675	ENST00000567051	processed_transcript	KNOWN	None	11037	None	None	31500810	31502166	1	SGLT2	None
16	SLC5A2	ENSG00000140675	ENST00000564197	processed_transcript	PUTATIVE	None	11037	None	None	31500810	31502181	1	SGLT2	None
16	NARFL	ENSG00000103245	ENST00000251588	protein_coding	KNOWN	CCDS10425	14179	1431	476	779753	791002	-1	None	FLJ21988, PRN, HPRN, IOP1
16	NARFL	ENSG00000103245	ENST00000568545	protein_coding	PUTATIVE	None	14179	1125	374	779760	787889	-1	None	FLJ21988, PRN, HPRN, IOP1
16	NARFL	ENSG00000103245	ENST00000566650	retained_intron	KNOWN	None	14179	None	None	779766	783334	-1	None	FLJ21988, PRN, HPRN, IOP1
16	NARFL	ENSG00000103245	ENST00000540986	protein_coding	PUTATIVE	None	14179	1125	374	779766	790934	-1	None	FLJ21988, PRN, HPRN, IOP1
16	NARFL	ENSG00000103245	ENST00000563051	retained_intron	KNOWN	None	14179	None	None	779771	782900	-1	None	FLJ21988, PRN, HPRN, IOP1
16	NARFL	ENSG00000103245	ENST00000565425	nonsense_mediated_decay	KNOWN	None	14179	567	188	779809	790997	-1	None	FLJ21988, PRN, HPRN, IOP1
16	NARFL	ENSG00000103245	ENST00000562862	processed_transcript	KNOWN	None	14179	None	None	780105	784238	-1	None	FLJ21988, PRN, HPRN, IOP1
16	NARFL	ENSG00000103245	ENST00000564285	retained_intron	KNOWN	None	14179	None	None	780202	782900	-1	None	FLJ21988, PRN, HPRN, IOP1
16	NARFL	ENSG00000103245	ENST00000562421	protein_coding	PUTATIVE	None	14179	559	185	782332	787755	-1	None	FLJ21988, PRN, HPRN, IOP1
16	NARFL	ENSG00000103245	ENST00000565341	retained_intron	KNOWN	None	14179	None	None	783702	790997	-1	None	FLJ21988, PRN, HPRN, IOP1
16	NARFL	ENSG00000103245	ENST00000562752	retained_intron	KNOWN	None	14179	None	None	783841	790997	-1	None	FLJ21988, PRN, HPRN, IOP1
16	NARFL	ENSG00000103245	ENST00000569759	processed_transcript	KNOWN	None	14179	None	None	784078	786370	-1	None	FLJ21988, PRN, HPRN, IOP1
16	NARFL	ENSG00000103245	ENST00000567403	protein_coding	PUTATIVE	None	14179	332	109	784284	787752	-1	None	FLJ21988, PRN, HPRN, IOP1
16	NARFL	ENSG00000103245	ENST00000563534	processed_transcript	KNOWN	None	14179	None	None	784715	787464	-1	None	FLJ21988, PRN, HPRN, IOP1
16	NARFL	ENSG00000103245	ENST00000565065	nonsense_mediated_decay	KNOWN	None	14179	213	70	784771	790997	-1	None	FLJ21988, PRN, HPRN, IOP1
16	NARFL	ENSG00000103245	ENST00000566614	protein_coding	PUTATIVE	None	14179	160	52	784845	791329	-1	None	FLJ21988, PRN, HPRN, IOP1
16	NARFL	ENSG00000103245	ENST00000570289	nonsense_mediated_decay	KNOWN	None	14179	249	82	786265	790988	-1	None	FLJ21988, PRN, HPRN, IOP1
16	NARFL	ENSG00000103245	ENST00000570066	nonsense_mediated_decay	KNOWN	None	14179	201	66	786368	791015	-1	None	FLJ21988, PRN, HPRN, IOP1
16	NARFL	ENSG00000103245	ENST00000567455	processed_transcript	KNOWN	None	14179	None	None	786994	790997	-1	None	FLJ21988, PRN, HPRN, IOP1
16	NARFL	ENSG00000103245	ENST00000565693	processed_transcript	KNOWN	None	14179	None	None	787981	790997	-1	None	FLJ21988, PRN, HPRN, IOP1
16	NARFL	ENSG00000103245	ENST00000567172	processed_transcript	KNOWN	None	14179	None	None	789318	790997	-1	None	FLJ21988, PRN, HPRN, IOP1
16	NARFL	ENSG00000103245	ENST00000301694	protein_coding	KNOWN	None	14179	567	188	780911	790997	-1	None	FLJ21988, PRN, HPRN, IOP1
14	FCF1	ENSG00000119616	ENST00000554590	protein_coding	PUTATIVE	None	20220	185	60	75179847	75199520	1	C14orf111	CGI-35, Bka, UTP24
14	FCF1	ENSG00000119616	ENST00000341162	protein_coding	KNOWN	CCDS9832	20220	597	198	75179847	75203394	1	C14orf111	CGI-35, Bka, UTP24
14	FCF1	ENSG00000119616	ENST00000556814	nonsense_mediated_decay	KNOWN	None	20220	198	65	75179871	75201620	1	C14orf111	CGI-35, Bka, UTP24
14	FCF1	ENSG00000119616	ENST00000554064	nonsense_mediated_decay	KNOWN	None	20220	159	52	75179873	75199515	1	C14orf111	CGI-35, Bka, UTP24
14	FCF1	ENSG00000119616	ENST00000534938	protein_coding	PUTATIVE	None	20220	561	186	75179873	75201743	1	C14orf111	CGI-35, Bka, UTP24
14	FCF1	ENSG00000119616	ENST00000553615	protein_coding	NOVEL	None	20220	552	183	75179873	75202007	1	C14orf111	CGI-35, Bka, UTP24
14	FCF1	ENSG00000119616	ENST00000553673	nonsense_mediated_decay	KNOWN	None	20220	123	40	75179907	75190046	1	C14orf111	CGI-35, Bka, UTP24
14	FCF1	ENSG00000119616	ENST00000554973	retained_intron	KNOWN	None	20220	None	None	75182375	75199496	1	C14orf111	CGI-35, Bka, UTP24
1	CYP4Z1	ENSG00000186160	ENST00000334194	protein_coding	KNOWN	CCDS545	20583	1518	505	47533160	47583991	1	None	CYP4A20
1	CYP4Z1	ENSG00000186160	ENST00000471598	processed_transcript	KNOWN	None	20583	None	None	47581111	47583736	1	None	CYP4A20
7	UBE2D4	ENSG00000078967	ENST00000450743	nonsense_mediated_decay	KNOWN	None	21647	129	42	43966037	43992506	1	None	HBUCE1
7	UBE2D4	ENSG00000078967	ENST00000454350	nonsense_mediated_decay	KNOWN	None	21647	120	39	43966041	43992658	1	None	HBUCE1
7	UBE2D4	ENSG00000078967	ENST00000443780	nonsense_mediated_decay	KNOWN	None	21647	129	42	43966043	43988588	1	None	HBUCE1
7	UBE2D4	ENSG00000078967	ENST00000222402	protein_coding	KNOWN	CCDS5474	21647	444	147	43966043	43993166	1	None	HBUCE1
7	UBE2D4	ENSG00000078967	ENST00000440899	nonsense_mediated_decay	KNOWN	None	21647	129	42	43966069	43992658	1	None	HBUCE1
7	UBE2D4	ENSG00000078967	ENST00000454428	nonsense_mediated_decay	KNOWN	None	21647	129	42	43966089	43988289	1	None	HBUCE1
7	UBE2D4	ENSG00000078967	ENST00000415051	nonsense_mediated_decay	KNOWN	None	21647	225	74	43966089	43992656	1	None	HBUCE1
7	UBE2D4	ENSG00000078967	ENST00000446008	protein_coding	PUTATIVE	None	21647	369	122	43966115	43988798	1	None	HBUCE1
7	UBE2D4	ENSG00000078967	ENST00000440652	nonsense_mediated_decay	KNOWN	None	21647	90	29	43966117	43993166	1	None	HBUCE1
7	UBE2D4	ENSG00000078967	ENST00000473007	nonsense_mediated_decay	KNOWN	None	21647	96	31	43978030	43992556	1	None	HBUCE1
7	UBE2D4	ENSG00000078967	ENST00000491770	retained_intron	KNOWN	None	21647	None	None	43988201	43992556	1	None	HBUCE1
7	UBE2D4	ENSG00000078967	ENST00000394798	protein_coding	KNOWN	None	21647	330	109	43966117	43993163	1	None	HBUCE1
1	S100A2	ENSG00000196754	ENST00000368708	protein_coding	KNOWN	CCDS1044	10492	294	97	153533584	153538341	-1	S100L	CAN19
1	S100A2	ENSG00000196754	ENST00000487430	protein_coding	KNOWN	CCDS1044	10492	294	97	153533816	153536709	-1	S100L	CAN19
1	S100A2	ENSG00000196754	ENST00000497140	protein_coding	PUTATIVE	None	10492	195	64	153533816	153538306	-1	S100L	CAN19
1	S100A2	ENSG00000196754	ENST00000368710	protein_coding	KNOWN	CCDS1044	10492	294	97	153533816	153540366	-1	S100L	CAN19
1	S100A2	ENSG00000196754	ENST00000368709	protein_coding	KNOWN	CCDS1044	10492	294	97	153533819	153539231	-1	S100L	CAN19
1	S100A2	ENSG00000196754	ENST00000368707	protein_coding	PUTATIVE	None	10492	288	95	153533825	153538018	-1	S100L	CAN19
12	DPPA3	ENSG00000187569	ENST00000345088	protein_coding	KNOWN	CCDS8582	19199	480	159	7864050	7870155	1	None	Stella
1	CAPN8	ENSG00000203697	ENST00000484873	nonsense_mediated_decay	KNOWN	None	1485	62	19	223711349	223716528	-1	None	nCL-2
1	CAPN8	ENSG00000203697	ENST00000442247	protein_coding	PUTATIVE	None	1485	306	101	223711350	223724380	-1	None	nCL-2
1	CAPN8	ENSG00000203697	ENST00000430824	protein_coding	NOVEL	None	1485	471	156	223714975	223724380	-1	None	nCL-2
1	CAPN8	ENSG00000203697	ENST00000482401	retained_intron	KNOWN	None	1485	None	None	223714979	223718736	-1	None	nCL-2
1	CAPN8	ENSG00000203697	ENST00000482183	retained_intron	KNOWN	None	1485	None	None	223715011	223717632	-1	None	nCL-2
1	CAPN8	ENSG00000203697	ENST00000419193	protein_coding	NOVEL	None	1485	1311	436	223803672	223853436	-1	None	nCL-2
1	CAPN8	ENSG00000203697	ENST00000366873	protein_coding	NOVEL	None	1485	1146	381	223804600	223853425	-1	None	nCL-2
1	CAPN8	ENSG00000203697	ENST00000467384	nonsense_mediated_decay	KNOWN	None	1485	117	38	223807898	223842101	-1	None	nCL-2
1	CAPN8	ENSG00000203697	ENST00000465098	protein_coding	PUTATIVE	None	1485	521	172	223810324	223816407	-1	None	nCL-2
1	CAPN8	ENSG00000203697	ENST00000525760	retained_intron	KNOWN	None	1485	None	None	223814742	223816672	-1	None	nCL-2
1	CAPN8	ENSG00000203697	ENST00000366872	protein_coding	KNOWN	None	1485	2046	681	223714983	223853348	-1	None	nCL-2
1	S100A16	ENSG00000188643	ENST00000368704	protein_coding	KNOWN	CCDS1045	20441	312	103	153579362	153581813	-1	None	S100F, DT1P1A7, MGC17528
1	S100A16	ENSG00000188643	ENST00000368706	protein_coding	KNOWN	CCDS1045	20441	312	103	153579362	153585559	-1	None	S100F, DT1P1A7, MGC17528
1	S100A16	ENSG00000188643	ENST00000368703	protein_coding	KNOWN	CCDS1045	20441	312	103	153579451	153580798	-1	None	S100F, DT1P1A7, MGC17528
1	S100A16	ENSG00000188643	ENST00000368705	protein_coding	KNOWN	CCDS1045	20441	312	103	153579838	153581820	-1	None	S100F, DT1P1A7, MGC17528
1	S100A16	ENSG00000188643	ENST00000474991	processed_transcript	KNOWN	None	20441	None	None	153579928	153585621	-1	None	S100F, DT1P1A7, MGC17528
17	CCL5	ENSG00000161570	ENST00000293272	protein_coding	KNOWN	CCDS11300	10632	276	91	34198495	34207512	-1	D17S136E, SCYA5	RANTES, SISd, TCP228, MGC17164
17	CCL5	ENSG00000161570	ENST00000366113	protein_coding	PUTATIVE	CCDS11300	10632	276	91	34198495	34207797	-1	D17S136E, SCYA5	RANTES, SISd, TCP228, MGC17164
17	CCL5	ENSG00000161570	ENST00000463941	protein_coding	PUTATIVE	None	10632	451	149	34199006	34207295	-1	D17S136E, SCYA5	RANTES, SISd, TCP228, MGC17164
1	CYP4A22	ENSG00000162365	ENST00000490948	processed_transcript	KNOWN	None	20575	None	None	47603107	47614536	1	None	None
1	CYP4A22	ENSG00000162365	ENST00000485117	processed_transcript	KNOWN	None	20575	None	None	47603107	47614536	1	None	None
1	CYP4A22	ENSG00000162365	ENST00000371890	protein_coding	KNOWN	None	20575	1266	421	47603122	47614947	1	None	None
1	CYP4A22	ENSG00000162365	ENST00000294337	protein_coding	KNOWN	None	20575	1368	455	47603127	47612155	1	None	None
1	CYP4A22	ENSG00000162365	ENST00000371891	protein_coding	KNOWN	CCDS30707	20575	1560	519	47603127	47615413	1	None	None
3	NEK4	ENSG00000114904	ENST00000233027	protein_coding	KNOWN	CCDS2863	11399	2526	841	52744800	52804965	-1	STK2	NRK2, pp12301
3	NEK4	ENSG00000114904	ENST00000383721	protein_coding	PUTATIVE	None	11399	2346	781	52771514	52804955	-1	STK2	NRK2, pp12301
3	NEK4	ENSG00000114904	ENST00000461689	protein_coding	NOVEL	None	11399	2166	721	52771602	52804872	-1	STK2	NRK2, pp12301
3	NEK4	ENSG00000114904	ENST00000493199	retained_intron	KNOWN	None	11399	None	None	52777244	52780130	-1	STK2	NRK2, pp12301
3	NEK4	ENSG00000114904	ENST00000487068	nonsense_mediated_decay	KNOWN	None	11399	427	141	52780166	52786086	-1	STK2	NRK2, pp12301
3	NEK4	ENSG00000114904	ENST00000496822	nonsense_mediated_decay	KNOWN	None	11399	114	37	52800332	52804962	-1	STK2	NRK2, pp12301
3	NEK4	ENSG00000114904	ENST00000535191	protein_coding	KNOWN	CCDS54593	11399	2259	752	52745609	52804872	-1	STK2	NRK2, pp12301
2	ITGAV	ENSG00000138448	ENST00000261023	protein_coding	KNOWN	CCDS2292	6150	3147	1048	187454792	187545628	1	VNRA, MSK8, VTNR	CD51
2	ITGAV	ENSG00000138448	ENST00000374907	protein_coding	KNOWN	CCDS46470	6150	3039	1012	187454807	187545624	1	VNRA, MSK8, VTNR	CD51
2	ITGAV	ENSG00000138448	ENST00000433736	protein_coding	KNOWN	CCDS46471	6150	3009	1002	187464932	187542168	1	VNRA, MSK8, VTNR	CD51
2	ITGAV	ENSG00000138448	ENST00000460641	retained_intron	KNOWN	None	6150	None	None	187529853	187532747	1	VNRA, MSK8, VTNR	CD51
2	ITGAV	ENSG00000138448	ENST00000496477	retained_intron	KNOWN	None	6150	None	None	187532375	187540365	1	VNRA, MSK8, VTNR	CD51
2	ITGAV	ENSG00000138448	ENST00000496854	retained_intron	KNOWN	None	6150	None	None	187533251	187534641	1	VNRA, MSK8, VTNR	CD51
2	ITGAV	ENSG00000138448	ENST00000474571	processed_transcript	PUTATIVE	None	6150	None	None	187533572	187534684	1	VNRA, MSK8, VTNR	CD51
2	ITGAV	ENSG00000138448	ENST00000430709	protein_coding	PUTATIVE	None	6150	410	135	187533604	187541010	1	VNRA, MSK8, VTNR	CD51
3	MLH1	ENSG00000076242	ENST00000231790	protein_coding	KNOWN	CCDS2663	7127	2271	756	37034823	37092409	1	COCA2	HNPCC, FCC2, HNPCC2
3	MLH1	ENSG00000076242	ENST00000457004	nonsense_mediated_decay	KNOWN	None	7127	117	38	37035007	37055985	1	COCA2	HNPCC, FCC2, HNPCC2
3	MLH1	ENSG00000076242	ENST00000432299	nonsense_mediated_decay	KNOWN	None	7127	147	48	37035015	37053590	1	COCA2	HNPCC, FCC2, HNPCC2
3	MLH1	ENSG00000076242	ENST00000442249	nonsense_mediated_decay	KNOWN	None	7127	117	38	37035024	37053547	1	COCA2	HNPCC, FCC2, HNPCC2
3	MLH1	ENSG00000076242	ENST00000454028	nonsense_mediated_decay	KNOWN	None	7127	117	38	37035025	37053331	1	COCA2	HNPCC, FCC2, HNPCC2
3	MLH1	ENSG00000076242	ENST00000456676	protein_coding	NOVEL	None	7127	2039	678	37035064	37092335	1	COCA2	HNPCC, FCC2, HNPCC2
3	MLH1	ENSG00000076242	ENST00000458205	protein_coding	PUTATIVE	CCDS54563	7127	1548	515	37035267	37092337	1	COCA2	HNPCC, FCC2, HNPCC2
3	MLH1	ENSG00000076242	ENST00000476172	processed_transcript	KNOWN	None	7127	None	None	37035268	37042545	1	COCA2	HNPCC, FCC2, HNPCC2
3	MLH1	ENSG00000076242	ENST00000455445	protein_coding	PUTATIVE	CCDS54563	7127	1548	515	37035289	37092197	1	COCA2	HNPCC, FCC2, HNPCC2
3	MLH1	ENSG00000076242	ENST00000441265	protein_coding	NOVEL	None	7127	315	104	37035295	37061954	1	COCA2	HNPCC, FCC2, HNPCC2
3	MLH1	ENSG00000076242	ENST00000435176	protein_coding	NOVEL	CCDS54562	7127	1977	658	37035295	37092335	1	COCA2	HNPCC, FCC2, HNPCC2
3	MLH1	ENSG00000076242	ENST00000429117	protein_coding	NOVEL	None	7127	250	82	37035317	37050395	1	COCA2	HNPCC, FCC2, HNPCC2
3	MLH1	ENSG00000076242	ENST00000492474	processed_transcript	KNOWN	None	7127	None	None	37035317	37053331	1	COCA2	HNPCC, FCC2, HNPCC2
3	MLH1	ENSG00000076242	ENST00000466900	processed_transcript	KNOWN	None	7127	None	None	37035339	37050373	1	COCA2	HNPCC, FCC2, HNPCC2
3	MLH1	ENSG00000076242	ENST00000485889	processed_transcript	KNOWN	None	7127	None	None	37035718	37053327	1	COCA2	HNPCC, FCC2, HNPCC2
3	MLH1	ENSG00000076242	ENST00000447829	nonsense_mediated_decay	KNOWN	None	7127	176	57	37053533	37067410	1	COCA2	HNPCC, FCC2, HNPCC2
3	MLH1	ENSG00000076242	ENST00000458009	nonsense_mediated_decay	KNOWN	None	7127	286	94	37053573	37070338	1	COCA2	HNPCC, FCC2, HNPCC2
3	MLH1	ENSG00000076242	ENST00000413212	nonsense_mediated_decay	KNOWN	None	7127	157	51	37055923	37081727	1	COCA2	HNPCC, FCC2, HNPCC2
3	MLH1	ENSG00000076242	ENST00000450420	protein_coding	PUTATIVE	None	7127	186	61	37067467	37092028	1	COCA2	HNPCC, FCC2, HNPCC2
3	MLH1	ENSG00000076242	ENST00000413740	protein_coding	PUTATIVE	None	7127	342	113	37067467	37092028	1	COCA2	HNPCC, FCC2, HNPCC2
3	MLH1	ENSG00000076242	ENST00000536378	protein_coding	KNOWN	None	7127	1383	460	37035339	37107380	1	COCA2	HNPCC, FCC2, HNPCC2
3	MLH1	ENSG00000076242	ENST00000539477	protein_coding	KNOWN	CCDS54563	7127	1548	515	37035268	37092333	1	COCA2	HNPCC, FCC2, HNPCC2
1	S100A14	ENSG00000189334	ENST00000476873	protein_coding	KNOWN	CCDS1046	18901	315	104	153586731	153588414	-1	None	S100A15, BCMP84
1	S100A14	ENSG00000189334	ENST00000368701	protein_coding	KNOWN	CCDS1046	18901	315	104	153586731	153588765	-1	None	S100A15, BCMP84
1	S100A14	ENSG00000189334	ENST00000368702	protein_coding	KNOWN	CCDS1046	18901	315	104	153586731	153589462	-1	None	S100A15, BCMP84
1	S100A14	ENSG00000189334	ENST00000368700	processed_transcript	KNOWN	None	18901	None	None	153587253	153588740	-1	None	S100A15, BCMP84
1	S100A14	ENSG00000189334	ENST00000469571	processed_transcript	KNOWN	None	18901	None	None	153587394	153589403	-1	None	S100A15, BCMP84
1	S100A14	ENSG00000189334	ENST00000344616	protein_coding	KNOWN	CCDS1046	18901	315	104	153586757	153588790	-1	None	S100A15, BCMP84
X	SLC7A3	ENSG00000165349	ENST00000374299	protein_coding	KNOWN	CCDS14404	11061	1860	619	70145432	70150946	-1	None	CAT-3, ATRC3, FLJ14541
X	SLC7A3	ENSG00000165349	ENST00000298085	protein_coding	KNOWN	CCDS14404	11061	1860	619	70145438	70150975	-1	None	CAT-3, ATRC3, FLJ14541
9	FBXW5	ENSG00000159069	ENST00000487794	processed_transcript	KNOWN	None	13613	None	None	139834887	139837120	-1	None	DKFZP434B205, MGC20962, Fbw5
9	FBXW5	ENSG00000159069	ENST00000325285	protein_coding	KNOWN	CCDS7014	13613	1701	566	139834887	139839102	-1	None	DKFZP434B205, MGC20962, Fbw5
9	FBXW5	ENSG00000159069	ENST00000483559	processed_transcript	KNOWN	None	13613	None	None	139834887	139839140	-1	None	DKFZP434B205, MGC20962, Fbw5
9	FBXW5	ENSG00000159069	ENST00000459905	processed_transcript	KNOWN	None	13613	None	None	139834887	139839148	-1	None	DKFZP434B205, MGC20962, Fbw5
9	FBXW5	ENSG00000159069	ENST00000433269	protein_coding	KNOWN	None	13613	802	266	139835863	139837178	-1	None	DKFZP434B205, MGC20962, Fbw5
9	FBXW5	ENSG00000159069	ENST00000480818	processed_transcript	KNOWN	None	13613	None	None	139836999	139838607	-1	None	DKFZP434B205, MGC20962, Fbw5
9	FBXW5	ENSG00000159069	ENST00000491246	processed_transcript	KNOWN	None	13613	None	None	139836999	139839072	-1	None	DKFZP434B205, MGC20962, Fbw5
9	FBXW5	ENSG00000159069	ENST00000428398	protein_coding	KNOWN	None	13613	601	199	139837103	139839139	-1	None	DKFZP434B205, MGC20962, Fbw5
9	FBXW5	ENSG00000159069	ENST00000443788	protein_coding	KNOWN	None	13613	388	128	139837359	139838986	-1	None	DKFZP434B205, MGC20962, Fbw5
14	None	ENSG00000269375	ENST00000599197	protein_coding	KNOWN	None	None	351	116	101359265	101360646	1	None	None
1	PDZK1IP1	ENSG00000162366	ENST00000489919	processed_transcript	KNOWN	None	16887	None	None	47649265	47655679	-1	None	DD96, MAP17, SPAP
1	PDZK1IP1	ENSG00000162366	ENST00000294338	protein_coding	KNOWN	CCDS546	16887	345	114	47649265	47655727	-1	None	DD96, MAP17, SPAP
1	PDZK1IP1	ENSG00000162366	ENST00000491793	processed_transcript	KNOWN	None	16887	None	None	47649272	47651016	-1	None	DD96, MAP17, SPAP
1	PDZK1IP1	ENSG00000162366	ENST00000371885	protein_coding	KNOWN	CCDS546	16887	345	114	47649643	47656716	-1	None	DD96, MAP17, SPAP
8	SLURP1	ENSG00000126233	ENST00000246515	protein_coding	KNOWN	CCDS6387	18746	312	103	143822362	143823829	-1	None	ARS, ANUP, MDM, ArsB, LY6LS
1	S100A13	ENSG00000189171	ENST00000476133	processed_transcript	KNOWN	None	10490	None	None	153591263	153600724	-1	None	None
1	S100A13	ENSG00000189171	ENST00000339556	protein_coding	KNOWN	CCDS30874	10490	297	98	153591275	153600656	-1	None	None
1	S100A13	ENSG00000189171	ENST00000491177	processed_transcript	KNOWN	None	10490	None	None	153591284	153603836	-1	None	None
1	S100A13	ENSG00000189171	ENST00000368699	protein_coding	KNOWN	CCDS30874	10490	297	98	153591280	153606568	-1	None	None
1	S100A13	ENSG00000189171	ENST00000440685	protein_coding	KNOWN	CCDS30874	10490	297	98	153591280	153600715	-1	None	None
1	S100A13	ENSG00000189171	ENST00000392623	protein_coding	KNOWN	CCDS30874	10490	297	98	153591280	153599744	-1	None	None
1	S100A13	ENSG00000189171	ENST00000392622	protein_coding	KNOWN	CCDS30874	10490	297	98	153591280	153599524	-1	None	None
14	DIO3	ENSG00000197406	ENST00000510508	protein_coding	KNOWN	CCDS41992	2885	915	304	102027688	102029789	1	TXDI3	None
14	DIO3	ENSG00000197406	ENST00000359323	protein_coding	KNOWN	None	2885	837	278	102027688	102029789	1	TXDI3	None
14	None	ENSG00000258512	ENST00000556973	protein_coding	PUTATIVE	None	None	345	114	102196774	102198859	1	None	None
7	ESYT2	ENSG00000117868	ENST00000251527	protein_coding	KNOWN	CCDS34791	22211	2682	893	158523686	158622319	-1	FAM62B	KIAA1228, CHR2SYT
7	ESYT2	ENSG00000117868	ENST00000275418	protein_coding	NOVEL	None	22211	2655	884	158526302	158622163	-1	FAM62B	KIAA1228, CHR2SYT
7	ESYT2	ENSG00000117868	ENST00000435514	protein_coding	KNOWN	None	22211	987	328	158526304	158536908	-1	FAM62B	KIAA1228, CHR2SYT
7	ESYT2	ENSG00000117868	ENST00000483958	processed_transcript	KNOWN	None	22211	None	None	158566058	158620332	-1	FAM62B	KIAA1228, CHR2SYT
7	ESYT2	ENSG00000117868	ENST00000497111	processed_transcript	KNOWN	None	22211	None	None	158586365	158622944	-1	FAM62B	KIAA1228, CHR2SYT
19	HAUS5	ENSG00000249115	ENST00000587439	nonsense_mediated_decay	KNOWN	None	29130	873	290	36103646	36114511	1	KIAA0841	dgt5
19	HAUS5	ENSG00000249115	ENST00000588570	retained_intron	KNOWN	None	29130	None	None	36103654	36105043	1	KIAA0841	dgt5
19	HAUS5	ENSG00000249115	ENST00000585968	retained_intron	KNOWN	None	29130	None	None	36103654	36114459	1	KIAA0841	dgt5
19	HAUS5	ENSG00000249115	ENST00000424522	nonsense_mediated_decay	KNOWN	None	29130	270	89	36103665	36116251	1	KIAA0841	dgt5
19	HAUS5	ENSG00000249115	ENST00000203166	protein_coding	KNOWN	CCDS42550	29130	1902	633	36103672	36116251	1	KIAA0841	dgt5
19	HAUS5	ENSG00000249115	ENST00000592291	nonsense_mediated_decay	KNOWN	None	29130	183	60	36103673	36106244	1	KIAA0841	dgt5
19	HAUS5	ENSG00000249115	ENST00000428854	retained_intron	KNOWN	None	29130	None	None	36103702	36116251	1	KIAA0841	dgt5
19	HAUS5	ENSG00000249115	ENST00000430749	retained_intron	KNOWN	None	29130	None	None	36110846	36113786	1	KIAA0841	dgt5
19	HAUS5	ENSG00000249115	ENST00000590994	protein_coding	PUTATIVE	None	29130	507	168	36110960	36114510	1	KIAA0841	dgt5
19	HAUS5	ENSG00000249115	ENST00000379045	protein_coding	KNOWN	None	29130	873	290	36103674	36114511	1	KIAA0841	dgt5
8	MTERFD1	ENSG00000156469	ENST00000523821	protein_coding	NOVEL	None	24258	1086	361	97251626	97273838	-1	None	CGI-12, FLJ10939
8	MTERFD1	ENSG00000156469	ENST00000522822	protein_coding	PUTATIVE	None	24258	891	296	97251652	97269503	-1	None	CGI-12, FLJ10939
8	MTERFD1	ENSG00000156469	ENST00000524341	protein_coding	PUTATIVE	None	24258	522	173	97251657	97269298	-1	None	CGI-12, FLJ10939
8	MTERFD1	ENSG00000156469	ENST00000287025	protein_coding	KNOWN	CCDS6270	24258	1254	417	97251663	97273817	-1	None	CGI-12, FLJ10939
8	MTERFD1	ENSG00000156469	ENST00000517720	protein_coding	PUTATIVE	None	24258	203	66	97270716	97273816	-1	None	CGI-12, FLJ10939
1	TAL1	ENSG00000162367	ENST00000371884	protein_coding	KNOWN	CCDS547	11556	996	331	47681962	47697387	-1	TCL5	SCL, bHLHa17
1	TAL1	ENSG00000162367	ENST00000294339	protein_coding	KNOWN	CCDS547	11556	996	331	47681964	47695443	-1	TCL5	SCL, bHLHa17
1	TAL1	ENSG00000162367	ENST00000459729	processed_transcript	KNOWN	None	11556	None	None	47684360	47689748	-1	TCL5	SCL, bHLHa17
1	TAL1	ENSG00000162367	ENST00000464796	processed_transcript	KNOWN	None	11556	None	None	47689744	47697892	-1	TCL5	SCL, bHLHa17
1	TAL1	ENSG00000162367	ENST00000481091	processed_transcript	KNOWN	None	11556	None	None	47694019	47696890	-1	TCL5	SCL, bHLHa17
1	TAL1	ENSG00000162367	ENST00000465912	processed_transcript	KNOWN	None	11556	None	None	47694020	47695125	-1	TCL5	SCL, bHLHa17
1	TAL1	ENSG00000162367	ENST00000371883	protein_coding	KNOWN	None	11556	1002	333	47681963	47695443	-1	TCL5	SCL, bHLHa17
8	LYPD2	ENSG00000197353	ENST00000359228	protein_coding	KNOWN	CCDS6388	25215	378	125	143831568	143833952	-1	LYPDC2	RGTR430, UNQ430
15	LYSMD2	ENSG00000140280	ENST00000267838	protein_coding	KNOWN	CCDS10143	28571	648	215	52015208	52030334	-1	None	MGC35274
15	LYSMD2	ENSG00000140280	ENST00000454181	protein_coding	KNOWN	CCDS45259	28571	375	124	52015266	52043782	-1	None	MGC35274
15	LYSMD2	ENSG00000140280	ENST00000560491	protein_coding	KNOWN	CCDS45259	28571	375	124	52015435	52030318	-1	None	MGC35274
15	LYSMD2	ENSG00000140280	ENST00000558126	protein_coding	PUTATIVE	None	28571	327	108	52015441	52043634	-1	None	MGC35274
1	S100A1	ENSG00000160678	ENST00000368698	protein_coding	KNOWN	None	10486	444	147	153600402	153604510	1	S100A	S100-alpha
1	S100A1	ENSG00000160678	ENST00000469893	processed_transcript	KNOWN	None	10486	None	None	153600860	153604513	1	S100A	S100-alpha
1	S100A1	ENSG00000160678	ENST00000292169	protein_coding	KNOWN	CCDS1047	10486	285	94	153600873	153604513	1	S100A	S100-alpha
1	S100A1	ENSG00000160678	ENST00000368696	protein_coding	KNOWN	None	10486	162	53	153600898	153604280	1	S100A	S100-alpha
1	S100A1	ENSG00000160678	ENST00000436839	protein_coding	KNOWN	None	10486	104	33	153600940	153603101	1	S100A	S100-alpha
1	CAPN2	ENSG00000162909	ENST00000434648	protein_coding	KNOWN	None	1479	393	130	223889347	223934765	1	None	mCANP, CANPml, CANPL2
1	CAPN2	ENSG00000162909	ENST00000295006	protein_coding	KNOWN	CCDS31035	1479	2103	700	223900034	223963720	1	None	mCANP, CANPml, CANPL2
1	CAPN2	ENSG00000162909	ENST00000483579	processed_transcript	KNOWN	None	1479	None	None	223934810	223937178	1	None	mCANP, CANPml, CANPL2
1	CAPN2	ENSG00000162909	ENST00000480581	processed_transcript	KNOWN	None	1479	None	None	223939721	223945199	1	None	mCANP, CANPml, CANPL2
1	CAPN2	ENSG00000162909	ENST00000474026	processed_transcript	KNOWN	None	1479	None	None	223945326	223963720	1	None	mCANP, CANPml, CANPL2
1	CAPN2	ENSG00000162909	ENST00000487223	processed_transcript	KNOWN	None	1479	None	None	223945928	223963720	1	None	mCANP, CANPml, CANPL2
1	CAPN2	ENSG00000162909	ENST00000492565	processed_transcript	KNOWN	None	1479	None	None	223947136	223951909	1	None	mCANP, CANPml, CANPL2
1	CAPN2	ENSG00000162909	ENST00000472601	processed_transcript	KNOWN	None	1479	None	None	223957543	223960412	1	None	mCANP, CANPml, CANPL2
1	CAPN2	ENSG00000162909	ENST00000498027	processed_transcript	KNOWN	None	1479	None	None	223958017	223960959	1	None	mCANP, CANPml, CANPL2
1	CAPN2	ENSG00000162909	ENST00000492664	processed_transcript	KNOWN	None	1479	None	None	223958115	223960412	1	None	mCANP, CANPml, CANPL2
1	CAPN2	ENSG00000162909	ENST00000463997	processed_transcript	KNOWN	None	1479	None	None	223958325	223963720	1	None	mCANP, CANPml, CANPL2
1	CAPN2	ENSG00000162909	ENST00000433674	protein_coding	KNOWN	CCDS53478	1479	1869	622	223889295	223963718	1	None	mCANP, CANPml, CANPL2
14	MYH6	ENSG00000197616	ENST00000356287	protein_coding	KNOWN	CCDS9600	7576	5820	1939	23851228	23876801	-1	None	None
14	MYH6	ENSG00000197616	ENST00000557461	retained_intron	KNOWN	None	7576	None	None	23868921	23876825	-1	None	None
14	MYH6	ENSG00000197616	ENST00000405093	protein_coding	KNOWN	CCDS9600	7576	5820	1939	23851199	23877486	-1	None	None
7	EPHB4	ENSG00000196411	ENST00000360620	protein_coding	NOVEL	None	3395	2808	935	100400187	100424737	-1	HTK	Tyro11
7	EPHB4	ENSG00000196411	ENST00000358173	protein_coding	KNOWN	CCDS5706	3395	2964	987	100400187	100425121	-1	HTK	Tyro11
7	EPHB4	ENSG00000196411	ENST00000487222	retained_intron	KNOWN	None	3395	None	None	100400190	100423148	-1	HTK	Tyro11
7	EPHB4	ENSG00000196411	ENST00000492403	retained_intron	KNOWN	None	3395	None	None	100403595	100405201	-1	HTK	Tyro11
7	EPHB4	ENSG00000196411	ENST00000478459	retained_intron	KNOWN	None	3395	None	None	100404040	100411710	-1	HTK	Tyro11
7	EPHB4	ENSG00000196411	ENST00000467515	retained_intron	KNOWN	None	3395	None	None	100404987	100410961	-1	HTK	Tyro11
7	EPHB4	ENSG00000196411	ENST00000477446	processed_transcript	KNOWN	None	3395	None	None	100411611	100424652	-1	HTK	Tyro11
7	EPHB4	ENSG00000196411	ENST00000489808	processed_transcript	KNOWN	None	3395	None	None	100414867	100424652	-1	HTK	Tyro11
7	EPHB4	ENSG00000196411	ENST00000492878	retained_intron	KNOWN	None	3395	None	None	100416173	100418104	-1	HTK	Tyro11
2	FAM171B	ENSG00000144369	ENST00000304698	protein_coding	KNOWN	CCDS33347	29412	2481	826	187558698	187630685	1	KIAA1946	FLJ34104
5	PDE8B	ENSG00000113231	ENST00000505926	protein_coding	PUTATIVE	None	8794	350	115	76506274	76627298	1	None	None
5	PDE8B	ENSG00000113231	ENST00000340978	protein_coding	KNOWN	CCDS34191	8794	2517	838	76506706	76723243	1	None	None
5	PDE8B	ENSG00000113231	ENST00000346042	protein_coding	KNOWN	CCDS34192	8794	2367	788	76506706	76723243	1	None	None
5	PDE8B	ENSG00000113231	ENST00000264917	protein_coding	KNOWN	CCDS4037	8794	2658	885	76506706	76725632	1	None	None
5	PDE8B	ENSG00000113231	ENST00000342343	protein_coding	KNOWN	CCDS34193	8794	2598	865	76506751	76722458	1	None	None
5	PDE8B	ENSG00000113231	ENST00000333194	protein_coding	KNOWN	CCDS34190	8794	2493	830	76506751	76722458	1	None	None
5	PDE8B	ENSG00000113231	ENST00000502945	protein_coding	PUTATIVE	None	8794	336	111	76509769	76627284	1	None	None
5	PDE8B	ENSG00000113231	ENST00000503963	protein_coding	PUTATIVE	None	8794	357	118	76621518	76646943	1	None	None
5	PDE8B	ENSG00000113231	ENST00000505283	protein_coding	KNOWN	None	8794	1053	350	76706249	76724020	1	None	None
6	DOPEY1	ENSG00000083097	ENST00000349129	protein_coding	KNOWN	CCDS4996	21194	7398	2465	83777385	83878438	1	KIAA1117	dJ202D23.2
6	DOPEY1	ENSG00000083097	ENST00000369739	protein_coding	NOVEL	None	21194	7431	2476	83806448	83878050	1	KIAA1117	dJ202D23.2
6	DOPEY1	ENSG00000083097	ENST00000604380	protein_coding	NOVEL	None	21194	511	169	83832582	83838647	1	KIAA1117	dJ202D23.2
6	DOPEY1	ENSG00000083097	ENST00000493541	retained_intron	KNOWN	None	21194	None	None	83839933	83844199	1	KIAA1117	dJ202D23.2
6	DOPEY1	ENSG00000083097	ENST00000484282	processed_transcript	KNOWN	None	21194	None	None	83847395	83881069	1	KIAA1117	dJ202D23.2
6	DOPEY1	ENSG00000083097	ENST00000481979	retained_intron	KNOWN	None	21194	None	None	83863111	83863992	1	KIAA1117	dJ202D23.2
6	DOPEY1	ENSG00000083097	ENST00000237163	protein_coding	KNOWN	None	21194	7110	2369	83777385	83878127	1	KIAA1117	dJ202D23.2
6	DOPEY1	ENSG00000083097	ENST00000536812	protein_coding	KNOWN	None	21194	690	229	83777390	83832250	1	KIAA1117	dJ202D23.2
2	ZSWIM2	ENSG00000163012	ENST00000295131	protein_coding	KNOWN	CCDS33348	30990	1902	633	187692562	187713897	-1	None	MGC33890, ZZZ2
2	ZSWIM2	ENSG00000163012	ENST00000419862	nonsense_mediated_decay	KNOWN	None	30990	246	81	187709480	187713935	-1	None	MGC33890, ZZZ2
1	CHTOP	ENSG00000160679	ENST00000368694	protein_coding	KNOWN	CCDS1048	24511	747	248	153606525	153618782	1	C1orf77	DKFZP547E1010, SRAG, FOP
1	CHTOP	ENSG00000160679	ENST00000495554	processed_transcript	KNOWN	None	24511	None	None	153606551	153617946	1	C1orf77	DKFZP547E1010, SRAG, FOP
1	CHTOP	ENSG00000160679	ENST00000403433	protein_coding	KNOWN	None	24511	609	202	153606556	153618778	1	C1orf77	DKFZP547E1010, SRAG, FOP
1	CHTOP	ENSG00000160679	ENST00000368687	protein_coding	KNOWN	None	24511	672	223	153610560	153617946	1	C1orf77	DKFZP547E1010, SRAG, FOP
1	CHTOP	ENSG00000160679	ENST00000368686	protein_coding	KNOWN	None	24511	306	101	153610818	153616861	1	C1orf77	DKFZP547E1010, SRAG, FOP
1	CHTOP	ENSG00000160679	ENST00000368690	protein_coding	KNOWN	None	24511	609	202	153609065	153617946	1	C1orf77	DKFZP547E1010, SRAG, FOP
8	HGSNAT	ENSG00000165102	ENST00000379644	protein_coding	KNOWN	CCDS47852	26527	1908	635	42995598	43057998	1	TMEM76	FLJ32731, HGNAT
8	HGSNAT	ENSG00000165102	ENST00000517319	nonsense_mediated_decay	KNOWN	None	26527	294	97	42995640	43023151	1	TMEM76	FLJ32731, HGNAT
8	HGSNAT	ENSG00000165102	ENST00000520704	nonsense_mediated_decay	KNOWN	None	26527	519	172	42995647	43029375	1	TMEM76	FLJ32731, HGNAT
8	HGSNAT	ENSG00000165102	ENST00000522082	protein_coding	PUTATIVE	None	26527	552	183	43027461	43046732	1	TMEM76	FLJ32731, HGNAT
8	HGSNAT	ENSG00000165102	ENST00000524016	protein_coding	PUTATIVE	None	26527	757	251	43033262	43052168	1	TMEM76	FLJ32731, HGNAT
8	HGSNAT	ENSG00000165102	ENST00000521576	protein_coding	PUTATIVE	None	26527	1059	352	43035432	43055698	1	TMEM76	FLJ32731, HGNAT
8	HGSNAT	ENSG00000165102	ENST00000519000	retained_intron	KNOWN	None	26527	None	None	43036790	43046723	1	TMEM76	FLJ32731, HGNAT
8	HGSNAT	ENSG00000165102	ENST00000520678	retained_intron	KNOWN	None	26527	None	None	43037343	43049294	1	TMEM76	FLJ32731, HGNAT
8	HGSNAT	ENSG00000165102	ENST00000523989	retained_intron	KNOWN	None	26527	None	None	43050960	43053050	1	TMEM76	FLJ32731, HGNAT
8	HGSNAT	ENSG00000165102	ENST00000519705	retained_intron	KNOWN	None	26527	None	None	43051311	43055001	1	TMEM76	FLJ32731, HGNAT
8	HGSNAT	ENSG00000165102	ENST00000458501	protein_coding	KNOWN	None	26527	1992	663	42995556	43057969	1	TMEM76	FLJ32731, HGNAT
8	HGSNAT	ENSG00000165102	ENST00000297798	protein_coding	KNOWN	None	26527	1104	367	43035432	43055690	1	TMEM76	FLJ32731, HGNAT
9	RN7SL25P	ENSG00000264530	ENST00000583862	misc_RNA	KNOWN	None	46041	None	None	6542094	6542350	1	None	None
9	None	ENSG00000252110	ENST00000516301	snoRNA	NOVEL	None	None	None	None	6566332	6566425	-1	None	None
9	None	ENSG00000237158	ENST00000451028	processed_pseudogene	KNOWN	None	None	None	None	6568844	6569360	1	None	None
9	None	ENSG00000206147	ENST00000332361	processed_pseudogene	KNOWN	None	None	None	None	6639139	6639604	1	None	None
9	None	ENSG00000236924	ENST00000413145	lincRNA	KNOWN	None	None	None	None	6645956	6670635	1	None	None
2	CALCRL	ENSG00000064989	ENST00000392370	protein_coding	KNOWN	CCDS2293	16709	1386	461	188207856	188313187	-1	None	CGRPR, CRLR
2	CALCRL	ENSG00000064989	ENST00000409998	protein_coding	KNOWN	CCDS2293	16709	1386	461	188207856	188313187	-1	None	CGRPR, CRLR
2	CALCRL	ENSG00000064989	ENST00000410068	protein_coding	KNOWN	CCDS2293	16709	1386	461	188210654	188312979	-1	None	CGRPR, CRLR
2	CALCRL	ENSG00000064989	ENST00000447403	protein_coding	KNOWN	None	16709	233	76	188245466	188312979	-1	None	CGRPR, CRLR
2	CALCRL	ENSG00000064989	ENST00000410102	protein_coding	KNOWN	None	16709	113	36	188247971	188312979	-1	None	CGRPR, CRLR
2	CALCRL	ENSG00000064989	ENST00000474212	processed_transcript	KNOWN	None	16709	None	None	188252065	188312979	-1	None	CGRPR, CRLR
2	CALCRL	ENSG00000064989	ENST00000485973	retained_intron	KNOWN	None	16709	None	None	188252126	188312980	-1	None	CGRPR, CRLR
2	CALCRL	ENSG00000064989	ENST00000461244	processed_transcript	KNOWN	None	16709	None	None	188252393	188312979	-1	None	CGRPR, CRLR
2	CALCRL	ENSG00000064989	ENST00000479784	processed_transcript	KNOWN	None	16709	None	None	188293064	188312873	-1	None	CGRPR, CRLR
12	CSAD	ENSG00000139631	ENST00000267085	protein_coding	KNOWN	CCDS8848	18966	1563	520	53551447	53574380	-1	None	PCAP, CSD
12	CSAD	ENSG00000139631	ENST00000475890	nonsense_mediated_decay	KNOWN	None	18966	804	267	53551473	53567554	-1	None	PCAP, CSD
12	CSAD	ENSG00000139631	ENST00000379850	protein_coding	NOVEL	None	18966	1558	518	53551474	53574380	-1	None	PCAP, CSD
12	CSAD	ENSG00000139631	ENST00000379846	protein_coding	KNOWN	None	18966	1041	346	53551478	53574380	-1	None	PCAP, CSD
12	CSAD	ENSG00000139631	ENST00000444623	protein_coding	KNOWN	CCDS58235	18966	1482	493	53551923	53574693	-1	None	PCAP, CSD
12	CSAD	ENSG00000139631	ENST00000453446	protein_coding	NOVEL	CCDS58235	18966	1482	493	53552295	53574430	-1	None	PCAP, CSD
12	CSAD	ENSG00000139631	ENST00000490923	retained_intron	KNOWN	None	18966	None	None	53553671	53564496	-1	None	PCAP, CSD
12	CSAD	ENSG00000139631	ENST00000490589	retained_intron	KNOWN	None	18966	None	None	53554061	53564160	-1	None	PCAP, CSD
12	CSAD	ENSG00000139631	ENST00000485004	retained_intron	KNOWN	None	18966	None	None	53554075	53564674	-1	None	PCAP, CSD
12	CSAD	ENSG00000139631	ENST00000548698	protein_coding	PUTATIVE	None	18966	406	134	53554948	53567554	-1	None	PCAP, CSD
12	CSAD	ENSG00000139631	ENST00000483632	nonsense_mediated_decay	KNOWN	None	18966	429	142	53555106	53567158	-1	None	PCAP, CSD
12	CSAD	ENSG00000139631	ENST00000472908	retained_intron	KNOWN	None	18966	None	None	53558406	53564437	-1	None	PCAP, CSD
12	CSAD	ENSG00000139631	ENST00000454442	processed_transcript	KNOWN	None	18966	None	None	53563855	53566155	-1	None	PCAP, CSD
12	CSAD	ENSG00000139631	ENST00000424845	nonsense_mediated_decay	KNOWN	None	18966	138	45	53563855	53567574	-1	None	PCAP, CSD
12	CSAD	ENSG00000139631	ENST00000437073	protein_coding	PUTATIVE	None	18966	489	162	53565188	53574430	-1	None	PCAP, CSD
12	CSAD	ENSG00000139631	ENST00000491654	processed_transcript	KNOWN	None	18966	None	None	53565449	53567276	-1	None	PCAP, CSD
12	CSAD	ENSG00000139631	ENST00000424990	protein_coding	PUTATIVE	None	18966	438	145	53565679	53574382	-1	None	PCAP, CSD
12	CSAD	ENSG00000139631	ENST00000498635	protein_coding	KNOWN	None	18966	387	128	53565730	53567703	-1	None	PCAP, CSD
12	CSAD	ENSG00000139631	ENST00000461392	retained_intron	KNOWN	None	18966	None	None	53567053	53567728	-1	None	PCAP, CSD
12	CSAD	ENSG00000139631	ENST00000379843	protein_coding	KNOWN	None	18966	1041	346	53551448	53574430	-1	None	PCAP, CSD
12	CSAD	ENSG00000139631	ENST00000542115	protein_coding	KNOWN	None	18966	459	152	53565114	53575135	-1	None	PCAP, CSD
1	SNAPIN	ENSG00000143553	ENST00000368685	protein_coding	KNOWN	CCDS1049	17145	411	136	153631130	153634306	1	SNAPAP	BLOC1S7
1	SNAPIN	ENSG00000143553	ENST00000474959	processed_transcript	KNOWN	None	17145	None	None	153631188	153633726	1	SNAPAP	BLOC1S7
1	SNAPIN	ENSG00000143553	ENST00000462880	processed_transcript	KNOWN	None	17145	None	None	153631190	153634305	1	SNAPAP	BLOC1S7
1	SNAPIN	ENSG00000143553	ENST00000478558	processed_transcript	KNOWN	None	17145	None	None	153631203	153634040	1	SNAPAP	BLOC1S7
1	STIL	ENSG00000123473	ENST00000360380	protein_coding	KNOWN	CCDS548	10879	3864	1287	47715811	47779819	-1	SIL	MCPH7
1	STIL	ENSG00000123473	ENST00000371877	protein_coding	KNOWN	CCDS41329	10879	3867	1288	47715814	47779812	-1	SIL	MCPH7
1	STIL	ENSG00000123473	ENST00000396221	protein_coding	NOVEL	None	10879	3813	1270	47716294	47778807	-1	SIL	MCPH7
1	STIL	ENSG00000123473	ENST00000447475	protein_coding	NOVEL	None	10879	2755	917	47726091	47779819	-1	SIL	MCPH7
1	STIL	ENSG00000123473	ENST00000418131	retained_intron	KNOWN	None	10879	None	None	47726102	47749745	-1	SIL	MCPH7
1	STIL	ENSG00000123473	ENST00000436811	protein_coding	NOVEL	None	10879	633	210	47735307	47746729	-1	SIL	MCPH7
1	STIL	ENSG00000123473	ENST00000433827	retained_intron	KNOWN	None	10879	None	None	47765449	47767397	-1	SIL	MCPH7
1	STIL	ENSG00000123473	ENST00000413565	protein_coding	PUTATIVE	None	10879	277	91	47767906	47770989	-1	SIL	MCPH7
1	STIL	ENSG00000123473	ENST00000337817	protein_coding	KNOWN	CCDS548	10879	3864	1287	47715811	47779819	-1	SIL	MCPH7
1	STIL	ENSG00000123473	ENST00000243182	protein_coding	KNOWN	CCDS548	10879	3864	1287	47716294	47778807	-1	SIL	MCPH7
11	PPFIBP2	ENSG00000166387	ENST00000526873	protein_coding	KNOWN	None	9250	268	88	7534529	7586987	1	None	Cclp1
11	PPFIBP2	ENSG00000166387	ENST00000528947	protein_coding	KNOWN	None	9250	268	88	7534999	7586987	1	None	Cclp1
11	PPFIBP2	ENSG00000166387	ENST00000299492	protein_coding	KNOWN	CCDS31419	9250	2631	876	7535001	7674987	1	None	Cclp1
11	PPFIBP2	ENSG00000166387	ENST00000527790	protein_coding	KNOWN	None	9250	512	169	7559508	7631547	1	None	Cclp1
11	PPFIBP2	ENSG00000166387	ENST00000526046	protein_coding	KNOWN	None	9250	210	69	7560409	7586929	1	None	Cclp1
11	PPFIBP2	ENSG00000166387	ENST00000524548	protein_coding	NOVEL	None	9250	407	134	7586856	7619534	1	None	Cclp1
11	PPFIBP2	ENSG00000166387	ENST00000529575	protein_coding	PUTATIVE	None	9250	467	154	7595136	7650742	1	None	Cclp1
11	PPFIBP2	ENSG00000166387	ENST00000533792	protein_coding	PUTATIVE	None	9250	2157	718	7597639	7674991	1	None	Cclp1
11	PPFIBP2	ENSG00000166387	ENST00000532926	processed_transcript	KNOWN	None	9250	None	None	7597998	7674984	1	None	Cclp1
11	PPFIBP2	ENSG00000166387	ENST00000525597	protein_coding	PUTATIVE	None	9250	260	85	7598271	7647030	1	None	Cclp1
11	PPFIBP2	ENSG00000166387	ENST00000529021	processed_transcript	KNOWN	None	9250	None	None	7598348	7678208	1	None	Cclp1
11	PPFIBP2	ENSG00000166387	ENST00000528883	protein_coding	PUTATIVE	CCDS58116	9250	2295	764	7618417	7674582	1	None	Cclp1
11	PPFIBP2	ENSG00000166387	ENST00000529321	retained_intron	KNOWN	None	9250	None	None	7618468	7619712	1	None	Cclp1
11	PPFIBP2	ENSG00000166387	ENST00000530189	retained_intron	KNOWN	None	9250	None	None	7618818	7631754	1	None	Cclp1
11	PPFIBP2	ENSG00000166387	ENST00000530181	protein_coding	PUTATIVE	CCDS58117	9250	2202	733	7626969	7674991	1	None	Cclp1
11	PPFIBP2	ENSG00000166387	ENST00000532416	retained_intron	KNOWN	None	9250	None	None	7647042	7652474	1	None	Cclp1
11	PPFIBP2	ENSG00000166387	ENST00000534409	protein_coding	NOVEL	None	9250	673	223	7652154	7663613	1	None	Cclp1
11	PPFIBP2	ENSG00000166387	ENST00000530582	processed_transcript	KNOWN	None	9250	None	None	7652230	7678358	1	None	Cclp1
11	PPFIBP2	ENSG00000166387	ENST00000532381	retained_intron	KNOWN	None	9250	None	None	7653577	7661042	1	None	Cclp1
11	PPFIBP2	ENSG00000166387	ENST00000530081	protein_coding	NOVEL	None	9250	545	180	7654098	7663573	1	None	Cclp1
11	PPFIBP2	ENSG00000166387	ENST00000532172	retained_intron	KNOWN	None	9250	None	None	7660963	7663387	1	None	Cclp1
11	PPFIBP2	ENSG00000166387	ENST00000524495	processed_transcript	KNOWN	None	9250	None	None	7663610	7672127	1	None	Cclp1
11	PPFIBP2	ENSG00000166387	ENST00000532112	retained_intron	KNOWN	None	9250	None	None	7669339	7670403	1	None	Cclp1
11	PPFIBP2	ENSG00000166387	ENST00000528929	retained_intron	KNOWN	None	9250	None	None	7670441	7672229	1	None	Cclp1
11	PPFIBP2	ENSG00000166387	ENST00000529664	retained_intron	KNOWN	None	9250	None	None	7671980	7674999	1	None	Cclp1
11	PPFIBP2	ENSG00000166387	ENST00000534552	protein_coding	PUTATIVE	None	9250	448	148	7672946	7674987	1	None	Cclp1
4	None	ENSG00000231171	ENST00000507870	protein_coding	PUTATIVE	None	None	330	109	178649911	178911904	1	None	None
1	TP53BP2	ENSG00000143514	ENST00000391878	protein_coding	KNOWN	CCDS1538	12000	3018	1005	223967601	224033632	-1	None	PPP1R13A, ASPP2, 53BP2
1	TP53BP2	ENSG00000143514	ENST00000343537	protein_coding	KNOWN	CCDS44319	12000	3405	1134	223967601	224033674	-1	None	PPP1R13A, ASPP2, 53BP2
1	TP53BP2	ENSG00000143514	ENST00000483398	nonsense_mediated_decay	KNOWN	None	12000	194	63	223968347	223988428	-1	None	PPP1R13A, ASPP2, 53BP2
1	TP53BP2	ENSG00000143514	ENST00000498843	processed_transcript	KNOWN	None	12000	None	None	223968491	223990438	-1	None	PPP1R13A, ASPP2, 53BP2
1	TP53BP2	ENSG00000143514	ENST00000494100	protein_coding	PUTATIVE	None	12000	701	232	223983540	224002030	-1	None	PPP1R13A, ASPP2, 53BP2
1	TP53BP2	ENSG00000143514	ENST00000464656	nonsense_mediated_decay	KNOWN	None	12000	194	63	223983876	223988428	-1	None	PPP1R13A, ASPP2, 53BP2
1	TP53BP2	ENSG00000143514	ENST00000489310	processed_transcript	KNOWN	None	12000	None	None	223987619	223990433	-1	None	PPP1R13A, ASPP2, 53BP2
1	TP53BP2	ENSG00000143514	ENST00000490896	retained_intron	KNOWN	None	12000	None	None	223988478	223990359	-1	None	PPP1R13A, ASPP2, 53BP2
1	TP53BP2	ENSG00000143514	ENST00000481128	processed_transcript	KNOWN	None	12000	None	None	223989641	223991032	-1	None	PPP1R13A, ASPP2, 53BP2
1	TP53BP2	ENSG00000143514	ENST00000464172	retained_intron	KNOWN	None	12000	None	None	223990003	223990925	-1	None	PPP1R13A, ASPP2, 53BP2
1	TP53BP2	ENSG00000143514	ENST00000496282	processed_transcript	KNOWN	None	12000	None	None	223991937	224008838	-1	None	PPP1R13A, ASPP2, 53BP2
1	TP53BP2	ENSG00000143514	ENST00000473135	processed_transcript	KNOWN	None	12000	None	None	223994613	224013771	-1	None	PPP1R13A, ASPP2, 53BP2
1	TP53BP2	ENSG00000143514	ENST00000465119	nonsense_mediated_decay	KNOWN	None	12000	144	47	223998166	224033656	-1	None	PPP1R13A, ASPP2, 53BP2
1	TP53BP2	ENSG00000143514	ENST00000472180	processed_transcript	KNOWN	None	12000	None	None	224001878	224033496	-1	None	PPP1R13A, ASPP2, 53BP2
1	TP53BP2	ENSG00000143514	ENST00000391879	protein_coding	KNOWN	None	12000	1104	367	223968347	223988428	-1	None	PPP1R13A, ASPP2, 53BP2
2	TRAPPC12	ENSG00000171853	ENST00000382110	protein_coding	KNOWN	CCDS1652	24284	2208	735	3383446	3483338	1	TTC15	CGI-87, TTC-15
2	TRAPPC12	ENSG00000171853	ENST00000324266	protein_coding	KNOWN	CCDS1652	24284	2208	735	3383457	3483337	1	TTC15	CGI-87, TTC-15
2	TRAPPC12	ENSG00000171853	ENST00000482645	retained_intron	KNOWN	None	24284	None	None	3383491	3392771	1	TTC15	CGI-87, TTC-15
2	TRAPPC12	ENSG00000171853	ENST00000411973	nonsense_mediated_decay	KNOWN	None	24284	667	221	3391898	3425741	1	TTC15	CGI-87, TTC-15
2	TRAPPC12	ENSG00000171853	ENST00000457845	nonsense_mediated_decay	KNOWN	None	24284	217	71	3393457	3447577	1	TTC15	CGI-87, TTC-15
2	TRAPPC12	ENSG00000171853	ENST00000441983	protein_coding	PUTATIVE	None	24284	683	226	3393465	3464074	1	TTC15	CGI-87, TTC-15
2	TRAPPC12	ENSG00000171853	ENST00000417243	nonsense_mediated_decay	KNOWN	None	24284	637	211	3425654	3483338	1	TTC15	CGI-87, TTC-15
2	TRAPPC12	ENSG00000171853	ENST00000469147	processed_transcript	KNOWN	None	24284	None	None	3428369	3471777	1	TTC15	CGI-87, TTC-15
2	TRAPPC12	ENSG00000171853	ENST00000441099	nonsense_mediated_decay	KNOWN	None	24284	191	62	3428390	3461952	1	TTC15	CGI-87, TTC-15
2	TRAPPC12	ENSG00000171853	ENST00000433382	retained_intron	KNOWN	None	24284	None	None	3447497	3482642	1	TTC15	CGI-87, TTC-15
2	TRAPPC12	ENSG00000171853	ENST00000462983	processed_transcript	KNOWN	None	24284	None	None	3447563	3464713	1	TTC15	CGI-87, TTC-15
2	TRAPPC12	ENSG00000171853	ENST00000479897	retained_intron	KNOWN	None	24284	None	None	3447567	3469578	1	TTC15	CGI-87, TTC-15
2	TRAPPC12	ENSG00000171853	ENST00000415624	protein_coding	PUTATIVE	None	24284	705	234	3447639	3483342	1	TTC15	CGI-87, TTC-15
2	TRAPPC12	ENSG00000171853	ENST00000479955	processed_transcript	KNOWN	None	24284	None	None	3452967	3464098	1	TTC15	CGI-87, TTC-15
2	TRAPPC12	ENSG00000171853	ENST00000497597	retained_intron	KNOWN	None	24284	None	None	3458383	3483337	1	TTC15	CGI-87, TTC-15
2	TRAPPC12	ENSG00000171853	ENST00000473348	processed_transcript	KNOWN	None	24284	None	None	3462084	3482684	1	TTC15	CGI-87, TTC-15
2	TRAPPC12	ENSG00000171853	ENST00000461577	retained_intron	KNOWN	None	24284	None	None	3463702	3482687	1	TTC15	CGI-87, TTC-15
2	TRAPPC12	ENSG00000171853	ENST00000489032	retained_intron	KNOWN	None	24284	None	None	3464053	3481872	1	TTC15	CGI-87, TTC-15
2	TRAPPC12	ENSG00000171853	ENST00000437733	nonsense_mediated_decay	KNOWN	None	24284	168	55	3464072	3482684	1	TTC15	CGI-87, TTC-15
2	TRAPPC12	ENSG00000171853	ENST00000416918	protein_coding	PUTATIVE	None	24284	367	121	3469444	3483338	1	TTC15	CGI-87, TTC-15
2	TRAPPC12	ENSG00000171853	ENST00000469400	processed_transcript	KNOWN	None	24284	None	None	3476192	3483338	1	TTC15	CGI-87, TTC-15
2	TRAPPC12	ENSG00000171853	ENST00000452495	protein_coding	PUTATIVE	None	24284	328	108	3481486	3488865	1	TTC15	CGI-87, TTC-15
2	TRAPPC12	ENSG00000171853	ENST00000493792	retained_intron	KNOWN	None	24284	None	None	3482485	3483336	1	TTC15	CGI-87, TTC-15
15	TMOD2	ENSG00000128872	ENST00000249700	protein_coding	KNOWN	CCDS10144	11872	1056	351	52043758	52108565	1	None	NTMOD
15	TMOD2	ENSG00000128872	ENST00000539962	protein_coding	PUTATIVE	None	11872	924	307	52043794	52102328	1	None	NTMOD
15	TMOD2	ENSG00000128872	ENST00000560576	retained_intron	KNOWN	None	11872	None	None	52043812	52077177	1	None	NTMOD
15	TMOD2	ENSG00000128872	ENST00000435126	protein_coding	KNOWN	CCDS45260	11872	948	315	52043864	52101078	1	None	NTMOD
15	TMOD2	ENSG00000128872	ENST00000561300	retained_intron	KNOWN	None	11872	None	None	52073246	52075333	1	None	NTMOD
15	TMOD2	ENSG00000128872	ENST00000561407	nonsense_mediated_decay	KNOWN	None	11872	331	109	52075019	52102489	1	None	NTMOD
14	PPP2R5C	ENSG00000078304	ENST00000556068	processed_transcript	KNOWN	None	9311	None	None	102228199	102287435	1	None	B56G, PR61G
14	PPP2R5C	ENSG00000078304	ENST00000554442	protein_coding	PUTATIVE	None	9311	375	124	102228199	102302910	1	None	B56G, PR61G
14	PPP2R5C	ENSG00000078304	ENST00000556260	protein_coding	PUTATIVE	None	9311	207	68	102228207	102233386	1	None	B56G, PR61G
14	PPP2R5C	ENSG00000078304	ENST00000328724	protein_coding	KNOWN	CCDS53911	9311	1623	540	102228222	102394022	1	None	B56G, PR61G
14	PPP2R5C	ENSG00000078304	ENST00000557268	protein_coding	KNOWN	None	9311	1662	553	102228237	102391960	1	None	B56G, PR61G
14	PPP2R5C	ENSG00000078304	ENST00000554504	processed_transcript	KNOWN	None	9311	None	None	102229242	102290566	1	None	B56G, PR61G
14	PPP2R5C	ENSG00000078304	ENST00000553890	protein_coding	PUTATIVE	None	9311	439	145	102229265	102302788	1	None	B56G, PR61G
14	PPP2R5C	ENSG00000078304	ENST00000553554	protein_coding	PUTATIVE	None	9311	90	29	102252448	102264038	1	None	B56G, PR61G
14	PPP2R5C	ENSG00000078304	ENST00000556086	processed_transcript	PUTATIVE	None	9311	None	None	102252458	102256233	1	None	B56G, PR61G
14	PPP2R5C	ENSG00000078304	ENST00000350249	protein_coding	KNOWN	CCDS9965	9311	1458	485	102276140	102393856	1	None	B56G, PR61G
14	PPP2R5C	ENSG00000078304	ENST00000557621	protein_coding	NOVEL	None	9311	650	215	102276171	102359390	1	None	B56G, PR61G
14	PPP2R5C	ENSG00000078304	ENST00000556946	protein_coding	PUTATIVE	None	9311	324	107	102276172	102303038	1	None	B56G, PR61G
14	PPP2R5C	ENSG00000078304	ENST00000556307	nonsense_mediated_decay	KNOWN	None	9311	141	46	102276174	102348542	1	None	B56G, PR61G
14	PPP2R5C	ENSG00000078304	ENST00000553730	retained_intron	KNOWN	None	9311	None	None	102276203	102349353	1	None	B56G, PR61G
14	PPP2R5C	ENSG00000078304	ENST00000557714	protein_coding	PUTATIVE	None	9311	210	69	102276206	102302769	1	None	B56G, PR61G
14	PPP2R5C	ENSG00000078304	ENST00000445439	protein_coding	KNOWN	CCDS45163	9311	1350	449	102276232	102378962	1	None	B56G, PR61G
14	PPP2R5C	ENSG00000078304	ENST00000334743	protein_coding	KNOWN	CCDS9964	9311	1575	524	102276232	102394314	1	None	B56G, PR61G
14	PPP2R5C	ENSG00000078304	ENST00000557095	protein_coding	PUTATIVE	None	9311	1155	384	102276242	102372984	1	None	B56G, PR61G
14	PPP2R5C	ENSG00000078304	ENST00000556493	processed_transcript	KNOWN	None	9311	None	None	102289990	102323094	1	None	B56G, PR61G
14	PPP2R5C	ENSG00000078304	ENST00000553842	processed_transcript	PUTATIVE	None	9311	None	None	102290215	102302862	1	None	B56G, PR61G
14	PPP2R5C	ENSG00000078304	ENST00000607042	processed_transcript	KNOWN	None	9311	None	None	102290499	102290815	1	None	B56G, PR61G
14	PPP2R5C	ENSG00000078304	ENST00000556373	processed_transcript	KNOWN	None	9311	None	None	102291175	102323222	1	None	B56G, PR61G
14	PPP2R5C	ENSG00000078304	ENST00000556570	processed_transcript	KNOWN	None	9311	None	None	102345559	102349899	1	None	B56G, PR61G
14	PPP2R5C	ENSG00000078304	ENST00000554137	nonsense_mediated_decay	KNOWN	None	9311	216	71	102348498	102360854	1	None	B56G, PR61G
14	PPP2R5C	ENSG00000078304	ENST00000556218	processed_transcript	KNOWN	None	9311	None	None	102348542	102378937	1	None	B56G, PR61G
14	PPP2R5C	ENSG00000078304	ENST00000557534	nonsense_mediated_decay	KNOWN	None	9311	210	69	102349639	102368081	1	None	B56G, PR61G
14	PPP2R5C	ENSG00000078304	ENST00000557716	protein_coding	NOVEL	None	9311	462	153	102349874	102378962	1	None	B56G, PR61G
14	PPP2R5C	ENSG00000078304	ENST00000556805	retained_intron	KNOWN	None	9311	None	None	102356130	102359390	1	None	B56G, PR61G
14	PPP2R5C	ENSG00000078304	ENST00000561006	protein_coding	PUTATIVE	None	9311	270	89	102368194	102378961	1	None	B56G, PR61G
14	PPP2R5C	ENSG00000078304	ENST00000555237	protein_coding	PUTATIVE	None	9311	455	150	102372842	102387719	1	None	B56G, PR61G
14	PPP2R5C	ENSG00000078304	ENST00000557071	nonsense_mediated_decay	KNOWN	None	9311	137	44	102375985	102391644	1	None	B56G, PR61G
14	PPP2R5C	ENSG00000078304	ENST00000554147	retained_intron	KNOWN	None	9311	None	None	102384106	102391786	1	None	B56G, PR61G
14	PPP2R5C	ENSG00000078304	ENST00000422945	protein_coding	KNOWN	CCDS53912	9311	1668	555	102228135	102394326	1	None	B56G, PR61G
4	AASDH	ENSG00000157426	ENST00000513376	protein_coding	KNOWN	None	23993	2997	998	57204456	57253589	-1	None	NRPS998, LYS2, ACSF4
4	AASDH	ENSG00000157426	ENST00000205214	protein_coding	KNOWN	CCDS3504	23993	3297	1098	57204456	57253666	-1	None	NRPS998, LYS2, ACSF4
4	AASDH	ENSG00000157426	ENST00000514745	nonsense_mediated_decay	KNOWN	None	23993	363	120	57204459	57253635	-1	None	NRPS998, LYS2, ACSF4
4	AASDH	ENSG00000157426	ENST00000503808	nonsense_mediated_decay	KNOWN	None	23993	261	86	57204771	57253625	-1	None	NRPS998, LYS2, ACSF4
4	AASDH	ENSG00000157426	ENST00000502617	protein_coding	KNOWN	None	23993	2526	841	57215094	57253666	-1	None	NRPS998, LYS2, ACSF4
4	AASDH	ENSG00000157426	ENST00000510762	processed_transcript	PUTATIVE	None	23993	None	None	57221466	57253624	-1	None	NRPS998, LYS2, ACSF4
4	AASDH	ENSG00000157426	ENST00000510012	retained_intron	KNOWN	None	23993	None	None	57247925	57253638	-1	None	NRPS998, LYS2, ACSF4
4	AASDH	ENSG00000157426	ENST00000514796	retained_intron	KNOWN	None	23993	None	None	57248590	57250465	-1	None	NRPS998, LYS2, ACSF4
4	AASDH	ENSG00000157426	ENST00000434343	protein_coding	KNOWN	None	23993	1842	613	57204459	57253635	-1	None	NRPS998, LYS2, ACSF4
4	AASDH	ENSG00000157426	ENST00000451613	protein_coding	KNOWN	None	23993	2574	857	57204459	57253655	-1	None	NRPS998, LYS2, ACSF4
4	AASDH	ENSG00000157426	ENST00000602986	protein_coding	KNOWN	None	23993	2370	789	57204771	57253627	-1	None	NRPS998, LYS2, ACSF4
17	RDM1	ENSG00000187456	ENST00000431884	protein_coding	KNOWN	CCDS54111	19950	756	251	34245070	34257731	-1	RAD52B	MGC33977
17	RDM1	ENSG00000187456	ENST00000293273	protein_coding	KNOWN	CCDS11301	19950	855	284	34245070	34257777	-1	RAD52B	MGC33977
17	RDM1	ENSG00000187456	ENST00000394529	protein_coding	KNOWN	CCDS54109	19950	786	261	34245084	34257773	-1	RAD52B	MGC33977
17	RDM1	ENSG00000187456	ENST00000585884	nonsense_mediated_decay	KNOWN	None	19950	345	114	34245346	34257286	-1	RAD52B	MGC33977
17	RDM1	ENSG00000187456	ENST00000419453	protein_coding	KNOWN	CCDS59281	19950	687	228	34245346	34257286	-1	RAD52B	MGC33977
17	RDM1	ENSG00000187456	ENST00000585939	nonsense_mediated_decay	KNOWN	CCDS54108	19950	351	116	34245346	34257286	-1	RAD52B	MGC33977
17	RDM1	ENSG00000187456	ENST00000591402	protein_coding	KNOWN	CCDS59280	19950	432	143	34245346	34257286	-1	RAD52B	MGC33977
17	RDM1	ENSG00000187456	ENST00000436836	nonsense_mediated_decay	KNOWN	None	19950	420	139	34245346	34257731	-1	RAD52B	MGC33977
17	RDM1	ENSG00000187456	ENST00000592489	nonsense_mediated_decay	KNOWN	None	19950	240	79	34245346	34257731	-1	RAD52B	MGC33977
17	RDM1	ENSG00000187456	ENST00000591420	nonsense_mediated_decay	KNOWN	None	19950	414	137	34245346	34257731	-1	RAD52B	MGC33977
17	RDM1	ENSG00000187456	ENST00000425909	protein_coding	KNOWN	CCDS54110	19950	501	166	34245346	34257731	-1	RAD52B	MGC33977
17	RDM1	ENSG00000187456	ENST00000430160	protein_coding	PUTATIVE	None	19950	642	213	34249159	34257757	-1	RAD52B	MGC33977
17	RDM1	ENSG00000187456	ENST00000394528	protein_coding	KNOWN	CCDS42299	19950	711	236	34249482	34257744	-1	RAD52B	MGC33977
17	RDM1	ENSG00000187456	ENST00000394527	protein_coding	KNOWN	CCDS54108	19950	351	116	34249485	34257303	-1	RAD52B	MGC33977
X	SNX12	ENSG00000147164	ENST00000483560	processed_transcript	KNOWN	None	14976	None	None	70279094	70282781	-1	None	None
X	SNX12	ENSG00000147164	ENST00000374274	protein_coding	KNOWN	CCDS14405	14976	489	162	70279096	70288273	-1	None	None
X	SNX12	ENSG00000147164	ENST00000490561	processed_transcript	KNOWN	None	14976	None	None	70279743	70288173	-1	None	None
X	SNX12	ENSG00000147164	ENST00000465030	processed_transcript	KNOWN	None	14976	None	None	70280366	70288238	-1	None	None
X	SNX12	ENSG00000147164	ENST00000276105	protein_coding	KNOWN	CCDS59169	14976	477	158	70280720	70288253	-1	None	None
14	MYH7	ENSG00000092054	ENST00000355349	protein_coding	KNOWN	CCDS9601	7577	5808	1935	23881947	23904927	-1	CMH1, MPD1	CMD1S
4	TENM3	ENSG00000218336	ENST00000513201	processed_transcript	KNOWN	None	29944	None	None	183065140	183271469	1	ODZ3	Ten-M3, KIAA1455
4	TENM3	ENSG00000218336	ENST00000512480	protein_coding	KNOWN	None	29944	511	169	183065843	183268082	1	ODZ3	Ten-M3, KIAA1455
4	TENM3	ENSG00000218336	ENST00000511685	protein_coding	KNOWN	CCDS47165	29944	8100	2699	183164582	183724177	1	ODZ3	Ten-M3, KIAA1455
4	TENM3	ENSG00000218336	ENST00000510504	protein_coding	PUTATIVE	None	29944	548	181	183370152	183550028	1	ODZ3	Ten-M3, KIAA1455
4	TENM3	ENSG00000218336	ENST00000502950	processed_transcript	KNOWN	None	29944	None	None	183601477	183676506	1	ODZ3	Ten-M3, KIAA1455
4	TENM3	ENSG00000218336	ENST00000507737	retained_intron	KNOWN	None	29944	None	None	183601525	183603069	1	ODZ3	Ten-M3, KIAA1455
4	TENM3	ENSG00000218336	ENST00000406950	protein_coding	KNOWN	CCDS47165	29944	8100	2699	183245174	183721832	1	ODZ3	Ten-M3, KIAA1455
2	TFPI	ENSG00000003436	ENST00000392365	protein_coding	KNOWN	CCDS2294	11760	915	304	188328957	188378368	-1	LACI	EPI, TFI, TFPI1
2	TFPI	ENSG00000003436	ENST00000426055	protein_coding	KNOWN	None	11760	866	287	188331712	188419219	-1	LACI	EPI, TFI, TFPI1
2	TFPI	ENSG00000003436	ENST00000481132	retained_intron	KNOWN	None	11760	None	None	188331729	188384587	-1	LACI	EPI, TFI, TFPI1
2	TFPI	ENSG00000003436	ENST00000435414	protein_coding	NOVEL	None	11760	647	214	188332602	188378380	-1	LACI	EPI, TFI, TFPI1
2	TFPI	ENSG00000003436	ENST00000409676	protein_coding	KNOWN	CCDS33349	11760	756	251	188343305	188419158	-1	LACI	EPI, TFI, TFPI1
2	TFPI	ENSG00000003436	ENST00000339091	protein_coding	KNOWN	CCDS33349	11760	756	251	188343312	188419165	-1	LACI	EPI, TFI, TFPI1
2	TFPI	ENSG00000003436	ENST00000481389	retained_intron	KNOWN	None	11760	None	None	188348657	188361703	-1	LACI	EPI, TFI, TFPI1
2	TFPI	ENSG00000003436	ENST00000437725	protein_coding	KNOWN	None	11760	319	105	188361608	188419078	-1	LACI	EPI, TFI, TFPI1
2	TFPI	ENSG00000003436	ENST00000421427	protein_coding	KNOWN	None	11760	319	105	188361608	188430487	-1	LACI	EPI, TFI, TFPI1
2	TFPI	ENSG00000003436	ENST00000453013	protein_coding	KNOWN	None	11760	316	104	188361611	188419219	-1	LACI	EPI, TFI, TFPI1
2	TFPI	ENSG00000003436	ENST00000417013	protein_coding	KNOWN	None	11760	228	75	188361699	188419219	-1	LACI	EPI, TFI, TFPI1
2	TFPI	ENSG00000003436	ENST00000420747	protein_coding	KNOWN	None	11760	184	60	188361743	188419188	-1	LACI	EPI, TFI, TFPI1
2	TFPI	ENSG00000003436	ENST00000233156	protein_coding	KNOWN	CCDS2294	11760	915	304	188328960	188419219	-1	LACI	EPI, TFI, TFPI1
1	CMPK1	ENSG00000162368	ENST00000371873	protein_coding	KNOWN	CCDS549	18170	687	228	47799469	47844511	1	CMPK	UMP-CMPK
1	CMPK1	ENSG00000162368	ENST00000371871	nonsense_mediated_decay	KNOWN	None	18170	510	169	47799481	47842882	1	CMPK	UMP-CMPK
1	CMPK1	ENSG00000162368	ENST00000471289	protein_coding	PUTATIVE	None	18170	177	58	47799551	47824547	1	CMPK	UMP-CMPK
1	CMPK1	ENSG00000162368	ENST00000450808	protein_coding	KNOWN	CCDS44135	18170	540	179	47799586	47842795	1	CMPK	UMP-CMPK
1	CMPK1	ENSG00000162368	ENST00000371870	retained_intron	KNOWN	None	18170	None	None	47799613	47839115	1	CMPK	UMP-CMPK
16	PDPR	ENSG00000090857	ENST00000288050	protein_coding	KNOWN	CCDS45520	30264	2640	879	70147529	70195184	1	None	PDP3
16	PDPR	ENSG00000090857	ENST00000561920	retained_intron	KNOWN	None	30264	None	None	70148247	70182494	1	None	PDP3
16	PDPR	ENSG00000090857	ENST00000398122	protein_coding	PUTATIVE	None	30264	2340	779	70148275	70191034	1	None	PDP3
16	PDPR	ENSG00000090857	ENST00000568530	protein_coding	KNOWN	CCDS45520	30264	2640	879	70148275	70195203	1	None	PDP3
16	PDPR	ENSG00000090857	ENST00000565186	nonsense_mediated_decay	KNOWN	None	30264	1476	491	70154034	70192234	1	None	PDP3
16	PDPR	ENSG00000090857	ENST00000562100	processed_transcript	KNOWN	None	30264	None	None	70165836	70190762	1	None	PDP3
16	PDPR	ENSG00000090857	ENST00000569042	protein_coding	PUTATIVE	None	30264	592	196	70179630	70190585	1	None	PDP3
16	PDPR	ENSG00000090857	ENST00000563930	protein_coding	PUTATIVE	None	30264	449	148	70179658	70190517	1	None	PDP3
16	PDPR	ENSG00000090857	ENST00000567046	protein_coding	PUTATIVE	None	30264	714	237	70179658	70191137	1	None	PDP3
16	PDPR	ENSG00000090857	ENST00000564563	nonsense_mediated_decay	KNOWN	None	30264	114	37	70179698	70192218	1	None	PDP3
16	PDPR	ENSG00000090857	ENST00000567896	protein_coding	PUTATIVE	None	30264	301	99	70179707	70187468	1	None	PDP3
16	PDPR	ENSG00000090857	ENST00000542659	protein_coding	KNOWN	None	30264	675	224	70179698	70192218	1	None	PDP3
1	ILF2	ENSG00000143621	ENST00000361891	protein_coding	KNOWN	CCDS1050	6037	1173	390	153634512	153643524	-1	None	NF45
1	ILF2	ENSG00000143621	ENST00000480213	processed_transcript	KNOWN	None	6037	None	None	153634541	153636950	-1	None	NF45
1	ILF2	ENSG00000143621	ENST00000368684	protein_coding	KNOWN	None	6037	346	114	153638139	153642708	-1	None	NF45
1	ILF2	ENSG00000143621	ENST00000368681	protein_coding	KNOWN	None	6037	453	150	153639759	153643458	-1	None	NF45
16	RBFOX1	ENSG00000078328	ENST00000547605	protein_coding	NOVEL	None	18222	786	261	6069095	7703848	1	None	A2BP1, FOX-1, HRNBP1
16	RBFOX1	ENSG00000078328	ENST00000550418	protein_coding	KNOWN	CCDS55983	18222	1194	397	6069132	7760842	1	None	A2BP1, FOX-1, HRNBP1
16	RBFOX1	ENSG00000078328	ENST00000553186	protein_coding	KNOWN	CCDS55984	18222	1113	370	6069132	7760842	1	None	A2BP1, FOX-1, HRNBP1
16	RBFOX1	ENSG00000078328	ENST00000547372	protein_coding	KNOWN	None	18222	1401	466	6069594	7761460	1	None	A2BP1, FOX-1, HRNBP1
16	RBFOX1	ENSG00000078328	ENST00000548749	processed_transcript	KNOWN	None	18222	None	None	6069704	6773888	1	None	A2BP1, FOX-1, HRNBP1
16	RBFOX1	ENSG00000078328	ENST00000422070	protein_coding	PUTATIVE	None	18222	1278	425	6069704	7759783	1	None	A2BP1, FOX-1, HRNBP1
16	RBFOX1	ENSG00000078328	ENST00000535565	protein_coding	PUTATIVE	None	18222	1143	380	6533180	7759778	1	None	A2BP1, FOX-1, HRNBP1
16	RBFOX1	ENSG00000078328	ENST00000547427	processed_transcript	KNOWN	None	18222	None	None	6533325	7378794	1	None	A2BP1, FOX-1, HRNBP1
16	RBFOX1	ENSG00000078328	ENST00000552089	protein_coding	PUTATIVE	None	18222	1176	391	6533387	7760765	1	None	A2BP1, FOX-1, HRNBP1
16	RBFOX1	ENSG00000078328	ENST00000551752	protein_coding	KNOWN	None	18222	789	262	6533794	7703848	1	None	A2BP1, FOX-1, HRNBP1
16	RBFOX1	ENSG00000078328	ENST00000547338	protein_coding	KNOWN	CCDS55983	18222	1194	397	6823810	7760846	1	None	A2BP1, FOX-1, HRNBP1
16	RBFOX1	ENSG00000078328	ENST00000436368	protein_coding	KNOWN	CCDS45405	18222	1179	392	7382751	7760846	1	None	A2BP1, FOX-1, HRNBP1
16	RBFOX1	ENSG00000078328	ENST00000311745	protein_coding	KNOWN	CCDS10531	18222	1257	418	7382751	7762506	1	None	A2BP1, FOX-1, HRNBP1
16	RBFOX1	ENSG00000078328	ENST00000355637	protein_coding	KNOWN	CCDS10532	18222	1188	395	7382751	7762506	1	None	A2BP1, FOX-1, HRNBP1
16	RBFOX1	ENSG00000078328	ENST00000569889	processed_transcript	KNOWN	None	18222	None	None	7472779	7629787	1	None	A2BP1, FOX-1, HRNBP1
16	RBFOX1	ENSG00000078328	ENST00000570626	protein_coding	NOVEL	None	18222	567	188	7560124	7645643	1	None	A2BP1, FOX-1, HRNBP1
16	RBFOX1	ENSG00000078328	ENST00000564850	retained_intron	KNOWN	None	18222	None	None	7647219	7680628	1	None	A2BP1, FOX-1, HRNBP1
16	RBFOX1	ENSG00000078328	ENST00000567470	protein_coding	NOVEL	None	18222	224	73	7703868	7760821	1	None	A2BP1, FOX-1, HRNBP1
16	RBFOX1	ENSG00000078328	ENST00000570188	retained_intron	KNOWN	None	18222	None	None	7714766	7760846	1	None	A2BP1, FOX-1, HRNBP1
16	RBFOX1	ENSG00000078328	ENST00000340209	protein_coding	KNOWN	None	18222	1209	402	7382751	7763340	1	None	A2BP1, FOX-1, HRNBP1
3	QARS	ENSG00000172053	ENST00000482248	retained_intron	KNOWN	None	9751	None	None	49133365	49136686	-1	None	None
3	QARS	ENSG00000172053	ENST00000453392	protein_coding	PUTATIVE	None	9751	762	253	49133365	49137028	-1	None	None
3	QARS	ENSG00000172053	ENST00000306125	protein_coding	KNOWN	CCDS2788	9751	2328	775	49133365	49142504	-1	None	None
3	QARS	ENSG00000172053	ENST00000475599	processed_transcript	KNOWN	None	9751	None	None	49133366	49134699	-1	None	None
3	QARS	ENSG00000172053	ENST00000487495	processed_transcript	KNOWN	None	9751	None	None	49133366	49135550	-1	None	None
3	QARS	ENSG00000172053	ENST00000497635	retained_intron	KNOWN	None	9751	None	None	49133366	49135957	-1	None	None
3	QARS	ENSG00000172053	ENST00000430182	nonsense_mediated_decay	KNOWN	None	9751	303	100	49133366	49142190	-1	None	None
3	QARS	ENSG00000172053	ENST00000494984	retained_intron	KNOWN	None	9751	None	None	49133367	49136125	-1	None	None
3	QARS	ENSG00000172053	ENST00000414533	protein_coding	NOVEL	None	9751	2295	764	49133370	49142191	-1	None	None
3	QARS	ENSG00000172053	ENST00000464962	retained_intron	KNOWN	None	9751	None	None	49133372	49141944	-1	None	None
3	QARS	ENSG00000172053	ENST00000459870	retained_intron	KNOWN	None	9751	None	None	49133381	49136392	-1	None	None
3	QARS	ENSG00000172053	ENST00000470113	retained_intron	KNOWN	None	9751	None	None	49133394	49136690	-1	None	None
3	QARS	ENSG00000172053	ENST00000466179	processed_transcript	KNOWN	None	9751	None	None	49133427	49136424	-1	None	None
3	QARS	ENSG00000172053	ENST00000482468	processed_transcript	KNOWN	None	9751	None	None	49136775	49137854	-1	None	None
3	QARS	ENSG00000172053	ENST00000478561	retained_intron	KNOWN	None	9751	None	None	49137023	49138100	-1	None	None
3	QARS	ENSG00000172053	ENST00000494838	retained_intron	KNOWN	None	9751	None	None	49137622	49141301	-1	None	None
3	QARS	ENSG00000172053	ENST00000470225	processed_transcript	KNOWN	None	9751	None	None	49137632	49140176	-1	None	None
3	QARS	ENSG00000172053	ENST00000494767	retained_intron	KNOWN	None	9751	None	None	49137708	49139333	-1	None	None
3	QARS	ENSG00000172053	ENST00000452739	protein_coding	PUTATIVE	None	9751	916	304	49139052	49142179	-1	None	None
3	QARS	ENSG00000172053	ENST00000482261	retained_intron	KNOWN	None	9751	None	None	49139261	49142162	-1	None	None
3	QARS	ENSG00000172053	ENST00000470619	processed_transcript	KNOWN	None	9751	None	None	49139632	49142504	-1	None	None
3	QARS	ENSG00000172053	ENST00000479495	processed_transcript	KNOWN	None	9751	None	None	49140040	49142534	-1	None	None
3	QARS	ENSG00000172053	ENST00000418549	nonsense_mediated_decay	KNOWN	None	9751	303	100	49140099	49142190	-1	None	None
3	QARS	ENSG00000172053	ENST00000417025	protein_coding	PUTATIVE	None	9751	546	181	49140136	49142192	-1	None	None
3	QARS	ENSG00000172053	ENST00000482438	retained_intron	KNOWN	None	9751	None	None	49141448	49142190	-1	None	None
3	QARS	ENSG00000172053	ENST00000420147	protein_coding	KNOWN	None	9751	849	282	49138064	49142553	-1	None	None
16	ATMIN	ENSG00000166454	ENST00000299575	protein_coding	KNOWN	CCDS32494	29034	2472	823	81069452	81080963	1	None	ASCIZ, KIAA0431, ZNF822
16	ATMIN	ENSG00000166454	ENST00000562969	retained_intron	KNOWN	None	29034	None	None	81069663	81075316	1	None	ASCIZ, KIAA0431, ZNF822
16	ATMIN	ENSG00000166454	ENST00000539819	processed_transcript	PUTATIVE	None	29034	None	None	81070787	81078779	1	None	ASCIZ, KIAA0431, ZNF822
16	ATMIN	ENSG00000166454	ENST00000564241	protein_coding	PUTATIVE	None	29034	2004	667	81070792	81080953	1	None	ASCIZ, KIAA0431, ZNF822
16	ATMIN	ENSG00000166454	ENST00000565237	protein_coding	PUTATIVE	None	29034	164	53	81070813	81076055	1	None	ASCIZ, KIAA0431, ZNF822
16	ATMIN	ENSG00000166454	ENST00000566488	protein_coding	KNOWN	None	29034	2004	667	81074130	81080951	1	None	ASCIZ, KIAA0431, ZNF822
1	None	ENSG00000269358	ENST00000600307	protein_coding	NOVEL	None	None	135	44	224215760	224216371	-1	None	None
19	RETN	ENSG00000104918	ENST00000221515	protein_coding	KNOWN	CCDS12182	20389	327	108	7733930	7735334	1	None	FIZZ3, ADSF, RETN1
19	RETN	ENSG00000104918	ENST00000381324	protein_coding	NOVEL	None	20389	249	82	7734213	7735235	1	None	FIZZ3, ADSF, RETN1
14	FKBP3	ENSG00000100442	ENST00000216330	protein_coding	KNOWN	CCDS9683	3719	675	224	45584803	45604522	-1	None	FKBP-25, PPIase
14	FKBP3	ENSG00000100442	ENST00000557324	nonsense_mediated_decay	KNOWN	None	3719	198	65	45590113	45603686	-1	None	FKBP-25, PPIase
14	FKBP3	ENSG00000100442	ENST00000556231	retained_intron	KNOWN	None	3719	None	None	45590791	45600464	-1	None	FKBP-25, PPIase
14	FKBP3	ENSG00000100442	ENST00000396062	protein_coding	KNOWN	CCDS9683	3719	675	224	45584803	45603732	-1	None	FKBP-25, PPIase
1	FOXE3	ENSG00000186790	ENST00000335071	protein_coding	KNOWN	CCDS550	3808	960	319	47881744	47883723	1	FKHL12	FREAC8
11	MICAL2	ENSG00000133816	ENST00000532179	protein_coding	KNOWN	None	24693	295	97	12115555	12225827	1	None	KIAA0750
11	MICAL2	ENSG00000133816	ENST00000526065	protein_coding	KNOWN	None	24693	265	87	12115564	12183967	1	None	KIAA0750
11	MICAL2	ENSG00000133816	ENST00000532945	processed_transcript	PUTATIVE	None	24693	None	None	12115675	12117768	1	None	KIAA0750
11	MICAL2	ENSG00000133816	ENST00000256194	protein_coding	KNOWN	CCDS7809	24693	3375	1124	12132138	12285332	1	None	KIAA0750
11	MICAL2	ENSG00000133816	ENST00000531732	retained_intron	KNOWN	None	24693	None	None	12132152	12229916	1	None	KIAA0750
11	MICAL2	ENSG00000133816	ENST00000530823	protein_coding	KNOWN	None	24693	11	2	12138243	12183713	1	None	KIAA0750
11	MICAL2	ENSG00000133816	ENST00000532420	protein_coding	KNOWN	None	24693	264	87	12143022	12183966	1	None	KIAA0750
11	MICAL2	ENSG00000133816	ENST00000527546	protein_coding	NOVEL	None	24693	2805	934	12159935	12284466	1	None	KIAA0750
11	MICAL2	ENSG00000133816	ENST00000524685	protein_coding	KNOWN	None	24693	362	119	12182990	12225894	1	None	KIAA0750
11	MICAL2	ENSG00000133816	ENST00000525119	protein_coding	KNOWN	None	24693	402	133	12182993	12225934	1	None	KIAA0750
11	MICAL2	ENSG00000133816	ENST00000533389	protein_coding	KNOWN	None	24693	305	100	12183415	12225837	1	None	KIAA0750
11	MICAL2	ENSG00000133816	ENST00000528931	retained_intron	KNOWN	None	24693	None	None	12183703	12281719	1	None	KIAA0750
11	MICAL2	ENSG00000133816	ENST00000532166	processed_transcript	PUTATIVE	None	24693	None	None	12217492	12219358	1	None	KIAA0750
11	MICAL2	ENSG00000133816	ENST00000527195	processed_transcript	PUTATIVE	None	24693	None	None	12217492	12229693	1	None	KIAA0750
11	MICAL2	ENSG00000133816	ENST00000530691	retained_intron	KNOWN	None	24693	None	None	12229272	12285332	1	None	KIAA0750
11	MICAL2	ENSG00000133816	ENST00000524730	retained_intron	KNOWN	None	24693	None	None	12234802	12237940	1	None	KIAA0750
11	MICAL2	ENSG00000133816	ENST00000533219	retained_intron	KNOWN	None	24693	None	None	12245985	12248740	1	None	KIAA0750
11	MICAL2	ENSG00000133816	ENST00000529562	processed_transcript	KNOWN	None	24693	None	None	12247132	12248645	1	None	KIAA0750
11	MICAL2	ENSG00000133816	ENST00000526475	processed_transcript	KNOWN	None	24693	None	None	12247754	12265581	1	None	KIAA0750
11	MICAL2	ENSG00000133816	ENST00000525075	retained_intron	KNOWN	None	24693	None	None	12261007	12278780	1	None	KIAA0750
11	MICAL2	ENSG00000133816	ENST00000525216	processed_transcript	PUTATIVE	None	24693	None	None	12263729	12264531	1	None	KIAA0750
11	MICAL2	ENSG00000133816	ENST00000534563	processed_transcript	KNOWN	None	24693	None	None	12263868	12281489	1	None	KIAA0750
11	MICAL2	ENSG00000133816	ENST00000525979	processed_transcript	KNOWN	None	24693	None	None	12264747	12278515	1	None	KIAA0750
11	MICAL2	ENSG00000133816	ENST00000526672	processed_transcript	PUTATIVE	None	24693	None	None	12271488	12278456	1	None	KIAA0750
11	MICAL2	ENSG00000133816	ENST00000525618	retained_intron	KNOWN	None	24693	None	None	12274079	12285334	1	None	KIAA0750
11	MICAL2	ENSG00000133816	ENST00000530021	retained_intron	KNOWN	None	24693	None	None	12274781	12285329	1	None	KIAA0750
11	MICAL2	ENSG00000133816	ENST00000526604	processed_transcript	PUTATIVE	None	24693	None	None	12278389	12282295	1	None	KIAA0750
11	MICAL2	ENSG00000133816	ENST00000525444	retained_intron	KNOWN	None	24693	None	None	12281236	12285328	1	None	KIAA0750
11	MICAL2	ENSG00000133816	ENST00000537344	protein_coding	KNOWN	None	24693	2805	934	12115543	12284466	1	None	KIAA0750
11	MICAL2	ENSG00000133816	ENST00000342902	protein_coding	KNOWN	None	24693	3312	1103	12159970	12285135	1	None	KIAA0750
11	MICAL2	ENSG00000133816	ENST00000379612	protein_coding	KNOWN	None	24693	2931	976	12183703	12281719	1	None	KIAA0750
1	FOXD2	ENSG00000186564	ENST00000334793	protein_coding	KNOWN	CCDS30708	3803	1488	495	47901689	47906363	1	FKHL17	FREAC9
11	ZNF202	ENSG00000166261	ENST00000336139	protein_coding	KNOWN	CCDS8443	12994	1947	648	123594885	123612378	-1	None	ZKSCAN10, ZSCAN42
11	ZNF202	ENSG00000166261	ENST00000530393	protein_coding	PUTATIVE	CCDS8443	12994	1947	648	123595488	123612363	-1	None	ZKSCAN10, ZSCAN42
11	ZNF202	ENSG00000166261	ENST00000529691	protein_coding	PUTATIVE	CCDS8443	12994	1947	648	123595488	123612379	-1	None	ZKSCAN10, ZSCAN42
11	ZNF202	ENSG00000166261	ENST00000533463	protein_coding	PUTATIVE	None	12994	379	125	123601218	123612375	-1	None	ZKSCAN10, ZSCAN42
11	ZNF202	ENSG00000166261	ENST00000528306	protein_coding	PUTATIVE	None	12994	137	44	123601460	123612381	-1	None	ZKSCAN10, ZSCAN42
11	ZNF202	ENSG00000166261	ENST00000529250	processed_transcript	KNOWN	None	12994	None	None	123601516	123612383	-1	None	ZKSCAN10, ZSCAN42
11	ZNF202	ENSG00000166261	ENST00000526252	protein_coding	PUTATIVE	None	12994	31	9	123601566	123612322	-1	None	ZKSCAN10, ZSCAN42
11	ZNF202	ENSG00000166261	ENST00000530944	processed_transcript	KNOWN	None	12994	None	None	123601568	123612368	-1	None	ZKSCAN10, ZSCAN42
11	ZNF202	ENSG00000166261	ENST00000525391	processed_transcript	KNOWN	None	12994	None	None	123609332	123612373	-1	None	ZKSCAN10, ZSCAN42
1	FBXO28	ENSG00000143756	ENST00000366862	protein_coding	KNOWN	CCDS1539	29046	1107	368	224301789	224349749	1	None	FLJ10766, KIAA0483, Fbx28, CENP-30
1	FBXO28	ENSG00000143756	ENST00000424254	protein_coding	KNOWN	CCDS44320	29046	540	179	224301813	224345852	1	None	FLJ10766, KIAA0483, Fbx28, CENP-30
1	FBXO28	ENSG00000143756	ENST00000523990	nonsense_mediated_decay	KNOWN	None	29046	381	126	224301821	224345884	1	None	FLJ10766, KIAA0483, Fbx28, CENP-30
1	FBXO28	ENSG00000143756	ENST00000483773	retained_intron	KNOWN	None	29046	None	None	224301873	224322067	1	None	FLJ10766, KIAA0483, Fbx28, CENP-30
1	FBXO28	ENSG00000143756	ENST00000519894	retained_intron	KNOWN	None	29046	None	None	224301920	224318723	1	None	FLJ10766, KIAA0483, Fbx28, CENP-30
1	TRABD2B	ENSG00000204018	ENST00000371865	protein_coding	KNOWN	CCDS58000	44200	1554	517	48231308	48462567	-1	None	None
1	TRABD2B	ENSG00000204018	ENST00000435576	processed_transcript	KNOWN	None	44200	None	None	48240910	48459884	-1	None	None
6	NR2E1	ENSG00000112333	ENST00000368986	protein_coding	KNOWN	CCDS5063	7973	1158	385	108487262	108510013	1	TLX	TLL, XTLL
6	NR2E1	ENSG00000112333	ENST00000368983	protein_coding	NOVEL	None	7973	1269	422	108489227	108510006	1	TLX	TLL, XTLL
6	NR2E1	ENSG00000112333	ENST00000426403	protein_coding	PUTATIVE	None	7973	137	44	108489967	108497830	1	TLX	TLL, XTLL
6	NR2E1	ENSG00000112333	ENST00000484978	processed_transcript	PUTATIVE	None	7973	None	None	108497308	108499351	1	TLX	TLL, XTLL
1	None	ENSG00000269709	ENST00000601108	protein_coding	KNOWN	None	None	573	190	48569306	48569878	1	None	None
X	FOXO4	ENSG00000184481	ENST00000374259	protein_coding	KNOWN	CCDS43969	7139	1518	505	70316047	70323385	1	MLLT7	AFX1
X	FOXO4	ENSG00000184481	ENST00000466874	processed_transcript	KNOWN	None	7139	None	None	70316103	70320622	1	MLLT7	AFX1
X	FOXO4	ENSG00000184481	ENST00000341558	protein_coding	KNOWN	CCDS55440	7139	1353	450	70316379	70321934	1	MLLT7	AFX1
X	FOXO4	ENSG00000184481	ENST00000464598	processed_transcript	KNOWN	None	7139	None	None	70319158	70320693	1	MLLT7	AFX1
X	FOXO4	ENSG00000184481	ENST00000469736	processed_transcript	KNOWN	None	7139	None	None	70321252	70323384	1	MLLT7	AFX1
19	THAP8	ENSG00000161277	ENST00000292894	protein_coding	KNOWN	CCDS33000	23191	825	274	36525887	36545664	-1	None	FLJ32891
19	THAP8	ENSG00000161277	ENST00000522483	nonsense_mediated_decay	KNOWN	None	23191	198	65	36526050	36545279	-1	None	FLJ32891
19	THAP8	ENSG00000161277	ENST00000607730	nonsense_mediated_decay	KNOWN	None	23191	126	41	36530225	36545303	-1	None	FLJ32891
19	THAP8	ENSG00000161277	ENST00000524106	processed_transcript	PUTATIVE	None	23191	None	None	36530863	36545641	-1	None	FLJ32891
19	THAP8	ENSG00000161277	ENST00000538849	protein_coding	KNOWN	None	23191	390	129	36526050	36545166	-1	None	FLJ32891
1	DEGS1	ENSG00000143753	ENST00000415210	protein_coding	KNOWN	None	13709	784	260	224363458	224380055	1	None	MLD, Des-1, DES1, FADS7, DEGS-1
1	DEGS1	ENSG00000143753	ENST00000323699	protein_coding	KNOWN	CCDS1540	13709	972	323	224370873	224381143	1	None	MLD, Des-1, DES1, FADS7, DEGS-1
1	DEGS1	ENSG00000143753	ENST00000465848	processed_transcript	KNOWN	None	13709	None	None	224371377	224377754	1	None	MLD, Des-1, DES1, FADS7, DEGS-1
1	DEGS1	ENSG00000143753	ENST00000498813	processed_transcript	KNOWN	None	13709	None	None	224377838	224380142	1	None	MLD, Des-1, DES1, FADS7, DEGS-1
1	DEGS1	ENSG00000143753	ENST00000391877	protein_coding	KNOWN	CCDS1540	13709	972	323	224370968	224380859	1	None	MLD, Des-1, DES1, FADS7, DEGS-1
8	LYNX1	ENSG00000180155	ENST00000523332	protein_coding	PUTATIVE	None	29604	249	82	143845752	143857439	-1	None	SLURP2
8	LYNX1	ENSG00000180155	ENST00000317543	protein_coding	KNOWN	CCDS34952	29604	294	97	143845756	143851262	-1	None	SLURP2
8	LYNX1	ENSG00000180155	ENST00000335822	protein_coding	KNOWN	CCDS34951	29604	396	131	143845756	143859640	-1	None	SLURP2
8	LYNX1	ENSG00000180155	ENST00000521396	protein_coding	PUTATIVE	None	29604	264	87	143845769	143851203	-1	None	SLURP2
8	LYNX1	ENSG00000180155	ENST00000395192	protein_coding	KNOWN	CCDS6389	29604	351	116	143852615	143859226	-1	None	SLURP2
8	LYNX1	ENSG00000180155	ENST00000345173	protein_coding	KNOWN	CCDS6389	29604	351	116	143856341	143858438	-1	None	SLURP2
8	LYNX1	ENSG00000180155	ENST00000522929	protein_coding	KNOWN	None	29604	252	83	143856684	143858744	-1	None	SLURP2
8	LYNX1	ENSG00000180155	ENST00000520131	protein_coding	KNOWN	None	29604	246	81	143856690	143858012	-1	None	SLURP2
8	LYNX1	ENSG00000180155	ENST00000522906	processed_transcript	PUTATIVE	None	29604	None	None	143857041	143858679	-1	None	SLURP2
8	LYNX1	ENSG00000180155	ENST00000398906	protein_coding	KNOWN	CCDS6389	29604	351	116	143852615	143858744	-1	None	SLURP2
4	DCTD	ENSG00000129187	ENST00000500813	nonsense_mediated_decay	KNOWN	None	2710	126	41	183811213	183838522	-1	None	None
4	DCTD	ENSG00000129187	ENST00000357067	protein_coding	KNOWN	CCDS34108	2710	570	189	183811257	183838532	-1	None	None
4	DCTD	ENSG00000129187	ENST00000507543	nonsense_mediated_decay	KNOWN	None	2710	135	44	183811408	183838514	-1	None	None
4	DCTD	ENSG00000129187	ENST00000438320	protein_coding	KNOWN	CCDS3831	2710	537	178	183811408	183838747	-1	None	None
4	DCTD	ENSG00000129187	ENST00000507631	nonsense_mediated_decay	KNOWN	None	2710	126	41	183812167	183838549	-1	None	None
4	DCTD	ENSG00000129187	ENST00000510370	protein_coding	KNOWN	CCDS3831	2710	537	178	183812525	183838542	-1	None	None
4	DCTD	ENSG00000129187	ENST00000503182	protein_coding	KNOWN	None	2710	507	168	183812582	183839089	-1	None	None
4	DCTD	ENSG00000129187	ENST00000510307	protein_coding	KNOWN	None	2710	361	119	183815642	183838049	-1	None	None
4	DCTD	ENSG00000129187	ENST00000512766	protein_coding	KNOWN	None	2710	357	118	183815646	183838630	-1	None	None
4	DCTD	ENSG00000129187	ENST00000514754	protein_coding	KNOWN	None	2710	296	97	183815707	183837780	-1	None	None
4	DCTD	ENSG00000129187	ENST00000513383	processed_transcript	KNOWN	None	2710	None	None	183832376	183836713	-1	None	None
4	DCTD	ENSG00000129187	ENST00000513348	nonsense_mediated_decay	KNOWN	None	2710	54	17	183836076	183838498	-1	None	None
4	DCTD	ENSG00000129187	ENST00000503820	protein_coding	KNOWN	None	2710	221	72	183836099	183838372	-1	None	None
4	DCTD	ENSG00000129187	ENST00000509757	nonsense_mediated_decay	KNOWN	None	2710	135	44	183836136	183838530	-1	None	None
4	DCTD	ENSG00000129187	ENST00000509218	nonsense_mediated_decay	KNOWN	None	2710	135	44	183836141	183838531	-1	None	None
4	DCTD	ENSG00000129187	ENST00000503988	protein_coding	KNOWN	None	2710	177	58	183836143	183838406	-1	None	None
4	DCTD	ENSG00000129187	ENST00000508994	protein_coding	KNOWN	None	2710	71	22	183836651	183838596	-1	None	None
X	EBP	ENSG00000147155	ENST00000495186	protein_coding	KNOWN	CCDS14300	3133	693	230	48379546	48387104	1	CDPX2	CPX, CPXD, CHO2
X	EBP	ENSG00000147155	ENST00000276096	processed_transcript	KNOWN	None	3133	None	None	48380187	48387098	1	CDPX2	CPX, CPXD, CHO2
X	EBP	ENSG00000147155	ENST00000498425	processed_transcript	KNOWN	None	3133	None	None	48380193	48386827	1	CDPX2	CPX, CPXD, CHO2
X	EBP	ENSG00000147155	ENST00000446158	protein_coding	KNOWN	None	3133	481	159	48380244	48386633	1	CDPX2	CPX, CPXD, CHO2
X	EBP	ENSG00000147155	ENST00000414061	protein_coding	KNOWN	None	3133	437	144	48380257	48385641	1	CDPX2	CPX, CPXD, CHO2
X	EBP	ENSG00000147155	ENST00000466461	processed_transcript	KNOWN	None	3133	None	None	48385237	48386059	1	CDPX2	CPX, CPXD, CHO2
12	KCNH3	ENSG00000135519	ENST00000257981	protein_coding	KNOWN	CCDS8786	6252	3252	1083	49932940	49952091	1	None	Kv12.2, BEC1, elk2
12	KCNH3	ENSG00000135519	ENST00000550434	processed_transcript	KNOWN	None	6252	None	None	49934877	49937661	1	None	Kv12.2, BEC1, elk2
12	KCNH3	ENSG00000135519	ENST00000551415	processed_transcript	KNOWN	None	6252	None	None	49938037	49940023	1	None	Kv12.2, BEC1, elk2
12	KCNH3	ENSG00000135519	ENST00000548675	retained_intron	KNOWN	None	6252	None	None	49949955	49951420	1	None	Kv12.2, BEC1, elk2
15	TMOD3	ENSG00000138594	ENST00000558455	protein_coding	KNOWN	None	11873	99	32	52121825	52155180	1	None	UTMOD
15	TMOD3	ENSG00000138594	ENST00000308580	protein_coding	KNOWN	CCDS10145	11873	1059	352	52121827	52204335	1	None	UTMOD
15	TMOD3	ENSG00000138594	ENST00000560549	nonsense_mediated_decay	KNOWN	None	11873	642	213	52167223	52221651	1	None	UTMOD
15	TMOD3	ENSG00000138594	ENST00000561438	nonsense_mediated_decay	KNOWN	None	11873	563	186	52186012	52223505	1	None	UTMOD
15	TMOD3	ENSG00000138594	ENST00000560725	processed_transcript	KNOWN	None	11873	None	None	52193463	52203321	1	None	UTMOD
15	TMOD3	ENSG00000138594	ENST00000558714	processed_transcript	PUTATIVE	None	11873	None	None	52213691	52239492	1	None	UTMOD
15	TMOD3	ENSG00000138594	ENST00000559202	processed_transcript	PUTATIVE	None	11873	None	None	52213706	52239491	1	None	UTMOD
15	TMOD3	ENSG00000138594	ENST00000558666	processed_transcript	PUTATIVE	None	11873	None	None	52216589	52223505	1	None	UTMOD
15	TMOD3	ENSG00000138594	ENST00000561408	processed_transcript	PUTATIVE	None	11873	None	None	52223249	52239492	1	None	UTMOD
15	TMOD3	ENSG00000138594	ENST00000561136	processed_transcript	PUTATIVE	None	11873	None	None	52226174	52229251	1	None	UTMOD
15	TMOD3	ENSG00000138594	ENST00000558300	processed_transcript	PUTATIVE	None	11873	None	None	52226400	52239464	1	None	UTMOD
15	TMOD3	ENSG00000138594	ENST00000544199	protein_coding	KNOWN	CCDS10145	11873	1059	352	52155035	52202186	1	None	UTMOD
19	PSMC4	ENSG00000013275	ENST00000157812	protein_coding	KNOWN	CCDS12547	9551	1257	418	40476912	40487348	1	MIP224	TBP7, S6, MGC8570, MGC13687, MGC23214, TBP-7
19	PSMC4	ENSG00000013275	ENST00000593455	retained_intron	KNOWN	None	9551	None	None	40477077	40487315	1	MIP224	TBP7, S6, MGC8570, MGC13687, MGC23214, TBP-7
19	PSMC4	ENSG00000013275	ENST00000455878	protein_coding	KNOWN	CCDS46076	9551	1164	387	40477077	40487348	1	MIP224	TBP7, S6, MGC8570, MGC13687, MGC23214, TBP-7
19	PSMC4	ENSG00000013275	ENST00000601697	retained_intron	KNOWN	None	9551	None	None	40477087	40487348	1	MIP224	TBP7, S6, MGC8570, MGC13687, MGC23214, TBP-7
19	PSMC4	ENSG00000013275	ENST00000596386	retained_intron	KNOWN	None	9551	None	None	40477099	40485968	1	MIP224	TBP7, S6, MGC8570, MGC13687, MGC23214, TBP-7
19	PSMC4	ENSG00000013275	ENST00000601194	retained_intron	KNOWN	None	9551	None	None	40485351	40486085	1	MIP224	TBP7, S6, MGC8570, MGC13687, MGC23214, TBP-7
9	RN7SL123P	ENSG00000266863	ENST00000577239	misc_RNA	KNOWN	None	46139	None	None	6661651	6661936	1	None	None
6	IPCEF1	ENSG00000074706	ENST00000470622	processed_transcript	KNOWN	None	21204	None	None	154475631	154480651	-1	None	PIP3-E, KIAA0403
6	IPCEF1	ENSG00000074706	ENST00000265198	protein_coding	KNOWN	CCDS5245	21204	1314	437	154475744	154677900	-1	None	PIP3-E, KIAA0403
6	IPCEF1	ENSG00000074706	ENST00000422970	protein_coding	KNOWN	CCDS47509	21204	1317	438	154479209	154651215	-1	None	PIP3-E, KIAA0403
6	IPCEF1	ENSG00000074706	ENST00000522590	retained_intron	KNOWN	None	21204	None	None	154480059	154534464	-1	None	PIP3-E, KIAA0403
6	IPCEF1	ENSG00000074706	ENST00000367220	protein_coding	KNOWN	CCDS47509	21204	1317	438	154480747	154677869	-1	None	PIP3-E, KIAA0403
6	IPCEF1	ENSG00000074706	ENST00000519344	protein_coding	NOVEL	None	21204	1230	409	154480817	154568816	-1	None	PIP3-E, KIAA0403
6	IPCEF1	ENSG00000074706	ENST00000519091	processed_transcript	KNOWN	None	21204	None	None	154520857	154540323	-1	None	PIP3-E, KIAA0403
6	IPCEF1	ENSG00000074706	ENST00000484827	retained_intron	KNOWN	None	21204	None	None	154520963	154535447	-1	None	PIP3-E, KIAA0403
6	IPCEF1	ENSG00000074706	ENST00000517438	protein_coding	NOVEL	None	21204	473	156	154521152	154567990	-1	None	PIP3-E, KIAA0403
6	IPCEF1	ENSG00000074706	ENST00000519405	protein_coding	NOVEL	None	21204	385	127	154533969	154568365	-1	None	PIP3-E, KIAA0403
6	IPCEF1	ENSG00000074706	ENST00000519190	protein_coding	NOVEL	None	21204	325	107	154535391	154568556	-1	None	PIP3-E, KIAA0403
6	IPCEF1	ENSG00000074706	ENST00000518162	retained_intron	KNOWN	None	21204	None	None	154544095	154568714	-1	None	PIP3-E, KIAA0403
6	IPCEF1	ENSG00000074706	ENST00000520261	protein_coding	KNOWN	None	21204	235	77	154567733	154677926	-1	None	PIP3-E, KIAA0403
9	None	ENSG00000229057	ENST00000435535	processed_pseudogene	KNOWN	None	None	None	None	6662424	6663792	1	None	None
17	SOX15	ENSG00000129194	ENST00000538513	protein_coding	KNOWN	CCDS32549	11196	702	233	7491496	7493390	-1	SOX20	SOX27, SOX26
17	SOX15	ENSG00000129194	ENST00000250055	protein_coding	KNOWN	CCDS32549	11196	702	233	7491496	7493488	-1	SOX20	SOX27, SOX26
17	SOX15	ENSG00000129194	ENST00000570788	protein_coding	PUTATIVE	None	11196	537	178	7492317	7493409	-1	SOX20	SOX27, SOX26
4	SLC10A6	ENSG00000145283	ENST00000273905	protein_coding	KNOWN	CCDS3614	30603	1134	377	87744621	87770416	-1	None	SOAT
4	SLC10A6	ENSG00000145283	ENST00000505535	processed_transcript	KNOWN	None	30603	None	None	87746601	87770277	-1	None	SOAT
7	WDR60	ENSG00000126870	ENST00000407559	protein_coding	KNOWN	CCDS47757	21862	3201	1066	158649269	158738880	1	None	FLJ10300
7	WDR60	ENSG00000126870	ENST00000397143	protein_coding	PUTATIVE	None	21862	457	151	158662137	158664190	1	None	FLJ10300
7	WDR60	ENSG00000126870	ENST00000444851	nonsense_mediated_decay	KNOWN	None	21862	1569	522	158672471	158738880	1	None	FLJ10300
7	WDR60	ENSG00000126870	ENST00000467220	retained_intron	KNOWN	None	21862	None	None	158677265	158738880	1	None	FLJ10300
7	WDR60	ENSG00000126870	ENST00000454771	nonsense_mediated_decay	KNOWN	None	21862	591	196	158726884	158749438	1	None	FLJ10300
1	SLC5A9	ENSG00000117834	ENST00000425816	nonsense_mediated_decay	KNOWN	None	22146	852	283	48688357	48713273	1	None	SGLT4
1	SLC5A9	ENSG00000117834	ENST00000533824	protein_coding	NOVEL	None	22146	2109	702	48688357	48713273	1	None	SGLT4
1	SLC5A9	ENSG00000117834	ENST00000438567	protein_coding	KNOWN	CCDS30709	22146	2046	681	48688357	48714312	1	None	SGLT4
1	SLC5A9	ENSG00000117834	ENST00000236495	protein_coding	KNOWN	CCDS44136	22146	2121	706	48688359	48714316	1	None	SGLT4
1	SLC5A9	ENSG00000117834	ENST00000493837	retained_intron	KNOWN	None	22146	None	None	48688379	48714315	1	None	SGLT4
1	SLC5A9	ENSG00000117834	ENST00000441260	nonsense_mediated_decay	KNOWN	None	22146	520	172	48688411	48703379	1	None	SGLT4
1	SLC5A9	ENSG00000117834	ENST00000527929	retained_intron	KNOWN	None	22146	None	None	48694752	48697250	1	None	SGLT4
1	SLC5A9	ENSG00000117834	ENST00000525901	processed_transcript	KNOWN	None	22146	None	None	48704098	48708250	1	None	SGLT4
1	SLC5A9	ENSG00000117834	ENST00000532322	nonsense_mediated_decay	KNOWN	None	22146	229	75	48705059	48713390	1	None	SGLT4
1	SLC5A9	ENSG00000117834	ENST00000471020	processed_transcript	KNOWN	None	22146	None	None	48706056	48714310	1	None	SGLT4
1	SLC5A9	ENSG00000117834	ENST00000420136	protein_coding	KNOWN	None	22146	501	166	48688411	48703379	1	None	SGLT4
9	RNF2P1	ENSG00000231381	ENST00000442955	processed_pseudogene	KNOWN	None	33987	None	None	6668999	6670008	-1	RNF2P	None
1	NPR1	ENSG00000169418	ENST00000368680	protein_coding	KNOWN	CCDS1051	7943	3186	1061	153651113	153666468	1	ANPRA, NPRA	GUCY2A, ANPa
1	NPR1	ENSG00000169418	ENST00000413826	processed_transcript	KNOWN	None	7943	None	None	153653277	153654268	1	ANPRA, NPRA	GUCY2A, ANPa
1	NPR1	ENSG00000169418	ENST00000368677	retained_intron	KNOWN	None	7943	None	None	153661200	153666444	1	ANPRA, NPRA	GUCY2A, ANPa
2	GULP1	ENSG00000144366	ENST00000409843	protein_coding	PUTATIVE	CCDS58742	18649	876	291	189156396	189459786	1	None	CED6, CED-6, GULP
2	GULP1	ENSG00000144366	ENST00000486445	processed_transcript	PUTATIVE	None	18649	None	None	189156434	189159005	1	None	CED6, CED-6, GULP
2	GULP1	ENSG00000144366	ENST00000409830	protein_coding	KNOWN	CCDS2295	18649	915	304	189156604	189458738	1	None	CED6, CED-6, GULP
2	GULP1	ENSG00000144366	ENST00000410051	protein_coding	KNOWN	None	18649	504	167	189156673	189406849	1	None	CED6, CED-6, GULP
2	GULP1	ENSG00000144366	ENST00000479019	processed_transcript	KNOWN	None	18649	None	None	189156690	189406044	1	None	CED6, CED-6, GULP
2	GULP1	ENSG00000144366	ENST00000409927	protein_coding	KNOWN	None	18649	206	67	189156741	189393867	1	None	CED6, CED-6, GULP
2	GULP1	ENSG00000144366	ENST00000409805	protein_coding	NOVEL	CCDS58743	18649	606	201	189156767	189458817	1	None	CED6, CED-6, GULP
2	GULP1	ENSG00000144366	ENST00000359135	protein_coding	KNOWN	CCDS2295	18649	915	304	189157499	189460653	1	None	CED6, CED-6, GULP
2	GULP1	ENSG00000144366	ENST00000409580	protein_coding	KNOWN	CCDS2295	18649	915	304	189157559	189460653	1	None	CED6, CED-6, GULP
2	GULP1	ENSG00000144366	ENST00000409637	protein_coding	KNOWN	None	18649	504	167	189157566	189406443	1	None	CED6, CED-6, GULP
2	GULP1	ENSG00000144366	ENST00000409609	protein_coding	KNOWN	CCDS2295	18649	915	304	189158545	189459008	1	None	CED6, CED-6, GULP
2	GULP1	ENSG00000144366	ENST00000476422	retained_intron	KNOWN	None	18649	None	None	189387465	189449036	1	None	CED6, CED-6, GULP
2	GULP1	ENSG00000144366	ENST00000467422	processed_transcript	KNOWN	None	18649	None	None	189387495	189449114	1	None	CED6, CED-6, GULP
2	GULP1	ENSG00000144366	ENST00000495745	processed_transcript	KNOWN	None	18649	None	None	189393899	189453428	1	None	CED6, CED-6, GULP
2	GULP1	ENSG00000144366	ENST00000478306	processed_transcript	KNOWN	None	18649	None	None	189434319	189459048	1	None	CED6, CED-6, GULP
2	GULP1	ENSG00000144366	ENST00000451191	protein_coding	PUTATIVE	None	18649	443	146	189434765	189459786	1	None	CED6, CED-6, GULP
2	GULP1	ENSG00000144366	ENST00000433052	protein_coding	NOVEL	None	18649	569	188	189434810	189458936	1	None	CED6, CED-6, GULP
2	GULP1	ENSG00000144366	ENST00000496976	retained_intron	KNOWN	None	18649	None	None	189454318	189459095	1	None	CED6, CED-6, GULP
9	None	ENSG00000232946	ENST00000427308	processed_pseudogene	KNOWN	None	None	None	None	6675284	6675614	1	None	None
9	None	ENSG00000229611	ENST00000412339	lincRNA	KNOWN	None	None	None	None	6704471	6707780	1	None	None
7	SPDYE1	ENSG00000136206	ENST00000258704	protein_coding	KNOWN	CCDS5475	16408	1011	336	44040488	44049721	1	WBSCR19	Ringo1, SPDYE
9	None	ENSG00000225489	ENST00000452643	lincRNA	KNOWN	None	None	None	None	6716548	6723630	1	None	None
9	None	ENSG00000225489	ENST00000443688	retained_intron	KNOWN	None	None	None	None	6718810	6719370	1	None	None
9	None	ENSG00000225489	ENST00000451142	lincRNA	KNOWN	None	None	None	None	6718965	6727438	1	None	None
9	None	ENSG00000231108	ENST00000414230	processed_pseudogene	KNOWN	None	None	None	None	6734598	6735076	-1	None	None
9	IDNK	ENSG00000148057	ENST00000533522	nonsense_mediated_decay	KNOWN	None	31367	321	106	86237964	86259045	1	C9orf103	bA522I20.2
9	IDNK	ENSG00000148057	ENST00000530832	protein_coding	PUTATIVE	None	31367	270	89	86238062	86258539	1	C9orf103	bA522I20.2
9	IDNK	ENSG00000148057	ENST00000405990	protein_coding	PUTATIVE	None	31367	180	59	86238081	86258785	1	C9orf103	bA522I20.2
9	IDNK	ENSG00000148057	ENST00000376417	protein_coding	NOVEL	None	31367	273	90	86238083	86258682	1	C9orf103	bA522I20.2
9	IDNK	ENSG00000148057	ENST00000376419	protein_coding	KNOWN	CCDS35048	31367	564	187	86238083	86258819	1	C9orf103	bA522I20.2
9	IDNK	ENSG00000148057	ENST00000454393	protein_coding	KNOWN	None	31367	693	230	86238260	86259038	1	C9orf103	bA522I20.2
9	IDNK	ENSG00000148057	ENST00000277124	protein_coding	KNOWN	CCDS59134	31367	426	141	86237966	86259038	1	C9orf103	bA522I20.2
17	FXR2	ENSG00000129245	ENST00000250113	protein_coding	KNOWN	CCDS45604	4024	2022	673	7494548	7518185	-1	FMR1L2	None
17	FXR2	ENSG00000129245	ENST00000573057	processed_transcript	PUTATIVE	None	4024	None	None	7494760	7495675	-1	FMR1L2	None
17	FXR2	ENSG00000129245	ENST00000571079	retained_intron	KNOWN	None	4024	None	None	7496897	7497650	-1	FMR1L2	None
17	FXR2	ENSG00000129245	ENST00000573957	retained_intron	KNOWN	None	4024	None	None	7497693	7504754	-1	FMR1L2	None
17	FXR2	ENSG00000129245	ENST00000574490	retained_intron	KNOWN	None	4024	None	None	7497990	7499798	-1	FMR1L2	None
17	FXR2	ENSG00000129245	ENST00000576693	retained_intron	KNOWN	None	4024	None	None	7506051	7507384	-1	FMR1L2	None
17	FXR2	ENSG00000129245	ENST00000571597	protein_coding	PUTATIVE	None	4024	355	117	7506286	7518189	-1	FMR1L2	None
8	PIWIL2	ENSG00000197181	ENST00000356766	protein_coding	KNOWN	CCDS6029	17644	2922	973	22132810	22215076	1	None	HILI, FLJ10351, Mili, CT80
8	PIWIL2	ENSG00000197181	ENST00000521356	protein_coding	PUTATIVE	None	17644	2814	937	22132850	22213584	1	None	HILI, FLJ10351, Mili, CT80
8	PIWIL2	ENSG00000197181	ENST00000454009	protein_coding	PUTATIVE	CCDS6029	17644	2922	973	22133080	22213029	1	None	HILI, FLJ10351, Mili, CT80
8	PIWIL2	ENSG00000197181	ENST00000519884	retained_intron	KNOWN	None	17644	None	None	22210312	22213601	1	None	HILI, FLJ10351, Mili, CT80
2	ADI1	ENSG00000182551	ENST00000327435	protein_coding	KNOWN	CCDS1653	30576	540	179	3501132	3523507	-1	None	SIPL, MTCBP-1, ARD, APL1, FLJ10913, HMFT1638, mtnD
2	ADI1	ENSG00000182551	ENST00000382093	protein_coding	PUTATIVE	None	30576	522	173	3502224	3521518	-1	None	SIPL, MTCBP-1, ARD, APL1, FLJ10913, HMFT1638, mtnD
2	ADI1	ENSG00000182551	ENST00000415131	protein_coding	PUTATIVE	None	30576	352	116	3502432	3504587	-1	None	SIPL, MTCBP-1, ARD, APL1, FLJ10913, HMFT1638, mtnD
7	GET4	ENSG00000239857	ENST00000265857	protein_coding	KNOWN	CCDS5317	21690	984	327	916189	936071	1	C7orf20	CGI-20, H_NH1244M04.5, CEE, TRC35
7	GET4	ENSG00000239857	ENST00000412734	protein_coding	PUTATIVE	None	21690	446	147	917542	930703	1	C7orf20	CGI-20, H_NH1244M04.5, CEE, TRC35
7	GET4	ENSG00000239857	ENST00000407192	protein_coding	PUTATIVE	None	21690	825	274	923180	936073	1	C7orf20	CGI-20, H_NH1244M04.5, CEE, TRC35
7	GET4	ENSG00000239857	ENST00000441491	protein_coding	PUTATIVE	None	21690	502	166	923661	927156	1	C7orf20	CGI-20, H_NH1244M04.5, CEE, TRC35
7	GET4	ENSG00000239857	ENST00000426056	protein_coding	PUTATIVE	None	21690	476	157	926670	930691	1	C7orf20	CGI-20, H_NH1244M04.5, CEE, TRC35
7	GET4	ENSG00000239857	ENST00000483469	retained_intron	KNOWN	None	21690	None	None	927123	932111	1	C7orf20	CGI-20, H_NH1244M04.5, CEE, TRC35
7	GET4	ENSG00000239857	ENST00000464468	retained_intron	KNOWN	None	21690	None	None	931937	935295	1	C7orf20	CGI-20, H_NH1244M04.5, CEE, TRC35
2	DIRC1	ENSG00000174325	ENST00000308100	protein_coding	KNOWN	CCDS2296	15760	315	104	189598882	189654831	-1	None	None
15	C15orf38-AP3S2	ENSG00000250021	ENST00000398333	protein_coding	KNOWN	CCDS55977	38824	1185	394	90377540	90456114	-1	None	None
15	C15orf38-AP3S2	ENSG00000250021	ENST00000558648	protein_coding	PUTATIVE	None	38824	557	184	90380854	90451631	-1	None	None
15	C15orf38-AP3S2	ENSG00000250021	ENST00000559629	protein_coding	PUTATIVE	None	38824	554	183	90380854	90451645	-1	None	None
15	C15orf38-AP3S2	ENSG00000250021	ENST00000560224	processed_transcript	KNOWN	None	38824	None	None	90408693	90446597	-1	None	None
11	OR6X1	ENSG00000221931	ENST00000327930	protein_coding	KNOWN	CCDS31695	14737	939	312	123624196	123625253	-1	None	None
16	NPIPB4	ENSG00000185864	ENST00000165086	processed_transcript	KNOWN	None	41985	None	None	21848795	21854733	-1	None	None
16	NPIPB4	ENSG00000185864	ENST00000545367	retained_intron	KNOWN	None	41985	None	None	21848885	21851199	-1	None	None
16	NPIPB4	ENSG00000185864	ENST00000542133	nonsense_mediated_decay	KNOWN	None	41985	123	40	21848945	21868923	-1	None	None
16	NPIPB4	ENSG00000185864	ENST00000543660	retained_intron	KNOWN	None	41985	None	None	21849014	21854801	-1	None	None
16	NPIPB4	ENSG00000185864	ENST00000541329	processed_transcript	KNOWN	None	41985	None	None	21849045	21854811	-1	None	None
16	NPIPB4	ENSG00000185864	ENST00000539318	processed_transcript	KNOWN	None	41985	None	None	21854707	21875154	-1	None	None
16	NPIPB4	ENSG00000185864	ENST00000341400	protein_coding	NOVEL	None	41985	488	161	21854764	21868978	-1	None	None
16	NPIPB4	ENSG00000185864	ENST00000518761	protein_coding	NOVEL	None	41985	445	147	21854807	21868983	-1	None	None
16	NPIPB4	ENSG00000185864	ENST00000543654	protein_coding	PUTATIVE	None	41985	270	89	21855037	21863541	-1	None	None
16	NPIPB4	ENSG00000185864	ENST00000520808	nonsense_mediated_decay	KNOWN	None	41985	150	49	21855065	21868981	-1	None	None
16	NPIPB4	ENSG00000185864	ENST00000542338	processed_transcript	KNOWN	None	41985	None	None	21858733	21862840	-1	None	None
16	NPIPB4	ENSG00000185864	ENST00000539191	processed_transcript	KNOWN	None	41985	None	None	21858735	21862576	-1	None	None
16	NPIPB4	ENSG00000185864	ENST00000536041	nonsense_mediated_decay	KNOWN	None	41985	150	49	21858774	21875158	-1	None	None
16	NPIPB4	ENSG00000185864	ENST00000529969	nonsense_mediated_decay	KNOWN	None	41985	150	49	21858803	21869003	-1	None	None
16	NPIPB4	ENSG00000185864	ENST00000540103	processed_transcript	KNOWN	None	41985	None	None	21863270	21868937	-1	None	None
16	NPIPB4	ENSG00000185864	ENST00000543449	processed_transcript	KNOWN	None	41985	None	None	21868364	21891620	-1	None	None
16	NPIPB4	ENSG00000185864	ENST00000541674	protein_coding	NOVEL	None	41985	87	28	21868613	21875424	-1	None	None
16	NPIPB4	ENSG00000185864	ENST00000544693	protein_coding	NOVEL	None	41985	82	26	21868618	21877629	-1	None	None
16	NPIPB4	ENSG00000185864	ENST00000538859	processed_transcript	KNOWN	None	41985	None	None	21868656	21892148	-1	None	None
16	NPIPB4	ENSG00000185864	ENST00000415645	protein_coding	KNOWN	None	41985	3417	1138	21845890	21868739	-1	None	None
16	NPIPB4	ENSG00000185864	ENST00000357370	protein_coding	KNOWN	None	41985	2547	848	21846039	21868978	-1	None	None
16	NPIPB4	ENSG00000185864	ENST00000451409	protein_coding	KNOWN	None	41985	2979	992	21846039	21868978	-1	None	None
16	NPIPB4	ENSG00000185864	ENST00000537951	protein_coding	KNOWN	None	41985	1263	420	21845992	21849091	-1	None	None
8	EMC2	ENSG00000104412	ENST00000524143	protein_coding	PUTATIVE	None	28963	338	111	109455830	109468131	1	KIAA0103, TTC35	None
8	EMC2	ENSG00000104412	ENST00000220853	protein_coding	KNOWN	CCDS6309	28963	894	297	109455853	109499141	1	KIAA0103, TTC35	None
8	EMC2	ENSG00000104412	ENST00000517593	retained_intron	KNOWN	None	28963	None	None	109455862	109468302	1	KIAA0103, TTC35	None
8	EMC2	ENSG00000104412	ENST00000517784	processed_transcript	KNOWN	None	28963	None	None	109455866	109483191	1	KIAA0103, TTC35	None
8	EMC2	ENSG00000104412	ENST00000519642	protein_coding	PUTATIVE	None	28963	404	133	109462660	109498792	1	KIAA0103, TTC35	None
8	EMC2	ENSG00000104412	ENST00000520294	processed_transcript	KNOWN	None	28963	None	None	109476276	109498865	1	KIAA0103, TTC35	None
8	EMC2	ENSG00000104412	ENST00000519450	retained_intron	KNOWN	None	28963	None	None	109486080	109499145	1	KIAA0103, TTC35	None
11	OR6M1	ENSG00000196099	ENST00000309154	protein_coding	KNOWN	CCDS31696	14711	942	313	123676043	123677095	-1	None	None
9	SNRPEP2	ENSG00000256968	ENST00000397592	processed_pseudogene	KNOWN	None	20733	None	None	6748703	6748981	-1	SNRPEL1	bA390F4.4
11	FOLR3	ENSG00000110203	ENST00000542161	nonsense_mediated_decay	KNOWN	None	3795	315	104	71825915	71850672	1	None	FR-G
11	FOLR3	ENSG00000110203	ENST00000445078	protein_coding	NOVEL	None	3795	858	285	71846756	71850936	1	None	FR-G
11	FOLR3	ENSG00000110203	ENST00000325101	nonsense_mediated_decay	KNOWN	None	3795	315	104	71846798	71850926	1	None	FR-G
11	FOLR3	ENSG00000110203	ENST00000546166	protein_coding	PUTATIVE	None	3795	224	73	71846894	71850068	1	None	FR-G
11	FOLR3	ENSG00000110203	ENST00000545379	retained_intron	KNOWN	None	3795	None	None	71850294	71850761	1	None	FR-G
11	FOLR3	ENSG00000110203	ENST00000456237	protein_coding	KNOWN	None	3795	864	287	71846771	71850934	1	None	FR-G
11	FOLR3	ENSG00000110203	ENST00000442948	protein_coding	KNOWN	None	3795	735	244	71846771	71850934	1	None	FR-G
9	None	ENSG00000230581	ENST00000446382	processed_pseudogene	KNOWN	None	None	None	None	6834456	6835577	1	None	None
9	None	ENSG00000224972	ENST00000445708	sense_intronic	KNOWN	None	None	None	None	6902670	6978859	1	None	None
12	ORAI1	ENSG00000182500	ENST00000330079	protein_coding	KNOWN	CCDS41851	25896	912	303	122064455	122080583	1	TMEM142A	FLJ14466, CRACM1
12	ORAI1	ENSG00000182500	ENST00000537188	protein_coding	PUTATIVE	None	25896	487	161	122064721	122079439	1	TMEM142A	FLJ14466, CRACM1
9	RPL4P5	ENSG00000230207	ENST00000413888	processed_pseudogene	KNOWN	None	35699	None	None	7477045	7478320	-1	None	None
9	None	ENSG00000178654	ENST00000441944	processed_pseudogene	KNOWN	None	None	None	None	7597823	7598377	1	None	None
9	None	ENSG00000178654	ENST00000321231	processed_pseudogene	KNOWN	None	None	None	None	7597904	7598233	1	None	None
9	None	ENSG00000226376	ENST00000413066	lincRNA	KNOWN	None	None	None	None	7930827	7935137	-1	None	None
16	SMPD3	ENSG00000103056	ENST00000219334	protein_coding	KNOWN	CCDS10867	14240	1968	655	68392231	68482591	-1	None	NSMASE2
16	SMPD3	ENSG00000103056	ENST00000574662	protein_coding	PUTATIVE	None	14240	622	206	68394441	68404908	-1	None	NSMASE2
16	SMPD3	ENSG00000103056	ENST00000568373	protein_coding	NOVEL	None	14240	1917	638	68395030	68406161	-1	None	NSMASE2
16	SMPD3	ENSG00000103056	ENST00000563226	protein_coding	NOVEL	None	14240	1944	647	68395037	68406161	-1	None	NSMASE2
16	SMPD3	ENSG00000103056	ENST00000563396	retained_intron	KNOWN	None	14240	None	None	68395202	68397596	-1	None	NSMASE2
16	SMPD3	ENSG00000103056	ENST00000567223	retained_intron	KNOWN	None	14240	None	None	68397645	68404934	-1	None	NSMASE2
16	SMPD3	ENSG00000103056	ENST00000566009	processed_transcript	KNOWN	None	14240	None	None	68398317	68404934	-1	None	NSMASE2
16	SMPD3	ENSG00000103056	ENST00000567811	retained_intron	KNOWN	None	14240	None	None	68398483	68404934	-1	None	NSMASE2
16	SMPD3	ENSG00000103056	ENST00000563455	processed_transcript	KNOWN	None	14240	None	None	68401355	68404912	-1	None	NSMASE2
16	SMPD3	ENSG00000103056	ENST00000566466	processed_transcript	KNOWN	None	14240	None	None	68402758	68404983	-1	None	NSMASE2
16	SMPD3	ENSG00000103056	ENST00000566723	processed_transcript	KNOWN	None	14240	None	None	68404877	68482345	-1	None	NSMASE2
16	SMPD3	ENSG00000103056	ENST00000561749	protein_coding	KNOWN	None	14240	281	92	68405804	68482395	-1	None	NSMASE2
9	None	ENSG00000231902	ENST00000435444	lincRNA	KNOWN	None	None	None	None	7960413	7961080	-1	None	None
4	C4orf36	ENSG00000163633	ENST00000295898	protein_coding	KNOWN	CCDS3615	28386	354	117	87797358	87813548	-1	None	MGC26744
4	C4orf36	ENSG00000163633	ENST00000473559	protein_coding	KNOWN	CCDS3615	28386	354	117	87807625	87855884	-1	None	MGC26744
4	C4orf36	ENSG00000163633	ENST00000462714	nonsense_mediated_decay	KNOWN	None	28386	99	32	87807950	87813563	-1	None	MGC26744
4	C4orf36	ENSG00000163633	ENST00000506308	protein_coding	KNOWN	None	28386	339	112	87808928	87813569	-1	None	MGC26744
4	C4orf36	ENSG00000163633	ENST00000512468	nonsense_mediated_decay	KNOWN	None	28386	141	46	87808998	87813473	-1	None	MGC26744
4	C4orf36	ENSG00000163633	ENST00000504008	protein_coding	KNOWN	None	28386	243	80	87809024	87813566	-1	None	MGC26744
4	C4orf36	ENSG00000163633	ENST00000503001	processed_transcript	KNOWN	None	28386	None	None	87809293	87857330	-1	None	MGC26744
4	C4orf36	ENSG00000163633	ENST00000504371	processed_transcript	KNOWN	None	28386	None	None	87809313	87813575	-1	None	MGC26744
4	C4orf36	ENSG00000163633	ENST00000508280	retained_intron	KNOWN	None	28386	None	None	87846046	87856002	-1	None	MGC26744
4	C4orf36	ENSG00000163633	ENST00000506484	retained_intron	KNOWN	None	28386	None	None	87847019	87857331	-1	None	MGC26744
4	C4orf36	ENSG00000163633	ENST00000509262	retained_intron	KNOWN	None	28386	None	None	87854317	87855694	-1	None	MGC26744
4	C4orf36	ENSG00000163633	ENST00000503159	processed_transcript	KNOWN	None	28386	None	None	87856603	87857354	-1	None	MGC26744
9	None	ENSG00000235389	ENST00000418571	sense_intronic	KNOWN	None	None	None	None	8700595	8701552	-1	None	None
9	None	ENSG00000212695	ENST00000391389	processed_pseudogene	KNOWN	None	None	None	None	8713311	8713841	1	None	None
9	None	ENSG00000212695	ENST00000426311	processed_pseudogene	KNOWN	None	None	None	None	8713311	8713721	1	None	None
1	SPATA6	ENSG00000132122	ENST00000371847	protein_coding	KNOWN	CCDS551	18309	1467	488	48761044	48937845	-1	None	SRF1, FLJ10007, SRF-1
1	SPATA6	ENSG00000132122	ENST00000371843	protein_coding	KNOWN	None	18309	1419	472	48763509	48937682	-1	None	SRF1, FLJ10007, SRF-1
1	SPATA6	ENSG00000132122	ENST00000603831	nonsense_mediated_decay	KNOWN	None	18309	495	164	48764316	48866583	-1	None	SRF1, FLJ10007, SRF-1
1	SPATA6	ENSG00000132122	ENST00000371841	protein_coding	KNOWN	None	18309	749	248	48771471	48866522	-1	None	SRF1, FLJ10007, SRF-1
1	SPATA6	ENSG00000132122	ENST00000490850	processed_transcript	KNOWN	None	18309	None	None	48771477	48868416	-1	None	SRF1, FLJ10007, SRF-1
1	SPATA6	ENSG00000132122	ENST00000487629	processed_transcript	KNOWN	None	18309	None	None	48821117	48825394	-1	None	SRF1, FLJ10007, SRF-1
1	SPATA6	ENSG00000132122	ENST00000463938	processed_transcript	KNOWN	None	18309	None	None	48864724	48937688	-1	None	SRF1, FLJ10007, SRF-1
1	SPATA6	ENSG00000132122	ENST00000487543	nonsense_mediated_decay	KNOWN	None	18309	261	86	48865255	48937757	-1	None	SRF1, FLJ10007, SRF-1
1	SPATA6	ENSG00000132122	ENST00000465990	processed_transcript	PUTATIVE	None	18309	None	None	48877136	48917258	-1	None	SRF1, FLJ10007, SRF-1
1	SPATA6	ENSG00000132122	ENST00000471975	processed_transcript	KNOWN	None	18309	None	None	48877159	48937827	-1	None	SRF1, FLJ10007, SRF-1
1	SPATA6	ENSG00000132122	ENST00000396199	protein_coding	KNOWN	None	18309	1251	416	48764320	48937825	-1	None	SRF1, FLJ10007, SRF-1
X	TBC1D25	ENSG00000068354	ENST00000376771	protein_coding	KNOWN	CCDS35242	8092	2067	688	48397845	48420997	1	OATL1	None
X	TBC1D25	ENSG00000068354	ENST00000481090	processed_transcript	KNOWN	None	8092	None	None	48398125	48418274	1	OATL1	None
X	TBC1D25	ENSG00000068354	ENST00000494495	processed_transcript	KNOWN	None	8092	None	None	48398158	48418073	1	OATL1	None
X	TBC1D25	ENSG00000068354	ENST00000476141	processed_transcript	KNOWN	None	8092	None	None	48398159	48418110	1	OATL1	None
X	TBC1D25	ENSG00000068354	ENST00000418627	protein_coding	KNOWN	None	8092	691	229	48398186	48417672	1	OATL1	None
X	TBC1D25	ENSG00000068354	ENST00000427713	protein_coding	KNOWN	None	8092	303	100	48398149	48419449	1	OATL1	None
X	TBC1D25	ENSG00000068354	ENST00000537536	protein_coding	KNOWN	None	8092	1305	434	48398117	48419483	1	OATL1	None
11	TMEM225	ENSG00000204300	ENST00000375026	protein_coding	KNOWN	CCDS31697	32390	678	225	123753633	123756349	-1	None	PMP22CD
11	TMEM225	ENSG00000204300	ENST00000528595	protein_coding	PUTATIVE	None	32390	451	149	123753922	123756340	-1	None	PMP22CD
14	FANCM	ENSG00000187790	ENST00000556036	protein_coding	KNOWN	None	23168	2010	669	45605143	45636626	1	KIAA1596	FAAP250
14	FANCM	ENSG00000187790	ENST00000267430	protein_coding	KNOWN	CCDS32070	23168	6147	2048	45605150	45670090	1	KIAA1596	FAAP250
14	FANCM	ENSG00000187790	ENST00000542564	protein_coding	NOVEL	None	23168	6069	2022	45605157	45669231	1	KIAA1596	FAAP250
14	FANCM	ENSG00000187790	ENST00000554030	retained_intron	KNOWN	None	23168	None	None	45605717	45607162	1	KIAA1596	FAAP250
14	FANCM	ENSG00000187790	ENST00000556250	protein_coding	NOVEL	None	23168	4695	1564	45623962	45670093	1	KIAA1596	FAAP250
14	FANCM	ENSG00000187790	ENST00000554809	protein_coding	NOVEL	None	23168	3049	1015	45645161	45669274	1	KIAA1596	FAAP250
14	FANCM	ENSG00000187790	ENST00000555013	processed_transcript	KNOWN	None	23168	None	None	45650038	45657051	1	KIAA1596	FAAP250
14	FANCM	ENSG00000187790	ENST00000557110	nonsense_mediated_decay	KNOWN	None	23168	408	135	45665375	45669130	1	KIAA1596	FAAP250
14	FANCM	ENSG00000187790	ENST00000555484	protein_coding	PUTATIVE	None	23168	321	106	45665657	45669234	1	KIAA1596	FAAP250
14	FANCM	ENSG00000187790	ENST00000553551	retained_intron	KNOWN	None	23168	None	None	45667638	45669174	1	KIAA1596	FAAP250
2	None	ENSG00000255767	ENST00000438485	protein_coding	PUTATIVE	None	None	105	34	3579574	3595547	-1	None	None
7	ASL	ENSG00000126522	ENST00000304874	protein_coding	KNOWN	CCDS5531	746	1395	464	65540785	65558545	1	None	None
7	ASL	ENSG00000126522	ENST00000487982	retained_intron	KNOWN	None	746	None	None	65540821	65552147	1	None	None
7	ASL	ENSG00000126522	ENST00000496336	retained_intron	KNOWN	None	746	None	None	65540828	65548330	1	None	None
7	ASL	ENSG00000126522	ENST00000380839	protein_coding	KNOWN	CCDS47598	746	1317	438	65540853	65558131	1	None	None
7	ASL	ENSG00000126522	ENST00000395332	protein_coding	KNOWN	CCDS5531	746	1395	464	65540861	65557918	1	None	None
7	ASL	ENSG00000126522	ENST00000362000	protein_coding	NOVEL	None	746	726	241	65540867	65554165	1	None	None
7	ASL	ENSG00000126522	ENST00000395331	protein_coding	KNOWN	CCDS47597	746	1335	444	65540871	65557904	1	None	None
7	ASL	ENSG00000126522	ENST00000493708	retained_intron	KNOWN	None	746	None	None	65552680	65557908	1	None	None
7	ASL	ENSG00000126522	ENST00000488343	processed_transcript	PUTATIVE	None	746	None	None	65554076	65557941	1	None	None
7	ASL	ENSG00000126522	ENST00000464970	processed_transcript	KNOWN	None	746	None	None	65554226	65557941	1	None	None
12	MANSC1	ENSG00000111261	ENST00000535902	protein_coding	KNOWN	CCDS8648	25505	1296	431	12482198	12503475	-1	None	FLJ10298, LOH12CR3
12	MANSC1	ENSG00000111261	ENST00000396349	protein_coding	NOVEL	None	25505	1194	397	12482199	12503175	-1	None	FLJ10298, LOH12CR3
12	MANSC1	ENSG00000111261	ENST00000545735	protein_coding	PUTATIVE	None	25505	1053	350	12482647	12491608	-1	None	FLJ10298, LOH12CR3
12	MANSC1	ENSG00000111261	ENST00000543314	protein_coding	KNOWN	None	25505	172	56	12496077	12503165	-1	None	FLJ10298, LOH12CR3
15	C15orf38	ENSG00000242498	ENST00000357484	protein_coding	KNOWN	CCDS42080	28782	681	226	90443159	90456188	-1	None	MGC61550
15	C15orf38	ENSG00000242498	ENST00000460685	protein_coding	PUTATIVE	None	28782	393	130	90444107	90455919	-1	None	MGC61550
15	C15orf38	ENSG00000242498	ENST00000560096	protein_coding	PUTATIVE	None	28782	409	135	90446081	90447175	-1	None	MGC61550
9	RNU7-185P	ENSG00000239102	ENST00000459215	snRNA	KNOWN	None	45719	None	None	8797135	8797194	1	None	None
2	RNASEH1	ENSG00000171865	ENST00000436842	nonsense_mediated_decay	KNOWN	None	18466	132	43	3592383	3605879	-1	None	None
2	RNASEH1	ENSG00000171865	ENST00000315212	protein_coding	KNOWN	CCDS1647	18466	861	286	3592705	3606206	-1	None	None
2	RNASEH1	ENSG00000171865	ENST00000464986	retained_intron	KNOWN	None	18466	None	None	3597714	3599898	-1	None	None
2	RNASEH1	ENSG00000171865	ENST00000454734	nonsense_mediated_decay	KNOWN	None	18466	132	43	3597964	3605922	-1	None	None
9	None	ENSG00000225706	ENST00000447950	lincRNA	KNOWN	None	None	None	None	8858130	8862255	1	None	None
9	None	ENSG00000225706	ENST00000430766	lincRNA	KNOWN	None	None	None	None	8858134	8861724	1	None	None
19	TSKS	ENSG00000126467	ENST00000599325	retained_intron	KNOWN	None	30719	None	None	50243010	50243588	-1	None	TSSKS
19	TSKS	ENSG00000126467	ENST00000246801	protein_coding	KNOWN	CCDS12780	30719	1779	592	50243012	50266587	-1	None	TSSKS
19	TSKS	ENSG00000126467	ENST00000358830	protein_coding	KNOWN	None	30719	1179	392	50243014	50250635	-1	None	TSSKS
9	None	ENSG00000251699	ENST00000515890	snoRNA	NOVEL	None	None	None	None	8888136	8888207	1	None	None
9	None	ENSG00000234021	ENST00000419824	lincRNA	KNOWN	None	None	None	None	8936079	8963077	1	None	None
2	COL3A1	ENSG00000168542	ENST00000304636	protein_coding	KNOWN	CCDS2297	2201	4401	1466	189839046	189877472	1	EDS4A	None
2	COL3A1	ENSG00000168542	ENST00000470167	retained_intron	KNOWN	None	2201	None	None	189839120	189849938	1	EDS4A	None
2	COL3A1	ENSG00000168542	ENST00000450867	protein_coding	NOVEL	None	2201	268	88	189856400	189859034	1	EDS4A	None
2	COL3A1	ENSG00000168542	ENST00000467886	retained_intron	KNOWN	None	2201	None	None	189868149	189868643	1	EDS4A	None
2	COL3A1	ENSG00000168542	ENST00000487010	retained_intron	KNOWN	None	2201	None	None	189873028	189876774	1	EDS4A	None
2	COL3A1	ENSG00000168542	ENST00000317840	protein_coding	KNOWN	None	2201	3492	1163	189839099	189877472	1	EDS4A	None
19	C19orf59	ENSG00000183019	ENST00000333598	protein_coding	KNOWN	CCDS12183	27291	564	187	7741514	7744712	1	None	MCEMP1, MGC132456
19	C19orf59	ENSG00000183019	ENST00000597445	protein_coding	NOVEL	None	27291	435	144	7741974	7744295	1	None	MCEMP1, MGC132456
19	C19orf59	ENSG00000183019	ENST00000598851	retained_intron	KNOWN	None	27291	None	None	7742815	7743870	1	None	MCEMP1, MGC132456
19	WDR62	ENSG00000075702	ENST00000378860	processed_transcript	KNOWN	None	24502	None	None	36545783	36565206	1	C19orf14, MCPH2	DKFZP434J046, FLJ33298
19	WDR62	ENSG00000075702	ENST00000401500	protein_coding	KNOWN	CCDS46059	24502	4572	1523	36545839	36596005	1	C19orf14, MCPH2	DKFZP434J046, FLJ33298
19	WDR62	ENSG00000075702	ENST00000587391	nonsense_mediated_decay	KNOWN	None	24502	1452	483	36545865	36596008	1	C19orf14, MCPH2	DKFZP434J046, FLJ33298
19	WDR62	ENSG00000075702	ENST00000270301	protein_coding	NOVEL	CCDS33001	24502	4557	1518	36545874	36596005	1	C19orf14, MCPH2	DKFZP434J046, FLJ33298
19	WDR62	ENSG00000075702	ENST00000427823	protein_coding	PUTATIVE	None	24502	955	317	36545892	36562464	1	C19orf14, MCPH2	DKFZP434J046, FLJ33298
19	WDR62	ENSG00000075702	ENST00000589953	processed_transcript	KNOWN	None	24502	None	None	36562508	36566319	1	C19orf14, MCPH2	DKFZP434J046, FLJ33298
19	WDR62	ENSG00000075702	ENST00000388999	protein_coding	KNOWN	None	24502	1452	483	36545783	36572776	1	C19orf14, MCPH2	DKFZP434J046, FLJ33298
8	LY6D	ENSG00000167656	ENST00000301263	protein_coding	KNOWN	CCDS6390	13348	387	128	143866296	143868008	-1	None	E48
8	LY6D	ENSG00000167656	ENST00000518469	retained_intron	KNOWN	None	13348	None	None	143866298	143867720	-1	None	E48
8	LY6D	ENSG00000167656	ENST00000518434	processed_transcript	KNOWN	None	13348	None	None	143866298	143867945	-1	None	E48
8	LY6D	ENSG00000167656	ENST00000518884	retained_intron	KNOWN	None	13348	None	None	143866711	143867348	-1	None	E48
1	NVL	ENSG00000143748	ENST00000481213	processed_transcript	KNOWN	None	8070	None	None	224415036	224420991	-1	None	None
1	NVL	ENSG00000143748	ENST00000483094	processed_transcript	KNOWN	None	8070	None	None	224415036	224424284	-1	None	None
1	NVL	ENSG00000143748	ENST00000493060	processed_transcript	KNOWN	None	8070	None	None	224415036	224424349	-1	None	None
1	NVL	ENSG00000143748	ENST00000489194	processed_transcript	KNOWN	None	8070	None	None	224415036	224455835	-1	None	None
1	NVL	ENSG00000143748	ENST00000469968	protein_coding	NOVEL	None	8070	2218	738	224415036	224517823	-1	None	None
1	NVL	ENSG00000143748	ENST00000391875	protein_coding	KNOWN	CCDS1542	8070	2253	750	224415036	224517872	-1	None	None
1	NVL	ENSG00000143748	ENST00000281701	protein_coding	KNOWN	CCDS1541	8070	2571	856	224415036	224518089	-1	None	None
1	NVL	ENSG00000143748	ENST00000469075	protein_coding	NOVEL	CCDS58063	8070	2298	765	224415071	224517840	-1	None	None
1	NVL	ENSG00000143748	ENST00000482491	protein_coding	PUTATIVE	None	8070	1743	580	224415156	224517841	-1	None	None
1	NVL	ENSG00000143748	ENST00000496393	processed_transcript	KNOWN	None	8070	None	None	224418968	224457617	-1	None	None
1	NVL	ENSG00000143748	ENST00000462893	retained_intron	KNOWN	None	8070	None	None	224476887	224482043	-1	None	None
1	NVL	ENSG00000143748	ENST00000467882	nonsense_mediated_decay	KNOWN	None	8070	891	296	224477384	224517839	-1	None	None
1	NVL	ENSG00000143748	ENST00000488718	protein_coding	NOVEL	None	8070	553	183	224492437	224517840	-1	None	None
1	NVL	ENSG00000143748	ENST00000492281	protein_coding	NOVEL	None	8070	541	179	224492437	224517841	-1	None	None
1	NVL	ENSG00000143748	ENST00000436927	protein_coding	PUTATIVE	None	8070	513	170	224492438	224517830	-1	None	None
1	NVL	ENSG00000143748	ENST00000470989	nonsense_mediated_decay	KNOWN	None	8070	162	53	224492786	224517870	-1	None	None
1	NVL	ENSG00000143748	ENST00000470903	processed_transcript	KNOWN	None	8070	None	None	224495688	224517889	-1	None	None
1	NVL	ENSG00000143748	ENST00000461466	processed_transcript	KNOWN	None	8070	None	None	224495695	224517881	-1	None	None
1	NVL	ENSG00000143748	ENST00000498767	retained_intron	KNOWN	None	8070	None	None	224495710	224499826	-1	None	None
1	NVL	ENSG00000143748	ENST00000461546	protein_coding	NOVEL	None	8070	525	174	224495885	224517881	-1	None	None
1	NVL	ENSG00000143748	ENST00000468673	processed_transcript	KNOWN	None	8070	None	None	224500242	224517850	-1	None	None
1	NVL	ENSG00000143748	ENST00000487758	processed_transcript	KNOWN	None	8070	None	None	224500429	224517834	-1	None	None
1	NVL	ENSG00000143748	ENST00000468088	processed_transcript	KNOWN	None	8070	None	None	224505396	224517874	-1	None	None
1	NVL	ENSG00000143748	ENST00000340871	protein_coding	KNOWN	CCDS58062	8070	2004	667	224415156	224517841	-1	None	None
1	NVL	ENSG00000143748	ENST00000361463	protein_coding	KNOWN	None	8070	1770	589	224420909	224517843	-1	None	None
11	OR8D4	ENSG00000181518	ENST00000321355	protein_coding	KNOWN	CCDS31698	14840	945	314	123777109	123778183	1	None	None
6	C6orf132	ENSG00000188112	ENST00000341865	protein_coding	PUTATIVE	CCDS47428	21288	3567	1188	42068856	42110182	-1	None	bA7K24.2
6	C6orf132	ENSG00000188112	ENST00000356542	protein_coding	PUTATIVE	None	21288	300	99	42094115	42110357	-1	None	bA7K24.2
9	RPS26P3	ENSG00000212829	ENST00000470205	processed_pseudogene	KNOWN	None	23411	None	None	9090898	9091245	1	None	bA338L20.1
9	RPS26P3	ENSG00000212829	ENST00000540822	processed_pseudogene	KNOWN	None	23411	None	None	9090876	9091311	1	None	bA338L20.1
14	YLPM1	ENSG00000119596	ENST00000552421	protein_coding	NOVEL	None	17798	4323	1440	75230069	75302893	1	C14orf170	ZAP
14	YLPM1	ENSG00000119596	ENST00000325680	protein_coding	KNOWN	CCDS45135	17798	6441	2146	75230069	75302893	1	C14orf170	ZAP
14	YLPM1	ENSG00000119596	ENST00000549293	nonsense_mediated_decay	KNOWN	None	17798	4788	1595	75248088	75302893	1	C14orf170	ZAP
14	YLPM1	ENSG00000119596	ENST00000547879	protein_coding	PUTATIVE	None	17798	1401	466	75276335	75288818	1	C14orf170	ZAP
14	YLPM1	ENSG00000119596	ENST00000554107	protein_coding	PUTATIVE	None	17798	331	109	75283941	75322244	1	C14orf170	ZAP
14	YLPM1	ENSG00000119596	ENST00000546901	processed_transcript	KNOWN	None	17798	None	None	75285012	75294735	1	C14orf170	ZAP
14	YLPM1	ENSG00000119596	ENST00000550021	retained_intron	KNOWN	None	17798	None	None	75290681	75295992	1	C14orf170	ZAP
14	YLPM1	ENSG00000119596	ENST00000549197	retained_intron	KNOWN	None	17798	None	None	75301601	75304012	1	C14orf170	ZAP
14	YLPM1	ENSG00000119596	ENST00000238571	protein_coding	KNOWN	None	17798	5469	1822	75230069	75287903	1	C14orf170	ZAP
15	ZNF710	ENSG00000140548	ENST00000268154	protein_coding	KNOWN	CCDS10358	25352	1995	664	90544624	90625432	1	None	DKFZp547K1113, FLJ37393, FLJ00306
15	ZNF710	ENSG00000140548	ENST00000559419	protein_coding	KNOWN	None	25352	237	78	90545718	90610606	1	None	DKFZp547K1113, FLJ37393, FLJ00306
15	ZNF710	ENSG00000140548	ENST00000558883	protein_coding	PUTATIVE	None	25352	1164	387	90611246	90617764	1	None	DKFZp547K1113, FLJ37393, FLJ00306
15	ZNF710	ENSG00000140548	ENST00000559360	protein_coding	PUTATIVE	None	25352	482	159	90611538	90617768	1	None	DKFZp547K1113, FLJ37393, FLJ00306
15	ZNF710	ENSG00000140548	ENST00000560908	processed_transcript	KNOWN	None	25352	None	None	90624694	90625438	1	None	DKFZp547K1113, FLJ37393, FLJ00306
6	COX7A2	ENSG00000112695	ENST00000370081	protein_coding	KNOWN	CCDS34486	2288	348	115	75947391	75960039	-1	None	COXVIIa-L, COX7AL
6	COX7A2	ENSG00000112695	ENST00000370089	protein_coding	KNOWN	CCDS34486	2288	348	115	75947400	75953725	-1	None	COXVIIa-L, COX7AL
6	COX7A2	ENSG00000112695	ENST00000459637	nonsense_mediated_decay	KNOWN	None	2288	203	66	75947503	75953503	-1	None	COXVIIa-L, COX7AL
6	COX7A2	ENSG00000112695	ENST00000509698	protein_coding	NOVEL	None	2288	276	91	75947503	75953511	-1	None	COXVIIa-L, COX7AL
6	COX7A2	ENSG00000112695	ENST00000460985	protein_coding	NOVEL	None	2288	162	53	75947505	75953504	-1	None	COXVIIa-L, COX7AL
6	COX7A2	ENSG00000112695	ENST00000472311	protein_coding	PUTATIVE	None	2288	231	76	75947539	75953501	-1	None	COXVIIa-L, COX7AL
6	COX7A2	ENSG00000112695	ENST00000377978	protein_coding	NOVEL	None	2288	310	102	75950017	75953506	-1	None	COXVIIa-L, COX7AL
6	COX7A2	ENSG00000112695	ENST00000481061	retained_intron	KNOWN	None	2288	None	None	75950161	75953525	-1	None	COXVIIa-L, COX7AL
6	COX7A2	ENSG00000112695	ENST00000230459	protein_coding	KNOWN	None	2288	252	83	75947393	75953644	-1	None	COXVIIa-L, COX7AL
9	None	ENSG00000221708	ENST00000408781	miRNA	NOVEL	None	None	None	None	9425461	9425558	-1	None	None
9	RN7SL5P	ENSG00000265735	ENST00000581458	misc_RNA	KNOWN	None	10040	None	None	9442060	9442347	1	RN7SLP2, RN7SL249P	7LEM1
9	None	ENSG00000230920	ENST00000449531	lincRNA	KNOWN	None	None	None	None	9799423	9803784	1	None	None
9	None	ENSG00000234360	ENST00000437701	processed_pseudogene	KNOWN	None	None	None	None	10532145	10532411	1	None	None
6	NCR3	ENSG00000204475	ENST00000495600	processed_transcript	KNOWN	None	19077	None	None	31556672	31560589	-1	LY117	1C7, NKp30, CD337
6	NCR3	ENSG00000204475	ENST00000491161	processed_transcript	KNOWN	None	19077	None	None	31556672	31560736	-1	LY117	1C7, NKp30, CD337
6	NCR3	ENSG00000204475	ENST00000340027	protein_coding	KNOWN	CCDS34397	19077	606	201	31556672	31560762	-1	LY117	1C7, NKp30, CD337
6	NCR3	ENSG00000204475	ENST00000376073	protein_coding	KNOWN	CCDS47401	19077	534	177	31556672	31560762	-1	LY117	1C7, NKp30, CD337
6	NCR3	ENSG00000204475	ENST00000376072	protein_coding	KNOWN	CCDS47402	19077	573	190	31557051	31560762	-1	LY117	1C7, NKp30, CD337
6	NCR3	ENSG00000204475	ENST00000376071	protein_coding	KNOWN	None	19077	498	165	31557074	31560526	-1	LY117	1C7, NKp30, CD337
12	LOH12CR2	ENSG00000205791	ENST00000381800	protein_coding	KNOWN	None	26524	162	53	12508342	12510001	-1	None	LOH2CR12
12	MORN3	ENSG00000139714	ENST00000355329	protein_coding	KNOWN	CCDS31917	29807	723	240	122089024	122107560	-1	None	None
12	MORN3	ENSG00000139714	ENST00000392462	nonsense_mediated_decay	KNOWN	None	29807	483	160	122089298	122107556	-1	None	None
12	MORN3	ENSG00000139714	ENST00000542364	nonsense_mediated_decay	KNOWN	None	29807	483	160	122089298	122110537	-1	None	None
1	AGBL4	ENSG00000186094	ENST00000371839	protein_coding	KNOWN	CCDS44137	25892	1512	503	48998527	50489585	-1	None	FLJ14442
1	AGBL4	ENSG00000186094	ENST00000416121	protein_coding	KNOWN	None	25892	899	298	49049542	49511386	-1	None	FLJ14442
1	AGBL4	ENSG00000186094	ENST00000371838	protein_coding	KNOWN	None	25892	963	320	49099880	50489585	-1	None	FLJ14442
1	AGBL4	ENSG00000186094	ENST00000371836	protein_coding	KNOWN	None	25892	654	217	49283179	50489572	-1	None	FLJ14442
1	AGBL4	ENSG00000186094	ENST00000497451	processed_transcript	KNOWN	None	25892	None	None	49992900	50317190	-1	None	FLJ14442
1	AGBL4	ENSG00000186094	ENST00000334103	protein_coding	KNOWN	None	25892	684	227	48999845	49146574	-1	None	FLJ14442
11	FOLR1	ENSG00000110195	ENST00000312293	protein_coding	KNOWN	CCDS8211	3791	774	257	71900602	71907344	1	FOLR	None
11	FOLR1	ENSG00000110195	ENST00000393681	protein_coding	KNOWN	CCDS8211	3791	774	257	71900712	71907342	1	FOLR	None
11	FOLR1	ENSG00000110195	ENST00000393679	protein_coding	KNOWN	CCDS8211	3791	774	257	71901258	71907342	1	FOLR	None
11	FOLR1	ENSG00000110195	ENST00000393676	protein_coding	KNOWN	CCDS8211	3791	774	257	71903169	71907345	1	FOLR	None
11	SCGB1D1	ENSG00000168515	ENST00000306238	protein_coding	KNOWN	CCDS8015	18395	273	90	61957688	61961011	1	None	LPHA, LIPA, MGC71958
8	GML	ENSG00000104499	ENST00000522728	protein_coding	PUTATIVE	None	4375	355	117	143915663	143997922	1	None	LY6DL
8	GML	ENSG00000104499	ENST00000220940	protein_coding	KNOWN	CCDS6391	4375	477	158	143916217	143928262	1	None	LY6DL
12	LOH12CR1	ENSG00000165714	ENST00000542728	protein_coding	PUTATIVE	None	17950	534	177	12510013	12618717	1	None	LOH1CR12
12	LOH12CR1	ENSG00000165714	ENST00000314565	protein_coding	KNOWN	CCDS8649	17950	591	196	12510055	12619840	1	None	LOH1CR12
12	LOH12CR1	ENSG00000165714	ENST00000543990	retained_intron	KNOWN	None	17950	None	None	12510292	12588819	1	None	LOH1CR12
12	LOH12CR1	ENSG00000165714	ENST00000298571	protein_coding	KNOWN	None	17950	447	148	12510352	12618778	1	None	LOH1CR12
9	None	ENSG00000226717	ENST00000429581	lincRNA	KNOWN	None	None	None	None	10613202	10620420	1	None	None
11	OR4D5	ENSG00000171014	ENST00000307033	protein_coding	KNOWN	CCDS31699	14852	957	318	123810250	123811344	1	None	None
1	INTS3	ENSG00000143624	ENST00000318967	protein_coding	KNOWN	CCDS1052	26153	3129	1042	153700543	153746555	1	C1orf60	FLJ21919, INT3, SOSS-A
1	INTS3	ENSG00000143624	ENST00000435409	protein_coding	KNOWN	CCDS1052	26153	3129	1042	153700567	153746011	1	C1orf60	FLJ21919, INT3, SOSS-A
1	INTS3	ENSG00000143624	ENST00000481797	retained_intron	KNOWN	None	26153	None	None	153700959	153746555	1	C1orf60	FLJ21919, INT3, SOSS-A
1	INTS3	ENSG00000143624	ENST00000512605	protein_coding	KNOWN	None	26153	2709	902	153723330	153746204	1	C1orf60	FLJ21919, INT3, SOSS-A
1	INTS3	ENSG00000143624	ENST00000476843	processed_transcript	KNOWN	None	26153	None	None	153723611	153746555	1	C1orf60	FLJ21919, INT3, SOSS-A
1	INTS3	ENSG00000143624	ENST00000480659	retained_intron	KNOWN	None	26153	None	None	153724553	153733378	1	C1orf60	FLJ21919, INT3, SOSS-A
1	INTS3	ENSG00000143624	ENST00000503133	nonsense_mediated_decay	KNOWN	None	26153	148	48	153730113	153745795	1	C1orf60	FLJ21919, INT3, SOSS-A
1	INTS3	ENSG00000143624	ENST00000491790	retained_intron	KNOWN	None	26153	None	None	153732150	153735316	1	C1orf60	FLJ21919, INT3, SOSS-A
1	INTS3	ENSG00000143624	ENST00000368670	retained_intron	KNOWN	None	26153	None	None	153738951	153746555	1	C1orf60	FLJ21919, INT3, SOSS-A
1	INTS3	ENSG00000143624	ENST00000368669	retained_intron	KNOWN	None	26153	None	None	153739307	153746555	1	C1orf60	FLJ21919, INT3, SOSS-A
1	INTS3	ENSG00000143624	ENST00000456435	protein_coding	KNOWN	None	26153	2709	902	153700543	153746555	1	C1orf60	FLJ21919, INT3, SOSS-A
16	C16orf46	ENSG00000166455	ENST00000378611	protein_coding	KNOWN	CCDS42201	26525	1167	388	81087102	81110818	-1	None	FLJ32702
16	C16orf46	ENSG00000166455	ENST00000299578	protein_coding	KNOWN	CCDS10932	26525	1188	395	81094592	81110849	-1	None	FLJ32702
16	C16orf46	ENSG00000166455	ENST00000444657	processed_transcript	PUTATIVE	None	26525	None	None	81095315	81110872	-1	None	FLJ32702
16	C16orf46	ENSG00000166455	ENST00000565253	protein_coding	KNOWN	None	26525	202	66	81097359	81110683	-1	None	FLJ32702
11	OR6T1	ENSG00000181499	ENST00000321252	protein_coding	KNOWN	CCDS31700	14848	972	323	123813492	123814580	-1	None	None
11	OR10S1	ENSG00000196248	ENST00000531945	protein_coding	KNOWN	CCDS31701	14807	996	331	123847368	123848488	-1	None	None
11	OR10G4	ENSG00000254737	ENST00000320891	protein_coding	KNOWN	CCDS31702	14809	936	311	123886282	123887217	1	None	None
11	SCGB2A1	ENSG00000124939	ENST00000244930	protein_coding	KNOWN	CCDS8016	7051	288	95	61976140	61981408	1	MGB2	UGB3, LPHC, MGC71973
11	OR10G9	ENSG00000236981	ENST00000375024	protein_coding	KNOWN	CCDS31703	15129	936	311	123893720	123894655	1	OR10G10P	None
1	BEND5	ENSG00000162373	ENST00000371833	protein_coding	KNOWN	CCDS552	25668	1266	421	49193195	49242590	-1	C1orf165	FLJ11588
1	BEND5	ENSG00000162373	ENST00000476079	processed_transcript	KNOWN	None	25668	None	None	49193539	49224605	-1	C1orf165	FLJ11588
1	BEND5	ENSG00000162373	ENST00000463562	retained_intron	KNOWN	None	25668	None	None	49193542	49242604	-1	C1orf165	FLJ11588
1	BEND5	ENSG00000162373	ENST00000476096	processed_transcript	KNOWN	None	25668	None	None	49193545	49224927	-1	C1orf165	FLJ11588
1	BEND5	ENSG00000162373	ENST00000480399	processed_transcript	KNOWN	None	25668	None	None	49224879	49242641	-1	C1orf165	FLJ11588
1	BEND5	ENSG00000162373	ENST00000489956	retained_intron	KNOWN	None	25668	None	None	49226720	49242407	-1	C1orf165	FLJ11588
6	GUCA1A	ENSG00000048545	ENST00000418175	protein_coding	KNOWN	None	4678	264	87	42123144	42146080	1	GUCA, GUCA1, C6orf131	GCAP, GCAP1, COD3, dJ139D8.6, CORD14
6	GUCA1A	ENSG00000048545	ENST00000053469	protein_coding	KNOWN	CCDS4864	4678	606	201	42123174	42147794	1	GUCA, GUCA1, C6orf131	GCAP, GCAP1, COD3, dJ139D8.6, CORD14
6	GUCA1A	ENSG00000048545	ENST00000394237	protein_coding	KNOWN	CCDS4864	4678	606	201	42123184	42147792	1	GUCA, GUCA1, C6orf131	GCAP, GCAP1, COD3, dJ139D8.6, CORD14
6	GUCA1A	ENSG00000048545	ENST00000372958	protein_coding	KNOWN	CCDS4864	4678	606	201	42141029	42147787	1	GUCA, GUCA1, C6orf131	GCAP, GCAP1, COD3, dJ139D8.6, CORD14
6	GUCA1A	ENSG00000048545	ENST00000541991	protein_coding	KNOWN	CCDS4864	4678	606	201	42123144	42147141	1	GUCA, GUCA1, C6orf131	GCAP, GCAP1, COD3, dJ139D8.6, CORD14
17	None	ENSG00000261915	ENST00000315601	nonsense_mediated_decay	KNOWN	None	None	995	330	7215980	7222394	-1	None	None
17	None	ENSG00000261915	ENST00000575474	nonsense_mediated_decay	KNOWN	None	None	1217	404	7215980	7222493	-1	None	None
17	None	ENSG00000261915	ENST00000573651	nonsense_mediated_decay	KNOWN	None	None	750	249	7225049	7230158	-1	None	None
11	SCGB1D2	ENSG00000124935	ENST00000244926	protein_coding	KNOWN	CCDS8017	18396	273	90	62009682	62012280	1	None	LPHB, LIPB
11	OR10G8	ENSG00000234560	ENST00000431524	protein_coding	KNOWN	CCDS31704	14845	936	311	123900297	123901341	1	None	None
9	UBQLN1	ENSG00000135018	ENST00000376395	protein_coding	KNOWN	CCDS6663	12508	1770	589	86274878	86323118	-1	None	DSK2, PLIC-1, XDRP1, DA41
9	UBQLN1	ENSG00000135018	ENST00000533705	retained_intron	KNOWN	None	12508	None	None	86274886	86300968	-1	None	DSK2, PLIC-1, XDRP1, DA41
9	UBQLN1	ENSG00000135018	ENST00000257468	protein_coding	KNOWN	CCDS6664	12508	1686	561	86276344	86322849	-1	None	DSK2, PLIC-1, XDRP1, DA41
9	UBQLN1	ENSG00000135018	ENST00000526134	protein_coding	NOVEL	None	12508	475	157	86276817	86284206	-1	None	DSK2, PLIC-1, XDRP1, DA41
9	UBQLN1	ENSG00000135018	ENST00000527373	retained_intron	KNOWN	None	12508	None	None	86276826	86280308	-1	None	DSK2, PLIC-1, XDRP1, DA41
9	UBQLN1	ENSG00000135018	ENST00000529923	protein_coding	NOVEL	None	12508	471	156	86292667	86322516	-1	None	DSK2, PLIC-1, XDRP1, DA41
9	PTGES2	ENSG00000148334	ENST00000338961	protein_coding	KNOWN	CCDS6891	17822	1134	377	130882972	130890741	-1	C9orf15	FLJ14038
9	PTGES2	ENSG00000148334	ENST00000496594	retained_intron	KNOWN	None	17822	None	None	130883002	130889996	-1	C9orf15	FLJ14038
9	PTGES2	ENSG00000148334	ENST00000476655	retained_intron	KNOWN	None	17822	None	None	130883030	130886034	-1	C9orf15	FLJ14038
9	PTGES2	ENSG00000148334	ENST00000493205	retained_intron	KNOWN	None	17822	None	None	130883031	130887532	-1	C9orf15	FLJ14038
9	PTGES2	ENSG00000148334	ENST00000487063	processed_transcript	KNOWN	None	17822	None	None	130884725	130890425	-1	C9orf15	FLJ14038
9	PTGES2	ENSG00000148334	ENST00000474124	processed_transcript	KNOWN	None	17822	None	None	130884727	130889954	-1	C9orf15	FLJ14038
9	PTGES2	ENSG00000148334	ENST00000449878	protein_coding	NOVEL	None	17822	796	264	130884745	130890003	-1	C9orf15	FLJ14038
9	PTGES2	ENSG00000148334	ENST00000476748	processed_transcript	KNOWN	None	17822	None	None	130885270	130890674	-1	C9orf15	FLJ14038
9	PTGES2	ENSG00000148334	ENST00000483625	processed_transcript	KNOWN	None	17822	None	None	130885287	130889988	-1	C9orf15	FLJ14038
9	PTGES2	ENSG00000148334	ENST00000497109	processed_transcript	KNOWN	None	17822	None	None	130885401	130890697	-1	C9orf15	FLJ14038
9	PTGES2	ENSG00000148334	ENST00000485510	retained_intron	KNOWN	None	17822	None	None	130886610	130889990	-1	C9orf15	FLJ14038
9	PTGES2	ENSG00000148334	ENST00000485237	processed_transcript	KNOWN	None	17822	None	None	130887523	130890393	-1	C9orf15	FLJ14038
9	PTGES2	ENSG00000148334	ENST00000277462	protein_coding	KNOWN	None	17822	561	186	130883105	130890674	-1	C9orf15	FLJ14038
9	None	ENSG00000232035	ENST00000427161	lincRNA	KNOWN	None	None	None	None	10631750	10632203	-1	None	None
2	COL5A2	ENSG00000204262	ENST00000374866	protein_coding	KNOWN	CCDS33350	2210	4500	1499	189896622	190044605	-1	None	None
2	COL5A2	ENSG00000204262	ENST00000470524	retained_intron	KNOWN	None	2210	None	None	189921492	189927764	-1	None	None
1	None	ENSG00000227839	ENST00000448346	protein_coding	NOVEL	None	None	324	107	50459990	50461874	1	None	None
6	SNX3	ENSG00000112335	ENST00000230085	protein_coding	KNOWN	CCDS5064	11174	489	162	108532426	108582464	-1	None	Grd19
6	SNX3	ENSG00000112335	ENST00000426155	protein_coding	KNOWN	CCDS5065	11174	393	130	108532717	108582168	-1	None	Grd19
6	SNX3	ENSG00000112335	ENST00000368979	nonsense_mediated_decay	KNOWN	None	11174	342	113	108532717	108582450	-1	None	Grd19
6	SNX3	ENSG00000112335	ENST00000349379	protein_coding	KNOWN	None	11174	423	140	108533209	108582448	-1	None	Grd19
6	SNX3	ENSG00000112335	ENST00000368982	protein_coding	KNOWN	None	11174	342	113	108543441	108582464	-1	None	Grd19
12	TMEM120B	ENSG00000188735	ENST00000342607	nonsense_mediated_decay	KNOWN	CCDS41852	32008	1020	339	122150658	122216862	1	None	None
12	TMEM120B	ENSG00000188735	ENST00000449592	protein_coding	KNOWN	CCDS41852	32008	1020	339	122150701	122219968	1	None	None
12	TMEM120B	ENSG00000188735	ENST00000541467	protein_coding	PUTATIVE	None	32008	744	247	122181529	122215695	1	None	None
12	TMEM120B	ENSG00000188735	ENST00000540377	protein_coding	PUTATIVE	None	32008	279	92	122190035	122214064	1	None	None
12	TMEM120B	ENSG00000188735	ENST00000416147	processed_transcript	KNOWN	None	32008	None	None	122214169	122218656	1	None	None
12	TMEM120B	ENSG00000188735	ENST00000411958	processed_transcript	KNOWN	None	32008	None	None	122214190	122216262	1	None	None
12	TMEM120B	ENSG00000188735	ENST00000538055	processed_transcript	KNOWN	None	32008	None	None	122214281	122220907	1	None	None
1	CNIH4	ENSG00000143771	ENST00000465271	protein_coding	KNOWN	CCDS1543	25013	420	139	224544552	224567154	1	None	HSPC163
1	CNIH4	ENSG00000143771	ENST00000366858	protein_coding	KNOWN	None	25013	273	90	224544560	224567154	1	None	HSPC163
1	CNIH4	ENSG00000143771	ENST00000366857	protein_coding	KNOWN	None	25013	279	92	224544573	224567154	1	None	HSPC163
1	CNIH4	ENSG00000143771	ENST00000366860	processed_transcript	KNOWN	None	25013	None	None	224544589	224563700	1	None	HSPC163
1	CNIH4	ENSG00000143771	ENST00000468318	processed_transcript	KNOWN	None	25013	None	None	224544590	224564586	1	None	HSPC163
1	CNIH4	ENSG00000143771	ENST00000366856	protein_coding	KNOWN	None	25013	414	137	224544595	224567154	1	None	HSPC163
1	CNIH4	ENSG00000143771	ENST00000477413	processed_transcript	KNOWN	None	25013	None	None	224544623	224558999	1	None	HSPC163
1	CNIH4	ENSG00000143771	ENST00000469200	processed_transcript	KNOWN	None	25013	None	None	224564753	224567161	1	None	HSPC163
19	AP2A1	ENSG00000196961	ENST00000354293	protein_coding	KNOWN	CCDS46149	561	2868	955	50270225	50310369	1	CLAPA1, ADTAA	None
19	AP2A1	ENSG00000196961	ENST00000600199	processed_transcript	KNOWN	None	561	None	None	50270264	50300819	1	CLAPA1, ADTAA	None
19	AP2A1	ENSG00000196961	ENST00000359032	protein_coding	NOVEL	CCDS46148	561	2934	977	50270391	50310367	1	CLAPA1, ADTAA	None
19	AP2A1	ENSG00000196961	ENST00000597774	nonsense_mediated_decay	KNOWN	None	561	172	56	50270393	50310048	1	CLAPA1, ADTAA	None
19	AP2A1	ENSG00000196961	ENST00000593788	retained_intron	KNOWN	None	561	None	None	50303949	50304990	1	CLAPA1, ADTAA	None
19	AP2A1	ENSG00000196961	ENST00000600466	retained_intron	KNOWN	None	561	None	None	50304804	50307797	1	CLAPA1, ADTAA	None
19	AP2A1	ENSG00000196961	ENST00000594838	retained_intron	KNOWN	None	561	None	None	50305779	50309190	1	CLAPA1, ADTAA	None
19	AP2A1	ENSG00000196961	ENST00000601356	retained_intron	KNOWN	None	561	None	None	50308133	50310370	1	CLAPA1, ADTAA	None
19	None	ENSG00000269711	ENST00000597959	protein_coding	PUTATIVE	None	None	412	136	7743387	7747740	1	None	None
11	SCGB2A2	ENSG00000110484	ENST00000227918	protein_coding	KNOWN	CCDS8018	7050	282	93	62037627	62040628	1	MGB1	UGB2, MGC71974
11	SCGB2A2	ENSG00000110484	ENST00000525380	protein_coding	PUTATIVE	None	7050	363	120	62037630	62039543	1	MGB1	UGB2, MGC71974
19	TRAPPC5	ENSG00000181029	ENST00000596148	protein_coding	KNOWN	CCDS42490	23067	567	188	7745729	7747740	1	None	MGC52424, TRS31
19	TRAPPC5	ENSG00000181029	ENST00000317378	protein_coding	KNOWN	CCDS42490	23067	567	188	7745761	7747742	1	None	MGC52424, TRS31
19	TRAPPC5	ENSG00000181029	ENST00000426877	protein_coding	KNOWN	CCDS42490	23067	567	188	7745765	7747744	1	None	MGC52424, TRS31
19	TRAPPC5	ENSG00000181029	ENST00000595985	protein_coding	PUTATIVE	None	23067	366	121	7747129	7747740	1	None	MGC52424, TRS31
9	KIF24	ENSG00000186638	ENST00000402558	protein_coding	KNOWN	CCDS6551	19916	4107	1368	34252379	34311369	-1	C9orf48	bA571F15.4, FLJ10933, FLJ43884
9	KIF24	ENSG00000186638	ENST00000379174	protein_coding	NOVEL	None	19916	3705	1234	34252379	34311369	-1	C9orf48	bA571F15.4, FLJ10933, FLJ43884
9	KIF24	ENSG00000186638	ENST00000379166	protein_coding	KNOWN	CCDS6551	19916	4107	1368	34252379	34329198	-1	C9orf48	bA571F15.4, FLJ10933, FLJ43884
9	KIF24	ENSG00000186638	ENST00000345050	protein_coding	KNOWN	None	19916	3705	1234	34252379	34329198	-1	C9orf48	bA571F15.4, FLJ10933, FLJ43884
11	OR10G7	ENSG00000182634	ENST00000330487	protein_coding	KNOWN	CCDS31705	14842	936	311	123908773	123909717	-1	None	None
8	CYP11B1	ENSG00000160882	ENST00000314111	retained_intron	KNOWN	None	2591	None	None	143953772	143961262	-1	CYP11B	P450C11, FHI, CPN1
8	CYP11B1	ENSG00000160882	ENST00000519285	protein_coding	NOVEL	None	2591	546	181	143953773	143957213	-1	CYP11B	P450C11, FHI, CPN1
8	CYP11B1	ENSG00000160882	ENST00000292427	protein_coding	KNOWN	CCDS6392	2591	1512	503	143954670	143961262	-1	CYP11B	P450C11, FHI, CPN1
8	CYP11B1	ENSG00000160882	ENST00000517471	protein_coding	KNOWN	CCDS34953	2591	1314	437	143955240	143961240	-1	CYP11B	P450C11, FHI, CPN1
8	CYP11B1	ENSG00000160882	ENST00000377675	protein_coding	NOVEL	None	2591	1725	574	143955241	143961236	-1	CYP11B	P450C11, FHI, CPN1
16	GCSH	ENSG00000140905	ENST00000315467	protein_coding	KNOWN	CCDS10933	4208	522	173	81115566	81130008	-1	None	None
16	GCSH	ENSG00000140905	ENST00000564386	nonsense_mediated_decay	KNOWN	None	4208	239	78	81115941	81129867	-1	None	None
16	GCSH	ENSG00000140905	ENST00000569885	protein_coding	PUTATIVE	None	4208	199	65	81116114	81129845	-1	None	None
16	GCSH	ENSG00000140905	ENST00000561801	nonsense_mediated_decay	KNOWN	None	4208	131	42	81116428	81129862	-1	None	None
16	GCSH	ENSG00000140905	ENST00000564477	nonsense_mediated_decay	KNOWN	None	4208	153	50	81117851	81129923	-1	None	None
16	GCSH	ENSG00000140905	ENST00000566566	protein_coding	PUTATIVE	None	4208	489	162	81117921	81129904	-1	None	None
19	FCER2	ENSG00000104921	ENST00000597312	retained_intron	KNOWN	None	3612	None	None	7753660	7764969	-1	CD23A, FCE2	CLEC4J, CD23
19	FCER2	ENSG00000104921	ENST00000346664	protein_coding	KNOWN	CCDS12184	3612	966	321	7753662	7767032	-1	CD23A, FCE2	CLEC4J, CD23
19	FCER2	ENSG00000104921	ENST00000597921	protein_coding	KNOWN	CCDS12184	3612	966	321	7753667	7766997	-1	CD23A, FCE2	CLEC4J, CD23
19	FCER2	ENSG00000104921	ENST00000598803	retained_intron	KNOWN	None	3612	None	None	7753668	7766979	-1	CD23A, FCE2	CLEC4J, CD23
19	FCER2	ENSG00000104921	ENST00000597934	retained_intron	KNOWN	None	3612	None	None	7753830	7767017	-1	CD23A, FCE2	CLEC4J, CD23
19	FCER2	ENSG00000104921	ENST00000593418	protein_coding	NOVEL	None	3612	477	158	7755373	7764970	-1	CD23A, FCE2	CLEC4J, CD23
19	FCER2	ENSG00000104921	ENST00000360067	protein_coding	KNOWN	None	3612	963	320	7753644	7764281	-1	CD23A, FCE2	CLEC4J, CD23
1	ELAVL4	ENSG00000162374	ENST00000371827	protein_coding	KNOWN	CCDS44138	3315	1101	366	50569582	50669442	1	HUD	PNEM
1	ELAVL4	ENSG00000162374	ENST00000463650	processed_transcript	KNOWN	None	3315	None	None	50571362	50610856	1	HUD	PNEM
1	ELAVL4	ENSG00000162374	ENST00000357083	protein_coding	KNOWN	CCDS44139	3315	1152	383	50571964	50667071	1	HUD	PNEM
1	ELAVL4	ENSG00000162374	ENST00000371824	protein_coding	KNOWN	CCDS44140	3315	1101	366	50574605	50669458	1	HUD	PNEM
1	ELAVL4	ENSG00000162374	ENST00000371823	protein_coding	KNOWN	CCDS553	3315	1143	380	50574638	50667074	1	HUD	PNEM
1	ELAVL4	ENSG00000162374	ENST00000371821	protein_coding	KNOWN	None	3315	1158	385	50575298	50668726	1	HUD	PNEM
1	ELAVL4	ENSG00000162374	ENST00000371819	protein_coding	KNOWN	None	3315	1116	371	50575378	50667966	1	HUD	PNEM
1	ELAVL4	ENSG00000162374	ENST00000494555	processed_transcript	KNOWN	None	3315	None	None	50575488	50610850	1	HUD	PNEM
1	ELAVL4	ENSG00000162374	ENST00000492299	processed_transcript	KNOWN	None	3315	None	None	50610625	50646972	1	HUD	PNEM
1	ELAVL4	ENSG00000162374	ENST00000474675	processed_transcript	KNOWN	None	3315	None	None	50642802	50663257	1	HUD	PNEM
1	ELAVL4	ENSG00000162374	ENST00000448907	protein_coding	KNOWN	CCDS53315	3315	1110	369	50513686	50667540	1	HUD	PNEM
2	WDR75	ENSG00000115368	ENST00000314761	protein_coding	KNOWN	CCDS2298	25725	2493	830	190306159	190340291	1	None	FLJ12519, NET16, UTP17
2	WDR75	ENSG00000115368	ENST00000436347	nonsense_mediated_decay	KNOWN	None	25725	270	89	190306172	190340272	1	None	FLJ12519, NET16, UTP17
2	WDR75	ENSG00000115368	ENST00000472286	retained_intron	KNOWN	None	25725	None	None	190306188	190320347	1	None	FLJ12519, NET16, UTP17
2	WDR75	ENSG00000115368	ENST00000475596	retained_intron	KNOWN	None	25725	None	None	190306194	190316775	1	None	FLJ12519, NET16, UTP17
2	WDR75	ENSG00000115368	ENST00000427960	nonsense_mediated_decay	KNOWN	None	25725	294	97	190306208	190340278	1	None	FLJ12519, NET16, UTP17
2	WDR75	ENSG00000115368	ENST00000498365	retained_intron	KNOWN	None	25725	None	None	190327210	190328937	1	None	FLJ12519, NET16, UTP17
7	ADAP1	ENSG00000105963	ENST00000265846	protein_coding	KNOWN	CCDS5318	16486	1125	374	937540	994333	-1	CENTA1	GCS1L
7	ADAP1	ENSG00000105963	ENST00000446141	protein_coding	PUTATIVE	None	16486	1073	356	937546	966852	-1	CENTA1	GCS1L
7	ADAP1	ENSG00000105963	ENST00000478000	retained_intron	KNOWN	None	16486	None	None	937547	945253	-1	CENTA1	GCS1L
7	ADAP1	ENSG00000105963	ENST00000495809	retained_intron	KNOWN	None	16486	None	None	937582	941036	-1	CENTA1	GCS1L
7	ADAP1	ENSG00000105963	ENST00000453175	protein_coding	NOVEL	None	16486	738	245	938554	944714	-1	CENTA1	GCS1L
7	ADAP1	ENSG00000105963	ENST00000437486	protein_coding	PUTATIVE	None	16486	622	206	939102	960526	-1	CENTA1	GCS1L
7	ADAP1	ENSG00000105963	ENST00000454383	protein_coding	PUTATIVE	None	16486	576	191	939779	974816	-1	CENTA1	GCS1L
7	ADAP1	ENSG00000105963	ENST00000453823	protein_coding	PUTATIVE	None	16486	560	185	940170	967150	-1	CENTA1	GCS1L
7	ADAP1	ENSG00000105963	ENST00000481406	retained_intron	KNOWN	None	16486	None	None	943594	944775	-1	CENTA1	GCS1L
7	ADAP1	ENSG00000105963	ENST00000463358	processed_transcript	KNOWN	None	16486	None	None	943789	985452	-1	CENTA1	GCS1L
7	ADAP1	ENSG00000105963	ENST00000477906	processed_transcript	KNOWN	None	16486	None	None	943824	994986	-1	CENTA1	GCS1L
7	ADAP1	ENSG00000105963	ENST00000488527	processed_transcript	KNOWN	None	16486	None	None	943884	962974	-1	CENTA1	GCS1L
7	ADAP1	ENSG00000105963	ENST00000435943	protein_coding	PUTATIVE	None	16486	488	161	943884	995042	-1	CENTA1	GCS1L
7	ADAP1	ENSG00000105963	ENST00000495686	retained_intron	KNOWN	None	16486	None	None	959605	966691	-1	CENTA1	GCS1L
7	ADAP1	ENSG00000105963	ENST00000539900	protein_coding	KNOWN	None	16486	1158	385	938347	995043	-1	CENTA1	GCS1L
7	ADAP1	ENSG00000105963	ENST00000449296	protein_coding	KNOWN	None	16486	909	302	937546	966852	-1	CENTA1	GCS1L
HSCHR6_MHC_COX	LSM2	ENSG00000236826	ENST00000474526	processed_transcript	KNOWN	None	13940	None	None	31752537	31761803	-1	C6orf28	G7b, YBL026W
HSCHR6_MHC_COX	LSM2	ENSG00000236826	ENST00000461885	processed_transcript	KNOWN	None	13940	None	None	31752537	31761804	-1	C6orf28	G7b, YBL026W
HSCHR6_MHC_COX	LSM2	ENSG00000236826	ENST00000491537	processed_transcript	KNOWN	None	13940	None	None	31752537	31761996	-1	C6orf28	G7b, YBL026W
HSCHR6_MHC_COX	LSM2	ENSG00000236826	ENST00000488547	processed_transcript	KNOWN	None	13940	None	None	31752537	31762063	-1	C6orf28	G7b, YBL026W
HSCHR6_MHC_COX	LSM2	ENSG00000236826	ENST00000455705	protein_coding	KNOWN	None	13940	288	95	31752537	31762128	-1	C6orf28	G7b, YBL026W
HSCHR6_MHC_COX	LSM2	ENSG00000236826	ENST00000474055	processed_transcript	KNOWN	None	13940	None	None	31757895	31761746	-1	C6orf28	G7b, YBL026W
8	PTDSS1	ENSG00000156471	ENST00000517309	protein_coding	KNOWN	CCDS6271	9587	1422	473	97273943	97349223	1	None	KIAA0024, PSSA, PSS1
8	PTDSS1	ENSG00000156471	ENST00000337004	nonsense_mediated_decay	KNOWN	None	9587	327	108	97274141	97346780	1	None	KIAA0024, PSSA, PSS1
8	PTDSS1	ENSG00000156471	ENST00000517557	retained_intron	KNOWN	None	9587	None	None	97274195	97299616	1	None	KIAA0024, PSSA, PSS1
8	PTDSS1	ENSG00000156471	ENST00000518776	processed_transcript	KNOWN	None	9587	None	None	97295825	97316385	1	None	KIAA0024, PSSA, PSS1
8	PTDSS1	ENSG00000156471	ENST00000522072	protein_coding	PUTATIVE	None	9587	906	301	97307420	97346210	1	None	KIAA0024, PSSA, PSS1
8	PTDSS1	ENSG00000156471	ENST00000517982	retained_intron	KNOWN	None	9587	None	None	97342545	97346120	1	None	KIAA0024, PSSA, PSS1
8	PTDSS1	ENSG00000156471	ENST00000455950	protein_coding	KNOWN	None	9587	984	327	97274141	97346774	1	None	KIAA0024, PSSA, PSS1
8	SPIDR	ENSG00000164808	ENST00000297423	protein_coding	KNOWN	CCDS43737	28971	2748	915	48173167	48648868	1	KIAA0146	None
8	SPIDR	ENSG00000164808	ENST00000523814	nonsense_mediated_decay	KNOWN	None	28971	138	45	48173505	48320568	1	KIAA0146	None
8	SPIDR	ENSG00000164808	ENST00000518074	protein_coding	PUTATIVE	None	28971	2631	876	48173523	48648091	1	KIAA0146	None
8	SPIDR	ENSG00000164808	ENST00000522900	processed_transcript	KNOWN	None	28971	None	None	48173528	48301048	1	KIAA0146	None
8	SPIDR	ENSG00000164808	ENST00000517824	nonsense_mediated_decay	KNOWN	None	28971	399	132	48173534	48353104	1	KIAA0146	None
8	SPIDR	ENSG00000164808	ENST00000521550	processed_transcript	KNOWN	None	28971	None	None	48173534	48625653	1	KIAA0146	None
8	SPIDR	ENSG00000164808	ENST00000524126	nonsense_mediated_decay	KNOWN	None	28971	546	181	48173545	48648475	1	KIAA0146	None
8	SPIDR	ENSG00000164808	ENST00000522222	nonsense_mediated_decay	KNOWN	None	28971	381	126	48173547	48301008	1	KIAA0146	None
8	SPIDR	ENSG00000164808	ENST00000519661	nonsense_mediated_decay	KNOWN	None	28971	546	181	48173547	48511597	1	KIAA0146	None
8	SPIDR	ENSG00000164808	ENST00000524141	retained_intron	KNOWN	None	28971	None	None	48173547	48626003	1	KIAA0146	None
8	SPIDR	ENSG00000164808	ENST00000524033	nonsense_mediated_decay	KNOWN	None	28971	630	209	48173548	48508546	1	KIAA0146	None
8	SPIDR	ENSG00000164808	ENST00000522117	nonsense_mediated_decay	KNOWN	None	28971	231	76	48173548	48648073	1	KIAA0146	None
8	SPIDR	ENSG00000164808	ENST00000524006	protein_coding	PUTATIVE	None	28971	458	151	48173557	48511605	1	KIAA0146	None
8	SPIDR	ENSG00000164808	ENST00000521214	processed_transcript	KNOWN	None	28971	None	None	48189425	48648473	1	KIAA0146	None
8	SPIDR	ENSG00000164808	ENST00000521798	retained_intron	KNOWN	None	28971	None	None	48203642	48207017	1	KIAA0146	None
8	SPIDR	ENSG00000164808	ENST00000521918	processed_transcript	KNOWN	None	28971	None	None	48273386	48352959	1	KIAA0146	None
8	SPIDR	ENSG00000164808	ENST00000524157	processed_transcript	KNOWN	None	28971	None	None	48320423	48331830	1	KIAA0146	None
8	SPIDR	ENSG00000164808	ENST00000519401	protein_coding	PUTATIVE	None	28971	1493	496	48352963	48648478	1	KIAA0146	None
8	SPIDR	ENSG00000164808	ENST00000519141	processed_transcript	KNOWN	None	28971	None	None	48566650	48648445	1	KIAA0146	None
8	SPIDR	ENSG00000164808	ENST00000517693	protein_coding	PUTATIVE	None	28971	1173	390	48572226	48648473	1	KIAA0146	None
8	SPIDR	ENSG00000164808	ENST00000519362	retained_intron	KNOWN	None	28971	None	None	48586095	48648347	1	KIAA0146	None
8	SPIDR	ENSG00000164808	ENST00000522321	processed_transcript	KNOWN	None	28971	None	None	48601004	48626206	1	KIAA0146	None
8	SPIDR	ENSG00000164808	ENST00000518692	processed_transcript	KNOWN	None	28971	None	None	48610318	48626095	1	KIAA0146	None
8	SPIDR	ENSG00000164808	ENST00000517619	protein_coding	PUTATIVE	None	28971	278	91	48639758	48647936	1	KIAA0146	None
8	SPIDR	ENSG00000164808	ENST00000518060	protein_coding	PUTATIVE	None	28971	288	95	48639815	48648075	1	KIAA0146	None
8	SPIDR	ENSG00000164808	ENST00000518711	retained_intron	KNOWN	None	28971	None	None	48641282	48642266	1	KIAA0146	None
8	SPIDR	ENSG00000164808	ENST00000588781	processed_transcript	KNOWN	None	28971	None	None	48645121	48647889	1	KIAA0146	None
8	SPIDR	ENSG00000164808	ENST00000541342	protein_coding	KNOWN	None	28971	2538	845	48173548	48648073	1	KIAA0146	None
7	DBNL	ENSG00000136279	ENST00000448521	protein_coding	KNOWN	CCDS34623	2696	1293	430	44084239	44100932	1	None	SH3P7, HIP-55
7	DBNL	ENSG00000136279	ENST00000456905	protein_coding	NOVEL	None	2696	1149	382	44084272	44100542	1	None	SH3P7, HIP-55
7	DBNL	ENSG00000136279	ENST00000458579	nonsense_mediated_decay	KNOWN	None	2696	84	27	44084274	44097674	1	None	SH3P7, HIP-55
7	DBNL	ENSG00000136279	ENST00000439983	retained_intron	KNOWN	None	2696	None	None	44084275	44090293	1	None	SH3P7, HIP-55
7	DBNL	ENSG00000136279	ENST00000440166	protein_coding	PUTATIVE	None	2696	984	327	44084275	44100744	1	None	SH3P7, HIP-55
7	DBNL	ENSG00000136279	ENST00000441840	nonsense_mediated_decay	KNOWN	None	2696	153	50	44084285	44101208	1	None	SH3P7, HIP-55
7	DBNL	ENSG00000136279	ENST00000464762	nonsense_mediated_decay	KNOWN	None	2696	387	128	44084301	44097822	1	None	SH3P7, HIP-55
7	DBNL	ENSG00000136279	ENST00000439815	nonsense_mediated_decay	KNOWN	None	2696	96	31	44084301	44098092	1	None	SH3P7, HIP-55
7	DBNL	ENSG00000136279	ENST00000498733	nonsense_mediated_decay	KNOWN	None	2696	147	48	44084301	44100538	1	None	SH3P7, HIP-55
7	DBNL	ENSG00000136279	ENST00000452943	protein_coding	NOVEL	None	2696	1221	406	44084301	44100771	1	None	SH3P7, HIP-55
7	DBNL	ENSG00000136279	ENST00000485932	nonsense_mediated_decay	KNOWN	None	2696	123	40	44084305	44097862	1	None	SH3P7, HIP-55
7	DBNL	ENSG00000136279	ENST00000429716	nonsense_mediated_decay	KNOWN	None	2696	264	87	44084307	44100927	1	None	SH3P7, HIP-55
7	DBNL	ENSG00000136279	ENST00000468694	protein_coding	KNOWN	CCDS47579	2696	1320	439	44084310	44101236	1	None	SH3P7, HIP-55
7	DBNL	ENSG00000136279	ENST00000441904	nonsense_mediated_decay	KNOWN	None	2696	147	48	44084316	44099041	1	None	SH3P7, HIP-55
7	DBNL	ENSG00000136279	ENST00000494774	protein_coding	KNOWN	CCDS34622	2696	1296	431	44084316	44101315	1	None	SH3P7, HIP-55
7	DBNL	ENSG00000136279	ENST00000411855	nonsense_mediated_decay	KNOWN	None	2696	189	62	44084319	44100836	1	None	SH3P7, HIP-55
7	DBNL	ENSG00000136279	ENST00000423561	retained_intron	KNOWN	None	2696	None	None	44084329	44097532	1	None	SH3P7, HIP-55
7	DBNL	ENSG00000136279	ENST00000497184	processed_transcript	KNOWN	None	2696	None	None	44089483	44101236	1	None	SH3P7, HIP-55
7	DBNL	ENSG00000136279	ENST00000432854	protein_coding	NOVEL	None	2696	1078	358	44089843	44109055	1	None	SH3P7, HIP-55
7	DBNL	ENSG00000136279	ENST00000449997	retained_intron	KNOWN	None	2696	None	None	44096392	44101313	1	None	SH3P7, HIP-55
7	DBNL	ENSG00000136279	ENST00000452661	protein_coding	NOVEL	None	2696	416	137	44098529	44100996	1	None	SH3P7, HIP-55
7	DBNL	ENSG00000136279	ENST00000490734	protein_coding	KNOWN	None	2696	1011	336	44084319	44100836	1	None	SH3P7, HIP-55
12	CACNB3	ENSG00000167535	ENST00000547693	retained_intron	KNOWN	None	1403	None	None	49207577	49217767	1	CACNLB3	None
12	CACNB3	ENSG00000167535	ENST00000550391	nonsense_mediated_decay	KNOWN	None	1403	456	151	49208215	49219507	1	CACNLB3	None
12	CACNB3	ENSG00000167535	ENST00000540990	protein_coding	PUTATIVE	CCDS55821	1403	1416	471	49208234	49221983	1	CACNLB3	None
12	CACNB3	ENSG00000167535	ENST00000549226	retained_intron	KNOWN	None	1403	None	None	49208263	49218944	1	CACNLB3	None
12	CACNB3	ENSG00000167535	ENST00000548860	retained_intron	KNOWN	None	1403	None	None	49208676	49222724	1	CACNLB3	None
12	CACNB3	ENSG00000167535	ENST00000536187	protein_coding	PUTATIVE	CCDS55822	1403	1452	483	49209370	49222002	1	CACNLB3	None
12	CACNB3	ENSG00000167535	ENST00000548874	nonsense_mediated_decay	KNOWN	None	1403	318	105	49209374	49219267	1	CACNLB3	None
12	CACNB3	ENSG00000167535	ENST00000551716	retained_intron	KNOWN	None	1403	None	None	49209383	49217755	1	CACNLB3	None
12	CACNB3	ENSG00000167535	ENST00000550168	processed_transcript	KNOWN	None	1403	None	None	49209385	49218516	1	CACNLB3	None
12	CACNB3	ENSG00000167535	ENST00000552465	retained_intron	KNOWN	None	1403	None	None	49209395	49211095	1	CACNLB3	None
12	CACNB3	ENSG00000167535	ENST00000550064	protein_coding	PUTATIVE	None	1403	165	54	49211649	49219503	1	CACNLB3	None
12	CACNB3	ENSG00000167535	ENST00000552022	processed_transcript	KNOWN	None	1403	None	None	49212169	49218516	1	CACNLB3	None
12	CACNB3	ENSG00000167535	ENST00000549971	processed_transcript	KNOWN	None	1403	None	None	49212189	49218095	1	CACNLB3	None
12	CACNB3	ENSG00000167535	ENST00000547818	protein_coding	PUTATIVE	None	1403	366	121	49212267	49220301	1	CACNLB3	None
12	CACNB3	ENSG00000167535	ENST00000547392	protein_coding	NOVEL	None	1403	1374	457	49212287	49222119	1	CACNLB3	None
12	CACNB3	ENSG00000167535	ENST00000301050	protein_coding	KNOWN	CCDS8769	1403	1455	484	49212514	49222724	1	CACNLB3	None
12	CACNB3	ENSG00000167535	ENST00000548279	protein_coding	NOVEL	None	1403	433	143	49212570	49218480	1	CACNLB3	None
12	CACNB3	ENSG00000167535	ENST00000550771	retained_intron	KNOWN	None	1403	None	None	49212576	49217744	1	CACNLB3	None
12	CACNB3	ENSG00000167535	ENST00000547230	protein_coding	NOVEL	CCDS55823	1403	1332	443	49212692	49222724	1	CACNLB3	None
12	CACNB3	ENSG00000167535	ENST00000551544	nonsense_mediated_decay	KNOWN	None	1403	114	37	49212692	49222724	1	CACNLB3	None
12	CACNB3	ENSG00000167535	ENST00000552812	retained_intron	KNOWN	None	1403	None	None	49213561	49215272	1	CACNLB3	None
12	CACNB3	ENSG00000167535	ENST00000550190	protein_coding	PUTATIVE	None	1403	255	84	49217229	49222724	1	CACNLB3	None
12	CACNB3	ENSG00000167535	ENST00000550483	nonsense_mediated_decay	KNOWN	None	1403	229	75	49217562	49220301	1	CACNLB3	None
12	CACNB3	ENSG00000167535	ENST00000552480	retained_intron	KNOWN	None	1403	None	None	49218898	49221651	1	CACNLB3	None
1	SLC27A3	ENSG00000143554	ENST00000271857	protein_coding	NOVEL	None	10997	2436	811	153746830	153752633	1	None	FATP3, MGC4365, ACSVL3
1	SLC27A3	ENSG00000143554	ENST00000484014	processed_transcript	KNOWN	None	10997	None	None	153747789	153752632	1	None	FATP3, MGC4365, ACSVL3
1	SLC27A3	ENSG00000143554	ENST00000468403	retained_intron	KNOWN	None	10997	None	None	153747795	153752632	1	None	FATP3, MGC4365, ACSVL3
1	SLC27A3	ENSG00000143554	ENST00000483574	retained_intron	KNOWN	None	10997	None	None	153748226	153752600	1	None	FATP3, MGC4365, ACSVL3
1	SLC27A3	ENSG00000143554	ENST00000458027	protein_coding	NOVEL	None	10997	1202	399	153749072	153752633	1	None	FATP3, MGC4365, ACSVL3
1	SLC27A3	ENSG00000143554	ENST00000461269	retained_intron	KNOWN	None	10997	None	None	153749076	153750561	1	None	FATP3, MGC4365, ACSVL3
1	SLC27A3	ENSG00000143554	ENST00000531251	retained_intron	KNOWN	None	10997	None	None	153750463	153751272	1	None	FATP3, MGC4365, ACSVL3
1	SLC27A3	ENSG00000143554	ENST00000532853	protein_coding	NOVEL	None	10997	433	143	153750673	153751863	1	None	FATP3, MGC4365, ACSVL3
1	SLC27A3	ENSG00000143554	ENST00000524676	protein_coding	NOVEL	None	10997	457	151	153750988	153752359	1	None	FATP3, MGC4365, ACSVL3
1	SLC27A3	ENSG00000143554	ENST00000468044	retained_intron	KNOWN	None	10997	None	None	153751116	153752110	1	None	FATP3, MGC4365, ACSVL3
1	SLC27A3	ENSG00000143554	ENST00000368660	retained_intron	KNOWN	None	10997	None	None	153751527	153752627	1	None	FATP3, MGC4365, ACSVL3
1	SLC27A3	ENSG00000143554	ENST00000368659	retained_intron	KNOWN	None	10997	None	None	153751677	153752600	1	None	FATP3, MGC4365, ACSVL3
1	SLC27A3	ENSG00000143554	ENST00000368661	protein_coding	KNOWN	CCDS1053	10997	2193	730	153747768	153752630	1	None	FATP3, MGC4365, ACSVL3
1	WDR26	ENSG00000162923	ENST00000414423	protein_coding	KNOWN	CCDS31037	21208	1986	661	224572845	224622001	-1	None	FLJ21016, GID7
1	WDR26	ENSG00000162923	ENST00000480676	protein_coding	KNOWN	None	21208	886	294	224573368	224599186	-1	None	FLJ21016, GID7
1	WDR26	ENSG00000162923	ENST00000486652	nonsense_mediated_decay	KNOWN	None	21208	627	208	224576838	224621783	-1	None	FLJ21016, GID7
1	WDR26	ENSG00000162923	ENST00000479727	processed_transcript	KNOWN	None	21208	None	None	224585429	224588721	-1	None	FLJ21016, GID7
1	WDR26	ENSG00000162923	ENST00000443112	retained_intron	KNOWN	None	21208	None	None	224600611	224621715	-1	None	FLJ21016, GID7
1	WDR26	ENSG00000162923	ENST00000489825	retained_intron	KNOWN	None	21208	None	None	224607147	224621558	-1	None	FLJ21016, GID7
1	WDR26	ENSG00000162923	ENST00000477425	processed_transcript	KNOWN	None	21208	None	None	224607251	224621540	-1	None	FLJ21016, GID7
1	WDR26	ENSG00000162923	ENST00000445239	protein_coding	PUTATIVE	None	21208	377	124	224607264	224624735	-1	None	FLJ21016, GID7
1	WDR26	ENSG00000162923	ENST00000479778	retained_intron	KNOWN	None	21208	None	None	224616999	224621552	-1	None	FLJ21016, GID7
1	WDR26	ENSG00000162923	ENST00000295024	protein_coding	KNOWN	None	21208	1545	514	224572851	224622001	-1	None	FLJ21016, GID7
1	WDR26	ENSG00000162923	ENST00000366852	protein_coding	KNOWN	None	21208	651	216	224576839	224621807	-1	None	FLJ21016, GID7
1	DMRTA2	ENSG00000142700	ENST00000418121	protein_coding	KNOWN	CCDS44141	13908	1629	542	50883222	50887304	-1	None	None
1	DMRTA2	ENSG00000142700	ENST00000404795	protein_coding	KNOWN	CCDS44141	13908	1629	542	50883222	50889172	-1	None	None
X	FMR1NB	ENSG00000176988	ENST00000370467	protein_coding	KNOWN	CCDS14683	26372	768	255	147062849	147108187	1	None	FLJ25736, NY-SAR-35, CT37
X	FMR1NB	ENSG00000176988	ENST00000489034	nonsense_mediated_decay	KNOWN	None	26372	219	72	147088336	147108185	1	None	FLJ25736, NY-SAR-35, CT37
9	None	ENSG00000227138	ENST00000441805	processed_pseudogene	KNOWN	None	None	None	None	10777357	10777525	1	None	None
9	None	ENSG00000230589	ENST00000427532	processed_pseudogene	KNOWN	None	None	None	None	10829752	10830308	-1	None	None
12	ZFC3H1	ENSG00000133858	ENST00000378743	protein_coding	KNOWN	CCDS41813	28328	5970	1989	72003252	72057749	-1	PSRC2, CCDC131	MGC23401, KIAA0546
12	ZFC3H1	ENSG00000133858	ENST00000552994	nonsense_mediated_decay	KNOWN	None	28328	5733	1910	72003478	72057599	-1	PSRC2, CCDC131	MGC23401, KIAA0546
12	ZFC3H1	ENSG00000133858	ENST00000550963	retained_intron	KNOWN	None	28328	None	None	72003890	72005034	-1	PSRC2, CCDC131	MGC23401, KIAA0546
12	ZFC3H1	ENSG00000133858	ENST00000547398	retained_intron	KNOWN	None	28328	None	None	72004168	72005066	-1	PSRC2, CCDC131	MGC23401, KIAA0546
12	ZFC3H1	ENSG00000133858	ENST00000551487	retained_intron	KNOWN	None	28328	None	None	72005336	72007528	-1	PSRC2, CCDC131	MGC23401, KIAA0546
12	ZFC3H1	ENSG00000133858	ENST00000546475	retained_intron	KNOWN	None	28328	None	None	72007147	72008928	-1	PSRC2, CCDC131	MGC23401, KIAA0546
12	ZFC3H1	ENSG00000133858	ENST00000546771	retained_intron	KNOWN	None	28328	None	None	72008851	72013745	-1	PSRC2, CCDC131	MGC23401, KIAA0546
12	ZFC3H1	ENSG00000133858	ENST00000546606	retained_intron	KNOWN	None	28328	None	None	72026003	72026871	-1	PSRC2, CCDC131	MGC23401, KIAA0546
12	ZFC3H1	ENSG00000133858	ENST00000550712	processed_transcript	KNOWN	None	28328	None	None	72038694	72061505	-1	PSRC2, CCDC131	MGC23401, KIAA0546
12	ZFC3H1	ENSG00000133858	ENST00000548100	protein_coding	KNOWN	None	28328	1041	346	72050123	72057604	-1	PSRC2, CCDC131	MGC23401, KIAA0546
12	ZFC3H1	ENSG00000133858	ENST00000552037	protein_coding	PUTATIVE	None	28328	1077	358	72050123	72057638	-1	PSRC2, CCDC131	MGC23401, KIAA0546
12	ZFC3H1	ENSG00000133858	ENST00000549407	processed_transcript	PUTATIVE	None	28328	None	None	72050663	72057140	-1	PSRC2, CCDC131	MGC23401, KIAA0546
19	CALR3	ENSG00000269058	ENST00000269881	protein_coding	KNOWN	CCDS12344	20407	1155	384	16589868	16607003	-1	None	CRT2, FLJ25355, MGC26577, CT93
19	CALR3	ENSG00000269058	ENST00000602234	processed_transcript	PUTATIVE	None	20407	None	None	16593265	16594924	-1	None	CRT2, FLJ25355, MGC26577, CT93
19	CALR3	ENSG00000269058	ENST00000600762	protein_coding	NOVEL	None	20407	425	140	16594780	16606930	-1	None	CRT2, FLJ25355, MGC26577, CT93
2	SLC40A1	ENSG00000138449	ENST00000261024	protein_coding	KNOWN	CCDS2299	10909	1716	571	190425305	190445613	-1	SLC11A3	MTP1, IREG1, FPN1, HFE4
2	SLC40A1	ENSG00000138449	ENST00000427241	protein_coding	KNOWN	None	10909	601	199	190430239	190448484	-1	SLC11A3	MTP1, IREG1, FPN1, HFE4
2	SLC40A1	ENSG00000138449	ENST00000479598	retained_intron	KNOWN	None	10909	None	None	190437247	190445467	-1	SLC11A3	MTP1, IREG1, FPN1, HFE4
2	SLC40A1	ENSG00000138449	ENST00000418714	processed_transcript	KNOWN	None	10909	None	None	190439887	190445509	-1	SLC11A3	MTP1, IREG1, FPN1, HFE4
2	SLC40A1	ENSG00000138449	ENST00000455320	protein_coding	KNOWN	None	10909	166	54	190439992	190446757	-1	SLC11A3	MTP1, IREG1, FPN1, HFE4
2	SLC40A1	ENSG00000138449	ENST00000427419	protein_coding	KNOWN	None	10909	76	24	190444574	190446748	-1	SLC11A3	MTP1, IREG1, FPN1, HFE4
2	SLC40A1	ENSG00000138449	ENST00000440626	protein_coding	KNOWN	None	10909	76	24	190444574	190448128	-1	SLC11A3	MTP1, IREG1, FPN1, HFE4
1	GATAD2B	ENSG00000143614	ENST00000368655	protein_coding	KNOWN	CCDS1054	30778	1782	593	153777201	153895451	-1	None	P66beta
X	ARMCX3	ENSG00000102401	ENST00000341189	protein_coding	KNOWN	CCDS14489	24065	1140	379	100877787	100882833	1	None	ALEX3
X	ARMCX3	ENSG00000102401	ENST00000471229	protein_coding	KNOWN	CCDS14489	24065	1140	379	100878079	100881474	1	None	ALEX3
X	ARMCX3	ENSG00000102401	ENST00000491568	protein_coding	KNOWN	None	24065	283	93	100878117	100880252	1	None	ALEX3
X	ARMCX3	ENSG00000102401	ENST00000479298	protein_coding	KNOWN	None	24065	191	62	100878118	100880160	1	None	ALEX3
X	ARMCX3	ENSG00000102401	ENST00000477980	processed_transcript	KNOWN	None	24065	None	None	100878165	100879522	1	None	ALEX3
X	ARMCX3	ENSG00000102401	ENST00000467808	processed_transcript	KNOWN	None	24065	None	None	100878246	100879942	1	None	ALEX3
X	ARMCX3	ENSG00000102401	ENST00000537169	protein_coding	KNOWN	CCDS14489	24065	1140	379	100878351	100882831	1	None	ALEX3
4	AFF1	ENSG00000172493	ENST00000504956	retained_intron	KNOWN	None	7135	None	None	87856154	87969201	1	PBM1, MLLT2	AF-4, AF4
4	AFF1	ENSG00000172493	ENST00000507468	protein_coding	PUTATIVE	None	7135	1220	405	87856163	88012976	1	PBM1, MLLT2	AF-4, AF4
4	AFF1	ENSG00000172493	ENST00000503477	protein_coding	PUTATIVE	None	7135	1251	416	87856202	88026834	1	PBM1, MLLT2	AF-4, AF4
4	AFF1	ENSG00000172493	ENST00000511996	processed_transcript	KNOWN	None	7135	None	None	87856226	87895220	1	PBM1, MLLT2	AF-4, AF4
4	AFF1	ENSG00000172493	ENST00000511442	protein_coding	PUTATIVE	None	7135	157	51	87857562	87968042	1	PBM1, MLLT2	AF-4, AF4
4	AFF1	ENSG00000172493	ENST00000307808	protein_coding	KNOWN	CCDS3616	7135	3633	1210	87928140	88062190	1	PBM1, MLLT2	AF-4, AF4
4	AFF1	ENSG00000172493	ENST00000511722	protein_coding	PUTATIVE	None	7135	411	136	87928395	88029452	1	PBM1, MLLT2	AF-4, AF4
4	AFF1	ENSG00000172493	ENST00000514970	protein_coding	PUTATIVE	None	7135	582	193	87970804	88029464	1	PBM1, MLLT2	AF-4, AF4
4	AFF1	ENSG00000172493	ENST00000503369	retained_intron	KNOWN	None	7135	None	None	88036095	88046429	1	PBM1, MLLT2	AF-4, AF4
4	AFF1	ENSG00000172493	ENST00000395146	protein_coding	KNOWN	CCDS54775	7135	3657	1218	87856154	88062206	1	PBM1, MLLT2	AF-4, AF4
4	AFF1	ENSG00000172493	ENST00000544085	protein_coding	KNOWN	None	7135	2550	849	87928421	88057263	1	PBM1, MLLT2	AF-4, AF4
9	None	ENSG00000270372	ENST00000603198	lincRNA	KNOWN	None	None	None	None	10948372	10948481	-1	None	None
9	None	ENSG00000234146	ENST00000434743	processed_pseudogene	KNOWN	None	None	None	None	11011748	11013096	1	None	None
X	ARHGAP36	ENSG00000147256	ENST00000276211	protein_coding	KNOWN	CCDS14628	26388	1644	547	130192216	130223853	1	None	FLJ30058
X	ARHGAP36	ENSG00000147256	ENST00000370922	protein_coding	NOVEL	None	26388	1608	535	130192331	130223857	1	None	FLJ30058
X	ARHGAP36	ENSG00000147256	ENST00000423277	protein_coding	PUTATIVE	None	26388	654	217	130206962	130218649	1	None	FLJ30058
X	ARHGAP36	ENSG00000147256	ENST00000412432	protein_coding	NOVEL	None	26388	1551	516	130212691	130223857	1	None	FLJ30058
X	ARHGAP36	ENSG00000147256	ENST00000370921	protein_coding	NOVEL	None	26388	1236	411	130217684	130223857	1	None	FLJ30058
3	ITIH1	ENSG00000055957	ENST00000273283	protein_coding	KNOWN	CCDS2864	6166	2736	911	52811608	52826078	1	None	H1P, IATIH, ITIH
3	ITIH1	ENSG00000055957	ENST00000480409	nonsense_mediated_decay	KNOWN	None	6166	642	213	52811611	52814385	1	None	H1P, IATIH, ITIH
3	ITIH1	ENSG00000055957	ENST00000487686	processed_transcript	KNOWN	None	6166	None	None	52813937	52817019	1	None	H1P, IATIH, ITIH
3	ITIH1	ENSG00000055957	ENST00000478667	processed_transcript	KNOWN	None	6166	None	None	52813942	52817104	1	None	H1P, IATIH, ITIH
3	ITIH1	ENSG00000055957	ENST00000494603	retained_intron	KNOWN	None	6166	None	None	52814133	52817083	1	None	H1P, IATIH, ITIH
3	ITIH1	ENSG00000055957	ENST00000428133	protein_coding	PUTATIVE	None	6166	1395	464	52818428	52826049	1	None	H1P, IATIH, ITIH
3	ITIH1	ENSG00000055957	ENST00000484844	nonsense_mediated_decay	KNOWN	None	6166	223	73	52820961	52823739	1	None	H1P, IATIH, ITIH
3	ITIH1	ENSG00000055957	ENST00000405128	protein_coding	PUTATIVE	None	6166	834	277	52821841	52826076	1	None	H1P, IATIH, ITIH
3	ITIH1	ENSG00000055957	ENST00000482836	retained_intron	KNOWN	None	6166	None	None	52822300	52824438	1	None	H1P, IATIH, ITIH
3	ITIH1	ENSG00000055957	ENST00000494705	retained_intron	KNOWN	None	6166	None	None	52824650	52826077	1	None	H1P, IATIH, ITIH
3	ITIH1	ENSG00000055957	ENST00000542827	protein_coding	KNOWN	None	6166	1938	645	52811603	52826077	1	None	H1P, IATIH, ITIH
3	ITIH1	ENSG00000055957	ENST00000540715	protein_coding	KNOWN	CCDS54594	6166	2310	769	52812523	52826077	1	None	H1P, IATIH, ITIH
3	ITIH1	ENSG00000055957	ENST00000537050	protein_coding	KNOWN	CCDS54595	6166	1872	623	52813937	52826077	1	None	H1P, IATIH, ITIH
1	FAF1	ENSG00000185104	ENST00000396153	protein_coding	KNOWN	CCDS554	3578	1953	650	50905150	51425935	-1	None	CGI-03, hFAF1, HFAF1s, UBXD12, UBXN3A
1	FAF1	ENSG00000185104	ENST00000494400	nonsense_mediated_decay	KNOWN	None	3578	1395	464	50906948	51171723	-1	None	CGI-03, hFAF1, HFAF1s, UBXD12, UBXN3A
1	FAF1	ENSG00000185104	ENST00000472808	processed_transcript	KNOWN	None	3578	None	None	51005264	51072616	-1	None	CGI-03, hFAF1, HFAF1s, UBXD12, UBXN3A
1	FAF1	ENSG00000185104	ENST00000487898	processed_transcript	KNOWN	None	3578	None	None	51171456	51425410	-1	None	CGI-03, hFAF1, HFAF1s, UBXD12, UBXN3A
1	FAF1	ENSG00000185104	ENST00000371778	protein_coding	KNOWN	CCDS554	3578	1953	650	50906709	51425833	-1	None	CGI-03, hFAF1, HFAF1s, UBXD12, UBXN3A
1	FAF1	ENSG00000185104	ENST00000545823	protein_coding	KNOWN	None	3578	1227	408	50906945	51078170	-1	None	CGI-03, hFAF1, HFAF1s, UBXD12, UBXN3A
4	WWC2	ENSG00000151718	ENST00000403733	protein_coding	KNOWN	CCDS34109	24148	3579	1192	184020446	184241930	1	None	BOMB, FLJ22029
4	WWC2	ENSG00000151718	ENST00000508614	nonsense_mediated_decay	KNOWN	None	24148	246	81	184020492	184166698	1	None	BOMB, FLJ22029
4	WWC2	ENSG00000151718	ENST00000513834	protein_coding	KNOWN	None	24148	3432	1143	184020645	184238337	1	None	BOMB, FLJ22029
4	WWC2	ENSG00000151718	ENST00000448232	protein_coding	KNOWN	None	24148	3651	1216	184020645	184239587	1	None	BOMB, FLJ22029
4	WWC2	ENSG00000151718	ENST00000427431	nonsense_mediated_decay	KNOWN	None	24148	234	77	184114768	184239903	1	None	BOMB, FLJ22029
4	WWC2	ENSG00000151718	ENST00000438543	nonsense_mediated_decay	KNOWN	None	24148	2139	712	184124669	184237051	1	None	BOMB, FLJ22029
4	WWC2	ENSG00000151718	ENST00000504005	protein_coding	NOVEL	None	24148	2625	874	184130132	184239456	1	None	BOMB, FLJ22029
4	WWC2	ENSG00000151718	ENST00000506225	processed_transcript	PUTATIVE	None	24148	None	None	184187022	184191191	1	None	BOMB, FLJ22029
4	WWC2	ENSG00000151718	ENST00000515284	retained_intron	KNOWN	None	24148	None	None	184192365	184202539	1	None	BOMB, FLJ22029
4	WWC2	ENSG00000151718	ENST00000508747	protein_coding	KNOWN	None	24148	963	320	184203760	184237102	1	None	BOMB, FLJ22029
4	WWC2	ENSG00000151718	ENST00000378925	protein_coding	KNOWN	None	24148	2139	712	184020463	184190649	1	None	BOMB, FLJ22029
11	VWA5A	ENSG00000110002	ENST00000456829	protein_coding	KNOWN	CCDS8444	6658	2361	786	123986069	124018428	1	LOH11CR2A	BCSC-1
11	VWA5A	ENSG00000110002	ENST00000361352	protein_coding	PUTATIVE	CCDS8445	6658	1248	415	123986111	123995548	1	LOH11CR2A	BCSC-1
11	VWA5A	ENSG00000110002	ENST00000449321	protein_coding	KNOWN	CCDS8445	6658	1248	415	123986111	123995548	1	LOH11CR2A	BCSC-1
11	VWA5A	ENSG00000110002	ENST00000392744	protein_coding	PUTATIVE	None	6658	1296	431	123986157	123995094	1	LOH11CR2A	BCSC-1
11	VWA5A	ENSG00000110002	ENST00000533623	retained_intron	KNOWN	None	6658	None	None	123988202	123988859	1	LOH11CR2A	BCSC-1
11	VWA5A	ENSG00000110002	ENST00000392748	protein_coding	KNOWN	CCDS8444	6658	2361	786	123986111	124017616	1	LOH11CR2A	BCSC-1
11	VWA5A	ENSG00000110002	ENST00000360334	protein_coding	KNOWN	None	6658	1281	426	123986111	124017616	1	LOH11CR2A	BCSC-1
1	CNIH3	ENSG00000143786	ENST00000471578	processed_transcript	KNOWN	None	26802	None	None	224622362	224776318	1	None	FLJ38993, CNIH-3
1	CNIH3	ENSG00000143786	ENST00000483512	processed_transcript	KNOWN	None	26802	None	None	224622614	224709257	1	None	FLJ38993, CNIH-3
1	CNIH3	ENSG00000143786	ENST00000498126	processed_transcript	KNOWN	None	26802	None	None	224622627	224708924	1	None	FLJ38993, CNIH-3
1	CNIH3	ENSG00000143786	ENST00000496372	processed_transcript	KNOWN	None	26802	None	None	224701390	224708923	1	None	FLJ38993, CNIH-3
1	CNIH3	ENSG00000143786	ENST00000470602	processed_transcript	KNOWN	None	26802	None	None	224703563	224724683	1	None	FLJ38993, CNIH-3
1	CNIH3	ENSG00000143786	ENST00000498382	processed_transcript	KNOWN	None	26802	None	None	224716893	224927323	1	None	FLJ38993, CNIH-3
1	CNIH3	ENSG00000143786	ENST00000478120	processed_transcript	KNOWN	None	26802	None	None	224716898	224927039	1	None	FLJ38993, CNIH-3
1	CNIH3	ENSG00000143786	ENST00000481095	processed_transcript	KNOWN	None	26802	None	None	224716920	224922408	1	None	FLJ38993, CNIH-3
1	CNIH3	ENSG00000143786	ENST00000470788	processed_transcript	KNOWN	None	26802	None	None	224716924	224725284	1	None	FLJ38993, CNIH-3
1	CNIH3	ENSG00000143786	ENST00000489556	processed_transcript	KNOWN	None	26802	None	None	224716925	224776194	1	None	FLJ38993, CNIH-3
1	CNIH3	ENSG00000143786	ENST00000496277	processed_transcript	KNOWN	None	26802	None	None	224717012	224918276	1	None	FLJ38993, CNIH-3
1	CNIH3	ENSG00000143786	ENST00000492470	processed_transcript	KNOWN	None	26802	None	None	224753067	224776257	1	None	FLJ38993, CNIH-3
1	CNIH3	ENSG00000143786	ENST00000479227	processed_transcript	KNOWN	None	26802	None	None	224774842	224776306	1	None	FLJ38993, CNIH-3
1	CNIH3	ENSG00000143786	ENST00000272133	protein_coding	KNOWN	CCDS1544	26802	483	160	224803995	224928251	1	None	FLJ38993, CNIH-3
16	AKTIP	ENSG00000166971	ENST00000300245	protein_coding	KNOWN	None	16710	882	293	53525291	53537156	-1	FTS	FLJ13258
16	AKTIP	ENSG00000166971	ENST00000394657	protein_coding	KNOWN	CCDS10749	16710	879	292	53525295	53537163	-1	FTS	FLJ13258
16	AKTIP	ENSG00000166971	ENST00000565431	retained_intron	KNOWN	None	16710	None	None	53525751	53526843	-1	FTS	FLJ13258
16	AKTIP	ENSG00000166971	ENST00000570004	protein_coding	KNOWN	CCDS10749	16710	879	292	53526217	53537135	-1	FTS	FLJ13258
16	AKTIP	ENSG00000166971	ENST00000568022	protein_coding	NOVEL	None	16710	749	248	53528128	53534241	-1	FTS	FLJ13258
16	AKTIP	ENSG00000166971	ENST00000563928	protein_coding	KNOWN	None	16710	449	148	53528483	53535681	-1	FTS	FLJ13258
16	AKTIP	ENSG00000166971	ENST00000563108	retained_intron	KNOWN	None	16710	None	None	53528691	53537118	-1	FTS	FLJ13258
16	AKTIP	ENSG00000166971	ENST00000565408	protein_coding	KNOWN	None	16710	409	135	53528990	53538323	-1	FTS	FLJ13258
16	AKTIP	ENSG00000166971	ENST00000568596	protein_coding	KNOWN	None	16710	382	126	53529017	53537118	-1	FTS	FLJ13258
16	AKTIP	ENSG00000166971	ENST00000566045	retained_intron	KNOWN	None	16710	None	None	53529063	53537118	-1	FTS	FLJ13258
16	AKTIP	ENSG00000166971	ENST00000561799	retained_intron	KNOWN	None	16710	None	None	53529063	53537121	-1	FTS	FLJ13258
16	AKTIP	ENSG00000166971	ENST00000570041	protein_coding	KNOWN	None	16710	121	39	53532430	53535400	-1	FTS	FLJ13258
16	AKTIP	ENSG00000166971	ENST00000564497	protein_coding	KNOWN	None	16710	42	13	53534130	53537142	-1	FTS	FLJ13258
1	DENND4B	ENSG00000198837	ENST00000480340	retained_intron	KNOWN	None	29044	None	None	153901977	153905741	-1	KIAA0476	None
1	DENND4B	ENSG00000198837	ENST00000361217	protein_coding	KNOWN	CCDS44228	29044	4491	1496	153901977	153919172	-1	KIAA0476	None
1	DENND4B	ENSG00000198837	ENST00000492898	retained_intron	KNOWN	None	29044	None	None	153902722	153905196	-1	KIAA0476	None
1	DENND4B	ENSG00000198837	ENST00000474386	processed_transcript	KNOWN	None	29044	None	None	153903218	153905369	-1	KIAA0476	None
1	DENND4B	ENSG00000198837	ENST00000462423	retained_intron	KNOWN	None	29044	None	None	153904652	153905517	-1	KIAA0476	None
1	DENND4B	ENSG00000198837	ENST00000531748	retained_intron	KNOWN	None	29044	None	None	153905015	153905641	-1	KIAA0476	None
1	DENND4B	ENSG00000198837	ENST00000368646	protein_coding	PUTATIVE	None	29044	3656	1217	153905337	153917745	-1	KIAA0476	None
1	DENND4B	ENSG00000198837	ENST00000477746	retained_intron	KNOWN	None	29044	None	None	153908309	153909118	-1	KIAA0476	None
1	DENND4B	ENSG00000198837	ENST00000485359	retained_intron	KNOWN	None	29044	None	None	153912064	153913128	-1	KIAA0476	None
1	DENND4B	ENSG00000198837	ENST00000494683	retained_intron	KNOWN	None	29044	None	None	153913371	153913910	-1	KIAA0476	None
1	DENND4B	ENSG00000198837	ENST00000483561	retained_intron	KNOWN	None	29044	None	None	153913710	153914720	-1	KIAA0476	None
1	DENND4B	ENSG00000198837	ENST00000472932	protein_coding	NOVEL	None	29044	541	179	153914405	153916566	-1	KIAA0476	None
1	DENND4B	ENSG00000198837	ENST00000464048	retained_intron	KNOWN	None	29044	None	None	153914755	153915557	-1	KIAA0476	None
X	CXorf65	ENSG00000204165	ENST00000466160	processed_transcript	KNOWN	None	33713	None	None	70323837	70324298	-1	None	None
X	CXorf65	ENSG00000204165	ENST00000374251	protein_coding	KNOWN	CCDS35324	33713	552	183	70323837	70326454	-1	None	None
X	CXorf65	ENSG00000204165	ENST00000485951	processed_transcript	KNOWN	None	33713	None	None	70323837	70326472	-1	None	None
X	CXorf65	ENSG00000204165	ENST00000438526	protein_coding	KNOWN	None	33713	611	202	70323838	70326561	-1	None	None
X	CXorf65	ENSG00000204165	ENST00000483257	processed_transcript	KNOWN	None	33713	None	None	70325851	70326420	-1	None	None
2	ASNSD1	ENSG00000138381	ENST00000607062	protein_coding	NOVEL	None	24910	489	162	190526111	190535483	1	None	NS3TP1, FLJ20752, NBLA00058
2	ASNSD1	ENSG00000138381	ENST00000260952	protein_coding	KNOWN	CCDS2300	24910	1932	643	190526146	190535557	1	None	NS3TP1, FLJ20752, NBLA00058
2	ASNSD1	ENSG00000138381	ENST00000425590	protein_coding	KNOWN	None	24910	219	72	190526165	190531077	1	None	NS3TP1, FLJ20752, NBLA00058
2	ASNSD1	ENSG00000138381	ENST00000605941	nonsense_mediated_decay	KNOWN	None	24910	174	57	190526178	190531031	1	None	NS3TP1, FLJ20752, NBLA00058
2	ASNSD1	ENSG00000138381	ENST00000607535	protein_coding	PUTATIVE	None	24910	138	45	190526185	190531163	1	None	NS3TP1, FLJ20752, NBLA00058
2	ASNSD1	ENSG00000138381	ENST00000420250	protein_coding	KNOWN	None	24910	1856	617	190526189	190535376	1	None	NS3TP1, FLJ20752, NBLA00058
2	ASNSD1	ENSG00000138381	ENST00000606910	protein_coding	NOVEL	None	24910	739	245	190526245	190532607	1	None	NS3TP1, FLJ20752, NBLA00058
2	ASNSD1	ENSG00000138381	ENST00000607690	protein_coding	PUTATIVE	None	24910	192	63	190526247	190531127	1	None	NS3TP1, FLJ20752, NBLA00058
2	ASNSD1	ENSG00000138381	ENST00000607829	protein_coding	PUTATIVE	None	24910	291	96	190526247	190531127	1	None	NS3TP1, FLJ20752, NBLA00058
1	CDKN2C	ENSG00000123080	ENST00000262662	protein_coding	KNOWN	CCDS555	1789	507	168	51426417	51440305	1	None	INK4C, p18
1	CDKN2C	ENSG00000123080	ENST00000371761	protein_coding	KNOWN	CCDS555	1789	507	168	51435616	51440230	1	None	INK4C, p18
1	CDKN2C	ENSG00000123080	ENST00000396148	protein_coding	KNOWN	CCDS555	1789	507	168	51434367	51440305	1	None	INK4C, p18
10	SFMBT2	ENSG00000198879	ENST00000361972	protein_coding	KNOWN	CCDS31138	20256	2685	894	7200586	7451303	-1	None	KIAA1617
10	SFMBT2	ENSG00000198879	ENST00000379713	protein_coding	KNOWN	None	20256	561	186	7326144	7453448	-1	None	KIAA1617
10	SFMBT2	ENSG00000198879	ENST00000379711	protein_coding	KNOWN	None	20256	483	160	7390104	7450707	-1	None	KIAA1617
10	SFMBT2	ENSG00000198879	ENST00000397167	protein_coding	KNOWN	CCDS31138	20256	2685	894	7204249	7453450	-1	None	KIAA1617
10	SFMBT2	ENSG00000198879	ENST00000397160	protein_coding	KNOWN	None	20256	483	160	7390249	7453450	-1	None	KIAA1617
5	C5orf20	ENSG00000251380	ENST00000503143	protein_coding	KNOWN	CCDS4186	24459	735	244	134779905	134783038	-1	None	DCNP1
1	C1orf185	ENSG00000204006	ENST00000371759	protein_coding	KNOWN	CCDS44142	28096	600	199	51567906	51613752	1	None	FLJ27485
1	C1orf185	ENSG00000204006	ENST00000467127	protein_coding	PUTATIVE	None	28096	417	138	51567943	51613517	1	None	FLJ27485
1	C1orf185	ENSG00000204006	ENST00000474016	processed_transcript	KNOWN	None	28096	None	None	51567958	51595414	1	None	FLJ27485
9	None	ENSG00000230365	ENST00000437471	lincRNA	KNOWN	None	None	None	None	11275314	11276314	-1	None	None
9	None	ENSG00000224935	ENST00000452685	lincRNA	KNOWN	None	None	None	None	12098660	12159147	-1	None	None
1	RNF11	ENSG00000123091	ENST00000242719	protein_coding	KNOWN	CCDS556	10056	465	154	51701943	51739127	1	None	CGI-123, Sid1669p, MGC51169
1	RNF11	ENSG00000123091	ENST00000494873	processed_transcript	PUTATIVE	None	10056	None	None	51702011	51737234	1	None	CGI-123, Sid1669p, MGC51169
1	RNF11	ENSG00000123091	ENST00000486691	processed_transcript	PUTATIVE	None	10056	None	None	51735590	51737208	1	None	CGI-123, Sid1669p, MGC51169
X	IL2RG	ENSG00000147168	ENST00000276110	retained_intron	KNOWN	None	6010	None	None	70327254	70331400	-1	SCIDX1, IMD4, CIDX	CD132
X	IL2RG	ENSG00000147168	ENST00000374202	protein_coding	KNOWN	CCDS14406	6010	1110	369	70327254	70331481	-1	SCIDX1, IMD4, CIDX	CD132
X	IL2RG	ENSG00000147168	ENST00000512747	retained_intron	KNOWN	None	6010	None	None	70327259	70331456	-1	SCIDX1, IMD4, CIDX	CD132
X	IL2RG	ENSG00000147168	ENST00000482750	protein_coding	PUTATIVE	None	6010	196	64	70327566	70330012	-1	SCIDX1, IMD4, CIDX	CD132
X	IL2RG	ENSG00000147168	ENST00000464642	protein_coding	PUTATIVE	None	6010	659	218	70328512	70331958	-1	SCIDX1, IMD4, CIDX	CD132
X	IL2RG	ENSG00000147168	ENST00000487883	protein_coding	PUTATIVE	None	6010	528	175	70330036	70331410	-1	SCIDX1, IMD4, CIDX	CD132
X	IL2RG	ENSG00000147168	ENST00000473378	protein_coding	PUTATIVE	None	6010	298	98	70330447	70331404	-1	SCIDX1, IMD4, CIDX	CD132
X	IL2RG	ENSG00000147168	ENST00000456850	protein_coding	KNOWN	None	6010	540	179	70327586	70331298	-1	SCIDX1, IMD4, CIDX	CD132
X	IL2RG	ENSG00000147168	ENST00000374188	protein_coding	KNOWN	None	6010	297	98	70327586	70329118	-1	SCIDX1, IMD4, CIDX	CD132
11	SCGB1D4	ENSG00000197745	ENST00000358585	protein_coding	KNOWN	CCDS31583	31748	252	83	62063754	62066536	-1	None	IIS
12	DUSP16	ENSG00000111266	ENST00000228862	protein_coding	KNOWN	CCDS8650	17909	1998	665	12628829	12715317	-1	None	MKP-7, KIAA1700, MKP7
12	DUSP16	ENSG00000111266	ENST00000545864	processed_transcript	KNOWN	None	17909	None	None	12630820	12659121	-1	None	MKP-7, KIAA1700, MKP7
12	DUSP16	ENSG00000111266	ENST00000539940	protein_coding	KNOWN	None	17909	75	24	12673958	12714059	-1	None	MKP-7, KIAA1700, MKP7
12	DUSP16	ENSG00000111266	ENST00000541207	protein_coding	KNOWN	None	17909	18	5	12674015	12714011	-1	None	MKP-7, KIAA1700, MKP7
12	DUSP16	ENSG00000111266	ENST00000536236	processed_transcript	PUTATIVE	None	17909	None	None	12674261	12713820	-1	None	MKP-7, KIAA1700, MKP7
12	DUSP16	ENSG00000111266	ENST00000298573	protein_coding	KNOWN	None	17909	432	143	12629693	12674059	-1	None	MKP-7, KIAA1700, MKP7
15	IDH2	ENSG00000182054	ENST00000330062	protein_coding	KNOWN	CCDS10359	5383	1359	452	90626277	90645736	-1	None	None
15	IDH2	ENSG00000182054	ENST00000560061	nonsense_mediated_decay	KNOWN	None	5383	117	38	90627228	90645700	-1	None	None
15	IDH2	ENSG00000182054	ENST00000559482	protein_coding	NOVEL	None	5383	939	312	90627246	90645709	-1	None	None
15	IDH2	ENSG00000182054	ENST00000540499	protein_coding	PUTATIVE	None	5383	1203	400	90627409	90643927	-1	None	None
15	IDH2	ENSG00000182054	ENST00000539790	protein_coding	KNOWN	None	5383	969	322	90627228	90645700	-1	None	None
3	ZNF148	ENSG00000163848	ENST00000360647	protein_coding	KNOWN	CCDS3031	12933	2385	794	124944405	125094198	-1	None	BERF-1, ZBP-89, BFCOL1, HT-BETA, ZFP148, pHZ-52
3	ZNF148	ENSG00000163848	ENST00000468369	protein_coding	PUTATIVE	None	12933	435	144	124950903	125094122	-1	None	BERF-1, ZBP-89, BFCOL1, HT-BETA, ZFP148, pHZ-52
3	ZNF148	ENSG00000163848	ENST00000484491	protein_coding	NOVEL	CCDS3031	12933	2385	794	124950920	125094093	-1	None	BERF-1, ZBP-89, BFCOL1, HT-BETA, ZFP148, pHZ-52
3	ZNF148	ENSG00000163848	ENST00000492394	protein_coding	KNOWN	CCDS3031	12933	2385	794	124950923	125094095	-1	None	BERF-1, ZBP-89, BFCOL1, HT-BETA, ZFP148, pHZ-52
3	ZNF148	ENSG00000163848	ENST00000485866	protein_coding	KNOWN	CCDS3031	12933	2385	794	124951172	125094157	-1	None	BERF-1, ZBP-89, BFCOL1, HT-BETA, ZFP148, pHZ-52
3	ZNF148	ENSG00000163848	ENST00000497929	processed_transcript	KNOWN	None	12933	None	None	124951185	125011637	-1	None	BERF-1, ZBP-89, BFCOL1, HT-BETA, ZFP148, pHZ-52
3	ZNF148	ENSG00000163848	ENST00000496732	processed_transcript	PUTATIVE	None	12933	None	None	124951356	124952125	-1	None	BERF-1, ZBP-89, BFCOL1, HT-BETA, ZFP148, pHZ-52
3	ZNF148	ENSG00000163848	ENST00000465763	protein_coding	KNOWN	None	12933	250	82	125032235	125076662	-1	None	BERF-1, ZBP-89, BFCOL1, HT-BETA, ZFP148, pHZ-52
3	ZNF148	ENSG00000163848	ENST00000495019	protein_coding	KNOWN	None	12933	226	74	125032259	125076124	-1	None	BERF-1, ZBP-89, BFCOL1, HT-BETA, ZFP148, pHZ-52
3	ZNF148	ENSG00000163848	ENST00000471196	protein_coding	KNOWN	None	12933	77	24	125032408	125094111	-1	None	BERF-1, ZBP-89, BFCOL1, HT-BETA, ZFP148, pHZ-52
3	ZNF148	ENSG00000163848	ENST00000544464	protein_coding	KNOWN	None	12933	396	131	124950920	125094122	-1	None	BERF-1, ZBP-89, BFCOL1, HT-BETA, ZFP148, pHZ-52
6	AIF1	ENSG00000204472	ENST00000376059	protein_coding	KNOWN	CCDS4706	352	444	147	31582961	31584798	1	None	IRT-1, AIF-1, Em:AF129756.17, IBA1
6	AIF1	ENSG00000204472	ENST00000497362	retained_intron	KNOWN	None	352	None	None	31582994	31584117	1	None	IRT-1, AIF-1, Em:AF129756.17, IBA1
6	AIF1	ENSG00000204472	ENST00000337917	protein_coding	KNOWN	None	352	486	161	31583004	31584798	1	None	IRT-1, AIF-1, Em:AF129756.17, IBA1
6	AIF1	ENSG00000204472	ENST00000466820	retained_intron	KNOWN	None	352	None	None	31583057	31584798	1	None	IRT-1, AIF-1, Em:AF129756.17, IBA1
6	AIF1	ENSG00000204472	ENST00000376049	protein_coding	KNOWN	CCDS34398	352	282	93	31583768	31584798	1	None	IRT-1, AIF-1, Em:AF129756.17, IBA1
9	NUDT2	ENSG00000164978	ENST00000379158	protein_coding	KNOWN	CCDS6552	8049	444	147	34329504	34343709	1	APAH1	None
9	NUDT2	ENSG00000164978	ENST00000346365	protein_coding	KNOWN	CCDS6552	8049	444	147	34329504	34343709	1	APAH1	None
9	NUDT2	ENSG00000164978	ENST00000379155	protein_coding	KNOWN	CCDS6552	8049	444	147	34329504	34343709	1	APAH1	None
9	None	ENSG00000231491	ENST00000413804	processed_pseudogene	KNOWN	None	None	None	None	12287320	12288238	1	None	None
5	TIFAB	ENSG00000255833	ENST00000537858	protein_coding	KNOWN	CCDS43365	34024	486	161	134779908	134788089	-1	None	None
9	RNU2-47P	ENSG00000222581	ENST00000410649	snRNA	KNOWN	None	48540	None	None	12300266	12300451	-1	None	None
7	VIPR2	ENSG00000106018	ENST00000262178	protein_coding	KNOWN	CCDS5950	12695	1317	438	158820866	158937649	-1	None	VPAC2, VPAC2R
7	VIPR2	ENSG00000106018	ENST00000377633	protein_coding	NOVEL	None	12695	1269	422	158823146	158889895	-1	None	VPAC2, VPAC2R
7	VIPR2	ENSG00000106018	ENST00000402066	protein_coding	NOVEL	None	12695	1740	579	158823209	158937551	-1	None	VPAC2, VPAC2R
7	VIPR2	ENSG00000106018	ENST00000421760	protein_coding	PUTATIVE	None	12695	234	77	158909613	158937544	-1	None	VPAC2, VPAC2R
9	None	ENSG00000235448	ENST00000417638	antisense	KNOWN	None	None	None	None	12700100	12814344	-1	None	None
11	ASRGL1	ENSG00000162174	ENST00000415229	protein_coding	KNOWN	CCDS8019	16448	927	308	62104920	62160882	1	None	FLJ22316, ALP1, ALP
11	ASRGL1	ENSG00000162174	ENST00000534183	nonsense_mediated_decay	KNOWN	None	16448	213	70	62104923	62157298	1	None	FLJ22316, ALP1, ALP
11	ASRGL1	ENSG00000162174	ENST00000301776	protein_coding	KNOWN	CCDS8019	16448	927	308	62104925	62160878	1	None	FLJ22316, ALP1, ALP
11	ASRGL1	ENSG00000162174	ENST00000525496	retained_intron	KNOWN	None	16448	None	None	62104931	62105810	1	None	FLJ22316, ALP1, ALP
11	ASRGL1	ENSG00000162174	ENST00000529226	nonsense_mediated_decay	KNOWN	None	16448	213	70	62104942	62156637	1	None	FLJ22316, ALP1, ALP
11	ASRGL1	ENSG00000162174	ENST00000534571	retained_intron	KNOWN	None	16448	None	None	62104967	62124673	1	None	FLJ22316, ALP1, ALP
11	ASRGL1	ENSG00000162174	ENST00000526096	processed_transcript	KNOWN	None	16448	None	None	62104975	62124604	1	None	FLJ22316, ALP1, ALP
11	ASRGL1	ENSG00000162174	ENST00000528206	processed_transcript	KNOWN	None	16448	None	None	62124525	62150719	1	None	FLJ22316, ALP1, ALP
11	ASRGL1	ENSG00000162174	ENST00000525708	retained_intron	KNOWN	None	16448	None	None	62158970	62160057	1	None	FLJ22316, ALP1, ALP
11	ASRGL1	ENSG00000162174	ENST00000533970	processed_transcript	PUTATIVE	None	16448	None	None	62159369	62160040	1	None	FLJ22316, ALP1, ALP
11	ASRGL1	ENSG00000162174	ENST00000535727	protein_coding	KNOWN	None	16448	366	121	62104923	62157298	1	None	FLJ22316, ALP1, ALP
9	RN7SL849P	ENSG00000243115	ENST00000485236	misc_RNA	KNOWN	None	46865	None	None	12764762	12765054	-1	None	None
9	None	ENSG00000222658	ENST00000410726	misc_RNA	NOVEL	None	None	None	None	12885320	12885416	1	None	None
1	CRTC2	ENSG00000160741	ENST00000303569	nonsense_mediated_decay	KNOWN	None	27301	165	54	153920145	153931091	-1	None	TORC2
1	CRTC2	ENSG00000160741	ENST00000461638	nonsense_mediated_decay	KNOWN	None	27301	1446	481	153920151	153927465	-1	None	TORC2
1	CRTC2	ENSG00000160741	ENST00000368630	protein_coding	NOVEL	None	27301	1122	373	153920151	153931052	-1	None	TORC2
1	CRTC2	ENSG00000160741	ENST00000368633	protein_coding	KNOWN	CCDS30875	27301	2082	693	153920151	153931101	-1	None	TORC2
1	CRTC2	ENSG00000160741	ENST00000487235	retained_intron	KNOWN	None	27301	None	None	153920154	153931040	-1	None	TORC2
1	CRTC2	ENSG00000160741	ENST00000524997	retained_intron	KNOWN	None	27301	None	None	153921648	153924572	-1	None	TORC2
1	CRTC2	ENSG00000160741	ENST00000467860	retained_intron	KNOWN	None	27301	None	None	153924608	153925438	-1	None	TORC2
1	CRTC2	ENSG00000160741	ENST00000493909	retained_intron	KNOWN	None	27301	None	None	153924632	153924972	-1	None	TORC2
1	CRTC2	ENSG00000160741	ENST00000476883	processed_transcript	KNOWN	None	27301	None	None	153925792	153930599	-1	None	TORC2
1	CRTC2	ENSG00000160741	ENST00000492073	processed_transcript	KNOWN	None	27301	None	None	153926742	153930680	-1	None	TORC2
9	KIAA1161	ENSG00000164976	ENST00000297625	protein_coding	KNOWN	None	19918	2043	680	34366668	34376851	-1	None	NET37
9	KIAA1161	ENSG00000164976	ENST00000379142	protein_coding	NOVEL	None	19918	480	159	34372066	34372830	-1	None	NET37
5	NEUROG1	ENSG00000181965	ENST00000314744	protein_coding	KNOWN	CCDS4187	7764	714	237	134869991	134871639	-1	NEUROD3	AKA, Math4C, ngn1, bHLHa6
15	LEO1	ENSG00000166477	ENST00000299601	protein_coding	KNOWN	CCDS10146	30401	2001	666	52230222	52264003	-1	None	None
15	LEO1	ENSG00000166477	ENST00000315141	protein_coding	KNOWN	None	30401	1821	606	52230224	52263973	-1	None	None
15	LEO1	ENSG00000166477	ENST00000558949	retained_intron	KNOWN	None	30401	None	None	52245412	52247258	-1	None	None
9	TDPX2	ENSG00000214121	ENST00000449329	processed_pseudogene	KNOWN	None	11711	None	None	12972842	12973437	-1	PAGB	None
9	None	ENSG00000232850	ENST00000443493	protein_coding	KNOWN	None	None	696	231	130890612	130891481	1	None	None
12	MCRS1	ENSG00000187778	ENST00000551598	protein_coding	PUTATIVE	None	6960	522	173	49950327	49954085	-1	None	ICP22BP, MSP58, P78, MCRS2, INO80Q
12	MCRS1	ENSG00000187778	ENST00000548602	nonsense_mediated_decay	KNOWN	None	6960	186	61	49952084	49961914	-1	None	ICP22BP, MSP58, P78, MCRS2, INO80Q
12	MCRS1	ENSG00000187778	ENST00000551625	retained_intron	KNOWN	None	6960	None	None	49952085	49961533	-1	None	ICP22BP, MSP58, P78, MCRS2, INO80Q
12	MCRS1	ENSG00000187778	ENST00000343810	protein_coding	KNOWN	CCDS8787	6960	1389	462	49952103	49961936	-1	None	ICP22BP, MSP58, P78, MCRS2, INO80Q
12	MCRS1	ENSG00000187778	ENST00000550165	protein_coding	KNOWN	CCDS8787	6960	1389	462	49952146	49961884	-1	None	ICP22BP, MSP58, P78, MCRS2, INO80Q
12	MCRS1	ENSG00000187778	ENST00000552596	retained_intron	KNOWN	None	6960	None	None	49952262	49953043	-1	None	ICP22BP, MSP58, P78, MCRS2, INO80Q
12	MCRS1	ENSG00000187778	ENST00000548646	nonsense_mediated_decay	KNOWN	None	6960	195	64	49952287	49953563	-1	None	ICP22BP, MSP58, P78, MCRS2, INO80Q
12	MCRS1	ENSG00000187778	ENST00000547182	processed_transcript	KNOWN	None	6960	None	None	49952356	49956858	-1	None	ICP22BP, MSP58, P78, MCRS2, INO80Q
12	MCRS1	ENSG00000187778	ENST00000357123	protein_coding	KNOWN	CCDS31795	6960	1428	475	49952426	49960222	-1	None	ICP22BP, MSP58, P78, MCRS2, INO80Q
12	MCRS1	ENSG00000187778	ENST00000549000	retained_intron	KNOWN	None	6960	None	None	49952796	49961915	-1	None	ICP22BP, MSP58, P78, MCRS2, INO80Q
12	MCRS1	ENSG00000187778	ENST00000553173	protein_coding	PUTATIVE	None	6960	955	317	49953521	49961883	-1	None	ICP22BP, MSP58, P78, MCRS2, INO80Q
12	MCRS1	ENSG00000187778	ENST00000548334	protein_coding	KNOWN	None	6960	617	204	49957270	49961615	-1	None	ICP22BP, MSP58, P78, MCRS2, INO80Q
12	MCRS1	ENSG00000187778	ENST00000548596	protein_coding	KNOWN	None	6960	557	184	49958264	49961656	-1	None	ICP22BP, MSP58, P78, MCRS2, INO80Q
12	MCRS1	ENSG00000187778	ENST00000549528	protein_coding	KNOWN	None	6960	433	143	49958546	49961633	-1	None	ICP22BP, MSP58, P78, MCRS2, INO80Q
12	MCRS1	ENSG00000187778	ENST00000552206	retained_intron	KNOWN	None	6960	None	None	49959313	49961911	-1	None	ICP22BP, MSP58, P78, MCRS2, INO80Q
12	MCRS1	ENSG00000187778	ENST00000546244	protein_coding	KNOWN	None	6960	816	271	49952088	49961914	-1	None	ICP22BP, MSP58, P78, MCRS2, INO80Q
9	C9orf24	ENSG00000164972	ENST00000481295	processed_transcript	KNOWN	None	19919	None	None	34379017	34379773	-1	None	bA573M23.4, NYD-SP22, MGC32921, MGC33614, CBE1, SMRP1
9	C9orf24	ENSG00000164972	ENST00000379124	protein_coding	KNOWN	CCDS59121	19919	495	164	34379017	34381529	-1	None	bA573M23.4, NYD-SP22, MGC32921, MGC33614, CBE1, SMRP1
9	C9orf24	ENSG00000164972	ENST00000379126	protein_coding	KNOWN	CCDS6553	19919	336	111	34379017	34381536	-1	None	bA573M23.4, NYD-SP22, MGC32921, MGC33614, CBE1, SMRP1
9	C9orf24	ENSG00000164972	ENST00000379127	protein_coding	KNOWN	CCDS59121	19919	495	164	34379017	34381558	-1	None	bA573M23.4, NYD-SP22, MGC32921, MGC33614, CBE1, SMRP1
9	C9orf24	ENSG00000164972	ENST00000379133	protein_coding	KNOWN	CCDS6555	19919	384	127	34379017	34381598	-1	None	bA573M23.4, NYD-SP22, MGC32921, MGC33614, CBE1, SMRP1
9	C9orf24	ENSG00000164972	ENST00000297623	protein_coding	KNOWN	CCDS6554	19919	789	262	34379017	34397830	-1	None	bA573M23.4, NYD-SP22, MGC32921, MGC33614, CBE1, SMRP1
9	C9orf24	ENSG00000164972	ENST00000444429	protein_coding	KNOWN	None	19919	376	124	34382668	34397527	-1	None	bA573M23.4, NYD-SP22, MGC32921, MGC33614, CBE1, SMRP1
5	NHP2	ENSG00000145912	ENST00000274606	protein_coding	KNOWN	CCDS4432	14377	462	153	177576461	177580968	-1	NOLA2	FLJ20479
5	NHP2	ENSG00000145912	ENST00000314397	protein_coding	KNOWN	CCDS34308	14377	273	90	177576483	177580830	-1	NOLA2	FLJ20479
5	NHP2	ENSG00000145912	ENST00000502263	protein_coding	PUTATIVE	None	14377	258	85	177577532	177580580	-1	NOLA2	FLJ20479
5	NHP2	ENSG00000145912	ENST00000514354	protein_coding	PUTATIVE	None	14377	407	134	177577640	177580883	-1	NOLA2	FLJ20479
5	NHP2	ENSG00000145912	ENST00000511078	protein_coding	PUTATIVE	None	14377	398	131	177577827	177580895	-1	NOLA2	FLJ20479
5	NHP2	ENSG00000145912	ENST00000510363	retained_intron	KNOWN	None	14377	None	None	177580223	177580885	-1	NOLA2	FLJ20479
4	HGFAC	ENSG00000109758	ENST00000382774	protein_coding	KNOWN	CCDS3369	4894	1968	655	3443614	3451211	1	None	HGFAP, HGFA
4	HGFAC	ENSG00000109758	ENST00000511533	protein_coding	PUTATIVE	None	4894	1989	662	3443702	3451146	1	None	HGFAP, HGFA
4	HGFAC	ENSG00000109758	ENST00000509689	retained_intron	KNOWN	None	4894	None	None	3446076	3451162	1	None	HGFAP, HGFA
4	HGFAC	ENSG00000109758	ENST00000506132	retained_intron	KNOWN	None	4894	None	None	3447627	3449921	1	None	HGFAP, HGFA
X	LAGE3	ENSG00000196976	ENST00000407062	protein_coding	PUTATIVE	None	26058	321	106	153706028	153707268	-1	None	ITBA2, CVG5, DXS9951E, DXS9879E, ESO3
X	LAGE3	ENSG00000196976	ENST00000357360	protein_coding	KNOWN	CCDS14753	26058	432	143	153706108	153707596	-1	None	ITBA2, CVG5, DXS9951E, DXS9879E, ESO3
9	LCN2	ENSG00000148346	ENST00000373017	protein_coding	KNOWN	CCDS6892	6526	597	198	130911350	130915412	1	None	NGAL, 24p3
9	LCN2	ENSG00000148346	ENST00000470902	processed_transcript	KNOWN	None	6526	None	None	130911720	130915732	1	None	NGAL, 24p3
9	LCN2	ENSG00000148346	ENST00000277480	protein_coding	KNOWN	CCDS6892	6526	597	198	130911732	130915734	1	None	NGAL, 24p3
9	LCN2	ENSG00000148346	ENST00000487719	retained_intron	KNOWN	None	6526	None	None	130911751	130912888	1	None	NGAL, 24p3
9	LCN2	ENSG00000148346	ENST00000372998	protein_coding	KNOWN	None	6526	603	200	130911797	130915418	1	None	NGAL, 24p3
9	LCN2	ENSG00000148346	ENST00000488391	retained_intron	KNOWN	None	6526	None	None	130913779	130915607	1	None	NGAL, 24p3
9	LCN2	ENSG00000148346	ENST00000494317	processed_transcript	KNOWN	None	6526	None	None	130913948	130915732	1	None	NGAL, 24p3
9	LCN2	ENSG00000148346	ENST00000373013	protein_coding	KNOWN	None	6526	603	200	130911732	130915734	1	None	NGAL, 24p3
9	LCN2	ENSG00000148346	ENST00000540948	protein_coding	KNOWN	None	6526	597	198	130911732	130915022	1	None	NGAL, 24p3
X	UBL4A	ENSG00000102178	ENST00000369660	protein_coding	KNOWN	CCDS14754	12505	474	157	153712056	153715009	-1	UBL4	GDX, DXS254E, GET5, MDY2, TMA24
X	UBL4A	ENSG00000102178	ENST00000421431	nonsense_mediated_decay	KNOWN	None	12505	102	33	153712622	153714951	-1	UBL4	GDX, DXS254E, GET5, MDY2, TMA24
X	UBL4A	ENSG00000102178	ENST00000369653	protein_coding	PUTATIVE	None	12505	543	180	153713532	153714954	-1	UBL4	GDX, DXS254E, GET5, MDY2, TMA24
X	UBL4A	ENSG00000102178	ENST00000477777	processed_transcript	PUTATIVE	None	12505	None	None	153713692	153714441	-1	UBL4	GDX, DXS254E, GET5, MDY2, TMA24
X	UBL4A	ENSG00000102178	ENST00000417913	nonsense_mediated_decay	KNOWN	None	12505	312	103	153713715	153714925	-1	UBL4	GDX, DXS254E, GET5, MDY2, TMA24
X	UBL4A	ENSG00000102178	ENST00000481237	retained_intron	KNOWN	None	12505	None	None	153714381	153714923	-1	UBL4	GDX, DXS254E, GET5, MDY2, TMA24
17	NEURL4	ENSG00000215041	ENST00000315614	protein_coding	KNOWN	CCDS42252	34410	4683	1560	7218947	7232635	-1	None	KIAA1787
17	NEURL4	ENSG00000215041	ENST00000399464	protein_coding	KNOWN	CCDS42251	34410	4689	1562	7218947	7232647	-1	None	KIAA1787
17	NEURL4	ENSG00000215041	ENST00000573186	nonsense_mediated_decay	KNOWN	None	34410	3054	1017	7218952	7230819	-1	None	KIAA1787
17	NEURL4	ENSG00000215041	ENST00000570460	protein_coding	NOVEL	None	34410	4617	1538	7219250	7232712	-1	None	KIAA1787
17	NEURL4	ENSG00000215041	ENST00000572680	retained_intron	KNOWN	None	34410	None	None	7219442	7221227	-1	None	KIAA1787
17	NEURL4	ENSG00000215041	ENST00000576794	retained_intron	KNOWN	None	34410	None	None	7220526	7221932	-1	None	KIAA1787
17	NEURL4	ENSG00000215041	ENST00000574120	processed_transcript	KNOWN	None	34410	None	None	7220566	7222060	-1	None	KIAA1787
17	NEURL4	ENSG00000215041	ENST00000571887	protein_coding	NOVEL	None	34410	4291	1429	7220605	7232585	-1	None	KIAA1787
17	NEURL4	ENSG00000215041	ENST00000572029	retained_intron	KNOWN	None	34410	None	None	7221588	7224128	-1	None	KIAA1787
17	NEURL4	ENSG00000215041	ENST00000571508	retained_intron	KNOWN	None	34410	None	None	7224742	7226283	-1	None	KIAA1787
17	NEURL4	ENSG00000215041	ENST00000576485	retained_intron	KNOWN	None	34410	None	None	7226393	7227689	-1	None	KIAA1787
17	NEURL4	ENSG00000215041	ENST00000576966	retained_intron	KNOWN	None	34410	None	None	7228482	7230156	-1	None	KIAA1787
17	NEURL4	ENSG00000215041	ENST00000571243	retained_intron	KNOWN	None	34410	None	None	7228750	7229843	-1	None	KIAA1787
2	RPS7	ENSG00000171863	ENST00000304921	protein_coding	KNOWN	CCDS1648	10440	585	194	3622795	3628509	1	None	S7
2	RPS7	ENSG00000171863	ENST00000407445	protein_coding	PUTATIVE	None	10440	564	187	3622912	3628129	1	None	S7
2	RPS7	ENSG00000171863	ENST00000462576	retained_intron	KNOWN	None	10440	None	None	3622915	3628509	1	None	S7
2	RPS7	ENSG00000171863	ENST00000403564	protein_coding	KNOWN	CCDS1648	10440	585	194	3622915	3628509	1	None	S7
2	RPS7	ENSG00000171863	ENST00000491937	retained_intron	KNOWN	None	10440	None	None	3622935	3628065	1	None	S7
2	RPS7	ENSG00000171863	ENST00000406376	protein_coding	KNOWN	CCDS1648	10440	585	194	3622948	3628491	1	None	S7
2	RPS7	ENSG00000171863	ENST00000481006	retained_intron	KNOWN	None	10440	None	None	3622948	3628508	1	None	S7
2	RPS7	ENSG00000171863	ENST00000479123	retained_intron	KNOWN	None	10440	None	None	3623223	3624463	1	None	S7
2	RPS7	ENSG00000171863	ENST00000472966	retained_intron	KNOWN	None	10440	None	None	3627409	3628508	1	None	S7
2	ANKAR	ENSG00000151687	ENST00000441800	nonsense_mediated_decay	KNOWN	None	26350	2406	801	190539016	190625919	1	None	FLJ25415
2	ANKAR	ENSG00000151687	ENST00000461516	processed_transcript	KNOWN	None	26350	None	None	190539333	190560926	1	None	FLJ25415
2	ANKAR	ENSG00000151687	ENST00000520309	protein_coding	KNOWN	CCDS33351	26350	4305	1434	190540711	190611370	1	None	FLJ25415
2	ANKAR	ENSG00000151687	ENST00000433782	nonsense_mediated_decay	KNOWN	None	26350	3030	1009	190540711	190611370	1	None	FLJ25415
2	ANKAR	ENSG00000151687	ENST00000467927	retained_intron	KNOWN	None	26350	None	None	190541664	190557575	1	None	FLJ25415
2	ANKAR	ENSG00000151687	ENST00000464687	processed_transcript	KNOWN	None	26350	None	None	190561027	190585410	1	None	FLJ25415
2	ANKAR	ENSG00000151687	ENST00000474303	processed_transcript	KNOWN	None	26350	None	None	190593079	190611376	1	None	FLJ25415
2	ANKAR	ENSG00000151687	ENST00000476208	processed_transcript	KNOWN	None	26350	None	None	190603285	190617866	1	None	FLJ25415
2	ANKAR	ENSG00000151687	ENST00000313581	protein_coding	KNOWN	CCDS33351	26350	4305	1434	190541153	190611375	1	None	FLJ25415
2	ANKAR	ENSG00000151687	ENST00000438402	protein_coding	KNOWN	None	26350	3243	1080	190541177	190611375	1	None	FLJ25415
2	ANKAR	ENSG00000151687	ENST00000431575	protein_coding	KNOWN	None	26350	4092	1363	190541177	190611375	1	None	FLJ25415
2	ANKAR	ENSG00000151687	ENST00000281412	protein_coding	KNOWN	None	26350	2406	801	190541177	190611375	1	None	FLJ25415
11	OR4C13	ENSG00000258817	ENST00000555099	protein_coding	KNOWN	CCDS31495	15169	930	309	49973943	49974971	1	None	None
8	CYP11B2	ENSG00000179142	ENST00000323110	protein_coding	KNOWN	CCDS6393	2592	1512	503	143991975	143999259	-1	CYP11B	CYP11BL, CPN2, P-450C18, P450aldo, ALDOS
11	OR4C12	ENSG00000221954	ENST00000335238	protein_coding	KNOWN	CCDS31496	15168	930	309	50003009	50004071	-1	None	None
19	CLEC4G	ENSG00000182566	ENST00000328853	protein_coding	KNOWN	CCDS12185	24591	882	293	7793843	7797057	-1	None	UNQ431, LSECtin
19	CLEC4G	ENSG00000182566	ENST00000599020	protein_coding	PUTATIVE	None	24591	448	148	7795707	7798792	-1	None	UNQ431, LSECtin
19	CLEC4G	ENSG00000182566	ENST00000598081	processed_transcript	KNOWN	None	24591	None	None	7795925	7797091	-1	None	UNQ431, LSECtin
11	OR4A5	ENSG00000221840	ENST00000319760	protein_coding	KNOWN	CCDS31497	15162	948	315	51411378	51412448	-1	None	None
11	OR4C46	ENSG00000185926	ENST00000328188	protein_coding	KNOWN	CCDS31498	31271	930	309	51515282	51516211	1	None	None
17	None	ENSG00000268503	ENST00000593717	protein_coding	NOVEL	None	None	15	4	7517264	7517427	1	None	None
1	SLC39A1	ENSG00000143570	ENST00000356205	protein_coding	KNOWN	CCDS1055	12876	975	324	153931575	153936048	-1	ZIRTL	ZIP1
1	SLC39A1	ENSG00000143570	ENST00000368623	protein_coding	KNOWN	CCDS1055	12876	975	324	153931586	153935951	-1	ZIRTL	ZIP1
1	SLC39A1	ENSG00000143570	ENST00000368621	protein_coding	KNOWN	CCDS1055	12876	975	324	153931587	153935938	-1	ZIRTL	ZIP1
1	SLC39A1	ENSG00000143570	ENST00000310483	protein_coding	KNOWN	CCDS1055	12876	975	324	153931588	153940188	-1	ZIRTL	ZIP1
1	SLC39A1	ENSG00000143570	ENST00000429040	protein_coding	KNOWN	None	12876	963	320	153932586	153935798	-1	ZIRTL	ZIP1
1	SLC39A1	ENSG00000143570	ENST00000413622	protein_coding	KNOWN	None	12876	720	239	153932829	153940097	-1	ZIRTL	ZIP1
1	SLC39A1	ENSG00000143570	ENST00000417348	protein_coding	KNOWN	None	12876	619	205	153932930	153935738	-1	ZIRTL	ZIP1
1	SLC39A1	ENSG00000143570	ENST00000461071	processed_transcript	KNOWN	None	12876	None	None	153934787	153935615	-1	ZIRTL	ZIP1
1	SLC39A1	ENSG00000143570	ENST00000537590	protein_coding	KNOWN	None	12876	669	222	153932096	153936025	-1	ZIRTL	ZIP1
7	SLC12A9	ENSG00000146828	ENST00000461016	processed_transcript	PUTATIVE	None	17435	None	None	100424442	100457540	1	None	CIP1
7	SLC12A9	ENSG00000146828	ENST00000448342	nonsense_mediated_decay	KNOWN	None	17435	138	45	100450342	100458884	1	None	CIP1
7	SLC12A9	ENSG00000146828	ENST00000418037	protein_coding	PUTATIVE	None	17435	469	155	100450355	100458802	1	None	CIP1
7	SLC12A9	ENSG00000146828	ENST00000415287	protein_coding	KNOWN	CCDS59069	17435	1617	538	100450359	100463157	1	None	CIP1
7	SLC12A9	ENSG00000146828	ENST00000462106	retained_intron	KNOWN	None	17435	None	None	100450368	100453550	1	None	CIP1
7	SLC12A9	ENSG00000146828	ENST00000354161	protein_coding	KNOWN	CCDS5707	17435	2745	914	100450375	100464630	1	None	CIP1
7	SLC12A9	ENSG00000146828	ENST00000416675	protein_coding	NOVEL	None	17435	735	244	100450399	100458852	1	None	CIP1
7	SLC12A9	ENSG00000146828	ENST00000434158	protein_coding	KNOWN	None	17435	386	127	100450908	100453397	1	None	CIP1
7	SLC12A9	ENSG00000146828	ENST00000475687	retained_intron	KNOWN	None	17435	None	None	100453063	100464631	1	None	CIP1
7	SLC12A9	ENSG00000146828	ENST00000467972	retained_intron	KNOWN	None	17435	None	None	100454416	100464631	1	None	CIP1
7	SLC12A9	ENSG00000146828	ENST00000497958	retained_intron	KNOWN	None	17435	None	None	100454652	100458086	1	None	CIP1
7	SLC12A9	ENSG00000146828	ENST00000487651	retained_intron	KNOWN	None	17435	None	None	100456358	100464631	1	None	CIP1
7	SLC12A9	ENSG00000146828	ENST00000475623	processed_transcript	KNOWN	None	17435	None	None	100456659	100458566	1	None	CIP1
7	SLC12A9	ENSG00000146828	ENST00000482184	processed_transcript	KNOWN	None	17435	None	None	100459142	100463177	1	None	CIP1
7	SLC12A9	ENSG00000146828	ENST00000428758	protein_coding	KNOWN	None	17435	1884	627	100450358	100463007	1	None	CIP1
7	SLC12A9	ENSG00000146828	ENST00000275729	protein_coding	KNOWN	CCDS59069	17435	1617	538	100450358	100463007	1	None	CIP1
7	SLC12A9	ENSG00000146828	ENST00000540482	protein_coding	KNOWN	CCDS59068	17435	1896	631	100450341	100462980	1	None	CIP1
17	None	ENSG00000187607	ENST00000585207	retained_intron	KNOWN	None	None	None	None	15602891	15604614	1	None	None
17	None	ENSG00000187607	ENST00000582094	retained_intron	KNOWN	None	None	None	None	15602895	15603853	1	None	None
17	None	ENSG00000187607	ENST00000580259	protein_coding	PUTATIVE	None	None	183	60	15603033	15619426	1	None	None
17	None	ENSG00000187607	ENST00000583566	protein_coding	KNOWN	CCDS11172	None	1566	521	15603047	15620604	1	None	None
17	None	ENSG00000187607	ENST00000472486	protein_coding	PUTATIVE	None	None	321	106	15603053	15619804	1	None	None
17	None	ENSG00000187607	ENST00000395894	protein_coding	KNOWN	None	None	351	116	15603053	15624101	1	None	None
17	None	ENSG00000187607	ENST00000579516	retained_intron	KNOWN	None	None	None	None	15603054	15603991	1	None	None
17	None	ENSG00000187607	ENST00000581529	protein_coding	PUTATIVE	None	None	153	50	15603054	15619712	1	None	None
17	None	ENSG00000187607	ENST00000579694	protein_coding	PUTATIVE	None	None	357	118	15603054	15619731	1	None	None
17	None	ENSG00000187607	ENST00000580393	protein_coding	PUTATIVE	None	None	514	170	15603058	15619423	1	None	None
17	None	ENSG00000187607	ENST00000585194	protein_coding	PUTATIVE	None	None	351	116	15603059	15619358	1	None	None
17	None	ENSG00000187607	ENST00000583031	protein_coding	PUTATIVE	None	None	182	59	15603067	15619369	1	None	None
17	None	ENSG00000187607	ENST00000464847	protein_coding	KNOWN	CCDS11172	None	1566	521	15603091	15624101	1	None	None
17	None	ENSG00000187607	ENST00000578258	processed_transcript	KNOWN	None	None	None	None	15603424	15614751	1	None	None
17	None	ENSG00000187607	ENST00000395893	protein_coding	PUTATIVE	None	None	426	141	15603447	15613252	1	None	None
17	None	ENSG00000187607	ENST00000583347	processed_transcript	KNOWN	None	None	None	None	15603477	15604544	1	None	None
17	None	ENSG00000187607	ENST00000481540	protein_coding	PUTATIVE	None	None	279	92	15604513	15611738	1	None	None
17	None	ENSG00000187607	ENST00000580136	processed_transcript	KNOWN	None	None	None	None	15604671	15619566	1	None	None
17	None	ENSG00000187607	ENST00000578920	processed_transcript	PUTATIVE	None	None	None	None	15620599	15623766	1	None	None
17	None	ENSG00000187607	ENST00000593105	protein_coding	KNOWN	None	None	1536	511	15603006	15640874	1	None	None
17	None	ENSG00000187607	ENST00000421016	protein_coding	KNOWN	CCDS11172	None	1566	521	15602891	15624096	1	None	None
1	TTC39A	ENSG00000085831	ENST00000530004	protein_coding	KNOWN	None	18657	666	221	51752930	51763662	-1	C1orf34	KIAA0452, DEME-6
1	TTC39A	ENSG00000085831	ENST00000447632	protein_coding	KNOWN	None	18657	1842	613	51752930	51787882	-1	C1orf34	KIAA0452, DEME-6
1	TTC39A	ENSG00000085831	ENST00000413473	protein_coding	KNOWN	CCDS44143	18657	1746	581	51752930	51810788	-1	C1orf34	KIAA0452, DEME-6
1	TTC39A	ENSG00000085831	ENST00000262675	protein_coding	PUTATIVE	None	18657	1653	550	51753484	51795845	-1	C1orf34	KIAA0452, DEME-6
1	TTC39A	ENSG00000085831	ENST00000371750	protein_coding	KNOWN	CCDS44144	18657	1737	578	51753642	51787930	-1	C1orf34	KIAA0452, DEME-6
1	TTC39A	ENSG00000085831	ENST00000534098	processed_transcript	KNOWN	None	18657	None	None	51753658	51763632	-1	C1orf34	KIAA0452, DEME-6
1	TTC39A	ENSG00000085831	ENST00000525906	protein_coding	KNOWN	None	18657	338	111	51755764	51762532	-1	C1orf34	KIAA0452, DEME-6
1	TTC39A	ENSG00000085831	ENST00000431927	processed_transcript	KNOWN	None	18657	None	None	51760130	51771265	-1	C1orf34	KIAA0452, DEME-6
1	TTC39A	ENSG00000085831	ENST00000371747	protein_coding	PUTATIVE	None	18657	1281	426	51761210	51796234	-1	C1orf34	KIAA0452, DEME-6
1	TTC39A	ENSG00000085831	ENST00000262676	protein_coding	KNOWN	None	18657	1263	420	51762890	51797018	-1	C1orf34	KIAA0452, DEME-6
1	TTC39A	ENSG00000085831	ENST00000524442	processed_transcript	KNOWN	None	18657	None	None	51767065	51768830	-1	C1orf34	KIAA0452, DEME-6
1	TTC39A	ENSG00000085831	ENST00000411642	protein_coding	PUTATIVE	None	18657	839	278	51767377	51796619	-1	C1orf34	KIAA0452, DEME-6
1	TTC39A	ENSG00000085831	ENST00000439482	protein_coding	PUTATIVE	None	18657	891	296	51768029	51796236	-1	C1orf34	KIAA0452, DEME-6
1	TTC39A	ENSG00000085831	ENST00000422925	protein_coding	PUTATIVE	None	18657	682	226	51768756	51791648	-1	C1orf34	KIAA0452, DEME-6
1	TTC39A	ENSG00000085831	ENST00000380849	protein_coding	PUTATIVE	None	18657	565	187	51771696	51795874	-1	C1orf34	KIAA0452, DEME-6
1	TTC39A	ENSG00000085831	ENST00000401051	protein_coding	NOVEL	None	18657	474	157	51775064	51810788	-1	C1orf34	KIAA0452, DEME-6
1	TTC39A	ENSG00000085831	ENST00000532836	protein_coding	PUTATIVE	None	18657	374	123	51775071	51791625	-1	C1orf34	KIAA0452, DEME-6
1	TTC39A	ENSG00000085831	ENST00000527205	protein_coding	NOVEL	None	18657	504	167	51776929	51810788	-1	C1orf34	KIAA0452, DEME-6
1	TTC39A	ENSG00000085831	ENST00000451380	protein_coding	KNOWN	None	18657	1734	577	51753484	51796232	-1	C1orf34	KIAA0452, DEME-6
8	HMBOX1	ENSG00000147421	ENST00000287701	protein_coding	KNOWN	CCDS6071	26137	1263	420	28747911	28910251	1	None	HNF1LA, PBHNF, FLJ21616, HOT1
8	HMBOX1	ENSG00000147421	ENST00000519662	protein_coding	KNOWN	None	26137	354	117	28747912	28827890	1	None	HNF1LA, PBHNF, FLJ21616, HOT1
8	HMBOX1	ENSG00000147421	ENST00000558662	protein_coding	PUTATIVE	None	26137	1218	405	28747912	28907108	1	None	HNF1LA, PBHNF, FLJ21616, HOT1
8	HMBOX1	ENSG00000147421	ENST00000523613	protein_coding	PUTATIVE	None	26137	1191	396	28747921	28906838	1	None	HNF1LA, PBHNF, FLJ21616, HOT1
8	HMBOX1	ENSG00000147421	ENST00000560599	protein_coding	NOVEL	None	26137	1094	363	28747921	28906871	1	None	HNF1LA, PBHNF, FLJ21616, HOT1
8	HMBOX1	ENSG00000147421	ENST00000397358	protein_coding	KNOWN	CCDS6071	26137	1263	420	28747921	28910787	1	None	HNF1LA, PBHNF, FLJ21616, HOT1
8	HMBOX1	ENSG00000147421	ENST00000560357	retained_intron	KNOWN	None	26137	None	None	28747927	28828189	1	None	HNF1LA, PBHNF, FLJ21616, HOT1
8	HMBOX1	ENSG00000147421	ENST00000519047	protein_coding	PUTATIVE	None	26137	1161	386	28748142	28909387	1	None	HNF1LA, PBHNF, FLJ21616, HOT1
8	HMBOX1	ENSG00000147421	ENST00000521516	nonsense_mediated_decay	KNOWN	None	26137	915	304	28748142	28909434	1	None	HNF1LA, PBHNF, FLJ21616, HOT1
8	HMBOX1	ENSG00000147421	ENST00000560269	processed_transcript	KNOWN	None	26137	None	None	28748441	28827952	1	None	HNF1LA, PBHNF, FLJ21616, HOT1
8	HMBOX1	ENSG00000147421	ENST00000355231	protein_coding	PUTATIVE	None	26137	1161	386	28748833	28909415	1	None	HNF1LA, PBHNF, FLJ21616, HOT1
8	HMBOX1	ENSG00000147421	ENST00000524238	protein_coding	KNOWN	None	26137	1332	443	28821380	28909066	1	None	HNF1LA, PBHNF, FLJ21616, HOT1
8	HMBOX1	ENSG00000147421	ENST00000518080	nonsense_mediated_decay	KNOWN	None	26137	319	105	28827953	28876416	1	None	HNF1LA, PBHNF, FLJ21616, HOT1
8	HMBOX1	ENSG00000147421	ENST00000517386	processed_transcript	KNOWN	None	26137	None	None	28903817	28908171	1	None	HNF1LA, PBHNF, FLJ21616, HOT1
8	HMBOX1	ENSG00000147421	ENST00000522468	nonsense_mediated_decay	KNOWN	None	26137	138	45	28908535	28922281	1	None	HNF1LA, PBHNF, FLJ21616, HOT1
8	HMBOX1	ENSG00000147421	ENST00000561377	processed_transcript	KNOWN	None	26137	None	None	28910034	28911276	1	None	HNF1LA, PBHNF, FLJ21616, HOT1
8	HMBOX1	ENSG00000147421	ENST00000444075	protein_coding	KNOWN	None	26137	1332	443	28747911	28910242	1	None	HNF1LA, PBHNF, FLJ21616, HOT1
8	HMBOX1	ENSG00000147421	ENST00000403668	protein_coding	KNOWN	None	26137	915	304	28747911	28900219	1	None	HNF1LA, PBHNF, FLJ21616, HOT1
1	DNAH14	ENSG00000185842	ENST00000445597	protein_coding	PUTATIVE	None	2945	10524	3507	225083964	225586971	1	C1orf67	Dnahc14, HL-18, HL18, DKFZp781B1548, MGC27277
1	DNAH14	ENSG00000185842	ENST00000413949	protein_coding	NOVEL	None	2945	196	64	225117356	225142779	1	C1orf67	Dnahc14, HL-18, HL18, DKFZp781B1548, MGC27277
1	DNAH14	ENSG00000185842	ENST00000400952	protein_coding	KNOWN	CCDS44322	2945	1362	453	225117369	225211991	1	C1orf67	Dnahc14, HL-18, HL18, DKFZp781B1548, MGC27277
1	DNAH14	ENSG00000185842	ENST00000366849	protein_coding	NOVEL	None	2945	1293	430	225117384	225212306	1	C1orf67	Dnahc14, HL-18, HL18, DKFZp781B1548, MGC27277
1	DNAH14	ENSG00000185842	ENST00000498360	processed_transcript	KNOWN	None	2945	None	None	225117417	225149031	1	C1orf67	Dnahc14, HL-18, HL18, DKFZp781B1548, MGC27277
1	DNAH14	ENSG00000185842	ENST00000366848	protein_coding	KNOWN	CCDS41472	2945	687	228	225140372	225155626	1	C1orf67	Dnahc14, HL-18, HL18, DKFZp781B1548, MGC27277
1	DNAH14	ENSG00000185842	ENST00000486657	retained_intron	KNOWN	None	2945	None	None	225140398	225155327	1	C1orf67	Dnahc14, HL-18, HL18, DKFZp781B1548, MGC27277
1	DNAH14	ENSG00000185842	ENST00000439375	protein_coding	PUTATIVE	None	2945	13548	4515	225140405	225586971	1	C1orf67	Dnahc14, HL-18, HL18, DKFZp781B1548, MGC27277
1	DNAH14	ENSG00000185842	ENST00000433124	protein_coding	NOVEL	None	2945	380	125	225142741	225155626	1	C1orf67	Dnahc14, HL-18, HL18, DKFZp781B1548, MGC27277
1	DNAH14	ENSG00000185842	ENST00000453375	processed_transcript	KNOWN	None	2945	None	None	225155142	225157531	1	C1orf67	Dnahc14, HL-18, HL18, DKFZp781B1548, MGC27277
1	DNAH14	ENSG00000185842	ENST00000474127	retained_intron	KNOWN	None	2945	None	None	225155248	225157195	1	C1orf67	Dnahc14, HL-18, HL18, DKFZp781B1548, MGC27277
1	DNAH14	ENSG00000185842	ENST00000328556	protein_coding	PUTATIVE	None	2945	3024	1007	225268081	225380535	1	C1orf67	Dnahc14, HL-18, HL18, DKFZp781B1548, MGC27277
1	DNAH14	ENSG00000185842	ENST00000474801	protein_coding	PUTATIVE	None	2945	393	130	225305386	225305905	1	C1orf67	Dnahc14, HL-18, HL18, DKFZp781B1548, MGC27277
1	DNAH14	ENSG00000185842	ENST00000495456	nonsense_mediated_decay	KNOWN	None	2945	207	68	225305673	225333081	1	C1orf67	Dnahc14, HL-18, HL18, DKFZp781B1548, MGC27277
1	DNAH14	ENSG00000185842	ENST00000327794	nonsense_mediated_decay	KNOWN	None	2945	4444	1480	225428496	225585766	1	C1orf67	Dnahc14, HL-18, HL18, DKFZp781B1548, MGC27277
1	DNAH14	ENSG00000185842	ENST00000450490	protein_coding	PUTATIVE	None	2945	898	298	225438365	225458498	1	C1orf67	Dnahc14, HL-18, HL18, DKFZp781B1548, MGC27277
1	DNAH14	ENSG00000185842	ENST00000428003	protein_coding	PUTATIVE	None	2945	658	218	225577442	225586994	1	C1orf67	Dnahc14, HL-18, HL18, DKFZp781B1548, MGC27277
1	DNAH14	ENSG00000185842	ENST00000430092	protein_coding	KNOWN	None	2945	13548	4515	225117356	225586996	1	C1orf67	Dnahc14, HL-18, HL18, DKFZp781B1548, MGC27277
1	DNAH14	ENSG00000185842	ENST00000366850	protein_coding	KNOWN	CCDS41472	2945	687	228	225117363	225155625	1	C1orf67	Dnahc14, HL-18, HL18, DKFZp781B1548, MGC27277
8	LY6E	ENSG00000160932	ENST00000517503	protein_coding	PUTATIVE	None	6727	444	147	144099399	144103827	1	None	TSA-1, RIG-E, SCA-2
8	LY6E	ENSG00000160932	ENST00000292494	protein_coding	KNOWN	CCDS6394	6727	396	131	144099899	144103829	1	None	TSA-1, RIG-E, SCA-2
8	LY6E	ENSG00000160932	ENST00000429120	protein_coding	KNOWN	CCDS6394	6727	396	131	144099900	144103827	1	None	TSA-1, RIG-E, SCA-2
8	LY6E	ENSG00000160932	ENST00000521699	protein_coding	KNOWN	CCDS6394	6727	396	131	144099934	144103828	1	None	TSA-1, RIG-E, SCA-2
8	LY6E	ENSG00000160932	ENST00000520531	protein_coding	PUTATIVE	None	6727	222	73	144099945	144103057	1	None	TSA-1, RIG-E, SCA-2
8	LY6E	ENSG00000160932	ENST00000520466	protein_coding	KNOWN	CCDS6394	6727	396	131	144099945	144103826	1	None	TSA-1, RIG-E, SCA-2
8	LY6E	ENSG00000160932	ENST00000521003	protein_coding	KNOWN	CCDS6394	6727	396	131	144099946	144103319	1	None	TSA-1, RIG-E, SCA-2
8	LY6E	ENSG00000160932	ENST00000522528	protein_coding	PUTATIVE	None	6727	126	41	144099946	144103341	1	None	TSA-1, RIG-E, SCA-2
8	LY6E	ENSG00000160932	ENST00000522971	protein_coding	KNOWN	CCDS6394	6727	396	131	144099959	144103599	1	None	TSA-1, RIG-E, SCA-2
8	LY6E	ENSG00000160932	ENST00000519611	protein_coding	PUTATIVE	None	6727	201	66	144099961	144103217	1	None	TSA-1, RIG-E, SCA-2
8	LY6E	ENSG00000160932	ENST00000521182	protein_coding	PUTATIVE	None	6727	126	41	144099963	144103826	1	None	TSA-1, RIG-E, SCA-2
8	LY6E	ENSG00000160932	ENST00000519546	protein_coding	PUTATIVE	None	6727	201	66	144099969	144103672	1	None	TSA-1, RIG-E, SCA-2
8	LY6E	ENSG00000160932	ENST00000523847	protein_coding	PUTATIVE	None	6727	201	66	144099970	144105249	1	None	TSA-1, RIG-E, SCA-2
8	LY6E	ENSG00000160932	ENST00000522024	protein_coding	KNOWN	CCDS6394	6727	396	131	144099974	144103309	1	None	TSA-1, RIG-E, SCA-2
8	LY6E	ENSG00000160932	ENST00000519615	processed_transcript	PUTATIVE	None	6727	None	None	144103966	144105247	1	None	TSA-1, RIG-E, SCA-2
2	OSGEPL1	ENSG00000128694	ENST00000264151	protein_coding	KNOWN	CCDS46472	23075	1245	414	190611386	190627493	-1	None	Qri7
2	OSGEPL1	ENSG00000128694	ENST00000519810	protein_coding	PUTATIVE	None	23075	1095	364	190611386	190627953	-1	None	Qri7
2	OSGEPL1	ENSG00000128694	ENST00000524043	retained_intron	KNOWN	None	23075	None	None	190615260	190626389	-1	None	Qri7
2	OSGEPL1	ENSG00000128694	ENST00000522700	protein_coding	KNOWN	CCDS46472	23075	1245	414	190615304	190627924	-1	None	Qri7
2	OSGEPL1	ENSG00000128694	ENST00000520350	protein_coding	PUTATIVE	None	23075	522	173	190618642	190627493	-1	None	Qri7
2	OSGEPL1	ENSG00000128694	ENST00000517895	protein_coding	KNOWN	None	23075	668	221	190619013	190627518	-1	None	Qri7
2	OSGEPL1	ENSG00000128694	ENST00000518114	retained_intron	KNOWN	None	23075	None	None	190619041	190627519	-1	None	Qri7
2	OSGEPL1	ENSG00000128694	ENST00000521630	protein_coding	KNOWN	None	23075	609	202	190619899	190627502	-1	None	Qri7
X	IGSF1	ENSG00000147255	ENST00000370910	protein_coding	KNOWN	CCDS55490	5948	3984	1327	130407480	130423252	-1	None	KIAA0364, IGDC1, IGCD1, INHBP, MGC75490, PGSF2
X	IGSF1	ENSG00000147255	ENST00000361420	protein_coding	KNOWN	CCDS14629	5948	4011	1336	130407483	130423200	-1	None	KIAA0364, IGDC1, IGCD1, INHBP, MGC75490, PGSF2
X	IGSF1	ENSG00000147255	ENST00000370904	protein_coding	KNOWN	CCDS55490	5948	3984	1327	130407485	130533677	-1	None	KIAA0364, IGDC1, IGCD1, INHBP, MGC75490, PGSF2
X	IGSF1	ENSG00000147255	ENST00000467244	processed_transcript	KNOWN	None	5948	None	None	130409953	130411491	-1	None	KIAA0364, IGDC1, IGCD1, INHBP, MGC75490, PGSF2
X	IGSF1	ENSG00000147255	ENST00000469836	processed_transcript	KNOWN	None	5948	None	None	130414943	130415320	-1	None	KIAA0364, IGDC1, IGCD1, INHBP, MGC75490, PGSF2
X	IGSF1	ENSG00000147255	ENST00000370900	protein_coding	KNOWN	CCDS14630	5948	729	242	130418140	130423034	-1	None	KIAA0364, IGDC1, IGCD1, INHBP, MGC75490, PGSF2
X	IGSF1	ENSG00000147255	ENST00000370901	protein_coding	KNOWN	CCDS14630	5948	729	242	130418140	130423260	-1	None	KIAA0364, IGDC1, IGCD1, INHBP, MGC75490, PGSF2
X	IGSF1	ENSG00000147255	ENST00000370903	protein_coding	KNOWN	CCDS55491	5948	4026	1341	130407485	130423403	-1	None	KIAA0364, IGDC1, IGCD1, INHBP, MGC75490, PGSF2
16	UQCRC2	ENSG00000140740	ENST00000268379	protein_coding	KNOWN	CCDS10601	12586	1362	453	21963981	21994981	1	None	QCR2, UQCR2
16	UQCRC2	ENSG00000140740	ENST00000565464	nonsense_mediated_decay	KNOWN	None	12586	399	132	21964619	21974140	1	None	QCR2, UQCR2
16	UQCRC2	ENSG00000140740	ENST00000567757	retained_intron	KNOWN	None	12586	None	None	21964692	21974533	1	None	QCR2, UQCR2
16	UQCRC2	ENSG00000140740	ENST00000561553	protein_coding	PUTATIVE	None	12586	1239	412	21964692	21994646	1	None	QCR2, UQCR2
16	UQCRC2	ENSG00000140740	ENST00000565331	protein_coding	NOVEL	None	12586	528	175	21964708	21976826	1	None	QCR2, UQCR2
16	UQCRC2	ENSG00000140740	ENST00000563898	nonsense_mediated_decay	KNOWN	None	12586	1011	336	21964708	21994657	1	None	QCR2, UQCR2
16	UQCRC2	ENSG00000140740	ENST00000564095	nonsense_mediated_decay	KNOWN	None	12586	351	116	21964724	21973831	1	None	QCR2, UQCR2
16	UQCRC2	ENSG00000140740	ENST00000567597	retained_intron	KNOWN	None	12586	None	None	21972783	21976854	1	None	QCR2, UQCR2
16	UQCRC2	ENSG00000140740	ENST00000563711	retained_intron	KNOWN	None	12586	None	None	21973513	21988268	1	None	QCR2, UQCR2
16	UQCRC2	ENSG00000140740	ENST00000567810	retained_intron	KNOWN	None	12586	None	None	21979783	21985278	1	None	QCR2, UQCR2
16	UQCRC2	ENSG00000140740	ENST00000561798	retained_intron	KNOWN	None	12586	None	None	21991583	21994668	1	None	QCR2, UQCR2
12	RHOF	ENSG00000139725	ENST00000267205	protein_coding	KNOWN	CCDS9222	15703	636	211	122215664	122232168	-1	ARHF	FLJ20247, RIF
12	RHOF	ENSG00000139725	ENST00000537265	retained_intron	KNOWN	None	15703	None	None	122217324	122231266	-1	ARHF	FLJ20247, RIF
12	RHOF	ENSG00000139725	ENST00000537171	retained_intron	KNOWN	None	15703	None	None	122218393	122232168	-1	ARHF	FLJ20247, RIF
12	RHOF	ENSG00000139725	ENST00000535560	protein_coding	KNOWN	None	15703	339	112	122218986	122232261	-1	ARHF	FLJ20247, RIF
5	None	ENSG00000268280	ENST00000595799	protein_coding	NOVEL	None	None	72	23	55224468	55224569	-1	None	None
2	ORMDL1	ENSG00000128699	ENST00000392350	protein_coding	KNOWN	CCDS2301	16036	462	153	190635049	190649090	-1	None	None
2	ORMDL1	ENSG00000128699	ENST00000325795	protein_coding	KNOWN	CCDS2301	16036	462	153	190635050	190648108	-1	None	None
2	ORMDL1	ENSG00000128699	ENST00000496543	processed_transcript	PUTATIVE	None	16036	None	None	190636037	190638743	-1	None	None
2	ORMDL1	ENSG00000128699	ENST00000392349	protein_coding	KNOWN	CCDS2301	16036	462	153	190636038	190649097	-1	None	None
2	ORMDL1	ENSG00000128699	ENST00000409519	protein_coding	PUTATIVE	None	16036	330	109	190639451	190649044	-1	None	None
2	ORMDL1	ENSG00000128699	ENST00000442547	protein_coding	KNOWN	None	16036	326	107	190640291	190648299	-1	None	None
2	ORMDL1	ENSG00000128699	ENST00000458355	protein_coding	KNOWN	None	16036	326	107	190640291	190649054	-1	None	None
6	LACE1	ENSG00000135537	ENST00000368977	protein_coding	KNOWN	CCDS5067	16411	1446	481	108616098	108847204	1	None	AFG1
6	LACE1	ENSG00000135537	ENST00000430458	processed_transcript	KNOWN	None	16411	None	None	108616195	108668194	1	None	AFG1
6	LACE1	ENSG00000135537	ENST00000421954	protein_coding	NOVEL	None	16411	1049	348	108616405	108844320	1	None	AFG1
6	LACE1	ENSG00000135537	ENST00000437715	protein_coding	PUTATIVE	None	16411	480	159	108616957	108677955	1	None	AFG1
6	LACE1	ENSG00000135537	ENST00000431865	nonsense_mediated_decay	KNOWN	None	16411	242	79	108677894	108843537	1	None	AFG1
6	LACE1	ENSG00000135537	ENST00000486863	retained_intron	KNOWN	None	16411	None	None	108798182	108843668	1	None	AFG1
6	LACE1	ENSG00000135537	ENST00000481842	processed_transcript	KNOWN	None	16411	None	None	108844340	108847999	1	None	AFG1
2	None	ENSG00000231145	ENST00000424876	protein_coding	NOVEL	None	None	48	15	190642909	190643157	-1	None	None
17	SHBG	ENSG00000129214	ENST00000572182	protein_coding	PUTATIVE	None	10839	249	82	7517382	7536672	1	None	ABP, TEBG, MGC126834, MGC138391
17	SHBG	ENSG00000129214	ENST00000574539	protein_coding	PUTATIVE	None	10839	708	235	7517382	7536672	1	None	ABP, TEBG, MGC126834, MGC138391
17	SHBG	ENSG00000129214	ENST00000576728	protein_coding	PUTATIVE	None	10839	546	181	7517382	7536672	1	None	ABP, TEBG, MGC126834, MGC138391
17	SHBG	ENSG00000129214	ENST00000575314	protein_coding	PUTATIVE	None	10839	1035	344	7517382	7536672	1	None	ABP, TEBG, MGC126834, MGC138391
17	SHBG	ENSG00000129214	ENST00000570547	protein_coding	PUTATIVE	None	10839	690	229	7517382	7536672	1	None	ABP, TEBG, MGC126834, MGC138391
17	SHBG	ENSG00000129214	ENST00000572262	protein_coding	PUTATIVE	None	10839	873	290	7517382	7536672	1	None	ABP, TEBG, MGC126834, MGC138391
17	SHBG	ENSG00000129214	ENST00000576478	protein_coding	PUTATIVE	None	10839	528	175	7517382	7536672	1	None	ABP, TEBG, MGC126834, MGC138391
17	SHBG	ENSG00000129214	ENST00000575729	protein_coding	PUTATIVE	None	10839	280	92	7531287	7534578	1	None	ABP, TEBG, MGC126834, MGC138391
17	SHBG	ENSG00000129214	ENST00000380450	protein_coding	KNOWN	CCDS11117	10839	1209	402	7533460	7536695	1	None	ABP, TEBG, MGC126834, MGC138391
17	SHBG	ENSG00000129214	ENST00000570527	nonsense_mediated_decay	KNOWN	None	10839	174	57	7533470	7536690	1	None	ABP, TEBG, MGC126834, MGC138391
17	SHBG	ENSG00000129214	ENST00000570353	nonsense_mediated_decay	KNOWN	None	10839	546	181	7533470	7536690	1	None	ABP, TEBG, MGC126834, MGC138391
17	SHBG	ENSG00000129214	ENST00000416273	protein_coding	KNOWN	CCDS54082	10839	882	293	7533470	7536690	1	None	ABP, TEBG, MGC126834, MGC138391
17	SHBG	ENSG00000129214	ENST00000575903	protein_coding	KNOWN	CCDS58513	10839	1155	384	7533470	7536690	1	None	ABP, TEBG, MGC126834, MGC138391
17	SHBG	ENSG00000129214	ENST00000576830	protein_coding	KNOWN	None	10839	783	260	7533572	7536672	1	None	ABP, TEBG, MGC126834, MGC138391
17	SHBG	ENSG00000129214	ENST00000571153	protein_coding	NOVEL	None	10839	639	212	7533572	7536672	1	None	ABP, TEBG, MGC126834, MGC138391
17	SHBG	ENSG00000129214	ENST00000575618	protein_coding	NOVEL	None	10839	342	113	7533572	7536672	1	None	ABP, TEBG, MGC126834, MGC138391
17	SHBG	ENSG00000129214	ENST00000576152	protein_coding	NOVEL	None	10839	621	206	7533572	7536672	1	None	ABP, TEBG, MGC126834, MGC138391
17	SHBG	ENSG00000129214	ENST00000576747	retained_intron	KNOWN	None	10839	None	None	7534627	7535375	1	None	ABP, TEBG, MGC126834, MGC138391
17	SHBG	ENSG00000129214	ENST00000441599	protein_coding	KNOWN	CCDS54083	10839	864	287	7533453	7536700	1	None	ABP, TEBG, MGC126834, MGC138391
17	SHBG	ENSG00000129214	ENST00000340624	protein_coding	KNOWN	None	10839	708	235	7531287	7536635	1	None	ABP, TEBG, MGC126834, MGC138391
6	TMEM30A	ENSG00000112697	ENST00000230461	protein_coding	KNOWN	CCDS4983	16667	1086	361	75962640	75994684	-1	C6orf67	FLJ10856, CDC50A
6	TMEM30A	ENSG00000112697	ENST00000370050	protein_coding	KNOWN	None	16667	729	242	75963329	75982616	-1	C6orf67	FLJ10856, CDC50A
6	TMEM30A	ENSG00000112697	ENST00000475111	protein_coding	KNOWN	CCDS47453	16667	978	325	75964315	75994664	-1	C6orf67	FLJ10856, CDC50A
6	TMEM30A	ENSG00000112697	ENST00000518161	protein_coding	KNOWN	None	16667	233	76	75969158	75994027	-1	C6orf67	FLJ10856, CDC50A
3	FAM131A	ENSG00000175182	ENST00000450976	protein_coding	KNOWN	CCDS54689	28308	846	281	184053714	184062821	1	C3orf40	MGC21688
3	FAM131A	ENSG00000175182	ENST00000418281	protein_coding	PUTATIVE	None	28308	756	251	184053717	184064027	1	C3orf40	MGC21688
3	FAM131A	ENSG00000175182	ENST00000340957	protein_coding	KNOWN	CCDS54689	28308	846	281	184053725	184064061	1	C3orf40	MGC21688
3	FAM131A	ENSG00000175182	ENST00000433578	protein_coding	KNOWN	None	28308	370	122	184053733	184060648	1	C3orf40	MGC21688
3	FAM131A	ENSG00000175182	ENST00000418768	protein_coding	KNOWN	None	28308	695	230	184054965	184062607	1	C3orf40	MGC21688
3	FAM131A	ENSG00000175182	ENST00000383847	protein_coding	KNOWN	CCDS3262	28308	1101	366	184055240	184062961	1	C3orf40	MGC21688
3	FAM131A	ENSG00000175182	ENST00000497070	processed_transcript	KNOWN	None	28308	None	None	184055353	184059248	1	C3orf40	MGC21688
3	FAM131A	ENSG00000175182	ENST00000453072	protein_coding	KNOWN	CCDS54689	28308	846	281	184056617	184062774	1	C3orf40	MGC21688
3	FAM131A	ENSG00000175182	ENST00000310585	protein_coding	KNOWN	None	28308	1008	335	184058258	184064063	1	C3orf40	MGC21688
3	FAM131A	ENSG00000175182	ENST00000487702	processed_transcript	KNOWN	None	28308	None	None	184059910	184060927	1	C3orf40	MGC21688
1	CREB3L4	ENSG00000143578	ENST00000477617	processed_transcript	KNOWN	None	18854	None	None	153940010	153941444	1	None	AIbZIP, CREB4, CREB3, hJAL, ATCE1
1	CREB3L4	ENSG00000143578	ENST00000449724	protein_coding	KNOWN	None	18854	685	227	153940368	153945556	1	None	AIbZIP, CREB4, CREB3, hJAL, ATCE1
1	CREB3L4	ENSG00000143578	ENST00000368607	protein_coding	KNOWN	CCDS1056	18854	1188	395	153940379	153946839	1	None	AIbZIP, CREB4, CREB3, hJAL, ATCE1
1	CREB3L4	ENSG00000143578	ENST00000271889	protein_coding	KNOWN	CCDS1056	18854	1188	395	153940397	153946835	1	None	AIbZIP, CREB4, CREB3, hJAL, ATCE1
1	CREB3L4	ENSG00000143578	ENST00000461688	processed_transcript	KNOWN	None	18854	None	None	153940401	153945244	1	None	AIbZIP, CREB4, CREB3, hJAL, ATCE1
1	CREB3L4	ENSG00000143578	ENST00000368601	protein_coding	KNOWN	None	18854	654	217	153940713	153945548	1	None	AIbZIP, CREB4, CREB3, hJAL, ATCE1
1	CREB3L4	ENSG00000143578	ENST00000368603	protein_coding	KNOWN	CCDS1056	18854	1188	395	153940713	153946832	1	None	AIbZIP, CREB4, CREB3, hJAL, ATCE1
1	CREB3L4	ENSG00000143578	ENST00000368600	protein_coding	KNOWN	CCDS58029	18854	1128	375	153940719	153946837	1	None	AIbZIP, CREB4, CREB3, hJAL, ATCE1
1	CREB3L4	ENSG00000143578	ENST00000479010	processed_transcript	KNOWN	None	18854	None	None	153940735	153941787	1	None	AIbZIP, CREB4, CREB3, hJAL, ATCE1
1	CREB3L4	ENSG00000143578	ENST00000492729	processed_transcript	KNOWN	None	18854	None	None	153940737	153945495	1	None	AIbZIP, CREB4, CREB3, hJAL, ATCE1
1	CREB3L4	ENSG00000143578	ENST00000473340	processed_transcript	KNOWN	None	18854	None	None	153940740	153941830	1	None	AIbZIP, CREB4, CREB3, hJAL, ATCE1
1	CREB3L4	ENSG00000143578	ENST00000431292	protein_coding	KNOWN	None	18854	546	181	153940786	153941934	1	None	AIbZIP, CREB4, CREB3, hJAL, ATCE1
1	CREB3L4	ENSG00000143578	ENST00000468845	processed_transcript	KNOWN	None	18854	None	None	153941872	153946607	1	None	AIbZIP, CREB4, CREB3, hJAL, ATCE1
1	CREB3L4	ENSG00000143578	ENST00000405694	protein_coding	KNOWN	None	18854	747	248	153940346	153946832	1	None	AIbZIP, CREB4, CREB3, hJAL, ATCE1
11	FOLR2	ENSG00000165457	ENST00000449475	protein_coding	PUTATIVE	None	3793	756	251	71927645	71932994	1	None	None
11	FOLR2	ENSG00000165457	ENST00000298223	protein_coding	KNOWN	CCDS8212	3793	768	255	71927807	71932989	1	None	None
11	FOLR2	ENSG00000165457	ENST00000454954	protein_coding	PUTATIVE	None	3793	645	214	71927825	71932994	1	None	None
11	FOLR2	ENSG00000165457	ENST00000541003	protein_coding	PUTATIVE	None	3793	446	147	71927838	71932071	1	None	None
11	FOLR2	ENSG00000165457	ENST00000539412	protein_coding	PUTATIVE	None	3793	542	179	71927838	71932547	1	None	None
11	FOLR2	ENSG00000165457	ENST00000536778	protein_coding	PUTATIVE	None	3793	594	197	71927840	71932587	1	None	None
11	FOLR2	ENSG00000165457	ENST00000535625	protein_coding	KNOWN	None	3793	515	170	71927870	71932553	1	None	None
11	FOLR2	ENSG00000165457	ENST00000321324	protein_coding	PUTATIVE	None	3793	631	209	71927875	71932630	1	None	None
11	FOLR2	ENSG00000165457	ENST00000538353	protein_coding	PUTATIVE	None	3793	509	168	71929582	71932610	1	None	None
11	TRIM48	ENSG00000150244	ENST00000417545	protein_coding	KNOWN	CCDS7947	19021	675	224	55029658	55038595	1	None	RNF101
1	LBR	ENSG00000143815	ENST00000272163	protein_coding	KNOWN	CCDS1545	6518	1848	615	225589204	225615737	-1	None	DHCR14B, TDRD18
1	LBR	ENSG00000143815	ENST00000441022	protein_coding	KNOWN	None	6518	323	106	225590792	225592267	-1	None	DHCR14B, TDRD18
1	LBR	ENSG00000143815	ENST00000424022	protein_coding	KNOWN	None	6518	387	128	225594264	225599119	-1	None	DHCR14B, TDRD18
1	LBR	ENSG00000143815	ENST00000487054	processed_transcript	KNOWN	None	6518	None	None	225605252	225607064	-1	None	DHCR14B, TDRD18
1	LBR	ENSG00000143815	ENST00000425080	protein_coding	KNOWN	None	6518	640	212	225606965	225616627	-1	None	DHCR14B, TDRD18
1	LBR	ENSG00000143815	ENST00000488632	processed_transcript	KNOWN	None	6518	None	None	225607427	225610129	-1	None	DHCR14B, TDRD18
1	LBR	ENSG00000143815	ENST00000421383	protein_coding	KNOWN	None	6518	155	50	225611623	225615599	-1	None	DHCR14B, TDRD18
1	LBR	ENSG00000143815	ENST00000338179	protein_coding	KNOWN	CCDS1545	6518	1848	615	225589205	225616519	-1	None	DHCR14B, TDRD18
7	None	ENSG00000232325	ENST00000465755	lincRNA	KNOWN	None	None	None	None	70972	71835	-1	None	None
7	None	ENSG00000242611	ENST00000478759	lincRNA	KNOWN	None	None	None	None	77038	80418	1	None	None
X	MED12	ENSG00000184634	ENST00000374102	protein_coding	KNOWN	None	11957	6531	2176	70338545	70362300	1	TNRC11, FGS1	CAGH45, HOPA, OPA1, TRAP230, KIAA0192, OKS
X	MED12	ENSG00000184634	ENST00000374080	protein_coding	KNOWN	CCDS43970	11957	6534	2177	70338573	70362297	1	TNRC11, FGS1	CAGH45, HOPA, OPA1, TRAP230, KIAA0192, OKS
X	MED12	ENSG00000184634	ENST00000429213	protein_coding	KNOWN	None	11957	389	128	70338685	70339902	1	TNRC11, FGS1	CAGH45, HOPA, OPA1, TRAP230, KIAA0192, OKS
X	MED12	ENSG00000184634	ENST00000430072	protein_coding	KNOWN	None	11957	6384	2127	70338701	70362106	1	TNRC11, FGS1	CAGH45, HOPA, OPA1, TRAP230, KIAA0192, OKS
X	MED12	ENSG00000184634	ENST00000471663	processed_transcript	KNOWN	None	11957	None	None	70346111	70347236	1	TNRC11, FGS1	CAGH45, HOPA, OPA1, TRAP230, KIAA0192, OKS
X	MED12	ENSG00000184634	ENST00000462984	processed_transcript	KNOWN	None	11957	None	None	70346224	70347541	1	TNRC11, FGS1	CAGH45, HOPA, OPA1, TRAP230, KIAA0192, OKS
X	MED12	ENSG00000184634	ENST00000489199	processed_transcript	KNOWN	None	11957	None	None	70348165	70348670	1	TNRC11, FGS1	CAGH45, HOPA, OPA1, TRAP230, KIAA0192, OKS
X	MED12	ENSG00000184634	ENST00000460771	processed_transcript	KNOWN	None	11957	None	None	70349033	70349712	1	TNRC11, FGS1	CAGH45, HOPA, OPA1, TRAP230, KIAA0192, OKS
X	MED12	ENSG00000184634	ENST00000439750	protein_coding	KNOWN	None	11957	2778	925	70349604	70362300	1	TNRC11, FGS1	CAGH45, HOPA, OPA1, TRAP230, KIAA0192, OKS
X	MED12	ENSG00000184634	ENST00000478889	processed_transcript	KNOWN	None	11957	None	None	70349690	70360668	1	TNRC11, FGS1	CAGH45, HOPA, OPA1, TRAP230, KIAA0192, OKS
X	MED12	ENSG00000184634	ENST00000444034	protein_coding	KNOWN	None	11957	752	249	70356444	70360605	1	TNRC11, FGS1	CAGH45, HOPA, OPA1, TRAP230, KIAA0192, OKS
X	MED12	ENSG00000184634	ENST00000333646	protein_coding	KNOWN	None	11957	6543	2180	70338406	70362303	1	TNRC11, FGS1	CAGH45, HOPA, OPA1, TRAP230, KIAA0192, OKS
7	None	ENSG00000242474	ENST00000462565	lincRNA	KNOWN	None	None	None	None	135853	149362	-1	None	None
7	None	ENSG00000242474	ENST00000480919	lincRNA	KNOWN	None	None	None	None	144444	145430	-1	None	None
7	None	ENSG00000242474	ENST00000497320	lincRNA	KNOWN	None	None	None	None	148328	149466	-1	None	None
7	None	ENSG00000242474	ENST00000487884	lincRNA	KNOWN	None	None	None	None	148329	149438	-1	None	None
1	EPS15	ENSG00000085832	ENST00000371730	protein_coding	NOVEL	None	3419	2289	762	51819935	51984913	-1	None	AF-1P, MLLT5
1	EPS15	ENSG00000085832	ENST00000371733	protein_coding	KNOWN	CCDS557	3419	2691	896	51819935	51985000	-1	None	AF-1P, MLLT5
1	EPS15	ENSG00000085832	ENST00000486505	retained_intron	KNOWN	None	3419	None	None	51859884	51869123	-1	None	AF-1P, MLLT5
1	EPS15	ENSG00000085832	ENST00000478657	retained_intron	KNOWN	None	3419	None	None	51860091	51866871	-1	None	AF-1P, MLLT5
1	EPS15	ENSG00000085832	ENST00000493793	processed_transcript	KNOWN	None	3419	None	None	51869101	51887776	-1	None	AF-1P, MLLT5
1	EPS15	ENSG00000085832	ENST00000371727	retained_intron	KNOWN	None	3419	None	None	51923208	51984917	-1	None	AF-1P, MLLT5
1	EPS15	ENSG00000085832	ENST00000464478	processed_transcript	KNOWN	None	3419	None	None	51924068	51930998	-1	None	AF-1P, MLLT5
1	EPS15	ENSG00000085832	ENST00000471391	retained_intron	KNOWN	None	3419	None	None	51926616	51984926	-1	None	AF-1P, MLLT5
1	EPS15	ENSG00000085832	ENST00000465467	nonsense_mediated_decay	KNOWN	None	3419	272	89	51926795	51984899	-1	None	AF-1P, MLLT5
1	EPS15	ENSG00000085832	ENST00000396122	protein_coding	KNOWN	None	3419	1722	573	51821981	51888990	-1	None	AF-1P, MLLT5
7	None	ENSG00000240859	ENST00000484550	lincRNA	KNOWN	None	None	None	None	149597	155465	1	None	None
7	None	ENSG00000240859	ENST00000479592	lincRNA	KNOWN	None	None	None	None	149731	153490	1	None	None
7	None	ENSG00000240859	ENST00000471299	lincRNA	KNOWN	None	None	None	None	149778	153938	1	None	None
7	None	ENSG00000240859	ENST00000492208	lincRNA	KNOWN	None	None	None	None	152679	153823	1	None	None
1	None	ENSG00000203691	ENST00000366845	protein_coding	NOVEL	None	None	348	115	225600404	225602040	1	None	None
16	MSLN	ENSG00000102854	ENST00000563941	protein_coding	KNOWN	CCDS45370	7371	1869	622	810762	818862	1	None	CAK1, MPF
16	MSLN	ENSG00000102854	ENST00000545450	protein_coding	KNOWN	CCDS45370	7371	1869	622	810765	818858	1	None	CAK1, MPF
16	MSLN	ENSG00000102854	ENST00000566549	protein_coding	KNOWN	CCDS45370	7371	1869	622	810767	818865	1	None	CAK1, MPF
16	MSLN	ENSG00000102854	ENST00000382862	protein_coding	KNOWN	CCDS32356	7371	1893	630	811089	818861	1	None	CAK1, MPF
16	MSLN	ENSG00000102854	ENST00000563651	protein_coding	NOVEL	None	7371	998	331	811098	816429	1	None	CAK1, MPF
16	MSLN	ENSG00000102854	ENST00000569566	protein_coding	KNOWN	None	7371	513	170	812524	815112	1	None	CAK1, MPF
16	MSLN	ENSG00000102854	ENST00000566269	protein_coding	NOVEL	None	7371	1003	333	815732	818798	1	None	CAK1, MPF
16	MSLN	ENSG00000102854	ENST00000561896	protein_coding	PUTATIVE	None	7371	1195	397	815784	818865	1	None	CAK1, MPF
1	JTB	ENSG00000143543	ENST00000271843	protein_coding	KNOWN	CCDS1057	6201	441	146	153946745	153950164	-1	None	hJT
1	JTB	ENSG00000143543	ENST00000356648	protein_coding	KNOWN	None	6201	354	117	153946988	153950114	-1	None	hJT
1	JTB	ENSG00000143543	ENST00000368589	protein_coding	KNOWN	None	6201	354	117	153946988	153950136	-1	None	hJT
1	JTB	ENSG00000143543	ENST00000428469	protein_coding	KNOWN	None	6201	351	116	153947158	153949870	-1	None	hJT
1	JTB	ENSG00000143543	ENST00000461365	processed_transcript	KNOWN	None	6201	None	None	153948293	153950131	-1	None	hJT
1	JTB	ENSG00000143543	ENST00000471173	processed_transcript	KNOWN	None	6201	None	None	153948315	153950102	-1	None	hJT
6	CNKSR3	ENSG00000153721	ENST00000607772	protein_coding	KNOWN	CCDS5246	23034	1668	555	154708638	154831793	-1	MAGI1	FLJ31349
6	CNKSR3	ENSG00000153721	ENST00000433165	protein_coding	PUTATIVE	None	23034	1143	380	154726597	154755207	-1	MAGI1	FLJ31349
6	CNKSR3	ENSG00000153721	ENST00000479339	protein_coding	PUTATIVE	None	23034	1428	475	154727244	154799625	-1	MAGI1	FLJ31349
6	CNKSR3	ENSG00000153721	ENST00000424998	protein_coding	NOVEL	None	23034	536	177	154732097	154751629	-1	MAGI1	FLJ31349
6	CNKSR3	ENSG00000153721	ENST00000454664	protein_coding	PUTATIVE	None	23034	463	153	154735857	154755207	-1	MAGI1	FLJ31349
20	None	ENSG00000228604	ENST00000434043	antisense	KNOWN	None	None	None	None	21129382	21139382	-1	None	None
20	None	ENSG00000228604	ENST00000425746	antisense	KNOWN	None	None	None	None	21132309	21143531	-1	None	None
16	CLEC18C	ENSG00000157335	ENST00000562923	protein_coding	NOVEL	None	28538	403	133	70207225	70216359	1	None	MGC34761
16	CLEC18C	ENSG00000157335	ENST00000541793	protein_coding	KNOWN	CCDS32473	28538	1341	446	70207722	70220798	1	None	MGC34761
16	CLEC18C	ENSG00000157335	ENST00000314151	protein_coding	KNOWN	CCDS32473	28538	1341	446	70207801	70220798	1	None	MGC34761
16	CLEC18C	ENSG00000157335	ENST00000565806	protein_coding	KNOWN	None	28538	358	118	70207822	70211285	1	None	MGC34761
16	CLEC18C	ENSG00000157335	ENST00000569347	protein_coding	KNOWN	CCDS32473	28538	1341	446	70207928	70220798	1	None	MGC34761
16	CLEC18C	ENSG00000157335	ENST00000564976	retained_intron	KNOWN	None	28538	None	None	70207928	70220798	1	None	MGC34761
16	CLEC18C	ENSG00000157335	ENST00000569201	retained_intron	KNOWN	None	28538	None	None	70207989	70221264	1	None	MGC34761
16	CLEC18C	ENSG00000157335	ENST00000569268	retained_intron	KNOWN	None	28538	None	None	70208003	70217544	1	None	MGC34761
16	CLEC18C	ENSG00000157335	ENST00000536907	protein_coding	NOVEL	None	28538	1368	455	70208060	70220798	1	None	MGC34761
16	CLEC18C	ENSG00000157335	ENST00000561612	processed_transcript	KNOWN	None	28538	None	None	70208288	70216360	1	None	MGC34761
10	ITIH5	ENSG00000123243	ENST00000256861	protein_coding	KNOWN	None	21449	2871	956	7601232	7708934	-1	None	MGC10848
10	ITIH5	ENSG00000123243	ENST00000298441	protein_coding	KNOWN	None	21449	2229	742	7604386	7661623	-1	None	MGC10848
10	ITIH5	ENSG00000123243	ENST00000473591	processed_transcript	PUTATIVE	None	21449	None	None	7608000	7612363	-1	None	MGC10848
10	ITIH5	ENSG00000123243	ENST00000492668	processed_transcript	PUTATIVE	None	21449	None	None	7611125	7618560	-1	None	MGC10848
10	ITIH5	ENSG00000123243	ENST00000434980	processed_transcript	KNOWN	None	21449	None	None	7613368	7682742	-1	None	MGC10848
10	ITIH5	ENSG00000123243	ENST00000468389	retained_intron	KNOWN	None	21449	None	None	7614735	7620667	-1	None	MGC10848
10	ITIH5	ENSG00000123243	ENST00000476417	retained_intron	KNOWN	None	21449	None	None	7614735	7664440	-1	None	MGC10848
10	ITIH5	ENSG00000123243	ENST00000461751	nonsense_mediated_decay	KNOWN	None	21449	358	118	7618855	7659229	-1	None	MGC10848
10	ITIH5	ENSG00000123243	ENST00000397146	protein_coding	KNOWN	None	21449	2088	695	7601756	7708961	-1	None	MGC10848
10	ITIH5	ENSG00000123243	ENST00000446830	protein_coding	KNOWN	None	21449	2172	723	7605045	7708961	-1	None	MGC10848
10	ITIH5	ENSG00000123243	ENST00000397145	protein_coding	KNOWN	None	21449	2109	702	7613368	7708961	-1	None	MGC10848
1	ENAH	ENSG00000154380	ENST00000488523	processed_transcript	KNOWN	None	18271	None	None	225677502	225700398	-1	None	FLJ10773, NDPP1, MENA
1	ENAH	ENSG00000154380	ENST00000366844	protein_coding	KNOWN	CCDS31041	18271	1776	591	225680538	225840844	-1	None	FLJ10773, NDPP1, MENA
1	ENAH	ENSG00000154380	ENST00000358675	retained_intron	KNOWN	None	18271	None	None	225683182	225703099	-1	None	FLJ10773, NDPP1, MENA
1	ENAH	ENSG00000154380	ENST00000366843	protein_coding	KNOWN	CCDS31040	18271	1713	570	225684787	225840747	-1	None	FLJ10773, NDPP1, MENA
1	ENAH	ENSG00000154380	ENST00000284563	protein_coding	NOVEL	None	18271	2454	817	225685101	225840418	-1	None	FLJ10773, NDPP1, MENA
1	ENAH	ENSG00000154380	ENST00000498108	retained_intron	KNOWN	None	18271	None	None	225685125	225688958	-1	None	FLJ10773, NDPP1, MENA
1	ENAH	ENSG00000154380	ENST00000483952	retained_intron	KNOWN	None	18271	None	None	225685336	225696285	-1	None	FLJ10773, NDPP1, MENA
1	ENAH	ENSG00000154380	ENST00000497899	retained_intron	KNOWN	None	18271	None	None	225706746	225742785	-1	None	FLJ10773, NDPP1, MENA
1	ENAH	ENSG00000154380	ENST00000391874	processed_transcript	KNOWN	None	18271	None	None	225706900	225767959	-1	None	FLJ10773, NDPP1, MENA
16	PKD1L2	ENSG00000166473	ENST00000534447	retained_intron	KNOWN	None	21715	None	None	81134480	81147586	-1	None	KIAA1879
16	PKD1L2	ENSG00000166473	ENST00000534142	processed_transcript	PUTATIVE	None	21715	None	None	81134484	81169977	-1	None	KIAA1879
16	PKD1L2	ENSG00000166473	ENST00000533478	polymorphic_pseudogene	KNOWN	None	21715	5324	1773	81134494	81214929	-1	None	KIAA1879
16	PKD1L2	ENSG00000166473	ENST00000525539	polymorphic_pseudogene	KNOWN	CCDS59275	21715	7379	2458	81134728	81253975	-1	None	KIAA1879
16	PKD1L2	ENSG00000166473	ENST00000530363	retained_intron	KNOWN	None	21715	None	None	81156623	81175104	-1	None	KIAA1879
16	PKD1L2	ENSG00000166473	ENST00000299598	retained_intron	KNOWN	None	21715	None	None	81163686	81222603	-1	None	KIAA1879
16	PKD1L2	ENSG00000166473	ENST00000529079	retained_intron	KNOWN	None	21715	None	None	81187735	81193593	-1	None	KIAA1879
16	PKD1L2	ENSG00000166473	ENST00000531391	protein_coding	KNOWN	None	21715	921	306	81203894	81214934	-1	None	KIAA1879
16	PKD1L2	ENSG00000166473	ENST00000526632	protein_coding	KNOWN	None	21715	1558	518	81203897	81232391	-1	None	KIAA1879
16	PKD1L2	ENSG00000166473	ENST00000527937	protein_coding	KNOWN	None	21715	723	240	81204820	81214932	-1	None	KIAA1879
16	PKD1L2	ENSG00000166473	ENST00000529791	processed_transcript	KNOWN	None	21715	None	None	81208468	81214932	-1	None	KIAA1879
16	PKD1L2	ENSG00000166473	ENST00000337114	protein_coding	KNOWN	CCDS42202	21715	2976	991	81203894	81253975	-1	None	KIAA1879
19	CD209	ENSG00000090659	ENST00000315599	protein_coding	KNOWN	CCDS12186	1641	1215	404	7804883	7812420	-1	None	DC-SIGN, CDSIGN, DC-SIGN1, CLEC4L
19	CD209	ENSG00000090659	ENST00000394173	protein_coding	NOVEL	CCDS59345	1641	732	243	7807397	7812450	-1	None	DC-SIGN, CDSIGN, DC-SIGN1, CLEC4L
19	CD209	ENSG00000090659	ENST00000593660	protein_coding	KNOWN	None	1641	1005	334	7807533	7812397	-1	None	DC-SIGN, CDSIGN, DC-SIGN1, CLEC4L
19	CD209	ENSG00000090659	ENST00000601951	protein_coding	KNOWN	None	1641	1143	380	7807736	7812404	-1	None	DC-SIGN, CDSIGN, DC-SIGN1, CLEC4L
19	CD209	ENSG00000090659	ENST00000354397	protein_coding	KNOWN	CCDS45951	1641	1197	398	7807925	7812397	-1	None	DC-SIGN, CDSIGN, DC-SIGN1, CLEC4L
19	CD209	ENSG00000090659	ENST00000593821	protein_coding	KNOWN	CCDS59344	1641	807	268	7807925	7812397	-1	None	DC-SIGN, CDSIGN, DC-SIGN1, CLEC4L
19	CD209	ENSG00000090659	ENST00000602261	protein_coding	KNOWN	CCDS45952	1641	939	312	7807925	7812397	-1	None	DC-SIGN, CDSIGN, DC-SIGN1, CLEC4L
19	CD209	ENSG00000090659	ENST00000315591	protein_coding	KNOWN	CCDS45950	1641	1143	380	7807925	7812397	-1	None	DC-SIGN, CDSIGN, DC-SIGN1, CLEC4L
19	CD209	ENSG00000090659	ENST00000394161	protein_coding	KNOWN	None	1641	507	168	7807925	7812397	-1	None	DC-SIGN, CDSIGN, DC-SIGN1, CLEC4L
19	CD209	ENSG00000090659	ENST00000204801	protein_coding	KNOWN	CCDS45949	1641	1083	360	7807925	7812397	-1	None	DC-SIGN, CDSIGN, DC-SIGN1, CLEC4L
19	CD209	ENSG00000090659	ENST00000601256	protein_coding	KNOWN	None	1641	894	297	7808061	7812397	-1	None	DC-SIGN, CDSIGN, DC-SIGN1, CLEC4L
19	CD209	ENSG00000090659	ENST00000301357	protein_coding	KNOWN	None	1641	807	268	7804879	7812464	-1	None	DC-SIGN, CDSIGN, DC-SIGN1, CLEC4L
16	ZFP90	ENSG00000184939	ENST00000576305	protein_coding	KNOWN	None	23329	141	46	68563993	68592008	1	None	KIAA1954, NK10, ZNF756
16	ZFP90	ENSG00000184939	ENST00000569109	protein_coding	NOVEL	None	23329	100	32	68563993	68592009	1	None	KIAA1954, NK10, ZNF756
16	ZFP90	ENSG00000184939	ENST00000571382	protein_coding	KNOWN	None	23329	137	44	68564051	68592004	1	None	KIAA1954, NK10, ZNF756
16	ZFP90	ENSG00000184939	ENST00000570884	processed_transcript	KNOWN	None	23329	None	None	68564187	68592417	1	None	KIAA1954, NK10, ZNF756
16	ZFP90	ENSG00000184939	ENST00000570495	protein_coding	KNOWN	CCDS42183	23329	1911	636	68573116	68601034	1	None	KIAA1954, NK10, ZNF756
16	ZFP90	ENSG00000184939	ENST00000563169	protein_coding	KNOWN	CCDS42183	23329	1911	636	68573187	68598971	1	None	KIAA1954, NK10, ZNF756
16	ZFP90	ENSG00000184939	ENST00000564323	protein_coding	PUTATIVE	None	23329	282	93	68573194	68596981	1	None	KIAA1954, NK10, ZNF756
16	ZFP90	ENSG00000184939	ENST00000562156	protein_coding	KNOWN	None	23329	311	102	68573194	68597001	1	None	KIAA1954, NK10, ZNF756
16	ZFP90	ENSG00000184939	ENST00000573685	protein_coding	KNOWN	None	23329	311	102	68573194	68597001	1	None	KIAA1954, NK10, ZNF756
16	ZFP90	ENSG00000184939	ENST00000566573	retained_intron	KNOWN	None	23329	None	None	68573200	68592075	1	None	KIAA1954, NK10, ZNF756
16	ZFP90	ENSG00000184939	ENST00000564558	nonsense_mediated_decay	KNOWN	None	23329	183	60	68573200	68601038	1	None	KIAA1954, NK10, ZNF756
16	ZFP90	ENSG00000184939	ENST00000571809	nonsense_mediated_decay	KNOWN	None	23329	183	60	68573217	68597091	1	None	KIAA1954, NK10, ZNF756
16	ZFP90	ENSG00000184939	ENST00000576805	nonsense_mediated_decay	KNOWN	None	23329	183	60	68573226	68597040	1	None	KIAA1954, NK10, ZNF756
16	ZFP90	ENSG00000184939	ENST00000569323	nonsense_mediated_decay	KNOWN	None	23329	183	60	68573606	68597058	1	None	KIAA1954, NK10, ZNF756
16	ZFP90	ENSG00000184939	ENST00000573161	protein_coding	PUTATIVE	None	23329	159	52	68573698	68589143	1	None	KIAA1954, NK10, ZNF756
16	ZFP90	ENSG00000184939	ENST00000573113	protein_coding	PUTATIVE	None	23329	309	102	68591901	68609975	1	None	KIAA1954, NK10, ZNF756
16	ZFP90	ENSG00000184939	ENST00000398253	protein_coding	KNOWN	CCDS42183	23329	1911	636	68573661	68601039	1	None	KIAA1954, NK10, ZNF756
12	SETD1B	ENSG00000139718	ENST00000604567	protein_coding	PUTATIVE	None	29187	5901	1966	122242086	122268145	1	None	KIAA1076, Set1B, KMT2G
12	SETD1B	ENSG00000139718	ENST00000542440	protein_coding	PUTATIVE	CCDS53838	29187	5772	1923	122242086	122270490	1	None	KIAA1076, Set1B, KMT2G
12	SETD1B	ENSG00000139718	ENST00000267197	protein_coding	KNOWN	CCDS53838	29187	5772	1923	122242638	122270562	1	None	KIAA1076, Set1B, KMT2G
X	SLC10A3	ENSG00000126903	ENST00000369649	protein_coding	NOVEL	CCDS48195	22979	1347	448	153715645	153718953	-1	None	P3, DXS253E
X	SLC10A3	ENSG00000126903	ENST00000393586	protein_coding	PUTATIVE	None	22979	1599	532	153715650	153718967	-1	None	P3, DXS253E
X	SLC10A3	ENSG00000126903	ENST00000393587	protein_coding	KNOWN	CCDS14755	22979	1434	477	153715682	153719002	-1	None	P3, DXS253E
X	SLC10A3	ENSG00000126903	ENST00000453912	protein_coding	KNOWN	None	22979	654	217	153716626	153719016	-1	None	P3, DXS253E
X	SLC10A3	ENSG00000126903	ENST00000263512	protein_coding	KNOWN	CCDS14755	22979	1434	477	153715652	153719002	-1	None	P3, DXS253E
7	None	ENSG00000261795	ENST00000567533	lincRNA	KNOWN	None	None	None	None	161765	164972	-1	None	None
1	RAB13	ENSG00000143545	ENST00000368575	protein_coding	KNOWN	CCDS1058	9762	612	203	153954127	153958828	-1	None	None
1	RAB13	ENSG00000143545	ENST00000462680	processed_transcript	KNOWN	None	9762	None	None	153954130	153958722	-1	None	None
1	RAB13	ENSG00000143545	ENST00000495720	processed_transcript	KNOWN	None	9762	None	None	153954537	153958834	-1	None	None
1	RAB13	ENSG00000143545	ENST00000484297	processed_transcript	KNOWN	None	9762	None	None	153955221	153957838	-1	None	None
7	None	ENSG00000239715	ENST00000497017	lincRNA	KNOWN	None	None	None	None	174920	176013	1	None	None
7	None	ENSG00000240093	ENST00000467050	antisense	KNOWN	None	None	None	None	182935	194180	-1	None	None
8	CLVS1	ENSG00000177182	ENST00000522621	protein_coding	KNOWN	None	23139	237	78	61969717	62212623	1	RLBP1L1	MGC34646, CRALBPL, C6orf212L
8	CLVS1	ENSG00000177182	ENST00000519846	protein_coding	KNOWN	CCDS6176	23139	1065	354	62200514	62414186	1	RLBP1L1	MGC34646, CRALBPL, C6orf212L
8	CLVS1	ENSG00000177182	ENST00000523868	nonsense_mediated_decay	KNOWN	None	23139	129	42	62200531	62212417	1	RLBP1L1	MGC34646, CRALBPL, C6orf212L
8	CLVS1	ENSG00000177182	ENST00000518592	protein_coding	NOVEL	None	23139	228	75	62200531	62414204	1	RLBP1L1	MGC34646, CRALBPL, C6orf212L
8	CLVS1	ENSG00000177182	ENST00000325897	protein_coding	KNOWN	CCDS6176	23139	1065	354	62200531	62414204	1	RLBP1L1	MGC34646, CRALBPL, C6orf212L
8	CLVS1	ENSG00000177182	ENST00000521189	retained_intron	KNOWN	None	23139	None	None	62200539	62290934	1	RLBP1L1	MGC34646, CRALBPL, C6orf212L
8	CLVS1	ENSG00000177182	ENST00000524095	protein_coding	NOVEL	None	23139	6	1	62282905	62370967	1	RLBP1L1	MGC34646, CRALBPL, C6orf212L
8	CLVS1	ENSG00000177182	ENST00000520712	protein_coding	NOVEL	None	23139	178	58	62289165	62412051	1	RLBP1L1	MGC34646, CRALBPL, C6orf212L
8	CLVS1	ENSG00000177182	ENST00000518426	retained_intron	KNOWN	None	23139	None	None	62303565	62366787	1	RLBP1L1	MGC34646, CRALBPL, C6orf212L
8	CLVS1	ENSG00000177182	ENST00000522928	retained_intron	KNOWN	None	23139	None	None	62366701	62371219	1	RLBP1L1	MGC34646, CRALBPL, C6orf212L
8	CLVS1	ENSG00000177182	ENST00000518858	processed_transcript	KNOWN	None	23139	None	None	62377130	62413759	1	RLBP1L1	MGC34646, CRALBPL, C6orf212L
7	None	ENSG00000248999	ENST00000506382	processed_pseudogene	KNOWN	None	None	None	None	330617	330787	1	None	None
17	LYZL6	ENSG00000161572	ENST00000293274	protein_coding	KNOWN	CCDS11302	29614	447	148	34261522	34270674	-1	None	LYC1, PRO1485, TKAL754
17	LYZL6	ENSG00000161572	ENST00000585556	protein_coding	KNOWN	CCDS11302	29614	447	148	34261535	34270703	-1	None	LYC1, PRO1485, TKAL754
17	LYZL6	ENSG00000161572	ENST00000492340	nonsense_mediated_decay	KNOWN	None	29614	260	85	34263693	34266266	-1	None	LYC1, PRO1485, TKAL754
17	LYZL6	ENSG00000161572	ENST00000394523	protein_coding	KNOWN	CCDS11302	29614	447	148	34261525	34266510	-1	None	LYC1, PRO1485, TKAL754
1	SRP9	ENSG00000143742	ENST00000304786	protein_coding	KNOWN	CCDS1546	11304	261	86	225965531	225978168	1	None	None
1	SRP9	ENSG00000143742	ENST00000366839	protein_coding	KNOWN	CCDS44323	11304	249	82	225965539	225978168	1	None	None
1	SRP9	ENSG00000143742	ENST00000366838	protein_coding	KNOWN	None	11304	201	66	225965637	225977226	1	None	None
2	PMS1	ENSG00000064933	ENST00000441310	protein_coding	KNOWN	CCDS2302	9121	2799	932	190649107	190742355	1	PMSL1	None
2	PMS1	ENSG00000064933	ENST00000409985	protein_coding	NOVEL	None	9121	546	181	190649176	190671780	1	PMSL1	None
2	PMS1	ENSG00000064933	ENST00000446877	protein_coding	KNOWN	None	9121	132	43	190649215	190656667	1	PMSL1	None
2	PMS1	ENSG00000064933	ENST00000342075	nonsense_mediated_decay	KNOWN	None	9121	327	108	190649215	190742353	1	PMSL1	None
2	PMS1	ENSG00000064933	ENST00000409823	protein_coding	NOVEL	CCDS46474	9121	2682	893	190649227	190742162	1	PMSL1	None
2	PMS1	ENSG00000064933	ENST00000374826	protein_coding	PUTATIVE	None	9121	498	165	190649234	190671572	1	PMSL1	None
2	PMS1	ENSG00000064933	ENST00000450931	nonsense_mediated_decay	KNOWN	None	9121	1980	659	190649239	190742353	1	PMSL1	None
2	PMS1	ENSG00000064933	ENST00000421722	processed_transcript	KNOWN	None	9121	None	None	190649254	190728840	1	PMSL1	None
2	PMS1	ENSG00000064933	ENST00000424766	protein_coding	KNOWN	None	9121	583	193	190649269	190682907	1	PMSL1	None
2	PMS1	ENSG00000064933	ENST00000447232	protein_coding	KNOWN	CCDS46473	9121	2313	770	190649270	190742355	1	PMSL1	None
2	PMS1	ENSG00000064933	ENST00000447734	nonsense_mediated_decay	KNOWN	None	9121	144	47	190649291	190717488	1	PMSL1	None
2	PMS1	ENSG00000064933	ENST00000420421	protein_coding	KNOWN	None	9121	221	72	190656426	190660583	1	PMSL1	None
2	PMS1	ENSG00000064933	ENST00000424307	protein_coding	NOVEL	None	9121	2133	710	190656516	190728928	1	PMSL1	None
2	PMS1	ENSG00000064933	ENST00000424059	processed_transcript	KNOWN	None	9121	None	None	190656536	190738254	1	PMSL1	None
2	PMS1	ENSG00000064933	ENST00000409593	protein_coding	NOVEL	None	9121	1668	555	190682853	190742162	1	PMSL1	None
2	PMS1	ENSG00000064933	ENST00000483293	processed_transcript	PUTATIVE	None	9121	None	None	190722086	190732655	1	PMSL1	None
2	PMS1	ENSG00000064933	ENST00000452382	protein_coding	PUTATIVE	None	9121	798	265	190722128	190738382	1	PMSL1	None
2	PMS1	ENSG00000064933	ENST00000418224	protein_coding	KNOWN	None	9121	2271	756	190649215	190742353	1	PMSL1	None
2	PMS1	ENSG00000064933	ENST00000432292	protein_coding	KNOWN	None	9121	2271	756	190649291	190742259	1	PMSL1	None
5	MAT2B	ENSG00000038274	ENST00000280969	protein_coding	KNOWN	CCDS4364	6905	972	323	162930120	162946342	1	None	MATIIbeta, SDR23E1
5	MAT2B	ENSG00000038274	ENST00000518731	protein_coding	PUTATIVE	None	6905	249	82	162930231	162946328	1	None	MATIIbeta, SDR23E1
5	MAT2B	ENSG00000038274	ENST00000519719	retained_intron	KNOWN	None	6905	None	None	162930258	162939406	1	None	MATIIbeta, SDR23E1
5	MAT2B	ENSG00000038274	ENST00000321757	protein_coding	KNOWN	CCDS4365	6905	1005	334	162932554	162946328	1	None	MATIIbeta, SDR23E1
5	MAT2B	ENSG00000038274	ENST00000421814	protein_coding	NOVEL	None	6905	595	197	162932590	162944636	1	None	MATIIbeta, SDR23E1
5	MAT2B	ENSG00000038274	ENST00000518095	protein_coding	KNOWN	None	6905	780	259	162932620	162946333	1	None	MATIIbeta, SDR23E1
5	MAT2B	ENSG00000038274	ENST00000523606	retained_intron	KNOWN	None	6905	None	None	162932632	162946155	1	None	MATIIbeta, SDR23E1
5	MAT2B	ENSG00000038274	ENST00000520449	nonsense_mediated_decay	KNOWN	None	6905	354	117	162932645	162943621	1	None	MATIIbeta, SDR23E1
5	MAT2B	ENSG00000038274	ENST00000521838	processed_transcript	KNOWN	None	6905	None	None	162944223	162946328	1	None	MATIIbeta, SDR23E1
9	GKAP1	ENSG00000165113	ENST00000376371	protein_coding	KNOWN	CCDS35049	17496	1101	366	86354336	86432657	-1	None	GKAP42, FKSG21
9	GKAP1	ENSG00000165113	ENST00000376365	protein_coding	KNOWN	CCDS47988	17496	948	315	86354340	86432547	-1	None	GKAP42, FKSG21
9	GKAP1	ENSG00000165113	ENST00000376362	processed_transcript	KNOWN	None	17496	None	None	86354419	86364070	-1	None	GKAP42, FKSG21
9	GKAP1	ENSG00000165113	ENST00000388782	nonsense_mediated_decay	KNOWN	None	17496	381	126	86383832	86444431	-1	None	GKAP42, FKSG21
9	GKAP1	ENSG00000165113	ENST00000491634	processed_transcript	KNOWN	None	17496	None	None	86399709	86404020	-1	None	GKAP42, FKSG21
9	GKAP1	ENSG00000165113	ENST00000485742	protein_coding	KNOWN	None	17496	163	53	86421270	86432211	-1	None	GKAP42, FKSG21
9	GKAP1	ENSG00000165113	ENST00000462223	processed_transcript	KNOWN	None	17496	None	None	86431911	86433036	-1	None	GKAP42, FKSG21
1	EPHX1	ENSG00000143819	ENST00000445856	protein_coding	KNOWN	None	3401	484	160	225997794	226026474	1	EPHX	None
1	EPHX1	ENSG00000143819	ENST00000448202	protein_coding	KNOWN	None	3401	408	135	225997836	226026398	1	EPHX	None
1	EPHX1	ENSG00000143819	ENST00000366837	protein_coding	KNOWN	CCDS1547	3401	1368	455	226013055	226033260	1	EPHX	None
1	EPHX1	ENSG00000143819	ENST00000467015	processed_transcript	KNOWN	None	3401	None	None	226016544	226019864	1	EPHX	None
1	EPHX1	ENSG00000143819	ENST00000272167	protein_coding	KNOWN	CCDS1547	3401	1368	455	225997797	226033260	1	EPHX	None
1	RPS27	ENSG00000177954	ENST00000368567	protein_coding	KNOWN	CCDS1059	10416	255	84	153963235	153964626	1	None	MPS-1, MPS1, S27
1	RPS27	ENSG00000177954	ENST00000392558	protein_coding	KNOWN	None	10416	201	66	153963238	153964174	1	None	MPS-1, MPS1, S27
1	RPS27	ENSG00000177954	ENST00000493224	processed_transcript	KNOWN	None	10416	None	None	153963239	153964621	1	None	MPS-1, MPS1, S27
1	RPS27	ENSG00000177954	ENST00000477151	processed_transcript	KNOWN	None	10416	None	None	153963239	153964626	1	None	MPS-1, MPS1, S27
14	MIS18BP1	ENSG00000129534	ENST00000310806	protein_coding	KNOWN	CCDS9684	20190	3399	1132	45672393	45722605	-1	C14orf106	M18BP1, FLJ11186, KIAA1903, KNL2
14	MIS18BP1	ENSG00000129534	ENST00000470424	retained_intron	KNOWN	None	20190	None	None	45673040	45675647	-1	C14orf106	M18BP1, FLJ11186, KIAA1903, KNL2
14	MIS18BP1	ENSG00000129534	ENST00000496413	retained_intron	KNOWN	None	20190	None	None	45673583	45675477	-1	C14orf106	M18BP1, FLJ11186, KIAA1903, KNL2
14	MIS18BP1	ENSG00000129534	ENST00000469020	retained_intron	KNOWN	None	20190	None	None	45679314	45693248	-1	C14orf106	M18BP1, FLJ11186, KIAA1903, KNL2
14	MIS18BP1	ENSG00000129534	ENST00000554093	nonsense_mediated_decay	KNOWN	None	20190	235	77	45679666	45693327	-1	C14orf106	M18BP1, FLJ11186, KIAA1903, KNL2
14	MIS18BP1	ENSG00000129534	ENST00000454990	nonsense_mediated_decay	KNOWN	None	20190	1491	496	45696029	45722401	-1	C14orf106	M18BP1, FLJ11186, KIAA1903, KNL2
14	MIS18BP1	ENSG00000129534	ENST00000555653	retained_intron	KNOWN	None	20190	None	None	45696890	45700644	-1	C14orf106	M18BP1, FLJ11186, KIAA1903, KNL2
14	MIS18BP1	ENSG00000129534	ENST00000453142	nonsense_mediated_decay	KNOWN	None	20190	588	195	45697006	45711683	-1	C14orf106	M18BP1, FLJ11186, KIAA1903, KNL2
14	MIS18BP1	ENSG00000129534	ENST00000494512	processed_transcript	KNOWN	None	20190	None	None	45706900	45722743	-1	C14orf106	M18BP1, FLJ11186, KIAA1903, KNL2
14	MIS18BP1	ENSG00000129534	ENST00000492652	processed_transcript	KNOWN	None	20190	None	None	45710671	45711589	-1	C14orf106	M18BP1, FLJ11186, KIAA1903, KNL2
14	MIS18BP1	ENSG00000129534	ENST00000451174	protein_coding	KNOWN	None	20190	466	154	45716024	45722380	-1	C14orf106	M18BP1, FLJ11186, KIAA1903, KNL2
11	OR4A16	ENSG00000181961	ENST00000314721	protein_coding	KNOWN	CCDS31499	15153	987	328	55110627	55111707	1	None	OR4A16Q
11	OR4A15	ENSG00000181958	ENST00000314706	protein_coding	KNOWN	CCDS31500	15152	1035	344	55135360	55136394	1	None	None
19	ZNF546	ENSG00000187187	ENST00000597363	processed_transcript	KNOWN	None	28671	None	None	40490041	40504210	1	ZNF49	MGC43537
19	ZNF546	ENSG00000187187	ENST00000599504	protein_coding	PUTATIVE	None	28671	419	138	40502943	40519710	1	ZNF49	MGC43537
19	ZNF546	ENSG00000187187	ENST00000596894	protein_coding	PUTATIVE	None	28671	114	37	40502943	40522716	1	ZNF49	MGC43537
19	ZNF546	ENSG00000187187	ENST00000593687	retained_intron	KNOWN	None	28671	None	None	40502945	40505737	1	ZNF49	MGC43537
19	ZNF546	ENSG00000187187	ENST00000601138	protein_coding	PUTATIVE	None	28671	378	125	40502967	40517255	1	ZNF49	MGC43537
19	ZNF546	ENSG00000187187	ENST00000600094	protein_coding	PUTATIVE	None	28671	2433	810	40502970	40522452	1	ZNF49	MGC43537
19	ZNF546	ENSG00000187187	ENST00000347077	protein_coding	KNOWN	CCDS12548	28671	2511	836	40502983	40523514	1	ZNF49	MGC43537
19	ZNF546	ENSG00000187187	ENST00000602253	retained_intron	KNOWN	None	28671	None	None	40503027	40504457	1	ZNF49	MGC43537
19	ZNF546	ENSG00000187187	ENST00000595225	protein_coding	KNOWN	None	28671	374	123	40503143	40514452	1	ZNF49	MGC43537
11	OR4C15	ENSG00000181939	ENST00000314644	protein_coding	KNOWN	CCDS31501	15171	1113	370	55321783	55322895	1	None	None
11	OR4C16	ENSG00000181935	ENST00000314634	protein_coding	KNOWN	CCDS31502	15172	933	310	55339604	55340536	1	None	None
20	None	ENSG00000232712	ENST00000591761	antisense	KNOWN	None	None	None	None	21134664	21198903	-1	None	None
20	None	ENSG00000232712	ENST00000443753	antisense	KNOWN	None	None	None	None	21175044	21198927	-1	None	None
20	None	ENSG00000232712	ENST00000433213	antisense	KNOWN	None	None	None	None	21178101	21198927	-1	None	None
11	OR4C11	ENSG00000172188	ENST00000302231	protein_coding	KNOWN	CCDS31503	15167	933	310	55370830	55371874	-1	OR4C11P	None
1	TMEM63A	ENSG00000196187	ENST00000366835	protein_coding	KNOWN	CCDS31042	29118	2424	807	226033237	226070069	-1	KIAA0792	None
1	TMEM63A	ENSG00000196187	ENST00000496025	processed_transcript	KNOWN	None	29118	None	None	226034277	226035166	-1	KIAA0792	None
1	TMEM63A	ENSG00000196187	ENST00000482753	processed_transcript	KNOWN	None	29118	None	None	226034840	226036689	-1	KIAA0792	None
1	TMEM63A	ENSG00000196187	ENST00000487971	processed_transcript	KNOWN	None	29118	None	None	226044405	226047241	-1	KIAA0792	None
1	TMEM63A	ENSG00000196187	ENST00000474478	processed_transcript	KNOWN	None	29118	None	None	226047363	226053911	-1	KIAA0792	None
1	TMEM63A	ENSG00000196187	ENST00000483779	processed_transcript	KNOWN	None	29118	None	None	226050240	226054110	-1	KIAA0792	None
1	TMEM63A	ENSG00000196187	ENST00000436966	protein_coding	KNOWN	None	29118	355	117	226058792	226065379	-1	KIAA0792	None
1	TMEM63A	ENSG00000196187	ENST00000487817	processed_transcript	KNOWN	None	29118	None	None	226059274	226065194	-1	KIAA0792	None
1	TMEM63A	ENSG00000196187	ENST00000537914	protein_coding	KNOWN	None	29118	249	82	226048424	226054448	-1	KIAA0792	None
11	OR4P4	ENSG00000181927	ENST00000314612	protein_coding	KNOWN	CCDS31504	15180	939	312	55405834	55406772	1	OR4P3P	None
11	OR4S2	ENSG00000174982	ENST00000312422	protein_coding	KNOWN	CCDS31505	15183	936	311	55418380	55419315	1	OR4S2P	OST725
14	PROX2	ENSG00000119608	ENST00000556084	protein_coding	KNOWN	CCDS45136	26715	1098	365	75319736	75330537	-1	None	FLJ36749
14	PROX2	ENSG00000119608	ENST00000556489	protein_coding	KNOWN	None	26715	1779	592	75320851	75330537	-1	None	FLJ36749
14	PROX2	ENSG00000119608	ENST00000445876	protein_coding	KNOWN	None	26715	1779	592	75321835	75330537	-1	None	FLJ36749
15	MAPK6	ENSG00000069956	ENST00000560802	processed_transcript	PUTATIVE	None	6879	None	None	52244303	52338262	1	PRKM6	ERK3, p97MAPK, HsT17250
15	MAPK6	ENSG00000069956	ENST00000558063	processed_transcript	PUTATIVE	None	6879	None	None	52296377	52338306	1	PRKM6	ERK3, p97MAPK, HsT17250
15	MAPK6	ENSG00000069956	ENST00000560254	processed_transcript	PUTATIVE	None	6879	None	None	52296405	52338405	1	PRKM6	ERK3, p97MAPK, HsT17250
15	MAPK6	ENSG00000069956	ENST00000261845	protein_coding	KNOWN	CCDS10147	6879	2166	721	52311398	52358462	1	PRKM6	ERK3, p97MAPK, HsT17250
15	MAPK6	ENSG00000069956	ENST00000558100	processed_transcript	PUTATIVE	None	6879	None	None	52311435	52338321	1	PRKM6	ERK3, p97MAPK, HsT17250
15	MAPK6	ENSG00000069956	ENST00000558841	processed_transcript	PUTATIVE	None	6879	None	None	52312119	52338571	1	PRKM6	ERK3, p97MAPK, HsT17250
15	MAPK6	ENSG00000069956	ENST00000558891	processed_transcript	PUTATIVE	None	6879	None	None	52313661	52338508	1	PRKM6	ERK3, p97MAPK, HsT17250
15	MAPK6	ENSG00000069956	ENST00000560774	processed_transcript	PUTATIVE	None	6879	None	None	52316778	52338250	1	PRKM6	ERK3, p97MAPK, HsT17250
11	OR4C6	ENSG00000181903	ENST00000314259	protein_coding	KNOWN	CCDS31506	14743	930	309	55432614	55433671	1	None	None
11	OR5D13	ENSG00000198877	ENST00000361760	protein_coding	KNOWN	CCDS31507	15280	945	314	55540914	55541858	1	None	None
11	OR5D14	ENSG00000186113	ENST00000335605	protein_coding	KNOWN	CCDS31508	15281	945	314	55563032	55563976	1	None	None
11	OR5L1	ENSG00000186117	ENST00000333973	protein_coding	KNOWN	CCDS31509	8350	936	311	55578854	55579952	1	None	OST262
11	INPPL1	ENSG00000165458	ENST00000540973	protein_coding	KNOWN	None	6080	67	21	71934745	71936095	1	None	SHIP2
11	INPPL1	ENSG00000165458	ENST00000543234	protein_coding	KNOWN	None	6080	53	16	71934988	71936081	1	None	SHIP2
11	INPPL1	ENSG00000165458	ENST00000298229	protein_coding	KNOWN	CCDS8213	6080	3777	1258	71935825	71950149	1	None	SHIP2
11	INPPL1	ENSG00000165458	ENST00000541544	retained_intron	KNOWN	None	6080	None	None	71936113	71939759	1	None	SHIP2
11	INPPL1	ENSG00000165458	ENST00000538751	protein_coding	KNOWN	None	6080	3051	1016	71938925	71950149	1	None	SHIP2
11	INPPL1	ENSG00000165458	ENST00000540329	protein_coding	NOVEL	None	6080	381	126	71939512	71941512	1	None	SHIP2
11	INPPL1	ENSG00000165458	ENST00000537656	protein_coding	KNOWN	None	6080	101	32	71939893	71940780	1	None	SHIP2
11	INPPL1	ENSG00000165458	ENST00000538339	retained_intron	KNOWN	None	6080	None	None	71941762	71942360	1	None	SHIP2
11	INPPL1	ENSG00000165458	ENST00000537755	retained_intron	KNOWN	None	6080	None	None	71942186	71943652	1	None	SHIP2
11	INPPL1	ENSG00000165458	ENST00000544806	retained_intron	KNOWN	None	6080	None	None	71942294	71943464	1	None	SHIP2
11	INPPL1	ENSG00000165458	ENST00000541303	retained_intron	KNOWN	None	6080	None	None	71943352	71946468	1	None	SHIP2
11	INPPL1	ENSG00000165458	ENST00000542295	retained_intron	KNOWN	None	6080	None	None	71943915	71944580	1	None	SHIP2
11	INPPL1	ENSG00000165458	ENST00000545355	retained_intron	KNOWN	None	6080	None	None	71944554	71946990	1	None	SHIP2
11	INPPL1	ENSG00000165458	ENST00000535985	nonsense_mediated_decay	KNOWN	None	6080	125	40	71944724	71950149	1	None	SHIP2
11	INPPL1	ENSG00000165458	ENST00000541752	protein_coding	PUTATIVE	None	6080	594	197	71948250	71949571	1	None	SHIP2
11	INPPL1	ENSG00000165458	ENST00000320683	protein_coding	NOVEL	None	6080	449	148	71948704	71949665	1	None	SHIP2
11	INPPL1	ENSG00000165458	ENST00000541756	protein_coding	KNOWN	None	6080	3051	1016	71935825	71950149	1	None	SHIP2
11	OR5D18	ENSG00000186119	ENST00000333976	protein_coding	KNOWN	CCDS31510	15285	942	313	55587086	55588073	1	None	None
19	RBM42	ENSG00000126254	ENST00000588161	protein_coding	KNOWN	None	28117	1353	450	36119932	36128588	1	None	MGC10433
19	RBM42	ENSG00000126254	ENST00000262633	protein_coding	KNOWN	CCDS12468	28117	1443	480	36119951	36128588	1	None	MGC10433
19	RBM42	ENSG00000126254	ENST00000592202	protein_coding	NOVEL	None	28117	1281	426	36119969	36128557	1	None	MGC10433
19	RBM42	ENSG00000126254	ENST00000586618	protein_coding	NOVEL	None	28117	555	184	36119970	36128586	1	None	MGC10433
19	RBM42	ENSG00000126254	ENST00000589559	protein_coding	NOVEL	None	28117	1161	386	36119979	36128546	1	None	MGC10433
19	RBM42	ENSG00000126254	ENST00000592526	retained_intron	KNOWN	None	28117	None	None	36119993	36122814	1	None	MGC10433
19	RBM42	ENSG00000126254	ENST00000589871	protein_coding	NOVEL	None	28117	1377	458	36120033	36128543	1	None	MGC10433
19	RBM42	ENSG00000126254	ENST00000360475	protein_coding	KNOWN	None	28117	1356	451	36119980	36128586	1	None	MGC10433
6	None	ENSG00000214479	ENST00000398400	protein_coding	NOVEL	None	None	54	17	83782692	83782854	1	None	None
4	KLHL8	ENSG00000145332	ENST00000273963	protein_coding	KNOWN	CCDS3617	18644	1863	620	88081255	88141760	-1	None	KIAA1378
4	KLHL8	ENSG00000145332	ENST00000498875	protein_coding	NOVEL	None	18644	1635	544	88081401	88141688	-1	None	KIAA1378
4	KLHL8	ENSG00000145332	ENST00000425278	protein_coding	NOVEL	None	18644	1314	437	88082195	88141677	-1	None	KIAA1378
4	KLHL8	ENSG00000145332	ENST00000506985	nonsense_mediated_decay	KNOWN	None	18644	234	77	88083596	88141615	-1	None	KIAA1378
4	KLHL8	ENSG00000145332	ENST00000512111	protein_coding	KNOWN	CCDS3617	18644	1863	620	88083674	88141420	-1	None	KIAA1378
4	KLHL8	ENSG00000145332	ENST00000505388	processed_transcript	KNOWN	None	18644	None	None	88085035	88141649	-1	None	KIAA1378
4	KLHL8	ENSG00000145332	ENST00000504029	processed_transcript	KNOWN	None	18644	None	None	88091351	88141697	-1	None	KIAA1378
4	KLHL8	ENSG00000145332	ENST00000506274	processed_transcript	PUTATIVE	None	18644	None	None	88140676	88161466	-1	None	KIAA1378
4	KLHL8	ENSG00000145332	ENST00000545252	protein_coding	KNOWN	None	18644	810	269	88083601	88141615	-1	None	KIAA1378
11	OR5L2	ENSG00000205030	ENST00000378397	protein_coding	KNOWN	CCDS31511	8351	936	311	55594695	55595630	1	None	HTPCRX16, HSHTPCRX16
2	C2orf88	ENSG00000187699	ENST00000478197	processed_transcript	KNOWN	None	28191	None	None	190744335	190944296	1	None	MGC13057
2	C2orf88	ENSG00000187699	ENST00000495546	processed_transcript	KNOWN	None	28191	None	None	190744353	191028777	1	None	MGC13057
2	C2orf88	ENSG00000187699	ENST00000490033	processed_transcript	KNOWN	None	28191	None	None	190954267	191064553	1	None	MGC13057
2	C2orf88	ENSG00000187699	ENST00000450357	protein_coding	KNOWN	None	28191	90	29	190954302	191064676	1	None	MGC13057
2	C2orf88	ENSG00000187699	ENST00000396974	protein_coding	KNOWN	CCDS42792	28191	288	95	191002486	191065205	1	None	MGC13057
2	C2orf88	ENSG00000187699	ENST00000409545	protein_coding	KNOWN	None	28191	203	66	191014972	191064789	1	None	MGC13057
2	C2orf88	ENSG00000187699	ENST00000409870	protein_coding	KNOWN	CCDS42792	28191	288	95	191045208	191064935	1	None	MGC13057
2	C2orf88	ENSG00000187699	ENST00000340623	protein_coding	KNOWN	CCDS42792	28191	288	95	191045589	191068210	1	None	MGC13057
2	C2orf88	ENSG00000187699	ENST00000443551	protein_coding	KNOWN	CCDS42792	28191	288	95	191045681	191064940	1	None	MGC13057
6	PRRC2A	ENSG00000204469	ENST00000376007	protein_coding	KNOWN	CCDS4708	13918	6474	2157	31588497	31605548	1	BAT2	G2, D6S51E
6	PRRC2A	ENSG00000204469	ENST00000469577	processed_transcript	KNOWN	None	13918	None	None	31588501	31594639	1	BAT2	G2, D6S51E
6	PRRC2A	ENSG00000204469	ENST00000376033	protein_coding	KNOWN	CCDS4708	13918	6474	2157	31588502	31605548	1	BAT2	G2, D6S51E
6	PRRC2A	ENSG00000204469	ENST00000464079	retained_intron	KNOWN	None	13918	None	None	31592679	31593274	1	BAT2	G2, D6S51E
6	PRRC2A	ENSG00000204469	ENST00000464890	retained_intron	KNOWN	None	13918	None	None	31593531	31594851	1	BAT2	G2, D6S51E
6	PRRC2A	ENSG00000204469	ENST00000483470	retained_intron	KNOWN	None	13918	None	None	31596417	31597545	1	BAT2	G2, D6S51E
6	PRRC2A	ENSG00000204469	ENST00000460302	retained_intron	KNOWN	None	13918	None	None	31601731	31602533	1	BAT2	G2, D6S51E
6	PRRC2A	ENSG00000204469	ENST00000484787	retained_intron	KNOWN	None	13918	None	None	31602184	31603093	1	BAT2	G2, D6S51E
6	PRRC2A	ENSG00000204469	ENST00000469501	retained_intron	KNOWN	None	13918	None	None	31603019	31603486	1	BAT2	G2, D6S51E
6	PRRC2A	ENSG00000204469	ENST00000487089	retained_intron	KNOWN	None	13918	None	None	31603137	31604027	1	BAT2	G2, D6S51E
6	PRRC2A	ENSG00000204469	ENST00000487839	retained_intron	KNOWN	None	13918	None	None	31603153	31604588	1	BAT2	G2, D6S51E
6	PRRC2A	ENSG00000204469	ENST00000492691	retained_intron	KNOWN	None	13918	None	None	31604024	31605548	1	BAT2	G2, D6S51E
6	PRRC2A	ENSG00000204469	ENST00000462617	retained_intron	KNOWN	None	13918	None	None	31604313	31605548	1	BAT2	G2, D6S51E
6	PRRC2A	ENSG00000204469	ENST00000482441	retained_intron	KNOWN	None	13918	None	None	31604612	31605548	1	BAT2	G2, D6S51E
1	NUP210L	ENSG00000143552	ENST00000368559	protein_coding	KNOWN	CCDS41399	29915	5667	1888	153965161	154127592	-1	None	None
1	NUP210L	ENSG00000143552	ENST00000368553	protein_coding	KNOWN	None	29915	2010	669	153965166	154029342	-1	None	None
1	NUP210L	ENSG00000143552	ENST00000271854	protein_coding	KNOWN	CCDS53370	29915	5211	1736	153965170	154127592	-1	None	None
2	COLEC11	ENSG00000118004	ENST00000419002	processed_transcript	KNOWN	None	17213	None	None	3642426	3652630	1	None	MGC3279
2	COLEC11	ENSG00000118004	ENST00000487365	processed_transcript	KNOWN	None	17213	None	None	3642545	3692036	1	None	MGC3279
2	COLEC11	ENSG00000118004	ENST00000460971	processed_transcript	KNOWN	None	17213	None	None	3642545	3692036	1	None	MGC3279
2	COLEC11	ENSG00000118004	ENST00000236693	protein_coding	KNOWN	CCDS1650	17213	807	268	3642639	3692048	1	None	MGC3279
2	COLEC11	ENSG00000118004	ENST00000349077	protein_coding	KNOWN	CCDS1649	17213	816	271	3642682	3692048	1	None	MGC3279
2	COLEC11	ENSG00000118004	ENST00000416132	nonsense_mediated_decay	KNOWN	None	17213	351	116	3642744	3692036	1	None	MGC3279
2	COLEC11	ENSG00000118004	ENST00000438814	protein_coding	PUTATIVE	None	17213	370	122	3649496	3687921	1	None	MGC3279
2	COLEC11	ENSG00000118004	ENST00000403096	protein_coding	PUTATIVE	CCDS58691	17213	738	245	3653291	3692036	1	None	MGC3279
2	COLEC11	ENSG00000118004	ENST00000402794	protein_coding	PUTATIVE	CCDS58693	17213	666	221	3653642	3692036	1	None	MGC3279
2	COLEC11	ENSG00000118004	ENST00000404205	protein_coding	PUTATIVE	CCDS58694	17213	594	197	3653642	3692036	1	None	MGC3279
2	COLEC11	ENSG00000118004	ENST00000402922	protein_coding	PUTATIVE	CCDS58692	17213	666	221	3653642	3692036	1	None	MGC3279
2	COLEC11	ENSG00000118004	ENST00000418971	protein_coding	KNOWN	CCDS58689	17213	858	285	3649496	3691942	1	None	MGC3279
2	COLEC11	ENSG00000118004	ENST00000382062	protein_coding	KNOWN	CCDS58690	17213	744	247	3642545	3692035	1	None	MGC3279
4	PPAT	ENSG00000128059	ENST00000264220	protein_coding	KNOWN	CCDS3505	9238	1554	517	57259528	57301781	-1	None	GPAT, PRAT
4	PPAT	ENSG00000128059	ENST00000425339	retained_intron	KNOWN	None	9238	None	None	57259531	57267082	-1	None	GPAT, PRAT
4	PPAT	ENSG00000128059	ENST00000507648	processed_transcript	KNOWN	None	9238	None	None	57267556	57274494	-1	None	GPAT, PRAT
4	PPAT	ENSG00000128059	ENST00000510643	nonsense_mediated_decay	KNOWN	None	9238	579	192	57269229	57301674	-1	None	GPAT, PRAT
4	PPAT	ENSG00000128059	ENST00000507724	nonsense_mediated_decay	KNOWN	None	9238	219	72	57269240	57301662	-1	None	GPAT, PRAT
4	DOK7	ENSG00000175920	ENST00000511267	retained_intron	KNOWN	None	26594	None	None	3465038	3478270	1	C4orf25	FLJ33718, FLJ39137, Dok-7
4	DOK7	ENSG00000175920	ENST00000503688	processed_transcript	KNOWN	None	26594	None	None	3465038	3494615	1	C4orf25	FLJ33718, FLJ39137, Dok-7
4	DOK7	ENSG00000175920	ENST00000507039	protein_coding	NOVEL	CCDS54717	26594	768	255	3465038	3496210	1	C4orf25	FLJ33718, FLJ39137, Dok-7
4	DOK7	ENSG00000175920	ENST00000340083	protein_coding	KNOWN	CCDS3370	26594	1515	504	3465038	3496210	1	C4orf25	FLJ33718, FLJ39137, Dok-7
4	DOK7	ENSG00000175920	ENST00000515886	retained_intron	KNOWN	None	26594	None	None	3486271	3496208	1	C4orf25	FLJ33718, FLJ39137, Dok-7
4	DOK7	ENSG00000175920	ENST00000513995	retained_intron	KNOWN	None	26594	None	None	3487076	3494612	1	C4orf25	FLJ33718, FLJ39137, Dok-7
4	DOK7	ENSG00000175920	ENST00000512714	processed_transcript	KNOWN	None	26594	None	None	3494522	3503200	1	C4orf25	FLJ33718, FLJ39137, Dok-7
4	DOK7	ENSG00000175920	ENST00000389653	protein_coding	KNOWN	None	26594	1827	608	3465033	3502552	1	C4orf25	FLJ33718, FLJ39137, Dok-7
2	MSTN	ENSG00000138379	ENST00000260950	protein_coding	KNOWN	CCDS2303	4223	1128	375	190920423	190927455	-1	GDF8	None
1	LEFTY1	ENSG00000243709	ENST00000272134	protein_coding	KNOWN	CCDS1548	6552	1101	366	226073982	226076846	-1	LEFTB	LEFTYB
1	LEFTY1	ENSG00000243709	ENST00000492457	processed_transcript	KNOWN	None	6552	None	None	226075485	226099082	-1	LEFTB	LEFTYB
1	None	ENSG00000255835	ENST00000432920	protein_coding	PUTATIVE	None	None	1080	359	226074396	226111978	-1	None	None
5	HNRNPAB	ENSG00000197451	ENST00000358344	protein_coding	KNOWN	CCDS34309	5034	999	332	177631508	177638164	1	HNRPAB	ABBP1, FLJ40338
5	HNRNPAB	ENSG00000197451	ENST00000506339	protein_coding	NOVEL	None	5034	984	327	177631534	177638156	1	HNRPAB	ABBP1, FLJ40338
5	HNRNPAB	ENSG00000197451	ENST00000355836	protein_coding	KNOWN	CCDS34310	5034	858	285	177631540	177638143	1	HNRPAB	ABBP1, FLJ40338
5	HNRNPAB	ENSG00000197451	ENST00000514633	protein_coding	NOVEL	None	5034	852	283	177631542	177638120	1	HNRPAB	ABBP1, FLJ40338
5	HNRNPAB	ENSG00000197451	ENST00000515193	protein_coding	NOVEL	None	5034	843	280	177631545	177638156	1	HNRPAB	ABBP1, FLJ40338
5	HNRNPAB	ENSG00000197451	ENST00000506259	protein_coding	KNOWN	CCDS34310	5034	858	285	177631549	177638150	1	HNRPAB	ABBP1, FLJ40338
5	HNRNPAB	ENSG00000197451	ENST00000504898	protein_coding	KNOWN	CCDS34309	5034	999	332	177631572	177638143	1	HNRPAB	ABBP1, FLJ40338
5	HNRNPAB	ENSG00000197451	ENST00000504796	retained_intron	KNOWN	None	5034	None	None	177632569	177633867	1	HNRPAB	ABBP1, FLJ40338
15	BCL2L10	ENSG00000137875	ENST00000260442	protein_coding	KNOWN	CCDS10148	993	615	204	52401460	52404972	-1	None	Diva, Boo, BCL-B
15	BCL2L10	ENSG00000137875	ENST00000561198	protein_coding	PUTATIVE	None	993	726	241	52401947	52404965	-1	None	Diva, Boo, BCL-B
17	CCL16	ENSG00000161573	ENST00000483259	nonsense_mediated_decay	KNOWN	None	10614	287	94	34303529	34305299	-1	SCYA16	NCC-4, SCYL4, LEC, HCC-4, LMC, LCC-1, CKb12, Mtn-1
17	CCL16	ENSG00000161573	ENST00000293275	protein_coding	KNOWN	CCDS11303	10614	363	120	34303535	34308532	-1	SCYA16	NCC-4, SCYL4, LEC, HCC-4, LMC, LCC-1, CKb12, Mtn-1
17	CCL16	ENSG00000161573	ENST00000586567	nonsense_mediated_decay	KNOWN	None	10614	162	53	34303604	34308497	-1	SCYA16	NCC-4, SCYL4, LEC, HCC-4, LMC, LCC-1, CKb12, Mtn-1
20	RPS15AP1	ENSG00000214535	ENST00000457423	processed_pseudogene	KNOWN	None	16598	None	None	21146846	21147236	-1	None	dJ872K7.6
1	PYCR2	ENSG00000143811	ENST00000343818	protein_coding	KNOWN	CCDS31043	30262	963	320	226107578	226111959	-1	None	P5CR2
1	PYCR2	ENSG00000143811	ENST00000478402	processed_transcript	KNOWN	None	30262	None	None	226107578	226111978	-1	None	P5CR2
1	PYCR2	ENSG00000143811	ENST00000466127	processed_transcript	KNOWN	None	30262	None	None	226108916	226109634	-1	None	P5CR2
1	PYCR2	ENSG00000143811	ENST00000446534	retained_intron	KNOWN	None	30262	None	None	226108922	226110779	-1	None	P5CR2
1	PYCR2	ENSG00000143811	ENST00000489681	processed_transcript	KNOWN	None	30262	None	None	226109304	226111693	-1	None	P5CR2
1	PYCR2	ENSG00000143811	ENST00000472798	processed_transcript	KNOWN	None	30262	None	None	226109729	226111591	-1	None	P5CR2
1	PYCR2	ENSG00000143811	ENST00000467298	processed_transcript	KNOWN	None	30262	None	None	226110840	226111700	-1	None	P5CR2
1	PYCR2	ENSG00000143811	ENST00000366823	retained_intron	KNOWN	None	30262	None	None	226111182	226111978	-1	None	P5CR2
6	PGM3	ENSG00000013375	ENST00000504780	nonsense_mediated_decay	KNOWN	None	8907	341	112	83870869	83881732	-1	None	AGM1, DKFZP434B187, PAGM
6	PGM3	ENSG00000013375	ENST00000513973	protein_coding	KNOWN	CCDS4997	8907	1629	542	83874592	83903012	-1	None	AGM1, DKFZP434B187, PAGM
6	PGM3	ENSG00000013375	ENST00000512866	protein_coding	PUTATIVE	CCDS56435	8907	1701	566	83875849	83902950	-1	None	AGM1, DKFZP434B187, PAGM
6	PGM3	ENSG00000013375	ENST00000283977	protein_coding	PUTATIVE	None	8907	1386	461	83878247	83902985	-1	None	AGM1, DKFZP434B187, PAGM
6	PGM3	ENSG00000013375	ENST00000506587	protein_coding	PUTATIVE	CCDS56436	8907	1713	570	83878842	83903633	-1	None	AGM1, DKFZP434B187, PAGM
6	PGM3	ENSG00000013375	ENST00000509219	protein_coding	PUTATIVE	None	8907	594	197	83879240	83885701	-1	None	AGM1, DKFZP434B187, PAGM
6	PGM3	ENSG00000013375	ENST00000503356	retained_intron	KNOWN	None	8907	None	None	83881655	83884773	-1	None	AGM1, DKFZP434B187, PAGM
6	PGM3	ENSG00000013375	ENST00000507404	retained_intron	KNOWN	None	8907	None	None	83884156	83885854	-1	None	AGM1, DKFZP434B187, PAGM
6	PGM3	ENSG00000013375	ENST00000510258	protein_coding	PUTATIVE	None	8907	518	171	83891481	83902953	-1	None	AGM1, DKFZP434B187, PAGM
6	PGM3	ENSG00000013375	ENST00000505470	nonsense_mediated_decay	KNOWN	None	8907	216	71	83892669	83902974	-1	None	AGM1, DKFZP434B187, PAGM
6	PGM3	ENSG00000013375	ENST00000507554	protein_coding	KNOWN	None	8907	440	145	83896744	83903655	-1	None	AGM1, DKFZP434B187, PAGM
6	PGM3	ENSG00000013375	ENST00000605602	protein_coding	PUTATIVE	None	8907	36	11	83898222	83898364	-1	None	AGM1, DKFZP434B187, PAGM
6	PGM3	ENSG00000013375	ENST00000508748	protein_coding	PUTATIVE	None	8907	470	155	83898336	83903012	-1	None	AGM1, DKFZP434B187, PAGM
6	PGM3	ENSG00000013375	ENST00000503094	protein_coding	PUTATIVE	None	8907	342	113	83898464	83902984	-1	None	AGM1, DKFZP434B187, PAGM
6	PGM3	ENSG00000013375	ENST00000515333	retained_intron	KNOWN	None	8907	None	None	83900229	83902967	-1	None	AGM1, DKFZP434B187, PAGM
8	SDC2	ENSG00000169439	ENST00000302190	protein_coding	KNOWN	CCDS6272	10659	606	201	97505579	97624000	1	HSPG, HSPG1	fibroglycan, SYND2, CD362
8	SDC2	ENSG00000169439	ENST00000520233	processed_transcript	KNOWN	None	10659	None	None	97506041	97549571	1	HSPG, HSPG1	fibroglycan, SYND2, CD362
8	SDC2	ENSG00000169439	ENST00000519587	processed_transcript	KNOWN	None	10659	None	None	97506041	97551044	1	HSPG, HSPG1	fibroglycan, SYND2, CD362
8	SDC2	ENSG00000169439	ENST00000518385	protein_coding	NOVEL	None	10659	498	165	97506041	97622402	1	HSPG, HSPG1	fibroglycan, SYND2, CD362
8	SDC2	ENSG00000169439	ENST00000522911	protein_coding	PUTATIVE	None	10659	519	172	97506236	97621871	1	HSPG, HSPG1	fibroglycan, SYND2, CD362
8	SDC2	ENSG00000169439	ENST00000519914	protein_coding	PUTATIVE	None	10659	519	172	97592577	97622328	1	HSPG, HSPG1	fibroglycan, SYND2, CD362
8	SDC2	ENSG00000169439	ENST00000521590	protein_coding	PUTATIVE	None	10659	411	136	97597173	97621668	1	HSPG, HSPG1	fibroglycan, SYND2, CD362
8	SDC2	ENSG00000169439	ENST00000523877	protein_coding	PUTATIVE	None	10659	436	144	97598615	97621693	1	HSPG, HSPG1	fibroglycan, SYND2, CD362
10	None	ENSG00000224474	ENST00000439965	protein_coding	KNOWN	None	None	207	68	99179228	99185831	-1	None	None
7	None	ENSG00000248767	ENST00000510017	lincRNA	KNOWN	None	None	None	None	331310	334388	1	None	None
7	None	ENSG00000249574	ENST00000515213	lincRNA	KNOWN	None	None	None	None	419325	422678	1	None	None
7	None	ENSG00000234471	ENST00000434541	lincRNA	KNOWN	None	None	None	None	523744	535755	-1	None	None
7	None	ENSG00000223855	ENST00000452622	lincRNA	KNOWN	None	None	None	None	560028	564869	1	None	None
7	None	ENSG00000252986	ENST00000517177	miRNA	NOVEL	None	None	None	None	590370	590450	1	None	None
3	SNX4	ENSG00000114520	ENST00000251775	protein_coding	KNOWN	CCDS3032	11175	1353	450	125165495	125239041	-1	None	ATG24B
3	SNX4	ENSG00000114520	ENST00000471751	nonsense_mediated_decay	KNOWN	None	11175	150	49	125166555	125239025	-1	None	ATG24B
3	SNX4	ENSG00000114520	ENST00000482965	processed_transcript	KNOWN	None	11175	None	None	125167914	125179645	-1	None	ATG24B
3	SNX4	ENSG00000114520	ENST00000473417	processed_transcript	KNOWN	None	11175	None	None	125188288	125239035	-1	None	ATG24B
3	SNX4	ENSG00000114520	ENST00000465505	nonsense_mediated_decay	KNOWN	None	11175	468	155	125195539	125223588	-1	None	ATG24B
3	SNX4	ENSG00000114520	ENST00000536067	protein_coding	KNOWN	None	11175	918	305	125166555	125239025	-1	None	ATG24B
10	PGAM1	ENSG00000171314	ENST00000334828	protein_coding	KNOWN	CCDS7458	8888	765	254	99185917	99193198	1	PGAMA	PGAM-B
10	PGAM1	ENSG00000171314	ENST00000473929	processed_transcript	KNOWN	None	8888	None	None	99186050	99187200	1	PGAMA	PGAM-B
10	PGAM1	ENSG00000171314	ENST00000467867	processed_transcript	KNOWN	None	8888	None	None	99187291	99192447	1	PGAMA	PGAM-B
6	FOXO3	ENSG00000118689	ENST00000343882	protein_coding	KNOWN	CCDS5068	3821	2022	673	108881038	109005977	1	FKHRL1, FOXO3A	AF6q21, FOXO2
6	FOXO3	ENSG00000118689	ENST00000406360	protein_coding	KNOWN	CCDS5068	3821	2022	673	108882069	109005971	1	FKHRL1, FOXO3A	AF6q21, FOXO2
6	FOXO3	ENSG00000118689	ENST00000540898	protein_coding	KNOWN	None	3821	1362	453	108977549	109001954	1	FKHRL1, FOXO3A	AF6q21, FOXO2
2	HIBCH	ENSG00000198130	ENST00000399855	protein_coding	KNOWN	None	4908	116	37	191054461	191069958	-1	None	None
2	HIBCH	ENSG00000198130	ENST00000392332	protein_coding	KNOWN	CCDS46475	4908	1017	338	191068647	191184616	-1	None	None
2	HIBCH	ENSG00000198130	ENST00000359678	protein_coding	KNOWN	CCDS2304	4908	1161	386	191069360	191184771	-1	None	None
2	HIBCH	ENSG00000198130	ENST00000486981	processed_transcript	KNOWN	None	4908	None	None	191069361	191085176	-1	None	None
2	HIBCH	ENSG00000198130	ENST00000410045	protein_coding	PUTATIVE	None	4908	492	163	191069741	191115239	-1	None	None
2	HIBCH	ENSG00000198130	ENST00000416732	protein_coding	PUTATIVE	None	4908	360	119	191073402	191110941	-1	None	None
2	HIBCH	ENSG00000198130	ENST00000489147	retained_intron	KNOWN	None	4908	None	None	191073411	191080835	-1	None	None
2	HIBCH	ENSG00000198130	ENST00000409820	protein_coding	PUTATIVE	None	4908	385	127	191073606	191115229	-1	None	None
2	HIBCH	ENSG00000198130	ENST00000392333	nonsense_mediated_decay	KNOWN	None	4908	209	68	191109628	191155211	-1	None	None
2	HIBCH	ENSG00000198130	ENST00000485992	processed_transcript	KNOWN	None	4908	None	None	191110028	191145794	-1	None	None
2	HIBCH	ENSG00000198130	ENST00000414928	nonsense_mediated_decay	KNOWN	None	4908	159	52	191116218	191117022	-1	None	None
2	HIBCH	ENSG00000198130	ENST00000409934	protein_coding	PUTATIVE	None	4908	821	272	191116892	191208919	-1	None	None
2	HIBCH	ENSG00000198130	ENST00000489269	processed_transcript	KNOWN	None	4908	None	None	191116965	191145823	-1	None	None
2	HIBCH	ENSG00000198130	ENST00000495792	processed_transcript	KNOWN	None	4908	None	None	191125199	191145819	-1	None	None
1	LEFTY2	ENSG00000143768	ENST00000366820	protein_coding	KNOWN	CCDS1549	3122	1101	366	226124304	226129189	-1	TGFB4, EBAF	LEFTA, LEFTYA
1	LEFTY2	ENSG00000143768	ENST00000474493	processed_transcript	KNOWN	None	3122	None	None	226127132	226127801	-1	TGFB4, EBAF	LEFTA, LEFTYA
1	LEFTY2	ENSG00000143768	ENST00000420304	protein_coding	KNOWN	CCDS53479	3122	999	332	226124298	226129083	-1	TGFB4, EBAF	LEFTA, LEFTYA
7	None	ENSG00000249319	ENST00000450043	protein_coding	PUTATIVE	None	None	878	291	65552756	65617228	1	None	None
11	OR5D16	ENSG00000205029	ENST00000378396	protein_coding	KNOWN	CCDS31512	15283	987	328	55606228	55607214	1	None	None
15	GNB5	ENSG00000069966	ENST00000261837	protein_coding	KNOWN	CCDS10149	4401	1188	395	52413117	52483566	-1	None	GB5
15	GNB5	ENSG00000069966	ENST00000396335	protein_coding	KNOWN	None	4401	852	283	52413136	52472084	-1	None	GB5
15	GNB5	ENSG00000069966	ENST00000557936	retained_intron	KNOWN	None	4401	None	None	52413823	52420992	-1	None	GB5
15	GNB5	ENSG00000069966	ENST00000358784	protein_coding	KNOWN	CCDS45261	4401	1062	353	52414403	52472198	-1	None	GB5
15	GNB5	ENSG00000069966	ENST00000559348	processed_transcript	KNOWN	None	4401	None	None	52414406	52432152	-1	None	GB5
15	GNB5	ENSG00000069966	ENST00000560085	retained_intron	KNOWN	None	4401	None	None	52415756	52420470	-1	None	GB5
15	GNB5	ENSG00000069966	ENST00000558519	nonsense_mediated_decay	KNOWN	None	4401	312	103	52416670	52433408	-1	None	GB5
15	GNB5	ENSG00000069966	ENST00000559541	retained_intron	KNOWN	None	4401	None	None	52416736	52428044	-1	None	GB5
15	GNB5	ENSG00000069966	ENST00000561313	nonsense_mediated_decay	KNOWN	None	4401	303	100	52427886	52472170	-1	None	GB5
15	GNB5	ENSG00000069966	ENST00000558122	processed_transcript	PUTATIVE	None	4401	None	None	52433403	52436658	-1	None	GB5
15	GNB5	ENSG00000069966	ENST00000560075	retained_intron	KNOWN	None	4401	None	None	52439364	52483531	-1	None	GB5
15	GNB5	ENSG00000069966	ENST00000560116	protein_coding	PUTATIVE	None	4401	381	126	52441475	52472097	-1	None	GB5
12	HPD	ENSG00000158104	ENST00000289004	protein_coding	KNOWN	CCDS9224	5147	1182	393	122277433	122296765	-1	PPD	4-HPPD, 4HPPD, GLOD3
12	HPD	ENSG00000158104	ENST00000543163	protein_coding	PUTATIVE	CCDS53839	5147	1065	354	122277436	122301502	-1	PPD	4-HPPD, 4HPPD, GLOD3
12	HPD	ENSG00000158104	ENST00000543869	processed_transcript	KNOWN	None	5147	None	None	122284768	122287697	-1	PPD	4-HPPD, 4HPPD, GLOD3
12	HPD	ENSG00000158104	ENST00000542159	retained_intron	KNOWN	None	5147	None	None	122286896	122295489	-1	PPD	4-HPPD, 4HPPD, GLOD3
12	HPD	ENSG00000158104	ENST00000535114	retained_intron	KNOWN	None	5147	None	None	122294504	122296761	-1	PPD	4-HPPD, 4HPPD, GLOD3
11	TRIM51	ENSG00000124900	ENST00000449290	protein_coding	KNOWN	None	19023	1359	452	55650773	55659286	1	SPRYD5	TRIM51A
11	TRIM51	ENSG00000124900	ENST00000244891	protein_coding	PUTATIVE	None	19023	930	309	55653396	55659286	1	SPRYD5	TRIM51A
12	THAP2	ENSG00000173451	ENST00000308086	protein_coding	KNOWN	CCDS9001	20854	687	228	72056789	72074419	1	None	DKFZP564I0422
12	THAP2	ENSG00000173451	ENST00000547843	protein_coding	PUTATIVE	None	20854	159	52	72058261	72059220	1	None	DKFZP564I0422
12	THAP2	ENSG00000173451	ENST00000551488	protein_coding	PUTATIVE	None	20854	331	109	72059407	72070748	1	None	DKFZP564I0422
12	THAP2	ENSG00000173451	ENST00000551238	protein_coding	PUTATIVE	None	20854	304	100	72061563	72070721	1	None	DKFZP564I0422
7	GPR141	ENSG00000187037	ENST00000461610	processed_transcript	KNOWN	None	19997	None	None	37723399	37873390	1	None	PGR13
7	GPR141	ENSG00000187037	ENST00000450180	protein_coding	KNOWN	None	19997	312	103	37723400	37780307	1	None	PGR13
7	GPR141	ENSG00000187037	ENST00000467202	processed_transcript	KNOWN	None	19997	None	None	37723469	37753112	1	None	PGR13
7	GPR141	ENSG00000187037	ENST00000447769	protein_coding	KNOWN	CCDS5451	19997	918	305	37723475	37780976	1	None	PGR13
7	GPR141	ENSG00000187037	ENST00000334425	protein_coding	KNOWN	CCDS5451	19997	918	305	37779996	37780913	1	None	PGR13
1	SDE2	ENSG00000143751	ENST00000272091	protein_coding	KNOWN	CCDS41473	26643	1356	451	226170403	226187032	-1	C1orf55	FLJ35382
1	SDE2	ENSG00000143751	ENST00000366817	protein_coding	KNOWN	None	26643	1071	356	226172889	226187023	-1	C1orf55	FLJ35382
19	OVOL3	ENSG00000105261	ENST00000585332	protein_coding	KNOWN	None	14186	555	184	36602104	36604560	1	None	None
19	OVOL3	ENSG00000105261	ENST00000586670	protein_coding	PUTATIVE	None	14186	324	107	36603662	36604613	1	None	None
19	OVOL3	ENSG00000105261	ENST00000262637	protein_coding	KNOWN	None	14186	756	251	36602105	36604613	1	None	None
15	SPRED1	ENSG00000166068	ENST00000299084	protein_coding	KNOWN	CCDS32193	20249	1335	444	38544527	38649450	1	None	FLJ33903
15	SPRED1	ENSG00000166068	ENST00000561205	processed_transcript	KNOWN	None	20249	None	None	38545049	38618564	1	None	FLJ33903
15	SPRED1	ENSG00000166068	ENST00000561317	protein_coding	PUTATIVE	None	20249	395	130	38545382	38631972	1	None	FLJ33903
11	OR5W2	ENSG00000187612	ENST00000344514	protein_coding	KNOWN	CCDS31513	15299	933	310	55681126	55682058	-1	OR5W2P, OR5W3P	None
7	EPDR1	ENSG00000086289	ENST00000476620	protein_coding	PUTATIVE	None	17572	369	122	37723446	37990014	1	None	MERP-1, MERP1, UCC1, EPDR
7	EPDR1	ENSG00000086289	ENST00000199448	protein_coding	KNOWN	CCDS5454	17572	675	224	37960163	37991543	1	None	MERP-1, MERP1, UCC1, EPDR
7	EPDR1	ENSG00000086289	ENST00000423717	protein_coding	PUTATIVE	CCDS59051	17572	273	90	37960260	37989888	1	None	MERP-1, MERP1, UCC1, EPDR
7	EPDR1	ENSG00000086289	ENST00000425345	protein_coding	PUTATIVE	CCDS59052	17572	492	163	37960922	37990407	1	None	MERP-1, MERP1, UCC1, EPDR
7	EPDR1	ENSG00000086289	ENST00000559325	protein_coding	KNOWN	None	17572	1035	344	37960163	37991540	1	None	MERP-1, MERP1, UCC1, EPDR
7	CRCP	ENSG00000241258	ENST00000360415	nonsense_mediated_decay	KNOWN	None	17888	129	42	65579591	65619555	1	None	CGRP-RCP, RCP, RCP9
7	CRCP	ENSG00000241258	ENST00000395326	protein_coding	KNOWN	CCDS5532	17888	447	148	65579592	65619548	1	None	CGRP-RCP, RCP, RCP9
7	CRCP	ENSG00000241258	ENST00000431089	protein_coding	PUTATIVE	CCDS55116	17888	426	141	65579813	65617857	1	None	CGRP-RCP, RCP, RCP9
7	CRCP	ENSG00000241258	ENST00000398684	protein_coding	KNOWN	CCDS47600	17888	216	71	65579828	65617498	1	None	CGRP-RCP, RCP, RCP9
7	CRCP	ENSG00000241258	ENST00000338592	protein_coding	KNOWN	CCDS47599	17888	348	115	65579837	65618276	1	None	CGRP-RCP, RCP, RCP9
7	CRCP	ENSG00000241258	ENST00000486848	retained_intron	KNOWN	None	17888	None	None	65579846	65599476	1	None	CGRP-RCP, RCP, RCP9
7	CRCP	ENSG00000241258	ENST00000492264	processed_transcript	PUTATIVE	None	17888	None	None	65615650	65617639	1	None	CGRP-RCP, RCP, RCP9
7	CRCP	ENSG00000241258	ENST00000415001	protein_coding	KNOWN	None	17888	348	115	65591623	65619551	1	None	CGRP-RCP, RCP, RCP9
11	OR5I1	ENSG00000167825	ENST00000301532	protein_coding	KNOWN	CCDS7949	8347	945	314	55702932	55703876	-1	None	HSOlf1, OLF1
14	DLST	ENSG00000119689	ENST00000556460	nonsense_mediated_decay	KNOWN	None	2911	315	104	75348594	75359650	1	DLTS	None
14	DLST	ENSG00000119689	ENST00000334220	protein_coding	KNOWN	CCDS9833	2911	1362	453	75348596	75370448	1	DLTS	None
14	DLST	ENSG00000119689	ENST00000555492	nonsense_mediated_decay	KNOWN	None	2911	333	110	75348606	75359646	1	DLTS	None
14	DLST	ENSG00000119689	ENST00000557012	retained_intron	KNOWN	None	2911	None	None	75348617	75356436	1	DLTS	None
14	DLST	ENSG00000119689	ENST00000554612	nonsense_mediated_decay	KNOWN	None	2911	114	37	75348618	75369254	1	DLTS	None
14	DLST	ENSG00000119689	ENST00000556582	retained_intron	KNOWN	None	2911	None	None	75348619	75357992	1	DLTS	None
14	DLST	ENSG00000119689	ENST00000238671	nonsense_mediated_decay	KNOWN	None	2911	204	67	75348619	75369155	1	DLTS	None
14	DLST	ENSG00000119689	ENST00000555071	retained_intron	KNOWN	None	2911	None	None	75348625	75358761	1	DLTS	None
14	DLST	ENSG00000119689	ENST00000556190	retained_intron	KNOWN	None	2911	None	None	75348628	75352727	1	DLTS	None
14	DLST	ENSG00000119689	ENST00000555459	retained_intron	KNOWN	None	2911	None	None	75348628	75358053	1	DLTS	None
14	DLST	ENSG00000119689	ENST00000555190	processed_transcript	KNOWN	None	2911	None	None	75348628	75365158	1	DLTS	None
14	DLST	ENSG00000119689	ENST00000555089	nonsense_mediated_decay	KNOWN	None	2911	252	83	75348644	75367893	1	DLTS	None
14	DLST	ENSG00000119689	ENST00000554806	protein_coding	NOVEL	None	2911	837	278	75348659	75365189	1	DLTS	None
14	DLST	ENSG00000119689	ENST00000555988	nonsense_mediated_decay	KNOWN	None	2911	224	73	75352289	75361112	1	DLTS	None
14	DLST	ENSG00000119689	ENST00000550473	retained_intron	KNOWN	None	2911	None	None	75355772	75356372	1	DLTS	None
14	DLST	ENSG00000119689	ENST00000334212	protein_coding	KNOWN	None	2911	1104	367	75348618	75369254	1	DLTS	None
11	OR10AG1	ENSG00000174970	ENST00000312345	protein_coding	KNOWN	CCDS31514	19607	906	301	55734975	55735990	-1	None	None
X	FAM3A	ENSG00000071889	ENST00000359889	protein_coding	KNOWN	CCDS35453	13749	693	230	153734490	153744560	-1	None	DXS560S, 2-19, XAP-7
X	FAM3A	ENSG00000071889	ENST00000369643	protein_coding	KNOWN	CCDS35453	13749	693	230	153734502	153744440	-1	None	DXS560S, 2-19, XAP-7
X	FAM3A	ENSG00000071889	ENST00000447601	protein_coding	KNOWN	CCDS35453	13749	693	230	153734502	153744563	-1	None	DXS560S, 2-19, XAP-7
X	FAM3A	ENSG00000071889	ENST00000322269	nonsense_mediated_decay	KNOWN	None	13749	213	70	153734502	153744566	-1	None	DXS560S, 2-19, XAP-7
X	FAM3A	ENSG00000071889	ENST00000469041	retained_intron	KNOWN	None	13749	None	None	153734504	153739745	-1	None	DXS560S, 2-19, XAP-7
X	FAM3A	ENSG00000071889	ENST00000419205	nonsense_mediated_decay	KNOWN	None	13749	213	70	153734535	153744566	-1	None	DXS560S, 2-19, XAP-7
X	FAM3A	ENSG00000071889	ENST00000369641	protein_coding	NOVEL	None	13749	714	237	153734866	153744562	-1	None	DXS560S, 2-19, XAP-7
X	FAM3A	ENSG00000071889	ENST00000393572	protein_coding	NOVEL	CCDS55542	13749	579	192	153734971	153744484	-1	None	DXS560S, 2-19, XAP-7
X	FAM3A	ENSG00000071889	ENST00000475657	retained_intron	KNOWN	None	13749	None	None	153735042	153735922	-1	None	DXS560S, 2-19, XAP-7
X	FAM3A	ENSG00000071889	ENST00000449971	nonsense_mediated_decay	KNOWN	None	13749	213	70	153735534	153744554	-1	None	DXS560S, 2-19, XAP-7
X	FAM3A	ENSG00000071889	ENST00000416319	nonsense_mediated_decay	KNOWN	None	13749	234	77	153735578	153744539	-1	None	DXS560S, 2-19, XAP-7
X	FAM3A	ENSG00000071889	ENST00000426266	protein_coding	NOVEL	None	13749	491	162	153735737	153744541	-1	None	DXS560S, 2-19, XAP-7
X	FAM3A	ENSG00000071889	ENST00000440318	nonsense_mediated_decay	KNOWN	None	13749	156	51	153736011	153744145	-1	None	DXS560S, 2-19, XAP-7
X	FAM3A	ENSG00000071889	ENST00000457212	nonsense_mediated_decay	KNOWN	None	13749	162	53	153736142	153744561	-1	None	DXS560S, 2-19, XAP-7
X	FAM3A	ENSG00000071889	ENST00000412894	nonsense_mediated_decay	KNOWN	None	13749	120	39	153736620	153744494	-1	None	DXS560S, 2-19, XAP-7
X	FAM3A	ENSG00000071889	ENST00000421517	nonsense_mediated_decay	KNOWN	None	13749	213	70	153736647	153744489	-1	None	DXS560S, 2-19, XAP-7
X	FAM3A	ENSG00000071889	ENST00000497506	processed_transcript	PUTATIVE	None	13749	None	None	153736784	153744482	-1	None	DXS560S, 2-19, XAP-7
X	FAM3A	ENSG00000071889	ENST00000442929	protein_coding	NOVEL	None	13749	63	20	153736903	153744533	-1	None	DXS560S, 2-19, XAP-7
X	FAM3A	ENSG00000071889	ENST00000492763	processed_transcript	KNOWN	None	13749	None	None	153737100	153744489	-1	None	DXS560S, 2-19, XAP-7
X	FAM3A	ENSG00000071889	ENST00000433619	nonsense_mediated_decay	KNOWN	None	13749	213	70	153740201	153744553	-1	None	DXS560S, 2-19, XAP-7
X	FAM3A	ENSG00000071889	ENST00000434658	protein_coding	KNOWN	CCDS55543	13749	642	213	153733350	153744566	-1	None	DXS560S, 2-19, XAP-7
1	H3F3A	ENSG00000163041	ENST00000366816	protein_coding	KNOWN	CCDS1550	4764	411	136	226249552	226259224	1	H3F3	H3.3A
1	H3F3A	ENSG00000163041	ENST00000366815	protein_coding	KNOWN	CCDS1550	4764	411	136	226250379	226259700	1	H3F3	H3.3A
1	H3F3A	ENSG00000163041	ENST00000366814	protein_coding	KNOWN	None	4764	372	123	226250415	226254970	1	H3F3	H3.3A
1	H3F3A	ENSG00000163041	ENST00000366813	protein_coding	KNOWN	CCDS1550	4764	411	136	226251678	226259702	1	H3F3	H3.3A
7	None	ENSG00000229380	ENST00000453149	antisense	KNOWN	None	None	None	None	601595	605256	1	None	None
7	None	ENSG00000237181	ENST00000429872	antisense	KNOWN	None	None	None	None	642822	648119	1	None	None
14	RPL10L	ENSG00000165496	ENST00000298283	protein_coding	KNOWN	CCDS32071	17976	645	214	47120222	47121028	-1	None	None
7	MIR339	ENSG00000199023	ENST00000362153	miRNA	KNOWN	None	31776	None	None	1062569	1062662	-1	MIRN339	hsa-mir-339
7	None	ENSG00000225146	ENST00000418941	antisense	KNOWN	None	None	None	None	1068661	1083527	1	None	None
7	None	ENSG00000257607	ENST00000549241	antisense	KNOWN	None	None	None	None	1094996	1098897	-1	None	None
19	POLR2I	ENSG00000105258	ENST00000589591	retained_intron	KNOWN	None	9196	None	None	36604612	36605793	-1	None	RPB9, hRPB14.5
19	POLR2I	ENSG00000105258	ENST00000221859	protein_coding	KNOWN	CCDS12487	9196	378	125	36604612	36606248	-1	None	RPB9, hRPB14.5
19	POLR2I	ENSG00000105258	ENST00000585842	nonsense_mediated_decay	KNOWN	None	9196	141	46	36604616	36605762	-1	None	RPB9, hRPB14.5
19	POLR2I	ENSG00000105258	ENST00000592962	nonsense_mediated_decay	KNOWN	None	9196	267	88	36604618	36605808	-1	None	RPB9, hRPB14.5
19	POLR2I	ENSG00000105258	ENST00000586789	retained_intron	KNOWN	None	9196	None	None	36604625	36606095	-1	None	RPB9, hRPB14.5
19	POLR2I	ENSG00000105258	ENST00000586439	nonsense_mediated_decay	KNOWN	None	9196	174	57	36604626	36606115	-1	None	RPB9, hRPB14.5
19	POLR2I	ENSG00000105258	ENST00000589069	retained_intron	KNOWN	None	9196	None	None	36605093	36605761	-1	None	RPB9, hRPB14.5
X	AFF2	ENSG00000155966	ENST00000370460	protein_coding	KNOWN	CCDS14684	3776	3936	1311	147582139	148082193	1	FMR2	FRAXE
X	AFF2	ENSG00000155966	ENST00000342251	protein_coding	KNOWN	None	3776	3837	1278	147582228	148075954	1	FMR2	FRAXE
X	AFF2	ENSG00000155966	ENST00000370458	protein_coding	KNOWN	None	3776	1284	427	147582529	147985907	1	FMR2	FRAXE
X	AFF2	ENSG00000155966	ENST00000370457	protein_coding	KNOWN	CCDS55520	3776	3831	1276	147582139	148082193	1	FMR2	FRAXE
X	AFF2	ENSG00000155966	ENST00000286437	protein_coding	KNOWN	CCDS55521	3776	2859	952	147800615	148082193	1	FMR2	FRAXE
7	None	ENSG00000224079	ENST00000449721	antisense	KNOWN	None	None	None	None	1114086	1117672	1	None	None
7	None	ENSG00000226291	ENST00000415656	antisense	KNOWN	None	None	None	None	1120499	1121814	1	None	None
7	None	ENSG00000229043	ENST00000423008	antisense	KNOWN	None	None	None	None	1200010	1204903	1	None	None
7	None	ENSG00000229043	ENST00000422230	antisense	KNOWN	None	None	None	None	1200130	1204211	1	None	None
7	None	ENSG00000229043	ENST00000413706	antisense	KNOWN	None	None	None	None	1200227	1203127	1	None	None
11	SCGB1A1	ENSG00000149021	ENST00000534397	protein_coding	PUTATIVE	None	12523	171	56	62172575	62190667	1	UGB	CC10, CCSP, CC16
11	SCGB1A1	ENSG00000149021	ENST00000278282	protein_coding	KNOWN	CCDS8020	12523	276	91	62186507	62190667	1	UGB	CC10, CCSP, CC16
7	None	ENSG00000233082	ENST00000453798	lincRNA	KNOWN	None	None	None	None	1306989	1308903	1	None	None
11	OR10D3	ENSG00000197309	ENST00000318666	protein_coding	KNOWN	None	8168	939	312	124055923	124056952	1	OR10D3P	HTPCRX09
11	OR5F1	ENSG00000149133	ENST00000278409	protein_coding	KNOWN	CCDS31515	8343	945	314	55761157	55762101	-1	None	OR11-10
7	None	ENSG00000225981	ENST00000445345	antisense	KNOWN	None	None	None	None	1499573	1503644	1	None	None
7	None	ENSG00000231927	ENST00000416100	antisense	KNOWN	None	None	None	None	1548291	1549063	-1	None	None
1	ACBD3	ENSG00000182827	ENST00000366812	protein_coding	KNOWN	CCDS1551	15453	1587	528	226332380	226374431	-1	GOLPH1, GOCAP1	GCP60, PAP7
1	ACBD3	ENSG00000182827	ENST00000464927	processed_transcript	KNOWN	None	15453	None	None	226342343	226349333	-1	GOLPH1, GOCAP1	GCP60, PAP7
11	OR5AS1	ENSG00000181785	ENST00000313555	protein_coding	KNOWN	CCDS31516	15261	975	324	55797895	55798869	1	None	None
11	OR8D1	ENSG00000196341	ENST00000357821	protein_coding	KNOWN	CCDS31706	8481	927	308	124179708	124180733	-1	OR8D3	OST004
11	OR8I2	ENSG00000172154	ENST00000560768	protein_coding	PUTATIVE	None	15310	553	183	55860784	55861716	1	None	None
11	OR8I2	ENSG00000172154	ENST00000302124	protein_coding	KNOWN	CCDS31517	15310	933	310	55860753	55861762	1	None	None
1	TPM3	ENSG00000143549	ENST00000368533	protein_coding	KNOWN	CCDS1060	12012	747	248	154127784	154155648	-1	NEM1	TRK
1	TPM3	ENSG00000143549	ENST00000368545	retained_intron	KNOWN	None	12012	None	None	154128833	154145153	-1	NEM1	TRK
1	TPM3	ENSG00000143549	ENST00000469717	processed_transcript	KNOWN	None	12012	None	None	154128835	154155623	-1	NEM1	TRK
1	TPM3	ENSG00000143549	ENST00000330188	protein_coding	KNOWN	CCDS41400	12012	747	248	154128840	154155681	-1	NEM1	TRK
1	TPM3	ENSG00000143549	ENST00000341485	protein_coding	NOVEL	None	12012	699	232	154128840	154155684	-1	NEM1	TRK
1	TPM3	ENSG00000143549	ENST00000341372	protein_coding	NOVEL	None	12012	672	223	154128842	154155657	-1	NEM1	TRK
1	TPM3	ENSG00000143549	ENST00000328159	protein_coding	NOVEL	None	12012	747	248	154129170	154155595	-1	NEM1	TRK
1	TPM3	ENSG00000143549	ENST00000509409	nonsense_mediated_decay	KNOWN	None	12012	150	49	154129588	154155703	-1	NEM1	TRK
1	TPM3	ENSG00000143549	ENST00000271850	protein_coding	NOVEL	None	12012	858	285	154129794	154164534	-1	NEM1	TRK
1	TPM3	ENSG00000143549	ENST00000312970	processed_transcript	KNOWN	None	12012	None	None	154130002	154155554	-1	NEM1	TRK
1	TPM3	ENSG00000143549	ENST00000513769	retained_intron	KNOWN	None	12012	None	None	154130008	154143482	-1	NEM1	TRK
1	TPM3	ENSG00000143549	ENST00000302206	protein_coding	PUTATIVE	None	12012	477	158	154130059	154150659	-1	NEM1	TRK
1	TPM3	ENSG00000143549	ENST00000368531	protein_coding	KNOWN	CCDS41402	12012	744	247	154131085	154155606	-1	NEM1	TRK
1	TPM3	ENSG00000143549	ENST00000323144	protein_coding	KNOWN	CCDS41401	12012	744	247	154131146	154155640	-1	NEM1	TRK
1	TPM3	ENSG00000143549	ENST00000368530	protein_coding	KNOWN	CCDS41403	12012	858	285	154139941	154164687	-1	NEM1	TRK
1	TPM3	ENSG00000143549	ENST00000504663	retained_intron	KNOWN	None	12012	None	None	154142128	154143176	-1	NEM1	TRK
1	TPM3	ENSG00000143549	ENST00000509601	nonsense_mediated_decay	KNOWN	None	12012	288	95	154142884	154155684	-1	NEM1	TRK
1	TPM3	ENSG00000143549	ENST00000505010	retained_intron	KNOWN	None	12012	None	None	154144358	154148718	-1	NEM1	TRK
1	TPM3	ENSG00000143549	ENST00000368527	processed_transcript	KNOWN	None	12012	None	None	154144543	154156292	-1	NEM1	TRK
1	TPM3	ENSG00000143549	ENST00000473036	retained_intron	KNOWN	None	12012	None	None	154145148	154155650	-1	NEM1	TRK
1	TPM3	ENSG00000143549	ENST00000466010	processed_transcript	KNOWN	None	12012	None	None	154159736	154164424	-1	NEM1	TRK
1	TPM3	ENSG00000143549	ENST00000515609	protein_coding	KNOWN	None	12012	226	74	154163679	154167124	-1	NEM1	TRK
1	MIXL1	ENSG00000185155	ENST00000542034	protein_coding	PUTATIVE	None	13363	723	240	226411319	226413565	1	None	MILD1, MIXL
1	MIXL1	ENSG00000185155	ENST00000366810	protein_coding	KNOWN	CCDS1552	13363	699	232	226411319	226414755	1	None	MILD1, MIXL
1	MIXL1	ENSG00000185155	ENST00000557734	processed_transcript	PUTATIVE	None	13363	None	None	226413204	226414090	1	None	MILD1, MIXL
2	INPP1	ENSG00000151689	ENST00000322522	protein_coding	KNOWN	CCDS2305	6071	1200	399	191208296	191236391	1	None	None
2	INPP1	ENSG00000151689	ENST00000430311	protein_coding	KNOWN	None	6071	29	8	191208373	191224857	1	None	None
2	INPP1	ENSG00000151689	ENST00000413239	protein_coding	KNOWN	None	6071	265	87	191208601	191227413	1	None	None
2	INPP1	ENSG00000151689	ENST00000431594	protein_coding	KNOWN	None	6071	641	212	191208634	191234003	1	None	None
2	INPP1	ENSG00000151689	ENST00000444194	protein_coding	KNOWN	None	6071	572	189	191208644	191233934	1	None	None
2	INPP1	ENSG00000151689	ENST00000422454	processed_transcript	KNOWN	None	6071	None	None	191208656	191229878	1	None	None
2	INPP1	ENSG00000151689	ENST00000417336	processed_transcript	KNOWN	None	6071	None	None	191208656	191231456	1	None	None
2	INPP1	ENSG00000151689	ENST00000458647	protein_coding	KNOWN	None	6071	429	142	191208668	191231584	1	None	None
2	INPP1	ENSG00000151689	ENST00000423767	protein_coding	KNOWN	None	6071	636	211	191208805	191233998	1	None	None
2	INPP1	ENSG00000151689	ENST00000451089	protein_coding	KNOWN	None	6071	91	29	191208890	191224919	1	None	None
2	INPP1	ENSG00000151689	ENST00000409027	protein_coding	KNOWN	None	6071	466	154	191221243	191231621	1	None	None
2	INPP1	ENSG00000151689	ENST00000458193	protein_coding	KNOWN	None	6071	204	67	191221262	191225032	1	None	None
2	INPP1	ENSG00000151689	ENST00000487628	retained_intron	KNOWN	None	6071	None	None	191224744	191227733	1	None	None
2	INPP1	ENSG00000151689	ENST00000470892	retained_intron	KNOWN	None	6071	None	None	191233370	191235767	1	None	None
2	INPP1	ENSG00000151689	ENST00000392329	protein_coding	KNOWN	CCDS2305	6071	1200	399	191208196	191236390	1	None	None
2	INPP1	ENSG00000151689	ENST00000541441	protein_coding	KNOWN	CCDS2305	6071	1200	399	191208418	191236310	1	None	None
2	DYSF	ENSG00000135636	ENST00000409762	protein_coding	NOVEL	CCDS46325	3097	6294	2097	71680852	71913778	1	LGMD2B	FER1L1
2	DYSF	ENSG00000135636	ENST00000409582	protein_coding	NOVEL	CCDS46324	3097	6357	2118	71680852	71913778	1	LGMD2B	FER1L1
2	DYSF	ENSG00000135636	ENST00000429174	protein_coding	KNOWN	CCDS46326	3097	6306	2101	71680852	71913778	1	LGMD2B	FER1L1
2	DYSF	ENSG00000135636	ENST00000413539	protein_coding	KNOWN	CCDS46323	3097	6336	2111	71680852	71913778	1	LGMD2B	FER1L1
2	DYSF	ENSG00000135636	ENST00000258104	protein_coding	KNOWN	CCDS1918	3097	6243	2080	71680852	71913898	1	LGMD2B	FER1L1
2	DYSF	ENSG00000135636	ENST00000409651	protein_coding	NOVEL	CCDS46327	3097	6339	2112	71693832	71913778	1	LGMD2B	FER1L1
2	DYSF	ENSG00000135636	ENST00000394120	protein_coding	KNOWN	CCDS46331	3097	6246	2081	71693832	71913778	1	LGMD2B	FER1L1
2	DYSF	ENSG00000135636	ENST00000409744	protein_coding	NOVEL	CCDS46332	3097	6267	2088	71693832	71913778	1	LGMD2B	FER1L1
2	DYSF	ENSG00000135636	ENST00000409366	protein_coding	NOVEL	CCDS46330	3097	6309	2102	71693832	71913778	1	LGMD2B	FER1L1
2	DYSF	ENSG00000135636	ENST00000410020	protein_coding	NOVEL	CCDS46328	3097	6360	2119	71693832	71913778	1	LGMD2B	FER1L1
2	DYSF	ENSG00000135636	ENST00000410041	protein_coding	NOVEL	CCDS46329	3097	6297	2098	71693832	71913778	1	LGMD2B	FER1L1
2	DYSF	ENSG00000135636	ENST00000461565	processed_transcript	KNOWN	None	3097	None	None	71797268	71798046	1	LGMD2B	FER1L1
2	DYSF	ENSG00000135636	ENST00000475076	processed_transcript	KNOWN	None	3097	None	None	71803398	71827970	1	LGMD2B	FER1L1
2	DYSF	ENSG00000135636	ENST00000479049	processed_transcript	KNOWN	None	3097	None	None	71804029	71913893	1	LGMD2B	FER1L1
2	DYSF	ENSG00000135636	ENST00000493767	processed_transcript	KNOWN	None	3097	None	None	71815835	71827972	1	LGMD2B	FER1L1
2	DYSF	ENSG00000135636	ENST00000472873	processed_transcript	KNOWN	None	3097	None	None	71828402	71839819	1	LGMD2B	FER1L1
2	DYSF	ENSG00000135636	ENST00000494501	processed_transcript	KNOWN	None	3097	None	None	71828426	71839843	1	LGMD2B	FER1L1
2	DYSF	ENSG00000135636	ENST00000487180	processed_transcript	KNOWN	None	3097	None	None	71829814	71840506	1	LGMD2B	FER1L1
2	DYSF	ENSG00000135636	ENST00000468173	processed_transcript	KNOWN	None	3097	None	None	71837909	71871163	1	LGMD2B	FER1L1
19	FUZ	ENSG00000010361	ENST00000525130	nonsense_mediated_decay	KNOWN	None	26219	261	86	50310126	50316447	-1	None	FLJ22688, Fy
19	FUZ	ENSG00000010361	ENST00000529634	protein_coding	PUTATIVE	None	26219	170	55	50310142	50311896	-1	None	FLJ22688, Fy
19	FUZ	ENSG00000010361	ENST00000528094	protein_coding	KNOWN	CCDS54293	26219	1149	382	50310147	50316432	-1	None	FLJ22688, Fy
19	FUZ	ENSG00000010361	ENST00000533418	protein_coding	PUTATIVE	None	26219	1107	368	50310147	50316506	-1	None	FLJ22688, Fy
19	FUZ	ENSG00000010361	ENST00000525370	nonsense_mediated_decay	KNOWN	None	26219	261	86	50310150	50316413	-1	None	FLJ22688, Fy
19	FUZ	ENSG00000010361	ENST00000313777	protein_coding	KNOWN	CCDS12781	26219	1257	418	50310154	50316527	-1	None	FLJ22688, Fy
19	FUZ	ENSG00000010361	ENST00000377092	nonsense_mediated_decay	KNOWN	None	26219	237	78	50310177	50316530	-1	None	FLJ22688, Fy
19	FUZ	ENSG00000010361	ENST00000534138	retained_intron	KNOWN	None	26219	None	None	50311380	50312082	-1	None	FLJ22688, Fy
19	FUZ	ENSG00000010361	ENST00000527973	processed_transcript	KNOWN	None	26219	None	None	50311876	50313122	-1	None	FLJ22688, Fy
19	FUZ	ENSG00000010361	ENST00000528043	nonsense_mediated_decay	KNOWN	None	26219	261	86	50312652	50316506	-1	None	FLJ22688, Fy
19	FUZ	ENSG00000010361	ENST00000531017	retained_intron	KNOWN	None	26219	None	None	50314293	50316566	-1	None	FLJ22688, Fy
19	FUZ	ENSG00000010361	ENST00000527585	nonsense_mediated_decay	KNOWN	None	26219	138	45	50314620	50316543	-1	None	FLJ22688, Fy
19	FUZ	ENSG00000010361	ENST00000534008	processed_transcript	KNOWN	None	26219	None	None	50314622	50316498	-1	None	FLJ22688, Fy
19	FUZ	ENSG00000010361	ENST00000529302	protein_coding	PUTATIVE	None	26219	174	57	50314638	50320633	-1	None	FLJ22688, Fy
19	FUZ	ENSG00000010361	ENST00000526575	protein_coding	PUTATIVE	None	26219	261	86	50314641	50316435	-1	None	FLJ22688, Fy
19	FUZ	ENSG00000010361	ENST00000525800	nonsense_mediated_decay	KNOWN	None	26219	138	45	50314688	50316492	-1	None	FLJ22688, Fy
19	FUZ	ENSG00000010361	ENST00000527111	nonsense_mediated_decay	KNOWN	None	26219	288	95	50314955	50316556	-1	None	FLJ22688, Fy
19	FUZ	ENSG00000010361	ENST00000526435	nonsense_mediated_decay	KNOWN	None	26219	237	78	50315537	50316541	-1	None	FLJ22688, Fy
19	FUZ	ENSG00000010361	ENST00000445575	protein_coding	KNOWN	None	26219	1164	387	50310338	50316567	-1	None	FLJ22688, Fy
6	ARMC2	ENSG00000118690	ENST00000392644	protein_coding	KNOWN	CCDS5069	23045	2604	867	109169625	109295186	1	None	DKFZp434P0714, bA787I22.1
6	ARMC2	ENSG00000118690	ENST00000237512	protein_coding	KNOWN	None	23045	668	221	109169900	109197550	1	None	DKFZp434P0714, bA787I22.1
6	ARMC2	ENSG00000118690	ENST00000414610	protein_coding	PUTATIVE	None	23045	257	84	109190181	109201459	1	None	DKFZp434P0714, bA787I22.1
6	ARMC2	ENSG00000118690	ENST00000481850	processed_transcript	KNOWN	None	23045	None	None	109280663	109286320	1	None	DKFZp434P0714, bA787I22.1
6	ARMC2	ENSG00000118690	ENST00000368972	protein_coding	KNOWN	None	23045	2109	702	109169619	109294985	1	None	DKFZp434P0714, bA787I22.1
6	FILIP1	ENSG00000118407	ENST00000393004	protein_coding	KNOWN	None	21015	3534	1177	76001575	76203345	-1	None	FILIP, KIAA1275
6	FILIP1	ENSG00000118407	ENST00000237172	protein_coding	KNOWN	CCDS4984	21015	3642	1213	76017800	76203454	-1	None	FILIP, KIAA1275
6	FILIP1	ENSG00000118407	ENST00000498523	processed_transcript	KNOWN	None	21015	None	None	76017804	76044506	-1	None	FILIP, KIAA1275
6	FILIP1	ENSG00000118407	ENST00000370020	protein_coding	PUTATIVE	None	21015	3345	1114	76017808	76072719	-1	None	FILIP, KIAA1275
5	WDR41	ENSG00000164253	ENST00000514878	processed_transcript	PUTATIVE	None	25601	None	None	76721795	76728780	-1	None	FLJ10904
5	WDR41	ENSG00000164253	ENST00000512033	processed_transcript	PUTATIVE	None	25601	None	None	76722477	76732104	-1	None	FLJ10904
5	WDR41	ENSG00000164253	ENST00000508154	processed_transcript	PUTATIVE	None	25601	None	None	76722479	76728984	-1	None	FLJ10904
5	WDR41	ENSG00000164253	ENST00000296679	protein_coding	KNOWN	CCDS4038	25601	1380	459	76726758	76788421	-1	None	FLJ10904
5	WDR41	ENSG00000164253	ENST00000502528	retained_intron	KNOWN	None	25601	None	None	76728069	76748698	-1	None	FLJ10904
5	WDR41	ENSG00000164253	ENST00000515253	protein_coding	NOVEL	None	25601	1185	394	76728638	76788024	-1	None	FLJ10904
5	WDR41	ENSG00000164253	ENST00000507029	protein_coding	NOVEL	None	25601	1215	404	76728718	76788141	-1	None	FLJ10904
5	WDR41	ENSG00000164253	ENST00000511630	protein_coding	PUTATIVE	None	25601	491	162	76732185	76747178	-1	None	FLJ10904
5	WDR41	ENSG00000164253	ENST00000507654	protein_coding	PUTATIVE	None	25601	422	139	76732204	76788028	-1	None	FLJ10904
5	WDR41	ENSG00000164253	ENST00000509701	nonsense_mediated_decay	KNOWN	None	25601	531	176	76733232	76788045	-1	None	FLJ10904
5	WDR41	ENSG00000164253	ENST00000511791	protein_coding	NOVEL	None	25601	362	119	76734083	76788112	-1	None	FLJ10904
5	WDR41	ENSG00000164253	ENST00000505129	nonsense_mediated_decay	KNOWN	None	25601	474	157	76736642	76788321	-1	None	FLJ10904
5	WDR41	ENSG00000164253	ENST00000506307	nonsense_mediated_decay	KNOWN	None	25601	456	151	76736756	76788048	-1	None	FLJ10904
5	WDR41	ENSG00000164253	ENST00000507452	processed_transcript	KNOWN	None	25601	None	None	76745590	76788040	-1	None	FLJ10904
5	WDR41	ENSG00000164253	ENST00000509892	nonsense_mediated_decay	KNOWN	None	25601	181	59	76745629	76788040	-1	None	FLJ10904
5	WDR41	ENSG00000164253	ENST00000515321	processed_transcript	KNOWN	None	25601	None	None	76745640	76788046	-1	None	FLJ10904
5	WDR41	ENSG00000164253	ENST00000513417	nonsense_mediated_decay	KNOWN	None	25601	186	61	76745656	76788045	-1	None	FLJ10904
5	WDR41	ENSG00000164253	ENST00000514559	protein_coding	NOVEL	None	25601	568	188	76747116	76788047	-1	None	FLJ10904
5	WDR41	ENSG00000164253	ENST00000503035	nonsense_mediated_decay	KNOWN	None	25601	84	27	76747116	76788302	-1	None	FLJ10904
5	WDR41	ENSG00000164253	ENST00000511036	protein_coding	NOVEL	None	25601	538	178	76747149	76788312	-1	None	FLJ10904
5	WDR41	ENSG00000164253	ENST00000504895	protein_coding	PUTATIVE	None	25601	450	149	76749691	76787110	-1	None	FLJ10904
5	WDR41	ENSG00000164253	ENST00000509971	protein_coding	PUTATIVE	None	25601	452	149	76749704	76916436	-1	None	FLJ10904
5	WDR41	ENSG00000164253	ENST00000506474	nonsense_mediated_decay	KNOWN	None	25601	201	66	76749714	76788045	-1	None	FLJ10904
5	WDR41	ENSG00000164253	ENST00000507239	retained_intron	KNOWN	None	25601	None	None	76754684	76788047	-1	None	FLJ10904
5	WDR41	ENSG00000164253	ENST00000509858	processed_transcript	KNOWN	None	25601	None	None	76758918	76916401	-1	None	FLJ10904
5	WDR41	ENSG00000164253	ENST00000514451	processed_transcript	KNOWN	None	25601	None	None	76758931	76787828	-1	None	FLJ10904
5	WDR41	ENSG00000164253	ENST00000513917	processed_transcript	KNOWN	None	25601	None	None	76758931	76795461	-1	None	FLJ10904
5	WDR41	ENSG00000164253	ENST00000512168	processed_transcript	KNOWN	None	25601	None	None	76758949	76788332	-1	None	FLJ10904
5	WDR41	ENSG00000164253	ENST00000414719	protein_coding	KNOWN	None	25601	618	205	76728638	76788024	-1	None	FLJ10904
14	MDGA2	ENSG00000139915	ENST00000399232	protein_coding	KNOWN	CCDS45098	19835	3078	1025	47309295	48144157	-1	MAMDC1	None
14	MDGA2	ENSG00000139915	ENST00000357362	protein_coding	KNOWN	CCDS41948	19835	2184	727	47310988	47812321	-1	MAMDC1	None
14	MDGA2	ENSG00000139915	ENST00000557238	nonsense_mediated_decay	KNOWN	None	19835	702	233	47340141	48095728	-1	MAMDC1	None
14	MDGA2	ENSG00000139915	ENST00000557516	retained_intron	KNOWN	None	19835	None	None	47342537	47351425	-1	MAMDC1	None
14	MDGA2	ENSG00000139915	ENST00000555521	retained_intron	KNOWN	None	19835	None	None	47343122	47389377	-1	MAMDC1	None
14	MDGA2	ENSG00000139915	ENST00000554762	protein_coding	NOVEL	None	19835	757	251	47504392	47601041	-1	MAMDC1	None
14	MDGA2	ENSG00000139915	ENST00000482848	nonsense_mediated_decay	KNOWN	None	19835	753	250	47527803	47812395	-1	MAMDC1	None
14	MDGA2	ENSG00000139915	ENST00000486952	protein_coding	PUTATIVE	None	19835	426	141	47687258	47812437	-1	MAMDC1	None
14	MDGA2	ENSG00000139915	ENST00000472499	processed_transcript	KNOWN	None	19835	None	None	47768550	47812319	-1	MAMDC1	None
14	MDGA2	ENSG00000139915	ENST00000439988	protein_coding	KNOWN	None	19835	2871	956	47308826	48143792	-1	MAMDC1	None
14	MDGA2	ENSG00000139915	ENST00000426342	protein_coding	KNOWN	CCDS41948	19835	2184	727	47308826	47812438	-1	MAMDC1	None
14	MDGA2	ENSG00000139915	ENST00000399222	protein_coding	KNOWN	None	19835	477	158	47309504	47351391	-1	MAMDC1	None
9	FAM219A	ENSG00000164970	ENST00000379089	protein_coding	KNOWN	None	19920	552	183	34398182	34458550	-1	C9orf25	bA573M23.5, FLJ39031
9	FAM219A	ENSG00000164970	ENST00000379087	protein_coding	KNOWN	None	19920	501	166	34398182	34458550	-1	C9orf25	bA573M23.5, FLJ39031
9	FAM219A	ENSG00000164970	ENST00000379084	protein_coding	KNOWN	None	19920	495	164	34398182	34458550	-1	C9orf25	bA573M23.5, FLJ39031
9	FAM219A	ENSG00000164970	ENST00000379081	protein_coding	KNOWN	None	19920	471	156	34398182	34458550	-1	C9orf25	bA573M23.5, FLJ39031
9	FAM219A	ENSG00000164970	ENST00000379080	protein_coding	KNOWN	None	19920	519	172	34398182	34458550	-1	C9orf25	bA573M23.5, FLJ39031
9	FAM219A	ENSG00000164970	ENST00000297620	protein_coding	KNOWN	CCDS6556	19920	507	168	34398188	34458568	-1	C9orf25	bA573M23.5, FLJ39031
9	FAM219A	ENSG00000164970	ENST00000422409	protein_coding	KNOWN	None	19920	506	167	34401011	34458550	-1	C9orf25	bA573M23.5, FLJ39031
9	FAM219A	ENSG00000164970	ENST00000379078	protein_coding	KNOWN	None	19920	471	156	34402248	34458550	-1	C9orf25	bA573M23.5, FLJ39031
9	FAM219A	ENSG00000164970	ENST00000445726	protein_coding	KNOWN	CCDS55304	19920	558	185	34398183	34458568	-1	C9orf25	bA573M23.5, FLJ39031
19	ZNF780B	ENSG00000128000	ENST00000434248	protein_coding	KNOWN	CCDS46077	33109	2502	833	40534167	40562116	-1	ZNF779	None
19	ZNF780B	ENSG00000128000	ENST00000221355	protein_coding	PUTATIVE	None	33109	2058	685	40539486	40562112	-1	ZNF779	None
19	ZNF780B	ENSG00000128000	ENST00000598845	protein_coding	PUTATIVE	None	33109	264	87	40542438	40562063	-1	ZNF779	None
19	ZNF780B	ENSG00000128000	ENST00000595995	non_stop_decay	KNOWN	None	33109	328	108	40542438	40562115	-1	ZNF779	None
19	ZNF780B	ENSG00000128000	ENST00000594811	retained_intron	KNOWN	None	33109	None	None	40553188	40562013	-1	ZNF779	None
19	ZNF780B	ENSG00000128000	ENST00000593605	protein_coding	KNOWN	None	33109	228	75	40553286	40562082	-1	ZNF779	None
1	C1orf189	ENSG00000163263	ENST00000368525	protein_coding	KNOWN	CCDS30876	32305	306	101	154171848	154178809	-1	None	None
20	ZNF877P	ENSG00000226875	ENST00000437614	unprocessed_pseudogene	KNOWN	None	38697	None	None	21246492	21247103	1	None	None
1	LIN9	ENSG00000183814	ENST00000460719	protein_coding	NOVEL	None	30830	1557	518	226418850	226496873	-1	None	TGS
1	LIN9	ENSG00000183814	ENST00000328205	protein_coding	KNOWN	CCDS1553	30830	1677	558	226418858	226497434	-1	None	TGS
1	LIN9	ENSG00000183814	ENST00000366808	protein_coding	PUTATIVE	None	30830	1842	613	226418858	226497570	-1	None	TGS
1	LIN9	ENSG00000183814	ENST00000481685	protein_coding	PUTATIVE	None	30830	1470	489	226420414	226496955	-1	None	TGS
1	LIN9	ENSG00000183814	ENST00000359525	protein_coding	PUTATIVE	None	30830	213	70	226475394	226496772	-1	None	TGS
1	LIN9	ENSG00000183814	ENST00000366801	protein_coding	KNOWN	None	30830	1524	507	226418865	226497198	-1	None	TGS
4	LRPAP1	ENSG00000163956	ENST00000500728	protein_coding	KNOWN	CCDS3371	6701	1074	357	3508103	3534286	-1	A2MRAP	HBP44
4	LRPAP1	ENSG00000163956	ENST00000296325	processed_transcript	KNOWN	None	6701	None	None	3514660	3533876	-1	A2MRAP	HBP44
4	LRPAP1	ENSG00000163956	ENST00000515119	nonsense_mediated_decay	KNOWN	None	6701	318	105	3517609	3534143	-1	A2MRAP	HBP44
4	LRPAP1	ENSG00000163956	ENST00000509198	retained_intron	KNOWN	None	6701	None	None	3519388	3534149	-1	A2MRAP	HBP44
2	MFSD6	ENSG00000151690	ENST00000417958	protein_coding	KNOWN	None	24711	127	41	191273081	191300882	1	None	FLJ20160
2	MFSD6	ENSG00000151690	ENST00000432036	protein_coding	KNOWN	None	24711	344	113	191273081	191301099	1	None	FLJ20160
2	MFSD6	ENSG00000151690	ENST00000392328	protein_coding	KNOWN	CCDS2306	24711	2376	791	191273081	191367041	1	None	FLJ20160
2	MFSD6	ENSG00000151690	ENST00000445546	protein_coding	KNOWN	None	24711	469	155	191300027	191301224	1	None	FLJ20160
2	MFSD6	ENSG00000151690	ENST00000434582	protein_coding	NOVEL	None	24711	814	270	191302150	191366839	1	None	FLJ20160
2	MFSD6	ENSG00000151690	ENST00000489793	processed_transcript	PUTATIVE	None	24711	None	None	191307302	191334581	1	None	FLJ20160
2	MFSD6	ENSG00000151690	ENST00000444317	protein_coding	PUTATIVE	None	24711	538	178	191334219	191362425	1	None	FLJ20160
2	MFSD6	ENSG00000151690	ENST00000486123	retained_intron	KNOWN	None	24711	None	None	191354546	191362721	1	None	FLJ20160
2	MFSD6	ENSG00000151690	ENST00000412482	nonsense_mediated_decay	KNOWN	None	24711	275	90	191362375	191373931	1	None	FLJ20160
2	MFSD6	ENSG00000151690	ENST00000281416	protein_coding	KNOWN	CCDS2306	24711	2376	791	191300621	191367041	1	None	FLJ20160
2	MFSD6	ENSG00000151690	ENST00000535751	protein_coding	KNOWN	None	24711	762	253	191334242	191365397	1	None	FLJ20160
14	DYNC1H1	ENSG00000197102	ENST00000360184	protein_coding	KNOWN	CCDS9966	2961	13941	4646	102430865	102517128	1	DNECL, DNCL, DNCH1	Dnchc1, HL-3, p22, DHC1
14	DYNC1H1	ENSG00000197102	ENST00000555204	processed_transcript	KNOWN	None	2961	None	None	102486371	102493785	1	DNECL, DNCL, DNCH1	Dnchc1, HL-3, p22, DHC1
14	DYNC1H1	ENSG00000197102	ENST00000554854	retained_intron	KNOWN	None	2961	None	None	102493844	102496170	1	DNECL, DNCL, DNCH1	Dnchc1, HL-3, p22, DHC1
14	DYNC1H1	ENSG00000197102	ENST00000556791	processed_transcript	KNOWN	None	2961	None	None	102499399	102503935	1	DNECL, DNCL, DNCH1	Dnchc1, HL-3, p22, DHC1
14	DYNC1H1	ENSG00000197102	ENST00000553423	protein_coding	NOVEL	None	2961	539	178	102500474	102505391	1	DNECL, DNCL, DNCH1	Dnchc1, HL-3, p22, DHC1
14	DYNC1H1	ENSG00000197102	ENST00000555800	retained_intron	KNOWN	None	2961	None	None	102504717	102505433	1	DNECL, DNCL, DNCH1	Dnchc1, HL-3, p22, DHC1
14	DYNC1H1	ENSG00000197102	ENST00000556139	retained_intron	KNOWN	None	2961	None	None	102505828	102508458	1	DNECL, DNCL, DNCH1	Dnchc1, HL-3, p22, DHC1
14	DYNC1H1	ENSG00000197102	ENST00000556499	retained_intron	KNOWN	None	2961	None	None	102506725	102507465	1	DNECL, DNCL, DNCH1	Dnchc1, HL-3, p22, DHC1
14	DYNC1H1	ENSG00000197102	ENST00000555102	processed_transcript	KNOWN	None	2961	None	None	102508734	102510034	1	DNECL, DNCL, DNCH1	Dnchc1, HL-3, p22, DHC1
14	DYNC1H1	ENSG00000197102	ENST00000556229	retained_intron	KNOWN	None	2961	None	None	102513998	102515066	1	DNECL, DNCL, DNCH1	Dnchc1, HL-3, p22, DHC1
14	DYNC1H1	ENSG00000197102	ENST00000555062	retained_intron	KNOWN	None	2961	None	None	102514098	102517129	1	DNECL, DNCL, DNCH1	Dnchc1, HL-3, p22, DHC1
17	CCL14	ENSG00000213494	ENST00000480944	protein_coding	PUTATIVE	None	10612	348	115	34310327	34314040	-1	SCYA14	HCC-1, HCC-3, NCC-2, SCYL2, CKb1, MCIF
17	CCL14	ENSG00000213494	ENST00000394509	protein_coding	KNOWN	CCDS32624	10612	282	93	34310330	34313794	-1	SCYA14	HCC-1, HCC-3, NCC-2, SCYL2, CKb1, MCIF
17	CCL14	ENSG00000213494	ENST00000435911	protein_coding	KNOWN	CCDS45652	10612	330	109	34310695	34313685	-1	SCYA14	HCC-1, HCC-3, NCC-2, SCYL2, CKb1, MCIF
17	CCL14	ENSG00000213494	ENST00000586216	protein_coding	PUTATIVE	None	10612	198	65	34310723	34313711	-1	SCYA14	HCC-1, HCC-3, NCC-2, SCYL2, CKb1, MCIF
17	CCL14	ENSG00000213494	ENST00000536149	protein_coding	KNOWN	CCDS45652	10612	330	109	34310692	34329100	-1	SCYA14	HCC-1, HCC-3, NCC-2, SCYL2, CKb1, MCIF
8	CPQ	ENSG00000104324	ENST00000220763	protein_coding	KNOWN	CCDS6273	16910	1419	472	97657455	98155729	1	None	LDP, PGCP
8	CPQ	ENSG00000104324	ENST00000519900	protein_coding	PUTATIVE	None	16910	395	130	97657599	97797520	1	None	LDP, PGCP
8	CPQ	ENSG00000104324	ENST00000517742	protein_coding	PUTATIVE	None	16910	558	185	97657603	97847325	1	None	LDP, PGCP
8	CPQ	ENSG00000104324	ENST00000525310	processed_transcript	KNOWN	None	16910	None	None	97744520	97797556	1	None	LDP, PGCP
8	CPQ	ENSG00000104324	ENST00000519484	protein_coding	PUTATIVE	None	16910	413	136	97773202	97797538	1	None	LDP, PGCP
8	CPQ	ENSG00000104324	ENST00000521142	protein_coding	PUTATIVE	None	16910	390	129	97773468	97797515	1	None	LDP, PGCP
8	CPQ	ENSG00000104324	ENST00000522617	protein_coding	PUTATIVE	None	16910	392	129	98041697	98161882	1	None	LDP, PGCP
8	CPQ	ENSG00000104324	ENST00000532528	processed_transcript	KNOWN	None	16910	None	None	98067755	98104938	1	None	LDP, PGCP
8	CPQ	ENSG00000104324	ENST00000529551	processed_transcript	KNOWN	None	16910	None	None	98067755	98105164	1	None	LDP, PGCP
16	CDH3	ENSG00000062038	ENST00000565453	processed_transcript	PUTATIVE	None	1762	None	None	68670092	68679221	1	None	CDHP, PCAD
16	CDH3	ENSG00000062038	ENST00000264012	protein_coding	KNOWN	CCDS10868	1762	2490	829	68678739	68732971	1	None	CDHP, PCAD
16	CDH3	ENSG00000062038	ENST00000429102	protein_coding	KNOWN	None	1762	2355	784	68678896	68732939	1	None	CDHP, PCAD
16	CDH3	ENSG00000062038	ENST00000542274	nonsense_mediated_decay	KNOWN	None	1762	147	48	68679204	68732595	1	None	CDHP, PCAD
16	CDH3	ENSG00000062038	ENST00000566808	nonsense_mediated_decay	KNOWN	None	1762	221	72	68679540	68713715	1	None	CDHP, PCAD
16	CDH3	ENSG00000062038	ENST00000569036	nonsense_mediated_decay	KNOWN	None	1762	179	58	68712170	68716295	1	None	CDHP, PCAD
16	CDH3	ENSG00000062038	ENST00000567674	nonsense_mediated_decay	KNOWN	None	1762	125	40	68721523	68732375	1	None	CDHP, PCAD
16	CDH3	ENSG00000062038	ENST00000568292	protein_coding	PUTATIVE	None	1762	467	154	68725749	68730037	1	None	CDHP, PCAD
16	CDH3	ENSG00000062038	ENST00000569080	protein_coding	PUTATIVE	None	1762	246	81	68729728	68756519	1	None	CDHP, PCAD
16	CDH3	ENSG00000062038	ENST00000569117	processed_transcript	PUTATIVE	None	1762	None	None	68730047	68730826	1	None	CDHP, PCAD
16	CDH3	ENSG00000062038	ENST00000581171	protein_coding	KNOWN	None	1762	2325	774	68679204	68732595	1	None	CDHP, PCAD
9	C9orf16	ENSG00000171159	ENST00000372994	protein_coding	KNOWN	CCDS6893	17823	252	83	130922539	130926207	1	None	EST00098, FLJ12823, MGC4639
9	C9orf16	ENSG00000171159	ENST00000492588	processed_transcript	KNOWN	None	17823	None	None	130922593	130926169	1	None	EST00098, FLJ12823, MGC4639
9	C9orf16	ENSG00000171159	ENST00000489240	processed_transcript	KNOWN	None	17823	None	None	130922638	130925825	1	None	EST00098, FLJ12823, MGC4639
9	C9orf16	ENSG00000171159	ENST00000486420	processed_transcript	KNOWN	None	17823	None	None	130922739	130926016	1	None	EST00098, FLJ12823, MGC4639
3	CLCN2	ENSG00000114859	ENST00000265593	protein_coding	KNOWN	CCDS3263	2020	2697	898	184063973	184079439	-1	None	CLC2, EJM6, ClC-2
3	CLCN2	ENSG00000114859	ENST00000344937	protein_coding	NOVEL	CCDS54691	2020	2646	881	184063976	184079390	-1	None	CLC2, EJM6, ClC-2
3	CLCN2	ENSG00000114859	ENST00000430397	nonsense_mediated_decay	KNOWN	None	2020	401	132	184064009	184074808	-1	None	CLC2, EJM6, ClC-2
3	CLCN2	ENSG00000114859	ENST00000434054	protein_coding	NOVEL	CCDS54690	2020	2565	854	184064186	184079391	-1	None	CLC2, EJM6, ClC-2
3	CLCN2	ENSG00000114859	ENST00000457512	protein_coding	NOVEL	CCDS54692	2020	2610	869	184064308	184079391	-1	None	CLC2, EJM6, ClC-2
3	CLCN2	ENSG00000114859	ENST00000491162	retained_intron	KNOWN	None	2020	None	None	184070204	184071084	-1	None	CLC2, EJM6, ClC-2
3	CLCN2	ENSG00000114859	ENST00000485667	retained_intron	KNOWN	None	2020	None	None	184072843	184079274	-1	None	CLC2, EJM6, ClC-2
3	CLCN2	ENSG00000114859	ENST00000475279	processed_transcript	PUTATIVE	None	2020	None	None	184073191	184074817	-1	None	CLC2, EJM6, ClC-2
3	CLCN2	ENSG00000114859	ENST00000465231	retained_intron	KNOWN	None	2020	None	None	184075760	184076446	-1	None	CLC2, EJM6, ClC-2
3	CLCN2	ENSG00000114859	ENST00000423355	protein_coding	KNOWN	None	2020	381	126	184063979	184079391	-1	None	CLC2, EJM6, ClC-2
4	None	ENSG00000268171	ENST00000598320	protein_coding	NOVEL	None	None	450	149	57276682	57277131	1	None	None
1	C1orf43	ENSG00000143612	ENST00000368521	protein_coding	KNOWN	CCDS41404	29876	762	253	154179182	154193082	-1	None	NICE-3, DKFZp586G1722
1	C1orf43	ENSG00000143612	ENST00000362076	protein_coding	KNOWN	CCDS1062	29876	606	201	154179196	154193095	-1	None	NICE-3, DKFZp586G1722
1	C1orf43	ENSG00000143612	ENST00000350592	protein_coding	KNOWN	CCDS1061	29876	660	219	154179196	154193100	-1	None	NICE-3, DKFZp586G1722
1	C1orf43	ENSG00000143612	ENST00000368519	protein_coding	KNOWN	None	29876	708	235	154179652	154193061	-1	None	NICE-3, DKFZp586G1722
1	C1orf43	ENSG00000143612	ENST00000483282	processed_transcript	KNOWN	None	29876	None	None	154179706	154180993	-1	None	NICE-3, DKFZp586G1722
1	C1orf43	ENSG00000143612	ENST00000493814	processed_transcript	KNOWN	None	29876	None	None	154180016	154185206	-1	None	NICE-3, DKFZp586G1722
1	C1orf43	ENSG00000143612	ENST00000368518	protein_coding	KNOWN	None	29876	570	189	154184210	154193009	-1	None	NICE-3, DKFZp586G1722
1	C1orf43	ENSG00000143612	ENST00000368516	protein_coding	KNOWN	None	29876	468	155	154184609	154193104	-1	None	NICE-3, DKFZp586G1722
1	C1orf43	ENSG00000143612	ENST00000470180	processed_transcript	KNOWN	None	29876	None	None	154184933	154186992	-1	None	NICE-3, DKFZp586G1722
2	TMEM194B	ENSG00000189362	ENST00000409150	protein_coding	KNOWN	CCDS46476	33700	1254	417	191369068	191399448	-1	None	None
2	TMEM194B	ENSG00000189362	ENST00000414176	nonsense_mediated_decay	KNOWN	None	33700	417	138	191375224	191399075	-1	None	None
2	TMEM194B	ENSG00000189362	ENST00000444545	nonsense_mediated_decay	KNOWN	None	33700	108	35	191379178	191390051	-1	None	None
2	TMEM194B	ENSG00000189362	ENST00000343105	nonsense_mediated_decay	KNOWN	None	33700	258	85	191380990	191399404	-1	None	None
2	TMEM194B	ENSG00000189362	ENST00000492292	processed_transcript	PUTATIVE	None	33700	None	None	191383462	191399054	-1	None	None
2	TMEM194B	ENSG00000189362	ENST00000421038	protein_coding	PUTATIVE	None	33700	73	23	191383843	191399083	-1	None	None
5	TENM2	ENSG00000145934	ENST00000518659	protein_coding	KNOWN	None	29943	8325	2774	166711804	167690001	1	ODZ2	KIAA1127, Ten-M2
5	TENM2	ENSG00000145934	ENST00000520393	processed_transcript	KNOWN	None	29943	None	None	167000979	167420019	1	ODZ2	KIAA1127, Ten-M2
5	TENM2	ENSG00000145934	ENST00000519204	protein_coding	NOVEL	None	29943	7962	2653	167181941	167691162	1	ODZ2	KIAA1127, Ten-M2
5	TENM2	ENSG00000145934	ENST00000520394	protein_coding	NOVEL	None	29943	7608	2535	167182008	167690190	1	ODZ2	KIAA1127, Ten-M2
5	TENM2	ENSG00000145934	ENST00000517586	processed_transcript	PUTATIVE	None	29943	None	None	167248073	167379660	1	ODZ2	KIAA1127, Ten-M2
5	TENM2	ENSG00000145934	ENST00000518693	processed_transcript	KNOWN	None	29943	None	None	167361867	167474467	1	ODZ2	KIAA1127, Ten-M2
5	TENM2	ENSG00000145934	ENST00000522488	retained_intron	KNOWN	None	29943	None	None	167379380	167420048	1	ODZ2	KIAA1127, Ten-M2
5	TENM2	ENSG00000145934	ENST00000521126	retained_intron	KNOWN	None	29943	None	None	167589699	167617879	1	ODZ2	KIAA1127, Ten-M2
5	TENM2	ENSG00000145934	ENST00000517941	processed_transcript	PUTATIVE	None	29943	None	None	167653253	167668117	1	ODZ2	KIAA1127, Ten-M2
5	TENM2	ENSG00000145934	ENST00000545108	protein_coding	KNOWN	None	29943	8322	2773	166711843	167689815	1	ODZ2	KIAA1127, Ten-M2
5	TENM2	ENSG00000145934	ENST00000403607	protein_coding	KNOWN	None	29943	7797	2598	167302990	167691162	1	ODZ2	KIAA1127, Ten-M2
14	RPS29	ENSG00000213741	ENST00000396020	protein_coding	KNOWN	CCDS32072	10419	204	67	50043390	50053094	-1	None	S29
14	RPS29	ENSG00000213741	ENST00000245458	protein_coding	KNOWN	CCDS9685	10419	171	56	50050290	50053094	-1	None	S29
14	RPS29	ENSG00000213741	ENST00000557367	retained_intron	KNOWN	None	10419	None	None	50050297	50053069	-1	None	S29
14	RPS29	ENSG00000213741	ENST00000557111	processed_transcript	PUTATIVE	None	10419	None	None	50050297	50065408	-1	None	S29
14	RPS29	ENSG00000213741	ENST00000554075	retained_intron	KNOWN	None	10419	None	None	50052016	50053076	-1	None	S29
14	RPS29	ENSG00000213741	ENST00000557519	processed_transcript	PUTATIVE	None	10419	None	None	50052108	50053043	-1	None	S29
14	RPS29	ENSG00000213741	ENST00000556230	retained_intron	KNOWN	None	10419	None	None	50052236	50053094	-1	None	S29
20	None	ENSG00000225280	ENST00000552439	antisense	KNOWN	None	None	None	None	21378456	21380004	1	None	None
20	None	ENSG00000225280	ENST00000419666	antisense	KNOWN	None	None	None	None	21379531	21381029	1	None	None
11	AHNAK	ENSG00000124942	ENST00000530124	protein_coding	NOVEL	None	347	396	131	62201016	62303579	-1	None	MGC5395
11	AHNAK	ENSG00000124942	ENST00000257247	protein_coding	KNOWN	CCDS44625	347	450	149	62201018	62314268	-1	None	MGC5395
11	AHNAK	ENSG00000124942	ENST00000525875	processed_transcript	PUTATIVE	None	347	None	None	62201019	62284829	-1	None	MGC5395
11	AHNAK	ENSG00000124942	ENST00000533365	protein_coding	KNOWN	None	347	363	120	62259283	62313159	-1	None	MGC5395
11	AHNAK	ENSG00000124942	ENST00000378024	protein_coding	KNOWN	CCDS31584	347	17673	5890	62283377	62314307	-1	None	MGC5395
11	AHNAK	ENSG00000124942	ENST00000530285	protein_coding	KNOWN	None	347	433	143	62301456	62323707	-1	None	MGC5395
11	AHNAK	ENSG00000124942	ENST00000528508	protein_coding	KNOWN	None	347	371	122	62301518	62313135	-1	None	MGC5395
11	AHNAK	ENSG00000124942	ENST00000531324	protein_coding	KNOWN	None	347	257	84	62302560	62314305	-1	None	MGC5395
14	None	ENSG00000253459	ENST00000539688	protein_coding	KNOWN	None	None	450	149	50064193	50065882	-1	None	None
1	OSBPL9	ENSG00000117859	ENST00000371714	protein_coding	KNOWN	CCDS55598	16386	2172	723	52042851	52254141	1	None	None
1	OSBPL9	ENSG00000117859	ENST00000435274	nonsense_mediated_decay	KNOWN	None	16386	351	116	52082764	52253638	1	None	None
1	OSBPL9	ENSG00000117859	ENST00000447887	protein_coding	KNOWN	CCDS44145	16386	2241	746	52082764	52254141	1	None	None
1	OSBPL9	ENSG00000117859	ENST00000495776	nonsense_mediated_decay	KNOWN	None	16386	223	73	52082764	52254141	1	None	None
1	OSBPL9	ENSG00000117859	ENST00000428468	protein_coding	KNOWN	CCDS41332	16386	2211	736	52082781	52254141	1	None	None
1	OSBPL9	ENSG00000117859	ENST00000453295	protein_coding	KNOWN	CCDS41333	16386	2160	719	52082781	52254141	1	None	None
1	OSBPL9	ENSG00000117859	ENST00000489990	nonsense_mediated_decay	KNOWN	None	16386	591	196	52082786	52242584	1	None	None
1	OSBPL9	ENSG00000117859	ENST00000484890	retained_intron	KNOWN	None	16386	None	None	52179675	52222329	1	None	None
1	OSBPL9	ENSG00000117859	ENST00000534040	nonsense_mediated_decay	KNOWN	None	16386	126	41	52194975	52226412	1	None	None
1	OSBPL9	ENSG00000117859	ENST00000532975	protein_coding	KNOWN	None	16386	328	108	52194975	52231577	1	None	None
1	OSBPL9	ENSG00000117859	ENST00000527631	protein_coding	NOVEL	None	16386	276	91	52195272	52227636	1	None	None
1	OSBPL9	ENSG00000117859	ENST00000531828	protein_coding	NOVEL	None	16386	1716	571	52195480	52253461	1	None	None
1	OSBPL9	ENSG00000117859	ENST00000361556	protein_coding	KNOWN	CCDS558	16386	1881	626	52195487	52254141	1	None	None
1	OSBPL9	ENSG00000117859	ENST00000473207	processed_transcript	KNOWN	None	16386	None	None	52195497	52226443	1	None	None
1	OSBPL9	ENSG00000117859	ENST00000533884	nonsense_mediated_decay	KNOWN	None	16386	240	79	52195505	52226436	1	None	None
1	OSBPL9	ENSG00000117859	ENST00000481937	protein_coding	KNOWN	None	16386	98	31	52195529	52222041	1	None	None
1	OSBPL9	ENSG00000117859	ENST00000526917	nonsense_mediated_decay	KNOWN	None	16386	240	79	52195554	52231528	1	None	None
1	OSBPL9	ENSG00000117859	ENST00000462759	protein_coding	KNOWN	CCDS41334	16386	1677	558	52195576	52254141	1	None	None
1	OSBPL9	ENSG00000117859	ENST00000486942	protein_coding	KNOWN	CCDS41334	16386	1677	558	52195706	52254141	1	None	None
1	OSBPL9	ENSG00000117859	ENST00000467064	retained_intron	KNOWN	None	16386	None	None	52210762	52214070	1	None	None
1	OSBPL9	ENSG00000117859	ENST00000524620	processed_transcript	KNOWN	None	16386	None	None	52211269	52225218	1	None	None
1	OSBPL9	ENSG00000117859	ENST00000528603	nonsense_mediated_decay	KNOWN	None	16386	105	34	52215826	52242590	1	None	None
1	OSBPL9	ENSG00000117859	ENST00000475697	retained_intron	KNOWN	None	16386	None	None	52225296	52254141	1	None	None
1	OSBPL9	ENSG00000117859	ENST00000531061	nonsense_mediated_decay	KNOWN	None	16386	350	115	52226378	52242575	1	None	None
1	OSBPL9	ENSG00000117859	ENST00000531819	retained_intron	KNOWN	None	16386	None	None	52231212	52254136	1	None	None
1	OSBPL9	ENSG00000117859	ENST00000533825	processed_transcript	KNOWN	None	16386	None	None	52237748	52247340	1	None	None
1	OSBPL9	ENSG00000117859	ENST00000371710	protein_coding	KNOWN	None	16386	2265	754	52082547	52254889	1	None	None
1	OSBPL9	ENSG00000117859	ENST00000337809	protein_coding	KNOWN	None	16386	2226	741	52082547	52254889	1	None	None
1	OSBPL9	ENSG00000117859	ENST00000530544	protein_coding	KNOWN	None	16386	1968	655	52135223	52253638	1	None	None
1	OSBPL9	ENSG00000117859	ENST00000435686	protein_coding	KNOWN	None	16386	1716	571	52082764	52254136	1	None	None
1	PARP1	ENSG00000143799	ENST00000366794	protein_coding	KNOWN	CCDS1554	270	3045	1014	226548392	226595774	-1	PPOL, ADPRT	PARP
1	PARP1	ENSG00000143799	ENST00000490921	processed_transcript	KNOWN	None	270	None	None	226548996	226558816	-1	PPOL, ADPRT	PARP
1	PARP1	ENSG00000143799	ENST00000463968	processed_transcript	KNOWN	None	270	None	None	226549020	226552073	-1	PPOL, ADPRT	PARP
1	PARP1	ENSG00000143799	ENST00000491816	processed_transcript	KNOWN	None	270	None	None	226549111	226549953	-1	PPOL, ADPRT	PARP
1	PARP1	ENSG00000143799	ENST00000468608	processed_transcript	KNOWN	None	270	None	None	226549409	226550861	-1	PPOL, ADPRT	PARP
1	PARP1	ENSG00000143799	ENST00000498787	processed_transcript	KNOWN	None	270	None	None	226552789	226558344	-1	PPOL, ADPRT	PARP
1	PARP1	ENSG00000143799	ENST00000469663	processed_transcript	KNOWN	None	270	None	None	226576399	226580493	-1	PPOL, ADPRT	PARP
1	PARP1	ENSG00000143799	ENST00000366792	protein_coding	KNOWN	None	270	327	108	226579959	226595776	-1	PPOL, ADPRT	PARP
1	PARP1	ENSG00000143799	ENST00000366790	protein_coding	KNOWN	None	270	468	155	226589684	226595683	-1	PPOL, ADPRT	PARP
1	PARP1	ENSG00000143799	ENST00000366791	protein_coding	KNOWN	None	270	327	108	226580641	226595780	-1	PPOL, ADPRT	PARP
8	C8orf31	ENSG00000177335	ENST00000517653	processed_transcript	KNOWN	None	26731	None	None	144120626	144135355	1	None	FLJ37131
8	C8orf31	ENSG00000177335	ENST00000523766	processed_transcript	PUTATIVE	None	26731	None	None	144120678	144123936	1	None	FLJ37131
8	C8orf31	ENSG00000177335	ENST00000523099	processed_transcript	PUTATIVE	None	26731	None	None	144120678	144124660	1	None	FLJ37131
8	C8orf31	ENSG00000177335	ENST00000524181	nonsense_mediated_decay	KNOWN	None	26731	189	62	144120678	144134861	1	None	FLJ37131
8	C8orf31	ENSG00000177335	ENST00000395172	protein_coding	KNOWN	CCDS6395	26731	399	132	144120679	144135720	1	None	FLJ37131
8	C8orf31	ENSG00000177335	ENST00000519775	processed_transcript	KNOWN	None	26731	None	None	144120712	144141359	1	None	FLJ37131
8	C8orf31	ENSG00000177335	ENST00000520786	retained_intron	KNOWN	None	26731	None	None	144124625	144129401	1	None	FLJ37131
11	OR8H2	ENSG00000181767	ENST00000313503	protein_coding	KNOWN	CCDS31518	15308	939	312	55872519	55873457	1	None	None
14	LRR1	ENSG00000165501	ENST00000298288	protein_coding	KNOWN	CCDS9686	19742	1245	414	50065415	50081390	1	PPIL5	MGC20689, LRR-1
14	LRR1	ENSG00000165501	ENST00000318317	protein_coding	KNOWN	CCDS9687	19742	441	146	50065479	50081388	1	PPIL5	MGC20689, LRR-1
14	LRR1	ENSG00000165501	ENST00000554869	nonsense_mediated_decay	KNOWN	None	19742	402	133	50065493	50081389	1	PPIL5	MGC20689, LRR-1
14	LRR1	ENSG00000165501	ENST00000540712	nonsense_mediated_decay	KNOWN	None	19742	195	64	50065670	50081389	1	PPIL5	MGC20689, LRR-1
14	LRR1	ENSG00000165501	ENST00000557531	processed_transcript	PUTATIVE	None	19742	None	None	50067130	50074227	1	PPIL5	MGC20689, LRR-1
11	OR8H3	ENSG00000181761	ENST00000313472	protein_coding	KNOWN	CCDS31519	15309	939	312	55889849	55890787	1	None	None
11	OR8J3	ENSG00000167822	ENST00000301529	protein_coding	KNOWN	CCDS31520	15312	948	315	55904247	55905194	-1	None	None
4	PAICS	ENSG00000128050	ENST00000514888	protein_coding	NOVEL	None	8587	1002	333	57301907	57327527	1	PAIS	ADE2H1, AIRC
4	PAICS	ENSG00000128050	ENST00000505164	protein_coding	PUTATIVE	None	8587	1239	412	57301918	57325665	1	PAIS	ADE2H1, AIRC
4	PAICS	ENSG00000128050	ENST00000504188	retained_intron	KNOWN	None	8587	None	None	57302205	57308029	1	PAIS	ADE2H1, AIRC
4	PAICS	ENSG00000128050	ENST00000510584	retained_intron	KNOWN	None	8587	None	None	57302304	57308194	1	PAIS	ADE2H1, AIRC
4	PAICS	ENSG00000128050	ENST00000399688	protein_coding	NOVEL	CCDS47060	8587	1299	432	57302304	57327527	1	PAIS	ADE2H1, AIRC
4	PAICS	ENSG00000128050	ENST00000512576	protein_coding	KNOWN	CCDS47061	8587	1278	425	57302318	57325830	1	PAIS	ADE2H1, AIRC
4	PAICS	ENSG00000128050	ENST00000508554	retained_intron	KNOWN	None	8587	None	None	57314865	57317357	1	PAIS	ADE2H1, AIRC
4	PAICS	ENSG00000128050	ENST00000264221	protein_coding	KNOWN	CCDS47061	8587	1278	425	57301915	57327534	1	PAIS	ADE2H1, AIRC
12	ZNF740	ENSG00000139651	ENST00000416904	protein_coding	KNOWN	CCDS44896	27465	582	193	53574484	53584596	1	None	Zfp740
12	ZNF740	ENSG00000139651	ENST00000552593	retained_intron	KNOWN	None	27465	None	None	53574488	53579815	1	None	Zfp740
12	ZNF740	ENSG00000139651	ENST00000549739	retained_intron	KNOWN	None	27465	None	None	53579169	53580578	1	None	Zfp740
12	ZNF740	ENSG00000139651	ENST00000551514	processed_transcript	PUTATIVE	None	27465	None	None	53581391	53582540	1	None	Zfp740
11	OR8K5	ENSG00000181752	ENST00000313447	protein_coding	KNOWN	CCDS31521	15315	924	307	55926870	55927793	-1	None	None
20	RN7SKP140	ENSG00000223128	ENST00000411196	misc_RNA	KNOWN	None	45864	None	None	21405396	21405679	-1	None	None
7	None	ENSG00000256005	ENST00000540816	pseudogene	NOVEL	None	None	None	None	1580047	1581609	1	None	None
11	OR5J2	ENSG00000174957	ENST00000312298	protein_coding	KNOWN	CCDS31522	19612	939	312	55944094	55945032	1	None	None
11	OR8D2	ENSG00000197263	ENST00000357438	protein_coding	KNOWN	CCDS31707	8482	936	311	124189134	124190184	-1	None	None
11	OR5T2	ENSG00000181718	ENST00000313264	protein_coding	KNOWN	CCDS31523	15296	1080	359	55999490	56000737	-1	None	None
7	NME8	ENSG00000086288	ENST00000199447	protein_coding	KNOWN	CCDS5452	16473	1767	588	37888199	37940003	1	TXNDC3	CILD6, SPTRX2, NM23-H8
7	NME8	ENSG00000086288	ENST00000455500	protein_coding	NOVEL	None	16473	347	114	37888212	37904007	1	TXNDC3	CILD6, SPTRX2, NM23-H8
7	NME8	ENSG00000086288	ENST00000444718	protein_coding	NOVEL	None	16473	450	149	37888555	37905213	1	TXNDC3	CILD6, SPTRX2, NM23-H8
7	NME8	ENSG00000086288	ENST00000440017	protein_coding	KNOWN	CCDS5452	16473	1767	588	37888621	37936694	1	TXNDC3	CILD6, SPTRX2, NM23-H8
7	NME8	ENSG00000086288	ENST00000426106	nonsense_mediated_decay	KNOWN	None	16473	165	54	37889855	37928001	1	TXNDC3	CILD6, SPTRX2, NM23-H8
7	NME8	ENSG00000086288	ENST00000476435	retained_intron	KNOWN	None	16473	None	None	37936419	37939996	1	TXNDC3	CILD6, SPTRX2, NM23-H8
20	None	ENSG00000226405	ENST00000421090	processed_pseudogene	KNOWN	None	None	None	None	21468882	21469263	-1	None	None
6	SCAF8	ENSG00000213079	ENST00000367178	protein_coding	KNOWN	CCDS5247	20959	3816	1271	155054459	155155192	1	RBM16	KIAA1116
6	SCAF8	ENSG00000213079	ENST00000461219	processed_transcript	KNOWN	None	20959	None	None	155054512	155114080	1	RBM16	KIAA1116
6	SCAF8	ENSG00000213079	ENST00000464628	processed_transcript	KNOWN	None	20959	None	None	155054987	155113992	1	RBM16	KIAA1116
6	SCAF8	ENSG00000213079	ENST00000479234	processed_transcript	KNOWN	None	20959	None	None	155143296	155146076	1	RBM16	KIAA1116
6	SCAF8	ENSG00000213079	ENST00000367186	protein_coding	KNOWN	None	20959	4014	1337	155054550	155155192	1	RBM16	KIAA1116
6	SCAF8	ENSG00000213079	ENST00000417268	protein_coding	KNOWN	CCDS5247	20959	3816	1271	155054512	155155190	1	RBM16	KIAA1116
16	None	ENSG00000269746	ENST00000601706	protein_coding	NOVEL	None	None	381	126	70239303	70239683	-1	None	None
4	None	ENSG00000268781	ENST00000593823	protein_coding	NOVEL	None	None	156	51	3511523	3511678	-1	None	None
16	None	ENSG00000269866	ENST00000594734	protein_coding	KNOWN	None	None	381	126	70258261	70258641	1	None	None
4	LINC00955	ENSG00000216560	ENST00000514422	protein_coding	NOVEL	None	26644	585	194	3578596	3591731	1	None	FLJ35424
4	LINC00955	ENSG00000216560	ENST00000502775	retained_intron	KNOWN	None	26644	None	None	3578661	3592438	1	None	FLJ35424
7	PSMG3-AS1	ENSG00000230487	ENST00000437621	lincRNA	KNOWN	None	22230	None	None	1609709	1629262	1	None	KIAA1908
7	PSMG3-AS1	ENSG00000230487	ENST00000457484	lincRNA	KNOWN	None	22230	None	None	1609725	1629257	1	None	KIAA1908
7	PSMG3-AS1	ENSG00000230487	ENST00000437964	lincRNA	KNOWN	None	22230	None	None	1609771	1626181	1	None	KIAA1908
7	PSMG3-AS1	ENSG00000230487	ENST00000533935	lincRNA	KNOWN	None	22230	None	None	1609778	1624054	1	None	KIAA1908
7	PSMG3-AS1	ENSG00000230487	ENST00000532358	lincRNA	KNOWN	None	22230	None	None	1609782	1622867	1	None	KIAA1908
7	PSMG3-AS1	ENSG00000230487	ENST00000524978	lincRNA	KNOWN	None	22230	None	None	1609870	1615607	1	None	KIAA1908
11	OR5T3	ENSG00000172489	ENST00000303059	protein_coding	KNOWN	CCDS31524	15297	1023	340	56019676	56020698	1	None	OR5T3Q
2	NAB1	ENSG00000138386	ENST00000448811	protein_coding	KNOWN	None	7626	458	151	191511472	191524360	1	None	None
2	NAB1	ENSG00000138386	ENST00000416973	protein_coding	KNOWN	None	7626	472	156	191513621	191524374	1	None	None
2	NAB1	ENSG00000138386	ENST00000426601	protein_coding	KNOWN	None	7626	300	99	191513624	191524202	1	None	None
2	NAB1	ENSG00000138386	ENST00000409581	protein_coding	KNOWN	CCDS2307	7626	1464	487	191513796	191555645	1	None	None
2	NAB1	ENSG00000138386	ENST00000337386	protein_coding	KNOWN	CCDS2307	7626	1464	487	191513959	191557492	1	None	None
2	NAB1	ENSG00000138386	ENST00000423376	protein_coding	KNOWN	None	7626	186	61	191518451	191524088	1	None	None
2	NAB1	ENSG00000138386	ENST00000423076	protein_coding	PUTATIVE	None	7626	253	83	191518457	191524311	1	None	None
2	NAB1	ENSG00000138386	ENST00000409641	protein_coding	NOVEL	None	7626	1461	486	191523785	191555952	1	None	None
2	NAB1	ENSG00000138386	ENST00000434473	protein_coding	KNOWN	None	7626	721	239	191524556	191555999	1	None	None
2	NAB1	ENSG00000138386	ENST00000484774	processed_transcript	PUTATIVE	None	7626	None	None	191524583	191548553	1	None	None
2	NAB1	ENSG00000138386	ENST00000357215	protein_coding	KNOWN	None	7626	1377	458	191513996	191555645	1	None	None
2	NAB1	ENSG00000138386	ENST00000545490	protein_coding	KNOWN	None	7626	684	227	191524556	191555999	1	None	None
16	EXOSC6	ENSG00000223496	ENST00000435634	protein_coding	KNOWN	CCDS10887	19055	819	272	70284134	70285833	-1	None	MTR3, hMtr3p, Mtr3p, EAP4, p11
20	GSTM3P1	ENSG00000227693	ENST00000447621	processed_pseudogene	KNOWN	None	16606	None	None	21482033	21482606	1	GSTM3P	dJ984P4.2
4	ADRA2C	ENSG00000184160	ENST00000509482	protein_coding	NOVEL	None	283	1125	374	3768075	3770218	1	ADRA2L2, ADRA2RL2	ADRARL2
4	ADRA2C	ENSG00000184160	ENST00000330055	protein_coding	KNOWN	CCDS47004	283	1389	462	3768125	3770251	1	ADRA2L2, ADRA2RL2	ADRARL2
11	OR8B2	ENSG00000204293	ENST00000375013	protein_coding	KNOWN	CCDS31708	8471	942	313	124252291	124253258	-1	None	None
X	OR13H1	ENSG00000171054	ENST00000338616	protein_coding	KNOWN	CCDS35396	14755	927	308	130677950	130679030	1	None	None
8	CEBPD	ENSG00000221869	ENST00000408965	protein_coding	KNOWN	CCDS6142	1835	810	269	48649471	48651648	-1	None	CRP3, CELF, C/EBP-delta, NF-IL6-beta
11	OR8B3	ENSG00000196661	ENST00000354597	protein_coding	KNOWN	CCDS31709	8472	942	313	124266278	124267264	-1	None	None
11	OR8B4	ENSG00000198657	ENST00000356130	protein_coding	PUTATIVE	CCDS31710	8473	930	309	124293807	124294789	-1	OR8B4P	None
4	OTOP1	ENSG00000163982	ENST00000296358	protein_coding	KNOWN	CCDS3372	19656	1839	612	4190530	4228616	-1	None	None
11	OR8B8	ENSG00000197125	ENST00000328064	protein_coding	PUTATIVE	CCDS8446	8477	936	311	124310022	124311054	-1	None	TPCR85
20	NKX2-2-AS1	ENSG00000258197	ENST00000549659	antisense	KNOWN	None	37154	None	None	21492085	21492947	1	None	NKX2-2AS
19	TBCB	ENSG00000105254	ENST00000593075	processed_transcript	PUTATIVE	None	1989	None	None	36605191	36606453	1	CKAP1	CG22, CKAPI
19	TBCB	ENSG00000105254	ENST00000221855	protein_coding	KNOWN	CCDS12488	1989	735	244	36605888	36616847	1	CKAP1	CG22, CKAPI
19	TBCB	ENSG00000105254	ENST00000481742	retained_intron	KNOWN	None	1989	None	None	36606385	36607654	1	CKAP1	CG22, CKAPI
19	TBCB	ENSG00000105254	ENST00000392178	processed_transcript	KNOWN	None	1989	None	None	36606386	36612787	1	CKAP1	CG22, CKAPI
19	TBCB	ENSG00000105254	ENST00000589996	protein_coding	PUTATIVE	None	1989	576	191	36606421	36616680	1	CKAP1	CG22, CKAPI
19	TBCB	ENSG00000105254	ENST00000591296	protein_coding	PUTATIVE	None	1989	399	132	36606514	36611665	1	CKAP1	CG22, CKAPI
19	TBCB	ENSG00000105254	ENST00000588385	protein_coding	PUTATIVE	None	1989	509	168	36606715	36616611	1	CKAP1	CG22, CKAPI
19	TBCB	ENSG00000105254	ENST00000589624	nonsense_mediated_decay	KNOWN	None	1989	138	45	36606724	36611708	1	CKAP1	CG22, CKAPI
19	TBCB	ENSG00000105254	ENST00000589308	processed_transcript	KNOWN	None	1989	None	None	36606730	36612745	1	CKAP1	CG22, CKAPI
19	TBCB	ENSG00000105254	ENST00000585746	protein_coding	NOVEL	None	1989	582	193	36606740	36616847	1	CKAP1	CG22, CKAPI
19	TBCB	ENSG00000105254	ENST00000586868	protein_coding	PUTATIVE	None	1989	183	60	36606974	36616849	1	CKAP1	CG22, CKAPI
19	TBCB	ENSG00000105254	ENST00000585910	retained_intron	KNOWN	None	1989	None	None	36611384	36616635	1	CKAP1	CG22, CKAPI
19	TBCB	ENSG00000105254	ENST00000468156	processed_transcript	KNOWN	None	1989	None	None	36612797	36616847	1	CKAP1	CG22, CKAPI
1	C1orf95	ENSG00000203685	ENST00000366788	protein_coding	KNOWN	CCDS31044	30491	426	141	226736501	226796915	1	None	DKFZp761P211
1	C1orf95	ENSG00000203685	ENST00000467495	retained_intron	KNOWN	None	30491	None	None	226788290	226789895	1	None	DKFZp761P211
1	C1orf95	ENSG00000203685	ENST00000366789	protein_coding	KNOWN	None	30491	426	141	226736501	226796915	1	None	DKFZp761P211
11	OR8B12	ENSG00000170953	ENST00000306842	protein_coding	KNOWN	CCDS31711	15307	933	310	124412578	124413575	-1	None	None
7	TFAMP1	ENSG00000230444	ENST00000412727	processed_pseudogene	KNOWN	None	11636	None	None	1654226	1654961	1	TCF6L1	MTTF1
9	KIF27	ENSG00000165115	ENST00000297814	protein_coding	KNOWN	CCDS6665	18632	4206	1401	86451613	86536342	-1	None	DKFZp434D0917
9	KIF27	ENSG00000165115	ENST00000376347	protein_coding	KNOWN	None	18632	861	286	86495033	86504185	-1	None	DKFZp434D0917
9	KIF27	ENSG00000165115	ENST00000495062	nonsense_mediated_decay	KNOWN	None	18632	516	171	86513611	86530593	-1	None	DKFZp434D0917
9	KIF27	ENSG00000165115	ENST00000413982	protein_coding	KNOWN	None	18632	4008	1335	86451613	86536342	-1	None	DKFZp434D0917
9	KIF27	ENSG00000165115	ENST00000334204	protein_coding	KNOWN	None	18632	3915	1304	86451613	86536342	-1	None	DKFZp434D0917
12	None	ENSG00000258064	ENST00000548802	nonsense_mediated_decay	KNOWN	None	None	255	84	72067984	72092748	1	None	None
11	OR8A1	ENSG00000196119	ENST00000284287	protein_coding	KNOWN	CCDS31712	8469	981	326	124439893	124441037	1	None	OST025
7	None	ENSG00000231476	ENST00000421380	lincRNA	KNOWN	None	None	None	None	1660290	1661041	1	None	None
11	PANX3	ENSG00000154143	ENST00000284288	protein_coding	KNOWN	CCDS8447	20573	1179	392	124481386	124490252	1	None	Px3
7	None	ENSG00000234977	ENST00000450458	lincRNA	KNOWN	None	None	None	None	1731542	1732086	-1	None	None
20	None	ENSG00000233492	ENST00000431034	lincRNA	KNOWN	None	None	None	None	21510840	21511382	1	None	None
19	ZNF780A	ENSG00000197782	ENST00000450241	protein_coding	KNOWN	None	27603	1824	607	40575059	40596795	-1	None	ZNF780
19	ZNF780A	ENSG00000197782	ENST00000414720	protein_coding	KNOWN	CCDS46078	27603	477	158	40576913	40596845	-1	None	ZNF780
19	ZNF780A	ENSG00000197782	ENST00000595687	protein_coding	KNOWN	CCDS33026	27603	1926	641	40579087	40596795	-1	None	ZNF780
19	ZNF780A	ENSG00000197782	ENST00000594395	protein_coding	KNOWN	CCDS46079	27603	1929	642	40580423	40596142	-1	None	ZNF780
19	ZNF780A	ENSG00000197782	ENST00000595773	protein_coding	KNOWN	None	27603	468	155	40581881	40596845	-1	None	ZNF780
19	ZNF780A	ENSG00000197782	ENST00000601715	non_stop_decay	KNOWN	None	27603	331	109	40582021	40596142	-1	None	ZNF780
19	ZNF780A	ENSG00000197782	ENST00000599368	non_stop_decay	KNOWN	None	27603	328	108	40582021	40596364	-1	None	ZNF780
19	ZNF780A	ENSG00000197782	ENST00000601688	non_stop_decay	KNOWN	None	27603	319	105	40582030	40596845	-1	None	ZNF780
19	ZNF780A	ENSG00000197782	ENST00000599972	protein_coding	KNOWN	None	27603	272	89	40582077	40596767	-1	None	ZNF780
19	ZNF780A	ENSG00000197782	ENST00000455521	protein_coding	KNOWN	CCDS46079	27603	1929	642	40578900	40596845	-1	None	ZNF780
19	ZNF780A	ENSG00000197782	ENST00000340963	protein_coding	KNOWN	CCDS33026	27603	1926	641	40580423	40596845	-1	None	ZNF780
7	None	ENSG00000236081	ENST00000453348	lincRNA	KNOWN	None	None	None	None	1778266	1781908	-1	None	None
7	None	ENSG00000236081	ENST00000415399	lincRNA	KNOWN	None	None	None	None	1778619	1781927	-1	None	None
X	None	ENSG00000134602	ENST00000394334	protein_coding	KNOWN	CCDS14631	None	1251	416	131157293	131209971	1	None	None
X	None	ENSG00000134602	ENST00000481105	protein_coding	NOVEL	None	None	1317	438	131157330	131208489	1	None	None
X	None	ENSG00000134602	ENST00000354719	protein_coding	NOVEL	None	None	1179	392	131157330	131209971	1	None	None
X	None	ENSG00000134602	ENST00000394335	protein_coding	NOVEL	CCDS48168	None	1020	339	131157333	131209971	1	None	None
X	None	ENSG00000134602	ENST00000496850	protein_coding	KNOWN	CCDS43995	None	1065	354	131157636	131208298	1	None	None
7	None	ENSG00000266391	ENST00000580559	miRNA	NOVEL	None	None	None	None	1820330	1820427	-1	None	None
12	DDX23	ENSG00000174243	ENST00000308025	protein_coding	KNOWN	CCDS8770	17347	2463	820	49223547	49245946	-1	None	prp28, U5-100K, PRPF28, SNRNP100
12	DDX23	ENSG00000174243	ENST00000550834	protein_coding	PUTATIVE	None	17347	780	259	49223840	49233638	-1	None	prp28, U5-100K, PRPF28, SNRNP100
12	DDX23	ENSG00000174243	ENST00000551331	retained_intron	KNOWN	None	17347	None	None	49224997	49226698	-1	None	prp28, U5-100K, PRPF28, SNRNP100
12	DDX23	ENSG00000174243	ENST00000549795	retained_intron	KNOWN	None	17347	None	None	49225612	49227128	-1	None	prp28, U5-100K, PRPF28, SNRNP100
12	DDX23	ENSG00000174243	ENST00000547842	retained_intron	KNOWN	None	17347	None	None	49225786	49226603	-1	None	prp28, U5-100K, PRPF28, SNRNP100
12	DDX23	ENSG00000174243	ENST00000552802	nonsense_mediated_decay	KNOWN	None	17347	457	151	49226205	49230463	-1	None	prp28, U5-100K, PRPF28, SNRNP100
12	DDX23	ENSG00000174243	ENST00000547290	retained_intron	KNOWN	None	17347	None	None	49226291	49228543	-1	None	prp28, U5-100K, PRPF28, SNRNP100
12	DDX23	ENSG00000174243	ENST00000553065	retained_intron	KNOWN	None	17347	None	None	49226306	49227344	-1	None	prp28, U5-100K, PRPF28, SNRNP100
12	DDX23	ENSG00000174243	ENST00000547135	nonsense_mediated_decay	KNOWN	None	17347	327	108	49228241	49245924	-1	None	prp28, U5-100K, PRPF28, SNRNP100
12	DDX23	ENSG00000174243	ENST00000547165	retained_intron	KNOWN	None	17347	None	None	49229959	49231844	-1	None	prp28, U5-100K, PRPF28, SNRNP100
12	DDX23	ENSG00000174243	ENST00000552069	retained_intron	KNOWN	None	17347	None	None	49230425	49231115	-1	None	prp28, U5-100K, PRPF28, SNRNP100
12	DDX23	ENSG00000174243	ENST00000551189	retained_intron	KNOWN	None	17347	None	None	49230555	49231483	-1	None	prp28, U5-100K, PRPF28, SNRNP100
12	DDX23	ENSG00000174243	ENST00000553182	processed_transcript	KNOWN	None	17347	None	None	49231075	49245924	-1	None	prp28, U5-100K, PRPF28, SNRNP100
12	DDX23	ENSG00000174243	ENST00000551098	retained_intron	KNOWN	None	17347	None	None	49231316	49245921	-1	None	prp28, U5-100K, PRPF28, SNRNP100
12	DDX23	ENSG00000174243	ENST00000552512	protein_coding	KNOWN	None	17347	546	181	49231798	49245924	-1	None	prp28, U5-100K, PRPF28, SNRNP100
12	DDX23	ENSG00000174243	ENST00000552369	processed_transcript	KNOWN	None	17347	None	None	49233270	49245924	-1	None	prp28, U5-100K, PRPF28, SNRNP100
12	DDX23	ENSG00000174243	ENST00000551468	protein_coding	KNOWN	None	17347	414	137	49233796	49245924	-1	None	prp28, U5-100K, PRPF28, SNRNP100
12	DDX23	ENSG00000174243	ENST00000552555	processed_transcript	KNOWN	None	17347	None	None	49233912	49246625	-1	None	prp28, U5-100K, PRPF28, SNRNP100
12	TMEM19	ENSG00000139291	ENST00000266673	protein_coding	KNOWN	CCDS9002	25605	1011	336	72079867	72097836	1	None	FLJ10936
12	TMEM19	ENSG00000139291	ENST00000550524	protein_coding	KNOWN	None	25605	511	169	72079894	72091188	1	None	FLJ10936
12	TMEM19	ENSG00000139291	ENST00000549735	protein_coding	KNOWN	None	25605	897	298	72080276	72093629	1	None	FLJ10936
12	TMEM19	ENSG00000139291	ENST00000546677	protein_coding	PUTATIVE	None	25605	429	142	72083404	72092774	1	None	FLJ10936
12	TMEM19	ENSG00000139291	ENST00000546795	protein_coding	PUTATIVE	None	25605	501	166	72091146	72097836	1	None	FLJ10936
12	TMEM19	ENSG00000139291	ENST00000550787	protein_coding	KNOWN	None	25605	457	151	72091232	72097836	1	None	FLJ10936
1	ITPKB	ENSG00000143772	ENST00000272117	protein_coding	KNOWN	CCDS1555	6179	2841	946	226819391	226925159	-1	None	IP3KB, IP3-3KB
1	ITPKB	ENSG00000143772	ENST00000366784	protein_coding	KNOWN	None	6179	1935	644	226894891	226927024	-1	None	IP3KB, IP3-3KB
1	ITPKB	ENSG00000143772	ENST00000429204	protein_coding	KNOWN	CCDS1555	6179	2841	946	226819391	226926864	-1	None	IP3KB, IP3-3KB
20	SLC25A6P1	ENSG00000233015	ENST00000412123	processed_pseudogene	KNOWN	None	16554	None	None	21722941	21723715	-1	SLC25A5L	dJ1065O2.2
16	AARS	ENSG00000090861	ENST00000261772	protein_coding	KNOWN	CCDS32474	20	2907	968	70286198	70323446	-1	None	None
16	AARS	ENSG00000090861	ENST00000569825	retained_intron	KNOWN	None	20	None	None	70287359	70292118	-1	None	None
16	AARS	ENSG00000090861	ENST00000565361	protein_coding	NOVEL	None	20	839	278	70288293	70296264	-1	None	None
16	AARS	ENSG00000090861	ENST00000564359	processed_transcript	KNOWN	None	20	None	None	70289638	70298888	-1	None	None
16	AARS	ENSG00000090861	ENST00000567490	retained_intron	KNOWN	None	20	None	None	70292927	70295316	-1	None	None
16	AARS	ENSG00000090861	ENST00000569790	processed_transcript	KNOWN	None	20	None	None	70292939	70301699	-1	None	None
16	AARS	ENSG00000090861	ENST00000566969	retained_intron	KNOWN	None	20	None	None	70296376	70299418	-1	None	None
4	HSD17B13	ENSG00000170509	ENST00000302219	protein_coding	KNOWN	CCDS47097	18685	795	264	88224941	88244038	-1	None	SCDR9, SDR16C3
4	HSD17B13	ENSG00000170509	ENST00000328546	protein_coding	KNOWN	CCDS3618	18685	903	300	88224941	88244058	-1	None	SCDR9, SDR16C3
20	RPL41P1	ENSG00000227063	ENST00000484902	processed_pseudogene	KNOWN	None	10356	None	None	21735908	21735988	1	RPL41L2	None
20	RPL41P1	ENSG00000227063	ENST00000546176	processed_pseudogene	KNOWN	None	10356	None	None	21735866	21736171	1	RPL41L2	None
2	GLS	ENSG00000115419	ENST00000320717	protein_coding	KNOWN	CCDS2308	4331	2010	669	191745553	191830278	1	None	KIAA0838, GLS1
2	GLS	ENSG00000115419	ENST00000338435	protein_coding	KNOWN	CCDS58744	4331	1797	598	191745560	191800015	1	None	KIAA0838, GLS1
2	GLS	ENSG00000115419	ENST00000479552	retained_intron	KNOWN	None	4331	None	None	191745598	191761294	1	None	KIAA0838, GLS1
2	GLS	ENSG00000115419	ENST00000496170	retained_intron	KNOWN	None	4331	None	None	191745881	191760589	1	None	KIAA0838, GLS1
2	GLS	ENSG00000115419	ENST00000469774	retained_intron	KNOWN	None	4331	None	None	191760378	191770002	1	None	KIAA0838, GLS1
2	GLS	ENSG00000115419	ENST00000417154	nonsense_mediated_decay	KNOWN	None	4331	345	114	191765390	191792119	1	None	KIAA0838, GLS1
2	GLS	ENSG00000115419	ENST00000461965	retained_intron	KNOWN	None	4331	None	None	191774989	191792337	1	None	KIAA0838, GLS1
2	GLS	ENSG00000115419	ENST00000468352	retained_intron	KNOWN	None	4331	None	None	191784771	191789318	1	None	KIAA0838, GLS1
2	GLS	ENSG00000115419	ENST00000495444	retained_intron	KNOWN	None	4331	None	None	191785753	191789506	1	None	KIAA0838, GLS1
2	GLS	ENSG00000115419	ENST00000409626	protein_coding	PUTATIVE	None	4331	510	169	191791730	191797734	1	None	KIAA0838, GLS1
2	GLS	ENSG00000115419	ENST00000457316	protein_coding	PUTATIVE	None	4331	492	163	191791742	191819376	1	None	KIAA0838, GLS1
2	GLS	ENSG00000115419	ENST00000409428	protein_coding	PUTATIVE	None	4331	525	174	191792398	191827884	1	None	KIAA0838, GLS1
2	GLS	ENSG00000115419	ENST00000409215	protein_coding	PUTATIVE	None	4331	312	103	191792419	191797810	1	None	KIAA0838, GLS1
2	GLS	ENSG00000115419	ENST00000412247	protein_coding	PUTATIVE	None	4331	549	182	191795175	191827896	1	None	KIAA0838, GLS1
2	GLS	ENSG00000115419	ENST00000471443	processed_transcript	PUTATIVE	None	4331	None	None	191796289	191797831	1	None	KIAA0838, GLS1
8	None	ENSG00000261667	ENST00000562505	protein_coding	PUTATIVE	None	None	417	138	144161874	144164418	1	None	None
8	LY6H	ENSG00000176956	ENST00000430474	protein_coding	KNOWN	CCDS6396	6728	423	140	144239331	144241457	-1	None	NMLY6
8	LY6H	ENSG00000176956	ENST00000479685	retained_intron	KNOWN	None	6728	None	None	144239331	144241726	-1	None	NMLY6
8	LY6H	ENSG00000176956	ENST00000342752	protein_coding	KNOWN	CCDS47926	6728	486	161	144239331	144241745	-1	None	NMLY6
8	LY6H	ENSG00000176956	ENST00000414417	protein_coding	KNOWN	CCDS47926	6728	486	161	144239331	144242128	-1	None	NMLY6
3	OSBPL11	ENSG00000144909	ENST00000296220	protein_coding	KNOWN	CCDS3033	16397	2244	747	125247702	125313934	-1	None	ORP-11, ORP11, FLJ13012, FLJ13164
11	OR5T1	ENSG00000181698	ENST00000313033	protein_coding	KNOWN	CCDS31525	14821	981	326	56043029	56044146	1	OR5T1P	None
11	OR8H1	ENSG00000181693	ENST00000313022	protein_coding	KNOWN	CCDS31526	14824	936	311	56057529	56058566	-1	None	None
11	TBRG1	ENSG00000154144	ENST00000473629	retained_intron	KNOWN	None	29551	None	None	124492732	124502330	1	None	FLJ14621, TB-5, NIAM
11	TBRG1	ENSG00000154144	ENST00000530731	nonsense_mediated_decay	KNOWN	None	29551	483	160	124492757	124502348	1	None	FLJ14621, TB-5, NIAM
11	TBRG1	ENSG00000154144	ENST00000531667	protein_coding	PUTATIVE	None	29551	338	111	124492766	124500324	1	None	FLJ14621, TB-5, NIAM
11	TBRG1	ENSG00000154144	ENST00000284290	nonsense_mediated_decay	KNOWN	None	29551	483	160	124492771	124505287	1	None	FLJ14621, TB-5, NIAM
11	TBRG1	ENSG00000154144	ENST00000441174	protein_coding	KNOWN	CCDS8448	29551	1236	411	124492776	124504698	1	None	FLJ14621, TB-5, NIAM
11	TBRG1	ENSG00000154144	ENST00000452080	nonsense_mediated_decay	KNOWN	None	29551	471	156	124492795	124496831	1	None	FLJ14621, TB-5, NIAM
11	TBRG1	ENSG00000154144	ENST00000529543	nonsense_mediated_decay	KNOWN	None	29551	306	101	124492890	124503320	1	None	FLJ14621, TB-5, NIAM
11	TBRG1	ENSG00000154144	ENST00000438907	processed_transcript	KNOWN	None	29551	None	None	124495662	124502134	1	None	FLJ14621, TB-5, NIAM
11	TBRG1	ENSG00000154144	ENST00000491010	retained_intron	KNOWN	None	29551	None	None	124496695	124502339	1	None	FLJ14621, TB-5, NIAM
11	TBRG1	ENSG00000154144	ENST00000531033	retained_intron	KNOWN	None	29551	None	None	124499818	124502301	1	None	FLJ14621, TB-5, NIAM
11	TBRG1	ENSG00000154144	ENST00000375005	protein_coding	KNOWN	None	29551	783	260	124492793	124502331	1	None	FLJ14621, TB-5, NIAM
11	OR8K3	ENSG00000181689	ENST00000312711	protein_coding	KNOWN	CCDS31527	15313	939	312	56085783	56086721	1	None	None
9	DNAI1	ENSG00000122735	ENST00000470982	processed_transcript	KNOWN	None	2954	None	None	34457412	34488535	1	None	DIC1, PCD, CILD1
9	DNAI1	ENSG00000122735	ENST00000437363	protein_coding	KNOWN	None	2954	868	288	34458833	34497197	1	None	DIC1, PCD, CILD1
9	DNAI1	ENSG00000122735	ENST00000242317	protein_coding	KNOWN	CCDS6557	2954	2100	699	34458833	34520982	1	None	DIC1, PCD, CILD1
9	DNAI1	ENSG00000122735	ENST00000488369	processed_transcript	KNOWN	None	2954	None	None	34485044	34493326	1	None	DIC1, PCD, CILD1
9	DNAI1	ENSG00000122735	ENST00000488790	processed_transcript	KNOWN	None	2954	None	None	34491341	34493219	1	None	DIC1, PCD, CILD1
9	DNAI1	ENSG00000122735	ENST00000470169	nonsense_mediated_decay	KNOWN	None	2954	527	174	34506625	34517465	1	None	DIC1, PCD, CILD1
9	DNAI1	ENSG00000122735	ENST00000442556	protein_coding	KNOWN	None	2954	428	141	34513110	34520982	1	None	DIC1, PCD, CILD1
9	DNAI1	ENSG00000122735	ENST00000485580	processed_transcript	KNOWN	None	2954	None	None	34513142	34517465	1	None	DIC1, PCD, CILD1
9	DNAI1	ENSG00000122735	ENST00000545019	protein_coding	KNOWN	None	2954	507	168	34458887	34488890	1	None	DIC1, PCD, CILD1
3	AMIGO3	ENSG00000176020	ENST00000320431	protein_coding	KNOWN	CCDS33759	24075	1515	504	49754267	49757128	-1	None	None
3	AMIGO3	ENSG00000176020	ENST00000535833	protein_coding	KNOWN	CCDS33759	24075	1515	504	49754277	49761349	-1	None	None
7	TRIP6	ENSG00000087077	ENST00000200457	protein_coding	KNOWN	CCDS5708	12311	1431	476	100464760	100471076	1	None	ZRP-1, OIP1, MGC10556, MGC10558, MGC29959, MGC3837, MGC4423
7	TRIP6	ENSG00000087077	ENST00000496260	retained_intron	KNOWN	None	12311	None	None	100465009	100465763	1	None	ZRP-1, OIP1, MGC10556, MGC10558, MGC29959, MGC3837, MGC4423
7	TRIP6	ENSG00000087077	ENST00000417475	nonsense_mediated_decay	KNOWN	None	12311	321	106	100465009	100468297	1	None	ZRP-1, OIP1, MGC10556, MGC10558, MGC29959, MGC3837, MGC4423
7	TRIP6	ENSG00000087077	ENST00000476870	retained_intron	KNOWN	None	12311	None	None	100465011	100471075	1	None	ZRP-1, OIP1, MGC10556, MGC10558, MGC29959, MGC3837, MGC4423
7	TRIP6	ENSG00000087077	ENST00000437505	nonsense_mediated_decay	KNOWN	None	12311	243	80	100465016	100468265	1	None	ZRP-1, OIP1, MGC10556, MGC10558, MGC29959, MGC3837, MGC4423
7	TRIP6	ENSG00000087077	ENST00000463125	retained_intron	KNOWN	None	12311	None	None	100465918	100468365	1	None	ZRP-1, OIP1, MGC10556, MGC10558, MGC29959, MGC3837, MGC4423
7	TRIP6	ENSG00000087077	ENST00000429658	protein_coding	NOVEL	None	12311	646	214	100466433	100470275	1	None	ZRP-1, OIP1, MGC10556, MGC10558, MGC29959, MGC3837, MGC4423
7	TRIP6	ENSG00000087077	ENST00000488670	retained_intron	KNOWN	None	12311	None	None	100468405	100470455	1	None	ZRP-1, OIP1, MGC10556, MGC10558, MGC29959, MGC3837, MGC4423
11	OR8K1	ENSG00000150261	ENST00000279783	protein_coding	KNOWN	CCDS31528	14831	960	319	56113421	56114507	1	None	None
11	OR8J1	ENSG00000172487	ENST00000303039	protein_coding	KNOWN	CCDS31529	14855	951	316	56127691	56128764	1	None	None
9	CIZ1	ENSG00000148337	ENST00000471773	processed_transcript	KNOWN	None	16744	None	None	130928343	130931740	-1	None	LSFR1, ZNF356
9	CIZ1	ENSG00000148337	ENST00000485862	processed_transcript	KNOWN	None	16744	None	None	130928344	130929752	-1	None	LSFR1, ZNF356
9	CIZ1	ENSG00000148337	ENST00000372954	protein_coding	KNOWN	CCDS48033	16744	2457	818	130928344	130953847	-1	None	LSFR1, ZNF356
9	CIZ1	ENSG00000148337	ENST00000461765	processed_transcript	KNOWN	None	16744	None	None	130928346	130929962	-1	None	LSFR1, ZNF356
9	CIZ1	ENSG00000148337	ENST00000277465	protein_coding	KNOWN	None	16744	2613	870	130928350	130953139	-1	None	LSFR1, ZNF356
9	CIZ1	ENSG00000148337	ENST00000372948	protein_coding	KNOWN	CCDS48034	16744	2529	842	130928350	130966662	-1	None	LSFR1, ZNF356
9	CIZ1	ENSG00000148337	ENST00000372938	protein_coding	KNOWN	CCDS6894	16744	2697	898	130928352	130953868	-1	None	LSFR1, ZNF356
9	CIZ1	ENSG00000148337	ENST00000415526	protein_coding	KNOWN	None	16744	2463	820	130928431	130952989	-1	None	LSFR1, ZNF356
9	CIZ1	ENSG00000148337	ENST00000471839	processed_transcript	KNOWN	None	16744	None	None	130928548	130939887	-1	None	LSFR1, ZNF356
9	CIZ1	ENSG00000148337	ENST00000491487	processed_transcript	KNOWN	None	16744	None	None	130928586	130929276	-1	None	LSFR1, ZNF356
9	CIZ1	ENSG00000148337	ENST00000485001	processed_transcript	KNOWN	None	16744	None	None	130928900	130931382	-1	None	LSFR1, ZNF356
9	CIZ1	ENSG00000148337	ENST00000476727	processed_transcript	KNOWN	None	16744	None	None	130929038	130953829	-1	None	LSFR1, ZNF356
9	CIZ1	ENSG00000148337	ENST00000476541	retained_intron	KNOWN	None	16744	None	None	130931014	130931730	-1	None	LSFR1, ZNF356
9	CIZ1	ENSG00000148337	ENST00000475471	processed_transcript	KNOWN	None	16744	None	None	130939848	130941288	-1	None	LSFR1, ZNF356
9	CIZ1	ENSG00000148337	ENST00000476239	processed_transcript	KNOWN	None	16744	None	None	130939867	130943077	-1	None	LSFR1, ZNF356
9	CIZ1	ENSG00000148337	ENST00000488559	processed_transcript	KNOWN	None	16744	None	None	130941330	130953767	-1	None	LSFR1, ZNF356
9	CIZ1	ENSG00000148337	ENST00000467178	processed_transcript	KNOWN	None	16744	None	None	130941396	130953836	-1	None	LSFR1, ZNF356
9	CIZ1	ENSG00000148337	ENST00000491954	processed_transcript	KNOWN	None	16744	None	None	130941493	130953113	-1	None	LSFR1, ZNF356
9	CIZ1	ENSG00000148337	ENST00000498156	processed_transcript	KNOWN	None	16744	None	None	130941657	130953137	-1	None	LSFR1, ZNF356
9	CIZ1	ENSG00000148337	ENST00000324544	protein_coding	KNOWN	None	16744	758	251	130942727	130954056	-1	None	LSFR1, ZNF356
9	CIZ1	ENSG00000148337	ENST00000474442	processed_transcript	KNOWN	None	16744	None	None	130943078	130952746	-1	None	LSFR1, ZNF356
9	CIZ1	ENSG00000148337	ENST00000420484	protein_coding	KNOWN	None	16744	506	167	130947908	130953731	-1	None	LSFR1, ZNF356
9	CIZ1	ENSG00000148337	ENST00000393608	protein_coding	KNOWN	CCDS6894	16744	2697	898	130928344	130966662	-1	None	LSFR1, ZNF356
9	CIZ1	ENSG00000148337	ENST00000538431	protein_coding	KNOWN	None	16744	2775	924	130928345	130954376	-1	None	LSFR1, ZNF356
9	CIZ1	ENSG00000148337	ENST00000357558	protein_coding	KNOWN	None	16744	2613	870	130928345	130953868	-1	None	LSFR1, ZNF356
9	CIZ1	ENSG00000148337	ENST00000325721	protein_coding	KNOWN	None	16744	2610	869	130928345	130953868	-1	None	LSFR1, ZNF356
9	CIZ1	ENSG00000148337	ENST00000541172	protein_coding	KNOWN	CCDS59147	16744	2394	797	130928345	130953851	-1	None	LSFR1, ZNF356
1	UBAP2L	ENSG00000143569	ENST00000343815	protein_coding	KNOWN	CCDS44229	29877	2952	983	154192655	154235981	1	None	NICE-4, KIAA0144
1	UBAP2L	ENSG00000143569	ENST00000441890	protein_coding	KNOWN	None	29877	547	181	154193361	154207770	1	None	NICE-4, KIAA0144
1	UBAP2L	ENSG00000143569	ENST00000412596	protein_coding	KNOWN	None	29877	842	279	154193419	154215778	1	None	NICE-4, KIAA0144
1	UBAP2L	ENSG00000143569	ENST00000368504	protein_coding	KNOWN	None	29877	1051	349	154193423	154218855	1	None	NICE-4, KIAA0144
1	UBAP2L	ENSG00000143569	ENST00000437652	protein_coding	KNOWN	None	29877	797	264	154193443	154215754	1	None	NICE-4, KIAA0144
1	UBAP2L	ENSG00000143569	ENST00000456325	protein_coding	KNOWN	None	29877	703	233	154193804	154209612	1	None	NICE-4, KIAA0144
1	UBAP2L	ENSG00000143569	ENST00000361546	protein_coding	KNOWN	CCDS1063	29877	3264	1087	154197558	154243329	1	None	NICE-4, KIAA0144
1	UBAP2L	ENSG00000143569	ENST00000466173	processed_transcript	KNOWN	None	29877	None	None	154215406	154223576	1	None	NICE-4, KIAA0144
1	UBAP2L	ENSG00000143569	ENST00000495676	processed_transcript	KNOWN	None	29877	None	None	154227123	154232459	1	None	NICE-4, KIAA0144
1	UBAP2L	ENSG00000143569	ENST00000489076	processed_transcript	KNOWN	None	29877	None	None	154227723	154230322	1	None	NICE-4, KIAA0144
1	UBAP2L	ENSG00000143569	ENST00000433615	protein_coding	KNOWN	None	29877	1198	398	154227728	154243986	1	None	NICE-4, KIAA0144
1	UBAP2L	ENSG00000143569	ENST00000428595	protein_coding	KNOWN	None	29877	1150	382	154229547	154243040	1	None	NICE-4, KIAA0144
1	UBAP2L	ENSG00000143569	ENST00000465855	processed_transcript	KNOWN	None	29877	None	None	154229821	154234175	1	None	NICE-4, KIAA0144
1	UBAP2L	ENSG00000143569	ENST00000484696	processed_transcript	KNOWN	None	29877	None	None	154231107	154233496	1	None	NICE-4, KIAA0144
1	UBAP2L	ENSG00000143569	ENST00000475373	processed_transcript	KNOWN	None	29877	None	None	154232212	154235798	1	None	NICE-4, KIAA0144
1	UBAP2L	ENSG00000143569	ENST00000493867	processed_transcript	KNOWN	None	29877	None	None	154234104	154243649	1	None	NICE-4, KIAA0144
1	UBAP2L	ENSG00000143569	ENST00000484819	processed_transcript	KNOWN	None	29877	None	None	154238928	154242171	1	None	NICE-4, KIAA0144
1	UBAP2L	ENSG00000143569	ENST00000271877	protein_coding	KNOWN	None	29877	3237	1078	154193392	154243485	1	None	NICE-4, KIAA0144
1	UBAP2L	ENSG00000143569	ENST00000428931	protein_coding	KNOWN	CCDS1063	29877	3264	1087	154193325	154243328	1	None	NICE-4, KIAA0144
1	PSEN2	ENSG00000143801	ENST00000524196	protein_coding	KNOWN	None	9509	63	20	227057885	227069671	1	AD4	AD3L, STM2, PS2
1	PSEN2	ENSG00000143801	ENST00000366783	protein_coding	KNOWN	CCDS1556	9509	1347	448	227058264	227083799	1	AD4	AD3L, STM2, PS2
1	PSEN2	ENSG00000143801	ENST00000495488	protein_coding	KNOWN	None	9509	387	128	227058317	227073269	1	AD4	AD3L, STM2, PS2
1	PSEN2	ENSG00000143801	ENST00000422240	protein_coding	KNOWN	CCDS44324	9509	1344	447	227058321	227083504	1	AD4	AD3L, STM2, PS2
1	PSEN2	ENSG00000143801	ENST00000521431	retained_intron	KNOWN	None	9509	None	None	227058564	227063253	1	AD4	AD3L, STM2, PS2
1	PSEN2	ENSG00000143801	ENST00000460775	protein_coding	PUTATIVE	None	9509	434	143	227058965	227079045	1	AD4	AD3L, STM2, PS2
1	PSEN2	ENSG00000143801	ENST00000366782	protein_coding	PUTATIVE	None	9509	1446	481	227058969	227083799	1	AD4	AD3L, STM2, PS2
1	PSEN2	ENSG00000143801	ENST00000496965	nonsense_mediated_decay	KNOWN	None	9509	1083	360	227069589	227083799	1	AD4	AD3L, STM2, PS2
1	PSEN2	ENSG00000143801	ENST00000472139	protein_coding	PUTATIVE	None	9509	915	304	227072324	227083392	1	AD4	AD3L, STM2, PS2
1	PSEN2	ENSG00000143801	ENST00000487450	processed_transcript	KNOWN	None	9509	None	None	227078267	227079521	1	AD4	AD3L, STM2, PS2
1	PSEN2	ENSG00000143801	ENST00000471728	processed_transcript	KNOWN	None	9509	None	None	227078520	227083245	1	AD4	AD3L, STM2, PS2
1	PSEN2	ENSG00000143801	ENST00000391872	protein_coding	KNOWN	None	9509	1446	481	227068347	227083806	1	AD4	AD3L, STM2, PS2
1	PSEN2	ENSG00000143801	ENST00000340188	protein_coding	KNOWN	None	9509	1248	415	227058273	227083806	1	AD4	AD3L, STM2, PS2
12	ITGB7	ENSG00000139626	ENST00000267082	protein_coding	KNOWN	CCDS8849	6162	2397	798	53585102	53601091	-1	None	None
12	ITGB7	ENSG00000139626	ENST00000551319	protein_coding	PUTATIVE	None	6162	353	116	53585107	53586272	-1	None	None
12	ITGB7	ENSG00000139626	ENST00000422257	protein_coding	KNOWN	CCDS8849	6162	2397	798	53585107	53601066	-1	None	None
12	ITGB7	ENSG00000139626	ENST00000550743	protein_coding	NOVEL	None	6162	1953	650	53585155	53594227	-1	None	None
12	ITGB7	ENSG00000139626	ENST00000542497	nonsense_mediated_decay	KNOWN	None	6162	1416	471	53585341	53601065	-1	None	None
12	ITGB7	ENSG00000139626	ENST00000548706	retained_intron	KNOWN	None	6162	None	None	53586752	53588042	-1	None	None
12	ITGB7	ENSG00000139626	ENST00000548269	retained_intron	KNOWN	None	6162	None	None	53587461	53588242	-1	None	None
12	ITGB7	ENSG00000139626	ENST00000551887	retained_intron	KNOWN	None	6162	None	None	53589438	53590895	-1	None	None
12	ITGB7	ENSG00000139626	ENST00000549196	retained_intron	KNOWN	None	6162	None	None	53589885	53591493	-1	None	None
12	ITGB7	ENSG00000139626	ENST00000589179	retained_intron	KNOWN	None	6162	None	None	53590116	53601035	-1	None	None
12	ITGB7	ENSG00000139626	ENST00000549462	retained_intron	KNOWN	None	6162	None	None	53590378	53601035	-1	None	None
12	ITGB7	ENSG00000139626	ENST00000552972	protein_coding	KNOWN	None	6162	476	157	53591375	53601065	-1	None	None
12	ITGB7	ENSG00000139626	ENST00000552935	protein_coding	KNOWN	None	6162	281	92	53591656	53595084	-1	None	None
12	ITGB7	ENSG00000139626	ENST00000549086	protein_coding	KNOWN	None	6162	266	87	53591671	53601038	-1	None	None
12	ITGB7	ENSG00000139626	ENST00000338737	protein_coding	KNOWN	None	6162	1953	650	53585110	53601000	-1	None	None
8	PRKDC	ENSG00000253729	ENST00000523565	processed_transcript	KNOWN	None	9413	None	None	48685669	48872743	-1	HYRC, HYRC1	DNPK1, p350, DNAPK, XRCC7, DNA-PKcs
8	PRKDC	ENSG00000253729	ENST00000518216	processed_transcript	KNOWN	None	9413	None	None	48686296	48872738	-1	HYRC, HYRC1	DNPK1, p350, DNAPK, XRCC7, DNA-PKcs
8	PRKDC	ENSG00000253729	ENST00000536429	protein_coding	PUTATIVE	None	9413	271	89	48686548	48691098	-1	HYRC, HYRC1	DNPK1, p350, DNAPK, XRCC7, DNA-PKcs
8	PRKDC	ENSG00000253729	ENST00000536483	retained_intron	KNOWN	None	9413	None	None	48686695	48691280	-1	HYRC, HYRC1	DNPK1, p350, DNAPK, XRCC7, DNA-PKcs
8	PRKDC	ENSG00000253729	ENST00000521331	retained_intron	KNOWN	None	9413	None	None	48691020	48695568	-1	HYRC, HYRC1	DNPK1, p350, DNAPK, XRCC7, DNA-PKcs
8	PRKDC	ENSG00000253729	ENST00000536710	retained_intron	KNOWN	None	9413	None	None	48691098	48691922	-1	HYRC, HYRC1	DNPK1, p350, DNAPK, XRCC7, DNA-PKcs
8	PRKDC	ENSG00000253729	ENST00000432581	retained_intron	KNOWN	None	9413	None	None	48694975	48696700	-1	HYRC, HYRC1	DNPK1, p350, DNAPK, XRCC7, DNA-PKcs
8	PRKDC	ENSG00000253729	ENST00000546304	retained_intron	KNOWN	None	9413	None	None	48774930	48777353	-1	HYRC, HYRC1	DNPK1, p350, DNAPK, XRCC7, DNA-PKcs
8	PRKDC	ENSG00000253729	ENST00000541488	retained_intron	KNOWN	None	9413	None	None	48839393	48841729	-1	HYRC, HYRC1	DNPK1, p350, DNAPK, XRCC7, DNA-PKcs
8	PRKDC	ENSG00000253729	ENST00000535375	retained_intron	KNOWN	None	9413	None	None	48849014	48852510	-1	HYRC, HYRC1	DNPK1, p350, DNAPK, XRCC7, DNA-PKcs
8	PRKDC	ENSG00000253729	ENST00000540819	protein_coding	PUTATIVE	None	9413	211	69	48866910	48871869	-1	HYRC, HYRC1	DNPK1, p350, DNAPK, XRCC7, DNA-PKcs
8	PRKDC	ENSG00000253729	ENST00000314191	protein_coding	KNOWN	None	9413	12384	4127	48685669	48872743	-1	HYRC, HYRC1	DNPK1, p350, DNAPK, XRCC7, DNA-PKcs
8	PRKDC	ENSG00000253729	ENST00000338368	protein_coding	KNOWN	None	9413	12291	4096	48685669	48872743	-1	HYRC, HYRC1	DNPK1, p350, DNAPK, XRCC7, DNA-PKcs
7	MIR4655	ENSG00000265089	ENST00000580817	miRNA	KNOWN	None	41754	None	None	1883816	1883889	-1	None	hsa-mir-4655
8	TSPYL5	ENSG00000180543	ENST00000322128	protein_coding	KNOWN	CCDS34927	29367	1254	417	98285717	98290176	-1	None	KIAA1750
7	None	ENSG00000271098	ENST00000604197	processed_pseudogene	KNOWN	None	None	None	None	2327550	2328063	1	None	None
17	SAT2	ENSG00000141504	ENST00000576846	retained_intron	KNOWN	None	23160	None	None	7529552	7531114	-1	None	SSAT2
17	SAT2	ENSG00000141504	ENST00000269298	protein_coding	KNOWN	CCDS11116	23160	513	170	7529552	7531173	-1	None	SSAT2
17	SAT2	ENSG00000141504	ENST00000570914	retained_intron	KNOWN	None	23160	None	None	7529555	7530457	-1	None	SSAT2
17	SAT2	ENSG00000141504	ENST00000380466	processed_transcript	KNOWN	None	23160	None	None	7529555	7531187	-1	None	SSAT2
17	SAT2	ENSG00000141504	ENST00000576579	retained_intron	KNOWN	None	23160	None	None	7529556	7530797	-1	None	SSAT2
17	SAT2	ENSG00000141504	ENST00000571074	nonsense_mediated_decay	KNOWN	None	23160	126	41	7529655	7531177	-1	None	SSAT2
17	SAT2	ENSG00000141504	ENST00000575826	nonsense_mediated_decay	KNOWN	None	23160	126	41	7529660	7531114	-1	None	SSAT2
17	SAT2	ENSG00000141504	ENST00000571195	retained_intron	KNOWN	None	23160	None	None	7529684	7531120	-1	None	SSAT2
17	SAT2	ENSG00000141504	ENST00000573566	protein_coding	NOVEL	None	23160	411	136	7529706	7531123	-1	None	SSAT2
17	SAT2	ENSG00000141504	ENST00000570850	processed_transcript	KNOWN	None	23160	None	None	7529721	7531120	-1	None	SSAT2
17	SAT2	ENSG00000141504	ENST00000576686	processed_transcript	KNOWN	None	23160	None	None	7529852	7531194	-1	None	SSAT2
17	SAT2	ENSG00000141504	ENST00000572224	retained_intron	KNOWN	None	23160	None	None	7530100	7531153	-1	None	SSAT2
17	SAT2	ENSG00000141504	ENST00000575114	retained_intron	KNOWN	None	23160	None	None	7530264	7531164	-1	None	SSAT2
17	SAT2	ENSG00000141504	ENST00000573930	retained_intron	KNOWN	None	23160	None	None	7530277	7531123	-1	None	SSAT2
7	None	ENSG00000230914	ENST00000443103	lincRNA	KNOWN	None	None	None	None	2423756	2428232	1	None	None
7	None	ENSG00000271163	ENST00000603368	processed_pseudogene	KNOWN	None	None	None	None	2433482	2433766	-1	None	None
7	None	ENSG00000175873	ENST00000313156	lincRNA	KNOWN	None	None	None	None	2477398	2487485	1	None	None
7	GRIFIN	ENSG00000236734	ENST00000420313	processed_transcript	KNOWN	None	4577	None	None	2514360	2516017	-1	None	None
7	GRIFIN	ENSG00000236734	ENST00000417742	processed_transcript	KNOWN	None	4577	None	None	2515065	2516528	-1	None	None
7	MIR4648	ENSG00000264357	ENST00000580107	miRNA	KNOWN	None	41560	None	None	2566708	2566779	1	None	hsa-mir-4648
7	None	ENSG00000238857	ENST00000459068	snoRNA	NOVEL	None	None	None	None	2590504	2590599	-1	None	None
7	None	ENSG00000231357	ENST00000438379	processed_pseudogene	KNOWN	None	None	None	None	2875255	2875656	1	None	None
7	None	ENSG00000237286	ENST00000423194	antisense	KNOWN	None	None	None	None	2983669	2986725	1	None	None
7	RN7SKP130	ENSG00000201794	ENST00000364924	misc_RNA	KNOWN	None	45854	None	None	3038728	3039028	1	None	None
7	None	ENSG00000228334	ENST00000437145	lincRNA	KNOWN	None	None	None	None	3122886	3126055	-1	None	None
7	None	ENSG00000231892	ENST00000414126	lincRNA	KNOWN	None	None	None	None	3236258	3237888	-1	None	None
17	CCL15-CCL14	ENSG00000161574	ENST00000495214	nonsense_mediated_decay	KNOWN	CCDS11304	44436	342	113	34310692	34328590	-1	None	None
17	CCL15-CCL14	ENSG00000161574	ENST00000481427	nonsense_mediated_decay	KNOWN	CCDS11304	44436	342	113	34310692	34328660	-1	None	None
7	None	ENSG00000236708	ENST00000437354	antisense	KNOWN	None	None	None	None	3303664	3342084	-1	None	None
7	None	ENSG00000224593	ENST00000439177	processed_transcript	KNOWN	None	None	None	None	3377521	3378121	1	None	None
7	None	ENSG00000224593	ENST00000430569	transcribed_processed_pseudogene	KNOWN	None	None	None	None	3377758	3378233	1	None	None
11	OR8U1	ENSG00000172199	ENST00000302270	protein_coding	KNOWN	CCDS41647	19611	930	309	56143100	56144029	1	None	None
11	OR5R1	ENSG00000174942	ENST00000312253	protein_coding	KNOWN	CCDS31530	14841	975	324	56184734	56185708	-1	OR5R1P	None
17	None	ENSG00000266956	ENST00000593057	processed_transcript	PUTATIVE	None	None	None	None	34310692	34313746	1	None	None
17	None	ENSG00000266956	ENST00000591669	protein_coding	NOVEL	None	None	195	64	34312621	34317306	1	None	None
11	OR5M9	ENSG00000150269	ENST00000279791	protein_coding	KNOWN	CCDS31531	15294	933	310	56229945	56230877	-1	None	None
15	SEMA4B	ENSG00000185033	ENST00000559322	protein_coding	KNOWN	None	10730	341	112	90703836	90761018	1	SEMAC	SemC, KIAA1745, MGC131831
15	SEMA4B	ENSG00000185033	ENST00000559300	nonsense_mediated_decay	KNOWN	None	10730	156	51	90728150	90763075	1	SEMAC	SemC, KIAA1745, MGC131831
15	SEMA4B	ENSG00000185033	ENST00000561085	protein_coding	PUTATIVE	None	10730	345	114	90728152	90764307	1	SEMAC	SemC, KIAA1745, MGC131831
15	SEMA4B	ENSG00000185033	ENST00000332496	protein_coding	KNOWN	CCDS45347	10730	2514	837	90728195	90772902	1	SEMAC	SemC, KIAA1745, MGC131831
15	SEMA4B	ENSG00000185033	ENST00000558895	protein_coding	KNOWN	None	10730	273	90	90733576	90760786	1	SEMAC	SemC, KIAA1745, MGC131831
15	SEMA4B	ENSG00000185033	ENST00000560263	processed_transcript	KNOWN	None	10730	None	None	90735154	90736795	1	SEMAC	SemC, KIAA1745, MGC131831
15	SEMA4B	ENSG00000185033	ENST00000559792	protein_coding	KNOWN	None	10730	365	120	90735160	90761042	1	SEMAC	SemC, KIAA1745, MGC131831
15	SEMA4B	ENSG00000185033	ENST00000411539	protein_coding	KNOWN	CCDS45347	10730	2514	837	90744551	90772908	1	SEMAC	SemC, KIAA1745, MGC131831
15	SEMA4B	ENSG00000185033	ENST00000560089	nonsense_mediated_decay	KNOWN	None	10730	192	63	90744653	90771979	1	SEMAC	SemC, KIAA1745, MGC131831
15	SEMA4B	ENSG00000185033	ENST00000558051	protein_coding	NOVEL	None	10730	509	168	90744768	90764624	1	SEMAC	SemC, KIAA1745, MGC131831
15	SEMA4B	ENSG00000185033	ENST00000560003	retained_intron	KNOWN	None	10730	None	None	90760288	90761017	1	SEMAC	SemC, KIAA1745, MGC131831
15	SEMA4B	ENSG00000185033	ENST00000558848	retained_intron	KNOWN	None	10730	None	None	90760849	90763450	1	SEMAC	SemC, KIAA1745, MGC131831
15	SEMA4B	ENSG00000185033	ENST00000558065	retained_intron	KNOWN	None	10730	None	None	90762440	90772911	1	SEMAC	SemC, KIAA1745, MGC131831
15	SEMA4B	ENSG00000185033	ENST00000558975	retained_intron	KNOWN	None	10730	None	None	90764850	90767024	1	SEMAC	SemC, KIAA1745, MGC131831
15	SEMA4B	ENSG00000185033	ENST00000559074	protein_coding	PUTATIVE	None	10730	1384	460	90764982	90772892	1	SEMAC	SemC, KIAA1745, MGC131831
15	SEMA4B	ENSG00000185033	ENST00000560993	retained_intron	KNOWN	None	10730	None	None	90767109	90768906	1	SEMAC	SemC, KIAA1745, MGC131831
15	SEMA4B	ENSG00000185033	ENST00000561252	retained_intron	KNOWN	None	10730	None	None	90768234	90768840	1	SEMAC	SemC, KIAA1745, MGC131831
15	SEMA4B	ENSG00000185033	ENST00000559983	protein_coding	NOVEL	None	10730	758	251	90768304	90771387	1	SEMAC	SemC, KIAA1745, MGC131831
15	SEMA4B	ENSG00000185033	ENST00000559247	protein_coding	PUTATIVE	None	10730	362	119	90768556	90771639	1	SEMAC	SemC, KIAA1745, MGC131831
15	SEMA4B	ENSG00000185033	ENST00000561321	retained_intron	KNOWN	None	10730	None	None	90770471	90771294	1	SEMAC	SemC, KIAA1745, MGC131831
15	SEMA4B	ENSG00000185033	ENST00000379122	protein_coding	KNOWN	None	10730	2214	737	90728152	90772579	1	SEMAC	SemC, KIAA1745, MGC131831
11	OR5M3	ENSG00000174937	ENST00000312240	protein_coding	KNOWN	CCDS31532	14806	924	307	56236964	56238014	-1	None	None
17	None	ENSG00000215621	ENST00000457257	protein_coding	NOVEL	None	None	528	175	79780293	79784533	-1	None	None
11	OR5M8	ENSG00000181371	ENST00000327216	protein_coding	KNOWN	CCDS31533	14846	936	311	56257825	56258871	-1	None	None
12	RAB21	ENSG00000080371	ENST00000261263	protein_coding	KNOWN	CCDS9003	18263	678	225	72148654	72184699	1	None	KIAA0118
12	RAB21	ENSG00000080371	ENST00000358546	retained_intron	KNOWN	None	18263	None	None	72164316	72179699	1	None	KIAA0118
12	RAB21	ENSG00000080371	ENST00000547246	retained_intron	KNOWN	None	18263	None	None	72164390	72168080	1	None	KIAA0118
12	RAB21	ENSG00000080371	ENST00000552686	retained_intron	KNOWN	None	18263	None	None	72176194	72179469	1	None	KIAA0118
11	OR5M11	ENSG00000255223	ENST00000528616	protein_coding	KNOWN	CCDS53629	15291	918	305	56309746	56310757	-1	None	OR11-199
17	PPP1R27	ENSG00000182676	ENST00000330261	protein_coding	KNOWN	CCDS32767	16813	465	154	79791368	79792909	-1	DYSFIP1	toonin
17	PPP1R27	ENSG00000182676	ENST00000573182	processed_transcript	PUTATIVE	None	16813	None	None	79791369	79791895	-1	DYSFIP1	toonin
17	PPP1R27	ENSG00000182676	ENST00000570394	protein_coding	PUTATIVE	None	16813	345	114	79791374	79792926	-1	DYSFIP1	toonin
11	OR5M10	ENSG00000254834	ENST00000526812	protein_coding	KNOWN	CCDS53630	15290	948	315	56344212	56345263	-1	None	None
15	FAM98B	ENSG00000171262	ENST00000397609	protein_coding	KNOWN	CCDS10047	26773	1302	433	38746328	38779911	1	None	FLJ38426
15	FAM98B	ENSG00000171262	ENST00000491535	protein_coding	KNOWN	CCDS42015	26773	993	330	38746355	38775866	1	None	FLJ38426
15	FAM98B	ENSG00000171262	ENST00000305752	retained_intron	KNOWN	None	26773	None	None	38756350	38762863	1	None	FLJ38426
15	FAM98B	ENSG00000171262	ENST00000559431	protein_coding	PUTATIVE	None	26773	305	100	38757547	38776839	1	None	FLJ38426
11	OR5M1	ENSG00000255012	ENST00000526538	protein_coding	KNOWN	CCDS53631	8352	948	315	56380031	56380978	-1	None	OST050
17	ZNF286A	ENSG00000255104	ENST00000412988	nonsense_mediated_decay	KNOWN	None	13501	1536	511	15603006	15640874	1	ZNF286	KIAA1874
17	ZNF286A	ENSG00000255104	ENST00000585171	processed_transcript	KNOWN	None	13501	None	None	15603055	15638325	1	ZNF286	KIAA1874
17	ZNF286A	ENSG00000255104	ENST00000583675	processed_transcript	KNOWN	None	13501	None	None	15603055	15638685	1	ZNF286	KIAA1874
17	ZNF286A	ENSG00000255104	ENST00000413242	nonsense_mediated_decay	KNOWN	CCDS11172	13501	1566	521	15603055	15648092	1	ZNF286	KIAA1874
3	ALG1L	ENSG00000189366	ENST00000340333	protein_coding	KNOWN	CCDS33840	33721	564	187	125648118	125655882	-1	None	ALG1L1
12	PSMD9	ENSG00000110801	ENST00000541212	protein_coding	KNOWN	CCDS9225	9567	672	223	122326637	122356203	1	None	p27, Rpn4
12	PSMD9	ENSG00000110801	ENST00000537407	nonsense_mediated_decay	KNOWN	None	9567	630	209	122326638	122354550	1	None	p27, Rpn4
12	PSMD9	ENSG00000110801	ENST00000540962	nonsense_mediated_decay	KNOWN	None	9567	258	85	122326668	122354455	1	None	p27, Rpn4
12	PSMD9	ENSG00000110801	ENST00000261817	protein_coding	NOVEL	None	9567	669	222	122326677	122355769	1	None	p27, Rpn4
12	PSMD9	ENSG00000110801	ENST00000538613	protein_coding	PUTATIVE	None	9567	461	152	122326690	122337759	1	None	p27, Rpn4
12	PSMD9	ENSG00000110801	ENST00000543699	nonsense_mediated_decay	KNOWN	None	9567	540	179	122326751	122354490	1	None	p27, Rpn4
12	PSMD9	ENSG00000110801	ENST00000535293	nonsense_mediated_decay	KNOWN	None	9567	387	128	122331723	122354490	1	None	p27, Rpn4
12	PSMD9	ENSG00000110801	ENST00000544724	protein_coding	PUTATIVE	None	9567	405	134	122335177	122354474	1	None	p27, Rpn4
12	PSMD9	ENSG00000110801	ENST00000544254	retained_intron	KNOWN	None	9567	None	None	122339954	122354521	1	None	p27, Rpn4
12	PSMD9	ENSG00000110801	ENST00000361485	retained_intron	KNOWN	None	9567	None	None	122352124	122354549	1	None	p27, Rpn4
12	PSMD9	ENSG00000110801	ENST00000340175	protein_coding	KNOWN	None	9567	624	207	122326646	122348916	1	None	p27, Rpn4
11	OR5AP2	ENSG00000172464	ENST00000302981	protein_coding	KNOWN	CCDS31534	15258	951	316	56408965	56409915	-1	None	None
11	OR5AP2	ENSG00000172464	ENST00000544374	protein_coding	KNOWN	None	15258	954	317	56408942	56409947	-1	None	None
14	RPS6KL1	ENSG00000198208	ENST00000555834	retained_intron	KNOWN	None	20222	None	None	75370657	75389946	-1	None	MGC11287
14	RPS6KL1	ENSG00000198208	ENST00000555910	protein_coding	PUTATIVE	None	20222	146	47	75372346	75374160	-1	None	MGC11287
14	RPS6KL1	ENSG00000198208	ENST00000555009	nonsense_mediated_decay	KNOWN	None	20222	1626	541	75372346	75388877	-1	None	MGC11287
14	RPS6KL1	ENSG00000198208	ENST00000555647	protein_coding	KNOWN	CCDS9834	20222	1650	549	75372346	75390005	-1	None	MGC11287
14	RPS6KL1	ENSG00000198208	ENST00000556848	protein_coding	PUTATIVE	None	20222	224	73	75372347	75376371	-1	None	MGC11287
14	RPS6KL1	ENSG00000198208	ENST00000553646	retained_intron	KNOWN	None	20222	None	None	75372347	75377368	-1	None	MGC11287
14	RPS6KL1	ENSG00000198208	ENST00000553315	protein_coding	PUTATIVE	None	20222	138	45	75373341	75374233	-1	None	MGC11287
14	RPS6KL1	ENSG00000198208	ENST00000553971	protein_coding	NOVEL	None	20222	313	103	75373503	75377979	-1	None	MGC11287
14	RPS6KL1	ENSG00000198208	ENST00000553789	protein_coding	NOVEL	None	20222	474	157	75373584	75378044	-1	None	MGC11287
14	RPS6KL1	ENSG00000198208	ENST00000557413	protein_coding	KNOWN	CCDS9834	20222	1650	549	75373687	75390099	-1	None	MGC11287
14	RPS6KL1	ENSG00000198208	ENST00000554834	retained_intron	KNOWN	None	20222	None	None	75376672	75385253	-1	None	MGC11287
14	RPS6KL1	ENSG00000198208	ENST00000553894	retained_intron	KNOWN	None	20222	None	None	75377593	75389958	-1	None	MGC11287
14	RPS6KL1	ENSG00000198208	ENST00000554900	processed_transcript	KNOWN	None	20222	None	None	75378056	75389097	-1	None	MGC11287
14	RPS6KL1	ENSG00000198208	ENST00000557383	retained_intron	KNOWN	None	20222	None	None	75386575	75388476	-1	None	MGC11287
14	RPS6KL1	ENSG00000198208	ENST00000556776	protein_coding	KNOWN	None	20222	26	7	75388219	75389954	-1	None	MGC11287
14	RPS6KL1	ENSG00000198208	ENST00000354625	protein_coding	KNOWN	None	20222	1626	541	75372347	75389145	-1	None	MGC11287
14	RPS6KL1	ENSG00000198208	ENST00000358328	protein_coding	KNOWN	CCDS9834	20222	1650	549	75373687	75388911	-1	None	MGC11287
11	OR5AR1	ENSG00000172459	ENST00000302969	protein_coding	KNOWN	CCDS31535	15260	933	310	56431138	56432163	1	None	None
17	CCL15	ENSG00000267596	ENST00000394506	protein_coding	PUTATIVE	None	10613	185	60	34323476	34325406	-1	SCYA15	HCC-2, NCC-3, SCYL3, MIP-5, Lkn-1, MIP-1d, HMRP-2B
17	CCL15	ENSG00000267596	ENST00000354059	protein_coding	KNOWN	CCDS11304	10613	342	113	34324618	34329084	-1	SCYA15	HCC-2, NCC-3, SCYL3, MIP-5, Lkn-1, MIP-1d, HMRP-2B
4	CLDN22	ENSG00000177300	ENST00000323319	protein_coding	KNOWN	CCDS43286	2044	663	220	184239220	184241927	-1	None	CLDN21
7	None	ENSG00000211544	ENST00000390210	miRNA	NOVEL	None	None	None	None	3458699	3458781	1	None	None
7	None	ENSG00000236510	ENST00000427920	antisense	KNOWN	None	None	None	None	3682447	3683416	-1	None	None
1	NRD1	ENSG00000078618	ENST00000440943	protein_coding	KNOWN	None	7995	1615	537	52254863	52279743	-1	None	hNRD1, hNRD2
1	NRD1	ENSG00000078618	ENST00000352171	protein_coding	KNOWN	CCDS41335	7995	3456	1151	52254863	52344477	-1	None	hNRD1, hNRD2
1	NRD1	ENSG00000078618	ENST00000354831	protein_coding	KNOWN	CCDS559	7995	3660	1219	52254863	52344477	-1	None	hNRD1, hNRD2
1	NRD1	ENSG00000078618	ENST00000485608	processed_transcript	KNOWN	None	7995	None	None	52254884	52306126	-1	None	hNRD1, hNRD2
1	NRD1	ENSG00000078618	ENST00000464385	processed_transcript	KNOWN	None	7995	None	None	52254889	52255494	-1	None	hNRD1, hNRD2
1	NRD1	ENSG00000078618	ENST00000475310	processed_transcript	KNOWN	None	7995	None	None	52260144	52261380	-1	None	hNRD1, hNRD2
1	NRD1	ENSG00000078618	ENST00000497358	processed_transcript	KNOWN	None	7995	None	None	52260144	52266766	-1	None	hNRD1, hNRD2
1	NRD1	ENSG00000078618	ENST00000483007	processed_transcript	KNOWN	None	7995	None	None	52275963	52280297	-1	None	hNRD1, hNRD2
1	NRD1	ENSG00000078618	ENST00000473805	processed_transcript	KNOWN	None	7995	None	None	52281601	52299745	-1	None	hNRD1, hNRD2
1	NRD1	ENSG00000078618	ENST00000475715	processed_transcript	KNOWN	None	7995	None	None	52290969	52303244	-1	None	hNRD1, hNRD2
1	NRD1	ENSG00000078618	ENST00000491410	processed_transcript	PUTATIVE	None	7995	None	None	52305664	52344443	-1	None	hNRD1, hNRD2
1	NRD1	ENSG00000078618	ENST00000468722	processed_transcript	PUTATIVE	None	7995	None	None	52327786	52344395	-1	None	hNRD1, hNRD2
1	NRD1	ENSG00000078618	ENST00000539524	protein_coding	KNOWN	CCDS55599	7995	3264	1087	52254884	52343691	-1	None	hNRD1, hNRD2
1	NRD1	ENSG00000078618	ENST00000544028	protein_coding	KNOWN	None	7995	2244	747	52260259	52344420	-1	None	hNRD1, hNRD2
7	None	ENSG00000261809	ENST00000566950	processed_pseudogene	KNOWN	None	None	None	None	4551590	4551664	-1	None	None
7	None	ENSG00000238781	ENST00000459143	snoRNA	NOVEL	None	None	None	None	4729111	4729214	1	None	None
4	CLDN24	ENSG00000185758	ENST00000514470	protein_coding	NOVEL	None	37200	591	196	184242965	184243561	-1	CLDN21	None
4	CLDN24	ENSG00000185758	ENST00000541814	protein_coding	KNOWN	CCDS54824	37200	663	220	184242917	184243579	-1	CLDN21	None
7	MIR4656	ENSG00000264474	ENST00000579503	miRNA	KNOWN	None	41749	None	None	4828196	4828270	-1	None	hsa-mir-4656
5	IL6ST	ENSG00000134352	ENST00000381298	protein_coding	KNOWN	CCDS3971	6021	2757	918	55230923	55290821	-1	None	GP130, CD130
5	IL6ST	ENSG00000134352	ENST00000503773	nonsense_mediated_decay	KNOWN	None	6021	1002	333	55236794	55290620	-1	None	GP130, CD130
5	IL6ST	ENSG00000134352	ENST00000502326	protein_coding	KNOWN	CCDS3971	6021	2757	918	55236856	55290792	-1	None	GP130, CD130
5	IL6ST	ENSG00000134352	ENST00000381294	protein_coding	KNOWN	CCDS54856	6021	2574	857	55236910	55272106	-1	None	GP130, CD130
5	IL6ST	ENSG00000134352	ENST00000523039	retained_intron	KNOWN	None	6021	None	None	55237351	55243422	-1	None	GP130, CD130
5	IL6ST	ENSG00000134352	ENST00000583149	retained_intron	KNOWN	None	6021	None	None	55237522	55247465	-1	None	GP130, CD130
5	IL6ST	ENSG00000134352	ENST00000381293	protein_coding	PUTATIVE	None	6021	612	203	55237593	55272106	-1	None	GP130, CD130
5	IL6ST	ENSG00000134352	ENST00000381286	protein_coding	PUTATIVE	None	6021	201	66	55237593	55272106	-1	None	GP130, CD130
5	IL6ST	ENSG00000134352	ENST00000522633	protein_coding	KNOWN	CCDS47209	6021	990	329	55243389	55278628	-1	None	GP130, CD130
5	IL6ST	ENSG00000134352	ENST00000423954	processed_transcript	KNOWN	None	6021	None	None	55243393	55247334	-1	None	GP130, CD130
5	IL6ST	ENSG00000134352	ENST00000506241	retained_intron	KNOWN	None	6021	None	None	55251808	55256308	-1	None	GP130, CD130
5	IL6ST	ENSG00000134352	ENST00000577363	processed_transcript	KNOWN	None	6021	None	None	55260037	55290622	-1	None	GP130, CD130
5	IL6ST	ENSG00000134352	ENST00000336909	protein_coding	KNOWN	CCDS3971	6021	2757	918	55230953	55272142	-1	None	GP130, CD130
5	IL6ST	ENSG00000134352	ENST00000381287	protein_coding	KNOWN	CCDS47209	6021	990	329	55230953	55272142	-1	None	GP130, CD130
5	IL6ST	ENSG00000134352	ENST00000536319	protein_coding	KNOWN	CCDS47209	6021	990	329	55236910	55272106	-1	None	GP130, CD130
5	IL6ST	ENSG00000134352	ENST00000396816	protein_coding	KNOWN	None	6021	168	55	55260037	55272106	-1	None	GP130, CD130
3	ROPN1B	ENSG00000114547	ENST00000514116	protein_coding	KNOWN	CCDS33841	31927	639	212	125687987	125702297	1	None	None
3	ROPN1B	ENSG00000114547	ENST00000251776	protein_coding	KNOWN	CCDS33841	31927	639	212	125688003	125702297	1	None	None
3	ROPN1B	ENSG00000114547	ENST00000504401	protein_coding	PUTATIVE	None	31927	177	58	125688007	125692698	1	None	None
3	ROPN1B	ENSG00000114547	ENST00000513830	protein_coding	KNOWN	None	31927	391	129	125688037	125696003	1	None	None
3	ROPN1B	ENSG00000114547	ENST00000511862	processed_transcript	KNOWN	None	31927	None	None	125688041	125692076	1	None	None
3	ROPN1B	ENSG00000114547	ENST00000511035	processed_transcript	KNOWN	None	31927	None	None	125688056	125691986	1	None	None
3	ROPN1B	ENSG00000114547	ENST00000508088	protein_coding	KNOWN	None	31927	308	101	125688057	125695920	1	None	None
3	ROPN1B	ENSG00000114547	ENST00000510450	retained_intron	KNOWN	None	31927	None	None	125688082	125696836	1	None	None
3	ROPN1B	ENSG00000114547	ENST00000505382	protein_coding	KNOWN	None	31927	363	120	125694347	125702294	1	None	None
3	ROPN1B	ENSG00000114547	ENST00000511082	protein_coding	KNOWN	None	31927	363	120	125694467	125702297	1	None	None
2	ALLC	ENSG00000151360	ENST00000252505	protein_coding	KNOWN	CCDS46223	17377	1176	391	3705785	3750261	1	None	ALC
2	ALLC	ENSG00000151360	ENST00000476389	retained_intron	KNOWN	None	17377	None	None	3742211	3750261	1	None	ALC
2	ALLC	ENSG00000151360	ENST00000471711	processed_transcript	KNOWN	None	17377	None	None	3742681	3750038	1	None	ALC
4	CDKN2AIP	ENSG00000168564	ENST00000504169	protein_coding	KNOWN	CCDS34110	24325	1743	580	184365744	184369351	1	None	FLJ20036, CARF
4	CDKN2AIP	ENSG00000168564	ENST00000302350	protein_coding	PUTATIVE	None	24325	381	126	184365788	184369351	1	None	FLJ20036, CARF
4	CDKN2AIP	ENSG00000168564	ENST00000510928	protein_coding	PUTATIVE	None	24325	408	135	184365850	184367174	1	None	FLJ20036, CARF
4	CDKN2AIP	ENSG00000168564	ENST00000506835	processed_transcript	PUTATIVE	None	24325	None	None	184366329	184367912	1	None	FLJ20036, CARF
4	CDKN2AIP	ENSG00000168564	ENST00000502924	processed_transcript	PUTATIVE	None	24325	None	None	184367294	184369082	1	None	FLJ20036, CARF
6	SENP6	ENSG00000112701	ENST00000370010	protein_coding	KNOWN	CCDS43483	20944	3318	1105	76311225	76425620	1	None	SUSP1, KIAA0797
6	SENP6	ENSG00000112701	ENST00000327284	protein_coding	PUTATIVE	None	20944	2058	685	76311643	76388691	1	None	SUSP1, KIAA0797
6	SENP6	ENSG00000112701	ENST00000447266	protein_coding	KNOWN	CCDS47454	20944	3339	1112	76311763	76427994	1	None	SUSP1, KIAA0797
6	SENP6	ENSG00000112701	ENST00000493959	nonsense_mediated_decay	KNOWN	None	20944	225	74	76311940	76344527	1	None	SUSP1, KIAA0797
6	SENP6	ENSG00000112701	ENST00000483859	protein_coding	PUTATIVE	None	20944	660	219	76330379	76373230	1	None	SUSP1, KIAA0797
6	SENP6	ENSG00000112701	ENST00000487548	retained_intron	KNOWN	None	20944	None	None	76343366	76344772	1	None	SUSP1, KIAA0797
6	SENP6	ENSG00000112701	ENST00000424947	protein_coding	PUTATIVE	None	20944	1749	582	76343420	76389583	1	None	SUSP1, KIAA0797
6	SENP6	ENSG00000112701	ENST00000436928	processed_transcript	KNOWN	None	20944	None	None	76356227	76372973	1	None	SUSP1, KIAA0797
6	SENP6	ENSG00000112701	ENST00000485497	retained_intron	KNOWN	None	20944	None	None	76357008	76373221	1	None	SUSP1, KIAA0797
6	SENP6	ENSG00000112701	ENST00000503501	nonsense_mediated_decay	KNOWN	None	20944	1166	387	76376587	76425593	1	None	SUSP1, KIAA0797
6	SENP6	ENSG00000112701	ENST00000476060	retained_intron	KNOWN	None	20944	None	None	76386320	76388691	1	None	SUSP1, KIAA0797
6	SENP6	ENSG00000112701	ENST00000474906	retained_intron	KNOWN	None	20944	None	None	76388407	76407705	1	None	SUSP1, KIAA0797
6	SENP6	ENSG00000112701	ENST00000370014	protein_coding	KNOWN	None	20944	3339	1112	76311622	76427997	1	None	SUSP1, KIAA0797
6	SENP6	ENSG00000112701	ENST00000541192	protein_coding	KNOWN	None	20944	1107	368	76376587	76425595	1	None	SUSP1, KIAA0797
1	ADCK3	ENSG00000163050	ENST00000366779	protein_coding	KNOWN	CCDS1557	16812	1944	647	227085237	227175246	1	CABC1	COQ8, SCAR9
1	ADCK3	ENSG00000163050	ENST00000485677	processed_transcript	KNOWN	None	16812	None	None	227087106	227091500	1	CABC1	COQ8, SCAR9
1	ADCK3	ENSG00000163050	ENST00000366778	protein_coding	KNOWN	None	16812	1788	595	227127987	227175245	1	CABC1	COQ8, SCAR9
1	ADCK3	ENSG00000163050	ENST00000366777	protein_coding	KNOWN	CCDS1557	16812	1944	647	227127989	227175245	1	CABC1	COQ8, SCAR9
1	ADCK3	ENSG00000163050	ENST00000478406	processed_transcript	KNOWN	None	16812	None	None	227127995	227175244	1	CABC1	COQ8, SCAR9
1	ADCK3	ENSG00000163050	ENST00000366776	protein_coding	KNOWN	None	16812	1719	572	227127995	227175246	1	CABC1	COQ8, SCAR9
1	ADCK3	ENSG00000163050	ENST00000366775	protein_coding	KNOWN	None	16812	1479	492	227127999	227175245	1	CABC1	COQ8, SCAR9
1	ADCK3	ENSG00000163050	ENST00000489044	processed_transcript	KNOWN	None	16812	None	None	227128080	227165224	1	CABC1	COQ8, SCAR9
1	ADCK3	ENSG00000163050	ENST00000476488	processed_transcript	KNOWN	None	16812	None	None	227162556	227165188	1	CABC1	COQ8, SCAR9
1	ADCK3	ENSG00000163050	ENST00000485462	processed_transcript	KNOWN	None	16812	None	None	227165105	227175245	1	CABC1	COQ8, SCAR9
1	ADCK3	ENSG00000163050	ENST00000479852	processed_transcript	KNOWN	None	16812	None	None	227170708	227175245	1	CABC1	COQ8, SCAR9
1	ADCK3	ENSG00000163050	ENST00000490782	processed_transcript	KNOWN	None	16812	None	None	227171253	227175211	1	CABC1	COQ8, SCAR9
1	ADCK3	ENSG00000163050	ENST00000464693	processed_transcript	KNOWN	None	16812	None	None	227171253	227175236	1	CABC1	COQ8, SCAR9
1	ADCK3	ENSG00000163050	ENST00000458507	protein_coding	KNOWN	None	16812	1107	368	227127995	227175050	1	CABC1	COQ8, SCAR9
1	ADCK3	ENSG00000163050	ENST00000433743	protein_coding	KNOWN	None	16812	966	321	227153382	227174469	1	CABC1	COQ8, SCAR9
7	None	ENSG00000206895	ENST00000384168	misc_RNA	NOVEL	None	None	None	None	4850819	4850920	-1	None	None
7	None	ENSG00000213935	ENST00000454916	processed_pseudogene	KNOWN	None	None	None	None	4905063	4905435	-1	None	None
8	MTDH	ENSG00000147649	ENST00000336273	protein_coding	KNOWN	CCDS6274	29608	1749	582	98656407	98740998	1	None	LYRIC, 3D3, AEG-1
8	MTDH	ENSG00000147649	ENST00000519934	protein_coding	NOVEL	None	29608	1581	526	98656774	98737471	1	None	LYRIC, 3D3, AEG-1
8	MTDH	ENSG00000147649	ENST00000522313	protein_coding	NOVEL	None	29608	672	223	98657021	98703392	1	None	LYRIC, 3D3, AEG-1
8	MTDH	ENSG00000147649	ENST00000519293	nonsense_mediated_decay	KNOWN	None	29608	181	59	98703247	98736880	1	None	LYRIC, 3D3, AEG-1
8	MTDH	ENSG00000147649	ENST00000521933	protein_coding	NOVEL	None	29608	565	187	98703359	98736845	1	None	LYRIC, 3D3, AEG-1
8	MTDH	ENSG00000147649	ENST00000522104	retained_intron	KNOWN	None	29608	None	None	98718640	98731315	1	None	LYRIC, 3D3, AEG-1
5	PHYKPL	ENSG00000175309	ENST00000308158	protein_coding	KNOWN	CCDS4434	28249	1353	450	177635498	177659786	-1	AGXT2L2	MGC15875
5	PHYKPL	ENSG00000175309	ENST00000481436	retained_intron	KNOWN	None	28249	None	None	177635500	177653080	-1	AGXT2L2	MGC15875
5	PHYKPL	ENSG00000175309	ENST00000481811	processed_transcript	KNOWN	None	28249	None	None	177635585	177657941	-1	AGXT2L2	MGC15875
5	PHYKPL	ENSG00000175309	ENST00000489262	retained_intron	KNOWN	None	28249	None	None	177635585	177659792	-1	AGXT2L2	MGC15875
5	PHYKPL	ENSG00000175309	ENST00000474052	nonsense_mediated_decay	KNOWN	None	28249	198	65	177635588	177659791	-1	AGXT2L2	MGC15875
5	PHYKPL	ENSG00000175309	ENST00000393488	nonsense_mediated_decay	KNOWN	None	28249	548	181	177635624	177649477	-1	AGXT2L2	MGC15875
5	PHYKPL	ENSG00000175309	ENST00000493197	nonsense_mediated_decay	KNOWN	None	28249	168	55	177635640	177659769	-1	AGXT2L2	MGC15875
5	PHYKPL	ENSG00000175309	ENST00000494126	retained_intron	KNOWN	None	28249	None	None	177635645	177659774	-1	AGXT2L2	MGC15875
5	PHYKPL	ENSG00000175309	ENST00000510991	retained_intron	KNOWN	None	28249	None	None	177635655	177657321	-1	AGXT2L2	MGC15875
5	PHYKPL	ENSG00000175309	ENST00000476487	retained_intron	KNOWN	None	28249	None	None	177637969	177652011	-1	AGXT2L2	MGC15875
5	PHYKPL	ENSG00000175309	ENST00000506045	nonsense_mediated_decay	KNOWN	None	28249	87	28	177638891	177649935	-1	AGXT2L2	MGC15875
5	PHYKPL	ENSG00000175309	ENST00000510913	nonsense_mediated_decay	KNOWN	None	28249	348	115	177649477	177657074	-1	AGXT2L2	MGC15875
5	PHYKPL	ENSG00000175309	ENST00000504096	retained_intron	KNOWN	None	28249	None	None	177650389	177651497	-1	AGXT2L2	MGC15875
5	PHYKPL	ENSG00000175309	ENST00000514424	retained_intron	KNOWN	None	28249	None	None	177651332	177657050	-1	AGXT2L2	MGC15875
5	PHYKPL	ENSG00000175309	ENST00000323594	protein_coding	NOVEL	None	28249	659	218	177651450	177659631	-1	AGXT2L2	MGC15875
5	PHYKPL	ENSG00000175309	ENST00000506001	retained_intron	KNOWN	None	28249	None	None	177651513	177657307	-1	AGXT2L2	MGC15875
5	PHYKPL	ENSG00000175309	ENST00000511716	processed_transcript	KNOWN	None	28249	None	None	177653467	177659542	-1	AGXT2L2	MGC15875
5	PHYKPL	ENSG00000175309	ENST00000476170	protein_coding	PUTATIVE	None	28249	372	123	177655126	177659572	-1	AGXT2L2	MGC15875
1	HAX1	ENSG00000143575	ENST00000328703	protein_coding	KNOWN	CCDS1064	16915	840	279	154244987	154248351	1	None	HS1BP1, HCLSBP1
1	HAX1	ENSG00000143575	ENST00000457918	protein_coding	KNOWN	CCDS44230	16915	696	231	154245065	154248260	1	None	HS1BP1, HCLSBP1
1	HAX1	ENSG00000143575	ENST00000483970	protein_coding	KNOWN	None	16915	864	287	154245085	154248349	1	None	HS1BP1, HCLSBP1
1	HAX1	ENSG00000143575	ENST00000447768	nonsense_mediated_decay	KNOWN	None	16915	576	191	154245096	154248139	1	None	HS1BP1, HCLSBP1
1	HAX1	ENSG00000143575	ENST00000531435	retained_intron	KNOWN	None	16915	None	None	154245105	154248351	1	None	HS1BP1, HCLSBP1
1	HAX1	ENSG00000143575	ENST00000477780	retained_intron	KNOWN	None	16915	None	None	154245113	154247748	1	None	HS1BP1, HCLSBP1
1	HAX1	ENSG00000143575	ENST00000435087	protein_coding	NOVEL	None	16915	766	254	154245144	154247959	1	None	HS1BP1, HCLSBP1
1	HAX1	ENSG00000143575	ENST00000532105	protein_coding	PUTATIVE	None	16915	456	151	154245144	154248315	1	None	HS1BP1, HCLSBP1
1	HAX1	ENSG00000143575	ENST00000471326	retained_intron	KNOWN	None	16915	None	None	154245344	154247960	1	None	HS1BP1, HCLSBP1
1	HAX1	ENSG00000143575	ENST00000492550	retained_intron	KNOWN	None	16915	None	None	154246345	154248349	1	None	HS1BP1, HCLSBP1
1	HAX1	ENSG00000143575	ENST00000459914	retained_intron	KNOWN	None	16915	None	None	154246374	154248351	1	None	HS1BP1, HCLSBP1
2	STAT1	ENSG00000115415	ENST00000415035	nonsense_mediated_decay	KNOWN	None	11362	121	39	191829084	191839661	-1	None	STAT91, ISGF-3
2	STAT1	ENSG00000115415	ENST00000361099	protein_coding	KNOWN	CCDS2309	11362	2253	750	191833760	191878976	-1	None	STAT91, ISGF-3
2	STAT1	ENSG00000115415	ENST00000409465	protein_coding	KNOWN	CCDS2309	11362	2253	750	191835017	191878681	-1	None	STAT91, ISGF-3
2	STAT1	ENSG00000115415	ENST00000423282	nonsense_mediated_decay	KNOWN	None	11362	175	57	191835308	191841648	-1	None	STAT91, ISGF-3
2	STAT1	ENSG00000115415	ENST00000392322	protein_coding	KNOWN	CCDS42793	11362	2139	712	191840263	191878894	-1	None	STAT91, ISGF-3
2	STAT1	ENSG00000115415	ENST00000452281	nonsense_mediated_decay	KNOWN	None	11362	582	193	191840353	191878954	-1	None	STAT91, ISGF-3
2	STAT1	ENSG00000115415	ENST00000392323	protein_coding	PUTATIVE	None	11362	2145	714	191840368	191878923	-1	None	STAT91, ISGF-3
2	STAT1	ENSG00000115415	ENST00000464072	retained_intron	KNOWN	None	11362	None	None	191843217	191848440	-1	None	STAT91, ISGF-3
2	STAT1	ENSG00000115415	ENST00000424722	protein_coding	KNOWN	None	11362	541	179	191864352	191878937	-1	None	STAT91, ISGF-3
2	STAT1	ENSG00000115415	ENST00000454414	protein_coding	KNOWN	None	11362	450	149	191865812	191885046	-1	None	STAT91, ISGF-3
2	STAT1	ENSG00000115415	ENST00000432058	protein_coding	KNOWN	None	11362	209	68	191873753	191885686	-1	None	STAT91, ISGF-3
2	STAT1	ENSG00000115415	ENST00000540176	protein_coding	KNOWN	None	11362	582	193	191835393	191878313	-1	None	STAT91, ISGF-3
16	PDZD9	ENSG00000155714	ENST00000537222	protein_coding	KNOWN	CCDS10602	28740	615	204	21995186	22012419	-1	C16orf65	MGC50721
16	PDZD9	ENSG00000155714	ENST00000523914	nonsense_mediated_decay	KNOWN	None	28740	294	97	21995186	22012431	-1	C16orf65	MGC50721
16	PDZD9	ENSG00000155714	ENST00000424898	protein_coding	KNOWN	None	28740	795	264	21995186	22012431	-1	C16orf65	MGC50721
16	PDZD9	ENSG00000155714	ENST00000286143	protein_coding	KNOWN	None	28740	609	202	21995192	22012433	-1	C16orf65	MGC50721
11	PHOX2A	ENSG00000165462	ENST00000546310	protein_coding	NOVEL	None	691	256	84	71950121	71952236	-1	ARIX, FEOM2	PMX2A, CFEOM2
11	PHOX2A	ENSG00000165462	ENST00000298231	protein_coding	KNOWN	CCDS8214	691	855	284	71950121	71955220	-1	ARIX, FEOM2	PMX2A, CFEOM2
11	PHOX2A	ENSG00000165462	ENST00000544057	processed_transcript	KNOWN	None	691	None	None	71950911	71956708	-1	ARIX, FEOM2	PMX2A, CFEOM2
17	P4HB	ENSG00000185624	ENST00000331483	protein_coding	KNOWN	CCDS11787	8548	1527	508	79801035	79818570	-1	PO4DB, ERBA2L	PDIA1, PROHB, DSI, GIT, PDI, PO4HB, P4Hbeta
17	P4HB	ENSG00000185624	ENST00000575069	nonsense_mediated_decay	KNOWN	None	8548	165	54	79801037	79818442	-1	PO4DB, ERBA2L	PDIA1, PROHB, DSI, GIT, PDI, PO4HB, P4Hbeta
17	P4HB	ENSG00000185624	ENST00000415593	protein_coding	NOVEL	None	8548	823	273	79801042	79805203	-1	PO4DB, ERBA2L	PDIA1, PROHB, DSI, GIT, PDI, PO4HB, P4Hbeta
17	P4HB	ENSG00000185624	ENST00000576390	protein_coding	PUTATIVE	None	8548	321	106	79801335	79818411	-1	PO4DB, ERBA2L	PDIA1, PROHB, DSI, GIT, PDI, PO4HB, P4Hbeta
17	P4HB	ENSG00000185624	ENST00000473021	retained_intron	KNOWN	None	8548	None	None	79801368	79803332	-1	PO4DB, ERBA2L	PDIA1, PROHB, DSI, GIT, PDI, PO4HB, P4Hbeta
17	P4HB	ENSG00000185624	ENST00000571507	retained_intron	KNOWN	None	8548	None	None	79801825	79803698	-1	PO4DB, ERBA2L	PDIA1, PROHB, DSI, GIT, PDI, PO4HB, P4Hbeta
17	P4HB	ENSG00000185624	ENST00000476482	retained_intron	KNOWN	None	8548	None	None	79801837	79804547	-1	PO4DB, ERBA2L	PDIA1, PROHB, DSI, GIT, PDI, PO4HB, P4Hbeta
17	P4HB	ENSG00000185624	ENST00000439918	protein_coding	NOVEL	None	8548	1395	464	79801870	79818436	-1	PO4DB, ERBA2L	PDIA1, PROHB, DSI, GIT, PDI, PO4HB, P4Hbeta
17	P4HB	ENSG00000185624	ENST00000571617	protein_coding	NOVEL	None	8548	444	147	79801942	79818408	-1	PO4DB, ERBA2L	PDIA1, PROHB, DSI, GIT, PDI, PO4HB, P4Hbeta
17	P4HB	ENSG00000185624	ENST00000474712	retained_intron	KNOWN	None	8548	None	None	79803557	79804383	-1	PO4DB, ERBA2L	PDIA1, PROHB, DSI, GIT, PDI, PO4HB, P4Hbeta
17	P4HB	ENSG00000185624	ENST00000478034	retained_intron	KNOWN	None	8548	None	None	79804236	79813327	-1	PO4DB, ERBA2L	PDIA1, PROHB, DSI, GIT, PDI, PO4HB, P4Hbeta
17	P4HB	ENSG00000185624	ENST00000576380	protein_coding	PUTATIVE	None	8548	601	199	79804307	79818390	-1	PO4DB, ERBA2L	PDIA1, PROHB, DSI, GIT, PDI, PO4HB, P4Hbeta
17	P4HB	ENSG00000185624	ENST00000477607	retained_intron	KNOWN	None	8548	None	None	79804323	79813886	-1	PO4DB, ERBA2L	PDIA1, PROHB, DSI, GIT, PDI, PO4HB, P4Hbeta
17	P4HB	ENSG00000185624	ENST00000472244	processed_transcript	KNOWN	None	8548	None	None	79804386	79817045	-1	PO4DB, ERBA2L	PDIA1, PROHB, DSI, GIT, PDI, PO4HB, P4Hbeta
17	P4HB	ENSG00000185624	ENST00000570907	protein_coding	PUTATIVE	None	8548	351	116	79804419	79817091	-1	PO4DB, ERBA2L	PDIA1, PROHB, DSI, GIT, PDI, PO4HB, P4Hbeta
17	P4HB	ENSG00000185624	ENST00000484286	retained_intron	KNOWN	None	8548	None	None	79804796	79805724	-1	PO4DB, ERBA2L	PDIA1, PROHB, DSI, GIT, PDI, PO4HB, P4Hbeta
17	P4HB	ENSG00000185624	ENST00000574007	retained_intron	KNOWN	None	8548	None	None	79804823	79817606	-1	PO4DB, ERBA2L	PDIA1, PROHB, DSI, GIT, PDI, PO4HB, P4Hbeta
17	P4HB	ENSG00000185624	ENST00000573778	protein_coding	NOVEL	None	8548	624	207	79804847	79818411	-1	PO4DB, ERBA2L	PDIA1, PROHB, DSI, GIT, PDI, PO4HB, P4Hbeta
17	P4HB	ENSG00000185624	ENST00000576052	protein_coding	NOVEL	None	8548	500	165	79804908	79818409	-1	PO4DB, ERBA2L	PDIA1, PROHB, DSI, GIT, PDI, PO4HB, P4Hbeta
17	P4HB	ENSG00000185624	ENST00000576541	protein_coding	NOVEL	None	8548	564	187	79805203	79818354	-1	PO4DB, ERBA2L	PDIA1, PROHB, DSI, GIT, PDI, PO4HB, P4Hbeta
17	P4HB	ENSG00000185624	ENST00000574914	protein_coding	NOVEL	None	8548	469	155	79813065	79818449	-1	PO4DB, ERBA2L	PDIA1, PROHB, DSI, GIT, PDI, PO4HB, P4Hbeta
17	P4HB	ENSG00000185624	ENST00000467086	processed_transcript	KNOWN	None	8548	None	None	79813105	79818079	-1	PO4DB, ERBA2L	PDIA1, PROHB, DSI, GIT, PDI, PO4HB, P4Hbeta
17	P4HB	ENSG00000185624	ENST00000471535	processed_transcript	PUTATIVE	None	8548	None	None	79813418	79818087	-1	PO4DB, ERBA2L	PDIA1, PROHB, DSI, GIT, PDI, PO4HB, P4Hbeta
17	P4HB	ENSG00000185624	ENST00000466567	retained_intron	KNOWN	None	8548	None	None	79816690	79818500	-1	PO4DB, ERBA2L	PDIA1, PROHB, DSI, GIT, PDI, PO4HB, P4Hbeta
17	CCL23	ENSG00000167236	ENST00000591423	protein_coding	KNOWN	CCDS59282	10622	363	120	34340096	34344999	-1	SCYA23	Ckb-8, MPIF-1, MIP-3, CKb8
17	CCL23	ENSG00000167236	ENST00000588521	nonsense_mediated_decay	KNOWN	None	10622	42	13	34340097	34340821	-1	SCYA23	Ckb-8, MPIF-1, MIP-3, CKb8
17	CCL23	ENSG00000167236	ENST00000293280	protein_coding	KNOWN	CCDS11305	10622	414	137	34340098	34345005	-1	SCYA23	Ckb-8, MPIF-1, MIP-3, CKb8
7	RNF216P1	ENSG00000196204	ENST00000493407	processed_transcript	KNOWN	None	33610	None	None	5013619	5026222	1	RNF216L	None
7	RNF216P1	ENSG00000196204	ENST00000406089	processed_transcript	KNOWN	None	33610	None	None	5013619	5035153	1	RNF216L	None
7	RNF216P1	ENSG00000196204	ENST00000404404	transcribed_unprocessed_pseudogene	KNOWN	None	33610	None	None	5013619	5037800	1	RNF216L	None
7	RNF216P1	ENSG00000196204	ENST00000477090	processed_transcript	KNOWN	None	33610	None	None	5013647	5036524	1	RNF216L	None
7	RNF216P1	ENSG00000196204	ENST00000404006	processed_transcript	KNOWN	None	33610	None	None	5013668	5037796	1	RNF216L	None
7	RNF216P1	ENSG00000196204	ENST00000403969	processed_transcript	KNOWN	None	33610	None	None	5013681	5037083	1	RNF216L	None
7	RNF216P1	ENSG00000196204	ENST00000494947	processed_transcript	KNOWN	None	33610	None	None	5013683	5080306	1	RNF216L	None
7	RNF216P1	ENSG00000196204	ENST00000429902	processed_transcript	KNOWN	None	33610	None	None	5013752	5024706	1	RNF216L	None
7	RNF216P1	ENSG00000196204	ENST00000406608	processed_transcript	KNOWN	None	33610	None	None	5015996	5036304	1	RNF216L	None
7	RNF216P1	ENSG00000196204	ENST00000405396	processed_transcript	KNOWN	None	33610	None	None	5023326	5036750	1	RNF216L	None
7	RNF216P1	ENSG00000196204	ENST00000464479	processed_transcript	KNOWN	None	33610	None	None	5024347	5036405	1	RNF216L	None
7	RNF216P1	ENSG00000196204	ENST00000466622	processed_transcript	KNOWN	None	33610	None	None	5024539	5028999	1	RNF216L	None
7	RNF216P1	ENSG00000196204	ENST00000471244	processed_transcript	KNOWN	None	33610	None	None	5033140	5037798	1	RNF216L	None
7	RNF216P1	ENSG00000196204	ENST00000360944	unprocessed_pseudogene	KNOWN	None	33610	None	None	5013713	5036849	1	RNF216L	None
4	ING2	ENSG00000168556	ENST00000302327	protein_coding	KNOWN	CCDS3833	6063	843	280	184426147	184432249	1	ING1L	p33ING2
4	ING2	ENSG00000168556	ENST00000412117	protein_coding	NOVEL	None	6063	414	137	184427235	184431796	1	ING1L	p33ING2
4	ING2	ENSG00000168556	ENST00000434682	protein_coding	KNOWN	None	6063	723	240	184427360	184432105	1	ING1L	p33ING2
5	WWC1	ENSG00000113645	ENST00000265293	protein_coding	KNOWN	CCDS4366	29435	3342	1113	167718656	167899308	1	None	KIBRA, KIAA0869
5	WWC1	ENSG00000113645	ENST00000521089	protein_coding	NOVEL	CCDS54945	29435	3360	1119	167719155	167896221	1	None	KIBRA, KIAA0869
5	WWC1	ENSG00000113645	ENST00000523043	processed_transcript	KNOWN	None	29435	None	None	167719251	167835613	1	None	KIBRA, KIAA0869
5	WWC1	ENSG00000113645	ENST00000519859	processed_transcript	KNOWN	None	29435	None	None	167743625	167824791	1	None	KIBRA, KIAA0869
5	WWC1	ENSG00000113645	ENST00000393895	protein_coding	NOVEL	None	29435	3241	1079	167798426	167896761	1	None	KIBRA, KIAA0869
5	WWC1	ENSG00000113645	ENST00000519659	retained_intron	KNOWN	None	29435	None	None	167833263	167837185	1	None	KIBRA, KIAA0869
5	WWC1	ENSG00000113645	ENST00000517425	processed_transcript	KNOWN	None	29435	None	None	167833278	167849053	1	None	KIBRA, KIAA0869
5	WWC1	ENSG00000113645	ENST00000524228	protein_coding	NOVEL	None	29435	2668	888	167833284	167896762	1	None	KIBRA, KIAA0869
5	WWC1	ENSG00000113645	ENST00000517646	processed_transcript	PUTATIVE	None	29435	None	None	167835590	167841493	1	None	KIBRA, KIAA0869
5	WWC1	ENSG00000113645	ENST00000518334	retained_intron	KNOWN	None	29435	None	None	167841135	167850597	1	None	KIBRA, KIAA0869
5	WWC1	ENSG00000113645	ENST00000524093	processed_transcript	KNOWN	None	29435	None	None	167855710	167881006	1	None	KIBRA, KIAA0869
5	WWC1	ENSG00000113645	ENST00000524038	protein_coding	NOVEL	None	29435	1335	444	167857164	167896764	1	None	KIBRA, KIAA0869
5	WWC1	ENSG00000113645	ENST00000522140	processed_transcript	KNOWN	None	29435	None	None	167858369	167894893	1	None	KIBRA, KIAA0869
5	WWC1	ENSG00000113645	ENST00000521391	processed_transcript	PUTATIVE	None	29435	None	None	167891933	167899308	1	None	KIBRA, KIAA0869
5	WWC1	ENSG00000113645	ENST00000518204	retained_intron	KNOWN	None	29435	None	None	167894698	167896226	1	None	KIBRA, KIAA0869
10	CCNY	ENSG00000108100	ENST00000490012	protein_coding	KNOWN	None	23354	155	50	35535953	35805503	1	C10orf9	CFP1, CBCP1
10	CCNY	ENSG00000108100	ENST00000374706	protein_coding	KNOWN	CCDS7190	23354	864	287	35535953	35860852	1	C10orf9	CFP1, CBCP1
10	CCNY	ENSG00000108100	ENST00000493157	protein_coding	PUTATIVE	None	23354	303	100	35535977	35818964	1	C10orf9	CFP1, CBCP1
10	CCNY	ENSG00000108100	ENST00000374704	protein_coding	KNOWN	CCDS7189	23354	1026	341	35625802	35860852	1	C10orf9	CFP1, CBCP1
10	CCNY	ENSG00000108100	ENST00000492478	processed_transcript	KNOWN	None	23354	None	None	35625980	35842111	1	C10orf9	CFP1, CBCP1
10	CCNY	ENSG00000108100	ENST00000470025	processed_transcript	KNOWN	None	23354	None	None	35723039	35790589	1	C10orf9	CFP1, CBCP1
10	CCNY	ENSG00000108100	ENST00000465416	processed_transcript	KNOWN	None	23354	None	None	35814889	35855056	1	C10orf9	CFP1, CBCP1
10	CCNY	ENSG00000108100	ENST00000497692	processed_transcript	KNOWN	None	23354	None	None	35819124	35855213	1	C10orf9	CFP1, CBCP1
10	CCNY	ENSG00000108100	ENST00000339497	protein_coding	KNOWN	None	23354	951	316	35625802	35860840	1	C10orf9	CFP1, CBCP1
10	CCNY	ENSG00000108100	ENST00000265375	protein_coding	KNOWN	CCDS7190	23354	864	287	35625802	35860840	1	C10orf9	CFP1, CBCP1
1	AQP10	ENSG00000143595	ENST00000355197	processed_transcript	KNOWN	None	16029	None	None	154293566	154296518	1	None	None
1	AQP10	ENSG00000143595	ENST00000324978	protein_coding	KNOWN	CCDS1065	16029	906	301	154293592	154297801	1	None	None
1	AQP10	ENSG00000143595	ENST00000484864	protein_coding	KNOWN	None	16029	795	264	154293596	154297801	1	None	None
15	MYO5C	ENSG00000128833	ENST00000261839	protein_coding	KNOWN	CCDS42036	7604	5229	1742	52484519	52587995	-1	None	MGC74969
15	MYO5C	ENSG00000128833	ENST00000560809	nonsense_mediated_decay	KNOWN	None	7604	810	269	52484856	52587853	-1	None	MGC74969
15	MYO5C	ENSG00000128833	ENST00000559696	retained_intron	KNOWN	None	7604	None	None	52497245	52505725	-1	None	MGC74969
15	MYO5C	ENSG00000128833	ENST00000558902	nonsense_mediated_decay	KNOWN	None	7604	462	153	52521427	52587966	-1	None	MGC74969
15	MYO5C	ENSG00000128833	ENST00000559434	retained_intron	KNOWN	None	7604	None	None	52528986	52535756	-1	None	MGC74969
15	MYO5C	ENSG00000128833	ENST00000559459	nonsense_mediated_decay	KNOWN	None	7604	1293	430	52543188	52587941	-1	None	MGC74969
15	MYO5C	ENSG00000128833	ENST00000558242	retained_intron	KNOWN	None	7604	None	None	52543619	52549092	-1	None	MGC74969
15	MYO5C	ENSG00000128833	ENST00000541028	processed_transcript	KNOWN	None	7604	None	None	52553204	52587965	-1	None	MGC74969
15	MYO5C	ENSG00000128833	ENST00000558479	protein_coding	PUTATIVE	None	7604	320	105	52564886	52587970	-1	None	MGC74969
15	MYO5C	ENSG00000128833	ENST00000443683	protein_coding	KNOWN	None	7604	1122	373	52521427	52587966	-1	None	MGC74969
2	DCDC2C	ENSG00000214866	ENST00000423741	protein_coding	NOVEL	None	32696	895	297	3751453	3826457	1	None	None
2	DCDC2C	ENSG00000214866	ENST00000537457	processed_transcript	KNOWN	None	32696	None	None	3773536	3836122	1	None	None
2	DCDC2C	ENSG00000214866	ENST00000399143	protein_coding	KNOWN	None	32696	450	149	3800169	3817001	1	None	None
4	RWDD4	ENSG00000182552	ENST00000326397	protein_coding	KNOWN	CCDS34111	23750	567	188	184560788	184580378	-1	FAM28A, RWDD4A	MGC10198
4	RWDD4	ENSG00000182552	ENST00000510968	protein_coding	PUTATIVE	None	23750	282	93	184561613	184580304	-1	FAM28A, RWDD4A	MGC10198
4	RWDD4	ENSG00000182552	ENST00000510702	nonsense_mediated_decay	KNOWN	None	23750	135	44	184561781	184580354	-1	FAM28A, RWDD4A	MGC10198
4	RWDD4	ENSG00000182552	ENST00000512740	protein_coding	NOVEL	None	23750	378	125	184561882	184580309	-1	FAM28A, RWDD4A	MGC10198
4	RWDD4	ENSG00000182552	ENST00000514322	nonsense_mediated_decay	KNOWN	None	23750	162	53	184562492	184580356	-1	FAM28A, RWDD4A	MGC10198
4	RWDD4	ENSG00000182552	ENST00000506467	protein_coding	PUTATIVE	None	23750	129	42	184572433	184577249	-1	FAM28A, RWDD4A	MGC10198
4	RWDD4	ENSG00000182552	ENST00000327570	protein_coding	KNOWN	None	23750	564	187	184560789	184580331	-1	FAM28A, RWDD4A	MGC10198
2	SOX11	ENSG00000176887	ENST00000322002	protein_coding	KNOWN	CCDS1654	11191	1326	441	5832799	5841516	1	None	None
2	None	ENSG00000272268	ENST00000391666	protein_coding	KNOWN	None	None	480	159	6111712	6114374	1	None	None
10	ITIH2	ENSG00000151655	ENST00000358415	protein_coding	KNOWN	CCDS31141	6167	2841	946	7745232	7791483	1	None	H2P
10	ITIH2	ENSG00000151655	ENST00000473227	retained_intron	KNOWN	None	6167	None	None	7745309	7755346	1	None	H2P
10	ITIH2	ENSG00000151655	ENST00000480387	processed_transcript	KNOWN	None	6167	None	None	7745331	7762864	1	None	H2P
10	ITIH2	ENSG00000151655	ENST00000429820	protein_coding	PUTATIVE	None	6167	712	236	7745343	7763660	1	None	H2P
10	ITIH2	ENSG00000151655	ENST00000379587	protein_coding	NOVEL	None	6167	2808	935	7745363	7791302	1	None	H2P
10	ITIH2	ENSG00000151655	ENST00000477751	retained_intron	KNOWN	None	6167	None	None	7771828	7774436	1	None	H2P
16	C16orf52	ENSG00000185716	ENST00000567004	protein_coding	PUTATIVE	None	27087	273	90	22018959	22087699	1	None	None
16	C16orf52	ENSG00000185716	ENST00000542527	protein_coding	NOVEL	CCDS58431	27087	504	167	22019530	22095964	1	None	None
16	C16orf52	ENSG00000185716	ENST00000331057	nonsense_mediated_decay	KNOWN	None	27087	117	38	22019530	22098855	1	None	None
16	C16orf52	ENSG00000185716	ENST00000562695	protein_coding	PUTATIVE	None	27087	327	108	22019604	22087377	1	None	None
16	C16orf52	ENSG00000185716	ENST00000562186	nonsense_mediated_decay	KNOWN	None	27087	120	39	22019632	22092118	1	None	None
16	C16orf52	ENSG00000185716	ENST00000568049	retained_intron	KNOWN	None	27087	None	None	22096452	22098855	1	None	None
16	C16orf52	ENSG00000185716	ENST00000569656	protein_coding	KNOWN	None	27087	276	91	22019530	22098854	1	None	None
2	CMPK2	ENSG00000134326	ENST00000256722	protein_coding	NOVEL	CCDS42648	27015	1350	449	6988447	7005827	-1	None	TYKi, UMP-CMPK2
2	CMPK2	ENSG00000134326	ENST00000478738	processed_transcript	KNOWN	None	27015	None	None	6988449	7006766	-1	None	TYKi, UMP-CMPK2
2	CMPK2	ENSG00000134326	ENST00000491738	processed_transcript	KNOWN	None	27015	None	None	6990020	7002196	-1	None	TYKi, UMP-CMPK2
2	CMPK2	ENSG00000134326	ENST00000465619	processed_transcript	KNOWN	None	27015	None	None	6990036	7006642	-1	None	TYKi, UMP-CMPK2
2	CMPK2	ENSG00000134326	ENST00000404168	protein_coding	PUTATIVE	CCDS58696	27015	1230	409	6990781	7005843	-1	None	TYKi, UMP-CMPK2
2	CMPK2	ENSG00000134326	ENST00000470479	processed_transcript	KNOWN	None	27015	None	None	7001389	7006766	-1	None	TYKi, UMP-CMPK2
2	CMPK2	ENSG00000134326	ENST00000458098	protein_coding	KNOWN	CCDS58695	27015	1101	366	6980701	7005936	-1	None	TYKi, UMP-CMPK2
1	RAB3B	ENSG00000169213	ENST00000371655	protein_coding	KNOWN	CCDS560	9778	660	219	52373628	52456436	-1	None	None
1	ATP8B2	ENSG00000143515	ENST00000368487	protein_coding	KNOWN	CCDS41405	13534	1164	387	154298029	154310322	1	None	ATPID, KIAA1137
1	ATP8B2	ENSG00000143515	ENST00000368490	retained_intron	KNOWN	None	13534	None	None	154298081	154303178	1	None	ATPID, KIAA1137
1	ATP8B2	ENSG00000143515	ENST00000368489	protein_coding	KNOWN	CCDS1066	13534	3672	1223	154300276	154323783	1	None	ATPID, KIAA1137
1	ATP8B2	ENSG00000143515	ENST00000426445	processed_transcript	KNOWN	None	13534	None	None	154301275	154314264	1	None	ATPID, KIAA1137
1	ATP8B2	ENSG00000143515	ENST00000514107	retained_intron	KNOWN	None	13534	None	None	154303963	154304455	1	None	ATPID, KIAA1137
1	ATP8B2	ENSG00000143515	ENST00000505882	retained_intron	KNOWN	None	13534	None	None	154319091	154321935	1	None	ATPID, KIAA1137
1	ATP8B2	ENSG00000143515	ENST00000341822	protein_coding	KNOWN	None	13534	1386	461	154301275	154314264	1	None	ATPID, KIAA1137
16	MSLNL	ENSG00000162006	ENST00000543963	protein_coding	PUTATIVE	None	14170	2259	752	819428	832054	-1	C16orf37	MPFL
16	MSLNL	ENSG00000162006	ENST00000537221	retained_intron	KNOWN	None	14170	None	None	824188	828700	-1	C16orf37	MPFL
16	MSLNL	ENSG00000162006	ENST00000442466	protein_coding	KNOWN	None	14170	2109	702	819428	833370	-1	C16orf37	MPFL
16	MSLNL	ENSG00000162006	ENST00000293892	protein_coding	KNOWN	None	14170	3162	1053	819428	832926	-1	C16orf37	MPFL
20	None	ENSG00000238034	ENST00000438222	lincRNA	KNOWN	None	None	None	None	21928285	21951421	1	None	None
6	SESN1	ENSG00000080546	ENST00000436639	protein_coding	KNOWN	CCDS5070	21595	1656	551	109307640	109416022	-1	None	SEST1, PA26
6	SESN1	ENSG00000080546	ENST00000302071	protein_coding	KNOWN	CCDS56444	21595	1281	426	109307645	109330191	-1	None	SEST1, PA26
6	SESN1	ENSG00000080546	ENST00000356644	protein_coding	KNOWN	CCDS56445	21595	1479	492	109307645	109330758	-1	None	SEST1, PA26
6	SESN1	ENSG00000080546	ENST00000520364	retained_intron	KNOWN	None	21595	None	None	109309566	109314219	-1	None	SEST1, PA26
6	SESN1	ENSG00000080546	ENST00000368971	retained_intron	KNOWN	None	21595	None	None	109314022	109320078	-1	None	SEST1, PA26
6	SESN1	ENSG00000080546	ENST00000523632	retained_intron	KNOWN	None	21595	None	None	109321142	109322675	-1	None	SEST1, PA26
6	SESN1	ENSG00000080546	ENST00000517548	processed_transcript	KNOWN	None	21595	None	None	109409305	109415171	-1	None	SEST1, PA26
3	GMPPB	ENSG00000173540	ENST00000480687	protein_coding	KNOWN	CCDS2803	22932	1083	360	49754277	49761384	-1	None	KIAA1851
3	GMPPB	ENSG00000173540	ENST00000308375	protein_coding	KNOWN	CCDS2802	22932	1164	387	49757357	49761384	-1	None	KIAA1851
3	GMPPB	ENSG00000173540	ENST00000308388	protein_coding	KNOWN	CCDS2803	22932	1083	360	49758909	49761382	-1	None	KIAA1851
3	GMPPB	ENSG00000173540	ENST00000481959	retained_intron	KNOWN	None	22932	None	None	49760165	49761376	-1	None	KIAA1851
3	GMPPB	ENSG00000173540	ENST00000495627	retained_intron	KNOWN	None	22932	None	None	49760425	49761349	-1	None	KIAA1851
12	None	ENSG00000256950	ENST00000542602	protein_coding	NOVEL	CCDS58284	None	357	118	122326692	122354305	1	None	None
12	None	ENSG00000256950	ENST00000546333	processed_transcript	KNOWN	None	None	None	None	122326715	122359376	1	None	None
12	None	ENSG00000256950	ENST00000544911	processed_transcript	PUTATIVE	None	None	None	None	122353239	122359297	1	None	None
19	ETV2	ENSG00000105672	ENST00000379026	protein_coding	NOVEL	None	3491	1113	370	36132647	36135773	1	None	ER71
19	ETV2	ENSG00000105672	ENST00000379023	protein_coding	NOVEL	None	3491	468	155	36132647	36135773	1	None	ER71
19	ETV2	ENSG00000105672	ENST00000479824	protein_coding	NOVEL	None	3491	750	249	36132695	36135773	1	None	ER71
19	ETV2	ENSG00000105672	ENST00000403402	protein_coding	PUTATIVE	CCDS32995	3491	1029	342	36133057	36135754	1	None	ER71
19	ETV2	ENSG00000105672	ENST00000591135	protein_coding	PUTATIVE	None	3491	288	95	36134568	36135584	1	None	ER71
19	ETV2	ENSG00000105672	ENST00000402764	protein_coding	KNOWN	CCDS32995	3491	1029	342	36132647	36135773	1	None	ER71
1	TXNDC12	ENSG00000117862	ENST00000469458	processed_transcript	KNOWN	None	24626	None	None	52485803	52489246	-1	None	TLP19, ERP18, ERP19, hAG-1, AGR1, PDIA16
1	TXNDC12	ENSG00000117862	ENST00000371626	protein_coding	KNOWN	CCDS561	24626	519	172	52485803	52521843	-1	None	TLP19, ERP18, ERP19, hAG-1, AGR1, PDIA16
1	TXNDC12	ENSG00000117862	ENST00000472624	processed_transcript	KNOWN	None	24626	None	None	52486586	52520848	-1	None	TLP19, ERP18, ERP19, hAG-1, AGR1, PDIA16
1	TXNDC12	ENSG00000117862	ENST00000471493	processed_transcript	KNOWN	None	24626	None	None	52488741	52490328	-1	None	TLP19, ERP18, ERP19, hAG-1, AGR1, PDIA16
20	None	ENSG00000234435	ENST00000449427	lincRNA	KNOWN	None	None	None	None	22034831	22055238	1	None	None
4	HSD17B11	ENSG00000198189	ENST00000358290	protein_coding	KNOWN	CCDS3619	22960	903	300	88257762	88312538	-1	DHRS8	RetSDR2, 17-BETA-HSD11, 17-BETA-HSDXI, PAN1B, SDR16C2
4	HSD17B11	ENSG00000198189	ENST00000507518	processed_transcript	KNOWN	None	22960	None	None	88258102	88294430	-1	DHRS8	RetSDR2, 17-BETA-HSD11, 17-BETA-HSDXI, PAN1B, SDR16C2
4	HSD17B11	ENSG00000198189	ENST00000512344	processed_transcript	KNOWN	None	22960	None	None	88258201	88287152	-1	DHRS8	RetSDR2, 17-BETA-HSD11, 17-BETA-HSDXI, PAN1B, SDR16C2
4	HSD17B11	ENSG00000198189	ENST00000502576	processed_transcript	KNOWN	None	22960	None	None	88258364	88295566	-1	DHRS8	RetSDR2, 17-BETA-HSD11, 17-BETA-HSDXI, PAN1B, SDR16C2
4	HSD17B11	ENSG00000198189	ENST00000507286	protein_coding	NOVEL	None	22960	771	256	88258427	88312301	-1	DHRS8	RetSDR2, 17-BETA-HSD11, 17-BETA-HSDXI, PAN1B, SDR16C2
4	HSD17B11	ENSG00000198189	ENST00000513854	retained_intron	KNOWN	None	22960	None	None	88261463	88287219	-1	DHRS8	RetSDR2, 17-BETA-HSD11, 17-BETA-HSDXI, PAN1B, SDR16C2
4	HSD17B11	ENSG00000198189	ENST00000508413	processed_transcript	KNOWN	None	22960	None	None	88295974	88312340	-1	DHRS8	RetSDR2, 17-BETA-HSD11, 17-BETA-HSDXI, PAN1B, SDR16C2
4	TMEM128	ENSG00000132406	ENST00000254742	protein_coding	KNOWN	CCDS3373	28201	426	141	4237269	4249939	-1	None	MGC13159
4	TMEM128	ENSG00000132406	ENST00000382753	protein_coding	KNOWN	None	28201	498	165	4237280	4249939	-1	None	MGC13159
4	TMEM128	ENSG00000132406	ENST00000538516	protein_coding	KNOWN	None	28201	399	132	4238145	4249950	-1	None	MGC13159
4	TMEM128	ENSG00000132406	ENST00000540397	protein_coding	KNOWN	None	28201	498	165	4238379	4249944	-1	None	MGC13159
11	OR9G1	ENSG00000174914	ENST00000312153	protein_coding	KNOWN	CCDS31536	15319	918	305	56467864	56468781	1	OR9G5	None
10	EXOSC1	ENSG00000171311	ENST00000370902	protein_coding	KNOWN	CCDS7459	17286	588	195	99195899	99205774	-1	None	hCsl4p, Csl4p, CSL4, Ski4p, SKI4, CGI-108, p13
10	EXOSC1	ENSG00000171311	ENST00000370886	protein_coding	NOVEL	None	17286	537	178	99196001	99205745	-1	None	hCsl4p, Csl4p, CSL4, Ski4p, SKI4, CGI-108, p13
10	EXOSC1	ENSG00000171311	ENST00000370885	protein_coding	KNOWN	None	17286	513	170	99196005	99205750	-1	None	hCsl4p, Csl4p, CSL4, Ski4p, SKI4, CGI-108, p13
10	EXOSC1	ENSG00000171311	ENST00000485122	protein_coding	NOVEL	None	17286	420	139	99196090	99205742	-1	None	hCsl4p, Csl4p, CSL4, Ski4p, SKI4, CGI-108, p13
10	EXOSC1	ENSG00000171311	ENST00000477692	protein_coding	PUTATIVE	None	17286	431	142	99196153	99205607	-1	None	hCsl4p, Csl4p, CSL4, Ski4p, SKI4, CGI-108, p13
10	EXOSC1	ENSG00000171311	ENST00000370884	protein_coding	NOVEL	None	17286	497	164	99196163	99205774	-1	None	hCsl4p, Csl4p, CSL4, Ski4p, SKI4, CGI-108, p13
10	EXOSC1	ENSG00000171311	ENST00000471049	processed_transcript	KNOWN	None	17286	None	None	99196297	99205730	-1	None	hCsl4p, Csl4p, CSL4, Ski4p, SKI4, CGI-108, p13
10	EXOSC1	ENSG00000171311	ENST00000472345	processed_transcript	KNOWN	None	17286	None	None	99197017	99205667	-1	None	hCsl4p, Csl4p, CSL4, Ski4p, SKI4, CGI-108, p13
10	EXOSC1	ENSG00000171311	ENST00000476234	retained_intron	KNOWN	None	17286	None	None	99200521	99205763	-1	None	hCsl4p, Csl4p, CSL4, Ski4p, SKI4, CGI-108, p13
10	EXOSC1	ENSG00000171311	ENST00000489158	retained_intron	KNOWN	None	17286	None	None	99203544	99205763	-1	None	hCsl4p, Csl4p, CSL4, Ski4p, SKI4, CGI-108, p13
10	EXOSC1	ENSG00000171311	ENST00000474309	processed_transcript	KNOWN	None	17286	None	None	99203979	99205590	-1	None	hCsl4p, Csl4p, CSL4, Ski4p, SKI4, CGI-108, p13
6	RWDD2A	ENSG00000013392	ENST00000369724	protein_coding	KNOWN	CCDS4998	21385	879	292	83903098	83908651	1	RWDD2	MGC13523, dJ747H23.2
6	RWDD2A	ENSG00000013392	ENST00000539997	protein_coding	KNOWN	None	21385	717	238	83903104	83906382	1	RWDD2	MGC13523, dJ747H23.2
20	None	ENSG00000234862	ENST00000439450	lincRNA	KNOWN	None	None	None	None	22201192	22203921	1	None	None
12	WDR66	ENSG00000158023	ENST00000288912	protein_coding	KNOWN	CCDS41853	28506	3450	1149	122355768	122441833	1	None	MGC33630
12	WDR66	ENSG00000158023	ENST00000397454	protein_coding	PUTATIVE	CCDS53840	28506	2826	941	122356498	122409975	1	None	MGC33630
12	WDR66	ENSG00000158023	ENST00000540779	retained_intron	KNOWN	None	28506	None	None	122359314	122371561	1	None	MGC33630
12	WDR66	ENSG00000158023	ENST00000546044	retained_intron	KNOWN	None	28506	None	None	122372156	122387117	1	None	MGC33630
12	WDR66	ENSG00000158023	ENST00000543211	retained_intron	KNOWN	None	28506	None	None	122385575	122396995	1	None	MGC33630
12	WDR66	ENSG00000158023	ENST00000535257	retained_intron	KNOWN	None	28506	None	None	122390601	122397645	1	None	MGC33630
12	WDR66	ENSG00000158023	ENST00000545752	processed_transcript	KNOWN	None	28506	None	None	122399900	122407872	1	None	MGC33630
12	WDR66	ENSG00000158023	ENST00000428465	retained_intron	KNOWN	None	28506	None	None	122434792	122441713	1	None	MGC33630
12	WDR66	ENSG00000158023	ENST00000545988	processed_transcript	PUTATIVE	None	28506	None	None	122439610	122441833	1	None	MGC33630
11	SPI1	ENSG00000066336	ENST00000378538	protein_coding	KNOWN	CCDS7933	11241	813	270	47376411	47400127	-1	None	PU.1, SPI-A, OF, SFPI1, SPI-1
11	SPI1	ENSG00000066336	ENST00000227163	protein_coding	KNOWN	CCDS44591	11241	816	271	47376464	47399942	-1	None	PU.1, SPI-A, OF, SFPI1, SPI-1
11	SPI1	ENSG00000066336	ENST00000533030	protein_coding	PUTATIVE	None	11241	108	35	47376652	47400074	-1	None	PU.1, SPI-A, OF, SFPI1, SPI-1
11	SPI1	ENSG00000066336	ENST00000533968	protein_coding	PUTATIVE	None	11241	738	245	47379732	47400038	-1	None	PU.1, SPI-A, OF, SFPI1, SPI-1
8	GPIHBP1	ENSG00000182851	ENST00000330824	protein_coding	KNOWN	CCDS34954	24945	555	184	144295068	144299044	1	None	LOC338328, GPI-HBP1
1	KTI12	ENSG00000198841	ENST00000371614	protein_coding	KNOWN	CCDS562	25160	1065	354	52497775	52499488	-1	None	TOT4, MGC20419, SBBI81
11	OR9G4	ENSG00000172457	ENST00000302957	protein_coding	KNOWN	CCDS31537	15322	984	327	56510303	56511287	-1	None	None
11	OR5AK2	ENSG00000181273	ENST00000326855	protein_coding	KNOWN	CCDS31538	15251	930	309	56756347	56757342	1	None	None
8	ZFP41	ENSG00000181638	ENST00000520584	protein_coding	KNOWN	CCDS6397	26786	597	198	144328991	144335761	1	None	FLJ38705, FLJ00028, ZNF753
8	ZFP41	ENSG00000181638	ENST00000330701	protein_coding	KNOWN	CCDS6397	26786	597	198	144329098	144344875	1	None	FLJ38705, FLJ00028, ZNF753
8	ZFP41	ENSG00000181638	ENST00000522233	processed_transcript	PUTATIVE	None	26786	None	None	144329101	144330660	1	None	FLJ38705, FLJ00028, ZNF753
8	ZFP41	ENSG00000181638	ENST00000517702	processed_transcript	PUTATIVE	None	26786	None	None	144331311	144331926	1	None	FLJ38705, FLJ00028, ZNF753
4	LYAR	ENSG00000145220	ENST00000502917	retained_intron	KNOWN	None	26021	None	None	4269428	4270659	-1	None	ZC2HC2, ZLYAR
4	LYAR	ENSG00000145220	ENST00000343470	protein_coding	KNOWN	CCDS3374	26021	1140	379	4269428	4291896	-1	None	ZC2HC2, ZLYAR
4	LYAR	ENSG00000145220	ENST00000513174	protein_coding	KNOWN	None	26021	237	78	4283510	4291765	-1	None	ZC2HC2, ZLYAR
4	LYAR	ENSG00000145220	ENST00000452476	protein_coding	KNOWN	CCDS3374	26021	1140	379	4269431	4291748	-1	None	ZC2HC2, ZLYAR
2	STAT4	ENSG00000138378	ENST00000358470	protein_coding	KNOWN	CCDS2310	11365	2247	748	191894302	192016316	-1	None	None
2	STAT4	ENSG00000138378	ENST00000392320	protein_coding	KNOWN	CCDS2310	11365	2247	748	191894306	192015986	-1	None	None
2	STAT4	ENSG00000138378	ENST00000463951	retained_intron	KNOWN	None	11365	None	None	191895934	191898333	-1	None	None
2	STAT4	ENSG00000138378	ENST00000495849	retained_intron	KNOWN	None	11365	None	None	191897588	192015739	-1	None	None
2	STAT4	ENSG00000138378	ENST00000470708	processed_transcript	KNOWN	None	11365	None	None	191900904	191906409	-1	None	None
2	STAT4	ENSG00000138378	ENST00000495326	retained_intron	KNOWN	None	11365	None	None	191940750	192015741	-1	None	None
2	STAT4	ENSG00000138378	ENST00000413064	protein_coding	PUTATIVE	None	11365	291	96	191940953	192016286	-1	None	None
2	STAT4	ENSG00000138378	ENST00000409995	protein_coding	PUTATIVE	None	11365	354	117	191996217	192015697	-1	None	None
2	STAT4	ENSG00000138378	ENST00000450994	protein_coding	KNOWN	None	11365	237	78	192011375	192016322	-1	None	None
2	STAT4	ENSG00000138378	ENST00000432798	protein_coding	KNOWN	None	11365	76	24	192012854	192016321	-1	None	None
20	None	ENSG00000225170	ENST00000413920	processed_pseudogene	KNOWN	None	None	None	None	22252690	22254092	-1	None	None
1	IL6R	ENSG00000160712	ENST00000368485	protein_coding	KNOWN	CCDS1067	6019	1407	468	154377669	154441926	1	None	CD126
1	IL6R	ENSG00000160712	ENST00000344086	protein_coding	KNOWN	CCDS1068	6019	1098	365	154377699	154439353	1	None	CD126
1	IL6R	ENSG00000160712	ENST00000512471	protein_coding	NOVEL	None	6019	512	169	154378091	154407059	1	None	CD126
1	IL6R	ENSG00000160712	ENST00000476006	protein_coding	NOVEL	None	6019	881	292	154401819	154422455	1	None	CD126
1	IL6R	ENSG00000160712	ENST00000515190	protein_coding	NOVEL	None	6019	570	189	154407129	154427059	1	None	CD126
1	IL6R	ENSG00000160712	ENST00000507256	processed_transcript	KNOWN	None	6019	None	None	154407486	154437790	1	None	CD126
1	IL6R	ENSG00000160712	ENST00000502679	retained_intron	KNOWN	None	6019	None	None	154426585	154437724	1	None	CD126
7	None	ENSG00000270822	ENST00000603090	processed_pseudogene	KNOWN	None	None	None	None	5048795	5048959	-1	None	None
17	ARHGDIA	ENSG00000141522	ENST00000582520	processed_transcript	PUTATIVE	None	678	None	None	79825597	79826506	-1	GDIA1	RHOGDI
17	ARHGDIA	ENSG00000141522	ENST00000269321	protein_coding	KNOWN	CCDS11788	678	615	204	79825597	79829282	-1	GDIA1	RHOGDI
17	ARHGDIA	ENSG00000141522	ENST00000400721	protein_coding	NOVEL	CCDS58609	678	483	160	79825773	79829252	-1	GDIA1	RHOGDI
17	ARHGDIA	ENSG00000141522	ENST00000584461	protein_coding	PUTATIVE	None	678	708	235	79826136	79829205	-1	GDIA1	RHOGDI
17	ARHGDIA	ENSG00000141522	ENST00000541078	protein_coding	KNOWN	CCDS11788	678	615	204	79826216	79828850	-1	GDIA1	RHOGDI
17	ARHGDIA	ENSG00000141522	ENST00000580685	protein_coding	KNOWN	CCDS11788	678	615	204	79826242	79827882	-1	GDIA1	RHOGDI
17	ARHGDIA	ENSG00000141522	ENST00000579121	protein_coding	PUTATIVE	None	678	581	192	79826382	79828540	-1	GDIA1	RHOGDI
17	ARHGDIA	ENSG00000141522	ENST00000581876	protein_coding	NOVEL	None	678	390	129	79826487	79829200	-1	GDIA1	RHOGDI
17	ARHGDIA	ENSG00000141522	ENST00000583868	protein_coding	PUTATIVE	None	678	748	248	79826507	79829213	-1	GDIA1	RHOGDI
17	ARHGDIA	ENSG00000141522	ENST00000582984	retained_intron	KNOWN	None	678	None	None	79826746	79829213	-1	GDIA1	RHOGDI
17	ARHGDIA	ENSG00000141522	ENST00000580033	nonsense_mediated_decay	KNOWN	None	678	279	92	79826798	79829201	-1	GDIA1	RHOGDI
17	ARHGDIA	ENSG00000141522	ENST00000583791	retained_intron	KNOWN	None	678	None	None	79826880	79827327	-1	GDIA1	RHOGDI
17	ARHGDIA	ENSG00000141522	ENST00000578351	nonsense_mediated_decay	KNOWN	None	678	279	92	79826925	79829202	-1	GDIA1	RHOGDI
17	ARHGDIA	ENSG00000141522	ENST00000583111	retained_intron	KNOWN	None	678	None	None	79827042	79829205	-1	GDIA1	RHOGDI
17	ARHGDIA	ENSG00000141522	ENST00000584397	retained_intron	KNOWN	None	678	None	None	79827178	79829254	-1	GDIA1	RHOGDI
17	ARHGDIA	ENSG00000141522	ENST00000583499	retained_intron	KNOWN	None	678	None	None	79827314	79829213	-1	GDIA1	RHOGDI
17	ARHGDIA	ENSG00000141522	ENST00000582309	retained_intron	KNOWN	None	678	None	None	79827399	79828141	-1	GDIA1	RHOGDI
1	BTF3L4	ENSG00000134717	ENST00000313334	protein_coding	KNOWN	CCDS30713	30547	477	158	52521797	52556388	1	None	MGC23908
1	BTF3L4	ENSG00000134717	ENST00000477828	nonsense_mediated_decay	KNOWN	None	30547	165	54	52521871	52552419	1	None	MGC23908
1	BTF3L4	ENSG00000134717	ENST00000489308	protein_coding	NOVEL	CCDS58001	30547	237	78	52521943	52552827	1	None	MGC23908
1	BTF3L4	ENSG00000134717	ENST00000526132	processed_transcript	KNOWN	None	30547	None	None	52521944	52552546	1	None	MGC23908
1	BTF3L4	ENSG00000134717	ENST00000472944	protein_coding	KNOWN	CCDS44146	30547	303	100	52521976	52554090	1	None	MGC23908
1	BTF3L4	ENSG00000134717	ENST00000524414	retained_intron	KNOWN	None	30547	None	None	52521986	52530971	1	None	MGC23908
1	BTF3L4	ENSG00000134717	ENST00000484036	protein_coding	PUTATIVE	None	30547	438	145	52521993	52552282	1	None	MGC23908
1	BTF3L4	ENSG00000134717	ENST00000533836	processed_transcript	KNOWN	None	30547	None	None	52522004	52549172	1	None	MGC23908
7	ZNF890P	ENSG00000159904	ENST00000530367	transcribed_unprocessed_pseudogene	KNOWN	None	38691	None	None	5160870	5167426	-1	None	None
7	ZNF890P	ENSG00000159904	ENST00000422060	processed_transcript	KNOWN	None	38691	None	None	5161203	5184177	-1	None	None
7	SFRP4	ENSG00000106483	ENST00000436072	protein_coding	KNOWN	CCDS5453	10778	1041	346	37945543	37956517	-1	None	frpHE, FRP-4, FRPHE
7	SFRP4	ENSG00000106483	ENST00000478975	retained_intron	KNOWN	None	10778	None	None	37946864	37949441	-1	None	frpHE, FRP-4, FRPHE
7	SFRP4	ENSG00000106483	ENST00000447200	protein_coding	PUTATIVE	None	10778	411	136	37949261	38065297	-1	None	frpHE, FRP-4, FRPHE
7	RNU6-215P	ENSG00000202039	ENST00000365169	snRNA	KNOWN	None	47178	None	None	5219692	5219793	1	None	None
14	JKAMP	ENSG00000050130	ENST00000261247	protein_coding	NOVEL	CCDS45116	20184	936	311	59951161	59971429	1	C14orf100	HSPC213, JAMP, HSPC327, CDA06
14	JKAMP	ENSG00000050130	ENST00000554754	processed_transcript	KNOWN	None	20184	None	None	59951163	59965495	1	C14orf100	HSPC213, JAMP, HSPC327, CDA06
14	JKAMP	ENSG00000050130	ENST00000557560	processed_transcript	KNOWN	None	20184	None	None	59951210	59961870	1	C14orf100	HSPC213, JAMP, HSPC327, CDA06
14	JKAMP	ENSG00000050130	ENST00000425728	protein_coding	NOVEL	CCDS45117	20184	918	305	59951221	59971421	1	C14orf100	HSPC213, JAMP, HSPC327, CDA06
14	JKAMP	ENSG00000050130	ENST00000553156	retained_intron	KNOWN	None	20184	None	None	59951246	59952686	1	C14orf100	HSPC213, JAMP, HSPC327, CDA06
14	JKAMP	ENSG00000050130	ENST00000555491	nonsense_mediated_decay	KNOWN	None	20184	423	140	59951249	59967965	1	C14orf100	HSPC213, JAMP, HSPC327, CDA06
14	JKAMP	ENSG00000050130	ENST00000556985	protein_coding	PUTATIVE	None	20184	462	153	59951255	59962023	1	C14orf100	HSPC213, JAMP, HSPC327, CDA06
14	JKAMP	ENSG00000050130	ENST00000554271	protein_coding	NOVEL	None	20184	978	325	59951263	59971423	1	C14orf100	HSPC213, JAMP, HSPC327, CDA06
14	JKAMP	ENSG00000050130	ENST00000554795	protein_coding	NOVEL	None	20184	741	246	59951278	59967985	1	C14orf100	HSPC213, JAMP, HSPC327, CDA06
14	JKAMP	ENSG00000050130	ENST00000553941	retained_intron	KNOWN	None	20184	None	None	59951287	59970992	1	C14orf100	HSPC213, JAMP, HSPC327, CDA06
14	JKAMP	ENSG00000050130	ENST00000602482	retained_intron	KNOWN	None	20184	None	None	59953399	59972128	1	C14orf100	HSPC213, JAMP, HSPC327, CDA06
14	JKAMP	ENSG00000050130	ENST00000554721	retained_intron	KNOWN	None	20184	None	None	59953912	59971421	1	C14orf100	HSPC213, JAMP, HSPC327, CDA06
14	JKAMP	ENSG00000050130	ENST00000553647	retained_intron	KNOWN	None	20184	None	None	59967600	59970754	1	C14orf100	HSPC213, JAMP, HSPC327, CDA06
14	JKAMP	ENSG00000050130	ENST00000356057	protein_coding	KNOWN	None	20184	960	319	59951789	59971423	1	C14orf100	HSPC213, JAMP, HSPC327, CDA06
7	None	ENSG00000263808	ENST00000581435	miRNA	NOVEL	None	None	None	None	5315967	5316046	1	None	None
7	None	ENSG00000241269	ENST00000342963	antisense	KNOWN	None	None	None	None	5459458	5460398	1	None	None
7	None	ENSG00000188365	ENST00000455866	antisense	KNOWN	None	None	None	None	5459477	5462753	1	None	None
6	ME1	ENSG00000065833	ENST00000369705	protein_coding	KNOWN	CCDS34492	6983	1719	572	83920108	84140790	-1	None	None
6	ME1	ENSG00000065833	ENST00000543031	protein_coding	KNOWN	None	6983	1494	497	83921424	84140797	-1	None	None
6	ME1	ENSG00000065833	ENST00000541327	protein_coding	KNOWN	None	6983	1221	406	83921297	84140764	-1	None	None
20	None	ENSG00000225321	ENST00000420928	lincRNA	KNOWN	None	None	None	None	22260866	22263310	-1	None	None
11	EEF1G	ENSG00000254772	ENST00000329251	protein_coding	KNOWN	CCDS44626	3213	1314	437	62327073	62341445	-1	None	EF1G
11	EEF1G	ENSG00000254772	ENST00000525340	retained_intron	KNOWN	None	3213	None	None	62327075	62341332	-1	None	EF1G
11	EEF1G	ENSG00000254772	ENST00000524420	processed_transcript	KNOWN	None	3213	None	None	62334871	62340215	-1	None	EF1G
11	EEF1G	ENSG00000254772	ENST00000532986	processed_transcript	KNOWN	None	3213	None	None	62338474	62341558	-1	None	EF1G
11	EEF1G	ENSG00000254772	ENST00000378019	protein_coding	KNOWN	None	3213	1464	487	62327075	62342401	-1	None	EF1G
11	CLPB	ENSG00000162129	ENST00000294053	protein_coding	KNOWN	CCDS8215	30664	2124	707	72003469	72145692	-1	None	HSP78, SKD3, FLJ13152
11	CLPB	ENSG00000162129	ENST00000538039	protein_coding	KNOWN	CCDS58154	30664	2034	677	72003490	72145641	-1	None	HSP78, SKD3, FLJ13152
11	CLPB	ENSG00000162129	ENST00000535990	protein_coding	NOVEL	None	30664	2139	712	72004347	72145426	-1	None	HSP78, SKD3, FLJ13152
11	CLPB	ENSG00000162129	ENST00000340729	protein_coding	NOVEL	CCDS58153	30664	1947	648	72004347	72145578	-1	None	HSP78, SKD3, FLJ13152
11	CLPB	ENSG00000162129	ENST00000543042	protein_coding	PUTATIVE	None	30664	1521	506	72004353	72145684	-1	None	HSP78, SKD3, FLJ13152
11	CLPB	ENSG00000162129	ENST00000538021	protein_coding	PUTATIVE	None	30664	948	315	72004354	72019628	-1	None	HSP78, SKD3, FLJ13152
11	CLPB	ENSG00000162129	ENST00000535477	nonsense_mediated_decay	KNOWN	None	30664	1506	501	72004360	72145554	-1	None	HSP78, SKD3, FLJ13152
11	CLPB	ENSG00000162129	ENST00000544382	protein_coding	NOVEL	None	30664	982	326	72005665	72070250	-1	None	HSP78, SKD3, FLJ13152
11	CLPB	ENSG00000162129	ENST00000544683	protein_coding	PUTATIVE	None	30664	458	151	72028242	72141538	-1	None	HSP78, SKD3, FLJ13152
11	CLPB	ENSG00000162129	ENST00000539148	protein_coding	PUTATIVE	None	30664	447	148	72040829	72141489	-1	None	HSP78, SKD3, FLJ13152
11	CLPB	ENSG00000162129	ENST00000445069	protein_coding	PUTATIVE	None	30664	642	213	72065311	72145657	-1	None	HSP78, SKD3, FLJ13152
11	CLPB	ENSG00000162129	ENST00000536297	nonsense_mediated_decay	KNOWN	None	30664	134	43	72067925	72091346	-1	None	HSP78, SKD3, FLJ13152
11	CLPB	ENSG00000162129	ENST00000542555	processed_transcript	PUTATIVE	None	30664	None	None	72139852	72145185	-1	None	HSP78, SKD3, FLJ13152
11	CLPB	ENSG00000162129	ENST00000437826	protein_coding	KNOWN	CCDS58152	30664	1989	662	72004347	72145426	-1	None	HSP78, SKD3, FLJ13152
1	SHE	ENSG00000169291	ENST00000486773	protein_coding	PUTATIVE	None	27004	124	40	154442248	154458520	-1	None	None
1	SHE	ENSG00000169291	ENST00000555188	protein_coding	PUTATIVE	None	27004	397	131	154451957	154461642	-1	None	None
1	SHE	ENSG00000169291	ENST00000304760	protein_coding	KNOWN	CCDS30877	27004	1488	495	154451957	154474589	-1	None	None
16	RPUSD1	ENSG00000007376	ENST00000561734	protein_coding	KNOWN	CCDS10426	14173	939	312	834974	837981	-1	C16orf40	RLUCL, MGC19600
16	RPUSD1	ENSG00000007376	ENST00000007264	protein_coding	KNOWN	CCDS10426	14173	939	312	834974	838383	-1	C16orf40	RLUCL, MGC19600
16	RPUSD1	ENSG00000007376	ENST00000565809	protein_coding	PUTATIVE	None	14173	396	131	834991	838371	-1	C16orf40	RLUCL, MGC19600
16	RPUSD1	ENSG00000007376	ENST00000567114	protein_coding	PUTATIVE	None	14173	552	183	835014	838397	-1	C16orf40	RLUCL, MGC19600
16	RPUSD1	ENSG00000007376	ENST00000569601	protein_coding	PUTATIVE	None	14173	543	180	835968	838334	-1	C16orf40	RLUCL, MGC19600
16	RPUSD1	ENSG00000007376	ENST00000565377	protein_coding	PUTATIVE	None	14173	519	172	835983	838381	-1	C16orf40	RLUCL, MGC19600
16	RPUSD1	ENSG00000007376	ENST00000567283	nonsense_mediated_decay	KNOWN	None	14173	426	141	836149	838333	-1	C16orf40	RLUCL, MGC19600
16	RPUSD1	ENSG00000007376	ENST00000562070	protein_coding	PUTATIVE	None	14173	536	177	836194	837469	-1	C16orf40	RLUCL, MGC19600
16	RPUSD1	ENSG00000007376	ENST00000565503	nonsense_mediated_decay	KNOWN	None	14173	294	97	836826	838340	-1	C16orf40	RLUCL, MGC19600
16	RPUSD1	ENSG00000007376	ENST00000563560	protein_coding	NOVEL	None	14173	506	167	836841	838329	-1	C16orf40	RLUCL, MGC19600
X	NLGN3	ENSG00000196338	ENST00000395855	protein_coding	KNOWN	None	14289	1540	512	70364693	70387607	1	None	HNL3, KIAA1480, ASPGX1, AUTSX1
X	NLGN3	ENSG00000196338	ENST00000374051	protein_coding	KNOWN	CCDS14407	14289	2487	828	70364693	70391051	1	None	HNL3, KIAA1480, ASPGX1, AUTSX1
X	NLGN3	ENSG00000196338	ENST00000358741	protein_coding	KNOWN	CCDS55441	14289	2547	848	70364712	70390143	1	None	HNL3, KIAA1480, ASPGX1, AUTSX1
X	NLGN3	ENSG00000196338	ENST00000476589	processed_transcript	KNOWN	None	14289	None	None	70373306	70391049	1	None	HNL3, KIAA1480, ASPGX1, AUTSX1
X	NLGN3	ENSG00000196338	ENST00000536169	protein_coding	KNOWN	CCDS55442	14289	2427	808	70364681	70391049	1	None	HNL3, KIAA1480, ASPGX1, AUTSX1
20	None	ENSG00000270838	ENST00000603683	processed_pseudogene	KNOWN	None	None	None	None	22324331	22324568	-1	None	None
17	ALYREF	ENSG00000183684	ENST00000505490	protein_coding	KNOWN	CCDS32768	19071	795	264	79845720	79849462	-1	THOC4	ALY, BEF, ALY/REF, REF
17	ALYREF	ENSG00000183684	ENST00000504015	processed_transcript	PUTATIVE	None	19071	None	None	79846217	79846863	-1	THOC4	ALY, BEF, ALY/REF, REF
17	ALYREF	ENSG00000183684	ENST00000512673	processed_transcript	KNOWN	None	19071	None	None	79846777	79849270	-1	THOC4	ALY, BEF, ALY/REF, REF
17	ALYREF	ENSG00000183684	ENST00000511412	retained_intron	KNOWN	None	19071	None	None	79847177	79848881	-1	THOC4	ALY, BEF, ALY/REF, REF
17	ALYREF	ENSG00000183684	ENST00000331204	protein_coding	KNOWN	None	19071	774	257	79845713	79849462	-1	THOC4	ALY, BEF, ALY/REF, REF
11	LRRC55	ENSG00000183908	ENST00000497933	protein_coding	KNOWN	CCDS31539	32324	1026	341	56949221	56959191	1	None	FLJ45686
1	TDRD10	ENSG00000163239	ENST00000368482	protein_coding	KNOWN	CCDS30878	25316	1056	351	154474695	154520623	1	None	DKFZp434M202
1	TDRD10	ENSG00000163239	ENST00000368480	protein_coding	KNOWN	CCDS41406	25316	1101	366	154475448	154520623	1	None	DKFZp434M202
1	TDRD10	ENSG00000163239	ENST00000479937	processed_transcript	KNOWN	None	25316	None	None	154493842	154520623	1	None	DKFZp434M202
1	TDRD10	ENSG00000163239	ENST00000468714	processed_transcript	KNOWN	None	25316	None	None	154507017	154519955	1	None	DKFZp434M202
1	TDRD10	ENSG00000163239	ENST00000462871	processed_transcript	KNOWN	None	25316	None	None	154514387	154517309	1	None	DKFZp434M202
17	ACAP1	ENSG00000072818	ENST00000158762	protein_coding	KNOWN	CCDS11101	16467	2223	740	7239848	7254797	1	CENTB1	KIAA0050
17	ACAP1	ENSG00000072818	ENST00000570457	protein_coding	PUTATIVE	None	16467	444	147	7239899	7247272	1	CENTB1	KIAA0050
17	ACAP1	ENSG00000072818	ENST00000575425	protein_coding	PUTATIVE	None	16467	305	100	7239909	7246880	1	CENTB1	KIAA0050
17	ACAP1	ENSG00000072818	ENST00000576628	retained_intron	KNOWN	None	16467	None	None	7239916	7246072	1	CENTB1	KIAA0050
17	ACAP1	ENSG00000072818	ENST00000573893	processed_transcript	KNOWN	None	16467	None	None	7245514	7247442	1	CENTB1	KIAA0050
17	ACAP1	ENSG00000072818	ENST00000571220	retained_intron	KNOWN	None	16467	None	None	7246254	7247966	1	CENTB1	KIAA0050
17	ACAP1	ENSG00000072818	ENST00000570439	retained_intron	KNOWN	None	16467	None	None	7248650	7253547	1	CENTB1	KIAA0050
17	ACAP1	ENSG00000072818	ENST00000576594	retained_intron	KNOWN	None	16467	None	None	7250448	7251571	1	CENTB1	KIAA0050
17	ACAP1	ENSG00000072818	ENST00000571471	protein_coding	PUTATIVE	None	16467	135	44	7253636	7254795	1	CENTB1	KIAA0050
17	ACAP1	ENSG00000072818	ENST00000570504	protein_coding	PUTATIVE	None	16467	135	44	7253709	7254796	1	CENTB1	KIAA0050
17	ACAP1	ENSG00000072818	ENST00000574499	protein_coding	PUTATIVE	None	16467	198	65	7253740	7254796	1	CENTB1	KIAA0050
17	ACAP1	ENSG00000072818	ENST00000575415	protein_coding	PUTATIVE	None	16467	135	44	7254184	7254795	1	CENTB1	KIAA0050
16	VWA3A	ENSG00000175267	ENST00000562340	retained_intron	KNOWN	None	27088	None	None	22103859	22122233	1	None	FLJ46765, FLJ40941
16	VWA3A	ENSG00000175267	ENST00000567131	protein_coding	PUTATIVE	None	27088	95	30	22103861	22122300	1	None	FLJ46765, FLJ40941
16	VWA3A	ENSG00000175267	ENST00000566668	retained_intron	KNOWN	None	27088	None	None	22103862	22149746	1	None	FLJ46765, FLJ40941
16	VWA3A	ENSG00000175267	ENST00000568328	protein_coding	NOVEL	None	27088	2240	745	22103863	22149718	1	None	FLJ46765, FLJ40941
16	VWA3A	ENSG00000175267	ENST00000389398	protein_coding	KNOWN	CCDS45441	27088	3555	1184	22103863	22168287	1	None	FLJ46765, FLJ40941
16	VWA3A	ENSG00000175267	ENST00000299840	nonsense_mediated_decay	KNOWN	None	27088	1288	428	22132345	22167421	1	None	FLJ46765, FLJ40941
16	VWA3A	ENSG00000175267	ENST00000563389	protein_coding	PUTATIVE	None	27088	444	147	22143033	22149873	1	None	FLJ46765, FLJ40941
16	VWA3A	ENSG00000175267	ENST00000563755	protein_coding	NOVEL	None	27088	861	286	22157593	22167223	1	None	FLJ46765, FLJ40941
16	VWA3A	ENSG00000175267	ENST00000389397	protein_coding	KNOWN	None	27088	861	286	22103863	22168274	1	None	FLJ46765, FLJ40941
8	None	ENSG00000264668	ENST00000522452	protein_coding	KNOWN	CCDS6397	None	597	198	144329280	144358573	1	None	None
4	SRP72	ENSG00000174780	ENST00000342756	protein_coding	KNOWN	CCDS3506	11303	2016	671	57333081	57369273	1	None	None
4	SRP72	ENSG00000174780	ENST00000510663	protein_coding	NOVEL	CCDS58898	11303	1833	610	57333783	57368648	1	None	None
4	SRP72	ENSG00000174780	ENST00000504757	protein_coding	PUTATIVE	None	11303	663	220	57333784	57340669	1	None	None
4	SRP72	ENSG00000174780	ENST00000505314	protein_coding	PUTATIVE	None	11303	1071	356	57340300	57357731	1	None	None
4	SRP72	ENSG00000174780	ENST00000507126	retained_intron	KNOWN	None	11303	None	None	57366678	57369839	1	None	None
14	RPL36AL	ENSG00000165502	ENST00000298289	protein_coding	KNOWN	CCDS9689	10346	321	106	50085237	50087403	-1	RPL36A	None
20	None	ENSG00000204684	ENST00000377121	lincRNA	KNOWN	None	None	None	None	22380989	22401281	-1	None	None
14	MGAT2	ENSG00000168282	ENST00000305386	protein_coding	KNOWN	CCDS9690	7045	1344	447	50087489	50090198	1	None	GNT-II
1	ZFYVE9	ENSG00000157077	ENST00000361625	protein_coding	KNOWN	None	6775	2289	762	52608046	52729719	1	MADHIP	SMADIP, SARA
1	ZFYVE9	ENSG00000157077	ENST00000357206	protein_coding	KNOWN	CCDS564	6775	4101	1366	52608046	52812187	1	MADHIP	SMADIP, SARA
1	ZFYVE9	ENSG00000157077	ENST00000371591	protein_coding	KNOWN	CCDS563	6775	4278	1425	52682052	52812358	1	MADHIP	SMADIP, SARA
1	ZFYVE9	ENSG00000157077	ENST00000469134	processed_transcript	KNOWN	None	6775	None	None	52761567	52800879	1	MADHIP	SMADIP, SARA
1	ZFYVE9	ENSG00000157077	ENST00000287727	protein_coding	KNOWN	CCDS563	6775	4278	1425	52608046	52812357	1	MADHIP	SMADIP, SARA
3	POLR2H	ENSG00000163882	ENST00000456318	protein_coding	KNOWN	CCDS3264	9195	453	150	184079506	184086382	1	None	RPB8
3	POLR2H	ENSG00000163882	ENST00000412877	protein_coding	KNOWN	None	9195	35	10	184079511	184081315	1	None	RPB8
3	POLR2H	ENSG00000163882	ENST00000438240	protein_coding	PUTATIVE	None	9195	345	114	184079577	184086338	1	None	RPB8
3	POLR2H	ENSG00000163882	ENST00000460083	processed_transcript	PUTATIVE	None	9195	None	None	184080231	184081037	1	None	RPB8
3	POLR2H	ENSG00000163882	ENST00000455712	protein_coding	KNOWN	None	9195	446	147	184080403	184086075	1	None	RPB8
3	POLR2H	ENSG00000163882	ENST00000430783	protein_coding	NOVEL	None	9195	369	122	184080790	184086381	1	None	RPB8
3	POLR2H	ENSG00000163882	ENST00000443489	protein_coding	PUTATIVE	None	9195	261	86	184081149	184086379	1	None	RPB8
3	POLR2H	ENSG00000163882	ENST00000452961	protein_coding	PUTATIVE	None	9195	345	114	184081191	184086321	1	None	RPB8
3	POLR2H	ENSG00000163882	ENST00000429568	protein_coding	NOVEL	None	9195	528	175	184081222	184086384	1	None	RPB8
3	POLR2H	ENSG00000163882	ENST00000488213	retained_intron	KNOWN	None	9195	None	None	184082239	184086222	1	None	RPB8
3	POLR2H	ENSG00000163882	ENST00000489043	retained_intron	KNOWN	None	9195	None	None	184082743	184086041	1	None	RPB8
3	POLR2H	ENSG00000163882	ENST00000490958	retained_intron	KNOWN	None	9195	None	None	184082795	184083311	1	None	RPB8
3	POLR2H	ENSG00000163882	ENST00000476003	retained_intron	KNOWN	None	9195	None	None	184084303	184086326	1	None	RPB8
3	POLR2H	ENSG00000163882	ENST00000296223	protein_coding	KNOWN	CCDS3264	9195	453	150	184081194	184086363	1	None	RPB8
8	GLI4	ENSG00000250571	ENST00000519876	processed_transcript	KNOWN	None	4320	None	None	144349603	144355553	1	None	HKR4, ZNF928
8	GLI4	ENSG00000250571	ENST00000522479	processed_transcript	PUTATIVE	None	4320	None	None	144349604	144358351	1	None	HKR4, ZNF928
8	GLI4	ENSG00000250571	ENST00000521682	protein_coding	PUTATIVE	None	4320	498	165	144349607	144357921	1	None	HKR4, ZNF928
8	GLI4	ENSG00000250571	ENST00000344692	protein_coding	PUTATIVE	None	4320	231	76	144351528	144357722	1	None	HKR4, ZNF928
8	GLI4	ENSG00000250571	ENST00000517468	protein_coding	PUTATIVE	None	4320	171	56	144351528	144357864	1	None	HKR4, ZNF928
8	GLI4	ENSG00000250571	ENST00000523522	protein_coding	KNOWN	CCDS6398	4320	1131	376	144351528	144359101	1	None	HKR4, ZNF928
8	GLI4	ENSG00000250571	ENST00000520021	protein_coding	NOVEL	None	4320	334	110	144351540	144357475	1	None	HKR4, ZNF928
8	GLI4	ENSG00000250571	ENST00000517530	protein_coding	PUTATIVE	None	4320	261	86	144351636	144358581	1	None	HKR4, ZNF928
8	GLI4	ENSG00000250571	ENST00000522033	retained_intron	KNOWN	None	4320	None	None	144356632	144358340	1	None	HKR4, ZNF928
8	GLI4	ENSG00000250571	ENST00000523812	processed_transcript	KNOWN	None	4320	None	None	144356769	144359101	1	None	HKR4, ZNF928
8	GLI4	ENSG00000250571	ENST00000340042	protein_coding	KNOWN	CCDS6398	4320	1131	376	144349607	144359099	1	None	HKR4, ZNF928
14	DNAAF2	ENSG00000165506	ENST00000298292	protein_coding	KNOWN	CCDS9691	20188	2514	837	50091892	50101948	-1	C14orf104	FLJ10563, KTU, PF13, CILD10
14	DNAAF2	ENSG00000165506	ENST00000406043	protein_coding	KNOWN	CCDS45100	20188	2370	789	50091892	50101948	-1	C14orf104	FLJ10563, KTU, PF13, CILD10
20	None	ENSG00000243467	ENST00000420070	processed_transcript	KNOWN	None	None	None	None	22528309	22541562	-1	None	None
1	UBE2Q1	ENSG00000160714	ENST00000292211	protein_coding	KNOWN	CCDS1069	15698	1269	422	154521053	154531109	-1	UBE2Q	PRO3094, NICE-5
1	UBE2Q1	ENSG00000160714	ENST00000467683	processed_transcript	KNOWN	None	15698	None	None	154522885	154525296	-1	UBE2Q	PRO3094, NICE-5
1	UBE2Q1	ENSG00000160714	ENST00000491572	processed_transcript	KNOWN	None	15698	None	None	154523429	154524333	-1	UBE2Q	PRO3094, NICE-5
1	UBE2Q1	ENSG00000160714	ENST00000476612	processed_transcript	KNOWN	None	15698	None	None	154523699	154524277	-1	UBE2Q	PRO3094, NICE-5
1	UBE2Q1	ENSG00000160714	ENST00000483639	processed_transcript	KNOWN	None	15698	None	None	154523936	154525552	-1	UBE2Q	PRO3094, NICE-5
1	UBE2Q1	ENSG00000160714	ENST00000474181	processed_transcript	KNOWN	None	15698	None	None	154524227	154524851	-1	UBE2Q	PRO3094, NICE-5
1	UBE2Q1	ENSG00000160714	ENST00000497453	processed_transcript	KNOWN	None	15698	None	None	154524858	154531504	-1	UBE2Q	PRO3094, NICE-5
9	C9orf64	ENSG00000165118	ENST00000376344	protein_coding	KNOWN	CCDS6666	28144	1026	341	86553226	86571632	-1	None	MGC10999
9	C9orf64	ENSG00000165118	ENST00000314700	protein_coding	KNOWN	None	28144	603	200	86553229	86571901	-1	None	MGC10999
9	C9orf64	ENSG00000165118	ENST00000376340	protein_coding	NOVEL	None	28144	183	60	86568563	86571242	-1	None	MGC10999
3	ITIH3	ENSG00000162267	ENST00000467268	retained_intron	KNOWN	None	6168	None	None	52828784	52830057	1	None	H3P
3	ITIH3	ENSG00000162267	ENST00000416872	protein_coding	PUTATIVE	None	6168	2097	698	52828812	52842812	1	None	H3P
3	ITIH3	ENSG00000162267	ENST00000449956	protein_coding	KNOWN	CCDS46845	6168	2673	890	52828814	52843025	1	None	H3P
3	ITIH3	ENSG00000162267	ENST00000465243	processed_transcript	KNOWN	None	6168	None	None	52832586	52835079	1	None	H3P
3	ITIH3	ENSG00000162267	ENST00000463893	processed_transcript	KNOWN	None	6168	None	None	52832628	52833892	1	None	H3P
3	ITIH3	ENSG00000162267	ENST00000464804	retained_intron	KNOWN	None	6168	None	None	52834402	52836432	1	None	H3P
3	ITIH3	ENSG00000162267	ENST00000465314	retained_intron	KNOWN	None	6168	None	None	52836220	52836822	1	None	H3P
3	ITIH3	ENSG00000162267	ENST00000475931	retained_intron	KNOWN	None	6168	None	None	52836518	52838270	1	None	H3P
3	ITIH3	ENSG00000162267	ENST00000495622	retained_intron	KNOWN	None	6168	None	None	52838019	52840954	1	None	H3P
3	ITIH3	ENSG00000162267	ENST00000493136	retained_intron	KNOWN	None	6168	None	None	52838822	52842812	1	None	H3P
19	CAPNS1	ENSG00000126247	ENST00000246533	protein_coding	KNOWN	CCDS12489	1481	807	268	36630477	36641254	1	CAPN4	CANP, CANPS, 30K, CDPS
19	CAPNS1	ENSG00000126247	ENST00000589146	protein_coding	PUTATIVE	None	1481	285	94	36630855	36640814	1	CAPN4	CANP, CANPS, 30K, CDPS
19	CAPNS1	ENSG00000126247	ENST00000587718	protein_coding	NOVEL	None	1481	969	322	36631010	36641251	1	CAPN4	CANP, CANPS, 30K, CDPS
19	CAPNS1	ENSG00000126247	ENST00000592483	protein_coding	KNOWN	None	1481	217	71	36631012	36633209	1	CAPN4	CANP, CANPS, 30K, CDPS
19	CAPNS1	ENSG00000126247	ENST00000590874	protein_coding	PUTATIVE	None	1481	717	238	36631025	36640903	1	CAPN4	CANP, CANPS, 30K, CDPS
19	CAPNS1	ENSG00000126247	ENST00000588815	protein_coding	KNOWN	CCDS12489	1481	807	268	36631029	36641254	1	CAPN4	CANP, CANPS, 30K, CDPS
19	CAPNS1	ENSG00000126247	ENST00000591041	protein_coding	KNOWN	None	1481	491	162	36631510	36636742	1	CAPN4	CANP, CANPS, 30K, CDPS
19	CAPNS1	ENSG00000126247	ENST00000588780	protein_coding	KNOWN	None	1481	837	278	36631870	36640895	1	CAPN4	CANP, CANPS, 30K, CDPS
19	CAPNS1	ENSG00000126247	ENST00000590049	non_stop_decay	KNOWN	None	1481	592	196	36632061	36641255	1	CAPN4	CANP, CANPS, 30K, CDPS
19	CAPNS1	ENSG00000126247	ENST00000586851	protein_coding	PUTATIVE	None	1481	589	195	36632081	36640768	1	CAPN4	CANP, CANPS, 30K, CDPS
19	CAPNS1	ENSG00000126247	ENST00000590211	protein_coding	PUTATIVE	None	1481	164	53	36632092	36641251	1	CAPN4	CANP, CANPS, 30K, CDPS
19	CAPNS1	ENSG00000126247	ENST00000592354	protein_coding	PUTATIVE	None	1481	301	99	36632205	36637130	1	CAPN4	CANP, CANPS, 30K, CDPS
19	CAPNS1	ENSG00000126247	ENST00000586963	protein_coding	PUTATIVE	None	1481	484	160	36632495	36637181	1	CAPN4	CANP, CANPS, 30K, CDPS
19	CAPNS1	ENSG00000126247	ENST00000589162	retained_intron	KNOWN	None	1481	None	None	36636275	36640482	1	CAPN4	CANP, CANPS, 30K, CDPS
20	LINC00261	ENSG00000259974	ENST00000564492	lincRNA	KNOWN	None	16189	None	None	22541191	22559280	-1	C20orf56, NCRNA00261	bA216C10.1, HCCDR1
7	None	ENSG00000230733	ENST00000444210	lincRNA	KNOWN	None	None	None	None	5515435	5519442	1	None	None
7	None	ENSG00000238394	ENST00000458839	snoRNA	NOVEL	None	None	None	None	5525026	5525132	1	None	None
8	LAPTM4B	ENSG00000104341	ENST00000445593	protein_coding	KNOWN	CCDS6275	13646	954	317	98787285	98865241	1	None	LC27
8	LAPTM4B	ENSG00000104341	ENST00000521545	protein_coding	KNOWN	None	13646	681	226	98788004	98863702	1	None	LC27
8	LAPTM4B	ENSG00000104341	ENST00000517924	protein_coding	NOVEL	None	13646	618	205	98788077	98831392	1	None	LC27
7	MIR589	ENSG00000207973	ENST00000385238	miRNA	KNOWN	None	32845	None	None	5535450	5535548	-1	MIRN589	hsa-mir-589
14	POLE2	ENSG00000100479	ENST00000554851	retained_intron	KNOWN	None	9178	None	None	50110273	50118202	-1	None	DPE2
14	POLE2	ENSG00000100479	ENST00000556937	processed_transcript	KNOWN	None	9178	None	None	50110273	50121782	-1	None	DPE2
14	POLE2	ENSG00000100479	ENST00000216367	protein_coding	KNOWN	CCDS32073	9178	1584	527	50110278	50155021	-1	None	DPE2
14	POLE2	ENSG00000100479	ENST00000554671	processed_transcript	PUTATIVE	None	9178	None	None	50110282	50114078	-1	None	DPE2
14	POLE2	ENSG00000100479	ENST00000555724	processed_transcript	PUTATIVE	None	9178	None	None	50110282	50114078	-1	None	DPE2
14	POLE2	ENSG00000100479	ENST00000539565	protein_coding	NOVEL	CCDS55914	9178	1506	501	50110303	50155140	-1	None	DPE2
14	POLE2	ENSG00000100479	ENST00000556584	processed_transcript	KNOWN	None	9178	None	None	50110304	50154915	-1	None	DPE2
14	POLE2	ENSG00000100479	ENST00000554377	retained_intron	KNOWN	None	9178	None	None	50116837	50121038	-1	None	DPE2
14	POLE2	ENSG00000100479	ENST00000554396	protein_coding	NOVEL	CCDS55915	9178	1509	502	50116906	50154928	-1	None	DPE2
14	POLE2	ENSG00000100479	ENST00000553850	retained_intron	KNOWN	None	9178	None	None	50120643	50121181	-1	None	DPE2
14	POLE2	ENSG00000100479	ENST00000553805	protein_coding	PUTATIVE	None	9178	291	96	50146192	50154921	-1	None	DPE2
4	NUDT9	ENSG00000170502	ENST00000302174	protein_coding	KNOWN	CCDS3620	8056	1053	350	88343734	88379497	1	None	MGC3037
4	NUDT9	ENSG00000170502	ENST00000512216	protein_coding	KNOWN	None	8056	618	205	88343741	88372866	1	None	MGC3037
4	NUDT9	ENSG00000170502	ENST00000514345	processed_transcript	KNOWN	None	8056	None	None	88343746	88356376	1	None	MGC3037
4	NUDT9	ENSG00000170502	ENST00000473942	protein_coding	KNOWN	CCDS3621	8056	903	300	88343749	88380606	1	None	MGC3037
4	NUDT9	ENSG00000170502	ENST00000514227	processed_transcript	KNOWN	None	8056	None	None	88343833	88356183	1	None	MGC3037
4	NUDT9	ENSG00000170502	ENST00000440591	protein_coding	NOVEL	None	8056	854	283	88343961	88379070	1	None	MGC3037
4	NUDT9	ENSG00000170502	ENST00000502933	nonsense_mediated_decay	KNOWN	None	8056	234	77	88344034	88375597	1	None	MGC3037
4	NUDT9	ENSG00000170502	ENST00000515371	processed_transcript	KNOWN	None	8056	None	None	88363023	88375608	1	None	MGC3037
1	CHRNB2	ENSG00000160716	ENST00000368476	protein_coding	KNOWN	CCDS1070	1962	1509	502	154540257	154552502	1	None	None
2	RSAD2	ENSG00000134321	ENST00000474872	processed_transcript	KNOWN	None	30908	None	None	7005937	7017375	1	None	cig5, viperin, vig1
2	RSAD2	ENSG00000134321	ENST00000442639	protein_coding	PUTATIVE	None	30908	423	140	7005959	7027184	1	None	cig5, viperin, vig1
2	RSAD2	ENSG00000134321	ENST00000382040	protein_coding	KNOWN	CCDS1656	30908	1086	361	7017796	7038370	1	None	cig5, viperin, vig1
2	RSAD2	ENSG00000134321	ENST00000489749	retained_intron	KNOWN	None	30908	None	None	7018154	7023961	1	None	cig5, viperin, vig1
2	RSAD2	ENSG00000134321	ENST00000477834	processed_transcript	KNOWN	None	30908	None	None	7018925	7027224	1	None	cig5, viperin, vig1
2	RSAD2	ENSG00000134321	ENST00000541728	protein_coding	KNOWN	None	30908	765	254	7018925	7036440	1	None	cig5, viperin, vig1
19	COX6B1	ENSG00000126267	ENST00000246554	protein_coding	KNOWN	CCDS12469	2280	261	86	36139125	36149763	1	COX6B	COXG
19	COX6B1	ENSG00000126267	ENST00000592141	protein_coding	KNOWN	CCDS12469	2280	261	86	36139542	36149683	1	COX6B	COXG
19	COX6B1	ENSG00000126267	ENST00000392201	protein_coding	KNOWN	CCDS12469	2280	261	86	36139727	36149628	1	COX6B	COXG
19	COX6B1	ENSG00000126267	ENST00000590618	protein_coding	PUTATIVE	None	2280	122	39	36142147	36149680	1	COX6B	COXG
7	None	ENSG00000263900	ENST00000579427	miRNA	NOVEL	None	None	None	None	5567734	5567817	-1	None	None
7	None	ENSG00000228974	ENST00000487308	processed_pseudogene	KNOWN	None	None	None	None	5600374	5600686	1	None	None
7	None	ENSG00000228974	ENST00000536399	processed_pseudogene	KNOWN	None	None	None	None	5600374	5600676	1	None	None
7	RNF216-IT1	ENSG00000237738	ENST00000443837	sense_intronic	KNOWN	None	41463	None	None	5702063	5720092	-1	None	None
7	TPST1	ENSG00000169902	ENST00000304842	protein_coding	KNOWN	CCDS5533	12020	1113	370	65670186	65825430	1	None	TANGO13A
7	TPST1	ENSG00000169902	ENST00000442120	protein_coding	KNOWN	None	12020	125	40	65670304	65705537	1	None	TANGO13A
7	TPST1	ENSG00000169902	ENST00000480281	processed_transcript	KNOWN	None	12020	None	None	65670321	65824460	1	None	TANGO13A
7	TPST1	ENSG00000169902	ENST00000451388	protein_coding	KNOWN	None	12020	422	139	65686591	65705834	1	None	TANGO13A
7	TPST1	ENSG00000169902	ENST00000490159	processed_transcript	KNOWN	None	12020	None	None	65817491	65885530	1	None	TANGO13A
7	ZNF815P	ENSG00000235944	ENST00000421890	processed_transcript	KNOWN	None	22029	None	None	5862791	5886942	1	ZNF815	FLJ38969
7	ZNF815P	ENSG00000235944	ENST00000430530	processed_transcript	KNOWN	None	22029	None	None	5862820	5878783	1	ZNF815	FLJ38969
7	ZNF815P	ENSG00000235944	ENST00000434898	transcribed_unprocessed_pseudogene	KNOWN	None	22029	None	None	5862838	5894066	1	ZNF815	FLJ38969
7	ZNF815P	ENSG00000235944	ENST00000442665	processed_transcript	KNOWN	None	22029	None	None	5862847	5879673	1	ZNF815	FLJ38969
7	ZNF815P	ENSG00000235944	ENST00000422825	processed_transcript	KNOWN	None	22029	None	None	5886953	5893996	1	ZNF815	FLJ38969
7	ZNF815P	ENSG00000235944	ENST00000427985	unprocessed_pseudogene	KNOWN	None	22029	None	None	5862791	5894066	1	ZNF815	FLJ38969
1	CC2D1B	ENSG00000154222	ENST00000470844	processed_transcript	KNOWN	None	29386	None	None	52811395	52820537	-1	None	KIAA1836
1	CC2D1B	ENSG00000154222	ENST00000371586	protein_coding	KNOWN	CCDS30714	29386	2577	858	52816269	52831865	-1	None	KIAA1836
1	CC2D1B	ENSG00000154222	ENST00000491136	retained_intron	KNOWN	None	29386	None	None	52818204	52831828	-1	None	KIAA1836
1	CC2D1B	ENSG00000154222	ENST00000284376	protein_coding	KNOWN	None	29386	2559	852	52818204	52831851	-1	None	KIAA1836
1	CC2D1B	ENSG00000154222	ENST00000438021	protein_coding	PUTATIVE	None	29386	1886	627	52818210	52825868	-1	None	KIAA1836
1	CC2D1B	ENSG00000154222	ENST00000460261	processed_transcript	KNOWN	None	29386	None	None	52818761	52826772	-1	None	KIAA1836
1	CC2D1B	ENSG00000154222	ENST00000450942	protein_coding	NOVEL	None	29386	2018	671	52819191	52826220	-1	None	KIAA1836
1	CC2D1B	ENSG00000154222	ENST00000460370	retained_intron	KNOWN	None	29386	None	None	52819203	52821338	-1	None	KIAA1836
1	CC2D1B	ENSG00000154222	ENST00000492426	retained_intron	KNOWN	None	29386	None	None	52820327	52820637	-1	None	KIAA1836
1	CC2D1B	ENSG00000154222	ENST00000485966	retained_intron	KNOWN	None	29386	None	None	52820559	52822232	-1	None	KIAA1836
1	CC2D1B	ENSG00000154222	ENST00000494789	processed_transcript	KNOWN	None	29386	None	None	52821927	52822485	-1	None	KIAA1836
1	CC2D1B	ENSG00000154222	ENST00000438831	protein_coding	KNOWN	None	29386	645	214	52820055	52831864	-1	None	KIAA1836
15	ZNF106	ENSG00000103994	ENST00000263805	protein_coding	KNOWN	CCDS32208	12886	5652	1883	42705021	42749730	-1	ZFP106	ZNF474, SH3BP3
15	ZNF106	ENSG00000103994	ENST00000565380	protein_coding	NOVEL	None	12886	3336	1111	42707319	42783303	-1	ZFP106	ZNF474, SH3BP3
15	ZNF106	ENSG00000103994	ENST00000565500	protein_coding	NOVEL	None	12886	2552	849	42707321	42740496	-1	ZFP106	ZNF474, SH3BP3
15	ZNF106	ENSG00000103994	ENST00000569648	protein_coding	PUTATIVE	None	12886	654	217	42707493	42720302	-1	ZFP106	ZNF474, SH3BP3
15	ZNF106	ENSG00000103994	ENST00000565611	protein_coding	PUTATIVE	None	12886	3207	1068	42707938	42749711	-1	ZFP106	ZNF474, SH3BP3
15	ZNF106	ENSG00000103994	ENST00000568906	retained_intron	KNOWN	None	12886	None	None	42710067	42716444	-1	ZFP106	ZNF474, SH3BP3
15	ZNF106	ENSG00000103994	ENST00000565660	processed_transcript	KNOWN	None	12886	None	None	42714156	42716996	-1	ZFP106	ZNF474, SH3BP3
15	ZNF106	ENSG00000103994	ENST00000570078	processed_transcript	KNOWN	None	12886	None	None	42714751	42717979	-1	ZFP106	ZNF474, SH3BP3
15	ZNF106	ENSG00000103994	ENST00000567772	protein_coding	PUTATIVE	None	12886	576	191	42733939	42738796	-1	ZFP106	ZNF474, SH3BP3
15	ZNF106	ENSG00000103994	ENST00000565948	protein_coding	PUTATIVE	None	12886	2448	815	42738824	42749754	-1	ZFP106	ZNF474, SH3BP3
15	ZNF106	ENSG00000103994	ENST00000564754	protein_coding	NOVEL	None	12886	1294	430	42743176	42783321	-1	ZFP106	ZNF474, SH3BP3
15	ZNF106	ENSG00000103994	ENST00000567041	protein_coding	NOVEL	None	12886	605	200	42743865	42782608	-1	ZFP106	ZNF474, SH3BP3
X	FRMD7	ENSG00000165694	ENST00000370879	protein_coding	KNOWN	None	8079	1785	594	131211021	131228291	-1	NYS, NYS1	FLJ43346
X	FRMD7	ENSG00000165694	ENST00000298542	protein_coding	KNOWN	CCDS35397	8079	2145	714	131211023	131262048	-1	NYS, NYS1	FLJ43346
X	FRMD7	ENSG00000165694	ENST00000464296	protein_coding	NOVEL	None	8079	2100	699	131211900	131261872	-1	NYS, NYS1	FLJ43346
4	TRAPPC11	ENSG00000168538	ENST00000334690	protein_coding	KNOWN	CCDS34112	25751	3402	1133	184580420	184634745	1	C4orf41	FLJ12716, gry, foigr
4	TRAPPC11	ENSG00000168538	ENST00000504526	processed_transcript	PUTATIVE	None	25751	None	None	184580476	184587531	1	C4orf41	FLJ12716, gry, foigr
4	TRAPPC11	ENSG00000168538	ENST00000505676	nonsense_mediated_decay	KNOWN	None	25751	375	124	184580529	184634176	1	C4orf41	FLJ12716, gry, foigr
4	TRAPPC11	ENSG00000168538	ENST00000509857	retained_intron	KNOWN	None	25751	None	None	184585170	184596002	1	C4orf41	FLJ12716, gry, foigr
4	TRAPPC11	ENSG00000168538	ENST00000513600	retained_intron	KNOWN	None	25751	None	None	184588046	184598628	1	C4orf41	FLJ12716, gry, foigr
4	TRAPPC11	ENSG00000168538	ENST00000511409	processed_transcript	KNOWN	None	25751	None	None	184588109	184598691	1	C4orf41	FLJ12716, gry, foigr
4	TRAPPC11	ENSG00000168538	ENST00000512476	protein_coding	PUTATIVE	None	25751	2220	739	184605002	184634022	1	C4orf41	FLJ12716, gry, foigr
4	TRAPPC11	ENSG00000168538	ENST00000511955	retained_intron	KNOWN	None	25751	None	None	184622006	184634744	1	C4orf41	FLJ12716, gry, foigr
4	TRAPPC11	ENSG00000168538	ENST00000506426	retained_intron	KNOWN	None	25751	None	None	184622813	184628093	1	C4orf41	FLJ12716, gry, foigr
4	TRAPPC11	ENSG00000168538	ENST00000357207	protein_coding	KNOWN	CCDS47166	25751	3261	1086	184580446	184634744	1	C4orf41	FLJ12716, gry, foigr
17	ANAPC11	ENSG00000141552	ENST00000571570	protein_coding	KNOWN	CCDS11789	14452	255	84	79848666	79858131	1	None	HSPC214, APC11, Apc11p, MGC882
17	ANAPC11	ENSG00000141552	ENST00000572639	protein_coding	KNOWN	CCDS11789	14452	255	84	79849523	79858131	1	None	HSPC214, APC11, Apc11p, MGC882
17	ANAPC11	ENSG00000141552	ENST00000579978	protein_coding	KNOWN	CCDS11789	14452	255	84	79849596	79858128	1	None	HSPC214, APC11, Apc11p, MGC882
17	ANAPC11	ENSG00000141552	ENST00000344877	protein_coding	KNOWN	CCDS11789	14452	255	84	79849597	79858409	1	None	HSPC214, APC11, Apc11p, MGC882
17	ANAPC11	ENSG00000141552	ENST00000582222	protein_coding	PUTATIVE	None	14452	135	44	79849599	79852683	1	None	HSPC214, APC11, Apc11p, MGC882
17	ANAPC11	ENSG00000141552	ENST00000577425	protein_coding	PUTATIVE	None	14452	135	44	79849599	79858129	1	None	HSPC214, APC11, Apc11p, MGC882
17	ANAPC11	ENSG00000141552	ENST00000571024	protein_coding	KNOWN	CCDS11789	14452	255	84	79849599	79858232	1	None	HSPC214, APC11, Apc11p, MGC882
17	ANAPC11	ENSG00000141552	ENST00000574924	protein_coding	KNOWN	CCDS11789	14452	255	84	79849608	79858232	1	None	HSPC214, APC11, Apc11p, MGC882
17	ANAPC11	ENSG00000141552	ENST00000572851	protein_coding	KNOWN	CCDS11789	14452	255	84	79849611	79858232	1	None	HSPC214, APC11, Apc11p, MGC882
17	ANAPC11	ENSG00000141552	ENST00000357385	protein_coding	KNOWN	CCDS32769	14452	591	196	79849615	79858130	1	None	HSPC214, APC11, Apc11p, MGC882
17	ANAPC11	ENSG00000141552	ENST00000584314	protein_coding	PUTATIVE	None	14452	135	44	79849617	79852715	1	None	HSPC214, APC11, Apc11p, MGC882
17	ANAPC11	ENSG00000141552	ENST00000571874	protein_coding	KNOWN	CCDS11789	14452	255	84	79849622	79858130	1	None	HSPC214, APC11, Apc11p, MGC882
17	ANAPC11	ENSG00000141552	ENST00000578550	protein_coding	KNOWN	CCDS11789	14452	255	84	79849626	79858035	1	None	HSPC214, APC11, Apc11p, MGC882
17	ANAPC11	ENSG00000141552	ENST00000577747	protein_coding	KNOWN	CCDS11789	14452	255	84	79849636	79858130	1	None	HSPC214, APC11, Apc11p, MGC882
17	ANAPC11	ENSG00000141552	ENST00000579133	protein_coding	PUTATIVE	None	14452	135	44	79849648	79858130	1	None	HSPC214, APC11, Apc11p, MGC882
17	ANAPC11	ENSG00000141552	ENST00000392376	protein_coding	KNOWN	CCDS11789	14452	255	84	79849814	79858130	1	None	HSPC214, APC11, Apc11p, MGC882
17	ANAPC11	ENSG00000141552	ENST00000584197	protein_coding	NOVEL	None	14452	216	71	79849887	79857816	1	None	HSPC214, APC11, Apc11p, MGC882
17	ANAPC11	ENSG00000141552	ENST00000583839	protein_coding	KNOWN	CCDS11789	14452	255	84	79849939	79858130	1	None	HSPC214, APC11, Apc11p, MGC882
17	ANAPC11	ENSG00000141552	ENST00000578544	protein_coding	PUTATIVE	None	14452	135	44	79851431	79857980	1	None	HSPC214, APC11, Apc11p, MGC882
17	ANAPC11	ENSG00000141552	ENST00000575195	protein_coding	KNOWN	CCDS11789	14452	255	84	79852174	79858867	1	None	HSPC214, APC11, Apc11p, MGC882
17	ANAPC11	ENSG00000141552	ENST00000585259	protein_coding	NOVEL	None	14452	333	110	79852342	79857922	1	None	HSPC214, APC11, Apc11p, MGC882
17	ANAPC11	ENSG00000141552	ENST00000573956	retained_intron	KNOWN	None	14452	None	None	79855996	79858131	1	None	HSPC214, APC11, Apc11p, MGC882
12	PRPF40B	ENSG00000110844	ENST00000552301	processed_transcript	KNOWN	None	25031	None	None	49962001	49977047	1	None	HYPC
12	PRPF40B	ENSG00000110844	ENST00000547764	processed_transcript	KNOWN	None	25031	None	None	49962019	49993925	1	None	HYPC
12	PRPF40B	ENSG00000110844	ENST00000551063	protein_coding	KNOWN	None	25031	18	5	49962155	50024408	1	None	HYPC
12	PRPF40B	ENSG00000110844	ENST00000527253	processed_transcript	KNOWN	None	25031	None	None	49977344	49998514	1	None	HYPC
12	PRPF40B	ENSG00000110844	ENST00000508736	processed_transcript	KNOWN	None	25031	None	None	49993609	49998502	1	None	HYPC
12	PRPF40B	ENSG00000110844	ENST00000551418	retained_intron	KNOWN	None	25031	None	None	50017197	50025820	1	None	HYPC
12	PRPF40B	ENSG00000110844	ENST00000548825	protein_coding	KNOWN	CCDS31796	25031	2679	892	50017219	50038448	1	None	HYPC
12	PRPF40B	ENSG00000110844	ENST00000548436	retained_intron	KNOWN	None	25031	None	None	50017353	50028602	1	None	HYPC
12	PRPF40B	ENSG00000110844	ENST00000261897	protein_coding	KNOWN	None	25031	2577	858	50017403	50038449	1	None	HYPC
12	PRPF40B	ENSG00000110844	ENST00000551111	retained_intron	KNOWN	None	25031	None	None	50024327	50027600	1	None	HYPC
12	PRPF40B	ENSG00000110844	ENST00000380281	protein_coding	KNOWN	None	25031	2616	871	50024327	50038449	1	None	HYPC
12	PRPF40B	ENSG00000110844	ENST00000551320	retained_intron	KNOWN	None	25031	None	None	50026512	50027714	1	None	HYPC
12	PRPF40B	ENSG00000110844	ENST00000548399	retained_intron	KNOWN	None	25031	None	None	50031340	50036087	1	None	HYPC
12	PRPF40B	ENSG00000110844	ENST00000549547	nonsense_mediated_decay	KNOWN	None	25031	414	137	50031602	50037697	1	None	HYPC
12	PRPF40B	ENSG00000110844	ENST00000546626	retained_intron	KNOWN	None	25031	None	None	50035729	50037028	1	None	HYPC
12	PRPF40B	ENSG00000110844	ENST00000551269	retained_intron	KNOWN	None	25031	None	None	50036418	50037594	1	None	HYPC
1	CDC42BPA	ENSG00000143776	ENST00000366767	protein_coding	KNOWN	CCDS1559	1737	4917	1638	227177566	227504883	-1	None	MRCKA, PK428, FLJ23347, KIAA0451, MRCK
1	CDC42BPA	ENSG00000143776	ENST00000366769	protein_coding	KNOWN	CCDS1558	1737	5160	1719	227177566	227506175	-1	None	MRCKA, PK428, FLJ23347, KIAA0451, MRCK
1	CDC42BPA	ENSG00000143776	ENST00000448940	protein_coding	KNOWN	None	1737	2953	983	227177567	227268680	-1	None	MRCKA, PK428, FLJ23347, KIAA0451, MRCK
1	CDC42BPA	ENSG00000143776	ENST00000442054	protein_coding	KNOWN	None	1737	3145	1047	227181328	227288821	-1	None	MRCKA, PK428, FLJ23347, KIAA0451, MRCK
1	CDC42BPA	ENSG00000143776	ENST00000366765	protein_coding	KNOWN	None	1737	5199	1732	227181968	227505415	-1	None	MRCKA, PK428, FLJ23347, KIAA0451, MRCK
1	CDC42BPA	ENSG00000143776	ENST00000429440	protein_coding	KNOWN	None	1737	1639	545	227191756	227222418	-1	None	MRCKA, PK428, FLJ23347, KIAA0451, MRCK
1	CDC42BPA	ENSG00000143776	ENST00000441725	protein_coding	KNOWN	None	1737	2183	726	227210964	227262065	-1	None	MRCKA, PK428, FLJ23347, KIAA0451, MRCK
1	CDC42BPA	ENSG00000143776	ENST00000488131	processed_transcript	KNOWN	None	1737	None	None	227256168	227268718	-1	None	MRCKA, PK428, FLJ23347, KIAA0451, MRCK
1	CDC42BPA	ENSG00000143776	ENST00000466538	processed_transcript	KNOWN	None	1737	None	None	227299685	227300500	-1	None	MRCKA, PK428, FLJ23347, KIAA0451, MRCK
1	CDC42BPA	ENSG00000143776	ENST00000478573	retained_intron	KNOWN	None	1737	None	None	227381352	227504748	-1	None	MRCKA, PK428, FLJ23347, KIAA0451, MRCK
1	CDC42BPA	ENSG00000143776	ENST00000462553	processed_transcript	KNOWN	None	1737	None	None	227400837	227441856	-1	None	MRCKA, PK428, FLJ23347, KIAA0451, MRCK
1	CDC42BPA	ENSG00000143776	ENST00000334218	protein_coding	KNOWN	None	1737	5346	1781	227177567	227505826	-1	None	MRCKA, PK428, FLJ23347, KIAA0451, MRCK
1	CDC42BPA	ENSG00000143776	ENST00000366766	protein_coding	KNOWN	None	1737	5265	1754	227177567	227505826	-1	None	MRCKA, PK428, FLJ23347, KIAA0451, MRCK
1	CDC42BPA	ENSG00000143776	ENST00000366764	protein_coding	KNOWN	None	1737	5076	1691	227177567	227505826	-1	None	MRCKA, PK428, FLJ23347, KIAA0451, MRCK
1	CDC42BPA	ENSG00000143776	ENST00000535525	protein_coding	KNOWN	None	1737	5100	1699	227181938	227504910	-1	None	MRCKA, PK428, FLJ23347, KIAA0451, MRCK
11	SIAE	ENSG00000110013	ENST00000263593	protein_coding	KNOWN	CCDS8449	18187	1572	523	124503009	124543777	-1	YSG2	CSE-C, MGC87009, LSE
11	SIAE	ENSG00000110013	ENST00000533613	retained_intron	KNOWN	None	18187	None	None	124524551	124539508	-1	YSG2	CSE-C, MGC87009, LSE
11	SIAE	ENSG00000110013	ENST00000436137	retained_intron	KNOWN	None	18187	None	None	124528770	124543717	-1	YSG2	CSE-C, MGC87009, LSE
11	SIAE	ENSG00000110013	ENST00000525730	processed_transcript	KNOWN	None	18187	None	None	124539332	124565603	-1	YSG2	CSE-C, MGC87009, LSE
11	SIAE	ENSG00000110013	ENST00000545756	protein_coding	KNOWN	CCDS55795	18187	1467	488	124505694	124543763	-1	YSG2	CSE-C, MGC87009, LSE
16	BCMO1	ENSG00000135697	ENST00000258168	protein_coding	KNOWN	CCDS10934	13815	1644	547	81272053	81324747	1	BCDO, BCDO1	FLJ10730, BCMO
16	BCMO1	ENSG00000135697	ENST00000563804	nonsense_mediated_decay	KNOWN	None	13815	246	81	81272294	81324305	1	BCDO, BCDO1	FLJ10730, BCMO
16	BCMO1	ENSG00000135697	ENST00000564552	protein_coding	PUTATIVE	None	13815	489	162	81272296	81296148	1	BCDO, BCDO1	FLJ10730, BCMO
16	BCMO1	ENSG00000135697	ENST00000425577	protein_coding	KNOWN	None	13815	1437	478	81272294	81324305	1	BCDO, BCDO1	FLJ10730, BCMO
2	MYO1B	ENSG00000128641	ENST00000418908	protein_coding	KNOWN	None	7596	490	162	192109911	192211000	1	None	myr1
2	MYO1B	ENSG00000128641	ENST00000339514	protein_coding	KNOWN	CCDS2311	7596	3237	1078	192110002	192290115	1	None	myr1
2	MYO1B	ENSG00000128641	ENST00000392318	protein_coding	KNOWN	CCDS46477	7596	3411	1136	192110115	192290110	1	None	myr1
2	MYO1B	ENSG00000128641	ENST00000304164	protein_coding	KNOWN	CCDS46477	7596	3411	1136	192110254	192290115	1	None	myr1
2	MYO1B	ENSG00000128641	ENST00000438652	protein_coding	KNOWN	None	7596	448	148	192111009	192206288	1	None	myr1
2	MYO1B	ENSG00000128641	ENST00000451437	protein_coding	KNOWN	None	7596	911	302	192127725	192228599	1	None	myr1
2	MYO1B	ENSG00000128641	ENST00000471904	retained_intron	KNOWN	None	7596	None	None	192128080	192215115	1	None	myr1
2	MYO1B	ENSG00000128641	ENST00000420448	protein_coding	KNOWN	None	7596	251	82	192128299	192160952	1	None	myr1
2	MYO1B	ENSG00000128641	ENST00000392316	protein_coding	KNOWN	None	7596	3324	1107	192141611	192290115	1	None	myr1
2	MYO1B	ENSG00000128641	ENST00000496992	processed_transcript	PUTATIVE	None	7596	None	None	192242248	192248065	1	None	myr1
2	MYO1B	ENSG00000128641	ENST00000494129	retained_intron	KNOWN	None	7596	None	None	192245730	192253002	1	None	myr1
2	MYO1B	ENSG00000128641	ENST00000490069	retained_intron	KNOWN	None	7596	None	None	192266266	192288763	1	None	myr1
2	MYO1B	ENSG00000128641	ENST00000461714	retained_intron	KNOWN	None	7596	None	None	192272384	192273799	1	None	myr1
2	MYO1B	ENSG00000128641	ENST00000427152	protein_coding	PUTATIVE	None	7596	577	191	192275791	192281237	1	None	myr1
2	MYO1B	ENSG00000128641	ENST00000439065	protein_coding	KNOWN	None	7596	1146	381	192256860	192290042	1	None	myr1
7	STARD3NL	ENSG00000010270	ENST00000009041	protein_coding	KNOWN	CCDS5455	19169	705	234	38217824	38270272	1	None	MENTHO, MGC3251
7	STARD3NL	ENSG00000010270	ENST00000434197	protein_coding	NOVEL	None	19169	651	216	38217865	38269980	1	None	MENTHO, MGC3251
7	STARD3NL	ENSG00000010270	ENST00000471550	retained_intron	KNOWN	None	19169	None	None	38217926	38270271	1	None	MENTHO, MGC3251
7	STARD3NL	ENSG00000010270	ENST00000396013	protein_coding	KNOWN	CCDS5455	19169	705	234	38217953	38269982	1	None	MENTHO, MGC3251
7	STARD3NL	ENSG00000010270	ENST00000440144	protein_coding	KNOWN	None	19169	553	183	38217978	38256906	1	None	MENTHO, MGC3251
7	STARD3NL	ENSG00000010270	ENST00000453225	protein_coding	KNOWN	None	19169	517	171	38217992	38256870	1	None	MENTHO, MGC3251
7	STARD3NL	ENSG00000010270	ENST00000429075	protein_coding	KNOWN	None	19169	618	205	38217997	38259230	1	None	MENTHO, MGC3251
7	STARD3NL	ENSG00000010270	ENST00000544203	protein_coding	KNOWN	None	19169	684	227	38217851	38270235	1	None	MENTHO, MGC3251
14	HSP90AA1	ENSG00000080824	ENST00000216281	protein_coding	KNOWN	CCDS9967	5253	2199	732	102547075	102553528	-1	HSPC1, HSPCA	Hsp89, Hsp90, FLJ31884, HSP90N
14	HSP90AA1	ENSG00000080824	ENST00000334701	protein_coding	KNOWN	CCDS32160	5253	2565	854	102547386	102606023	-1	HSPC1, HSPCA	Hsp89, Hsp90, FLJ31884, HSP90N
14	HSP90AA1	ENSG00000080824	ENST00000554401	nonsense_mediated_decay	KNOWN	None	5253	157	51	102549002	102552668	-1	HSPC1, HSPCA	Hsp89, Hsp90, FLJ31884, HSP90N
14	HSP90AA1	ENSG00000080824	ENST00000557089	retained_intron	KNOWN	None	5253	None	None	102549779	102550571	-1	HSPC1, HSPCA	Hsp89, Hsp90, FLJ31884, HSP90N
14	HSP90AA1	ENSG00000080824	ENST00000560130	retained_intron	KNOWN	None	5253	None	None	102550233	102551135	-1	HSPC1, HSPCA	Hsp89, Hsp90, FLJ31884, HSP90N
14	HSP90AA1	ENSG00000080824	ENST00000553585	protein_coding	NOVEL	None	5253	522	173	102551270	102553381	-1	HSPC1, HSPCA	Hsp89, Hsp90, FLJ31884, HSP90N
14	HSP90AA1	ENSG00000080824	ENST00000555662	retained_intron	KNOWN	None	5253	None	None	102551317	102552044	-1	HSPC1, HSPCA	Hsp89, Hsp90, FLJ31884, HSP90N
14	HSP90AA1	ENSG00000080824	ENST00000556554	retained_intron	KNOWN	None	5253	None	None	102552223	102553381	-1	HSPC1, HSPCA	Hsp89, Hsp90, FLJ31884, HSP90N
14	HSP90AA1	ENSG00000080824	ENST00000557234	nonsense_mediated_decay	KNOWN	None	5253	243	80	102552256	102605802	-1	HSPC1, HSPCA	Hsp89, Hsp90, FLJ31884, HSP90N
14	HSP90AA1	ENSG00000080824	ENST00000558600	processed_transcript	KNOWN	None	5253	None	None	102568275	102606036	-1	HSPC1, HSPCA	Hsp89, Hsp90, FLJ31884, HSP90N
14	HSP90AA1	ENSG00000080824	ENST00000441629	protein_coding	KNOWN	None	5253	1242	413	102549002	102552668	-1	HSPC1, HSPCA	Hsp89, Hsp90, FLJ31884, HSP90N
4	ZBTB49	ENSG00000168826	ENST00000515012	nonsense_mediated_decay	KNOWN	None	19883	1362	453	4291978	4323125	1	ZNF509	FLJ38559
4	ZBTB49	ENSG00000168826	ENST00000337872	protein_coding	KNOWN	CCDS3375	19883	2298	765	4291978	4323513	1	ZNF509	FLJ38559
4	ZBTB49	ENSG00000168826	ENST00000503703	nonsense_mediated_decay	KNOWN	None	19883	435	144	4291978	4323513	1	ZNF509	FLJ38559
4	ZBTB49	ENSG00000168826	ENST00000502918	protein_coding	KNOWN	None	19883	438	145	4291996	4304001	1	ZNF509	FLJ38559
4	ZBTB49	ENSG00000168826	ENST00000504302	protein_coding	NOVEL	None	19883	523	173	4304354	4322424	1	ZNF509	FLJ38559
4	ZBTB49	ENSG00000168826	ENST00000511458	nonsense_mediated_decay	KNOWN	None	19883	368	121	4304459	4322424	1	ZNF509	FLJ38559
4	ZBTB49	ENSG00000168826	ENST00000355834	protein_coding	KNOWN	None	19883	1932	643	4291924	4323512	1	ZNF509	FLJ38559
4	ZBTB49	ENSG00000168826	ENST00000538529	protein_coding	KNOWN	None	19883	747	248	4291978	4323125	1	ZNF509	FLJ38559
12	TBC1D15	ENSG00000121749	ENST00000482439	protein_coding	PUTATIVE	None	25694	360	119	72233487	72287104	1	None	FLJ12085, DKFZp761D0223
12	TBC1D15	ENSG00000121749	ENST00000550746	protein_coding	KNOWN	CCDS31858	25694	2076	691	72233498	72320629	1	None	FLJ12085, DKFZp761D0223
12	TBC1D15	ENSG00000121749	ENST00000498482	nonsense_mediated_decay	KNOWN	None	25694	150	49	72233539	72278681	1	None	FLJ12085, DKFZp761D0223
12	TBC1D15	ENSG00000121749	ENST00000474468	processed_transcript	KNOWN	None	25694	None	None	72233539	72287086	1	None	FLJ12085, DKFZp761D0223
12	TBC1D15	ENSG00000121749	ENST00000549402	processed_transcript	KNOWN	None	25694	None	None	72233539	72288159	1	None	FLJ12085, DKFZp761D0223
12	TBC1D15	ENSG00000121749	ENST00000472611	nonsense_mediated_decay	KNOWN	None	25694	258	85	72233539	72288564	1	None	FLJ12085, DKFZp761D0223
12	TBC1D15	ENSG00000121749	ENST00000491063	protein_coding	PUTATIVE	None	25694	834	277	72233539	72291669	1	None	FLJ12085, DKFZp761D0223
12	TBC1D15	ENSG00000121749	ENST00000319106	protein_coding	PUTATIVE	CCDS55849	25694	2049	682	72233539	72317003	1	None	FLJ12085, DKFZp761D0223
12	TBC1D15	ENSG00000121749	ENST00000462788	nonsense_mediated_decay	KNOWN	None	25694	375	124	72233539	72317142	1	None	FLJ12085, DKFZp761D0223
12	TBC1D15	ENSG00000121749	ENST00000485960	protein_coding	KNOWN	CCDS53814	25694	2025	674	72233539	72317425	1	None	FLJ12085, DKFZp761D0223
12	TBC1D15	ENSG00000121749	ENST00000468049	nonsense_mediated_decay	KNOWN	None	25694	219	72	72233543	72288502	1	None	FLJ12085, DKFZp761D0223
12	TBC1D15	ENSG00000121749	ENST00000546932	processed_transcript	KNOWN	None	25694	None	None	72233558	72278718	1	None	FLJ12085, DKFZp761D0223
12	TBC1D15	ENSG00000121749	ENST00000460818	processed_transcript	KNOWN	None	25694	None	None	72262582	72278761	1	None	FLJ12085, DKFZp761D0223
12	TBC1D15	ENSG00000121749	ENST00000483828	retained_intron	KNOWN	None	25694	None	None	72290168	72311555	1	None	FLJ12085, DKFZp761D0223
12	TBC1D15	ENSG00000121749	ENST00000548679	processed_transcript	KNOWN	None	25694	None	None	72290997	72312277	1	None	FLJ12085, DKFZp761D0223
12	TBC1D15	ENSG00000121749	ENST00000479971	retained_intron	KNOWN	None	25694	None	None	72291627	72301542	1	None	FLJ12085, DKFZp761D0223
12	TBC1D15	ENSG00000121749	ENST00000546450	retained_intron	KNOWN	None	25694	None	None	72307140	72316995	1	None	FLJ12085, DKFZp761D0223
12	TBC1D15	ENSG00000121749	ENST00000393309	protein_coding	KNOWN	None	25694	1338	445	72233558	72317074	1	None	FLJ12085, DKFZp761D0223
1	ADAR	ENSG00000160710	ENST00000368474	protein_coding	KNOWN	CCDS1071	225	3681	1226	154554543	154580682	-1	IFI4, G1P1	ADAR1
1	ADAR	ENSG00000160710	ENST00000368471	protein_coding	KNOWN	CCDS30879	225	2796	931	154554543	154600440	-1	IFI4, G1P1	ADAR1
1	ADAR	ENSG00000160710	ENST00000492630	retained_intron	KNOWN	None	225	None	None	154557110	154557894	-1	IFI4, G1P1	ADAR1
1	ADAR	ENSG00000160710	ENST00000529168	protein_coding	NOVEL	None	225	3585	1194	154557285	154575102	-1	IFI4, G1P1	ADAR1
1	ADAR	ENSG00000160710	ENST00000530954	retained_intron	KNOWN	None	225	None	None	154558123	154560756	-1	IFI4, G1P1	ADAR1
1	ADAR	ENSG00000160710	ENST00000534279	retained_intron	KNOWN	None	225	None	None	154558469	154561078	-1	IFI4, G1P1	ADAR1
1	ADAR	ENSG00000160710	ENST00000463920	retained_intron	KNOWN	None	225	None	None	154572653	154600462	-1	IFI4, G1P1	ADAR1
1	ADAR	ENSG00000160710	ENST00000494866	processed_transcript	KNOWN	None	225	None	None	154574554	154600388	-1	IFI4, G1P1	ADAR1
1	ADAR	ENSG00000160710	ENST00000471068	processed_transcript	KNOWN	None	225	None	None	154574572	154600475	-1	IFI4, G1P1	ADAR1
1	ADAR	ENSG00000160710	ENST00000526905	processed_transcript	KNOWN	None	225	None	None	154574675	154581288	-1	IFI4, G1P1	ADAR1
1	ADAR	ENSG00000160710	ENST00000292205	protein_coding	KNOWN	None	225	3810	1269	154554538	154600474	-1	IFI4, G1P1	ADAR1
2	RNF144A	ENSG00000151692	ENST00000320892	protein_coding	KNOWN	CCDS1657	20457	879	292	7057523	7184313	1	RNF144	UBCE7IP4, KIAA0161
2	RNF144A	ENSG00000151692	ENST00000467276	processed_transcript	KNOWN	None	20457	None	None	7057620	7179791	1	RNF144	UBCE7IP4, KIAA0161
2	RNF144A	ENSG00000151692	ENST00000416587	protein_coding	KNOWN	None	20457	165	54	7073174	7154614	1	RNF144	UBCE7IP4, KIAA0161
2	RNF144A	ENSG00000151692	ENST00000480970	processed_transcript	KNOWN	None	20457	None	None	7073215	7164527	1	RNF144	UBCE7IP4, KIAA0161
2	RNF144A	ENSG00000151692	ENST00000433456	protein_coding	KNOWN	None	20457	165	54	7118755	7154614	1	RNF144	UBCE7IP4, KIAA0161
2	RNF144A	ENSG00000151692	ENST00000471060	retained_intron	KNOWN	None	20457	None	None	7136880	7160708	1	RNF144	UBCE7IP4, KIAA0161
2	RNF144A	ENSG00000151692	ENST00000432850	protein_coding	PUTATIVE	None	20457	794	263	7137071	7208417	1	RNF144	UBCE7IP4, KIAA0161
7	RN7SL556P	ENSG00000265040	ENST00000582856	misc_RNA	KNOWN	None	46572	None	None	5911386	5911681	-1	None	None
7	None	ENSG00000201990	ENST00000365120	misc_RNA	NOVEL	None	None	None	None	6043914	6044016	-1	None	None
7	None	ENSG00000207217	ENST00000384488	snoRNA	NOVEL	None	None	None	None	6056508	6056642	1	None	None
7	RN7SL851P	ENSG00000240718	ENST00000480512	misc_RNA	KNOWN	None	46867	None	None	6087354	6087651	-1	None	None
17	NPB	ENSG00000183979	ENST00000573081	protein_coding	NOVEL	None	30099	471	156	79858621	79860774	1	None	PPL7, PPNPB
17	NPB	ENSG00000183979	ENST00000333383	protein_coding	KNOWN	CCDS11790	30099	378	125	79859985	79860781	1	None	PPL7, PPNPB
7	RNU6-218P	ENSG00000252929	ENST00000517120	snRNA	KNOWN	None	47181	None	None	6097131	6097235	1	None	None
15	CCDC33	ENSG00000140481	ENST00000398814	protein_coding	KNOWN	CCDS42058	26552	2268	755	74528630	74628482	1	None	FLJ32855, CT61
15	CCDC33	ENSG00000140481	ENST00000558659	protein_coding	PUTATIVE	None	26552	2104	700	74559059	74628813	1	None	FLJ32855, CT61
15	CCDC33	ENSG00000140481	ENST00000563951	processed_transcript	KNOWN	None	26552	None	None	74588154	74593170	1	None	FLJ32855, CT61
15	CCDC33	ENSG00000140481	ENST00000560565	retained_intron	KNOWN	None	26552	None	None	74610882	74627354	1	None	FLJ32855, CT61
15	CCDC33	ENSG00000140481	ENST00000321374	nonsense_mediated_decay	KNOWN	None	26552	1002	333	74610882	74628013	1	None	FLJ32855, CT61
15	CCDC33	ENSG00000140481	ENST00000558821	protein_coding	KNOWN	None	26552	1002	333	74610900	74628473	1	None	FLJ32855, CT61
15	CCDC33	ENSG00000140481	ENST00000268082	protein_coding	KNOWN	CCDS42059	26552	1104	367	74610911	74628482	1	None	FLJ32855, CT61
15	CCDC33	ENSG00000140481	ENST00000321288	protein_coding	KNOWN	None	26552	3072	1023	74509613	74628811	1	None	FLJ32855, CT61
7	None	ENSG00000231704	ENST00000436915	lincRNA	KNOWN	None	None	None	None	6120734	6124887	1	None	None
7	None	ENSG00000231704	ENST00000435547	lincRNA	KNOWN	None	None	None	None	6120734	6132683	1	None	None
7	None	ENSG00000231704	ENST00000428901	lincRNA	KNOWN	None	None	None	None	6121302	6132716	1	None	None
11	APLNR	ENSG00000134817	ENST00000257254	nonsense_mediated_decay	KNOWN	CCDS7950	339	1143	380	57001051	57004709	-1	AGTRL1	FLJ90771, APJ, APJR
11	APLNR	ENSG00000134817	ENST00000606794	protein_coding	KNOWN	CCDS7950	339	1143	380	57001067	57004675	-1	AGTRL1	FLJ90771, APJ, APJR
17	TBC1D26	ENSG00000214946	ENST00000584301	protein_coding	KNOWN	None	28745	47	14	15635561	15638709	1	None	MGC51025
17	TBC1D26	ENSG00000214946	ENST00000580596	protein_coding	KNOWN	None	28745	158	51	15635561	15638993	1	None	MGC51025
17	TBC1D26	ENSG00000214946	ENST00000464963	protein_coding	KNOWN	None	28745	198	65	15635570	15640837	1	None	MGC51025
17	TBC1D26	ENSG00000214946	ENST00000582140	processed_transcript	KNOWN	None	28745	None	None	15635571	15638177	1	None	MGC51025
17	TBC1D26	ENSG00000214946	ENST00000579428	protein_coding	KNOWN	None	28745	633	210	15635597	15644255	1	None	MGC51025
17	TBC1D26	ENSG00000214946	ENST00000491819	retained_intron	KNOWN	None	28745	None	None	15635597	15647768	1	None	MGC51025
17	TBC1D26	ENSG00000214946	ENST00000469477	nonsense_mediated_decay	KNOWN	CCDS42265	28745	753	250	15635597	15649476	1	None	MGC51025
17	TBC1D26	ENSG00000214946	ENST00000582534	processed_transcript	PUTATIVE	None	28745	None	None	15635622	15638347	1	None	MGC51025
17	TBC1D26	ENSG00000214946	ENST00000578506	protein_coding	KNOWN	None	28745	41	12	15637150	15638703	1	None	MGC51025
17	TBC1D26	ENSG00000214946	ENST00000583620	processed_transcript	PUTATIVE	None	28745	None	None	15637159	15638351	1	None	MGC51025
17	TBC1D26	ENSG00000214946	ENST00000580970	retained_intron	KNOWN	None	28745	None	None	15641653	15644535	1	None	MGC51025
17	TBC1D26	ENSG00000214946	ENST00000437605	protein_coding	KNOWN	CCDS42265	28745	753	250	15635591	15648095	1	None	MGC51025
X	GJB1	ENSG00000169562	ENST00000374029	protein_coding	KNOWN	CCDS14408	4283	852	283	70435044	70445050	1	CMTX1, CMTX	CX32
X	GJB1	ENSG00000169562	ENST00000374022	protein_coding	KNOWN	CCDS14408	4283	852	283	70435062	70445366	1	CMTX1, CMTX	CX32
X	GJB1	ENSG00000169562	ENST00000447581	protein_coding	KNOWN	None	4283	253	83	70435109	70443810	1	CMTX1, CMTX	CX32
X	GJB1	ENSG00000169562	ENST00000361726	protein_coding	KNOWN	CCDS14408	4283	852	283	70443056	70445048	1	CMTX1, CMTX	CX32
1	ORC1	ENSG00000085840	ENST00000371568	protein_coding	KNOWN	CCDS566	8487	2586	861	52838501	52870131	-1	ORC1L	HSORC1, PARC1
1	ORC1	ENSG00000085840	ENST00000371566	protein_coding	KNOWN	CCDS566	8487	2586	861	52838503	52870059	-1	ORC1L	HSORC1, PARC1
1	ORC1	ENSG00000085840	ENST00000476332	protein_coding	PUTATIVE	None	8487	1106	367	52838540	52854307	-1	ORC1L	HSORC1, PARC1
12	BCL7A	ENSG00000110987	ENST00000538010	protein_coding	KNOWN	CCDS9226	1004	696	231	122457328	122499948	1	BCL7	None
12	BCL7A	ENSG00000110987	ENST00000261822	protein_coding	NOVEL	CCDS53841	1004	633	210	122459792	122498811	1	BCL7	None
12	BCL7A	ENSG00000110987	ENST00000432926	retained_intron	KNOWN	None	1004	None	None	122459884	122482277	1	BCL7	None
1	None	ENSG00000268141	ENST00000594394	protein_coding	NOVEL	None	None	21	6	154585067	154585190	1	None	None
10	GJD4	ENSG00000177291	ENST00000321660	protein_coding	KNOWN	CCDS7191	23296	1113	370	35894338	35897863	1	None	CX40.1, FLJ90023
7	None	ENSG00000264605	ENST00000577644	miRNA	NOVEL	None	None	None	None	6122736	6122805	1	None	None
7	None	ENSG00000238534	ENST00000458975	misc_RNA	NOVEL	None	None	None	None	6214842	6214935	-1	None	None
7	None	ENSG00000202273	ENST00000365403	misc_RNA	NOVEL	None	None	None	None	6252269	6252371	-1	None	None
7	None	ENSG00000231359	ENST00000496556	processed_pseudogene	KNOWN	None	None	None	None	6530424	6530729	-1	None	None
10	FZD8	ENSG00000177283	ENST00000374694	protein_coding	KNOWN	CCDS7192	4046	2085	694	35927177	35930362	-1	None	None
7	None	ENSG00000232581	ENST00000434951	antisense	KNOWN	None	None	None	None	6618196	6628605	-1	None	None
7	ZNF316	ENSG00000205903	ENST00000427912	unprocessed_pseudogene	KNOWN	None	13843	None	None	6676953	6692595	1	None	MZF-3, ENST00000305834
7	ZNF316	ENSG00000205903	ENST00000382252	unprocessed_pseudogene	KNOWN	None	13843	None	None	6682041	6694242	1	None	MZF-3, ENST00000305834
11	TNKS1BP1	ENSG00000149115	ENST00000528882	nonsense_mediated_decay	KNOWN	None	19081	732	243	57067112	57092426	-1	None	TAB182, KIAA1741, FLJ45975
11	TNKS1BP1	ENSG00000149115	ENST00000532273	retained_intron	KNOWN	None	19081	None	None	57067116	57068153	-1	None	TAB182, KIAA1741, FLJ45975
11	TNKS1BP1	ENSG00000149115	ENST00000358252	protein_coding	KNOWN	CCDS7951	19081	5190	1729	57067116	57092401	-1	None	TAB182, KIAA1741, FLJ45975
11	TNKS1BP1	ENSG00000149115	ENST00000532437	protein_coding	KNOWN	CCDS7951	19081	5190	1729	57067118	57089671	-1	None	TAB182, KIAA1741, FLJ45975
11	TNKS1BP1	ENSG00000149115	ENST00000427750	retained_intron	KNOWN	None	19081	None	None	57067150	57070953	-1	None	TAB182, KIAA1741, FLJ45975
11	TNKS1BP1	ENSG00000149115	ENST00000530920	processed_transcript	KNOWN	None	19081	None	None	57077306	57078943	-1	None	TAB182, KIAA1741, FLJ45975
11	TNKS1BP1	ENSG00000149115	ENST00000527207	protein_coding	KNOWN	None	19081	430	142	57087851	57089809	-1	None	TAB182, KIAA1741, FLJ45975
1	PRPF38A	ENSG00000134748	ENST00000257181	protein_coding	KNOWN	CCDS567	25930	939	312	52870236	52886511	1	None	FLJ14936, Prp38
1	PRPF38A	ENSG00000134748	ENST00000487160	processed_transcript	KNOWN	None	25930	None	None	52870292	52874746	1	None	FLJ14936, Prp38
1	PRPF38A	ENSG00000134748	ENST00000474048	processed_transcript	KNOWN	None	25930	None	None	52870300	52882694	1	None	FLJ14936, Prp38
2	ID2	ENSG00000115738	ENST00000234091	protein_coding	KNOWN	CCDS1659	5361	405	134	8818975	8824583	1	None	GIG8, bHLHb26
2	ID2	ENSG00000115738	ENST00000331129	protein_coding	KNOWN	CCDS1659	5361	405	134	8822186	8823137	1	None	GIG8, bHLHb26
2	ID2	ENSG00000115738	ENST00000472142	retained_intron	KNOWN	None	5361	None	None	8822910	8824161	1	None	GIG8, bHLHb26
2	ID2	ENSG00000115738	ENST00000396290	protein_coding	KNOWN	CCDS1659	5361	405	134	8822113	8824581	1	None	GIG8, bHLHb26
1	KCNN3	ENSG00000143603	ENST00000515643	processed_transcript	KNOWN	None	6292	None	None	154675205	154680702	-1	None	KCa2.3, hSK3, SKCA3
1	KCNN3	ENSG00000143603	ENST00000361147	protein_coding	NOVEL	CCDS1072	6292	1281	426	154679902	154832319	-1	None	KCa2.3, hSK3, SKCA3
1	KCNN3	ENSG00000143603	ENST00000271915	protein_coding	NOVEL	CCDS30880	6292	2196	731	154680002	154842756	-1	None	KCa2.3, hSK3, SKCA3
1	KCNN3	ENSG00000143603	ENST00000358505	protein_coding	NOVEL	None	6292	1257	418	154680428	154840795	-1	None	KCa2.3, hSK3, SKCA3
7	None	ENSG00000260054	ENST00000564837	lincRNA	KNOWN	None	None	None	None	6694495	6696063	1	None	None
19	MAP3K10	ENSG00000130758	ENST00000253055	protein_coding	KNOWN	CCDS12549	6849	2865	954	40697651	40721482	1	MLK2	MST, MEKK10
19	MAP3K10	ENSG00000130758	ENST00000593906	processed_transcript	KNOWN	None	6849	None	None	40698152	40710523	1	MLK2	MST, MEKK10
19	MAP3K10	ENSG00000130758	ENST00000594951	nonsense_mediated_decay	KNOWN	None	6849	202	66	40704304	40715109	1	MLK2	MST, MEKK10
19	MAP3K10	ENSG00000130758	ENST00000593502	nonsense_mediated_decay	KNOWN	None	6849	369	122	40704331	40719168	1	MLK2	MST, MEKK10
19	MAP3K10	ENSG00000130758	ENST00000597986	nonsense_mediated_decay	KNOWN	None	6849	543	180	40704350	40721435	1	MLK2	MST, MEKK10
19	MAP3K10	ENSG00000130758	ENST00000601702	retained_intron	KNOWN	None	6849	None	None	40710508	40711908	1	MLK2	MST, MEKK10
19	MAP3K10	ENSG00000130758	ENST00000594569	retained_intron	KNOWN	None	6849	None	None	40711437	40712309	1	MLK2	MST, MEKK10
19	MAP3K10	ENSG00000130758	ENST00000594791	retained_intron	KNOWN	None	6849	None	None	40715059	40719641	1	MLK2	MST, MEKK10
11	SLC39A13	ENSG00000165915	ENST00000533076	protein_coding	NOVEL	None	20859	978	325	47428683	47438046	1	None	FLJ25785
11	SLC39A13	ENSG00000165915	ENST00000531974	protein_coding	PUTATIVE	None	20859	423	140	47430135	47433944	1	None	FLJ25785
11	SLC39A13	ENSG00000165915	ENST00000531419	protein_coding	PUTATIVE	None	20859	654	217	47430156	47435329	1	None	FLJ25785
11	SLC39A13	ENSG00000165915	ENST00000531865	protein_coding	PUTATIVE	None	20859	776	257	47430179	47436452	1	None	FLJ25785
11	SLC39A13	ENSG00000165915	ENST00000362021	protein_coding	KNOWN	CCDS44592	20859	1116	371	47430180	47438047	1	None	FLJ25785
11	SLC39A13	ENSG00000165915	ENST00000354884	protein_coding	KNOWN	CCDS7934	20859	1095	364	47430182	47438047	1	None	FLJ25785
11	SLC39A13	ENSG00000165915	ENST00000526614	protein_coding	PUTATIVE	None	20859	746	247	47431142	47435248	1	None	FLJ25785
11	SLC39A13	ENSG00000165915	ENST00000527091	protein_coding	PUTATIVE	None	20859	415	137	47431372	47433590	1	None	FLJ25785
11	SLC39A13	ENSG00000165915	ENST00000524928	protein_coding	NOVEL	None	20859	966	321	47431636	47438045	1	None	FLJ25785
11	SLC39A13	ENSG00000165915	ENST00000529740	processed_transcript	PUTATIVE	None	20859	None	None	47433853	47435431	1	None	FLJ25785
11	SLC39A13	ENSG00000165915	ENST00000528979	processed_transcript	PUTATIVE	None	20859	None	None	47435847	47436646	1	None	FLJ25785
11	SLC39A13	ENSG00000165915	ENST00000527829	processed_transcript	KNOWN	None	20859	None	None	47435988	47436967	1	None	FLJ25785
11	SLC39A13	ENSG00000165915	ENST00000524886	processed_transcript	PUTATIVE	None	20859	None	None	47436413	47436985	1	None	FLJ25785
1	ZNF678	ENSG00000181450	ENST00000498759	processed_transcript	KNOWN	None	28652	None	None	227751236	227847594	1	None	MGC42493
1	ZNF678	ENSG00000181450	ENST00000343776	protein_coding	KNOWN	None	28652	1578	525	227751244	227844131	1	None	MGC42493
1	ZNF678	ENSG00000181450	ENST00000465266	processed_transcript	KNOWN	None	28652	None	None	227751252	227842054	1	None	MGC42493
1	ZNF678	ENSG00000181450	ENST00000440339	protein_coding	PUTATIVE	None	28652	683	226	227751281	227842469	1	None	MGC42493
1	ZNF678	ENSG00000181450	ENST00000497098	processed_transcript	KNOWN	None	28652	None	None	227834245	227835239	1	None	MGC42493
1	ZNF678	ENSG00000181450	ENST00000397097	protein_coding	KNOWN	None	28652	1743	580	227751244	227843529	1	None	MGC42493
7	None	ENSG00000228010	ENST00000413182	antisense	KNOWN	None	None	None	None	6703605	6705152	1	None	None
7	None	ENSG00000228010	ENST00000430844	antisense	KNOWN	None	None	None	None	6703605	6713232	1	None	None
7	None	ENSG00000228010	ENST00000366167	antisense	KNOWN	None	None	None	None	6703605	6748532	1	None	None
17	CCL18	ENSG00000006074	ENST00000004921	protein_coding	KNOWN	CCDS11306	10616	270	89	34391640	34399392	1	SCYA18	DC-CK1, PARC, AMAC-1, DCCK1, MIP-4, CKb7
17	CCL18	ENSG00000006074	ENST00000586857	retained_intron	KNOWN	None	10616	None	None	34397734	34398841	1	SCYA18	DC-CK1, PARC, AMAC-1, DCCK1, MIP-4, CKb7
17	ATP1B2	ENSG00000129244	ENST00000577026	protein_coding	PUTATIVE	None	805	500	165	7549945	7559086	1	None	AMOG
17	ATP1B2	ENSG00000129244	ENST00000250111	protein_coding	KNOWN	CCDS32550	805	873	290	7554430	7561086	1	None	AMOG
17	ATP1B2	ENSG00000129244	ENST00000577113	protein_coding	NOVEL	None	805	518	171	7557427	7559252	1	None	AMOG
7	None	ENSG00000267941	ENST00000600021	protein_coding	KNOWN	None	None	135	44	65939543	65940709	1	None	None
1	PMVK	ENSG00000163344	ENST00000368467	protein_coding	KNOWN	CCDS1073	9141	579	192	154897210	154909467	-1	None	PMK, PMKA, HUMPMKI
2	NABP1	ENSG00000173559	ENST00000491331	retained_intron	KNOWN	None	26232	None	None	192542794	192547213	1	OBFC2A	FLJ22833, DKFZp667M1322, FLJ13624, MGC111163, SSB2, hSSB2, SOSS-B2
2	NABP1	ENSG00000173559	ENST00000307834	nonsense_mediated_decay	KNOWN	None	26232	165	54	192542853	192551665	1	OBFC2A	FLJ22833, DKFZp667M1322, FLJ13624, MGC111163, SSB2, hSSB2, SOSS-B2
2	NABP1	ENSG00000173559	ENST00000462712	retained_intron	KNOWN	None	26232	None	None	192542862	192547861	1	OBFC2A	FLJ22833, DKFZp667M1322, FLJ13624, MGC111163, SSB2, hSSB2, SOSS-B2
2	NABP1	ENSG00000173559	ENST00000307849	nonsense_mediated_decay	KNOWN	None	26232	405	134	192542862	192552298	1	OBFC2A	FLJ22833, DKFZp667M1322, FLJ13624, MGC111163, SSB2, hSSB2, SOSS-B2
2	NABP1	ENSG00000173559	ENST00000410026	protein_coding	KNOWN	CCDS58745	26232	375	124	192542862	192553251	1	OBFC2A	FLJ22833, DKFZp667M1322, FLJ13624, MGC111163, SSB2, hSSB2, SOSS-B2
2	NABP1	ENSG00000173559	ENST00000451500	nonsense_mediated_decay	KNOWN	None	26232	405	134	192542873	192550883	1	OBFC2A	FLJ22833, DKFZp667M1322, FLJ13624, MGC111163, SSB2, hSSB2, SOSS-B2
2	NABP1	ENSG00000173559	ENST00000409510	protein_coding	KNOWN	CCDS58745	26232	375	124	192542930	192550620	1	OBFC2A	FLJ22833, DKFZp667M1322, FLJ13624, MGC111163, SSB2, hSSB2, SOSS-B2
2	NABP1	ENSG00000173559	ENST00000425611	protein_coding	KNOWN	CCDS33352	26232	615	204	192543258	192551674	1	OBFC2A	FLJ22833, DKFZp667M1322, FLJ13624, MGC111163, SSB2, hSSB2, SOSS-B2
2	NABP1	ENSG00000173559	ENST00000435931	protein_coding	NOVEL	None	26232	506	167	192543716	192550903	1	OBFC2A	FLJ22833, DKFZp667M1322, FLJ13624, MGC111163, SSB2, hSSB2, SOSS-B2
2	NABP1	ENSG00000173559	ENST00000462824	retained_intron	KNOWN	None	26232	None	None	192548231	192549802	1	OBFC2A	FLJ22833, DKFZp667M1322, FLJ13624, MGC111163, SSB2, hSSB2, SOSS-B2
1	SNAP47	ENSG00000143740	ENST00000480897	processed_transcript	KNOWN	None	30669	None	None	227916240	227922053	1	C1orf142	SVAP1, SNAP-47
1	SNAP47	ENSG00000143740	ENST00000480265	processed_transcript	KNOWN	None	30669	None	None	227916250	227922053	1	C1orf142	SVAP1, SNAP-47
1	SNAP47	ENSG00000143740	ENST00000475930	processed_transcript	KNOWN	None	30669	None	None	227916319	227935887	1	C1orf142	SVAP1, SNAP-47
1	SNAP47	ENSG00000143740	ENST00000366760	protein_coding	KNOWN	None	30669	669	222	227916358	227968927	1	C1orf142	SVAP1, SNAP-47
1	SNAP47	ENSG00000143740	ENST00000491439	processed_transcript	KNOWN	None	30669	None	None	227916408	227947186	1	C1orf142	SVAP1, SNAP-47
1	SNAP47	ENSG00000143740	ENST00000366759	protein_coding	KNOWN	CCDS1562	30669	1395	464	227922697	227968927	1	C1orf142	SVAP1, SNAP-47
1	SNAP47	ENSG00000143740	ENST00000418653	protein_coding	KNOWN	None	30669	778	258	227923132	227964671	1	C1orf142	SVAP1, SNAP-47
1	SNAP47	ENSG00000143740	ENST00000426344	protein_coding	KNOWN	None	30669	1315	437	227923137	227964670	1	C1orf142	SVAP1, SNAP-47
1	SNAP47	ENSG00000143740	ENST00000470038	processed_transcript	KNOWN	None	30669	None	None	227923874	227935816	1	C1orf142	SVAP1, SNAP-47
1	SNAP47	ENSG00000143740	ENST00000606873	protein_coding	PUTATIVE	None	30669	667	221	227935764	227947353	1	C1orf142	SVAP1, SNAP-47
1	SNAP47	ENSG00000143740	ENST00000478768	processed_transcript	KNOWN	None	30669	None	None	227935855	227958412	1	C1orf142	SVAP1, SNAP-47
1	SNAP47	ENSG00000143740	ENST00000315781	protein_coding	KNOWN	None	30669	1341	446	227922697	227963582	1	C1orf142	SVAP1, SNAP-47
12	MLXIP	ENSG00000175727	ENST00000319080	protein_coding	KNOWN	None	17055	2760	919	122516628	122629266	1	None	MONDOA, KIAA0867, MIR, bHLHe36
12	MLXIP	ENSG00000175727	ENST00000535430	protein_coding	PUTATIVE	None	17055	221	72	122612427	122615448	1	None	MONDOA, KIAA0867, MIR, bHLHe36
12	MLXIP	ENSG00000175727	ENST00000539861	retained_intron	KNOWN	None	17055	None	None	122612435	122618711	1	None	MONDOA, KIAA0867, MIR, bHLHe36
12	MLXIP	ENSG00000175727	ENST00000535876	retained_intron	KNOWN	None	17055	None	None	122613727	122614552	1	None	MONDOA, KIAA0867, MIR, bHLHe36
12	MLXIP	ENSG00000175727	ENST00000538061	retained_intron	KNOWN	None	17055	None	None	122614489	122618711	1	None	MONDOA, KIAA0867, MIR, bHLHe36
12	MLXIP	ENSG00000175727	ENST00000538698	protein_coding	KNOWN	None	17055	1581	526	122617072	122628965	1	None	MONDOA, KIAA0867, MIR, bHLHe36
12	MLXIP	ENSG00000175727	ENST00000541750	retained_intron	KNOWN	None	17055	None	None	122618218	122623031	1	None	MONDOA, KIAA0867, MIR, bHLHe36
12	MLXIP	ENSG00000175727	ENST00000366272	protein_coding	PUTATIVE	None	17055	924	307	122618868	122623488	1	None	MONDOA, KIAA0867, MIR, bHLHe36
12	MLXIP	ENSG00000175727	ENST00000535996	processed_transcript	KNOWN	None	17055	None	None	122619782	122620098	1	None	MONDOA, KIAA0867, MIR, bHLHe36
12	MLXIP	ENSG00000175727	ENST00000542417	protein_coding	PUTATIVE	None	17055	513	170	122620175	122625495	1	None	MONDOA, KIAA0867, MIR, bHLHe36
12	MLXIP	ENSG00000175727	ENST00000377037	protein_coding	KNOWN	None	17055	657	218	122617982	122618689	1	None	MONDOA, KIAA0867, MIR, bHLHe36
7	KCTD7	ENSG00000243335	ENST00000275532	protein_coding	KNOWN	CCDS5534	21957	870	289	66093868	66108038	1	None	FLJ32069, EPM3, CLN14
7	KCTD7	ENSG00000243335	ENST00000443322	protein_coding	PUTATIVE	CCDS55117	21957	867	288	66093930	66105552	1	None	FLJ32069, EPM3, CLN14
7	KCTD7	ENSG00000243335	ENST00000449064	protein_coding	PUTATIVE	None	21957	397	131	66093945	66103916	1	None	FLJ32069, EPM3, CLN14
7	KCTD7	ENSG00000243335	ENST00000503687	nonsense_mediated_decay	KNOWN	None	21957	699	232	66093945	66276174	1	None	FLJ32069, EPM3, CLN14
7	KCTD7	ENSG00000243335	ENST00000380828	protein_coding	KNOWN	None	21957	1596	531	66205643	66276446	1	None	FLJ32069, EPM3, CLN14
7	KCTD7	ENSG00000243335	ENST00000510829	protein_coding	KNOWN	CCDS5535	21957	1476	491	66205643	66276446	1	None	FLJ32069, EPM3, CLN14
7	KCTD7	ENSG00000243335	ENST00000451741	protein_coding	KNOWN	CCDS5535	21957	1476	491	66205720	66274425	1	None	FLJ32069, EPM3, CLN14
1	JMJD4	ENSG00000081692	ENST00000485807	processed_transcript	KNOWN	None	25724	None	None	227918126	227922078	-1	None	FLJ12517
1	JMJD4	ENSG00000081692	ENST00000366758	protein_coding	KNOWN	CCDS1561	25724	1392	463	227918890	227923112	-1	None	FLJ12517
1	JMJD4	ENSG00000081692	ENST00000438896	protein_coding	KNOWN	CCDS59203	25724	1344	447	227918935	227923112	-1	None	FLJ12517
1	JMJD4	ENSG00000081692	ENST00000480590	processed_transcript	KNOWN	None	25724	None	None	227920849	227922777	-1	None	FLJ12517
1	JMJD4	ENSG00000081692	ENST00000465251	processed_transcript	KNOWN	None	25724	None	None	227921320	227922072	-1	None	FLJ12517
2	SDPR	ENSG00000168497	ENST00000304141	protein_coding	KNOWN	CCDS2313	10690	1278	425	192699028	192711981	-1	None	SDR, PS-p68, cavin-2, CAVIN2
7	None	ENSG00000265245	ENST00000577401	miRNA	NOVEL	None	None	None	None	6731608	6731690	1	None	None
7	PMS2CL	ENSG00000187953	ENST00000486256	processed_transcript	KNOWN	None	30061	None	None	6749759	6793493	1	None	PMS2P13
7	PMS2CL	ENSG00000187953	ENST00000348899	processed_transcript	KNOWN	None	30061	None	None	6769412	6771575	1	None	PMS2P13
7	PMS2CL	ENSG00000187953	ENST00000403974	transcribed_unprocessed_pseudogene	KNOWN	None	30061	None	None	6774936	6791023	1	None	PMS2P13
7	PMS2CL	ENSG00000187953	ENST00000431453	processed_transcript	KNOWN	None	30061	None	None	6777266	6786736	1	None	PMS2P13
1	PRSS38	ENSG00000185888	ENST00000366757	protein_coding	KNOWN	CCDS1563	29625	981	326	228003394	228034171	1	None	MPN2
1	PBXIP1	ENSG00000163346	ENST00000368465	protein_coding	NOVEL	None	21199	2109	702	154916552	154928597	-1	None	HPIP
1	PBXIP1	ENSG00000163346	ENST00000368463	protein_coding	NOVEL	CCDS1074	21199	2196	731	154916556	154928580	-1	None	HPIP
1	PBXIP1	ENSG00000163346	ENST00000368460	protein_coding	PUTATIVE	None	21199	948	315	154919574	154928587	-1	None	HPIP
1	PBXIP1	ENSG00000163346	ENST00000498553	processed_transcript	KNOWN	None	21199	None	None	154919895	154926233	-1	None	HPIP
1	PBXIP1	ENSG00000163346	ENST00000490230	nonsense_mediated_decay	KNOWN	None	21199	444	147	154920129	154928599	-1	None	HPIP
1	PBXIP1	ENSG00000163346	ENST00000493133	processed_transcript	KNOWN	None	21199	None	None	154923705	154926233	-1	None	HPIP
1	PBXIP1	ENSG00000163346	ENST00000539880	protein_coding	KNOWN	None	21199	1677	558	154917061	154928583	-1	None	HPIP
1	PBXIP1	ENSG00000163346	ENST00000542459	protein_coding	KNOWN	None	21199	1731	576	154917486	154928583	-1	None	HPIP
16	GAN	ENSG00000127688	ENST00000248272	protein_coding	KNOWN	CCDS10935	4137	1794	597	81348557	81413940	1	None	GAN1, KLHL16
16	GAN	ENSG00000127688	ENST00000567335	processed_transcript	PUTATIVE	None	4137	None	None	81399024	81405629	1	None	GAN1, KLHL16
1	WNT9A	ENSG00000143816	ENST00000272164	protein_coding	KNOWN	CCDS31045	12778	1098	365	228106357	228135599	-1	WNT14	None
1	WNT9A	ENSG00000143816	ENST00000497852	processed_transcript	KNOWN	None	12778	None	None	228106358	228135631	-1	WNT14	None
11	SPA17	ENSG00000064199	ENST00000227135	protein_coding	PUTATIVE	CCDS8450	11210	456	151	124543694	124564557	1	None	SP17, CT22
11	SPA17	ENSG00000064199	ENST00000532692	protein_coding	PUTATIVE	CCDS8450	11210	456	151	124543740	124567414	1	None	SP17, CT22
11	SPA17	ENSG00000064199	ENST00000529498	processed_transcript	KNOWN	None	11210	None	None	124543806	124545771	1	None	SP17, CT22
11	SPA17	ENSG00000064199	ENST00000524614	processed_transcript	KNOWN	None	11210	None	None	124545210	124566582	1	None	SP17, CT22
8	MATN2	ENSG00000132561	ENST00000521689	protein_coding	KNOWN	CCDS55265	6908	2814	937	98881068	99048206	1	None	None
8	MATN2	ENSG00000132561	ENST00000524308	protein_coding	KNOWN	None	6908	2748	915	98881339	99048438	1	None	None
8	MATN2	ENSG00000132561	ENST00000523490	retained_intron	KNOWN	None	6908	None	None	98881341	99016514	1	None	None
8	MATN2	ENSG00000132561	ENST00000522025	protein_coding	KNOWN	None	6908	2019	672	98881382	99048442	1	None	None
8	MATN2	ENSG00000132561	ENST00000520160	retained_intron	KNOWN	None	6908	None	None	98900062	98943334	1	None	None
8	MATN2	ENSG00000132561	ENST00000520016	protein_coding	KNOWN	CCDS55264	6908	2871	956	98900205	99048440	1	None	None
8	MATN2	ENSG00000132561	ENST00000518154	protein_coding	NOVEL	None	6908	2161	719	98943569	99048442	1	None	None
8	MATN2	ENSG00000132561	ENST00000521041	protein_coding	NOVEL	None	6908	541	179	98943653	99015962	1	None	None
8	MATN2	ENSG00000132561	ENST00000519585	protein_coding	KNOWN	None	6908	346	114	98962967	99006824	1	None	None
8	MATN2	ENSG00000132561	ENST00000518238	processed_transcript	KNOWN	None	6908	None	None	98963047	98964530	1	None	None
8	MATN2	ENSG00000132561	ENST00000522270	protein_coding	NOVEL	None	6908	586	194	98973710	99019730	1	None	None
8	MATN2	ENSG00000132561	ENST00000521952	nonsense_mediated_decay	KNOWN	None	6908	467	154	99019707	99047931	1	None	None
8	MATN2	ENSG00000132561	ENST00000517321	protein_coding	NOVEL	None	6908	548	181	99028772	99039949	1	None	None
8	MATN2	ENSG00000132561	ENST00000518370	retained_intron	KNOWN	None	6908	None	None	99033231	99039906	1	None	None
8	MATN2	ENSG00000132561	ENST00000519582	protein_coding	PUTATIVE	None	6908	530	175	99039935	99046538	1	None	None
8	MATN2	ENSG00000132561	ENST00000523561	retained_intron	KNOWN	None	6908	None	None	99043670	99048386	1	None	None
8	MATN2	ENSG00000132561	ENST00000522135	protein_coding	PUTATIVE	None	6908	395	130	99044477	99046000	1	None	None
8	MATN2	ENSG00000132561	ENST00000254898	protein_coding	KNOWN	None	6908	2874	957	98881311	99048944	1	None	None
19	TTC9B	ENSG00000174521	ENST00000311308	protein_coding	KNOWN	CCDS12550	26395	720	239	40721965	40724306	-1	None	FLJ30373
19	TTC9B	ENSG00000174521	ENST00000593586	retained_intron	KNOWN	None	26395	None	None	40721967	40724289	-1	None	FLJ30373
16	CDH1	ENSG00000039068	ENST00000261769	protein_coding	KNOWN	CCDS10869	1748	2649	882	68771128	68869451	1	UVO	uvomorulin, CD324
16	CDH1	ENSG00000039068	ENST00000566612	nonsense_mediated_decay	KNOWN	None	1748	1614	537	68771215	68868933	1	UVO	uvomorulin, CD324
16	CDH1	ENSG00000039068	ENST00000422392	protein_coding	NOVEL	None	1748	2466	821	68771255	68867439	1	UVO	uvomorulin, CD324
16	CDH1	ENSG00000039068	ENST00000566510	nonsense_mediated_decay	KNOWN	None	1748	1245	414	68771255	68867439	1	UVO	uvomorulin, CD324
16	CDH1	ENSG00000039068	ENST00000562836	processed_transcript	KNOWN	None	1748	None	None	68797197	68867441	1	UVO	uvomorulin, CD324
16	CDH1	ENSG00000039068	ENST00000564676	processed_transcript	KNOWN	None	1748	None	None	68799023	68842751	1	UVO	uvomorulin, CD324
16	CDH1	ENSG00000039068	ENST00000564745	processed_transcript	PUTATIVE	None	1748	None	None	68804851	68842650	1	UVO	uvomorulin, CD324
16	CDH1	ENSG00000039068	ENST00000561751	nonsense_mediated_decay	KNOWN	None	1748	466	154	68835643	68846143	1	UVO	uvomorulin, CD324
16	CDH1	ENSG00000039068	ENST00000567320	retained_intron	KNOWN	None	1748	None	None	68842430	68842906	1	UVO	uvomorulin, CD324
16	CDH1	ENSG00000039068	ENST00000565810	retained_intron	KNOWN	None	1748	None	None	68845986	68847316	1	UVO	uvomorulin, CD324
16	CDH1	ENSG00000039068	ENST00000562118	retained_intron	KNOWN	None	1748	None	None	68857148	68867487	1	UVO	uvomorulin, CD324
1	WNT3A	ENSG00000154342	ENST00000284523	protein_coding	KNOWN	CCDS1564	15983	1059	352	228194752	228248961	1	None	None
1	WNT3A	ENSG00000154342	ENST00000366753	protein_coding	KNOWN	None	15983	1158	385	228194783	228248168	1	None	None
2	TMEFF2	ENSG00000144339	ENST00000392314	protein_coding	NOVEL	None	11867	1041	346	192813769	193059642	-1	None	TENB2, HPP1, TR, TPEF, CT120.2
2	TMEFF2	ENSG00000144339	ENST00000272771	protein_coding	KNOWN	CCDS2314	11867	1125	374	192814743	193060435	-1	None	TENB2, HPP1, TR, TPEF, CT120.2
2	TMEFF2	ENSG00000144339	ENST00000487771	processed_transcript	PUTATIVE	None	11867	None	None	192857390	192863931	-1	None	TENB2, HPP1, TR, TPEF, CT120.2
2	TMEFF2	ENSG00000144339	ENST00000409056	protein_coding	KNOWN	None	11867	528	175	193041469	193059250	-1	None	TENB2, HPP1, TR, TPEF, CT120.2
X	ZMYM3	ENSG00000147130	ENST00000314425	protein_coding	KNOWN	CCDS14409	13054	4113	1370	70459474	70473990	-1	ZNF261	ZNF198L2, DXS6673E, KIAA0385, MYM
X	ZMYM3	ENSG00000147130	ENST00000373998	protein_coding	KNOWN	CCDS55444	13054	4077	1358	70459474	70474996	-1	ZNF261	ZNF198L2, DXS6673E, KIAA0385, MYM
X	ZMYM3	ENSG00000147130	ENST00000489332	processed_transcript	KNOWN	None	13054	None	None	70459476	70473977	-1	ZNF261	ZNF198L2, DXS6673E, KIAA0385, MYM
X	ZMYM3	ENSG00000147130	ENST00000373984	protein_coding	KNOWN	None	13054	3843	1280	70459476	70473979	-1	ZNF261	ZNF198L2, DXS6673E, KIAA0385, MYM
X	ZMYM3	ENSG00000147130	ENST00000373988	protein_coding	KNOWN	None	13054	4119	1372	70459476	70474910	-1	ZNF261	ZNF198L2, DXS6673E, KIAA0385, MYM
X	ZMYM3	ENSG00000147130	ENST00000470832	processed_transcript	KNOWN	None	13054	None	None	70463467	70464320	-1	ZNF261	ZNF198L2, DXS6673E, KIAA0385, MYM
X	ZMYM3	ENSG00000147130	ENST00000460139	processed_transcript	KNOWN	None	13054	None	None	70467626	70474038	-1	ZNF261	ZNF198L2, DXS6673E, KIAA0385, MYM
X	ZMYM3	ENSG00000147130	ENST00000373982	protein_coding	KNOWN	None	13054	1494	497	70469051	70473990	-1	ZNF261	ZNF198L2, DXS6673E, KIAA0385, MYM
X	ZMYM3	ENSG00000147130	ENST00000373981	protein_coding	KNOWN	CCDS55443	13054	1488	495	70469054	70474425	-1	ZNF261	ZNF198L2, DXS6673E, KIAA0385, MYM
X	ZMYM3	ENSG00000147130	ENST00000373978	protein_coding	KNOWN	None	13054	1050	349	70469059	70474389	-1	ZNF261	ZNF198L2, DXS6673E, KIAA0385, MYM
X	ZMYM3	ENSG00000147130	ENST00000353904	protein_coding	KNOWN	CCDS14409	13054	4113	1370	70459474	70474499	-1	ZNF261	ZNF198L2, DXS6673E, KIAA0385, MYM
9	HNRNPK	ENSG00000165119	ENST00000376281	protein_coding	KNOWN	CCDS6668	5044	1395	464	86582998	86595519	-1	HNRPK	CSBP, TUNP
9	HNRNPK	ENSG00000165119	ENST00000351839	protein_coding	KNOWN	CCDS6667	5044	1392	463	86583112	86593367	-1	HNRPK	CSBP, TUNP
9	HNRNPK	ENSG00000165119	ENST00000360384	protein_coding	KNOWN	CCDS6667	5044	1392	463	86583824	86595165	-1	HNRPK	CSBP, TUNP
9	HNRNPK	ENSG00000165119	ENST00000493362	retained_intron	KNOWN	None	5044	None	None	86584113	86585701	-1	HNRPK	CSBP, TUNP
9	HNRNPK	ENSG00000165119	ENST00000492865	retained_intron	KNOWN	None	5044	None	None	86584331	86586061	-1	HNRPK	CSBP, TUNP
9	HNRNPK	ENSG00000165119	ENST00000481820	protein_coding	PUTATIVE	None	5044	301	99	86584411	86586209	-1	HNRPK	CSBP, TUNP
9	HNRNPK	ENSG00000165119	ENST00000457156	protein_coding	KNOWN	None	5044	1138	378	86585228	86595105	-1	HNRPK	CSBP, TUNP
9	HNRNPK	ENSG00000165119	ENST00000472778	nonsense_mediated_decay	KNOWN	None	5044	234	77	86587759	86595531	-1	HNRPK	CSBP, TUNP
9	HNRNPK	ENSG00000165119	ENST00000376256	retained_intron	KNOWN	None	5044	None	None	86588207	86590685	-1	HNRPK	CSBP, TUNP
9	HNRNPK	ENSG00000165119	ENST00000483135	retained_intron	KNOWN	None	5044	None	None	86591423	86595510	-1	HNRPK	CSBP, TUNP
9	HNRNPK	ENSG00000165119	ENST00000376264	protein_coding	KNOWN	CCDS6667	5044	1392	463	86582999	86595569	-1	HNRPK	CSBP, TUNP
9	HNRNPK	ENSG00000165119	ENST00000376263	protein_coding	KNOWN	CCDS6668	5044	1395	464	86582999	86595184	-1	HNRPK	CSBP, TUNP
1	PYGO2	ENSG00000163348	ENST00000368457	protein_coding	KNOWN	CCDS1075	30257	1221	406	154929502	154934224	-1	None	None
1	PYGO2	ENSG00000163348	ENST00000368456	protein_coding	KNOWN	None	30257	1110	369	154931216	154934512	-1	None	None
1	PYGO2	ENSG00000163348	ENST00000483463	processed_transcript	KNOWN	None	30257	None	None	154932114	154936329	-1	None	None
16	DDX19B	ENSG00000157349	ENST00000566216	protein_coding	PUTATIVE	None	2742	701	232	70323566	70363327	1	DDX19	DBP5
16	DDX19B	ENSG00000157349	ENST00000563392	protein_coding	KNOWN	CCDS42187	2742	1113	370	70323670	70367723	1	DDX19	DBP5
16	DDX19B	ENSG00000157349	ENST00000570055	processed_transcript	KNOWN	None	2742	None	None	70328680	70353586	1	DDX19	DBP5
16	DDX19B	ENSG00000157349	ENST00000563206	protein_coding	PUTATIVE	None	2742	1455	484	70328680	70367726	1	DDX19	DBP5
16	DDX19B	ENSG00000157349	ENST00000451014	protein_coding	PUTATIVE	CCDS58478	2742	1362	453	70328700	70367682	1	DDX19	DBP5
16	DDX19B	ENSG00000157349	ENST00000569099	processed_transcript	KNOWN	None	2742	None	None	70328736	70351419	1	DDX19	DBP5
16	DDX19B	ENSG00000157349	ENST00000568625	protein_coding	KNOWN	CCDS42187	2742	1113	370	70328736	70367598	1	DDX19	DBP5
16	DDX19B	ENSG00000157349	ENST00000288071	protein_coding	KNOWN	CCDS10888	2742	1440	479	70332956	70369186	1	DDX19	DBP5
16	DDX19B	ENSG00000157349	ENST00000562519	nonsense_mediated_decay	KNOWN	None	2742	93	30	70333045	70367875	1	DDX19	DBP5
16	DDX19B	ENSG00000157349	ENST00000393657	protein_coding	KNOWN	CCDS42187	2742	1113	370	70333065	70367729	1	DDX19	DBP5
16	DDX19B	ENSG00000157349	ENST00000568008	nonsense_mediated_decay	KNOWN	None	2742	99	32	70333072	70363969	1	DDX19	DBP5
16	DDX19B	ENSG00000157349	ENST00000562912	nonsense_mediated_decay	KNOWN	None	2742	147	48	70333081	70353612	1	DDX19	DBP5
16	DDX19B	ENSG00000157349	ENST00000568460	nonsense_mediated_decay	KNOWN	None	2742	147	48	70333095	70359513	1	DDX19	DBP5
16	DDX19B	ENSG00000157349	ENST00000355992	protein_coding	KNOWN	CCDS32475	2742	1347	448	70333097	70367726	1	DDX19	DBP5
16	DDX19B	ENSG00000157349	ENST00000568408	nonsense_mediated_decay	KNOWN	None	2742	126	41	70333112	70363373	1	DDX19	DBP5
16	DDX19B	ENSG00000157349	ENST00000569224	retained_intron	KNOWN	None	2742	None	None	70333237	70351845	1	DDX19	DBP5
17	PCYT2	ENSG00000185813	ENST00000538936	protein_coding	KNOWN	CCDS11791	8756	1170	389	79858841	79869340	-1	None	ET
17	PCYT2	ENSG00000185813	ENST00000331285	protein_coding	PUTATIVE	CCDS58610	8756	936	311	79862202	79869051	-1	None	ET
17	PCYT2	ENSG00000185813	ENST00000538721	protein_coding	KNOWN	CCDS54178	8756	1224	407	79862219	79869282	-1	None	ET
17	PCYT2	ENSG00000185813	ENST00000571105	protein_coding	NOVEL	None	8756	1104	367	79862243	79869289	-1	None	ET
17	PCYT2	ENSG00000185813	ENST00000570391	protein_coding	PUTATIVE	None	8756	1074	357	79862300	79869143	-1	None	ET
17	PCYT2	ENSG00000185813	ENST00000574343	retained_intron	KNOWN	None	8756	None	None	79862512	79863552	-1	None	ET
17	PCYT2	ENSG00000185813	ENST00000572995	protein_coding	NOVEL	None	8756	622	206	79862527	79865670	-1	None	ET
17	PCYT2	ENSG00000185813	ENST00000570388	protein_coding	PUTATIVE	CCDS58610	8756	936	311	79862688	79869230	-1	None	ET
17	PCYT2	ENSG00000185813	ENST00000572924	retained_intron	KNOWN	None	8756	None	None	79862752	79864053	-1	None	ET
17	PCYT2	ENSG00000185813	ENST00000576343	protein_coding	NOVEL	None	8756	943	313	79862774	79869294	-1	None	ET
17	PCYT2	ENSG00000185813	ENST00000571944	retained_intron	KNOWN	None	8756	None	None	79863395	79864124	-1	None	ET
17	PCYT2	ENSG00000185813	ENST00000573636	protein_coding	NOVEL	None	8756	858	285	79863546	79869286	-1	None	ET
17	PCYT2	ENSG00000185813	ENST00000574155	retained_intron	KNOWN	None	8756	None	None	79863557	79864705	-1	None	ET
17	PCYT2	ENSG00000185813	ENST00000573401	nonsense_mediated_decay	KNOWN	None	8756	135	44	79863976	79869253	-1	None	ET
17	PCYT2	ENSG00000185813	ENST00000571581	retained_intron	KNOWN	None	8756	None	None	79864021	79869264	-1	None	ET
17	PCYT2	ENSG00000185813	ENST00000573927	protein_coding	PUTATIVE	None	8756	245	80	79865662	79869004	-1	None	ET
17	PCYT2	ENSG00000185813	ENST00000572473	protein_coding	PUTATIVE	None	8756	104	33	79866754	79869308	-1	None	ET
17	PCYT2	ENSG00000185813	ENST00000572157	protein_coding	PUTATIVE	None	8756	160	52	79866795	79869051	-1	None	ET
1	ARF1	ENSG00000143761	ENST00000272102	protein_coding	KNOWN	CCDS1565	652	546	181	228270361	228286910	1	None	None
1	ARF1	ENSG00000143761	ENST00000477821	processed_transcript	PUTATIVE	None	652	None	None	228270428	228286877	1	None	None
1	ARF1	ENSG00000143761	ENST00000470670	processed_transcript	PUTATIVE	None	652	None	None	228270431	228285728	1	None	None
1	ARF1	ENSG00000143761	ENST00000478424	processed_transcript	KNOWN	None	652	None	None	228270442	228286080	1	None	None
1	ARF1	ENSG00000143761	ENST00000470558	processed_transcript	KNOWN	None	652	None	None	228270490	228285889	1	None	None
1	ARF1	ENSG00000143761	ENST00000473949	processed_transcript	KNOWN	None	652	None	None	228270492	228285595	1	None	None
1	ARF1	ENSG00000143761	ENST00000477451	processed_transcript	KNOWN	None	652	None	None	228270786	228285356	1	None	None
1	ARF1	ENSG00000143761	ENST00000478336	processed_transcript	KNOWN	None	652	None	None	228270838	228285823	1	None	None
1	ARF1	ENSG00000143761	ENST00000469235	processed_transcript	KNOWN	None	652	None	None	228270851	228285649	1	None	None
1	ARF1	ENSG00000143761	ENST00000473546	processed_transcript	KNOWN	None	652	None	None	228270885	228284900	1	None	None
1	ARF1	ENSG00000143761	ENST00000482962	processed_transcript	KNOWN	None	652	None	None	228270923	228285597	1	None	None
1	ARF1	ENSG00000143761	ENST00000497165	processed_transcript	KNOWN	None	652	None	None	228275817	228285644	1	None	None
1	ARF1	ENSG00000143761	ENST00000490705	processed_transcript	KNOWN	None	652	None	None	228278189	228285154	1	None	None
1	ARF1	ENSG00000143761	ENST00000540651	protein_coding	KNOWN	CCDS1565	652	546	181	228270361	228286912	1	None	None
1	ARF1	ENSG00000143761	ENST00000541182	protein_coding	KNOWN	CCDS1565	652	546	181	228270851	228286912	1	None	None
1	ZCCHC11	ENSG00000134744	ENST00000528457	protein_coding	PUTATIVE	None	28981	493	163	52873954	52896899	-1	None	KIAA0191, PAPD3
1	ZCCHC11	ENSG00000134744	ENST00000527941	nonsense_mediated_decay	KNOWN	None	28981	327	108	52873957	52896784	-1	None	KIAA0191, PAPD3
1	ZCCHC11	ENSG00000134744	ENST00000257177	protein_coding	KNOWN	CCDS30715	28981	4938	1645	52888947	53018654	-1	None	KIAA0191, PAPD3
1	ZCCHC11	ENSG00000134744	ENST00000371544	protein_coding	KNOWN	CCDS30716	28981	4935	1644	52888947	53018772	-1	None	KIAA0191, PAPD3
1	ZCCHC11	ENSG00000134744	ENST00000466440	retained_intron	KNOWN	None	28981	None	None	52889075	52900342	-1	None	KIAA0191, PAPD3
1	ZCCHC11	ENSG00000134744	ENST00000494469	protein_coding	NOVEL	None	28981	455	150	52889235	52897110	-1	None	KIAA0191, PAPD3
1	ZCCHC11	ENSG00000134744	ENST00000471623	protein_coding	PUTATIVE	None	28981	317	104	52889308	52896753	-1	None	KIAA0191, PAPD3
1	ZCCHC11	ENSG00000134744	ENST00000531722	protein_coding	NOVEL	None	28981	1016	337	52896798	52912300	-1	None	KIAA0191, PAPD3
1	ZCCHC11	ENSG00000134744	ENST00000474453	protein_coding	NOVEL	None	28981	1010	335	52896919	52912322	-1	None	KIAA0191, PAPD3
1	ZCCHC11	ENSG00000134744	ENST00000470212	retained_intron	KNOWN	None	28981	None	None	52896960	52902927	-1	None	KIAA0191, PAPD3
1	ZCCHC11	ENSG00000134744	ENST00000469810	retained_intron	KNOWN	None	28981	None	None	52898761	52928584	-1	None	KIAA0191, PAPD3
1	ZCCHC11	ENSG00000134744	ENST00000528642	protein_coding	NOVEL	None	28981	3609	1202	52911459	53018754	-1	None	KIAA0191, PAPD3
1	ZCCHC11	ENSG00000134744	ENST00000497120	retained_intron	KNOWN	None	28981	None	None	52911937	52927762	-1	None	KIAA0191, PAPD3
1	ZCCHC11	ENSG00000134744	ENST00000484723	protein_coding	PUTATIVE	None	28981	2719	905	52912072	53019130	-1	None	KIAA0191, PAPD3
1	ZCCHC11	ENSG00000134744	ENST00000481528	retained_intron	KNOWN	None	28981	None	None	52926629	52927388	-1	None	KIAA0191, PAPD3
1	ZCCHC11	ENSG00000134744	ENST00000371541	processed_transcript	KNOWN	None	28981	None	None	52927850	52991602	-1	None	KIAA0191, PAPD3
1	ZCCHC11	ENSG00000134744	ENST00000481133	retained_intron	KNOWN	None	28981	None	None	52930635	52934162	-1	None	KIAA0191, PAPD3
1	ZCCHC11	ENSG00000134744	ENST00000473856	nonsense_mediated_decay	KNOWN	None	28981	1032	343	52943410	53018741	-1	None	KIAA0191, PAPD3
1	ZCCHC11	ENSG00000134744	ENST00000355809	protein_coding	PUTATIVE	None	28981	930	309	52980450	53018666	-1	None	KIAA0191, PAPD3
1	ZCCHC11	ENSG00000134744	ENST00000470626	protein_coding	KNOWN	None	28981	261	86	52991692	53018757	-1	None	KIAA0191, PAPD3
1	ZCCHC11	ENSG00000134744	ENST00000524582	protein_coding	KNOWN	None	28981	231	76	52991722	53019159	-1	None	KIAA0191, PAPD3
19	UPK1A	ENSG00000105668	ENST00000379013	protein_coding	KNOWN	None	12577	822	273	36157715	36169062	1	None	TSPAN21
19	UPK1A	ENSG00000105668	ENST00000222275	protein_coding	KNOWN	CCDS12470	12577	777	258	36157715	36169367	1	None	TSPAN21
16	CMIP	ENSG00000153815	ENST00000537098	protein_coding	KNOWN	CCDS54044	24319	2322	773	81478775	81745367	1	None	None
16	CMIP	ENSG00000153815	ENST00000539778	protein_coding	KNOWN	CCDS54045	24319	2040	679	81528954	81745173	1	None	None
16	CMIP	ENSG00000153815	ENST00000565029	retained_intron	KNOWN	None	24319	None	None	81643912	81655805	1	None	None
16	CMIP	ENSG00000153815	ENST00000566513	processed_transcript	PUTATIVE	None	24319	None	None	81643912	81743562	1	None	None
16	CMIP	ENSG00000153815	ENST00000398040	protein_coding	KNOWN	None	24319	1863	620	81678963	81744143	1	None	None
16	CMIP	ENSG00000153815	ENST00000564666	processed_transcript	PUTATIVE	None	24319	None	None	81678965	81685895	1	None	None
16	CMIP	ENSG00000153815	ENST00000566462	processed_transcript	PUTATIVE	None	24319	None	None	81684796	81697933	1	None	None
16	CMIP	ENSG00000153815	ENST00000565680	retained_intron	KNOWN	None	24319	None	None	81725261	81734184	1	None	None
16	CMIP	ENSG00000153815	ENST00000569146	retained_intron	KNOWN	None	24319	None	None	81726792	81731452	1	None	None
16	CMIP	ENSG00000153815	ENST00000561605	retained_intron	KNOWN	None	24319	None	None	81737462	81740690	1	None	None
12	RND1	ENSG00000172602	ENST00000550607	protein_coding	KNOWN	None	18314	381	126	49250928	49254914	-1	None	Rho6, ARHS, RHOS
12	RND1	ENSG00000172602	ENST00000309739	protein_coding	KNOWN	CCDS8771	18314	699	232	49250928	49259681	-1	None	Rho6, ARHS, RHOS
12	RND1	ENSG00000172602	ENST00000548445	retained_intron	KNOWN	None	18314	None	None	49250930	49253065	-1	None	Rho6, ARHS, RHOS
12	RND1	ENSG00000172602	ENST00000553260	retained_intron	KNOWN	None	18314	None	None	49251880	49255993	-1	None	Rho6, ARHS, RHOS
12	RND1	ENSG00000172602	ENST00000551243	nonsense_mediated_decay	KNOWN	None	18314	291	96	49254813	49259638	-1	None	Rho6, ARHS, RHOS
1	C1orf35	ENSG00000143793	ENST00000469781	processed_transcript	KNOWN	None	19032	None	None	228288427	228291142	-1	None	MGC4174, MMTAG2
1	C1orf35	ENSG00000143793	ENST00000485896	processed_transcript	KNOWN	None	19032	None	None	228288432	228291021	-1	None	MGC4174, MMTAG2
1	C1orf35	ENSG00000143793	ENST00000272139	protein_coding	KNOWN	CCDS1566	19032	792	263	228288432	228291163	-1	None	MGC4174, MMTAG2
1	C1orf35	ENSG00000143793	ENST00000472617	processed_transcript	KNOWN	None	19032	None	None	228288434	228293112	-1	None	MGC4174, MMTAG2
1	C1orf35	ENSG00000143793	ENST00000492757	processed_transcript	KNOWN	None	19032	None	None	228289114	228290703	-1	None	MGC4174, MMTAG2
1	C1orf35	ENSG00000143793	ENST00000465199	processed_transcript	PUTATIVE	None	19032	None	None	228289757	228291148	-1	None	MGC4174, MMTAG2
1	C1orf35	ENSG00000143793	ENST00000491293	processed_transcript	PUTATIVE	None	19032	None	None	228289943	228291090	-1	None	MGC4174, MMTAG2
2	SLC39A10	ENSG00000196950	ENST00000458054	protein_coding	KNOWN	None	20861	378	125	196440701	196545144	1	None	KIAA1265, FLJ90515, DKFZp564L2123
2	SLC39A10	ENSG00000196950	ENST00000409086	protein_coding	KNOWN	CCDS33353	20861	2496	831	196521471	196602426	1	None	KIAA1265, FLJ90515, DKFZp564L2123
2	SLC39A10	ENSG00000196950	ENST00000444421	nonsense_mediated_decay	KNOWN	None	20861	120	39	196521635	196571400	1	None	KIAA1265, FLJ90515, DKFZp564L2123
2	SLC39A10	ENSG00000196950	ENST00000359634	protein_coding	KNOWN	CCDS33353	20861	2496	831	196521852	196602426	1	None	KIAA1265, FLJ90515, DKFZp564L2123
2	SLC39A10	ENSG00000196950	ENST00000430412	nonsense_mediated_decay	KNOWN	None	20861	120	39	196521852	196602426	1	None	KIAA1265, FLJ90515, DKFZp564L2123
2	SLC39A10	ENSG00000196950	ENST00000412905	protein_coding	KNOWN	None	20861	116	37	196521860	196544882	1	None	KIAA1265, FLJ90515, DKFZp564L2123
2	SLC39A10	ENSG00000196950	ENST00000464301	processed_transcript	KNOWN	None	20861	None	None	196521959	196523311	1	None	KIAA1265, FLJ90515, DKFZp564L2123
2	SLC39A10	ENSG00000196950	ENST00000418005	protein_coding	KNOWN	None	20861	391	129	196522173	196545157	1	None	KIAA1265, FLJ90515, DKFZp564L2123
2	SLC39A10	ENSG00000196950	ENST00000465851	retained_intron	KNOWN	None	20861	None	None	196545201	196582107	1	None	KIAA1265, FLJ90515, DKFZp564L2123
2	SLC39A10	ENSG00000196950	ENST00000541054	protein_coding	KNOWN	None	20861	1146	381	196521912	196600227	1	None	KIAA1265, FLJ90515, DKFZp564L2123
14	PGF	ENSG00000119630	ENST00000555567	protein_coding	KNOWN	CCDS9835	8893	513	170	75408537	75422487	-1	PGFL	PLGF, PlGF-2, PlGF, SHGC-10760, D12S1900
14	PGF	ENSG00000119630	ENST00000553716	protein_coding	KNOWN	CCDS55932	8893	450	149	75408544	75422329	-1	PGFL	PLGF, PlGF-2, PlGF, SHGC-10760, D12S1900
14	PGF	ENSG00000119630	ENST00000238607	protein_coding	NOVEL	None	8893	510	169	75408561	75422280	-1	PGFL	PLGF, PlGF-2, PlGF, SHGC-10760, D12S1900
14	PGF	ENSG00000119630	ENST00000557748	retained_intron	KNOWN	None	8893	None	None	75409197	75420937	-1	PGFL	PLGF, PlGF-2, PlGF, SHGC-10760, D12S1900
14	PGF	ENSG00000119630	ENST00000405431	protein_coding	KNOWN	None	8893	666	221	75409409	75421945	-1	PGFL	PLGF, PlGF-2, PlGF, SHGC-10760, D12S1900
14	PGF	ENSG00000119630	ENST00000555253	retained_intron	KNOWN	None	8893	None	None	75411267	75414918	-1	PGFL	PLGF, PlGF-2, PlGF, SHGC-10760, D12S1900
14	PGF	ENSG00000119630	ENST00000556939	retained_intron	KNOWN	None	8893	None	None	75414832	75422300	-1	PGFL	PLGF, PlGF-2, PlGF, SHGC-10760, D12S1900
14	PGF	ENSG00000119630	ENST00000555234	retained_intron	KNOWN	None	8893	None	None	75415103	75422300	-1	PGFL	PLGF, PlGF-2, PlGF, SHGC-10760, D12S1900
4	None	ENSG00000168824	ENST00000421177	protein_coding	KNOWN	CCDS3376	None	558	185	4349867	4420785	1	None	None
4	None	ENSG00000168824	ENST00000513555	protein_coding	KNOWN	CCDS3376	None	558	185	4350040	4420785	1	None	None
4	None	ENSG00000168824	ENST00000450293	processed_transcript	PUTATIVE	None	None	None	None	4382709	4383699	1	None	None
4	None	ENSG00000168824	ENST00000504347	retained_intron	KNOWN	None	None	None	None	4382709	4386984	1	None	None
4	None	ENSG00000168824	ENST00000505246	protein_coding	KNOWN	CCDS3376	None	558	185	4386808	4419347	1	None	None
4	None	ENSG00000168824	ENST00000506380	protein_coding	KNOWN	CCDS3376	None	558	185	4387172	4419210	1	None	None
4	None	ENSG00000168824	ENST00000433139	protein_coding	KNOWN	CCDS3376	None	558	185	4388265	4420726	1	None	None
4	None	ENSG00000168824	ENST00000513829	nonsense_mediated_decay	KNOWN	CCDS3376	None	558	185	4388766	4420785	1	None	None
4	None	ENSG00000168824	ENST00000504171	protein_coding	NOVEL	None	None	441	146	4388832	4419606	1	None	None
4	None	ENSG00000168824	ENST00000397958	protein_coding	KNOWN	CCDS3376	None	558	185	4387983	4420784	1	None	None
17	ADORA2B	ENSG00000170425	ENST00000304222	protein_coding	KNOWN	CCDS11173	264	999	332	15848231	15879060	1	None	None
17	ADORA2B	ENSG00000170425	ENST00000582124	retained_intron	KNOWN	None	264	None	None	15877177	15879051	1	None	None
19	ZBTB32	ENSG00000011590	ENST00000392197	protein_coding	KNOWN	CCDS12471	16763	1464	487	36195429	36207940	1	None	TZFP, FAZF, FAXF, Rog, ZNF538
19	ZBTB32	ENSG00000011590	ENST00000442282	processed_transcript	PUTATIVE	None	16763	None	None	36195461	36204444	1	None	TZFP, FAZF, FAXF, Rog, ZNF538
19	ZBTB32	ENSG00000011590	ENST00000426659	protein_coding	PUTATIVE	None	16763	213	70	36195473	36207399	1	None	TZFP, FAZF, FAXF, Rog, ZNF538
19	ZBTB32	ENSG00000011590	ENST00000451726	processed_transcript	PUTATIVE	None	16763	None	None	36195481	36205241	1	None	TZFP, FAZF, FAXF, Rog, ZNF538
19	ZBTB32	ENSG00000011590	ENST00000481182	nonsense_mediated_decay	KNOWN	None	16763	909	302	36204335	36207940	1	None	TZFP, FAZF, FAXF, Rog, ZNF538
19	ZBTB32	ENSG00000011590	ENST00000262630	protein_coding	KNOWN	CCDS12471	16763	1464	487	36203830	36207940	1	None	TZFP, FAZF, FAXF, Rog, ZNF538
1	GPX7	ENSG00000116157	ENST00000361314	protein_coding	KNOWN	CCDS569	4559	564	187	53068044	53074723	1	None	FLJ14777, GPX6, NPGPx
1	GPX7	ENSG00000116157	ENST00000459779	processed_transcript	KNOWN	None	4559	None	None	53068072	53073080	1	None	FLJ14777, GPX6, NPGPx
9	ENHO	ENSG00000168913	ENST00000399775	protein_coding	KNOWN	CCDS43795	24838	231	76	34521038	34523039	-1	C9orf165	UNQ470
10	NAMPTL	ENSG00000229644	ENST00000440465	protein_coding	KNOWN	None	17633	1419	472	36810649	36813162	-1	PBEF2	bA92J19.4
10	NAMPTL	ENSG00000229644	ENST00000543053	protein_coding	KNOWN	None	17633	363	120	36811644	36812323	-1	PBEF2	bA92J19.4
1	FAM159A	ENSG00000182183	ENST00000517870	protein_coding	KNOWN	CCDS41336	28757	573	190	53099016	53122737	1	None	MGC52498
1	FAM159A	ENSG00000182183	ENST00000440303	processed_transcript	KNOWN	None	28757	None	None	53099016	53134793	1	None	MGC52498
1	FAM159A	ENSG00000182183	ENST00000401050	processed_transcript	KNOWN	None	28757	None	None	53099066	53135355	1	None	MGC52498
1	FAM159A	ENSG00000182183	ENST00000424164	processed_transcript	KNOWN	None	28757	None	None	53099265	53133360	1	None	MGC52498
19	CNTD2	ENSG00000105219	ENST00000599263	protein_coding	PUTATIVE	None	25805	483	160	40728115	40730400	-1	None	FLJ13265
19	CNTD2	ENSG00000105219	ENST00000430325	protein_coding	KNOWN	CCDS12551	25805	924	307	40728115	40732597	-1	None	FLJ13265
19	CNTD2	ENSG00000105219	ENST00000593335	retained_intron	KNOWN	None	25805	None	None	40728121	40729471	-1	None	FLJ13265
19	CNTD2	ENSG00000105219	ENST00000221818	nonsense_mediated_decay	KNOWN	None	25805	468	155	40728122	40732564	-1	None	FLJ13265
19	CNTD2	ENSG00000105219	ENST00000513948	protein_coding	PUTATIVE	None	25805	606	201	40728955	40730844	-1	None	FLJ13265
19	CNTD2	ENSG00000105219	ENST00000433940	protein_coding	KNOWN	None	25805	468	155	40729505	40732597	-1	None	FLJ13265
X	RAP2C	ENSG00000123728	ENST00000342983	protein_coding	KNOWN	CCDS14632	21165	552	183	131337053	131352152	-1	None	DKFZp313B211
X	RAP2C	ENSG00000123728	ENST00000370874	protein_coding	KNOWN	CCDS14632	21165	552	183	131338678	131353461	-1	None	DKFZp313B211
X	RAP2C	ENSG00000123728	ENST00000460462	processed_transcript	KNOWN	None	21165	None	None	131339477	131352360	-1	None	DKFZp313B211
X	RAP2C	ENSG00000123728	ENST00000490400	processed_transcript	KNOWN	None	21165	None	None	131351694	131353471	-1	None	DKFZp313B211
6	BAG6	ENSG00000204463	ENST00000464869	processed_transcript	PUTATIVE	None	13919	None	None	31606805	31607565	-1	BAT3	G3, D6S52E
6	BAG6	ENSG00000204463	ENST00000464126	processed_transcript	PUTATIVE	None	13919	None	None	31606805	31608316	-1	BAT3	G3, D6S52E
6	BAG6	ENSG00000204463	ENST00000422948	protein_coding	KNOWN	None	13919	410	135	31606805	31608714	-1	BAT3	G3, D6S52E
6	BAG6	ENSG00000204463	ENST00000441793	protein_coding	KNOWN	None	13919	680	225	31606805	31609005	-1	BAT3	G3, D6S52E
6	BAG6	ENSG00000204463	ENST00000375976	protein_coding	KNOWN	CCDS4709	13919	3381	1126	31606805	31620170	-1	BAT3	G3, D6S52E
6	BAG6	ENSG00000204463	ENST00000211379	protein_coding	KNOWN	CCDS4709	13919	3381	1126	31606805	31620482	-1	BAT3	G3, D6S52E
6	BAG6	ENSG00000204463	ENST00000462875	retained_intron	KNOWN	None	13919	None	None	31608602	31609922	-1	BAT3	G3, D6S52E
6	BAG6	ENSG00000204463	ENST00000470875	processed_transcript	PUTATIVE	None	13919	None	None	31609625	31612093	-1	BAT3	G3, D6S52E
6	BAG6	ENSG00000204463	ENST00000437771	protein_coding	KNOWN	None	13919	2228	741	31609996	31620455	-1	BAT3	G3, D6S52E
6	BAG6	ENSG00000204463	ENST00000465348	processed_transcript	PUTATIVE	None	13919	None	None	31610461	31611977	-1	BAT3	G3, D6S52E
6	BAG6	ENSG00000204463	ENST00000438149	protein_coding	KNOWN	None	13919	714	237	31610609	31612846	-1	BAT3	G3, D6S52E
6	BAG6	ENSG00000204463	ENST00000469182	processed_transcript	KNOWN	None	13919	None	None	31610736	31613338	-1	BAT3	G3, D6S52E
6	BAG6	ENSG00000204463	ENST00000453833	protein_coding	KNOWN	None	13919	554	183	31610890	31613280	-1	BAT3	G3, D6S52E
6	BAG6	ENSG00000204463	ENST00000435080	protein_coding	KNOWN	None	13919	1545	514	31612094	31620163	-1	BAT3	G3, D6S52E
6	BAG6	ENSG00000204463	ENST00000462682	processed_transcript	KNOWN	None	13919	None	None	31612271	31612962	-1	BAT3	G3, D6S52E
6	BAG6	ENSG00000204463	ENST00000434444	protein_coding	KNOWN	None	13919	734	243	31615368	31619697	-1	BAT3	G3, D6S52E
6	BAG6	ENSG00000204463	ENST00000452994	protein_coding	KNOWN	None	13919	788	261	31615368	31619935	-1	BAT3	G3, D6S52E
6	BAG6	ENSG00000204463	ENST00000456622	protein_coding	KNOWN	None	13919	734	243	31615368	31620135	-1	BAT3	G3, D6S52E
6	BAG6	ENSG00000204463	ENST00000428326	protein_coding	KNOWN	None	13919	786	261	31615370	31619930	-1	BAT3	G3, D6S52E
6	BAG6	ENSG00000204463	ENST00000451898	protein_coding	KNOWN	None	13919	731	242	31615371	31620425	-1	BAT3	G3, D6S52E
6	BAG6	ENSG00000204463	ENST00000433828	protein_coding	KNOWN	None	13919	779	258	31615377	31619752	-1	BAT3	G3, D6S52E
6	BAG6	ENSG00000204463	ENST00000424480	protein_coding	KNOWN	None	13919	775	257	31615381	31620444	-1	BAT3	G3, D6S52E
6	BAG6	ENSG00000204463	ENST00000424176	protein_coding	KNOWN	None	13919	645	214	31615457	31620100	-1	BAT3	G3, D6S52E
6	BAG6	ENSG00000204463	ENST00000441054	protein_coding	KNOWN	None	13919	619	205	31615483	31620222	-1	BAT3	G3, D6S52E
6	BAG6	ENSG00000204463	ENST00000456286	protein_coding	KNOWN	None	13919	591	196	31615565	31619756	-1	BAT3	G3, D6S52E
6	BAG6	ENSG00000204463	ENST00000454165	protein_coding	KNOWN	None	13919	476	157	31616689	31619892	-1	BAT3	G3, D6S52E
6	BAG6	ENSG00000204463	ENST00000404765	protein_coding	KNOWN	None	13919	3489	1162	31606806	31620477	-1	BAT3	G3, D6S52E
6	BAG6	ENSG00000204463	ENST00000375964	protein_coding	KNOWN	CCDS47403	13919	3399	1132	31606806	31620477	-1	BAT3	G3, D6S52E
6	BAG6	ENSG00000204463	ENST00000439687	protein_coding	KNOWN	CCDS56414	13919	2712	903	31606806	31620428	-1	BAT3	G3, D6S52E
6	BAG6	ENSG00000204463	ENST00000362049	protein_coding	KNOWN	CCDS56415	13919	3234	1077	31606818	31620428	-1	BAT3	G3, D6S52E
8	ZNF696	ENSG00000185730	ENST00000523891	protein_coding	PUTATIVE	None	25872	337	111	144371846	144378134	1	None	FLJ14129
8	ZNF696	ENSG00000185730	ENST00000518575	protein_coding	KNOWN	None	25872	612	203	144373080	144378457	1	None	FLJ14129
8	ZNF696	ENSG00000185730	ENST00000330143	protein_coding	KNOWN	CCDS6399	25872	1125	374	144373559	144380231	1	None	FLJ14129
8	ZNF696	ENSG00000185730	ENST00000521537	protein_coding	PUTATIVE	None	25872	114	37	144373574	144375482	1	None	FLJ14129
8	ZNF696	ENSG00000185730	ENST00000518432	protein_coding	KNOWN	None	25872	321	106	144373587	144378166	1	None	FLJ14129
8	ZNF696	ENSG00000185730	ENST00000520333	protein_coding	PUTATIVE	None	25872	162	53	144373592	144377982	1	None	FLJ14129
1	SELRC1	ENSG00000162377	ENST00000371538	protein_coding	KNOWN	CCDS570	25716	696	231	53152508	53164038	-1	C1orf163	FLJ12439
1	SELRC1	ENSG00000162377	ENST00000486918	processed_transcript	KNOWN	None	25716	None	None	53153234	53163740	-1	C1orf163	FLJ12439
9	CNTFR	ENSG00000122756	ENST00000351266	protein_coding	KNOWN	CCDS6558	2170	1119	372	34551430	34589704	-1	None	None
9	CNTFR	ENSG00000122756	ENST00000378980	protein_coding	KNOWN	CCDS6558	2170	1119	372	34551430	34589735	-1	None	None
9	CNTFR	ENSG00000122756	ENST00000417345	protein_coding	KNOWN	None	2170	768	255	34556253	34590121	-1	None	None
1	ZYG11B	ENSG00000162378	ENST00000294353	protein_coding	KNOWN	CCDS30717	25820	2235	744	53192181	53293014	1	ZYG11	FLJ13456
1	ZYG11B	ENSG00000162378	ENST00000443756	protein_coding	KNOWN	None	25820	2025	674	53192126	53287401	1	ZYG11	FLJ13456
1	ZYG11B	ENSG00000162378	ENST00000545132	protein_coding	KNOWN	None	25820	1701	566	53192139	53282310	1	ZYG11	FLJ13456
2	KIDINS220	ENSG00000134313	ENST00000436566	processed_transcript	KNOWN	None	29508	None	None	8865408	8867347	-1	None	ARMS
2	KIDINS220	ENSG00000134313	ENST00000496383	protein_coding	PUTATIVE	None	29508	3174	1057	8865690	8943101	-1	None	ARMS
2	KIDINS220	ENSG00000134313	ENST00000256707	protein_coding	KNOWN	CCDS42650	29508	5316	1771	8868987	8977755	-1	None	ARMS
2	KIDINS220	ENSG00000134313	ENST00000473731	protein_coding	KNOWN	None	29508	5259	1752	8869059	8977760	-1	None	ARMS
2	KIDINS220	ENSG00000134313	ENST00000488729	nonsense_mediated_decay	KNOWN	None	29508	111	36	8870331	8977726	-1	None	ARMS
2	KIDINS220	ENSG00000134313	ENST00000489024	protein_coding	NOVEL	None	29508	3915	1304	8872083	8977742	-1	None	ARMS
2	KIDINS220	ENSG00000134313	ENST00000471685	retained_intron	KNOWN	None	29508	None	None	8873739	8877419	-1	None	ARMS
2	KIDINS220	ENSG00000134313	ENST00000459813	protein_coding	PUTATIVE	None	29508	456	151	8886587	8910837	-1	None	ARMS
2	KIDINS220	ENSG00000134313	ENST00000319688	protein_coding	KNOWN	None	29508	3096	1031	8897324	8977730	-1	None	ARMS
2	KIDINS220	ENSG00000134313	ENST00000474782	retained_intron	KNOWN	None	29508	None	None	8930114	8934446	-1	None	ARMS
2	KIDINS220	ENSG00000134313	ENST00000471275	retained_intron	KNOWN	None	29508	None	None	8940337	8946508	-1	None	ARMS
2	KIDINS220	ENSG00000134313	ENST00000496725	retained_intron	KNOWN	None	29508	None	None	8966832	8977743	-1	None	ARMS
2	KIDINS220	ENSG00000134313	ENST00000427284	protein_coding	KNOWN	None	29508	5259	1752	8868987	8977755	-1	None	ARMS
2	KIDINS220	ENSG00000134313	ENST00000418530	protein_coding	KNOWN	None	29508	5019	1672	8868987	8977755	-1	None	ARMS
2	DNAH7	ENSG00000118997	ENST00000409063	protein_coding	KNOWN	None	18661	1524	507	196602427	196660603	-1	None	KIAA0944
2	DNAH7	ENSG00000118997	ENST00000312428	protein_coding	KNOWN	CCDS42794	18661	12075	4024	196602427	196933536	-1	None	KIAA0944
2	DNAH7	ENSG00000118997	ENST00000484183	processed_transcript	PUTATIVE	None	18661	None	None	196602481	196605855	-1	None	KIAA0944
2	DNAH7	ENSG00000118997	ENST00000438565	protein_coding	NOVEL	None	18661	171	56	196602721	196620922	-1	None	KIAA0944
2	DNAH7	ENSG00000118997	ENST00000493844	retained_intron	KNOWN	None	18661	None	None	196682422	196699153	-1	None	KIAA0944
2	DNAH7	ENSG00000118997	ENST00000475293	retained_intron	KNOWN	None	18661	None	None	196757203	196770486	-1	None	KIAA0944
2	DNAH7	ENSG00000118997	ENST00000410072	protein_coding	KNOWN	None	18661	1506	501	196863484	196933536	-1	None	KIAA0944
2	DNAH7	ENSG00000118997	ENST00000427816	protein_coding	PUTATIVE	None	18661	363	120	196892732	196933211	-1	None	KIAA0944
1	SHC1	ENSG00000160691	ENST00000368445	protein_coding	KNOWN	CCDS30881	10840	1752	583	154934774	154943217	-1	SHC	p66
1	SHC1	ENSG00000160691	ENST00000448116	protein_coding	NOVEL	CCDS44233	10840	1755	584	154934774	154943223	-1	SHC	p66
1	SHC1	ENSG00000160691	ENST00000368449	protein_coding	NOVEL	None	10840	1065	354	154934774	154943223	-1	SHC	p66
1	SHC1	ENSG00000160691	ENST00000368453	protein_coding	KNOWN	CCDS1076	10840	1425	474	154934774	154946852	-1	SHC	p66
1	SHC1	ENSG00000160691	ENST00000368450	protein_coding	KNOWN	CCDS44234	10840	1422	473	154934774	154946852	-1	SHC	p66
1	SHC1	ENSG00000160691	ENST00000490667	processed_transcript	KNOWN	None	10840	None	None	154935805	154938238	-1	SHC	p66
1	SHC1	ENSG00000160691	ENST00000444664	protein_coding	KNOWN	None	10840	892	296	154936153	154938966	-1	SHC	p66
1	SHC1	ENSG00000160691	ENST00000414115	protein_coding	KNOWN	None	10840	600	199	154938468	154941369	-1	SHC	p66
1	SHC1	ENSG00000160691	ENST00000444179	protein_coding	KNOWN	None	10840	389	128	154938901	154941350	-1	SHC	p66
1	SHC1	ENSG00000160691	ENST00000412170	protein_coding	KNOWN	None	10840	600	199	154940146	154946812	-1	SHC	p66
1	SHC1	ENSG00000160691	ENST00000366442	protein_coding	KNOWN	None	10840	413	136	154940978	154946871	-1	SHC	p66
1	SHC1	ENSG00000160691	ENST00000606391	protein_coding	KNOWN	None	10840	1155	384	154934775	154943002	-1	SHC	p66
10	ANKRD30A	ENSG00000148513	ENST00000374660	protein_coding	PUTATIVE	None	17234	4383	1460	37414785	37521495	1	None	NY-BR-1
10	ANKRD30A	ENSG00000148513	ENST00000602533	protein_coding	KNOWN	None	17234	4026	1341	37414785	37673039	1	None	NY-BR-1
10	ANKRD30A	ENSG00000148513	ENST00000475522	processed_transcript	KNOWN	None	17234	None	None	37473370	37482136	1	None	NY-BR-1
10	ANKRD30A	ENSG00000148513	ENST00000361713	protein_coding	KNOWN	CCDS7193	17234	4026	1341	37414785	37521495	1	None	NY-BR-1
6	TIAM2	ENSG00000146426	ENST00000461783	protein_coding	KNOWN	CCDS34558	11806	5106	1701	155153831	155578857	1	None	STEF
6	TIAM2	ENSG00000146426	ENST00000535064	processed_transcript	KNOWN	None	11806	None	None	155154479	155282613	1	None	STEF
6	TIAM2	ENSG00000146426	ENST00000460692	processed_transcript	KNOWN	None	11806	None	None	155154489	155230002	1	None	STEF
6	TIAM2	ENSG00000146426	ENST00000449545	processed_transcript	KNOWN	None	11806	None	None	155184145	155230000	1	None	STEF
6	TIAM2	ENSG00000146426	ENST00000545347	protein_coding	KNOWN	None	11806	159	52	155316488	155450516	1	None	STEF
6	TIAM2	ENSG00000146426	ENST00000538270	protein_coding	KNOWN	None	11806	256	84	155334780	155450613	1	None	STEF
6	TIAM2	ENSG00000146426	ENST00000535231	protein_coding	KNOWN	None	11806	161	52	155334898	155450518	1	None	STEF
6	TIAM2	ENSG00000146426	ENST00000528535	protein_coding	KNOWN	None	11806	4101	1366	155335056	155573119	1	None	STEF
6	TIAM2	ENSG00000146426	ENST00000431620	processed_transcript	KNOWN	None	11806	None	None	155335072	155411513	1	None	STEF
6	TIAM2	ENSG00000146426	ENST00000535583	protein_coding	KNOWN	None	11806	587	194	155443050	155450944	1	None	STEF
6	TIAM2	ENSG00000146426	ENST00000360366	protein_coding	NOVEL	None	11806	5178	1725	155450306	155578796	1	None	STEF
6	TIAM2	ENSG00000146426	ENST00000529824	protein_coding	NOVEL	None	11806	5193	1730	155450358	155578324	1	None	STEF
6	TIAM2	ENSG00000146426	ENST00000456877	protein_coding	KNOWN	None	11806	3042	1013	155470243	155578334	1	None	STEF
6	TIAM2	ENSG00000146426	ENST00000528391	protein_coding	NOVEL	None	11806	3138	1045	155470255	155578324	1	None	STEF
6	TIAM2	ENSG00000146426	ENST00000543712	nonsense_mediated_decay	KNOWN	None	11806	194	63	155504449	155566770	1	None	STEF
6	TIAM2	ENSG00000146426	ENST00000539296	processed_transcript	KNOWN	None	11806	None	None	155532360	155554037	1	None	STEF
6	TIAM2	ENSG00000146426	ENST00000275246	protein_coding	KNOWN	CCDS34559	11806	1881	626	155537771	155578354	1	None	STEF
6	TIAM2	ENSG00000146426	ENST00000546145	retained_intron	KNOWN	None	11806	None	None	155538100	155565964	1	None	STEF
6	TIAM2	ENSG00000146426	ENST00000462408	protein_coding	PUTATIVE	None	11806	469	155	155538100	155569136	1	None	STEF
6	TIAM2	ENSG00000146426	ENST00000537845	retained_intron	KNOWN	None	11806	None	None	155574053	155577820	1	None	STEF
6	TIAM2	ENSG00000146426	ENST00000456144	protein_coding	KNOWN	None	11806	5193	1730	155411423	155578857	1	None	STEF
6	TIAM2	ENSG00000146426	ENST00000318981	protein_coding	KNOWN	CCDS34558	11806	5106	1701	155411423	155578857	1	None	STEF
6	TIAM2	ENSG00000146426	ENST00000367174	protein_coding	KNOWN	None	11806	3234	1077	155411423	155578857	1	None	STEF
1	ZYG11A	ENSG00000203995	ENST00000371532	protein_coding	KNOWN	None	32058	1254	417	53308183	53360670	1	None	ZYG11
1	ZYG11A	ENSG00000203995	ENST00000371528	protein_coding	KNOWN	CCDS44148	32058	2280	759	53308408	53360670	1	None	ZYG11
17	TP53	ENSG00000141510	ENST00000413465	protein_coding	PUTATIVE	None	11998	858	285	7565097	7579912	-1	None	p53, LFS1
17	TP53	ENSG00000141510	ENST00000359597	protein_coding	PUTATIVE	None	11998	1032	343	7569404	7579912	-1	None	p53, LFS1
17	TP53	ENSG00000141510	ENST00000504290	retained_intron	KNOWN	None	11998	None	None	7571720	7578811	-1	None	p53, LFS1
17	TP53	ENSG00000141510	ENST00000510385	retained_intron	KNOWN	None	11998	None	None	7571720	7578811	-1	None	p53, LFS1
17	TP53	ENSG00000141510	ENST00000504937	retained_intron	KNOWN	None	11998	None	None	7571720	7578811	-1	None	p53, LFS1
17	TP53	ENSG00000141510	ENST00000269305	protein_coding	KNOWN	CCDS11118	11998	1182	393	7571720	7590856	-1	None	p53, LFS1
17	TP53	ENSG00000141510	ENST00000455263	protein_coding	KNOWN	CCDS45605	11998	1041	346	7571722	7590799	-1	None	p53, LFS1
17	TP53	ENSG00000141510	ENST00000420246	protein_coding	KNOWN	CCDS45606	11998	1026	341	7571722	7590799	-1	None	p53, LFS1
17	TP53	ENSG00000141510	ENST00000445888	protein_coding	KNOWN	CCDS11118	11998	1182	393	7571739	7590805	-1	None	p53, LFS1
17	TP53	ENSG00000141510	ENST00000576024	protein_coding	PUTATIVE	None	11998	95	30	7572887	7576905	-1	None	p53, LFS1
17	TP53	ENSG00000141510	ENST00000509690	protein_coding	KNOWN	None	11998	597	198	7576853	7590805	-1	None	p53, LFS1
17	TP53	ENSG00000141510	ENST00000514944	protein_coding	NOVEL	None	11998	467	154	7577535	7590745	-1	None	p53, LFS1
17	TP53	ENSG00000141510	ENST00000574684	processed_transcript	KNOWN	None	11998	None	None	7577572	7578437	-1	None	p53, LFS1
17	TP53	ENSG00000141510	ENST00000505014	retained_intron	KNOWN	None	11998	None	None	7577844	7590805	-1	None	p53, LFS1
17	TP53	ENSG00000141510	ENST00000508793	protein_coding	KNOWN	None	11998	496	164	7578434	7580752	-1	None	p53, LFS1
17	TP53	ENSG00000141510	ENST00000604348	protein_coding	NOVEL	None	11998	429	142	7578480	7590805	-1	None	p53, LFS1
17	TP53	ENSG00000141510	ENST00000503591	protein_coding	KNOWN	None	11998	383	126	7578547	7590745	-1	None	p53, LFS1
17	SIRT7	ENSG00000187531	ENST00000574992	retained_intron	KNOWN	None	14935	None	None	79869815	79874328	-1	None	None
17	SIRT7	ENSG00000187531	ENST00000572976	retained_intron	KNOWN	None	14935	None	None	79869815	79875029	-1	None	None
17	SIRT7	ENSG00000187531	ENST00000571832	retained_intron	KNOWN	None	14935	None	None	79869815	79876028	-1	None	None
17	SIRT7	ENSG00000187531	ENST00000536038	retained_intron	KNOWN	None	14935	None	None	79869815	79876052	-1	None	None
17	SIRT7	ENSG00000187531	ENST00000328666	protein_coding	KNOWN	CCDS11792	14935	1203	400	79869815	79876070	-1	None	None
17	SIRT7	ENSG00000187531	ENST00000574153	retained_intron	KNOWN	None	14935	None	None	79871453	79872126	-1	None	None
17	SIRT7	ENSG00000187531	ENST00000576156	retained_intron	KNOWN	None	14935	None	None	79871650	79872567	-1	None	None
17	SIRT7	ENSG00000187531	ENST00000571233	retained_intron	KNOWN	None	14935	None	None	79871928	79872602	-1	None	None
17	SIRT7	ENSG00000187531	ENST00000572902	protein_coding	PUTATIVE	None	14935	450	149	79871963	79879199	-1	None	None
17	SIRT7	ENSG00000187531	ENST00000572350	retained_intron	KNOWN	None	14935	None	None	79872011	79875690	-1	None	None
17	SIRT7	ENSG00000187531	ENST00000577065	retained_intron	KNOWN	None	14935	None	None	79872069	79875656	-1	None	None
17	SIRT7	ENSG00000187531	ENST00000574495	retained_intron	KNOWN	None	14935	None	None	79872170	79876038	-1	None	None
17	SIRT7	ENSG00000187531	ENST00000573367	retained_intron	KNOWN	None	14935	None	None	79872244	79876008	-1	None	None
17	SIRT7	ENSG00000187531	ENST00000571915	retained_intron	KNOWN	None	14935	None	None	79872265	79873847	-1	None	None
17	SIRT7	ENSG00000187531	ENST00000575360	nonsense_mediated_decay	KNOWN	None	14935	351	116	79872319	79876012	-1	None	None
17	SIRT7	ENSG00000187531	ENST00000575244	retained_intron	KNOWN	None	14935	None	None	79872842	79873802	-1	None	None
17	SIRT7	ENSG00000187531	ENST00000570367	retained_intron	KNOWN	None	14935	None	None	79873132	79876028	-1	None	None
17	SIRT7	ENSG00000187531	ENST00000572671	retained_intron	KNOWN	None	14935	None	None	79873212	79876008	-1	None	None
17	SIRT7	ENSG00000187531	ENST00000571213	retained_intron	KNOWN	None	14935	None	None	79875239	79875992	-1	None	None
17	SIRT7	ENSG00000187531	ENST00000573576	retained_intron	KNOWN	None	14935	None	None	79875241	79876024	-1	None	None
17	SIRT7	ENSG00000187531	ENST00000574915	retained_intron	KNOWN	None	14935	None	None	79875644	79876029	-1	None	None
1	MRPL55	ENSG00000162910	ENST00000465268	processed_transcript	KNOWN	None	16686	None	None	228294380	228295976	-1	None	None
1	MRPL55	ENSG00000162910	ENST00000459783	processed_transcript	KNOWN	None	16686	None	None	228294380	228296026	-1	None	None
1	MRPL55	ENSG00000162910	ENST00000366732	protein_coding	KNOWN	None	16686	378	125	228294380	228296343	-1	None	None
1	MRPL55	ENSG00000162910	ENST00000366733	protein_coding	KNOWN	CCDS1567	16686	387	128	228294380	228296445	-1	None	None
1	MRPL55	ENSG00000162910	ENST00000366734	protein_coding	KNOWN	CCDS1567	16686	387	128	228294380	228296598	-1	None	None
1	MRPL55	ENSG00000162910	ENST00000366735	protein_coding	KNOWN	CCDS1567	16686	387	128	228294380	228296705	-1	None	None
1	MRPL55	ENSG00000162910	ENST00000366736	protein_coding	KNOWN	CCDS1567	16686	387	128	228294380	228296717	-1	None	None
1	MRPL55	ENSG00000162910	ENST00000366738	protein_coding	KNOWN	CCDS44325	16686	495	164	228294380	228296726	-1	None	None
1	MRPL55	ENSG00000162910	ENST00000366741	protein_coding	KNOWN	CCDS1567	16686	387	128	228294380	228296732	-1	None	None
1	MRPL55	ENSG00000162910	ENST00000366740	protein_coding	KNOWN	CCDS1567	16686	387	128	228294380	228296732	-1	None	None
1	MRPL55	ENSG00000162910	ENST00000366739	protein_coding	KNOWN	CCDS1567	16686	387	128	228294380	228296732	-1	None	None
1	MRPL55	ENSG00000162910	ENST00000366742	protein_coding	KNOWN	CCDS1567	16686	387	128	228294380	228296756	-1	None	None
1	MRPL55	ENSG00000162910	ENST00000366744	protein_coding	KNOWN	CCDS1567	16686	387	128	228294380	228296981	-1	None	None
1	MRPL55	ENSG00000162910	ENST00000348259	protein_coding	KNOWN	CCDS1567	16686	387	128	228294380	228296984	-1	None	None
1	MRPL55	ENSG00000162910	ENST00000366747	protein_coding	KNOWN	CCDS1567	16686	387	128	228294380	228297000	-1	None	None
1	MRPL55	ENSG00000162910	ENST00000366746	protein_coding	KNOWN	CCDS1567	16686	387	128	228294380	228297000	-1	None	None
1	MRPL55	ENSG00000162910	ENST00000465397	processed_transcript	KNOWN	None	16686	None	None	228294380	228297000	-1	None	None
1	MRPL55	ENSG00000162910	ENST00000295008	protein_coding	KNOWN	CCDS1567	16686	387	128	228294380	228297000	-1	None	None
1	MRPL55	ENSG00000162910	ENST00000336520	protein_coding	KNOWN	CCDS1567	16686	387	128	228294380	228297000	-1	None	None
1	MRPL55	ENSG00000162910	ENST00000336300	protein_coding	KNOWN	CCDS1567	16686	387	128	228294380	228297007	-1	None	None
1	MRPL55	ENSG00000162910	ENST00000457264	protein_coding	KNOWN	None	16686	229	75	228295368	228297001	-1	None	None
1	MRPL55	ENSG00000162910	ENST00000463898	processed_transcript	PUTATIVE	None	16686	None	None	228295468	228296717	-1	None	None
1	MRPL55	ENSG00000162910	ENST00000497758	processed_transcript	KNOWN	None	16686	None	None	228295486	228296274	-1	None	None
1	MRPL55	ENSG00000162910	ENST00000464148	processed_transcript	KNOWN	None	16686	None	None	228295525	228297003	-1	None	None
1	MRPL55	ENSG00000162910	ENST00000475832	processed_transcript	KNOWN	None	16686	None	None	228295760	228296732	-1	None	None
1	MRPL55	ENSG00000162910	ENST00000473066	processed_transcript	PUTATIVE	None	16686	None	None	228295815	228296991	-1	None	None
1	MRPL55	ENSG00000162910	ENST00000492170	processed_transcript	KNOWN	None	16686	None	None	228295927	228296997	-1	None	None
1	MRPL55	ENSG00000162910	ENST00000476267	processed_transcript	PUTATIVE	None	16686	None	None	228295933	228296737	-1	None	None
1	MRPL55	ENSG00000162910	ENST00000495434	processed_transcript	KNOWN	None	16686	None	None	228295936	228296996	-1	None	None
1	MRPL55	ENSG00000162910	ENST00000483159	processed_transcript	PUTATIVE	None	16686	None	None	228295948	228296979	-1	None	None
1	MRPL55	ENSG00000162910	ENST00000495899	processed_transcript	PUTATIVE	None	16686	None	None	228295963	228296991	-1	None	None
1	MRPL55	ENSG00000162910	ENST00000489430	processed_transcript	KNOWN	None	16686	None	None	228295991	228296955	-1	None	None
1	MRPL55	ENSG00000162910	ENST00000430433	protein_coding	KNOWN	CCDS44325	16686	495	164	228294381	228297013	-1	None	None
1	MRPL55	ENSG00000162910	ENST00000391867	protein_coding	KNOWN	CCDS1567	16686	387	128	228294381	228297013	-1	None	None
1	MRPL55	ENSG00000162910	ENST00000366731	protein_coding	KNOWN	CCDS44325	16686	495	164	228294389	228297000	-1	None	None
1	MRPL55	ENSG00000162910	ENST00000411464	protein_coding	KNOWN	CCDS1567	16686	387	128	228294389	228297000	-1	None	None
1	ECHDC2	ENSG00000121310	ENST00000371522	protein_coding	KNOWN	CCDS55600	23408	879	292	53361656	53387439	-1	None	FLJ10948
1	ECHDC2	ENSG00000121310	ENST00000460612	retained_intron	KNOWN	None	23408	None	None	53361895	53387434	-1	None	FLJ10948
1	ECHDC2	ENSG00000121310	ENST00000539680	retained_intron	KNOWN	None	23408	None	None	53361897	53367713	-1	None	FLJ10948
1	ECHDC2	ENSG00000121310	ENST00000479183	retained_intron	KNOWN	None	23408	None	None	53361904	53370519	-1	None	FLJ10948
1	ECHDC2	ENSG00000121310	ENST00000543419	processed_transcript	KNOWN	None	23408	None	None	53361904	53377327	-1	None	FLJ10948
1	ECHDC2	ENSG00000121310	ENST00000463923	retained_intron	KNOWN	None	23408	None	None	53361904	53377348	-1	None	FLJ10948
1	ECHDC2	ENSG00000121310	ENST00000371520	nonsense_mediated_decay	KNOWN	None	23408	198	65	53361904	53387375	-1	None	FLJ10948
1	ECHDC2	ENSG00000121310	ENST00000358358	protein_coding	KNOWN	CCDS571	23408	786	261	53361905	53387398	-1	None	FLJ10948
1	ECHDC2	ENSG00000121310	ENST00000498544	retained_intron	KNOWN	None	23408	None	None	53361911	53370844	-1	None	FLJ10948
1	ECHDC2	ENSG00000121310	ENST00000476477	nonsense_mediated_decay	KNOWN	None	23408	147	48	53362075	53392851	-1	None	FLJ10948
1	ECHDC2	ENSG00000121310	ENST00000479593	processed_transcript	KNOWN	None	23408	None	None	53362220	53379602	-1	None	FLJ10948
1	ECHDC2	ENSG00000121310	ENST00000467988	protein_coding	PUTATIVE	None	23408	657	218	53363109	53387390	-1	None	FLJ10948
1	ECHDC2	ENSG00000121310	ENST00000487866	retained_intron	KNOWN	None	23408	None	None	53364846	53378502	-1	None	FLJ10948
1	ECHDC2	ENSG00000121310	ENST00000486170	processed_transcript	KNOWN	None	23408	None	None	53364849	53372773	-1	None	FLJ10948
1	ECHDC2	ENSG00000121310	ENST00000487851	processed_transcript	KNOWN	None	23408	None	None	53370461	53379749	-1	None	FLJ10948
1	ECHDC2	ENSG00000121310	ENST00000488268	retained_intron	KNOWN	None	23408	None	None	53372984	53387204	-1	None	FLJ10948
1	ECHDC2	ENSG00000121310	ENST00000544365	nonsense_mediated_decay	KNOWN	None	23408	150	49	53373120	53392884	-1	None	FLJ10948
1	ECHDC2	ENSG00000121310	ENST00000495920	processed_transcript	KNOWN	None	23408	None	None	53373271	53387386	-1	None	FLJ10948
1	ECHDC2	ENSG00000121310	ENST00000492992	retained_intron	KNOWN	None	23408	None	None	53373511	53377560	-1	None	FLJ10948
1	ECHDC2	ENSG00000121310	ENST00000480312	processed_transcript	KNOWN	None	23408	None	None	53377236	53387187	-1	None	FLJ10948
1	ECHDC2	ENSG00000121310	ENST00000544531	processed_transcript	KNOWN	None	23408	None	None	53377236	53387258	-1	None	FLJ10948
1	ECHDC2	ENSG00000121310	ENST00000493896	retained_intron	KNOWN	None	23408	None	None	53377271	53379016	-1	None	FLJ10948
1	ECHDC2	ENSG00000121310	ENST00000487040	retained_intron	KNOWN	None	23408	None	None	53377272	53377897	-1	None	FLJ10948
1	ECHDC2	ENSG00000121310	ENST00000542552	nonsense_mediated_decay	KNOWN	None	23408	132	43	53379092	53387457	-1	None	FLJ10948
1	ECHDC2	ENSG00000121310	ENST00000474789	retained_intron	KNOWN	None	23408	None	None	53379392	53387393	-1	None	FLJ10948
1	ECHDC2	ENSG00000121310	ENST00000536120	protein_coding	KNOWN	None	23408	741	246	53362075	53392851	-1	None	FLJ10948
1	ECHDC2	ENSG00000121310	ENST00000541281	protein_coding	KNOWN	None	23408	384	127	53371693	53387376	-1	None	FLJ10948
2	STK17B	ENSG00000081320	ENST00000263955	protein_coding	KNOWN	CCDS2315	11396	1119	372	196998290	197036299	-1	None	DRAK2
2	STK17B	ENSG00000081320	ENST00000409228	protein_coding	KNOWN	CCDS2315	11396	1119	372	197002171	197041227	-1	None	DRAK2
2	STK17B	ENSG00000081320	ENST00000606789	protein_coding	PUTATIVE	None	11396	210	69	197020810	197021371	-1	None	DRAK2
2	STK17B	ENSG00000081320	ENST00000420683	protein_coding	KNOWN	None	11396	202	66	197021296	197041051	-1	None	DRAK2
2	STK17B	ENSG00000081320	ENST00000449152	protein_coding	KNOWN	None	11396	20	5	197028088	197035724	-1	None	DRAK2
1	CKS1B	ENSG00000173207	ENST00000368439	protein_coding	KNOWN	None	19083	192	63	154947129	154951724	1	None	ckshs1, CKS1
1	CKS1B	ENSG00000173207	ENST00000368436	protein_coding	KNOWN	None	19083	204	67	154947159	154951160	1	None	ckshs1, CKS1
1	CKS1B	ENSG00000173207	ENST00000308987	protein_coding	KNOWN	CCDS1077	19083	240	79	154947175	154951725	1	None	ckshs1, CKS1
1	CKS1B	ENSG00000173207	ENST00000477676	processed_transcript	KNOWN	None	19083	None	None	154947508	154951601	1	None	ckshs1, CKS1
1	CKS1B	ENSG00000173207	ENST00000474215	processed_transcript	KNOWN	None	19083	None	None	154948007	154951717	1	None	ckshs1, CKS1
1	CKS1B	ENSG00000173207	ENST00000473344	processed_transcript	KNOWN	None	19083	None	None	154948015	154951392	1	None	ckshs1, CKS1
1	CKS1B	ENSG00000173207	ENST00000471245	processed_transcript	KNOWN	None	19083	None	None	154949775	154951550	1	None	ckshs1, CKS1
7	PGAM2	ENSG00000164708	ENST00000297283	protein_coding	KNOWN	CCDS34624	8889	762	253	44102326	44105186	-1	None	PGAM-M
6	CEP57L1	ENSG00000183137	ENST00000521277	protein_coding	PUTATIVE	None	21561	708	235	109416313	109479691	1	C6orf182	bA487F23.2, MGC21731
6	CEP57L1	ENSG00000183137	ENST00000521737	processed_transcript	KNOWN	None	21561	None	None	109416356	109461668	1	C6orf182	bA487F23.2, MGC21731
6	CEP57L1	ENSG00000183137	ENST00000517392	protein_coding	KNOWN	CCDS5071	21561	1383	460	109416356	109485135	1	C6orf182	bA487F23.2, MGC21731
6	CEP57L1	ENSG00000183137	ENST00000519286	protein_coding	KNOWN	None	21561	618	205	109416366	109476471	1	C6orf182	bA487F23.2, MGC21731
6	CEP57L1	ENSG00000183137	ENST00000518329	protein_coding	KNOWN	None	21561	160	52	109416385	109466584	1	C6orf182	bA487F23.2, MGC21731
6	CEP57L1	ENSG00000183137	ENST00000522461	protein_coding	KNOWN	None	21561	86	27	109416388	109466510	1	C6orf182	bA487F23.2, MGC21731
6	CEP57L1	ENSG00000183137	ENST00000518853	protein_coding	KNOWN	None	21561	690	229	109416391	109477026	1	C6orf182	bA487F23.2, MGC21731
6	CEP57L1	ENSG00000183137	ENST00000521522	protein_coding	NOVEL	None	21561	1224	407	109416684	109485110	1	C6orf182	bA487F23.2, MGC21731
6	CEP57L1	ENSG00000183137	ENST00000524064	protein_coding	KNOWN	None	21561	585	194	109416699	109476438	1	C6orf182	bA487F23.2, MGC21731
6	CEP57L1	ENSG00000183137	ENST00000522608	protein_coding	KNOWN	None	21561	339	112	109416708	109468139	1	C6orf182	bA487F23.2, MGC21731
6	CEP57L1	ENSG00000183137	ENST00000521503	protein_coding	KNOWN	None	21561	336	111	109416713	109468136	1	C6orf182	bA487F23.2, MGC21731
6	CEP57L1	ENSG00000183137	ENST00000519407	protein_coding	PUTATIVE	None	21561	237	78	109416713	109476504	1	C6orf182	bA487F23.2, MGC21731
6	CEP57L1	ENSG00000183137	ENST00000519095	protein_coding	PUTATIVE	None	21561	756	251	109416715	109477177	1	C6orf182	bA487F23.2, MGC21731
6	CEP57L1	ENSG00000183137	ENST00000520610	nonsense_mediated_decay	KNOWN	None	21561	390	129	109416722	109481862	1	C6orf182	bA487F23.2, MGC21731
6	CEP57L1	ENSG00000183137	ENST00000368968	protein_coding	PUTATIVE	None	21561	1176	391	109416723	109484366	1	C6orf182	bA487F23.2, MGC21731
6	CEP57L1	ENSG00000183137	ENST00000522490	protein_coding	PUTATIVE	None	21561	499	165	109416727	109480511	1	C6orf182	bA487F23.2, MGC21731
6	CEP57L1	ENSG00000183137	ENST00000523209	protein_coding	PUTATIVE	None	21561	307	101	109416729	109477057	1	C6orf182	bA487F23.2, MGC21731
6	CEP57L1	ENSG00000183137	ENST00000368970	protein_coding	NOVEL	None	21561	1434	477	109416732	109484369	1	C6orf182	bA487F23.2, MGC21731
6	CEP57L1	ENSG00000183137	ENST00000520883	protein_coding	NOVEL	None	21561	1083	360	109416747	109485110	1	C6orf182	bA487F23.2, MGC21731
6	CEP57L1	ENSG00000183137	ENST00000520761	retained_intron	KNOWN	None	21561	None	None	109416754	109480649	1	C6orf182	bA487F23.2, MGC21731
6	CEP57L1	ENSG00000183137	ENST00000523787	protein_coding	PUTATIVE	None	21561	1392	463	109416765	109485106	1	C6orf182	bA487F23.2, MGC21731
6	CEP57L1	ENSG00000183137	ENST00000523174	protein_coding	PUTATIVE	None	21561	519	172	109476994	109481968	1	C6orf182	bA487F23.2, MGC21731
6	CEP57L1	ENSG00000183137	ENST00000407272	protein_coding	KNOWN	CCDS5071	21561	1383	460	109416356	109485113	1	C6orf182	bA487F23.2, MGC21731
6	CEP57L1	ENSG00000183137	ENST00000336977	protein_coding	KNOWN	None	21561	1083	360	109416356	109485113	1	C6orf182	bA487F23.2, MGC21731
6	CEP57L1	ENSG00000183137	ENST00000359793	protein_coding	KNOWN	CCDS5071	21561	1383	460	109450507	109485113	1	C6orf182	bA487F23.2, MGC21731
16	CHTF18	ENSG00000127586	ENST00000464728	retained_intron	KNOWN	None	18435	None	None	838622	848063	1	C16orf41	CHL12, C321D2.4, Ctf18
16	CHTF18	ENSG00000127586	ENST00000262315	protein_coding	KNOWN	CCDS45371	18435	2928	975	838622	848074	1	C16orf41	CHL12, C321D2.4, Ctf18
16	CHTF18	ENSG00000127586	ENST00000570058	processed_transcript	KNOWN	None	18435	None	None	838624	839340	1	C16orf41	CHL12, C321D2.4, Ctf18
16	CHTF18	ENSG00000127586	ENST00000563545	nonsense_mediated_decay	KNOWN	None	18435	312	103	838624	839636	1	C16orf41	CHL12, C321D2.4, Ctf18
16	CHTF18	ENSG00000127586	ENST00000479976	retained_intron	KNOWN	None	18435	None	None	838624	840805	1	C16orf41	CHL12, C321D2.4, Ctf18
16	CHTF18	ENSG00000127586	ENST00000455171	protein_coding	KNOWN	None	18435	3012	1003	838624	848074	1	C16orf41	CHL12, C321D2.4, Ctf18
16	CHTF18	ENSG00000127586	ENST00000440239	nonsense_mediated_decay	KNOWN	None	18435	1371	456	838625	843190	1	C16orf41	CHL12, C321D2.4, Ctf18
16	CHTF18	ENSG00000127586	ENST00000471202	retained_intron	KNOWN	None	18435	None	None	838635	848072	1	C16orf41	CHL12, C321D2.4, Ctf18
16	CHTF18	ENSG00000127586	ENST00000491530	processed_transcript	KNOWN	None	18435	None	None	839214	841370	1	C16orf41	CHL12, C321D2.4, Ctf18
16	CHTF18	ENSG00000127586	ENST00000426047	protein_coding	NOVEL	None	18435	790	262	839313	841370	1	C16orf41	CHL12, C321D2.4, Ctf18
16	CHTF18	ENSG00000127586	ENST00000484349	retained_intron	KNOWN	None	18435	None	None	839319	840549	1	C16orf41	CHL12, C321D2.4, Ctf18
16	CHTF18	ENSG00000127586	ENST00000569270	nonsense_mediated_decay	KNOWN	None	18435	245	80	840251	843006	1	C16orf41	CHL12, C321D2.4, Ctf18
16	CHTF18	ENSG00000127586	ENST00000567620	retained_intron	KNOWN	None	18435	None	None	840699	841879	1	C16orf41	CHL12, C321D2.4, Ctf18
16	CHTF18	ENSG00000127586	ENST00000565787	retained_intron	KNOWN	None	18435	None	None	841137	842814	1	C16orf41	CHL12, C321D2.4, Ctf18
16	CHTF18	ENSG00000127586	ENST00000461268	processed_transcript	KNOWN	None	18435	None	None	842524	845720	1	C16orf41	CHL12, C321D2.4, Ctf18
16	CHTF18	ENSG00000127586	ENST00000493715	processed_transcript	KNOWN	None	18435	None	None	844702	846758	1	C16orf41	CHL12, C321D2.4, Ctf18
16	CHTF18	ENSG00000127586	ENST00000498439	retained_intron	KNOWN	None	18435	None	None	846615	848074	1	C16orf41	CHL12, C321D2.4, Ctf18
16	CHTF18	ENSG00000127586	ENST00000564940	processed_transcript	PUTATIVE	None	18435	None	None	848041	850737	1	C16orf41	CHL12, C321D2.4, Ctf18
16	CHTF18	ENSG00000127586	ENST00000317063	protein_coding	KNOWN	None	18435	3555	1184	838046	848072	1	C16orf41	CHL12, C321D2.4, Ctf18
3	THPO	ENSG00000090534	ENST00000204615	protein_coding	KNOWN	CCDS3265	11795	1062	353	184089723	184095932	-1	MGDF	TPO, MPLLG
3	THPO	ENSG00000090534	ENST00000445696	protein_coding	KNOWN	CCDS54693	11795	1050	349	184090057	184095928	-1	MGDF	TPO, MPLLG
3	THPO	ENSG00000090534	ENST00000421442	protein_coding	PUTATIVE	None	11795	861	286	184090115	184094047	-1	MGDF	TPO, MPLLG
3	THPO	ENSG00000090534	ENST00000477594	processed_transcript	PUTATIVE	None	11795	None	None	184090686	184091225	-1	MGDF	TPO, MPLLG
X	MBNL3	ENSG00000076770	ENST00000370857	protein_coding	KNOWN	None	20564	1029	342	131506029	131573705	-1	None	CHCR, FLJ11316, MBLX39, MBXL
X	MBNL3	ENSG00000076770	ENST00000370853	protein_coding	KNOWN	CCDS14633	20564	1065	354	131512177	131573718	-1	None	CHCR, FLJ11316, MBLX39, MBXL
X	MBNL3	ENSG00000076770	ENST00000370849	protein_coding	KNOWN	CCDS55494	20564	915	304	131513231	131547603	-1	None	CHCR, FLJ11316, MBLX39, MBXL
X	MBNL3	ENSG00000076770	ENST00000370839	protein_coding	KNOWN	CCDS14634	20564	1005	334	131513232	131573718	-1	None	CHCR, FLJ11316, MBLX39, MBXL
X	MBNL3	ENSG00000076770	ENST00000370844	protein_coding	KNOWN	CCDS55492	20564	777	258	131513232	131623996	-1	None	CHCR, FLJ11316, MBLX39, MBXL
X	MBNL3	ENSG00000076770	ENST00000442191	protein_coding	KNOWN	None	20564	453	150	131513336	131524988	-1	None	CHCR, FLJ11316, MBLX39, MBXL
X	MBNL3	ENSG00000076770	ENST00000465964	processed_transcript	KNOWN	None	20564	None	None	131513543	131520830	-1	None	CHCR, FLJ11316, MBLX39, MBXL
X	MBNL3	ENSG00000076770	ENST00000436215	protein_coding	KNOWN	None	20564	727	241	131516244	131623894	-1	None	CHCR, FLJ11316, MBLX39, MBXL
X	MBNL3	ENSG00000076770	ENST00000421707	protein_coding	KNOWN	None	20564	670	222	131518691	131623043	-1	None	CHCR, FLJ11316, MBLX39, MBXL
X	MBNL3	ENSG00000076770	ENST00000473364	processed_transcript	KNOWN	None	20564	None	None	131524882	131545410	-1	None	CHCR, FLJ11316, MBLX39, MBXL
X	MBNL3	ENSG00000076770	ENST00000538204	protein_coding	KNOWN	CCDS55493	20564	879	292	131503345	131547603	-1	None	CHCR, FLJ11316, MBLX39, MBXL
X	MBNL3	ENSG00000076770	ENST00000394311	protein_coding	KNOWN	CCDS55492	20564	777	258	131503345	131547636	-1	None	CHCR, FLJ11316, MBLX39, MBXL
7	UNC93B2	ENSG00000155070	ENST00000285383	processed_pseudogene	KNOWN	None	13482	None	None	6895116	6899461	-1	None	UNC93B2P
7	UNC93B2	ENSG00000155070	ENST00000429073	processed_pseudogene	KNOWN	None	13482	None	None	6895168	6899458	-1	None	UNC93B2P
11	NRGN	ENSG00000154146	ENST00000412681	protein_coding	PUTATIVE	CCDS8451	8000	237	78	124609829	124617102	1	None	RC3
11	NRGN	ENSG00000154146	ENST00000526916	protein_coding	KNOWN	CCDS8451	8000	237	78	124609841	124617869	1	None	RC3
11	NRGN	ENSG00000154146	ENST00000284292	protein_coding	KNOWN	CCDS8451	8000	237	78	124609829	124617102	1	None	RC3
15	MYO5A	ENSG00000197535	ENST00000399231	protein_coding	KNOWN	CCDS42037	7602	5568	1855	52599480	52821247	-1	MYH12	MYO5, GS1, MYR12
15	MYO5A	ENSG00000197535	ENST00000356338	protein_coding	KNOWN	CCDS45262	7602	5487	1828	52599483	52821077	-1	MYH12	MYO5, GS1, MYR12
15	MYO5A	ENSG00000197535	ENST00000553916	protein_coding	NOVEL	None	7602	5562	1853	52605501	52821038	-1	MYH12	MYO5, GS1, MYR12
15	MYO5A	ENSG00000197535	ENST00000399229	protein_coding	NOVEL	None	7602	1758	585	52605893	52643579	-1	MYH12	MYO5, GS1, MYR12
15	MYO5A	ENSG00000197535	ENST00000465290	retained_intron	KNOWN	None	7602	None	None	52613666	52616093	-1	MYH12	MYO5, GS1, MYR12
15	MYO5A	ENSG00000197535	ENST00000399228	protein_coding	NOVEL	None	7602	684	227	52630007	52643678	-1	MYH12	MYO5, GS1, MYR12
15	MYO5A	ENSG00000197535	ENST00000568914	protein_coding	NOVEL	None	7602	693	230	52630007	52643678	-1	MYH12	MYO5, GS1, MYR12
15	MYO5A	ENSG00000197535	ENST00000556196	nonsense_mediated_decay	KNOWN	None	7602	144	47	52659282	52821077	-1	MYH12	MYO5, GS1, MYR12
15	MYO5A	ENSG00000197535	ENST00000469611	retained_intron	KNOWN	None	7602	None	None	52679947	52688582	-1	MYH12	MYO5, GS1, MYR12
15	MYO5A	ENSG00000197535	ENST00000561810	retained_intron	KNOWN	None	7602	None	None	52708202	52718164	-1	MYH12	MYO5, GS1, MYR12
15	MYO5A	ENSG00000197535	ENST00000399233	protein_coding	KNOWN	None	7602	5559	1852	52599485	52821247	-1	MYH12	MYO5, GS1, MYR12
15	MYO5A	ENSG00000197535	ENST00000358212	protein_coding	KNOWN	None	7602	5643	1880	52599485	52727867	-1	MYH12	MYO5, GS1, MYR12
19	CLEC4M	ENSG00000104938	ENST00000327325	protein_coding	KNOWN	CCDS12187	13523	1200	399	7828035	7834491	1	CD209L, CD299	HP10347, DC-SIGNR, LSIGN, DCSIGNR, DC-SIGN2
19	CLEC4M	ENSG00000104938	ENST00000596363	protein_coding	KNOWN	CCDS59348	13523	891	296	7828103	7834490	1	CD209L, CD299	HP10347, DC-SIGNR, LSIGN, DCSIGNR, DC-SIGN2
19	CLEC4M	ENSG00000104938	ENST00000595751	protein_coding	PUTATIVE	None	13523	847	281	7828130	7831688	1	CD209L, CD299	HP10347, DC-SIGNR, LSIGN, DCSIGNR, DC-SIGN2
19	CLEC4M	ENSG00000104938	ENST00000601089	retained_intron	KNOWN	None	13523	None	None	7828148	7833461	1	CD209L, CD299	HP10347, DC-SIGNR, LSIGN, DCSIGNR, DC-SIGN2
19	CLEC4M	ENSG00000104938	ENST00000596707	protein_coding	KNOWN	None	13523	999	332	7828153	7833874	1	CD209L, CD299	HP10347, DC-SIGNR, LSIGN, DCSIGNR, DC-SIGN2
19	CLEC4M	ENSG00000104938	ENST00000597522	protein_coding	KNOWN	CCDS59346	13523	699	232	7828153	7833874	1	CD209L, CD299	HP10347, DC-SIGNR, LSIGN, DCSIGNR, DC-SIGN2
19	CLEC4M	ENSG00000104938	ENST00000595496	protein_coding	KNOWN	CCDS59347	13523	792	263	7828153	7833874	1	CD209L, CD299	HP10347, DC-SIGNR, LSIGN, DCSIGNR, DC-SIGN2
19	CLEC4M	ENSG00000104938	ENST00000598879	retained_intron	KNOWN	None	13523	None	None	7828153	7833874	1	CD209L, CD299	HP10347, DC-SIGNR, LSIGN, DCSIGNR, DC-SIGN2
19	CLEC4M	ENSG00000104938	ENST00000599333	retained_intron	KNOWN	None	13523	None	None	7828153	7833874	1	CD209L, CD299	HP10347, DC-SIGNR, LSIGN, DCSIGNR, DC-SIGN2
19	CLEC4M	ENSG00000104938	ENST00000602143	retained_intron	KNOWN	None	13523	None	None	7831480	7834004	1	CD209L, CD299	HP10347, DC-SIGNR, LSIGN, DCSIGNR, DC-SIGN2
19	CLEC4M	ENSG00000104938	ENST00000394122	protein_coding	KNOWN	None	13523	1164	387	7828035	7834490	1	CD209L, CD299	HP10347, DC-SIGNR, LSIGN, DCSIGNR, DC-SIGN2
19	CLEC4M	ENSG00000104938	ENST00000248228	protein_coding	KNOWN	None	13523	1134	377	7828035	7834490	1	CD209L, CD299	HP10347, DC-SIGNR, LSIGN, DCSIGNR, DC-SIGN2
19	CLEC4M	ENSG00000104938	ENST00000334806	protein_coding	KNOWN	None	13523	1047	348	7828035	7834490	1	CD209L, CD299	HP10347, DC-SIGNR, LSIGN, DCSIGNR, DC-SIGN2
19	CLEC4M	ENSG00000104938	ENST00000359059	protein_coding	KNOWN	None	13523	999	332	7828035	7834490	1	CD209L, CD299	HP10347, DC-SIGNR, LSIGN, DCSIGNR, DC-SIGN2
19	CLEC4M	ENSG00000104938	ENST00000357361	protein_coding	KNOWN	None	13523	975	324	7828035	7834490	1	CD209L, CD299	HP10347, DC-SIGNR, LSIGN, DCSIGNR, DC-SIGN2
7	OR7E136P	ENSG00000205897	ENST00000496207	processed_pseudogene	KNOWN	None	19557	None	None	6906289	6907303	-1	OR7E147P, OR7E139P	None
7	None	ENSG00000263457	ENST00000583644	miRNA	NOVEL	None	None	None	None	6918176	6918263	-1	None	None
7	None	ENSG00000250561	ENST00000508367	processed_pseudogene	KNOWN	None	None	None	None	6919258	6920209	-1	None	None
7	POLM	ENSG00000122678	ENST00000335195	protein_coding	NOVEL	None	9185	1374	457	44111846	44122063	-1	None	Tdt-N
7	POLM	ENSG00000122678	ENST00000242248	protein_coding	KNOWN	CCDS34625	9185	1485	494	44111846	44122139	-1	None	Tdt-N
7	POLM	ENSG00000122678	ENST00000435068	nonsense_mediated_decay	KNOWN	None	9185	468	155	44111849	44122089	-1	None	Tdt-N
7	POLM	ENSG00000122678	ENST00000395831	protein_coding	NOVEL	None	9185	1527	508	44111855	44122084	-1	None	Tdt-N
7	POLM	ENSG00000122678	ENST00000458246	nonsense_mediated_decay	KNOWN	None	9185	813	270	44111855	44122110	-1	None	Tdt-N
7	POLM	ENSG00000122678	ENST00000430942	nonsense_mediated_decay	KNOWN	None	9185	729	242	44111861	44122113	-1	None	Tdt-N
7	POLM	ENSG00000122678	ENST00000467607	retained_intron	KNOWN	None	9185	None	None	44112817	44113717	-1	None	Tdt-N
7	POLM	ENSG00000122678	ENST00000434229	nonsense_mediated_decay	KNOWN	None	9185	702	233	44113461	44122082	-1	None	Tdt-N
7	POLM	ENSG00000122678	ENST00000492971	processed_transcript	KNOWN	None	9185	None	None	44113740	44116625	-1	None	Tdt-N
7	POLM	ENSG00000122678	ENST00000492605	retained_intron	KNOWN	None	9185	None	None	44115318	44122077	-1	None	Tdt-N
7	POLM	ENSG00000122678	ENST00000418926	nonsense_mediated_decay	KNOWN	None	9185	406	134	44116176	44119523	-1	None	Tdt-N
7	POLM	ENSG00000122678	ENST00000492312	retained_intron	KNOWN	None	9185	None	None	44117950	44122083	-1	None	Tdt-N
7	POLM	ENSG00000122678	ENST00000492321	retained_intron	KNOWN	None	9185	None	None	44118065	44122110	-1	None	Tdt-N
7	POLM	ENSG00000122678	ENST00000497300	retained_intron	KNOWN	None	9185	None	None	44118247	44122076	-1	None	Tdt-N
7	POLM	ENSG00000122678	ENST00000445616	nonsense_mediated_decay	KNOWN	None	9185	507	168	44119170	44122099	-1	None	Tdt-N
7	POLM	ENSG00000122678	ENST00000414235	protein_coding	NOVEL	None	9185	477	158	44119236	44122110	-1	None	Tdt-N
7	POLM	ENSG00000122678	ENST00000452049	protein_coding	NOVEL	None	9185	495	164	44119332	44122129	-1	None	Tdt-N
7	POLM	ENSG00000122678	ENST00000483644	retained_intron	KNOWN	None	9185	None	None	44119414	44122081	-1	None	Tdt-N
7	None	ENSG00000243531	ENST00000490376	processed_pseudogene	KNOWN	None	None	None	None	6940055	6940254	-1	None	None
7	ALG1L5P	ENSG00000226943	ENST00000482043	unprocessed_pseudogene	KNOWN	None	44374	None	None	6963435	6970466	1	None	None
1	FLAD1	ENSG00000160688	ENST00000492620	processed_transcript	KNOWN	None	24671	None	None	154955814	154960608	1	None	PP591, FAD1
1	FLAD1	ENSG00000160688	ENST00000368433	protein_coding	NOVEL	None	24671	1371	456	154955828	154963682	1	None	PP591, FAD1
1	FLAD1	ENSG00000160688	ENST00000315144	protein_coding	NOVEL	CCDS1079	24671	1473	490	154955835	154965587	1	None	PP591, FAD1
1	FLAD1	ENSG00000160688	ENST00000368432	protein_coding	NOVEL	CCDS53371	24671	1341	446	154955841	154965587	1	None	PP591, FAD1
1	FLAD1	ENSG00000160688	ENST00000368431	protein_coding	NOVEL	CCDS53372	24671	885	294	154955843	154961488	1	None	PP591, FAD1
1	FLAD1	ENSG00000160688	ENST00000292180	protein_coding	NOVEL	CCDS1078	24671	1764	587	154955849	154965587	1	None	PP591, FAD1
1	FLAD1	ENSG00000160688	ENST00000487371	processed_transcript	KNOWN	None	24671	None	None	154955907	154960909	1	None	PP591, FAD1
1	FLAD1	ENSG00000160688	ENST00000295530	protein_coding	NOVEL	None	24671	513	170	154960533	154965587	1	None	PP591, FAD1
1	FLAD1	ENSG00000160688	ENST00000368428	protein_coding	PUTATIVE	None	24671	387	128	154961017	154965587	1	None	PP591, FAD1
1	FLAD1	ENSG00000160688	ENST00000489992	processed_transcript	KNOWN	None	24671	None	None	154961061	154965587	1	None	PP591, FAD1
1	FLAD1	ENSG00000160688	ENST00000477609	processed_transcript	KNOWN	None	24671	None	None	154962689	154965587	1	None	PP591, FAD1
1	FLAD1	ENSG00000160688	ENST00000481758	processed_transcript	KNOWN	None	24671	None	None	154965065	154965587	1	None	PP591, FAD1
1	FLAD1	ENSG00000160688	ENST00000405236	protein_coding	KNOWN	None	24671	1017	338	154960506	154965587	1	None	PP591, FAD1
2	HECW2	ENSG00000138411	ENST00000409111	protein_coding	PUTATIVE	None	29853	3651	1216	197063977	197226946	-1	None	KIAA1301, NEDL2
2	HECW2	ENSG00000138411	ENST00000260983	protein_coding	KNOWN	CCDS33354	29853	4719	1572	197063977	197457335	-1	None	KIAA1301, NEDL2
2	HECW2	ENSG00000138411	ENST00000498146	retained_intron	KNOWN	None	29853	None	None	197105184	197106979	-1	None	KIAA1301, NEDL2
2	HECW2	ENSG00000138411	ENST00000462290	retained_intron	KNOWN	None	29853	None	None	197122460	197143403	-1	None	KIAA1301, NEDL2
2	HECW2	ENSG00000138411	ENST00000452031	protein_coding	KNOWN	None	29853	400	132	197208381	197458416	-1	None	KIAA1301, NEDL2
2	HECW2	ENSG00000138411	ENST00000427457	protein_coding	KNOWN	None	29853	354	117	197208427	197458278	-1	None	KIAA1301, NEDL2
11	VSIG2	ENSG00000019102	ENST00000326621	protein_coding	KNOWN	CCDS8452	17149	984	327	124617368	124622134	-1	None	CTXL, CTH
11	VSIG2	ENSG00000019102	ENST00000403470	protein_coding	KNOWN	None	17149	855	284	124618002	124622089	-1	None	CTXL, CTH
3	USP19	ENSG00000172046	ENST00000398896	protein_coding	NOVEL	None	12617	3270	1089	49145479	49155411	-1	None	KIAA0891, ZMYND9
3	USP19	ENSG00000172046	ENST00000398898	protein_coding	NOVEL	None	12617	3966	1321	49145479	49156720	-1	None	KIAA0891, ZMYND9
3	USP19	ENSG00000172046	ENST00000417901	protein_coding	NOVEL	CCDS56255	12617	4155	1384	49145483	49158241	-1	None	KIAA0891, ZMYND9
3	USP19	ENSG00000172046	ENST00000453664	protein_coding	NOVEL	CCDS56256	12617	4119	1372	49145564	49158371	-1	None	KIAA0891, ZMYND9
3	USP19	ENSG00000172046	ENST00000398892	protein_coding	NOVEL	None	12617	4077	1358	49146106	49158312	-1	None	KIAA0891, ZMYND9
3	USP19	ENSG00000172046	ENST00000398888	protein_coding	KNOWN	CCDS43090	12617	3957	1318	49146108	49158371	-1	None	KIAA0891, ZMYND9
3	USP19	ENSG00000172046	ENST00000434032	protein_coding	NOVEL	CCDS56254	12617	4260	1419	49146186	49158264	-1	None	KIAA0891, ZMYND9
3	USP19	ENSG00000172046	ENST00000483667	processed_transcript	KNOWN	None	12617	None	None	49147446	49148190	-1	None	KIAA0891, ZMYND9
3	USP19	ENSG00000172046	ENST00000306026	protein_coding	PUTATIVE	None	12617	1706	567	49153014	49158251	-1	None	KIAA0891, ZMYND9
3	USP19	ENSG00000172046	ENST00000464931	processed_transcript	KNOWN	None	12617	None	None	49153481	49155144	-1	None	KIAA0891, ZMYND9
3	USP19	ENSG00000172046	ENST00000479073	protein_coding	NOVEL	None	12617	360	119	49154167	49154791	-1	None	KIAA0891, ZMYND9
3	USP19	ENSG00000172046	ENST00000488993	processed_transcript	KNOWN	None	12617	None	None	49154552	49158364	-1	None	KIAA0891, ZMYND9
3	USP19	ENSG00000172046	ENST00000480163	processed_transcript	KNOWN	None	12617	None	None	49154634	49155221	-1	None	KIAA0891, ZMYND9
3	USP19	ENSG00000172046	ENST00000491859	processed_transcript	KNOWN	None	12617	None	None	49154737	49158307	-1	None	KIAA0891, ZMYND9
3	USP19	ENSG00000172046	ENST00000465902	processed_transcript	KNOWN	None	12617	None	None	49155398	49158101	-1	None	KIAA0891, ZMYND9
7	RABGEF1	ENSG00000154710	ENST00000442563	protein_coding	KNOWN	None	17676	136	44	66205720	66237022	1	None	rabex-5, RABEX5
7	RABGEF1	ENSG00000154710	ENST00000450873	protein_coding	KNOWN	CCDS5535	17676	1476	491	66205720	66274804	1	None	rabex-5, RABEX5
7	RABGEF1	ENSG00000154710	ENST00000284957	protein_coding	KNOWN	CCDS5535	17676	1476	491	66205720	66276451	1	None	rabex-5, RABEX5
7	RABGEF1	ENSG00000154710	ENST00000439720	protein_coding	PUTATIVE	None	17676	1515	504	66220876	66275654	1	None	rabex-5, RABEX5
7	RABGEF1	ENSG00000154710	ENST00000484547	processed_transcript	KNOWN	None	17676	None	None	66236870	66276180	1	None	rabex-5, RABEX5
7	RABGEF1	ENSG00000154710	ENST00000461017	processed_transcript	KNOWN	None	17676	None	None	66262359	66273051	1	None	rabex-5, RABEX5
7	RABGEF1	ENSG00000154710	ENST00000437078	protein_coding	KNOWN	None	17676	1518	505	66220884	66274563	1	None	rabex-5, RABEX5
1	LENEP	ENSG00000163352	ENST00000368427	nonsense_mediated_decay	KNOWN	CCDS1080	14429	186	61	154966062	154966791	1	None	LEP503
1	LENEP	ENSG00000163352	ENST00000392487	protein_coding	KNOWN	CCDS1080	14429	186	61	154966064	154966618	1	None	LEP503
11	SSRP1	ENSG00000149136	ENST00000278412	protein_coding	KNOWN	CCDS7952	11327	2130	709	57093459	57103351	-1	None	FACT80
11	SSRP1	ENSG00000149136	ENST00000293880	retained_intron	KNOWN	None	11327	None	None	57093460	57103325	-1	None	FACT80
11	SSRP1	ENSG00000149136	ENST00000526696	protein_coding	PUTATIVE	None	11327	578	191	57099860	57102947	-1	None	FACT80
11	SSRP1	ENSG00000149136	ENST00000529002	protein_coding	PUTATIVE	None	11327	463	153	57100113	57103347	-1	None	FACT80
2	CYP26B1	ENSG00000003137	ENST00000001146	protein_coding	KNOWN	CCDS1919	20581	1539	512	72356367	72375167	-1	None	P450RAI-2
2	CYP26B1	ENSG00000003137	ENST00000412253	protein_coding	PUTATIVE	None	20581	966	321	72356522	72370213	-1	None	P450RAI-2
2	CYP26B1	ENSG00000003137	ENST00000474509	protein_coding	NOVEL	None	20581	546	181	72361980	72374991	-1	None	P450RAI-2
2	CYP26B1	ENSG00000003137	ENST00000461519	protein_coding	PUTATIVE	None	20581	518	171	72362409	72371544	-1	None	P450RAI-2
2	CYP26B1	ENSG00000003137	ENST00000546307	protein_coding	KNOWN	None	20581	1314	437	72359324	72374963	-1	None	P450RAI-2
14	EIF2B2	ENSG00000119718	ENST00000266126	protein_coding	KNOWN	CCDS9836	3258	1056	351	75469614	75476292	1	None	EIF2B, EIF-2Bbeta
14	EIF2B2	ENSG00000119718	ENST00000555522	retained_intron	KNOWN	None	3258	None	None	75469636	75471720	1	None	EIF2B, EIF-2Bbeta
14	EIF2B2	ENSG00000119718	ENST00000553539	retained_intron	KNOWN	None	3258	None	None	75469675	75471805	1	None	EIF2B, EIF-2Bbeta
14	EIF2B2	ENSG00000119718	ENST00000556028	nonsense_mediated_decay	KNOWN	None	3258	621	206	75469677	75474438	1	None	EIF2B, EIF-2Bbeta
14	EIF2B2	ENSG00000119718	ENST00000553401	nonsense_mediated_decay	KNOWN	None	3258	603	200	75469721	75474491	1	None	EIF2B, EIF-2Bbeta
14	EIF2B2	ENSG00000119718	ENST00000554748	protein_coding	PUTATIVE	None	3258	216	71	75472608	75474119	1	None	EIF2B, EIF-2Bbeta
14	EIF2B2	ENSG00000119718	ENST00000556668	retained_intron	KNOWN	None	3258	None	None	75473007	75476266	1	None	EIF2B, EIF-2Bbeta
1	SCP2	ENSG00000116171	ENST00000371514	protein_coding	KNOWN	CCDS572	10606	1644	547	53392901	53517375	1	None	None
1	SCP2	ENSG00000116171	ENST00000478631	nonsense_mediated_decay	KNOWN	None	10606	1101	366	53392949	53517073	1	None	None
1	SCP2	ENSG00000116171	ENST00000528311	protein_coding	PUTATIVE	CCDS53319	10606	1401	466	53392958	53516575	1	None	None
1	SCP2	ENSG00000116171	ENST00000371509	protein_coding	NOVEL	CCDS53317	10606	1512	503	53392958	53516642	1	None	None
1	SCP2	ENSG00000116171	ENST00000407246	protein_coding	NOVEL	CCDS53318	10606	1572	523	53392958	53516932	1	None	None
1	SCP2	ENSG00000116171	ENST00000371513	protein_coding	KNOWN	CCDS41338	10606	969	322	53392990	53459904	1	None	None
1	SCP2	ENSG00000116171	ENST00000528809	processed_transcript	KNOWN	None	10606	None	None	53393052	53442384	1	None	None
1	SCP2	ENSG00000116171	ENST00000529363	protein_coding	NOVEL	None	10606	720	239	53407475	53446125	1	None	None
1	SCP2	ENSG00000116171	ENST00000473584	processed_transcript	KNOWN	None	10606	None	None	53429313	53453752	1	None	None
1	SCP2	ENSG00000116171	ENST00000430330	protein_coding	KNOWN	CCDS44150	10606	423	140	53480600	53516798	1	None	None
1	SCP2	ENSG00000116171	ENST00000478274	protein_coding	PUTATIVE	None	10606	421	139	53480638	53514187	1	None	None
1	SCP2	ENSG00000116171	ENST00000484100	protein_coding	NOVEL	None	10606	235	77	53480638	53516690	1	None	None
1	SCP2	ENSG00000116171	ENST00000533119	nonsense_mediated_decay	KNOWN	None	10606	97	31	53480638	53516734	1	None	None
1	SCP2	ENSG00000116171	ENST00000435345	protein_coding	KNOWN	CCDS44149	10606	432	143	53480640	53516785	1	None	None
1	SCP2	ENSG00000116171	ENST00000488965	protein_coding	KNOWN	CCDS30719	10606	180	59	53480646	53517282	1	None	None
1	SCP2	ENSG00000116171	ENST00000408941	protein_coding	KNOWN	CCDS30719	10606	180	59	53480610	53517289	1	None	None
5	OTP	ENSG00000171540	ENST00000306422	protein_coding	KNOWN	CCDS4039	8518	978	325	76924538	76935513	-1	None	None
5	OTP	ENSG00000171540	ENST00000515716	processed_transcript	KNOWN	None	8518	None	None	76931756	76932818	-1	None	None
1	ZBTB7B	ENSG00000160685	ENST00000368426	protein_coding	KNOWN	CCDS1081	18668	1620	539	154975133	154990998	1	ZFP67	ZBTB15, c-Krox, hcKrox, ZNF857B
1	ZBTB7B	ENSG00000160685	ENST00000487542	processed_transcript	KNOWN	None	18668	None	None	154975202	154987785	1	ZFP67	ZBTB15, c-Krox, hcKrox, ZNF857B
1	ZBTB7B	ENSG00000160685	ENST00000461530	processed_transcript	KNOWN	None	18668	None	None	154975316	154987444	1	ZFP67	ZBTB15, c-Krox, hcKrox, ZNF857B
1	ZBTB7B	ENSG00000160685	ENST00000483226	processed_transcript	KNOWN	None	18668	None	None	154975321	154987195	1	ZFP67	ZBTB15, c-Krox, hcKrox, ZNF857B
1	ZBTB7B	ENSG00000160685	ENST00000292176	protein_coding	NOVEL	CCDS1081	18668	1620	539	154986924	154989457	1	ZFP67	ZBTB15, c-Krox, hcKrox, ZNF857B
1	ZBTB7B	ENSG00000160685	ENST00000417934	protein_coding	KNOWN	CCDS58030	18668	1722	573	154975295	154989407	1	ZFP67	ZBTB15, c-Krox, hcKrox, ZNF857B
1	ZBTB7B	ENSG00000160685	ENST00000535420	protein_coding	KNOWN	CCDS1081	18668	1620	539	154975127	154989244	1	ZFP67	ZBTB15, c-Krox, hcKrox, ZNF857B
3	IP6K1	ENSG00000176095	ENST00000321599	protein_coding	KNOWN	CCDS33760	18360	1326	441	49761727	49823960	-1	IHPK1	KIAA0263
3	IP6K1	ENSG00000176095	ENST00000468463	protein_coding	NOVEL	None	18360	825	274	49764346	49823973	-1	IHPK1	KIAA0263
3	IP6K1	ENSG00000176095	ENST00000460540	protein_coding	KNOWN	CCDS43092	18360	831	276	49764461	49823975	-1	IHPK1	KIAA0263
3	IP6K1	ENSG00000176095	ENST00000495798	retained_intron	KNOWN	None	18360	None	None	49764842	49765829	-1	IHPK1	KIAA0263
3	IP6K1	ENSG00000176095	ENST00000479464	processed_transcript	KNOWN	None	18360	None	None	49775705	49786361	-1	IHPK1	KIAA0263
3	IP6K1	ENSG00000176095	ENST00000498149	processed_transcript	KNOWN	None	18360	None	None	49785445	49823632	-1	IHPK1	KIAA0263
3	IP6K1	ENSG00000176095	ENST00000495152	processed_transcript	KNOWN	None	18360	None	None	49822913	49823627	-1	IHPK1	KIAA0263
3	IP6K1	ENSG00000176095	ENST00000395238	protein_coding	KNOWN	CCDS43092	18360	831	276	49761728	49823973	-1	IHPK1	KIAA0263
3	SLC41A3	ENSG00000114544	ENST00000360370	protein_coding	KNOWN	CCDS43144	31046	1464	487	125725198	125802952	-1	None	FLJ20473
3	SLC41A3	ENSG00000114544	ENST00000346785	protein_coding	KNOWN	CCDS33842	31046	1416	471	125725200	125803147	-1	None	FLJ20473
3	SLC41A3	ENSG00000114544	ENST00000504118	processed_transcript	PUTATIVE	None	31046	None	None	125725201	125725729	-1	None	FLJ20473
3	SLC41A3	ENSG00000114544	ENST00000383598	protein_coding	KNOWN	CCDS33844	31046	1386	461	125725201	125775681	-1	None	FLJ20473
3	SLC41A3	ENSG00000114544	ENST00000506102	retained_intron	KNOWN	None	31046	None	None	125725206	125742607	-1	None	FLJ20473
3	SLC41A3	ENSG00000114544	ENST00000512557	retained_intron	KNOWN	None	31046	None	None	125725206	125744633	-1	None	FLJ20473
3	SLC41A3	ENSG00000114544	ENST00000315891	protein_coding	KNOWN	CCDS33843	31046	1524	507	125725216	125803147	-1	None	FLJ20473
3	SLC41A3	ENSG00000114544	ENST00000508835	protein_coding	NOVEL	CCDS54635	31046	1113	370	125725699	125820400	-1	None	FLJ20473
3	SLC41A3	ENSG00000114544	ENST00000507008	nonsense_mediated_decay	KNOWN	None	31046	198	65	125735574	125820404	-1	None	FLJ20473
3	SLC41A3	ENSG00000114544	ENST00000514677	protein_coding	NOVEL	None	31046	882	293	125735627	125803012	-1	None	FLJ20473
3	SLC41A3	ENSG00000114544	ENST00000513723	protein_coding	NOVEL	None	31046	865	287	125741665	125802966	-1	None	FLJ20473
3	SLC41A3	ENSG00000114544	ENST00000514023	processed_transcript	KNOWN	None	31046	None	None	125743646	125802967	-1	None	FLJ20473
3	SLC41A3	ENSG00000114544	ENST00000513464	retained_intron	KNOWN	None	31046	None	None	125745146	125787023	-1	None	FLJ20473
3	SLC41A3	ENSG00000114544	ENST00000512470	protein_coding	KNOWN	None	31046	604	200	125745172	125802866	-1	None	FLJ20473
3	SLC41A3	ENSG00000114544	ENST00000510651	protein_coding	NOVEL	None	31046	522	173	125745227	125802966	-1	None	FLJ20473
3	SLC41A3	ENSG00000114544	ENST00000514333	protein_coding	KNOWN	None	31046	413	136	125745255	125802966	-1	None	FLJ20473
3	SLC41A3	ENSG00000114544	ENST00000507280	protein_coding	KNOWN	None	31046	456	151	125752447	125797877	-1	None	FLJ20473
3	SLC41A3	ENSG00000114544	ENST00000514891	protein_coding	KNOWN	None	31046	456	151	125752447	125802765	-1	None	FLJ20473
3	SLC41A3	ENSG00000114544	ENST00000504035	protein_coding	KNOWN	None	31046	456	151	125752447	125802939	-1	None	FLJ20473
3	SLC41A3	ENSG00000114544	ENST00000509064	protein_coding	NOVEL	None	31046	415	137	125752488	125820398	-1	None	FLJ20473
3	SLC41A3	ENSG00000114544	ENST00000505996	nonsense_mediated_decay	KNOWN	None	31046	279	92	125769786	125802967	-1	None	FLJ20473
3	SLC41A3	ENSG00000114544	ENST00000509452	protein_coding	KNOWN	None	31046	257	84	125786806	125789259	-1	None	FLJ20473
5	TBCA	ENSG00000171530	ENST00000380377	protein_coding	KNOWN	CCDS4040	11579	327	108	76986991	77072185	-1	None	None
5	TBCA	ENSG00000171530	ENST00000518218	retained_intron	KNOWN	None	11579	None	None	76987066	77004438	-1	None	None
5	TBCA	ENSG00000171530	ENST00000517679	protein_coding	PUTATIVE	None	11579	360	119	76987066	77011142	-1	None	None
5	TBCA	ENSG00000171530	ENST00000306388	protein_coding	PUTATIVE	None	11579	390	129	76987066	77072111	-1	None	None
5	TBCA	ENSG00000171530	ENST00000520361	protein_coding	NOVEL	None	11579	240	79	76987073	77072117	-1	None	None
5	TBCA	ENSG00000171530	ENST00000517881	processed_transcript	PUTATIVE	None	11579	None	None	76987084	76990102	-1	None	None
5	TBCA	ENSG00000171530	ENST00000518338	protein_coding	NOVEL	None	11579	396	131	76987092	77072085	-1	None	None
5	TBCA	ENSG00000171530	ENST00000522370	protein_coding	PUTATIVE	None	11579	255	84	76987229	77164604	-1	None	None
5	TBCA	ENSG00000171530	ENST00000520039	protein_coding	PUTATIVE	None	11579	81	26	76989091	77072098	-1	None	None
19	COX7A1	ENSG00000161281	ENST00000437291	protein_coding	PUTATIVE	None	2287	72	23	36641824	36642927	-1	COX7A	COX7AH
19	COX7A1	ENSG00000161281	ENST00000481297	retained_intron	KNOWN	None	2287	None	None	36641824	36643351	-1	COX7A	COX7AH
19	COX7A1	ENSG00000161281	ENST00000292907	protein_coding	KNOWN	CCDS12490	2287	240	79	36641824	36643771	-1	COX7A	COX7AH
19	COX7A1	ENSG00000161281	ENST00000589154	protein_coding	PUTATIVE	None	2287	182	59	36641915	36643338	-1	COX7A	COX7AH
8	TOP1MT	ENSG00000184428	ENST00000519977	protein_coding	PUTATIVE	None	29787	334	110	144386554	144397977	-1	None	None
8	TOP1MT	ENSG00000184428	ENST00000329245	protein_coding	KNOWN	CCDS6400	29787	1806	601	144391494	144417066	-1	None	None
8	TOP1MT	ENSG00000184428	ENST00000517857	retained_intron	KNOWN	None	29787	None	None	144391526	144392673	-1	None	None
8	TOP1MT	ENSG00000184428	ENST00000521193	protein_coding	PUTATIVE	CCDS59115	29787	1512	503	144391526	144442094	-1	None	None
8	TOP1MT	ENSG00000184428	ENST00000519148	protein_coding	PUTATIVE	CCDS59115	29787	1512	503	144391530	144442147	-1	None	None
8	TOP1MT	ENSG00000184428	ENST00000523676	protein_coding	NOVEL	CCDS59115	29787	1512	503	144391547	144416965	-1	None	None
8	TOP1MT	ENSG00000184428	ENST00000518951	nonsense_mediated_decay	KNOWN	None	29787	504	167	144398170	144417033	-1	None	None
8	TOP1MT	ENSG00000184428	ENST00000519139	protein_coding	PUTATIVE	None	29787	1128	375	144398262	144416226	-1	None	None
8	TOP1MT	ENSG00000184428	ENST00000522041	protein_coding	NOVEL	None	29787	665	220	144406170	144413981	-1	None	None
8	TOP1MT	ENSG00000184428	ENST00000519591	protein_coding	NOVEL	None	29787	605	200	144406230	144417024	-1	None	None
8	TOP1MT	ENSG00000184428	ENST00000522121	nonsense_mediated_decay	KNOWN	None	29787	150	49	144407525	144411603	-1	None	None
8	TOP1MT	ENSG00000184428	ENST00000523417	nonsense_mediated_decay	KNOWN	None	29787	370	122	144407595	144417014	-1	None	None
8	TOP1MT	ENSG00000184428	ENST00000518007	protein_coding	PUTATIVE	None	29787	402	133	144407692	144427154	-1	None	None
8	TOP1MT	ENSG00000184428	ENST00000518760	protein_coding	PUTATIVE	None	29787	493	163	144408460	144438216	-1	None	None
8	TOP1MT	ENSG00000184428	ENST00000520950	protein_coding	PUTATIVE	None	29787	99	32	144408482	144442130	-1	None	None
8	TOP1MT	ENSG00000184428	ENST00000522043	protein_coding	NOVEL	None	29787	494	163	144411557	144417036	-1	None	None
8	TOP1MT	ENSG00000184428	ENST00000524092	processed_transcript	PUTATIVE	None	29787	None	None	144414673	144416991	-1	None	None
8	TOP1MT	ENSG00000184428	ENST00000505857	processed_transcript	KNOWN	None	29787	None	None	144425369	144442149	-1	None	None
8	TOP1MT	ENSG00000184428	ENST00000521024	processed_transcript	KNOWN	None	29787	None	None	144426907	144440836	-1	None	None
X	None	ENSG00000204620	ENST00000376775	protein_coding	KNOWN	None	None	390	129	48431482	48433275	-1	None	None
9	KIF12	ENSG00000136883	ENST00000498016	processed_transcript	KNOWN	None	21495	None	None	116848406	116856197	-1	None	None
9	KIF12	ENSG00000136883	ENST00000374118	protein_coding	KNOWN	CCDS6801	21495	1542	513	116853918	116861337	-1	None	None
9	KIF12	ENSG00000136883	ENST00000468460	nonsense_mediated_decay	KNOWN	None	21495	1002	333	116853918	116861507	-1	None	None
9	KIF12	ENSG00000136883	ENST00000473174	processed_transcript	KNOWN	None	21495	None	None	116855586	116859996	-1	None	None
9	KIF12	ENSG00000136883	ENST00000491059	processed_transcript	KNOWN	None	21495	None	None	116859680	116860216	-1	None	None
14	KLHDC1	ENSG00000197776	ENST00000556392	nonsense_mediated_decay	KNOWN	None	19836	291	96	50159823	50218565	1	None	MST025
14	KLHDC1	ENSG00000197776	ENST00000555704	nonsense_mediated_decay	KNOWN	None	19836	204	67	50159823	50218570	1	None	MST025
14	KLHDC1	ENSG00000197776	ENST00000359332	protein_coding	KNOWN	CCDS9692	19836	1221	406	50159823	50219870	1	None	MST025
14	KLHDC1	ENSG00000197776	ENST00000553274	nonsense_mediated_decay	KNOWN	None	19836	317	104	50159838	50195725	1	None	MST025
14	KLHDC1	ENSG00000197776	ENST00000557128	protein_coding	NOVEL	None	19836	589	195	50159847	50206895	1	None	MST025
14	KLHDC1	ENSG00000197776	ENST00000554512	processed_transcript	KNOWN	None	19836	None	None	50192326	50217824	1	None	MST025
1	DCST2	ENSG00000163354	ENST00000485982	nonsense_mediated_decay	KNOWN	None	26562	1920	639	154990996	155006257	-1	None	FLJ32934
1	DCST2	ENSG00000163354	ENST00000368423	retained_intron	KNOWN	None	26562	None	None	154991007	155003678	-1	None	FLJ32934
1	DCST2	ENSG00000163354	ENST00000368424	protein_coding	KNOWN	CCDS1082	26562	2322	773	154991009	155006236	-1	None	FLJ32934
1	DCST2	ENSG00000163354	ENST00000467991	nonsense_mediated_decay	KNOWN	None	26562	60	19	154991059	154999069	-1	None	FLJ32934
1	DCST2	ENSG00000163354	ENST00000498036	retained_intron	KNOWN	None	26562	None	None	154995861	154999245	-1	None	FLJ32934
1	DCST2	ENSG00000163354	ENST00000295536	protein_coding	KNOWN	None	26562	1920	639	154996047	155006257	-1	None	FLJ32934
17	ZSWIM7	ENSG00000214941	ENST00000476496	nonsense_mediated_decay	KNOWN	None	26993	93	30	15879874	15902902	-1	None	SWS1
17	ZSWIM7	ENSG00000214941	ENST00000490395	nonsense_mediated_decay	KNOWN	None	26993	96	31	15879874	15902964	-1	None	SWS1
17	ZSWIM7	ENSG00000214941	ENST00000399277	protein_coding	KNOWN	CCDS42266	26993	423	140	15879874	15903006	-1	None	SWS1
17	ZSWIM7	ENSG00000214941	ENST00000399280	processed_transcript	KNOWN	None	26993	None	None	15879874	15903008	-1	None	SWS1
17	ZSWIM7	ENSG00000214941	ENST00000497434	processed_transcript	KNOWN	None	26993	None	None	15879883	15883681	-1	None	SWS1
17	ZSWIM7	ENSG00000214941	ENST00000497719	processed_transcript	KNOWN	None	26993	None	None	15880326	15903027	-1	None	SWS1
17	ZSWIM7	ENSG00000214941	ENST00000584519	nonsense_mediated_decay	KNOWN	None	26993	81	26	15880997	15902950	-1	None	SWS1
17	ZSWIM7	ENSG00000214941	ENST00000486655	protein_coding	PUTATIVE	None	26993	201	66	15881041	15902903	-1	None	SWS1
17	ZSWIM7	ENSG00000214941	ENST00000474716	nonsense_mediated_decay	KNOWN	None	26993	96	31	15881041	15902953	-1	None	SWS1
17	ZSWIM7	ENSG00000214941	ENST00000472495	protein_coding	KNOWN	CCDS42266	26993	423	140	15881041	15902998	-1	None	SWS1
17	ZSWIM7	ENSG00000214941	ENST00000460315	nonsense_mediated_decay	KNOWN	None	26993	99	32	15881041	15903002	-1	None	SWS1
17	ZSWIM7	ENSG00000214941	ENST00000491631	nonsense_mediated_decay	KNOWN	None	26993	96	31	15881041	15903031	-1	None	SWS1
17	ZSWIM7	ENSG00000214941	ENST00000495825	processed_transcript	KNOWN	None	26993	None	None	15881044	15902997	-1	None	SWS1
17	ZSWIM7	ENSG00000214941	ENST00000585208	nonsense_mediated_decay	KNOWN	None	26993	96	31	15881047	15902948	-1	None	SWS1
17	ZSWIM7	ENSG00000214941	ENST00000486706	nonsense_mediated_decay	KNOWN	None	26993	96	31	15881047	15902983	-1	None	SWS1
17	ZSWIM7	ENSG00000214941	ENST00000460252	nonsense_mediated_decay	KNOWN	None	26993	99	32	15881205	15902995	-1	None	SWS1
17	ZSWIM7	ENSG00000214941	ENST00000475498	processed_transcript	KNOWN	None	26993	None	None	15881239	15897144	-1	None	SWS1
17	ZSWIM7	ENSG00000214941	ENST00000579955	nonsense_mediated_decay	KNOWN	None	26993	237	78	15881392	15902998	-1	None	SWS1
3	CDHR4	ENSG00000187492	ENST00000462108	processed_transcript	KNOWN	None	34527	None	None	49828165	49830364	-1	CDH29	VLLR9392
3	CDHR4	ENSG00000187492	ENST00000487666	protein_coding	PUTATIVE	None	34527	454	150	49828165	49830365	-1	CDH29	VLLR9392
3	CDHR4	ENSG00000187492	ENST00000460430	nonsense_mediated_decay	KNOWN	None	34527	405	134	49828165	49830705	-1	CDH29	VLLR9392
3	CDHR4	ENSG00000187492	ENST00000412678	protein_coding	KNOWN	CCDS46829	34527	2367	788	49828165	49837254	-1	CDH29	VLLR9392
3	CDHR4	ENSG00000187492	ENST00000343366	protein_coding	KNOWN	None	34527	600	199	49835665	49837268	-1	CDH29	VLLR9392
3	CDHR4	ENSG00000187492	ENST00000487256	protein_coding	NOVEL	None	34527	555	184	49835760	49837268	-1	CDH29	VLLR9392
2	EXOC6B	ENSG00000144036	ENST00000272427	protein_coding	KNOWN	CCDS46333	17085	2436	811	72403113	73053170	-1	SEC15L2, SEC15B	KIAA0919
2	EXOC6B	ENSG00000144036	ENST00000490919	processed_transcript	KNOWN	None	17085	None	None	72406144	72581407	-1	SEC15L2, SEC15B	KIAA0919
2	EXOC6B	ENSG00000144036	ENST00000471335	processed_transcript	KNOWN	None	17085	None	None	72406258	72562418	-1	SEC15L2, SEC15B	KIAA0919
2	EXOC6B	ENSG00000144036	ENST00000492257	processed_transcript	KNOWN	None	17085	None	None	72406302	72490566	-1	SEC15L2, SEC15B	KIAA0919
2	EXOC6B	ENSG00000144036	ENST00000464347	processed_transcript	KNOWN	None	17085	None	None	72606938	72722668	-1	SEC15L2, SEC15B	KIAA0919
2	EXOC6B	ENSG00000144036	ENST00000410104	protein_coding	NOVEL	None	17085	2046	681	72688605	73053170	-1	SEC15L2, SEC15B	KIAA0919
2	EXOC6B	ENSG00000144036	ENST00000410112	nonsense_mediated_decay	KNOWN	None	17085	123	40	72723583	73053134	-1	SEC15L2, SEC15B	KIAA0919
2	EXOC6B	ENSG00000144036	ENST00000485398	processed_transcript	KNOWN	None	17085	None	None	72727057	72742883	-1	SEC15L2, SEC15B	KIAA0919
2	CCDC150	ENSG00000144395	ENST00000431807	nonsense_mediated_decay	KNOWN	None	26834	207	68	197504278	197597524	1	None	FLJ39660
2	CCDC150	ENSG00000144395	ENST00000471546	retained_intron	KNOWN	None	26834	None	None	197504356	197532658	1	None	FLJ39660
2	CCDC150	ENSG00000144395	ENST00000389175	protein_coding	KNOWN	CCDS46478	26834	3306	1101	197504356	197597530	1	None	FLJ39660
2	CCDC150	ENSG00000144395	ENST00000471033	retained_intron	KNOWN	None	26834	None	None	197504439	197522153	1	None	FLJ39660
2	CCDC150	ENSG00000144395	ENST00000498512	processed_transcript	KNOWN	None	26834	None	None	197504439	197540992	1	None	FLJ39660
2	CCDC150	ENSG00000144395	ENST00000495513	processed_transcript	KNOWN	None	26834	None	None	197521469	197540974	1	None	FLJ39660
2	CCDC150	ENSG00000144395	ENST00000497159	processed_transcript	KNOWN	None	26834	None	None	197540893	197559794	1	None	FLJ39660
2	CCDC150	ENSG00000144395	ENST00000469429	processed_transcript	KNOWN	None	26834	None	None	197542030	197584321	1	None	FLJ39660
2	CCDC150	ENSG00000144395	ENST00000494389	processed_transcript	KNOWN	None	26834	None	None	197559767	197594252	1	None	FLJ39660
2	CCDC150	ENSG00000144395	ENST00000460114	processed_transcript	PUTATIVE	None	26834	None	None	197565833	197577435	1	None	FLJ39660
2	CCDC150	ENSG00000144395	ENST00000424427	nonsense_mediated_decay	KNOWN	None	26834	549	182	197577823	197597516	1	None	FLJ39660
2	CCDC150	ENSG00000144395	ENST00000409270	protein_coding	KNOWN	None	26834	1767	588	197577841	197597522	1	None	FLJ39660
2	CCDC150	ENSG00000144395	ENST00000448409	nonsense_mediated_decay	KNOWN	None	26834	1254	417	197577870	197597517	1	None	FLJ39660
2	CCDC150	ENSG00000144395	ENST00000461825	processed_transcript	PUTATIVE	None	26834	None	None	197583029	197584500	1	None	FLJ39660
2	CCDC150	ENSG00000144395	ENST00000465092	processed_transcript	KNOWN	None	26834	None	None	197583298	197586350	1	None	FLJ39660
2	CCDC150	ENSG00000144395	ENST00000463826	retained_intron	KNOWN	None	26834	None	None	197584003	197592735	1	None	FLJ39660
2	CCDC150	ENSG00000144395	ENST00000487663	processed_transcript	KNOWN	None	26834	None	None	197584015	197594541	1	None	FLJ39660
2	CCDC150	ENSG00000144395	ENST00000461243	processed_transcript	KNOWN	None	26834	None	None	197595587	197628214	1	None	FLJ39660
2	CCDC150	ENSG00000144395	ENST00000483877	processed_transcript	PUTATIVE	None	26834	None	None	197596821	197597475	1	None	FLJ39660
2	CCDC150	ENSG00000144395	ENST00000472405	protein_coding	KNOWN	None	26834	387	128	197504426	197559887	1	None	FLJ39660
2	CCDC150	ENSG00000144395	ENST00000272831	protein_coding	KNOWN	None	26834	2247	748	197504278	197597524	1	None	FLJ39660
2	CCDC150	ENSG00000144395	ENST00000423093	protein_coding	KNOWN	None	26834	456	151	197504439	197559809	1	None	FLJ39660
1	PODN	ENSG00000174348	ENST00000371500	protein_coding	KNOWN	CCDS55602	23174	1929	642	53527854	53551174	1	None	PCAN, PODOCAN, MGC24995, SLRR5A
1	PODN	ENSG00000174348	ENST00000312553	protein_coding	KNOWN	CCDS573	23174	1986	661	53527885	53551174	1	None	PCAN, PODOCAN, MGC24995, SLRR5A
1	PODN	ENSG00000174348	ENST00000471210	processed_transcript	KNOWN	None	23174	None	None	53536581	53539426	1	None	PCAN, PODOCAN, MGC24995, SLRR5A
1	PODN	ENSG00000174348	ENST00000471285	processed_transcript	KNOWN	None	23174	None	None	53544283	53547766	1	None	PCAN, PODOCAN, MGC24995, SLRR5A
1	PODN	ENSG00000174348	ENST00000490650	processed_transcript	KNOWN	None	23174	None	None	53544322	53547860	1	None	PCAN, PODOCAN, MGC24995, SLRR5A
1	PODN	ENSG00000174348	ENST00000395871	protein_coding	KNOWN	CCDS55601	23174	1560	519	53527854	53551173	1	None	PCAN, PODOCAN, MGC24995, SLRR5A
6	PRSS35	ENSG00000146250	ENST00000369700	protein_coding	KNOWN	CCDS4999	21387	1242	413	84222257	84235423	1	C6orf158	MGC46520, dJ223E3.1
6	PRSS35	ENSG00000146250	ENST00000536636	protein_coding	KNOWN	CCDS4999	21387	1242	413	84222194	84235419	1	C6orf158	MGC46520, dJ223E3.1
11	P2RX3	ENSG00000109991	ENST00000533436	processed_transcript	KNOWN	None	8534	None	None	57105848	57108201	1	None	P2X3
11	P2RX3	ENSG00000109991	ENST00000263314	protein_coding	KNOWN	CCDS7953	8534	1194	397	57105991	57138073	1	None	P2X3
11	P2RX3	ENSG00000109991	ENST00000534820	nonsense_mediated_decay	KNOWN	None	8534	153	50	57114898	57118175	1	None	P2X3
5	COL23A1	ENSG00000050767	ENST00000390654	protein_coding	KNOWN	CCDS4436	22990	1623	540	177664619	178017556	-1	None	DKFZp434K0621
5	COL23A1	ENSG00000050767	ENST00000484750	processed_transcript	KNOWN	None	22990	None	None	177950506	177989727	-1	None	DKFZp434K0621
5	COL23A1	ENSG00000050767	ENST00000407622	protein_coding	KNOWN	None	22990	930	309	177681975	177989239	-1	None	DKFZp434K0621
4	STX18	ENSG00000168818	ENST00000505286	protein_coding	NOVEL	None	15942	927	308	4417469	4543737	-1	None	Ufe1
4	STX18	ENSG00000168818	ENST00000503692	retained_intron	KNOWN	None	15942	None	None	4420695	4428340	-1	None	Ufe1
4	STX18	ENSG00000168818	ENST00000306200	protein_coding	KNOWN	CCDS3377	15942	1008	335	4420695	4543755	-1	None	Ufe1
4	STX18	ENSG00000168818	ENST00000515687	retained_intron	KNOWN	None	15942	None	None	4421061	4425550	-1	None	Ufe1
4	STX18	ENSG00000168818	ENST00000503861	nonsense_mediated_decay	KNOWN	None	15942	526	174	4421670	4463664	-1	None	Ufe1
4	STX18	ENSG00000168818	ENST00000502267	retained_intron	KNOWN	None	15942	None	None	4421822	4427376	-1	None	Ufe1
4	STX18	ENSG00000168818	ENST00000510296	retained_intron	KNOWN	None	15942	None	None	4421948	4425415	-1	None	Ufe1
4	STX18	ENSG00000168818	ENST00000512195	protein_coding	PUTATIVE	None	15942	521	172	4426888	4463681	-1	None	Ufe1
4	STX18	ENSG00000168818	ENST00000507908	protein_coding	PUTATIVE	None	15942	509	168	4426900	4544073	-1	None	Ufe1
4	STX18	ENSG00000168818	ENST00000512780	retained_intron	KNOWN	None	15942	None	None	4440166	4543758	-1	None	Ufe1
1	SLC1A7	ENSG00000162383	ENST00000371494	protein_coding	KNOWN	CCDS574	10945	1683	560	53552855	53608249	-1	None	EAAT5
1	SLC1A7	ENSG00000162383	ENST00000488036	processed_transcript	KNOWN	None	10945	None	None	53552856	53556654	-1	None	EAAT5
1	SLC1A7	ENSG00000162383	ENST00000371491	protein_coding	KNOWN	None	10945	477	158	53573600	53608289	-1	None	EAAT5
3	CHRD	ENSG00000090539	ENST00000356534	nonsense_mediated_decay	KNOWN	None	1949	261	86	184097861	184100535	1	None	None
3	CHRD	ENSG00000090539	ENST00000204604	protein_coding	KNOWN	CCDS3266	1949	2868	955	184097861	184107617	1	None	None
3	CHRD	ENSG00000090539	ENST00000448472	nonsense_mediated_decay	KNOWN	None	1949	285	94	184097861	184107617	1	None	None
3	CHRD	ENSG00000090539	ENST00000420973	nonsense_mediated_decay	KNOWN	None	1949	1053	350	184097861	184107617	1	None	None
3	CHRD	ENSG00000090539	ENST00000460627	retained_intron	KNOWN	None	1949	None	None	184097861	184107617	1	None	None
3	CHRD	ENSG00000090539	ENST00000450923	protein_coding	NOVEL	None	1949	2865	954	184097995	184107617	1	None	None
3	CHRD	ENSG00000090539	ENST00000348986	protein_coding	KNOWN	None	1949	2748	915	184098107	184107617	1	None	None
3	CHRD	ENSG00000090539	ENST00000470150	retained_intron	KNOWN	None	1949	None	None	184098109	184108524	1	None	None
3	CHRD	ENSG00000090539	ENST00000496527	retained_intron	KNOWN	None	1949	None	None	184098136	184098948	1	None	None
3	CHRD	ENSG00000090539	ENST00000459711	retained_intron	KNOWN	None	1949	None	None	184098240	184099537	1	None	None
3	CHRD	ENSG00000090539	ENST00000485883	retained_intron	KNOWN	None	1949	None	None	184098411	184099756	1	None	None
3	CHRD	ENSG00000090539	ENST00000482805	processed_transcript	KNOWN	None	1949	None	None	184098780	184099830	1	None	None
3	CHRD	ENSG00000090539	ENST00000486066	retained_intron	KNOWN	None	1949	None	None	184098807	184099678	1	None	None
3	CHRD	ENSG00000090539	ENST00000461684	retained_intron	KNOWN	None	1949	None	None	184098807	184099822	1	None	None
3	CHRD	ENSG00000090539	ENST00000482014	retained_intron	KNOWN	None	1949	None	None	184099194	184099961	1	None	None
3	CHRD	ENSG00000090539	ENST00000461120	retained_intron	KNOWN	None	1949	None	None	184099933	184100718	1	None	None
3	CHRD	ENSG00000090539	ENST00000464833	retained_intron	KNOWN	None	1949	None	None	184102576	184105189	1	None	None
3	CHRD	ENSG00000090539	ENST00000310236	protein_coding	KNOWN	None	1949	285	94	184097861	184098896	1	None	None
3	CHRD	ENSG00000090539	ENST00000545352	protein_coding	KNOWN	None	1949	1494	497	184100048	184107554	1	None	None
12	ARF3	ENSG00000134287	ENST00000398092	protein_coding	PUTATIVE	None	654	633	210	49297286	49351148	-1	None	None
12	ARF3	ENSG00000134287	ENST00000256682	protein_coding	KNOWN	CCDS8774	654	546	181	49329506	49351334	-1	None	None
12	ARF3	ENSG00000134287	ENST00000485410	processed_transcript	KNOWN	None	654	None	None	49332204	49351228	-1	None	None
12	ARF3	ENSG00000134287	ENST00000447318	protein_coding	NOVEL	None	654	435	144	49332337	49351260	-1	None	None
12	ARF3	ENSG00000134287	ENST00000541959	protein_coding	KNOWN	CCDS8774	654	546	181	49332708	49351228	-1	None	None
12	ARF3	ENSG00000134287	ENST00000541236	protein_coding	KNOWN	None	654	307	101	49333515	49350852	-1	None	None
12	ARF3	ENSG00000134287	ENST00000539611	protein_coding	KNOWN	None	654	152	49	49333887	49351161	-1	None	None
12	ARF3	ENSG00000134287	ENST00000545855	protein_coding	KNOWN	None	654	121	39	49334758	49350223	-1	None	None
12	ARF3	ENSG00000134287	ENST00000541967	processed_transcript	PUTATIVE	None	654	None	None	49334877	49350988	-1	None	None
12	ARF3	ENSG00000134287	ENST00000472621	processed_transcript	KNOWN	None	654	None	None	49334907	49350275	-1	None	None
12	ARF3	ENSG00000134287	ENST00000536283	processed_transcript	PUTATIVE	None	654	None	None	49349935	49351245	-1	None	None
1	GUK1	ENSG00000143774	ENST00000366730	protein_coding	KNOWN	CCDS1568	4693	594	197	228327663	228336541	1	None	None
1	GUK1	ENSG00000143774	ENST00000462807	processed_transcript	KNOWN	None	4693	None	None	228327929	228335394	1	None	None
1	GUK1	ENSG00000143774	ENST00000493209	processed_transcript	KNOWN	None	4693	None	None	228327966	228334653	1	None	None
1	GUK1	ENSG00000143774	ENST00000485838	processed_transcript	KNOWN	None	4693	None	None	228327967	228336583	1	None	None
1	GUK1	ENSG00000143774	ENST00000469973	processed_transcript	KNOWN	None	4693	None	None	228327980	228329534	1	None	None
1	GUK1	ENSG00000143774	ENST00000485083	processed_transcript	KNOWN	None	4693	None	None	228327983	228334609	1	None	None
1	GUK1	ENSG00000143774	ENST00000366726	protein_coding	KNOWN	CCDS1568	4693	594	197	228327990	228336581	1	None	None
1	GUK1	ENSG00000143774	ENST00000312726	protein_coding	KNOWN	CCDS1568	4693	594	197	228327991	228336647	1	None	None
1	GUK1	ENSG00000143774	ENST00000492871	processed_transcript	KNOWN	None	4693	None	None	228327991	228336647	1	None	None
1	GUK1	ENSG00000143774	ENST00000366728	protein_coding	KNOWN	CCDS55689	4693	726	241	228327991	228336656	1	None	None
1	GUK1	ENSG00000143774	ENST00000453943	protein_coding	KNOWN	None	4693	651	216	228327999	228336392	1	None	None
1	GUK1	ENSG00000143774	ENST00000366723	protein_coding	KNOWN	None	4693	657	218	228328003	228336534	1	None	None
1	GUK1	ENSG00000143774	ENST00000493138	processed_transcript	KNOWN	None	4693	None	None	228328008	228336578	1	None	None
1	GUK1	ENSG00000143774	ENST00000366722	protein_coding	KNOWN	None	4693	729	242	228328018	228336509	1	None	None
1	GUK1	ENSG00000143774	ENST00000498092	processed_transcript	KNOWN	None	4693	None	None	228328019	228335358	1	None	None
1	GUK1	ENSG00000143774	ENST00000435153	protein_coding	KNOWN	None	4693	818	271	228328019	228336510	1	None	None
1	GUK1	ENSG00000143774	ENST00000366721	protein_coding	KNOWN	None	4693	600	199	228328033	228336453	1	None	None
1	GUK1	ENSG00000143774	ENST00000491613	processed_transcript	KNOWN	None	4693	None	None	228328824	228333463	1	None	None
1	GUK1	ENSG00000143774	ENST00000485733	processed_transcript	KNOWN	None	4693	None	None	228328824	228334584	1	None	None
1	GUK1	ENSG00000143774	ENST00000460224	processed_transcript	KNOWN	None	4693	None	None	228328833	228335411	1	None	None
1	GUK1	ENSG00000143774	ENST00000484953	processed_transcript	KNOWN	None	4693	None	None	228328897	228333767	1	None	None
1	GUK1	ENSG00000143774	ENST00000472939	processed_transcript	KNOWN	None	4693	None	None	228328950	228335146	1	None	None
1	GUK1	ENSG00000143774	ENST00000412265	protein_coding	KNOWN	None	4693	760	252	228329083	228336158	1	None	None
1	GUK1	ENSG00000143774	ENST00000366718	protein_coding	KNOWN	CCDS1568	4693	594	197	228332029	228336652	1	None	None
1	GUK1	ENSG00000143774	ENST00000470040	processed_transcript	KNOWN	None	4693	None	None	228332598	228336647	1	None	None
1	GUK1	ENSG00000143774	ENST00000366716	protein_coding	KNOWN	CCDS1568	4693	594	197	228333155	228336685	1	None	None
1	GUK1	ENSG00000143774	ENST00000485859	processed_transcript	KNOWN	None	4693	None	None	228333211	228333936	1	None	None
1	GUK1	ENSG00000143774	ENST00000485168	processed_transcript	KNOWN	None	4693	None	None	228333211	228335188	1	None	None
1	GUK1	ENSG00000143774	ENST00000478725	processed_transcript	KNOWN	None	4693	None	None	228333211	228335260	1	None	None
1	GUK1	ENSG00000143774	ENST00000495999	processed_transcript	KNOWN	None	4693	None	None	228333216	228336140	1	None	None
1	GUK1	ENSG00000143774	ENST00000486668	processed_transcript	KNOWN	None	4693	None	None	228333262	228336651	1	None	None
1	GUK1	ENSG00000143774	ENST00000464858	processed_transcript	KNOWN	None	4693	None	None	228333584	228336425	1	None	None
1	GUK1	ENSG00000143774	ENST00000470155	processed_transcript	KNOWN	None	4693	None	None	228333730	228336656	1	None	None
1	GUK1	ENSG00000143774	ENST00000481341	processed_transcript	KNOWN	None	4693	None	None	228334527	228335400	1	None	None
1	GUK1	ENSG00000143774	ENST00000498115	processed_transcript	KNOWN	None	4693	None	None	228334541	228336474	1	None	None
1	GUK1	ENSG00000143774	ENST00000465025	processed_transcript	KNOWN	None	4693	None	None	228335125	228336648	1	None	None
1	GUK1	ENSG00000143774	ENST00000477206	processed_transcript	KNOWN	None	4693	None	None	228335167	228336634	1	None	None
1	GUK1	ENSG00000143774	ENST00000471270	processed_transcript	KNOWN	None	4693	None	None	228335792	228336656	1	None	None
1	GUK1	ENSG00000143774	ENST00000480056	processed_transcript	KNOWN	None	4693	None	None	228335819	228336656	1	None	None
1	GUK1	ENSG00000143774	ENST00000391865	protein_coding	KNOWN	CCDS53481	4693	657	218	228327929	228336656	1	None	None
1	CPT2	ENSG00000157184	ENST00000371486	protein_coding	KNOWN	CCDS575	2330	1977	658	53662101	53679869	1	CPT1	CPTASE
1	CPT2	ENSG00000157184	ENST00000468572	processed_transcript	KNOWN	None	2330	None	None	53662531	53668408	1	CPT1	CPTASE
1	DCST1	ENSG00000163357	ENST00000525273	nonsense_mediated_decay	KNOWN	None	26539	1587	528	155006300	155020615	1	None	FLJ32785
1	DCST1	ENSG00000163357	ENST00000295542	protein_coding	KNOWN	CCDS1083	26539	2121	706	155006300	155023406	1	None	FLJ32785
1	DCST1	ENSG00000163357	ENST00000423025	protein_coding	KNOWN	CCDS44235	26539	2046	681	155006305	155023406	1	None	FLJ32785
1	DCST1	ENSG00000163357	ENST00000368420	retained_intron	KNOWN	None	26539	None	None	155006417	155007711	1	None	FLJ32785
1	DCST1	ENSG00000163357	ENST00000368419	protein_coding	KNOWN	None	26539	1995	664	155006446	155021740	1	None	FLJ32785
1	DCST1	ENSG00000163357	ENST00000392480	protein_coding	KNOWN	None	26539	1995	664	155006300	155021595	1	None	FLJ32785
15	CYP11A1	ENSG00000140459	ENST00000358632	protein_coding	KNOWN	CCDS45303	2590	1092	363	74630100	74658547	-1	CYP11A	P450SCC
15	CYP11A1	ENSG00000140459	ENST00000268053	protein_coding	KNOWN	CCDS32291	2590	1566	521	74630100	74660081	-1	CYP11A	P450SCC
15	CYP11A1	ENSG00000140459	ENST00000498141	retained_intron	KNOWN	None	2590	None	None	74630121	74631656	-1	CYP11A	P450SCC
15	CYP11A1	ENSG00000140459	ENST00000435365	nonsense_mediated_decay	KNOWN	None	2590	1245	414	74630213	74659968	-1	CYP11A	P450SCC
15	CYP11A1	ENSG00000140459	ENST00000566674	protein_coding	KNOWN	None	2590	683	226	74631928	74651944	-1	CYP11A	P450SCC
15	CYP11A1	ENSG00000140459	ENST00000450547	protein_coding	KNOWN	None	2590	288	95	74636197	74658519	-1	CYP11A	P450SCC
15	CYP11A1	ENSG00000140459	ENST00000569662	protein_coding	KNOWN	None	2590	80	25	74637456	74658499	-1	CYP11A	P450SCC
15	CYP11A1	ENSG00000140459	ENST00000466978	retained_intron	KNOWN	None	2590	None	None	74637543	74658530	-1	CYP11A	P450SCC
15	CYP11A1	ENSG00000140459	ENST00000416978	protein_coding	PUTATIVE	None	2590	505	167	74637552	74659987	-1	CYP11A	P450SCC
15	CYP11A1	ENSG00000140459	ENST00000467407	processed_transcript	KNOWN	None	2590	None	None	74653716	74659987	-1	CYP11A	P450SCC
15	CYP11A1	ENSG00000140459	ENST00000419019	protein_coding	KNOWN	CCDS45303	2590	1092	363	74630103	74658499	-1	CYP11A	P450SCC
15	CYP11A1	ENSG00000140459	ENST00000541301	protein_coding	KNOWN	None	2590	435	144	74632076	74659987	-1	CYP11A	P450SCC
1	C1orf123	ENSG00000162384	ENST00000294360	protein_coding	KNOWN	CCDS576	26059	483	160	53679771	53686289	-1	None	FLJ20580
1	C1orf123	ENSG00000162384	ENST00000483739	retained_intron	KNOWN	None	26059	None	None	53679809	53685592	-1	None	FLJ20580
1	C1orf123	ENSG00000162384	ENST00000470385	processed_transcript	KNOWN	None	26059	None	None	53680047	53686264	-1	None	FLJ20580
1	C1orf123	ENSG00000162384	ENST00000478839	retained_intron	KNOWN	None	26059	None	None	53680146	53684032	-1	None	FLJ20580
1	C1orf123	ENSG00000162384	ENST00000489755	retained_intron	KNOWN	None	26059	None	None	53682458	53684699	-1	None	FLJ20580
1	C1orf123	ENSG00000162384	ENST00000474227	retained_intron	KNOWN	None	26059	None	None	53685207	53686272	-1	None	FLJ20580
1	C1orf123	ENSG00000162384	ENST00000602807	retained_intron	KNOWN	None	26059	None	None	53685759	53686248	-1	None	FLJ20580
4	SPARCL1	ENSG00000152583	ENST00000282470	protein_coding	KNOWN	CCDS3622	11220	1995	664	88394487	88450656	-1	None	MAST9
4	SPARCL1	ENSG00000152583	ENST00000503414	protein_coding	PUTATIVE	None	11220	1620	539	88394570	88450244	-1	None	MAST9
4	SPARCL1	ENSG00000152583	ENST00000541496	protein_coding	PUTATIVE	None	11220	56	17	88415521	88450556	-1	None	MAST9
4	SPARCL1	ENSG00000152583	ENST00000509407	protein_coding	KNOWN	None	11220	431	142	88415521	88452213	-1	None	MAST9
4	SPARCL1	ENSG00000152583	ENST00000434434	protein_coding	KNOWN	None	11220	424	140	88415528	88450609	-1	None	MAST9
4	SPARCL1	ENSG00000152583	ENST00000535835	protein_coding	KNOWN	None	11220	383	126	88415569	88449771	-1	None	MAST9
4	SPARCL1	ENSG00000152583	ENST00000512317	protein_coding	KNOWN	None	11220	360	119	88415592	88452201	-1	None	MAST9
4	SPARCL1	ENSG00000152583	ENST00000543631	protein_coding	KNOWN	None	11220	267	88	88415685	88450393	-1	None	MAST9
4	SPARCL1	ENSG00000152583	ENST00000458304	protein_coding	KNOWN	None	11220	169	55	88416165	88450524	-1	None	MAST9
4	SPARCL1	ENSG00000152583	ENST00000418378	protein_coding	KNOWN	CCDS3622	11220	1995	664	88394500	88450655	-1	None	MAST9
1	MAGOH	ENSG00000162385	ENST00000371470	protein_coding	KNOWN	CCDS577	6815	441	146	53692564	53704282	-1	None	MAGOHA, MAGOH1
1	MAGOH	ENSG00000162385	ENST00000371466	protein_coding	KNOWN	None	6815	330	109	53692598	53704171	-1	None	MAGOHA, MAGOH1
1	MAGOH	ENSG00000162385	ENST00000495868	processed_transcript	KNOWN	None	6815	None	None	53692603	53699611	-1	None	MAGOHA, MAGOH1
1	MAGOH	ENSG00000162385	ENST00000462941	processed_transcript	KNOWN	None	6815	None	None	53698794	53704180	-1	None	MAGOHA, MAGOH1
10	ZDHHC16	ENSG00000171307	ENST00000370854	protein_coding	KNOWN	CCDS7460	20714	1134	377	99205927	99217123	1	None	APH2
10	ZDHHC16	ENSG00000171307	ENST00000414567	protein_coding	KNOWN	None	20714	641	212	99205948	99213371	1	None	APH2
10	ZDHHC16	ENSG00000171307	ENST00000459777	processed_transcript	KNOWN	None	20714	None	None	99205952	99216681	1	None	APH2
10	ZDHHC16	ENSG00000171307	ENST00000466895	processed_transcript	KNOWN	None	20714	None	None	99205953	99216742	1	None	APH2
10	ZDHHC16	ENSG00000171307	ENST00000370846	protein_coding	KNOWN	None	20714	924	307	99205954	99216842	1	None	APH2
10	ZDHHC16	ENSG00000171307	ENST00000352634	protein_coding	KNOWN	CCDS7461	20714	1086	361	99205959	99217123	1	None	APH2
10	ZDHHC16	ENSG00000171307	ENST00000353979	protein_coding	KNOWN	CCDS7462	20714	1017	338	99205961	99217123	1	None	APH2
10	ZDHHC16	ENSG00000171307	ENST00000370842	protein_coding	NOVEL	CCDS7461	20714	1086	361	99205961	99217123	1	None	APH2
10	ZDHHC16	ENSG00000171307	ENST00000345745	protein_coding	KNOWN	CCDS7463	20714	891	296	99205967	99217127	1	None	APH2
10	ZDHHC16	ENSG00000171307	ENST00000462924	processed_transcript	KNOWN	None	20714	None	None	99205969	99215775	1	None	APH2
10	ZDHHC16	ENSG00000171307	ENST00000433086	protein_coding	KNOWN	None	20714	727	241	99210138	99215514	1	None	APH2
10	ZDHHC16	ENSG00000171307	ENST00000492610	processed_transcript	KNOWN	None	20714	None	None	99210585	99212222	1	None	APH2
10	ZDHHC16	ENSG00000171307	ENST00000495735	processed_transcript	KNOWN	None	20714	None	None	99211493	99217118	1	None	APH2
10	ZDHHC16	ENSG00000171307	ENST00000420089	protein_coding	KNOWN	None	20714	959	318	99211506	99217051	1	None	APH2
10	ZDHHC16	ENSG00000171307	ENST00000417044	protein_coding	KNOWN	None	20714	905	300	99211608	99217068	1	None	APH2
10	ZDHHC16	ENSG00000171307	ENST00000487315	processed_transcript	KNOWN	None	20714	None	None	99213311	99217006	1	None	APH2
10	ZDHHC16	ENSG00000171307	ENST00000492733	processed_transcript	KNOWN	None	20714	None	None	99215474	99216185	1	None	APH2
10	ZDHHC16	ENSG00000171307	ENST00000393760	protein_coding	KNOWN	CCDS7460	20714	1134	377	99205947	99217124	1	None	APH2
17	MAFG	ENSG00000197063	ENST00000357736	protein_coding	KNOWN	CCDS11793	6781	489	162	79876146	79885590	-1	None	MGC13090, MGC20149
17	MAFG	ENSG00000197063	ENST00000392366	protein_coding	KNOWN	CCDS11793	6781	489	162	79879436	79881408	-1	None	MGC13090, MGC20149
17	MAFG	ENSG00000197063	ENST00000574686	protein_coding	KNOWN	None	6781	296	97	79880674	79885584	-1	None	MGC13090, MGC20149
2	GTF3C3	ENSG00000119041	ENST00000263956	protein_coding	KNOWN	CCDS2316	4666	2661	886	197627756	197664425	-1	None	TFiiiC2-102, TFIIIC102
2	GTF3C3	ENSG00000119041	ENST00000481098	retained_intron	KNOWN	None	4666	None	None	197629303	197631728	-1	None	TFiiiC2-102, TFIIIC102
2	GTF3C3	ENSG00000119041	ENST00000416690	protein_coding	PUTATIVE	None	4666	326	107	197637731	197641169	-1	None	TFiiiC2-102, TFIIIC102
2	GTF3C3	ENSG00000119041	ENST00000435252	protein_coding	PUTATIVE	None	4666	447	148	197639713	197641312	-1	None	TFiiiC2-102, TFIIIC102
2	GTF3C3	ENSG00000119041	ENST00000448087	protein_coding	PUTATIVE	None	4666	486	161	197642363	197650260	-1	None	TFiiiC2-102, TFIIIC102
2	GTF3C3	ENSG00000119041	ENST00000466862	retained_intron	KNOWN	None	4666	None	None	197643688	197645625	-1	None	TFiiiC2-102, TFIIIC102
2	GTF3C3	ENSG00000119041	ENST00000409364	protein_coding	KNOWN	CCDS56153	4666	1242	413	197644813	197664383	-1	None	TFiiiC2-102, TFIIIC102
2	GTF3C3	ENSG00000119041	ENST00000470386	processed_transcript	KNOWN	None	4666	None	None	197650168	197656621	-1	None	TFiiiC2-102, TFIIIC102
2	GTF3C3	ENSG00000119041	ENST00000455546	nonsense_mediated_decay	KNOWN	None	4666	21	6	197654757	197664239	-1	None	TFiiiC2-102, TFIIIC102
2	GTF3C3	ENSG00000119041	ENST00000451088	nonsense_mediated_decay	KNOWN	None	4666	134	43	197657675	197664352	-1	None	TFiiiC2-102, TFIIIC102
2	GTF3C3	ENSG00000119041	ENST00000448539	nonsense_mediated_decay	KNOWN	None	4666	117	38	197657679	197664449	-1	None	TFiiiC2-102, TFIIIC102
7	None	ENSG00000241539	ENST00000461922	processed_pseudogene	KNOWN	None	None	None	None	6963709	6964144	-1	None	None
7	FAM86LP	ENSG00000242731	ENST00000478302	unprocessed_pseudogene	KNOWN	None	44099	None	None	6971315	6979234	-1	None	None
7	FAM86LP	ENSG00000242731	ENST00000416039	unprocessed_pseudogene	KNOWN	None	44099	None	None	6974720	6976189	-1	None	None
7	None	ENSG00000221011	ENST00000408084	miRNA	NOVEL	None	None	None	None	7034846	7034949	1	None	None
7	None	ENSG00000264679	ENST00000578180	miRNA	NOVEL	None	None	None	None	7106242	7106323	-1	None	None
7	MIR3683	ENSG00000266287	ENST00000580847	miRNA	KNOWN	None	38999	None	None	7106595	7106676	-1	None	hsa-mir-3683
14	KLHDC2	ENSG00000165516	ENST00000298307	protein_coding	KNOWN	CCDS9693	20231	1221	406	50234326	50249909	1	None	HCLP-1, LCP
14	KLHDC2	ENSG00000165516	ENST00000555739	nonsense_mediated_decay	KNOWN	None	20231	750	249	50234848	50249823	1	None	HCLP-1, LCP
14	KLHDC2	ENSG00000165516	ENST00000554589	protein_coding	NOVEL	None	20231	1074	357	50234872	50249829	1	None	HCLP-1, LCP
14	KLHDC2	ENSG00000165516	ENST00000555443	nonsense_mediated_decay	KNOWN	None	20231	750	249	50234886	50249833	1	None	HCLP-1, LCP
14	KLHDC2	ENSG00000165516	ENST00000557247	protein_coding	NOVEL	None	20231	924	307	50234886	50249840	1	None	HCLP-1, LCP
14	KLHDC2	ENSG00000165516	ENST00000553538	processed_transcript	KNOWN	None	20231	None	None	50235519	50244977	1	None	HCLP-1, LCP
14	KLHDC2	ENSG00000165516	ENST00000553703	retained_intron	KNOWN	None	20231	None	None	50238310	50241613	1	None	HCLP-1, LCP
14	KLHDC2	ENSG00000165516	ENST00000557063	retained_intron	KNOWN	None	20231	None	None	50244521	50246821	1	None	HCLP-1, LCP
14	KLHDC2	ENSG00000165516	ENST00000556559	retained_intron	KNOWN	None	20231	None	None	50244571	50249175	1	None	HCLP-1, LCP
14	KLHDC2	ENSG00000165516	ENST00000554115	retained_intron	KNOWN	None	20231	None	None	50246933	50249427	1	None	HCLP-1, LCP
14	KLHDC2	ENSG00000165516	ENST00000553579	retained_intron	KNOWN	None	20231	None	None	50247124	50249636	1	None	HCLP-1, LCP
7	None	ENSG00000263504	ENST00000580594	miRNA	NOVEL	None	None	None	None	7106998	7107080	-1	None	None
7	None	ENSG00000265155	ENST00000581847	miRNA	NOVEL	None	None	None	None	7107675	7107757	-1	None	None
7	None	ENSG00000266409	ENST00000580342	miRNA	NOVEL	None	None	None	None	7107818	7107900	-1	None	None
7	None	ENSG00000266121	ENST00000581017	miRNA	NOVEL	None	None	None	None	7108454	7108535	-1	None	None
7	None	ENSG00000239696	ENST00000497346	processed_pseudogene	KNOWN	None	None	None	None	7117933	7119373	-1	None	None
7	None	ENSG00000239696	ENST00000545617	processed_pseudogene	KNOWN	None	None	None	None	7117926	7118888	-1	None	None
7	None	ENSG00000201218	ENST00000364348	misc_RNA	NOVEL	None	None	None	None	7142204	7142312	-1	None	None
7	None	ENSG00000244167	ENST00000467154	processed_pseudogene	KNOWN	None	None	None	None	7217583	7217955	1	None	None
10	KIN	ENSG00000151657	ENST00000498098	nonsense_mediated_decay	KNOWN	None	6327	327	108	7795188	7808066	-1	None	KIN17
10	KIN	ENSG00000151657	ENST00000379562	protein_coding	KNOWN	CCDS7080	6327	1182	393	7797192	7829944	-1	None	KIN17
10	KIN	ENSG00000151657	ENST00000463666	processed_transcript	KNOWN	None	6327	None	None	7797777	7808347	-1	None	KIN17
10	KIN	ENSG00000151657	ENST00000471320	retained_intron	KNOWN	None	6327	None	None	7797798	7808322	-1	None	KIN17
10	KIN	ENSG00000151657	ENST00000460089	processed_transcript	KNOWN	None	6327	None	None	7803196	7816841	-1	None	KIN17
10	KIN	ENSG00000151657	ENST00000535925	protein_coding	KNOWN	None	6327	1125	374	7795276	7829990	-1	None	KIN17
10	KIN	ENSG00000151657	ENST00000543003	protein_coding	KNOWN	None	6327	867	288	7801234	7829953	-1	None	KIN17
12	RARG	ENSG00000172819	ENST00000425354	protein_coding	KNOWN	CCDS8850	9866	1365	454	53604354	53626036	-1	None	RARC, NR1B3
12	RARG	ENSG00000172819	ENST00000338561	protein_coding	KNOWN	CCDS41790	9866	1332	443	53605115	53614043	-1	None	RARC, NR1B3
12	RARG	ENSG00000172819	ENST00000543726	protein_coding	KNOWN	CCDS58237	9866	1299	432	53605177	53614197	-1	None	RARC, NR1B3
12	RARG	ENSG00000172819	ENST00000543762	processed_transcript	KNOWN	None	9866	None	None	53605198	53626016	-1	None	RARC, NR1B3
12	RARG	ENSG00000172819	ENST00000550265	retained_intron	KNOWN	None	9866	None	None	53607021	53614161	-1	None	RARC, NR1B3
12	RARG	ENSG00000172819	ENST00000548317	retained_intron	KNOWN	None	9866	None	None	53607724	53609136	-1	None	RARC, NR1B3
12	RARG	ENSG00000172819	ENST00000551580	retained_intron	KNOWN	None	9866	None	None	53607878	53608641	-1	None	RARC, NR1B3
12	RARG	ENSG00000172819	ENST00000548284	retained_intron	KNOWN	None	9866	None	None	53609158	53613868	-1	None	RARC, NR1B3
12	RARG	ENSG00000172819	ENST00000546717	protein_coding	KNOWN	None	9866	172	56	53621158	53625998	-1	None	RARC, NR1B3
12	RARG	ENSG00000172819	ENST00000551158	protein_coding	KNOWN	None	9866	98	31	53621232	53626354	-1	None	RARC, NR1B3
12	RARG	ENSG00000172819	ENST00000550362	protein_coding	KNOWN	None	9866	46	14	53621284	53626764	-1	None	RARC, NR1B3
12	RARG	ENSG00000172819	ENST00000550721	processed_transcript	KNOWN	None	9866	None	None	53621340	53626705	-1	None	RARC, NR1B3
12	RARG	ENSG00000172819	ENST00000550350	processed_transcript	KNOWN	None	9866	None	None	53621342	53626000	-1	None	RARC, NR1B3
12	RARG	ENSG00000172819	ENST00000551501	processed_transcript	KNOWN	None	9866	None	None	53621382	53626015	-1	None	RARC, NR1B3
12	RARG	ENSG00000172819	ENST00000546377	processed_transcript	KNOWN	None	9866	None	None	53621392	53626006	-1	None	RARC, NR1B3
12	RARG	ENSG00000172819	ENST00000549859	processed_transcript	KNOWN	None	9866	None	None	53621419	53625972	-1	None	RARC, NR1B3
12	RARG	ENSG00000172819	ENST00000552901	processed_transcript	KNOWN	None	9866	None	None	53624952	53626370	-1	None	RARC, NR1B3
12	RARG	ENSG00000172819	ENST00000394426	protein_coding	KNOWN	CCDS8850	9866	1365	454	53604354	53626036	-1	None	RARC, NR1B3
12	RARG	ENSG00000172819	ENST00000327550	protein_coding	KNOWN	CCDS58236	9866	1149	382	53604835	53625958	-1	None	RARC, NR1B3
7	SRRT	ENSG00000087087	ENST00000473047	retained_intron	KNOWN	None	24101	None	None	100472733	100473557	1	None	Asr2, serrate, ARS2
7	SRRT	ENSG00000087087	ENST00000457580	protein_coding	KNOWN	CCDS47665	24101	2619	872	100472748	100486285	1	None	Asr2, serrate, ARS2
7	SRRT	ENSG00000087087	ENST00000388793	protein_coding	KNOWN	CCDS47666	24101	2628	875	100472748	100486285	1	None	Asr2, serrate, ARS2
7	SRRT	ENSG00000087087	ENST00000448716	nonsense_mediated_decay	KNOWN	None	24101	153	50	100472785	100479326	1	None	Asr2, serrate, ARS2
7	SRRT	ENSG00000087087	ENST00000432932	protein_coding	KNOWN	CCDS47667	24101	2616	871	100472807	100486285	1	None	Asr2, serrate, ARS2
7	SRRT	ENSG00000087087	ENST00000347433	protein_coding	NOVEL	CCDS34709	24101	2631	876	100472810	100486285	1	None	Asr2, serrate, ARS2
7	SRRT	ENSG00000087087	ENST00000431645	protein_coding	PUTATIVE	None	24101	336	111	100473011	100479343	1	None	Asr2, serrate, ARS2
7	SRRT	ENSG00000087087	ENST00000423692	nonsense_mediated_decay	KNOWN	None	24101	232	76	100479385	100481860	1	None	Asr2, serrate, ARS2
7	SRRT	ENSG00000087087	ENST00000474896	retained_intron	KNOWN	None	24101	None	None	100480341	100482173	1	None	Asr2, serrate, ARS2
7	SRRT	ENSG00000087087	ENST00000460194	retained_intron	KNOWN	None	24101	None	None	100482375	100483208	1	None	Asr2, serrate, ARS2
7	SRRT	ENSG00000087087	ENST00000448764	protein_coding	NOVEL	None	24101	1500	499	100482613	100486277	1	None	Asr2, serrate, ARS2
7	SRRT	ENSG00000087087	ENST00000449389	nonsense_mediated_decay	KNOWN	None	24101	142	46	100482916	100484445	1	None	Asr2, serrate, ARS2
7	SRRT	ENSG00000087087	ENST00000466432	retained_intron	KNOWN	None	24101	None	None	100483329	100483806	1	None	Asr2, serrate, ARS2
7	SRRT	ENSG00000087087	ENST00000487311	retained_intron	KNOWN	None	24101	None	None	100484181	100484821	1	None	Asr2, serrate, ARS2
7	SRRT	ENSG00000087087	ENST00000469602	retained_intron	KNOWN	None	24101	None	None	100484623	100485117	1	None	Asr2, serrate, ARS2
7	SRRT	ENSG00000087087	ENST00000478693	retained_intron	KNOWN	None	24101	None	None	100484969	100485994	1	None	Asr2, serrate, ARS2
7	SRRT	ENSG00000087087	ENST00000445337	non_stop_decay	KNOWN	None	24101	446	147	100485324	100486281	1	None	Asr2, serrate, ARS2
7	SRRT	ENSG00000087087	ENST00000477529	retained_intron	KNOWN	None	24101	None	None	100485656	100486285	1	None	Asr2, serrate, ARS2
12	LRRC43	ENSG00000158113	ENST00000537729	protein_coding	PUTATIVE	None	28562	441	146	122652285	122676021	1	None	MGC35140
12	LRRC43	ENSG00000158113	ENST00000537113	retained_intron	KNOWN	None	28562	None	None	122667549	122672473	1	None	MGC35140
12	LRRC43	ENSG00000158113	ENST00000339777	protein_coding	KNOWN	CCDS45001	28562	1971	656	122667664	122688018	1	None	MGC35140
12	LRRC43	ENSG00000158113	ENST00000541498	processed_transcript	KNOWN	None	28562	None	None	122667673	122685325	1	None	MGC35140
12	LRRC43	ENSG00000158113	ENST00000538800	processed_transcript	KNOWN	None	28562	None	None	122669066	122672024	1	None	MGC35140
12	LRRC43	ENSG00000158113	ENST00000537733	processed_transcript	KNOWN	None	28562	None	None	122685139	122686970	1	None	MGC35140
12	LRRC43	ENSG00000158113	ENST00000425921	protein_coding	KNOWN	CCDS41854	28562	1416	471	122667667	122688017	1	None	MGC35140
19	None	ENSG00000272333	ENST00000420124	protein_coding	KNOWN	None	None	8148	2715	36208921	36229779	1	None	None
19	None	ENSG00000272333	ENST00000222270	protein_coding	KNOWN	CCDS46055	None	8148	2715	36208921	36229779	1	None	None
19	None	ENSG00000272333	ENST00000341701	protein_coding	KNOWN	None	None	1749	582	36208921	36212431	1	None	None
X	RBM3	ENSG00000102317	ENST00000472897	processed_transcript	KNOWN	None	9900	None	None	48432837	48434979	1	None	IS1-RNPL
X	RBM3	ENSG00000102317	ENST00000488216	processed_transcript	KNOWN	None	9900	None	None	48432872	48434807	1	None	IS1-RNPL
X	RBM3	ENSG00000102317	ENST00000466764	processed_transcript	KNOWN	None	9900	None	None	48432879	48436365	1	None	IS1-RNPL
X	RBM3	ENSG00000102317	ENST00000490127	processed_transcript	KNOWN	None	9900	None	None	48432899	48434908	1	None	IS1-RNPL
X	RBM3	ENSG00000102317	ENST00000491240	processed_transcript	KNOWN	None	9900	None	None	48432912	48434456	1	None	IS1-RNPL
X	RBM3	ENSG00000102317	ENST00000489344	processed_transcript	KNOWN	None	9900	None	None	48432912	48436123	1	None	IS1-RNPL
X	RBM3	ENSG00000102317	ENST00000376759	protein_coding	KNOWN	CCDS14301	9900	474	157	48432912	48437454	1	None	IS1-RNPL
X	RBM3	ENSG00000102317	ENST00000485213	processed_transcript	KNOWN	None	9900	None	None	48432924	48434741	1	None	IS1-RNPL
X	RBM3	ENSG00000102317	ENST00000376755	protein_coding	KNOWN	CCDS14301	9900	474	157	48433340	48436256	1	None	IS1-RNPL
X	RBM3	ENSG00000102317	ENST00000491236	processed_transcript	KNOWN	None	9900	None	None	48433378	48434383	1	None	IS1-RNPL
X	RBM3	ENSG00000102317	ENST00000354480	protein_coding	KNOWN	None	9900	468	155	48434287	48436679	1	None	IS1-RNPL
X	RBM3	ENSG00000102317	ENST00000430348	protein_coding	KNOWN	None	9900	510	169	48432926	48436671	1	None	IS1-RNPL
1	GJC2	ENSG00000198835	ENST00000366714	protein_coding	KNOWN	CCDS1569	17494	1320	439	228337553	228347527	1	GJA12	CX47, CX46.6, SPG44
X	ARMCX2	ENSG00000184867	ENST00000330154	protein_coding	KNOWN	CCDS14490	16869	1899	632	100910267	100913635	-1	None	ALEX2, KIAA0512
X	ARMCX2	ENSG00000184867	ENST00000328766	protein_coding	KNOWN	CCDS14490	16869	1899	632	100910267	100914829	-1	None	ALEX2, KIAA0512
X	ARMCX2	ENSG00000184867	ENST00000356824	protein_coding	KNOWN	CCDS14490	16869	1899	632	100910453	100914876	-1	None	ALEX2, KIAA0512
X	ARMCX2	ENSG00000184867	ENST00000413506	protein_coding	KNOWN	None	16869	502	166	100912073	100914819	-1	None	ALEX2, KIAA0512
X	ARMCX2	ENSG00000184867	ENST00000433318	protein_coding	KNOWN	None	16869	496	164	100912079	100913607	-1	None	ALEX2, KIAA0512
X	ARMCX2	ENSG00000184867	ENST00000440675	protein_coding	KNOWN	None	16869	314	103	100912261	100914820	-1	None	ALEX2, KIAA0512
X	ARMCX2	ENSG00000184867	ENST00000458024	protein_coding	KNOWN	None	16869	278	91	100912297	100914816	-1	None	ALEX2, KIAA0512
X	ARMCX2	ENSG00000184867	ENST00000467416	processed_transcript	KNOWN	None	16869	None	None	100912343	100913580	-1	None	ALEX2, KIAA0512
X	ARMCX2	ENSG00000184867	ENST00000431597	protein_coding	KNOWN	None	16869	188	61	100912387	100914781	-1	None	ALEX2, KIAA0512
X	ARMCX2	ENSG00000184867	ENST00000479333	processed_transcript	KNOWN	None	16869	None	None	100912504	100914821	-1	None	ALEX2, KIAA0512
X	ARMCX2	ENSG00000184867	ENST00000496581	processed_transcript	KNOWN	None	16869	None	None	100912653	100914818	-1	None	ALEX2, KIAA0512
X	ARMCX2	ENSG00000184867	ENST00000488982	processed_transcript	KNOWN	None	16869	None	None	100913067	100914163	-1	None	ALEX2, KIAA0512
X	ARMCX2	ENSG00000184867	ENST00000475854	processed_transcript	KNOWN	None	16869	None	None	100914186	100914815	-1	None	ALEX2, KIAA0512
9	RPP25L	ENSG00000164967	ENST00000378959	protein_coding	KNOWN	CCDS6559	19909	492	163	34610483	34612101	-1	C9orf23	bA296L22.5, MGC29635
9	RPP25L	ENSG00000164967	ENST00000297613	protein_coding	KNOWN	CCDS6559	19909	492	163	34610483	34612101	-1	C9orf23	bA296L22.5, MGC29635
1	C1orf148	ENSG00000203684	ENST00000366713	protein_coding	KNOWN	None	32062	333	110	228351787	228353213	-1	C1orf148	FLJ32878
1	C1orf148	ENSG00000203684	ENST00000496552	processed_transcript	KNOWN	None	32062	None	None	228351795	228352549	-1	C1orf148	FLJ32878
2	C2orf66	ENSG00000187944	ENST00000342506	protein_coding	KNOWN	CCDS2317	33809	354	117	197669726	197675000	-1	None	UNQ6411
4	ARL9	ENSG00000196503	ENST00000360096	protein_coding	KNOWN	CCDS59474	23592	372	123	57371509	57390614	1	None	None
1	IBA57	ENSG00000181873	ENST00000366711	protein_coding	KNOWN	CCDS31046	27302	1071	356	228353516	228369958	1	C1orf69	FLJ12734
1	IBA57	ENSG00000181873	ENST00000484749	processed_transcript	KNOWN	None	27302	None	None	228358879	228369958	1	C1orf69	FLJ12734
1	IBA57	ENSG00000181873	ENST00000546123	protein_coding	KNOWN	None	27302	492	163	228362251	228363276	1	C1orf69	FLJ12734
17	KCTD11	ENSG00000213859	ENST00000576980	processed_transcript	PUTATIVE	None	21302	None	None	7255208	7255915	1	C17orf36	REN, KCASH1
17	KCTD11	ENSG00000213859	ENST00000333751	protein_coding	KNOWN	CCDS32545	21302	699	232	7255208	7258258	1	C17orf36	REN, KCASH1
X	G6PD	ENSG00000160211	ENST00000393562	protein_coding	KNOWN	CCDS14756	4057	1638	545	153759606	153775469	-1	None	G6PD1
X	G6PD	ENSG00000160211	ENST00000393564	protein_coding	KNOWN	CCDS44023	4057	1548	515	153760215	153775787	-1	None	G6PD1
X	G6PD	ENSG00000160211	ENST00000369620	protein_coding	KNOWN	None	4057	1686	561	153760215	153775787	-1	None	G6PD1
X	G6PD	ENSG00000160211	ENST00000490651	retained_intron	KNOWN	None	4057	None	None	153760298	153761289	-1	None	G6PD1
X	G6PD	ENSG00000160211	ENST00000439227	protein_coding	NOVEL	None	4057	1016	337	153761195	153775053	-1	None	G6PD1
X	G6PD	ENSG00000160211	ENST00000440967	protein_coding	NOVEL	None	4057	962	319	153761249	153775772	-1	None	G6PD1
X	G6PD	ENSG00000160211	ENST00000489497	retained_intron	KNOWN	None	4057	None	None	153761532	153762408	-1	None	G6PD1
X	G6PD	ENSG00000160211	ENST00000433845	protein_coding	KNOWN	None	4057	769	255	153762251	153775047	-1	None	G6PD1
X	G6PD	ENSG00000160211	ENST00000497281	processed_transcript	KNOWN	None	4057	None	None	153763290	153774324	-1	None	G6PD1
X	G6PD	ENSG00000160211	ENST00000488434	retained_intron	KNOWN	None	4057	None	None	153763941	153774324	-1	None	G6PD1
5	FNDC9	ENSG00000172568	ENST00000312349	protein_coding	KNOWN	CCDS4337	33547	675	224	156768608	156772729	-1	C5orf40	MGC27121
5	FNDC9	ENSG00000172568	ENST00000520782	protein_coding	KNOWN	None	33547	541	179	156770004	156772572	-1	C5orf40	MGC27121
1	C1orf145	ENSG00000162913	ENST00000295012	protein_coding	NOVEL	None	32047	342	113	228391207	228401361	-1	None	FLJ31994
1	C1orf145	ENSG00000162913	ENST00000472613	nonsense_mediated_decay	KNOWN	None	32047	286	94	228391686	228401347	-1	None	FLJ31994
1	C1orf145	ENSG00000162913	ENST00000337335	nonsense_mediated_decay	KNOWN	None	32047	477	158	228392167	228401365	-1	None	FLJ31994
1	LRP8	ENSG00000157193	ENST00000306052	protein_coding	KNOWN	CCDS578	6700	2892	963	53711217	53793686	-1	None	APOER2, MCI1, LRP-8, HSZ75190
1	LRP8	ENSG00000157193	ENST00000529670	nonsense_mediated_decay	KNOWN	None	6700	365	120	53711421	53722995	-1	None	APOER2, MCI1, LRP-8, HSZ75190
1	LRP8	ENSG00000157193	ENST00000371454	protein_coding	KNOWN	CCDS30720	6700	2715	904	53712225	53793726	-1	None	APOER2, MCI1, LRP-8, HSZ75190
1	LRP8	ENSG00000157193	ENST00000465675	protein_coding	PUTATIVE	None	6700	1374	457	53712240	53793071	-1	None	APOER2, MCI1, LRP-8, HSZ75190
1	LRP8	ENSG00000157193	ENST00000354412	protein_coding	KNOWN	CCDS579	6700	2103	700	53712240	53793584	-1	None	APOER2, MCI1, LRP-8, HSZ75190
1	LRP8	ENSG00000157193	ENST00000480045	nonsense_mediated_decay	KNOWN	None	6700	1179	392	53712630	53793742	-1	None	APOER2, MCI1, LRP-8, HSZ75190
1	LRP8	ENSG00000157193	ENST00000347547	protein_coding	NOVEL	CCDS580	6700	2382	793	53712690	53793584	-1	None	APOER2, MCI1, LRP-8, HSZ75190
1	LRP8	ENSG00000157193	ENST00000459674	retained_intron	KNOWN	None	6700	None	None	53716437	53734270	-1	None	APOER2, MCI1, LRP-8, HSZ75190
1	LRP8	ENSG00000157193	ENST00000460214	processed_transcript	KNOWN	None	6700	None	None	53722915	53728169	-1	None	APOER2, MCI1, LRP-8, HSZ75190
1	LRP8	ENSG00000157193	ENST00000481431	nonsense_mediated_decay	KNOWN	None	6700	406	134	53726136	53732261	-1	None	APOER2, MCI1, LRP-8, HSZ75190
1	LRP8	ENSG00000157193	ENST00000475501	protein_coding	NOVEL	None	6700	721	239	53729841	53741335	-1	None	APOER2, MCI1, LRP-8, HSZ75190
1	LRP8	ENSG00000157193	ENST00000496580	retained_intron	KNOWN	None	6700	None	None	53755004	53793489	-1	None	APOER2, MCI1, LRP-8, HSZ75190
11	ESAM	ENSG00000149564	ENST00000444566	protein_coding	PUTATIVE	None	17474	424	140	124622479	124632186	-1	None	W117m
11	ESAM	ENSG00000149564	ENST00000485116	retained_intron	KNOWN	None	17474	None	None	124623019	124627433	-1	None	W117m
11	ESAM	ENSG00000149564	ENST00000417453	nonsense_mediated_decay	KNOWN	None	17474	738	245	124623019	124632176	-1	None	W117m
11	ESAM	ENSG00000149564	ENST00000278927	protein_coding	KNOWN	CCDS8453	17474	1173	390	124623019	124632180	-1	None	W117m
11	ESAM	ENSG00000149564	ENST00000464067	retained_intron	KNOWN	None	17474	None	None	124623095	124627425	-1	None	W117m
11	ESAM	ENSG00000149564	ENST00000435477	protein_coding	PUTATIVE	None	17474	445	147	124624141	124632186	-1	None	W117m
11	ESAM	ENSG00000149564	ENST00000442070	protein_coding	KNOWN	None	17474	426	141	124622026	124632186	-1	None	W117m
17	TMEM95	ENSG00000182896	ENST00000389982	protein_coding	KNOWN	None	27898	612	203	7258442	7260537	1	None	MGC129793, UNQ9390
17	TMEM95	ENSG00000182896	ENST00000576060	protein_coding	KNOWN	None	27898	531	176	7258497	7260015	1	None	MGC129793, UNQ9390
17	TMEM95	ENSG00000182896	ENST00000330767	protein_coding	KNOWN	CCDS32546	27898	555	184	7258497	7260538	1	None	MGC129793, UNQ9390
5	AP3B1	ENSG00000132842	ENST00000255194	protein_coding	KNOWN	CCDS4041	566	3285	1094	77296349	77590579	-1	None	ADTB3A, HPS2
5	AP3B1	ENSG00000132842	ENST00000519295	protein_coding	PUTATIVE	None	566	3138	1045	77298150	77590516	-1	None	ADTB3A, HPS2
5	AP3B1	ENSG00000132842	ENST00000522901	protein_coding	PUTATIVE	None	566	464	153	77298162	77334974	-1	None	ADTB3A, HPS2
5	AP3B1	ENSG00000132842	ENST00000520122	retained_intron	KNOWN	None	566	None	None	77298819	77311697	-1	None	ADTB3A, HPS2
5	AP3B1	ENSG00000132842	ENST00000523204	processed_transcript	KNOWN	None	566	None	None	77316532	77339074	-1	None	ADTB3A, HPS2
5	AP3B1	ENSG00000132842	ENST00000519888	processed_transcript	KNOWN	None	566	None	None	77383320	77409594	-1	None	ADTB3A, HPS2
5	AP3B1	ENSG00000132842	ENST00000517940	retained_intron	KNOWN	None	566	None	None	77384805	77412011	-1	None	ADTB3A, HPS2
5	AP3B1	ENSG00000132842	ENST00000517561	processed_transcript	KNOWN	None	566	None	None	77417546	77436994	-1	None	ADTB3A, HPS2
17	PYCR1	ENSG00000183010	ENST00000329875	protein_coding	KNOWN	CCDS11795	9721	960	319	79890260	79894755	-1	None	P5C
17	PYCR1	ENSG00000183010	ENST00000337943	protein_coding	KNOWN	CCDS11794	9721	951	316	79890260	79895133	-1	None	P5C
17	PYCR1	ENSG00000183010	ENST00000403172	protein_coding	NOVEL	None	9721	867	288	79890260	79895204	-1	None	P5C
17	PYCR1	ENSG00000183010	ENST00000577756	protein_coding	PUTATIVE	None	9721	654	217	79890797	79894745	-1	None	P5C
17	PYCR1	ENSG00000183010	ENST00000584848	protein_coding	PUTATIVE	None	9721	522	173	79890805	79894651	-1	None	P5C
17	PYCR1	ENSG00000183010	ENST00000402252	protein_coding	PUTATIVE	None	9721	1041	346	79890811	79895115	-1	None	P5C
17	PYCR1	ENSG00000183010	ENST00000582198	protein_coding	PUTATIVE	None	9721	728	241	79891232	79900288	-1	None	P5C
17	PYCR1	ENSG00000183010	ENST00000405481	protein_coding	KNOWN	None	9721	759	252	79892240	79895172	-1	None	P5C
17	PYCR1	ENSG00000183010	ENST00000585215	protein_coding	KNOWN	None	9721	677	224	79892322	79895176	-1	None	P5C
17	PYCR1	ENSG00000183010	ENST00000577624	protein_coding	NOVEL	None	9721	397	131	79892582	79895203	-1	None	P5C
17	PYCR1	ENSG00000183010	ENST00000579698	protein_coding	KNOWN	None	9721	495	164	79892847	79895133	-1	None	P5C
17	PYCR1	ENSG00000183010	ENST00000579366	protein_coding	PUTATIVE	None	9721	328	108	79892924	79898955	-1	None	P5C
17	PYCR1	ENSG00000183010	ENST00000581271	protein_coding	KNOWN	None	9721	346	114	79892996	79895538	-1	None	P5C
17	PYCR1	ENSG00000183010	ENST00000583564	protein_coding	KNOWN	None	9721	283	93	79893248	79895115	-1	None	P5C
17	PYCR1	ENSG00000183010	ENST00000585244	protein_coding	KNOWN	None	9721	252	83	79893279	79895124	-1	None	P5C
7	None	ENSG00000230825	ENST00000430266	lincRNA	KNOWN	None	None	None	None	7294785	7317410	1	None	None
7	None	ENSG00000230825	ENST00000436578	retained_intron	KNOWN	None	None	None	None	7306539	7317355	1	None	None
7	None	ENSG00000230825	ENST00000447039	lincRNA	KNOWN	None	None	None	None	7311039	7317404	1	None	None
10	MTRNR2L7	ENSG00000256892	ENST00000544824	protein_coding	KNOWN	CCDS53524	37164	75	24	37890366	37891859	-1	None	None
7	None	ENSG00000236712	ENST00000449377	processed_pseudogene	KNOWN	None	None	None	None	7333139	7333511	1	None	None
17	CCL3	ENSG00000006075	ENST00000225245	protein_coding	KNOWN	CCDS11307	10627	279	92	34415602	34417487	-1	SCYA3	G0S19-1, LD78ALPHA, MIP-1-alpha
17	CCL3	ENSG00000006075	ENST00000470334	retained_intron	KNOWN	None	10627	None	None	34415602	34417515	-1	SCYA3	G0S19-1, LD78ALPHA, MIP-1-alpha
17	CCL3	ENSG00000006075	ENST00000585830	retained_intron	KNOWN	None	10627	None	None	34415639	34417480	-1	SCYA3	G0S19-1, LD78ALPHA, MIP-1-alpha
2	PGAP1	ENSG00000197121	ENST00000423035	nonsense_mediated_decay	KNOWN	None	25712	153	50	197699908	197791379	-1	None	FLJ12377, Bst1
2	PGAP1	ENSG00000197121	ENST00000354764	protein_coding	KNOWN	CCDS2318	25712	2769	922	197700306	197791455	-1	None	FLJ12377, Bst1
2	PGAP1	ENSG00000197121	ENST00000422444	protein_coding	PUTATIVE	None	25712	480	159	197700314	197710707	-1	None	FLJ12377, Bst1
2	PGAP1	ENSG00000197121	ENST00000459896	processed_transcript	KNOWN	None	25712	None	None	197702595	197707549	-1	None	FLJ12377, Bst1
2	PGAP1	ENSG00000197121	ENST00000470179	retained_intron	KNOWN	None	25712	None	None	197706063	197791464	-1	None	FLJ12377, Bst1
2	PGAP1	ENSG00000197121	ENST00000409475	protein_coding	KNOWN	None	25712	1779	592	197712200	197791454	-1	None	FLJ12377, Bst1
2	PGAP1	ENSG00000197121	ENST00000476250	retained_intron	KNOWN	None	25712	None	None	197737350	197738680	-1	None	FLJ12377, Bst1
2	PGAP1	ENSG00000197121	ENST00000482051	processed_transcript	KNOWN	None	25712	None	None	197737684	197755581	-1	None	FLJ12377, Bst1
2	PGAP1	ENSG00000197121	ENST00000409188	protein_coding	PUTATIVE	None	25712	915	304	197750177	197792519	-1	None	FLJ12377, Bst1
2	PGAP1	ENSG00000197121	ENST00000374738	protein_coding	PUTATIVE	None	25712	548	181	197750570	197791469	-1	None	FLJ12377, Bst1
2	PGAP1	ENSG00000197121	ENST00000485830	processed_transcript	KNOWN	None	25712	None	None	197755591	197792520	-1	None	FLJ12377, Bst1
7	None	ENSG00000270314	ENST00000604734	processed_pseudogene	KNOWN	None	None	None	None	7775374	7776482	-1	None	None
7	None	ENSG00000234718	ENST00000418534	lincRNA	KNOWN	None	None	None	None	7778165	7782204	-1	None	None
7	None	ENSG00000234718	ENST00000599208	lincRNA	KNOWN	None	None	None	None	7778270	7780751	-1	None	None
7	None	ENSG00000269721	ENST00000423039	transcribed_processed_pseudogene	KNOWN	None	None	None	None	7781722	7782166	-1	None	None
8	MCM4	ENSG00000104738	ENST00000518221	protein_coding	PUTATIVE	None	6947	422	139	48872745	48874887	1	CDC21	CDC54, hCdc21, P1-Cdc21, MGC33310
8	MCM4	ENSG00000104738	ENST00000523944	protein_coding	PUTATIVE	CCDS6143	6947	2592	863	48873458	48890720	1	CDC21	CDC54, hCdc21, P1-Cdc21, MGC33310
8	MCM4	ENSG00000104738	ENST00000262105	protein_coding	KNOWN	CCDS6143	6947	2592	863	48873496	48890720	1	CDC21	CDC54, hCdc21, P1-Cdc21, MGC33310
8	MCM4	ENSG00000104738	ENST00000520994	retained_intron	KNOWN	None	6947	None	None	48873509	48874146	1	CDC21	CDC54, hCdc21, P1-Cdc21, MGC33310
8	MCM4	ENSG00000104738	ENST00000520934	retained_intron	KNOWN	None	6947	None	None	48873512	48874709	1	CDC21	CDC54, hCdc21, P1-Cdc21, MGC33310
8	MCM4	ENSG00000104738	ENST00000524086	nonsense_mediated_decay	KNOWN	None	6947	246	81	48873518	48874966	1	CDC21	CDC54, hCdc21, P1-Cdc21, MGC33310
8	MCM4	ENSG00000104738	ENST00000519170	protein_coding	PUTATIVE	None	6947	635	210	48874057	48877225	1	CDC21	CDC54, hCdc21, P1-Cdc21, MGC33310
8	MCM4	ENSG00000104738	ENST00000519138	retained_intron	KNOWN	None	6947	None	None	48874417	48878880	1	CDC21	CDC54, hCdc21, P1-Cdc21, MGC33310
8	MCM4	ENSG00000104738	ENST00000520637	protein_coding	PUTATIVE	None	6947	836	277	48877152	48883318	1	CDC21	CDC54, hCdc21, P1-Cdc21, MGC33310
8	MCM4	ENSG00000104738	ENST00000518680	processed_transcript	KNOWN	None	6947	None	None	48881585	48883295	1	CDC21	CDC54, hCdc21, P1-Cdc21, MGC33310
8	MCM4	ENSG00000104738	ENST00000517709	retained_intron	KNOWN	None	6947	None	None	48882246	48884004	1	CDC21	CDC54, hCdc21, P1-Cdc21, MGC33310
8	MCM4	ENSG00000104738	ENST00000519470	retained_intron	KNOWN	None	6947	None	None	48883069	48884030	1	CDC21	CDC54, hCdc21, P1-Cdc21, MGC33310
8	MCM4	ENSG00000104738	ENST00000523853	retained_intron	KNOWN	None	6947	None	None	48883884	48885625	1	CDC21	CDC54, hCdc21, P1-Cdc21, MGC33310
8	MCM4	ENSG00000104738	ENST00000518382	nonsense_mediated_decay	KNOWN	None	6947	83	26	48883992	48888395	1	CDC21	CDC54, hCdc21, P1-Cdc21, MGC33310
8	MCM4	ENSG00000104738	ENST00000521261	retained_intron	KNOWN	None	6947	None	None	48886252	48888345	1	CDC21	CDC54, hCdc21, P1-Cdc21, MGC33310
8	MCM4	ENSG00000104738	ENST00000521151	retained_intron	KNOWN	None	6947	None	None	48887858	48889819	1	CDC21	CDC54, hCdc21, P1-Cdc21, MGC33310
7	RNU6-534P	ENSG00000201747	ENST00000364877	snRNA	KNOWN	None	47497	None	None	7946150	7946255	1	None	None
1	DMRTB1	ENSG00000143006	ENST00000371445	protein_coding	KNOWN	CCDS581	13913	1029	342	53925072	53933161	1	None	None
1	DMRTB1	ENSG00000143006	ENST00000463126	processed_transcript	KNOWN	None	13913	None	None	53925649	53930352	1	None	None
7	None	ENSG00000214998	ENST00000399411	processed_pseudogene	KNOWN	None	None	None	None	7948931	7950080	-1	None	None
10	ZNF248	ENSG00000198105	ENST00000485560	nonsense_mediated_decay	KNOWN	None	13041	336	111	38091751	38146479	-1	None	bA162G10.3
10	ZNF248	ENSG00000198105	ENST00000395867	protein_coding	KNOWN	CCDS7194	13041	1740	579	38117693	38146538	-1	None	bA162G10.3
10	ZNF248	ENSG00000198105	ENST00000494133	processed_transcript	KNOWN	None	13041	None	None	38118206	38127039	-1	None	bA162G10.3
10	ZNF248	ENSG00000198105	ENST00000374648	protein_coding	KNOWN	CCDS58077	13041	360	119	38119784	38146486	-1	None	bA162G10.3
10	ZNF248	ENSG00000198105	ENST00000395873	protein_coding	KNOWN	None	13041	300	99	38121983	38146965	-1	None	bA162G10.3
10	ZNF248	ENSG00000198105	ENST00000395874	protein_coding	KNOWN	None	13041	209	68	38126574	38147034	-1	None	bA162G10.3
10	ZNF248	ENSG00000198105	ENST00000357328	protein_coding	KNOWN	CCDS7194	13041	1740	579	38120463	38147012	-1	None	bA162G10.3
7	None	ENSG00000234141	ENST00000451066	antisense	KNOWN	None	None	None	None	7989484	7990340	-1	None	None
7	None	ENSG00000233108	ENST00000428660	antisense	KNOWN	None	None	None	None	7997814	8009534	-1	None	None
1	GLIS1	ENSG00000174332	ENST00000312233	protein_coding	KNOWN	CCDS582	29525	1863	620	53971910	54199877	-1	None	FLJ36155
7	None	ENSG00000233264	ENST00000454684	processed_pseudogene	KNOWN	None	None	None	None	8019943	8021859	1	None	None
7	None	ENSG00000227719	ENST00000449931	antisense	KNOWN	None	None	None	None	8153655	8156191	1	None	None
16	SDR42E2	ENSG00000183921	ENST00000602312	protein_coding	PUTATIVE	None	35414	1167	388	22177618	22203075	1	None	None
16	SDR42E2	ENSG00000183921	ENST00000330898	protein_coding	KNOWN	None	35414	465	154	22178282	22192929	1	None	None
7	None	ENSG00000265212	ENST00000577980	miRNA	NOVEL	None	None	None	None	8194566	8194652	-1	None	None
7	None	ENSG00000244239	ENST00000458624	antisense	KNOWN	None	None	None	None	8301863	8302451	1	None	None
2	SPR	ENSG00000116096	ENST00000234454	protein_coding	KNOWN	CCDS1920	11257	786	261	73114489	73119287	1	None	SDR38C1
2	SPR	ENSG00000116096	ENST00000498749	processed_transcript	PUTATIVE	None	11257	None	None	73114511	73118882	1	None	SDR38C1
15	CIB1	ENSG00000185043	ENST00000328649	protein_coding	KNOWN	CCDS10360	16920	576	191	90773207	90777279	-1	None	SIP2-28, CALMYRIN, CIB, KIP
7	None	ENSG00000229970	ENST00000424460	antisense	KNOWN	None	None	None	None	8301894	8384146	1	None	None
12	IL31	ENSG00000204671	ENST00000377035	protein_coding	KNOWN	CCDS31919	19372	495	164	122656577	122658746	-1	None	IL-31
14	TTC8	ENSG00000165533	ENST00000556077	nonsense_mediated_decay	KNOWN	None	20087	636	211	89290497	89319390	1	None	BBS8, RP51
14	TTC8	ENSG00000165533	ENST00000553718	nonsense_mediated_decay	KNOWN	None	20087	126	41	89290938	89300350	1	None	BBS8, RP51
14	TTC8	ENSG00000165533	ENST00000345383	protein_coding	KNOWN	CCDS9885	20087	1518	505	89290968	89344335	1	None	BBS8, RP51
14	TTC8	ENSG00000165533	ENST00000556567	retained_intron	KNOWN	None	20087	None	None	89290995	89319378	1	None	BBS8, RP51
14	TTC8	ENSG00000165533	ENST00000346301	protein_coding	KNOWN	CCDS9886	20087	1428	475	89291000	89344332	1	None	BBS8, RP51
14	TTC8	ENSG00000165533	ENST00000338104	protein_coding	KNOWN	None	20087	1596	531	89291000	89344332	1	None	BBS8, RP51
14	TTC8	ENSG00000165533	ENST00000354441	protein_coding	KNOWN	None	20087	753	250	89291004	89344295	1	None	BBS8, RP51
14	TTC8	ENSG00000165533	ENST00000380656	protein_coding	KNOWN	CCDS32137	20087	1548	515	89291006	89344331	1	None	BBS8, RP51
14	TTC8	ENSG00000165533	ENST00000555057	nonsense_mediated_decay	KNOWN	None	20087	561	186	89291016	89344315	1	None	BBS8, RP51
14	TTC8	ENSG00000165533	ENST00000556651	protein_coding	NOVEL	None	20087	576	191	89291029	89319341	1	None	BBS8, RP51
14	TTC8	ENSG00000165533	ENST00000554686	protein_coding	NOVEL	None	20087	1313	436	89291083	89344300	1	None	BBS8, RP51
14	TTC8	ENSG00000165533	ENST00000556133	retained_intron	KNOWN	None	20087	None	None	89307183	89323609	1	None	BBS8, RP51
14	TTC8	ENSG00000165533	ENST00000557580	protein_coding	NOVEL	None	20087	794	263	89307829	89341451	1	None	BBS8, RP51
14	TTC8	ENSG00000165533	ENST00000358622	protein_coding	KNOWN	None	20087	954	317	89307872	89344331	1	None	BBS8, RP51
14	TTC8	ENSG00000165533	ENST00000536576	protein_coding	KNOWN	None	20087	831	276	89290978	89344331	1	None	BBS8, RP51
19	MED25	ENSG00000104973	ENST00000593595	retained_intron	KNOWN	None	28845	None	None	50321539	50322139	1	None	ARC92, ACID1, TCBAP0758, DKFZp434K0512
19	MED25	ENSG00000104973	ENST00000593636	retained_intron	KNOWN	None	28845	None	None	50321546	50323207	1	None	ARC92, ACID1, TCBAP0758, DKFZp434K0512
19	MED25	ENSG00000104973	ENST00000312865	protein_coding	KNOWN	CCDS33075	28845	2244	747	50321546	50340236	1	None	ARC92, ACID1, TCBAP0758, DKFZp434K0512
19	MED25	ENSG00000104973	ENST00000595185	protein_coding	PUTATIVE	None	28845	760	252	50321599	50340219	1	None	ARC92, ACID1, TCBAP0758, DKFZp434K0512
19	MED25	ENSG00000104973	ENST00000538643	protein_coding	NOVEL	None	28845	1605	534	50321599	50340219	1	None	ARC92, ACID1, TCBAP0758, DKFZp434K0512
19	MED25	ENSG00000104973	ENST00000599722	retained_intron	KNOWN	None	28845	None	None	50334100	50335672	1	None	ARC92, ACID1, TCBAP0758, DKFZp434K0512
19	MED25	ENSG00000104973	ENST00000594998	retained_intron	KNOWN	None	28845	None	None	50336141	50340236	1	None	ARC92, ACID1, TCBAP0758, DKFZp434K0512
19	MED25	ENSG00000104973	ENST00000593767	protein_coding	PUTATIVE	None	28845	746	247	50338315	50342073	1	None	ARC92, ACID1, TCBAP0758, DKFZp434K0512
7	None	ENSG00000272328	ENST00000435967	lincRNA	KNOWN	None	None	None	None	8343371	8380973	1	None	None
7	None	ENSG00000272328	ENST00000606016	lincRNA	KNOWN	None	None	None	None	8343384	8380153	1	None	None
14	MLH3	ENSG00000119684	ENST00000554697	nonsense_mediated_decay	KNOWN	None	7128	375	124	75482190	75489721	-1	None	None
14	MLH3	ENSG00000119684	ENST00000238662	protein_coding	KNOWN	CCDS9837	7128	4290	1429	75483058	75518235	-1	None	None
14	MLH3	ENSG00000119684	ENST00000553713	protein_coding	NOVEL	None	7128	1433	476	75483100	75513528	-1	None	None
14	MLH3	ENSG00000119684	ENST00000555415	retained_intron	KNOWN	None	7128	None	None	75483489	75485815	-1	None	None
14	MLH3	ENSG00000119684	ENST00000556257	protein_coding	NOVEL	None	7128	3828	1275	75483490	75518160	-1	None	None
14	MLH3	ENSG00000119684	ENST00000556740	protein_coding	KNOWN	CCDS32123	7128	4362	1453	75483692	75516394	-1	None	None
14	MLH3	ENSG00000119684	ENST00000556453	nonsense_mediated_decay	KNOWN	None	7128	323	106	75489517	75513147	-1	None	None
14	MLH3	ENSG00000119684	ENST00000555144	nonsense_mediated_decay	KNOWN	None	7128	598	198	75489518	75513344	-1	None	None
14	MLH3	ENSG00000119684	ENST00000555499	processed_transcript	KNOWN	None	7128	None	None	75497261	75513091	-1	None	None
14	MLH3	ENSG00000119684	ENST00000555671	processed_transcript	KNOWN	None	7128	None	None	75506614	75513904	-1	None	None
14	MLH3	ENSG00000119684	ENST00000553263	protein_coding	KNOWN	None	7128	487	161	75515872	75518207	-1	None	None
14	MLH3	ENSG00000119684	ENST00000557648	protein_coding	KNOWN	None	7128	319	105	75516040	75518170	-1	None	None
14	MLH3	ENSG00000119684	ENST00000355774	protein_coding	KNOWN	CCDS32123	7128	4362	1453	75480467	75518235	-1	None	None
14	MLH3	ENSG00000119684	ENST00000380968	protein_coding	KNOWN	None	7128	1176	391	75480467	75518235	-1	None	None
14	MLH3	ENSG00000119684	ENST00000544985	protein_coding	KNOWN	None	7128	597	198	75489518	75513343	-1	None	None
2	EMX1	ENSG00000135638	ENST00000394111	processed_transcript	KNOWN	None	3340	None	None	73143389	73161457	1	None	None
2	EMX1	ENSG00000135638	ENST00000258106	protein_coding	KNOWN	CCDS1921	3340	873	290	73144604	73162020	1	None	None
2	EMX1	ENSG00000135638	ENST00000473732	protein_coding	PUTATIVE	None	3340	442	146	73145310	73152670	1	None	None
2	EMX1	ENSG00000135638	ENST00000491023	processed_transcript	KNOWN	None	3340	None	None	73150543	73161493	1	None	None
2	EMX1	ENSG00000135638	ENST00000464675	protein_coding	PUTATIVE	None	3340	574	190	73151117	73161368	1	None	None
16	EEF2K	ENSG00000103319	ENST00000263026	protein_coding	KNOWN	CCDS10604	24615	2178	725	22217603	22297954	1	None	eEF-2K
16	EEF2K	ENSG00000103319	ENST00000568269	nonsense_mediated_decay	KNOWN	None	24615	1239	412	22217647	22276566	1	None	eEF-2K
16	EEF2K	ENSG00000103319	ENST00000563555	retained_intron	KNOWN	None	24615	None	None	22268965	22274643	1	None	eEF-2K
16	EEF2K	ENSG00000103319	ENST00000561791	processed_transcript	KNOWN	None	24615	None	None	22297879	22298554	1	None	eEF-2K
5	ADAM19	ENSG00000135074	ENST00000517951	nonsense_mediated_decay	KNOWN	None	197	819	272	156822542	157002783	-1	None	MLTNB
5	ADAM19	ENSG00000135074	ENST00000517374	protein_coding	PUTATIVE	None	197	1469	488	156904312	156929830	-1	None	MLTNB
5	ADAM19	ENSG00000135074	ENST00000257527	protein_coding	KNOWN	CCDS4338	197	2757	918	156904312	157002783	-1	None	MLTNB
5	ADAM19	ENSG00000135074	ENST00000517905	protein_coding	PUTATIVE	None	197	2868	955	156908235	157002749	-1	None	MLTNB
5	ADAM19	ENSG00000135074	ENST00000519752	retained_intron	KNOWN	None	197	None	None	156997454	157002765	-1	None	MLTNB
5	ADAM19	ENSG00000135074	ENST00000430702	protein_coding	KNOWN	None	197	1917	638	156822574	157002768	-1	None	MLTNB
5	ADAM19	ENSG00000135074	ENST00000394020	protein_coding	KNOWN	None	197	2763	920	156904312	157002768	-1	None	MLTNB
12	B3GNT4	ENSG00000176383	ENST00000324189	protein_coding	KNOWN	CCDS9227	15683	1137	378	122688090	122692084	1	None	B3GN-T4, beta3Gn-T4
12	B3GNT4	ENSG00000176383	ENST00000546192	protein_coding	KNOWN	None	15683	1062	353	122688228	122693492	1	None	B3GN-T4, beta3Gn-T4
12	B3GNT4	ENSG00000176383	ENST00000545141	processed_transcript	KNOWN	None	15683	None	None	122688276	122693499	1	None	B3GN-T4, beta3Gn-T4
12	B3GNT4	ENSG00000176383	ENST00000537991	processed_transcript	KNOWN	None	15683	None	None	122688293	122691609	1	None	B3GN-T4, beta3Gn-T4
12	B3GNT4	ENSG00000176383	ENST00000538257	processed_transcript	PUTATIVE	None	15683	None	None	122688320	122691694	1	None	B3GN-T4, beta3Gn-T4
12	B3GNT4	ENSG00000176383	ENST00000535274	protein_coding	KNOWN	None	15683	1062	353	122689147	122692084	1	None	B3GN-T4, beta3Gn-T4
4	MSX1	ENSG00000163132	ENST00000382723	protein_coding	KNOWN	CCDS3378	7391	912	303	4861393	4865663	1	HOX7	HYD1, OFC5
4	MSX1	ENSG00000163132	ENST00000468421	processed_transcript	KNOWN	None	7391	None	None	4864155	4864755	1	HOX7	HYD1, OFC5
4	CYTL1	ENSG00000170891	ENST00000307746	protein_coding	KNOWN	CCDS3379	24435	411	136	5016313	5021199	-1	None	C17, C4orf4
4	CYTL1	ENSG00000170891	ENST00000506508	protein_coding	PUTATIVE	None	24435	229	75	5016554	5021164	-1	None	C17, C4orf4
4	CYTL1	ENSG00000170891	ENST00000509419	protein_coding	PUTATIVE	None	24435	278	91	5016871	5021168	-1	None	C17, C4orf4
7	None	ENSG00000236748	ENST00000420684	processed_pseudogene	KNOWN	None	None	None	None	8978417	8978999	1	None	None
17	CCL4	ENSG00000129277	ENST00000250151	protein_coding	KNOWN	CCDS11308	10630	279	92	34430983	34433014	1	LAG1, SCYA4	MIP-1-beta, Act-2, AT744.1
17	CCL4	ENSG00000129277	ENST00000394495	protein_coding	PUTATIVE	None	10630	159	52	34431220	34433014	1	LAG1, SCYA4	MIP-1-beta, Act-2, AT744.1
17	CCL4	ENSG00000129277	ENST00000591883	retained_intron	KNOWN	None	10630	None	None	34431234	34433007	1	LAG1, SCYA4	MIP-1-beta, Act-2, AT744.1
1	NDC1	ENSG00000058804	ENST00000371429	protein_coding	KNOWN	CCDS583	25525	2025	674	54231133	54304533	-1	TMEM48	FLJ10407, NET3
1	NDC1	ENSG00000058804	ENST00000480952	processed_transcript	KNOWN	None	25525	None	None	54284643	54304136	-1	TMEM48	FLJ10407, NET3
1	NDC1	ENSG00000058804	ENST00000234725	protein_coding	KNOWN	None	25525	1680	559	54233563	54303969	-1	TMEM48	FLJ10407, NET3
1	NDC1	ENSG00000058804	ENST00000537333	protein_coding	KNOWN	None	25525	1020	339	54233310	54303940	-1	TMEM48	FLJ10407, NET3
1	NDC1	ENSG00000058804	ENST00000540001	protein_coding	KNOWN	None	25525	1629	542	54231136	54304225	-1	TMEM48	FLJ10407, NET3
14	WDR20	ENSG00000140153	ENST00000557485	processed_transcript	KNOWN	None	19667	None	None	102605840	102675020	1	None	DMR, MGC33177, FLJ33659
14	WDR20	ENSG00000140153	ENST00000335263	protein_coding	KNOWN	CCDS9968	19667	1746	581	102606181	102690010	1	None	DMR, MGC33177, FLJ33659
14	WDR20	ENSG00000140153	ENST00000322340	protein_coding	PUTATIVE	CCDS55944	19667	588	195	102606212	102681342	1	None	DMR, MGC33177, FLJ33659
14	WDR20	ENSG00000140153	ENST00000561154	processed_transcript	KNOWN	None	19667	None	None	102606230	102634003	1	None	DMR, MGC33177, FLJ33659
14	WDR20	ENSG00000140153	ENST00000555879	nonsense_mediated_decay	KNOWN	CCDS55942	19667	261	86	102606230	102676858	1	None	DMR, MGC33177, FLJ33659
14	WDR20	ENSG00000140153	ENST00000342702	protein_coding	KNOWN	CCDS9969	19667	1710	569	102606230	102676867	1	None	DMR, MGC33177, FLJ33659
14	WDR20	ENSG00000140153	ENST00000556807	protein_coding	NOVEL	CCDS55945	19667	1563	520	102606230	102690008	1	None	DMR, MGC33177, FLJ33659
14	WDR20	ENSG00000140153	ENST00000558567	protein_coding	PUTATIVE	None	19667	531	176	102606234	102664766	1	None	DMR, MGC33177, FLJ33659
14	WDR20	ENSG00000140153	ENST00000299135	protein_coding	PUTATIVE	CCDS55942	19667	261	86	102606248	102676862	1	None	DMR, MGC33177, FLJ33659
14	WDR20	ENSG00000140153	ENST00000556094	nonsense_mediated_decay	KNOWN	None	19667	72	23	102606252	102689695	1	None	DMR, MGC33177, FLJ33659
14	WDR20	ENSG00000140153	ENST00000556511	protein_coding	KNOWN	CCDS9970	19667	1527	508	102606261	102676807	1	None	DMR, MGC33177, FLJ33659
14	WDR20	ENSG00000140153	ENST00000557186	processed_transcript	KNOWN	None	19667	None	None	102606318	102664316	1	None	DMR, MGC33177, FLJ33659
14	WDR20	ENSG00000140153	ENST00000558854	protein_coding	PUTATIVE	None	19667	200	65	102623596	102675226	1	None	DMR, MGC33177, FLJ33659
14	WDR20	ENSG00000140153	ENST00000559708	processed_transcript	KNOWN	None	19667	None	None	102637718	102675189	1	None	DMR, MGC33177, FLJ33659
14	WDR20	ENSG00000140153	ENST00000558135	processed_transcript	KNOWN	None	19667	None	None	102645249	102675276	1	None	DMR, MGC33177, FLJ33659
14	WDR20	ENSG00000140153	ENST00000558448	processed_transcript	KNOWN	None	19667	None	None	102645279	102675239	1	None	DMR, MGC33177, FLJ33659
14	WDR20	ENSG00000140153	ENST00000555973	processed_transcript	KNOWN	None	19667	None	None	102657578	102675185	1	None	DMR, MGC33177, FLJ33659
14	WDR20	ENSG00000140153	ENST00000559478	protein_coding	PUTATIVE	None	19667	217	71	102661283	102691184	1	None	DMR, MGC33177, FLJ33659
14	WDR20	ENSG00000140153	ENST00000454394	protein_coding	KNOWN	CCDS55943	19667	1803	600	102606251	102676471	1	None	DMR, MGC33177, FLJ33659
14	WDR20	ENSG00000140153	ENST00000424963	protein_coding	KNOWN	None	19667	1338	445	102606212	102676863	1	None	DMR, MGC33177, FLJ33659
14	WDR20	ENSG00000140153	ENST00000545563	protein_coding	KNOWN	None	19667	1191	396	102623596	102676858	1	None	DMR, MGC33177, FLJ33659
14	WDR20	ENSG00000140153	ENST00000499851	protein_coding	KNOWN	None	19667	939	312	102606230	102676858	1	None	DMR, MGC33177, FLJ33659
11	MSANTD2	ENSG00000120458	ENST00000239614	protein_coding	KNOWN	CCDS8454	26266	1524	507	124636394	124670569	-1	C11orf61	FLJ23342
11	MSANTD2	ENSG00000120458	ENST00000374979	protein_coding	KNOWN	None	26266	1680	559	124636412	124670285	-1	C11orf61	FLJ23342
11	MSANTD2	ENSG00000120458	ENST00000526629	protein_coding	KNOWN	None	26266	990	329	124636424	124646138	-1	C11orf61	FLJ23342
11	MSANTD2	ENSG00000120458	ENST00000524950	protein_coding	PUTATIVE	None	26266	540	179	124637390	124670279	-1	C11orf61	FLJ23342
11	MSANTD2	ENSG00000120458	ENST00000533514	retained_intron	KNOWN	None	26266	None	None	124637730	124643276	-1	C11orf61	FLJ23342
11	MSANTD2	ENSG00000120458	ENST00000527140	nonsense_mediated_decay	KNOWN	None	26266	627	208	124637844	124670286	-1	C11orf61	FLJ23342
4	STK32B	ENSG00000152953	ENST00000282908	protein_coding	KNOWN	CCDS3380	14217	1245	414	5053169	5502725	1	None	STKG6, YANK2, STK32, HSA250839
4	STK32B	ENSG00000152953	ENST00000512018	nonsense_mediated_decay	KNOWN	None	14217	156	51	5053323	5501176	1	None	STKG6, YANK2, STK32, HSA250839
4	STK32B	ENSG00000152953	ENST00000512636	protein_coding	NOVEL	None	14217	1014	337	5141287	5502721	1	None	STKG6, YANK2, STK32, HSA250839
4	STK32B	ENSG00000152953	ENST00000510398	protein_coding	KNOWN	None	14217	1104	367	5141363	5502715	1	None	STKG6, YANK2, STK32, HSA250839
4	STK32B	ENSG00000152953	ENST00000513705	processed_transcript	KNOWN	None	14217	None	None	5205806	5347182	1	None	STKG6, YANK2, STK32, HSA250839
4	STK32B	ENSG00000152953	ENST00000505508	processed_transcript	KNOWN	None	14217	None	None	5215969	5469797	1	None	STKG6, YANK2, STK32, HSA250839
4	STK32B	ENSG00000152953	ENST00000511959	retained_intron	KNOWN	None	14217	None	None	5434013	5449057	1	None	STKG6, YANK2, STK32, HSA250839
4	STK32B	ENSG00000152953	ENST00000508728	processed_transcript	KNOWN	None	14217	None	None	5439644	5500841	1	None	STKG6, YANK2, STK32, HSA250839
6	SNAP91	ENSG00000065609	ENST00000521485	protein_coding	NOVEL	None	14986	2709	902	84262599	84419410	-1	None	KIAA0656, AP180, CALM
6	SNAP91	ENSG00000065609	ENST00000369694	protein_coding	KNOWN	CCDS47455	14986	2724	907	84262604	84418847	-1	None	KIAA0656, AP180, CALM
6	SNAP91	ENSG00000065609	ENST00000195649	protein_coding	NOVEL	None	14986	2709	902	84262604	84418847	-1	None	KIAA0656, AP180, CALM
6	SNAP91	ENSG00000065609	ENST00000439399	protein_coding	KNOWN	CCDS47455	14986	2724	907	84262604	84419127	-1	None	KIAA0656, AP180, CALM
6	SNAP91	ENSG00000065609	ENST00000521743	protein_coding	KNOWN	CCDS47455	14986	2724	907	84262610	84418866	-1	None	KIAA0656, AP180, CALM
6	SNAP91	ENSG00000065609	ENST00000520302	protein_coding	NOVEL	CCDS56438	14986	2634	877	84262610	84419111	-1	None	KIAA0656, AP180, CALM
6	SNAP91	ENSG00000065609	ENST00000518312	nonsense_mediated_decay	KNOWN	None	14986	177	58	84262614	84419114	-1	None	KIAA0656, AP180, CALM
6	SNAP91	ENSG00000065609	ENST00000520213	protein_coding	KNOWN	CCDS56437	14986	1803	600	84263748	84419112	-1	None	KIAA0656, AP180, CALM
6	SNAP91	ENSG00000065609	ENST00000523448	protein_coding	PUTATIVE	None	14986	669	222	84263770	84302701	-1	None	KIAA0656, AP180, CALM
6	SNAP91	ENSG00000065609	ENST00000521616	nonsense_mediated_decay	KNOWN	None	14986	132	43	84263934	84418528	-1	None	KIAA0656, AP180, CALM
6	SNAP91	ENSG00000065609	ENST00000519133	processed_transcript	KNOWN	None	14986	None	None	84284900	84290225	-1	None	KIAA0656, AP180, CALM
6	SNAP91	ENSG00000065609	ENST00000521931	protein_coding	NOVEL	None	14986	1745	580	84285766	84417646	-1	None	KIAA0656, AP180, CALM
6	SNAP91	ENSG00000065609	ENST00000369691	protein_coding	NOVEL	None	14986	429	142	84303313	84315522	-1	None	KIAA0656, AP180, CALM
6	SNAP91	ENSG00000065609	ENST00000523780	retained_intron	KNOWN	None	14986	None	None	84303355	84304247	-1	None	KIAA0656, AP180, CALM
6	SNAP91	ENSG00000065609	ENST00000522248	nonsense_mediated_decay	KNOWN	None	14986	363	120	84366551	84418598	-1	None	KIAA0656, AP180, CALM
6	SNAP91	ENSG00000065609	ENST00000519779	protein_coding	KNOWN	None	14986	457	151	84368807	84418738	-1	None	KIAA0656, AP180, CALM
6	SNAP91	ENSG00000065609	ENST00000518309	protein_coding	KNOWN	None	14986	452	149	84371221	84417908	-1	None	KIAA0656, AP180, CALM
6	SNAP91	ENSG00000065609	ENST00000369690	protein_coding	KNOWN	None	14986	447	148	84371226	84418133	-1	None	KIAA0656, AP180, CALM
6	SNAP91	ENSG00000065609	ENST00000523484	protein_coding	KNOWN	None	14986	349	115	84372066	84418437	-1	None	KIAA0656, AP180, CALM
6	SNAP91	ENSG00000065609	ENST00000519825	protein_coding	KNOWN	None	14986	198	65	84375233	84418432	-1	None	KIAA0656, AP180, CALM
6	SNAP91	ENSG00000065609	ENST00000523585	nonsense_mediated_decay	KNOWN	None	14986	177	58	84395809	84419100	-1	None	KIAA0656, AP180, CALM
6	SNAP91	ENSG00000065609	ENST00000523199	nonsense_mediated_decay	KNOWN	None	14986	177	58	84396548	84418607	-1	None	KIAA0656, AP180, CALM
6	SNAP91	ENSG00000065609	ENST00000428679	protein_coding	KNOWN	None	14986	2724	907	84262607	84419127	-1	None	KIAA0656, AP180, CALM
6	SNAP91	ENSG00000065609	ENST00000437520	protein_coding	KNOWN	CCDS56437	14986	1803	600	84262607	84419127	-1	None	KIAA0656, AP180, CALM
2	SFXN5	ENSG00000144040	ENST00000474528	processed_transcript	KNOWN	None	16073	None	None	73169165	73286301	-1	None	BBG-TCC
2	SFXN5	ENSG00000144040	ENST00000461352	processed_transcript	KNOWN	None	16073	None	None	73169165	73286309	-1	None	BBG-TCC
2	SFXN5	ENSG00000144040	ENST00000272433	protein_coding	KNOWN	CCDS1922	16073	1023	340	73169165	73298965	-1	None	BBG-TCC
2	SFXN5	ENSG00000144040	ENST00000495208	processed_transcript	KNOWN	None	16073	None	None	73171732	73208246	-1	None	BBG-TCC
2	SFXN5	ENSG00000144040	ENST00000490056	processed_transcript	KNOWN	None	16073	None	None	73171869	73208363	-1	None	BBG-TCC
2	SFXN5	ENSG00000144040	ENST00000482289	processed_transcript	KNOWN	None	16073	None	None	73171869	73215477	-1	None	BBG-TCC
2	SFXN5	ENSG00000144040	ENST00000411783	protein_coding	PUTATIVE	None	16073	757	251	73171993	73298802	-1	None	BBG-TCC
2	SFXN5	ENSG00000144040	ENST00000410065	protein_coding	PUTATIVE	None	16073	762	253	73172151	73298853	-1	None	BBG-TCC
2	SFXN5	ENSG00000144040	ENST00000482542	processed_transcript	KNOWN	None	16073	None	None	73188331	73222093	-1	None	BBG-TCC
2	SFXN5	ENSG00000144040	ENST00000463277	processed_transcript	KNOWN	None	16073	None	None	73195576	73247968	-1	None	BBG-TCC
2	SFXN5	ENSG00000144040	ENST00000416579	processed_transcript	KNOWN	None	16073	None	None	73200310	73298857	-1	None	BBG-TCC
2	SFXN5	ENSG00000144040	ENST00000464825	processed_transcript	KNOWN	None	16073	None	None	73215421	73271744	-1	None	BBG-TCC
2	SFXN5	ENSG00000144040	ENST00000450185	nonsense_mediated_decay	KNOWN	None	16073	267	88	73223641	73298838	-1	None	BBG-TCC
2	SFXN5	ENSG00000144040	ENST00000442582	protein_coding	PUTATIVE	None	16073	469	155	73226080	73298854	-1	None	BBG-TCC
2	SFXN5	ENSG00000144040	ENST00000487508	processed_transcript	KNOWN	None	16073	None	None	73226086	73286305	-1	None	BBG-TCC
2	SFXN5	ENSG00000144040	ENST00000497144	processed_transcript	KNOWN	None	16073	None	None	73228656	73298459	-1	None	BBG-TCC
2	SFXN5	ENSG00000144040	ENST00000479293	processed_transcript	KNOWN	None	16073	None	None	73246576	73298418	-1	None	BBG-TCC
2	SFXN5	ENSG00000144040	ENST00000485057	processed_transcript	KNOWN	None	16073	None	None	73247215	73302747	-1	None	BBG-TCC
2	SFXN5	ENSG00000144040	ENST00000475630	processed_transcript	KNOWN	None	16073	None	None	73249664	73297696	-1	None	BBG-TCC
2	SFXN5	ENSG00000144040	ENST00000472259	processed_transcript	PUTATIVE	None	16073	None	None	73276215	73298395	-1	None	BBG-TCC
2	SFXN5	ENSG00000144040	ENST00000484123	processed_transcript	PUTATIVE	None	16073	None	None	73280458	73298791	-1	None	BBG-TCC
2	SFXN5	ENSG00000144040	ENST00000488839	retained_intron	KNOWN	None	16073	None	None	73285206	73286287	-1	None	BBG-TCC
7	None	ENSG00000271526	ENST00000605206	processed_pseudogene	KNOWN	None	None	None	None	9123652	9123805	1	None	None
7	None	ENSG00000264766	ENST00000581313	miRNA	NOVEL	None	None	None	None	9634247	9634353	-1	None	None
9	DCTN3	ENSG00000137100	ENST00000472418	processed_transcript	KNOWN	None	2713	None	None	34613548	34615008	-1	None	DCTN-22
9	DCTN3	ENSG00000137100	ENST00000479399	processed_transcript	KNOWN	None	2713	None	None	34613548	34616740	-1	None	DCTN-22
9	DCTN3	ENSG00000137100	ENST00000421919	protein_coding	KNOWN	None	2713	456	151	34613548	34620440	-1	None	DCTN-22
9	DCTN3	ENSG00000137100	ENST00000341694	protein_coding	KNOWN	CCDS6561	2713	531	176	34613548	34620471	-1	None	DCTN-22
9	DCTN3	ENSG00000137100	ENST00000259632	protein_coding	KNOWN	CCDS6560	2713	561	186	34613548	34620477	-1	None	DCTN-22
9	DCTN3	ENSG00000137100	ENST00000477738	protein_coding	NOVEL	None	2713	531	176	34613601	34620465	-1	None	DCTN-22
9	DCTN3	ENSG00000137100	ENST00000481438	processed_transcript	KNOWN	None	2713	None	None	34613729	34614737	-1	None	DCTN-22
9	DCTN3	ENSG00000137100	ENST00000472074	processed_transcript	KNOWN	None	2713	None	None	34614039	34616449	-1	None	DCTN-22
9	DCTN3	ENSG00000137100	ENST00000378913	protein_coding	PUTATIVE	None	2713	429	142	34614184	34620478	-1	None	DCTN-22
9	DCTN3	ENSG00000137100	ENST00000378911	protein_coding	KNOWN	None	2713	482	159	34617668	34620461	-1	None	DCTN-22
9	DCTN3	ENSG00000137100	ENST00000378916	protein_coding	KNOWN	None	2713	477	158	34613549	34620496	-1	None	DCTN-22
9	DCTN3	ENSG00000137100	ENST00000447983	protein_coding	KNOWN	None	2713	519	172	34613549	34620515	-1	None	DCTN-22
7	GAPDHP68	ENSG00000233876	ENST00000434621	processed_pseudogene	KNOWN	None	4146	None	None	9654608	9655615	1	GAPDL13, GAPDHL13	None
7	None	ENSG00000271077	ENST00000605169	processed_pseudogene	KNOWN	None	None	None	None	9673900	9675333	1	None	None
7	None	ENSG00000197320	ENST00000443027	processed_pseudogene	KNOWN	None	None	None	None	9765870	9767901	1	None	None
7	None	ENSG00000197320	ENST00000361014	processed_pseudogene	KNOWN	None	None	None	None	9765870	9767915	1	None	None
19	AKT2	ENSG00000105221	ENST00000392038	protein_coding	KNOWN	CCDS12552	392	1446	481	40736224	40791302	-1	None	None
19	AKT2	ENSG00000105221	ENST00000483166	retained_intron	KNOWN	None	392	None	None	40738242	40745407	-1	None	None
19	AKT2	ENSG00000105221	ENST00000476266	retained_intron	KNOWN	None	392	None	None	40738244	40749209	-1	None	None
19	AKT2	ENSG00000105221	ENST00000489375	nonsense_mediated_decay	KNOWN	None	392	170	55	40739575	40741938	-1	None	None
19	AKT2	ENSG00000105221	ENST00000391844	nonsense_mediated_decay	KNOWN	None	392	210	69	40739577	40791280	-1	None	None
19	AKT2	ENSG00000105221	ENST00000496089	retained_intron	KNOWN	None	392	None	None	40739662	40743973	-1	None	None
19	AKT2	ENSG00000105221	ENST00000476247	protein_coding	PUTATIVE	None	392	321	106	40739688	40741978	-1	None	None
19	AKT2	ENSG00000105221	ENST00000584288	nonsense_mediated_decay	KNOWN	None	392	210	69	40739728	40791249	-1	None	None
19	AKT2	ENSG00000105221	ENST00000311278	protein_coding	NOVEL	None	392	1317	438	40739748	40771219	-1	None	None
19	AKT2	ENSG00000105221	ENST00000497948	protein_coding	PUTATIVE	None	392	352	116	40739786	40741865	-1	None	None
19	AKT2	ENSG00000105221	ENST00000579047	protein_coding	PUTATIVE	None	392	1353	450	40740405	40791249	-1	None	None
19	AKT2	ENSG00000105221	ENST00000578615	protein_coding	PUTATIVE	None	392	877	291	40741009	40748515	-1	None	None
19	AKT2	ENSG00000105221	ENST00000391845	processed_transcript	KNOWN	None	392	None	None	40741801	40746206	-1	None	None
19	AKT2	ENSG00000105221	ENST00000486647	processed_transcript	PUTATIVE	None	392	None	None	40741931	40743214	-1	None	None
19	AKT2	ENSG00000105221	ENST00000578282	retained_intron	KNOWN	None	392	None	None	40741931	40744912	-1	None	None
19	AKT2	ENSG00000105221	ENST00000579345	retained_intron	KNOWN	None	392	None	None	40741931	40745039	-1	None	None
19	AKT2	ENSG00000105221	ENST00000480878	processed_transcript	KNOWN	None	392	None	None	40741931	40747846	-1	None	None
19	AKT2	ENSG00000105221	ENST00000580878	retained_intron	KNOWN	None	392	None	None	40741939	40745176	-1	None	None
19	AKT2	ENSG00000105221	ENST00000578310	protein_coding	PUTATIVE	None	392	158	51	40742209	40747918	-1	None	None
19	AKT2	ENSG00000105221	ENST00000601166	nonsense_mediated_decay	KNOWN	None	392	390	129	40743897	40761084	-1	None	None
19	AKT2	ENSG00000105221	ENST00000492463	nonsense_mediated_decay	KNOWN	None	392	210	69	40744849	40772224	-1	None	None
19	AKT2	ENSG00000105221	ENST00000537834	retained_intron	KNOWN	None	392	None	None	40745497	40785237	-1	None	None
19	AKT2	ENSG00000105221	ENST00000491778	nonsense_mediated_decay	KNOWN	None	392	154	50	40745977	40762870	-1	None	None
19	AKT2	ENSG00000105221	ENST00000578975	retained_intron	KNOWN	None	392	None	None	40746698	40750034	-1	None	None
19	AKT2	ENSG00000105221	ENST00000487537	retained_intron	KNOWN	None	392	None	None	40747289	40761176	-1	None	None
19	AKT2	ENSG00000105221	ENST00000441941	protein_coding	KNOWN	None	392	552	183	40747866	40772255	-1	None	None
19	AKT2	ENSG00000105221	ENST00000486368	protein_coding	KNOWN	None	392	471	156	40747947	40786739	-1	None	None
19	AKT2	ENSG00000105221	ENST00000596634	protein_coding	KNOWN	None	392	455	150	40747963	40790999	-1	None	None
19	AKT2	ENSG00000105221	ENST00000452077	protein_coding	KNOWN	None	392	402	133	40748480	40790861	-1	None	None
19	AKT2	ENSG00000105221	ENST00000392037	protein_coding	KNOWN	None	392	401	132	40748481	40771454	-1	None	None
19	AKT2	ENSG00000105221	ENST00000416362	protein_coding	KNOWN	None	392	398	131	40748484	40776676	-1	None	None
19	AKT2	ENSG00000105221	ENST00000578123	protein_coding	KNOWN	None	392	391	129	40748491	40791443	-1	None	None
19	AKT2	ENSG00000105221	ENST00000423127	protein_coding	KNOWN	None	392	359	118	40748523	40790729	-1	None	None
19	AKT2	ENSG00000105221	ENST00000358335	protein_coding	PUTATIVE	None	392	377	124	40748535	40791172	-1	None	None
19	AKT2	ENSG00000105221	ENST00000456441	protein_coding	KNOWN	None	392	322	106	40748560	40790858	-1	None	None
19	AKT2	ENSG00000105221	ENST00000583859	protein_coding	KNOWN	None	392	298	98	40748584	40790856	-1	None	None
19	AKT2	ENSG00000105221	ENST00000580747	protein_coding	KNOWN	None	392	290	95	40748592	40772266	-1	None	None
19	AKT2	ENSG00000105221	ENST00000416994	protein_coding	KNOWN	None	392	287	94	40761065	40785546	-1	None	None
19	AKT2	ENSG00000105221	ENST00000427375	protein_coding	KNOWN	None	392	201	66	40761151	40775496	-1	None	None
19	AKT2	ENSG00000105221	ENST00000498350	processed_transcript	PUTATIVE	None	392	None	None	40774549	40785131	-1	None	None
19	AKT2	ENSG00000105221	ENST00000581582	processed_transcript	KNOWN	None	392	None	None	40788155	40789072	-1	None	None
19	AKT2	ENSG00000105221	ENST00000424901	protein_coding	KNOWN	CCDS12552	392	1446	481	40739728	40771174	-1	None	None
17	TBC1D3B	ENSG00000224226	ENST00000454519	protein_coding	KNOWN	CCDS42300	27011	1650	549	34493061	34503988	-1	TBC1D3I	PRC17
17	TBC1D3B	ENSG00000224226	ENST00000588574	retained_intron	KNOWN	None	27011	None	None	34497429	34500011	-1	TBC1D3I	PRC17
17	TBC1D3B	ENSG00000224226	ENST00000586369	protein_coding	PUTATIVE	None	27011	147	48	34499653	34503996	-1	TBC1D3I	PRC17
17	TBC1D3B	ENSG00000224226	ENST00000589443	protein_coding	PUTATIVE	None	27011	141	46	34499659	34503867	-1	TBC1D3I	PRC17
17	TBC1D3B	ENSG00000224226	ENST00000589139	nonsense_mediated_decay	KNOWN	None	27011	348	115	34500245	34503953	-1	TBC1D3I	PRC17
17	TBC1D3B	ENSG00000224226	ENST00000398801	protein_coding	KNOWN	CCDS42300	27011	1650	549	34493061	34502410	-1	TBC1D3I	PRC17
15	GDPGP1	ENSG00000183208	ENST00000558017	protein_coding	KNOWN	CCDS32327	34360	1158	385	90777040	90785315	1	C15orf58	None
15	GDPGP1	ENSG00000183208	ENST00000561433	protein_coding	KNOWN	None	34360	149	48	90777430	90784289	1	C15orf58	None
15	GDPGP1	ENSG00000183208	ENST00000559204	protein_coding	KNOWN	None	34360	642	213	90777458	90784782	1	C15orf58	None
15	GDPGP1	ENSG00000183208	ENST00000558291	protein_coding	KNOWN	None	34360	31	9	90777495	90784171	1	C15orf58	None
15	GDPGP1	ENSG00000183208	ENST00000329600	protein_coding	KNOWN	CCDS32327	34360	1158	385	90784141	90785298	1	C15orf58	None
16	POLR3E	ENSG00000058600	ENST00000299853	protein_coding	KNOWN	CCDS10605	30347	2127	708	22308730	22346424	1	None	RPC5, SIN, FLJ10509
16	POLR3E	ENSG00000058600	ENST00000564209	protein_coding	NOVEL	CCDS58432	30347	2064	687	22308732	22345256	1	None	RPC5, SIN, FLJ10509
16	POLR3E	ENSG00000058600	ENST00000565358	protein_coding	PUTATIVE	None	30347	417	138	22308741	22324975	1	None	RPC5, SIN, FLJ10509
16	POLR3E	ENSG00000058600	ENST00000418581	protein_coding	NOVEL	CCDS58434	30347	2019	672	22308748	22345382	1	None	RPC5, SIN, FLJ10509
16	POLR3E	ENSG00000058600	ENST00000564883	protein_coding	KNOWN	None	30347	330	109	22308751	22320797	1	None	RPC5, SIN, FLJ10509
16	POLR3E	ENSG00000058600	ENST00000359210	protein_coding	KNOWN	CCDS58433	30347	2001	666	22308754	22345346	1	None	RPC5, SIN, FLJ10509
16	POLR3E	ENSG00000058600	ENST00000561494	nonsense_mediated_decay	KNOWN	None	30347	189	62	22308755	22320784	1	None	RPC5, SIN, FLJ10509
16	POLR3E	ENSG00000058600	ENST00000563024	protein_coding	PUTATIVE	None	30347	297	98	22308755	22324981	1	None	RPC5, SIN, FLJ10509
16	POLR3E	ENSG00000058600	ENST00000564061	retained_intron	KNOWN	None	30347	None	None	22308776	22340412	1	None	RPC5, SIN, FLJ10509
16	POLR3E	ENSG00000058600	ENST00000563766	retained_intron	KNOWN	None	30347	None	None	22313791	22321642	1	None	RPC5, SIN, FLJ10509
16	POLR3E	ENSG00000058600	ENST00000567022	retained_intron	KNOWN	None	30347	None	None	22314127	22319802	1	None	RPC5, SIN, FLJ10509
16	POLR3E	ENSG00000058600	ENST00000564750	nonsense_mediated_decay	KNOWN	None	30347	279	92	22314275	22345256	1	None	RPC5, SIN, FLJ10509
16	POLR3E	ENSG00000058600	ENST00000564256	processed_transcript	KNOWN	None	30347	None	None	22314295	22321266	1	None	RPC5, SIN, FLJ10509
16	POLR3E	ENSG00000058600	ENST00000565551	nonsense_mediated_decay	KNOWN	None	30347	191	62	22320283	22330166	1	None	RPC5, SIN, FLJ10509
16	POLR3E	ENSG00000058600	ENST00000569757	protein_coding	PUTATIVE	None	30347	271	89	22326235	22334193	1	None	RPC5, SIN, FLJ10509
16	POLR3E	ENSG00000058600	ENST00000569787	retained_intron	KNOWN	None	30347	None	None	22328302	22336680	1	None	RPC5, SIN, FLJ10509
16	POLR3E	ENSG00000058600	ENST00000563282	retained_intron	KNOWN	None	30347	None	None	22339640	22345017	1	None	RPC5, SIN, FLJ10509
16	POLR3E	ENSG00000058600	ENST00000565117	retained_intron	KNOWN	None	30347	None	None	22342756	22345762	1	None	RPC5, SIN, FLJ10509
10	ZNF25	ENSG00000175395	ENST00000302609	protein_coding	KNOWN	CCDS7195	13043	1371	456	38238500	38265561	-1	None	KOX19, FLJ31890, Zfp9
10	ZNF25	ENSG00000175395	ENST00000374633	processed_transcript	KNOWN	None	13043	None	None	38239495	38265555	-1	None	KOX19, FLJ31890, Zfp9
10	ZNF25	ENSG00000175395	ENST00000467975	processed_transcript	KNOWN	None	13043	None	None	38241991	38265520	-1	None	KOX19, FLJ31890, Zfp9
2	ANKRD44	ENSG00000065413	ENST00000424317	protein_coding	PUTATIVE	None	25259	2376	791	197831741	197987457	-1	None	PP6-ARS-B
2	ANKRD44	ENSG00000065413	ENST00000448801	protein_coding	PUTATIVE	None	25259	547	181	197853862	197865226	-1	None	PP6-ARS-B
2	ANKRD44	ENSG00000065413	ENST00000493808	processed_transcript	KNOWN	None	25259	None	None	197855535	197860179	-1	None	PP6-ARS-B
2	ANKRD44	ENSG00000065413	ENST00000486006	processed_transcript	KNOWN	None	25259	None	None	197857402	197858362	-1	None	PP6-ARS-B
2	ANKRD44	ENSG00000065413	ENST00000328737	protein_coding	KNOWN	None	25259	2760	919	197859250	198062762	-1	None	PP6-ARS-B
2	ANKRD44	ENSG00000065413	ENST00000422886	protein_coding	PUTATIVE	None	25259	949	315	197878235	197975568	-1	None	PP6-ARS-B
2	ANKRD44	ENSG00000065413	ENST00000409153	protein_coding	KNOWN	None	25259	1740	579	197942536	198175511	-1	None	PP6-ARS-B
2	ANKRD44	ENSG00000065413	ENST00000477852	processed_transcript	KNOWN	None	25259	None	None	197946415	197953599	-1	None	PP6-ARS-B
2	ANKRD44	ENSG00000065413	ENST00000473081	processed_transcript	KNOWN	None	25259	None	None	197953473	197975554	-1	None	PP6-ARS-B
2	ANKRD44	ENSG00000065413	ENST00000409919	protein_coding	KNOWN	CCDS33355	25259	1104	367	197964201	198175511	-1	None	PP6-ARS-B
2	ANKRD44	ENSG00000065413	ENST00000447713	nonsense_mediated_decay	KNOWN	None	25259	123	40	197990561	198175521	-1	None	PP6-ARS-B
2	ANKRD44	ENSG00000065413	ENST00000443014	protein_coding	PUTATIVE	None	25259	229	75	197990719	198175897	-1	None	PP6-ARS-B
2	ANKRD44	ENSG00000065413	ENST00000463879	retained_intron	KNOWN	None	25259	None	None	197998695	198175504	-1	None	PP6-ARS-B
2	ANKRD44	ENSG00000065413	ENST00000282272	protein_coding	KNOWN	None	25259	2958	985	197854315	198051833	-1	None	PP6-ARS-B
2	ANKRD44	ENSG00000065413	ENST00000450567	protein_coding	KNOWN	None	25259	2760	919	197859250	198051833	-1	None	PP6-ARS-B
2	ANKRD44	ENSG00000065413	ENST00000337207	protein_coding	KNOWN	None	25259	2760	919	197859250	198012628	-1	None	PP6-ARS-B
2	ANKRD44	ENSG00000065413	ENST00000539527	protein_coding	KNOWN	None	25259	1524	507	197943197	198175521	-1	None	PP6-ARS-B
4	THEGL	ENSG00000249693	ENST00000512175	protein_coding	KNOWN	CCDS58899	43771	1398	465	57396775	57469673	1	None	None
4	THEGL	ENSG00000249693	ENST00000510716	processed_transcript	KNOWN	None	43771	None	None	57423882	57462711	1	None	None
17	MYADML2	ENSG00000185105	ENST00000409745	protein_coding	KNOWN	CCDS45815	34548	924	307	79897521	79905109	-1	None	LOC255275
17	MYADML2	ENSG00000185105	ENST00000330655	protein_coding	KNOWN	CCDS45815	34548	924	307	79897522	79900255	-1	None	LOC255275
15	TTLL13	ENSG00000213471	ENST00000339615	protein_coding	KNOWN	CCDS32328	32484	1380	459	90792762	90802320	1	None	FLJ46079, MGC33417
15	TTLL13	ENSG00000213471	ENST00000438251	protein_coding	KNOWN	None	32484	2448	815	90792762	90808199	1	None	FLJ46079, MGC33417
1	YIPF1	ENSG00000058799	ENST00000464950	nonsense_mediated_decay	KNOWN	CCDS584	25231	921	306	54317392	54355406	-1	None	DJ167A19.1, FinGER1
1	YIPF1	ENSG00000058799	ENST00000371399	protein_coding	KNOWN	None	25231	372	123	54317406	54355452	-1	None	DJ167A19.1, FinGER1
1	YIPF1	ENSG00000058799	ENST00000469457	processed_transcript	KNOWN	None	25231	None	None	54331868	54355453	-1	None	DJ167A19.1, FinGER1
1	YIPF1	ENSG00000058799	ENST00000480151	processed_transcript	KNOWN	None	25231	None	None	54331874	54355471	-1	None	DJ167A19.1, FinGER1
1	YIPF1	ENSG00000058799	ENST00000412288	protein_coding	KNOWN	None	25231	651	216	54332428	54355507	-1	None	DJ167A19.1, FinGER1
1	YIPF1	ENSG00000058799	ENST00000465897	processed_transcript	KNOWN	None	25231	None	None	54332477	54355453	-1	None	DJ167A19.1, FinGER1
1	YIPF1	ENSG00000058799	ENST00000472983	processed_transcript	KNOWN	None	25231	None	None	54343995	54355462	-1	None	DJ167A19.1, FinGER1
1	YIPF1	ENSG00000058799	ENST00000539954	protein_coding	KNOWN	None	25231	996	331	54320691	54356407	-1	None	DJ167A19.1, FinGER1
1	YIPF1	ENSG00000058799	ENST00000072644	protein_coding	KNOWN	CCDS584	25231	921	306	54317407	54355453	-1	None	DJ167A19.1, FinGER1
17	NOTUM	ENSG00000185269	ENST00000409678	protein_coding	KNOWN	CCDS32771	27106	1491	496	79910388	79919169	-1	None	None
17	NOTUM	ENSG00000185269	ENST00000477214	protein_coding	PUTATIVE	None	27106	592	196	79913391	79917686	-1	None	None
17	NOTUM	ENSG00000185269	ENST00000425009	protein_coding	KNOWN	None	27106	887	294	79914759	79919716	-1	None	None
17	NOTUM	ENSG00000185269	ENST00000489218	retained_intron	KNOWN	None	27106	None	None	79916811	79918749	-1	None	None
4	HOPX	ENSG00000171476	ENST00000508121	protein_coding	KNOWN	CCDS47062	24961	276	91	57514162	57524072	-1	None	LAGY, HOP, OB1, NECC1, SMAP31
4	HOPX	ENSG00000171476	ENST00000503639	protein_coding	KNOWN	CCDS3507	24961	222	73	57514164	57522470	-1	None	LAGY, HOP, OB1, NECC1, SMAP31
4	HOPX	ENSG00000171476	ENST00000553379	protein_coding	KNOWN	CCDS3507	24961	222	73	57514164	57522653	-1	None	LAGY, HOP, OB1, NECC1, SMAP31
4	HOPX	ENSG00000171476	ENST00000381255	protein_coding	KNOWN	CCDS3507	24961	222	73	57514164	57522673	-1	None	LAGY, HOP, OB1, NECC1, SMAP31
4	HOPX	ENSG00000171476	ENST00000317745	protein_coding	KNOWN	CCDS3507	24961	222	73	57514164	57522682	-1	None	LAGY, HOP, OB1, NECC1, SMAP31
4	HOPX	ENSG00000171476	ENST00000555760	protein_coding	KNOWN	CCDS3507	24961	222	73	57514164	57522688	-1	None	LAGY, HOP, OB1, NECC1, SMAP31
4	HOPX	ENSG00000171476	ENST00000556614	protein_coding	KNOWN	CCDS3507	24961	222	73	57514164	57522691	-1	None	LAGY, HOP, OB1, NECC1, SMAP31
4	HOPX	ENSG00000171476	ENST00000556376	protein_coding	KNOWN	CCDS3507	24961	222	73	57514164	57547460	-1	None	LAGY, HOP, OB1, NECC1, SMAP31
4	HOPX	ENSG00000171476	ENST00000381260	protein_coding	KNOWN	None	24961	285	94	57514164	57547870	-1	None	LAGY, HOP, OB1, NECC1, SMAP31
4	HOPX	ENSG00000171476	ENST00000337881	protein_coding	KNOWN	CCDS3507	24961	222	73	57514164	57548065	-1	None	LAGY, HOP, OB1, NECC1, SMAP31
4	HOPX	ENSG00000171476	ENST00000503864	retained_intron	KNOWN	None	24961	None	None	57514166	57517368	-1	None	LAGY, HOP, OB1, NECC1, SMAP31
4	HOPX	ENSG00000171476	ENST00000557328	protein_coding	KNOWN	None	24961	196	64	57522025	57547872	-1	None	LAGY, HOP, OB1, NECC1, SMAP31
4	HOPX	ENSG00000171476	ENST00000605395	processed_transcript	KNOWN	None	24961	None	None	57525318	57547463	-1	None	LAGY, HOP, OB1, NECC1, SMAP31
4	HOPX	ENSG00000171476	ENST00000506661	retained_intron	KNOWN	None	24961	None	None	57544924	57547463	-1	None	LAGY, HOP, OB1, NECC1, SMAP31
4	HOPX	ENSG00000171476	ENST00000420433	protein_coding	KNOWN	CCDS47062	24961	276	91	57514155	57547872	-1	None	LAGY, HOP, OB1, NECC1, SMAP31
4	HOPX	ENSG00000171476	ENST00000554144	protein_coding	KNOWN	CCDS54767	24961	339	112	57514155	57547872	-1	None	LAGY, HOP, OB1, NECC1, SMAP31
11	PSMC3	ENSG00000165916	ENST00000602866	protein_coding	KNOWN	None	9549	1272	423	47440320	47447817	-1	None	TBP1, TBP-1
11	PSMC3	ENSG00000165916	ENST00000298852	protein_coding	KNOWN	CCDS7935	9549	1320	439	47440320	47447988	-1	None	TBP1, TBP-1
11	PSMC3	ENSG00000165916	ENST00000530912	protein_coding	NOVEL	None	9549	1194	397	47440353	47447993	-1	None	TBP1, TBP-1
11	PSMC3	ENSG00000165916	ENST00000524447	protein_coding	PUTATIVE	None	9549	935	310	47441890	47447776	-1	None	TBP1, TBP-1
11	PSMC3	ENSG00000165916	ENST00000530887	nonsense_mediated_decay	KNOWN	None	9549	159	52	47444125	47447749	-1	None	TBP1, TBP-1
11	PSMC3	ENSG00000165916	ENST00000530651	protein_coding	PUTATIVE	None	9549	905	300	47444125	47447767	-1	None	TBP1, TBP-1
11	PSMC3	ENSG00000165916	ENST00000531051	protein_coding	PUTATIVE	None	9549	777	258	47444125	47447786	-1	None	TBP1, TBP-1
11	PSMC3	ENSG00000165916	ENST00000527906	nonsense_mediated_decay	KNOWN	None	9549	138	45	47444484	47447806	-1	None	TBP1, TBP-1
11	PSMC3	ENSG00000165916	ENST00000526993	protein_coding	NOVEL	None	9549	580	192	47445659	47447809	-1	None	TBP1, TBP-1
11	PSMC3	ENSG00000165916	ENST00000531653	retained_intron	KNOWN	None	9549	None	None	47445915	47447810	-1	None	TBP1, TBP-1
11	PSMC3	ENSG00000165916	ENST00000528362	retained_intron	KNOWN	None	9549	None	None	47445974	47447802	-1	None	TBP1, TBP-1
11	PSMC3	ENSG00000165916	ENST00000529500	retained_intron	KNOWN	None	9549	None	None	47446990	47447806	-1	None	TBP1, TBP-1
4	STOX2	ENSG00000173320	ENST00000511250	processed_transcript	PUTATIVE	None	25450	None	None	184774584	184922560	1	None	DKFZp762K222
4	STOX2	ENSG00000173320	ENST00000308497	protein_coding	KNOWN	CCDS47167	25450	2781	926	184826509	184944679	1	None	DKFZp762K222
4	STOX2	ENSG00000173320	ENST00000512520	protein_coding	PUTATIVE	None	25450	466	154	184881412	184930643	1	None	DKFZp762K222
4	STOX2	ENSG00000173320	ENST00000513034	protein_coding	PUTATIVE	None	25450	224	73	184922478	184938531	1	None	DKFZp762K222
4	STOX2	ENSG00000173320	ENST00000506529	nonsense_mediated_decay	KNOWN	None	25450	658	218	184931926	184938596	1	None	DKFZp762K222
4	STOX2	ENSG00000173320	ENST00000438269	protein_coding	KNOWN	None	25450	2592	863	184826509	184932746	1	None	DKFZp762K222
10	ZNF33A	ENSG00000189180	ENST00000458705	protein_coding	KNOWN	CCDS31182	13096	2433	810	38299598	38348981	1	ZNF33, ZNF11A	KOX5, KOX31, KIAA0065, FLJ23404, ZZAPK
10	ZNF33A	ENSG00000189180	ENST00000469037	protein_coding	PUTATIVE	None	13096	417	138	38299614	38354016	1	ZNF33, ZNF11A	KOX5, KOX31, KIAA0065, FLJ23404, ZZAPK
10	ZNF33A	ENSG00000189180	ENST00000476504	processed_transcript	KNOWN	None	13096	None	None	38299621	38306635	1	ZNF33, ZNF11A	KOX5, KOX31, KIAA0065, FLJ23404, ZZAPK
10	ZNF33A	ENSG00000189180	ENST00000478556	processed_transcript	KNOWN	None	13096	None	None	38299627	38343466	1	ZNF33, ZNF11A	KOX5, KOX31, KIAA0065, FLJ23404, ZZAPK
10	ZNF33A	ENSG00000189180	ENST00000432900	protein_coding	KNOWN	None	13096	2454	817	38299583	38345789	1	ZNF33, ZNF11A	KOX5, KOX31, KIAA0065, FLJ23404, ZZAPK
10	ZNF33A	ENSG00000189180	ENST00000374618	protein_coding	KNOWN	CCDS44372	13096	2436	811	38299578	38348991	1	ZNF33, ZNF11A	KOX5, KOX31, KIAA0065, FLJ23404, ZZAPK
10	ZNF33A	ENSG00000189180	ENST00000307441	protein_coding	KNOWN	CCDS31182	13096	2433	810	38301270	38345488	1	ZNF33, ZNF11A	KOX5, KOX31, KIAA0065, FLJ23404, ZZAPK
4	CLGN	ENSG00000153132	ENST00000325617	protein_coding	KNOWN	CCDS3751	2060	1833	610	141309609	141349122	-1	None	None
4	CLGN	ENSG00000153132	ENST00000509477	protein_coding	KNOWN	None	2060	539	178	141321666	141348764	-1	None	None
4	CLGN	ENSG00000153132	ENST00000414773	protein_coding	KNOWN	CCDS3751	2060	1833	610	141309609	141348815	-1	None	None
4	CLGN	ENSG00000153132	ENST00000537281	protein_coding	KNOWN	CCDS3751	2060	1833	610	141309912	141348544	-1	None	None
1	ADAM15	ENSG00000143537	ENST00000473905	processed_transcript	KNOWN	None	193	None	None	155023042	155028714	1	None	MDC15
1	ADAM15	ENSG00000143537	ENST00000533732	processed_transcript	KNOWN	None	193	None	None	155023157	155026468	1	None	MDC15
1	ADAM15	ENSG00000143537	ENST00000480331	processed_transcript	KNOWN	None	193	None	None	155023203	155028622	1	None	MDC15
1	ADAM15	ENSG00000143537	ENST00000527418	retained_intron	KNOWN	None	193	None	None	155023422	155035251	1	None	MDC15
1	ADAM15	ENSG00000143537	ENST00000529473	nonsense_mediated_decay	KNOWN	None	193	2394	797	155023762	155035234	1	None	MDC15
1	ADAM15	ENSG00000143537	ENST00000526491	nonsense_mediated_decay	KNOWN	None	193	2469	822	155023762	155035234	1	None	MDC15
1	ADAM15	ENSG00000143537	ENST00000356955	protein_coding	KNOWN	CCDS1087	193	2592	863	155023762	155035234	1	None	MDC15
1	ADAM15	ENSG00000143537	ENST00000449910	protein_coding	KNOWN	CCDS44236	193	2589	862	155023762	155035234	1	None	MDC15
1	ADAM15	ENSG00000143537	ENST00000359280	protein_coding	KNOWN	CCDS1086	193	2517	838	155023762	155035234	1	None	MDC15
1	ADAM15	ENSG00000143537	ENST00000360674	protein_coding	KNOWN	CCDS1088	193	2319	772	155023762	155035234	1	None	MDC15
1	ADAM15	ENSG00000143537	ENST00000368412	protein_coding	NOVEL	CCDS58032	193	2391	796	155023762	155035234	1	None	MDC15
1	ADAM15	ENSG00000143537	ENST00000355956	protein_coding	KNOWN	CCDS1085	193	2520	839	155023762	155035234	1	None	MDC15
1	ADAM15	ENSG00000143537	ENST00000531703	processed_transcript	KNOWN	None	193	None	None	155023779	155026624	1	None	MDC15
1	ADAM15	ENSG00000143537	ENST00000477533	processed_transcript	KNOWN	None	193	None	None	155023780	155026464	1	None	MDC15
1	ADAM15	ENSG00000143537	ENST00000271836	protein_coding	KNOWN	CCDS1084	193	2445	814	155023782	155035251	1	None	MDC15
1	ADAM15	ENSG00000143537	ENST00000461564	retained_intron	KNOWN	None	193	None	None	155023784	155034234	1	None	MDC15
1	ADAM15	ENSG00000143537	ENST00000485346	processed_transcript	KNOWN	None	193	None	None	155023792	155026454	1	None	MDC15
1	ADAM15	ENSG00000143537	ENST00000368413	protein_coding	NOVEL	None	193	1563	520	155023792	155035245	1	None	MDC15
1	ADAM15	ENSG00000143537	ENST00000487956	processed_transcript	KNOWN	None	193	None	None	155023802	155029576	1	None	MDC15
1	ADAM15	ENSG00000143537	ENST00000531831	processed_transcript	KNOWN	None	193	None	None	155023827	155026799	1	None	MDC15
1	ADAM15	ENSG00000143537	ENST00000531455	protein_coding	NOVEL	CCDS58031	193	2475	824	155023827	155035145	1	None	MDC15
1	ADAM15	ENSG00000143537	ENST00000447332	protein_coding	PUTATIVE	None	193	1902	633	155023828	155031159	1	None	MDC15
1	ADAM15	ENSG00000143537	ENST00000472434	processed_transcript	KNOWN	None	193	None	None	155023830	155035244	1	None	MDC15
1	ADAM15	ENSG00000143537	ENST00000534019	retained_intron	KNOWN	None	193	None	None	155027885	155028883	1	None	MDC15
1	ADAM15	ENSG00000143537	ENST00000470779	processed_transcript	KNOWN	None	193	None	None	155028278	155028737	1	None	MDC15
1	ADAM15	ENSG00000143537	ENST00000525020	retained_intron	KNOWN	None	193	None	None	155028572	155029703	1	None	MDC15
1	ADAM15	ENSG00000143537	ENST00000498481	retained_intron	KNOWN	None	193	None	None	155030715	155035223	1	None	MDC15
1	ADAM15	ENSG00000143537	ENST00000461234	processed_transcript	KNOWN	None	193	None	None	155030722	155035180	1	None	MDC15
1	ADAM15	ENSG00000143537	ENST00000474709	processed_transcript	KNOWN	None	193	None	None	155031186	155035251	1	None	MDC15
1	ADAM15	ENSG00000143537	ENST00000462116	processed_transcript	KNOWN	None	193	None	None	155031229	155033922	1	None	MDC15
1	ADAM15	ENSG00000143537	ENST00000468053	processed_transcript	KNOWN	None	193	None	None	155032742	155033808	1	None	MDC15
1	ADAM15	ENSG00000143537	ENST00000464824	retained_intron	KNOWN	None	193	None	None	155034637	155035251	1	None	MDC15
1	ADAM15	ENSG00000143537	ENST00000368410	protein_coding	KNOWN	None	193	1563	520	155023762	155035252	1	None	MDC15
19	ZNF565	ENSG00000196357	ENST00000392173	protein_coding	KNOWN	CCDS12491	26726	1500	499	36673196	36705983	-1	None	FLJ36991
19	ZNF565	ENSG00000196357	ENST00000355114	protein_coding	PUTATIVE	None	26726	1620	539	36673196	36737159	-1	None	FLJ36991
19	ZNF565	ENSG00000196357	ENST00000591473	protein_coding	PUTATIVE	None	26726	779	258	36673894	36705775	-1	None	FLJ36991
19	ZNF565	ENSG00000196357	ENST00000585994	protein_coding	KNOWN	None	26726	169	55	36685198	36704294	-1	None	FLJ36991
19	ZNF565	ENSG00000196357	ENST00000587803	retained_intron	KNOWN	None	26726	None	None	36685527	36705557	-1	None	FLJ36991
19	ZNF565	ENSG00000196357	ENST00000586648	retained_intron	KNOWN	None	26726	None	None	36685729	36705565	-1	None	FLJ36991
19	ZNF565	ENSG00000196357	ENST00000304116	protein_coding	KNOWN	CCDS12491	26726	1500	499	36673188	36705566	-1	None	FLJ36991
1	DIO1	ENSG00000211452	ENST00000534069	processed_transcript	KNOWN	None	2883	None	None	54356912	54371833	1	TXDI1	None
1	DIO1	ENSG00000211452	ENST00000529589	protein_coding	PUTATIVE	None	2883	552	183	54357840	54371967	1	TXDI1	None
1	DIO1	ENSG00000211452	ENST00000361921	protein_coding	KNOWN	CCDS41339	2883	750	249	54359860	54376759	1	TXDI1	None
1	DIO1	ENSG00000211452	ENST00000322679	protein_coding	KNOWN	CCDS41340	2883	486	161	54359861	54376757	1	TXDI1	None
1	DIO1	ENSG00000211452	ENST00000530084	nonsense_mediated_decay	KNOWN	None	2883	249	82	54359862	54375780	1	TXDI1	None
1	DIO1	ENSG00000211452	ENST00000528946	nonsense_mediated_decay	KNOWN	None	2883	354	117	54359862	54375782	1	TXDI1	None
1	DIO1	ENSG00000211452	ENST00000525044	nonsense_mediated_decay	KNOWN	None	2883	249	82	54359862	54375782	1	TXDI1	None
1	DIO1	ENSG00000211452	ENST00000527060	nonsense_mediated_decay	KNOWN	None	2883	177	58	54359862	54375782	1	TXDI1	None
1	DIO1	ENSG00000211452	ENST00000526329	retained_intron	KNOWN	None	2883	None	None	54359865	54370527	1	TXDI1	None
1	DIO1	ENSG00000211452	ENST00000532493	protein_coding	KNOWN	None	2883	342	113	54359884	54375672	1	TXDI1	None
1	DIO1	ENSG00000211452	ENST00000525202	protein_coding	KNOWN	CCDS53320	2883	558	185	54359884	54375672	1	TXDI1	None
1	DIO1	ENSG00000211452	ENST00000529329	nonsense_mediated_decay	KNOWN	None	2883	177	58	54359884	54375672	1	TXDI1	None
1	DIO1	ENSG00000211452	ENST00000524406	protein_coding	PUTATIVE	None	2883	363	120	54359884	54375672	1	TXDI1	None
1	DIO1	ENSG00000211452	ENST00000388876	protein_coding	KNOWN	CCDS30722	2883	606	201	54359884	54375672	1	TXDI1	None
2	SF3B1	ENSG00000115524	ENST00000335508	protein_coding	KNOWN	CCDS33356	10768	3915	1304	198256698	198299815	-1	None	SAP155, SF3b155, PRPF10, Prp10, Hsh155
2	SF3B1	ENSG00000115524	ENST00000479532	retained_intron	KNOWN	None	10768	None	None	198256979	198258075	-1	None	SAP155, SF3b155, PRPF10, Prp10, Hsh155
2	SF3B1	ENSG00000115524	ENST00000424674	protein_coding	PUTATIVE	None	10768	723	240	198257776	198263752	-1	None	SAP155, SF3b155, PRPF10, Prp10, Hsh155
2	SF3B1	ENSG00000115524	ENST00000496458	retained_intron	KNOWN	None	10768	None	None	198262678	198263496	-1	None	SAP155, SF3b155, PRPF10, Prp10, Hsh155
2	SF3B1	ENSG00000115524	ENST00000462613	processed_transcript	KNOWN	None	10768	None	None	198266746	198267176	-1	None	SAP155, SF3b155, PRPF10, Prp10, Hsh155
2	SF3B1	ENSG00000115524	ENST00000468925	retained_intron	KNOWN	None	10768	None	None	198272660	198273418	-1	None	SAP155, SF3b155, PRPF10, Prp10, Hsh155
2	SF3B1	ENSG00000115524	ENST00000470268	retained_intron	KNOWN	None	10768	None	None	198274507	198284839	-1	None	SAP155, SF3b155, PRPF10, Prp10, Hsh155
2	SF3B1	ENSG00000115524	ENST00000482158	retained_intron	KNOWN	None	10768	None	None	198281318	198283686	-1	None	SAP155, SF3b155, PRPF10, Prp10, Hsh155
2	SF3B1	ENSG00000115524	ENST00000409915	protein_coding	KNOWN	CCDS46479	10768	435	144	198281615	198299751	-1	None	SAP155, SF3b155, PRPF10, Prp10, Hsh155
2	SF3B1	ENSG00000115524	ENST00000414963	protein_coding	KNOWN	CCDS46479	10768	435	144	198283520	198299803	-1	None	SAP155, SF3b155, PRPF10, Prp10, Hsh155
2	SF3B1	ENSG00000115524	ENST00000487698	protein_coding	PUTATIVE	None	10768	465	154	198283520	198299803	-1	None	SAP155, SF3b155, PRPF10, Prp10, Hsh155
2	SF3B1	ENSG00000115524	ENST00000414174	nonsense_mediated_decay	KNOWN	None	10768	114	37	198284905	198299740	-1	None	SAP155, SF3b155, PRPF10, Prp10, Hsh155
15	None	ENSG00000261147	ENST00000561573	nonsense_mediated_decay	KNOWN	None	None	654	217	90792788	90815440	1	None	None
11	PRG3	ENSG00000156575	ENST00000287143	protein_coding	KNOWN	CCDS7954	9363	678	225	57144242	57148623	-1	None	MBPH
8	RPL30	ENSG00000156482	ENST00000518164	processed_transcript	KNOWN	None	10333	None	None	99037079	99057776	-1	None	L30
8	RPL30	ENSG00000156482	ENST00000521534	retained_intron	KNOWN	None	10333	None	None	99053947	99055313	-1	None	L30
8	RPL30	ENSG00000156482	ENST00000521291	protein_coding	KNOWN	CCDS34928	10333	348	115	99053949	99057742	-1	None	L30
8	RPL30	ENSG00000156482	ENST00000396070	protein_coding	NOVEL	None	10333	291	96	99053949	99057772	-1	None	L30
8	RPL30	ENSG00000156482	ENST00000518850	nonsense_mediated_decay	KNOWN	None	10333	171	56	99053949	99057773	-1	None	L30
8	RPL30	ENSG00000156482	ENST00000287038	protein_coding	KNOWN	CCDS34928	10333	348	115	99053949	99057818	-1	None	L30
8	RPL30	ENSG00000156482	ENST00000523172	protein_coding	PUTATIVE	None	10333	156	51	99054028	99057774	-1	None	L30
8	RPL30	ENSG00000156482	ENST00000521726	protein_coding	KNOWN	None	10333	342	113	99054035	99058697	-1	None	L30
8	RPL30	ENSG00000156482	ENST00000517489	retained_intron	KNOWN	None	10333	None	None	99054873	99057778	-1	None	L30
8	RPL30	ENSG00000156482	ENST00000517805	processed_transcript	KNOWN	None	10333	None	None	99055059	99056360	-1	None	L30
8	RPL30	ENSG00000156482	ENST00000522156	processed_transcript	KNOWN	None	10333	None	None	99055675	99056469	-1	None	L30
8	RPL30	ENSG00000156482	ENST00000520998	retained_intron	KNOWN	None	10333	None	None	99056661	99057773	-1	None	L30
8	RPL30	ENSG00000156482	ENST00000521112	retained_intron	KNOWN	None	10333	None	None	99057096	99057776	-1	None	L30
X	NONO	ENSG00000147140	ENST00000276079	protein_coding	KNOWN	CCDS14410	7871	1416	471	70503433	70521018	1	None	NRB54, NMT55, P54NRB, P54
X	NONO	ENSG00000147140	ENST00000373856	protein_coding	KNOWN	CCDS14410	7871	1416	471	70503440	70520119	1	None	NRB54, NMT55, P54NRB, P54
X	NONO	ENSG00000147140	ENST00000373841	protein_coding	KNOWN	CCDS14410	7871	1416	471	70503483	70521018	1	None	NRB54, NMT55, P54NRB, P54
X	NONO	ENSG00000147140	ENST00000474431	processed_transcript	KNOWN	None	7871	None	None	70503502	70520119	1	None	NRB54, NMT55, P54NRB, P54
X	NONO	ENSG00000147140	ENST00000420903	protein_coding	KNOWN	None	7871	373	123	70503503	70514152	1	None	NRB54, NMT55, P54NRB, P54
X	NONO	ENSG00000147140	ENST00000472185	processed_transcript	KNOWN	None	7871	None	None	70503522	70520705	1	None	NRB54, NMT55, P54NRB, P54
X	NONO	ENSG00000147140	ENST00000413858	protein_coding	KNOWN	None	7871	743	246	70503526	70517302	1	None	NRB54, NMT55, P54NRB, P54
X	NONO	ENSG00000147140	ENST00000486613	processed_transcript	KNOWN	None	7871	None	None	70503544	70514058	1	None	NRB54, NMT55, P54NRB, P54
X	NONO	ENSG00000147140	ENST00000450092	protein_coding	KNOWN	None	7871	197	64	70503611	70511671	1	None	NRB54, NMT55, P54NRB, P54
X	NONO	ENSG00000147140	ENST00000454976	protein_coding	KNOWN	None	7871	622	206	70504044	70514350	1	None	NRB54, NMT55, P54NRB, P54
X	NONO	ENSG00000147140	ENST00000418921	protein_coding	KNOWN	None	7871	703	233	70511719	70517775	1	None	NRB54, NMT55, P54NRB, P54
X	NONO	ENSG00000147140	ENST00000471419	processed_transcript	KNOWN	None	7871	None	None	70511767	70517372	1	None	NRB54, NMT55, P54NRB, P54
X	NONO	ENSG00000147140	ENST00000490044	processed_transcript	KNOWN	None	7871	None	None	70511845	70521018	1	None	NRB54, NMT55, P54NRB, P54
X	NONO	ENSG00000147140	ENST00000471907	processed_transcript	KNOWN	None	7871	None	None	70514348	70520847	1	None	NRB54, NMT55, P54NRB, P54
X	NONO	ENSG00000147140	ENST00000481755	processed_transcript	KNOWN	None	7871	None	None	70516447	70517421	1	None	NRB54, NMT55, P54NRB, P54
X	NONO	ENSG00000147140	ENST00000473525	processed_transcript	KNOWN	None	7871	None	None	70516711	70520166	1	None	NRB54, NMT55, P54NRB, P54
X	NONO	ENSG00000147140	ENST00000535149	protein_coding	KNOWN	CCDS55445	7871	1149	382	70503042	70521016	1	None	NRB54, NMT55, P54NRB, P54
12	DIABLO	ENSG00000184047	ENST00000353548	protein_coding	NOVEL	CCDS9229	21528	588	195	122692216	122710599	-1	None	SMAC, DIABLO-S, FLJ25049, FLJ10537, DFNA64
12	DIABLO	ENSG00000184047	ENST00000443649	protein_coding	KNOWN	CCDS9228	21528	720	239	122692216	122712081	-1	None	SMAC, DIABLO-S, FLJ25049, FLJ10537, DFNA64
12	DIABLO	ENSG00000184047	ENST00000464942	protein_coding	PUTATIVE	None	21528	561	186	122692314	122710609	-1	None	SMAC, DIABLO-S, FLJ25049, FLJ10537, DFNA64
12	DIABLO	ENSG00000184047	ENST00000342392	nonsense_mediated_decay	KNOWN	None	21528	141	46	122692321	122710599	-1	None	SMAC, DIABLO-S, FLJ25049, FLJ10537, DFNA64
12	DIABLO	ENSG00000184047	ENST00000267169	protein_coding	PUTATIVE	None	21528	561	186	122692341	122710599	-1	None	SMAC, DIABLO-S, FLJ25049, FLJ10537, DFNA64
12	DIABLO	ENSG00000184047	ENST00000439489	protein_coding	PUTATIVE	None	21528	362	119	122692863	122701418	-1	None	SMAC, DIABLO-S, FLJ25049, FLJ10537, DFNA64
12	DIABLO	ENSG00000184047	ENST00000541273	protein_coding	PUTATIVE	None	21528	400	132	122692957	122710586	-1	None	SMAC, DIABLO-S, FLJ25049, FLJ10537, DFNA64
12	DIABLO	ENSG00000184047	ENST00000474004	protein_coding	PUTATIVE	None	21528	470	155	122692959	122703242	-1	None	SMAC, DIABLO-S, FLJ25049, FLJ10537, DFNA64
12	DIABLO	ENSG00000184047	ENST00000540535	protein_coding	PUTATIVE	None	21528	386	127	122693043	122710520	-1	None	SMAC, DIABLO-S, FLJ25049, FLJ10537, DFNA64
12	DIABLO	ENSG00000184047	ENST00000541656	protein_coding	PUTATIVE	None	21528	376	124	122693053	122710520	-1	None	SMAC, DIABLO-S, FLJ25049, FLJ10537, DFNA64
12	DIABLO	ENSG00000184047	ENST00000446652	protein_coding	PUTATIVE	None	21528	573	190	122693258	122710556	-1	None	SMAC, DIABLO-S, FLJ25049, FLJ10537, DFNA64
12	DIABLO	ENSG00000184047	ENST00000489781	retained_intron	KNOWN	None	21528	None	None	122700636	122702955	-1	None	SMAC, DIABLO-S, FLJ25049, FLJ10537, DFNA64
12	DIABLO	ENSG00000184047	ENST00000485724	protein_coding	PUTATIVE	None	21528	231	76	122701108	122711968	-1	None	SMAC, DIABLO-S, FLJ25049, FLJ10537, DFNA64
12	DIABLO	ENSG00000184047	ENST00000475784	processed_transcript	PUTATIVE	None	21528	None	None	122710763	122712080	-1	None	SMAC, DIABLO-S, FLJ25049, FLJ10537, DFNA64
12	DIABLO	ENSG00000184047	ENST00000413918	protein_coding	KNOWN	CCDS9229	21528	588	195	122692210	122712068	-1	None	SMAC, DIABLO-S, FLJ25049, FLJ10537, DFNA64
8	RHPN1	ENSG00000158106	ENST00000289013	protein_coding	KNOWN	CCDS47927	19973	2013	670	144451057	144466390	1	None	KIAA1929, RHPN, ODF5
8	RHPN1	ENSG00000158106	ENST00000522335	retained_intron	KNOWN	None	19973	None	None	144451158	144466388	1	None	KIAA1929, RHPN, ODF5
8	RHPN1	ENSG00000158106	ENST00000522899	retained_intron	KNOWN	None	19973	None	None	144461507	144464949	1	None	KIAA1929, RHPN, ODF5
7	TRGC2	ENSG00000227191	ENST00000436911	TR_C_gene	KNOWN	None	12276	569	188	38279181	38289173	-1	TCRGC2	TRGC2(2X), TRGC2(3X)
7	TRGJ2	ENSG00000211687	ENST00000390333	TR_J_gene	KNOWN	None	12278	50	15	38292981	38293030	-1	TCRGJ2	J2
1	HSPB11	ENSG00000081870	ENST00000371378	protein_coding	KNOWN	None	25019	645	214	54382247	54411245	-1	C1orf41	HSPCO34, PP25, IFT25
1	HSPB11	ENSG00000081870	ENST00000194214	protein_coding	KNOWN	CCDS41341	25019	435	144	54387234	54411602	-1	C1orf41	HSPCO34, PP25, IFT25
1	HSPB11	ENSG00000081870	ENST00000489675	processed_transcript	KNOWN	None	25019	None	None	54387235	54394673	-1	C1orf41	HSPCO34, PP25, IFT25
1	HSPB11	ENSG00000081870	ENST00000371377	protein_coding	KNOWN	None	25019	339	112	54389206	54411283	-1	C1orf41	HSPCO34, PP25, IFT25
1	HSPB11	ENSG00000081870	ENST00000371376	protein_coding	KNOWN	None	25019	225	74	54395170	54405773	-1	C1orf41	HSPCO34, PP25, IFT25
1	HSPB11	ENSG00000081870	ENST00000488884	processed_transcript	KNOWN	None	25019	None	None	54405356	54411275	-1	C1orf41	HSPCO34, PP25, IFT25
15	NGRN	ENSG00000182768	ENST00000331497	processed_transcript	KNOWN	None	18077	None	None	90808891	90816463	1	None	DSC92
15	NGRN	ENSG00000182768	ENST00000379095	protein_coding	KNOWN	CCDS32329	18077	876	291	90808937	90815440	1	None	DSC92
5	RARS	ENSG00000113643	ENST00000231572	protein_coding	KNOWN	CCDS4367	9870	1983	660	167913450	167946304	1	None	DALRD1
5	RARS	ENSG00000113643	ENST00000524082	retained_intron	KNOWN	None	9870	None	None	167913456	167920192	1	None	DALRD1
5	RARS	ENSG00000113643	ENST00000521329	nonsense_mediated_decay	KNOWN	None	9870	177	58	167913475	167920963	1	None	DALRD1
5	RARS	ENSG00000113643	ENST00000522834	nonsense_mediated_decay	KNOWN	None	9870	342	113	167913487	167922338	1	None	DALRD1
5	RARS	ENSG00000113643	ENST00000521939	retained_intron	KNOWN	None	9870	None	None	167913491	167921741	1	None	DALRD1
5	RARS	ENSG00000113643	ENST00000520013	nonsense_mediated_decay	KNOWN	None	9870	390	129	167913496	167946303	1	None	DALRD1
5	RARS	ENSG00000113643	ENST00000519346	retained_intron	KNOWN	None	9870	None	None	167915697	167922156	1	None	DALRD1
5	RARS	ENSG00000113643	ENST00000518757	retained_intron	KNOWN	None	9870	None	None	167924017	167933035	1	None	DALRD1
5	RARS	ENSG00000113643	ENST00000520421	processed_transcript	KNOWN	None	9870	None	None	167924223	167929040	1	None	DALRD1
5	RARS	ENSG00000113643	ENST00000538719	protein_coding	KNOWN	None	9870	1365	454	167913496	167946303	1	None	DALRD1
7	None	ENSG00000234710	ENST00000447999	lincRNA	KNOWN	None	None	None	None	9776951	9809142	1	None	None
7	None	ENSG00000270611	ENST00000603806	processed_pseudogene	KNOWN	None	None	None	None	9890553	9891015	1	None	None
7	None	ENSG00000235431	ENST00000451755	lincRNA	KNOWN	None	None	None	None	10000651	10021444	1	None	None
7	None	ENSG00000212422	ENST00000391120	snoRNA	NOVEL	None	None	None	None	10262424	10262637	1	None	None
7	HSPA8P8	ENSG00000229091	ENST00000419827	processed_pseudogene	KNOWN	None	44923	None	None	10490938	10492153	1	None	None
7	None	ENSG00000234356	ENST00000453188	processed_pseudogene	KNOWN	None	None	None	None	10516208	10516505	1	None	None
2	COQ10B	ENSG00000115520	ENST00000263960	protein_coding	KNOWN	CCDS2319	25819	717	238	198318147	198340032	1	None	FLJ13448
2	COQ10B	ENSG00000115520	ENST00000409398	protein_coding	NOVEL	None	25819	567	188	198318217	198338892	1	None	FLJ13448
2	COQ10B	ENSG00000115520	ENST00000488445	processed_transcript	KNOWN	None	25819	None	None	198318488	198324721	1	None	FLJ13448
2	COQ10B	ENSG00000115520	ENST00000409010	protein_coding	NOVEL	None	25819	633	210	198318518	198339134	1	None	FLJ13448
2	COQ10B	ENSG00000115520	ENST00000545340	protein_coding	KNOWN	None	25819	588	195	198318488	198339132	1	None	FLJ13448
7	None	ENSG00000236414	ENST00000422697	lincRNA	KNOWN	None	None	None	None	10742303	10747033	1	None	None
19	IGFLR1	ENSG00000126246	ENST00000592889	protein_coding	KNOWN	None	23620	504	167	36230058	36232236	-1	U2AF1L4, TMEM149	FLJ22573
19	IGFLR1	ENSG00000126246	ENST00000588992	protein_coding	PUTATIVE	None	23620	564	187	36230116	36233354	-1	U2AF1L4, TMEM149	FLJ22573
19	IGFLR1	ENSG00000126246	ENST00000246532	protein_coding	KNOWN	CCDS12472	23620	1068	355	36230153	36233351	-1	U2AF1L4, TMEM149	FLJ22573
19	IGFLR1	ENSG00000126246	ENST00000592537	protein_coding	NOVEL	CCDS12472	23620	1068	355	36230155	36233348	-1	U2AF1L4, TMEM149	FLJ22573
19	IGFLR1	ENSG00000126246	ENST00000588018	nonsense_mediated_decay	KNOWN	None	23620	399	132	36230158	36233312	-1	U2AF1L4, TMEM149	FLJ22573
19	IGFLR1	ENSG00000126246	ENST00000591748	protein_coding	PUTATIVE	None	23620	224	73	36230429	36231450	-1	U2AF1L4, TMEM149	FLJ22573
19	IGFLR1	ENSG00000126246	ENST00000592693	nonsense_mediated_decay	KNOWN	None	23620	182	59	36230437	36232005	-1	U2AF1L4, TMEM149	FLJ22573
19	IGFLR1	ENSG00000126246	ENST00000587101	processed_transcript	PUTATIVE	None	23620	None	None	36230725	36231497	-1	U2AF1L4, TMEM149	FLJ22573
19	IGFLR1	ENSG00000126246	ENST00000591277	protein_coding	PUTATIVE	None	23620	414	137	36230918	36232248	-1	U2AF1L4, TMEM149	FLJ22573
19	IGFLR1	ENSG00000126246	ENST00000589175	retained_intron	KNOWN	None	23620	None	None	36231641	36233350	-1	U2AF1L4, TMEM149	FLJ22573
19	IGFLR1	ENSG00000126246	ENST00000586140	protein_coding	KNOWN	None	23620	48	15	36232034	36232492	-1	U2AF1L4, TMEM149	FLJ22573
19	IGFLR1	ENSG00000126246	ENST00000344990	protein_coding	KNOWN	None	23620	504	167	36230153	36233351	-1	U2AF1L4, TMEM149	FLJ22573
7	None	ENSG00000201774	ENST00000364904	misc_RNA	NOVEL	None	None	None	None	10941605	10941701	1	None	None
7	None	ENSG00000271185	ENST00000604183	lincRNA	KNOWN	None	None	None	None	10980050	10980362	1	None	None
3	ITIH4	ENSG00000055955	ENST00000266041	protein_coding	KNOWN	CCDS2865	6169	2793	930	52846991	52864755	-1	ITIHL1	IHRP, H4P
3	ITIH4	ENSG00000055955	ENST00000485816	protein_coding	NOVEL	None	6169	2808	935	52847286	52864689	-1	ITIHL1	IHRP, H4P
3	ITIH4	ENSG00000055955	ENST00000406595	protein_coding	KNOWN	CCDS54596	6169	2703	900	52847298	52864688	-1	ITIHL1	IHRP, H4P
3	ITIH4	ENSG00000055955	ENST00000464000	retained_intron	KNOWN	None	6169	None	None	52847299	52848228	-1	ITIHL1	IHRP, H4P
3	ITIH4	ENSG00000055955	ENST00000441637	protein_coding	NOVEL	None	6169	2158	718	52847302	52860933	-1	ITIHL1	IHRP, H4P
3	ITIH4	ENSG00000055955	ENST00000491663	retained_intron	KNOWN	None	6169	None	None	52847329	52864703	-1	ITIHL1	IHRP, H4P
3	ITIH4	ENSG00000055955	ENST00000461966	retained_intron	KNOWN	None	6169	None	None	52848293	52853614	-1	ITIHL1	IHRP, H4P
3	ITIH4	ENSG00000055955	ENST00000481977	retained_intron	KNOWN	None	6169	None	None	52852068	52853917	-1	ITIHL1	IHRP, H4P
3	ITIH4	ENSG00000055955	ENST00000537897	retained_intron	KNOWN	None	6169	None	None	52852542	52864704	-1	ITIHL1	IHRP, H4P
3	ITIH4	ENSG00000055955	ENST00000471505	processed_transcript	KNOWN	None	6169	None	None	52854398	52855080	-1	ITIHL1	IHRP, H4P
3	ITIH4	ENSG00000055955	ENST00000484632	processed_transcript	KNOWN	None	6169	None	None	52854606	52857416	-1	ITIHL1	IHRP, H4P
3	ITIH4	ENSG00000055955	ENST00000485894	retained_intron	KNOWN	None	6169	None	None	52855007	52857833	-1	ITIHL1	IHRP, H4P
3	ITIH4	ENSG00000055955	ENST00000467462	processed_transcript	KNOWN	None	6169	None	None	52855095	52857722	-1	ITIHL1	IHRP, H4P
3	ITIH4	ENSG00000055955	ENST00000483372	retained_intron	KNOWN	None	6169	None	None	52858477	52859263	-1	ITIHL1	IHRP, H4P
3	ITIH4	ENSG00000055955	ENST00000473904	retained_intron	KNOWN	None	6169	None	None	52863876	52865495	-1	ITIHL1	IHRP, H4P
3	ITIH4	ENSG00000055955	ENST00000346281	protein_coding	KNOWN	None	6169	2745	914	52847006	52864717	-1	ITIHL1	IHRP, H4P
3	ITIH4	ENSG00000055955	ENST00000434759	protein_coding	KNOWN	None	6169	1683	560	52853409	52864704	-1	ITIHL1	IHRP, H4P
10	ATP5C1	ENSG00000165629	ENST00000356708	protein_coding	KNOWN	CCDS31142	833	897	298	7830092	7849778	1	ATP5CL1, ATP5C	None
10	ATP5C1	ENSG00000165629	ENST00000493053	processed_transcript	KNOWN	None	833	None	None	7830110	7849764	1	ATP5CL1, ATP5C	None
10	ATP5C1	ENSG00000165629	ENST00000462760	processed_transcript	KNOWN	None	833	None	None	7830122	7838551	1	ATP5CL1, ATP5C	None
10	ATP5C1	ENSG00000165629	ENST00000460362	processed_transcript	KNOWN	None	833	None	None	7830138	7838858	1	ATP5CL1, ATP5C	None
10	ATP5C1	ENSG00000165629	ENST00000335698	protein_coding	KNOWN	CCDS7081	833	894	297	7830140	7849778	1	ATP5CL1, ATP5C	None
10	ATP5C1	ENSG00000165629	ENST00000465936	processed_transcript	KNOWN	None	833	None	None	7830142	7849756	1	ATP5CL1, ATP5C	None
10	ATP5C1	ENSG00000165629	ENST00000460820	processed_transcript	KNOWN	None	833	None	None	7830147	7844374	1	ATP5CL1, ATP5C	None
10	ATP5C1	ENSG00000165629	ENST00000472202	retained_intron	KNOWN	None	833	None	None	7830173	7841513	1	ATP5CL1, ATP5C	None
10	ATP5C1	ENSG00000165629	ENST00000473809	processed_transcript	KNOWN	None	833	None	None	7842015	7849764	1	ATP5CL1, ATP5C	None
10	ATP5C1	ENSG00000165629	ENST00000480528	processed_transcript	KNOWN	None	833	None	None	7844206	7849764	1	ATP5CL1, ATP5C	None
10	ATP5C1	ENSG00000165629	ENST00000541227	protein_coding	KNOWN	None	833	753	250	7830140	7844838	1	ATP5CL1, ATP5C	None
9	DNM1	ENSG00000106976	ENST00000475805	protein_coding	KNOWN	None	2972	2556	851	130965658	131016441	1	DNM	None
9	DNM1	ENSG00000106976	ENST00000341179	protein_coding	KNOWN	CCDS43882	2972	2556	851	130965658	131017516	1	DNM	None
9	DNM1	ENSG00000106976	ENST00000372923	protein_coding	KNOWN	CCDS6895	2972	2595	864	130965658	131017527	1	DNM	None
9	DNM1	ENSG00000106976	ENST00000393594	protein_coding	KNOWN	None	2972	2556	851	130965696	131017518	1	DNM	None
9	DNM1	ENSG00000106976	ENST00000486160	protein_coding	KNOWN	None	2972	2595	864	130965725	131017516	1	DNM	None
9	DNM1	ENSG00000106976	ENST00000441149	retained_intron	KNOWN	None	2972	None	None	130980548	131013523	1	DNM	None
9	DNM1	ENSG00000106976	ENST00000482638	nonsense_mediated_decay	KNOWN	None	2972	180	59	130984808	131004546	1	DNM	None
9	DNM1	ENSG00000106976	ENST00000463998	retained_intron	KNOWN	None	2972	None	None	130995843	131002062	1	DNM	None
9	DNM1	ENSG00000106976	ENST00000479174	processed_transcript	KNOWN	None	2972	None	None	131003031	131008725	1	DNM	None
9	DNM1	ENSG00000106976	ENST00000493925	processed_transcript	KNOWN	None	2972	None	None	131003193	131009666	1	DNM	None
1	LRRC42	ENSG00000116212	ENST00000371370	protein_coding	KNOWN	CCDS585	28792	1287	428	54411750	54433841	1	None	MGC8974
1	LRRC42	ENSG00000116212	ENST00000371368	protein_coding	KNOWN	None	28792	577	191	54411758	54423925	1	None	MGC8974
1	LRRC42	ENSG00000116212	ENST00000319223	protein_coding	KNOWN	CCDS585	28792	1287	428	54412026	54433841	1	None	MGC8974
1	LRRC42	ENSG00000116212	ENST00000444987	protein_coding	KNOWN	None	28792	718	238	54412031	54426141	1	None	MGC8974
1	LRRC42	ENSG00000116212	ENST00000477905	processed_transcript	KNOWN	None	28792	None	None	54427626	54433406	1	None	MGC8974
17	ASPSCR1	ENSG00000169696	ENST00000581484	protein_coding	PUTATIVE	None	13825	921	306	79934683	79954719	1	None	ASPS, ASPL, UBXD9, UBXN9
17	ASPSCR1	ENSG00000169696	ENST00000306729	protein_coding	KNOWN	CCDS58611	13825	1944	647	79935426	79975280	1	None	ASPS, ASPL, UBXD9, UBXN9
17	ASPSCR1	ENSG00000169696	ENST00000306739	protein_coding	KNOWN	CCDS11796	13825	1662	553	79935426	79975282	1	None	ASPS, ASPL, UBXD9, UBXN9
17	ASPSCR1	ENSG00000169696	ENST00000344865	nonsense_mediated_decay	KNOWN	None	13825	177	58	79935478	79966915	1	None	ASPS, ASPL, UBXD9, UBXN9
17	ASPSCR1	ENSG00000169696	ENST00000581647	protein_coding	PUTATIVE	None	13825	549	182	79935507	79953026	1	None	ASPS, ASPL, UBXD9, UBXN9
17	ASPSCR1	ENSG00000169696	ENST00000580534	protein_coding	KNOWN	None	13825	1506	501	79935510	79975280	1	None	ASPS, ASPL, UBXD9, UBXN9
17	ASPSCR1	ENSG00000169696	ENST00000583503	nonsense_mediated_decay	KNOWN	None	13825	483	160	79935517	79968701	1	None	ASPS, ASPL, UBXD9, UBXN9
17	ASPSCR1	ENSG00000169696	ENST00000579684	protein_coding	PUTATIVE	None	13825	564	187	79935581	79953023	1	None	ASPS, ASPL, UBXD9, UBXN9
17	ASPSCR1	ENSG00000169696	ENST00000582019	protein_coding	PUTATIVE	None	13825	14	3	79935775	79941502	1	None	ASPS, ASPL, UBXD9, UBXN9
17	ASPSCR1	ENSG00000169696	ENST00000584454	nonsense_mediated_decay	KNOWN	None	13825	1413	470	79936062	79975282	1	None	ASPS, ASPL, UBXD9, UBXN9
17	ASPSCR1	ENSG00000169696	ENST00000582355	protein_coding	PUTATIVE	None	13825	1059	352	79953319	79974913	1	None	ASPS, ASPL, UBXD9, UBXN9
17	ASPSCR1	ENSG00000169696	ENST00000577733	retained_intron	KNOWN	None	13825	None	None	79962221	79975280	1	None	ASPS, ASPL, UBXD9, UBXN9
17	ASPSCR1	ENSG00000169696	ENST00000578236	retained_intron	KNOWN	None	13825	None	None	79964518	79975280	1	None	ASPS, ASPL, UBXD9, UBXN9
17	ASPSCR1	ENSG00000169696	ENST00000581608	retained_intron	KNOWN	None	13825	None	None	79965311	79975279	1	None	ASPS, ASPL, UBXD9, UBXN9
17	ASPSCR1	ENSG00000169696	ENST00000585274	retained_intron	KNOWN	None	13825	None	None	79967362	79975245	1	None	ASPS, ASPL, UBXD9, UBXN9
17	ASPSCR1	ENSG00000169696	ENST00000583744	protein_coding	PUTATIVE	None	13825	539	178	79968687	79975279	1	None	ASPS, ASPL, UBXD9, UBXN9
17	ASPSCR1	ENSG00000169696	ENST00000578361	retained_intron	KNOWN	None	13825	None	None	79969960	79975279	1	None	ASPS, ASPL, UBXD9, UBXN9
17	ASPSCR1	ENSG00000169696	ENST00000583142	processed_transcript	KNOWN	None	13825	None	None	79970758	79975277	1	None	ASPS, ASPL, UBXD9, UBXN9
17	ASPSCR1	ENSG00000169696	ENST00000583693	retained_intron	KNOWN	None	13825	None	None	79971110	79975280	1	None	ASPS, ASPL, UBXD9, UBXN9
17	ASPSCR1	ENSG00000169696	ENST00000582404	processed_transcript	KNOWN	None	13825	None	None	79973090	79975280	1	None	ASPS, ASPL, UBXD9, UBXN9
17	ASPSCR1	ENSG00000169696	ENST00000585140	processed_transcript	KNOWN	None	13825	None	None	79974070	79975246	1	None	ASPS, ASPL, UBXD9, UBXN9
7	TRGJP2	ENSG00000211688	ENST00000390334	TR_J_gene	KNOWN	None	12281	60	19	38295938	38295997	-1	TCRGJP2	JP2
7	TRGC1	ENSG00000211689	ENST00000443402	TR_C_gene	KNOWN	None	12275	521	172	38297480	38305279	-1	TCRGC1	C1
11	PRG2	ENSG00000186652	ENST00000311862	protein_coding	KNOWN	CCDS7955	9362	669	222	57154267	57158130	-1	None	MBP, BMPG
11	PRG2	ENSG00000186652	ENST00000533605	protein_coding	KNOWN	CCDS58133	9362	636	211	57154288	57158110	-1	None	MBP, BMPG
11	PRG2	ENSG00000186652	ENST00000525955	protein_coding	KNOWN	CCDS7955	9362	669	222	57154416	57158109	-1	None	MBP, BMPG
11	PRG2	ENSG00000186652	ENST00000530105	retained_intron	KNOWN	None	9362	None	None	57154916	57158102	-1	None	MBP, BMPG
3	FAM212A	ENSG00000185614	ENST00000333323	protein_coding	KNOWN	CCDS2804	32480	864	287	49840687	49842463	1	C3orf54	None
1	LDLRAD1	ENSG00000203985	ENST00000371362	protein_coding	KNOWN	None	32069	351	116	54474412	54483845	-1	None	None
1	LDLRAD1	ENSG00000203985	ENST00000371360	protein_coding	KNOWN	CCDS30725	32069	618	205	54474506	54483803	-1	None	None
1	LDLRAD1	ENSG00000203985	ENST00000420619	protein_coding	KNOWN	None	32069	501	166	54474617	54483856	-1	None	None
1	LDLRAD1	ENSG00000203985	ENST00000545928	protein_coding	KNOWN	None	32069	489	162	54474569	54483803	-1	None	None
2	HSPD1	ENSG00000144381	ENST00000388968	protein_coding	KNOWN	CCDS33357	5261	1722	573	198351305	198364771	-1	SPG13	GROEL, HSP60
2	HSPD1	ENSG00000144381	ENST00000491249	retained_intron	KNOWN	None	5261	None	None	198352698	198355296	-1	SPG13	GROEL, HSP60
2	HSPD1	ENSG00000144381	ENST00000482167	retained_intron	KNOWN	None	5261	None	None	198358044	198359198	-1	SPG13	GROEL, HSP60
2	HSPD1	ENSG00000144381	ENST00000430176	protein_coding	KNOWN	None	5261	703	233	198358872	198364932	-1	SPG13	GROEL, HSP60
2	HSPD1	ENSG00000144381	ENST00000486181	retained_intron	KNOWN	None	5261	None	None	198358874	198362231	-1	SPG13	GROEL, HSP60
2	HSPD1	ENSG00000144381	ENST00000452200	protein_coding	KNOWN	None	5261	663	220	198358918	198364945	-1	SPG13	GROEL, HSP60
2	HSPD1	ENSG00000144381	ENST00000440114	nonsense_mediated_decay	KNOWN	None	5261	147	48	198359364	198364546	-1	SPG13	GROEL, HSP60
2	HSPD1	ENSG00000144381	ENST00000476746	retained_intron	KNOWN	None	5261	None	None	198359775	198364603	-1	SPG13	GROEL, HSP60
2	HSPD1	ENSG00000144381	ENST00000461097	retained_intron	KNOWN	None	5261	None	None	198361615	198364541	-1	SPG13	GROEL, HSP60
2	HSPD1	ENSG00000144381	ENST00000426480	protein_coding	PUTATIVE	None	5261	525	174	198361892	198381461	-1	SPG13	GROEL, HSP60
2	HSPD1	ENSG00000144381	ENST00000428204	protein_coding	KNOWN	None	5261	282	93	198362009	198364590	-1	SPG13	GROEL, HSP60
2	HSPD1	ENSG00000144381	ENST00000439605	protein_coding	KNOWN	None	5261	250	82	198362041	198364559	-1	SPG13	GROEL, HSP60
2	HSPD1	ENSG00000144381	ENST00000418022	protein_coding	KNOWN	None	5261	175	57	198363398	198364564	-1	SPG13	GROEL, HSP60
2	HSPD1	ENSG00000144381	ENST00000345042	protein_coding	KNOWN	CCDS33357	5261	1722	573	198351310	198364998	-1	SPG13	GROEL, HSP60
2	HSPD1	ENSG00000144381	ENST00000544407	protein_coding	KNOWN	None	5261	477	158	198361635	198364812	-1	SPG13	GROEL, HSP60
17	TNK1	ENSG00000174292	ENST00000570896	protein_coding	KNOWN	CCDS45602	11940	1986	661	7283853	7293093	1	None	None
17	TNK1	ENSG00000174292	ENST00000576812	protein_coding	KNOWN	CCDS58510	11940	2001	666	7284156	7293056	1	None	None
17	TNK1	ENSG00000174292	ENST00000575268	retained_intron	KNOWN	None	11940	None	None	7284365	7287047	1	None	None
17	TNK1	ENSG00000174292	ENST00000574794	retained_intron	KNOWN	None	11940	None	None	7284408	7286787	1	None	None
17	TNK1	ENSG00000174292	ENST00000576207	nonsense_mediated_decay	KNOWN	None	11940	234	77	7284410	7287037	1	None	None
17	TNK1	ENSG00000174292	ENST00000577009	nonsense_mediated_decay	KNOWN	None	11940	11	2	7287566	7289941	1	None	None
17	TNK1	ENSG00000174292	ENST00000576136	retained_intron	KNOWN	None	11940	None	None	7287585	7289974	1	None	None
17	TNK1	ENSG00000174292	ENST00000576716	protein_coding	PUTATIVE	None	11940	253	83	7290453	7292018	1	None	None
17	TNK1	ENSG00000174292	ENST00000311668	protein_coding	KNOWN	CCDS45602	11940	1986	661	7284365	7293092	1	None	None
1	EFNA4	ENSG00000243364	ENST00000368409	protein_coding	KNOWN	CCDS1089	3224	606	201	155036207	155042029	1	EPLG4	LERK4
1	EFNA4	ENSG00000243364	ENST00000359751	protein_coding	KNOWN	CCDS41407	3224	582	193	155036213	155042014	1	EPLG4	LERK4
1	EFNA4	ENSG00000243364	ENST00000427683	protein_coding	KNOWN	CCDS44237	3224	624	207	155036237	155042014	1	EPLG4	LERK4
12	FAM186B	ENSG00000135436	ENST00000548841	protein_coding	KNOWN	None	25296	353	116	49976668	49992572	-1	C12orf25	DKFZP434J0113
12	FAM186B	ENSG00000135436	ENST00000533372	nonsense_mediated_decay	KNOWN	None	25296	174	57	49976669	49999410	-1	C12orf25	DKFZP434J0113
12	FAM186B	ENSG00000135436	ENST00000551047	protein_coding	PUTATIVE	None	25296	726	241	49976991	49999401	-1	C12orf25	DKFZP434J0113
12	FAM186B	ENSG00000135436	ENST00000532262	protein_coding	KNOWN	None	25296	1521	506	49978061	49994261	-1	C12orf25	DKFZP434J0113
12	FAM186B	ENSG00000135436	ENST00000257894	protein_coding	KNOWN	CCDS8788	25296	2682	893	49981288	49999422	-1	C12orf25	DKFZP434J0113
12	FAM186B	ENSG00000135436	ENST00000544141	protein_coding	KNOWN	None	25296	2346	781	49976669	49999410	-1	C12orf25	DKFZP434J0113
4	ENPP6	ENSG00000164303	ENST00000296741	protein_coding	KNOWN	CCDS3834	23409	1323	440	185009859	185139114	-1	None	MGC33971
4	ENPP6	ENSG00000164303	ENST00000510054	retained_intron	KNOWN	None	23409	None	None	185033745	185038974	-1	None	MGC33971
4	ENPP6	ENSG00000164303	ENST00000512353	protein_coding	PUTATIVE	None	23409	584	193	185038016	185142383	-1	None	MGC33971
4	ENPP6	ENSG00000164303	ENST00000505644	retained_intron	KNOWN	None	23409	None	None	185137715	185138855	-1	None	MGC33971
7	TRGJ1	ENSG00000211690	ENST00000390337	TR_J_gene	KNOWN	None	12277	50	15	38309092	38309141	-1	TCRGJ1	J1
11	ROBO3	ENSG00000154134	ENST00000397801	protein_coding	KNOWN	CCDS44755	13433	4161	1386	124735282	124751362	1	HGPPS	RBIG1, FLJ21044, HGPS
11	ROBO3	ENSG00000154134	ENST00000538940	protein_coding	PUTATIVE	None	13433	4095	1364	124738364	124751362	1	HGPPS	RBIG1, FLJ21044, HGPS
11	ROBO3	ENSG00000154134	ENST00000527196	retained_intron	KNOWN	None	13433	None	None	124746017	124751366	1	HGPPS	RBIG1, FLJ21044, HGPS
11	ROBO3	ENSG00000154134	ENST00000527245	retained_intron	KNOWN	None	13433	None	None	124746362	124751362	1	HGPPS	RBIG1, FLJ21044, HGPS
11	ROBO3	ENSG00000154134	ENST00000529658	retained_intron	KNOWN	None	13433	None	None	124746366	124751362	1	HGPPS	RBIG1, FLJ21044, HGPS
11	ROBO3	ENSG00000154134	ENST00000531545	processed_transcript	KNOWN	None	13433	None	None	124746382	124747567	1	HGPPS	RBIG1, FLJ21044, HGPS
11	ROBO3	ENSG00000154134	ENST00000525448	retained_intron	KNOWN	None	13433	None	None	124746382	124751362	1	HGPPS	RBIG1, FLJ21044, HGPS
11	ROBO3	ENSG00000154134	ENST00000528144	processed_transcript	KNOWN	None	13433	None	None	124746594	124749203	1	HGPPS	RBIG1, FLJ21044, HGPS
11	ROBO3	ENSG00000154134	ENST00000531888	retained_intron	KNOWN	None	13433	None	None	124746624	124747413	1	HGPPS	RBIG1, FLJ21044, HGPS
11	ROBO3	ENSG00000154134	ENST00000528068	retained_intron	KNOWN	None	13433	None	None	124746710	124747572	1	HGPPS	RBIG1, FLJ21044, HGPS
11	ROBO3	ENSG00000154134	ENST00000532472	processed_transcript	KNOWN	None	13433	None	None	124746714	124747637	1	HGPPS	RBIG1, FLJ21044, HGPS
11	ROBO3	ENSG00000154134	ENST00000531119	retained_intron	KNOWN	None	13433	None	None	124746718	124747692	1	HGPPS	RBIG1, FLJ21044, HGPS
11	ROBO3	ENSG00000154134	ENST00000530647	retained_intron	KNOWN	None	13433	None	None	124746722	124747806	1	HGPPS	RBIG1, FLJ21044, HGPS
11	ROBO3	ENSG00000154134	ENST00000526551	processed_transcript	KNOWN	None	13433	None	None	124746722	124748609	1	HGPPS	RBIG1, FLJ21044, HGPS
11	ROBO3	ENSG00000154134	ENST00000528820	processed_transcript	KNOWN	None	13433	None	None	124746738	124749775	1	HGPPS	RBIG1, FLJ21044, HGPS
11	ROBO3	ENSG00000154134	ENST00000525482	processed_transcript	KNOWN	None	13433	None	None	124746738	124751361	1	HGPPS	RBIG1, FLJ21044, HGPS
11	ROBO3	ENSG00000154134	ENST00000534598	retained_intron	KNOWN	None	13433	None	None	124746742	124748306	1	HGPPS	RBIG1, FLJ21044, HGPS
11	ROBO3	ENSG00000154134	ENST00000531075	processed_transcript	KNOWN	None	13433	None	None	124746771	124749840	1	HGPPS	RBIG1, FLJ21044, HGPS
11	ROBO3	ENSG00000154134	ENST00000525304	retained_intron	KNOWN	None	13433	None	None	124748193	124750455	1	HGPPS	RBIG1, FLJ21044, HGPS
11	ROBO3	ENSG00000154134	ENST00000524971	retained_intron	KNOWN	None	13433	None	None	124748261	124750411	1	HGPPS	RBIG1, FLJ21044, HGPS
11	ROBO3	ENSG00000154134	ENST00000543966	protein_coding	KNOWN	None	13433	450	149	124747284	124751359	1	HGPPS	RBIG1, FLJ21044, HGPS
11	MIR3654	ENSG00000255508	ENST00000526409	retained_intron	KNOWN	None	38896	None	None	62327075	62344793	-1	None	hsa-mir-3654
11	MIR3654	ENSG00000255508	ENST00000496634	nonsense_mediated_decay	KNOWN	None	38896	1578	525	62327075	62359003	-1	None	hsa-mir-3654
11	MIR3654	ENSG00000255508	ENST00000534745	retained_intron	KNOWN	None	38896	None	None	62341358	62344324	-1	None	hsa-mir-3654
X	IKBKG	ENSG00000073009	ENST00000440286	protein_coding	KNOWN	None	5961	752	249	153769414	153789983	1	IP2, IP1	IKK-gamma, NEMO, Fip3p, FIP-3, FIP3, ZC2HC9
X	IKBKG	ENSG00000073009	ENST00000422680	protein_coding	KNOWN	None	5961	617	204	153769470	153788720	1	IP2, IP1	IKK-gamma, NEMO, Fip3p, FIP-3, FIP3, ZC2HC9
X	IKBKG	ENSG00000073009	ENST00000369609	protein_coding	PUTATIVE	CCDS48196	5961	1464	487	153770459	153793248	1	IP2, IP1	IKK-gamma, NEMO, Fip3p, FIP-3, FIP3, ZC2HC9
X	IKBKG	ENSG00000073009	ENST00000369607	protein_coding	KNOWN	CCDS14757	5961	1260	419	153770478	153793248	1	IP2, IP1	IKK-gamma, NEMO, Fip3p, FIP-3, FIP3, ZC2HC9
X	IKBKG	ENSG00000073009	ENST00000445622	protein_coding	KNOWN	None	5961	414	137	153774142	153786761	1	IP2, IP1	IKK-gamma, NEMO, Fip3p, FIP-3, FIP3, ZC2HC9
X	IKBKG	ENSG00000073009	ENST00000369606	protein_coding	KNOWN	CCDS14757	5961	1260	419	153775522	153793248	1	IP2, IP1	IKK-gamma, NEMO, Fip3p, FIP-3, FIP3, ZC2HC9
X	IKBKG	ENSG00000073009	ENST00000413620	protein_coding	PUTATIVE	None	5961	587	194	153775574	153788726	1	IP2, IP1	IKK-gamma, NEMO, Fip3p, FIP-3, FIP3, ZC2HC9
X	IKBKG	ENSG00000073009	ENST00000263518	protein_coding	NOVEL	None	5961	1107	368	153775849	153793193	1	IP2, IP1	IKK-gamma, NEMO, Fip3p, FIP-3, FIP3, ZC2HC9
X	IKBKG	ENSG00000073009	ENST00000470142	protein_coding	NOVEL	None	5961	1239	412	153775853	153795804	1	IP2, IP1	IKK-gamma, NEMO, Fip3p, FIP-3, FIP3, ZC2HC9
X	IKBKG	ENSG00000073009	ENST00000393549	protein_coding	NOVEL	None	5961	1236	411	153775853	153796782	1	IP2, IP1	IKK-gamma, NEMO, Fip3p, FIP-3, FIP3, ZC2HC9
X	IKBKG	ENSG00000073009	ENST00000455588	protein_coding	NOVEL	None	5961	1257	418	153775856	153793248	1	IP2, IP1	IKK-gamma, NEMO, Fip3p, FIP-3, FIP3, ZC2HC9
X	IKBKG	ENSG00000073009	ENST00000369602	protein_coding	NOVEL	CCDS48197	5961	963	320	153775857	153793248	1	IP2, IP1	IKK-gamma, NEMO, Fip3p, FIP-3, FIP3, ZC2HC9
X	IKBKG	ENSG00000073009	ENST00000424839	protein_coding	PUTATIVE	None	5961	572	189	153775905	153791856	1	IP2, IP1	IKK-gamma, NEMO, Fip3p, FIP-3, FIP3, ZC2HC9
X	IKBKG	ENSG00000073009	ENST00000369601	protein_coding	KNOWN	CCDS14757	5961	1260	419	153776062	153793261	1	IP2, IP1	IKK-gamma, NEMO, Fip3p, FIP-3, FIP3, ZC2HC9
X	IKBKG	ENSG00000073009	ENST00000490409	processed_transcript	KNOWN	None	5961	None	None	153780206	153791110	1	IP2, IP1	IKK-gamma, NEMO, Fip3p, FIP-3, FIP3, ZC2HC9
X	IKBKG	ENSG00000073009	ENST00000492469	processed_transcript	KNOWN	None	5961	None	None	153780386	153785075	1	IP2, IP1	IKK-gamma, NEMO, Fip3p, FIP-3, FIP3, ZC2HC9
X	IKBKG	ENSG00000073009	ENST00000479063	retained_intron	KNOWN	None	5961	None	None	153790613	153792198	1	IP2, IP1	IKK-gamma, NEMO, Fip3p, FIP-3, FIP3, ZC2HC9
7	TRGJP	ENSG00000211691	ENST00000390338	TR_J_gene	KNOWN	None	12279	61	19	38313188	38313248	-1	TCRGJP	JP
2	HSPE1	ENSG00000115541	ENST00000233893	protein_coding	KNOWN	CCDS2320	5269	309	102	198364718	198368181	1	None	CPN10, GROES
2	HSPE1	ENSG00000115541	ENST00000409729	protein_coding	NOVEL	None	5269	144	47	198364864	198368020	1	None	CPN10, GROES
2	HSPE1	ENSG00000115541	ENST00000473395	retained_intron	KNOWN	None	5269	None	None	198365073	198366275	1	None	CPN10, GROES
2	HSPE1	ENSG00000115541	ENST00000409468	protein_coding	PUTATIVE	None	5269	306	101	198365103	198368106	1	None	CPN10, GROES
2	HSPE1	ENSG00000115541	ENST00000495200	retained_intron	KNOWN	None	5269	None	None	198365162	198365853	1	None	CPN10, GROES
2	HSPE1	ENSG00000115541	ENST00000465573	processed_transcript	KNOWN	None	5269	None	None	198365267	198368105	1	None	CPN10, GROES
2	HSPE1	ENSG00000115541	ENST00000463841	retained_intron	KNOWN	None	5269	None	None	198365606	198368105	1	None	CPN10, GROES
7	TRGJP1	ENSG00000211692	ENST00000390339	TR_J_gene	KNOWN	None	12280	60	19	38315860	38315919	-1	TCRGJP1	JP1
1	EFNA3	ENSG00000143590	ENST00000368408	protein_coding	KNOWN	CCDS1090	3223	717	238	155051348	155060014	1	EPLG3	LERK3, Ehk1-L
1	EFNA3	ENSG00000143590	ENST00000470294	processed_transcript	KNOWN	None	3223	None	None	155057992	155059458	1	EPLG3	LERK3, Ehk1-L
1	EFNA3	ENSG00000143590	ENST00000498667	processed_transcript	KNOWN	None	3223	None	None	155057998	155059399	1	EPLG3	LERK3, Ehk1-L
1	EFNA3	ENSG00000143590	ENST00000556931	protein_coding	KNOWN	None	3223	702	233	155036224	155059278	1	EPLG3	LERK3, Ehk1-L
1	EFNA3	ENSG00000143590	ENST00000418360	protein_coding	KNOWN	None	3223	639	212	155051385	155059382	1	EPLG3	LERK3, Ehk1-L
1	OBSCN	ENSG00000154358	ENST00000284548	protein_coding	NOVEL	CCDS1570	15719	19863	6620	228395831	228548951	1	None	KIAA1556, UNC89, KIAA1639, ARHGEF30
1	OBSCN	ENSG00000154358	ENST00000570156	protein_coding	PUTATIVE	CCDS59204	15719	26772	8923	228395831	228566577	1	None	KIAA1556, UNC89, KIAA1639, ARHGEF30
1	OBSCN	ENSG00000154358	ENST00000493977	processed_transcript	KNOWN	None	15719	None	None	228403390	228405128	1	None	KIAA1556, UNC89, KIAA1639, ARHGEF30
1	OBSCN	ENSG00000154358	ENST00000366706	protein_coding	NOVEL	None	15719	2577	858	228464879	228471905	1	None	KIAA1556, UNC89, KIAA1639, ARHGEF30
1	OBSCN	ENSG00000154358	ENST00000366704	retained_intron	KNOWN	None	15719	None	None	228467909	228472692	1	None	KIAA1556, UNC89, KIAA1639, ARHGEF30
1	OBSCN	ENSG00000154358	ENST00000483539	protein_coding	NOVEL	None	15719	4699	1565	228468474	228492160	1	None	KIAA1556, UNC89, KIAA1639, ARHGEF30
1	OBSCN	ENSG00000154358	ENST00000494839	retained_intron	KNOWN	None	15719	None	None	228481896	228482842	1	None	KIAA1556, UNC89, KIAA1639, ARHGEF30
1	OBSCN	ENSG00000154358	ENST00000602685	processed_transcript	KNOWN	None	15719	None	None	228487517	228489783	1	None	KIAA1556, UNC89, KIAA1639, ARHGEF30
1	OBSCN	ENSG00000154358	ENST00000602832	retained_intron	KNOWN	None	15719	None	None	228491310	228492045	1	None	KIAA1556, UNC89, KIAA1639, ARHGEF30
1	OBSCN	ENSG00000154358	ENST00000441106	protein_coding	KNOWN	None	15719	7750	2582	228522583	228566575	1	None	KIAA1556, UNC89, KIAA1639, ARHGEF30
1	OBSCN	ENSG00000154358	ENST00000474237	protein_coding	NOVEL	None	15719	206	67	228540735	228548951	1	None	KIAA1556, UNC89, KIAA1639, ARHGEF30
1	OBSCN	ENSG00000154358	ENST00000422127	protein_coding	KNOWN	CCDS58065	15719	23907	7968	228395861	228566575	1	None	KIAA1556, UNC89, KIAA1639, ARHGEF30
1	OBSCN	ENSG00000154358	ENST00000359599	protein_coding	KNOWN	None	15719	8274	2757	228444351	228492160	1	None	KIAA1556, UNC89, KIAA1639, ARHGEF30
1	OBSCN	ENSG00000154358	ENST00000366707	protein_coding	KNOWN	None	15719	16809	5602	228395861	228566575	1	None	KIAA1556, UNC89, KIAA1639, ARHGEF30
1	OBSCN	ENSG00000154358	ENST00000366709	protein_coding	KNOWN	None	15719	11220	3739	228395861	228548456	1	None	KIAA1556, UNC89, KIAA1639, ARHGEF30
19	ZNF146	ENSG00000167635	ENST00000591063	processed_transcript	KNOWN	None	12931	None	None	36705998	36726961	1	None	OZF
19	ZNF146	ENSG00000167635	ENST00000586094	processed_transcript	KNOWN	None	12931	None	None	36706008	36726962	1	None	OZF
19	ZNF146	ENSG00000167635	ENST00000443387	protein_coding	KNOWN	CCDS12492	12931	879	292	36706035	36729676	1	None	OZF
19	ZNF146	ENSG00000167635	ENST00000587285	retained_intron	KNOWN	None	12931	None	None	36719361	36726770	1	None	OZF
19	ZNF146	ENSG00000167635	ENST00000456324	protein_coding	KNOWN	CCDS12492	12931	879	292	36705504	36729673	1	None	OZF
1	None	ENSG00000251246	ENST00000505139	protein_coding	PUTATIVE	None	None	702	233	155036224	155059283	1	None	None
11	PDE2A	ENSG00000186642	ENST00000334456	protein_coding	KNOWN	CCDS8216	8777	2826	941	72287185	72385497	-1	None	None
11	PDE2A	ENSG00000186642	ENST00000376450	protein_coding	NOVEL	None	8777	2058	685	72287186	72353475	-1	None	None
11	PDE2A	ENSG00000186642	ENST00000539367	nonsense_mediated_decay	KNOWN	None	8777	198	65	72287186	72353487	-1	None	None
11	PDE2A	ENSG00000186642	ENST00000544570	protein_coding	KNOWN	CCDS44670	8777	2805	934	72288198	72353504	-1	None	None
11	PDE2A	ENSG00000186642	ENST00000418754	protein_coding	NOVEL	None	8777	2481	826	72288255	72385452	-1	None	None
11	PDE2A	ENSG00000186642	ENST00000540345	protein_coding	PUTATIVE	CCDS53678	8777	2799	932	72288340	72380108	-1	None	None
11	PDE2A	ENSG00000186642	ENST00000536918	retained_intron	KNOWN	None	8777	None	None	72288589	72290549	-1	None	None
11	PDE2A	ENSG00000186642	ENST00000420501	protein_coding	PUTATIVE	None	8777	593	196	72289954	72293413	-1	None	None
11	PDE2A	ENSG00000186642	ENST00000544239	retained_intron	KNOWN	None	8777	None	None	72290005	72290940	-1	None	None
11	PDE2A	ENSG00000186642	ENST00000441209	protein_coding	PUTATIVE	None	8777	982	326	72290325	72295517	-1	None	None
11	PDE2A	ENSG00000186642	ENST00000542223	protein_coding	PUTATIVE	None	8777	534	177	72290593	72294607	-1	None	None
11	PDE2A	ENSG00000186642	ENST00000475807	protein_coding	PUTATIVE	None	8777	1009	335	72295595	72301463	-1	None	None
11	PDE2A	ENSG00000186642	ENST00000538299	protein_coding	PUTATIVE	None	8777	515	170	72296470	72301065	-1	None	None
11	PDE2A	ENSG00000186642	ENST00000536308	nonsense_mediated_decay	KNOWN	None	8777	321	106	72301243	72353455	-1	None	None
11	PDE2A	ENSG00000186642	ENST00000543750	nonsense_mediated_decay	KNOWN	None	8777	279	92	72301523	72353504	-1	None	None
11	PDE2A	ENSG00000186642	ENST00000543575	nonsense_mediated_decay	KNOWN	None	8777	198	65	72301551	72353466	-1	None	None
11	PDE2A	ENSG00000186642	ENST00000490749	retained_intron	KNOWN	None	8777	None	None	72301977	72307670	-1	None	None
11	PDE2A	ENSG00000186642	ENST00000541998	nonsense_mediated_decay	KNOWN	None	8777	198	65	72302222	72353470	-1	None	None
11	PDE2A	ENSG00000186642	ENST00000538749	protein_coding	PUTATIVE	None	8777	434	143	72302393	72354662	-1	None	None
11	PDE2A	ENSG00000186642	ENST00000537631	nonsense_mediated_decay	KNOWN	None	8777	226	74	72307668	72347174	-1	None	None
11	PDE2A	ENSG00000186642	ENST00000540380	processed_transcript	KNOWN	None	8777	None	None	72307673	72385635	-1	None	None
11	PDE2A	ENSG00000186642	ENST00000485058	processed_transcript	KNOWN	None	8777	None	None	72308554	72354175	-1	None	None
11	PDE2A	ENSG00000186642	ENST00000535701	nonsense_mediated_decay	KNOWN	None	8777	117	38	72308648	72385466	-1	None	None
11	PDE2A	ENSG00000186642	ENST00000542969	protein_coding	PUTATIVE	None	8777	260	85	72316182	72385477	-1	None	None
11	PDE2A	ENSG00000186642	ENST00000546038	nonsense_mediated_decay	KNOWN	None	8777	120	39	72342126	72385494	-1	None	None
11	PDE2A	ENSG00000186642	ENST00000536458	protein_coding	PUTATIVE	None	8777	278	91	72353298	72369165	-1	None	None
11	PDE2A	ENSG00000186642	ENST00000444035	protein_coding	KNOWN	CCDS53678	8777	2799	932	72287186	72379385	-1	None	None
15	SEMA7A	ENSG00000138623	ENST00000261918	protein_coding	KNOWN	CCDS10262	10741	2001	666	74701630	74726808	-1	SEMAL	H-Sema-L, CD108
15	SEMA7A	ENSG00000138623	ENST00000543145	protein_coding	KNOWN	CCDS53959	10741	1959	652	74702657	74726296	-1	SEMAL	H-Sema-L, CD108
15	SEMA7A	ENSG00000138623	ENST00000569617	retained_intron	KNOWN	None	10741	None	None	74703309	74703980	-1	SEMAL	H-Sema-L, CD108
15	SEMA7A	ENSG00000138623	ENST00000567345	protein_coding	KNOWN	None	10741	242	79	74708980	74726045	-1	SEMAL	H-Sema-L, CD108
15	SEMA7A	ENSG00000138623	ENST00000542748	protein_coding	KNOWN	CCDS53958	10741	1506	501	74701631	74726001	-1	SEMAL	H-Sema-L, CD108
2	None	ENSG00000270757	ENST00000604458	protein_coding	NOVEL	None	None	786	261	198365137	198415450	1	None	None
2	RAB11FIP5	ENSG00000135631	ENST00000486777	processed_transcript	PUTATIVE	None	24845	None	None	73300510	73307339	-1	None	GAF1, KIAA0857, RIP11, pp75
2	RAB11FIP5	ENSG00000135631	ENST00000258098	protein_coding	KNOWN	CCDS1923	24845	1962	653	73300510	73340146	-1	None	GAF1, KIAA0857, RIP11, pp75
2	RAB11FIP5	ENSG00000135631	ENST00000482554	processed_transcript	PUTATIVE	None	24845	None	None	73300512	73311524	-1	None	GAF1, KIAA0857, RIP11, pp75
2	RAB11FIP5	ENSG00000135631	ENST00000493523	processed_transcript	KNOWN	None	24845	None	None	73300512	73316783	-1	None	GAF1, KIAA0857, RIP11, pp75
2	RAB11FIP5	ENSG00000135631	ENST00000479196	processed_transcript	PUTATIVE	None	24845	None	None	73308332	73315456	-1	None	GAF1, KIAA0857, RIP11, pp75
2	RAB11FIP5	ENSG00000135631	ENST00000475951	processed_transcript	PUTATIVE	None	24845	None	None	73316070	73383849	-1	None	GAF1, KIAA0857, RIP11, pp75
1	EFNA1	ENSG00000169242	ENST00000368407	protein_coding	KNOWN	CCDS1091	3221	618	205	155099936	155107333	1	TNFAIP4, EPLG1	LERK1, ECKLG
1	EFNA1	ENSG00000169242	ENST00000368406	protein_coding	KNOWN	CCDS1092	3221	552	183	155100352	155107333	1	TNFAIP4, EPLG1	LERK1, ECKLG
1	EFNA1	ENSG00000169242	ENST00000469878	processed_transcript	KNOWN	None	3221	None	None	155100364	155106962	1	TNFAIP4, EPLG1	LERK1, ECKLG
1	EFNA1	ENSG00000169242	ENST00000474413	processed_transcript	KNOWN	None	3221	None	None	155102038	155106783	1	TNFAIP4, EPLG1	LERK1, ECKLG
1	EFNA1	ENSG00000169242	ENST00000497282	processed_transcript	KNOWN	None	3221	None	None	155103680	155106601	1	TNFAIP4, EPLG1	LERK1, ECKLG
12	CCDC65	ENSG00000139537	ENST00000266984	protein_coding	KNOWN	None	29937	1494	497	49297893	49325623	1	None	NYD-SP28, FLJ35732
12	CCDC65	ENSG00000139537	ENST00000552942	protein_coding	NOVEL	None	29937	1120	372	49297902	49315200	1	None	NYD-SP28, FLJ35732
12	CCDC65	ENSG00000139537	ENST00000547861	nonsense_mediated_decay	KNOWN	None	29937	129	42	49297916	49315353	1	None	NYD-SP28, FLJ35732
12	CCDC65	ENSG00000139537	ENST00000320516	protein_coding	KNOWN	CCDS8772	29937	1455	484	49297932	49315358	1	None	NYD-SP28, FLJ35732
12	CCDC65	ENSG00000139537	ENST00000552188	retained_intron	KNOWN	None	29937	None	None	49311927	49314746	1	None	NYD-SP28, FLJ35732
19	EVI5L	ENSG00000142459	ENST00000270530	protein_coding	KNOWN	CCDS12188	30464	2385	794	7895119	7929862	1	None	None
19	EVI5L	ENSG00000142459	ENST00000538904	protein_coding	KNOWN	CCDS54209	30464	2418	805	7911429	7928588	1	None	None
19	EVI5L	ENSG00000142459	ENST00000597440	retained_intron	KNOWN	None	30464	None	None	7913796	7917892	1	None	None
19	EVI5L	ENSG00000142459	ENST00000599036	protein_coding	PUTATIVE	None	30464	534	177	7914907	7918502	1	None	None
19	EVI5L	ENSG00000142459	ENST00000601984	retained_intron	KNOWN	None	30464	None	None	7916375	7924076	1	None	None
19	EVI5L	ENSG00000142459	ENST00000600802	processed_transcript	KNOWN	None	30464	None	None	7923079	7923392	1	None	None
19	EVI5L	ENSG00000142459	ENST00000601766	protein_coding	PUTATIVE	None	30464	417	138	7925471	7928453	1	None	None
2	NOTO	ENSG00000214513	ENST00000398468	protein_coding	KNOWN	CCDS46335	31839	756	251	73429386	73439641	1	None	None
3	UBA7	ENSG00000182179	ENST00000333486	protein_coding	KNOWN	CCDS2805	12471	3039	1012	49842640	49851379	-1	UBE1L	D8, UBE2, UBA1B
3	UBA7	ENSG00000182179	ENST00000497908	retained_intron	KNOWN	None	12471	None	None	49842657	49843723	-1	UBE1L	D8, UBE2, UBA1B
3	UBA7	ENSG00000182179	ENST00000488536	retained_intron	KNOWN	None	12471	None	None	49845475	49847138	-1	UBE1L	D8, UBE2, UBA1B
3	UBA7	ENSG00000182179	ENST00000483751	retained_intron	KNOWN	None	12471	None	None	49846441	49847480	-1	UBE1L	D8, UBE2, UBA1B
3	UBA7	ENSG00000182179	ENST00000478875	retained_intron	KNOWN	None	12471	None	None	49846617	49847320	-1	UBE1L	D8, UBE2, UBA1B
3	UBA7	ENSG00000182179	ENST00000473992	retained_intron	KNOWN	None	12471	None	None	49847008	49847783	-1	UBE1L	D8, UBE2, UBA1B
3	UBA7	ENSG00000182179	ENST00000489826	retained_intron	KNOWN	None	12471	None	None	49847412	49847997	-1	UBE1L	D8, UBE2, UBA1B
3	UBA7	ENSG00000182179	ENST00000460516	retained_intron	KNOWN	None	12471	None	None	49847893	49848888	-1	UBE1L	D8, UBE2, UBA1B
3	UBA7	ENSG00000182179	ENST00000460703	retained_intron	KNOWN	None	12471	None	None	49847959	49849225	-1	UBE1L	D8, UBE2, UBA1B
3	UBA7	ENSG00000182179	ENST00000478688	retained_intron	KNOWN	None	12471	None	None	49848803	49849904	-1	UBE1L	D8, UBE2, UBA1B
3	UBA7	ENSG00000182179	ENST00000494212	processed_transcript	KNOWN	None	12471	None	None	49849881	49851365	-1	UBE1L	D8, UBE2, UBA1B
7	None	ENSG00000230370	ENST00000439311	processed_pseudogene	KNOWN	None	None	None	None	11046026	11046503	-1	None	None
8	C8orf47	ENSG00000177459	ENST00000318528	protein_coding	KNOWN	CCDS34929	26823	1125	374	99076539	99105838	1	None	FLJ39553
8	C8orf47	ENSG00000177459	ENST00000545282	protein_coding	KNOWN	CCDS55266	26823	171	56	99076750	99105838	1	None	FLJ39553
1	TMEM59	ENSG00000116209	ENST00000371348	protein_coding	KNOWN	None	1239	579	192	54497347	54513686	-1	C1orf8	HSPC001
1	TMEM59	ENSG00000116209	ENST00000371344	protein_coding	KNOWN	None	1239	579	192	54497349	54510615	-1	C1orf8	HSPC001
1	TMEM59	ENSG00000116209	ENST00000234831	protein_coding	KNOWN	CCDS586	1239	972	323	54497349	54519111	-1	C1orf8	HSPC001
1	TMEM59	ENSG00000116209	ENST00000371341	protein_coding	KNOWN	None	1239	579	192	54497639	54519177	-1	C1orf8	HSPC001
1	TMEM59	ENSG00000116209	ENST00000470395	processed_transcript	KNOWN	None	1239	None	None	54497692	54502475	-1	C1orf8	HSPC001
1	TMEM59	ENSG00000116209	ENST00000420738	protein_coding	KNOWN	None	1239	434	143	54502272	54519085	-1	C1orf8	HSPC001
1	TMEM59	ENSG00000116209	ENST00000440019	protein_coding	KNOWN	None	1239	434	143	54502272	54519114	-1	C1orf8	HSPC001
1	TMEM59	ENSG00000116209	ENST00000452421	protein_coding	KNOWN	None	1239	857	284	54502275	54519078	-1	C1orf8	HSPC001
1	TMEM59	ENSG00000116209	ENST00000371337	protein_coding	KNOWN	None	1239	438	145	54511159	54518865	-1	C1orf8	HSPC001
16	GNG13	ENSG00000127588	ENST00000248150	protein_coding	KNOWN	CCDS10427	14131	204	67	848041	850733	-1	None	h2-35, G(gamma)13
5	CLK4	ENSG00000113240	ENST00000520878	retained_intron	KNOWN	None	13659	None	None	178029665	178054089	-1	None	None
5	CLK4	ENSG00000113240	ENST00000316308	protein_coding	KNOWN	CCDS4437	13659	1446	481	178029665	178054115	-1	None	None
5	CLK4	ENSG00000113240	ENST00000522136	nonsense_mediated_decay	KNOWN	None	13659	432	143	178030169	178054056	-1	None	None
5	CLK4	ENSG00000113240	ENST00000519132	retained_intron	KNOWN	None	13659	None	None	178030271	178044389	-1	None	None
5	CLK4	ENSG00000113240	ENST00000521621	nonsense_mediated_decay	KNOWN	None	13659	162	53	178030271	178054030	-1	None	None
5	CLK4	ENSG00000113240	ENST00000519583	retained_intron	KNOWN	None	13659	None	None	178030273	178054042	-1	None	None
5	CLK4	ENSG00000113240	ENST00000522749	processed_transcript	KNOWN	None	13659	None	None	178043883	178047120	-1	None	None
5	CLK4	ENSG00000113240	ENST00000520199	retained_intron	KNOWN	None	13659	None	None	178044072	178054055	-1	None	None
5	CLK4	ENSG00000113240	ENST00000520909	retained_intron	KNOWN	None	13659	None	None	178044698	178057616	-1	None	None
5	CLK4	ENSG00000113240	ENST00000520126	retained_intron	KNOWN	None	13659	None	None	178044732	178054053	-1	None	None
5	CLK4	ENSG00000113240	ENST00000522556	nonsense_mediated_decay	KNOWN	None	13659	270	89	178045695	178054113	-1	None	None
5	CLK4	ENSG00000113240	ENST00000523013	retained_intron	KNOWN	None	13659	None	None	178048810	178050340	-1	None	None
5	CLK4	ENSG00000113240	ENST00000520957	protein_coding	PUTATIVE	None	13659	165	54	178048813	178054031	-1	None	None
7	None	ENSG00000230333	ENST00000599917	antisense	KNOWN	None	None	None	None	11221359	11267282	1	None	None
7	None	ENSG00000230333	ENST00000443459	retained_intron	KNOWN	None	None	None	None	11232993	11267456	1	None	None
7	None	ENSG00000230333	ENST00000428967	antisense	KNOWN	None	None	None	None	11232993	11418993	1	None	None
7	None	ENSG00000230333	ENST00000441110	antisense	KNOWN	None	None	None	None	11236934	11361951	1	None	None
7	None	ENSG00000230333	ENST00000428533	antisense	KNOWN	None	None	None	None	11236934	11424045	1	None	None
7	None	ENSG00000230333	ENST00000599875	antisense	KNOWN	None	None	None	None	11266645	11417804	1	None	None
7	None	ENSG00000230333	ENST00000445839	antisense	KNOWN	None	None	None	None	11292607	11559802	1	None	None
7	None	ENSG00000230333	ENST00000421121	antisense	KNOWN	None	None	None	None	11292740	11425305	1	None	None
7	None	ENSG00000230333	ENST00000595972	antisense	KNOWN	None	None	None	None	11418324	11423496	1	None	None
9	FOXD4	ENSG00000170122	ENST00000382500	protein_coding	KNOWN	CCDS34975	3805	1320	439	116237	118417	-1	FKHL9	FREAC5, FOXD4a
2	SMYD5	ENSG00000135632	ENST00000413491	nonsense_mediated_decay	KNOWN	None	16258	246	81	73441350	73448341	1	RAI15	RRG1, NN8-4AG, ZMYND23
2	SMYD5	ENSG00000135632	ENST00000389501	protein_coding	KNOWN	CCDS33221	16258	1257	418	73441350	73454365	1	RAI15	RRG1, NN8-4AG, ZMYND23
2	SMYD5	ENSG00000135632	ENST00000258100	nonsense_mediated_decay	KNOWN	None	16258	213	70	73441366	73450234	1	RAI15	RRG1, NN8-4AG, ZMYND23
2	SMYD5	ENSG00000135632	ENST00000443900	protein_coding	PUTATIVE	None	16258	416	137	73441695	73448322	1	RAI15	RRG1, NN8-4AG, ZMYND23
2	SMYD5	ENSG00000135632	ENST00000474652	processed_transcript	KNOWN	None	16258	None	None	73441718	73449050	1	RAI15	RRG1, NN8-4AG, ZMYND23
2	SMYD5	ENSG00000135632	ENST00000491204	processed_transcript	KNOWN	None	16258	None	None	73447045	73447849	1	RAI15	RRG1, NN8-4AG, ZMYND23
2	SMYD5	ENSG00000135632	ENST00000477038	retained_intron	KNOWN	None	16258	None	None	73448304	73450295	1	RAI15	RRG1, NN8-4AG, ZMYND23
2	SMYD5	ENSG00000135632	ENST00000486518	processed_transcript	KNOWN	None	16258	None	None	73452350	73453009	1	RAI15	RRG1, NN8-4AG, ZMYND23
8	HRSP12	ENSG00000132541	ENST00000254878	protein_coding	KNOWN	CCDS6276	16897	414	137	99114572	99129469	-1	None	UK114, P14.5, PSP
8	HRSP12	ENSG00000132541	ENST00000522791	nonsense_mediated_decay	KNOWN	None	16897	129	42	99114625	99129387	-1	None	UK114, P14.5, PSP
8	HRSP12	ENSG00000132541	ENST00000520507	protein_coding	PUTATIVE	None	16897	445	147	99114667	99129338	-1	None	UK114, P14.5, PSP
8	HRSP12	ENSG00000132541	ENST00000521560	protein_coding	PUTATIVE	None	16897	383	126	99114692	99129399	-1	None	UK114, P14.5, PSP
8	HRSP12	ENSG00000132541	ENST00000519608	retained_intron	KNOWN	None	16897	None	None	99114847	99118859	-1	None	UK114, P14.5, PSP
8	HRSP12	ENSG00000132541	ENST00000519155	processed_transcript	KNOWN	None	16897	None	None	99125866	99129342	-1	None	UK114, P14.5, PSP
11	None	ENSG00000254979	ENST00000534081	retained_intron	KNOWN	None	None	None	None	57154838	57191532	-1	None	None
11	None	ENSG00000254979	ENST00000529411	protein_coding	NOVEL	None	None	681	226	57156483	57177586	-1	None	None
11	None	ENSG00000254979	ENST00000528835	nonsense_mediated_decay	KNOWN	None	None	88	28	57156628	57175352	-1	None	None
2	MOB4	ENSG00000115540	ENST00000233892	protein_coding	KNOWN	CCDS2322	17261	582	193	198380295	198418423	1	PREI3, MOBKL3	MOB3, DKFZP564M112, CGI-95, 2C4D, PHOCN
2	MOB4	ENSG00000115540	ENST00000409916	protein_coding	PUTATIVE	None	17261	381	126	198380305	198415540	1	PREI3, MOBKL3	MOB3, DKFZP564M112, CGI-95, 2C4D, PHOCN
2	MOB4	ENSG00000115540	ENST00000323303	protein_coding	KNOWN	CCDS2321	17261	678	225	198380556	198418423	1	PREI3, MOBKL3	MOB3, DKFZP564M112, CGI-95, 2C4D, PHOCN
2	MOB4	ENSG00000115540	ENST00000448447	protein_coding	KNOWN	CCDS46480	17261	615	204	198380771	198415736	1	PREI3, MOBKL3	MOB3, DKFZP564M112, CGI-95, 2C4D, PHOCN
2	MOB4	ENSG00000115540	ENST00000497443	processed_transcript	KNOWN	None	17261	None	None	198380798	198415488	1	PREI3, MOBKL3	MOB3, DKFZP564M112, CGI-95, 2C4D, PHOCN
2	MOB4	ENSG00000115540	ENST00000417097	nonsense_mediated_decay	KNOWN	None	17261	138	45	198380798	198415978	1	PREI3, MOBKL3	MOB3, DKFZP564M112, CGI-95, 2C4D, PHOCN
2	MOB4	ENSG00000115540	ENST00000409355	nonsense_mediated_decay	KNOWN	None	17261	156	51	198380808	198415907	1	PREI3, MOBKL3	MOB3, DKFZP564M112, CGI-95, 2C4D, PHOCN
2	MOB4	ENSG00000115540	ENST00000409360	protein_coding	KNOWN	CCDS2322	17261	582	193	198380884	198416003	1	PREI3, MOBKL3	MOB3, DKFZP564M112, CGI-95, 2C4D, PHOCN
1	SLC50A1	ENSG00000169241	ENST00000484157	protein_coding	KNOWN	None	30657	471	156	155107820	155110844	1	RAG1AP1	SCP, RP11-540D14.5, slv, RZPDo834D038D, HsSWEET1, SWEET1
1	SLC50A1	ENSG00000169241	ENST00000490770	processed_transcript	KNOWN	None	30657	None	None	155107833	155110938	1	RAG1AP1	SCP, RP11-540D14.5, slv, RZPDo834D038D, HsSWEET1, SWEET1
1	SLC50A1	ENSG00000169241	ENST00000475824	processed_transcript	KNOWN	None	30657	None	None	155107867	155110570	1	RAG1AP1	SCP, RP11-540D14.5, slv, RZPDo834D038D, HsSWEET1, SWEET1
1	SLC50A1	ENSG00000169241	ENST00000465546	processed_transcript	KNOWN	None	30657	None	None	155107869	155110072	1	RAG1AP1	SCP, RP11-540D14.5, slv, RZPDo834D038D, HsSWEET1, SWEET1
1	SLC50A1	ENSG00000169241	ENST00000490276	processed_transcript	KNOWN	None	30657	None	None	155108304	155110891	1	RAG1AP1	SCP, RP11-540D14.5, slv, RZPDo834D038D, HsSWEET1, SWEET1
1	SLC50A1	ENSG00000169241	ENST00000303343	protein_coding	KNOWN	CCDS44238	30657	504	167	155108326	155111328	1	RAG1AP1	SCP, RP11-540D14.5, slv, RZPDo834D038D, HsSWEET1, SWEET1
1	SLC50A1	ENSG00000169241	ENST00000368404	protein_coding	KNOWN	CCDS1093	30657	666	221	155108326	155111329	1	RAG1AP1	SCP, RP11-540D14.5, slv, RZPDo834D038D, HsSWEET1, SWEET1
1	SLC50A1	ENSG00000169241	ENST00000368401	protein_coding	KNOWN	CCDS44239	30657	501	166	155108334	155111327	1	RAG1AP1	SCP, RP11-540D14.5, slv, RZPDo834D038D, HsSWEET1, SWEET1
1	SLC50A1	ENSG00000169241	ENST00000368405	processed_transcript	KNOWN	None	30657	None	None	155108335	155111327	1	RAG1AP1	SCP, RP11-540D14.5, slv, RZPDo834D038D, HsSWEET1, SWEET1
1	SLC50A1	ENSG00000169241	ENST00000488609	processed_transcript	KNOWN	None	30657	None	None	155108343	155110916	1	RAG1AP1	SCP, RP11-540D14.5, slv, RZPDo834D038D, HsSWEET1, SWEET1
1	SLC50A1	ENSG00000169241	ENST00000506037	retained_intron	KNOWN	None	30657	None	None	155108373	155109607	1	RAG1AP1	SCP, RP11-540D14.5, slv, RZPDo834D038D, HsSWEET1, SWEET1
1	SLC50A1	ENSG00000169241	ENST00000484027	processed_transcript	KNOWN	None	30657	None	None	155108792	155111050	1	RAG1AP1	SCP, RP11-540D14.5, slv, RZPDo834D038D, HsSWEET1, SWEET1
1	SLC50A1	ENSG00000169241	ENST00000479579	processed_transcript	KNOWN	None	30657	None	None	155110524	155111329	1	RAG1AP1	SCP, RP11-540D14.5, slv, RZPDo834D038D, HsSWEET1, SWEET1
14	NGDN	ENSG00000129460	ENST00000408901	protein_coding	KNOWN	CCDS41926	20271	948	315	23938897	23947402	1	C14orf120	DKFZP564O092, LCP5, lpd-2, NGD
14	NGDN	ENSG00000129460	ENST00000556378	retained_intron	KNOWN	None	20271	None	None	23938898	23940818	1	C14orf120	DKFZP564O092, LCP5, lpd-2, NGD
14	NGDN	ENSG00000129460	ENST00000557097	retained_intron	KNOWN	None	20271	None	None	23938908	23939491	1	C14orf120	DKFZP564O092, LCP5, lpd-2, NGD
14	NGDN	ENSG00000129460	ENST00000553336	retained_intron	KNOWN	None	20271	None	None	23938908	23945263	1	C14orf120	DKFZP564O092, LCP5, lpd-2, NGD
14	NGDN	ENSG00000129460	ENST00000397154	protein_coding	KNOWN	CCDS32051	20271	936	311	23938912	23948032	1	C14orf120	DKFZP564O092, LCP5, lpd-2, NGD
14	NGDN	ENSG00000129460	ENST00000553439	retained_intron	KNOWN	None	20271	None	None	23938916	23948013	1	C14orf120	DKFZP564O092, LCP5, lpd-2, NGD
14	NGDN	ENSG00000129460	ENST00000555128	protein_coding	PUTATIVE	None	20271	425	140	23938953	23945317	1	C14orf120	DKFZP564O092, LCP5, lpd-2, NGD
14	NGDN	ENSG00000129460	ENST00000556953	retained_intron	KNOWN	None	20271	None	None	23938972	23940389	1	C14orf120	DKFZP564O092, LCP5, lpd-2, NGD
14	NGDN	ENSG00000129460	ENST00000556483	protein_coding	NOVEL	None	20271	790	262	23939259	23947283	1	C14orf120	DKFZP564O092, LCP5, lpd-2, NGD
14	NGDN	ENSG00000129460	ENST00000556022	retained_intron	KNOWN	None	20271	None	None	23944392	23946747	1	C14orf120	DKFZP564O092, LCP5, lpd-2, NGD
14	NGDN	ENSG00000129460	ENST00000556580	protein_coding	PUTATIVE	None	20271	216	71	23945375	23947387	1	C14orf120	DKFZP564O092, LCP5, lpd-2, NGD
14	NGDN	ENSG00000129460	ENST00000556103	retained_intron	KNOWN	None	20271	None	None	23945554	23947245	1	C14orf120	DKFZP564O092, LCP5, lpd-2, NGD
14	NGDN	ENSG00000129460	ENST00000556699	protein_coding	PUTATIVE	None	20271	225	74	23946422	23979071	1	C14orf120	DKFZP564O092, LCP5, lpd-2, NGD
19	ZFP14	ENSG00000142065	ENST00000270001	protein_coding	KNOWN	CCDS33002	29312	1602	533	36827162	36870101	-1	None	KIAA1559, ZNF531
19	ZFP14	ENSG00000142065	ENST00000589280	protein_coding	PUTATIVE	None	29312	246	81	36851014	36858875	-1	None	KIAA1559, ZNF531
9	ARID3C	ENSG00000205143	ENST00000378909	protein_coding	KNOWN	CCDS35006	21209	1239	412	34621376	34628104	-1	None	None
4	IRF2	ENSG00000168310	ENST00000393593	protein_coding	KNOWN	CCDS3835	6117	1050	349	185308867	185395734	-1	None	None
4	IRF2	ENSG00000168310	ENST00000505067	protein_coding	PUTATIVE	None	6117	586	194	185310176	185339744	-1	None	None
4	IRF2	ENSG00000168310	ENST00000502750	protein_coding	PUTATIVE	None	6117	339	112	185310194	185339785	-1	None	None
4	IRF2	ENSG00000168310	ENST00000507523	protein_coding	KNOWN	None	6117	529	175	185329312	185395203	-1	None	None
4	IRF2	ENSG00000168310	ENST00000512020	processed_transcript	KNOWN	None	6117	None	None	185329313	185395702	-1	None	None
4	IRF2	ENSG00000168310	ENST00000510814	protein_coding	KNOWN	None	6117	482	159	185329359	185395202	-1	None	None
4	IRF2	ENSG00000168310	ENST00000506230	protein_coding	KNOWN	None	6117	411	136	185339321	185395340	-1	None	None
4	IRF2	ENSG00000168310	ENST00000509274	nonsense_mediated_decay	KNOWN	None	6117	252	83	185339329	185395201	-1	None	None
4	IRF2	ENSG00000168310	ENST00000504340	processed_transcript	PUTATIVE	None	6117	None	None	185369810	185395702	-1	None	None
2	MBOAT2	ENSG00000143797	ENST00000305997	protein_coding	KNOWN	CCDS1660	25193	1563	520	8992820	9143942	-1	OACT2	FLJ14415, FLJ90298
2	MBOAT2	ENSG00000143797	ENST00000471753	nonsense_mediated_decay	KNOWN	None	25193	477	158	8998479	9017264	-1	OACT2	FLJ14415, FLJ90298
2	MBOAT2	ENSG00000143797	ENST00000486315	retained_intron	KNOWN	None	25193	None	None	8998977	9002606	-1	OACT2	FLJ14415, FLJ90298
2	MBOAT2	ENSG00000143797	ENST00000473432	retained_intron	KNOWN	None	25193	None	None	8998989	9001272	-1	OACT2	FLJ14415, FLJ90298
2	MBOAT2	ENSG00000143797	ENST00000486484	processed_transcript	KNOWN	None	25193	None	None	9000825	9143787	-1	OACT2	FLJ14415, FLJ90298
2	MBOAT2	ENSG00000143797	ENST00000494760	retained_intron	KNOWN	None	25193	None	None	9002456	9008638	-1	OACT2	FLJ14415, FLJ90298
2	MBOAT2	ENSG00000143797	ENST00000477073	nonsense_mediated_decay	KNOWN	None	25193	141	46	9013238	9143838	-1	OACT2	FLJ14415, FLJ90298
2	MBOAT2	ENSG00000143797	ENST00000474341	processed_transcript	KNOWN	None	25193	None	None	9013324	9098719	-1	OACT2	FLJ14415, FLJ90298
2	MBOAT2	ENSG00000143797	ENST00000462696	protein_coding	NOVEL	None	25193	529	175	9017252	9143794	-1	OACT2	FLJ14415, FLJ90298
2	MBOAT2	ENSG00000143797	ENST00000460786	processed_transcript	KNOWN	None	25193	None	None	9048284	9098771	-1	OACT2	FLJ14415, FLJ90298
2	PRADC1	ENSG00000135617	ENST00000258083	protein_coding	KNOWN	CCDS1924	16047	567	188	73455134	73460356	-1	C2orf7	MGC13004, PAP21, hPAP21
2	PRADC1	ENSG00000135617	ENST00000480093	processed_transcript	KNOWN	None	16047	None	None	73455459	73460366	-1	C2orf7	MGC13004, PAP21, hPAP21
2	PRADC1	ENSG00000135617	ENST00000470391	retained_intron	KNOWN	None	16047	None	None	73456927	73460357	-1	C2orf7	MGC13004, PAP21, hPAP21
4	SPINK2	ENSG00000128040	ENST00000509707	retained_intron	KNOWN	None	11245	None	None	57676026	57677962	-1	None	HUSI-II
4	SPINK2	ENSG00000128040	ENST00000248701	protein_coding	KNOWN	CCDS3508	11245	255	84	57676027	57687908	-1	None	HUSI-II
4	SPINK2	ENSG00000128040	ENST00000506738	protein_coding	PUTATIVE	None	11245	405	134	57676027	57687908	-1	None	HUSI-II
4	SPINK2	ENSG00000128040	ENST00000504762	protein_coding	PUTATIVE	None	11245	360	119	57676038	57687860	-1	None	HUSI-II
1	DPM3	ENSG00000179085	ENST00000368399	protein_coding	NOVEL	CCDS1094	3007	369	122	155112367	155112883	-1	None	MGC34275, MGC125904, MGC125905
1	DPM3	ENSG00000179085	ENST00000368400	protein_coding	KNOWN	CCDS1095	3007	279	92	155112367	155113020	-1	None	MGC34275, MGC125904, MGC125905
1	DPM3	ENSG00000179085	ENST00000341298	protein_coding	KNOWN	CCDS1095	3007	279	92	155112367	155113071	-1	None	MGC34275, MGC125904, MGC125905
1	TCEANC2	ENSG00000116205	ENST00000498272	processed_transcript	KNOWN	None	26494	None	None	54519260	54578192	1	C1orf83	FLJ32112
1	TCEANC2	ENSG00000116205	ENST00000234827	protein_coding	KNOWN	CCDS587	26494	627	208	54519274	54565416	1	C1orf83	FLJ32112
1	TCEANC2	ENSG00000116205	ENST00000371331	protein_coding	KNOWN	None	26494	717	238	54519807	54562166	1	C1orf83	FLJ32112
5	LHFPL2	ENSG00000145685	ENST00000515007	protein_coding	KNOWN	CCDS4042	6588	687	228	77781038	77844974	-1	None	KIAA0206
5	LHFPL2	ENSG00000145685	ENST00000502722	processed_transcript	PUTATIVE	None	6588	None	None	77784635	77787129	-1	None	KIAA0206
5	LHFPL2	ENSG00000145685	ENST00000503686	processed_transcript	KNOWN	None	6588	None	None	77805823	77944440	-1	None	KIAA0206
5	LHFPL2	ENSG00000145685	ENST00000512759	processed_transcript	KNOWN	None	6588	None	None	77805850	77944718	-1	None	KIAA0206
5	LHFPL2	ENSG00000145685	ENST00000510949	processed_transcript	KNOWN	None	6588	None	None	77805862	77886015	-1	None	KIAA0206
5	LHFPL2	ENSG00000145685	ENST00000515349	processed_transcript	KNOWN	None	6588	None	None	77920640	77937985	-1	None	KIAA0206
5	LHFPL2	ENSG00000145685	ENST00000514587	processed_transcript	KNOWN	None	6588	None	None	77928083	78065844	-1	None	KIAA0206
5	LHFPL2	ENSG00000145685	ENST00000380345	protein_coding	KNOWN	CCDS4042	6588	687	228	77781040	77944648	-1	None	KIAA0206
11	TUT1	ENSG00000149016	ENST00000476907	protein_coding	KNOWN	None	26184	2625	874	62342520	62359649	-1	RBM21	FLJ22347, FLJ22267, FLJ21850, PAPD2, TUTase
11	TUT1	ENSG00000149016	ENST00000469480	retained_intron	KNOWN	None	26184	None	None	62342530	62344729	-1	RBM21	FLJ22347, FLJ22267, FLJ21850, PAPD2, TUTase
11	TUT1	ENSG00000149016	ENST00000463241	retained_intron	KNOWN	None	26184	None	None	62343716	62344788	-1	RBM21	FLJ22347, FLJ22267, FLJ21850, PAPD2, TUTase
11	TUT1	ENSG00000149016	ENST00000278279	protein_coding	NOVEL	None	26184	495	164	62346281	62358995	-1	RBM21	FLJ22347, FLJ22267, FLJ21850, PAPD2, TUTase
11	TUT1	ENSG00000149016	ENST00000494385	protein_coding	PUTATIVE	None	26184	430	142	62348580	62359084	-1	RBM21	FLJ22347, FLJ22267, FLJ21850, PAPD2, TUTase
11	TUT1	ENSG00000149016	ENST00000478537	nonsense_mediated_decay	KNOWN	None	26184	303	100	62348964	62358995	-1	RBM21	FLJ22347, FLJ22267, FLJ21850, PAPD2, TUTase
11	TUT1	ENSG00000149016	ENST00000308436	protein_coding	KNOWN	CCDS8021	26184	2739	912	62342517	62359109	-1	RBM21	FLJ22347, FLJ22267, FLJ21850, PAPD2, TUTase
1	None	ENSG00000212670	ENST00000391366	protein_coding	NOVEL	None	None	393	130	54569968	54571750	1	None	None
14	ACYP1	ENSG00000119640	ENST00000238618	protein_coding	KNOWN	CCDS9838	179	300	99	75519924	75530752	-1	None	None
14	ACYP1	ENSG00000119640	ENST00000555463	protein_coding	PUTATIVE	None	179	390	129	75519940	75536186	-1	None	None
14	ACYP1	ENSG00000119640	ENST00000357971	protein_coding	KNOWN	CCDS45137	179	168	55	75519946	75530718	-1	None	None
14	ACYP1	ENSG00000119640	ENST00000555694	protein_coding	KNOWN	CCDS9838	179	300	99	75519946	75530730	-1	None	None
14	ACYP1	ENSG00000119640	ENST00000555135	protein_coding	PUTATIVE	None	179	189	62	75526551	75530710	-1	None	None
14	ACYP1	ENSG00000119640	ENST00000553302	protein_coding	PUTATIVE	None	179	114	37	75529726	75530723	-1	None	None
1	KRTCAP2	ENSG00000163463	ENST00000463527	processed_transcript	KNOWN	None	28942	None	None	155141884	155145253	-1	None	KCP2
1	KRTCAP2	ENSG00000163463	ENST00000487350	processed_transcript	KNOWN	None	28942	None	None	155141884	155145714	-1	None	KCP2
1	KRTCAP2	ENSG00000163463	ENST00000497317	processed_transcript	KNOWN	None	28942	None	None	155141884	155145730	-1	None	KCP2
1	KRTCAP2	ENSG00000163463	ENST00000480091	processed_transcript	KNOWN	None	28942	None	None	155141884	155145733	-1	None	KCP2
1	KRTCAP2	ENSG00000163463	ENST00000295682	protein_coding	KNOWN	CCDS1096	28942	489	162	155141884	155145809	-1	None	KCP2
1	KRTCAP2	ENSG00000163463	ENST00000491084	processed_transcript	KNOWN	None	28942	None	None	155141884	155145951	-1	None	KCP2
1	KRTCAP2	ENSG00000163463	ENST00000471891	processed_transcript	KNOWN	None	28942	None	None	155141885	155145727	-1	None	KCP2
1	KRTCAP2	ENSG00000163463	ENST00000482246	processed_transcript	KNOWN	None	28942	None	None	155141885	155145744	-1	None	KCP2
1	KRTCAP2	ENSG00000163463	ENST00000490672	processed_transcript	KNOWN	None	28942	None	None	155141885	155145781	-1	None	KCP2
1	KRTCAP2	ENSG00000163463	ENST00000473363	processed_transcript	KNOWN	None	28942	None	None	155141885	155159747	-1	None	KCP2
1	KRTCAP2	ENSG00000163463	ENST00000461136	processed_transcript	KNOWN	None	28942	None	None	155141946	155145733	-1	None	KCP2
1	KRTCAP2	ENSG00000163463	ENST00000492892	processed_transcript	KNOWN	None	28942	None	None	155141946	155145737	-1	None	KCP2
1	CDCP2	ENSG00000157211	ENST00000530059	processed_transcript	PUTATIVE	None	27297	None	None	54598747	54605522	-1	None	None
1	CDCP2	ENSG00000157211	ENST00000371330	protein_coding	NOVEL	CCDS588	27297	1350	449	54604668	54619443	-1	None	None
7	NPM1P11	ENSG00000226827	ENST00000417106	processed_pseudogene	KNOWN	None	7913	None	None	11297308	11298162	-1	None	None
2	RFTN2	ENSG00000162944	ENST00000295049	protein_coding	KNOWN	CCDS2323	26402	1506	501	198435524	198540719	-1	C2orf11	FLJ30574, Raftlin-2
2	RFTN2	ENSG00000162944	ENST00000494346	retained_intron	KNOWN	None	26402	None	None	198436459	198482745	-1	C2orf11	FLJ30574, Raftlin-2
2	RFTN2	ENSG00000162944	ENST00000454447	protein_coding	PUTATIVE	None	26402	582	193	198436730	198482619	-1	C2orf11	FLJ30574, Raftlin-2
2	RFTN2	ENSG00000162944	ENST00000429081	protein_coding	PUTATIVE	None	26402	349	115	198508971	198540769	-1	C2orf11	FLJ30574, Raftlin-2
7	None	ENSG00000230435	ENST00000425837	antisense	KNOWN	None	None	None	None	11446582	11453705	1	None	None
1	None	ENSG00000256407	ENST00000525949	processed_transcript	KNOWN	None	None	None	None	54606897	54638367	-1	None	None
1	None	ENSG00000256407	ENST00000311841	nonsense_mediated_decay	KNOWN	None	None	213	70	54609065	54665746	-1	None	None
7	None	ENSG00000235920	ENST00000445066	processed_pseudogene	KNOWN	None	None	None	None	11859943	11860920	-1	None	None
7	None	ENSG00000236048	ENST00000420252	processed_pseudogene	KNOWN	None	None	None	None	12510978	12512171	1	None	None
1	None	ENSG00000248835	ENST00000536061	protein_coding	KNOWN	None	None	381	126	54635333	54637997	-1	None	None
7	AEBP1	ENSG00000106624	ENST00000223357	protein_coding	KNOWN	CCDS5476	303	3477	1158	44143960	44154159	1	None	ACLP
7	AEBP1	ENSG00000106624	ENST00000455443	protein_coding	NOVEL	None	303	751	249	44144393	44148761	1	None	ACLP
7	AEBP1	ENSG00000106624	ENST00000449162	protein_coding	PUTATIVE	None	303	487	161	44145760	44147299	1	None	ACLP
7	AEBP1	ENSG00000106624	ENST00000453052	nonsense_mediated_decay	KNOWN	None	303	210	69	44148530	44149824	1	None	ACLP
7	AEBP1	ENSG00000106624	ENST00000454218	processed_transcript	KNOWN	None	303	None	None	44148706	44149664	1	None	ACLP
7	AEBP1	ENSG00000106624	ENST00000434445	nonsense_mediated_decay	KNOWN	None	303	315	104	44149863	44151221	1	None	ACLP
7	AEBP1	ENSG00000106624	ENST00000450684	protein_coding	PUTATIVE	None	303	2202	733	44150330	44154161	1	None	ACLP
7	AEBP1	ENSG00000106624	ENST00000413907	nonsense_mediated_decay	KNOWN	None	303	200	65	44150804	44154158	1	None	ACLP
7	AEBP1	ENSG00000106624	ENST00000431035	nonsense_mediated_decay	KNOWN	None	303	165	54	44151106	44152215	1	None	ACLP
9	SIGMAR1	ENSG00000147955	ENST00000378892	protein_coding	KNOWN	None	8157	405	134	34634719	34637729	-1	OPRS1	SR-BP1
9	SIGMAR1	ENSG00000147955	ENST00000353468	nonsense_mediated_decay	KNOWN	None	8157	321	106	34634719	34637741	-1	OPRS1	SR-BP1
9	SIGMAR1	ENSG00000147955	ENST00000277010	protein_coding	KNOWN	CCDS6562	8157	672	223	34634719	34637768	-1	OPRS1	SR-BP1
9	SIGMAR1	ENSG00000147955	ENST00000477726	protein_coding	KNOWN	CCDS6563	8157	579	192	34635480	34637806	-1	OPRS1	SR-BP1
9	SIGMAR1	ENSG00000147955	ENST00000461426	processed_transcript	KNOWN	None	8157	None	None	34635494	34637793	-1	OPRS1	SR-BP1
9	SIGMAR1	ENSG00000147955	ENST00000497006	processed_transcript	KNOWN	None	8157	None	None	34635807	34637680	-1	OPRS1	SR-BP1
9	SIGMAR1	ENSG00000147955	ENST00000478146	processed_transcript	KNOWN	None	8157	None	None	34636748	34637409	-1	OPRS1	SR-BP1
2	None	ENSG00000222017	ENST00000409845	protein_coding	PUTATIVE	None	None	261	86	198557830	198639547	1	None	None
2	MARS2	ENSG00000247626	ENST00000282276	protein_coding	KNOWN	CCDS33358	25133	1782	593	198570087	198573113	1	None	mtMetRS
1	TRIM11	ENSG00000154370	ENST00000493030	protein_coding	PUTATIVE	None	16281	1032	343	228581374	228593605	-1	None	RNF92, BIA1
1	TRIM11	ENSG00000154370	ENST00000284551	protein_coding	KNOWN	CCDS31048	16281	1407	468	228581377	228594541	-1	None	RNF92, BIA1
1	TRIM11	ENSG00000154370	ENST00000460651	processed_transcript	KNOWN	None	16281	None	None	228582157	228589799	-1	None	RNF92, BIA1
1	TRIM11	ENSG00000154370	ENST00000602582	protein_coding	PUTATIVE	None	16281	682	226	228582526	228593888	-1	None	RNF92, BIA1
1	TRIM11	ENSG00000154370	ENST00000475775	processed_transcript	KNOWN	None	16281	None	None	228582909	228585390	-1	None	RNF92, BIA1
1	TRIM11	ENSG00000154370	ENST00000366699	protein_coding	KNOWN	None	16281	1158	385	228583235	228594501	-1	None	RNF92, BIA1
1	TRIM11	ENSG00000154370	ENST00000602308	protein_coding	PUTATIVE	None	16281	165	54	228584314	228593887	-1	None	RNF92, BIA1
14	NEMF	ENSG00000165525	ENST00000298310	protein_coding	KNOWN	CCDS9694	10663	3231	1076	50249997	50319921	-1	SDCCAG1	NY-CO-1, FLJ10051
14	NEMF	ENSG00000165525	ENST00000556691	processed_transcript	KNOWN	None	10663	None	None	50250532	50267518	-1	SDCCAG1	NY-CO-1, FLJ10051
14	NEMF	ENSG00000165525	ENST00000556074	retained_intron	KNOWN	None	10663	None	None	50250533	50268237	-1	SDCCAG1	NY-CO-1, FLJ10051
14	NEMF	ENSG00000165525	ENST00000556925	processed_transcript	KNOWN	None	10663	None	None	50250546	50298971	-1	SDCCAG1	NY-CO-1, FLJ10051
14	NEMF	ENSG00000165525	ENST00000557193	retained_intron	KNOWN	None	10663	None	None	50251374	50252492	-1	SDCCAG1	NY-CO-1, FLJ10051
14	NEMF	ENSG00000165525	ENST00000554275	processed_transcript	PUTATIVE	None	10663	None	None	50251623	50253892	-1	SDCCAG1	NY-CO-1, FLJ10051
14	NEMF	ENSG00000165525	ENST00000555970	protein_coding	NOVEL	None	10663	2996	997	50251674	50319504	-1	SDCCAG1	NY-CO-1, FLJ10051
14	NEMF	ENSG00000165525	ENST00000555863	processed_transcript	PUTATIVE	None	10663	None	None	50256214	50263032	-1	SDCCAG1	NY-CO-1, FLJ10051
14	NEMF	ENSG00000165525	ENST00000555411	processed_transcript	KNOWN	None	10663	None	None	50267369	50292656	-1	SDCCAG1	NY-CO-1, FLJ10051
14	NEMF	ENSG00000165525	ENST00000557380	processed_transcript	KNOWN	None	10663	None	None	50286814	50319498	-1	SDCCAG1	NY-CO-1, FLJ10051
14	NEMF	ENSG00000165525	ENST00000553696	retained_intron	KNOWN	None	10663	None	None	50295010	50296068	-1	SDCCAG1	NY-CO-1, FLJ10051
14	NEMF	ENSG00000165525	ENST00000556882	retained_intron	KNOWN	None	10663	None	None	50295331	50295982	-1	SDCCAG1	NY-CO-1, FLJ10051
14	NEMF	ENSG00000165525	ENST00000554626	protein_coding	PUTATIVE	None	10663	535	177	50301081	50319506	-1	SDCCAG1	NY-CO-1, FLJ10051
14	NEMF	ENSG00000165525	ENST00000556672	protein_coding	PUTATIVE	None	10663	366	121	50312693	50319539	-1	SDCCAG1	NY-CO-1, FLJ10051
14	NEMF	ENSG00000165525	ENST00000554162	processed_transcript	KNOWN	None	10663	None	None	50312857	50319526	-1	SDCCAG1	NY-CO-1, FLJ10051
14	NEMF	ENSG00000165525	ENST00000545773	protein_coding	KNOWN	None	10663	3105	1034	50250532	50319539	-1	SDCCAG1	NY-CO-1, FLJ10051
14	NEMF	ENSG00000165525	ENST00000546046	protein_coding	KNOWN	None	10663	3168	1055	50250820	50319498	-1	SDCCAG1	NY-CO-1, FLJ10051
14	NEMF	ENSG00000165525	ENST00000382135	protein_coding	KNOWN	None	10663	831	276	50250532	50263015	-1	SDCCAG1	NY-CO-1, FLJ10051
7	TMEM248	ENSG00000106609	ENST00000341567	protein_coding	KNOWN	CCDS5536	25476	945	314	66386212	66423538	1	C7orf42	FLJ10099, FLJ13090
7	TMEM248	ENSG00000106609	ENST00000607045	protein_coding	KNOWN	None	25476	344	113	66386219	66410147	1	C7orf42	FLJ10099, FLJ13090
7	TMEM248	ENSG00000106609	ENST00000433271	nonsense_mediated_decay	KNOWN	None	25476	612	203	66386249	66421140	1	C7orf42	FLJ10099, FLJ13090
7	TMEM248	ENSG00000106609	ENST00000413593	protein_coding	KNOWN	None	25476	216	71	66386831	66410019	1	C7orf42	FLJ10099, FLJ13090
7	TMEM248	ENSG00000106609	ENST00000424964	protein_coding	KNOWN	None	25476	418	138	66395602	66410221	1	C7orf42	FLJ10099, FLJ13090
7	TMEM248	ENSG00000106609	ENST00000418375	protein_coding	KNOWN	None	25476	282	93	66395611	66410085	1	C7orf42	FLJ10099, FLJ13090
7	TMEM248	ENSG00000106609	ENST00000484751	retained_intron	KNOWN	None	25476	None	None	66410045	66416322	1	C7orf42	FLJ10099, FLJ13090
HSCHR6_MHC_COX	SKIV2L	ENSG00000225737	ENST00000448219	protein_coding	KNOWN	None	10898	3741	1246	31914409	31925080	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_COX	SKIV2L	ENSG00000225737	ENST00000490619	processed_transcript	KNOWN	None	10898	None	None	31914446	31916715	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_COX	SKIV2L	ENSG00000225737	ENST00000477512	processed_transcript	KNOWN	None	10898	None	None	31914468	31917912	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_COX	SKIV2L	ENSG00000225737	ENST00000491926	retained_intron	KNOWN	None	10898	None	None	31914477	31925080	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_COX	SKIV2L	ENSG00000225737	ENST00000488599	retained_intron	KNOWN	None	10898	None	None	31914520	31915287	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_COX	SKIV2L	ENSG00000225737	ENST00000487095	processed_transcript	KNOWN	None	10898	None	None	31916826	31918339	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_COX	SKIV2L	ENSG00000225737	ENST00000473290	processed_transcript	PUTATIVE	None	10898	None	None	31922157	31923773	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_COX	SKIV2L	ENSG00000225737	ENST00000479354	retained_intron	KNOWN	None	10898	None	None	31922350	31923777	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_COX	SKIV2L	ENSG00000225737	ENST00000466355	retained_intron	KNOWN	None	10898	None	None	31922432	31924315	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_COX	SKIV2L	ENSG00000225737	ENST00000487359	processed_transcript	PUTATIVE	None	10898	None	None	31923652	31925080	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_COX	SKIV2L	ENSG00000225737	ENST00000462557	retained_intron	KNOWN	None	10898	None	None	31923783	31924737	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_COX	SKIV2L	ENSG00000225737	ENST00000483978	retained_intron	KNOWN	None	10898	None	None	31923804	31925080	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_COX	SKIV2L	ENSG00000225737	ENST00000471547	processed_transcript	KNOWN	None	10898	None	None	31923809	31925080	1	SKIV2	HLP, DDX13, SKI2W, 170A
HSCHR6_MHC_COX	SKIV2L	ENSG00000225737	ENST00000467965	processed_transcript	KNOWN	None	10898	None	None	31924015	31925080	1	SKIV2	HLP, DDX13, SKI2W, 170A
14	MOK	ENSG00000080823	ENST00000559512	processed_transcript	KNOWN	None	9833	None	None	102690837	102692009	-1	RAGE	RAGE1
14	MOK	ENSG00000080823	ENST00000559138	nonsense_mediated_decay	KNOWN	None	9833	144	47	102690837	102706944	-1	RAGE	RAGE1
14	MOK	ENSG00000080823	ENST00000559838	protein_coding	PUTATIVE	None	9833	520	172	102690993	102718141	-1	RAGE	RAGE1
14	MOK	ENSG00000080823	ENST00000557823	processed_transcript	KNOWN	None	9833	None	None	102692283	102713801	-1	RAGE	RAGE1
14	MOK	ENSG00000080823	ENST00000561150	protein_coding	PUTATIVE	None	9833	144	47	102692477	102701761	-1	RAGE	RAGE1
14	MOK	ENSG00000080823	ENST00000521249	retained_intron	KNOWN	None	9833	None	None	102695164	102699062	-1	RAGE	RAGE1
14	MOK	ENSG00000080823	ENST00000521766	nonsense_mediated_decay	KNOWN	None	9833	180	59	102695164	102771505	-1	RAGE	RAGE1
14	MOK	ENSG00000080823	ENST00000517966	protein_coding	PUTATIVE	None	9833	288	95	102695168	102706958	-1	RAGE	RAGE1
14	MOK	ENSG00000080823	ENST00000523485	retained_intron	KNOWN	None	9833	None	None	102695168	102730988	-1	RAGE	RAGE1
14	MOK	ENSG00000080823	ENST00000519569	retained_intron	KNOWN	None	9833	None	None	102695173	102771526	-1	RAGE	RAGE1
14	MOK	ENSG00000080823	ENST00000523231	protein_coding	PUTATIVE	None	9833	288	95	102695176	102706934	-1	RAGE	RAGE1
14	MOK	ENSG00000080823	ENST00000524370	protein_coding	PUTATIVE	None	9833	288	95	102695176	102706948	-1	RAGE	RAGE1
14	MOK	ENSG00000080823	ENST00000522874	protein_coding	NOVEL	None	9833	1257	418	102695176	102771488	-1	RAGE	RAGE1
14	MOK	ENSG00000080823	ENST00000518686	retained_intron	KNOWN	None	9833	None	None	102695176	102771513	-1	RAGE	RAGE1
14	MOK	ENSG00000080823	ENST00000361847	protein_coding	KNOWN	CCDS9971	9833	1260	419	102695178	102771537	-1	RAGE	RAGE1
14	MOK	ENSG00000080823	ENST00000522867	protein_coding	PUTATIVE	None	9833	288	95	102695223	102701772	-1	RAGE	RAGE1
14	MOK	ENSG00000080823	ENST00000520266	processed_transcript	PUTATIVE	None	9833	None	None	102695410	102712584	-1	RAGE	RAGE1
14	MOK	ENSG00000080823	ENST00000519058	protein_coding	PUTATIVE	None	9833	378	125	102695457	102712496	-1	RAGE	RAGE1
14	MOK	ENSG00000080823	ENST00000524214	protein_coding	NOVEL	None	9833	1170	389	102695474	102771522	-1	RAGE	RAGE1
14	MOK	ENSG00000080823	ENST00000521937	protein_coding	PUTATIVE	None	9833	340	112	102695551	102698158	-1	RAGE	RAGE1
14	MOK	ENSG00000080823	ENST00000522534	protein_coding	PUTATIVE	None	9833	378	125	102695604	102704783	-1	RAGE	RAGE1
14	MOK	ENSG00000080823	ENST00000522537	protein_coding	PUTATIVE	None	9833	289	95	102695770	102701400	-1	RAGE	RAGE1
14	MOK	ENSG00000080823	ENST00000519477	processed_transcript	KNOWN	None	9833	None	None	102695776	102704435	-1	RAGE	RAGE1
14	MOK	ENSG00000080823	ENST00000520252	retained_intron	KNOWN	None	9833	None	None	102695915	102701906	-1	RAGE	RAGE1
14	MOK	ENSG00000080823	ENST00000524120	processed_transcript	KNOWN	None	9833	None	None	102695957	102706948	-1	RAGE	RAGE1
14	MOK	ENSG00000080823	ENST00000520046	retained_intron	KNOWN	None	9833	None	None	102698083	102700490	-1	RAGE	RAGE1
14	MOK	ENSG00000080823	ENST00000521388	nonsense_mediated_decay	KNOWN	None	9833	180	59	102698890	102771474	-1	RAGE	RAGE1
14	MOK	ENSG00000080823	ENST00000562292	nonsense_mediated_decay	KNOWN	None	9833	270	89	102700098	102771492	-1	RAGE	RAGE1
14	MOK	ENSG00000080823	ENST00000521493	processed_transcript	KNOWN	None	9833	None	None	102717149	102771484	-1	RAGE	RAGE1
14	MOK	ENSG00000080823	ENST00000518399	nonsense_mediated_decay	KNOWN	None	9833	180	59	102717175	102771515	-1	RAGE	RAGE1
14	MOK	ENSG00000080823	ENST00000517537	nonsense_mediated_decay	KNOWN	None	9833	456	151	102717232	102771471	-1	RAGE	RAGE1
14	MOK	ENSG00000080823	ENST00000522093	nonsense_mediated_decay	KNOWN	None	9833	135	44	102717304	102771491	-1	RAGE	RAGE1
14	MOK	ENSG00000080823	ENST00000518482	nonsense_mediated_decay	KNOWN	None	9833	180	59	102717804	102771491	-1	RAGE	RAGE1
14	MOK	ENSG00000080823	ENST00000524019	processed_transcript	KNOWN	None	9833	None	None	102717842	102771527	-1	RAGE	RAGE1
14	MOK	ENSG00000080823	ENST00000519877	retained_intron	KNOWN	None	9833	None	None	102718080	102771487	-1	RAGE	RAGE1
14	MOK	ENSG00000080823	ENST00000524207	nonsense_mediated_decay	KNOWN	None	9833	135	44	102718298	102771472	-1	RAGE	RAGE1
14	MOK	ENSG00000080823	ENST00000521966	processed_transcript	KNOWN	None	9833	None	None	102726928	102771484	-1	RAGE	RAGE1
14	MOK	ENSG00000080823	ENST00000520238	nonsense_mediated_decay	KNOWN	None	9833	135	44	102729874	102771479	-1	RAGE	RAGE1
14	MOK	ENSG00000080823	ENST00000523169	processed_transcript	PUTATIVE	None	9833	None	None	102747011	102771503	-1	RAGE	RAGE1
14	MOK	ENSG00000080823	ENST00000518045	retained_intron	KNOWN	None	9833	None	None	102749468	102771476	-1	RAGE	RAGE1
14	MOK	ENSG00000080823	ENST00000193029	protein_coding	KNOWN	None	9833	288	95	102692622	102771531	-1	RAGE	RAGE1
1	CYB5RL	ENSG00000215883	ENST00000420054	nonsense_mediated_decay	KNOWN	None	32220	168	55	54638009	54661266	-1	None	LOC606495
1	CYB5RL	ENSG00000215883	ENST00000421415	nonsense_mediated_decay	KNOWN	None	32220	213	70	54638009	54665683	-1	None	LOC606495
1	CYB5RL	ENSG00000215883	ENST00000490863	retained_intron	KNOWN	None	32220	None	None	54638029	54665684	-1	None	LOC606495
1	CYB5RL	ENSG00000215883	ENST00000528287	nonsense_mediated_decay	KNOWN	None	32220	372	123	54638891	54665709	-1	None	LOC606495
1	CYB5RL	ENSG00000215883	ENST00000534324	protein_coding	KNOWN	CCDS44151	32220	948	315	54640092	54661289	-1	None	LOC606495
1	CYB5RL	ENSG00000215883	ENST00000287899	protein_coding	KNOWN	None	32220	744	247	54640116	54661354	-1	None	LOC606495
1	CYB5RL	ENSG00000215883	ENST00000493530	protein_coding	PUTATIVE	None	32220	531	176	54641218	54661109	-1	None	LOC606495
1	CYB5RL	ENSG00000215883	ENST00000462299	retained_intron	KNOWN	None	32220	None	None	54651826	54656510	-1	None	LOC606495
1	CYB5RL	ENSG00000215883	ENST00000497820	protein_coding	KNOWN	None	32220	417	138	54656224	54662077	-1	None	LOC606495
1	CYB5RL	ENSG00000215883	ENST00000419823	protein_coding	KNOWN	CCDS44151	32220	948	315	54638031	54662167	-1	None	LOC606495
1	CYB5RL	ENSG00000215883	ENST00000542737	protein_coding	KNOWN	CCDS44151	32220	948	315	54640292	54665685	-1	None	LOC606495
1	CYB5RL	ENSG00000215883	ENST00000537208	protein_coding	KNOWN	None	32220	744	247	54640292	54665685	-1	None	LOC606495
1	CYB5RL	ENSG00000215883	ENST00000401046	protein_coding	KNOWN	None	32220	504	167	54638031	54661266	-1	None	LOC606495
8	POP1	ENSG00000104356	ENST00000522319	protein_coding	KNOWN	None	30129	549	182	99129525	99142268	1	None	None
8	POP1	ENSG00000104356	ENST00000401707	protein_coding	KNOWN	CCDS6277	30129	3075	1024	99129540	99172062	1	None	None
8	POP1	ENSG00000104356	ENST00000349693	protein_coding	KNOWN	CCDS6277	30129	3075	1024	99130068	99170640	1	None	None
8	POP1	ENSG00000104356	ENST00000517435	retained_intron	KNOWN	None	30129	None	None	99168186	99169895	1	None	None
4	None	ENSG00000205301	ENST00000515354	protein_coding	PUTATIVE	None	None	501	166	141363416	141419507	-1	None	None
4	None	ENSG00000205301	ENST00000511632	processed_transcript	KNOWN	None	None	None	None	141364352	141419406	-1	None	None
4	None	ENSG00000205301	ENST00000513018	protein_coding	PUTATIVE	None	None	274	90	141364372	141380721	-1	None	None
4	None	ENSG00000205301	ENST00000515121	nonsense_mediated_decay	KNOWN	None	None	111	36	141364575	141419524	-1	None	None
4	None	ENSG00000205301	ENST00000513106	retained_intron	KNOWN	None	None	None	None	141364587	141419486	-1	None	None
4	None	ENSG00000205301	ENST00000511113	protein_coding	PUTATIVE	None	None	1125	374	141364590	141419376	-1	None	None
4	None	ENSG00000205301	ENST00000503109	protein_coding	NOVEL	None	None	1128	375	141371110	141419376	-1	None	None
4	None	ENSG00000205301	ENST00000515402	protein_coding	NOVEL	None	None	340	112	141386099	141419484	-1	None	None
4	None	ENSG00000205301	ENST00000509091	processed_transcript	KNOWN	None	None	None	None	141386135	141419531	-1	None	None
1	TRIM17	ENSG00000162931	ENST00000366697	protein_coding	KNOWN	CCDS1571	13430	1434	477	228595641	228603730	-1	RNF16	terf, RBCC
1	TRIM17	ENSG00000162931	ENST00000366698	protein_coding	KNOWN	CCDS1571	13430	1434	477	228595737	228604347	-1	RNF16	terf, RBCC
1	TRIM17	ENSG00000162931	ENST00000295033	protein_coding	KNOWN	CCDS1571	13430	1434	477	228595737	228604365	-1	RNF16	terf, RBCC
1	TRIM17	ENSG00000162931	ENST00000456946	protein_coding	KNOWN	CCDS44327	13430	1032	343	228596401	228604458	-1	RNF16	terf, RBCC
1	TRIM17	ENSG00000162931	ENST00000479800	protein_coding	PUTATIVE	None	13430	802	266	228596873	228604354	-1	RNF16	terf, RBCC
1	TRIM17	ENSG00000162931	ENST00000355586	protein_coding	KNOWN	None	13430	526	174	228601497	228604328	-1	RNF16	terf, RBCC
1	TRIM17	ENSG00000162931	ENST00000457345	protein_coding	PUTATIVE	None	13430	92	29	228602601	228604562	-1	RNF16	terf, RBCC
1	TRIM17	ENSG00000162931	ENST00000520264	protein_coding	KNOWN	None	13430	152	49	228602622	228604353	-1	RNF16	terf, RBCC
17	TTC19	ENSG00000011295	ENST00000261647	protein_coding	NOVEL	CCDS11174	26006	1143	380	15902694	15932226	1	None	FLJ20343, MGC19520
17	TTC19	ENSG00000011295	ENST00000466729	nonsense_mediated_decay	KNOWN	None	26006	518	171	15903098	15907565	1	None	FLJ20343, MGC19520
17	TTC19	ENSG00000011295	ENST00000475723	nonsense_mediated_decay	KNOWN	None	26006	500	165	15903116	15932100	1	None	FLJ20343, MGC19520
17	TTC19	ENSG00000011295	ENST00000583704	retained_intron	KNOWN	None	26006	None	None	15903138	15903774	1	None	FLJ20343, MGC19520
17	TTC19	ENSG00000011295	ENST00000497842	processed_transcript	KNOWN	None	26006	None	None	15903138	15930849	1	None	FLJ20343, MGC19520
17	TTC19	ENSG00000011295	ENST00000470399	nonsense_mediated_decay	KNOWN	None	26006	450	149	15903148	15907167	1	None	FLJ20343, MGC19520
17	TTC19	ENSG00000011295	ENST00000481107	retained_intron	KNOWN	None	26006	None	None	15926987	15932100	1	None	FLJ20343, MGC19520
17	TTC19	ENSG00000011295	ENST00000465567	retained_intron	KNOWN	None	26006	None	None	15927932	15932100	1	None	FLJ20343, MGC19520
17	TTC19	ENSG00000011295	ENST00000470649	protein_coding	PUTATIVE	None	26006	300	99	15928402	15948329	1	None	FLJ20343, MGC19520
17	TTC19	ENSG00000011295	ENST00000578103	protein_coding	PUTATIVE	None	26006	191	62	15928466	15930394	1	None	FLJ20343, MGC19520
17	TTC19	ENSG00000011295	ENST00000486880	protein_coding	KNOWN	None	26006	1506	501	15902782	15932096	1	None	FLJ20343, MGC19520
1	TRIM46	ENSG00000163462	ENST00000368385	protein_coding	KNOWN	None	19019	1656	551	155146354	155153097	1	None	FLJ23229, TRIFIC
1	TRIM46	ENSG00000163462	ENST00000368383	protein_coding	KNOWN	None	19019	1935	644	155146376	155155338	1	None	FLJ23229, TRIFIC
1	TRIM46	ENSG00000163462	ENST00000474430	processed_transcript	KNOWN	None	19019	None	None	155146376	155155338	1	None	FLJ23229, TRIFIC
1	TRIM46	ENSG00000163462	ENST00000368382	protein_coding	KNOWN	CCDS58033	19019	2211	736	155146385	155157445	1	None	FLJ23229, TRIFIC
1	TRIM46	ENSG00000163462	ENST00000334634	protein_coding	KNOWN	CCDS1097	19019	2280	759	155146443	155157447	1	None	FLJ23229, TRIFIC
1	TRIM46	ENSG00000163462	ENST00000464760	processed_transcript	KNOWN	None	19019	None	None	155147077	155150632	1	None	FLJ23229, TRIFIC
1	TRIM46	ENSG00000163462	ENST00000468878	processed_transcript	KNOWN	None	19019	None	None	155147230	155157427	1	None	FLJ23229, TRIFIC
1	TRIM46	ENSG00000163462	ENST00000543729	protein_coding	KNOWN	None	19019	1518	505	155145873	155154535	1	None	FLJ23229, TRIFIC
1	TRIM46	ENSG00000163462	ENST00000392451	protein_coding	KNOWN	None	19019	1497	498	155146360	155157445	1	None	FLJ23229, TRIFIC
1	TRIM46	ENSG00000163462	ENST00000545012	protein_coding	KNOWN	None	19019	1902	633	155146355	155156949	1	None	FLJ23229, TRIFIC
1	MRPL37	ENSG00000116221	ENST00000487096	processed_transcript	KNOWN	None	14034	None	None	54649714	54675805	1	None	RPML2, MRP-L2
1	MRPL37	ENSG00000116221	ENST00000360840	protein_coding	KNOWN	CCDS589	14034	1272	423	54665840	54684051	1	None	RPML2, MRP-L2
1	MRPL37	ENSG00000116221	ENST00000605337	protein_coding	PUTATIVE	None	14034	1452	483	54665869	54691137	1	None	RPML2, MRP-L2
1	MRPL37	ENSG00000116221	ENST00000490670	processed_transcript	KNOWN	None	14034	None	None	54665877	54675804	1	None	RPML2, MRP-L2
1	MRPL37	ENSG00000116221	ENST00000398219	protein_coding	PUTATIVE	None	14034	794	263	54675619	54686603	1	None	RPML2, MRP-L2
1	MRPL37	ENSG00000116221	ENST00000336230	protein_coding	KNOWN	None	14034	879	292	54665892	54684049	1	None	RPML2, MRP-L2
2	BOLL	ENSG00000152430	ENST00000430004	protein_coding	NOVEL	None	14273	1002	333	198591603	198649734	-1	None	BOULE
2	BOLL	ENSG00000152430	ENST00000392296	protein_coding	KNOWN	CCDS2325	14273	852	283	198591603	198650074	-1	None	BOULE
2	BOLL	ENSG00000152430	ENST00000321801	protein_coding	KNOWN	CCDS2324	14273	888	295	198591603	198651298	-1	None	BOULE
2	BOLL	ENSG00000152430	ENST00000434976	nonsense_mediated_decay	KNOWN	None	14273	264	87	198592973	198651036	-1	None	BOULE
2	BOLL	ENSG00000152430	ENST00000468827	processed_transcript	KNOWN	None	14273	None	None	198592976	198621169	-1	None	BOULE
2	BOLL	ENSG00000152430	ENST00000433157	protein_coding	KNOWN	CCDS2325	14273	852	283	198593258	198649734	-1	None	BOULE
2	BOLL	ENSG00000152430	ENST00000486206	processed_transcript	KNOWN	None	14273	None	None	198650812	198651486	-1	None	BOULE
2	BOLL	ENSG00000152430	ENST00000282278	protein_coding	KNOWN	None	14273	525	174	198592973	198651036	-1	None	BOULE
4	REST	ENSG00000084093	ENST00000309042	protein_coding	KNOWN	CCDS3509	9966	3294	1097	57774075	57802010	1	None	NRSF, XBR
4	REST	ENSG00000084093	ENST00000511065	retained_intron	KNOWN	None	9966	None	None	57775079	57777181	1	None	NRSF, XBR
4	REST	ENSG00000084093	ENST00000503522	processed_transcript	KNOWN	None	9966	None	None	57775356	57776854	1	None	NRSF, XBR
4	REST	ENSG00000084093	ENST00000514063	processed_transcript	KNOWN	None	9966	None	None	57777378	57796125	1	None	NRSF, XBR
1	HIST3H3	ENSG00000168148	ENST00000366696	protein_coding	KNOWN	CCDS1572	4778	411	136	228612546	228613026	-1	H3FT	H3t, H3/g, H3.4
1	HIST3H2A	ENSG00000181218	ENST00000366695	protein_coding	KNOWN	CCDS1573	20507	393	130	228645065	228645560	-1	None	MGC3165
19	PTOV1	ENSG00000104960	ENST00000594151	protein_coding	PUTATIVE	None	9632	849	282	50353992	50361039	1	None	None
19	PTOV1	ENSG00000104960	ENST00000601612	nonsense_mediated_decay	KNOWN	None	9632	714	237	50353992	50363997	1	None	None
19	PTOV1	ENSG00000104960	ENST00000600603	protein_coding	PUTATIVE	None	9632	1125	374	50354011	50363996	1	None	None
19	PTOV1	ENSG00000104960	ENST00000601638	protein_coding	PUTATIVE	None	9632	1155	384	50354085	50363970	1	None	None
19	PTOV1	ENSG00000104960	ENST00000598632	retained_intron	KNOWN	None	9632	None	None	50354094	50358901	1	None	None
19	PTOV1	ENSG00000104960	ENST00000601501	retained_intron	KNOWN	None	9632	None	None	50354246	50358403	1	None	None
19	PTOV1	ENSG00000104960	ENST00000594165	processed_transcript	KNOWN	None	9632	None	None	50354256	50361894	1	None	None
19	PTOV1	ENSG00000104960	ENST00000598325	processed_transcript	KNOWN	None	9632	None	None	50354277	50363982	1	None	None
19	PTOV1	ENSG00000104960	ENST00000599732	protein_coding	KNOWN	CCDS12782	9632	1251	416	50354448	50364001	1	None	None
19	PTOV1	ENSG00000104960	ENST00000601675	protein_coding	KNOWN	CCDS12782	9632	1251	416	50354482	50363997	1	None	None
19	PTOV1	ENSG00000104960	ENST00000602040	retained_intron	KNOWN	None	9632	None	None	50354644	50358254	1	None	None
19	PTOV1	ENSG00000104960	ENST00000596095	processed_transcript	KNOWN	None	9632	None	None	50354660	50355953	1	None	None
19	PTOV1	ENSG00000104960	ENST00000594640	processed_transcript	KNOWN	None	9632	None	None	50355210	50358322	1	None	None
19	PTOV1	ENSG00000104960	ENST00000600793	protein_coding	NOVEL	None	9632	426	141	50357663	50360378	1	None	None
19	PTOV1	ENSG00000104960	ENST00000600105	processed_transcript	KNOWN	None	9632	None	None	50358312	50361371	1	None	None
19	PTOV1	ENSG00000104960	ENST00000597793	retained_intron	KNOWN	None	9632	None	None	50359393	50363997	1	None	None
19	PTOV1	ENSG00000104960	ENST00000595934	retained_intron	KNOWN	None	9632	None	None	50359761	50361640	1	None	None
19	PTOV1	ENSG00000104960	ENST00000596424	retained_intron	KNOWN	None	9632	None	None	50360300	50362120	1	None	None
19	PTOV1	ENSG00000104960	ENST00000601093	protein_coding	PUTATIVE	None	9632	336	111	50361164	50363999	1	None	None
19	PTOV1	ENSG00000104960	ENST00000597730	protein_coding	PUTATIVE	None	9632	129	42	50363396	50363999	1	None	None
19	PTOV1	ENSG00000104960	ENST00000221557	protein_coding	KNOWN	None	9632	1125	374	50354138	50363990	1	None	None
19	PTOV1	ENSG00000104960	ENST00000391842	protein_coding	KNOWN	CCDS12782	9632	1251	416	50354416	50363990	1	None	None
1	HIST3H2BB	ENSG00000196890	ENST00000369160	protein_coding	KNOWN	CCDS1574	20514	381	126	228645808	228646259	1	None	None
5	ARSB	ENSG00000113273	ENST00000264914	protein_coding	KNOWN	CCDS4043	714	1602	533	78073032	78281608	-1	None	None
5	ARSB	ENSG00000113273	ENST00000521011	processed_transcript	PUTATIVE	None	714	None	None	78076175	78079317	-1	None	None
5	ARSB	ENSG00000113273	ENST00000396151	protein_coding	KNOWN	CCDS43334	714	1242	413	78111334	78281910	-1	None	None
5	ARSB	ENSG00000113273	ENST00000565165	protein_coding	PUTATIVE	CCDS43334	714	1242	413	78111878	78281910	-1	None	None
5	ARSB	ENSG00000113273	ENST00000521800	processed_transcript	PUTATIVE	None	714	None	None	78180117	78181653	-1	None	None
5	ARSB	ENSG00000113273	ENST00000521117	protein_coding	KNOWN	None	714	137	44	78280935	78281661	-1	None	None
4	C4orf6	ENSG00000082929	ENST00000515342	processed_transcript	KNOWN	None	13716	None	None	5526296	5529322	1	None	aC1
4	C4orf6	ENSG00000082929	ENST00000195455	protein_coding	KNOWN	CCDS3381	13716	282	93	5526883	5529528	1	None	aC1
4	C4orf6	ENSG00000082929	ENST00000505296	protein_coding	NOVEL	None	13716	244	80	5527117	5529527	1	None	aC1
4	C4orf6	ENSG00000082929	ENST00000504943	processed_transcript	KNOWN	None	13716	None	None	5528879	5529528	1	None	aC1
1	RNF187	ENSG00000168159	ENST00000305943	protein_coding	KNOWN	None	27146	381	126	228674762	228683467	1	None	None
1	RNF187	ENSG00000168159	ENST00000482739	processed_transcript	KNOWN	None	27146	None	None	228675923	228683467	1	None	None
1	RNF187	ENSG00000168159	ENST00000484293	processed_transcript	KNOWN	None	27146	None	None	228676659	228682393	1	None	None
1	RNF187	ENSG00000168159	ENST00000493597	processed_transcript	KNOWN	None	27146	None	None	228680937	228682670	1	None	None
4	DSPP	ENSG00000152591	ENST00000282478	protein_coding	KNOWN	CCDS43248	3054	3906	1301	88532028	88538062	1	DFNA39, DGI1	DMP3
4	DSPP	ENSG00000152591	ENST00000399271	protein_coding	KNOWN	CCDS43248	3054	3906	1301	88529681	88538025	1	DFNA39, DGI1	DMP3
1	RHOU	ENSG00000116574	ENST00000366691	protein_coding	KNOWN	CCDS1575	17794	777	258	228870824	228882416	1	ARHU	WRCH-1, DJ646B12.2, FLJ10616, WRCH1, CDC42L1, hG28K, fJ646B12.2
1	RHOU	ENSG00000116574	ENST00000473307	processed_transcript	KNOWN	None	17794	None	None	228880673	228881090	1	ARHU	WRCH-1, DJ646B12.2, FLJ10616, WRCH1, CDC42L1, hG28K, fJ646B12.2
1	RHOU	ENSG00000116574	ENST00000493528	processed_transcript	KNOWN	None	17794	None	None	228881987	228882416	1	ARHU	WRCH-1, DJ646B12.2, FLJ10616, WRCH1, CDC42L1, hG28K, fJ646B12.2
X	HS6ST2	ENSG00000171004	ENST00000370837	protein_coding	KNOWN	None	19133	1380	459	131760038	132091358	-1	None	None
X	HS6ST2	ENSG00000171004	ENST00000461959	nonsense_mediated_decay	KNOWN	None	19133	1380	459	131760044	132091354	-1	None	None
X	HS6ST2	ENSG00000171004	ENST00000370836	protein_coding	KNOWN	CCDS48169	19133	1818	605	131760044	132095423	-1	None	None
X	HS6ST2	ENSG00000171004	ENST00000521489	protein_coding	KNOWN	CCDS48170	19133	1938	645	131761998	132095423	-1	None	None
X	HS6ST2	ENSG00000171004	ENST00000602570	processed_transcript	KNOWN	None	19133	None	None	131869112	131892360	-1	None	None
X	HS6ST2	ENSG00000171004	ENST00000370833	protein_coding	KNOWN	None	19133	1389	462	131762251	132091344	-1	None	None
X	HS6ST2	ENSG00000171004	ENST00000406696	protein_coding	KNOWN	None	19133	996	331	131762043	131842656	-1	None	None
11	SLC43A3	ENSG00000134802	ENST00000395123	protein_coding	KNOWN	CCDS7956	17466	1476	491	57174427	57194418	-1	None	SEEEG-1, Eeg1, DKFZp762A227, FOAP-13, PRO1659
11	SLC43A3	ENSG00000134802	ENST00000395124	protein_coding	KNOWN	CCDS7956	17466	1476	491	57174429	57194594	-1	None	SEEEG-1, Eeg1, DKFZp762A227, FOAP-13, PRO1659
11	SLC43A3	ENSG00000134802	ENST00000352187	protein_coding	KNOWN	CCDS7956	17466	1476	491	57174429	57195053	-1	None	SEEEG-1, Eeg1, DKFZp762A227, FOAP-13, PRO1659
11	SLC43A3	ENSG00000134802	ENST00000529554	protein_coding	KNOWN	CCDS7956	17466	1476	491	57174879	57194225	-1	None	SEEEG-1, Eeg1, DKFZp762A227, FOAP-13, PRO1659
11	SLC43A3	ENSG00000134802	ENST00000525205	nonsense_mediated_decay	KNOWN	None	17466	413	136	57175004	57184126	-1	None	SEEEG-1, Eeg1, DKFZp762A227, FOAP-13, PRO1659
11	SLC43A3	ENSG00000134802	ENST00000533524	protein_coding	NOVEL	None	17466	1515	504	57175243	57194594	-1	None	SEEEG-1, Eeg1, DKFZp762A227, FOAP-13, PRO1659
11	SLC43A3	ENSG00000134802	ENST00000530005	protein_coding	KNOWN	None	17466	994	330	57182154	57194516	-1	None	SEEEG-1, Eeg1, DKFZp762A227, FOAP-13, PRO1659
11	SLC43A3	ENSG00000134802	ENST00000528098	processed_transcript	KNOWN	None	17466	None	None	57182687	57193952	-1	None	SEEEG-1, Eeg1, DKFZp762A227, FOAP-13, PRO1659
11	SLC43A3	ENSG00000134802	ENST00000529113	protein_coding	PUTATIVE	None	17466	380	125	57185353	57193329	-1	None	SEEEG-1, Eeg1, DKFZp762A227, FOAP-13, PRO1659
11	SLC43A3	ENSG00000134802	ENST00000525474	protein_coding	KNOWN	None	17466	507	168	57188469	57194893	-1	None	SEEEG-1, Eeg1, DKFZp762A227, FOAP-13, PRO1659
11	SLC43A3	ENSG00000134802	ENST00000529112	protein_coding	KNOWN	None	17466	444	147	57188532	57194125	-1	None	SEEEG-1, Eeg1, DKFZp762A227, FOAP-13, PRO1659
11	SLC43A3	ENSG00000134802	ENST00000526125	processed_transcript	KNOWN	None	17466	None	None	57188829	57194594	-1	None	SEEEG-1, Eeg1, DKFZp762A227, FOAP-13, PRO1659
11	SLC43A3	ENSG00000134802	ENST00000530232	processed_transcript	KNOWN	None	17466	None	None	57191156	57193632	-1	None	SEEEG-1, Eeg1, DKFZp762A227, FOAP-13, PRO1659
11	SLC43A3	ENSG00000134802	ENST00000528187	protein_coding	NOVEL	None	17466	400	132	57191455	57194573	-1	None	SEEEG-1, Eeg1, DKFZp762A227, FOAP-13, PRO1659
11	SLC43A3	ENSG00000134802	ENST00000529494	protein_coding	KNOWN	None	17466	358	118	57191458	57194592	-1	None	SEEEG-1, Eeg1, DKFZp762A227, FOAP-13, PRO1659
11	SLC43A3	ENSG00000134802	ENST00000533245	protein_coding	KNOWN	None	17466	329	108	57191487	57194594	-1	None	SEEEG-1, Eeg1, DKFZp762A227, FOAP-13, PRO1659
11	SLC43A3	ENSG00000134802	ENST00000533235	protein_coding	KNOWN	None	17466	323	106	57191493	57194958	-1	None	SEEEG-1, Eeg1, DKFZp762A227, FOAP-13, PRO1659
11	SLC43A3	ENSG00000134802	ENST00000524863	protein_coding	KNOWN	None	17466	305	100	57193023	57194588	-1	None	SEEEG-1, Eeg1, DKFZp762A227, FOAP-13, PRO1659
11	SLC43A3	ENSG00000134802	ENST00000532795	protein_coding	KNOWN	None	17466	293	96	57193035	57194929	-1	None	SEEEG-1, Eeg1, DKFZp762A227, FOAP-13, PRO1659
11	SLC43A3	ENSG00000134802	ENST00000533051	protein_coding	KNOWN	None	17466	235	77	57193093	57194588	-1	None	SEEEG-1, Eeg1, DKFZp762A227, FOAP-13, PRO1659
11	SLC43A3	ENSG00000134802	ENST00000529896	protein_coding	NOVEL	None	17466	246	81	57193121	57194128	-1	None	SEEEG-1, Eeg1, DKFZp762A227, FOAP-13, PRO1659
11	SLC43A3	ENSG00000134802	ENST00000526621	protein_coding	KNOWN	None	17466	191	62	57193176	57194969	-1	None	SEEEG-1, Eeg1, DKFZp762A227, FOAP-13, PRO1659
11	SLC43A3	ENSG00000134802	ENST00000530316	protein_coding	KNOWN	None	17466	133	43	57193513	57194594	-1	None	SEEEG-1, Eeg1, DKFZp762A227, FOAP-13, PRO1659
11	SLC43A3	ENSG00000134802	ENST00000529748	protein_coding	KNOWN	None	17466	66	21	57193580	57194817	-1	None	SEEEG-1, Eeg1, DKFZp762A227, FOAP-13, PRO1659
11	SLC43A3	ENSG00000134802	ENST00000532278	protein_coding	KNOWN	None	17466	5	0	57193641	57194516	-1	None	SEEEG-1, Eeg1, DKFZp762A227, FOAP-13, PRO1659
15	GABARAPL3	ENSG00000238244	ENST00000412799	protein_coding	KNOWN	None	4069	354	117	90890819	90892669	-1	None	ATG8D
1	TMEM78	ENSG00000177800	ENST00000323223	protein_coding	KNOWN	None	32307	411	136	229385383	229387557	1	None	FLJ40168
2	CCT7	ENSG00000135624	ENST00000471927	processed_transcript	KNOWN	None	1622	None	None	73460548	73470236	1	None	Ccth, Nip7-1
2	CCT7	ENSG00000135624	ENST00000469844	processed_transcript	KNOWN	None	1622	None	None	73460557	73471758	1	None	Ccth, Nip7-1
2	CCT7	ENSG00000135624	ENST00000473197	processed_transcript	KNOWN	None	1622	None	None	73460573	73467676	1	None	Ccth, Nip7-1
2	CCT7	ENSG00000135624	ENST00000492253	processed_transcript	KNOWN	None	1622	None	None	73460587	73470210	1	None	Ccth, Nip7-1
2	CCT7	ENSG00000135624	ENST00000258091	protein_coding	KNOWN	CCDS46336	1622	1632	543	73461366	73480132	1	None	Ccth, Nip7-1
2	CCT7	ENSG00000135624	ENST00000461290	retained_intron	KNOWN	None	1622	None	None	73461397	73471639	1	None	Ccth, Nip7-1
2	CCT7	ENSG00000135624	ENST00000464397	retained_intron	KNOWN	None	1622	None	None	73461435	73467275	1	None	Ccth, Nip7-1
2	CCT7	ENSG00000135624	ENST00000399032	protein_coding	PUTATIVE	None	1622	294	97	73461436	73471157	1	None	Ccth, Nip7-1
2	CCT7	ENSG00000135624	ENST00000398422	protein_coding	KNOWN	CCDS42696	1622	1020	339	73461436	73480132	1	None	Ccth, Nip7-1
2	CCT7	ENSG00000135624	ENST00000480489	retained_intron	KNOWN	None	1622	None	None	73461437	73470321	1	None	Ccth, Nip7-1
2	CCT7	ENSG00000135624	ENST00000409924	nonsense_mediated_decay	KNOWN	None	1622	252	83	73461437	73474917	1	None	Ccth, Nip7-1
2	CCT7	ENSG00000135624	ENST00000473786	processed_transcript	KNOWN	None	1622	None	None	73461464	73476972	1	None	Ccth, Nip7-1
2	CCT7	ENSG00000135624	ENST00000482064	processed_transcript	KNOWN	None	1622	None	None	73466229	73470258	1	None	Ccth, Nip7-1
2	CCT7	ENSG00000135624	ENST00000488856	retained_intron	KNOWN	None	1622	None	None	73470974	73476189	1	None	Ccth, Nip7-1
2	CCT7	ENSG00000135624	ENST00000540468	protein_coding	KNOWN	CCDS54366	1622	1371	456	73461364	73480149	1	None	Ccth, Nip7-1
2	CCT7	ENSG00000135624	ENST00000539919	protein_coding	KNOWN	CCDS54367	1622	1500	499	73461364	73480149	1	None	Ccth, Nip7-1
2	CCT7	ENSG00000135624	ENST00000537131	protein_coding	KNOWN	None	1622	1332	443	73461437	73480132	1	None	Ccth, Nip7-1
2	CCT7	ENSG00000135624	ENST00000538797	protein_coding	KNOWN	None	1622	1248	415	73461446	73480134	1	None	Ccth, Nip7-1
19	None	ENSG00000183248	ENST00000599142	protein_coding	PUTATIVE	None	None	2285	760	7933605	7936373	-1	None	None
19	None	ENSG00000183248	ENST00000593356	processed_transcript	KNOWN	None	None	None	None	7933631	7939326	-1	None	None
19	None	ENSG00000183248	ENST00000539422	protein_coding	KNOWN	None	None	4041	1346	7933605	7939326	-1	None	None
15	ZNF774	ENSG00000196391	ENST00000354377	protein_coding	KNOWN	CCDS32330	33108	1452	483	90895477	90906079	1	None	MGC75360
15	ZNF774	ENSG00000196391	ENST00000560038	nonsense_mediated_decay	KNOWN	None	33108	135	44	90895535	90903410	1	None	MGC75360
15	ZNF774	ENSG00000196391	ENST00000558115	processed_transcript	KNOWN	None	33108	None	None	90895548	90903670	1	None	MGC75360
15	ZNF774	ENSG00000196391	ENST00000379090	protein_coding	PUTATIVE	None	33108	264	87	90895572	90909324	1	None	MGC75360
15	ZNF774	ENSG00000196391	ENST00000558586	protein_coding	KNOWN	None	33108	236	77	90897845	90903299	1	None	MGC75360
8	UBE2V2	ENSG00000169139	ENST00000523111	protein_coding	KNOWN	CCDS43738	12495	438	145	48920960	48977268	1	None	UEV-2, DDVit-1, EDPF-1, MMS2
8	UBE2V2	ENSG00000169139	ENST00000523432	protein_coding	PUTATIVE	None	12495	329	108	48920975	48973977	1	None	UEV-2, DDVit-1, EDPF-1, MMS2
8	UBE2V2	ENSG00000169139	ENST00000521346	protein_coding	PUTATIVE	None	12495	318	105	48920979	48974040	1	None	UEV-2, DDVit-1, EDPF-1, MMS2
8	UBE2V2	ENSG00000169139	ENST00000518360	nonsense_mediated_decay	KNOWN	None	12495	463	153	48921002	48973423	1	None	UEV-2, DDVit-1, EDPF-1, MMS2
8	UBE2V2	ENSG00000169139	ENST00000517630	protein_coding	PUTATIVE	None	12495	318	105	48921011	48973457	1	None	UEV-2, DDVit-1, EDPF-1, MMS2
8	UBE2V2	ENSG00000169139	ENST00000520809	protein_coding	PUTATIVE	None	12495	318	105	48954307	48974130	1	None	UEV-2, DDVit-1, EDPF-1, MMS2
8	UBE2V2	ENSG00000169139	ENST00000520595	nonsense_mediated_decay	KNOWN	None	12495	158	51	48955593	48973463	1	None	UEV-2, DDVit-1, EDPF-1, MMS2
8	UBE2V2	ENSG00000169139	ENST00000521628	retained_intron	KNOWN	None	12495	None	None	48962140	48973875	1	None	UEV-2, DDVit-1, EDPF-1, MMS2
1	RAB4A	ENSG00000168118	ENST00000481981	retained_intron	KNOWN	None	9781	None	None	229406822	229424629	1	RAB4	HRES-1/RAB4
1	RAB4A	ENSG00000168118	ENST00000366690	protein_coding	KNOWN	CCDS31050	9781	657	218	229406879	229441641	1	RAB4	HRES-1/RAB4
1	RAB4A	ENSG00000168118	ENST00000473894	processed_transcript	KNOWN	None	9781	None	None	229406941	229439641	1	RAB4	HRES-1/RAB4
1	RAB4A	ENSG00000168118	ENST00000489342	processed_transcript	KNOWN	None	9781	None	None	229422232	229424946	1	RAB4	HRES-1/RAB4
17	CCL3L3	ENSG00000256515	ENST00000588817	retained_intron	KNOWN	None	30554	None	None	34522268	34524146	-1	None	MGC12815
17	CCL3L3	ENSG00000256515	ENST00000378354	protein_coding	KNOWN	CCDS32626	30554	282	93	34522268	34524157	-1	None	MGC12815
17	CCL3L3	ENSG00000256515	ENST00000589736	processed_transcript	PUTATIVE	None	30554	None	None	34522395	34523856	-1	None	MGC12815
17	CCL3L3	ENSG00000256515	ENST00000394484	protein_coding	KNOWN	None	30554	144	47	34522693	34524157	-1	None	MGC12815
2	PLCL1	ENSG00000115896	ENST00000428675	protein_coding	KNOWN	CCDS2326	9063	3288	1095	198669426	199013125	1	PLCE	PLC-L, PLCL, PRIP
2	PLCL1	ENSG00000115896	ENST00000435320	nonsense_mediated_decay	KNOWN	None	9063	285	94	198669426	199014608	1	PLCE	PLC-L, PLCL, PRIP
2	PLCL1	ENSG00000115896	ENST00000487695	protein_coding	PUTATIVE	None	9063	3038	1011	198674982	199011658	1	PLCE	PLC-L, PLCL, PRIP
2	PLCL1	ENSG00000115896	ENST00000472193	processed_transcript	KNOWN	None	9063	None	None	199211553	199437305	1	PLCE	PLC-L, PLCL, PRIP
2	PLCL1	ENSG00000115896	ENST00000437704	protein_coding	KNOWN	None	9063	2994	997	198948536	199013118	1	PLCE	PLC-L, PLCL, PRIP
1	SSBP3	ENSG00000157216	ENST00000326956	processed_transcript	KNOWN	None	15674	None	None	54691105	54822491	-1	None	CSDP, SSDP, FLJ10355, SSDP1
1	SSBP3	ENSG00000157216	ENST00000528930	retained_intron	KNOWN	None	15674	None	None	54692190	54694507	-1	None	CSDP, SSDP, FLJ10355, SSDP1
1	SSBP3	ENSG00000157216	ENST00000417664	protein_coding	PUTATIVE	None	15674	837	278	54692305	54871177	-1	None	CSDP, SSDP, FLJ10355, SSDP1
1	SSBP3	ENSG00000157216	ENST00000371320	protein_coding	KNOWN	CCDS591	15674	1167	388	54692305	54872092	-1	None	CSDP, SSDP, FLJ10355, SSDP1
1	SSBP3	ENSG00000157216	ENST00000371319	protein_coding	KNOWN	CCDS30726	15674	1086	361	54692312	54871681	-1	None	CSDP, SSDP, FLJ10355, SSDP1
1	SSBP3	ENSG00000157216	ENST00000533946	processed_transcript	KNOWN	None	15674	None	None	54692320	54870306	-1	None	CSDP, SSDP, FLJ10355, SSDP1
1	SSBP3	ENSG00000157216	ENST00000357475	protein_coding	KNOWN	CCDS590	15674	1107	368	54692593	54871896	-1	None	CSDP, SSDP, FLJ10355, SSDP1
1	SSBP3	ENSG00000157216	ENST00000426150	processed_transcript	KNOWN	None	15674	None	None	54693928	54791112	-1	None	CSDP, SSDP, FLJ10355, SSDP1
1	SSBP3	ENSG00000157216	ENST00000444533	protein_coding	PUTATIVE	None	15674	471	156	54704662	54717533	-1	None	CSDP, SSDP, FLJ10355, SSDP1
1	SSBP3	ENSG00000157216	ENST00000420121	retained_intron	KNOWN	None	15674	None	None	54704769	54722939	-1	None	CSDP, SSDP, FLJ10355, SSDP1
1	SSBP3	ENSG00000157216	ENST00000530618	retained_intron	KNOWN	None	15674	None	None	54708529	54717344	-1	None	CSDP, SSDP, FLJ10355, SSDP1
1	SSBP3	ENSG00000157216	ENST00000533209	retained_intron	KNOWN	None	15674	None	None	54708862	54792145	-1	None	CSDP, SSDP, FLJ10355, SSDP1
1	SSBP3	ENSG00000157216	ENST00000525990	protein_coding	PUTATIVE	None	15674	303	100	54708910	54879152	-1	None	CSDP, SSDP, FLJ10355, SSDP1
1	SSBP3	ENSG00000157216	ENST00000528787	processed_transcript	KNOWN	None	15674	None	None	54708945	54801554	-1	None	CSDP, SSDP, FLJ10355, SSDP1
1	SSBP3	ENSG00000157216	ENST00000448572	processed_transcript	PUTATIVE	None	15674	None	None	54878381	54879139	-1	None	CSDP, SSDP, FLJ10355, SSDP1
1	SPHAR	ENSG00000213029	ENST00000366688	protein_coding	KNOWN	CCDS1576	16957	192	63	229440129	229441248	1	None	None
14	ZC2HC1C	ENSG00000119703	ENST00000534151	protein_coding	KNOWN	None	20354	280	92	75530873	75537556	1	C14orf140, FAM164C	None
14	ZC2HC1C	ENSG00000119703	ENST00000524913	protein_coding	KNOWN	CCDS41972	20354	1371	456	75535983	75544799	1	C14orf140, FAM164C	None
14	ZC2HC1C	ENSG00000119703	ENST00000238686	protein_coding	NOVEL	None	20354	1170	389	75536280	75545126	1	C14orf140, FAM164C	None
14	ZC2HC1C	ENSG00000119703	ENST00000554763	protein_coding	KNOWN	None	20354	483	160	75536344	75537759	1	C14orf140, FAM164C	None
14	ZC2HC1C	ENSG00000119703	ENST00000439583	protein_coding	KNOWN	CCDS45138	20354	828	275	75536344	75544792	1	C14orf140, FAM164C	None
14	ZC2HC1C	ENSG00000119703	ENST00000526130	protein_coding	KNOWN	None	20354	514	170	75536376	75537790	1	C14orf140, FAM164C	None
14	ZC2HC1C	ENSG00000119703	ENST00000526748	processed_transcript	PUTATIVE	None	20354	None	None	75536377	75544794	1	C14orf140, FAM164C	None
14	ZC2HC1C	ENSG00000119703	ENST00000525046	protein_coding	KNOWN	None	20354	276	91	75536380	75537552	1	C14orf140, FAM164C	None
14	ZC2HC1C	ENSG00000119703	ENST00000532198	protein_coding	PUTATIVE	None	20354	473	156	75537677	75544522	1	C14orf140, FAM164C	None
10	ZNF37A	ENSG00000075407	ENST00000498773	processed_transcript	KNOWN	None	13102	None	None	38383264	38384487	1	None	KOX21, ZNF37
10	ZNF37A	ENSG00000075407	ENST00000361085	protein_coding	KNOWN	CCDS31183	13102	1686	561	38383275	38411511	1	None	KOX21, ZNF37
10	ZNF37A	ENSG00000075407	ENST00000479469	processed_transcript	KNOWN	None	13102	None	None	38383279	38404313	1	None	KOX21, ZNF37
10	ZNF37A	ENSG00000075407	ENST00000477790	processed_transcript	KNOWN	None	13102	None	None	38385502	38404621	1	None	KOX21, ZNF37
10	ZNF37A	ENSG00000075407	ENST00000351773	protein_coding	KNOWN	CCDS31183	13102	1686	561	38383264	38412276	1	None	KOX21, ZNF37
16	PLCG2	ENSG00000197943	ENST00000565054	protein_coding	KNOWN	None	9066	479	158	81772702	81892768	1	None	None
16	PLCG2	ENSG00000197943	ENST00000359376	protein_coding	KNOWN	CCDS42204	9066	3798	1265	81812863	81991899	1	None	None
16	PLCG2	ENSG00000197943	ENST00000569929	retained_intron	KNOWN	None	9066	None	None	81812947	81917196	1	None	None
16	PLCG2	ENSG00000197943	ENST00000567980	retained_intron	KNOWN	None	9066	None	None	81819351	81955215	1	None	None
16	PLCG2	ENSG00000197943	ENST00000565400	processed_transcript	PUTATIVE	None	9066	None	None	81832071	81902838	1	None	None
16	PLCG2	ENSG00000197943	ENST00000569523	processed_transcript	PUTATIVE	None	9066	None	None	81876325	81902882	1	None	None
16	PLCG2	ENSG00000197943	ENST00000565020	retained_intron	KNOWN	None	9066	None	None	81891550	81892874	1	None	None
16	PLCG2	ENSG00000197943	ENST00000563193	protein_coding	PUTATIVE	None	9066	535	177	81916874	81932261	1	None	None
16	PLCG2	ENSG00000197943	ENST00000562605	processed_transcript	PUTATIVE	None	9066	None	None	81922944	81934385	1	None	None
16	PLCG2	ENSG00000197943	ENST00000563375	nonsense_mediated_decay	KNOWN	None	9066	136	44	81925136	81939989	1	None	None
16	PLCG2	ENSG00000197943	ENST00000570198	retained_intron	KNOWN	None	9066	None	None	81929224	81939092	1	None	None
16	PLCG2	ENSG00000197943	ENST00000570196	retained_intron	KNOWN	None	9066	None	None	81957020	81962436	1	None	None
16	PLCG2	ENSG00000197943	ENST00000563269	retained_intron	KNOWN	None	9066	None	None	81964866	81969815	1	None	None
16	PLCG2	ENSG00000197943	ENST00000567373	retained_intron	KNOWN	None	9066	None	None	81970952	81973664	1	None	None
16	PLCG2	ENSG00000197943	ENST00000563834	processed_transcript	PUTATIVE	None	9066	None	None	81972083	81973567	1	None	None
16	PLCG2	ENSG00000197943	ENST00000567356	retained_intron	KNOWN	None	9066	None	None	81972233	81990335	1	None	None
4	CASP3	ENSG00000164305	ENST00000393585	protein_coding	PUTATIVE	None	1504	549	182	185548850	185569746	-1	None	CPP32, CPP32B, Yama, apopain
4	CASP3	ENSG00000164305	ENST00000308394	protein_coding	KNOWN	CCDS3836	1504	834	277	185548850	185570629	-1	None	CPP32, CPP32B, Yama, apopain
4	CASP3	ENSG00000164305	ENST00000523916	protein_coding	KNOWN	CCDS3836	1504	834	277	185548850	185570663	-1	None	CPP32, CPP32B, Yama, apopain
4	CASP3	ENSG00000164305	ENST00000517513	protein_coding	PUTATIVE	None	1504	549	182	185550410	185570601	-1	None	CPP32, CPP32B, Yama, apopain
4	CASP3	ENSG00000164305	ENST00000393588	protein_coding	PUTATIVE	None	1504	549	182	185550538	185570609	-1	None	CPP32, CPP32B, Yama, apopain
4	CASP3	ENSG00000164305	ENST00000447121	protein_coding	KNOWN	None	1504	352	116	185553050	185570601	-1	None	CPP32, CPP32B, Yama, apopain
1	CCSAP	ENSG00000154429	ENST00000366687	protein_coding	KNOWN	CCDS1577	29578	813	270	229456758	229478264	-1	C1orf96	FLJ41471, CSAP
1	CCSAP	ENSG00000154429	ENST00000366686	protein_coding	KNOWN	None	29578	471	156	229457262	229476380	-1	C1orf96	FLJ41471, CSAP
1	CCSAP	ENSG00000154429	ENST00000483092	processed_transcript	KNOWN	None	29578	None	None	229459286	229479041	-1	C1orf96	FLJ41471, CSAP
1	CCSAP	ENSG00000154429	ENST00000284617	protein_coding	KNOWN	CCDS1577	29578	813	270	229456763	229478735	-1	C1orf96	FLJ41471, CSAP
1	CCSAP	ENSG00000154429	ENST00000452552	protein_coding	KNOWN	None	29578	390	129	229463283	229478264	-1	C1orf96	FLJ41471, CSAP
19	ZFP82	ENSG00000181007	ENST00000445543	protein_coding	PUTATIVE	None	28682	148	48	36874022	36896525	-1	ZNF545	MGC45380, KIAA1948
19	ZFP82	ENSG00000181007	ENST00000590993	retained_intron	KNOWN	None	28682	None	None	36881252	36886969	-1	ZNF545	MGC45380, KIAA1948
19	ZFP82	ENSG00000181007	ENST00000392161	protein_coding	KNOWN	CCDS12493	28682	1599	532	36882862	36909558	-1	ZNF545	MGC45380, KIAA1948
19	ZFP82	ENSG00000181007	ENST00000392171	protein_coding	KNOWN	None	28682	1599	532	36883643	36909558	-1	ZNF545	MGC45380, KIAA1948
16	PRR25	ENSG00000167945	ENST00000301698	protein_coding	KNOWN	CCDS45372	37230	1209	402	855443	863861	1	None	gs64
1	ACTA1	ENSG00000143632	ENST00000366684	protein_coding	KNOWN	CCDS1578	129	1134	377	229566992	229569841	-1	ACTA	NEM3
1	ACTA1	ENSG00000143632	ENST00000366683	protein_coding	KNOWN	None	129	870	289	229566996	229569845	-1	ACTA	NEM3
15	ARPP19	ENSG00000128989	ENST00000566423	protein_coding	KNOWN	CCDS32242	16967	339	112	52839242	52861436	-1	None	ARPP-19, ARPP-16, ARPP16, ENSAL
15	ARPP19	ENSG00000128989	ENST00000249822	protein_coding	KNOWN	CCDS32242	16967	339	112	52839441	52861361	-1	None	ARPP-19, ARPP-16, ARPP16, ENSAL
15	ARPP19	ENSG00000128989	ENST00000561650	protein_coding	KNOWN	None	16967	291	96	52841724	52861029	-1	None	ARPP-19, ARPP-16, ARPP16, ENSAL
15	ARPP19	ENSG00000128989	ENST00000568196	protein_coding	KNOWN	None	16967	291	96	52843458	52849941	-1	None	ARPP-19, ARPP-16, ARPP16, ENSAL
15	ARPP19	ENSG00000128989	ENST00000563277	protein_coding	KNOWN	None	16967	291	96	52843564	52861406	-1	None	ARPP-19, ARPP-16, ARPP16, ENSAL
15	ARPP19	ENSG00000128989	ENST00000567669	protein_coding	KNOWN	CCDS32242	16967	339	112	52843791	52861364	-1	None	ARPP-19, ARPP-16, ARPP16, ENSAL
15	ARPP19	ENSG00000128989	ENST00000569723	protein_coding	NOVEL	None	16967	216	71	52843846	52861351	-1	None	ARPP-19, ARPP-16, ARPP16, ENSAL
15	ARPP19	ENSG00000128989	ENST00000569281	protein_coding	KNOWN	CCDS32242	16967	339	112	52843869	52861364	-1	None	ARPP-19, ARPP-16, ARPP16, ENSAL
15	ARPP19	ENSG00000128989	ENST00000564163	protein_coding	NOVEL	None	16967	396	131	52843932	52861212	-1	None	ARPP-19, ARPP-16, ARPP16, ENSAL
15	ARPP19	ENSG00000128989	ENST00000563566	protein_coding	KNOWN	None	16967	291	96	52843966	52861364	-1	None	ARPP-19, ARPP-16, ARPP16, ENSAL
15	ARPP19	ENSG00000128989	ENST00000561971	protein_coding	NOVEL	None	16967	396	131	52844006	52862080	-1	None	ARPP-19, ARPP-16, ARPP16, ENSAL
15	ARPP19	ENSG00000128989	ENST00000565288	processed_transcript	KNOWN	None	16967	None	None	52844117	52849250	-1	None	ARPP-19, ARPP-16, ARPP16, ENSAL
15	ARPP19	ENSG00000128989	ENST00000567830	protein_coding	KNOWN	None	16967	216	71	52844206	52861364	-1	None	ARPP-19, ARPP-16, ARPP16, ENSAL
8	KIF13B	ENSG00000197892	ENST00000524189	protein_coding	KNOWN	CCDS55217	14405	5481	1826	28924796	29120590	-1	None	GAKIN, KIAA0639
8	KIF13B	ENSG00000197892	ENST00000523130	protein_coding	NOVEL	None	14405	1257	418	28928011	28965709	-1	None	GAKIN, KIAA0639
8	KIF13B	ENSG00000197892	ENST00000522355	nonsense_mediated_decay	KNOWN	None	14405	186	61	29003375	29120641	-1	None	GAKIN, KIAA0639
8	KIF13B	ENSG00000197892	ENST00000521515	protein_coding	PUTATIVE	None	14405	2232	743	29003380	29120614	-1	None	GAKIN, KIAA0639
8	KIF13B	ENSG00000197892	ENST00000523968	nonsense_mediated_decay	KNOWN	None	14405	162	53	29007814	29120579	-1	None	GAKIN, KIAA0639
8	KIF13B	ENSG00000197892	ENST00000522846	retained_intron	KNOWN	None	14405	None	None	29046818	29120610	-1	None	GAKIN, KIAA0639
8	KIF13B	ENSG00000197892	ENST00000404075	protein_coding	KNOWN	None	14405	1038	345	28928011	28956720	-1	None	GAKIN, KIAA0639
1	C1orf191	ENSG00000198711	ENST00000361350	protein_coding	KNOWN	None	32328	303	100	54703710	54704736	1	C1orf191	MSTP128
1	MUC1	ENSG00000185499	ENST00000368395	protein_coding	KNOWN	CCDS55640	7508	1428	475	155158300	155162706	-1	PUM	CD227, PEM
1	MUC1	ENSG00000185499	ENST00000462317	processed_transcript	KNOWN	None	7508	None	None	155158303	155160827	-1	PUM	CD227, PEM
1	MUC1	ENSG00000185499	ENST00000485118	processed_transcript	KNOWN	None	7508	None	None	155158306	155160243	-1	PUM	CD227, PEM
1	MUC1	ENSG00000185499	ENST00000368392	protein_coding	NOVEL	CCDS30882	7508	795	264	155158424	155162684	-1	PUM	CD227, PEM
1	MUC1	ENSG00000185499	ENST00000438413	protein_coding	NOVEL	None	7508	690	229	155158424	155162684	-1	PUM	CD227, PEM
1	MUC1	ENSG00000185499	ENST00000462215	processed_transcript	KNOWN	None	7508	None	None	155158424	155162684	-1	PUM	CD227, PEM
1	MUC1	ENSG00000185499	ENST00000368389	protein_coding	NOVEL	None	7508	507	168	155158599	155162658	-1	PUM	CD227, PEM
1	MUC1	ENSG00000185499	ENST00000368396	protein_coding	KNOWN	CCDS41408	7508	480	159	155158599	155162658	-1	PUM	CD227, PEM
1	MUC1	ENSG00000185499	ENST00000343256	protein_coding	KNOWN	CCDS41409	7508	612	203	155158599	155162658	-1	PUM	CD227, PEM
1	MUC1	ENSG00000185499	ENST00000342482	protein_coding	KNOWN	None	7508	501	166	155158599	155162658	-1	PUM	CD227, PEM
1	MUC1	ENSG00000185499	ENST00000498431	processed_transcript	KNOWN	None	7508	None	None	155158599	155162658	-1	PUM	CD227, PEM
1	MUC1	ENSG00000185499	ENST00000467134	processed_transcript	KNOWN	None	7508	None	None	155158599	155162658	-1	PUM	CD227, PEM
1	MUC1	ENSG00000185499	ENST00000471283	processed_transcript	KNOWN	None	7508	None	None	155158599	155162658	-1	PUM	CD227, PEM
1	MUC1	ENSG00000185499	ENST00000368398	protein_coding	KNOWN	CCDS55641	7508	693	230	155158599	155162658	-1	PUM	CD227, PEM
1	MUC1	ENSG00000185499	ENST00000368390	protein_coding	KNOWN	CCDS30883	7508	768	255	155158599	155162658	-1	PUM	CD227, PEM
1	MUC1	ENSG00000185499	ENST00000337604	protein_coding	KNOWN	CCDS1098	7508	822	273	155158599	155162659	-1	PUM	CD227, PEM
1	MUC1	ENSG00000185499	ENST00000468978	processed_transcript	KNOWN	None	7508	None	None	155159184	155160307	-1	PUM	CD227, PEM
1	MUC1	ENSG00000185499	ENST00000494844	processed_transcript	KNOWN	None	7508	None	None	155161654	155162700	-1	PUM	CD227, PEM
1	MUC1	ENSG00000185499	ENST00000466913	processed_transcript	KNOWN	None	7508	None	None	155161993	155162707	-1	PUM	CD227, PEM
1	MUC1	ENSG00000185499	ENST00000338684	protein_coding	KNOWN	None	7508	675	224	155158302	155162700	-1	PUM	CD227, PEM
1	MUC1	ENSG00000185499	ENST00000457295	protein_coding	KNOWN	None	7508	780	259	155158424	155162684	-1	PUM	CD227, PEM
1	MUC1	ENSG00000185499	ENST00000368393	protein_coding	KNOWN	CCDS55642	7508	597	198	155158424	155162684	-1	PUM	CD227, PEM
2	SATB2	ENSG00000119042	ENST00000417098	protein_coding	KNOWN	CCDS2327	21637	2202	733	200134223	200322819	-1	None	KIAA1034, FLJ21474
2	SATB2	ENSG00000119042	ENST00000443023	protein_coding	NOVEL	None	21637	2025	674	200134231	200323468	-1	None	KIAA1034, FLJ21474
2	SATB2	ENSG00000119042	ENST00000260926	protein_coding	KNOWN	CCDS2327	21637	2202	733	200134231	200329831	-1	None	KIAA1034, FLJ21474
2	SATB2	ENSG00000119042	ENST00000428695	protein_coding	NOVEL	None	21637	1848	615	200136698	200320811	-1	None	KIAA1034, FLJ21474
2	SATB2	ENSG00000119042	ENST00000457245	protein_coding	KNOWN	CCDS2327	21637	2202	733	200136873	200335989	-1	None	KIAA1034, FLJ21474
2	SATB2	ENSG00000119042	ENST00000473517	retained_intron	KNOWN	None	21637	None	None	200173583	200193758	-1	None	KIAA1034, FLJ21474
2	SATB2	ENSG00000119042	ENST00000483346	retained_intron	KNOWN	None	21637	None	None	200211589	200233666	-1	None	KIAA1034, FLJ21474
2	SATB2	ENSG00000119042	ENST00000484124	processed_transcript	KNOWN	None	21637	None	None	200233333	200288638	-1	None	KIAA1034, FLJ21474
2	SATB2	ENSG00000119042	ENST00000440919	nonsense_mediated_decay	KNOWN	None	21637	381	126	200260554	200322335	-1	None	KIAA1034, FLJ21474
2	SATB2	ENSG00000119042	ENST00000463386	processed_transcript	PUTATIVE	None	21637	None	None	200320776	200329890	-1	None	KIAA1034, FLJ21474
15	UBL7	ENSG00000138629	ENST00000565494	protein_coding	NOVEL	None	28221	345	114	74738318	74741652	-1	None	BMSC-UbP, MGC14421
15	UBL7	ENSG00000138629	ENST00000566365	protein_coding	NOVEL	None	28221	548	181	74738318	74744719	-1	None	BMSC-UbP, MGC14421
15	UBL7	ENSG00000138629	ENST00000567435	protein_coding	KNOWN	CCDS10263	28221	1143	380	74738318	74753443	-1	None	BMSC-UbP, MGC14421
15	UBL7	ENSG00000138629	ENST00000565335	protein_coding	KNOWN	CCDS10263	28221	1143	380	74738318	74753492	-1	None	BMSC-UbP, MGC14421
15	UBL7	ENSG00000138629	ENST00000395081	protein_coding	KNOWN	CCDS10263	28221	1143	380	74738318	74753519	-1	None	BMSC-UbP, MGC14421
15	UBL7	ENSG00000138629	ENST00000361351	protein_coding	KNOWN	CCDS10263	28221	1143	380	74738318	74753523	-1	None	BMSC-UbP, MGC14421
15	UBL7	ENSG00000138629	ENST00000564488	protein_coding	KNOWN	CCDS10263	28221	1143	380	74738319	74753459	-1	None	BMSC-UbP, MGC14421
15	UBL7	ENSG00000138629	ENST00000565130	protein_coding	NOVEL	None	28221	674	223	74741567	74753466	-1	None	BMSC-UbP, MGC14421
15	UBL7	ENSG00000138629	ENST00000563081	protein_coding	NOVEL	None	28221	487	161	74742369	74753482	-1	None	BMSC-UbP, MGC14421
1	ACOT11	ENSG00000162390	ENST00000481208	processed_transcript	KNOWN	None	18156	None	None	55007930	55075797	1	THEA	STARD14, BFIT, KIAA0707, BFIT1, THEM1
1	ACOT11	ENSG00000162390	ENST00000498228	processed_transcript	KNOWN	None	18156	None	None	55013893	55064531	1	THEA	STARD14, BFIT, KIAA0707, BFIT1, THEM1
1	ACOT11	ENSG00000162390	ENST00000343744	protein_coding	KNOWN	CCDS593	18156	1785	594	55013901	55076000	1	THEA	STARD14, BFIT, KIAA0707, BFIT1, THEM1
1	ACOT11	ENSG00000162390	ENST00000371316	protein_coding	KNOWN	CCDS592	18156	1824	607	55013901	55104865	1	THEA	STARD14, BFIT, KIAA0707, BFIT1, THEM1
1	ACOT11	ENSG00000162390	ENST00000479837	processed_transcript	KNOWN	None	18156	None	None	55062937	55065331	1	THEA	STARD14, BFIT, KIAA0707, BFIT1, THEM1
16	LMF1	ENSG00000103227	ENST00000262301	protein_coding	KNOWN	CCDS45373	14154	1704	567	903634	1020999	-1	C16orf26, TMEM112	FLJ12681, JFP11, FLJ22302, TMEM112A
16	LMF1	ENSG00000103227	ENST00000545827	nonsense_mediated_decay	KNOWN	None	14154	288	95	903638	1031318	-1	C16orf26, TMEM112	FLJ12681, JFP11, FLJ22302, TMEM112A
16	LMF1	ENSG00000103227	ENST00000543238	protein_coding	PUTATIVE	None	14154	993	330	903643	1020960	-1	C16orf26, TMEM112	FLJ12681, JFP11, FLJ22302, TMEM112A
16	LMF1	ENSG00000103227	ENST00000565276	nonsense_mediated_decay	KNOWN	None	14154	450	149	904500	918968	-1	C16orf26, TMEM112	FLJ12681, JFP11, FLJ22302, TMEM112A
16	LMF1	ENSG00000103227	ENST00000569516	retained_intron	KNOWN	None	14154	None	None	904500	923860	-1	C16orf26, TMEM112	FLJ12681, JFP11, FLJ22302, TMEM112A
16	LMF1	ENSG00000103227	ENST00000568897	protein_coding	PUTATIVE	None	14154	1053	350	904512	1020866	-1	C16orf26, TMEM112	FLJ12681, JFP11, FLJ22302, TMEM112A
16	LMF1	ENSG00000103227	ENST00000570168	processed_transcript	KNOWN	None	14154	None	None	919180	920749	-1	C16orf26, TMEM112	FLJ12681, JFP11, FLJ22302, TMEM112A
16	LMF1	ENSG00000103227	ENST00000568268	processed_transcript	KNOWN	None	14154	None	None	920833	937131	-1	C16orf26, TMEM112	FLJ12681, JFP11, FLJ22302, TMEM112A
16	LMF1	ENSG00000103227	ENST00000565198	retained_intron	KNOWN	None	14154	None	None	920874	943252	-1	C16orf26, TMEM112	FLJ12681, JFP11, FLJ22302, TMEM112A
16	LMF1	ENSG00000103227	ENST00000566627	protein_coding	PUTATIVE	None	14154	451	149	921287	997644	-1	C16orf26, TMEM112	FLJ12681, JFP11, FLJ22302, TMEM112A
16	LMF1	ENSG00000103227	ENST00000570014	protein_coding	PUTATIVE	None	14154	595	197	921317	1031297	-1	C16orf26, TMEM112	FLJ12681, JFP11, FLJ22302, TMEM112A
16	LMF1	ENSG00000103227	ENST00000562226	nonsense_mediated_decay	KNOWN	None	14154	555	184	929688	1020982	-1	C16orf26, TMEM112	FLJ12681, JFP11, FLJ22302, TMEM112A
16	LMF1	ENSG00000103227	ENST00000568964	nonsense_mediated_decay	KNOWN	None	14154	505	167	931419	1020963	-1	C16orf26, TMEM112	FLJ12681, JFP11, FLJ22302, TMEM112A
16	LMF1	ENSG00000103227	ENST00000562380	protein_coding	PUTATIVE	None	14154	405	134	960980	1014122	-1	C16orf26, TMEM112	FLJ12681, JFP11, FLJ22302, TMEM112A
16	LMF1	ENSG00000103227	ENST00000567595	nonsense_mediated_decay	KNOWN	None	14154	485	160	961016	1020910	-1	C16orf26, TMEM112	FLJ12681, JFP11, FLJ22302, TMEM112A
16	LMF1	ENSG00000103227	ENST00000566609	processed_transcript	PUTATIVE	None	14154	None	None	1002575	1020982	-1	C16orf26, TMEM112	FLJ12681, JFP11, FLJ22302, TMEM112A
16	LMF1	ENSG00000103227	ENST00000399843	protein_coding	KNOWN	None	14154	1704	567	903638	1020982	-1	C16orf26, TMEM112	FLJ12681, JFP11, FLJ22302, TMEM112A
16	LMF1	ENSG00000103227	ENST00000539379	protein_coding	KNOWN	None	14154	501	166	931419	1020963	-1	C16orf26, TMEM112	FLJ12681, JFP11, FLJ22302, TMEM112A
12	FMNL3	ENSG00000161791	ENST00000335154	protein_coding	KNOWN	CCDS44874	23698	3084	1027	50031724	50101197	-1	None	DKFZp762B245, MGC45819, WBP3
12	FMNL3	ENSG00000161791	ENST00000550668	processed_transcript	KNOWN	None	23698	None	None	50031725	50032926	-1	None	DKFZp762B245, MGC45819, WBP3
12	FMNL3	ENSG00000161791	ENST00000550488	protein_coding	KNOWN	None	23698	3084	1027	50038716	50101003	-1	None	DKFZp762B245, MGC45819, WBP3
12	FMNL3	ENSG00000161791	ENST00000549137	retained_intron	KNOWN	None	23698	None	None	50038736	50046025	-1	None	DKFZp762B245, MGC45819, WBP3
12	FMNL3	ENSG00000161791	ENST00000352151	protein_coding	KNOWN	CCDS41780	23698	2931	976	50038736	50101176	-1	None	DKFZp762B245, MGC45819, WBP3
12	FMNL3	ENSG00000161791	ENST00000550970	retained_intron	KNOWN	None	23698	None	None	50055518	50062337	-1	None	DKFZp762B245, MGC45819, WBP3
12	FMNL3	ENSG00000161791	ENST00000550424	protein_coding	PUTATIVE	None	23698	166	54	50059942	50101948	-1	None	DKFZp762B245, MGC45819, WBP3
12	FMNL3	ENSG00000161791	ENST00000293590	protein_coding	KNOWN	None	23698	3087	1028	50040445	50101197	-1	None	DKFZp762B245, MGC45819, WBP3
2	FTCDNL1	ENSG00000226124	ENST00000416668	protein_coding	PUTATIVE	None	48661	234	77	200625267	200715896	-1	None	FONG
2	FTCDNL1	ENSG00000226124	ENST00000420922	protein_coding	PUTATIVE	None	48661	345	114	200625273	200715596	-1	None	FONG
2	FTCDNL1	ENSG00000226124	ENST00000420128	protein_coding	PUTATIVE	None	48661	417	138	200677235	200715866	-1	None	FONG
1	FAM151A	ENSG00000162391	ENST00000302250	protein_coding	KNOWN	CCDS594	25032	1758	585	55074855	55089229	-1	C1orf179	MGC27169
1	FAM151A	ENSG00000162391	ENST00000371304	protein_coding	KNOWN	None	25032	1197	398	55074855	55089229	-1	C1orf179	MGC27169
1	NUP133	ENSG00000069248	ENST00000261396	protein_coding	KNOWN	CCDS1579	18016	3471	1156	229577045	229644088	-1	None	FLJ10814
1	NUP133	ENSG00000069248	ENST00000366679	protein_coding	PUTATIVE	None	18016	3207	1068	229577050	229644045	-1	None	FLJ10814
1	NUP133	ENSG00000069248	ENST00000490352	processed_transcript	KNOWN	None	18016	None	None	229577526	229586498	-1	None	FLJ10814
1	NUP133	ENSG00000069248	ENST00000485119	processed_transcript	KNOWN	None	18016	None	None	229584519	229586817	-1	None	FLJ10814
1	NUP133	ENSG00000069248	ENST00000366678	protein_coding	KNOWN	None	18016	675	224	229634914	229644073	-1	None	FLJ10814
1	NUP133	ENSG00000069248	ENST00000537506	protein_coding	KNOWN	None	18016	3423	1140	229577643	229644103	-1	None	FLJ10814
2	C2orf69	ENSG00000178074	ENST00000319974	protein_coding	KNOWN	CCDS46482	26799	1158	385	200775979	200792996	1	None	FLJ38973
2	C2orf69	ENSG00000178074	ENST00000491721	processed_transcript	KNOWN	None	26799	None	None	200776029	200820658	1	None	FLJ38973
17	STRA13	ENSG00000169689	ENST00000579520	protein_coding	PUTATIVE	None	11422	199	65	79976578	79981983	-1	None	MGC14480, MHF2, FAAP10
17	STRA13	ENSG00000169689	ENST00000584600	protein_coding	NOVEL	None	11422	228	75	79976579	79980734	-1	None	MGC14480, MHF2, FAAP10
17	STRA13	ENSG00000169689	ENST00000580435	protein_coding	KNOWN	CCDS59302	11422	177	58	79976579	79980768	-1	None	MGC14480, MHF2, FAAP10
17	STRA13	ENSG00000169689	ENST00000306704	protein_coding	KNOWN	CCDS32772	11422	192	63	79976579	79980794	-1	None	MGC14480, MHF2, FAAP10
17	STRA13	ENSG00000169689	ENST00000392359	protein_coding	KNOWN	CCDS59303	11422	246	81	79976579	79980794	-1	None	MGC14480, MHF2, FAAP10
17	STRA13	ENSG00000169689	ENST00000584514	processed_transcript	KNOWN	None	11422	None	None	79976592	79980697	-1	None	MGC14480, MHF2, FAAP10
17	STRA13	ENSG00000169689	ENST00000584347	protein_coding	PUTATIVE	None	11422	396	131	79976677	79980755	-1	None	MGC14480, MHF2, FAAP10
17	STRA13	ENSG00000169689	ENST00000577379	processed_transcript	KNOWN	None	11422	None	None	79976714	79980725	-1	None	MGC14480, MHF2, FAAP10
17	STRA13	ENSG00000169689	ENST00000580090	processed_transcript	KNOWN	None	11422	None	None	79976720	79980749	-1	None	MGC14480, MHF2, FAAP10
17	STRA13	ENSG00000169689	ENST00000583767	processed_transcript	KNOWN	None	11422	None	None	79976742	79980728	-1	None	MGC14480, MHF2, FAAP10
17	STRA13	ENSG00000169689	ENST00000585091	retained_intron	KNOWN	None	11422	None	None	79977033	79980760	-1	None	MGC14480, MHF2, FAAP10
4	NOA1	ENSG00000084092	ENST00000264230	protein_coding	KNOWN	CCDS3510	28473	2097	698	57829536	57844989	-1	C4orf14	MGC3232, hAtNOS1, hNOA1, MTG3
8	MAFA	ENSG00000182759	ENST00000528185	processed_transcript	PUTATIVE	None	23145	None	None	144501352	144512068	-1	None	RIPE3b1, hMafA
8	MAFA	ENSG00000182759	ENST00000333480	protein_coding	KNOWN	CCDS34955	23145	1062	353	144510230	144512576	-1	None	RIPE3b1, hMafA
4	EVC2	ENSG00000173040	ENST00000475313	nonsense_mediated_decay	KNOWN	None	19747	3501	1166	5544499	5711275	-1	None	LBN
4	EVC2	ENSG00000173040	ENST00000310917	protein_coding	KNOWN	CCDS54718	19747	3687	1228	5564166	5711275	-1	None	LBN
4	EVC2	ENSG00000173040	ENST00000344408	protein_coding	KNOWN	CCDS3382	19747	3927	1308	5564166	5710294	-1	None	LBN
4	EVC2	ENSG00000173040	ENST00000509670	nonsense_mediated_decay	KNOWN	None	19747	1359	452	5564516	5710790	-1	None	LBN
4	EVC2	ENSG00000173040	ENST00000344938	protein_coding	KNOWN	None	19747	3741	1246	5544858	5710294	-1	None	LBN
4	DMP1	ENSG00000152592	ENST00000339673	protein_coding	KNOWN	CCDS3623	2932	1542	513	88571459	88585513	1	None	None
4	DMP1	ENSG00000152592	ENST00000282479	protein_coding	KNOWN	CCDS43249	2932	1494	497	88571459	88585513	1	None	None
11	MTA2	ENSG00000149480	ENST00000278823	protein_coding	KNOWN	CCDS8022	7411	2007	668	62360686	62369312	-1	MTA1L1	MTA1-L1
11	MTA2	ENSG00000149480	ENST00000524902	protein_coding	PUTATIVE	None	7411	1488	495	62360687	62366789	-1	MTA1L1	MTA1-L1
11	MTA2	ENSG00000149480	ENST00000527204	protein_coding	PUTATIVE	None	7411	1488	495	62361314	62368747	-1	MTA1L1	MTA1-L1
11	MTA2	ENSG00000149480	ENST00000531179	retained_intron	KNOWN	None	7411	None	None	62363220	62364133	-1	MTA1L1	MTA1-L1
11	MTA2	ENSG00000149480	ENST00000531261	retained_intron	KNOWN	None	7411	None	None	62364238	62365601	-1	MTA1L1	MTA1-L1
11	MTA2	ENSG00000149480	ENST00000526844	retained_intron	KNOWN	None	7411	None	None	62365581	62368959	-1	MTA1L1	MTA1-L1
11	MTA2	ENSG00000149480	ENST00000532239	retained_intron	KNOWN	None	7411	None	None	62365761	62367818	-1	MTA1L1	MTA1-L1
14	NEK9	ENSG00000119638	ENST00000238616	protein_coding	KNOWN	CCDS9839	18591	2940	979	75548822	75593783	-1	None	Nek8, NERCC, DKFZp434D0935, MGC16714
14	NEK9	ENSG00000119638	ENST00000555405	retained_intron	KNOWN	None	18591	None	None	75548824	75558388	-1	None	Nek8, NERCC, DKFZp434D0935, MGC16714
14	NEK9	ENSG00000119638	ENST00000557026	retained_intron	KNOWN	None	18591	None	None	75548824	75583948	-1	None	Nek8, NERCC, DKFZp434D0935, MGC16714
14	NEK9	ENSG00000119638	ENST00000555763	processed_transcript	PUTATIVE	None	18591	None	None	75550790	75551798	-1	None	Nek8, NERCC, DKFZp434D0935, MGC16714
14	NEK9	ENSG00000119638	ENST00000556170	retained_intron	KNOWN	None	18591	None	None	75553132	75593748	-1	None	Nek8, NERCC, DKFZp434D0935, MGC16714
14	NEK9	ENSG00000119638	ENST00000555537	retained_intron	KNOWN	None	18591	None	None	75563373	75567768	-1	None	Nek8, NERCC, DKFZp434D0935, MGC16714
14	NEK9	ENSG00000119638	ENST00000554258	nonsense_mediated_decay	KNOWN	None	18591	315	104	75583916	75593636	-1	None	Nek8, NERCC, DKFZp434D0935, MGC16714
14	NEK9	ENSG00000119638	ENST00000557673	protein_coding	PUTATIVE	None	18591	386	127	75583920	75593743	-1	None	Nek8, NERCC, DKFZp434D0935, MGC16714
14	NEK9	ENSG00000119638	ENST00000555961	retained_intron	KNOWN	None	18591	None	None	75585572	75587433	-1	None	Nek8, NERCC, DKFZp434D0935, MGC16714
14	NEK9	ENSG00000119638	ENST00000553823	protein_coding	PUTATIVE	None	18591	219	72	75585590	75594047	-1	None	Nek8, NERCC, DKFZp434D0935, MGC16714
14	NEK9	ENSG00000119638	ENST00000553945	nonsense_mediated_decay	KNOWN	None	18591	117	38	75587219	75593756	-1	None	Nek8, NERCC, DKFZp434D0935, MGC16714
X	WDR13	ENSG00000101940	ENST00000470124	processed_transcript	KNOWN	None	14352	None	None	48448430	48457215	1	None	None
X	WDR13	ENSG00000101940	ENST00000376729	protein_coding	KNOWN	CCDS14302	14352	1458	485	48455866	48463577	1	None	None
X	WDR13	ENSG00000101940	ENST00000218056	protein_coding	KNOWN	CCDS14302	14352	1458	485	48455880	48463581	1	None	None
X	WDR13	ENSG00000101940	ENST00000497756	processed_transcript	KNOWN	None	14352	None	None	48455893	48458889	1	None	None
X	WDR13	ENSG00000101940	ENST00000498631	processed_transcript	KNOWN	None	14352	None	None	48455895	48458929	1	None	None
X	WDR13	ENSG00000101940	ENST00000471334	processed_transcript	KNOWN	None	14352	None	None	48455901	48458983	1	None	None
X	WDR13	ENSG00000101940	ENST00000486125	processed_transcript	KNOWN	None	14352	None	None	48455903	48458070	1	None	None
X	WDR13	ENSG00000101940	ENST00000472440	processed_transcript	KNOWN	None	14352	None	None	48455909	48456681	1	None	None
X	WDR13	ENSG00000101940	ENST00000492715	processed_transcript	KNOWN	None	14352	None	None	48455922	48458669	1	None	None
X	WDR13	ENSG00000101940	ENST00000479279	processed_transcript	KNOWN	None	14352	None	None	48456197	48463581	1	None	None
X	WDR13	ENSG00000101940	ENST00000466962	processed_transcript	KNOWN	None	14352	None	None	48457108	48458923	1	None	None
X	WDR13	ENSG00000101940	ENST00000495575	processed_transcript	KNOWN	None	14352	None	None	48457952	48459099	1	None	None
X	WDR13	ENSG00000101940	ENST00000482760	processed_transcript	KNOWN	None	14352	None	None	48458970	48463280	1	None	None
X	WDR13	ENSG00000101940	ENST00000492873	processed_transcript	KNOWN	None	14352	None	None	48462580	48463506	1	None	None
2	TYW5	ENSG00000162971	ENST00000354611	protein_coding	KNOWN	CCDS42795	26754	948	315	200794698	200820459	-1	C2orf60	FLJ37953
2	TYW5	ENSG00000162971	ENST00000483328	nonsense_mediated_decay	KNOWN	None	26754	366	121	200794698	200820459	-1	C2orf60	FLJ37953
2	TYW5	ENSG00000162971	ENST00000452512	processed_transcript	KNOWN	None	26754	None	None	200796056	200820223	-1	C2orf60	FLJ37953
2	TYW5	ENSG00000162971	ENST00000441832	nonsense_mediated_decay	KNOWN	None	26754	366	121	200796622	200820226	-1	C2orf60	FLJ37953
2	TYW5	ENSG00000162971	ENST00000493181	retained_intron	KNOWN	None	26754	None	None	200806781	200820225	-1	C2orf60	FLJ37953
8	ZC3H3	ENSG00000014164	ENST00000262577	protein_coding	KNOWN	CCDS6402	28972	2847	948	144519825	144623623	-1	ZC3HDC3	KIAA0150
8	ZC3H3	ENSG00000014164	ENST00000528401	protein_coding	PUTATIVE	None	28972	240	79	144566667	144590010	-1	ZC3HDC3	KIAA0150
17	LRRC45	ENSG00000169683	ENST00000306688	protein_coding	KNOWN	CCDS11797	28302	2013	670	79981178	79989027	1	None	MGC20806
17	LRRC45	ENSG00000169683	ENST00000583383	processed_transcript	KNOWN	None	28302	None	None	79981197	79983301	1	None	MGC20806
17	LRRC45	ENSG00000169683	ENST00000577638	protein_coding	PUTATIVE	None	28302	18	5	79981798	79983316	1	None	MGC20806
17	LRRC45	ENSG00000169683	ENST00000583302	retained_intron	KNOWN	None	28302	None	None	79984682	79987108	1	None	MGC20806
17	LRRC45	ENSG00000169683	ENST00000581227	nonsense_mediated_decay	KNOWN	None	28302	566	187	79984883	79988508	1	None	MGC20806
17	LRRC45	ENSG00000169683	ENST00000582083	retained_intron	KNOWN	None	28302	None	None	79986617	79988022	1	None	MGC20806
3	ALDH1L1	ENSG00000144908	ENST00000273450	protein_coding	NOVEL	CCDS58851	3978	2739	912	125822412	125900029	-1	FTHFD	10-fTHF
3	ALDH1L1	ENSG00000144908	ENST00000472186	protein_coding	KNOWN	CCDS3034	3978	2709	902	125822414	125898762	-1	FTHFD	10-fTHF
3	ALDH1L1	ENSG00000144908	ENST00000467370	retained_intron	KNOWN	None	3978	None	None	125822416	125834345	-1	FTHFD	10-fTHF
3	ALDH1L1	ENSG00000144908	ENST00000452905	protein_coding	NOVEL	CCDS58850	3978	2406	801	125822416	125899429	-1	FTHFD	10-fTHF
3	ALDH1L1	ENSG00000144908	ENST00000393434	protein_coding	KNOWN	CCDS3034	3978	2709	902	125822416	125899645	-1	FTHFD	10-fTHF
3	ALDH1L1	ENSG00000144908	ENST00000462808	retained_intron	KNOWN	None	3978	None	None	125824704	125829131	-1	FTHFD	10-fTHF
3	ALDH1L1	ENSG00000144908	ENST00000476245	retained_intron	KNOWN	None	3978	None	None	125847233	125875526	-1	FTHFD	10-fTHF
3	ALDH1L1	ENSG00000144908	ENST00000473607	nonsense_mediated_decay	KNOWN	None	3978	144	47	125853919	125899372	-1	FTHFD	10-fTHF
3	ALDH1L1	ENSG00000144908	ENST00000413612	processed_transcript	KNOWN	None	3978	None	None	125865699	125875555	-1	FTHFD	10-fTHF
3	ALDH1L1	ENSG00000144908	ENST00000484724	retained_intron	KNOWN	None	3978	None	None	125869949	125877332	-1	FTHFD	10-fTHF
3	ALDH1L1	ENSG00000144908	ENST00000493803	nonsense_mediated_decay	KNOWN	None	3978	246	81	125872034	125899429	-1	FTHFD	10-fTHF
3	ALDH1L1	ENSG00000144908	ENST00000490367	protein_coding	KNOWN	None	3978	533	176	125874342	125900369	-1	FTHFD	10-fTHF
3	ALDH1L1	ENSG00000144908	ENST00000460368	protein_coding	KNOWN	None	3978	506	167	125876208	125899645	-1	FTHFD	10-fTHF
3	ALDH1L1	ENSG00000144908	ENST00000488356	protein_coding	KNOWN	None	3978	471	156	125876243	125899837	-1	FTHFD	10-fTHF
3	ALDH1L1	ENSG00000144908	ENST00000509952	protein_coding	KNOWN	None	3978	300	99	125877310	125916837	-1	FTHFD	10-fTHF
3	ALDH1L1	ENSG00000144908	ENST00000511283	nonsense_mediated_decay	KNOWN	None	3978	144	47	125877441	125916784	-1	FTHFD	10-fTHF
3	ALDH1L1	ENSG00000144908	ENST00000393431	protein_coding	KNOWN	None	3978	1518	505	125822418	125899418	-1	FTHFD	10-fTHF
3	ALDH1L1	ENSG00000144908	ENST00000455064	protein_coding	KNOWN	None	3978	483	160	125872034	125899429	-1	FTHFD	10-fTHF
1	ABCB10	ENSG00000135776	ENST00000344517	protein_coding	KNOWN	CCDS1580	41	2217	738	229652329	229694442	-1	None	EST20237, M-ABC2, MTABC2
1	ABCB10	ENSG00000135776	ENST00000498158	processed_transcript	KNOWN	None	41	None	None	229653544	229654850	-1	None	EST20237, M-ABC2, MTABC2
1	ABCB10	ENSG00000135776	ENST00000486755	processed_transcript	KNOWN	None	41	None	None	229661809	229667649	-1	None	EST20237, M-ABC2, MTABC2
15	RASGRP1	ENSG00000172575	ENST00000310803	protein_coding	KNOWN	CCDS45222	9878	2394	797	38780304	38857007	-1	None	CalDAG-GEFII, RASGRP
15	RASGRP1	ENSG00000172575	ENST00000558432	protein_coding	PUTATIVE	None	9878	2436	811	38782296	38852283	-1	None	CalDAG-GEFII, RASGRP
15	RASGRP1	ENSG00000172575	ENST00000561180	protein_coding	PUTATIVE	None	9878	2547	848	38782681	38857776	-1	None	CalDAG-GEFII, RASGRP
15	RASGRP1	ENSG00000172575	ENST00000450598	protein_coding	KNOWN	CCDS45221	9878	2289	762	38782755	38856836	-1	None	CalDAG-GEFII, RASGRP
15	RASGRP1	ENSG00000172575	ENST00000559830	protein_coding	KNOWN	None	9878	1794	597	38782755	38856836	-1	None	CalDAG-GEFII, RASGRP
15	RASGRP1	ENSG00000172575	ENST00000414708	nonsense_mediated_decay	KNOWN	None	9878	1446	481	38782755	38856836	-1	None	CalDAG-GEFII, RASGRP
15	RASGRP1	ENSG00000172575	ENST00000558164	protein_coding	KNOWN	None	9878	1641	546	38782755	38856836	-1	None	CalDAG-GEFII, RASGRP
15	RASGRP1	ENSG00000172575	ENST00000557875	nonsense_mediated_decay	KNOWN	None	9878	372	123	38786653	38793391	-1	None	CalDAG-GEFII, RASGRP
15	RASGRP1	ENSG00000172575	ENST00000560425	nonsense_mediated_decay	KNOWN	None	9878	654	217	38791117	38803906	-1	None	CalDAG-GEFII, RASGRP
15	RASGRP1	ENSG00000172575	ENST00000558418	protein_coding	PUTATIVE	None	9878	288	95	38810582	38852480	-1	None	CalDAG-GEFII, RASGRP
15	RASGRP1	ENSG00000172575	ENST00000561117	protein_coding	PUTATIVE	None	9878	172	56	38818510	38857440	-1	None	CalDAG-GEFII, RASGRP
15	RASGRP1	ENSG00000172575	ENST00000560929	protein_coding	PUTATIVE	None	9878	97	31	38818585	38857370	-1	None	CalDAG-GEFII, RASGRP
15	RASGRP1	ENSG00000172575	ENST00000539159	protein_coding	KNOWN	None	9878	2250	749	38782681	38857643	-1	None	CalDAG-GEFII, RASGRP
8	NIPAL2	ENSG00000104361	ENST00000430223	protein_coding	NOVEL	None	25854	1152	383	99202061	99306564	-1	NPAL2	FLJ13955
8	NIPAL2	ENSG00000104361	ENST00000341166	protein_coding	KNOWN	CCDS6278	25854	1107	368	99202061	99306621	-1	NPAL2	FLJ13955
8	NIPAL2	ENSG00000104361	ENST00000520545	processed_transcript	KNOWN	None	25854	None	None	99204986	99263982	-1	NPAL2	FLJ13955
8	NIPAL2	ENSG00000104361	ENST00000521820	retained_intron	KNOWN	None	25854	None	None	99207919	99217404	-1	NPAL2	FLJ13955
8	NIPAL2	ENSG00000104361	ENST00000522188	processed_transcript	KNOWN	None	25854	None	None	99229253	99266296	-1	NPAL2	FLJ13955
8	NIPAL2	ENSG00000104361	ENST00000520735	processed_transcript	KNOWN	None	25854	None	None	99229431	99264829	-1	NPAL2	FLJ13955
8	NIPAL2	ENSG00000104361	ENST00000521949	processed_transcript	KNOWN	None	25854	None	None	99244009	99248459	-1	NPAL2	FLJ13955
8	NIPAL2	ENSG00000104361	ENST00000519324	retained_intron	KNOWN	None	25854	None	None	99264425	99306338	-1	NPAL2	FLJ13955
7	SBDS	ENSG00000126524	ENST00000246868	protein_coding	KNOWN	CCDS5537	19440	753	250	66452664	66460588	-1	None	CGI-97, FLJ10917, SDS, SWDS
7	SBDS	ENSG00000126524	ENST00000414306	nonsense_mediated_decay	KNOWN	None	19440	261	86	66452731	66460563	-1	None	CGI-97, FLJ10917, SDS, SWDS
7	SBDS	ENSG00000126524	ENST00000490953	retained_intron	KNOWN	None	19440	None	None	66456048	66460553	-1	None	CGI-97, FLJ10917, SDS, SWDS
7	SBDS	ENSG00000126524	ENST00000463579	retained_intron	KNOWN	None	19440	None	None	66456124	66459353	-1	None	CGI-97, FLJ10917, SDS, SWDS
17	RAC3	ENSG00000169750	ENST00000306897	protein_coding	KNOWN	CCDS11798	9803	579	192	79989500	79992078	1	None	None
17	RAC3	ENSG00000169750	ENST00000580965	protein_coding	PUTATIVE	None	9803	408	135	79989937	79991666	1	None	None
17	RAC3	ENSG00000169750	ENST00000584341	protein_coding	PUTATIVE	None	9803	390	129	79990060	79991648	1	None	None
17	RAC3	ENSG00000169750	ENST00000585014	retained_intron	KNOWN	None	9803	None	None	79990754	79992080	1	None	None
1	THBS3	ENSG00000169231	ENST00000498500	processed_transcript	KNOWN	None	11787	None	None	155165379	155166233	-1	None	None
1	THBS3	ENSG00000169231	ENST00000487250	processed_transcript	KNOWN	None	11787	None	None	155165379	155177686	-1	None	None
1	THBS3	ENSG00000169231	ENST00000368378	protein_coding	KNOWN	CCDS1099	11787	2871	956	155165379	155177688	-1	None	None
1	THBS3	ENSG00000169231	ENST00000469769	processed_transcript	KNOWN	None	11787	None	None	155165636	155167413	-1	None	None
1	THBS3	ENSG00000169231	ENST00000465596	processed_transcript	KNOWN	None	11787	None	None	155167862	155169840	-1	None	None
1	THBS3	ENSG00000169231	ENST00000486260	processed_transcript	KNOWN	None	11787	None	None	155170247	155178842	-1	None	None
1	THBS3	ENSG00000169231	ENST00000496332	processed_transcript	KNOWN	None	11787	None	None	155170408	155172045	-1	None	None
1	THBS3	ENSG00000169231	ENST00000460050	processed_transcript	KNOWN	None	11787	None	None	155170690	155173096	-1	None	None
1	THBS3	ENSG00000169231	ENST00000457183	protein_coding	KNOWN	CCDS58034	11787	2511	836	155165457	155177708	-1	None	None
1	THBS3	ENSG00000169231	ENST00000541990	protein_coding	KNOWN	None	11787	1458	485	155165582	155177690	-1	None	None
1	THBS3	ENSG00000169231	ENST00000541576	protein_coding	KNOWN	None	11787	1062	353	155165380	155171789	-1	None	None
1	THBS3	ENSG00000169231	ENST00000428962	protein_coding	KNOWN	None	11787	1203	400	155167688	155177690	-1	None	None
19	ZNF566	ENSG00000186017	ENST00000587567	protein_coding	PUTATIVE	None	25919	234	77	36936021	36940457	-1	None	FLJ14779, MGC12515
19	ZNF566	ENSG00000186017	ENST00000493391	protein_coding	PUTATIVE	None	25919	945	314	36937923	36980763	-1	None	FLJ14779, MGC12515
19	ZNF566	ENSG00000186017	ENST00000392170	protein_coding	KNOWN	CCDS46061	25919	1260	419	36938531	36980463	-1	None	FLJ14779, MGC12515
19	ZNF566	ENSG00000186017	ENST00000424129	protein_coding	KNOWN	CCDS12494	25919	1257	418	36938584	36980408	-1	None	FLJ14779, MGC12515
19	ZNF566	ENSG00000186017	ENST00000452939	protein_coding	KNOWN	None	25919	701	232	36940435	36980420	-1	None	FLJ14779, MGC12515
19	ZNF566	ENSG00000186017	ENST00000427002	protein_coding	KNOWN	None	25919	473	156	36940666	36980439	-1	None	FLJ14779, MGC12515
19	ZNF566	ENSG00000186017	ENST00000472909	processed_transcript	KNOWN	None	25919	None	None	36947362	36980804	-1	None	FLJ14779, MGC12515
19	ZNF566	ENSG00000186017	ENST00000460937	retained_intron	KNOWN	None	25919	None	None	36963893	36980421	-1	None	FLJ14779, MGC12515
19	ZNF566	ENSG00000186017	ENST00000480361	retained_intron	KNOWN	None	25919	None	None	36964043	36980463	-1	None	FLJ14779, MGC12515
19	ZNF566	ENSG00000186017	ENST00000494354	retained_intron	KNOWN	None	25919	None	None	36967011	36980804	-1	None	FLJ14779, MGC12515
19	ZNF566	ENSG00000186017	ENST00000454319	protein_coding	KNOWN	CCDS46061	25919	1260	419	36936021	36980463	-1	None	FLJ14779, MGC12515
19	ZNF566	ENSG00000186017	ENST00000434377	protein_coding	KNOWN	CCDS12494	25919	1257	418	36936021	36980337	-1	None	FLJ14779, MGC12515
2	C2orf47	ENSG00000162972	ENST00000392290	protein_coding	KNOWN	CCDS2329	26198	876	291	200820326	200828848	1	None	DKFZp666A212, FLJ22555
2	C2orf47	ENSG00000162972	ENST00000435773	protein_coding	PUTATIVE	None	26198	677	224	200820544	200873263	1	None	DKFZp666A212, FLJ22555
2	C2orf47	ENSG00000162972	ENST00000469156	processed_transcript	PUTATIVE	None	26198	None	None	200823989	200828559	1	None	DKFZp666A212, FLJ22555
2	C2orf47	ENSG00000162972	ENST00000295079	protein_coding	KNOWN	CCDS2329	26198	876	291	200820040	200828831	1	None	DKFZp666A212, FLJ22555
6	C6orf183	ENSG00000243587	ENST00000417143	polymorphic_pseudogene	KNOWN	None	21562	1875	624	109487036	109560593	1	None	bA487F23.3
6	C6orf183	ENSG00000243587	ENST00000453496	processed_transcript	KNOWN	None	21562	None	None	109557817	109592217	1	None	bA487F23.3
1	TAF5L	ENSG00000135801	ENST00000366676	protein_coding	KNOWN	CCDS1581	17304	1770	589	229728858	229750229	-1	None	PAF65B
1	TAF5L	ENSG00000135801	ENST00000366675	protein_coding	KNOWN	CCDS31051	17304	978	325	229734941	229761717	-1	None	PAF65B
1	TAF5L	ENSG00000135801	ENST00000477957	processed_transcript	KNOWN	None	17304	None	None	229742581	229761785	-1	None	PAF65B
1	TAF5L	ENSG00000135801	ENST00000366674	protein_coding	KNOWN	None	17304	255	84	229749904	229761794	-1	None	PAF65B
1	TAF5L	ENSG00000135801	ENST00000258281	protein_coding	KNOWN	CCDS1581	17304	1770	589	229728868	229761794	-1	None	PAF65B
5	ZNF354A	ENSG00000169131	ENST00000335815	protein_coding	KNOWN	CCDS4438	11628	1818	605	178138593	178157703	-1	TCF17	KID-1, EZNF, HKL1, KID1
5	ZNF354A	ENSG00000169131	ENST00000520331	protein_coding	KNOWN	None	11628	405	134	178140474	178156384	-1	TCF17	KID-1, EZNF, HKL1, KID1
5	ZNF354A	ENSG00000169131	ENST00000518048	nonsense_mediated_decay	KNOWN	None	11628	201	66	178152377	178157660	-1	TCF17	KID-1, EZNF, HKL1, KID1
15	IQGAP1	ENSG00000140575	ENST00000268182	protein_coding	KNOWN	CCDS10362	6110	4974	1657	90931450	91045475	1	None	p195, KIAA0051, SAR1, HUMORFA01
15	IQGAP1	ENSG00000140575	ENST00000560738	protein_coding	NOVEL	None	6110	3258	1085	90931493	91043603	1	None	p195, KIAA0051, SAR1, HUMORFA01
15	IQGAP1	ENSG00000140575	ENST00000560418	protein_coding	PUTATIVE	None	6110	130	42	90931509	90983760	1	None	p195, KIAA0051, SAR1, HUMORFA01
15	IQGAP1	ENSG00000140575	ENST00000559809	retained_intron	KNOWN	None	6110	None	None	90931587	90934483	1	None	p195, KIAA0051, SAR1, HUMORFA01
15	IQGAP1	ENSG00000140575	ENST00000559682	retained_intron	KNOWN	None	6110	None	None	90969384	90973081	1	None	p195, KIAA0051, SAR1, HUMORFA01
15	IQGAP1	ENSG00000140575	ENST00000560373	retained_intron	KNOWN	None	6110	None	None	91010714	91016310	1	None	p195, KIAA0051, SAR1, HUMORFA01
15	IQGAP1	ENSG00000140575	ENST00000558003	retained_intron	KNOWN	None	6110	None	None	91016780	91017471	1	None	p195, KIAA0051, SAR1, HUMORFA01
15	IQGAP1	ENSG00000140575	ENST00000560733	retained_intron	KNOWN	None	6110	None	None	91017554	91020335	1	None	p195, KIAA0051, SAR1, HUMORFA01
15	IQGAP1	ENSG00000140575	ENST00000560020	processed_transcript	KNOWN	None	6110	None	None	91017716	91018986	1	None	p195, KIAA0051, SAR1, HUMORFA01
15	IQGAP1	ENSG00000140575	ENST00000560218	retained_intron	KNOWN	None	6110	None	None	91026437	91029283	1	None	p195, KIAA0051, SAR1, HUMORFA01
15	IQGAP1	ENSG00000140575	ENST00000558491	retained_intron	KNOWN	None	6110	None	None	91027477	91029790	1	None	p195, KIAA0051, SAR1, HUMORFA01
15	IQGAP1	ENSG00000140575	ENST00000561132	retained_intron	KNOWN	None	6110	None	None	91029327	91034903	1	None	p195, KIAA0051, SAR1, HUMORFA01
15	IQGAP1	ENSG00000140575	ENST00000561461	retained_intron	KNOWN	None	6110	None	None	91029975	91035848	1	None	p195, KIAA0051, SAR1, HUMORFA01
15	IQGAP1	ENSG00000140575	ENST00000559031	retained_intron	KNOWN	None	6110	None	None	91030115	91034852	1	None	p195, KIAA0051, SAR1, HUMORFA01
15	IQGAP1	ENSG00000140575	ENST00000559674	retained_intron	KNOWN	None	6110	None	None	91030701	91038000	1	None	p195, KIAA0051, SAR1, HUMORFA01
15	IQGAP1	ENSG00000140575	ENST00000558957	retained_intron	KNOWN	None	6110	None	None	91037259	91044621	1	None	p195, KIAA0051, SAR1, HUMORFA01
15	IQGAP1	ENSG00000140575	ENST00000561086	retained_intron	KNOWN	None	6110	None	None	91039946	91045470	1	None	p195, KIAA0051, SAR1, HUMORFA01
X	USP26	ENSG00000134588	ENST00000370832	protein_coding	KNOWN	CCDS14635	13485	2742	913	132158659	132162300	-1	None	None
X	USP26	ENSG00000134588	ENST00000511190	protein_coding	KNOWN	CCDS14635	13485	2742	913	132159054	132231135	-1	None	None
X	USP26	ENSG00000134588	ENST00000417459	processed_transcript	KNOWN	None	13485	None	None	132179891	132231137	-1	None	None
X	USP26	ENSG00000134588	ENST00000406273	protein_coding	KNOWN	CCDS14635	13485	2742	913	132159054	132217805	-1	None	None
10	MMS19	ENSG00000155229	ENST00000444411	protein_coding	PUTATIVE	None	13824	272	89	99218081	99219498	-1	MMS19L	MET18, hMMS19
10	MMS19	ENSG00000155229	ENST00000495415	retained_intron	KNOWN	None	13824	None	None	99218081	99223739	-1	MMS19L	MET18, hMMS19
10	MMS19	ENSG00000155229	ENST00000434538	protein_coding	NOVEL	None	13824	1796	597	99218081	99227282	-1	MMS19L	MET18, hMMS19
10	MMS19	ENSG00000155229	ENST00000415383	nonsense_mediated_decay	KNOWN	None	13824	123	40	99218081	99258145	-1	MMS19L	MET18, hMMS19
10	MMS19	ENSG00000155229	ENST00000438925	protein_coding	KNOWN	CCDS7464	13824	3093	1030	99218081	99258477	-1	MMS19L	MET18, hMMS19
10	MMS19	ENSG00000155229	ENST00000370782	protein_coding	KNOWN	CCDS7464	13824	3093	1030	99218081	99258515	-1	MMS19L	MET18, hMMS19
10	MMS19	ENSG00000155229	ENST00000485400	retained_intron	KNOWN	None	13824	None	None	99218083	99220076	-1	MMS19L	MET18, hMMS19
10	MMS19	ENSG00000155229	ENST00000327238	protein_coding	KNOWN	None	13824	2799	932	99218083	99258141	-1	MMS19L	MET18, hMMS19
10	MMS19	ENSG00000155229	ENST00000480108	retained_intron	KNOWN	None	13824	None	None	99219830	99221123	-1	MMS19L	MET18, hMMS19
10	MMS19	ENSG00000155229	ENST00000478452	retained_intron	KNOWN	None	13824	None	None	99221346	99222763	-1	MMS19L	MET18, hMMS19
10	MMS19	ENSG00000155229	ENST00000434392	nonsense_mediated_decay	KNOWN	None	13824	450	149	99225622	99229897	-1	MMS19L	MET18, hMMS19
10	MMS19	ENSG00000155229	ENST00000437002	protein_coding	PUTATIVE	None	13824	907	301	99228852	99258167	-1	MMS19L	MET18, hMMS19
10	MMS19	ENSG00000155229	ENST00000441194	nonsense_mediated_decay	KNOWN	None	13824	123	40	99229410	99258189	-1	MMS19L	MET18, hMMS19
10	MMS19	ENSG00000155229	ENST00000483626	processed_transcript	KNOWN	None	13824	None	None	99229430	99258551	-1	MMS19L	MET18, hMMS19
10	MMS19	ENSG00000155229	ENST00000422685	protein_coding	PUTATIVE	None	13824	832	276	99230588	99258186	-1	MMS19L	MET18, hMMS19
10	MMS19	ENSG00000155229	ENST00000448660	nonsense_mediated_decay	KNOWN	None	13824	297	98	99236440	99258186	-1	MMS19L	MET18, hMMS19
10	MMS19	ENSG00000155229	ENST00000439048	nonsense_mediated_decay	KNOWN	None	13824	522	173	99236486	99258156	-1	MMS19L	MET18, hMMS19
10	MMS19	ENSG00000155229	ENST00000477575	retained_intron	KNOWN	None	13824	None	None	99236674	99258204	-1	MMS19L	MET18, hMMS19
10	MMS19	ENSG00000155229	ENST00000355839	protein_coding	KNOWN	None	13824	2964	987	99218258	99258160	-1	MMS19L	MET18, hMMS19
10	MMS19	ENSG00000155229	ENST00000327277	protein_coding	KNOWN	None	13824	1128	375	99218083	99258151	-1	MMS19L	MET18, hMMS19
12	TPH2	ENSG00000139287	ENST00000333850	protein_coding	KNOWN	CCDS31859	20692	1473	490	72332626	72426221	1	None	NTPH, FLJ37295
12	TPH2	ENSG00000139287	ENST00000546576	processed_transcript	KNOWN	None	20692	None	None	72332757	72359270	1	None	NTPH, FLJ37295
12	TPH2	ENSG00000139287	ENST00000550403	processed_transcript	KNOWN	None	20692	None	None	72425052	72534222	1	None	NTPH, FLJ37295
12	TPH2	ENSG00000139287	ENST00000547348	processed_transcript	KNOWN	None	20692	None	None	72425072	72580398	1	None	NTPH, FLJ37295
12	TPH2	ENSG00000139287	ENST00000551074	processed_transcript	KNOWN	None	20692	None	None	72425079	72541614	1	None	NTPH, FLJ37295
12	TPH2	ENSG00000139287	ENST00000547278	processed_transcript	KNOWN	None	20692	None	None	72425094	72556932	1	None	NTPH, FLJ37295
1	URB2	ENSG00000135763	ENST00000258243	protein_coding	KNOWN	CCDS31052	28967	4575	1524	229761981	229795946	1	KIAA0133	NPA2, NET10
1	URB2	ENSG00000135763	ENST00000434387	protein_coding	KNOWN	None	28967	252	83	229786594	229794873	1	KIAA0133	NPA2, NET10
3	TRAIP	ENSG00000183763	ENST00000331456	protein_coding	KNOWN	CCDS2806	30764	1410	469	49866034	49894000	-1	None	TRIP, RNF206
3	TRAIP	ENSG00000183763	ENST00000491060	retained_intron	KNOWN	None	30764	None	None	49866054	49867207	-1	None	TRIP, RNF206
3	TRAIP	ENSG00000183763	ENST00000473195	nonsense_mediated_decay	KNOWN	None	30764	300	99	49866521	49893982	-1	None	TRIP, RNF206
3	TRAIP	ENSG00000183763	ENST00000469027	protein_coding	NOVEL	None	30764	855	284	49866689	49894007	-1	None	TRIP, RNF206
3	TRAIP	ENSG00000183763	ENST00000475495	retained_intron	KNOWN	None	30764	None	None	49869349	49877985	-1	None	TRIP, RNF206
3	TRAIP	ENSG00000183763	ENST00000482582	protein_coding	PUTATIVE	None	30764	799	265	49877242	49893907	-1	None	TRIP, RNF206
3	TRAIP	ENSG00000183763	ENST00000488860	retained_intron	KNOWN	None	30764	None	None	49879919	49882020	-1	None	TRIP, RNF206
3	TRAIP	ENSG00000183763	ENST00000482243	protein_coding	PUTATIVE	None	30764	466	154	49879929	49893997	-1	None	TRIP, RNF206
3	TRAIP	ENSG00000183763	ENST00000477546	retained_intron	KNOWN	None	30764	None	None	49880578	49893997	-1	None	TRIP, RNF206
3	TRAIP	ENSG00000183763	ENST00000489948	retained_intron	KNOWN	None	30764	None	None	49881149	49893992	-1	None	TRIP, RNF206
3	TRAIP	ENSG00000183763	ENST00000473863	processed_transcript	KNOWN	None	30764	None	None	49881284	49893992	-1	None	TRIP, RNF206
1	MROH7	ENSG00000184313	ENST00000478097	processed_transcript	KNOWN	None	24802	None	None	55107463	55136501	1	C1orf175, HEATR8	FLJ46354
1	MROH7	ENSG00000184313	ENST00000421030	protein_coding	KNOWN	CCDS41342	24802	3972	1323	55107466	55175932	1	C1orf175, HEATR8	FLJ46354
1	MROH7	ENSG00000184313	ENST00000472987	processed_transcript	KNOWN	None	24802	None	None	55107474	55129728	1	C1orf175, HEATR8	FLJ46354
1	MROH7	ENSG00000184313	ENST00000440047	nonsense_mediated_decay	KNOWN	None	24802	2265	754	55107474	55175914	1	C1orf175, HEATR8	FLJ46354
1	MROH7	ENSG00000184313	ENST00000409996	protein_coding	NOVEL	None	24802	2676	891	55107481	55175935	1	C1orf175, HEATR8	FLJ46354
1	MROH7	ENSG00000184313	ENST00000395690	protein_coding	KNOWN	None	24802	3093	1030	55107495	55165896	1	C1orf175, HEATR8	FLJ46354
1	MROH7	ENSG00000184313	ENST00000413188	nonsense_mediated_decay	KNOWN	None	24802	1884	627	55116910	55175939	1	C1orf175, HEATR8	FLJ46354
1	MROH7	ENSG00000184313	ENST00000422659	nonsense_mediated_decay	KNOWN	None	24802	1884	627	55117618	55175933	1	C1orf175, HEATR8	FLJ46354
1	MROH7	ENSG00000184313	ENST00000438846	nonsense_mediated_decay	KNOWN	None	24802	1884	627	55118564	55165896	1	C1orf175, HEATR8	FLJ46354
1	MROH7	ENSG00000184313	ENST00000440217	nonsense_mediated_decay	KNOWN	None	24802	213	70	55119760	55175934	1	C1orf175, HEATR8	FLJ46354
1	MROH7	ENSG00000184313	ENST00000493533	retained_intron	KNOWN	None	24802	None	None	55151938	55161455	1	C1orf175, HEATR8	FLJ46354
1	MROH7	ENSG00000184313	ENST00000371287	retained_intron	KNOWN	None	24802	None	None	55162865	55175939	1	C1orf175, HEATR8	FLJ46354
1	MROH7	ENSG00000184313	ENST00000339553	protein_coding	KNOWN	None	24802	3135	1044	55107473	55165881	1	C1orf175, HEATR8	FLJ46354
1	MROH7	ENSG00000184313	ENST00000545244	protein_coding	KNOWN	None	24802	1623	540	55107466	55166085	1	C1orf175, HEATR8	FLJ46354
1	MROH7	ENSG00000184313	ENST00000454855	protein_coding	KNOWN	None	24802	2526	841	55107481	55175935	1	C1orf175, HEATR8	FLJ46354
15	FAM214A	ENSG00000047346	ENST00000568871	retained_intron	KNOWN	None	25609	None	None	52873514	52877520	-1	KIAA1370	FLJ10980
15	FAM214A	ENSG00000047346	ENST00000261844	protein_coding	KNOWN	CCDS45263	25609	3231	1076	52873518	52970820	-1	KIAA1370	FLJ10980
15	FAM214A	ENSG00000047346	ENST00000534964	nonsense_mediated_decay	KNOWN	None	25609	2892	963	52873518	52970956	-1	KIAA1370	FLJ10980
15	FAM214A	ENSG00000047346	ENST00000546305	protein_coding	PUTATIVE	None	25609	3252	1083	52874050	52944247	-1	KIAA1370	FLJ10980
15	FAM214A	ENSG00000047346	ENST00000568637	protein_coding	NOVEL	None	25609	667	221	52874385	52893361	-1	KIAA1370	FLJ10980
15	FAM214A	ENSG00000047346	ENST00000399202	protein_coding	PUTATIVE	None	25609	2815	937	52876940	52970953	-1	KIAA1370	FLJ10980
15	FAM214A	ENSG00000047346	ENST00000570204	nonsense_mediated_decay	KNOWN	None	25609	138	45	52877102	52897374	-1	KIAA1370	FLJ10980
15	FAM214A	ENSG00000047346	ENST00000566948	retained_intron	KNOWN	None	25609	None	None	52878219	52900793	-1	KIAA1370	FLJ10980
15	FAM214A	ENSG00000047346	ENST00000568668	retained_intron	KNOWN	None	25609	None	None	52885614	52897388	-1	KIAA1370	FLJ10980
15	FAM214A	ENSG00000047346	ENST00000562135	protein_coding	KNOWN	None	25609	427	141	52903430	52970953	-1	KIAA1370	FLJ10980
15	FAM214A	ENSG00000047346	ENST00000566768	protein_coding	KNOWN	None	25609	378	125	52903798	52971569	-1	KIAA1370	FLJ10980
15	FAM214A	ENSG00000047346	ENST00000561490	protein_coding	KNOWN	None	25609	354	117	52903822	53002014	-1	KIAA1370	FLJ10980
15	FAM214A	ENSG00000047346	ENST00000561543	protein_coding	KNOWN	None	25609	285	94	52903891	52971569	-1	KIAA1370	FLJ10980
15	FAM214A	ENSG00000047346	ENST00000568863	protein_coding	KNOWN	None	25609	268	88	52903908	52970418	-1	KIAA1370	FLJ10980
15	FAM214A	ENSG00000047346	ENST00000562351	processed_transcript	PUTATIVE	None	25609	None	None	52950327	52970757	-1	KIAA1370	FLJ10980
14	ZFHX2	ENSG00000136367	ENST00000419474	protein_coding	KNOWN	CCDS55907	20152	7719	2572	23990066	24020858	-1	ZNF409	KIAA1762, KIAA1056, ZFH-5
14	ZFHX2	ENSG00000136367	ENST00000606808	processed_transcript	KNOWN	None	20152	None	None	23990212	23991057	-1	ZNF409	KIAA1762, KIAA1056, ZFH-5
14	ZFHX2	ENSG00000136367	ENST00000412565	protein_coding	KNOWN	None	20152	1084	360	24003451	24025401	-1	ZNF409	KIAA1762, KIAA1056, ZFH-5
14	ZFHX2	ENSG00000136367	ENST00000555334	protein_coding	KNOWN	None	20152	740	245	24003795	24017663	-1	ZNF409	KIAA1762, KIAA1056, ZFH-5
7	TYW1	ENSG00000198874	ENST00000491969	processed_transcript	KNOWN	None	25598	None	None	66460160	66463842	1	RSAFD1	FLJ10900, MGC23001, MGC60291, YPL207W, TYW1A
7	TYW1	ENSG00000198874	ENST00000359626	protein_coding	KNOWN	CCDS5538	25598	2199	732	66461802	66704501	1	RSAFD1	FLJ10900, MGC23001, MGC60291, YPL207W, TYW1A
7	TYW1	ENSG00000198874	ENST00000442959	protein_coding	PUTATIVE	None	25598	404	133	66461807	66482868	1	RSAFD1	FLJ10900, MGC23001, MGC60291, YPL207W, TYW1A
7	TYW1	ENSG00000198874	ENST00000475392	retained_intron	KNOWN	None	25598	None	None	66461832	66474736	1	RSAFD1	FLJ10900, MGC23001, MGC60291, YPL207W, TYW1A
7	TYW1	ENSG00000198874	ENST00000361660	nonsense_mediated_decay	KNOWN	None	25598	1155	384	66461840	66704499	1	RSAFD1	FLJ10900, MGC23001, MGC60291, YPL207W, TYW1A
7	TYW1	ENSG00000198874	ENST00000495971	retained_intron	KNOWN	None	25598	None	None	66532125	66703627	1	RSAFD1	FLJ10900, MGC23001, MGC60291, YPL207W, TYW1A
17	DCXR	ENSG00000169738	ENST00000577532	protein_coding	PUTATIVE	None	18985	531	176	79993012	79994871	-1	None	KIDCR, DCR, SDR20C1
17	DCXR	ENSG00000169738	ENST00000306869	protein_coding	KNOWN	CCDS11799	18985	735	244	79993734	79995608	-1	None	KIDCR, DCR, SDR20C1
17	DCXR	ENSG00000169738	ENST00000579004	protein_coding	NOVEL	None	18985	260	85	79993755	79994288	-1	None	KIDCR, DCR, SDR20C1
17	DCXR	ENSG00000169738	ENST00000579334	retained_intron	KNOWN	None	18985	None	None	79993755	79995557	-1	None	KIDCR, DCR, SDR20C1
17	DCXR	ENSG00000169738	ENST00000580320	retained_intron	KNOWN	None	18985	None	None	79993755	79995574	-1	None	KIDCR, DCR, SDR20C1
17	DCXR	ENSG00000169738	ENST00000577286	retained_intron	KNOWN	None	18985	None	None	79993757	79994511	-1	None	KIDCR, DCR, SDR20C1
17	DCXR	ENSG00000169738	ENST00000579842	retained_intron	KNOWN	None	18985	None	None	79993757	79994863	-1	None	KIDCR, DCR, SDR20C1
17	DCXR	ENSG00000169738	ENST00000580750	retained_intron	KNOWN	None	18985	None	None	79993757	79995573	-1	None	KIDCR, DCR, SDR20C1
17	DCXR	ENSG00000169738	ENST00000578885	retained_intron	KNOWN	None	18985	None	None	79993772	79995557	-1	None	KIDCR, DCR, SDR20C1
17	DCXR	ENSG00000169738	ENST00000582074	retained_intron	KNOWN	None	18985	None	None	79993780	79994804	-1	None	KIDCR, DCR, SDR20C1
17	DCXR	ENSG00000169738	ENST00000581584	protein_coding	PUTATIVE	None	18985	676	224	79993844	79995553	-1	None	KIDCR, DCR, SDR20C1
17	DCXR	ENSG00000169738	ENST00000578273	retained_intron	KNOWN	None	18985	None	None	79993872	79995578	-1	None	KIDCR, DCR, SDR20C1
17	DCXR	ENSG00000169738	ENST00000582900	protein_coding	NOVEL	None	18985	671	222	79993894	79995563	-1	None	KIDCR, DCR, SDR20C1
17	DCXR	ENSG00000169738	ENST00000579821	nonsense_mediated_decay	KNOWN	None	18985	301	99	79993897	79994803	-1	None	KIDCR, DCR, SDR20C1
17	DCXR	ENSG00000169738	ENST00000585085	retained_intron	KNOWN	None	18985	None	None	79994092	79995218	-1	None	KIDCR, DCR, SDR20C1
17	DCXR	ENSG00000169738	ENST00000577996	processed_transcript	PUTATIVE	None	18985	None	None	79994160	79994457	-1	None	KIDCR, DCR, SDR20C1
17	DCXR	ENSG00000169738	ENST00000577712	protein_coding	NOVEL	None	18985	429	142	79994169	79995556	-1	None	KIDCR, DCR, SDR20C1
17	DCXR	ENSG00000169738	ENST00000579155	protein_coding	NOVEL	None	18985	423	140	79994269	79995565	-1	None	KIDCR, DCR, SDR20C1
17	DCXR	ENSG00000169738	ENST00000582613	retained_intron	KNOWN	None	18985	None	None	79994397	79995185	-1	None	KIDCR, DCR, SDR20C1
17	DCXR	ENSG00000169738	ENST00000584318	processed_transcript	KNOWN	None	18985	None	None	79994444	79995106	-1	None	KIDCR, DCR, SDR20C1
17	DCXR	ENSG00000169738	ENST00000585164	retained_intron	KNOWN	None	18985	None	None	79994509	79995585	-1	None	KIDCR, DCR, SDR20C1
1	GALNT2	ENSG00000143641	ENST00000494106	processed_transcript	KNOWN	None	4124	None	None	230193737	230379173	1	None	GalNAc-T2
1	GALNT2	ENSG00000143641	ENST00000366672	protein_coding	KNOWN	CCDS1582	4124	1716	571	230202956	230417870	1	None	GalNAc-T2
1	GALNT2	ENSG00000143641	ENST00000488903	processed_transcript	KNOWN	None	4124	None	None	230203006	230227780	1	None	GalNAc-T2
1	GALNT2	ENSG00000143641	ENST00000485438	processed_transcript	KNOWN	None	4124	None	None	230391104	230417866	1	None	GalNAc-T2
1	GALNT2	ENSG00000143641	ENST00000492568	processed_transcript	KNOWN	None	4124	None	None	230397697	230400718	1	None	GalNAc-T2
1	GALNT2	ENSG00000143641	ENST00000543760	protein_coding	KNOWN	None	4124	1602	533	230193536	230415563	1	None	GalNAc-T2
1	GALNT2	ENSG00000143641	ENST00000541865	protein_coding	KNOWN	None	4124	798	265	230203018	230410279	1	None	GalNAc-T2
14	THTPA	ENSG00000259431	ENST00000404535	protein_coding	KNOWN	CCDS32053	18987	693	230	24025216	24028783	1	None	THTPASE
14	THTPA	ENSG00000259431	ENST00000288014	protein_coding	KNOWN	CCDS32053	18987	693	230	24025231	24029480	1	None	THTPASE
14	THTPA	ENSG00000259431	ENST00000557630	protein_coding	KNOWN	None	18987	368	121	24025345	24026334	1	None	THTPASE
14	THTPA	ENSG00000259431	ENST00000556015	protein_coding	PUTATIVE	CCDS58307	18987	318	105	24025480	24028068	1	None	THTPASE
14	THTPA	ENSG00000259431	ENST00000554970	protein_coding	PUTATIVE	CCDS58306	18987	423	140	24025480	24028107	1	None	THTPASE
14	THTPA	ENSG00000259431	ENST00000554789	protein_coding	PUTATIVE	CCDS58307	18987	318	105	24025503	24028752	1	None	THTPASE
14	THTPA	ENSG00000259431	ENST00000556545	protein_coding	PUTATIVE	None	18987	182	59	24026208	24028206	1	None	THTPASE
16	None	ENSG00000260537	ENST00000565116	nonsense_mediated_decay	KNOWN	None	None	93	30	70333097	70400037	1	None	None
16	None	ENSG00000260537	ENST00000567706	protein_coding	PUTATIVE	None	None	783	260	70333117	70400163	1	None	None
1	MTX1	ENSG00000173171	ENST00000368376	protein_coding	KNOWN	CCDS1100	7504	1401	466	155178490	155183614	1	MTX	MTXN
1	MTX1	ENSG00000173171	ENST00000316721	protein_coding	KNOWN	CCDS1101	7504	1308	435	155178588	155183614	1	MTX	MTXN
1	MTX1	ENSG00000173171	ENST00000424959	protein_coding	KNOWN	None	7504	946	314	155179029	155183447	1	MTX	MTXN
1	MTX1	ENSG00000173171	ENST00000481771	processed_transcript	KNOWN	None	7504	None	None	155179042	155183614	1	MTX	MTXN
1	MTX1	ENSG00000173171	ENST00000495589	processed_transcript	KNOWN	None	7504	None	None	155180639	155183499	1	MTX	MTXN
1	MTX1	ENSG00000173171	ENST00000495492	processed_transcript	KNOWN	None	7504	None	None	155182246	155183530	1	MTX	MTXN
9	GALT	ENSG00000213930	ENST00000605275	retained_intron	KNOWN	None	4135	None	None	34638130	34647143	1	None	None
9	GALT	ENSG00000213930	ENST00000468099	retained_intron	KNOWN	None	4135	None	None	34646630	34647514	1	None	None
9	GALT	ENSG00000213930	ENST00000554550	nonsense_mediated_decay	KNOWN	None	4135	255	84	34646633	34650526	1	None	None
9	GALT	ENSG00000213930	ENST00000473506	nonsense_mediated_decay	KNOWN	None	4135	363	120	34646635	34648891	1	None	None
9	GALT	ENSG00000213930	ENST00000557541	processed_transcript	KNOWN	None	4135	None	None	34646642	34647902	1	None	None
9	GALT	ENSG00000213930	ENST00000554139	retained_intron	KNOWN	None	4135	None	None	34646649	34648378	1	None	None
9	GALT	ENSG00000213930	ENST00000473529	retained_intron	KNOWN	None	4135	None	None	34646655	34648825	1	None	None
9	GALT	ENSG00000213930	ENST00000378842	protein_coding	KNOWN	CCDS6565	4135	1140	379	34646660	34651032	1	None	None
9	GALT	ENSG00000213930	ENST00000472111	retained_intron	KNOWN	None	4135	None	None	34646661	34648483	1	None	None
9	GALT	ENSG00000213930	ENST00000465543	retained_intron	KNOWN	None	4135	None	None	34646665	34648168	1	None	None
9	GALT	ENSG00000213930	ENST00000554897	nonsense_mediated_decay	KNOWN	None	4135	255	84	34646672	34648372	1	None	None
9	GALT	ENSG00000213930	ENST00000554944	retained_intron	KNOWN	None	4135	None	None	34646672	34648386	1	None	None
9	GALT	ENSG00000213930	ENST00000489643	retained_intron	KNOWN	None	4135	None	None	34646672	34650113	1	None	None
9	GALT	ENSG00000213930	ENST00000555020	retained_intron	KNOWN	None	4135	None	None	34646672	34650279	1	None	None
9	GALT	ENSG00000213930	ENST00000554085	nonsense_mediated_decay	KNOWN	None	4135	273	90	34646674	34649019	1	None	None
9	GALT	ENSG00000213930	ENST00000487381	retained_intron	KNOWN	None	4135	None	None	34646676	34648823	1	None	None
9	GALT	ENSG00000213930	ENST00000554638	retained_intron	KNOWN	None	4135	None	None	34646678	34650546	1	None	None
9	GALT	ENSG00000213930	ENST00000555214	retained_intron	KNOWN	None	4135	None	None	34646693	34648634	1	None	None
9	GALT	ENSG00000213930	ENST00000556403	retained_intron	KNOWN	None	4135	None	None	34646770	34647791	1	None	None
9	GALT	ENSG00000213930	ENST00000555086	retained_intron	KNOWN	None	4135	None	None	34646779	34649127	1	None	None
9	GALT	ENSG00000213930	ENST00000554330	retained_intron	KNOWN	None	4135	None	None	34646786	34647846	1	None	None
9	GALT	ENSG00000213930	ENST00000556494	retained_intron	KNOWN	None	4135	None	None	34646803	34648509	1	None	None
9	GALT	ENSG00000213930	ENST00000485531	retained_intron	KNOWN	None	4135	None	None	34646842	34648373	1	None	None
9	GALT	ENSG00000213930	ENST00000557706	retained_intron	KNOWN	None	4135	None	None	34646890	34650559	1	None	None
9	GALT	ENSG00000213930	ENST00000556157	retained_intron	KNOWN	None	4135	None	None	34646897	34647759	1	None	None
9	GALT	ENSG00000213930	ENST00000556244	nonsense_mediated_decay	KNOWN	None	4135	178	58	34647120	34648891	1	None	None
9	GALT	ENSG00000213930	ENST00000555754	retained_intron	KNOWN	None	4135	None	None	34648422	34650585	1	None	None
9	GALT	ENSG00000213930	ENST00000488412	processed_transcript	KNOWN	None	4135	None	None	34648919	34650580	1	None	None
9	GALT	ENSG00000213930	ENST00000450095	protein_coding	KNOWN	CCDS59122	4135	813	270	34646633	34650526	1	None	None
4	IBSP	ENSG00000029559	ENST00000226284	protein_coding	KNOWN	CCDS3624	5341	954	317	88720733	88733074	1	None	BSP, SP-II, BSP-II
17	CCL4L1	ENSG00000205020	ENST00000378350	protein_coding	KNOWN	None	10631	291	96	34538326	34540280	1	SCYA4L, CCL4L	AT744.2, LAG-1
17	CCL4L1	ENSG00000205020	ENST00000389068	protein_coding	KNOWN	None	10631	144	47	34538465	34540280	1	SCYA4L, CCL4L	AT744.2, LAG-1
17	CCL4L1	ENSG00000205020	ENST00000588929	protein_coding	KNOWN	None	10631	264	87	34538465	34540280	1	SCYA4L, CCL4L	AT744.2, LAG-1
17	CCL4L1	ENSG00000205020	ENST00000589079	protein_coding	KNOWN	None	10631	312	103	34538465	34540280	1	SCYA4L, CCL4L	AT744.2, LAG-1
17	CCL4L1	ENSG00000205020	ENST00000589336	protein_coding	KNOWN	None	10631	195	64	34538465	34540280	1	SCYA4L, CCL4L	AT744.2, LAG-1
17	CCL4L1	ENSG00000205020	ENST00000400702	protein_coding	KNOWN	None	10631	207	68	34538465	34540280	1	SCYA4L, CCL4L	AT744.2, LAG-1
17	CCL4L1	ENSG00000205020	ENST00000591167	protein_coding	KNOWN	None	10631	261	86	34538465	34540280	1	SCYA4L, CCL4L	AT744.2, LAG-1
17	CCL4L1	ENSG00000205020	ENST00000586598	protein_coding	PUTATIVE	None	10631	195	64	34538465	34540280	1	SCYA4L, CCL4L	AT744.2, LAG-1
17	CCL4L1	ENSG00000205020	ENST00000591637	protein_coding	KNOWN	None	10631	312	103	34538465	34540280	1	SCYA4L, CCL4L	AT744.2, LAG-1
17	CCL4L1	ENSG00000205020	ENST00000444414	protein_coding	KNOWN	CCDS32627	10631	279	92	34538310	34540048	1	SCYA4L, CCL4L	AT744.2, LAG-1
17	CCL4L1	ENSG00000205020	ENST00000378352	protein_coding	KNOWN	None	10631	279	92	34538468	34539971	1	SCYA4L, CCL4L	AT744.2, LAG-1
17	CCL4L1	ENSG00000205020	ENST00000358756	protein_coding	KNOWN	None	10631	159	52	34538544	34539966	1	SCYA4L, CCL4L	AT744.2, LAG-1
10	None	ENSG00000225119	ENST00000423687	protein_coding	NOVEL	None	None	378	125	38717074	38736820	1	None	None
1	PGBD5	ENSG00000177614	ENST00000391860	protein_coding	KNOWN	None	19405	1230	409	230457392	230561475	-1	None	DKFZp761A0620, FLJ11413
1	PGBD5	ENSG00000177614	ENST00000525115	protein_coding	PUTATIVE	None	19405	1368	455	230458994	230513391	-1	None	DKFZp761A0620, FLJ11413
1	PGBD5	ENSG00000177614	ENST00000530424	processed_transcript	KNOWN	None	19405	None	None	230459288	230472041	-1	None	DKFZp761A0620, FLJ11413
1	PGBD5	ENSG00000177614	ENST00000321327	protein_coding	KNOWN	None	19405	1665	554	230457393	230513367	-1	None	DKFZp761A0620, FLJ11413
10	ZNF33B	ENSG00000196693	ENST00000359467	protein_coding	KNOWN	CCDS7198	13097	2337	778	43084555	43133992	-1	ZNF11B	KOX31, KOX2
8	EFCAB1	ENSG00000034239	ENST00000521002	processed_transcript	KNOWN	None	25678	None	None	49623348	49647793	-1	None	FLJ11767
8	EFCAB1	ENSG00000034239	ENST00000523008	protein_coding	PUTATIVE	None	25678	235	77	49626193	49642348	-1	None	FLJ11767
8	EFCAB1	ENSG00000034239	ENST00000521701	nonsense_mediated_decay	KNOWN	None	25678	165	54	49628783	49647860	-1	None	FLJ11767
8	EFCAB1	ENSG00000034239	ENST00000262103	protein_coding	KNOWN	CCDS6145	25678	636	211	49635967	49647791	-1	None	FLJ11767
8	EFCAB1	ENSG00000034239	ENST00000522254	protein_coding	KNOWN	None	25678	388	128	49636969	49643169	-1	None	FLJ11767
8	EFCAB1	ENSG00000034239	ENST00000523092	protein_coding	KNOWN	CCDS47853	25678	480	159	49637250	49647827	-1	None	FLJ11767
8	EFCAB1	ENSG00000034239	ENST00000519425	retained_intron	KNOWN	None	25678	None	None	49637296	49642684	-1	None	FLJ11767
8	EFCAB1	ENSG00000034239	ENST00000521721	processed_transcript	KNOWN	None	25678	None	None	49642323	49647870	-1	None	FLJ11767
8	EFCAB1	ENSG00000034239	ENST00000433756	protein_coding	KNOWN	CCDS47853	25678	480	159	49627474	49647870	-1	None	FLJ11767
7	UFSP1	ENSG00000176125	ENST00000388761	protein_coding	KNOWN	CCDS34710	33821	429	142	100486346	100487339	-1	None	UFSP
6	CD164	ENSG00000135535	ENST00000415861	retained_intron	KNOWN	None	1632	None	None	109687717	109694072	-1	None	MUC-24, MGC-24
6	CD164	ENSG00000135535	ENST00000413644	protein_coding	KNOWN	CCDS47463	1632	570	189	109687717	109703660	-1	None	MUC-24, MGC-24
6	CD164	ENSG00000135535	ENST00000324953	protein_coding	KNOWN	CCDS47465	1632	537	178	109687721	109703647	-1	None	MUC-24, MGC-24
6	CD164	ENSG00000135535	ENST00000310786	protein_coding	KNOWN	CCDS5073	1632	594	197	109687721	109703647	-1	None	MUC-24, MGC-24
6	CD164	ENSG00000135535	ENST00000275080	protein_coding	KNOWN	CCDS47464	1632	555	184	109687721	109703647	-1	None	MUC-24, MGC-24
6	CD164	ENSG00000135535	ENST00000499860	retained_intron	KNOWN	None	1632	None	None	109688482	109701719	-1	None	MUC-24, MGC-24
6	CD164	ENSG00000135535	ENST00000512821	protein_coding	KNOWN	CCDS47462	1632	474	157	109689024	109703613	-1	None	MUC-24, MGC-24
6	CD164	ENSG00000135535	ENST00000504373	protein_coding	PUTATIVE	None	1632	492	163	109689268	109702903	-1	None	MUC-24, MGC-24
6	CD164	ENSG00000135535	ENST00000506649	processed_transcript	KNOWN	None	1632	None	None	109689887	109703104	-1	None	MUC-24, MGC-24
6	CD164	ENSG00000135535	ENST00000512212	retained_intron	KNOWN	None	1632	None	None	109697090	109703614	-1	None	MUC-24, MGC-24
6	CD164	ENSG00000135535	ENST00000368961	protein_coding	KNOWN	None	1632	498	165	109687719	109703762	-1	None	MUC-24, MGC-24
16	DDX19A	ENSG00000168872	ENST00000302243	protein_coding	KNOWN	CCDS10889	25628	1437	478	70380732	70407286	1	DDX19L	FLJ11126
16	DDX19A	ENSG00000168872	ENST00000562509	processed_transcript	KNOWN	None	25628	None	None	70380764	70395399	1	DDX19L	FLJ11126
16	DDX19A	ENSG00000168872	ENST00000565195	retained_intron	KNOWN	None	25628	None	None	70380774	70389746	1	DDX19L	FLJ11126
16	DDX19A	ENSG00000168872	ENST00000569771	nonsense_mediated_decay	KNOWN	None	25628	390	129	70380786	70407284	1	DDX19L	FLJ11126
16	DDX19A	ENSG00000168872	ENST00000566167	nonsense_mediated_decay	KNOWN	None	25628	144	47	70380799	70395413	1	DDX19L	FLJ11126
16	DDX19A	ENSG00000168872	ENST00000569244	processed_transcript	KNOWN	None	25628	None	None	70380804	70394768	1	DDX19L	FLJ11126
16	DDX19A	ENSG00000168872	ENST00000561574	nonsense_mediated_decay	KNOWN	None	25628	156	51	70380808	70395401	1	DDX19L	FLJ11126
16	DDX19A	ENSG00000168872	ENST00000562649	nonsense_mediated_decay	KNOWN	None	25628	195	64	70380808	70398546	1	DDX19L	FLJ11126
16	DDX19A	ENSG00000168872	ENST00000569319	nonsense_mediated_decay	KNOWN	None	25628	237	78	70380808	70405992	1	DDX19L	FLJ11126
16	DDX19A	ENSG00000168872	ENST00000417604	protein_coding	NOVEL	None	25628	1344	447	70380847	70406200	1	DDX19L	FLJ11126
16	DDX19A	ENSG00000168872	ENST00000567012	retained_intron	KNOWN	None	25628	None	None	70389798	70400697	1	DDX19L	FLJ11126
16	DDX19A	ENSG00000168872	ENST00000575878	protein_coding	NOVEL	None	25628	1190	395	70390764	70406232	1	DDX19L	FLJ11126
16	DDX19A	ENSG00000168872	ENST00000566574	retained_intron	KNOWN	None	25628	None	None	70397204	70407279	1	DDX19L	FLJ11126
16	DDX19A	ENSG00000168872	ENST00000568779	retained_intron	KNOWN	None	25628	None	None	70398034	70400087	1	DDX19L	FLJ11126
16	DDX19A	ENSG00000168872	ENST00000562140	retained_intron	KNOWN	None	25628	None	None	70398446	70406973	1	DDX19L	FLJ11126
16	DDX19A	ENSG00000168872	ENST00000443119	protein_coding	KNOWN	None	25628	1167	388	70390764	70406232	1	DDX19L	FLJ11126
1	None	ENSG00000271723	ENST00000606515	nonsense_mediated_decay	KNOWN	None	None	1884	627	55107459	55207406	1	None	None
1	None	ENSG00000271723	ENST00000425300	nonsense_mediated_decay	KNOWN	None	None	1959	652	55107460	55207981	1	None	None
1	None	ENSG00000271723	ENST00000414150	nonsense_mediated_decay	KNOWN	None	None	4005	1334	55107473	55207904	1	None	None
1	None	ENSG00000271723	ENST00000460155	retained_intron	KNOWN	None	None	None	None	55164969	55207904	1	None	None
8	SNAI2	ENSG00000019549	ENST00000396822	protein_coding	KNOWN	CCDS6146	11094	807	268	49830327	49834299	-1	SLUG	SLUGH1, SNAIL2
8	SNAI2	ENSG00000019549	ENST00000020945	protein_coding	KNOWN	CCDS6146	11094	807	268	49830249	49833988	-1	SLUG	SLUGH1, SNAIL2
2	FBXO41	ENSG00000163013	ENST00000521871	protein_coding	KNOWN	CCDS46337	29409	2628	875	73481818	73511559	-1	None	KIAA1940, Fbx41
2	FBXO41	ENSG00000163013	ENST00000520530	protein_coding	KNOWN	CCDS46337	29409	2628	875	73485734	73511438	-1	None	KIAA1940, Fbx41
2	FBXO41	ENSG00000163013	ENST00000519873	retained_intron	KNOWN	None	29409	None	None	73492611	73493932	-1	None	KIAA1940, Fbx41
2	FBXO41	ENSG00000163013	ENST00000520186	processed_transcript	KNOWN	None	29409	None	None	73498325	73511559	-1	None	KIAA1940, Fbx41
2	FBXO41	ENSG00000163013	ENST00000295133	protein_coding	KNOWN	None	29409	2811	936	73481810	73498043	-1	None	KIAA1940, Fbx41
4	MEPE	ENSG00000152595	ENST00000395102	protein_coding	NOVEL	None	13361	1671	556	88754069	88767940	1	None	None
4	MEPE	ENSG00000152595	ENST00000497649	protein_coding	PUTATIVE	None	13361	1506	501	88754102	88767940	1	None	None
4	MEPE	ENSG00000152595	ENST00000515821	processed_transcript	KNOWN	None	13361	None	None	88754121	88766418	1	None	None
4	MEPE	ENSG00000152595	ENST00000508016	processed_transcript	KNOWN	None	13361	None	None	88754121	88767940	1	None	None
4	MEPE	ENSG00000152595	ENST00000511670	protein_coding	NOVEL	None	13361	291	96	88754129	88766392	1	None	None
4	MEPE	ENSG00000152595	ENST00000361056	protein_coding	KNOWN	CCDS3625	13361	1578	525	88754139	88767966	1	None	None
4	MEPE	ENSG00000152595	ENST00000424957	protein_coding	KNOWN	CCDS3625	13361	1578	525	88742563	88767969	1	None	None
4	MEPE	ENSG00000152595	ENST00000560249	protein_coding	KNOWN	CCDS54776	13361	1239	412	88754121	88767969	1	None	None
4	MEPE	ENSG00000152595	ENST00000540395	protein_coding	KNOWN	CCDS54776	13361	1239	412	88754121	88767969	1	None	None
1	TTC4	ENSG00000243725	ENST00000371281	protein_coding	KNOWN	CCDS596	12394	1164	387	55181495	55208330	1	None	MGC5097, FLJ41930
1	TTC4	ENSG00000243725	ENST00000486621	retained_intron	KNOWN	None	12394	None	None	55181538	55183440	1	None	MGC5097, FLJ41930
1	TTC4	ENSG00000243725	ENST00000371284	processed_transcript	KNOWN	None	12394	None	None	55181541	55207980	1	None	MGC5097, FLJ41930
1	TTC4	ENSG00000243725	ENST00000486091	retained_intron	KNOWN	None	12394	None	None	55202362	55207980	1	None	MGC5097, FLJ41930
1	COG2	ENSG00000135775	ENST00000494371	processed_transcript	KNOWN	None	6546	None	None	230778235	230819174	1	LDLC	None
1	COG2	ENSG00000135775	ENST00000366669	protein_coding	KNOWN	CCDS1584	6546	2217	738	230778238	230829728	1	LDLC	None
1	COG2	ENSG00000135775	ENST00000473671	processed_transcript	KNOWN	None	6546	None	None	230778267	230796619	1	LDLC	None
1	COG2	ENSG00000135775	ENST00000366668	protein_coding	NOVEL	CCDS44329	6546	2214	737	230778313	230829728	1	LDLC	None
1	COG2	ENSG00000135775	ENST00000468893	processed_transcript	KNOWN	None	6546	None	None	230798902	230807341	1	LDLC	None
1	COG2	ENSG00000135775	ENST00000482012	processed_transcript	KNOWN	None	6546	None	None	230820069	230824274	1	LDLC	None
1	COG2	ENSG00000135775	ENST00000490900	processed_transcript	KNOWN	None	6546	None	None	230823736	230826065	1	LDLC	None
1	COG2	ENSG00000135775	ENST00000478710	processed_transcript	KNOWN	None	6546	None	None	230825707	230827565	1	LDLC	None
1	COG2	ENSG00000135775	ENST00000534989	protein_coding	KNOWN	None	6546	2040	679	230778557	230829727	1	LDLC	None
1	COG2	ENSG00000135775	ENST00000535166	protein_coding	KNOWN	None	6546	1869	622	230778251	230829371	1	LDLC	None
1	COG2	ENSG00000135775	ENST00000546013	protein_coding	KNOWN	None	6546	1284	427	230814376	230829200	1	LDLC	None
5	ZNF354B	ENSG00000178338	ENST00000322434	protein_coding	KNOWN	CCDS4439	17197	1839	612	178286954	178312029	1	None	KID2, FLJ25008
5	ZNF354B	ENSG00000178338	ENST00000520377	protein_coding	KNOWN	None	17197	402	133	178287688	178309855	1	None	KID2, FLJ25008
5	ZNF354B	ENSG00000178338	ENST00000522714	processed_transcript	PUTATIVE	None	17197	None	None	178310866	178315123	1	None	KID2, FLJ25008
5	ZNF354B	ENSG00000178338	ENST00000522624	processed_transcript	PUTATIVE	None	17197	None	None	178311168	178315123	1	None	KID2, FLJ25008
2	SPATS2L	ENSG00000196141	ENST00000439084	protein_coding	KNOWN	None	24574	282	93	201170604	201284056	1	None	DNAPTP6
2	SPATS2L	ENSG00000196141	ENST00000409718	protein_coding	KNOWN	CCDS46483	24574	1677	558	201170616	201343253	1	None	DNAPTP6
2	SPATS2L	ENSG00000196141	ENST00000358677	protein_coding	KNOWN	CCDS46483	24574	1677	558	201170709	201343253	1	None	DNAPTP6
2	SPATS2L	ENSG00000196141	ENST00000409988	protein_coding	KNOWN	CCDS46483	24574	1677	558	201170874	201343252	1	None	DNAPTP6
2	SPATS2L	ENSG00000196141	ENST00000409385	protein_coding	PUTATIVE	None	24574	1497	498	201170882	201343252	1	None	DNAPTP6
2	SPATS2L	ENSG00000196141	ENST00000439395	protein_coding	KNOWN	None	24574	346	114	201170999	201284120	1	None	DNAPTP6
2	SPATS2L	ENSG00000196141	ENST00000444012	protein_coding	KNOWN	None	24574	71	22	201171006	201277065	1	None	DNAPTP6
2	SPATS2L	ENSG00000196141	ENST00000451764	protein_coding	KNOWN	CCDS46483	24574	1677	558	201171099	201342825	1	None	DNAPTP6
2	SPATS2L	ENSG00000196141	ENST00000360760	protein_coding	KNOWN	CCDS46484	24574	1470	489	201171247	201343253	1	None	DNAPTP6
2	SPATS2L	ENSG00000196141	ENST00000423749	protein_coding	KNOWN	None	24574	419	138	201171276	201284193	1	None	DNAPTP6
2	SPATS2L	ENSG00000196141	ENST00000428692	protein_coding	KNOWN	None	24574	39	12	201171277	201254006	1	None	DNAPTP6
2	SPATS2L	ENSG00000196141	ENST00000471601	retained_intron	KNOWN	None	24574	None	None	201171277	201255577	1	None	DNAPTP6
2	SPATS2L	ENSG00000196141	ENST00000457757	protein_coding	KNOWN	None	24574	564	187	201171277	201303963	1	None	DNAPTP6
2	SPATS2L	ENSG00000196141	ENST00000453663	protein_coding	PUTATIVE	None	24574	581	192	201171291	201305507	1	None	DNAPTP6
2	SPATS2L	ENSG00000196141	ENST00000409140	protein_coding	KNOWN	CCDS46483	24574	1677	558	201171431	201343253	1	None	DNAPTP6
2	SPATS2L	ENSG00000196141	ENST00000459656	retained_intron	KNOWN	None	24574	None	None	201171441	201255591	1	None	DNAPTP6
2	SPATS2L	ENSG00000196141	ENST00000471533	processed_transcript	KNOWN	None	24574	None	None	201171450	201236914	1	None	DNAPTP6
2	SPATS2L	ENSG00000196141	ENST00000409397	protein_coding	KNOWN	None	24574	797	264	201171595	201334683	1	None	DNAPTP6
2	SPATS2L	ENSG00000196141	ENST00000409151	protein_coding	PUTATIVE	None	24574	1701	566	201215912	201342932	1	None	DNAPTP6
2	SPATS2L	ENSG00000196141	ENST00000421573	protein_coding	KNOWN	None	24574	463	153	201242728	201303862	1	None	DNAPTP6
2	SPATS2L	ENSG00000196141	ENST00000449647	protein_coding	KNOWN	None	24574	521	172	201242960	201305447	1	None	DNAPTP6
2	SPATS2L	ENSG00000196141	ENST00000438761	protein_coding	PUTATIVE	None	24574	714	237	201257800	201332101	1	None	DNAPTP6
2	SPATS2L	ENSG00000196141	ENST00000366118	protein_coding	PUTATIVE	None	24574	353	116	201305372	201326060	1	None	DNAPTP6
2	SPATS2L	ENSG00000196141	ENST00000468832	processed_transcript	KNOWN	None	24574	None	None	201327976	201337770	1	None	DNAPTP6
2	SPATS2L	ENSG00000196141	ENST00000462190	retained_intron	KNOWN	None	24574	None	None	201334463	201342605	1	None	DNAPTP6
2	SPATS2L	ENSG00000196141	ENST00000460095	processed_transcript	KNOWN	None	24574	None	None	201334637	201342869	1	None	DNAPTP6
2	SPATS2L	ENSG00000196141	ENST00000409755	protein_coding	KNOWN	None	24574	1767	588	201173673	201342825	1	None	DNAPTP6
1	GBA	ENSG00000177628	ENST00000368373	protein_coding	KNOWN	CCDS1102	4177	1611	536	155204243	155211025	-1	GLUC	GBA1
1	GBA	ENSG00000177628	ENST00000327247	protein_coding	KNOWN	CCDS1102	4177	1611	536	155204243	155214461	-1	GLUC	GBA1
1	GBA	ENSG00000177628	ENST00000464536	processed_transcript	KNOWN	None	4177	None	None	155204244	155205626	-1	GLUC	GBA1
1	GBA	ENSG00000177628	ENST00000478472	processed_transcript	KNOWN	None	4177	None	None	155204752	155206250	-1	GLUC	GBA1
1	GBA	ENSG00000177628	ENST00000484489	processed_transcript	KNOWN	None	4177	None	None	155204807	155211022	-1	GLUC	GBA1
1	GBA	ENSG00000177628	ENST00000491081	processed_transcript	KNOWN	None	4177	None	None	155205973	155208500	-1	GLUC	GBA1
1	GBA	ENSG00000177628	ENST00000497670	processed_transcript	KNOWN	None	4177	None	None	155206187	155209753	-1	GLUC	GBA1
1	GBA	ENSG00000177628	ENST00000461917	processed_transcript	KNOWN	None	4177	None	None	155207132	155209753	-1	GLUC	GBA1
1	GBA	ENSG00000177628	ENST00000460156	processed_transcript	KNOWN	None	4177	None	None	155207723	155208682	-1	GLUC	GBA1
1	GBA	ENSG00000177628	ENST00000493842	processed_transcript	KNOWN	None	4177	None	None	155208004	155214427	-1	GLUC	GBA1
1	GBA	ENSG00000177628	ENST00000473570	processed_transcript	KNOWN	None	4177	None	None	155208355	155214413	-1	GLUC	GBA1
1	GBA	ENSG00000177628	ENST00000467918	processed_transcript	KNOWN	None	4177	None	None	155209426	155214397	-1	GLUC	GBA1
1	GBA	ENSG00000177628	ENST00000470104	processed_transcript	KNOWN	None	4177	None	None	155209751	155211034	-1	GLUC	GBA1
1	GBA	ENSG00000177628	ENST00000427500	protein_coding	KNOWN	CCDS53374	4177	1464	487	155204239	155211066	-1	GLUC	GBA1
1	GBA	ENSG00000177628	ENST00000536770	protein_coding	KNOWN	None	4177	1272	423	155204520	155211017	-1	GLUC	GBA1
1	GBA	ENSG00000177628	ENST00000428024	protein_coding	KNOWN	CCDS53373	4177	1350	449	155204239	155214653	-1	GLUC	GBA1
2	EGR4	ENSG00000135625	ENST00000436467	protein_coding	KNOWN	None	3241	1461	486	73518062	73520833	-1	None	NGFI-C, PAT133
2	EGR4	ENSG00000135625	ENST00000545030	protein_coding	KNOWN	CCDS1925	3241	1770	589	73518058	73520829	-1	None	NGFI-C, PAT133
5	FBLL1	ENSG00000188573	ENST00000338333	protein_coding	PUTATIVE	None	35458	1005	334	167956121	167957639	1	None	LOC345630
4	EVC	ENSG00000072840	ENST00000264956	protein_coding	KNOWN	CCDS3383	3497	2979	992	5712924	5816032	1	None	DWF-1
4	EVC	ENSG00000072840	ENST00000509451	protein_coding	PUTATIVE	None	3497	1608	535	5712942	5760038	1	None	DWF-1
4	EVC	ENSG00000072840	ENST00000514919	processed_transcript	KNOWN	None	3497	None	None	5754402	5755656	1	None	DWF-1
4	EVC	ENSG00000072840	ENST00000506240	retained_intron	KNOWN	None	3497	None	None	5795241	5799132	1	None	DWF-1
4	EVC	ENSG00000072840	ENST00000515113	processed_transcript	KNOWN	None	3497	None	None	5795335	5803534	1	None	DWF-1
4	EVC	ENSG00000072840	ENST00000382674	protein_coding	KNOWN	CCDS3383	3497	2979	992	5712924	5830772	1	None	DWF-1
5	PANK3	ENSG00000120137	ENST00000239231	protein_coding	KNOWN	CCDS4368	19365	1113	370	167975500	168006605	-1	None	FLJ12899
5	PANK3	ENSG00000120137	ENST00000520504	processed_transcript	KNOWN	None	19365	None	None	167984616	167993069	-1	None	FLJ12899
5	PANK3	ENSG00000120137	ENST00000522176	protein_coding	PUTATIVE	None	19365	366	121	167993242	168006355	-1	None	FLJ12899
1	PARS2	ENSG00000162396	ENST00000371279	protein_coding	KNOWN	CCDS597	30563	1428	475	55222571	55230187	-1	None	DKFZp727A071
1	AGT	ENSG00000135744	ENST00000366667	protein_coding	KNOWN	CCDS1585	333	1458	485	230838269	230850043	-1	SERPINA8	None
12	MFSD5	ENSG00000182544	ENST00000546655	processed_transcript	PUTATIVE	None	28156	None	None	53645035	53645681	1	None	MGC11308
12	MFSD5	ENSG00000182544	ENST00000551660	protein_coding	PUTATIVE	None	28156	1238	411	53645437	53647536	1	None	MGC11308
12	MFSD5	ENSG00000182544	ENST00000329548	protein_coding	KNOWN	CCDS8851	28156	1353	450	53645880	53648188	1	None	MGC11308
12	MFSD5	ENSG00000182544	ENST00000552097	processed_transcript	PUTATIVE	None	28156	None	None	53646233	53646993	1	None	MGC11308
12	MFSD5	ENSG00000182544	ENST00000534842	protein_coding	KNOWN	CCDS53796	28156	1674	557	53645370	53648189	1	None	MGC11308
7	ACHE	ENSG00000087085	ENST00000419336	protein_coding	KNOWN	None	108	1581	526	100487615	100493507	-1	YT	None
7	ACHE	ENSG00000087085	ENST00000241069	protein_coding	KNOWN	CCDS5709	108	1845	614	100487615	100493509	-1	YT	None
7	ACHE	ENSG00000087085	ENST00000428317	protein_coding	KNOWN	CCDS5709	108	1845	614	100487615	100493753	-1	YT	None
7	ACHE	ENSG00000087085	ENST00000412389	protein_coding	KNOWN	CCDS5709	108	1845	614	100487618	100492009	-1	YT	None
7	ACHE	ENSG00000087085	ENST00000426415	protein_coding	PUTATIVE	None	108	1193	396	100487832	100491854	-1	YT	None
7	ACHE	ENSG00000087085	ENST00000454485	nonsense_mediated_decay	KNOWN	None	108	1212	403	100487832	100491854	-1	YT	None
7	ACHE	ENSG00000087085	ENST00000440755	nonsense_mediated_decay	KNOWN	None	108	1080	359	100487832	100491854	-1	YT	None
7	ACHE	ENSG00000087085	ENST00000430554	protein_coding	PUTATIVE	None	108	1304	433	100487832	100491854	-1	YT	None
7	ACHE	ENSG00000087085	ENST00000442452	nonsense_mediated_decay	KNOWN	None	108	168	55	100487832	100491854	-1	YT	None
7	ACHE	ENSG00000087085	ENST00000411582	protein_coding	KNOWN	CCDS5710	108	1854	617	100488337	100493482	-1	YT	None
7	ACHE	ENSG00000087085	ENST00000441605	protein_coding	KNOWN	None	108	476	157	100491378	100493849	-1	YT	None
7	ACHE	ENSG00000087085	ENST00000445236	protein_coding	KNOWN	None	108	84	27	100491770	100494222	-1	YT	None
7	ACHE	ENSG00000087085	ENST00000497647	processed_transcript	PUTATIVE	None	108	None	None	100493845	100494594	-1	YT	None
7	ACHE	ENSG00000087085	ENST00000302913	protein_coding	KNOWN	CCDS5710	108	1854	617	100487616	100493541	-1	YT	None
15	SNAP23	ENSG00000092531	ENST00000568745	retained_intron	KNOWN	None	11131	None	None	42783431	42805640	1	None	SNAP23A, SNAP23B, HsT17016
15	SNAP23	ENSG00000092531	ENST00000561526	protein_coding	KNOWN	None	11131	375	124	42783442	42820568	1	None	SNAP23A, SNAP23B, HsT17016
15	SNAP23	ENSG00000092531	ENST00000568227	retained_intron	KNOWN	None	11131	None	None	42783497	42805323	1	None	SNAP23A, SNAP23B, HsT17016
15	SNAP23	ENSG00000092531	ENST00000568451	nonsense_mediated_decay	KNOWN	None	11131	294	97	42785040	42820541	1	None	SNAP23A, SNAP23B, HsT17016
15	SNAP23	ENSG00000092531	ENST00000563765	nonsense_mediated_decay	KNOWN	None	11131	162	53	42785069	42823743	1	None	SNAP23A, SNAP23B, HsT17016
15	SNAP23	ENSG00000092531	ENST00000249647	protein_coding	KNOWN	CCDS10087	11131	636	211	42787458	42825259	1	None	SNAP23A, SNAP23B, HsT17016
15	SNAP23	ENSG00000092531	ENST00000566141	processed_transcript	PUTATIVE	None	11131	None	None	42787832	42797886	1	None	SNAP23A, SNAP23B, HsT17016
15	SNAP23	ENSG00000092531	ENST00000564153	protein_coding	PUTATIVE	None	11131	384	127	42787832	42824025	1	None	SNAP23A, SNAP23B, HsT17016
15	SNAP23	ENSG00000092531	ENST00000567094	protein_coding	PUTATIVE	None	11131	294	97	42787840	42814293	1	None	SNAP23A, SNAP23B, HsT17016
15	SNAP23	ENSG00000092531	ENST00000568331	nonsense_mediated_decay	KNOWN	None	11131	294	97	42787842	42820571	1	None	SNAP23A, SNAP23B, HsT17016
15	SNAP23	ENSG00000092531	ENST00000566327	protein_coding	PUTATIVE	None	11131	426	141	42787842	42822002	1	None	SNAP23A, SNAP23B, HsT17016
15	SNAP23	ENSG00000092531	ENST00000563451	retained_intron	KNOWN	None	11131	None	None	42787849	42804562	1	None	SNAP23A, SNAP23B, HsT17016
15	SNAP23	ENSG00000092531	ENST00000566035	nonsense_mediated_decay	KNOWN	None	11131	135	44	42787876	42822018	1	None	SNAP23A, SNAP23B, HsT17016
15	SNAP23	ENSG00000092531	ENST00000568859	protein_coding	KNOWN	None	11131	328	108	42787907	42820521	1	None	SNAP23A, SNAP23B, HsT17016
15	SNAP23	ENSG00000092531	ENST00000568514	retained_intron	KNOWN	None	11131	None	None	42804031	42823642	1	None	SNAP23A, SNAP23B, HsT17016
15	SNAP23	ENSG00000092531	ENST00000397138	protein_coding	KNOWN	CCDS10088	11131	477	158	42804045	42823676	1	None	SNAP23A, SNAP23B, HsT17016
15	SNAP23	ENSG00000092531	ENST00000563873	protein_coding	PUTATIVE	None	11131	271	89	42805608	42837545	1	None	SNAP23A, SNAP23B, HsT17016
15	SNAP23	ENSG00000092531	ENST00000568841	protein_coding	PUTATIVE	None	11131	449	148	42807435	42837543	1	None	SNAP23A, SNAP23B, HsT17016
15	SNAP23	ENSG00000092531	ENST00000563830	protein_coding	PUTATIVE	None	11131	464	153	42807435	42837547	1	None	SNAP23A, SNAP23B, HsT17016
15	SNAP23	ENSG00000092531	ENST00000563333	retained_intron	KNOWN	None	11131	None	None	42820141	42823849	1	None	SNAP23A, SNAP23B, HsT17016
15	SNAP23	ENSG00000092531	ENST00000349777	protein_coding	KNOWN	CCDS10088	11131	477	158	42787835	42825256	1	None	SNAP23A, SNAP23B, HsT17016
1	TTC22	ENSG00000006555	ENST00000371276	protein_coding	KNOWN	CCDS44152	26067	1710	569	55245385	55266940	-1	None	FLJ20619
1	TTC22	ENSG00000006555	ENST00000488771	retained_intron	KNOWN	None	26067	None	None	55247269	55253668	-1	None	FLJ20619
1	TTC22	ENSG00000006555	ENST00000371274	protein_coding	KNOWN	CCDS598	26067	1119	372	55250224	55266871	-1	None	FLJ20619
1	TTC22	ENSG00000006555	ENST00000448308	protein_coding	PUTATIVE	None	26067	513	170	55250227	55253465	-1	None	FLJ20619
1	TTC22	ENSG00000006555	ENST00000474654	retained_intron	KNOWN	None	26067	None	None	55252316	55253578	-1	None	FLJ20619
19	ZNF260	ENSG00000254004	ENST00000523638	protein_coding	KNOWN	CCDS33003	13499	1239	412	37001597	37019562	-1	None	ozrf1, Zfp260
19	ZNF260	ENSG00000254004	ENST00000592282	protein_coding	KNOWN	CCDS33003	13499	1239	412	37001930	37019170	-1	None	ozrf1, Zfp260
19	ZNF260	ENSG00000254004	ENST00000593142	protein_coding	KNOWN	CCDS33003	13499	1239	412	37002681	37016201	-1	None	ozrf1, Zfp260
19	ZNF260	ENSG00000254004	ENST00000588993	protein_coding	KNOWN	CCDS33003	13499	1239	412	37002681	37016201	-1	None	ozrf1, Zfp260
19	ZNF260	ENSG00000254004	ENST00000520608	retained_intron	KNOWN	None	13499	None	None	37015993	37019167	-1	None	ozrf1, Zfp260
8	C8orf22	ENSG00000168333	ENST00000517663	protein_coding	PUTATIVE	CCDS59102	31745	255	84	49966870	49988162	1	None	None
8	C8orf22	ENSG00000168333	ENST00000522267	protein_coding	PUTATIVE	CCDS59102	31745	255	84	49984900	49988030	1	None	None
8	C8orf22	ENSG00000168333	ENST00000399653	protein_coding	KNOWN	CCDS47854	31745	246	81	49984903	49988649	1	None	None
8	C8orf22	ENSG00000168333	ENST00000303202	protein_coding	KNOWN	CCDS59101	31745	255	84	49984913	49988161	1	None	None
19	LRRC8E	ENSG00000171017	ENST00000306708	protein_coding	KNOWN	CCDS12189	26272	2391	796	7953390	7966901	1	None	FLJ23420
19	LRRC8E	ENSG00000171017	ENST00000600345	protein_coding	PUTATIVE	None	26272	221	72	7953425	7964015	1	None	FLJ23420
19	LRRC8E	ENSG00000171017	ENST00000598224	protein_coding	KNOWN	None	26272	562	186	7953436	7963969	1	None	FLJ23420
19	LRRC8E	ENSG00000171017	ENST00000593511	protein_coding	KNOWN	None	26272	286	94	7958481	7963693	1	None	FLJ23420
19	LRRC8E	ENSG00000171017	ENST00000599367	protein_coding	KNOWN	None	26272	411	136	7960019	7963818	1	None	FLJ23420
4	POLR2B	ENSG00000047315	ENST00000450656	protein_coding	PUTATIVE	None	9188	192	63	57843888	57857013	1	None	RPB2
4	POLR2B	ENSG00000047315	ENST00000381227	protein_coding	KNOWN	CCDS3511	9188	3525	1174	57843908	57897324	1	None	RPB2
4	POLR2B	ENSG00000047315	ENST00000495311	retained_intron	KNOWN	None	9188	None	None	57843948	57845127	1	None	RPB2
4	POLR2B	ENSG00000047315	ENST00000431623	protein_coding	NOVEL	None	9188	3300	1099	57845030	57897324	1	None	RPB2
4	POLR2B	ENSG00000047315	ENST00000441246	protein_coding	NOVEL	None	9188	3504	1167	57845035	57897173	1	None	RPB2
4	POLR2B	ENSG00000047315	ENST00000433463	protein_coding	PUTATIVE	None	9188	230	75	57845062	57857072	1	None	RPB2
4	POLR2B	ENSG00000047315	ENST00000497845	retained_intron	KNOWN	None	9188	None	None	57845070	57852969	1	None	RPB2
4	POLR2B	ENSG00000047315	ENST00000478188	retained_intron	KNOWN	None	9188	None	None	57875725	57897324	1	None	RPB2
4	POLR2B	ENSG00000047315	ENST00000510355	processed_transcript	KNOWN	None	9188	None	None	57876339	57881824	1	None	RPB2
4	POLR2B	ENSG00000047315	ENST00000464918	retained_intron	KNOWN	None	9188	None	None	57889393	57889917	1	None	RPB2
4	POLR2B	ENSG00000047315	ENST00000484821	retained_intron	KNOWN	None	9188	None	None	57889657	57891128	1	None	RPB2
4	POLR2B	ENSG00000047315	ENST00000314595	protein_coding	KNOWN	CCDS3511	9188	3525	1174	57845109	57897334	1	None	RPB2
14	None	ENSG00000269832	ENST00000595378	protein_coding	NOVEL	None	None	210	69	50291993	50293258	1	None	None
19	None	ENSG00000214248	ENST00000539278	protein_coding	KNOWN	None	None	732	243	7963689	7968427	-1	None	None
14	None	ENSG00000197502	ENST00000358799	protein_coding	NOVEL	None	None	60	19	50300810	50311552	-1	None	None
8	GSDMD	ENSG00000104518	ENST00000526406	protein_coding	KNOWN	CCDS34956	25697	1455	484	144635377	144645232	1	GSDMDC1	FLJ12150, DF5L
8	GSDMD	ENSG00000104518	ENST00000529854	protein_coding	KNOWN	None	25697	144	47	144635877	144641649	1	GSDMDC1	FLJ12150, DF5L
8	GSDMD	ENSG00000104518	ENST00000533348	protein_coding	KNOWN	None	25697	494	163	144640056	144642856	1	GSDMDC1	FLJ12150, DF5L
8	GSDMD	ENSG00000104518	ENST00000533063	protein_coding	PUTATIVE	None	25697	1599	532	144640083	144645232	1	GSDMDC1	FLJ12150, DF5L
8	GSDMD	ENSG00000104518	ENST00000262580	protein_coding	KNOWN	CCDS34956	25697	1455	484	144640477	144645232	1	GSDMDC1	FLJ12150, DF5L
8	GSDMD	ENSG00000104518	ENST00000531184	retained_intron	KNOWN	None	25697	None	None	144640508	144645225	1	GSDMDC1	FLJ12150, DF5L
8	GSDMD	ENSG00000104518	ENST00000525721	protein_coding	KNOWN	None	25697	343	113	144640524	144642072	1	GSDMDC1	FLJ12150, DF5L
8	GSDMD	ENSG00000104518	ENST00000534018	protein_coding	PUTATIVE	None	25697	831	276	144640541	144643958	1	GSDMDC1	FLJ12150, DF5L
8	GSDMD	ENSG00000104518	ENST00000533888	protein_coding	KNOWN	None	25697	461	152	144640728	144642823	1	GSDMDC1	FLJ12150, DF5L
8	GSDMD	ENSG00000104518	ENST00000524846	retained_intron	KNOWN	None	25697	None	None	144640859	144645229	1	GSDMDC1	FLJ12150, DF5L
8	GSDMD	ENSG00000104518	ENST00000528475	retained_intron	KNOWN	None	25697	None	None	144642210	144645229	1	GSDMDC1	FLJ12150, DF5L
8	GSDMD	ENSG00000104518	ENST00000526469	retained_intron	KNOWN	None	25697	None	None	144642798	144645202	1	GSDMDC1	FLJ12150, DF5L
8	GSDMD	ENSG00000104518	ENST00000526051	retained_intron	KNOWN	None	25697	None	None	144643031	144644048	1	GSDMDC1	FLJ12150, DF5L
8	GSDMD	ENSG00000104518	ENST00000534602	retained_intron	KNOWN	None	25697	None	None	144643528	144644532	1	GSDMDC1	FLJ12150, DF5L
8	GSDMD	ENSG00000104518	ENST00000531173	retained_intron	KNOWN	None	25697	None	None	144643900	144645197	1	GSDMDC1	FLJ12150, DF5L
8	GSDMD	ENSG00000104518	ENST00000525208	protein_coding	PUTATIVE	None	25697	691	229	144644220	144645232	1	GSDMDC1	FLJ12150, DF5L
14	ARF6	ENSG00000165527	ENST00000298316	protein_coding	KNOWN	CCDS9695	659	528	175	50359810	50361490	1	None	None
1	C1orf177	ENSG00000162398	ENST00000358193	protein_coding	KNOWN	CCDS599	26854	1245	414	55271736	55307925	1	None	FLJ40201
1	C1orf177	ENSG00000162398	ENST00000371273	protein_coding	KNOWN	CCDS44153	26854	1257	418	55271775	55307925	1	None	FLJ40201
1	CAPN9	ENSG00000135773	ENST00000271971	protein_coding	KNOWN	CCDS1586	1486	2073	690	230883130	230937518	1	None	nCL-4, GC36
1	CAPN9	ENSG00000135773	ENST00000354537	protein_coding	NOVEL	CCDS31053	1486	1995	664	230883161	230937749	1	None	nCL-4, GC36
1	CAPN9	ENSG00000135773	ENST00000480004	processed_transcript	KNOWN	None	1486	None	None	230927623	230937508	1	None	nCL-4, GC36
1	CAPN9	ENSG00000135773	ENST00000366666	protein_coding	KNOWN	None	1486	1884	627	230883179	230937517	1	None	nCL-4, GC36
8	None	ENSG00000253206	ENST00000520800	protein_coding	PUTATIVE	None	None	198	65	50448945	50466973	-1	None	None
2	KCTD18	ENSG00000155729	ENST00000359878	protein_coding	KNOWN	CCDS2330	26446	1281	426	201353675	201374786	-1	None	FLJ31322, 6530404F10Rik, FLJ37818
2	KCTD18	ENSG00000155729	ENST00000409157	protein_coding	KNOWN	CCDS2330	26446	1281	426	201353681	201374791	-1	None	FLJ31322, 6530404F10Rik, FLJ37818
2	KCTD18	ENSG00000155729	ENST00000468413	processed_transcript	KNOWN	None	26446	None	None	201357949	201384507	-1	None	FLJ31322, 6530404F10Rik, FLJ37818
2	KCTD18	ENSG00000155729	ENST00000478816	retained_intron	KNOWN	None	26446	None	None	201360593	201374791	-1	None	FLJ31322, 6530404F10Rik, FLJ37818
2	KCTD18	ENSG00000155729	ENST00000447556	processed_transcript	KNOWN	None	26446	None	None	201363725	201374791	-1	None	FLJ31322, 6530404F10Rik, FLJ37818
X	ITGB1BP2	ENSG00000147166	ENST00000373829	protein_coding	KNOWN	CCDS14411	6154	1044	347	70521584	70525221	1	None	CHORDC3
X	ITGB1BP2	ENSG00000147166	ENST00000483897	processed_transcript	KNOWN	None	6154	None	None	70521611	70524084	1	None	CHORDC3
X	ITGB1BP2	ENSG00000147166	ENST00000465388	processed_transcript	KNOWN	None	6154	None	None	70523469	70524631	1	None	CHORDC3
X	ITGB1BP2	ENSG00000147166	ENST00000475413	processed_transcript	KNOWN	None	6154	None	None	70523642	70524730	1	None	CHORDC3
X	ITGB1BP2	ENSG00000147166	ENST00000538820	protein_coding	KNOWN	None	6154	990	329	70521637	70525151	1	None	CHORDC3
12	TRHDE	ENSG00000072657	ENST00000548156	processed_transcript	KNOWN	None	30748	None	None	72481046	72866875	1	None	PGPEP2, TRH-DE, PAP-II
12	TRHDE	ENSG00000072657	ENST00000261180	protein_coding	KNOWN	CCDS9004	30748	3075	1024	72666463	73059422	1	None	PGPEP2, TRH-DE, PAP-II
12	TRHDE	ENSG00000072657	ENST00000547300	protein_coding	NOVEL	None	30748	582	193	72667263	72956733	1	None	PGPEP2, TRH-DE, PAP-II
12	TRHDE	ENSG00000072657	ENST00000552503	processed_transcript	KNOWN	None	30748	None	None	72668289	72703543	1	None	PGPEP2, TRH-DE, PAP-II
12	TRHDE	ENSG00000072657	ENST00000549138	processed_transcript	KNOWN	None	30748	None	None	72954319	73012732	1	None	PGPEP2, TRH-DE, PAP-II
12	TRHDE	ENSG00000072657	ENST00000549401	processed_transcript	KNOWN	None	30748	None	None	72956632	72976300	1	None	PGPEP2, TRH-DE, PAP-II
12	TRHDE	ENSG00000072657	ENST00000549922	retained_intron	KNOWN	None	30748	None	None	72962410	73015111	1	None	PGPEP2, TRH-DE, PAP-II
19	MAP2K7	ENSG00000076984	ENST00000397981	protein_coding	KNOWN	None	6847	1281	426	7968728	7979363	1	PRKMK7	MKK7, Jnkk2
19	MAP2K7	ENSG00000076984	ENST00000468058	retained_intron	KNOWN	None	6847	None	None	7968765	7977450	1	PRKMK7	MKK7, Jnkk2
19	MAP2K7	ENSG00000076984	ENST00000397983	protein_coding	KNOWN	None	6847	1308	435	7968770	7979344	1	PRKMK7	MKK7, Jnkk2
19	MAP2K7	ENSG00000076984	ENST00000397979	protein_coding	KNOWN	CCDS42491	6847	1260	419	7968776	7979363	1	PRKMK7	MKK7, Jnkk2
19	MAP2K7	ENSG00000076984	ENST00000475022	retained_intron	KNOWN	None	6847	None	None	7968792	7971951	1	PRKMK7	MKK7, Jnkk2
19	MAP2K7	ENSG00000076984	ENST00000494348	retained_intron	KNOWN	None	6847	None	None	7974961	7975990	1	PRKMK7	MKK7, Jnkk2
19	MAP2K7	ENSG00000076984	ENST00000465324	retained_intron	KNOWN	None	6847	None	None	7975099	7975620	1	PRKMK7	MKK7, Jnkk2
19	MAP2K7	ENSG00000076984	ENST00000498118	retained_intron	KNOWN	None	6847	None	None	7975984	7976241	1	PRKMK7	MKK7, Jnkk2
19	MAP2K7	ENSG00000076984	ENST00000545011	protein_coding	KNOWN	None	6847	1386	461	7968765	7979362	1	PRKMK7	MKK7, Jnkk2
1	DHCR24	ENSG00000116133	ENST00000371269	protein_coding	KNOWN	CCDS600	2859	1551	516	55315306	55352891	-1	None	KIAA0018, seladin-1
1	DHCR24	ENSG00000116133	ENST00000436604	protein_coding	KNOWN	None	2859	463	153	55316549	55319839	-1	None	KIAA0018, seladin-1
1	DHCR24	ENSG00000116133	ENST00000535035	protein_coding	KNOWN	None	2859	1428	475	55317583	55352481	-1	None	KIAA0018, seladin-1
1	DHCR24	ENSG00000116133	ENST00000537443	protein_coding	KNOWN	None	2859	903	300	55317396	55341668	-1	None	KIAA0018, seladin-1
X	TFDP3	ENSG00000183434	ENST00000310125	protein_coding	KNOWN	CCDS14636	24603	1218	405	132350697	132352376	-1	None	HCA661, E2F-like, CT30
1	C1orf198	ENSG00000119280	ENST00000366663	protein_coding	KNOWN	CCDS1587	25900	984	327	230972865	231004399	-1	None	FLJ14525, MGC10710, FLJ16283, DKFZp667D152, FLJ38847
1	C1orf198	ENSG00000119280	ENST00000470540	protein_coding	KNOWN	CCDS44330	25900	870	289	230972865	231005335	-1	None	FLJ14525, MGC10710, FLJ16283, DKFZp667D152, FLJ38847
1	C1orf198	ENSG00000119280	ENST00000427697	protein_coding	PUTATIVE	None	25900	333	110	230972866	231005062	-1	None	FLJ14525, MGC10710, FLJ16283, DKFZp667D152, FLJ38847
1	C1orf198	ENSG00000119280	ENST00000523410	protein_coding	KNOWN	CCDS44331	25900	594	197	230975367	230991782	-1	None	FLJ14525, MGC10710, FLJ16283, DKFZp667D152, FLJ38847
1	C1orf198	ENSG00000119280	ENST00000522201	protein_coding	PUTATIVE	None	25900	481	159	230979417	231004744	-1	None	FLJ14525, MGC10710, FLJ16283, DKFZp667D152, FLJ38847
1	C1orf198	ENSG00000119280	ENST00000519360	retained_intron	KNOWN	None	25900	None	None	230979583	230991880	-1	None	FLJ14525, MGC10710, FLJ16283, DKFZp667D152, FLJ38847
1	C1orf198	ENSG00000119280	ENST00000521263	retained_intron	KNOWN	None	25900	None	None	231004189	231005316	-1	None	FLJ14525, MGC10710, FLJ16283, DKFZp667D152, FLJ38847
17	WRAP53	ENSG00000141499	ENST00000431639	protein_coding	KNOWN	CCDS11119	25522	1647	548	7589389	7606820	1	WDR79	FLJ10385, TCAB1
17	WRAP53	ENSG00000141499	ENST00000316024	protein_coding	KNOWN	CCDS11119	25522	1647	548	7589619	7606820	1	WDR79	FLJ10385, TCAB1
17	WRAP53	ENSG00000141499	ENST00000457584	protein_coding	KNOWN	CCDS11119	25522	1647	548	7590758	7606820	1	WDR79	FLJ10385, TCAB1
17	WRAP53	ENSG00000141499	ENST00000498311	nonsense_mediated_decay	KNOWN	None	25522	864	287	7590918	7606819	1	WDR79	FLJ10385, TCAB1
17	WRAP53	ENSG00000141499	ENST00000396463	protein_coding	KNOWN	CCDS11119	25522	1647	548	7591639	7606820	1	WDR79	FLJ10385, TCAB1
17	WRAP53	ENSG00000141499	ENST00000467699	retained_intron	KNOWN	None	25522	None	None	7591795	7606820	1	WDR79	FLJ10385, TCAB1
17	WRAP53	ENSG00000141499	ENST00000534050	protein_coding	NOVEL	None	25522	1548	515	7591795	7606820	1	WDR79	FLJ10385, TCAB1
17	WRAP53	ENSG00000141499	ENST00000463804	nonsense_mediated_decay	KNOWN	None	25522	141	46	7604975	7606692	1	WDR79	FLJ10385, TCAB1
17	WRAP53	ENSG00000141499	ENST00000471973	retained_intron	KNOWN	None	25522	None	None	7605436	7606820	1	WDR79	FLJ10385, TCAB1
17	WRAP53	ENSG00000141499	ENST00000498114	retained_intron	KNOWN	None	25522	None	None	7606199	7606820	1	WDR79	FLJ10385, TCAB1
1	FAM189B	ENSG00000160767	ENST00000350210	protein_coding	KNOWN	CCDS1104	1233	1719	572	155216996	155224751	-1	C1orf2	cote1
1	FAM189B	ENSG00000160767	ENST00000368366	retained_intron	KNOWN	None	1233	None	None	155217008	155221599	-1	C1orf2	cote1
1	FAM189B	ENSG00000160767	ENST00000368368	protein_coding	NOVEL	CCDS58035	1233	1953	650	155217008	155224759	-1	C1orf2	cote1
1	FAM189B	ENSG00000160767	ENST00000361361	protein_coding	KNOWN	CCDS1103	1233	2007	668	155217008	155225178	-1	C1orf2	cote1
1	FAM189B	ENSG00000160767	ENST00000487649	nonsense_mediated_decay	KNOWN	None	1233	435	144	155217218	155224982	-1	C1orf2	cote1
1	FAM189B	ENSG00000160767	ENST00000491082	protein_coding	PUTATIVE	None	1233	975	324	155217865	155224699	-1	C1orf2	cote1
1	FAM189B	ENSG00000160767	ENST00000497941	retained_intron	KNOWN	None	1233	None	None	155220379	155221859	-1	C1orf2	cote1
1	FAM189B	ENSG00000160767	ENST00000472550	processed_transcript	KNOWN	None	1233	None	None	155220485	155224755	-1	C1orf2	cote1
1	FAM189B	ENSG00000160767	ENST00000481822	retained_intron	KNOWN	None	1233	None	None	155222540	155225274	-1	C1orf2	cote1
1	TMEM61	ENSG00000143001	ENST00000371268	protein_coding	KNOWN	CCDS601	27296	633	210	55446465	55457966	1	None	None
10	BMS1	ENSG00000165733	ENST00000374518	protein_coding	KNOWN	CCDS7199	23505	3849	1282	43278249	43326856	1	BMS1L	KIAA0187
X	GPC4	ENSG00000076716	ENST00000370828	protein_coding	KNOWN	CCDS14637	4452	1671	556	132434131	132549518	-1	None	K-glypican
X	GPC4	ENSG00000076716	ENST00000535467	protein_coding	KNOWN	None	4452	1461	486	132436668	132548587	-1	None	K-glypican
1	BSND	ENSG00000162399	ENST00000371265	protein_coding	KNOWN	CCDS602	16512	963	320	55464606	55476556	1	DFNB73	BART
2	SGOL2	ENSG00000163535	ENST00000418045	protein_coding	KNOWN	None	30812	262	86	201374731	201399847	1	None	TRIPIN, FLJ25211
2	SGOL2	ENSG00000163535	ENST00000357799	protein_coding	KNOWN	CCDS42796	30812	3798	1265	201390880	201448505	1	None	TRIPIN, FLJ25211
2	SGOL2	ENSG00000163535	ENST00000409203	protein_coding	KNOWN	None	30812	744	247	201390890	201434865	1	None	TRIPIN, FLJ25211
2	SGOL2	ENSG00000163535	ENST00000460534	processed_transcript	KNOWN	None	30812	None	None	201396498	201398098	1	None	TRIPIN, FLJ25211
2	SGOL2	ENSG00000163535	ENST00000488636	retained_intron	KNOWN	None	30812	None	None	201399769	201407673	1	None	TRIPIN, FLJ25211
2	SGOL2	ENSG00000163535	ENST00000469840	processed_transcript	KNOWN	None	30812	None	None	201399864	201408345	1	None	TRIPIN, FLJ25211
2	ALMS1	ENSG00000116127	ENST00000409009	protein_coding	NOVEL	None	428	12378	4125	73612886	73836842	1	None	KIAA0328
2	ALMS1	ENSG00000116127	ENST00000264448	protein_coding	KNOWN	CCDS42697	428	12504	4167	73612886	73837046	1	None	KIAA0328
2	ALMS1	ENSG00000116127	ENST00000423048	nonsense_mediated_decay	KNOWN	None	428	3072	1023	73678824	73800707	1	None	KIAA0328
2	ALMS1	ENSG00000116127	ENST00000484298	retained_intron	KNOWN	None	428	None	None	73679852	73830986	1	None	KIAA0328
2	ALMS1	ENSG00000116127	ENST00000476650	processed_transcript	PUTATIVE	None	428	None	None	73747072	73784387	1	None	KIAA0328
2	ALMS1	ENSG00000116127	ENST00000464408	processed_transcript	KNOWN	None	428	None	None	73827962	73835643	1	None	KIAA0328
2	ALMS1	ENSG00000116127	ENST00000490821	processed_transcript	PUTATIVE	None	428	None	None	73830426	73837920	1	None	KIAA0328
2	ALMS1	ENSG00000116127	ENST00000377715	protein_coding	KNOWN	None	428	7686	2561	73612886	73689937	1	None	KIAA0328
9	COL27A1	ENSG00000196739	ENST00000356083	protein_coding	KNOWN	CCDS6802	22986	5583	1860	116917840	117074791	1	None	KIAA1870, MGC11337, FLJ11895
9	COL27A1	ENSG00000196739	ENST00000451716	protein_coding	PUTATIVE	None	22986	2145	714	116929995	116980859	1	None	KIAA1870, MGC11337, FLJ11895
9	COL27A1	ENSG00000196739	ENST00000494090	nonsense_mediated_decay	KNOWN	None	22986	1456	484	116930888	117073828	1	None	KIAA1870, MGC11337, FLJ11895
9	COL27A1	ENSG00000196739	ENST00000485397	retained_intron	KNOWN	None	22986	None	None	117002500	117008401	1	None	KIAA1870, MGC11337, FLJ11895
9	COL27A1	ENSG00000196739	ENST00000477421	processed_transcript	KNOWN	None	22986	None	None	117031087	117036510	1	None	KIAA1870, MGC11337, FLJ11895
9	COL27A1	ENSG00000196739	ENST00000494780	processed_transcript	PUTATIVE	None	22986	None	None	117062642	117063822	1	None	KIAA1870, MGC11337, FLJ11895
9	COL27A1	ENSG00000196739	ENST00000490831	processed_transcript	PUTATIVE	None	22986	None	None	117068493	117071619	1	None	KIAA1870, MGC11337, FLJ11895
9	COL27A1	ENSG00000196739	ENST00000468565	processed_transcript	KNOWN	None	22986	None	None	117069312	117073808	1	None	KIAA1870, MGC11337, FLJ11895
6	TFB1M	ENSG00000029639	ENST00000367166	protein_coding	KNOWN	CCDS5248	17037	1041	346	155578643	155635618	-1	None	mtTFB, CGI-75
6	TFB1M	ENSG00000029639	ENST00000468889	processed_transcript	KNOWN	None	17037	None	None	155578787	155618203	-1	None	mtTFB, CGI-75
6	TFB1M	ENSG00000029639	ENST00000470239	processed_transcript	KNOWN	None	17037	None	None	155578807	155635618	-1	None	mtTFB, CGI-75
6	TFB1M	ENSG00000029639	ENST00000495806	processed_transcript	KNOWN	None	17037	None	None	155579111	155606333	-1	None	mtTFB, CGI-75
6	TFB1M	ENSG00000029639	ENST00000489874	processed_transcript	KNOWN	None	17037	None	None	155581957	155620676	-1	None	mtTFB, CGI-75
6	TFB1M	ENSG00000029639	ENST00000487586	processed_transcript	KNOWN	None	17037	None	None	155618095	155624632	-1	None	mtTFB, CGI-75
6	TFB1M	ENSG00000029639	ENST00000475849	processed_transcript	KNOWN	None	17037	None	None	155618215	155635627	-1	None	mtTFB, CGI-75
6	TFB1M	ENSG00000029639	ENST00000480390	processed_transcript	KNOWN	None	17037	None	None	155631980	155635584	-1	None	mtTFB, CGI-75
6	TFB1M	ENSG00000029639	ENST00000466349	processed_transcript	KNOWN	None	17037	None	None	155632311	155635561	-1	None	mtTFB, CGI-75
6	APOM	ENSG00000204444	ENST00000375918	protein_coding	KNOWN	None	13916	390	129	31620193	31625859	1	None	ApoM, G3a, NG20
6	APOM	ENSG00000204444	ENST00000375920	protein_coding	KNOWN	CCDS59004	13916	351	116	31620194	31625987	1	None	ApoM, G3a, NG20
6	APOM	ENSG00000204444	ENST00000375916	protein_coding	KNOWN	CCDS4710	13916	567	188	31623248	31625987	1	None	ApoM, G3a, NG20
9	RMI1	ENSG00000178966	ENST00000445877	protein_coding	KNOWN	None	25764	1247	414	86595626	86617148	1	C9orf76	FLJ12888, BLAP75
9	RMI1	ENSG00000178966	ENST00000325875	protein_coding	KNOWN	CCDS6669	25764	1878	625	86595713	86618985	1	C9orf76	FLJ12888, BLAP75
15	ARID3B	ENSG00000179361	ENST00000346246	protein_coding	KNOWN	CCDS10264	14350	1683	560	74833518	74890472	1	None	BDP, DRIL2
15	ARID3B	ENSG00000179361	ENST00000569680	retained_intron	KNOWN	None	14350	None	None	74833605	74867358	1	None	BDP, DRIL2
15	ARID3B	ENSG00000179361	ENST00000566147	protein_coding	PUTATIVE	None	14350	416	137	74836691	74883749	1	None	BDP, DRIL2
15	ARID3B	ENSG00000179361	ENST00000566468	retained_intron	KNOWN	None	14350	None	None	74883528	74885542	1	None	BDP, DRIL2
15	ARID3B	ENSG00000179361	ENST00000563567	processed_transcript	PUTATIVE	None	14350	None	None	74888937	74890318	1	None	BDP, DRIL2
1	PCSK9	ENSG00000169174	ENST00000302118	protein_coding	KNOWN	CCDS603	20001	2079	692	55505221	55530525	1	HCHOLA3	NARC-1, FH3
1	PCSK9	ENSG00000169174	ENST00000490692	processed_transcript	KNOWN	None	20001	None	None	55516607	55530523	1	HCHOLA3	NARC-1, FH3
1	PCSK9	ENSG00000169174	ENST00000452118	protein_coding	KNOWN	None	20001	618	205	55505431	55518424	1	HCHOLA3	NARC-1, FH3
1	PCSK9	ENSG00000169174	ENST00000543384	protein_coding	KNOWN	None	20001	801	266	55505895	55529112	1	HCHOLA3	NARC-1, FH3
8	SNTG1	ENSG00000147481	ENST00000518864	protein_coding	KNOWN	CCDS6147	13740	1554	517	50822349	51705389	1	None	SYN4, G1SYN
8	SNTG1	ENSG00000147481	ENST00000521574	processed_transcript	KNOWN	None	13740	None	None	50822364	50824143	1	None	SYN4, G1SYN
8	SNTG1	ENSG00000147481	ENST00000520697	processed_transcript	KNOWN	None	13740	None	None	50823509	51076529	1	None	SYN4, G1SYN
8	SNTG1	ENSG00000147481	ENST00000522124	protein_coding	KNOWN	CCDS6147	13740	1554	517	50824233	51706678	1	None	SYN4, G1SYN
8	SNTG1	ENSG00000147481	ENST00000517473	protein_coding	KNOWN	None	13740	1443	480	50824597	51705427	1	None	SYN4, G1SYN
8	SNTG1	ENSG00000147481	ENST00000523085	protein_coding	KNOWN	None	13740	277	91	50824705	51362285	1	None	SYN4, G1SYN
8	SNTG1	ENSG00000147481	ENST00000521316	processed_transcript	KNOWN	None	13740	None	None	50824736	51199413	1	None	SYN4, G1SYN
8	SNTG1	ENSG00000147481	ENST00000520825	nonsense_mediated_decay	KNOWN	None	13740	1047	348	51085121	51705421	1	None	SYN4, G1SYN
8	SNTG1	ENSG00000147481	ENST00000524004	nonsense_mediated_decay	KNOWN	None	13740	361	119	51465610	51621743	1	None	SYN4, G1SYN
8	SNTG1	ENSG00000147481	ENST00000276467	protein_coding	KNOWN	None	13740	1443	480	51306773	51705425	1	None	SYN4, G1SYN
9	SLC28A3	ENSG00000197506	ENST00000376238	protein_coding	KNOWN	CCDS6670	16484	2076	691	86890372	86955598	-1	None	CNT3
9	SLC28A3	ENSG00000197506	ENST00000495823	processed_transcript	KNOWN	None	16484	None	None	86920191	86955574	-1	None	CNT3
9	SLC28A3	ENSG00000197506	ENST00000537648	protein_coding	KNOWN	None	16484	1869	622	86893028	86955672	-1	None	CNT3
1	SCAMP3	ENSG00000116521	ENST00000478737	processed_transcript	KNOWN	None	10565	None	None	155225770	155228706	-1	C1orf3	None
1	SCAMP3	ENSG00000116521	ENST00000302631	protein_coding	KNOWN	CCDS1105	10565	1044	347	155225770	155232050	-1	C1orf3	None
1	SCAMP3	ENSG00000116521	ENST00000355379	protein_coding	KNOWN	CCDS1106	10565	966	321	155225772	155232221	-1	C1orf3	None
1	SCAMP3	ENSG00000116521	ENST00000472397	processed_transcript	KNOWN	None	10565	None	None	155225798	155230241	-1	C1orf3	None
1	SCAMP3	ENSG00000116521	ENST00000490999	processed_transcript	KNOWN	None	10565	None	None	155226032	155230443	-1	C1orf3	None
1	SCAMP3	ENSG00000116521	ENST00000465312	processed_transcript	KNOWN	None	10565	None	None	155227076	155232018	-1	C1orf3	None
1	SCAMP3	ENSG00000116521	ENST00000462151	processed_transcript	KNOWN	None	10565	None	None	155227077	155231659	-1	C1orf3	None
1	SCAMP3	ENSG00000116521	ENST00000497470	processed_transcript	KNOWN	None	10565	None	None	155228617	155232130	-1	C1orf3	None
1	SCAMP3	ENSG00000116521	ENST00000480219	processed_transcript	KNOWN	None	10565	None	None	155231018	155232120	-1	C1orf3	None
17	RFNG	ENSG00000169733	ENST00000580793	retained_intron	KNOWN	None	9974	None	None	80005778	80008390	-1	None	None
17	RFNG	ENSG00000169733	ENST00000583784	retained_intron	KNOWN	None	9974	None	None	80005778	80008663	-1	None	None
17	RFNG	ENSG00000169733	ENST00000310496	protein_coding	KNOWN	CCDS32773	9974	996	331	80005778	80009650	-1	None	None
17	RFNG	ENSG00000169733	ENST00000582478	retained_intron	KNOWN	None	9974	None	None	80005778	80009707	-1	None	None
17	RFNG	ENSG00000169733	ENST00000580953	retained_intron	KNOWN	None	9974	None	None	80005782	80009438	-1	None	None
17	RFNG	ENSG00000169733	ENST00000578676	retained_intron	KNOWN	None	9974	None	None	80006321	80009211	-1	None	None
17	RFNG	ENSG00000169733	ENST00000429557	protein_coding	PUTATIVE	None	9974	618	205	80006429	80009310	-1	None	None
17	RFNG	ENSG00000169733	ENST00000584838	processed_transcript	KNOWN	None	9974	None	None	80006625	80008866	-1	None	None
17	RFNG	ENSG00000169733	ENST00000580928	processed_transcript	PUTATIVE	None	9974	None	None	80007669	80008635	-1	None	None
17	RFNG	ENSG00000169733	ENST00000584515	retained_intron	KNOWN	None	9974	None	None	80007783	80009462	-1	None	None
17	RFNG	ENSG00000169733	ENST00000578356	protein_coding	PUTATIVE	None	9974	182	59	80008291	80009449	-1	None	None
17	RFNG	ENSG00000169733	ENST00000584463	retained_intron	KNOWN	None	9974	None	None	80008331	80009283	-1	None	None
8	STK3	ENSG00000104375	ENST00000517832	processed_transcript	KNOWN	None	11406	None	None	99413631	99539154	-1	None	MST2, KRS1
8	STK3	ENSG00000104375	ENST00000419617	protein_coding	KNOWN	CCDS47900	11406	1476	491	99466867	99837909	-1	None	MST2, KRS1
8	STK3	ENSG00000104375	ENST00000523601	protein_coding	PUTATIVE	CCDS59108	11406	1560	519	99466923	99954799	-1	None	MST2, KRS1
8	STK3	ENSG00000104375	ENST00000520440	retained_intron	KNOWN	None	11406	None	None	99538643	99560390	-1	None	MST2, KRS1
8	STK3	ENSG00000104375	ENST00000518582	processed_transcript	KNOWN	None	11406	None	None	99560188	99663952	-1	None	MST2, KRS1
8	STK3	ENSG00000104375	ENST00000523159	processed_transcript	KNOWN	None	11406	None	None	99560194	99614483	-1	None	MST2, KRS1
8	STK3	ENSG00000104375	ENST00000518165	protein_coding	NOVEL	None	11406	686	227	99560319	99837899	-1	None	MST2, KRS1
8	STK3	ENSG00000104375	ENST00000518627	processed_transcript	KNOWN	None	11406	None	None	99565558	99613889	-1	None	MST2, KRS1
8	STK3	ENSG00000104375	ENST00000522924	processed_transcript	KNOWN	None	11406	None	None	99591898	99607478	-1	None	MST2, KRS1
8	STK3	ENSG00000104375	ENST00000521649	nonsense_mediated_decay	KNOWN	None	11406	249	82	99591924	99837874	-1	None	MST2, KRS1
8	STK3	ENSG00000104375	ENST00000520053	retained_intron	KNOWN	None	11406	None	None	99591987	99608620	-1	None	MST2, KRS1
8	STK3	ENSG00000104375	ENST00000521768	processed_transcript	PUTATIVE	None	11406	None	None	99607105	99614410	-1	None	MST2, KRS1
8	STK3	ENSG00000104375	ENST00000520653	processed_transcript	KNOWN	None	11406	None	None	99607201	99614504	-1	None	MST2, KRS1
8	STK3	ENSG00000104375	ENST00000424861	nonsense_mediated_decay	KNOWN	None	11406	507	168	99607558	99837894	-1	None	MST2, KRS1
8	STK3	ENSG00000104375	ENST00000523567	processed_transcript	PUTATIVE	None	11406	None	None	99887485	99896023	-1	None	MST2, KRS1
8	STK3	ENSG00000104375	ENST00000523960	retained_intron	KNOWN	None	11406	None	None	99891126	99954873	-1	None	MST2, KRS1
8	STK3	ENSG00000104375	ENST00000519420	protein_coding	PUTATIVE	None	11406	3	0	99895982	99955055	-1	None	MST2, KRS1
5	DMGDH	ENSG00000132837	ENST00000255189	protein_coding	KNOWN	CCDS4044	24475	2601	866	78293438	78365472	-1	None	None
5	DMGDH	ENSG00000132837	ENST00000523732	protein_coding	PUTATIVE	None	24475	1842	613	78316495	78350063	-1	None	None
5	DMGDH	ENSG00000132837	ENST00000518477	nonsense_mediated_decay	KNOWN	None	24475	297	98	78317329	78365452	-1	None	None
5	DMGDH	ENSG00000132837	ENST00000517853	nonsense_mediated_decay	KNOWN	None	24475	321	106	78317330	78365452	-1	None	None
5	DMGDH	ENSG00000132837	ENST00000523201	processed_transcript	KNOWN	None	24475	None	None	78322259	78326431	-1	None	None
5	DMGDH	ENSG00000132837	ENST00000521052	nonsense_mediated_decay	KNOWN	None	24475	153	50	78338250	78365497	-1	None	None
5	DMGDH	ENSG00000132837	ENST00000524206	nonsense_mediated_decay	KNOWN	None	24475	153	50	78347110	78365449	-1	None	None
5	DMGDH	ENSG00000132837	ENST00000520388	processed_transcript	KNOWN	None	24475	None	None	78351677	78531861	-1	None	None
5	DMGDH	ENSG00000132837	ENST00000518707	processed_transcript	PUTATIVE	None	24475	None	None	78416100	78531761	-1	None	None
5	DMGDH	ENSG00000132837	ENST00000520855	processed_transcript	PUTATIVE	None	24475	None	None	78517969	78531828	-1	None	None
5	DMGDH	ENSG00000132837	ENST00000380311	protein_coding	KNOWN	None	24475	1722	573	78317329	78365452	-1	None	None
5	DMGDH	ENSG00000132837	ENST00000540686	protein_coding	KNOWN	None	24475	1185	394	78317330	78365452	-1	None	None
1	TTC13	ENSG00000143643	ENST00000366661	protein_coding	KNOWN	CCDS1588	26204	2583	860	231041989	231114584	-1	None	FLJ22584
1	TTC13	ENSG00000143643	ENST00000366662	protein_coding	KNOWN	CCDS44332	26204	2421	806	231041989	231114605	-1	None	FLJ22584
1	TTC13	ENSG00000143643	ENST00000471302	retained_intron	KNOWN	None	26204	None	None	231047123	231057252	-1	None	FLJ22584
1	TTC13	ENSG00000143643	ENST00000486879	protein_coding	PUTATIVE	None	26204	372	123	231056049	231060609	-1	None	FLJ22584
1	TTC13	ENSG00000143643	ENST00000481976	nonsense_mediated_decay	KNOWN	None	26204	768	255	231067164	231114621	-1	None	FLJ22584
1	TTC13	ENSG00000143643	ENST00000522821	protein_coding	NOVEL	None	26204	558	185	231069529	231114542	-1	None	FLJ22584
1	TTC13	ENSG00000143643	ENST00000519379	retained_intron	KNOWN	None	26204	None	None	231069562	231072383	-1	None	FLJ22584
1	TTC13	ENSG00000143643	ENST00000522399	protein_coding	NOVEL	None	26204	498	165	231075204	231114607	-1	None	FLJ22584
1	TTC13	ENSG00000143643	ENST00000466507	nonsense_mediated_decay	KNOWN	None	26204	453	150	231076255	231114581	-1	None	FLJ22584
1	TTC13	ENSG00000143643	ENST00000414259	protein_coding	KNOWN	None	26204	2424	807	231041990	231114607	-1	None	FLJ22584
2	AOX1	ENSG00000138356	ENST00000374700	protein_coding	KNOWN	CCDS33360	553	4017	1338	201450591	201536214	1	None	AO, AOH1
2	AOX1	ENSG00000138356	ENST00000454629	protein_coding	KNOWN	None	553	454	150	201452897	201468020	1	None	AO, AOH1
2	AOX1	ENSG00000138356	ENST00000485965	retained_intron	KNOWN	None	553	None	None	201473932	201478690	1	None	AO, AOH1
2	AOX1	ENSG00000138356	ENST00000465297	processed_transcript	KNOWN	None	553	None	None	201473943	201535595	1	None	AO, AOH1
2	AOX1	ENSG00000138356	ENST00000485106	processed_transcript	KNOWN	None	553	None	None	201473966	201535859	1	None	AO, AOH1
2	AOX1	ENSG00000138356	ENST00000472553	retained_intron	KNOWN	None	553	None	None	201502855	201507526	1	None	AO, AOH1
2	AOX1	ENSG00000138356	ENST00000260930	protein_coding	PUTATIVE	None	553	580	192	201524760	201535373	1	None	AO, AOH1
2	AOX1	ENSG00000138356	ENST00000439380	protein_coding	PUTATIVE	None	553	573	190	201527630	201541787	1	None	AO, AOH1
14	C14orf182	ENSG00000214900	ENST00000399206	protein_coding	PUTATIVE	CCDS41949	27503	324	107	50448430	50474238	-1	None	None
14	C14orf182	ENSG00000214900	ENST00000530176	processed_transcript	KNOWN	None	27503	None	None	50448902	50474238	-1	None	None
14	C14orf182	ENSG00000214900	ENST00000533506	processed_transcript	KNOWN	None	27503	None	None	50457708	50459852	-1	None	None
14	C14orf182	ENSG00000214900	ENST00000528300	processed_transcript	KNOWN	None	27503	None	None	50458098	50474238	-1	None	None
14	C14orf182	ENSG00000214900	ENST00000529902	processed_transcript	KNOWN	None	27503	None	None	50458273	50473237	-1	None	None
8	DUSP4	ENSG00000120875	ENST00000240100	protein_coding	KNOWN	CCDS6072	3070	1185	394	29190581	29208185	-1	None	HVH2, MKP-2, TYP
8	DUSP4	ENSG00000120875	ENST00000240101	protein_coding	PUTATIVE	CCDS6073	3070	912	303	29194056	29206322	-1	None	HVH2, MKP-2, TYP
5	SLIT3	ENSG00000184347	ENST00000519560	protein_coding	KNOWN	CCDS4369	11087	4572	1523	168088745	168728133	-1	SLIL2	slit2, MEGF5, SLIT1, Slit-3
5	SLIT3	ENSG00000184347	ENST00000332966	protein_coding	NOVEL	None	11087	4593	1530	168093230	168727786	-1	SLIL2	slit2, MEGF5, SLIT1, Slit-3
5	SLIT3	ENSG00000184347	ENST00000518092	processed_transcript	KNOWN	None	11087	None	None	168110971	168123316	-1	SLIL2	slit2, MEGF5, SLIT1, Slit-3
5	SLIT3	ENSG00000184347	ENST00000519486	retained_intron	KNOWN	None	11087	None	None	168179408	168219346	-1	SLIL2	slit2, MEGF5, SLIT1, Slit-3
5	SLIT3	ENSG00000184347	ENST00000518140	retained_intron	KNOWN	None	11087	None	None	168199192	168727750	-1	SLIL2	slit2, MEGF5, SLIT1, Slit-3
5	SLIT3	ENSG00000184347	ENST00000521150	retained_intron	KNOWN	None	11087	None	None	168201240	168271837	-1	SLIL2	slit2, MEGF5, SLIT1, Slit-3
5	SLIT3	ENSG00000184347	ENST00000521130	processed_transcript	KNOWN	None	11087	None	None	168546876	168727781	-1	SLIL2	slit2, MEGF5, SLIT1, Slit-3
5	SLIT3	ENSG00000184347	ENST00000404867	protein_coding	KNOWN	None	11087	4419	1472	168093713	168727713	-1	SLIL2	slit2, MEGF5, SLIT1, Slit-3
2	NAT8	ENSG00000144035	ENST00000272425	protein_coding	KNOWN	CCDS1926	18069	684	227	73867959	73869520	-1	None	Hcml1, TSC501, GLA, ATase2
19	PNKP	ENSG00000039650	ENST00000595081	retained_intron	KNOWN	None	9154	None	None	50364461	50365153	-1	None	PNK
19	PNKP	ENSG00000039650	ENST00000594661	retained_intron	KNOWN	None	9154	None	None	50364461	50370258	-1	None	PNK
19	PNKP	ENSG00000039650	ENST00000322344	protein_coding	KNOWN	CCDS12783	9154	1566	521	50364461	50370822	-1	None	PNK
19	PNKP	ENSG00000039650	ENST00000599454	retained_intron	KNOWN	None	9154	None	None	50364462	50365332	-1	None	PNK
19	PNKP	ENSG00000039650	ENST00000596014	protein_coding	KNOWN	CCDS12783	9154	1566	521	50364488	50370543	-1	None	PNK
19	PNKP	ENSG00000039650	ENST00000593946	nonsense_mediated_decay	KNOWN	None	9154	156	51	50364489	50370485	-1	None	PNK
19	PNKP	ENSG00000039650	ENST00000600910	protein_coding	NOVEL	None	9154	1368	455	50364496	50370812	-1	None	PNK
19	PNKP	ENSG00000039650	ENST00000600573	protein_coding	NOVEL	None	9154	1473	490	50364497	50370833	-1	None	PNK
19	PNKP	ENSG00000039650	ENST00000597965	protein_coding	PUTATIVE	None	9154	169	55	50364510	50364955	-1	None	PNK
19	PNKP	ENSG00000039650	ENST00000601816	retained_intron	KNOWN	None	9154	None	None	50364535	50365466	-1	None	PNK
19	PNKP	ENSG00000039650	ENST00000593706	retained_intron	KNOWN	None	9154	None	None	50365135	50367319	-1	None	PNK
19	PNKP	ENSG00000039650	ENST00000598020	nonsense_mediated_decay	KNOWN	None	9154	156	51	50368509	50370790	-1	None	PNK
19	PNKP	ENSG00000039650	ENST00000595792	processed_transcript	KNOWN	None	9154	None	None	50369398	50370818	-1	None	PNK
19	PNKP	ENSG00000039650	ENST00000599543	protein_coding	KNOWN	None	9154	198	65	50369656	50371166	-1	None	PNK
19	PNKP	ENSG00000039650	ENST00000596726	protein_coding	KNOWN	None	9154	90	29	50370372	50371140	-1	None	PNK
10	RET	ENSG00000165731	ENST00000355710	protein_coding	KNOWN	CCDS7200	9967	3345	1114	43572475	43625799	1	HSCR1, MEN2A, MTC1, MEN2B	PTC, CDHF12, RET51, CDHR16
10	RET	ENSG00000165731	ENST00000498820	protein_coding	NOVEL	None	9967	544	180	43572522	43610041	1	HSCR1, MEN2A, MTC1, MEN2B	PTC, CDHF12, RET51, CDHR16
10	RET	ENSG00000165731	ENST00000340058	protein_coding	KNOWN	CCDS53525	9967	3219	1072	43572527	43622952	1	HSCR1, MEN2A, MTC1, MEN2B	PTC, CDHF12, RET51, CDHR16
10	RET	ENSG00000165731	ENST00000479913	retained_intron	KNOWN	None	9967	None	None	43600180	43601938	1	HSCR1, MEN2A, MTC1, MEN2B	PTC, CDHF12, RET51, CDHR16
10	TAF3	ENSG00000165632	ENST00000344293	protein_coding	KNOWN	CCDS41487	17303	2790	929	7860467	8058590	1	None	TAF140, TAFII140
1	USP24	ENSG00000162402	ENST00000294383	protein_coding	NOVEL	CCDS44154	12623	7863	2620	55532032	55680786	-1	None	KIAA1057
1	USP24	ENSG00000162402	ENST00000484447	processed_transcript	KNOWN	None	12623	None	None	55536946	55541172	-1	None	KIAA1057
1	USP24	ENSG00000162402	ENST00000480962	processed_transcript	KNOWN	None	12623	None	None	55537486	55538665	-1	None	KIAA1057
1	USP24	ENSG00000162402	ENST00000472566	retained_intron	KNOWN	None	12623	None	None	55547060	55552097	-1	None	KIAA1057
1	USP24	ENSG00000162402	ENST00000512504	retained_intron	KNOWN	None	12623	None	None	55549516	55552107	-1	None	KIAA1057
1	USP24	ENSG00000162402	ENST00000482197	retained_intron	KNOWN	None	12623	None	None	55559226	55560992	-1	None	KIAA1057
1	USP24	ENSG00000162402	ENST00000407756	protein_coding	KNOWN	None	12623	7383	2460	55532041	55680762	-1	None	KIAA1057
1	CLK2	ENSG00000176444	ENST00000361168	protein_coding	KNOWN	CCDS1107	2069	1497	498	155232659	155243078	-1	None	clk2
1	CLK2	ENSG00000176444	ENST00000368361	protein_coding	KNOWN	None	2069	1500	499	155232659	155243307	-1	None	clk2
1	CLK2	ENSG00000176444	ENST00000476983	processed_transcript	KNOWN	None	2069	None	None	155232665	155243120	-1	None	clk2
1	CLK2	ENSG00000176444	ENST00000355560	protein_coding	KNOWN	None	2069	1494	497	155232665	155243273	-1	None	clk2
1	CLK2	ENSG00000176444	ENST00000497188	processed_transcript	KNOWN	None	2069	None	None	155232671	155239154	-1	None	clk2
1	CLK2	ENSG00000176444	ENST00000471047	processed_transcript	KNOWN	None	2069	None	None	155237885	155248282	-1	None	clk2
1	CLK2	ENSG00000176444	ENST00000484699	processed_transcript	KNOWN	None	2069	None	None	155238957	155240632	-1	None	clk2
1	CLK2	ENSG00000176444	ENST00000536801	protein_coding	KNOWN	None	2069	1500	499	155232971	155247501	-1	None	clk2
2	TPRKB	ENSG00000144034	ENST00000489476	processed_transcript	KNOWN	None	24259	None	None	73956231	73964462	-1	None	CGI-121
2	TPRKB	ENSG00000144034	ENST00000463231	processed_transcript	KNOWN	None	24259	None	None	73956296	73964502	-1	None	CGI-121
2	TPRKB	ENSG00000144034	ENST00000484969	processed_transcript	KNOWN	None	24259	None	None	73956361	73964485	-1	None	CGI-121
2	TPRKB	ENSG00000144034	ENST00000272424	protein_coding	KNOWN	CCDS1927	24259	528	175	73956957	73964513	-1	None	CGI-121
2	TPRKB	ENSG00000144034	ENST00000485758	processed_transcript	PUTATIVE	None	24259	None	None	73957017	73958276	-1	None	CGI-121
2	TPRKB	ENSG00000144034	ENST00000409716	protein_coding	NOVEL	None	24259	645	214	73957017	73964527	-1	None	CGI-121
2	TPRKB	ENSG00000144034	ENST00000318190	protein_coding	NOVEL	None	24259	645	214	73957017	73964527	-1	None	CGI-121
2	TPRKB	ENSG00000144034	ENST00000497464	retained_intron	KNOWN	None	24259	None	None	73957391	73964467	-1	None	CGI-121
2	TPRKB	ENSG00000144034	ENST00000462166	processed_transcript	KNOWN	None	24259	None	None	73957712	73964513	-1	None	CGI-121
2	TPRKB	ENSG00000144034	ENST00000470012	retained_intron	KNOWN	None	24259	None	None	73959033	73964462	-1	None	CGI-121
14	TMED10	ENSG00000170348	ENST00000303575	protein_coding	KNOWN	CCDS9840	16998	660	219	75598173	75643334	-1	None	TMP21, P24(DELTA)
14	TMED10	ENSG00000170348	ENST00000556969	retained_intron	KNOWN	None	16998	None	None	75600641	75614484	-1	None	TMP21, P24(DELTA)
14	TMED10	ENSG00000170348	ENST00000557670	processed_transcript	KNOWN	None	16998	None	None	75601059	75614600	-1	None	TMP21, P24(DELTA)
14	TMED10	ENSG00000170348	ENST00000555036	retained_intron	KNOWN	None	16998	None	None	75601143	75614463	-1	None	TMP21, P24(DELTA)
14	TMED10	ENSG00000170348	ENST00000555873	nonsense_mediated_decay	KNOWN	None	16998	462	153	75601203	75643300	-1	None	TMP21, P24(DELTA)
14	TMED10	ENSG00000170348	ENST00000555085	retained_intron	KNOWN	None	16998	None	None	75614258	75643315	-1	None	TMP21, P24(DELTA)
4	CCDC111	ENSG00000164306	ENST00000314970	protein_coding	KNOWN	CCDS3837	26575	1683	560	185570767	185616106	1	CCDC111	FLJ33167
4	CCDC111	ENSG00000164306	ENST00000515774	protein_coding	PUTATIVE	None	26575	1296	431	185570821	185616117	1	CCDC111	FLJ33167
4	CCDC111	ENSG00000164306	ENST00000503752	protein_coding	NOVEL	CCDS3837	26575	1683	560	185570849	185616070	1	CCDC111	FLJ33167
4	CCDC111	ENSG00000164306	ENST00000512834	protein_coding	NOVEL	None	26575	1680	559	185570879	185616106	1	CCDC111	FLJ33167
4	CCDC111	ENSG00000164306	ENST00000509002	nonsense_mediated_decay	KNOWN	None	26575	282	93	185570892	185616106	1	CCDC111	FLJ33167
4	CCDC111	ENSG00000164306	ENST00000509538	retained_intron	KNOWN	None	26575	None	None	185570910	185578808	1	CCDC111	FLJ33167
4	CCDC111	ENSG00000164306	ENST00000506278	nonsense_mediated_decay	KNOWN	None	26575	339	112	185570931	185599540	1	CCDC111	FLJ33167
4	CCDC111	ENSG00000164306	ENST00000515152	nonsense_mediated_decay	KNOWN	None	26575	339	112	185570935	185593422	1	CCDC111	FLJ33167
4	CCDC111	ENSG00000164306	ENST00000508001	protein_coding	PUTATIVE	None	26575	518	171	185599431	185615746	1	CCDC111	FLJ33167
4	CCDC111	ENSG00000164306	ENST00000512658	retained_intron	KNOWN	None	26575	None	None	185612522	185615912	1	CCDC111	FLJ33167
4	CCDC111	ENSG00000164306	ENST00000510864	processed_transcript	PUTATIVE	None	26575	None	None	185615447	185616106	1	CCDC111	FLJ33167
1	ARV1	ENSG00000173409	ENST00000497753	processed_transcript	KNOWN	None	29561	None	None	231114727	231132900	1	None	None
1	ARV1	ENSG00000173409	ENST00000310256	protein_coding	KNOWN	CCDS1589	29561	816	271	231114795	231136341	1	None	None
1	ARV1	ENSG00000173409	ENST00000366658	protein_coding	NOVEL	None	29561	696	231	231114840	231136341	1	None	None
1	ARV1	ENSG00000173409	ENST00000480519	nonsense_mediated_decay	KNOWN	None	29561	744	247	231114857	231135613	1	None	None
1	ARV1	ENSG00000173409	ENST00000450711	protein_coding	KNOWN	None	29561	806	267	231114862	231135549	1	None	None
1	ARV1	ENSG00000173409	ENST00000435927	protein_coding	NOVEL	None	29561	875	290	231114892	231133013	1	None	None
1	ARV1	ENSG00000173409	ENST00000459891	nonsense_mediated_decay	KNOWN	None	29561	368	121	231131506	231136341	1	None	None
HSCHR6_MHC_COX	ABHD16A	ENSG00000235676	ENST00000466279	retained_intron	KNOWN	None	13921	None	None	31642147	31643581	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_COX	ABHD16A	ENSG00000235676	ENST00000482768	retained_intron	KNOWN	None	13921	None	None	31642147	31645794	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_COX	ABHD16A	ENSG00000235676	ENST00000464268	processed_transcript	KNOWN	None	13921	None	None	31642147	31658264	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_COX	ABHD16A	ENSG00000235676	ENST00000468784	processed_transcript	KNOWN	None	13921	None	None	31642147	31658531	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_COX	ABHD16A	ENSG00000235676	ENST00000444818	protein_coding	KNOWN	None	13921	1806	601	31642147	31658607	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_COX	ABHD16A	ENSG00000235676	ENST00000468664	retained_intron	KNOWN	None	13921	None	None	31642579	31643513	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_COX	ABHD16A	ENSG00000235676	ENST00000481553	retained_intron	KNOWN	None	13921	None	None	31642767	31643495	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_COX	ABHD16A	ENSG00000235676	ENST00000480173	processed_transcript	KNOWN	None	13921	None	None	31642845	31645437	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_COX	ABHD16A	ENSG00000235676	ENST00000493188	retained_intron	KNOWN	None	13921	None	None	31642965	31646838	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_COX	ABHD16A	ENSG00000235676	ENST00000490196	processed_transcript	KNOWN	None	13921	None	None	31644207	31658524	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_COX	ABHD16A	ENSG00000235676	ENST00000431671	protein_coding	KNOWN	None	13921	791	262	31645748	31658057	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_COX	ABHD16A	ENSG00000235676	ENST00000466331	processed_transcript	KNOWN	None	13921	None	None	31646638	31648248	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_COX	ABHD16A	ENSG00000235676	ENST00000490327	retained_intron	KNOWN	None	13921	None	None	31646781	31647486	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_COX	ABHD16A	ENSG00000235676	ENST00000547161	protein_coding	KNOWN	None	13921	1677	558	31642141	31658551	-1	BAT5	NG26, D6S82E
HSCHR6_MHC_COX	ABHD16A	ENSG00000235676	ENST00000550556	protein_coding	KNOWN	None	13921	1578	525	31642141	31658264	-1	BAT5	NG26, D6S82E
1	FAM89A	ENSG00000182118	ENST00000366654	protein_coding	KNOWN	CCDS1590	25057	555	184	231154704	231175992	-1	C1orf153	MGC15887
1	FAM89A	ENSG00000182118	ENST00000494111	processed_transcript	KNOWN	None	25057	None	None	231154922	231162695	-1	C1orf153	MGC15887
1	FAM89A	ENSG00000182118	ENST00000466258	processed_transcript	KNOWN	None	25057	None	None	231155164	231164478	-1	C1orf153	MGC15887
1	HCN3	ENSG00000143630	ENST00000368358	protein_coding	KNOWN	CCDS1108	19183	2325	774	155247374	155259639	1	None	KIAA1535
1	HCN3	ENSG00000143630	ENST00000496230	processed_transcript	KNOWN	None	19183	None	None	155247490	155259638	1	None	KIAA1535
1	HCN3	ENSG00000143630	ENST00000467204	processed_transcript	KNOWN	None	19183	None	None	155252329	155257694	1	None	KIAA1535
1	HCN3	ENSG00000143630	ENST00000492035	processed_transcript	KNOWN	None	19183	None	None	155258395	155259309	1	None	KIAA1535
1	PPAP2B	ENSG00000162407	ENST00000371250	protein_coding	KNOWN	CCDS604	9229	936	311	56960419	57045241	-1	None	PAP-2b, LPP3
1	PPAP2B	ENSG00000162407	ENST00000472957	processed_transcript	KNOWN	None	9229	None	None	56961948	56982678	-1	None	PAP-2b, LPP3
1	PPAP2B	ENSG00000162407	ENST00000459962	processed_transcript	PUTATIVE	None	9229	None	None	56962106	56979443	-1	None	PAP-2b, LPP3
1	PPAP2B	ENSG00000162407	ENST00000461655	processed_transcript	KNOWN	None	9229	None	None	56989980	57110974	-1	None	PAP-2b, LPP3
1	PPAP2B	ENSG00000162407	ENST00000476206	processed_transcript	KNOWN	None	9229	None	None	57044841	57110945	-1	None	PAP-2b, LPP3
19	ZNF529	ENSG00000186020	ENST00000452073	protein_coding	PUTATIVE	None	29328	338	111	37025676	37038666	-1	None	KIAA1615
19	ZNF529	ENSG00000186020	ENST00000590656	protein_coding	PUTATIVE	None	29328	219	72	37034515	37038430	-1	None	KIAA1615
19	ZNF529	ENSG00000186020	ENST00000334116	protein_coding	KNOWN	None	29328	1377	458	37034518	37064190	-1	None	KIAA1615
19	ZNF529	ENSG00000186020	ENST00000591340	protein_coding	KNOWN	CCDS54256	29328	1692	563	37035288	37064154	-1	None	KIAA1615
19	ZNF529	ENSG00000186020	ENST00000586115	protein_coding	PUTATIVE	None	29328	256	84	37039003	37096178	-1	None	KIAA1615
19	ZNF529	ENSG00000186020	ENST00000585983	protein_coding	KNOWN	None	29328	331	109	37039129	37096145	-1	None	KIAA1615
19	ZNF529	ENSG00000186020	ENST00000585960	protein_coding	PUTATIVE	None	29328	276	91	37039130	37096159	-1	None	KIAA1615
19	ZNF529	ENSG00000186020	ENST00000586458	processed_transcript	KNOWN	None	29328	None	None	37071157	37096164	-1	None	KIAA1615
19	ZNF529	ENSG00000186020	ENST00000587286	processed_transcript	KNOWN	None	29328	None	None	37073300	37096145	-1	None	KIAA1615
6	C6orf47	ENSG00000204439	ENST00000375911	protein_coding	KNOWN	CCDS34399	19076	885	294	31626075	31628549	-1	None	D6S53E, G4
2	DUSP11	ENSG00000144048	ENST00000272444	protein_coding	KNOWN	CCDS1928	3066	1134	377	73989311	74007284	-1	None	PIR1
2	DUSP11	ENSG00000144048	ENST00000480948	processed_transcript	KNOWN	None	3066	None	None	73989721	74007005	-1	None	PIR1
2	DUSP11	ENSG00000144048	ENST00000477458	processed_transcript	KNOWN	None	3066	None	None	73993995	74006709	-1	None	PIR1
2	DUSP11	ENSG00000144048	ENST00000443070	protein_coding	KNOWN	None	3066	822	273	73994546	74007248	-1	None	PIR1
2	DUSP11	ENSG00000144048	ENST00000452812	protein_coding	PUTATIVE	None	3066	453	150	74000380	74007095	-1	None	PIR1
2	DUSP11	ENSG00000144048	ENST00000377706	protein_coding	KNOWN	None	3066	681	226	73995893	74007222	-1	None	PIR1
1	PRKAA2	ENSG00000162409	ENST00000371244	protein_coding	KNOWN	CCDS605	9377	1659	552	57110995	57181008	1	PRKAA	AMPK, AMPKa2
17	TBC1D3C	ENSG00000234972	ENST00000336331	protein_coding	NOVEL	None	24889	1584	527	34581085	34591208	-1	None	MGC44903
17	TBC1D3C	ENSG00000234972	ENST00000398688	retained_intron	KNOWN	None	24889	None	None	34581085	34591959	-1	None	MGC44903
17	TBC1D3C	ENSG00000234972	ENST00000457979	protein_coding	KNOWN	CCDS11309	24889	1650	549	34581085	34592032	-1	None	MGC44903
17	TBC1D3C	ENSG00000234972	ENST00000591555	protein_coding	NOVEL	None	24889	566	187	34587321	34590403	-1	None	MGC44903
17	TBC1D3C	ENSG00000234972	ENST00000585570	retained_intron	KNOWN	None	24889	None	None	34590027	34591996	-1	None	MGC44903
17	TBC1D3C	ENSG00000234972	ENST00000588590	processed_transcript	PUTATIVE	None	24889	None	None	34591273	34592019	-1	None	MGC44903
17	TBC1D3C	ENSG00000234972	ENST00000308078	protein_coding	KNOWN	None	24889	1650	549	34580902	34757050	-1	None	MGC44903
17	TBC1D3C	ENSG00000234972	ENST00000451448	protein_coding	KNOWN	None	24889	1584	527	34581091	34756219	-1	None	MGC44903
17	NCOR1	ENSG00000141027	ENST00000268712	protein_coding	KNOWN	CCDS11175	7672	7323	2440	15932471	16118863	-1	None	N-CoR, hCIT529I10, TRAC1, hN-CoR, KIAA1047, MGC104216
17	NCOR1	ENSG00000141027	ENST00000464381	retained_intron	KNOWN	None	7672	None	None	15934718	15961650	-1	None	N-CoR, hCIT529I10, TRAC1, hN-CoR, KIAA1047, MGC104216
17	NCOR1	ENSG00000141027	ENST00000470782	retained_intron	KNOWN	None	7672	None	None	15934718	15971726	-1	None	N-CoR, hCIT529I10, TRAC1, hN-CoR, KIAA1047, MGC104216
17	NCOR1	ENSG00000141027	ENST00000395851	protein_coding	KNOWN	CCDS54095	7672	7014	2337	15934718	16097927	-1	None	N-CoR, hCIT529I10, TRAC1, hN-CoR, KIAA1047, MGC104216
17	NCOR1	ENSG00000141027	ENST00000580617	retained_intron	KNOWN	None	7672	None	None	15935302	15943422	-1	None	N-CoR, hCIT529I10, TRAC1, hN-CoR, KIAA1047, MGC104216
17	NCOR1	ENSG00000141027	ENST00000395849	protein_coding	NOVEL	None	7672	3215	1070	15935406	15983321	-1	None	N-CoR, hCIT529I10, TRAC1, hN-CoR, KIAA1047, MGC104216
17	NCOR1	ENSG00000141027	ENST00000582565	retained_intron	KNOWN	None	7672	None	None	15935747	15943973	-1	None	N-CoR, hCIT529I10, TRAC1, hN-CoR, KIAA1047, MGC104216
17	NCOR1	ENSG00000141027	ENST00000579573	protein_coding	PUTATIVE	None	7672	549	182	15935787	15950349	-1	None	N-CoR, hCIT529I10, TRAC1, hN-CoR, KIAA1047, MGC104216
17	NCOR1	ENSG00000141027	ENST00000603989	protein_coding	PUTATIVE	None	7672	174	57	15942534	15942780	-1	None	N-CoR, hCIT529I10, TRAC1, hN-CoR, KIAA1047, MGC104216
17	NCOR1	ENSG00000141027	ENST00000580554	protein_coding	PUTATIVE	None	7672	650	215	15942831	15961037	-1	None	N-CoR, hCIT529I10, TRAC1, hN-CoR, KIAA1047, MGC104216
17	NCOR1	ENSG00000141027	ENST00000579606	protein_coding	PUTATIVE	None	7672	551	182	15943759	15961044	-1	None	N-CoR, hCIT529I10, TRAC1, hN-CoR, KIAA1047, MGC104216
17	NCOR1	ENSG00000141027	ENST00000583234	retained_intron	KNOWN	None	7672	None	None	15950206	15952711	-1	None	N-CoR, hCIT529I10, TRAC1, hN-CoR, KIAA1047, MGC104216
17	NCOR1	ENSG00000141027	ENST00000458113	retained_intron	KNOWN	None	7672	None	None	15950214	15983827	-1	None	N-CoR, hCIT529I10, TRAC1, hN-CoR, KIAA1047, MGC104216
17	NCOR1	ENSG00000141027	ENST00000472189	retained_intron	KNOWN	None	7672	None	None	15960288	15961249	-1	None	N-CoR, hCIT529I10, TRAC1, hN-CoR, KIAA1047, MGC104216
17	NCOR1	ENSG00000141027	ENST00000584872	retained_intron	KNOWN	None	7672	None	None	15965181	15969199	-1	None	N-CoR, hCIT529I10, TRAC1, hN-CoR, KIAA1047, MGC104216
17	NCOR1	ENSG00000141027	ENST00000436068	protein_coding	NOVEL	None	7672	274	90	15989713	15995232	-1	None	N-CoR, hCIT529I10, TRAC1, hN-CoR, KIAA1047, MGC104216
17	NCOR1	ENSG00000141027	ENST00000395848	protein_coding	NOVEL	CCDS54094	7672	2745	914	15994878	16097953	-1	None	N-CoR, hCIT529I10, TRAC1, hN-CoR, KIAA1047, MGC104216
17	NCOR1	ENSG00000141027	ENST00000583226	processed_transcript	KNOWN	None	7672	None	None	16005032	16025949	-1	None	N-CoR, hCIT529I10, TRAC1, hN-CoR, KIAA1047, MGC104216
17	NCOR1	ENSG00000141027	ENST00000411510	protein_coding	NOVEL	None	7672	1637	544	16029396	16118851	-1	None	N-CoR, hCIT529I10, TRAC1, hN-CoR, KIAA1047, MGC104216
17	NCOR1	ENSG00000141027	ENST00000582357	protein_coding	NOVEL	None	7672	1639	545	16029421	16118843	-1	None	N-CoR, hCIT529I10, TRAC1, hN-CoR, KIAA1047, MGC104216
17	NCOR1	ENSG00000141027	ENST00000436828	protein_coding	KNOWN	None	7672	1611	536	16029446	16118844	-1	None	N-CoR, hCIT529I10, TRAC1, hN-CoR, KIAA1047, MGC104216
17	NCOR1	ENSG00000141027	ENST00000460276	nonsense_mediated_decay	KNOWN	None	7672	267	88	16029446	16118844	-1	None	N-CoR, hCIT529I10, TRAC1, hN-CoR, KIAA1047, MGC104216
17	NCOR1	ENSG00000141027	ENST00000585296	retained_intron	KNOWN	None	7672	None	None	16068185	16118862	-1	None	N-CoR, hCIT529I10, TRAC1, hN-CoR, KIAA1047, MGC104216
17	NCOR1	ENSG00000141027	ENST00000579974	retained_intron	KNOWN	None	7672	None	None	16068220	16097925	-1	None	N-CoR, hCIT529I10, TRAC1, hN-CoR, KIAA1047, MGC104216
17	NCOR1	ENSG00000141027	ENST00000430577	protein_coding	KNOWN	None	7672	375	124	16075177	16121499	-1	None	N-CoR, hCIT529I10, TRAC1, hN-CoR, KIAA1047, MGC104216
17	NCOR1	ENSG00000141027	ENST00000466825	processed_transcript	KNOWN	None	7672	None	None	16101485	16118715	-1	None	N-CoR, hCIT529I10, TRAC1, hN-CoR, KIAA1047, MGC104216
17	NCOR1	ENSG00000141027	ENST00000395857	protein_coding	KNOWN	None	7672	3075	1024	15935406	15983321	-1	None	N-CoR, hCIT529I10, TRAC1, hN-CoR, KIAA1047, MGC104216
1	PKLR	ENSG00000143627	ENST00000392414	protein_coding	KNOWN	CCDS44240	9020	1632	543	155259630	155270792	-1	None	None
1	PKLR	ENSG00000143627	ENST00000342741	protein_coding	KNOWN	CCDS1109	9020	1725	574	155260044	155271225	-1	None	None
1	PKLR	ENSG00000143627	ENST00000434082	nonsense_mediated_decay	KNOWN	None	9020	141	46	155264926	155270747	-1	None	None
1	TRIM67	ENSG00000119283	ENST00000444294	protein_coding	NOVEL	None	31859	2346	781	231297858	231357302	1	None	TNL
1	TRIM67	ENSG00000119283	ENST00000449018	protein_coding	KNOWN	None	31859	2166	721	231298716	231351186	1	None	TNL
1	TRIM67	ENSG00000119283	ENST00000366653	protein_coding	NOVEL	CCDS44333	31859	2352	783	231298716	231352770	1	None	TNL
1	TRIM67	ENSG00000119283	ENST00000366652	protein_coding	KNOWN	None	31859	2271	756	231298674	231355698	1	None	TNL
6	GPANK1	ENSG00000204438	ENST00000375906	protein_coding	KNOWN	CCDS4711	13920	1071	356	31629006	31634060	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
6	GPANK1	ENSG00000204438	ENST00000375896	protein_coding	KNOWN	CCDS4711	13920	1071	356	31629853	31633167	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
6	GPANK1	ENSG00000204438	ENST00000375893	protein_coding	KNOWN	CCDS4711	13920	1071	356	31629853	31633407	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
6	GPANK1	ENSG00000204438	ENST00000375895	protein_coding	KNOWN	CCDS4711	13920	1071	356	31629853	31633627	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
6	GPANK1	ENSG00000204438	ENST00000375900	protein_coding	KNOWN	CCDS4711	13920	1071	356	31629853	31633638	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
6	GPANK1	ENSG00000204438	ENST00000458083	protein_coding	KNOWN	None	13920	494	163	31631762	31633219	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
6	GPANK1	ENSG00000204438	ENST00000445768	protein_coding	KNOWN	None	13920	456	151	31631800	31632967	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
6	GPANK1	ENSG00000204438	ENST00000456540	protein_coding	KNOWN	None	13920	269	88	31631987	31632962	-1	BAT4	G5, D6S54E, GPATCH10, ANKRD59
1	C1orf168	ENSG00000187889	ENST00000343433	protein_coding	KNOWN	CCDS30729	27295	2187	728	57184477	57285044	-1	None	RP4-758N20.2, FLJ43208
1	C1orf168	ENSG00000187889	ENST00000493000	processed_transcript	KNOWN	None	27295	None	None	57184544	57227686	-1	None	RP4-758N20.2, FLJ43208
1	C1orf168	ENSG00000187889	ENST00000497991	processed_transcript	KNOWN	None	27295	None	None	57185323	57186529	-1	None	RP4-758N20.2, FLJ43208
1	C1orf168	ENSG00000187889	ENST00000484327	processed_transcript	KNOWN	None	27295	None	None	57192217	57285369	-1	None	RP4-758N20.2, FLJ43208
1	C1orf168	ENSG00000187889	ENST00000371240	retained_intron	KNOWN	None	27295	None	None	57192221	57203320	-1	None	RP4-758N20.2, FLJ43208
14	C14orf183	ENSG00000168260	ENST00000305273	protein_coding	NOVEL	CCDS45101	27285	975	324	50550369	50559361	-1	None	None
2	BZW1	ENSG00000082153	ENST00000450637	protein_coding	KNOWN	None	18380	464	153	201675317	201681890	1	None	BZAP45, KIAA0005
2	BZW1	ENSG00000082153	ENST00000452206	protein_coding	KNOWN	None	18380	648	215	201676269	201682806	1	None	BZAP45, KIAA0005
2	BZW1	ENSG00000082153	ENST00000410110	protein_coding	KNOWN	None	18380	883	293	201676269	201683541	1	None	BZAP45, KIAA0005
2	BZW1	ENSG00000082153	ENST00000409600	protein_coding	KNOWN	CCDS56156	18380	1260	419	201676269	201688569	1	None	BZAP45, KIAA0005
2	BZW1	ENSG00000082153	ENST00000464483	retained_intron	KNOWN	None	18380	None	None	201676633	201680438	1	None	BZAP45, KIAA0005
2	BZW1	ENSG00000082153	ENST00000460660	retained_intron	KNOWN	None	18380	None	None	201676646	201678127	1	None	BZAP45, KIAA0005
2	BZW1	ENSG00000082153	ENST00000409226	protein_coding	NOVEL	CCDS56154	18380	1272	423	201676908	201687961	1	None	BZAP45, KIAA0005
2	BZW1	ENSG00000082153	ENST00000452790	protein_coding	NOVEL	CCDS56155	18380	1356	451	201677079	201686966	1	None	BZAP45, KIAA0005
2	BZW1	ENSG00000082153	ENST00000447069	protein_coding	PUTATIVE	None	18380	349	115	201677399	201680485	1	None	BZAP45, KIAA0005
2	BZW1	ENSG00000082153	ENST00000419090	protein_coding	KNOWN	None	18380	485	160	201677712	201681911	1	None	BZAP45, KIAA0005
2	BZW1	ENSG00000082153	ENST00000463310	retained_intron	KNOWN	None	18380	None	None	201682757	201684918	1	None	BZAP45, KIAA0005
2	BZW1	ENSG00000082153	ENST00000491576	retained_intron	KNOWN	None	18380	None	None	201682995	201683847	1	None	BZAP45, KIAA0005
2	BZW1	ENSG00000082153	ENST00000359893	protein_coding	PUTATIVE	None	18380	407	134	201683049	201687273	1	None	BZAP45, KIAA0005
14	METTL21D	ENSG00000100483	ENST00000569518	retained_intron	KNOWN	None	20352	None	None	50575350	50583195	-1	C14orf138, METTL21D	VCP-KMT
14	METTL21D	ENSG00000100483	ENST00000395860	protein_coding	KNOWN	CCDS9696	20352	690	229	50575351	50583275	-1	C14orf138, METTL21D	VCP-KMT
14	METTL21D	ENSG00000100483	ENST00000491402	nonsense_mediated_decay	KNOWN	None	20352	435	144	50575351	50583318	-1	C14orf138, METTL21D	VCP-KMT
14	METTL21D	ENSG00000100483	ENST00000484763	retained_intron	KNOWN	None	20352	None	None	50575360	50583276	-1	C14orf138, METTL21D	VCP-KMT
14	METTL21D	ENSG00000100483	ENST00000395859	protein_coding	KNOWN	CCDS41951	20352	585	194	50576255	50583318	-1	C14orf138, METTL21D	VCP-KMT
1	C8A	ENSG00000157131	ENST00000361249	protein_coding	KNOWN	CCDS606	1352	1755	584	57320479	57383894	1	None	None
4	SPP1	ENSG00000118785	ENST00000237623	protein_coding	KNOWN	CCDS3626	11255	903	300	88896819	88904562	1	BNSP, OPN	BSPI, ETA-1
4	SPP1	ENSG00000118785	ENST00000395080	protein_coding	KNOWN	CCDS43250	11255	945	314	88896840	88904449	1	BNSP, OPN	BSPI, ETA-1
4	SPP1	ENSG00000118785	ENST00000504310	retained_intron	KNOWN	None	11255	None	None	88896866	88899176	1	BNSP, OPN	BSPI, ETA-1
4	SPP1	ENSG00000118785	ENST00000513981	processed_transcript	KNOWN	None	11255	None	None	88896866	88902830	1	BNSP, OPN	BSPI, ETA-1
4	SPP1	ENSG00000118785	ENST00000509334	processed_transcript	KNOWN	None	11255	None	None	88896866	88902913	1	BNSP, OPN	BSPI, ETA-1
4	SPP1	ENSG00000118785	ENST00000508233	protein_coding	NOVEL	None	11255	724	240	88896866	88903950	1	BNSP, OPN	BSPI, ETA-1
4	SPP1	ENSG00000118785	ENST00000360804	protein_coding	KNOWN	CCDS34027	11255	864	287	88896866	88904279	1	BNSP, OPN	BSPI, ETA-1
4	SPP1	ENSG00000118785	ENST00000509659	processed_transcript	KNOWN	None	11255	None	None	88896867	88904478	1	BNSP, OPN	BSPI, ETA-1
4	SPP1	ENSG00000118785	ENST00000508002	retained_intron	KNOWN	None	11255	None	None	88896869	88901840	1	BNSP, OPN	BSPI, ETA-1
4	SPP1	ENSG00000118785	ENST00000505146	retained_intron	KNOWN	None	11255	None	None	88898032	88901340	1	BNSP, OPN	BSPI, ETA-1
16	CDR2	ENSG00000140743	ENST00000268383	protein_coding	KNOWN	CCDS32404	1799	1365	454	22357257	22385938	-1	None	CDR62, Yo
16	CDR2	ENSG00000140743	ENST00000564542	protein_coding	PUTATIVE	None	1799	702	233	22358796	22442917	-1	None	CDR62, Yo
16	CDR2	ENSG00000140743	ENST00000561630	nonsense_mediated_decay	KNOWN	None	1799	141	46	22358955	22385758	-1	None	CDR62, Yo
16	CDR2	ENSG00000140743	ENST00000567406	protein_coding	PUTATIVE	None	1799	350	115	22359076	22386411	-1	None	CDR62, Yo
16	CDR2	ENSG00000140743	ENST00000567010	protein_coding	PUTATIVE	None	1799	242	79	22360477	22361094	-1	None	CDR62, Yo
16	CDR2	ENSG00000140743	ENST00000563573	protein_coding	PUTATIVE	None	1799	188	61	22360693	22444986	-1	None	CDR62, Yo
16	CDR2	ENSG00000140743	ENST00000569045	processed_transcript	KNOWN	None	1799	None	None	22376249	22448486	-1	None	CDR62, Yo
1	C1orf131	ENSG00000143633	ENST00000366649	protein_coding	KNOWN	CCDS1591	25332	882	293	231359509	231376913	-1	None	DKFZp547B1713
1	C1orf131	ENSG00000143633	ENST00000318906	protein_coding	KNOWN	None	25332	750	249	231359509	231376916	-1	None	DKFZp547B1713
1	C1orf131	ENSG00000143633	ENST00000366651	protein_coding	KNOWN	None	25332	879	292	231359509	231376924	-1	None	DKFZp547B1713
1	C1orf131	ENSG00000143633	ENST00000451322	protein_coding	KNOWN	None	25332	771	256	231360001	231376836	-1	None	DKFZp547B1713
1	C1orf131	ENSG00000143633	ENST00000462669	processed_transcript	KNOWN	None	25332	None	None	231360061	231361668	-1	None	DKFZp547B1713
1	C1orf131	ENSG00000143633	ENST00000486384	processed_transcript	KNOWN	None	25332	None	None	231361249	231374639	-1	None	DKFZp547B1713
1	C1orf131	ENSG00000143633	ENST00000495795	processed_transcript	KNOWN	None	25332	None	None	231362132	231364955	-1	None	DKFZp547B1713
1	C1orf131	ENSG00000143633	ENST00000471936	processed_transcript	KNOWN	None	25332	None	None	231372442	231376933	-1	None	DKFZp547B1713
7	MUC3A	ENSG00000169894	ENST00000483366	processed_transcript	KNOWN	None	7513	None	None	100547187	100550424	1	MUC3	None
7	MUC3A	ENSG00000169894	ENST00000483133	retained_intron	KNOWN	None	7513	None	None	100550330	100611118	1	MUC3	None
7	MUC3A	ENSG00000169894	ENST00000319509	protein_coding	KNOWN	None	7513	2631	876	100551250	100611022	1	MUC3	None
7	MUC3A	ENSG00000169894	ENST00000414964	nonsense_mediated_decay	KNOWN	None	7513	321	106	100552886	100610461	1	MUC3	None
7	MUC3A	ENSG00000169894	ENST00000422757	protein_coding	KNOWN	None	7513	927	308	100552886	100610461	1	MUC3	None
7	MUC3A	ENSG00000169894	ENST00000480291	retained_intron	KNOWN	None	7513	None	None	100609340	100610899	1	MUC3	None
15	ONECUT1	ENSG00000169856	ENST00000560699	protein_coding	PUTATIVE	None	8138	201	66	53049637	53073380	-1	HNF6, HNF6A	HNF-6
15	ONECUT1	ENSG00000169856	ENST00000305901	protein_coding	KNOWN	CCDS10150	8138	1398	465	53049638	53082209	-1	HNF6, HNF6A	HNF-6
15	ONECUT1	ENSG00000169856	ENST00000561401	processed_transcript	PUTATIVE	None	8138	None	None	53049638	53083273	-1	HNF6, HNF6A	HNF-6
15	ONECUT1	ENSG00000169856	ENST00000570208	nonsense_mediated_decay	KNOWN	None	8138	547	181	53077922	53081593	-1	HNF6, HNF6A	HNF-6
1	FDPS	ENSG00000160752	ENST00000468479	processed_transcript	KNOWN	None	3631	None	None	155278546	155289479	1	None	None
1	FDPS	ENSG00000160752	ENST00000461507	processed_transcript	KNOWN	None	3631	None	None	155278594	155288454	1	None	None
1	FDPS	ENSG00000160752	ENST00000467076	processed_transcript	KNOWN	None	3631	None	None	155278609	155289478	1	None	None
1	FDPS	ENSG00000160752	ENST00000368356	protein_coding	KNOWN	CCDS1110	3631	1260	419	155278643	155290456	1	None	None
1	FDPS	ENSG00000160752	ENST00000474345	processed_transcript	KNOWN	None	3631	None	None	155278645	155288078	1	None	None
1	FDPS	ENSG00000160752	ENST00000471117	processed_transcript	KNOWN	None	3631	None	None	155278654	155288264	1	None	None
1	FDPS	ENSG00000160752	ENST00000495308	processed_transcript	KNOWN	None	3631	None	None	155278684	155288309	1	None	None
1	FDPS	ENSG00000160752	ENST00000487002	processed_transcript	KNOWN	None	3631	None	None	155278705	155282770	1	None	None
1	FDPS	ENSG00000160752	ENST00000491013	processed_transcript	KNOWN	None	3631	None	None	155278705	155288696	1	None	None
1	FDPS	ENSG00000160752	ENST00000356657	protein_coding	KNOWN	CCDS1110	3631	1260	419	155278707	155290456	1	None	None
1	FDPS	ENSG00000160752	ENST00000465559	processed_transcript	KNOWN	None	3631	None	None	155278750	155287773	1	None	None
1	FDPS	ENSG00000160752	ENST00000470171	processed_transcript	KNOWN	None	3631	None	None	155278759	155288605	1	None	None
1	FDPS	ENSG00000160752	ENST00000489003	processed_transcript	KNOWN	None	3631	None	None	155278775	155288478	1	None	None
1	FDPS	ENSG00000160752	ENST00000477057	processed_transcript	KNOWN	None	3631	None	None	155278776	155288719	1	None	None
1	FDPS	ENSG00000160752	ENST00000492887	processed_transcript	KNOWN	None	3631	None	None	155287966	155289676	1	None	None
1	FDPS	ENSG00000160752	ENST00000492244	processed_transcript	KNOWN	None	3631	None	None	155287979	155290456	1	None	None
1	FDPS	ENSG00000160752	ENST00000490140	processed_transcript	KNOWN	None	3631	None	None	155288510	155290456	1	None	None
1	FDPS	ENSG00000160752	ENST00000489324	processed_transcript	KNOWN	None	3631	None	None	155289446	155290400	1	None	None
1	FDPS	ENSG00000160752	ENST00000447866	protein_coding	KNOWN	CCDS44241	3631	1062	353	155278539	155290457	1	None	None
6	CLDN20	ENSG00000171217	ENST00000367165	protein_coding	KNOWN	CCDS5249	2042	660	219	155585147	155597682	1	None	None
3	CAMKV	ENSG00000164076	ENST00000475665	retained_intron	KNOWN	None	28788	None	None	49895421	49907336	-1	None	MGC8407, VACAMKL
3	CAMKV	ENSG00000164076	ENST00000296471	protein_coding	KNOWN	None	28788	1422	473	49895422	49907338	-1	None	MGC8407, VACAMKL
3	CAMKV	ENSG00000164076	ENST00000488336	protein_coding	KNOWN	None	28788	1413	470	49895422	49907339	-1	None	MGC8407, VACAMKL
3	CAMKV	ENSG00000164076	ENST00000463537	protein_coding	NOVEL	None	28788	1305	434	49895422	49907364	-1	None	MGC8407, VACAMKL
3	CAMKV	ENSG00000164076	ENST00000477224	protein_coding	KNOWN	CCDS33762	28788	1506	501	49895422	49907655	-1	None	MGC8407, VACAMKL
3	CAMKV	ENSG00000164076	ENST00000487726	nonsense_mediated_decay	KNOWN	None	28788	285	94	49896694	49907336	-1	None	MGC8407, VACAMKL
3	CAMKV	ENSG00000164076	ENST00000467248	protein_coding	PUTATIVE	None	28788	1281	426	49896694	49907339	-1	None	MGC8407, VACAMKL
3	CAMKV	ENSG00000164076	ENST00000466940	protein_coding	NOVEL	None	28788	1284	427	49896726	49907342	-1	None	MGC8407, VACAMKL
3	CAMKV	ENSG00000164076	ENST00000478149	retained_intron	KNOWN	None	28788	None	None	49897202	49898457	-1	None	MGC8407, VACAMKL
3	CAMKV	ENSG00000164076	ENST00000466535	nonsense_mediated_decay	KNOWN	None	28788	432	143	49897633	49907338	-1	None	MGC8407, VACAMKL
3	CAMKV	ENSG00000164076	ENST00000483811	retained_intron	KNOWN	None	28788	None	None	49897927	49899839	-1	None	MGC8407, VACAMKL
3	CAMKV	ENSG00000164076	ENST00000480398	protein_coding	NOVEL	None	28788	369	122	49898376	49907368	-1	None	MGC8407, VACAMKL
3	CAMKV	ENSG00000164076	ENST00000472895	retained_intron	KNOWN	None	28788	None	None	49898392	49899839	-1	None	MGC8407, VACAMKL
3	CAMKV	ENSG00000164076	ENST00000479704	retained_intron	KNOWN	None	28788	None	None	49898563	49907338	-1	None	MGC8407, VACAMKL
3	CAMKV	ENSG00000164076	ENST00000498324	processed_transcript	KNOWN	None	28788	None	None	49898897	49907338	-1	None	MGC8407, VACAMKL
3	CAMKV	ENSG00000164076	ENST00000476105	retained_intron	KNOWN	None	28788	None	None	49899222	49907338	-1	None	MGC8407, VACAMKL
1	C8B	ENSG00000021852	ENST00000371237	protein_coding	KNOWN	CCDS30730	1353	1776	591	57394883	57431688	-1	None	None
1	C8B	ENSG00000021852	ENST00000465658	retained_intron	KNOWN	None	1353	None	None	57397267	57399054	-1	None	None
1	C8B	ENSG00000021852	ENST00000468990	processed_transcript	KNOWN	None	1353	None	None	57422528	57431730	-1	None	None
1	C8B	ENSG00000021852	ENST00000494324	processed_transcript	KNOWN	None	1353	None	None	57425736	57431813	-1	None	None
1	C8B	ENSG00000021852	ENST00000543257	protein_coding	KNOWN	None	1353	1620	539	57394885	57431810	-1	None	None
1	C8B	ENSG00000021852	ENST00000535057	protein_coding	KNOWN	None	1353	1590	529	57395026	57431730	-1	None	None
12	ATXN7L3B	ENSG00000253719	ENST00000519948	protein_coding	NOVEL	CCDS53815	37931	294	97	74931551	74935223	1	None	None
15	CLK3	ENSG00000179335	ENST00000564353	processed_transcript	KNOWN	None	2071	None	None	74890841	74901068	1	None	clk3
15	CLK3	ENSG00000179335	ENST00000567992	processed_transcript	PUTATIVE	None	2071	None	None	74897923	74901068	1	None	clk3
15	CLK3	ENSG00000179335	ENST00000345005	protein_coding	KNOWN	CCDS10265	2071	1473	490	74900713	74922542	1	None	clk3
15	CLK3	ENSG00000179335	ENST00000483723	nonsense_mediated_decay	KNOWN	None	2071	459	152	74900713	74922542	1	None	clk3
15	CLK3	ENSG00000179335	ENST00000562389	protein_coding	KNOWN	None	2071	351	116	74907170	74912548	1	None	clk3
15	CLK3	ENSG00000179335	ENST00000395066	protein_coding	KNOWN	CCDS45304	2071	1917	638	74907335	74922467	1	None	clk3
15	CLK3	ENSG00000179335	ENST00000454830	retained_intron	KNOWN	None	2071	None	None	74908137	74922541	1	None	clk3
15	CLK3	ENSG00000179335	ENST00000569063	nonsense_mediated_decay	KNOWN	None	2071	522	173	74908177	74919742	1	None	clk3
15	CLK3	ENSG00000179335	ENST00000568139	protein_coding	NOVEL	None	2071	918	305	74908180	74918308	1	None	clk3
15	CLK3	ENSG00000179335	ENST00000563297	protein_coding	PUTATIVE	None	2071	57	18	74908185	74918212	1	None	clk3
15	CLK3	ENSG00000179335	ENST00000568488	protein_coding	NOVEL	None	2071	481	159	74908196	74917310	1	None	clk3
15	CLK3	ENSG00000179335	ENST00000568605	retained_intron	KNOWN	None	2071	None	None	74908213	74918235	1	None	clk3
15	CLK3	ENSG00000179335	ENST00000566126	protein_coding	KNOWN	None	2071	674	223	74908233	74918166	1	None	clk3
15	CLK3	ENSG00000179335	ENST00000570296	retained_intron	KNOWN	None	2071	None	None	74908256	74913078	1	None	clk3
15	CLK3	ENSG00000179335	ENST00000562670	protein_coding	NOVEL	None	2071	436	144	74911430	74914901	1	None	clk3
15	CLK3	ENSG00000179335	ENST00000564096	protein_coding	KNOWN	None	2071	717	238	74911450	74918209	1	None	clk3
15	CLK3	ENSG00000179335	ENST00000569406	retained_intron	KNOWN	None	2071	None	None	74912563	74922536	1	None	clk3
15	CLK3	ENSG00000179335	ENST00000563112	retained_intron	KNOWN	None	2071	None	None	74913909	74914850	1	None	clk3
15	CLK3	ENSG00000179335	ENST00000562078	retained_intron	KNOWN	None	2071	None	None	74915961	74922457	1	None	clk3
15	CLK3	ENSG00000179335	ENST00000563842	protein_coding	PUTATIVE	None	2071	570	189	74916460	74921310	1	None	clk3
15	CLK3	ENSG00000179335	ENST00000564468	nonsense_mediated_decay	KNOWN	None	2071	178	58	74918194	74922303	1	None	clk3
15	CLK3	ENSG00000179335	ENST00000566926	protein_coding	PUTATIVE	None	2071	582	193	74919779	74921626	1	None	clk3
15	CLK3	ENSG00000179335	ENST00000567805	processed_transcript	PUTATIVE	None	2071	None	None	74919958	74921477	1	None	clk3
15	CLK3	ENSG00000179335	ENST00000561673	processed_transcript	KNOWN	None	2071	None	None	74920325	74932057	1	None	clk3
15	CLK3	ENSG00000179335	ENST00000562626	retained_intron	KNOWN	None	2071	None	None	74920933	74922002	1	None	clk3
15	CLK3	ENSG00000179335	ENST00000563418	protein_coding	PUTATIVE	None	2071	211	69	74920935	74927832	1	None	clk3
15	CLK3	ENSG00000179335	ENST00000568232	retained_intron	KNOWN	None	2071	None	None	74921502	74922459	1	None	clk3
15	CLK3	ENSG00000179335	ENST00000352989	protein_coding	KNOWN	None	2071	1404	467	74908215	74922457	1	None	clk3
15	CLK3	ENSG00000179335	ENST00000348245	protein_coding	KNOWN	None	2071	459	152	74908215	74922457	1	None	clk3
6	NOX3	ENSG00000074771	ENST00000159060	protein_coding	KNOWN	CCDS5250	7890	1707	568	155716504	155777037	-1	None	GP91-3
2	CLK1	ENSG00000013441	ENST00000321356	protein_coding	KNOWN	CCDS2331	2068	1455	484	201717732	201729422	-1	None	None
2	CLK1	ENSG00000013441	ENST00000461981	retained_intron	KNOWN	None	2068	None	None	201717799	201725706	-1	None	None
2	CLK1	ENSG00000013441	ENST00000464454	retained_intron	KNOWN	None	2068	None	None	201717800	201718736	-1	None	None
2	CLK1	ENSG00000013441	ENST00000432425	nonsense_mediated_decay	KNOWN	None	2068	411	136	201717804	201729379	-1	None	None
2	CLK1	ENSG00000013441	ENST00000473565	retained_intron	KNOWN	None	2068	None	None	201717804	201729414	-1	None	None
2	CLK1	ENSG00000013441	ENST00000472679	retained_intron	KNOWN	None	2068	None	None	201717805	201718718	-1	None	None
2	CLK1	ENSG00000013441	ENST00000409769	protein_coding	NOVEL	None	2068	924	307	201717821	201722889	-1	None	None
2	CLK1	ENSG00000013441	ENST00000409403	nonsense_mediated_decay	KNOWN	None	2068	1068	355	201717836	201729385	-1	None	None
2	CLK1	ENSG00000013441	ENST00000434813	protein_coding	NOVEL	CCDS54427	2068	1581	526	201717919	201729284	-1	None	None
2	CLK1	ENSG00000013441	ENST00000461326	retained_intron	KNOWN	None	2068	None	None	201717970	201718857	-1	None	None
2	CLK1	ENSG00000013441	ENST00000496205	retained_intron	KNOWN	None	2068	None	None	201718055	201719609	-1	None	None
2	CLK1	ENSG00000013441	ENST00000492793	processed_transcript	KNOWN	None	2068	None	None	201725688	201729380	-1	None	None
2	CLK1	ENSG00000013441	ENST00000481641	retained_intron	KNOWN	None	2068	None	None	201725813	201728975	-1	None	None
2	CLK1	ENSG00000013441	ENST00000482590	retained_intron	KNOWN	None	2068	None	None	201726055	201729381	-1	None	None
1	GNPAT	ENSG00000116906	ENST00000436239	protein_coding	KNOWN	None	4416	667	221	231376953	231401837	1	None	DHAPAT, DAPAT, DAP-AT
1	GNPAT	ENSG00000116906	ENST00000366647	protein_coding	KNOWN	CCDS1592	4416	2043	680	231376956	231413719	1	None	DHAPAT, DAPAT, DAP-AT
1	GNPAT	ENSG00000116906	ENST00000416000	protein_coding	KNOWN	None	4416	1761	586	231376962	231411014	1	None	DHAPAT, DAPAT, DAP-AT
1	GNPAT	ENSG00000116906	ENST00000492459	processed_transcript	KNOWN	None	4416	None	None	231401880	231405802	1	None	DHAPAT, DAPAT, DAP-AT
1	GNPAT	ENSG00000116906	ENST00000469332	processed_transcript	KNOWN	None	4416	None	None	231410642	231413276	1	None	DHAPAT, DAPAT, DAP-AT
1	GNPAT	ENSG00000116906	ENST00000366646	protein_coding	KNOWN	None	4416	1860	619	231376958	231413337	1	None	DHAPAT, DAPAT, DAP-AT
3	CHL1	ENSG00000134121	ENST00000256509	protein_coding	KNOWN	CCDS2556	1939	3675	1224	238279	451090	1	None	CALL, L1CAM2, FLJ44930, MGC132578
3	CHL1	ENSG00000134121	ENST00000481167	processed_transcript	KNOWN	None	1939	None	None	238454	288539	1	None	CALL, L1CAM2, FLJ44930, MGC132578
3	CHL1	ENSG00000134121	ENST00000397491	protein_coding	KNOWN	CCDS58812	1939	3627	1208	238454	448535	1	None	CALL, L1CAM2, FLJ44930, MGC132578
3	CHL1	ENSG00000134121	ENST00000427688	protein_coding	KNOWN	None	1939	197	64	238466	367747	1	None	CALL, L1CAM2, FLJ44930, MGC132578
3	CHL1	ENSG00000134121	ENST00000421198	protein_coding	KNOWN	None	1939	290	95	238973	369942	1	None	CALL, L1CAM2, FLJ44930, MGC132578
3	CHL1	ENSG00000134121	ENST00000489224	processed_transcript	KNOWN	None	1939	None	None	239326	290280	1	None	CALL, L1CAM2, FLJ44930, MGC132578
3	CHL1	ENSG00000134121	ENST00000453040	nonsense_mediated_decay	KNOWN	None	1939	282	93	239327	440831	1	None	CALL, L1CAM2, FLJ44930, MGC132578
3	CHL1	ENSG00000134121	ENST00000435603	protein_coding	KNOWN	None	1939	543	180	239690	383629	1	None	CALL, L1CAM2, FLJ44930, MGC132578
3	CHL1	ENSG00000134121	ENST00000486881	processed_transcript	KNOWN	None	1939	None	None	239697	255362	1	None	CALL, L1CAM2, FLJ44930, MGC132578
3	CHL1	ENSG00000134121	ENST00000449294	protein_coding	KNOWN	None	1939	254	83	259218	369906	1	None	CALL, L1CAM2, FLJ44930, MGC132578
3	CHL1	ENSG00000134121	ENST00000461289	processed_transcript	KNOWN	None	1939	None	None	361487	370139	1	None	CALL, L1CAM2, FLJ44930, MGC132578
3	CHL1	ENSG00000134121	ENST00000471332	processed_transcript	KNOWN	None	1939	None	None	403381	405185	1	None	CALL, L1CAM2, FLJ44930, MGC132578
3	CHL1	ENSG00000134121	ENST00000470880	processed_transcript	KNOWN	None	1939	None	None	415279	431023	1	None	CALL, L1CAM2, FLJ44930, MGC132578
3	CHL1	ENSG00000134121	ENST00000470005	processed_transcript	KNOWN	None	1939	None	None	423869	426348	1	None	CALL, L1CAM2, FLJ44930, MGC132578
3	CHL1	ENSG00000134121	ENST00000445697	protein_coding	NOVEL	None	1939	1076	357	431128	447422	1	None	CALL, L1CAM2, FLJ44930, MGC132578
X	CTAG1A	ENSG00000183678	ENST00000443287	protein_coding	PUTATIVE	None	24198	507	168	153813407	153815075	1	None	LAGE2A, ESO1
X	CTAG1A	ENSG00000183678	ENST00000333128	protein_coding	KNOWN	CCDS44025	24198	543	180	153813418	153815074	1	None	LAGE2A, ESO1
17	GPS1	ENSG00000169727	ENST00000583983	processed_transcript	PUTATIVE	None	4549	None	None	80008567	80009713	1	None	COPS1, CSN1
17	GPS1	ENSG00000169727	ENST00000582327	protein_coding	PUTATIVE	None	4549	402	133	80008824	80012527	1	None	COPS1, CSN1
17	GPS1	ENSG00000169727	ENST00000585084	protein_coding	PUTATIVE	None	4549	632	209	80009051	80012844	1	None	COPS1, CSN1
17	GPS1	ENSG00000169727	ENST00000580716	protein_coding	PUTATIVE	None	4549	504	167	80009353	80012617	1	None	COPS1, CSN1
17	GPS1	ENSG00000169727	ENST00000583961	protein_coding	KNOWN	None	4549	505	167	80009376	80012462	1	None	COPS1, CSN1
17	GPS1	ENSG00000169727	ENST00000578552	protein_coding	KNOWN	None	4549	1464	487	80009741	80015346	1	None	COPS1, CSN1
17	GPS1	ENSG00000169727	ENST00000320548	protein_coding	PUTATIVE	None	4549	1416	471	80009751	80015346	1	None	COPS1, CSN1
17	GPS1	ENSG00000169727	ENST00000581578	protein_coding	PUTATIVE	None	4549	305	100	80009773	80012418	1	None	COPS1, CSN1
17	GPS1	ENSG00000169727	ENST00000583885	protein_coding	NOVEL	None	4549	559	185	80009773	80012435	1	None	COPS1, CSN1
17	GPS1	ENSG00000169727	ENST00000583641	protein_coding	NOVEL	None	4549	760	252	80009773	80012633	1	None	COPS1, CSN1
17	GPS1	ENSG00000169727	ENST00000578642	retained_intron	KNOWN	None	4549	None	None	80009774	80011661	1	None	COPS1, CSN1
17	GPS1	ENSG00000169727	ENST00000581418	protein_coding	PUTATIVE	None	4549	419	138	80009777	80012544	1	None	COPS1, CSN1
17	GPS1	ENSG00000169727	ENST00000580141	nonsense_mediated_decay	KNOWN	None	4549	135	44	80009777	80013895	1	None	COPS1, CSN1
17	GPS1	ENSG00000169727	ENST00000580627	nonsense_mediated_decay	KNOWN	None	4549	183	60	80009778	80012558	1	None	COPS1, CSN1
17	GPS1	ENSG00000169727	ENST00000578392	nonsense_mediated_decay	KNOWN	None	4549	282	93	80009784	80012418	1	None	COPS1, CSN1
17	GPS1	ENSG00000169727	ENST00000306823	protein_coding	KNOWN	CCDS32774	4549	1476	491	80009785	80015346	1	None	COPS1, CSN1
17	GPS1	ENSG00000169727	ENST00000584229	processed_transcript	PUTATIVE	None	4549	None	None	80009801	80011101	1	None	COPS1, CSN1
17	GPS1	ENSG00000169727	ENST00000580723	nonsense_mediated_decay	KNOWN	None	4549	135	44	80009803	80012614	1	None	COPS1, CSN1
17	GPS1	ENSG00000169727	ENST00000584460	nonsense_mediated_decay	KNOWN	None	4549	135	44	80009805	80015339	1	None	COPS1, CSN1
17	GPS1	ENSG00000169727	ENST00000392358	protein_coding	KNOWN	CCDS11800	4549	1584	527	80009834	80015346	1	None	COPS1, CSN1
17	GPS1	ENSG00000169727	ENST00000583009	protein_coding	NOVEL	None	4549	500	165	80010109	80012445	1	None	COPS1, CSN1
17	GPS1	ENSG00000169727	ENST00000392357	retained_intron	KNOWN	None	4549	None	None	80010446	80015346	1	None	COPS1, CSN1
17	GPS1	ENSG00000169727	ENST00000578279	retained_intron	KNOWN	None	4549	None	None	80012828	80014993	1	None	COPS1, CSN1
17	GPS1	ENSG00000169727	ENST00000578168	protein_coding	NOVEL	None	4549	240	79	80014400	80015346	1	None	COPS1, CSN1
17	GPS1	ENSG00000169727	ENST00000583486	retained_intron	KNOWN	None	4549	None	None	80014400	80015346	1	None	COPS1, CSN1
17	GPS1	ENSG00000169727	ENST00000355130	protein_coding	KNOWN	CCDS11800	4549	1584	527	80009778	80015003	1	None	COPS1, CSN1
X	CTAG1B	ENSG00000184033	ENST00000328435	protein_coding	KNOWN	CCDS14758	2491	543	180	153845865	153847522	-1	CTAG, CTAG1	NY-ESO-1, LAGE2B, LAGE2A, ESO1, CT6.1
X	CTAG1B	ENSG00000184033	ENST00000359887	protein_coding	PUTATIVE	None	2491	507	168	153845865	153847533	-1	CTAG, CTAG1	NY-ESO-1, LAGE2B, LAGE2A, ESO1, CT6.1
X	CTAG2	ENSG00000126890	ENST00000247306	protein_coding	PUTATIVE	CCDS14759	2492	633	210	153880246	153881853	-1	None	LAGE-1, CAMEL, LAGE1, ESO2, MGC3803, MGC138724, CT6.2a, CT6.2b, LAGE-1a, LAGE-1b
X	CTAG2	ENSG00000126890	ENST00000369585	protein_coding	KNOWN	CCDS35455	2492	543	180	153880251	153881842	-1	None	LAGE-1, CAMEL, LAGE1, ESO2, MGC3803, MGC138724, CT6.2a, CT6.2b, LAGE-1a, LAGE-1b
19	ZNF382	ENSG00000161298	ENST00000423582	protein_coding	PUTATIVE	None	17409	1506	501	37095719	37118894	1	None	FLJ14686, KS1
19	ZNF382	ENSG00000161298	ENST00000460384	retained_intron	KNOWN	None	17409	None	None	37096215	37098994	1	None	FLJ14686, KS1
19	ZNF382	ENSG00000161298	ENST00000460670	protein_coding	KNOWN	None	17409	76	24	37096215	37100895	1	None	FLJ14686, KS1
19	ZNF382	ENSG00000161298	ENST00000292928	protein_coding	KNOWN	CCDS33004	17409	1653	550	37096221	37119499	1	None	FLJ14686, KS1
19	ZNF382	ENSG00000161298	ENST00000463910	retained_intron	KNOWN	None	17409	None	None	37096230	37098713	1	None	FLJ14686, KS1
19	ZNF382	ENSG00000161298	ENST00000439428	protein_coding	KNOWN	CCDS58659	17409	1650	549	37096237	37119469	1	None	FLJ14686, KS1
19	ZNF382	ENSG00000161298	ENST00000435416	protein_coding	KNOWN	None	17409	1650	549	37099322	37119172	1	None	FLJ14686, KS1
19	ZNF382	ENSG00000161298	ENST00000590785	protein_coding	PUTATIVE	None	17409	552	183	37101400	37117498	1	None	FLJ14686, KS1
1	EXOC8	ENSG00000116903	ENST00000366645	protein_coding	KNOWN	None	24659	2166	721	231468499	231473598	-1	None	SEC84, EXO84, Exo84p
1	EXOC8	ENSG00000116903	ENST00000360394	protein_coding	KNOWN	CCDS1593	24659	2178	725	231468480	231473578	-1	None	SEC84, EXO84, Exo84p
1	SPRTN	ENSG00000010072	ENST00000391858	protein_coding	KNOWN	CCDS31054	25356	753	250	231472850	231488878	1	C1orf124	DKFZP547N043, Spartan, DVC1
1	SPRTN	ENSG00000010072	ENST00000295050	protein_coding	KNOWN	CCDS1594	25356	1470	489	231473794	231490769	1	C1orf124	DKFZP547N043, Spartan, DVC1
1	SPRTN	ENSG00000010072	ENST00000008440	protein_coding	KNOWN	CCDS58066	25356	624	207	231474002	231488267	1	C1orf124	DKFZP547N043, Spartan, DVC1
1	SPRTN	ENSG00000010072	ENST00000492437	processed_transcript	KNOWN	None	25356	None	None	231474041	231475807	1	C1orf124	DKFZP547N043, Spartan, DVC1
1	SPRTN	ENSG00000010072	ENST00000366644	protein_coding	KNOWN	None	25356	561	186	231475173	231488510	1	C1orf124	DKFZP547N043, Spartan, DVC1
1	SPRTN	ENSG00000010072	ENST00000469904	processed_transcript	KNOWN	None	25356	None	None	231483423	231488500	1	C1orf124	DKFZP547N043, Spartan, DVC1
12	KCNC2	ENSG00000166006	ENST00000550433	protein_coding	KNOWN	CCDS58256	6234	1890	629	75433857	75601784	-1	None	Kv3.2
12	KCNC2	ENSG00000166006	ENST00000548513	protein_coding	KNOWN	CCDS9005	6234	1842	613	75433857	75601784	-1	None	Kv3.2
12	KCNC2	ENSG00000166006	ENST00000549446	protein_coding	KNOWN	CCDS9007	6234	1917	638	75433858	75603648	-1	None	Kv3.2
12	KCNC2	ENSG00000166006	ENST00000350228	protein_coding	KNOWN	CCDS9006	6234	1677	558	75433897	75603511	-1	None	Kv3.2
12	KCNC2	ENSG00000166006	ENST00000540018	protein_coding	NOVEL	CCDS58255	6234	1752	583	75436741	75603239	-1	None	Kv3.2
12	KCNC2	ENSG00000166006	ENST00000393288	protein_coding	PUTATIVE	CCDS58257	6234	1857	618	75437137	75603215	-1	None	Kv3.2
12	KCNC2	ENSG00000166006	ENST00000548243	processed_transcript	PUTATIVE	None	6234	None	None	75442009	75444707	-1	None	Kv3.2
12	KCNC2	ENSG00000166006	ENST00000546456	processed_transcript	KNOWN	None	6234	None	None	75444847	75533976	-1	None	Kv3.2
12	KCNC2	ENSG00000166006	ENST00000341669	protein_coding	KNOWN	CCDS58256	6234	1890	629	75433896	75603511	-1	None	Kv3.2
12	KCNC2	ENSG00000166006	ENST00000298972	protein_coding	KNOWN	CCDS9005	6234	1842	613	75433896	75603511	-1	None	Kv3.2
1	DAB1	ENSG00000173406	ENST00000371236	protein_coding	KNOWN	CCDS607	2661	1668	555	57460451	57889729	-1	None	None
1	DAB1	ENSG00000173406	ENST00000485760	processed_transcript	KNOWN	None	2661	None	None	57463572	59012406	-1	None	None
1	DAB1	ENSG00000173406	ENST00000371231	protein_coding	KNOWN	None	2661	1767	588	57476368	57756737	-1	None	None
1	DAB1	ENSG00000173406	ENST00000371232	protein_coding	KNOWN	None	2661	717	238	57481025	57756737	-1	None	None
1	DAB1	ENSG00000173406	ENST00000332102	protein_coding	KNOWN	None	2661	612	203	57528563	57756737	-1	None	None
1	DAB1	ENSG00000173406	ENST00000371230	protein_coding	KNOWN	None	2661	642	213	57536407	57889729	-1	None	None
1	DAB1	ENSG00000173406	ENST00000489267	processed_transcript	KNOWN	None	2661	None	None	57536851	57602256	-1	None	None
1	DAB1	ENSG00000173406	ENST00000473821	processed_transcript	KNOWN	None	2661	None	None	57611090	57773036	-1	None	None
1	DAB1	ENSG00000173406	ENST00000477280	processed_transcript	KNOWN	None	2661	None	None	58291743	58349757	-1	None	None
1	DAB1	ENSG00000173406	ENST00000371234	protein_coding	KNOWN	CCDS607	2661	1668	555	57463579	58716211	-1	None	None
1	DAB1	ENSG00000173406	ENST00000420954	protein_coding	KNOWN	None	2661	1662	553	57463698	57756738	-1	None	None
1	DAB1	ENSG00000173406	ENST00000414851	protein_coding	KNOWN	None	2661	1614	537	57463698	57756738	-1	None	None
1	DAB1	ENSG00000173406	ENST00000439789	protein_coding	KNOWN	None	2661	1410	469	57463698	57756738	-1	None	None
1	RUSC1	ENSG00000160753	ENST00000368354	protein_coding	KNOWN	CCDS41411	17153	2391	796	155290687	155300903	1	None	NESCA
1	RUSC1	ENSG00000160753	ENST00000368352	protein_coding	KNOWN	CCDS41410	17153	2709	902	155290718	155300905	1	None	NESCA
1	RUSC1	ENSG00000160753	ENST00000467820	processed_transcript	KNOWN	None	17153	None	None	155292803	155296525	1	None	NESCA
1	RUSC1	ENSG00000160753	ENST00000484664	processed_transcript	KNOWN	None	17153	None	None	155292807	155298066	1	None	NESCA
1	RUSC1	ENSG00000160753	ENST00000497930	processed_transcript	KNOWN	None	17153	None	None	155293316	155296819	1	None	NESCA
1	RUSC1	ENSG00000160753	ENST00000368347	protein_coding	KNOWN	CCDS41412	17153	1479	492	155293728	155300905	1	None	NESCA
1	RUSC1	ENSG00000160753	ENST00000489860	processed_transcript	KNOWN	None	17153	None	None	155294069	155296713	1	None	NESCA
1	RUSC1	ENSG00000160753	ENST00000462780	processed_transcript	KNOWN	None	17153	None	None	155294232	155300520	1	None	NESCA
1	RUSC1	ENSG00000160753	ENST00000368349	protein_coding	KNOWN	CCDS1112	17153	1302	433	155294304	155300903	1	None	NESCA
1	RUSC1	ENSG00000160753	ENST00000492536	processed_transcript	KNOWN	None	17153	None	None	155294310	155296606	1	None	NESCA
1	RUSC1	ENSG00000160753	ENST00000490373	processed_transcript	KNOWN	None	17153	None	None	155294313	155300521	1	None	NESCA
1	RUSC1	ENSG00000160753	ENST00000479924	processed_transcript	KNOWN	None	17153	None	None	155294314	155298066	1	None	NESCA
1	RUSC1	ENSG00000160753	ENST00000468764	processed_transcript	KNOWN	None	17153	None	None	155294318	155296521	1	None	NESCA
1	RUSC1	ENSG00000160753	ENST00000471876	processed_transcript	KNOWN	None	17153	None	None	155294330	155300905	1	None	NESCA
1	RUSC1	ENSG00000160753	ENST00000292254	protein_coding	KNOWN	CCDS1112	17153	1302	433	155294368	155300905	1	None	NESCA
1	RUSC1	ENSG00000160753	ENST00000473331	processed_transcript	KNOWN	None	17153	None	None	155295034	155296675	1	None	NESCA
1	RUSC1	ENSG00000160753	ENST00000485924	processed_transcript	KNOWN	None	17153	None	None	155295358	155296923	1	None	NESCA
2	PPIL3	ENSG00000240344	ENST00000286175	protein_coding	KNOWN	CCDS2332	9262	498	165	201735630	201753992	-1	None	CyPJ
2	PPIL3	ENSG00000240344	ENST00000392283	protein_coding	KNOWN	CCDS2333	9262	486	161	201735679	201753877	-1	None	CyPJ
2	PPIL3	ENSG00000240344	ENST00000465823	processed_transcript	KNOWN	None	9262	None	None	201735679	201753999	-1	None	CyPJ
2	PPIL3	ENSG00000240344	ENST00000415562	nonsense_mediated_decay	KNOWN	None	9262	162	53	201735875	201752410	-1	None	CyPJ
2	PPIL3	ENSG00000240344	ENST00000409264	protein_coding	PUTATIVE	None	9262	543	180	201735936	201753738	-1	None	CyPJ
2	PPIL3	ENSG00000240344	ENST00000409361	protein_coding	NOVEL	None	9262	474	157	201735953	201753859	-1	None	CyPJ
2	PPIL3	ENSG00000240344	ENST00000409449	protein_coding	KNOWN	CCDS2332	9262	498	165	201735990	201754026	-1	None	CyPJ
2	PPIL3	ENSG00000240344	ENST00000463866	retained_intron	KNOWN	None	9262	None	None	201736097	201746465	-1	None	CyPJ
2	PPIL3	ENSG00000240344	ENST00000497263	processed_transcript	KNOWN	None	9262	None	None	201741665	201753789	-1	None	CyPJ
2	PPIL3	ENSG00000240344	ENST00000443398	protein_coding	PUTATIVE	None	9262	220	72	201741687	201753989	-1	None	CyPJ
2	PPIL3	ENSG00000240344	ENST00000457063	protein_coding	KNOWN	None	9262	240	79	201746144	201753302	-1	None	CyPJ
2	PPIL3	ENSG00000240344	ENST00000492074	processed_transcript	KNOWN	None	9262	None	None	201746145	201753880	-1	None	CyPJ
2	PPIL3	ENSG00000240344	ENST00000470442	retained_intron	KNOWN	None	9262	None	None	201749625	201753769	-1	None	CyPJ
2	PPIL3	ENSG00000240344	ENST00000497501	processed_transcript	KNOWN	None	9262	None	None	201750020	201754019	-1	None	CyPJ
2	PPIL3	ENSG00000240344	ENST00000487879	retained_intron	KNOWN	None	9262	None	None	201750042	201753767	-1	None	CyPJ
1	EGLN1	ENSG00000135766	ENST00000366641	protein_coding	KNOWN	CCDS1595	1232	1281	426	231499497	231560790	-1	C1orf12	SM-20, PHD2, ZMYND6, HIFPH2
1	EGLN1	ENSG00000135766	ENST00000476717	processed_transcript	KNOWN	None	1232	None	None	231501886	231556089	-1	C1orf12	SM-20, PHD2, ZMYND6, HIFPH2
3	MUSTN1	ENSG00000243696	ENST00000468472	nonsense_mediated_decay	KNOWN	None	22144	291	96	52847298	52869745	-1	None	Mustang
3	MUSTN1	ENSG00000243696	ENST00000513520	protein_coding	PUTATIVE	None	22144	178	58	52863894	52867661	-1	None	Mustang
3	MUSTN1	ENSG00000243696	ENST00000486659	protein_coding	PUTATIVE	None	22144	264	87	52867130	52868931	-1	None	Mustang
3	MUSTN1	ENSG00000243696	ENST00000446157	protein_coding	KNOWN	CCDS46846	22144	249	82	52867139	52869235	-1	None	Mustang
7	None	ENSG00000228273	ENST00000379458	protein_coding	KNOWN	None	None	1005	334	100547257	100550424	1	None	None
X	GPC3	ENSG00000147257	ENST00000370818	protein_coding	KNOWN	CCDS14638	4451	1743	580	132669773	133119922	-1	SDYS	OCI-5, SGBS, SGBS1, SGB, DGSX
X	GPC3	ENSG00000147257	ENST00000406757	protein_coding	KNOWN	None	4451	770	255	132730394	132887729	-1	SDYS	OCI-5, SGBS, SGBS1, SGB, DGSX
X	GPC3	ENSG00000147257	ENST00000394299	protein_coding	KNOWN	CCDS55496	4451	1812	603	132669782	133119673	-1	SDYS	OCI-5, SGBS, SGBS1, SGB, DGSX
X	GPC3	ENSG00000147257	ENST00000543339	protein_coding	KNOWN	CCDS55495	4451	1581	526	132670152	133119476	-1	SDYS	OCI-5, SGBS, SGBS1, SGB, DGSX
2	C2orf78	ENSG00000187833	ENST00000409561	protein_coding	NOVEL	CCDS46338	34349	2769	922	74011316	74044274	1	None	FLJ43987, hCG1989538, COG5373
1	None	ENSG00000270106	ENST00000602634	nonsense_mediated_decay	KNOWN	None	None	417	138	231664399	231954990	1	None	None
1	None	ENSG00000270106	ENST00000602956	nonsense_mediated_decay	KNOWN	None	None	567	188	231664399	231954990	1	None	None
1	None	ENSG00000270106	ENST00000602962	nonsense_mediated_decay	KNOWN	None	None	561	186	231664399	231954990	1	None	None
1	None	ENSG00000270106	ENST00000602885	nonsense_mediated_decay	KNOWN	None	None	123	40	231664399	231954990	1	None	None
1	None	ENSG00000270106	ENST00000602567	nonsense_mediated_decay	KNOWN	None	None	561	186	231664399	231954990	1	None	None
7	POLD2	ENSG00000106628	ENST00000406581	protein_coding	KNOWN	CCDS5477	9176	1410	469	44154286	44163107	-1	None	None
7	POLD2	ENSG00000106628	ENST00000489883	retained_intron	KNOWN	None	9176	None	None	44154287	44155163	-1	None	None
7	POLD2	ENSG00000106628	ENST00000223361	protein_coding	NOVEL	None	9176	1368	455	44154298	44161795	-1	None	None
7	POLD2	ENSG00000106628	ENST00000452185	protein_coding	KNOWN	CCDS5477	9176	1410	469	44154384	44163129	-1	None	None
7	POLD2	ENSG00000106628	ENST00000436400	protein_coding	NOVEL	None	9176	249	82	44155420	44156109	-1	None	None
7	POLD2	ENSG00000106628	ENST00000436844	protein_coding	NOVEL	None	9176	771	256	44155716	44163136	-1	None	None
7	POLD2	ENSG00000106628	ENST00000481104	retained_intron	KNOWN	None	9176	None	None	44156502	44157159	-1	None	None
7	POLD2	ENSG00000106628	ENST00000433715	protein_coding	KNOWN	None	9176	660	219	44156536	44163957	-1	None	None
7	POLD2	ENSG00000106628	ENST00000463464	retained_intron	KNOWN	None	9176	None	None	44156662	44161708	-1	None	None
7	POLD2	ENSG00000106628	ENST00000470867	retained_intron	KNOWN	None	9176	None	None	44156748	44163131	-1	None	None
7	POLD2	ENSG00000106628	ENST00000464871	retained_intron	KNOWN	None	9176	None	None	44156913	44157692	-1	None	None
7	POLD2	ENSG00000106628	ENST00000461116	retained_intron	KNOWN	None	9176	None	None	44157116	44161504	-1	None	None
7	POLD2	ENSG00000106628	ENST00000467469	retained_intron	KNOWN	None	9176	None	None	44157176	44157903	-1	None	None
7	POLD2	ENSG00000106628	ENST00000456038	protein_coding	KNOWN	None	9176	466	154	44157218	44162628	-1	None	None
7	POLD2	ENSG00000106628	ENST00000418438	protein_coding	KNOWN	None	9176	444	147	44157240	44163267	-1	None	None
7	POLD2	ENSG00000106628	ENST00000496539	retained_intron	KNOWN	None	9176	None	None	44157392	44163132	-1	None	None
7	POLD2	ENSG00000106628	ENST00000481763	processed_transcript	KNOWN	None	9176	None	None	44161687	44163095	-1	None	None
9	GOLGA2	ENSG00000167110	ENST00000421699	protein_coding	KNOWN	CCDS6896	4425	3009	1002	131018108	131038268	-1	None	GM130, golgin-95
9	GOLGA2	ENSG00000167110	ENST00000462089	retained_intron	KNOWN	None	4425	None	None	131020824	131022793	-1	None	GM130, golgin-95
9	GOLGA2	ENSG00000167110	ENST00000496221	retained_intron	KNOWN	None	4425	None	None	131020992	131021525	-1	None	GM130, golgin-95
9	GOLGA2	ENSG00000167110	ENST00000486411	retained_intron	KNOWN	None	4425	None	None	131022405	131023270	-1	None	GM130, golgin-95
9	GOLGA2	ENSG00000167110	ENST00000461031	retained_intron	KNOWN	None	4425	None	None	131022945	131023502	-1	None	GM130, golgin-95
9	GOLGA2	ENSG00000167110	ENST00000470630	retained_intron	KNOWN	None	4425	None	None	131023400	131024249	-1	None	GM130, golgin-95
9	GOLGA2	ENSG00000167110	ENST00000450617	protein_coding	PUTATIVE	None	4425	1420	472	131023451	131038274	-1	None	GM130, golgin-95
9	GOLGA2	ENSG00000167110	ENST00000490257	retained_intron	KNOWN	None	4425	None	None	131023471	131029481	-1	None	GM130, golgin-95
9	GOLGA2	ENSG00000167110	ENST00000468488	retained_intron	KNOWN	None	4425	None	None	131023964	131028216	-1	None	GM130, golgin-95
9	GOLGA2	ENSG00000167110	ENST00000458730	protein_coding	PUTATIVE	None	4425	710	235	131024982	131036132	-1	None	GM130, golgin-95
9	GOLGA2	ENSG00000167110	ENST00000490628	protein_coding	PUTATIVE	None	4425	300	99	131035919	131038266	-1	None	GM130, golgin-95
1	TSNAX	ENSG00000116918	ENST00000366639	protein_coding	KNOWN	CCDS1596	12380	873	290	231664399	231702270	1	None	TRAX
1	TSNAX	ENSG00000116918	ENST00000413309	protein_coding	NOVEL	None	12380	490	162	231664401	231696975	1	None	TRAX
1	TSNAX	ENSG00000116918	ENST00000602825	processed_transcript	KNOWN	None	12380	None	None	231664413	231690440	1	None	TRAX
1	TSNAX	ENSG00000116918	ENST00000476913	retained_intron	KNOWN	None	12380	None	None	231665009	231678595	1	None	TRAX
1	TSNAX	ENSG00000116918	ENST00000475168	retained_intron	KNOWN	None	12380	None	None	231669866	231702270	1	None	TRAX
X	TAF1	ENSG00000147133	ENST00000373790	protein_coding	KNOWN	CCDS35325	11535	5619	1872	70586114	70685855	1	TAF2A, BA2R, CCG1, CCGS, DYT3	NSCL2, TAFII250, KAT4, DYT3/TAF1
X	TAF1	ENSG00000147133	ENST00000276072	protein_coding	KNOWN	CCDS14412	11535	5682	1893	70586155	70683896	1	TAF2A, BA2R, CCG1, CCGS, DYT3	NSCL2, TAFII250, KAT4, DYT3/TAF1
X	TAF1	ENSG00000147133	ENST00000483365	retained_intron	KNOWN	None	11535	None	None	70596857	70597835	1	TAF2A, BA2R, CCG1, CCGS, DYT3	NSCL2, TAFII250, KAT4, DYT3/TAF1
X	TAF1	ENSG00000147133	ENST00000472567	retained_intron	KNOWN	None	11535	None	None	70606936	70608151	1	TAF2A, BA2R, CCG1, CCGS, DYT3	NSCL2, TAFII250, KAT4, DYT3/TAF1
X	TAF1	ENSG00000147133	ENST00000478305	retained_intron	KNOWN	None	11535	None	None	70607160	70609623	1	TAF2A, BA2R, CCG1, CCGS, DYT3	NSCL2, TAFII250, KAT4, DYT3/TAF1
X	TAF1	ENSG00000147133	ENST00000474917	retained_intron	KNOWN	None	11535	None	None	70608439	70609480	1	TAF2A, BA2R, CCG1, CCGS, DYT3	NSCL2, TAFII250, KAT4, DYT3/TAF1
X	TAF1	ENSG00000147133	ENST00000483985	protein_coding	PUTATIVE	None	11535	836	277	70613958	70626596	1	TAF2A, BA2R, CCG1, CCGS, DYT3	NSCL2, TAFII250, KAT4, DYT3/TAF1
X	TAF1	ENSG00000147133	ENST00000463163	protein_coding	PUTATIVE	None	11535	452	149	70626496	70636587	1	TAF2A, BA2R, CCG1, CCGS, DYT3	NSCL2, TAFII250, KAT4, DYT3/TAF1
X	TAF1	ENSG00000147133	ENST00000437147	protein_coding	PUTATIVE	None	11535	1757	584	70626529	70750211	1	TAF2A, BA2R, CCG1, CCGS, DYT3	NSCL2, TAFII250, KAT4, DYT3/TAF1
X	TAF1	ENSG00000147133	ENST00000373775	nonsense_mediated_decay	KNOWN	None	11535	1376	457	70626529	70750211	1	TAF2A, BA2R, CCG1, CCGS, DYT3	NSCL2, TAFII250, KAT4, DYT3/TAF1
X	TAF1	ENSG00000147133	ENST00000462588	processed_transcript	KNOWN	None	11535	None	None	70643008	70750205	1	TAF2A, BA2R, CCG1, CCGS, DYT3	NSCL2, TAFII250, KAT4, DYT3/TAF1
X	TAF1	ENSG00000147133	ENST00000485087	processed_transcript	KNOWN	None	11535	None	None	70643008	70750210	1	TAF2A, BA2R, CCG1, CCGS, DYT3	NSCL2, TAFII250, KAT4, DYT3/TAF1
X	TAF1	ENSG00000147133	ENST00000468167	processed_transcript	KNOWN	None	11535	None	None	70643008	70750211	1	TAF2A, BA2R, CCG1, CCGS, DYT3	NSCL2, TAFII250, KAT4, DYT3/TAF1
X	TAF1	ENSG00000147133	ENST00000461764	processed_transcript	KNOWN	None	11535	None	None	70643008	70750211	1	TAF2A, BA2R, CCG1, CCGS, DYT3	NSCL2, TAFII250, KAT4, DYT3/TAF1
X	TAF1	ENSG00000147133	ENST00000492404	processed_transcript	KNOWN	None	11535	None	None	70643828	70684163	1	TAF2A, BA2R, CCG1, CCGS, DYT3	NSCL2, TAFII250, KAT4, DYT3/TAF1
X	TAF1	ENSG00000147133	ENST00000482544	processed_transcript	KNOWN	None	11535	None	None	70678123	70686354	1	TAF2A, BA2R, CCG1, CCGS, DYT3	NSCL2, TAFII250, KAT4, DYT3/TAF1
X	TAF1	ENSG00000147133	ENST00000461157	processed_transcript	KNOWN	None	11535	None	None	70679442	70680810	1	TAF2A, BA2R, CCG1, CCGS, DYT3	NSCL2, TAFII250, KAT4, DYT3/TAF1
X	TAF1	ENSG00000147133	ENST00000467309	processed_transcript	KNOWN	None	11535	None	None	70679520	70752224	1	TAF2A, BA2R, CCG1, CCGS, DYT3	NSCL2, TAFII250, KAT4, DYT3/TAF1
X	TAF1	ENSG00000147133	ENST00000497222	processed_transcript	KNOWN	None	11535	None	None	70712162	70750375	1	TAF2A, BA2R, CCG1, CCGS, DYT3	NSCL2, TAFII250, KAT4, DYT3/TAF1
X	TAF1	ENSG00000147133	ENST00000449580	protein_coding	KNOWN	None	11535	5721	1906	70586114	70685832	1	TAF2A, BA2R, CCG1, CCGS, DYT3	NSCL2, TAFII250, KAT4, DYT3/TAF1
X	TAF1	ENSG00000147133	ENST00000423759	protein_coding	KNOWN	None	11535	5688	1895	70586114	70685832	1	TAF2A, BA2R, CCG1, CCGS, DYT3	NSCL2, TAFII250, KAT4, DYT3/TAF1
10	GATA3	ENSG00000107485	ENST00000481743	processed_transcript	KNOWN	None	4172	None	None	8095567	8097516	1	None	HDR
10	GATA3	ENSG00000107485	ENST00000379328	protein_coding	KNOWN	CCDS31143	4172	1335	444	8096656	8117161	1	None	HDR
10	GATA3	ENSG00000107485	ENST00000346208	protein_coding	KNOWN	CCDS7083	4172	1332	443	8096769	8116853	1	None	HDR
10	GATA3	ENSG00000107485	ENST00000461472	processed_transcript	KNOWN	None	4172	None	None	8100362	8116027	1	None	HDR
1	OMA1	ENSG00000162600	ENST00000467509	processed_transcript	KNOWN	None	29661	None	None	58881056	58996334	-1	None	MPRP-1, YKR087C, ZMPOMA1, FLJ33782
1	OMA1	ENSG00000162600	ENST00000460671	processed_transcript	KNOWN	None	29661	None	None	58928224	58971871	-1	None	MPRP-1, YKR087C, ZMPOMA1, FLJ33782
1	OMA1	ENSG00000162600	ENST00000421528	protein_coding	KNOWN	None	29661	985	327	58933599	59004490	-1	None	MPRP-1, YKR087C, ZMPOMA1, FLJ33782
1	OMA1	ENSG00000162600	ENST00000371226	protein_coding	KNOWN	CCDS608	29661	1575	524	58946391	59012472	-1	None	MPRP-1, YKR087C, ZMPOMA1, FLJ33782
1	OMA1	ENSG00000162600	ENST00000476933	processed_transcript	KNOWN	None	29661	None	None	58946550	58996309	-1	None	MPRP-1, YKR087C, ZMPOMA1, FLJ33782
1	OMA1	ENSG00000162600	ENST00000456980	protein_coding	KNOWN	None	29661	977	324	58999659	59012378	-1	None	MPRP-1, YKR087C, ZMPOMA1, FLJ33782
1	OMA1	ENSG00000162600	ENST00000467063	processed_transcript	KNOWN	None	29661	None	None	58999719	59012402	-1	None	MPRP-1, YKR087C, ZMPOMA1, FLJ33782
1	OMA1	ENSG00000162600	ENST00000419242	protein_coding	KNOWN	None	29661	767	254	58999966	59012430	-1	None	MPRP-1, YKR087C, ZMPOMA1, FLJ33782
1	OMA1	ENSG00000162600	ENST00000426139	protein_coding	KNOWN	None	29661	758	251	58999975	59012474	-1	None	MPRP-1, YKR087C, ZMPOMA1, FLJ33782
1	OMA1	ENSG00000162600	ENST00000453710	protein_coding	KNOWN	None	29661	551	182	59002363	59012386	-1	None	MPRP-1, YKR087C, ZMPOMA1, FLJ33782
1	OMA1	ENSG00000162600	ENST00000482274	protein_coding	KNOWN	None	29661	262	86	59004705	59012380	-1	None	MPRP-1, YKR087C, ZMPOMA1, FLJ33782
1	OMA1	ENSG00000162600	ENST00000358603	protein_coding	KNOWN	None	29661	1461	486	58939545	59012452	-1	None	MPRP-1, YKR087C, ZMPOMA1, FLJ33782
14	None	ENSG00000258740	ENST00000553510	protein_coding	PUTATIVE	None	None	351	116	75705319	75735986	-1	None	None
11	RTN4RL2	ENSG00000186907	ENST00000335099	protein_coding	KNOWN	CCDS7957	23053	1263	420	57228022	57245007	1	None	NgR2, NGRH1
11	RTN4RL2	ENSG00000186907	ENST00000533205	protein_coding	PUTATIVE	None	23053	615	204	57228330	57236357	1	None	NgR2, NGRH1
11	RTN4RL2	ENSG00000186907	ENST00000395120	protein_coding	PUTATIVE	None	23053	582	193	57228339	57236103	1	None	NgR2, NGRH1
1	TACSTD2	ENSG00000184292	ENST00000371225	protein_coding	KNOWN	CCDS609	11530	972	323	59041099	59043166	-1	M1S1	TROP2, GA733-1, EGP-1
2	NIF3L1	ENSG00000196290	ENST00000426253	protein_coding	KNOWN	None	13390	628	208	201754050	201760096	1	ALS2CR1	CALS-7, MDS015
2	NIF3L1	ENSG00000196290	ENST00000454952	protein_coding	KNOWN	None	13390	488	161	201754092	201758020	1	ALS2CR1	CALS-7, MDS015
2	NIF3L1	ENSG00000196290	ENST00000409020	protein_coding	KNOWN	CCDS46485	13390	1134	377	201754108	201768653	1	ALS2CR1	CALS-7, MDS015
2	NIF3L1	ENSG00000196290	ENST00000359683	protein_coding	KNOWN	CCDS42797	13390	1053	350	201754111	201768653	1	ALS2CR1	CALS-7, MDS015
2	NIF3L1	ENSG00000196290	ENST00000409357	protein_coding	KNOWN	CCDS46485	13390	1134	377	201754138	201768619	1	ALS2CR1	CALS-7, MDS015
2	NIF3L1	ENSG00000196290	ENST00000409129	protein_coding	KNOWN	None	13390	488	161	201754170	201758101	1	ALS2CR1	CALS-7, MDS015
2	NIF3L1	ENSG00000196290	ENST00000409588	protein_coding	NOVEL	CCDS46486	13390	858	285	201756640	201768648	1	ALS2CR1	CALS-7, MDS015
2	NIF3L1	ENSG00000196290	ENST00000436412	protein_coding	PUTATIVE	None	13390	254	83	201761797	201768646	1	ALS2CR1	CALS-7, MDS015
2	NIF3L1	ENSG00000196290	ENST00000416651	protein_coding	KNOWN	CCDS46485	13390	1134	377	201754050	201768655	1	ALS2CR1	CALS-7, MDS015
12	ESPL1	ENSG00000135476	ENST00000553219	protein_coding	KNOWN	None	16856	623	206	53662083	53663349	1	None	KIAA0165, ESP1, SEPA
12	ESPL1	ENSG00000135476	ENST00000552671	nonsense_mediated_decay	KNOWN	None	16856	150	49	53662117	53687419	1	None	KIAA0165, ESP1, SEPA
12	ESPL1	ENSG00000135476	ENST00000552462	protein_coding	KNOWN	CCDS8852	16856	6363	2120	53662119	53687258	1	None	KIAA0165, ESP1, SEPA
12	ESPL1	ENSG00000135476	ENST00000550026	processed_transcript	PUTATIVE	None	16856	None	None	53667865	53668736	1	None	KIAA0165, ESP1, SEPA
12	ESPL1	ENSG00000135476	ENST00000535123	retained_intron	KNOWN	None	16856	None	None	53673489	53682108	1	None	KIAA0165, ESP1, SEPA
12	ESPL1	ENSG00000135476	ENST00000553016	retained_intron	KNOWN	None	16856	None	None	53676034	53683079	1	None	KIAA0165, ESP1, SEPA
12	ESPL1	ENSG00000135476	ENST00000549154	retained_intron	KNOWN	None	16856	None	None	53681040	53687419	1	None	KIAA0165, ESP1, SEPA
12	ESPL1	ENSG00000135476	ENST00000552600	retained_intron	KNOWN	None	16856	None	None	53681665	53683244	1	None	KIAA0165, ESP1, SEPA
12	ESPL1	ENSG00000135476	ENST00000257934	protein_coding	KNOWN	CCDS8852	16856	6363	2120	53662083	53687427	1	None	KIAA0165, ESP1, SEPA
2	STAMBP	ENSG00000124356	ENST00000409707	protein_coding	KNOWN	CCDS1929	16950	1275	424	74056089	74100760	1	None	AMSH
2	STAMBP	ENSG00000124356	ENST00000452725	protein_coding	KNOWN	None	16950	412	136	74056094	74074550	1	None	AMSH
2	STAMBP	ENSG00000124356	ENST00000432295	protein_coding	KNOWN	None	16950	954	317	74056114	74077589	1	None	AMSH
2	STAMBP	ENSG00000124356	ENST00000424659	protein_coding	KNOWN	None	16950	490	162	74056117	74074628	1	None	AMSH
2	STAMBP	ENSG00000124356	ENST00000394070	protein_coding	KNOWN	CCDS1929	16950	1275	424	74056147	74094299	1	None	AMSH
2	STAMBP	ENSG00000124356	ENST00000536064	protein_coding	PUTATIVE	None	16950	630	209	74056158	74076615	1	None	AMSH
2	STAMBP	ENSG00000124356	ENST00000478946	processed_transcript	PUTATIVE	None	16950	None	None	74071761	74076578	1	None	AMSH
2	STAMBP	ENSG00000124356	ENST00000486458	processed_transcript	KNOWN	None	16950	None	None	74077502	74089933	1	None	AMSH
2	STAMBP	ENSG00000124356	ENST00000487811	processed_transcript	KNOWN	None	16950	None	None	74087204	74100786	1	None	AMSH
2	STAMBP	ENSG00000124356	ENST00000339566	protein_coding	KNOWN	CCDS1929	16950	1275	424	74056086	74090010	1	None	AMSH
2	STAMBP	ENSG00000124356	ENST00000394073	protein_coding	KNOWN	CCDS1929	16950	1275	424	74056127	74090010	1	None	AMSH
1	MYSM1	ENSG00000162601	ENST00000472487	protein_coding	KNOWN	CCDS41343	29401	2487	828	59120411	59165764	-1	None	KIAA1915
1	MYSM1	ENSG00000162601	ENST00000493821	processed_transcript	KNOWN	None	29401	None	None	59120412	59155334	-1	None	KIAA1915
1	MYSM1	ENSG00000162601	ENST00000401044	processed_transcript	KNOWN	None	29401	None	None	59124825	59156066	-1	None	KIAA1915
1	MYSM1	ENSG00000162601	ENST00000481973	processed_transcript	PUTATIVE	None	29401	None	None	59142444	59147568	-1	None	KIAA1915
1	MYSM1	ENSG00000162601	ENST00000466774	processed_transcript	KNOWN	None	29401	None	None	59148081	59165752	-1	None	KIAA1915
1	MYSM1	ENSG00000162601	ENST00000483003	processed_transcript	KNOWN	None	29401	None	None	59155860	59165744	-1	None	KIAA1915
1	MYSM1	ENSG00000162601	ENST00000489282	processed_transcript	KNOWN	None	29401	None	None	59158078	59165749	-1	None	KIAA1915
14	FOS	ENSG00000170345	ENST00000303562	protein_coding	KNOWN	CCDS9841	3796	1143	380	75745477	75748933	1	None	c-fos, AP-1
14	FOS	ENSG00000170345	ENST00000554617	protein_coding	PUTATIVE	None	3796	513	170	75745529	75747077	1	None	c-fos, AP-1
14	FOS	ENSG00000170345	ENST00000556324	processed_transcript	PUTATIVE	None	3796	None	None	75745531	75746234	1	None	c-fos, AP-1
14	FOS	ENSG00000170345	ENST00000554212	protein_coding	NOVEL	None	3796	412	136	75745531	75747310	1	None	c-fos, AP-1
14	FOS	ENSG00000170345	ENST00000535987	protein_coding	NOVEL	None	3796	1035	344	75745531	75748339	1	None	c-fos, AP-1
14	FOS	ENSG00000170345	ENST00000555242	protein_coding	PUTATIVE	None	3796	531	176	75745680	75747492	1	None	c-fos, AP-1
14	FOS	ENSG00000170345	ENST00000555686	protein_coding	PUTATIVE	None	3796	801	266	75746346	75748387	1	None	c-fos, AP-1
14	FOS	ENSG00000170345	ENST00000555672	protein_coding	PUTATIVE	None	3796	426	141	75746373	75747860	1	None	c-fos, AP-1
14	FOS	ENSG00000170345	ENST00000557139	protein_coding	NOVEL	None	3796	249	82	75746681	75747370	1	None	c-fos, AP-1
14	FOS	ENSG00000170345	ENST00000555347	protein_coding	PUTATIVE	None	3796	699	232	75746896	75748290	1	None	c-fos, AP-1
1	ASH1L	ENSG00000116539	ENST00000368346	protein_coding	KNOWN	None	19088	8910	2969	155305059	155532484	-1	None	huASH1, ASH1, ASH1L1, KMT2H
1	ASH1L	ENSG00000116539	ENST00000392403	protein_coding	KNOWN	CCDS1113	19088	8895	2964	155305846	155532323	-1	None	huASH1, ASH1, ASH1L1, KMT2H
1	ASH1L	ENSG00000116539	ENST00000478837	retained_intron	KNOWN	None	19088	None	None	155312832	155316220	-1	None	huASH1, ASH1, ASH1L1, KMT2H
1	ASH1L	ENSG00000116539	ENST00000548566	retained_intron	KNOWN	None	19088	None	None	155313242	155314382	-1	None	huASH1, ASH1, ASH1L1, KMT2H
1	ASH1L	ENSG00000116539	ENST00000492987	nonsense_mediated_decay	KNOWN	None	19088	463	153	155313447	155319142	-1	None	huASH1, ASH1, ASH1L1, KMT2H
1	ASH1L	ENSG00000116539	ENST00000477427	retained_intron	KNOWN	None	19088	None	None	155339938	155340659	-1	None	huASH1, ASH1, ASH1L1, KMT2H
1	ASH1L	ENSG00000116539	ENST00000548830	protein_coding	PUTATIVE	None	19088	534	177	155451202	155532598	-1	None	huASH1, ASH1, ASH1L1, KMT2H
7	MUC12	ENSG00000205277	ENST00000379442	protein_coding	NOVEL	None	7510	16437	5478	100612904	100662217	1	MUC11	None
7	MUC12	ENSG00000205277	ENST00000305119	nonsense_mediated_decay	KNOWN	None	7510	285	94	100656335	100662115	1	MUC11	None
7	MUC12	ENSG00000205277	ENST00000473098	processed_transcript	PUTATIVE	None	7510	None	None	100660159	100662220	1	MUC11	None
7	MUC12	ENSG00000205277	ENST00000467414	processed_transcript	PUTATIVE	None	7510	None	None	100660544	100662217	1	MUC11	None
7	MUC12	ENSG00000205277	ENST00000474482	retained_intron	KNOWN	None	7510	None	None	100660615	100662220	1	MUC11	None
7	MUC12	ENSG00000205277	ENST00000536621	protein_coding	KNOWN	CCDS55139	7510	16008	5335	100612904	100662230	1	MUC11	None
11	SLC43A1	ENSG00000149150	ENST00000278426	protein_coding	KNOWN	CCDS7958	9225	1680	559	57252007	57283259	-1	POV1	R00504, PB39
11	SLC43A1	ENSG00000149150	ENST00000528450	protein_coding	KNOWN	CCDS7958	9225	1680	559	57252009	57282358	-1	POV1	R00504, PB39
11	SLC43A1	ENSG00000149150	ENST00000534298	nonsense_mediated_decay	KNOWN	None	9225	330	109	57254585	57281599	-1	POV1	R00504, PB39
11	SLC43A1	ENSG00000149150	ENST00000525764	protein_coding	NOVEL	None	9225	556	184	57254653	57268792	-1	POV1	R00504, PB39
11	SLC43A1	ENSG00000149150	ENST00000529452	retained_intron	KNOWN	None	9225	None	None	57258726	57261993	-1	POV1	R00504, PB39
11	SLC43A1	ENSG00000149150	ENST00000533515	processed_transcript	KNOWN	None	9225	None	None	57258776	57267150	-1	POV1	R00504, PB39
11	SLC43A1	ENSG00000149150	ENST00000530159	nonsense_mediated_decay	KNOWN	None	9225	516	171	57259276	57282324	-1	POV1	R00504, PB39
11	SLC43A1	ENSG00000149150	ENST00000533066	protein_coding	NOVEL	None	9225	778	258	57261466	57282088	-1	POV1	R00504, PB39
11	SLC43A1	ENSG00000149150	ENST00000524995	nonsense_mediated_decay	KNOWN	None	9225	177	58	57265226	57283253	-1	POV1	R00504, PB39
11	SLC43A1	ENSG00000149150	ENST00000534105	nonsense_mediated_decay	KNOWN	None	9225	177	58	57265315	57282306	-1	POV1	R00504, PB39
11	SLC43A1	ENSG00000149150	ENST00000533263	protein_coding	KNOWN	None	9225	332	109	57268625	57283159	-1	POV1	R00504, PB39
1	JUN	ENSG00000177606	ENST00000371222	protein_coding	KNOWN	CCDS610	6204	996	331	59246465	59249785	-1	None	c-Jun, AP-1
8	KCNS2	ENSG00000156486	ENST00000287042	protein_coding	KNOWN	CCDS6279	6301	1434	477	99439250	99445076	1	None	Kv9.2
8	KCNS2	ENSG00000156486	ENST00000521839	protein_coding	KNOWN	CCDS6279	6301	1434	477	99439759	99444376	1	None	Kv9.2
2	ORC2	ENSG00000115942	ENST00000234296	protein_coding	KNOWN	CCDS2334	8488	1734	577	201773696	201828403	-1	ORC2L	None
2	ORC2	ENSG00000115942	ENST00000464147	retained_intron	KNOWN	None	8488	None	None	201775177	201791627	-1	ORC2L	None
2	ORC2	ENSG00000115942	ENST00000487853	retained_intron	KNOWN	None	8488	None	None	201784944	201786461	-1	ORC2L	None
2	ORC2	ENSG00000115942	ENST00000474877	processed_transcript	KNOWN	None	8488	None	None	201798599	201807882	-1	ORC2L	None
2	ORC2	ENSG00000115942	ENST00000467605	processed_transcript	KNOWN	None	8488	None	None	201807407	201828403	-1	ORC2L	None
2	ORC2	ENSG00000115942	ENST00000410039	protein_coding	KNOWN	None	8488	328	108	201814277	201828100	-1	ORC2L	None
2	ORC2	ENSG00000115942	ENST00000457595	protein_coding	KNOWN	None	8488	217	71	201822145	201827981	-1	ORC2L	None
9	NTRK2	ENSG00000148053	ENST00000376208	protein_coding	KNOWN	CCDS35052	8032	1614	537	87284693	87492813	1	None	TRKB
9	NTRK2	ENSG00000148053	ENST00000304053	protein_coding	KNOWN	CCDS35051	8032	1662	553	87284693	87492813	1	None	TRKB
9	NTRK2	ENSG00000148053	ENST00000277120	protein_coding	KNOWN	CCDS6671	8032	2517	838	87284693	87637409	1	None	TRKB
9	NTRK2	ENSG00000148053	ENST00000323115	protein_coding	KNOWN	CCDS35050	8032	2469	822	87285311	87637238	1	None	TRKB
9	NTRK2	ENSG00000148053	ENST00000359847	protein_coding	KNOWN	CCDS35053	8032	1434	477	87285575	87430617	1	None	TRKB
9	NTRK2	ENSG00000148053	ENST00000376214	protein_coding	KNOWN	CCDS6671	8032	2517	838	87283466	87638505	1	None	TRKB
9	NTRK2	ENSG00000148053	ENST00000376213	protein_coding	KNOWN	CCDS35050	8032	2469	822	87283466	87638505	1	None	TRKB
9	NTRK2	ENSG00000148053	ENST00000395882	protein_coding	KNOWN	CCDS35053	8032	1434	477	87284626	87430621	1	None	TRKB
9	NTRK2	ENSG00000148053	ENST00000395866	protein_coding	KNOWN	None	8032	966	321	87287002	87425978	1	None	TRKB
14	JDP2	ENSG00000140044	ENST00000419727	protein_coding	KNOWN	CCDS9842	17546	492	163	75894419	75936501	1	None	JUNDM2
14	JDP2	ENSG00000140044	ENST00000559773	processed_transcript	KNOWN	None	17546	None	None	75894509	75912082	1	None	JUNDM2
14	JDP2	ENSG00000140044	ENST00000559060	protein_coding	KNOWN	None	17546	401	132	75894749	75936087	1	None	JUNDM2
14	JDP2	ENSG00000140044	ENST00000558068	processed_transcript	KNOWN	None	17546	None	None	75894799	75911865	1	None	JUNDM2
14	JDP2	ENSG00000140044	ENST00000435893	protein_coding	KNOWN	CCDS9842	17546	492	163	75895060	75940814	1	None	JUNDM2
14	JDP2	ENSG00000140044	ENST00000267569	protein_coding	KNOWN	CCDS45139	17546	525	174	75898837	75937160	1	None	JUNDM2
14	JDP2	ENSG00000140044	ENST00000437176	protein_coding	KNOWN	CCDS9842	17546	492	163	75894920	75939402	1	None	JUNDM2
5	ZFP2	ENSG00000198939	ENST00000361362	protein_coding	KNOWN	CCDS4440	26138	1386	461	178322895	178360213	1	None	FLJ21628, ZNF751
5	ZFP2	ENSG00000198939	ENST00000520660	protein_coding	KNOWN	None	26138	69	22	178322899	178358383	1	None	FLJ21628, ZNF751
5	ZFP2	ENSG00000198939	ENST00000520805	protein_coding	KNOWN	None	26138	26	7	178322916	178358340	1	None	FLJ21628, ZNF751
5	ZFP2	ENSG00000198939	ENST00000520301	protein_coding	KNOWN	CCDS4440	26138	1386	461	178339707	178360054	1	None	FLJ21628, ZNF751
5	ZFP2	ENSG00000198939	ENST00000523286	protein_coding	KNOWN	CCDS4440	26138	1386	461	178339707	178360054	1	None	FLJ21628, ZNF751
5	ZFP2	ENSG00000198939	ENST00000503510	protein_coding	KNOWN	CCDS4440	26138	1386	461	178339707	178360054	1	None	FLJ21628, ZNF751
16	NPIPB5	ENSG00000243716	ENST00000415654	processed_transcript	KNOWN	None	37233	None	None	22490442	22547834	1	None	None
16	NPIPB5	ENSG00000243716	ENST00000415833	protein_coding	NOVEL	None	37233	1786	594	22501658	22546090	1	None	None
16	NPIPB5	ENSG00000243716	ENST00000546168	processed_transcript	KNOWN	None	37233	None	None	22502186	22525458	1	None	None
16	NPIPB5	ENSG00000243716	ENST00000543407	protein_coding	NOVEL	None	37233	314	103	22516172	22538951	1	None	None
16	NPIPB5	ENSG00000243716	ENST00000356156	protein_coding	NOVEL	None	37233	33	10	22517166	22525155	1	None	None
16	NPIPB5	ENSG00000243716	ENST00000541154	protein_coding	NOVEL	None	37233	235	77	22518495	22535255	1	None	None
16	NPIPB5	ENSG00000243716	ENST00000545375	nonsense_mediated_decay	KNOWN	None	37233	150	49	22518666	22535229	1	None	None
16	NPIPB5	ENSG00000243716	ENST00000536620	protein_coding	NOVEL	None	37233	41	12	22524379	22525163	1	None	None
16	NPIPB5	ENSG00000243716	ENST00000544308	nonsense_mediated_decay	KNOWN	None	37233	150	49	22524716	22532217	1	None	None
16	NPIPB5	ENSG00000243716	ENST00000538509	processed_transcript	KNOWN	None	37233	None	None	22524840	22527522	1	None	None
16	NPIPB5	ENSG00000243716	ENST00000521555	nonsense_mediated_decay	KNOWN	None	37233	150	49	22524843	22547842	1	None	None
16	NPIPB5	ENSG00000243716	ENST00000538606	protein_coding	NOVEL	None	37233	359	118	22524844	22539108	1	None	None
16	NPIPB5	ENSG00000243716	ENST00000542518	nonsense_mediated_decay	KNOWN	None	37233	123	40	22524867	22535221	1	None	None
16	NPIPB5	ENSG00000243716	ENST00000540704	processed_transcript	KNOWN	None	37233	None	None	22524885	22530556	1	None	None
16	NPIPB5	ENSG00000243716	ENST00000517539	protein_coding	NOVEL	CCDS45443	37233	3402	1133	22524895	22547798	1	None	None
16	NPIPB5	ENSG00000243716	ENST00000541664	nonsense_mediated_decay	KNOWN	None	37233	123	40	22524899	22545067	1	None	None
16	NPIPB5	ENSG00000243716	ENST00000528249	protein_coding	NOVEL	None	37233	1786	594	22525003	22546090	1	None	None
16	NPIPB5	ENSG00000243716	ENST00000517347	nonsense_mediated_decay	KNOWN	None	37233	150	49	22525081	22539258	1	None	None
16	NPIPB5	ENSG00000243716	ENST00000539929	retained_intron	KNOWN	None	37233	None	None	22534844	22539201	1	None	None
16	NPIPB5	ENSG00000243716	ENST00000543997	retained_intron	KNOWN	None	37233	None	None	22534949	22543410	1	None	None
16	NPIPB5	ENSG00000243716	ENST00000538590	retained_intron	KNOWN	None	37233	None	None	22535164	22539428	1	None	None
16	NPIPB5	ENSG00000243716	ENST00000539604	nonsense_mediated_decay	KNOWN	None	37233	207	68	22535204	22545046	1	None	None
16	NPIPB5	ENSG00000243716	ENST00000442450	retained_intron	KNOWN	None	37233	None	None	22542813	22545133	1	None	None
16	NPIPB5	ENSG00000243716	ENST00000424340	protein_coding	KNOWN	CCDS45443	37233	3402	1133	22524844	22547826	1	None	None
4	CRMP1	ENSG00000072832	ENST00000506216	processed_transcript	KNOWN	None	2365	None	None	5749811	5890198	-1	None	DRP-1, DPYSL1
4	CRMP1	ENSG00000072832	ENST00000324989	protein_coding	KNOWN	CCDS33950	2365	2061	686	5822491	5894785	-1	None	DRP-1, DPYSL1
4	CRMP1	ENSG00000072832	ENST00000397890	protein_coding	KNOWN	CCDS43207	2365	1719	572	5822510	5890208	-1	None	DRP-1, DPYSL1
4	CRMP1	ENSG00000072832	ENST00000513911	processed_transcript	KNOWN	None	2365	None	None	5822511	5828588	-1	None	DRP-1, DPYSL1
4	CRMP1	ENSG00000072832	ENST00000511535	processed_transcript	KNOWN	None	2365	None	None	5822511	5889540	-1	None	DRP-1, DPYSL1
4	CRMP1	ENSG00000072832	ENST00000512574	protein_coding	PUTATIVE	None	2365	1713	570	5822970	5891918	-1	None	DRP-1, DPYSL1
2	ACTG2	ENSG00000163017	ENST00000438902	nonsense_mediated_decay	KNOWN	None	145	318	105	74119441	74146802	1	ACTL3, ACTA3	ACTSG
2	ACTG2	ENSG00000163017	ENST00000473016	retained_intron	KNOWN	None	145	None	None	74120078	74129861	1	ACTL3, ACTA3	ACTSG
2	ACTG2	ENSG00000163017	ENST00000429756	nonsense_mediated_decay	KNOWN	None	145	159	52	74120094	74140719	1	ACTL3, ACTA3	ACTSG
2	ACTG2	ENSG00000163017	ENST00000409731	protein_coding	NOVEL	CCDS56124	145	1002	333	74120094	74146992	1	ACTL3, ACTA3	ACTSG
2	ACTG2	ENSG00000163017	ENST00000345517	protein_coding	KNOWN	CCDS1930	145	1131	376	74120106	74146992	1	ACTL3, ACTA3	ACTSG
2	ACTG2	ENSG00000163017	ENST00000409918	protein_coding	PUTATIVE	None	145	360	119	74120109	74130316	1	ACTL3, ACTA3	ACTSG
2	ACTG2	ENSG00000163017	ENST00000442912	protein_coding	PUTATIVE	None	145	434	143	74120109	74135978	1	ACTL3, ACTA3	ACTSG
2	ACTG2	ENSG00000163017	ENST00000468543	retained_intron	KNOWN	None	145	None	None	74120135	74128932	1	ACTL3, ACTA3	ACTSG
2	ACTG2	ENSG00000163017	ENST00000409624	protein_coding	KNOWN	CCDS1930	145	1131	376	74120135	74146992	1	ACTL3, ACTA3	ACTSG
19	ZNF461	ENSG00000197808	ENST00000396893	nonsense_mediated_decay	KNOWN	None	21629	126	41	37128094	37157721	-1	None	GIOT-1, MGC33911
19	ZNF461	ENSG00000197808	ENST00000589442	processed_transcript	KNOWN	None	21629	None	None	37128127	37128669	-1	None	GIOT-1, MGC33911
19	ZNF461	ENSG00000197808	ENST00000588268	protein_coding	KNOWN	CCDS54257	21629	1692	563	37128891	37157739	-1	None	GIOT-1, MGC33911
19	ZNF461	ENSG00000197808	ENST00000360357	protein_coding	NOVEL	None	21629	1623	540	37129049	37157743	-1	None	GIOT-1, MGC33911
19	ZNF461	ENSG00000197808	ENST00000590487	retained_intron	KNOWN	None	21629	None	None	37129435	37131014	-1	None	GIOT-1, MGC33911
19	ZNF461	ENSG00000197808	ENST00000540605	processed_transcript	KNOWN	None	21629	None	None	37129533	37134509	-1	None	GIOT-1, MGC33911
19	ZNF461	ENSG00000197808	ENST00000591370	protein_coding	PUTATIVE	None	21629	426	141	37130557	37157730	-1	None	GIOT-1, MGC33911
19	ZNF461	ENSG00000197808	ENST00000590361	nonsense_mediated_decay	KNOWN	None	21629	141	46	37130925	37157739	-1	None	GIOT-1, MGC33911
19	ZNF461	ENSG00000197808	ENST00000588844	nonsense_mediated_decay	KNOWN	None	21629	213	70	37134724	37157739	-1	None	GIOT-1, MGC33911
19	ZNF461	ENSG00000197808	ENST00000591827	processed_transcript	KNOWN	None	21629	None	None	37136054	37157755	-1	None	GIOT-1, MGC33911
19	ZNF461	ENSG00000197808	ENST00000592829	protein_coding	PUTATIVE	None	21629	214	70	37147350	37157725	-1	None	GIOT-1, MGC33911
19	ZNF461	ENSG00000197808	ENST00000592496	retained_intron	KNOWN	None	21629	None	None	37148994	37157740	-1	None	GIOT-1, MGC33911
8	OSR2	ENSG00000164920	ENST00000520791	processed_transcript	KNOWN	None	15830	None	None	99956631	99958530	1	None	FLJ90037
8	OSR2	ENSG00000164920	ENST00000523368	protein_coding	PUTATIVE	None	15830	867	288	99956670	99963250	1	None	FLJ90037
8	OSR2	ENSG00000164920	ENST00000297565	protein_coding	KNOWN	CCDS47901	15830	939	312	99956670	99964332	1	None	FLJ90037
8	OSR2	ENSG00000164920	ENST00000520722	processed_transcript	KNOWN	None	15830	None	None	99956674	99961535	1	None	FLJ90037
8	OSR2	ENSG00000164920	ENST00000521044	processed_transcript	KNOWN	None	15830	None	None	99956684	99961549	1	None	FLJ90037
8	OSR2	ENSG00000164920	ENST00000435298	protein_coding	KNOWN	CCDS47902	15830	831	276	99956686	99964328	1	None	FLJ90037
8	OSR2	ENSG00000164920	ENST00000522510	protein_coding	KNOWN	CCDS47901	15830	939	312	99956887	99963990	1	None	FLJ90037
8	OSR2	ENSG00000164920	ENST00000520951	protein_coding	PUTATIVE	None	15830	811	269	99960450	99961832	1	None	FLJ90037
8	OSR2	ENSG00000164920	ENST00000518199	protein_coding	KNOWN	None	15830	639	212	99960620	99961819	1	None	FLJ90037
8	OSR2	ENSG00000164920	ENST00000457907	protein_coding	KNOWN	None	15830	1302	433	99956887	99963990	1	None	FLJ90037
1	FGGY	ENSG00000172456	ENST00000582567	protein_coding	KNOWN	None	25610	163	53	59762310	59787384	1	None	FLJ10986
1	FGGY	ENSG00000172456	ENST00000413489	protein_coding	KNOWN	None	25610	554	183	59762467	59844509	1	None	FLJ10986
1	FGGY	ENSG00000172456	ENST00000474476	processed_transcript	KNOWN	None	25610	None	None	59762510	60125965	1	None	FLJ10986
1	FGGY	ENSG00000172456	ENST00000462744	processed_transcript	KNOWN	None	25610	None	None	59762527	59812041	1	None	FLJ10986
1	FGGY	ENSG00000172456	ENST00000371218	protein_coding	NOVEL	CCDS44155	25610	1728	575	59762653	60228396	1	None	FLJ10986
1	FGGY	ENSG00000172456	ENST00000495718	retained_intron	KNOWN	None	25610	None	None	59762656	60092526	1	None	FLJ10986
1	FGGY	ENSG00000172456	ENST00000583635	processed_transcript	KNOWN	None	25610	None	None	59762658	59781978	1	None	FLJ10986
1	FGGY	ENSG00000172456	ENST00000303721	protein_coding	KNOWN	CCDS611	25610	1656	551	59762663	60228402	1	None	FLJ10986
1	FGGY	ENSG00000172456	ENST00000430447	nonsense_mediated_decay	KNOWN	None	25610	1524	507	59762684	60165066	1	None	FLJ10986
1	FGGY	ENSG00000172456	ENST00000371212	protein_coding	NOVEL	CCDS58003	25610	1392	463	59775759	60228400	1	None	FLJ10986
1	FGGY	ENSG00000172456	ENST00000475949	processed_transcript	KNOWN	None	25610	None	None	59858880	60091695	1	None	FLJ10986
1	FGGY	ENSG00000172456	ENST00000485720	processed_transcript	KNOWN	None	25610	None	None	59977988	60126095	1	None	FLJ10986
1	FGGY	ENSG00000172456	ENST00000371210	protein_coding	PUTATIVE	None	25610	759	252	60019590	60228400	1	None	FLJ10986
1	FGGY	ENSG00000172456	ENST00000493891	processed_transcript	KNOWN	None	25610	None	None	60091687	60228402	1	None	FLJ10986
1	FGGY	ENSG00000172456	ENST00000466791	processed_transcript	KNOWN	None	25610	None	None	60103900	60146667	1	None	FLJ10986
1	FGGY	ENSG00000172456	ENST00000476939	processed_transcript	KNOWN	None	25610	None	None	60125891	60233347	1	None	FLJ10986
1	FGGY	ENSG00000172456	ENST00000472783	processed_transcript	KNOWN	None	25610	None	None	60139329	60228216	1	None	FLJ10986
1	FGGY	ENSG00000172456	ENST00000471169	processed_transcript	KNOWN	None	25610	None	None	60139358	60228399	1	None	FLJ10986
1	FGGY	ENSG00000172456	ENST00000480847	processed_transcript	KNOWN	None	25610	None	None	60221344	60228396	1	None	FLJ10986
1	MSTO1	ENSG00000125459	ENST00000488901	processed_transcript	KNOWN	None	29678	None	None	155579996	155582107	1	None	FLJ10504, LST005, MST, misato
1	MSTO1	ENSG00000125459	ENST00000460199	processed_transcript	KNOWN	None	29678	None	None	155580007	155582269	1	None	FLJ10504, LST005, MST, misato
1	MSTO1	ENSG00000125459	ENST00000490743	processed_transcript	KNOWN	None	29678	None	None	155580009	155584742	1	None	FLJ10504, LST005, MST, misato
1	MSTO1	ENSG00000125459	ENST00000471209	processed_transcript	KNOWN	None	29678	None	None	155580010	155580543	1	None	FLJ10504, LST005, MST, misato
1	MSTO1	ENSG00000125459	ENST00000245564	protein_coding	KNOWN	CCDS1114	29678	1713	570	155580016	155584758	1	None	FLJ10504, LST005, MST, misato
1	MSTO1	ENSG00000125459	ENST00000368341	protein_coding	KNOWN	None	29678	1575	524	155580032	155584726	1	None	FLJ10504, LST005, MST, misato
1	MSTO1	ENSG00000125459	ENST00000494995	processed_transcript	KNOWN	None	29678	None	None	155580032	155584726	1	None	FLJ10504, LST005, MST, misato
1	MSTO1	ENSG00000125459	ENST00000482284	processed_transcript	KNOWN	None	29678	None	None	155580034	155581138	1	None	FLJ10504, LST005, MST, misato
1	MSTO1	ENSG00000125459	ENST00000490642	processed_transcript	KNOWN	None	29678	None	None	155580035	155581371	1	None	FLJ10504, LST005, MST, misato
1	MSTO1	ENSG00000125459	ENST00000491308	processed_transcript	KNOWN	None	29678	None	None	155580045	155582273	1	None	FLJ10504, LST005, MST, misato
1	MSTO1	ENSG00000125459	ENST00000483832	processed_transcript	KNOWN	None	29678	None	None	155580054	155582133	1	None	FLJ10504, LST005, MST, misato
1	MSTO1	ENSG00000125459	ENST00000465137	processed_transcript	KNOWN	None	29678	None	None	155580103	155582100	1	None	FLJ10504, LST005, MST, misato
1	MSTO1	ENSG00000125459	ENST00000473327	processed_transcript	KNOWN	None	29678	None	None	155580175	155582108	1	None	FLJ10504, LST005, MST, misato
1	MSTO1	ENSG00000125459	ENST00000483734	processed_transcript	KNOWN	None	29678	None	None	155580411	155584722	1	None	FLJ10504, LST005, MST, misato
1	MSTO1	ENSG00000125459	ENST00000478756	processed_transcript	KNOWN	None	29678	None	None	155580476	155581707	1	None	FLJ10504, LST005, MST, misato
1	MSTO1	ENSG00000125459	ENST00000475253	processed_transcript	KNOWN	None	29678	None	None	155582257	155583995	1	None	FLJ10504, LST005, MST, misato
1	MSTO1	ENSG00000125459	ENST00000466815	processed_transcript	KNOWN	None	29678	None	None	155582387	155583929	1	None	FLJ10504, LST005, MST, misato
1	MSTO1	ENSG00000125459	ENST00000462250	processed_transcript	KNOWN	None	29678	None	None	155583253	155583843	1	None	FLJ10504, LST005, MST, misato
1	MSTO1	ENSG00000125459	ENST00000452804	protein_coding	KNOWN	None	29678	948	315	155579979	155718153	1	None	FLJ10504, LST005, MST, misato
1	MSTO1	ENSG00000125459	ENST00000538143	protein_coding	KNOWN	None	29678	444	147	155579979	155717636	1	None	FLJ10504, LST005, MST, misato
9	MELK	ENSG00000165304	ENST00000298048	protein_coding	KNOWN	CCDS6606	16870	1956	651	36572859	36677503	1	None	KIAA0175
9	MELK	ENSG00000165304	ENST00000489766	processed_transcript	KNOWN	None	16870	None	None	36572894	36607619	1	None	KIAA0175
9	MELK	ENSG00000165304	ENST00000495529	processed_transcript	KNOWN	None	16870	None	None	36572894	36633152	1	None	KIAA0175
9	MELK	ENSG00000165304	ENST00000487398	processed_transcript	KNOWN	None	16870	None	None	36572921	36630364	1	None	KIAA0175
9	MELK	ENSG00000165304	ENST00000480021	processed_transcript	KNOWN	None	16870	None	None	36630004	36633197	1	None	KIAA0175
9	MELK	ENSG00000165304	ENST00000545008	protein_coding	KNOWN	CCDS59125	16870	1743	580	36572894	36677678	1	None	KIAA0175
9	MELK	ENSG00000165304	ENST00000536860	protein_coding	KNOWN	CCDS59124	16870	1812	603	36572894	36677644	1	None	KIAA0175
9	MELK	ENSG00000165304	ENST00000541717	protein_coding	KNOWN	CCDS59123	16870	1833	610	36572907	36677656	1	None	KIAA0175
9	MELK	ENSG00000165304	ENST00000536329	protein_coding	KNOWN	CCDS59127	16870	1743	580	36572906	36677676	1	None	KIAA0175
9	MELK	ENSG00000165304	ENST00000543751	protein_coding	KNOWN	CCDS59126	16870	1860	619	36572908	36677676	1	None	KIAA0175
9	MELK	ENSG00000165304	ENST00000536987	protein_coding	KNOWN	CCDS59128	16870	1563	520	36572892	36677678	1	None	KIAA0175
9	MELK	ENSG00000165304	ENST00000538311	protein_coding	KNOWN	CCDS59129	16870	1374	457	36572860	36677426	1	None	KIAA0175
2	FAM126B	ENSG00000155744	ENST00000286181	nonsense_mediated_decay	KNOWN	None	28593	303	100	201843216	201936388	-1	None	MGC39518, HYCC2
2	FAM126B	ENSG00000155744	ENST00000418596	protein_coding	KNOWN	CCDS2335	28593	1593	530	201843772	201936392	-1	None	MGC39518, HYCC2
2	FAM126B	ENSG00000155744	ENST00000490725	retained_intron	KNOWN	None	28593	None	None	201860773	201874175	-1	None	MGC39518, HYCC2
2	FAM126B	ENSG00000155744	ENST00000498780	retained_intron	KNOWN	None	28593	None	None	201860773	201936392	-1	None	MGC39518, HYCC2
2	FAM126B	ENSG00000155744	ENST00000452799	protein_coding	KNOWN	None	28593	626	207	201862168	201936368	-1	None	MGC39518, HYCC2
2	FAM126B	ENSG00000155744	ENST00000453765	protein_coding	KNOWN	None	28593	262	86	201881785	201936302	-1	None	MGC39518, HYCC2
2	FAM126B	ENSG00000155744	ENST00000446678	protein_coding	NOVEL	None	28593	253	83	201881850	201936376	-1	None	MGC39518, HYCC2
2	FAM126B	ENSG00000155744	ENST00000485144	processed_transcript	KNOWN	None	28593	None	None	201886171	201887607	-1	None	MGC39518, HYCC2
2	FAM126B	ENSG00000155744	ENST00000474118	retained_intron	KNOWN	None	28593	None	None	201887204	201936351	-1	None	MGC39518, HYCC2
2	FAM126B	ENSG00000155744	ENST00000485636	retained_intron	KNOWN	None	28593	None	None	201887269	201936394	-1	None	MGC39518, HYCC2
2	FAM126B	ENSG00000155744	ENST00000494881	retained_intron	KNOWN	None	28593	None	None	201888339	201910280	-1	None	MGC39518, HYCC2
16	None	ENSG00000269047	ENST00000601510	protein_coding	NOVEL	None	None	39	12	1031252	1031663	1	None	None
19	TGFBR3L	ENSG00000260001	ENST00000565886	protein_coding	KNOWN	CCDS58648	44152	951	316	7981030	7983982	1	None	None
19	TGFBR3L	ENSG00000260001	ENST00000564348	processed_transcript	KNOWN	None	44152	None	None	7981841	7983978	1	None	None
19	TGFBR3L	ENSG00000260001	ENST00000566166	retained_intron	KNOWN	None	44152	None	None	7982513	7983975	1	None	None
X	CCDC160	ENSG00000203952	ENST00000517294	protein_coding	KNOWN	CCDS48171	37286	978	325	133371077	133380237	1	None	None
X	CCDC160	ENSG00000203952	ENST00000370809	protein_coding	KNOWN	CCDS48171	37286	978	325	133371077	133379808	1	None	None
8	MROH6	ENSG00000204839	ENST00000398882	protein_coding	KNOWN	CCDS47928	27814	2160	719	144648357	144655141	-1	C8orf73	None
8	MROH6	ENSG00000204839	ENST00000533210	retained_intron	KNOWN	None	27814	None	None	144648362	144650927	-1	C8orf73	None
8	MROH6	ENSG00000204839	ENST00000533679	protein_coding	PUTATIVE	None	27814	153	50	144648362	144651920	-1	C8orf73	None
8	MROH6	ENSG00000204839	ENST00000532704	processed_transcript	PUTATIVE	None	27814	None	None	144648365	144650056	-1	C8orf73	None
8	MROH6	ENSG00000204839	ENST00000524906	protein_coding	PUTATIVE	None	27814	153	50	144648368	144651024	-1	C8orf73	None
8	MROH6	ENSG00000204839	ENST00000533120	retained_intron	KNOWN	None	27814	None	None	144648381	144649281	-1	C8orf73	None
8	MROH6	ENSG00000204839	ENST00000534459	protein_coding	PUTATIVE	None	27814	153	50	144648472	144651057	-1	C8orf73	None
8	MROH6	ENSG00000204839	ENST00000533083	retained_intron	KNOWN	None	27814	None	None	144649539	144651013	-1	C8orf73	None
8	MROH6	ENSG00000204839	ENST00000532862	protein_coding	PUTATIVE	None	27814	20	5	144649542	144651030	-1	C8orf73	None
8	MROH6	ENSG00000204839	ENST00000533582	processed_transcript	PUTATIVE	None	27814	None	None	144650323	144650835	-1	C8orf73	None
8	MROH6	ENSG00000204839	ENST00000529971	protein_coding	NOVEL	None	27814	1646	547	144650757	144654918	-1	C8orf73	None
2	NDUFB3	ENSG00000119013	ENST00000450023	protein_coding	KNOWN	None	7698	195	64	201936156	201950236	1	None	B12
2	NDUFB3	ENSG00000119013	ENST00000237889	protein_coding	KNOWN	CCDS2336	7698	297	98	201936462	201950473	1	None	B12
2	NDUFB3	ENSG00000119013	ENST00000433898	protein_coding	KNOWN	CCDS2336	7698	297	98	201936731	201950467	1	None	B12
2	NDUFB3	ENSG00000119013	ENST00000454214	protein_coding	KNOWN	CCDS2336	7698	297	98	201936753	201950473	1	None	B12
4	MLF1IP	ENSG00000151725	ENST00000281453	protein_coding	KNOWN	CCDS3838	21348	1257	418	185615772	185655287	-1	None	CENPU, CENP-U, KLIP1, CENP-50
4	MLF1IP	ENSG00000151725	ENST00000510146	nonsense_mediated_decay	KNOWN	None	21348	963	320	185616156	185655284	-1	None	CENPU, CENP-U, KLIP1, CENP-50
4	MLF1IP	ENSG00000151725	ENST00000502461	retained_intron	KNOWN	None	21348	None	None	185616283	185619250	-1	None	CENPU, CENP-U, KLIP1, CENP-50
4	MLF1IP	ENSG00000151725	ENST00000508095	retained_intron	KNOWN	None	21348	None	None	185616503	185623635	-1	None	CENPU, CENP-U, KLIP1, CENP-50
4	MLF1IP	ENSG00000151725	ENST00000506535	processed_transcript	KNOWN	None	21348	None	None	185619348	185635095	-1	None	CENPU, CENP-U, KLIP1, CENP-50
4	MLF1IP	ENSG00000151725	ENST00000514781	protein_coding	PUTATIVE	None	21348	531	176	185637551	185654568	-1	None	CENPU, CENP-U, KLIP1, CENP-50
4	MLF1IP	ENSG00000151725	ENST00000541971	protein_coding	KNOWN	None	21348	1014	337	185620729	185655216	-1	None	CENPU, CENP-U, KLIP1, CENP-50
16	SOX8	ENSG00000005513	ENST00000293894	protein_coding	KNOWN	CCDS10428	11203	1341	446	1031808	1036979	1	None	None
16	SOX8	ENSG00000005513	ENST00000566034	retained_intron	KNOWN	None	11203	None	None	1032086	1036978	1	None	None
X	PHF6	ENSG00000156531	ENST00000370803	protein_coding	KNOWN	CCDS14639	18145	1098	365	133507283	133562820	1	BFLS, BORJ	KIAA1823, MGC14797, CENP-31
X	PHF6	ENSG00000156531	ENST00000332070	protein_coding	KNOWN	CCDS14639	18145	1098	365	133507342	133562819	1	BFLS, BORJ	KIAA1823, MGC14797, CENP-31
X	PHF6	ENSG00000156531	ENST00000370799	protein_coding	KNOWN	None	18145	975	324	133507350	133554353	1	BFLS, BORJ	KIAA1823, MGC14797, CENP-31
X	PHF6	ENSG00000156531	ENST00000370800	protein_coding	KNOWN	CCDS14640	18145	939	312	133507403	133549322	1	BFLS, BORJ	KIAA1823, MGC14797, CENP-31
X	PHF6	ENSG00000156531	ENST00000394292	protein_coding	KNOWN	None	18145	1101	366	133507342	133562819	1	BFLS, BORJ	KIAA1823, MGC14797, CENP-31
X	PHF6	ENSG00000156531	ENST00000416404	protein_coding	KNOWN	None	18145	996	331	133507377	133560153	1	BFLS, BORJ	KIAA1823, MGC14797, CENP-31
1	HOOK1	ENSG00000134709	ENST00000455990	protein_coding	KNOWN	None	19884	412	136	60280458	60301022	1	None	HK1
1	HOOK1	ENSG00000134709	ENST00000371208	protein_coding	KNOWN	CCDS612	19884	2187	728	60280533	60342050	1	None	HK1
1	HOOK1	ENSG00000134709	ENST00000465876	processed_transcript	KNOWN	None	19884	None	None	60280844	60338679	1	None	HK1
1	HOOK1	ENSG00000134709	ENST00000474695	processed_transcript	KNOWN	None	19884	None	None	60325955	60329540	1	None	HK1
1	HOOK1	ENSG00000134709	ENST00000466803	processed_transcript	KNOWN	None	19884	None	None	60330311	60338650	1	None	HK1
1	HOOK1	ENSG00000134709	ENST00000491135	processed_transcript	KNOWN	None	19884	None	None	60336549	60338654	1	None	HK1
1	HOOK1	ENSG00000134709	ENST00000395561	protein_coding	KNOWN	None	19884	2061	686	60282304	60338642	1	None	HK1
15	WDR72	ENSG00000166415	ENST00000567224	processed_transcript	KNOWN	None	26790	None	None	53805938	53833300	-1	None	FLJ38736
15	WDR72	ENSG00000166415	ENST00000396328	protein_coding	KNOWN	CCDS10151	26790	3309	1102	53805938	54055075	-1	None	FLJ38736
15	WDR72	ENSG00000166415	ENST00000557913	protein_coding	KNOWN	None	26790	3300	1099	53807356	54051831	-1	None	FLJ38736
15	WDR72	ENSG00000166415	ENST00000360509	protein_coding	KNOWN	CCDS10151	26790	3309	1102	53807360	54051859	-1	None	FLJ38736
15	WDR72	ENSG00000166415	ENST00000559418	protein_coding	NOVEL	None	26790	3339	1112	53809667	54025380	-1	None	FLJ38736
15	WDR72	ENSG00000166415	ENST00000560036	protein_coding	KNOWN	None	26790	2325	774	53908078	54051581	-1	None	FLJ38736
15	WDR72	ENSG00000166415	ENST00000567575	processed_transcript	PUTATIVE	None	26790	None	None	53957889	53976824	-1	None	FLJ38736
16	SSTR5	ENSG00000162009	ENST00000562758	protein_coding	PUTATIVE	None	11334	666	221	1128869	1131454	1	None	None
16	SSTR5	ENSG00000162009	ENST00000397547	protein_coding	KNOWN	CCDS10429	11334	1095	364	1122756	1131454	1	None	None
16	SSTR5	ENSG00000162009	ENST00000293897	protein_coding	KNOWN	CCDS10429	11334	1095	364	1128781	1131454	1	None	None
12	TMBIM6	ENSG00000139644	ENST00000548809	protein_coding	KNOWN	None	11723	33	10	50101508	50146309	1	TEGT	BI-1, BAXI1
12	TMBIM6	ENSG00000139644	ENST00000548589	processed_transcript	KNOWN	None	11723	None	None	50101516	50109560	1	TEGT	BI-1, BAXI1
12	TMBIM6	ENSG00000139644	ENST00000551154	protein_coding	KNOWN	None	11723	123	40	50101516	50146822	1	TEGT	BI-1, BAXI1
12	TMBIM6	ENSG00000139644	ENST00000546796	protein_coding	KNOWN	None	11723	436	144	50132776	50152266	1	TEGT	BI-1, BAXI1
12	TMBIM6	ENSG00000139644	ENST00000549966	protein_coding	KNOWN	None	11723	325	107	50135327	50152048	1	TEGT	BI-1, BAXI1
12	TMBIM6	ENSG00000139644	ENST00000547832	protein_coding	KNOWN	None	11723	415	137	50135330	50152245	1	TEGT	BI-1, BAXI1
12	TMBIM6	ENSG00000139644	ENST00000547187	protein_coding	KNOWN	None	11723	287	94	50135332	50149539	1	TEGT	BI-1, BAXI1
12	TMBIM6	ENSG00000139644	ENST00000548894	protein_coding	KNOWN	None	11723	49	15	50135340	50146325	1	TEGT	BI-1, BAXI1
12	TMBIM6	ENSG00000139644	ENST00000546914	protein_coding	KNOWN	None	11723	287	94	50135340	50149539	1	TEGT	BI-1, BAXI1
12	TMBIM6	ENSG00000139644	ENST00000552635	nonsense_mediated_decay	KNOWN	None	11723	342	113	50135340	50152490	1	TEGT	BI-1, BAXI1
12	TMBIM6	ENSG00000139644	ENST00000552699	protein_coding	KNOWN	CCDS44875	11723	888	295	50135340	50158520	1	TEGT	BI-1, BAXI1
12	TMBIM6	ENSG00000139644	ENST00000267115	protein_coding	KNOWN	CCDS31797	11723	714	237	50135340	50158713	1	TEGT	BI-1, BAXI1
12	TMBIM6	ENSG00000139644	ENST00000549445	protein_coding	KNOWN	None	11723	287	94	50135351	50149539	1	TEGT	BI-1, BAXI1
12	TMBIM6	ENSG00000139644	ENST00000546885	retained_intron	KNOWN	None	11723	None	None	50135354	50136271	1	TEGT	BI-1, BAXI1
12	TMBIM6	ENSG00000139644	ENST00000550951	protein_coding	KNOWN	None	11723	133	43	50135354	50146832	1	TEGT	BI-1, BAXI1
12	TMBIM6	ENSG00000139644	ENST00000549385	protein_coding	KNOWN	CCDS31797	11723	714	237	50135357	50158509	1	TEGT	BI-1, BAXI1
12	TMBIM6	ENSG00000139644	ENST00000548713	protein_coding	KNOWN	None	11723	31	9	50135391	50146307	1	TEGT	BI-1, BAXI1
12	TMBIM6	ENSG00000139644	ENST00000548201	protein_coding	KNOWN	None	11723	391	129	50135391	50152221	1	TEGT	BI-1, BAXI1
12	TMBIM6	ENSG00000139644	ENST00000550445	protein_coding	KNOWN	None	11723	437	144	50135605	50152469	1	TEGT	BI-1, BAXI1
12	TMBIM6	ENSG00000139644	ENST00000549130	protein_coding	KNOWN	None	11723	267	88	50137200	50149519	1	TEGT	BI-1, BAXI1
12	TMBIM6	ENSG00000139644	ENST00000552370	protein_coding	KNOWN	None	11723	615	204	50144403	50153105	1	TEGT	BI-1, BAXI1
12	TMBIM6	ENSG00000139644	ENST00000395006	protein_coding	KNOWN	CCDS31797	11723	714	237	50146239	50158525	1	TEGT	BI-1, BAXI1
12	TMBIM6	ENSG00000139644	ENST00000547798	protein_coding	PUTATIVE	None	11723	603	200	50146747	50158506	1	TEGT	BI-1, BAXI1
12	TMBIM6	ENSG00000139644	ENST00000553022	retained_intron	KNOWN	None	11723	None	None	50146821	50152491	1	TEGT	BI-1, BAXI1
12	TMBIM6	ENSG00000139644	ENST00000547013	retained_intron	KNOWN	None	11723	None	None	50151990	50155566	1	TEGT	BI-1, BAXI1
12	TMBIM6	ENSG00000139644	ENST00000550040	retained_intron	KNOWN	None	11723	None	None	50152587	50155920	1	TEGT	BI-1, BAXI1
12	TMBIM6	ENSG00000139644	ENST00000549471	retained_intron	KNOWN	None	11723	None	None	50152919	50156877	1	TEGT	BI-1, BAXI1
12	TMBIM6	ENSG00000139644	ENST00000423828	protein_coding	KNOWN	CCDS44875	11723	888	295	50135592	50158717	1	TEGT	BI-1, BAXI1
17	DUS1L	ENSG00000169718	ENST00000306796	protein_coding	KNOWN	CCDS32775	30086	1422	473	80015382	80023515	-1	None	PP3111, DUS1
17	DUS1L	ENSG00000169718	ENST00000354321	protein_coding	KNOWN	CCDS32775	30086	1422	473	80015748	80023421	-1	None	PP3111, DUS1
17	DUS1L	ENSG00000169718	ENST00000577574	protein_coding	PUTATIVE	None	30086	458	151	80015756	80017970	-1	None	PP3111, DUS1
17	DUS1L	ENSG00000169718	ENST00000578846	retained_intron	KNOWN	None	30086	None	None	80015756	80021353	-1	None	PP3111, DUS1
17	DUS1L	ENSG00000169718	ENST00000538833	protein_coding	PUTATIVE	None	30086	896	297	80015758	80020849	-1	None	PP3111, DUS1
17	DUS1L	ENSG00000169718	ENST00000579854	retained_intron	KNOWN	None	30086	None	None	80015781	80018016	-1	None	PP3111, DUS1
17	DUS1L	ENSG00000169718	ENST00000542088	protein_coding	PUTATIVE	None	30086	718	238	80015790	80018651	-1	None	PP3111, DUS1
17	DUS1L	ENSG00000169718	ENST00000584871	retained_intron	KNOWN	None	30086	None	None	80015892	80017017	-1	None	PP3111, DUS1
17	DUS1L	ENSG00000169718	ENST00000580731	nonsense_mediated_decay	KNOWN	None	30086	575	190	80016217	80019571	-1	None	PP3111, DUS1
17	DUS1L	ENSG00000169718	ENST00000578428	retained_intron	KNOWN	None	30086	None	None	80016363	80018179	-1	None	PP3111, DUS1
17	DUS1L	ENSG00000169718	ENST00000582407	retained_intron	KNOWN	None	30086	None	None	80018034	80018827	-1	None	PP3111, DUS1
17	DUS1L	ENSG00000169718	ENST00000578264	retained_intron	KNOWN	None	30086	None	None	80018577	80022131	-1	None	PP3111, DUS1
17	DUS1L	ENSG00000169718	ENST00000582529	protein_coding	KNOWN	None	30086	927	308	80018753	80023763	-1	None	PP3111, DUS1
17	DUS1L	ENSG00000169718	ENST00000578907	protein_coding	NOVEL	None	30086	903	300	80019085	80023659	-1	None	PP3111, DUS1
17	DUS1L	ENSG00000169718	ENST00000578176	protein_coding	NOVEL	None	30086	742	246	80019134	80023673	-1	None	PP3111, DUS1
17	DUS1L	ENSG00000169718	ENST00000577907	protein_coding	NOVEL	None	30086	456	151	80020758	80023670	-1	None	PP3111, DUS1
19	SNAPC2	ENSG00000104976	ENST00000221573	protein_coding	KNOWN	CCDS12190	11135	1005	334	7985201	7988135	1	None	SNAP45, PTFdelta
19	SNAPC2	ENSG00000104976	ENST00000595637	protein_coding	PUTATIVE	None	11135	838	278	7985272	7987542	1	None	SNAP45, PTFdelta
19	SNAPC2	ENSG00000104976	ENST00000593598	processed_transcript	KNOWN	None	11135	None	None	7985722	7986631	1	None	SNAP45, PTFdelta
19	SNAPC2	ENSG00000104976	ENST00000595035	processed_transcript	KNOWN	None	11135	None	None	7985898	7987078	1	None	SNAP45, PTFdelta
19	SNAPC2	ENSG00000104976	ENST00000597584	protein_coding	PUTATIVE	None	11135	294	97	7985900	7988135	1	None	SNAP45, PTFdelta
19	SNAPC2	ENSG00000104976	ENST00000596520	processed_transcript	KNOWN	None	11135	None	None	7986203	7987082	1	None	SNAP45, PTFdelta
1	CYP2J2	ENSG00000134716	ENST00000371204	protein_coding	KNOWN	CCDS613	2634	1509	502	60358980	60392462	-1	None	None
1	CYP2J2	ENSG00000134716	ENST00000492633	processed_transcript	KNOWN	None	2634	None	None	60358988	60378910	-1	None	None
1	CYP2J2	ENSG00000134716	ENST00000466095	processed_transcript	KNOWN	None	2634	None	None	60358992	60392433	-1	None	None
1	CYP2J2	ENSG00000134716	ENST00000469406	processed_transcript	KNOWN	None	2634	None	None	60358992	60392433	-1	None	None
1	CYP2J2	ENSG00000134716	ENST00000468257	processed_transcript	KNOWN	None	2634	None	None	60375583	60392427	-1	None	None
X	GAB3	ENSG00000160219	ENST00000496390	processed_transcript	KNOWN	None	17515	None	None	153903529	153979858	-1	None	None
X	GAB3	ENSG00000160219	ENST00000369575	protein_coding	KNOWN	CCDS14760	17515	1761	586	153903530	153979332	-1	None	None
X	GAB3	ENSG00000160219	ENST00000369568	protein_coding	NOVEL	None	17515	1647	548	153904446	153979348	-1	None	None
X	GAB3	ENSG00000160219	ENST00000424127	protein_coding	KNOWN	CCDS48198	17515	1764	587	153906243	153979352	-1	None	None
X	GAB3	ENSG00000160219	ENST00000475685	processed_transcript	PUTATIVE	None	17515	None	None	153906567	153924367	-1	None	None
X	GAB3	ENSG00000160219	ENST00000454973	protein_coding	PUTATIVE	None	17515	450	149	153907255	153908496	-1	None	None
1	DISC1	ENSG00000162946	ENST00000317586	protein_coding	KNOWN	CCDS31056	2888	1110	369	231762561	231859820	1	None	None
1	DISC1	ENSG00000162946	ENST00000602873	protein_coding	PUTATIVE	CCDS59207	2888	606	201	231762561	231954990	1	None	None
1	DISC1	ENSG00000162946	ENST00000602700	nonsense_mediated_decay	KNOWN	CCDS59206	2888	1071	356	231762561	231954990	1	None	None
1	DISC1	ENSG00000162946	ENST00000602822	nonsense_mediated_decay	KNOWN	CCDS59206	2888	1071	356	231762561	231954990	1	None	None
1	DISC1	ENSG00000162946	ENST00000535944	nonsense_mediated_decay	KNOWN	None	2888	1830	609	231762561	231954990	1	None	None
1	DISC1	ENSG00000162946	ENST00000539444	protein_coding	KNOWN	CCDS53484	2888	1740	579	231762561	231954990	1	None	None
1	DISC1	ENSG00000162946	ENST00000295051	nonsense_mediated_decay	KNOWN	None	2888	1644	547	231762561	231954990	1	None	None
1	DISC1	ENSG00000162946	ENST00000602281	protein_coding	KNOWN	CCDS59205	2888	1989	662	231762561	231954990	1	None	None
1	DISC1	ENSG00000162946	ENST00000366633	protein_coding	KNOWN	CCDS53482	2888	2268	755	231762561	231991126	1	None	None
1	DISC1	ENSG00000162946	ENST00000366632	nonsense_mediated_decay	KNOWN	None	2888	1149	382	231762561	231991126	1	None	None
1	DISC1	ENSG00000162946	ENST00000602713	nonsense_mediated_decay	KNOWN	CCDS59206	2888	1071	356	231762561	231991126	1	None	None
1	DISC1	ENSG00000162946	ENST00000366636	protein_coding	KNOWN	CCDS31055	2888	2037	678	231762561	232002458	1	None	None
1	DISC1	ENSG00000162946	ENST00000366637	protein_coding	KNOWN	None	2888	495	164	231762561	232176873	1	None	None
1	DISC1	ENSG00000162946	ENST00000439617	protein_coding	KNOWN	None	2888	2565	854	231762561	232177018	1	None	None
1	DISC1	ENSG00000162946	ENST00000422590	nonsense_mediated_decay	KNOWN	None	2888	135	44	231762583	232145400	1	None	None
1	DISC1	ENSG00000162946	ENST00000468399	retained_intron	KNOWN	None	2888	None	None	231765136	231838407	1	None	None
1	DISC1	ENSG00000162946	ENST00000602600	processed_transcript	KNOWN	None	2888	None	None	231820498	231829681	1	None	None
1	DISC1	ENSG00000162946	ENST00000427560	processed_transcript	KNOWN	None	2888	None	None	231954651	232144768	1	None	None
1	DISC1	ENSG00000162946	ENST00000535983	protein_coding	KNOWN	CCDS53483	2888	2088	695	231762561	232145398	1	None	None
1	DISC1	ENSG00000162946	ENST00000537876	protein_coding	KNOWN	CCDS53485	2888	1680	559	231762561	232145398	1	None	None
6	ARID1B	ENSG00000049618	ENST00000350026	protein_coding	KNOWN	CCDS5251	18040	6711	2236	157099063	157530284	1	None	KIAA1235, ELD/OSA1, p250R, BAF250b, DAN15, 6A3-5
6	ARID1B	ENSG00000049618	ENST00000346085	protein_coding	KNOWN	CCDS55072	18040	6750	2249	157099063	157531913	1	None	KIAA1235, ELD/OSA1, p250R, BAF250b, DAN15, 6A3-5
6	ARID1B	ENSG00000049618	ENST00000414678	protein_coding	PUTATIVE	None	18040	5277	1758	157100567	157530401	1	None	KIAA1235, ELD/OSA1, p250R, BAF250b, DAN15, 6A3-5
6	ARID1B	ENSG00000049618	ENST00000494260	processed_transcript	KNOWN	None	18040	None	None	157150361	157191518	1	None	KIAA1235, ELD/OSA1, p250R, BAF250b, DAN15, 6A3-5
6	ARID1B	ENSG00000049618	ENST00000319584	protein_coding	PUTATIVE	None	18040	2187	728	157222507	157507754	1	None	KIAA1235, ELD/OSA1, p250R, BAF250b, DAN15, 6A3-5
6	ARID1B	ENSG00000049618	ENST00000452544	retained_intron	KNOWN	None	18040	None	None	157256605	157473538	1	None	KIAA1235, ELD/OSA1, p250R, BAF250b, DAN15, 6A3-5
6	ARID1B	ENSG00000049618	ENST00000493658	retained_intron	KNOWN	None	18040	None	None	157405900	157432284	1	None	KIAA1235, ELD/OSA1, p250R, BAF250b, DAN15, 6A3-5
6	ARID1B	ENSG00000049618	ENST00000478761	processed_transcript	KNOWN	None	18040	None	None	157469924	157502332	1	None	KIAA1235, ELD/OSA1, p250R, BAF250b, DAN15, 6A3-5
6	ARID1B	ENSG00000049618	ENST00000400790	protein_coding	PUTATIVE	None	18040	822	273	157470045	157507744	1	None	KIAA1235, ELD/OSA1, p250R, BAF250b, DAN15, 6A3-5
6	ARID1B	ENSG00000049618	ENST00000367148	protein_coding	KNOWN	None	18040	6870	2289	157099064	157530401	1	None	KIAA1235, ELD/OSA1, p250R, BAF250b, DAN15, 6A3-5
6	ARID1B	ENSG00000049618	ENST00000275248	protein_coding	KNOWN	None	18040	6696	2231	157099086	157530401	1	None	KIAA1235, ELD/OSA1, p250R, BAF250b, DAN15, 6A3-5
20	None	ENSG00000237396	ENST00000422494	lincRNA	KNOWN	None	None	None	None	22568160	22588155	-1	None	None
16	C1QTNF8	ENSG00000184471	ENST00000328449	protein_coding	KNOWN	CCDS32358	31374	759	252	1140005	1146244	-1	None	UNQ5829, CTRP8
14	SOS2	ENSG00000100485	ENST00000216373	protein_coding	KNOWN	CCDS9697	11188	3999	1332	50583847	50698276	-1	None	None
14	SOS2	ENSG00000100485	ENST00000543680	protein_coding	NOVEL	None	11188	3900	1299	50585028	50698027	-1	None	None
14	SOS2	ENSG00000100485	ENST00000555794	processed_transcript	KNOWN	None	11188	None	None	50622610	50647372	-1	None	None
14	SOS2	ENSG00000100485	ENST00000556469	processed_transcript	KNOWN	None	11188	None	None	50649173	50697972	-1	None	None
14	SOS2	ENSG00000100485	ENST00000555666	processed_transcript	KNOWN	None	11188	None	None	50666419	50697819	-1	None	None
14	SOS2	ENSG00000100485	ENST00000556452	nonsense_mediated_decay	KNOWN	None	11188	213	70	50667756	50698080	-1	None	None
17	EFNB3	ENSG00000108947	ENST00000226091	protein_coding	KNOWN	CCDS11120	3228	1023	340	7608520	7614696	1	EPLG8	LERK-8
6	CSNK2B	ENSG00000204435	ENST00000375885	protein_coding	PUTATIVE	None	2460	705	234	31633013	31637847	1	None	None
6	CSNK2B	ENSG00000204435	ENST00000375882	protein_coding	KNOWN	CCDS4712	2460	648	215	31633841	31637847	1	None	None
6	CSNK2B	ENSG00000204435	ENST00000468255	retained_intron	KNOWN	None	2460	None	None	31633858	31638120	1	None	None
6	CSNK2B	ENSG00000204435	ENST00000465481	retained_intron	KNOWN	None	2460	None	None	31633864	31636018	1	None	None
6	CSNK2B	ENSG00000204435	ENST00000481269	retained_intron	KNOWN	None	2460	None	None	31633871	31637241	1	None	None
6	CSNK2B	ENSG00000204435	ENST00000475875	retained_intron	KNOWN	None	2460	None	None	31633878	31635079	1	None	None
6	CSNK2B	ENSG00000204435	ENST00000375865	protein_coding	KNOWN	CCDS4712	2460	648	215	31634069	31637847	1	None	None
6	CSNK2B	ENSG00000204435	ENST00000375866	protein_coding	KNOWN	CCDS4712	2460	648	215	31634132	31637847	1	None	None
10	CSGALNACT2	ENSG00000169826	ENST00000374466	protein_coding	KNOWN	CCDS7201	24292	1629	542	43633934	43680756	1	None	GALNACT2, MGC40204, PRO0082, GALNACT-2
10	CSGALNACT2	ENSG00000169826	ENST00000374464	protein_coding	KNOWN	None	24292	1002	333	43633934	43657669	1	None	GALNACT2, MGC40204, PRO0082, GALNACT-2
1	C1orf87	ENSG00000162598	ENST00000486478	processed_transcript	KNOWN	None	28547	None	None	60452941	60474524	-1	None	MGC34837
1	C1orf87	ENSG00000162598	ENST00000450089	protein_coding	NOVEL	None	28547	954	317	60456066	60539408	-1	None	MGC34837
1	C1orf87	ENSG00000162598	ENST00000371201	protein_coding	KNOWN	CCDS614	28547	1641	546	60456066	60539442	-1	None	MGC34837
1	C1orf87	ENSG00000162598	ENST00000488027	processed_transcript	KNOWN	None	28547	None	None	60456069	60474517	-1	None	MGC34837
1	C1orf87	ENSG00000162598	ENST00000491817	processed_transcript	KNOWN	None	28547	None	None	60456472	60476626	-1	None	MGC34837
1	C1orf87	ENSG00000162598	ENST00000395552	protein_coding	KNOWN	None	28547	543	180	60456070	60474413	-1	None	MGC34837
16	ST3GAL2	ENSG00000157350	ENST00000393640	protein_coding	KNOWN	CCDS10890	10863	1053	350	70413408	70434541	-1	SIAT4B	ST3GALII, ST3GalA.2
16	ST3GAL2	ENSG00000157350	ENST00000567822	processed_transcript	KNOWN	None	10863	None	None	70415477	70427662	-1	SIAT4B	ST3GALII, ST3GalA.2
16	ST3GAL2	ENSG00000157350	ENST00000566097	processed_transcript	KNOWN	None	10863	None	None	70432822	70473140	-1	SIAT4B	ST3GALII, ST3GalA.2
16	ST3GAL2	ENSG00000157350	ENST00000561708	processed_transcript	KNOWN	None	10863	None	None	70432986	70456976	-1	SIAT4B	ST3GALII, ST3GalA.2
16	ST3GAL2	ENSG00000157350	ENST00000567586	processed_transcript	KNOWN	None	10863	None	None	70433353	70472925	-1	SIAT4B	ST3GALII, ST3GalA.2
16	ST3GAL2	ENSG00000157350	ENST00000342907	protein_coding	KNOWN	CCDS10890	10863	1053	350	70413338	70472991	-1	SIAT4B	ST3GALII, ST3GalA.2
20	None	ENSG00000230400	ENST00000441568	lincRNA	KNOWN	None	None	None	None	22656710	22665516	-1	None	None
20	None	ENSG00000230400	ENST00000437696	lincRNA	KNOWN	None	None	None	None	22664300	22665982	-1	None	None
11	EML3	ENSG00000149499	ENST00000439994	protein_coding	NOVEL	None	26666	414	137	62369690	62371210	-1	None	FLJ35827, ELP95
11	EML3	ENSG00000149499	ENST00000394773	protein_coding	KNOWN	CCDS8023	26666	2691	896	62369690	62380237	-1	None	FLJ35827, ELP95
11	EML3	ENSG00000149499	ENST00000394776	protein_coding	NOVEL	None	26666	2735	910	62369691	62379068	-1	None	FLJ35827, ELP95
11	EML3	ENSG00000149499	ENST00000278845	protein_coding	NOVEL	None	26666	2694	897	62369691	62379996	-1	None	FLJ35827, ELP95
11	EML3	ENSG00000149499	ENST00000460939	retained_intron	KNOWN	None	26666	None	None	62369692	62373684	-1	None	FLJ35827, ELP95
11	EML3	ENSG00000149499	ENST00000531557	protein_coding	PUTATIVE	None	26666	2040	679	62369692	62378479	-1	None	FLJ35827, ELP95
11	EML3	ENSG00000149499	ENST00000494176	protein_coding	PUTATIVE	None	26666	2670	889	62369692	62379152	-1	None	FLJ35827, ELP95
11	EML3	ENSG00000149499	ENST00000529309	protein_coding	KNOWN	None	26666	2754	917	62369692	62380002	-1	None	FLJ35827, ELP95
11	EML3	ENSG00000149499	ENST00000494448	nonsense_mediated_decay	KNOWN	None	26666	585	194	62369698	62379853	-1	None	FLJ35827, ELP95
11	EML3	ENSG00000149499	ENST00000533165	retained_intron	KNOWN	None	26666	None	None	62370588	62372701	-1	None	FLJ35827, ELP95
11	EML3	ENSG00000149499	ENST00000483199	retained_intron	KNOWN	None	26666	None	None	62371545	62374864	-1	None	FLJ35827, ELP95
11	EML3	ENSG00000149499	ENST00000524518	retained_intron	KNOWN	None	26666	None	None	62372180	62373154	-1	None	FLJ35827, ELP95
11	EML3	ENSG00000149499	ENST00000526116	retained_intron	KNOWN	None	26666	None	None	62373068	62374554	-1	None	FLJ35827, ELP95
11	EML3	ENSG00000149499	ENST00000462626	retained_intron	KNOWN	None	26666	None	None	62373309	62374514	-1	None	FLJ35827, ELP95
11	EML3	ENSG00000149499	ENST00000438258	processed_transcript	KNOWN	None	26666	None	None	62373382	62375465	-1	None	FLJ35827, ELP95
11	EML3	ENSG00000149499	ENST00000466886	protein_coding	PUTATIVE	None	26666	382	126	62378448	62379848	-1	None	FLJ35827, ELP95
11	EML3	ENSG00000149499	ENST00000466671	protein_coding	PUTATIVE	None	26666	384	127	62378449	62379752	-1	None	FLJ35827, ELP95
11	EML3	ENSG00000149499	ENST00000419857	protein_coding	PUTATIVE	None	26666	340	112	62378584	62380218	-1	None	FLJ35827, ELP95
5	BHMT2	ENSG00000132840	ENST00000255192	protein_coding	KNOWN	CCDS4045	1048	1092	363	78365540	78385289	1	None	None
5	BHMT2	ENSG00000132840	ENST00000518666	protein_coding	PUTATIVE	None	1048	205	67	78365590	78376636	1	None	None
5	BHMT2	ENSG00000132840	ENST00000521567	protein_coding	NOVEL	CCDS54871	1048	900	299	78365590	78385018	1	None	None
5	BHMT2	ENSG00000132840	ENST00000518758	retained_intron	KNOWN	None	1048	None	None	78365591	78376764	1	None	None
5	BHMT2	ENSG00000132840	ENST00000519743	nonsense_mediated_decay	KNOWN	None	1048	177	58	78365592	78379042	1	None	None
5	BHMT2	ENSG00000132840	ENST00000523472	retained_intron	KNOWN	None	1048	None	None	78365599	78373964	1	None	None
5	BHMT2	ENSG00000132840	ENST00000523046	retained_intron	KNOWN	None	1048	None	None	78378215	78379021	1	None	None
2	DGUOK	ENSG00000114956	ENST00000264093	protein_coding	KNOWN	CCDS1931	2858	834	277	74153953	74186088	1	None	dGK
2	DGUOK	ENSG00000114956	ENST00000348222	protein_coding	KNOWN	CCDS1932	2858	570	189	74153953	74186088	1	None	dGK
2	DGUOK	ENSG00000114956	ENST00000418996	nonsense_mediated_decay	KNOWN	None	2858	270	89	74154002	74186073	1	None	dGK
2	DGUOK	ENSG00000114956	ENST00000462551	processed_transcript	KNOWN	None	2858	None	None	74154020	74174258	1	None	dGK
2	DGUOK	ENSG00000114956	ENST00000489796	processed_transcript	KNOWN	None	2858	None	None	74154021	74185372	1	None	dGK
2	DGUOK	ENSG00000114956	ENST00000462685	processed_transcript	KNOWN	None	2858	None	None	74154024	74185915	1	None	dGK
2	DGUOK	ENSG00000114956	ENST00000493055	processed_transcript	PUTATIVE	None	2858	None	None	74154035	74174180	1	None	dGK
2	DGUOK	ENSG00000114956	ENST00000356837	protein_coding	KNOWN	None	2858	768	255	74154035	74186073	1	None	dGK
19	CTXN1	ENSG00000178531	ENST00000318978	protein_coding	KNOWN	CCDS12191	31108	249	82	7989372	7991051	-1	None	FLJ25968
8	PXDNL	ENSG00000147485	ENST00000522628	nonsense_mediated_decay	KNOWN	None	26359	1749	582	52232138	52321981	-1	None	FLJ25471, PMR1
8	PXDNL	ENSG00000147485	ENST00000522933	protein_coding	NOVEL	None	26359	1613	536	52232139	52321539	-1	None	FLJ25471, PMR1
8	PXDNL	ENSG00000147485	ENST00000356297	protein_coding	KNOWN	CCDS47855	26359	4392	1463	52232139	52722005	-1	None	FLJ25471, PMR1
8	PXDNL	ENSG00000147485	ENST00000519183	retained_intron	KNOWN	None	26359	None	None	52232491	52252745	-1	None	FLJ25471, PMR1
8	PXDNL	ENSG00000147485	ENST00000543296	protein_coding	KNOWN	None	26359	3951	1316	52232145	52722005	-1	None	FLJ25471, PMR1
20	KRT18P3	ENSG00000215553	ENST00000451602	processed_pseudogene	KNOWN	None	16540	None	None	22713440	22714727	-1	None	bA359G22.1, OTTHUMG00000032046
2	TET3	ENSG00000187605	ENST00000305799	protein_coding	PUTATIVE	None	28313	2215	737	74229840	74275538	1	None	MGC22014, hCG_40738
2	TET3	ENSG00000187605	ENST00000409262	protein_coding	KNOWN	CCDS46339	28313	4983	1660	74273450	74335303	1	None	MGC22014, hCG_40738
2	TET3	ENSG00000187605	ENST00000475405	retained_intron	KNOWN	None	28313	None	None	74274287	74301031	1	None	MGC22014, hCG_40738
3	TMEM110-MUSTN1	ENSG00000248592	ENST00000495552	retained_intron	KNOWN	None	38834	None	None	52867137	52874278	-1	None	None
3	TMEM110-MUSTN1	ENSG00000248592	ENST00000514466	protein_coding	PUTATIVE	None	38834	446	147	52867137	52876963	-1	None	None
3	TMEM110-MUSTN1	ENSG00000248592	ENST00000504329	protein_coding	PUTATIVE	CCDS56264	38834	1119	372	52867166	52931578	-1	None	None
19	TIMM44	ENSG00000104980	ENST00000599939	retained_intron	KNOWN	None	17316	None	None	7991603	7993829	-1	None	TIM44
19	TIMM44	ENSG00000104980	ENST00000595565	protein_coding	PUTATIVE	None	17316	402	133	7991606	7997631	-1	None	TIM44
19	TIMM44	ENSG00000104980	ENST00000595831	nonsense_mediated_decay	KNOWN	None	17316	380	125	7991621	8008520	-1	None	TIM44
19	TIMM44	ENSG00000104980	ENST00000270538	protein_coding	KNOWN	CCDS12192	17316	1359	452	7991625	8008805	-1	None	TIM44
19	TIMM44	ENSG00000104980	ENST00000598968	processed_transcript	KNOWN	None	17316	None	None	7991799	7996715	-1	None	TIM44
19	TIMM44	ENSG00000104980	ENST00000599650	retained_intron	KNOWN	None	17316	None	None	7991934	7996484	-1	None	TIM44
19	TIMM44	ENSG00000104980	ENST00000598481	retained_intron	KNOWN	None	17316	None	None	7992709	7996266	-1	None	TIM44
19	TIMM44	ENSG00000104980	ENST00000595876	nonsense_mediated_decay	KNOWN	None	17316	420	139	7993008	8008552	-1	None	TIM44
19	TIMM44	ENSG00000104980	ENST00000598675	retained_intron	KNOWN	None	17316	None	None	7997161	7998837	-1	None	TIM44
19	TIMM44	ENSG00000104980	ENST00000597926	protein_coding	NOVEL	None	17316	819	272	7997584	8008536	-1	None	TIM44
19	TIMM44	ENSG00000104980	ENST00000600748	retained_intron	KNOWN	None	17316	None	None	7998649	8008521	-1	None	TIM44
19	TIMM44	ENSG00000104980	ENST00000600000	retained_intron	KNOWN	None	17316	None	None	8002683	8008551	-1	None	TIM44
10	CELF2	ENSG00000048740	ENST00000315874	protein_coding	KNOWN	CCDS41488	2550	1473	490	11206993	11376357	1	CUGBP2	Etr-3, NAPOR-2, BRUNOL3
10	CELF2	ENSG00000048740	ENST00000354440	protein_coding	KNOWN	CCDS41488	2550	1473	490	11206993	11376357	1	CUGBP2	Etr-3, NAPOR-2, BRUNOL3
10	CELF2	ENSG00000048740	ENST00000354897	protein_coding	KNOWN	None	2550	1509	502	11207449	11371242	1	CUGBP2	Etr-3, NAPOR-2, BRUNOL3
10	CELF2	ENSG00000048740	ENST00000379261	protein_coding	KNOWN	CCDS44354	2550	1527	508	11047259	11378666	1	CUGBP2	Etr-3, NAPOR-2, BRUNOL3
10	CELF2	ENSG00000048740	ENST00000416382	protein_coding	KNOWN	CCDS44354	2550	1527	508	11047351	11373245	1	CUGBP2	Etr-3, NAPOR-2, BRUNOL3
10	CELF2	ENSG00000048740	ENST00000450189	protein_coding	KNOWN	CCDS44355	2550	1566	521	11059893	11378666	1	CUGBP2	Etr-3, NAPOR-2, BRUNOL3
10	CELF2	ENSG00000048740	ENST00000542579	protein_coding	KNOWN	CCDS44355	2550	1566	521	11060053	11373245	1	CUGBP2	Etr-3, NAPOR-2, BRUNOL3
10	CELF2	ENSG00000048740	ENST00000399850	protein_coding	KNOWN	CCDS41488	2550	1473	490	11060106	11373245	1	CUGBP2	Etr-3, NAPOR-2, BRUNOL3
10	CELF2	ENSG00000048740	ENST00000417956	protein_coding	KNOWN	CCDS44356	2550	1467	488	11060106	11373245	1	CUGBP2	Etr-3, NAPOR-2, BRUNOL3
10	CELF2	ENSG00000048740	ENST00000427450	protein_coding	KNOWN	CCDS41488	2550	1473	490	11206993	11378666	1	CUGBP2	Etr-3, NAPOR-2, BRUNOL3
10	CELF2	ENSG00000048740	ENST00000537122	protein_coding	KNOWN	None	2550	1212	403	11207491	11371055	1	CUGBP2	Etr-3, NAPOR-2, BRUNOL3
12	CAPS2	ENSG00000180881	ENST00000409004	processed_transcript	KNOWN	None	16471	None	None	75669759	75711953	-1	None	None
12	CAPS2	ENSG00000180881	ENST00000409799	protein_coding	PUTATIVE	None	16471	1428	475	75669759	75723805	-1	None	None
12	CAPS2	ENSG00000180881	ENST00000409445	protein_coding	KNOWN	CCDS9008	16471	1674	557	75669759	75723836	-1	None	None
12	CAPS2	ENSG00000180881	ENST00000393284	protein_coding	KNOWN	None	16471	1149	382	75670991	75720241	-1	None	None
12	CAPS2	ENSG00000180881	ENST00000328705	nonsense_mediated_decay	KNOWN	None	16471	126	41	75671009	75784702	-1	None	None
12	CAPS2	ENSG00000180881	ENST00000336815	nonsense_mediated_decay	KNOWN	None	16471	429	142	75671445	75784701	-1	None	None
12	CAPS2	ENSG00000180881	ENST00000552497	protein_coding	PUTATIVE	None	16471	562	186	75693651	75784681	-1	None	None
12	CAPS2	ENSG00000180881	ENST00000551829	protein_coding	PUTATIVE	None	16471	101	32	75698576	75784681	-1	None	None
12	CAPS2	ENSG00000180881	ENST00000436898	protein_coding	PUTATIVE	None	16471	405	134	75698650	75784681	-1	None	None
12	CAPS2	ENSG00000180881	ENST00000486196	processed_transcript	PUTATIVE	None	16471	None	None	75715237	75784688	-1	None	None
12	CAPS2	ENSG00000180881	ENST00000493070	retained_intron	KNOWN	None	16471	None	None	75716716	75723836	-1	None	None
12	CAPS2	ENSG00000180881	ENST00000548958	processed_transcript	PUTATIVE	None	16471	None	None	75754112	75784690	-1	None	None
12	CAPS2	ENSG00000180881	ENST00000547320	processed_transcript	PUTATIVE	None	16471	None	None	75758589	75784708	-1	None	None
12	CAPS2	ENSG00000180881	ENST00000548035	processed_transcript	PUTATIVE	None	16471	None	None	75767278	75784681	-1	None	None
12	CAPS2	ENSG00000180881	ENST00000442339	protein_coding	KNOWN	None	16471	615	204	75671445	75784701	-1	None	None
1	NFIA	ENSG00000162599	ENST00000371191	protein_coding	PUTATIVE	None	7784	1599	532	61330931	61921197	1	None	NFI-L, KIAA1439
1	NFIA	ENSG00000162599	ENST00000476646	protein_coding	PUTATIVE	None	7784	559	185	61519502	61798258	1	None	NFI-L, KIAA1439
1	NFIA	ENSG00000162599	ENST00000407417	protein_coding	KNOWN	CCDS53321	7784	1506	501	61542946	61921257	1	None	NFI-L, KIAA1439
1	NFIA	ENSG00000162599	ENST00000479364	processed_transcript	KNOWN	None	7784	None	None	61547439	61872399	1	None	NFI-L, KIAA1439
1	NFIA	ENSG00000162599	ENST00000371189	protein_coding	KNOWN	CCDS53322	7784	1665	554	61547534	61921234	1	None	NFI-L, KIAA1439
1	NFIA	ENSG00000162599	ENST00000403491	protein_coding	KNOWN	CCDS44156	7784	1530	509	61547980	61928465	1	None	NFI-L, KIAA1439
1	NFIA	ENSG00000162599	ENST00000371187	protein_coding	KNOWN	CCDS615	7784	1497	498	61548293	61922066	1	None	NFI-L, KIAA1439
1	NFIA	ENSG00000162599	ENST00000485903	protein_coding	NOVEL	None	7784	1401	466	61548395	61921196	1	None	NFI-L, KIAA1439
1	NFIA	ENSG00000162599	ENST00000371185	protein_coding	NOVEL	None	7784	1464	487	61548420	61921198	1	None	NFI-L, KIAA1439
1	NFIA	ENSG00000162599	ENST00000371184	protein_coding	NOVEL	None	7784	1143	380	61548426	61921159	1	None	NFI-L, KIAA1439
1	NFIA	ENSG00000162599	ENST00000496712	protein_coding	PUTATIVE	None	7784	286	94	61554084	61598700	1	None	NFI-L, KIAA1439
1	NFIA	ENSG00000162599	ENST00000482020	protein_coding	NOVEL	None	7784	552	183	61818122	61869898	1	None	NFI-L, KIAA1439
1	NFIA	ENSG00000162599	ENST00000357977	protein_coding	PUTATIVE	None	7784	474	157	61869748	61923709	1	None	NFI-L, KIAA1439
1	NFIA	ENSG00000162599	ENST00000493627	protein_coding	PUTATIVE	None	7784	142	46	61872344	61921546	1	None	NFI-L, KIAA1439
2	None	ENSG00000217702	ENST00000401851	protein_coding	NOVEL	None	None	96	31	74361599	74362521	1	None	None
20	None	ENSG00000265151	ENST00000581262	miRNA	NOVEL	None	None	None	None	22713848	22713939	-1	None	None
5	ZNF454	ENSG00000178187	ENST00000320129	protein_coding	KNOWN	CCDS4441	21200	1569	522	178368192	178393434	1	None	FLJ37444
5	ZNF454	ENSG00000178187	ENST00000519564	protein_coding	KNOWN	CCDS4441	21200	1569	522	178368224	178393218	1	None	FLJ37444
5	ZNF454	ENSG00000178187	ENST00000522827	retained_intron	KNOWN	None	21200	None	None	178369429	178375117	1	None	FLJ37444
2	BOLA3	ENSG00000163170	ENST00000327428	protein_coding	KNOWN	CCDS33225	24415	324	107	74362525	74375121	-1	None	None
2	BOLA3	ENSG00000163170	ENST00000477685	retained_intron	KNOWN	None	24415	None	None	74362528	74372635	-1	None	None
2	BOLA3	ENSG00000163170	ENST00000484655	retained_intron	KNOWN	None	24415	None	None	74362528	74375039	-1	None	None
2	BOLA3	ENSG00000163170	ENST00000295326	protein_coding	KNOWN	CCDS33224	24415	306	101	74362542	74375032	-1	None	None
2	BOLA3	ENSG00000163170	ENST00000469676	retained_intron	KNOWN	None	24415	None	None	74362542	74375039	-1	None	None
1	SIPA1L2	ENSG00000116991	ENST00000366630	protein_coding	KNOWN	CCDS41474	23800	5169	1722	232533711	232697304	-1	None	KIAA1389
1	SIPA1L2	ENSG00000116991	ENST00000308942	protein_coding	KNOWN	None	23800	2337	778	232534456	232598163	-1	None	KIAA1389
1	SIPA1L2	ENSG00000116991	ENST00000494056	processed_transcript	KNOWN	None	23800	None	None	232534888	232538512	-1	None	KIAA1389
1	SIPA1L2	ENSG00000116991	ENST00000495863	processed_transcript	KNOWN	None	23800	None	None	232539279	232551616	-1	None	KIAA1389
1	SIPA1L2	ENSG00000116991	ENST00000486472	processed_transcript	KNOWN	None	23800	None	None	232626432	232629406	-1	None	KIAA1389
1	SIPA1L2	ENSG00000116991	ENST00000262861	protein_coding	KNOWN	CCDS41474	23800	5169	1722	232533714	232651312	-1	None	KIAA1389
20	None	ENSG00000213882	ENST00000396692	processed_pseudogene	KNOWN	None	None	None	None	22866308	22866706	-1	None	None
2	CFLAR	ENSG00000003402	ENST00000309955	protein_coding	KNOWN	CCDS2337	1876	1443	480	201980827	202029033	1	CASP8AP1	CASH, Casper, CLARP, FLAME, FLIP, I-FLICE, MRIT, c-FLIP
2	CFLAR	ENSG00000003402	ENST00000443227	protein_coding	KNOWN	CCDS56158	1876	1155	384	201980877	202028885	1	CASP8AP1	CASH, Casper, CLARP, FLAME, FLIP, I-FLICE, MRIT, c-FLIP
2	CFLAR	ENSG00000003402	ENST00000341222	protein_coding	NOVEL	CCDS46487	1876	666	221	201980890	202006321	1	CASP8AP1	CASH, Casper, CLARP, FLAME, FLIP, I-FLICE, MRIT, c-FLIP
2	CFLAR	ENSG00000003402	ENST00000341582	protein_coding	NOVEL	CCDS56157	1876	1338	445	201980930	202029002	1	CASP8AP1	CASH, Casper, CLARP, FLAME, FLIP, I-FLICE, MRIT, c-FLIP
2	CFLAR	ENSG00000003402	ENST00000342795	protein_coding	NOVEL	None	1876	879	292	201980962	202019299	1	CASP8AP1	CASH, Casper, CLARP, FLAME, FLIP, I-FLICE, MRIT, c-FLIP
2	CFLAR	ENSG00000003402	ENST00000395148	protein_coding	PUTATIVE	None	1876	753	250	201981130	202004600	1	CASP8AP1	CASH, Casper, CLARP, FLAME, FLIP, I-FLICE, MRIT, c-FLIP
2	CFLAR	ENSG00000003402	ENST00000441224	protein_coding	KNOWN	None	1876	387	128	201981560	201997857	1	CASP8AP1	CASH, Casper, CLARP, FLAME, FLIP, I-FLICE, MRIT, c-FLIP
2	CFLAR	ENSG00000003402	ENST00000433445	protein_coding	KNOWN	None	1876	194	63	201981762	201994782	1	CASP8AP1	CASH, Casper, CLARP, FLAME, FLIP, I-FLICE, MRIT, c-FLIP
2	CFLAR	ENSG00000003402	ENST00000423241	protein_coding	NOVEL	CCDS2337	1876	1443	480	201983214	202028833	1	CASP8AP1	CASH, Casper, CLARP, FLAME, FLIP, I-FLICE, MRIT, c-FLIP
2	CFLAR	ENSG00000003402	ENST00000490965	processed_transcript	KNOWN	None	1876	None	None	201983246	201983900	1	CASP8AP1	CASH, Casper, CLARP, FLAME, FLIP, I-FLICE, MRIT, c-FLIP
2	CFLAR	ENSG00000003402	ENST00000439154	nonsense_mediated_decay	KNOWN	None	1876	732	243	201983387	202025178	1	CASP8AP1	CASH, Casper, CLARP, FLAME, FLIP, I-FLICE, MRIT, c-FLIP
2	CFLAR	ENSG00000003402	ENST00000425030	protein_coding	KNOWN	None	1876	188	61	201987200	201994776	1	CASP8AP1	CASH, Casper, CLARP, FLAME, FLIP, I-FLICE, MRIT, c-FLIP
2	CFLAR	ENSG00000003402	ENST00000417748	protein_coding	KNOWN	None	1876	355	117	201994052	201997825	1	CASP8AP1	CASH, Casper, CLARP, FLAME, FLIP, I-FLICE, MRIT, c-FLIP
2	CFLAR	ENSG00000003402	ENST00000440180	protein_coding	NOVEL	CCDS46487	1876	666	221	201994226	202006325	1	CASP8AP1	CASH, Casper, CLARP, FLAME, FLIP, I-FLICE, MRIT, c-FLIP
2	CFLAR	ENSG00000003402	ENST00000461820	retained_intron	KNOWN	None	1876	None	None	201994366	202001004	1	CASP8AP1	CASH, Casper, CLARP, FLAME, FLIP, I-FLICE, MRIT, c-FLIP
2	CFLAR	ENSG00000003402	ENST00000457277	protein_coding	NOVEL	None	1876	1389	462	201994589	202028282	1	CASP8AP1	CASH, Casper, CLARP, FLAME, FLIP, I-FLICE, MRIT, c-FLIP
2	CFLAR	ENSG00000003402	ENST00000461422	retained_intron	KNOWN	None	1876	None	None	201994700	202005384	1	CASP8AP1	CASH, Casper, CLARP, FLAME, FLIP, I-FLICE, MRIT, c-FLIP
2	CFLAR	ENSG00000003402	ENST00000494258	protein_coding	PUTATIVE	None	1876	354	117	201997502	202005458	1	CASP8AP1	CASH, Casper, CLARP, FLAME, FLIP, I-FLICE, MRIT, c-FLIP
2	CFLAR	ENSG00000003402	ENST00000470178	protein_coding	PUTATIVE	None	1876	352	116	201997595	202006130	1	CASP8AP1	CASH, Casper, CLARP, FLAME, FLIP, I-FLICE, MRIT, c-FLIP
2	CFLAR	ENSG00000003402	ENST00000462763	protein_coding	PUTATIVE	None	1876	505	167	201997676	202014558	1	CASP8AP1	CASH, Casper, CLARP, FLAME, FLIP, I-FLICE, MRIT, c-FLIP
2	CFLAR	ENSG00000003402	ENST00000479953	protein_coding	PUTATIVE	CCDS59436	1876	1101	366	201997707	202027880	1	CASP8AP1	CASH, Casper, CLARP, FLAME, FLIP, I-FLICE, MRIT, c-FLIP
2	CFLAR	ENSG00000003402	ENST00000460961	retained_intron	KNOWN	None	1876	None	None	201997753	202001137	1	CASP8AP1	CASH, Casper, CLARP, FLAME, FLIP, I-FLICE, MRIT, c-FLIP
2	CFLAR	ENSG00000003402	ENST00000474842	retained_intron	KNOWN	None	1876	None	None	202004909	202028696	1	CASP8AP1	CASH, Casper, CLARP, FLAME, FLIP, I-FLICE, MRIT, c-FLIP
2	CFLAR	ENSG00000003402	ENST00000470664	retained_intron	KNOWN	None	1876	None	None	202013674	202015078	1	CASP8AP1	CASH, Casper, CLARP, FLAME, FLIP, I-FLICE, MRIT, c-FLIP
2	CFLAR	ENSG00000003402	ENST00000355558	protein_coding	KNOWN	None	1876	903	300	201980890	202029001	1	CASP8AP1	CASH, Casper, CLARP, FLAME, FLIP, I-FLICE, MRIT, c-FLIP
2	CFLAR	ENSG00000003402	ENST00000340870	protein_coding	KNOWN	None	1876	1389	462	201980890	202027803	1	CASP8AP1	CASH, Casper, CLARP, FLAME, FLIP, I-FLICE, MRIT, c-FLIP
2	MOB1A	ENSG00000114978	ENST00000396049	protein_coding	KNOWN	CCDS46340	16015	651	216	74382165	74405995	-1	C2orf6, MOBK1B, MOBKL1B	FLJ10788, MOB1, FLJ11595, Mob4B, Mats1
2	MOB1A	ENSG00000114978	ENST00000497054	processed_transcript	KNOWN	None	16015	None	None	74386196	74405993	-1	C2orf6, MOBK1B, MOBKL1B	FLJ10788, MOB1, FLJ11595, Mob4B, Mats1
2	MOB1A	ENSG00000114978	ENST00000495286	processed_transcript	PUTATIVE	None	16015	None	None	74386236	74405441	-1	C2orf6, MOBK1B, MOBKL1B	FLJ10788, MOB1, FLJ11595, Mob4B, Mats1
2	MOB1A	ENSG00000114978	ENST00000463975	retained_intron	KNOWN	None	16015	None	None	74391149	74405995	-1	C2orf6, MOBK1B, MOBKL1B	FLJ10788, MOB1, FLJ11595, Mob4B, Mats1
2	MOB1A	ENSG00000114978	ENST00000488006	processed_transcript	PUTATIVE	None	16015	None	None	74399803	74406025	-1	C2orf6, MOBK1B, MOBKL1B	FLJ10788, MOB1, FLJ11595, Mob4B, Mats1
2	MOB1A	ENSG00000114978	ENST00000494600	processed_transcript	PUTATIVE	None	16015	None	None	74405135	74406006	-1	C2orf6, MOBK1B, MOBKL1B	FLJ10788, MOB1, FLJ11595, Mob4B, Mats1
2	MOB1A	ENSG00000114978	ENST00000409969	protein_coding	KNOWN	None	16015	447	148	74391149	74399944	-1	C2orf6, MOBK1B, MOBKL1B	FLJ10788, MOB1, FLJ11595, Mob4B, Mats1
5	BHMT	ENSG00000145692	ENST00000274353	protein_coding	KNOWN	CCDS4046	1047	1221	406	78407602	78428108	1	None	BHMT1
5	BHMT	ENSG00000145692	ENST00000520335	retained_intron	KNOWN	None	1047	None	None	78407632	78412227	1	None	BHMT1
5	BHMT	ENSG00000145692	ENST00000520703	retained_intron	KNOWN	None	1047	None	None	78407632	78415429	1	None	BHMT1
5	BHMT	ENSG00000145692	ENST00000524080	protein_coding	NOVEL	None	1047	762	253	78407632	78427307	1	None	BHMT1
5	BHMT	ENSG00000145692	ENST00000523508	retained_intron	KNOWN	None	1047	None	None	78416175	78422120	1	None	BHMT1
5	BHMT	ENSG00000145692	ENST00000521279	retained_intron	KNOWN	None	1047	None	None	78417104	78424020	1	None	BHMT1
3	TMEM110	ENSG00000213533	ENST00000482155	protein_coding	PUTATIVE	None	30526	120	39	52870235	52874623	-1	None	MGC52022
3	TMEM110	ENSG00000213533	ENST00000355083	protein_coding	KNOWN	CCDS2866	30526	885	294	52870772	52931612	-1	None	MGC52022
3	TMEM110	ENSG00000213533	ENST00000477591	processed_transcript	KNOWN	None	30526	None	None	52874234	52875800	-1	None	MGC52022
3	TMEM110	ENSG00000213533	ENST00000464769	processed_transcript	KNOWN	None	30526	None	None	52874310	52877185	-1	None	MGC52022
3	TMEM110	ENSG00000213533	ENST00000485356	protein_coding	PUTATIVE	None	30526	269	88	52881273	52886715	-1	None	MGC52022
3	TMEM110	ENSG00000213533	ENST00000467979	nonsense_mediated_decay	KNOWN	None	30526	198	65	52886637	52931559	-1	None	MGC52022
1	YY1AP1	ENSG00000163374	ENST00000442834	retained_intron	KNOWN	None	30935	None	None	155629237	155640882	-1	None	YY1AP, HCCA2, YAP
1	YY1AP1	ENSG00000163374	ENST00000311573	protein_coding	PUTATIVE	None	30935	2160	719	155629237	155658085	-1	None	YY1AP, HCCA2, YAP
1	YY1AP1	ENSG00000163374	ENST00000368340	protein_coding	PUTATIVE	CCDS55644	30935	2607	868	155629237	155658364	-1	None	YY1AP, HCCA2, YAP
1	YY1AP1	ENSG00000163374	ENST00000354691	nonsense_mediated_decay	KNOWN	None	30935	591	196	155629237	155658477	-1	None	YY1AP, HCCA2, YAP
1	YY1AP1	ENSG00000163374	ENST00000347088	protein_coding	KNOWN	CCDS1116	30935	2253	750	155629237	155658489	-1	None	YY1AP, HCCA2, YAP
1	YY1AP1	ENSG00000163374	ENST00000361831	protein_coding	PUTATIVE	None	30935	2220	739	155629237	155658496	-1	None	YY1AP, HCCA2, YAP
1	YY1AP1	ENSG00000163374	ENST00000355499	protein_coding	KNOWN	CCDS1116	30935	2253	750	155629237	155658497	-1	None	YY1AP, HCCA2, YAP
1	YY1AP1	ENSG00000163374	ENST00000361140	nonsense_mediated_decay	KNOWN	None	30935	498	165	155629237	155658539	-1	None	YY1AP, HCCA2, YAP
1	YY1AP1	ENSG00000163374	ENST00000404643	protein_coding	KNOWN	CCDS55643	30935	2193	730	155629237	155658548	-1	None	YY1AP, HCCA2, YAP
1	YY1AP1	ENSG00000163374	ENST00000359205	protein_coding	PUTATIVE	None	30935	2220	739	155629237	155658565	-1	None	YY1AP, HCCA2, YAP
1	YY1AP1	ENSG00000163374	ENST00000407221	protein_coding	PUTATIVE	None	30935	2160	719	155629237	155658565	-1	None	YY1AP, HCCA2, YAP
1	YY1AP1	ENSG00000163374	ENST00000436865	nonsense_mediated_decay	KNOWN	None	30935	147	48	155629237	155658764	-1	None	YY1AP, HCCA2, YAP
1	YY1AP1	ENSG00000163374	ENST00000295566	protein_coding	PUTATIVE	CCDS1115	30935	2391	796	155629237	155658791	-1	None	YY1AP, HCCA2, YAP
1	YY1AP1	ENSG00000163374	ENST00000368330	protein_coding	KNOWN	CCDS1116	30935	2253	750	155629237	155658791	-1	None	YY1AP, HCCA2, YAP
1	YY1AP1	ENSG00000163374	ENST00000405763	protein_coding	PUTATIVE	None	30935	1488	495	155630508	155658266	-1	None	YY1AP, HCCA2, YAP
1	YY1AP1	ENSG00000163374	ENST00000488784	processed_transcript	KNOWN	None	30935	None	None	155630531	155644865	-1	None	YY1AP, HCCA2, YAP
1	YY1AP1	ENSG00000163374	ENST00000493625	processed_transcript	KNOWN	None	30935	None	None	155630622	155650218	-1	None	YY1AP, HCCA2, YAP
1	YY1AP1	ENSG00000163374	ENST00000477470	processed_transcript	KNOWN	None	30935	None	None	155630631	155644842	-1	None	YY1AP, HCCA2, YAP
1	YY1AP1	ENSG00000163374	ENST00000476093	processed_transcript	KNOWN	None	30935	None	None	155640115	155658766	-1	None	YY1AP, HCCA2, YAP
1	YY1AP1	ENSG00000163374	ENST00000443231	protein_coding	PUTATIVE	None	30935	618	205	155640188	155658460	-1	None	YY1AP, HCCA2, YAP
1	YY1AP1	ENSG00000163374	ENST00000496324	retained_intron	KNOWN	None	30935	None	None	155642153	155650247	-1	None	YY1AP, HCCA2, YAP
1	YY1AP1	ENSG00000163374	ENST00000454523	protein_coding	KNOWN	None	30935	583	193	155642351	155658445	-1	None	YY1AP, HCCA2, YAP
1	YY1AP1	ENSG00000163374	ENST00000476027	processed_transcript	KNOWN	None	30935	None	None	155642351	155658508	-1	None	YY1AP, HCCA2, YAP
1	YY1AP1	ENSG00000163374	ENST00000466366	processed_transcript	KNOWN	None	30935	None	None	155642517	155649255	-1	None	YY1AP, HCCA2, YAP
1	YY1AP1	ENSG00000163374	ENST00000368339	protein_coding	KNOWN	CCDS55645	30935	2667	888	155629246	155658260	-1	None	YY1AP, HCCA2, YAP
1	YY1AP1	ENSG00000163374	ENST00000535662	protein_coding	KNOWN	None	30935	1791	596	155629248	155646462	-1	None	YY1AP, HCCA2, YAP
1	YY1AP1	ENSG00000163374	ENST00000438245	protein_coding	KNOWN	None	30935	591	196	155638515	155658110	-1	None	YY1AP, HCCA2, YAP
1	MAP10	ENSG00000212916	ENST00000418460	protein_coding	KNOWN	CCDS44334	29265	3144	1047	232940643	232946092	1	KIAA1383	MTR120
4	IGFBP7	ENSG00000163453	ENST00000512512	processed_transcript	KNOWN	None	5476	None	None	57896939	57931769	-1	None	MAC25, IGFBP-7, PSF, FSTL2
4	IGFBP7	ENSG00000163453	ENST00000295666	protein_coding	KNOWN	CCDS3512	5476	849	282	57896939	57976551	-1	None	MAC25, IGFBP-7, PSF, FSTL2
4	IGFBP7	ENSG00000163453	ENST00000514062	processed_transcript	KNOWN	None	5476	None	None	57898204	57907101	-1	None	MAC25, IGFBP-7, PSF, FSTL2
4	IGFBP7	ENSG00000163453	ENST00000537922	protein_coding	KNOWN	CCDS58900	5476	840	279	57898204	57976551	-1	None	MAC25, IGFBP-7, PSF, FSTL2
1	TM2D1	ENSG00000162604	ENST00000606498	protein_coding	KNOWN	None	24142	624	207	62146718	62190813	-1	None	BBP
1	TM2D1	ENSG00000162604	ENST00000472357	retained_intron	KNOWN	None	24142	None	None	62146720	62149529	-1	None	BBP
1	TM2D1	ENSG00000162604	ENST00000371180	protein_coding	KNOWN	None	24142	810	269	62146721	62191095	-1	None	BBP
1	TM2D1	ENSG00000162604	ENST00000488206	nonsense_mediated_decay	KNOWN	None	24142	314	103	62146917	62190785	-1	None	BBP
1	TM2D1	ENSG00000162604	ENST00000472989	processed_transcript	KNOWN	None	24142	None	None	62148944	62175090	-1	None	BBP
1	TM2D1	ENSG00000162604	ENST00000488410	processed_transcript	KNOWN	None	24142	None	None	62149124	62161913	-1	None	BBP
1	TM2D1	ENSG00000162604	ENST00000468586	nonsense_mediated_decay	KNOWN	None	24142	160	52	62149169	62190739	-1	None	BBP
1	TM2D1	ENSG00000162604	ENST00000371178	retained_intron	KNOWN	None	24142	None	None	62159826	62190792	-1	None	BBP
1	TM2D1	ENSG00000162604	ENST00000494926	nonsense_mediated_decay	KNOWN	None	24142	233	76	62160369	62190722	-1	None	BBP
1	TM2D1	ENSG00000162604	ENST00000496465	nonsense_mediated_decay	KNOWN	None	24142	231	76	62160370	62190816	-1	None	BBP
1	TM2D1	ENSG00000162604	ENST00000371177	protein_coding	PUTATIVE	None	24142	561	186	62163181	62190805	-1	None	BBP
1	TM2D1	ENSG00000162604	ENST00000294613	protein_coding	KNOWN	None	24142	624	207	62146719	62191095	-1	None	BBP
20	None	ENSG00000228935	ENST00000415260	processed_pseudogene	KNOWN	None	None	None	None	22941171	22946700	-1	None	None
17	DNAH2	ENSG00000183914	ENST00000572933	protein_coding	KNOWN	CCDS32551	2948	13284	4427	7620672	7737062	1	DNHD3	KIAA1503, FLJ46675
17	DNAH2	ENSG00000183914	ENST00000570791	protein_coding	KNOWN	None	2948	2619	872	7621079	7647219	1	DNHD3	KIAA1503, FLJ46675
17	DNAH2	ENSG00000183914	ENST00000575498	retained_intron	KNOWN	None	2948	None	None	7643914	7646535	1	DNHD3	KIAA1503, FLJ46675
17	DNAH2	ENSG00000183914	ENST00000574518	nonsense_mediated_decay	KNOWN	None	2948	784	260	7664062	7691068	1	DNHD3	KIAA1503, FLJ46675
17	DNAH2	ENSG00000183914	ENST00000575105	protein_coding	NOVEL	None	2948	3476	1157	7707638	7734996	1	DNHD3	KIAA1503, FLJ46675
17	DNAH2	ENSG00000183914	ENST00000389173	protein_coding	KNOWN	CCDS32551	2948	13284	4427	7623039	7737058	1	DNHD3	KIAA1503, FLJ46675
17	DNAH2	ENSG00000183914	ENST00000082259	protein_coding	KNOWN	None	2948	2619	872	7623039	7646929	1	DNHD3	KIAA1503, FLJ46675
15	UNC13C	ENSG00000137766	ENST00000260323	protein_coding	KNOWN	CCDS45264	23149	6645	2214	54305101	54920797	1	None	Munc13-3, DKFZp547H074
15	UNC13C	ENSG00000137766	ENST00000561210	retained_intron	KNOWN	None	23149	None	None	54556343	54709268	1	None	Munc13-3, DKFZp547H074
15	UNC13C	ENSG00000137766	ENST00000559093	protein_coding	NOVEL	None	23149	535	177	54793169	54839021	1	None	Munc13-3, DKFZp547H074
15	UNC13C	ENSG00000137766	ENST00000539562	protein_coding	PUTATIVE	None	23149	408	135	54901540	54919607	1	None	Munc13-3, DKFZp547H074
15	UNC13C	ENSG00000137766	ENST00000560537	protein_coding	PUTATIVE	None	23149	61	19	54903673	54916091	1	None	Munc13-3, DKFZp547H074
15	UNC13C	ENSG00000137766	ENST00000545554	protein_coding	KNOWN	None	23149	6645	2214	54305101	54920806	1	None	Munc13-3, DKFZp547H074
15	UNC13C	ENSG00000137766	ENST00000537900	protein_coding	KNOWN	None	23149	6639	2212	54305101	54920806	1	None	Munc13-3, DKFZp547H074
14	BATF	ENSG00000156127	ENST00000286639	protein_coding	KNOWN	CCDS9843	958	378	125	75988768	76013358	1	None	B-ATF, SFA-2, BATF1
14	BATF	ENSG00000156127	ENST00000555795	processed_transcript	PUTATIVE	None	958	None	None	75988798	76013230	1	None	B-ATF, SFA-2, BATF1
14	BATF	ENSG00000156127	ENST00000555504	protein_coding	NOVEL	None	958	222	73	75988903	76013336	1	None	B-ATF, SFA-2, BATF1
1	NTPCR	ENSG00000135778	ENST00000494689	processed_transcript	KNOWN	None	28204	None	None	233086351	233114228	1	C1orf57	MGC13186, HCR-NTPase
1	NTPCR	ENSG00000135778	ENST00000490807	processed_transcript	KNOWN	None	28204	None	None	233086360	233114497	1	C1orf57	MGC13186, HCR-NTPase
1	NTPCR	ENSG00000135778	ENST00000366628	protein_coding	KNOWN	CCDS1597	28204	573	190	233086370	233114548	1	C1orf57	MGC13186, HCR-NTPase
1	NTPCR	ENSG00000135778	ENST00000496662	processed_transcript	KNOWN	None	28204	None	None	233086379	233114468	1	C1orf57	MGC13186, HCR-NTPase
1	NTPCR	ENSG00000135778	ENST00000366627	protein_coding	KNOWN	None	28204	687	228	233086386	233113274	1	C1orf57	MGC13186, HCR-NTPase
1	NTPCR	ENSG00000135778	ENST00000479125	processed_transcript	KNOWN	None	28204	None	None	233086588	233105864	1	C1orf57	MGC13186, HCR-NTPase
1	NTPCR	ENSG00000135778	ENST00000487953	processed_transcript	KNOWN	None	28204	None	None	233091404	233112205	1	C1orf57	MGC13186, HCR-NTPase
1	NTPCR	ENSG00000135778	ENST00000490098	processed_transcript	KNOWN	None	28204	None	None	233097649	233114397	1	C1orf57	MGC13186, HCR-NTPase
16	CACNA1H	ENSG00000196557	ENST00000348261	protein_coding	KNOWN	CCDS45375	1395	7062	2353	1203241	1271768	1	None	Cav3.2
16	CACNA1H	ENSG00000196557	ENST00000565831	protein_coding	KNOWN	CCDS45376	1395	7044	2347	1203738	1271084	1	None	Cav3.2
16	CACNA1H	ENSG00000196557	ENST00000564954	retained_intron	KNOWN	None	1395	None	None	1245029	1248934	1	None	Cav3.2
16	CACNA1H	ENSG00000196557	ENST00000569953	retained_intron	KNOWN	None	1395	None	None	1259356	1261448	1	None	Cav3.2
16	CACNA1H	ENSG00000196557	ENST00000564231	protein_coding	NOVEL	None	1395	3253	1083	1260067	1271084	1	None	Cav3.2
16	CACNA1H	ENSG00000196557	ENST00000569107	protein_coding	NOVEL	None	1395	3301	1099	1260067	1271084	1	None	Cav3.2
16	CACNA1H	ENSG00000196557	ENST00000562079	protein_coding	NOVEL	None	1395	3235	1077	1260067	1271084	1	None	Cav3.2
16	CACNA1H	ENSG00000196557	ENST00000564927	protein_coding	NOVEL	None	1395	2693	896	1261482	1271765	1	None	Cav3.2
16	CACNA1H	ENSG00000196557	ENST00000358590	protein_coding	KNOWN	CCDS45376	1395	7044	2347	1203241	1271771	1	None	Cav3.2
9	None	ENSG00000258728	ENST00000556278	protein_coding	PUTATIVE	None	None	842	279	34646642	34657110	1	None	None
20	None	ENSG00000230492	ENST00000440798	antisense	KNOWN	None	None	None	None	22990846	23011422	-1	None	None
14	AP1G2	ENSG00000213983	ENST00000308724	protein_coding	KNOWN	CCDS9602	556	2358	785	24028774	24037279	-1	None	G2AD
14	AP1G2	ENSG00000213983	ENST00000554892	retained_intron	KNOWN	None	556	None	None	24028776	24029520	-1	None	G2AD
14	AP1G2	ENSG00000213983	ENST00000554554	retained_intron	KNOWN	None	556	None	None	24028777	24033158	-1	None	G2AD
14	AP1G2	ENSG00000213983	ENST00000397120	protein_coding	KNOWN	CCDS9602	556	2358	785	24028777	24037012	-1	None	G2AD
14	AP1G2	ENSG00000213983	ENST00000535852	retained_intron	KNOWN	None	556	None	None	24028785	24036674	-1	None	G2AD
14	AP1G2	ENSG00000213983	ENST00000460049	retained_intron	KNOWN	None	556	None	None	24028817	24037007	-1	None	G2AD
14	AP1G2	ENSG00000213983	ENST00000465445	retained_intron	KNOWN	None	556	None	None	24028821	24036533	-1	None	G2AD
14	AP1G2	ENSG00000213983	ENST00000557391	retained_intron	KNOWN	None	556	None	None	24028898	24029661	-1	None	G2AD
14	AP1G2	ENSG00000213983	ENST00000554477	protein_coding	PUTATIVE	None	556	592	196	24029197	24031615	-1	None	G2AD
14	AP1G2	ENSG00000213983	ENST00000555510	processed_transcript	KNOWN	None	556	None	None	24030528	24032432	-1	None	G2AD
14	AP1G2	ENSG00000213983	ENST00000556966	retained_intron	KNOWN	None	556	None	None	24030618	24032209	-1	None	G2AD
14	AP1G2	ENSG00000213983	ENST00000554982	retained_intron	KNOWN	None	556	None	None	24031396	24033062	-1	None	G2AD
14	AP1G2	ENSG00000213983	ENST00000555118	processed_transcript	KNOWN	None	556	None	None	24031578	24033000	-1	None	G2AD
14	AP1G2	ENSG00000213983	ENST00000557132	retained_intron	KNOWN	None	556	None	None	24032305	24032952	-1	None	G2AD
14	AP1G2	ENSG00000213983	ENST00000557162	nonsense_mediated_decay	KNOWN	None	556	430	142	24032461	24033840	-1	None	G2AD
14	AP1G2	ENSG00000213983	ENST00000555789	retained_intron	KNOWN	None	556	None	None	24032682	24033294	-1	None	G2AD
14	AP1G2	ENSG00000213983	ENST00000555974	retained_intron	KNOWN	None	556	None	None	24032682	24033300	-1	None	G2AD
14	AP1G2	ENSG00000213983	ENST00000556741	retained_intron	KNOWN	None	556	None	None	24032686	24033304	-1	None	G2AD
14	AP1G2	ENSG00000213983	ENST00000554977	retained_intron	KNOWN	None	556	None	None	24032828	24034008	-1	None	G2AD
14	AP1G2	ENSG00000213983	ENST00000556152	retained_intron	KNOWN	None	556	None	None	24033244	24034027	-1	None	G2AD
14	AP1G2	ENSG00000213983	ENST00000556277	processed_transcript	KNOWN	None	556	None	None	24033825	24037043	-1	None	G2AD
14	AP1G2	ENSG00000213983	ENST00000553629	retained_intron	KNOWN	None	556	None	None	24034189	24036997	-1	None	G2AD
14	AP1G2	ENSG00000213983	ENST00000556743	retained_intron	KNOWN	None	556	None	None	24034192	24036988	-1	None	G2AD
14	AP1G2	ENSG00000213983	ENST00000556943	nonsense_mediated_decay	KNOWN	None	556	207	68	24034330	24036994	-1	None	G2AD
14	AP1G2	ENSG00000213983	ENST00000555896	retained_intron	KNOWN	None	556	None	None	24034744	24036723	-1	None	G2AD
14	AP1G2	ENSG00000213983	ENST00000557619	retained_intron	KNOWN	None	556	None	None	24034762	24036992	-1	None	G2AD
14	AP1G2	ENSG00000213983	ENST00000557482	retained_intron	KNOWN	None	556	None	None	24035021	24036733	-1	None	G2AD
14	AP1G2	ENSG00000213983	ENST00000554312	retained_intron	KNOWN	None	556	None	None	24035033	24035784	-1	None	G2AD
14	AP1G2	ENSG00000213983	ENST00000557189	protein_coding	KNOWN	None	556	601	199	24035069	24037023	-1	None	G2AD
14	AP1G2	ENSG00000213983	ENST00000553756	nonsense_mediated_decay	KNOWN	None	556	207	68	24035081	24036992	-1	None	G2AD
14	AP1G2	ENSG00000213983	ENST00000554069	retained_intron	KNOWN	None	556	None	None	24035140	24036708	-1	None	G2AD
14	AP1G2	ENSG00000213983	ENST00000556843	protein_coding	KNOWN	None	556	410	135	24035548	24036956	-1	None	G2AD
14	AP1G2	ENSG00000213983	ENST00000553685	retained_intron	KNOWN	None	556	None	None	24036018	24036997	-1	None	G2AD
14	AP1G2	ENSG00000213983	ENST00000554816	retained_intron	KNOWN	None	556	None	None	24036326	24036722	-1	None	G2AD
17	FASN	ENSG00000169710	ENST00000306749	protein_coding	KNOWN	CCDS11801	3594	7536	2511	80036214	80056208	-1	None	FAS, SDR27X1
17	FASN	ENSG00000169710	ENST00000584610	retained_intron	KNOWN	None	3594	None	None	80036478	80037805	-1	None	FAS, SDR27X1
17	FASN	ENSG00000169710	ENST00000580382	nonsense_mediated_decay	KNOWN	None	3594	236	77	80037044	80038618	-1	None	FAS, SDR27X1
17	FASN	ENSG00000169710	ENST00000579758	processed_transcript	KNOWN	None	3594	None	None	80037236	80041173	-1	None	FAS, SDR27X1
17	FASN	ENSG00000169710	ENST00000578424	retained_intron	KNOWN	None	3594	None	None	80037407	80039246	-1	None	FAS, SDR27X1
17	FASN	ENSG00000169710	ENST00000579410	retained_intron	KNOWN	None	3594	None	None	80043034	80043536	-1	None	FAS, SDR27X1
17	TBC1D3H	ENSG00000242384	ENST00000340106	nonsense_mediated_decay	KNOWN	None	30708	348	115	34746119	34757007	-1	None	None
17	TBC1D3H	ENSG00000242384	ENST00000394359	protein_coding	NOVEL	None	30708	1584	527	34746125	34756219	-1	None	None
17	TBC1D3H	ENSG00000242384	ENST00000455054	protein_coding	KNOWN	CCDS45653	30708	1650	549	34746125	34757039	-1	None	None
17	TBC1D3H	ENSG00000242384	ENST00000588440	retained_intron	KNOWN	None	30708	None	None	34746766	34752939	-1	None	None
17	TBC1D3H	ENSG00000242384	ENST00000592088	retained_intron	KNOWN	None	30708	None	None	34750490	34753122	-1	None	None
17	TBC1D3H	ENSG00000242384	ENST00000589865	processed_transcript	PUTATIVE	None	30708	None	None	34756062	34757030	-1	None	None
17	TBC1D3H	ENSG00000242384	ENST00000535446	protein_coding	KNOWN	None	30708	1410	469	34581086	34806015	-1	None	None
17	TBC1D3H	ENSG00000242384	ENST00000400684	protein_coding	KNOWN	None	30708	1410	469	34581133	34808061	-1	None	None
7	AUTS2	ENSG00000158321	ENST00000406775	protein_coding	KNOWN	CCDS47601	14262	3708	1235	69063905	70257489	1	None	KIAA0442, FBRSL2
7	AUTS2	ENSG00000158321	ENST00000342771	protein_coding	KNOWN	CCDS5539	14262	3780	1259	69064319	70258054	1	None	KIAA0442, FBRSL2
7	AUTS2	ENSG00000158321	ENST00000403018	protein_coding	KNOWN	CCDS47602	14262	801	266	69064597	69755607	1	None	KIAA0442, FBRSL2
7	AUTS2	ENSG00000158321	ENST00000476695	processed_transcript	KNOWN	None	14262	None	None	69289612	69599557	1	None	KIAA0442, FBRSL2
7	AUTS2	ENSG00000158321	ENST00000475660	processed_transcript	KNOWN	None	14262	None	None	69781902	69901163	1	None	KIAA0442, FBRSL2
7	AUTS2	ENSG00000158321	ENST00000489774	processed_transcript	KNOWN	None	14262	None	None	70159859	70164476	1	None	KIAA0442, FBRSL2
7	AUTS2	ENSG00000158321	ENST00000416482	protein_coding	PUTATIVE	None	14262	595	197	70194125	70229780	1	None	KIAA0442, FBRSL2
7	AUTS2	ENSG00000158321	ENST00000443672	protein_coding	NOVEL	None	14262	542	179	70229899	70242118	1	None	KIAA0442, FBRSL2
7	AUTS2	ENSG00000158321	ENST00000481994	retained_intron	KNOWN	None	14262	None	None	70229917	70239362	1	None	KIAA0442, FBRSL2
7	AUTS2	ENSG00000158321	ENST00000483297	processed_transcript	KNOWN	None	14262	None	None	70233010	70236501	1	None	KIAA0442, FBRSL2
7	AUTS2	ENSG00000158321	ENST00000498384	retained_intron	KNOWN	None	14262	None	None	70236433	70250999	1	None	KIAA0442, FBRSL2
7	AUTS2	ENSG00000158321	ENST00000464768	retained_intron	KNOWN	None	14262	None	None	70239775	70246684	1	None	KIAA0442, FBRSL2
7	AUTS2	ENSG00000158321	ENST00000439256	nonsense_mediated_decay	KNOWN	None	14262	188	61	70240343	70251024	1	None	KIAA0442, FBRSL2
7	AUTS2	ENSG00000158321	ENST00000465899	retained_intron	KNOWN	None	14262	None	None	70241660	70246645	1	None	KIAA0442, FBRSL2
7	AUTS2	ENSG00000158321	ENST00000449547	nonsense_mediated_decay	KNOWN	None	14262	302	99	70246629	70254970	1	None	KIAA0442, FBRSL2
7	AUTS2	ENSG00000158321	ENST00000418686	protein_coding	NOVEL	None	14262	550	182	70250395	70254912	1	None	KIAA0442, FBRSL2
8	PCMTD1	ENSG00000168300	ENST00000360540	protein_coding	KNOWN	CCDS6148	30483	1074	357	52730140	52811658	-1	None	FLJ10883
8	PCMTD1	ENSG00000168300	ENST00000519559	processed_transcript	KNOWN	None	30483	None	None	52732707	52811530	-1	None	FLJ10883
8	PCMTD1	ENSG00000168300	ENST00000522514	protein_coding	KNOWN	CCDS6148	30483	1074	357	52732900	52811596	-1	None	FLJ10883
8	PCMTD1	ENSG00000168300	ENST00000519554	protein_coding	PUTATIVE	None	30483	392	129	52739489	52758305	-1	None	FLJ10883
8	PCMTD1	ENSG00000168300	ENST00000519975	retained_intron	KNOWN	None	30483	None	None	52757369	52773444	-1	None	FLJ10883
8	PCMTD1	ENSG00000168300	ENST00000521344	protein_coding	PUTATIVE	None	30483	318	105	52761505	52811673	-1	None	FLJ10883
8	PCMTD1	ENSG00000168300	ENST00000521046	retained_intron	KNOWN	None	30483	None	None	52773046	52811584	-1	None	FLJ10883
8	PCMTD1	ENSG00000168300	ENST00000544451	protein_coding	KNOWN	None	30483	846	281	52730140	52811735	-1	None	FLJ10883
20	None	ENSG00000234646	ENST00000440921	processed_transcript	PUTATIVE	None	None	None	None	23012179	23019873	1	None	None
20	None	ENSG00000234646	ENST00000419734	processed_transcript	PUTATIVE	None	None	None	None	23018860	23019873	1	None	None
4	C4orf50	ENSG00000181215	ENST00000531445	protein_coding	KNOWN	None	33766	2253	750	5958845	5991545	-1	None	FLJ46481
4	C4orf50	ENSG00000181215	ENST00000324058	protein_coding	KNOWN	None	33766	831	276	5958845	5990166	-1	None	FLJ46481
19	ZNF567	ENSG00000189042	ENST00000590392	retained_intron	KNOWN	None	28696	None	None	37178514	37203634	1	None	MGC45586
19	ZNF567	ENSG00000189042	ENST00000536254	protein_coding	KNOWN	None	28696	1944	647	37178530	37212229	1	None	MGC45586
19	ZNF567	ENSG00000189042	ENST00000360729	protein_coding	KNOWN	CCDS12495	28696	1851	616	37180302	37212228	1	None	MGC45586
19	ZNF567	ENSG00000189042	ENST00000588311	protein_coding	PUTATIVE	None	28696	1779	592	37194583	37214248	1	None	MGC45586
19	ZNF567	ENSG00000189042	ENST00000585696	protein_coding	KNOWN	CCDS12495	28696	1851	616	37202142	37212223	1	None	MGC45586
19	ZNF567	ENSG00000189042	ENST00000589264	protein_coding	PUTATIVE	None	28696	195	64	37203342	37214249	1	None	MGC45586
19	ZNF567	ENSG00000189042	ENST00000591308	nonsense_mediated_decay	KNOWN	None	28696	153	50	37203384	37218603	1	None	MGC45586
19	ZNF567	ENSG00000189042	ENST00000392163	protein_coding	KNOWN	None	28696	1779	592	37203269	37214248	1	None	MGC45586
1	DAP3	ENSG00000132676	ENST00000461479	processed_transcript	KNOWN	None	2673	None	None	155657751	155659128	1	None	MRPS29, DAP-3, MRP-S29, bMRP-10, MGC126058, MGC126059, DKFZp686G12159
1	DAP3	ENSG00000132676	ENST00000471642	processed_transcript	KNOWN	None	2673	None	None	155657758	155691358	1	None	MRPS29, DAP-3, MRP-S29, bMRP-10, MGC126058, MGC126059, DKFZp686G12159
1	DAP3	ENSG00000132676	ENST00000471214	processed_transcript	KNOWN	None	2673	None	None	155657776	155701202	1	None	MRPS29, DAP-3, MRP-S29, bMRP-10, MGC126058, MGC126059, DKFZp686G12159
1	DAP3	ENSG00000132676	ENST00000479076	processed_transcript	KNOWN	None	2673	None	None	155657782	155659418	1	None	MRPS29, DAP-3, MRP-S29, bMRP-10, MGC126058, MGC126059, DKFZp686G12159
1	DAP3	ENSG00000132676	ENST00000368336	protein_coding	KNOWN	CCDS1120	2673	1197	398	155658849	155708801	1	None	MRPS29, DAP-3, MRP-S29, bMRP-10, MGC126058, MGC126059, DKFZp686G12159
1	DAP3	ENSG00000132676	ENST00000343043	protein_coding	KNOWN	CCDS1120	2673	1197	398	155658874	155708317	1	None	MRPS29, DAP-3, MRP-S29, bMRP-10, MGC126058, MGC126059, DKFZp686G12159
1	DAP3	ENSG00000132676	ENST00000496863	processed_transcript	KNOWN	None	2673	None	None	155658882	155696829	1	None	MRPS29, DAP-3, MRP-S29, bMRP-10, MGC126058, MGC126059, DKFZp686G12159
1	DAP3	ENSG00000132676	ENST00000465375	processed_transcript	KNOWN	None	2673	None	None	155658885	155691780	1	None	MRPS29, DAP-3, MRP-S29, bMRP-10, MGC126058, MGC126059, DKFZp686G12159
1	DAP3	ENSG00000132676	ENST00000462002	processed_transcript	KNOWN	None	2673	None	None	155658890	155696085	1	None	MRPS29, DAP-3, MRP-S29, bMRP-10, MGC126058, MGC126059, DKFZp686G12159
1	DAP3	ENSG00000132676	ENST00000470830	processed_transcript	KNOWN	None	2673	None	None	155658893	155698855	1	None	MRPS29, DAP-3, MRP-S29, bMRP-10, MGC126058, MGC126059, DKFZp686G12159
1	DAP3	ENSG00000132676	ENST00000463575	processed_transcript	KNOWN	None	2673	None	None	155679564	155699082	1	None	MRPS29, DAP-3, MRP-S29, bMRP-10, MGC126058, MGC126059, DKFZp686G12159
1	DAP3	ENSG00000132676	ENST00000497826	processed_transcript	KNOWN	None	2673	None	None	155679564	155701805	1	None	MRPS29, DAP-3, MRP-S29, bMRP-10, MGC126058, MGC126059, DKFZp686G12159
1	DAP3	ENSG00000132676	ENST00000471523	processed_transcript	KNOWN	None	2673	None	None	155679568	155695911	1	None	MRPS29, DAP-3, MRP-S29, bMRP-10, MGC126058, MGC126059, DKFZp686G12159
1	DAP3	ENSG00000132676	ENST00000479151	processed_transcript	KNOWN	None	2673	None	None	155691327	155701824	1	None	MRPS29, DAP-3, MRP-S29, bMRP-10, MGC126058, MGC126059, DKFZp686G12159
1	DAP3	ENSG00000132676	ENST00000466384	processed_transcript	KNOWN	None	2673	None	None	155697292	155699052	1	None	MRPS29, DAP-3, MRP-S29, bMRP-10, MGC126058, MGC126059, DKFZp686G12159
1	DAP3	ENSG00000132676	ENST00000462978	processed_transcript	KNOWN	None	2673	None	None	155697399	155701992	1	None	MRPS29, DAP-3, MRP-S29, bMRP-10, MGC126058, MGC126059, DKFZp686G12159
1	DAP3	ENSG00000132676	ENST00000477394	processed_transcript	KNOWN	None	2673	None	None	155698882	155708217	1	None	MRPS29, DAP-3, MRP-S29, bMRP-10, MGC126058, MGC126059, DKFZp686G12159
1	DAP3	ENSG00000132676	ENST00000475056	processed_transcript	KNOWN	None	2673	None	None	155698999	155708320	1	None	MRPS29, DAP-3, MRP-S29, bMRP-10, MGC126058, MGC126059, DKFZp686G12159
1	DAP3	ENSG00000132676	ENST00000490249	processed_transcript	KNOWN	None	2673	None	None	155698999	155708320	1	None	MRPS29, DAP-3, MRP-S29, bMRP-10, MGC126058, MGC126059, DKFZp686G12159
1	DAP3	ENSG00000132676	ENST00000497433	processed_transcript	KNOWN	None	2673	None	None	155699088	155701321	1	None	MRPS29, DAP-3, MRP-S29, bMRP-10, MGC126058, MGC126059, DKFZp686G12159
1	DAP3	ENSG00000132676	ENST00000463295	processed_transcript	KNOWN	None	2673	None	None	155699132	155708320	1	None	MRPS29, DAP-3, MRP-S29, bMRP-10, MGC126058, MGC126059, DKFZp686G12159
1	DAP3	ENSG00000132676	ENST00000476444	processed_transcript	KNOWN	None	2673	None	None	155706549	155708320	1	None	MRPS29, DAP-3, MRP-S29, bMRP-10, MGC126058, MGC126059, DKFZp686G12159
1	DAP3	ENSG00000132676	ENST00000491777	processed_transcript	KNOWN	None	2673	None	None	155706737	155708803	1	None	MRPS29, DAP-3, MRP-S29, bMRP-10, MGC126058, MGC126059, DKFZp686G12159
1	DAP3	ENSG00000132676	ENST00000421487	protein_coding	KNOWN	CCDS55646	2673	1095	364	155658882	155708317	1	None	MRPS29, DAP-3, MRP-S29, bMRP-10, MGC126058, MGC126059, DKFZp686G12159
1	DAP3	ENSG00000132676	ENST00000535183	protein_coding	KNOWN	CCDS55647	2673	1074	357	155658882	155708317	1	None	MRPS29, DAP-3, MRP-S29, bMRP-10, MGC126058, MGC126059, DKFZp686G12159
20	None	ENSG00000256492	ENST00000539654	pseudogene	NOVEL	None	None	None	None	23061083	23061278	-1	None	None
1	PCNXL2	ENSG00000135749	ENST00000496675	processed_transcript	KNOWN	None	8736	None	None	233119881	233121630	-1	None	KIAA0435, FLJ11383
1	PCNXL2	ENSG00000135749	ENST00000344698	protein_coding	KNOWN	None	8736	2334	777	233119882	233194264	-1	None	KIAA0435, FLJ11383
1	PCNXL2	ENSG00000135749	ENST00000462233	nonsense_mediated_decay	KNOWN	None	8736	1471	489	233119882	233335937	-1	None	KIAA0435, FLJ11383
1	PCNXL2	ENSG00000135749	ENST00000258229	protein_coding	KNOWN	CCDS44335	8736	6414	2137	233119882	233431459	-1	None	KIAA0435, FLJ11383
1	PCNXL2	ENSG00000135749	ENST00000462762	processed_transcript	KNOWN	None	8736	None	None	233119883	233121298	-1	None	KIAA0435, FLJ11383
1	PCNXL2	ENSG00000135749	ENST00000497623	retained_intron	KNOWN	None	8736	None	None	233134069	233135373	-1	None	KIAA0435, FLJ11383
1	PCNXL2	ENSG00000135749	ENST00000522067	retained_intron	KNOWN	None	8736	None	None	233152819	233161378	-1	None	KIAA0435, FLJ11383
1	PCNXL2	ENSG00000135749	ENST00000429988	retained_intron	KNOWN	None	8736	None	None	233161009	233190435	-1	None	KIAA0435, FLJ11383
1	PCNXL2	ENSG00000135749	ENST00000475463	nonsense_mediated_decay	KNOWN	None	8736	655	217	233201207	233393898	-1	None	KIAA0435, FLJ11383
1	PCNXL2	ENSG00000135749	ENST00000484041	retained_intron	KNOWN	None	8736	None	None	233225597	233270934	-1	None	KIAA0435, FLJ11383
1	PCNXL2	ENSG00000135749	ENST00000490102	nonsense_mediated_decay	KNOWN	None	8736	328	108	233225908	233275582	-1	None	KIAA0435, FLJ11383
1	PCNXL2	ENSG00000135749	ENST00000484347	protein_coding	PUTATIVE	None	8736	537	178	233231152	233296053	-1	None	KIAA0435, FLJ11383
1	PCNXL2	ENSG00000135749	ENST00000486012	nonsense_mediated_decay	KNOWN	None	8736	142	46	233231403	233313581	-1	None	KIAA0435, FLJ11383
1	PCNXL2	ENSG00000135749	ENST00000520463	processed_transcript	KNOWN	None	8736	None	None	233261650	233296171	-1	None	KIAA0435, FLJ11383
1	PCNXL2	ENSG00000135749	ENST00000488780	protein_coding	PUTATIVE	None	8736	1275	424	233270530	233353833	-1	None	KIAA0435, FLJ11383
1	PCNXL2	ENSG00000135749	ENST00000467336	processed_transcript	KNOWN	None	8736	None	None	233275555	233316742	-1	None	KIAA0435, FLJ11383
1	PCNXL2	ENSG00000135749	ENST00000496510	processed_transcript	KNOWN	None	8736	None	None	233275572	233316848	-1	None	KIAA0435, FLJ11383
1	PCNXL2	ENSG00000135749	ENST00000498302	retained_intron	KNOWN	None	8736	None	None	233295993	233314920	-1	None	KIAA0435, FLJ11383
1	PCNXL2	ENSG00000135749	ENST00000518351	protein_coding	NOVEL	None	8736	545	180	233334713	233363015	-1	None	KIAA0435, FLJ11383
1	PCNXL2	ENSG00000135749	ENST00000517808	nonsense_mediated_decay	KNOWN	None	8736	137	44	233334766	233353835	-1	None	KIAA0435, FLJ11383
1	PCNXL2	ENSG00000135749	ENST00000324142	retained_intron	KNOWN	None	8736	None	None	233337238	233388433	-1	None	KIAA0435, FLJ11383
1	PCNXL2	ENSG00000135749	ENST00000519530	retained_intron	KNOWN	None	8736	None	None	233344405	233363093	-1	None	KIAA0435, FLJ11383
1	PCNXL2	ENSG00000135749	ENST00000430153	protein_coding	KNOWN	None	8736	861	286	233337896	233431459	-1	None	KIAA0435, FLJ11383
11	TIMM10	ENSG00000134809	ENST00000257245	protein_coding	KNOWN	CCDS7959	11814	273	90	57295936	57298238	-1	None	TIM10, TIM10A
11	TIMM10	ENSG00000134809	ENST00000525587	protein_coding	KNOWN	CCDS7959	11814	273	90	57296099	57298276	-1	None	TIM10, TIM10A
11	TIMM10	ENSG00000134809	ENST00000525158	protein_coding	KNOWN	CCDS7959	11814	273	90	57296114	57298207	-1	None	TIM10, TIM10A
14	L2HGDH	ENSG00000087299	ENST00000261699	protein_coding	KNOWN	None	20499	1326	441	50704281	50778886	-1	C14orf160	FLJ12618
14	L2HGDH	ENSG00000087299	ENST00000267436	protein_coding	KNOWN	CCDS9698	20499	1392	463	50712120	50779266	-1	C14orf160	FLJ12618
14	L2HGDH	ENSG00000087299	ENST00000421284	protein_coding	KNOWN	CCDS9698	20499	1392	463	50712369	50778947	-1	C14orf160	FLJ12618
14	L2HGDH	ENSG00000087299	ENST00000555423	protein_coding	NOVEL	None	20499	711	236	50749161	50778944	-1	C14orf160	FLJ12618
14	L2HGDH	ENSG00000087299	ENST00000555610	protein_coding	PUTATIVE	None	20499	636	211	50750571	50778872	-1	C14orf160	FLJ12618
14	L2HGDH	ENSG00000087299	ENST00000554191	nonsense_mediated_decay	KNOWN	None	20499	201	66	50760916	50778944	-1	C14orf160	FLJ12618
14	L2HGDH	ENSG00000087299	ENST00000556393	processed_transcript	KNOWN	None	20499	None	None	50768735	50778865	-1	C14orf160	FLJ12618
5	GRM6	ENSG00000113262	ENST00000517717	protein_coding	KNOWN	CCDS4442	4598	2634	877	178408658	178422299	-1	None	GPRC1F, mGlu6, MGLUR6
5	GRM6	ENSG00000113262	ENST00000519003	retained_intron	KNOWN	None	4598	None	None	178409808	178413253	-1	None	GPRC1F, mGlu6, MGLUR6
5	GRM6	ENSG00000113262	ENST00000518082	retained_intron	KNOWN	None	4598	None	None	178413444	178415973	-1	None	GPRC1F, mGlu6, MGLUR6
5	GRM6	ENSG00000113262	ENST00000519175	processed_transcript	PUTATIVE	None	4598	None	None	178422279	178423207	-1	None	GPRC1F, mGlu6, MGLUR6
5	GRM6	ENSG00000113262	ENST00000231188	protein_coding	KNOWN	CCDS4442	4598	2634	877	178405328	178422124	-1	None	GPRC1F, mGlu6, MGLUR6
20	LINC00656	ENSG00000233746	ENST00000443744	processed_transcript	KNOWN	None	27304	None	None	23105705	23113258	-1	None	None
19	AKT1S1	ENSG00000204673	ENST00000391833	protein_coding	KNOWN	CCDS12784	28426	771	256	50372295	50378542	-1	None	PRAS40, MGC2865, Lobe
19	AKT1S1	ENSG00000204673	ENST00000391832	protein_coding	KNOWN	CCDS12784	28426	771	256	50372296	50380536	-1	None	PRAS40, MGC2865, Lobe
19	AKT1S1	ENSG00000204673	ENST00000344175	protein_coding	KNOWN	CCDS12784	28426	771	256	50372296	50380597	-1	None	PRAS40, MGC2865, Lobe
19	AKT1S1	ENSG00000204673	ENST00000391831	protein_coding	KNOWN	CCDS12784	28426	771	256	50372303	50379506	-1	None	PRAS40, MGC2865, Lobe
19	AKT1S1	ENSG00000204673	ENST00000391835	protein_coding	PUTATIVE	CCDS59410	28426	831	276	50372303	50381285	-1	None	PRAS40, MGC2865, Lobe
19	AKT1S1	ENSG00000204673	ENST00000391830	protein_coding	KNOWN	None	28426	326	107	50376227	50381716	-1	None	PRAS40, MGC2865, Lobe
19	AKT1S1	ENSG00000204673	ENST00000599525	protein_coding	KNOWN	None	28426	100	32	50376453	50377057	-1	None	PRAS40, MGC2865, Lobe
19	AKT1S1	ENSG00000204673	ENST00000482622	processed_transcript	KNOWN	None	28426	None	None	50379915	50381613	-1	None	PRAS40, MGC2865, Lobe
19	AKT1S1	ENSG00000204673	ENST00000391834	protein_coding	KNOWN	CCDS12784	28426	771	256	50372301	50380578	-1	None	PRAS40, MGC2865, Lobe
4	ACSL1	ENSG00000151726	ENST00000454703	protein_coding	PUTATIVE	None	3569	1584	527	185676749	185747273	-1	FACL2	LACS2, LACS, ACS1, LACS1, FACL1
4	ACSL1	ENSG00000151726	ENST00000513001	retained_intron	KNOWN	None	3569	None	None	185676754	185680030	-1	FACL2	LACS2, LACS, ACS1, LACS1, FACL1
4	ACSL1	ENSG00000151726	ENST00000515030	protein_coding	KNOWN	CCDS3839	3569	2097	698	185676754	185747972	-1	FACL2	LACS2, LACS, ACS1, LACS1, FACL1
4	ACSL1	ENSG00000151726	ENST00000503407	protein_coding	PUTATIVE	None	3569	885	294	185676755	185687856	-1	FACL2	LACS2, LACS, ACS1, LACS1, FACL1
4	ACSL1	ENSG00000151726	ENST00000281455	protein_coding	KNOWN	CCDS3839	3569	2097	698	185676755	185747248	-1	FACL2	LACS2, LACS, ACS1, LACS1, FACL1
4	ACSL1	ENSG00000151726	ENST00000507295	protein_coding	NOVEL	None	3569	1995	664	185677935	185747188	-1	FACL2	LACS2, LACS, ACS1, LACS1, FACL1
4	ACSL1	ENSG00000151726	ENST00000506733	nonsense_mediated_decay	KNOWN	None	3569	381	126	185678057	185729605	-1	FACL2	LACS2, LACS, ACS1, LACS1, FACL1
4	ACSL1	ENSG00000151726	ENST00000504342	protein_coding	KNOWN	CCDS3839	3569	2097	698	185678175	185733413	-1	FACL2	LACS2, LACS, ACS1, LACS1, FACL1
4	ACSL1	ENSG00000151726	ENST00000513317	protein_coding	NOVEL	None	3569	2097	698	185678201	185726942	-1	FACL2	LACS2, LACS, ACS1, LACS1, FACL1
4	ACSL1	ENSG00000151726	ENST00000504900	protein_coding	PUTATIVE	None	3569	1167	388	185689184	185747206	-1	FACL2	LACS2, LACS, ACS1, LACS1, FACL1
4	ACSL1	ENSG00000151726	ENST00000505492	protein_coding	PUTATIVE	None	3569	280	92	185689482	185695027	-1	FACL2	LACS2, LACS, ACS1, LACS1, FACL1
4	ACSL1	ENSG00000151726	ENST00000437665	protein_coding	KNOWN	None	3569	1584	527	185678057	185729605	-1	FACL2	LACS2, LACS, ACS1, LACS1, FACL1
2	CASP10	ENSG00000003400	ENST00000286186	protein_coding	KNOWN	CCDS2340	1500	1569	522	202047604	202086388	1	None	MCH4
2	CASP10	ENSG00000003400	ENST00000460140	retained_intron	KNOWN	None	1500	None	None	202047835	202070973	1	None	MCH4
2	CASP10	ENSG00000003400	ENST00000272879	protein_coding	KNOWN	CCDS2338	1500	1566	521	202047855	202094129	1	None	MCH4
2	CASP10	ENSG00000003400	ENST00000438843	nonsense_mediated_decay	KNOWN	None	1500	357	118	202047864	202072883	1	None	MCH4
2	CASP10	ENSG00000003400	ENST00000374650	protein_coding	NOVEL	None	1500	744	247	202047883	202065451	1	None	MCH4
2	CASP10	ENSG00000003400	ENST00000346817	protein_coding	KNOWN	CCDS2339	1500	1440	479	202047892	202084803	1	None	MCH4
2	CASP10	ENSG00000003400	ENST00000313728	protein_coding	NOVEL	CCDS56159	1500	1368	455	202047915	202082493	1	None	MCH4
2	CASP10	ENSG00000003400	ENST00000448480	protein_coding	NOVEL	CCDS56160	1500	1437	478	202047918	202093851	1	None	MCH4
2	CASP10	ENSG00000003400	ENST00000484926	retained_intron	KNOWN	None	1500	None	None	202047939	202051103	1	None	MCH4
2	CASP10	ENSG00000003400	ENST00000492363	processed_transcript	KNOWN	None	1500	None	None	202050501	202082464	1	None	MCH4
2	CASP10	ENSG00000003400	ENST00000471191	retained_intron	KNOWN	None	1500	None	None	202052403	202060738	1	None	MCH4
2	CASP10	ENSG00000003400	ENST00000485408	retained_intron	KNOWN	None	1500	None	None	202052469	202058126	1	None	MCH4
2	CASP10	ENSG00000003400	ENST00000360132	protein_coding	KNOWN	None	1500	822	273	202047621	202086383	1	None	MCH4
1	INADL	ENSG00000132849	ENST00000316485	protein_coding	NOVEL	None	28881	4749	1582	62208149	62579922	1	None	Cipp, PATJ
1	INADL	ENSG00000132849	ENST00000459752	retained_intron	KNOWN	None	28881	None	None	62208149	62580582	1	None	Cipp, PATJ
1	INADL	ENSG00000132849	ENST00000484562	retained_intron	KNOWN	None	28881	None	None	62208149	62580597	1	None	Cipp, PATJ
1	INADL	ENSG00000132849	ENST00000371158	protein_coding	KNOWN	CCDS617	28881	5406	1801	62208149	62629592	1	None	Cipp, PATJ
1	INADL	ENSG00000132849	ENST00000484937	nonsense_mediated_decay	KNOWN	None	28881	3405	1134	62271182	62629176	1	None	Cipp, PATJ
1	INADL	ENSG00000132849	ENST00000488913	processed_transcript	KNOWN	None	28881	None	None	62330063	62341203	1	None	Cipp, PATJ
1	INADL	ENSG00000132849	ENST00000493967	processed_transcript	KNOWN	None	28881	None	None	62330103	62331283	1	None	Cipp, PATJ
1	INADL	ENSG00000132849	ENST00000494842	processed_transcript	KNOWN	None	28881	None	None	62374044	62457451	1	None	Cipp, PATJ
1	INADL	ENSG00000132849	ENST00000490547	processed_transcript	KNOWN	None	28881	None	None	62393400	62456108	1	None	Cipp, PATJ
1	INADL	ENSG00000132849	ENST00000307297	protein_coding	KNOWN	None	28881	597	198	62417980	62545241	1	None	Cipp, PATJ
1	INADL	ENSG00000132849	ENST00000465798	processed_transcript	KNOWN	None	28881	None	None	62579762	62583190	1	None	Cipp, PATJ
1	INADL	ENSG00000132849	ENST00000472512	processed_transcript	KNOWN	None	28881	None	None	62586545	62594129	1	None	Cipp, PATJ
1	INADL	ENSG00000132849	ENST00000543708	protein_coding	KNOWN	None	28881	1359	452	62417984	62583006	1	None	Cipp, PATJ
1	INADL	ENSG00000132849	ENST00000545929	protein_coding	KNOWN	None	28881	594	197	62439040	62579995	1	None	Cipp, PATJ
3	KLF15	ENSG00000163884	ENST00000296233	protein_coding	KNOWN	CCDS3036	14536	1251	416	126061478	126076285	-1	None	KKLF
3	KLF15	ENSG00000163884	ENST00000509675	processed_transcript	PUTATIVE	None	14536	None	None	126071518	126073128	-1	None	KKLF
20	RNA5SP478	ENSG00000201527	ENST00000364657	rRNA	KNOWN	None	43378	None	None	23141494	23141608	-1	RN5S478	None
2	None	ENSG00000267958	ENST00000597714	protein_coding	NOVEL	None	None	111	36	74418517	74418627	1	None	None
20	None	ENSG00000230387	ENST00000411595	lincRNA	KNOWN	None	None	None	None	23168765	23170944	1	None	None
14	ZNF839	ENSG00000022976	ENST00000558850	protein_coding	KNOWN	CCDS58336	20345	2436	811	102783714	102808701	1	C14orf131	None
14	ZNF839	ENSG00000022976	ENST00000559185	protein_coding	KNOWN	CCDS58336	20345	2436	811	102785635	102808704	1	C14orf131	None
14	ZNF839	ENSG00000022976	ENST00000442396	protein_coding	KNOWN	CCDS45164	20345	2784	927	102786088	102808704	1	C14orf131	None
14	ZNF839	ENSG00000022976	ENST00000559098	nonsense_mediated_decay	KNOWN	None	20345	1482	493	102786295	102808704	1	C14orf131	None
14	ZNF839	ENSG00000022976	ENST00000561251	protein_coding	NOVEL	None	20345	1428	475	102793165	102809039	1	C14orf131	None
14	ZNF839	ENSG00000022976	ENST00000560568	protein_coding	PUTATIVE	None	20345	171	56	102797859	102805167	1	C14orf131	None
14	ZNF839	ENSG00000022976	ENST00000559155	protein_coding	PUTATIVE	None	20345	1582	526	102797976	102808704	1	C14orf131	None
14	ZNF839	ENSG00000022976	ENST00000558490	protein_coding	PUTATIVE	None	20345	743	246	102798029	102808704	1	C14orf131	None
14	ZNF839	ENSG00000022976	ENST00000558462	protein_coding	PUTATIVE	None	20345	571	189	102798051	102808701	1	C14orf131	None
14	ZNF839	ENSG00000022976	ENST00000557803	retained_intron	KNOWN	None	20345	None	None	102801270	102808704	1	C14orf131	None
14	ZNF839	ENSG00000022976	ENST00000560112	protein_coding	PUTATIVE	None	20345	433	143	102802025	102808313	1	C14orf131	None
14	ZNF839	ENSG00000022976	ENST00000420933	processed_transcript	KNOWN	None	20345	None	None	102803254	102808704	1	C14orf131	None
14	ZNF839	ENSG00000022976	ENST00000262236	protein_coding	KNOWN	None	20345	2442	813	102786096	102809044	1	C14orf131	None
3	SFMBT1	ENSG00000163935	ENST00000394752	protein_coding	KNOWN	CCDS2867	20255	2601	866	52937588	53080084	-1	None	RU1, DKFZp434L243, SFMBT
3	SFMBT1	ENSG00000163935	ENST00000492146	retained_intron	KNOWN	None	20255	None	None	52955719	52962511	-1	None	RU1, DKFZp434L243, SFMBT
3	SFMBT1	ENSG00000163935	ENST00000482396	protein_coding	KNOWN	None	20255	364	120	52977369	53080068	-1	None	RU1, DKFZp434L243, SFMBT
3	SFMBT1	ENSG00000163935	ENST00000483069	protein_coding	KNOWN	None	20255	283	93	52977450	53080679	-1	None	RU1, DKFZp434L243, SFMBT
3	SFMBT1	ENSG00000163935	ENST00000497586	protein_coding	KNOWN	None	20255	151	49	52977582	53080657	-1	None	RU1, DKFZp434L243, SFMBT
3	SFMBT1	ENSG00000163935	ENST00000470575	processed_transcript	KNOWN	None	20255	None	None	52988331	53079285	-1	None	RU1, DKFZp434L243, SFMBT
3	SFMBT1	ENSG00000163935	ENST00000474837	processed_transcript	KNOWN	None	20255	None	None	53003249	53080766	-1	None	RU1, DKFZp434L243, SFMBT
3	SFMBT1	ENSG00000163935	ENST00000485494	processed_transcript	KNOWN	None	20255	None	None	53077152	53080073	-1	None	RU1, DKFZp434L243, SFMBT
3	SFMBT1	ENSG00000163935	ENST00000358080	protein_coding	KNOWN	CCDS2867	20255	2601	866	52938628	53080070	-1	None	RU1, DKFZp434L243, SFMBT
3	SFMBT1	ENSG00000163935	ENST00000296295	protein_coding	KNOWN	None	20255	2472	823	52938628	53080070	-1	None	RU1, DKFZp434L243, SFMBT
3	SFMBT1	ENSG00000163935	ENST00000394750	protein_coding	KNOWN	CCDS2867	20255	2601	866	52938628	53079281	-1	None	RU1, DKFZp434L243, SFMBT
1	None	ENSG00000143674	ENST00000366623	protein_coding	KNOWN	None	None	1713	570	233463514	233509880	1	None	None
1	None	ENSG00000143674	ENST00000366624	protein_coding	KNOWN	CCDS1598	None	3111	1036	233463514	233520894	1	None	None
1	None	ENSG00000143674	ENST00000366622	protein_coding	KNOWN	None	None	1449	482	233511529	233520893	1	None	None
6	None	ENSG00000263020	ENST00000375880	protein_coding	PUTATIVE	None	None	687	228	31633879	31641323	1	None	None
6	None	ENSG00000263020	ENST00000409691	protein_coding	PUTATIVE	None	None	639	212	31636895	31641323	1	None	None
20	None	ENSG00000234832	ENST00000442884	antisense	KNOWN	None	None	None	None	23327578	23332123	-1	None	None
16	FUK	ENSG00000157353	ENST00000288078	protein_coding	KNOWN	CCDS10891	29500	3255	1084	70488324	70514177	1	None	FLJ39408
16	FUK	ENSG00000157353	ENST00000572784	protein_coding	KNOWN	None	29500	360	119	70488498	70500109	1	None	FLJ39408
16	FUK	ENSG00000157353	ENST00000576107	retained_intron	KNOWN	None	29500	None	None	70488498	70500447	1	None	FLJ39408
16	FUK	ENSG00000157353	ENST00000574784	protein_coding	KNOWN	None	29500	469	155	70488498	70500842	1	None	FLJ39408
16	FUK	ENSG00000157353	ENST00000571487	retained_intron	KNOWN	None	29500	None	None	70488498	70502877	1	None	FLJ39408
16	FUK	ENSG00000157353	ENST00000571514	protein_coding	PUTATIVE	None	29500	1728	575	70488498	70514176	1	None	FLJ39408
16	FUK	ENSG00000157353	ENST00000378912	protein_coding	KNOWN	None	29500	3273	1090	70488498	70514177	1	None	FLJ39408
16	FUK	ENSG00000157353	ENST00000464499	retained_intron	KNOWN	None	29500	None	None	70488498	70514177	1	None	FLJ39408
16	FUK	ENSG00000157353	ENST00000573352	protein_coding	KNOWN	None	29500	328	108	70488630	70500077	1	None	FLJ39408
16	FUK	ENSG00000157353	ENST00000576453	protein_coding	KNOWN	None	29500	438	145	70488630	70500811	1	None	FLJ39408
16	FUK	ENSG00000157353	ENST00000498702	nonsense_mediated_decay	KNOWN	None	29500	612	203	70508528	70513584	1	None	FLJ39408
16	FUK	ENSG00000157353	ENST00000573832	retained_intron	KNOWN	None	29500	None	None	70508692	70509756	1	None	FLJ39408
16	FUK	ENSG00000157353	ENST00000485034	retained_intron	KNOWN	None	29500	None	None	70511261	70514177	1	None	FLJ39408
16	FUK	ENSG00000157353	ENST00000428974	protein_coding	KNOWN	None	29500	543	180	70488498	70501242	1	None	FLJ39408
6	LY6G5B	ENSG00000240053	ENST00000375864	protein_coding	KNOWN	CCDS34400	13931	606	201	31637944	31641323	1	C6orf19	G5b
6	LY6G5B	ENSG00000240053	ENST00000409525	protein_coding	KNOWN	None	13931	441	146	31638156	31640239	1	C6orf19	G5b
6	LY6G5B	ENSG00000240053	ENST00000471088	processed_transcript	KNOWN	None	13931	None	None	31640158	31641553	1	C6orf19	G5b
2	MTHFD2	ENSG00000065911	ENST00000394053	protein_coding	KNOWN	CCDS1935	7434	1053	350	74425689	74444692	1	None	None
2	MTHFD2	ENSG00000065911	ENST00000409804	protein_coding	NOVEL	None	7434	669	222	74425737	74442425	1	None	None
2	MTHFD2	ENSG00000065911	ENST00000470592	nonsense_mediated_decay	KNOWN	None	7434	114	37	74425740	74441868	1	None	None
2	MTHFD2	ENSG00000065911	ENST00000477455	processed_transcript	KNOWN	None	7434	None	None	74425742	74435848	1	None	None
2	MTHFD2	ENSG00000065911	ENST00000489041	nonsense_mediated_decay	KNOWN	None	7434	111	36	74425742	74441732	1	None	None
2	MTHFD2	ENSG00000065911	ENST00000409601	protein_coding	NOVEL	None	7434	804	267	74425743	74442404	1	None	None
2	MTHFD2	ENSG00000065911	ENST00000488086	processed_transcript	PUTATIVE	None	7434	None	None	74425756	74433200	1	None	None
2	MTHFD2	ENSG00000065911	ENST00000462026	processed_transcript	KNOWN	None	7434	None	None	74433521	74437178	1	None	None
2	MTHFD2	ENSG00000065911	ENST00000264090	protein_coding	KNOWN	None	7434	747	248	74425740	74441868	1	None	None
2	MTHFD2	ENSG00000065911	ENST00000394050	protein_coding	KNOWN	None	7434	561	186	74425742	74441732	1	None	None
1	KCNK1	ENSG00000135750	ENST00000366621	protein_coding	KNOWN	CCDS1599	6272	1011	336	233749750	233808258	1	None	K2p1.1, DPK, TWIK-1
1	KCNK1	ENSG00000135750	ENST00000472190	processed_transcript	KNOWN	None	6272	None	None	233765304	233807445	1	None	K2p1.1, DPK, TWIK-1
1	KCNK1	ENSG00000135750	ENST00000366620	protein_coding	KNOWN	None	6272	663	220	233765353	233807984	1	None	K2p1.1, DPK, TWIK-1
1	KCNK1	ENSG00000135750	ENST00000487728	processed_transcript	KNOWN	None	6272	None	None	233772270	233802736	1	None	K2p1.1, DPK, TWIK-1
1	KCNK1	ENSG00000135750	ENST00000446915	protein_coding	KNOWN	None	6272	726	241	233785687	233807237	1	None	K2p1.1, DPK, TWIK-1
1	KCNK1	ENSG00000135750	ENST00000472869	processed_transcript	KNOWN	None	6272	None	None	233791441	233802432	1	None	K2p1.1, DPK, TWIK-1
16	HS3ST2	ENSG00000122254	ENST00000261374	protein_coding	KNOWN	CCDS10606	5195	1104	367	22825498	22927659	1	None	3OST2
16	HS3ST2	ENSG00000122254	ENST00000473392	nonsense_mediated_decay	KNOWN	None	5195	489	162	22825818	22927640	1	None	3OST2
20	None	ENSG00000232645	ENST00000444981	antisense	KNOWN	None	None	None	None	23337231	23338492	-1	None	None
20	None	ENSG00000232645	ENST00000442440	antisense	KNOWN	None	None	None	None	23337231	23338642	-1	None	None
20	None	ENSG00000232645	ENST00000452395	antisense	KNOWN	None	None	None	None	23337432	23338753	-1	None	None
10	RASGEF1A	ENSG00000198915	ENST00000374459	protein_coding	NOVEL	None	24246	1470	489	43689983	43725187	-1	None	CG4853, FLJ37817
10	RASGEF1A	ENSG00000198915	ENST00000395810	protein_coding	KNOWN	CCDS7202	24246	1446	481	43689984	43762367	-1	None	CG4853, FLJ37817
10	RASGEF1A	ENSG00000198915	ENST00000395809	protein_coding	KNOWN	CCDS7202	24246	1446	481	43691541	43704632	-1	None	CG4853, FLJ37817
10	RASGEF1A	ENSG00000198915	ENST00000374455	protein_coding	PUTATIVE	None	24246	632	209	43694564	43698130	-1	None	CG4853, FLJ37817
10	RASGEF1A	ENSG00000198915	ENST00000472864	processed_transcript	KNOWN	None	24246	None	None	43695643	43699267	-1	None	CG4853, FLJ37817
1	SLC35F3	ENSG00000183780	ENST00000366618	protein_coding	NOVEL	CCDS1600	23616	1473	490	234040679	234460262	1	None	FLJ37712
1	SLC35F3	ENSG00000183780	ENST00000366617	protein_coding	KNOWN	None	23616	1266	421	234350017	234460257	1	None	FLJ37712
2	None	ENSG00000264324	ENST00000451608	nonsense_mediated_decay	KNOWN	None	None	576	191	74438731	74590504	-1	None	None
4	JAKMIP1	ENSG00000152969	ENST00000409021	protein_coding	KNOWN	CCDS47005	26460	2496	831	6027926	6202282	-1	None	MARLIN1, JAMIP1, Gababrbp, FLJ31564
4	JAKMIP1	ENSG00000152969	ENST00000409371	protein_coding	KNOWN	None	26460	1941	646	6027926	6202282	-1	None	MARLIN1, JAMIP1, Gababrbp, FLJ31564
4	JAKMIP1	ENSG00000152969	ENST00000473053	nonsense_mediated_decay	KNOWN	None	26460	1710	569	6055484	6202282	-1	None	MARLIN1, JAMIP1, Gababrbp, FLJ31564
4	JAKMIP1	ENSG00000152969	ENST00000282924	protein_coding	KNOWN	CCDS3385	26460	1881	626	6055484	6202318	-1	None	MARLIN1, JAMIP1, Gababrbp, FLJ31564
4	JAKMIP1	ENSG00000152969	ENST00000409831	protein_coding	KNOWN	CCDS3385	26460	1881	626	6055486	6196344	-1	None	MARLIN1, JAMIP1, Gababrbp, FLJ31564
4	JAKMIP1	ENSG00000152969	ENST00000410077	protein_coding	NOVEL	None	26460	1386	461	6055529	6196346	-1	None	MARLIN1, JAMIP1, Gababrbp, FLJ31564
4	JAKMIP1	ENSG00000152969	ENST00000457227	processed_transcript	KNOWN	None	26460	None	None	6064120	6152235	-1	None	MARLIN1, JAMIP1, Gababrbp, FLJ31564
1	L1TD1	ENSG00000240563	ENST00000498273	protein_coding	KNOWN	CCDS619	25595	2598	865	62660503	62678000	1	None	FLJ10884, ECAT11
7	MUC17	ENSG00000169876	ENST00000306151	protein_coding	KNOWN	CCDS34711	16800	13482	4493	100663353	100702020	1	None	None
7	MUC17	ENSG00000169876	ENST00000379439	nonsense_mediated_decay	KNOWN	None	16800	12789	4262	100663353	100702020	1	None	None
7	MUC17	ENSG00000169876	ENST00000470303	retained_intron	KNOWN	None	16800	None	None	100686992	100691558	1	None	None
7	MUC17	ENSG00000169876	ENST00000497859	retained_intron	KNOWN	None	16800	None	None	100696268	100696887	1	None	None
1	COA6	ENSG00000168275	ENST00000366615	protein_coding	NOVEL	None	18025	468	155	234509202	234519795	1	C1orf31	None
1	COA6	ENSG00000168275	ENST00000366613	protein_coding	NOVEL	CCDS31059	18025	378	125	234509429	234519791	1	C1orf31	None
1	COA6	ENSG00000168275	ENST00000366612	protein_coding	NOVEL	CCDS55690	18025	240	79	234509447	234519792	1	C1orf31	None
6	PPIL6	ENSG00000185250	ENST00000521072	protein_coding	KNOWN	CCDS5074	21557	936	311	109711418	109762374	-1	None	bA425D10.6, MGC41939, dJ919F19.1, RSPH12
6	PPIL6	ENSG00000185250	ENST00000447468	nonsense_mediated_decay	KNOWN	None	21557	792	263	109713673	109761826	-1	None	bA425D10.6, MGC41939, dJ919F19.1, RSPH12
6	PPIL6	ENSG00000185250	ENST00000440797	protein_coding	NOVEL	CCDS47466	21557	1014	337	109713931	109762374	-1	None	bA425D10.6, MGC41939, dJ919F19.1, RSPH12
6	PPIL6	ENSG00000185250	ENST00000520723	protein_coding	PUTATIVE	None	21557	514	170	109714040	109761707	-1	None	bA425D10.6, MGC41939, dJ919F19.1, RSPH12
6	PPIL6	ENSG00000185250	ENST00000417394	protein_coding	NOVEL	None	21557	617	204	109721316	109761760	-1	None	bA425D10.6, MGC41939, dJ919F19.1, RSPH12
6	PPIL6	ENSG00000185250	ENST00000518648	protein_coding	NOVEL	None	21557	436	144	109721363	109761731	-1	None	bA425D10.6, MGC41939, dJ919F19.1, RSPH12
6	PPIL6	ENSG00000185250	ENST00000524031	processed_transcript	KNOWN	None	21557	None	None	109739291	109752504	-1	None	bA425D10.6, MGC41939, dJ919F19.1, RSPH12
6	PPIL6	ENSG00000185250	ENST00000424445	protein_coding	KNOWN	None	21557	840	279	109711419	109762374	-1	None	bA425D10.6, MGC41939, dJ919F19.1, RSPH12
1	KANK4	ENSG00000132854	ENST00000317477	protein_coding	KNOWN	None	27263	402	133	62702651	62729096	-1	ANKRD38	KIAA0172
1	KANK4	ENSG00000132854	ENST00000371153	protein_coding	KNOWN	CCDS620	27263	2988	995	62702651	62785085	-1	ANKRD38	KIAA0172
1	KANK4	ENSG00000132854	ENST00000371150	protein_coding	KNOWN	None	27263	1056	351	62703216	62738463	-1	ANKRD38	KIAA0172
1	KANK4	ENSG00000132854	ENST00000354381	protein_coding	KNOWN	None	27263	1104	367	62703216	62784972	-1	ANKRD38	KIAA0172
11	SMTNL1	ENSG00000214872	ENST00000527972	protein_coding	PUTATIVE	None	32394	1485	494	57310114	57317747	1	None	CHASM
11	SMTNL1	ENSG00000214872	ENST00000457912	protein_coding	KNOWN	None	32394	1539	512	57308979	57318108	1	None	CHASM
11	SMTNL1	ENSG00000214872	ENST00000399154	protein_coding	KNOWN	None	32394	1374	457	57310116	57318108	1	None	CHASM
3	CNTN6	ENSG00000134115	ENST00000446702	protein_coding	KNOWN	CCDS2557	2176	3087	1028	1134260	1445901	1	None	NB-3
3	CNTN6	ENSG00000134115	ENST00000397479	nonsense_mediated_decay	KNOWN	None	2176	192	63	1134342	1445126	1	None	NB-3
3	CNTN6	ENSG00000134115	ENST00000350110	protein_coding	KNOWN	CCDS2557	2176	3087	1028	1134345	1445278	1	None	NB-3
3	CNTN6	ENSG00000134115	ENST00000413210	nonsense_mediated_decay	KNOWN	None	2176	192	63	1134406	1189651	1	None	NB-3
3	CNTN6	ENSG00000134115	ENST00000394261	nonsense_mediated_decay	KNOWN	None	2176	126	41	1134708	1340053	1	None	NB-3
3	CNTN6	ENSG00000134115	ENST00000485257	retained_intron	KNOWN	None	2176	None	None	1442969	1444485	1	None	NB-3
3	CNTN6	ENSG00000134115	ENST00000539053	protein_coding	KNOWN	None	2176	2871	956	1134342	1445126	1	None	NB-3
1	TARBP1	ENSG00000059588	ENST00000040877	protein_coding	NOVEL	CCDS1601	11568	4866	1621	234527059	234614849	-1	None	TRP-185, TRM3
1	TARBP1	ENSG00000059588	ENST00000483404	processed_transcript	KNOWN	None	11568	None	None	234527085	234543701	-1	None	TRP-185, TRM3
1	TARBP1	ENSG00000059588	ENST00000462259	processed_transcript	KNOWN	None	11568	None	None	234527124	234542126	-1	None	TRP-185, TRM3
1	TARBP1	ENSG00000059588	ENST00000496673	processed_transcript	KNOWN	None	11568	None	None	234527156	234536962	-1	None	TRP-185, TRM3
1	TARBP1	ENSG00000059588	ENST00000471918	processed_transcript	KNOWN	None	11568	None	None	234527344	234528470	-1	None	TRP-185, TRM3
1	TARBP1	ENSG00000059588	ENST00000484454	processed_transcript	KNOWN	None	11568	None	None	234533924	234536648	-1	None	TRP-185, TRM3
1	TARBP1	ENSG00000059588	ENST00000468077	processed_transcript	KNOWN	None	11568	None	None	234534128	234541739	-1	None	TRP-185, TRM3
1	TARBP1	ENSG00000059588	ENST00000481183	processed_transcript	KNOWN	None	11568	None	None	234535997	234546277	-1	None	TRP-185, TRM3
1	TARBP1	ENSG00000059588	ENST00000463793	processed_transcript	KNOWN	None	11568	None	None	234546150	234556560	-1	None	TRP-185, TRM3
8	None	ENSG00000232941	ENST00000415643	protein_coding	KNOWN	None	None	96	31	52730143	52730969	1	None	None
1	GON4L	ENSG00000116580	ENST00000437809	protein_coding	KNOWN	CCDS44242	25973	6723	2240	155719508	155829191	-1	GON4	FLJ20203, GON-4
1	GON4L	ENSG00000116580	ENST00000473267	retained_intron	KNOWN	None	25973	None	None	155719733	155721993	-1	GON4	FLJ20203, GON-4
1	GON4L	ENSG00000116580	ENST00000271883	protein_coding	KNOWN	CCDS44242	25973	6723	2240	155720123	155827086	-1	GON4	FLJ20203, GON-4
1	GON4L	ENSG00000116580	ENST00000460075	retained_intron	KNOWN	None	25973	None	None	155723808	155727758	-1	GON4	FLJ20203, GON-4
1	GON4L	ENSG00000116580	ENST00000483032	retained_intron	KNOWN	None	25973	None	None	155726332	155727731	-1	GON4	FLJ20203, GON-4
1	GON4L	ENSG00000116580	ENST00000361040	protein_coding	KNOWN	CCDS1121	25973	4590	1529	155734218	155826995	-1	GON4	FLJ20203, GON-4
1	GON4L	ENSG00000116580	ENST00000471341	processed_transcript	KNOWN	None	25973	None	None	155734575	155827008	-1	GON4	FLJ20203, GON-4
1	GON4L	ENSG00000116580	ENST00000497369	processed_transcript	KNOWN	None	25973	None	None	155735240	155743211	-1	GON4	FLJ20203, GON-4
1	GON4L	ENSG00000116580	ENST00000476028	processed_transcript	KNOWN	None	25973	None	None	155735249	155755165	-1	GON4	FLJ20203, GON-4
1	GON4L	ENSG00000116580	ENST00000471442	processed_transcript	KNOWN	None	25973	None	None	155735249	155755165	-1	GON4	FLJ20203, GON-4
1	GON4L	ENSG00000116580	ENST00000477831	processed_transcript	KNOWN	None	25973	None	None	155735250	155755165	-1	GON4	FLJ20203, GON-4
1	GON4L	ENSG00000116580	ENST00000495937	processed_transcript	KNOWN	None	25973	None	None	155735250	155755165	-1	GON4	FLJ20203, GON-4
1	GON4L	ENSG00000116580	ENST00000490801	processed_transcript	KNOWN	None	25973	None	None	155736327	155746252	-1	GON4	FLJ20203, GON-4
1	GON4L	ENSG00000116580	ENST00000465587	processed_transcript	KNOWN	None	25973	None	None	155736418	155753880	-1	GON4	FLJ20203, GON-4
1	GON4L	ENSG00000116580	ENST00000494225	processed_transcript	KNOWN	None	25973	None	None	155736427	155746227	-1	GON4	FLJ20203, GON-4
1	GON4L	ENSG00000116580	ENST00000496021	processed_transcript	KNOWN	None	25973	None	None	155736877	155740992	-1	GON4	FLJ20203, GON-4
1	GON4L	ENSG00000116580	ENST00000496135	processed_transcript	KNOWN	None	25973	None	None	155742861	155753880	-1	GON4	FLJ20203, GON-4
1	GON4L	ENSG00000116580	ENST00000482386	processed_transcript	KNOWN	None	25973	None	None	155744598	155774815	-1	GON4	FLJ20203, GON-4
1	GON4L	ENSG00000116580	ENST00000466224	processed_transcript	KNOWN	None	25973	None	None	155746186	155754180	-1	GON4	FLJ20203, GON-4
1	GON4L	ENSG00000116580	ENST00000467009	processed_transcript	KNOWN	None	25973	None	None	155754166	155791311	-1	GON4	FLJ20203, GON-4
1	GON4L	ENSG00000116580	ENST00000468867	processed_transcript	KNOWN	None	25973	None	None	155792238	155823196	-1	GON4	FLJ20203, GON-4
1	GON4L	ENSG00000116580	ENST00000488251	processed_transcript	KNOWN	None	25973	None	None	155796661	155823600	-1	GON4	FLJ20203, GON-4
1	GON4L	ENSG00000116580	ENST00000368331	protein_coding	KNOWN	None	25973	6726	2241	155719510	155826972	-1	GON4	FLJ20203, GON-4
1	IRF2BP2	ENSG00000168264	ENST00000366610	protein_coding	NOVEL	CCDS41475	21729	1716	571	234740015	234745271	-1	None	IRF-2BP2
1	IRF2BP2	ENSG00000168264	ENST00000366609	protein_coding	NOVEL	CCDS1602	21729	1764	587	234740015	234745271	-1	None	IRF-2BP2
1	IRF2BP2	ENSG00000168264	ENST00000491430	processed_transcript	KNOWN	None	21729	None	None	234742977	234743840	-1	None	IRF-2BP2
3	CCDC37	ENSG00000163885	ENST00000508140	processed_transcript	KNOWN	None	26842	None	None	126113782	126126070	1	None	FLJ40083
3	CCDC37	ENSG00000163885	ENST00000352312	protein_coding	KNOWN	CCDS3037	26842	1836	611	126113782	126155398	1	None	FLJ40083
3	CCDC37	ENSG00000163885	ENST00000510833	protein_coding	PUTATIVE	None	26842	354	117	126114240	126133186	1	None	FLJ40083
3	CCDC37	ENSG00000163885	ENST00000505024	protein_coding	NOVEL	None	26842	1839	612	126114815	126155373	1	None	FLJ40083
3	CCDC37	ENSG00000163885	ENST00000533201	processed_transcript	PUTATIVE	None	26842	None	None	126135178	126135706	1	None	FLJ40083
3	CCDC37	ENSG00000163885	ENST00000503905	retained_intron	KNOWN	None	26842	None	None	126136903	126137537	1	None	FLJ40083
3	CCDC37	ENSG00000163885	ENST00000507830	processed_transcript	KNOWN	None	26842	None	None	126138609	126139693	1	None	FLJ40083
3	CCDC37	ENSG00000163885	ENST00000506204	processed_transcript	KNOWN	None	26842	None	None	126152223	126155399	1	None	FLJ40083
3	CCDC37	ENSG00000163885	ENST00000393425	protein_coding	KNOWN	None	26842	1839	612	126113782	126155398	1	None	FLJ40083
8	NAPRT1	ENSG00000147813	ENST00000529179	retained_intron	KNOWN	None	30450	None	None	144656955	144657493	-1	None	PP3856
8	NAPRT1	ENSG00000147813	ENST00000460623	processed_transcript	KNOWN	None	30450	None	None	144656955	144658336	-1	None	PP3856
8	NAPRT1	ENSG00000147813	ENST00000435154	protein_coding	KNOWN	None	30450	1473	490	144656955	144660513	-1	None	PP3856
8	NAPRT1	ENSG00000147813	ENST00000449291	protein_coding	KNOWN	CCDS6403	30450	1617	538	144656955	144660783	-1	None	PP3856
8	NAPRT1	ENSG00000147813	ENST00000498076	retained_intron	KNOWN	None	30450	None	None	144656956	144657585	-1	None	PP3856
8	NAPRT1	ENSG00000147813	ENST00000464332	retained_intron	KNOWN	None	30450	None	None	144656957	144658971	-1	None	PP3856
8	NAPRT1	ENSG00000147813	ENST00000340490	protein_coding	PUTATIVE	None	30450	1753	583	144656957	144660509	-1	None	PP3856
8	NAPRT1	ENSG00000147813	ENST00000426292	protein_coding	KNOWN	None	30450	1578	525	144656957	144660513	-1	None	PP3856
8	NAPRT1	ENSG00000147813	ENST00000525583	nonsense_mediated_decay	KNOWN	None	30450	491	162	144657602	144660388	-1	None	PP3856
8	NAPRT1	ENSG00000147813	ENST00000488096	retained_intron	KNOWN	None	30450	None	None	144657770	144660085	-1	None	PP3856
8	NAPRT1	ENSG00000147813	ENST00000532645	nonsense_mediated_decay	KNOWN	None	30450	386	127	144657793	144660328	-1	None	PP3856
8	NAPRT1	ENSG00000147813	ENST00000480946	retained_intron	KNOWN	None	30450	None	None	144658610	144660363	-1	None	PP3856
8	NAPRT1	ENSG00000147813	ENST00000491904	retained_intron	KNOWN	None	30450	None	None	144659113	144660819	-1	None	PP3856
8	NAPRT1	ENSG00000147813	ENST00000462059	retained_intron	KNOWN	None	30450	None	None	144659437	144660491	-1	None	PP3856
8	NAPRT1	ENSG00000147813	ENST00000276844	protein_coding	KNOWN	None	30450	1701	566	144657008	144660508	-1	None	PP3856
1	TOMM20	ENSG00000173726	ENST00000366607	protein_coding	KNOWN	CCDS1603	20947	438	145	235272651	235292251	-1	None	KIAA0016, TOM20, MOM19, MAS20
1	TOMM20	ENSG00000173726	ENST00000467767	processed_transcript	KNOWN	None	20947	None	None	235275340	235283214	-1	None	KIAA0016, TOM20, MOM19, MAS20
1	TOMM20	ENSG00000173726	ENST00000473132	processed_transcript	KNOWN	None	20947	None	None	235275418	235285774	-1	None	KIAA0016, TOM20, MOM19, MAS20
19	C19orf47	ENSG00000160392	ENST00000582783	protein_coding	KNOWN	CCDS58662	26723	1269	422	40825443	40854434	-1	None	FLJ36888
19	C19orf47	ENSG00000160392	ENST00000577617	protein_coding	PUTATIVE	None	26723	506	167	40826970	40832330	-1	None	FLJ36888
19	C19orf47	ENSG00000160392	ENST00000392035	protein_coding	KNOWN	None	26723	1068	355	40826970	40854293	-1	None	FLJ36888
19	C19orf47	ENSG00000160392	ENST00000582734	retained_intron	KNOWN	None	26723	None	None	40826986	40830591	-1	None	FLJ36888
19	C19orf47	ENSG00000160392	ENST00000584868	processed_transcript	KNOWN	None	26723	None	None	40826987	40828246	-1	None	FLJ36888
19	C19orf47	ENSG00000160392	ENST00000357884	nonsense_mediated_decay	KNOWN	None	26723	439	145	40827323	40847792	-1	None	FLJ36888
19	C19orf47	ENSG00000160392	ENST00000582006	protein_coding	KNOWN	None	26723	427	141	40832316	40854426	-1	None	FLJ36888
19	C19orf47	ENSG00000160392	ENST00000580606	protein_coding	PUTATIVE	None	26723	439	145	40834320	40849712	-1	None	FLJ36888
19	C19orf47	ENSG00000160392	ENST00000580977	nonsense_mediated_decay	KNOWN	None	26723	426	141	40834377	40854421	-1	None	FLJ36888
2	CASP8	ENSG00000064012	ENST00000392263	protein_coding	KNOWN	None	1509	1392	463	202098166	202151314	1	None	MCH5, MACH, FLICE, Casp-8
2	CASP8	ENSG00000064012	ENST00000432109	protein_coding	KNOWN	CCDS2342	1509	1440	479	202098186	202151317	1	None	MCH5, MACH, FLICE, Casp-8
2	CASP8	ENSG00000064012	ENST00000490682	processed_transcript	KNOWN	None	1509	None	None	202098188	202107648	1	None	MCH5, MACH, FLICE, Casp-8
2	CASP8	ENSG00000064012	ENST00000264275	protein_coding	KNOWN	CCDS42799	1509	1491	496	202098189	202151452	1	None	MCH5, MACH, FLICE, Casp-8
2	CASP8	ENSG00000064012	ENST00000471383	retained_intron	KNOWN	None	1509	None	None	202098193	202137642	1	None	MCH5, MACH, FLICE, Casp-8
2	CASP8	ENSG00000064012	ENST00000450491	protein_coding	NOVEL	None	1509	448	148	202098209	202141691	1	None	MCH5, MACH, FLICE, Casp-8
2	CASP8	ENSG00000064012	ENST00000440732	protein_coding	KNOWN	None	1509	374	123	202098225	202136307	1	None	MCH5, MACH, FLICE, Casp-8
2	CASP8	ENSG00000064012	ENST00000392258	protein_coding	KNOWN	CCDS2345	1509	708	235	202098229	202146638	1	None	MCH5, MACH, FLICE, Casp-8
2	CASP8	ENSG00000064012	ENST00000447616	protein_coding	PUTATIVE	None	1509	628	208	202122703	202141627	1	None	MCH5, MACH, FLICE, Casp-8
2	CASP8	ENSG00000064012	ENST00000358485	protein_coding	KNOWN	CCDS42798	1509	1617	538	202122759	202152434	1	None	MCH5, MACH, FLICE, Casp-8
2	CASP8	ENSG00000064012	ENST00000437283	nonsense_mediated_decay	KNOWN	None	1509	177	58	202122841	202137461	1	None	MCH5, MACH, FLICE, Casp-8
2	CASP8	ENSG00000064012	ENST00000413726	protein_coding	KNOWN	None	1509	595	197	202122841	202137665	1	None	MCH5, MACH, FLICE, Casp-8
2	CASP8	ENSG00000064012	ENST00000490412	processed_transcript	KNOWN	None	1509	None	None	202122842	202137448	1	None	MCH5, MACH, FLICE, Casp-8
2	CASP8	ENSG00000064012	ENST00000339403	retained_intron	KNOWN	None	1509	None	None	202123047	202151379	1	None	MCH5, MACH, FLICE, Casp-8
2	CASP8	ENSG00000064012	ENST00000323492	protein_coding	KNOWN	CCDS2343	1509	1395	464	202125223	202152432	1	None	MCH5, MACH, FLICE, Casp-8
2	CASP8	ENSG00000064012	ENST00000429881	protein_coding	PUTATIVE	None	1509	349	115	202126679	202136282	1	None	MCH5, MACH, FLICE, Casp-8
2	CASP8	ENSG00000064012	ENST00000424461	protein_coding	PUTATIVE	None	1509	252	83	202137361	202146582	1	None	MCH5, MACH, FLICE, Casp-8
2	CASP8	ENSG00000064012	ENST00000444430	protein_coding	PUTATIVE	None	1509	777	258	202137361	202151815	1	None	MCH5, MACH, FLICE, Casp-8
2	CASP8	ENSG00000064012	ENST00000264274	protein_coding	KNOWN	None	1509	1188	395	202098166	202152434	1	None	MCH5, MACH, FLICE, Casp-8
2	CASP8	ENSG00000064012	ENST00000392259	protein_coding	KNOWN	CCDS2345	1509	708	235	202098166	202152434	1	None	MCH5, MACH, FLICE, Casp-8
2	CASP8	ENSG00000064012	ENST00000392266	protein_coding	KNOWN	None	1509	663	220	202098166	202152434	1	None	MCH5, MACH, FLICE, Casp-8
5	SPDL1	ENSG00000040275	ENST00000265295	protein_coding	KNOWN	CCDS4370	26010	1818	605	169010638	169031782	1	CCDC99	FLJ20364, hSpindly
5	SPDL1	ENSG00000040275	ENST00000506574	protein_coding	KNOWN	None	26010	260	85	169010640	169018152	1	CCDC99	FLJ20364, hSpindly
5	SPDL1	ENSG00000040275	ENST00000515224	protein_coding	KNOWN	None	26010	265	87	169010742	169018157	1	CCDC99	FLJ20364, hSpindly
5	SPDL1	ENSG00000040275	ENST00000507232	nonsense_mediated_decay	KNOWN	None	26010	135	44	169010754	169029025	1	CCDC99	FLJ20364, hSpindly
5	SPDL1	ENSG00000040275	ENST00000510751	processed_transcript	KNOWN	None	26010	None	None	169010760	169023182	1	CCDC99	FLJ20364, hSpindly
5	SPDL1	ENSG00000040275	ENST00000508247	protein_coding	KNOWN	None	26010	449	148	169010764	169020470	1	CCDC99	FLJ20364, hSpindly
5	SPDL1	ENSG00000040275	ENST00000503209	processed_transcript	PUTATIVE	None	26010	None	None	169010777	169013402	1	CCDC99	FLJ20364, hSpindly
5	SPDL1	ENSG00000040275	ENST00000513941	protein_coding	KNOWN	None	26010	691	229	169010791	169021407	1	CCDC99	FLJ20364, hSpindly
5	SPDL1	ENSG00000040275	ENST00000509785	nonsense_mediated_decay	KNOWN	None	26010	183	60	169010792	169018078	1	CCDC99	FLJ20364, hSpindly
5	SPDL1	ENSG00000040275	ENST00000512028	nonsense_mediated_decay	KNOWN	None	26010	183	60	169010792	169020489	1	CCDC99	FLJ20364, hSpindly
5	SPDL1	ENSG00000040275	ENST00000513795	protein_coding	KNOWN	None	26010	476	157	169011033	169020497	1	CCDC99	FLJ20364, hSpindly
5	SPDL1	ENSG00000040275	ENST00000508837	retained_intron	KNOWN	None	26010	None	None	169014263	169015847	1	CCDC99	FLJ20364, hSpindly
5	SPDL1	ENSG00000040275	ENST00000503871	nonsense_mediated_decay	KNOWN	None	26010	68	21	169015539	169020431	1	CCDC99	FLJ20364, hSpindly
5	SPDL1	ENSG00000040275	ENST00000505977	protein_coding	NOVEL	None	26010	936	311	169018108	169026014	1	CCDC99	FLJ20364, hSpindly
5	SPDL1	ENSG00000040275	ENST00000523518	processed_transcript	PUTATIVE	None	26010	None	None	169022278	169023084	1	CCDC99	FLJ20364, hSpindly
1	USP1	ENSG00000162607	ENST00000452143	protein_coding	KNOWN	None	12607	558	185	62901968	62908991	1	None	None
1	USP1	ENSG00000162607	ENST00000442679	protein_coding	KNOWN	None	12607	263	86	62901969	62907251	1	None	None
1	USP1	ENSG00000162607	ENST00000339950	protein_coding	KNOWN	CCDS621	12607	2358	785	62902326	62917475	1	None	None
1	USP1	ENSG00000162607	ENST00000371146	protein_coding	KNOWN	CCDS621	12607	2358	785	62901975	62917473	1	None	None
6	LY6G5C	ENSG00000204428	ENST00000375863	protein_coding	PUTATIVE	None	13932	677	224	31644461	31651817	-1	C6orf20	G5c, NG33
6	LY6G5C	ENSG00000204428	ENST00000474395	processed_transcript	KNOWN	None	13932	None	None	31644477	31649253	-1	C6orf20	G5c, NG33
6	LY6G5C	ENSG00000204428	ENST00000383237	protein_coding	KNOWN	CCDS34401	13932	453	150	31644517	31648154	-1	C6orf20	G5c, NG33
6	LY6G5C	ENSG00000204428	ENST00000467098	processed_transcript	KNOWN	None	13932	None	None	31644625	31651817	-1	C6orf20	G5c, NG33
6	LY6G5C	ENSG00000204428	ENST00000474678	nonsense_mediated_decay	KNOWN	None	13932	210	69	31644734	31648141	-1	C6orf20	G5c, NG33
6	LY6G5C	ENSG00000204428	ENST00000460141	retained_intron	KNOWN	None	13932	None	None	31644734	31648141	-1	C6orf20	G5c, NG33
6	LY6G5C	ENSG00000204428	ENST00000461572	processed_transcript	KNOWN	None	13932	None	None	31649125	31649737	-1	C6orf20	G5c, NG33
6	LY6G5C	ENSG00000204428	ENST00000375860	protein_coding	KNOWN	None	13932	447	148	31644461	31651817	-1	C6orf20	G5c, NG33
6	LY6G5C	ENSG00000204428	ENST00000375858	protein_coding	KNOWN	None	13932	444	147	31644461	31648150	-1	C6orf20	G5c, NG33
5	None	ENSG00000268012	ENST00000594347	protein_coding	KNOWN	None	None	198	65	78523714	78523911	-1	None	None
8	ST18	ENSG00000147488	ENST00000276480	protein_coding	KNOWN	CCDS6149	18695	3144	1047	53023399	53322303	-1	ZNF387	KIAA0535, ZC2HC10
8	ST18	ENSG00000147488	ENST00000521824	nonsense_mediated_decay	KNOWN	None	18695	285	94	53025104	53130381	-1	ZNF387	KIAA0535, ZC2HC10
8	ST18	ENSG00000147488	ENST00000522251	nonsense_mediated_decay	KNOWN	None	18695	126	41	53025104	53130382	-1	ZNF387	KIAA0535, ZC2HC10
8	ST18	ENSG00000147488	ENST00000521582	nonsense_mediated_decay	KNOWN	None	18695	1095	364	53025106	53130382	-1	ZNF387	KIAA0535, ZC2HC10
8	ST18	ENSG00000147488	ENST00000518053	retained_intron	KNOWN	None	18695	None	None	53028831	53045778	-1	ZNF387	KIAA0535, ZC2HC10
8	ST18	ENSG00000147488	ENST00000522861	retained_intron	KNOWN	None	18695	None	None	53038444	53045704	-1	ZNF387	KIAA0535, ZC2HC10
8	ST18	ENSG00000147488	ENST00000518501	processed_transcript	KNOWN	None	18695	None	None	53045664	53050372	-1	ZNF387	KIAA0535, ZC2HC10
8	ST18	ENSG00000147488	ENST00000517580	protein_coding	KNOWN	None	18695	1862	619	53062482	53322365	-1	ZNF387	KIAA0535, ZC2HC10
8	ST18	ENSG00000147488	ENST00000520257	processed_transcript	KNOWN	None	18695	None	None	53085073	53130339	-1	ZNF387	KIAA0535, ZC2HC10
8	ST18	ENSG00000147488	ENST00000521549	processed_transcript	KNOWN	None	18695	None	None	53092854	53322309	-1	ZNF387	KIAA0535, ZC2HC10
8	ST18	ENSG00000147488	ENST00000518037	processed_transcript	KNOWN	None	18695	None	None	53118976	53159224	-1	ZNF387	KIAA0535, ZC2HC10
8	ST18	ENSG00000147488	ENST00000517456	processed_transcript	KNOWN	None	18695	None	None	53119143	53159224	-1	ZNF387	KIAA0535, ZC2HC10
8	ST18	ENSG00000147488	ENST00000519118	protein_coding	KNOWN	None	18695	38	11	53126780	53161086	-1	ZNF387	KIAA0535, ZC2HC10
8	ST18	ENSG00000147488	ENST00000518545	processed_transcript	KNOWN	None	18695	None	None	53130332	53161972	-1	ZNF387	KIAA0535, ZC2HC10
8	ST18	ENSG00000147488	ENST00000521119	retained_intron	KNOWN	None	18695	None	None	53133124	53166908	-1	ZNF387	KIAA0535, ZC2HC10
8	ST18	ENSG00000147488	ENST00000518453	retained_intron	KNOWN	None	18695	None	None	53133292	53134655	-1	ZNF387	KIAA0535, ZC2HC10
8	ST18	ENSG00000147488	ENST00000520279	retained_intron	KNOWN	None	18695	None	None	53142253	53322316	-1	ZNF387	KIAA0535, ZC2HC10
8	ST18	ENSG00000147488	ENST00000519201	processed_transcript	PUTATIVE	None	18695	None	None	53306136	53322352	-1	ZNF387	KIAA0535, ZC2HC10
8	ST18	ENSG00000147488	ENST00000524183	processed_transcript	PUTATIVE	None	18695	None	None	53315887	53322332	-1	ZNF387	KIAA0535, ZC2HC10
8	ST18	ENSG00000147488	ENST00000522102	processed_transcript	KNOWN	None	18695	None	None	53316261	53322505	-1	ZNF387	KIAA0535, ZC2HC10
8	ST18	ENSG00000147488	ENST00000520811	processed_transcript	PUTATIVE	None	18695	None	None	53318366	53322332	-1	ZNF387	KIAA0535, ZC2HC10
8	ST18	ENSG00000147488	ENST00000524078	retained_intron	KNOWN	None	18695	None	None	53320196	53322442	-1	ZNF387	KIAA0535, ZC2HC10
8	ST18	ENSG00000147488	ENST00000520716	processed_transcript	PUTATIVE	None	18695	None	None	53320225	53322439	-1	ZNF387	KIAA0535, ZC2HC10
8	ST18	ENSG00000147488	ENST00000523652	retained_intron	KNOWN	None	18695	None	None	53321543	53373519	-1	ZNF387	KIAA0535, ZC2HC10
5	JMY	ENSG00000152409	ENST00000396137	protein_coding	KNOWN	CCDS4047	28916	2967	988	78532012	78623038	1	None	FLJ37870
5	JMY	ENSG00000152409	ENST00000412001	processed_transcript	KNOWN	None	28916	None	None	78596066	78621020	1	None	FLJ37870
5	ZNF879	ENSG00000234284	ENST00000444149	protein_coding	KNOWN	CCDS47352	37273	1692	563	178450753	178462065	1	None	DKFZp686E2433
5	ZNF879	ENSG00000234284	ENST00000519896	protein_coding	PUTATIVE	None	37273	324	107	178450805	178459322	1	None	DKFZp686E2433
5	ZNF879	ENSG00000234284	ENST00000522442	protein_coding	KNOWN	None	37273	404	133	178450805	178459353	1	None	DKFZp686E2433
5	ZNF879	ENSG00000234284	ENST00000521285	protein_coding	KNOWN	None	37273	123	40	178451439	178454563	1	None	DKFZp686E2433
1	RBM34	ENSG00000188739	ENST00000408888	protein_coding	KNOWN	CCDS41477	28965	1293	430	235294498	235324772	-1	None	KIAA0117
1	RBM34	ENSG00000188739	ENST00000495224	processed_transcript	KNOWN	None	28965	None	None	235294964	235299429	-1	None	KIAA0117
1	RBM34	ENSG00000188739	ENST00000447801	protein_coding	NOVEL	None	28965	1227	408	235294982	235324535	-1	None	KIAA0117
1	RBM34	ENSG00000188739	ENST00000474086	nonsense_mediated_decay	KNOWN	None	28965	260	85	235298964	235324549	-1	None	KIAA0117
1	RBM34	ENSG00000188739	ENST00000476261	retained_intron	KNOWN	None	28965	None	None	235315803	235324547	-1	None	KIAA0117
1	RBM34	ENSG00000188739	ENST00000468751	retained_intron	KNOWN	None	28965	None	None	235318196	235324486	-1	None	KIAA0117
1	RBM34	ENSG00000188739	ENST00000429912	protein_coding	PUTATIVE	None	28965	635	210	235318245	235324573	-1	None	KIAA0117
1	RBM34	ENSG00000188739	ENST00000475960	retained_intron	KNOWN	None	28965	None	None	235318403	235324277	-1	None	KIAA0117
1	RBM34	ENSG00000188739	ENST00000486751	retained_intron	KNOWN	None	28965	None	None	235323465	235324598	-1	None	KIAA0117
1	RBM34	ENSG00000188739	ENST00000485019	processed_transcript	KNOWN	None	28965	None	None	235323510	235324531	-1	None	KIAA0117
1	RBM34	ENSG00000188739	ENST00000366606	protein_coding	KNOWN	None	28965	1278	425	235294499	235324571	-1	None	KIAA0117
5	ZNF354C	ENSG00000177932	ENST00000315475	protein_coding	KNOWN	CCDS4443	16736	1665	554	178487416	178510538	1	None	KID3
5	PLEKHG4B	ENSG00000153404	ENST00000283426	protein_coding	KNOWN	CCDS34124	29399	3816	1271	140373	190085	1	None	KIAA1909
5	PLEKHG4B	ENSG00000153404	ENST00000502646	protein_coding	PUTATIVE	None	29399	1266	421	140681	157225	1	None	KIAA1909
5	PLEKHG4B	ENSG00000153404	ENST00000504041	retained_intron	KNOWN	None	29399	None	None	169168	182704	1	None	KIAA1909
16	USP31	ENSG00000103404	ENST00000219689	protein_coding	KNOWN	CCDS10607	20060	4059	1352	23072727	23160591	-1	None	KIAA1203
16	USP31	ENSG00000103404	ENST00000567975	protein_coding	NOVEL	None	20060	1938	645	23079300	23083869	-1	None	KIAA1203
16	USP31	ENSG00000103404	ENST00000381162	retained_intron	KNOWN	None	20060	None	None	23079303	23086172	-1	None	KIAA1203
16	USP31	ENSG00000103404	ENST00000563525	retained_intron	KNOWN	None	20060	None	None	23091077	23098451	-1	None	KIAA1203
7	MYL7	ENSG00000106631	ENST00000446581	protein_coding	NOVEL	None	21719	408	135	44178463	44180000	-1	None	MYLC2A, MYL2A
7	MYL7	ENSG00000106631	ENST00000223364	protein_coding	KNOWN	CCDS5478	21719	528	175	44178463	44180931	-1	None	MYLC2A, MYL2A
7	MYL7	ENSG00000106631	ENST00000458240	protein_coding	PUTATIVE	None	21719	447	148	44178465	44180884	-1	None	MYLC2A, MYL2A
7	MYL7	ENSG00000106631	ENST00000434895	processed_transcript	KNOWN	None	21719	None	None	44178468	44180635	-1	None	MYLC2A, MYL2A
7	MYL7	ENSG00000106631	ENST00000457314	protein_coding	NOVEL	None	21719	594	197	44178468	44180673	-1	None	MYLC2A, MYL2A
7	MYL7	ENSG00000106631	ENST00000447951	protein_coding	NOVEL	None	21719	516	171	44179117	44180673	-1	None	MYLC2A, MYL2A
7	MYL7	ENSG00000106631	ENST00000476118	retained_intron	KNOWN	None	21719	None	None	44179134	44180165	-1	None	MYLC2A, MYL2A
7	MYL7	ENSG00000106631	ENST00000431289	nonsense_mediated_decay	KNOWN	None	21719	116	37	44179251	44180666	-1	None	MYLC2A, MYL2A
7	MYL7	ENSG00000106631	ENST00000431007	protein_coding	NOVEL	None	21719	321	106	44179936	44180673	-1	None	MYLC2A, MYL2A
7	MYL7	ENSG00000106631	ENST00000457910	nonsense_mediated_decay	KNOWN	None	21719	96	31	44180212	44180931	-1	None	MYLC2A, MYL2A
1	SYT11	ENSG00000132718	ENST00000368324	protein_coding	KNOWN	CCDS1122	19239	1296	431	155829300	155854990	1	None	KIAA0080, MGC10881, MGC17226, DKFZp781D015
1	SYT11	ENSG00000132718	ENST00000539162	protein_coding	KNOWN	None	19239	375	124	155829347	155851946	1	None	KIAA0080, MGC10881, MGC17226, DKFZp781D015
19	TBC1D17	ENSG00000104946	ENST00000221543	protein_coding	KNOWN	CCDS12785	25699	1947	648	50380682	50392001	1	None	FLJ12168
19	TBC1D17	ENSG00000104946	ENST00000535102	protein_coding	KNOWN	CCDS54294	25699	1848	615	50380923	50392000	1	None	FLJ12168
19	TBC1D17	ENSG00000104946	ENST00000594996	nonsense_mediated_decay	KNOWN	None	25699	228	75	50380959	50386259	1	None	FLJ12168
19	TBC1D17	ENSG00000104946	ENST00000598789	processed_transcript	KNOWN	None	25699	None	None	50381333	50384721	1	None	FLJ12168
19	TBC1D17	ENSG00000104946	ENST00000599049	protein_coding	PUTATIVE	None	25699	1441	479	50381444	50388791	1	None	FLJ12168
19	TBC1D17	ENSG00000104946	ENST00000596243	retained_intron	KNOWN	None	25699	None	None	50381807	50392005	1	None	FLJ12168
19	TBC1D17	ENSG00000104946	ENST00000594984	nonsense_mediated_decay	KNOWN	None	25699	1035	344	50385523	50391964	1	None	FLJ12168
19	TBC1D17	ENSG00000104946	ENST00000600354	retained_intron	KNOWN	None	25699	None	None	50389808	50392000	1	None	FLJ12168
4	LPHN3	ENSG00000150471	ENST00000512091	protein_coding	KNOWN	None	20974	3723	1240	62066976	62938184	1	None	KIAA0768, LEC3
4	LPHN3	ENSG00000150471	ENST00000509779	processed_transcript	KNOWN	None	20974	None	None	62067382	62251487	1	None	KIAA0768, LEC3
4	LPHN3	ENSG00000150471	ENST00000514591	protein_coding	KNOWN	CCDS54768	20974	4410	1469	62067860	62938184	1	None	KIAA0768, LEC3
4	LPHN3	ENSG00000150471	ENST00000509896	protein_coding	NOVEL	None	20974	3927	1308	62362839	62936856	1	None	KIAA0768, LEC3
4	LPHN3	ENSG00000150471	ENST00000511324	protein_coding	NOVEL	None	20974	3900	1299	62362839	62936856	1	None	KIAA0768, LEC3
4	LPHN3	ENSG00000150471	ENST00000506700	protein_coding	NOVEL	None	20974	3696	1231	62362839	62936856	1	None	KIAA0768, LEC3
4	LPHN3	ENSG00000150471	ENST00000507164	protein_coding	NOVEL	None	20974	4029	1342	62362883	62936711	1	None	KIAA0768, LEC3
4	LPHN3	ENSG00000150471	ENST00000508693	protein_coding	NOVEL	None	20974	4056	1351	62362883	62936711	1	None	KIAA0768, LEC3
4	LPHN3	ENSG00000150471	ENST00000507625	protein_coding	KNOWN	None	20974	4587	1528	62362906	62936776	1	None	KIAA0768, LEC3
4	LPHN3	ENSG00000150471	ENST00000514157	protein_coding	NOVEL	None	20974	3825	1274	62362917	62936756	1	None	KIAA0768, LEC3
4	LPHN3	ENSG00000150471	ENST00000504896	protein_coding	NOVEL	None	20974	3852	1283	62362917	62936756	1	None	KIAA0768, LEC3
4	LPHN3	ENSG00000150471	ENST00000508946	protein_coding	NOVEL	None	20974	4539	1512	62363012	62936845	1	None	KIAA0768, LEC3
4	LPHN3	ENSG00000150471	ENST00000506720	protein_coding	NOVEL	None	20974	4743	1580	62363012	62936845	1	None	KIAA0768, LEC3
4	LPHN3	ENSG00000150471	ENST00000506746	protein_coding	NOVEL	None	20974	4716	1571	62363012	62936845	1	None	KIAA0768, LEC3
4	LPHN3	ENSG00000150471	ENST00000514996	protein_coding	NOVEL	None	20974	4512	1503	62363012	62936845	1	None	KIAA0768, LEC3
4	LPHN3	ENSG00000150471	ENST00000509089	retained_intron	KNOWN	None	20974	None	None	62453086	62543110	1	None	KIAA0768, LEC3
4	LPHN3	ENSG00000150471	ENST00000502815	protein_coding	KNOWN	None	20974	2755	917	62761459	62938155	1	None	KIAA0768, LEC3
4	LPHN3	ENSG00000150471	ENST00000508078	processed_transcript	KNOWN	None	20974	None	None	62799561	62812795	1	None	KIAA0768, LEC3
4	LPHN3	ENSG00000150471	ENST00000545650	protein_coding	KNOWN	CCDS54768	20974	4410	1469	62362839	62938167	1	None	KIAA0768, LEC3
15	RSL24D1	ENSG00000137876	ENST00000260443	protein_coding	KNOWN	CCDS10152	18479	492	163	55473004	55489265	-1	C15orf15	HRP-L30-iso, L30, RPL24L, RPL24
15	RSL24D1	ENSG00000137876	ENST00000562993	nonsense_mediated_decay	KNOWN	None	18479	252	83	55474243	55489112	-1	C15orf15	HRP-L30-iso, L30, RPL24L, RPL24
15	RSL24D1	ENSG00000137876	ENST00000564344	processed_transcript	PUTATIVE	None	18479	None	None	55483173	55489247	-1	C15orf15	HRP-L30-iso, L30, RPL24L, RPL24
15	RSL24D1	ENSG00000137876	ENST00000569386	protein_coding	PUTATIVE	None	18479	199	65	55483191	55488823	-1	C15orf15	HRP-L30-iso, L30, RPL24L, RPL24
15	RSL24D1	ENSG00000137876	ENST00000565854	processed_transcript	PUTATIVE	None	18479	None	None	55484918	55488827	-1	C15orf15	HRP-L30-iso, L30, RPL24L, RPL24
15	RSL24D1	ENSG00000137876	ENST00000562895	processed_transcript	PUTATIVE	None	18479	None	None	55484955	55488844	-1	C15orf15	HRP-L30-iso, L30, RPL24L, RPL24
5	ADAMTS2	ENSG00000087116	ENST00000251582	protein_coding	KNOWN	CCDS4444	218	3636	1211	178537852	178772431	-1	None	ADAMTS-3, hPCPNI, PCINP, ADAM-TS2, NPI
5	ADAMTS2	ENSG00000087116	ENST00000522937	retained_intron	KNOWN	None	218	None	None	178541065	178548855	-1	None	ADAMTS-3, hPCPNI, PCINP, ADAM-TS2, NPI
5	ADAMTS2	ENSG00000087116	ENST00000523450	retained_intron	KNOWN	None	218	None	None	178541290	178549840	-1	None	ADAMTS-3, hPCPNI, PCINP, ADAM-TS2, NPI
5	ADAMTS2	ENSG00000087116	ENST00000518335	retained_intron	KNOWN	None	218	None	None	178548212	178549768	-1	None	ADAMTS-3, hPCPNI, PCINP, ADAM-TS2, NPI
5	ADAMTS2	ENSG00000087116	ENST00000274609	protein_coding	KNOWN	CCDS34311	218	1701	566	178577889	178772431	-1	None	ADAMTS-3, hPCPNI, PCINP, ADAM-TS2, NPI
1	RIT1	ENSG00000143622	ENST00000368323	protein_coding	KNOWN	CCDS1123	10023	660	219	155867599	155881195	-1	RIT	RIBB, ROC1, MGC125864, MGC125865
1	RIT1	ENSG00000143622	ENST00000368322	protein_coding	PUTATIVE	CCDS58037	10023	711	236	155870065	155880706	-1	RIT	RIBB, ROC1, MGC125864, MGC125865
1	RIT1	ENSG00000143622	ENST00000461050	processed_transcript	KNOWN	None	10023	None	None	155870189	155881135	-1	RIT	RIBB, ROC1, MGC125864, MGC125865
1	RIT1	ENSG00000143622	ENST00000462687	processed_transcript	KNOWN	None	10023	None	None	155879886	155880582	-1	RIT	RIBB, ROC1, MGC125864, MGC125865
1	RIT1	ENSG00000143622	ENST00000539040	protein_coding	KNOWN	CCDS58036	10023	552	183	155869974	155881193	-1	RIT	RIBB, ROC1, MGC125864, MGC125865
5	HOMER1	ENSG00000152413	ENST00000334082	protein_coding	KNOWN	CCDS43335	17512	1065	354	78668459	78810040	-1	None	Ves-1, SYN47, HOMER-1B
5	HOMER1	ENSG00000152413	ENST00000460741	retained_intron	KNOWN	None	17512	None	None	78671731	78693733	-1	None	Ves-1, SYN47, HOMER-1B
5	HOMER1	ENSG00000152413	ENST00000282260	protein_coding	KNOWN	None	17512	675	224	78671753	78808617	-1	None	Ves-1, SYN47, HOMER-1B
5	HOMER1	ENSG00000152413	ENST00000508576	protein_coding	KNOWN	None	17512	534	177	78671753	78808617	-1	None	Ves-1, SYN47, HOMER-1B
5	HOMER1	ENSG00000152413	ENST00000535690	protein_coding	KNOWN	None	17512	543	180	78671753	78808617	-1	None	Ves-1, SYN47, HOMER-1B
X	DKC1	ENSG00000130826	ENST00000369550	protein_coding	KNOWN	CCDS14761	2890	1545	514	153991031	154005964	1	DKC	XAP101, dyskerin, NAP57, NOLA4
X	DKC1	ENSG00000130826	ENST00000475423	retained_intron	KNOWN	None	2890	None	None	153991127	153993630	1	DKC	XAP101, dyskerin, NAP57, NOLA4
X	DKC1	ENSG00000130826	ENST00000413910	protein_coding	NOVEL	None	2890	776	257	153991166	153997566	1	DKC	XAP101, dyskerin, NAP57, NOLA4
X	DKC1	ENSG00000130826	ENST00000473552	processed_transcript	KNOWN	None	2890	None	None	153991188	153994830	1	DKC	XAP101, dyskerin, NAP57, NOLA4
X	DKC1	ENSG00000130826	ENST00000452771	nonsense_mediated_decay	KNOWN	None	2890	510	169	153993200	153997485	1	DKC	XAP101, dyskerin, NAP57, NOLA4
X	DKC1	ENSG00000130826	ENST00000437719	protein_coding	NOVEL	None	2890	686	227	153993202	153996633	1	DKC	XAP101, dyskerin, NAP57, NOLA4
X	DKC1	ENSG00000130826	ENST00000412124	nonsense_mediated_decay	KNOWN	None	2890	229	75	153995291	154004535	1	DKC	XAP101, dyskerin, NAP57, NOLA4
X	DKC1	ENSG00000130826	ENST00000426673	nonsense_mediated_decay	KNOWN	None	2890	625	207	153995656	154003548	1	DKC	XAP101, dyskerin, NAP57, NOLA4
X	DKC1	ENSG00000130826	ENST00000484317	retained_intron	KNOWN	None	2890	None	None	153996299	153999151	1	DKC	XAP101, dyskerin, NAP57, NOLA4
X	DKC1	ENSG00000130826	ENST00000475966	processed_transcript	KNOWN	None	2890	None	None	153996818	154004536	1	DKC	XAP101, dyskerin, NAP57, NOLA4
X	DKC1	ENSG00000130826	ENST00000481062	retained_intron	KNOWN	None	2890	None	None	154001419	154003589	1	DKC	XAP101, dyskerin, NAP57, NOLA4
X	DKC1	ENSG00000130826	ENST00000492372	processed_transcript	KNOWN	None	2890	None	None	154003394	154005186	1	DKC	XAP101, dyskerin, NAP57, NOLA4
14	ATP5S	ENSG00000125375	ENST00000554438	processed_transcript	KNOWN	None	18799	None	None	50779044	50793777	1	None	HSU79253, ATPW
14	ATP5S	ENSG00000125375	ENST00000245448	protein_coding	NOVEL	CCDS32076	18799	384	127	50779047	50792944	1	None	HSU79253, ATPW
14	ATP5S	ENSG00000125375	ENST00000557421	processed_transcript	KNOWN	None	18799	None	None	50779048	50792446	1	None	HSU79253, ATPW
14	ATP5S	ENSG00000125375	ENST00000555939	processed_transcript	KNOWN	None	18799	None	None	50779053	50791424	1	None	HSU79253, ATPW
14	ATP5S	ENSG00000125375	ENST00000426751	protein_coding	NOVEL	CCDS45102	18799	411	136	50779102	50789610	1	None	HSU79253, ATPW
14	ATP5S	ENSG00000125375	ENST00000554204	nonsense_mediated_decay	KNOWN	None	18799	45	14	50779278	50792944	1	None	HSU79253, ATPW
14	ATP5S	ENSG00000125375	ENST00000311459	protein_coding	KNOWN	CCDS32075	18799	648	215	50779359	50792705	1	None	HSU79253, ATPW
14	ATP5S	ENSG00000125375	ENST00000358473	protein_coding	NOVEL	None	18799	801	266	50785952	50802276	1	None	HSU79253, ATPW
14	ATP5S	ENSG00000125375	ENST00000554951	processed_transcript	KNOWN	None	18799	None	None	50788037	50792395	1	None	HSU79253, ATPW
14	ATP5S	ENSG00000125375	ENST00000553774	retained_intron	KNOWN	None	18799	None	None	50788251	50790834	1	None	HSU79253, ATPW
14	ATP5S	ENSG00000125375	ENST00000556962	retained_intron	KNOWN	None	18799	None	None	50789260	50791009	1	None	HSU79253, ATPW
2	ALS2CR12	ENSG00000155749	ENST00000286190	protein_coding	KNOWN	CCDS2346	14439	1338	445	202152994	202216174	-1	None	None
2	ALS2CR12	ENSG00000155749	ENST00000415745	protein_coding	PUTATIVE	None	14439	374	123	202153079	202173972	-1	None	None
2	ALS2CR12	ENSG00000155749	ENST00000494171	retained_intron	KNOWN	None	14439	None	None	202153148	202222067	-1	None	None
2	ALS2CR12	ENSG00000155749	ENST00000392257	protein_coding	NOVEL	CCDS46488	14439	1269	422	202153148	202222101	-1	None	None
2	ALS2CR12	ENSG00000155749	ENST00000439709	protein_coding	NOVEL	CCDS46488	14439	1269	422	202153153	202222121	-1	None	None
2	ALS2CR12	ENSG00000155749	ENST00000494223	retained_intron	KNOWN	None	14439	None	None	202153274	202154445	-1	None	None
2	ALS2CR12	ENSG00000155749	ENST00000425488	protein_coding	PUTATIVE	None	14439	430	142	202173877	202213024	-1	None	None
2	ALS2CR12	ENSG00000155749	ENST00000448967	processed_transcript	KNOWN	None	14439	None	None	202173877	202216174	-1	None	None
2	ALS2CR12	ENSG00000155749	ENST00000418364	protein_coding	KNOWN	None	14439	147	48	202215472	202216805	-1	None	None
2	ALS2CR12	ENSG00000155749	ENST00000405148	protein_coding	KNOWN	CCDS2346	14439	1338	445	202153147	202222101	-1	None	None
7	TRIM56	ENSG00000169871	ENST00000306085	protein_coding	KNOWN	CCDS43625	19028	2268	755	100728720	100733909	1	None	RNF109
7	TRIM56	ENSG00000169871	ENST00000412507	protein_coding	PUTATIVE	None	19028	915	304	100728803	100735017	1	None	RNF109
7	TRIM56	ENSG00000169871	ENST00000467847	retained_intron	KNOWN	None	19028	None	None	100730066	100730789	1	None	RNF109
7	TRIM56	ENSG00000169871	ENST00000487252	processed_transcript	PUTATIVE	None	19028	None	None	100732892	100733905	1	None	RNF109
1	KIAA0907	ENSG00000132680	ENST00000368321	protein_coding	KNOWN	CCDS30885	29145	1845	614	155882834	155904188	-1	None	BLOM7
1	KIAA0907	ENSG00000132680	ENST00000368320	protein_coding	KNOWN	None	29145	1695	564	155882836	155904190	-1	None	BLOM7
1	KIAA0907	ENSG00000132680	ENST00000478002	processed_transcript	KNOWN	None	29145	None	None	155883903	155895554	-1	None	BLOM7
1	KIAA0907	ENSG00000132680	ENST00000466520	processed_transcript	KNOWN	None	29145	None	None	155885368	155887365	-1	None	BLOM7
1	KIAA0907	ENSG00000132680	ENST00000465953	processed_transcript	KNOWN	None	29145	None	None	155885455	155886733	-1	None	BLOM7
1	KIAA0907	ENSG00000132680	ENST00000483237	processed_transcript	KNOWN	None	29145	None	None	155891030	155891805	-1	None	BLOM7
1	KIAA0907	ENSG00000132680	ENST00000368319	protein_coding	KNOWN	None	29145	1155	384	155891176	155904164	-1	None	BLOM7
1	KIAA0907	ENSG00000132680	ENST00000482337	processed_transcript	KNOWN	None	29145	None	None	155891213	155904181	-1	None	BLOM7
1	KIAA0907	ENSG00000132680	ENST00000466713	processed_transcript	KNOWN	None	29145	None	None	155896262	155904189	-1	None	BLOM7
1	KIAA0907	ENSG00000132680	ENST00000491599	processed_transcript	KNOWN	None	29145	None	None	155902064	155904191	-1	None	BLOM7
3	MST1R	ENSG00000164078	ENST00000296474	protein_coding	KNOWN	CCDS2807	7381	4203	1400	49924435	49941070	-1	RON, PTK8	CDw136, CD136
3	MST1R	ENSG00000164078	ENST00000411578	nonsense_mediated_decay	KNOWN	None	7381	3099	1032	49924438	49941299	-1	RON, PTK8	CDw136, CD136
3	MST1R	ENSG00000164078	ENST00000344206	protein_coding	KNOWN	CCDS58833	7381	4056	1351	49924598	49941042	-1	RON, PTK8	CDw136, CD136
3	MST1R	ENSG00000164078	ENST00000434765	protein_coding	NOVEL	None	7381	854	283	49927383	49933249	-1	RON, PTK8	CDw136, CD136
3	MST1R	ENSG00000164078	ENST00000440292	protein_coding	NOVEL	None	7381	810	269	49927980	49933506	-1	RON, PTK8	CDw136, CD136
3	MST1R	ENSG00000164078	ENST00000463789	retained_intron	KNOWN	None	7381	None	None	49928003	49929375	-1	RON, PTK8	CDw136, CD136
3	MST1R	ENSG00000164078	ENST00000490053	retained_intron	KNOWN	None	7381	None	None	49929204	49932872	-1	RON, PTK8	CDw136, CD136
3	MST1R	ENSG00000164078	ENST00000467110	retained_intron	KNOWN	None	7381	None	None	49932864	49933571	-1	RON, PTK8	CDw136, CD136
3	MST1R	ENSG00000164078	ENST00000468525	retained_intron	KNOWN	None	7381	None	None	49933553	49941042	-1	RON, PTK8	CDw136, CD136
3	MST1R	ENSG00000164078	ENST00000493535	retained_intron	KNOWN	None	7381	None	None	49935420	49941042	-1	RON, PTK8	CDw136, CD136
3	MST1R	ENSG00000164078	ENST00000485044	retained_intron	KNOWN	None	7381	None	None	49935420	49941042	-1	RON, PTK8	CDw136, CD136
3	MST1R	ENSG00000164078	ENST00000497001	retained_intron	KNOWN	None	7381	None	None	49936439	49941042	-1	RON, PTK8	CDw136, CD136
12	PFDN5	ENSG00000123349	ENST00000551018	protein_coding	KNOWN	CCDS8853	8869	465	154	53689075	53693234	1	None	PFD5, MM-1
12	PFDN5	ENSG00000123349	ENST00000550880	nonsense_mediated_decay	KNOWN	None	8869	114	37	53689309	53693229	1	None	PFD5, MM-1
12	PFDN5	ENSG00000123349	ENST00000351500	protein_coding	NOVEL	CCDS8854	8869	330	109	53689309	53693234	1	None	PFD5, MM-1
12	PFDN5	ENSG00000123349	ENST00000550069	retained_intron	KNOWN	None	8869	None	None	53689311	53690108	1	None	PFD5, MM-1
12	PFDN5	ENSG00000123349	ENST00000550846	protein_coding	NOVEL	None	8869	255	84	53689320	53693234	1	None	PFD5, MM-1
12	PFDN5	ENSG00000123349	ENST00000551223	retained_intron	KNOWN	None	8869	None	None	53689326	53690490	1	None	PFD5, MM-1
12	PFDN5	ENSG00000123349	ENST00000552341	retained_intron	KNOWN	None	8869	None	None	53689326	53693230	1	None	PFD5, MM-1
12	PFDN5	ENSG00000123349	ENST00000547130	nonsense_mediated_decay	KNOWN	None	8869	90	29	53689326	53693234	1	None	PFD5, MM-1
12	PFDN5	ENSG00000123349	ENST00000243040	nonsense_mediated_decay	KNOWN	None	8869	201	66	53689326	53693234	1	None	PFD5, MM-1
12	PFDN5	ENSG00000123349	ENST00000549995	retained_intron	KNOWN	None	8869	None	None	53689332	53691549	1	None	PFD5, MM-1
12	PFDN5	ENSG00000123349	ENST00000334478	protein_coding	NOVEL	CCDS8853	8869	465	154	53689336	53693234	1	None	PFD5, MM-1
12	PFDN5	ENSG00000123349	ENST00000552742	nonsense_mediated_decay	KNOWN	None	8869	90	29	53689340	53693234	1	None	PFD5, MM-1
12	PFDN5	ENSG00000123349	ENST00000550513	retained_intron	KNOWN	None	8869	None	None	53689343	53691708	1	None	PFD5, MM-1
12	PFDN5	ENSG00000123349	ENST00000547228	retained_intron	KNOWN	None	8869	None	None	53689360	53691188	1	None	PFD5, MM-1
12	PFDN5	ENSG00000123349	ENST00000549759	protein_coding	NOVEL	None	8869	457	151	53689366	53693231	1	None	PFD5, MM-1
12	PFDN5	ENSG00000123349	ENST00000552548	retained_intron	KNOWN	None	8869	None	None	53689819	53693127	1	None	PFD5, MM-1
12	PFDN5	ENSG00000123349	ENST00000550964	retained_intron	KNOWN	None	8869	None	None	53691397	53693230	1	None	PFD5, MM-1
12	PFDN5	ENSG00000123349	ENST00000548984	retained_intron	KNOWN	None	8869	None	None	53691572	53693230	1	None	PFD5, MM-1
12	PFDN5	ENSG00000123349	ENST00000553171	retained_intron	KNOWN	None	8869	None	None	53691669	53692272	1	None	PFD5, MM-1
10	FXYD4	ENSG00000150201	ENST00000476166	protein_coding	KNOWN	CCDS7203	4028	270	89	43867090	43871780	1	None	CHIF
10	FXYD4	ENSG00000150201	ENST00000480834	processed_transcript	KNOWN	None	4028	None	None	43867101	43871780	1	None	CHIF
10	FXYD4	ENSG00000150201	ENST00000479189	processed_transcript	KNOWN	None	4028	None	None	43869917	43871783	1	None	CHIF
1	DOCK7	ENSG00000116641	ENST00000454575	protein_coding	KNOWN	None	19190	3910	1302	62920569	63021605	-1	None	KIAA1771, ZIR2
1	DOCK7	ENSG00000116641	ENST00000340370	protein_coding	KNOWN	CCDS30734	19190	6330	2109	62920569	63153953	-1	None	KIAA1771, ZIR2
1	DOCK7	ENSG00000116641	ENST00000489185	processed_transcript	KNOWN	None	19190	None	None	62939681	62944675	-1	None	KIAA1771, ZIR2
1	DOCK7	ENSG00000116641	ENST00000467758	processed_transcript	KNOWN	None	19190	None	None	62940883	62941860	-1	None	KIAA1771, ZIR2
1	DOCK7	ENSG00000116641	ENST00000479983	processed_transcript	KNOWN	None	19190	None	None	62957977	62960969	-1	None	KIAA1771, ZIR2
1	DOCK7	ENSG00000116641	ENST00000404627	protein_coding	KNOWN	None	19190	1899	632	63049777	63153953	-1	None	KIAA1771, ZIR2
1	DOCK7	ENSG00000116641	ENST00000464312	processed_transcript	KNOWN	None	19190	None	None	63090769	63099217	-1	None	KIAA1771, ZIR2
1	DOCK7	ENSG00000116641	ENST00000251157	protein_coding	KNOWN	None	19190	6390	2129	62920399	63153969	-1	None	KIAA1771, ZIR2
1	RXFP4	ENSG00000173080	ENST00000368318	protein_coding	KNOWN	CCDS1124	14666	1125	374	155911480	155912625	1	GPR100, RLN3R2	GPCR142, RXFPR4
15	RAB27A	ENSG00000069974	ENST00000396307	protein_coding	KNOWN	CCDS10153	9766	666	221	55495164	55562592	-1	None	RAB27, RAM, GS2, HsT18676
15	RAB27A	ENSG00000069974	ENST00000564609	protein_coding	KNOWN	CCDS10153	9766	666	221	55497547	55562484	-1	None	RAB27, RAM, GS2, HsT18676
15	RAB27A	ENSG00000069974	ENST00000569493	protein_coding	KNOWN	CCDS10153	9766	666	221	55497551	55563107	-1	None	RAB27, RAM, GS2, HsT18676
15	RAB27A	ENSG00000069974	ENST00000566877	protein_coding	KNOWN	None	9766	557	184	55497814	55541233	-1	None	RAB27, RAM, GS2, HsT18676
15	RAB27A	ENSG00000069974	ENST00000567380	protein_coding	KNOWN	None	9766	440	145	55516114	55563072	-1	None	RAB27, RAM, GS2, HsT18676
15	RAB27A	ENSG00000069974	ENST00000565972	protein_coding	KNOWN	None	9766	408	135	55516146	55563099	-1	None	RAB27, RAM, GS2, HsT18676
15	RAB27A	ENSG00000069974	ENST00000563262	protein_coding	KNOWN	None	9766	286	94	55520864	55611311	-1	None	RAB27, RAM, GS2, HsT18676
15	RAB27A	ENSG00000069974	ENST00000568803	protein_coding	KNOWN	None	9766	215	70	55522623	55562454	-1	None	RAB27, RAM, GS2, HsT18676
15	RAB27A	ENSG00000069974	ENST00000567639	retained_intron	KNOWN	None	9766	None	None	55530316	55582011	-1	None	RAB27, RAM, GS2, HsT18676
15	RAB27A	ENSG00000069974	ENST00000565776	retained_intron	KNOWN	None	9766	None	None	55561992	55581989	-1	None	RAB27, RAM, GS2, HsT18676
15	RAB27A	ENSG00000069974	ENST00000561545	processed_transcript	PUTATIVE	None	9766	None	None	55582086	55611308	-1	None	RAB27, RAM, GS2, HsT18676
15	RAB27A	ENSG00000069974	ENST00000336787	protein_coding	KNOWN	CCDS10153	9766	666	221	55495802	55582001	-1	None	RAB27, RAM, GS2, HsT18676
2	TRAK2	ENSG00000115993	ENST00000332624	protein_coding	KNOWN	CCDS2347	13206	2745	914	202241930	202316302	-1	ALS2CR3	CALS-C, KIAA0549, GRIF-1, OIP98, MILT2
2	TRAK2	ENSG00000115993	ENST00000430254	protein_coding	NOVEL	None	13206	936	311	202259851	202316223	-1	ALS2CR3	CALS-C, KIAA0549, GRIF-1, OIP98, MILT2
2	TRAK2	ENSG00000115993	ENST00000486291	retained_intron	KNOWN	None	13206	None	None	202262329	202264233	-1	ALS2CR3	CALS-C, KIAA0549, GRIF-1, OIP98, MILT2
2	TRAK2	ENSG00000115993	ENST00000451703	processed_transcript	PUTATIVE	None	13206	None	None	202283920	202316176	-1	ALS2CR3	CALS-C, KIAA0549, GRIF-1, OIP98, MILT2
2	TRAK2	ENSG00000115993	ENST00000440597	protein_coding	KNOWN	None	13206	91	29	202285140	202298277	-1	ALS2CR3	CALS-C, KIAA0549, GRIF-1, OIP98, MILT2
1	ARID4B	ENSG00000054267	ENST00000474953	nonsense_mediated_decay	KNOWN	None	15550	2089	695	235294949	235357392	-1	RBP1L1	BCAA, BRCAA1, SAP180
1	ARID4B	ENSG00000054267	ENST00000349213	protein_coding	KNOWN	CCDS31060	15550	3681	1226	235330210	235491534	-1	RBP1L1	BCAA, BRCAA1, SAP180
1	ARID4B	ENSG00000054267	ENST00000366603	protein_coding	KNOWN	CCDS31061	15550	3939	1312	235330210	235490802	-1	RBP1L1	BCAA, BRCAA1, SAP180
1	ARID4B	ENSG00000054267	ENST00000421364	nonsense_mediated_decay	KNOWN	None	15550	3462	1153	235331199	235491449	-1	RBP1L1	BCAA, BRCAA1, SAP180
1	ARID4B	ENSG00000054267	ENST00000474401	retained_intron	KNOWN	None	15550	None	None	235335962	235338958	-1	RBP1L1	BCAA, BRCAA1, SAP180
1	ARID4B	ENSG00000054267	ENST00000491632	retained_intron	KNOWN	None	15550	None	None	235340931	235491483	-1	RBP1L1	BCAA, BRCAA1, SAP180
1	ARID4B	ENSG00000054267	ENST00000444620	protein_coding	PUTATIVE	None	15550	1647	548	235341115	235377231	-1	RBP1L1	BCAA, BRCAA1, SAP180
1	ARID4B	ENSG00000054267	ENST00000494543	processed_transcript	KNOWN	None	15550	None	None	235341171	235345180	-1	RBP1L1	BCAA, BRCAA1, SAP180
1	ARID4B	ENSG00000054267	ENST00000471257	retained_intron	KNOWN	None	15550	None	None	235343454	235397807	-1	RBP1L1	BCAA, BRCAA1, SAP180
1	ARID4B	ENSG00000054267	ENST00000418304	protein_coding	KNOWN	None	15550	1449	482	235383242	235491511	-1	RBP1L1	BCAA, BRCAA1, SAP180
1	ARID4B	ENSG00000054267	ENST00000466653	retained_intron	KNOWN	None	15550	None	None	235391626	235491532	-1	RBP1L1	BCAA, BRCAA1, SAP180
1	ARID4B	ENSG00000054267	ENST00000462969	retained_intron	KNOWN	None	15550	None	None	235490106	235491178	-1	RBP1L1	BCAA, BRCAA1, SAP180
1	ARID4B	ENSG00000054267	ENST00000264183	protein_coding	KNOWN	CCDS31061	15550	3939	1312	235330210	235491532	-1	RBP1L1	BCAA, BRCAA1, SAP180
11	UBE2L6	ENSG00000156587	ENST00000340573	protein_coding	KNOWN	CCDS7961	12490	264	87	57319129	57335757	-1	None	UBCH8
11	UBE2L6	ENSG00000156587	ENST00000287156	protein_coding	KNOWN	CCDS7960	12490	462	153	57319135	57335280	-1	None	UBCH8
11	UBE2L6	ENSG00000156587	ENST00000528275	retained_intron	KNOWN	None	12490	None	None	57319745	57327989	-1	None	UBCH8
11	UBE2L6	ENSG00000156587	ENST00000527022	protein_coding	KNOWN	None	12490	197	64	57319898	57334799	-1	None	UBCH8
11	UBE2L6	ENSG00000156587	ENST00000526659	protein_coding	PUTATIVE	None	12490	382	126	57319932	57334776	-1	None	UBCH8
3	None	ENSG00000272305	ENST00000607495	nonsense_mediated_decay	KNOWN	None	None	101	32	53003135	53133469	-1	None	None
3	None	ENSG00000272305	ENST00000607283	nonsense_mediated_decay	KNOWN	None	None	371	122	53053032	53133469	-1	None	None
3	None	ENSG00000272305	ENST00000607203	nonsense_mediated_decay	KNOWN	None	None	77	24	53080475	53133469	-1	None	None
2	SLC4A5	ENSG00000188687	ENST00000483195	processed_transcript	KNOWN	None	18168	None	None	74443369	74566839	-1	None	NBC4
2	SLC4A5	ENSG00000188687	ENST00000394019	protein_coding	KNOWN	CCDS1937	18168	3366	1121	74443369	74570534	-1	None	NBC4
2	SLC4A5	ENSG00000188687	ENST00000480696	processed_transcript	KNOWN	None	18168	None	None	74444786	74454177	-1	None	NBC4
2	SLC4A5	ENSG00000188687	ENST00000358683	protein_coding	NOVEL	None	18168	3060	1019	74448561	74555293	-1	None	NBC4
2	SLC4A5	ENSG00000188687	ENST00000377632	protein_coding	NOVEL	None	18168	3123	1040	74448594	74542150	-1	None	NBC4
2	SLC4A5	ENSG00000188687	ENST00000377634	protein_coding	KNOWN	CCDS1936	18168	3414	1137	74448594	74570536	-1	None	NBC4
2	SLC4A5	ENSG00000188687	ENST00000425249	protein_coding	NOVEL	None	18168	2891	962	74452045	74561266	-1	None	NBC4
2	SLC4A5	ENSG00000188687	ENST00000479776	retained_intron	KNOWN	None	18168	None	None	74475482	74477914	-1	None	NBC4
2	SLC4A5	ENSG00000188687	ENST00000432728	protein_coding	PUTATIVE	None	18168	366	121	74491275	74517832	-1	None	NBC4
2	SLC4A5	ENSG00000188687	ENST00000444570	protein_coding	KNOWN	None	18168	434	143	74492359	74555362	-1	None	NBC4
2	SLC4A5	ENSG00000188687	ENST00000436454	protein_coding	KNOWN	None	18168	389	128	74512912	74570541	-1	None	NBC4
2	SLC4A5	ENSG00000188687	ENST00000346834	protein_coding	KNOWN	None	18168	3123	1040	74443370	74570534	-1	None	NBC4
2	SLC4A5	ENSG00000188687	ENST00000359484	protein_coding	KNOWN	None	18168	3060	1019	74443370	74570534	-1	None	NBC4
2	SLC4A5	ENSG00000188687	ENST00000357822	protein_coding	KNOWN	CCDS1936	18168	3414	1137	74448561	74542152	-1	None	NBC4
2	SLC4A5	ENSG00000188687	ENST00000423644	protein_coding	KNOWN	None	18168	2982	993	74443370	74570534	-1	None	NBC4
14	FLVCR2	ENSG00000119686	ENST00000238667	protein_coding	KNOWN	CCDS9844	20105	1581	526	76044960	76114507	1	C14orf58	FLJ20371, MFSD7C
14	FLVCR2	ENSG00000119686	ENST00000554496	processed_transcript	PUTATIVE	None	20105	None	None	76045799	76112998	1	C14orf58	FLJ20371, MFSD7C
14	FLVCR2	ENSG00000119686	ENST00000555385	processed_transcript	PUTATIVE	None	20105	None	None	76045927	76129557	1	C14orf58	FLJ20371, MFSD7C
14	FLVCR2	ENSG00000119686	ENST00000539311	protein_coding	NOVEL	CCDS55933	20105	966	321	76071805	76112961	1	C14orf58	FLJ20371, MFSD7C
14	FLVCR2	ENSG00000119686	ENST00000555058	protein_coding	PUTATIVE	None	20105	265	87	76072158	76100040	1	C14orf58	FLJ20371, MFSD7C
14	FLVCR2	ENSG00000119686	ENST00000553341	protein_coding	PUTATIVE	None	20105	611	202	76088401	76108240	1	C14orf58	FLJ20371, MFSD7C
14	FLVCR2	ENSG00000119686	ENST00000556241	processed_transcript	KNOWN	None	20105	None	None	76088401	76129507	1	C14orf58	FLJ20371, MFSD7C
14	FLVCR2	ENSG00000119686	ENST00000553587	protein_coding	PUTATIVE	None	20105	402	133	76088403	76129507	1	C14orf58	FLJ20371, MFSD7C
14	FLVCR2	ENSG00000119686	ENST00000556856	protein_coding	PUTATIVE	None	20105	282	93	76088435	76113493	1	C14orf58	FLJ20371, MFSD7C
14	FLVCR2	ENSG00000119686	ENST00000554580	protein_coding	PUTATIVE	None	20105	609	202	76098057	76108241	1	C14orf58	FLJ20371, MFSD7C
14	FLVCR2	ENSG00000119686	ENST00000555027	protein_coding	PUTATIVE	None	20105	726	241	76098953	76112976	1	C14orf58	FLJ20371, MFSD7C
14	FLVCR2	ENSG00000119686	ENST00000556409	retained_intron	KNOWN	None	20105	None	None	76098970	76105805	1	C14orf58	FLJ20371, MFSD7C
14	FLVCR2	ENSG00000119686	ENST00000556745	retained_intron	KNOWN	None	20105	None	None	76107075	76108319	1	C14orf58	FLJ20371, MFSD7C
15	CRTC3	ENSG00000140577	ENST00000420329	protein_coding	KNOWN	CCDS45348	26148	1857	618	91073157	91188577	1	None	FLJ21868
15	CRTC3	ENSG00000140577	ENST00000560098	protein_coding	PUTATIVE	None	26148	276	91	91073200	91142767	1	None	FLJ21868
15	CRTC3	ENSG00000140577	ENST00000561218	processed_transcript	KNOWN	None	26148	None	None	91073295	91143878	1	None	FLJ21868
15	CRTC3	ENSG00000140577	ENST00000268184	protein_coding	KNOWN	CCDS32331	26148	1860	619	91073300	91186045	1	None	FLJ21868
15	CRTC3	ENSG00000140577	ENST00000558619	processed_transcript	KNOWN	None	26148	None	None	91073764	91150642	1	None	FLJ21868
15	CRTC3	ENSG00000140577	ENST00000560927	retained_intron	KNOWN	None	26148	None	None	91082849	91138809	1	None	FLJ21868
15	CRTC3	ENSG00000140577	ENST00000561119	retained_intron	KNOWN	None	26148	None	None	91136944	91161438	1	None	FLJ21868
15	CRTC3	ENSG00000140577	ENST00000558005	protein_coding	NOVEL	None	26148	570	189	91136945	91169172	1	None	FLJ21868
15	CRTC3	ENSG00000140577	ENST00000561290	processed_transcript	PUTATIVE	None	26148	None	None	91141075	91142143	1	None	FLJ21868
15	CRTC3	ENSG00000140577	ENST00000558496	processed_transcript	KNOWN	None	26148	None	None	91141106	91147636	1	None	FLJ21868
15	CRTC3	ENSG00000140577	ENST00000561255	processed_transcript	KNOWN	None	26148	None	None	91141578	91169018	1	None	FLJ21868
15	CRTC3	ENSG00000140577	ENST00000560047	processed_transcript	KNOWN	None	26148	None	None	91156889	91163022	1	None	FLJ21868
15	CRTC3	ENSG00000140577	ENST00000560320	processed_transcript	KNOWN	None	26148	None	None	91168139	91172645	1	None	FLJ21868
15	CRTC3	ENSG00000140577	ENST00000558167	processed_transcript	KNOWN	None	26148	None	None	91181084	91181749	1	None	FLJ21868
16	SDR42E1	ENSG00000184860	ENST00000328945	protein_coding	KNOWN	CCDS42205	29834	1182	393	82031221	82045093	-1	None	HSPC105
16	SDR42E1	ENSG00000184860	ENST00000532128	protein_coding	PUTATIVE	None	29834	585	194	82033304	82045086	-1	None	HSPC105
16	SDR42E1	ENSG00000184860	ENST00000534209	processed_transcript	KNOWN	None	29834	None	None	82033360	82045070	-1	None	HSPC105
19	ZNF850	ENSG00000267041	ENST00000589390	protein_coding	PUTATIVE	None	27994	255	84	37205285	37263727	-1	ZNF850P	None
19	ZNF850	ENSG00000267041	ENST00000591344	protein_coding	KNOWN	CCDS59379	27994	3273	1090	37234387	37263716	-1	ZNF850P	None
14	CDKL1	ENSG00000100490	ENST00000395834	protein_coding	KNOWN	CCDS9699	1781	1077	358	50796310	50862617	-1	None	KKIALRE
14	CDKL1	ENSG00000100490	ENST00000525911	protein_coding	NOVEL	None	1781	210	69	50796830	50805747	-1	None	KKIALRE
14	CDKL1	ENSG00000100490	ENST00000534267	protein_coding	PUTATIVE	None	1781	421	139	50798644	50807847	-1	None	KKIALRE
14	CDKL1	ENSG00000100490	ENST00000216378	protein_coding	PUTATIVE	None	1781	831	276	50798645	50864122	-1	None	KKIALRE
14	CDKL1	ENSG00000100490	ENST00000356146	processed_transcript	KNOWN	None	1781	None	None	50802711	50883179	-1	None	KKIALRE
14	CDKL1	ENSG00000100490	ENST00000542671	processed_transcript	KNOWN	None	1781	None	None	50805664	50809208	-1	None	KKIALRE
14	CDKL1	ENSG00000100490	ENST00000529347	retained_intron	KNOWN	None	1781	None	None	50807756	50809327	-1	None	KKIALRE
14	CDKL1	ENSG00000100490	ENST00000528197	processed_transcript	KNOWN	None	1781	None	None	50807890	50830694	-1	None	KKIALRE
14	CDKL1	ENSG00000100490	ENST00000531052	processed_transcript	PUTATIVE	None	1781	None	None	50823778	50862794	-1	None	KKIALRE
14	CDKL1	ENSG00000100490	ENST00000530553	processed_transcript	PUTATIVE	None	1781	None	None	50862876	50863599	-1	None	KKIALRE
14	CDKL1	ENSG00000100490	ENST00000534566	processed_transcript	PUTATIVE	None	1781	None	None	50862919	50863604	-1	None	KKIALRE
6	ABHD16A	ENSG00000204427	ENST00000395952	protein_coding	KNOWN	CCDS4713	13921	1677	558	31654726	31671221	-1	BAT5	NG26, D6S82E
6	ABHD16A	ENSG00000204427	ENST00000468205	retained_intron	KNOWN	None	13921	None	None	31654732	31656166	-1	BAT5	NG26, D6S82E
6	ABHD16A	ENSG00000204427	ENST00000475742	retained_intron	KNOWN	None	13921	None	None	31654732	31658379	-1	BAT5	NG26, D6S82E
6	ABHD16A	ENSG00000204427	ENST00000492084	nonsense_mediated_decay	KNOWN	None	13921	198	65	31654736	31670850	-1	BAT5	NG26, D6S82E
6	ABHD16A	ENSG00000204427	ENST00000495769	nonsense_mediated_decay	KNOWN	None	13921	198	65	31654766	31671117	-1	BAT5	NG26, D6S82E
6	ABHD16A	ENSG00000204427	ENST00000440843	protein_coding	PUTATIVE	CCDS54988	13921	1578	525	31654963	31670847	-1	BAT5	NG26, D6S82E
6	ABHD16A	ENSG00000204427	ENST00000490209	retained_intron	KNOWN	None	13921	None	None	31655164	31656098	-1	BAT5	NG26, D6S82E
6	ABHD16A	ENSG00000204427	ENST00000474007	retained_intron	KNOWN	None	13921	None	None	31655352	31656080	-1	BAT5	NG26, D6S82E
6	ABHD16A	ENSG00000204427	ENST00000471644	processed_transcript	KNOWN	None	13921	None	None	31655430	31658022	-1	BAT5	NG26, D6S82E
6	ABHD16A	ENSG00000204427	ENST00000477016	retained_intron	KNOWN	None	13921	None	None	31655550	31659423	-1	BAT5	NG26, D6S82E
6	ABHD16A	ENSG00000204427	ENST00000498420	nonsense_mediated_decay	KNOWN	None	13921	141	46	31656792	31671133	-1	BAT5	NG26, D6S82E
6	ABHD16A	ENSG00000204427	ENST00000496579	retained_intron	KNOWN	None	13921	None	None	31659223	31660833	-1	BAT5	NG26, D6S82E
6	ABHD16A	ENSG00000204427	ENST00000492899	retained_intron	KNOWN	None	13921	None	None	31659366	31660071	-1	BAT5	NG26, D6S82E
6	ABHD16A	ENSG00000204427	ENST00000477462	nonsense_mediated_decay	KNOWN	None	13921	141	46	31659426	31671077	-1	BAT5	NG26, D6S82E
6	ABHD16A	ENSG00000204427	ENST00000482224	nonsense_mediated_decay	KNOWN	None	13921	198	65	31660529	31671088	-1	BAT5	NG26, D6S82E
6	ABHD16A	ENSG00000204427	ENST00000468037	nonsense_mediated_decay	KNOWN	None	13921	198	65	31660671	31670761	-1	BAT5	NG26, D6S82E
6	ABHD16A	ENSG00000204427	ENST00000375842	protein_coding	KNOWN	None	13921	1020	339	31654736	31670850	-1	BAT5	NG26, D6S82E
6	ABHD16A	ENSG00000204427	ENST00000538874	protein_coding	KNOWN	None	13921	438	145	31660529	31671088	-1	BAT5	NG26, D6S82E
6	RIPPLY2	ENSG00000203877	ENST00000369689	protein_coding	KNOWN	CCDS34493	21390	387	128	84562985	84567234	1	C6orf159	dJ237I15.1
6	RIPPLY2	ENSG00000203877	ENST00000369687	protein_coding	KNOWN	None	21390	213	70	84563311	84567234	1	C6orf159	dJ237I15.1
19	None	ENSG00000267260	ENST00000590750	protein_coding	PUTATIVE	None	None	261	86	37264055	37267980	1	None	None
19	None	ENSG00000267260	ENST00000591531	nonsense_mediated_decay	KNOWN	None	None	158	51	37264092	37266613	1	None	None
3	RFT1	ENSG00000163933	ENST00000296292	protein_coding	KNOWN	CCDS2869	30220	1626	541	53122499	53164478	-1	None	None
3	RFT1	ENSG00000163933	ENST00000394738	protein_coding	NOVEL	None	30220	1509	502	53125681	53164469	-1	None	None
3	RFT1	ENSG00000163933	ENST00000471158	retained_intron	KNOWN	None	30220	None	None	53137589	53154037	-1	None	None
3	RFT1	ENSG00000163933	ENST00000467048	protein_coding	NOVEL	None	30220	875	290	53138058	53164427	-1	None	None
2	STRADB	ENSG00000082146	ENST00000458269	protein_coding	PUTATIVE	None	13205	582	193	202252581	202342836	1	ALS2CR2	CALS-21, PAPK, ILPIPA, ILPIP
2	STRADB	ENSG00000082146	ENST00000194530	protein_coding	KNOWN	CCDS2348	13205	1257	418	202316392	202345569	1	ALS2CR2	CALS-21, PAPK, ILPIPA, ILPIP
2	STRADB	ENSG00000082146	ENST00000488196	processed_transcript	KNOWN	None	13205	None	None	202316457	202323546	1	ALS2CR2	CALS-21, PAPK, ILPIPA, ILPIP
2	STRADB	ENSG00000082146	ENST00000447698	nonsense_mediated_decay	KNOWN	None	13205	114	37	202316457	202339430	1	ALS2CR2	CALS-21, PAPK, ILPIPA, ILPIP
2	STRADB	ENSG00000082146	ENST00000392249	protein_coding	KNOWN	CCDS56161	13205	1134	377	202316519	202345569	1	ALS2CR2	CALS-21, PAPK, ILPIPA, ILPIP
2	STRADB	ENSG00000082146	ENST00000484098	retained_intron	KNOWN	None	13205	None	None	202337580	202342448	1	ALS2CR2	CALS-21, PAPK, ILPIPA, ILPIP
2	STRADB	ENSG00000082146	ENST00000498648	retained_intron	KNOWN	None	13205	None	None	202339345	202342914	1	ALS2CR2	CALS-21, PAPK, ILPIPA, ILPIP
2	STRADB	ENSG00000082146	ENST00000468123	retained_intron	KNOWN	None	13205	None	None	202340394	202343290	1	ALS2CR2	CALS-21, PAPK, ILPIPA, ILPIP
2	STRADB	ENSG00000082146	ENST00000415688	protein_coding	PUTATIVE	None	13205	268	88	202342873	202345246	1	ALS2CR2	CALS-21, PAPK, ILPIPA, ILPIP
2	STRADB	ENSG00000082146	ENST00000466770	retained_intron	KNOWN	None	13205	None	None	202343865	202345071	1	ALS2CR2	CALS-21, PAPK, ILPIPA, ILPIP
19	ZNF790	ENSG00000197863	ENST00000356725	protein_coding	KNOWN	CCDS12496	33114	1911	636	37308330	37329286	-1	None	MGC62100, FLJ20350
19	ZNF790	ENSG00000197863	ENST00000528994	protein_coding	KNOWN	None	33114	537	178	37310709	37341215	-1	None	MGC62100, FLJ20350
19	ZNF790	ENSG00000197863	ENST00000586323	protein_coding	KNOWN	None	33114	420	139	37310826	37341689	-1	None	MGC62100, FLJ20350
19	ZNF790	ENSG00000197863	ENST00000525288	protein_coding	KNOWN	None	33114	407	134	37310839	37328997	-1	None	MGC62100, FLJ20350
19	ZNF790	ENSG00000197863	ENST00000527645	protein_coding	KNOWN	None	33114	149	48	37314267	37328929	-1	None	MGC62100, FLJ20350
10	HNRNPF	ENSG00000169813	ENST00000357065	protein_coding	KNOWN	CCDS7204	5039	1248	415	43881065	43903267	-1	HNRPF	None
10	HNRNPF	ENSG00000169813	ENST00000356053	protein_coding	KNOWN	CCDS7204	5039	1248	415	43881065	43904330	-1	HNRPF	None
10	HNRNPF	ENSG00000169813	ENST00000337970	protein_coding	KNOWN	CCDS7204	5039	1248	415	43881470	43904614	-1	HNRPF	None
10	HNRNPF	ENSG00000169813	ENST00000477108	processed_transcript	KNOWN	None	5039	None	None	43883037	43892726	-1	HNRPF	None
10	HNRNPF	ENSG00000169813	ENST00000498176	processed_transcript	KNOWN	None	5039	None	None	43883091	43892265	-1	HNRPF	None
10	HNRNPF	ENSG00000169813	ENST00000544000	protein_coding	KNOWN	CCDS7204	5039	1248	415	43881065	43892794	-1	HNRPF	None
10	HNRNPF	ENSG00000169813	ENST00000443950	protein_coding	KNOWN	CCDS7204	5039	1248	415	43881065	43892279	-1	HNRPF	None
1	ARHGEF2	ENSG00000116584	ENST00000313695	protein_coding	KNOWN	CCDS1125	682	2877	958	155916645	155947951	-1	None	LFP40, GEF-H1, KIAA0651, P40
1	ARHGEF2	ENSG00000116584	ENST00000361247	protein_coding	KNOWN	CCDS53376	682	2961	986	155916645	155948318	-1	None	LFP40, GEF-H1, KIAA0651, P40
1	ARHGEF2	ENSG00000116584	ENST00000368315	protein_coding	KNOWN	None	682	2964	987	155916646	155942133	-1	None	LFP40, GEF-H1, KIAA0651, P40
1	ARHGEF2	ENSG00000116584	ENST00000477754	processed_transcript	KNOWN	None	682	None	None	155916646	155972355	-1	None	LFP40, GEF-H1, KIAA0651, P40
1	ARHGEF2	ENSG00000116584	ENST00000470541	processed_transcript	KNOWN	None	682	None	None	155916647	155921324	-1	None	LFP40, GEF-H1, KIAA0651, P40
1	ARHGEF2	ENSG00000116584	ENST00000313667	protein_coding	KNOWN	CCDS53375	682	2958	985	155917733	155948218	-1	None	LFP40, GEF-H1, KIAA0651, P40
1	ARHGEF2	ENSG00000116584	ENST00000470975	processed_transcript	KNOWN	None	682	None	None	155921968	155931748	-1	None	LFP40, GEF-H1, KIAA0651, P40
1	ARHGEF2	ENSG00000116584	ENST00000474428	processed_transcript	KNOWN	None	682	None	None	155922458	155932414	-1	None	LFP40, GEF-H1, KIAA0651, P40
1	ARHGEF2	ENSG00000116584	ENST00000462460	processed_transcript	KNOWN	None	682	None	None	155924693	155939391	-1	None	LFP40, GEF-H1, KIAA0651, P40
1	ARHGEF2	ENSG00000116584	ENST00000470874	processed_transcript	KNOWN	None	682	None	None	155932918	155936270	-1	None	LFP40, GEF-H1, KIAA0651, P40
1	ARHGEF2	ENSG00000116584	ENST00000471589	processed_transcript	KNOWN	None	682	None	None	155932931	155948890	-1	None	LFP40, GEF-H1, KIAA0651, P40
1	ARHGEF2	ENSG00000116584	ENST00000497907	processed_transcript	KNOWN	None	682	None	None	155934779	155947960	-1	None	LFP40, GEF-H1, KIAA0651, P40
1	ARHGEF2	ENSG00000116584	ENST00000476273	processed_transcript	KNOWN	None	682	None	None	155934779	155948292	-1	None	LFP40, GEF-H1, KIAA0651, P40
1	ARHGEF2	ENSG00000116584	ENST00000487755	processed_transcript	KNOWN	None	682	None	None	155938011	155940854	-1	None	LFP40, GEF-H1, KIAA0651, P40
1	ARHGEF2	ENSG00000116584	ENST00000465079	processed_transcript	KNOWN	None	682	None	None	155938600	155948904	-1	None	LFP40, GEF-H1, KIAA0651, P40
1	ARHGEF2	ENSG00000116584	ENST00000495070	processed_transcript	KNOWN	None	682	None	None	155938947	155955154	-1	None	LFP40, GEF-H1, KIAA0651, P40
1	ARHGEF2	ENSG00000116584	ENST00000368316	protein_coding	KNOWN	CCDS1125	682	2877	958	155916646	155959864	-1	None	LFP40, GEF-H1, KIAA0651, P40
6	CYB5R4	ENSG00000065615	ENST00000369681	protein_coding	KNOWN	CCDS5000	20147	1566	521	84569362	84673238	1	NCB5OR	b5+b5R, dJ676J13.1
6	CYB5R4	ENSG00000065615	ENST00000369679	protein_coding	KNOWN	None	20147	330	109	84569375	84620015	1	NCB5OR	b5+b5R, dJ676J13.1
6	CYB5R4	ENSG00000065615	ENST00000479164	processed_transcript	KNOWN	None	20147	None	None	84635988	84665094	1	NCB5OR	b5+b5R, dJ676J13.1
1	ANGPTL3	ENSG00000132855	ENST00000371129	protein_coding	KNOWN	CCDS622	491	1383	460	63063158	63071830	1	ANGPT5	None
1	ANGPTL3	ENSG00000132855	ENST00000482591	processed_transcript	KNOWN	None	491	None	None	63066705	63068051	1	ANGPT5	None
1	ANGPTL3	ENSG00000132855	ENST00000493994	processed_transcript	PUTATIVE	None	491	None	None	63067991	63070329	1	ANGPT5	None
5	LRRC14B	ENSG00000185028	ENST00000328278	protein_coding	NOVEL	CCDS47184	37268	1545	514	191626	195468	1	None	None
5	CCDC127	ENSG00000164366	ENST00000296824	protein_coding	KNOWN	CCDS3852	30520	783	260	196986	218330	-1	None	FLJ25701
5	CCDC127	ENSG00000164366	ENST00000441693	protein_coding	KNOWN	None	30520	207	68	205988	217333	-1	None	FLJ25701
X	OGT	ENSG00000147162	ENST00000373719	protein_coding	KNOWN	CCDS14414	8127	3141	1046	70752933	70795747	1	None	O-GLCNAC, HRNT1, MGC22921, FLJ23071
X	OGT	ENSG00000147162	ENST00000488174	retained_intron	KNOWN	None	8127	None	None	70752954	70794505	1	None	O-GLCNAC, HRNT1, MGC22921, FLJ23071
X	OGT	ENSG00000147162	ENST00000373701	protein_coding	KNOWN	CCDS35502	8127	3111	1036	70752973	70793666	1	None	O-GLCNAC, HRNT1, MGC22921, FLJ23071
X	OGT	ENSG00000147162	ENST00000472270	retained_intron	KNOWN	None	8127	None	None	70752978	70756507	1	None	O-GLCNAC, HRNT1, MGC22921, FLJ23071
X	OGT	ENSG00000147162	ENST00000498566	processed_transcript	KNOWN	None	8127	None	None	70753150	70766130	1	None	O-GLCNAC, HRNT1, MGC22921, FLJ23071
X	OGT	ENSG00000147162	ENST00000444774	protein_coding	PUTATIVE	None	8127	469	155	70754151	70764474	1	None	O-GLCNAC, HRNT1, MGC22921, FLJ23071
X	OGT	ENSG00000147162	ENST00000455587	protein_coding	PUTATIVE	None	8127	632	209	70756864	70775064	1	None	O-GLCNAC, HRNT1, MGC22921, FLJ23071
X	OGT	ENSG00000147162	ENST00000459760	processed_transcript	KNOWN	None	8127	None	None	70773471	70776628	1	None	O-GLCNAC, HRNT1, MGC22921, FLJ23071
X	OGT	ENSG00000147162	ENST00000462638	retained_intron	KNOWN	None	8127	None	None	70775663	70776818	1	None	O-GLCNAC, HRNT1, MGC22921, FLJ23071
X	OGT	ENSG00000147162	ENST00000466181	retained_intron	KNOWN	None	8127	None	None	70776306	70776897	1	None	O-GLCNAC, HRNT1, MGC22921, FLJ23071
X	OGT	ENSG00000147162	ENST00000474633	retained_intron	KNOWN	None	8127	None	None	70784514	70787823	1	None	O-GLCNAC, HRNT1, MGC22921, FLJ23071
1	GGPS1	ENSG00000152904	ENST00000488594	protein_coding	KNOWN	CCDS1604	4249	903	300	235490665	235506408	1	None	GGPPS1
1	GGPS1	ENSG00000152904	ENST00000471812	protein_coding	KNOWN	None	4249	727	241	235491714	235505911	1	None	GGPPS1
1	GGPS1	ENSG00000152904	ENST00000282841	protein_coding	KNOWN	CCDS1604	4249	903	300	235491885	235507847	1	None	GGPPS1
1	GGPS1	ENSG00000152904	ENST00000391855	protein_coding	PUTATIVE	None	4249	741	246	235491886	235506453	1	None	GGPPS1
1	GGPS1	ENSG00000152904	ENST00000482013	processed_transcript	PUTATIVE	None	4249	None	None	235491888	235493299	1	None	GGPPS1
1	GGPS1	ENSG00000152904	ENST00000489692	processed_transcript	PUTATIVE	None	4249	None	None	235491905	235492744	1	None	GGPPS1
1	GGPS1	ENSG00000152904	ENST00000476121	protein_coding	KNOWN	CCDS1604	4249	903	300	235492331	235506380	1	None	GGPPS1
1	GGPS1	ENSG00000152904	ENST00000497327	protein_coding	KNOWN	None	4249	690	229	235492344	235505874	1	None	GGPPS1
1	GGPS1	ENSG00000152904	ENST00000358966	protein_coding	KNOWN	CCDS1604	4249	903	300	235491753	235507840	1	None	GGPPS1
1	None	ENSG00000269624	ENST00000593719	protein_coding	KNOWN	None	None	369	122	63073437	63075249	1	None	None
14	CINP	ENSG00000100865	ENST00000559504	nonsense_mediated_decay	KNOWN	None	23789	640	212	102808956	102825932	-1	None	MGC849
14	CINP	ENSG00000100865	ENST00000559514	nonsense_mediated_decay	KNOWN	CCDS9972	23789	639	212	102809363	102829253	-1	None	MGC849
14	CINP	ENSG00000100865	ENST00000560326	processed_transcript	KNOWN	None	23789	None	None	102813374	102814484	-1	None	MGC849
14	CINP	ENSG00000100865	ENST00000216756	protein_coding	KNOWN	CCDS9972	23789	639	212	102814619	102829229	-1	None	MGC849
14	CINP	ENSG00000100865	ENST00000536961	protein_coding	KNOWN	CCDS53914	23789	684	227	102814822	102829051	-1	None	MGC849
14	CINP	ENSG00000100865	ENST00000541568	protein_coding	KNOWN	CCDS53915	23789	357	118	102814848	102829205	-1	None	MGC849
14	CINP	ENSG00000100865	ENST00000561468	processed_transcript	KNOWN	None	23789	None	None	102816256	102829251	-1	None	MGC849
14	CINP	ENSG00000100865	ENST00000558764	nonsense_mediated_decay	KNOWN	None	23789	342	113	102816343	102829251	-1	None	MGC849
14	CINP	ENSG00000100865	ENST00000558523	retained_intron	KNOWN	None	23789	None	None	102821875	102829207	-1	None	MGC849
19	ELAVL1	ENSG00000066044	ENST00000407627	protein_coding	KNOWN	CCDS12193	3312	981	326	8023463	8070492	-1	HUR	HuR, Hua, MelG
19	ELAVL1	ENSG00000066044	ENST00000596154	protein_coding	PUTATIVE	None	3312	402	133	8025801	8045996	-1	HUR	HuR, Hua, MelG
19	ELAVL1	ENSG00000066044	ENST00000596459	protein_coding	KNOWN	CCDS12193	3312	981	326	8028043	8067087	-1	HUR	HuR, Hua, MelG
19	ELAVL1	ENSG00000066044	ENST00000593807	protein_coding	PUTATIVE	None	3312	462	153	8028514	8070543	-1	HUR	HuR, Hua, MelG
19	ELAVL1	ENSG00000066044	ENST00000595499	retained_intron	KNOWN	None	3312	None	None	8037772	8038669	-1	HUR	HuR, Hua, MelG
19	ELAVL1	ENSG00000066044	ENST00000351593	protein_coding	KNOWN	None	3312	1062	353	8028043	8067087	-1	HUR	HuR, Hua, MelG
1	ATG4C	ENSG00000125703	ENST00000443289	protein_coding	KNOWN	None	16040	455	150	63249806	63284736	1	AUTL1, APG4C	FLJ14867, AUTL3
1	ATG4C	ENSG00000125703	ENST00000317868	protein_coding	KNOWN	CCDS623	16040	1377	458	63249806	63331184	1	AUTL1, APG4C	FLJ14867, AUTL3
1	ATG4C	ENSG00000125703	ENST00000371120	protein_coding	KNOWN	CCDS623	16040	1377	458	63249806	63331184	1	AUTL1, APG4C	FLJ14867, AUTL3
1	ATG4C	ENSG00000125703	ENST00000371118	protein_coding	KNOWN	None	16040	569	188	63250904	63284850	1	AUTL1, APG4C	FLJ14867, AUTL3
1	ATG4C	ENSG00000125703	ENST00000414558	protein_coding	PUTATIVE	None	16040	332	109	63286854	63301200	1	AUTL1, APG4C	FLJ14867, AUTL3
9	IL11RA	ENSG00000137070	ENST00000555003	protein_coding	KNOWN	CCDS6567	5967	1269	422	34650699	34661878	1	None	None
9	IL11RA	ENSG00000137070	ENST00000555247	nonsense_mediated_decay	KNOWN	None	5967	165	54	34652159	34661884	1	None	None
9	IL11RA	ENSG00000137070	ENST00000441545	protein_coding	KNOWN	CCDS6567	5967	1269	422	34652189	34661884	1	None	None
9	IL11RA	ENSG00000137070	ENST00000553620	protein_coding	NOVEL	None	5967	457	151	34652197	34658558	1	None	None
9	IL11RA	ENSG00000137070	ENST00000556792	protein_coding	KNOWN	None	5967	419	138	34653861	34657119	1	None	None
9	IL11RA	ENSG00000137070	ENST00000318041	protein_coding	KNOWN	CCDS6567	5967	1269	422	34653932	34661889	1	None	None
9	IL11RA	ENSG00000137070	ENST00000478308	retained_intron	KNOWN	None	5967	None	None	34653939	34656817	1	None	None
9	IL11RA	ENSG00000137070	ENST00000557298	nonsense_mediated_decay	KNOWN	None	5967	207	68	34653943	34661847	1	None	None
9	IL11RA	ENSG00000137070	ENST00000556531	protein_coding	KNOWN	None	5967	501	166	34655032	34657439	1	None	None
9	IL11RA	ENSG00000137070	ENST00000555981	protein_coding	KNOWN	None	5967	810	269	34655081	34658680	1	None	None
9	IL11RA	ENSG00000137070	ENST00000555579	retained_intron	KNOWN	None	5967	None	None	34655128	34655934	1	None	None
9	IL11RA	ENSG00000137070	ENST00000478802	processed_transcript	KNOWN	None	5967	None	None	34655215	34657514	1	None	None
9	IL11RA	ENSG00000137070	ENST00000602473	protein_coding	KNOWN	None	5967	1173	390	34655215	34660816	1	None	None
9	IL11RA	ENSG00000137070	ENST00000553969	retained_intron	KNOWN	None	5967	None	None	34655409	34656947	1	None	None
9	IL11RA	ENSG00000137070	ENST00000466082	nonsense_mediated_decay	KNOWN	None	5967	233	76	34659883	34661652	1	None	None
9	IL11RA	ENSG00000137070	ENST00000378817	protein_coding	KNOWN	None	5967	1173	390	34653932	34660813	1	None	None
2	ALS2CR11	ENSG00000155754	ENST00000286195	protein_coding	KNOWN	CCDS2349	14438	1872	623	202352148	202483898	-1	None	FLJ25351
2	ALS2CR11	ENSG00000155754	ENST00000439802	protein_coding	KNOWN	CCDS54428	14438	1188	395	202352248	202483877	-1	None	FLJ25351
2	ALS2CR11	ENSG00000155754	ENST00000439140	protein_coding	NOVEL	CCDS54430	14438	5463	1820	202352331	202483898	-1	None	FLJ25351
2	ALS2CR11	ENSG00000155754	ENST00000482942	processed_transcript	KNOWN	None	14438	None	None	202352524	202376550	-1	None	FLJ25351
2	ALS2CR11	ENSG00000155754	ENST00000450242	protein_coding	NOVEL	CCDS54429	14438	1653	550	202399727	202483901	-1	None	FLJ25351
1	TBCE	ENSG00000116957	ENST00000366601	protein_coding	KNOWN	CCDS1605	11582	1584	527	235530675	235612283	1	KCS	HRD, KCS1, pac2
1	TBCE	ENSG00000116957	ENST00000482230	processed_transcript	KNOWN	None	11582	None	None	235530740	235599157	1	KCS	HRD, KCS1, pac2
1	TBCE	ENSG00000116957	ENST00000472011	processed_transcript	KNOWN	None	11582	None	None	235530770	235612281	1	KCS	HRD, KCS1, pac2
1	TBCE	ENSG00000116957	ENST00000461651	processed_transcript	KNOWN	None	11582	None	None	235581783	235596381	1	KCS	HRD, KCS1, pac2
1	TBCE	ENSG00000116957	ENST00000465463	processed_transcript	KNOWN	None	11582	None	None	235605019	235611887	1	KCS	HRD, KCS1, pac2
1	TBCE	ENSG00000116957	ENST00000406207	protein_coding	KNOWN	CCDS1605	11582	1584	527	235530728	235612278	1	KCS	HRD, KCS1, pac2
1	TBCE	ENSG00000116957	ENST00000543662	protein_coding	KNOWN	None	11582	1737	578	235530745	235612214	1	KCS	HRD, KCS1, pac2
16	SCNN1G	ENSG00000166828	ENST00000300061	protein_coding	KNOWN	CCDS10608	10602	1950	649	23194036	23228204	1	None	ENaCgamma, SCNEG
8	FAM150A	ENSG00000196711	ENST00000358543	protein_coding	KNOWN	CCDS6150	33775	390	129	53446597	53478067	-1	None	UNQ9433
8	FAM150A	ENSG00000196711	ENST00000523939	protein_coding	NOVEL	None	33775	336	111	53447102	53477968	-1	None	UNQ9433
11	SERPING1	ENSG00000149131	ENST00000405496	protein_coding	KNOWN	None	1228	481	159	57364860	57367781	1	C1NH	C1IN, C1-INH, HAE1, HAE2
11	SERPING1	ENSG00000149131	ENST00000278407	protein_coding	KNOWN	CCDS7962	1228	1503	500	57364991	57382326	1	C1NH	C1IN, C1-INH, HAE1, HAE2
11	SERPING1	ENSG00000149131	ENST00000457869	protein_coding	PUTATIVE	None	1228	367	121	57365154	57367565	1	C1NH	C1IN, C1-INH, HAE1, HAE2
11	SERPING1	ENSG00000149131	ENST00000340687	protein_coding	NOVEL	None	1228	1392	463	57365156	57382319	1	C1NH	C1IN, C1-INH, HAE1, HAE2
11	SERPING1	ENSG00000149131	ENST00000378323	protein_coding	NOVEL	None	1228	1518	505	57365161	57382212	1	C1NH	C1IN, C1-INH, HAE1, HAE2
11	SERPING1	ENSG00000149131	ENST00000378324	protein_coding	PUTATIVE	None	1228	1347	448	57365163	57382320	1	C1NH	C1IN, C1-INH, HAE1, HAE2
11	SERPING1	ENSG00000149131	ENST00000403558	protein_coding	NOVEL	None	1228	1632	543	57365276	57382287	1	C1NH	C1IN, C1-INH, HAE1, HAE2
11	SERPING1	ENSG00000149131	ENST00000531797	nonsense_mediated_decay	KNOWN	None	1228	132	43	57365706	57382263	1	C1NH	C1IN, C1-INH, HAE1, HAE2
11	SERPING1	ENSG00000149131	ENST00000531133	nonsense_mediated_decay	KNOWN	None	1228	132	43	57365744	57382054	1	C1NH	C1IN, C1-INH, HAE1, HAE2
11	SERPING1	ENSG00000149131	ENST00000531605	processed_transcript	KNOWN	None	1228	None	None	57369518	57373529	1	C1NH	C1IN, C1-INH, HAE1, HAE2
11	SERPING1	ENSG00000149131	ENST00000528996	nonsense_mediated_decay	KNOWN	None	1228	261	86	57373880	57382306	1	C1NH	C1IN, C1-INH, HAE1, HAE2
11	SERPING1	ENSG00000149131	ENST00000530113	retained_intron	KNOWN	None	1228	None	None	57378704	57382002	1	C1NH	C1IN, C1-INH, HAE1, HAE2
1	FOXD3	ENSG00000187140	ENST00000371116	protein_coding	KNOWN	CCDS624	3804	1437	478	63788730	63790797	1	None	Genesis, HFH2
19	PLD3	ENSG00000105223	ENST00000599685	protein_coding	KNOWN	None	17158	210	69	40854363	40872787	1	None	HU-K4
19	PLD3	ENSG00000105223	ENST00000600479	processed_transcript	KNOWN	None	17158	None	None	40854414	40872371	1	None	HU-K4
19	PLD3	ENSG00000105223	ENST00000392032	protein_coding	KNOWN	None	17158	386	127	40854491	40873743	1	None	HU-K4
19	PLD3	ENSG00000105223	ENST00000598962	protein_coding	KNOWN	None	17158	84	27	40854579	40872573	1	None	HU-K4
19	PLD3	ENSG00000105223	ENST00000409419	protein_coding	KNOWN	CCDS33027	17158	1473	490	40854585	40884382	1	None	HU-K4
19	PLD3	ENSG00000105223	ENST00000409587	protein_coding	KNOWN	CCDS33027	17158	1473	490	40854592	40884390	1	None	HU-K4
19	PLD3	ENSG00000105223	ENST00000594085	processed_transcript	KNOWN	None	17158	None	None	40854597	40872371	1	None	HU-K4
19	PLD3	ENSG00000105223	ENST00000602131	protein_coding	KNOWN	None	17158	359	118	40854597	40873716	1	None	HU-K4
19	PLD3	ENSG00000105223	ENST00000409735	protein_coding	KNOWN	CCDS33027	17158	1473	490	40854597	40884390	1	None	HU-K4
19	PLD3	ENSG00000105223	ENST00000600948	protein_coding	KNOWN	None	17158	133	43	40854607	40872710	1	None	HU-K4
19	PLD3	ENSG00000105223	ENST00000356508	protein_coding	KNOWN	CCDS33027	17158	1473	490	40854607	40884390	1	None	HU-K4
19	PLD3	ENSG00000105223	ENST00000596682	protein_coding	KNOWN	None	17158	245	80	40854611	40872822	1	None	HU-K4
19	PLD3	ENSG00000105223	ENST00000594908	protein_coding	KNOWN	None	17158	641	212	40854611	40876107	1	None	HU-K4
19	PLD3	ENSG00000105223	ENST00000409281	protein_coding	KNOWN	CCDS33027	17158	1473	490	40865549	40884390	1	None	HU-K4
19	PLD3	ENSG00000105223	ENST00000493006	retained_intron	KNOWN	None	17158	None	None	40871802	40873170	1	None	HU-K4
19	PLD3	ENSG00000105223	ENST00000359274	protein_coding	KNOWN	None	17158	533	176	40871901	40875918	1	None	HU-K4
19	PLD3	ENSG00000105223	ENST00000464586	retained_intron	KNOWN	None	17158	None	None	40872200	40872551	1	None	HU-K4
19	PLD3	ENSG00000105223	ENST00000485448	retained_intron	KNOWN	None	17158	None	None	40872345	40873751	1	None	HU-K4
19	PLD3	ENSG00000105223	ENST00000492243	nonsense_mediated_decay	KNOWN	None	17158	364	120	40872787	40877725	1	None	HU-K4
19	PLD3	ENSG00000105223	ENST00000599353	protein_coding	PUTATIVE	None	17158	332	109	40873617	40876135	1	None	HU-K4
19	PLD3	ENSG00000105223	ENST00000480030	retained_intron	KNOWN	None	17158	None	None	40875816	40876799	1	None	HU-K4
19	PLD3	ENSG00000105223	ENST00000475983	retained_intron	KNOWN	None	17158	None	None	40877384	40880721	1	None	HU-K4
19	PLD3	ENSG00000105223	ENST00000596470	protein_coding	PUTATIVE	None	17158	604	200	40877699	40884288	1	None	HU-K4
19	PLD3	ENSG00000105223	ENST00000488311	retained_intron	KNOWN	None	17158	None	None	40882174	40884034	1	None	HU-K4
19	PLD3	ENSG00000105223	ENST00000486134	nonsense_mediated_decay	KNOWN	None	17158	214	70	40883767	40886346	1	None	HU-K4
1	SSR2	ENSG00000163479	ENST00000295702	protein_coding	KNOWN	CCDS1126	11324	552	183	155978839	155990750	-1	None	TLAP, TRAPB
1	SSR2	ENSG00000163479	ENST00000472467	retained_intron	KNOWN	None	11324	None	None	155978840	155982831	-1	None	TLAP, TRAPB
1	SSR2	ENSG00000163479	ENST00000488179	retained_intron	KNOWN	None	11324	None	None	155978853	155989962	-1	None	TLAP, TRAPB
1	SSR2	ENSG00000163479	ENST00000529008	protein_coding	PUTATIVE	None	11324	282	93	155978877	155990708	-1	None	TLAP, TRAPB
1	SSR2	ENSG00000163479	ENST00000496742	protein_coding	PUTATIVE	None	11324	261	86	155978896	155990724	-1	None	TLAP, TRAPB
1	SSR2	ENSG00000163479	ENST00000484320	retained_intron	KNOWN	None	11324	None	None	155978898	155990703	-1	None	TLAP, TRAPB
1	SSR2	ENSG00000163479	ENST00000532074	retained_intron	KNOWN	None	11324	None	None	155978906	155990705	-1	None	TLAP, TRAPB
1	SSR2	ENSG00000163479	ENST00000480176	retained_intron	KNOWN	None	11324	None	None	155978920	155990726	-1	None	TLAP, TRAPB
1	SSR2	ENSG00000163479	ENST00000473699	nonsense_mediated_decay	KNOWN	None	11324	189	62	155979126	155990737	-1	None	TLAP, TRAPB
1	SSR2	ENSG00000163479	ENST00000480567	protein_coding	KNOWN	CCDS1126	11324	552	183	155979151	155990680	-1	None	TLAP, TRAPB
1	SSR2	ENSG00000163479	ENST00000531790	nonsense_mediated_decay	KNOWN	None	11324	273	90	155979341	155990703	-1	None	TLAP, TRAPB
1	SSR2	ENSG00000163479	ENST00000368311	retained_intron	KNOWN	None	11324	None	None	155980012	155990741	-1	None	TLAP, TRAPB
1	SSR2	ENSG00000163479	ENST00000472898	retained_intron	KNOWN	None	11324	None	None	155981372	155990719	-1	None	TLAP, TRAPB
1	SSR2	ENSG00000163479	ENST00000531917	protein_coding	KNOWN	None	11324	441	146	155981601	155990580	-1	None	TLAP, TRAPB
1	SSR2	ENSG00000163479	ENST00000474377	nonsense_mediated_decay	KNOWN	None	11324	402	133	155981601	155990705	-1	None	TLAP, TRAPB
1	SSR2	ENSG00000163479	ENST00000466905	nonsense_mediated_decay	KNOWN	None	11324	402	133	155981601	155990722	-1	None	TLAP, TRAPB
1	SSR2	ENSG00000163479	ENST00000526212	protein_coding	KNOWN	None	11324	254	83	155988061	155990694	-1	None	TLAP, TRAPB
1	SSR2	ENSG00000163479	ENST00000467041	retained_intron	KNOWN	None	11324	None	None	155989804	155990636	-1	None	TLAP, TRAPB
9	SWI5	ENSG00000175854	ENST00000495313	protein_coding	PUTATIVE	None	31412	449	148	131037658	131051012	1	C9orf119	bA395P17.9
9	SWI5	ENSG00000175854	ENST00000372898	protein_coding	PUTATIVE	None	31412	437	144	131037718	131051257	1	C9orf119	bA395P17.9
9	SWI5	ENSG00000175854	ENST00000320188	protein_coding	KNOWN	CCDS43883	31412	708	235	131038425	131051269	1	C9orf119	bA395P17.9
9	SWI5	ENSG00000175854	ENST00000419867	retained_intron	KNOWN	None	31412	None	None	131038521	131048813	1	C9orf119	bA395P17.9
9	SWI5	ENSG00000175854	ENST00000418976	protein_coding	NOVEL	None	31412	490	162	131038523	131051268	1	C9orf119	bA395P17.9
15	TSPAN3	ENSG00000140391	ENST00000267970	protein_coding	KNOWN	CCDS10292	17752	762	253	77336359	77363570	-1	TM4SF8	TM4-A, TSPAN-3
15	TSPAN3	ENSG00000140391	ENST00000560715	retained_intron	KNOWN	None	17752	None	None	77338372	77348276	-1	TM4SF8	TM4-A, TSPAN-3
15	TSPAN3	ENSG00000140391	ENST00000346495	protein_coding	KNOWN	CCDS10293	17752	687	228	77338372	77363451	-1	TM4SF8	TM4-A, TSPAN-3
15	TSPAN3	ENSG00000140391	ENST00000424443	protein_coding	KNOWN	CCDS53963	17752	570	189	77338372	77363451	-1	TM4SF8	TM4-A, TSPAN-3
15	TSPAN3	ENSG00000140391	ENST00000561277	protein_coding	PUTATIVE	None	17752	138	45	77338402	77363464	-1	TM4SF8	TM4-A, TSPAN-3
15	TSPAN3	ENSG00000140391	ENST00000559494	protein_coding	NOVEL	None	17752	495	164	77338426	77363376	-1	TM4SF8	TM4-A, TSPAN-3
15	TSPAN3	ENSG00000140391	ENST00000558745	protein_coding	PUTATIVE	None	17752	138	45	77338674	77376326	-1	TM4SF8	TM4-A, TSPAN-3
15	TSPAN3	ENSG00000140391	ENST00000558394	processed_transcript	KNOWN	None	17752	None	None	77346523	77363451	-1	TM4SF8	TM4-A, TSPAN-3
15	TSPAN3	ENSG00000140391	ENST00000560514	retained_intron	KNOWN	None	17752	None	None	77348178	77363451	-1	TM4SF8	TM4-A, TSPAN-3
15	TSPAN3	ENSG00000140391	ENST00000559373	processed_transcript	PUTATIVE	None	17752	None	None	77362209	77363434	-1	TM4SF8	TM4-A, TSPAN-3
5	SDHA	ENSG00000073578	ENST00000264932	protein_coding	KNOWN	CCDS3853	10680	1995	664	218356	256815	1	SDH2	FP, SDHF
5	SDHA	ENSG00000073578	ENST00000504309	protein_coding	NOVEL	None	10680	1752	583	218418	256797	1	SDH2	FP, SDHF
5	SDHA	ENSG00000073578	ENST00000502379	retained_intron	KNOWN	None	10680	None	None	218426	224958	1	SDH2	FP, SDHF
5	SDHA	ENSG00000073578	ENST00000505555	retained_intron	KNOWN	None	10680	None	None	218431	251979	1	SDH2	FP, SDHF
5	SDHA	ENSG00000073578	ENST00000510361	protein_coding	NOVEL	None	10680	1851	616	218433	256794	1	SDH2	FP, SDHF
5	SDHA	ENSG00000073578	ENST00000509632	nonsense_mediated_decay	KNOWN	None	10680	270	89	218442	225677	1	SDH2	FP, SDHF
5	SDHA	ENSG00000073578	ENST00000504824	retained_intron	KNOWN	None	10680	None	None	218486	235639	1	SDH2	FP, SDHF
5	SDHA	ENSG00000073578	ENST00000509420	retained_intron	KNOWN	None	10680	None	None	225748	231006	1	SDH2	FP, SDHF
5	SDHA	ENSG00000073578	ENST00000514027	retained_intron	KNOWN	None	10680	None	None	227724	256794	1	SDH2	FP, SDHF
5	SDHA	ENSG00000073578	ENST00000514233	processed_transcript	KNOWN	None	10680	None	None	227741	233744	1	SDH2	FP, SDHF
5	SDHA	ENSG00000073578	ENST00000512962	retained_intron	KNOWN	None	10680	None	None	231058	236631	1	SDH2	FP, SDHF
5	SDHA	ENSG00000073578	ENST00000515752	retained_intron	KNOWN	None	10680	None	None	231058	256763	1	SDH2	FP, SDHF
5	SDHA	ENSG00000073578	ENST00000511810	retained_intron	KNOWN	None	10680	None	None	234536	256794	1	SDH2	FP, SDHF
5	SDHA	ENSG00000073578	ENST00000515815	protein_coding	PUTATIVE	None	10680	380	125	236628	256797	1	SDH2	FP, SDHF
5	SDHA	ENSG00000073578	ENST00000509082	processed_transcript	PUTATIVE	None	10680	None	None	240559	256797	1	SDH2	FP, SDHF
5	SDHA	ENSG00000073578	ENST00000503674	retained_intron	KNOWN	None	10680	None	None	249169	256794	1	SDH2	FP, SDHF
5	SDHA	ENSG00000073578	ENST00000507266	retained_intron	KNOWN	None	10680	None	None	250809	251474	1	SDH2	FP, SDHF
5	SDHA	ENSG00000073578	ENST00000509564	protein_coding	PUTATIVE	None	10680	306	101	251452	256797	1	SDH2	FP, SDHF
5	SDHA	ENSG00000073578	ENST00000507522	processed_transcript	KNOWN	None	10680	None	None	251456	256794	1	SDH2	FP, SDHF
1	B3GALNT2	ENSG00000162885	ENST00000366600	protein_coding	KNOWN	CCDS1606	28596	1503	500	235613238	235667781	-1	None	MGC39558
1	B3GALNT2	ENSG00000162885	ENST00000477694	processed_transcript	KNOWN	None	28596	None	None	235617524	235629116	-1	None	MGC39558
1	B3GALNT2	ENSG00000162885	ENST00000462374	processed_transcript	KNOWN	None	28596	None	None	235617599	235634244	-1	None	MGC39558
1	B3GALNT2	ENSG00000162885	ENST00000478199	processed_transcript	KNOWN	None	28596	None	None	235626772	235667725	-1	None	MGC39558
1	B3GALNT2	ENSG00000162885	ENST00000313984	protein_coding	KNOWN	None	28596	981	326	235628213	235667722	-1	None	MGC39558
1	B3GALNT2	ENSG00000162885	ENST00000494378	processed_transcript	KNOWN	None	28596	None	None	235642224	235667725	-1	None	MGC39558
1	B3GALNT2	ENSG00000162885	ENST00000461994	processed_transcript	KNOWN	None	28596	None	None	235643420	235647986	-1	None	MGC39558
19	CCL25	ENSG00000131142	ENST00000253451	protein_coding	KNOWN	CCDS56080	10624	450	149	8117651	8127506	1	SCYA25	TECK, Ckb15
19	CCL25	ENSG00000131142	ENST00000390669	protein_coding	KNOWN	CCDS12194	10624	453	150	8117884	8127530	1	SCYA25	TECK, Ckb15
19	CCL25	ENSG00000131142	ENST00000458625	nonsense_mediated_decay	KNOWN	None	10624	255	84	8117934	8127534	1	SCYA25	TECK, Ckb15
19	CCL25	ENSG00000131142	ENST00000315626	protein_coding	KNOWN	None	10624	255	84	8117651	8122748	1	SCYA25	TECK, Ckb15
17	CCDC57	ENSG00000176155	ENST00000584717	processed_transcript	PUTATIVE	None	27564	None	None	80059336	80064251	-1	None	FLJ00130, FLJ23754
17	CCDC57	ENSG00000176155	ENST00000583053	protein_coding	PUTATIVE	None	27564	136	44	80059346	80059726	-1	None	FLJ00130, FLJ23754
17	CCDC57	ENSG00000176155	ENST00000389641	protein_coding	KNOWN	None	27564	2751	916	80059346	80170689	-1	None	FLJ00130, FLJ23754
17	CCDC57	ENSG00000176155	ENST00000392345	protein_coding	PUTATIVE	None	27564	637	211	80059566	80086432	-1	None	FLJ00130, FLJ23754
17	CCDC57	ENSG00000176155	ENST00000583593	nonsense_mediated_decay	KNOWN	None	27564	165	54	80059628	80085694	-1	None	FLJ00130, FLJ23754
17	CCDC57	ENSG00000176155	ENST00000582100	processed_transcript	PUTATIVE	None	27564	None	None	80062671	80064463	-1	None	FLJ00130, FLJ23754
17	CCDC57	ENSG00000176155	ENST00000392346	protein_coding	PUTATIVE	None	27564	1059	352	80069862	80110175	-1	None	FLJ00130, FLJ23754
17	CCDC57	ENSG00000176155	ENST00000419322	protein_coding	PUTATIVE	None	27564	1471	489	80069862	80129608	-1	None	FLJ00130, FLJ23754
17	CCDC57	ENSG00000176155	ENST00000483145	processed_transcript	PUTATIVE	None	27564	None	None	80085581	80092219	-1	None	FLJ00130, FLJ23754
17	CCDC57	ENSG00000176155	ENST00000582040	processed_transcript	PUTATIVE	None	27564	None	None	80092988	80109482	-1	None	FLJ00130, FLJ23754
17	CCDC57	ENSG00000176155	ENST00000327026	processed_transcript	KNOWN	None	27564	None	None	80111486	80143048	-1	None	FLJ00130, FLJ23754
17	CCDC57	ENSG00000176155	ENST00000475635	processed_transcript	PUTATIVE	None	27564	None	None	80113793	80114816	-1	None	FLJ00130, FLJ23754
17	CCDC57	ENSG00000176155	ENST00000392343	protein_coding	PUTATIVE	None	27564	2256	751	80115324	80170689	-1	None	FLJ00130, FLJ23754
17	CCDC57	ENSG00000176155	ENST00000577530	processed_transcript	KNOWN	None	27564	None	None	80121093	80133540	-1	None	FLJ00130, FLJ23754
17	CCDC57	ENSG00000176155	ENST00000578187	retained_intron	KNOWN	None	27564	None	None	80146100	80152131	-1	None	FLJ00130, FLJ23754
17	CCDC57	ENSG00000176155	ENST00000578910	retained_intron	KNOWN	None	27564	None	None	80146101	80156304	-1	None	FLJ00130, FLJ23754
17	CCDC57	ENSG00000176155	ENST00000581625	nonsense_mediated_decay	KNOWN	None	27564	106	34	80146226	80156298	-1	None	FLJ00130, FLJ23754
17	CCDC57	ENSG00000176155	ENST00000582885	processed_transcript	PUTATIVE	None	27564	None	None	80165439	80170706	-1	None	FLJ00130, FLJ23754
17	CCDC57	ENSG00000176155	ENST00000392347	protein_coding	KNOWN	None	27564	2751	916	80059346	80170689	-1	None	FLJ00130, FLJ23754
1	ALG6	ENSG00000088035	ENST00000371108	protein_coding	KNOWN	CCDS30735	23157	1524	507	63833261	63904233	1	None	None
1	ALG6	ENSG00000088035	ENST00000487136	nonsense_mediated_decay	KNOWN	None	23157	132	43	63833321	63868013	1	None	None
1	ALG6	ENSG00000088035	ENST00000603108	nonsense_mediated_decay	KNOWN	None	23157	846	281	63836441	63902846	1	None	None
1	ALG6	ENSG00000088035	ENST00000263440	protein_coding	NOVEL	None	23157	1530	509	63836441	63902848	1	None	None
1	ALG6	ENSG00000088035	ENST00000465969	processed_transcript	KNOWN	None	23157	None	None	63879327	63894797	1	None	None
1	ALG6	ENSG00000088035	ENST00000462390	processed_transcript	KNOWN	None	23157	None	None	63885065	63895500	1	None	None
1	ALG6	ENSG00000088035	ENST00000494765	processed_transcript	KNOWN	None	23157	None	None	63893909	63902804	1	None	None
1	GNG4	ENSG00000168243	ENST00000366597	protein_coding	KNOWN	CCDS1607	4407	228	75	235714132	235758779	-1	None	None
1	GNG4	ENSG00000168243	ENST00000366598	protein_coding	KNOWN	CCDS1607	4407	228	75	235714132	235814054	-1	None	None
1	GNG4	ENSG00000168243	ENST00000484517	processed_transcript	KNOWN	None	4407	None	None	235715054	235752259	-1	None	None
1	GNG4	ENSG00000168243	ENST00000450593	protein_coding	KNOWN	CCDS1607	4407	228	75	235710987	235814054	-1	None	None
1	GNG4	ENSG00000168243	ENST00000391854	protein_coding	KNOWN	CCDS1607	4407	228	75	235710987	235813293	-1	None	None
2	TMEM237	ENSG00000155755	ENST00000409444	protein_coding	KNOWN	CCDS46490	14432	1203	400	202484907	202507667	-1	ALS2CR4	JBTS14
2	TMEM237	ENSG00000155755	ENST00000409883	protein_coding	KNOWN	CCDS46489	14432	1227	408	202484907	202508240	-1	ALS2CR4	JBTS14
2	TMEM237	ENSG00000155755	ENST00000495329	retained_intron	KNOWN	None	14432	None	None	202484909	202491046	-1	ALS2CR4	JBTS14
2	TMEM237	ENSG00000155755	ENST00000286196	nonsense_mediated_decay	KNOWN	None	14432	357	118	202488479	202508207	-1	ALS2CR4	JBTS14
2	TMEM237	ENSG00000155755	ENST00000471318	processed_transcript	KNOWN	None	14432	None	None	202488605	202494143	-1	ALS2CR4	JBTS14
2	TMEM237	ENSG00000155755	ENST00000466641	processed_transcript	KNOWN	None	14432	None	None	202492083	202498126	-1	ALS2CR4	JBTS14
2	TMEM237	ENSG00000155755	ENST00000466839	processed_transcript	KNOWN	None	14432	None	None	202492110	202496098	-1	ALS2CR4	JBTS14
2	TMEM237	ENSG00000155755	ENST00000432684	nonsense_mediated_decay	KNOWN	None	14432	291	96	202494011	202508293	-1	ALS2CR4	JBTS14
2	TMEM237	ENSG00000155755	ENST00000444047	nonsense_mediated_decay	KNOWN	None	14432	291	96	202494453	202508125	-1	ALS2CR4	JBTS14
2	TMEM237	ENSG00000155755	ENST00000489550	processed_transcript	KNOWN	None	14432	None	None	202496872	202508141	-1	ALS2CR4	JBTS14
2	TMEM237	ENSG00000155755	ENST00000480124	retained_intron	KNOWN	None	14432	None	None	202500893	202503754	-1	ALS2CR4	JBTS14
2	TMEM237	ENSG00000155755	ENST00000463205	retained_intron	KNOWN	None	14432	None	None	202503174	202507376	-1	ALS2CR4	JBTS14
7	GCK	ENSG00000106633	ENST00000459642	retained_intron	KNOWN	None	4195	None	None	44183872	44185728	-1	MODY2	HK4
7	GCK	ENSG00000106633	ENST00000336642	protein_coding	NOVEL	None	4195	450	149	44183874	44185743	-1	MODY2	HK4
7	GCK	ENSG00000106633	ENST00000403799	protein_coding	KNOWN	CCDS5479	4195	1398	465	44183874	44229022	-1	MODY2	HK4
7	GCK	ENSG00000106633	ENST00000395796	protein_coding	KNOWN	CCDS5481	4195	1395	464	44183876	44198874	-1	MODY2	HK4
7	GCK	ENSG00000106633	ENST00000345378	protein_coding	KNOWN	CCDS5480	4195	1401	466	44183877	44198881	-1	MODY2	HK4
7	GCK	ENSG00000106633	ENST00000437084	protein_coding	NOVEL	None	4195	1347	448	44184731	44228586	-1	MODY2	HK4
7	GCK	ENSG00000106633	ENST00000473353	processed_transcript	KNOWN	None	4195	None	None	44185243	44186724	-1	MODY2	HK4
7	GCK	ENSG00000106633	ENST00000476008	processed_transcript	KNOWN	None	4195	None	None	44192990	44237769	-1	MODY2	HK4
8	RB1CC1	ENSG00000023287	ENST00000025008	protein_coding	KNOWN	CCDS34892	15574	4785	1594	53535016	53626992	-1	None	KIAA0203, Cc1, DRAGOU14, FIP200
8	RB1CC1	ENSG00000023287	ENST00000435644	protein_coding	KNOWN	CCDS47856	15574	4776	1591	53535019	53626983	-1	None	KIAA0203, Cc1, DRAGOU14, FIP200
8	RB1CC1	ENSG00000023287	ENST00000521611	processed_transcript	PUTATIVE	None	15574	None	None	53535889	53626997	-1	None	KIAA0203, Cc1, DRAGOU14, FIP200
8	RB1CC1	ENSG00000023287	ENST00000519912	protein_coding	PUTATIVE	None	15574	383	126	53536144	53548594	-1	None	KIAA0203, Cc1, DRAGOU14, FIP200
8	RB1CC1	ENSG00000023287	ENST00000522957	retained_intron	KNOWN	None	15574	None	None	53536274	53555803	-1	None	KIAA0203, Cc1, DRAGOU14, FIP200
8	RB1CC1	ENSG00000023287	ENST00000523594	nonsense_mediated_decay	KNOWN	None	15574	328	108	53570445	53574130	-1	None	KIAA0203, Cc1, DRAGOU14, FIP200
8	RB1CC1	ENSG00000023287	ENST00000518710	protein_coding	PUTATIVE	None	15574	158	51	53596164	53626987	-1	None	KIAA0203, Cc1, DRAGOU14, FIP200
8	RB1CC1	ENSG00000023287	ENST00000517963	protein_coding	PUTATIVE	None	15574	218	71	53596248	53627026	-1	None	KIAA0203, Cc1, DRAGOU14, FIP200
8	RB1CC1	ENSG00000023287	ENST00000518211	nonsense_mediated_decay	KNOWN	None	15574	129	42	53596510	53627004	-1	None	KIAA0203, Cc1, DRAGOU14, FIP200
8	RB1CC1	ENSG00000023287	ENST00000518468	protein_coding	KNOWN	None	15574	46	14	53597984	53658403	-1	None	KIAA0203, Cc1, DRAGOU14, FIP200
8	RB1CC1	ENSG00000023287	ENST00000539297	protein_coding	KNOWN	CCDS47856	15574	4776	1591	53536342	53598029	-1	None	KIAA0203, Cc1, DRAGOU14, FIP200
1	UBQLN4	ENSG00000160803	ENST00000368309	protein_coding	KNOWN	CCDS1127	1237	1806	601	156005092	156023585	-1	C1orf6	A1U, UBIN
1	UBQLN4	ENSG00000160803	ENST00000368307	protein_coding	KNOWN	None	1237	681	226	156005093	156023504	-1	C1orf6	A1U, UBIN
1	UBQLN4	ENSG00000160803	ENST00000459954	processed_transcript	KNOWN	None	1237	None	None	156011663	156012329	-1	C1orf6	A1U, UBIN
1	UBQLN4	ENSG00000160803	ENST00000472638	processed_transcript	KNOWN	None	1237	None	None	156018293	156023441	-1	C1orf6	A1U, UBIN
6	SMPD2	ENSG00000135587	ENST00000258052	protein_coding	KNOWN	CCDS5075	11121	1272	423	109761966	109765122	1	None	nSMase, ISC1
6	SMPD2	ENSG00000135587	ENST00000439615	retained_intron	KNOWN	None	11121	None	None	109762806	109763774	1	None	nSMase, ISC1
6	SMPD2	ENSG00000135587	ENST00000458487	protein_coding	PUTATIVE	None	11121	613	203	109763774	109764759	1	None	nSMase, ISC1
10	ZNF487	ENSG00000243660	ENST00000315429	protein_coding	NOVEL	None	23488	568	188	43932289	43977126	1	KRBO1, ZNF487P	None
10	ZNF487	ENSG00000243660	ENST00000456416	protein_coding	PUTATIVE	None	23488	340	112	43932574	43977179	1	KRBO1, ZNF487P	None
10	ZNF487	ENSG00000243660	ENST00000437590	protein_coding	PUTATIVE	None	23488	627	208	43932574	43978627	1	KRBO1, ZNF487P	None
10	ZNF487	ENSG00000243660	ENST00000490208	processed_transcript	PUTATIVE	None	23488	None	None	43932596	43949980	1	KRBO1, ZNF487P	None
10	ZNF487	ENSG00000243660	ENST00000451167	protein_coding	PUTATIVE	None	23488	20	5	43932606	43971278	1	KRBO1, ZNF487P	None
10	ZNF487	ENSG00000243660	ENST00000596267	processed_transcript	KNOWN	None	23488	None	None	43947368	43950112	1	KRBO1, ZNF487P	None
10	ZNF487	ENSG00000243660	ENST00000431662	protein_coding	KNOWN	None	23488	1347	448	43932282	43991517	1	KRBO1, ZNF487P	None
1	LAMTOR2	ENSG00000116586	ENST00000368305	protein_coding	KNOWN	CCDS1128	29796	378	125	156024543	156028301	1	ROBLD3	MAPBPIP, MAPKSP1AP, p14, ENDAP, Ragulator2
1	LAMTOR2	ENSG00000116586	ENST00000368304	protein_coding	KNOWN	CCDS44243	29796	288	95	156024583	156028297	1	ROBLD3	MAPBPIP, MAPKSP1AP, p14, ENDAP, Ragulator2
1	LAMTOR2	ENSG00000116586	ENST00000489664	processed_transcript	KNOWN	None	29796	None	None	156024612	156025784	1	ROBLD3	MAPBPIP, MAPKSP1AP, p14, ENDAP, Ragulator2
1	LAMTOR2	ENSG00000116586	ENST00000368302	protein_coding	KNOWN	None	29796	453	150	156024641	156028294	1	ROBLD3	MAPBPIP, MAPKSP1AP, p14, ENDAP, Ragulator2
1	LAMTOR2	ENSG00000116586	ENST00000487106	processed_transcript	KNOWN	None	29796	None	None	156024876	156028297	1	ROBLD3	MAPBPIP, MAPKSP1AP, p14, ENDAP, Ragulator2
1	LAMTOR2	ENSG00000116586	ENST00000463371	processed_transcript	KNOWN	None	29796	None	None	156025287	156028297	1	ROBLD3	MAPBPIP, MAPKSP1AP, p14, ENDAP, Ragulator2
8	SLC39A14	ENSG00000104635	ENST00000359741	protein_coding	KNOWN	CCDS6030	20858	1479	492	22224762	22280198	1	None	KIAA0062, NET34, ZIP14
8	SLC39A14	ENSG00000104635	ENST00000520644	protein_coding	PUTATIVE	None	20858	270	89	22224791	22262493	1	None	KIAA0062, NET34, ZIP14
8	SLC39A14	ENSG00000104635	ENST00000240095	protein_coding	KNOWN	CCDS47822	20858	1446	481	22224800	22291642	1	None	KIAA0062, NET34, ZIP14
8	SLC39A14	ENSG00000104635	ENST00000381237	protein_coding	KNOWN	CCDS47823	20858	1479	492	22224818	22280254	1	None	KIAA0062, NET34, ZIP14
8	SLC39A14	ENSG00000104635	ENST00000289952	protein_coding	PUTATIVE	CCDS47823	20858	1479	492	22225050	22277653	1	None	KIAA0062, NET34, ZIP14
8	SLC39A14	ENSG00000104635	ENST00000524285	protein_coding	PUTATIVE	None	20858	267	88	22225051	22262490	1	None	KIAA0062, NET34, ZIP14
8	SLC39A14	ENSG00000104635	ENST00000520832	protein_coding	PUTATIVE	None	20858	160	52	22250343	22262383	1	None	KIAA0062, NET34, ZIP14
8	SLC39A14	ENSG00000104635	ENST00000519960	protein_coding	PUTATIVE	None	20858	368	121	22255741	22265920	1	None	KIAA0062, NET34, ZIP14
8	SLC39A14	ENSG00000104635	ENST00000522881	protein_coding	KNOWN	None	20858	466	154	22256232	22267467	1	None	KIAA0062, NET34, ZIP14
8	SLC39A14	ENSG00000104635	ENST00000517552	protein_coding	PUTATIVE	None	20858	382	126	22262030	22265934	1	None	KIAA0062, NET34, ZIP14
8	SLC39A14	ENSG00000104635	ENST00000517370	protein_coding	PUTATIVE	None	20858	605	200	22269390	22273782	1	None	KIAA0062, NET34, ZIP14
8	SLC39A14	ENSG00000104635	ENST00000518348	retained_intron	KNOWN	None	20858	None	None	22272640	22275210	1	None	KIAA0062, NET34, ZIP14
5	PAPD4	ENSG00000164329	ENST00000505571	retained_intron	KNOWN	None	26776	None	None	78907943	78919471	1	None	FLJ38499, GLD2
5	PAPD4	ENSG00000164329	ENST00000423041	protein_coding	KNOWN	None	26776	1443	480	78908256	78982471	1	None	FLJ38499, GLD2
5	PAPD4	ENSG00000164329	ENST00000504233	protein_coding	NOVEL	None	26776	1326	441	78908258	78982089	1	None	FLJ38499, GLD2
5	PAPD4	ENSG00000164329	ENST00000515807	processed_transcript	KNOWN	None	26776	None	None	78908326	78919132	1	None	FLJ38499, GLD2
5	PAPD4	ENSG00000164329	ENST00000502269	processed_transcript	PUTATIVE	None	26776	None	None	78908343	78909906	1	None	FLJ38499, GLD2
5	PAPD4	ENSG00000164329	ENST00000296783	protein_coding	KNOWN	CCDS4048	26776	1455	484	78908396	78982471	1	None	FLJ38499, GLD2
5	PAPD4	ENSG00000164329	ENST00000508620	processed_transcript	KNOWN	None	26776	None	None	78908398	78915587	1	None	FLJ38499, GLD2
5	PAPD4	ENSG00000164329	ENST00000514095	processed_transcript	KNOWN	None	26776	None	None	78908398	78916440	1	None	FLJ38499, GLD2
5	PAPD4	ENSG00000164329	ENST00000503620	processed_transcript	KNOWN	None	26776	None	None	78908441	78919139	1	None	FLJ38499, GLD2
5	PAPD4	ENSG00000164329	ENST00000509227	retained_intron	KNOWN	None	26776	None	None	78940469	78944474	1	None	FLJ38499, GLD2
5	PAPD4	ENSG00000164329	ENST00000504982	processed_transcript	KNOWN	None	26776	None	None	78944528	78964828	1	None	FLJ38499, GLD2
5	PAPD4	ENSG00000164329	ENST00000513735	processed_transcript	KNOWN	None	26776	None	None	78944685	78975491	1	None	FLJ38499, GLD2
5	PAPD4	ENSG00000164329	ENST00000515298	retained_intron	KNOWN	None	26776	None	None	78952704	78981056	1	None	FLJ38499, GLD2
5	PAPD4	ENSG00000164329	ENST00000510721	retained_intron	KNOWN	None	26776	None	None	78964544	78981063	1	None	FLJ38499, GLD2
5	PAPD4	ENSG00000164329	ENST00000505770	retained_intron	KNOWN	None	26776	None	None	78977475	78981153	1	None	FLJ38499, GLD2
5	PAPD4	ENSG00000164329	ENST00000453514	protein_coding	KNOWN	CCDS4048	26776	1455	484	78908243	78982471	1	None	FLJ38499, GLD2
5	PAPD4	ENSG00000164329	ENST00000428308	protein_coding	KNOWN	CCDS4048	26776	1455	484	78908308	78981403	1	None	FLJ38499, GLD2
1	ITGB3BP	ENSG00000142856	ENST00000492655	processed_transcript	PUTATIVE	None	6157	None	None	63906441	63912731	-1	None	NRIF3, HSU37139, TAP20, CENPR
1	ITGB3BP	ENSG00000142856	ENST00000371092	protein_coding	KNOWN	CCDS55603	6157	651	216	63906444	63988865	-1	None	NRIF3, HSU37139, TAP20, CENPR
1	ITGB3BP	ENSG00000142856	ENST00000271002	protein_coding	KNOWN	CCDS30736	6157	534	177	63906444	63988886	-1	None	NRIF3, HSU37139, TAP20, CENPR
1	ITGB3BP	ENSG00000142856	ENST00000489099	nonsense_mediated_decay	KNOWN	None	6157	513	170	63906444	63989173	-1	None	NRIF3, HSU37139, TAP20, CENPR
1	ITGB3BP	ENSG00000142856	ENST00000461681	processed_transcript	KNOWN	None	6157	None	None	63906471	63923366	-1	None	NRIF3, HSU37139, TAP20, CENPR
1	ITGB3BP	ENSG00000142856	ENST00000463803	processed_transcript	KNOWN	None	6157	None	None	63908181	63920620	-1	None	NRIF3, HSU37139, TAP20, CENPR
1	ITGB3BP	ENSG00000142856	ENST00000478538	processed_transcript	PUTATIVE	None	6157	None	None	63912229	63913460	-1	None	NRIF3, HSU37139, TAP20, CENPR
1	ITGB3BP	ENSG00000142856	ENST00000476508	processed_transcript	KNOWN	None	6157	None	None	63914974	63955885	-1	None	NRIF3, HSU37139, TAP20, CENPR
1	ITGB3BP	ENSG00000142856	ENST00000460394	processed_transcript	KNOWN	None	6157	None	None	63917396	63988853	-1	None	NRIF3, HSU37139, TAP20, CENPR
1	ITGB3BP	ENSG00000142856	ENST00000462285	processed_transcript	KNOWN	None	6157	None	None	63919286	63988880	-1	None	NRIF3, HSU37139, TAP20, CENPR
1	ITGB3BP	ENSG00000142856	ENST00000489863	processed_transcript	KNOWN	None	6157	None	None	63919447	63988926	-1	None	NRIF3, HSU37139, TAP20, CENPR
1	ITGB3BP	ENSG00000142856	ENST00000465781	processed_transcript	KNOWN	None	6157	None	None	63923136	63988872	-1	None	NRIF3, HSU37139, TAP20, CENPR
1	ITGB3BP	ENSG00000142856	ENST00000460251	processed_transcript	KNOWN	None	6157	None	None	63923355	63988872	-1	None	NRIF3, HSU37139, TAP20, CENPR
1	ITGB3BP	ENSG00000142856	ENST00000478138	processed_transcript	KNOWN	None	6157	None	None	63955774	64059392	-1	None	NRIF3, HSU37139, TAP20, CENPR
1	ITGB3BP	ENSG00000142856	ENST00000283568	protein_coding	KNOWN	None	6157	513	170	63913257	63988851	-1	None	NRIF3, HSU37139, TAP20, CENPR
19	ZNF345	ENSG00000251247	ENST00000589046	protein_coding	KNOWN	CCDS12497	16367	1467	488	37341263	37370474	1	None	HZF10
19	ZNF345	ENSG00000251247	ENST00000586933	protein_coding	PUTATIVE	None	16367	159	52	37341778	37383832	1	None	HZF10
19	ZNF345	ENSG00000251247	ENST00000532141	protein_coding	KNOWN	None	16367	224	73	37341780	37367956	1	None	HZF10
19	ZNF345	ENSG00000251247	ENST00000420450	protein_coding	KNOWN	CCDS12497	16367	1467	488	37341792	37369503	1	None	HZF10
19	ZNF345	ENSG00000251247	ENST00000526123	protein_coding	PUTATIVE	None	16367	228	75	37341797	37383936	1	None	HZF10
19	ZNF345	ENSG00000251247	ENST00000432005	processed_transcript	KNOWN	None	16367	None	None	37341832	37403931	1	None	HZF10
19	ZNF345	ENSG00000251247	ENST00000529555	protein_coding	KNOWN	CCDS12497	16367	1467	488	37342065	37370471	1	None	HZF10
19	ZNF345	ENSG00000251247	ENST00000331800	protein_coding	KNOWN	None	16367	339	112	37342553	37368071	1	None	HZF10
19	ZNF345	ENSG00000251247	ENST00000534729	processed_transcript	KNOWN	None	16367	None	None	37342557	37383936	1	None	HZF10
19	ZNF345	ENSG00000251247	ENST00000586646	protein_coding	KNOWN	None	16367	283	93	37342561	37368015	1	None	HZF10
19	ZNF345	ENSG00000251247	ENST00000525851	processed_transcript	KNOWN	None	16367	None	None	37342647	37383936	1	None	HZF10
19	ZNF345	ENSG00000251247	ENST00000529989	processed_transcript	KNOWN	None	16367	None	None	37342754	37383932	1	None	HZF10
19	ZNF345	ENSG00000251247	ENST00000585396	protein_coding	KNOWN	None	16367	554	183	37363600	37368286	1	None	HZF10
1	RAB25	ENSG00000132698	ENST00000361084	protein_coding	KNOWN	CCDS41413	18238	642	213	156030951	156040295	1	None	CATX-8
1	RAB25	ENSG00000132698	ENST00000463614	processed_transcript	KNOWN	None	18238	None	None	156030980	156036073	1	None	CATX-8
1	RAB25	ENSG00000132698	ENST00000487325	processed_transcript	KNOWN	None	18238	None	None	156030997	156039897	1	None	CATX-8
1	RAB25	ENSG00000132698	ENST00000473336	processed_transcript	KNOWN	None	18238	None	None	156031174	156040295	1	None	CATX-8
1	RAB25	ENSG00000132698	ENST00000497968	processed_transcript	KNOWN	None	18238	None	None	156038003	156040156	1	None	CATX-8
15	PIGB	ENSG00000069943	ENST00000565367	nonsense_mediated_decay	KNOWN	None	8959	405	134	55611158	55647845	1	None	None
15	PIGB	ENSG00000069943	ENST00000164305	protein_coding	KNOWN	None	8959	1665	554	55611158	55647846	1	None	None
15	PIGB	ENSG00000069943	ENST00000569909	processed_transcript	PUTATIVE	None	8959	None	None	55611430	55612228	1	None	None
15	PIGB	ENSG00000069943	ENST00000570059	nonsense_mediated_decay	KNOWN	None	8959	177	58	55611430	55631487	1	None	None
15	PIGB	ENSG00000069943	ENST00000566999	protein_coding	NOVEL	None	8959	767	254	55611443	55626205	1	None	None
15	PIGB	ENSG00000069943	ENST00000566072	processed_transcript	KNOWN	None	8959	None	None	55611471	55619833	1	None	None
15	PIGB	ENSG00000069943	ENST00000565402	retained_intron	KNOWN	None	8959	None	None	55632571	55643028	1	None	None
15	PIGB	ENSG00000069943	ENST00000565502	nonsense_mediated_decay	KNOWN	None	8959	267	88	55632951	55647842	1	None	None
15	PIGB	ENSG00000069943	ENST00000563742	retained_intron	KNOWN	None	8959	None	None	55641717	55647845	1	None	None
15	PIGB	ENSG00000069943	ENST00000569823	processed_transcript	PUTATIVE	None	8959	None	None	55642939	55644071	1	None	None
15	PIGB	ENSG00000069943	ENST00000562751	retained_intron	KNOWN	None	8959	None	None	55646783	55647842	1	None	None
15	PIGB	ENSG00000069943	ENST00000539642	protein_coding	KNOWN	None	8959	1080	359	55611158	55647845	1	None	None
7	WBSCR17	ENSG00000185274	ENST00000333538	protein_coding	KNOWN	CCDS5540	16347	1797	598	70597155	71178584	1	None	GALNTL3
7	WBSCR17	ENSG00000185274	ENST00000498380	processed_transcript	KNOWN	None	16347	None	None	70748982	71178585	1	None	GALNTL3
7	WBSCR17	ENSG00000185274	ENST00000447516	protein_coding	PUTATIVE	None	16347	566	187	70765317	70880917	1	None	GALNTL3
7	WBSCR17	ENSG00000185274	ENST00000467723	processed_transcript	KNOWN	None	16347	None	None	70765728	71178583	1	None	GALNTL3
4	PKD2	ENSG00000118762	ENST00000237596	protein_coding	KNOWN	CCDS3627	9009	2907	968	88928820	88998929	1	None	PKD4, PC2, Pc-2, TRPP2
4	PKD2	ENSG00000118762	ENST00000506727	retained_intron	KNOWN	None	9009	None	None	88929384	88959523	1	None	PKD4, PC2, Pc-2, TRPP2
4	PKD2	ENSG00000118762	ENST00000506367	retained_intron	KNOWN	None	9009	None	None	88957216	88964536	1	None	PKD4, PC2, Pc-2, TRPP2
4	PKD2	ENSG00000118762	ENST00000508588	protein_coding	PUTATIVE	None	9009	1161	386	88964413	88997010	1	None	PKD4, PC2, Pc-2, TRPP2
4	PKD2	ENSG00000118762	ENST00000511337	processed_transcript	KNOWN	None	9009	None	None	88973222	88997049	1	None	PKD4, PC2, Pc-2, TRPP2
4	PKD2	ENSG00000118762	ENST00000512858	retained_intron	KNOWN	None	9009	None	None	88973262	88997015	1	None	PKD4, PC2, Pc-2, TRPP2
4	PKD2	ENSG00000118762	ENST00000502363	protein_coding	PUTATIVE	None	9009	1161	386	88977218	88996857	1	None	PKD4, PC2, Pc-2, TRPP2
1	MEX3A	ENSG00000254726	ENST00000532414	protein_coding	KNOWN	CCDS53377	33482	1563	520	156041804	156051789	-1	RKHD4	None
1	MEX3A	ENSG00000254726	ENST00000442784	processed_transcript	PUTATIVE	None	33482	None	None	156046857	156051495	-1	RKHD4	None
9	None	ENSG00000268211	ENST00000601297	protein_coding	KNOWN	None	None	426	141	131062367	131064212	1	None	None
11	ARAP1	ENSG00000186635	ENST00000495878	processed_transcript	KNOWN	None	16925	None	None	72396114	72411411	-1	CENTD2	None
11	ARAP1	ENSG00000186635	ENST00000359373	protein_coding	KNOWN	None	16925	4320	1439	72396114	72504644	-1	CENTD2	None
11	ARAP1	ENSG00000186635	ENST00000465814	retained_intron	KNOWN	None	16925	None	None	72396115	72433133	-1	CENTD2	None
11	ARAP1	ENSG00000186635	ENST00000393605	protein_coding	KNOWN	None	16925	3633	1210	72396120	72424196	-1	CENTD2	None
11	ARAP1	ENSG00000186635	ENST00000334211	protein_coding	KNOWN	CCDS8217	16925	3618	1205	72396120	72433403	-1	CENTD2	None
11	ARAP1	ENSG00000186635	ENST00000393609	protein_coding	KNOWN	CCDS41687	16925	4353	1450	72396120	72463448	-1	CENTD2	None
11	ARAP1	ENSG00000186635	ENST00000426523	protein_coding	NOVEL	None	16925	3585	1194	72396633	72433073	-1	CENTD2	None
11	ARAP1	ENSG00000186635	ENST00000429686	protein_coding	KNOWN	CCDS44671	16925	3402	1133	72396633	72433073	-1	CENTD2	None
11	ARAP1	ENSG00000186635	ENST00000544721	retained_intron	KNOWN	None	16925	None	None	72396653	72399933	-1	CENTD2	None
11	ARAP1	ENSG00000186635	ENST00000542596	protein_coding	PUTATIVE	None	16925	699	232	72396689	72406130	-1	CENTD2	None
11	ARAP1	ENSG00000186635	ENST00000536885	protein_coding	PUTATIVE	None	16925	535	177	72396740	72399526	-1	CENTD2	None
11	ARAP1	ENSG00000186635	ENST00000541623	retained_intron	KNOWN	None	16925	None	None	72397087	72399582	-1	CENTD2	None
11	ARAP1	ENSG00000186635	ENST00000542612	retained_intron	KNOWN	None	16925	None	None	72398305	72400591	-1	CENTD2	None
11	ARAP1	ENSG00000186635	ENST00000544958	processed_transcript	KNOWN	None	16925	None	None	72404153	72406121	-1	CENTD2	None
11	ARAP1	ENSG00000186635	ENST00000543868	retained_intron	KNOWN	None	16925	None	None	72404184	72406085	-1	CENTD2	None
11	ARAP1	ENSG00000186635	ENST00000536993	retained_intron	KNOWN	None	16925	None	None	72404722	72406499	-1	CENTD2	None
11	ARAP1	ENSG00000186635	ENST00000546293	retained_intron	KNOWN	None	16925	None	None	72404805	72408066	-1	CENTD2	None
11	ARAP1	ENSG00000186635	ENST00000427971	protein_coding	PUTATIVE	None	16925	922	306	72408136	72414256	-1	CENTD2	None
11	ARAP1	ENSG00000186635	ENST00000452383	protein_coding	PUTATIVE	None	16925	764	253	72408421	72414456	-1	CENTD2	None
11	ARAP1	ENSG00000186635	ENST00000542264	processed_transcript	PUTATIVE	None	16925	None	None	72420888	72421615	-1	CENTD2	None
11	ARAP1	ENSG00000186635	ENST00000455638	protein_coding	KNOWN	None	16925	4320	1439	72396115	72438173	-1	CENTD2	None
9	TRUB2	ENSG00000167112	ENST00000372890	protein_coding	KNOWN	CCDS6897	17170	996	331	131071382	131085021	-1	None	CLONE24922
9	TRUB2	ENSG00000167112	ENST00000460320	processed_transcript	KNOWN	None	17170	None	None	131071972	131084692	-1	None	CLONE24922
9	TRUB2	ENSG00000167112	ENST00000461180	processed_transcript	KNOWN	None	17170	None	None	131072063	131073633	-1	None	CLONE24922
9	TRUB2	ENSG00000167112	ENST00000546104	protein_coding	KNOWN	None	17170	828	275	131071473	131084497	-1	None	CLONE24922
12	NCKAP5L	ENSG00000167566	ENST00000433948	protein_coding	PUTATIVE	None	29321	3013	1003	50184929	50190785	-1	KIAA1602	None
12	NCKAP5L	ENSG00000167566	ENST00000335999	protein_coding	KNOWN	CCDS41781	29321	4005	1334	50184929	50222208	-1	KIAA1602	None
12	NCKAP5L	ENSG00000167566	ENST00000477361	retained_intron	KNOWN	None	29321	None	None	50196051	50199502	-1	KIAA1602	None
12	NCKAP5L	ENSG00000167566	ENST00000491441	retained_intron	KNOWN	None	29321	None	None	50196507	50199173	-1	KIAA1602	None
12	NCKAP5L	ENSG00000167566	ENST00000480927	processed_transcript	KNOWN	None	29321	None	None	50199721	50222533	-1	KIAA1602	None
17	SLC16A3	ENSG00000141526	ENST00000584689	protein_coding	KNOWN	None	10924	874	290	80186273	80195520	1	None	MCT3, MCT4
17	SLC16A3	ENSG00000141526	ENST00000583237	protein_coding	KNOWN	None	10924	657	218	80186297	80195303	1	None	MCT3, MCT4
17	SLC16A3	ENSG00000141526	ENST00000581642	retained_intron	KNOWN	None	10924	None	None	80186324	80194333	1	None	MCT3, MCT4
17	SLC16A3	ENSG00000141526	ENST00000582743	protein_coding	KNOWN	CCDS11804	10924	1398	465	80186908	80197355	1	None	MCT3, MCT4
17	SLC16A3	ENSG00000141526	ENST00000583444	retained_intron	KNOWN	None	10924	None	None	80186921	80189802	1	None	MCT3, MCT4
17	SLC16A3	ENSG00000141526	ENST00000584781	processed_transcript	KNOWN	None	10924	None	None	80186931	80195158	1	None	MCT3, MCT4
17	SLC16A3	ENSG00000141526	ENST00000578684	protein_coding	NOVEL	None	10924	791	262	80186934	80195581	1	None	MCT3, MCT4
17	SLC16A3	ENSG00000141526	ENST00000577650	protein_coding	NOVEL	None	10924	472	156	80186936	80195196	1	None	MCT3, MCT4
17	SLC16A3	ENSG00000141526	ENST00000578574	retained_intron	KNOWN	None	10924	None	None	80186938	80194771	1	None	MCT3, MCT4
17	SLC16A3	ENSG00000141526	ENST00000579572	retained_intron	KNOWN	None	10924	None	None	80186944	80195179	1	None	MCT3, MCT4
17	SLC16A3	ENSG00000141526	ENST00000582715	protein_coding	PUTATIVE	None	10924	239	78	80186969	80197357	1	None	MCT3, MCT4
17	SLC16A3	ENSG00000141526	ENST00000580098	protein_coding	KNOWN	None	10924	705	234	80190108	80195351	1	None	MCT3, MCT4
17	SLC16A3	ENSG00000141526	ENST00000581287	protein_coding	KNOWN	CCDS11804	10924	1398	465	80191563	80197962	1	None	MCT3, MCT4
17	SLC16A3	ENSG00000141526	ENST00000578522	protein_coding	KNOWN	None	10924	407	134	80192775	80195053	1	None	MCT3, MCT4
17	SLC16A3	ENSG00000141526	ENST00000580189	protein_coding	KNOWN	None	10924	669	222	80192929	80195315	1	None	MCT3, MCT4
17	SLC16A3	ENSG00000141526	ENST00000582946	protein_coding	KNOWN	None	10924	491	162	80193650	80195137	1	None	MCT3, MCT4
17	SLC16A3	ENSG00000141526	ENST00000578810	retained_intron	KNOWN	None	10924	None	None	80194350	80195292	1	None	MCT3, MCT4
17	SLC16A3	ENSG00000141526	ENST00000583025	protein_coding	PUTATIVE	None	10924	921	306	80195046	80219005	1	None	MCT3, MCT4
17	SLC16A3	ENSG00000141526	ENST00000392341	protein_coding	KNOWN	CCDS11804	10924	1398	465	80186293	80197369	1	None	MCT3, MCT4
17	SLC16A3	ENSG00000141526	ENST00000392339	protein_coding	KNOWN	CCDS11804	10924	1398	465	80190144	80197369	1	None	MCT3, MCT4
1	EFCAB7	ENSG00000203965	ENST00000480886	processed_transcript	KNOWN	None	29379	None	None	63989043	63998367	1	None	KIAA1799, RP4-534K7.1
1	EFCAB7	ENSG00000203965	ENST00000371088	protein_coding	KNOWN	CCDS30737	29379	1890	629	63989061	64038364	1	None	KIAA1799, RP4-534K7.1
1	EFCAB7	ENSG00000203965	ENST00000493605	processed_transcript	KNOWN	None	29379	None	None	63999248	64000038	1	None	KIAA1799, RP4-534K7.1
1	EFCAB7	ENSG00000203965	ENST00000496956	processed_transcript	KNOWN	None	29379	None	None	63999804	64017557	1	None	KIAA1799, RP4-534K7.1
1	EFCAB7	ENSG00000203965	ENST00000460678	processed_transcript	KNOWN	None	29379	None	None	64013680	64036799	1	None	KIAA1799, RP4-534K7.1
1	EFCAB7	ENSG00000203965	ENST00000461039	processed_transcript	KNOWN	None	29379	None	None	64020746	64038364	1	None	KIAA1799, RP4-534K7.1
1	LYST	ENSG00000143669	ENST00000389794	protein_coding	KNOWN	CCDS31062	1968	11406	3801	235824341	236030220	-1	CHS1	CHS
1	LYST	ENSG00000143669	ENST00000473037	processed_transcript	KNOWN	None	1968	None	None	235824343	235901307	-1	CHS1	CHS
1	LYST	ENSG00000143669	ENST00000462376	retained_intron	KNOWN	None	1968	None	None	235872406	235875700	-1	CHS1	CHS
1	LYST	ENSG00000143669	ENST00000475277	processed_transcript	KNOWN	None	1968	None	None	235876409	235891403	-1	CHS1	CHS
1	LYST	ENSG00000143669	ENST00000461526	processed_transcript	KNOWN	None	1968	None	None	235901290	235907332	-1	CHS1	CHS
1	LYST	ENSG00000143669	ENST00000487530	protein_coding	NOVEL	None	1968	542	179	235909768	235915471	-1	CHS1	CHS
1	LYST	ENSG00000143669	ENST00000489585	processed_transcript	KNOWN	None	1968	None	None	235922475	236046940	-1	CHS1	CHS
1	LYST	ENSG00000143669	ENST00000492844	processed_transcript	KNOWN	None	1968	None	None	235950370	235952148	-1	CHS1	CHS
1	LYST	ENSG00000143669	ENST00000465349	processed_transcript	KNOWN	None	1968	None	None	235954873	236046940	-1	CHS1	CHS
1	LYST	ENSG00000143669	ENST00000468107	processed_transcript	KNOWN	None	1968	None	None	235992105	236046916	-1	CHS1	CHS
1	LYST	ENSG00000143669	ENST00000468626	processed_transcript	KNOWN	None	1968	None	None	235992709	236030176	-1	CHS1	CHS
1	LYST	ENSG00000143669	ENST00000389793	protein_coding	KNOWN	CCDS31062	1968	11406	3801	235824350	236030220	-1	CHS1	CHS
1	LYST	ENSG00000143669	ENST00000536965	protein_coding	KNOWN	None	1968	4149	1382	235922559	236046872	-1	CHS1	CHS
16	HSD17B2	ENSG00000086696	ENST00000563491	protein_coding	PUTATIVE	None	5211	199	65	82068609	82104675	1	None	HSD17, SDR9C2
16	HSD17B2	ENSG00000086696	ENST00000199936	protein_coding	KNOWN	CCDS10936	5211	1164	387	82068837	82132139	1	None	HSD17, SDR9C2
16	HSD17B2	ENSG00000086696	ENST00000566213	protein_coding	NOVEL	None	5211	400	132	82068879	82104681	1	None	HSD17, SDR9C2
16	HSD17B2	ENSG00000086696	ENST00000569351	protein_coding	PUTATIVE	None	5211	603	200	82069246	82104910	1	None	HSD17, SDR9C2
16	HSD17B2	ENSG00000086696	ENST00000568090	protein_coding	PUTATIVE	None	5211	661	219	82090058	82131946	1	None	HSD17, SDR9C2
16	HSD17B2	ENSG00000086696	ENST00000566838	protein_coding	PUTATIVE	None	5211	567	188	82101882	82124817	1	None	HSD17, SDR9C2
14	MAP4K5	ENSG00000012983	ENST00000554990	retained_intron	KNOWN	None	6867	None	None	50885219	50917318	-1	None	KHS1, GCKR, KHS
14	MAP4K5	ENSG00000012983	ENST00000013125	protein_coding	KNOWN	None	6867	2541	846	50885243	50999327	-1	None	KHS1, GCKR, KHS
14	MAP4K5	ENSG00000012983	ENST00000557124	retained_intron	KNOWN	None	6867	None	None	50901682	50905119	-1	None	KHS1, GCKR, KHS
14	MAP4K5	ENSG00000012983	ENST00000557210	retained_intron	KNOWN	None	6867	None	None	50929411	50949867	-1	None	KHS1, GCKR, KHS
14	MAP4K5	ENSG00000012983	ENST00000554091	nonsense_mediated_decay	KNOWN	None	6867	189	62	50930796	50998805	-1	None	KHS1, GCKR, KHS
14	MAP4K5	ENSG00000012983	ENST00000557578	processed_transcript	KNOWN	None	6867	None	None	50935408	50952863	-1	None	KHS1, GCKR, KHS
14	MAP4K5	ENSG00000012983	ENST00000555216	protein_coding	PUTATIVE	None	6867	326	107	50941810	51027844	-1	None	KHS1, GCKR, KHS
14	MAP4K5	ENSG00000012983	ENST00000557390	protein_coding	PUTATIVE	None	6867	411	136	50942992	50999190	-1	None	KHS1, GCKR, KHS
14	MAP4K5	ENSG00000012983	ENST00000554066	retained_intron	KNOWN	None	6867	None	None	50952647	50971846	-1	None	KHS1, GCKR, KHS
14	MAP4K5	ENSG00000012983	ENST00000554273	protein_coding	PUTATIVE	None	6867	167	54	50971517	50999373	-1	None	KHS1, GCKR, KHS
1	DLEU2L	ENSG00000116652	ENST00000371086	protein_coding	KNOWN	None	13225	168	55	64014588	64015405	1	BCMSUNL	None
1	DLEU2L	ENSG00000116652	ENST00000340052	protein_coding	KNOWN	None	13225	168	55	64014638	64015405	1	BCMSUNL	None
1	PGM1	ENSG00000079739	ENST00000371084	protein_coding	KNOWN	CCDS625	8905	1689	562	64058947	64125916	1	None	None
1	PGM1	ENSG00000079739	ENST00000473117	processed_transcript	KNOWN	None	8905	None	None	64059743	64065893	1	None	None
1	PGM1	ENSG00000079739	ENST00000371083	protein_coding	KNOWN	CCDS53323	8905	1743	580	64088764	64125892	1	None	None
1	PGM1	ENSG00000079739	ENST00000483707	processed_transcript	KNOWN	None	8905	None	None	64117026	64120116	1	None	None
1	PGM1	ENSG00000079739	ENST00000540265	protein_coding	KNOWN	CCDS53324	8905	1098	365	64059480	64125912	1	None	None
2	MPP4	ENSG00000082126	ENST00000409474	protein_coding	KNOWN	CCDS46491	13680	1914	637	202509593	202563417	-1	DLG6	None
2	MPP4	ENSG00000082126	ENST00000315506	protein_coding	KNOWN	None	13680	1782	593	202509593	202563417	-1	DLG6	None
2	MPP4	ENSG00000082126	ENST00000396886	protein_coding	NOVEL	None	13680	1689	562	202509598	202562780	-1	DLG6	None
2	MPP4	ENSG00000082126	ENST00000428900	protein_coding	NOVEL	None	13680	1842	613	202509620	202562719	-1	DLG6	None
2	MPP4	ENSG00000082126	ENST00000409143	protein_coding	NOVEL	None	13680	1740	579	202509828	202562791	-1	DLG6	None
2	MPP4	ENSG00000082126	ENST00000447335	protein_coding	NOVEL	None	13680	1893	630	202509879	202558780	-1	DLG6	None
2	MPP4	ENSG00000082126	ENST00000409818	nonsense_mediated_decay	KNOWN	None	13680	1305	434	202519560	202563392	-1	DLG6	None
2	MPP4	ENSG00000082126	ENST00000486212	retained_intron	KNOWN	None	13680	None	None	202529787	202563406	-1	DLG6	None
2	MPP4	ENSG00000082126	ENST00000483841	retained_intron	KNOWN	None	13680	None	None	202544788	202563354	-1	DLG6	None
2	MPP4	ENSG00000082126	ENST00000602867	protein_coding	PUTATIVE	None	13680	515	170	202550658	202563356	-1	DLG6	None
2	MPP4	ENSG00000082126	ENST00000359962	protein_coding	KNOWN	None	13680	1914	637	202509598	202563417	-1	DLG6	None
4	WFS1	ENSG00000109501	ENST00000503569	protein_coding	KNOWN	CCDS3386	12762	2673	890	6271576	6304610	1	DFNA6, DFNA14, DFNA38	DIDMOAD, WFS
4	WFS1	ENSG00000109501	ENST00000506588	retained_intron	KNOWN	None	12762	None	None	6271577	6289004	1	DFNA6, DFNA14, DFNA38	DIDMOAD, WFS
4	WFS1	ENSG00000109501	ENST00000226760	protein_coding	KNOWN	CCDS3386	12762	2673	890	6271577	6304992	1	DFNA6, DFNA14, DFNA38	DIDMOAD, WFS
4	WFS1	ENSG00000109501	ENST00000507765	retained_intron	KNOWN	None	12762	None	None	6290214	6304992	1	DFNA6, DFNA14, DFNA38	DIDMOAD, WFS
4	WFS1	ENSG00000109501	ENST00000506362	protein_coding	PUTATIVE	None	12762	755	250	6290802	6302644	1	DFNA6, DFNA14, DFNA38	DIDMOAD, WFS
4	WFS1	ENSG00000109501	ENST00000513395	retained_intron	KNOWN	None	12762	None	None	6296498	6302534	1	DFNA6, DFNA14, DFNA38	DIDMOAD, WFS
1	ROR1	ENSG00000185483	ENST00000371080	protein_coding	KNOWN	CCDS41344	10256	1182	393	64239693	64609068	1	NTRKR1	None
1	ROR1	ENSG00000185483	ENST00000371079	protein_coding	KNOWN	CCDS626	10256	2814	937	64239714	64647181	1	NTRKR1	None
1	ROR1	ENSG00000185483	ENST00000482426	processed_transcript	KNOWN	None	10256	None	None	64240961	64606047	1	NTRKR1	None
1	ROR1	ENSG00000185483	ENST00000545203	protein_coding	KNOWN	None	10256	1167	388	64590217	64644707	1	NTRKR1	None
8	VPS13B	ENSG00000132549	ENST00000355155	protein_coding	KNOWN	CCDS6283	2183	2592	863	100025494	100222015	1	CHS1, COH1	None
8	VPS13B	ENSG00000132549	ENST00000496144	nonsense_mediated_decay	KNOWN	None	2183	4284	1427	100025494	100590013	1	CHS1, COH1	None
8	VPS13B	ENSG00000132549	ENST00000357162	protein_coding	KNOWN	CCDS6281	2183	11994	3997	100025494	100889808	1	CHS1, COH1	None
8	VPS13B	ENSG00000132549	ENST00000358544	protein_coding	KNOWN	CCDS6280	2183	12069	4022	100025494	100889808	1	CHS1, COH1	None
8	VPS13B	ENSG00000132549	ENST00000441350	protein_coding	KNOWN	CCDS47903	2183	1248	415	100025502	100133990	1	CHS1, COH1	None
8	VPS13B	ENSG00000132549	ENST00000524330	processed_transcript	KNOWN	None	2183	None	None	100115287	100133560	1	CHS1, COH1	None
8	VPS13B	ENSG00000132549	ENST00000521932	processed_transcript	KNOWN	None	2183	None	None	100168857	100253730	1	CHS1, COH1	None
8	VPS13B	ENSG00000132549	ENST00000522802	processed_transcript	KNOWN	None	2183	None	None	100287437	100436760	1	CHS1, COH1	None
8	VPS13B	ENSG00000132549	ENST00000521037	processed_transcript	KNOWN	None	2183	None	None	100401844	100454639	1	CHS1, COH1	None
8	VPS13B	ENSG00000132549	ENST00000521559	protein_coding	NOVEL	None	2183	466	154	100533127	100654121	1	CHS1, COH1	None
8	VPS13B	ENSG00000132549	ENST00000518569	processed_transcript	KNOWN	None	2183	None	None	100733096	100791063	1	CHS1, COH1	None
8	VPS13B	ENSG00000132549	ENST00000493587	retained_intron	KNOWN	None	2183	None	None	100880285	100889808	1	CHS1, COH1	None
8	VPS13B	ENSG00000132549	ENST00000395996	protein_coding	KNOWN	None	2183	4284	1427	100025494	100889807	1	CHS1, COH1	None
1	NID1	ENSG00000116962	ENST00000366595	protein_coding	KNOWN	None	7821	3345	1114	236139130	236228409	-1	NID	entactin
1	NID1	ENSG00000116962	ENST00000264187	protein_coding	KNOWN	CCDS1608	7821	3744	1247	236139130	236228462	-1	NID	entactin
1	UBE2U	ENSG00000177414	ENST00000371077	protein_coding	KNOWN	None	28559	966	321	64669310	64733053	1	None	MGC35130
1	UBE2U	ENSG00000177414	ENST00000371076	protein_coding	KNOWN	CCDS627	28559	681	226	64669490	64710027	1	None	MGC35130
1	UBE2U	ENSG00000177414	ENST00000464349	processed_transcript	KNOWN	None	28559	None	None	64681136	64710023	1	None	MGC35130
5	DOCK2	ENSG00000134516	ENST00000256935	protein_coding	KNOWN	CCDS4371	2988	5493	1830	169064251	169510386	1	None	KIAA0209
5	DOCK2	ENSG00000134516	ENST00000522138	processed_transcript	KNOWN	None	2988	None	None	169064290	169108869	1	None	KIAA0209
5	DOCK2	ENSG00000134516	ENST00000524185	nonsense_mediated_decay	KNOWN	None	2988	3096	1031	169064295	169509938	1	None	KIAA0209
5	DOCK2	ENSG00000134516	ENST00000523684	processed_transcript	KNOWN	None	2988	None	None	169122183	169129431	1	None	KIAA0209
5	DOCK2	ENSG00000134516	ENST00000519734	processed_transcript	KNOWN	None	2988	None	None	169122290	169127043	1	None	KIAA0209
5	DOCK2	ENSG00000134516	ENST00000519223	retained_intron	KNOWN	None	2988	None	None	169122853	169129627	1	None	KIAA0209
5	DOCK2	ENSG00000134516	ENST00000520908	protein_coding	PUTATIVE	None	2988	3969	1322	169130953	169510383	1	None	KIAA0209
5	DOCK2	ENSG00000134516	ENST00000520836	processed_transcript	KNOWN	None	2988	None	None	169145750	169268539	1	None	KIAA0209
5	DOCK2	ENSG00000134516	ENST00000520181	processed_transcript	KNOWN	None	2988	None	None	169174430	169302881	1	None	KIAA0209
5	DOCK2	ENSG00000134516	ENST00000519628	protein_coding	PUTATIVE	None	2988	486	161	169186721	169361875	1	None	KIAA0209
5	DOCK2	ENSG00000134516	ENST00000523351	processed_transcript	KNOWN	None	2988	None	None	169188311	169510381	1	None	KIAA0209
5	DOCK2	ENSG00000134516	ENST00000522994	processed_transcript	KNOWN	None	2988	None	None	169410112	169427475	1	None	KIAA0209
5	DOCK2	ENSG00000134516	ENST00000433448	nonsense_mediated_decay	KNOWN	None	2988	168	55	169435501	169461512	1	None	KIAA0209
5	DOCK2	ENSG00000134516	ENST00000518056	retained_intron	KNOWN	None	2988	None	None	169467639	169469064	1	None	KIAA0209
5	DOCK2	ENSG00000134516	ENST00000520450	retained_intron	KNOWN	None	2988	None	None	169483442	169510381	1	None	KIAA0209
5	DOCK2	ENSG00000134516	ENST00000519868	retained_intron	KNOWN	None	2988	None	None	169502448	169510381	1	None	KIAA0209
5	DOCK2	ENSG00000134516	ENST00000540750	protein_coding	KNOWN	None	2988	2676	891	169130953	169510381	1	None	KIAA0209
7	SERPINE1	ENSG00000106366	ENST00000223095	protein_coding	KNOWN	CCDS5711	8583	1209	402	100770370	100782547	1	PLANH1, PAI1	PAI
7	SERPINE1	ENSG00000106366	ENST00000445463	protein_coding	KNOWN	None	8583	1164	387	100770379	100782546	1	PLANH1, PAI1	PAI
3	CNTN4	ENSG00000144619	ENST00000422330	protein_coding	KNOWN	None	2174	348	115	2140497	2787371	1	None	BIG-2
3	CNTN4	ENSG00000144619	ENST00000427741	nonsense_mediated_decay	KNOWN	None	2174	699	232	2140550	3084662	1	None	BIG-2
3	CNTN4	ENSG00000144619	ENST00000455083	protein_coding	KNOWN	None	2174	164	53	2140572	2778007	1	None	BIG-2
3	CNTN4	ENSG00000144619	ENST00000418658	protein_coding	KNOWN	CCDS43041	2174	3081	1026	2140610	3099637	1	None	BIG-2
3	CNTN4	ENSG00000144619	ENST00000490876	processed_transcript	PUTATIVE	None	2174	None	None	2140612	2141457	1	None	BIG-2
3	CNTN4	ENSG00000144619	ENST00000397461	protein_coding	KNOWN	CCDS43041	2174	3081	1026	2280513	3099637	1	None	BIG-2
3	CNTN4	ENSG00000144619	ENST00000438282	retained_intron	KNOWN	None	2174	None	None	2553034	3030697	1	None	BIG-2
3	CNTN4	ENSG00000144619	ENST00000430505	retained_intron	KNOWN	None	2174	None	None	2553273	3079360	1	None	BIG-2
3	CNTN4	ENSG00000144619	ENST00000434053	protein_coding	PUTATIVE	None	2174	412	136	2553354	2787381	1	None	BIG-2
3	CNTN4	ENSG00000144619	ENST00000480113	retained_intron	KNOWN	None	2174	None	None	2777557	2787311	1	None	BIG-2
3	CNTN4	ENSG00000144619	ENST00000473058	processed_transcript	KNOWN	None	2174	None	None	2908104	2928908	1	None	BIG-2
3	CNTN4	ENSG00000144619	ENST00000473173	retained_intron	KNOWN	None	2174	None	None	2924423	2928779	1	None	BIG-2
3	CNTN4	ENSG00000144619	ENST00000397459	protein_coding	KNOWN	CCDS2558	2174	2097	698	2933899	3098039	1	None	BIG-2
3	CNTN4	ENSG00000144619	ENST00000473845	protein_coding	PUTATIVE	None	2174	432	143	2942395	2969315	1	None	BIG-2
3	CNTN4	ENSG00000144619	ENST00000475817	processed_transcript	KNOWN	None	2174	None	None	2942398	3040828	1	None	BIG-2
3	CNTN4	ENSG00000144619	ENST00000484686	retained_intron	KNOWN	None	2174	None	None	3081308	3099637	1	None	BIG-2
3	CNTN4	ENSG00000144619	ENST00000427331	protein_coding	KNOWN	CCDS43041	2174	3081	1026	2613025	3099645	1	None	BIG-2
3	CNTN4	ENSG00000144619	ENST00000358480	protein_coding	KNOWN	None	2174	2424	807	2908102	3098039	1	None	BIG-2
3	CNTN4	ENSG00000144619	ENST00000448906	protein_coding	KNOWN	CCDS2558	2174	2097	698	2942366	3098039	1	None	BIG-2
1	LMNA	ENSG00000160789	ENST00000502751	processed_transcript	KNOWN	None	6636	None	None	156052364	156104278	1	LMN1, CMD1A, LGMD1B, PRO1, LMNL1	HGPS
1	LMNA	ENSG00000160789	ENST00000368301	protein_coding	KNOWN	CCDS1131	6636	1719	572	156052369	156107656	1	LMN1, CMD1A, LGMD1B, PRO1, LMNL1	HGPS
1	LMNA	ENSG00000160789	ENST00000495341	processed_transcript	KNOWN	None	6636	None	None	156052391	156053404	1	LMN1, CMD1A, LGMD1B, PRO1, LMNL1	HGPS
1	LMNA	ENSG00000160789	ENST00000470835	processed_transcript	KNOWN	None	6636	None	None	156052422	156063602	1	LMN1, CMD1A, LGMD1B, PRO1, LMNL1	HGPS
1	LMNA	ENSG00000160789	ENST00000515711	processed_transcript	KNOWN	None	6636	None	None	156076449	156084629	1	LMN1, CMD1A, LGMD1B, PRO1, LMNL1	HGPS
1	LMNA	ENSG00000160789	ENST00000368300	protein_coding	KNOWN	CCDS1129	6636	1995	664	156084498	156109880	1	LMN1, CMD1A, LGMD1B, PRO1, LMNL1	HGPS
1	LMNA	ENSG00000160789	ENST00000478063	processed_transcript	KNOWN	None	6636	None	None	156084502	156084838	1	LMN1, CMD1A, LGMD1B, PRO1, LMNL1	HGPS
1	LMNA	ENSG00000160789	ENST00000470199	processed_transcript	KNOWN	None	6636	None	None	156084502	156104289	1	LMN1, CMD1A, LGMD1B, PRO1, LMNL1	HGPS
1	LMNA	ENSG00000160789	ENST00000469565	processed_transcript	KNOWN	None	6636	None	None	156084504	156104237	1	LMN1, CMD1A, LGMD1B, PRO1, LMNL1	HGPS
1	LMNA	ENSG00000160789	ENST00000368299	protein_coding	NOVEL	None	6636	1845	614	156084513	156109108	1	LMN1, CMD1A, LGMD1B, PRO1, LMNL1	HGPS
1	LMNA	ENSG00000160789	ENST00000502357	processed_transcript	KNOWN	None	6636	None	None	156092933	156104319	1	LMN1, CMD1A, LGMD1B, PRO1, LMNL1	HGPS
1	LMNA	ENSG00000160789	ENST00000448611	protein_coding	PUTATIVE	CCDS58038	6636	1725	574	156095951	156109804	1	LMN1, CMD1A, LGMD1B, PRO1, LMNL1	HGPS
1	LMNA	ENSG00000160789	ENST00000515459	nonsense_mediated_decay	KNOWN	None	6636	117	38	156095965	156105016	1	LMN1, CMD1A, LGMD1B, PRO1, LMNL1	HGPS
1	LMNA	ENSG00000160789	ENST00000368297	protein_coding	PUTATIVE	None	6636	1476	491	156095980	156107656	1	LMN1, CMD1A, LGMD1B, PRO1, LMNL1	HGPS
1	LMNA	ENSG00000160789	ENST00000504687	protein_coding	PUTATIVE	None	6636	546	181	156096336	156104751	1	LMN1, CMD1A, LGMD1B, PRO1, LMNL1	HGPS
1	LMNA	ENSG00000160789	ENST00000473598	protein_coding	PUTATIVE	None	6636	1698	565	156096346	156109094	1	LMN1, CMD1A, LGMD1B, PRO1, LMNL1	HGPS
1	LMNA	ENSG00000160789	ENST00000515824	retained_intron	KNOWN	None	6636	None	None	156104596	156105199	1	LMN1, CMD1A, LGMD1B, PRO1, LMNL1	HGPS
1	LMNA	ENSG00000160789	ENST00000496738	processed_transcript	KNOWN	None	6636	None	None	156104612	156109094	1	LMN1, CMD1A, LGMD1B, PRO1, LMNL1	HGPS
1	LMNA	ENSG00000160789	ENST00000368298	retained_intron	KNOWN	None	6636	None	None	156104904	156107058	1	LMN1, CMD1A, LGMD1B, PRO1, LMNL1	HGPS
1	LMNA	ENSG00000160789	ENST00000498722	retained_intron	KNOWN	None	6636	None	None	156105524	156107952	1	LMN1, CMD1A, LGMD1B, PRO1, LMNL1	HGPS
1	LMNA	ENSG00000160789	ENST00000508500	protein_coding	NOVEL	None	6636	783	260	156105878	156108962	1	LMN1, CMD1A, LGMD1B, PRO1, LMNL1	HGPS
1	LMNA	ENSG00000160789	ENST00000459904	processed_transcript	PUTATIVE	None	6636	None	None	156106084	156107083	1	LMN1, CMD1A, LGMD1B, PRO1, LMNL1	HGPS
1	LMNA	ENSG00000160789	ENST00000506981	retained_intron	KNOWN	None	6636	None	None	156107253	156108894	1	LMN1, CMD1A, LGMD1B, PRO1, LMNL1	HGPS
1	LMNA	ENSG00000160789	ENST00000347559	protein_coding	KNOWN	None	6636	1905	634	156084461	156109878	1	LMN1, CMD1A, LGMD1B, PRO1, LMNL1	HGPS
1	LMNA	ENSG00000160789	ENST00000361308	protein_coding	KNOWN	CCDS1131	6636	1719	572	156084461	156107656	1	LMN1, CMD1A, LGMD1B, PRO1, LMNL1	HGPS
1	LMNA	ENSG00000160789	ENST00000392353	protein_coding	KNOWN	None	6636	1476	491	156096594	156107656	1	LMN1, CMD1A, LGMD1B, PRO1, LMNL1	HGPS
15	CCPG1	ENSG00000260916	ENST00000564663	protein_coding	PUTATIVE	None	24227	352	116	55632230	55651880	-1	None	KIAA1254, CPR8
15	CCPG1	ENSG00000260916	ENST00000563294	processed_transcript	KNOWN	None	24227	None	None	55632237	55640664	-1	None	KIAA1254, CPR8
15	CCPG1	ENSG00000260916	ENST00000442196	protein_coding	NOVEL	CCDS55966	24227	2424	807	55647437	55700457	-1	None	KIAA1254, CPR8
15	CCPG1	ENSG00000260916	ENST00000310958	protein_coding	KNOWN	CCDS42039	24227	2274	757	55647448	55700708	-1	None	KIAA1254, CPR8
15	CCPG1	ENSG00000260916	ENST00000425574	protein_coding	KNOWN	CCDS55967	24227	1275	424	55647843	55700504	-1	None	KIAA1254, CPR8
15	CCPG1	ENSG00000260916	ENST00000568543	protein_coding	PUTATIVE	None	24227	98	31	55647976	55657474	-1	None	KIAA1254, CPR8
15	CCPG1	ENSG00000260916	ENST00000568592	protein_coding	NOVEL	None	24227	610	202	55648326	55652405	-1	None	KIAA1254, CPR8
15	CCPG1	ENSG00000260916	ENST00000568372	retained_intron	KNOWN	None	24227	None	None	55651037	55665150	-1	None	KIAA1254, CPR8
15	CCPG1	ENSG00000260916	ENST00000568808	nonsense_mediated_decay	KNOWN	None	24227	459	152	55651037	55700477	-1	None	KIAA1254, CPR8
15	CCPG1	ENSG00000260916	ENST00000569205	protein_coding	KNOWN	CCDS42039	24227	2274	757	55651216	55700250	-1	None	KIAA1254, CPR8
15	CCPG1	ENSG00000260916	ENST00000563171	protein_coding	NOVEL	None	24227	722	239	55664071	55700477	-1	None	KIAA1254, CPR8
15	CCPG1	ENSG00000260916	ENST00000570272	protein_coding	KNOWN	None	24227	512	169	55664185	55690466	-1	None	KIAA1254, CPR8
15	CCPG1	ENSG00000260916	ENST00000564092	protein_coding	KNOWN	None	24227	276	91	55669325	55700569	-1	None	KIAA1254, CPR8
5	RUFY1	ENSG00000176783	ENST00000319449	protein_coding	KNOWN	CCDS4445	19760	2127	708	178977559	179037027	1	None	FLJ22251, ZFYVE12, RABIP4
5	RUFY1	ENSG00000176783	ENST00000393448	nonsense_mediated_decay	KNOWN	None	19760	973	323	178977837	179029572	1	None	FLJ22251, ZFYVE12, RABIP4
5	RUFY1	ENSG00000176783	ENST00000502984	protein_coding	NOVEL	None	19760	658	218	178977839	178996383	1	None	FLJ22251, ZFYVE12, RABIP4
5	RUFY1	ENSG00000176783	ENST00000507569	retained_intron	KNOWN	None	19760	None	None	178986693	178989923	1	None	FLJ22251, ZFYVE12, RABIP4
5	RUFY1	ENSG00000176783	ENST00000437570	protein_coding	KNOWN	CCDS34312	19760	1803	600	178986693	179037012	1	None	FLJ22251, ZFYVE12, RABIP4
5	RUFY1	ENSG00000176783	ENST00000393438	protein_coding	KNOWN	CCDS34312	19760	1803	600	178986693	179037013	1	None	FLJ22251, ZFYVE12, RABIP4
5	RUFY1	ENSG00000176783	ENST00000503514	processed_transcript	PUTATIVE	None	19760	None	None	178986742	178994563	1	None	FLJ22251, ZFYVE12, RABIP4
5	RUFY1	ENSG00000176783	ENST00000508609	protein_coding	NOVEL	None	19760	812	269	178989632	179021899	1	None	FLJ22251, ZFYVE12, RABIP4
5	RUFY1	ENSG00000176783	ENST00000514238	processed_transcript	KNOWN	None	19760	None	None	178994511	179017959	1	None	FLJ22251, ZFYVE12, RABIP4
5	RUFY1	ENSG00000176783	ENST00000502434	protein_coding	NOVEL	None	19760	984	327	179004114	179034629	1	None	FLJ22251, ZFYVE12, RABIP4
5	RUFY1	ENSG00000176783	ENST00000509797	retained_intron	KNOWN	None	19760	None	None	179016364	179020614	1	None	FLJ22251, ZFYVE12, RABIP4
5	RUFY1	ENSG00000176783	ENST00000502531	retained_intron	KNOWN	None	19760	None	None	179023561	179033585	1	None	FLJ22251, ZFYVE12, RABIP4
5	RUFY1	ENSG00000176783	ENST00000503583	retained_intron	KNOWN	None	19760	None	None	179033904	179036473	1	None	FLJ22251, ZFYVE12, RABIP4
5	RUFY1	ENSG00000176783	ENST00000508797	processed_transcript	KNOWN	None	19760	None	None	179034267	179036971	1	None	FLJ22251, ZFYVE12, RABIP4
5	RUFY1	ENSG00000176783	ENST00000377001	protein_coding	KNOWN	None	19760	1239	412	178977571	179037019	1	None	FLJ22251, ZFYVE12, RABIP4
1	GPR137B	ENSG00000077585	ENST00000366592	protein_coding	KNOWN	CCDS1609	11862	1200	399	236305832	236372206	1	TM7SF1	None
1	GPR137B	ENSG00000077585	ENST00000366591	protein_coding	KNOWN	None	11862	702	233	236305844	236343488	1	TM7SF1	None
1	GPR137B	ENSG00000077585	ENST00000419162	protein_coding	KNOWN	None	11862	385	127	236306068	236368498	1	TM7SF1	None
1	GPR137B	ENSG00000077585	ENST00000454895	protein_coding	KNOWN	None	11862	692	229	236332001	236371782	1	TM7SF1	None
1	GPR137B	ENSG00000077585	ENST00000477559	processed_transcript	KNOWN	None	11862	None	None	236347078	236385165	1	TM7SF1	None
1	CACHD1	ENSG00000158966	ENST00000290039	protein_coding	KNOWN	CCDS628	29314	3672	1223	64936475	65158741	1	VWCD1	KIAA1573
1	CACHD1	ENSG00000158966	ENST00000495994	processed_transcript	KNOWN	None	29314	None	None	64971598	65158736	1	VWCD1	KIAA1573
1	CACHD1	ENSG00000158966	ENST00000470527	processed_transcript	KNOWN	None	29314	None	None	65029360	65158741	1	VWCD1	KIAA1573
1	CACHD1	ENSG00000158966	ENST00000486580	retained_intron	KNOWN	None	29314	None	None	65129883	65131823	1	VWCD1	KIAA1573
1	CACHD1	ENSG00000158966	ENST00000371073	protein_coding	KNOWN	None	29314	3825	1274	64936428	65158741	1	VWCD1	KIAA1573
3	ZXDC	ENSG00000070476	ENST00000514463	retained_intron	KNOWN	None	28160	None	None	126156444	126162252	-1	None	MGC11349, FLJ13861
3	ZXDC	ENSG00000070476	ENST00000389709	protein_coding	KNOWN	CCDS43145	28160	2577	858	126156444	126194762	-1	None	MGC11349, FLJ13861
3	ZXDC	ENSG00000070476	ENST00000515545	nonsense_mediated_decay	KNOWN	None	28160	1255	417	126156462	126193830	-1	None	MGC11349, FLJ13861
3	ZXDC	ENSG00000070476	ENST00000336332	protein_coding	KNOWN	CCDS43146	28160	2133	710	126179926	126194708	-1	None	MGC11349, FLJ13861
2	ALS2	ENSG00000003393	ENST00000264276	protein_coding	KNOWN	CCDS42800	443	4974	1657	202565277	202645912	-1	ALS2CR6	None
2	ALS2	ENSG00000003393	ENST00000439495	nonsense_mediated_decay	KNOWN	None	443	1756	584	202566410	202609111	-1	ALS2CR6	None
2	ALS2	ENSG00000003393	ENST00000489440	processed_transcript	KNOWN	None	443	None	None	202581365	202591275	-1	ALS2CR6	None
2	ALS2	ENSG00000003393	ENST00000482891	retained_intron	KNOWN	None	443	None	None	202586713	202645679	-1	ALS2CR6	None
2	ALS2	ENSG00000003393	ENST00000494017	processed_transcript	KNOWN	None	443	None	None	202591559	202598176	-1	ALS2CR6	None
2	ALS2	ENSG00000003393	ENST00000483703	processed_transcript	KNOWN	None	443	None	None	202593341	202603447	-1	ALS2CR6	None
2	ALS2	ENSG00000003393	ENST00000482789	retained_intron	KNOWN	None	443	None	None	202605907	202645679	-1	ALS2CR6	None
2	ALS2	ENSG00000003393	ENST00000467448	protein_coding	KNOWN	CCDS46492	443	1191	396	202624183	202645679	-1	ALS2CR6	None
2	ALS2	ENSG00000003393	ENST00000496244	processed_transcript	KNOWN	None	443	None	None	202626126	202645679	-1	ALS2CR6	None
2	ALS2	ENSG00000003393	ENST00000409632	protein_coding	KNOWN	None	443	418	138	202626299	202645645	-1	ALS2CR6	None
2	ALS2	ENSG00000003393	ENST00000410052	protein_coding	KNOWN	None	443	319	105	202626398	202645674	-1	ALS2CR6	None
2	ALS2	ENSG00000003393	ENST00000462747	processed_transcript	KNOWN	None	443	None	None	202630106	202645634	-1	ALS2CR6	None
2	ALS2	ENSG00000003393	ENST00000457679	protein_coding	KNOWN	None	443	1731	576	202566410	202609111	-1	ALS2CR6	None
8	NPBWR1	ENSG00000183729	ENST00000331251	protein_coding	KNOWN	CCDS6151	4522	987	328	53850991	53853677	1	GPR7	None
7	AP1S1	ENSG00000106367	ENST00000337619	protein_coding	KNOWN	CCDS47669	559	477	158	100797678	100804558	1	CLAPS1	AP19, SIGMA1A, WUGSC:H_DJ0747G18.2
7	AP1S1	ENSG00000106367	ENST00000443943	nonsense_mediated_decay	KNOWN	CCDS47669	559	477	158	100797764	100804877	1	CLAPS1	AP19, SIGMA1A, WUGSC:H_DJ0747G18.2
7	AP1S1	ENSG00000106367	ENST00000429457	protein_coding	PUTATIVE	None	559	573	190	100797806	100803818	1	CLAPS1	AP19, SIGMA1A, WUGSC:H_DJ0747G18.2
8	TMEM74	ENSG00000164841	ENST00000518838	processed_transcript	KNOWN	None	26409	None	None	109619079	109799823	-1	None	FLJ30668, NET36
8	TMEM74	ENSG00000164841	ENST00000297459	protein_coding	KNOWN	CCDS6310	26409	918	305	109795766	109799844	-1	None	FLJ30668, NET36
1	ERO1LB	ENSG00000086619	ENST00000354619	protein_coding	KNOWN	CCDS31064	14355	1404	467	236378855	236445285	-1	None	ERO1-L(beta)
1	ERO1LB	ENSG00000086619	ENST00000264181	protein_coding	KNOWN	None	14355	522	173	236383473	236389795	-1	None	ERO1-L(beta)
1	ERO1LB	ENSG00000086619	ENST00000366589	protein_coding	KNOWN	None	14355	215	70	236399632	236444901	-1	None	ERO1-L(beta)
1	ERO1LB	ENSG00000086619	ENST00000327333	protein_coding	KNOWN	None	14355	435	144	236399285	236445319	-1	None	ERO1-L(beta)
1	RAVER2	ENSG00000162437	ENST00000371072	protein_coding	KNOWN	CCDS41345	25577	2037	678	65210778	65298915	1	None	KIAA1579, FLJ10770
1	RAVER2	ENSG00000162437	ENST00000418058	nonsense_mediated_decay	KNOWN	None	25577	501	166	65243749	65282192	1	None	KIAA1579, FLJ10770
1	RAVER2	ENSG00000162437	ENST00000294428	protein_coding	KNOWN	None	25577	2076	691	65210778	65298912	1	None	KIAA1579, FLJ10770
1	RAVER2	ENSG00000162437	ENST00000430964	protein_coding	KNOWN	None	25577	693	230	65243747	65296743	1	None	KIAA1579, FLJ10770
6	TMEM242	ENSG00000215712	ENST00000400788	protein_coding	KNOWN	CCDS43519	17206	426	141	157710418	157744633	-1	C6orf35	BM033
6	TMEM242	ENSG00000215712	ENST00000367144	protein_coding	KNOWN	None	17206	387	128	157739299	157744633	-1	C6orf35	BM033
16	SCNN1B	ENSG00000168447	ENST00000569789	processed_transcript	KNOWN	None	10600	None	None	23289552	23364234	1	None	ENaCbeta
16	SCNN1B	ENSG00000168447	ENST00000343070	protein_coding	KNOWN	CCDS10609	10600	1923	640	23313591	23392620	1	None	ENaCbeta
16	SCNN1B	ENSG00000168447	ENST00000307331	protein_coding	KNOWN	None	10600	2058	685	23315294	23392122	1	None	ENaCbeta
16	SCNN1B	ENSG00000168447	ENST00000564275	nonsense_mediated_decay	KNOWN	None	10600	891	296	23359913	23392124	1	None	ENaCbeta
16	SCNN1B	ENSG00000168447	ENST00000568085	protein_coding	PUTATIVE	None	10600	1815	604	23359913	23392124	1	None	ENaCbeta
16	SCNN1B	ENSG00000168447	ENST00000568923	protein_coding	PUTATIVE	None	10600	1842	613	23359913	23392124	1	None	ENaCbeta
16	SCNN1B	ENSG00000168447	ENST00000566870	retained_intron	KNOWN	None	10600	None	None	23360116	23364565	1	None	ENaCbeta
16	SCNN1B	ENSG00000168447	ENST00000566441	retained_intron	KNOWN	None	10600	None	None	23366738	23383504	1	None	ENaCbeta
16	SCNN1B	ENSG00000168447	ENST00000566647	processed_transcript	PUTATIVE	None	10600	None	None	23369523	23370700	1	None	ENaCbeta
4	PPP2R2C	ENSG00000074211	ENST00000335585	protein_coding	KNOWN	CCDS3388	9306	1344	447	6322305	6383597	-1	None	PR52, IMYPNO, MGC33570, PR55G
4	PPP2R2C	ENSG00000074211	ENST00000506140	protein_coding	NOVEL	CCDS56305	9306	1323	440	6324671	6565327	-1	None	PR52, IMYPNO, MGC33570, PR55G
4	PPP2R2C	ENSG00000074211	ENST00000515571	protein_coding	KNOWN	CCDS56304	9306	1293	430	6324773	6422845	-1	None	PR52, IMYPNO, MGC33570, PR55G
4	PPP2R2C	ENSG00000074211	ENST00000382599	protein_coding	NOVEL	None	9306	1344	447	6324783	6474173	-1	None	PR52, IMYPNO, MGC33570, PR55G
4	PPP2R2C	ENSG00000074211	ENST00000507294	protein_coding	NOVEL	CCDS56305	9306	1323	440	6324888	6557405	-1	None	PR52, IMYPNO, MGC33570, PR55G
4	PPP2R2C	ENSG00000074211	ENST00000513943	retained_intron	KNOWN	None	9306	None	None	6335373	6386553	-1	None	PR52, IMYPNO, MGC33570, PR55G
4	PPP2R2C	ENSG00000074211	ENST00000314348	processed_transcript	KNOWN	None	9306	None	None	6349653	6525274	-1	None	PR52, IMYPNO, MGC33570, PR55G
4	PPP2R2C	ENSG00000074211	ENST00000509917	nonsense_mediated_decay	KNOWN	None	9306	129	42	6374319	6383594	-1	None	PR52, IMYPNO, MGC33570, PR55G
4	PPP2R2C	ENSG00000074211	ENST00000507028	processed_transcript	KNOWN	None	9306	None	None	6381760	6473413	-1	None	PR52, IMYPNO, MGC33570, PR55G
19	ZNF829	ENSG00000185869	ENST00000520965	protein_coding	KNOWN	CCDS59380	34032	1542	513	37379026	37406923	-1	None	DKFZp779O175
19	ZNF829	ENSG00000185869	ENST00000391711	protein_coding	KNOWN	CCDS42557	34032	1299	432	37382253	37407193	-1	None	DKFZp779O175
19	ZNF829	ENSG00000185869	ENST00000520907	retained_intron	KNOWN	None	34032	None	None	37396336	37407193	-1	None	DKFZp779O175
17	CCL3L1	ENSG00000205021	ENST00000498676	nonsense_mediated_decay	KNOWN	None	10628	126	41	34623842	34625716	-1	D17S1718, SCYA3L, SCYA3L1	G0S19-2, LD78BETA
17	CCL3L1	ENSG00000205021	ENST00000422211	protein_coding	KNOWN	CCDS11310	10628	282	93	34623842	34625719	-1	D17S1718, SCYA3L, SCYA3L1	G0S19-2, LD78BETA
17	CCL3L1	ENSG00000205021	ENST00000492788	retained_intron	KNOWN	None	10628	None	None	34623842	34625720	-1	D17S1718, SCYA3L, SCYA3L1	G0S19-2, LD78BETA
17	CCL3L1	ENSG00000205021	ENST00000542124	protein_coding	KNOWN	None	10628	144	47	34624267	34625731	-1	D17S1718, SCYA3L, SCYA3L1	G0S19-2, LD78BETA
X	HPRT1	ENSG00000165704	ENST00000298556	protein_coding	KNOWN	CCDS14641	5157	657	218	133594183	133634698	1	HPRT	HGPRT
X	HPRT1	ENSG00000165704	ENST00000462974	processed_transcript	KNOWN	None	5157	None	None	133594381	133632671	1	HPRT	HGPRT
X	HPRT1	ENSG00000165704	ENST00000475720	processed_transcript	KNOWN	None	5157	None	None	133607404	133654543	1	HPRT	HGPRT
6	MRAP2	ENSG00000135324	ENST00000257776	protein_coding	KNOWN	CCDS5001	21232	618	205	84743475	84800600	1	C6orf117	bA51G5.2
12	BCDIN3D	ENSG00000186666	ENST00000333924	protein_coding	KNOWN	CCDS8790	27050	879	292	50231573	50236912	-1	None	None
12	BCDIN3D	ENSG00000186666	ENST00000550861	retained_intron	KNOWN	None	27050	None	None	50232379	50236877	-1	None	None
1	JAK1	ENSG00000162434	ENST00000342505	protein_coding	KNOWN	CCDS41346	6190	3465	1154	65298912	65432187	-1	JAK1B	JAK1A, JTK3
1	JAK1	ENSG00000162434	ENST00000481702	processed_transcript	PUTATIVE	None	6190	None	None	65305179	65306941	-1	JAK1B	JAK1A, JTK3
1	JAK1	ENSG00000162434	ENST00000465376	processed_transcript	KNOWN	None	6190	None	None	65307157	65313790	-1	JAK1B	JAK1A, JTK3
1	JAK1	ENSG00000162434	ENST00000471473	processed_transcript	KNOWN	None	6190	None	None	65309779	65312592	-1	JAK1B	JAK1A, JTK3
1	JAK1	ENSG00000162434	ENST00000494904	processed_transcript	PUTATIVE	None	6190	None	None	65325325	65330539	-1	JAK1B	JAK1A, JTK3
1	JAK1	ENSG00000162434	ENST00000467764	processed_transcript	PUTATIVE	None	6190	None	None	65341668	65344746	-1	JAK1B	JAK1A, JTK3
3	None	ENSG00000228008	ENST00000424174	processed_transcript	PUTATIVE	None	None	None	None	49941278	49943670	1	None	None
3	None	ENSG00000228008	ENST00000412015	processed_transcript	PUTATIVE	None	None	None	None	49941315	49943673	1	None	None
3	None	ENSG00000228008	ENST00000419183	protein_coding	PUTATIVE	None	None	198	65	49941420	49954370	1	None	None
7	VGF	ENSG00000128564	ENST00000249330	protein_coding	KNOWN	CCDS5712	12684	1848	615	100805790	100808874	-1	None	None
7	VGF	ENSG00000128564	ENST00000445482	protein_coding	KNOWN	CCDS5712	12684	1848	615	100805797	100808395	-1	None	None
8	TRHR	ENSG00000174417	ENST00000518632	protein_coding	KNOWN	CCDS6311	12299	1197	398	110098850	110131796	1	None	None
8	TRHR	ENSG00000174417	ENST00000311762	protein_coding	KNOWN	CCDS6311	12299	1197	398	110099653	110131813	1	None	None
1	EDARADD	ENSG00000186197	ENST00000439430	protein_coding	KNOWN	None	14341	252	83	236511562	236645619	1	None	None
1	EDARADD	ENSG00000186197	ENST00000334232	protein_coding	KNOWN	CCDS1610	14341	648	215	236557578	236645992	1	None	None
1	EDARADD	ENSG00000186197	ENST00000359362	protein_coding	KNOWN	CCDS31065	14341	618	205	236558716	236648214	1	None	None
8	OPRK1	ENSG00000082556	ENST00000265572	protein_coding	KNOWN	CCDS6152	8154	1143	380	54138284	54164257	-1	None	KOR
8	OPRK1	ENSG00000082556	ENST00000522508	nonsense_mediated_decay	KNOWN	None	8154	351	116	54141351	54164177	-1	None	KOR
8	OPRK1	ENSG00000082556	ENST00000524278	protein_coding	PUTATIVE	None	8154	876	291	54141763	54151292	-1	None	KOR
8	OPRK1	ENSG00000082556	ENST00000520287	protein_coding	KNOWN	CCDS6152	8154	1143	380	54141773	54163972	-1	None	KOR
12	GLIPR1L1	ENSG00000173401	ENST00000378695	protein_coding	KNOWN	None	28392	729	242	75728419	75764022	1	None	MGC26856
12	GLIPR1L1	ENSG00000173401	ENST00000312442	protein_coding	KNOWN	CCDS9009	28392	702	233	75728463	75764340	1	None	MGC26856
12	GLIPR1L1	ENSG00000173401	ENST00000548623	processed_transcript	PUTATIVE	None	28392	None	None	75760613	75764167	1	None	MGC26856
12	GLIPR1L1	ENSG00000173401	ENST00000547144	protein_coding	PUTATIVE	None	28392	119	38	75760717	75764164	1	None	MGC26856
1	SEMA4A	ENSG00000196189	ENST00000435124	protein_coding	KNOWN	None	10729	963	320	156117157	156131289	1	SEMAB	SemB, FLJ12287, CORD10
1	SEMA4A	ENSG00000196189	ENST00000414683	protein_coding	KNOWN	None	10729	661	219	156119514	156131284	1	SEMAB	SemB, FLJ12287, CORD10
1	SEMA4A	ENSG00000196189	ENST00000355014	protein_coding	KNOWN	CCDS1132	10729	2286	761	156119810	156147535	1	SEMAB	SemB, FLJ12287, CORD10
1	SEMA4A	ENSG00000196189	ENST00000485575	processed_transcript	KNOWN	None	10729	None	None	156119994	156126365	1	SEMAB	SemB, FLJ12287, CORD10
1	SEMA4A	ENSG00000196189	ENST00000368285	protein_coding	KNOWN	CCDS1132	10729	2286	761	156123318	156147535	1	SEMAB	SemB, FLJ12287, CORD10
1	SEMA4A	ENSG00000196189	ENST00000368284	protein_coding	KNOWN	CCDS53378	10729	1890	629	156123369	156147534	1	SEMAB	SemB, FLJ12287, CORD10
1	SEMA4A	ENSG00000196189	ENST00000438830	protein_coding	KNOWN	None	10729	710	235	156123398	156130819	1	SEMAB	SemB, FLJ12287, CORD10
1	SEMA4A	ENSG00000196189	ENST00000368282	protein_coding	KNOWN	CCDS1132	10729	2286	761	156124162	156147543	1	SEMAB	SemB, FLJ12287, CORD10
1	SEMA4A	ENSG00000196189	ENST00000470306	retained_intron	KNOWN	None	10729	None	None	156124668	156128822	1	SEMAB	SemB, FLJ12287, CORD10
1	SEMA4A	ENSG00000196189	ENST00000487358	processed_transcript	KNOWN	None	10729	None	None	156126216	156145023	1	SEMAB	SemB, FLJ12287, CORD10
1	SEMA4A	ENSG00000196189	ENST00000466698	retained_intron	KNOWN	None	10729	None	None	156130335	156131460	1	SEMAB	SemB, FLJ12287, CORD10
1	SEMA4A	ENSG00000196189	ENST00000469065	retained_intron	KNOWN	None	10729	None	None	156130741	156133089	1	SEMAB	SemB, FLJ12287, CORD10
1	SEMA4A	ENSG00000196189	ENST00000462892	retained_intron	KNOWN	None	10729	None	None	156131018	156145438	1	SEMAB	SemB, FLJ12287, CORD10
1	SEMA4A	ENSG00000196189	ENST00000484155	processed_transcript	PUTATIVE	None	10729	None	None	156145124	156146447	1	SEMAB	SemB, FLJ12287, CORD10
1	SEMA4A	ENSG00000196189	ENST00000368286	protein_coding	KNOWN	CCDS53378	10729	1890	629	156123388	156147534	1	SEMAB	SemB, FLJ12287, CORD10
3	PRKCD	ENSG00000163932	ENST00000478843	protein_coding	KNOWN	None	9399	233	76	53190025	53213710	1	None	None
3	PRKCD	ENSG00000163932	ENST00000394729	protein_coding	KNOWN	CCDS2870	9399	2031	676	53195136	53226733	1	None	None
3	PRKCD	ENSG00000163932	ENST00000330452	protein_coding	KNOWN	CCDS2870	9399	2031	676	53195215	53226570	1	None	None
3	PRKCD	ENSG00000163932	ENST00000477794	processed_transcript	KNOWN	None	9399	None	None	53195257	53212553	1	None	None
3	PRKCD	ENSG00000163932	ENST00000487897	protein_coding	KNOWN	None	9399	376	124	53195537	53215283	1	None	None
3	PRKCD	ENSG00000163932	ENST00000464818	protein_coding	PUTATIVE	None	9399	671	222	53199145	53218989	1	None	None
17	KDM6B	ENSG00000132510	ENST00000571047	processed_transcript	KNOWN	None	29012	None	None	7743222	7748665	1	JMJD3	KIAA0346
17	KDM6B	ENSG00000132510	ENST00000254846	protein_coding	KNOWN	CCDS32552	29012	5049	1682	7743222	7758114	1	JMJD3	KIAA0346
17	KDM6B	ENSG00000132510	ENST00000448097	protein_coding	KNOWN	None	29012	4932	1643	7743280	7756998	1	JMJD3	KIAA0346
17	KDM6B	ENSG00000132510	ENST00000572030	processed_transcript	KNOWN	None	29012	None	None	7743309	7743999	1	JMJD3	KIAA0346
17	KDM6B	ENSG00000132510	ENST00000575521	processed_transcript	KNOWN	None	29012	None	None	7747525	7748290	1	JMJD3	KIAA0346
17	KDM6B	ENSG00000132510	ENST00000570632	protein_coding	NOVEL	None	29012	1085	360	7748233	7750889	1	JMJD3	KIAA0346
7	NAT16	ENSG00000167011	ENST00000300303	protein_coding	KNOWN	CCDS5713	22030	1110	369	100813774	100823557	-1	C7orf52	FLJ39237
7	NAT16	ENSG00000167011	ENST00000455377	protein_coding	KNOWN	CCDS5713	22030	1110	369	100815196	100823496	-1	C7orf52	FLJ39237
7	NAT16	ENSG00000167011	ENST00000444446	protein_coding	KNOWN	None	22030	469	155	100816645	100822517	-1	C7orf52	FLJ39237
7	NAT16	ENSG00000167011	ENST00000443096	protein_coding	PUTATIVE	None	22030	339	112	100816981	100823496	-1	C7orf52	FLJ39237
1	AK4	ENSG00000162433	ENST00000497030	processed_transcript	KNOWN	None	363	None	None	65613232	65691775	1	AK3, AK3L1	None
1	AK4	ENSG00000162433	ENST00000470888	processed_transcript	KNOWN	None	363	None	None	65613352	65690520	1	AK3, AK3L1	None
1	AK4	ENSG00000162433	ENST00000546702	protein_coding	PUTATIVE	None	363	516	171	65613353	65692574	1	AK3, AK3L1	None
1	AK4	ENSG00000162433	ENST00000327299	protein_coding	KNOWN	CCDS629	363	672	223	65613886	65697819	1	AK3, AK3L1	None
1	AK4	ENSG00000162433	ENST00000474968	processed_transcript	KNOWN	None	363	None	None	65614685	65692122	1	AK3, AK3L1	None
1	AK4	ENSG00000162433	ENST00000479060	processed_transcript	KNOWN	None	363	None	None	65631615	65692112	1	AK3, AK3L1	None
1	AK4	ENSG00000162433	ENST00000545314	protein_coding	KNOWN	CCDS629	363	672	223	65613232	65697828	1	AK3, AK3L1	None
1	AK4	ENSG00000162433	ENST00000395334	protein_coding	KNOWN	CCDS629	363	672	223	65613513	65697828	1	AK3, AK3L1	None
8	EEF1D	ENSG00000104529	ENST00000532400	protein_coding	NOVEL	None	3211	300	99	144661892	144679566	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000529576	protein_coding	PUTATIVE	None	3211	360	119	144661898	144662807	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000530109	protein_coding	PUTATIVE	None	3211	469	155	144661898	144662910	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000527741	retained_intron	KNOWN	None	3211	None	None	144661898	144666421	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000532741	protein_coding	PUTATIVE	None	3211	2094	697	144661898	144672630	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000526838	protein_coding	NOVEL	CCDS56559	3211	789	262	144661898	144679583	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000442189	protein_coding	KNOWN	CCDS6404	3211	1944	647	144661898	144679585	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000528610	protein_coding	KNOWN	CCDS47930	3211	774	257	144661898	144679595	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000533833	nonsense_mediated_decay	KNOWN	None	3211	321	106	144661898	144679598	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000395119	protein_coding	KNOWN	CCDS6405	3211	846	281	144661898	144679849	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000529272	protein_coding	NOVEL	CCDS6405	3211	846	281	144661898	144679914	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000529007	nonsense_mediated_decay	KNOWN	None	3211	393	130	144661899	144679557	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000531621	protein_coding	NOVEL	None	3211	717	238	144661899	144679570	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000524624	protein_coding	KNOWN	CCDS47930	3211	774	257	144661906	144679585	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000524397	nonsense_mediated_decay	KNOWN	None	3211	393	130	144662180	144679574	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000534380	protein_coding	KNOWN	None	3211	785	260	144662204	144679532	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000528382	protein_coding	PUTATIVE	None	3211	110	35	144662249	144668987	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000534377	protein_coding	NOVEL	None	3211	561	186	144662356	144679569	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000526786	retained_intron	KNOWN	None	3211	None	None	144662559	144679558	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000533204	protein_coding	KNOWN	None	3211	612	203	144662676	144679564	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000530191	protein_coding	KNOWN	None	3211	612	203	144662676	144679572	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000530616	protein_coding	PUTATIVE	None	3211	632	209	144662683	144671392	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000531218	protein_coding	KNOWN	None	3211	596	197	144662692	144679550	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000530848	retained_intron	KNOWN	None	3211	None	None	144662734	144679570	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000533494	protein_coding	KNOWN	None	3211	505	167	144662783	144679535	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000530445	protein_coding	KNOWN	None	3211	498	165	144662790	144669734	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000529516	protein_coding	NOVEL	None	3211	419	138	144662812	144679567	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000534232	retained_intron	KNOWN	None	3211	None	None	144662833	144679554	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000533749	protein_coding	PUTATIVE	None	3211	413	136	144663249	144681711	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000525695	retained_intron	KNOWN	None	3211	None	None	144668202	144679551	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000526340	protein_coding	KNOWN	None	3211	189	62	144668389	144679563	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000525223	protein_coding	KNOWN	None	3211	117	38	144668899	144671486	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000532543	protein_coding	KNOWN	None	3211	117	38	144668899	144678924	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000531931	protein_coding	KNOWN	None	3211	106	34	144668910	144679583	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000526710	protein_coding	KNOWN	None	3211	901	299	144671351	144679612	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000531281	protein_coding	KNOWN	None	3211	771	256	144671481	144678299	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000532596	protein_coding	KNOWN	None	3211	571	189	144671681	144679585	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000524883	protein_coding	KNOWN	None	3211	542	179	144671710	144673063	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000531670	protein_coding	KNOWN	None	3211	537	178	144671715	144678515	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000528519	protein_coding	KNOWN	None	3211	472	156	144671780	144674339	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000529832	protein_coding	KNOWN	None	3211	438	145	144671814	144679585	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000530306	protein_coding	KNOWN	None	3211	387	128	144671865	144679585	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000530545	protein_coding	KNOWN	None	3211	252	83	144672000	144679585	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000525261	protein_coding	KNOWN	None	3211	244	80	144672008	144679585	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000534804	protein_coding	KNOWN	None	3211	205	67	144672047	144679585	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000524900	protein_coding	KNOWN	None	3211	188	61	144672064	144679581	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000526135	protein_coding	KNOWN	None	3211	160	52	144672092	144675063	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000531953	protein_coding	KNOWN	None	3211	148	48	144672104	144679275	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000526133	protein_coding	KNOWN	None	3211	110	35	144672142	144679281	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000534475	protein_coding	KNOWN	None	3211	94	30	144672158	144679583	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000528303	protein_coding	KNOWN	None	3211	64	20	144672188	144679585	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000531770	processed_transcript	PUTATIVE	None	3211	None	None	144674824	144679584	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000423316	protein_coding	KNOWN	CCDS6404	3211	1944	647	144661898	144679845	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000419152	protein_coding	KNOWN	CCDS6405	3211	846	281	144661867	144679845	-1	None	EF-1D, FLJ20897
8	EEF1D	ENSG00000104529	ENST00000317198	protein_coding	KNOWN	CCDS6405	3211	846	281	144661898	144679310	-1	None	EF-1D, FLJ20897
2	CDK15	ENSG00000138395	ENST00000451080	nonsense_mediated_decay	KNOWN	None	14434	165	54	202655184	202741306	1	ALS2CR7, PFTK2	PFTAIRE2
2	CDK15	ENSG00000138395	ENST00000410091	protein_coding	KNOWN	CCDS2350	14434	1155	384	202655184	202758266	1	ALS2CR7, PFTK2	PFTAIRE2
2	CDK15	ENSG00000138395	ENST00000493754	processed_transcript	KNOWN	None	14434	None	None	202655195	202672661	1	ALS2CR7, PFTK2	PFTAIRE2
2	CDK15	ENSG00000138395	ENST00000260967	protein_coding	KNOWN	CCDS2350	14434	1155	384	202671098	202758267	1	ALS2CR7, PFTK2	PFTAIRE2
2	CDK15	ENSG00000138395	ENST00000488419	processed_transcript	KNOWN	None	14434	None	None	202671302	202726259	1	ALS2CR7, PFTK2	PFTAIRE2
2	CDK15	ENSG00000138395	ENST00000450471	protein_coding	PUTATIVE	CCDS58747	14434	1290	429	202671302	202760273	1	ALS2CR7, PFTK2	PFTAIRE2
2	CDK15	ENSG00000138395	ENST00000434439	protein_coding	PUTATIVE	CCDS58746	14434	1203	400	202671344	202754180	1	ALS2CR7, PFTK2	PFTAIRE2
2	CDK15	ENSG00000138395	ENST00000460149	retained_intron	KNOWN	None	14434	None	None	202719483	202758083	1	ALS2CR7, PFTK2	PFTAIRE2
2	CDK15	ENSG00000138395	ENST00000466337	retained_intron	KNOWN	None	14434	None	None	202719513	202758106	1	ALS2CR7, PFTK2	PFTAIRE2
2	CDK15	ENSG00000138395	ENST00000374598	protein_coding	KNOWN	None	14434	1308	435	202671388	202758266	1	ALS2CR7, PFTK2	PFTAIRE2
1	SLC25A44	ENSG00000160785	ENST00000359511	protein_coding	KNOWN	CCDS1133	29036	945	314	156163880	156182587	1	None	FLJ90431, KIAA0446
1	SLC25A44	ENSG00000160785	ENST00000469537	processed_transcript	KNOWN	None	29036	None	None	156165996	156182586	1	None	FLJ90431, KIAA0446
1	SLC25A44	ENSG00000160785	ENST00000482737	processed_transcript	PUTATIVE	None	29036	None	None	156169409	156169977	1	None	FLJ90431, KIAA0446
1	SLC25A44	ENSG00000160785	ENST00000468973	processed_transcript	KNOWN	None	29036	None	None	156170181	156180218	1	None	FLJ90431, KIAA0446
1	SLC25A44	ENSG00000160785	ENST00000423538	protein_coding	KNOWN	None	29036	876	291	156163907	156180491	1	None	FLJ90431, KIAA0446
11	ROM1	ENSG00000149489	ENST00000525801	protein_coding	PUTATIVE	None	10254	176	57	62379194	62381943	1	None	TSPAN23, ROM
11	ROM1	ENSG00000149489	ENST00000534093	protein_coding	PUTATIVE	None	10254	318	105	62379258	62382572	1	None	TSPAN23, ROM
11	ROM1	ENSG00000149489	ENST00000529273	processed_transcript	PUTATIVE	None	10254	None	None	62379884	62380214	1	None	TSPAN23, ROM
11	ROM1	ENSG00000149489	ENST00000278833	protein_coding	KNOWN	CCDS8024	10254	1056	351	62380213	62382592	1	None	TSPAN23, ROM
11	ROM1	ENSG00000149489	ENST00000525947	protein_coding	PUTATIVE	None	10254	302	99	62381001	62382185	1	None	TSPAN23, ROM
3	MON1A	ENSG00000164077	ENST00000296473	protein_coding	KNOWN	CCDS2808	28207	1959	652	49946302	49967578	-1	None	MGC13272, SAND1
3	MON1A	ENSG00000164077	ENST00000455683	protein_coding	KNOWN	CCDS46830	28207	1473	490	49946306	49967322	-1	None	MGC13272, SAND1
3	MON1A	ENSG00000164077	ENST00000417270	protein_coding	NOVEL	None	28207	1692	563	49946306	49967606	-1	None	MGC13272, SAND1
3	MON1A	ENSG00000164077	ENST00000486107	retained_intron	KNOWN	None	28207	None	None	49946308	49967322	-1	None	MGC13272, SAND1
3	MON1A	ENSG00000164077	ENST00000484985	processed_transcript	KNOWN	None	28207	None	None	49948965	49966966	-1	None	MGC13272, SAND1
3	MON1A	ENSG00000164077	ENST00000483022	processed_transcript	KNOWN	None	28207	None	None	49949054	49967267	-1	None	MGC13272, SAND1
3	MON1A	ENSG00000164077	ENST00000493206	processed_transcript	KNOWN	None	28207	None	None	49949199	49967038	-1	None	MGC13272, SAND1
3	MON1A	ENSG00000164077	ENST00000473451	retained_intron	KNOWN	None	28207	None	None	49949830	49967320	-1	None	MGC13272, SAND1
8	ATP6V1H	ENSG00000047249	ENST00000355221	protein_coding	KNOWN	CCDS6154	18303	1398	465	54628117	54756118	-1	None	CGI-11, SFD, VMA13, SFDalpha, SFDbeta
8	ATP6V1H	ENSG00000047249	ENST00000518072	retained_intron	KNOWN	None	18303	None	None	54628230	54656275	-1	None	CGI-11, SFD, VMA13, SFDalpha, SFDbeta
8	ATP6V1H	ENSG00000047249	ENST00000522159	processed_transcript	PUTATIVE	None	18303	None	None	54628233	54652183	-1	None	CGI-11, SFD, VMA13, SFDalpha, SFDbeta
8	ATP6V1H	ENSG00000047249	ENST00000523343	processed_transcript	PUTATIVE	None	18303	None	None	54628233	54708321	-1	None	CGI-11, SFD, VMA13, SFDalpha, SFDbeta
8	ATP6V1H	ENSG00000047249	ENST00000520188	protein_coding	PUTATIVE	None	18303	1332	443	54628233	54752521	-1	None	CGI-11, SFD, VMA13, SFDalpha, SFDbeta
8	ATP6V1H	ENSG00000047249	ENST00000359530	protein_coding	KNOWN	CCDS6153	18303	1452	483	54628233	54755822	-1	None	CGI-11, SFD, VMA13, SFDalpha, SFDbeta
8	ATP6V1H	ENSG00000047249	ENST00000523899	processed_transcript	KNOWN	None	18303	None	None	54628243	54682248	-1	None	CGI-11, SFD, VMA13, SFDalpha, SFDbeta
8	ATP6V1H	ENSG00000047249	ENST00000396774	protein_coding	KNOWN	CCDS6153	18303	1452	483	54628291	54755602	-1	None	CGI-11, SFD, VMA13, SFDalpha, SFDbeta
8	ATP6V1H	ENSG00000047249	ENST00000524164	nonsense_mediated_decay	KNOWN	None	18303	147	48	54628460	54755853	-1	None	CGI-11, SFD, VMA13, SFDalpha, SFDbeta
8	ATP6V1H	ENSG00000047249	ENST00000523426	processed_transcript	KNOWN	None	18303	None	None	54656147	54714428	-1	None	CGI-11, SFD, VMA13, SFDalpha, SFDbeta
8	ATP6V1H	ENSG00000047249	ENST00000521707	retained_intron	KNOWN	None	18303	None	None	54668822	54684625	-1	None	CGI-11, SFD, VMA13, SFDalpha, SFDbeta
8	ATP6V1H	ENSG00000047249	ENST00000521900	processed_transcript	KNOWN	None	18303	None	None	54682214	54730025	-1	None	CGI-11, SFD, VMA13, SFDalpha, SFDbeta
8	ATP6V1H	ENSG00000047249	ENST00000522849	nonsense_mediated_decay	KNOWN	None	18303	261	86	54708310	54730063	-1	None	CGI-11, SFD, VMA13, SFDalpha, SFDbeta
8	ATP6V1H	ENSG00000047249	ENST00000521377	retained_intron	KNOWN	None	18303	None	None	54727235	54745749	-1	None	CGI-11, SFD, VMA13, SFDalpha, SFDbeta
8	ATP6V1H	ENSG00000047249	ENST00000519588	nonsense_mediated_decay	KNOWN	None	18303	111	36	54727292	54755805	-1	None	CGI-11, SFD, VMA13, SFDalpha, SFDbeta
8	ATP6V1H	ENSG00000047249	ENST00000521275	protein_coding	KNOWN	None	18303	306	101	54742004	54755577	-1	None	CGI-11, SFD, VMA13, SFDalpha, SFDbeta
8	ATP6V1H	ENSG00000047249	ENST00000524234	protein_coding	KNOWN	None	18303	304	100	54742006	54755459	-1	None	CGI-11, SFD, VMA13, SFDalpha, SFDbeta
8	ATP6V1H	ENSG00000047249	ENST00000521335	retained_intron	KNOWN	None	18303	None	None	54744349	54755819	-1	None	CGI-11, SFD, VMA13, SFDalpha, SFDbeta
8	ATP6V1H	ENSG00000047249	ENST00000519922	retained_intron	KNOWN	None	18303	None	None	54745425	54752398	-1	None	CGI-11, SFD, VMA13, SFDalpha, SFDbeta
6	ZDHHC14	ENSG00000175048	ENST00000414563	protein_coding	KNOWN	CCDS47510	20341	1422	473	157802165	158094977	1	None	FLJ20984, NEW1CP
6	ZDHHC14	ENSG00000175048	ENST00000359775	protein_coding	KNOWN	CCDS5252	20341	1467	488	157802165	158099178	1	None	FLJ20984, NEW1CP
6	ZDHHC14	ENSG00000175048	ENST00000518214	nonsense_mediated_decay	KNOWN	None	20341	370	122	157963617	158093905	1	None	FLJ20984, NEW1CP
6	ZDHHC14	ENSG00000175048	ENST00000523468	retained_intron	KNOWN	None	20341	None	None	157963621	158049635	1	None	FLJ20984, NEW1CP
6	ZDHHC14	ENSG00000175048	ENST00000341375	processed_transcript	KNOWN	None	20341	None	None	158013805	158094970	1	None	FLJ20984, NEW1CP
6	ZDHHC14	ENSG00000175048	ENST00000340347	protein_coding	NOVEL	None	20341	328	108	158014041	158066870	1	None	FLJ20984, NEW1CP
6	ZDHHC14	ENSG00000175048	ENST00000523706	retained_intron	KNOWN	None	20341	None	None	158050421	158094969	1	None	FLJ20984, NEW1CP
6	ZDHHC14	ENSG00000175048	ENST00000517432	retained_intron	KNOWN	None	20341	None	None	158051346	158094561	1	None	FLJ20984, NEW1CP
6	ZDHHC14	ENSG00000175048	ENST00000422910	retained_intron	KNOWN	None	20341	None	None	158052154	158094561	1	None	FLJ20984, NEW1CP
14	TTLL5	ENSG00000119685	ENST00000556265	processed_transcript	PUTATIVE	None	19963	None	None	76099968	76129507	1	KIAA0998	None
14	TTLL5	ENSG00000119685	ENST00000554132	processed_transcript	PUTATIVE	None	19963	None	None	76099968	76129507	1	KIAA0998	None
14	TTLL5	ENSG00000119685	ENST00000555290	processed_transcript	KNOWN	None	19963	None	None	76127335	76156625	1	KIAA0998	None
14	TTLL5	ENSG00000119685	ENST00000556977	protein_coding	NOVEL	None	19963	375	124	76127567	76151330	1	KIAA0998	None
14	TTLL5	ENSG00000119685	ENST00000556685	processed_transcript	PUTATIVE	None	19963	None	None	76127576	76135873	1	KIAA0998	None
14	TTLL5	ENSG00000119685	ENST00000557636	protein_coding	NOVEL	None	19963	3846	1281	76127611	76353210	1	KIAA0998	None
14	TTLL5	ENSG00000119685	ENST00000286650	protein_coding	NOVEL	None	19963	810	269	76127621	76176171	1	KIAA0998	None
14	TTLL5	ENSG00000119685	ENST00000298832	protein_coding	KNOWN	CCDS32124	19963	3846	1281	76127621	76421421	1	KIAA0998	None
14	TTLL5	ENSG00000119685	ENST00000556173	retained_intron	KNOWN	None	19963	None	None	76135759	76178844	1	KIAA0998	None
14	TTLL5	ENSG00000119685	ENST00000554185	processed_transcript	PUTATIVE	None	19963	None	None	76155764	76156665	1	KIAA0998	None
14	TTLL5	ENSG00000119685	ENST00000555422	processed_transcript	KNOWN	None	19963	None	None	76165560	76249698	1	KIAA0998	None
14	TTLL5	ENSG00000119685	ENST00000554935	processed_transcript	KNOWN	None	19963	None	None	76184155	76201570	1	KIAA0998	None
14	TTLL5	ENSG00000119685	ENST00000554148	processed_transcript	KNOWN	None	19963	None	None	76186122	76219297	1	KIAA0998	None
14	TTLL5	ENSG00000119685	ENST00000554878	processed_transcript	PUTATIVE	None	19963	None	None	76201538	76211069	1	KIAA0998	None
14	TTLL5	ENSG00000119685	ENST00000556976	processed_transcript	KNOWN	None	19963	None	None	76211462	76232475	1	KIAA0998	None
14	TTLL5	ENSG00000119685	ENST00000556893	protein_coding	NOVEL	None	19963	2454	817	76211473	76353639	1	KIAA0998	None
14	TTLL5	ENSG00000119685	ENST00000554510	protein_coding	NOVEL	None	19963	2328	775	76211831	76353280	1	KIAA0998	None
14	TTLL5	ENSG00000119685	ENST00000555018	processed_transcript	PUTATIVE	None	19963	None	None	76259426	76287111	1	KIAA0998	None
14	TTLL5	ENSG00000119685	ENST00000557219	processed_transcript	PUTATIVE	None	19963	None	None	76349062	76368847	1	KIAA0998	None
14	TTLL5	ENSG00000119685	ENST00000554972	processed_transcript	KNOWN	None	19963	None	None	76349138	76421171	1	KIAA0998	None
14	TTLL5	ENSG00000119685	ENST00000554487	processed_transcript	PUTATIVE	None	19963	None	None	76368483	76421166	1	KIAA0998	None
1	PMF1-BGLAP	ENSG00000260238	ENST00000490491	protein_coding	NOVEL	None	42953	636	211	156182773	156213123	1	None	None
1	PMF1-BGLAP	ENSG00000260238	ENST00000368276	protein_coding	KNOWN	CCDS55650	42953	663	220	156182798	156213054	1	None	None
1	PMF1-BGLAP	ENSG00000260238	ENST00000320139	protein_coding	KNOWN	CCDS55651	42953	528	175	156182800	156213112	1	None	None
1	DNAJC6	ENSG00000116675	ENST00000463018	processed_transcript	KNOWN	None	15469	None	None	65713902	65831877	1	None	KIAA0473
1	DNAJC6	ENSG00000116675	ENST00000494710	protein_coding	KNOWN	None	15469	1548	515	65720145	65858271	1	None	KIAA0473
1	DNAJC6	ENSG00000116675	ENST00000395325	protein_coding	KNOWN	CCDS30739	15469	2742	913	65730437	65881552	1	None	KIAA0473
1	DNAJC6	ENSG00000116675	ENST00000483402	processed_transcript	KNOWN	None	15469	None	None	65730447	65830444	1	None	KIAA0473
1	DNAJC6	ENSG00000116675	ENST00000371069	protein_coding	KNOWN	CCDS58004	15469	2913	970	65775228	65880959	1	None	KIAA0473
1	DNAJC6	ENSG00000116675	ENST00000472787	processed_transcript	KNOWN	None	15469	None	None	65831748	65845471	1	None	KIAA0473
1	DNAJC6	ENSG00000116675	ENST00000498720	processed_transcript	KNOWN	None	15469	None	None	65849769	65854086	1	None	KIAA0473
1	DNAJC6	ENSG00000116675	ENST00000263441	protein_coding	KNOWN	CCDS58005	15469	2703	900	65730424	65878970	1	None	KIAA0473
2	FZD7	ENSG00000155760	ENST00000286201	protein_coding	KNOWN	CCDS2351	4045	1725	574	202899310	202903160	1	None	FzE3
1	PMF1	ENSG00000160783	ENST00000368279	protein_coding	NOVEL	CCDS55649	9112	543	180	156182784	156209831	1	None	None
1	PMF1	ENSG00000160783	ENST00000461202	processed_transcript	PUTATIVE	None	9112	None	None	156182796	156193321	1	None	None
1	PMF1	ENSG00000160783	ENST00000466489	processed_transcript	KNOWN	None	9112	None	None	156182796	156203443	1	None	None
1	PMF1	ENSG00000160783	ENST00000368273	protein_coding	NOVEL	CCDS55648	9112	624	207	156182797	156209642	1	None	None
1	PMF1	ENSG00000160783	ENST00000606952	retained_intron	KNOWN	None	9112	None	None	156182798	156207082	1	None	None
1	PMF1	ENSG00000160783	ENST00000368277	protein_coding	KNOWN	CCDS30886	9112	618	205	156182798	156209833	1	None	None
1	PMF1	ENSG00000160783	ENST00000497069	processed_transcript	KNOWN	None	9112	None	None	156182817	156209576	1	None	None
1	PMF1	ENSG00000160783	ENST00000567140	protein_coding	KNOWN	CCDS55650	9112	663	220	156182798	156212874	1	None	None
1	PMF1	ENSG00000160783	ENST00000565805	protein_coding	KNOWN	CCDS55651	9112	528	175	156182798	156212874	1	None	None
19	FBN3	ENSG00000142449	ENST00000600128	protein_coding	KNOWN	CCDS12196	18794	8430	2809	8130286	8214730	-1	None	None
19	FBN3	ENSG00000142449	ENST00000270509	protein_coding	KNOWN	CCDS12196	18794	8430	2809	8130287	8212650	-1	None	None
19	FBN3	ENSG00000142449	ENST00000601739	protein_coding	KNOWN	CCDS12196	18794	8430	2809	8130287	8213753	-1	None	None
19	FBN3	ENSG00000142449	ENST00000595036	retained_intron	KNOWN	None	18794	None	None	8139650	8145940	-1	None	None
19	FBN3	ENSG00000142449	ENST00000601281	protein_coding	PUTATIVE	None	18794	512	169	8152088	8155117	-1	None	None
19	FBN3	ENSG00000142449	ENST00000598269	retained_intron	KNOWN	None	18794	None	None	8152709	8154861	-1	None	None
19	FBN3	ENSG00000142449	ENST00000602121	protein_coding	PUTATIVE	None	18794	562	186	8160263	8165852	-1	None	None
19	FBN3	ENSG00000142449	ENST00000594331	retained_intron	KNOWN	None	18794	None	None	8175772	8176690	-1	None	None
15	C15orf65	ENSG00000261652	ENST00000569691	protein_coding	NOVEL	CCDS58363	44654	366	121	55700746	55710910	1	None	FLJ27352
15	C15orf65	ENSG00000261652	ENST00000570794	processed_transcript	KNOWN	None	44654	None	None	55709896	55710962	1	None	FLJ27352
6	KIAA1009	ENSG00000135315	ENST00000461137	processed_transcript	KNOWN	None	21107	None	None	84833960	84904748	-1	C6orf84	QN1
6	KIAA1009	ENSG00000135315	ENST00000257766	protein_coding	PUTATIVE	None	21107	3984	1327	84833960	84937314	-1	C6orf84	QN1
6	KIAA1009	ENSG00000135315	ENST00000403245	protein_coding	KNOWN	CCDS34494	21107	4212	1403	84833960	84937353	-1	C6orf84	QN1
6	KIAA1009	ENSG00000135315	ENST00000487999	retained_intron	KNOWN	None	21107	None	None	84834674	84865313	-1	C6orf84	QN1
6	KIAA1009	ENSG00000135315	ENST00000497936	processed_transcript	KNOWN	None	21107	None	None	84884491	84937326	-1	C6orf84	QN1
6	KIAA1009	ENSG00000135315	ENST00000435955	nonsense_mediated_decay	KNOWN	None	21107	219	72	84925126	84937335	-1	C6orf84	QN1
1	BGLAP	ENSG00000242252	ENST00000368272	protein_coding	KNOWN	CCDS1134	1043	303	100	156211753	156213112	1	None	OCN
1	BGLAP	ENSG00000242252	ENST00000471413	retained_intron	KNOWN	None	1043	None	None	156211980	156213080	1	None	OCN
2	None	ENSG00000182329	ENST00000459709	processed_transcript	KNOWN	None	None	None	None	202938012	202974387	1	None	None
2	None	ENSG00000182329	ENST00000409515	processed_transcript	KNOWN	None	None	None	None	202938012	203019479	1	None	None
2	None	ENSG00000182329	ENST00000498697	protein_coding	NOVEL	None	None	1925	640	202965158	203059074	1	None	None
2	None	ENSG00000182329	ENST00000469462	retained_intron	KNOWN	None	None	None	None	203000439	203062585	1	None	None
2	None	ENSG00000182329	ENST00000541917	protein_coding	KNOWN	None	None	2010	669	202937978	203019811	1	None	None
2	None	ENSG00000182329	ENST00000295844	protein_coding	KNOWN	None	None	1800	599	202937978	203019811	1	None	None
X	PLAC1	ENSG00000170965	ENST00000359237	protein_coding	KNOWN	CCDS14642	9044	639	212	133699868	133792513	-1	None	CT92
X	PLAC1	ENSG00000170965	ENST00000476971	processed_transcript	KNOWN	None	9044	None	None	133699907	133867666	-1	None	CT92
X	PLAC1	ENSG00000170965	ENST00000473897	processed_transcript	KNOWN	None	9044	None	None	133700540	133898293	-1	None	CT92
X	PLAC1	ENSG00000170965	ENST00000466797	processed_transcript	KNOWN	None	9044	None	None	133735587	133898352	-1	None	CT92
3	UROC1	ENSG00000159650	ENST00000290868	protein_coding	KNOWN	CCDS3038	26444	2031	676	126200124	126236616	-1	None	FLJ31300, HMFN0320
3	UROC1	ENSG00000159650	ENST00000383579	protein_coding	NOVEL	CCDS54636	26444	2211	736	126200698	126236596	-1	None	FLJ31300, HMFN0320
2	DCTN1	ENSG00000204843	ENST00000361874	protein_coding	KNOWN	CCDS1939	2711	3837	1278	74588281	74607482	-1	None	None
2	DCTN1	ENSG00000204843	ENST00000491465	retained_intron	KNOWN	None	2711	None	None	74588282	74592028	-1	None	None
2	DCTN1	ENSG00000204843	ENST00000497666	processed_transcript	KNOWN	None	2711	None	None	74588282	74596522	-1	None	None
2	DCTN1	ENSG00000204843	ENST00000434055	nonsense_mediated_decay	KNOWN	None	2711	2673	890	74588283	74618994	-1	None	None
2	DCTN1	ENSG00000204843	ENST00000409438	protein_coding	NOVEL	CCDS46342	2711	3420	1139	74588284	74601862	-1	None	None
2	DCTN1	ENSG00000204843	ENST00000409240	protein_coding	NOVEL	CCDS54368	2711	3711	1236	74588284	74619214	-1	None	None
2	DCTN1	ENSG00000204843	ENST00000409868	protein_coding	NOVEL	None	2711	3771	1256	74588285	74618992	-1	None	None
2	DCTN1	ENSG00000204843	ENST00000466110	retained_intron	KNOWN	None	2711	None	None	74588286	74599169	-1	None	None
2	DCTN1	ENSG00000204843	ENST00000409567	protein_coding	NOVEL	CCDS46341	2711	3762	1253	74588626	74607426	-1	None	None
2	DCTN1	ENSG00000204843	ENST00000492717	retained_intron	KNOWN	None	2711	None	None	74589178	74590056	-1	None	None
2	DCTN1	ENSG00000204843	ENST00000495895	retained_intron	KNOWN	None	2711	None	None	74592584	74593321	-1	None	None
2	DCTN1	ENSG00000204843	ENST00000495643	processed_transcript	KNOWN	None	2711	None	None	74593099	74595140	-1	None	None
2	DCTN1	ENSG00000204843	ENST00000470351	retained_intron	KNOWN	None	2711	None	None	74598106	74599022	-1	None	None
2	DCTN1	ENSG00000204843	ENST00000463583	processed_transcript	KNOWN	None	2711	None	None	74598133	74600509	-1	None	None
2	DCTN1	ENSG00000204843	ENST00000477966	retained_intron	KNOWN	None	2711	None	None	74598484	74601822	-1	None	None
2	DCTN1	ENSG00000204843	ENST00000458655	protein_coding	PUTATIVE	None	2711	560	185	74598770	74607684	-1	None	None
2	DCTN1	ENSG00000204843	ENST00000462813	retained_intron	KNOWN	None	2711	None	None	74598802	74600342	-1	None	None
2	DCTN1	ENSG00000204843	ENST00000454119	protein_coding	NOVEL	None	2711	364	120	74603868	74607472	-1	None	None
2	DCTN1	ENSG00000204843	ENST00000417090	protein_coding	PUTATIVE	None	2711	405	134	74604559	74618970	-1	None	None
2	DCTN1	ENSG00000204843	ENST00000437375	protein_coding	NOVEL	None	2711	262	86	74604820	74618927	-1	None	None
2	DCTN1	ENSG00000204843	ENST00000413111	protein_coding	NOVEL	None	2711	228	75	74605127	74607410	-1	None	None
2	DCTN1	ENSG00000204843	ENST00000421392	protein_coding	NOVEL	None	2711	228	75	74605127	74618907	-1	None	None
2	DCTN1	ENSG00000204843	ENST00000440727	protein_coding	NOVEL	None	2711	192	63	74605163	74619163	-1	None	None
2	DCTN1	ENSG00000204843	ENST00000449655	protein_coding	NOVEL	None	2711	41	12	74605314	74612568	-1	None	None
2	DCTN1	ENSG00000204843	ENST00000394003	protein_coding	KNOWN	CCDS54369	2711	3816	1271	74588281	74607482	-1	None	None
2	DCTN1	ENSG00000204843	ENST00000407639	protein_coding	KNOWN	CCDS46343	2711	3435	1144	74588282	74601862	-1	None	None
10	USP6NL	ENSG00000148429	ENST00000379237	protein_coding	KNOWN	CCDS53492	16858	2487	828	11502511	11653753	-1	USP6NL-IT1	RNTRE, KIAA0019, TRE2NL, RN-tre
10	USP6NL	ENSG00000148429	ENST00000443016	processed_transcript	KNOWN	None	16858	None	None	11605186	11615495	-1	USP6NL-IT1	RNTRE, KIAA0019, TRE2NL, RN-tre
10	USP6NL	ENSG00000148429	ENST00000606752	processed_transcript	KNOWN	None	16858	None	None	11606126	11653665	-1	USP6NL-IT1	RNTRE, KIAA0019, TRE2NL, RN-tre
10	USP6NL	ENSG00000148429	ENST00000277575	protein_coding	KNOWN	CCDS44357	16858	2538	845	11502509	11574274	-1	USP6NL-IT1	RNTRE, KIAA0019, TRE2NL, RN-tre
20	RNA5SP479	ENSG00000201728	ENST00000364858	rRNA	KNOWN	None	43379	None	None	23361533	23361649	-1	RN5S479	None
6	MICAL1	ENSG00000135596	ENST00000456101	retained_intron	KNOWN	None	20619	None	None	109765265	109776848	-1	NICAL	MICAL, FLJ11937, DKFZp434B1517, FLJ21739
6	MICAL1	ENSG00000135596	ENST00000358807	protein_coding	KNOWN	CCDS5076	20619	3204	1067	109765265	109777190	-1	NICAL	MICAL, FLJ11937, DKFZp434B1517, FLJ21739
6	MICAL1	ENSG00000135596	ENST00000465904	retained_intron	KNOWN	None	20619	None	None	109765268	109771456	-1	NICAL	MICAL, FLJ11937, DKFZp434B1517, FLJ21739
6	MICAL1	ENSG00000135596	ENST00000433205	protein_coding	NOVEL	None	20619	754	250	109768560	109770986	-1	NICAL	MICAL, FLJ11937, DKFZp434B1517, FLJ21739
6	MICAL1	ENSG00000135596	ENST00000483856	processed_transcript	KNOWN	None	20619	None	None	109772932	109773734	-1	NICAL	MICAL, FLJ11937, DKFZp434B1517, FLJ21739
6	MICAL1	ENSG00000135596	ENST00000431946	protein_coding	KNOWN	None	20619	732	243	109773549	109776925	-1	NICAL	MICAL, FLJ11937, DKFZp434B1517, FLJ21739
6	MICAL1	ENSG00000135596	ENST00000368952	protein_coding	KNOWN	None	20619	3261	1086	109765268	109787171	-1	NICAL	MICAL, FLJ11937, DKFZp434B1517, FLJ21739
6	MICAL1	ENSG00000135596	ENST00000358577	protein_coding	KNOWN	CCDS55047	20619	2946	981	109765268	109777190	-1	NICAL	MICAL, FLJ11937, DKFZp434B1517, FLJ21739
12	FAIM2	ENSG00000135472	ENST00000320634	protein_coding	KNOWN	CCDS8791	17067	951	316	50260679	50297670	-1	None	KIAA0950, LFG, NMP35, LIFEGUARD, TMBIM2, LFG2
12	FAIM2	ENSG00000135472	ENST00000550890	protein_coding	PUTATIVE	None	17067	813	270	50264183	50296162	-1	None	KIAA0950, LFG, NMP35, LIFEGUARD, TMBIM2, LFG2
12	FAIM2	ENSG00000135472	ENST00000550195	nonsense_mediated_decay	KNOWN	None	17067	627	208	50264198	50297652	-1	None	KIAA0950, LFG, NMP35, LIFEGUARD, TMBIM2, LFG2
12	FAIM2	ENSG00000135472	ENST00000552669	protein_coding	PUTATIVE	None	17067	798	265	50264314	50294040	-1	None	KIAA0950, LFG, NMP35, LIFEGUARD, TMBIM2, LFG2
12	FAIM2	ENSG00000135472	ENST00000552863	protein_coding	PUTATIVE	None	17067	433	143	50264356	50290852	-1	None	KIAA0950, LFG, NMP35, LIFEGUARD, TMBIM2, LFG2
12	FAIM2	ENSG00000135472	ENST00000550635	protein_coding	PUTATIVE	None	17067	746	247	50282891	50298000	-1	None	KIAA0950, LFG, NMP35, LIFEGUARD, TMBIM2, LFG2
12	FAIM2	ENSG00000135472	ENST00000547871	protein_coding	PUTATIVE	None	17067	334	110	50284860	50296698	-1	None	KIAA0950, LFG, NMP35, LIFEGUARD, TMBIM2, LFG2
2	SUMO1	ENSG00000116030	ENST00000392246	protein_coding	KNOWN	CCDS2352	12502	306	101	203070903	203103331	-1	UBL1	PIC1, GMP1, SMT3C, SUMO-1, SMT3H3, OFC10
2	SUMO1	ENSG00000116030	ENST00000409368	protein_coding	NOVEL	None	12502	441	146	203071373	203103317	-1	UBL1	PIC1, GMP1, SMT3C, SUMO-1, SMT3H3, OFC10
2	SUMO1	ENSG00000116030	ENST00000392244	protein_coding	KNOWN	CCDS46493	12502	231	76	203071491	203103289	-1	UBL1	PIC1, GMP1, SMT3C, SUMO-1, SMT3H3, OFC10
2	SUMO1	ENSG00000116030	ENST00000409712	protein_coding	NOVEL	None	12502	234	77	203071574	203103299	-1	UBL1	PIC1, GMP1, SMT3C, SUMO-1, SMT3H3, OFC10
2	SUMO1	ENSG00000116030	ENST00000409181	protein_coding	PUTATIVE	None	12502	177	58	203071593	203103292	-1	UBL1	PIC1, GMP1, SMT3C, SUMO-1, SMT3H3, OFC10
2	SUMO1	ENSG00000116030	ENST00000409498	protein_coding	PUTATIVE	None	12502	189	62	203071731	203103309	-1	UBL1	PIC1, GMP1, SMT3C, SUMO-1, SMT3H3, OFC10
2	SUMO1	ENSG00000116030	ENST00000409205	protein_coding	PUTATIVE	None	12502	189	62	203071754	203103185	-1	UBL1	PIC1, GMP1, SMT3C, SUMO-1, SMT3H3, OFC10
2	SUMO1	ENSG00000116030	ENST00000409627	nonsense_mediated_decay	KNOWN	None	12502	222	73	203071865	203103289	-1	UBL1	PIC1, GMP1, SMT3C, SUMO-1, SMT3H3, OFC10
2	SUMO1	ENSG00000116030	ENST00000469034	processed_transcript	KNOWN	None	12502	None	None	203071969	203086729	-1	UBL1	PIC1, GMP1, SMT3C, SUMO-1, SMT3H3, OFC10
2	SUMO1	ENSG00000116030	ENST00000392245	protein_coding	KNOWN	CCDS2352	12502	306	101	203070910	203103322	-1	UBL1	PIC1, GMP1, SMT3C, SUMO-1, SMT3H3, OFC10
4	None	ENSG00000251139	ENST00000508020	protein_coding	PUTATIVE	None	None	249	82	185734773	185742443	1	None	None
17	CCL4L2	ENSG00000197262	ENST00000394465	protein_coding	KNOWN	CCDS11311	24066	279	92	34639793	34641846	1	None	None
17	CCL4L2	ENSG00000197262	ENST00000339270	protein_coding	KNOWN	None	24066	159	52	34640031	34641846	1	None	None
17	CCL4L2	ENSG00000197262	ENST00000482104	protein_coding	KNOWN	None	24066	195	64	34640034	34641769	1	None	None
17	CCL4L2	ENSG00000197262	ENST00000590761	retained_intron	KNOWN	None	24066	None	None	34640056	34641835	1	None	None
17	CCL4L2	ENSG00000197262	ENST00000394463	protein_coding	KNOWN	None	24066	261	86	34639876	34641401	1	None	None
17	CCL4L2	ENSG00000197262	ENST00000378342	protein_coding	KNOWN	None	24066	207	68	34639876	34641391	1	None	None
20	None	ENSG00000200208	ENST00000363338	misc_RNA	NOVEL	None	None	None	None	23438221	23438322	-1	None	None
14	ATL1	ENSG00000198513	ENST00000556478	processed_transcript	KNOWN	None	11231	None	None	50999227	51054654	1	SPG3, SPG3A	FSP1, AD-FSP
14	ATL1	ENSG00000198513	ENST00000441560	protein_coding	KNOWN	CCDS32077	11231	1662	553	50999744	51099767	1	SPG3, SPG3A	FSP1, AD-FSP
14	ATL1	ENSG00000198513	ENST00000555960	protein_coding	KNOWN	None	11231	299	98	51025805	51057675	1	SPG3, SPG3A	FSP1, AD-FSP
14	ATL1	ENSG00000198513	ENST00000553509	protein_coding	KNOWN	None	11231	89	28	51026270	51054603	1	SPG3, SPG3A	FSP1, AD-FSP
14	ATL1	ENSG00000198513	ENST00000358385	protein_coding	KNOWN	CCDS9700	11231	1677	558	51026743	51099786	1	SPG3, SPG3A	FSP1, AD-FSP
14	ATL1	ENSG00000198513	ENST00000554886	protein_coding	PUTATIVE	None	11231	226	74	51026849	51080004	1	SPG3, SPG3A	FSP1, AD-FSP
14	ATL1	ENSG00000198513	ENST00000557735	protein_coding	PUTATIVE	None	11231	141	46	51027005	51057766	1	SPG3, SPG3A	FSP1, AD-FSP
14	ATL1	ENSG00000198513	ENST00000553746	retained_intron	KNOWN	None	11231	None	None	51057707	51058535	1	SPG3, SPG3A	FSP1, AD-FSP
14	ATL1	ENSG00000198513	ENST00000555266	nonsense_mediated_decay	KNOWN	None	11231	159	52	51081097	51094869	1	SPG3, SPG3A	FSP1, AD-FSP
14	ATL1	ENSG00000198513	ENST00000556067	nonsense_mediated_decay	KNOWN	None	11231	318	105	51094884	51099038	1	SPG3, SPG3A	FSP1, AD-FSP
14	ATL1	ENSG00000198513	ENST00000357032	protein_coding	KNOWN	None	11231	1677	558	51026743	51099782	1	SPG3, SPG3A	FSP1, AD-FSP
14	ATL1	ENSG00000198513	ENST00000354525	protein_coding	KNOWN	CCDS32077	11231	1662	553	51026743	51099782	1	SPG3, SPG3A	FSP1, AD-FSP
4	HELT	ENSG00000187821	ENST00000515777	protein_coding	NOVEL	None	33783	729	242	185939995	185941950	1	None	HESL, HCM1228, Mgn, bHLHb44, MEGANE
4	HELT	ENSG00000187821	ENST00000513599	retained_intron	KNOWN	None	33783	None	None	185939995	185941956	1	None	HESL, HCM1228, Mgn, bHLHb44, MEGANE
4	HELT	ENSG00000187821	ENST00000505610	protein_coding	KNOWN	None	33783	726	241	185939995	185941958	1	None	HESL, HCM1228, Mgn, bHLHb44, MEGANE
4	HELT	ENSG00000187821	ENST00000338875	protein_coding	KNOWN	CCDS34113	33783	984	327	185940083	185941926	1	None	HESL, HCM1228, Mgn, bHLHb44, MEGANE
1	PAQR6	ENSG00000160781	ENST00000492619	processed_transcript	KNOWN	None	30132	None	None	156213206	156217867	-1	None	FLJ22672
1	PAQR6	ENSG00000160781	ENST00000292291	protein_coding	KNOWN	CCDS1136	30132	1035	344	156213206	156217881	-1	None	FLJ22672
1	PAQR6	ENSG00000160781	ENST00000335852	protein_coding	KNOWN	CCDS1135	30132	1056	351	156213207	156217843	-1	None	FLJ22672
1	PAQR6	ENSG00000160781	ENST00000360733	protein_coding	KNOWN	CCDS1135	30132	1056	351	156213207	156217846	-1	None	FLJ22672
1	PAQR6	ENSG00000160781	ENST00000340183	protein_coding	NOVEL	None	30132	1092	363	156213213	156217847	-1	None	FLJ22672
1	PAQR6	ENSG00000160781	ENST00000491107	processed_transcript	KNOWN	None	30132	None	None	156213213	156217847	-1	None	FLJ22672
1	PAQR6	ENSG00000160781	ENST00000368270	protein_coding	KNOWN	None	30132	963	320	156213214	156217822	-1	None	FLJ22672
1	PAQR6	ENSG00000160781	ENST00000468632	processed_transcript	KNOWN	None	30132	None	None	156213214	156217827	-1	None	FLJ22672
1	PAQR6	ENSG00000160781	ENST00000480773	processed_transcript	KNOWN	None	30132	None	None	156214565	156217805	-1	None	FLJ22672
1	PAQR6	ENSG00000160781	ENST00000470198	processed_transcript	KNOWN	None	30132	None	None	156214945	156217845	-1	None	FLJ22672
1	PAQR6	ENSG00000160781	ENST00000475507	processed_transcript	KNOWN	None	30132	None	None	156215008	156217847	-1	None	FLJ22672
1	PAQR6	ENSG00000160781	ENST00000356983	protein_coding	KNOWN	CCDS1135	30132	1056	351	156213207	156217829	-1	None	FLJ22672
1	PAQR6	ENSG00000160781	ENST00000540423	protein_coding	KNOWN	None	30132	1026	341	156213703	156217847	-1	None	FLJ22672
1	LGALS8	ENSG00000116977	ENST00000481485	protein_coding	KNOWN	None	6569	319	105	236681300	236702363	1	None	PCTA-1
1	LGALS8	ENSG00000116977	ENST00000454943	protein_coding	KNOWN	None	6569	503	166	236681514	236704991	1	None	PCTA-1
1	LGALS8	ENSG00000116977	ENST00000527974	protein_coding	KNOWN	CCDS1611	6569	1080	359	236681539	236711581	1	None	PCTA-1
1	LGALS8	ENSG00000116977	ENST00000430527	protein_coding	NOVEL	None	6569	364	120	236681560	236704972	1	None	PCTA-1
1	LGALS8	ENSG00000116977	ENST00000352231	protein_coding	KNOWN	CCDS1611	6569	1080	359	236681565	236711583	1	None	PCTA-1
1	LGALS8	ENSG00000116977	ENST00000406509	protein_coding	KNOWN	None	6569	625	207	236681569	236706290	1	None	PCTA-1
1	LGALS8	ENSG00000116977	ENST00000526589	protein_coding	KNOWN	CCDS1611	6569	1080	359	236681573	236716281	1	None	PCTA-1
1	LGALS8	ENSG00000116977	ENST00000529489	protein_coding	KNOWN	None	6569	129	42	236681601	236700880	1	None	PCTA-1
1	LGALS8	ENSG00000116977	ENST00000341872	protein_coding	KNOWN	CCDS1612	6569	954	317	236686739	236712563	1	None	PCTA-1
1	LGALS8	ENSG00000116977	ENST00000366584	protein_coding	KNOWN	CCDS1612	6569	954	317	236686899	236714310	1	None	PCTA-1
1	LGALS8	ENSG00000116977	ENST00000238181	protein_coding	NOVEL	None	6569	527	174	236687173	236708115	1	None	PCTA-1
1	LGALS8	ENSG00000116977	ENST00000475670	retained_intron	KNOWN	None	6569	None	None	236687269	236689735	1	None	PCTA-1
1	LGALS8	ENSG00000116977	ENST00000532826	retained_intron	KNOWN	None	6569	None	None	236687285	236702522	1	None	PCTA-1
1	LGALS8	ENSG00000116977	ENST00000528782	retained_intron	KNOWN	None	6569	None	None	236687285	236706107	1	None	PCTA-1
1	LGALS8	ENSG00000116977	ENST00000366583	retained_intron	KNOWN	None	6569	None	None	236687289	236706909	1	None	PCTA-1
1	LGALS8	ENSG00000116977	ENST00000442397	nonsense_mediated_decay	KNOWN	None	6569	162	53	236687306	236706127	1	None	PCTA-1
1	LGALS8	ENSG00000116977	ENST00000434231	nonsense_mediated_decay	KNOWN	None	6569	162	53	236687320	236705006	1	None	PCTA-1
1	LGALS8	ENSG00000116977	ENST00000323938	protein_coding	NOVEL	None	6569	873	290	236687324	236712302	1	None	PCTA-1
1	LGALS8	ENSG00000116977	ENST00000526634	protein_coding	KNOWN	CCDS1612	6569	954	317	236687881	236712096	1	None	PCTA-1
1	LGALS8	ENSG00000116977	ENST00000525042	protein_coding	NOVEL	None	6569	903	300	236689371	236711461	1	None	PCTA-1
1	LGALS8	ENSG00000116977	ENST00000528259	retained_intron	KNOWN	None	6569	None	None	236703547	236711580	1	None	PCTA-1
1	LGALS8	ENSG00000116977	ENST00000526652	retained_intron	KNOWN	None	6569	None	None	236704573	236706156	1	None	PCTA-1
1	LGALS8	ENSG00000116977	ENST00000529796	retained_intron	KNOWN	None	6569	None	None	236705631	236706313	1	None	PCTA-1
1	LGALS8	ENSG00000116977	ENST00000532640	retained_intron	KNOWN	None	6569	None	None	236706015	236708148	1	None	PCTA-1
1	LGALS8	ENSG00000116977	ENST00000489586	retained_intron	KNOWN	None	6569	None	None	236706327	236711595	1	None	PCTA-1
1	LGALS8	ENSG00000116977	ENST00000525789	retained_intron	KNOWN	None	6569	None	None	236706596	236708501	1	None	PCTA-1
1	LGALS8	ENSG00000116977	ENST00000450372	protein_coding	KNOWN	CCDS1611	6569	1080	359	236686739	236712996	1	None	PCTA-1
1	LGALS8	ENSG00000116977	ENST00000416919	protein_coding	KNOWN	None	6569	903	300	236687320	236711523	1	None	PCTA-1
14	TECPR2	ENSG00000196663	ENST00000359520	protein_coding	KNOWN	CCDS32162	19957	4236	1411	102829300	102968818	1	KIAA0329	None
14	TECPR2	ENSG00000196663	ENST00000561228	processed_transcript	KNOWN	None	19957	None	None	102829398	102891609	1	KIAA0329	None
14	TECPR2	ENSG00000196663	ENST00000558678	protein_coding	KNOWN	CCDS58337	19957	3804	1267	102829416	102932008	1	KIAA0329	None
14	TECPR2	ENSG00000196663	ENST00000560060	processed_transcript	KNOWN	None	19957	None	None	102901176	102910019	1	KIAA0329	None
14	TECPR2	ENSG00000196663	ENST00000557786	processed_transcript	KNOWN	None	19957	None	None	102904614	102912170	1	KIAA0329	None
14	TECPR2	ENSG00000196663	ENST00000561099	retained_intron	KNOWN	None	19957	None	None	102963218	102964561	1	KIAA0329	None
14	TECPR2	ENSG00000196663	ENST00000559124	retained_intron	KNOWN	None	19957	None	None	102963876	102964749	1	KIAA0329	None
1	LEPR	ENSG00000116678	ENST00000371059	protein_coding	KNOWN	CCDS30741	6554	2877	958	65886335	66096105	1	None	OBR, CD295
1	LEPR	ENSG00000116678	ENST00000371060	protein_coding	KNOWN	CCDS30740	6554	2691	896	65886335	66101111	1	None	OBR, CD295
1	LEPR	ENSG00000116678	ENST00000349533	protein_coding	KNOWN	CCDS631	6554	3498	1165	65886335	66107242	1	None	OBR, CD295
1	LEPR	ENSG00000116678	ENST00000462765	processed_transcript	KNOWN	None	6554	None	None	65991372	66075951	1	None	OBR, CD295
1	LEPR	ENSG00000116678	ENST00000371058	protein_coding	KNOWN	CCDS55604	6554	2721	906	66031229	66091917	1	None	OBR, CD295
1	LEPR	ENSG00000116678	ENST00000471762	processed_transcript	KNOWN	None	6554	None	None	66085623	66089067	1	None	OBR, CD295
1	LEPR	ENSG00000116678	ENST00000344610	protein_coding	KNOWN	CCDS55604	6554	2721	906	65886248	66091853	1	None	OBR, CD295
1	LEPR	ENSG00000116678	ENST00000406510	protein_coding	KNOWN	None	6554	699	232	65886403	66102785	1	None	OBR, CD295
20	CST12P	ENSG00000226344	ENST00000457644	unitary_pseudogene	KNOWN	None	31920	None	None	23456337	23460435	1	None	Cst, E2, Ctes4
2	None	ENSG00000267889	ENST00000594829	protein_coding	NOVEL	None	None	144	47	203104292	203104435	1	None	None
7	YKT6	ENSG00000106636	ENST00000496112	protein_coding	NOVEL	None	16959	495	164	44240567	44252488	1	None	None
7	YKT6	ENSG00000106636	ENST00000447123	processed_transcript	KNOWN	None	16959	None	None	44240611	44252194	1	None	None
7	YKT6	ENSG00000106636	ENST00000223369	protein_coding	KNOWN	CCDS5482	16959	597	198	44240648	44253893	1	None	None
7	YKT6	ENSG00000106636	ENST00000463014	retained_intron	KNOWN	None	16959	None	None	44246932	44248179	1	None	None
7	YKT6	ENSG00000106636	ENST00000478411	processed_transcript	KNOWN	None	16959	None	None	44247733	44248306	1	None	None
7	YKT6	ENSG00000106636	ENST00000424864	nonsense_mediated_decay	KNOWN	None	16959	90	29	44247735	44252212	1	None	None
7	YKT6	ENSG00000106636	ENST00000421621	retained_intron	KNOWN	None	16959	None	None	44250307	44253891	1	None	None
9	COQ4	ENSG00000167113	ENST00000300452	protein_coding	KNOWN	CCDS6898	19693	798	265	131084815	131096351	1	None	CGI-92
9	COQ4	ENSG00000167113	ENST00000372875	protein_coding	KNOWN	None	19693	456	151	131085131	131088679	1	None	CGI-92
9	COQ4	ENSG00000167113	ENST00000461102	processed_transcript	KNOWN	None	19693	None	None	131092691	131096347	1	None	CGI-92
8	NUDCD1	ENSG00000120526	ENST00000239690	protein_coding	KNOWN	CCDS6312	24306	1752	583	110253148	110346614	-1	None	CML66, FLJ14991
8	NUDCD1	ENSG00000120526	ENST00000427660	protein_coding	KNOWN	CCDS47910	24306	1665	554	110254904	110342163	-1	None	CML66, FLJ14991
8	NUDCD1	ENSG00000120526	ENST00000519607	nonsense_mediated_decay	KNOWN	None	24306	327	108	110254904	110346347	-1	None	CML66, FLJ14991
8	NUDCD1	ENSG00000120526	ENST00000521439	nonsense_mediated_decay	KNOWN	None	24306	240	79	110287644	110342121	-1	None	CML66, FLJ14991
2	NOP58	ENSG00000055044	ENST00000264279	protein_coding	KNOWN	CCDS2353	29926	1590	529	203130439	203168389	1	None	NOP5, HSPC120
2	NOP58	ENSG00000055044	ENST00000426814	nonsense_mediated_decay	KNOWN	None	29926	207	68	203130459	203149101	1	None	NOP5, HSPC120
2	NOP58	ENSG00000055044	ENST00000488403	retained_intron	KNOWN	None	29926	None	None	203130459	203149435	1	None	NOP5, HSPC120
2	NOP58	ENSG00000055044	ENST00000492740	retained_intron	KNOWN	None	29926	None	None	203130488	203140406	1	None	NOP5, HSPC120
2	NOP58	ENSG00000055044	ENST00000472050	processed_transcript	KNOWN	None	29926	None	None	203130488	203149157	1	None	NOP5, HSPC120
2	NOP58	ENSG00000055044	ENST00000467734	processed_transcript	KNOWN	None	29926	None	None	203130502	203149204	1	None	NOP5, HSPC120
2	NOP58	ENSG00000055044	ENST00000492688	processed_transcript	KNOWN	None	29926	None	None	203139885	203155774	1	None	NOP5, HSPC120
2	NOP58	ENSG00000055044	ENST00000478941	retained_intron	KNOWN	None	29926	None	None	203142854	203155095	1	None	NOP5, HSPC120
2	NOP58	ENSG00000055044	ENST00000433543	nonsense_mediated_decay	KNOWN	None	29926	564	187	203149161	203162629	1	None	NOP5, HSPC120
2	NOP58	ENSG00000055044	ENST00000478508	processed_transcript	KNOWN	None	29926	None	None	203164581	203168156	1	None	NOP5, HSPC120
1	LEPROT	ENSG00000213625	ENST00000475108	processed_transcript	KNOWN	None	29477	None	None	65886270	65897747	1	None	OBRGRP, OB-RGRP, VPS55, FLJ90360
1	LEPROT	ENSG00000213625	ENST00000371065	protein_coding	KNOWN	CCDS630	29477	396	131	65886270	65901690	1	None	OBRGRP, OB-RGRP, VPS55, FLJ90360
1	LEPROT	ENSG00000213625	ENST00000497874	processed_transcript	KNOWN	None	29477	None	None	65886351	65893692	1	None	OBRGRP, OB-RGRP, VPS55, FLJ90360
1	LEPROT	ENSG00000213625	ENST00000488747	processed_transcript	KNOWN	None	29477	None	None	65886391	65897603	1	None	OBRGRP, OB-RGRP, VPS55, FLJ90360
1	LEPROT	ENSG00000213625	ENST00000484243	processed_transcript	KNOWN	None	29477	None	None	65886393	65895986	1	None	OBRGRP, OB-RGRP, VPS55, FLJ90360
15	EDC3	ENSG00000179151	ENST00000315127	protein_coding	KNOWN	CCDS10267	26114	1527	508	74922899	74988384	-1	YJDC, LSM16	FLJ21128, hYjeF_N2-15q23, YJEFN2
15	EDC3	ENSG00000179151	ENST00000565602	nonsense_mediated_decay	KNOWN	None	26114	174	57	74924466	74988370	-1	YJDC, LSM16	FLJ21128, hYjeF_N2-15q23, YJEFN2
15	EDC3	ENSG00000179151	ENST00000426797	protein_coding	KNOWN	CCDS10267	26114	1527	508	74924850	74988361	-1	YJDC, LSM16	FLJ21128, hYjeF_N2-15q23, YJEFN2
15	EDC3	ENSG00000179151	ENST00000568176	protein_coding	KNOWN	CCDS10267	26114	1527	508	74924883	74988341	-1	YJDC, LSM16	FLJ21128, hYjeF_N2-15q23, YJEFN2
15	EDC3	ENSG00000179151	ENST00000569606	protein_coding	PUTATIVE	None	26114	287	94	74925074	74928068	-1	YJDC, LSM16	FLJ21128, hYjeF_N2-15q23, YJEFN2
15	EDC3	ENSG00000179151	ENST00000562174	protein_coding	PUTATIVE	None	26114	640	212	74927522	74948234	-1	YJDC, LSM16	FLJ21128, hYjeF_N2-15q23, YJEFN2
15	EDC3	ENSG00000179151	ENST00000566219	protein_coding	NOVEL	None	26114	490	162	74927903	74988353	-1	YJDC, LSM16	FLJ21128, hYjeF_N2-15q23, YJEFN2
15	EDC3	ENSG00000179151	ENST00000562974	protein_coding	PUTATIVE	None	26114	204	67	74932902	74963940	-1	YJDC, LSM16	FLJ21128, hYjeF_N2-15q23, YJEFN2
15	EDC3	ENSG00000179151	ENST00000563009	protein_coding	KNOWN	None	26114	759	252	74948135	74988328	-1	YJDC, LSM16	FLJ21128, hYjeF_N2-15q23, YJEFN2
15	EDC3	ENSG00000179151	ENST00000569561	protein_coding	KNOWN	None	26114	533	176	74948361	74988633	-1	YJDC, LSM16	FLJ21128, hYjeF_N2-15q23, YJEFN2
15	EDC3	ENSG00000179151	ENST00000566243	protein_coding	KNOWN	None	26114	394	130	74963886	74988348	-1	YJDC, LSM16	FLJ21128, hYjeF_N2-15q23, YJEFN2
15	EDC3	ENSG00000179151	ENST00000566828	protein_coding	KNOWN	None	26114	371	122	74963909	74988281	-1	YJDC, LSM16	FLJ21128, hYjeF_N2-15q23, YJEFN2
15	EDC3	ENSG00000179151	ENST00000570138	protein_coding	KNOWN	None	26114	304	100	74963976	74988014	-1	YJDC, LSM16	FLJ21128, hYjeF_N2-15q23, YJEFN2
15	EDC3	ENSG00000179151	ENST00000563292	protein_coding	KNOWN	None	26114	277	91	74964003	74988003	-1	YJDC, LSM16	FLJ21128, hYjeF_N2-15q23, YJEFN2
15	EDC3	ENSG00000179151	ENST00000569007	retained_intron	KNOWN	None	26114	None	None	74967202	74988317	-1	YJDC, LSM16	FLJ21128, hYjeF_N2-15q23, YJEFN2
15	EDC3	ENSG00000179151	ENST00000567813	protein_coding	KNOWN	None	26114	164	53	74967302	74987955	-1	YJDC, LSM16	FLJ21128, hYjeF_N2-15q23, YJEFN2
15	EDC3	ENSG00000179151	ENST00000566119	protein_coding	KNOWN	None	26114	94	30	74967372	74988365	-1	YJDC, LSM16	FLJ21128, hYjeF_N2-15q23, YJEFN2
15	EDC3	ENSG00000179151	ENST00000562047	processed_transcript	PUTATIVE	None	26114	None	None	74979471	74988042	-1	YJDC, LSM16	FLJ21128, hYjeF_N2-15q23, YJEFN2
10	ZNF239	ENSG00000196793	ENST00000306006	protein_coding	KNOWN	CCDS41502	13031	1377	458	44051792	44063907	-1	None	MOK2, HOK-2
10	ZNF239	ENSG00000196793	ENST00000374446	protein_coding	KNOWN	CCDS41502	13031	1377	458	44051792	44070032	-1	None	MOK2, HOK-2
10	ZNF239	ENSG00000196793	ENST00000491188	processed_transcript	KNOWN	None	13031	None	None	44052977	44070045	-1	None	MOK2, HOK-2
10	ZNF239	ENSG00000196793	ENST00000426961	protein_coding	KNOWN	CCDS41502	13031	1377	458	44051795	44070066	-1	None	MOK2, HOK-2
10	ZNF239	ENSG00000196793	ENST00000535642	protein_coding	KNOWN	CCDS41502	13031	1377	458	44051795	44070066	-1	None	MOK2, HOK-2
20	None	ENSG00000260202	ENST00000564051	lincRNA	KNOWN	None	None	None	None	23497521	23498706	-1	None	None
4	SLC25A4	ENSG00000151729	ENST00000281456	protein_coding	KNOWN	CCDS34114	10990	897	298	186064395	186068434	1	PEO3, PEO2, ANT1	T1
4	SLC25A4	ENSG00000151729	ENST00000515584	processed_transcript	PUTATIVE	None	10990	None	None	186064432	186066752	1	PEO3, PEO2, ANT1	T1
4	SLC25A4	ENSG00000151729	ENST00000491736	retained_intron	KNOWN	None	10990	None	None	186064432	186068395	1	PEO3, PEO2, ANT1	T1
19	IL4I1	ENSG00000104951	ENST00000391826	protein_coding	KNOWN	CCDS12787	19094	1704	567	50392911	50400212	-1	None	FIG1
19	IL4I1	ENSG00000104951	ENST00000601717	nonsense_mediated_decay	KNOWN	None	19094	249	82	50392911	50432673	-1	None	FIG1
19	IL4I1	ENSG00000104951	ENST00000341114	protein_coding	KNOWN	CCDS12786	19094	1770	589	50392911	50432796	-1	None	FIG1
19	IL4I1	ENSG00000104951	ENST00000595948	protein_coding	KNOWN	CCDS12786	19094	1770	589	50392911	50432796	-1	None	FIG1
19	IL4I1	ENSG00000104951	ENST00000593956	protein_coding	NOVEL	None	19094	450	149	50397531	50400125	-1	None	FIG1
19	IL4I1	ENSG00000104951	ENST00000596022	protein_coding	KNOWN	None	19094	318	105	50399072	50432753	-1	None	FIG1
19	IL4I1	ENSG00000104951	ENST00000597295	protein_coding	KNOWN	None	19094	213	70	50399111	50432753	-1	None	FIG1
19	IL4I1	ENSG00000104951	ENST00000596011	protein_coding	KNOWN	None	19094	97	31	50399227	50432749	-1	None	FIG1
16	MPHOSPH6	ENSG00000135698	ENST00000563100	nonsense_mediated_decay	KNOWN	None	7214	429	142	82181403	82203798	-1	None	MPP6
16	MPHOSPH6	ENSG00000135698	ENST00000258169	protein_coding	KNOWN	CCDS10937	7214	483	160	82181767	82203831	-1	None	MPP6
16	MPHOSPH6	ENSG00000135698	ENST00000563504	protein_coding	PUTATIVE	None	7214	396	131	82182221	82203800	-1	None	MPP6
16	MPHOSPH6	ENSG00000135698	ENST00000568016	nonsense_mediated_decay	KNOWN	None	7214	294	97	82182987	82203820	-1	None	MPP6
16	MPHOSPH6	ENSG00000135698	ENST00000569599	retained_intron	KNOWN	None	7214	None	None	82184689	82203804	-1	None	MPP6
16	MPHOSPH6	ENSG00000135698	ENST00000566748	retained_intron	KNOWN	None	7214	None	None	82184772	82203818	-1	None	MPP6
16	MPHOSPH6	ENSG00000135698	ENST00000569021	protein_coding	PUTATIVE	None	7214	168	55	82197481	82203802	-1	None	MPP6
16	MPHOSPH6	ENSG00000135698	ENST00000567729	processed_transcript	PUTATIVE	None	7214	None	None	82197680	82203823	-1	None	MPP6
15	DYX1C1	ENSG00000256061	ENST00000524160	nonsense_mediated_decay	KNOWN	None	21493	441	146	55702723	55790539	-1	None	EKN1, FLJ37882
15	DYX1C1	ENSG00000256061	ENST00000448430	protein_coding	KNOWN	CCDS32243	21493	1146	381	55709953	55790546	-1	None	EKN1, FLJ37882
15	DYX1C1	ENSG00000256061	ENST00000457155	protein_coding	KNOWN	CCDS32244	21493	1131	376	55722506	55790575	-1	None	EKN1, FLJ37882
15	DYX1C1	ENSG00000256061	ENST00000321149	protein_coding	KNOWN	CCDS10154	21493	1263	420	55722506	55800432	-1	None	EKN1, FLJ37882
15	DYX1C1	ENSG00000256061	ENST00000522437	nonsense_mediated_decay	KNOWN	None	21493	216	71	55759159	55790567	-1	None	EKN1, FLJ37882
15	DYX1C1	ENSG00000256061	ENST00000519017	retained_intron	KNOWN	None	21493	None	None	55783217	55790542	-1	None	EKN1, FLJ37882
15	DYX1C1	ENSG00000256061	ENST00000380679	protein_coding	KNOWN	CCDS32243	21493	1146	381	55709958	55800432	-1	None	EKN1, FLJ37882
15	DYX1C1	ENSG00000256061	ENST00000348518	protein_coding	KNOWN	CCDS32244	21493	1131	376	55722506	55800432	-1	None	EKN1, FLJ37882
1	SMG5	ENSG00000198952	ENST00000361813	protein_coding	KNOWN	CCDS1137	24644	3051	1016	156219015	156252616	-1	None	KIAA1089, LPTS-RP1, LPTSRP1, RP11-54H19.7, SMG-5, EST1B
1	SMG5	ENSG00000198952	ENST00000368267	protein_coding	KNOWN	None	24644	1125	374	156219017	156252596	-1	None	KIAA1089, LPTS-RP1, LPTSRP1, RP11-54H19.7, SMG-5, EST1B
1	SMG5	ENSG00000198952	ENST00000476954	processed_transcript	PUTATIVE	None	24644	None	None	156219824	156221171	-1	None	KIAA1089, LPTS-RP1, LPTSRP1, RP11-54H19.7, SMG-5, EST1B
1	SMG5	ENSG00000198952	ENST00000473643	processed_transcript	PUTATIVE	None	24644	None	None	156220870	156222346	-1	None	KIAA1089, LPTS-RP1, LPTSRP1, RP11-54H19.7, SMG-5, EST1B
1	SMG5	ENSG00000198952	ENST00000468993	processed_transcript	PUTATIVE	None	24644	None	None	156222839	156223553	-1	None	KIAA1089, LPTS-RP1, LPTSRP1, RP11-54H19.7, SMG-5, EST1B
1	SMG5	ENSG00000198952	ENST00000489907	processed_transcript	KNOWN	None	24644	None	None	156235891	156237379	-1	None	KIAA1089, LPTS-RP1, LPTSRP1, RP11-54H19.7, SMG-5, EST1B
10	ZNF485	ENSG00000198298	ENST00000361807	protein_coding	KNOWN	CCDS7205	23440	1326	441	44101855	44113351	1	None	None
10	ZNF485	ENSG00000198298	ENST00000480678	retained_intron	KNOWN	None	23440	None	None	44101867	44102848	1	None	None
10	ZNF485	ENSG00000198298	ENST00000430885	protein_coding	KNOWN	None	23440	352	116	44101867	44111843	1	None	None
10	ZNF485	ENSG00000198298	ENST00000374435	protein_coding	KNOWN	CCDS7205	23440	1326	441	44101874	44113351	1	None	None
10	ZNF485	ENSG00000198298	ENST00000374437	protein_coding	KNOWN	None	23440	1053	350	44101855	44113035	1	None	None
16	COG7	ENSG00000168434	ENST00000307149	protein_coding	KNOWN	CCDS10610	18622	2313	770	23399814	23464501	-1	None	None
16	COG7	ENSG00000168434	ENST00000566364	retained_intron	KNOWN	None	18622	None	None	23399962	23404902	-1	None	None
16	COG7	ENSG00000168434	ENST00000561854	nonsense_mediated_decay	KNOWN	None	18622	265	87	23400097	23404639	-1	None	None
16	COG7	ENSG00000168434	ENST00000569635	processed_transcript	PUTATIVE	None	18622	None	None	23401191	23406267	-1	None	None
16	COG7	ENSG00000168434	ENST00000563164	protein_coding	PUTATIVE	None	18622	341	112	23403164	23404613	-1	None	None
16	COG7	ENSG00000168434	ENST00000567821	retained_intron	KNOWN	None	18622	None	None	23409367	23428614	-1	None	None
7	MOGAT3	ENSG00000106384	ENST00000223114	protein_coding	KNOWN	CCDS5714	23249	1026	341	100838288	100844302	-1	None	DC7, MGAT3
7	MOGAT3	ENSG00000106384	ENST00000440203	protein_coding	KNOWN	None	23249	1035	344	100839178	100844193	-1	None	DC7, MGAT3
7	MOGAT3	ENSG00000106384	ENST00000379423	protein_coding	KNOWN	None	23249	846	281	100839178	100844196	-1	None	DC7, MGAT3
2	BMPR2	ENSG00000204217	ENST00000374580	protein_coding	KNOWN	CCDS33361	1078	3117	1038	203241659	203432474	1	PPH1	BRK-3, T-ALK, BMPR3, BMPR-II
2	BMPR2	ENSG00000204217	ENST00000374574	protein_coding	NOVEL	None	1078	1593	530	203242157	203432474	1	PPH1	BRK-3, T-ALK, BMPR3, BMPR-II
2	BMPR2	ENSG00000204217	ENST00000479069	processed_transcript	KNOWN	None	1078	None	None	203329549	203339862	1	PPH1	BRK-3, T-ALK, BMPR3, BMPR-II
19	ZNF568	ENSG00000198453	ENST00000427117	protein_coding	PUTATIVE	None	25392	516	171	37407231	37470809	1	None	DKFZp686B0797
19	ZNF568	ENSG00000198453	ENST00000587130	protein_coding	KNOWN	None	25392	22	6	37407243	37427726	1	None	DKFZp686B0797
19	ZNF568	ENSG00000198453	ENST00000333987	protein_coding	KNOWN	CCDS42558	25392	1935	644	37407243	37441990	1	None	DKFZp686B0797
19	ZNF568	ENSG00000198453	ENST00000415168	protein_coding	KNOWN	CCDS56092	25392	1743	580	37407245	37443645	1	None	DKFZp686B0797
19	ZNF568	ENSG00000198453	ENST00000444991	protein_coding	PUTATIVE	None	25392	1749	582	37407266	37488342	1	None	DKFZp686B0797
19	ZNF568	ENSG00000198453	ENST00000455427	protein_coding	KNOWN	CCDS56093	25392	1716	571	37407351	37488834	1	None	DKFZp686B0797
19	ZNF568	ENSG00000198453	ENST00000587857	protein_coding	PUTATIVE	None	25392	1591	529	37407357	37441838	1	None	DKFZp686B0797
19	ZNF568	ENSG00000198453	ENST00000586353	protein_coding	PUTATIVE	None	25392	120	39	37464115	37471219	1	None	DKFZp686B0797
19	ZNF568	ENSG00000198453	ENST00000433993	protein_coding	PUTATIVE	None	25392	1148	381	37464117	37488137	1	None	DKFZp686B0797
19	ZNF568	ENSG00000198453	ENST00000592567	protein_coding	PUTATIVE	None	25392	77	24	37464120	37482145	1	None	DKFZp686B0797
19	ZNF568	ENSG00000198453	ENST00000455817	protein_coding	PUTATIVE	None	25392	239	78	37464440	37487420	1	None	DKFZp686B0797
19	ZNF568	ENSG00000198453	ENST00000588596	protein_coding	PUTATIVE	None	25392	176	57	37464463	37487357	1	None	DKFZp686B0797
19	ZNF568	ENSG00000198453	ENST00000591887	retained_intron	KNOWN	None	25392	None	None	37481955	37489602	1	None	DKFZp686B0797
X	FAM122B	ENSG00000156504	ENST00000370790	protein_coding	KNOWN	CCDS55497	30490	744	247	133903596	133931164	-1	None	DKFZp686L20116, RP11-308B5.5
X	FAM122B	ENSG00000156504	ENST00000478384	processed_transcript	KNOWN	None	30490	None	None	133905126	133923134	-1	None	DKFZp686L20116, RP11-308B5.5
X	FAM122B	ENSG00000156504	ENST00000486347	protein_coding	KNOWN	CCDS14643	30490	747	248	133905604	133930304	-1	None	DKFZp686L20116, RP11-308B5.5
X	FAM122B	ENSG00000156504	ENST00000465128	processed_transcript	KNOWN	None	30490	None	None	133905927	133923134	-1	None	DKFZp686L20116, RP11-308B5.5
X	FAM122B	ENSG00000156504	ENST00000493333	processed_transcript	KNOWN	None	30490	None	None	133906109	133931217	-1	None	DKFZp686L20116, RP11-308B5.5
X	FAM122B	ENSG00000156504	ENST00000467413	processed_transcript	KNOWN	None	30490	None	None	133906131	133931217	-1	None	DKFZp686L20116, RP11-308B5.5
X	FAM122B	ENSG00000156504	ENST00000298090	protein_coding	KNOWN	CCDS55498	30490	726	241	133903597	133931262	-1	None	DKFZp686L20116, RP11-308B5.5
X	FAM122B	ENSG00000156504	ENST00000343004	protein_coding	KNOWN	CCDS55499	30490	801	266	133903597	133930385	-1	None	DKFZp686L20116, RP11-308B5.5
1	TMEM79	ENSG00000163472	ENST00000463670	processed_transcript	KNOWN	None	28196	None	None	156252726	156262234	1	None	MGC13102, FLJ16057, FLJ32254
1	TMEM79	ENSG00000163472	ENST00000295694	protein_coding	KNOWN	CCDS1138	28196	1185	394	156252739	156262234	1	None	MGC13102, FLJ16057, FLJ32254
1	TMEM79	ENSG00000163472	ENST00000357501	protein_coding	KNOWN	None	28196	528	175	156252744	156261739	1	None	MGC13102, FLJ16057, FLJ32254
1	TMEM79	ENSG00000163472	ENST00000495881	processed_transcript	KNOWN	None	28196	None	None	156254105	156262234	1	None	MGC13102, FLJ16057, FLJ32254
1	TMEM79	ENSG00000163472	ENST00000456810	protein_coding	KNOWN	None	28196	396	131	156254113	156261316	1	None	MGC13102, FLJ16057, FLJ32254
1	TMEM79	ENSG00000163472	ENST00000485135	processed_transcript	KNOWN	None	28196	None	None	156256067	156262976	1	None	MGC13102, FLJ16057, FLJ32254
1	TMEM79	ENSG00000163472	ENST00000405535	protein_coding	KNOWN	CCDS1138	28196	1185	394	156254070	156262234	1	None	MGC13102, FLJ16057, FLJ32254
20	CST13P	ENSG00000204663	ENST00000400563	processed_transcript	KNOWN	None	44335	None	None	23499783	23522655	1	None	CTES6, CSTT
20	CST13P	ENSG00000204663	ENST00000413633	processed_transcript	KNOWN	None	44335	None	None	23499785	23522655	1	None	CTES6, CSTT
20	CST13P	ENSG00000204663	ENST00000376992	transcribed_unprocessed_pseudogene	KNOWN	None	44335	None	None	23501513	23522394	1	None	CTES6, CSTT
11	B3GAT3	ENSG00000149541	ENST00000265471	protein_coding	KNOWN	CCDS8025	923	1008	335	62382768	62389647	-1	None	GlcAT-I
11	B3GAT3	ENSG00000149541	ENST00000531383	protein_coding	PUTATIVE	None	923	960	319	62382769	62389626	-1	None	GlcAT-I
11	B3GAT3	ENSG00000149541	ENST00000532585	nonsense_mediated_decay	KNOWN	None	923	117	38	62382923	62389456	-1	None	GlcAT-I
11	B3GAT3	ENSG00000149541	ENST00000534026	protein_coding	PUTATIVE	None	923	948	315	62383539	62389456	-1	None	GlcAT-I
11	B3GAT3	ENSG00000149541	ENST00000533303	retained_intron	KNOWN	None	923	None	None	62384161	62384926	-1	None	GlcAT-I
11	B3GAT3	ENSG00000149541	ENST00000534715	protein_coding	NOVEL	None	923	669	222	62384477	62389618	-1	None	GlcAT-I
4	KIAA1430	ENSG00000164323	ENST00000458385	protein_coding	NOVEL	CCDS47168	29276	1599	532	186080819	186125155	-1	None	DKFZp434F1728
4	KIAA1430	ENSG00000164323	ENST00000514798	protein_coding	NOVEL	None	29276	1362	453	186090180	186125182	-1	None	DKFZp434F1728
4	KIAA1430	ENSG00000164323	ENST00000502992	processed_transcript	PUTATIVE	None	29276	None	None	186096954	186103673	-1	None	DKFZp434F1728
4	KIAA1430	ENSG00000164323	ENST00000503223	protein_coding	NOVEL	None	29276	429	142	186111922	186130658	-1	None	DKFZp434F1728
4	KIAA1430	ENSG00000164323	ENST00000296775	protein_coding	KNOWN	None	29276	1362	453	186091453	186125182	-1	None	DKFZp434F1728
4	MAN2B2	ENSG00000013288	ENST00000285599	protein_coding	KNOWN	CCDS33951	29623	3030	1009	6576902	6625089	1	None	KIAA0935
4	MAN2B2	ENSG00000013288	ENST00000504248	protein_coding	NOVEL	None	29623	2877	958	6576916	6623081	1	None	KIAA0935
4	MAN2B2	ENSG00000013288	ENST00000505907	protein_coding	KNOWN	None	29623	2861	952	6576942	6624128	1	None	KIAA0935
4	MAN2B2	ENSG00000013288	ENST00000504960	processed_transcript	KNOWN	None	29623	None	None	6606975	6611768	1	None	KIAA0935
4	MAN2B2	ENSG00000013288	ENST00000510427	processed_transcript	KNOWN	None	29623	None	None	6619175	6620643	1	None	KIAA0935
1	C1orf85	ENSG00000198715	ENST00000461597	processed_transcript	KNOWN	None	29436	None	None	156259880	156263172	-1	None	MGC31963, NCU-G1
1	C1orf85	ENSG00000198715	ENST00000497831	processed_transcript	KNOWN	None	29436	None	None	156259887	156261341	-1	None	MGC31963, NCU-G1
1	C1orf85	ENSG00000198715	ENST00000472870	processed_transcript	KNOWN	None	29436	None	None	156260332	156265445	-1	None	MGC31963, NCU-G1
1	C1orf85	ENSG00000198715	ENST00000480968	processed_transcript	PUTATIVE	None	29436	None	None	156260478	156261297	-1	None	MGC31963, NCU-G1
1	C1orf85	ENSG00000198715	ENST00000482579	processed_transcript	PUTATIVE	None	29436	None	None	156262479	156263458	-1	None	MGC31963, NCU-G1
1	C1orf85	ENSG00000198715	ENST00000362007	protein_coding	KNOWN	CCDS1139	29436	1221	406	156262479	156265463	-1	None	MGC31963, NCU-G1
1	C1orf85	ENSG00000198715	ENST00000481050	processed_transcript	KNOWN	None	29436	None	None	156262486	156263867	-1	None	MGC31963, NCU-G1
1	C1orf85	ENSG00000198715	ENST00000476177	processed_transcript	KNOWN	None	29436	None	None	156263164	156265444	-1	None	MGC31963, NCU-G1
1	C1orf85	ENSG00000198715	ENST00000497955	processed_transcript	PUTATIVE	None	29436	None	None	156263175	156264304	-1	None	MGC31963, NCU-G1
1	C1orf85	ENSG00000198715	ENST00000368264	protein_coding	KNOWN	None	29436	552	183	156263214	156265445	-1	None	MGC31963, NCU-G1
1	C1orf85	ENSG00000198715	ENST00000479084	processed_transcript	KNOWN	None	29436	None	None	156263309	156264783	-1	None	MGC31963, NCU-G1
1	C1orf85	ENSG00000198715	ENST00000484214	processed_transcript	KNOWN	None	29436	None	None	156263408	156265438	-1	None	MGC31963, NCU-G1
2	FAM117B	ENSG00000138439	ENST00000392238	protein_coding	KNOWN	CCDS33362	14440	1770	589	203499911	203634480	1	ALS2CR13	FLJ38771
2	FAM117B	ENSG00000138439	ENST00000481658	retained_intron	KNOWN	None	14440	None	None	203500212	203589955	1	ALS2CR13	FLJ38771
2	FAM117B	ENSG00000138439	ENST00000303116	protein_coding	KNOWN	None	14440	1038	345	203499901	203634479	1	ALS2CR13	FLJ38771
12	GLIPR1L2	ENSG00000180481	ENST00000550916	protein_coding	KNOWN	CCDS58258	28592	1035	344	75784850	75826468	1	None	MGC39497
12	GLIPR1L2	ENSG00000180481	ENST00000378692	protein_coding	KNOWN	None	28592	714	237	75784881	75825663	1	None	MGC39497
12	GLIPR1L2	ENSG00000180481	ENST00000320460	protein_coding	KNOWN	CCDS9010	28592	762	253	75784889	75817820	1	None	MGC39497
12	GLIPR1L2	ENSG00000180481	ENST00000547164	protein_coding	PUTATIVE	None	28592	507	168	75784897	75816712	1	None	MGC39497
12	GLIPR1L2	ENSG00000180481	ENST00000435775	protein_coding	KNOWN	None	28592	507	168	75784860	75825591	1	None	MGC39497
12	GLIPR1L2	ENSG00000180481	ENST00000378689	protein_coding	KNOWN	None	28592	321	106	75784860	75796883	1	None	MGC39497
12	GLIPR1L2	ENSG00000180481	ENST00000441218	protein_coding	KNOWN	None	28592	840	279	75785310	75825655	1	None	MGC39497
1	PDE4B	ENSG00000184588	ENST00000329654	protein_coding	KNOWN	CCDS632	8781	2211	736	66258197	66839961	1	DPDE4	None
1	PDE4B	ENSG00000184588	ENST00000341517	protein_coding	KNOWN	CCDS632	8781	2211	736	66258864	66839187	1	DPDE4	None
1	PDE4B	ENSG00000184588	ENST00000423207	protein_coding	KNOWN	CCDS30742	8781	2166	721	66458105	66840256	1	DPDE4	None
1	PDE4B	ENSG00000184588	ENST00000531358	processed_transcript	PUTATIVE	None	8781	None	None	66458299	66578481	1	DPDE4	None
1	PDE4B	ENSG00000184588	ENST00000532040	processed_transcript	PUTATIVE	None	8781	None	None	66458418	66713240	1	DPDE4	None
1	PDE4B	ENSG00000184588	ENST00000526666	processed_transcript	PUTATIVE	None	8781	None	None	66458419	66713227	1	DPDE4	None
1	PDE4B	ENSG00000184588	ENST00000412480	protein_coding	PUTATIVE	None	8781	441	146	66618073	66798273	1	DPDE4	None
1	PDE4B	ENSG00000184588	ENST00000371048	processed_transcript	KNOWN	None	8781	None	None	66723048	66733192	1	DPDE4	None
1	PDE4B	ENSG00000184588	ENST00000490695	processed_transcript	KNOWN	None	8781	None	None	66723108	66732822	1	DPDE4	None
1	PDE4B	ENSG00000184588	ENST00000491340	protein_coding	PUTATIVE	None	8781	199	65	66723330	66731838	1	DPDE4	None
1	PDE4B	ENSG00000184588	ENST00000528771	protein_coding	PUTATIVE	None	8781	411	136	66796411	66828898	1	DPDE4	None
1	PDE4B	ENSG00000184588	ENST00000371045	protein_coding	KNOWN	CCDS30743	8781	1695	564	66797687	66840259	1	DPDE4	None
1	PDE4B	ENSG00000184588	ENST00000531025	protein_coding	PUTATIVE	None	8781	430	142	66797832	66828917	1	DPDE4	None
1	PDE4B	ENSG00000184588	ENST00000526197	protein_coding	PUTATIVE	None	8781	456	151	66797872	66828943	1	DPDE4	None
1	PDE4B	ENSG00000184588	ENST00000480109	protein_coding	PUTATIVE	None	8781	1512	503	66820065	66838421	1	DPDE4	None
1	PDE4B	ENSG00000184588	ENST00000534463	retained_intron	KNOWN	None	8781	None	None	66820808	66829181	1	DPDE4	None
1	PDE4B	ENSG00000184588	ENST00000524999	processed_transcript	KNOWN	None	8781	None	None	66826109	66828925	1	DPDE4	None
1	PDE4B	ENSG00000184588	ENST00000483863	retained_intron	KNOWN	None	8781	None	None	66833177	66833840	1	DPDE4	None
1	PDE4B	ENSG00000184588	ENST00000371049	protein_coding	KNOWN	CCDS632	8781	2211	736	66378998	66838361	1	DPDE4	None
11	YPEL4	ENSG00000166793	ENST00000528797	retained_intron	KNOWN	None	18328	None	None	57412560	57415050	-1	None	FLJ30213
11	YPEL4	ENSG00000166793	ENST00000532314	nonsense_mediated_decay	KNOWN	None	18328	168	55	57412560	57417377	-1	None	FLJ30213
11	YPEL4	ENSG00000166793	ENST00000524669	protein_coding	KNOWN	CCDS7963	18328	384	127	57412561	57417417	-1	None	FLJ30213
11	YPEL4	ENSG00000166793	ENST00000300022	protein_coding	KNOWN	CCDS7963	18328	384	127	57412561	57417417	-1	None	FLJ30213
11	YPEL4	ENSG00000166793	ENST00000524592	retained_intron	KNOWN	None	18328	None	None	57412565	57417248	-1	None	FLJ30213
11	YPEL4	ENSG00000166793	ENST00000534711	protein_coding	KNOWN	CCDS7963	18328	384	127	57413266	57414989	-1	None	FLJ30213
11	YPEL4	ENSG00000166793	ENST00000534810	protein_coding	KNOWN	None	18328	241	79	57413823	57417382	-1	None	FLJ30213
11	YPEL4	ENSG00000166793	ENST00000529776	processed_transcript	KNOWN	None	18328	None	None	57414195	57417411	-1	None	FLJ30213
11	YPEL4	ENSG00000166793	ENST00000533025	processed_transcript	KNOWN	None	18328	None	None	57414670	57417411	-1	None	FLJ30213
11	YPEL4	ENSG00000166793	ENST00000531442	processed_transcript	KNOWN	None	18328	None	None	57415933	57417409	-1	None	FLJ30213
11	YPEL4	ENSG00000166793	ENST00000544993	protein_coding	KNOWN	CCDS7963	18328	384	127	57412561	57415813	-1	None	FLJ30213
X	MPP1	ENSG00000130830	ENST00000369534	protein_coding	KNOWN	CCDS14762	7219	1401	466	154006959	154033796	-1	DXS552E	PEMP
X	MPP1	ENSG00000130830	ENST00000491955	retained_intron	KNOWN	None	7219	None	None	154006961	154011509	-1	DXS552E	PEMP
X	MPP1	ENSG00000130830	ENST00000482757	retained_intron	KNOWN	None	7219	None	None	154006998	154009871	-1	DXS552E	PEMP
X	MPP1	ENSG00000130830	ENST00000439370	nonsense_mediated_decay	KNOWN	None	7219	207	68	154007001	154033731	-1	DXS552E	PEMP
X	MPP1	ENSG00000130830	ENST00000393531	protein_coding	NOVEL	CCDS55545	7219	1341	446	154007428	154033672	-1	DXS552E	PEMP
X	MPP1	ENSG00000130830	ENST00000453245	protein_coding	NOVEL	None	7219	617	204	154010029	154033760	-1	DXS552E	PEMP
X	MPP1	ENSG00000130830	ENST00000494170	retained_intron	KNOWN	None	7219	None	None	154010984	154033716	-1	DXS552E	PEMP
X	MPP1	ENSG00000130830	ENST00000485256	processed_transcript	PUTATIVE	None	7219	None	None	154011520	154014558	-1	DXS552E	PEMP
X	MPP1	ENSG00000130830	ENST00000462825	processed_transcript	KNOWN	None	7219	None	None	154011652	154028090	-1	DXS552E	PEMP
X	MPP1	ENSG00000130830	ENST00000493871	retained_intron	KNOWN	None	7219	None	None	154011928	154014500	-1	DXS552E	PEMP
X	MPP1	ENSG00000130830	ENST00000393529	protein_coding	PUTATIVE	None	7219	724	240	154012306	154049282	-1	DXS552E	PEMP
X	MPP1	ENSG00000130830	ENST00000475943	retained_intron	KNOWN	None	7219	None	None	154012976	154033752	-1	DXS552E	PEMP
X	MPP1	ENSG00000130830	ENST00000428488	protein_coding	NOVEL	None	7219	469	155	154013332	154033760	-1	DXS552E	PEMP
X	MPP1	ENSG00000130830	ENST00000488754	processed_transcript	KNOWN	None	7219	None	None	154013359	154019470	-1	DXS552E	PEMP
X	MPP1	ENSG00000130830	ENST00000417435	nonsense_mediated_decay	KNOWN	None	7219	270	89	154014489	154033802	-1	DXS552E	PEMP
X	MPP1	ENSG00000130830	ENST00000488694	processed_transcript	KNOWN	None	7219	None	None	154014641	154020697	-1	DXS552E	PEMP
X	MPP1	ENSG00000130830	ENST00000369531	protein_coding	NOVEL	None	7219	394	130	154018264	154033773	-1	DXS552E	PEMP
X	MPP1	ENSG00000130830	ENST00000471821	processed_transcript	KNOWN	None	7219	None	None	154019906	154033743	-1	DXS552E	PEMP
X	MPP1	ENSG00000130830	ENST00000413259	protein_coding	KNOWN	CCDS55544	7219	1311	436	154006961	154033802	-1	DXS552E	PEMP
10	ECHDC3	ENSG00000134463	ENST00000379215	protein_coding	KNOWN	CCDS7084	23489	912	303	11784365	11806069	1	None	FLJ20909
10	ECHDC3	ENSG00000134463	ENST00000496136	processed_transcript	KNOWN	None	23489	None	None	11784365	11806069	1	None	FLJ20909
10	ECHDC3	ENSG00000134463	ENST00000420401	protein_coding	KNOWN	None	23489	723	240	11784445	11797580	1	None	FLJ20909
10	ECHDC3	ENSG00000134463	ENST00000422887	protein_coding	KNOWN	None	23489	500	165	11789274	11805350	1	None	FLJ20909
10	ECHDC3	ENSG00000134463	ENST00000495787	processed_transcript	KNOWN	None	23489	None	None	11789449	11797729	1	None	FLJ20909
19	TLE2	ENSG00000065717	ENST00000262953	protein_coding	KNOWN	CCDS45911	11838	2232	743	2997636	3029165	-1	None	ESG2, GRG2, ESG, FLJ41188
19	TLE2	ENSG00000065717	ENST00000591529	protein_coding	KNOWN	CCDS45913	11838	2121	706	2997644	3047633	-1	None	ESG2, GRG2, ESG, FLJ41188
19	TLE2	ENSG00000065717	ENST00000586422	protein_coding	NOVEL	None	11838	360	119	2997645	3028354	-1	None	ESG2, GRG2, ESG, FLJ41188
19	TLE2	ENSG00000065717	ENST00000443826	protein_coding	KNOWN	CCDS45912	11838	1866	621	2997680	3029612	-1	None	ESG2, GRG2, ESG, FLJ41188
19	TLE2	ENSG00000065717	ENST00000590536	protein_coding	NOVEL	None	11838	2235	744	2997846	3029011	-1	None	ESG2, GRG2, ESG, FLJ41188
19	TLE2	ENSG00000065717	ENST00000589364	protein_coding	NOVEL	None	11838	841	279	3005436	3025025	-1	None	ESG2, GRG2, ESG, FLJ41188
19	TLE2	ENSG00000065717	ENST00000586492	processed_transcript	KNOWN	None	11838	None	None	3005837	3008874	-1	None	ESG2, GRG2, ESG, FLJ41188
19	TLE2	ENSG00000065717	ENST00000587672	retained_intron	KNOWN	None	11838	None	None	3009570	3019478	-1	None	ESG2, GRG2, ESG, FLJ41188
19	TLE2	ENSG00000065717	ENST00000589205	processed_transcript	KNOWN	None	11838	None	None	3009659	3019370	-1	None	ESG2, GRG2, ESG, FLJ41188
19	TLE2	ENSG00000065717	ENST00000587217	processed_transcript	KNOWN	None	11838	None	None	3013745	3020587	-1	None	ESG2, GRG2, ESG, FLJ41188
19	TLE2	ENSG00000065717	ENST00000591457	protein_coding	NOVEL	None	11838	393	130	3013789	3045728	-1	None	ESG2, GRG2, ESG, FLJ41188
19	TLE2	ENSG00000065717	ENST00000590101	retained_intron	KNOWN	None	11838	None	None	3014569	3028917	-1	None	ESG2, GRG2, ESG, FLJ41188
19	TLE2	ENSG00000065717	ENST00000587137	protein_coding	NOVEL	None	11838	420	139	3014595	3029041	-1	None	ESG2, GRG2, ESG, FLJ41188
19	TLE2	ENSG00000065717	ENST00000590183	processed_transcript	KNOWN	None	11838	None	None	3014600	3025645	-1	None	ESG2, GRG2, ESG, FLJ41188
19	TLE2	ENSG00000065717	ENST00000589291	processed_transcript	KNOWN	None	11838	None	None	3015713	3020225	-1	None	ESG2, GRG2, ESG, FLJ41188
19	TLE2	ENSG00000065717	ENST00000592584	protein_coding	KNOWN	None	11838	535	177	3019299	3029611	-1	None	ESG2, GRG2, ESG, FLJ41188
19	TLE2	ENSG00000065717	ENST00000587770	retained_intron	KNOWN	None	11838	None	None	3019429	3025614	-1	None	ESG2, GRG2, ESG, FLJ41188
19	TLE2	ENSG00000065717	ENST00000592305	retained_intron	KNOWN	None	11838	None	None	3019498	3029032	-1	None	ESG2, GRG2, ESG, FLJ41188
19	TLE2	ENSG00000065717	ENST00000591720	retained_intron	KNOWN	None	11838	None	None	3019551	3029620	-1	None	ESG2, GRG2, ESG, FLJ41188
19	TLE2	ENSG00000065717	ENST00000587893	retained_intron	KNOWN	None	11838	None	None	3019700	3025373	-1	None	ESG2, GRG2, ESG, FLJ41188
19	TLE2	ENSG00000065717	ENST00000455444	protein_coding	KNOWN	CCDS45912	11838	1866	621	2997637	3029129	-1	None	ESG2, GRG2, ESG, FLJ41188
19	TLE2	ENSG00000065717	ENST00000447365	protein_coding	KNOWN	None	11838	1233	410	2997678	3025614	-1	None	ESG2, GRG2, ESG, FLJ41188
19	TLE2	ENSG00000065717	ENST00000426948	protein_coding	KNOWN	CCDS45913	11838	2121	706	2997922	3045786	-1	None	ESG2, GRG2, ESG, FLJ41188
1	VHLL	ENSG00000189030	ENST00000339922	protein_coding	KNOWN	None	30666	420	139	156268415	156269428	-1	VHLP	VLP
7	CALN1	ENSG00000183166	ENST00000329008	protein_coding	KNOWN	CCDS5541	13248	660	219	71244476	71801980	-1	None	None
7	CALN1	ENSG00000183166	ENST00000395275	protein_coding	KNOWN	CCDS47603	13248	786	261	71244476	71877358	-1	None	None
7	CALN1	ENSG00000183166	ENST00000395276	protein_coding	KNOWN	CCDS5541	13248	660	219	71244476	71912046	-1	None	None
7	CALN1	ENSG00000183166	ENST00000431984	protein_coding	KNOWN	CCDS5541	13248	660	219	71252760	71912136	-1	None	None
7	CALN1	ENSG00000183166	ENST00000446128	protein_coding	KNOWN	None	13248	375	124	71488642	71802736	-1	None	None
7	CALN1	ENSG00000183166	ENST00000412588	protein_coding	KNOWN	CCDS47603	13248	786	261	71252760	71868354	-1	None	None
7	CALN1	ENSG00000183166	ENST00000405452	protein_coding	KNOWN	CCDS5541	13248	660	219	71252760	71743788	-1	None	None
5	CMYA5	ENSG00000164309	ENST00000446378	protein_coding	KNOWN	CCDS47238	14305	12210	4069	78985700	79096045	1	C5orf10	myospryn, SPRYD2, DKFZp451G223, TRIM76
5	CMYA5	ENSG00000164309	ENST00000506603	retained_intron	KNOWN	None	14305	None	None	79033965	79096063	1	C5orf10	myospryn, SPRYD2, DKFZp451G223, TRIM76
5	CMYA5	ENSG00000164309	ENST00000505466	processed_transcript	KNOWN	None	14305	None	None	79054576	79059242	1	C5orf10	myospryn, SPRYD2, DKFZp451G223, TRIM76
X	ACRC	ENSG00000147174	ENST00000373696	protein_coding	KNOWN	CCDS35326	15805	2076	691	70798261	70833433	1	None	None
X	ACRC	ENSG00000147174	ENST00000373695	protein_coding	KNOWN	CCDS35326	15805	2076	691	70800135	70833432	1	None	None
X	ACRC	ENSG00000147174	ENST00000471950	processed_transcript	KNOWN	None	15805	None	None	70828916	70832704	1	None	None
9	CCL27	ENSG00000213927	ENST00000557161	processed_transcript	KNOWN	None	10626	None	None	34661877	34664045	-1	SCYA27	ALP, ILC, CTACK, skinkine, ESkine, PESKY, CTAK
9	CCL27	ENSG00000213927	ENST00000259631	protein_coding	KNOWN	CCDS6569	10626	339	112	34661893	34662689	-1	SCYA27	ALP, ILC, CTACK, skinkine, ESkine, PESKY, CTAK
17	CSNK1D	ENSG00000141551	ENST00000584672	nonsense_mediated_decay	KNOWN	None	2452	193	63	80196899	80206856	-1	None	HCKID, CKID, CKIdelta
17	CSNK1D	ENSG00000141551	ENST00000398519	protein_coding	PUTATIVE	None	2452	1284	427	80197603	80231304	-1	None	HCKID, CKID, CKIdelta
17	CSNK1D	ENSG00000141551	ENST00000314028	protein_coding	KNOWN	CCDS11805	2452	1248	415	80200543	80231607	-1	None	HCKID, CKID, CKIdelta
17	CSNK1D	ENSG00000141551	ENST00000581241	retained_intron	KNOWN	None	2452	None	None	80200549	80231245	-1	None	HCKID, CKID, CKIdelta
17	CSNK1D	ENSG00000141551	ENST00000584377	retained_intron	KNOWN	None	2452	None	None	80202177	80212555	-1	None	HCKID, CKID, CKIdelta
17	CSNK1D	ENSG00000141551	ENST00000577578	processed_transcript	PUTATIVE	None	2452	None	None	80202238	80204467	-1	None	HCKID, CKID, CKIdelta
17	CSNK1D	ENSG00000141551	ENST00000392334	protein_coding	KNOWN	CCDS11806	2452	1230	409	80202238	80231573	-1	None	HCKID, CKID, CKIdelta
17	CSNK1D	ENSG00000141551	ENST00000578501	retained_intron	KNOWN	None	2452	None	None	80202270	80207372	-1	None	HCKID, CKID, CKIdelta
17	CSNK1D	ENSG00000141551	ENST00000581737	retained_intron	KNOWN	None	2452	None	None	80202367	80207040	-1	None	HCKID, CKID, CKIdelta
17	CSNK1D	ENSG00000141551	ENST00000580784	nonsense_mediated_decay	KNOWN	None	2452	61	19	80202521	80209290	-1	None	HCKID, CKID, CKIdelta
17	CSNK1D	ENSG00000141551	ENST00000269361	nonsense_mediated_decay	KNOWN	None	2452	361	119	80202556	80213392	-1	None	HCKID, CKID, CKIdelta
17	CSNK1D	ENSG00000141551	ENST00000584913	processed_transcript	PUTATIVE	None	2452	None	None	80202598	80202989	-1	None	HCKID, CKID, CKIdelta
17	CSNK1D	ENSG00000141551	ENST00000403276	nonsense_mediated_decay	KNOWN	None	2452	381	126	80203894	80231307	-1	None	HCKID, CKID, CKIdelta
17	CSNK1D	ENSG00000141551	ENST00000580565	processed_transcript	KNOWN	None	2452	None	None	80204194	80207711	-1	None	HCKID, CKID, CKIdelta
17	CSNK1D	ENSG00000141551	ENST00000581108	retained_intron	KNOWN	None	2452	None	None	80207115	80210403	-1	None	HCKID, CKID, CKIdelta
17	CSNK1D	ENSG00000141551	ENST00000582844	processed_transcript	KNOWN	None	2452	None	None	80207365	80231000	-1	None	HCKID, CKID, CKIdelta
17	CSNK1D	ENSG00000141551	ENST00000578904	processed_transcript	KNOWN	None	2452	None	None	80207454	80213422	-1	None	HCKID, CKID, CKIdelta
17	CSNK1D	ENSG00000141551	ENST00000580446	protein_coding	NOVEL	None	2452	562	186	80210373	80231307	-1	None	HCKID, CKID, CKIdelta
17	CSNK1D	ENSG00000141551	ENST00000581660	nonsense_mediated_decay	KNOWN	None	2452	132	43	80211092	80231333	-1	None	HCKID, CKID, CKIdelta
17	CSNK1D	ENSG00000141551	ENST00000578194	processed_transcript	KNOWN	None	2452	None	None	80211096	80231047	-1	None	HCKID, CKID, CKIdelta
17	CSNK1D	ENSG00000141551	ENST00000579316	retained_intron	KNOWN	None	2452	None	None	80213006	80231314	-1	None	HCKID, CKID, CKIdelta
17	CSNK1D	ENSG00000141551	ENST00000584472	processed_transcript	KNOWN	None	2452	None	None	80213040	80231342	-1	None	HCKID, CKID, CKIdelta
17	CSNK1D	ENSG00000141551	ENST00000580061	retained_intron	KNOWN	None	2452	None	None	80213063	80224676	-1	None	HCKID, CKID, CKIdelta
17	CSNK1D	ENSG00000141551	ENST00000585026	nonsense_mediated_decay	KNOWN	None	2452	171	56	80213314	80231276	-1	None	HCKID, CKID, CKIdelta
17	CSNK1D	ENSG00000141551	ENST00000579308	retained_intron	KNOWN	None	2452	None	None	80223176	80231282	-1	None	HCKID, CKID, CKIdelta
17	CSNK1D	ENSG00000141551	ENST00000581655	processed_transcript	PUTATIVE	None	2452	None	None	80224584	80231127	-1	None	HCKID, CKID, CKIdelta
1	HEATR1	ENSG00000119285	ENST00000366582	protein_coding	KNOWN	CCDS31066	25517	6435	2144	236712305	236767804	-1	None	FLJ10359, BAP28, UTP10
1	HEATR1	ENSG00000119285	ENST00000366581	protein_coding	KNOWN	None	25517	6192	2063	236713971	236767804	-1	None	FLJ10359, BAP28, UTP10
1	HEATR1	ENSG00000119285	ENST00000490339	processed_transcript	KNOWN	None	25517	None	None	236737296	236738075	-1	None	FLJ10359, BAP28, UTP10
1	HEATR1	ENSG00000119285	ENST00000483073	processed_transcript	KNOWN	None	25517	None	None	236759072	236762920	-1	None	FLJ10359, BAP28, UTP10
1	HEATR1	ENSG00000119285	ENST00000366579	protein_coding	KNOWN	None	25517	363	120	236766125	236767788	-1	None	FLJ10359, BAP28, UTP10
X	CXCR3	ENSG00000186810	ENST00000373691	protein_coding	KNOWN	CCDS48135	4540	1248	415	70835766	70838360	-1	GPR9	CKR-L2, CMKAR3, IP10-R, MigR, CD183
X	CXCR3	ENSG00000186810	ENST00000373693	protein_coding	KNOWN	CCDS14416	4540	1107	368	70835766	70838367	-1	GPR9	CKR-L2, CMKAR3, IP10-R, MigR, CD183
4	TECRL	ENSG00000205678	ENST00000507440	protein_coding	NOVEL	None	27365	981	326	65140975	65275186	-1	None	GPSN2L, SRD5A2L2, DKFZp313D0829, DKFZp313B2333, TERL
4	TECRL	ENSG00000205678	ENST00000381210	protein_coding	KNOWN	CCDS33990	27365	1092	363	65143420	65275180	-1	None	GPSN2L, SRD5A2L2, DKFZp313D0829, DKFZp313B2333, TERL
4	TECRL	ENSG00000205678	ENST00000511997	protein_coding	PUTATIVE	None	27365	84	27	65145793	65147254	-1	None	GPSN2L, SRD5A2L2, DKFZp313D0829, DKFZp313B2333, TERL
4	TECRL	ENSG00000205678	ENST00000513125	processed_transcript	KNOWN	None	27365	None	None	65164582	65188414	-1	None	GPSN2L, SRD5A2L2, DKFZp313D0829, DKFZp313B2333, TERL
4	TECRL	ENSG00000205678	ENST00000511356	retained_intron	KNOWN	None	27365	None	None	65170623	65275174	-1	None	GPSN2L, SRD5A2L2, DKFZp313D0829, DKFZp313B2333, TERL
4	TECRL	ENSG00000205678	ENST00000509536	protein_coding	NOVEL	None	27365	437	144	65188405	65275116	-1	None	GPSN2L, SRD5A2L2, DKFZp313D0829, DKFZp313B2333, TERL
15	PYGO1	ENSG00000171016	ENST00000302000	protein_coding	KNOWN	CCDS10155	30256	1260	419	55831088	55881145	-1	None	None
15	PYGO1	ENSG00000171016	ENST00000563719	protein_coding	PUTATIVE	None	30256	1260	419	55836885	55880138	-1	None	None
7	PLOD3	ENSG00000106397	ENST00000454310	protein_coding	NOVEL	None	9083	794	263	100849258	100854953	-1	None	LH3
7	PLOD3	ENSG00000106397	ENST00000223127	protein_coding	KNOWN	CCDS5715	9083	2217	738	100849258	100860954	-1	None	LH3
7	PLOD3	ENSG00000106397	ENST00000487563	retained_intron	KNOWN	None	9083	None	None	100851874	100853720	-1	None	LH3
7	PLOD3	ENSG00000106397	ENST00000460132	retained_intron	KNOWN	None	9083	None	None	100853103	100853936	-1	None	LH3
7	PLOD3	ENSG00000106397	ENST00000440925	nonsense_mediated_decay	KNOWN	None	9083	200	65	100853409	100855196	-1	None	LH3
7	PLOD3	ENSG00000106397	ENST00000466881	retained_intron	KNOWN	None	9083	None	None	100853637	100854384	-1	None	LH3
7	PLOD3	ENSG00000106397	ENST00000421736	protein_coding	NOVEL	None	9083	809	268	100853876	100859301	-1	None	LH3
7	PLOD3	ENSG00000106397	ENST00000463479	retained_intron	KNOWN	None	9083	None	None	100854585	100855218	-1	None	LH3
7	PLOD3	ENSG00000106397	ENST00000478082	retained_intron	KNOWN	None	9083	None	None	100854845	100861275	-1	None	LH3
7	PLOD3	ENSG00000106397	ENST00000460475	retained_intron	KNOWN	None	9083	None	None	100854916	100856257	-1	None	LH3
7	PLOD3	ENSG00000106397	ENST00000478264	retained_intron	KNOWN	None	9083	None	None	100855825	100856836	-1	None	LH3
7	PLOD3	ENSG00000106397	ENST00000424135	nonsense_mediated_decay	KNOWN	None	9083	378	125	100856202	100859827	-1	None	LH3
7	PLOD3	ENSG00000106397	ENST00000489927	retained_intron	KNOWN	None	9083	None	None	100859189	100860123	-1	None	LH3
7	PLOD3	ENSG00000106397	ENST00000414785	protein_coding	PUTATIVE	None	9083	514	170	100859444	100861275	-1	None	LH3
7	PLOD3	ENSG00000106397	ENST00000456079	protein_coding	KNOWN	None	9083	227	74	100859802	100861701	-1	None	LH3
7	PLOD3	ENSG00000106397	ENST00000481461	retained_intron	KNOWN	None	9083	None	None	100860704	100861647	-1	None	LH3
12	C12orf10	ENSG00000139637	ENST00000267103	protein_coding	NOVEL	CCDS31810	17590	1131	376	53693470	53700942	1	None	MYG, MYG1, Gamm1
12	C12orf10	ENSG00000139637	ENST00000548845	retained_intron	KNOWN	None	17590	None	None	53693502	53700955	1	None	MYG, MYG1, Gamm1
12	C12orf10	ENSG00000139637	ENST00000551670	retained_intron	KNOWN	None	17590	None	None	53693534	53697632	1	None	MYG, MYG1, Gamm1
12	C12orf10	ENSG00000139637	ENST00000548632	protein_coding	NOVEL	None	17590	906	301	53693534	53700955	1	None	MYG, MYG1, Gamm1
12	C12orf10	ENSG00000139637	ENST00000551131	retained_intron	KNOWN	None	17590	None	None	53693721	53697080	1	None	MYG, MYG1, Gamm1
12	C12orf10	ENSG00000139637	ENST00000549488	protein_coding	PUTATIVE	None	17590	642	213	53693877	53700961	1	None	MYG, MYG1, Gamm1
12	C12orf10	ENSG00000139637	ENST00000547864	protein_coding	NOVEL	None	17590	392	129	53696952	53700955	1	None	MYG, MYG1, Gamm1
12	C12orf10	ENSG00000139637	ENST00000550199	retained_intron	KNOWN	None	17590	None	None	53699480	53700892	1	None	MYG, MYG1, Gamm1
12	C12orf10	ENSG00000139637	ENST00000549177	retained_intron	KNOWN	None	17590	None	None	53699870	53700932	1	None	MYG, MYG1, Gamm1
12	C12orf10	ENSG00000139637	ENST00000547490	retained_intron	KNOWN	None	17590	None	None	53700341	53700957	1	None	MYG, MYG1, Gamm1
4	SNX25	ENSG00000109762	ENST00000504273	protein_coding	KNOWN	CCDS34116	21883	2523	840	186125391	186285125	1	None	SBBI31
4	SNX25	ENSG00000109762	ENST00000264694	protein_coding	KNOWN	CCDS34116	21883	2523	840	186131233	186285120	1	None	SBBI31
4	SNX25	ENSG00000109762	ENST00000506896	processed_transcript	KNOWN	None	21883	None	None	186131315	186188182	1	None	SBBI31
4	SNX25	ENSG00000109762	ENST00000512853	processed_transcript	KNOWN	None	21883	None	None	186216981	186284664	1	None	SBBI31
4	SNX25	ENSG00000109762	ENST00000504959	nonsense_mediated_decay	KNOWN	None	21883	428	141	186241999	186291339	1	None	SBBI31
4	SNX25	ENSG00000109762	ENST00000513433	retained_intron	KNOWN	None	21883	None	None	186274212	186283213	1	None	SBBI31
20	CST9LP1	ENSG00000204662	ENST00000376987	unprocessed_pseudogene	KNOWN	None	39552	None	None	23528401	23531289	-1	None	CTES7C
9	None	ENSG00000187186	ENST00000421828	protein_coding	NOVEL	None	None	264	87	34664160	34666046	-1	None	None
9	None	ENSG00000187186	ENST00000555007	retained_intron	KNOWN	None	None	None	None	34665019	34665492	-1	None	None
9	None	ENSG00000187186	ENST00000416454	protein_coding	PUTATIVE	None	None	111	36	34665025	34666025	-1	None	None
9	None	ENSG00000187186	ENST00000423809	protein_coding	PUTATIVE	None	None	111	36	34665025	34666109	-1	None	None
9	None	ENSG00000187186	ENST00000544078	protein_coding	NOVEL	None	None	264	87	34665029	34666025	-1	None	None
X	NHSL2	ENSG00000204131	ENST00000373677	protein_coding	KNOWN	None	33737	2130	709	71353499	71361212	1	None	None
X	NHSL2	ENSG00000204131	ENST00000510661	protein_coding	NOVEL	None	33737	2535	844	71354000	71361107	1	None	None
X	NHSL2	ENSG00000204131	ENST00000540800	protein_coding	KNOWN	None	33737	3678	1225	71130938	71363424	1	None	None
X	NHSL2	ENSG00000204131	ENST00000535692	protein_coding	KNOWN	None	33737	2130	709	71354000	71361107	1	None	None
2	ICA1L	ENSG00000163596	ENST00000392237	protein_coding	KNOWN	CCDS2354	14442	1449	482	203640690	203736365	-1	ALS2CR15, ALS2CR14	None
2	ICA1L	ENSG00000163596	ENST00000358299	protein_coding	KNOWN	CCDS2354	14442	1449	482	203642622	203736708	-1	ALS2CR15, ALS2CR14	None
2	ICA1L	ENSG00000163596	ENST00000438804	nonsense_mediated_decay	KNOWN	None	14442	1320	439	203643793	203736178	-1	ALS2CR15, ALS2CR14	None
2	ICA1L	ENSG00000163596	ENST00000420558	protein_coding	NOVEL	None	14442	333	110	203653713	203735484	-1	ALS2CR15, ALS2CR14	None
2	ICA1L	ENSG00000163596	ENST00000494560	retained_intron	KNOWN	None	14442	None	None	203679480	203684744	-1	ALS2CR15, ALS2CR14	None
2	ICA1L	ENSG00000163596	ENST00000476602	retained_intron	KNOWN	None	14442	None	None	203684328	203686479	-1	ALS2CR15, ALS2CR14	None
2	ICA1L	ENSG00000163596	ENST00000425178	protein_coding	PUTATIVE	None	14442	564	187	203684328	203693957	-1	ALS2CR15, ALS2CR14	None
2	ICA1L	ENSG00000163596	ENST00000418208	protein_coding	PUTATIVE	None	14442	234	77	203684449	203735511	-1	ALS2CR15, ALS2CR14	None
2	ICA1L	ENSG00000163596	ENST00000450143	protein_coding	KNOWN	None	14442	452	149	203684530	203735769	-1	ALS2CR15, ALS2CR14	None
2	ICA1L	ENSG00000163596	ENST00000435143	protein_coding	KNOWN	None	14442	402	133	203684580	203735989	-1	ALS2CR15, ALS2CR14	None
2	ICA1L	ENSG00000163596	ENST00000419460	protein_coding	KNOWN	None	14442	372	123	203684610	203736458	-1	ALS2CR15, ALS2CR14	None
2	ICA1L	ENSG00000163596	ENST00000441547	protein_coding	KNOWN	None	14442	359	118	203686081	203734320	-1	ALS2CR15, ALS2CR14	None
2	ICA1L	ENSG00000163596	ENST00000412210	protein_coding	KNOWN	None	14442	358	118	203686082	203736374	-1	ALS2CR15, ALS2CR14	None
2	ICA1L	ENSG00000163596	ENST00000437978	nonsense_mediated_decay	KNOWN	None	14442	183	60	203686106	203735969	-1	ALS2CR15, ALS2CR14	None
2	ICA1L	ENSG00000163596	ENST00000457524	protein_coding	KNOWN	None	14442	300	99	203686140	203736165	-1	ALS2CR15, ALS2CR14	None
2	ICA1L	ENSG00000163596	ENST00000432273	protein_coding	KNOWN	None	14442	297	98	203686143	203735637	-1	ALS2CR15, ALS2CR14	None
2	ICA1L	ENSG00000163596	ENST00000416760	protein_coding	KNOWN	None	14442	295	97	203686145	203736369	-1	ALS2CR15, ALS2CR14	None
2	ICA1L	ENSG00000163596	ENST00000454326	protein_coding	KNOWN	None	14442	290	95	203686150	203735599	-1	ALS2CR15, ALS2CR14	None
2	ICA1L	ENSG00000163596	ENST00000484561	retained_intron	KNOWN	None	14442	None	None	203690168	203736198	-1	ALS2CR15, ALS2CR14	None
2	ICA1L	ENSG00000163596	ENST00000411681	protein_coding	KNOWN	None	14442	235	77	203690418	203735769	-1	ALS2CR15, ALS2CR14	None
2	ICA1L	ENSG00000163596	ENST00000421334	protein_coding	KNOWN	None	14442	127	41	203693606	203736190	-1	ALS2CR15, ALS2CR14	None
17	None	ENSG00000268852	ENST00000598222	protein_coding	KNOWN	None	None	387	128	80214131	80216080	1	None	None
9	SLC27A4	ENSG00000167114	ENST00000372870	protein_coding	KNOWN	None	10998	714	237	131102925	131123496	1	None	FATP4, ACSVL4
9	SLC27A4	ENSG00000167114	ENST00000300456	protein_coding	KNOWN	CCDS6899	10998	1932	643	131103007	131123502	1	None	FATP4, ACSVL4
3	CHST13	ENSG00000180767	ENST00000319340	protein_coding	KNOWN	CCDS3039	21755	1026	341	126243126	126262134	1	None	C4ST3
15	BLM	ENSG00000197299	ENST00000355112	protein_coding	KNOWN	CCDS10363	1058	4254	1417	91260558	91358692	1	None	BS, RECQL3, RECQ2
15	BLM	ENSG00000197299	ENST00000560509	protein_coding	NOVEL	None	1058	3861	1286	91260625	91358563	1	None	BS, RECQL3, RECQ2
15	BLM	ENSG00000197299	ENST00000559724	nonsense_mediated_decay	KNOWN	None	1058	1242	413	91260635	91358558	1	None	BS, RECQL3, RECQ2
15	BLM	ENSG00000197299	ENST00000559282	processed_transcript	KNOWN	None	1058	None	None	91290620	91293190	1	None	BS, RECQL3, RECQ2
15	BLM	ENSG00000197299	ENST00000558599	processed_transcript	KNOWN	None	1058	None	None	91293238	91304052	1	None	BS, RECQL3, RECQ2
15	BLM	ENSG00000197299	ENST00000559426	processed_transcript	KNOWN	None	1058	None	None	91305594	91312411	1	None	BS, RECQL3, RECQ2
15	BLM	ENSG00000197299	ENST00000560136	processed_transcript	KNOWN	None	1058	None	None	91305626	91354557	1	None	BS, RECQL3, RECQ2
15	BLM	ENSG00000197299	ENST00000560559	retained_intron	KNOWN	None	1058	None	None	91333519	91337587	1	None	BS, RECQL3, RECQ2
15	BLM	ENSG00000197299	ENST00000558825	retained_intron	KNOWN	None	1058	None	None	91337031	91358591	1	None	BS, RECQL3, RECQ2
15	BLM	ENSG00000197299	ENST00000560821	processed_transcript	KNOWN	None	1058	None	None	91352001	91358859	1	None	BS, RECQL3, RECQ2
15	PRTG	ENSG00000166450	ENST00000389286	protein_coding	KNOWN	CCDS42040	26373	3453	1150	55903744	56035177	-1	None	FLJ25756, IGDCC5
15	PRTG	ENSG00000166450	ENST00000561465	protein_coding	PUTATIVE	None	26373	657	218	55947274	55967867	-1	None	FLJ25756, IGDCC5
15	PRTG	ENSG00000166450	ENST00000559842	retained_intron	KNOWN	None	26373	None	None	55970211	55972028	-1	None	FLJ25756, IGDCC5
15	PRTG	ENSG00000166450	ENST00000561292	protein_coding	PUTATIVE	None	26373	414	137	56030421	56035288	-1	None	FLJ25756, IGDCC5
15	PRTG	ENSG00000166450	ENST00000558349	protein_coding	PUTATIVE	None	26373	67	21	56032676	56034732	-1	None	FLJ25756, IGDCC5
20	None	ENSG00000204658	ENST00000437612	unprocessed_pseudogene	KNOWN	None	None	None	None	23564282	23567147	1	None	None
17	CD7	ENSG00000173762	ENST00000584284	protein_coding	PUTATIVE	None	1695	666	221	80272744	80275453	-1	None	GP40, LEU-9, TP41, Tp40
17	CD7	ENSG00000173762	ENST00000312648	protein_coding	KNOWN	CCDS11807	1695	723	240	80272746	80275478	-1	None	GP40, LEU-9, TP41, Tp40
17	CD7	ENSG00000173762	ENST00000583376	protein_coding	PUTATIVE	None	1695	423	140	80272750	80275428	-1	None	GP40, LEU-9, TP41, Tp40
17	CD7	ENSG00000173762	ENST00000578509	protein_coding	PUTATIVE	None	1695	366	121	80273851	80275434	-1	None	GP40, LEU-9, TP41, Tp40
17	CD7	ENSG00000173762	ENST00000581744	retained_intron	KNOWN	None	1695	None	None	80274008	80275429	-1	None	GP40, LEU-9, TP41, Tp40
17	CD7	ENSG00000173762	ENST00000581434	nonsense_mediated_decay	KNOWN	None	1695	108	35	80274096	80275426	-1	None	GP40, LEU-9, TP41, Tp40
17	CD7	ENSG00000173762	ENST00000582480	protein_coding	NOVEL	None	1695	480	159	80274261	80275455	-1	None	GP40, LEU-9, TP41, Tp40
1	SGIP1	ENSG00000118473	ENST00000237247	protein_coding	KNOWN	None	25412	2580	859	66999066	67210057	1	None	DKFZp761D221
1	SGIP1	ENSG00000118473	ENST00000371039	protein_coding	KNOWN	None	25412	1896	631	66999275	67210768	1	None	DKFZp761D221
1	SGIP1	ENSG00000118473	ENST00000493564	processed_transcript	KNOWN	None	25412	None	None	66999288	67091726	1	None	DKFZp761D221
1	SGIP1	ENSG00000118473	ENST00000424320	protein_coding	KNOWN	None	25412	780	259	66999298	67145425	1	None	DKFZp761D221
1	SGIP1	ENSG00000118473	ENST00000468286	processed_transcript	KNOWN	None	25412	None	None	66999839	67142779	1	None	DKFZp761D221
1	SGIP1	ENSG00000118473	ENST00000497055	processed_transcript	KNOWN	None	25412	None	None	66999864	67091743	1	None	DKFZp761D221
1	SGIP1	ENSG00000118473	ENST00000371037	protein_coding	KNOWN	CCDS30744	25412	2487	828	66999965	67213982	1	None	DKFZp761D221
1	SGIP1	ENSG00000118473	ENST00000484988	processed_transcript	KNOWN	None	25412	None	None	67081622	67091788	1	None	DKFZp761D221
1	SGIP1	ENSG00000118473	ENST00000483060	processed_transcript	KNOWN	None	25412	None	None	67091531	67109695	1	None	DKFZp761D221
1	SGIP1	ENSG00000118473	ENST00000480548	processed_transcript	KNOWN	None	25412	None	None	67136678	67156214	1	None	DKFZp761D221
1	SGIP1	ENSG00000118473	ENST00000487507	processed_transcript	KNOWN	None	25412	None	None	67147977	67156214	1	None	DKFZp761D221
1	SGIP1	ENSG00000118473	ENST00000435165	protein_coding	KNOWN	None	25412	1002	333	67160377	67210767	1	None	DKFZp761D221
1	SGIP1	ENSG00000118473	ENST00000320161	processed_transcript	PUTATIVE	None	25412	None	None	67160734	67170192	1	None	DKFZp761D221
1	SGIP1	ENSG00000118473	ENST00000468570	processed_transcript	KNOWN	None	25412	None	None	67161116	67170440	1	None	DKFZp761D221
1	SGIP1	ENSG00000118473	ENST00000371035	protein_coding	KNOWN	None	25412	1857	618	66999823	67208882	1	None	DKFZp761D221
1	SGIP1	ENSG00000118473	ENST00000371036	protein_coding	KNOWN	None	25412	1893	630	66999869	67213982	1	None	DKFZp761D221
15	CYP1A1	ENSG00000140465	ENST00000379727	protein_coding	KNOWN	CCDS10268	2595	1539	512	75011883	75017951	-1	CYP1	P450DX, P1-450, P450-C, CP11
15	CYP1A1	ENSG00000140465	ENST00000567032	protein_coding	KNOWN	CCDS10268	2595	1539	512	75012497	75017711	-1	CYP1	P450DX, P1-450, P450-C, CP11
15	CYP1A1	ENSG00000140465	ENST00000395049	protein_coding	NOVEL	None	2595	1452	483	75012771	75017835	-1	CYP1	P450DX, P1-450, P450-C, CP11
15	CYP1A1	ENSG00000140465	ENST00000562201	nonsense_mediated_decay	KNOWN	None	2595	570	189	75013061	75017832	-1	CYP1	P450DX, P1-450, P450-C, CP11
15	CYP1A1	ENSG00000140465	ENST00000564596	protein_coding	PUTATIVE	None	2595	474	157	75013061	75017832	-1	CYP1	P450DX, P1-450, P450-C, CP11
15	CYP1A1	ENSG00000140465	ENST00000569630	nonsense_mediated_decay	KNOWN	None	2595	570	189	75013061	75017832	-1	CYP1	P450DX, P1-450, P450-C, CP11
15	CYP1A1	ENSG00000140465	ENST00000566503	protein_coding	PUTATIVE	None	2595	525	174	75013061	75017832	-1	CYP1	P450DX, P1-450, P450-C, CP11
15	CYP1A1	ENSG00000140465	ENST00000395048	protein_coding	KNOWN	CCDS10268	2595	1539	512	75011883	75017877	-1	CYP1	P450DX, P1-450, P450-C, CP11
1	CCT3	ENSG00000163468	ENST00000295688	protein_coding	KNOWN	CCDS1140	1616	1638	545	156278759	156308256	-1	TRIC5	Cctg
1	CCT3	ENSG00000163468	ENST00000368259	protein_coding	KNOWN	CCDS30888	1616	1524	507	156278760	156308036	-1	TRIC5	Cctg
1	CCT3	ENSG00000163468	ENST00000368258	nonsense_mediated_decay	KNOWN	None	1616	123	40	156278760	156308054	-1	TRIC5	Cctg
1	CCT3	ENSG00000163468	ENST00000480049	processed_transcript	KNOWN	None	1616	None	None	156278783	156294880	-1	TRIC5	Cctg
1	CCT3	ENSG00000163468	ENST00000368262	nonsense_mediated_decay	KNOWN	None	1616	165	54	156278805	156308038	-1	TRIC5	Cctg
1	CCT3	ENSG00000163468	ENST00000472765	protein_coding	PUTATIVE	None	1616	1503	500	156278956	156308048	-1	TRIC5	Cctg
1	CCT3	ENSG00000163468	ENST00000413555	protein_coding	PUTATIVE	None	1616	829	275	156288661	156337650	-1	TRIC5	Cctg
1	CCT3	ENSG00000163468	ENST00000496684	protein_coding	NOVEL	None	1616	703	233	156288712	156308020	-1	TRIC5	Cctg
1	CCT3	ENSG00000163468	ENST00000533194	protein_coding	PUTATIVE	None	1616	433	143	156288748	156308083	-1	TRIC5	Cctg
1	CCT3	ENSG00000163468	ENST00000463132	processed_transcript	KNOWN	None	1616	None	None	156290630	156337628	-1	TRIC5	Cctg
1	CCT3	ENSG00000163468	ENST00000490221	retained_intron	KNOWN	None	1616	None	None	156290631	156305798	-1	TRIC5	Cctg
1	CCT3	ENSG00000163468	ENST00000446905	protein_coding	PUTATIVE	None	1616	566	187	156290631	156337664	-1	TRIC5	Cctg
1	CCT3	ENSG00000163468	ENST00000478640	protein_coding	NOVEL	None	1616	462	153	156290714	156308096	-1	TRIC5	Cctg
1	CCT3	ENSG00000163468	ENST00000415548	protein_coding	NOVEL	None	1616	483	160	156294771	156308005	-1	TRIC5	Cctg
1	CCT3	ENSG00000163468	ENST00000368256	processed_transcript	KNOWN	None	1616	None	None	156302444	156308102	-1	TRIC5	Cctg
1	CCT3	ENSG00000163468	ENST00000489870	retained_intron	KNOWN	None	1616	None	None	156304906	156307997	-1	TRIC5	Cctg
1	CCT3	ENSG00000163468	ENST00000368261	protein_coding	KNOWN	None	1616	1503	500	156278805	156308038	-1	TRIC5	Cctg
3	RBM6	ENSG00000004534	ENST00000442092	protein_coding	NOVEL	CCDS54586	9903	1806	601	49977440	50114682	1	None	DEF-3, 3G2, NY-LU-12, g16, DEF3
3	RBM6	ENSG00000004534	ENST00000266022	protein_coding	KNOWN	CCDS2809	9903	3372	1123	49977466	50114683	1	None	DEF-3, 3G2, NY-LU-12, g16, DEF3
3	RBM6	ENSG00000004534	ENST00000443081	protein_coding	PUTATIVE	None	9903	2976	991	49977474	50114681	1	None	DEF-3, 3G2, NY-LU-12, g16, DEF3
3	RBM6	ENSG00000004534	ENST00000419610	nonsense_mediated_decay	KNOWN	None	9903	108	35	49977496	50114681	1	None	DEF-3, 3G2, NY-LU-12, g16, DEF3
3	RBM6	ENSG00000004534	ENST00000441115	processed_transcript	KNOWN	None	9903	None	None	49977507	50103875	1	None	DEF-3, 3G2, NY-LU-12, g16, DEF3
3	RBM6	ENSG00000004534	ENST00000493652	retained_intron	KNOWN	None	9903	None	None	49977530	50000460	1	None	DEF-3, 3G2, NY-LU-12, g16, DEF3
3	RBM6	ENSG00000004534	ENST00000422955	protein_coding	PUTATIVE	CCDS54586	9903	1806	601	49977535	50114681	1	None	DEF-3, 3G2, NY-LU-12, g16, DEF3
3	RBM6	ENSG00000004534	ENST00000454079	nonsense_mediated_decay	KNOWN	None	9903	2094	697	49977573	50114680	1	None	DEF-3, 3G2, NY-LU-12, g16, DEF3
3	RBM6	ENSG00000004534	ENST00000425608	nonsense_mediated_decay	KNOWN	None	9903	1563	520	49977584	50095286	1	None	DEF-3, 3G2, NY-LU-12, g16, DEF3
3	RBM6	ENSG00000004534	ENST00000434592	nonsense_mediated_decay	KNOWN	None	9903	600	199	49977619	50137478	1	None	DEF-3, 3G2, NY-LU-12, g16, DEF3
3	RBM6	ENSG00000004534	ENST00000433811	protein_coding	KNOWN	None	9903	229	75	49977894	50005087	1	None	DEF-3, 3G2, NY-LU-12, g16, DEF3
3	RBM6	ENSG00000004534	ENST00000491874	processed_transcript	PUTATIVE	None	9903	None	None	49977972	50004791	1	None	DEF-3, 3G2, NY-LU-12, g16, DEF3
3	RBM6	ENSG00000004534	ENST00000488807	processed_transcript	PUTATIVE	None	9903	None	None	49978118	50004798	1	None	DEF-3, 3G2, NY-LU-12, g16, DEF3
3	RBM6	ENSG00000004534	ENST00000464013	processed_transcript	KNOWN	None	9903	None	None	50018994	50095239	1	None	DEF-3, 3G2, NY-LU-12, g16, DEF3
3	RBM6	ENSG00000004534	ENST00000483350	retained_intron	KNOWN	None	9903	None	None	50036885	50096348	1	None	DEF-3, 3G2, NY-LU-12, g16, DEF3
3	RBM6	ENSG00000004534	ENST00000446471	protein_coding	PUTATIVE	None	9903	468	155	50084542	50095899	1	None	DEF-3, 3G2, NY-LU-12, g16, DEF3
3	RBM6	ENSG00000004534	ENST00000466247	retained_intron	KNOWN	None	9903	None	None	50091449	50095280	1	None	DEF-3, 3G2, NY-LU-12, g16, DEF3
3	RBM6	ENSG00000004534	ENST00000478026	retained_intron	KNOWN	None	9903	None	None	50096776	50098605	1	None	DEF-3, 3G2, NY-LU-12, g16, DEF3
3	RBM6	ENSG00000004534	ENST00000438912	protein_coding	PUTATIVE	None	9903	361	119	50097131	50102494	1	None	DEF-3, 3G2, NY-LU-12, g16, DEF3
3	RBM6	ENSG00000004534	ENST00000421682	protein_coding	PUTATIVE	None	9903	360	119	50103825	50114682	1	None	DEF-3, 3G2, NY-LU-12, g16, DEF3
3	RBM6	ENSG00000004534	ENST00000539992	protein_coding	KNOWN	None	9903	1398	465	49977496	50114681	1	None	DEF-3, 3G2, NY-LU-12, g16, DEF3
10	UBTD1	ENSG00000165886	ENST00000370664	protein_coding	KNOWN	CCDS7465	25683	684	227	99258625	99330966	1	None	FLJ11807
12	GLIPR1	ENSG00000139278	ENST00000266659	protein_coding	KNOWN	CCDS9011	17001	801	266	75874460	75897633	1	None	RTVP1, GliPR
12	GLIPR1	ENSG00000139278	ENST00000536703	nonsense_mediated_decay	KNOWN	None	17001	447	148	75874533	75893073	1	None	RTVP1, GliPR
12	GLIPR1	ENSG00000139278	ENST00000456650	protein_coding	NOVEL	None	17001	714	237	75874661	75892497	1	None	RTVP1, GliPR
12	GLIPR1	ENSG00000139278	ENST00000550491	protein_coding	PUTATIVE	None	17001	267	88	75874984	75889442	1	None	RTVP1, GliPR
X	RGAG4	ENSG00000242732	ENST00000479991	protein_coding	KNOWN	CCDS55446	29430	1710	569	71346960	71351751	-1	None	KIAA2001, Mar5, Mart5
X	RGAG4	ENSG00000242732	ENST00000545866	protein_coding	KNOWN	CCDS55446	29430	1710	569	71346958	71351758	-1	None	KIAA2001, Mar5, Mart5
16	CDH13	ENSG00000140945	ENST00000566620	protein_coding	KNOWN	CCDS58486	1753	2142	713	82660408	83830204	1	None	CDHH
16	CDH13	ENSG00000140945	ENST00000268613	protein_coding	PUTATIVE	CCDS58485	1753	2283	760	82660570	83828981	1	None	CDHH
16	CDH13	ENSG00000140945	ENST00000569144	nonsense_mediated_decay	KNOWN	None	1753	171	56	82660571	83065749	1	None	CDHH
16	CDH13	ENSG00000140945	ENST00000562601	nonsense_mediated_decay	KNOWN	None	1753	204	67	82660573	83065664	1	None	CDHH
16	CDH13	ENSG00000140945	ENST00000568770	nonsense_mediated_decay	KNOWN	None	1753	114	37	82660574	83065726	1	None	CDHH
16	CDH13	ENSG00000140945	ENST00000565636	protein_coding	PUTATIVE	CCDS56009	1753	528	175	82660575	83214630	1	None	CDHH
16	CDH13	ENSG00000140945	ENST00000431540	protein_coding	PUTATIVE	CCDS56010	1753	573	190	82660575	83214699	1	None	CDHH
16	CDH13	ENSG00000140945	ENST00000428848	protein_coding	NOVEL	CCDS58487	1753	2025	674	82660575	83828682	1	None	CDHH
16	CDH13	ENSG00000140945	ENST00000539548	nonsense_mediated_decay	KNOWN	None	1753	159	52	82660575	83828778	1	None	CDHH
16	CDH13	ENSG00000140945	ENST00000566333	retained_intron	KNOWN	None	1753	None	None	82660576	83065918	1	None	CDHH
16	CDH13	ENSG00000140945	ENST00000569455	processed_transcript	PUTATIVE	None	1753	None	None	82660644	82756710	1	None	CDHH
16	CDH13	ENSG00000140945	ENST00000567445	protein_coding	PUTATIVE	None	1753	204	67	82660644	82893323	1	None	CDHH
16	CDH13	ENSG00000140945	ENST00000569454	processed_transcript	PUTATIVE	None	1753	None	None	82959563	83520260	1	None	CDHH
16	CDH13	ENSG00000140945	ENST00000562307	processed_transcript	PUTATIVE	None	1753	None	None	83688425	83704486	1	None	CDHH
16	CDH13	ENSG00000140945	ENST00000446376	protein_coding	KNOWN	CCDS56009	1753	528	175	82660698	83205171	1	None	CDHH
4	MRFAP1	ENSG00000179010	ENST00000320912	protein_coding	KNOWN	CCDS3389	24549	384	127	6641818	6644456	1	None	PAM14, PGR1
4	MRFAP1	ENSG00000179010	ENST00000507420	protein_coding	KNOWN	CCDS3389	24549	384	127	6642413	6643518	1	None	PAM14, PGR1
4	MRFAP1	ENSG00000179010	ENST00000382581	protein_coding	KNOWN	CCDS3389	24549	384	127	6642418	6644472	1	None	PAM14, PGR1
4	MRFAP1	ENSG00000179010	ENST00000512914	retained_intron	KNOWN	None	24549	None	None	6642441	6644422	1	None	PAM14, PGR1
10	PROSER2	ENSG00000148426	ENST00000474155	processed_transcript	KNOWN	None	23728	None	None	11865338	11908775	1	C10orf47	MGC35403
10	PROSER2	ENSG00000148426	ENST00000277570	protein_coding	KNOWN	CCDS7085	23728	1308	435	11865397	11914276	1	C10orf47	MGC35403
10	PROSER2	ENSG00000148426	ENST00000444604	protein_coding	KNOWN	None	23728	255	84	11873682	11908646	1	C10orf47	MGC35403
10	PROSER2	ENSG00000148426	ENST00000379200	protein_coding	KNOWN	None	23728	720	239	11911643	11912874	1	C10orf47	MGC35403
2	WDR12	ENSG00000138442	ENST00000261015	protein_coding	KNOWN	CCDS2356	14098	1272	423	203745323	203776949	-1	None	YTM1, FLJ10881
2	WDR12	ENSG00000138442	ENST00000467777	retained_intron	KNOWN	None	14098	None	None	203745324	203747578	-1	None	YTM1, FLJ10881
2	WDR12	ENSG00000138442	ENST00000464820	retained_intron	KNOWN	None	14098	None	None	203748196	203748963	-1	None	YTM1, FLJ10881
2	WDR12	ENSG00000138442	ENST00000463824	retained_intron	KNOWN	None	14098	None	None	203748312	203749258	-1	None	YTM1, FLJ10881
2	WDR12	ENSG00000138442	ENST00000477727	retained_intron	KNOWN	None	14098	None	None	203748864	203757397	-1	None	YTM1, FLJ10881
2	WDR12	ENSG00000138442	ENST00000475611	retained_intron	KNOWN	None	14098	None	None	203748961	203759488	-1	None	YTM1, FLJ10881
2	WDR12	ENSG00000138442	ENST00000478869	retained_intron	KNOWN	None	14098	None	None	203760721	203765843	-1	None	YTM1, FLJ10881
2	WDR12	ENSG00000138442	ENST00000477723	processed_transcript	KNOWN	None	14098	None	None	203764280	203879521	-1	None	YTM1, FLJ10881
20	None	ENSG00000270001	ENST00000602977	lincRNA	KNOWN	None	None	None	None	23612463	23612953	-1	None	None
1	ACTN2	ENSG00000077522	ENST00000366578	protein_coding	KNOWN	CCDS1613	164	2685	894	236849808	236927931	1	None	None
1	ACTN2	ENSG00000077522	ENST00000492634	processed_transcript	KNOWN	None	164	None	None	236849827	236908069	1	None	None
1	ACTN2	ENSG00000077522	ENST00000494762	processed_transcript	KNOWN	None	164	None	None	236900319	236906221	1	None	None
1	ACTN2	ENSG00000077522	ENST00000492101	processed_transcript	KNOWN	None	164	None	None	236911000	236911440	1	None	None
1	ACTN2	ENSG00000077522	ENST00000461367	processed_transcript	KNOWN	None	164	None	None	236917199	236925866	1	None	None
1	ACTN2	ENSG00000077522	ENST00000542672	protein_coding	KNOWN	None	164	2685	894	236849754	236925919	1	None	None
1	ACTN2	ENSG00000077522	ENST00000546208	protein_coding	KNOWN	None	164	1167	388	236894550	236926148	1	None	None
5	MTX3	ENSG00000177034	ENST00000512560	protein_coding	PUTATIVE	CCDS54872	24812	756	251	79275584	79287068	-1	None	None
5	MTX3	ENSG00000177034	ENST00000509852	protein_coding	KNOWN	CCDS47239	24812	747	248	79278723	79287082	-1	None	None
5	MTX3	ENSG00000177034	ENST00000512528	protein_coding	KNOWN	None	24812	939	312	79279187	79287082	-1	None	None
16	TPSG1	ENSG00000116176	ENST00000234798	protein_coding	KNOWN	CCDS10430	14134	966	321	1271651	1275257	-1	None	TMT, PRSS31
16	TPSG1	ENSG00000116176	ENST00000564684	retained_intron	KNOWN	None	14134	None	None	1272659	1274775	-1	None	TMT, PRSS31
9	CCL19	ENSG00000172724	ENST00000311925	protein_coding	KNOWN	CCDS6570	10617	297	98	34689564	34691274	-1	SCYA19	ELC, MIP-3b, exodus-3, CKb11
9	CCL19	ENSG00000172724	ENST00000485502	processed_transcript	KNOWN	None	10617	None	None	34689569	34690235	-1	SCYA19	ELC, MIP-3b, exodus-3, CKb11
9	CCL19	ENSG00000172724	ENST00000378800	protein_coding	KNOWN	None	10617	315	104	34689854	34691201	-1	SCYA19	ELC, MIP-3b, exodus-3, CKb11
1	None	ENSG00000248458	ENST00000502413	protein_coding	KNOWN	None	None	546	181	67131547	67142710	-1	None	None
17	SECTM1	ENSG00000141574	ENST00000269389	protein_coding	KNOWN	CCDS11808	10707	747	248	80278900	80291874	-1	None	K12
17	SECTM1	ENSG00000141574	ENST00000580437	protein_coding	PUTATIVE	None	10707	450	149	80279763	80291638	-1	None	K12
17	SECTM1	ENSG00000141574	ENST00000581864	nonsense_mediated_decay	KNOWN	None	10707	132	43	80279991	80291624	-1	None	K12
17	SECTM1	ENSG00000141574	ENST00000581691	protein_coding	KNOWN	None	10707	536	177	80280755	80291950	-1	None	K12
17	SECTM1	ENSG00000141574	ENST00000582563	protein_coding	NOVEL	None	10707	510	169	80280841	80291645	-1	None	K12
17	SECTM1	ENSG00000141574	ENST00000583093	protein_coding	NOVEL	None	10707	440	145	80281156	80291639	-1	None	K12
17	SECTM1	ENSG00000141574	ENST00000582290	protein_coding	KNOWN	None	10707	256	84	80282605	80291642	-1	None	K12
17	SECTM1	ENSG00000141574	ENST00000581954	protein_coding	KNOWN	None	10707	132	43	80282729	80286382	-1	None	K12
X	PIN4	ENSG00000102309	ENST00000373662	nonsense_mediated_decay	KNOWN	None	8992	321	106	71401203	71416951	1	None	PAR14, PAR17, EPVH
X	PIN4	ENSG00000102309	ENST00000218432	protein_coding	PUTATIVE	None	8992	336	111	71401526	71418187	1	None	PAR14, PAR17, EPVH
X	PIN4	ENSG00000102309	ENST00000373669	protein_coding	KNOWN	CCDS14417	8992	471	156	71401529	71418194	1	None	PAR14, PAR17, EPVH
X	PIN4	ENSG00000102309	ENST00000496835	protein_coding	PUTATIVE	None	8992	348	115	71401615	71482976	1	None	PAR14, PAR17, EPVH
X	PIN4	ENSG00000102309	ENST00000439980	nonsense_mediated_decay	KNOWN	None	8992	276	91	71401615	71522776	1	None	PAR14, PAR17, EPVH
X	PIN4	ENSG00000102309	ENST00000446576	protein_coding	PUTATIVE	None	8992	350	115	71401644	71417204	1	None	PAR14, PAR17, EPVH
X	PIN4	ENSG00000102309	ENST00000423432	protein_coding	KNOWN	CCDS55447	8992	402	133	71401526	71483814	1	None	PAR14, PAR17, EPVH
1	TCTEX1D1	ENSG00000152760	ENST00000525663	retained_intron	KNOWN	None	26882	None	None	67218142	67236579	1	None	FLJ40873
1	TCTEX1D1	ENSG00000152760	ENST00000282670	protein_coding	KNOWN	CCDS633	26882	540	179	67218143	67244470	1	None	FLJ40873
1	TCTEX1D1	ENSG00000152760	ENST00000528352	nonsense_mediated_decay	KNOWN	None	26882	231	76	67218178	67243384	1	None	FLJ40873
1	TCTEX1D1	ENSG00000152760	ENST00000491611	processed_transcript	KNOWN	None	26882	None	None	67218215	67236190	1	None	FLJ40873
1	TCTEX1D1	ENSG00000152760	ENST00000448074	processed_transcript	KNOWN	None	26882	None	None	67240729	67241261	1	None	FLJ40873
1	TCTEX1D1	ENSG00000152760	ENST00000489510	retained_intron	KNOWN	None	26882	None	None	67241838	67243503	1	None	FLJ40873
20	None	ENSG00000225056	ENST00000450971	lincRNA	KNOWN	None	None	None	None	23635862	23637027	-1	None	None
1	INSL5	ENSG00000172410	ENST00000304526	protein_coding	KNOWN	CCDS634	6088	408	135	67263424	67266939	-1	None	None
16	GGA2	ENSG00000103365	ENST00000309859	protein_coding	KNOWN	CCDS10611	16064	1842	613	23474863	23521815	-1	None	VEAR, KIAA1080
16	GGA2	ENSG00000103365	ENST00000567468	protein_coding	NOVEL	None	16064	672	223	23475644	23521745	-1	None	VEAR, KIAA1080
16	GGA2	ENSG00000103365	ENST00000567339	processed_transcript	PUTATIVE	None	16064	None	None	23477911	23478856	-1	None	VEAR, KIAA1080
16	GGA2	ENSG00000103365	ENST00000568922	retained_intron	KNOWN	None	16064	None	None	23477912	23480903	-1	None	VEAR, KIAA1080
16	GGA2	ENSG00000103365	ENST00000566685	processed_transcript	PUTATIVE	None	16064	None	None	23478006	23478734	-1	None	VEAR, KIAA1080
16	GGA2	ENSG00000103365	ENST00000569182	processed_transcript	KNOWN	None	16064	None	None	23486274	23491744	-1	None	VEAR, KIAA1080
16	GGA2	ENSG00000103365	ENST00000567201	retained_intron	KNOWN	None	16064	None	None	23497406	23505723	-1	None	VEAR, KIAA1080
16	GGA2	ENSG00000103365	ENST00000570111	nonsense_mediated_decay	KNOWN	None	16064	180	59	23500001	23521785	-1	None	VEAR, KIAA1080
16	GGA2	ENSG00000103365	ENST00000568799	retained_intron	KNOWN	None	16064	None	None	23502997	23521815	-1	None	VEAR, KIAA1080
16	GGA2	ENSG00000103365	ENST00000563494	nonsense_mediated_decay	KNOWN	None	16064	180	59	23503006	23521813	-1	None	VEAR, KIAA1080
16	GGA2	ENSG00000103365	ENST00000569300	protein_coding	PUTATIVE	None	16064	377	124	23503066	23533316	-1	None	VEAR, KIAA1080
16	GGA2	ENSG00000103365	ENST00000569189	nonsense_mediated_decay	KNOWN	None	16064	180	59	23503098	23521809	-1	None	VEAR, KIAA1080
16	GGA2	ENSG00000103365	ENST00000563047	nonsense_mediated_decay	KNOWN	None	16064	150	49	23504681	23521745	-1	None	VEAR, KIAA1080
16	GGA2	ENSG00000103365	ENST00000562944	protein_coding	NOVEL	None	16064	351	116	23504744	23521769	-1	None	VEAR, KIAA1080
16	GGA2	ENSG00000103365	ENST00000562117	protein_coding	NOVEL	None	16064	387	128	23504752	23521710	-1	None	VEAR, KIAA1080
16	GGA2	ENSG00000103365	ENST00000566651	retained_intron	KNOWN	None	16064	None	None	23505433	23507099	-1	None	VEAR, KIAA1080
16	GGA2	ENSG00000103365	ENST00000566547	retained_intron	KNOWN	None	16064	None	None	23506664	23521808	-1	None	VEAR, KIAA1080
2	C2orf81	ENSG00000159239	ENST00000517883	protein_coding	PUTATIVE	None	34350	1563	520	74641304	74643710	-1	None	LOC388963, hCG40743
2	C2orf81	ENSG00000159239	ENST00000518863	protein_coding	PUTATIVE	None	34350	484	160	74642535	74648718	-1	None	LOC388963, hCG40743
2	C2orf81	ENSG00000159239	ENST00000517896	protein_coding	PUTATIVE	None	34350	589	195	74642724	74644844	-1	None	LOC388963, hCG40743
2	C2orf81	ENSG00000159239	ENST00000518401	protein_coding	PUTATIVE	None	34350	327	108	74643144	74645669	-1	None	LOC388963, hCG40743
2	C2orf81	ENSG00000159239	ENST00000290390	protein_coding	KNOWN	None	34350	1767	588	74641305	74644844	-1	None	LOC388963, hCG40743
1	TSACC	ENSG00000163467	ENST00000368255	protein_coding	KNOWN	CCDS1141	30636	378	125	156307105	156316786	1	C1orf182	SSTK-IP, SIP
1	TSACC	ENSG00000163467	ENST00000470342	processed_transcript	KNOWN	None	30636	None	None	156308298	156316784	1	C1orf182	SSTK-IP, SIP
1	TSACC	ENSG00000163467	ENST00000368254	protein_coding	KNOWN	CCDS1141	30636	378	125	156308314	156316786	1	C1orf182	SSTK-IP, SIP
1	TSACC	ENSG00000163467	ENST00000368253	protein_coding	KNOWN	CCDS1141	30636	378	125	156308363	156316786	1	C1orf182	SSTK-IP, SIP
1	TSACC	ENSG00000163467	ENST00000481479	processed_transcript	KNOWN	None	30636	None	None	156308419	156316786	1	C1orf182	SSTK-IP, SIP
1	TSACC	ENSG00000163467	ENST00000368252	protein_coding	KNOWN	CCDS1141	30636	378	125	156308485	156316786	1	C1orf182	SSTK-IP, SIP
1	TSACC	ENSG00000163467	ENST00000466306	processed_transcript	KNOWN	None	30636	None	None	156308579	156316783	1	C1orf182	SSTK-IP, SIP
1	TSACC	ENSG00000163467	ENST00000368251	protein_coding	KNOWN	CCDS1141	30636	378	125	156308693	156316786	1	C1orf182	SSTK-IP, SIP
8	RGS20	ENSG00000147509	ENST00000297313	protein_coding	KNOWN	CCDS6155	14600	1167	388	54764368	54871863	1	None	RGSZ1, ZGAP1
8	RGS20	ENSG00000147509	ENST00000517659	nonsense_mediated_decay	KNOWN	None	14600	177	58	54764460	54871863	1	None	RGSZ1, ZGAP1
8	RGS20	ENSG00000147509	ENST00000344277	protein_coding	PUTATIVE	None	14600	822	273	54764460	54871863	1	None	RGSZ1, ZGAP1
8	RGS20	ENSG00000147509	ENST00000523280	nonsense_mediated_decay	KNOWN	None	14600	213	70	54764460	54871863	1	None	RGSZ1, ZGAP1
8	RGS20	ENSG00000147509	ENST00000518286	processed_transcript	KNOWN	None	14600	None	None	54792444	54866702	1	None	RGSZ1, ZGAP1
8	RGS20	ENSG00000147509	ENST00000523414	processed_transcript	KNOWN	None	14600	None	None	54792560	54866783	1	None	RGSZ1, ZGAP1
8	RGS20	ENSG00000147509	ENST00000522225	protein_coding	PUTATIVE	None	14600	369	122	54793432	54871856	1	None	RGSZ1, ZGAP1
8	RGS20	ENSG00000147509	ENST00000276500	protein_coding	KNOWN	CCDS6156	14600	726	241	54793454	54871834	1	None	RGSZ1, ZGAP1
8	RGS20	ENSG00000147509	ENST00000523064	processed_transcript	KNOWN	None	14600	None	None	54793461	54826482	1	None	RGSZ1, ZGAP1
8	RGS20	ENSG00000147509	ENST00000517405	processed_transcript	KNOWN	None	14600	None	None	54857885	54871257	1	None	RGSZ1, ZGAP1
20	CST2P1	ENSG00000232595	ENST00000425770	unprocessed_pseudogene	KNOWN	None	45042	None	None	23691957	23692043	-1	None	None
4	EPHA5	ENSG00000145242	ENST00000273854	protein_coding	KNOWN	CCDS3513	3389	3114	1037	66185281	66536061	-1	None	Hek7, TYRO4, CEK7, EHK1
4	EPHA5	ENSG00000145242	ENST00000432638	protein_coding	NOVEL	None	3389	2625	874	66189113	66535778	-1	None	Hek7, TYRO4, CEK7, EHK1
4	EPHA5	ENSG00000145242	ENST00000354839	protein_coding	KNOWN	CCDS3514	3389	3048	1015	66189646	66535653	-1	None	Hek7, TYRO4, CEK7, EHK1
4	EPHA5	ENSG00000145242	ENST00000511294	protein_coding	NOVEL	None	3389	3015	1004	66196279	66536213	-1	None	Hek7, TYRO4, CEK7, EHK1
17	TBC1D3G	ENSG00000161583	ENST00000394453	protein_coding	NOVEL	None	29860	1584	527	34797172	34807272	-1	None	None
17	TBC1D3G	ENSG00000161583	ENST00000589602	retained_intron	KNOWN	None	29860	None	None	34797172	34808023	-1	None	None
17	TBC1D3G	ENSG00000161583	ENST00000592614	protein_coding	PUTATIVE	None	29860	876	291	34797172	34808047	-1	None	None
17	TBC1D3G	ENSG00000161583	ENST00000590913	nonsense_mediated_decay	KNOWN	None	29860	348	115	34797172	34808061	-1	None	None
17	TBC1D3G	ENSG00000161583	ENST00000341264	protein_coding	KNOWN	CCDS32629	29860	1650	549	34797172	34808103	-1	None	None
17	TBC1D3G	ENSG00000161583	ENST00000589513	retained_intron	KNOWN	None	29860	None	None	34799071	34803990	-1	None	None
17	TBC1D3G	ENSG00000161583	ENST00000587378	retained_intron	KNOWN	None	29860	None	None	34800244	34801447	-1	None	None
17	TBC1D3G	ENSG00000161583	ENST00000587756	processed_transcript	KNOWN	None	29860	None	None	34801380	34804392	-1	None	None
17	TBC1D3G	ENSG00000161583	ENST00000588999	retained_intron	KNOWN	None	29860	None	None	34801541	34804173	-1	None	None
17	TBC1D3G	ENSG00000161583	ENST00000589896	retained_intron	KNOWN	None	29860	None	None	34803345	34806444	-1	None	None
17	TBC1D3G	ENSG00000161583	ENST00000591542	protein_coding	NOVEL	None	29860	636	211	34803366	34808058	-1	None	None
17	TBC1D3G	ENSG00000161583	ENST00000586554	retained_intron	KNOWN	None	29860	None	None	34803416	34805455	-1	None	None
17	TBC1D3G	ENSG00000161583	ENST00000591233	retained_intron	KNOWN	None	29860	None	None	34803422	34804520	-1	None	None
17	TBC1D3G	ENSG00000161583	ENST00000592987	protein_coding	PUTATIVE	None	29860	147	48	34803761	34808104	-1	None	None
17	TBC1D3G	ENSG00000161583	ENST00000588834	processed_transcript	PUTATIVE	None	29860	None	None	34807115	34808083	-1	None	None
17	TBC1D3G	ENSG00000161583	ENST00000589650	processed_transcript	PUTATIVE	None	29860	None	None	34807338	34808058	-1	None	None
17	TBC1D3G	ENSG00000161583	ENST00000330458	protein_coding	KNOWN	None	29860	1650	549	34745936	34808103	-1	None	None
17	TBC1D3G	ENSG00000161583	ENST00000535592	protein_coding	KNOWN	None	29860	1584	527	34746125	34807272	-1	None	None
17	TBC1D3G	ENSG00000161583	ENST00000535805	protein_coding	KNOWN	None	29860	1410	469	34746120	34806015	-1	None	None
7	POM121	ENSG00000196313	ENST00000395270	protein_coding	KNOWN	CCDS59059	19702	3000	999	72349936	72421979	1	None	KIAA0618, DKFZP586G1822, DKFZP586P2220, POM121A
7	POM121	ENSG00000196313	ENST00000358357	protein_coding	KNOWN	CCDS5542	19702	2955	984	72361501	72418838	1	None	KIAA0618, DKFZP586G1822, DKFZP586P2220, POM121A
7	POM121	ENSG00000196313	ENST00000434423	protein_coding	KNOWN	None	19702	3750	1249	72395660	72416773	1	None	KIAA0618, DKFZP586G1822, DKFZP586P2220, POM121A
7	POM121	ENSG00000196313	ENST00000446813	protein_coding	KNOWN	CCDS59059	19702	3000	999	72349936	72419009	1	None	KIAA0618, DKFZP586G1822, DKFZP586P2220, POM121A
7	POM121	ENSG00000196313	ENST00000257622	protein_coding	KNOWN	CCDS5542	19702	2955	984	72349936	72418838	1	None	KIAA0618, DKFZP586G1822, DKFZP586P2220, POM121A
1	WDR78	ENSG00000152763	ENST00000371026	protein_coding	KNOWN	CCDS635	26252	2547	848	67278568	67390570	-1	None	DIC4, FLJ23129
1	WDR78	ENSG00000152763	ENST00000491297	nonsense_mediated_decay	KNOWN	None	26252	478	158	67278574	67370986	-1	None	DIC4, FLJ23129
1	WDR78	ENSG00000152763	ENST00000464352	protein_coding	NOVEL	None	26252	1746	581	67279653	67340561	-1	None	DIC4, FLJ23129
1	WDR78	ENSG00000152763	ENST00000371023	protein_coding	KNOWN	CCDS44157	26252	1638	545	67303286	67390523	-1	None	DIC4, FLJ23129
1	WDR78	ENSG00000152763	ENST00000531552	protein_coding	NOVEL	None	26252	504	167	67303290	67327986	-1	None	DIC4, FLJ23129
1	WDR78	ENSG00000152763	ENST00000469450	protein_coding	PUTATIVE	None	26252	367	121	67313607	67337192	-1	None	DIC4, FLJ23129
1	WDR78	ENSG00000152763	ENST00000493572	processed_transcript	PUTATIVE	None	26252	None	None	67326396	67327987	-1	None	DIC4, FLJ23129
1	WDR78	ENSG00000152763	ENST00000531980	nonsense_mediated_decay	KNOWN	None	26252	189	62	67327956	67390502	-1	None	DIC4, FLJ23129
1	WDR78	ENSG00000152763	ENST00000371022	protein_coding	PUTATIVE	None	26252	963	320	67336488	67390529	-1	None	DIC4, FLJ23129
1	WDR78	ENSG00000152763	ENST00000532629	nonsense_mediated_decay	KNOWN	None	26252	168	55	67358960	67390502	-1	None	DIC4, FLJ23129
1	WDR78	ENSG00000152763	ENST00000488333	protein_coding	PUTATIVE	None	26252	150	49	67370546	67372699	-1	None	DIC4, FLJ23129
1	WDR78	ENSG00000152763	ENST00000474506	processed_transcript	PUTATIVE	None	26252	None	None	67386926	67390379	-1	None	DIC4, FLJ23129
1	WDR78	ENSG00000152763	ENST00000431318	protein_coding	KNOWN	None	26252	1686	561	67278574	67390570	-1	None	DIC4, FLJ23129
2	WDR54	ENSG00000005448	ENST00000461531	processed_transcript	KNOWN	None	25770	None	None	74648805	74652601	1	None	FLJ12953
2	WDR54	ENSG00000005448	ENST00000409791	protein_coding	NOVEL	None	25770	735	244	74648856	74652881	1	None	FLJ12953
2	WDR54	ENSG00000005448	ENST00000475328	retained_intron	KNOWN	None	25770	None	None	74648857	74649737	1	None	FLJ12953
2	WDR54	ENSG00000005448	ENST00000469932	retained_intron	KNOWN	None	25770	None	None	74648857	74650238	1	None	FLJ12953
2	WDR54	ENSG00000005448	ENST00000493982	retained_intron	KNOWN	None	25770	None	None	74648857	74650635	1	None	FLJ12953
2	WDR54	ENSG00000005448	ENST00000426787	protein_coding	NOVEL	None	25770	488	161	74648857	74651117	1	None	FLJ12953
2	WDR54	ENSG00000005448	ENST00000348227	protein_coding	KNOWN	CCDS1940	25770	1005	334	74648857	74652882	1	None	FLJ12953
2	WDR54	ENSG00000005448	ENST00000465134	retained_intron	KNOWN	None	25770	None	None	74648871	74652882	1	None	FLJ12953
2	WDR54	ENSG00000005448	ENST00000480089	retained_intron	KNOWN	None	25770	None	None	74648886	74652777	1	None	FLJ12953
2	WDR54	ENSG00000005448	ENST00000482880	retained_intron	KNOWN	None	25770	None	None	74648891	74652103	1	None	FLJ12953
2	WDR54	ENSG00000005448	ENST00000468778	retained_intron	KNOWN	None	25770	None	None	74648893	74652882	1	None	FLJ12953
2	WDR54	ENSG00000005448	ENST00000469321	processed_transcript	KNOWN	None	25770	None	None	74649302	74652831	1	None	FLJ12953
2	WDR54	ENSG00000005448	ENST00000482605	retained_intron	KNOWN	None	25770	None	None	74652000	74652882	1	None	FLJ12953
20	None	ENSG00000230908	ENST00000437012	antisense	KNOWN	None	None	None	None	23778778	23786300	1	None	None
14	SAV1	ENSG00000151748	ENST00000555720	protein_coding	PUTATIVE	None	17795	939	312	51098776	51132227	-1	None	WW45, WWP4, salvador
14	SAV1	ENSG00000151748	ENST00000324679	protein_coding	KNOWN	CCDS9701	17795	1152	383	51100354	51135049	-1	None	WW45, WWP4, salvador
14	SAV1	ENSG00000151748	ENST00000553731	protein_coding	PUTATIVE	None	17795	204	67	51101546	51132083	-1	None	WW45, WWP4, salvador
14	SAV1	ENSG00000151748	ENST00000557458	protein_coding	NOVEL	None	17795	268	88	51101831	51111527	-1	None	WW45, WWP4, salvador
14	SAV1	ENSG00000151748	ENST00000602664	retained_intron	KNOWN	None	17795	None	None	51130974	51131843	-1	None	WW45, WWP4, salvador
14	SAV1	ENSG00000151748	ENST00000556735	protein_coding	NOVEL	None	17795	232	76	51132319	51135015	-1	None	WW45, WWP4, salvador
8	TMEM66	ENSG00000133872	ENST00000256255	protein_coding	KNOWN	CCDS6074	28789	1020	339	29920528	29940723	-1	None	MGC8721
8	TMEM66	ENSG00000133872	ENST00000518174	nonsense_mediated_decay	KNOWN	None	28789	123	40	29920614	29940640	-1	None	MGC8721
8	TMEM66	ENSG00000133872	ENST00000521265	protein_coding	PUTATIVE	None	28789	1043	346	29920642	29940464	-1	None	MGC8721
8	TMEM66	ENSG00000133872	ENST00000520303	nonsense_mediated_decay	KNOWN	None	28789	114	37	29920646	29940669	-1	None	MGC8721
8	TMEM66	ENSG00000133872	ENST00000523127	protein_coding	NOVEL	None	28789	642	213	29921311	29927551	-1	None	MGC8721
8	TMEM66	ENSG00000133872	ENST00000518340	nonsense_mediated_decay	KNOWN	None	28789	114	37	29921369	29940481	-1	None	MGC8721
8	TMEM66	ENSG00000133872	ENST00000518296	protein_coding	PUTATIVE	None	28789	655	217	29923228	29927465	-1	None	MGC8721
8	TMEM66	ENSG00000133872	ENST00000521934	retained_intron	KNOWN	None	28789	None	None	29923390	29924569	-1	None	MGC8721
8	TMEM66	ENSG00000133872	ENST00000522794	protein_coding	PUTATIVE	None	28789	607	201	29924420	29939940	-1	None	MGC8721
8	TMEM66	ENSG00000133872	ENST00000522055	nonsense_mediated_decay	KNOWN	None	28789	111	36	29927309	29940580	-1	None	MGC8721
8	TMEM66	ENSG00000133872	ENST00000523761	protein_coding	NOVEL	None	28789	441	146	29927390	29940590	-1	None	MGC8721
8	TMEM66	ENSG00000133872	ENST00000517569	retained_intron	KNOWN	None	28789	None	None	29931210	29940487	-1	None	MGC8721
8	TMEM66	ENSG00000133872	ENST00000521083	processed_transcript	KNOWN	None	28789	None	None	29931395	29940559	-1	None	MGC8721
8	TMEM66	ENSG00000133872	ENST00000545648	protein_coding	KNOWN	None	28789	504	167	29920642	29940659	-1	None	MGC8721
8	TMEM66	ENSG00000133872	ENST00000536273	protein_coding	KNOWN	None	28789	504	167	29921208	29940481	-1	None	MGC8721
10	ANKRD2	ENSG00000165887	ENST00000370655	protein_coding	KNOWN	None	495	1002	333	99332256	99343641	1	None	ARPP
10	ANKRD2	ENSG00000165887	ENST00000455090	protein_coding	KNOWN	None	495	903	300	99332536	99343641	1	None	ARPP
10	ANKRD2	ENSG00000165887	ENST00000307518	protein_coding	KNOWN	CCDS7466	495	1083	360	99332198	99343616	1	None	ARPP
10	ANKRD2	ENSG00000165887	ENST00000298808	protein_coding	KNOWN	CCDS44468	495	984	327	99332198	99343616	1	None	ARPP
14	C14orf1	ENSG00000133935	ENST00000256319	protein_coding	KNOWN	CCDS9845	1187	423	140	76116134	76127532	-1	None	NET51, ERG28
16	COG4	ENSG00000103051	ENST00000564415	nonsense_mediated_decay	KNOWN	None	18620	393	130	70514471	70557461	-1	None	COD1, DKFZP586E1519
16	COG4	ENSG00000103051	ENST00000323786	protein_coding	KNOWN	CCDS10892	18620	2370	789	70514472	70557468	-1	None	COD1, DKFZP586E1519
16	COG4	ENSG00000103051	ENST00000530314	retained_intron	KNOWN	None	18620	None	None	70514474	70557442	-1	None	COD1, DKFZP586E1519
16	COG4	ENSG00000103051	ENST00000482252	nonsense_mediated_decay	KNOWN	None	18620	1014	337	70514477	70557434	-1	None	COD1, DKFZP586E1519
16	COG4	ENSG00000103051	ENST00000526700	retained_intron	KNOWN	None	18620	None	None	70514481	70542660	-1	None	COD1, DKFZP586E1519
16	COG4	ENSG00000103051	ENST00000565715	protein_coding	PUTATIVE	None	18620	432	143	70514770	70516697	-1	None	COD1, DKFZP586E1519
16	COG4	ENSG00000103051	ENST00000564315	retained_intron	KNOWN	None	18620	None	None	70516283	70530275	-1	None	COD1, DKFZP586E1519
16	COG4	ENSG00000103051	ENST00000567244	retained_intron	KNOWN	None	18620	None	None	70531876	70535500	-1	None	COD1, DKFZP586E1519
16	COG4	ENSG00000103051	ENST00000562200	retained_intron	KNOWN	None	18620	None	None	70543775	70557443	-1	None	COD1, DKFZP586E1519
16	COG4	ENSG00000103051	ENST00000564653	protein_coding	NOVEL	None	18620	582	193	70546170	70557453	-1	None	COD1, DKFZP586E1519
16	COG4	ENSG00000103051	ENST00000534772	protein_coding	PUTATIVE	None	18620	473	156	70546176	70557103	-1	None	COD1, DKFZP586E1519
16	COG4	ENSG00000103051	ENST00000530160	nonsense_mediated_decay	KNOWN	None	18620	303	100	70546222	70557457	-1	None	COD1, DKFZP586E1519
16	COG4	ENSG00000103051	ENST00000524584	nonsense_mediated_decay	KNOWN	None	18620	218	71	70546277	70557421	-1	None	COD1, DKFZP586E1519
16	COG4	ENSG00000103051	ENST00000393612	protein_coding	KNOWN	None	18620	1014	337	70542704	70557437	-1	None	COD1, DKFZP586E1519
9	AGTPBP1	ENSG00000135049	ENST00000376083	protein_coding	KNOWN	CCDS6672	17258	3561	1186	88161457	88356733	-1	None	KIAA1035, Nna1
9	AGTPBP1	ENSG00000135049	ENST00000357081	protein_coding	KNOWN	None	17258	3681	1226	88161457	88356801	-1	None	KIAA1035, Nna1
9	AGTPBP1	ENSG00000135049	ENST00000489265	processed_transcript	KNOWN	None	17258	None	None	88168788	88193940	-1	None	KIAA1035, Nna1
9	AGTPBP1	ENSG00000135049	ENST00000376081	protein_coding	PUTATIVE	None	17258	714	237	88270131	88356803	-1	None	KIAA1035, Nna1
9	AGTPBP1	ENSG00000135049	ENST00000491784	processed_transcript	KNOWN	None	17258	None	None	88272353	88307707	-1	None	KIAA1035, Nna1
9	AGTPBP1	ENSG00000135049	ENST00000376080	protein_coding	KNOWN	None	17258	567	188	88272369	88307695	-1	None	KIAA1035, Nna1
9	AGTPBP1	ENSG00000135049	ENST00000376109	protein_coding	KNOWN	None	17258	3717	1238	88161586	88356944	-1	None	KIAA1035, Nna1
9	AGTPBP1	ENSG00000135049	ENST00000432218	protein_coding	KNOWN	None	17258	1932	643	88161882	88296201	-1	None	KIAA1035, Nna1
9	AGTPBP1	ENSG00000135049	ENST00000337006	protein_coding	KNOWN	None	17258	567	188	88161455	88356944	-1	None	KIAA1035, Nna1
1	RHBG	ENSG00000132677	ENST00000467375	retained_intron	KNOWN	None	14572	None	None	156339003	156341670	1	None	SLC42A2
1	RHBG	ENSG00000132677	ENST00000544720	nonsense_mediated_decay	KNOWN	None	14572	294	97	156339003	156354940	1	None	SLC42A2
1	RHBG	ENSG00000132677	ENST00000368249	protein_coding	NOVEL	None	14572	1326	441	156339003	156355011	1	None	SLC42A2
1	RHBG	ENSG00000132677	ENST00000368247	nonsense_mediated_decay	KNOWN	None	14572	294	97	156339003	156355011	1	None	SLC42A2
1	RHBG	ENSG00000132677	ENST00000446171	nonsense_mediated_decay	KNOWN	None	14572	462	153	156339003	156355011	1	None	SLC42A2
1	RHBG	ENSG00000132677	ENST00000466013	retained_intron	KNOWN	None	14572	None	None	156339031	156355005	1	None	SLC42A2
1	RHBG	ENSG00000132677	ENST00000368245	nonsense_mediated_decay	KNOWN	None	14572	293	96	156339042	156355011	1	None	SLC42A2
1	RHBG	ENSG00000132677	ENST00000494874	processed_transcript	KNOWN	None	14572	None	None	156351934	156354676	1	None	SLC42A2
1	RHBG	ENSG00000132677	ENST00000477000	retained_intron	KNOWN	None	14572	None	None	156352104	156354395	1	None	SLC42A2
1	RHBG	ENSG00000132677	ENST00000368246	protein_coding	KNOWN	None	14572	1374	457	156339003	156355009	1	None	SLC42A2
1	RHBG	ENSG00000132677	ENST00000537040	protein_coding	KNOWN	None	14572	687	228	156339003	156352541	1	None	SLC42A2
1	RHBG	ENSG00000132677	ENST00000400992	protein_coding	KNOWN	None	14572	1230	409	156339003	156355009	1	None	SLC42A2
1	RHBG	ENSG00000132677	ENST00000255013	protein_coding	KNOWN	None	14572	1119	372	156339003	156355009	1	None	SLC42A2
1	RHBG	ENSG00000132677	ENST00000451864	protein_coding	KNOWN	None	14572	1125	374	156339003	156354329	1	None	SLC42A2
17	TEX19	ENSG00000182459	ENST00000333437	protein_coding	KNOWN	CCDS11809	33802	495	164	80317123	80321652	1	None	FLJ35767
17	UTS2R	ENSG00000181408	ENST00000313135	protein_coding	KNOWN	CCDS11810	4468	1170	389	80332153	80333462	1	GPR14	None
1	MTR	ENSG00000116984	ENST00000366577	protein_coding	KNOWN	CCDS1614	7468	3798	1265	236958610	237067281	1	None	cblG
1	MTR	ENSG00000116984	ENST00000463959	processed_transcript	KNOWN	None	7468	None	None	236958915	237016388	1	None	cblG
1	MTR	ENSG00000116984	ENST00000366576	protein_coding	KNOWN	None	7468	2460	819	236998916	237063718	1	None	cblG
1	MTR	ENSG00000116984	ENST00000470570	processed_transcript	KNOWN	None	7468	None	None	237057641	237063709	1	None	cblG
1	MTR	ENSG00000116984	ENST00000418145	protein_coding	KNOWN	None	7468	690	229	236958612	236979843	1	None	cblG
1	MTR	ENSG00000116984	ENST00000535889	protein_coding	KNOWN	None	7468	3645	1214	236958982	237061434	1	None	cblG
3	C3orf22	ENSG00000180697	ENST00000505070	nonsense_mediated_decay	KNOWN	None	28534	309	102	126245842	126277808	-1	None	MGC34728
3	C3orf22	ENSG00000180697	ENST00000318225	protein_coding	KNOWN	CCDS3040	28534	426	141	126268516	126277808	-1	None	MGC34728
4	LRP2BP	ENSG00000109771	ENST00000328559	protein_coding	KNOWN	CCDS3840	25434	1044	347	186285033	186300152	-1	None	DKFZp761O0113
4	LRP2BP	ENSG00000109771	ENST00000510776	protein_coding	PUTATIVE	None	25434	966	321	186288217	186300172	-1	None	DKFZp761O0113
4	LRP2BP	ENSG00000109771	ENST00000505916	protein_coding	KNOWN	CCDS3840	25434	1044	347	186288218	186317053	-1	None	DKFZp761O0113
4	LRP2BP	ENSG00000109771	ENST00000511404	protein_coding	KNOWN	None	25434	460	152	186295486	186300001	-1	None	DKFZp761O0113
4	LRP2BP	ENSG00000109771	ENST00000362004	protein_coding	KNOWN	None	25434	1050	349	186285032	186300152	-1	None	DKFZp761O0113
4	None	ENSG00000268791	ENST00000596858	protein_coding	KNOWN	None	None	408	135	6693782	6694189	-1	None	None
20	CSTP1	ENSG00000228476	ENST00000433681	unprocessed_pseudogene	KNOWN	None	2486	None	None	23899408	23902806	-1	None	dJ850N15.1
4	S100P	ENSG00000163993	ENST00000296370	protein_coding	KNOWN	CCDS3391	10504	288	95	6694796	6698896	1	None	None
4	S100P	ENSG00000163993	ENST00000513778	processed_transcript	KNOWN	None	10504	None	None	6695605	6698897	1	None	None
4	MRFAP1L1	ENSG00000178988	ENST00000500563	retained_intron	KNOWN	None	28796	None	None	6709428	6711554	-1	None	MGC9651
4	MRFAP1L1	ENSG00000178988	ENST00000320848	protein_coding	KNOWN	CCDS3392	28796	384	127	6709428	6711607	-1	None	MGC9651
4	BLOC1S4	ENSG00000186222	ENST00000320776	protein_coding	KNOWN	CCDS3393	24206	654	217	6717842	6719387	1	CNO	FLJ11230, BCAS4L
3	TXNRD3	ENSG00000197763	ENST00000519162	nonsense_mediated_decay	KNOWN	None	20667	126	41	126290622	126327398	-1	None	TR2, TRXR3, TGR
3	TXNRD3	ENSG00000197763	ENST00000524230	protein_coding	PUTATIVE	None	20667	2097	698	126325895	126373998	-1	None	TR2, TRXR3, TGR
3	TXNRD3	ENSG00000197763	ENST00000518740	protein_coding	PUTATIVE	None	20667	252	83	126326332	126328088	-1	None	TR2, TRXR3, TGR
3	TXNRD3	ENSG00000197763	ENST00000523403	protein_coding	PUTATIVE	None	20667	1935	644	126326354	126373944	-1	None	TR2, TRXR3, TGR
9	URM1	ENSG00000167118	ENST00000372853	protein_coding	KNOWN	CCDS6900	28378	306	101	131133598	131153013	1	C9orf74	MGC2668
9	URM1	ENSG00000167118	ENST00000470840	nonsense_mediated_decay	KNOWN	None	28378	192	63	131133640	131152369	1	C9orf74	MGC2668
9	URM1	ENSG00000167118	ENST00000372850	protein_coding	KNOWN	CCDS59148	28378	192	63	131133640	131153013	1	C9orf74	MGC2668
9	URM1	ENSG00000167118	ENST00000372847	protein_coding	KNOWN	None	28378	192	63	131133650	131150690	1	C9orf74	MGC2668
9	URM1	ENSG00000167118	ENST00000483206	processed_transcript	KNOWN	None	28378	None	None	131140346	131152148	1	C9orf74	MGC2668
9	URM1	ENSG00000167118	ENST00000452446	protein_coding	KNOWN	CCDS48035	28378	441	146	131133598	131153015	1	C9orf74	MGC2668
10	UPF2	ENSG00000151461	ENST00000356352	protein_coding	KNOWN	CCDS7086	17854	3819	1272	11962021	12077896	-1	None	RENT2, DKFZP434D222, KIAA1408, smg-3
10	UPF2	ENSG00000151461	ENST00000357604	protein_coding	KNOWN	CCDS7086	17854	3819	1272	11962021	12084833	-1	None	RENT2, DKFZP434D222, KIAA1408, smg-3
10	UPF2	ENSG00000151461	ENST00000460569	processed_transcript	KNOWN	None	17854	None	None	12077058	12085169	-1	None	RENT2, DKFZP434D222, KIAA1408, smg-3
10	UPF2	ENSG00000151461	ENST00000397053	protein_coding	KNOWN	CCDS7086	17854	3819	1272	11962022	12085023	-1	None	RENT2, DKFZP434D222, KIAA1408, smg-3
2	CARF	ENSG00000138380	ENST00000402905	protein_coding	KNOWN	CCDS42801	14435	2178	725	203776937	203849216	1	ALS2CR8	FLJ21579, CaRF, NYD-SP24
2	CARF	ENSG00000138380	ENST00000414490	protein_coding	KNOWN	None	14435	163	53	203776968	203807547	1	ALS2CR8	FLJ21579, CaRF, NYD-SP24
2	CARF	ENSG00000138380	ENST00000431787	protein_coding	PUTATIVE	None	14435	278	91	203776970	203817343	1	ALS2CR8	FLJ21579, CaRF, NYD-SP24
2	CARF	ENSG00000138380	ENST00000444724	protein_coding	PUTATIVE	None	14435	930	309	203776978	203827891	1	ALS2CR8	FLJ21579, CaRF, NYD-SP24
2	CARF	ENSG00000138380	ENST00000414857	protein_coding	KNOWN	None	14435	395	130	203776996	203817370	1	ALS2CR8	FLJ21579, CaRF, NYD-SP24
2	CARF	ENSG00000138380	ENST00000422368	nonsense_mediated_decay	KNOWN	None	14435	1260	419	203777000	203839077	1	ALS2CR8	FLJ21579, CaRF, NYD-SP24
2	CARF	ENSG00000138380	ENST00000430899	protein_coding	KNOWN	None	14435	64	20	203777002	203806689	1	ALS2CR8	FLJ21579, CaRF, NYD-SP24
2	CARF	ENSG00000138380	ENST00000445120	protein_coding	PUTATIVE	None	14435	116	37	203777002	203807590	1	ALS2CR8	FLJ21579, CaRF, NYD-SP24
2	CARF	ENSG00000138380	ENST00000441569	protein_coding	KNOWN	None	14435	218	71	203777002	203807602	1	ALS2CR8	FLJ21579, CaRF, NYD-SP24
2	CARF	ENSG00000138380	ENST00000432024	protein_coding	KNOWN	None	14435	220	72	203777002	203807604	1	ALS2CR8	FLJ21579, CaRF, NYD-SP24
2	CARF	ENSG00000138380	ENST00000443740	protein_coding	KNOWN	None	14435	286	94	203777006	203807670	1	ALS2CR8	FLJ21579, CaRF, NYD-SP24
2	CARF	ENSG00000138380	ENST00000471271	processed_transcript	KNOWN	None	14435	None	None	203777006	203831735	1	ALS2CR8	FLJ21579, CaRF, NYD-SP24
2	CARF	ENSG00000138380	ENST00000414439	protein_coding	PUTATIVE	None	14435	1872	623	203777006	203848365	1	ALS2CR8	FLJ21579, CaRF, NYD-SP24
2	CARF	ENSG00000138380	ENST00000428585	protein_coding	NOVEL	None	14435	1950	649	203777006	203848658	1	ALS2CR8	FLJ21579, CaRF, NYD-SP24
2	CARF	ENSG00000138380	ENST00000447539	protein_coding	NOVEL	None	14435	240	79	203777007	203818768	1	ALS2CR8	FLJ21579, CaRF, NYD-SP24
2	CARF	ENSG00000138380	ENST00000457031	nonsense_mediated_decay	KNOWN	None	14435	570	189	203777009	203836328	1	ALS2CR8	FLJ21579, CaRF, NYD-SP24
2	CARF	ENSG00000138380	ENST00000434998	protein_coding	PUTATIVE	None	14435	624	207	203777012	203827256	1	ALS2CR8	FLJ21579, CaRF, NYD-SP24
2	CARF	ENSG00000138380	ENST00000427712	nonsense_mediated_decay	KNOWN	None	14435	102	33	203777015	203820422	1	ALS2CR8	FLJ21579, CaRF, NYD-SP24
2	CARF	ENSG00000138380	ENST00000438828	protein_coding	KNOWN	CCDS42801	14435	2178	725	203777324	203848912	1	ALS2CR8	FLJ21579, CaRF, NYD-SP24
2	CARF	ENSG00000138380	ENST00000545253	protein_coding	KNOWN	None	14435	1914	637	203777006	203848365	1	ALS2CR8	FLJ21579, CaRF, NYD-SP24
2	CARF	ENSG00000138380	ENST00000456821	protein_coding	KNOWN	None	14435	624	207	203777009	203836328	1	ALS2CR8	FLJ21579, CaRF, NYD-SP24
2	CARF	ENSG00000138380	ENST00000545262	protein_coding	KNOWN	None	14435	1950	649	203777006	203848834	1	ALS2CR8	FLJ21579, CaRF, NYD-SP24
2	CARF	ENSG00000138380	ENST00000320443	protein_coding	KNOWN	CCDS42801	14435	2178	725	203777117	203851060	1	ALS2CR8	FLJ21579, CaRF, NYD-SP24
15	None	ENSG00000173517	ENST00000560626	protein_coding	KNOWN	CCDS42062	None	5241	1746	77400500	77712486	-1	None	None
15	None	ENSG00000173517	ENST00000560854	retained_intron	KNOWN	None	None	None	None	77447542	77472150	-1	None	None
15	None	ENSG00000173517	ENST00000558305	protein_coding	PUTATIVE	None	None	3150	1049	77470161	77712464	-1	None	None
15	None	ENSG00000173517	ENST00000559791	processed_transcript	PUTATIVE	None	None	None	None	77470198	77471489	-1	None	None
15	None	ENSG00000173517	ENST00000564328	protein_coding	KNOWN	None	None	1969	655	77472300	77712442	-1	None	None
15	None	ENSG00000173517	ENST00000565820	protein_coding	KNOWN	None	None	180	59	77474089	77547894	-1	None	None
15	None	ENSG00000173517	ENST00000567808	processed_transcript	KNOWN	None	None	None	None	77474321	77712442	-1	None	None
15	None	ENSG00000173517	ENST00000567337	processed_transcript	KNOWN	None	None	None	None	77544764	77712446	-1	None	None
15	None	ENSG00000173517	ENST00000569819	processed_transcript	KNOWN	None	None	None	None	77544821	77638973	-1	None	None
15	None	ENSG00000173517	ENST00000569159	processed_transcript	KNOWN	None	None	None	None	77544841	77712436	-1	None	None
15	None	ENSG00000173517	ENST00000569692	processed_transcript	PUTATIVE	None	None	None	None	77576104	77577442	-1	None	None
15	None	ENSG00000173517	ENST00000312493	protein_coding	KNOWN	CCDS42062	None	5241	1746	77400471	77544873	-1	None	None
1	C1orf61	ENSG00000125462	ENST00000400991	protein_coding	KNOWN	None	30780	199	65	156374044	156399215	-1	None	CROC4
1	C1orf61	ENSG00000125462	ENST00000368242	protein_coding	KNOWN	None	30780	566	187	156374045	156390128	-1	None	CROC4
1	C1orf61	ENSG00000125462	ENST00000471156	processed_transcript	KNOWN	None	30780	None	None	156374048	156396664	-1	None	CROC4
1	C1orf61	ENSG00000125462	ENST00000497824	processed_transcript	KNOWN	None	30780	None	None	156374048	156399371	-1	None	CROC4
1	C1orf61	ENSG00000125462	ENST00000465270	processed_transcript	KNOWN	None	30780	None	None	156374049	156391544	-1	None	CROC4
1	C1orf61	ENSG00000125462	ENST00000488498	processed_transcript	KNOWN	None	30780	None	None	156374050	156382348	-1	None	CROC4
1	C1orf61	ENSG00000125462	ENST00000462458	processed_transcript	KNOWN	None	30780	None	None	156374050	156386731	-1	None	CROC4
1	C1orf61	ENSG00000125462	ENST00000486517	processed_transcript	KNOWN	None	30780	None	None	156374051	156391544	-1	None	CROC4
1	C1orf61	ENSG00000125462	ENST00000465570	processed_transcript	KNOWN	None	30780	None	None	156374053	156382500	-1	None	CROC4
1	C1orf61	ENSG00000125462	ENST00000310027	protein_coding	KNOWN	None	30780	423	140	156374053	156399205	-1	None	CROC4
1	C1orf61	ENSG00000125462	ENST00000368243	protein_coding	KNOWN	CCDS1142	30780	471	156	156374055	156399184	-1	None	CROC4
1	C1orf61	ENSG00000125462	ENST00000498346	processed_transcript	KNOWN	None	30780	None	None	156374056	156377883	-1	None	CROC4
1	C1orf61	ENSG00000125462	ENST00000497822	processed_transcript	KNOWN	None	30780	None	None	156374156	156391550	-1	None	CROC4
1	C1orf61	ENSG00000125462	ENST00000492750	processed_transcript	PUTATIVE	None	30780	None	None	156374172	156390081	-1	None	CROC4
1	C1orf61	ENSG00000125462	ENST00000357975	protein_coding	KNOWN	None	30780	510	169	156374204	156399202	-1	None	CROC4
1	C1orf61	ENSG00000125462	ENST00000464238	processed_transcript	KNOWN	None	30780	None	None	156374300	156383270	-1	None	CROC4
1	C1orf61	ENSG00000125462	ENST00000482932	processed_transcript	KNOWN	None	30780	None	None	156376966	156391548	-1	None	CROC4
1	C1orf61	ENSG00000125462	ENST00000489918	processed_transcript	PUTATIVE	None	30780	None	None	156377489	156390110	-1	None	CROC4
1	C1orf61	ENSG00000125462	ENST00000484428	processed_transcript	KNOWN	None	30780	None	None	156377634	156399193	-1	None	CROC4
1	C1orf61	ENSG00000125462	ENST00000489877	processed_transcript	KNOWN	None	30780	None	None	156377646	156399191	-1	None	CROC4
1	C1orf61	ENSG00000125462	ENST00000476966	processed_transcript	KNOWN	None	30780	None	None	156381623	156399221	-1	None	CROC4
1	C1orf61	ENSG00000125462	ENST00000463309	processed_transcript	KNOWN	None	30780	None	None	156383708	156391548	-1	None	CROC4
1	C1orf61	ENSG00000125462	ENST00000464203	processed_transcript	KNOWN	None	30780	None	None	156383899	156391601	-1	None	CROC4
1	C1orf61	ENSG00000125462	ENST00000469813	processed_transcript	KNOWN	None	30780	None	None	156395429	156400493	-1	None	CROC4
1	C1orf61	ENSG00000125462	ENST00000495000	processed_transcript	PUTATIVE	None	30780	None	None	156395617	156399210	-1	None	CROC4
4	KIAA0232	ENSG00000170871	ENST00000503278	processed_transcript	KNOWN	None	28992	None	None	6783102	6826020	1	None	None
4	KIAA0232	ENSG00000170871	ENST00000508423	protein_coding	KNOWN	None	28992	227	74	6784369	6826411	1	None	None
4	KIAA0232	ENSG00000170871	ENST00000307659	protein_coding	KNOWN	CCDS43209	28992	4188	1395	6784467	6885891	1	None	None
4	KIAA0232	ENSG00000170871	ENST00000503069	processed_transcript	KNOWN	None	28992	None	None	6857526	6862666	1	None	None
4	KIAA0232	ENSG00000170871	ENST00000425103	protein_coding	KNOWN	CCDS43209	28992	4188	1395	6784459	6885897	1	None	None
6	SNX9	ENSG00000130340	ENST00000392185	protein_coding	KNOWN	CCDS5253	14973	1788	595	158244296	158366109	1	None	SH3PX1, SDP1, SH3PXD3A
1	MT1HL1	ENSG00000244020	ENST00000464121	protein_coding	KNOWN	None	31864	186	61	237167403	237167718	-1	MT1P2	None
17	OGFOD3	ENSG00000181396	ENST00000313056	protein_coding	KNOWN	CCDS11811	26174	960	319	80347099	80376513	-1	C17orf101	FLJ22222
17	OGFOD3	ENSG00000181396	ENST00000578586	retained_intron	KNOWN	None	26174	None	None	80347992	80351787	-1	C17orf101	FLJ22222
17	OGFOD3	ENSG00000181396	ENST00000582146	processed_transcript	PUTATIVE	None	26174	None	None	80349543	80349981	-1	C17orf101	FLJ22222
17	OGFOD3	ENSG00000181396	ENST00000329197	protein_coding	KNOWN	CCDS11812	26174	996	331	80349886	80376452	-1	C17orf101	FLJ22222
17	OGFOD3	ENSG00000181396	ENST00000578287	processed_transcript	PUTATIVE	None	26174	None	None	80350091	80351093	-1	C17orf101	FLJ22222
17	OGFOD3	ENSG00000181396	ENST00000583897	protein_coding	NOVEL	None	26174	724	240	80350102	80373392	-1	C17orf101	FLJ22222
17	OGFOD3	ENSG00000181396	ENST00000580445	nonsense_mediated_decay	KNOWN	None	26174	381	126	80350317	80376513	-1	C17orf101	FLJ22222
17	OGFOD3	ENSG00000181396	ENST00000579407	retained_intron	KNOWN	None	26174	None	None	80350330	80369565	-1	C17orf101	FLJ22222
17	OGFOD3	ENSG00000181396	ENST00000583445	protein_coding	PUTATIVE	None	26174	657	218	80354421	80364308	-1	C17orf101	FLJ22222
17	OGFOD3	ENSG00000181396	ENST00000582593	protein_coding	PUTATIVE	None	26174	286	94	80354473	80361843	-1	C17orf101	FLJ22222
17	OGFOD3	ENSG00000181396	ENST00000577495	protein_coding	PUTATIVE	None	26174	46	14	80356072	80376464	-1	C17orf101	FLJ22222
17	OGFOD3	ENSG00000181396	ENST00000577606	processed_transcript	KNOWN	None	26174	None	None	80364298	80376477	-1	C17orf101	FLJ22222
9	CCL21	ENSG00000137077	ENST00000259607	protein_coding	KNOWN	CCDS6571	10620	405	134	34709002	34710121	-1	SCYA21	SLC, exodus-2, TCA4, CKb9, 6Ckine, ECL
9	CCL21	ENSG00000137077	ENST00000378792	protein_coding	KNOWN	None	10620	375	124	34709272	34710066	-1	SCYA21	SLC, exodus-2, TCA4, CKb9, 6Ckine, ECL
20	None	ENSG00000236168	ENST00000447582	unprocessed_pseudogene	KNOWN	None	None	None	None	23961222	23961371	-1	None	None
4	ABCG2	ENSG00000118777	ENST00000515655	protein_coding	KNOWN	CCDS58910	74	1836	611	89011416	89152474	-1	None	EST157481, MXR, BCRP, ABCP, CD338
4	ABCG2	ENSG00000118777	ENST00000237612	protein_coding	KNOWN	CCDS3628	74	1968	655	89011421	89080064	-1	None	EST157481, MXR, BCRP, ABCP, CD338
4	ABCG2	ENSG00000118777	ENST00000505480	protein_coding	PUTATIVE	None	74	451	149	89052996	89079823	-1	None	EST157481, MXR, BCRP, ABCP, CD338
4	ABCG2	ENSG00000118777	ENST00000503830	protein_coding	PUTATIVE	None	74	391	129	89052996	89080391	-1	None	EST157481, MXR, BCRP, ABCP, CD338
X	FAM122C	ENSG00000156500	ENST00000495147	processed_transcript	KNOWN	None	25202	None	None	133941221	133957020	1	None	RP3-473B4.1
X	FAM122C	ENSG00000156500	ENST00000370785	protein_coding	KNOWN	CCDS14644	25202	459	152	133941224	133988621	1	None	RP3-473B4.1
X	FAM122C	ENSG00000156500	ENST00000482240	processed_transcript	KNOWN	None	25202	None	None	133941247	133943587	1	None	RP3-473B4.1
X	FAM122C	ENSG00000156500	ENST00000475361	processed_transcript	KNOWN	None	25202	None	None	133941253	133945213	1	None	RP3-473B4.1
X	FAM122C	ENSG00000156500	ENST00000494709	processed_transcript	KNOWN	None	25202	None	None	133941269	133942210	1	None	RP3-473B4.1
X	FAM122C	ENSG00000156500	ENST00000470657	processed_transcript	KNOWN	None	25202	None	None	133941283	133986921	1	None	RP3-473B4.1
X	FAM122C	ENSG00000156500	ENST00000460216	processed_transcript	KNOWN	None	25202	None	None	133973203	133988213	1	None	RP3-473B4.1
X	FAM122C	ENSG00000156500	ENST00000463842	processed_transcript	KNOWN	None	25202	None	None	133979255	133988320	1	None	RP3-473B4.1
X	FAM122C	ENSG00000156500	ENST00000414371	protein_coding	KNOWN	CCDS55500	25202	348	115	133930819	133957005	1	None	RP3-473B4.1
X	FAM122C	ENSG00000156500	ENST00000370784	protein_coding	KNOWN	CCDS55501	25202	588	195	133941223	133988640	1	None	RP3-473B4.1
X	FAM122C	ENSG00000156500	ENST00000445123	protein_coding	KNOWN	None	25202	558	185	133941267	133988640	1	None	RP3-473B4.1
8	ASPH	ENSG00000198363	ENST00000379454	protein_coding	KNOWN	CCDS34898	757	2277	758	62413788	62627118	-1	None	CASQ2BP1, BAH, JCTN, HAAH
8	ASPH	ENSG00000198363	ENST00000521909	retained_intron	KNOWN	None	757	None	None	62429572	62438645	-1	None	CASQ2BP1, BAH, JCTN, HAAH
8	ASPH	ENSG00000198363	ENST00000524173	processed_transcript	KNOWN	None	757	None	None	62479816	62563645	-1	None	CASQ2BP1, BAH, JCTN, HAAH
8	ASPH	ENSG00000198363	ENST00000521499	retained_intron	KNOWN	None	757	None	None	62489160	62550558	-1	None	CASQ2BP1, BAH, JCTN, HAAH
8	ASPH	ENSG00000198363	ENST00000522349	protein_coding	PUTATIVE	None	757	408	135	62489331	62602370	-1	None	CASQ2BP1, BAH, JCTN, HAAH
8	ASPH	ENSG00000198363	ENST00000523897	processed_transcript	KNOWN	None	757	None	None	62495558	62555976	-1	None	CASQ2BP1, BAH, JCTN, HAAH
8	ASPH	ENSG00000198363	ENST00000523927	processed_transcript	KNOWN	None	757	None	None	62496502	62593558	-1	None	CASQ2BP1, BAH, JCTN, HAAH
8	ASPH	ENSG00000198363	ENST00000522919	protein_coding	PUTATIVE	None	757	492	163	62519028	62559366	-1	None	CASQ2BP1, BAH, JCTN, HAAH
8	ASPH	ENSG00000198363	ENST00000356457	protein_coding	KNOWN	CCDS43742	757	942	313	62537095	62627155	-1	None	CASQ2BP1, BAH, JCTN, HAAH
8	ASPH	ENSG00000198363	ENST00000519234	protein_coding	PUTATIVE	None	757	984	327	62537096	62627084	-1	None	CASQ2BP1, BAH, JCTN, HAAH
8	ASPH	ENSG00000198363	ENST00000518068	protein_coding	PUTATIVE	CCDS55237	757	813	270	62537098	62627127	-1	None	CASQ2BP1, BAH, JCTN, HAAH
8	ASPH	ENSG00000198363	ENST00000517903	protein_coding	NOVEL	CCDS55236	757	897	298	62537162	62602338	-1	None	CASQ2BP1, BAH, JCTN, HAAH
8	ASPH	ENSG00000198363	ENST00000517847	protein_coding	KNOWN	CCDS47866	757	900	299	62537865	62602327	-1	None	CASQ2BP1, BAH, JCTN, HAAH
8	ASPH	ENSG00000198363	ENST00000518441	retained_intron	KNOWN	None	757	None	None	62538204	62550605	-1	None	CASQ2BP1, BAH, JCTN, HAAH
8	ASPH	ENSG00000198363	ENST00000522835	protein_coding	PUTATIVE	CCDS55235	757	771	256	62538469	62602371	-1	None	CASQ2BP1, BAH, JCTN, HAAH
8	ASPH	ENSG00000198363	ENST00000519678	processed_transcript	KNOWN	None	757	None	None	62538700	62559431	-1	None	CASQ2BP1, BAH, JCTN, HAAH
8	ASPH	ENSG00000198363	ENST00000519264	retained_intron	KNOWN	None	757	None	None	62545684	62550545	-1	None	CASQ2BP1, BAH, JCTN, HAAH
8	ASPH	ENSG00000198363	ENST00000518306	protein_coding	PUTATIVE	None	757	594	197	62550528	62602408	-1	None	CASQ2BP1, BAH, JCTN, HAAH
8	ASPH	ENSG00000198363	ENST00000520198	retained_intron	KNOWN	None	757	None	None	62557159	62563990	-1	None	CASQ2BP1, BAH, JCTN, HAAH
8	ASPH	ENSG00000198363	ENST00000517856	protein_coding	PUTATIVE	None	757	342	113	62574224	62627146	-1	None	CASQ2BP1, BAH, JCTN, HAAH
8	ASPH	ENSG00000198363	ENST00000517928	processed_transcript	KNOWN	None	757	None	None	62574373	62597259	-1	None	CASQ2BP1, BAH, JCTN, HAAH
8	ASPH	ENSG00000198363	ENST00000389204	protein_coding	KNOWN	CCDS34900	757	678	225	62577284	62602333	-1	None	CASQ2BP1, BAH, JCTN, HAAH
8	ASPH	ENSG00000198363	ENST00000522603	protein_coding	KNOWN	CCDS34899	757	633	210	62577699	62602345	-1	None	CASQ2BP1, BAH, JCTN, HAAH
8	ASPH	ENSG00000198363	ENST00000379449	protein_coding	PUTATIVE	CCDS55238	757	612	203	62587818	62627105	-1	None	CASQ2BP1, BAH, JCTN, HAAH
8	ASPH	ENSG00000198363	ENST00000517661	protein_coding	PUTATIVE	None	757	525	174	62588437	62602334	-1	None	CASQ2BP1, BAH, JCTN, HAAH
8	ASPH	ENSG00000198363	ENST00000522325	retained_intron	KNOWN	None	757	None	None	62593083	62596749	-1	None	CASQ2BP1, BAH, JCTN, HAAH
8	ASPH	ENSG00000198363	ENST00000522036	retained_intron	KNOWN	None	757	None	None	62596112	62602258	-1	None	CASQ2BP1, BAH, JCTN, HAAH
8	ASPH	ENSG00000198363	ENST00000522343	processed_transcript	KNOWN	None	757	None	None	62599974	62602274	-1	None	CASQ2BP1, BAH, JCTN, HAAH
8	ASPH	ENSG00000198363	ENST00000541428	protein_coding	KNOWN	CCDS55234	757	2190	729	62413116	62602408	-1	None	CASQ2BP1, BAH, JCTN, HAAH
8	ASPH	ENSG00000198363	ENST00000445642	protein_coding	KNOWN	CCDS47866	757	900	299	62537459	62602327	-1	None	CASQ2BP1, BAH, JCTN, HAAH
11	GANAB	ENSG00000089597	ENST00000532402	nonsense_mediated_decay	KNOWN	None	4138	159	52	62392298	62414074	-1	None	GluII, G2AN, KIAA0088
11	GANAB	ENSG00000089597	ENST00000346178	protein_coding	KNOWN	CCDS41656	4138	2901	966	62392298	62414087	-1	None	GluII, G2AN, KIAA0088
11	GANAB	ENSG00000089597	ENST00000356638	protein_coding	KNOWN	CCDS8026	4138	2835	944	62392531	62414088	-1	None	GluII, G2AN, KIAA0088
11	GANAB	ENSG00000089597	ENST00000528503	retained_intron	KNOWN	None	4138	None	None	62393203	62394242	-1	None	GluII, G2AN, KIAA0088
11	GANAB	ENSG00000089597	ENST00000534779	protein_coding	NOVEL	None	4138	2559	852	62393253	62414104	-1	None	GluII, G2AN, KIAA0088
11	GANAB	ENSG00000089597	ENST00000531563	retained_intron	KNOWN	None	4138	None	None	62393872	62394583	-1	None	GluII, G2AN, KIAA0088
11	GANAB	ENSG00000089597	ENST00000526732	retained_intron	KNOWN	None	4138	None	None	62400065	62401402	-1	None	GluII, G2AN, KIAA0088
11	GANAB	ENSG00000089597	ENST00000534422	processed_transcript	KNOWN	None	4138	None	None	62400500	62406939	-1	None	GluII, G2AN, KIAA0088
11	GANAB	ENSG00000089597	ENST00000534613	nonsense_mediated_decay	KNOWN	None	4138	159	52	62400529	62414088	-1	None	GluII, G2AN, KIAA0088
11	GANAB	ENSG00000089597	ENST00000525994	protein_coding	PUTATIVE	None	4138	357	118	62400914	62414104	-1	None	GluII, G2AN, KIAA0088
11	GANAB	ENSG00000089597	ENST00000524437	retained_intron	KNOWN	None	4138	None	None	62402043	62406943	-1	None	GluII, G2AN, KIAA0088
11	GANAB	ENSG00000089597	ENST00000526210	nonsense_mediated_decay	KNOWN	None	4138	159	52	62402225	62414085	-1	None	GluII, G2AN, KIAA0088
11	GANAB	ENSG00000089597	ENST00000526392	retained_intron	KNOWN	None	4138	None	None	62402261	62414078	-1	None	GluII, G2AN, KIAA0088
11	GANAB	ENSG00000089597	ENST00000529737	nonsense_mediated_decay	KNOWN	None	4138	231	76	62402296	62414095	-1	None	GluII, G2AN, KIAA0088
11	GANAB	ENSG00000089597	ENST00000534419	processed_transcript	KNOWN	None	4138	None	None	62402368	62414089	-1	None	GluII, G2AN, KIAA0088
11	GANAB	ENSG00000089597	ENST00000540933	protein_coding	KNOWN	None	4138	2544	847	62393274	62414081	-1	None	GluII, G2AN, KIAA0088
20	POM121L3P	ENSG00000167390	ENST00000419331	processed_pseudogene	KNOWN	None	16440	None	None	23969929	23971091	1	POM121L3	dJ831C21.3
1	MEF2D	ENSG00000116604	ENST00000348159	protein_coding	KNOWN	CCDS1143	6997	1566	521	156433519	156470620	-1	None	None
1	MEF2D	ENSG00000116604	ENST00000360595	protein_coding	KNOWN	None	6997	1545	514	156436002	156460391	-1	None	None
1	MEF2D	ENSG00000116604	ENST00000475587	processed_transcript	KNOWN	None	6997	None	None	156436007	156470545	-1	None	None
1	MEF2D	ENSG00000116604	ENST00000464356	processed_transcript	KNOWN	None	6997	None	None	156436009	156470541	-1	None	None
1	MEF2D	ENSG00000116604	ENST00000454816	protein_coding	KNOWN	None	6997	1530	509	156437785	156453222	-1	None	None
1	MEF2D	ENSG00000116604	ENST00000493077	processed_transcript	KNOWN	None	6997	None	None	156446721	156449572	-1	None	None
1	MEF2D	ENSG00000116604	ENST00000489057	processed_transcript	KNOWN	None	6997	None	None	156453053	156470571	-1	None	None
1	MEF2D	ENSG00000116604	ENST00000340875	protein_coding	KNOWN	None	6997	1563	520	156433522	156470529	-1	None	None
1	MEF2D	ENSG00000116604	ENST00000368240	protein_coding	KNOWN	None	6997	1545	514	156433522	156470529	-1	None	None
1	MEF2D	ENSG00000116604	ENST00000353795	protein_coding	KNOWN	None	6997	1428	475	156433522	156470529	-1	None	None
9	FAM205A	ENSG00000205108	ENST00000378788	protein_coding	NOVEL	CCDS55305	41911	4008	1335	34723052	34729464	-1	None	C9orf144B
3	IL5RA	ENSG00000091181	ENST00000446632	protein_coding	KNOWN	CCDS2559	6017	1263	420	3111233	3152058	-1	IL5R	CDw125, CD125
3	IL5RA	ENSG00000091181	ENST00000438560	protein_coding	NOVEL	CCDS58813	6017	1137	378	3111410	3152058	-1	IL5R	CDw125, CD125
3	IL5RA	ENSG00000091181	ENST00000256452	protein_coding	KNOWN	CCDS2559	6017	1263	420	3111421	3151664	-1	IL5R	CDw125, CD125
3	IL5RA	ENSG00000091181	ENST00000383846	protein_coding	KNOWN	CCDS2560	6017	1008	335	3131655	3152031	-1	IL5R	CDw125, CD125
3	IL5RA	ENSG00000091181	ENST00000311981	protein_coding	KNOWN	CCDS2560	6017	1008	335	3131857	3151664	-1	IL5R	CDw125, CD125
3	IL5RA	ENSG00000091181	ENST00000430514	protein_coding	KNOWN	CCDS46739	6017	1002	333	3133488	3151664	-1	IL5R	CDw125, CD125
3	IL5RA	ENSG00000091181	ENST00000456302	protein_coding	KNOWN	CCDS46739	6017	1002	333	3133697	3151667	-1	IL5R	CDw125, CD125
3	IL5RA	ENSG00000091181	ENST00000445701	protein_coding	KNOWN	None	6017	589	195	3139674	3168297	-1	IL5R	CDw125, CD125
3	IL5RA	ENSG00000091181	ENST00000427088	protein_coding	KNOWN	None	6017	327	108	3143416	3152050	-1	IL5R	CDw125, CD125
3	IL5RA	ENSG00000091181	ENST00000466722	processed_transcript	KNOWN	None	6017	None	None	3150268	3152049	-1	IL5R	CDw125, CD125
3	IL5RA	ENSG00000091181	ENST00000418488	protein_coding	KNOWN	None	6017	978	325	3111909	3146668	-1	IL5R	CDw125, CD125
3	IL5RA	ENSG00000091181	ENST00000445864	protein_coding	KNOWN	None	6017	636	211	3111909	3146668	-1	IL5R	CDw125, CD125
19	NUP62	ENSG00000213024	ENST00000422090	protein_coding	KNOWN	CCDS12788	8066	1569	522	50410082	50433001	-1	None	p62, DKFZp547L134, IBSN, SNDI, MGC841, FLJ20822, FLJ43869
19	NUP62	ENSG00000213024	ENST00000352066	protein_coding	KNOWN	CCDS12788	8066	1569	522	50410800	50432988	-1	None	p62, DKFZp547L134, IBSN, SNDI, MGC841, FLJ20822, FLJ43869
19	NUP62	ENSG00000213024	ENST00000597029	protein_coding	KNOWN	CCDS12788	8066	1569	522	50411362	50432700	-1	None	p62, DKFZp547L134, IBSN, SNDI, MGC841, FLJ20822, FLJ43869
19	NUP62	ENSG00000213024	ENST00000597723	protein_coding	PUTATIVE	None	8066	1341	446	50411362	50432732	-1	None	p62, DKFZp547L134, IBSN, SNDI, MGC841, FLJ20822, FLJ43869
19	NUP62	ENSG00000213024	ENST00000596217	protein_coding	KNOWN	CCDS12788	8066	1569	522	50411363	50432761	-1	None	p62, DKFZp547L134, IBSN, SNDI, MGC841, FLJ20822, FLJ43869
19	NUP62	ENSG00000213024	ENST00000595463	processed_transcript	KNOWN	None	8066	None	None	50412434	50432761	-1	None	p62, DKFZp547L134, IBSN, SNDI, MGC841, FLJ20822, FLJ43869
19	NUP62	ENSG00000213024	ENST00000593652	protein_coding	KNOWN	None	8066	413	136	50412652	50432761	-1	None	p62, DKFZp547L134, IBSN, SNDI, MGC841, FLJ20822, FLJ43869
19	NUP62	ENSG00000213024	ENST00000595761	protein_coding	KNOWN	None	8066	402	133	50412663	50420918	-1	None	p62, DKFZp547L134, IBSN, SNDI, MGC841, FLJ20822, FLJ43869
19	NUP62	ENSG00000213024	ENST00000599567	protein_coding	KNOWN	None	8066	300	99	50412765	50432761	-1	None	p62, DKFZp547L134, IBSN, SNDI, MGC841, FLJ20822, FLJ43869
19	NUP62	ENSG00000213024	ENST00000600645	protein_coding	KNOWN	None	8066	298	98	50412767	50416347	-1	None	p62, DKFZp547L134, IBSN, SNDI, MGC841, FLJ20822, FLJ43869
19	NUP62	ENSG00000213024	ENST00000596437	protein_coding	KNOWN	None	8066	227	74	50412838	50432788	-1	None	p62, DKFZp547L134, IBSN, SNDI, MGC841, FLJ20822, FLJ43869
19	NUP62	ENSG00000213024	ENST00000600583	processed_transcript	KNOWN	None	8066	None	None	50412956	50432761	-1	None	p62, DKFZp547L134, IBSN, SNDI, MGC841, FLJ20822, FLJ43869
19	NUP62	ENSG00000213024	ENST00000594673	protein_coding	KNOWN	None	8066	108	35	50412957	50432692	-1	None	p62, DKFZp547L134, IBSN, SNDI, MGC841, FLJ20822, FLJ43869
19	NUP62	ENSG00000213024	ENST00000599788	protein_coding	KNOWN	None	8066	71	22	50412994	50432732	-1	None	p62, DKFZp547L134, IBSN, SNDI, MGC841, FLJ20822, FLJ43869
19	NUP62	ENSG00000213024	ENST00000600935	protein_coding	KNOWN	None	8066	69	22	50412996	50432761	-1	None	p62, DKFZp547L134, IBSN, SNDI, MGC841, FLJ20822, FLJ43869
19	NUP62	ENSG00000213024	ENST00000596680	protein_coding	KNOWN	None	8066	56	17	50413009	50432686	-1	None	p62, DKFZp547L134, IBSN, SNDI, MGC841, FLJ20822, FLJ43869
19	NUP62	ENSG00000213024	ENST00000601665	processed_transcript	KNOWN	None	8066	None	None	50413112	50432722	-1	None	p62, DKFZp547L134, IBSN, SNDI, MGC841, FLJ20822, FLJ43869
19	NUP62	ENSG00000213024	ENST00000599560	processed_transcript	KNOWN	None	8066	None	None	50413116	50433020	-1	None	p62, DKFZp547L134, IBSN, SNDI, MGC841, FLJ20822, FLJ43869
19	NUP62	ENSG00000213024	ENST00000595373	processed_transcript	KNOWN	None	8066	None	None	50414318	50420898	-1	None	p62, DKFZp547L134, IBSN, SNDI, MGC841, FLJ20822, FLJ43869
19	NUP62	ENSG00000213024	ENST00000599186	processed_transcript	KNOWN	None	8066	None	None	50414430	50432722	-1	None	p62, DKFZp547L134, IBSN, SNDI, MGC841, FLJ20822, FLJ43869
19	NUP62	ENSG00000213024	ENST00000597814	processed_transcript	KNOWN	None	8066	None	None	50414493	50432666	-1	None	p62, DKFZp547L134, IBSN, SNDI, MGC841, FLJ20822, FLJ43869
19	NUP62	ENSG00000213024	ENST00000599830	processed_transcript	KNOWN	None	8066	None	None	50414576	50432739	-1	None	p62, DKFZp547L134, IBSN, SNDI, MGC841, FLJ20822, FLJ43869
19	NUP62	ENSG00000213024	ENST00000598301	processed_transcript	KNOWN	None	8066	None	None	50416196	50432771	-1	None	p62, DKFZp547L134, IBSN, SNDI, MGC841, FLJ20822, FLJ43869
19	NUP62	ENSG00000213024	ENST00000413454	protein_coding	KNOWN	CCDS12788	8066	1569	522	50410086	50432786	-1	None	p62, DKFZp547L134, IBSN, SNDI, MGC841, FLJ20822, FLJ43869
2	NBEAL1	ENSG00000144426	ENST00000497505	retained_intron	KNOWN	None	20681	None	None	203879602	203950935	1	ALS2CR17, ALS2CR16	MGC164581
2	NBEAL1	ENSG00000144426	ENST00000449802	protein_coding	KNOWN	CCDS46495	20681	8085	2694	203879602	204084597	1	ALS2CR17, ALS2CR16	MGC164581
2	NBEAL1	ENSG00000144426	ENST00000478884	processed_transcript	KNOWN	None	20681	None	None	203879648	203927211	1	ALS2CR17, ALS2CR16	MGC164581
2	NBEAL1	ENSG00000144426	ENST00000492870	processed_transcript	KNOWN	None	20681	None	None	203880514	203906580	1	ALS2CR17, ALS2CR16	MGC164581
2	NBEAL1	ENSG00000144426	ENST00000460416	retained_intron	KNOWN	None	20681	None	None	203881088	203914891	1	ALS2CR17, ALS2CR16	MGC164581
2	NBEAL1	ENSG00000144426	ENST00000483147	processed_transcript	PUTATIVE	None	20681	None	None	203947960	203962322	1	ALS2CR17, ALS2CR16	MGC164581
2	NBEAL1	ENSG00000144426	ENST00000463830	retained_intron	KNOWN	None	20681	None	None	203948222	203949731	1	ALS2CR17, ALS2CR16	MGC164581
2	NBEAL1	ENSG00000144426	ENST00000414576	protein_coding	PUTATIVE	None	20681	2130	709	204032033	204082187	1	ALS2CR17, ALS2CR16	MGC164581
2	NBEAL1	ENSG00000144426	ENST00000460355	retained_intron	KNOWN	None	20681	None	None	204045679	204056058	1	ALS2CR17, ALS2CR16	MGC164581
2	NBEAL1	ENSG00000144426	ENST00000434469	protein_coding	PUTATIVE	None	20681	692	229	204073358	204091101	1	ALS2CR17, ALS2CR16	MGC164581
14	IFT43	ENSG00000119650	ENST00000555677	retained_intron	KNOWN	None	29669	None	None	76368479	76488974	1	C14orf179	FLJ32173, MGC16028
14	IFT43	ENSG00000119650	ENST00000542766	nonsense_mediated_decay	KNOWN	CCDS41973	29669	627	208	76452113	76550416	1	C14orf179	FLJ32173, MGC16028
14	IFT43	ENSG00000119650	ENST00000554026	retained_intron	KNOWN	None	29669	None	None	76452123	76550044	1	C14orf179	FLJ32173, MGC16028
14	IFT43	ENSG00000119650	ENST00000555305	retained_intron	KNOWN	None	29669	None	None	76452123	76550928	1	C14orf179	FLJ32173, MGC16028
14	IFT43	ENSG00000119650	ENST00000555370	nonsense_mediated_decay	KNOWN	None	29669	99	32	76452125	76525719	1	C14orf179	FLJ32173, MGC16028
14	IFT43	ENSG00000119650	ENST00000238628	protein_coding	KNOWN	CCDS9847	29669	642	213	76452125	76550089	1	C14orf179	FLJ32173, MGC16028
14	IFT43	ENSG00000119650	ENST00000556742	protein_coding	NOVEL	CCDS58330	29669	342	113	76452127	76525614	1	C14orf179	FLJ32173, MGC16028
14	IFT43	ENSG00000119650	ENST00000553338	processed_transcript	KNOWN	None	29669	None	None	76452137	76488745	1	C14orf179	FLJ32173, MGC16028
14	IFT43	ENSG00000119650	ENST00000553438	processed_transcript	PUTATIVE	None	29669	None	None	76488668	76548968	1	C14orf179	FLJ32173, MGC16028
14	IFT43	ENSG00000119650	ENST00000554423	retained_intron	KNOWN	None	29669	None	None	76524514	76525691	1	C14orf179	FLJ32173, MGC16028
14	IFT43	ENSG00000119650	ENST00000554233	retained_intron	KNOWN	None	29669	None	None	76524667	76525953	1	C14orf179	FLJ32173, MGC16028
14	IFT43	ENSG00000119650	ENST00000314067	protein_coding	KNOWN	CCDS41973	29669	627	208	76452096	76550092	1	C14orf179	FLJ32173, MGC16028
10	ZNF32	ENSG00000169740	ENST00000374433	protein_coding	KNOWN	CCDS7206	13095	822	273	44139307	44144304	-1	None	KOX30
10	ZNF32	ENSG00000169740	ENST00000485351	processed_transcript	KNOWN	None	13095	None	None	44140097	44141723	-1	None	KOX30
10	ZNF32	ENSG00000169740	ENST00000395797	protein_coding	KNOWN	CCDS7206	13095	822	273	44139308	44144152	-1	None	KOX30
X	FAM47A	ENSG00000185448	ENST00000346193	protein_coding	KNOWN	CCDS43926	29962	2376	791	34147869	34150447	-1	None	MGC27003
1	MIER1	ENSG00000198160	ENST00000357692	protein_coding	KNOWN	CCDS53329	29657	1590	529	67390640	67453714	1	None	hMI-ER1, MI-ER1, KIAA1610
1	MIER1	ENSG00000198160	ENST00000401041	protein_coding	KNOWN	CCDS53326	29657	1698	565	67390642	67451367	1	None	hMI-ER1, MI-ER1, KIAA1610
1	MIER1	ENSG00000198160	ENST00000371016	protein_coding	KNOWN	CCDS53327	29657	1353	450	67390642	67452353	1	None	hMI-ER1, MI-ER1, KIAA1610
1	MIER1	ENSG00000198160	ENST00000371014	protein_coding	KNOWN	CCDS53325	29657	1461	486	67390642	67452353	1	None	hMI-ER1, MI-ER1, KIAA1610
1	MIER1	ENSG00000198160	ENST00000371012	protein_coding	NOVEL	None	29657	246	81	67390650	67413923	1	None	hMI-ER1, MI-ER1, KIAA1610
1	MIER1	ENSG00000198160	ENST00000401042	protein_coding	KNOWN	CCDS41347	29657	1302	433	67395926	67452353	1	None	hMI-ER1, MI-ER1, KIAA1610
1	MIER1	ENSG00000198160	ENST00000355356	protein_coding	KNOWN	CCDS41348	29657	1539	512	67395926	67453713	1	None	hMI-ER1, MI-ER1, KIAA1610
1	MIER1	ENSG00000198160	ENST00000479067	processed_transcript	KNOWN	None	29657	None	None	67398335	67425433	1	None	hMI-ER1, MI-ER1, KIAA1610
1	MIER1	ENSG00000198160	ENST00000493357	processed_transcript	KNOWN	None	29657	None	None	67424594	67425761	1	None	hMI-ER1, MI-ER1, KIAA1610
1	MIER1	ENSG00000198160	ENST00000371018	protein_coding	KNOWN	CCDS53328	29657	1413	470	67390578	67454302	1	None	hMI-ER1, MI-ER1, KIAA1610
1	MIER1	ENSG00000198160	ENST00000355977	protein_coding	KNOWN	CCDS53330	29657	1113	370	67390578	67454302	1	None	hMI-ER1, MI-ER1, KIAA1610
16	TPSB2	ENSG00000197253	ENST00000339687	processed_transcript	KNOWN	None	14120	None	None	1277272	1280185	-1	None	None
16	TPSB2	ENSG00000197253	ENST00000606293	processed_transcript	KNOWN	None	14120	None	None	1278336	1279223	-1	None	None
16	TPSB2	ENSG00000197253	ENST00000445910	polymorphic_pseudogene	KNOWN	None	14120	829	275	1278577	1280185	-1	None	None
16	TPSB2	ENSG00000197253	ENST00000430512	protein_coding	KNOWN	None	14120	825	274	1278336	1280214	-1	None	None
9	KIAA1045	ENSG00000122733	ENST00000486477	processed_transcript	KNOWN	None	29180	None	None	34957605	34971514	1	None	None
9	KIAA1045	ENSG00000122733	ENST00000476115	processed_transcript	KNOWN	None	29180	None	None	34958316	34978894	1	None	None
9	KIAA1045	ENSG00000122733	ENST00000242315	protein_coding	KNOWN	CCDS43796	29180	1203	400	34958321	34982541	1	None	None
9	KIAA1045	ENSG00000122733	ENST00000440503	processed_transcript	PUTATIVE	None	29180	None	None	34979685	34982541	1	None	None
9	KIAA1045	ENSG00000122733	ENST00000544237	protein_coding	KNOWN	CCDS43796	29180	1203	400	34957484	34978194	1	None	None
2	RTKN	ENSG00000114993	ENST00000305557	protein_coding	KNOWN	CCDS1941	10466	1653	550	74652963	74667710	-1	None	B5
2	RTKN	ENSG00000114993	ENST00000272430	protein_coding	KNOWN	CCDS33226	10466	1692	563	74653003	74669026	-1	None	B5
2	RTKN	ENSG00000114993	ENST00000233330	protein_coding	NOVEL	CCDS42699	10466	1542	513	74653010	74667758	-1	None	B5
2	RTKN	ENSG00000114993	ENST00000492013	retained_intron	KNOWN	None	10466	None	None	74653533	74655129	-1	None	B5
2	RTKN	ENSG00000114993	ENST00000469859	retained_intron	KNOWN	None	10466	None	None	74657155	74658056	-1	None	B5
2	RTKN	ENSG00000114993	ENST00000479256	processed_transcript	KNOWN	None	10466	None	None	74657382	74669549	-1	None	B5
2	RTKN	ENSG00000114993	ENST00000472518	retained_intron	KNOWN	None	10466	None	None	74658882	74669025	-1	None	B5
2	RTKN	ENSG00000114993	ENST00000464094	retained_intron	KNOWN	None	10466	None	None	74659186	74667710	-1	None	B5
2	RTKN	ENSG00000114993	ENST00000460968	retained_intron	KNOWN	None	10466	None	None	74659599	74667324	-1	None	B5
2	RTKN	ENSG00000114993	ENST00000484453	processed_transcript	KNOWN	None	10466	None	None	74659688	74669546	-1	None	B5
12	KRR1	ENSG00000111615	ENST00000229214	protein_coding	KNOWN	CCDS9012	5176	1146	381	75890684	75905401	-1	HRB2	RIP-1
12	KRR1	ENSG00000111615	ENST00000438169	protein_coding	NOVEL	None	5176	975	324	75893589	75905377	-1	HRB2	RIP-1
12	KRR1	ENSG00000111615	ENST00000551070	retained_intron	KNOWN	None	5176	None	None	75893610	75898062	-1	HRB2	RIP-1
12	KRR1	ENSG00000111615	ENST00000550023	retained_intron	KNOWN	None	5176	None	None	75899944	75905393	-1	HRB2	RIP-1
12	KRR1	ENSG00000111615	ENST00000550898	retained_intron	KNOWN	None	5176	None	None	75900300	75905416	-1	HRB2	RIP-1
5	THBS4	ENSG00000113296	ENST00000513310	processed_transcript	KNOWN	None	11788	None	None	79287134	79351729	1	None	None
5	THBS4	ENSG00000113296	ENST00000510218	processed_transcript	KNOWN	None	11788	None	None	79287155	79351790	1	None	None
5	THBS4	ENSG00000113296	ENST00000350881	protein_coding	KNOWN	CCDS4049	11788	2886	961	79331171	79379110	1	None	None
5	THBS4	ENSG00000113296	ENST00000511733	protein_coding	PUTATIVE	None	11788	2613	870	79331846	79379105	1	None	None
5	THBS4	ENSG00000113296	ENST00000515510	processed_transcript	KNOWN	None	11788	None	None	79369095	79372702	1	None	None
5	THBS4	ENSG00000113296	ENST00000504720	processed_transcript	KNOWN	None	11788	None	None	79374658	79379110	1	None	None
5	THBS4	ENSG00000113296	ENST00000511888	processed_transcript	KNOWN	None	11788	None	None	79377827	79379011	1	None	None
15	CYP1A2	ENSG00000140505	ENST00000343932	protein_coding	KNOWN	CCDS32293	2596	1551	516	75041185	75048543	1	None	P3-450, CP12
20	None	ENSG00000236151	ENST00000457224	lincRNA	KNOWN	None	None	None	None	24123226	24125022	-1	None	None
14	ANKRD9	ENSG00000156381	ENST00000559651	protein_coding	KNOWN	CCDS9973	20096	954	317	102973179	102975154	-1	None	None
14	ANKRD9	ENSG00000156381	ENST00000286918	protein_coding	KNOWN	CCDS9973	20096	954	317	102973179	102976128	-1	None	None
14	ANKRD9	ENSG00000156381	ENST00000560748	protein_coding	KNOWN	CCDS9973	20096	954	317	102973213	102976136	-1	None	None
14	ANKRD9	ENSG00000156381	ENST00000559404	protein_coding	KNOWN	None	20096	779	258	102973448	102975572	-1	None	None
14	ANKRD9	ENSG00000156381	ENST00000557902	protein_coding	KNOWN	None	20096	316	104	102973911	102975248	-1	None	None
19	HIPK4	ENSG00000160396	ENST00000291823	protein_coding	KNOWN	CCDS12555	19007	1851	616	40885178	40896094	-1	None	FLJ32818
1	IQGAP3	ENSG00000183856	ENST00000361170	protein_coding	KNOWN	CCDS1144	20669	4896	1631	156495197	156542332	-1	None	None
1	IQGAP3	ENSG00000183856	ENST00000491900	nonsense_mediated_decay	KNOWN	None	20669	4767	1588	156495197	156542396	-1	None	None
1	IQGAP3	ENSG00000183856	ENST00000476565	processed_transcript	PUTATIVE	None	20669	None	None	156506623	156508653	-1	None	None
1	IQGAP3	ENSG00000183856	ENST00000498755	processed_transcript	PUTATIVE	None	20669	None	None	156506968	156509257	-1	None	None
6	None	ENSG00000204422	ENST00000461287	protein_coding	PUTATIVE	None	None	192	63	31654739	31681849	-1	None	None
15	NEDD4	ENSG00000069869	ENST00000508871	protein_coding	NOVEL	None	7727	2732	909	56119120	56207852	-1	None	KIAA0093, MGC176705, NEDD4-1, RPF1
15	NEDD4	ENSG00000069869	ENST00000503468	nonsense_mediated_decay	KNOWN	None	7727	1204	400	56119120	56208667	-1	None	KIAA0093, MGC176705, NEDD4-1, RPF1
15	NEDD4	ENSG00000069869	ENST00000338963	protein_coding	KNOWN	CCDS10156	7727	3744	1247	56119120	56209329	-1	None	KIAA0093, MGC176705, NEDD4-1, RPF1
15	NEDD4	ENSG00000069869	ENST00000508342	protein_coding	KNOWN	None	7727	3960	1319	56119120	56209329	-1	None	KIAA0093, MGC176705, NEDD4-1, RPF1
15	NEDD4	ENSG00000069869	ENST00000435532	protein_coding	KNOWN	CCDS45265	7727	2703	900	56119120	56285944	-1	None	KIAA0093, MGC176705, NEDD4-1, RPF1
15	NEDD4	ENSG00000069869	ENST00000506154	protein_coding	KNOWN	None	7727	3912	1303	56119533	56209306	-1	None	KIAA0093, MGC176705, NEDD4-1, RPF1
15	NEDD4	ENSG00000069869	ENST00000502612	nonsense_mediated_decay	KNOWN	None	7727	119	38	56152913	56285746	-1	None	KIAA0093, MGC176705, NEDD4-1, RPF1
15	NEDD4	ENSG00000069869	ENST00000514893	processed_transcript	KNOWN	None	7727	None	None	56155181	56244943	-1	None	KIAA0093, MGC176705, NEDD4-1, RPF1
15	NEDD4	ENSG00000069869	ENST00000507063	nonsense_mediated_decay	KNOWN	None	7727	106	34	56155186	56243598	-1	None	KIAA0093, MGC176705, NEDD4-1, RPF1
15	NEDD4	ENSG00000069869	ENST00000513957	retained_intron	KNOWN	None	7727	None	None	56216561	56258744	-1	None	KIAA0093, MGC176705, NEDD4-1, RPF1
15	NEDD4	ENSG00000069869	ENST00000508075	processed_transcript	KNOWN	None	7727	None	None	56279407	56285800	-1	None	KIAA0093, MGC176705, NEDD4-1, RPF1
15	NEDD4	ENSG00000069869	ENST00000557845	processed_transcript	PUTATIVE	None	7727	None	None	56279929	56285811	-1	None	KIAA0093, MGC176705, NEDD4-1, RPF1
1	RYR2	ENSG00000198626	ENST00000366574	protein_coding	KNOWN	CCDS55691	10484	14904	4967	237205505	237997288	1	ARVD2	ARVC2, VTSIP
1	RYR2	ENSG00000198626	ENST00000466626	processed_transcript	KNOWN	None	10484	None	None	237963329	237965675	1	ARVD2	ARVC2, VTSIP
1	RYR2	ENSG00000198626	ENST00000462585	processed_transcript	KNOWN	None	10484	None	None	237993332	237996002	1	ARVD2	ARVC2, VTSIP
1	RYR2	ENSG00000198626	ENST00000360064	protein_coding	KNOWN	None	10484	14922	4973	237430900	237996058	1	ARVD2	ARVC2, VTSIP
1	RYR2	ENSG00000198626	ENST00000542537	protein_coding	KNOWN	None	10484	14856	4951	237433797	237997288	1	ARVD2	ARVC2, VTSIP
20	None	ENSG00000230133	ENST00000457274	lincRNA	KNOWN	None	None	None	None	24180403	24205224	1	None	None
3	TXNRD3NB	ENSG00000206483	ENST00000404489	protein_coding	KNOWN	CCDS33846	33870	402	133	126290632	126291479	-1	TXNRD3IT1	TR2IT1, TXNRD3NT1
3	TXNRD3NB	ENSG00000206483	ENST00000383572	protein_coding	KNOWN	CCDS33846	33870	402	133	126290625	126327398	-1	TXNRD3IT1	TR2IT1, TXNRD3NT1
10	CXCL12	ENSG00000107562	ENST00000374429	protein_coding	KNOWN	CCDS44373	10672	282	93	44865613	44880540	-1	SDF1A, SDF1B, SDF1	SCYB12, SDF-1a, SDF-1b, PBSF, TLSF-a, TLSF-b, TPAR1
10	CXCL12	ENSG00000107562	ENST00000395793	protein_coding	PUTATIVE	None	10672	312	103	44868070	44880540	-1	SDF1A, SDF1B, SDF1	SCYB12, SDF-1a, SDF-1b, PBSF, TLSF-a, TLSF-b, TPAR1
10	CXCL12	ENSG00000107562	ENST00000374426	protein_coding	KNOWN	CCDS31186	10672	360	119	44871315	44880491	-1	SDF1A, SDF1B, SDF1	SCYB12, SDF-1a, SDF-1b, PBSF, TLSF-a, TLSF-b, TPAR1
10	CXCL12	ENSG00000107562	ENST00000343575	protein_coding	KNOWN	CCDS7207	10672	270	89	44872581	44880540	-1	SDF1A, SDF1B, SDF1	SCYB12, SDF-1a, SDF-1b, PBSF, TLSF-a, TLSF-b, TPAR1
10	CXCL12	ENSG00000107562	ENST00000395794	protein_coding	PUTATIVE	CCDS53527	10672	423	140	44872612	44880497	-1	SDF1A, SDF1B, SDF1	SCYB12, SDF-1a, SDF-1b, PBSF, TLSF-a, TLSF-b, TPAR1
10	CXCL12	ENSG00000107562	ENST00000496375	processed_transcript	KNOWN	None	10672	None	None	44874005	44881941	-1	SDF1A, SDF1B, SDF1	SCYB12, SDF-1a, SDF-1b, PBSF, TLSF-a, TLSF-b, TPAR1
10	CXCL12	ENSG00000107562	ENST00000488591	retained_intron	KNOWN	None	10672	None	None	44875859	44880518	-1	SDF1A, SDF1B, SDF1	SCYB12, SDF-1a, SDF-1b, PBSF, TLSF-a, TLSF-b, TPAR1
10	CXCL12	ENSG00000107562	ENST00000395795	protein_coding	KNOWN	None	10672	273	90	44793038	44880497	-1	SDF1A, SDF1B, SDF1	SCYB12, SDF-1a, SDF-1b, PBSF, TLSF-a, TLSF-b, TPAR1
10	HOGA1	ENSG00000241935	ENST00000465608	retained_intron	KNOWN	None	25155	None	None	99344080	99360705	1	C10orf65, DHDPSL	FLJ37472, DHDPS2, NPL2
10	HOGA1	ENSG00000241935	ENST00000370647	protein_coding	KNOWN	CCDS44469	25155	495	164	99344100	99372559	1	C10orf65, DHDPSL	FLJ37472, DHDPS2, NPL2
10	HOGA1	ENSG00000241935	ENST00000370646	protein_coding	KNOWN	CCDS7467	25155	984	327	99344100	99372559	1	C10orf65, DHDPSL	FLJ37472, DHDPS2, NPL2
10	HOGA1	ENSG00000241935	ENST00000370642	protein_coding	PUTATIVE	None	25155	256	84	99359559	99361997	1	C10orf65, DHDPSL	FLJ37472, DHDPS2, NPL2
2	CYP20A1	ENSG00000119004	ENST00000356079	protein_coding	KNOWN	CCDS2357	20576	1389	462	204103663	204162068	1	None	CYP-M
2	CYP20A1	ENSG00000119004	ENST00000449301	nonsense_mediated_decay	KNOWN	None	20576	627	208	204103700	204161965	1	None	CYP-M
2	CYP20A1	ENSG00000119004	ENST00000461371	processed_transcript	KNOWN	None	20576	None	None	204103705	204161737	1	None	CYP-M
2	CYP20A1	ENSG00000119004	ENST00000429815	protein_coding	NOVEL	None	20576	1413	470	204103705	204161949	1	None	CYP-M
2	CYP20A1	ENSG00000119004	ENST00000463131	processed_transcript	KNOWN	None	20576	None	None	204103734	204150402	1	None	CYP-M
2	CYP20A1	ENSG00000119004	ENST00000428265	nonsense_mediated_decay	KNOWN	None	20576	135	44	204103744	204144838	1	None	CYP-M
2	CYP20A1	ENSG00000119004	ENST00000489360	processed_transcript	KNOWN	None	20576	None	None	204103744	204150455	1	None	CYP-M
2	CYP20A1	ENSG00000119004	ENST00000431118	nonsense_mediated_decay	KNOWN	None	20576	135	44	204103750	204163009	1	None	CYP-M
2	CYP20A1	ENSG00000119004	ENST00000443941	protein_coding	NOVEL	None	20576	776	257	204103758	204150455	1	None	CYP-M
4	ANKRD37	ENSG00000186352	ENST00000507479	processed_transcript	KNOWN	None	29593	None	None	186317175	186320182	1	None	Lrp2bp
4	ANKRD37	ENSG00000186352	ENST00000507753	protein_coding	KNOWN	None	29593	133	43	186317199	186318409	1	None	Lrp2bp
4	ANKRD37	ENSG00000186352	ENST00000335174	protein_coding	KNOWN	CCDS3841	29593	477	158	186317638	186321395	1	None	Lrp2bp
4	ANKRD37	ENSG00000186352	ENST00000511393	retained_intron	KNOWN	None	29593	None	None	186317965	186321782	1	None	Lrp2bp
4	ANKRD37	ENSG00000186352	ENST00000511311	retained_intron	KNOWN	None	29593	None	None	186317995	186318861	1	None	Lrp2bp
4	ANKRD37	ENSG00000186352	ENST00000506424	nonsense_mediated_decay	KNOWN	None	29593	231	76	186317995	186320897	1	None	Lrp2bp
3	CHCHD6	ENSG00000159685	ENST00000290913	protein_coding	KNOWN	CCDS3041	28184	708	235	126423063	126679249	1	None	MGC13016, PPP1R23, CHCM1
3	CHCHD6	ENSG00000159685	ENST00000503119	nonsense_mediated_decay	KNOWN	None	28184	423	140	126423083	126676676	1	None	MGC13016, PPP1R23, CHCM1
3	CHCHD6	ENSG00000159685	ENST00000508789	protein_coding	PUTATIVE	None	28184	771	256	126423084	126676776	1	None	MGC13016, PPP1R23, CHCM1
3	CHCHD6	ENSG00000159685	ENST00000514908	processed_transcript	KNOWN	None	28184	None	None	126423086	126654015	1	None	MGC13016, PPP1R23, CHCM1
3	CHCHD6	ENSG00000159685	ENST00000513253	protein_coding	KNOWN	None	28184	500	165	126449407	126679234	1	None	MGC13016, PPP1R23, CHCM1
3	CHCHD6	ENSG00000159685	ENST00000515867	processed_transcript	PUTATIVE	None	28184	None	None	126573707	126668722	1	None	MGC13016, PPP1R23, CHCM1
3	CHCHD6	ENSG00000159685	ENST00000504973	processed_transcript	KNOWN	None	28184	None	None	126653967	126679241	1	None	MGC13016, PPP1R23, CHCM1
3	CHCHD6	ENSG00000159685	ENST00000510044	processed_transcript	PUTATIVE	None	28184	None	None	126675853	126679249	1	None	MGC13016, PPP1R23, CHCM1
14	RCOR1	ENSG00000089902	ENST00000262241	protein_coding	KNOWN	CCDS9974	17441	1458	485	103058998	103196913	1	RCOR	COREST, KIAA0071
14	RCOR1	ENSG00000089902	ENST00000558495	retained_intron	KNOWN	None	17441	None	None	103177079	103180789	1	RCOR	COREST, KIAA0071
14	RCOR1	ENSG00000089902	ENST00000559597	retained_intron	KNOWN	None	17441	None	None	103187263	103187888	1	RCOR	COREST, KIAA0071
14	RCOR1	ENSG00000089902	ENST00000560472	nonsense_mediated_decay	KNOWN	None	17441	108	35	103187359	103192922	1	RCOR	COREST, KIAA0071
14	RCOR1	ENSG00000089902	ENST00000570597	protein_coding	KNOWN	None	17441	1449	482	103059233	103196912	1	RCOR	COREST, KIAA0071
6	LY6G6F	ENSG00000204424	ENST00000375832	protein_coding	KNOWN	CCDS34403	13933	894	297	31674662	31678372	1	LY6G6D, C6orf21	G6f, NG32
6	LY6G6F	ENSG00000204424	ENST00000556581	protein_coding	KNOWN	None	13933	1149	382	31674640	31685581	1	LY6G6D, C6orf21	G6f, NG32
1	SLC35D1	ENSG00000116704	ENST00000235345	protein_coding	KNOWN	CCDS636	20800	1068	355	67465015	67519782	-1	None	UGTREL7, KIAA0260
1	SLC35D1	ENSG00000116704	ENST00000506472	protein_coding	KNOWN	None	20800	783	260	67473197	67518730	-1	None	UGTREL7, KIAA0260
1	TTC24	ENSG00000187862	ENST00000368237	protein_coding	KNOWN	CCDS53379	32348	1749	582	156551157	156556562	1	None	None
1	TTC24	ENSG00000187862	ENST00000340086	protein_coding	KNOWN	None	32348	1067	354	156551839	156556562	1	None	None
1	TTC24	ENSG00000187862	ENST00000495690	processed_transcript	KNOWN	None	32348	None	None	156551852	156555836	1	None	None
1	TTC24	ENSG00000187862	ENST00000413282	protein_coding	KNOWN	None	32348	551	182	156552023	156555036	1	None	None
1	TTC24	ENSG00000187862	ENST00000478081	processed_transcript	KNOWN	None	32348	None	None	156552219	156555633	1	None	None
1	TTC24	ENSG00000187862	ENST00000462049	processed_transcript	PUTATIVE	None	32348	None	None	156554341	156555308	1	None	None
1	TTC24	ENSG00000187862	ENST00000368236	protein_coding	KNOWN	CCDS53379	32348	1749	582	156549519	156556562	1	None	None
X	TMEM47	ENSG00000147027	ENST00000275954	protein_coding	KNOWN	CCDS14235	18515	546	181	34645181	34675405	-1	TM4SF10	BCMP1, DKFZP761J17121, DKFZp564E153
15	CSK	ENSG00000103653	ENST00000220003	protein_coding	KNOWN	CCDS10269	2444	1353	450	75074398	75095539	1	None	None
15	CSK	ENSG00000103653	ENST00000439220	protein_coding	KNOWN	CCDS10269	2444	1353	450	75074430	75095223	1	None	None
15	CSK	ENSG00000103653	ENST00000563894	retained_intron	KNOWN	None	2444	None	None	75074845	75091392	1	None	None
15	CSK	ENSG00000103653	ENST00000567123	protein_coding	PUTATIVE	None	2444	205	67	75074933	75091812	1	None	None
15	CSK	ENSG00000103653	ENST00000569462	protein_coding	KNOWN	None	2444	332	109	75074946	75091702	1	None	None
15	CSK	ENSG00000103653	ENST00000567571	protein_coding	KNOWN	CCDS10269	2444	1353	450	75080885	75095512	1	None	None
15	CSK	ENSG00000103653	ENST00000569915	protein_coding	KNOWN	None	2444	194	63	75090255	75091231	1	None	None
15	CSK	ENSG00000103653	ENST00000562066	retained_intron	KNOWN	None	2444	None	None	75090777	75091739	1	None	None
15	CSK	ENSG00000103653	ENST00000568329	retained_intron	KNOWN	None	2444	None	None	75090993	75094930	1	None	None
15	CSK	ENSG00000103653	ENST00000567135	retained_intron	KNOWN	None	2444	None	None	75091519	75094164	1	None	None
15	CSK	ENSG00000103653	ENST00000564216	retained_intron	KNOWN	None	2444	None	None	75092816	75094898	1	None	None
15	CSK	ENSG00000103653	ENST00000566464	retained_intron	KNOWN	None	2444	None	None	75092830	75094070	1	None	None
15	CSK	ENSG00000103653	ENST00000569321	retained_intron	KNOWN	None	2444	None	None	75093193	75094371	1	None	None
15	CSK	ENSG00000103653	ENST00000563010	retained_intron	KNOWN	None	2444	None	None	75093971	75094938	1	None	None
15	CSK	ENSG00000103653	ENST00000309470	protein_coding	KNOWN	CCDS10269	2444	1353	450	75085385	75095512	1	None	None
1	ZP4	ENSG00000116996	ENST00000366570	protein_coding	KNOWN	CCDS1615	15770	1623	540	238045705	238054094	-1	None	ZPB
5	PDCD6	ENSG00000249915	ENST00000264933	protein_coding	KNOWN	CCDS3854	8765	576	191	271736	315089	1	None	ALG-2, PEF1B
5	PDCD6	ENSG00000249915	ENST00000515587	retained_intron	KNOWN	None	8765	None	None	271739	273482	1	None	ALG-2, PEF1B
5	PDCD6	ENSG00000249915	ENST00000513582	retained_intron	KNOWN	None	8765	None	None	271740	315084	1	None	ALG-2, PEF1B
5	PDCD6	ENSG00000249915	ENST00000505221	protein_coding	PUTATIVE	CCDS58941	8765	210	69	271762	314921	1	None	ALG-2, PEF1B
5	PDCD6	ENSG00000249915	ENST00000509581	protein_coding	PUTATIVE	None	8765	168	55	271772	277055	1	None	ALG-2, PEF1B
5	PDCD6	ENSG00000249915	ENST00000507528	protein_coding	NOVEL	CCDS58940	8765	570	189	271772	315084	1	None	ALG-2, PEF1B
5	PDCD6	ENSG00000249915	ENST00000505526	nonsense_mediated_decay	KNOWN	None	8765	120	39	271776	312526	1	None	ALG-2, PEF1B
5	PDCD6	ENSG00000249915	ENST00000506909	nonsense_mediated_decay	KNOWN	None	8765	222	73	271785	353971	1	None	ALG-2, PEF1B
5	PDCD6	ENSG00000249915	ENST00000507473	protein_coding	NOVEL	None	8765	315	104	272827	314801	1	None	ALG-2, PEF1B
5	PDCD6	ENSG00000249915	ENST00000511482	processed_transcript	KNOWN	None	8765	None	None	306796	315069	1	None	ALG-2, PEF1B
5	PDCD6	ENSG00000249915	ENST00000512466	retained_intron	KNOWN	None	8765	None	None	308312	315088	1	None	ALG-2, PEF1B
17	HEXDC	ENSG00000169660	ENST00000337014	protein_coding	KNOWN	CCDS42402	26307	1758	585	80376194	80400521	1	None	FLJ23825
17	HEXDC	ENSG00000169660	ENST00000583978	retained_intron	KNOWN	None	26307	None	None	80376549	80378298	1	None	FLJ23825
17	HEXDC	ENSG00000169660	ENST00000580235	protein_coding	PUTATIVE	None	26307	353	116	80376549	80393746	1	None	FLJ23825
17	HEXDC	ENSG00000169660	ENST00000582315	nonsense_mediated_decay	KNOWN	None	26307	144	47	80376566	80395123	1	None	FLJ23825
17	HEXDC	ENSG00000169660	ENST00000577944	protein_coding	NOVEL	None	26307	1635	544	80376573	80400517	1	None	FLJ23825
17	HEXDC	ENSG00000169660	ENST00000581482	nonsense_mediated_decay	KNOWN	None	26307	141	46	80376589	80393616	1	None	FLJ23825
17	HEXDC	ENSG00000169660	ENST00000327949	protein_coding	KNOWN	None	26307	1461	486	80377665	80400521	1	None	FLJ23825
17	HEXDC	ENSG00000169660	ENST00000578632	protein_coding	PUTATIVE	None	26307	235	77	80381186	80391627	1	None	FLJ23825
17	HEXDC	ENSG00000169660	ENST00000578775	nonsense_mediated_decay	KNOWN	None	26307	231	76	80382303	80395138	1	None	FLJ23825
17	HEXDC	ENSG00000169660	ENST00000582429	nonsense_mediated_decay	KNOWN	None	26307	1085	360	80391676	80400426	1	None	FLJ23825
17	HEXDC	ENSG00000169660	ENST00000578130	protein_coding	NOVEL	None	26307	645	214	80394605	80400468	1	None	FLJ23825
17	HEXDC	ENSG00000169660	ENST00000585077	retained_intron	KNOWN	None	26307	None	None	80395003	80398408	1	None	FLJ23825
17	HEXDC	ENSG00000169660	ENST00000578616	nonsense_mediated_decay	KNOWN	None	26307	267	88	80395091	80400270	1	None	FLJ23825
17	HEXDC	ENSG00000169660	ENST00000583354	nonsense_mediated_decay	KNOWN	None	26307	241	79	80397876	80399704	1	None	FLJ23825
17	HEXDC	ENSG00000169660	ENST00000582131	retained_intron	KNOWN	None	26307	None	None	80397990	80400228	1	None	FLJ23825
1	MTRNR2L11	ENSG00000270188	ENST00000604646	protein_coding	KNOWN	None	37168	75	24	238107024	238108575	-1	None	None
1	C1orf141	ENSG00000203963	ENST00000371007	protein_coding	KNOWN	CCDS30745	32044	1203	400	67557848	67697535	-1	None	None
1	C1orf141	ENSG00000203963	ENST00000371004	retained_intron	KNOWN	None	32044	None	None	67558078	67600653	-1	None	None
1	C1orf141	ENSG00000203963	ENST00000448166	protein_coding	NOVEL	None	32044	862	286	67559242	67697536	-1	None	None
1	C1orf141	ENSG00000203963	ENST00000603691	protein_coding	NOVEL	None	32044	585	194	67561979	67600660	-1	None	None
1	C1orf141	ENSG00000203963	ENST00000475209	nonsense_mediated_decay	KNOWN	None	32044	357	118	67568957	67600660	-1	None	None
1	C1orf141	ENSG00000203963	ENST00000371006	protein_coding	KNOWN	CCDS30745	32044	1203	400	67557859	67592944	-1	None	None
1	C1orf141	ENSG00000203963	ENST00000544837	protein_coding	KNOWN	CCDS30745	32044	1203	400	67558635	67600639	-1	None	None
1	APOA1BP	ENSG00000163382	ENST00000368234	protein_coding	KNOWN	None	18453	783	260	156561554	156563923	1	None	AIBP, MGC119143, MGC119144, MGC119145, YJEFN1
1	APOA1BP	ENSG00000163382	ENST00000368235	protein_coding	KNOWN	CCDS1145	18453	867	288	156561554	156564091	1	None	AIBP, MGC119143, MGC119144, MGC119145, YJEFN1
1	APOA1BP	ENSG00000163382	ENST00000368233	protein_coding	KNOWN	None	18453	738	245	156561570	156563668	1	None	AIBP, MGC119143, MGC119144, MGC119145, YJEFN1
1	APOA1BP	ENSG00000163382	ENST00000467374	processed_transcript	KNOWN	None	18453	None	None	156561684	156562816	1	None	AIBP, MGC119143, MGC119144, MGC119145, YJEFN1
1	APOA1BP	ENSG00000163382	ENST00000488840	processed_transcript	PUTATIVE	None	18453	None	None	156563067	156563921	1	None	AIBP, MGC119143, MGC119144, MGC119145, YJEFN1
1	CHRM3	ENSG00000133019	ENST00000468573	processed_transcript	KNOWN	None	1952	None	None	239549865	240049896	1	None	None
1	CHRM3	ENSG00000133019	ENST00000492335	processed_transcript	KNOWN	None	1952	None	None	239550220	239769507	1	None	None
1	CHRM3	ENSG00000133019	ENST00000481779	processed_transcript	KNOWN	None	1952	None	None	239571520	239709912	1	None	None
1	CHRM3	ENSG00000133019	ENST00000255380	protein_coding	KNOWN	CCDS1616	1952	1773	590	239792373	240078750	1	None	None
1	CHRM3	ENSG00000133019	ENST00000487470	processed_transcript	KNOWN	None	1952	None	None	239795551	239866949	1	None	None
1	CHRM3	ENSG00000133019	ENST00000448020	protein_coding	KNOWN	None	1952	329	108	239882843	240071080	1	None	None
19	CERS4	ENSG00000090661	ENST00000561008	protein_coding	KNOWN	None	23747	277	91	8271620	8319486	1	LASS4	FLJ12089, Trh1
19	CERS4	ENSG00000090661	ENST00000558268	protein_coding	KNOWN	None	23747	340	112	8274187	8320539	1	LASS4	FLJ12089, Trh1
19	CERS4	ENSG00000090661	ENST00000558331	protein_coding	PUTATIVE	None	23747	1032	343	8274197	8327294	1	LASS4	FLJ12089, Trh1
19	CERS4	ENSG00000090661	ENST00000561053	protein_coding	KNOWN	None	23747	409	135	8274210	8320608	1	LASS4	FLJ12089, Trh1
19	CERS4	ENSG00000090661	ENST00000559490	processed_transcript	KNOWN	None	23747	None	None	8274224	8306254	1	LASS4	FLJ12089, Trh1
19	CERS4	ENSG00000090661	ENST00000251363	protein_coding	KNOWN	CCDS12197	23747	1185	394	8274237	8327277	1	LASS4	FLJ12089, Trh1
19	CERS4	ENSG00000090661	ENST00000559450	protein_coding	KNOWN	CCDS12197	23747	1185	394	8274240	8327025	1	LASS4	FLJ12089, Trh1
19	CERS4	ENSG00000090661	ENST00000559336	protein_coding	NOVEL	None	23747	921	306	8274255	8327305	1	LASS4	FLJ12089, Trh1
19	CERS4	ENSG00000090661	ENST00000600912	processed_transcript	KNOWN	None	23747	None	None	8274260	8279413	1	LASS4	FLJ12089, Trh1
19	CERS4	ENSG00000090661	ENST00000595722	processed_transcript	KNOWN	None	23747	None	None	8274267	8327305	1	LASS4	FLJ12089, Trh1
19	CERS4	ENSG00000090661	ENST00000558501	retained_intron	KNOWN	None	23747	None	None	8274315	8322045	1	LASS4	FLJ12089, Trh1
19	CERS4	ENSG00000090661	ENST00000560412	protein_coding	KNOWN	None	23747	95	30	8274518	8316055	1	LASS4	FLJ12089, Trh1
19	CERS4	ENSG00000090661	ENST00000558877	protein_coding	KNOWN	None	23747	577	191	8289911	8321559	1	LASS4	FLJ12089, Trh1
19	CERS4	ENSG00000090661	ENST00000557925	retained_intron	KNOWN	None	23747	None	None	8315410	8327302	1	LASS4	FLJ12089, Trh1
19	CERS4	ENSG00000090661	ENST00000558302	processed_transcript	PUTATIVE	None	23747	None	None	8325881	8326663	1	LASS4	FLJ12089, Trh1
19	CERS4	ENSG00000090661	ENST00000599275	retained_intron	KNOWN	None	23747	None	None	8326511	8327305	1	LASS4	FLJ12089, Trh1
20	RNU1-23P	ENSG00000200231	ENST00000363361	snRNA	KNOWN	None	41964	None	None	24217891	24218034	1	None	None
16	TPSAB1	ENSG00000172236	ENST00000338844	protein_coding	KNOWN	CCDS10431	12019	828	275	1290697	1292555	1	TPSB1, TPS1, TPS2	None
16	TPSAB1	ENSG00000172236	ENST00000461509	protein_coding	PUTATIVE	None	12019	849	282	1290725	1292555	1	TPSB1, TPS1, TPS2	None
16	TPSAB1	ENSG00000172236	ENST00000562432	retained_intron	KNOWN	None	12019	None	None	1290939	1292094	1	TPSB1, TPS1, TPS2	None
16	TPSAB1	ENSG00000172236	ENST00000561736	protein_coding	NOVEL	None	12019	642	213	1291252	1292517	1	TPSB1, TPS1, TPS2	None
20	None	ENSG00000232200	ENST00000453921	lincRNA	KNOWN	None	None	None	None	24278221	24298722	-1	None	None
12	AAAS	ENSG00000094914	ENST00000209873	protein_coding	KNOWN	CCDS8856	13666	1641	546	53701240	53715415	-1	None	None
12	AAAS	ENSG00000094914	ENST00000552876	retained_intron	KNOWN	None	13666	None	None	53701241	53715041	-1	None	None
12	AAAS	ENSG00000094914	ENST00000394384	protein_coding	NOVEL	CCDS53797	13666	1542	513	53701243	53715380	-1	None	None
12	AAAS	ENSG00000094914	ENST00000550286	protein_coding	NOVEL	None	13666	1269	422	53701244	53718542	-1	None	None
12	AAAS	ENSG00000094914	ENST00000548931	protein_coding	PUTATIVE	None	13666	1075	357	53701274	53708599	-1	None	None
12	AAAS	ENSG00000094914	ENST00000550033	retained_intron	KNOWN	None	13666	None	None	53701522	53703449	-1	None	None
12	AAAS	ENSG00000094914	ENST00000547520	retained_intron	KNOWN	None	13666	None	None	53702531	53709027	-1	None	None
12	AAAS	ENSG00000094914	ENST00000546572	retained_intron	KNOWN	None	13666	None	None	53702746	53703646	-1	None	None
12	AAAS	ENSG00000094914	ENST00000546393	retained_intron	KNOWN	None	13666	None	None	53702941	53708911	-1	None	None
12	AAAS	ENSG00000094914	ENST00000547761	processed_transcript	KNOWN	None	13666	None	None	53702941	53715767	-1	None	None
12	AAAS	ENSG00000094914	ENST00000547757	protein_coding	PUTATIVE	None	13666	833	276	53702944	53715365	-1	None	None
12	AAAS	ENSG00000094914	ENST00000549983	processed_transcript	KNOWN	None	13666	None	None	53703039	53715400	-1	None	None
12	AAAS	ENSG00000094914	ENST00000547238	retained_intron	KNOWN	None	13666	None	None	53703434	53714992	-1	None	None
12	AAAS	ENSG00000094914	ENST00000549821	processed_transcript	KNOWN	None	13666	None	None	53708173	53715781	-1	None	None
12	AAAS	ENSG00000094914	ENST00000549450	processed_transcript	KNOWN	None	13666	None	None	53708184	53715041	-1	None	None
12	AAAS	ENSG00000094914	ENST00000548258	processed_transcript	KNOWN	None	13666	None	None	53708558	53718496	-1	None	None
12	AAAS	ENSG00000094914	ENST00000551724	processed_transcript	KNOWN	None	13666	None	None	53708578	53718648	-1	None	None
12	AAAS	ENSG00000094914	ENST00000552161	retained_intron	KNOWN	None	13666	None	None	53709028	53715344	-1	None	None
12	AAAS	ENSG00000094914	ENST00000546562	retained_intron	KNOWN	None	13666	None	None	53709208	53715394	-1	None	None
12	AAAS	ENSG00000094914	ENST00000548880	retained_intron	KNOWN	None	13666	None	None	53709336	53715344	-1	None	None
1	FMN2	ENSG00000155816	ENST00000447095	protein_coding	PUTATIVE	None	14074	686	227	240177648	240370487	1	None	None
1	FMN2	ENSG00000155816	ENST00000319653	protein_coding	KNOWN	CCDS31069	14074	5169	1722	240255180	240638489	1	None	None
1	FMN2	ENSG00000155816	ENST00000463398	processed_transcript	KNOWN	None	14074	None	None	240399071	240493976	1	None	None
1	FMN2	ENSG00000155816	ENST00000441342	protein_coding	PUTATIVE	None	14074	299	98	240408560	240492692	1	None	None
1	FMN2	ENSG00000155816	ENST00000496950	processed_transcript	KNOWN	None	14074	None	None	240635398	240638009	1	None	None
1	FMN2	ENSG00000155816	ENST00000545751	protein_coding	KNOWN	None	14074	957	318	240408591	240637857	1	None	None
1	FMN2	ENSG00000155816	ENST00000543681	protein_coding	KNOWN	None	14074	129	42	240620782	240637567	1	None	None
7	CAMK2B	ENSG00000058404	ENST00000350811	protein_coding	KNOWN	CCDS5484	1461	1629	542	44256749	44365095	-1	CAMKB	CAM2, CAMK2
7	CAMK2B	ENSG00000058404	ENST00000395749	protein_coding	KNOWN	CCDS5483	1461	2001	666	44256755	44365097	-1	CAMKB	CAM2, CAMK2
7	CAMK2B	ENSG00000058404	ENST00000523845	nonsense_mediated_decay	KNOWN	None	1461	339	112	44257158	44365074	-1	CAMKB	CAM2, CAMK2
7	CAMK2B	ENSG00000058404	ENST00000425809	protein_coding	NOVEL	None	1461	555	184	44258812	44265512	-1	CAMKB	CAM2, CAMK2
7	CAMK2B	ENSG00000058404	ENST00000440254	protein_coding	KNOWN	CCDS5484	1461	1629	542	44258891	44365255	-1	CAMKB	CAM2, CAMK2
7	CAMK2B	ENSG00000058404	ENST00000358707	protein_coding	KNOWN	CCDS5486	1461	1512	503	44258945	44365224	-1	CAMKB	CAM2, CAMK2
7	CAMK2B	ENSG00000058404	ENST00000466584	retained_intron	KNOWN	None	1461	None	None	44258948	44260552	-1	CAMKB	CAM2, CAMK2
7	CAMK2B	ENSG00000058404	ENST00000353625	protein_coding	KNOWN	CCDS5488	1461	1440	479	44258950	44365030	-1	CAMKB	CAM2, CAMK2
7	CAMK2B	ENSG00000058404	ENST00000497584	processed_transcript	KNOWN	None	1461	None	None	44258950	44374176	-1	CAMKB	CAM2, CAMK2
7	CAMK2B	ENSG00000058404	ENST00000489429	processed_transcript	KNOWN	None	1461	None	None	44258964	44269946	-1	CAMKB	CAM2, CAMK2
7	CAMK2B	ENSG00000058404	ENST00000353185	nonsense_mediated_decay	KNOWN	None	1461	1089	362	44259016	44365084	-1	CAMKB	CAM2, CAMK2
7	CAMK2B	ENSG00000058404	ENST00000347193	protein_coding	KNOWN	CCDS5487	1461	1479	492	44259029	44365023	-1	CAMKB	CAM2, CAMK2
7	CAMK2B	ENSG00000058404	ENST00000346990	protein_coding	KNOWN	CCDS5489	1461	1350	449	44259029	44365023	-1	CAMKB	CAM2, CAMK2
7	CAMK2B	ENSG00000058404	ENST00000258682	protein_coding	KNOWN	CCDS43573	1461	1554	517	44259029	44365023	-1	CAMKB	CAM2, CAMK2
7	CAMK2B	ENSG00000058404	ENST00000395747	protein_coding	KNOWN	CCDS5485	1461	1557	518	44259661	44365020	-1	CAMKB	CAM2, CAMK2
7	CAMK2B	ENSG00000058404	ENST00000433930	protein_coding	NOVEL	None	1461	552	183	44265434	44281905	-1	CAMKB	CAM2, CAMK2
7	CAMK2B	ENSG00000058404	ENST00000497127	processed_transcript	KNOWN	None	1461	None	None	44282850	44299180	-1	CAMKB	CAM2, CAMK2
7	CAMK2B	ENSG00000058404	ENST00000495819	processed_transcript	KNOWN	None	1461	None	None	44283055	44364789	-1	CAMKB	CAM2, CAMK2
7	CAMK2B	ENSG00000058404	ENST00000415369	protein_coding	PUTATIVE	None	1461	520	172	44283069	44363561	-1	CAMKB	CAM2, CAMK2
7	CAMK2B	ENSG00000058404	ENST00000424197	protein_coding	NOVEL	None	1461	505	167	44283072	44365073	-1	CAMKB	CAM2, CAMK2
7	CAMK2B	ENSG00000058404	ENST00000484972	processed_transcript	KNOWN	None	1461	None	None	44283084	44308424	-1	CAMKB	CAM2, CAMK2
7	CAMK2B	ENSG00000058404	ENST00000421607	protein_coding	NOVEL	None	1461	541	179	44284488	44365046	-1	CAMKB	CAM2, CAMK2
7	CAMK2B	ENSG00000058404	ENST00000462128	processed_transcript	KNOWN	None	1461	None	None	44286719	44307731	-1	CAMKB	CAM2, CAMK2
7	CAMK2B	ENSG00000058404	ENST00000470984	processed_transcript	KNOWN	None	1461	None	None	44286728	44365766	-1	CAMKB	CAM2, CAMK2
7	CAMK2B	ENSG00000058404	ENST00000427209	processed_transcript	KNOWN	None	1461	None	None	44302604	44365118	-1	CAMKB	CAM2, CAMK2
7	CAMK2B	ENSG00000058404	ENST00000457475	protein_coding	KNOWN	CCDS5485	1461	1557	518	44256749	44365230	-1	CAMKB	CAM2, CAMK2
7	CAMK2B	ENSG00000058404	ENST00000502837	protein_coding	KNOWN	None	1461	918	305	44257158	44365074	-1	CAMKB	CAM2, CAMK2
10	None	ENSG00000269515	ENST00000593376	protein_coding	NOVEL	None	None	78	25	44873687	44878739	1	None	None
9	DNAJB5	ENSG00000137094	ENST00000453597	protein_coding	PUTATIVE	CCDS47960	14887	1389	462	34989638	34998428	1	None	Hsc40
9	DNAJB5	ENSG00000137094	ENST00000538278	nonsense_mediated_decay	KNOWN	None	14887	173	56	34989691	34998428	1	None	Hsc40
9	DNAJB5	ENSG00000137094	ENST00000458263	nonsense_mediated_decay	KNOWN	None	14887	287	94	34989742	34993329	1	None	Hsc40
9	DNAJB5	ENSG00000137094	ENST00000537321	nonsense_mediated_decay	KNOWN	None	14887	290	95	34989742	34996667	1	None	Hsc40
9	DNAJB5	ENSG00000137094	ENST00000469798	nonsense_mediated_decay	KNOWN	None	14887	118	38	34989746	34997074	1	None	Hsc40
9	DNAJB5	ENSG00000137094	ENST00000541010	protein_coding	KNOWN	CCDS35007	14887	1047	348	34990219	34998425	1	None	Hsc40
9	DNAJB5	ENSG00000137094	ENST00000454002	protein_coding	KNOWN	CCDS47959	14887	1263	420	34990247	34998430	1	None	Hsc40
9	DNAJB5	ENSG00000137094	ENST00000545841	protein_coding	KNOWN	CCDS35007	14887	1047	348	34990263	34998897	1	None	Hsc40
9	DNAJB5	ENSG00000137094	ENST00000539059	protein_coding	PUTATIVE	None	14887	683	226	34991340	34996625	1	None	Hsc40
9	DNAJB5	ENSG00000137094	ENST00000443266	protein_coding	KNOWN	None	14887	466	154	34992869	34996516	1	None	Hsc40
9	DNAJB5	ENSG00000137094	ENST00000335998	protein_coding	KNOWN	None	14887	1149	382	34989725	34998418	1	None	Hsc40
9	DNAJB5	ENSG00000137094	ENST00000312316	protein_coding	KNOWN	CCDS35007	14887	1047	348	34989725	34998418	1	None	Hsc40
10	TMEM72	ENSG00000187783	ENST00000389583	protein_coding	NOVEL	CCDS41504	31658	828	275	45406648	45432450	1	C10orf127	bA285G1.3, KSP37
10	TMEM72	ENSG00000187783	ENST00000460364	retained_intron	KNOWN	None	31658	None	None	45427298	45430483	1	C10orf127	bA285G1.3, KSP37
10	TMEM72	ENSG00000187783	ENST00000544540	protein_coding	KNOWN	None	31658	474	157	45406764	45430642	1	C10orf127	bA285G1.3, KSP37
1	GPATCH4	ENSG00000160818	ENST00000368232	protein_coding	KNOWN	CCDS1146	25982	1113	370	156564279	156571275	-1	GPATC4	FLJ20249, DKFZP434F1735
1	GPATCH4	ENSG00000160818	ENST00000438976	protein_coding	KNOWN	CCDS44245	25982	1128	375	156565005	156571262	-1	GPATC4	FLJ20249, DKFZP434F1735
1	GPATCH4	ENSG00000160818	ENST00000415314	protein_coding	NOVEL	None	25982	794	263	156565237	156571282	-1	GPATC4	FLJ20249, DKFZP434F1735
1	GPATCH4	ENSG00000160818	ENST00000494414	retained_intron	KNOWN	None	25982	None	None	156565390	156567916	-1	GPATC4	FLJ20249, DKFZP434F1735
1	GPATCH4	ENSG00000160818	ENST00000497287	processed_transcript	KNOWN	None	25982	None	None	156565398	156568838	-1	GPATC4	FLJ20249, DKFZP434F1735
1	GPATCH4	ENSG00000160818	ENST00000463513	nonsense_mediated_decay	KNOWN	None	25982	360	119	156565459	156571254	-1	GPATC4	FLJ20249, DKFZP434F1735
1	GPATCH4	ENSG00000160818	ENST00000498641	retained_intron	KNOWN	None	25982	None	None	156565509	156566297	-1	GPATC4	FLJ20249, DKFZP434F1735
1	GPATCH4	ENSG00000160818	ENST00000529520	retained_intron	KNOWN	None	25982	None	None	156565512	156566294	-1	GPATC4	FLJ20249, DKFZP434F1735
1	GPATCH4	ENSG00000160818	ENST00000473910	retained_intron	KNOWN	None	25982	None	None	156565512	156571263	-1	GPATC4	FLJ20249, DKFZP434F1735
1	GPATCH4	ENSG00000160818	ENST00000531129	processed_transcript	KNOWN	None	25982	None	None	156565872	156571271	-1	GPATC4	FLJ20249, DKFZP434F1735
1	GPATCH4	ENSG00000160818	ENST00000474904	nonsense_mediated_decay	KNOWN	None	25982	432	143	156565873	156571262	-1	GPATC4	FLJ20249, DKFZP434F1735
1	GPATCH4	ENSG00000160818	ENST00000498756	retained_intron	KNOWN	None	25982	None	None	156566086	156571258	-1	GPATC4	FLJ20249, DKFZP434F1735
1	GPATCH4	ENSG00000160818	ENST00000506832	retained_intron	KNOWN	None	25982	None	None	156567260	156571271	-1	GPATC4	FLJ20249, DKFZP434F1735
1	GPATCH4	ENSG00000160818	ENST00000527691	retained_intron	KNOWN	None	25982	None	None	156567556	156571288	-1	GPATC4	FLJ20249, DKFZP434F1735
1	GPATCH4	ENSG00000160818	ENST00000531900	retained_intron	KNOWN	None	25982	None	None	156567732	156571262	-1	GPATC4	FLJ20249, DKFZP434F1735
1	GPATCH4	ENSG00000160818	ENST00000525375	retained_intron	KNOWN	None	25982	None	None	156568759	156571271	-1	GPATC4	FLJ20249, DKFZP434F1735
1	GPATCH4	ENSG00000160818	ENST00000334588	protein_coding	KNOWN	None	25982	420	139	156567602	156571264	-1	GPATC4	FLJ20249, DKFZP434F1735
20	GAPDHP53	ENSG00000234069	ENST00000458397	processed_pseudogene	KNOWN	None	38559	None	None	24426027	24426950	1	None	None
1	IL23R	ENSG00000162594	ENST00000347310	protein_coding	KNOWN	CCDS637	19100	1890	629	67632083	67725662	1	None	IL-23R
1	IL23R	ENSG00000162594	ENST00000425614	protein_coding	KNOWN	None	19100	1175	390	67673299	67724931	1	None	IL-23R
1	IL23R	ENSG00000162594	ENST00000473881	processed_transcript	KNOWN	None	19100	None	None	67673321	67725358	1	None	IL-23R
1	IL23R	ENSG00000162594	ENST00000371002	protein_coding	KNOWN	None	19100	1071	356	67632169	67725648	1	None	IL-23R
1	IL23R	ENSG00000162594	ENST00000395227	protein_coding	KNOWN	None	19100	1125	374	67673349	67725648	1	None	IL-23R
1	None	ENSG00000268365	ENST00000596886	protein_coding	NOVEL	None	None	69	22	240629183	240643504	-1	None	None
6	SYNJ2	ENSG00000078269	ENST00000355585	protein_coding	KNOWN	CCDS5254	11504	4491	1496	158402919	158520208	1	None	INPP5H
6	SYNJ2	ENSG00000078269	ENST00000367113	protein_coding	KNOWN	None	11504	410	135	158403070	158451529	1	None	INPP5H
6	SYNJ2	ENSG00000078269	ENST00000449320	protein_coding	KNOWN	None	11504	277	91	158438497	158450003	1	None	INPP5H
6	SYNJ2	ENSG00000078269	ENST00000485863	nonsense_mediated_decay	KNOWN	None	11504	497	164	158454522	158484904	1	None	INPP5H
6	SYNJ2	ENSG00000078269	ENST00000367112	protein_coding	KNOWN	None	11504	1746	581	158498712	158518886	1	None	INPP5H
6	SYNJ2	ENSG00000078269	ENST00000367122	protein_coding	KNOWN	None	11504	4356	1451	158402888	158520205	1	None	INPP5H
6	SYNJ2	ENSG00000078269	ENST00000367121	protein_coding	KNOWN	None	11504	3867	1288	158402888	158515042	1	None	INPP5H
6	SYNJ2	ENSG00000078269	ENST00000449859	protein_coding	KNOWN	None	11504	1551	516	158438497	158487956	1	None	INPP5H
1	GREM2	ENSG00000180875	ENST00000318160	protein_coding	KNOWN	CCDS31070	17655	507	168	240652873	240775449	-1	None	Prdc, FLJ21195, CKTSF1B2, DAND3
2	INO80B	ENSG00000115274	ENST00000233331	protein_coding	KNOWN	CCDS1942	13324	1071	356	74682150	74685087	1	HMGA1L4, ZNHIT4	HMGIYL4, PAPA-1, hIes2, PAP-1BP, IES2
2	INO80B	ENSG00000115274	ENST00000431187	protein_coding	NOVEL	None	13324	529	175	74682214	74684494	1	HMGA1L4, ZNHIT4	HMGIYL4, PAPA-1, hIes2, PAP-1BP, IES2
2	INO80B	ENSG00000115274	ENST00000452361	nonsense_mediated_decay	KNOWN	None	13324	1092	363	74682215	74688011	1	HMGA1L4, ZNHIT4	HMGIYL4, PAPA-1, hIes2, PAP-1BP, IES2
2	INO80B	ENSG00000115274	ENST00000494986	processed_transcript	KNOWN	None	13324	None	None	74682227	74684502	1	HMGA1L4, ZNHIT4	HMGIYL4, PAPA-1, hIes2, PAP-1BP, IES2
2	INO80B	ENSG00000115274	ENST00000441673	nonsense_mediated_decay	KNOWN	None	13324	792	263	74682227	74687973	1	HMGA1L4, ZNHIT4	HMGIYL4, PAPA-1, hIes2, PAP-1BP, IES2
2	INO80B	ENSG00000115274	ENST00000409917	protein_coding	PUTATIVE	None	13324	555	184	74682229	74684789	1	HMGA1L4, ZNHIT4	HMGIYL4, PAPA-1, hIes2, PAP-1BP, IES2
2	INO80B	ENSG00000115274	ENST00000471577	retained_intron	KNOWN	None	13324	None	None	74682235	74684498	1	HMGA1L4, ZNHIT4	HMGIYL4, PAPA-1, hIes2, PAP-1BP, IES2
2	INO80B	ENSG00000115274	ENST00000473618	retained_intron	KNOWN	None	13324	None	None	74682236	74684554	1	HMGA1L4, ZNHIT4	HMGIYL4, PAPA-1, hIes2, PAP-1BP, IES2
2	INO80B	ENSG00000115274	ENST00000409493	protein_coding	NOVEL	None	13324	622	206	74682243	74684527	1	HMGA1L4, ZNHIT4	HMGIYL4, PAPA-1, hIes2, PAP-1BP, IES2
2	INO80B	ENSG00000115274	ENST00000469849	processed_transcript	KNOWN	None	13324	None	None	74682244	74684802	1	HMGA1L4, ZNHIT4	HMGIYL4, PAPA-1, hIes2, PAP-1BP, IES2
2	INO80B	ENSG00000115274	ENST00000455562	nonsense_mediated_decay	KNOWN	None	13324	294	97	74682619	74684667	1	HMGA1L4, ZNHIT4	HMGIYL4, PAPA-1, hIes2, PAP-1BP, IES2
9	CERCAM	ENSG00000167123	ENST00000420034	protein_coding	KNOWN	None	23723	192	63	131174030	131185542	1	CEECAM1	GLT25D3, CerCAM
9	CERCAM	ENSG00000167123	ENST00000372842	protein_coding	KNOWN	None	23723	1554	517	131174045	131199626	1	CEECAM1	GLT25D3, CerCAM
9	CERCAM	ENSG00000167123	ENST00000447915	protein_coding	KNOWN	None	23723	328	108	131181393	131186552	1	CEECAM1	GLT25D3, CerCAM
9	CERCAM	ENSG00000167123	ENST00000420512	protein_coding	KNOWN	None	23723	654	217	131181886	131190702	1	CEECAM1	GLT25D3, CerCAM
9	CERCAM	ENSG00000167123	ENST00000372838	protein_coding	KNOWN	CCDS6901	23723	1788	595	131182759	131199626	1	CEECAM1	GLT25D3, CerCAM
9	CERCAM	ENSG00000167123	ENST00000493788	processed_transcript	KNOWN	None	23723	None	None	131182760	131183789	1	CEECAM1	GLT25D3, CerCAM
9	CERCAM	ENSG00000167123	ENST00000411852	protein_coding	KNOWN	None	23723	237	78	131182760	131186461	1	CEECAM1	GLT25D3, CerCAM
9	CERCAM	ENSG00000167123	ENST00000483737	retained_intron	KNOWN	None	23723	None	None	131185194	131186548	1	CEECAM1	GLT25D3, CerCAM
9	CERCAM	ENSG00000167123	ENST00000463535	retained_intron	KNOWN	None	23723	None	None	131186315	131196886	1	CEECAM1	GLT25D3, CerCAM
9	CERCAM	ENSG00000167123	ENST00000483893	processed_transcript	KNOWN	None	23723	None	None	131186485	131191102	1	CEECAM1	GLT25D3, CerCAM
9	CERCAM	ENSG00000167123	ENST00000487001	processed_transcript	KNOWN	None	23723	None	None	131186881	131198034	1	CEECAM1	GLT25D3, CerCAM
9	CERCAM	ENSG00000167123	ENST00000472858	processed_transcript	KNOWN	None	23723	None	None	131193024	131196473	1	CEECAM1	GLT25D3, CerCAM
2	ABI2	ENSG00000138443	ENST00000295851	protein_coding	KNOWN	None	24011	1542	513	204192942	204296896	1	None	ABI-2, AIP-1, ABI2B, AblBP3, argBPIA, SSH3BP2
2	ABI2	ENSG00000138443	ENST00000261017	protein_coding	NOVEL	CCDS2358	24011	1428	475	204193003	204296896	1	None	ABI-2, AIP-1, ABI2B, AblBP3, argBPIA, SSH3BP2
2	ABI2	ENSG00000138443	ENST00000447762	nonsense_mediated_decay	KNOWN	None	24011	228	75	204193005	204245029	1	None	ABI-2, AIP-1, ABI2B, AblBP3, argBPIA, SSH3BP2
2	ABI2	ENSG00000138443	ENST00000441061	nonsense_mediated_decay	KNOWN	None	24011	294	97	204193059	204292251	1	None	ABI-2, AIP-1, ABI2B, AblBP3, argBPIA, SSH3BP2
2	ABI2	ENSG00000138443	ENST00000416001	nonsense_mediated_decay	KNOWN	None	24011	264	87	204193114	204292292	1	None	ABI-2, AIP-1, ABI2B, AblBP3, argBPIA, SSH3BP2
2	ABI2	ENSG00000138443	ENST00000430418	protein_coding	NOVEL	None	24011	1377	458	204193115	204292251	1	None	ABI-2, AIP-1, ABI2B, AblBP3, argBPIA, SSH3BP2
2	ABI2	ENSG00000138443	ENST00000425253	nonsense_mediated_decay	KNOWN	None	24011	180	59	204193117	204231680	1	None	ABI-2, AIP-1, ABI2B, AblBP3, argBPIA, SSH3BP2
2	ABI2	ENSG00000138443	ENST00000413635	nonsense_mediated_decay	KNOWN	None	24011	162	53	204193118	204240855	1	None	ABI-2, AIP-1, ABI2B, AblBP3, argBPIA, SSH3BP2
2	ABI2	ENSG00000138443	ENST00000424558	protein_coding	NOVEL	None	24011	1524	507	204193118	204292671	1	None	ABI-2, AIP-1, ABI2B, AblBP3, argBPIA, SSH3BP2
2	ABI2	ENSG00000138443	ENST00000431886	nonsense_mediated_decay	KNOWN	None	24011	327	108	204193122	204245000	1	None	ABI-2, AIP-1, ABI2B, AblBP3, argBPIA, SSH3BP2
2	ABI2	ENSG00000138443	ENST00000444584	nonsense_mediated_decay	KNOWN	None	24011	135	44	204193128	204244996	1	None	ABI-2, AIP-1, ABI2B, AblBP3, argBPIA, SSH3BP2
2	ABI2	ENSG00000138443	ENST00000417864	protein_coding	NOVEL	None	24011	1459	485	204193130	204291992	1	None	ABI-2, AIP-1, ABI2B, AblBP3, argBPIA, SSH3BP2
2	ABI2	ENSG00000138443	ENST00000494215	retained_intron	KNOWN	None	24011	None	None	204193181	204232142	1	None	ABI-2, AIP-1, ABI2B, AblBP3, argBPIA, SSH3BP2
2	ABI2	ENSG00000138443	ENST00000376135	processed_transcript	KNOWN	None	24011	None	None	204193182	204248019	1	None	ABI-2, AIP-1, ABI2B, AblBP3, argBPIA, SSH3BP2
2	ABI2	ENSG00000138443	ENST00000422511	protein_coding	NOVEL	None	24011	1443	480	204193207	204293319	1	None	ABI-2, AIP-1, ABI2B, AblBP3, argBPIA, SSH3BP2
2	ABI2	ENSG00000138443	ENST00000411547	processed_transcript	KNOWN	None	24011	None	None	204244949	204267400	1	None	ABI-2, AIP-1, ABI2B, AblBP3, argBPIA, SSH3BP2
2	ABI2	ENSG00000138443	ENST00000430574	processed_transcript	KNOWN	None	24011	None	None	204244998	204281706	1	None	ABI-2, AIP-1, ABI2B, AblBP3, argBPIA, SSH3BP2
2	ABI2	ENSG00000138443	ENST00000451591	protein_coding	PUTATIVE	None	24011	603	200	204245031	204267457	1	None	ABI-2, AIP-1, ABI2B, AblBP3, argBPIA, SSH3BP2
2	ABI2	ENSG00000138443	ENST00000422719	processed_transcript	KNOWN	None	24011	None	None	204245081	204281695	1	None	ABI-2, AIP-1, ABI2B, AblBP3, argBPIA, SSH3BP2
2	ABI2	ENSG00000138443	ENST00000454023	protein_coding	PUTATIVE	None	24011	881	292	204255767	204292134	1	None	ABI-2, AIP-1, ABI2B, AblBP3, argBPIA, SSH3BP2
2	ABI2	ENSG00000138443	ENST00000416396	processed_transcript	KNOWN	None	24011	None	None	204259471	204291942	1	None	ABI-2, AIP-1, ABI2B, AblBP3, argBPIA, SSH3BP2
2	ABI2	ENSG00000138443	ENST00000464761	processed_transcript	KNOWN	None	24011	None	None	204267429	204301606	1	None	ABI-2, AIP-1, ABI2B, AblBP3, argBPIA, SSH3BP2
2	ABI2	ENSG00000138443	ENST00000261016	protein_coding	KNOWN	None	24011	1206	401	204193118	204292671	1	None	ABI-2, AIP-1, ABI2B, AblBP3, argBPIA, SSH3BP2
2	ABI2	ENSG00000138443	ENST00000261018	protein_coding	KNOWN	None	24011	900	299	204246898	204293365	1	None	ABI-2, AIP-1, ABI2B, AblBP3, argBPIA, SSH3BP2
1	HAPLN2	ENSG00000132702	ENST00000255039	protein_coding	KNOWN	CCDS1148	17410	1023	340	156589086	156595517	1	None	BRAL1
1	HAPLN2	ENSG00000132702	ENST00000487988	processed_transcript	KNOWN	None	17410	None	None	156589123	156593582	1	None	BRAL1
1	HAPLN2	ENSG00000132702	ENST00000456112	protein_coding	KNOWN	None	17410	556	184	156589216	156594259	1	None	BRAL1
1	HAPLN2	ENSG00000132702	ENST00000477201	processed_transcript	KNOWN	None	17410	None	None	156589229	156594938	1	None	BRAL1
1	HAPLN2	ENSG00000132702	ENST00000482204	processed_transcript	KNOWN	None	17410	None	None	156589238	156593706	1	None	BRAL1
1	HAPLN2	ENSG00000132702	ENST00000494218	processed_transcript	KNOWN	None	17410	None	None	156593856	156595327	1	None	BRAL1
14	TGFB3	ENSG00000119699	ENST00000554980	retained_intron	KNOWN	None	11769	None	None	76424442	76433065	-1	None	None
14	TGFB3	ENSG00000119699	ENST00000238682	protein_coding	KNOWN	CCDS9846	11769	1239	412	76424545	76447534	-1	None	None
14	TGFB3	ENSG00000119699	ENST00000556507	processed_transcript	PUTATIVE	None	11769	None	None	76425632	76427300	-1	None	None
14	TGFB3	ENSG00000119699	ENST00000557493	processed_transcript	KNOWN	None	11769	None	None	76427204	76437133	-1	None	None
14	TGFB3	ENSG00000119699	ENST00000556285	protein_coding	NOVEL	None	11769	930	309	76429405	76447336	-1	None	None
14	TGFB3	ENSG00000119699	ENST00000555193	processed_transcript	PUTATIVE	None	11769	None	None	76446919	76449179	-1	None	None
14	TGFB3	ENSG00000119699	ENST00000556674	processed_transcript	PUTATIVE	None	11769	None	None	76447586	76449334	-1	None	None
14	TRAF3	ENSG00000131323	ENST00000560371	protein_coding	KNOWN	CCDS9975	12033	1707	568	103243813	103377837	1	None	CAP-1, CD40bp, CRAF1, LAP1
14	TRAF3	ENSG00000131323	ENST00000392745	protein_coding	KNOWN	CCDS9975	12033	1707	568	103243894	103372598	1	None	CAP-1, CD40bp, CRAF1, LAP1
14	TRAF3	ENSG00000131323	ENST00000539721	protein_coding	KNOWN	CCDS55946	12033	1458	485	103243939	103372358	1	None	CAP-1, CD40bp, CRAF1, LAP1
14	TRAF3	ENSG00000131323	ENST00000560463	protein_coding	KNOWN	None	12033	282	93	103243955	103338290	1	None	CAP-1, CD40bp, CRAF1, LAP1
14	TRAF3	ENSG00000131323	ENST00000351691	protein_coding	KNOWN	CCDS9976	12033	1632	543	103296691	103372592	1	None	CAP-1, CD40bp, CRAF1, LAP1
14	TRAF3	ENSG00000131323	ENST00000558700	nonsense_mediated_decay	KNOWN	None	12033	624	207	103338264	103363644	1	None	CAP-1, CD40bp, CRAF1, LAP1
14	TRAF3	ENSG00000131323	ENST00000558880	retained_intron	KNOWN	None	12033	None	None	103342012	103343014	1	None	CAP-1, CD40bp, CRAF1, LAP1
14	TRAF3	ENSG00000131323	ENST00000559734	protein_coding	NOVEL	None	12033	870	289	103342024	103371800	1	None	CAP-1, CD40bp, CRAF1, LAP1
14	TRAF3	ENSG00000131323	ENST00000347662	protein_coding	KNOWN	CCDS9976	12033	1632	543	103243816	103372628	1	None	CAP-1, CD40bp, CRAF1, LAP1
X	FAM47B	ENSG00000189132	ENST00000329357	protein_coding	KNOWN	CCDS14236	26659	1938	645	34960913	34963034	1	None	FLJ35782
6	None	ENSG00000250641	ENST00000503322	protein_coding	PUTATIVE	None	None	1149	382	31674681	31685695	1	None	None
8	ENY2	ENSG00000120533	ENST00000522766	nonsense_mediated_decay	KNOWN	None	24449	156	51	110346553	110355853	1	None	DC6, FLJ20480
8	ENY2	ENSG00000120533	ENST00000521662	protein_coding	PUTATIVE	CCDS55270	24449	291	96	110346553	110355893	1	None	DC6, FLJ20480
8	ENY2	ENSG00000120533	ENST00000521688	protein_coding	KNOWN	CCDS43762	24449	306	101	110346553	110358181	1	None	DC6, FLJ20480
8	ENY2	ENSG00000120533	ENST00000517311	nonsense_mediated_decay	KNOWN	None	24449	171	56	110346555	110358182	1	None	DC6, FLJ20480
8	ENY2	ENSG00000120533	ENST00000339942	nonsense_mediated_decay	KNOWN	None	24449	147	48	110346568	110355899	1	None	DC6, FLJ20480
8	ENY2	ENSG00000120533	ENST00000520147	protein_coding	PUTATIVE	None	24449	303	100	110346573	110356084	1	None	DC6, FLJ20480
8	ENY2	ENSG00000120533	ENST00000519754	retained_intron	KNOWN	None	24449	None	None	110346575	110351975	1	None	DC6, FLJ20480
8	ENY2	ENSG00000120533	ENST00000522407	processed_transcript	KNOWN	None	24449	None	None	110346576	110355900	1	None	DC6, FLJ20480
8	ENY2	ENSG00000120533	ENST00000522632	retained_intron	KNOWN	None	24449	None	None	110346578	110348817	1	None	DC6, FLJ20480
8	ENY2	ENSG00000120533	ENST00000523335	nonsense_mediated_decay	KNOWN	None	24449	162	53	110346580	110356828	1	None	DC6, FLJ20480
8	ENY2	ENSG00000120533	ENST00000517756	processed_transcript	KNOWN	None	24449	None	None	110346597	110355894	1	None	DC6, FLJ20480
8	ENY2	ENSG00000120533	ENST00000518584	retained_intron	KNOWN	None	24449	None	None	110346606	110353037	1	None	DC6, FLJ20480
8	ENY2	ENSG00000120533	ENST00000517350	retained_intron	KNOWN	None	24449	None	None	110346610	110355813	1	None	DC6, FLJ20480
8	ENY2	ENSG00000120533	ENST00000523707	retained_intron	KNOWN	None	24449	None	None	110348155	110355900	1	None	DC6, FLJ20480
8	ENY2	ENSG00000120533	ENST00000521619	retained_intron	KNOWN	None	24449	None	None	110350571	110355893	1	None	DC6, FLJ20480
8	ENY2	ENSG00000120533	ENST00000518118	retained_intron	KNOWN	None	24449	None	None	110352594	110358181	1	None	DC6, FLJ20480
10	PI4K2A	ENSG00000155252	ENST00000370631	protein_coding	KNOWN	CCDS7469	30031	1440	479	99400443	99436191	1	None	PI4KII, DKFZP761G1923, PIK42A
10	PI4K2A	ENSG00000155252	ENST00000555577	protein_coding	KNOWN	None	30031	1350	449	99344131	99433667	1	None	PI4KII, DKFZP761G1923, PIK42A
12	PHLDA1	ENSG00000139289	ENST00000602540	protein_coding	PUTATIVE	None	8933	783	260	76419227	76425384	-1	None	TDAG51, DT1P1B11, PHRIP
12	PHLDA1	ENSG00000139289	ENST00000266671	protein_coding	KNOWN	CCDS31861	8933	1206	401	76419227	76427712	-1	None	TDAG51, DT1P1B11, PHRIP
20	None	ENSG00000228539	ENST00000458461	lincRNA	KNOWN	None	None	None	None	24472108	24482981	-1	None	None
1	IL12RB2	ENSG00000081985	ENST00000262345	protein_coding	KNOWN	CCDS638	5972	2589	862	67773047	67862583	1	None	None
1	IL12RB2	ENSG00000081985	ENST00000441640	protein_coding	KNOWN	None	5972	687	228	67792452	67804433	1	None	None
1	IL12RB2	ENSG00000081985	ENST00000465396	processed_transcript	KNOWN	None	5972	None	None	67845611	67861446	1	None	None
1	IL12RB2	ENSG00000081985	ENST00000544434	protein_coding	KNOWN	CCDS58007	5972	2331	776	67773637	67861830	1	None	None
1	IL12RB2	ENSG00000081985	ENST00000371000	protein_coding	KNOWN	CCDS58006	5972	1980	659	67773047	67862583	1	None	None
1	IL12RB2	ENSG00000081985	ENST00000541374	protein_coding	KNOWN	CCDS58006	5972	1980	659	67773556	67861518	1	None	None
1	BCAN	ENSG00000132692	ENST00000441358	protein_coding	KNOWN	None	23059	435	144	156611182	156616936	1	None	BEHAB, MGC13038, CSPG7
1	BCAN	ENSG00000132692	ENST00000329117	protein_coding	KNOWN	CCDS1149	23059	2736	911	156611740	156629315	1	None	BEHAB, MGC13038, CSPG7
1	BCAN	ENSG00000132692	ENST00000457777	protein_coding	KNOWN	None	23059	641	212	156611744	156617474	1	None	BEHAB, MGC13038, CSPG7
1	BCAN	ENSG00000132692	ENST00000424639	protein_coding	KNOWN	None	23059	694	230	156611922	156618590	1	None	BEHAB, MGC13038, CSPG7
1	BCAN	ENSG00000132692	ENST00000479949	processed_transcript	KNOWN	None	23059	None	None	156611924	156622470	1	None	BEHAB, MGC13038, CSPG7
1	BCAN	ENSG00000132692	ENST00000361588	protein_coding	KNOWN	CCDS1150	23059	2016	671	156612035	156623264	1	None	BEHAB, MGC13038, CSPG7
1	BCAN	ENSG00000132692	ENST00000491823	processed_transcript	KNOWN	None	23059	None	None	156616920	156621343	1	None	BEHAB, MGC13038, CSPG7
1	BCAN	ENSG00000132692	ENST00000496038	processed_transcript	KNOWN	None	23059	None	None	156626521	156629324	1	None	BEHAB, MGC13038, CSPG7
7	ZNHIT1	ENSG00000106400	ENST00000305105	protein_coding	KNOWN	CCDS5716	21688	465	154	100860949	100867471	1	ZNFN4A1	CG1I, H_DJ0747G18.14
7	ZNHIT1	ENSG00000106400	ENST00000461205	processed_transcript	KNOWN	None	21688	None	None	100861447	100867054	1	ZNFN4A1	CG1I, H_DJ0747G18.14
7	ZNHIT1	ENSG00000106400	ENST00000492315	processed_transcript	KNOWN	None	21688	None	None	100861462	100867239	1	ZNFN4A1	CG1I, H_DJ0747G18.14
7	ZNHIT1	ENSG00000106400	ENST00000485387	retained_intron	KNOWN	None	21688	None	None	100863662	100867471	1	ZNFN4A1	CG1I, H_DJ0747G18.14
19	PRX	ENSG00000105227	ENST00000291825	protein_coding	KNOWN	CCDS12556	13797	444	147	40899675	40919271	-1	None	KIAA1620
19	PRX	ENSG00000105227	ENST00000324001	protein_coding	KNOWN	CCDS33028	13797	4386	1461	40899675	40919273	-1	None	KIAA1620
19	PRX	ENSG00000105227	ENST00000599513	processed_transcript	KNOWN	None	13797	None	None	40913364	40914150	-1	None	KIAA1620
4	CENPC	ENSG00000145241	ENST00000273853	protein_coding	KNOWN	CCDS47063	1854	2832	943	68337521	68411324	-1	CENPC1	CENP-C, hcp-4, MIF2
4	CENPC	ENSG00000145241	ENST00000513216	nonsense_mediated_decay	KNOWN	None	1854	2187	728	68338195	68396584	-1	CENPC1	CENP-C, hcp-4, MIF2
4	CENPC	ENSG00000145241	ENST00000506882	nonsense_mediated_decay	KNOWN	None	1854	1629	542	68338200	68411201	-1	CENPC1	CENP-C, hcp-4, MIF2
4	CENPC	ENSG00000145241	ENST00000515140	nonsense_mediated_decay	KNOWN	None	1854	324	107	68340410	68360919	-1	CENPC1	CENP-C, hcp-4, MIF2
4	CENPC	ENSG00000145241	ENST00000510189	retained_intron	KNOWN	None	1854	None	None	68359123	68411221	-1	CENPC1	CENP-C, hcp-4, MIF2
4	CENPC	ENSG00000145241	ENST00000507196	retained_intron	KNOWN	None	1854	None	None	68370748	68374637	-1	CENPC1	CENP-C, hcp-4, MIF2
4	CENPC	ENSG00000145241	ENST00000506410	retained_intron	KNOWN	None	1854	None	None	68377768	68379963	-1	CENPC1	CENP-C, hcp-4, MIF2
20	None	ENSG00000231015	ENST00000432834	lincRNA	KNOWN	None	None	None	None	24660183	24661627	1	None	None
10	RASSF4	ENSG00000107551	ENST00000489171	retained_intron	KNOWN	None	20793	None	None	45454855	45490155	1	None	AD037, MGC44914
10	RASSF4	ENSG00000107551	ENST00000340258	protein_coding	KNOWN	CCDS7208	20793	966	321	45455240	45490172	1	None	AD037, MGC44914
10	RASSF4	ENSG00000107551	ENST00000427758	protein_coding	KNOWN	None	20793	454	150	45455279	45479561	1	None	AD037, MGC44914
10	RASSF4	ENSG00000107551	ENST00000483709	nonsense_mediated_decay	KNOWN	None	20793	150	49	45455287	45484822	1	None	AD037, MGC44914
10	RASSF4	ENSG00000107551	ENST00000462822	processed_transcript	KNOWN	None	20793	None	None	45465617	45479360	1	None	AD037, MGC44914
10	RASSF4	ENSG00000107551	ENST00000428466	protein_coding	KNOWN	None	20793	372	123	45465672	45478532	1	None	AD037, MGC44914
10	RASSF4	ENSG00000107551	ENST00000472561	processed_transcript	KNOWN	None	20793	None	None	45467242	45488878	1	None	AD037, MGC44914
10	RASSF4	ENSG00000107551	ENST00000465735	retained_intron	KNOWN	None	20793	None	None	45476487	45487408	1	None	AD037, MGC44914
10	RASSF4	ENSG00000107551	ENST00000471941	retained_intron	KNOWN	None	20793	None	None	45478476	45487408	1	None	AD037, MGC44914
10	RASSF4	ENSG00000107551	ENST00000471808	processed_transcript	KNOWN	None	20793	None	None	45480324	45486503	1	None	AD037, MGC44914
10	RASSF4	ENSG00000107551	ENST00000484477	retained_intron	KNOWN	None	20793	None	None	45484781	45486762	1	None	AD037, MGC44914
10	RASSF4	ENSG00000107551	ENST00000493490	retained_intron	KNOWN	None	20793	None	None	45485986	45487418	1	None	AD037, MGC44914
10	RASSF4	ENSG00000107551	ENST00000334940	protein_coding	KNOWN	None	20793	993	330	45455219	45490168	1	None	AD037, MGC44914
10	RASSF4	ENSG00000107551	ENST00000374417	protein_coding	KNOWN	None	20793	381	126	45455219	45490168	1	None	AD037, MGC44914
12	AQP2	ENSG00000167580	ENST00000551526	nonsense_mediated_decay	KNOWN	None	634	672	223	50344524	50352156	1	None	None
12	AQP2	ENSG00000167580	ENST00000199280	protein_coding	KNOWN	CCDS8792	634	816	271	50344529	50352664	1	None	None
12	AQP2	ENSG00000167580	ENST00000550862	protein_coding	PUTATIVE	None	634	732	243	50344537	50348493	1	None	None
4	UFSP2	ENSG00000109775	ENST00000514247	nonsense_mediated_decay	KNOWN	None	25640	264	87	186320694	186347133	-1	C4orf20	FLJ11200
4	UFSP2	ENSG00000109775	ENST00000264689	protein_coding	KNOWN	CCDS3842	25640	1410	469	186321443	186347139	-1	C4orf20	FLJ11200
4	UFSP2	ENSG00000109775	ENST00000510206	retained_intron	KNOWN	None	25640	None	None	186321469	186327322	-1	C4orf20	FLJ11200
4	UFSP2	ENSG00000109775	ENST00000510755	nonsense_mediated_decay	KNOWN	None	25640	1164	387	186321488	186347123	-1	C4orf20	FLJ11200
4	UFSP2	ENSG00000109775	ENST00000511485	protein_coding	PUTATIVE	None	25640	1105	367	186321492	186339667	-1	C4orf20	FLJ11200
4	UFSP2	ENSG00000109775	ENST00000509180	protein_coding	PUTATIVE	None	25640	592	196	186323416	186334896	-1	C4orf20	FLJ11200
4	UFSP2	ENSG00000109775	ENST00000502428	nonsense_mediated_decay	KNOWN	None	25640	339	112	186336438	186347084	-1	C4orf20	FLJ11200
4	UFSP2	ENSG00000109775	ENST00000502282	processed_transcript	KNOWN	None	25640	None	None	186336934	186343718	-1	C4orf20	FLJ11200
4	UFSP2	ENSG00000109775	ENST00000505357	protein_coding	PUTATIVE	None	25640	372	123	186336965	186347132	-1	C4orf20	FLJ11200
X	WAS	ENSG00000015285	ENST00000450772	protein_coding	KNOWN	None	12731	650	215	48534985	48545260	1	IMD2, THC	WASP
X	WAS	ENSG00000015285	ENST00000376701	protein_coding	KNOWN	CCDS14303	12731	1509	502	48542168	48549818	1	IMD2, THC	WASP
X	WAS	ENSG00000015285	ENST00000465982	processed_transcript	KNOWN	None	12731	None	None	48542208	48546526	1	IMD2, THC	WASP
X	WAS	ENSG00000015285	ENST00000483750	processed_transcript	KNOWN	None	12731	None	None	48542217	48546587	1	IMD2, THC	WASP
X	WAS	ENSG00000015285	ENST00000490627	processed_transcript	KNOWN	None	12731	None	None	48544168	48546535	1	IMD2, THC	WASP
X	WAS	ENSG00000015285	ENST00000474174	processed_transcript	KNOWN	None	12731	None	None	48546668	48547388	1	IMD2, THC	WASP
X	WAS	ENSG00000015285	ENST00000470107	processed_transcript	KNOWN	None	12731	None	None	48547409	48547983	1	IMD2, THC	WASP
17	TMEM88	ENSG00000167874	ENST00000301599	protein_coding	KNOWN	CCDS11121	32371	480	159	7758383	7759417	1	None	MGC71744, FLJ20025
17	TMEM88	ENSG00000167874	ENST00000574668	protein_coding	PUTATIVE	None	32371	381	126	7758384	7759379	1	None	MGC71744, FLJ20025
1	RGS7	ENSG00000182901	ENST00000440928	protein_coding	KNOWN	None	10003	981	326	240938815	241032095	-1	None	None
1	RGS7	ENSG00000182901	ENST00000348120	protein_coding	KNOWN	None	10003	1275	424	240938815	241519076	-1	None	None
1	RGS7	ENSG00000182901	ENST00000366563	protein_coding	KNOWN	None	10003	1434	477	240938815	241520215	-1	None	None
1	RGS7	ENSG00000182901	ENST00000366564	protein_coding	KNOWN	None	10003	1410	469	240938815	241520385	-1	None	None
1	RGS7	ENSG00000182901	ENST00000366565	protein_coding	KNOWN	CCDS31071	10003	1464	487	240938815	241520530	-1	None	None
1	RGS7	ENSG00000182901	ENST00000366562	protein_coding	KNOWN	None	10003	1410	469	240939463	241519076	-1	None	None
1	RGS7	ENSG00000182901	ENST00000407727	protein_coding	KNOWN	None	10003	1488	495	240963947	241519076	-1	None	None
1	RGS7	ENSG00000182901	ENST00000401882	protein_coding	KNOWN	None	10003	1275	424	240963947	241519076	-1	None	None
1	RGS7	ENSG00000182901	ENST00000331110	protein_coding	KNOWN	None	10003	1356	451	240931554	241307868	-1	None	None
1	RGS7	ENSG00000182901	ENST00000446183	protein_coding	KNOWN	None	10003	1182	393	240938960	241372018	-1	None	None
1	NES	ENSG00000132688	ENST00000368223	protein_coding	KNOWN	CCDS1151	7756	4866	1621	156638555	156647189	-1	None	FLJ21841
X	MOSPD1	ENSG00000101928	ENST00000370783	protein_coding	KNOWN	CCDS14645	25235	642	213	134021656	134049297	-1	None	dJ473B4
X	MOSPD1	ENSG00000101928	ENST00000491609	processed_transcript	KNOWN	None	25235	None	None	134022984	134049261	-1	None	dJ473B4
X	MOSPD1	ENSG00000101928	ENST00000370779	protein_coding	KNOWN	None	25235	480	159	134023045	134049257	-1	None	dJ473B4
X	MOSPD1	ENSG00000101928	ENST00000480721	processed_transcript	KNOWN	None	25235	None	None	134023047	134033564	-1	None	dJ473B4
X	MOSPD1	ENSG00000101928	ENST00000370777	protein_coding	KNOWN	None	25235	645	214	134023153	134033564	-1	None	dJ473B4
X	MOSPD1	ENSG00000101928	ENST00000489890	processed_transcript	KNOWN	None	25235	None	None	134030919	134049249	-1	None	dJ473B4
X	MOSPD1	ENSG00000101928	ENST00000462060	processed_transcript	KNOWN	None	25235	None	None	134033048	134049268	-1	None	dJ473B4
1	CRABP2	ENSG00000143320	ENST00000368222	protein_coding	KNOWN	CCDS1152	2339	417	138	156669398	156675393	-1	None	CRABP-II
1	CRABP2	ENSG00000143320	ENST00000368221	protein_coding	KNOWN	CCDS1152	2339	417	138	156669548	156675539	-1	None	CRABP-II
1	CRABP2	ENSG00000143320	ENST00000368220	protein_coding	KNOWN	None	2339	248	81	156670667	156675608	-1	None	CRABP-II
11	CLP1	ENSG00000172409	ENST00000529773	protein_coding	KNOWN	None	16999	276	91	57416465	57427224	1	None	HEAB, hClp1
11	CLP1	ENSG00000172409	ENST00000529430	protein_coding	PUTATIVE	None	16999	1311	436	57424488	57429321	1	None	HEAB, hClp1
11	CLP1	ENSG00000172409	ENST00000533682	protein_coding	KNOWN	CCDS7964	16999	1278	425	57424630	57429340	1	None	HEAB, hClp1
11	CLP1	ENSG00000172409	ENST00000533905	protein_coding	KNOWN	None	16999	397	131	57425224	57427345	1	None	HEAB, hClp1
11	CLP1	ENSG00000172409	ENST00000525602	protein_coding	KNOWN	CCDS7964	16999	1278	425	57425232	57428908	1	None	HEAB, hClp1
11	CLP1	ENSG00000172409	ENST00000302731	protein_coding	NOVEL	CCDS44600	16999	1086	361	57425235	57429336	1	None	HEAB, hClp1
6	LY6G6E	ENSG00000255552	ENST00000409239	protein_coding	PUTATIVE	None	13934	267	88	31679548	31681842	-1	C6orf22	G6e
6	LY6G6E	ENSG00000255552	ENST00000450147	protein_coding	KNOWN	None	13934	201	66	31680118	31681589	-1	C6orf22	G6e
6	LY6G6E	ENSG00000255552	ENST00000399142	protein_coding	KNOWN	None	13934	303	100	31680118	31681589	-1	C6orf22	G6e
6	LY6G6E	ENSG00000255552	ENST00000383418	protein_coding	KNOWN	None	13934	378	125	31680113	31681589	-1	C6orf22	G6e
1	SERBP1	ENSG00000142864	ENST00000370994	protein_coding	KNOWN	CCDS639	17860	1164	387	67873493	67896098	-1	None	PAI-RBP1, DKFZP564M2423, CGI-55, HABP4L, PAIRBP1, CHD3IP
1	SERBP1	ENSG00000142864	ENST00000370995	protein_coding	KNOWN	CCDS30746	17860	1227	408	67876721	67896069	-1	None	PAI-RBP1, DKFZP564M2423, CGI-55, HABP4L, PAIRBP1, CHD3IP
1	SERBP1	ENSG00000142864	ENST00000361219	protein_coding	KNOWN	CCDS30747	17860	1182	393	67878068	67896082	-1	None	PAI-RBP1, DKFZP564M2423, CGI-55, HABP4L, PAIRBP1, CHD3IP
1	SERBP1	ENSG00000142864	ENST00000370990	protein_coding	KNOWN	CCDS30748	17860	1209	402	67878550	67896055	-1	None	PAI-RBP1, DKFZP564M2423, CGI-55, HABP4L, PAIRBP1, CHD3IP
1	SERBP1	ENSG00000142864	ENST00000493607	processed_transcript	KNOWN	None	17860	None	None	67878899	67890097	-1	None	PAI-RBP1, DKFZP564M2423, CGI-55, HABP4L, PAIRBP1, CHD3IP
1	SERBP1	ENSG00000142864	ENST00000462814	processed_transcript	KNOWN	None	17860	None	None	67880956	67886248	-1	None	PAI-RBP1, DKFZP564M2423, CGI-55, HABP4L, PAIRBP1, CHD3IP
1	SERBP1	ENSG00000142864	ENST00000484880	processed_transcript	KNOWN	None	17860	None	None	67885448	67890803	-1	None	PAI-RBP1, DKFZP564M2423, CGI-55, HABP4L, PAIRBP1, CHD3IP
1	SERBP1	ENSG00000142864	ENST00000490406	processed_transcript	KNOWN	None	17860	None	None	67889968	67895340	-1	None	PAI-RBP1, DKFZP564M2423, CGI-55, HABP4L, PAIRBP1, CHD3IP
3	PLXNA1	ENSG00000114554	ENST00000393409	protein_coding	KNOWN	CCDS33847	9099	5691	1896	126707437	126756235	1	PLXN1	NOV
3	PLXNA1	ENSG00000114554	ENST00000503234	retained_intron	KNOWN	None	9099	None	None	126745228	126754422	1	PLXN1	NOV
3	PLXNA1	ENSG00000114554	ENST00000503363	retained_intron	KNOWN	None	9099	None	None	126747620	126748372	1	PLXN1	NOV
3	PLXNA1	ENSG00000114554	ENST00000505278	processed_transcript	KNOWN	None	9099	None	None	126750698	126752829	1	PLXN1	NOV
3	PLXNA1	ENSG00000114554	ENST00000251772	protein_coding	KNOWN	None	9099	5622	1873	126707437	126756235	1	PLXN1	NOV
1	ISG20L2	ENSG00000143319	ENST00000313146	protein_coding	KNOWN	CCDS1153	25745	1062	353	156691683	156698227	-1	None	FLJ12671
1	ISG20L2	ENSG00000143319	ENST00000472824	processed_transcript	KNOWN	None	25745	None	None	156691687	156695659	-1	None	FLJ12671
1	ISG20L2	ENSG00000143319	ENST00000368219	protein_coding	KNOWN	CCDS1153	25745	1062	353	156692395	156698591	-1	None	FLJ12671
1	ISG20L2	ENSG00000143319	ENST00000496538	processed_transcript	KNOWN	None	25745	None	None	156693750	156697178	-1	None	FLJ12671
1	ISG20L2	ENSG00000143319	ENST00000470713	processed_transcript	KNOWN	None	25745	None	None	156697003	156698221	-1	None	FLJ12671
1	ISG20L2	ENSG00000143319	ENST00000469074	processed_transcript	KNOWN	None	25745	None	None	156697034	156698233	-1	None	FLJ12671
17	LSMD1	ENSG00000183011	ENST00000575071	protein_coding	PUTATIVE	None	28212	252	83	7760003	7760880	-1	None	MGC14151, PFAAP2
17	LSMD1	ENSG00000183011	ENST00000333775	protein_coding	KNOWN	CCDS11122	28212	522	173	7760003	7761172	-1	None	MGC14151, PFAAP2
17	LSMD1	ENSG00000183011	ENST00000575771	protein_coding	PUTATIVE	None	28212	222	73	7760003	7761209	-1	None	MGC14151, PFAAP2
17	LSMD1	ENSG00000183011	ENST00000575208	protein_coding	PUTATIVE	None	28212	222	73	7760003	7761397	-1	None	MGC14151, PFAAP2
17	LSMD1	ENSG00000183011	ENST00000576861	protein_coding	PUTATIVE	None	28212	300	99	7760004	7788527	-1	None	MGC14151, PFAAP2
17	LSMD1	ENSG00000183011	ENST00000576384	protein_coding	PUTATIVE	None	28212	252	83	7760017	7760581	-1	None	MGC14151, PFAAP2
17	LSMD1	ENSG00000183011	ENST00000570555	processed_transcript	KNOWN	None	28212	None	None	7760881	7788556	-1	None	MGC14151, PFAAP2
17	LSMD1	ENSG00000183011	ENST00000335155	protein_coding	KNOWN	None	28212	378	125	7760049	7760781	-1	None	MGC14151, PFAAP2
1	FH	ENSG00000091483	ENST00000366560	protein_coding	KNOWN	CCDS1617	3700	1533	510	241660903	241683061	-1	None	fumarase
1	FH	ENSG00000091483	ENST00000497042	processed_transcript	KNOWN	None	3700	None	None	241675167	241676976	-1	None	fumarase
1	FH	ENSG00000091483	ENST00000493477	processed_transcript	KNOWN	None	3700	None	None	241676980	241682604	-1	None	fumarase
12	AQP5	ENSG00000161798	ENST00000293599	protein_coding	KNOWN	CCDS8793	638	798	265	50355653	50359464	1	None	None
12	AQP5	ENSG00000161798	ENST00000553132	retained_intron	KNOWN	None	638	None	None	50357358	50358998	1	None	None
5	SERINC5	ENSG00000164300	ENST00000509193	protein_coding	KNOWN	None	18825	1371	456	79407474	79551838	-1	C5orf12	TPO1
5	SERINC5	ENSG00000164300	ENST00000512972	protein_coding	PUTATIVE	None	18825	1254	417	79407474	79551838	-1	C5orf12	TPO1
5	SERINC5	ENSG00000164300	ENST00000512721	protein_coding	NOVEL	CCDS54874	18825	1386	461	79439446	79551898	-1	C5orf12	TPO1
5	SERINC5	ENSG00000164300	ENST00000502747	retained_intron	KNOWN	None	18825	None	None	79452817	79463003	-1	C5orf12	TPO1
5	SERINC5	ENSG00000164300	ENST00000513907	processed_transcript	KNOWN	None	18825	None	None	79473137	79551017	-1	C5orf12	TPO1
5	SERINC5	ENSG00000164300	ENST00000507668	protein_coding	KNOWN	CCDS54873	18825	1272	423	79407050	79551892	-1	C5orf12	TPO1
14	GPATCH2L	ENSG00000089916	ENST00000554375	nonsense_mediated_decay	KNOWN	None	20210	1098	365	76618259	76668350	1	C14orf118	FLJ20689, FLJ10033
14	GPATCH2L	ENSG00000089916	ENST00000557542	protein_coding	PUTATIVE	None	20210	318	105	76618262	76621024	1	C14orf118	FLJ20689, FLJ10033
14	GPATCH2L	ENSG00000089916	ENST00000556109	nonsense_mediated_decay	KNOWN	None	20210	318	105	76618262	76621321	1	C14orf118	FLJ20689, FLJ10033
14	GPATCH2L	ENSG00000089916	ENST00000557263	protein_coding	KNOWN	None	20210	1056	351	76618265	76640378	1	C14orf118	FLJ20689, FLJ10033
14	GPATCH2L	ENSG00000089916	ENST00000557207	protein_coding	PUTATIVE	None	20210	186	61	76618273	76619345	1	C14orf118	FLJ20689, FLJ10033
14	GPATCH2L	ENSG00000089916	ENST00000554125	retained_intron	KNOWN	None	20210	None	None	76618277	76646365	1	C14orf118	FLJ20689, FLJ10033
14	GPATCH2L	ENSG00000089916	ENST00000312858	protein_coding	KNOWN	CCDS9849	20210	1434	477	76618278	76669131	1	C14orf118	FLJ20689, FLJ10033
14	GPATCH2L	ENSG00000089916	ENST00000261530	protein_coding	KNOWN	CCDS9848	20210	1449	482	76618279	76680686	1	C14orf118	FLJ20689, FLJ10033
14	GPATCH2L	ENSG00000089916	ENST00000556663	protein_coding	KNOWN	None	20210	1056	351	76619989	76640378	1	C14orf118	FLJ20689, FLJ10033
14	GPATCH2L	ENSG00000089916	ENST00000554799	protein_coding	PUTATIVE	None	20210	165	54	76636939	76662330	1	C14orf118	FLJ20689, FLJ10033
14	GPATCH2L	ENSG00000089916	ENST00000553588	protein_coding	PUTATIVE	None	20210	303	100	76647125	76662928	1	C14orf118	FLJ20689, FLJ10033
14	GPATCH2L	ENSG00000089916	ENST00000556675	processed_transcript	KNOWN	None	20210	None	None	76647158	76701269	1	C14orf118	FLJ20689, FLJ10033
14	GPATCH2L	ENSG00000089916	ENST00000556372	protein_coding	PUTATIVE	None	20210	114	37	76662251	76720685	1	C14orf118	FLJ20689, FLJ10033
5	AHRR	ENSG00000063438	ENST00000505113	protein_coding	KNOWN	CCDS56355	346	2106	701	304291	434972	1	AHH, AHHR	KIAA1234, bHLHe77
5	AHRR	ENSG00000063438	ENST00000316418	protein_coding	KNOWN	CCDS43297	346	2160	719	304291	438406	1	AHH, AHHR	KIAA1234, bHLHe77
5	AHRR	ENSG00000063438	ENST00000512529	protein_coding	PUTATIVE	None	346	1644	547	304299	435008	1	AHH, AHHR	KIAA1234, bHLHe77
5	AHRR	ENSG00000063438	ENST00000514523	protein_coding	PUTATIVE	None	346	37	11	321874	422889	1	AHH, AHHR	KIAA1234, bHLHe77
5	AHRR	ENSG00000063438	ENST00000510400	protein_coding	PUTATIVE	None	346	473	156	322685	422875	1	AHH, AHHR	KIAA1234, bHLHe77
5	AHRR	ENSG00000063438	ENST00000515206	protein_coding	PUTATIVE	None	346	420	139	322755	368107	1	AHH, AHHR	KIAA1234, bHLHe77
5	AHRR	ENSG00000063438	ENST00000504625	protein_coding	PUTATIVE	None	346	244	80	343643	354026	1	AHH, AHHR	KIAA1234, bHLHe77
5	AHRR	ENSG00000063438	ENST00000506456	protein_coding	PUTATIVE	None	346	1674	557	421035	435225	1	AHH, AHHR	KIAA1234, bHLHe77
5	AHRR	ENSG00000063438	ENST00000510910	retained_intron	KNOWN	None	346	None	None	422492	424042	1	AHH, AHHR	KIAA1234, bHLHe77
5	AHRR	ENSG00000063438	ENST00000511487	protein_coding	PUTATIVE	None	346	646	214	428033	434524	1	AHH, AHHR	KIAA1234, bHLHe77
5	AHRR	ENSG00000063438	ENST00000507048	retained_intron	KNOWN	None	346	None	None	432140	435224	1	AHH, AHHR	KIAA1234, bHLHe77
1	RRNAD1	ENSG00000143303	ENST00000368218	protein_coding	KNOWN	CCDS44246	24273	834	277	156698234	156706741	1	C1orf66	CGI-41
1	RRNAD1	ENSG00000143303	ENST00000368216	protein_coding	KNOWN	CCDS1154	24273	1428	475	156698267	156706741	1	C1orf66	CGI-41
1	RRNAD1	ENSG00000143303	ENST00000519086	protein_coding	PUTATIVE	None	24273	1035	344	156698741	156704262	1	C1orf66	CGI-41
1	RRNAD1	ENSG00000143303	ENST00000524343	protein_coding	PUTATIVE	None	24273	285	94	156698752	156702786	1	C1orf66	CGI-41
1	RRNAD1	ENSG00000143303	ENST00000484742	protein_coding	PUTATIVE	None	24273	302	99	156699308	156703284	1	C1orf66	CGI-41
1	RRNAD1	ENSG00000143303	ENST00000476229	protein_coding	PUTATIVE	None	24273	465	154	156701817	156706741	1	C1orf66	CGI-41
1	RRNAD1	ENSG00000143303	ENST00000517871	retained_intron	KNOWN	None	24273	None	None	156702044	156703441	1	C1orf66	CGI-41
1	RRNAD1	ENSG00000143303	ENST00000522237	protein_coding	PUTATIVE	None	24273	416	137	156702177	156705592	1	C1orf66	CGI-41
1	RRNAD1	ENSG00000143303	ENST00000462397	processed_transcript	PUTATIVE	None	24273	None	None	156703264	156703933	1	C1orf66	CGI-41
1	RRNAD1	ENSG00000143303	ENST00000497515	processed_transcript	PUTATIVE	None	24273	None	None	156705414	156706752	1	C1orf66	CGI-41
1	RRNAD1	ENSG00000143303	ENST00000481920	processed_transcript	PUTATIVE	None	24273	None	None	156705950	156706694	1	C1orf66	CGI-41
1	GADD45A	ENSG00000116717	ENST00000370986	protein_coding	KNOWN	CCDS640	4095	498	165	68150744	68154021	1	DDIT1	GADD45
1	GADD45A	ENSG00000116717	ENST00000370985	protein_coding	PUTATIVE	CCDS55605	4095	396	131	68150884	68153570	1	DDIT1	GADD45
1	GADD45A	ENSG00000116717	ENST00000460575	processed_transcript	PUTATIVE	None	4095	None	None	68150912	68152271	1	DDIT1	GADD45
1	GADD45A	ENSG00000116717	ENST00000484245	processed_transcript	PUTATIVE	None	4095	None	None	68151359	68152269	1	DDIT1	GADD45
6	LY6G6D	ENSG00000244355	ENST00000375825	protein_coding	KNOWN	CCDS34404	13935	402	133	31683133	31685581	1	C6orf23	MEGT1, Ly6-D, G6D, LY6-D, NG25
6	LY6G6D	ENSG00000244355	ENST00000375824	protein_coding	PUTATIVE	None	13935	523	173	31683133	31685581	1	C6orf23	MEGT1, Ly6-D, G6D, LY6-D, NG25
6	LY6G6D	ENSG00000244355	ENST00000479334	retained_intron	KNOWN	None	13935	None	None	31683133	31685581	1	C6orf23	MEGT1, Ly6-D, G6D, LY6-D, NG25
3	TKT	ENSG00000163931	ENST00000462138	protein_coding	KNOWN	CCDS2871	11834	1872	623	53258723	53290047	-1	None	None
3	TKT	ENSG00000163931	ENST00000423525	protein_coding	KNOWN	CCDS2871	11834	1872	623	53258730	53290016	-1	None	None
3	TKT	ENSG00000163931	ENST00000460343	retained_intron	KNOWN	None	11834	None	None	53259668	53269623	-1	None	None
3	TKT	ENSG00000163931	ENST00000461139	processed_transcript	KNOWN	None	11834	None	None	53259673	53266315	-1	None	None
3	TKT	ENSG00000163931	ENST00000450814	nonsense_mediated_decay	KNOWN	None	11834	462	153	53259673	53290038	-1	None	None
3	TKT	ENSG00000163931	ENST00000423516	protein_coding	NOVEL	CCDS58834	11834	1896	631	53259673	53290038	-1	None	None
3	TKT	ENSG00000163931	ENST00000469678	nonsense_mediated_decay	KNOWN	None	11834	1005	334	53259718	53289990	-1	None	None
3	TKT	ENSG00000163931	ENST00000460243	retained_intron	KNOWN	None	11834	None	None	53262697	53263453	-1	None	None
3	TKT	ENSG00000163931	ENST00000472528	nonsense_mediated_decay	KNOWN	None	11834	246	81	53265470	53290003	-1	None	None
3	TKT	ENSG00000163931	ENST00000494523	retained_intron	KNOWN	None	11834	None	None	53265476	53269035	-1	None	None
3	TKT	ENSG00000163931	ENST00000466765	retained_intron	KNOWN	None	11834	None	None	53266776	53269176	-1	None	None
3	TKT	ENSG00000163931	ENST00000487660	retained_intron	KNOWN	None	11834	None	None	53268868	53276215	-1	None	None
3	TKT	ENSG00000163931	ENST00000483706	retained_intron	KNOWN	None	11834	None	None	53275911	53290068	-1	None	None
3	TKT	ENSG00000163931	ENST00000296289	protein_coding	KNOWN	None	11834	1731	576	53259675	53290038	-1	None	None
19	ZNF420	ENSG00000197050	ENST00000590332	protein_coding	PUTATIVE	None	20649	238	78	37498759	37618344	1	None	FLJ32191
19	ZNF420	ENSG00000197050	ENST00000587029	protein_coding	KNOWN	None	20649	264	87	37498761	37618157	1	None	FLJ32191
19	ZNF420	ENSG00000197050	ENST00000589461	nonsense_mediated_decay	KNOWN	None	20649	156	51	37569320	37618041	1	None	FLJ32191
19	ZNF420	ENSG00000197050	ENST00000587082	nonsense_mediated_decay	KNOWN	None	20649	144	47	37569335	37602589	1	None	FLJ32191
19	ZNF420	ENSG00000197050	ENST00000304239	protein_coding	PUTATIVE	None	20649	1611	536	37569337	37621212	1	None	FLJ32191
19	ZNF420	ENSG00000197050	ENST00000589245	protein_coding	KNOWN	None	20649	490	162	37569348	37618383	1	None	FLJ32191
19	ZNF420	ENSG00000197050	ENST00000337995	protein_coding	KNOWN	CCDS12498	20649	2067	688	37569382	37621213	1	None	FLJ32191
19	ZNF420	ENSG00000197050	ENST00000585862	protein_coding	PUTATIVE	None	20649	268	88	37619069	37621212	1	None	FLJ32191
19	ZNF420	ENSG00000197050	ENST00000586540	processed_transcript	KNOWN	None	20649	None	None	37619515	37621216	1	None	FLJ32191
1	GNG12	ENSG00000172380	ENST00000370982	protein_coding	KNOWN	CCDS30749	19663	219	72	68167149	68299150	-1	None	None
1	GNG12	ENSG00000172380	ENST00000494936	processed_transcript	KNOWN	None	19663	None	None	68242821	68299119	-1	None	None
1	DIRAS3	ENSG00000162595	ENST00000370981	protein_coding	KNOWN	CCDS641	687	690	229	68511645	68517314	-1	ARHI	NOEY2
1	DIRAS3	ENSG00000162595	ENST00000395201	protein_coding	KNOWN	CCDS641	687	690	229	68511647	68516460	-1	ARHI	NOEY2
X	MAGEB16	ENSG00000189023	ENST00000399988	protein_coding	KNOWN	CCDS43927	21188	975	324	35816459	35821852	1	None	None
X	MAGEB16	ENSG00000189023	ENST00000399992	protein_coding	KNOWN	None	21188	1071	356	35816459	35821852	1	None	None
X	MAGEB16	ENSG00000189023	ENST00000399987	protein_coding	KNOWN	CCDS43927	21188	975	324	35816459	35821852	1	None	None
X	MAGEB16	ENSG00000189023	ENST00000399989	protein_coding	KNOWN	CCDS43927	21188	975	324	35816459	35821852	1	None	None
X	MAGEB16	ENSG00000189023	ENST00000399985	protein_coding	KNOWN	CCDS43927	21188	975	324	35816908	35821852	1	None	None
16	TPSD1	ENSG00000095917	ENST00000397534	protein_coding	PUTATIVE	None	14118	708	235	1306060	1308532	1	None	None
16	TPSD1	ENSG00000095917	ENST00000211076	protein_coding	KNOWN	CCDS10432	14118	729	242	1306134	1308463	1	None	None
12	AQP6	ENSG00000086159	ENST00000489786	retained_intron	KNOWN	None	639	None	None	50360977	50370922	1	AQP2L	None
12	AQP6	ENSG00000086159	ENST00000551733	protein_coding	PUTATIVE	None	639	327	108	50361022	50369478	1	AQP2L	None
12	AQP6	ENSG00000086159	ENST00000315520	protein_coding	KNOWN	CCDS31798	639	849	282	50366620	50369666	1	AQP2L	None
17	C17orf62	ENSG00000178927	ENST00000342572	protein_coding	PUTATIVE	None	28672	192	63	80400465	80408646	-1	None	MGC4368, FLJ90469
17	C17orf62	ENSG00000178927	ENST00000536759	retained_intron	KNOWN	None	28672	None	None	80400519	80403062	-1	None	MGC4368, FLJ90469
17	C17orf62	ENSG00000178927	ENST00000306645	protein_coding	KNOWN	CCDS32776	28672	564	187	80400519	80408705	-1	None	MGC4368, FLJ90469
17	C17orf62	ENSG00000178927	ENST00000578895	retained_intron	KNOWN	None	28672	None	None	80400520	80405929	-1	None	MGC4368, FLJ90469
17	C17orf62	ENSG00000178927	ENST00000585044	retained_intron	KNOWN	None	28672	None	None	80400520	80407985	-1	None	MGC4368, FLJ90469
17	C17orf62	ENSG00000178927	ENST00000437807	protein_coding	KNOWN	CCDS32776	28672	564	187	80400520	80408585	-1	None	MGC4368, FLJ90469
17	C17orf62	ENSG00000178927	ENST00000584024	nonsense_mediated_decay	KNOWN	None	28672	243	80	80400520	80408652	-1	None	MGC4368, FLJ90469
17	C17orf62	ENSG00000178927	ENST00000434650	protein_coding	KNOWN	CCDS45817	28672	522	173	80400520	80408705	-1	None	MGC4368, FLJ90469
17	C17orf62	ENSG00000178927	ENST00000582438	protein_coding	PUTATIVE	None	28672	179	58	80400776	80402404	-1	None	MGC4368, FLJ90469
17	C17orf62	ENSG00000178927	ENST00000579751	protein_coding	PUTATIVE	None	28672	267	88	80401325	80403806	-1	None	MGC4368, FLJ90469
17	C17orf62	ENSG00000178927	ENST00000583617	protein_coding	PUTATIVE	None	28672	573	190	80401332	80408593	-1	None	MGC4368, FLJ90469
17	C17orf62	ENSG00000178927	ENST00000582725	nonsense_mediated_decay	KNOWN	None	28672	156	51	80401408	80407196	-1	None	MGC4368, FLJ90469
17	C17orf62	ENSG00000178927	ENST00000577436	protein_coding	KNOWN	CCDS45817	28672	522	173	80401536	80407481	-1	None	MGC4368, FLJ90469
17	C17orf62	ENSG00000178927	ENST00000585064	protein_coding	KNOWN	CCDS32776	28672	564	187	80401699	80408646	-1	None	MGC4368, FLJ90469
17	C17orf62	ENSG00000178927	ENST00000577732	protein_coding	KNOWN	CCDS32776	28672	564	187	80401725	80407602	-1	None	MGC4368, FLJ90469
17	C17orf62	ENSG00000178927	ENST00000578919	protein_coding	KNOWN	CCDS32776	28672	564	187	80401768	80408652	-1	None	MGC4368, FLJ90469
17	C17orf62	ENSG00000178927	ENST00000580560	processed_transcript	KNOWN	None	28672	None	None	80401778	80408604	-1	None	MGC4368, FLJ90469
17	C17orf62	ENSG00000178927	ENST00000581196	processed_transcript	KNOWN	None	28672	None	None	80401779	80408705	-1	None	MGC4368, FLJ90469
17	C17orf62	ENSG00000178927	ENST00000584503	processed_transcript	KNOWN	None	28672	None	None	80401813	80408613	-1	None	MGC4368, FLJ90469
17	C17orf62	ENSG00000178927	ENST00000585080	protein_coding	KNOWN	CCDS32776	28672	564	187	80401873	80408651	-1	None	MGC4368, FLJ90469
17	C17orf62	ENSG00000178927	ENST00000577888	nonsense_mediated_decay	KNOWN	None	28672	237	78	80401911	80408651	-1	None	MGC4368, FLJ90469
17	C17orf62	ENSG00000178927	ENST00000579444	retained_intron	KNOWN	None	28672	None	None	80401949	80405557	-1	None	MGC4368, FLJ90469
17	C17orf62	ENSG00000178927	ENST00000577707	retained_intron	KNOWN	None	28672	None	None	80402081	80408625	-1	None	MGC4368, FLJ90469
17	C17orf62	ENSG00000178927	ENST00000578913	protein_coding	PUTATIVE	None	28672	447	148	80402265	80408599	-1	None	MGC4368, FLJ90469
17	C17orf62	ENSG00000178927	ENST00000584891	processed_transcript	KNOWN	None	28672	None	None	80402341	80408626	-1	None	MGC4368, FLJ90469
17	C17orf62	ENSG00000178927	ENST00000584408	nonsense_mediated_decay	KNOWN	None	28672	237	78	80402347	80408619	-1	None	MGC4368, FLJ90469
17	C17orf62	ENSG00000178927	ENST00000577696	protein_coding	KNOWN	None	28672	392	129	80402374	80408584	-1	None	MGC4368, FLJ90469
17	C17orf62	ENSG00000178927	ENST00000577471	protein_coding	KNOWN	None	28672	359	118	80402407	80408584	-1	None	MGC4368, FLJ90469
17	C17orf62	ENSG00000178927	ENST00000577834	protein_coding	KNOWN	None	28672	353	116	80402413	80408618	-1	None	MGC4368, FLJ90469
17	C17orf62	ENSG00000178927	ENST00000578941	retained_intron	KNOWN	None	28672	None	None	80403127	80408705	-1	None	MGC4368, FLJ90469
17	C17orf62	ENSG00000178927	ENST00000578064	retained_intron	KNOWN	None	28672	None	None	80403339	80408625	-1	None	MGC4368, FLJ90469
17	C17orf62	ENSG00000178927	ENST00000582395	retained_intron	KNOWN	None	28672	None	None	80403381	80408610	-1	None	MGC4368, FLJ90469
17	C17orf62	ENSG00000178927	ENST00000582608	retained_intron	KNOWN	None	28672	None	None	80403434	80408619	-1	None	MGC4368, FLJ90469
17	C17orf62	ENSG00000178927	ENST00000582545	protein_coding	KNOWN	None	28672	256	84	80403740	80408584	-1	None	MGC4368, FLJ90469
17	C17orf62	ENSG00000178927	ENST00000583359	processed_transcript	KNOWN	None	28672	None	None	80403740	80408613	-1	None	MGC4368, FLJ90469
17	C17orf62	ENSG00000178927	ENST00000583778	retained_intron	KNOWN	None	28672	None	None	80406730	80408617	-1	None	MGC4368, FLJ90469
17	C17orf62	ENSG00000178927	ENST00000583242	processed_transcript	PUTATIVE	None	28672	None	None	80407308	80408650	-1	None	MGC4368, FLJ90469
17	C17orf62	ENSG00000178927	ENST00000585115	processed_transcript	PUTATIVE	None	28672	None	None	80407591	80408644	-1	None	MGC4368, FLJ90469
17	C17orf62	ENSG00000178927	ENST00000584791	processed_transcript	PUTATIVE	None	28672	None	None	80407631	80408610	-1	None	MGC4368, FLJ90469
17	C17orf62	ENSG00000178927	ENST00000582456	processed_transcript	PUTATIVE	None	28672	None	None	80407777	80408546	-1	None	MGC4368, FLJ90469
17	C17orf62	ENSG00000178927	ENST00000336995	protein_coding	KNOWN	None	28672	672	223	80400520	80408614	-1	None	MGC4368, FLJ90469
8	COX6C	ENSG00000164919	ENST00000522934	nonsense_mediated_decay	KNOWN	CCDS6284	2285	228	75	100885428	100905934	-1	None	None
8	COX6C	ENSG00000164919	ENST00000520517	nonsense_mediated_decay	KNOWN	CCDS6284	2285	228	75	100887224	100905935	-1	None	None
8	COX6C	ENSG00000164919	ENST00000520468	protein_coding	KNOWN	CCDS6284	2285	228	75	100890094	100906290	-1	None	None
8	COX6C	ENSG00000164919	ENST00000297564	protein_coding	KNOWN	CCDS6284	2285	228	75	100890376	100905912	-1	None	None
8	COX6C	ENSG00000164919	ENST00000606245	retained_intron	KNOWN	None	2285	None	None	100890377	100891022	-1	None	None
8	COX6C	ENSG00000164919	ENST00000520271	protein_coding	KNOWN	CCDS6284	2285	228	75	100890377	100905850	-1	None	None
8	COX6C	ENSG00000164919	ENST00000517682	protein_coding	KNOWN	CCDS6284	2285	228	75	100890377	100905909	-1	None	None
8	COX6C	ENSG00000164919	ENST00000524245	protein_coding	KNOWN	CCDS6284	2285	228	75	100890378	100905363	-1	None	None
8	COX6C	ENSG00000164919	ENST00000522940	protein_coding	KNOWN	CCDS6284	2285	228	75	100890379	100905851	-1	None	None
8	COX6C	ENSG00000164919	ENST00000518171	protein_coding	KNOWN	CCDS6284	2285	228	75	100898220	100905925	-1	None	None
8	COX6C	ENSG00000164919	ENST00000523016	protein_coding	KNOWN	CCDS6284	2285	228	75	100899289	100905908	-1	None	None
1	MRPL24	ENSG00000143314	ENST00000478899	processed_transcript	KNOWN	None	14037	None	None	156707095	156708019	-1	None	MRP-L18
1	MRPL24	ENSG00000143314	ENST00000361531	protein_coding	KNOWN	CCDS1155	14037	651	216	156707095	156710880	-1	None	MRP-L18
1	MRPL24	ENSG00000143314	ENST00000368211	protein_coding	KNOWN	CCDS1155	14037	651	216	156707097	156710923	-1	None	MRP-L18
1	MRPL24	ENSG00000143314	ENST00000434558	protein_coding	KNOWN	None	14037	519	172	156707322	156711382	-1	None	MRP-L18
1	MRPL24	ENSG00000143314	ENST00000412846	protein_coding	KNOWN	None	14037	296	97	156707910	156710880	-1	None	MRP-L18
1	MRPL24	ENSG00000143314	ENST00000420938	protein_coding	KNOWN	None	14037	204	67	156708210	156710354	-1	None	MRP-L18
16	EARS2	ENSG00000103356	ENST00000563459	protein_coding	KNOWN	CCDS42132	29419	1572	523	23533338	23568671	-1	None	KIAA1970, MSE1
16	EARS2	ENSG00000103356	ENST00000564987	processed_transcript	KNOWN	None	29419	None	None	23533945	23562163	-1	None	KIAA1970, MSE1
16	EARS2	ENSG00000103356	ENST00000564776	processed_transcript	PUTATIVE	None	29419	None	None	23534358	23535405	-1	None	KIAA1970, MSE1
16	EARS2	ENSG00000103356	ENST00000564759	processed_transcript	KNOWN	None	29419	None	None	23534368	23534966	-1	None	KIAA1970, MSE1
16	EARS2	ENSG00000103356	ENST00000564501	protein_coding	NOVEL	None	29419	1521	506	23536341	23569052	-1	None	KIAA1970, MSE1
16	EARS2	ENSG00000103356	ENST00000563232	protein_coding	NOVEL	None	29419	1605	534	23536345	23568665	-1	None	KIAA1970, MSE1
16	EARS2	ENSG00000103356	ENST00000565344	retained_intron	KNOWN	None	29419	None	None	23543868	23546539	-1	None	KIAA1970, MSE1
16	EARS2	ENSG00000103356	ENST00000562402	retained_intron	KNOWN	None	29419	None	None	23544069	23546770	-1	None	KIAA1970, MSE1
16	EARS2	ENSG00000103356	ENST00000566017	processed_transcript	PUTATIVE	None	29419	None	None	23546595	23556583	-1	None	KIAA1970, MSE1
16	EARS2	ENSG00000103356	ENST00000564668	nonsense_mediated_decay	KNOWN	None	29419	300	99	23546641	23568685	-1	None	KIAA1970, MSE1
16	EARS2	ENSG00000103356	ENST00000564461	processed_transcript	PUTATIVE	None	29419	None	None	23555829	23568375	-1	None	KIAA1970, MSE1
16	EARS2	ENSG00000103356	ENST00000562581	nonsense_mediated_decay	KNOWN	None	29419	165	54	23555835	23568674	-1	None	KIAA1970, MSE1
16	EARS2	ENSG00000103356	ENST00000561859	processed_transcript	KNOWN	None	29419	None	None	23555862	23568671	-1	None	KIAA1970, MSE1
16	EARS2	ENSG00000103356	ENST00000564997	nonsense_mediated_decay	KNOWN	None	29419	240	79	23555886	23568685	-1	None	KIAA1970, MSE1
16	EARS2	ENSG00000103356	ENST00000563499	nonsense_mediated_decay	KNOWN	None	29419	339	112	23563513	23568676	-1	None	KIAA1970, MSE1
16	EARS2	ENSG00000103356	ENST00000562799	retained_intron	KNOWN	None	29419	None	None	23563528	23568671	-1	None	KIAA1970, MSE1
16	EARS2	ENSG00000103356	ENST00000449606	protein_coding	KNOWN	CCDS42132	29419	1572	523	23533335	23568696	-1	None	KIAA1970, MSE1
1	KMO	ENSG00000117009	ENST00000366558	protein_coding	KNOWN	None	6381	1422	473	241695434	241755590	1	None	None
1	KMO	ENSG00000117009	ENST00000366559	protein_coding	KNOWN	CCDS1618	6381	1461	486	241695434	241758944	1	None	None
1	KMO	ENSG00000117009	ENST00000484628	processed_transcript	KNOWN	None	6381	None	None	241695638	241725564	1	None	None
1	KMO	ENSG00000117009	ENST00000480967	processed_transcript	KNOWN	None	6381	None	None	241695669	241725583	1	None	None
1	KMO	ENSG00000117009	ENST00000484229	processed_transcript	KNOWN	None	6381	None	None	241695679	241713387	1	None	None
1	KMO	ENSG00000117009	ENST00000477907	processed_transcript	KNOWN	None	6381	None	None	241695701	241729875	1	None	None
1	KMO	ENSG00000117009	ENST00000366557	protein_coding	KNOWN	None	6381	1359	452	241695705	241758944	1	None	None
1	KMO	ENSG00000117009	ENST00000481087	processed_transcript	KNOWN	None	6381	None	None	241712962	241719101	1	None	None
1	KMO	ENSG00000117009	ENST00000431245	processed_transcript	KNOWN	None	6381	None	None	241725353	241750038	1	None	None
1	KMO	ENSG00000117009	ENST00000366555	protein_coding	KNOWN	None	6381	547	181	241731935	241756761	1	None	None
15	FURIN	ENSG00000140564	ENST00000268171	protein_coding	KNOWN	CCDS10364	8568	2385	794	91411822	91426688	1	PCSK3, FUR, PACE	SPC1
15	FURIN	ENSG00000140564	ENST00000559353	protein_coding	KNOWN	None	8568	207	68	91416108	91419514	1	PCSK3, FUR, PACE	SPC1
15	FURIN	ENSG00000140564	ENST00000560824	protein_coding	NOVEL	None	8568	527	174	91418918	91420396	1	PCSK3, FUR, PACE	SPC1
15	FURIN	ENSG00000140564	ENST00000558794	nonsense_mediated_decay	KNOWN	None	8568	651	216	91421424	91423986	1	PCSK3, FUR, PACE	SPC1
15	FURIN	ENSG00000140564	ENST00000560018	retained_intron	KNOWN	None	8568	None	None	91422814	91423326	1	PCSK3, FUR, PACE	SPC1
11	ZDHHC5	ENSG00000156599	ENST00000527985	protein_coding	KNOWN	None	18472	1989	662	57435219	57467835	1	None	KIAA1748, ZNF375
11	ZDHHC5	ENSG00000156599	ENST00000287169	protein_coding	KNOWN	CCDS7965	18472	2148	715	57435368	57468659	1	None	KIAA1748, ZNF375
11	ZDHHC5	ENSG00000156599	ENST00000528177	protein_coding	PUTATIVE	None	18472	414	137	57435577	57460142	1	None	KIAA1748, ZNF375
11	ZDHHC5	ENSG00000156599	ENST00000524540	processed_transcript	KNOWN	None	18472	None	None	57435764	57439890	1	None	KIAA1748, ZNF375
11	ZDHHC5	ENSG00000156599	ENST00000527090	processed_transcript	KNOWN	None	18472	None	None	57435922	57439885	1	None	KIAA1748, ZNF375
11	ZDHHC5	ENSG00000156599	ENST00000532842	protein_coding	PUTATIVE	None	18472	309	102	57440616	57457864	1	None	KIAA1748, ZNF375
11	ZDHHC5	ENSG00000156599	ENST00000529480	retained_intron	KNOWN	None	18472	None	None	57448951	57468654	1	None	KIAA1748, ZNF375
11	ZDHHC5	ENSG00000156599	ENST00000529447	protein_coding	NOVEL	None	18472	901	299	57450012	57466307	1	None	KIAA1748, ZNF375
12	None	ENSG00000268640	ENST00000594563	protein_coding	NOVEL	None	None	129	42	147052	147377	1	None	None
19	SERTAD1	ENSG00000197019	ENST00000357949	protein_coding	KNOWN	CCDS12557	17932	711	236	40927499	40931932	-1	None	SEI1, TRIP-Br1
10	DHTKD1	ENSG00000181192	ENST00000263035	protein_coding	KNOWN	CCDS7087	23537	2760	919	12110971	12165224	1	None	KIAA1630, MGC3090, DKFZP762M115
10	DHTKD1	ENSG00000181192	ENST00000437298	protein_coding	KNOWN	None	23537	923	306	12111023	12133642	1	None	KIAA1630, MGC3090, DKFZP762M115
10	DHTKD1	ENSG00000181192	ENST00000465617	processed_transcript	KNOWN	None	23537	None	None	12123523	12139957	1	None	KIAA1630, MGC3090, DKFZP762M115
10	DHTKD1	ENSG00000181192	ENST00000415935	protein_coding	KNOWN	None	23537	482	159	12131174	12136300	1	None	KIAA1630, MGC3090, DKFZP762M115
10	DHTKD1	ENSG00000181192	ENST00000448829	protein_coding	KNOWN	None	23537	643	213	12136259	12155028	1	None	KIAA1630, MGC3090, DKFZP762M115
10	DHTKD1	ENSG00000181192	ENST00000479283	retained_intron	KNOWN	None	23537	None	None	12160778	12162358	1	None	KIAA1630, MGC3090, DKFZP762M115
1	HDGF	ENSG00000143321	ENST00000357325	protein_coding	KNOWN	CCDS1156	4856	723	240	156711899	156721536	-1	None	HMG1L2
1	HDGF	ENSG00000143321	ENST00000368209	protein_coding	KNOWN	CCDS44248	4856	702	233	156711902	156722025	-1	None	HMG1L2
1	HDGF	ENSG00000143321	ENST00000465180	processed_transcript	KNOWN	None	4856	None	None	156712318	156736717	-1	None	HMG1L2
1	HDGF	ENSG00000143321	ENST00000482651	processed_transcript	KNOWN	None	4856	None	None	156712948	156717263	-1	None	HMG1L2
1	HDGF	ENSG00000143321	ENST00000477306	processed_transcript	PUTATIVE	None	4856	None	None	156713099	156714068	-1	None	HMG1L2
1	HDGF	ENSG00000143321	ENST00000368206	protein_coding	KNOWN	CCDS44247	4856	771	256	156713137	156722240	-1	None	HMG1L2
1	HDGF	ENSG00000143321	ENST00000469145	processed_transcript	KNOWN	None	4856	None	None	156713501	156721336	-1	None	HMG1L2
1	HDGF	ENSG00000143321	ENST00000471377	processed_transcript	KNOWN	None	4856	None	None	156713595	156722064	-1	None	HMG1L2
1	HDGF	ENSG00000143321	ENST00000495212	processed_transcript	KNOWN	None	4856	None	None	156713633	156721288	-1	None	HMG1L2
1	HDGF	ENSG00000143321	ENST00000537739	protein_coding	KNOWN	CCDS1156	4856	723	240	156711902	156721390	-1	None	HMG1L2
1	HDGF	ENSG00000143321	ENST00000416666	protein_coding	KNOWN	None	4856	627	208	156712630	156721085	-1	None	HMG1L2
7	TRIM74	ENSG00000155428	ENST00000395244	protein_coding	KNOWN	None	17453	750	249	72430016	72437484	-1	TRIM50C	MGC45440
7	TRIM74	ENSG00000155428	ENST00000285805	protein_coding	KNOWN	CCDS5545	17453	753	250	72430016	72439997	-1	TRIM50C	MGC45440
14	AMN	ENSG00000166126	ENST00000299155	protein_coding	KNOWN	CCDS9977	14604	1362	453	103388993	103397529	1	None	amnionless
14	AMN	ENSG00000166126	ENST00000541086	retained_intron	KNOWN	None	14604	None	None	103389259	103397178	1	None	amnionless
14	AMN	ENSG00000166126	ENST00000558590	retained_intron	KNOWN	None	14604	None	None	103394982	103399933	1	None	amnionless
14	AMN	ENSG00000166126	ENST00000559442	retained_intron	KNOWN	None	14604	None	None	103395029	103395812	1	None	amnionless
14	AMN	ENSG00000166126	ENST00000559525	protein_coding	NOVEL	None	14604	320	105	103395146	103395812	1	None	amnionless
14	AMN	ENSG00000166126	ENST00000559789	protein_coding	NOVEL	None	14604	393	130	103395167	103396928	1	None	amnionless
14	AMN	ENSG00000166126	ENST00000559507	retained_intron	KNOWN	None	14604	None	None	103396444	103396956	1	None	amnionless
X	SMIM10	ENSG00000184785	ENST00000330288	protein_coding	KNOWN	CCDS55502	41913	252	83	134124968	134126501	1	CXorf69	None
2	RAPH1	ENSG00000173166	ENST00000457812	protein_coding	PUTATIVE	None	14436	1785	594	204259068	204399985	-1	ALS2CR9, ALS2CR18	KIAA1681
2	RAPH1	ENSG00000173166	ENST00000319170	protein_coding	KNOWN	CCDS2359	14436	3753	1250	204298405	204400133	-1	ALS2CR9, ALS2CR18	KIAA1681
2	RAPH1	ENSG00000173166	ENST00000374493	protein_coding	KNOWN	None	14436	3909	1302	204304160	204360076	-1	ALS2CR9, ALS2CR18	KIAA1681
2	RAPH1	ENSG00000173166	ENST00000308091	protein_coding	KNOWN	CCDS2360	14436	1935	644	204306196	204400058	-1	ALS2CR9, ALS2CR18	KIAA1681
2	RAPH1	ENSG00000173166	ENST00000439222	protein_coding	KNOWN	None	14436	1854	617	204306801	204360076	-1	ALS2CR9, ALS2CR18	KIAA1681
2	RAPH1	ENSG00000173166	ENST00000419464	protein_coding	KNOWN	None	14436	1779	592	204306801	204360076	-1	ALS2CR9, ALS2CR18	KIAA1681
2	RAPH1	ENSG00000173166	ENST00000423104	protein_coding	KNOWN	None	14436	1860	619	204306801	204360076	-1	ALS2CR9, ALS2CR18	KIAA1681
2	RAPH1	ENSG00000173166	ENST00000453034	protein_coding	KNOWN	None	14436	1950	649	204309354	204400058	-1	ALS2CR9, ALS2CR18	KIAA1681
2	RAPH1	ENSG00000173166	ENST00000418114	protein_coding	KNOWN	None	14436	1794	597	204309573	204360076	-1	ALS2CR9, ALS2CR18	KIAA1681
2	RAPH1	ENSG00000173166	ENST00000428637	protein_coding	KNOWN	None	14436	516	171	204354523	204398156	-1	ALS2CR9, ALS2CR18	KIAA1681
2	RAPH1	ENSG00000173166	ENST00000420371	protein_coding	KNOWN	None	14436	267	88	204354769	204400058	-1	ALS2CR9, ALS2CR18	KIAA1681
2	RAPH1	ENSG00000173166	ENST00000465669	retained_intron	KNOWN	None	14436	None	None	204359886	204400002	-1	ALS2CR9, ALS2CR18	KIAA1681
2	RAPH1	ENSG00000173166	ENST00000374489	protein_coding	KNOWN	None	14436	1860	619	204306194	204400058	-1	ALS2CR9, ALS2CR18	KIAA1681
2	RAPH1	ENSG00000173166	ENST00000374488	protein_coding	KNOWN	None	14436	1854	617	204306194	204400058	-1	ALS2CR9, ALS2CR18	KIAA1681
14	NIN	ENSG00000100503	ENST00000476352	nonsense_mediated_decay	KNOWN	None	14906	5970	1989	51186538	51297764	-1	None	None
14	NIN	ENSG00000100503	ENST00000530997	protein_coding	KNOWN	None	14906	6402	2133	51188215	51288774	-1	None	None
14	NIN	ENSG00000100503	ENST00000555984	retained_intron	KNOWN	None	14906	None	None	51190136	51193132	-1	None	None
14	NIN	ENSG00000100503	ENST00000382043	protein_coding	KNOWN	CCDS32078	14906	4134	1377	51192545	51297197	-1	None	None
14	NIN	ENSG00000100503	ENST00000389869	protein_coding	PUTATIVE	None	14906	4744	1580	51192546	51233513	-1	None	None
14	NIN	ENSG00000100503	ENST00000382041	protein_coding	KNOWN	CCDS32079	14906	6273	2090	51192558	51297839	-1	None	None
14	NIN	ENSG00000100503	ENST00000530853	protein_coding	PUTATIVE	None	14906	4612	1536	51193951	51233513	-1	None	None
14	NIN	ENSG00000100503	ENST00000485005	nonsense_mediated_decay	KNOWN	None	14906	423	140	51194407	51206106	-1	None	None
14	NIN	ENSG00000100503	ENST00000480476	retained_intron	KNOWN	None	14906	None	None	51206090	51209103	-1	None	None
14	NIN	ENSG00000100503	ENST00000453401	protein_coding	PUTATIVE	None	14906	1190	395	51237236	51297839	-1	None	None
14	NIN	ENSG00000100503	ENST00000474937	retained_intron	KNOWN	None	14906	None	None	51238704	51239716	-1	None	None
14	NIN	ENSG00000100503	ENST00000486950	protein_coding	PUTATIVE	None	14906	350	115	51258764	51288674	-1	None	None
14	NIN	ENSG00000100503	ENST00000486200	processed_transcript	KNOWN	None	14906	None	None	51258768	51261236	-1	None	None
14	NIN	ENSG00000100503	ENST00000496749	protein_coding	KNOWN	None	14906	303	100	51259562	51297426	-1	None	None
14	NIN	ENSG00000100503	ENST00000463419	retained_intron	KNOWN	None	14906	None	None	51272635	51297392	-1	None	None
14	NIN	ENSG00000100503	ENST00000245441	protein_coding	KNOWN	None	14906	6402	2133	51186481	51297839	-1	None	None
14	NIN	ENSG00000100503	ENST00000453196	protein_coding	KNOWN	None	14906	6141	2046	51193954	51297839	-1	None	None
14	NIN	ENSG00000100503	ENST00000389868	protein_coding	KNOWN	None	14906	3831	1276	51186481	51297839	-1	None	None
14	NIN	ENSG00000100503	ENST00000324330	protein_coding	KNOWN	None	14906	5970	1989	51192590	51297839	-1	None	None
1	OPN3	ENSG00000054277	ENST00000462265	processed_transcript	KNOWN	None	14007	None	None	241753404	241764480	-1	ECPN	ERO, NMO-1, encephalopsin
1	OPN3	ENSG00000054277	ENST00000366554	protein_coding	KNOWN	CCDS31072	14007	1209	402	241756426	241803663	-1	ECPN	ERO, NMO-1, encephalopsin
1	OPN3	ENSG00000054277	ENST00000469376	processed_transcript	KNOWN	None	14007	None	None	241756904	241803642	-1	ECPN	ERO, NMO-1, encephalopsin
1	OPN3	ENSG00000054277	ENST00000490673	processed_transcript	KNOWN	None	14007	None	None	241756904	241803657	-1	ECPN	ERO, NMO-1, encephalopsin
1	OPN3	ENSG00000054277	ENST00000463155	processed_transcript	KNOWN	None	14007	None	None	241757514	241840678	-1	ECPN	ERO, NMO-1, encephalopsin
1	OPN3	ENSG00000054277	ENST00000478849	processed_transcript	KNOWN	None	14007	None	None	241757900	241803512	-1	ECPN	ERO, NMO-1, encephalopsin
1	OPN3	ENSG00000054277	ENST00000331838	protein_coding	KNOWN	None	14007	972	323	241756452	241803701	-1	ECPN	ERO, NMO-1, encephalopsin
X	FAM127C	ENSG00000212747	ENST00000391440	protein_coding	KNOWN	CCDS43996	33156	342	113	134154543	134156559	-1	None	MAR8B, CXX1c
1	WLS	ENSG00000116729	ENST00000354777	protein_coding	KNOWN	CCDS30750	30238	1632	543	68564156	68698228	-1	C1orf139, GPR177	FLJ23091, MRP, wls, EVI, mig-14
1	WLS	ENSG00000116729	ENST00000262348	protein_coding	KNOWN	CCDS642	30238	1626	541	68591041	68698236	-1	C1orf139, GPR177	FLJ23091, MRP, wls, EVI, mig-14
1	WLS	ENSG00000116729	ENST00000370976	protein_coding	NOVEL	CCDS53331	30238	1353	450	68591175	68698227	-1	C1orf139, GPR177	FLJ23091, MRP, wls, EVI, mig-14
1	WLS	ENSG00000116729	ENST00000498615	processed_transcript	KNOWN	None	30238	None	None	68591657	68603845	-1	C1orf139, GPR177	FLJ23091, MRP, wls, EVI, mig-14
1	WLS	ENSG00000116729	ENST00000491811	processed_transcript	KNOWN	None	30238	None	None	68608287	68620867	-1	C1orf139, GPR177	FLJ23091, MRP, wls, EVI, mig-14
1	WLS	ENSG00000116729	ENST00000497187	processed_transcript	KNOWN	None	30238	None	None	68614250	68642060	-1	C1orf139, GPR177	FLJ23091, MRP, wls, EVI, mig-14
1	WLS	ENSG00000116729	ENST00000534713	protein_coding	PUTATIVE	None	30238	600	199	68615951	68697963	-1	C1orf139, GPR177	FLJ23091, MRP, wls, EVI, mig-14
1	WLS	ENSG00000116729	ENST00000533537	protein_coding	PUTATIVE	None	30238	404	133	68619200	68697370	-1	C1orf139, GPR177	FLJ23091, MRP, wls, EVI, mig-14
1	WLS	ENSG00000116729	ENST00000530486	protein_coding	PUTATIVE	None	30238	668	221	68619200	68698701	-1	C1orf139, GPR177	FLJ23091, MRP, wls, EVI, mig-14
1	WLS	ENSG00000116729	ENST00000370973	protein_coding	PUTATIVE	None	30238	367	121	68619237	68698206	-1	C1orf139, GPR177	FLJ23091, MRP, wls, EVI, mig-14
1	WLS	ENSG00000116729	ENST00000471243	protein_coding	PUTATIVE	None	30238	458	151	68620855	68698803	-1	C1orf139, GPR177	FLJ23091, MRP, wls, EVI, mig-14
1	WLS	ENSG00000116729	ENST00000491076	nonsense_mediated_decay	KNOWN	None	30238	117	38	68620926	68698204	-1	C1orf139, GPR177	FLJ23091, MRP, wls, EVI, mig-14
1	WLS	ENSG00000116729	ENST00000527864	nonsense_mediated_decay	KNOWN	None	30238	458	151	68624867	68697508	-1	C1orf139, GPR177	FLJ23091, MRP, wls, EVI, mig-14
1	WLS	ENSG00000116729	ENST00000370971	protein_coding	PUTATIVE	None	30238	384	127	68659541	68698206	-1	C1orf139, GPR177	FLJ23091, MRP, wls, EVI, mig-14
1	WLS	ENSG00000116729	ENST00000540432	protein_coding	KNOWN	None	30238	1638	545	68564142	68698266	-1	C1orf139, GPR177	FLJ23091, MRP, wls, EVI, mig-14
19	SERTAD3	ENSG00000167565	ENST00000392028	protein_coding	KNOWN	CCDS12558	17931	591	196	40946751	40948505	-1	None	RBT1
19	SERTAD3	ENSG00000167565	ENST00000322354	protein_coding	KNOWN	CCDS12558	17931	591	196	40946751	40950612	-1	None	RBT1
19	SERTAD3	ENSG00000167565	ENST00000601217	processed_transcript	KNOWN	None	17931	None	None	40946754	40947292	-1	None	RBT1
19	SERTAD3	ENSG00000167565	ENST00000599706	protein_coding	KNOWN	None	17931	533	176	40947455	40949969	-1	None	RBT1
19	SERTAD3	ENSG00000167565	ENST00000596456	protein_coding	KNOWN	None	17931	275	90	40947713	40950182	-1	None	RBT1
6	TBX18	ENSG00000112837	ENST00000330469	retained_intron	KNOWN	None	11595	None	None	85397069	85398465	-1	None	None
6	TBX18	ENSG00000112837	ENST00000606784	protein_coding	PUTATIVE	None	11595	699	232	85397091	85473171	-1	None	None
6	TBX18	ENSG00000112837	ENST00000369663	protein_coding	KNOWN	CCDS34495	11595	1824	607	85442320	85474237	-1	None	None
6	TBX18	ENSG00000112837	ENST00000607343	processed_transcript	KNOWN	None	11595	None	None	85450785	85451520	-1	None	None
6	TBX18	ENSG00000112837	ENST00000606521	processed_transcript	KNOWN	None	11595	None	None	85451742	85473166	-1	None	None
6	TBX18	ENSG00000112837	ENST00000606325	protein_coding	PUTATIVE	None	11595	530	175	85453979	85473171	-1	None	None
6	TBX18	ENSG00000112837	ENST00000606621	protein_coding	PUTATIVE	None	11595	97	31	85470001	85473073	-1	None	None
12	IQSEC3	ENSG00000120645	ENST00000538872	protein_coding	KNOWN	CCDS53728	29193	3549	1182	175931	287626	1	None	KIAA1110, MGC30156
12	IQSEC3	ENSG00000120645	ENST00000382841	protein_coding	KNOWN	CCDS31725	29193	2280	759	186542	280496	1	None	KIAA1110, MGC30156
12	IQSEC3	ENSG00000120645	ENST00000540907	retained_intron	KNOWN	None	29193	None	None	278144	280632	1	None	KIAA1110, MGC30156
12	IQSEC3	ENSG00000120645	ENST00000537151	processed_transcript	KNOWN	None	29193	None	None	278221	284525	1	None	KIAA1110, MGC30156
12	IQSEC3	ENSG00000120645	ENST00000544511	processed_transcript	PUTATIVE	None	29193	None	None	285648	287620	1	None	KIAA1110, MGC30156
12	IQSEC3	ENSG00000120645	ENST00000326261	protein_coding	KNOWN	CCDS53728	29193	3549	1182	176049	287620	1	None	KIAA1110, MGC30156
1	CHML	ENSG00000203668	ENST00000366553	protein_coding	KNOWN	CCDS31073	1941	1971	656	241792155	241799232	-1	None	REP-2
16	HSBP1	ENSG00000230989	ENST00000433866	protein_coding	KNOWN	CCDS45534	5203	231	76	83841448	83846603	1	None	None
16	HSBP1	ENSG00000230989	ENST00000570259	protein_coding	KNOWN	CCDS45534	5203	231	76	83841594	83852089	1	None	None
16	HSBP1	ENSG00000230989	ENST00000567382	nonsense_mediated_decay	KNOWN	None	5203	201	66	83841667	83845108	1	None	None
16	HSBP1	ENSG00000230989	ENST00000569301	retained_intron	KNOWN	None	5203	None	None	83842727	83845272	1	None	None
16	HSBP1	ENSG00000230989	ENST00000567125	processed_transcript	PUTATIVE	None	5203	None	None	83847972	83853342	1	None	None
1	PRCC	ENSG00000143294	ENST00000491853	processed_transcript	KNOWN	None	9343	None	None	156720402	156761584	1	None	RCCP1
1	PRCC	ENSG00000143294	ENST00000271526	protein_coding	KNOWN	CCDS1157	9343	1476	491	156737292	156770607	1	None	RCCP1
1	PRCC	ENSG00000143294	ENST00000473387	processed_transcript	KNOWN	None	9343	None	None	156737345	156756772	1	None	RCCP1
1	PRCC	ENSG00000143294	ENST00000526188	protein_coding	NOVEL	None	9343	597	198	156756667	156770289	1	None	RCCP1
1	PRCC	ENSG00000143294	ENST00000454659	protein_coding	NOVEL	None	9343	773	256	156756683	156770563	1	None	RCCP1
1	PRCC	ENSG00000143294	ENST00000459707	retained_intron	KNOWN	None	9343	None	None	156761168	156764596	1	None	RCCP1
1	PRCC	ENSG00000143294	ENST00000469071	retained_intron	KNOWN	None	9343	None	None	156765604	156770604	1	None	RCCP1
1	PRCC	ENSG00000143294	ENST00000353233	protein_coding	KNOWN	None	9343	1380	459	156737346	156770602	1	None	RCCP1
17	CYB5D1	ENSG00000182224	ENST00000571846	protein_coding	KNOWN	None	26516	474	157	7761064	7763792	1	None	FLJ32499
17	CYB5D1	ENSG00000182224	ENST00000332439	protein_coding	KNOWN	CCDS11123	26516	687	228	7761301	7765600	1	None	FLJ32499
17	CYB5D1	ENSG00000182224	ENST00000574357	retained_intron	KNOWN	None	26516	None	None	7761321	7762007	1	None	FLJ32499
17	CYB5D1	ENSG00000182224	ENST00000570446	protein_coding	PUTATIVE	None	26516	303	100	7761348	7763092	1	None	FLJ32499
17	CYB5D1	ENSG00000182224	ENST00000573940	retained_intron	KNOWN	None	26516	None	None	7761601	7762862	1	None	FLJ32499
17	CYB5D1	ENSG00000182224	ENST00000574196	nonsense_mediated_decay	KNOWN	None	26516	93	30	7761603	7762823	1	None	FLJ32499
9	C9orf131	ENSG00000174038	ENST00000421362	protein_coding	KNOWN	CCDS47961	31418	3096	1031	35041092	35045979	1	None	MGC41945
9	C9orf131	ENSG00000174038	ENST00000354479	protein_coding	KNOWN	CCDS47962	31418	3021	1006	35041092	35045979	1	None	MGC41945
9	C9orf131	ENSG00000174038	ENST00000534880	protein_coding	PUTATIVE	None	31418	40	12	35041139	35043137	1	None	MGC41945
9	C9orf131	ENSG00000174038	ENST00000537671	protein_coding	PUTATIVE	None	31418	44	13	35041147	35042886	1	None	MGC41945
9	C9orf131	ENSG00000174038	ENST00000312292	protein_coding	KNOWN	CCDS6572	31418	3240	1079	35042205	35045988	1	None	MGC41945
9	C9orf131	ENSG00000174038	ENST00000378745	protein_coding	NOVEL	None	31418	768	255	35042210	35043499	1	None	MGC41945
9	C9orf131	ENSG00000174038	ENST00000416537	nonsense_mediated_decay	KNOWN	None	31418	29	8	35042469	35043334	1	None	MGC41945
X	FAM127A	ENSG00000134590	ENST00000495563	processed_transcript	KNOWN	None	2569	None	None	134166412	134167430	1	CXX1	Mart8, Mar8, MAR8C
X	FAM127A	ENSG00000134590	ENST00000464369	processed_transcript	KNOWN	None	2569	None	None	134166412	134167576	1	CXX1	Mart8, Mar8, MAR8C
X	FAM127A	ENSG00000134590	ENST00000257013	protein_coding	NOVEL	CCDS43997	2569	342	113	134166333	134167568	1	CXX1	Mart8, Mar8, MAR8C
X	FAM127B	ENSG00000203950	ENST00000518153	processed_transcript	KNOWN	None	24514	None	None	134184962	134186120	-1	None	DKFZP564B147, MAR8A, CXX1b
X	FAM127B	ENSG00000203950	ENST00000370775	protein_coding	KNOWN	CCDS43998	24514	342	113	134184962	134186205	-1	None	DKFZP564B147, MAR8A, CXX1b
X	FAM127B	ENSG00000203950	ENST00000520964	processed_transcript	KNOWN	None	24514	None	None	134184970	134186226	-1	None	DKFZP564B147, MAR8A, CXX1b
X	FAM127B	ENSG00000203950	ENST00000522309	processed_transcript	KNOWN	None	24514	None	None	134185088	134186171	-1	None	DKFZP564B147, MAR8A, CXX1b
2	WBP1	ENSG00000239779	ENST00000233615	protein_coding	KNOWN	CCDS1943	12737	810	269	74685456	74688018	1	None	WBP-1
2	WBP1	ENSG00000239779	ENST00000393972	protein_coding	NOVEL	None	12737	912	303	74685527	74688018	1	None	WBP-1
2	WBP1	ENSG00000239779	ENST00000474185	processed_transcript	KNOWN	None	12737	None	None	74685566	74687032	1	None	WBP-1
2	WBP1	ENSG00000239779	ENST00000466835	processed_transcript	KNOWN	None	12737	None	None	74685567	74687437	1	None	WBP-1
2	WBP1	ENSG00000239779	ENST00000464774	processed_transcript	KNOWN	None	12737	None	None	74685577	74687357	1	None	WBP-1
2	WBP1	ENSG00000239779	ENST00000470536	processed_transcript	KNOWN	None	12737	None	None	74685577	74687744	1	None	WBP-1
2	WBP1	ENSG00000239779	ENST00000484744	retained_intron	KNOWN	None	12737	None	None	74685586	74688010	1	None	WBP-1
2	WBP1	ENSG00000239779	ENST00000409737	protein_coding	NOVEL	None	12737	801	266	74685596	74687983	1	None	WBP-1
2	WBP1	ENSG00000239779	ENST00000428943	protein_coding	PUTATIVE	None	12737	749	248	74685599	74687570	1	None	WBP-1
2	WBP1	ENSG00000239779	ENST00000494741	processed_transcript	KNOWN	None	12737	None	None	74685601	74687823	1	None	WBP-1
2	WBP1	ENSG00000239779	ENST00000473467	retained_intron	KNOWN	None	12737	None	None	74685615	74687559	1	None	WBP-1
2	WBP1	ENSG00000239779	ENST00000466303	retained_intron	KNOWN	None	12737	None	None	74685639	74687107	1	None	WBP-1
2	WBP1	ENSG00000239779	ENST00000492047	retained_intron	KNOWN	None	12737	None	None	74686007	74686874	1	None	WBP-1
2	WBP1	ENSG00000239779	ENST00000490120	retained_intron	KNOWN	None	12737	None	None	74686339	74687555	1	None	WBP-1
1	RPE65	ENSG00000116745	ENST00000262340	protein_coding	KNOWN	CCDS643	10294	1602	533	68894505	68915642	-1	RP20	LCA2, rd12
20	RNU6-1257P	ENSG00000207355	ENST00000384625	snRNA	KNOWN	None	48220	None	None	24954807	24954916	1	None	None
1	SH2D2A	ENSG00000027869	ENST00000368198	protein_coding	KNOWN	CCDS53380	10821	1116	371	156776035	156786626	-1	None	TSAd, F2771
1	SH2D2A	ENSG00000027869	ENST00000368199	protein_coding	KNOWN	CCDS1159	10821	1170	389	156776035	156786654	-1	None	TSAd, F2771
1	SH2D2A	ENSG00000027869	ENST00000468744	processed_transcript	KNOWN	None	10821	None	None	156778995	156783903	-1	None	TSAd, F2771
1	SH2D2A	ENSG00000027869	ENST00000486350	processed_transcript	KNOWN	None	10821	None	None	156779453	156785203	-1	None	TSAd, F2771
1	SH2D2A	ENSG00000027869	ENST00000495306	processed_transcript	KNOWN	None	10821	None	None	156784290	156786552	-1	None	TSAd, F2771
1	SH2D2A	ENSG00000027869	ENST00000392306	protein_coding	KNOWN	CCDS53381	10821	1200	399	156776036	156786640	-1	None	TSAd, F2771
7	STAG3L3	ENSG00000174353	ENST00000436857	protein_coding	PUTATIVE	None	33845	387	128	72440227	72476244	-1	None	None
7	STAG3L3	ENSG00000174353	ENST00000428423	nonsense_mediated_decay	KNOWN	None	33845	243	80	72467582	72476441	-1	None	None
7	STAG3L3	ENSG00000174353	ENST00000448173	protein_coding	KNOWN	None	33845	351	116	72469007	72476438	-1	None	None
7	STAG3L3	ENSG00000174353	ENST00000423834	nonsense_mediated_decay	KNOWN	None	33845	405	134	72469013	72476445	-1	None	None
7	STAG3L3	ENSG00000174353	ENST00000569650	protein_coding	NOVEL	None	33845	540	179	72469016	72476308	-1	None	None
7	STAG3L3	ENSG00000174353	ENST00000308103	protein_coding	KNOWN	None	33845	618	205	72467913	72476440	-1	None	None
7	STAG3L3	ENSG00000174353	ENST00000426587	protein_coding	KNOWN	None	33845	456	151	72467913	72476440	-1	None	None
6	C6orf25	ENSG00000204420	ENST00000460663	retained_intron	KNOWN	None	13937	None	None	31686371	31692812	1	None	G6b, NG31
6	C6orf25	ENSG00000204420	ENST00000480039	protein_coding	PUTATIVE	None	13937	663	220	31691121	31692750	1	None	G6b, NG31
6	C6orf25	ENSG00000204420	ENST00000375810	protein_coding	KNOWN	CCDS34407	13937	669	222	31691121	31692851	1	None	G6b, NG31
6	C6orf25	ENSG00000204420	ENST00000375805	protein_coding	KNOWN	CCDS4716	13937	654	217	31691147	31692851	1	None	G6b, NG31
6	C6orf25	ENSG00000204420	ENST00000485548	nonsense_mediated_decay	KNOWN	None	13937	378	125	31691150	31692811	1	None	G6b, NG31
6	C6orf25	ENSG00000204420	ENST00000375809	protein_coding	KNOWN	CCDS34406	13937	714	237	31691150	31694491	1	None	G6b, NG31
6	C6orf25	ENSG00000204420	ENST00000466312	retained_intron	KNOWN	None	13937	None	None	31691157	31692053	1	None	G6b, NG31
6	C6orf25	ENSG00000204420	ENST00000375804	protein_coding	KNOWN	CCDS4717	13937	582	193	31691161	31692851	1	None	G6b, NG31
6	C6orf25	ENSG00000204420	ENST00000375814	protein_coding	KNOWN	CCDS34405	13937	594	197	31691161	31692851	1	None	G6b, NG31
6	C6orf25	ENSG00000204420	ENST00000471545	retained_intron	KNOWN	None	13937	None	None	31691161	31692851	1	None	G6b, NG31
6	C6orf25	ENSG00000204420	ENST00000375806	protein_coding	KNOWN	CCDS4715	13937	726	241	31691161	31692958	1	None	G6b, NG31
2	CD28	ENSG00000178562	ENST00000458610	protein_coding	PUTATIVE	None	1653	705	234	204571247	204599635	1	None	None
2	CD28	ENSG00000178562	ENST00000324106	protein_coding	KNOWN	CCDS2361	1653	663	220	204571271	204600421	1	None	None
2	CD28	ENSG00000178562	ENST00000374481	protein_coding	KNOWN	None	1653	411	136	204571198	204602557	1	None	None
2	CD28	ENSG00000178562	ENST00000374478	protein_coding	KNOWN	CCDS58749	1653	306	101	204571416	204599978	1	None	None
1	WDR64	ENSG00000162843	ENST00000468967	nonsense_mediated_decay	KNOWN	None	26570	1560	519	241815580	241964957	1	None	FLJ32978
1	WDR64	ENSG00000162843	ENST00000461971	processed_transcript	KNOWN	None	26570	None	None	241823830	241846959	1	None	FLJ32978
1	WDR64	ENSG00000162843	ENST00000496914	processed_transcript	KNOWN	None	26570	None	None	241823935	241839710	1	None	FLJ32978
1	WDR64	ENSG00000162843	ENST00000414635	protein_coding	NOVEL	None	26570	2058	685	241846882	241964765	1	None	FLJ32978
1	WDR64	ENSG00000162843	ENST00000472717	nonsense_mediated_decay	KNOWN	None	26570	1569	522	241904850	241959600	1	None	FLJ32978
1	WDR64	ENSG00000162843	ENST00000425826	protein_coding	NOVEL	None	26570	1682	559	241912849	241964957	1	None	FLJ32978
1	WDR64	ENSG00000162843	ENST00000478331	retained_intron	KNOWN	None	26570	None	None	241933757	241951196	1	None	FLJ32978
1	WDR64	ENSG00000162843	ENST00000366552	protein_coding	KNOWN	None	26570	3246	1081	241815580	241965435	1	None	FLJ32978
1	WDR64	ENSG00000162843	ENST00000437684	protein_coding	KNOWN	None	26570	2745	914	241815580	241965435	1	None	FLJ32978
16	UBE2I	ENSG00000103275	ENST00000339021	processed_transcript	KNOWN	None	12485	None	None	1355548	1359414	1	None	UBC9
16	UBE2I	ENSG00000103275	ENST00000355803	protein_coding	KNOWN	CCDS10433	12485	477	158	1358881	1377019	1	None	UBC9
16	UBE2I	ENSG00000103275	ENST00000325437	protein_coding	KNOWN	CCDS10433	12485	477	158	1359154	1377019	1	None	UBC9
16	UBE2I	ENSG00000103275	ENST00000397514	protein_coding	KNOWN	CCDS10433	12485	477	158	1359511	1377018	1	None	UBC9
16	UBE2I	ENSG00000103275	ENST00000397515	protein_coding	KNOWN	CCDS10433	12485	477	158	1359636	1377019	1	None	UBC9
16	UBE2I	ENSG00000103275	ENST00000473256	retained_intron	KNOWN	None	12485	None	None	1359637	1367126	1	None	UBC9
16	UBE2I	ENSG00000103275	ENST00000568288	processed_transcript	KNOWN	None	12485	None	None	1359649	1374754	1	None	UBC9
16	UBE2I	ENSG00000103275	ENST00000567383	protein_coding	KNOWN	None	12485	88	28	1359657	1364315	1	None	UBC9
16	UBE2I	ENSG00000103275	ENST00000403747	protein_coding	KNOWN	CCDS10433	12485	477	158	1359679	1375215	1	None	UBC9
16	UBE2I	ENSG00000103275	ENST00000568209	processed_transcript	KNOWN	None	12485	None	None	1359700	1370211	1	None	UBC9
16	UBE2I	ENSG00000103275	ENST00000562482	retained_intron	KNOWN	None	12485	None	None	1359759	1364935	1	None	UBC9
16	UBE2I	ENSG00000103275	ENST00000566587	protein_coding	KNOWN	CCDS10433	12485	477	158	1359804	1374953	1	None	UBC9
16	UBE2I	ENSG00000103275	ENST00000406620	protein_coding	KNOWN	CCDS10433	12485	477	158	1361872	1375351	1	None	UBC9
16	UBE2I	ENSG00000103275	ENST00000562470	processed_transcript	PUTATIVE	None	12485	None	None	1362186	1364033	1	None	UBC9
16	UBE2I	ENSG00000103275	ENST00000567074	protein_coding	KNOWN	None	12485	413	136	1363561	1370518	1	None	UBC9
16	UBE2I	ENSG00000103275	ENST00000402301	protein_coding	PUTATIVE	None	12485	555	184	1363996	1371777	1	None	UBC9
16	UBE2I	ENSG00000103275	ENST00000566775	nonsense_mediated_decay	KNOWN	None	12485	211	69	1364046	1370200	1	None	UBC9
16	UBE2I	ENSG00000103275	ENST00000566159	retained_intron	KNOWN	None	12485	None	None	1364550	1367191	1	None	UBC9
16	UBE2I	ENSG00000103275	ENST00000564143	retained_intron	KNOWN	None	12485	None	None	1365326	1367126	1	None	UBC9
16	UBE2I	ENSG00000103275	ENST00000568989	retained_intron	KNOWN	None	12485	None	None	1369882	1374745	1	None	UBC9
20	None	ENSG00000225069	ENST00000256654	processed_pseudogene	KNOWN	None	None	None	None	25079741	25080564	1	None	None
20	None	ENSG00000225069	ENST00000430871	processed_pseudogene	KNOWN	None	None	None	None	25079741	25080427	1	None	None
2	CTLA4	ENSG00000163599	ENST00000302823	protein_coding	KNOWN	CCDS2362	2505	672	223	204732509	204738683	1	CELIAC3	CD152, CD, GSE, CD28, ICOS
2	CTLA4	ENSG00000163599	ENST00000295854	protein_coding	KNOWN	CCDS42803	2505	525	174	204732666	204737498	1	CELIAC3	CD152, CD, GSE, CD28, ICOS
2	CTLA4	ENSG00000163599	ENST00000487393	processed_transcript	KNOWN	None	2505	None	None	204732666	204737535	1	CELIAC3	CD152, CD, GSE, CD28, ICOS
2	CTLA4	ENSG00000163599	ENST00000472206	protein_coding	PUTATIVE	None	2505	240	79	204732666	204737535	1	CELIAC3	CD152, CD, GSE, CD28, ICOS
2	CTLA4	ENSG00000163599	ENST00000427473	protein_coding	PUTATIVE	None	2505	414	137	204734955	204737908	1	CELIAC3	CD152, CD, GSE, CD28, ICOS
2	MOGS	ENSG00000115275	ENST00000233616	protein_coding	KNOWN	CCDS42700	24862	2514	837	74688184	74692537	-1	None	GCS1, CWH41, DER7
2	MOGS	ENSG00000115275	ENST00000409065	protein_coding	PUTATIVE	None	24862	630	209	74688196	74692512	-1	None	GCS1, CWH41, DER7
2	MOGS	ENSG00000115275	ENST00000462189	retained_intron	KNOWN	None	24862	None	None	74688197	74690773	-1	None	GCS1, CWH41, DER7
2	MOGS	ENSG00000115275	ENST00000448666	protein_coding	NOVEL	None	24862	1475	490	74689123	74692523	-1	None	GCS1, CWH41, DER7
2	MOGS	ENSG00000115275	ENST00000462443	processed_transcript	KNOWN	None	24862	None	None	74689902	74692537	-1	None	GCS1, CWH41, DER7
2	MOGS	ENSG00000115275	ENST00000489655	processed_transcript	KNOWN	None	24862	None	None	74689921	74690764	-1	None	GCS1, CWH41, DER7
2	MOGS	ENSG00000115275	ENST00000414701	protein_coding	PUTATIVE	None	24862	435	144	74690124	74692520	-1	None	GCS1, CWH41, DER7
2	MOGS	ENSG00000115275	ENST00000486036	retained_intron	KNOWN	None	24862	None	None	74691544	74692527	-1	None	GCS1, CWH41, DER7
2	MOGS	ENSG00000115275	ENST00000452063	protein_coding	KNOWN	CCDS54370	24862	2196	731	74688185	74692537	-1	None	GCS1, CWH41, DER7
2	MOGS	ENSG00000115275	ENST00000535045	protein_coding	KNOWN	None	24862	480	159	74690000	74692489	-1	None	GCS1, CWH41, DER7
1	DEPDC1	ENSG00000024526	ENST00000456315	protein_coding	KNOWN	CCDS44159	22949	2436	811	68939835	68962797	-1	None	DEP.8, FLJ20354, SDP35, DEPDC1A
1	DEPDC1	ENSG00000024526	ENST00000370966	protein_coding	KNOWN	CCDS644	22949	1584	527	68939835	68962904	-1	None	DEP.8, FLJ20354, SDP35, DEPDC1A
1	DEPDC1	ENSG00000024526	ENST00000488146	retained_intron	KNOWN	None	22949	None	None	68941257	68947921	-1	None	DEP.8, FLJ20354, SDP35, DEPDC1A
1	DEPDC1	ENSG00000024526	ENST00000489862	nonsense_mediated_decay	KNOWN	None	22949	925	307	68942580	68960214	-1	None	DEP.8, FLJ20354, SDP35, DEPDC1A
1	DEPDC1	ENSG00000024526	ENST00000525124	protein_coding	PUTATIVE	None	22949	102	33	68952624	68962765	-1	None	DEP.8, FLJ20354, SDP35, DEPDC1A
19	BLVRB	ENSG00000090013	ENST00000595483	protein_coding	NOVEL	None	1063	492	163	40953696	40971652	-1	FLR	SDR43U1
19	BLVRB	ENSG00000090013	ENST00000263368	protein_coding	KNOWN	CCDS33029	1063	621	206	40953696	40971747	-1	FLR	SDR43U1
19	BLVRB	ENSG00000090013	ENST00000601346	retained_intron	KNOWN	None	1063	None	None	40953710	40964364	-1	FLR	SDR43U1
19	BLVRB	ENSG00000090013	ENST00000597870	nonsense_mediated_decay	KNOWN	None	1063	465	154	40953728	40971642	-1	FLR	SDR43U1
X	ERCC6L	ENSG00000186871	ENST00000373657	protein_coding	PUTATIVE	None	20794	3384	1127	71424510	71458877	-1	None	FLJ20105, PICH, RAD26L
X	ERCC6L	ENSG00000186871	ENST00000334463	protein_coding	KNOWN	CCDS35329	20794	3753	1250	71424510	71458897	-1	None	FLJ20105, PICH, RAD26L
10	None	ENSG00000249967	ENST00000370649	protein_coding	PUTATIVE	None	None	1350	449	99344131	99433667	1	None	None
2	ICOS	ENSG00000163600	ENST00000316386	protein_coding	KNOWN	CCDS2363	5351	600	199	204801471	204826300	1	None	AILIM, CD278
2	ICOS	ENSG00000163600	ENST00000435193	protein_coding	KNOWN	None	5351	507	168	204801503	204826300	1	None	AILIM, CD278
10	C10orf62	ENSG00000203942	ENST00000370640	protein_coding	KNOWN	CCDS31261	23294	672	223	99349450	99350690	1	None	bA548K23.1
2	MRPL53	ENSG00000204822	ENST00000258105	protein_coding	KNOWN	CCDS1944	16684	339	112	74699085	74700449	-1	None	None
2	MRPL53	ENSG00000204822	ENST00000409710	protein_coding	NOVEL	None	16684	213	70	74699113	74699814	-1	None	None
2	MRPL53	ENSG00000204822	ENST00000467349	retained_intron	KNOWN	None	16684	None	None	74699119	74699674	-1	None	None
2	MRPL53	ENSG00000204822	ENST00000468875	retained_intron	KNOWN	None	16684	None	None	74699120	74699791	-1	None	None
X	SMIM9	ENSG00000203870	ENST00000369529	protein_coding	KNOWN	CCDS55546	41915	300	99	154051623	154060946	-1	CXorf68	None
X	SMIM9	ENSG00000203870	ENST00000578244	processed_transcript	KNOWN	None	41915	None	None	154051903	154055733	-1	CXorf68	None
X	SMIM9	ENSG00000203870	ENST00000478043	processed_transcript	KNOWN	None	41915	None	None	154058848	154062937	-1	CXorf68	None
5	SPZ1	ENSG00000164299	ENST00000511881	protein_coding	KNOWN	None	30721	703	233	79615444	79616737	1	None	NYD-TSP1, FLJ25709
5	SPZ1	ENSG00000164299	ENST00000296739	protein_coding	KNOWN	CCDS43336	30721	1293	430	79615790	79617661	1	None	NYD-TSP1, FLJ25709
8	RGS22	ENSG00000132554	ENST00000360863	protein_coding	KNOWN	CCDS43758	24499	3795	1264	100973164	101118344	-1	None	DKFZP434I092, PRTD-NY2
8	RGS22	ENSG00000132554	ENST00000523287	protein_coding	PUTATIVE	None	24499	3252	1083	100973279	101117847	-1	None	DKFZP434I092, PRTD-NY2
8	RGS22	ENSG00000132554	ENST00000517769	retained_intron	KNOWN	None	24499	None	None	100973286	101054195	-1	None	DKFZP434I092, PRTD-NY2
8	RGS22	ENSG00000132554	ENST00000517843	protein_coding	PUTATIVE	None	24499	336	111	100973294	100990279	-1	None	DKFZP434I092, PRTD-NY2
8	RGS22	ENSG00000132554	ENST00000523437	protein_coding	NOVEL	None	24499	3759	1252	100973295	101118190	-1	None	DKFZP434I092, PRTD-NY2
8	RGS22	ENSG00000132554	ENST00000517828	protein_coding	PUTATIVE	None	24499	809	268	101011575	101138026	-1	None	DKFZP434I092, PRTD-NY2
8	RGS22	ENSG00000132554	ENST00000519421	processed_transcript	KNOWN	None	24499	None	None	101014550	101020754	-1	None	DKFZP434I092, PRTD-NY2
8	RGS22	ENSG00000132554	ENST00000519725	nonsense_mediated_decay	KNOWN	None	24499	1515	504	101020725	101118228	-1	None	DKFZP434I092, PRTD-NY2
8	RGS22	ENSG00000132554	ENST00000520923	retained_intron	KNOWN	None	24499	None	None	101050748	101092502	-1	None	DKFZP434I092, PRTD-NY2
8	RGS22	ENSG00000132554	ENST00000518474	retained_intron	KNOWN	None	24499	None	None	101050751	101054996	-1	None	DKFZP434I092, PRTD-NY2
8	RGS22	ENSG00000132554	ENST00000524182	processed_transcript	KNOWN	None	24499	None	None	101058461	101063124	-1	None	DKFZP434I092, PRTD-NY2
8	RGS22	ENSG00000132554	ENST00000520117	protein_coding	PUTATIVE	None	24499	409	135	101078467	101143496	-1	None	DKFZP434I092, PRTD-NY2
8	RGS22	ENSG00000132554	ENST00000519092	protein_coding	PUTATIVE	None	24499	265	87	101083638	101117852	-1	None	DKFZP434I092, PRTD-NY2
8	RGS22	ENSG00000132554	ENST00000519408	protein_coding	PUTATIVE	None	24499	246	81	101083657	101118545	-1	None	DKFZP434I092, PRTD-NY2
8	RGS22	ENSG00000132554	ENST00000522064	processed_transcript	KNOWN	None	24499	None	None	101092523	101117849	-1	None	DKFZP434I092, PRTD-NY2
8	RGS22	ENSG00000132554	ENST00000523600	processed_transcript	KNOWN	None	24499	None	None	101092922	101117841	-1	None	DKFZP434I092, PRTD-NY2
8	RGS22	ENSG00000132554	ENST00000518719	retained_intron	KNOWN	None	24499	None	None	101105390	101118228	-1	None	DKFZP434I092, PRTD-NY2
10	MORN4	ENSG00000171160	ENST00000307450	protein_coding	KNOWN	CCDS7468	24001	441	146	99374310	99393237	-1	C10orf83	bA548K23.4, FLJ25925
10	MORN4	ENSG00000171160	ENST00000478953	protein_coding	PUTATIVE	None	24001	201	66	99374310	99393257	-1	C10orf83	bA548K23.4, FLJ25925
10	MORN4	ENSG00000171160	ENST00000370635	protein_coding	NOVEL	None	24001	141	46	99379167	99393248	-1	C10orf83	bA548K23.4, FLJ25925
10	MORN4	ENSG00000171160	ENST00000335628	protein_coding	KNOWN	None	24001	615	204	99374312	99393344	-1	C10orf83	bA548K23.4, FLJ25925
1	NTRK1	ENSG00000198400	ENST00000489021	processed_transcript	KNOWN	None	8031	None	None	156785432	156843682	1	None	TRK, TRKA, MTC
1	NTRK1	ENSG00000198400	ENST00000392302	protein_coding	KNOWN	CCDS30890	8031	2283	760	156785448	156851586	1	None	TRK, TRKA, MTC
1	NTRK1	ENSG00000198400	ENST00000497019	nonsense_mediated_decay	KNOWN	None	8031	1167	388	156785471	156851641	1	None	TRK, TRKA, MTC
1	NTRK1	ENSG00000198400	ENST00000530298	retained_intron	KNOWN	None	8031	None	None	156807001	156851642	1	None	TRK, TRKA, MTC
1	NTRK1	ENSG00000198400	ENST00000368196	protein_coding	KNOWN	CCDS30891	8031	2373	790	156830607	156851642	1	None	TRK, TRKA, MTC
1	NTRK1	ENSG00000198400	ENST00000524377	protein_coding	KNOWN	CCDS1161	8031	2391	796	156830686	156851434	1	None	TRK, TRKA, MTC
1	NTRK1	ENSG00000198400	ENST00000358660	protein_coding	NOVEL	None	8031	2382	793	156830686	156851503	1	None	TRK, TRKA, MTC
1	NTRK1	ENSG00000198400	ENST00000533630	retained_intron	KNOWN	None	8031	None	None	156830705	156834855	1	None	TRK, TRKA, MTC
1	NTRK1	ENSG00000198400	ENST00000534682	retained_intron	KNOWN	None	8031	None	None	156843945	156845991	1	None	TRK, TRKA, MTC
1	NTRK1	ENSG00000198400	ENST00000531606	processed_transcript	KNOWN	None	8031	None	None	156849793	156851642	1	None	TRK, TRKA, MTC
4	PPM1K	ENSG00000163644	ENST00000295908	protein_coding	KNOWN	CCDS3629	25415	1119	372	89183315	89205888	-1	None	DKFZp761G058, PP2Ckappa, hPTMP, PP2Cm, BDP
4	PPM1K	ENSG00000163644	ENST00000508256	processed_transcript	KNOWN	None	25415	None	None	89183729	89205783	-1	None	DKFZp761G058, PP2Ckappa, hPTMP, PP2Cm, BDP
4	PPM1K	ENSG00000163644	ENST00000513546	processed_transcript	KNOWN	None	25415	None	None	89189342	89205730	-1	None	DKFZp761G058, PP2Ckappa, hPTMP, PP2Cm, BDP
4	PPM1K	ENSG00000163644	ENST00000510548	processed_transcript	KNOWN	None	25415	None	None	89189892	89205742	-1	None	DKFZp761G058, PP2Ckappa, hPTMP, PP2Cm, BDP
4	PPM1K	ENSG00000163644	ENST00000511506	retained_intron	KNOWN	None	25415	None	None	89189902	89198719	-1	None	DKFZp761G058, PP2Ckappa, hPTMP, PP2Cm, BDP
4	PPM1K	ENSG00000163644	ENST00000506423	protein_coding	KNOWN	None	25415	702	233	89189914	89205713	-1	None	DKFZp761G058, PP2Ckappa, hPTMP, PP2Cm, BDP
4	PPM1K	ENSG00000163644	ENST00000514204	retained_intron	KNOWN	None	25415	None	None	89196297	89205921	-1	None	DKFZp761G058, PP2Ckappa, hPTMP, PP2Cm, BDP
4	PPM1K	ENSG00000163644	ENST00000505022	processed_transcript	KNOWN	None	25415	None	None	89199345	89205042	-1	None	DKFZp761G058, PP2Ckappa, hPTMP, PP2Cm, BDP
4	PPM1K	ENSG00000163644	ENST00000509340	processed_transcript	KNOWN	None	25415	None	None	89199719	89205413	-1	None	DKFZp761G058, PP2Ckappa, hPTMP, PP2Cm, BDP
4	PPM1K	ENSG00000163644	ENST00000315194	protein_coding	KNOWN	None	25415	702	233	89192181	89205888	-1	None	DKFZp761G058, PP2Ckappa, hPTMP, PP2Cm, BDP
1	EXO1	ENSG00000174371	ENST00000519225	protein_coding	KNOWN	None	3511	35	10	242011269	242013762	1	None	HEX1, hExoI
1	EXO1	ENSG00000174371	ENST00000366548	protein_coding	KNOWN	CCDS1620	3511	2541	846	242011482	242053241	1	None	HEX1, hExoI
1	EXO1	ENSG00000174371	ENST00000423131	protein_coding	NOVEL	None	3511	507	168	242011527	242021891	1	None	HEX1, hExoI
1	EXO1	ENSG00000174371	ENST00000523590	protein_coding	NOVEL	None	3511	285	94	242011553	242016783	1	None	HEX1, hExoI
1	EXO1	ENSG00000174371	ENST00000518483	protein_coding	KNOWN	CCDS44336	3511	2412	803	242012133	242053048	1	None	HEX1, hExoI
1	EXO1	ENSG00000174371	ENST00000437497	protein_coding	NOVEL	None	3511	498	165	242012252	242021891	1	None	HEX1, hExoI
1	EXO1	ENSG00000174371	ENST00000450748	protein_coding	KNOWN	None	3511	405	134	242012253	242016783	1	None	HEX1, hExoI
1	EXO1	ENSG00000174371	ENST00000493702	processed_transcript	KNOWN	None	3511	None	None	242012285	242022020	1	None	HEX1, hExoI
1	EXO1	ENSG00000174371	ENST00000469419	processed_transcript	KNOWN	None	3511	None	None	242013794	242024006	1	None	HEX1, hExoI
1	EXO1	ENSG00000174371	ENST00000521202	protein_coding	NOVEL	None	3511	623	206	242042342	242052891	1	None	HEX1, hExoI
1	EXO1	ENSG00000174371	ENST00000518741	processed_transcript	KNOWN	None	3511	None	None	242048659	242058450	1	None	HEX1, hExoI
1	EXO1	ENSG00000174371	ENST00000348581	protein_coding	KNOWN	CCDS1620	3511	2541	846	242012033	242053237	1	None	HEX1, hExoI
2	CCDC142	ENSG00000135637	ENST00000454193	nonsense_mediated_decay	KNOWN	None	25889	1703	566	74699113	74709669	-1	None	FLJ14397
2	CCDC142	ENSG00000135637	ENST00000393965	protein_coding	KNOWN	None	25889	2253	750	74700917	74710361	-1	None	FLJ14397
2	CCDC142	ENSG00000135637	ENST00000290418	protein_coding	NOVEL	CCDS1945	25889	2232	743	74701229	74710123	-1	None	FLJ14397
2	CCDC142	ENSG00000135637	ENST00000473278	retained_intron	KNOWN	None	25889	None	None	74701686	74702813	-1	None	FLJ14397
2	CCDC142	ENSG00000135637	ENST00000486335	retained_intron	KNOWN	None	25889	None	None	74702040	74702814	-1	None	FLJ14397
2	CCDC142	ENSG00000135637	ENST00000497232	retained_intron	KNOWN	None	25889	None	None	74702463	74708384	-1	None	FLJ14397
2	CCDC142	ENSG00000135637	ENST00000471713	processed_transcript	KNOWN	None	25889	None	None	74707896	74710374	-1	None	FLJ14397
2	CCDC142	ENSG00000135637	ENST00000474681	processed_transcript	KNOWN	None	25889	None	None	74707897	74710535	-1	None	FLJ14397
2	CCDC142	ENSG00000135637	ENST00000472962	retained_intron	KNOWN	None	25889	None	None	74708383	74709106	-1	None	FLJ14397
20	None	ENSG00000230725	ENST00000454676	lincRNA	KNOWN	None	None	None	None	25121425	25129426	-1	None	None
20	None	ENSG00000230725	ENST00000438287	lincRNA	KNOWN	None	None	None	None	25123876	25129894	-1	None	None
20	None	ENSG00000230725	ENST00000426854	lincRNA	KNOWN	None	None	None	None	25124001	25128100	-1	None	None
20	None	ENSG00000230725	ENST00000440357	lincRNA	KNOWN	None	None	None	None	25124001	25129876	-1	None	None
4	TBC1D14	ENSG00000132405	ENST00000444368	protein_coding	KNOWN	None	29246	382	126	6910969	6925498	1	None	KIAA1322
4	TBC1D14	ENSG00000132405	ENST00000409757	protein_coding	KNOWN	CCDS3394	29246	2082	693	6911572	7034838	1	None	KIAA1322
4	TBC1D14	ENSG00000132405	ENST00000427736	protein_coding	KNOWN	None	29246	170	55	6911975	6925286	1	None	KIAA1322
4	TBC1D14	ENSG00000132405	ENST00000410031	protein_coding	PUTATIVE	None	29246	1398	465	6955947	7034841	1	None	KIAA1322
4	TBC1D14	ENSG00000132405	ENST00000451522	protein_coding	KNOWN	CCDS47006	29246	1242	413	6988889	7034841	1	None	KIAA1322
4	TBC1D14	ENSG00000132405	ENST00000467966	retained_intron	KNOWN	None	29246	None	None	6995936	7003203	1	None	KIAA1322
4	TBC1D14	ENSG00000132405	ENST00000439515	protein_coding	PUTATIVE	None	29246	602	199	7000910	7012504	1	None	KIAA1322
4	TBC1D14	ENSG00000132405	ENST00000448507	protein_coding	KNOWN	CCDS3394	29246	2082	693	6911171	7034845	1	None	KIAA1322
4	TBC1D14	ENSG00000132405	ENST00000446947	protein_coding	KNOWN	None	29246	1023	340	7000910	7032547	1	None	KIAA1322
9	None	ENSG00000269510	ENST00000595331	protein_coding	KNOWN	None	None	435	144	35042390	35042824	-1	None	None
3	TRNT1	ENSG00000072756	ENST00000251607	protein_coding	KNOWN	CCDS2561	17341	1305	434	3168600	3190707	1	None	MtCCA, CGI-47, CCA1
3	TRNT1	ENSG00000072756	ENST00000339437	protein_coding	KNOWN	None	17341	174	57	3168635	3172363	1	None	MtCCA, CGI-47, CCA1
3	TRNT1	ENSG00000072756	ENST00000280591	protein_coding	KNOWN	None	17341	1245	414	3168636	3190707	1	None	MtCCA, CGI-47, CCA1
3	TRNT1	ENSG00000072756	ENST00000465998	retained_intron	KNOWN	None	17341	None	None	3168638	3171180	1	None	MtCCA, CGI-47, CCA1
3	TRNT1	ENSG00000072756	ENST00000434583	nonsense_mediated_decay	KNOWN	CCDS2561	17341	1305	434	3168649	3192563	1	None	MtCCA, CGI-47, CCA1
3	TRNT1	ENSG00000072756	ENST00000420393	protein_coding	KNOWN	None	17341	174	57	3168664	3171898	1	None	MtCCA, CGI-47, CCA1
3	TRNT1	ENSG00000072756	ENST00000402675	protein_coding	KNOWN	None	17341	174	57	3168704	3172363	1	None	MtCCA, CGI-47, CCA1
3	TRNT1	ENSG00000072756	ENST00000413000	protein_coding	KNOWN	None	17341	186	61	3168704	3178981	1	None	MtCCA, CGI-47, CCA1
3	TRNT1	ENSG00000072756	ENST00000469632	processed_transcript	KNOWN	None	17341	None	None	3168745	3173436	1	None	MtCCA, CGI-47, CCA1
3	TRNT1	ENSG00000072756	ENST00000397779	nonsense_mediated_decay	KNOWN	None	17341	198	65	3170724	3179046	1	None	MtCCA, CGI-47, CCA1
3	TRNT1	ENSG00000072756	ENST00000482311	retained_intron	KNOWN	None	17341	None	None	3170839	3182412	1	None	MtCCA, CGI-47, CCA1
15	LRRC57	ENSG00000180979	ENST00000397130	protein_coding	KNOWN	CCDS10089	26719	720	239	42834720	42840971	-1	None	FLJ36812
15	LRRC57	ENSG00000180979	ENST00000323443	protein_coding	KNOWN	CCDS10089	26719	720	239	42834720	42841000	-1	None	FLJ36812
15	LRRC57	ENSG00000180979	ENST00000563454	protein_coding	KNOWN	CCDS10089	26719	720	239	42834722	42840970	-1	None	FLJ36812
15	LRRC57	ENSG00000180979	ENST00000562868	retained_intron	KNOWN	None	26719	None	None	42836165	42837647	-1	None	FLJ36812
15	LRRC57	ENSG00000180979	ENST00000569830	retained_intron	KNOWN	None	26719	None	None	42836241	42840991	-1	None	FLJ36812
15	LRRC57	ENSG00000180979	ENST00000570160	protein_coding	KNOWN	None	26719	445	147	42839506	42840991	-1	None	FLJ36812
1	MAP1LC3C	ENSG00000197769	ENST00000357246	protein_coding	KNOWN	CCDS31074	13353	444	147	242158792	242162375	-1	None	ATG8J
1	INSRR	ENSG00000027644	ENST00000368195	protein_coding	KNOWN	CCDS1160	6093	3894	1297	156809855	156828810	-1	None	IRR
1	LRRC7	ENSG00000033122	ENST00000310961	protein_coding	KNOWN	None	18531	4488	1495	70034081	70589171	1	None	KIAA1365, densin-180
1	LRRC7	ENSG00000033122	ENST00000370958	protein_coding	KNOWN	None	18531	654	217	70034133	70340687	1	None	KIAA1365, densin-180
1	LRRC7	ENSG00000033122	ENST00000035383	protein_coding	KNOWN	CCDS645	18531	4614	1537	70225858	70587926	1	None	KIAA1365, densin-180
1	LRRC7	ENSG00000033122	ENST00000588515	nonsense_mediated_decay	KNOWN	None	18531	185	60	70573433	70613688	1	None	KIAA1365, densin-180
1	LRRC7	ENSG00000033122	ENST00000565615	processed_transcript	KNOWN	None	18531	None	None	70607065	70610047	1	None	KIAA1365, densin-180
1	LRRC7	ENSG00000033122	ENST00000441830	processed_transcript	PUTATIVE	None	18531	None	None	70612804	70617628	1	None	KIAA1365, densin-180
1	LRRC7	ENSG00000033122	ENST00000415775	protein_coding	KNOWN	None	18531	2466	821	70225870	70587677	1	None	KIAA1365, densin-180
12	RACGAP1	ENSG00000161800	ENST00000548961	protein_coding	PUTATIVE	None	9804	354	117	50370706	50386141	-1	None	MgcRacGAP
12	RACGAP1	ENSG00000161800	ENST00000427314	protein_coding	KNOWN	CCDS8795	9804	1899	632	50382945	50419221	-1	None	MgcRacGAP
12	RACGAP1	ENSG00000161800	ENST00000312377	protein_coding	KNOWN	CCDS8795	9804	1899	632	50382945	50419244	-1	None	MgcRacGAP
12	RACGAP1	ENSG00000161800	ENST00000454520	protein_coding	KNOWN	CCDS8795	9804	1899	632	50382947	50419183	-1	None	MgcRacGAP
12	RACGAP1	ENSG00000161800	ENST00000551016	protein_coding	KNOWN	CCDS8795	9804	1899	632	50383762	50410503	-1	None	MgcRacGAP
12	RACGAP1	ENSG00000161800	ENST00000547905	protein_coding	KNOWN	CCDS8795	9804	1899	632	50384051	50419277	-1	None	MgcRacGAP
12	RACGAP1	ENSG00000161800	ENST00000549342	protein_coding	NOVEL	None	9804	841	279	50385862	50393519	-1	None	MgcRacGAP
12	RACGAP1	ENSG00000161800	ENST00000547061	processed_transcript	KNOWN	None	9804	None	None	50390852	50396474	-1	None	MgcRacGAP
12	RACGAP1	ENSG00000161800	ENST00000548320	protein_coding	PUTATIVE	None	9804	104	33	50390914	50419276	-1	None	MgcRacGAP
12	RACGAP1	ENSG00000161800	ENST00000548598	nonsense_mediated_decay	KNOWN	None	9804	150	49	50390943	50419244	-1	None	MgcRacGAP
12	RACGAP1	ENSG00000161800	ENST00000552310	protein_coding	KNOWN	None	9804	881	292	50392922	50419231	-1	None	MgcRacGAP
12	RACGAP1	ENSG00000161800	ENST00000548158	retained_intron	KNOWN	None	9804	None	None	50393093	50398054	-1	None	MgcRacGAP
12	RACGAP1	ENSG00000161800	ENST00000550149	protein_coding	NOVEL	None	9804	467	154	50393458	50419260	-1	None	MgcRacGAP
12	RACGAP1	ENSG00000161800	ENST00000546786	protein_coding	NOVEL	None	9804	409	135	50394954	50419246	-1	None	MgcRacGAP
12	RACGAP1	ENSG00000161800	ENST00000546595	protein_coding	PUTATIVE	None	9804	456	151	50394955	50419199	-1	None	MgcRacGAP
12	RACGAP1	ENSG00000161800	ENST00000551145	protein_coding	PUTATIVE	None	9804	374	123	50396031	50419301	-1	None	MgcRacGAP
12	RACGAP1	ENSG00000161800	ENST00000548824	protein_coding	KNOWN	None	9804	524	173	50396055	50419217	-1	None	MgcRacGAP
12	RACGAP1	ENSG00000161800	ENST00000551260	nonsense_mediated_decay	KNOWN	None	9804	171	56	50398017	50419218	-1	None	MgcRacGAP
12	RACGAP1	ENSG00000161800	ENST00000548644	protein_coding	PUTATIVE	None	9804	532	176	50398017	50419234	-1	None	MgcRacGAP
12	RACGAP1	ENSG00000161800	ENST00000546723	protein_coding	KNOWN	None	9804	465	154	50398048	50419219	-1	None	MgcRacGAP
12	RACGAP1	ENSG00000161800	ENST00000552921	protein_coding	KNOWN	None	9804	452	149	50398061	50419340	-1	None	MgcRacGAP
12	RACGAP1	ENSG00000161800	ENST00000552157	protein_coding	PUTATIVE	None	9804	251	82	50399039	50419226	-1	None	MgcRacGAP
12	RACGAP1	ENSG00000161800	ENST00000548247	protein_coding	PUTATIVE	None	9804	203	66	50399039	50426919	-1	None	MgcRacGAP
12	RACGAP1	ENSG00000161800	ENST00000546764	protein_coding	KNOWN	None	9804	417	138	50399047	50419266	-1	None	MgcRacGAP
12	RACGAP1	ENSG00000161800	ENST00000551876	protein_coding	KNOWN	None	9804	390	129	50399074	50410867	-1	None	MgcRacGAP
12	RACGAP1	ENSG00000161800	ENST00000549777	protein_coding	KNOWN	None	9804	387	128	50399077	50419218	-1	None	MgcRacGAP
12	RACGAP1	ENSG00000161800	ENST00000550651	protein_coding	KNOWN	None	9804	334	110	50399130	50419277	-1	None	MgcRacGAP
12	RACGAP1	ENSG00000161800	ENST00000552004	protein_coding	KNOWN	None	9804	323	106	50399141	50419271	-1	None	MgcRacGAP
12	RACGAP1	ENSG00000161800	ENST00000434422	protein_coding	KNOWN	CCDS8795	9804	1899	632	50382945	50419307	-1	None	MgcRacGAP
X	RPS4X	ENSG00000198034	ENST00000470671	processed_transcript	KNOWN	None	10424	None	None	71475529	71493221	-1	None	DXS306, CCG2, SCAR, SCR10, FLJ40595, RPS4, S4
X	RPS4X	ENSG00000198034	ENST00000492695	processed_transcript	KNOWN	None	10424	None	None	71475634	71492573	-1	None	DXS306, CCG2, SCAR, SCR10, FLJ40595, RPS4, S4
X	RPS4X	ENSG00000198034	ENST00000316084	protein_coding	KNOWN	CCDS14418	10424	792	263	71491892	71497150	-1	None	DXS306, CCG2, SCAR, SCR10, FLJ40595, RPS4, S4
X	RPS4X	ENSG00000198034	ENST00000486733	processed_transcript	KNOWN	None	10424	None	None	71492563	71496077	-1	None	DXS306, CCG2, SCAR, SCR10, FLJ40595, RPS4, S4
X	RPS4X	ENSG00000198034	ENST00000373626	protein_coding	KNOWN	None	10424	369	122	71494105	71497098	-1	None	DXS306, CCG2, SCAR, SCR10, FLJ40595, RPS4, S4
14	CDC42BPB	ENSG00000198752	ENST00000361246	protein_coding	KNOWN	CCDS9978	1738	5136	1711	103398716	103523799	-1	None	MRCKB, KIAA1124
14	CDC42BPB	ENSG00000198752	ENST00000560492	retained_intron	KNOWN	None	1738	None	None	103406245	103407084	-1	None	MRCKB, KIAA1124
14	CDC42BPB	ENSG00000198752	ENST00000559790	retained_intron	KNOWN	None	1738	None	None	103406253	103407063	-1	None	MRCKB, KIAA1124
14	CDC42BPB	ENSG00000198752	ENST00000559245	retained_intron	KNOWN	None	1738	None	None	103410150	103412061	-1	None	MRCKB, KIAA1124
14	CDC42BPB	ENSG00000198752	ENST00000558867	protein_coding	NOVEL	None	1738	635	210	103410348	103411668	-1	None	MRCKB, KIAA1124
14	CDC42BPB	ENSG00000198752	ENST00000559043	protein_coding	NOVEL	None	1738	1999	665	103410380	103434869	-1	None	MRCKB, KIAA1124
14	CDC42BPB	ENSG00000198752	ENST00000558321	retained_intron	KNOWN	None	1738	None	None	103452635	103470360	-1	None	MRCKB, KIAA1124
14	CDC42BPB	ENSG00000198752	ENST00000561271	retained_intron	KNOWN	None	1738	None	None	103452847	103470616	-1	None	MRCKB, KIAA1124
2	TTC31	ENSG00000115282	ENST00000489152	retained_intron	KNOWN	None	25759	None	None	74710200	74721686	1	None	FLJ12788
2	TTC31	ENSG00000115282	ENST00000424122	nonsense_mediated_decay	KNOWN	None	25759	351	116	74710209	74721686	1	None	FLJ12788
2	TTC31	ENSG00000115282	ENST00000449459	nonsense_mediated_decay	KNOWN	None	25759	351	116	74710214	74720210	1	None	FLJ12788
2	TTC31	ENSG00000115282	ENST00000464241	retained_intron	KNOWN	None	25759	None	None	74710214	74720210	1	None	FLJ12788
2	TTC31	ENSG00000115282	ENST00000410003	protein_coding	NOVEL	None	25759	1023	340	74710214	74721686	1	None	FLJ12788
2	TTC31	ENSG00000115282	ENST00000463704	retained_intron	KNOWN	None	25759	None	None	74710216	74710832	1	None	FLJ12788
2	TTC31	ENSG00000115282	ENST00000491252	retained_intron	KNOWN	None	25759	None	None	74710216	74721686	1	None	FLJ12788
2	TTC31	ENSG00000115282	ENST00000233623	protein_coding	NOVEL	CCDS42701	25759	1560	519	74710216	74722013	1	None	FLJ12788
2	TTC31	ENSG00000115282	ENST00000459957	retained_intron	KNOWN	None	25759	None	None	74710228	74718685	1	None	FLJ12788
2	TTC31	ENSG00000115282	ENST00000463189	processed_transcript	KNOWN	None	25759	None	None	74710232	74718776	1	None	FLJ12788
2	TTC31	ENSG00000115282	ENST00000487623	retained_intron	KNOWN	None	25759	None	None	74718697	74719940	1	None	FLJ12788
2	TTC31	ENSG00000115282	ENST00000414247	protein_coding	NOVEL	None	25759	740	245	74718711	74720438	1	None	FLJ12788
2	TTC31	ENSG00000115282	ENST00000442235	protein_coding	KNOWN	None	25759	603	200	74710214	74720489	1	None	FLJ12788
2	PARD3B	ENSG00000116117	ENST00000415947	nonsense_mediated_decay	KNOWN	None	14446	240	79	205410516	205913318	1	ALS2CR19	Par3L, PAR3beta
2	PARD3B	ENSG00000116117	ENST00000406610	protein_coding	KNOWN	None	14446	3618	1205	205410516	206484886	1	ALS2CR19	Par3L, PAR3beta
2	PARD3B	ENSG00000116117	ENST00000462231	protein_coding	PUTATIVE	None	14446	2808	935	205410563	206166631	1	ALS2CR19	Par3L, PAR3beta
2	PARD3B	ENSG00000116117	ENST00000471958	processed_transcript	PUTATIVE	None	14446	None	None	205410565	205422909	1	ALS2CR19	Par3L, PAR3beta
2	PARD3B	ENSG00000116117	ENST00000358768	protein_coding	KNOWN	CCDS42806	14446	3432	1143	205410723	206480537	1	ALS2CR19	Par3L, PAR3beta
2	PARD3B	ENSG00000116117	ENST00000351153	protein_coding	KNOWN	CCDS42805	14446	3411	1136	205410723	206480537	1	ALS2CR19	Par3L, PAR3beta
2	PARD3B	ENSG00000116117	ENST00000349953	protein_coding	KNOWN	CCDS42804	14446	3315	1104	205410723	206480537	1	ALS2CR19	Par3L, PAR3beta
2	PARD3B	ENSG00000116117	ENST00000489565	processed_transcript	KNOWN	None	14446	None	None	205968416	205986412	1	ALS2CR19	Par3L, PAR3beta
2	PARD3B	ENSG00000116117	ENST00000465890	processed_transcript	KNOWN	None	14446	None	None	206158216	206166235	1	ALS2CR19	Par3L, PAR3beta
2	PARD3B	ENSG00000116117	ENST00000494482	processed_transcript	PUTATIVE	None	14446	None	None	206212533	206305195	1	ALS2CR19	Par3L, PAR3beta
2	PARD3B	ENSG00000116117	ENST00000488622	processed_transcript	KNOWN	None	14446	None	None	206347314	206480786	1	ALS2CR19	Par3L, PAR3beta
1	PLD5	ENSG00000180287	ENST00000314833	nonsense_mediated_decay	KNOWN	None	26879	144	47	242251689	242612758	-1	None	FLJ40773
1	PLD5	ENSG00000180287	ENST00000366545	nonsense_mediated_decay	KNOWN	None	26879	330	109	242252272	242687998	-1	None	FLJ40773
1	PLD5	ENSG00000180287	ENST00000536534	protein_coding	KNOWN	CCDS1621	26879	1611	536	242252638	242687820	-1	None	FLJ40773
1	PLD5	ENSG00000180287	ENST00000467561	nonsense_mediated_decay	KNOWN	None	26879	594	197	242287720	242687973	-1	None	FLJ40773
1	PLD5	ENSG00000180287	ENST00000474177	processed_transcript	KNOWN	None	26879	None	None	242398764	242428735	-1	None	FLJ40773
1	PLD5	ENSG00000180287	ENST00000459864	protein_coding	PUTATIVE	None	26879	421	139	242428639	242612727	-1	None	FLJ40773
1	PLD5	ENSG00000180287	ENST00000427495	protein_coding	KNOWN	CCDS55692	26879	1425	474	242252271	242612784	-1	None	FLJ40773
1	PLD5	ENSG00000180287	ENST00000442594	protein_coding	KNOWN	None	26879	1335	444	242252272	242687998	-1	None	FLJ40773
9	VCP	ENSG00000165280	ENST00000358901	protein_coding	KNOWN	CCDS6573	12666	2421	806	35056061	35073246	-1	None	IBMPFD, p97
9	VCP	ENSG00000165280	ENST00000493886	retained_intron	KNOWN	None	12666	None	None	35056867	35072546	-1	None	IBMPFD, p97
9	VCP	ENSG00000165280	ENST00000466100	retained_intron	KNOWN	None	12666	None	None	35057170	35057830	-1	None	IBMPFD, p97
9	VCP	ENSG00000165280	ENST00000479300	retained_intron	KNOWN	None	12666	None	None	35059058	35059889	-1	None	IBMPFD, p97
9	VCP	ENSG00000165280	ENST00000480327	retained_intron	KNOWN	None	12666	None	None	35059745	35061627	-1	None	IBMPFD, p97
9	VCP	ENSG00000165280	ENST00000448530	protein_coding	PUTATIVE	None	12666	481	159	35064243	35072624	-1	None	IBMPFD, p97
9	VCP	ENSG00000165280	ENST00000417448	protein_coding	PUTATIVE	None	12666	346	114	35065343	35072011	-1	None	IBMPFD, p97
12	NAP1L1	ENSG00000187109	ENST00000261182	protein_coding	KNOWN	CCDS9013	7637	1176	391	76438670	76478813	-1	None	NRP, NAP1, NAP1L, MGC8688, MGC23410
12	NAP1L1	ENSG00000187109	ENST00000552056	protein_coding	KNOWN	None	7637	1158	385	76440684	76462773	-1	None	NRP, NAP1, NAP1L, MGC8688, MGC23410
12	NAP1L1	ENSG00000187109	ENST00000393263	protein_coding	KNOWN	CCDS9013	7637	1176	391	76440935	76478446	-1	None	NRP, NAP1, NAP1L, MGC8688, MGC23410
12	NAP1L1	ENSG00000187109	ENST00000431879	protein_coding	PUTATIVE	None	7637	972	323	76441375	76478465	-1	None	NRP, NAP1, NAP1L, MGC8688, MGC23410
12	NAP1L1	ENSG00000187109	ENST00000552147	nonsense_mediated_decay	KNOWN	None	7637	597	198	76441376	76461242	-1	None	NRP, NAP1, NAP1L, MGC8688, MGC23410
12	NAP1L1	ENSG00000187109	ENST00000547773	protein_coding	NOVEL	None	7637	987	328	76441412	76478509	-1	None	NRP, NAP1, NAP1L, MGC8688, MGC23410
12	NAP1L1	ENSG00000187109	ENST00000552013	retained_intron	KNOWN	None	7637	None	None	76441414	76443501	-1	None	NRP, NAP1, NAP1L, MGC8688, MGC23410
12	NAP1L1	ENSG00000187109	ENST00000544816	protein_coding	PUTATIVE	None	7637	627	208	76441747	76478511	-1	None	NRP, NAP1, NAP1L, MGC8688, MGC23410
12	NAP1L1	ENSG00000187109	ENST00000542344	protein_coding	PUTATIVE	None	7637	1050	349	76441810	76478515	-1	None	NRP, NAP1, NAP1L, MGC8688, MGC23410
12	NAP1L1	ENSG00000187109	ENST00000535020	protein_coding	PUTATIVE	None	7637	1152	383	76442775	76478392	-1	None	NRP, NAP1, NAP1L, MGC8688, MGC23410
12	NAP1L1	ENSG00000187109	ENST00000549596	protein_coding	PUTATIVE	None	7637	1107	368	76442926	76478465	-1	None	NRP, NAP1, NAP1L, MGC8688, MGC23410
12	NAP1L1	ENSG00000187109	ENST00000547993	protein_coding	PUTATIVE	None	7637	603	200	76443209	76451665	-1	None	NRP, NAP1, NAP1L, MGC8688, MGC23410
12	NAP1L1	ENSG00000187109	ENST00000547969	retained_intron	KNOWN	None	7637	None	None	76443214	76446938	-1	None	NRP, NAP1, NAP1L, MGC8688, MGC23410
12	NAP1L1	ENSG00000187109	ENST00000552342	protein_coding	PUTATIVE	None	7637	1140	379	76443245	76478439	-1	None	NRP, NAP1, NAP1L, MGC8688, MGC23410
12	NAP1L1	ENSG00000187109	ENST00000547529	nonsense_mediated_decay	KNOWN	None	7637	532	176	76443342	76461174	-1	None	NRP, NAP1, NAP1L, MGC8688, MGC23410
12	NAP1L1	ENSG00000187109	ENST00000548044	protein_coding	PUTATIVE	None	7637	984	327	76443369	76478446	-1	None	NRP, NAP1, NAP1L, MGC8688, MGC23410
12	NAP1L1	ENSG00000187109	ENST00000550934	protein_coding	NOVEL	None	7637	712	236	76447108	76478465	-1	None	NRP, NAP1, NAP1L, MGC8688, MGC23410
12	NAP1L1	ENSG00000187109	ENST00000551992	protein_coding	KNOWN	None	7637	792	263	76447109	76477874	-1	None	NRP, NAP1, NAP1L, MGC8688, MGC23410
12	NAP1L1	ENSG00000187109	ENST00000548273	protein_coding	PUTATIVE	None	7637	629	208	76447568	76478515	-1	None	NRP, NAP1, NAP1L, MGC8688, MGC23410
12	NAP1L1	ENSG00000187109	ENST00000551600	protein_coding	NOVEL	None	7637	647	214	76448800	76478465	-1	None	NRP, NAP1, NAP1L, MGC8688, MGC23410
12	NAP1L1	ENSG00000187109	ENST00000547704	protein_coding	NOVEL	None	7637	622	206	76448828	76478464	-1	None	NRP, NAP1, NAP1L, MGC8688, MGC23410
12	NAP1L1	ENSG00000187109	ENST00000551524	protein_coding	PUTATIVE	None	7637	343	113	76449905	76461350	-1	None	NRP, NAP1, NAP1L, MGC8688, MGC23410
12	NAP1L1	ENSG00000187109	ENST00000549988	retained_intron	KNOWN	None	7637	None	None	76453376	76478465	-1	None	NRP, NAP1, NAP1L, MGC8688, MGC23410
12	NAP1L1	ENSG00000187109	ENST00000547479	protein_coding	NOVEL	None	7637	484	160	76453601	76478465	-1	None	NRP, NAP1, NAP1L, MGC8688, MGC23410
12	NAP1L1	ENSG00000187109	ENST00000549479	retained_intron	KNOWN	None	7637	None	None	76462358	76478465	-1	None	NRP, NAP1, NAP1L, MGC8688, MGC23410
12	NAP1L1	ENSG00000187109	ENST00000551500	retained_intron	KNOWN	None	7637	None	None	76467585	76478463	-1	None	NRP, NAP1, NAP1L, MGC8688, MGC23410
1	PEAR1	ENSG00000187800	ENST00000444016	nonsense_mediated_decay	KNOWN	None	33631	234	77	156863490	156876512	1	MEGF12	JEDI, FLJ00193
1	PEAR1	ENSG00000187800	ENST00000338302	protein_coding	KNOWN	CCDS30892	33631	3114	1037	156863512	156886221	1	MEGF12	JEDI, FLJ00193
1	PEAR1	ENSG00000187800	ENST00000455314	protein_coding	KNOWN	None	33631	520	172	156863517	156876548	1	MEGF12	JEDI, FLJ00193
1	PEAR1	ENSG00000187800	ENST00000469390	retained_intron	KNOWN	None	33631	None	None	156876109	156886218	1	MEGF12	JEDI, FLJ00193
1	PEAR1	ENSG00000187800	ENST00000482505	retained_intron	KNOWN	None	33631	None	None	156879749	156880365	1	MEGF12	JEDI, FLJ00193
1	PEAR1	ENSG00000187800	ENST00000465101	retained_intron	KNOWN	None	33631	None	None	156883324	156884940	1	MEGF12	JEDI, FLJ00193
1	PEAR1	ENSG00000187800	ENST00000292357	protein_coding	KNOWN	CCDS30892	33631	3114	1037	156863523	156886226	1	MEGF12	JEDI, FLJ00193
1	LRRC40	ENSG00000066557	ENST00000370952	protein_coding	KNOWN	CCDS646	26004	1809	602	70610488	70671303	-1	None	FLJ20331
8	TCEA1	ENSG00000187735	ENST00000396401	protein_coding	KNOWN	CCDS47857	11612	843	280	54879112	54935008	-1	TCEA, GTF2S	SII, TF2S, TFIIS
8	TCEA1	ENSG00000187735	ENST00000521604	protein_coding	KNOWN	CCDS47858	11612	906	301	54879116	54935089	-1	TCEA, GTF2S	SII, TF2S, TFIIS
8	TCEA1	ENSG00000187735	ENST00000521086	processed_transcript	KNOWN	None	11612	None	None	54879120	54934825	-1	TCEA, GTF2S	SII, TF2S, TFIIS
8	TCEA1	ENSG00000187735	ENST00000522635	protein_coding	NOVEL	None	11612	354	117	54879730	54934829	-1	TCEA, GTF2S	SII, TF2S, TFIIS
8	TCEA1	ENSG00000187735	ENST00000522397	processed_transcript	KNOWN	None	11612	None	None	54882824	54935008	-1	TCEA, GTF2S	SII, TF2S, TFIIS
8	TCEA1	ENSG00000187735	ENST00000520534	protein_coding	NOVEL	None	11612	336	111	54905936	54934708	-1	TCEA, GTF2S	SII, TF2S, TFIIS
8	TCEA1	ENSG00000187735	ENST00000518310	nonsense_mediated_decay	KNOWN	None	11612	144	47	54906217	54934874	-1	TCEA, GTF2S	SII, TF2S, TFIIS
8	TCEA1	ENSG00000187735	ENST00000517351	processed_transcript	KNOWN	None	11612	None	None	54906255	54934870	-1	TCEA, GTF2S	SII, TF2S, TFIIS
8	TCEA1	ENSG00000187735	ENST00000521836	processed_transcript	KNOWN	None	11612	None	None	54906264	54934489	-1	TCEA, GTF2S	SII, TF2S, TFIIS
8	TCEA1	ENSG00000187735	ENST00000518784	protein_coding	NOVEL	None	11612	273	90	54912185	54934719	-1	TCEA, GTF2S	SII, TF2S, TFIIS
8	TCEA1	ENSG00000187735	ENST00000519704	nonsense_mediated_decay	KNOWN	None	11612	138	45	54912570	54934886	-1	TCEA, GTF2S	SII, TF2S, TFIIS
5	ZFYVE16	ENSG00000039319	ENST00000338008	protein_coding	KNOWN	CCDS4050	20756	4620	1539	79703832	79775169	1	None	KIAA0305, PPP1R69
5	ZFYVE16	ENSG00000039319	ENST00000510158	protein_coding	KNOWN	CCDS4050	20756	4620	1539	79703843	79774959	1	None	KIAA0305, PPP1R69
5	ZFYVE16	ENSG00000039319	ENST00000505560	protein_coding	KNOWN	CCDS4050	20756	4620	1539	79703845	79774954	1	None	KIAA0305, PPP1R69
5	ZFYVE16	ENSG00000039319	ENST00000512558	retained_intron	KNOWN	None	20756	None	None	79703874	79748279	1	None	KIAA0305, PPP1R69
5	ZFYVE16	ENSG00000039319	ENST00000509562	nonsense_mediated_decay	KNOWN	None	20756	105	34	79703895	79732978	1	None	KIAA0305, PPP1R69
5	ZFYVE16	ENSG00000039319	ENST00000510995	retained_intron	KNOWN	None	20756	None	None	79703902	79736195	1	None	KIAA0305, PPP1R69
5	ZFYVE16	ENSG00000039319	ENST00000512442	processed_transcript	KNOWN	None	20756	None	None	79703934	79706159	1	None	KIAA0305, PPP1R69
5	ZFYVE16	ENSG00000039319	ENST00000511050	processed_transcript	KNOWN	None	20756	None	None	79736992	79744007	1	None	KIAA0305, PPP1R69
5	ZFYVE16	ENSG00000039319	ENST00000511829	retained_intron	KNOWN	None	20756	None	None	79738868	79774972	1	None	KIAA0305, PPP1R69
5	ZFYVE16	ENSG00000039319	ENST00000509558	nonsense_mediated_decay	KNOWN	None	20756	156	51	79738971	79744078	1	None	KIAA0305, PPP1R69
5	ZFYVE16	ENSG00000039319	ENST00000507548	nonsense_mediated_decay	KNOWN	None	20756	154	50	79741080	79746289	1	None	KIAA0305, PPP1R69
5	ZFYVE16	ENSG00000039319	ENST00000512907	retained_intron	KNOWN	None	20756	None	None	79749808	79774937	1	None	KIAA0305, PPP1R69
5	ZFYVE16	ENSG00000039319	ENST00000513789	nonsense_mediated_decay	KNOWN	None	20756	112	36	79755258	79773130	1	None	KIAA0305, PPP1R69
19	None	ENSG00000267360	ENST00000588873	protein_coding	PUTATIVE	None	None	362	119	37583921	37697976	-1	None	None
19	None	ENSG00000267360	ENST00000590245	nonsense_mediated_decay	KNOWN	None	None	171	56	37647233	37701414	-1	None	None
19	None	ENSG00000267360	ENST00000585860	nonsense_mediated_decay	KNOWN	None	None	447	148	37656285	37698156	-1	None	None
1	LRRC71	ENSG00000160838	ENST00000337428	protein_coding	KNOWN	CCDS44249	26556	1680	559	156890442	156902886	1	C1orf92	FLJ32884
1	LRRC71	ENSG00000160838	ENST00000490146	processed_transcript	KNOWN	None	26556	None	None	156890704	156902880	1	C1orf92	FLJ32884
1	LRRC71	ENSG00000160838	ENST00000476550	processed_transcript	KNOWN	None	26556	None	None	156897154	156902877	1	C1orf92	FLJ32884
1	LRRC71	ENSG00000160838	ENST00000472465	processed_transcript	PUTATIVE	None	26556	None	None	156901890	156902881	1	C1orf92	FLJ32884
X	CXorf48	ENSG00000169551	ENST00000276241	protein_coding	KNOWN	CCDS35400	26047	795	264	134290461	134305322	-1	None	FLJ20527, CT55
X	CXorf48	ENSG00000169551	ENST00000344129	protein_coding	KNOWN	CCDS14647	26047	729	242	134290465	134305322	-1	None	FLJ20527, CT55
15	HMG20A	ENSG00000140382	ENST00000560498	protein_coding	KNOWN	None	5001	301	99	77712754	77759500	1	None	HMGX1, FLJ10739, HMGXB1
15	HMG20A	ENSG00000140382	ENST00000336216	protein_coding	KNOWN	CCDS10295	5001	1044	347	77712993	77777949	1	None	HMGX1, FLJ10739, HMGXB1
15	HMG20A	ENSG00000140382	ENST00000381714	protein_coding	KNOWN	CCDS10295	5001	1044	347	77713016	77777945	1	None	HMGX1, FLJ10739, HMGXB1
15	HMG20A	ENSG00000140382	ENST00000558651	protein_coding	PUTATIVE	None	5001	88	28	77713064	77759626	1	None	HMGX1, FLJ10739, HMGXB1
15	HMG20A	ENSG00000140382	ENST00000559035	nonsense_mediated_decay	KNOWN	None	5001	255	84	77713244	77763345	1	None	HMGX1, FLJ10739, HMGXB1
15	HMG20A	ENSG00000140382	ENST00000558176	protein_coding	PUTATIVE	None	5001	78	25	77713263	77759616	1	None	HMGX1, FLJ10739, HMGXB1
15	HMG20A	ENSG00000140382	ENST00000560986	retained_intron	KNOWN	None	5001	None	None	77713277	77757165	1	None	HMGX1, FLJ10739, HMGXB1
15	HMG20A	ENSG00000140382	ENST00000559099	protein_coding	KNOWN	None	5001	470	155	77713353	77763271	1	None	HMGX1, FLJ10739, HMGXB1
15	HMG20A	ENSG00000140382	ENST00000560867	protein_coding	KNOWN	None	5001	487	161	77750559	77763288	1	None	HMGX1, FLJ10739, HMGXB1
15	HMG20A	ENSG00000140382	ENST00000559728	retained_intron	KNOWN	None	5001	None	None	77770465	77775761	1	None	HMGX1, FLJ10739, HMGXB1
15	HMG20A	ENSG00000140382	ENST00000558845	protein_coding	PUTATIVE	None	5001	355	117	77770635	77771946	1	None	HMGX1, FLJ10739, HMGXB1
15	HMG20A	ENSG00000140382	ENST00000558288	retained_intron	KNOWN	None	5001	None	None	77774392	77777949	1	None	HMGX1, FLJ10739, HMGXB1
4	ELMOD2	ENSG00000179387	ENST00000323570	protein_coding	KNOWN	CCDS3752	28111	882	293	141445312	141474924	1	None	MGC10084
4	ELMOD2	ENSG00000179387	ENST00000511887	retained_intron	KNOWN	None	28111	None	None	141445322	141448854	1	None	MGC10084
4	ELMOD2	ENSG00000179387	ENST00000507667	protein_coding	KNOWN	None	28111	105	34	141445336	141446687	1	None	MGC10084
4	ELMOD2	ENSG00000179387	ENST00000503541	retained_intron	KNOWN	None	28111	None	None	141445372	141449105	1	None	MGC10084
4	ELMOD2	ENSG00000179387	ENST00000502397	protein_coding	KNOWN	None	28111	503	166	141445590	141461425	1	None	MGC10084
4	ELMOD2	ENSG00000179387	ENST00000513606	protein_coding	PUTATIVE	None	28111	290	95	141447796	141461443	1	None	MGC10084
4	ELMOD2	ENSG00000179387	ENST00000512057	retained_intron	KNOWN	None	28111	None	None	141456571	141464626	1	None	MGC10084
4	ELMOD2	ENSG00000179387	ENST00000502290	retained_intron	KNOWN	None	28111	None	None	141463579	141471589	1	None	MGC10084
5	HNRNPH1	ENSG00000169045	ENST00000393432	protein_coding	KNOWN	CCDS4446	5041	1350	449	179041179	179050711	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000502904	retained_intron	KNOWN	None	5041	None	None	179041180	179045900	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000442819	protein_coding	KNOWN	CCDS4446	5041	1350	449	179041180	179050722	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000356731	protein_coding	KNOWN	CCDS4446	5041	1350	449	179041180	179051670	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000515481	retained_intron	KNOWN	None	5041	None	None	179041181	179047033	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000514332	retained_intron	KNOWN	None	5041	None	None	179041181	179050672	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000329433	protein_coding	PUTATIVE	None	5041	1419	472	179041182	179050169	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000510678	nonsense_mediated_decay	KNOWN	None	5041	555	184	179041182	179050170	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000510411	protein_coding	NOVEL	None	5041	1290	429	179041182	179050170	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000523449	protein_coding	PUTATIVE	None	5041	352	116	179041520	179044582	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000524179	retained_intron	KNOWN	None	5041	None	None	179041525	179043288	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000519033	protein_coding	NOVEL	None	5041	558	185	179041687	179045044	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000521720	retained_intron	KNOWN	None	5041	None	None	179041878	179044635	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000502632	retained_intron	KNOWN	None	5041	None	None	179041891	179045454	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000519958	nonsense_mediated_decay	KNOWN	None	5041	396	131	179042561	179048336	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000523136	protein_coding	PUTATIVE	None	5041	143	46	179043142	179043925	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000504549	retained_intron	KNOWN	None	5041	None	None	179043159	179045516	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000514731	retained_intron	KNOWN	None	5041	None	None	179043765	179050670	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000521173	protein_coding	NOVEL	None	5041	831	276	179043870	179047960	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000523921	protein_coding	PUTATIVE	None	5041	584	193	179043875	179045302	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000503105	protein_coding	NOVEL	None	5041	492	163	179044818	179050672	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000504779	nonsense_mediated_decay	KNOWN	None	5041	123	40	179045046	179050671	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000520415	retained_intron	KNOWN	None	5041	None	None	179045145	179046709	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000518548	processed_transcript	KNOWN	None	5041	None	None	179045162	179048462	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000508103	protein_coding	NOVEL	None	5041	516	171	179045206	179050699	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000506721	protein_coding	NOVEL	None	5041	513	170	179045209	179050671	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000523137	protein_coding	NOVEL	None	5041	498	165	179045219	179051670	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000505811	protein_coding	KNOWN	None	5041	636	211	179045225	179051585	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000510431	protein_coding	NOVEL	None	5041	485	160	179045237	179050699	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000519056	protein_coding	NOVEL	None	5041	465	154	179045240	179050670	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000522958	retained_intron	KNOWN	None	5041	None	None	179046102	179048371	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000521790	protein_coding	PUTATIVE	None	5041	301	99	179046274	179048512	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000504348	protein_coding	KNOWN	None	5041	504	167	179046302	179050672	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000513225	protein_coding	KNOWN	None	5041	490	162	179046316	179051601	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000524180	processed_transcript	KNOWN	None	5041	None	None	179046470	179050165	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000513972	retained_intron	KNOWN	None	5041	None	None	179047676	179050711	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000519943	retained_intron	KNOWN	None	5041	None	None	179047734	179048687	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000519707	retained_intron	KNOWN	None	5041	None	None	179047774	179050671	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000519455	processed_transcript	KNOWN	None	5041	None	None	179047815	179050669	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000515158	protein_coding	KNOWN	None	5041	392	129	179047898	179050708	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000521116	protein_coding	KNOWN	None	5041	346	114	179047944	179061785	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000505087	retained_intron	KNOWN	None	5041	None	None	179048012	179050713	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000515714	protein_coding	KNOWN	None	5041	253	83	179048243	179051585	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000512273	nonsense_mediated_decay	KNOWN	None	5041	123	40	179048255	179051412	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000503664	protein_coding	KNOWN	None	5041	148	48	179048348	179051601	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000515446	retained_intron	KNOWN	None	5041	None	None	179049850	179050647	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000513230	retained_intron	KNOWN	None	5041	None	None	179049953	179050671	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000522256	protein_coding	KNOWN	None	5041	85	27	179050050	179061441	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000518602	processed_transcript	PUTATIVE	None	5041	None	None	179060893	179061474	-1	HNRPH1	hnRNPH
5	HNRNPH1	ENSG00000169045	ENST00000511300	protein_coding	KNOWN	None	5041	480	159	179041314	179044917	-1	HNRPH1	hnRNPH
X	CITED1	ENSG00000125931	ENST00000453707	protein_coding	KNOWN	CCDS48136	1986	660	219	71521488	71527000	-1	MSG1	None
X	CITED1	ENSG00000125931	ENST00000373619	protein_coding	KNOWN	CCDS14419	1986	582	193	71521497	71527037	-1	MSG1	None
X	CITED1	ENSG00000125931	ENST00000429794	protein_coding	KNOWN	None	1986	320	105	71521498	71522718	-1	MSG1	None
X	CITED1	ENSG00000125931	ENST00000246139	protein_coding	KNOWN	CCDS14419	1986	582	193	71521500	71526837	-1	MSG1	None
X	CITED1	ENSG00000125931	ENST00000417400	protein_coding	KNOWN	None	1986	422	139	71521733	71525747	-1	MSG1	None
X	CITED1	ENSG00000125931	ENST00000427412	protein_coding	KNOWN	None	1986	415	137	71521818	71525415	-1	MSG1	None
X	CITED1	ENSG00000125931	ENST00000450875	protein_coding	KNOWN	None	1986	329	108	71521904	71525742	-1	MSG1	None
X	CITED1	ENSG00000125931	ENST00000454225	protein_coding	KNOWN	None	1986	177	58	71522056	71526757	-1	MSG1	None
X	CITED1	ENSG00000125931	ENST00000431381	protein_coding	KNOWN	CCDS48136	1986	660	219	71521490	71525764	-1	MSG1	None
X	CITED1	ENSG00000125931	ENST00000445983	protein_coding	KNOWN	CCDS14419	1986	582	193	71521490	71525764	-1	MSG1	None
19	CD320	ENSG00000167775	ENST00000596002	nonsense_mediated_decay	KNOWN	None	16692	246	81	8367011	8373184	-1	None	8D6, 8D6A
19	CD320	ENSG00000167775	ENST00000537716	protein_coding	KNOWN	CCDS54210	16692	723	240	8367011	8373234	-1	None	8D6, 8D6A
19	CD320	ENSG00000167775	ENST00000301458	protein_coding	KNOWN	CCDS12198	16692	849	282	8367011	8373239	-1	None	8D6, 8D6A
19	CD320	ENSG00000167775	ENST00000599573	nonsense_mediated_decay	KNOWN	None	16692	266	87	8367201	8373155	-1	None	8D6, 8D6A
19	CD320	ENSG00000167775	ENST00000598299	retained_intron	KNOWN	None	16692	None	None	8369651	8373219	-1	None	8D6, 8D6A
19	CD320	ENSG00000167775	ENST00000596246	processed_transcript	KNOWN	None	16692	None	None	8370519	8373240	-1	None	8D6, 8D6A
4	STAP1	ENSG00000035720	ENST00000265404	protein_coding	KNOWN	CCDS3515	24133	888	295	68424446	68472616	1	None	STAP-1, BRDG1
4	STAP1	ENSG00000035720	ENST00000396225	protein_coding	KNOWN	CCDS3515	24133	888	295	68424446	68473055	1	None	STAP-1, BRDG1
1	SRSF11	ENSG00000116754	ENST00000370951	protein_coding	KNOWN	CCDS53332	10782	1452	483	70671365	70717300	1	SFRS11	p54, NET2
1	SRSF11	ENSG00000116754	ENST00000463877	processed_transcript	KNOWN	None	10782	None	None	70671381	70694410	1	SFRS11	p54, NET2
1	SRSF11	ENSG00000116754	ENST00000370950	protein_coding	KNOWN	CCDS647	10782	1455	484	70671407	70718735	1	SFRS11	p54, NET2
1	SRSF11	ENSG00000116754	ENST00000475204	nonsense_mediated_decay	KNOWN	None	10782	387	128	70687053	70701233	1	SFRS11	p54, NET2
1	SRSF11	ENSG00000116754	ENST00000395136	protein_coding	KNOWN	None	10782	1167	388	70687079	70716075	1	SFRS11	p54, NET2
1	SRSF11	ENSG00000116754	ENST00000473950	nonsense_mediated_decay	KNOWN	None	10782	243	80	70687152	70698058	1	SFRS11	p54, NET2
1	SRSF11	ENSG00000116754	ENST00000469170	processed_transcript	KNOWN	None	10782	None	None	70687163	70696951	1	SFRS11	p54, NET2
1	SRSF11	ENSG00000116754	ENST00000486667	processed_transcript	KNOWN	None	10782	None	None	70687407	70703233	1	SFRS11	p54, NET2
1	SRSF11	ENSG00000116754	ENST00000481648	processed_transcript	KNOWN	None	10782	None	None	70694105	70700414	1	SFRS11	p54, NET2
1	SRSF11	ENSG00000116754	ENST00000463116	processed_transcript	KNOWN	None	10782	None	None	70695747	70696957	1	SFRS11	p54, NET2
1	SRSF11	ENSG00000116754	ENST00000484162	processed_transcript	KNOWN	None	10782	None	None	70695961	70717680	1	SFRS11	p54, NET2
1	SRSF11	ENSG00000116754	ENST00000370949	protein_coding	KNOWN	None	10782	1275	424	70697231	70717684	1	SFRS11	p54, NET2
1	SRSF11	ENSG00000116754	ENST00000463859	processed_transcript	KNOWN	None	10782	None	None	70703164	70716681	1	SFRS11	p54, NET2
1	SRSF11	ENSG00000116754	ENST00000460795	processed_transcript	KNOWN	None	10782	None	None	70712413	70716408	1	SFRS11	p54, NET2
1	SRSF11	ENSG00000116754	ENST00000461935	processed_transcript	KNOWN	None	10782	None	None	70714077	70717684	1	SFRS11	p54, NET2
1	SRSF11	ENSG00000116754	ENST00000489188	processed_transcript	KNOWN	None	10782	None	None	70715425	70716629	1	SFRS11	p54, NET2
1	SRSF11	ENSG00000116754	ENST00000405432	protein_coding	KNOWN	CCDS647	10782	1455	484	70671407	70716488	1	SFRS11	p54, NET2
1	SRSF11	ENSG00000116754	ENST00000436161	protein_coding	KNOWN	None	10782	387	128	70687145	70703239	1	SFRS11	p54, NET2
1	SRSF11	ENSG00000116754	ENST00000454435	protein_coding	KNOWN	None	10782	396	131	70671418	70697253	1	SFRS11	p54, NET2
19	None	ENSG00000269179	ENST00000451973	nonsense_mediated_decay	KNOWN	None	None	114	37	50412758	50461648	-1	None	None
4	C4orf47	ENSG00000205129	ENST00000501066	nonsense_mediated_decay	KNOWN	None	34346	111	36	186347394	186357285	1	None	LOC441054
4	C4orf47	ENSG00000205129	ENST00000511138	protein_coding	KNOWN	None	34346	485	160	186347403	186357464	1	None	LOC441054
4	C4orf47	ENSG00000205129	ENST00000511581	protein_coding	KNOWN	None	34346	534	177	186347403	186357513	1	None	LOC441054
4	C4orf47	ENSG00000205129	ENST00000512770	nonsense_mediated_decay	KNOWN	None	34346	111	36	186347455	186361810	1	None	LOC441054
4	C4orf47	ENSG00000205129	ENST00000508698	nonsense_mediated_decay	KNOWN	None	34346	111	36	186350544	186370822	1	None	LOC441054
4	C4orf47	ENSG00000205129	ENST00000378850	protein_coding	KNOWN	CCDS47169	34346	930	309	186350544	186370980	1	None	LOC441054
4	CCDC96	ENSG00000173013	ENST00000310085	protein_coding	KNOWN	CCDS3395	26900	1668	555	7042579	7044728	-1	None	FLJ90575
10	AVPI1	ENSG00000119986	ENST00000370626	protein_coding	KNOWN	CCDS7470	30898	444	147	99437181	99447080	-1	None	VIP32, PP5395, VIT32
19	ATF5	ENSG00000169136	ENST00000595125	protein_coding	KNOWN	CCDS12789	790	849	282	50431959	50436555	1	None	None
19	ATF5	ENSG00000169136	ENST00000423777	protein_coding	KNOWN	CCDS12789	790	849	282	50432400	50437192	1	None	None
19	ATF5	ENSG00000169136	ENST00000600336	protein_coding	PUTATIVE	None	790	267	88	50432474	50434486	1	None	None
19	ATF5	ENSG00000169136	ENST00000597227	protein_coding	KNOWN	None	790	365	120	50432479	50435865	1	None	None
19	ATF5	ENSG00000169136	ENST00000596658	protein_coding	KNOWN	None	790	389	128	50433476	50435889	1	None	None
1	ARHGEF11	ENSG00000132694	ENST00000368194	protein_coding	KNOWN	CCDS1163	14580	4689	1562	156904632	157015162	-1	None	KIAA0380, GTRAP48, PDZ-RHOGEF
1	ARHGEF11	ENSG00000132694	ENST00000487682	processed_transcript	KNOWN	None	14580	None	None	156904637	156915423	-1	None	KIAA0380, GTRAP48, PDZ-RHOGEF
1	ARHGEF11	ENSG00000132694	ENST00000361409	protein_coding	KNOWN	CCDS1162	14580	4569	1522	156905316	157014865	-1	None	KIAA0380, GTRAP48, PDZ-RHOGEF
1	ARHGEF11	ENSG00000132694	ENST00000492592	processed_transcript	KNOWN	None	14580	None	None	156906608	156909532	-1	None	KIAA0380, GTRAP48, PDZ-RHOGEF
1	ARHGEF11	ENSG00000132694	ENST00000461678	processed_transcript	KNOWN	None	14580	None	None	156915700	156917170	-1	None	KIAA0380, GTRAP48, PDZ-RHOGEF
1	ARHGEF11	ENSG00000132694	ENST00000486670	processed_transcript	KNOWN	None	14580	None	None	156925516	156933558	-1	None	KIAA0380, GTRAP48, PDZ-RHOGEF
1	ARHGEF11	ENSG00000132694	ENST00000483682	processed_transcript	KNOWN	None	14580	None	None	156937703	156941617	-1	None	KIAA0380, GTRAP48, PDZ-RHOGEF
1	ARHGEF11	ENSG00000132694	ENST00000315174	protein_coding	KNOWN	None	14580	2817	938	156905438	156918806	-1	None	KIAA0380, GTRAP48, PDZ-RHOGEF
15	FES	ENSG00000182511	ENST00000416779	protein_coding	KNOWN	None	3657	127	41	91426925	91428402	1	None	FPS
15	FES	ENSG00000182511	ENST00000328850	protein_coding	KNOWN	CCDS10365	3657	2469	822	91427642	91439006	1	None	FPS
15	FES	ENSG00000182511	ENST00000470152	nonsense_mediated_decay	KNOWN	None	3657	366	121	91427677	91432608	1	None	FPS
15	FES	ENSG00000182511	ENST00000414248	protein_coding	KNOWN	CCDS45351	3657	2085	694	91427677	91438923	1	None	FPS
15	FES	ENSG00000182511	ENST00000481665	retained_intron	KNOWN	None	3657	None	None	91427699	91428759	1	None	FPS
15	FES	ENSG00000182511	ENST00000559355	protein_coding	KNOWN	None	3657	507	168	91427699	91430439	1	None	FPS
15	FES	ENSG00000182511	ENST00000394302	protein_coding	NOVEL	None	3657	2046	681	91427699	91438790	1	None	FPS
15	FES	ENSG00000182511	ENST00000452243	protein_coding	KNOWN	None	3657	442	146	91427734	91430245	1	None	FPS
15	FES	ENSG00000182511	ENST00000464684	nonsense_mediated_decay	KNOWN	None	3657	1638	545	91427753	91438828	1	None	FPS
15	FES	ENSG00000182511	ENST00000443697	protein_coding	KNOWN	None	3657	344	113	91427943	91428772	1	None	FPS
15	FES	ENSG00000182511	ENST00000394300	protein_coding	KNOWN	CCDS45350	3657	2295	764	91428276	91438795	1	None	FPS
15	FES	ENSG00000182511	ENST00000444422	protein_coding	KNOWN	CCDS45349	3657	2259	752	91428276	91438795	1	None	FPS
15	FES	ENSG00000182511	ENST00000497945	retained_intron	KNOWN	None	3657	None	None	91428570	91432555	1	None	FPS
15	FES	ENSG00000182511	ENST00000494259	retained_intron	KNOWN	None	3657	None	None	91432436	91433169	1	None	FPS
15	FES	ENSG00000182511	ENST00000448367	processed_transcript	KNOWN	None	3657	None	None	91432780	91434252	1	None	FPS
15	FES	ENSG00000182511	ENST00000496379	retained_intron	KNOWN	None	3657	None	None	91433066	91435639	1	None	FPS
15	FES	ENSG00000182511	ENST00000462476	retained_intron	KNOWN	None	3657	None	None	91433079	91433755	1	None	FPS
15	FES	ENSG00000182511	ENST00000450438	protein_coding	KNOWN	CCDS45351	3657	2085	694	91428276	91438788	1	None	FPS
4	TADA2B	ENSG00000173011	ENST00000506692	protein_coding	KNOWN	None	30781	364	120	7043626	7056158	1	None	MGC21874
4	TADA2B	ENSG00000173011	ENST00000310074	protein_coding	KNOWN	CCDS47007	30781	1263	420	7045118	7059679	1	None	MGC21874
4	TADA2B	ENSG00000173011	ENST00000512388	protein_coding	KNOWN	None	30781	1038	345	7045262	7057041	1	None	MGC21874
4	TADA2B	ENSG00000173011	ENST00000515646	protein_coding	KNOWN	None	30781	987	328	7054551	7058368	1	None	MGC21874
4	TADA2B	ENSG00000173011	ENST00000510704	protein_coding	KNOWN	None	30781	389	128	7055080	7056183	1	None	MGC21874
1	CEP170	ENSG00000143702	ENST00000366542	protein_coding	KNOWN	CCDS44339	28920	4755	1584	243287730	243418352	-1	KIAA0470	KAB, FAM68A
1	CEP170	ENSG00000143702	ENST00000366544	protein_coding	KNOWN	CCDS44337	28920	4461	1486	243287730	243418623	-1	KIAA0470	KAB, FAM68A
1	CEP170	ENSG00000143702	ENST00000366543	protein_coding	KNOWN	CCDS44338	28920	4383	1460	243287730	243418623	-1	KIAA0470	KAB, FAM68A
1	CEP170	ENSG00000143702	ENST00000468254	processed_transcript	KNOWN	None	28920	None	None	243287731	243303665	-1	KIAA0470	KAB, FAM68A
1	CEP170	ENSG00000143702	ENST00000481987	protein_coding	PUTATIVE	None	28920	963	320	243288195	243320123	-1	KIAA0470	KAB, FAM68A
1	CEP170	ENSG00000143702	ENST00000336415	protein_coding	NOVEL	None	28920	4676	1557	243288466	243364116	-1	KIAA0470	KAB, FAM68A
1	CEP170	ENSG00000143702	ENST00000466495	processed_transcript	KNOWN	None	28920	None	None	243289220	243290000	-1	KIAA0470	KAB, FAM68A
1	CEP170	ENSG00000143702	ENST00000476661	processed_transcript	KNOWN	None	28920	None	None	243289224	243292741	-1	KIAA0470	KAB, FAM68A
1	CEP170	ENSG00000143702	ENST00000490813	protein_coding	PUTATIVE	None	28920	882	293	243289647	243326620	-1	KIAA0470	KAB, FAM68A
1	CEP170	ENSG00000143702	ENST00000439296	retained_intron	KNOWN	None	28920	None	None	243289711	243299606	-1	KIAA0470	KAB, FAM68A
1	CEP170	ENSG00000143702	ENST00000469646	processed_transcript	KNOWN	None	28920	None	None	243289986	243292157	-1	KIAA0470	KAB, FAM68A
1	CEP170	ENSG00000143702	ENST00000413359	protein_coding	NOVEL	None	28920	789	262	243292662	243327796	-1	KIAA0470	KAB, FAM68A
1	CEP170	ENSG00000143702	ENST00000464936	protein_coding	PUTATIVE	None	28920	527	174	243292675	243326642	-1	KIAA0470	KAB, FAM68A
1	CEP170	ENSG00000143702	ENST00000468697	retained_intron	KNOWN	None	28920	None	None	243299054	243303376	-1	KIAA0470	KAB, FAM68A
1	CEP170	ENSG00000143702	ENST00000492145	protein_coding	PUTATIVE	None	28920	310	102	243303286	243326612	-1	KIAA0470	KAB, FAM68A
1	CEP170	ENSG00000143702	ENST00000451408	processed_transcript	KNOWN	None	28920	None	None	243328221	243329874	-1	KIAA0470	KAB, FAM68A
1	CEP170	ENSG00000143702	ENST00000518289	processed_transcript	KNOWN	None	28920	None	None	243329291	243338490	-1	KIAA0470	KAB, FAM68A
1	CEP170	ENSG00000143702	ENST00000522895	protein_coding	PUTATIVE	None	28920	520	172	243332742	243349711	-1	KIAA0470	KAB, FAM68A
1	CEP170	ENSG00000143702	ENST00000461671	nonsense_mediated_decay	KNOWN	None	28920	358	118	243332996	243349582	-1	KIAA0470	KAB, FAM68A
1	CEP170	ENSG00000143702	ENST00000521911	retained_intron	KNOWN	None	28920	None	None	243336113	243349801	-1	KIAA0470	KAB, FAM68A
1	CEP170	ENSG00000143702	ENST00000522191	protein_coding	KNOWN	None	28920	400	132	243363916	243417772	-1	KIAA0470	KAB, FAM68A
1	CEP170	ENSG00000143702	ENST00000523424	protein_coding	KNOWN	None	28920	333	110	243364079	243416622	-1	KIAA0470	KAB, FAM68A
1	CEP170	ENSG00000143702	ENST00000522522	retained_intron	KNOWN	None	28920	None	None	243374515	243418533	-1	KIAA0470	KAB, FAM68A
1	CEP170	ENSG00000143702	ENST00000522995	protein_coding	KNOWN	None	28920	265	87	243375197	243418650	-1	KIAA0470	KAB, FAM68A
1	CEP170	ENSG00000143702	ENST00000523581	retained_intron	KNOWN	None	28920	None	None	243384857	243418518	-1	KIAA0470	KAB, FAM68A
4	GRPEL1	ENSG00000109519	ENST00000264954	protein_coding	KNOWN	CCDS3396	19696	654	217	7060633	7069924	-1	None	HMGE, FLJ25609
4	GRPEL1	ENSG00000109519	ENST00000504920	retained_intron	KNOWN	None	19696	None	None	7062256	7069791	-1	None	HMGE, FLJ25609
4	GRPEL1	ENSG00000109519	ENST00000509696	retained_intron	KNOWN	None	19696	None	None	7062415	7066068	-1	None	HMGE, FLJ25609
4	GRPEL1	ENSG00000109519	ENST00000514056	processed_transcript	KNOWN	None	19696	None	None	7062865	7069274	-1	None	HMGE, FLJ25609
1	ANKRD13C	ENSG00000118454	ENST00000370944	protein_coding	KNOWN	CCDS648	25374	1626	541	70726271	70820405	-1	None	DKFZP566D1346, dJ677H15.3
1	ANKRD13C	ENSG00000118454	ENST00000262346	protein_coding	KNOWN	None	25374	1521	506	70726920	70820417	-1	None	DKFZP566D1346, dJ677H15.3
1	ANKRD13C	ENSG00000118454	ENST00000464236	processed_transcript	KNOWN	None	25374	None	None	70727957	70742526	-1	None	DKFZP566D1346, dJ677H15.3
1	ANKRD13C	ENSG00000118454	ENST00000490846	processed_transcript	KNOWN	None	25374	None	None	70757829	70779473	-1	None	DKFZP566D1346, dJ677H15.3
1	ANKRD13C	ENSG00000118454	ENST00000498735	processed_transcript	KNOWN	None	25374	None	None	70771369	70790640	-1	None	DKFZP566D1346, dJ677H15.3
17	ZNHIT3	ENSG00000108278	ENST00000490126	protein_coding	PUTATIVE	None	12309	129	42	34842473	34851667	1	TRIP3	None
17	ZNHIT3	ENSG00000108278	ENST00000225410	protein_coding	KNOWN	CCDS11312	12309	468	155	34842479	34851666	1	TRIP3	None
17	ZNHIT3	ENSG00000108278	ENST00000588253	protein_coding	PUTATIVE	None	12309	72	23	34842522	34855154	1	TRIP3	None
17	ZNHIT3	ENSG00000108278	ENST00000592684	retained_intron	KNOWN	None	12309	None	None	34842525	34849112	1	TRIP3	None
17	ZNHIT3	ENSG00000108278	ENST00000586660	nonsense_mediated_decay	KNOWN	None	12309	123	40	34842538	34853761	1	TRIP3	None
17	ZNHIT3	ENSG00000108278	ENST00000592616	protein_coding	PUTATIVE	None	12309	447	148	34842539	34853992	1	TRIP3	None
17	ZNHIT3	ENSG00000108278	ENST00000590827	nonsense_mediated_decay	KNOWN	None	12309	129	42	34842544	34851666	1	TRIP3	None
17	ZNHIT3	ENSG00000108278	ENST00000590858	protein_coding	PUTATIVE	None	12309	72	23	34842548	34854186	1	TRIP3	None
17	ZNHIT3	ENSG00000108278	ENST00000588357	protein_coding	NOVEL	None	12309	272	89	34842572	34851592	1	TRIP3	None
17	ZNHIT3	ENSG00000108278	ENST00000590424	retained_intron	KNOWN	None	12309	None	None	34845001	34851663	1	TRIP3	None
17	ZNHIT3	ENSG00000108278	ENST00000588902	protein_coding	PUTATIVE	None	12309	37	11	34848068	34851156	1	TRIP3	None
17	ZNHIT3	ENSG00000108278	ENST00000591067	protein_coding	PUTATIVE	None	12309	88	28	34848074	34851207	1	TRIP3	None
17	CHD3	ENSG00000170004	ENST00000380358	protein_coding	NOVEL	CCDS32553	1918	6180	2059	7788124	7816078	1	None	Mi-2a, ZFH, Mi2-ALPHA
17	CHD3	ENSG00000170004	ENST00000358181	protein_coding	KNOWN	CCDS32555	1918	5901	1966	7792109	7816078	1	None	Mi-2a, ZFH, Mi2-ALPHA
17	CHD3	ENSG00000170004	ENST00000330494	protein_coding	KNOWN	CCDS32554	1918	6003	2000	7792169	7816078	1	None	Mi-2a, ZFH, Mi2-ALPHA
17	CHD3	ENSG00000170004	ENST00000570758	processed_transcript	KNOWN	None	1918	None	None	7793036	7794008	1	None	Mi-2a, ZFH, Mi2-ALPHA
17	CHD3	ENSG00000170004	ENST00000574022	processed_transcript	KNOWN	None	1918	None	None	7793742	7793923	1	None	Mi-2a, ZFH, Mi2-ALPHA
17	CHD3	ENSG00000170004	ENST00000452447	protein_coding	PUTATIVE	None	1918	1573	523	7794053	7801331	1	None	Mi-2a, ZFH, Mi2-ALPHA
17	CHD3	ENSG00000170004	ENST00000572579	retained_intron	KNOWN	None	1918	None	None	7796604	7798109	1	None	Mi-2a, ZFH, Mi2-ALPHA
17	CHD3	ENSG00000170004	ENST00000571249	protein_coding	NOVEL	None	1918	330	109	7797147	7797822	1	None	Mi-2a, ZFH, Mi2-ALPHA
17	CHD3	ENSG00000170004	ENST00000479080	retained_intron	KNOWN	None	1918	None	None	7797872	7798886	1	None	Mi-2a, ZFH, Mi2-ALPHA
17	CHD3	ENSG00000170004	ENST00000470531	nonsense_mediated_decay	KNOWN	None	1918	192	63	7807166	7816078	1	None	Mi-2a, ZFH, Mi2-ALPHA
17	CHD3	ENSG00000170004	ENST00000466233	retained_intron	KNOWN	None	1918	None	None	7807392	7808974	1	None	Mi-2a, ZFH, Mi2-ALPHA
17	CHD3	ENSG00000170004	ENST00000473376	retained_intron	KNOWN	None	1918	None	None	7807553	7808594	1	None	Mi-2a, ZFH, Mi2-ALPHA
17	CHD3	ENSG00000170004	ENST00000572750	retained_intron	KNOWN	None	1918	None	None	7810757	7811888	1	None	Mi-2a, ZFH, Mi2-ALPHA
17	CHD3	ENSG00000170004	ENST00000439235	protein_coding	PUTATIVE	None	1918	1152	383	7811014	7815133	1	None	Mi-2a, ZFH, Mi2-ALPHA
17	CHD3	ENSG00000170004	ENST00000573936	protein_coding	PUTATIVE	None	1918	749	248	7811229	7814213	1	None	Mi-2a, ZFH, Mi2-ALPHA
17	CHD3	ENSG00000170004	ENST00000449744	protein_coding	PUTATIVE	None	1918	834	277	7811310	7815068	1	None	Mi-2a, ZFH, Mi2-ALPHA
17	CHD3	ENSG00000170004	ENST00000481999	retained_intron	KNOWN	None	1918	None	None	7812819	7816078	1	None	Mi-2a, ZFH, Mi2-ALPHA
1	ETV3L	ENSG00000253831	ENST00000454449	protein_coding	KNOWN	CCDS30893	33834	1086	361	157061836	157069600	-1	None	FLJ16478
1	ETV3	ENSG00000117036	ENST00000368192	protein_coding	KNOWN	CCDS44250	3492	1539	512	157090983	157108159	-1	None	PE-1
1	ETV3	ENSG00000117036	ENST00000326786	protein_coding	KNOWN	CCDS1164	3492	432	143	157102937	157108266	-1	None	PE-1
1	ETV3	ENSG00000117036	ENST00000460850	processed_transcript	KNOWN	None	3492	None	None	157104884	157108127	-1	None	PE-1
1	HHLA3	ENSG00000197568	ENST00000361764	protein_coding	KNOWN	CCDS649	4906	231	76	70820488	70833594	1	None	None
1	HHLA3	ENSG00000197568	ENST00000359875	protein_coding	KNOWN	CCDS30753	4906	345	114	70820495	70833706	1	None	None
1	HHLA3	ENSG00000197568	ENST00000486110	processed_transcript	PUTATIVE	None	4906	None	None	70820511	70831920	1	None	None
1	HHLA3	ENSG00000197568	ENST00000463058	nonsense_mediated_decay	KNOWN	CCDS649	4906	231	76	70820512	70833706	1	None	None
1	HHLA3	ENSG00000197568	ENST00000370940	protein_coding	KNOWN	CCDS30752	4906	366	121	70820519	70833704	1	None	None
1	HHLA3	ENSG00000197568	ENST00000531950	protein_coding	KNOWN	CCDS30753	4906	345	114	70820527	70851022	1	None	None
1	HHLA3	ENSG00000197568	ENST00000525653	nonsense_mediated_decay	KNOWN	None	4906	225	74	70820538	70833406	1	None	None
1	HHLA3	ENSG00000197568	ENST00000432224	protein_coding	KNOWN	None	4906	465	154	70820635	70833703	1	None	None
10	C10orf10	ENSG00000165507	ENST00000496638	processed_transcript	KNOWN	None	23355	None	None	45466429	45474238	-1	None	DEPP, FIG
10	C10orf10	ENSG00000165507	ENST00000298295	protein_coding	KNOWN	CCDS7210	23355	639	212	45471577	45474258	-1	None	DEPP, FIG
10	C10orf10	ENSG00000165507	ENST00000448778	protein_coding	KNOWN	None	23355	252	83	45473227	45474237	-1	None	DEPP, FIG
7	CLDN15	ENSG00000106404	ENST00000308344	protein_coding	KNOWN	CCDS5717	2036	687	228	100875373	100881227	-1	None	None
7	CLDN15	ENSG00000106404	ENST00000401528	protein_coding	KNOWN	CCDS5717	2036	687	228	100875373	100882101	-1	None	None
7	CLDN15	ENSG00000106404	ENST00000433833	nonsense_mediated_decay	KNOWN	None	2036	319	105	100875686	100880758	-1	None	None
7	CLDN15	ENSG00000106404	ENST00000414035	protein_coding	NOVEL	None	2036	444	147	100875769	100881050	-1	None	None
7	CLDN15	ENSG00000106404	ENST00000412417	protein_coding	NOVEL	None	2036	512	169	100875885	100881041	-1	None	None
7	CLDN15	ENSG00000106404	ENST00000463331	retained_intron	KNOWN	None	2036	None	None	100877050	100881031	-1	None	None
7	CLDN15	ENSG00000106404	ENST00000433422	processed_transcript	KNOWN	None	2036	None	None	100877619	100881046	-1	None	None
17	NARF	ENSG00000141562	ENST00000579198	protein_coding	KNOWN	None	29916	111	36	80416056	80426675	1	None	FLJ10067, DKFZp434G0420, IOP2
17	NARF	ENSG00000141562	ENST00000390006	protein_coding	KNOWN	CCDS42404	29916	1194	397	80416061	80446131	1	None	FLJ10067, DKFZp434G0420, IOP2
17	NARF	ENSG00000141562	ENST00000583181	processed_transcript	PUTATIVE	None	29916	None	None	80416070	80426739	1	None	FLJ10067, DKFZp434G0420, IOP2
17	NARF	ENSG00000141562	ENST00000584192	processed_transcript	PUTATIVE	None	29916	None	None	80416104	80426772	1	None	FLJ10067, DKFZp434G0420, IOP2
17	NARF	ENSG00000141562	ENST00000580296	protein_coding	KNOWN	None	29916	259	85	80416235	80430490	1	None	FLJ10067, DKFZp434G0420, IOP2
17	NARF	ENSG00000141562	ENST00000309794	protein_coding	KNOWN	CCDS32777	29916	1371	456	80416482	80446143	1	None	FLJ10067, DKFZp434G0420, IOP2
17	NARF	ENSG00000141562	ENST00000345415	protein_coding	KNOWN	CCDS42403	29916	1227	408	80416525	80446138	1	None	FLJ10067, DKFZp434G0420, IOP2
17	NARF	ENSG00000141562	ENST00000581202	nonsense_mediated_decay	KNOWN	None	29916	654	217	80416540	80441692	1	None	FLJ10067, DKFZp434G0420, IOP2
17	NARF	ENSG00000141562	ENST00000374611	nonsense_mediated_decay	KNOWN	None	29916	789	262	80416573	80446139	1	None	FLJ10067, DKFZp434G0420, IOP2
17	NARF	ENSG00000141562	ENST00000582585	nonsense_mediated_decay	KNOWN	None	29916	300	99	80416574	80418890	1	None	FLJ10067, DKFZp434G0420, IOP2
17	NARF	ENSG00000141562	ENST00000457415	protein_coding	NOVEL	None	29916	1509	502	80416579	80446091	1	None	FLJ10067, DKFZp434G0420, IOP2
17	NARF	ENSG00000141562	ENST00000584411	protein_coding	KNOWN	None	29916	263	86	80416587	80430494	1	None	FLJ10067, DKFZp434G0420, IOP2
17	NARF	ENSG00000141562	ENST00000581795	nonsense_mediated_decay	KNOWN	None	29916	432	143	80416587	80442197	1	None	FLJ10067, DKFZp434G0420, IOP2
17	NARF	ENSG00000141562	ENST00000577812	retained_intron	KNOWN	None	29916	None	None	80416588	80446135	1	None	FLJ10067, DKFZp434G0420, IOP2
17	NARF	ENSG00000141562	ENST00000581743	processed_transcript	KNOWN	None	29916	None	None	80416590	80437869	1	None	FLJ10067, DKFZp434G0420, IOP2
17	NARF	ENSG00000141562	ENST00000577432	protein_coding	NOVEL	None	29916	786	261	80416600	80442776	1	None	FLJ10067, DKFZp434G0420, IOP2
17	NARF	ENSG00000141562	ENST00000582907	nonsense_mediated_decay	KNOWN	None	29916	567	188	80416602	80445941	1	None	FLJ10067, DKFZp434G0420, IOP2
17	NARF	ENSG00000141562	ENST00000578082	retained_intron	KNOWN	None	29916	None	None	80416622	80437082	1	None	FLJ10067, DKFZp434G0420, IOP2
17	NARF	ENSG00000141562	ENST00000580748	nonsense_mediated_decay	KNOWN	None	29916	300	99	80416630	80426663	1	None	FLJ10067, DKFZp434G0420, IOP2
17	NARF	ENSG00000141562	ENST00000577410	protein_coding	KNOWN	None	29916	474	157	80416751	80438969	1	None	FLJ10067, DKFZp434G0420, IOP2
17	NARF	ENSG00000141562	ENST00000579083	retained_intron	KNOWN	None	29916	None	None	80426375	80436703	1	None	FLJ10067, DKFZp434G0420, IOP2
17	NARF	ENSG00000141562	ENST00000584445	retained_intron	KNOWN	None	29916	None	None	80438344	80446138	1	None	FLJ10067, DKFZp434G0420, IOP2
17	NARF	ENSG00000141562	ENST00000584965	retained_intron	KNOWN	None	29916	None	None	80438875	80446137	1	None	FLJ10067, DKFZp434G0420, IOP2
17	NARF	ENSG00000141562	ENST00000584513	protein_coding	NOVEL	None	29916	500	165	80438957	80445938	1	None	FLJ10067, DKFZp434G0420, IOP2
17	NARF	ENSG00000141562	ENST00000583908	retained_intron	KNOWN	None	29916	None	None	80442415	80446134	1	None	FLJ10067, DKFZp434G0420, IOP2
17	NARF	ENSG00000141562	ENST00000578820	retained_intron	KNOWN	None	29916	None	None	80442684	80446135	1	None	FLJ10067, DKFZp434G0420, IOP2
17	NARF	ENSG00000141562	ENST00000412079	protein_coding	KNOWN	None	29916	453	150	80416587	80441857	1	None	FLJ10067, DKFZp434G0420, IOP2
1	None	ENSG00000269795	ENST00000596590	protein_coding	NOVEL	None	None	63	20	243388058	243395911	1	None	None
10	SEC61A2	ENSG00000065665	ENST00000379051	protein_coding	PUTATIVE	None	17702	480	159	12171636	12197403	1	None	FLJ10578
10	SEC61A2	ENSG00000065665	ENST00000441368	protein_coding	KNOWN	None	17702	569	188	12171665	12199962	1	None	FLJ10578
10	SEC61A2	ENSG00000065665	ENST00000475268	nonsense_mediated_decay	KNOWN	None	17702	1257	418	12171693	12211960	1	None	FLJ10578
10	SEC61A2	ENSG00000065665	ENST00000298428	protein_coding	KNOWN	CCDS7088	17702	1431	476	12171698	12206826	1	None	FLJ10578
10	SEC61A2	ENSG00000065665	ENST00000495368	processed_transcript	KNOWN	None	17702	None	None	12171698	12211960	1	None	FLJ10578
10	SEC61A2	ENSG00000065665	ENST00000304267	protein_coding	KNOWN	CCDS44358	17702	1314	437	12171700	12211955	1	None	FLJ10578
10	SEC61A2	ENSG00000065665	ENST00000472221	nonsense_mediated_decay	KNOWN	None	17702	489	162	12171701	12200047	1	None	FLJ10578
10	SEC61A2	ENSG00000065665	ENST00000379020	protein_coding	KNOWN	None	17702	1233	410	12171726	12207411	1	None	FLJ10578
10	SEC61A2	ENSG00000065665	ENST00000379017	protein_coding	KNOWN	None	17702	507	168	12171732	12195819	1	None	FLJ10578
10	SEC61A2	ENSG00000065665	ENST00000457034	protein_coding	KNOWN	None	17702	284	93	12178108	12191766	1	None	FLJ10578
10	SEC61A2	ENSG00000065665	ENST00000418772	protein_coding	KNOWN	None	17702	434	143	12185139	12200042	1	None	FLJ10578
10	SEC61A2	ENSG00000065665	ENST00000419021	protein_coding	KNOWN	None	17702	685	227	12191855	12206546	1	None	FLJ10578
10	SEC61A2	ENSG00000065665	ENST00000466451	processed_transcript	KNOWN	None	17702	None	None	12199018	12200284	1	None	FLJ10578
10	SEC61A2	ENSG00000065665	ENST00000379033	protein_coding	KNOWN	CCDS44359	17702	1365	454	12171640	12207403	1	None	FLJ10578
1	CTH	ENSG00000116761	ENST00000464926	processed_transcript	KNOWN	None	2501	None	None	70876955	70896077	1	None	None
1	CTH	ENSG00000116761	ENST00000370938	protein_coding	KNOWN	CCDS650	2501	1218	405	70876955	70905253	1	None	None
1	CTH	ENSG00000116761	ENST00000346806	protein_coding	KNOWN	CCDS651	2501	1086	361	70877066	70904887	1	None	None
1	CTH	ENSG00000116761	ENST00000482383	processed_transcript	KNOWN	None	2501	None	None	70900534	70904915	1	None	None
1	CTH	ENSG00000116761	ENST00000411986	protein_coding	KNOWN	CCDS53333	2501	1122	373	70876901	70905534	1	None	None
19	SIGLEC11	ENSG00000161640	ENST00000447370	protein_coding	KNOWN	CCDS12790	15622	2097	698	50452242	50464429	-1	None	None
19	SIGLEC11	ENSG00000161640	ENST00000426971	protein_coding	NOVEL	CCDS46150	15622	1809	602	50452557	50464338	-1	None	None
19	SIGLEC11	ENSG00000161640	ENST00000426296	nonsense_mediated_decay	KNOWN	None	15622	181	59	50452927	50461715	-1	None	None
X	F8	ENSG00000185010	ENST00000330287	protein_coding	PUTATIVE	CCDS44026	3546	651	216	154064063	154114592	-1	F8C	FVIII, DXS1253E, HEMA
X	F8	ENSG00000185010	ENST00000360256	protein_coding	KNOWN	CCDS35457	3546	7056	2351	154064070	154251028	-1	F8C	FVIII, DXS1253E, HEMA
X	F8	ENSG00000185010	ENST00000483822	processed_transcript	PUTATIVE	None	3546	None	None	154194053	154194791	-1	F8C	FVIII, DXS1253E, HEMA
X	F8	ENSG00000185010	ENST00000423959	protein_coding	PUTATIVE	None	3546	668	221	154212976	154255215	-1	F8C	FVIII, DXS1253E, HEMA
X	F8	ENSG00000185010	ENST00000453950	protein_coding	PUTATIVE	None	3546	494	163	154221300	154255143	-1	F8C	FVIII, DXS1253E, HEMA
2	NRP2	ENSG00000118257	ENST00000464003	processed_transcript	KNOWN	None	8005	None	None	206546714	206566281	1	None	VEGF165R2
2	NRP2	ENSG00000118257	ENST00000360409	protein_coding	KNOWN	CCDS2364	8005	2796	931	206547224	206662857	1	None	VEGF165R2
2	NRP2	ENSG00000118257	ENST00000450507	protein_coding	KNOWN	None	8005	305	100	206547225	206580970	1	None	VEGF165R2
2	NRP2	ENSG00000118257	ENST00000417189	protein_coding	KNOWN	CCDS46499	8005	1668	555	206547231	206608422	1	None	VEGF165R2
2	NRP2	ENSG00000118257	ENST00000478013	retained_intron	KNOWN	None	8005	None	None	206547382	206562633	1	None	VEGF165R2
2	NRP2	ENSG00000118257	ENST00000357118	protein_coding	KNOWN	CCDS46498	8005	2706	901	206547984	206641880	1	None	VEGF165R2
2	NRP2	ENSG00000118257	ENST00000357785	protein_coding	KNOWN	CCDS46496	8005	2781	926	206547984	206659896	1	None	VEGF165R2
2	NRP2	ENSG00000118257	ENST00000272849	protein_coding	KNOWN	CCDS2365	8005	2721	906	206548015	206641880	1	None	VEGF165R2
2	NRP2	ENSG00000118257	ENST00000412873	protein_coding	KNOWN	CCDS46497	8005	2730	909	206548015	206659782	1	None	VEGF165R2
2	NRP2	ENSG00000118257	ENST00000483917	retained_intron	KNOWN	None	8005	None	None	206550517	206562458	1	None	VEGF165R2
2	NRP2	ENSG00000118257	ENST00000477199	retained_intron	KNOWN	None	8005	None	None	206586989	206588646	1	None	VEGF165R2
2	NRP2	ENSG00000118257	ENST00000478054	processed_transcript	KNOWN	None	8005	None	None	206604660	206608417	1	None	VEGF165R2
2	NRP2	ENSG00000118257	ENST00000460987	retained_intron	KNOWN	None	8005	None	None	206614415	206628531	1	None	VEGF165R2
2	NRP2	ENSG00000118257	ENST00000468256	retained_intron	KNOWN	None	8005	None	None	206617192	206628530	1	None	VEGF165R2
2	NRP2	ENSG00000118257	ENST00000485684	processed_transcript	KNOWN	None	8005	None	None	206628459	206633205	1	None	VEGF165R2
2	NRP2	ENSG00000118257	ENST00000472299	retained_intron	KNOWN	None	8005	None	None	206628525	206631788	1	None	VEGF165R2
2	NRP2	ENSG00000118257	ENST00000467850	processed_transcript	KNOWN	None	8005	None	None	206629061	206659845	1	None	VEGF165R2
2	NRP2	ENSG00000118257	ENST00000540178	protein_coding	KNOWN	None	8005	2781	926	206547224	206662854	1	None	VEGF165R2
2	NRP2	ENSG00000118257	ENST00000540841	protein_coding	KNOWN	None	8005	2730	909	206547224	206659782	1	None	VEGF165R2
2	NRP2	ENSG00000118257	ENST00000355117	protein_coding	KNOWN	CCDS46499	8005	1668	555	206547224	206608421	1	None	VEGF165R2
1	FCRL5	ENSG00000143297	ENST00000462218	processed_transcript	KNOWN	None	18508	None	None	157483167	157485863	-1	None	FCRH5, IRTA2, BXMAS1, CD307e
1	FCRL5	ENSG00000143297	ENST00000361835	protein_coding	KNOWN	CCDS1165	18508	2934	977	157483167	157522310	-1	None	FCRH5, IRTA2, BXMAS1, CD307e
1	FCRL5	ENSG00000143297	ENST00000461387	processed_transcript	KNOWN	None	18508	None	None	157483168	157492584	-1	None	FCRH5, IRTA2, BXMAS1, CD307e
1	FCRL5	ENSG00000143297	ENST00000497286	processed_transcript	KNOWN	None	18508	None	None	157483168	157498459	-1	None	FCRH5, IRTA2, BXMAS1, CD307e
1	FCRL5	ENSG00000143297	ENST00000483875	processed_transcript	KNOWN	None	18508	None	None	157488219	157488866	-1	None	FCRH5, IRTA2, BXMAS1, CD307e
1	FCRL5	ENSG00000143297	ENST00000368190	protein_coding	KNOWN	None	18508	2280	759	157493601	157522245	-1	None	FCRH5, IRTA2, BXMAS1, CD307e
1	FCRL5	ENSG00000143297	ENST00000368189	protein_coding	KNOWN	None	18508	1779	592	157501754	157522245	-1	None	FCRH5, IRTA2, BXMAS1, CD307e
1	FCRL5	ENSG00000143297	ENST00000481082	processed_transcript	KNOWN	None	18508	None	None	157511615	157522257	-1	None	FCRH5, IRTA2, BXMAS1, CD307e
1	FCRL5	ENSG00000143297	ENST00000356953	protein_coding	KNOWN	None	18508	2934	977	157485041	157522180	-1	None	FCRH5, IRTA2, BXMAS1, CD307e
1	FCRL5	ENSG00000143297	ENST00000368191	protein_coding	KNOWN	None	18508	2025	674	157493832	157522283	-1	None	FCRH5, IRTA2, BXMAS1, CD307e
1	FCRL5	ENSG00000143297	ENST00000368188	protein_coding	KNOWN	None	18508	375	124	157516003	157522180	-1	None	FCRH5, IRTA2, BXMAS1, CD307e
8	LYPLA1	ENSG00000120992	ENST00000316963	protein_coding	KNOWN	CCDS6157	6737	693	230	54958938	55014577	-1	None	LPL1
8	LYPLA1	ENSG00000120992	ENST00000343231	protein_coding	KNOWN	None	6737	645	214	54959967	55014388	-1	None	LPL1
8	LYPLA1	ENSG00000120992	ENST00000519272	processed_transcript	KNOWN	None	6737	None	None	54960352	55014004	-1	None	LPL1
8	LYPLA1	ENSG00000120992	ENST00000520718	processed_transcript	PUTATIVE	None	6737	None	None	54960523	54965458	-1	None	LPL1
8	LYPLA1	ENSG00000120992	ENST00000518546	protein_coding	NOVEL	None	6737	592	196	54963571	55014537	-1	None	LPL1
8	LYPLA1	ENSG00000120992	ENST00000522007	protein_coding	NOVEL	None	6737	177	58	54963632	55014415	-1	None	LPL1
8	LYPLA1	ENSG00000120992	ENST00000519891	processed_transcript	KNOWN	None	6737	None	None	54963685	55014114	-1	None	LPL1
8	LYPLA1	ENSG00000120992	ENST00000521352	protein_coding	NOVEL	None	6737	271	89	54965214	55014095	-1	None	LPL1
8	LYPLA1	ENSG00000120992	ENST00000519926	processed_transcript	KNOWN	None	6737	None	None	54965758	55014409	-1	None	LPL1
8	LYPLA1	ENSG00000120992	ENST00000517297	retained_intron	KNOWN	None	6737	None	None	54967013	55014414	-1	None	LPL1
8	LYPLA1	ENSG00000120992	ENST00000521898	protein_coding	NOVEL	None	6737	300	99	54967614	55014418	-1	None	LPL1
8	LYPLA1	ENSG00000120992	ENST00000520896	processed_transcript	KNOWN	None	6737	None	None	54967662	55014114	-1	None	LPL1
8	LYPLA1	ENSG00000120992	ENST00000521856	processed_transcript	PUTATIVE	None	6737	None	None	55012910	55014488	-1	None	LPL1
1	SDCCAG8	ENSG00000054282	ENST00000490065	processed_transcript	KNOWN	None	10671	None	None	243419336	243449699	1	None	NY-CO-8, CCCAP, SLSN7, NPHP10, BBS16
1	SDCCAG8	ENSG00000054282	ENST00000366541	protein_coding	KNOWN	CCDS31075	10671	2142	713	243419358	243663394	1	None	NY-CO-8, CCCAP, SLSN7, NPHP10, BBS16
1	SDCCAG8	ENSG00000054282	ENST00000491888	processed_transcript	KNOWN	None	10671	None	None	243432438	243434334	1	None	NY-CO-8, CCCAP, SLSN7, NPHP10, BBS16
1	SDCCAG8	ENSG00000054282	ENST00000482234	processed_transcript	KNOWN	None	10671	None	None	243434327	243468389	1	None	NY-CO-8, CCCAP, SLSN7, NPHP10, BBS16
1	SDCCAG8	ENSG00000054282	ENST00000476722	protein_coding	PUTATIVE	None	10671	467	154	243449656	243469850	1	None	NY-CO-8, CCCAP, SLSN7, NPHP10, BBS16
1	SDCCAG8	ENSG00000054282	ENST00000435549	protein_coding	KNOWN	None	10671	1245	414	243449685	243663393	1	None	NY-CO-8, CCCAP, SLSN7, NPHP10, BBS16
1	SDCCAG8	ENSG00000054282	ENST00000496361	processed_transcript	KNOWN	None	10671	None	None	243456420	243468859	1	None	NY-CO-8, CCCAP, SLSN7, NPHP10, BBS16
1	SDCCAG8	ENSG00000054282	ENST00000463012	processed_transcript	KNOWN	None	10671	None	None	243471086	243480197	1	None	NY-CO-8, CCCAP, SLSN7, NPHP10, BBS16
1	SDCCAG8	ENSG00000054282	ENST00000493334	processed_transcript	KNOWN	None	10671	None	None	243502055	243579131	1	None	NY-CO-8, CCCAP, SLSN7, NPHP10, BBS16
1	SDCCAG8	ENSG00000054282	ENST00000463042	processed_transcript	KNOWN	None	10671	None	None	243581319	243639666	1	None	NY-CO-8, CCCAP, SLSN7, NPHP10, BBS16
1	SDCCAG8	ENSG00000054282	ENST00000497459	processed_transcript	KNOWN	None	10671	None	None	243651117	243663391	1	None	NY-CO-8, CCCAP, SLSN7, NPHP10, BBS16
1	SDCCAG8	ENSG00000054282	ENST00000355875	protein_coding	KNOWN	None	10671	2013	670	243419320	243663388	1	None	NY-CO-8, CCCAP, SLSN7, NPHP10, BBS16
1	SDCCAG8	ENSG00000054282	ENST00000391846	protein_coding	KNOWN	None	10671	1083	360	243419320	243481353	1	None	NY-CO-8, CCCAP, SLSN7, NPHP10, BBS16
1	SDCCAG8	ENSG00000054282	ENST00000343783	protein_coding	KNOWN	None	10671	1707	568	243419372	243663392	1	None	NY-CO-8, CCCAP, SLSN7, NPHP10, BBS16
19	ZNF585A	ENSG00000196967	ENST00000587817	nonsense_mediated_decay	KNOWN	None	26305	342	113	37597636	37663628	-1	None	FLJ23765
19	ZNF585A	ENSG00000196967	ENST00000588723	processed_transcript	KNOWN	None	26305	None	None	37605900	37663594	-1	None	FLJ23765
19	ZNF585A	ENSG00000196967	ENST00000356958	protein_coding	KNOWN	None	26305	2310	769	37638513	37663643	-1	None	FLJ23765
19	ZNF585A	ENSG00000196967	ENST00000392157	protein_coding	KNOWN	CCDS12499	26305	2145	714	37641912	37663338	-1	None	FLJ23765
19	ZNF585A	ENSG00000196967	ENST00000588354	protein_coding	PUTATIVE	None	26305	78	25	37656287	37663596	-1	None	FLJ23765
19	ZNF585A	ENSG00000196967	ENST00000292841	protein_coding	KNOWN	CCDS12499	26305	2145	714	37641004	37663615	-1	None	FLJ23765
19	ZNF585A	ENSG00000196967	ENST00000355533	protein_coding	KNOWN	None	26305	1221	406	37642491	37663615	-1	None	FLJ23765
7	FIS1	ENSG00000214253	ENST00000449367	nonsense_mediated_decay	KNOWN	None	21689	141	46	100882739	100888356	-1	TTC11	CGI-135, H_NH0132A01.6, Fis1
7	FIS1	ENSG00000214253	ENST00000482199	processed_transcript	KNOWN	None	21689	None	None	100882833	100885066	-1	TTC11	CGI-135, H_NH0132A01.6, Fis1
7	FIS1	ENSG00000214253	ENST00000474120	protein_coding	PUTATIVE	None	21689	180	59	100882875	100895597	-1	TTC11	CGI-135, H_NH0132A01.6, Fis1
7	FIS1	ENSG00000214253	ENST00000442303	protein_coding	PUTATIVE	None	21689	273	90	100882888	100888329	-1	TTC11	CGI-135, H_NH0132A01.6, Fis1
7	FIS1	ENSG00000214253	ENST00000463406	processed_transcript	KNOWN	None	21689	None	None	100882893	100884458	-1	TTC11	CGI-135, H_NH0132A01.6, Fis1
7	FIS1	ENSG00000214253	ENST00000223136	protein_coding	KNOWN	CCDS43626	21689	459	152	100882893	100888366	-1	TTC11	CGI-135, H_NH0132A01.6, Fis1
7	FIS1	ENSG00000214253	ENST00000473527	nonsense_mediated_decay	KNOWN	None	21689	243	80	100882893	100895572	-1	TTC11	CGI-135, H_NH0132A01.6, Fis1
7	FIS1	ENSG00000214253	ENST00000435848	protein_coding	PUTATIVE	None	21689	467	154	100882942	100895414	-1	TTC11	CGI-135, H_NH0132A01.6, Fis1
7	FIS1	ENSG00000214253	ENST00000480497	processed_transcript	KNOWN	None	21689	None	None	100883013	100888012	-1	TTC11	CGI-135, H_NH0132A01.6, Fis1
10	C10orf25	ENSG00000165511	ENST00000298298	protein_coding	KNOWN	CCDS31187	23509	369	122	45493146	45496336	-1	None	FLJ30567
8	LEPROTL1	ENSG00000104660	ENST00000321250	protein_coding	KNOWN	CCDS6075	6555	396	131	29952914	29966040	1	None	my047, Vps55
8	LEPROTL1	ENSG00000104660	ENST00000518001	protein_coding	PUTATIVE	None	6555	213	70	29952926	29963544	1	None	my047, Vps55
8	LEPROTL1	ENSG00000104660	ENST00000520682	protein_coding	NOVEL	None	6555	487	161	29952936	29989699	1	None	my047, Vps55
8	LEPROTL1	ENSG00000104660	ENST00000442880	protein_coding	PUTATIVE	None	6555	435	144	29952941	29995213	1	None	my047, Vps55
8	LEPROTL1	ENSG00000104660	ENST00000523116	protein_coding	KNOWN	CCDS47834	6555	510	169	29952996	29995864	1	None	my047, Vps55
8	LEPROTL1	ENSG00000104660	ENST00000520739	nonsense_mediated_decay	KNOWN	None	6555	321	106	29953003	30034724	1	None	my047, Vps55
8	LEPROTL1	ENSG00000104660	ENST00000518192	protein_coding	PUTATIVE	None	6555	465	154	29953165	29963605	1	None	my047, Vps55
8	LEPROTL1	ENSG00000104660	ENST00000519466	protein_coding	PUTATIVE	None	6555	410	135	29959456	29962603	1	None	my047, Vps55
10	ZNF22	ENSG00000165512	ENST00000298299	protein_coding	KNOWN	CCDS7211	13012	675	224	45495923	45500774	1	None	KOX15, HKR-T1, ZNF422, Zfp422
14	ESRRB	ENSG00000119715	ENST00000512784	protein_coding	PUTATIVE	None	3473	1525	507	76776957	76967047	1	ESRL2, DFNB35	ERR2, ERRbeta, NR3B2, ERRb
14	ESRRB	ENSG00000119715	ENST00000505752	nonsense_mediated_decay	KNOWN	None	3473	1503	500	76837487	76967208	1	ESRL2, DFNB35	ERR2, ERRbeta, NR3B2, ERRb
14	ESRRB	ENSG00000119715	ENST00000507951	processed_transcript	KNOWN	None	3473	None	None	76842700	76948472	1	ESRL2, DFNB35	ERR2, ERRbeta, NR3B2, ERRb
14	ESRRB	ENSG00000119715	ENST00000509242	protein_coding	KNOWN	CCDS9850	3473	1527	508	76870772	76967583	1	ESRL2, DFNB35	ERR2, ERRbeta, NR3B2, ERRb
14	ESRRB	ENSG00000119715	ENST00000556177	protein_coding	NOVEL	None	3473	1302	433	76873881	76964854	1	ESRL2, DFNB35	ERR2, ERRbeta, NR3B2, ERRb
14	ESRRB	ENSG00000119715	ENST00000509323	processed_transcript	KNOWN	None	3473	None	None	76905985	76929770	1	ESRL2, DFNB35	ERR2, ERRbeta, NR3B2, ERRb
14	ESRRB	ENSG00000119715	ENST00000380887	protein_coding	KNOWN	CCDS9850	3473	1527	508	76873881	76968178	1	ESRL2, DFNB35	ERR2, ERRbeta, NR3B2, ERRb
14	ESRRB	ENSG00000119715	ENST00000261532	protein_coding	KNOWN	None	3473	1503	500	76873881	76967072	1	ESRL2, DFNB35	ERR2, ERRbeta, NR3B2, ERRb
1	FCRL4	ENSG00000163518	ENST00000271532	protein_coding	KNOWN	CCDS1166	18507	1548	515	157543539	157567870	-1	None	FCRH4, IRTA1, IGFP2, CD307d
1	FCRL4	ENSG00000163518	ENST00000448509	processed_transcript	KNOWN	None	18507	None	None	157544611	157559041	-1	None	FCRH4, IRTA1, IGFP2, CD307d
1	FCRL4	ENSG00000163518	ENST00000479869	processed_transcript	KNOWN	None	18507	None	None	157545359	157550327	-1	None	FCRH4, IRTA1, IGFP2, CD307d
10	OR13A1	ENSG00000256574	ENST00000553795	protein_coding	KNOWN	CCDS31188	14772	987	328	45798102	45811056	-1	None	None
10	OR13A1	ENSG00000256574	ENST00000374401	protein_coding	KNOWN	CCDS31188	14772	987	328	45798806	45802907	-1	None	None
10	OR13A1	ENSG00000256574	ENST00000536058	protein_coding	KNOWN	CCDS31188	14772	987	328	45798102	45803286	-1	None	None
5	C5orf55	ENSG00000221990	ENST00000408966	protein_coding	KNOWN	CCDS43298	25175	360	119	441645	443258	-1	None	None
6	NT5E	ENSG00000135318	ENST00000369646	protein_coding	KNOWN	None	8021	795	264	86159809	86181317	1	NT5	CD73, eN, eNT, CALJA
6	NT5E	ENSG00000135318	ENST00000257770	protein_coding	KNOWN	CCDS5002	8021	1725	574	86159809	86205496	1	NT5	CD73, eN, eNT, CALJA
6	NT5E	ENSG00000135318	ENST00000416334	protein_coding	KNOWN	None	8021	689	228	86181099	86201879	1	NT5	CD73, eN, eNT, CALJA
6	NT5E	ENSG00000135318	ENST00000437581	protein_coding	KNOWN	None	8021	539	178	86195115	86201043	1	NT5	CD73, eN, eNT, CALJA
6	NT5E	ENSG00000135318	ENST00000369651	protein_coding	KNOWN	CCDS56439	8021	1575	524	86159827	86205500	1	NT5	CD73, eN, eNT, CALJA
2	LBX2	ENSG00000179528	ENST00000377566	protein_coding	KNOWN	None	15525	597	198	74724644	74726843	-1	None	None
2	LBX2	ENSG00000179528	ENST00000460508	protein_coding	KNOWN	CCDS33228	15525	585	194	74724644	74730443	-1	None	None
2	LBX2	ENSG00000179528	ENST00000341396	protein_coding	PUTATIVE	None	15525	174	57	74724709	74730111	-1	None	None
2	LBX2	ENSG00000179528	ENST00000550249	processed_transcript	KNOWN	None	15525	None	None	74724958	74730343	-1	None	None
1	PTGER3	ENSG00000050628	ENST00000370931	protein_coding	NOVEL	CCDS656	9595	1173	390	71318036	71513471	-1	None	EP3
1	PTGER3	ENSG00000050628	ENST00000497146	nonsense_mediated_decay	KNOWN	None	9595	1278	425	71318125	71513471	-1	None	EP3
1	PTGER3	ENSG00000050628	ENST00000479353	nonsense_mediated_decay	KNOWN	None	9595	1182	393	71318125	71513491	-1	None	EP3
1	PTGER3	ENSG00000050628	ENST00000361210	nonsense_mediated_decay	KNOWN	None	9595	1209	402	71318125	71513491	-1	None	EP3
1	PTGER3	ENSG00000050628	ENST00000460330	protein_coding	KNOWN	CCDS652	9595	1125	374	71318256	71513316	-1	None	EP3
1	PTGER3	ENSG00000050628	ENST00000356595	protein_coding	KNOWN	CCDS655	9595	1257	418	71418115	71513471	-1	None	EP3
1	PTGER3	ENSG00000050628	ENST00000306666	protein_coding	KNOWN	CCDS657	9595	1173	390	71436464	71513471	-1	None	EP3
1	PTGER3	ENSG00000050628	ENST00000370924	protein_coding	KNOWN	CCDS658	9595	1167	388	71472314	71513491	-1	None	EP3
1	PTGER3	ENSG00000050628	ENST00000370932	protein_coding	KNOWN	CCDS44160	9595	1098	365	71318036	71513491	-1	None	EP3
1	PTGER3	ENSG00000050628	ENST00000354608	protein_coding	KNOWN	None	9595	1290	429	71349439	71513281	-1	None	EP3
1	PTGER3	ENSG00000050628	ENST00000351052	protein_coding	KNOWN	None	9595	1260	419	71318036	71513491	-1	None	EP3
1	PTGER3	ENSG00000050628	ENST00000414819	protein_coding	KNOWN	CCDS656	9595	1173	390	71418115	71513491	-1	None	EP3
11	MED19	ENSG00000156603	ENST00000337672	protein_coding	KNOWN	CCDS7966	29600	585	194	57471186	57479673	-1	None	LCMR1
11	MED19	ENSG00000156603	ENST00000431606	protein_coding	KNOWN	None	29600	735	244	57471186	57479681	-1	None	LCMR1
11	MED19	ENSG00000156603	ENST00000528205	retained_intron	KNOWN	None	29600	None	None	57471702	57479679	-1	None	LCMR1
11	MED19	ENSG00000156603	ENST00000534677	retained_intron	KNOWN	None	29600	None	None	57472221	57479693	-1	None	LCMR1
2	PCGF1	ENSG00000115289	ENST00000465993	processed_transcript	KNOWN	None	17615	None	None	74732170	74734278	-1	None	NSPC1, RNF68, MGC10882
2	PCGF1	ENSG00000115289	ENST00000475863	retained_intron	KNOWN	None	17615	None	None	74732170	74734543	-1	None	NSPC1, RNF68, MGC10882
2	PCGF1	ENSG00000115289	ENST00000233630	protein_coding	KNOWN	CCDS1946	17615	780	259	74732170	74735707	-1	None	NSPC1, RNF68, MGC10882
2	PCGF1	ENSG00000115289	ENST00000489914	retained_intron	KNOWN	None	17615	None	None	74732173	74732737	-1	None	NSPC1, RNF68, MGC10882
2	PCGF1	ENSG00000115289	ENST00000480844	processed_transcript	KNOWN	None	17615	None	None	74732273	74734544	-1	None	NSPC1, RNF68, MGC10882
2	PCGF1	ENSG00000115289	ENST00000463744	retained_intron	KNOWN	None	17615	None	None	74732495	74732853	-1	None	NSPC1, RNF68, MGC10882
2	PCGF1	ENSG00000115289	ENST00000496911	retained_intron	KNOWN	None	17615	None	None	74733528	74734521	-1	None	NSPC1, RNF68, MGC10882
1	AKT3	ENSG00000117020	ENST00000336199	protein_coding	KNOWN	CCDS31076	393	1398	465	243651535	244006538	-1	None	PKBG, RAC-gamma, PRKBG
1	AKT3	ENSG00000117020	ENST00000366540	protein_coding	KNOWN	CCDS31076	393	1398	465	243663021	244006886	-1	None	PKBG, RAC-gamma, PRKBG
1	AKT3	ENSG00000117020	ENST00000366539	protein_coding	KNOWN	CCDS31077	393	1440	479	243665065	244013430	-1	None	PKBG, RAC-gamma, PRKBG
1	AKT3	ENSG00000117020	ENST00000492957	processed_transcript	KNOWN	None	393	None	None	243775785	243778448	-1	None	PKBG, RAC-gamma, PRKBG
1	AKT3	ENSG00000117020	ENST00000552631	protein_coding	KNOWN	None	393	417	138	243809207	244014381	-1	None	PKBG, RAC-gamma, PRKBG
1	AKT3	ENSG00000117020	ENST00000463991	processed_transcript	KNOWN	None	393	None	None	243828074	243977984	-1	None	PKBG, RAC-gamma, PRKBG
1	AKT3	ENSG00000117020	ENST00000491219	processed_transcript	KNOWN	None	393	None	None	243850739	243859018	-1	None	PKBG, RAC-gamma, PRKBG
1	AKT3	ENSG00000117020	ENST00000490018	processed_transcript	KNOWN	None	393	None	None	243858893	243981476	-1	None	PKBG, RAC-gamma, PRKBG
1	AKT3	ENSG00000117020	ENST00000550388	processed_transcript	KNOWN	None	393	None	None	243898966	243978032	-1	None	PKBG, RAC-gamma, PRKBG
1	AKT3	ENSG00000117020	ENST00000263826	protein_coding	KNOWN	CCDS31077	393	1440	479	243666484	244006553	-1	None	PKBG, RAC-gamma, PRKBG
5	EXOC3	ENSG00000180104	ENST00000512944	protein_coding	KNOWN	CCDS54830	30378	2238	745	443273	467411	1	SEC6L1	Sec6p
5	EXOC3	ENSG00000180104	ENST00000510441	processed_transcript	PUTATIVE	None	30378	None	None	443290	447429	1	SEC6L1	Sec6p
5	EXOC3	ENSG00000180104	ENST00000515601	nonsense_mediated_decay	KNOWN	None	30378	1389	462	443348	472052	1	SEC6L1	Sec6p
5	EXOC3	ENSG00000180104	ENST00000508022	protein_coding	KNOWN	None	30378	206	67	443383	447709	1	SEC6L1	Sec6p
5	EXOC3	ENSG00000180104	ENST00000503889	nonsense_mediated_decay	KNOWN	None	30378	1421	472	453512	472051	1	SEC6L1	Sec6p
5	EXOC3	ENSG00000180104	ENST00000510028	retained_intron	KNOWN	None	30378	None	None	457121	459695	1	SEC6L1	Sec6p
5	EXOC3	ENSG00000180104	ENST00000511015	retained_intron	KNOWN	None	30378	None	None	461745	464843	1	SEC6L1	Sec6p
5	EXOC3	ENSG00000180104	ENST00000505947	retained_intron	KNOWN	None	30378	None	None	464904	466193	1	SEC6L1	Sec6p
5	EXOC3	ENSG00000180104	ENST00000509294	processed_transcript	PUTATIVE	None	30378	None	None	469971	471696	1	SEC6L1	Sec6p
5	EXOC3	ENSG00000180104	ENST00000315013	protein_coding	KNOWN	CCDS54830	30378	2238	745	446264	467398	1	SEC6L1	Sec6p
11	STARD10	ENSG00000214530	ENST00000537351	protein_coding	PUTATIVE	None	10666	426	141	72465774	72470354	-1	SDCCAG28	NY-CO-28, CGI-52, PCTP2
11	STARD10	ENSG00000214530	ENST00000543304	protein_coding	KNOWN	CCDS41688	10666	876	291	72465774	72504702	-1	SDCCAG28	NY-CO-28, CGI-52, PCTP2
11	STARD10	ENSG00000214530	ENST00000334805	protein_coding	KNOWN	CCDS41688	10666	876	291	72465775	72504726	-1	SDCCAG28	NY-CO-28, CGI-52, PCTP2
11	STARD10	ENSG00000214530	ENST00000538536	protein_coding	NOVEL	None	10666	738	245	72465884	72504688	-1	SDCCAG28	NY-CO-28, CGI-52, PCTP2
11	STARD10	ENSG00000214530	ENST00000538437	processed_transcript	KNOWN	None	10666	None	None	72465888	72492161	-1	SDCCAG28	NY-CO-28, CGI-52, PCTP2
11	STARD10	ENSG00000214530	ENST00000543089	retained_intron	KNOWN	None	10666	None	None	72465908	72468984	-1	SDCCAG28	NY-CO-28, CGI-52, PCTP2
11	STARD10	ENSG00000214530	ENST00000535075	retained_intron	KNOWN	None	10666	None	None	72465909	72466992	-1	SDCCAG28	NY-CO-28, CGI-52, PCTP2
11	STARD10	ENSG00000214530	ENST00000545082	protein_coding	NOVEL	None	10666	789	262	72465938	72492887	-1	SDCCAG28	NY-CO-28, CGI-52, PCTP2
11	STARD10	ENSG00000214530	ENST00000544767	protein_coding	PUTATIVE	None	10666	509	168	72466030	72470426	-1	SDCCAG28	NY-CO-28, CGI-52, PCTP2
11	STARD10	ENSG00000214530	ENST00000537947	protein_coding	KNOWN	None	10666	757	251	72466061	72492938	-1	SDCCAG28	NY-CO-28, CGI-52, PCTP2
11	STARD10	ENSG00000214530	ENST00000536728	protein_coding	NOVEL	None	10666	451	149	72466107	72470426	-1	SDCCAG28	NY-CO-28, CGI-52, PCTP2
11	STARD10	ENSG00000214530	ENST00000400925	protein_coding	PUTATIVE	None	10666	364	120	72466374	72468927	-1	SDCCAG28	NY-CO-28, CGI-52, PCTP2
11	STARD10	ENSG00000214530	ENST00000542989	protein_coding	KNOWN	None	10666	573	190	72468816	72497012	-1	SDCCAG28	NY-CO-28, CGI-52, PCTP2
11	STARD10	ENSG00000214530	ENST00000546314	protein_coding	KNOWN	None	10666	413	136	72469621	72493404	-1	SDCCAG28	NY-CO-28, CGI-52, PCTP2
11	STARD10	ENSG00000214530	ENST00000535267	retained_intron	KNOWN	None	10666	None	None	72470239	72492779	-1	SDCCAG28	NY-CO-28, CGI-52, PCTP2
11	STARD10	ENSG00000214530	ENST00000539138	protein_coding	NOVEL	None	10666	246	81	72470301	72497011	-1	SDCCAG28	NY-CO-28, CGI-52, PCTP2
11	STARD10	ENSG00000214530	ENST00000535054	protein_coding	NOVEL	None	10666	175	57	72470321	72492880	-1	SDCCAG28	NY-CO-28, CGI-52, PCTP2
11	STARD10	ENSG00000214530	ENST00000536290	protein_coding	KNOWN	None	10666	267	88	72470367	72493574	-1	SDCCAG28	NY-CO-28, CGI-52, PCTP2
11	STARD10	ENSG00000214530	ENST00000536377	protein_coding	NOVEL	None	10666	394	130	72491178	72504637	-1	SDCCAG28	NY-CO-28, CGI-52, PCTP2
11	STARD10	ENSG00000214530	ENST00000538009	retained_intron	KNOWN	None	10666	None	None	72491711	72504702	-1	SDCCAG28	NY-CO-28, CGI-52, PCTP2
11	STARD10	ENSG00000214530	ENST00000540587	protein_coding	KNOWN	None	10666	35	10	72492192	72504702	-1	SDCCAG28	NY-CO-28, CGI-52, PCTP2
4	SORCS2	ENSG00000184985	ENST00000507866	protein_coding	KNOWN	CCDS47008	16698	3480	1159	7194265	7744554	1	None	KIAA1329
4	SORCS2	ENSG00000184985	ENST00000511199	processed_transcript	KNOWN	None	16698	None	None	7383625	7663256	1	None	KIAA1329
4	SORCS2	ENSG00000184985	ENST00000505529	protein_coding	PUTATIVE	None	16698	306	101	7736007	7742447	1	None	KIAA1329
4	SORCS2	ENSG00000184985	ENST00000329016	protein_coding	KNOWN	None	16698	3009	1002	7383625	7742393	1	None	KIAA1329
2	INO80D	ENSG00000114933	ENST00000403263	protein_coding	KNOWN	CCDS46500	25997	3084	1027	206858445	206950906	-1	None	FLJ20309
2	INO80D	ENSG00000114933	ENST00000424117	protein_coding	NOVEL	None	25997	1317	438	206874429	206927968	-1	None	FLJ20309
2	INO80D	ENSG00000114933	ENST00000414320	protein_coding	KNOWN	None	25997	111	36	206927630	206951027	-1	None	FLJ20309
2	TLX2	ENSG00000115297	ENST00000497238	processed_transcript	KNOWN	None	5057	None	None	74740590	74742788	1	HOX11L1	Enx, Tlx2, NCX
2	TLX2	ENSG00000115297	ENST00000464417	retained_intron	KNOWN	None	5057	None	None	74740743	74741479	1	HOX11L1	Enx, Tlx2, NCX
2	TLX2	ENSG00000115297	ENST00000233638	protein_coding	KNOWN	CCDS1947	5057	855	284	74741611	74744274	1	HOX11L1	Enx, Tlx2, NCX
19	SPTBN4	ENSG00000160460	ENST00000595535	protein_coding	PUTATIVE	None	14896	6009	2002	40972148	41066413	1	None	SPTBN3, KIAA1642
19	SPTBN4	ENSG00000160460	ENST00000352632	protein_coding	KNOWN	CCDS12559	14896	7695	2564	40972148	41082370	1	None	SPTBN3, KIAA1642
19	SPTBN4	ENSG00000160460	ENST00000598249	protein_coding	KNOWN	CCDS12559	14896	7695	2564	40973126	41081748	1	None	SPTBN3, KIAA1642
19	SPTBN4	ENSG00000160460	ENST00000598775	retained_intron	KNOWN	None	14896	None	None	41003336	41008399	1	None	SPTBN3, KIAA1642
19	SPTBN4	ENSG00000160460	ENST00000597389	nonsense_mediated_decay	KNOWN	None	14896	2106	701	41018521	41081475	1	None	SPTBN3, KIAA1642
19	SPTBN4	ENSG00000160460	ENST00000392023	protein_coding	KNOWN	CCDS42569	14896	2037	678	41036395	41066658	1	None	SPTBN3, KIAA1642
19	SPTBN4	ENSG00000160460	ENST00000596900	retained_intron	KNOWN	None	14896	None	None	41036433	41061208	1	None	SPTBN3, KIAA1642
19	SPTBN4	ENSG00000160460	ENST00000593932	retained_intron	KNOWN	None	14896	None	None	41036673	41040763	1	None	SPTBN3, KIAA1642
19	SPTBN4	ENSG00000160460	ENST00000599926	processed_transcript	KNOWN	None	14896	None	None	41076945	41081569	1	None	SPTBN3, KIAA1642
19	SPTBN4	ENSG00000160460	ENST00000593816	processed_transcript	KNOWN	None	14896	None	None	41076952	41081511	1	None	SPTBN3, KIAA1642
19	SPTBN4	ENSG00000160460	ENST00000596411	retained_intron	KNOWN	None	14896	None	None	41077450	41082364	1	None	SPTBN3, KIAA1642
19	SPTBN4	ENSG00000160460	ENST00000595690	retained_intron	KNOWN	None	14896	None	None	41077546	41081483	1	None	SPTBN3, KIAA1642
19	SPTBN4	ENSG00000160460	ENST00000338932	protein_coding	KNOWN	None	14896	6465	2154	40973126	41073080	1	None	SPTBN3, KIAA1642
19	SPTBN4	ENSG00000160460	ENST00000344104	protein_coding	KNOWN	None	14896	3930	1309	40973126	41030523	1	None	SPTBN3, KIAA1642
19	SPTBN4	ENSG00000160460	ENST00000392025	protein_coding	KNOWN	None	14896	3924	1307	41030451	41082364	1	None	SPTBN3, KIAA1642
1	ZRANB2	ENSG00000132485	ENST00000370920	protein_coding	KNOWN	CCDS659	13058	993	330	71528974	71546980	-1	ZNF265	ZIS, ZIS1, ZIS2
1	ZRANB2	ENSG00000132485	ENST00000477096	processed_transcript	KNOWN	None	13058	None	None	71528980	71533196	-1	ZNF265	ZIS, ZIS1, ZIS2
1	ZRANB2	ENSG00000132485	ENST00000254821	protein_coding	KNOWN	CCDS660	13058	963	320	71529020	71546694	-1	ZNF265	ZIS, ZIS1, ZIS2
1	ZRANB2	ENSG00000132485	ENST00000487510	processed_transcript	KNOWN	None	13058	None	None	71530726	71535283	-1	ZNF265	ZIS, ZIS1, ZIS2
1	ZRANB2	ENSG00000132485	ENST00000479947	processed_transcript	KNOWN	None	13058	None	None	71530737	71532769	-1	ZNF265	ZIS, ZIS1, ZIS2
1	ZRANB2	ENSG00000132485	ENST00000473260	processed_transcript	KNOWN	None	13058	None	None	71530770	71532889	-1	ZNF265	ZIS, ZIS1, ZIS2
1	ZBTB18	ENSG00000179456	ENST00000358704	protein_coding	KNOWN	CCDS1622	13030	1596	531	244214585	244220778	1	ZNF238	C2H2-171, TAZ-1, RP58
11	TMX2	ENSG00000213593	ENST00000524972	nonsense_mediated_decay	KNOWN	None	30739	312	103	57480072	57506653	1	TXNDC14	PDIA12
11	TMX2	ENSG00000213593	ENST00000378312	protein_coding	KNOWN	CCDS44601	30739	777	258	57480075	57508445	1	TXNDC14	PDIA12
11	TMX2	ENSG00000213593	ENST00000530114	nonsense_mediated_decay	KNOWN	None	30739	261	86	57480079	57507841	1	TXNDC14	PDIA12
11	TMX2	ENSG00000213593	ENST00000278422	protein_coding	KNOWN	CCDS7967	30739	891	296	57480079	57508445	1	TXNDC14	PDIA12
11	TMX2	ENSG00000213593	ENST00000525035	nonsense_mediated_decay	KNOWN	None	30739	348	115	57480084	57506684	1	TXNDC14	PDIA12
11	TMX2	ENSG00000213593	ENST00000533602	nonsense_mediated_decay	KNOWN	None	30739	255	84	57480086	57505889	1	TXNDC14	PDIA12
11	TMX2	ENSG00000213593	ENST00000528110	nonsense_mediated_decay	KNOWN	None	30739	312	103	57480086	57507841	1	TXNDC14	PDIA12
11	TMX2	ENSG00000213593	ENST00000529403	nonsense_mediated_decay	KNOWN	None	30739	348	115	57480086	57508441	1	TXNDC14	PDIA12
11	TMX2	ENSG00000213593	ENST00000528042	retained_intron	KNOWN	None	30739	None	None	57480097	57505659	1	TXNDC14	PDIA12
1	None	ENSG00000268146	ENST00000598000	protein_coding	KNOWN	None	None	489	162	244227632	244231211	1	None	None
9	ODF2	ENSG00000136811	ENST00000497812	protein_coding	PUTATIVE	None	8114	432	143	131217465	131233625	1	None	ODF84, CT134
9	ODF2	ENSG00000136811	ENST00000393533	protein_coding	KNOWN	CCDS56585	8114	1974	657	131217466	131257112	1	None	ODF84, CT134
9	ODF2	ENSG00000136811	ENST00000372814	protein_coding	KNOWN	CCDS56586	8114	2106	701	131218336	131257118	1	None	ODF84, CT134
9	ODF2	ENSG00000136811	ENST00000469582	retained_intron	KNOWN	None	8114	None	None	131218380	131231749	1	None	ODF84, CT134
9	ODF2	ENSG00000136811	ENST00000444993	retained_intron	KNOWN	None	8114	None	None	131218408	131223652	1	None	ODF84, CT134
9	ODF2	ENSG00000136811	ENST00000604420	nonsense_mediated_decay	KNOWN	None	8114	132	43	131218431	131262762	1	None	ODF84, CT134
9	ODF2	ENSG00000136811	ENST00000448249	protein_coding	KNOWN	CCDS56589	8114	1731	576	131218446	131257112	1	None	ODF84, CT134
9	ODF2	ENSG00000136811	ENST00000393527	nonsense_mediated_decay	KNOWN	None	8114	76	24	131218487	131263239	1	None	ODF84, CT134
9	ODF2	ENSG00000136811	ENST00000434106	protein_coding	KNOWN	CCDS56588	8114	2490	829	131218701	131263216	1	None	ODF84, CT134
9	ODF2	ENSG00000136811	ENST00000546203	protein_coding	KNOWN	CCDS56587	8114	1917	638	131218703	131257112	1	None	ODF84, CT134
9	ODF2	ENSG00000136811	ENST00000446274	protein_coding	KNOWN	None	8114	470	155	131218712	131233693	1	None	ODF84, CT134
9	ODF2	ENSG00000136811	ENST00000421776	protein_coding	NOVEL	None	8114	1159	385	131218729	131247683	1	None	ODF84, CT134
9	ODF2	ENSG00000136811	ENST00000432065	protein_coding	PUTATIVE	None	8114	615	204	131218745	131236020	1	None	ODF84, CT134
9	ODF2	ENSG00000136811	ENST00000372791	protein_coding	KNOWN	CCDS6902	8114	1917	638	131219198	131257115	1	None	ODF84, CT134
9	ODF2	ENSG00000136811	ENST00000470061	protein_coding	KNOWN	None	8114	301	99	131219264	131231513	1	None	ODF84, CT134
9	ODF2	ENSG00000136811	ENST00000444119	protein_coding	KNOWN	None	8114	2418	805	131222838	131262534	1	None	ODF84, CT134
9	ODF2	ENSG00000136811	ENST00000372807	protein_coding	KNOWN	CCDS56590	8114	2475	824	131222838	131262534	1	None	ODF84, CT134
9	ODF2	ENSG00000136811	ENST00000483070	protein_coding	NOVEL	None	8114	723	240	131255073	131262351	1	None	ODF84, CT134
9	ODF2	ENSG00000136811	ENST00000488909	retained_intron	KNOWN	None	8114	None	None	131259781	131262670	1	None	ODF84, CT134
9	ODF2	ENSG00000136811	ENST00000372796	protein_coding	KNOWN	CCDS56588	8114	2490	829	131218432	131263238	1	None	ODF84, CT134
9	ODF2	ENSG00000136811	ENST00000351030	protein_coding	KNOWN	CCDS56590	8114	2475	824	131218408	131263238	1	None	ODF84, CT134
9	ODF2	ENSG00000136811	ENST00000303890	protein_coding	KNOWN	None	8114	2418	805	131218432	131263238	1	None	ODF84, CT134
9	ODF2	ENSG00000136811	ENST00000535026	protein_coding	KNOWN	None	8114	444	147	131218437	131246278	1	None	ODF84, CT134
1	C1orf100	ENSG00000173728	ENST00000366537	protein_coding	KNOWN	None	30435	348	115	244515937	244552393	1	None	None
1	C1orf100	ENSG00000173728	ENST00000308105	protein_coding	KNOWN	CCDS31079	30435	444	147	244515937	244552393	1	None	None
1	C1orf100	ENSG00000173728	ENST00000486803	processed_transcript	KNOWN	None	30435	None	None	244515951	244552393	1	None	None
1	C1orf100	ENSG00000173728	ENST00000470211	processed_transcript	KNOWN	None	30435	None	None	244541814	244552965	1	None	None
10	ALOX5	ENSG00000012779	ENST00000374391	protein_coding	KNOWN	CCDS7212	435	2025	674	45869675	45941561	1	None	5-LOX
10	ALOX5	ENSG00000012779	ENST00000483623	processed_transcript	KNOWN	None	435	None	None	45919532	45923934	1	None	5-LOX
10	ALOX5	ENSG00000012779	ENST00000475300	processed_transcript	KNOWN	None	435	None	None	45935878	45937033	1	None	5-LOX
10	ALOX5	ENSG00000012779	ENST00000493336	processed_transcript	KNOWN	None	435	None	None	45938061	45938895	1	None	5-LOX
10	ALOX5	ENSG00000012779	ENST00000481117	processed_transcript	KNOWN	None	435	None	None	45938690	45939680	1	None	5-LOX
10	ALOX5	ENSG00000012779	ENST00000498461	processed_transcript	KNOWN	None	435	None	None	45938869	45939662	1	None	5-LOX
10	ALOX5	ENSG00000012779	ENST00000542434	protein_coding	KNOWN	CCDS58078	435	1854	617	45869661	45941392	1	None	5-LOX
15	LMAN1L	ENSG00000140506	ENST00000470711	retained_intron	KNOWN	None	6632	None	None	75105057	75112240	1	None	ERGL, ERGIC-53L
15	LMAN1L	ENSG00000140506	ENST00000309664	protein_coding	KNOWN	CCDS10270	6632	1581	526	75105057	75118099	1	None	ERGL, ERGIC-53L
15	LMAN1L	ENSG00000140506	ENST00000570147	retained_intron	KNOWN	None	6632	None	None	75105058	75108835	1	None	ERGL, ERGIC-53L
15	LMAN1L	ENSG00000140506	ENST00000568467	retained_intron	KNOWN	None	6632	None	None	75105153	75108791	1	None	ERGL, ERGIC-53L
15	LMAN1L	ENSG00000140506	ENST00000562810	protein_coding	PUTATIVE	None	6632	327	108	75105157	75108993	1	None	ERGL, ERGIC-53L
15	LMAN1L	ENSG00000140506	ENST00000456603	retained_intron	KNOWN	None	6632	None	None	75105159	75112315	1	None	ERGL, ERGIC-53L
15	LMAN1L	ENSG00000140506	ENST00000379709	protein_coding	NOVEL	None	6632	1545	514	75105194	75118098	1	None	ERGL, ERGIC-53L
15	LMAN1L	ENSG00000140506	ENST00000565585	retained_intron	KNOWN	None	6632	None	None	75111808	75118095	1	None	ERGL, ERGIC-53L
15	LMAN1L	ENSG00000140506	ENST00000567848	protein_coding	NOVEL	None	6632	372	123	75113466	75118095	1	None	ERGL, ERGIC-53L
15	LMAN1L	ENSG00000140506	ENST00000566046	retained_intron	KNOWN	None	6632	None	None	75116529	75118095	1	None	ERGL, ERGIC-53L
2	DQX1	ENSG00000144045	ENST00000418139	nonsense_mediated_decay	KNOWN	None	20410	399	132	74745258	74751052	-1	None	FLJ23757
2	DQX1	ENSG00000144045	ENST00000393951	protein_coding	KNOWN	CCDS1949	20410	2154	717	74745258	74753318	-1	None	FLJ23757
2	DQX1	ENSG00000144045	ENST00000404568	protein_coding	KNOWN	CCDS1949	20410	2154	717	74745258	74753463	-1	None	FLJ23757
2	DQX1	ENSG00000144045	ENST00000483555	retained_intron	KNOWN	None	20410	None	None	74746713	74750429	-1	None	FLJ23757
2	DQX1	ENSG00000144045	ENST00000473508	retained_intron	KNOWN	None	20410	None	None	74746713	74753408	-1	None	FLJ23757
2	DQX1	ENSG00000144045	ENST00000495597	processed_transcript	KNOWN	None	20410	None	None	74750466	74751383	-1	None	FLJ23757
2	DQX1	ENSG00000144045	ENST00000451518	protein_coding	PUTATIVE	None	20410	357	118	74751155	74753343	-1	None	FLJ23757
2	DQX1	ENSG00000144045	ENST00000498552	processed_transcript	KNOWN	None	20410	None	None	74751394	74753321	-1	None	FLJ23757
1	FCRL3	ENSG00000160856	ENST00000457799	processed_transcript	PUTATIVE	None	18506	None	None	157644111	157646522	-1	None	FCRH3, IRTA3, IFGP3, SPAP2a, SPAP2, SPAP2b, SPAP2c, SPAP2d, SPAP2e, CD307c
1	FCRL3	ENSG00000160856	ENST00000477837	nonsense_mediated_decay	KNOWN	None	18506	1920	639	157646271	157670520	-1	None	FCRH3, IRTA3, IFGP3, SPAP2a, SPAP2, SPAP2b, SPAP2c, SPAP2d, SPAP2e, CD307c
1	FCRL3	ENSG00000160856	ENST00000492769	nonsense_mediated_decay	KNOWN	None	18506	2223	740	157646271	157670520	-1	None	FCRH3, IRTA3, IFGP3, SPAP2a, SPAP2, SPAP2b, SPAP2c, SPAP2d, SPAP2e, CD307c
1	FCRL3	ENSG00000160856	ENST00000480682	processed_transcript	KNOWN	None	18506	None	None	157646271	157670520	-1	None	FCRH3, IRTA3, IFGP3, SPAP2a, SPAP2, SPAP2b, SPAP2c, SPAP2d, SPAP2e, CD307c
1	FCRL3	ENSG00000160856	ENST00000494724	processed_transcript	KNOWN	None	18506	None	None	157646271	157670520	-1	None	FCRH3, IRTA3, IFGP3, SPAP2a, SPAP2, SPAP2b, SPAP2c, SPAP2d, SPAP2e, CD307c
1	FCRL3	ENSG00000160856	ENST00000368186	protein_coding	NOVEL	None	18506	2229	742	157646271	157670528	-1	None	FCRH3, IRTA3, IFGP3, SPAP2a, SPAP2, SPAP2b, SPAP2c, SPAP2d, SPAP2e, CD307c
1	FCRL3	ENSG00000160856	ENST00000485028	nonsense_mediated_decay	KNOWN	CCDS1167	18506	2205	734	157646271	157670533	-1	None	FCRH3, IRTA3, IFGP3, SPAP2a, SPAP2, SPAP2b, SPAP2c, SPAP2d, SPAP2e, CD307c
1	FCRL3	ENSG00000160856	ENST00000368184	protein_coding	NOVEL	CCDS1167	18506	2205	734	157646272	157670647	-1	None	FCRH3, IRTA3, IFGP3, SPAP2a, SPAP2, SPAP2b, SPAP2c, SPAP2d, SPAP2e, CD307c
1	FCRL3	ENSG00000160856	ENST00000473231	processed_transcript	KNOWN	None	18506	None	None	157648111	157667803	-1	None	FCRH3, IRTA3, IFGP3, SPAP2a, SPAP2, SPAP2b, SPAP2c, SPAP2d, SPAP2e, CD307c
1	FCRL3	ENSG00000160856	ENST00000468507	processed_transcript	KNOWN	None	18506	None	None	157648481	157659680	-1	None	FCRH3, IRTA3, IFGP3, SPAP2a, SPAP2, SPAP2b, SPAP2c, SPAP2d, SPAP2e, CD307c
1	FCRL3	ENSG00000160856	ENST00000478179	processed_transcript	KNOWN	None	18506	None	None	157666958	157667709	-1	None	FCRH3, IRTA3, IFGP3, SPAP2a, SPAP2, SPAP2b, SPAP2c, SPAP2d, SPAP2e, CD307c
1	FCRL3	ENSG00000160856	ENST00000496769	protein_coding	KNOWN	None	18506	768	255	157667006	157670535	-1	None	FCRH3, IRTA3, IFGP3, SPAP2a, SPAP2, SPAP2b, SPAP2c, SPAP2d, SPAP2e, CD307c
1	ADSS	ENSG00000035687	ENST00000366535	protein_coding	KNOWN	CCDS1624	292	1371	456	244571796	244615436	-1	None	None
1	ADSS	ENSG00000035687	ENST00000468215	processed_transcript	KNOWN	None	292	None	None	244574669	244582575	-1	None	None
1	ADSS	ENSG00000035687	ENST00000462358	processed_transcript	KNOWN	None	292	None	None	244582196	244588216	-1	None	None
1	NEGR1	ENSG00000172260	ENST00000357731	protein_coding	KNOWN	CCDS661	17302	1065	354	71868625	72748417	-1	None	KILON, MGC46680, Ntra, IGLON4
1	NEGR1	ENSG00000172260	ENST00000306821	protein_coding	KNOWN	None	17302	681	226	71868627	72566613	-1	None	KILON, MGC46680, Ntra, IGLON4
1	NEGR1	ENSG00000172260	ENST00000474357	processed_transcript	KNOWN	None	17302	None	None	71873175	71905521	-1	None	KILON, MGC46680, Ntra, IGLON4
1	NEGR1	ENSG00000172260	ENST00000478526	processed_transcript	PUTATIVE	None	17302	None	None	72163619	72169088	-1	None	KILON, MGC46680, Ntra, IGLON4
1	NEGR1	ENSG00000172260	ENST00000467479	processed_transcript	KNOWN	None	17302	None	None	72163629	72566600	-1	None	KILON, MGC46680, Ntra, IGLON4
1	NEGR1	ENSG00000172260	ENST00000434200	protein_coding	KNOWN	None	17302	927	308	71873129	72748171	-1	None	KILON, MGC46680, Ntra, IGLON4
16	MLYCD	ENSG00000103150	ENST00000262430	protein_coding	KNOWN	CCDS42206	7150	1482	493	83932731	83949787	1	None	MCD, hMCD
16	MLYCD	ENSG00000103150	ENST00000569024	retained_intron	KNOWN	None	7150	None	None	83945288	83949776	1	None	MCD, hMCD
19	ZNF585B	ENSG00000245680	ENST00000532828	protein_coding	KNOWN	CCDS12500	30948	2310	769	37672481	37701451	-1	None	FLJ14928, SZFP41
19	ZNF585B	ENSG00000245680	ENST00000531805	protein_coding	PUTATIVE	None	30948	2145	714	37675722	37681378	-1	None	FLJ14928, SZFP41
19	ZNF585B	ENSG00000245680	ENST00000527838	protein_coding	PUTATIVE	None	30948	474	157	37675724	37701386	-1	None	FLJ14928, SZFP41
19	ZNF585B	ENSG00000245680	ENST00000591492	protein_coding	PUTATIVE	None	30948	412	136	37677982	37701407	-1	None	FLJ14928, SZFP41
19	ZNF585B	ENSG00000245680	ENST00000586320	protein_coding	PUTATIVE	None	30948	255	84	37680450	37689910	-1	None	FLJ14928, SZFP41
19	ZNF585B	ENSG00000245680	ENST00000392156	nonsense_mediated_decay	KNOWN	None	30948	171	56	37680605	37701451	-1	None	FLJ14928, SZFP41
19	ZNF585B	ENSG00000245680	ENST00000591273	nonsense_mediated_decay	KNOWN	None	30948	183	60	37680636	37701433	-1	None	FLJ14928, SZFP41
19	ZNF585B	ENSG00000245680	ENST00000526705	nonsense_mediated_decay	KNOWN	None	30948	108	35	37680975	37701407	-1	None	FLJ14928, SZFP41
19	ZNF585B	ENSG00000245680	ENST00000534363	processed_transcript	KNOWN	None	30948	None	None	37698097	37709055	-1	None	FLJ14928, SZFP41
19	ZNF585B	ENSG00000245680	ENST00000312908	protein_coding	KNOWN	None	30948	1074	357	37675724	37678034	-1	None	FLJ14928, SZFP41
X	ZNF75D	ENSG00000186376	ENST00000494295	processed_transcript	KNOWN	None	13145	None	None	134382867	134478012	-1	ZNF82, ZNF75	ZKSCAN24, D8C6, ZSCAN28
X	ZNF75D	ENSG00000186376	ENST00000370766	protein_coding	KNOWN	CCDS14648	13145	1533	510	134419720	134478012	-1	ZNF82, ZNF75	ZKSCAN24, D8C6, ZSCAN28
X	ZNF75D	ENSG00000186376	ENST00000370764	protein_coding	KNOWN	CCDS55503	13145	1248	415	134419724	134429959	-1	ZNF82, ZNF75	ZKSCAN24, D8C6, ZSCAN28
X	ZNF75D	ENSG00000186376	ENST00000469456	processed_transcript	KNOWN	None	13145	None	None	134420812	134425529	-1	ZNF82, ZNF75	ZKSCAN24, D8C6, ZSCAN28
6	ZBTB24	ENSG00000112365	ENST00000230122	protein_coding	KNOWN	CCDS34509	21143	2094	697	109783797	109804440	-1	ZNF450	KIAA0441, BIF1, PATZ2
17	FOXK2	ENSG00000141568	ENST00000473637	nonsense_mediated_decay	KNOWN	None	6036	1845	614	80477589	80560268	1	ILF, ILF1	None
17	FOXK2	ENSG00000141568	ENST00000335255	protein_coding	KNOWN	CCDS11813	6036	1983	660	80477591	80562483	1	ILF, ILF1	None
17	FOXK2	ENSG00000141568	ENST00000527313	retained_intron	KNOWN	None	6036	None	None	80477853	80529852	1	ILF, ILF1	None
17	FOXK2	ENSG00000141568	ENST00000570585	retained_intron	KNOWN	None	6036	None	None	80478170	80529998	1	ILF, ILF1	None
17	FOXK2	ENSG00000141568	ENST00000531030	protein_coding	PUTATIVE	None	6036	516	171	80517216	80540790	1	ILF, ILF1	None
17	FOXK2	ENSG00000141568	ENST00000526383	protein_coding	PUTATIVE	None	6036	761	252	80517240	80541906	1	ILF, ILF1	None
17	FOXK2	ENSG00000141568	ENST00000571160	processed_transcript	KNOWN	None	6036	None	None	80540651	80543919	1	ILF, ILF1	None
17	FOXK2	ENSG00000141568	ENST00000575578	protein_coding	PUTATIVE	None	6036	388	128	80544006	80545438	1	ILF, ILF1	None
17	FOXK2	ENSG00000141568	ENST00000571989	processed_transcript	PUTATIVE	None	6036	None	None	80551276	80559406	1	ILF, ILF1	None
17	FOXK2	ENSG00000141568	ENST00000529652	processed_transcript	KNOWN	None	6036	None	None	80551298	80560281	1	ILF, ILF1	None
17	FOXK2	ENSG00000141568	ENST00000574694	processed_transcript	PUTATIVE	None	6036	None	None	80561513	80602538	1	ILF, ILF1	None
4	HERC6	ENSG00000138642	ENST00000380265	protein_coding	KNOWN	CCDS54777	26072	2961	986	89299891	89364249	1	None	FLJ20637
4	HERC6	ENSG00000138642	ENST00000264346	protein_coding	KNOWN	CCDS47098	26072	3069	1022	89300015	89364263	1	None	FLJ20637
4	HERC6	ENSG00000138642	ENST00000504905	nonsense_mediated_decay	KNOWN	None	26072	222	73	89300063	89311884	1	None	FLJ20637
4	HERC6	ENSG00000138642	ENST00000506714	retained_intron	KNOWN	None	26072	None	None	89300143	89320921	1	None	FLJ20637
4	HERC6	ENSG00000138642	ENST00000502870	protein_coding	NOVEL	None	26072	557	184	89300216	89312030	1	None	FLJ20637
4	HERC6	ENSG00000138642	ENST00000515365	retained_intron	KNOWN	None	26072	None	None	89311972	89326177	1	None	FLJ20637
4	HERC6	ENSG00000138642	ENST00000506842	retained_intron	KNOWN	None	26072	None	None	89360997	89361792	1	None	FLJ20637
4	HERC6	ENSG00000138642	ENST00000273960	protein_coding	KNOWN	None	26072	921	306	89299891	89319293	1	None	FLJ20637
1	LRRIQ3	ENSG00000162620	ENST00000417067	protein_coding	PUTATIVE	None	28318	183	60	74491699	74540474	-1	LRRC44	MGC22773
1	LRRIQ3	ENSG00000162620	ENST00000395089	protein_coding	NOVEL	CCDS41350	28318	1875	624	74491699	74649368	-1	LRRC44	MGC22773
1	LRRIQ3	ENSG00000162620	ENST00000415760	nonsense_mediated_decay	KNOWN	None	28318	900	299	74491925	74663871	-1	LRRC44	MGC22773
1	LRRIQ3	ENSG00000162620	ENST00000468759	processed_transcript	KNOWN	None	28318	None	None	74549477	74621533	-1	LRRC44	MGC22773
1	LRRIQ3	ENSG00000162620	ENST00000370909	protein_coding	PUTATIVE	None	28318	576	191	74549811	74663839	-1	LRRC44	MGC22773
1	LRRIQ3	ENSG00000162620	ENST00000444984	protein_coding	PUTATIVE	None	28318	316	104	74610068	74649195	-1	LRRC44	MGC22773
1	LRRIQ3	ENSG00000162620	ENST00000495179	processed_transcript	PUTATIVE	None	28318	None	None	74621347	74648306	-1	LRRC44	MGC22773
1	LRRIQ3	ENSG00000162620	ENST00000370911	protein_coding	PUTATIVE	None	28318	600	199	74645591	74663831	-1	LRRC44	MGC22773
1	LRRIQ3	ENSG00000162620	ENST00000463724	retained_intron	KNOWN	None	28318	None	None	74645907	74663831	-1	LRRC44	MGC22773
1	LRRIQ3	ENSG00000162620	ENST00000354431	protein_coding	KNOWN	CCDS41350	28318	1875	624	74491715	74663871	-1	LRRC44	MGC22773
10	COMTD1	ENSG00000165644	ENST00000372538	protein_coding	KNOWN	CCDS7349	26309	789	262	76993727	76995769	-1	None	FLJ23841
10	COMTD1	ENSG00000165644	ENST00000460899	processed_transcript	KNOWN	None	26309	None	None	76993729	76995488	-1	None	FLJ23841
10	COMTD1	ENSG00000165644	ENST00000494596	processed_transcript	KNOWN	None	26309	None	None	76993736	76995694	-1	None	FLJ23841
10	COMTD1	ENSG00000165644	ENST00000470947	processed_transcript	KNOWN	None	26309	None	None	76993742	76995270	-1	None	FLJ23841
10	COMTD1	ENSG00000165644	ENST00000469299	protein_coding	NOVEL	None	26309	782	259	76993742	76995683	-1	None	FLJ23841
10	COMTD1	ENSG00000165644	ENST00000490521	processed_transcript	KNOWN	None	26309	None	None	76994184	76995094	-1	None	FLJ23841
10	COMTD1	ENSG00000165644	ENST00000491270	processed_transcript	KNOWN	None	26309	None	None	76995073	76995788	-1	None	FLJ23841
1	FCRL2	ENSG00000132704	ENST00000368178	retained_intron	KNOWN	None	14875	None	None	157715523	157740100	-1	SPAP1	FCRH2, IRTA4, CD307b
1	FCRL2	ENSG00000132704	ENST00000361516	protein_coding	KNOWN	CCDS1168	14875	1527	508	157715523	157746912	-1	SPAP1	FCRH2, IRTA4, CD307b
1	FCRL2	ENSG00000132704	ENST00000368181	protein_coding	KNOWN	None	14875	609	202	157715525	157746922	-1	SPAP1	FCRH2, IRTA4, CD307b
1	FCRL2	ENSG00000132704	ENST00000469986	protein_coding	KNOWN	None	14875	579	192	157736404	157737564	-1	SPAP1	FCRH2, IRTA4, CD307b
1	FCRL2	ENSG00000132704	ENST00000462774	retained_intron	KNOWN	None	14875	None	None	157739140	157746922	-1	SPAP1	FCRH2, IRTA4, CD307b
1	FCRL2	ENSG00000132704	ENST00000392274	protein_coding	KNOWN	None	14875	1335	444	157716511	157746909	-1	SPAP1	FCRH2, IRTA4, CD307b
16	OSGIN1	ENSG00000140961	ENST00000561552	protein_coding	PUTATIVE	None	30093	315	104	83981887	83991255	1	None	BDGI, OKL38
16	OSGIN1	ENSG00000140961	ENST00000361711	protein_coding	KNOWN	CCDS10939	30093	1434	477	83982672	83999936	1	None	BDGI, OKL38
16	OSGIN1	ENSG00000140961	ENST00000343939	protein_coding	PUTATIVE	None	30093	1683	560	83982672	83999937	1	None	BDGI, OKL38
16	OSGIN1	ENSG00000140961	ENST00000393306	protein_coding	KNOWN	CCDS10939	30093	1434	477	83986827	83999937	1	None	BDGI, OKL38
16	OSGIN1	ENSG00000140961	ENST00000565123	protein_coding	PUTATIVE	None	30093	492	163	83986844	83994858	1	None	BDGI, OKL38
16	OSGIN1	ENSG00000140961	ENST00000563543	processed_transcript	KNOWN	None	30093	None	None	83986845	83988153	1	None	BDGI, OKL38
16	OSGIN1	ENSG00000140961	ENST00000567707	protein_coding	KNOWN	None	30093	368	121	83990593	83994337	1	None	BDGI, OKL38
1	C1orf101	ENSG00000179397	ENST00000473875	processed_transcript	KNOWN	None	28491	None	None	244617679	244773890	1	None	MGC33370
1	C1orf101	ENSG00000179397	ENST00000460986	processed_transcript	KNOWN	None	28491	None	None	244624678	244715968	1	None	MGC33370
1	C1orf101	ENSG00000179397	ENST00000366534	protein_coding	NOVEL	CCDS44340	28491	2856	951	244624678	244803806	1	None	MGC33370
1	C1orf101	ENSG00000179397	ENST00000366533	protein_coding	NOVEL	CCDS1625	28491	2499	832	244624690	244803662	1	None	MGC33370
1	C1orf101	ENSG00000179397	ENST00000478554	processed_transcript	KNOWN	None	28491	None	None	244624706	244715777	1	None	MGC33370
1	C1orf101	ENSG00000179397	ENST00000428042	protein_coding	NOVEL	None	28491	2616	871	244624713	244803662	1	None	MGC33370
1	C1orf101	ENSG00000179397	ENST00000464170	processed_transcript	KNOWN	None	28491	None	None	244624722	244715767	1	None	MGC33370
1	C1orf101	ENSG00000179397	ENST00000485888	processed_transcript	KNOWN	None	28491	None	None	244780892	244800048	1	None	MGC33370
1	C1orf101	ENSG00000179397	ENST00000487449	processed_transcript	KNOWN	None	28491	None	None	244803230	244804479	1	None	MGC33370
1	C1orf101	ENSG00000179397	ENST00000366531	protein_coding	KNOWN	CCDS55693	28491	2403	800	244624713	244803660	1	None	MGC33370
4	UBA6	ENSG00000033178	ENST00000322244	protein_coding	KNOWN	CCDS3516	25581	3159	1052	68481479	68566897	-1	UBE1L2	FLJ10808
4	UBA6	ENSG00000033178	ENST00000514261	nonsense_mediated_decay	KNOWN	None	25581	267	88	68484573	68490873	-1	UBE1L2	FLJ10808
4	UBA6	ENSG00000033178	ENST00000505673	protein_coding	NOVEL	None	25581	812	269	68496172	68510492	-1	UBE1L2	FLJ10808
4	UBA6	ENSG00000033178	ENST00000420827	protein_coding	PUTATIVE	None	25581	1170	389	68527381	68566871	-1	UBE1L2	FLJ10808
4	UBA6	ENSG00000033178	ENST00000429659	retained_intron	KNOWN	None	25581	None	None	68528205	68566866	-1	UBE1L2	FLJ10808
4	UBA6	ENSG00000033178	ENST00000506571	retained_intron	KNOWN	None	25581	None	None	68544148	68566860	-1	UBE1L2	FLJ10808
1	FPGT	ENSG00000254685	ENST00000467578	protein_coding	PUTATIVE	None	3825	348	115	74663922	74670277	1	None	GFPP
1	FPGT	ENSG00000254685	ENST00000524915	protein_coding	PUTATIVE	None	3825	456	151	74663924	74699770	1	None	GFPP
1	FPGT	ENSG00000254685	ENST00000482102	protein_coding	PUTATIVE	None	3825	414	137	74663926	74670175	1	None	GFPP
1	FPGT	ENSG00000254685	ENST00000370898	protein_coding	KNOWN	CCDS663	3825	1785	594	74663926	74672918	1	None	GFPP
1	FPGT	ENSG00000254685	ENST00000529485	nonsense_mediated_decay	KNOWN	None	3825	306	101	74663928	74670151	1	None	GFPP
1	FPGT	ENSG00000254685	ENST00000370894	protein_coding	PUTATIVE	CCDS55607	3825	510	169	74663928	74671890	1	None	GFPP
1	FPGT	ENSG00000254685	ENST00000534056	protein_coding	NOVEL	CCDS55606	3825	1023	340	74663951	74671907	1	None	GFPP
1	FPGT	ENSG00000254685	ENST00000472069	protein_coding	NOVEL	None	3825	524	173	74664035	74670261	1	None	GFPP
2	NDUFS1	ENSG00000023228	ENST00000233190	protein_coding	KNOWN	CCDS2366	7707	2184	727	206986149	207024327	-1	None	CI-75k
2	NDUFS1	ENSG00000023228	ENST00000423725	protein_coding	PUTATIVE	CCDS56162	7707	2013	670	206988543	207024233	-1	None	CI-75k
2	NDUFS1	ENSG00000023228	ENST00000457011	protein_coding	PUTATIVE	None	7707	1836	611	206988669	207024149	-1	None	CI-75k
2	NDUFS1	ENSG00000023228	ENST00000440274	protein_coding	NOVEL	CCDS56164	7707	2076	691	206988680	207024149	-1	None	CI-75k
2	NDUFS1	ENSG00000023228	ENST00000449699	protein_coding	KNOWN	CCDS2366	7707	2184	727	206988825	207023918	-1	None	CI-75k
2	NDUFS1	ENSG00000023228	ENST00000432169	protein_coding	KNOWN	CCDS56163	7707	1851	616	206988825	207024149	-1	None	CI-75k
2	NDUFS1	ENSG00000023228	ENST00000498520	retained_intron	KNOWN	None	7707	None	None	206992284	206997693	-1	None	CI-75k
2	NDUFS1	ENSG00000023228	ENST00000456284	nonsense_mediated_decay	KNOWN	None	7707	276	91	207012370	207024149	-1	None	CI-75k
2	NDUFS1	ENSG00000023228	ENST00000454195	protein_coding	KNOWN	None	7707	391	129	207012506	207023981	-1	None	CI-75k
2	NDUFS1	ENSG00000023228	ENST00000455934	protein_coding	KNOWN	CCDS56165	7707	2226	741	206988823	207023918	-1	None	CI-75k
X	HDAC8	ENSG00000147099	ENST00000373583	protein_coding	PUTATIVE	None	13315	195	64	71549366	71792687	-1	HDACL1	RPD3
X	HDAC8	ENSG00000147099	ENST00000373573	protein_coding	KNOWN	CCDS14420	13315	1134	377	71549366	71792953	-1	HDACL1	RPD3
X	HDAC8	ENSG00000147099	ENST00000470998	processed_transcript	KNOWN	None	13315	None	None	71550682	71682294	-1	HDACL1	RPD3
X	HDAC8	ENSG00000147099	ENST00000373568	protein_coding	NOVEL	None	13315	745	247	71571676	71792903	-1	HDACL1	RPD3
X	HDAC8	ENSG00000147099	ENST00000436675	nonsense_mediated_decay	KNOWN	None	13315	558	185	71681861	71792708	-1	HDACL1	RPD3
X	HDAC8	ENSG00000147099	ENST00000415409	protein_coding	NOVEL	None	13315	898	298	71681883	71792626	-1	HDACL1	RPD3
X	HDAC8	ENSG00000147099	ENST00000412342	nonsense_mediated_decay	KNOWN	None	13315	171	56	71684518	71792620	-1	HDACL1	RPD3
X	HDAC8	ENSG00000147099	ENST00000373571	protein_coding	PUTATIVE	None	13315	762	253	71686548	71792693	-1	HDACL1	RPD3
X	HDAC8	ENSG00000147099	ENST00000439122	protein_coding	PUTATIVE	CCDS55451	13315	771	256	71693266	71792898	-1	HDACL1	RPD3
X	HDAC8	ENSG00000147099	ENST00000373560	protein_coding	PUTATIVE	None	13315	471	156	71694261	71792674	-1	HDACL1	RPD3
X	HDAC8	ENSG00000147099	ENST00000373559	protein_coding	PUTATIVE	CCDS55448	13315	420	139	71694385	71792662	-1	HDACL1	RPD3
X	HDAC8	ENSG00000147099	ENST00000478743	processed_transcript	KNOWN	None	13315	None	None	71710784	71792693	-1	HDACL1	RPD3
X	HDAC8	ENSG00000147099	ENST00000421523	protein_coding	PUTATIVE	None	13315	395	130	71715044	71792477	-1	HDACL1	RPD3
X	HDAC8	ENSG00000147099	ENST00000373556	protein_coding	PUTATIVE	CCDS55452	13315	477	158	71787432	71792663	-1	HDACL1	RPD3
X	HDAC8	ENSG00000147099	ENST00000373554	protein_coding	PUTATIVE	CCDS55450	13315	441	146	71787435	71792703	-1	HDACL1	RPD3
X	HDAC8	ENSG00000147099	ENST00000444609	nonsense_mediated_decay	KNOWN	None	13315	168	55	71788605	71792929	-1	HDACL1	RPD3
X	HDAC8	ENSG00000147099	ENST00000486704	retained_intron	KNOWN	None	13315	None	None	71791796	71792666	-1	HDACL1	RPD3
X	HDAC8	ENSG00000147099	ENST00000373589	protein_coding	KNOWN	CCDS55449	13315	861	286	71549367	71792953	-1	HDACL1	RPD3
X	HDAC8	ENSG00000147099	ENST00000429103	protein_coding	KNOWN	None	13315	549	182	71549662	71792693	-1	HDACL1	RPD3
X	HDAC8	ENSG00000147099	ENST00000373561	protein_coding	KNOWN	None	13315	819	272	71694499	71792953	-1	HDACL1	RPD3
1	FCRL1	ENSG00000163534	ENST00000463001	processed_transcript	KNOWN	None	18509	None	None	157764193	157771757	-1	None	FCRH1, IRTA5, IFGP1, CD307a
1	FCRL1	ENSG00000163534	ENST00000489998	processed_transcript	KNOWN	None	18509	None	None	157764326	157773991	-1	None	FCRH1, IRTA5, IFGP1, CD307a
1	FCRL1	ENSG00000163534	ENST00000358292	protein_coding	KNOWN	CCDS53382	18509	1101	366	157764326	157789879	-1	None	FCRH1, IRTA5, IFGP1, CD307a
1	FCRL1	ENSG00000163534	ENST00000368175	processed_transcript	KNOWN	None	18509	None	None	157764555	157789862	-1	None	FCRH1, IRTA5, IFGP1, CD307a
1	FCRL1	ENSG00000163534	ENST00000368176	protein_coding	KNOWN	CCDS1170	18509	1290	429	157764651	157789895	-1	None	FCRH1, IRTA5, IFGP1, CD307a
1	FCRL1	ENSG00000163534	ENST00000495126	processed_transcript	KNOWN	None	18509	None	None	157765418	157767610	-1	None	FCRH1, IRTA5, IFGP1, CD307a
1	FCRL1	ENSG00000163534	ENST00000491942	protein_coding	KNOWN	CCDS53383	18509	1287	428	157765645	157789850	-1	None	FCRH1, IRTA5, IFGP1, CD307a
1	FCRL1	ENSG00000163534	ENST00000480310	processed_transcript	KNOWN	None	18509	None	None	157776438	157789881	-1	None	FCRH1, IRTA5, IFGP1, CD307a
9	NAA35	ENSG00000135040	ENST00000361671	protein_coding	KNOWN	CCDS6673	24340	2178	725	88556061	88637213	1	MAK10	FLJ21613, FLJ22643, bA379P1.1
9	NAA35	ENSG00000135040	ENST00000416045	protein_coding	KNOWN	None	24340	593	196	88556097	88581587	1	MAK10	FLJ21613, FLJ22643, bA379P1.1
9	NAA35	ENSG00000135040	ENST00000376040	protein_coding	KNOWN	None	24340	885	294	88556444	88601956	1	MAK10	FLJ21613, FLJ22643, bA379P1.1
1	DESI2	ENSG00000121644	ENST00000302550	protein_coding	NOVEL	CCDS1626	24264	585	194	244816237	244872335	1	C1orf121, FAM152A, PPPDE1	CGI-146, FLJ21998
1	DESI2	ENSG00000121644	ENST00000263831	protein_coding	NOVEL	None	24264	486	161	244816405	244869253	1	C1orf121, FAM152A, PPPDE1	CGI-146, FLJ21998
1	DESI2	ENSG00000121644	ENST00000484738	processed_transcript	KNOWN	None	24264	None	None	244816428	244819823	1	C1orf121, FAM152A, PPPDE1	CGI-146, FLJ21998
1	DESI2	ENSG00000121644	ENST00000418162	protein_coding	PUTATIVE	None	24264	304	100	244817053	244855224	1	C1orf121, FAM152A, PPPDE1	CGI-146, FLJ21998
2	AUP1	ENSG00000115307	ENST00000425118	nonsense_mediated_decay	KNOWN	None	891	1122	373	74753772	74756887	-1	None	None
2	AUP1	ENSG00000115307	ENST00000377526	protein_coding	KNOWN	CCDS42702	891	1233	410	74753775	74757066	-1	None	None
2	AUP1	ENSG00000115307	ENST00000463900	retained_intron	KNOWN	None	891	None	None	74753779	74756824	-1	None	None
2	AUP1	ENSG00000115307	ENST00000466894	retained_intron	KNOWN	None	891	None	None	74753816	74756812	-1	None	None
2	AUP1	ENSG00000115307	ENST00000486234	retained_intron	KNOWN	None	891	None	None	74753873	74755212	-1	None	None
2	AUP1	ENSG00000115307	ENST00000462297	retained_intron	KNOWN	None	891	None	None	74754159	74754741	-1	None	None
2	AUP1	ENSG00000115307	ENST00000464887	retained_intron	KNOWN	None	891	None	None	74754863	74756063	-1	None	None
2	AUP1	ENSG00000115307	ENST00000472800	retained_intron	KNOWN	None	891	None	None	74755949	74756887	-1	None	None
1	COX20	ENSG00000203667	ENST00000411948	protein_coding	KNOWN	CCDS31080	26970	357	118	244998624	245008359	1	FAM36A	FLJ43269
1	COX20	ENSG00000203667	ENST00000366528	protein_coding	PUTATIVE	None	26970	393	130	244998918	245006554	1	FAM36A	FLJ43269
1	COX20	ENSG00000203667	ENST00000391839	processed_transcript	KNOWN	None	26970	None	None	244998958	245007182	1	FAM36A	FLJ43269
1	COX20	ENSG00000203667	ENST00000498262	processed_transcript	KNOWN	None	26970	None	None	244998961	245008359	1	FAM36A	FLJ43269
1	COX20	ENSG00000203667	ENST00000464757	retained_intron	KNOWN	None	26970	None	None	245003049	245006582	1	FAM36A	FLJ43269
1	FPGT-TNNI3K	ENSG00000259030	ENST00000370899	protein_coding	NOVEL	CCDS55608	42952	2532	843	74663926	74930609	1	None	None
1	FPGT-TNNI3K	ENSG00000259030	ENST00000370895	protein_coding	NOVEL	None	42952	2094	697	74663928	74841532	1	None	None
1	FPGT-TNNI3K	ENSG00000259030	ENST00000534632	protein_coding	NOVEL	None	42952	487	161	74663933	74833648	1	None	None
1	FPGT-TNNI3K	ENSG00000259030	ENST00000557284	protein_coding	KNOWN	CCDS44161	42952	2811	936	74663963	75009666	1	None	None
1	CD5L	ENSG00000073754	ENST00000368174	protein_coding	KNOWN	CCDS1171	1690	1044	347	157800704	157811588	-1	API6	Spalpha
1	CD5L	ENSG00000073754	ENST00000484609	processed_transcript	KNOWN	None	1690	None	None	157805736	157868046	-1	API6	Spalpha
14	VASH1	ENSG00000071246	ENST00000167106	protein_coding	KNOWN	CCDS9851	19964	1098	365	77228532	77249354	1	KIAA1036	None
14	VASH1	ENSG00000071246	ENST00000554237	protein_coding	KNOWN	None	19964	615	204	77228672	77239993	1	KIAA1036	None
14	VASH1	ENSG00000071246	ENST00000556038	processed_transcript	KNOWN	None	19964	None	None	77236224	77244342	1	KIAA1036	None
14	VASH1	ENSG00000071246	ENST00000553518	processed_transcript	KNOWN	None	19964	None	None	77236296	77240256	1	KIAA1036	None
14	VASH1	ENSG00000071246	ENST00000554743	protein_coding	PUTATIVE	None	19964	276	91	77244349	77246318	1	KIAA1036	None
4	PSAPL1	ENSG00000178597	ENST00000319098	protein_coding	KNOWN	CCDS47009	33131	1566	521	7432022	7436700	-1	None	None
10	MARCH8	ENSG00000165406	ENST00000453424	protein_coding	PUTATIVE	None	23356	1722	573	45950035	46030842	-1	MIR	c-MIR, MARCH-VIII, RNF178
10	MARCH8	ENSG00000165406	ENST00000395769	protein_coding	KNOWN	CCDS7213	23356	876	291	45952954	46030819	-1	MIR	c-MIR, MARCH-VIII, RNF178
10	MARCH8	ENSG00000165406	ENST00000476962	processed_transcript	KNOWN	None	23356	None	None	45952959	45957652	-1	MIR	c-MIR, MARCH-VIII, RNF178
10	MARCH8	ENSG00000165406	ENST00000602712	retained_intron	KNOWN	None	23356	None	None	45956531	46090025	-1	MIR	c-MIR, MARCH-VIII, RNF178
10	MARCH8	ENSG00000165406	ENST00000453980	protein_coding	KNOWN	None	23356	267	88	45956835	46089939	-1	MIR	c-MIR, MARCH-VIII, RNF178
10	MARCH8	ENSG00000165406	ENST00000451376	lincRNA	KNOWN	None	23356	None	None	46088878	46090046	-1	MIR	c-MIR, MARCH-VIII, RNF178
10	MARCH8	ENSG00000165406	ENST00000395771	protein_coding	KNOWN	CCDS7213	23356	876	291	45952817	46090354	-1	MIR	c-MIR, MARCH-VIII, RNF178
10	MARCH8	ENSG00000165406	ENST00000319836	protein_coding	KNOWN	CCDS7213	23356	876	291	45952817	46090354	-1	MIR	c-MIR, MARCH-VIII, RNF178
X	ZNF449	ENSG00000173275	ENST00000370761	protein_coding	KNOWN	None	21039	495	164	134478721	134482954	1	None	ZSCAN19, FLJ23614
X	ZNF449	ENSG00000173275	ENST00000339249	protein_coding	KNOWN	CCDS14649	21039	1557	518	134478721	134497077	1	None	ZSCAN19, FLJ23614
X	ZNF449	ENSG00000173275	ENST00000370760	protein_coding	KNOWN	None	21039	384	127	134478721	134482708	1	None	ZSCAN19, FLJ23614
HSCHR6_MHC_COX	HSPA1L	ENSG00000236251	ENST00000456772	protein_coding	KNOWN	None	5234	1926	641	31764773	31770218	-1	None	HSP70-HOM, hum70t
2	EEF1B2	ENSG00000114942	ENST00000236957	protein_coding	KNOWN	CCDS2367	3208	678	225	207024309	207027652	1	None	None
2	EEF1B2	ENSG00000114942	ENST00000392222	protein_coding	KNOWN	CCDS2367	3208	678	225	207024329	207027652	1	None	None
2	EEF1B2	ENSG00000114942	ENST00000445505	protein_coding	KNOWN	None	3208	370	122	207024331	207026801	1	None	None
2	EEF1B2	ENSG00000114942	ENST00000479587	retained_intron	KNOWN	None	3208	None	None	207024339	207025841	1	None	None
2	EEF1B2	ENSG00000114942	ENST00000429769	nonsense_mediated_decay	KNOWN	None	3208	207	68	207024360	207027525	1	None	None
2	EEF1B2	ENSG00000114942	ENST00000460760	retained_intron	KNOWN	None	3208	None	None	207024362	207025914	1	None	None
2	EEF1B2	ENSG00000114942	ENST00000415904	nonsense_mediated_decay	KNOWN	None	3208	207	68	207024651	207026191	1	None	None
2	EEF1B2	ENSG00000114942	ENST00000435123	nonsense_mediated_decay	KNOWN	None	3208	90	29	207024658	207026178	1	None	None
2	EEF1B2	ENSG00000114942	ENST00000455150	nonsense_mediated_decay	KNOWN	None	3208	207	68	207024658	207027563	1	None	None
2	EEF1B2	ENSG00000114942	ENST00000482103	retained_intron	KNOWN	None	3208	None	None	207026952	207027652	1	None	None
2	EEF1B2	ENSG00000114942	ENST00000392221	protein_coding	KNOWN	CCDS2367	3208	678	225	207024318	207027651	1	None	None
12	SLC6A12	ENSG00000111181	ENST00000359674	protein_coding	KNOWN	CCDS8501	11045	1845	614	299243	322863	-1	None	BGT-1
12	SLC6A12	ENSG00000111181	ENST00000545058	retained_intron	KNOWN	None	11045	None	None	299252	308224	-1	None	BGT-1
12	SLC6A12	ENSG00000111181	ENST00000424061	protein_coding	KNOWN	CCDS8501	11045	1845	614	299302	322504	-1	None	BGT-1
12	SLC6A12	ENSG00000111181	ENST00000536824	protein_coding	KNOWN	CCDS8501	11045	1845	614	300234	323286	-1	None	BGT-1
12	SLC6A12	ENSG00000111181	ENST00000542825	retained_intron	KNOWN	None	11045	None	None	304392	308220	-1	None	BGT-1
12	SLC6A12	ENSG00000111181	ENST00000535498	processed_transcript	KNOWN	None	11045	None	None	305400	308937	-1	None	BGT-1
12	SLC6A12	ENSG00000111181	ENST00000544782	retained_intron	KNOWN	None	11045	None	None	305996	308226	-1	None	BGT-1
12	SLC6A12	ENSG00000111181	ENST00000538272	processed_transcript	KNOWN	None	11045	None	None	307077	312673	-1	None	BGT-1
12	SLC6A12	ENSG00000111181	ENST00000540094	retained_intron	KNOWN	None	11045	None	None	307837	311980	-1	None	BGT-1
12	SLC6A12	ENSG00000111181	ENST00000538580	retained_intron	KNOWN	None	11045	None	None	310394	311948	-1	None	BGT-1
12	SLC6A12	ENSG00000111181	ENST00000536116	processed_transcript	KNOWN	None	11045	None	None	311906	322711	-1	None	BGT-1
12	SLC6A12	ENSG00000111181	ENST00000537793	protein_coding	KNOWN	None	11045	438	145	311958	320382	-1	None	BGT-1
12	SLC6A12	ENSG00000111181	ENST00000535347	protein_coding	PUTATIVE	None	11045	243	80	312035	323256	-1	None	BGT-1
12	SLC6A12	ENSG00000111181	ENST00000537826	retained_intron	KNOWN	None	11045	None	None	318862	323736	-1	None	BGT-1
12	SLC6A12	ENSG00000111181	ENST00000538424	processed_transcript	KNOWN	None	11045	None	None	321238	322883	-1	None	BGT-1
12	SLC6A12	ENSG00000111181	ENST00000397296	protein_coding	KNOWN	CCDS8501	11045	1845	614	299252	319771	-1	None	BGT-1
12	SLC6A12	ENSG00000111181	ENST00000428720	protein_coding	KNOWN	CCDS8501	11045	1845	614	299252	323689	-1	None	BGT-1
8	PPP3CC	ENSG00000120910	ENST00000518852	protein_coding	PUTATIVE	None	9316	981	326	22298332	22380326	1	None	CALNA3, PP2Bgamma
8	PPP3CC	ENSG00000120910	ENST00000240139	protein_coding	KNOWN	CCDS34859	9316	1539	512	22298596	22398638	1	None	CALNA3, PP2Bgamma
8	PPP3CC	ENSG00000120910	ENST00000289963	protein_coding	KNOWN	CCDS59094	9316	1509	502	22298637	22398652	1	None	CALNA3, PP2Bgamma
8	PPP3CC	ENSG00000120910	ENST00000397775	protein_coding	NOVEL	CCDS59093	9316	1566	521	22298649	22398569	1	None	CALNA3, PP2Bgamma
8	PPP3CC	ENSG00000120910	ENST00000522000	protein_coding	PUTATIVE	None	9316	460	152	22298878	22333180	1	None	CALNA3, PP2Bgamma
8	PPP3CC	ENSG00000120910	ENST00000522034	protein_coding	PUTATIVE	None	9316	626	207	22333105	22385038	1	None	CALNA3, PP2Bgamma
8	PPP3CC	ENSG00000120910	ENST00000521651	protein_coding	PUTATIVE	None	9316	608	201	22355512	22381262	1	None	CALNA3, PP2Bgamma
8	PPP3CC	ENSG00000120910	ENST00000523620	protein_coding	PUTATIVE	None	9316	403	133	22368421	22380244	1	None	CALNA3, PP2Bgamma
19	VRK3	ENSG00000105053	ENST00000316763	protein_coding	KNOWN	CCDS12791	18996	1425	474	50479724	50528643	-1	None	None
19	VRK3	ENSG00000105053	ENST00000377011	protein_coding	KNOWN	CCDS33076	18996	1275	424	50479749	50528629	-1	None	None
19	VRK3	ENSG00000105053	ENST00000599538	protein_coding	KNOWN	CCDS12791	18996	1425	474	50480017	50529203	-1	None	None
19	VRK3	ENSG00000105053	ENST00000596814	nonsense_mediated_decay	KNOWN	None	18996	594	197	50481826	50528626	-1	None	None
19	VRK3	ENSG00000105053	ENST00000601341	protein_coding	NOVEL	CCDS33076	18996	1275	424	50481970	50528659	-1	None	None
19	VRK3	ENSG00000105053	ENST00000594948	protein_coding	NOVEL	CCDS12791	18996	1425	474	50482017	50528626	-1	None	None
19	VRK3	ENSG00000105053	ENST00000598553	retained_intron	KNOWN	None	18996	None	None	50482135	50484441	-1	None	None
19	VRK3	ENSG00000105053	ENST00000601912	protein_coding	NOVEL	None	18996	1089	362	50484911	50523906	-1	None	None
19	VRK3	ENSG00000105053	ENST00000594092	protein_coding	KNOWN	None	18996	1239	412	50484957	50528584	-1	None	None
19	VRK3	ENSG00000105053	ENST00000593912	protein_coding	PUTATIVE	None	18996	354	117	50489556	50496167	-1	None	None
19	VRK3	ENSG00000105053	ENST00000600284	processed_transcript	KNOWN	None	18996	None	None	50489999	50500798	-1	None	None
19	VRK3	ENSG00000105053	ENST00000593919	protein_coding	PUTATIVE	None	18996	1221	406	50490958	50528629	-1	None	None
19	VRK3	ENSG00000105053	ENST00000594090	nonsense_mediated_decay	KNOWN	None	18996	219	72	50491548	50528626	-1	None	None
19	VRK3	ENSG00000105053	ENST00000596121	nonsense_mediated_decay	KNOWN	None	18996	744	247	50492923	50523906	-1	None	None
19	VRK3	ENSG00000105053	ENST00000424804	processed_transcript	KNOWN	None	18996	None	None	50492953	50528627	-1	None	None
19	VRK3	ENSG00000105053	ENST00000599342	nonsense_mediated_decay	KNOWN	None	18996	219	72	50498120	50523904	-1	None	None
19	VRK3	ENSG00000105053	ENST00000600137	protein_coding	NOVEL	None	18996	533	176	50498462	50528396	-1	None	None
19	VRK3	ENSG00000105053	ENST00000594104	retained_intron	KNOWN	None	18996	None	None	50500259	50502455	-1	None	None
19	VRK3	ENSG00000105053	ENST00000601849	retained_intron	KNOWN	None	18996	None	None	50500801	50504672	-1	None	None
19	VRK3	ENSG00000105053	ENST00000600031	retained_intron	KNOWN	None	18996	None	None	50502525	50504634	-1	None	None
19	VRK3	ENSG00000105053	ENST00000597215	protein_coding	KNOWN	None	18996	547	181	50510826	50528396	-1	None	None
19	VRK3	ENSG00000105053	ENST00000600259	protein_coding	NOVEL	None	18996	451	149	50510826	50528659	-1	None	None
19	VRK3	ENSG00000105053	ENST00000596445	protein_coding	KNOWN	None	18996	507	168	50510866	50529193	-1	None	None
19	VRK3	ENSG00000105053	ENST00000601324	protein_coding	KNOWN	None	18996	338	111	50511035	50528629	-1	None	None
19	VRK3	ENSG00000105053	ENST00000599138	processed_transcript	KNOWN	None	18996	None	None	50512013	50528696	-1	None	None
19	VRK3	ENSG00000105053	ENST00000602029	retained_intron	KNOWN	None	18996	None	None	50518931	50528627	-1	None	None
19	VRK3	ENSG00000105053	ENST00000443401	protein_coding	KNOWN	None	18996	732	243	50481826	50528626	-1	None	None
14	EXOC3L4	ENSG00000205436	ENST00000380069	protein_coding	KNOWN	CCDS32163	20120	2169	722	103566481	103576608	1	C14orf73	None
14	EXOC3L4	ENSG00000205436	ENST00000559116	protein_coding	NOVEL	None	20120	460	152	103566665	103570665	1	C14orf73	None
14	EXOC3L4	ENSG00000205436	ENST00000560925	retained_intron	KNOWN	None	20120	None	None	103568714	103576884	1	C14orf73	None
14	EXOC3L4	ENSG00000205436	ENST00000560102	retained_intron	KNOWN	None	20120	None	None	103569889	103570665	1	C14orf73	None
14	EXOC3L4	ENSG00000205436	ENST00000559661	nonsense_mediated_decay	KNOWN	None	20120	46	14	103570687	103576401	1	C14orf73	None
14	EXOC3L4	ENSG00000205436	ENST00000560304	protein_coding	PUTATIVE	None	20120	637	211	103573853	103576896	1	C14orf73	None
14	EXOC3L4	ENSG00000205436	ENST00000559693	retained_intron	KNOWN	None	20120	None	None	103573959	103576896	1	C14orf73	None
4	AFAP1	ENSG00000196526	ENST00000360265	protein_coding	KNOWN	CCDS3397	24017	2193	730	7760441	7874040	-1	None	AFAP-110, AFAP
4	AFAP1	ENSG00000196526	ENST00000505447	retained_intron	KNOWN	None	24017	None	None	7764949	7780914	-1	None	AFAP-110, AFAP
4	AFAP1	ENSG00000196526	ENST00000513842	processed_transcript	KNOWN	None	24017	None	None	7765294	7800887	-1	None	AFAP-110, AFAP
4	AFAP1	ENSG00000196526	ENST00000382543	protein_coding	NOVEL	CCDS47010	24017	2445	814	7765351	7873809	-1	None	AFAP-110, AFAP
4	AFAP1	ENSG00000196526	ENST00000508415	processed_transcript	KNOWN	None	24017	None	None	7790334	7795539	-1	None	AFAP-110, AFAP
4	AFAP1	ENSG00000196526	ENST00000513856	processed_transcript	KNOWN	None	24017	None	None	7840315	7864038	-1	None	AFAP-110, AFAP
4	AFAP1	ENSG00000196526	ENST00000420658	protein_coding	KNOWN	CCDS47010	24017	2445	814	7760442	7941653	-1	None	AFAP-110, AFAP
4	AFAP1	ENSG00000196526	ENST00000358461	protein_coding	KNOWN	CCDS3397	24017	2193	730	7760442	7941653	-1	None	AFAP-110, AFAP
1	TNNI3K	ENSG00000116783	ENST00000533006	processed_transcript	KNOWN	None	19661	None	None	74663937	74715202	1	None	CARK
1	TNNI3K	ENSG00000116783	ENST00000370893	protein_coding	PUTATIVE	None	19661	456	151	74663948	74706367	1	None	CARK
1	TNNI3K	ENSG00000116783	ENST00000326637	protein_coding	KNOWN	CCDS664	19661	2508	835	74701085	75010108	1	None	CARK
1	TNNI3K	ENSG00000116783	ENST00000530184	processed_transcript	KNOWN	None	19661	None	None	74801811	74811858	1	None	CARK
1	TNNI3K	ENSG00000116783	ENST00000497284	retained_intron	KNOWN	None	19661	None	None	74834704	74835603	1	None	CARK
1	TNNI3K	ENSG00000116783	ENST00000526236	protein_coding	PUTATIVE	None	19661	452	149	74834745	74841532	1	None	CARK
1	TNNI3K	ENSG00000116783	ENST00000534020	protein_coding	NOVEL	None	19661	566	187	74834905	74905223	1	None	CARK
1	TNNI3K	ENSG00000116783	ENST00000525480	protein_coding	PUTATIVE	None	19661	341	112	74834918	74884027	1	None	CARK
1	TNNI3K	ENSG00000116783	ENST00000370889	retained_intron	KNOWN	None	19661	None	None	74904749	74929233	1	None	CARK
1	TNNI3K	ENSG00000116783	ENST00000465473	processed_transcript	KNOWN	None	19661	None	None	75005939	75010112	1	None	CARK
1	TNNI3K	ENSG00000116783	ENST00000370891	protein_coding	KNOWN	CCDS44161	19661	2811	936	74663947	75010108	1	None	CARK
6	AK9	ENSG00000155085	ENST00000470564	protein_coding	NOVEL	None	33814	2249	748	109814064	109854536	-1	C6orf224, AKD2, C6orf199, AKD1	FLJ42177, FLJ25791, dJ70A9.1, MGC26954
6	AK9	ENSG00000155085	ENST00000490722	protein_coding	NOVEL	None	33814	937	311	109814477	109827621	-1	C6orf224, AKD2, C6orf199, AKD1	FLJ42177, FLJ25791, dJ70A9.1, MGC26954
6	AK9	ENSG00000155085	ENST00000491875	protein_coding	NOVEL	None	33814	656	217	109848831	109867098	-1	C6orf224, AKD2, C6orf199, AKD1	FLJ42177, FLJ25791, dJ70A9.1, MGC26954
6	AK9	ENSG00000155085	ENST00000355283	protein_coding	NOVEL	None	33814	1011	336	109848832	109871740	-1	C6orf224, AKD2, C6orf199, AKD1	FLJ42177, FLJ25791, dJ70A9.1, MGC26954
6	AK9	ENSG00000155085	ENST00000466992	retained_intron	KNOWN	None	33814	None	None	109870887	109940404	-1	C6orf224, AKD2, C6orf199, AKD1	FLJ42177, FLJ25791, dJ70A9.1, MGC26954
6	AK9	ENSG00000155085	ENST00000368948	protein_coding	KNOWN	None	33814	2211	736	109900548	110012420	-1	C6orf224, AKD2, C6orf199, AKD1	FLJ42177, FLJ25791, dJ70A9.1, MGC26954
6	AK9	ENSG00000155085	ENST00000285397	protein_coding	KNOWN	CCDS5077	33814	1266	421	109952896	110012420	-1	C6orf224, AKD2, C6orf199, AKD1	FLJ42177, FLJ25791, dJ70A9.1, MGC26954
6	AK9	ENSG00000155085	ENST00000524674	protein_coding	NOVEL	None	33814	577	191	109954447	109983860	-1	C6orf224, AKD2, C6orf199, AKD1	FLJ42177, FLJ25791, dJ70A9.1, MGC26954
6	AK9	ENSG00000155085	ENST00000448084	protein_coding	KNOWN	None	33814	682	226	109962741	110011709	-1	C6orf224, AKD2, C6orf199, AKD1	FLJ42177, FLJ25791, dJ70A9.1, MGC26954
6	AK9	ENSG00000155085	ENST00000605986	non_stop_decay	KNOWN	None	33814	411	136	109965708	109980528	-1	C6orf224, AKD2, C6orf199, AKD1	FLJ42177, FLJ25791, dJ70A9.1, MGC26954
6	AK9	ENSG00000155085	ENST00000532976	protein_coding	NOVEL	None	33814	778	258	109965873	110011873	-1	C6orf224, AKD2, C6orf199, AKD1	FLJ42177, FLJ25791, dJ70A9.1, MGC26954
6	AK9	ENSG00000155085	ENST00000424296	protein_coding	KNOWN	CCDS55048	33814	5736	1911	109814059	110012415	-1	C6orf224, AKD2, C6orf199, AKD1	FLJ42177, FLJ25791, dJ70A9.1, MGC26954
6	AK9	ENSG00000155085	ENST00000341338	protein_coding	KNOWN	None	33814	1089	362	109849736	110012415	-1	C6orf224, AKD2, C6orf199, AKD1	FLJ42177, FLJ25791, dJ70A9.1, MGC26954
X	DDX26B	ENSG00000165359	ENST00000370752	protein_coding	KNOWN	CCDS35401	27334	2586	861	134654584	134716434	1	None	FLJ41215
X	DDX26B	ENSG00000165359	ENST00000481908	processed_transcript	KNOWN	None	27334	None	None	134654584	134716434	1	None	FLJ41215
X	DDX26B	ENSG00000165359	ENST00000493637	processed_transcript	KNOWN	None	27334	None	None	134654594	134716434	1	None	FLJ41215
X	DDX26B	ENSG00000165359	ENST00000494957	processed_transcript	KNOWN	None	27334	None	None	134713810	134716435	1	None	FLJ41215
X	DDX26B	ENSG00000165359	ENST00000481429	processed_transcript	KNOWN	None	27334	None	None	134713862	134716427	1	None	FLJ41215
1	KIRREL	ENSG00000183853	ENST00000360089	protein_coding	KNOWN	None	15734	1782	593	157963063	158065841	1	None	NEPH1
1	KIRREL	ENSG00000183853	ENST00000359209	protein_coding	KNOWN	CCDS1172	15734	2274	757	157963400	158065443	1	None	NEPH1
1	KIRREL	ENSG00000183853	ENST00000368172	protein_coding	PUTATIVE	None	15734	1716	571	158056470	158070052	1	None	NEPH1
1	KIRREL	ENSG00000183853	ENST00000368173	protein_coding	KNOWN	None	15734	2322	773	157963063	158065838	1	None	NEPH1
1	KIRREL	ENSG00000183853	ENST00000392272	protein_coding	KNOWN	None	15734	1965	654	157963063	158065838	1	None	NEPH1
1	KIRREL	ENSG00000183853	ENST00000416935	protein_coding	KNOWN	None	15734	1974	657	157963435	158065010	1	None	NEPH1
1	HNRNPU	ENSG00000153187	ENST00000444376	protein_coding	KNOWN	CCDS31081	5048	2421	806	245014468	245027844	-1	HNRPU	SAF-A, hnRNPU
1	HNRNPU	ENSG00000153187	ENST00000283179	protein_coding	KNOWN	CCDS41479	5048	2478	825	245016690	245027773	-1	HNRPU	SAF-A, hnRNPU
1	HNRNPU	ENSG00000153187	ENST00000366525	retained_intron	KNOWN	None	5048	None	None	245017435	245024393	-1	HNRPU	SAF-A, hnRNPU
1	HNRNPU	ENSG00000153187	ENST00000483966	retained_intron	KNOWN	None	5048	None	None	245019585	245026957	-1	HNRPU	SAF-A, hnRNPU
1	HNRNPU	ENSG00000153187	ENST00000468690	retained_intron	KNOWN	None	5048	None	None	245019716	245020378	-1	HNRPU	SAF-A, hnRNPU
1	HNRNPU	ENSG00000153187	ENST00000440865	protein_coding	PUTATIVE	None	5048	725	240	245021413	245026396	-1	HNRPU	SAF-A, hnRNPU
1	HNRNPU	ENSG00000153187	ENST00000465881	retained_intron	KNOWN	None	5048	None	None	245021455	245022649	-1	HNRPU	SAF-A, hnRNPU
1	HNRNPU	ENSG00000153187	ENST00000476241	retained_intron	KNOWN	None	5048	None	None	245025080	245027793	-1	HNRPU	SAF-A, hnRNPU
2	GPR1	ENSG00000183671	ENST00000407325	protein_coding	KNOWN	CCDS2368	4463	1068	355	207040040	207082748	-1	None	None
2	GPR1	ENSG00000183671	ENST00000437420	protein_coding	KNOWN	CCDS2368	4463	1068	355	207040904	207082627	-1	None	None
2	GPR1	ENSG00000183671	ENST00000442134	protein_coding	KNOWN	None	4463	682	226	207041290	207078095	-1	None	None
2	GPR1	ENSG00000183671	ENST00000451790	protein_coding	KNOWN	None	4463	535	177	207041437	207078349	-1	None	None
2	GPR1	ENSG00000183671	ENST00000447845	protein_coding	KNOWN	None	4463	412	136	207041560	207078162	-1	None	None
2	GPR1	ENSG00000183671	ENST00000439932	protein_coding	KNOWN	None	4463	248	81	207041724	207078468	-1	None	None
2	GPR1	ENSG00000183671	ENST00000411719	protein_coding	KNOWN	None	4463	221	72	207041751	207082771	-1	None	None
2	GPR1	ENSG00000183671	ENST00000458440	protein_coding	KNOWN	None	4463	57	18	207041915	207082624	-1	None	None
5	None	ENSG00000188242	ENST00000510714	processed_transcript	PUTATIVE	None	None	None	None	466239	472991	-1	None	None
5	None	ENSG00000188242	ENST00000342584	protein_coding	PUTATIVE	None	None	315	104	470625	473213	-1	None	None
5	None	ENSG00000188242	ENST00000510604	protein_coding	PUTATIVE	None	None	288	95	471362	473075	-1	None	None
5	None	ENSG00000188242	ENST00000502511	processed_transcript	PUTATIVE	None	None	None	None	472222	472858	-1	None	None
17	WDR45B	ENSG00000141580	ENST00000392325	protein_coding	KNOWN	CCDS11815	25072	1035	344	80572438	80606411	-1	WDR45L	WIPI3
17	WDR45B	ENSG00000141580	ENST00000572583	nonsense_mediated_decay	KNOWN	None	25072	605	200	80572452	80606194	-1	WDR45L	WIPI3
17	WDR45B	ENSG00000141580	ENST00000576517	nonsense_mediated_decay	KNOWN	None	25072	373	123	80572458	80576960	-1	WDR45L	WIPI3
17	WDR45B	ENSG00000141580	ENST00000573656	retained_intron	KNOWN	None	25072	None	None	80573862	80583411	-1	WDR45L	WIPI3
17	WDR45B	ENSG00000141580	ENST00000571835	processed_transcript	KNOWN	None	25072	None	None	80573891	80594459	-1	WDR45L	WIPI3
17	WDR45B	ENSG00000141580	ENST00000573616	nonsense_mediated_decay	KNOWN	None	25072	525	174	80574400	80606320	-1	WDR45L	WIPI3
17	WDR45B	ENSG00000141580	ENST00000577774	retained_intron	KNOWN	None	25072	None	None	80574494	80575395	-1	WDR45L	WIPI3
17	WDR45B	ENSG00000141580	ENST00000571767	processed_transcript	KNOWN	None	25072	None	None	80575230	80583835	-1	WDR45L	WIPI3
17	WDR45B	ENSG00000141580	ENST00000571817	nonsense_mediated_decay	KNOWN	None	25072	258	85	80576940	80606324	-1	WDR45L	WIPI3
17	WDR45B	ENSG00000141580	ENST00000574828	processed_transcript	KNOWN	None	25072	None	None	80584665	80606429	-1	WDR45L	WIPI3
1	CD1D	ENSG00000158473	ENST00000368171	protein_coding	KNOWN	CCDS1173	1637	1008	335	158149737	158154686	1	None	None
1	LRRC53	ENSG00000162621	ENST00000294635	protein_coding	NOVEL	None	25255	3744	1247	74935562	74978298	-1	None	None
1	LRRC53	ENSG00000162621	ENST00000416014	protein_coding	KNOWN	None	25255	1530	509	74937776	74949033	-1	None	None
2	ZDBF2	ENSG00000204186	ENST00000374423	protein_coding	KNOWN	CCDS46501	29313	7065	2354	207139387	207179148	1	None	FLJ45338, KIAA1571
16	UBFD1	ENSG00000103353	ENST00000395878	protein_coding	KNOWN	CCDS10613	30565	930	309	23568683	23585710	1	None	FLJ42145, FLJ38870, UBPH
16	UBFD1	ENSG00000103353	ENST00000567212	protein_coding	NOVEL	None	30565	903	300	23569042	23585708	1	None	FLJ42145, FLJ38870, UBPH
16	UBFD1	ENSG00000103353	ENST00000567264	protein_coding	PUTATIVE	None	30565	573	190	23569048	23571161	1	None	FLJ42145, FLJ38870, UBPH
16	UBFD1	ENSG00000103353	ENST00000571064	processed_transcript	KNOWN	None	30565	None	None	23569058	23575411	1	None	FLJ42145, FLJ38870, UBPH
16	UBFD1	ENSG00000103353	ENST00000566669	retained_intron	KNOWN	None	30565	None	None	23569088	23570852	1	None	FLJ42145, FLJ38870, UBPH
16	UBFD1	ENSG00000103353	ENST00000569919	retained_intron	KNOWN	None	30565	None	None	23570349	23571189	1	None	FLJ42145, FLJ38870, UBPH
16	UBFD1	ENSG00000103353	ENST00000563366	processed_transcript	KNOWN	None	30565	None	None	23572986	23582178	1	None	FLJ42145, FLJ38870, UBPH
16	UBFD1	ENSG00000103353	ENST00000565634	retained_intron	KNOWN	None	30565	None	None	23573154	23581896	1	None	FLJ42145, FLJ38870, UBPH
16	UBFD1	ENSG00000103353	ENST00000564106	processed_transcript	PUTATIVE	None	30565	None	None	23575781	23582031	1	None	FLJ42145, FLJ38870, UBPH
16	UBFD1	ENSG00000103353	ENST00000566136	retained_intron	KNOWN	None	30565	None	None	23576285	23582179	1	None	FLJ42145, FLJ38870, UBPH
16	UBFD1	ENSG00000103353	ENST00000219638	protein_coding	KNOWN	None	30565	1602	533	23568392	23582179	1	None	FLJ42145, FLJ38870, UBPH
14	ANGEL1	ENSG00000013523	ENST00000251089	protein_coding	KNOWN	CCDS9852	19961	2013	670	77253588	77279283	-1	KIAA0759	None
14	ANGEL1	ENSG00000013523	ENST00000557179	protein_coding	PUTATIVE	None	19961	708	235	77255300	77270778	-1	KIAA0759	None
14	ANGEL1	ENSG00000013523	ENST00000555079	protein_coding	PUTATIVE	None	19961	202	66	77257014	77272858	-1	KIAA0759	None
14	ANGEL1	ENSG00000013523	ENST00000556298	nonsense_mediated_decay	KNOWN	None	19961	102	33	77275524	77279204	-1	KIAA0759	None
14	ANGEL1	ENSG00000013523	ENST00000554941	processed_transcript	PUTATIVE	None	19961	None	None	77275557	77278911	-1	KIAA0759	None
14	ANGEL1	ENSG00000013523	ENST00000557497	processed_transcript	PUTATIVE	None	19961	None	None	77275695	77292589	-1	KIAA0759	None
1	CD1A	ENSG00000158477	ENST00000289429	protein_coding	KNOWN	CCDS1174	1634	984	327	158223927	158228059	1	CD1	None
2	None	ENSG00000269633	ENST00000598562	protein_coding	NOVEL	None	None	381	126	207220463	207220843	1	None	None
5	SLC9A3	ENSG00000066230	ENST00000264938	protein_coding	KNOWN	CCDS3855	11073	2505	834	473425	524447	-1	NHE3	None
5	SLC9A3	ENSG00000066230	ENST00000514375	protein_coding	NOVEL	None	11073	2478	825	473476	524445	-1	NHE3	None
5	SLC9A3	ENSG00000066230	ENST00000507407	retained_intron	KNOWN	None	11073	None	None	479752	482759	-1	NHE3	None
1	C1orf173	ENSG00000178965	ENST00000326665	protein_coding	KNOWN	CCDS30755	25346	4593	1530	75033795	75139422	-1	None	DKFZp547I048, RP11-653A5.1
1	C1orf173	ENSG00000178965	ENST00000433746	processed_transcript	KNOWN	None	25346	None	None	75033801	75045447	-1	None	DKFZp547I048, RP11-653A5.1
1	C1orf173	ENSG00000178965	ENST00000420661	protein_coding	KNOWN	None	25346	1602	533	75055011	75100539	-1	None	DKFZp547I048, RP11-653A5.1
1	C1orf173	ENSG00000178965	ENST00000479666	nonsense_mediated_decay	KNOWN	None	25346	333	110	75078468	75100425	-1	None	DKFZp547I048, RP11-653A5.1
1	None	ENSG00000272195	ENST00000607453	protein_coding	PUTATIVE	None	None	1089	362	245132652	245134390	-1	None	None
1	CD1C	ENSG00000158481	ENST00000368170	protein_coding	KNOWN	CCDS1175	1636	1002	333	158259576	158263420	1	CD1	None
1	CD1C	ENSG00000158481	ENST00000443761	protein_coding	NOVEL	None	1636	844	280	158261060	158263407	1	CD1	None
7	None	ENSG00000267985	ENST00000594241	protein_coding	NOVEL	None	None	78	25	72459478	72464996	1	None	None
6	SNX14	ENSG00000135317	ENST00000346348	protein_coding	KNOWN	CCDS5003	14977	2682	893	86215214	86303631	-1	None	RGS-PX2
6	SNX14	ENSG00000135317	ENST00000314673	protein_coding	KNOWN	CCDS5004	14977	2841	946	86215217	86303613	-1	None	RGS-PX2
6	SNX14	ENSG00000135317	ENST00000513865	protein_coding	NOVEL	None	14977	1998	665	86215511	86303523	-1	None	RGS-PX2
6	SNX14	ENSG00000135317	ENST00000474645	retained_intron	KNOWN	None	14977	None	None	86215516	86218175	-1	None	RGS-PX2
6	SNX14	ENSG00000135317	ENST00000505648	protein_coding	KNOWN	None	14977	2685	894	86215516	86303874	-1	None	RGS-PX2
6	SNX14	ENSG00000135317	ENST00000508980	processed_transcript	KNOWN	None	14977	None	None	86215517	86291564	-1	None	RGS-PX2
6	SNX14	ENSG00000135317	ENST00000369627	protein_coding	KNOWN	None	14977	2814	937	86215520	86303568	-1	None	RGS-PX2
6	SNX14	ENSG00000135317	ENST00000503491	retained_intron	KNOWN	None	14977	None	None	86215524	86278201	-1	None	RGS-PX2
6	SNX14	ENSG00000135317	ENST00000508658	protein_coding	PUTATIVE	None	14977	536	177	86216926	86224331	-1	None	RGS-PX2
6	SNX14	ENSG00000135317	ENST00000515216	protein_coding	PUTATIVE	None	14977	2499	832	86217686	86299411	-1	None	RGS-PX2
6	SNX14	ENSG00000135317	ENST00000418862	protein_coding	NOVEL	None	14977	636	211	86217725	86238069	-1	None	RGS-PX2
6	SNX14	ENSG00000135317	ENST00000369635	nonsense_mediated_decay	KNOWN	None	14977	552	183	86223575	86303503	-1	None	RGS-PX2
6	SNX14	ENSG00000135317	ENST00000503608	retained_intron	KNOWN	None	14977	None	None	86227287	86243398	-1	None	RGS-PX2
6	SNX14	ENSG00000135317	ENST00000506182	retained_intron	KNOWN	None	14977	None	None	86237982	86253505	-1	None	RGS-PX2
6	SNX14	ENSG00000135317	ENST00000514801	retained_intron	KNOWN	None	14977	None	None	86243393	86246742	-1	None	RGS-PX2
6	SNX14	ENSG00000135317	ENST00000504191	retained_intron	KNOWN	None	14977	None	None	86257120	86259476	-1	None	RGS-PX2
6	SNX14	ENSG00000135317	ENST00000509338	protein_coding	NOVEL	None	14977	437	144	86259507	86303603	-1	None	RGS-PX2
6	SNX14	ENSG00000135317	ENST00000514419	protein_coding	NOVEL	None	14977	710	235	86259519	86303589	-1	None	RGS-PX2
6	SNX14	ENSG00000135317	ENST00000513869	nonsense_mediated_decay	KNOWN	None	14977	276	91	86259542	86303575	-1	None	RGS-PX2
15	RFX7	ENSG00000181827	ENST00000559847	nonsense_mediated_decay	KNOWN	None	25777	3831	1276	56379478	56436633	-1	RFXDC2	FLJ12994
15	RFX7	ENSG00000181827	ENST00000559447	protein_coding	KNOWN	None	25777	4092	1363	56382738	56535464	-1	RFXDC2	FLJ12994
15	RFX7	ENSG00000181827	ENST00000560792	protein_coding	KNOWN	None	25777	231	76	56395748	56482084	-1	RFXDC2	FLJ12994
15	RFX7	ENSG00000181827	ENST00000422057	protein_coding	KNOWN	None	25777	3846	1281	56379666	56535483	-1	RFXDC2	FLJ12994
15	RFX7	ENSG00000181827	ENST00000317318	protein_coding	KNOWN	None	25777	4122	1373	56380162	56535483	-1	RFXDC2	FLJ12994
15	RFX7	ENSG00000181827	ENST00000423270	protein_coding	KNOWN	None	25777	4383	1460	56382732	56535483	-1	RFXDC2	FLJ12994
1	CD1B	ENSG00000158485	ENST00000451207	protein_coding	KNOWN	None	1635	739	245	158297741	158300815	-1	CD1	None
1	CD1B	ENSG00000158485	ENST00000368168	protein_coding	KNOWN	CCDS1176	1635	1002	333	158297741	158301321	-1	CD1	None
15	CPLX3	ENSG00000213578	ENST00000395018	protein_coding	KNOWN	CCDS32294	27652	477	158	75118888	75124141	1	None	CPX-III
17	RAB40B	ENSG00000141542	ENST00000571995	protein_coding	KNOWN	CCDS11816	18284	837	278	80612849	80656604	-1	None	SEC4L, RAR
17	RAB40B	ENSG00000141542	ENST00000571880	processed_transcript	PUTATIVE	None	18284	None	None	80612913	80614757	-1	None	SEC4L, RAR
17	RAB40B	ENSG00000141542	ENST00000269347	protein_coding	PUTATIVE	None	18284	300	99	80614943	80656563	-1	None	SEC4L, RAR
17	RAB40B	ENSG00000141542	ENST00000576359	retained_intron	KNOWN	None	18284	None	None	80614944	80617465	-1	None	SEC4L, RAR
17	RAB40B	ENSG00000141542	ENST00000574132	retained_intron	KNOWN	None	18284	None	None	80615582	80617635	-1	None	SEC4L, RAR
17	RAB40B	ENSG00000141542	ENST00000570676	retained_intron	KNOWN	None	18284	None	None	80615669	80622771	-1	None	SEC4L, RAR
17	RAB40B	ENSG00000141542	ENST00000538809	protein_coding	PUTATIVE	None	18284	420	139	80615787	80656538	-1	None	SEC4L, RAR
17	RAB40B	ENSG00000141542	ENST00000576148	protein_coding	PUTATIVE	None	18284	129	42	80615791	80618907	-1	None	SEC4L, RAR
17	RAB40B	ENSG00000141542	ENST00000573395	retained_intron	KNOWN	None	18284	None	None	80615853	80616725	-1	None	SEC4L, RAR
17	RAB40B	ENSG00000141542	ENST00000571554	processed_transcript	PUTATIVE	None	18284	None	None	80618887	80654746	-1	None	SEC4L, RAR
17	RAB40B	ENSG00000141542	ENST00000572603	processed_transcript	PUTATIVE	None	18284	None	None	80618957	80656530	-1	None	SEC4L, RAR
4	None	ENSG00000228919	ENST00000429019	protein_coding	PUTATIVE	None	None	816	271	7940728	7942022	1	None	None
4	CCDC110	ENSG00000168491	ENST00000393540	protein_coding	KNOWN	CCDS47170	28504	2391	796	186366336	186392848	-1	None	KM-HN-1, MGC33607, CT52
4	CCDC110	ENSG00000168491	ENST00000307588	protein_coding	KNOWN	CCDS3843	28504	2502	833	186366336	186392913	-1	None	KM-HN-1, MGC33607, CT52
4	CCDC110	ENSG00000168491	ENST00000508538	nonsense_mediated_decay	KNOWN	None	28504	375	124	186366639	186379520	-1	None	KM-HN-1, MGC33607, CT52
4	CCDC110	ENSG00000168491	ENST00000510617	protein_coding	NOVEL	None	28504	2511	836	186378900	186392898	-1	None	KM-HN-1, MGC33607, CT52
4	CCDC110	ENSG00000168491	ENST00000510481	nonsense_mediated_decay	KNOWN	None	28504	201	66	186380966	186392906	-1	None	KM-HN-1, MGC33607, CT52
4	CCDC110	ENSG00000168491	ENST00000506876	protein_coding	NOVEL	None	28504	773	256	186381028	186392853	-1	None	KM-HN-1, MGC33607, CT52
4	CCDC110	ENSG00000168491	ENST00000507501	processed_transcript	KNOWN	None	28504	None	None	186381080	186392257	-1	None	KM-HN-1, MGC33607, CT52
4	CCDC110	ENSG00000168491	ENST00000506962	processed_transcript	KNOWN	None	28504	None	None	186381186	186392258	-1	None	KM-HN-1, MGC33607, CT52
4	CCDC110	ENSG00000168491	ENST00000504020	nonsense_mediated_decay	KNOWN	None	28504	150	49	186382237	186392856	-1	None	KM-HN-1, MGC33607, CT52
2	ADAM23	ENSG00000114948	ENST00000264377	protein_coding	KNOWN	CCDS2369	202	2499	832	207308263	207485851	1	None	MDC3
2	ADAM23	ENSG00000114948	ENST00000374415	protein_coding	KNOWN	None	202	2499	832	207308591	207482566	1	None	MDC3
2	ADAM23	ENSG00000114948	ENST00000444281	protein_coding	KNOWN	None	202	323	106	207459559	207482579	1	None	MDC3
2	ADAM23	ENSG00000114948	ENST00000374416	protein_coding	KNOWN	None	202	2499	832	207308539	207482879	1	None	MDC3
1	EFCAB2	ENSG00000203666	ENST00000391837	processed_transcript	KNOWN	None	28166	None	None	245133007	245255091	1	None	MGC12458
1	EFCAB2	ENSG00000203666	ENST00000518607	retained_intron	KNOWN	None	28166	None	None	245133041	245133798	1	None	MGC12458
1	EFCAB2	ENSG00000203666	ENST00000366523	protein_coding	KNOWN	CCDS31082	28166	489	162	245133171	245251139	1	None	MGC12458
1	EFCAB2	ENSG00000203666	ENST00000366522	protein_coding	KNOWN	None	28166	810	269	245133284	245290466	1	None	MGC12458
1	EFCAB2	ENSG00000203666	ENST00000497591	processed_transcript	KNOWN	None	28166	None	None	245133588	245255108	1	None	MGC12458
1	EFCAB2	ENSG00000203666	ENST00000447569	protein_coding	KNOWN	CCDS44341	28166	402	133	245133629	245285283	1	None	MGC12458
1	EFCAB2	ENSG00000203666	ENST00000473686	processed_transcript	KNOWN	None	28166	None	None	245133653	245251096	1	None	MGC12458
1	EFCAB2	ENSG00000203666	ENST00000366521	protein_coding	NOVEL	None	28166	664	220	245133658	245250858	1	None	MGC12458
1	EFCAB2	ENSG00000203666	ENST00000487845	processed_transcript	KNOWN	None	28166	None	None	245133692	245286293	1	None	MGC12458
1	EFCAB2	ENSG00000203666	ENST00000549220	processed_transcript	KNOWN	None	28166	None	None	245133707	245247133	1	None	MGC12458
1	EFCAB2	ENSG00000203666	ENST00000495271	processed_transcript	KNOWN	None	28166	None	None	245133725	245250883	1	None	MGC12458
1	EFCAB2	ENSG00000203666	ENST00000479260	processed_transcript	KNOWN	None	28166	None	None	245165455	245194133	1	None	MGC12458
1	EFCAB2	ENSG00000203666	ENST00000551317	protein_coding	PUTATIVE	None	28166	395	130	245180544	245247162	1	None	MGC12458
1	EFCAB2	ENSG00000203666	ENST00000425550	protein_coding	PUTATIVE	None	28166	383	126	245180544	245250263	1	None	MGC12458
1	EFCAB2	ENSG00000203666	ENST00000427529	protein_coding	PUTATIVE	None	28166	158	51	245246758	245250263	1	None	MGC12458
1	EFCAB2	ENSG00000203666	ENST00000479923	processed_transcript	KNOWN	None	28166	None	None	245270481	245285823	1	None	MGC12458
15	HAUS2	ENSG00000137814	ENST00000260372	protein_coding	KNOWN	CCDS10090	25530	708	235	42841008	42862192	1	C15orf25, CEP27	FLJ10460, HsT17025
15	HAUS2	ENSG00000137814	ENST00000567640	nonsense_mediated_decay	KNOWN	None	25530	192	63	42841026	42858834	1	C15orf25, CEP27	FLJ10460, HsT17025
15	HAUS2	ENSG00000137814	ENST00000568876	protein_coding	KNOWN	CCDS45247	25530	615	204	42841026	42860056	1	C15orf25, CEP27	FLJ10460, HsT17025
15	HAUS2	ENSG00000137814	ENST00000568846	protein_coding	PUTATIVE	None	25530	282	93	42841032	42853885	1	C15orf25, CEP27	FLJ10460, HsT17025
15	HAUS2	ENSG00000137814	ENST00000562398	protein_coding	NOVEL	None	25530	540	179	42841036	42856013	1	C15orf25, CEP27	FLJ10460, HsT17025
15	HAUS2	ENSG00000137814	ENST00000563479	nonsense_mediated_decay	KNOWN	None	25530	216	71	42841036	42858931	1	C15orf25, CEP27	FLJ10460, HsT17025
15	HAUS2	ENSG00000137814	ENST00000391623	nonsense_mediated_decay	KNOWN	None	25530	282	93	42841036	42861128	1	C15orf25, CEP27	FLJ10460, HsT17025
15	HAUS2	ENSG00000137814	ENST00000564279	nonsense_mediated_decay	KNOWN	None	25530	375	124	42841056	42858828	1	C15orf25, CEP27	FLJ10460, HsT17025
15	HAUS2	ENSG00000137814	ENST00000570178	nonsense_mediated_decay	KNOWN	None	25530	288	95	42841065	42859294	1	C15orf25, CEP27	FLJ10460, HsT17025
15	HAUS2	ENSG00000137814	ENST00000607467	protein_coding	PUTATIVE	None	25530	168	55	42851582	42853885	1	C15orf25, CEP27	FLJ10460, HsT17025
7	NSUN5	ENSG00000130305	ENST00000428206	protein_coding	NOVEL	CCDS55118	16385	1176	391	72716514	72722801	-1	WBSCR20, WBSCR20A	NOL1R, p120, (NOL1), FLJ10267, NSUN5A, Ynl022cL
7	NSUN5	ENSG00000130305	ENST00000471461	retained_intron	KNOWN	None	16385	None	None	72717222	72722813	-1	WBSCR20, WBSCR20A	NOL1R, p120, (NOL1), FLJ10267, NSUN5A, Ynl022cL
7	NSUN5	ENSG00000130305	ENST00000252594	protein_coding	KNOWN	CCDS5547	16385	1290	429	72717227	72722803	-1	WBSCR20, WBSCR20A	NOL1R, p120, (NOL1), FLJ10267, NSUN5A, Ynl022cL
7	NSUN5	ENSG00000130305	ENST00000438747	protein_coding	KNOWN	CCDS5546	16385	1401	466	72717227	72722864	-1	WBSCR20, WBSCR20A	NOL1R, p120, (NOL1), FLJ10267, NSUN5A, Ynl022cL
7	NSUN5	ENSG00000130305	ENST00000310326	protein_coding	NOVEL	CCDS55119	16385	1413	470	72717232	72722813	-1	WBSCR20, WBSCR20A	NOL1R, p120, (NOL1), FLJ10267, NSUN5A, Ynl022cL
7	NSUN5	ENSG00000130305	ENST00000478977	retained_intron	KNOWN	None	16385	None	None	72717928	72718700	-1	WBSCR20, WBSCR20A	NOL1R, p120, (NOL1), FLJ10267, NSUN5A, Ynl022cL
7	NSUN5	ENSG00000130305	ENST00000455763	nonsense_mediated_decay	KNOWN	None	16385	176	57	72718313	72722550	-1	WBSCR20, WBSCR20A	NOL1R, p120, (NOL1), FLJ10267, NSUN5A, Ynl022cL
1	CRYZ	ENSG00000116791	ENST00000370872	protein_coding	KNOWN	CCDS44163	2419	579	192	75171170	75198702	-1	None	None
1	CRYZ	ENSG00000116791	ENST00000340866	protein_coding	KNOWN	CCDS665	2419	990	329	75171170	75198714	-1	None	None
1	CRYZ	ENSG00000116791	ENST00000492102	processed_transcript	KNOWN	None	2419	None	None	75171172	75174511	-1	None	None
1	CRYZ	ENSG00000116791	ENST00000370871	protein_coding	KNOWN	CCDS44162	2419	888	295	75171656	75198706	-1	None	None
1	CRYZ	ENSG00000116791	ENST00000370870	protein_coding	KNOWN	None	2419	730	242	75172789	75198745	-1	None	None
1	CRYZ	ENSG00000116791	ENST00000441120	protein_coding	KNOWN	None	2419	619	205	75175793	75198495	-1	None	None
1	CRYZ	ENSG00000116791	ENST00000417775	protein_coding	KNOWN	CCDS665	2419	990	329	75171174	75199092	-1	None	None
19	None	ENSG00000167774	ENST00000598884	nonsense_mediated_decay	KNOWN	CCDS42492	None	342	113	8373167	8386263	-1	None	None
10	MARVELD1	ENSG00000155254	ENST00000451097	processed_transcript	KNOWN	None	28674	None	None	99472930	99477105	1	MRVLDC1	MGC4415, GB14, FLJ23440, FLJ22343, bA548K23.8
10	MARVELD1	ENSG00000155254	ENST00000434038	processed_transcript	KNOWN	None	28674	None	None	99473274	99477384	1	MRVLDC1	MGC4415, GB14, FLJ23440, FLJ22343, bA548K23.8
10	MARVELD1	ENSG00000155254	ENST00000285605	protein_coding	KNOWN	None	28674	522	173	99473481	99477907	1	MRVLDC1	MGC4415, GB14, FLJ23440, FLJ22343, bA548K23.8
10	MARVELD1	ENSG00000155254	ENST00000421644	processed_transcript	KNOWN	None	28674	None	None	99474451	99477236	1	MRVLDC1	MGC4415, GB14, FLJ23440, FLJ22343, bA548K23.8
2	HTRA2	ENSG00000115317	ENST00000258080	protein_coding	KNOWN	CCDS1951	14348	1377	458	74756504	74760472	1	PRSS25	OMI, PARK13
2	HTRA2	ENSG00000115317	ENST00000462909	processed_transcript	KNOWN	None	14348	None	None	74756852	74760279	1	PRSS25	OMI, PARK13
2	HTRA2	ENSG00000115317	ENST00000467961	processed_transcript	KNOWN	None	14348	None	None	74756902	74760374	1	PRSS25	OMI, PARK13
2	HTRA2	ENSG00000115317	ENST00000484881	processed_transcript	KNOWN	None	14348	None	None	74756949	74759052	1	PRSS25	OMI, PARK13
2	HTRA2	ENSG00000115317	ENST00000352222	protein_coding	KNOWN	CCDS1952	14348	1086	361	74757117	74760459	1	PRSS25	OMI, PARK13
2	HTRA2	ENSG00000115317	ENST00000437202	protein_coding	NOVEL	None	14348	1272	423	74757173	74760319	1	PRSS25	OMI, PARK13
2	HTRA2	ENSG00000115317	ENST00000484352	retained_intron	KNOWN	None	14348	None	None	74757296	74760443	1	PRSS25	OMI, PARK13
2	HTRA2	ENSG00000115317	ENST00000465521	retained_intron	KNOWN	None	14348	None	None	74757553	74758490	1	PRSS25	OMI, PARK13
2	HTRA2	ENSG00000115317	ENST00000482205	retained_intron	KNOWN	None	14348	None	None	74757724	74758376	1	PRSS25	OMI, PARK13
2	HTRA2	ENSG00000115317	ENST00000482331	retained_intron	KNOWN	None	14348	None	None	74757738	74759039	1	PRSS25	OMI, PARK13
17	None	ENSG00000227782	ENST00000442828	protein_coding	NOVEL	None	None	81	26	15943505	15943994	1	None	None
2	DYTN	ENSG00000232125	ENST00000452335	protein_coding	KNOWN	CCDS46502	23279	1737	578	207516345	207583120	-1	None	None
2	DYTN	ENSG00000232125	ENST00000477734	processed_transcript	KNOWN	None	23279	None	None	207564451	207570515	-1	None	None
1	TYW3	ENSG00000162623	ENST00000370867	protein_coding	KNOWN	CCDS666	24757	780	259	75198840	75232358	1	C1orf171	FLJ40918
1	TYW3	ENSG00000162623	ENST00000479111	processed_transcript	KNOWN	None	24757	None	None	75198931	75230084	1	C1orf171	FLJ40918
1	TYW3	ENSG00000162623	ENST00000483990	processed_transcript	KNOWN	None	24757	None	None	75201873	75218078	1	C1orf171	FLJ40918
1	TYW3	ENSG00000162623	ENST00000485401	processed_transcript	KNOWN	None	24757	None	None	75214325	75229673	1	C1orf171	FLJ40918
1	TYW3	ENSG00000162623	ENST00000449696	processed_transcript	PUTATIVE	None	24757	None	None	75215807	75218059	1	C1orf171	FLJ40918
1	TYW3	ENSG00000162623	ENST00000486467	processed_transcript	KNOWN	None	24757	None	None	75216818	75229685	1	C1orf171	FLJ40918
1	TYW3	ENSG00000162623	ENST00000467646	processed_transcript	KNOWN	None	24757	None	None	75229577	75232362	1	C1orf171	FLJ40918
1	TYW3	ENSG00000162623	ENST00000457880	protein_coding	KNOWN	CCDS53334	24757	681	226	75198836	75232358	1	C1orf171	FLJ40918
1	TYW3	ENSG00000162623	ENST00000421739	protein_coding	KNOWN	None	24757	528	175	75198858	75230141	1	C1orf171	FLJ40918
19	NDUFA7	ENSG00000267855	ENST00000601101	nonsense_mediated_decay	KNOWN	None	7691	192	63	8373490	8386259	-1	None	B14.5a
19	NDUFA7	ENSG00000267855	ENST00000593729	nonsense_mediated_decay	KNOWN	CCDS42492	7691	342	113	8373652	8386259	-1	None	B14.5a
19	NDUFA7	ENSG00000267855	ENST00000595856	nonsense_mediated_decay	KNOWN	None	7691	231	76	8373762	8386259	-1	None	B14.5a
19	NDUFA7	ENSG00000267855	ENST00000602059	retained_intron	KNOWN	None	7691	None	None	8375389	8384444	-1	None	B14.5a
19	NDUFA7	ENSG00000267855	ENST00000301457	protein_coding	KNOWN	CCDS42492	7691	342	113	8376168	8386280	-1	None	B14.5a
19	NDUFA7	ENSG00000267855	ENST00000601258	retained_intron	KNOWN	None	7691	None	None	8376250	8381696	-1	None	B14.5a
1	KIF26B	ENSG00000162849	ENST00000407071	protein_coding	KNOWN	CCDS44342	25484	6327	2108	245318287	245866428	1	None	FLJ10157
1	KIF26B	ENSG00000162849	ENST00000479506	processed_transcript	KNOWN	None	25484	None	None	245516980	245535019	1	None	FLJ10157
1	KIF26B	ENSG00000162849	ENST00000366518	protein_coding	KNOWN	None	25484	5184	1727	245674304	245872733	1	None	FLJ10157
1	KIF26B	ENSG00000162849	ENST00000483253	retained_intron	KNOWN	None	25484	None	None	245809394	245850616	1	None	FLJ10157
1	CD1E	ENSG00000158488	ENST00000368167	protein_coding	KNOWN	CCDS41417	1638	1167	388	158323540	158326738	1	None	None
1	CD1E	ENSG00000158488	ENST00000452291	protein_coding	KNOWN	CCDS53390	1638	600	199	158323634	158326686	1	None	None
1	CD1E	ENSG00000158488	ENST00000368165	protein_coding	KNOWN	CCDS53385	1638	897	298	158323673	158326686	1	None	None
1	CD1E	ENSG00000158488	ENST00000368166	protein_coding	KNOWN	CCDS41420	1638	564	187	158323675	158327289	1	None	None
1	CD1E	ENSG00000158488	ENST00000368163	protein_coding	KNOWN	CCDS41419	1638	966	321	158323700	158327319	1	None	None
1	CD1E	ENSG00000158488	ENST00000368164	protein_coding	KNOWN	CCDS41422	1638	306	101	158323706	158326986	1	None	None
1	CD1E	ENSG00000158488	ENST00000368157	protein_coding	KNOWN	CCDS53389	1638	399	132	158323779	158326686	1	None	None
1	CD1E	ENSG00000158488	ENST00000368156	protein_coding	KNOWN	CCDS53386	1638	861	286	158323779	158326686	1	None	None
1	CD1E	ENSG00000158488	ENST00000368155	protein_coding	KNOWN	CCDS53384	1638	696	231	158323779	158326686	1	None	None
1	CD1E	ENSG00000158488	ENST00000368154	protein_coding	KNOWN	CCDS53388	1638	435	144	158323779	158326686	1	None	None
1	CD1E	ENSG00000158488	ENST00000368160	protein_coding	KNOWN	CCDS41418	1638	1131	376	158323779	158327282	1	None	None
1	CD1E	ENSG00000158488	ENST00000368161	protein_coding	KNOWN	CCDS41421	1638	873	290	158323779	158327312	1	None	None
1	CD1E	ENSG00000158488	ENST00000464822	processed_transcript	KNOWN	None	1638	None	None	158323970	158325128	1	None	None
1	CD1E	ENSG00000158488	ENST00000368162	protein_coding	KNOWN	None	1638	181	59	158325684	158327287	1	None	None
1	CD1E	ENSG00000158488	ENST00000434258	protein_coding	KNOWN	None	1638	1023	340	158323254	158326490	1	None	None
1	CD1E	ENSG00000158488	ENST00000444681	protein_coding	KNOWN	CCDS53387	1638	870	289	158323486	158327343	1	None	None
1	LHX8	ENSG00000162624	ENST00000294638	protein_coding	KNOWN	CCDS30756	28838	1071	356	75594119	75627218	1	None	Lhx7
1	LHX8	ENSG00000162624	ENST00000356261	protein_coding	KNOWN	CCDS58008	28838	1041	346	75600567	75627218	1	None	Lhx7
1	LHX8	ENSG00000162624	ENST00000559413	processed_transcript	KNOWN	None	28838	None	None	75602576	75606791	1	None	Lhx7
1	LHX8	ENSG00000162624	ENST00000607240	retained_intron	KNOWN	None	28838	None	None	75624973	75627216	1	None	Lhx7
17	PIGL	ENSG00000108474	ENST00000607144	retained_intron	KNOWN	None	8966	None	None	16120505	16203501	1	None	None
17	PIGL	ENSG00000108474	ENST00000581006	protein_coding	PUTATIVE	None	8966	453	150	16120523	16252115	1	None	None
17	PIGL	ENSG00000108474	ENST00000584797	protein_coding	PUTATIVE	None	8966	565	187	16120524	16220147	1	None	None
17	PIGL	ENSG00000108474	ENST00000498772	protein_coding	NOVEL	None	8966	585	194	16120524	16220429	1	None	None
17	PIGL	ENSG00000108474	ENST00000395844	protein_coding	NOVEL	None	8966	735	244	16120524	16229381	1	None	None
17	PIGL	ENSG00000108474	ENST00000225609	protein_coding	KNOWN	CCDS11176	8966	759	252	16120524	16229573	1	None	None
17	PIGL	ENSG00000108474	ENST00000470116	nonsense_mediated_decay	KNOWN	None	8966	438	145	16120530	16187382	1	None	None
17	PIGL	ENSG00000108474	ENST00000585034	nonsense_mediated_decay	KNOWN	None	8966	306	101	16120534	16220938	1	None	None
17	PIGL	ENSG00000108474	ENST00000477745	protein_coding	PUTATIVE	None	8966	697	231	16120543	16227705	1	None	None
17	PIGL	ENSG00000108474	ENST00000489009	retained_intron	KNOWN	None	8966	None	None	16120551	16137454	1	None	None
17	PIGL	ENSG00000108474	ENST00000463810	processed_transcript	KNOWN	None	8966	None	None	16120560	16121473	1	None	None
17	PIGL	ENSG00000108474	ENST00000580201	processed_transcript	PUTATIVE	None	8966	None	None	16215701	16221133	1	None	None
17	PIGL	ENSG00000108474	ENST00000596678	nonsense_mediated_decay	KNOWN	None	8966	309	102	16216861	16245965	1	None	None
17	PIGL	ENSG00000108474	ENST00000488375	retained_intron	KNOWN	None	8966	None	None	16220983	16229218	1	None	None
17	PIGL	ENSG00000108474	ENST00000431149	processed_transcript	KNOWN	None	8966	None	None	16229799	16250988	1	None	None
17	PIGL	ENSG00000108474	ENST00000414755	processed_transcript	KNOWN	None	8966	None	None	16230158	16247809	1	None	None
17	FN3KRP	ENSG00000141560	ENST00000269373	protein_coding	KNOWN	CCDS11817	25700	930	309	80674559	80685893	1	None	FLJ12171, FN3KL
17	FN3KRP	ENSG00000141560	ENST00000574832	nonsense_mediated_decay	KNOWN	None	25700	171	56	80674598	80685377	1	None	FLJ12171, FN3KL
17	FN3KRP	ENSG00000141560	ENST00000574356	nonsense_mediated_decay	KNOWN	None	25700	438	145	80674625	80684792	1	None	FLJ12171, FN3KL
17	FN3KRP	ENSG00000141560	ENST00000574206	nonsense_mediated_decay	KNOWN	None	25700	308	101	80674636	80684782	1	None	FLJ12171, FN3KL
17	FN3KRP	ENSG00000141560	ENST00000577128	protein_coding	PUTATIVE	None	25700	383	126	80674650	80684989	1	None	FLJ12171, FN3KL
17	FN3KRP	ENSG00000141560	ENST00000573158	protein_coding	PUTATIVE	None	25700	374	123	80674663	80685019	1	None	FLJ12171, FN3KL
17	FN3KRP	ENSG00000141560	ENST00000571482	retained_intron	KNOWN	None	25700	None	None	80676893	80684369	1	None	FLJ12171, FN3KL
17	FN3KRP	ENSG00000141560	ENST00000576363	retained_intron	KNOWN	None	25700	None	None	80680485	80684973	1	None	FLJ12171, FN3KL
17	FN3KRP	ENSG00000141560	ENST00000571594	nonsense_mediated_decay	KNOWN	None	25700	153	50	80684991	80688204	1	None	FLJ12171, FN3KL
17	FN3KRP	ENSG00000141560	ENST00000535965	protein_coding	KNOWN	None	25700	780	259	80674598	80685377	1	None	FLJ12171, FN3KL
17	MYO19	ENSG00000141140	ENST00000431794	protein_coding	KNOWN	CCDS54112	26234	2913	970	34851477	34890815	-1	MYOHD1	FLJ22865
17	MYO19	ENSG00000141140	ENST00000586908	nonsense_mediated_decay	KNOWN	None	26234	1911	636	34851482	34891263	-1	MYOHD1	FLJ22865
17	MYO19	ENSG00000141140	ENST00000591794	nonsense_mediated_decay	KNOWN	None	26234	561	186	34851484	34891305	-1	MYOHD1	FLJ22865
17	MYO19	ENSG00000141140	ENST00000588377	retained_intron	KNOWN	None	26234	None	None	34851599	34865761	-1	MYOHD1	FLJ22865
17	MYO19	ENSG00000141140	ENST00000268852	protein_coding	KNOWN	CCDS45654	26234	2313	770	34851599	34890754	-1	MYOHD1	FLJ22865
17	MYO19	ENSG00000141140	ENST00000593275	retained_intron	KNOWN	None	26234	None	None	34851777	34855188	-1	MYOHD1	FLJ22865
17	MYO19	ENSG00000141140	ENST00000592110	retained_intron	KNOWN	None	26234	None	None	34852029	34854727	-1	MYOHD1	FLJ22865
17	MYO19	ENSG00000141140	ENST00000590233	retained_intron	KNOWN	None	26234	None	None	34855510	34857608	-1	MYOHD1	FLJ22865
17	MYO19	ENSG00000141140	ENST00000586328	retained_intron	KNOWN	None	26234	None	None	34857006	34860269	-1	MYOHD1	FLJ22865
17	MYO19	ENSG00000141140	ENST00000593222	retained_intron	KNOWN	None	26234	None	None	34858655	34859972	-1	MYOHD1	FLJ22865
17	MYO19	ENSG00000141140	ENST00000591477	retained_intron	KNOWN	None	26234	None	None	34860742	34862645	-1	MYOHD1	FLJ22865
17	MYO19	ENSG00000141140	ENST00000592735	retained_intron	KNOWN	None	26234	None	None	34860994	34862946	-1	MYOHD1	FLJ22865
17	MYO19	ENSG00000141140	ENST00000588727	retained_intron	KNOWN	None	26234	None	None	34861236	34863456	-1	MYOHD1	FLJ22865
17	MYO19	ENSG00000141140	ENST00000588471	nonsense_mediated_decay	KNOWN	None	26234	328	108	34863262	34866692	-1	MYOHD1	FLJ22865
17	MYO19	ENSG00000141140	ENST00000591017	nonsense_mediated_decay	KNOWN	None	26234	47	14	34863672	34869300	-1	MYOHD1	FLJ22865
17	MYO19	ENSG00000141140	ENST00000587389	retained_intron	KNOWN	None	26234	None	None	34864906	34867097	-1	MYOHD1	FLJ22865
17	MYO19	ENSG00000141140	ENST00000590585	retained_intron	KNOWN	None	26234	None	None	34867046	34870330	-1	MYOHD1	FLJ22865
17	MYO19	ENSG00000141140	ENST00000586007	protein_coding	KNOWN	CCDS59283	26234	954	317	34868929	34890695	-1	MYOHD1	FLJ22865
17	MYO19	ENSG00000141140	ENST00000544606	protein_coding	NOVEL	None	26234	552	183	34869009	34890723	-1	MYOHD1	FLJ22865
17	MYO19	ENSG00000141140	ENST00000585719	protein_coding	KNOWN	None	26234	530	175	34871718	34890637	-1	MYOHD1	FLJ22865
17	MYO19	ENSG00000141140	ENST00000589404	protein_coding	KNOWN	None	26234	487	161	34871761	34890046	-1	MYOHD1	FLJ22865
17	MYO19	ENSG00000141140	ENST00000586886	protein_coding	KNOWN	None	26234	197	64	34883485	34890617	-1	MYOHD1	FLJ22865
17	MYO19	ENSG00000141140	ENST00000585818	protein_coding	KNOWN	None	26234	134	43	34883912	34890637	-1	MYOHD1	FLJ22865
17	MYO19	ENSG00000141140	ENST00000588664	processed_transcript	PUTATIVE	None	26234	None	None	34888478	34890046	-1	MYOHD1	FLJ22865
17	MYO19	ENSG00000141140	ENST00000592380	processed_transcript	PUTATIVE	None	26234	None	None	34889119	34890692	-1	MYOHD1	FLJ22865
17	MYO19	ENSG00000141140	ENST00000590081	processed_transcript	PUTATIVE	None	26234	None	None	34889749	34899284	-1	MYOHD1	FLJ22865
17	MYO19	ENSG00000141140	ENST00000586879	processed_transcript	PUTATIVE	None	26234	None	None	34891100	34898092	-1	MYOHD1	FLJ22865
2	MDH1B	ENSG00000138400	ENST00000374412	protein_coding	KNOWN	CCDS33365	17836	1557	518	207602487	207630271	-1	None	FLJ25341, RP11-95H11
2	MDH1B	ENSG00000138400	ENST00000432911	nonsense_mediated_decay	KNOWN	None	17836	852	283	207602552	207630018	-1	None	FLJ25341, RP11-95H11
2	MDH1B	ENSG00000138400	ENST00000449792	protein_coding	PUTATIVE	None	17836	1263	420	207602949	207630050	-1	None	FLJ25341, RP11-95H11
2	MDH1B	ENSG00000138400	ENST00000454776	protein_coding	KNOWN	None	17836	1554	517	207602981	207630010	-1	None	FLJ25341, RP11-95H11
2	MDH1B	ENSG00000138400	ENST00000436472	nonsense_mediated_decay	KNOWN	None	17836	402	133	207604317	207630031	-1	None	FLJ25341, RP11-95H11
2	MDH1B	ENSG00000138400	ENST00000471988	retained_intron	KNOWN	None	17836	None	None	207621343	207630025	-1	None	FLJ25341, RP11-95H11
2	MDH1B	ENSG00000138400	ENST00000392214	protein_coding	KNOWN	None	17836	852	283	207606024	207630271	-1	None	FLJ25341, RP11-95H11
16	SF3B3	ENSG00000189091	ENST00000302516	protein_coding	KNOWN	CCDS10894	10770	3654	1217	70557691	70608820	1	None	SAP130, SF3b130, RSE1, KIAA0017
16	SF3B3	ENSG00000189091	ENST00000566095	protein_coding	KNOWN	None	10770	91	29	70557694	70562796	1	None	SAP130, SF3b130, RSE1, KIAA0017
16	SF3B3	ENSG00000189091	ENST00000577085	protein_coding	KNOWN	None	10770	216	71	70557716	70562921	1	None	SAP130, SF3b130, RSE1, KIAA0017
16	SF3B3	ENSG00000189091	ENST00000567654	protein_coding	PUTATIVE	None	10770	173	56	70557796	70563073	1	None	SAP130, SF3b130, RSE1, KIAA0017
16	SF3B3	ENSG00000189091	ENST00000564899	protein_coding	KNOWN	None	10770	13	3	70558453	70560572	1	None	SAP130, SF3b130, RSE1, KIAA0017
16	SF3B3	ENSG00000189091	ENST00000569687	protein_coding	PUTATIVE	None	10770	94	30	70560804	70562994	1	None	SAP130, SF3b130, RSE1, KIAA0017
16	SF3B3	ENSG00000189091	ENST00000572365	retained_intron	KNOWN	None	10770	None	None	70572298	70582415	1	None	SAP130, SF3b130, RSE1, KIAA0017
16	SF3B3	ENSG00000189091	ENST00000567635	nonsense_mediated_decay	KNOWN	None	10770	276	91	70575642	70590109	1	None	SAP130, SF3b130, RSE1, KIAA0017
16	SF3B3	ENSG00000189091	ENST00000567250	retained_intron	KNOWN	None	10770	None	None	70584106	70590932	1	None	SAP130, SF3b130, RSE1, KIAA0017
16	SF3B3	ENSG00000189091	ENST00000568291	retained_intron	KNOWN	None	10770	None	None	70588009	70590500	1	None	SAP130, SF3b130, RSE1, KIAA0017
16	SF3B3	ENSG00000189091	ENST00000568539	retained_intron	KNOWN	None	10770	None	None	70594253	70597936	1	None	SAP130, SF3b130, RSE1, KIAA0017
16	SF3B3	ENSG00000189091	ENST00000563739	retained_intron	KNOWN	None	10770	None	None	70595252	70601444	1	None	SAP130, SF3b130, RSE1, KIAA0017
16	SF3B3	ENSG00000189091	ENST00000562722	retained_intron	KNOWN	None	10770	None	None	70597632	70599623	1	None	SAP130, SF3b130, RSE1, KIAA0017
16	SF3B3	ENSG00000189091	ENST00000565990	retained_intron	KNOWN	None	10770	None	None	70603818	70606202	1	None	SAP130, SF3b130, RSE1, KIAA0017
16	NECAB2	ENSG00000103154	ENST00000305202	protein_coding	KNOWN	CCDS10940	23746	1161	386	84002237	84036381	1	EFCBP2	None
16	NECAB2	ENSG00000103154	ENST00000565691	protein_coding	PUTATIVE	None	23746	912	303	84005056	84036381	1	EFCBP2	None
16	NECAB2	ENSG00000103154	ENST00000566836	protein_coding	NOVEL	None	23746	549	182	84012150	84031890	1	EFCBP2	None
16	NECAB2	ENSG00000103154	ENST00000567703	processed_transcript	KNOWN	None	23746	None	None	84027008	84031903	1	EFCBP2	None
16	NECAB2	ENSG00000103154	ENST00000564166	protein_coding	NOVEL	None	23746	187	61	84031857	84036381	1	EFCBP2	None
15	ULK3	ENSG00000140474	ENST00000440863	protein_coding	KNOWN	CCDS45305	19703	1419	472	75128457	75135538	-1	None	DKFZP434C131, FLJ90566
15	ULK3	ENSG00000140474	ENST00000566479	retained_intron	KNOWN	None	19703	None	None	75128459	75135470	-1	None	DKFZP434C131, FLJ90566
15	ULK3	ENSG00000140474	ENST00000561725	retained_intron	KNOWN	None	19703	None	None	75128459	75135480	-1	None	DKFZP434C131, FLJ90566
15	ULK3	ENSG00000140474	ENST00000569437	protein_coding	KNOWN	None	19703	1413	470	75128459	75135534	-1	None	DKFZP434C131, FLJ90566
15	ULK3	ENSG00000140474	ENST00000570276	retained_intron	KNOWN	None	19703	None	None	75128459	75135687	-1	None	DKFZP434C131, FLJ90566
15	ULK3	ENSG00000140474	ENST00000567472	retained_intron	KNOWN	None	19703	None	None	75128974	75130853	-1	None	DKFZP434C131, FLJ90566
15	ULK3	ENSG00000140474	ENST00000568718	retained_intron	KNOWN	None	19703	None	None	75129146	75130297	-1	None	DKFZP434C131, FLJ90566
15	ULK3	ENSG00000140474	ENST00000568273	nonsense_mediated_decay	KNOWN	None	19703	153	50	75129234	75135017	-1	None	DKFZP434C131, FLJ90566
15	ULK3	ENSG00000140474	ENST00000568210	nonsense_mediated_decay	KNOWN	None	19703	153	50	75129305	75135017	-1	None	DKFZP434C131, FLJ90566
15	ULK3	ENSG00000140474	ENST00000566631	nonsense_mediated_decay	KNOWN	None	19703	255	84	75129314	75135482	-1	None	DKFZP434C131, FLJ90566
15	ULK3	ENSG00000140474	ENST00000565881	retained_intron	KNOWN	None	19703	None	None	75129540	75135465	-1	None	DKFZP434C131, FLJ90566
15	ULK3	ENSG00000140474	ENST00000568667	protein_coding	PUTATIVE	None	19703	1452	483	75129554	75135017	-1	None	DKFZP434C131, FLJ90566
15	ULK3	ENSG00000140474	ENST00000564029	retained_intron	KNOWN	None	19703	None	None	75131864	75135504	-1	None	DKFZP434C131, FLJ90566
15	ULK3	ENSG00000140474	ENST00000563301	nonsense_mediated_decay	KNOWN	None	19703	411	136	75132583	75135465	-1	None	DKFZP434C131, FLJ90566
15	ULK3	ENSG00000140474	ENST00000565011	retained_intron	KNOWN	None	19703	None	None	75132606	75135017	-1	None	DKFZP434C131, FLJ90566
15	ULK3	ENSG00000140474	ENST00000562395	retained_intron	KNOWN	None	19703	None	None	75132638	75135552	-1	None	DKFZP434C131, FLJ90566
15	ULK3	ENSG00000140474	ENST00000564767	retained_intron	KNOWN	None	19703	None	None	75132660	75135017	-1	None	DKFZP434C131, FLJ90566
15	ULK3	ENSG00000140474	ENST00000565373	nonsense_mediated_decay	KNOWN	None	19703	150	49	75132928	75135017	-1	None	DKFZP434C131, FLJ90566
15	ULK3	ENSG00000140474	ENST00000565790	nonsense_mediated_decay	KNOWN	None	19703	129	42	75132936	75135039	-1	None	DKFZP434C131, FLJ90566
15	ULK3	ENSG00000140474	ENST00000562161	nonsense_mediated_decay	KNOWN	None	19703	186	61	75132956	75135017	-1	None	DKFZP434C131, FLJ90566
15	ULK3	ENSG00000140474	ENST00000569813	retained_intron	KNOWN	None	19703	None	None	75133790	75135017	-1	None	DKFZP434C131, FLJ90566
15	ULK3	ENSG00000140474	ENST00000568679	nonsense_mediated_decay	KNOWN	None	19703	126	41	75133835	75135465	-1	None	DKFZP434C131, FLJ90566
1	OR10T2	ENSG00000186306	ENST00000334438	protein_coding	KNOWN	CCDS30895	14816	945	314	158368312	158369256	-1	None	None
1	SLC44A5	ENSG00000137968	ENST00000370859	protein_coding	KNOWN	CCDS44164	28524	2154	717	75667816	76076801	-1	None	MGC34032, CTL5
1	SLC44A5	ENSG00000137968	ENST00000370855	protein_coding	KNOWN	CCDS667	28524	2160	719	75670160	76076769	-1	None	MGC34032, CTL5
1	SLC44A5	ENSG00000137968	ENST00000469525	processed_transcript	KNOWN	None	28524	None	None	75708605	76076781	-1	None	MGC34032, CTL5
1	SLC44A5	ENSG00000137968	ENST00000535611	protein_coding	KNOWN	None	28524	1770	589	75671953	75862321	-1	None	MGC34032, CTL5
1	OR10K2	ENSG00000180708	ENST00000314902	protein_coding	KNOWN	CCDS30896	14826	939	312	158389718	158390656	-1	None	None
1	OR10K1	ENSG00000173285	ENST00000289451	protein_coding	KNOWN	CCDS30897	14693	942	313	158435272	158436344	1	None	None
16	BAIAP3	ENSG00000007516	ENST00000426824	protein_coding	NOVEL	CCDS55978	948	3459	1152	1383602	1398795	1	None	BAP3, KIAA0734
16	BAIAP3	ENSG00000007516	ENST00000565665	retained_intron	KNOWN	None	948	None	None	1383639	1389387	1	None	BAP3, KIAA0734
16	BAIAP3	ENSG00000007516	ENST00000397488	protein_coding	KNOWN	None	948	3510	1169	1383644	1399439	1	None	BAP3, KIAA0734
16	BAIAP3	ENSG00000007516	ENST00000562208	protein_coding	NOVEL	CCDS58402	948	3390	1129	1383646	1398641	1	None	BAP3, KIAA0734
16	BAIAP3	ENSG00000007516	ENST00000568887	protein_coding	NOVEL	CCDS58403	948	3375	1124	1383646	1398756	1	None	BAP3, KIAA0734
16	BAIAP3	ENSG00000007516	ENST00000567825	retained_intron	KNOWN	None	948	None	None	1384505	1392422	1	None	BAP3, KIAA0734
16	BAIAP3	ENSG00000007516	ENST00000324385	protein_coding	KNOWN	CCDS10434	948	3564	1187	1384505	1399439	1	None	BAP3, KIAA0734
16	BAIAP3	ENSG00000007516	ENST00000421665	protein_coding	NOVEL	CCDS55979	948	3351	1116	1386198	1398794	1	None	BAP3, KIAA0734
16	BAIAP3	ENSG00000007516	ENST00000568198	retained_intron	KNOWN	None	948	None	None	1393319	1395074	1	None	BAP3, KIAA0734
16	BAIAP3	ENSG00000007516	ENST00000566162	protein_coding	PUTATIVE	None	948	653	216	1394669	1399439	1	None	BAP3, KIAA0734
16	BAIAP3	ENSG00000007516	ENST00000561602	retained_intron	KNOWN	None	948	None	None	1395419	1396226	1	None	BAP3, KIAA0734
16	BAIAP3	ENSG00000007516	ENST00000561793	protein_coding	NOVEL	None	948	571	189	1396010	1397611	1	None	BAP3, KIAA0734
16	BAIAP3	ENSG00000007516	ENST00000564213	processed_transcript	KNOWN	None	948	None	None	1396239	1397359	1	None	BAP3, KIAA0734
16	BAIAP3	ENSG00000007516	ENST00000567203	retained_intron	KNOWN	None	948	None	None	1396460	1397092	1	None	BAP3, KIAA0734
16	BAIAP3	ENSG00000007516	ENST00000566389	retained_intron	KNOWN	None	948	None	None	1396720	1398302	1	None	BAP3, KIAA0734
16	BAIAP3	ENSG00000007516	ENST00000397489	protein_coding	KNOWN	None	948	3510	1169	1384653	1399439	1	None	BAP3, KIAA0734
1	SMYD3	ENSG00000185420	ENST00000482592	processed_transcript	KNOWN	None	15513	None	None	245912644	245952244	-1	ZNFN3A1, ZMYND1	KMT3E
1	SMYD3	ENSG00000185420	ENST00000366516	retained_intron	KNOWN	None	15513	None	None	245912644	246094125	-1	ZNFN3A1, ZMYND1	KMT3E
1	SMYD3	ENSG00000185420	ENST00000366517	processed_transcript	KNOWN	None	15513	None	None	245912644	246119404	-1	ZNFN3A1, ZMYND1	KMT3E
1	SMYD3	ENSG00000185420	ENST00000490107	protein_coding	KNOWN	CCDS31083	15513	1110	369	245912644	246670559	-1	ZNFN3A1, ZMYND1	KMT3E
1	SMYD3	ENSG00000185420	ENST00000483072	processed_transcript	KNOWN	None	15513	None	None	245912653	246021949	-1	ZNFN3A1, ZMYND1	KMT3E
1	SMYD3	ENSG00000185420	ENST00000470510	processed_transcript	KNOWN	None	15513	None	None	245912653	246093239	-1	ZNFN3A1, ZMYND1	KMT3E
1	SMYD3	ENSG00000185420	ENST00000490322	processed_transcript	KNOWN	None	15513	None	None	245912669	245977713	-1	ZNFN3A1, ZMYND1	KMT3E
1	SMYD3	ENSG00000185420	ENST00000493441	processed_transcript	KNOWN	None	15513	None	None	245927343	246151864	-1	ZNFN3A1, ZMYND1	KMT3E
1	SMYD3	ENSG00000185420	ENST00000488153	processed_transcript	KNOWN	None	15513	None	None	245977644	246151840	-1	ZNFN3A1, ZMYND1	KMT3E
1	SMYD3	ENSG00000185420	ENST00000492487	processed_transcript	KNOWN	None	15513	None	None	246021800	246469311	-1	ZNFN3A1, ZMYND1	KMT3E
1	SMYD3	ENSG00000185420	ENST00000391836	protein_coding	KNOWN	None	15513	443	146	246021864	246357029	-1	ZNFN3A1, ZMYND1	KMT3E
1	SMYD3	ENSG00000185420	ENST00000464398	processed_transcript	KNOWN	None	15513	None	None	246027111	246259725	-1	ZNFN3A1, ZMYND1	KMT3E
1	SMYD3	ENSG00000185420	ENST00000453676	protein_coding	KNOWN	None	15513	394	130	246093200	246518637	-1	ZNFN3A1, ZMYND1	KMT3E
1	SMYD3	ENSG00000185420	ENST00000462422	processed_transcript	KNOWN	None	15513	None	None	246215859	246670446	-1	ZNFN3A1, ZMYND1	KMT3E
1	SMYD3	ENSG00000185420	ENST00000403792	protein_coding	NOVEL	None	15513	549	182	246489115	246670614	-1	ZNFN3A1, ZMYND1	KMT3E
1	SMYD3	ENSG00000185420	ENST00000470863	processed_transcript	KNOWN	None	15513	None	None	246490066	246670534	-1	ZNFN3A1, ZMYND1	KMT3E
1	SMYD3	ENSG00000185420	ENST00000455277	protein_coding	KNOWN	None	15513	222	73	246490635	246647067	-1	ZNFN3A1, ZMYND1	KMT3E
1	SMYD3	ENSG00000185420	ENST00000388985	protein_coding	KNOWN	CCDS53486	15513	1287	428	245912865	246670519	-1	ZNFN3A1, ZMYND1	KMT3E
1	SMYD3	ENSG00000185420	ENST00000541742	protein_coding	KNOWN	CCDS31083	15513	1110	369	245912642	246580714	-1	ZNFN3A1, ZMYND1	KMT3E
1	OR10R2	ENSG00000198965	ENST00000368152	protein_coding	KNOWN	CCDS30898	14820	1008	335	158449668	158450675	1	None	OR10R2Q
1	OR6Y1	ENSG00000197532	ENST00000302617	protein_coding	KNOWN	CCDS30899	14823	978	325	158516918	158517895	-1	OR6Y2	None
7	TRIM50	ENSG00000146755	ENST00000333149	protein_coding	KNOWN	CCDS34654	19017	1464	487	72726535	72742085	-1	TRIM50A	FLJ32804
7	TRIM50	ENSG00000146755	ENST00000453152	protein_coding	KNOWN	CCDS34654	19017	1464	487	72726907	72739575	-1	TRIM50A	FLJ32804
7	TRIM50	ENSG00000146755	ENST00000488217	retained_intron	KNOWN	None	19017	None	None	72727337	72730941	-1	TRIM50A	FLJ32804
7	TRIM50	ENSG00000146755	ENST00000493498	processed_transcript	KNOWN	None	19017	None	None	72735898	72741957	-1	TRIM50A	FLJ32804
1	OR6P1	ENSG00000186440	ENST00000334632	protein_coding	KNOWN	CCDS53391	15036	954	317	158532441	158533394	-1	None	None
1	OR10X1	ENSG00000186400	ENST00000368150	protein_coding	KNOWN	CCDS30900	14995	981	326	158548709	158549689	-1	OR10X1P	None
1	OR10Z1	ENSG00000198967	ENST00000361284	protein_coding	KNOWN	CCDS30901	14996	942	313	158576229	158577170	1	None	None
3	C3orf56	ENSG00000214324	ENST00000398112	protein_coding	KNOWN	None	32481	729	242	126911974	126917025	1	None	FLJ40141
2	FASTKD2	ENSG00000118246	ENST00000236980	protein_coding	KNOWN	CCDS2371	29160	2133	710	207630081	207657233	1	KIAA0971	None
2	FASTKD2	ENSG00000118246	ENST00000418289	protein_coding	KNOWN	None	29160	372	123	207630089	207631789	1	KIAA0971	None
2	FASTKD2	ENSG00000118246	ENST00000402774	protein_coding	KNOWN	CCDS2371	29160	2133	710	207630156	207656613	1	KIAA0971	None
2	FASTKD2	ENSG00000118246	ENST00000403094	protein_coding	KNOWN	CCDS2371	29160	2133	710	207630330	207656530	1	KIAA0971	None
2	FASTKD2	ENSG00000118246	ENST00000487777	retained_intron	KNOWN	None	29160	None	None	207630371	207656670	1	KIAA0971	None
2	FASTKD2	ENSG00000118246	ENST00000471788	retained_intron	KNOWN	None	29160	None	None	207651338	207655547	1	KIAA0971	None
10	ZFYVE27	ENSG00000155256	ENST00000393677	protein_coding	KNOWN	CCDS31263	26559	1236	411	99496880	99520664	1	None	FLJ32919, SPG33
10	ZFYVE27	ENSG00000155256	ENST00000359980	protein_coding	KNOWN	CCDS31264	26559	1215	404	99496897	99520652	1	None	FLJ32919, SPG33
10	ZFYVE27	ENSG00000155256	ENST00000462887	processed_transcript	KNOWN	None	26559	None	None	99496940	99498602	1	None	FLJ32919, SPG33
10	ZFYVE27	ENSG00000155256	ENST00000423811	protein_coding	KNOWN	None	26559	1185	394	99498301	99520652	1	None	FLJ32919, SPG33
10	ZFYVE27	ENSG00000155256	ENST00000481956	processed_transcript	KNOWN	None	26559	None	None	99509790	99511178	1	None	FLJ32919, SPG33
10	ZFYVE27	ENSG00000155256	ENST00000477521	processed_transcript	KNOWN	None	26559	None	None	99516960	99519544	1	None	FLJ32919, SPG33
10	ZFYVE27	ENSG00000155256	ENST00000473237	processed_transcript	KNOWN	None	26559	None	None	99517399	99517928	1	None	FLJ32919, SPG33
10	ZFYVE27	ENSG00000155256	ENST00000337540	protein_coding	KNOWN	CCDS53562	26559	1119	372	99496878	99520663	1	None	FLJ32919, SPG33
10	ZFYVE27	ENSG00000155256	ENST00000357540	protein_coding	KNOWN	CCDS53563	26559	957	318	99496878	99520663	1	None	FLJ32919, SPG33
10	ZFYVE27	ENSG00000155256	ENST00000370613	protein_coding	KNOWN	CCDS53564	26559	861	286	99496878	99520663	1	None	FLJ32919, SPG33
10	ZFYVE27	ENSG00000155256	ENST00000356257	protein_coding	KNOWN	CCDS31262	26559	1251	416	99498234	99520663	1	None	FLJ32919, SPG33
10	ZFYVE27	ENSG00000155256	ENST00000453958	protein_coding	KNOWN	None	26559	1047	348	99496883	99519064	1	None	FLJ32919, SPG33
10	ZFYVE27	ENSG00000155256	ENST00000370610	protein_coding	KNOWN	CCDS53565	26559	936	311	99496878	99520663	1	None	FLJ32919, SPG33
19	ZNF383	ENSG00000188283	ENST00000585441	processed_transcript	KNOWN	None	18609	None	None	37708828	37715781	1	None	FLJ35863
19	ZNF383	ENSG00000188283	ENST00000586068	retained_intron	KNOWN	None	18609	None	None	37708828	37734560	1	None	FLJ35863
19	ZNF383	ENSG00000188283	ENST00000586658	retained_intron	KNOWN	None	18609	None	None	37709085	37716114	1	None	FLJ35863
19	ZNF383	ENSG00000188283	ENST00000590503	protein_coding	KNOWN	CCDS12501	18609	1428	475	37709092	37734587	1	None	FLJ35863
19	ZNF383	ENSG00000188283	ENST00000589413	protein_coding	KNOWN	CCDS12501	18609	1428	475	37709182	37734823	1	None	FLJ35863
19	ZNF383	ENSG00000188283	ENST00000352998	protein_coding	KNOWN	CCDS12501	18609	1428	475	37717366	37734828	1	None	FLJ35863
19	ZNF383	ENSG00000188283	ENST00000588371	protein_coding	KNOWN	None	18609	343	113	37718452	37733481	1	None	FLJ35863
19	ZNF383	ENSG00000188283	ENST00000588250	nonsense_mediated_decay	KNOWN	None	18609	246	81	37721314	37733652	1	None	FLJ35863
1	TFB2M	ENSG00000162851	ENST00000366514	protein_coding	KNOWN	CCDS1627	18559	1191	396	246703862	246729626	-1	None	FLJ23182, FLJ22661, Hkp1
1	TFB2M	ENSG00000162851	ENST00000544618	protein_coding	KNOWN	None	18559	414	137	246711847	246729563	-1	None	FLJ23182, FLJ22661, Hkp1
11	TMX2-CTNND1	ENSG00000254462	ENST00000528395	nonsense_mediated_decay	KNOWN	None	41992	312	103	57480077	57559058	1	None	None
2	CPO	ENSG00000144410	ENST00000272852	protein_coding	KNOWN	CCDS2372	21011	1125	374	207804278	207834198	1	None	None
2	LOXL3	ENSG00000115318	ENST00000470907	retained_intron	KNOWN	None	13869	None	None	74759541	74776790	-1	None	None
2	LOXL3	ENSG00000115318	ENST00000264094	protein_coding	KNOWN	CCDS1953	13869	2262	753	74759565	74781062	-1	None	None
2	LOXL3	ENSG00000115318	ENST00000409249	protein_coding	NOVEL	None	13869	1416	471	74759731	74779774	-1	None	None
2	LOXL3	ENSG00000115318	ENST00000393937	protein_coding	NOVEL	None	13869	1827	608	74760257	74781085	-1	None	None
2	LOXL3	ENSG00000115318	ENST00000409549	protein_coding	KNOWN	None	13869	2094	697	74760380	74780211	-1	None	None
2	LOXL3	ENSG00000115318	ENST00000409986	protein_coding	PUTATIVE	None	13869	1761	586	74760855	74781088	-1	None	None
2	LOXL3	ENSG00000115318	ENST00000481835	processed_transcript	KNOWN	None	13869	None	None	74762416	74776703	-1	None	None
2	LOXL3	ENSG00000115318	ENST00000420535	protein_coding	NOVEL	None	13869	539	178	74762771	74776586	-1	None	None
2	LOXL3	ENSG00000115318	ENST00000413469	protein_coding	KNOWN	None	13869	910	302	74763838	74782817	-1	None	None
2	LOXL3	ENSG00000115318	ENST00000484369	processed_transcript	KNOWN	None	13869	None	None	74766920	74779774	-1	None	None
11	C11orf31	ENSG00000211450	ENST00000534355	protein_coding	KNOWN	CCDS44602	18251	369	122	57508825	57510510	1	None	SELH
11	C11orf31	ENSG00000211450	ENST00000533321	retained_intron	KNOWN	None	18251	None	None	57508985	57510529	1	None	SELH
11	C11orf31	ENSG00000211450	ENST00000388857	protein_coding	KNOWN	CCDS44602	18251	369	122	57509044	57510129	1	None	SELH
11	C11orf31	ENSG00000211450	ENST00000528798	protein_coding	KNOWN	None	18251	283	93	57509154	57510510	1	None	SELH
11	C11orf31	ENSG00000211450	ENST00000534386	retained_intron	KNOWN	None	18251	None	None	57509171	57510986	1	None	SELH
8	FBXO43	ENSG00000156509	ENST00000428847	protein_coding	KNOWN	CCDS47904	28521	2127	708	101145588	101157680	-1	None	Fbx43
8	FBXO43	ENSG00000156509	ENST00000517806	nonsense_mediated_decay	KNOWN	None	28521	111	36	101145784	101158028	-1	None	Fbx43
8	FBXO43	ENSG00000156509	ENST00000520987	retained_intron	KNOWN	None	28521	None	None	101149121	101157669	-1	None	Fbx43
1	CNST	ENSG00000162852	ENST00000483271	processed_transcript	KNOWN	None	26486	None	None	246729746	246811537	1	C1orf71	FLJ32001, PPP1R64
1	CNST	ENSG00000162852	ENST00000366513	protein_coding	KNOWN	CCDS1628	26486	2178	725	246729748	246831886	1	C1orf71	FLJ32001, PPP1R64
1	CNST	ENSG00000162852	ENST00000366512	protein_coding	KNOWN	CCDS44343	26486	1851	616	246729763	246811545	1	C1orf71	FLJ32001, PPP1R64
1	CNST	ENSG00000162852	ENST00000366511	protein_coding	KNOWN	None	26486	414	137	246729816	246797259	1	C1orf71	FLJ32001, PPP1R64
1	SPTA1	ENSG00000163554	ENST00000368148	protein_coding	KNOWN	CCDS41423	11272	7260	2419	158580278	158656488	-1	None	EL2
1	SPTA1	ENSG00000163554	ENST00000368147	protein_coding	KNOWN	None	11272	7251	2416	158580396	158656445	-1	None	EL2
1	SPTA1	ENSG00000163554	ENST00000485680	processed_transcript	PUTATIVE	None	11272	None	None	158580998	158581815	-1	None	EL2
1	SPTA1	ENSG00000163554	ENST00000481212	processed_transcript	PUTATIVE	None	11272	None	None	158582539	158584325	-1	None	EL2
1	SPTA1	ENSG00000163554	ENST00000498708	processed_transcript	PUTATIVE	None	11272	None	None	158582573	158587358	-1	None	EL2
1	SPTA1	ENSG00000163554	ENST00000492934	processed_transcript	PUTATIVE	None	11272	None	None	158584538	158587891	-1	None	EL2
1	SPTA1	ENSG00000163554	ENST00000484520	processed_transcript	PUTATIVE	None	11272	None	None	158588976	158590579	-1	None	EL2
1	SPTA1	ENSG00000163554	ENST00000461624	processed_transcript	PUTATIVE	None	11272	None	None	158592509	158604443	-1	None	EL2
1	SPTA1	ENSG00000163554	ENST00000465741	processed_transcript	KNOWN	None	11272	None	None	158609019	158612322	-1	None	EL2
1	SPTA1	ENSG00000163554	ENST00000467387	processed_transcript	PUTATIVE	None	11272	None	None	158647517	158656398	-1	None	EL2
2	KLF7	ENSG00000118263	ENST00000309446	protein_coding	KNOWN	CCDS2373	6350	909	302	207938861	208030669	-1	None	UKLF
2	KLF7	ENSG00000118263	ENST00000421199	protein_coding	PUTATIVE	CCDS59440	6350	810	269	207943814	208031970	-1	None	UKLF
2	KLF7	ENSG00000118263	ENST00000423015	protein_coding	PUTATIVE	CCDS59439	6350	693	230	207945085	208031571	-1	None	UKLF
2	KLF7	ENSG00000118263	ENST00000467833	processed_transcript	PUTATIVE	None	6350	None	None	207945740	207989132	-1	None	UKLF
2	KLF7	ENSG00000118263	ENST00000458272	protein_coding	PUTATIVE	None	6350	339	112	207945740	208030295	-1	None	UKLF
2	KLF7	ENSG00000118263	ENST00000435602	protein_coding	PUTATIVE	None	6350	525	174	207988622	207998861	-1	None	UKLF
2	KLF7	ENSG00000118263	ENST00000426163	protein_coding	KNOWN	None	6350	338	111	207988893	208030910	-1	None	UKLF
2	KLF7	ENSG00000118263	ENST00000457962	protein_coding	KNOWN	None	6350	182	59	207989049	208031991	-1	None	UKLF
2	KLF7	ENSG00000118263	ENST00000451244	nonsense_mediated_decay	KNOWN	None	6350	156	51	207989077	208030699	-1	None	UKLF
2	KLF7	ENSG00000118263	ENST00000412414	protein_coding	KNOWN	CCDS59438	6350	825	274	207945543	207998848	-1	None	UKLF
3	TPRA1	ENSG00000163870	ENST00000450633	protein_coding	KNOWN	CCDS3042	30413	1122	373	127291912	127299280	-1	GPR175	TPRA40, FLJ32197, TMEM227
3	TPRA1	ENSG00000163870	ENST00000296210	protein_coding	KNOWN	CCDS46899	30413	882	293	127291912	127309550	-1	GPR175	TPRA40, FLJ32197, TMEM227
3	TPRA1	ENSG00000163870	ENST00000355552	protein_coding	KNOWN	CCDS3042	30413	1122	373	127291930	127309612	-1	GPR175	TPRA40, FLJ32197, TMEM227
3	TPRA1	ENSG00000163870	ENST00000393400	nonsense_mediated_decay	KNOWN	None	30413	720	239	127291936	127309577	-1	GPR175	TPRA40, FLJ32197, TMEM227
3	TPRA1	ENSG00000163870	ENST00000483868	nonsense_mediated_decay	KNOWN	None	30413	678	225	127291974	127309546	-1	GPR175	TPRA40, FLJ32197, TMEM227
3	TPRA1	ENSG00000163870	ENST00000489960	protein_coding	KNOWN	CCDS3042	30413	1122	373	127291989	127309931	-1	GPR175	TPRA40, FLJ32197, TMEM227
3	TPRA1	ENSG00000163870	ENST00000465915	processed_transcript	KNOWN	None	30413	None	None	127293821	127294526	-1	GPR175	TPRA40, FLJ32197, TMEM227
3	TPRA1	ENSG00000163870	ENST00000490290	protein_coding	KNOWN	None	30413	611	202	127294781	127309938	-1	GPR175	TPRA40, FLJ32197, TMEM227
3	TPRA1	ENSG00000163870	ENST00000469111	protein_coding	KNOWN	None	30413	609	202	127294783	127309542	-1	GPR175	TPRA40, FLJ32197, TMEM227
3	TPRA1	ENSG00000163870	ENST00000490643	protein_coding	KNOWN	None	30413	499	165	127295459	127317094	-1	GPR175	TPRA40, FLJ32197, TMEM227
3	TPRA1	ENSG00000163870	ENST00000462228	protein_coding	KNOWN	None	30413	125	40	127298865	127317047	-1	GPR175	TPRA40, FLJ32197, TMEM227
1	SCCPDH	ENSG00000143653	ENST00000366510	protein_coding	KNOWN	CCDS31084	24275	1290	429	246887349	246931439	1	None	CGI-49, NET11
17	FN3K	ENSG00000167363	ENST00000300784	protein_coding	KNOWN	CCDS11818	24822	930	309	80693451	80709073	1	None	None
17	FN3K	ENSG00000167363	ENST00000574496	retained_intron	KNOWN	None	24822	None	None	80693506	80698932	1	None	None
17	FN3K	ENSG00000167363	ENST00000573841	retained_intron	KNOWN	None	24822	None	None	80693601	80699402	1	None	None
17	FN3K	ENSG00000167363	ENST00000572813	processed_transcript	PUTATIVE	None	24822	None	None	80693948	80695809	1	None	None
17	FN3K	ENSG00000167363	ENST00000570734	retained_intron	KNOWN	None	24822	None	None	80693948	80707771	1	None	None
10	ZFAND4	ENSG00000172671	ENST00000344646	protein_coding	KNOWN	CCDS7214	23504	2184	727	46111043	46167796	-1	ANUBL1	FLJ40185
10	ZFAND4	ENSG00000172671	ENST00000374371	protein_coding	NOVEL	None	23504	675	224	46111047	46168200	-1	ANUBL1	FLJ40185
10	ZFAND4	ENSG00000172671	ENST00000374370	processed_transcript	KNOWN	None	23504	None	None	46111833	46145227	-1	ANUBL1	FLJ40185
10	ZFAND4	ENSG00000172671	ENST00000484333	processed_transcript	KNOWN	None	23504	None	None	46113213	46116375	-1	ANUBL1	FLJ40185
10	ZFAND4	ENSG00000172671	ENST00000465407	nonsense_mediated_decay	KNOWN	None	23504	636	211	46135154	46168210	-1	ANUBL1	FLJ40185
10	ZFAND4	ENSG00000172671	ENST00000495747	processed_transcript	KNOWN	None	23504	None	None	46143867	46167723	-1	ANUBL1	FLJ40185
10	ZFAND4	ENSG00000172671	ENST00000497028	processed_transcript	KNOWN	None	23504	None	None	46143923	46168210	-1	ANUBL1	FLJ40185
10	ZFAND4	ENSG00000172671	ENST00000335258	protein_coding	NOVEL	None	23504	348	115	46145573	46168228	-1	ANUBL1	FLJ40185
10	ZFAND4	ENSG00000172671	ENST00000374366	protein_coding	KNOWN	None	23504	1962	653	46111047	46167722	-1	ANUBL1	FLJ40185
1	ACADM	ENSG00000117054	ENST00000370841	protein_coding	KNOWN	CCDS668	89	1266	421	76190036	76229364	1	None	MCAD, MCADH, ACAD1
1	ACADM	ENSG00000117054	ENST00000525881	retained_intron	KNOWN	None	89	None	None	76190376	76199226	1	None	MCAD, MCADH, ACAD1
1	ACADM	ENSG00000117054	ENST00000526129	nonsense_mediated_decay	KNOWN	None	89	231	76	76190391	76227300	1	None	MCAD, MCADH, ACAD1
1	ACADM	ENSG00000117054	ENST00000526196	nonsense_mediated_decay	KNOWN	None	89	144	47	76190391	76228639	1	None	MCAD, MCADH, ACAD1
1	ACADM	ENSG00000117054	ENST00000534146	retained_intron	KNOWN	None	89	None	None	76190394	76199024	1	None	MCAD, MCADH, ACAD1
1	ACADM	ENSG00000117054	ENST00000532509	nonsense_mediated_decay	KNOWN	None	89	138	45	76190394	76215239	1	None	MCAD, MCADH, ACAD1
1	ACADM	ENSG00000117054	ENST00000370834	protein_coding	NOVEL	None	89	1365	454	76190394	76229176	1	None	MCAD, MCADH, ACAD1
1	ACADM	ENSG00000117054	ENST00000473018	retained_intron	KNOWN	None	89	None	None	76190440	76198867	1	None	MCAD, MCADH, ACAD1
1	ACADM	ENSG00000117054	ENST00000530953	nonsense_mediated_decay	KNOWN	None	89	153	50	76190446	76215226	1	None	MCAD, MCADH, ACAD1
1	ACADM	ENSG00000117054	ENST00000534334	nonsense_mediated_decay	KNOWN	None	89	315	104	76190452	76226933	1	None	MCAD, MCADH, ACAD1
1	ACADM	ENSG00000117054	ENST00000525808	nonsense_mediated_decay	KNOWN	None	89	144	47	76190452	76228853	1	None	MCAD, MCADH, ACAD1
1	ACADM	ENSG00000117054	ENST00000420607	protein_coding	KNOWN	CCDS44165	89	1278	425	76190465	76228494	1	None	MCAD, MCADH, ACAD1
1	ACADM	ENSG00000117054	ENST00000529059	retained_intron	KNOWN	None	89	None	None	76198201	76228630	1	None	MCAD, MCADH, ACAD1
1	ACADM	ENSG00000117054	ENST00000526930	retained_intron	KNOWN	None	89	None	None	76200316	76215203	1	None	MCAD, MCADH, ACAD1
1	ACADM	ENSG00000117054	ENST00000532207	retained_intron	KNOWN	None	89	None	None	76211162	76226893	1	None	MCAD, MCADH, ACAD1
1	ACADM	ENSG00000117054	ENST00000528016	nonsense_mediated_decay	KNOWN	None	89	204	67	76215182	76253260	1	None	MCAD, MCADH, ACAD1
1	ACADM	ENSG00000117054	ENST00000481374	processed_transcript	KNOWN	None	89	None	None	76216136	76229176	1	None	MCAD, MCADH, ACAD1
1	ACADM	ENSG00000117054	ENST00000541113	protein_coding	KNOWN	None	89	1158	385	76190440	76228691	1	None	MCAD, MCADH, ACAD1
1	ACADM	ENSG00000117054	ENST00000543667	protein_coding	KNOWN	None	89	699	232	76190452	76228853	1	None	MCAD, MCADH, ACAD1
14	C14orf166B	ENSG00000100565	ENST00000393774	protein_coding	KNOWN	CCDS9853	23346	1467	488	77292715	77336549	1	None	None
14	C14orf166B	ENSG00000100565	ENST00000216450	nonsense_mediated_decay	KNOWN	None	23346	603	200	77292715	77336645	1	None	None
14	C14orf166B	ENSG00000100565	ENST00000557453	nonsense_mediated_decay	KNOWN	None	23346	123	40	77292725	77297636	1	None	None
14	C14orf166B	ENSG00000100565	ENST00000484640	nonsense_mediated_decay	KNOWN	None	23346	123	40	77292727	77336645	1	None	None
14	C14orf166B	ENSG00000100565	ENST00000555189	protein_coding	PUTATIVE	None	23346	467	154	77292730	77295012	1	None	None
14	C14orf166B	ENSG00000100565	ENST00000460005	processed_transcript	KNOWN	None	23346	None	None	77292730	77310815	1	None	None
14	C14orf166B	ENSG00000100565	ENST00000450042	protein_coding	KNOWN	None	23346	561	186	77292730	77319657	1	None	None
14	C14orf166B	ENSG00000100565	ENST00000216453	protein_coding	KNOWN	None	23346	465	154	77294675	77295473	1	None	None
3	RBM5	ENSG00000003756	ENST00000347869	protein_coding	KNOWN	CCDS2810	9902	2448	815	50126341	50156454	1	None	LUCA15, H37
3	RBM5	ENSG00000003756	ENST00000469838	protein_coding	PUTATIVE	None	9902	432	143	50126352	50139627	1	None	LUCA15, H37
3	RBM5	ENSG00000003756	ENST00000404526	protein_coding	NOVEL	None	9902	416	137	50126352	50140540	1	None	LUCA15, H37
3	RBM5	ENSG00000003756	ENST00000441305	protein_coding	KNOWN	None	9902	412	136	50126387	50137487	1	None	LUCA15, H37
3	RBM5	ENSG00000003756	ENST00000433556	retained_intron	KNOWN	None	9902	None	None	50126387	50137605	1	None	LUCA15, H37
3	RBM5	ENSG00000003756	ENST00000438369	nonsense_mediated_decay	KNOWN	None	9902	246	81	50126388	50137443	1	None	LUCA15, H37
3	RBM5	ENSG00000003756	ENST00000464087	retained_intron	KNOWN	None	9902	None	None	50126396	50156390	1	None	LUCA15, H37
3	RBM5	ENSG00000003756	ENST00000492472	retained_intron	KNOWN	None	9902	None	None	50126408	50131763	1	None	LUCA15, H37
3	RBM5	ENSG00000003756	ENST00000437500	protein_coding	KNOWN	None	9902	315	104	50127314	50131284	1	None	LUCA15, H37
3	RBM5	ENSG00000003756	ENST00000417905	protein_coding	KNOWN	None	9902	362	119	50127803	50137437	1	None	LUCA15, H37
3	RBM5	ENSG00000003756	ENST00000395174	nonsense_mediated_decay	KNOWN	None	9902	171	56	50131151	50145738	1	None	LUCA15, H37
3	RBM5	ENSG00000003756	ENST00000496179	retained_intron	KNOWN	None	9902	None	None	50139770	50145688	1	None	LUCA15, H37
3	RBM5	ENSG00000003756	ENST00000462025	retained_intron	KNOWN	None	9902	None	None	50140159	50143047	1	None	LUCA15, H37
3	RBM5	ENSG00000003756	ENST00000471995	retained_intron	KNOWN	None	9902	None	None	50142010	50144234	1	None	LUCA15, H37
3	RBM5	ENSG00000003756	ENST00000474818	retained_intron	KNOWN	None	9902	None	None	50142407	50148190	1	None	LUCA15, H37
3	RBM5	ENSG00000003756	ENST00000494360	retained_intron	KNOWN	None	9902	None	None	50144173	50147256	1	None	LUCA15, H37
3	RBM5	ENSG00000003756	ENST00000441812	processed_transcript	KNOWN	None	9902	None	None	50144462	50150922	1	None	LUCA15, H37
3	RBM5	ENSG00000003756	ENST00000489437	retained_intron	KNOWN	None	9902	None	None	50144914	50148325	1	None	LUCA15, H37
3	RBM5	ENSG00000003756	ENST00000474470	processed_transcript	PUTATIVE	None	9902	None	None	50149497	50150925	1	None	LUCA15, H37
3	RBM5	ENSG00000003756	ENST00000475128	retained_intron	KNOWN	None	9902	None	None	50150047	50153376	1	None	LUCA15, H37
3	RBM5	ENSG00000003756	ENST00000493993	retained_intron	KNOWN	None	9902	None	None	50150795	50151675	1	None	LUCA15, H37
3	RBM5	ENSG00000003756	ENST00000475590	retained_intron	KNOWN	None	9902	None	None	50151462	50154812	1	None	LUCA15, H37
3	RBM5	ENSG00000003756	ENST00000492430	retained_intron	KNOWN	None	9902	None	None	50151480	50153613	1	None	LUCA15, H37
3	RBM5	ENSG00000003756	ENST00000479275	retained_intron	KNOWN	None	9902	None	None	50151684	50153664	1	None	LUCA15, H37
3	RBM5	ENSG00000003756	ENST00000464988	retained_intron	KNOWN	None	9902	None	None	50152785	50156003	1	None	LUCA15, H37
3	RBM5	ENSG00000003756	ENST00000461242	retained_intron	KNOWN	None	9902	None	None	50153978	50154608	1	None	LUCA15, H37
1	OR6K2	ENSG00000196171	ENST00000359610	protein_coding	KNOWN	CCDS30902	15029	975	324	158669369	158670486	-1	None	None
4	ABLIM2	ENSG00000163995	ENST00000512594	retained_intron	KNOWN	None	19195	None	None	7967039	8022552	-1	None	KIAA1808
4	ABLIM2	ENSG00000163995	ENST00000361737	protein_coding	KNOWN	CCDS47015	19195	1596	531	7967039	8160538	-1	None	KIAA1808
4	ABLIM2	ENSG00000163995	ENST00000509819	retained_intron	KNOWN	None	19195	None	None	7967056	7985159	-1	None	KIAA1808
4	ABLIM2	ENSG00000163995	ENST00000514025	protein_coding	KNOWN	None	19195	1041	346	7967056	8073713	-1	None	KIAA1808
4	ABLIM2	ENSG00000163995	ENST00000447017	protein_coding	KNOWN	CCDS47014	19195	1938	645	7967773	8160436	-1	None	KIAA1808
4	ABLIM2	ENSG00000163995	ENST00000341937	protein_coding	KNOWN	CCDS47013	19195	1836	611	7968029	8160481	-1	None	KIAA1808
4	ABLIM2	ENSG00000163995	ENST00000361581	protein_coding	KNOWN	CCDS47012	19195	1719	572	7968029	8160481	-1	None	KIAA1808
4	ABLIM2	ENSG00000163995	ENST00000407564	protein_coding	KNOWN	CCDS54719	19195	1566	521	7968086	8160510	-1	None	KIAA1808
4	ABLIM2	ENSG00000163995	ENST00000505872	protein_coding	KNOWN	CCDS47011	19195	1680	559	7968717	8160416	-1	None	KIAA1808
4	ABLIM2	ENSG00000163995	ENST00000428004	protein_coding	KNOWN	CCDS47016	19195	1413	470	8008752	8160559	-1	None	KIAA1808
4	ABLIM2	ENSG00000163995	ENST00000504172	retained_intron	KNOWN	None	19195	None	None	8009112	8012455	-1	None	KIAA1808
4	ABLIM2	ENSG00000163995	ENST00000510277	protein_coding	PUTATIVE	None	19195	915	304	8009790	8073554	-1	None	KIAA1808
4	ABLIM2	ENSG00000163995	ENST00000515079	processed_transcript	KNOWN	None	19195	None	None	8021940	8043163	-1	None	KIAA1808
4	ABLIM2	ENSG00000163995	ENST00000502800	processed_transcript	PUTATIVE	None	19195	None	None	8108221	8160559	-1	None	KIAA1808
4	ABLIM2	ENSG00000163995	ENST00000296372	protein_coding	KNOWN	None	19195	1722	573	7967043	8160559	-1	None	KIAA1808
4	ABLIM2	ENSG00000163995	ENST00000545242	protein_coding	KNOWN	None	19195	1716	571	7967043	8160559	-1	None	KIAA1808
4	ABLIM2	ENSG00000163995	ENST00000546334	protein_coding	KNOWN	None	19195	1596	531	7967043	8160559	-1	None	KIAA1808
4	ABLIM2	ENSG00000163995	ENST00000318888	protein_coding	KNOWN	None	19195	1041	346	7967043	8160559	-1	None	KIAA1808
3	CRBN	ENSG00000113851	ENST00000491834	retained_intron	KNOWN	None	30185	None	None	3190676	3221375	-1	MRT2A	None
3	CRBN	ENSG00000113851	ENST00000488263	retained_intron	KNOWN	None	30185	None	None	3191695	3198468	-1	MRT2A	None
3	CRBN	ENSG00000113851	ENST00000424814	protein_coding	NOVEL	None	30185	1184	393	3191695	3221358	-1	MRT2A	None
3	CRBN	ENSG00000113851	ENST00000231948	protein_coding	KNOWN	CCDS2562	30185	1329	442	3191695	3221394	-1	MRT2A	None
3	CRBN	ENSG00000113851	ENST00000432408	protein_coding	NOVEL	CCDS54547	30185	1326	441	3191695	3221394	-1	MRT2A	None
3	CRBN	ENSG00000113851	ENST00000459840	retained_intron	KNOWN	None	30185	None	None	3192544	3196654	-1	MRT2A	None
3	CRBN	ENSG00000113851	ENST00000498442	retained_intron	KNOWN	None	30185	None	None	3192672	3195876	-1	MRT2A	None
3	CRBN	ENSG00000113851	ENST00000482844	retained_intron	KNOWN	None	30185	None	None	3196234	3214607	-1	MRT2A	None
3	CRBN	ENSG00000113851	ENST00000480249	retained_intron	KNOWN	None	30185	None	None	3197774	3215805	-1	MRT2A	None
3	CRBN	ENSG00000113851	ENST00000450014	protein_coding	PUTATIVE	None	30185	686	227	3209114	3221358	-1	MRT2A	None
3	CRBN	ENSG00000113851	ENST00000498700	retained_intron	KNOWN	None	30185	None	None	3213860	3221385	-1	MRT2A	None
3	CRBN	ENSG00000113851	ENST00000492178	retained_intron	KNOWN	None	30185	None	None	3214401	3216934	-1	MRT2A	None
3	CRBN	ENSG00000113851	ENST00000478353	retained_intron	KNOWN	None	30185	None	None	3215571	3221388	-1	MRT2A	None
1	OR6K3	ENSG00000203757	ENST00000368145	protein_coding	KNOWN	CCDS30903	15030	948	315	158686958	158687905	-1	None	None
1	OR6K3	ENSG00000203757	ENST00000368146	protein_coding	KNOWN	None	15030	996	331	158686958	158687953	-1	None	None
1	OR6K6	ENSG00000180433	ENST00000368144	protein_coding	KNOWN	CCDS30904	15033	1032	343	158724510	158725681	1	None	None
1	OR6N1	ENSG00000197403	ENST00000335094	protein_coding	KNOWN	CCDS30905	15034	939	312	158735466	158736492	-1	None	None
1	OR6N2	ENSG00000188340	ENST00000339258	protein_coding	KNOWN	CCDS30906	15035	954	317	158746472	158747425	-1	None	None
7	RABL5	ENSG00000128581	ENST00000422177	nonsense_mediated_decay	KNOWN	CCDS5719	21895	558	185	100956975	100965075	-1	None	FLJ14117, FLJ13225, DKFZp761N0823
7	RABL5	ENSG00000128581	ENST00000517481	protein_coding	KNOWN	CCDS47671	21895	327	108	100957456	100965057	-1	None	FLJ14117, FLJ13225, DKFZp761N0823
7	RABL5	ENSG00000128581	ENST00000315322	protein_coding	KNOWN	CCDS5719	21895	558	185	100957937	100965084	-1	None	FLJ14117, FLJ13225, DKFZp761N0823
7	RABL5	ENSG00000128581	ENST00000498704	protein_coding	KNOWN	CCDS47671	21895	327	108	100958034	100965045	-1	None	FLJ14117, FLJ13225, DKFZp761N0823
7	RABL5	ENSG00000128581	ENST00000440362	retained_intron	KNOWN	None	21895	None	None	100958069	100965071	-1	None	FLJ14117, FLJ13225, DKFZp761N0823
7	RABL5	ENSG00000128581	ENST00000437644	protein_coding	KNOWN	CCDS47670	21895	468	155	100958076	100965058	-1	None	FLJ14117, FLJ13225, DKFZp761N0823
7	RABL5	ENSG00000128581	ENST00000430911	nonsense_mediated_decay	KNOWN	None	21895	114	37	100958159	100965078	-1	None	FLJ14117, FLJ13225, DKFZp761N0823
7	RABL5	ENSG00000128581	ENST00000495166	processed_transcript	KNOWN	None	21895	None	None	100958353	100965104	-1	None	FLJ14117, FLJ13225, DKFZp761N0823
7	RABL5	ENSG00000128581	ENST00000468833	retained_intron	KNOWN	None	21895	None	None	100958774	100965071	-1	None	FLJ14117, FLJ13225, DKFZp761N0823
7	RABL5	ENSG00000128581	ENST00000485695	retained_intron	KNOWN	None	21895	None	None	100959106	100965066	-1	None	FLJ14117, FLJ13225, DKFZp761N0823
1	MNDA	ENSG00000163563	ENST00000368141	protein_coding	KNOWN	CCDS1177	7183	1224	407	158801107	158819294	1	None	PYHIN3
1	MNDA	ENSG00000163563	ENST00000491210	processed_transcript	PUTATIVE	None	7183	None	None	158801141	158812513	1	None	PYHIN3
1	MNDA	ENSG00000163563	ENST00000438394	protein_coding	KNOWN	None	7183	313	103	158815691	158819296	1	None	PYHIN3
19	RPS28	ENSG00000233927	ENST00000449223	retained_intron	KNOWN	None	10418	None	None	8386042	8387830	1	None	S28
19	RPS28	ENSG00000233927	ENST00000602140	retained_intron	KNOWN	None	10418	None	None	8386379	8387376	1	None	S28
19	RPS28	ENSG00000233927	ENST00000600659	protein_coding	KNOWN	CCDS45953	10418	210	69	8386384	8388224	1	None	S28
19	RPS28	ENSG00000233927	ENST00000417088	retained_intron	KNOWN	None	10418	None	None	8386518	8387280	1	None	S28
6	ALDH5A1	ENSG00000112294	ENST00000357578	protein_coding	KNOWN	CCDS4555	408	1608	535	24495080	24537435	1	None	SSADH, SSDH
6	ALDH5A1	ENSG00000112294	ENST00000491546	protein_coding	NOVEL	None	408	1524	507	24495095	24533985	1	None	SSADH, SSDH
6	ALDH5A1	ENSG00000112294	ENST00000348925	protein_coding	KNOWN	CCDS4556	408	1647	548	24495197	24534531	1	None	SSADH, SSDH
6	ALDH5A1	ENSG00000112294	ENST00000479394	retained_intron	KNOWN	None	408	None	None	24522866	24534285	1	None	SSADH, SSDH
6	ALDH5A1	ENSG00000112294	ENST00000492697	retained_intron	KNOWN	None	408	None	None	24532238	24534036	1	None	SSADH, SSDH
6	ALDH5A1	ENSG00000112294	ENST00000546278	protein_coding	KNOWN	None	408	1344	447	24495080	24534474	1	None	SSADH, SSDH
2	CREB1	ENSG00000118260	ENST00000430624	protein_coding	KNOWN	CCDS2374	2345	984	327	208394461	208462513	1	None	None
2	CREB1	ENSG00000118260	ENST00000432329	protein_coding	KNOWN	CCDS2375	2345	1026	341	208394616	208468155	1	None	None
2	CREB1	ENSG00000118260	ENST00000353267	protein_coding	KNOWN	CCDS2374	2345	984	327	208394636	208468155	1	None	None
2	CREB1	ENSG00000118260	ENST00000445803	protein_coding	KNOWN	None	2345	547	181	208394647	208435045	1	None	None
2	CREB1	ENSG00000118260	ENST00000421139	protein_coding	PUTATIVE	None	2345	512	169	208394664	208442355	1	None	None
2	CREB1	ENSG00000118260	ENST00000494094	retained_intron	KNOWN	None	2345	None	None	208394796	208432434	1	None	None
2	CREB1	ENSG00000118260	ENST00000452474	protein_coding	KNOWN	None	2345	397	131	208394828	208432280	1	None	None
2	CREB1	ENSG00000118260	ENST00000414681	protein_coding	KNOWN	None	2345	237	78	208414985	208425072	1	None	None
2	CREB1	ENSG00000118260	ENST00000480189	processed_transcript	KNOWN	None	2345	None	None	208423846	208436501	1	None	None
2	CREB1	ENSG00000118260	ENST00000464407	retained_intron	KNOWN	None	2345	None	None	208423895	208432874	1	None	None
2	CREB1	ENSG00000118260	ENST00000448277	protein_coding	PUTATIVE	None	2345	755	250	208423912	208461673	1	None	None
2	CREB1	ENSG00000118260	ENST00000457101	protein_coding	PUTATIVE	None	2345	394	130	208423950	208435012	1	None	None
2	CREB1	ENSG00000118260	ENST00000418081	nonsense_mediated_decay	KNOWN	None	2345	545	180	208425038	208461673	1	None	None
2	CREB1	ENSG00000118260	ENST00000455757	protein_coding	PUTATIVE	None	2345	423	140	208440010	208442789	1	None	None
2	CREB1	ENSG00000118260	ENST00000494983	processed_transcript	KNOWN	None	2345	None	None	208441360	208462182	1	None	None
2	CREB1	ENSG00000118260	ENST00000446449	processed_transcript	KNOWN	None	2345	None	None	208461889	208463906	1	None	None
2	CREB1	ENSG00000118260	ENST00000451164	processed_transcript	KNOWN	None	2345	None	None	208462072	208464480	1	None	None
2	CREB1	ENSG00000118260	ENST00000374397	protein_coding	KNOWN	None	2345	693	230	208394824	208462675	1	None	None
2	CREB1	ENSG00000118260	ENST00000536726	protein_coding	KNOWN	None	2345	705	234	208394794	208441649	1	None	None
2	CREB1	ENSG00000118260	ENST00000539789	protein_coding	KNOWN	None	2345	462	153	208423846	208441924	1	None	None
14	TNFAIP2	ENSG00000185215	ENST00000559195	processed_transcript	KNOWN	None	11895	None	None	103589779	103596370	1	None	B94, EXOC3L3
14	TNFAIP2	ENSG00000185215	ENST00000558056	protein_coding	KNOWN	None	11895	118	38	103589798	103592912	1	None	B94, EXOC3L3
14	TNFAIP2	ENSG00000185215	ENST00000560869	protein_coding	KNOWN	CCDS9979	11895	1965	654	103589798	103603776	1	None	B94, EXOC3L3
14	TNFAIP2	ENSG00000185215	ENST00000560562	nonsense_mediated_decay	KNOWN	None	11895	294	97	103592726	103601988	1	None	B94, EXOC3L3
14	TNFAIP2	ENSG00000185215	ENST00000559406	nonsense_mediated_decay	KNOWN	None	11895	147	48	103592726	103601988	1	None	B94, EXOC3L3
14	TNFAIP2	ENSG00000185215	ENST00000560428	retained_intron	KNOWN	None	11895	None	None	103593903	103598099	1	None	B94, EXOC3L3
14	TNFAIP2	ENSG00000185215	ENST00000560670	protein_coding	NOVEL	None	11895	1044	347	103593913	103601987	1	None	B94, EXOC3L3
14	TNFAIP2	ENSG00000185215	ENST00000561156	nonsense_mediated_decay	KNOWN	None	11895	200	65	103597433	103600102	1	None	B94, EXOC3L3
14	TNFAIP2	ENSG00000185215	ENST00000559255	protein_coding	PUTATIVE	None	11895	731	242	103599085	103603019	1	None	B94, EXOC3L3
14	TNFAIP2	ENSG00000185215	ENST00000561217	processed_transcript	PUTATIVE	None	11895	None	None	103602740	103603769	1	None	B94, EXOC3L3
14	TNFAIP2	ENSG00000185215	ENST00000333007	protein_coding	KNOWN	CCDS9979	11895	1965	654	103592664	103603776	1	None	B94, EXOC3L3
14	TNFAIP2	ENSG00000185215	ENST00000451723	protein_coding	KNOWN	None	11895	972	323	103593913	103601987	1	None	B94, EXOC3L3
14	TNFAIP2	ENSG00000185215	ENST00000538222	protein_coding	KNOWN	None	11895	600	199	103599085	103602611	1	None	B94, EXOC3L3
10	NUDT5	ENSG00000165609	ENST00000491614	protein_coding	KNOWN	CCDS7089	8052	660	219	12207324	12238123	-1	None	hYSAH1, YSA1H
10	NUDT5	ENSG00000165609	ENST00000378937	protein_coding	KNOWN	None	8052	699	232	12209575	12237821	-1	None	hYSAH1, YSA1H
10	NUDT5	ENSG00000165609	ENST00000378952	processed_transcript	KNOWN	None	8052	None	None	12209671	12237859	-1	None	hYSAH1, YSA1H
10	NUDT5	ENSG00000165609	ENST00000476462	nonsense_mediated_decay	KNOWN	None	8052	412	136	12209737	12221131	-1	None	hYSAH1, YSA1H
10	NUDT5	ENSG00000165609	ENST00000378940	protein_coding	KNOWN	None	8052	561	186	12211721	12237868	-1	None	hYSAH1, YSA1H
10	NUDT5	ENSG00000165609	ENST00000378927	protein_coding	KNOWN	None	8052	543	180	12212231	12237821	-1	None	hYSAH1, YSA1H
10	NUDT5	ENSG00000165609	ENST00000498825	processed_transcript	KNOWN	None	8052	None	None	12214489	12215812	-1	None	hYSAH1, YSA1H
10	NUDT5	ENSG00000165609	ENST00000444732	protein_coding	KNOWN	None	8052	293	96	12219842	12237844	-1	None	hYSAH1, YSA1H
10	NUDT5	ENSG00000165609	ENST00000537776	protein_coding	KNOWN	None	8052	660	219	12209576	12238143	-1	None	hYSAH1, YSA1H
1	RABGGTB	ENSG00000137955	ENST00000496055	processed_transcript	KNOWN	None	9796	None	None	76251882	76260518	1	None	None
1	RABGGTB	ENSG00000137955	ENST00000319942	protein_coding	KNOWN	CCDS669	9796	996	331	76251886	76260764	1	None	None
1	RABGGTB	ENSG00000137955	ENST00000473406	processed_transcript	KNOWN	None	9796	None	None	76251913	76257256	1	None	None
1	RABGGTB	ENSG00000137955	ENST00000485459	processed_transcript	KNOWN	None	9796	None	None	76251913	76257939	1	None	None
1	RABGGTB	ENSG00000137955	ENST00000370826	protein_coding	KNOWN	None	9796	459	152	76251916	76255798	1	None	None
1	RABGGTB	ENSG00000137955	ENST00000497648	processed_transcript	KNOWN	None	9796	None	None	76251928	76254468	1	None	None
1	RABGGTB	ENSG00000137955	ENST00000462042	processed_transcript	KNOWN	None	9796	None	None	76252384	76255681	1	None	None
1	RABGGTB	ENSG00000137955	ENST00000470201	processed_transcript	KNOWN	None	9796	None	None	76252385	76257971	1	None	None
1	RABGGTB	ENSG00000137955	ENST00000471759	processed_transcript	KNOWN	None	9796	None	None	76252386	76260488	1	None	None
1	RABGGTB	ENSG00000137955	ENST00000491266	processed_transcript	KNOWN	None	9796	None	None	76252388	76257987	1	None	None
1	RABGGTB	ENSG00000137955	ENST00000461653	processed_transcript	KNOWN	None	9796	None	None	76253181	76257935	1	None	None
1	RABGGTB	ENSG00000137955	ENST00000489450	processed_transcript	KNOWN	None	9796	None	None	76253208	76257203	1	None	None
1	RABGGTB	ENSG00000137955	ENST00000467748	processed_transcript	KNOWN	None	9796	None	None	76256954	76257544	1	None	None
1	RABGGTB	ENSG00000137955	ENST00000459697	processed_transcript	KNOWN	None	9796	None	None	76259067	76260519	1	None	None
1	RABGGTB	ENSG00000137955	ENST00000535300	protein_coding	KNOWN	None	9796	474	157	76251879	76260350	1	None	None
8	MBOAT4	ENSG00000177669	ENST00000320542	protein_coding	KNOWN	CCDS47835	32311	1308	435	29989340	30002202	-1	OACT4	FKSG89, GOAT
1	PYHIN1	ENSG00000163564	ENST00000458222	protein_coding	KNOWN	None	28894	452	149	158900586	158908910	1	None	IFIX, MGC23885
1	PYHIN1	ENSG00000163564	ENST00000368140	protein_coding	KNOWN	CCDS1178	28894	1479	492	158901342	158946844	1	None	IFIX, MGC23885
1	PYHIN1	ENSG00000163564	ENST00000368138	protein_coding	KNOWN	CCDS1179	28894	1452	483	158901349	158946518	1	None	IFIX, MGC23885
1	PYHIN1	ENSG00000163564	ENST00000392254	protein_coding	KNOWN	CCDS30907	28894	1386	461	158901350	158946518	1	None	IFIX, MGC23885
1	PYHIN1	ENSG00000163564	ENST00000392252	protein_coding	KNOWN	CCDS30908	28894	1359	452	158901350	158946518	1	None	IFIX, MGC23885
1	PYHIN1	ENSG00000163564	ENST00000368135	protein_coding	KNOWN	None	28894	738	245	158901358	158910046	1	None	IFIX, MGC23885
1	PYHIN1	ENSG00000163564	ENST00000485134	processed_transcript	PUTATIVE	None	28894	None	None	158911767	158915181	1	None	IFIX, MGC23885
16	NDUFAB1	ENSG00000004779	ENST00000007516	protein_coding	KNOWN	CCDS10614	7694	471	156	23592323	23607677	-1	None	SDAP, FASN2A, ACP
16	NDUFAB1	ENSG00000004779	ENST00000562133	protein_coding	PUTATIVE	None	7694	335	110	23592335	23607598	-1	None	SDAP, FASN2A, ACP
16	NDUFAB1	ENSG00000004779	ENST00000484769	nonsense_mediated_decay	KNOWN	None	7694	225	74	23592354	23607624	-1	None	SDAP, FASN2A, ACP
16	NDUFAB1	ENSG00000004779	ENST00000570319	protein_coding	KNOWN	CCDS10614	7694	471	156	23593192	23607612	-1	None	SDAP, FASN2A, ACP
16	NDUFAB1	ENSG00000004779	ENST00000567761	protein_coding	PUTATIVE	None	7694	210	69	23593656	23602474	-1	None	SDAP, FASN2A, ACP
5	FAM196B	ENSG00000204767	ENST00000377365	protein_coding	KNOWN	CCDS47336	37271	1608	535	169291268	169407744	-1	C5orf57	None
5	FAM196B	ENSG00000204767	ENST00000523970	processed_transcript	PUTATIVE	None	37271	None	None	169311379	169407452	-1	C5orf57	None
3	CACNA1D	ENSG00000157388	ENST00000350061	protein_coding	KNOWN	CCDS46848	1391	6486	2161	53528683	53846072	1	CCHL1A2, CACNL1A2	Cav1.3, CACH3, CACN4
3	CACNA1D	ENSG00000157388	ENST00000288139	protein_coding	KNOWN	CCDS2872	1391	6546	2181	53529076	53846490	1	CCHL1A2, CACNL1A2	Cav1.3, CACH3, CACN4
3	CACNA1D	ENSG00000157388	ENST00000422281	protein_coding	NOVEL	CCDS46849	1391	6414	2137	53529194	53845433	1	CCHL1A2, CACNL1A2	Cav1.3, CACH3, CACN4
3	CACNA1D	ENSG00000157388	ENST00000481085	protein_coding	NOVEL	None	1391	791	262	53700390	53756485	1	CCHL1A2, CACNL1A2	Cav1.3, CACH3, CACN4
3	CACNA1D	ENSG00000157388	ENST00000464429	retained_intron	KNOWN	None	1391	None	None	53700405	53708074	1	CCHL1A2, CACNL1A2	Cav1.3, CACH3, CACN4
3	CACNA1D	ENSG00000157388	ENST00000481478	protein_coding	NOVEL	None	1391	5565	1854	53700428	53845535	1	CCHL1A2, CACNL1A2	Cav1.3, CACH3, CACN4
3	CACNA1D	ENSG00000157388	ENST00000498251	processed_transcript	KNOWN	None	1391	None	None	53707088	53713790	1	CCHL1A2, CACNL1A2	Cav1.3, CACH3, CACN4
3	CACNA1D	ENSG00000157388	ENST00000540742	protein_coding	KNOWN	None	1391	1620	539	53783107	53825206	1	CCHL1A2, CACNL1A2	Cav1.3, CACH3, CACN4
3	CACNA1D	ENSG00000157388	ENST00000544977	protein_coding	KNOWN	None	1391	1056	351	53830149	53845324	1	CCHL1A2, CACNL1A2	Cav1.3, CACH3, CACN4
8	POLR2K	ENSG00000147669	ENST00000353107	protein_coding	KNOWN	CCDS6285	9198	177	58	101162812	101166230	1	None	RPB10alpha
8	POLR2K	ENSG00000147669	ENST00000522439	protein_coding	PUTATIVE	None	9198	204	67	101162851	101164437	1	None	RPB10alpha
8	POLR2K	ENSG00000147669	ENST00000519765	processed_transcript	KNOWN	None	9198	None	None	101162853	101165874	1	None	RPB10alpha
6	LY6G6C	ENSG00000204421	ENST00000495859	protein_coding	KNOWN	None	13936	210	69	31686425	31689456	-1	C6orf24	G6c, NG24
6	LY6G6C	ENSG00000204421	ENST00000375819	protein_coding	KNOWN	CCDS4714	13936	378	125	31686425	31689622	-1	C6orf24	G6c, NG24
4	None	ENSG00000249679	ENST00000512874	protein_coding	PUTATIVE	None	None	342	113	186392670	186393417	1	None	None
8	TIGD5	ENSG00000179886	ENST00000504548	protein_coding	KNOWN	CCDS6406	18336	1929	642	144680074	144682485	1	None	FLJ14926
8	TIGD5	ENSG00000179886	ENST00000321385	protein_coding	KNOWN	None	18336	1782	593	144680074	144682485	1	None	FLJ14926
1	AHCTF1	ENSG00000153207	ENST00000470300	processed_transcript	KNOWN	None	24618	None	None	247002400	247062782	-1	None	ELYS
1	AHCTF1	ENSG00000153207	ENST00000366508	protein_coding	NOVEL	None	24618	6906	2301	247002400	247094665	-1	None	ELYS
1	AHCTF1	ENSG00000153207	ENST00000326225	protein_coding	KNOWN	CCDS1629	24618	6828	2275	247002400	247094726	-1	None	ELYS
1	AHCTF1	ENSG00000153207	ENST00000498601	nonsense_mediated_decay	KNOWN	None	24618	243	80	247004264	247013151	-1	None	ELYS
1	AHCTF1	ENSG00000153207	ENST00000483900	processed_transcript	KNOWN	None	24618	None	None	247013173	247040370	-1	None	ELYS
1	AHCTF1	ENSG00000153207	ENST00000477526	retained_intron	KNOWN	None	24618	None	None	247025260	247027600	-1	None	ELYS
1	AHCTF1	ENSG00000153207	ENST00000478568	protein_coding	PUTATIVE	None	24618	203	66	247079616	247095280	-1	None	ELYS
1	AHCTF1	ENSG00000153207	ENST00000391829	protein_coding	KNOWN	None	24618	6801	2266	247002404	247094726	-1	None	ELYS
6	SERAC1	ENSG00000122335	ENST00000367104	protein_coding	KNOWN	CCDS5255	21061	1965	654	158530547	158589302	-1	None	FLJ14917
6	SERAC1	ENSG00000122335	ENST00000607742	nonsense_mediated_decay	KNOWN	None	21061	129	42	158530723	158589278	-1	None	FLJ14917
6	SERAC1	ENSG00000122335	ENST00000607071	nonsense_mediated_decay	KNOWN	None	21061	129	42	158531659	158587191	-1	None	FLJ14917
6	SERAC1	ENSG00000122335	ENST00000606965	nonsense_mediated_decay	KNOWN	None	21061	1230	409	158535503	158589203	-1	None	FLJ14917
6	SERAC1	ENSG00000122335	ENST00000435180	protein_coding	PUTATIVE	None	21061	489	162	158535723	158540093	-1	None	FLJ14917
6	SERAC1	ENSG00000122335	ENST00000367101	protein_coding	KNOWN	None	21061	1596	531	158535763	158589291	-1	None	FLJ14917
6	SERAC1	ENSG00000122335	ENST00000607000	protein_coding	KNOWN	None	21061	504	167	158566952	158580330	-1	None	FLJ14917
6	SERAC1	ENSG00000122335	ENST00000367102	protein_coding	KNOWN	None	21061	1596	531	158530536	158589312	-1	None	FLJ14917
1	MSH4	ENSG00000057468	ENST00000263187	protein_coding	KNOWN	CCDS670	7327	2811	936	76262567	76378923	1	None	None
9	FANCG	ENSG00000221829	ENST00000425676	nonsense_mediated_decay	KNOWN	None	3588	321	106	35073832	35079690	-1	XRCC9	FAG
9	FANCG	ENSG00000221829	ENST00000378643	protein_coding	KNOWN	CCDS6574	3588	1869	622	35073835	35080013	-1	XRCC9	FAG
9	FANCG	ENSG00000221829	ENST00000476212	processed_transcript	KNOWN	None	3588	None	None	35073836	35076562	-1	XRCC9	FAG
9	FANCG	ENSG00000221829	ENST00000481254	retained_intron	KNOWN	None	3588	None	None	35074776	35075506	-1	XRCC9	FAG
9	FANCG	ENSG00000221829	ENST00000474894	retained_intron	KNOWN	None	3588	None	None	35076138	35076849	-1	XRCC9	FAG
9	FANCG	ENSG00000221829	ENST00000448890	protein_coding	KNOWN	None	3588	645	214	35077262	35079939	-1	XRCC9	FAG
9	FANCG	ENSG00000221829	ENST00000461149	retained_intron	KNOWN	None	3588	None	None	35077995	35078643	-1	XRCC9	FAG
9	FANCG	ENSG00000221829	ENST00000462124	retained_intron	KNOWN	None	3588	None	None	35078599	35079666	-1	XRCC9	FAG
2	METTL21A	ENSG00000144401	ENST00000432416	protein_coding	PUTATIVE	None	30476	384	127	208445355	208489845	-1	FAM119A	LOC151194, HCA557b, HSPA-KMT
2	METTL21A	ENSG00000144401	ENST00000458426	protein_coding	KNOWN	None	30476	273	90	208446077	208490055	-1	FAM119A	LOC151194, HCA557b, HSPA-KMT
2	METTL21A	ENSG00000144401	ENST00000425132	protein_coding	KNOWN	None	30476	273	90	208446419	208490103	-1	FAM119A	LOC151194, HCA557b, HSPA-KMT
2	METTL21A	ENSG00000144401	ENST00000477919	processed_transcript	PUTATIVE	None	30476	None	None	208473838	208477750	-1	FAM119A	LOC151194, HCA557b, HSPA-KMT
2	METTL21A	ENSG00000144401	ENST00000448007	protein_coding	KNOWN	CCDS2376	30476	657	218	208476828	208489707	-1	FAM119A	LOC151194, HCA557b, HSPA-KMT
2	METTL21A	ENSG00000144401	ENST00000272839	protein_coding	NOVEL	None	30476	711	236	208477447	208489275	-1	FAM119A	LOC151194, HCA557b, HSPA-KMT
2	METTL21A	ENSG00000144401	ENST00000448823	protein_coding	PUTATIVE	None	30476	159	52	208477451	208489104	-1	FAM119A	LOC151194, HCA557b, HSPA-KMT
2	METTL21A	ENSG00000144401	ENST00000406927	protein_coding	KNOWN	CCDS2376	30476	657	218	208477467	208490102	-1	FAM119A	LOC151194, HCA557b, HSPA-KMT
2	METTL21A	ENSG00000144401	ENST00000426075	protein_coding	KNOWN	CCDS2376	30476	657	218	208477567	208489290	-1	FAM119A	LOC151194, HCA557b, HSPA-KMT
2	METTL21A	ENSG00000144401	ENST00000442521	protein_coding	KNOWN	CCDS2376	30476	657	218	208477704	208490651	-1	FAM119A	LOC151194, HCA557b, HSPA-KMT
2	METTL21A	ENSG00000144401	ENST00000461419	processed_transcript	KNOWN	None	30476	None	None	208480397	208490652	-1	FAM119A	LOC151194, HCA557b, HSPA-KMT
2	METTL21A	ENSG00000144401	ENST00000471128	processed_transcript	KNOWN	None	30476	None	None	208485458	208489986	-1	FAM119A	LOC151194, HCA557b, HSPA-KMT
2	METTL21A	ENSG00000144401	ENST00000411432	protein_coding	KNOWN	CCDS2376	30476	657	218	208473839	208489973	-1	FAM119A	LOC151194, HCA557b, HSPA-KMT
1	ASB17	ENSG00000154007	ENST00000284142	protein_coding	KNOWN	CCDS671	19769	888	295	76384558	76398116	-1	None	None
4	PDLIM3	ENSG00000154553	ENST00000284770	protein_coding	KNOWN	CCDS3844	20767	1095	364	186422851	186456662	-1	None	ALP
4	PDLIM3	ENSG00000154553	ENST00000514142	retained_intron	KNOWN	None	20767	None	None	186422905	186438871	-1	None	ALP
4	PDLIM3	ENSG00000154553	ENST00000284771	protein_coding	KNOWN	CCDS47172	20767	951	316	186422905	186456766	-1	None	ALP
4	PDLIM3	ENSG00000154553	ENST00000514308	retained_intron	KNOWN	None	20767	None	None	186423410	186428241	-1	None	ALP
4	PDLIM3	ENSG00000154553	ENST00000505886	nonsense_mediated_decay	KNOWN	None	20767	129	42	186425699	186456620	-1	None	ALP
4	PDLIM3	ENSG00000154553	ENST00000512293	nonsense_mediated_decay	KNOWN	None	20767	129	42	186429455	186456661	-1	None	ALP
4	PDLIM3	ENSG00000154553	ENST00000504011	retained_intron	KNOWN	None	20767	None	None	186433248	186456645	-1	None	ALP
4	PDLIM3	ENSG00000154553	ENST00000504355	retained_intron	KNOWN	None	20767	None	None	186435300	186456661	-1	None	ALP
4	PDLIM3	ENSG00000154553	ENST00000512380	retained_intron	KNOWN	None	20767	None	None	186435469	186446276	-1	None	ALP
4	PDLIM3	ENSG00000154553	ENST00000515261	retained_intron	KNOWN	None	20767	None	None	186444297	186456661	-1	None	ALP
4	PDLIM3	ENSG00000154553	ENST00000284767	protein_coding	KNOWN	None	20767	570	189	186422911	186456656	-1	None	ALP
1	ST6GALNAC3	ENSG00000184005	ENST00000328299	protein_coding	KNOWN	CCDS672	19343	918	305	76540404	77100286	1	SIAT7C	None
1	ST6GALNAC3	ENSG00000184005	ENST00000464140	processed_transcript	KNOWN	None	19343	None	None	76779598	77042894	1	SIAT7C	None
9	GOLM1	ENSG00000135052	ENST00000388712	protein_coding	KNOWN	CCDS35054	15451	1206	401	88641061	88714473	-1	GOLPH2, C9orf155	GP73, FLJ23608, bA379P1.3
9	GOLM1	ENSG00000135052	ENST00000388711	protein_coding	KNOWN	CCDS35054	15451	1206	401	88641062	88715064	-1	GOLPH2, C9orf155	GP73, FLJ23608, bA379P1.3
9	GOLM1	ENSG00000135052	ENST00000464314	retained_intron	KNOWN	None	15451	None	None	88650310	88651728	-1	GOLPH2, C9orf155	GP73, FLJ23608, bA379P1.3
9	GOLM1	ENSG00000135052	ENST00000257504	processed_transcript	KNOWN	None	15451	None	None	88650503	88692927	-1	GOLPH2, C9orf155	GP73, FLJ23608, bA379P1.3
9	GOLM1	ENSG00000135052	ENST00000470762	nonsense_mediated_decay	KNOWN	None	15451	318	105	88655656	88694256	-1	GOLPH2, C9orf155	GP73, FLJ23608, bA379P1.3
9	GOLM1	ENSG00000135052	ENST00000472919	nonsense_mediated_decay	KNOWN	None	15451	84	27	88661385	88715088	-1	GOLPH2, C9orf155	GP73, FLJ23608, bA379P1.3
9	GOLM1	ENSG00000135052	ENST00000486130	protein_coding	KNOWN	None	15451	364	120	88667452	88695080	-1	GOLPH2, C9orf155	GP73, FLJ23608, bA379P1.3
9	GOLM1	ENSG00000135052	ENST00000466178	protein_coding	KNOWN	None	15451	240	79	88692396	88715064	-1	GOLPH2, C9orf155	GP73, FLJ23608, bA379P1.3
8	MRPL15	ENSG00000137547	ENST00000260102	protein_coding	KNOWN	CCDS6158	14054	891	296	55047770	55060461	1	None	RPML7, MRP-L7, HSPC145, L15mt, MRP-L15
8	MRPL15	ENSG00000137547	ENST00000519831	protein_coding	NOVEL	None	14054	594	197	55047837	55055387	1	None	RPML7, MRP-L7, HSPC145, L15mt, MRP-L15
8	MRPL15	ENSG00000137547	ENST00000522521	nonsense_mediated_decay	KNOWN	None	14054	282	93	55049068	55060418	1	None	RPML7, MRP-L7, HSPC145, L15mt, MRP-L15
19	HKR1	ENSG00000181666	ENST00000591471	protein_coding	PUTATIVE	None	4928	1161	386	37803739	37855347	1	None	ZNF875
19	HKR1	ENSG00000181666	ENST00000587570	processed_transcript	KNOWN	None	4928	None	None	37803780	37808044	1	None	ZNF875
19	HKR1	ENSG00000181666	ENST00000589218	processed_transcript	KNOWN	None	4928	None	None	37808802	37820007	1	None	ZNF875
19	HKR1	ENSG00000181666	ENST00000592362	processed_transcript	KNOWN	None	4928	None	None	37808806	37838098	1	None	ZNF875
19	HKR1	ENSG00000181666	ENST00000544914	protein_coding	PUTATIVE	None	4928	1161	386	37808813	37855348	1	None	ZNF875
19	HKR1	ENSG00000181666	ENST00000587829	processed_transcript	KNOWN	None	4928	None	None	37808819	37838160	1	None	ZNF875
19	HKR1	ENSG00000181666	ENST00000589188	protein_coding	PUTATIVE	None	4928	68	21	37808819	37838712	1	None	ZNF875
19	HKR1	ENSG00000181666	ENST00000591485	retained_intron	KNOWN	None	4928	None	None	37808821	37815949	1	None	ZNF875
19	HKR1	ENSG00000181666	ENST00000589801	protein_coding	KNOWN	None	4928	113	36	37808941	37835699	1	None	ZNF875
19	HKR1	ENSG00000181666	ENST00000592768	protein_coding	PUTATIVE	None	4928	321	106	37825526	37853201	1	None	ZNF875
19	HKR1	ENSG00000181666	ENST00000591417	protein_coding	PUTATIVE	None	4928	276	91	37825542	37853048	1	None	ZNF875
19	HKR1	ENSG00000181666	ENST00000585623	protein_coding	PUTATIVE	None	4928	231	76	37825558	37853111	1	None	ZNF875
19	HKR1	ENSG00000181666	ENST00000592168	protein_coding	PUTATIVE	None	4928	165	54	37825559	37853076	1	None	ZNF875
19	HKR1	ENSG00000181666	ENST00000591391	protein_coding	NOVEL	None	4928	382	126	37825560	37853175	1	None	ZNF875
19	HKR1	ENSG00000181666	ENST00000392153	protein_coding	KNOWN	None	4928	1923	640	37825568	37855353	1	None	ZNF875
19	HKR1	ENSG00000181666	ENST00000590386	processed_transcript	KNOWN	None	4928	None	None	37825573	37837577	1	None	ZNF875
19	HKR1	ENSG00000181666	ENST00000587437	nonsense_mediated_decay	KNOWN	None	4928	126	41	37825573	37838741	1	None	ZNF875
19	HKR1	ENSG00000181666	ENST00000589392	protein_coding	PUTATIVE	None	4928	1926	641	37825573	37854766	1	None	ZNF875
19	HKR1	ENSG00000181666	ENST00000324411	protein_coding	KNOWN	CCDS12502	4928	1980	659	37825580	37855357	1	None	ZNF875
19	HKR1	ENSG00000181666	ENST00000591259	protein_coding	PUTATIVE	None	4928	516	171	37825614	37850678	1	None	ZNF875
19	HKR1	ENSG00000181666	ENST00000590582	protein_coding	PUTATIVE	None	4928	396	131	37825630	37848941	1	None	ZNF875
19	HKR1	ENSG00000181666	ENST00000541583	protein_coding	PUTATIVE	None	4928	1797	598	37837199	37855349	1	None	ZNF875
19	HKR1	ENSG00000181666	ENST00000591134	protein_coding	PUTATIVE	None	4928	141	46	37837258	37860267	1	None	ZNF875
19	HKR1	ENSG00000181666	ENST00000590166	protein_coding	PUTATIVE	None	4928	65	20	37837674	37838709	1	None	ZNF875
19	HKR1	ENSG00000181666	ENST00000586897	protein_coding	PUTATIVE	None	4928	276	91	37838092	37853176	1	None	ZNF875
19	HKR1	ENSG00000181666	ENST00000590570	retained_intron	KNOWN	None	4928	None	None	37838465	37853198	1	None	ZNF875
19	HKR1	ENSG00000181666	ENST00000588820	retained_intron	KNOWN	None	4928	None	None	37852870	37854831	1	None	ZNF875
1	ST6GALNAC5	ENSG00000117069	ENST00000477717	protein_coding	KNOWN	CCDS673	19342	1011	336	77333126	77531396	1	SIAT7E	MGC3184, ST6GalNAcV
1	ST6GALNAC5	ENSG00000117069	ENST00000480428	processed_transcript	PUTATIVE	None	19342	None	None	77333165	77337068	1	SIAT7E	MGC3184, ST6GalNAcV
1	ST6GALNAC5	ENSG00000117069	ENST00000318803	nonsense_mediated_decay	KNOWN	None	19342	711	236	77333165	77529743	1	SIAT7E	MGC3184, ST6GalNAcV
1	ST6GALNAC5	ENSG00000117069	ENST00000496845	processed_transcript	PUTATIVE	None	19342	None	None	77333167	77334759	1	SIAT7E	MGC3184, ST6GalNAcV
1	ST6GALNAC5	ENSG00000117069	ENST00000488940	processed_transcript	KNOWN	None	19342	None	None	77461142	77516001	1	SIAT7E	MGC3184, ST6GalNAcV
16	SLC38A8	ENSG00000166558	ENST00000568003	retained_intron	KNOWN	None	32434	None	None	84043272	84050361	-1	None	None
16	SLC38A8	ENSG00000166558	ENST00000299709	protein_coding	KNOWN	CCDS32495	32434	1308	435	84043389	84075762	-1	None	None
16	SLC38A8	ENSG00000166558	ENST00000568178	protein_coding	KNOWN	None	32434	786	261	84056399	84076241	-1	None	None
16	SLC38A8	ENSG00000166558	ENST00000569816	protein_coding	PUTATIVE	None	32434	138	45	84066986	84074961	-1	None	None
2	CCNYL1	ENSG00000163249	ENST00000392209	protein_coding	KNOWN	CCDS2377	26868	870	289	208576264	208619189	1	None	FLJ40432
2	CCNYL1	ENSG00000163249	ENST00000420822	protein_coding	PUTATIVE	None	26868	306	101	208576372	208579548	1	None	FLJ40432
2	CCNYL1	ENSG00000163249	ENST00000295414	protein_coding	KNOWN	None	26868	1080	359	208576410	208620898	1	None	FLJ40432
2	CCNYL1	ENSG00000163249	ENST00000339882	protein_coding	KNOWN	CCDS46503	26868	927	308	208576475	208619968	1	None	FLJ40432
2	CCNYL1	ENSG00000163249	ENST00000452312	nonsense_mediated_decay	KNOWN	None	26868	358	118	208576824	208615838	1	None	FLJ40432
2	CCNYL1	ENSG00000163249	ENST00000420321	protein_coding	PUTATIVE	None	26868	444	147	208606998	208626563	1	None	FLJ40432
2	CCNYL1	ENSG00000163249	ENST00000468768	processed_transcript	PUTATIVE	None	26868	None	None	208615409	208618599	1	None	FLJ40432
1	ZNF670	ENSG00000135747	ENST00000465049	nonsense_mediated_decay	KNOWN	None	28167	414	137	247108849	247242038	-1	None	MGC12466
1	ZNF670	ENSG00000135747	ENST00000474541	nonsense_mediated_decay	KNOWN	None	28167	357	118	247130964	247242113	-1	None	MGC12466
1	ZNF670	ENSG00000135747	ENST00000366503	protein_coding	KNOWN	CCDS31087	28167	1170	389	247200086	247242057	-1	None	MGC12466
11	None	ENSG00000254732	ENST00000531074	nonsense_mediated_decay	KNOWN	None	None	55	17	57509635	57560715	1	None	None
1	PIGK	ENSG00000142892	ENST00000370812	protein_coding	KNOWN	CCDS674	8965	1188	395	77554675	77685111	-1	None	hGPI8, GPI8
1	PIGK	ENSG00000142892	ENST00000445065	protein_coding	KNOWN	None	8965	906	301	77554675	77685115	-1	None	hGPI8, GPI8
1	PIGK	ENSG00000142892	ENST00000487906	nonsense_mediated_decay	KNOWN	None	8965	84	27	77557887	77635004	-1	None	hGPI8, GPI8
1	PIGK	ENSG00000142892	ENST00000359130	protein_coding	KNOWN	None	8965	999	332	77619221	77685114	-1	None	hGPI8, GPI8
1	PIGK	ENSG00000142892	ENST00000478391	processed_transcript	KNOWN	None	8965	None	None	77620179	77685111	-1	None	hGPI8, GPI8
1	PIGK	ENSG00000142892	ENST00000370813	protein_coding	KNOWN	None	8965	960	319	77557690	77685115	-1	None	hGPI8, GPI8
17	CENPV	ENSG00000166582	ENST00000472570	retained_intron	KNOWN	None	29920	None	None	16245848	16248056	-1	PRR6	p30, CENP-V
17	CENPV	ENSG00000166582	ENST00000476243	protein_coding	KNOWN	None	29920	357	118	16245848	16256770	-1	PRR6	p30, CENP-V
17	CENPV	ENSG00000166582	ENST00000299736	protein_coding	KNOWN	CCDS32575	29920	819	272	16245848	16256813	-1	PRR6	p30, CENP-V
17	CENPV	ENSG00000166582	ENST00000482983	nonsense_mediated_decay	KNOWN	None	29920	45	14	16246188	16253270	-1	PRR6	p30, CENP-V
17	CENPV	ENSG00000166582	ENST00000582062	retained_intron	KNOWN	None	29920	None	None	16252816	16256970	-1	PRR6	p30, CENP-V
17	CENPV	ENSG00000166582	ENST00000584214	retained_intron	KNOWN	None	29920	None	None	16253028	16256759	-1	PRR6	p30, CENP-V
1	IFI16	ENSG00000163565	ENST00000566111	protein_coding	KNOWN	None	5395	249	82	158969758	158984719	1	None	IFNGIP1, PYHIN2
1	IFI16	ENSG00000163565	ENST00000426592	protein_coding	KNOWN	None	5395	502	166	158975752	158986443	1	None	IFNGIP1, PYHIN2
1	IFI16	ENSG00000163565	ENST00000447473	protein_coding	KNOWN	None	5395	541	179	158978785	158986482	1	None	IFNGIP1, PYHIN2
1	IFI16	ENSG00000163565	ENST00000368131	protein_coding	KNOWN	CCDS1180	5395	2190	729	158979682	159024945	1	None	IFNGIP1, PYHIN2
1	IFI16	ENSG00000163565	ENST00000368132	protein_coding	KNOWN	None	5395	2190	729	158979708	159024941	1	None	IFNGIP1, PYHIN2
1	IFI16	ENSG00000163565	ENST00000493884	retained_intron	KNOWN	None	5395	None	None	158979708	159024941	1	None	IFNGIP1, PYHIN2
1	IFI16	ENSG00000163565	ENST00000483916	retained_intron	KNOWN	None	5395	None	None	158979708	159024941	1	None	IFNGIP1, PYHIN2
1	IFI16	ENSG00000163565	ENST00000295809	protein_coding	KNOWN	None	5395	2358	785	158979717	159024945	1	None	IFNGIP1, PYHIN2
1	IFI16	ENSG00000163565	ENST00000359709	protein_coding	NOVEL	CCDS58039	5395	2190	729	158979800	159024938	1	None	IFNGIP1, PYHIN2
1	IFI16	ENSG00000163565	ENST00000448393	protein_coding	NOVEL	None	5395	2022	673	158984471	159024914	1	None	IFNGIP1, PYHIN2
1	IFI16	ENSG00000163565	ENST00000567661	protein_coding	PUTATIVE	None	5395	223	73	158985463	158988166	1	None	IFNGIP1, PYHIN2
1	IFI16	ENSG00000163565	ENST00000474473	protein_coding	PUTATIVE	None	5395	687	228	158985463	158990319	1	None	IFNGIP1, PYHIN2
1	IFI16	ENSG00000163565	ENST00000562225	retained_intron	KNOWN	None	5395	None	None	159002294	159024918	1	None	IFNGIP1, PYHIN2
1	IFI16	ENSG00000163565	ENST00000430894	protein_coding	KNOWN	None	5395	2202	733	158979800	159024938	1	None	IFNGIP1, PYHIN2
1	IFI16	ENSG00000163565	ENST00000340979	protein_coding	KNOWN	None	5395	2022	673	158979682	159024943	1	None	IFNGIP1, PYHIN2
11	BTBD18	ENSG00000233436	ENST00000436147	protein_coding	KNOWN	CCDS44603	37214	2139	712	57510986	57518848	-1	None	None
11	BTBD18	ENSG00000233436	ENST00000527995	protein_coding	KNOWN	None	37214	268	88	57513477	57519253	-1	None	None
11	BTBD18	ENSG00000233436	ENST00000422652	protein_coding	KNOWN	CCDS44603	37214	2139	712	57510990	57519253	-1	None	None
2	FZD5	ENSG00000163251	ENST00000295417	protein_coding	KNOWN	CCDS33366	4043	1758	585	208627310	208634287	-1	C2orf31	HFZ5, DKFZP434E2135
8	PYCRL	ENSG00000104524	ENST00000220966	protein_coding	KNOWN	CCDS6407	25846	861	286	144686083	144691784	-1	None	FLJ13852
8	PYCRL	ENSG00000104524	ENST00000447926	nonsense_mediated_decay	KNOWN	None	25846	135	44	144687505	144691739	-1	None	FLJ13852
8	PYCRL	ENSG00000104524	ENST00000433751	protein_coding	NOVEL	None	25846	786	261	144687656	144691739	-1	None	FLJ13852
8	PYCRL	ENSG00000104524	ENST00000495276	processed_transcript	KNOWN	None	25846	None	None	144687717	144691943	-1	None	FLJ13852
8	PYCRL	ENSG00000104524	ENST00000462036	processed_transcript	KNOWN	None	25846	None	None	144688286	144690619	-1	None	FLJ13852
8	PYCRL	ENSG00000104524	ENST00000482616	retained_intron	KNOWN	None	25846	None	None	144688638	144691727	-1	None	FLJ13852
8	PYCRL	ENSG00000104524	ENST00000377579	protein_coding	KNOWN	None	25846	414	137	144687505	144691739	-1	None	FLJ13852
6	DDAH2	ENSG00000213722	ENST00000437288	protein_coding	KNOWN	None	2716	565	187	31694815	31696654	-1	None	None
6	DDAH2	ENSG00000213722	ENST00000469963	retained_intron	KNOWN	None	2716	None	None	31694815	31697284	-1	None	None
6	DDAH2	ENSG00000213722	ENST00000375789	protein_coding	KNOWN	CCDS4718	2716	858	285	31694815	31697569	-1	None	None
6	DDAH2	ENSG00000213722	ENST00000480913	processed_transcript	KNOWN	None	2716	None	None	31694815	31698004	-1	None	None
6	DDAH2	ENSG00000213722	ENST00000483792	processed_transcript	KNOWN	None	2716	None	None	31694815	31698039	-1	None	None
6	DDAH2	ENSG00000213722	ENST00000375787	protein_coding	KNOWN	CCDS4718	2716	858	285	31694815	31698040	-1	None	None
6	DDAH2	ENSG00000213722	ENST00000375792	protein_coding	KNOWN	CCDS4718	2716	858	285	31694815	31698394	-1	None	None
6	DDAH2	ENSG00000213722	ENST00000416410	protein_coding	KNOWN	None	2716	709	235	31695352	31697573	-1	None	None
6	DDAH2	ENSG00000213722	ENST00000436437	protein_coding	KNOWN	None	2716	678	225	31695383	31697278	-1	None	None
6	DDAH2	ENSG00000213722	ENST00000488119	retained_intron	KNOWN	None	2716	None	None	31695958	31698022	-1	None	None
5	FOXI1	ENSG00000168269	ENST00000306268	protein_coding	KNOWN	CCDS4372	3815	1137	378	169532901	169536407	1	FKHL10	FREAC6
5	FOXI1	ENSG00000168269	ENST00000449804	protein_coding	KNOWN	CCDS47337	3815	852	283	169532917	169536727	1	FKHL10	FREAC6
1	ZNF695	ENSG00000197472	ENST00000479214	nonsense_mediated_decay	KNOWN	None	30954	366	121	247108849	247171358	-1	None	SBZF3
1	ZNF695	ENSG00000197472	ENST00000366504	nonsense_mediated_decay	KNOWN	None	30954	402	133	247108851	247171301	-1	None	SBZF3
1	ZNF695	ENSG00000197472	ENST00000491337	nonsense_mediated_decay	KNOWN	None	30954	267	88	247108921	247171358	-1	None	SBZF3
1	ZNF695	ENSG00000197472	ENST00000487338	protein_coding	KNOWN	CCDS55694	30954	519	172	247108977	247171395	-1	None	SBZF3
1	ZNF695	ENSG00000197472	ENST00000498046	processed_transcript	KNOWN	None	30954	None	None	247108980	247171328	-1	None	SBZF3
1	ZNF695	ENSG00000197472	ENST00000339986	protein_coding	KNOWN	CCDS44344	30954	1548	515	247148625	247171358	-1	None	SBZF3
11	INTS5	ENSG00000185085	ENST00000330574	protein_coding	KNOWN	CCDS8027	29352	3060	1019	62414320	62420774	-1	KIAA1698	INT5
X	H2AFB1	ENSG00000198082	ENST00000354461	protein_coding	KNOWN	CCDS35458	22516	348	115	154113317	154113833	1	None	None
X	F8A1	ENSG00000197932	ENST00000369446	protein_coding	KNOWN	CCDS35459	3547	1116	371	154114635	154116335	1	F8A	DXS522E
10	VIM	ENSG00000026025	ENST00000478317	processed_transcript	KNOWN	None	12692	None	None	17270258	17271949	1	None	None
10	VIM	ENSG00000026025	ENST00000478746	processed_transcript	KNOWN	None	12692	None	None	17270514	17271869	1	None	None
10	VIM	ENSG00000026025	ENST00000497849	processed_transcript	KNOWN	None	12692	None	None	17270868	17271749	1	None	None
10	VIM	ENSG00000026025	ENST00000224237	protein_coding	KNOWN	CCDS7120	12692	1401	466	17271277	17279592	1	None	None
10	VIM	ENSG00000026025	ENST00000487938	nonsense_mediated_decay	KNOWN	None	12692	1296	431	17271277	17279592	1	None	None
10	VIM	ENSG00000026025	ENST00000485947	processed_transcript	KNOWN	None	12692	None	None	17271290	17273092	1	None	None
10	VIM	ENSG00000026025	ENST00000469543	nonsense_mediated_decay	KNOWN	None	12692	687	228	17272003	17279592	1	None	None
10	VIM	ENSG00000026025	ENST00000421459	protein_coding	KNOWN	None	12692	522	173	17272608	17277084	1	None	None
10	VIM	ENSG00000026025	ENST00000495528	processed_transcript	KNOWN	None	12692	None	None	17275224	17277033	1	None	None
10	VIM	ENSG00000026025	ENST00000544301	protein_coding	KNOWN	CCDS7120	12692	1401	466	17270258	17279584	1	None	None
8	DCTN6	ENSG00000104671	ENST00000221114	protein_coding	KNOWN	CCDS6076	16964	573	190	30013813	30041156	1	None	WS-3
8	DCTN6	ENSG00000104671	ENST00000522141	nonsense_mediated_decay	KNOWN	None	16964	141	46	30013835	30040977	1	None	WS-3
8	DCTN6	ENSG00000104671	ENST00000522540	retained_intron	KNOWN	None	16964	None	None	30013885	30035010	1	None	WS-3
8	DCTN6	ENSG00000104671	ENST00000520829	protein_coding	PUTATIVE	None	16964	513	170	30013885	30038537	1	None	WS-3
8	DCTN6	ENSG00000104671	ENST00000523666	nonsense_mediated_decay	KNOWN	None	16964	222	73	30013886	30041069	1	None	WS-3
8	DCTN6	ENSG00000104671	ENST00000519830	nonsense_mediated_decay	KNOWN	None	16964	114	37	30013891	30038017	1	None	WS-3
2	PLEKHM3	ENSG00000178385	ENST00000427836	protein_coding	KNOWN	CCDS42808	34006	2286	761	208693027	208890284	-1	PLEKHM1L	DAPR
2	PLEKHM3	ENSG00000178385	ENST00000447645	protein_coding	KNOWN	None	34006	1408	468	208715962	208842174	-1	PLEKHM1L	DAPR
2	PLEKHM3	ENSG00000178385	ENST00000457206	protein_coding	PUTATIVE	None	34006	2019	672	208764765	208890222	-1	PLEKHM1L	DAPR
2	PLEKHM3	ENSG00000178385	ENST00000389247	protein_coding	KNOWN	None	34006	2154	717	208717514	208890284	-1	PLEKHM1L	DAPR
1	AK5	ENSG00000154027	ENST00000354567	protein_coding	KNOWN	CCDS675	365	1689	562	77747736	78025651	1	None	None
1	AK5	ENSG00000154027	ENST00000317704	processed_transcript	KNOWN	None	365	None	None	77747743	77780745	1	None	None
1	AK5	ENSG00000154027	ENST00000344720	protein_coding	KNOWN	CCDS676	365	1611	536	77748287	78025647	1	None	None
1	AK5	ENSG00000154027	ENST00000478407	protein_coding	KNOWN	None	365	530	175	77748764	77763541	1	None	None
1	AK5	ENSG00000154027	ENST00000469394	retained_intron	KNOWN	None	365	None	None	77759215	77763375	1	None	None
1	AK5	ENSG00000154027	ENST00000466114	retained_intron	KNOWN	None	365	None	None	77759478	77763710	1	None	None
1	AK5	ENSG00000154027	ENST00000524494	retained_intron	KNOWN	None	365	None	None	77763540	77806566	1	None	None
1	AK5	ENSG00000154027	ENST00000465146	retained_intron	KNOWN	None	365	None	None	77806090	77883534	1	None	None
1	AK5	ENSG00000154027	ENST00000530826	processed_transcript	KNOWN	None	365	None	None	77837063	78001570	1	None	None
1	AK5	ENSG00000154027	ENST00000527263	nonsense_mediated_decay	KNOWN	None	365	188	61	77883378	78024414	1	None	None
1	AK5	ENSG00000154027	ENST00000478255	protein_coding	PUTATIVE	None	365	234	77	77997792	78024416	1	None	None
1	AK5	ENSG00000154027	ENST00000466393	processed_transcript	PUTATIVE	None	365	None	None	78006181	78024416	1	None	None
1	AK5	ENSG00000154027	ENST00000531672	processed_transcript	PUTATIVE	None	365	None	None	78022930	78024421	1	None	None
1	ZNF669	ENSG00000188295	ENST00000448299	protein_coding	KNOWN	CCDS44345	25736	1137	378	247263264	247267670	-1	None	FLJ12606
1	ZNF669	ENSG00000188295	ENST00000343381	protein_coding	KNOWN	CCDS31088	25736	1395	464	247263293	247267674	-1	None	FLJ12606
1	ZNF669	ENSG00000188295	ENST00000366501	protein_coding	PUTATIVE	None	25736	186	61	247264158	247267580	-1	None	FLJ12606
1	ZNF669	ENSG00000188295	ENST00000366500	protein_coding	PUTATIVE	None	25736	216	71	247264353	247267591	-1	None	FLJ12606
1	ZNF669	ENSG00000188295	ENST00000476158	protein_coding	PUTATIVE	None	25736	418	138	247264592	247267667	-1	None	FLJ12606
1	ZNF669	ENSG00000188295	ENST00000358785	protein_coding	KNOWN	None	25736	474	157	247263264	247267674	-1	None	FLJ12606
1	AIM2	ENSG00000163568	ENST00000368130	protein_coding	KNOWN	CCDS1181	357	1032	343	159032274	159046691	-1	None	PYHIN4
1	AIM2	ENSG00000163568	ENST00000481829	processed_transcript	KNOWN	None	357	None	None	159033322	159043055	-1	None	PYHIN4
1	AIM2	ENSG00000163568	ENST00000368129	protein_coding	KNOWN	None	357	501	166	159033369	159110298	-1	None	PYHIN4
1	AIM2	ENSG00000163568	ENST00000411768	protein_coding	KNOWN	None	357	410	135	159036106	159116886	-1	None	PYHIN4
5	CEP72	ENSG00000112877	ENST00000264935	protein_coding	KNOWN	CCDS34126	25547	1944	647	612387	653668	1	None	KIAA1519, FLJ10565
5	CEP72	ENSG00000112877	ENST00000512038	retained_intron	KNOWN	None	25547	None	None	644253	653358	1	None	KIAA1519, FLJ10565
5	CEP72	ENSG00000112877	ENST00000499639	processed_transcript	PUTATIVE	None	25547	None	None	653141	657208	1	None	KIAA1519, FLJ10565
5	CEP72	ENSG00000112877	ENST00000514507	processed_transcript	KNOWN	None	25547	None	None	655570	667283	1	None	KIAA1519, FLJ10565
5	CEP72	ENSG00000112877	ENST00000444221	protein_coding	KNOWN	None	25547	582	193	612405	653664	1	None	KIAA1519, FLJ10565
2	CRYGD	ENSG00000118231	ENST00000264376	protein_coding	KNOWN	CCDS2378	2411	525	174	208986331	208989225	-1	CRYG4	None
7	FKBP6	ENSG00000077800	ENST00000431982	protein_coding	KNOWN	CCDS47604	3722	969	322	72742167	72772555	1	None	PPIase, FKBP36
7	FKBP6	ENSG00000077800	ENST00000442793	protein_coding	NOVEL	None	3722	758	251	72742256	72755381	1	None	PPIase, FKBP36
7	FKBP6	ENSG00000077800	ENST00000413573	protein_coding	NOVEL	None	3722	894	297	72742278	72772634	1	None	PPIase, FKBP36
7	FKBP6	ENSG00000077800	ENST00000445032	nonsense_mediated_decay	KNOWN	None	3722	306	101	72742315	72772634	1	None	PPIase, FKBP36
7	FKBP6	ENSG00000077800	ENST00000429879	nonsense_mediated_decay	KNOWN	None	3722	600	199	72742336	72755296	1	None	PPIase, FKBP36
7	FKBP6	ENSG00000077800	ENST00000437013	retained_intron	KNOWN	None	3722	None	None	72742349	72743592	1	None	PPIase, FKBP36
7	FKBP6	ENSG00000077800	ENST00000252037	protein_coding	KNOWN	CCDS43595	3722	984	327	72742363	72772634	1	None	PPIase, FKBP36
11	ATG16L2	ENSG00000168010	ENST00000321297	protein_coding	KNOWN	CCDS31634	25464	1860	619	72525353	72540680	1	None	FLJ00012, WDR80, ATG16B
11	ATG16L2	ENSG00000168010	ENST00000534905	protein_coding	PUTATIVE	None	25464	495	164	72525451	72554719	1	None	FLJ00012, WDR80, ATG16B
11	ATG16L2	ENSG00000168010	ENST00000435507	nonsense_mediated_decay	KNOWN	None	25464	366	121	72525460	72540678	1	None	FLJ00012, WDR80, ATG16B
11	ATG16L2	ENSG00000168010	ENST00000439504	retained_intron	KNOWN	None	25464	None	None	72525464	72540680	1	None	FLJ00012, WDR80, ATG16B
11	ATG16L2	ENSG00000168010	ENST00000537143	processed_transcript	KNOWN	None	25464	None	None	72525470	72534072	1	None	FLJ00012, WDR80, ATG16B
11	ATG16L2	ENSG00000168010	ENST00000542908	retained_intron	KNOWN	None	25464	None	None	72525470	72534731	1	None	FLJ00012, WDR80, ATG16B
11	ATG16L2	ENSG00000168010	ENST00000544490	nonsense_mediated_decay	KNOWN	None	25464	321	106	72525472	72540678	1	None	FLJ00012, WDR80, ATG16B
11	ATG16L2	ENSG00000168010	ENST00000540567	protein_coding	PUTATIVE	None	25464	353	116	72525477	72530060	1	None	FLJ00012, WDR80, ATG16B
11	ATG16L2	ENSG00000168010	ENST00000451353	processed_transcript	PUTATIVE	None	25464	None	None	72526932	72528826	1	None	FLJ00012, WDR80, ATG16B
11	ATG16L2	ENSG00000168010	ENST00000538842	processed_transcript	PUTATIVE	None	25464	None	None	72527790	72531383	1	None	FLJ00012, WDR80, ATG16B
11	ATG16L2	ENSG00000168010	ENST00000536995	retained_intron	KNOWN	None	25464	None	None	72532933	72540678	1	None	FLJ00012, WDR80, ATG16B
11	ATG16L2	ENSG00000168010	ENST00000537212	retained_intron	KNOWN	None	25464	None	None	72533234	72534540	1	None	FLJ00012, WDR80, ATG16B
11	ATG16L2	ENSG00000168010	ENST00000541999	nonsense_mediated_decay	KNOWN	None	25464	297	98	72533279	72536437	1	None	FLJ00012, WDR80, ATG16B
11	ATG16L2	ENSG00000168010	ENST00000535830	protein_coding	PUTATIVE	None	25464	963	320	72533367	72538317	1	None	FLJ00012, WDR80, ATG16B
11	ATG16L2	ENSG00000168010	ENST00000538973	protein_coding	PUTATIVE	None	25464	1251	416	72533386	72540640	1	None	FLJ00012, WDR80, ATG16B
11	ATG16L2	ENSG00000168010	ENST00000541367	protein_coding	PUTATIVE	None	25464	1353	450	72533386	72540657	1	None	FLJ00012, WDR80, ATG16B
11	ATG16L2	ENSG00000168010	ENST00000545248	retained_intron	KNOWN	None	25464	None	None	72533476	72534331	1	None	FLJ00012, WDR80, ATG16B
11	ATG16L2	ENSG00000168010	ENST00000540222	protein_coding	PUTATIVE	None	25464	1192	396	72533484	72540643	1	None	FLJ00012, WDR80, ATG16B
11	ATG16L2	ENSG00000168010	ENST00000537837	nonsense_mediated_decay	KNOWN	None	25464	224	73	72533522	72537288	1	None	FLJ00012, WDR80, ATG16B
11	ATG16L2	ENSG00000168010	ENST00000541554	protein_coding	NOVEL	None	25464	295	97	72533528	72539523	1	None	FLJ00012, WDR80, ATG16B
11	ATG16L2	ENSG00000168010	ENST00000542481	retained_intron	KNOWN	None	25464	None	None	72534940	72537779	1	None	FLJ00012, WDR80, ATG16B
1	C1orf229	ENSG00000221953	ENST00000408893	protein_coding	KNOWN	CCDS1630	33759	714	237	247273462	247275719	-1	None	FLJ45717
2	CRYGC	ENSG00000163254	ENST00000282141	protein_coding	KNOWN	CCDS2379	2410	525	174	208992861	208994554	-1	CRYG3	None
2	CRYGB	ENSG00000182187	ENST00000260988	protein_coding	KNOWN	CCDS2380	2409	528	175	209007297	209010892	-1	CRYG2	None
19	KANK3	ENSG00000186994	ENST00000330915	protein_coding	KNOWN	CCDS12199	24796	2466	821	8387468	8408146	-1	ANKRD47	FLJ46061
19	KANK3	ENSG00000186994	ENST00000593649	protein_coding	KNOWN	None	24796	2523	840	8388199	8408146	-1	ANKRD47	FLJ46061
19	KANK3	ENSG00000186994	ENST00000595639	protein_coding	NOVEL	None	24796	440	145	8398101	8408146	-1	ANKRD47	FLJ46061
19	KANK3	ENSG00000186994	ENST00000593331	retained_intron	KNOWN	None	24796	None	None	8398997	8399666	-1	ANKRD47	FLJ46061
11	None	ENSG00000255432	ENST00000528405	protein_coding	PUTATIVE	None	None	300	99	62417166	62432650	-1	None	None
2	CRYGA	ENSG00000168582	ENST00000304502	protein_coding	KNOWN	CCDS33367	2408	525	174	209025464	209028300	-1	CRYG1	CRYG5, CRY-g-A
8	SPAG1	ENSG00000104450	ENST00000520643	protein_coding	PUTATIVE	None	11212	1251	416	101170134	101206908	1	None	SP75, FLJ32920, HSD-3.8, TPIS
8	SPAG1	ENSG00000104450	ENST00000520508	protein_coding	PUTATIVE	None	11212	1251	416	101170563	101206912	1	None	SP75, FLJ32920, HSD-3.8, TPIS
8	SPAG1	ENSG00000104450	ENST00000388798	protein_coding	KNOWN	CCDS34930	11212	2781	926	101170656	101254130	1	None	SP75, FLJ32920, HSD-3.8, TPIS
8	SPAG1	ENSG00000104450	ENST00000523302	processed_transcript	KNOWN	None	11212	None	None	101225315	101243512	1	None	SP75, FLJ32920, HSD-3.8, TPIS
8	SPAG1	ENSG00000104450	ENST00000519424	retained_intron	KNOWN	None	11212	None	None	101245399	101252743	1	None	SP75, FLJ32920, HSD-3.8, TPIS
8	SPAG1	ENSG00000104450	ENST00000519409	processed_transcript	KNOWN	None	11212	None	None	101252787	101271506	1	None	SP75, FLJ32920, HSD-3.8, TPIS
8	SPAG1	ENSG00000104450	ENST00000251809	protein_coding	KNOWN	CCDS34930	11212	2781	926	101170263	101254130	1	None	SP75, FLJ32920, HSD-3.8, TPIS
17	TBCD	ENSG00000141556	ENST00000355528	protein_coding	KNOWN	CCDS45818	11581	3579	1192	80709940	80900724	1	None	None
17	TBCD	ENSG00000141556	ENST00000539345	protein_coding	NOVEL	None	11581	3693	1230	80710034	80900585	1	None	None
17	TBCD	ENSG00000141556	ENST00000576160	protein_coding	PUTATIVE	None	11581	425	140	80816395	80879386	1	None	None
17	TBCD	ENSG00000141556	ENST00000571712	protein_coding	PUTATIVE	None	11581	353	116	80816472	80879452	1	None	None
17	TBCD	ENSG00000141556	ENST00000576996	protein_coding	PUTATIVE	None	11581	403	133	80818270	80878482	1	None	None
17	TBCD	ENSG00000141556	ENST00000574801	processed_transcript	KNOWN	None	11581	None	None	80822167	80869665	1	None	None
17	TBCD	ENSG00000141556	ENST00000571316	protein_coding	PUTATIVE	None	11581	714	237	80842028	80872029	1	None	None
17	TBCD	ENSG00000141556	ENST00000576760	protein_coding	PUTATIVE	None	11581	770	255	80842677	80884352	1	None	None
17	TBCD	ENSG00000141556	ENST00000572984	protein_coding	PUTATIVE	None	11581	328	108	80843960	80869641	1	None	None
17	TBCD	ENSG00000141556	ENST00000574975	protein_coding	PUTATIVE	None	11581	755	250	80850940	80882932	1	None	None
17	TBCD	ENSG00000141556	ENST00000572953	protein_coding	PUTATIVE	None	11581	634	210	80850984	80879451	1	None	None
17	TBCD	ENSG00000141556	ENST00000571796	retained_intron	KNOWN	None	11581	None	None	80853701	80887667	1	None	None
17	TBCD	ENSG00000141556	ENST00000574422	protein_coding	PUTATIVE	None	11581	733	243	80858418	80884315	1	None	None
17	TBCD	ENSG00000141556	ENST00000571618	processed_transcript	KNOWN	None	11581	None	None	80866153	80885187	1	None	None
17	TBCD	ENSG00000141556	ENST00000574818	retained_intron	KNOWN	None	11581	None	None	80878336	80887008	1	None	None
17	TBCD	ENSG00000141556	ENST00000574886	retained_intron	KNOWN	None	11581	None	None	80878892	80885089	1	None	None
17	TBCD	ENSG00000141556	ENST00000570679	retained_intron	KNOWN	None	11581	None	None	80884742	80887135	1	None	None
17	TBCD	ENSG00000141556	ENST00000577051	protein_coding	NOVEL	None	11581	783	260	80887014	80900535	1	None	None
17	TBCD	ENSG00000141556	ENST00000576677	retained_intron	KNOWN	None	11581	None	None	80887301	80900580	1	None	None
17	TBCD	ENSG00000141556	ENST00000575132	retained_intron	KNOWN	None	11581	None	None	80888334	80899309	1	None	None
17	TBCD	ENSG00000141556	ENST00000576603	processed_transcript	KNOWN	None	11581	None	None	80889825	80900447	1	None	None
17	TBCD	ENSG00000141556	ENST00000573364	retained_intron	KNOWN	None	11581	None	None	80890563	80895723	1	None	None
17	TBCD	ENSG00000141556	ENST00000576432	retained_intron	KNOWN	None	11581	None	None	80895092	80900580	1	None	None
17	TBCD	ENSG00000141556	ENST00000576691	processed_transcript	KNOWN	None	11581	None	None	80895446	80900580	1	None	None
17	TBCD	ENSG00000141556	ENST00000572389	retained_intron	KNOWN	None	11581	None	None	80896918	80900580	1	None	None
17	TBCD	ENSG00000141556	ENST00000572794	protein_coding	PUTATIVE	None	11581	206	67	80897277	80900578	1	None	None
17	TBCD	ENSG00000141556	ENST00000397466	protein_coding	KNOWN	None	11581	936	311	80709961	80866283	1	None	None
1	ZNF124	ENSG00000196418	ENST00000472531	protein_coding	KNOWN	CCDS58067	12907	222	73	247285277	247335307	-1	None	HZF16, HZF-16
1	ZNF124	ENSG00000196418	ENST00000476312	processed_transcript	KNOWN	None	12907	None	None	247286805	247313252	-1	None	HZF16, HZF-16
1	ZNF124	ENSG00000196418	ENST00000491356	protein_coding	PUTATIVE	None	12907	234	77	247301447	247335304	-1	None	HZF16, HZF-16
1	ZNF124	ENSG00000196418	ENST00000482970	processed_transcript	KNOWN	None	12907	None	None	247301966	247335305	-1	None	HZF16, HZF-16
1	ZNF124	ENSG00000196418	ENST00000340684	protein_coding	KNOWN	CCDS31089	12907	870	289	247319203	247335318	-1	None	HZF16, HZF-16
1	ZNF124	ENSG00000196418	ENST00000543802	protein_coding	KNOWN	None	12907	1056	351	247319722	247335269	-1	None	HZF16, HZF-16
1	ZNF124	ENSG00000196418	ENST00000491848	processed_transcript	KNOWN	None	12907	None	None	247320219	247335307	-1	None	HZF16, HZF-16
X	FUNDC2	ENSG00000165775	ENST00000475165	processed_transcript	KNOWN	None	24925	None	None	154254255	154280007	1	None	HCBP6, DC44
X	FUNDC2	ENSG00000165775	ENST00000369498	protein_coding	KNOWN	CCDS14763	24925	570	189	154254960	154288578	1	None	HCBP6, DC44
X	FUNDC2	ENSG00000165775	ENST00000484175	processed_transcript	KNOWN	None	24925	None	None	154255428	154282956	1	None	HCBP6, DC44
X	FUNDC2	ENSG00000165775	ENST00000485289	retained_intron	KNOWN	None	24925	None	None	154261254	154282888	1	None	HCBP6, DC44
X	FUNDC2	ENSG00000165775	ENST00000456179	nonsense_mediated_decay	KNOWN	None	24925	285	94	154261701	154283381	1	None	HCBP6, DC44
X	FUNDC2	ENSG00000165775	ENST00000471528	retained_intron	KNOWN	None	24925	None	None	154275332	154283167	1	None	HCBP6, DC44
X	FUNDC2	ENSG00000165775	ENST00000492303	retained_intron	KNOWN	None	24925	None	None	154277369	154283846	1	None	HCBP6, DC44
1	CADM3	ENSG00000162706	ENST00000368124	protein_coding	KNOWN	CCDS1182	17601	1299	432	159141399	159171802	1	IGSF4B	BIgR, FLJ10698, TSLL1, NECL1, SynCAM3, Necl-1
1	CADM3	ENSG00000162706	ENST00000368125	protein_coding	KNOWN	CCDS44251	17601	1197	398	159141399	159173103	1	IGSF4B	BIgR, FLJ10698, TSLL1, NECL1, SynCAM3, Necl-1
1	CADM3	ENSG00000162706	ENST00000416746	protein_coding	KNOWN	None	17601	704	233	159141549	159166740	1	IGSF4B	BIgR, FLJ10698, TSLL1, NECL1, SynCAM3, Necl-1
1	CADM3	ENSG00000162706	ENST00000497636	processed_transcript	PUTATIVE	None	17601	None	None	159166632	159171118	1	IGSF4B	BIgR, FLJ10698, TSLL1, NECL1, SynCAM3, Necl-1
X	CT45A1	ENSG00000232478	ENST00000370741	protein_coding	KNOWN	CCDS48174	33267	570	189	134847185	134856990	1	None	CT45-1, CT45.1
X	CT45A1	ENSG00000232478	ENST00000497301	nonsense_mediated_decay	KNOWN	CCDS48174	33267	570	189	134847185	134858567	1	None	CT45-1, CT45.1
X	CT45A1	ENSG00000232478	ENST00000482795	processed_transcript	KNOWN	None	33267	None	None	134847370	134857008	1	None	CT45-1, CT45.1
2	C2orf80	ENSG00000188674	ENST00000451342	protein_coding	NOVEL	None	34352	420	139	209030067	209046010	-1	None	LOC389073
2	C2orf80	ENSG00000188674	ENST00000341287	protein_coding	KNOWN	CCDS42809	34352	582	193	209030071	209054797	-1	None	LOC389073
2	C2orf80	ENSG00000188674	ENST00000451346	protein_coding	NOVEL	None	34352	525	174	209030079	209054748	-1	None	LOC389073
2	C2orf80	ENSG00000188674	ENST00000428015	protein_coding	PUTATIVE	None	34352	385	127	209030100	209047748	-1	None	LOC389073
2	C2orf80	ENSG00000188674	ENST00000453017	protein_coding	NOVEL	None	34352	375	124	209030202	209051728	-1	None	LOC389073
2	C2orf80	ENSG00000188674	ENST00000423952	protein_coding	PUTATIVE	None	34352	251	82	209035730	209051740	-1	None	LOC389073
2	C2orf80	ENSG00000188674	ENST00000449053	protein_coding	KNOWN	None	34352	199	65	209047696	209054709	-1	None	LOC389073
16	MBTPS1	ENSG00000140943	ENST00000562906	retained_intron	KNOWN	None	15456	None	None	84087368	84091649	-1	None	S1P, KIAA0091, SKI-1, PCSK8
16	MBTPS1	ENSG00000140943	ENST00000570064	retained_intron	KNOWN	None	15456	None	None	84087371	84109038	-1	None	S1P, KIAA0091, SKI-1, PCSK8
16	MBTPS1	ENSG00000140943	ENST00000343411	protein_coding	KNOWN	CCDS10941	15456	3159	1052	84087371	84150511	-1	None	S1P, KIAA0091, SKI-1, PCSK8
16	MBTPS1	ENSG00000140943	ENST00000562886	retained_intron	KNOWN	None	15456	None	None	84087379	84095236	-1	None	S1P, KIAA0091, SKI-1, PCSK8
16	MBTPS1	ENSG00000140943	ENST00000564049	retained_intron	KNOWN	None	15456	None	None	84092907	84094753	-1	None	S1P, KIAA0091, SKI-1, PCSK8
16	MBTPS1	ENSG00000140943	ENST00000561936	retained_intron	KNOWN	None	15456	None	None	84092908	84094822	-1	None	S1P, KIAA0091, SKI-1, PCSK8
16	MBTPS1	ENSG00000140943	ENST00000568051	processed_transcript	KNOWN	None	15456	None	None	84103624	84105742	-1	None	S1P, KIAA0091, SKI-1, PCSK8
16	MBTPS1	ENSG00000140943	ENST00000564643	retained_intron	KNOWN	None	15456	None	None	84104203	84115774	-1	None	S1P, KIAA0091, SKI-1, PCSK8
16	MBTPS1	ENSG00000140943	ENST00000569770	processed_transcript	KNOWN	None	15456	None	None	84104320	84126891	-1	None	S1P, KIAA0091, SKI-1, PCSK8
16	MBTPS1	ENSG00000140943	ENST00000563231	nonsense_mediated_decay	KNOWN	None	15456	244	80	84104369	84125391	-1	None	S1P, KIAA0091, SKI-1, PCSK8
16	MBTPS1	ENSG00000140943	ENST00000565863	processed_transcript	KNOWN	None	15456	None	None	84109128	84124525	-1	None	S1P, KIAA0091, SKI-1, PCSK8
16	MBTPS1	ENSG00000140943	ENST00000562788	retained_intron	KNOWN	None	15456	None	None	84115137	84118631	-1	None	S1P, KIAA0091, SKI-1, PCSK8
16	MBTPS1	ENSG00000140943	ENST00000570012	protein_coding	PUTATIVE	None	15456	438	145	84118659	84150400	-1	None	S1P, KIAA0091, SKI-1, PCSK8
16	MBTPS1	ENSG00000140943	ENST00000569907	protein_coding	KNOWN	None	15456	49	15	84135340	84150440	-1	None	S1P, KIAA0091, SKI-1, PCSK8
16	MBTPS1	ENSG00000140943	ENST00000567557	processed_transcript	KNOWN	None	15456	None	None	84135406	84150440	-1	None	S1P, KIAA0091, SKI-1, PCSK8
16	MBTPS1	ENSG00000140943	ENST00000564444	processed_transcript	KNOWN	None	15456	None	None	84135503	84150423	-1	None	S1P, KIAA0091, SKI-1, PCSK8
14	PYGL	ENSG00000100504	ENST00000532462	protein_coding	PUTATIVE	None	9725	2460	819	51324609	51411174	-1	None	None
14	PYGL	ENSG00000100504	ENST00000544180	protein_coding	NOVEL	CCDS53894	9725	2442	813	51371936	51411201	-1	None	None
14	PYGL	ENSG00000100504	ENST00000216392	protein_coding	KNOWN	CCDS32080	9725	2544	847	51371939	51411454	-1	None	None
14	PYGL	ENSG00000100504	ENST00000532107	retained_intron	KNOWN	None	9725	None	None	51374860	51378698	-1	None	None
14	PYGL	ENSG00000100504	ENST00000528757	retained_intron	KNOWN	None	9725	None	None	51381908	51382658	-1	None	None
14	PYGL	ENSG00000100504	ENST00000553872	retained_intron	KNOWN	None	9725	None	None	51383734	51388246	-1	None	None
14	PYGL	ENSG00000100504	ENST00000530336	retained_intron	KNOWN	None	9725	None	None	51389955	51411188	-1	None	None
1	ZNF496	ENSG00000162714	ENST00000462139	processed_transcript	KNOWN	None	23713	None	None	247460714	247477154	-1	None	ZKSCAN17, MGC15548, ZSCAN49
1	ZNF496	ENSG00000162714	ENST00000294753	protein_coding	KNOWN	CCDS1631	23713	1764	587	247460714	247495045	-1	None	ZKSCAN17, MGC15548, ZSCAN49
1	ZNF496	ENSG00000162714	ENST00000461277	protein_coding	NOVEL	None	23713	1539	512	247461503	247492547	-1	None	ZKSCAN17, MGC15548, ZSCAN49
1	ZNF496	ENSG00000162714	ENST00000478225	processed_transcript	KNOWN	None	23713	None	None	247491978	247495148	-1	None	ZKSCAN17, MGC15548, ZSCAN49
1	ZNF496	ENSG00000162714	ENST00000477903	processed_transcript	KNOWN	None	23713	None	None	247492030	247495147	-1	None	ZKSCAN17, MGC15548, ZSCAN49
1	ZNF496	ENSG00000162714	ENST00000366498	protein_coding	KNOWN	None	23713	1872	623	247463623	247495045	-1	None	ZKSCAN17, MGC15548, ZSCAN49
14	IRF2BPL	ENSG00000119669	ENST00000238647	protein_coding	KNOWN	CCDS9854	14282	2391	796	77490888	77495034	-1	C14orf4	EAP1, KIAA1865
X	CXorf22	ENSG00000165164	ENST00000297866	protein_coding	KNOWN	CCDS14237	28546	2931	976	35937851	36008264	1	None	MGC34831
X	CXorf22	ENSG00000165164	ENST00000493930	nonsense_mediated_decay	KNOWN	None	28546	2265	754	35937898	36008269	1	None	MGC34831
16	PALB2	ENSG00000083093	ENST00000566069	protein_coding	PUTATIVE	None	26144	131	42	23614488	23632710	-1	None	FLJ21816, FANCN
16	PALB2	ENSG00000083093	ENST00000568219	nonsense_mediated_decay	KNOWN	None	26144	108	35	23614489	23652606	-1	None	FLJ21816, FANCN
16	PALB2	ENSG00000083093	ENST00000261584	protein_coding	KNOWN	CCDS32406	26144	3561	1186	23614491	23652631	-1	None	FLJ21816, FANCN
16	PALB2	ENSG00000083093	ENST00000565038	nonsense_mediated_decay	KNOWN	None	26144	91	29	23635392	23649256	-1	None	FLJ21816, FANCN
16	PALB2	ENSG00000083093	ENST00000567003	nonsense_mediated_decay	KNOWN	None	26144	84	27	23647356	23652622	-1	None	FLJ21816, FANCN
16	PALB2	ENSG00000083093	ENST00000561514	protein_coding	PUTATIVE	None	26144	269	88	23647604	23652172	-1	None	FLJ21816, FANCN
1	DARC	ENSG00000213088	ENST00000368122	protein_coding	KNOWN	CCDS1183	4035	1011	336	159174071	159176290	1	FY	ACKR1, CCBP1, GPD, Dfy, CD234
1	DARC	ENSG00000213088	ENST00000435307	protein_coding	KNOWN	None	4035	465	154	159174709	159175688	1	FY	ACKR1, CCBP1, GPD, Dfy, CD234
1	DARC	ENSG00000213088	ENST00000537147	protein_coding	KNOWN	CCDS1183	4035	1011	336	159173097	159176288	1	FY	ACKR1, CCBP1, GPD, Dfy, CD234
1	DARC	ENSG00000213088	ENST00000368121	protein_coding	KNOWN	CCDS44252	4035	1017	338	159175201	159176288	1	FY	ACKR1, CCBP1, GPD, Dfy, CD234
1	FCER1A	ENSG00000179639	ENST00000368115	protein_coding	KNOWN	CCDS1184	3609	774	257	159259504	159278014	1	FCE1A	None
1	FCER1A	ENSG00000179639	ENST00000368114	protein_coding	NOVEL	None	3609	675	224	159272126	159277783	1	FCE1A	None
14	KIAA1737	ENSG00000198894	ENST00000361786	protein_coding	KNOWN	CCDS9855	20365	1200	399	77564440	77583630	1	None	None
14	KIAA1737	ENSG00000198894	ENST00000555437	protein_coding	PUTATIVE	None	20365	186	61	77564469	77579909	1	None	None
14	KIAA1737	ENSG00000198894	ENST00000556863	retained_intron	KNOWN	None	20365	None	None	77564601	77572433	1	None	None
14	KIAA1737	ENSG00000198894	ENST00000555611	protein_coding	PUTATIVE	None	20365	312	103	77564625	77579888	1	None	None
14	KIAA1737	ENSG00000198894	ENST00000554658	protein_coding	KNOWN	None	20365	404	133	77564655	77579865	1	None	None
14	KIAA1737	ENSG00000198894	ENST00000557115	protein_coding	KNOWN	None	20365	470	155	77564709	77579931	1	None	None
14	KIAA1737	ENSG00000198894	ENST00000554447	protein_coding	KNOWN	None	20365	454	150	77565456	77579915	1	None	None
14	KIAA1737	ENSG00000198894	ENST00000555200	protein_coding	KNOWN	None	20365	424	140	77565519	77579885	1	None	None
5	FAM151B	ENSG00000152380	ENST00000502608	nonsense_mediated_decay	KNOWN	None	33716	204	67	79783788	79806626	1	None	UNQ9217
5	FAM151B	ENSG00000152380	ENST00000282226	protein_coding	KNOWN	CCDS4051	33716	831	276	79783788	79838382	1	None	UNQ9217
5	FAM151B	ENSG00000152380	ENST00000511718	processed_transcript	KNOWN	None	33716	None	None	79783805	79837861	1	None	UNQ9217
5	FAM151B	ENSG00000152380	ENST00000507084	processed_transcript	KNOWN	None	33716	None	None	79783943	79809480	1	None	UNQ9217
5	FAM151B	ENSG00000152380	ENST00000509292	retained_intron	KNOWN	None	33716	None	None	79797624	79818343	1	None	UNQ9217
1	OR10J3	ENSG00000196266	ENST00000332217	protein_coding	KNOWN	CCDS30909	14992	990	329	159283460	159284449	-1	OR10J3P	None
7	COL26A1	ENSG00000160963	ENST00000397927	polymorphic_pseudogene	KNOWN	None	18038	1325	440	101006101	101202304	1	EMID2	Emu2, EMI6
7	COL26A1	ENSG00000160963	ENST00000528707	polymorphic_pseudogene	KNOWN	CCDS59504	18038	1319	438	101006158	101202304	1	EMID2	Emu2, EMI6
7	COL26A1	ENSG00000160963	ENST00000473628	retained_intron	KNOWN	None	18038	None	None	101196484	101200913	1	EMID2	Emu2, EMI6
7	COL26A1	ENSG00000160963	ENST00000313669	protein_coding	KNOWN	None	18038	1323	440	101006122	101202302	1	EMID2	Emu2, EMI6
1	OR10J4	ENSG00000249730	ENST00000504970	polymorphic_pseudogene	KNOWN	None	15408	935	310	159401994	159402928	1	OR10J4P	OST717
1	OR10J1	ENSG00000196184	ENST00000423932	protein_coding	KNOWN	CCDS1185	8175	963	320	159409512	159410600	1	None	HGMP07J, HSHGMP07J
5	ANKRD34B	ENSG00000189127	ENST00000338682	protein_coding	KNOWN	CCDS34194	33736	1545	514	79852574	79866307	-1	None	DP58
5	ANKRD34B	ENSG00000189127	ENST00000508916	protein_coding	KNOWN	None	33736	51	16	79855788	79866069	-1	None	DP58
1	OR10J5	ENSG00000184155	ENST00000334857	protein_coding	KNOWN	CCDS30910	14993	930	309	159504793	159505842	-1	None	None
11	C11orf48	ENSG00000162194	ENST00000532786	retained_intron	KNOWN	None	28351	None	None	62430287	62432653	-1	None	MGC2477
11	C11orf48	ENSG00000162194	ENST00000524958	protein_coding	PUTATIVE	None	28351	372	123	62430287	62432662	-1	None	MGC2477
11	C11orf48	ENSG00000162194	ENST00000354588	protein_coding	KNOWN	CCDS8028	28351	792	263	62430287	62439241	-1	None	MGC2477
11	C11orf48	ENSG00000162194	ENST00000431002	protein_coding	KNOWN	None	28351	870	289	62430290	62439237	-1	None	MGC2477
11	C11orf48	ENSG00000162194	ENST00000532208	protein_coding	KNOWN	CCDS8028	28351	792	263	62430320	62439012	-1	None	MGC2477
11	C11orf48	ENSG00000162194	ENST00000525675	protein_coding	PUTATIVE	None	28351	369	122	62430587	62432663	-1	None	MGC2477
11	C11orf48	ENSG00000162194	ENST00000415855	protein_coding	PUTATIVE	None	28351	235	77	62432358	62439206	-1	None	MGC2477
11	C11orf48	ENSG00000162194	ENST00000527679	retained_intron	KNOWN	None	28351	None	None	62434687	62439086	-1	None	MGC2477
11	C11orf48	ENSG00000162194	ENST00000524759	retained_intron	KNOWN	None	28351	None	None	62434843	62439237	-1	None	MGC2477
11	C11orf48	ENSG00000162194	ENST00000528115	protein_coding	PUTATIVE	None	28351	50	15	62435092	62437486	-1	None	MGC2477
11	C11orf48	ENSG00000162194	ENST00000528862	protein_coding	PUTATIVE	None	28351	33	10	62435109	62439727	-1	None	MGC2477
11	C11orf48	ENSG00000162194	ENST00000377954	protein_coding	PUTATIVE	None	28351	364	120	62437137	62439105	-1	None	MGC2477
11	C11orf48	ENSG00000162194	ENST00000526490	protein_coding	KNOWN	None	28351	245	80	62437181	62438157	-1	None	MGC2477
2	IDH1	ENSG00000138413	ENST00000345146	protein_coding	KNOWN	CCDS2381	5382	1245	414	209100951	209119857	-1	None	None
2	IDH1	ENSG00000138413	ENST00000446179	protein_coding	KNOWN	CCDS2381	5382	1245	414	209100956	209119182	-1	None	None
2	IDH1	ENSG00000138413	ENST00000415913	protein_coding	KNOWN	CCDS2381	5382	1245	414	209100989	209119046	-1	None	None
2	IDH1	ENSG00000138413	ENST00000484575	retained_intron	KNOWN	None	5382	None	None	209101466	209105039	-1	None	None
2	IDH1	ENSG00000138413	ENST00000415282	protein_coding	KNOWN	None	5382	472	156	209110091	209119063	-1	None	None
2	IDH1	ENSG00000138413	ENST00000462386	retained_intron	KNOWN	None	5382	None	None	209112106	209119785	-1	None	None
2	IDH1	ENSG00000138413	ENST00000417583	protein_coding	KNOWN	None	5382	221	72	209113286	209120522	-1	None	None
2	IDH1	ENSG00000138413	ENST00000451391	protein_coding	KNOWN	None	5382	186	61	209113321	209130798	-1	None	None
2	IDH1	ENSG00000138413	ENST00000481557	retained_intron	KNOWN	None	5382	None	None	209115985	209119837	-1	None	None
4	GNRHR	ENSG00000109163	ENST00000226413	protein_coding	KNOWN	CCDS3517	4421	987	328	68605046	68620078	-1	GRHR	LHRHR
4	GNRHR	ENSG00000109163	ENST00000420975	protein_coding	KNOWN	CCDS47064	4421	750	249	68606198	68620053	-1	GRHR	LHRHR
1	APCS	ENSG00000132703	ENST00000255040	protein_coding	KNOWN	CCDS1186	584	672	223	159557615	159558655	1	None	SAP, PTX2, MGC88159
15	TEX9	ENSG00000151575	ENST00000560827	protein_coding	KNOWN	None	29585	313	103	56536207	56683583	1	None	None
15	TEX9	ENSG00000151575	ENST00000352903	protein_coding	KNOWN	CCDS10157	29585	1176	391	56657625	56738072	1	None	None
15	TEX9	ENSG00000151575	ENST00000537232	protein_coding	KNOWN	None	29585	951	316	56657636	56738195	1	None	None
15	TEX9	ENSG00000151575	ENST00000561221	protein_coding	NOVEL	None	29585	852	283	56657644	56688496	1	None	None
15	TEX9	ENSG00000151575	ENST00000558127	nonsense_mediated_decay	KNOWN	None	29585	240	79	56657645	56683616	1	None	None
15	TEX9	ENSG00000151575	ENST00000558083	protein_coding	NOVEL	None	29585	627	208	56657645	56690539	1	None	None
15	TEX9	ENSG00000151575	ENST00000559142	processed_transcript	PUTATIVE	None	29585	None	None	56665636	56666821	1	None	None
15	TEX9	ENSG00000151575	ENST00000559546	retained_intron	KNOWN	None	29585	None	None	56685852	56686896	1	None	None
15	TEX9	ENSG00000151575	ENST00000560582	protein_coding	PUTATIVE	None	29585	309	102	56686919	56720910	1	None	None
1	CRP	ENSG00000132693	ENST00000255030	protein_coding	KNOWN	CCDS30911	2367	675	224	159682079	159684379	-1	None	PTX1
1	CRP	ENSG00000132693	ENST00000473196	processed_transcript	KNOWN	None	2367	None	None	159682081	159683557	-1	None	PTX1
1	CRP	ENSG00000132693	ENST00000368112	protein_coding	KNOWN	None	2367	276	91	159682200	159684379	-1	None	PTX1
1	CRP	ENSG00000132693	ENST00000368111	protein_coding	KNOWN	None	2367	309	102	159682294	159684379	-1	None	PTX1
1	CRP	ENSG00000132693	ENST00000489317	processed_transcript	KNOWN	None	2367	None	None	159682325	159683870	-1	None	PTX1
1	CRP	ENSG00000132693	ENST00000368110	protein_coding	KNOWN	None	2367	309	102	159682353	159684379	-1	None	PTX1
1	CRP	ENSG00000132693	ENST00000343919	protein_coding	KNOWN	None	2367	309	102	159683315	159684379	-1	None	PTX1
1	CRP	ENSG00000132693	ENST00000437342	protein_coding	KNOWN	None	2367	141	46	159682083	159684379	-1	None	PTX1
10	CDC123	ENSG00000151465	ENST00000429258	protein_coding	KNOWN	None	16827	471	156	12237964	12272977	1	C10orf7	D123
10	CDC123	ENSG00000151465	ENST00000281141	protein_coding	KNOWN	CCDS7090	16827	1011	336	12237965	12292587	1	C10orf7	D123
10	CDC123	ENSG00000151465	ENST00000455773	processed_transcript	KNOWN	None	16827	None	None	12238129	12291705	1	C10orf7	D123
10	CDC123	ENSG00000151465	ENST00000467016	retained_intron	KNOWN	None	16827	None	None	12238195	12240875	1	C10orf7	D123
10	CDC123	ENSG00000151465	ENST00000378900	protein_coding	NOVEL	None	16827	888	295	12238222	12292358	1	C10orf7	D123
10	CDC123	ENSG00000151465	ENST00000442050	protein_coding	NOVEL	None	16827	550	182	12238231	12279223	1	C10orf7	D123
10	CDC123	ENSG00000151465	ENST00000498747	processed_transcript	KNOWN	None	16827	None	None	12259413	12292528	1	C10orf7	D123
10	CDC123	ENSG00000151465	ENST00000440613	protein_coding	NOVEL	None	16827	433	143	12272947	12292588	1	C10orf7	D123
10	CDC123	ENSG00000151465	ENST00000497963	retained_intron	KNOWN	None	16827	None	None	12288053	12292318	1	C10orf7	D123
1	NLRP3	ENSG00000162711	ENST00000391828	protein_coding	KNOWN	CCDS1632	16400	3111	1036	247579458	247612410	1	C1orf7, CIAS1	AGTAVPRL, AII, AVP, FCAS, FCU, NALP3, PYPAF1, MWS, CLR1.1
1	NLRP3	ENSG00000162711	ENST00000336119	protein_coding	KNOWN	CCDS1632	16400	3111	1036	247581351	247612119	1	C1orf7, CIAS1	AGTAVPRL, AII, AVP, FCAS, FCU, NALP3, PYPAF1, MWS, CLR1.1
1	NLRP3	ENSG00000162711	ENST00000348069	protein_coding	KNOWN	CCDS1633	16400	2769	922	247581351	247612119	1	C1orf7, CIAS1	AGTAVPRL, AII, AVP, FCAS, FCU, NALP3, PYPAF1, MWS, CLR1.1
1	NLRP3	ENSG00000162711	ENST00000366496	protein_coding	KNOWN	CCDS44346	16400	2940	979	247581354	247612119	1	C1orf7, CIAS1	AGTAVPRL, AII, AVP, FCAS, FCU, NALP3, PYPAF1, MWS, CLR1.1
1	NLRP3	ENSG00000162711	ENST00000474792	processed_transcript	KNOWN	None	16400	None	None	247581922	247589094	1	C1orf7, CIAS1	AGTAVPRL, AII, AVP, FCAS, FCU, NALP3, PYPAF1, MWS, CLR1.1
1	NLRP3	ENSG00000162711	ENST00000391827	protein_coding	KNOWN	CCDS44347	16400	2940	979	247582097	247611806	1	C1orf7, CIAS1	AGTAVPRL, AII, AVP, FCAS, FCU, NALP3, PYPAF1, MWS, CLR1.1
1	NLRP3	ENSG00000162711	ENST00000532083	processed_transcript	KNOWN	None	16400	None	None	247607209	247611878	1	C1orf7, CIAS1	AGTAVPRL, AII, AVP, FCAS, FCU, NALP3, PYPAF1, MWS, CLR1.1
1	NLRP3	ENSG00000162711	ENST00000366497	protein_coding	KNOWN	CCDS44346	16400	2940	979	247579458	247612404	1	C1orf7, CIAS1	AGTAVPRL, AII, AVP, FCAS, FCU, NALP3, PYPAF1, MWS, CLR1.1
1	DUSP23	ENSG00000158716	ENST00000368109	protein_coding	KNOWN	CCDS1187	21480	453	150	159750722	159752333	1	None	FLJ20442, DUSP25
1	DUSP23	ENSG00000158716	ENST00000368108	protein_coding	KNOWN	CCDS1187	21480	453	150	159750750	159752333	1	None	FLJ20442, DUSP25
1	DUSP23	ENSG00000158716	ENST00000368107	protein_coding	KNOWN	CCDS1187	21480	453	150	159750793	159752333	1	None	FLJ20442, DUSP25
12	SLC6A13	ENSG00000010379	ENST00000343164	protein_coding	KNOWN	CCDS8502	11046	1809	602	329791	372002	-1	None	GAT2
12	SLC6A13	ENSG00000010379	ENST00000539668	processed_transcript	KNOWN	None	11046	None	None	331746	333597	-1	None	GAT2
12	SLC6A13	ENSG00000010379	ENST00000542379	processed_transcript	KNOWN	None	11046	None	None	332280	346407	-1	None	GAT2
12	SLC6A13	ENSG00000010379	ENST00000543722	retained_intron	KNOWN	None	11046	None	None	333192	335845	-1	None	GAT2
12	SLC6A13	ENSG00000010379	ENST00000542947	retained_intron	KNOWN	None	11046	None	None	333634	336137	-1	None	GAT2
12	SLC6A13	ENSG00000010379	ENST00000546319	protein_coding	NOVEL	None	11046	451	149	344360	372039	-1	None	GAT2
12	SLC6A13	ENSG00000010379	ENST00000536842	retained_intron	KNOWN	None	11046	None	None	346072	372002	-1	None	GAT2
12	SLC6A13	ENSG00000010379	ENST00000534887	retained_intron	KNOWN	None	11046	None	None	346316	347475	-1	None	GAT2
12	SLC6A13	ENSG00000010379	ENST00000539260	nonsense_mediated_decay	KNOWN	None	11046	372	123	347092	371982	-1	None	GAT2
12	SLC6A13	ENSG00000010379	ENST00000542272	nonsense_mediated_decay	KNOWN	None	11046	210	69	347114	372002	-1	None	GAT2
12	SLC6A13	ENSG00000010379	ENST00000436453	protein_coding	PUTATIVE	CCDS58198	11046	294	97	368171	372002	-1	None	GAT2
12	SLC6A13	ENSG00000010379	ENST00000445055	protein_coding	KNOWN	CCDS53729	11046	1533	510	329789	372039	-1	None	GAT2
8	SOX17	ENSG00000164736	ENST00000297316	protein_coding	KNOWN	CCDS6159	18122	1245	414	55370495	55373448	1	None	None
3	MCM2	ENSG00000073111	ENST00000265056	protein_coding	KNOWN	CCDS3043	6944	2715	904	127317066	127341276	1	CCNL1, CDCL1	D3S3194, KIAA0030, BM28, cdc19
3	MCM2	ENSG00000073111	ENST00000474964	nonsense_mediated_decay	KNOWN	None	6944	441	146	127317253	127340672	1	CCNL1, CDCL1	D3S3194, KIAA0030, BM28, cdc19
3	MCM2	ENSG00000073111	ENST00000480910	protein_coding	PUTATIVE	None	6944	385	127	127317705	127323626	1	CCNL1, CDCL1	D3S3194, KIAA0030, BM28, cdc19
3	MCM2	ENSG00000073111	ENST00000472731	protein_coding	PUTATIVE	None	6944	310	102	127317945	127323551	1	CCNL1, CDCL1	D3S3194, KIAA0030, BM28, cdc19
3	MCM2	ENSG00000073111	ENST00000477668	nonsense_mediated_decay	KNOWN	None	6944	274	90	127318322	127340672	1	CCNL1, CDCL1	D3S3194, KIAA0030, BM28, cdc19
3	MCM2	ENSG00000073111	ENST00000468659	processed_transcript	KNOWN	None	6944	None	None	127323094	127325045	1	CCNL1, CDCL1	D3S3194, KIAA0030, BM28, cdc19
3	MCM2	ENSG00000073111	ENST00000491422	protein_coding	NOVEL	None	6944	2510	835	127323739	127340950	1	CCNL1, CDCL1	D3S3194, KIAA0030, BM28, cdc19
3	MCM2	ENSG00000073111	ENST00000473785	retained_intron	KNOWN	None	6944	None	None	127335821	127336664	1	CCNL1, CDCL1	D3S3194, KIAA0030, BM28, cdc19
3	MCM2	ENSG00000073111	ENST00000468414	processed_transcript	KNOWN	None	6944	None	None	127336554	127340619	1	CCNL1, CDCL1	D3S3194, KIAA0030, BM28, cdc19
15	MAN2A2	ENSG00000196547	ENST00000558290	protein_coding	KNOWN	None	6825	218	71	91445448	91448566	1	None	MANA2X, HsT19662
15	MAN2A2	ENSG00000196547	ENST00000558853	protein_coding	KNOWN	None	6825	152	49	91445505	91448500	1	None	MANA2X, HsT19662
15	MAN2A2	ENSG00000196547	ENST00000559999	protein_coding	KNOWN	None	6825	361	119	91445607	91448709	1	None	MANA2X, HsT19662
15	MAN2A2	ENSG00000196547	ENST00000560534	processed_transcript	KNOWN	None	6825	None	None	91445658	91446971	1	None	MANA2X, HsT19662
15	MAN2A2	ENSG00000196547	ENST00000560451	nonsense_mediated_decay	KNOWN	None	6825	2817	938	91445925	91464421	1	None	MANA2X, HsT19662
15	MAN2A2	ENSG00000196547	ENST00000558161	nonsense_mediated_decay	KNOWN	None	6825	2391	796	91446156	91464421	1	None	MANA2X, HsT19662
15	MAN2A2	ENSG00000196547	ENST00000559717	protein_coding	KNOWN	CCDS32332	6825	3453	1150	91446222	91464583	1	None	MANA2X, HsT19662
15	MAN2A2	ENSG00000196547	ENST00000559965	protein_coding	KNOWN	None	6825	228	75	91446974	91448576	1	None	MANA2X, HsT19662
15	MAN2A2	ENSG00000196547	ENST00000560192	retained_intron	KNOWN	None	6825	None	None	91447076	91454632	1	None	MANA2X, HsT19662
15	MAN2A2	ENSG00000196547	ENST00000559132	protein_coding	NOVEL	None	6825	583	193	91448609	91450088	1	None	MANA2X, HsT19662
15	MAN2A2	ENSG00000196547	ENST00000558640	processed_transcript	KNOWN	None	6825	None	None	91449210	91450611	1	None	MANA2X, HsT19662
15	MAN2A2	ENSG00000196547	ENST00000561046	retained_intron	KNOWN	None	6825	None	None	91449683	91450749	1	None	MANA2X, HsT19662
15	MAN2A2	ENSG00000196547	ENST00000557865	protein_coding	NOVEL	None	6825	2382	793	91450080	91463306	1	None	MANA2X, HsT19662
15	MAN2A2	ENSG00000196547	ENST00000560616	protein_coding	NOVEL	None	6825	988	328	91450618	91455442	1	None	MANA2X, HsT19662
15	MAN2A2	ENSG00000196547	ENST00000558171	protein_coding	NOVEL	None	6825	790	262	91453385	91455374	1	None	MANA2X, HsT19662
15	MAN2A2	ENSG00000196547	ENST00000561240	processed_transcript	KNOWN	None	6825	None	None	91453840	91455340	1	None	MANA2X, HsT19662
15	MAN2A2	ENSG00000196547	ENST00000560505	retained_intron	KNOWN	None	6825	None	None	91453850	91454655	1	None	MANA2X, HsT19662
15	MAN2A2	ENSG00000196547	ENST00000559374	retained_intron	KNOWN	None	6825	None	None	91454626	91456180	1	None	MANA2X, HsT19662
15	MAN2A2	ENSG00000196547	ENST00000561047	retained_intron	KNOWN	None	6825	None	None	91455082	91456868	1	None	MANA2X, HsT19662
15	MAN2A2	ENSG00000196547	ENST00000561448	nonsense_mediated_decay	KNOWN	None	6825	1081	359	91455413	91463624	1	None	MANA2X, HsT19662
15	MAN2A2	ENSG00000196547	ENST00000560147	protein_coding	NOVEL	None	6825	492	163	91456110	91461527	1	None	MANA2X, HsT19662
15	MAN2A2	ENSG00000196547	ENST00000557990	protein_coding	NOVEL	None	6825	956	317	91456118	91462925	1	None	MANA2X, HsT19662
15	MAN2A2	ENSG00000196547	ENST00000558538	processed_transcript	KNOWN	None	6825	None	None	91458648	91462921	1	None	MANA2X, HsT19662
15	MAN2A2	ENSG00000196547	ENST00000559341	retained_intron	KNOWN	None	6825	None	None	91459225	91462919	1	None	MANA2X, HsT19662
15	MAN2A2	ENSG00000196547	ENST00000560926	processed_transcript	KNOWN	None	6825	None	None	91459225	91463095	1	None	MANA2X, HsT19662
15	MAN2A2	ENSG00000196547	ENST00000560880	retained_intron	KNOWN	None	6825	None	None	91459331	91461985	1	None	MANA2X, HsT19662
15	MAN2A2	ENSG00000196547	ENST00000558374	retained_intron	KNOWN	None	6825	None	None	91459757	91463196	1	None	MANA2X, HsT19662
15	MAN2A2	ENSG00000196547	ENST00000559558	processed_transcript	KNOWN	None	6825	None	None	91460882	91462928	1	None	MANA2X, HsT19662
15	MAN2A2	ENSG00000196547	ENST00000559704	nonsense_mediated_decay	KNOWN	None	6825	175	57	91461964	91464424	1	None	MANA2X, HsT19662
15	MAN2A2	ENSG00000196547	ENST00000360468	protein_coding	KNOWN	CCDS32332	6825	3453	1150	91447420	91465814	1	None	MANA2X, HsT19662
15	MAN2A2	ENSG00000196547	ENST00000431652	protein_coding	KNOWN	None	6825	1977	658	91450618	91463316	1	None	MANA2X, HsT19662
15	MAN2A2	ENSG00000196547	ENST00000430376	protein_coding	KNOWN	None	6825	1023	340	91455413	91463624	1	None	MANA2X, HsT19662
2	DOK1	ENSG00000115325	ENST00000409429	protein_coding	PUTATIVE	CCDS56125	2990	1029	342	74776153	74784663	1	None	p62dok
2	DOK1	ENSG00000115325	ENST00000485132	processed_transcript	KNOWN	None	2990	None	None	74776198	74782514	1	None	p62dok
2	DOK1	ENSG00000115325	ENST00000233668	protein_coding	KNOWN	CCDS1954	2990	1446	481	74781213	74784681	1	None	p62dok
2	DOK1	ENSG00000115325	ENST00000488613	processed_transcript	KNOWN	None	2990	None	None	74781287	74782358	1	None	p62dok
2	DOK1	ENSG00000115325	ENST00000340004	protein_coding	PUTATIVE	None	2990	534	177	74781858	74784678	1	None	p62dok
2	DOK1	ENSG00000115325	ENST00000489958	processed_transcript	KNOWN	None	2990	None	None	74781861	74784312	1	None	p62dok
2	DOK1	ENSG00000115325	ENST00000482206	retained_intron	KNOWN	None	2990	None	None	74781865	74782724	1	None	p62dok
2	DOK1	ENSG00000115325	ENST00000474924	retained_intron	KNOWN	None	2990	None	None	74781865	74782763	1	None	p62dok
2	DOK1	ENSG00000115325	ENST00000480318	processed_transcript	KNOWN	None	2990	None	None	74781865	74784241	1	None	p62dok
2	DOK1	ENSG00000115325	ENST00000496966	processed_transcript	KNOWN	None	2990	None	None	74781869	74783903	1	None	p62dok
2	DOK1	ENSG00000115325	ENST00000475191	retained_intron	KNOWN	None	2990	None	None	74781877	74783053	1	None	p62dok
2	DOK1	ENSG00000115325	ENST00000464613	retained_intron	KNOWN	None	2990	None	None	74782259	74784640	1	None	p62dok
2	DOK1	ENSG00000115325	ENST00000429631	nonsense_mediated_decay	KNOWN	None	2990	266	87	74782333	74783748	1	None	p62dok
1	OR2B11	ENSG00000177535	ENST00000318749	protein_coding	KNOWN	CCDS31090	31249	954	317	247614255	247615308	-1	None	None
7	MYL10	ENSG00000106436	ENST00000223167	protein_coding	KNOWN	CCDS34713	29825	681	226	101256605	101272576	-1	None	MGC3479, MYLC2PL, PLRLC
1	GCSAML	ENSG00000169224	ENST00000527084	protein_coding	NOVEL	None	29583	312	103	247670360	247738322	1	C1orf150	FLJ44728
1	GCSAML	ENSG00000169224	ENST00000527541	protein_coding	NOVEL	None	29583	312	103	247670375	247738183	1	C1orf150	FLJ44728
1	GCSAML	ENSG00000169224	ENST00000366491	protein_coding	KNOWN	None	29583	348	115	247670417	247740969	1	C1orf150	FLJ44728
1	GCSAML	ENSG00000169224	ENST00000366489	protein_coding	KNOWN	None	29583	348	115	247670422	247740990	1	C1orf150	FLJ44728
1	GCSAML	ENSG00000169224	ENST00000526896	protein_coding	KNOWN	None	29583	241	79	247670426	247737517	1	C1orf150	FLJ44728
1	GCSAML	ENSG00000169224	ENST00000463359	protein_coding	NOVEL	None	29583	312	103	247681734	247738950	1	C1orf150	FLJ44728
1	GCSAML	ENSG00000169224	ENST00000529512	protein_coding	NOVEL	None	29583	223	73	247681754	247737595	1	C1orf150	FLJ44728
1	GCSAML	ENSG00000169224	ENST00000531662	processed_transcript	KNOWN	None	29583	None	None	247681776	247712421	1	C1orf150	FLJ44728
1	GCSAML	ENSG00000169224	ENST00000366488	protein_coding	KNOWN	CCDS1635	29583	408	135	247712390	247740992	1	C1orf150	FLJ44728
1	GCSAML	ENSG00000169224	ENST00000366490	protein_coding	KNOWN	None	29583	402	133	247670394	247712533	1	C1orf150	FLJ44728
1	GCSAML	ENSG00000169224	ENST00000536561	protein_coding	KNOWN	None	29583	348	115	247712449	247739846	1	C1orf150	FLJ44728
8	RNF19A	ENSG00000034677	ENST00000519449	protein_coding	KNOWN	CCDS6286	13432	2517	838	101269288	101315487	-1	RNF19	dorfin, DKFZp566B1346
8	RNF19A	ENSG00000034677	ENST00000341084	protein_coding	KNOWN	CCDS6286	13432	2517	838	101269570	101322555	-1	RNF19	dorfin, DKFZp566B1346
8	RNF19A	ENSG00000034677	ENST00000520903	retained_intron	KNOWN	None	13432	None	None	101271113	101272268	-1	RNF19	dorfin, DKFZp566B1346
8	RNF19A	ENSG00000034677	ENST00000523255	processed_transcript	KNOWN	None	13432	None	None	101271291	101281148	-1	RNF19	dorfin, DKFZp566B1346
8	RNF19A	ENSG00000034677	ENST00000523644	processed_transcript	KNOWN	None	13432	None	None	101271392	101276308	-1	RNF19	dorfin, DKFZp566B1346
8	RNF19A	ENSG00000034677	ENST00000520071	retained_intron	KNOWN	None	13432	None	None	101273951	101276808	-1	RNF19	dorfin, DKFZp566B1346
8	RNF19A	ENSG00000034677	ENST00000524233	retained_intron	KNOWN	None	13432	None	None	101280832	101287262	-1	RNF19	dorfin, DKFZp566B1346
8	RNF19A	ENSG00000034677	ENST00000519527	protein_coding	KNOWN	None	13432	497	164	101299906	101348413	-1	RNF19	dorfin, DKFZp566B1346
8	RNF19A	ENSG00000034677	ENST00000523167	protein_coding	KNOWN	None	13432	470	155	101299933	101321754	-1	RNF19	dorfin, DKFZp566B1346
8	RNF19A	ENSG00000034677	ENST00000522369	protein_coding	KNOWN	None	13432	340	112	101300063	101348432	-1	RNF19	dorfin, DKFZp566B1346
8	RNF19A	ENSG00000034677	ENST00000517584	protein_coding	PUTATIVE	None	13432	175	57	101300135	101315458	-1	RNF19	dorfin, DKFZp566B1346
8	RNF19A	ENSG00000034677	ENST00000432381	protein_coding	KNOWN	None	13432	268	88	101300135	101315458	-1	RNF19	dorfin, DKFZp566B1346
8	RNF19A	ENSG00000034677	ENST00000523481	protein_coding	KNOWN	None	13432	44	13	101300359	101322138	-1	RNF19	dorfin, DKFZp566B1346
8	RNF19A	ENSG00000034677	ENST00000522182	processed_transcript	KNOWN	None	13432	None	None	101312771	101348446	-1	RNF19	dorfin, DKFZp566B1346
8	RNF19A	ENSG00000034677	ENST00000519342	processed_transcript	KNOWN	None	13432	None	None	101312806	101322376	-1	RNF19	dorfin, DKFZp566B1346
2	M1AP	ENSG00000159374	ENST00000290536	protein_coding	KNOWN	CCDS33229	25183	1593	530	74785010	74875164	-1	C2orf65	D6Mm5e, SPATA37
2	M1AP	ENSG00000159374	ENST00000464686	processed_transcript	KNOWN	None	25183	None	None	74785019	74804066	-1	C2orf65	D6Mm5e, SPATA37
2	M1AP	ENSG00000159374	ENST00000409585	protein_coding	NOVEL	None	25183	1581	526	74785019	74867454	-1	C2orf65	D6Mm5e, SPATA37
2	M1AP	ENSG00000159374	ENST00000485997	processed_transcript	KNOWN	None	25183	None	None	74785777	74802616	-1	C2orf65	D6Mm5e, SPATA37
2	M1AP	ENSG00000159374	ENST00000438226	nonsense_mediated_decay	KNOWN	None	25183	282	93	74802621	74875465	-1	C2orf65	D6Mm5e, SPATA37
2	M1AP	ENSG00000159374	ENST00000422394	nonsense_mediated_decay	KNOWN	None	25183	468	155	74808922	74875436	-1	C2orf65	D6Mm5e, SPATA37
2	M1AP	ENSG00000159374	ENST00000478437	processed_transcript	KNOWN	None	25183	None	None	74834281	74842951	-1	C2orf65	D6Mm5e, SPATA37
2	M1AP	ENSG00000159374	ENST00000421985	protein_coding	KNOWN	None	25183	426	141	74842091	74875457	-1	C2orf65	D6Mm5e, SPATA37
2	M1AP	ENSG00000159374	ENST00000536235	protein_coding	KNOWN	None	25183	1581	526	74785465	74875457	-1	C2orf65	D6Mm5e, SPATA37
2	M1AP	ENSG00000159374	ENST00000358434	protein_coding	KNOWN	None	25183	540	179	74785843	74875164	-1	C2orf65	D6Mm5e, SPATA37
2	PIKFYVE	ENSG00000115020	ENST00000392202	protein_coding	NOVEL	CCDS33368	23785	1356	451	209130991	209170273	1	PIP5K3	MGC40423, KIAA0981, PIKfyve, PIP5K, p235, ZFYVE29
2	PIKFYVE	ENSG00000115020	ENST00000443896	nonsense_mediated_decay	KNOWN	None	23785	477	158	209130991	209190831	1	PIP5K3	MGC40423, KIAA0981, PIKfyve, PIP5K, p235, ZFYVE29
2	PIKFYVE	ENSG00000115020	ENST00000264380	protein_coding	KNOWN	CCDS2382	23785	6297	2098	209130991	209223475	1	PIP5K3	MGC40423, KIAA0981, PIKfyve, PIP5K, p235, ZFYVE29
2	PIKFYVE	ENSG00000115020	ENST00000407449	protein_coding	NOVEL	CCDS54431	23785	1647	548	209131002	209169852	1	PIP5K3	MGC40423, KIAA0981, PIKfyve, PIP5K, p235, ZFYVE29
2	PIKFYVE	ENSG00000115020	ENST00000308862	protein_coding	NOVEL	None	23785	1389	462	209131002	209169852	1	PIP5K3	MGC40423, KIAA0981, PIKfyve, PIP5K, p235, ZFYVE29
2	PIKFYVE	ENSG00000115020	ENST00000422495	protein_coding	NOVEL	None	23785	724	240	209131081	209150524	1	PIP5K3	MGC40423, KIAA0981, PIKfyve, PIP5K, p235, ZFYVE29
2	PIKFYVE	ENSG00000115020	ENST00000452564	protein_coding	NOVEL	None	23785	4152	1383	209131087	209200580	1	PIP5K3	MGC40423, KIAA0981, PIKfyve, PIP5K, p235, ZFYVE29
2	PIKFYVE	ENSG00000115020	ENST00000477200	retained_intron	KNOWN	None	23785	None	None	209163365	209167304	1	PIP5K3	MGC40423, KIAA0981, PIKfyve, PIP5K, p235, ZFYVE29
2	PIKFYVE	ENSG00000115020	ENST00000474721	processed_transcript	KNOWN	None	23785	None	None	209199096	209201589	1	PIP5K3	MGC40423, KIAA0981, PIKfyve, PIP5K, p235, ZFYVE29
1	OR2C3	ENSG00000196242	ENST00000366487	protein_coding	KNOWN	CCDS1634	15005	963	320	247693434	247697141	-1	OR2C4, OR2C5P	OST742
X	PHKA1	ENSG00000067177	ENST00000373542	protein_coding	KNOWN	CCDS14421	8925	3672	1223	71798664	71933888	-1	PHKA	None
X	PHKA1	ENSG00000067177	ENST00000373545	protein_coding	KNOWN	None	8925	3546	1181	71798664	71934167	-1	PHKA	None
X	PHKA1	ENSG00000067177	ENST00000373539	protein_coding	KNOWN	None	8925	3723	1240	71800477	71934106	-1	PHKA	None
X	PHKA1	ENSG00000067177	ENST00000339490	protein_coding	KNOWN	CCDS48137	8925	3633	1210	71798665	71934029	-1	PHKA	None
X	PHKA1	ENSG00000067177	ENST00000541944	protein_coding	KNOWN	CCDS55453	8925	3456	1151	71798665	71934029	-1	PHKA	None
3	SUMF1	ENSG00000144455	ENST00000470751	processed_transcript	KNOWN	None	20376	None	None	3742498	3842559	-1	None	FGE, UNQ3037
3	SUMF1	ENSG00000144455	ENST00000448413	nonsense_mediated_decay	KNOWN	None	20376	1281	426	3823036	4508945	-1	None	FGE, UNQ3037
3	SUMF1	ENSG00000144455	ENST00000469888	processed_transcript	KNOWN	None	20376	None	None	3824322	3841580	-1	None	FGE, UNQ3037
3	SUMF1	ENSG00000144455	ENST00000484993	processed_transcript	PUTATIVE	None	20376	None	None	3836923	3839898	-1	None	FGE, UNQ3037
3	SUMF1	ENSG00000144455	ENST00000272902	protein_coding	KNOWN	CCDS2564	20376	1125	374	4402830	4508965	-1	None	FGE, UNQ3037
3	SUMF1	ENSG00000144455	ENST00000383843	protein_coding	NOVEL	CCDS54548	20376	1050	349	4403450	4508948	-1	None	FGE, UNQ3037
3	SUMF1	ENSG00000144455	ENST00000458465	protein_coding	NOVEL	None	20376	729	242	4403479	4508953	-1	None	FGE, UNQ3037
3	SUMF1	ENSG00000144455	ENST00000405420	protein_coding	NOVEL	CCDS54549	20376	1065	354	4403793	4508957	-1	None	FGE, UNQ3037
3	SUMF1	ENSG00000144455	ENST00000534863	protein_coding	KNOWN	None	20376	1281	426	3869104	4508929	-1	None	FGE, UNQ3037
19	SHKBP1	ENSG00000160410	ENST00000291842	protein_coding	KNOWN	CCDS12560	19214	2124	707	41082757	41097303	1	None	PP203, Sb1
19	SHKBP1	ENSG00000160410	ENST00000595803	nonsense_mediated_decay	KNOWN	None	19214	309	102	41082759	41086556	1	None	PP203, Sb1
19	SHKBP1	ENSG00000160410	ENST00000600733	protein_coding	NOVEL	None	19214	2049	682	41082761	41097303	1	None	PP203, Sb1
19	SHKBP1	ENSG00000160410	ENST00000595945	nonsense_mediated_decay	KNOWN	None	19214	426	141	41082771	41086772	1	None	PP203, Sb1
19	SHKBP1	ENSG00000160410	ENST00000599575	nonsense_mediated_decay	KNOWN	None	19214	267	88	41082773	41086744	1	None	PP203, Sb1
19	SHKBP1	ENSG00000160410	ENST00000599716	retained_intron	KNOWN	None	19214	None	None	41082793	41083835	1	None	PP203, Sb1
19	SHKBP1	ENSG00000160410	ENST00000600718	protein_coding	NOVEL	None	19214	1832	609	41082822	41097274	1	None	PP203, Sb1
19	SHKBP1	ENSG00000160410	ENST00000600552	processed_transcript	KNOWN	None	19214	None	None	41082988	41086301	1	None	PP203, Sb1
19	SHKBP1	ENSG00000160410	ENST00000598558	retained_intron	KNOWN	None	19214	None	None	41083064	41086369	1	None	PP203, Sb1
19	SHKBP1	ENSG00000160410	ENST00000595631	protein_coding	PUTATIVE	None	19214	393	130	41083064	41086533	1	None	PP203, Sb1
19	SHKBP1	ENSG00000160410	ENST00000595523	nonsense_mediated_decay	KNOWN	None	19214	114	37	41083082	41086378	1	None	PP203, Sb1
19	SHKBP1	ENSG00000160410	ENST00000597325	retained_intron	KNOWN	None	19214	None	None	41083084	41084083	1	None	PP203, Sb1
19	SHKBP1	ENSG00000160410	ENST00000594973	retained_intron	KNOWN	None	19214	None	None	41083135	41097301	1	None	PP203, Sb1
19	SHKBP1	ENSG00000160410	ENST00000598907	retained_intron	KNOWN	None	19214	None	None	41084102	41086789	1	None	PP203, Sb1
19	SHKBP1	ENSG00000160410	ENST00000598201	retained_intron	KNOWN	None	19214	None	None	41086073	41097301	1	None	PP203, Sb1
19	SHKBP1	ENSG00000160410	ENST00000595874	retained_intron	KNOWN	None	19214	None	None	41086805	41088421	1	None	PP203, Sb1
19	SHKBP1	ENSG00000160410	ENST00000600791	retained_intron	KNOWN	None	19214	None	None	41089366	41094709	1	None	PP203, Sb1
19	SHKBP1	ENSG00000160410	ENST00000602011	protein_coding	NOVEL	None	19214	897	298	41089372	41097085	1	None	PP203, Sb1
19	SHKBP1	ENSG00000160410	ENST00000593764	protein_coding	NOVEL	None	19214	789	262	41089515	41097194	1	None	PP203, Sb1
19	SHKBP1	ENSG00000160410	ENST00000600320	protein_coding	NOVEL	None	19214	752	249	41089555	41097274	1	None	PP203, Sb1
19	SHKBP1	ENSG00000160410	ENST00000597649	processed_transcript	KNOWN	None	19214	None	None	41091479	41096261	1	None	PP203, Sb1
19	SHKBP1	ENSG00000160410	ENST00000599833	retained_intron	KNOWN	None	19214	None	None	41092599	41096712	1	None	PP203, Sb1
19	SHKBP1	ENSG00000160410	ENST00000594298	protein_coding	NOVEL	None	19214	527	174	41092680	41097302	1	None	PP203, Sb1
19	SHKBP1	ENSG00000160410	ENST00000596163	nonsense_mediated_decay	KNOWN	None	19214	389	128	41092761	41097202	1	None	PP203, Sb1
19	SHKBP1	ENSG00000160410	ENST00000597396	protein_coding	NOVEL	None	19214	834	277	41092802	41097298	1	None	PP203, Sb1
19	SHKBP1	ENSG00000160410	ENST00000595726	protein_coding	NOVEL	None	19214	494	163	41094645	41097303	1	None	PP203, Sb1
19	SHKBP1	ENSG00000160410	ENST00000594862	protein_coding	NOVEL	None	19214	431	142	41095007	41097305	1	None	PP203, Sb1
19	SHKBP1	ENSG00000160410	ENST00000602239	retained_intron	KNOWN	None	19214	None	None	41096115	41096993	1	None	PP203, Sb1
4	HERC5	ENSG00000138646	ENST00000264350	protein_coding	KNOWN	CCDS3630	24368	3075	1024	89378268	89427314	1	None	CEB1
4	HERC5	ENSG00000138646	ENST00000508695	processed_transcript	KNOWN	None	24368	None	None	89379044	89383414	1	None	CEB1
4	HERC5	ENSG00000138646	ENST00000508159	protein_coding	PUTATIVE	None	24368	1989	662	89389007	89427173	1	None	CEB1
4	HERC5	ENSG00000138646	ENST00000510223	retained_intron	KNOWN	None	24368	None	None	89394161	89427312	1	None	CEB1
4	HERC5	ENSG00000138646	ENST00000502913	retained_intron	KNOWN	None	24368	None	None	89394164	89427103	1	None	CEB1
20	None	ENSG00000225344	ENST00000440642	processed_pseudogene	KNOWN	None	None	None	None	25141803	25142697	-1	None	None
2	SEMA4F	ENSG00000135622	ENST00000357877	protein_coding	KNOWN	CCDS1955	10734	2313	770	74881355	74909186	1	SEMAM	SEMAW
2	SEMA4F	ENSG00000135622	ENST00000420077	nonsense_mediated_decay	KNOWN	None	10734	483	160	74881379	74907336	1	SEMAM	SEMAW
2	SEMA4F	ENSG00000135622	ENST00000458114	nonsense_mediated_decay	KNOWN	None	10734	150	49	74881404	74900955	1	SEMAM	SEMAW
2	SEMA4F	ENSG00000135622	ENST00000339773	protein_coding	NOVEL	None	10734	1848	615	74881407	74907568	1	SEMAM	SEMAW
2	SEMA4F	ENSG00000135622	ENST00000434486	protein_coding	NOVEL	None	10734	494	163	74881420	74900626	1	SEMAM	SEMAW
2	SEMA4F	ENSG00000135622	ENST00000416236	nonsense_mediated_decay	KNOWN	None	10734	207	68	74881438	74884738	1	SEMAM	SEMAW
2	SEMA4F	ENSG00000135622	ENST00000453930	protein_coding	NOVEL	None	10734	536	177	74881438	74901803	1	SEMAM	SEMAW
2	SEMA4F	ENSG00000135622	ENST00000446927	nonsense_mediated_decay	KNOWN	None	10734	384	127	74881489	74907873	1	SEMAM	SEMAW
2	SEMA4F	ENSG00000135622	ENST00000473350	processed_transcript	KNOWN	None	10734	None	None	74902050	74907054	1	SEMAM	SEMAW
2	PTH2R	ENSG00000144407	ENST00000413482	processed_transcript	KNOWN	None	9609	None	None	209224438	209358754	1	PTHR2	None
2	PTH2R	ENSG00000144407	ENST00000272847	protein_coding	KNOWN	CCDS2383	9609	1653	550	209271556	209359231	1	PTHR2	None
2	PTH2R	ENSG00000144407	ENST00000419079	nonsense_mediated_decay	KNOWN	None	9609	164	53	209353811	209704824	1	PTHR2	None
2	PTH2R	ENSG00000144407	ENST00000487472	processed_transcript	KNOWN	None	9609	None	None	209703087	209719227	1	PTHR2	None
8	RP1	ENSG00000104237	ENST00000220676	protein_coding	KNOWN	CCDS6160	10263	6471	2156	55528627	55543394	1	None	DCDC4A
20	None	ENSG00000202414	ENST00000365544	misc_RNA	NOVEL	None	None	None	None	25195334	25195434	1	None	None
14	None	ENSG00000259164	ENST00000557752	nonsense_mediated_decay	KNOWN	None	None	174	57	77564654	77691805	1	None	None
X	SUV39H1	ENSG00000101945	ENST00000376687	protein_coding	KNOWN	CCDS14304	11479	1239	412	48554986	48567403	1	SUV39H	KMT1A
X	SUV39H1	ENSG00000101945	ENST00000482260	processed_transcript	KNOWN	None	11479	None	None	48563652	48566235	1	SUV39H	KMT1A
X	SUV39H1	ENSG00000101945	ENST00000462786	retained_intron	KNOWN	None	11479	None	None	48564694	48566248	1	SUV39H	KMT1A
X	SUV39H1	ENSG00000101945	ENST00000337852	protein_coding	KNOWN	None	11479	1272	423	48553945	48566196	1	SUV39H	KMT1A
X	SUV39H1	ENSG00000101945	ENST00000453214	protein_coding	KNOWN	None	11479	555	184	48555149	48566694	1	SUV39H	KMT1A
8	TSTA3	ENSG00000104522	ENST00000524719	protein_coding	PUTATIVE	None	12390	195	64	144694788	144695777	-1	None	FX, P35B, SDR4E1
8	TSTA3	ENSG00000104522	ENST00000528920	retained_intron	KNOWN	None	12390	None	None	144694788	144696555	-1	None	FX, P35B, SDR4E1
8	TSTA3	ENSG00000104522	ENST00000529064	protein_coding	KNOWN	CCDS6408	12390	966	321	144694788	144699652	-1	None	FX, P35B, SDR4E1
8	TSTA3	ENSG00000104522	ENST00000531473	retained_intron	KNOWN	None	12390	None	None	144694788	144699674	-1	None	FX, P35B, SDR4E1
8	TSTA3	ENSG00000104522	ENST00000425753	protein_coding	KNOWN	CCDS6408	12390	966	321	144694788	144699736	-1	None	FX, P35B, SDR4E1
8	TSTA3	ENSG00000104522	ENST00000527677	retained_intron	KNOWN	None	12390	None	None	144694791	144695561	-1	None	FX, P35B, SDR4E1
8	TSTA3	ENSG00000104522	ENST00000529048	protein_coding	KNOWN	None	12390	805	267	144695699	144699644	-1	None	FX, P35B, SDR4E1
8	TSTA3	ENSG00000104522	ENST00000532308	retained_intron	KNOWN	None	12390	None	None	144695940	144699702	-1	None	FX, P35B, SDR4E1
8	TSTA3	ENSG00000104522	ENST00000533817	protein_coding	KNOWN	None	12390	596	197	144696492	144699470	-1	None	FX, P35B, SDR4E1
8	TSTA3	ENSG00000104522	ENST00000530474	nonsense_mediated_decay	KNOWN	None	12390	348	115	144696534	144699681	-1	None	FX, P35B, SDR4E1
8	TSTA3	ENSG00000104522	ENST00000525274	retained_intron	KNOWN	None	12390	None	None	144696575	144698896	-1	None	FX, P35B, SDR4E1
8	TSTA3	ENSG00000104522	ENST00000527549	retained_intron	KNOWN	None	12390	None	None	144696817	144699677	-1	None	FX, P35B, SDR4E1
8	TSTA3	ENSG00000104522	ENST00000526290	protein_coding	KNOWN	None	12390	356	117	144696991	144700218	-1	None	FX, P35B, SDR4E1
8	TSTA3	ENSG00000104522	ENST00000527006	protein_coding	PUTATIVE	None	12390	412	136	144697033	144698634	-1	None	FX, P35B, SDR4E1
8	TSTA3	ENSG00000104522	ENST00000529899	retained_intron	KNOWN	None	12390	None	None	144698056	144699719	-1	None	FX, P35B, SDR4E1
8	TSTA3	ENSG00000104522	ENST00000531006	retained_intron	KNOWN	None	12390	None	None	144698113	144699722	-1	None	FX, P35B, SDR4E1
20	PPIAP2	ENSG00000227379	ENST00000414143	processed_pseudogene	KNOWN	None	16542	None	None	25348911	25349402	-1	None	bA384D7.2
15	MNS1	ENSG00000138587	ENST00000566386	processed_transcript	KNOWN	None	29636	None	None	56713742	56726405	-1	None	FLJ11222, SPATA40
15	MNS1	ENSG00000138587	ENST00000260453	protein_coding	KNOWN	CCDS10158	29636	1488	495	56720929	56757335	-1	None	FLJ11222, SPATA40
15	MNS1	ENSG00000138587	ENST00000558694	retained_intron	KNOWN	None	29636	None	None	56755978	56757283	-1	None	FLJ11222, SPATA40
4	TMPRSS11D	ENSG00000153802	ENST00000283916	protein_coding	KNOWN	CCDS3518	24059	1257	418	68686594	68749750	-1	None	None
4	TMPRSS11D	ENSG00000153802	ENST00000505533	retained_intron	KNOWN	None	24059	None	None	68686596	68699345	-1	None	None
4	TMPRSS11D	ENSG00000153802	ENST00000514868	protein_coding	PUTATIVE	None	24059	194	63	68691525	68703976	-1	None	None
4	TMPRSS11D	ENSG00000153802	ENST00000502573	processed_transcript	KNOWN	None	24059	None	None	68693186	68749699	-1	None	None
4	TMPRSS11D	ENSG00000153802	ENST00000509584	processed_transcript	KNOWN	None	24059	None	None	68698970	68749699	-1	None	None
4	TMPRSS11D	ENSG00000153802	ENST00000508409	processed_transcript	KNOWN	None	24059	None	None	68699020	68749719	-1	None	None
4	TMPRSS11D	ENSG00000153802	ENST00000502822	retained_intron	KNOWN	None	24059	None	None	68703752	68749716	-1	None	None
4	TMPRSS11D	ENSG00000153802	ENST00000511931	processed_transcript	KNOWN	None	24059	None	None	68703925	68749678	-1	None	None
4	TMPRSS11D	ENSG00000153802	ENST00000545541	protein_coding	KNOWN	None	24059	906	301	68687646	68749699	-1	None	None
19	ANGPTL4	ENSG00000167772	ENST00000601886	protein_coding	KNOWN	None	16039	288	95	8428173	8429493	1	None	pp1158, PGAR, ARP4, HFARP, FIAF, NL2
19	ANGPTL4	ENSG00000167772	ENST00000599192	protein_coding	KNOWN	None	16039	314	103	8428183	8429519	1	None	pp1158, PGAR, ARP4, HFARP, FIAF, NL2
19	ANGPTL4	ENSG00000167772	ENST00000597137	retained_intron	KNOWN	None	16039	None	None	8428183	8436114	1	None	pp1158, PGAR, ARP4, HFARP, FIAF, NL2
19	ANGPTL4	ENSG00000167772	ENST00000601770	protein_coding	KNOWN	None	16039	257	84	8428295	8429462	1	None	pp1158, PGAR, ARP4, HFARP, FIAF, NL2
19	ANGPTL4	ENSG00000167772	ENST00000301455	protein_coding	KNOWN	CCDS12200	16039	1221	406	8429035	8439257	1	None	pp1158, PGAR, ARP4, HFARP, FIAF, NL2
19	ANGPTL4	ENSG00000167772	ENST00000595079	nonsense_mediated_decay	KNOWN	None	16039	387	128	8429040	8439172	1	None	pp1158, PGAR, ARP4, HFARP, FIAF, NL2
19	ANGPTL4	ENSG00000167772	ENST00000598255	retained_intron	KNOWN	None	16039	None	None	8429050	8436145	1	None	pp1158, PGAR, ARP4, HFARP, FIAF, NL2
19	ANGPTL4	ENSG00000167772	ENST00000594348	retained_intron	KNOWN	None	16039	None	None	8429053	8436146	1	None	pp1158, PGAR, ARP4, HFARP, FIAF, NL2
19	ANGPTL4	ENSG00000167772	ENST00000393962	protein_coding	KNOWN	CCDS42493	16039	1107	368	8429053	8439215	1	None	pp1158, PGAR, ARP4, HFARP, FIAF, NL2
19	ANGPTL4	ENSG00000167772	ENST00000593998	nonsense_mediated_decay	KNOWN	CCDS12200	16039	1221	406	8429053	8439254	1	None	pp1158, PGAR, ARP4, HFARP, FIAF, NL2
19	ANGPTL4	ENSG00000167772	ENST00000594875	protein_coding	PUTATIVE	None	16039	389	128	8429282	8439254	1	None	pp1158, PGAR, ARP4, HFARP, FIAF, NL2
19	ANGPTL4	ENSG00000167772	ENST00000541807	protein_coding	KNOWN	None	16039	720	239	8429040	8439172	1	None	pp1158, PGAR, ARP4, HFARP, FIAF, NL2
8	XKR4	ENSG00000206579	ENST00000327381	protein_coding	KNOWN	CCDS34893	29394	1953	650	56014949	56438714	1	None	KIAA1889
17	UBB	ENSG00000170315	ENST00000577958	protein_coding	NOVEL	None	12463	131	42	16284112	16285352	1	None	MGC8385, FLJ25987
17	UBB	ENSG00000170315	ENST00000302182	protein_coding	NOVEL	CCDS11177	12463	690	229	16284113	16286054	1	None	MGC8385, FLJ25987
17	UBB	ENSG00000170315	ENST00000577640	protein_coding	NOVEL	None	12463	619	205	16284245	16285840	1	None	MGC8385, FLJ25987
17	UBB	ENSG00000170315	ENST00000535788	protein_coding	NOVEL	None	12463	462	153	16284405	16286053	1	None	MGC8385, FLJ25987
17	UBB	ENSG00000170315	ENST00000578649	processed_transcript	PUTATIVE	None	12463	None	None	16284409	16286059	1	None	MGC8385, FLJ25987
17	UBB	ENSG00000170315	ENST00000395839	protein_coding	NOVEL	CCDS11177	12463	690	229	16284604	16286054	1	None	MGC8385, FLJ25987
17	UBB	ENSG00000170315	ENST00000395837	protein_coding	NOVEL	CCDS11177	12463	690	229	16284655	16286054	1	None	MGC8385, FLJ25987
17	UBB	ENSG00000170315	ENST00000578706	protein_coding	NOVEL	None	12463	279	92	16284779	16285500	1	None	MGC8385, FLJ25987
8	None	ENSG00000253976	ENST00000522186	protein_coding	PUTATIVE	None	None	192	63	56047763	56054918	-1	None	None
2	HK2	ENSG00000159399	ENST00000290573	protein_coding	KNOWN	CCDS1956	4923	2754	917	75061108	75120486	1	None	None
2	HK2	ENSG00000159399	ENST00000409174	protein_coding	NOVEL	None	4923	2670	889	75062297	75120486	1	None	None
2	HK2	ENSG00000159399	ENST00000472302	retained_intron	KNOWN	None	4923	None	None	75081460	75095034	1	None	None
8	None	ENSG00000253857	ENST00000522559	protein_coding	PUTATIVE	None	None	195	64	56074043	56077011	1	None	None
8	None	ENSG00000253857	ENST00000520251	protein_coding	PUTATIVE	None	None	93	30	56076683	56077287	1	None	None
20	RNU6ATAC17P	ENSG00000251883	ENST00000516074	snRNA	KNOWN	None	46916	None	None	25591789	25591859	1	None	None
7	FZD9	ENSG00000188763	ENST00000344575	protein_coding	KNOWN	CCDS5548	4047	1776	591	72848109	72850450	1	None	FZD3, CD349
17	ZNF750	ENSG00000141579	ENST00000269394	protein_coding	KNOWN	CCDS11819	25843	2172	723	80787311	80798454	-1	None	FLJ13841, Zfp750
17	ZNF750	ENSG00000141579	ENST00000572562	protein_coding	PUTATIVE	None	25843	975	324	80787805	80797898	-1	None	FLJ13841, Zfp750
14	TMEM63C	ENSG00000165548	ENST00000557408	protein_coding	KNOWN	None	23787	71	22	77582911	77685227	1	C14orf171	DKFZp434P0111
14	TMEM63C	ENSG00000165548	ENST00000555338	protein_coding	KNOWN	None	23787	154	50	77642193	77685844	1	C14orf171	DKFZp434P0111
14	TMEM63C	ENSG00000165548	ENST00000556514	protein_coding	KNOWN	None	23787	109	35	77642196	77685265	1	C14orf171	DKFZp434P0111
14	TMEM63C	ENSG00000165548	ENST00000555588	retained_intron	KNOWN	None	23787	None	None	77642199	77679973	1	C14orf171	DKFZp434P0111
14	TMEM63C	ENSG00000165548	ENST00000554766	protein_coding	KNOWN	None	23787	493	163	77647966	77698073	1	C14orf171	DKFZp434P0111
14	TMEM63C	ENSG00000165548	ENST00000554346	protein_coding	KNOWN	None	23787	150	49	77648170	77685306	1	C14orf171	DKFZp434P0111
14	TMEM63C	ENSG00000165548	ENST00000298351	protein_coding	KNOWN	CCDS45141	23787	2421	806	77648170	77725838	1	C14orf171	DKFZp434P0111
14	TMEM63C	ENSG00000165548	ENST00000557504	retained_intron	KNOWN	None	23787	None	None	77718052	77723137	1	C14orf171	DKFZp434P0111
7	BAZ1B	ENSG00000009954	ENST00000339594	protein_coding	KNOWN	CCDS5549	961	4452	1483	72854728	72936602	-1	WBSCR9, WBSCR10	WSTF
7	BAZ1B	ENSG00000009954	ENST00000404251	protein_coding	KNOWN	CCDS5549	961	4452	1483	72855895	72936608	-1	WBSCR9, WBSCR10	WSTF
7	BAZ1B	ENSG00000009954	ENST00000466844	retained_intron	KNOWN	None	961	None	None	72876794	72880717	-1	WBSCR9, WBSCR10	WSTF
14	EIF5	ENSG00000100664	ENST00000560877	processed_transcript	PUTATIVE	None	3299	None	None	103799881	103802181	1	None	None
14	EIF5	ENSG00000100664	ENST00000216554	protein_coding	KNOWN	CCDS9980	3299	1296	431	103800339	103811362	1	None	None
14	EIF5	ENSG00000100664	ENST00000559249	retained_intron	KNOWN	None	3299	None	None	103800526	103802515	1	None	None
14	EIF5	ENSG00000100664	ENST00000560338	protein_coding	KNOWN	None	3299	303	100	103800529	103803162	1	None	None
14	EIF5	ENSG00000100664	ENST00000560763	protein_coding	KNOWN	None	3299	154	50	103800574	103802454	1	None	None
14	EIF5	ENSG00000100664	ENST00000560200	processed_transcript	KNOWN	None	3299	None	None	103800724	103803564	1	None	None
14	EIF5	ENSG00000100664	ENST00000558316	protein_coding	KNOWN	None	3299	439	145	103800724	103803564	1	None	None
14	EIF5	ENSG00000100664	ENST00000558265	protein_coding	KNOWN	None	3299	601	199	103800729	103805087	1	None	None
14	EIF5	ENSG00000100664	ENST00000561325	protein_coding	KNOWN	None	3299	327	108	103801140	103803186	1	None	None
14	EIF5	ENSG00000100664	ENST00000392715	protein_coding	KNOWN	CCDS9980	3299	1296	431	103801198	103808977	1	None	None
14	EIF5	ENSG00000100664	ENST00000559130	protein_coding	KNOWN	None	3299	206	67	103801231	103803065	1	None	None
14	EIF5	ENSG00000100664	ENST00000559532	protein_coding	KNOWN	None	3299	327	108	103801233	103803186	1	None	None
14	EIF5	ENSG00000100664	ENST00000558506	protein_coding	KNOWN	CCDS9980	3299	1296	431	103801286	103809565	1	None	None
14	EIF5	ENSG00000100664	ENST00000558551	retained_intron	KNOWN	None	3299	None	None	103801818	103803223	1	None	None
14	EIF5	ENSG00000100664	ENST00000561439	retained_intron	KNOWN	None	3299	None	None	103802843	103805188	1	None	None
14	EIF5	ENSG00000100664	ENST00000561023	retained_intron	KNOWN	None	3299	None	None	103803022	103804685	1	None	None
14	EIF5	ENSG00000100664	ENST00000559923	retained_intron	KNOWN	None	3299	None	None	103803101	103804074	1	None	None
14	EIF5	ENSG00000100664	ENST00000559011	retained_intron	KNOWN	None	3299	None	None	103804514	103805161	1	None	None
14	EIF5	ENSG00000100664	ENST00000561380	retained_intron	KNOWN	None	3299	None	None	103805072	103806898	1	None	None
14	EIF5	ENSG00000100664	ENST00000558800	retained_intron	KNOWN	None	3299	None	None	103806741	103807693	1	None	None
14	EIF5	ENSG00000100664	ENST00000561406	processed_transcript	PUTATIVE	None	3299	None	None	103807307	103808723	1	None	None
20	None	ENSG00000213742	ENST00000414393	antisense	KNOWN	None	None	None	None	25604681	25658710	1	None	None
20	None	ENSG00000213742	ENST00000455791	antisense	KNOWN	None	None	None	None	25604695	25657688	1	None	None
20	None	ENSG00000213742	ENST00000439498	antisense	KNOWN	None	None	None	None	25604695	25658184	1	None	None
20	None	ENSG00000213742	ENST00000428254	antisense	KNOWN	None	None	None	None	25604793	25654544	1	None	None
20	None	ENSG00000213742	ENST00000420803	antisense	KNOWN	None	None	None	None	25604869	25650980	1	None	None
20	None	ENSG00000213742	ENST00000421829	antisense	KNOWN	None	None	None	None	25612846	25655538	1	None	None
6	CLIC1	ENSG00000213719	ENST00000375784	protein_coding	KNOWN	CCDS4719	2062	726	241	31698358	31704344	-1	None	NCC27, p64CLCP
6	CLIC1	ENSG00000213719	ENST00000375779	protein_coding	KNOWN	CCDS4719	2062	726	241	31698358	31704349	-1	None	NCC27, p64CLCP
6	CLIC1	ENSG00000213719	ENST00000375780	protein_coding	KNOWN	CCDS4719	2062	726	241	31698358	31705095	-1	None	NCC27, p64CLCP
6	CLIC1	ENSG00000213719	ENST00000395892	protein_coding	KNOWN	CCDS4719	2062	726	241	31698358	31707540	-1	None	NCC27, p64CLCP
2	MAP2	ENSG00000078018	ENST00000199940	protein_coding	KNOWN	CCDS33369	6839	1680	559	210288782	210595242	1	None	MAP2A, MAP2B, MAP2C
2	MAP2	ENSG00000078018	ENST00000392193	protein_coding	KNOWN	None	6839	319	105	210444039	210543352	1	None	MAP2A, MAP2B, MAP2C
2	MAP2	ENSG00000078018	ENST00000360351	protein_coding	KNOWN	CCDS2384	6839	5484	1827	210444145	210598842	1	None	MAP2A, MAP2B, MAP2C
2	MAP2	ENSG00000078018	ENST00000361559	protein_coding	KNOWN	CCDS2385	6839	1416	471	210444155	210595247	1	None	MAP2A, MAP2B, MAP2C
2	MAP2	ENSG00000078018	ENST00000445941	protein_coding	NOVEL	None	6839	1701	566	210444333	210558349	1	None	MAP2A, MAP2B, MAP2C
2	MAP2	ENSG00000078018	ENST00000392194	protein_coding	KNOWN	CCDS2385	6839	1416	471	210444765	210598842	1	None	MAP2A, MAP2B, MAP2C
2	MAP2	ENSG00000078018	ENST00000447185	protein_coding	KNOWN	None	6839	5472	1823	210517895	210595121	1	None	MAP2A, MAP2B, MAP2C
2	MAP2	ENSG00000078018	ENST00000452717	protein_coding	NOVEL	None	6839	624	207	210518117	210570414	1	None	MAP2A, MAP2B, MAP2C
2	MAP2	ENSG00000078018	ENST00000471619	processed_transcript	KNOWN	None	6839	None	None	210526189	210574988	1	None	MAP2A, MAP2B, MAP2C
2	MAP2	ENSG00000078018	ENST00000482864	processed_transcript	KNOWN	None	6839	None	None	210526239	210561472	1	None	MAP2A, MAP2B, MAP2C
2	MAP2	ENSG00000078018	ENST00000461253	processed_transcript	PUTATIVE	None	6839	None	None	210549357	210557886	1	None	MAP2A, MAP2B, MAP2C
2	MAP2	ENSG00000078018	ENST00000481649	processed_transcript	PUTATIVE	None	6839	None	None	210555327	210557516	1	None	MAP2A, MAP2B, MAP2C
2	MAP2	ENSG00000078018	ENST00000475600	processed_transcript	KNOWN	None	6839	None	None	210561038	210594592	1	None	MAP2A, MAP2B, MAP2C
2	MAP2	ENSG00000078018	ENST00000464007	retained_intron	KNOWN	None	6839	None	None	210570106	210574885	1	None	MAP2A, MAP2B, MAP2C
2	MAP2	ENSG00000078018	ENST00000478233	retained_intron	KNOWN	None	6839	None	None	210570304	210575303	1	None	MAP2A, MAP2B, MAP2C
2	MAP2	ENSG00000078018	ENST00000473543	processed_transcript	PUTATIVE	None	6839	None	None	210574678	210575536	1	None	MAP2A, MAP2B, MAP2C
17	B3GNTL1	ENSG00000175711	ENST00000572977	nonsense_mediated_decay	KNOWN	None	21727	552	183	80900031	80964864	-1	None	B3GNT8
17	B3GNTL1	ENSG00000175711	ENST00000572267	processed_transcript	PUTATIVE	None	21727	None	None	80900341	80901925	-1	None	B3GNT8
17	B3GNTL1	ENSG00000175711	ENST00000573363	retained_intron	KNOWN	None	21727	None	None	80901667	80914677	-1	None	B3GNT8
17	B3GNTL1	ENSG00000175711	ENST00000570947	processed_transcript	PUTATIVE	None	21727	None	None	80901667	81006658	-1	None	B3GNT8
17	B3GNTL1	ENSG00000175711	ENST00000576599	protein_coding	PUTATIVE	None	21727	753	250	80901667	81007042	-1	None	B3GNT8
17	B3GNTL1	ENSG00000175711	ENST00000320865	protein_coding	KNOWN	CCDS32778	21727	1086	361	80901667	81009686	-1	None	B3GNT8
17	B3GNTL1	ENSG00000175711	ENST00000571301	retained_intron	KNOWN	None	21727	None	None	80901672	80907824	-1	None	B3GNT8
17	B3GNTL1	ENSG00000175711	ENST00000571394	retained_intron	KNOWN	None	21727	None	None	80904770	80919208	-1	None	B3GNT8
17	B3GNTL1	ENSG00000175711	ENST00000571954	processed_transcript	KNOWN	None	21727	None	None	80918252	81007016	-1	None	B3GNT8
17	B3GNTL1	ENSG00000175711	ENST00000573629	processed_transcript	KNOWN	None	21727	None	None	80969304	81006660	-1	None	B3GNT8
17	B3GNTL1	ENSG00000175711	ENST00000571218	nonsense_mediated_decay	KNOWN	None	21727	162	53	80988637	81009685	-1	None	B3GNT8
X	CT45A2	ENSG00000242185	ENST00000370736	protein_coding	KNOWN	CCDS44002	28400	570	189	134866214	134874250	1	None	CT45-2, CT45.2
X	CT45A2	ENSG00000242185	ENST00000471213	nonsense_mediated_decay	KNOWN	CCDS44002	28400	570	189	134866214	134875839	1	None	CT45-2, CT45.2
X	CT45A2	ENSG00000242185	ENST00000495729	protein_coding	KNOWN	CCDS44002	28400	570	189	134866399	134874235	1	None	CT45-2, CT45.2
5	TPPP	ENSG00000171368	ENST00000360578	protein_coding	KNOWN	CCDS3856	24164	660	219	660883	693510	-1	None	p25alpha, TPPP1, p25, TPPP/p25
12	SP7	ENSG00000170374	ENST00000536324	protein_coding	KNOWN	CCDS44897	17321	1296	431	53720362	53730166	-1	None	osterix, OSX
12	SP7	ENSG00000170374	ENST00000303846	protein_coding	KNOWN	CCDS44897	17321	1296	431	53720363	53729538	-1	None	osterix, OSX
12	SP7	ENSG00000170374	ENST00000537210	protein_coding	NOVEL	None	17321	1242	413	53721930	53730126	-1	None	osterix, OSX
12	SP7	ENSG00000170374	ENST00000547755	protein_coding	PUTATIVE	None	17321	807	268	53722365	53739099	-1	None	osterix, OSX
5	DHFR	ENSG00000228716	ENST00000439211	protein_coding	KNOWN	CCDS47240	2861	564	187	79922047	79950802	-1	None	None
5	DHFR	ENSG00000228716	ENST00000505337	protein_coding	KNOWN	CCDS47240	2861	564	187	79923836	79950493	-1	None	None
5	DHFR	ENSG00000228716	ENST00000511032	protein_coding	NOVEL	None	2861	390	129	79923943	79950371	-1	None	None
5	DHFR	ENSG00000228716	ENST00000504396	protein_coding	PUTATIVE	None	2861	408	135	79924042	79950377	-1	None	None
5	DHFR	ENSG00000228716	ENST00000513048	processed_transcript	KNOWN	None	2861	None	None	79924357	79950366	-1	None	None
5	DHFR	ENSG00000228716	ENST00000508282	retained_intron	KNOWN	None	2861	None	None	79924883	79949920	-1	None	None
5	DHFR	ENSG00000228716	ENST00000513314	retained_intron	KNOWN	None	2861	None	None	79944760	79949854	-1	None	None
2	POLE4	ENSG00000115350	ENST00000483063	protein_coding	KNOWN	CCDS1957	18755	354	117	75185619	75197255	1	None	p12
2	POLE4	ENSG00000115350	ENST00000485527	retained_intron	KNOWN	None	18755	None	None	75185832	75187363	1	None	p12
2	POLE4	ENSG00000115350	ENST00000459636	processed_transcript	KNOWN	None	18755	None	None	75185833	75188631	1	None	p12
2	POLE4	ENSG00000115350	ENST00000233699	processed_transcript	KNOWN	None	18755	None	None	75185919	75196858	1	None	p12
2	POLE4	ENSG00000115350	ENST00000465242	processed_transcript	KNOWN	None	18755	None	None	75186133	75196850	1	None	p12
2	POLE4	ENSG00000115350	ENST00000473023	retained_intron	KNOWN	None	18755	None	None	75186238	75187273	1	None	p12
7	CUX1	ENSG00000257923	ENST00000437600	protein_coding	KNOWN	CCDS47672	2557	2031	676	101458959	101927249	1	CUTL1	CDP, CDP1, CUX, CUT, Clox, CDP/Cut, CDP/Cux, Cux/CDP, CASP, GOLIM6
7	CUX1	ENSG00000257923	ENST00000497815	retained_intron	KNOWN	None	2557	None	None	101459240	101755290	1	CUTL1	CDP, CDP1, CUX, CUT, Clox, CDP/Cut, CDP/Cux, Cux/CDP, CASP, GOLIM6
7	CUX1	ENSG00000257923	ENST00000292538	protein_coding	KNOWN	CCDS5720	2557	2037	678	101459285	101927249	1	CUTL1	CDP, CDP1, CUX, CUT, Clox, CDP/Cut, CDP/Cux, Cux/CDP, CASP, GOLIM6
7	CUX1	ENSG00000257923	ENST00000607092	retained_intron	KNOWN	None	2557	None	None	101459288	101559867	1	CUTL1	CDP, CDP1, CUX, CUT, Clox, CDP/Cut, CDP/Cux, Cux/CDP, CASP, GOLIM6
7	CUX1	ENSG00000257923	ENST00000393824	protein_coding	KNOWN	CCDS59071	2557	1920	639	101459288	101926770	1	CUTL1	CDP, CDP1, CUX, CUT, Clox, CDP/Cut, CDP/Cux, Cux/CDP, CASP, GOLIM6
7	CUX1	ENSG00000257923	ENST00000547394	protein_coding	KNOWN	CCDS56500	2557	1989	662	101459289	101927249	1	CUTL1	CDP, CDP1, CUX, CUT, Clox, CDP/Cut, CDP/Cux, Cux/CDP, CASP, GOLIM6
7	CUX1	ENSG00000257923	ENST00000360264	protein_coding	KNOWN	CCDS56498	2557	4551	1516	101459291	101901513	1	CUTL1	CDP, CDP1, CUX, CUT, Clox, CDP/Cut, CDP/Cux, Cux/CDP, CASP, GOLIM6
7	CUX1	ENSG00000257923	ENST00000425244	protein_coding	NOVEL	CCDS56499	2557	1899	632	101459301	101927249	1	CUTL1	CDP, CDP1, CUX, CUT, Clox, CDP/Cut, CDP/Cux, Cux/CDP, CASP, GOLIM6
7	CUX1	ENSG00000257923	ENST00000292535	protein_coding	KNOWN	CCDS5721	2557	4518	1505	101460882	101901513	1	CUTL1	CDP, CDP1, CUX, CUT, Clox, CDP/Cut, CDP/Cux, Cux/CDP, CASP, GOLIM6
7	CUX1	ENSG00000257923	ENST00000549414	protein_coding	NOVEL	None	2557	4452	1483	101460920	101892322	1	CUTL1	CDP, CDP1, CUX, CUT, Clox, CDP/Cut, CDP/Cux, Cux/CDP, CASP, GOLIM6
7	CUX1	ENSG00000257923	ENST00000550008	protein_coding	KNOWN	None	2557	4350	1449	101460920	101892322	1	CUTL1	CDP, CDP1, CUX, CUT, Clox, CDP/Cut, CDP/Cux, Cux/CDP, CASP, GOLIM6
7	CUX1	ENSG00000257923	ENST00000546411	protein_coding	KNOWN	None	2557	4212	1403	101460920	101892322	1	CUTL1	CDP, CDP1, CUX, CUT, Clox, CDP/Cut, CDP/Cux, Cux/CDP, CASP, GOLIM6
7	CUX1	ENSG00000257923	ENST00000556210	protein_coding	KNOWN	None	2557	4044	1347	101460920	101892322	1	CUTL1	CDP, CDP1, CUX, CUT, Clox, CDP/Cut, CDP/Cux, Cux/CDP, CASP, GOLIM6
7	CUX1	ENSG00000257923	ENST00000558469	processed_transcript	KNOWN	None	2557	None	None	101462201	101755006	1	CUTL1	CDP, CDP1, CUX, CUT, Clox, CDP/Cut, CDP/Cux, Cux/CDP, CASP, GOLIM6
7	CUX1	ENSG00000257923	ENST00000560541	processed_transcript	KNOWN	None	2557	None	None	101556068	101927249	1	CUTL1	CDP, CDP1, CUX, CUT, Clox, CDP/Cut, CDP/Cux, Cux/CDP, CASP, GOLIM6
7	CUX1	ENSG00000257923	ENST00000558836	processed_transcript	KNOWN	None	2557	None	None	101575623	101927204	1	CUTL1	CDP, CDP1, CUX, CUT, Clox, CDP/Cut, CDP/Cux, Cux/CDP, CASP, GOLIM6
7	CUX1	ENSG00000257923	ENST00000606749	processed_transcript	KNOWN	None	2557	None	None	101602670	101747739	1	CUTL1	CDP, CDP1, CUX, CUT, Clox, CDP/Cut, CDP/Cux, Cux/CDP, CASP, GOLIM6
7	CUX1	ENSG00000257923	ENST00000465461	processed_transcript	KNOWN	None	2557	None	None	101747633	101769058	1	CUTL1	CDP, CDP1, CUX, CUT, Clox, CDP/Cut, CDP/Cux, Cux/CDP, CASP, GOLIM6
7	CUX1	ENSG00000257923	ENST00000485792	retained_intron	KNOWN	None	2557	None	None	101747717	101758950	1	CUTL1	CDP, CDP1, CUX, CUT, Clox, CDP/Cut, CDP/Cux, Cux/CDP, CASP, GOLIM6
7	CUX1	ENSG00000257923	ENST00000487284	protein_coding	NOVEL	None	2557	724	240	101917445	101927224	1	CUTL1	CDP, CDP1, CUX, CUT, Clox, CDP/Cut, CDP/Cux, Cux/CDP, CASP, GOLIM6
2	TACR1	ENSG00000115353	ENST00000305249	protein_coding	KNOWN	CCDS1958	11526	1224	407	75276231	75426826	-1	TAC1R	SPR, NK1R, NKIR
2	TACR1	ENSG00000115353	ENST00000409848	protein_coding	NOVEL	CCDS46345	11526	936	311	75278163	75426183	-1	TAC1R	SPR, NK1R, NKIR
2	TACR1	ENSG00000115353	ENST00000497764	processed_transcript	KNOWN	None	11526	None	None	75345933	75347892	-1	TAC1R	SPR, NK1R, NKIR
17	TRPV2	ENSG00000187688	ENST00000338560	protein_coding	KNOWN	CCDS32576	18082	2295	764	16318856	16340317	1	None	VRL, VRL-1, VRL1
17	TRPV2	ENSG00000187688	ENST00000455666	protein_coding	PUTATIVE	None	18082	796	264	16322651	16327081	1	None	VRL, VRL-1, VRL1
17	TRPV2	ENSG00000187688	ENST00000583241	processed_transcript	PUTATIVE	None	18082	None	None	16331644	16335583	1	None	VRL, VRL-1, VRL1
17	TRPV2	ENSG00000187688	ENST00000577277	protein_coding	PUTATIVE	None	18082	232	76	16331690	16340317	1	None	VRL, VRL-1, VRL1
17	TRPV2	ENSG00000187688	ENST00000581560	protein_coding	PUTATIVE	None	18082	417	138	16335369	16340317	1	None	VRL, VRL-1, VRL1
17	TRPV2	ENSG00000187688	ENST00000580788	protein_coding	PUTATIVE	None	18082	289	95	16335380	16340317	1	None	VRL, VRL-1, VRL1
17	TRPV2	ENSG00000187688	ENST00000577865	protein_coding	PUTATIVE	None	18082	273	90	16335552	16340315	1	None	VRL, VRL-1, VRL1
17	TRPV2	ENSG00000187688	ENST00000475513	retained_intron	KNOWN	None	18082	None	None	16336546	16340317	1	None	VRL, VRL-1, VRL1
17	TRPV2	ENSG00000187688	ENST00000493434	retained_intron	KNOWN	None	18082	None	None	16338016	16340317	1	None	VRL, VRL-1, VRL1
17	TRPV2	ENSG00000187688	ENST00000577397	protein_coding	KNOWN	None	18082	1005	334	16318926	16340315	1	None	VRL, VRL-1, VRL1
16	DCTN5	ENSG00000166847	ENST00000300087	protein_coding	KNOWN	CCDS10615	24594	549	182	23652713	23681195	1	None	MGC3248, p25
16	DCTN5	ENSG00000166847	ENST00000563998	protein_coding	KNOWN	CCDS58436	24594	459	152	23652792	23678692	1	None	MGC3248, p25
16	DCTN5	ENSG00000166847	ENST00000566053	nonsense_mediated_decay	KNOWN	None	24594	162	53	23652797	23678539	1	None	MGC3248, p25
16	DCTN5	ENSG00000166847	ENST00000568589	protein_coding	PUTATIVE	None	24594	468	155	23652832	23677338	1	None	MGC3248, p25
16	DCTN5	ENSG00000166847	ENST00000563188	nonsense_mediated_decay	KNOWN	None	24594	228	75	23652834	23677014	1	None	MGC3248, p25
16	DCTN5	ENSG00000166847	ENST00000568272	protein_coding	PUTATIVE	CCDS58435	24594	255	84	23652850	23662468	1	None	MGC3248, p25
16	DCTN5	ENSG00000166847	ENST00000566298	protein_coding	PUTATIVE	None	24594	298	98	23653908	23677022	1	None	MGC3248, p25
16	DCTN5	ENSG00000166847	ENST00000563614	retained_intron	KNOWN	None	24594	None	None	23677789	23681193	1	None	MGC3248, p25
15	ZNF280D	ENSG00000137871	ENST00000558067	nonsense_mediated_decay	KNOWN	None	25953	1266	421	56922379	56974614	-1	SUHW4	FLJ20086, ZNF634
15	ZNF280D	ENSG00000137871	ENST00000559237	protein_coding	KNOWN	CCDS42041	25953	2901	966	56922379	57026284	-1	SUHW4	FLJ20086, ZNF634
15	ZNF280D	ENSG00000137871	ENST00000267807	protein_coding	KNOWN	CCDS32245	25953	2940	979	56922525	57025787	-1	SUHW4	FLJ20086, ZNF634
15	ZNF280D	ENSG00000137871	ENST00000559446	processed_transcript	PUTATIVE	None	25953	None	None	56923496	56927976	-1	SUHW4	FLJ20086, ZNF634
15	ZNF280D	ENSG00000137871	ENST00000559182	processed_transcript	KNOWN	None	25953	None	None	56924041	56937537	-1	SUHW4	FLJ20086, ZNF634
15	ZNF280D	ENSG00000137871	ENST00000560388	processed_transcript	PUTATIVE	None	25953	None	None	56927373	56935342	-1	SUHW4	FLJ20086, ZNF634
15	ZNF280D	ENSG00000137871	ENST00000560002	nonsense_mediated_decay	KNOWN	None	25953	1779	592	56944688	56999516	-1	SUHW4	FLJ20086, ZNF634
15	ZNF280D	ENSG00000137871	ENST00000559000	protein_coding	PUTATIVE	None	25953	2244	747	56945009	57210769	-1	SUHW4	FLJ20086, ZNF634
15	ZNF280D	ENSG00000137871	ENST00000558002	nonsense_mediated_decay	KNOWN	None	25953	1608	535	56958693	57025705	-1	SUHW4	FLJ20086, ZNF634
15	ZNF280D	ENSG00000137871	ENST00000560121	retained_intron	KNOWN	None	25953	None	None	56958710	56971019	-1	SUHW4	FLJ20086, ZNF634
15	ZNF280D	ENSG00000137871	ENST00000561126	processed_transcript	PUTATIVE	None	25953	None	None	56980987	56985404	-1	SUHW4	FLJ20086, ZNF634
15	ZNF280D	ENSG00000137871	ENST00000558320	protein_coding	NOVEL	CCDS58364	25953	477	158	56989961	57025692	-1	SUHW4	FLJ20086, ZNF634
15	ZNF280D	ENSG00000137871	ENST00000559352	protein_coding	KNOWN	None	25953	241	79	56993371	57025728	-1	SUHW4	FLJ20086, ZNF634
15	ZNF280D	ENSG00000137871	ENST00000560298	processed_transcript	PUTATIVE	None	25953	None	None	57024802	57025775	-1	SUHW4	FLJ20086, ZNF634
15	ZNF280D	ENSG00000137871	ENST00000559920	processed_transcript	KNOWN	None	25953	None	None	57151866	57209846	-1	SUHW4	FLJ20086, ZNF634
15	ZNF280D	ENSG00000137871	ENST00000561122	processed_transcript	KNOWN	None	25953	None	None	57178368	57210697	-1	SUHW4	FLJ20086, ZNF634
15	ZNF280D	ENSG00000137871	ENST00000560587	processed_transcript	KNOWN	None	25953	None	None	57208924	57210691	-1	SUHW4	FLJ20086, ZNF634
15	ZNF280D	ENSG00000137871	ENST00000396245	protein_coding	KNOWN	None	25953	1266	421	56946944	57026284	-1	SUHW4	FLJ20086, ZNF634
5	ANKRD55	ENSG00000164512	ENST00000341048	protein_coding	KNOWN	CCDS34161	25681	1845	614	55395507	55529186	-1	None	FLJ11795
5	ANKRD55	ENSG00000164512	ENST00000504958	protein_coding	PUTATIVE	None	25681	1716	571	55395600	55528753	-1	None	FLJ11795
5	ANKRD55	ENSG00000164512	ENST00000434982	protein_coding	KNOWN	None	25681	981	326	55395709	55412778	-1	None	FLJ11795
5	ANKRD55	ENSG00000164512	ENST00000505970	processed_transcript	KNOWN	None	25681	None	None	55407405	55456756	-1	None	FLJ11795
5	ANKRD55	ENSG00000164512	ENST00000513241	protein_coding	PUTATIVE	None	25681	537	178	55439610	55529121	-1	None	FLJ11795
5	ANKRD55	ENSG00000164512	ENST00000519114	processed_transcript	KNOWN	None	25681	None	None	55472062	55529154	-1	None	FLJ11795
10	SFRP5	ENSG00000120057	ENST00000266066	protein_coding	KNOWN	CCDS7472	10779	954	317	99526508	99531709	-1	None	SARP3
17	METRNL	ENSG00000176845	ENST00000320095	protein_coding	KNOWN	CCDS32779	27584	936	311	81037567	81052864	1	None	None
17	METRNL	ENSG00000176845	ENST00000570778	protein_coding	PUTATIVE	None	27584	690	229	81038075	81052490	1	None	None
17	METRNL	ENSG00000176845	ENST00000571814	protein_coding	PUTATIVE	None	27584	690	229	81041949	81052589	1	None	None
17	METRNL	ENSG00000176845	ENST00000571940	processed_transcript	PUTATIVE	None	27584	None	None	81050196	81052221	1	None	None
17	METRNL	ENSG00000176845	ENST00000574053	protein_coding	NOVEL	None	27584	273	90	81051994	81052592	1	None	None
9	PIGO	ENSG00000165282	ENST00000298004	protein_coding	KNOWN	CCDS6576	23215	2019	672	35088685	35096217	-1	None	DKFZp434M222, FLJ00135
9	PIGO	ENSG00000165282	ENST00000474436	retained_intron	KNOWN	None	23215	None	None	35088687	35096547	-1	None	DKFZp434M222, FLJ00135
9	PIGO	ENSG00000165282	ENST00000378617	protein_coding	KNOWN	CCDS6575	23215	3270	1089	35088688	35096545	-1	None	DKFZp434M222, FLJ00135
9	PIGO	ENSG00000165282	ENST00000465745	retained_intron	KNOWN	None	23215	None	None	35088690	35096573	-1	None	DKFZp434M222, FLJ00135
9	PIGO	ENSG00000165282	ENST00000491687	processed_transcript	KNOWN	None	23215	None	None	35088732	35090666	-1	None	DKFZp434M222, FLJ00135
9	PIGO	ENSG00000165282	ENST00000472208	processed_transcript	KNOWN	None	23215	None	None	35094209	35096251	-1	None	DKFZp434M222, FLJ00135
9	PIGO	ENSG00000165282	ENST00000492770	processed_transcript	KNOWN	None	23215	None	None	35095141	35096591	-1	None	DKFZp434M222, FLJ00135
9	PIGO	ENSG00000165282	ENST00000341666	protein_coding	KNOWN	CCDS6575	23215	3270	1089	35088692	35096579	-1	None	DKFZp434M222, FLJ00135
9	PIGO	ENSG00000165282	ENST00000361778	protein_coding	KNOWN	CCDS6576	23215	2019	672	35088692	35096579	-1	None	DKFZp434M222, FLJ00135
20	RN7SL594P	ENSG00000242236	ENST00000470590	misc_RNA	KNOWN	None	46610	None	None	25635232	25635517	-1	None	None
11	METTL12	ENSG00000214756	ENST00000398922	processed_transcript	KNOWN	None	33113	None	None	62432781	62434869	1	None	U99HG
11	METTL12	ENSG00000214756	ENST00000532971	protein_coding	KNOWN	CCDS41657	33113	723	240	62432781	62435580	1	None	U99HG
11	METTL12	ENSG00000214756	ENST00000529868	retained_intron	KNOWN	None	33113	None	None	62432785	62435968	1	None	U99HG
11	METTL12	ENSG00000214756	ENST00000594728	processed_transcript	KNOWN	None	33113	None	None	62432808	62433183	1	None	U99HG
17	None	ENSG00000263444	ENST00000582259	miRNA	NOVEL	None	None	None	None	4961	5048	-1	None	None
10	FAM21C	ENSG00000172661	ENST00000374362	protein_coding	KNOWN	CCDS44374	23414	3963	1320	46222667	46288409	1	None	Em:AC012044.3, KIAA0592
10	FAM21C	ENSG00000172661	ENST00000420848	protein_coding	NOVEL	None	23414	838	278	46222736	46247001	1	None	Em:AC012044.3, KIAA0592
10	FAM21C	ENSG00000172661	ENST00000485850	retained_intron	KNOWN	None	23414	None	None	46235639	46240391	1	None	Em:AC012044.3, KIAA0592
10	FAM21C	ENSG00000172661	ENST00000374359	retained_intron	KNOWN	None	23414	None	None	46274464	46281411	1	None	Em:AC012044.3, KIAA0592
10	FAM21C	ENSG00000172661	ENST00000471102	retained_intron	KNOWN	None	23414	None	None	46281818	46288049	1	None	Em:AC012044.3, KIAA0592
10	FAM21C	ENSG00000172661	ENST00000336378	protein_coding	KNOWN	None	23414	3957	1318	46222648	46288409	1	None	Em:AC012044.3, KIAA0592
10	FAM21C	ENSG00000172661	ENST00000540872	protein_coding	KNOWN	CCDS53528	23414	3840	1279	46222648	46288409	1	None	Em:AC012044.3, KIAA0592
10	FAM21C	ENSG00000172661	ENST00000537517	protein_coding	KNOWN	CCDS53529	23414	3738	1245	46222648	46288409	1	None	Em:AC012044.3, KIAA0592
10	FAM21C	ENSG00000172661	ENST00000359860	protein_coding	KNOWN	None	23414	3789	1262	46222684	46288409	1	None	Em:AC012044.3, KIAA0592
20	MED28P7	ENSG00000236542	ENST00000456611	processed_pseudogene	KNOWN	None	45084	None	None	25650493	25651022	-1	None	None
6	GTF2H5	ENSG00000272047	ENST00000607778	protein_coding	KNOWN	CCDS5256	21157	216	71	158589384	158620376	1	C6orf175, TTD	FLJ30544, bA120J8.2, TTD-A, TFB5, TFIIH
2	EVA1A	ENSG00000115363	ENST00000490746	processed_transcript	KNOWN	None	25816	None	None	75696428	75788049	-1	TMEM166, FAM176A	FLJ13391
2	EVA1A	ENSG00000115363	ENST00000485891	processed_transcript	KNOWN	None	25816	None	None	75696428	75788062	-1	TMEM166, FAM176A	FLJ13391
2	EVA1A	ENSG00000115363	ENST00000393913	protein_coding	KNOWN	CCDS1959	25816	459	152	75719444	75788039	-1	TMEM166, FAM176A	FLJ13391
2	EVA1A	ENSG00000115363	ENST00000410113	protein_coding	KNOWN	CCDS1959	25816	459	152	75719612	75788064	-1	TMEM166, FAM176A	FLJ13391
2	EVA1A	ENSG00000115363	ENST00000410010	protein_coding	PUTATIVE	None	25816	423	140	75720200	75745098	-1	TMEM166, FAM176A	FLJ13391
2	EVA1A	ENSG00000115363	ENST00000410071	protein_coding	KNOWN	CCDS1959	25816	459	152	75720277	75788424	-1	TMEM166, FAM176A	FLJ13391
2	EVA1A	ENSG00000115363	ENST00000432649	protein_coding	KNOWN	None	25816	428	141	75720393	75788455	-1	TMEM166, FAM176A	FLJ13391
2	EVA1A	ENSG00000115363	ENST00000452003	protein_coding	KNOWN	None	25816	303	100	75720518	75745829	-1	TMEM166, FAM176A	FLJ13391
2	EVA1A	ENSG00000115363	ENST00000486696	processed_transcript	KNOWN	None	25816	None	None	75745184	75796824	-1	TMEM166, FAM176A	FLJ13391
2	EVA1A	ENSG00000115363	ENST00000486489	processed_transcript	KNOWN	None	25816	None	None	75785609	75788449	-1	TMEM166, FAM176A	FLJ13391
2	EVA1A	ENSG00000115363	ENST00000233712	protein_coding	KNOWN	CCDS1959	25816	459	152	75719444	75796848	-1	TMEM166, FAM176A	FLJ13391
20	VN1R108P	ENSG00000230772	ENST00000431580	unprocessed_pseudogene	KNOWN	None	37432	None	None	25714900	25715729	1	None	None
14	ZDHHC22	ENSG00000177108	ENST00000319374	protein_coding	KNOWN	CCDS45140	20106	792	263	77597613	77608134	-1	C14orf59	None
14	ZDHHC22	ENSG00000177108	ENST00000555389	protein_coding	KNOWN	None	20106	329	108	77605753	77607087	-1	C14orf59	None
14	ZDHHC22	ENSG00000177108	ENST00000555327	protein_coding	KNOWN	None	20106	122	39	77605960	77609077	-1	C14orf59	None
17	None	ENSG00000262836	ENST00000576171	lincRNA	KNOWN	None	None	None	None	33615	41378	-1	None	None
17	None	ENSG00000262920	ENST00000570501	antisense	KNOWN	None	None	None	None	171183	172244	1	None	None
17	None	ENSG00000262920	ENST00000572998	antisense	KNOWN	None	None	None	None	171308	172244	1	None	None
X	CT45A3	ENSG00000232417	ENST00000370734	protein_coding	KNOWN	CCDS35404	33268	570	189	134883488	134891521	1	None	CT45-3, CT45.3
X	CT45A3	ENSG00000232417	ENST00000485366	nonsense_mediated_decay	KNOWN	CCDS35404	33268	570	189	134883488	134893393	1	None	CT45-3, CT45.3
X	CT45A3	ENSG00000232417	ENST00000443882	protein_coding	KNOWN	CCDS35404	33268	570	189	134887233	134891519	1	None	CT45-3, CT45.3
17	None	ENSG00000262061	ENST00000570711	antisense	KNOWN	None	None	None	None	180996	183279	1	None	None
17	None	ENSG00000262061	ENST00000575743	retained_intron	KNOWN	None	None	None	None	181025	183276	1	None	None
17	None	ENSG00000262061	ENST00000575899	retained_intron	KNOWN	None	None	None	None	181306	181942	1	None	None
17	None	ENSG00000262061	ENST00000573601	antisense	KNOWN	None	None	None	None	181933	183235	1	None	None
X	MTCP1	ENSG00000214827	ENST00000504061	nonsense_mediated_decay	KNOWN	None	7423	30	9	154289897	154293794	-1	None	P13MTCP1, p8MTCP1
X	MTCP1	ENSG00000214827	ENST00000369476	protein_coding	KNOWN	CCDS44027	7423	324	107	154292309	154299501	-1	None	P13MTCP1, p8MTCP1
X	MTCP1	ENSG00000214827	ENST00000482244	processed_transcript	KNOWN	None	7423	None	None	154293203	154299411	-1	None	P13MTCP1, p8MTCP1
X	MTCP1	ENSG00000214827	ENST00000476116	processed_transcript	KNOWN	None	7423	None	None	154293438	154376212	-1	None	P13MTCP1, p8MTCP1
X	MTCP1	ENSG00000214827	ENST00000362018	protein_coding	KNOWN	CCDS44027	7423	324	107	154293596	154376050	-1	None	P13MTCP1, p8MTCP1
17	None	ENSG00000262294	ENST00000572499	antisense	KNOWN	None	None	None	None	202429	207372	1	None	None
17	None	ENSG00000262558	ENST00000571512	antisense	KNOWN	None	None	None	None	204528	206673	1	None	None
6	FIG4	ENSG00000112367	ENST00000230124	protein_coding	KNOWN	CCDS5078	16873	2724	907	110012515	110146631	1	KIAA0274	SAC3, hSac3, dJ249I4.1, ALS11, CMT4J
6	FIG4	ENSG00000112367	ENST00000454215	protein_coding	KNOWN	None	16873	712	236	110022923	110059656	1	KIAA0274	SAC3, hSac3, dJ249I4.1, ALS11, CMT4J
6	FIG4	ENSG00000112367	ENST00000368941	protein_coding	KNOWN	None	16873	420	139	110037709	110064683	1	KIAA0274	SAC3, hSac3, dJ249I4.1, ALS11, CMT4J
6	FIG4	ENSG00000112367	ENST00000415980	protein_coding	KNOWN	None	16873	409	135	110087932	110106947	1	KIAA0274	SAC3, hSac3, dJ249I4.1, ALS11, CMT4J
6	FIG4	ENSG00000112367	ENST00000419951	protein_coding	KNOWN	None	16873	297	98	110107209	110112774	1	KIAA0274	SAC3, hSac3, dJ249I4.1, ALS11, CMT4J
6	FIG4	ENSG00000112367	ENST00000441478	protein_coding	KNOWN	None	16873	1806	601	110012499	110146627	1	KIAA0274	SAC3, hSac3, dJ249I4.1, ALS11, CMT4J
17	None	ENSG00000241525	ENST00000466740	antisense	KNOWN	None	None	None	None	254326	263814	-1	None	None
17	None	ENSG00000241525	ENST00000599026	antisense	KNOWN	None	None	None	None	254332	259822	-1	None	None
17	None	ENSG00000263015	ENST00000571282	antisense	KNOWN	None	None	None	None	406411	414587	1	None	None
6	TULP4	ENSG00000130338	ENST00000367094	protein_coding	KNOWN	CCDS34562	15530	2037	678	158733692	158929408	1	None	TUSP, KIAA1397
6	TULP4	ENSG00000130338	ENST00000367097	protein_coding	KNOWN	CCDS34561	15530	4632	1543	158733692	158932860	1	None	TUSP, KIAA1397
20	None	ENSG00000226465	ENST00000376445	antisense	KNOWN	None	None	None	None	25731854	25733397	1	None	None
17	None	ENSG00000263300	ENST00000570974	antisense	KNOWN	None	None	None	None	426380	443816	1	None	None
17	None	ENSG00000262905	ENST00000574008	antisense	KNOWN	None	None	None	None	455806	456657	1	None	None
2	UNC80	ENSG00000144406	ENST00000478701	processed_transcript	KNOWN	None	26582	None	None	210636717	210661271	1	C2orf21	FLJ33496, KIAA1843, UNC-80
2	UNC80	ENSG00000144406	ENST00000272845	protein_coding	KNOWN	CCDS2387	26582	9705	3234	210636763	210861282	1	C2orf21	FLJ33496, KIAA1843, UNC-80
2	UNC80	ENSG00000144406	ENST00000489023	retained_intron	KNOWN	None	26582	None	None	210693953	210835038	1	C2orf21	FLJ33496, KIAA1843, UNC-80
2	UNC80	ENSG00000144406	ENST00000477301	processed_transcript	KNOWN	None	26582	None	None	210709829	210737598	1	C2orf21	FLJ33496, KIAA1843, UNC-80
2	UNC80	ENSG00000144406	ENST00000481494	processed_transcript	KNOWN	None	26582	None	None	210816190	210824282	1	C2orf21	FLJ33496, KIAA1843, UNC-80
2	UNC80	ENSG00000144406	ENST00000333907	protein_coding	PUTATIVE	None	26582	1641	546	210824247	210847657	1	C2orf21	FLJ33496, KIAA1843, UNC-80
2	UNC80	ENSG00000144406	ENST00000477924	processed_transcript	KNOWN	None	26582	None	None	210825655	210860537	1	C2orf21	FLJ33496, KIAA1843, UNC-80
2	UNC80	ENSG00000144406	ENST00000439458	protein_coding	KNOWN	CCDS46504	26582	9777	3258	210636717	210864024	1	C2orf21	FLJ33496, KIAA1843, UNC-80
2	UNC80	ENSG00000144406	ENST00000539183	protein_coding	KNOWN	None	26582	1401	466	210826022	210847495	1	C2orf21	FLJ33496, KIAA1843, UNC-80
5	None	ENSG00000268885	ENST00000594226	protein_coding	KNOWN	None	None	744	247	667759	668839	1	None	None
17	None	ENSG00000262708	ENST00000574104	processed_pseudogene	KNOWN	None	None	None	None	519242	519835	1	None	None
17	RPS4XP17	ENSG00000244097	ENST00000479057	processed_pseudogene	KNOWN	None	36789	None	None	560034	560787	-1	RPS4P17	None
4	TMPRSS11A	ENSG00000187054	ENST00000508048	protein_coding	KNOWN	None	27954	1254	417	68775103	68829144	-1	None	ECRG1
4	TMPRSS11A	ENSG00000187054	ENST00000334830	protein_coding	KNOWN	CCDS3519	27954	1266	421	68776019	68829858	-1	None	ECRG1
4	TMPRSS11A	ENSG00000187054	ENST00000513536	protein_coding	PUTATIVE	None	27954	1158	385	68777028	68812282	-1	None	ECRG1
4	TMPRSS11A	ENSG00000187054	ENST00000396188	protein_coding	KNOWN	CCDS47065	27954	1257	418	68776019	68829232	-1	None	ECRG1
5	ZDHHC11	ENSG00000188818	ENST00000503758	processed_transcript	KNOWN	None	19158	None	None	795721	842610	-1	None	ZNF399, FLJ13153
5	ZDHHC11	ENSG00000188818	ENST00000283441	protein_coding	KNOWN	CCDS3857	19158	1239	412	795722	851101	-1	None	ZNF399, FLJ13153
5	ZDHHC11	ENSG00000188818	ENST00000507800	nonsense_mediated_decay	KNOWN	None	19158	666	221	796440	847714	-1	None	ZNF399, FLJ13153
5	ZDHHC11	ENSG00000188818	ENST00000508951	processed_transcript	KNOWN	None	19158	None	None	824123	850620	-1	None	ZNF399, FLJ13153
5	ZDHHC11	ENSG00000188818	ENST00000511193	protein_coding	PUTATIVE	None	19158	154	50	837551	849903	-1	None	ZNF399, FLJ13153
5	ZDHHC11	ENSG00000188818	ENST00000511539	protein_coding	PUTATIVE	None	19158	429	142	839557	843816	-1	None	ZNF399, FLJ13153
5	ZDHHC11	ENSG00000188818	ENST00000505815	retained_intron	KNOWN	None	19158	None	None	841693	843861	-1	None	ZNF399, FLJ13153
5	ZDHHC11	ENSG00000188818	ENST00000512190	retained_intron	KNOWN	None	19158	None	None	842524	843808	-1	None	ZNF399, FLJ13153
5	ZDHHC11	ENSG00000188818	ENST00000503880	retained_intron	KNOWN	None	19158	None	None	843457	847738	-1	None	ZNF399, FLJ13153
5	ZDHHC11	ENSG00000188818	ENST00000512775	processed_transcript	PUTATIVE	None	19158	None	None	847823	850738	-1	None	ZNF399, FLJ13153
5	ZDHHC11	ENSG00000188818	ENST00000424784	protein_coding	KNOWN	CCDS3857	19158	1239	412	710471	850720	-1	None	ZNF399, FLJ13153
2	MRPL19	ENSG00000115364	ENST00000493686	retained_intron	KNOWN	None	14052	None	None	75873909	75874819	1	None	MRP-L15, RPML15, KIAA0104, RLX1
2	MRPL19	ENSG00000115364	ENST00000393909	protein_coding	KNOWN	CCDS1960	14052	879	292	75873909	75884986	1	None	MRP-L15, RPML15, KIAA0104, RLX1
2	MRPL19	ENSG00000115364	ENST00000358788	protein_coding	PUTATIVE	None	14052	522	173	75873920	75917885	1	None	MRP-L15, RPML15, KIAA0104, RLX1
2	MRPL19	ENSG00000115364	ENST00000409374	protein_coding	KNOWN	CCDS1960	14052	879	292	75873929	75897879	1	None	MRP-L15, RPML15, KIAA0104, RLX1
2	MRPL19	ENSG00000115364	ENST00000476622	protein_coding	PUTATIVE	None	14052	430	142	75874105	75882256	1	None	MRP-L15, RPML15, KIAA0104, RLX1
2	MRPL19	ENSG00000115364	ENST00000492255	protein_coding	PUTATIVE	None	14052	175	57	75881914	75897933	1	None	MRP-L15, RPML15, KIAA0104, RLX1
2	MRPL19	ENSG00000115364	ENST00000453233	protein_coding	KNOWN	None	14052	240	79	75882026	75917977	1	None	MRP-L15, RPML15, KIAA0104, RLX1
17	PIGW	ENSG00000184886	ENST00000429467	protein_coding	KNOWN	None	23213	833	276	34890847	34893783	1	None	Gwt1, FLJ37433
17	PIGW	ENSG00000184886	ENST00000592983	protein_coding	KNOWN	CCDS11313	23213	1515	504	34890869	34894703	1	None	Gwt1, FLJ37433
17	PIGW	ENSG00000184886	ENST00000328396	protein_coding	KNOWN	CCDS11313	23213	1515	504	34891403	34895159	1	None	Gwt1, FLJ37433
8	TMEM68	ENSG00000167904	ENST00000522470	nonsense_mediated_decay	KNOWN	None	26510	204	67	56608983	56663693	-1	None	FLJ32370
8	TMEM68	ENSG00000167904	ENST00000519460	retained_intron	KNOWN	None	26510	None	None	56651317	56658606	-1	None	FLJ32370
8	TMEM68	ENSG00000167904	ENST00000434581	protein_coding	KNOWN	None	26510	975	324	56651317	56685913	-1	None	FLJ32370
8	TMEM68	ENSG00000167904	ENST00000334667	protein_coding	KNOWN	CCDS6161	26510	774	257	56651317	56685966	-1	None	FLJ32370
8	TMEM68	ENSG00000167904	ENST00000519784	protein_coding	PUTATIVE	None	26510	432	143	56652260	56685911	-1	None	FLJ32370
8	TMEM68	ENSG00000167904	ENST00000517576	nonsense_mediated_decay	KNOWN	None	26510	405	134	56652503	56668944	-1	None	FLJ32370
8	TMEM68	ENSG00000167904	ENST00000523073	protein_coding	PUTATIVE	None	26510	435	144	56652731	56685893	-1	None	FLJ32370
8	TMEM68	ENSG00000167904	ENST00000519780	protein_coding	PUTATIVE	None	26510	546	181	56656040	56685926	-1	None	FLJ32370
8	TMEM68	ENSG00000167904	ENST00000522090	protein_coding	KNOWN	None	26510	731	242	56657637	56685940	-1	None	FLJ32370
8	TMEM68	ENSG00000167904	ENST00000520061	nonsense_mediated_decay	KNOWN	None	26510	326	107	56657651	56675334	-1	None	FLJ32370
8	TMEM68	ENSG00000167904	ENST00000524121	retained_intron	KNOWN	None	26510	None	None	56663446	56668961	-1	None	FLJ32370
8	TMEM68	ENSG00000167904	ENST00000522030	protein_coding	NOVEL	None	26510	432	143	56663610	56675567	-1	None	FLJ32370
8	TMEM68	ENSG00000167904	ENST00000523423	protein_coding	KNOWN	None	26510	492	163	56668804	56685866	-1	None	FLJ32370
8	TMEM68	ENSG00000167904	ENST00000520414	protein_coding	KNOWN	None	26510	379	125	56668917	56685680	-1	None	FLJ32370
8	TMEM68	ENSG00000167904	ENST00000521229	protein_coding	KNOWN	None	26510	408	135	56673332	56685926	-1	None	FLJ32370
8	TMEM68	ENSG00000167904	ENST00000522576	protein_coding	KNOWN	None	26510	408	135	56674959	56685937	-1	None	FLJ32370
8	TMEM68	ENSG00000167904	ENST00000523180	protein_coding	KNOWN	None	26510	6	1	56675513	56685937	-1	None	FLJ32370
3	PODXL2	ENSG00000114631	ENST00000342480	protein_coding	KNOWN	CCDS3044	17936	1818	605	127348024	127391652	1	None	PODLX2, endoglycan
12	SP1	ENSG00000185591	ENST00000551969	protein_coding	NOVEL	None	11205	486	161	53773960	53776361	1	None	None
12	SP1	ENSG00000185591	ENST00000327443	protein_coding	KNOWN	CCDS8857	11205	2358	785	53773978	53805414	1	None	None
12	SP1	ENSG00000185591	ENST00000426431	protein_coding	KNOWN	CCDS44898	11205	2337	778	53774423	53810230	1	None	None
12	SP1	ENSG00000185591	ENST00000548560	protein_coding	KNOWN	None	11205	690	229	53775086	53776442	1	None	None
17	DBIL5P	ENSG00000231784	ENST00000536214	processed_transcript	KNOWN	None	38519	None	None	655900	658576	1	None	ELP2P
17	DBIL5P	ENSG00000231784	ENST00000449830	processed_transcript	KNOWN	None	38519	None	None	655907	658128	1	None	ELP2P
17	DBIL5P	ENSG00000231784	ENST00000453414	unitary_pseudogene	KNOWN	None	38519	None	None	656124	656373	1	None	ELP2P
17	DBIL5P	ENSG00000231784	ENST00000568946	processed_transcript	KNOWN	None	38519	None	None	657549	658128	1	None	ELP2P
X	CMC4	ENSG00000182712	ENST00000369484	protein_coding	KNOWN	CCDS14764	35428	207	68	154289897	154299637	-1	MTCP1, MTCP1NB	P8MTCP1, p8
X	CMC4	ENSG00000182712	ENST00000369479	protein_coding	KNOWN	CCDS14764	35428	207	68	154289903	154293643	-1	MTCP1, MTCP1NB	P8MTCP1, p8
17	None	ENSG00000196737	ENST00000358446	pseudogene	KNOWN	None	None	None	None	666805	668559	-1	None	None
17	None	ENSG00000262228	ENST00000570809	lincRNA	KNOWN	None	None	None	None	666805	668559	-1	None	None
17	None	ENSG00000262434	ENST00000574560	antisense	KNOWN	None	None	None	None	692984	693765	-1	None	None
17	None	ENSG00000262133	ENST00000573877	antisense	KNOWN	None	None	None	None	781142	783333	1	None	None
17	None	ENSG00000263017	ENST00000570544	processed_pseudogene	KNOWN	None	None	None	None	862274	862606	1	None	None
17	None	ENSG00000265403	ENST00000577885	miRNA	NOVEL	None	None	None	None	885276	885361	1	None	None
17	MIR3183	ENSG00000264429	ENST00000578566	miRNA	KNOWN	None	38237	None	None	925716	925799	-1	None	hsa-mir-3183
9	C9orf153	ENSG00000187753	ENST00000339137	protein_coding	KNOWN	None	31456	288	95	88835180	88874572	-1	None	bA507D14.1
9	C9orf153	ENSG00000187753	ENST00000469914	processed_transcript	KNOWN	None	31456	None	None	88836385	88844544	-1	None	bA507D14.1
9	C9orf153	ENSG00000187753	ENST00000376001	protein_coding	PUTATIVE	CCDS35055	31456	306	101	88842226	88874519	-1	None	bA507D14.1
17	None	ENSG00000235361	ENST00000438344	antisense	KNOWN	None	None	None	None	1085187	1088380	1	None	None
17	None	ENSG00000262213	ENST00000575911	lincRNA	KNOWN	None	None	None	None	1145233	1157294	-1	None	None
8	ANKRD46	ENSG00000186106	ENST00000520552	protein_coding	KNOWN	CCDS59109	27229	699	232	101521980	101571970	-1	None	None
8	ANKRD46	ENSG00000186106	ENST00000335659	protein_coding	KNOWN	CCDS6287	27229	687	228	101533000	101571987	-1	None	None
8	ANKRD46	ENSG00000186106	ENST00000519597	protein_coding	KNOWN	CCDS6287	27229	687	228	101533000	101572012	-1	None	None
8	ANKRD46	ENSG00000186106	ENST00000520311	protein_coding	KNOWN	CCDS6287	27229	687	228	101533004	101571939	-1	None	None
8	ANKRD46	ENSG00000186106	ENST00000519316	protein_coding	NOVEL	None	27229	528	175	101534742	101545553	-1	None	None
8	ANKRD46	ENSG00000186106	ENST00000358990	protein_coding	KNOWN	None	27229	585	194	101534885	101571987	-1	None	None
8	ANKRD46	ENSG00000186106	ENST00000524072	protein_coding	KNOWN	None	27229	309	102	101541753	101571754	-1	None	None
8	ANKRD46	ENSG00000186106	ENST00000523000	protein_coding	KNOWN	None	27229	257	84	101541805	101571979	-1	None	None
8	ANKRD46	ENSG00000186106	ENST00000521345	protein_coding	KNOWN	None	27229	247	81	101541815	101571974	-1	None	None
8	ANKRD46	ENSG00000186106	ENST00000520713	processed_transcript	KNOWN	None	27229	None	None	101562756	101569082	-1	None	None
8	ANKRD46	ENSG00000186106	ENST00000524319	processed_transcript	KNOWN	None	27229	None	None	101562756	101571871	-1	None	None
17	None	ENSG00000262777	ENST00000570924	antisense	KNOWN	None	None	None	None	1327767	1329657	1	None	None
17	None	ENSG00000262777	ENST00000576825	antisense	KNOWN	None	None	None	None	1328070	1329778	1	None	None
17	PITPNA-AS1	ENSG00000236618	ENST00000425081	antisense	KNOWN	None	44116	None	None	1420225	1421390	1	None	None
17	RN7SL105P	ENSG00000243704	ENST00000475661	misc_RNA	KNOWN	None	46121	None	None	1507670	1507966	-1	None	None
17	None	ENSG00000238946	ENST00000459614	snoRNA	NOVEL	None	None	None	None	1519486	1519589	-1	None	None
17	GGNBP2	ENSG00000005955	ENST00000304718	protein_coding	KNOWN	CCDS11314	19357	2094	697	34900737	34946278	1	ZNF403	ZFP403, LZK1, FLJ22561, FLJ21230, DIF-3, DIF3
17	GGNBP2	ENSG00000005955	ENST00000485685	protein_coding	PUTATIVE	None	19357	207	68	34900761	34903596	1	ZNF403	ZFP403, LZK1, FLJ22561, FLJ21230, DIF-3, DIF3
17	GGNBP2	ENSG00000005955	ENST00000486208	retained_intron	KNOWN	None	19357	None	None	34900768	34938907	1	ZNF403	ZFP403, LZK1, FLJ22561, FLJ21230, DIF-3, DIF3
17	GGNBP2	ENSG00000005955	ENST00000495023	retained_intron	KNOWN	None	19357	None	None	34900781	34942588	1	ZNF403	ZFP403, LZK1, FLJ22561, FLJ21230, DIF-3, DIF3
17	GGNBP2	ENSG00000005955	ENST00000593016	protein_coding	KNOWN	None	19357	474	157	34901353	34916658	1	ZNF403	ZFP403, LZK1, FLJ22561, FLJ21230, DIF-3, DIF3
17	GGNBP2	ENSG00000005955	ENST00000483256	retained_intron	KNOWN	None	19357	None	None	34933087	34942583	1	ZNF403	ZFP403, LZK1, FLJ22561, FLJ21230, DIF-3, DIF3
17	GGNBP2	ENSG00000005955	ENST00000586045	retained_intron	KNOWN	None	19357	None	None	34942323	34943257	1	ZNF403	ZFP403, LZK1, FLJ22561, FLJ21230, DIF-3, DIF3
17	GGNBP2	ENSG00000005955	ENST00000588222	protein_coding	PUTATIVE	None	19357	401	132	34942564	34944026	1	ZNF403	ZFP403, LZK1, FLJ22561, FLJ21230, DIF-3, DIF3
17	GGNBP2	ENSG00000005955	ENST00000589269	retained_intron	KNOWN	None	19357	None	None	34943366	34946007	1	ZNF403	ZFP403, LZK1, FLJ22561, FLJ21230, DIF-3, DIF3
17	MIR22HG	ENSG00000186594	ENST00000334146	lincRNA	KNOWN	None	28219	None	None	1614805	1619504	-1	C17orf91	MGC14376, DKFZp686O06159
17	MIR22HG	ENSG00000186594	ENST00000574306	lincRNA	KNOWN	None	28219	None	None	1614805	1619545	-1	C17orf91	MGC14376, DKFZp686O06159
17	MIR22HG	ENSG00000186594	ENST00000576749	lincRNA	KNOWN	None	28219	None	None	1615265	1619506	-1	C17orf91	MGC14376, DKFZp686O06159
17	MIR22HG	ENSG00000186594	ENST00000570416	lincRNA	KNOWN	None	28219	None	None	1615386	1619491	-1	C17orf91	MGC14376, DKFZp686O06159
17	MIR22HG	ENSG00000186594	ENST00000571595	lincRNA	KNOWN	None	28219	None	None	1615545	1619635	-1	C17orf91	MGC14376, DKFZp686O06159
17	MIR22HG	ENSG00000186594	ENST00000571091	lincRNA	KNOWN	None	28219	None	None	1615563	1619505	-1	C17orf91	MGC14376, DKFZp686O06159
17	MIR22HG	ENSG00000186594	ENST00000573127	lincRNA	KNOWN	None	28219	None	None	1615655	1619505	-1	C17orf91	MGC14376, DKFZp686O06159
17	MIR22HG	ENSG00000186594	ENST00000576489	lincRNA	KNOWN	None	28219	None	None	1615874	1619504	-1	C17orf91	MGC14376, DKFZp686O06159
17	MIR22HG	ENSG00000186594	ENST00000575626	lincRNA	KNOWN	None	28219	None	None	1615957	1619502	-1	C17orf91	MGC14376, DKFZp686O06159
17	MIR22HG	ENSG00000186594	ENST00000573075	lincRNA	KNOWN	None	28219	None	None	1616177	1619541	-1	C17orf91	MGC14376, DKFZp686O06159
17	MIR22HG	ENSG00000186594	ENST00000574016	lincRNA	KNOWN	None	28219	None	None	1616269	1619504	-1	C17orf91	MGC14376, DKFZp686O06159
17	MIR22HG	ENSG00000186594	ENST00000577164	lincRNA	KNOWN	None	28219	None	None	1616742	1620468	-1	C17orf91	MGC14376, DKFZp686O06159
17	MIR22HG	ENSG00000186594	ENST00000362190	miRNA	KNOWN	None	28219	None	None	1617191	1617285	-1	C17orf91	MGC14376, DKFZp686O06159
14	None	ENSG00000269883	ENST00000600936	protein_coding	KNOWN	None	None	441	146	77607026	77609339	1	None	None
14	NGB	ENSG00000165553	ENST00000298352	protein_coding	KNOWN	CCDS9856	14077	456	151	77731826	77737655	-1	None	None
X	BRCC3	ENSG00000185515	ENST00000340647	protein_coding	NOVEL	CCDS56610	24185	879	292	154299695	154349593	1	CXorf53	C6.1A, BRCC36
X	BRCC3	ENSG00000185515	ENST00000330045	protein_coding	KNOWN	CCDS56612	24185	876	291	154299706	154351002	1	CXorf53	C6.1A, BRCC36
X	BRCC3	ENSG00000185515	ENST00000369459	protein_coding	NOVEL	None	24185	744	247	154299774	154351347	1	CXorf53	C6.1A, BRCC36
X	BRCC3	ENSG00000185515	ENST00000369462	protein_coding	KNOWN	CCDS56611	24185	951	316	154299778	154351349	1	CXorf53	C6.1A, BRCC36
X	BRCC3	ENSG00000185515	ENST00000411985	protein_coding	NOVEL	None	24185	678	225	154299793	154344458	1	CXorf53	C6.1A, BRCC36
X	BRCC3	ENSG00000185515	ENST00000453705	nonsense_mediated_decay	KNOWN	None	24185	257	84	154299807	154351311	1	CXorf53	C6.1A, BRCC36
X	BRCC3	ENSG00000185515	ENST00000399026	protein_coding	PUTATIVE	None	24185	273	90	154301686	154307205	1	CXorf53	C6.1A, BRCC36
X	BRCC3	ENSG00000185515	ENST00000399042	protein_coding	KNOWN	None	24185	954	317	154299803	154348425	1	CXorf53	C6.1A, BRCC36
10	CAMK1D	ENSG00000183049	ENST00000378847	protein_coding	KNOWN	CCDS7091	19341	1158	385	12391481	12877545	1	None	CKLiK
10	CAMK1D	ENSG00000183049	ENST00000487696	processed_transcript	KNOWN	None	19341	None	None	12391651	12708948	1	None	CKLiK
10	CAMK1D	ENSG00000183049	ENST00000378845	protein_coding	KNOWN	CCDS7092	19341	1074	357	12391732	12868142	1	None	CKLiK
14	ABHD12B	ENSG00000131969	ENST00000353130	protein_coding	KNOWN	CCDS9702	19837	858	285	51338878	51371688	1	C14orf29	BEM46L3
14	ABHD12B	ENSG00000131969	ENST00000382029	nonsense_mediated_decay	KNOWN	None	19837	183	60	51338878	51371688	1	C14orf29	BEM46L3
14	ABHD12B	ENSG00000131969	ENST00000337334	protein_coding	KNOWN	CCDS55916	19837	1089	362	51338878	51371688	1	C14orf29	BEM46L3
14	ABHD12B	ENSG00000131969	ENST00000557345	nonsense_mediated_decay	KNOWN	None	19837	183	60	51338878	51371688	1	C14orf29	BEM46L3
14	ABHD12B	ENSG00000131969	ENST00000554241	processed_transcript	KNOWN	None	19837	None	None	51338881	51360287	1	C14orf29	BEM46L3
14	ABHD12B	ENSG00000131969	ENST00000555292	processed_transcript	KNOWN	None	19837	None	None	51352496	51360282	1	C14orf29	BEM46L3
14	ABHD12B	ENSG00000131969	ENST00000556857	processed_transcript	KNOWN	None	19837	None	None	51357792	51371549	1	C14orf29	BEM46L3
14	ABHD12B	ENSG00000131969	ENST00000554566	processed_transcript	KNOWN	None	19837	None	None	51360300	51371289	1	C14orf29	BEM46L3
14	ABHD12B	ENSG00000131969	ENST00000553715	processed_transcript	KNOWN	None	19837	None	None	51360458	51370859	1	C14orf29	BEM46L3
14	ABHD12B	ENSG00000131969	ENST00000395752	protein_coding	KNOWN	None	19837	768	255	51338878	51371688	1	C14orf29	BEM46L3
9	ISCA1	ENSG00000135070	ENST00000375991	protein_coding	KNOWN	CCDS35056	28660	390	129	88879461	88897444	-1	HBLD2	MGC4276, ISA1, hIscA
9	ISCA1	ENSG00000135070	ENST00000311534	protein_coding	KNOWN	None	28660	96	31	88880594	88897023	-1	HBLD2	MGC4276, ISA1, hIscA
9	ISCA1	ENSG00000135070	ENST00000326094	protein_coding	KNOWN	None	28660	261	86	88881778	88897453	-1	HBLD2	MGC4276, ISA1, hIscA
9	ISCA1	ENSG00000135070	ENST00000452279	protein_coding	KNOWN	None	28660	531	176	88880488	88897676	-1	HBLD2	MGC4276, ISA1, hIscA
X	CHDC2	ENSG00000176034	ENST00000449698	protein_coding	KNOWN	None	26708	460	152	36053913	36083843	1	CXorf59	FLJ36601, RP13-11B7.1
X	CHDC2	ENSG00000176034	ENST00000378660	protein_coding	KNOWN	CCDS14238	26708	1509	502	36065053	36163187	1	CXorf59	FLJ36601, RP13-11B7.1
X	CHDC2	ENSG00000176034	ENST00000313548	protein_coding	KNOWN	CCDS14238	26708	1509	502	36065053	36163187	1	CXorf59	FLJ36601, RP13-11B7.1
2	GCFC2	ENSG00000005436	ENST00000470285	nonsense_mediated_decay	KNOWN	None	1317	131	42	75879126	75893067	-1	TCF9, C2orf3	DNABF, GCF
2	GCFC2	ENSG00000005436	ENST00000470197	retained_intron	KNOWN	None	1317	None	None	75889832	75928498	-1	TCF9, C2orf3	DNABF, GCF
2	GCFC2	ENSG00000005436	ENST00000321027	protein_coding	KNOWN	CCDS1961	1317	2346	781	75889832	75938115	-1	TCF9, C2orf3	DNABF, GCF
2	GCFC2	ENSG00000005436	ENST00000492826	protein_coding	PUTATIVE	None	1317	83	26	75891544	75897340	-1	TCF9, C2orf3	DNABF, GCF
2	GCFC2	ENSG00000005436	ENST00000409857	protein_coding	NOVEL	None	1317	2232	743	75891545	75938018	-1	TCF9, C2orf3	DNABF, GCF
2	GCFC2	ENSG00000005436	ENST00000427862	protein_coding	NOVEL	None	1317	600	199	75891760	75915018	-1	TCF9, C2orf3	DNABF, GCF
2	GCFC2	ENSG00000005436	ENST00000472230	nonsense_mediated_decay	KNOWN	None	1317	108	35	75891771	75937732	-1	TCF9, C2orf3	DNABF, GCF
2	GCFC2	ENSG00000005436	ENST00000486016	retained_intron	KNOWN	None	1317	None	None	75917614	75921605	-1	TCF9, C2orf3	DNABF, GCF
2	GCFC2	ENSG00000005436	ENST00000442309	protein_coding	NOVEL	None	1317	556	184	75923378	75938067	-1	TCF9, C2orf3	DNABF, GCF
2	GCFC2	ENSG00000005436	ENST00000470503	protein_coding	PUTATIVE	None	1317	648	215	75928922	75938025	-1	TCF9, C2orf3	DNABF, GCF
2	GCFC2	ENSG00000005436	ENST00000541687	protein_coding	KNOWN	None	1317	765	254	75889832	75938041	-1	TCF9, C2orf3	DNABF, GCF
19	ZNF473	ENSG00000142528	ENST00000598809	protein_coding	KNOWN	None	23239	224	73	50528971	50545074	1	None	KIAA1141, DKFZP434N043, HZFP100
19	ZNF473	ENSG00000142528	ENST00000595661	protein_coding	KNOWN	CCDS33077	23239	2616	871	50528979	50552033	1	None	KIAA1141, DKFZP434N043, HZFP100
19	ZNF473	ENSG00000142528	ENST00000391821	protein_coding	KNOWN	CCDS33077	23239	2616	871	50529063	50552029	1	None	KIAA1141, DKFZP434N043, HZFP100
19	ZNF473	ENSG00000142528	ENST00000445728	protein_coding	PUTATIVE	None	23239	2580	859	50529262	50550424	1	None	KIAA1141, DKFZP434N043, HZFP100
19	ZNF473	ENSG00000142528	ENST00000601364	protein_coding	PUTATIVE	None	23239	234	77	50529297	50556671	1	None	KIAA1141, DKFZP434N043, HZFP100
19	ZNF473	ENSG00000142528	ENST00000594968	nonsense_mediated_decay	KNOWN	None	23239	195	64	50529315	50548023	1	None	KIAA1141, DKFZP434N043, HZFP100
19	ZNF473	ENSG00000142528	ENST00000599155	protein_coding	KNOWN	None	23239	307	101	50529371	50548007	1	None	KIAA1141, DKFZP434N043, HZFP100
19	ZNF473	ENSG00000142528	ENST00000598802	retained_intron	KNOWN	None	23239	None	None	50544349	50546041	1	None	KIAA1141, DKFZP434N043, HZFP100
19	ZNF473	ENSG00000142528	ENST00000270617	protein_coding	KNOWN	CCDS33077	23239	2616	871	50529212	50552029	1	None	KIAA1141, DKFZP434N043, HZFP100
5	ZDHHC11B	ENSG00000206077	ENST00000522356	processed_transcript	KNOWN	None	32962	None	None	710475	732786	-1	None	None
5	ZDHHC11B	ENSG00000206077	ENST00000508859	protein_coding	PUTATIVE	None	32962	1149	382	711923	767067	-1	None	None
5	ZDHHC11B	ENSG00000206077	ENST00000382776	protein_coding	KNOWN	None	32962	1116	371	712197	767034	-1	None	None
2	RPE	ENSG00000197713	ENST00000359429	protein_coding	KNOWN	CCDS2388	10293	687	228	210867289	210886300	1	None	None
2	RPE	ENSG00000197713	ENST00000436630	protein_coding	KNOWN	CCDS42810	10293	537	178	210867308	210884824	1	None	None
2	RPE	ENSG00000197713	ENST00000408981	protein_coding	NOVEL	None	10293	477	158	210867348	210884509	1	None	None
2	RPE	ENSG00000197713	ENST00000454822	protein_coding	KNOWN	CCDS42810	10293	537	178	210867352	210885950	1	None	None
2	RPE	ENSG00000197713	ENST00000429921	protein_coding	KNOWN	CCDS42810	10293	537	178	210867352	210886300	1	None	None
2	RPE	ENSG00000197713	ENST00000453724	protein_coding	KNOWN	None	10293	283	93	210867358	210881321	1	None	None
2	RPE	ENSG00000197713	ENST00000438265	protein_coding	PUTATIVE	None	10293	441	146	210867363	210882540	1	None	None
2	RPE	ENSG00000197713	ENST00000429907	protein_coding	PUTATIVE	None	10293	426	141	210867366	210884664	1	None	None
2	RPE	ENSG00000197713	ENST00000441588	protein_coding	PUTATIVE	None	10293	322	106	210867367	210882245	1	None	None
2	RPE	ENSG00000197713	ENST00000445268	protein_coding	PUTATIVE	None	10293	474	157	210867367	210884459	1	None	None
2	RPE	ENSG00000197713	ENST00000452025	protein_coding	PUTATIVE	None	10293	678	225	210867367	210884490	1	None	None
2	RPE	ENSG00000197713	ENST00000438204	protein_coding	NOVEL	None	10293	483	160	210867367	210884685	1	None	None
2	RPE	ENSG00000197713	ENST00000438191	nonsense_mediated_decay	KNOWN	None	10293	183	60	210867374	210881282	1	None	None
2	RPE	ENSG00000197713	ENST00000411934	protein_coding	NOVEL	None	10293	483	160	210867380	210884685	1	None	None
2	RPE	ENSG00000197713	ENST00000435437	protein_coding	PUTATIVE	None	10293	576	191	210867381	210884685	1	None	None
2	RPE	ENSG00000197713	ENST00000540255	protein_coding	KNOWN	None	10293	600	199	210867362	210885234	1	None	None
2	RPE	ENSG00000197713	ENST00000354506	protein_coding	KNOWN	None	10293	663	220	210867386	210886267	1	None	None
8	TGS1	ENSG00000137574	ENST00000260129	protein_coding	KNOWN	CCDS34894	17843	2562	853	56685701	56738005	1	NCOA6IP	PIMT
8	TGS1	ENSG00000137574	ENST00000523948	nonsense_mediated_decay	KNOWN	None	17843	162	53	56686029	56738007	1	NCOA6IP	PIMT
8	TGS1	ENSG00000137574	ENST00000519494	retained_intron	KNOWN	None	17843	None	None	56702656	56711557	1	NCOA6IP	PIMT
14	POMT2	ENSG00000009830	ENST00000261534	protein_coding	KNOWN	CCDS9857	19743	2253	750	77741299	77787227	-1	None	LGMD2N
14	POMT2	ENSG00000009830	ENST00000554767	retained_intron	KNOWN	None	19743	None	None	77741301	77767506	-1	None	LGMD2N
14	POMT2	ENSG00000009830	ENST00000452340	retained_intron	KNOWN	None	19743	None	None	77741301	77787047	-1	None	LGMD2N
14	POMT2	ENSG00000009830	ENST00000602717	processed_transcript	KNOWN	None	19743	None	None	77743326	77746275	-1	None	LGMD2N
14	POMT2	ENSG00000009830	ENST00000556394	protein_coding	NOVEL	None	19743	308	101	77743334	77746252	-1	None	LGMD2N
14	POMT2	ENSG00000009830	ENST00000555710	nonsense_mediated_decay	KNOWN	None	19743	228	75	77743758	77746417	-1	None	LGMD2N
14	POMT2	ENSG00000009830	ENST00000556446	retained_intron	KNOWN	None	19743	None	None	77744629	77745404	-1	None	LGMD2N
14	POMT2	ENSG00000009830	ENST00000556171	protein_coding	NOVEL	None	19743	580	192	77745116	77750195	-1	None	LGMD2N
14	POMT2	ENSG00000009830	ENST00000555134	retained_intron	KNOWN	None	19743	None	None	77745156	77751946	-1	None	LGMD2N
14	POMT2	ENSG00000009830	ENST00000554564	retained_intron	KNOWN	None	19743	None	None	77746649	77750706	-1	None	LGMD2N
14	POMT2	ENSG00000009830	ENST00000554884	processed_transcript	KNOWN	None	19743	None	None	77751312	77754167	-1	None	LGMD2N
14	POMT2	ENSG00000009830	ENST00000553880	retained_intron	KNOWN	None	19743	None	None	77751624	77757710	-1	None	LGMD2N
14	POMT2	ENSG00000009830	ENST00000557675	processed_transcript	KNOWN	None	19743	None	None	77751823	77762850	-1	None	LGMD2N
14	POMT2	ENSG00000009830	ENST00000556404	retained_intron	KNOWN	None	19743	None	None	77751910	77753552	-1	None	LGMD2N
14	POMT2	ENSG00000009830	ENST00000556851	retained_intron	KNOWN	None	19743	None	None	77753091	77757836	-1	None	LGMD2N
14	POMT2	ENSG00000009830	ENST00000557289	nonsense_mediated_decay	KNOWN	None	19743	159	52	77762507	77771089	-1	None	LGMD2N
14	POMT2	ENSG00000009830	ENST00000553863	processed_transcript	KNOWN	None	19743	None	None	77765821	77772846	-1	None	LGMD2N
14	POMT2	ENSG00000009830	ENST00000556326	nonsense_mediated_decay	KNOWN	None	19743	249	82	77765867	77787203	-1	None	LGMD2N
14	POMT2	ENSG00000009830	ENST00000555675	retained_intron	KNOWN	None	19743	None	None	77767432	77772833	-1	None	LGMD2N
14	POMT2	ENSG00000009830	ENST00000554948	protein_coding	PUTATIVE	None	19743	411	136	77767565	77786683	-1	None	LGMD2N
14	POMT2	ENSG00000009830	ENST00000556880	processed_transcript	KNOWN	None	19743	None	None	77769177	77773240	-1	None	LGMD2N
14	POMT2	ENSG00000009830	ENST00000555788	processed_transcript	KNOWN	None	19743	None	None	77771037	77778722	-1	None	LGMD2N
14	POMT2	ENSG00000009830	ENST00000557525	retained_intron	KNOWN	None	19743	None	None	77771116	77778978	-1	None	LGMD2N
6	TMEM181	ENSG00000146433	ENST00000367090	protein_coding	KNOWN	CCDS43520	20958	1839	612	158957468	159056460	1	KIAA1423, GPR178	None
8	ZNF623	ENSG00000183309	ENST00000526926	protein_coding	KNOWN	CCDS47931	29084	1491	496	144718183	144734546	1	None	KIAA0628
8	ZNF623	ENSG00000183309	ENST00000458270	protein_coding	KNOWN	CCDS47931	29084	1491	496	144718332	144734546	1	None	KIAA0628
8	ZNF623	ENSG00000183309	ENST00000501748	protein_coding	KNOWN	CCDS34957	29084	1611	536	144731954	144735900	1	None	KIAA0628
17	None	ENSG00000262791	ENST00000576540	antisense	KNOWN	None	None	None	None	1629042	1641879	-1	None	None
17	None	ENSG00000265504	ENST00000582190	miRNA	NOVEL	None	None	None	None	1733135	1733217	-1	None	None
17	None	ENSG00000108958	ENST00000451056	processed_pseudogene	KNOWN	None	None	None	None	1761333	1761740	-1	None	None
17	None	ENSG00000262445	ENST00000574520	lincRNA	KNOWN	None	None	None	None	1898908	1906832	1	None	None
4	PYURF	ENSG00000145337	ENST00000273968	protein_coding	KNOWN	CCDS3631	44317	345	114	89442136	89444964	-1	None	PreY
17	None	ENSG00000228133	ENST00000572287	lincRNA	KNOWN	None	None	None	None	1921010	1922396	1	None	None
17	None	ENSG00000228133	ENST00000425277	lincRNA	KNOWN	None	None	None	None	1921177	1924000	1	None	None
17	None	ENSG00000262869	ENST00000574483	lincRNA	KNOWN	None	None	None	None	1923246	1926958	-1	None	None
12	BBS10	ENSG00000179941	ENST00000393262	protein_coding	KNOWN	CCDS9014	26291	2172	723	76738254	76742222	-1	C12orf58	FLJ23560
17	None	ENSG00000262533	ENST00000572404	antisense	KNOWN	None	None	None	None	1946194	1946719	-1	None	None
17	None	ENSG00000263050	ENST00000572790	lincRNA	KNOWN	None	None	None	None	1946769	1948262	-1	None	None
17	MIR132	ENSG00000267200	ENST00000591554	lincRNA	KNOWN	None	31516	None	None	1953202	1953302	-1	MIRN132	hsa-mir-132
17	MIR212	ENSG00000267195	ENST00000586026	lincRNA	KNOWN	None	31589	None	None	1953565	1953674	-1	MIRN212	hsa-mir-212
17	None	ENSG00000262810	ENST00000571815	antisense	KNOWN	None	None	None	None	1992975	2004854	1	None	None
17	None	ENSG00000262402	ENST00000573670	processed_pseudogene	KNOWN	None	None	None	None	2030724	2031198	-1	None	None
17	RN7SL624P	ENSG00000265777	ENST00000580297	misc_RNA	KNOWN	None	46640	None	None	2103056	2103331	1	None	None
17	None	ENSG00000236838	ENST00000433167	antisense	KNOWN	None	None	None	None	2116991	2117708	1	None	None
X	DMRTC1B	ENSG00000184911	ENST00000472595	nonsense_mediated_decay	KNOWN	None	31686	333	110	71996833	72068636	1	None	None
X	DMRTC1B	ENSG00000184911	ENST00000334036	protein_coding	KNOWN	CCDS43971	31686	579	192	71996972	72068632	1	None	None
X	DMRTC1B	ENSG00000184911	ENST00000440247	protein_coding	KNOWN	None	31686	302	99	72062617	72066763	1	None	None
X	DMRTC1B	ENSG00000184911	ENST00000373533	protein_coding	KNOWN	None	31686	384	127	72062802	72068632	1	None	None
X	DMRTC1B	ENSG00000184911	ENST00000438696	protein_coding	KNOWN	None	31686	192	63	72064690	72065774	1	None	None
X	DMRTC1B	ENSG00000184911	ENST00000481112	nonsense_mediated_decay	KNOWN	None	31686	336	111	72064973	72068307	1	None	None
X	DMRTC1B	ENSG00000184911	ENST00000373532	protein_coding	KNOWN	CCDS43971	31686	579	192	72064876	72068636	1	None	None
X	DMRTC1B	ENSG00000184911	ENST00000333826	protein_coding	KNOWN	None	31686	384	127	72064876	72068636	1	None	None
17	None	ENSG00000236457	ENST00000413674	sense_intronic	KNOWN	None	None	None	None	2118776	2119309	-1	None	None
17	None	ENSG00000225084	ENST00000414776	antisense	KNOWN	None	None	None	None	2135974	2136904	1	None	None
17	HNRNPA1P16	ENSG00000262333	ENST00000575692	processed_pseudogene	KNOWN	None	39134	None	None	2210055	2211009	1	None	None
17	SNORD91B	ENSG00000212552	ENST00000391250	snoRNA	KNOWN	None	32753	None	None	2232413	2232507	-1	None	HBII-296b
17	SNORD91A	ENSG00000212163	ENST00000390861	snoRNA	KNOWN	None	32752	None	None	2233570	2233664	-1	None	HBII-296a
17	None	ENSG00000263345	ENST00000574290	antisense	KNOWN	None	None	None	None	2278355	2282600	-1	None	None
17	None	ENSG00000263345	ENST00000573007	antisense	KNOWN	None	None	None	None	2280093	2281040	-1	None	None
17	None	ENSG00000262456	ENST00000571775	antisense	KNOWN	None	None	None	None	2288141	2289958	1	None	None
17	None	ENSG00000261903	ENST00000575402	retained_intron	KNOWN	None	None	None	None	2292560	2295372	-1	None	None
17	None	ENSG00000205821	ENST00000571332	processed_transcript	PUTATIVE	None	None	None	None	2308856	2319379	-1	None	None
17	None	ENSG00000205821	ENST00000381977	processed_transcript	KNOWN	None	None	None	None	2310307	2319143	-1	None	None
17	RN7SL33P	ENSG00000243049	ENST00000462543	misc_RNA	KNOWN	None	46049	None	None	2461096	2461388	-1	None	None
17	EIF4A1P9	ENSG00000262953	ENST00000576035	processed_pseudogene	KNOWN	None	37928	None	None	2489624	2491160	-1	None	None
17	SAMD11P1	ENSG00000262480	ENST00000571429	processed_pseudogene	KNOWN	None	44473	None	None	2516578	2517238	-1	None	None
17	None	ENSG00000239024	ENST00000459563	snoRNA	NOVEL	None	None	None	None	2558973	2559076	1	None	None
17	RN7SL608P	ENSG00000239884	ENST00000492377	misc_RNA	KNOWN	None	46624	None	None	2584242	2584528	1	None	None
17	None	ENSG00000262050	ENST00000572876	antisense	KNOWN	None	None	None	None	2615603	2616127	1	None	None
17	None	ENSG00000261963	ENST00000575506	unprocessed_pseudogene	KNOWN	None	None	None	None	2627714	2652714	-1	None	None
17	MIR1253	ENSG00000221200	ENST00000408273	miRNA	KNOWN	None	35318	None	None	2651372	2651476	-1	MIRN1253	hsa-mir-1253
17	RN7SL605P	ENSG00000265566	ENST00000577229	misc_RNA	KNOWN	None	46621	None	None	2657126	2657430	1	None	None
17	None	ENSG00000262884	ENST00000574885	antisense	KNOWN	None	None	None	None	2865542	2869189	-1	None	None
17	None	ENSG00000142163	ENST00000575608	unprocessed_pseudogene	KNOWN	None	None	None	None	3019717	3020660	1	None	None
17	None	ENSG00000142163	ENST00000270133	pseudogene	KNOWN	None	None	None	None	3019721	3020613	1	None	None
17	None	ENSG00000261848	ENST00000572821	lincRNA	KNOWN	None	None	None	None	3038263	3080229	-1	None	None
17	None	ENSG00000261848	ENST00000575487	lincRNA	KNOWN	None	None	None	None	3066299	3080325	-1	None	None
8	LYN	ENSG00000254087	ENST00000519728	protein_coding	KNOWN	CCDS6162	6735	1539	512	56792372	56923131	1	None	JTK8
8	LYN	ENSG00000254087	ENST00000520220	protein_coding	KNOWN	CCDS47859	6735	1476	491	56792394	56923940	1	None	JTK8
8	LYN	ENSG00000254087	ENST00000520050	protein_coding	KNOWN	None	6735	451	149	56852793	56863307	1	None	JTK8
8	LYN	ENSG00000254087	ENST00000420292	processed_transcript	KNOWN	None	6735	None	None	56867655	56911007	1	None	JTK8
17	OR1P1	ENSG00000262085	ENST00000571766	unprocessed_pseudogene	KNOWN	None	8222	None	None	3057183	3058176	-1	OR1P1P	OR17-208
17	OR1D4	ENSG00000255095	ENST00000531680	processed_transcript	KNOWN	None	8185	None	None	3143970	3144559	1	None	OR17-30
17	OR1D4	ENSG00000255095	ENST00000525719	transcribed_unprocessed_pseudogene	KNOWN	None	8185	None	None	3143970	3144908	1	None	OR17-30
3	ABTB1	ENSG00000114626	ENST00000483857	nonsense_mediated_decay	KNOWN	None	18275	174	57	127391778	127395869	1	None	BPOZ, EF1ABP, Btb3, BTBD21
3	ABTB1	ENSG00000114626	ENST00000232744	protein_coding	KNOWN	CCDS3045	18275	1437	478	127391783	127399760	1	None	BPOZ, EF1ABP, Btb3, BTBD21
3	ABTB1	ENSG00000114626	ENST00000475265	retained_intron	KNOWN	None	18275	None	None	127391790	127395916	1	None	BPOZ, EF1ABP, Btb3, BTBD21
3	ABTB1	ENSG00000114626	ENST00000493365	retained_intron	KNOWN	None	18275	None	None	127391795	127395278	1	None	BPOZ, EF1ABP, Btb3, BTBD21
3	ABTB1	ENSG00000114626	ENST00000453791	protein_coding	KNOWN	CCDS46901	18275	1011	336	127391801	127399763	1	None	BPOZ, EF1ABP, Btb3, BTBD21
3	ABTB1	ENSG00000114626	ENST00000475042	nonsense_mediated_decay	KNOWN	None	18275	174	57	127391801	127399763	1	None	BPOZ, EF1ABP, Btb3, BTBD21
3	ABTB1	ENSG00000114626	ENST00000466612	processed_transcript	KNOWN	None	18275	None	None	127391857	127393444	1	None	BPOZ, EF1ABP, Btb3, BTBD21
3	ABTB1	ENSG00000114626	ENST00000479280	retained_intron	KNOWN	None	18275	None	None	127391877	127395652	1	None	BPOZ, EF1ABP, Btb3, BTBD21
3	ABTB1	ENSG00000114626	ENST00000467179	processed_transcript	KNOWN	None	18275	None	None	127392149	127396036	1	None	BPOZ, EF1ABP, Btb3, BTBD21
3	ABTB1	ENSG00000114626	ENST00000468137	protein_coding	KNOWN	CCDS46901	18275	1011	336	127392953	127399756	1	None	BPOZ, EF1ABP, Btb3, BTBD21
3	ABTB1	ENSG00000114626	ENST00000464431	retained_intron	KNOWN	None	18275	None	None	127394329	127399754	1	None	BPOZ, EF1ABP, Btb3, BTBD21
3	ABTB1	ENSG00000114626	ENST00000491633	processed_transcript	KNOWN	None	18275	None	None	127394928	127398908	1	None	BPOZ, EF1ABP, Btb3, BTBD21
3	ABTB1	ENSG00000114626	ENST00000478298	retained_intron	KNOWN	None	18275	None	None	127395379	127398900	1	None	BPOZ, EF1ABP, Btb3, BTBD21
3	ABTB1	ENSG00000114626	ENST00000474129	retained_intron	KNOWN	None	18275	None	None	127395815	127398900	1	None	BPOZ, EF1ABP, Btb3, BTBD21
3	ABTB1	ENSG00000114626	ENST00000497162	nonsense_mediated_decay	KNOWN	None	18275	425	140	127396020	127398906	1	None	BPOZ, EF1ABP, Btb3, BTBD21
3	ABTB1	ENSG00000114626	ENST00000393363	protein_coding	KNOWN	CCDS46901	18275	1011	336	127391781	127399768	1	None	BPOZ, EF1ABP, Btb3, BTBD21
17	OR1D3P	ENSG00000262106	ENST00000573526	unprocessed_pseudogene	KNOWN	None	8184	None	None	3168905	3169835	1	OR1D6P, OR1D7P	OR17-23, OR11-13, OR11-22
17	None	ENSG00000262670	ENST00000573491	sense_overlapping	KNOWN	None	None	None	None	3182069	3289587	-1	None	None
17	None	ENSG00000262670	ENST00000576166	sense_overlapping	KNOWN	None	None	None	None	3182398	3289587	-1	None	None
17	None	ENSG00000262670	ENST00000573901	sense_overlapping	KNOWN	None	None	None	None	3187772	3289633	-1	None	None
15	SCAMP2	ENSG00000140497	ENST00000268099	protein_coding	KNOWN	CCDS10271	10564	990	329	75136071	75165706	-1	None	None
15	SCAMP2	ENSG00000140497	ENST00000566480	protein_coding	PUTATIVE	None	10564	837	278	75136073	75146927	-1	None	None
15	SCAMP2	ENSG00000140497	ENST00000563663	nonsense_mediated_decay	KNOWN	None	10564	174	57	75136105	75165696	-1	None	None
15	SCAMP2	ENSG00000140497	ENST00000563829	retained_intron	KNOWN	None	10564	None	None	75137196	75165706	-1	None	None
15	SCAMP2	ENSG00000140497	ENST00000569251	retained_intron	KNOWN	None	10564	None	None	75137349	75144554	-1	None	None
15	SCAMP2	ENSG00000140497	ENST00000569904	nonsense_mediated_decay	KNOWN	None	10564	711	236	75137547	75165643	-1	None	None
15	SCAMP2	ENSG00000140497	ENST00000567638	retained_intron	KNOWN	None	10564	None	None	75140767	75144522	-1	None	None
15	SCAMP2	ENSG00000140497	ENST00000565345	protein_coding	PUTATIVE	None	10564	280	92	75140945	75165381	-1	None	None
15	SCAMP2	ENSG00000140497	ENST00000562363	protein_coding	NOVEL	None	10564	583	193	75141023	75165651	-1	None	None
15	SCAMP2	ENSG00000140497	ENST00000564529	protein_coding	NOVEL	None	10564	763	253	75142853	75165699	-1	None	None
15	SCAMP2	ENSG00000140497	ENST00000566557	retained_intron	KNOWN	None	10564	None	None	75144245	75165673	-1	None	None
15	SCAMP2	ENSG00000140497	ENST00000569124	retained_intron	KNOWN	None	10564	None	None	75146098	75165370	-1	None	None
X	DMRTC1	ENSG00000159123	ENST00000483816	nonsense_mediated_decay	KNOWN	None	13910	333	110	72091859	72163653	-1	None	None
X	DMRTC1	ENSG00000159123	ENST00000373529	protein_coding	KNOWN	CCDS35333	13910	579	192	72091863	72095808	-1	None	None
X	DMRTC1	ENSG00000159123	ENST00000373530	protein_coding	NOVEL	None	13910	384	127	72091863	72097698	-1	None	None
X	DMRTC1	ENSG00000159123	ENST00000290273	protein_coding	KNOWN	None	13910	384	127	72091859	72095622	-1	None	None
2	LRRTM4	ENSG00000176204	ENST00000409911	protein_coding	KNOWN	None	19411	1776	591	76974845	77749465	-1	None	FLJ12568
2	LRRTM4	ENSG00000176204	ENST00000409884	protein_coding	KNOWN	CCDS46346	19411	1773	590	76975679	77749399	-1	None	FLJ12568
2	LRRTM4	ENSG00000176204	ENST00000409093	protein_coding	KNOWN	CCDS46346	19411	1773	590	76975684	77749494	-1	None	FLJ12568
2	LRRTM4	ENSG00000176204	ENST00000409088	protein_coding	KNOWN	CCDS46347	19411	1557	518	77743794	77749502	-1	None	FLJ12568
2	LRRTM4	ENSG00000176204	ENST00000409282	protein_coding	NOVEL	None	19411	1560	519	77744642	77749336	-1	None	FLJ12568
2	LRRTM4	ENSG00000176204	ENST00000456154	protein_coding	PUTATIVE	None	19411	74	23	77746888	77820322	-1	None	FLJ12568
2	LRRTM4	ENSG00000176204	ENST00000491242	processed_transcript	KNOWN	None	19411	None	None	77779692	77820445	-1	None	FLJ12568
5	BRD9	ENSG00000028310	ENST00000493082	retained_intron	KNOWN	None	25818	None	None	850406	880213	-1	None	FLJ13441
5	BRD9	ENSG00000028310	ENST00000497410	retained_intron	KNOWN	None	25818	None	None	863856	866616	-1	None	FLJ13441
5	BRD9	ENSG00000028310	ENST00000483234	retained_intron	KNOWN	None	25818	None	None	863856	879430	-1	None	FLJ13441
5	BRD9	ENSG00000028310	ENST00000495794	retained_intron	KNOWN	None	25818	None	None	863856	890161	-1	None	FLJ13441
5	BRD9	ENSG00000028310	ENST00000490814	nonsense_mediated_decay	KNOWN	None	25818	273	90	863856	891912	-1	None	FLJ13441
5	BRD9	ENSG00000028310	ENST00000495265	nonsense_mediated_decay	KNOWN	None	25818	273	90	863856	892915	-1	None	FLJ13441
5	BRD9	ENSG00000028310	ENST00000489816	nonsense_mediated_decay	KNOWN	None	25818	273	90	863860	892637	-1	None	FLJ13441
5	BRD9	ENSG00000028310	ENST00000483173	protein_coding	NOVEL	CCDS34128	25818	1635	544	864238	892661	-1	None	FLJ13441
5	BRD9	ENSG00000028310	ENST00000467963	protein_coding	KNOWN	CCDS34127	25818	1794	597	864388	892939	-1	None	FLJ13441
5	BRD9	ENSG00000028310	ENST00000519112	nonsense_mediated_decay	KNOWN	None	25818	524	173	864538	878602	-1	None	FLJ13441
5	BRD9	ENSG00000028310	ENST00000518250	nonsense_mediated_decay	KNOWN	None	25818	218	71	865529	870668	-1	None	FLJ13441
5	BRD9	ENSG00000028310	ENST00000523139	nonsense_mediated_decay	KNOWN	None	25818	277	91	868817	876318	-1	None	FLJ13441
5	BRD9	ENSG00000028310	ENST00000518251	nonsense_mediated_decay	KNOWN	None	25818	372	123	868864	878555	-1	None	FLJ13441
5	BRD9	ENSG00000028310	ENST00000475706	retained_intron	KNOWN	None	25818	None	None	870403	883522	-1	None	FLJ13441
5	BRD9	ENSG00000028310	ENST00000466684	nonsense_mediated_decay	KNOWN	None	25818	273	90	876224	892674	-1	None	FLJ13441
5	BRD9	ENSG00000028310	ENST00000519838	processed_transcript	KNOWN	None	25818	None	None	876275	883484	-1	None	FLJ13441
5	BRD9	ENSG00000028310	ENST00000494422	processed_transcript	KNOWN	None	25818	None	None	878470	887022	-1	None	FLJ13441
5	BRD9	ENSG00000028310	ENST00000489093	protein_coding	PUTATIVE	None	25818	676	224	884055	891665	-1	None	FLJ13441
5	BRD9	ENSG00000028310	ENST00000487688	nonsense_mediated_decay	KNOWN	None	25818	273	90	889158	892637	-1	None	FLJ13441
5	BRD9	ENSG00000028310	ENST00000323510	protein_coding	KNOWN	None	25818	1506	501	863851	889814	-1	None	FLJ13441
5	BRD9	ENSG00000028310	ENST00000388890	protein_coding	KNOWN	None	25818	1446	481	863851	889814	-1	None	FLJ13441
5	BRD9	ENSG00000028310	ENST00000435709	protein_coding	KNOWN	None	25818	645	214	876224	892674	-1	None	FLJ13441
2	KANSL1L	ENSG00000144445	ENST00000281772	protein_coding	KNOWN	CCDS33370	26310	2964	987	210886147	211036107	-1	C2orf67	FLJ23861, FLJ32349, MSL1v2, KIAA1267L
2	KANSL1L	ENSG00000144445	ENST00000418791	protein_coding	NOVEL	None	26310	2838	945	210887157	211036051	-1	C2orf67	FLJ23861, FLJ32349, MSL1v2, KIAA1267L
2	KANSL1L	ENSG00000144445	ENST00000457374	protein_coding	NOVEL	None	26310	2118	705	210905047	211020026	-1	C2orf67	FLJ23861, FLJ32349, MSL1v2, KIAA1267L
2	KANSL1L	ENSG00000144445	ENST00000452086	protein_coding	NOVEL	None	26310	2118	705	210905047	211036051	-1	C2orf67	FLJ23861, FLJ32349, MSL1v2, KIAA1267L
2	KANSL1L	ENSG00000144445	ENST00000428655	protein_coding	NOVEL	None	26310	1030	342	210908157	211018389	-1	C2orf67	FLJ23861, FLJ32349, MSL1v2, KIAA1267L
2	KANSL1L	ENSG00000144445	ENST00000460256	processed_transcript	KNOWN	None	26310	None	None	210944529	210968919	-1	C2orf67	FLJ23861, FLJ32349, MSL1v2, KIAA1267L
2	KANSL1L	ENSG00000144445	ENST00000438563	protein_coding	PUTATIVE	None	26310	575	190	210962573	211018327	-1	C2orf67	FLJ23861, FLJ32349, MSL1v2, KIAA1267L
2	KANSL1L	ENSG00000144445	ENST00000415553	protein_coding	PUTATIVE	None	26310	599	198	210968744	211018462	-1	C2orf67	FLJ23861, FLJ32349, MSL1v2, KIAA1267L
2	KANSL1L	ENSG00000144445	ENST00000453904	retained_intron	KNOWN	None	26310	None	None	211016129	211035378	-1	C2orf67	FLJ23861, FLJ32349, MSL1v2, KIAA1267L
2	KANSL1L	ENSG00000144445	ENST00000429908	processed_transcript	PUTATIVE	None	26310	None	None	211018907	211035318	-1	C2orf67	FLJ23861, FLJ32349, MSL1v2, KIAA1267L
4	UCP1	ENSG00000109424	ENST00000262999	protein_coding	KNOWN	CCDS3753	12517	924	307	141480588	141489959	-1	UCP	SLC25A7
17	OR3A4P	ENSG00000180068	ENST00000323164	processed_transcript	KNOWN	None	15510	None	None	3213280	3214740	1	OR3A4	None
17	OR3A4P	ENSG00000180068	ENST00000574571	transcribed_unprocessed_pseudogene	KNOWN	None	15510	None	None	3213587	3215225	1	OR3A4	None
17	OR3A4P	ENSG00000180068	ENST00000545655	unprocessed_pseudogene	KNOWN	None	15510	None	None	3213539	3214740	1	OR3A4	None
17	OR1AC1P	ENSG00000267129	ENST00000589072	unprocessed_pseudogene	KNOWN	None	31243	None	None	3280821	3280896	-1	None	None
17	OR1R1P	ENSG00000180042	ENST00000572493	unprocessed_pseudogene	KNOWN	None	8226	None	None	3289224	3290127	1	OR20A1P, OR1R2P, OR1R3P	OR17-1
17	OR1R1P	ENSG00000180042	ENST00000322899	pseudogene	KNOWN	None	8226	None	None	3289224	3290132	1	OR20A1P, OR1R2P, OR1R3P	OR17-1
17	None	ENSG00000263338	ENST00000573568	sense_intronic	KNOWN	None	None	None	None	3481249	3482147	-1	None	None
17	None	ENSG00000261916	ENST00000575593	sense_intronic	KNOWN	None	None	None	None	3505055	3505566	-1	None	None
17	None	ENSG00000262248	ENST00000575326	processed_pseudogene	KNOWN	None	None	None	None	3522550	3523207	-1	None	None
14	TRIM9	ENSG00000100505	ENST00000298355	protein_coding	KNOWN	CCDS9703	16288	2133	710	51441980	51562779	-1	None	SPRING, RNF91
14	TRIM9	ENSG00000100505	ENST00000338969	protein_coding	KNOWN	None	16288	2409	802	51445496	51562047	-1	None	SPRING, RNF91
14	TRIM9	ENSG00000100505	ENST00000555170	retained_intron	KNOWN	None	16288	None	None	51446226	51449029	-1	None	SPRING, RNF91
14	TRIM9	ENSG00000100505	ENST00000557456	processed_transcript	KNOWN	None	16288	None	None	51449401	51455094	-1	None	SPRING, RNF91
14	TRIM9	ENSG00000100505	ENST00000555933	retained_intron	KNOWN	None	16288	None	None	51449583	51453170	-1	None	SPRING, RNF91
14	TRIM9	ENSG00000100505	ENST00000360392	protein_coding	KNOWN	CCDS45105	16288	1653	550	51462782	51561794	-1	None	SPRING, RNF91
20	None	ENSG00000250090	ENST00000510553	unprocessed_pseudogene	KNOWN	None	None	None	None	25816621	25817468	-1	None	None
2	REG3G	ENSG00000143954	ENST00000393897	protein_coding	KNOWN	CCDS1962	29595	528	175	79252812	79255631	1	None	UNQ429, LPPM429, PAP1B
2	REG3G	ENSG00000143954	ENST00000272324	protein_coding	KNOWN	CCDS1962	29595	528	175	79252827	79255628	1	None	UNQ429, LPPM429, PAP1B
2	REG3G	ENSG00000143954	ENST00000409471	protein_coding	NOVEL	CCDS58714	29595	390	129	79252853	79255429	1	None	UNQ429, LPPM429, PAP1B
2	REG3G	ENSG00000143954	ENST00000498312	retained_intron	KNOWN	None	29595	None	None	79252874	79254083	1	None	UNQ429, LPPM429, PAP1B
2	REG3G	ENSG00000143954	ENST00000490944	retained_intron	KNOWN	None	29595	None	None	79253209	79254376	1	None	UNQ429, LPPM429, PAP1B
X	PABPC1L2B	ENSG00000184388	ENST00000373521	protein_coding	KNOWN	CCDS43972	31852	603	200	72223352	72225551	1	RBM32B	None
X	PABPC1L2B	ENSG00000184388	ENST00000538388	protein_coding	KNOWN	CCDS43972	31852	603	200	72223449	72224594	1	RBM32B	None
X	PABPC1L2A	ENSG00000186288	ENST00000373519	protein_coding	KNOWN	CCDS35334	27989	603	200	72297115	72299351	-1	RBM32A	None
X	PABPC1L2A	ENSG00000186288	ENST00000453389	protein_coding	KNOWN	CCDS35334	27989	603	200	72298113	72299258	-1	RBM32A	None
X	NAP1L6	ENSG00000204118	ENST00000373518	protein_coding	KNOWN	None	31706	324	107	72345876	72347919	-1	None	FLJ33596
2	ACADL	ENSG00000115361	ENST00000233710	protein_coding	KNOWN	CCDS2389	88	1293	430	211052663	211090215	-1	None	LCAD, ACAD4
2	ACADL	ENSG00000115361	ENST00000482502	retained_intron	KNOWN	None	88	None	None	211074313	211081443	-1	None	LCAD, ACAD4
2	ACADL	ENSG00000115361	ENST00000498120	retained_intron	KNOWN	None	88	None	None	211082199	211090171	-1	None	LCAD, ACAD4
2	ACADL	ENSG00000115361	ENST00000482523	retained_intron	KNOWN	None	88	None	None	211082789	211089573	-1	None	LCAD, ACAD4
17	None	ENSG00000262903	ENST00000575741	antisense	KNOWN	None	None	None	None	3558915	3561386	-1	None	None
10	FAM25E	ENSG00000231122	ENST00000411791	protein_coding	KNOWN	None	23587	528	175	46310876	46313036	-1	None	AC012044.5
17	None	ENSG00000240898	ENST00000486753	processed_pseudogene	KNOWN	None	None	None	None	3568514	3568996	1	None	None
17	None	ENSG00000262692	ENST00000571741	antisense	KNOWN	None	None	None	None	3624922	3625782	1	None	None
17	None	ENSG00000262358	ENST00000575043	antisense	KNOWN	None	None	None	None	3632655	3633787	1	None	None
17	None	ENSG00000262194	ENST00000572988	lincRNA	KNOWN	None	None	None	None	3705459	3706676	-1	None	None
17	None	ENSG00000262758	ENST00000571336	lincRNA	KNOWN	None	None	None	None	3710042	3712148	-1	None	None
14	TMX1	ENSG00000139921	ENST00000555574	retained_intron	KNOWN	None	15487	None	None	51706880	51712569	1	TXNDC, TXNDC1	TMX, PDIA11
14	TMX1	ENSG00000139921	ENST00000457354	protein_coding	KNOWN	CCDS41953	15487	843	280	51706886	51722759	1	TXNDC, TXNDC1	TMX, PDIA11
14	TMX1	ENSG00000139921	ENST00000556683	nonsense_mediated_decay	KNOWN	None	15487	318	105	51706968	51722372	1	TXNDC, TXNDC1	TMX, PDIA11
17	None	ENSG00000263312	ENST00000571890	lincRNA	KNOWN	None	None	None	None	3880397	3885193	1	None	None
17	RNA5SP434	ENSG00000252456	ENST00000516647	rRNA	KNOWN	None	43334	None	None	3960050	3960170	-1	RN5S434	None
17	None	ENSG00000238807	ENST00000459263	snoRNA	NOVEL	None	None	None	None	4017902	4018004	1	None	None
17	None	ENSG00000263165	ENST00000573371	antisense	KNOWN	None	None	None	None	4067204	4068007	1	None	None
17	None	ENSG00000251812	ENST00000516003	misc_RNA	NOVEL	None	None	None	None	4089621	4089719	1	None	None
20	CFTRP1	ENSG00000228593	ENST00000456646	unprocessed_pseudogene	KNOWN	None	16182	None	None	25900135	25900317	-1	C20orf189	dJ760C5.1
17	None	ENSG00000207390	ENST00000384660	misc_RNA	NOVEL	None	None	None	None	4096063	4096160	1	None	None
X	NAP1L2	ENSG00000186462	ENST00000373517	protein_coding	KNOWN	CCDS14423	7638	1383	460	72432135	72434684	-1	None	BPX, MGC26243
X	NAP1L2	ENSG00000186462	ENST00000536638	protein_coding	KNOWN	None	7638	957	318	72432492	72434668	-1	None	BPX, MGC26243
2	MYL1	ENSG00000168530	ENST00000341685	protein_coding	KNOWN	CCDS2391	7582	453	150	211154874	211168353	-1	None	None
2	MYL1	ENSG00000168530	ENST00000352451	protein_coding	KNOWN	CCDS2390	7582	585	194	211154874	211179914	-1	None	None
2	MYL1	ENSG00000168530	ENST00000496436	processed_transcript	KNOWN	None	7582	None	None	211155756	211168339	-1	None	None
2	MYL1	ENSG00000168530	ENST00000484290	processed_transcript	KNOWN	None	7582	None	None	211158447	211168339	-1	None	None
X	CT45A4	ENSG00000228836	ENST00000487941	nonsense_mediated_decay	KNOWN	CCDS35405	33269	570	189	134926788	134936735	-1	None	CT45-4, CT45.4
X	CT45A4	ENSG00000228836	ENST00000434966	protein_coding	KNOWN	CCDS35405	33269	570	189	134928695	134936735	-1	None	CT45-4, CT45.4
X	CT45A4	ENSG00000228836	ENST00000494421	protein_coding	KNOWN	CCDS35405	33269	570	189	134928706	134936550	-1	None	CT45-4, CT45.4
X	CT45A4	ENSG00000228836	ENST00000420087	protein_coding	KNOWN	None	33269	570	189	134928697	134953994	-1	None	CT45-4, CT45.4
4	TBC1D9	ENSG00000109436	ENST00000442267	protein_coding	KNOWN	CCDS47136	21710	3801	1266	141541919	141677274	-1	None	KIAA0882, MDR1
4	TBC1D9	ENSG00000109436	ENST00000502786	retained_intron	KNOWN	None	21710	None	None	141580571	141583117	-1	None	KIAA0882, MDR1
4	TBC1D9	ENSG00000109436	ENST00000514787	retained_intron	KNOWN	None	21710	None	None	141591748	141598255	-1	None	KIAA0882, MDR1
11	CTNND1	ENSG00000198561	ENST00000524630	protein_coding	KNOWN	CCDS44606	2515	2802	933	57520715	57587018	1	CTNND	KIAA0384, p120, p120cas, p120ctn
11	CTNND1	ENSG00000198561	ENST00000529919	protein_coding	NOVEL	None	2515	2817	938	57520762	57585412	1	CTNND	KIAA0384, p120, p120cas, p120ctn
11	CTNND1	ENSG00000198561	ENST00000533189	protein_coding	KNOWN	None	2515	379	125	57520774	57569596	1	CTNND	KIAA0384, p120, p120cas, p120ctn
11	CTNND1	ENSG00000198561	ENST00000529526	protein_coding	KNOWN	CCDS55766	2515	2640	879	57529269	57586650	1	CTNND	KIAA0384, p120, p120cas, p120ctn
11	CTNND1	ENSG00000198561	ENST00000426142	protein_coding	KNOWN	CCDS44609	2515	2499	832	57529269	57586650	1	CTNND	KIAA0384, p120, p120cas, p120ctn
11	CTNND1	ENSG00000198561	ENST00000399050	protein_coding	KNOWN	CCDS44604	2515	2907	968	57529269	57586650	1	CTNND	KIAA0384, p120, p120cas, p120ctn
11	CTNND1	ENSG00000198561	ENST00000361391	protein_coding	KNOWN	CCDS44607	2515	2826	941	57529269	57586650	1	CTNND	KIAA0384, p120, p120cas, p120ctn
11	CTNND1	ENSG00000198561	ENST00000361332	protein_coding	KNOWN	CCDS44605	2515	2889	962	57529269	57586650	1	CTNND	KIAA0384, p120, p120cas, p120ctn
11	CTNND1	ENSG00000198561	ENST00000532463	protein_coding	KNOWN	CCDS44609	2515	2499	832	57529269	57586650	1	CTNND	KIAA0384, p120, p120cas, p120ctn
11	CTNND1	ENSG00000198561	ENST00000529986	protein_coding	KNOWN	CCDS44609	2515	2499	832	57529269	57586650	1	CTNND	KIAA0384, p120, p120cas, p120ctn
11	CTNND1	ENSG00000198561	ENST00000358694	protein_coding	KNOWN	CCDS44606	2515	2802	933	57529269	57586650	1	CTNND	KIAA0384, p120, p120cas, p120ctn
11	CTNND1	ENSG00000198561	ENST00000532787	protein_coding	KNOWN	CCDS53634	2515	2523	840	57529269	57586650	1	CTNND	KIAA0384, p120, p120cas, p120ctn
11	CTNND1	ENSG00000198561	ENST00000533667	protein_coding	NOVEL	None	2515	1857	618	57529269	57586650	1	CTNND	KIAA0384, p120, p120cas, p120ctn
11	CTNND1	ENSG00000198561	ENST00000532649	protein_coding	KNOWN	CCDS55766	2515	2640	879	57529269	57586650	1	CTNND	KIAA0384, p120, p120cas, p120ctn
11	CTNND1	ENSG00000198561	ENST00000528621	protein_coding	KNOWN	CCDS55766	2515	2640	879	57529269	57586650	1	CTNND	KIAA0384, p120, p120cas, p120ctn
11	CTNND1	ENSG00000198561	ENST00000530748	protein_coding	KNOWN	CCDS55764	2515	2658	885	57529269	57586650	1	CTNND	KIAA0384, p120, p120cas, p120ctn
11	CTNND1	ENSG00000198561	ENST00000428599	protein_coding	KNOWN	CCDS44606	2515	2802	933	57529269	57586650	1	CTNND	KIAA0384, p120, p120cas, p120ctn
11	CTNND1	ENSG00000198561	ENST00000527467	protein_coding	KNOWN	None	2515	1938	645	57529269	57586650	1	CTNND	KIAA0384, p120, p120cas, p120ctn
11	CTNND1	ENSG00000198561	ENST00000528232	protein_coding	KNOWN	CCDS53632	2515	2517	838	57529269	57586650	1	CTNND	KIAA0384, p120, p120cas, p120ctn
11	CTNND1	ENSG00000198561	ENST00000531014	protein_coding	KNOWN	None	2515	1920	639	57529269	57586650	1	CTNND	KIAA0384, p120, p120cas, p120ctn
11	CTNND1	ENSG00000198561	ENST00000526772	protein_coding	KNOWN	None	2515	1833	610	57529269	57586650	1	CTNND	KIAA0384, p120, p120cas, p120ctn
11	CTNND1	ENSG00000198561	ENST00000529873	protein_coding	NOVEL	CCDS55767	2515	2664	887	57529269	57586650	1	CTNND	KIAA0384, p120, p120cas, p120ctn
11	CTNND1	ENSG00000198561	ENST00000525902	protein_coding	KNOWN	None	2515	1851	616	57529269	57586650	1	CTNND	KIAA0384, p120, p120cas, p120ctn
11	CTNND1	ENSG00000198561	ENST00000532844	protein_coding	KNOWN	CCDS55763	2515	2745	914	57529269	57586650	1	CTNND	KIAA0384, p120, p120cas, p120ctn
11	CTNND1	ENSG00000198561	ENST00000526357	protein_coding	KNOWN	CCDS55765	2515	2727	908	57529269	57586650	1	CTNND	KIAA0384, p120, p120cas, p120ctn
11	CTNND1	ENSG00000198561	ENST00000530094	protein_coding	KNOWN	CCDS53633	2515	2586	861	57529269	57586650	1	CTNND	KIAA0384, p120, p120cas, p120ctn
11	CTNND1	ENSG00000198561	ENST00000415361	protein_coding	KNOWN	CCDS44608	2515	2604	867	57529269	57586650	1	CTNND	KIAA0384, p120, p120cas, p120ctn
11	CTNND1	ENSG00000198561	ENST00000532245	protein_coding	KNOWN	CCDS44609	2515	2499	832	57529269	57586650	1	CTNND	KIAA0384, p120, p120cas, p120ctn
11	CTNND1	ENSG00000198561	ENST00000534579	protein_coding	KNOWN	CCDS55766	2515	2640	879	57529273	57586650	1	CTNND	KIAA0384, p120, p120cas, p120ctn
11	CTNND1	ENSG00000198561	ENST00000526938	protein_coding	NOVEL	None	2515	2757	918	57529290	57584189	1	CTNND	KIAA0384, p120, p120cas, p120ctn
11	CTNND1	ENSG00000198561	ENST00000524579	protein_coding	KNOWN	None	2515	12	3	57531325	57558962	1	CTNND	KIAA0384, p120, p120cas, p120ctn
11	CTNND1	ENSG00000198561	ENST00000530068	protein_coding	KNOWN	None	2515	386	127	57549075	57564056	1	CTNND	KIAA0384, p120, p120cas, p120ctn
11	CTNND1	ENSG00000198561	ENST00000534647	protein_coding	NOVEL	None	2515	784	260	57559031	57569266	1	CTNND	KIAA0384, p120, p120cas, p120ctn
11	CTNND1	ENSG00000198561	ENST00000527599	retained_intron	KNOWN	None	2515	None	None	57569467	57571462	1	CTNND	KIAA0384, p120, p120cas, p120ctn
11	CTNND1	ENSG00000198561	ENST00000530720	retained_intron	KNOWN	None	2515	None	None	57573995	57576007	1	CTNND	KIAA0384, p120, p120cas, p120ctn
11	CTNND1	ENSG00000198561	ENST00000531007	protein_coding	PUTATIVE	None	2515	370	122	57577617	57583483	1	CTNND	KIAA0384, p120, p120cas, p120ctn
11	CTNND1	ENSG00000198561	ENST00000525821	retained_intron	KNOWN	None	2515	None	None	57581389	57582953	1	CTNND	KIAA0384, p120, p120cas, p120ctn
11	CTNND1	ENSG00000198561	ENST00000399039	protein_coding	KNOWN	None	2515	2817	938	57520762	57585917	1	CTNND	KIAA0384, p120, p120cas, p120ctn
11	CTNND1	ENSG00000198561	ENST00000360682	protein_coding	KNOWN	None	2515	2844	947	57529234	57586651	1	CTNND	KIAA0384, p120, p120cas, p120ctn
11	CTNND1	ENSG00000198561	ENST00000361796	protein_coding	KNOWN	CCDS44606	2515	2802	933	57529234	57586651	1	CTNND	KIAA0384, p120, p120cas, p120ctn
20	None	ENSG00000226203	ENST00000449316	lincRNA	KNOWN	None	None	None	None	25936448	25949924	1	None	None
8	RPS20	ENSG00000008988	ENST00000519807	protein_coding	PUTATIVE	CCDS55231	10405	429	142	56979854	56987068	-1	None	S20
8	RPS20	ENSG00000008988	ENST00000009589	protein_coding	KNOWN	CCDS6163	10405	360	119	56985506	56987065	-1	None	S20
8	RPS20	ENSG00000008988	ENST00000524349	protein_coding	PUTATIVE	None	10405	195	64	56985601	56987065	-1	None	S20
8	RPS20	ENSG00000008988	ENST00000520490	processed_transcript	KNOWN	None	10405	None	None	56985613	56987031	-1	None	S20
8	RPS20	ENSG00000008988	ENST00000521262	protein_coding	KNOWN	None	10405	360	119	56985613	56987069	-1	None	S20
8	RPS20	ENSG00000008988	ENST00000520627	protein_coding	PUTATIVE	None	10405	195	64	56985613	56987069	-1	None	S20
8	RPS20	ENSG00000008988	ENST00000523936	protein_coding	PUTATIVE	None	10405	186	61	56985632	56986915	-1	None	S20
8	RPS20	ENSG00000008988	ENST00000519606	protein_coding	PUTATIVE	None	10405	141	46	56985634	56987065	-1	None	S20
8	RPS20	ENSG00000008988	ENST00000521289	retained_intron	KNOWN	None	10405	None	None	56985686	56987065	-1	None	S20
8	RPS20	ENSG00000008988	ENST00000518875	protein_coding	PUTATIVE	None	10405	186	61	56985875	56987057	-1	None	S20
8	RPS20	ENSG00000008988	ENST00000519369	retained_intron	KNOWN	None	10405	None	None	56986021	56987065	-1	None	S20
4	TMPRSS11F	ENSG00000198092	ENST00000356291	protein_coding	KNOWN	CCDS3520	29994	1317	438	68918916	68995598	-1	None	FLJ16046
4	TMPRSS11BNL	ENSG00000226894	ENST00000432593	protein_coding	KNOWN	CCDS47066	37262	318	105	69054242	69083798	-1	None	FLJ41562
4	SORBS2	ENSG00000154556	ENST00000284776	protein_coding	KNOWN	CCDS3845	24098	3303	1100	186506598	186877522	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000437304	protein_coding	PUTATIVE	CCDS47175	24098	2475	824	186508459	186697066	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000319471	protein_coding	PUTATIVE	CCDS47174	24098	2196	731	186508459	186732225	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000449407	protein_coding	PUTATIVE	CCDS47173	24098	1935	644	186508460	186733392	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000355634	protein_coding	PUTATIVE	CCDS59482	24098	3603	1200	186508476	186877806	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000393528	protein_coding	PUTATIVE	CCDS43289	24098	2001	666	186508477	186733375	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000478461	retained_intron	KNOWN	None	24098	None	None	186508580	186510989	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000319454	protein_coding	PUTATIVE	None	24098	1909	635	186515038	186696442	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000498125	processed_transcript	KNOWN	None	24098	None	None	186528170	186578123	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000480146	retained_intron	KNOWN	None	24098	None	None	186535780	186536376	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000451974	protein_coding	NOVEL	None	24098	873	290	186536042	186570760	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000438278	protein_coding	NOVEL	None	24098	871	289	186539756	186578674	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000487184	processed_transcript	PUTATIVE	None	24098	None	None	186545396	186548063	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000445625	protein_coding	NOVEL	None	24098	759	252	186547986	186573842	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000487836	processed_transcript	KNOWN	None	24098	None	None	186548005	186577900	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000495932	processed_transcript	KNOWN	None	24098	None	None	186548078	186577838	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000490562	processed_transcript	KNOWN	None	24098	None	None	186551703	186577894	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000492104	processed_transcript	KNOWN	None	24098	None	None	186560049	186578121	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000490779	processed_transcript	KNOWN	None	24098	None	None	186566732	186578700	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000492810	processed_transcript	KNOWN	None	24098	None	None	186566992	186577897	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000476311	processed_transcript	KNOWN	None	24098	None	None	186567137	186577878	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000466289	retained_intron	KNOWN	None	24098	None	None	186567328	186577888	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000485380	retained_intron	KNOWN	None	24098	None	None	186567602	186577834	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000470685	retained_intron	KNOWN	None	24098	None	None	186567771	186733392	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000494140	processed_transcript	KNOWN	None	24098	None	None	186567821	186578455	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000445343	protein_coding	KNOWN	None	24098	301	99	186573849	186682744	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000439914	protein_coding	KNOWN	None	24098	279	92	186573871	186732906	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000444771	protein_coding	KNOWN	None	24098	267	88	186578578	186696676	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000430503	protein_coding	PUTATIVE	None	24098	357	118	186578626	186696430	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000450341	protein_coding	KNOWN	None	24098	219	72	186578626	186696443	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000445115	protein_coding	KNOWN	None	24098	204	67	186578641	186696567	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000457247	protein_coding	KNOWN	None	24098	178	58	186578667	186696595	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000456596	protein_coding	KNOWN	None	24098	167	54	186578678	186696534	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000425679	protein_coding	PUTATIVE	None	24098	364	120	186578688	186696605	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000439049	protein_coding	PUTATIVE	None	24098	362	119	186578690	186732048	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000451958	protein_coding	PUTATIVE	None	24098	328	108	186578724	186732903	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000444781	protein_coding	PUTATIVE	None	24098	300	99	186578734	186877488	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000414724	protein_coding	PUTATIVE	None	24098	348	115	186583262	186696534	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000419063	protein_coding	PUTATIVE	None	24098	339	112	186583313	186733133	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000393523	protein_coding	KNOWN	None	24098	28	8	186583324	186733363	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000420158	protein_coding	PUTATIVE	None	24098	321	106	186583331	186732166	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000421639	protein_coding	PUTATIVE	None	24098	225	74	186583358	186732258	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000493709	processed_transcript	KNOWN	None	24098	None	None	186583360	186733203	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000457934	protein_coding	PUTATIVE	None	24098	288	95	186583364	186696605	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000431902	protein_coding	PUTATIVE	None	24098	241	79	186583369	186877502	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000435480	protein_coding	PUTATIVE	None	24098	240	79	186583370	186696595	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000415274	protein_coding	PUTATIVE	None	24098	240	79	186583370	186877563	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000432655	protein_coding	PUTATIVE	None	24098	263	86	186583389	186877488	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000451701	protein_coding	PUTATIVE	None	24098	354	117	186587193	186696568	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000428330	protein_coding	PUTATIVE	None	24098	255	84	186587268	186732911	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000421420	protein_coding	PUTATIVE	None	24098	546	181	186598502	186611753	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000464975	processed_transcript	KNOWN	None	24098	None	None	186598654	186696987	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000464819	processed_transcript	KNOWN	None	24098	None	None	186598712	186732258	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000478249	processed_transcript	KNOWN	None	24098	None	None	186598719	186733114	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000452351	protein_coding	PUTATIVE	None	24098	213	70	186599577	186661484	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000429056	protein_coding	PUTATIVE	None	24098	212	69	186599578	186732911	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000463104	processed_transcript	KNOWN	None	24098	None	None	186599584	186733006	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000456060	protein_coding	PUTATIVE	None	24098	46	14	186605965	186734278	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000476878	processed_transcript	PUTATIVE	None	24098	None	None	186678196	186877522	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000462661	retained_intron	KNOWN	None	24098	None	None	186692133	186733393	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000469627	retained_intron	KNOWN	None	24098	None	None	186695099	186877502	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000488562	processed_transcript	PUTATIVE	None	24098	None	None	186696435	186854524	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000448662	protein_coding	KNOWN	CCDS54825	24098	1986	661	186506598	186732048	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000431808	protein_coding	KNOWN	CCDS3845	24098	3303	1100	186506598	186732225	-1	None	ARGBP2, KIAA0777
4	SORBS2	ENSG00000154556	ENST00000418609	protein_coding	KNOWN	CCDS47176	24098	3015	1004	186506598	186578123	-1	None	ARGBP2, KIAA0777
X	CDX4	ENSG00000131264	ENST00000373514	protein_coding	KNOWN	CCDS14424	1808	855	284	72667090	72675081	1	None	None
20	None	ENSG00000231081	ENST00000448580	lincRNA	KNOWN	None	None	None	None	25989427	25991167	-1	None	None
12	OSBPL8	ENSG00000091039	ENST00000393249	protein_coding	KNOWN	CCDS41814	16396	2544	847	76745577	76953315	-1	None	OSBP10, ORP8, MST120, MSTP120
12	OSBPL8	ENSG00000091039	ENST00000261183	protein_coding	KNOWN	CCDS31862	16396	2670	889	76745580	76953589	-1	None	OSBP10, ORP8, MST120, MSTP120
12	OSBPL8	ENSG00000091039	ENST00000393250	protein_coding	KNOWN	CCDS41814	16396	2544	847	76749616	76953589	-1	None	OSBP10, ORP8, MST120, MSTP120
12	OSBPL8	ENSG00000091039	ENST00000548485	retained_intron	KNOWN	None	16396	None	None	76762999	76765642	-1	None	OSBP10, ORP8, MST120, MSTP120
12	OSBPL8	ENSG00000091039	ENST00000547540	protein_coding	PUTATIVE	None	16396	2164	720	76763493	76953528	-1	None	OSBP10, ORP8, MST120, MSTP120
12	OSBPL8	ENSG00000091039	ENST00000546946	protein_coding	PUTATIVE	None	16396	2084	693	76763498	76817046	-1	None	OSBP10, ORP8, MST120, MSTP120
12	OSBPL8	ENSG00000091039	ENST00000552586	retained_intron	KNOWN	None	16396	None	None	76764992	76767269	-1	None	OSBP10, ORP8, MST120, MSTP120
12	OSBPL8	ENSG00000091039	ENST00000548535	retained_intron	KNOWN	None	16396	None	None	76779810	76783764	-1	None	OSBP10, ORP8, MST120, MSTP120
12	OSBPL8	ENSG00000091039	ENST00000550865	retained_intron	KNOWN	None	16396	None	None	76784061	76788517	-1	None	OSBP10, ORP8, MST120, MSTP120
12	OSBPL8	ENSG00000091039	ENST00000548341	protein_coding	PUTATIVE	None	16396	471	156	76791636	76879888	-1	None	OSBP10, ORP8, MST120, MSTP120
12	OSBPL8	ENSG00000091039	ENST00000553139	protein_coding	KNOWN	None	16396	334	110	76793661	76953588	-1	None	OSBP10, ORP8, MST120, MSTP120
12	OSBPL8	ENSG00000091039	ENST00000549570	protein_coding	KNOWN	None	16396	230	75	76796479	76953492	-1	None	OSBP10, ORP8, MST120, MSTP120
12	OSBPL8	ENSG00000091039	ENST00000550628	protein_coding	NOVEL	None	16396	85	27	76796504	76953585	-1	None	OSBP10, ORP8, MST120, MSTP120
12	OSBPL8	ENSG00000091039	ENST00000549646	protein_coding	NOVEL	None	16396	124	40	76796536	76953573	-1	None	OSBP10, ORP8, MST120, MSTP120
12	OSBPL8	ENSG00000091039	ENST00000551927	protein_coding	KNOWN	None	16396	175	57	76844673	76953349	-1	None	OSBP10, ORP8, MST120, MSTP120
12	OSBPL8	ENSG00000091039	ENST00000547544	protein_coding	KNOWN	None	16396	158	51	76844681	76953284	-1	None	OSBP10, ORP8, MST120, MSTP120
12	OSBPL8	ENSG00000091039	ENST00000552178	processed_transcript	KNOWN	None	16396	None	None	76881330	76953308	-1	None	OSBP10, ORP8, MST120, MSTP120
X	CHIC1	ENSG00000204116	ENST00000373504	protein_coding	NOVEL	None	1934	615	204	72783036	72906937	1	None	BRX
X	CHIC1	ENSG00000204116	ENST00000373502	protein_coding	KNOWN	CCDS35335	1934	675	224	72783044	72904246	1	None	BRX
X	CHIC1	ENSG00000204116	ENST00000498407	nonsense_mediated_decay	KNOWN	None	1934	654	217	72783118	72906608	1	None	BRX
X	CHIC1	ENSG00000204116	ENST00000498318	nonsense_mediated_decay	KNOWN	None	1934	193	63	72783288	72903050	1	None	BRX
2	LANCL1	ENSG00000115365	ENST00000443314	protein_coding	KNOWN	CCDS2392	6508	1200	399	211295973	211341463	-1	GPR69A	p40
2	LANCL1	ENSG00000115365	ENST00000441020	protein_coding	KNOWN	CCDS2392	6508	1200	399	211295973	211341481	-1	GPR69A	p40
2	LANCL1	ENSG00000115365	ENST00000450366	protein_coding	KNOWN	CCDS2392	6508	1200	399	211295973	211341491	-1	GPR69A	p40
2	LANCL1	ENSG00000115365	ENST00000233714	protein_coding	KNOWN	CCDS2392	6508	1200	399	211298839	211341429	-1	GPR69A	p40
2	LANCL1	ENSG00000115365	ENST00000431941	protein_coding	KNOWN	CCDS2392	6508	1200	399	211299211	211341499	-1	GPR69A	p40
2	LANCL1	ENSG00000115365	ENST00000412863	protein_coding	NOVEL	None	6508	441	146	211299245	211305469	-1	GPR69A	p40
2	LANCL1	ENSG00000115365	ENST00000448951	protein_coding	KNOWN	None	6508	589	195	211305423	211342376	-1	GPR69A	p40
2	LANCL1	ENSG00000115365	ENST00000453956	nonsense_mediated_decay	KNOWN	None	6508	249	82	211319983	211341429	-1	GPR69A	p40
8	SNX31	ENSG00000174226	ENST00000311812	protein_coding	KNOWN	CCDS6288	28605	1323	440	101585116	101661893	-1	None	MGC39715
8	SNX31	ENSG00000174226	ENST00000518342	protein_coding	NOVEL	None	28605	146	47	101585813	101596388	-1	None	MGC39715
8	SNX31	ENSG00000174226	ENST00000428383	protein_coding	KNOWN	None	28605	1026	341	101585893	101630621	-1	None	MGC39715
8	SNX31	ENSG00000174226	ENST00000519521	processed_transcript	KNOWN	None	28605	None	None	101594573	101608934	-1	None	MGC39715
8	SNX31	ENSG00000174226	ENST00000520352	protein_coding	PUTATIVE	None	28605	374	123	101624267	101675643	-1	None	MGC39715
8	SNX31	ENSG00000174226	ENST00000520661	protein_coding	PUTATIVE	None	28605	411	136	101629872	101675447	-1	None	MGC39715
8	SNX31	ENSG00000174226	ENST00000520743	protein_coding	PUTATIVE	None	28605	301	99	101648158	101675631	-1	None	MGC39715
20	None	ENSG00000204556	ENST00000376401	unprocessed_pseudogene	KNOWN	None	None	None	None	25999468	26001320	1	None	None
4	TMPRSS11B	ENSG00000185873	ENST00000332644	protein_coding	KNOWN	CCDS3521	25398	1251	416	69092371	69111438	-1	None	None
4	TMPRSS11B	ENSG00000185873	ENST00000510856	retained_intron	KNOWN	None	25398	None	None	69094460	69095396	-1	None	None
4	TMPRSS11B	ENSG00000185873	ENST00000502365	retained_intron	KNOWN	None	25398	None	None	69097551	69111409	-1	None	None
14	FRMD6	ENSG00000139926	ENST00000556137	processed_transcript	KNOWN	None	19839	None	None	51955818	52156463	1	C14orf31	MGC17921, willin, EX1
14	FRMD6	ENSG00000139926	ENST00000356218	protein_coding	KNOWN	CCDS9704	19839	1845	614	51955855	52197177	1	C14orf31	MGC17921, willin, EX1
14	FRMD6	ENSG00000139926	ENST00000555952	processed_transcript	KNOWN	None	19839	None	None	52021378	52046015	1	C14orf31	MGC17921, willin, EX1
14	FRMD6	ENSG00000139926	ENST00000557103	processed_transcript	KNOWN	None	19839	None	None	52021387	52042923	1	C14orf31	MGC17921, willin, EX1
14	FRMD6	ENSG00000139926	ENST00000557001	processed_transcript	KNOWN	None	19839	None	None	52021401	52042798	1	C14orf31	MGC17921, willin, EX1
14	FRMD6	ENSG00000139926	ENST00000554745	processed_transcript	KNOWN	None	19839	None	None	52031945	52110456	1	C14orf31	MGC17921, willin, EX1
14	FRMD6	ENSG00000139926	ENST00000395718	protein_coding	KNOWN	CCDS9704	19839	1845	614	52118576	52197445	1	C14orf31	MGC17921, willin, EX1
14	FRMD6	ENSG00000139926	ENST00000344768	protein_coding	KNOWN	CCDS58318	19839	1869	622	52118665	52195654	1	C14orf31	MGC17921, willin, EX1
14	FRMD6	ENSG00000139926	ENST00000554778	protein_coding	KNOWN	None	19839	185	60	52118698	52164945	1	C14orf31	MGC17921, willin, EX1
14	FRMD6	ENSG00000139926	ENST00000555936	protein_coding	PUTATIVE	None	19839	362	119	52164706	52174806	1	C14orf31	MGC17921, willin, EX1
14	FRMD6	ENSG00000139926	ENST00000554167	protein_coding	PUTATIVE	None	19839	1638	545	52164831	52197148	1	C14orf31	MGC17921, willin, EX1
14	FRMD6	ENSG00000139926	ENST00000557405	protein_coding	PUTATIVE	None	19839	390	129	52169266	52175062	1	C14orf31	MGC17921, willin, EX1
14	FRMD6	ENSG00000139926	ENST00000554495	retained_intron	KNOWN	None	19839	None	None	52171336	52179224	1	C14orf31	MGC17921, willin, EX1
14	FRMD6	ENSG00000139926	ENST00000557183	processed_transcript	KNOWN	None	19839	None	None	52171357	52182197	1	C14orf31	MGC17921, willin, EX1
14	FRMD6	ENSG00000139926	ENST00000555197	protein_coding	PUTATIVE	None	19839	618	205	52179231	52187243	1	C14orf31	MGC17921, willin, EX1
14	FRMD6	ENSG00000139926	ENST00000557522	retained_intron	KNOWN	None	19839	None	None	52180365	52197172	1	C14orf31	MGC17921, willin, EX1
14	FRMD6	ENSG00000139926	ENST00000555703	protein_coding	NOVEL	None	19839	429	142	52183973	52192513	1	C14orf31	MGC17921, willin, EX1
14	FRMD6	ENSG00000139926	ENST00000553556	protein_coding	KNOWN	CCDS58319	19839	795	264	52183973	52195487	1	C14orf31	MGC17921, willin, EX1
14	MARK3	ENSG00000075413	ENST00000440884	protein_coding	KNOWN	CCDS45167	6897	1980	659	103851729	103969589	1	None	CTAK1, KP78, PAR-1A
14	MARK3	ENSG00000075413	ENST00000559328	processed_transcript	PUTATIVE	None	6897	None	None	103851748	103894777	1	None	CTAK1, KP78, PAR-1A
14	MARK3	ENSG00000075413	ENST00000560603	processed_transcript	KNOWN	None	6897	None	None	103851754	103894782	1	None	CTAK1, KP78, PAR-1A
14	MARK3	ENSG00000075413	ENST00000416682	protein_coding	KNOWN	None	6897	2259	752	103851790	103969697	1	None	CTAK1, KP78, PAR-1A
14	MARK3	ENSG00000075413	ENST00000429436	protein_coding	KNOWN	CCDS45165	6897	2262	753	103851857	103970163	1	None	CTAK1, KP78, PAR-1A
14	MARK3	ENSG00000075413	ENST00000303622	protein_coding	KNOWN	CCDS41993	6897	2190	729	103851878	103970168	1	None	CTAK1, KP78, PAR-1A
14	MARK3	ENSG00000075413	ENST00000216288	protein_coding	KNOWN	CCDS55947	6897	2142	713	103852197	103970163	1	None	CTAK1, KP78, PAR-1A
14	MARK3	ENSG00000075413	ENST00000553942	protein_coding	KNOWN	CCDS45166	6897	2235	744	103852322	103969582	1	None	CTAK1, KP78, PAR-1A
14	MARK3	ENSG00000075413	ENST00000560417	protein_coding	NOVEL	None	6897	536	177	103852324	103931943	1	None	CTAK1, KP78, PAR-1A
14	MARK3	ENSG00000075413	ENST00000558223	retained_intron	KNOWN	None	6897	None	None	103852341	103932235	1	None	CTAK1, KP78, PAR-1A
14	MARK3	ENSG00000075413	ENST00000335102	protein_coding	PUTATIVE	None	6897	2331	776	103852367	103969564	1	None	CTAK1, KP78, PAR-1A
14	MARK3	ENSG00000075413	ENST00000561225	protein_coding	PUTATIVE	None	6897	388	128	103852576	103918332	1	None	CTAK1, KP78, PAR-1A
14	MARK3	ENSG00000075413	ENST00000561071	processed_transcript	KNOWN	None	6897	None	None	103871471	103969403	1	None	CTAK1, KP78, PAR-1A
14	MARK3	ENSG00000075413	ENST00000558698	processed_transcript	KNOWN	None	6897	None	None	103883610	103932043	1	None	CTAK1, KP78, PAR-1A
14	MARK3	ENSG00000075413	ENST00000560731	processed_transcript	KNOWN	None	6897	None	None	103883665	103923513	1	None	CTAK1, KP78, PAR-1A
14	MARK3	ENSG00000075413	ENST00000559268	processed_transcript	KNOWN	None	6897	None	None	103883665	103931953	1	None	CTAK1, KP78, PAR-1A
14	MARK3	ENSG00000075413	ENST00000561164	processed_transcript	KNOWN	None	6897	None	None	103895530	103932067	1	None	CTAK1, KP78, PAR-1A
14	MARK3	ENSG00000075413	ENST00000554627	protein_coding	KNOWN	None	6897	1517	504	103932051	103969618	1	None	CTAK1, KP78, PAR-1A
14	MARK3	ENSG00000075413	ENST00000558953	processed_transcript	KNOWN	None	6897	None	None	103932390	103935640	1	None	CTAK1, KP78, PAR-1A
14	MARK3	ENSG00000075413	ENST00000558611	retained_intron	KNOWN	None	6897	None	None	103932700	103934022	1	None	CTAK1, KP78, PAR-1A
14	MARK3	ENSG00000075413	ENST00000559274	retained_intron	KNOWN	None	6897	None	None	103934051	103958371	1	None	CTAK1, KP78, PAR-1A
14	MARK3	ENSG00000075413	ENST00000561314	protein_coding	NOVEL	None	6897	669	222	103941329	103969619	1	None	CTAK1, KP78, PAR-1A
14	MARK3	ENSG00000075413	ENST00000556744	protein_coding	NOVEL	None	6897	996	331	103941461	103969619	1	None	CTAK1, KP78, PAR-1A
14	MARK3	ENSG00000075413	ENST00000556463	retained_intron	KNOWN	None	6897	None	None	103955734	103970164	1	None	CTAK1, KP78, PAR-1A
14	MARK3	ENSG00000075413	ENST00000558787	retained_intron	KNOWN	None	6897	None	None	103957876	103969408	1	None	CTAK1, KP78, PAR-1A
14	MARK3	ENSG00000075413	ENST00000555235	retained_intron	KNOWN	None	6897	None	None	103965202	103970164	1	None	CTAK1, KP78, PAR-1A
9	STOML2	ENSG00000165283	ENST00000356493	protein_coding	KNOWN	CCDS6577	14559	1071	356	35099888	35103154	-1	None	SLP-2, HSPC108
9	STOML2	ENSG00000165283	ENST00000488050	nonsense_mediated_decay	KNOWN	None	14559	306	101	35099893	35101490	-1	None	SLP-2, HSPC108
9	STOML2	ENSG00000165283	ENST00000487490	processed_transcript	KNOWN	None	14559	None	None	35101778	35102361	-1	None	SLP-2, HSPC108
9	STOML2	ENSG00000165283	ENST00000452248	protein_coding	KNOWN	None	14559	936	311	35099958	35103130	-1	None	SLP-2, HSPC108
5	C5orf58	ENSG00000234511	ENST00000521850	protein_coding	KNOWN	CCDS47338	37272	309	102	169659451	169673232	1	None	None
5	C5orf58	ENSG00000234511	ENST00000517575	processed_transcript	PUTATIVE	None	37272	None	None	169659944	169679207	1	None	None
5	C5orf58	ENSG00000234511	ENST00000524171	nonsense_mediated_decay	KNOWN	None	37272	165	54	169659946	169679579	1	None	None
5	C5orf58	ENSG00000234511	ENST00000421269	retained_intron	KNOWN	None	37272	None	None	169661936	169673232	1	None	None
5	C5orf58	ENSG00000234511	ENST00000518395	processed_transcript	PUTATIVE	None	37272	None	None	169664268	169673235	1	None	None
5	C5orf58	ENSG00000234511	ENST00000593851	protein_coding	KNOWN	CCDS47338	37272	309	102	169659950	169673234	1	None	None
10	GOLGA7B	ENSG00000155265	ENST00000370602	protein_coding	KNOWN	CCDS31265	31668	504	167	99609996	99627782	1	C10orf133, C10orf132	bA459F3.4, bA451M19.3
10	GOLGA7B	ENSG00000155265	ENST00000423054	processed_transcript	PUTATIVE	None	31668	None	None	99625988	99631337	1	C10orf133, C10orf132	bA459F3.4, bA451M19.3
5	LCP2	ENSG00000043462	ENST00000046794	protein_coding	KNOWN	CCDS47339	6529	1602	533	169673241	169725231	-1	SLP76	SLP-76
5	LCP2	ENSG00000043462	ENST00000520322	retained_intron	KNOWN	None	6529	None	None	169674576	169678696	-1	SLP76	SLP-76
5	LCP2	ENSG00000043462	ENST00000521416	protein_coding	PUTATIVE	None	6529	987	328	169675304	169694300	-1	SLP76	SLP-76
5	LCP2	ENSG00000043462	ENST00000523369	retained_intron	KNOWN	None	6529	None	None	169683530	169685502	-1	SLP76	SLP-76
5	LCP2	ENSG00000043462	ENST00000520344	protein_coding	PUTATIVE	None	6529	420	139	169683561	169694331	-1	SLP76	SLP-76
5	LCP2	ENSG00000043462	ENST00000519594	retained_intron	KNOWN	None	6529	None	None	169697504	169724731	-1	SLP76	SLP-76
5	LCP2	ENSG00000043462	ENST00000522760	retained_intron	KNOWN	None	6529	None	None	169700785	169724733	-1	SLP76	SLP-76
5	LCP2	ENSG00000043462	ENST00000522823	retained_intron	KNOWN	None	6529	None	None	169702629	169724819	-1	SLP76	SLP-76
5	LCP2	ENSG00000043462	ENST00000519149	retained_intron	KNOWN	None	6529	None	None	169714721	169724788	-1	SLP76	SLP-76
10	CCDC3	ENSG00000151468	ENST00000378825	protein_coding	KNOWN	CCDS7093	23813	813	270	12938627	13043697	-1	None	DKFZp761F241
10	CCDC3	ENSG00000151468	ENST00000378839	protein_coding	PUTATIVE	None	23813	438	145	12938627	13141652	-1	None	DKFZp761F241
11	FCHSD2	ENSG00000137478	ENST00000311172	protein_coding	KNOWN	None	29114	2055	684	72547790	72853091	-1	SH3MD3	KIAA0769
11	FCHSD2	ENSG00000137478	ENST00000409314	protein_coding	NOVEL	None	29114	2295	764	72547791	72853091	-1	SH3MD3	KIAA0769
11	FCHSD2	ENSG00000137478	ENST00000409418	protein_coding	KNOWN	CCDS8218	29114	2223	740	72549289	72853306	-1	SH3MD3	KIAA0769
11	FCHSD2	ENSG00000137478	ENST00000409263	protein_coding	PUTATIVE	None	29114	306	101	72549444	72554558	-1	SH3MD3	KIAA0769
11	FCHSD2	ENSG00000137478	ENST00000458644	protein_coding	PUTATIVE	None	29114	1815	604	72549807	72852958	-1	SH3MD3	KIAA0769
11	FCHSD2	ENSG00000137478	ENST00000409853	protein_coding	KNOWN	None	29114	1548	515	72553999	72851106	-1	SH3MD3	KIAA0769
11	FCHSD2	ENSG00000137478	ENST00000432043	nonsense_mediated_decay	KNOWN	None	29114	352	116	72554273	72598620	-1	SH3MD3	KIAA0769
11	FCHSD2	ENSG00000137478	ENST00000543644	protein_coding	PUTATIVE	None	29114	257	84	72694810	72700057	-1	SH3MD3	KIAA0769
11	FCHSD2	ENSG00000137478	ENST00000422375	protein_coding	PUTATIVE	None	29114	421	139	72700046	72852389	-1	SH3MD3	KIAA0769
20	FAM182A	ENSG00000125804	ENST00000376398	lincRNA	KNOWN	None	16222	None	None	26035291	26067553	1	C20orf91	bB329D4.1, C20orf91A
20	FAM182A	ENSG00000125804	ENST00000389261	lincRNA	KNOWN	None	16222	None	None	26038034	26054495	1	C20orf91	bB329D4.1, C20orf91A
20	FAM182A	ENSG00000125804	ENST00000439881	lincRNA	KNOWN	None	16222	None	None	26046283	26054448	1	C20orf91	bB329D4.1, C20orf91A
20	FAM182A	ENSG00000125804	ENST00000471057	lincRNA	KNOWN	None	16222	None	None	26049573	26057076	1	C20orf91	bB329D4.1, C20orf91A
20	FAM182A	ENSG00000125804	ENST00000482133	processed_transcript	KNOWN	None	16222	None	None	26049724	26063584	1	C20orf91	bB329D4.1, C20orf91A
20	FAM182A	ENSG00000125804	ENST00000415411	processed_transcript	KNOWN	None	16222	None	None	26040299	26073683	1	C20orf91	bB329D4.1, C20orf91A
4	YTHDC1	ENSG00000083896	ENST00000344157	protein_coding	KNOWN	CCDS33992	30626	2184	727	69176105	69215807	-1	None	YT521, KIAA1966, YT521-B
4	YTHDC1	ENSG00000083896	ENST00000355665	protein_coding	KNOWN	CCDS3522	30626	2130	709	69179039	69215807	-1	None	YT521, KIAA1966, YT521-B
4	YTHDC1	ENSG00000083896	ENST00000579690	protein_coding	NOVEL	None	30626	2208	735	69179042	69215471	-1	None	YT521, KIAA1966, YT521-B
4	YTHDC1	ENSG00000083896	ENST00000507529	protein_coding	PUTATIVE	None	30626	281	92	69181573	69184439	-1	None	YT521, KIAA1966, YT521-B
4	YTHDC1	ENSG00000083896	ENST00000506175	retained_intron	KNOWN	None	30626	None	None	69188210	69195791	-1	None	YT521, KIAA1966, YT521-B
4	YTHDC1	ENSG00000083896	ENST00000505251	protein_coding	PUTATIVE	None	30626	112	36	69203484	69204130	-1	None	YT521, KIAA1966, YT521-B
4	YTHDC1	ENSG00000083896	ENST00000510746	protein_coding	PUTATIVE	None	30626	38	11	69203558	69215763	-1	None	YT521, KIAA1966, YT521-B
4	SH3TC1	ENSG00000125089	ENST00000510763	processed_transcript	KNOWN	None	26009	None	None	8183799	8214556	1	None	FLJ20356
4	SH3TC1	ENSG00000125089	ENST00000509119	protein_coding	PUTATIVE	None	26009	317	104	8183802	8217901	1	None	FLJ20356
4	SH3TC1	ENSG00000125089	ENST00000507123	retained_intron	KNOWN	None	26009	None	None	8201025	8207339	1	None	FLJ20356
4	SH3TC1	ENSG00000125089	ENST00000506360	retained_intron	KNOWN	None	26009	None	None	8201030	8242471	1	None	FLJ20356
4	SH3TC1	ENSG00000125089	ENST00000502669	nonsense_mediated_decay	KNOWN	None	26009	609	202	8201031	8242462	1	None	FLJ20356
4	SH3TC1	ENSG00000125089	ENST00000382521	protein_coding	PUTATIVE	None	26009	342	113	8201091	8207850	1	None	FLJ20356
4	SH3TC1	ENSG00000125089	ENST00000245105	protein_coding	KNOWN	CCDS3399	26009	4011	1336	8201094	8242830	1	None	FLJ20356
4	SH3TC1	ENSG00000125089	ENST00000457650	protein_coding	KNOWN	None	26009	283	93	8201098	8214463	1	None	FLJ20356
4	SH3TC1	ENSG00000125089	ENST00000515682	nonsense_mediated_decay	KNOWN	None	26009	231	76	8201098	8242818	1	None	FLJ20356
4	SH3TC1	ENSG00000125089	ENST00000504822	processed_transcript	KNOWN	None	26009	None	None	8203113	8206990	1	None	FLJ20356
4	SH3TC1	ENSG00000125089	ENST00000503284	processed_transcript	KNOWN	None	26009	None	None	8203378	8216294	1	None	FLJ20356
4	SH3TC1	ENSG00000125089	ENST00000504223	retained_intron	KNOWN	None	26009	None	None	8211378	8214953	1	None	FLJ20356
4	SH3TC1	ENSG00000125089	ENST00000512100	retained_intron	KNOWN	None	26009	None	None	8211391	8221199	1	None	FLJ20356
4	SH3TC1	ENSG00000125089	ENST00000507891	nonsense_mediated_decay	KNOWN	None	26009	77	24	8216290	8221095	1	None	FLJ20356
4	SH3TC1	ENSG00000125089	ENST00000508641	protein_coding	PUTATIVE	None	26009	551	182	8217930	8224659	1	None	FLJ20356
4	SH3TC1	ENSG00000125089	ENST00000514274	processed_transcript	PUTATIVE	None	26009	None	None	8226323	8229196	1	None	FLJ20356
4	SH3TC1	ENSG00000125089	ENST00000508438	retained_intron	KNOWN	None	26009	None	None	8226742	8229000	1	None	FLJ20356
4	SH3TC1	ENSG00000125089	ENST00000509553	retained_intron	KNOWN	None	26009	None	None	8226883	8229272	1	None	FLJ20356
4	SH3TC1	ENSG00000125089	ENST00000511002	nonsense_mediated_decay	KNOWN	None	26009	304	100	8230259	8239246	1	None	FLJ20356
4	SH3TC1	ENSG00000125089	ENST00000502350	retained_intron	KNOWN	None	26009	None	None	8230878	8242818	1	None	FLJ20356
4	SH3TC1	ENSG00000125089	ENST00000508183	retained_intron	KNOWN	None	26009	None	None	8230903	8238156	1	None	FLJ20356
4	SH3TC1	ENSG00000125089	ENST00000513495	retained_intron	KNOWN	None	26009	None	None	8230945	8237317	1	None	FLJ20356
4	SH3TC1	ENSG00000125089	ENST00000507801	processed_transcript	KNOWN	None	26009	None	None	8230951	8234621	1	None	FLJ20356
4	SH3TC1	ENSG00000125089	ENST00000502559	retained_intron	KNOWN	None	26009	None	None	8232869	8242818	1	None	FLJ20356
4	SH3TC1	ENSG00000125089	ENST00000512966	protein_coding	PUTATIVE	None	26009	124	40	8242571	8243530	1	None	FLJ20356
4	SH3TC1	ENSG00000125089	ENST00000539824	protein_coding	KNOWN	None	26009	3783	1260	8201098	8242818	1	None	FLJ20356
12	ASIC1	ENSG00000110881	ENST00000228468	protein_coding	KNOWN	CCDS8796	100	1725	574	50451331	50477394	1	ACCN2	BNaC2, hBNaC2
12	ASIC1	ENSG00000110881	ENST00000447966	protein_coding	KNOWN	CCDS44876	100	1587	528	50451487	50477394	1	ACCN2	BNaC2, hBNaC2
12	ASIC1	ENSG00000110881	ENST00000550558	nonsense_mediated_decay	KNOWN	None	100	792	263	50451528	50477394	1	ACCN2	BNaC2, hBNaC2
12	ASIC1	ENSG00000110881	ENST00000453327	protein_coding	NOVEL	None	100	1190	395	50453670	50475723	1	ACCN2	BNaC2, hBNaC2
12	ASIC1	ENSG00000110881	ENST00000551199	retained_intron	KNOWN	None	100	None	None	50464523	50474565	1	ACCN2	BNaC2, hBNaC2
12	ASIC1	ENSG00000110881	ENST00000552438	protein_coding	PUTATIVE	CCDS58228	100	1689	562	50467358	50477060	1	ACCN2	BNaC2, hBNaC2
12	ASIC1	ENSG00000110881	ENST00000549792	retained_intron	KNOWN	None	100	None	None	50470533	50471045	1	ACCN2	BNaC2, hBNaC2
12	ASIC1	ENSG00000110881	ENST00000548350	retained_intron	KNOWN	None	100	None	None	50472245	50473725	1	ACCN2	BNaC2, hBNaC2
12	ASIC1	ENSG00000110881	ENST00000552633	protein_coding	PUTATIVE	None	100	382	126	50474281	50476601	1	ACCN2	BNaC2, hBNaC2
6	None	ENSG00000214239	ENST00000397897	protein_coding	NOVEL	None	None	66	21	159047471	159049322	1	None	None
2	CPS1	ENSG00000021826	ENST00000417946	protein_coding	KNOWN	None	2323	365	120	211342406	211441198	1	None	None
2	CPS1	ENSG00000021826	ENST00000518043	protein_coding	KNOWN	None	2323	365	120	211342406	211441198	1	None	None
2	CPS1	ENSG00000021826	ENST00000523702	protein_coding	PUTATIVE	None	2323	472	156	211342414	211442217	1	None	None
2	CPS1	ENSG00000021826	ENST00000430249	protein_coding	KNOWN	CCDS46505	2323	4521	1506	211342433	211543831	1	None	None
2	CPS1	ENSG00000021826	ENST00000233072	protein_coding	KNOWN	CCDS2393	2323	4503	1500	211421262	211543831	1	None	None
2	CPS1	ENSG00000021826	ENST00000497163	retained_intron	KNOWN	None	2323	None	None	211441879	211444524	1	None	None
2	CPS1	ENSG00000021826	ENST00000451903	protein_coding	KNOWN	CCDS46506	2323	3150	1049	211458090	211543831	1	None	None
2	CPS1	ENSG00000021826	ENST00000467353	retained_intron	KNOWN	None	2323	None	None	211469689	211471495	1	None	None
2	CPS1	ENSG00000021826	ENST00000497121	processed_transcript	KNOWN	None	2323	None	None	211495952	211512658	1	None	None
2	CPS1	ENSG00000021826	ENST00000470791	retained_intron	KNOWN	None	2323	None	None	211523107	211527870	1	None	None
2	CPS1	ENSG00000021826	ENST00000479988	retained_intron	KNOWN	None	2323	None	None	211536339	211543831	1	None	None
8	PKHD1L1	ENSG00000205038	ENST00000378402	protein_coding	KNOWN	CCDS47911	20313	12732	4243	110374706	110542559	1	None	None
8	PKHD1L1	ENSG00000205038	ENST00000526472	protein_coding	NOVEL	None	20313	3516	1171	110492780	110542489	1	None	None
8	PKHD1L1	ENSG00000205038	ENST00000533183	retained_intron	KNOWN	None	20313	None	None	110509458	110511534	1	None	None
8	PKHD1L1	ENSG00000205038	ENST00000534623	retained_intron	KNOWN	None	20313	None	None	110535052	110539256	1	None	None
6	DYNLT1	ENSG00000146425	ENST00000367088	protein_coding	KNOWN	None	11697	204	67	159057506	159063820	-1	TCTEL1	None
6	DYNLT1	ENSG00000146425	ENST00000367089	protein_coding	KNOWN	CCDS5257	11697	342	113	159057506	159065771	-1	TCTEL1	None
6	DYNLT1	ENSG00000146425	ENST00000367085	protein_coding	KNOWN	None	11697	279	92	159058252	159065770	-1	TCTEL1	None
10	CRTAC1	ENSG00000095713	ENST00000413387	protein_coding	KNOWN	None	14882	1575	524	99624757	99696035	-1	None	FLJ10320, CEP-68, ASPIC1
10	CRTAC1	ENSG00000095713	ENST00000370597	protein_coding	KNOWN	CCDS31266	14882	1986	661	99624757	99790585	-1	None	FLJ10320, CEP-68, ASPIC1
10	CRTAC1	ENSG00000095713	ENST00000436034	protein_coding	PUTATIVE	None	14882	238	78	99638154	99643999	-1	None	FLJ10320, CEP-68, ASPIC1
10	CRTAC1	ENSG00000095713	ENST00000309155	protein_coding	KNOWN	None	14882	1914	637	99639408	99771094	-1	None	FLJ10320, CEP-68, ASPIC1
10	CRTAC1	ENSG00000095713	ENST00000468549	processed_transcript	KNOWN	None	14882	None	None	99640103	99644305	-1	None	FLJ10320, CEP-68, ASPIC1
10	CRTAC1	ENSG00000095713	ENST00000298819	protein_coding	KNOWN	None	14882	1887	628	99624758	99790585	-1	None	FLJ10320, CEP-68, ASPIC1
10	CRTAC1	ENSG00000095713	ENST00000370591	protein_coding	KNOWN	CCDS55723	14882	1938	645	99639440	99790585	-1	None	FLJ10320, CEP-68, ASPIC1
19	IZUMO2	ENSG00000161652	ENST00000293405	protein_coding	KNOWN	CCDS12792	28518	666	221	50655805	50666452	-1	C19orf41	MGC33947, SCRL
19	IZUMO2	ENSG00000161652	ENST00000600293	protein_coding	PUTATIVE	None	28518	703	233	50655806	50666413	-1	C19orf41	MGC33947, SCRL
19	IZUMO2	ENSG00000161652	ENST00000486050	nonsense_mediated_decay	KNOWN	None	28518	280	92	50655848	50666437	-1	C19orf41	MGC33947, SCRL
19	IZUMO2	ENSG00000161652	ENST00000594854	nonsense_mediated_decay	KNOWN	None	28518	269	88	50663223	50666384	-1	C19orf41	MGC33947, SCRL
17	KCNAB3	ENSG00000170049	ENST00000303790	protein_coding	KNOWN	CCDS11124	6230	1215	404	7825177	7832753	-1	None	AKR6A9, KCNA3B
17	KCNAB3	ENSG00000170049	ENST00000572275	retained_intron	KNOWN	None	6230	None	None	7826026	7827160	-1	None	AKR6A9, KCNA3B
17	KCNAB3	ENSG00000170049	ENST00000570587	nonsense_mediated_decay	KNOWN	None	6230	129	42	7826257	7832753	-1	None	AKR6A9, KCNA3B
17	KCNAB3	ENSG00000170049	ENST00000576981	retained_intron	KNOWN	None	6230	None	None	7826774	7829293	-1	None	AKR6A9, KCNA3B
17	KCNAB3	ENSG00000170049	ENST00000574006	retained_intron	KNOWN	None	6230	None	None	7830445	7831337	-1	None	AKR6A9, KCNA3B
17	KCNAB3	ENSG00000170049	ENST00000570852	nonsense_mediated_decay	KNOWN	None	6230	306	101	7830737	7833121	-1	None	AKR6A9, KCNA3B
8	ZNF707	ENSG00000181135	ENST00000532003	retained_intron	KNOWN	None	27815	None	None	144766622	144773644	1	None	None
8	ZNF707	ENSG00000181135	ENST00000525185	nonsense_mediated_decay	KNOWN	None	27815	168	55	144766622	144776000	1	None	None
8	ZNF707	ENSG00000181135	ENST00000534303	protein_coding	KNOWN	None	27815	425	140	144766623	144776009	1	None	None
8	ZNF707	ENSG00000181135	ENST00000533031	nonsense_mediated_decay	KNOWN	None	27815	168	55	144766626	144777526	1	None	None
8	ZNF707	ENSG00000181135	ENST00000525619	retained_intron	KNOWN	None	27815	None	None	144766632	144772589	1	None	None
8	ZNF707	ENSG00000181135	ENST00000528456	nonsense_mediated_decay	KNOWN	None	27815	279	92	144766632	144775942	1	None	None
8	ZNF707	ENSG00000181135	ENST00000529833	protein_coding	KNOWN	None	27815	237	78	144766643	144773864	1	None	None
8	ZNF707	ENSG00000181135	ENST00000530574	protein_coding	PUTATIVE	None	27815	403	133	144766643	144775997	1	None	None
8	ZNF707	ENSG00000181135	ENST00000531985	nonsense_mediated_decay	KNOWN	None	27815	168	55	144766649	144775893	1	None	None
8	ZNF707	ENSG00000181135	ENST00000527293	nonsense_mediated_decay	KNOWN	None	27815	168	55	144766649	144775926	1	None	None
8	ZNF707	ENSG00000181135	ENST00000533254	retained_intron	KNOWN	None	27815	None	None	144766651	144773563	1	None	None
8	ZNF707	ENSG00000181135	ENST00000442058	protein_coding	PUTATIVE	None	27815	168	55	144766651	144773870	1	None	None
8	ZNF707	ENSG00000181135	ENST00000525538	retained_intron	KNOWN	None	27815	None	None	144766651	144774084	1	None	None
8	ZNF707	ENSG00000181135	ENST00000358656	protein_coding	KNOWN	CCDS47932	27815	1116	371	144766651	144777555	1	None	None
8	ZNF707	ENSG00000181135	ENST00000532571	processed_transcript	KNOWN	None	27815	None	None	144766652	144772269	1	None	None
8	ZNF707	ENSG00000181135	ENST00000534589	retained_intron	KNOWN	None	27815	None	None	144766652	144773981	1	None	None
8	ZNF707	ENSG00000181135	ENST00000531811	processed_transcript	KNOWN	None	27815	None	None	144766653	144775918	1	None	None
8	ZNF707	ENSG00000181135	ENST00000532486	retained_intron	KNOWN	None	27815	None	None	144766654	144777554	1	None	None
8	ZNF707	ENSG00000181135	ENST00000527561	processed_transcript	KNOWN	None	27815	None	None	144766654	144794907	1	None	None
8	ZNF707	ENSG00000181135	ENST00000526970	protein_coding	KNOWN	None	27815	142	46	144766657	144773369	1	None	None
8	ZNF707	ENSG00000181135	ENST00000532158	protein_coding	KNOWN	CCDS47932	27815	1116	371	144766662	144777527	1	None	None
8	ZNF707	ENSG00000181135	ENST00000528134	retained_intron	KNOWN	None	27815	None	None	144766675	144773596	1	None	None
8	ZNF707	ENSG00000181135	ENST00000525862	nonsense_mediated_decay	KNOWN	None	27815	312	103	144766677	144775873	1	None	None
8	ZNF707	ENSG00000181135	ENST00000526315	protein_coding	PUTATIVE	None	27815	437	144	144766678	144776129	1	None	None
8	ZNF707	ENSG00000181135	ENST00000532205	protein_coding	KNOWN	CCDS47932	27815	1116	371	144766678	144777550	1	None	None
8	ZNF707	ENSG00000181135	ENST00000530341	processed_transcript	KNOWN	None	27815	None	None	144766680	144775881	1	None	None
8	ZNF707	ENSG00000181135	ENST00000531254	retained_intron	KNOWN	None	27815	None	None	144773685	144776199	1	None	None
8	ZNF707	ENSG00000181135	ENST00000508587	processed_transcript	KNOWN	None	27815	None	None	144790221	144796068	1	None	None
8	ZNF707	ENSG00000181135	ENST00000454097	protein_coding	KNOWN	CCDS47932	27815	1116	371	144766622	144777554	1	None	None
8	ZNF707	ENSG00000181135	ENST00000418203	protein_coding	KNOWN	CCDS47932	27815	1116	371	144770160	144777554	1	None	None
16	IL34	ENSG00000157368	ENST00000563721	protein_coding	PUTATIVE	None	28529	162	53	70613812	70688574	1	C16orf77	MGC34647, IL-34
16	IL34	ENSG00000157368	ENST00000569641	processed_transcript	PUTATIVE	None	28529	None	None	70680466	70690574	1	C16orf77	MGC34647, IL-34
16	IL34	ENSG00000157368	ENST00000288098	protein_coding	KNOWN	CCDS10895	28529	729	242	70680468	70694585	1	C16orf77	MGC34647, IL-34
16	IL34	ENSG00000157368	ENST00000574181	retained_intron	KNOWN	None	28529	None	None	70680776	70691260	1	C16orf77	MGC34647, IL-34
16	IL34	ENSG00000157368	ENST00000566361	protein_coding	PUTATIVE	None	28529	654	217	70688002	70694172	1	C16orf77	MGC34647, IL-34
16	IL34	ENSG00000157368	ENST00000429149	protein_coding	KNOWN	CCDS10895	28529	729	242	70613798	70694585	1	C16orf77	MGC34647, IL-34
8	RBPMS	ENSG00000157110	ENST00000397323	protein_coding	KNOWN	CCDS6077	19097	591	196	30241995	30429778	1	None	HERMES
8	RBPMS	ENSG00000157110	ENST00000339877	protein_coding	KNOWN	CCDS34876	19097	660	219	30242027	30405039	1	None	HERMES
8	RBPMS	ENSG00000157110	ENST00000320203	protein_coding	KNOWN	CCDS6077	19097	591	196	30242027	30429773	1	None	HERMES
8	RBPMS	ENSG00000157110	ENST00000287771	protein_coding	KNOWN	CCDS34875	19097	615	204	30242043	30429773	1	None	HERMES
8	RBPMS	ENSG00000157110	ENST00000517860	protein_coding	PUTATIVE	None	19097	675	224	30242601	30402681	1	None	HERMES
8	RBPMS	ENSG00000157110	ENST00000520161	protein_coding	PUTATIVE	None	19097	348	115	30242719	30405000	1	None	HERMES
8	RBPMS	ENSG00000157110	ENST00000523115	protein_coding	PUTATIVE	None	19097	148	48	30244580	30402073	1	None	HERMES
8	RBPMS	ENSG00000157110	ENST00000519647	protein_coding	PUTATIVE	None	19097	348	115	30244724	30405009	1	None	HERMES
8	RBPMS	ENSG00000157110	ENST00000521816	processed_transcript	PUTATIVE	None	19097	None	None	30255443	30332332	1	None	HERMES
8	RBPMS	ENSG00000157110	ENST00000520191	protein_coding	PUTATIVE	None	19097	363	120	30300133	30403108	1	None	HERMES
8	RBPMS	ENSG00000157110	ENST00000523717	processed_transcript	KNOWN	None	19097	None	None	30300236	30402139	1	None	HERMES
8	RBPMS	ENSG00000157110	ENST00000522708	processed_transcript	KNOWN	None	19097	None	None	30311176	30361835	1	None	HERMES
8	RBPMS	ENSG00000157110	ENST00000519359	nonsense_mediated_decay	KNOWN	None	19097	359	118	30332302	30428217	1	None	HERMES
8	RBPMS	ENSG00000157110	ENST00000522694	nonsense_mediated_decay	KNOWN	None	19097	342	113	30336846	30405034	1	None	HERMES
8	RBPMS	ENSG00000157110	ENST00000522099	processed_transcript	PUTATIVE	None	19097	None	None	30402717	30405036	1	None	HERMES
8	RBPMS	ENSG00000157110	ENST00000521370	processed_transcript	KNOWN	None	19097	None	None	30413970	30428278	1	None	HERMES
8	RBPMS	ENSG00000157110	ENST00000523104	processed_transcript	KNOWN	None	19097	None	None	30414154	30428274	1	None	HERMES
8	RBPMS	ENSG00000157110	ENST00000519657	processed_transcript	KNOWN	None	19097	None	None	30415698	30428278	1	None	HERMES
8	RBPMS	ENSG00000157110	ENST00000520916	processed_transcript	KNOWN	None	19097	None	None	30421567	30428511	1	None	HERMES
8	RBPMS	ENSG00000157110	ENST00000520971	processed_transcript	PUTATIVE	None	19097	None	None	30421884	30428278	1	None	HERMES
8	RBPMS	ENSG00000157110	ENST00000538486	protein_coding	KNOWN	None	19097	462	153	30241944	30429734	1	None	HERMES
16	PLK1	ENSG00000166851	ENST00000562272	retained_intron	KNOWN	None	9077	None	None	23688977	23701687	1	PLK	None
16	PLK1	ENSG00000166851	ENST00000300093	protein_coding	KNOWN	CCDS10616	9077	1812	603	23690143	23701688	1	PLK	None
16	PLK1	ENSG00000166851	ENST00000570220	nonsense_mediated_decay	KNOWN	None	9077	522	173	23690190	23692343	1	PLK	None
16	PLK1	ENSG00000166851	ENST00000564202	processed_transcript	PUTATIVE	None	9077	None	None	23690292	23692375	1	PLK	None
16	PLK1	ENSG00000166851	ENST00000567897	protein_coding	PUTATIVE	None	9077	316	104	23690904	23695410	1	PLK	None
16	PLK1	ENSG00000166851	ENST00000568568	protein_coding	PUTATIVE	None	9077	175	57	23691053	23695269	1	PLK	None
16	PLK1	ENSG00000166851	ENST00000562407	retained_intron	KNOWN	None	9077	None	None	23695223	23699141	1	PLK	None
16	PLK1	ENSG00000166851	ENST00000564947	retained_intron	KNOWN	None	9077	None	None	23698458	23700053	1	PLK	None
16	PLK1	ENSG00000166851	ENST00000564794	retained_intron	KNOWN	None	9077	None	None	23699997	23701359	1	PLK	None
6	SYTL3	ENSG00000164674	ENST00000469735	processed_transcript	KNOWN	None	15587	None	None	159071085	159084080	1	None	SLP3, exophilin-6
6	SYTL3	ENSG00000164674	ENST00000297239	protein_coding	KNOWN	CCDS56458	15587	1833	610	159082351	159185901	1	None	SLP3, exophilin-6
6	SYTL3	ENSG00000164674	ENST00000360448	protein_coding	KNOWN	CCDS34563	15587	1629	542	159071046	159185901	1	None	SLP3, exophilin-6
6	SYTL3	ENSG00000164674	ENST00000367081	protein_coding	KNOWN	None	15587	1011	336	159084195	159185908	1	None	SLP3, exophilin-6
10	AGAP4	ENSG00000188234	ENST00000448048	protein_coding	KNOWN	CCDS7215	23459	1992	663	46321042	46342921	-1	CTGLF1	Em:AC012044.1, MRIP2
10	AGAP4	ENSG00000188234	ENST00000430779	processed_transcript	KNOWN	None	23459	None	None	46322788	46349323	-1	CTGLF1	Em:AC012044.1, MRIP2
10	AGAP4	ENSG00000188234	ENST00000492347	protein_coding	NOVEL	None	23459	413	136	46326842	46342675	-1	CTGLF1	Em:AC012044.1, MRIP2
10	AGAP4	ENSG00000188234	ENST00000495243	retained_intron	KNOWN	None	23459	None	None	46336974	46339951	-1	CTGLF1	Em:AC012044.1, MRIP2
10	AGAP4	ENSG00000188234	ENST00000490752	retained_intron	KNOWN	None	23459	None	None	46339714	46342774	-1	CTGLF1	Em:AC012044.1, MRIP2
19	ZNF527	ENSG00000189164	ENST00000589615	processed_transcript	KNOWN	None	29385	None	None	37861963	37870594	1	None	KIAA1829
19	ZNF527	ENSG00000189164	ENST00000483919	protein_coding	PUTATIVE	None	29385	375	124	37862061	37876546	1	None	KIAA1829
19	ZNF527	ENSG00000189164	ENST00000588911	protein_coding	NOVEL	None	29385	473	156	37862063	37879520	1	None	KIAA1829
19	ZNF527	ENSG00000189164	ENST00000436120	protein_coding	KNOWN	CCDS42559	29385	1830	609	37862063	37881672	1	None	KIAA1829
19	ZNF527	ENSG00000189164	ENST00000588512	nonsense_mediated_decay	KNOWN	None	29385	177	58	37862079	37879685	1	None	KIAA1829
19	ZNF527	ENSG00000189164	ENST00000356178	nonsense_mediated_decay	KNOWN	None	29385	285	94	37862083	37883968	1	None	KIAA1829
19	ZNF527	ENSG00000189164	ENST00000587349	protein_coding	PUTATIVE	None	29385	441	146	37862096	37883796	1	None	KIAA1829
19	RAB11B	ENSG00000185236	ENST00000600719	protein_coding	PUTATIVE	None	9761	139	45	8454865	8467434	1	None	H-YPT3
19	RAB11B	ENSG00000185236	ENST00000328024	protein_coding	KNOWN	CCDS12201	9761	657	218	8455083	8469318	1	None	H-YPT3
19	RAB11B	ENSG00000185236	ENST00000598706	retained_intron	KNOWN	None	9761	None	None	8455247	8465226	1	None	H-YPT3
19	RAB11B	ENSG00000185236	ENST00000601897	protein_coding	PUTATIVE	None	9761	183	60	8455273	8467683	1	None	H-YPT3
19	RAB11B	ENSG00000185236	ENST00000594216	protein_coding	PUTATIVE	None	9761	540	179	8455277	8467808	1	None	H-YPT3
5	MTRNR2L2	ENSG00000271043	ENST00000604882	protein_coding	KNOWN	None	37156	87	28	79945819	79946855	-1	None	None
5	KCNIP1	ENSG00000182132	ENST00000518527	processed_transcript	PUTATIVE	None	15521	None	None	169780491	169910161	1	None	KCHIP1
5	KCNIP1	ENSG00000182132	ENST00000377360	protein_coding	KNOWN	CCDS34285	15521	678	225	169780491	170162939	1	None	KCHIP1
5	KCNIP1	ENSG00000182132	ENST00000517344	nonsense_mediated_decay	KNOWN	None	15521	129	42	169780693	169912974	1	None	KCHIP1
5	KCNIP1	ENSG00000182132	ENST00000328939	protein_coding	KNOWN	CCDS4374	15521	651	216	169931040	170163636	1	None	KCHIP1
5	KCNIP1	ENSG00000182132	ENST00000520740	protein_coding	KNOWN	None	15521	567	188	169931364	170163629	1	None	KCHIP1
5	KCNIP1	ENSG00000182132	ENST00000434108	protein_coding	NOVEL	None	15521	726	241	169931577	170162810	1	None	KCHIP1
5	KCNIP1	ENSG00000182132	ENST00000411494	protein_coding	KNOWN	CCDS34286	15521	684	227	169931577	170162810	1	None	KCHIP1
5	KCNIP1	ENSG00000182132	ENST00000390656	protein_coding	KNOWN	None	15521	651	216	169931048	170163634	1	None	KCHIP1
4	HERC3	ENSG00000138641	ENST00000601319	processed_transcript	KNOWN	None	4876	None	None	89442199	89444964	1	None	KIAA0032
4	HERC3	ENSG00000138641	ENST00000513325	protein_coding	KNOWN	None	4876	234	77	89444961	89570998	1	None	KIAA0032
4	HERC3	ENSG00000138641	ENST00000598772	processed_transcript	KNOWN	None	4876	None	None	89444977	89446134	1	None	KIAA0032
4	HERC3	ENSG00000138641	ENST00000597259	processed_transcript	KNOWN	None	4876	None	None	89445007	89446142	1	None	KIAA0032
4	HERC3	ENSG00000138641	ENST00000402738	protein_coding	KNOWN	CCDS34028	4876	3153	1050	89513574	89629693	1	None	KIAA0032
4	HERC3	ENSG00000138641	ENST00000431413	protein_coding	KNOWN	None	4876	395	130	89513585	89573171	1	None	KIAA0032
4	HERC3	ENSG00000138641	ENST00000422770	protein_coding	KNOWN	None	4876	282	93	89513635	89571046	1	None	KIAA0032
4	HERC3	ENSG00000138641	ENST00000407637	protein_coding	PUTATIVE	None	4876	1107	368	89513647	89578585	1	None	KIAA0032
4	HERC3	ENSG00000138641	ENST00000426683	protein_coding	KNOWN	None	4876	385	127	89514402	89571149	1	None	KIAA0032
4	HERC3	ENSG00000138641	ENST00000452979	protein_coding	KNOWN	None	4876	683	226	89514529	89574239	1	None	KIAA0032
4	HERC3	ENSG00000138641	ENST00000470815	retained_intron	KNOWN	None	4876	None	None	89579419	89591353	1	None	KIAA0032
4	HERC3	ENSG00000138641	ENST00000504994	processed_transcript	KNOWN	None	4876	None	None	89588607	89589804	1	None	KIAA0032
4	HERC3	ENSG00000138641	ENST00000512194	protein_coding	NOVEL	None	4876	836	277	89591290	89608450	1	None	KIAA0032
4	HERC3	ENSG00000138641	ENST00000264345	protein_coding	KNOWN	CCDS34028	4876	3153	1050	89526945	89629686	1	None	KIAA0032
4	HERC3	ENSG00000138641	ENST00000543130	protein_coding	KNOWN	None	4876	1485	494	89579419	89628385	1	None	KIAA0032
17	None	ENSG00000262730	ENST00000573621	nonsense_mediated_decay	KNOWN	None	None	17	4	7829249	7833940	-1	None	None
5	MSH3	ENSG00000113318	ENST00000265081	protein_coding	KNOWN	CCDS34195	7326	3414	1137	79950467	80172279	1	None	DUP, MRP1
5	MSH3	ENSG00000113318	ENST00000512531	processed_transcript	KNOWN	None	7326	None	None	79950971	79952332	1	None	DUP, MRP1
5	MSH3	ENSG00000113318	ENST00000512258	processed_transcript	KNOWN	None	7326	None	None	80011024	80057429	1	None	DUP, MRP1
10	ZNF503	ENSG00000165655	ENST00000372524	protein_coding	KNOWN	CCDS7350	23589	1941	646	77157588	77161664	-1	None	FLJ45745, MGC2555
10	ZNF503	ENSG00000165655	ENST00000535216	protein_coding	KNOWN	CCDS7350	23589	1941	646	77158251	77161590	-1	None	FLJ45745, MGC2555
15	MPI	ENSG00000178802	ENST00000569931	protein_coding	PUTATIVE	None	7216	866	287	75182346	75189433	1	None	None
15	MPI	ENSG00000178802	ENST00000352410	protein_coding	KNOWN	CCDS10272	7216	1272	423	75182348	75191798	1	None	None
15	MPI	ENSG00000178802	ENST00000566377	protein_coding	PUTATIVE	None	7216	864	287	75182380	75191782	1	None	None
15	MPI	ENSG00000178802	ENST00000569233	protein_coding	NOVEL	None	7216	523	173	75182383	75185122	1	None	None
15	MPI	ENSG00000178802	ENST00000567132	protein_coding	NOVEL	None	7216	527	174	75182383	75185560	1	None	None
15	MPI	ENSG00000178802	ENST00000564633	protein_coding	PUTATIVE	None	7216	520	172	75182383	75185571	1	None	None
15	MPI	ENSG00000178802	ENST00000568907	protein_coding	NOVEL	None	7216	505	167	75182383	75185586	1	None	None
15	MPI	ENSG00000178802	ENST00000561470	nonsense_mediated_decay	KNOWN	None	7216	216	71	75182383	75188529	1	None	None
15	MPI	ENSG00000178802	ENST00000563422	protein_coding	PUTATIVE	None	7216	1020	339	75182383	75189271	1	None	None
15	MPI	ENSG00000178802	ENST00000564003	protein_coding	PUTATIVE	None	7216	687	228	75182383	75189296	1	None	None
15	MPI	ENSG00000178802	ENST00000562800	protein_coding	PUTATIVE	None	7216	375	124	75182383	75189999	1	None	None
15	MPI	ENSG00000178802	ENST00000563786	protein_coding	PUTATIVE	None	7216	1212	403	75182383	75190385	1	None	None
15	MPI	ENSG00000178802	ENST00000535694	protein_coding	PUTATIVE	None	7216	1122	373	75182383	75190418	1	None	None
15	MPI	ENSG00000178802	ENST00000323744	protein_coding	KNOWN	None	7216	1089	362	75182383	75190569	1	None	None
15	MPI	ENSG00000178802	ENST00000567116	retained_intron	KNOWN	None	7216	None	None	75182384	75185211	1	None	None
15	MPI	ENSG00000178802	ENST00000568303	retained_intron	KNOWN	None	7216	None	None	75182387	75183314	1	None	None
15	MPI	ENSG00000178802	ENST00000568828	protein_coding	NOVEL	None	7216	556	184	75182393	75185583	1	None	None
15	MPI	ENSG00000178802	ENST00000562606	protein_coding	PUTATIVE	None	7216	960	319	75182394	75188879	1	None	None
15	MPI	ENSG00000178802	ENST00000565576	protein_coding	PUTATIVE	None	7216	795	264	75182403	75186127	1	None	None
15	MPI	ENSG00000178802	ENST00000567570	protein_coding	PUTATIVE	None	7216	358	118	75182413	75185074	1	None	None
15	MPI	ENSG00000178802	ENST00000568840	retained_intron	KNOWN	None	7216	None	None	75182418	75185429	1	None	None
15	MPI	ENSG00000178802	ENST00000567177	protein_coding	PUTATIVE	None	7216	642	213	75182891	75190298	1	None	None
15	MPI	ENSG00000178802	ENST00000566556	retained_intron	KNOWN	None	7216	None	None	75187775	75190569	1	None	None
17	TRAPPC1	ENSG00000170043	ENST00000571739	nonsense_mediated_decay	KNOWN	None	19894	129	42	7833666	7835280	-1	None	MUM2, BET5
17	TRAPPC1	ENSG00000170043	ENST00000303731	protein_coding	KNOWN	CCDS11125	19894	438	145	7833667	7835263	-1	None	MUM2, BET5
17	TRAPPC1	ENSG00000170043	ENST00000575639	nonsense_mediated_decay	KNOWN	None	19894	129	42	7833822	7835239	-1	None	MUM2, BET5
17	TRAPPC1	ENSG00000170043	ENST00000571947	protein_coding	KNOWN	None	19894	285	94	7834353	7835266	-1	None	MUM2, BET5
17	TRAPPC1	ENSG00000170043	ENST00000572656	protein_coding	KNOWN	None	19894	225	74	7834413	7835441	-1	None	MUM2, BET5
17	TRAPPC1	ENSG00000170043	ENST00000573989	retained_intron	KNOWN	None	19894	None	None	7834646	7835235	-1	None	MUM2, BET5
17	TRAPPC1	ENSG00000170043	ENST00000540486	protein_coding	KNOWN	CCDS11125	19894	438	145	7833663	7835317	-1	None	MUM2, BET5
12	SMARCD1	ENSG00000066117	ENST00000394963	protein_coding	KNOWN	CCDS8797	11106	1548	515	50478755	50494495	1	None	BAF60A, Rsc6p, CRACD1
12	SMARCD1	ENSG00000066117	ENST00000381513	protein_coding	KNOWN	CCDS8798	11106	1425	474	50478983	50494425	1	None	BAF60A, Rsc6p, CRACD1
12	SMARCD1	ENSG00000066117	ENST00000551966	protein_coding	NOVEL	None	11106	836	277	50479108	50484109	1	None	BAF60A, Rsc6p, CRACD1
12	SMARCD1	ENSG00000066117	ENST00000550477	protein_coding	NOVEL	None	11106	869	288	50479111	50484349	1	None	BAF60A, Rsc6p, CRACD1
12	SMARCD1	ENSG00000066117	ENST00000547247	retained_intron	KNOWN	None	11106	None	None	50479125	50483205	1	None	BAF60A, Rsc6p, CRACD1
12	SMARCD1	ENSG00000066117	ENST00000547637	retained_intron	KNOWN	None	11106	None	None	50479136	50480700	1	None	BAF60A, Rsc6p, CRACD1
12	SMARCD1	ENSG00000066117	ENST00000551497	protein_coding	PUTATIVE	None	11106	339	112	50479466	50480655	1	None	BAF60A, Rsc6p, CRACD1
12	SMARCD1	ENSG00000066117	ENST00000548573	protein_coding	NOVEL	None	11106	942	313	50482018	50493932	1	None	BAF60A, Rsc6p, CRACD1
12	SMARCD1	ENSG00000066117	ENST00000549274	nonsense_mediated_decay	KNOWN	None	11106	346	114	50488289	50493627	1	None	BAF60A, Rsc6p, CRACD1
12	SMARCD1	ENSG00000066117	ENST00000550280	retained_intron	KNOWN	None	11106	None	None	50490442	50492880	1	None	BAF60A, Rsc6p, CRACD1
12	SMARCD1	ENSG00000066117	ENST00000551352	retained_intron	KNOWN	None	11106	None	None	50492278	50493029	1	None	BAF60A, Rsc6p, CRACD1
12	SMARCD1	ENSG00000066117	ENST00000549526	processed_transcript	KNOWN	None	11106	None	None	50493213	50494101	1	None	BAF60A, Rsc6p, CRACD1
2	ERBB4	ENSG00000178568	ENST00000342788	protein_coding	KNOWN	CCDS2394	3432	3927	1308	212240446	213403565	-1	None	None
2	ERBB4	ENSG00000178568	ENST00000436443	protein_coding	KNOWN	CCDS42811	3432	3879	1292	212240446	213403565	-1	None	None
2	ERBB4	ENSG00000178568	ENST00000484594	retained_intron	KNOWN	None	3432	None	None	212426487	213403306	-1	None	None
2	ERBB4	ENSG00000178568	ENST00000260943	protein_coding	NOVEL	None	3432	2194	730	212483978	213403253	-1	None	None
2	ERBB4	ENSG00000178568	ENST00000463121	processed_transcript	PUTATIVE	None	3432	None	None	212522322	212530079	-1	None	None
2	ERBB4	ENSG00000178568	ENST00000484474	processed_transcript	KNOWN	None	3432	None	None	212589877	212825487	-1	None	None
2	ERBB4	ENSG00000178568	ENST00000435846	protein_coding	PUTATIVE	None	3432	385	127	212615424	213293971	-1	None	None
2	ERBB4	ENSG00000178568	ENST00000459774	retained_intron	KNOWN	None	3432	None	None	212989309	212989906	-1	None	None
2	ERBB4	ENSG00000178568	ENST00000402597	protein_coding	KNOWN	None	3432	3897	1298	212248340	213403254	-1	None	None
15	TCF12	ENSG00000140262	ENST00000438423	protein_coding	KNOWN	CCDS10160	11623	2121	706	57210821	57580712	1	None	HEB, HTF4, HsT17266, bHLHb20
15	TCF12	ENSG00000140262	ENST00000267811	protein_coding	KNOWN	CCDS10159	11623	2049	682	57210823	57582051	1	None	HEB, HTF4, HsT17266, bHLHb20
15	TCF12	ENSG00000140262	ENST00000558908	processed_transcript	KNOWN	None	11623	None	None	57210873	57384027	1	None	HEB, HTF4, HsT17266, bHLHb20
15	TCF12	ENSG00000140262	ENST00000559609	protein_coding	NOVEL	None	11623	1998	665	57210873	57574674	1	None	HEB, HTF4, HsT17266, bHLHb20
15	TCF12	ENSG00000140262	ENST00000560190	processed_transcript	KNOWN	None	11623	None	None	57210873	57578748	1	None	HEB, HTF4, HsT17266, bHLHb20
15	TCF12	ENSG00000140262	ENST00000333725	protein_coding	NOVEL	CCDS10160	11623	2121	706	57210892	57580706	1	None	HEB, HTF4, HsT17266, bHLHb20
15	TCF12	ENSG00000140262	ENST00000557843	protein_coding	NOVEL	CCDS10159	11623	2049	682	57211030	57580283	1	None	HEB, HTF4, HsT17266, bHLHb20
15	TCF12	ENSG00000140262	ENST00000557947	protein_coding	PUTATIVE	None	11623	472	156	57211346	57484437	1	None	HEB, HTF4, HsT17266, bHLHb20
15	TCF12	ENSG00000140262	ENST00000561152	nonsense_mediated_decay	KNOWN	None	11623	177	58	57211715	57458626	1	None	HEB, HTF4, HsT17266, bHLHb20
15	TCF12	ENSG00000140262	ENST00000569880	retained_intron	KNOWN	None	11623	None	None	57355946	57384221	1	None	HEB, HTF4, HsT17266, bHLHb20
15	TCF12	ENSG00000140262	ENST00000561346	processed_transcript	KNOWN	None	11623	None	None	57401456	57535751	1	None	HEB, HTF4, HsT17266, bHLHb20
15	TCF12	ENSG00000140262	ENST00000559216	processed_transcript	KNOWN	None	11623	None	None	57410548	57484491	1	None	HEB, HTF4, HsT17266, bHLHb20
15	TCF12	ENSG00000140262	ENST00000560887	processed_transcript	KNOWN	None	11623	None	None	57426514	57523450	1	None	HEB, HTF4, HsT17266, bHLHb20
15	TCF12	ENSG00000140262	ENST00000561235	processed_transcript	KNOWN	None	11623	None	None	57506277	57535713	1	None	HEB, HTF4, HsT17266, bHLHb20
15	TCF12	ENSG00000140262	ENST00000560764	processed_transcript	KNOWN	None	11623	None	None	57511235	57545666	1	None	HEB, HTF4, HsT17266, bHLHb20
15	TCF12	ENSG00000140262	ENST00000543579	protein_coding	NOVEL	None	11623	1611	536	57511628	57578449	1	None	HEB, HTF4, HsT17266, bHLHb20
15	TCF12	ENSG00000140262	ENST00000537840	protein_coding	NOVEL	None	11623	1341	446	57511633	57578455	1	None	HEB, HTF4, HsT17266, bHLHb20
15	TCF12	ENSG00000140262	ENST00000343827	protein_coding	KNOWN	CCDS42042	11623	1539	512	57511664	57580704	1	None	HEB, HTF4, HsT17266, bHLHb20
15	TCF12	ENSG00000140262	ENST00000560506	processed_transcript	KNOWN	None	11623	None	None	57540214	57555422	1	None	HEB, HTF4, HsT17266, bHLHb20
15	TCF12	ENSG00000140262	ENST00000559710	protein_coding	NOVEL	None	11623	951	316	57540214	57578656	1	None	HEB, HTF4, HsT17266, bHLHb20
15	TCF12	ENSG00000140262	ENST00000559703	protein_coding	NOVEL	None	11623	1020	339	57540239	57578842	1	None	HEB, HTF4, HsT17266, bHLHb20
15	TCF12	ENSG00000140262	ENST00000561420	processed_transcript	KNOWN	None	11623	None	None	57540240	57565396	1	None	HEB, HTF4, HsT17266, bHLHb20
15	TCF12	ENSG00000140262	ENST00000558210	processed_transcript	KNOWN	None	11623	None	None	57543367	57554396	1	None	HEB, HTF4, HsT17266, bHLHb20
15	TCF12	ENSG00000140262	ENST00000561449	processed_transcript	KNOWN	None	11623	None	None	57544397	57565362	1	None	HEB, HTF4, HsT17266, bHLHb20
15	TCF12	ENSG00000140262	ENST00000561454	processed_transcript	PUTATIVE	None	11623	None	None	57573845	57578618	1	None	HEB, HTF4, HsT17266, bHLHb20
15	TCF12	ENSG00000140262	ENST00000560191	processed_transcript	PUTATIVE	None	11623	None	None	57574381	57579143	1	None	HEB, HTF4, HsT17266, bHLHb20
15	TCF12	ENSG00000140262	ENST00000560836	protein_coding	KNOWN	None	11623	145	47	57574641	57591479	1	None	HEB, HTF4, HsT17266, bHLHb20
15	TCF12	ENSG00000140262	ENST00000560948	protein_coding	KNOWN	None	11623	133	43	57574653	57583322	1	None	HEB, HTF4, HsT17266, bHLHb20
15	TCF12	ENSG00000140262	ENST00000452095	protein_coding	KNOWN	None	11623	2109	702	57210833	57580712	1	None	HEB, HTF4, HsT17266, bHLHb20
16	MTSS1L	ENSG00000132613	ENST00000338779	protein_coding	KNOWN	CCDS32476	25094	2244	747	70695107	70719969	-1	None	ABBA-1, LOC92154
16	MTSS1L	ENSG00000132613	ENST00000562883	protein_coding	NOVEL	None	25094	407	134	70708223	70712242	-1	None	ABBA-1, LOC92154
16	MTSS1L	ENSG00000132613	ENST00000576338	protein_coding	NOVEL	None	25094	518	171	70710852	70713928	-1	None	ABBA-1, LOC92154
9	ZCCHC6	ENSG00000083223	ENST00000277141	protein_coding	KNOWN	None	25817	2355	784	88902648	88969325	-1	None	KIAA1711, FLJ13409, PAPD6
9	ZCCHC6	ENSG00000083223	ENST00000375960	protein_coding	KNOWN	CCDS55323	25817	3780	1259	88902648	88969369	-1	None	KIAA1711, FLJ13409, PAPD6
9	ZCCHC6	ENSG00000083223	ENST00000375957	protein_coding	KNOWN	None	25817	1188	395	88902650	88934559	-1	None	KIAA1711, FLJ13409, PAPD6
9	ZCCHC6	ENSG00000083223	ENST00000375963	protein_coding	KNOWN	CCDS35057	25817	4488	1495	88902874	88969327	-1	None	KIAA1711, FLJ13409, PAPD6
9	ZCCHC6	ENSG00000083223	ENST00000469004	processed_transcript	KNOWN	None	25817	None	None	88938543	88939568	-1	None	KIAA1711, FLJ13409, PAPD6
9	ZCCHC6	ENSG00000083223	ENST00000375948	protein_coding	KNOWN	None	25817	375	124	88951794	88958038	-1	None	KIAA1711, FLJ13409, PAPD6
9	ZCCHC6	ENSG00000083223	ENST00000375947	protein_coding	KNOWN	None	25817	507	168	88959785	88967621	-1	None	KIAA1711, FLJ13409, PAPD6
9	ZCCHC6	ENSG00000083223	ENST00000375961	protein_coding	KNOWN	None	25817	4374	1457	88902648	88969369	-1	None	KIAA1711, FLJ13409, PAPD6
X	CXorf30	ENSG00000205081	ENST00000378653	protein_coding	KNOWN	None	27298	2757	918	36246735	36403178	1	None	None
X	CXorf30	ENSG00000205081	ENST00000446478	protein_coding	KNOWN	None	27298	543	180	36379441	36397918	1	None	None
X	CXorf30	ENSG00000205081	ENST00000378657	protein_coding	KNOWN	CCDS55396	27298	1902	633	36254051	36403431	1	None	None
19	ZNF569	ENSG00000196437	ENST00000392149	protein_coding	KNOWN	CCDS12503	24737	2061	686	37902057	37958131	-1	None	FLJ32053, ZAP1
19	ZNF569	ENSG00000196437	ENST00000316950	protein_coding	KNOWN	CCDS12503	24737	2061	686	37902057	37958339	-1	None	FLJ32053, ZAP1
19	ZNF569	ENSG00000196437	ENST00000448051	protein_coding	PUTATIVE	None	24737	781	259	37904851	37960172	-1	None	FLJ32053, ZAP1
19	ZNF569	ENSG00000196437	ENST00000592490	protein_coding	PUTATIVE	None	24737	66	21	37905087	37958110	-1	None	FLJ32053, ZAP1
19	ZNF569	ENSG00000196437	ENST00000589833	protein_coding	PUTATIVE	None	24737	315	104	37916531	37945977	-1	None	FLJ32053, ZAP1
19	ZNF569	ENSG00000196437	ENST00000591710	protein_coding	PUTATIVE	None	24737	214	70	37917154	37958363	-1	None	FLJ32053, ZAP1
19	ZNF569	ENSG00000196437	ENST00000591073	processed_transcript	KNOWN	None	24737	None	None	37917241	37960177	-1	None	FLJ32053, ZAP1
19	ZNF569	ENSG00000196437	ENST00000392150	protein_coding	KNOWN	None	24737	1584	527	37903457	37935861	-1	None	FLJ32053, ZAP1
X	ZCCHC13	ENSG00000187969	ENST00000339534	protein_coding	KNOWN	CCDS14425	31749	501	166	73524025	73524868	1	None	4930513O09RIK, Cnbp2, ZNF9L
16	TMEM114	ENSG00000232258	ENST00000568335	protein_coding	KNOWN	None	33227	371	122	8619502	8622226	-1	None	None
16	TMEM114	ENSG00000232258	ENST00000444171	retained_intron	KNOWN	None	33227	None	None	8619708	8622304	-1	None	None
X	SLC16A2	ENSG00000147100	ENST00000587091	protein_coding	KNOWN	CCDS14426	10923	1620	539	73641296	73753752	1	DXS128, AHDS, MRX22	XPCT, MCT8, MCT7
X	SLC16A2	ENSG00000147100	ENST00000590447	protein_coding	PUTATIVE	None	10923	688	228	73740955	73752443	1	DXS128, AHDS, MRX22	XPCT, MCT8, MCT7
X	SLC16A2	ENSG00000147100	ENST00000276033	protein_coding	KNOWN	None	10923	1842	613	73641085	73753743	1	DXS128, AHDS, MRX22	XPCT, MCT8, MCT7
8	MOS	ENSG00000172680	ENST00000311923	protein_coding	KNOWN	CCDS6164	7199	1041	346	57025501	57026541	-1	None	None
10	OPTN	ENSG00000123240	ENST00000263036	protein_coding	KNOWN	CCDS7094	17142	1734	577	13141449	13178923	1	GLC1E	FIP2, HYPL, TFIIIA-INTP, NRP, HIP7
10	OPTN	ENSG00000123240	ENST00000378764	protein_coding	NOVEL	None	17142	1716	571	13141603	13179129	1	GLC1E	FIP2, HYPL, TFIIIA-INTP, NRP, HIP7
10	OPTN	ENSG00000123240	ENST00000487935	processed_transcript	KNOWN	None	17142	None	None	13142159	13151662	1	GLC1E	FIP2, HYPL, TFIIIA-INTP, NRP, HIP7
10	OPTN	ENSG00000123240	ENST00000482140	processed_transcript	KNOWN	None	17142	None	None	13142163	13160980	1	GLC1E	FIP2, HYPL, TFIIIA-INTP, NRP, HIP7
10	OPTN	ENSG00000123240	ENST00000378757	protein_coding	KNOWN	CCDS7094	17142	1734	577	13142169	13180291	1	GLC1E	FIP2, HYPL, TFIIIA-INTP, NRP, HIP7
10	OPTN	ENSG00000123240	ENST00000430081	protein_coding	KNOWN	None	17142	442	146	13142173	13158327	1	GLC1E	FIP2, HYPL, TFIIIA-INTP, NRP, HIP7
10	OPTN	ENSG00000123240	ENST00000378752	protein_coding	KNOWN	None	17142	1716	571	13142173	13180291	1	GLC1E	FIP2, HYPL, TFIIIA-INTP, NRP, HIP7
10	OPTN	ENSG00000123240	ENST00000378748	protein_coding	KNOWN	CCDS7094	17142	1734	577	13142173	13180291	1	GLC1E	FIP2, HYPL, TFIIIA-INTP, NRP, HIP7
10	OPTN	ENSG00000123240	ENST00000378747	protein_coding	KNOWN	CCDS7094	17142	1734	577	13142225	13180291	1	GLC1E	FIP2, HYPL, TFIIIA-INTP, NRP, HIP7
10	OPTN	ENSG00000123240	ENST00000486862	processed_transcript	KNOWN	None	17142	None	None	13154487	13158540	1	GLC1E	FIP2, HYPL, TFIIIA-INTP, NRP, HIP7
10	OPTN	ENSG00000123240	ENST00000424614	protein_coding	PUTATIVE	None	17142	380	125	13158268	13165198	1	GLC1E	FIP2, HYPL, TFIIIA-INTP, NRP, HIP7
10	OPTN	ENSG00000123240	ENST00000469025	processed_transcript	KNOWN	None	17142	None	None	13173319	13178918	1	GLC1E	FIP2, HYPL, TFIIIA-INTP, NRP, HIP7
8	PLAG1	ENSG00000181690	ENST00000316981	protein_coding	KNOWN	CCDS6165	9045	1503	500	57073463	57123838	-1	None	ZNF912
8	PLAG1	ENSG00000181690	ENST00000522009	retained_intron	KNOWN	None	9045	None	None	57078593	57083983	-1	None	ZNF912
8	PLAG1	ENSG00000181690	ENST00000423799	protein_coding	KNOWN	CCDS47860	9045	1257	418	57078658	57123859	-1	None	ZNF912
8	PLAG1	ENSG00000181690	ENST00000429357	protein_coding	KNOWN	CCDS6165	9045	1503	500	57078802	57123859	-1	None	ZNF912
8	PLAG1	ENSG00000181690	ENST00000519027	processed_transcript	KNOWN	None	9045	None	None	57121812	57123883	-1	None	ZNF912
2	IKZF2	ENSG00000030419	ENST00000342002	protein_coding	PUTATIVE	None	13177	1599	532	213870087	214015058	-1	ZNFN1A2	Helios
2	IKZF2	ENSG00000030419	ENST00000434687	protein_coding	KNOWN	CCDS2395	13177	1581	526	213870087	214016327	-1	ZNFN1A2	Helios
2	IKZF2	ENSG00000030419	ENST00000484040	retained_intron	KNOWN	None	13177	None	None	213870763	213880002	-1	ZNFN1A2	Helios
2	IKZF2	ENSG00000030419	ENST00000374319	protein_coding	KNOWN	CCDS46507	13177	1503	500	213871896	214016327	-1	ZNFN1A2	Helios
2	IKZF2	ENSG00000030419	ENST00000453575	nonsense_mediated_decay	KNOWN	None	13177	159	52	213872077	214013353	-1	ZNFN1A2	Helios
2	IKZF2	ENSG00000030419	ENST00000412444	nonsense_mediated_decay	KNOWN	None	13177	159	52	213872081	214013353	-1	ZNFN1A2	Helios
2	IKZF2	ENSG00000030419	ENST00000439848	nonsense_mediated_decay	KNOWN	None	13177	447	148	213872081	214013353	-1	ZNFN1A2	Helios
2	IKZF2	ENSG00000030419	ENST00000374326	nonsense_mediated_decay	KNOWN	None	13177	159	52	213872081	214013353	-1	ZNFN1A2	Helios
2	IKZF2	ENSG00000030419	ENST00000431520	nonsense_mediated_decay	KNOWN	None	13177	720	239	213872084	214013353	-1	ZNFN1A2	Helios
2	IKZF2	ENSG00000030419	ENST00000433134	protein_coding	PUTATIVE	None	13177	377	124	213914574	214015132	-1	ZNFN1A2	Helios
2	IKZF2	ENSG00000030419	ENST00000452786	protein_coding	KNOWN	None	13177	250	82	213921713	214017151	-1	ZNFN1A2	Helios
2	IKZF2	ENSG00000030419	ENST00000442445	protein_coding	PUTATIVE	None	13177	279	92	214012096	214014965	-1	ZNFN1A2	Helios
2	IKZF2	ENSG00000030419	ENST00000457361	protein_coding	KNOWN	CCDS2395	13177	1581	526	213864429	214015058	-1	ZNFN1A2	Helios
2	IKZF2	ENSG00000030419	ENST00000451136	protein_coding	KNOWN	None	13177	1365	454	213872084	214013353	-1	ZNFN1A2	Helios
2	IKZF2	ENSG00000030419	ENST00000421754	protein_coding	KNOWN	None	13177	1359	452	213872084	214013353	-1	ZNFN1A2	Helios
2	IKZF2	ENSG00000030419	ENST00000374327	protein_coding	KNOWN	None	13177	1146	381	213872084	214013353	-1	ZNFN1A2	Helios
2	IKZF2	ENSG00000030419	ENST00000413091	protein_coding	KNOWN	None	13177	720	239	213872084	214013353	-1	ZNFN1A2	Helios
19	MYH14	ENSG00000105357	ENST00000598205	protein_coding	KNOWN	CCDS46151	23212	6012	2003	50691443	50813047	1	DFNA4	FLJ13881, KIAA2034, MHC16, MYH17
19	MYH14	ENSG00000105357	ENST00000599920	protein_coding	KNOWN	None	23212	3008	1001	50706894	50774739	1	DFNA4	FLJ13881, KIAA2034, MHC16, MYH17
19	MYH14	ENSG00000105357	ENST00000601313	protein_coding	KNOWN	CCDS54295	23212	6111	2036	50706902	50813802	1	DFNA4	FLJ13881, KIAA2034, MHC16, MYH17
19	MYH14	ENSG00000105357	ENST00000596571	protein_coding	NOVEL	CCDS59411	23212	5988	1995	50713623	50813047	1	DFNA4	FLJ13881, KIAA2034, MHC16, MYH17
19	MYH14	ENSG00000105357	ENST00000595016	retained_intron	KNOWN	None	23212	None	None	50788021	50813796	1	DFNA4	FLJ13881, KIAA2034, MHC16, MYH17
19	MYH14	ENSG00000105357	ENST00000597072	retained_intron	KNOWN	None	23212	None	None	50811572	50813796	1	DFNA4	FLJ13881, KIAA2034, MHC16, MYH17
19	MYH14	ENSG00000105357	ENST00000440075	protein_coding	KNOWN	None	23212	6111	2036	50706885	50813799	1	DFNA4	FLJ13881, KIAA2034, MHC16, MYH17
19	MYH14	ENSG00000105357	ENST00000376970	protein_coding	KNOWN	None	23212	6087	2028	50706885	50813799	1	DFNA4	FLJ13881, KIAA2034, MHC16, MYH17
19	MYH14	ENSG00000105357	ENST00000425460	protein_coding	KNOWN	CCDS46151	23212	6012	2003	50706885	50813799	1	DFNA4	FLJ13881, KIAA2034, MHC16, MYH17
19	MYH14	ENSG00000105357	ENST00000262269	protein_coding	KNOWN	CCDS54295	23212	6111	2036	50713616	50813802	1	DFNA4	FLJ13881, KIAA2034, MHC16, MYH17
X	RLIM	ENSG00000131263	ENST00000332687	protein_coding	KNOWN	CCDS14427	13429	1875	624	73805052	73834452	-1	RNF12	NY-REN-43, MGC15161
X	RLIM	ENSG00000131263	ENST00000349225	protein_coding	KNOWN	CCDS14427	13429	1875	624	73809953	73834452	-1	RNF12	NY-REN-43, MGC15161
17	CNTROB	ENSG00000170037	ENST00000576538	protein_coding	KNOWN	None	29616	594	197	7835419	7838463	1	None	LIP8, PP1221
17	CNTROB	ENSG00000170037	ENST00000380262	protein_coding	KNOWN	CCDS32557	29616	2778	925	7835473	7852894	1	None	LIP8, PP1221
17	CNTROB	ENSG00000170037	ENST00000563694	protein_coding	KNOWN	CCDS11126	29616	2712	903	7835473	7852896	1	None	LIP8, PP1221
17	CNTROB	ENSG00000170037	ENST00000570782	protein_coding	KNOWN	None	29616	41	12	7835560	7836438	1	None	LIP8, PP1221
17	CNTROB	ENSG00000170037	ENST00000570784	protein_coding	KNOWN	None	29616	231	76	7835779	7836628	1	None	LIP8, PP1221
17	CNTROB	ENSG00000170037	ENST00000575408	protein_coding	PUTATIVE	None	29616	598	198	7836081	7840545	1	None	LIP8, PP1221
17	CNTROB	ENSG00000170037	ENST00000565740	protein_coding	KNOWN	None	29616	2715	904	7836398	7852896	1	None	LIP8, PP1221
17	CNTROB	ENSG00000170037	ENST00000571540	nonsense_mediated_decay	KNOWN	None	29616	728	241	7836435	7843021	1	None	LIP8, PP1221
17	CNTROB	ENSG00000170037	ENST00000571632	nonsense_mediated_decay	KNOWN	None	29616	79	25	7837847	7852896	1	None	LIP8, PP1221
17	CNTROB	ENSG00000170037	ENST00000576587	retained_intron	KNOWN	None	29616	None	None	7838994	7840114	1	None	LIP8, PP1221
17	CNTROB	ENSG00000170037	ENST00000576922	retained_intron	KNOWN	None	29616	None	None	7840521	7851003	1	None	LIP8, PP1221
17	CNTROB	ENSG00000170037	ENST00000574430	retained_intron	KNOWN	None	29616	None	None	7840522	7846917	1	None	LIP8, PP1221
17	CNTROB	ENSG00000170037	ENST00000576723	retained_intron	KNOWN	None	29616	None	None	7843008	7853236	1	None	LIP8, PP1221
17	CNTROB	ENSG00000170037	ENST00000573862	retained_intron	KNOWN	None	29616	None	None	7848649	7851040	1	None	LIP8, PP1221
17	CNTROB	ENSG00000170037	ENST00000576536	protein_coding	PUTATIVE	None	29616	561	186	7850942	7852743	1	None	LIP8, PP1221
17	CNTROB	ENSG00000170037	ENST00000380255	protein_coding	KNOWN	None	29616	1665	554	7835537	7852895	1	None	LIP8, PP1221
5	None	ENSG00000248727	ENST00000506836	protein_coding	PUTATIVE	None	None	198	65	55753622	55777596	-1	None	None
5	None	ENSG00000248727	ENST00000511661	retained_intron	KNOWN	None	None	None	None	55763539	55777773	-1	None	None
6	MSH5	ENSG00000204410	ENST00000375755	protein_coding	KNOWN	CCDS4720	7328	2505	834	31707725	31730611	1	None	None
6	MSH5	ENSG00000204410	ENST00000375750	protein_coding	KNOWN	CCDS4720	7328	2505	834	31707728	31730453	1	None	None
6	MSH5	ENSG00000204410	ENST00000425703	protein_coding	KNOWN	None	7328	582	193	31707768	31712011	1	None	None
6	MSH5	ENSG00000204410	ENST00000463094	retained_intron	KNOWN	None	7328	None	None	31707782	31711257	1	None	None
6	MSH5	ENSG00000204410	ENST00000482280	processed_transcript	KNOWN	None	7328	None	None	31707782	31714108	1	None	None
6	MSH5	ENSG00000204410	ENST00000375703	protein_coding	KNOWN	CCDS34410	7328	2508	835	31707798	31730453	1	None	None
6	MSH5	ENSG00000204410	ENST00000375740	protein_coding	KNOWN	CCDS34409	7328	2469	822	31707798	31730453	1	None	None
6	MSH5	ENSG00000204410	ENST00000423982	nonsense_mediated_decay	KNOWN	None	7328	1914	637	31708003	31730366	1	None	None
6	MSH5	ENSG00000204410	ENST00000463144	nonsense_mediated_decay	KNOWN	None	7328	478	158	31709023	31730412	1	None	None
6	MSH5	ENSG00000204410	ENST00000450148	protein_coding	NOVEL	None	7328	1000	332	31711755	31727268	1	None	None
6	MSH5	ENSG00000204410	ENST00000497269	nonsense_mediated_decay	KNOWN	None	7328	130	42	31712008	31721817	1	None	None
6	MSH5	ENSG00000204410	ENST00000468602	processed_transcript	KNOWN	None	7328	None	None	31719273	31726911	1	None	None
6	MSH5	ENSG00000204410	ENST00000468136	retained_intron	KNOWN	None	7328	None	None	31721060	31727278	1	None	None
6	MSH5	ENSG00000204410	ENST00000395853	protein_coding	PUTATIVE	None	7328	1527	508	31724369	31730453	1	None	None
6	MSH5	ENSG00000204410	ENST00000467319	retained_intron	KNOWN	None	7328	None	None	31725972	31727279	1	None	None
6	MSH5	ENSG00000204410	ENST00000494646	retained_intron	KNOWN	None	7328	None	None	31727309	31727950	1	None	None
6	MSH5	ENSG00000204410	ENST00000484309	nonsense_mediated_decay	KNOWN	None	7328	501	166	31727694	31730453	1	None	None
6	MSH5	ENSG00000204410	ENST00000429846	protein_coding	NOVEL	None	7328	471	156	31728989	31730453	1	None	None
6	MSH5	ENSG00000204410	ENST00000494458	retained_intron	KNOWN	None	7328	None	None	31729700	31730453	1	None	None
6	MSH5	ENSG00000204410	ENST00000375742	protein_coding	KNOWN	None	7328	2556	851	31707725	31730447	1	None	None
6	MSH5	ENSG00000204410	ENST00000534153	protein_coding	KNOWN	None	7328	2556	851	31707797	31732622	1	None	None
6	MSH5	ENSG00000204410	ENST00000431848	protein_coding	KNOWN	None	7328	1602	533	31712323	31730412	1	None	None
X	CT45A5	ENSG00000242284	ENST00000463085	nonsense_mediated_decay	KNOWN	CCDS35406	33270	570	189	134944381	134953994	-1	None	CT45-5, CT45.5
X	CT45A5	ENSG00000242284	ENST00000370724	protein_coding	KNOWN	CCDS35406	33270	570	189	134945962	134953994	-1	None	CT45-5, CT45.5
X	CT45A5	ENSG00000242284	ENST00000491480	protein_coding	KNOWN	CCDS35406	33270	570	189	134945973	134953809	-1	None	CT45-5, CT45.5
8	CHCHD7	ENSG00000170791	ENST00000521831	protein_coding	PUTATIVE	CCDS55233	28314	171	56	57124245	57130097	1	None	MGC2217, COX23
8	CHCHD7	ENSG00000170791	ENST00000355315	protein_coding	KNOWN	CCDS34896	28314	258	85	57124314	57131172	1	None	MGC2217, COX23
8	CHCHD7	ENSG00000170791	ENST00000518169	retained_intron	KNOWN	None	28314	None	None	57124345	57125710	1	None	MGC2217, COX23
8	CHCHD7	ENSG00000170791	ENST00000522366	retained_intron	KNOWN	None	28314	None	None	57124348	57128137	1	None	MGC2217, COX23
8	CHCHD7	ENSG00000170791	ENST00000517636	protein_coding	KNOWN	None	28314	134	43	57124348	57129071	1	None	MGC2217, COX23
8	CHCHD7	ENSG00000170791	ENST00000517933	protein_coding	PUTATIVE	None	28314	183	60	57124348	57129452	1	None	MGC2217, COX23
8	CHCHD7	ENSG00000170791	ENST00000523532	nonsense_mediated_decay	KNOWN	None	28314	198	65	57124348	57129971	1	None	MGC2217, COX23
8	CHCHD7	ENSG00000170791	ENST00000523667	nonsense_mediated_decay	KNOWN	None	28314	198	65	57124348	57129988	1	None	MGC2217, COX23
8	CHCHD7	ENSG00000170791	ENST00000521982	nonsense_mediated_decay	KNOWN	None	28314	186	61	57124348	57130000	1	None	MGC2217, COX23
8	CHCHD7	ENSG00000170791	ENST00000522166	retained_intron	KNOWN	None	28314	None	None	57124348	57130024	1	None	MGC2217, COX23
8	CHCHD7	ENSG00000170791	ENST00000518801	protein_coding	PUTATIVE	CCDS55232	28314	207	68	57124357	57131178	1	None	MGC2217, COX23
8	CHCHD7	ENSG00000170791	ENST00000523975	protein_coding	KNOWN	CCDS6166	28314	294	97	57124357	57131357	1	None	MGC2217, COX23
8	CHCHD7	ENSG00000170791	ENST00000396723	protein_coding	NOVEL	None	28314	285	94	57124358	57131083	1	None	MGC2217, COX23
8	CHCHD7	ENSG00000170791	ENST00000523061	protein_coding	NOVEL	None	28314	141	46	57124367	57130272	1	None	MGC2217, COX23
8	CHCHD7	ENSG00000170791	ENST00000521524	protein_coding	PUTATIVE	CCDS55232	28314	207	68	57124369	57130248	1	None	MGC2217, COX23
8	CHCHD7	ENSG00000170791	ENST00000519367	protein_coding	PUTATIVE	CCDS55233	28314	171	56	57126987	57130028	1	None	MGC2217, COX23
8	CHCHD7	ENSG00000170791	ENST00000518944	retained_intron	KNOWN	None	28314	None	None	57127004	57130149	1	None	MGC2217, COX23
8	CHCHD7	ENSG00000170791	ENST00000303759	protein_coding	KNOWN	CCDS34895	28314	333	110	57124315	57131174	1	None	MGC2217, COX23
19	ZNF570	ENSG00000171827	ENST00000587363	nonsense_mediated_decay	KNOWN	None	26416	135	44	37958487	37961241	1	None	FLJ30791
19	ZNF570	ENSG00000171827	ENST00000586475	protein_coding	PUTATIVE	None	26416	1779	592	37958674	37976222	1	None	FLJ30791
19	ZNF570	ENSG00000171827	ENST00000591380	processed_transcript	KNOWN	None	26416	None	None	37959960	37961136	1	None	FLJ30791
19	ZNF570	ENSG00000171827	ENST00000330173	protein_coding	KNOWN	CCDS12504	26416	1611	536	37959982	37976242	1	None	FLJ30791
19	ZNF570	ENSG00000171827	ENST00000588644	nonsense_mediated_decay	KNOWN	None	26416	135	44	37960258	37976260	1	None	FLJ30791
19	ZNF570	ENSG00000171827	ENST00000590664	nonsense_mediated_decay	KNOWN	None	26416	261	86	37960321	37974862	1	None	FLJ30791
19	ZNF570	ENSG00000171827	ENST00000589725	protein_coding	KNOWN	None	26416	445	147	37960473	37974969	1	None	FLJ30791
19	ZNF570	ENSG00000171827	ENST00000388801	protein_coding	KNOWN	None	26416	1002	333	37960258	37976260	1	None	FLJ30791
17	DHRS11	ENSG00000108272	ENST00000251312	protein_coding	KNOWN	CCDS11315	28639	783	260	34948228	34957235	1	None	MGC4172, SDR24C1
17	DHRS11	ENSG00000108272	ENST00000590554	protein_coding	PUTATIVE	None	28639	546	181	34948312	34957233	1	None	MGC4172, SDR24C1
17	DHRS11	ENSG00000108272	ENST00000590527	nonsense_mediated_decay	KNOWN	None	28639	153	50	34948317	34956206	1	None	MGC4172, SDR24C1
17	DHRS11	ENSG00000108272	ENST00000394445	processed_transcript	PUTATIVE	None	28639	None	None	34948345	34953442	1	None	MGC4172, SDR24C1
17	DHRS11	ENSG00000108272	ENST00000491046	protein_coding	PUTATIVE	None	28639	452	149	34951017	34956414	1	None	MGC4172, SDR24C1
17	DHRS11	ENSG00000108272	ENST00000593204	retained_intron	KNOWN	None	28639	None	None	34952727	34957231	1	None	MGC4172, SDR24C1
17	DHRS11	ENSG00000108272	ENST00000585376	protein_coding	NOVEL	None	28639	330	109	34954595	34957185	1	None	MGC4172, SDR24C1
17	DHRS11	ENSG00000108272	ENST00000586848	retained_intron	KNOWN	None	28639	None	None	34956123	34957222	1	None	MGC4172, SDR24C1
16	None	ENSG00000268927	ENST00000597002	protein_coding	KNOWN	None	None	603	200	70695570	70699739	1	None	None
2	SPAG16	ENSG00000144451	ENST00000331683	protein_coding	KNOWN	CCDS2396	23225	1896	631	214149113	215275225	1	None	PF20, FLJ22724, DKFZp666P1710, WDR29
2	SPAG16	ENSG00000144451	ENST00000406979	nonsense_mediated_decay	KNOWN	None	23225	174	57	214149113	215275225	1	None	PF20, FLJ22724, DKFZp666P1710, WDR29
2	SPAG16	ENSG00000144451	ENST00000432529	protein_coding	KNOWN	CCDS46508	23225	552	183	214149116	214182702	1	None	PF20, FLJ22724, DKFZp666P1710, WDR29
2	SPAG16	ENSG00000144451	ENST00000413312	protein_coding	KNOWN	None	23225	756	251	214149140	214230140	1	None	PF20, FLJ22724, DKFZp666P1710, WDR29
2	SPAG16	ENSG00000144451	ENST00000420497	nonsense_mediated_decay	KNOWN	None	23225	297	98	214149161	214167306	1	None	PF20, FLJ22724, DKFZp666P1710, WDR29
2	SPAG16	ENSG00000144451	ENST00000440779	nonsense_mediated_decay	KNOWN	None	23225	285	94	214149161	214239778	1	None	PF20, FLJ22724, DKFZp666P1710, WDR29
2	SPAG16	ENSG00000144451	ENST00000452556	nonsense_mediated_decay	KNOWN	None	23225	195	64	214149179	215106100	1	None	PF20, FLJ22724, DKFZp666P1710, WDR29
2	SPAG16	ENSG00000144451	ENST00000447990	protein_coding	PUTATIVE	None	23225	1125	374	214149205	214287246	1	None	PF20, FLJ22724, DKFZp666P1710, WDR29
2	SPAG16	ENSG00000144451	ENST00000414961	processed_transcript	KNOWN	None	23225	None	None	214160788	214228869	1	None	PF20, FLJ22724, DKFZp666P1710, WDR29
2	SPAG16	ENSG00000144451	ENST00000451561	protein_coding	KNOWN	None	23225	768	255	214354687	215275042	1	None	PF20, FLJ22724, DKFZp666P1710, WDR29
2	SPAG16	ENSG00000144451	ENST00000480494	processed_transcript	KNOWN	None	23225	None	None	214788587	215274957	1	None	PF20, FLJ22724, DKFZp666P1710, WDR29
2	SPAG16	ENSG00000144451	ENST00000272898	protein_coding	KNOWN	None	23225	1044	347	214149204	214261416	1	None	PF20, FLJ22724, DKFZp666P1710, WDR29
2	SPAG16	ENSG00000144451	ENST00000374309	protein_coding	KNOWN	None	23225	1614	537	214160815	215275039	1	None	PF20, FLJ22724, DKFZp666P1710, WDR29
X	KIAA2022	ENSG00000050030	ENST00000373468	protein_coding	KNOWN	CCDS35337	29433	4551	1516	73952684	74145320	-1	None	None
X	KIAA2022	ENSG00000050030	ENST00000424929	protein_coding	KNOWN	None	29433	355	117	73956953	73960195	-1	None	None
X	KIAA2022	ENSG00000050030	ENST00000055682	protein_coding	KNOWN	CCDS35337	29433	4551	1516	73952692	74145287	-1	None	None
16	VAC14	ENSG00000103043	ENST00000567648	protein_coding	PUTATIVE	None	25507	52	16	70721342	70729496	-1	TAX1BP2	FLJ10305, ArPIKfyve
16	VAC14	ENSG00000103043	ENST00000568886	nonsense_mediated_decay	KNOWN	None	25507	606	201	70721342	70834885	-1	TAX1BP2	FLJ10305, ArPIKfyve
16	VAC14	ENSG00000103043	ENST00000261776	protein_coding	KNOWN	CCDS10896	25507	2349	782	70721342	70835064	-1	TAX1BP2	FLJ10305, ArPIKfyve
16	VAC14	ENSG00000103043	ENST00000571759	processed_transcript	KNOWN	None	25507	None	None	70721344	70724952	-1	TAX1BP2	FLJ10305, ArPIKfyve
16	VAC14	ENSG00000103043	ENST00000568548	nonsense_mediated_decay	KNOWN	None	25507	123	40	70721344	70835063	-1	TAX1BP2	FLJ10305, ArPIKfyve
16	VAC14	ENSG00000103043	ENST00000536184	protein_coding	PUTATIVE	None	25507	645	214	70721345	70734148	-1	TAX1BP2	FLJ10305, ArPIKfyve
16	VAC14	ENSG00000103043	ENST00000564512	retained_intron	KNOWN	None	25507	None	None	70721943	70729759	-1	TAX1BP2	FLJ10305, ArPIKfyve
16	VAC14	ENSG00000103043	ENST00000566416	protein_coding	NOVEL	None	25507	780	259	70721946	70778483	-1	TAX1BP2	FLJ10305, ArPIKfyve
16	VAC14	ENSG00000103043	ENST00000564685	retained_intron	KNOWN	None	25507	None	None	70730793	70778541	-1	TAX1BP2	FLJ10305, ArPIKfyve
16	VAC14	ENSG00000103043	ENST00000561879	processed_transcript	KNOWN	None	25507	None	None	70765178	70778985	-1	TAX1BP2	FLJ10305, ArPIKfyve
16	VAC14	ENSG00000103043	ENST00000563662	retained_intron	KNOWN	None	25507	None	None	70765211	70796510	-1	TAX1BP2	FLJ10305, ArPIKfyve
16	VAC14	ENSG00000103043	ENST00000566655	retained_intron	KNOWN	None	25507	None	None	70814701	70820330	-1	TAX1BP2	FLJ10305, ArPIKfyve
3	MGLL	ENSG00000074416	ENST00000434178	protein_coding	KNOWN	CCDS43148	17038	912	303	127407909	127542028	-1	None	HU-K5, MGL
3	MGLL	ENSG00000074416	ENST00000496306	protein_coding	NOVEL	None	17038	629	208	127410954	127440014	-1	None	HU-K5, MGL
3	MGLL	ENSG00000074416	ENST00000476682	processed_transcript	KNOWN	None	17038	None	None	127410955	127432989	-1	None	HU-K5, MGL
3	MGLL	ENSG00000074416	ENST00000487473	protein_coding	PUTATIVE	None	17038	468	155	127410960	127441413	-1	None	HU-K5, MGL
3	MGLL	ENSG00000074416	ENST00000398101	protein_coding	PUTATIVE	None	17038	834	277	127410960	127455200	-1	None	HU-K5, MGL
3	MGLL	ENSG00000074416	ENST00000484451	protein_coding	NOVEL	None	17038	594	197	127410982	127441413	-1	None	HU-K5, MGL
3	MGLL	ENSG00000074416	ENST00000465597	processed_transcript	KNOWN	None	17038	None	None	127429463	127518307	-1	None	HU-K5, MGL
3	MGLL	ENSG00000074416	ENST00000479967	processed_transcript	KNOWN	None	17038	None	None	127434317	127542028	-1	None	HU-K5, MGL
3	MGLL	ENSG00000074416	ENST00000493611	protein_coding	PUTATIVE	None	17038	268	88	127439919	127502851	-1	None	HU-K5, MGL
3	MGLL	ENSG00000074416	ENST00000476654	processed_transcript	KNOWN	None	17038	None	None	127441393	127510104	-1	None	HU-K5, MGL
3	MGLL	ENSG00000074416	ENST00000494830	protein_coding	KNOWN	None	17038	232	76	127500632	127540986	-1	None	HU-K5, MGL
3	MGLL	ENSG00000074416	ENST00000265052	protein_coding	KNOWN	CCDS46902	17038	942	313	127407911	127541701	-1	None	HU-K5, MGL
3	MGLL	ENSG00000074416	ENST00000453507	protein_coding	KNOWN	CCDS58852	17038	852	283	127410960	127541194	-1	None	HU-K5, MGL
3	MGLL	ENSG00000074416	ENST00000398104	protein_coding	KNOWN	CCDS43148	17038	912	303	127407911	127542051	-1	None	HU-K5, MGL
2	VWC2L	ENSG00000174453	ENST00000312504	protein_coding	KNOWN	CCDS46509	37203	669	222	215275789	215443683	1	None	None
2	VWC2L	ENSG00000174453	ENST00000427124	protein_coding	NOVEL	None	37203	420	139	215275789	215443683	1	None	None
2	VWC2L	ENSG00000174453	ENST00000477752	retained_intron	KNOWN	None	37203	None	None	215275801	215279927	1	None	None
8	PABPC1	ENSG00000070756	ENST00000518293	protein_coding	KNOWN	None	8554	128	41	101698044	101717188	-1	PAB1, PABPC2	PABP1, PABPL1
8	PABPC1	ENSG00000070756	ENST00000520868	protein_coding	KNOWN	None	8554	509	168	101715144	101719159	-1	PAB1, PABPC2	PABP1, PABPL1
8	PABPC1	ENSG00000070756	ENST00000318607	protein_coding	KNOWN	CCDS6289	8554	1911	636	101715144	101734940	-1	PAB1, PABPC2	PABP1, PABPL1
8	PABPC1	ENSG00000070756	ENST00000519004	protein_coding	PUTATIVE	None	8554	1776	591	101715327	101734315	-1	PAB1, PABPC2	PABP1, PABPL1
8	PABPC1	ENSG00000070756	ENST00000522387	protein_coding	NOVEL	None	8554	1815	604	101715389	101734220	-1	PAB1, PABPC2	PABP1, PABPL1
8	PABPC1	ENSG00000070756	ENST00000523636	nonsense_mediated_decay	KNOWN	None	8554	496	164	101715487	101724632	-1	PAB1, PABPC2	PABP1, PABPL1
8	PABPC1	ENSG00000070756	ENST00000517990	protein_coding	NOVEL	None	8554	411	136	101715513	101719007	-1	PAB1, PABPC2	PABP1, PABPL1
8	PABPC1	ENSG00000070756	ENST00000522658	protein_coding	KNOWN	None	8554	552	183	101716342	101719202	-1	PAB1, PABPC2	PABP1, PABPL1
8	PABPC1	ENSG00000070756	ENST00000519848	retained_intron	KNOWN	None	8554	None	None	101717154	101719419	-1	PAB1, PABPC2	PABP1, PABPL1
8	PABPC1	ENSG00000070756	ENST00000517403	protein_coding	NOVEL	None	8554	560	185	101718879	101724989	-1	PAB1, PABPC2	PABP1, PABPL1
8	PABPC1	ENSG00000070756	ENST00000519596	processed_transcript	KNOWN	None	8554	None	None	101718922	101727829	-1	PAB1, PABPC2	PABP1, PABPL1
8	PABPC1	ENSG00000070756	ENST00000518716	retained_intron	KNOWN	None	8554	None	None	101718931	101722075	-1	PAB1, PABPC2	PABP1, PABPL1
8	PABPC1	ENSG00000070756	ENST00000519622	nonsense_mediated_decay	KNOWN	None	8554	394	130	101721364	101727724	-1	PAB1, PABPC2	PABP1, PABPL1
8	PABPC1	ENSG00000070756	ENST00000519100	protein_coding	NOVEL	None	8554	851	282	101721687	101730118	-1	PAB1, PABPC2	PABP1, PABPL1
8	PABPC1	ENSG00000070756	ENST00000517921	retained_intron	KNOWN	None	8554	None	None	101725366	101733811	-1	PAB1, PABPC2	PABP1, PABPL1
8	PABPC1	ENSG00000070756	ENST00000523555	protein_coding	NOVEL	None	8554	522	173	101725370	101733794	-1	PAB1, PABPC2	PABP1, PABPL1
8	PABPC1	ENSG00000070756	ENST00000518196	protein_coding	PUTATIVE	None	8554	324	107	101730045	101734264	-1	PAB1, PABPC2	PABP1, PABPL1
8	PABPC1	ENSG00000070756	ENST00000521865	protein_coding	KNOWN	None	8554	387	128	101730315	101734977	-1	PAB1, PABPC2	PABP1, PABPL1
8	PABPC1	ENSG00000070756	ENST00000520142	protein_coding	KNOWN	None	8554	354	117	101730348	101734320	-1	PAB1, PABPC2	PABP1, PABPL1
8	PABPC1	ENSG00000070756	ENST00000522720	protein_coding	KNOWN	None	8554	225	74	101730477	101734990	-1	PAB1, PABPC2	PABP1, PABPL1
8	PABPC1	ENSG00000070756	ENST00000521067	protein_coding	KNOWN	None	8554	183	60	101733629	101735037	-1	PAB1, PABPC2	PABP1, PABPL1
8	PABPC1	ENSG00000070756	ENST00000520804	protein_coding	KNOWN	None	8554	131	42	101733681	101734981	-1	PAB1, PABPC2	PABP1, PABPL1
8	PABPC1	ENSG00000070756	ENST00000519363	protein_coding	KNOWN	None	8554	115	37	101733697	101734315	-1	PAB1, PABPC2	PABP1, PABPL1
5	KCNMB1	ENSG00000145936	ENST00000274629	protein_coding	KNOWN	CCDS4373	6285	576	191	169801675	169816681	-1	None	hslo-beta
5	KCNMB1	ENSG00000145936	ENST00000521859	protein_coding	KNOWN	None	6285	393	130	169809656	169816638	-1	None	hslo-beta
6	EZR	ENSG00000092820	ENST00000337147	protein_coding	KNOWN	CCDS5258	12691	1761	586	159186773	159239259	-1	VIL2	None
6	EZR	ENSG00000092820	ENST00000367075	protein_coding	KNOWN	CCDS5258	12691	1761	586	159186780	159240444	-1	VIL2	None
6	EZR	ENSG00000092820	ENST00000476189	processed_transcript	KNOWN	None	12691	None	None	159204566	159240381	-1	VIL2	None
6	EZR	ENSG00000092820	ENST00000392177	protein_coding	KNOWN	None	12691	1665	554	159187928	159239265	-1	VIL2	None
15	C15orf53	ENSG00000175779	ENST00000318792	protein_coding	KNOWN	CCDS10048	33796	540	179	38988799	38992239	1	None	FLJ35695
12	KDM5A	ENSG00000073614	ENST00000399788	protein_coding	KNOWN	CCDS41736	9886	5073	1690	389295	498620	-1	RBBP2, JARID1A	None
12	KDM5A	ENSG00000073614	ENST00000540838	processed_transcript	KNOWN	None	9886	None	None	394622	402091	-1	RBBP2, JARID1A	None
12	KDM5A	ENSG00000073614	ENST00000540156	retained_intron	KNOWN	None	9886	None	None	416060	416939	-1	RBBP2, JARID1A	None
12	KDM5A	ENSG00000073614	ENST00000544760	protein_coding	NOVEL	None	9886	2147	714	419057	498448	-1	RBBP2, JARID1A	None
12	KDM5A	ENSG00000073614	ENST00000535269	retained_intron	KNOWN	None	9886	None	None	419060	420380	-1	RBBP2, JARID1A	None
12	KDM5A	ENSG00000073614	ENST00000541335	retained_intron	KNOWN	None	9886	None	None	431429	432320	-1	RBBP2, JARID1A	None
12	KDM5A	ENSG00000073614	ENST00000540168	retained_intron	KNOWN	None	9886	None	None	432761	438336	-1	RBBP2, JARID1A	None
12	KDM5A	ENSG00000073614	ENST00000544777	retained_intron	KNOWN	None	9886	None	None	442234	443494	-1	RBBP2, JARID1A	None
12	KDM5A	ENSG00000073614	ENST00000535014	protein_coding	NOVEL	None	9886	378	125	475136	498430	-1	RBBP2, JARID1A	None
12	KDM5A	ENSG00000073614	ENST00000536014	protein_coding	PUTATIVE	None	9886	368	121	475212	497696	-1	RBBP2, JARID1A	None
12	KDM5A	ENSG00000073614	ENST00000543507	protein_coding	NOVEL	None	9886	393	130	493197	498439	-1	RBBP2, JARID1A	None
12	KDM5A	ENSG00000073614	ENST00000382815	protein_coding	KNOWN	None	9886	4911	1636	395329	498620	-1	RBBP2, JARID1A	None
10	C10orf11	ENSG00000148655	ENST00000593817	processed_transcript	PUTATIVE	None	23405	None	None	77360998	77795894	1	None	CDA017, OCA7
10	C10orf11	ENSG00000148655	ENST00000593699	processed_transcript	KNOWN	None	23405	None	None	77407267	78317135	1	None	CDA017, OCA7
10	C10orf11	ENSG00000148655	ENST00000372499	protein_coding	KNOWN	CCDS7351	23405	597	198	77542519	78317133	1	None	CDA017, OCA7
10	C10orf11	ENSG00000148655	ENST00000496424	protein_coding	PUTATIVE	None	23405	168	55	78078092	78319925	1	None	CDA017, OCA7
10	C10orf11	ENSG00000148655	ENST00000488655	processed_transcript	KNOWN	None	23405	None	None	78084159	78317064	1	None	CDA017, OCA7
10	C10orf11	ENSG00000148655	ENST00000598708	processed_transcript	PUTATIVE	None	23405	None	None	78084159	78317124	1	None	CDA017, OCA7
10	C10orf11	ENSG00000148655	ENST00000468134	processed_transcript	KNOWN	None	23405	None	None	78156259	78317084	1	None	CDA017, OCA7
10	C10orf11	ENSG00000148655	ENST00000596228	processed_transcript	PUTATIVE	None	23405	None	None	78161987	78317287	1	None	CDA017, OCA7
10	C10orf11	ENSG00000148655	ENST00000597823	processed_transcript	PUTATIVE	None	23405	None	None	78161987	78317335	1	None	CDA017, OCA7
10	C10orf11	ENSG00000148655	ENST00000488759	processed_transcript	KNOWN	None	23405	None	None	78162979	78317110	1	None	CDA017, OCA7
10	C10orf11	ENSG00000148655	ENST00000483375	processed_transcript	KNOWN	None	23405	None	None	78162979	78317114	1	None	CDA017, OCA7
10	C10orf11	ENSG00000148655	ENST00000493194	processed_transcript	KNOWN	None	23405	None	None	78224572	78317098	1	None	CDA017, OCA7
10	C10orf11	ENSG00000148655	ENST00000595936	processed_transcript	PUTATIVE	None	23405	None	None	78230156	78317111	1	None	CDA017, OCA7
10	C10orf11	ENSG00000148655	ENST00000493690	processed_transcript	KNOWN	None	23405	None	None	78316145	78317115	1	None	CDA017, OCA7
2	BARD1	ENSG00000138376	ENST00000260947	protein_coding	KNOWN	CCDS2397	952	2334	777	215590370	215674428	-1	None	None
2	BARD1	ENSG00000138376	ENST00000432456	protein_coding	PUTATIVE	None	952	447	148	215593148	215595869	-1	None	None
2	BARD1	ENSG00000138376	ENST00000471590	processed_transcript	KNOWN	None	952	None	None	215593262	215595234	-1	None	None
2	BARD1	ENSG00000138376	ENST00000455743	nonsense_mediated_decay	KNOWN	None	952	231	76	215593428	215674397	-1	None	None
2	BARD1	ENSG00000138376	ENST00000421162	protein_coding	PUTATIVE	None	952	648	215	215595135	215674411	-1	None	None
2	BARD1	ENSG00000138376	ENST00000465841	retained_intron	KNOWN	None	952	None	None	215610436	215617202	-1	None	None
2	BARD1	ENSG00000138376	ENST00000471787	processed_transcript	KNOWN	None	952	None	None	215645621	215674394	-1	None	None
2	BARD1	ENSG00000138376	ENST00000479904	retained_intron	KNOWN	None	952	None	None	215661518	215674384	-1	None	None
2	BARD1	ENSG00000138376	ENST00000449967	protein_coding	KNOWN	None	952	1704	567	215593428	215674397	-1	None	None
X	ABCB7	ENSG00000131269	ENST00000253577	protein_coding	KNOWN	CCDS14428	48	2262	753	74273115	74376132	-1	ABC7	EST140535, Atm1p, ASAT
X	ABCB7	ENSG00000131269	ENST00000339447	protein_coding	NOVEL	None	48	2139	712	74273117	74376114	-1	ABC7	EST140535, Atm1p, ASAT
X	ABCB7	ENSG00000131269	ENST00000373394	protein_coding	KNOWN	None	48	2259	752	74273119	74376115	-1	ABC7	EST140535, Atm1p, ASAT
X	ABCB7	ENSG00000131269	ENST00000529949	protein_coding	NOVEL	None	48	2106	701	74273280	74376117	-1	ABC7	EST140535, Atm1p, ASAT
X	ABCB7	ENSG00000131269	ENST00000490858	processed_transcript	KNOWN	None	48	None	None	74273299	74282462	-1	ABC7	EST140535, Atm1p, ASAT
X	ABCB7	ENSG00000131269	ENST00000534570	processed_transcript	KNOWN	None	48	None	None	74285043	74293737	-1	ABC7	EST140535, Atm1p, ASAT
X	ABCB7	ENSG00000131269	ENST00000469368	retained_intron	KNOWN	None	48	None	None	74288891	74291416	-1	ABC7	EST140535, Atm1p, ASAT
X	ABCB7	ENSG00000131269	ENST00000534524	protein_coding	PUTATIVE	None	48	566	187	74295321	74376121	-1	ABC7	EST140535, Atm1p, ASAT
X	ABCB7	ENSG00000131269	ENST00000526404	protein_coding	PUTATIVE	None	48	515	170	74296467	74376567	-1	ABC7	EST140535, Atm1p, ASAT
11	P2RY2	ENSG00000175591	ENST00000393597	protein_coding	KNOWN	CCDS8219	8541	1134	377	72929343	72946977	1	None	P2U
11	P2RY2	ENSG00000175591	ENST00000311131	protein_coding	KNOWN	CCDS8219	8541	1134	377	72929344	72947397	1	None	P2U
11	P2RY2	ENSG00000175591	ENST00000393596	protein_coding	KNOWN	CCDS8219	8541	1134	377	72929502	72946979	1	None	P2U
3	SEMA3F	ENSG00000001617	ENST00000414301	protein_coding	KNOWN	None	10728	793	263	50192478	50220199	1	None	SEMAK, Sema4
3	SEMA3F	ENSG00000001617	ENST00000450338	protein_coding	KNOWN	None	10728	1139	378	50192492	50220996	1	None	SEMAK, Sema4
3	SEMA3F	ENSG00000001617	ENST00000413852	protein_coding	NOVEL	None	10728	2061	686	50192524	50226507	1	None	SEMAK, Sema4
3	SEMA3F	ENSG00000001617	ENST00000002829	protein_coding	KNOWN	CCDS2811	10728	2358	785	50192562	50226508	1	None	SEMAK, Sema4
3	SEMA3F	ENSG00000001617	ENST00000426511	protein_coding	KNOWN	None	10728	276	91	50192844	50211389	1	None	SEMAK, Sema4
3	SEMA3F	ENSG00000001617	ENST00000434342	protein_coding	KNOWN	None	10728	2265	754	50196452	50226506	1	None	SEMAK, Sema4
3	SEMA3F	ENSG00000001617	ENST00000420831	protein_coding	PUTATIVE	None	10728	442	146	50211240	50214294	1	None	SEMAK, Sema4
3	SEMA3F	ENSG00000001617	ENST00000493743	retained_intron	KNOWN	None	10728	None	None	50220071	50221041	1	None	SEMAK, Sema4
3	SEMA3F	ENSG00000001617	ENST00000470737	retained_intron	KNOWN	None	10728	None	None	50221705	50222898	1	None	SEMAK, Sema4
10	PTPN20A	ENSG00000204179	ENST00000374340	processed_transcript	KNOWN	None	23422	None	None	46549955	46611852	-1	None	bA142I17.1, CT126
10	PTPN20A	ENSG00000204179	ENST00000395721	protein_coding	KNOWN	CCDS41507	23422	1020	339	46550121	46641003	-1	None	bA142I17.1, CT126
10	PTPN20A	ENSG00000204179	ENST00000246887	processed_transcript	KNOWN	None	23422	None	None	46550121	46641013	-1	None	bA142I17.1, CT126
10	PTPN20A	ENSG00000204179	ENST00000509181	processed_transcript	KNOWN	None	23422	None	None	46550121	46641045	-1	None	bA142I17.1, CT126
10	PTPN20A	ENSG00000204179	ENST00000374346	protein_coding	KNOWN	CCDS31191	23422	681	226	46550123	46641006	-1	None	bA142I17.1, CT126
10	PTPN20A	ENSG00000204179	ENST00000508602	protein_coding	KNOWN	None	23422	597	198	46551654	46620012	-1	None	bA142I17.1, CT126
10	PTPN20A	ENSG00000204179	ENST00000374339	protein_coding	KNOWN	CCDS31190	23422	1263	420	46551654	46620012	-1	None	bA142I17.1, CT126
10	PTPN20A	ENSG00000204179	ENST00000395727	protein_coding	KNOWN	CCDS41505	23422	687	228	46551654	46640660	-1	None	bA142I17.1, CT126
10	PTPN20A	ENSG00000204179	ENST00000509900	protein_coding	KNOWN	CCDS41508	23422	438	145	46551654	46640660	-1	None	bA142I17.1, CT126
10	PTPN20A	ENSG00000204179	ENST00000503851	protein_coding	KNOWN	CCDS53530	23422	411	136	46551654	46640660	-1	None	bA142I17.1, CT126
10	PTPN20A	ENSG00000204179	ENST00000506080	protein_coding	KNOWN	None	23422	1179	392	46551654	46640660	-1	None	bA142I17.1, CT126
10	PTPN20A	ENSG00000204179	ENST00000513266	protein_coding	KNOWN	None	23422	594	197	46551654	46640660	-1	None	bA142I17.1, CT126
10	PTPN20A	ENSG00000204179	ENST00000502705	protein_coding	KNOWN	None	23422	621	206	46551654	46640660	-1	None	bA142I17.1, CT126
10	PTPN20A	ENSG00000204179	ENST00000505814	protein_coding	KNOWN	CCDS41507	23422	1020	339	46551654	46640660	-1	None	bA142I17.1, CT126
10	PTPN20A	ENSG00000204179	ENST00000509774	protein_coding	KNOWN	CCDS53531	23422	654	217	46551654	46640660	-1	None	bA142I17.1, CT126
10	PTPN20A	ENSG00000204179	ENST00000511769	protein_coding	KNOWN	CCDS41506	23422	1236	411	46551654	46640660	-1	None	bA142I17.1, CT126
10	PTPN20A	ENSG00000204179	ENST00000513159	processed_transcript	KNOWN	None	23422	None	None	46551654	46640660	-1	None	bA142I17.1, CT126
10	PTPN20A	ENSG00000204179	ENST00000509599	protein_coding	KNOWN	CCDS31191	23422	681	226	46551654	46640660	-1	None	bA142I17.1, CT126
10	PTPN20A	ENSG00000204179	ENST00000508715	processed_transcript	KNOWN	None	23422	None	None	46551654	46640660	-1	None	bA142I17.1, CT126
10	PTPN20A	ENSG00000204179	ENST00000510335	nonsense_mediated_decay	KNOWN	None	23422	315	104	46551654	46640660	-1	None	bA142I17.1, CT126
10	PTPN20A	ENSG00000204179	ENST00000513156	protein_coding	KNOWN	CCDS31189	23422	810	269	46551654	46640660	-1	None	bA142I17.1, CT126
10	PTPN20A	ENSG00000204179	ENST00000502254	protein_coding	KNOWN	None	23422	438	145	46551655	46620018	-1	None	bA142I17.1, CT126
10	PTPN20A	ENSG00000204179	ENST00000513756	processed_transcript	KNOWN	None	23422	None	None	46551655	46620018	-1	None	bA142I17.1, CT126
10	PTPN20A	ENSG00000204179	ENST00000417004	protein_coding	KNOWN	None	23422	379	125	46552493	46641013	-1	None	bA142I17.1, CT126
10	PTPN20A	ENSG00000204179	ENST00000508357	nonsense_mediated_decay	KNOWN	None	23422	189	62	46570814	46631530	-1	None	bA142I17.1, CT126
10	PTPN20A	ENSG00000204179	ENST00000466912	retained_intron	KNOWN	None	23422	None	None	46605596	46619969	-1	None	bA142I17.1, CT126
10	PTPN20A	ENSG00000204179	ENST00000506881	protein_coding	KNOWN	None	23422	204	67	46608446	46626433	-1	None	bA142I17.1, CT126
10	PTPN20A	ENSG00000204179	ENST00000437863	protein_coding	KNOWN	None	23422	1179	392	46550123	46620058	-1	None	bA142I17.1, CT126
10	PTPN20A	ENSG00000204179	ENST00000374342	protein_coding	KNOWN	None	23422	837	278	46550123	46620058	-1	None	bA142I17.1, CT126
10	PTPN20A	ENSG00000204179	ENST00000395722	protein_coding	KNOWN	None	23422	621	206	46550123	46620058	-1	None	bA142I17.1, CT126
10	PTPN20A	ENSG00000204179	ENST00000374218	protein_coding	KNOWN	CCDS41507	23422	1020	339	46550123	46641003	-1	None	bA142I17.1, CT126
10	PTPN20A	ENSG00000204179	ENST00000395725	protein_coding	KNOWN	CCDS41508	23422	438	145	46550123	46641003	-1	None	bA142I17.1, CT126
17	MRM1	ENSG00000129282	ENST00000250156	protein_coding	KNOWN	CCDS32631	26202	1062	353	34958001	34965407	1	None	FLJ22578
17	MRM1	ENSG00000129282	ENST00000585770	protein_coding	PUTATIVE	None	26202	477	158	34958391	34965400	1	None	FLJ22578
3	LRRN1	ENSG00000175928	ENST00000319331	protein_coding	KNOWN	CCDS33685	20980	2151	716	3841121	3889387	1	None	FIGLER3
3	LRRN1	ENSG00000175928	ENST00000472075	retained_intron	KNOWN	None	20980	None	None	3841380	3845876	1	None	FIGLER3
3	LRRN1	ENSG00000175928	ENST00000496115	processed_transcript	KNOWN	None	20980	None	None	3842555	3886263	1	None	FIGLER3
3	SETMAR	ENSG00000170364	ENST00000358065	protein_coding	KNOWN	CCDS2563	10762	2055	684	4344988	4359251	1	None	metnase
3	SETMAR	ENSG00000170364	ENST00000413809	nonsense_mediated_decay	KNOWN	None	10762	516	171	4345016	4358949	1	None	metnase
3	SETMAR	ENSG00000170364	ENST00000425046	nonsense_mediated_decay	KNOWN	None	10762	204	67	4345021	4358949	1	None	metnase
3	SETMAR	ENSG00000170364	ENST00000430981	protein_coding	KNOWN	None	10762	1098	365	4345045	4356086	1	None	metnase
3	SETMAR	ENSG00000170364	ENST00000425863	protein_coding	NOVEL	CCDS58814	10762	1638	545	4345055	4358949	1	None	metnase
3	SETMAR	ENSG00000170364	ENST00000358950	protein_coding	PUTATIVE	None	10762	637	211	4345292	4358220	1	None	metnase
3	SETMAR	ENSG00000170364	ENST00000490691	processed_transcript	PUTATIVE	None	10762	None	None	4345297	4358096	1	None	metnase
3	SETMAR	ENSG00000170364	ENST00000462115	processed_transcript	PUTATIVE	None	10762	None	None	4345311	4354785	1	None	metnase
15	C15orf54	ENSG00000175746	ENST00000318578	protein_coding	KNOWN	CCDS10049	33797	552	183	39542885	39547046	1	None	FLJ39531
15	C15orf54	ENSG00000175746	ENST00000561223	protein_coding	KNOWN	CCDS10049	33797	552	183	39542967	39545114	1	None	FLJ39531
11	P2RY6	ENSG00000171631	ENST00000540342	protein_coding	KNOWN	CCDS8220	8543	987	328	72975550	73008835	1	None	P2Y6
11	P2RY6	ENSG00000171631	ENST00000542092	protein_coding	KNOWN	CCDS8220	8543	987	328	72975555	73008850	1	None	P2Y6
11	P2RY6	ENSG00000171631	ENST00000349767	protein_coding	KNOWN	CCDS8220	8543	987	328	72975562	73008850	1	None	P2Y6
11	P2RY6	ENSG00000171631	ENST00000393592	protein_coding	KNOWN	CCDS8220	8543	987	328	72975584	73008847	1	None	P2Y6
11	P2RY6	ENSG00000171631	ENST00000544437	protein_coding	KNOWN	None	8543	385	127	72976275	73007948	1	None	P2Y6
11	P2RY6	ENSG00000171631	ENST00000393591	protein_coding	KNOWN	CCDS8220	8543	987	328	72980939	73008850	1	None	P2Y6
11	P2RY6	ENSG00000171631	ENST00000540124	protein_coding	KNOWN	CCDS8220	8543	987	328	72982567	73008849	1	None	P2Y6
11	P2RY6	ENSG00000171631	ENST00000393590	protein_coding	KNOWN	CCDS8220	8543	987	328	72983247	73009662	1	None	P2Y6
11	P2RY6	ENSG00000171631	ENST00000536225	protein_coding	PUTATIVE	None	8543	168	55	72983465	73008214	1	None	P2Y6
11	P2RY6	ENSG00000171631	ENST00000535931	protein_coding	KNOWN	None	8543	736	244	73000452	73008299	1	None	P2Y6
11	P2RY6	ENSG00000171631	ENST00000538328	protein_coding	KNOWN	CCDS8220	8543	987	328	73003827	73008815	1	None	P2Y6
5	GABRP	ENSG00000094755	ENST00000521481	protein_coding	KNOWN	None	4089	514	170	170190354	170224525	1	None	None
5	GABRP	ENSG00000094755	ENST00000521009	protein_coding	KNOWN	None	4089	277	91	170191298	170222248	1	None	None
5	GABRP	ENSG00000094755	ENST00000519196	protein_coding	KNOWN	None	4089	178	58	170191918	170221240	1	None	None
5	GABRP	ENSG00000094755	ENST00000522868	protein_coding	KNOWN	None	4089	568	188	170199569	170232746	1	None	None
5	GABRP	ENSG00000094755	ENST00000518525	protein_coding	KNOWN	CCDS4375	4089	1323	440	170209686	170241051	1	None	None
5	GABRP	ENSG00000094755	ENST00000518122	protein_coding	KNOWN	None	4089	157	51	170209697	170216236	1	None	None
5	GABRP	ENSG00000094755	ENST00000519385	protein_coding	PUTATIVE	None	4089	870	289	170210729	170239502	1	None	None
5	GABRP	ENSG00000094755	ENST00000519598	protein_coding	PUTATIVE	None	4089	1050	349	170210751	170237080	1	None	None
5	GABRP	ENSG00000094755	ENST00000519137	retained_intron	KNOWN	None	4089	None	None	170216147	170221392	1	None	None
5	GABRP	ENSG00000094755	ENST00000265294	protein_coding	KNOWN	CCDS4375	4089	1323	440	170210723	170241051	1	None	None
2	ABCA12	ENSG00000144452	ENST00000272895	protein_coding	KNOWN	CCDS33372	14637	7788	2595	215796266	216003151	-1	ICR2B	DKFZP434G232, LI2
2	ABCA12	ENSG00000144452	ENST00000389661	protein_coding	KNOWN	CCDS33373	14637	6834	2277	215797346	215896810	-1	ICR2B	DKFZP434G232, LI2
2	ABCA12	ENSG00000144452	ENST00000412081	protein_coding	NOVEL	None	14637	273	90	215940215	216003127	-1	ICR2B	DKFZP434G232, LI2
19	MARCH2	ENSG00000099785	ENST00000381035	protein_coding	KNOWN	CCDS32894	28038	531	176	8478154	8503888	1	None	HSPC240, MARCH-II, RNF172
19	MARCH2	ENSG00000099785	ENST00000595142	protein_coding	KNOWN	None	28038	236	77	8478174	8491552	1	None	HSPC240, MARCH-II, RNF172
19	MARCH2	ENSG00000099785	ENST00000601724	protein_coding	KNOWN	None	28038	241	79	8478179	8491557	1	None	HSPC240, MARCH-II, RNF172
19	MARCH2	ENSG00000099785	ENST00000601283	protein_coding	PUTATIVE	None	28038	123	40	8478189	8503615	1	None	HSPC240, MARCH-II, RNF172
19	MARCH2	ENSG00000099785	ENST00000595213	protein_coding	KNOWN	None	28038	169	55	8478306	8486893	1	None	HSPC240, MARCH-II, RNF172
19	MARCH2	ENSG00000099785	ENST00000602117	protein_coding	KNOWN	CCDS12202	28038	741	246	8483289	8503901	1	None	HSPC240, MARCH-II, RNF172
19	MARCH2	ENSG00000099785	ENST00000594796	retained_intron	KNOWN	None	28038	None	None	8486811	8495776	1	None	HSPC240, MARCH-II, RNF172
19	MARCH2	ENSG00000099785	ENST00000393944	protein_coding	KNOWN	CCDS12202	28038	741	246	8478187	8503895	1	None	HSPC240, MARCH-II, RNF172
19	MARCH2	ENSG00000099785	ENST00000215555	protein_coding	KNOWN	CCDS12202	28038	741	246	8478187	8503895	1	None	HSPC240, MARCH-II, RNF172
X	VBP1	ENSG00000155959	ENST00000286428	protein_coding	KNOWN	CCDS14765	12662	594	197	154444643	154468098	1	None	PFD3, PFDN3
X	VBP1	ENSG00000155959	ENST00000460509	processed_transcript	KNOWN	None	12662	None	None	154455425	154467242	1	None	PFD3, PFDN3
X	VBP1	ENSG00000155959	ENST00000459836	processed_transcript	KNOWN	None	12662	None	None	154463966	154467925	1	None	PFD3, PFDN3
X	VBP1	ENSG00000155959	ENST00000535916	protein_coding	KNOWN	None	12662	579	192	154425284	154467325	1	None	PFD3, PFDN3
7	SH2B2	ENSG00000160999	ENST00000444095	protein_coding	KNOWN	None	17381	923	306	101928452	101952188	1	None	APS
7	SH2B2	ENSG00000160999	ENST00000432527	protein_coding	KNOWN	None	17381	713	236	101957654	101962178	1	None	APS
7	SH2B2	ENSG00000160999	ENST00000536178	protein_coding	KNOWN	None	17381	2016	671	101928405	101962097	1	None	APS
7	SH2B2	ENSG00000160999	ENST00000306803	protein_coding	KNOWN	None	17381	1896	631	101943835	101962097	1	None	APS
16	TSR3	ENSG00000007520	ENST00000007390	protein_coding	KNOWN	CCDS10435	14175	939	312	1399241	1401912	-1	C16orf42	MGC24381
16	TSR3	ENSG00000007520	ENST00000566296	nonsense_mediated_decay	KNOWN	None	14175	329	108	1399427	1401474	-1	C16orf42	MGC24381
20	NCOR1P1	ENSG00000240108	ENST00000478176	processed_transcript	KNOWN	None	16724	None	None	26084052	26094664	-1	C20orf191	bB329D4.2
20	NCOR1P1	ENSG00000240108	ENST00000486162	transcribed_unprocessed_pseudogene	KNOWN	None	16724	None	None	26084125	26094622	-1	C20orf191	bB329D4.2
19	ZNF793	ENSG00000188227	ENST00000587143	protein_coding	KNOWN	CCDS46062	33115	1221	406	37997884	38028813	1	None	None
19	ZNF793	ENSG00000188227	ENST00000586138	protein_coding	KNOWN	None	33115	161	52	37998031	38024228	1	None	None
19	ZNF793	ENSG00000188227	ENST00000588578	protein_coding	PUTATIVE	None	33115	282	93	37998042	38031191	1	None	None
19	ZNF793	ENSG00000188227	ENST00000587986	protein_coding	PUTATIVE	None	33115	396	131	37998120	38027432	1	None	None
19	ZNF793	ENSG00000188227	ENST00000589319	protein_coding	PUTATIVE	None	33115	417	138	37999166	38034200	1	None	None
19	ZNF793	ENSG00000188227	ENST00000587490	protein_coding	PUTATIVE	None	33115	251	82	38023265	38024580	1	None	None
19	ZNF793	ENSG00000188227	ENST00000586187	nonsense_mediated_decay	KNOWN	None	33115	179	58	38024210	38039664	1	None	None
19	ZNF793	ENSG00000188227	ENST00000542455	protein_coding	KNOWN	CCDS46062	33115	1221	406	37997841	38028781	1	None	None
19	ZNF793	ENSG00000188227	ENST00000445217	protein_coding	KNOWN	CCDS46062	33115	1221	406	38014307	38034237	1	None	None
3	KBTBD12	ENSG00000187715	ENST00000405109	protein_coding	KNOWN	CCDS33848	25731	1872	623	127634075	127706509	1	KLHDC6	FLJ46299
3	KBTBD12	ENSG00000187715	ENST00000476626	processed_transcript	KNOWN	None	25731	None	None	127634318	127703180	1	KLHDC6	FLJ46299
3	KBTBD12	ENSG00000187715	ENST00000407609	protein_coding	PUTATIVE	None	25731	693	230	127634318	127706509	1	KLHDC6	FLJ46299
3	KBTBD12	ENSG00000187715	ENST00000497045	retained_intron	KNOWN	None	25731	None	None	127641904	127646963	1	KLHDC6	FLJ46299
3	KBTBD12	ENSG00000187715	ENST00000343941	protein_coding	PUTATIVE	None	25731	597	198	127642256	127706505	1	KLHDC6	FLJ46299
3	KBTBD12	ENSG00000187715	ENST00000492025	processed_transcript	KNOWN	None	25731	None	None	127642924	127703141	1	KLHDC6	FLJ46299
3	KBTBD12	ENSG00000187715	ENST00000405256	protein_coding	KNOWN	CCDS33848	25731	1872	623	127641902	127706514	1	KLHDC6	FLJ46299
14	GNG2	ENSG00000186469	ENST00000553432	protein_coding	PUTATIVE	None	4404	309	102	52292913	52433561	1	None	None
14	GNG2	ENSG00000186469	ENST00000556522	nonsense_mediated_decay	KNOWN	None	4404	114	37	52292918	52433470	1	None	None
14	GNG2	ENSG00000186469	ENST00000557376	protein_coding	PUTATIVE	None	4404	333	110	52292918	52433495	1	None	None
14	GNG2	ENSG00000186469	ENST00000553560	protein_coding	PUTATIVE	None	4404	156	51	52313844	52446060	1	None	None
14	GNG2	ENSG00000186469	ENST00000554832	processed_transcript	KNOWN	None	4404	None	None	52313890	52380054	1	None	None
14	GNG2	ENSG00000186469	ENST00000553299	processed_transcript	KNOWN	None	4404	None	None	52313952	52433758	1	None	None
14	GNG2	ENSG00000186469	ENST00000335281	protein_coding	KNOWN	CCDS32082	4404	216	71	52327132	52436512	1	None	None
14	GNG2	ENSG00000186469	ENST00000557208	retained_intron	KNOWN	None	4404	None	None	52327359	52344762	1	None	None
14	GNG2	ENSG00000186469	ENST00000555472	protein_coding	KNOWN	CCDS32082	4404	216	71	52327360	52433758	1	None	None
14	GNG2	ENSG00000186469	ENST00000556766	protein_coding	KNOWN	CCDS32082	4404	216	71	52327364	52435099	1	None	None
14	GNG2	ENSG00000186469	ENST00000554840	processed_transcript	KNOWN	None	4404	None	None	52327452	52433879	1	None	None
14	GNG2	ENSG00000186469	ENST00000554736	protein_coding	KNOWN	CCDS32082	4404	216	71	52328042	52433621	1	None	None
14	GNG2	ENSG00000186469	ENST00000556752	protein_coding	KNOWN	CCDS32082	4404	216	71	52344310	52436513	1	None	None
14	GNG2	ENSG00000186469	ENST00000556471	processed_transcript	KNOWN	None	4404	None	None	52344352	52407117	1	None	None
14	GNG2	ENSG00000186469	ENST00000554875	protein_coding	PUTATIVE	None	4404	186	61	52379830	52418736	1	None	None
16	GNPTG	ENSG00000090581	ENST00000204679	protein_coding	KNOWN	CCDS10436	23026	918	305	1401924	1413352	1	GNPTAG, C16orf27	CAB56184, c316G12.3
16	GNPTG	ENSG00000090581	ENST00000526820	nonsense_mediated_decay	KNOWN	None	23026	231	76	1401932	1412125	1	GNPTAG, C16orf27	CAB56184, c316G12.3
16	GNPTG	ENSG00000090581	ENST00000527876	nonsense_mediated_decay	KNOWN	None	23026	231	76	1401945	1408418	1	GNPTAG, C16orf27	CAB56184, c316G12.3
16	GNPTG	ENSG00000090581	ENST00000529957	retained_intron	KNOWN	None	23026	None	None	1401947	1412907	1	GNPTAG, C16orf27	CAB56184, c316G12.3
16	GNPTG	ENSG00000090581	ENST00000534197	retained_intron	KNOWN	None	23026	None	None	1401949	1407845	1	GNPTAG, C16orf27	CAB56184, c316G12.3
16	GNPTG	ENSG00000090581	ENST00000527137	retained_intron	KNOWN	None	23026	None	None	1401952	1402832	1	GNPTAG, C16orf27	CAB56184, c316G12.3
16	GNPTG	ENSG00000090581	ENST00000527168	retained_intron	KNOWN	None	23026	None	None	1401955	1413324	1	GNPTAG, C16orf27	CAB56184, c316G12.3
16	GNPTG	ENSG00000090581	ENST00000529110	protein_coding	NOVEL	None	23026	552	183	1401984	1412280	1	GNPTAG, C16orf27	CAB56184, c316G12.3
16	GNPTG	ENSG00000090581	ENST00000527076	retained_intron	KNOWN	None	23026	None	None	1410624	1413351	1	GNPTAG, C16orf27	CAB56184, c316G12.3
17	LHX1	ENSG00000132130	ENST00000559335	processed_transcript	KNOWN	None	6593	None	None	35294084	35295143	1	None	LIM-1, LIM1
17	LHX1	ENSG00000132130	ENST00000254457	protein_coding	KNOWN	CCDS11316	6593	1221	406	35294084	35301917	1	None	LIM-1, LIM1
17	LHX1	ENSG00000132130	ENST00000557970	retained_intron	KNOWN	None	6593	None	None	35294932	35298828	1	None	LIM-1, LIM1
17	LHX1	ENSG00000132130	ENST00000559572	retained_intron	KNOWN	None	6593	None	None	35295757	35298691	1	None	LIM-1, LIM1
17	LHX1	ENSG00000132130	ENST00000589584	processed_transcript	KNOWN	None	6593	None	None	35299595	35300984	1	None	LIM-1, LIM1
7	NUDCD3	ENSG00000015676	ENST00000355451	protein_coding	KNOWN	CCDS5490	22208	1086	361	44421969	44530479	-1	None	KIAA1068
7	NUDCD3	ENSG00000015676	ENST00000487118	processed_transcript	PUTATIVE	None	22208	None	None	44423190	44442388	-1	None	KIAA1068
7	NUDCD3	ENSG00000015676	ENST00000460110	processed_transcript	KNOWN	None	22208	None	None	44423190	44521061	-1	None	KIAA1068
7	NUDCD3	ENSG00000015676	ENST00000475952	retained_intron	KNOWN	None	22208	None	None	44424950	44432107	-1	None	KIAA1068
7	NUDCD3	ENSG00000015676	ENST00000338427	processed_transcript	KNOWN	None	22208	None	None	44425413	44442522	-1	None	KIAA1068
7	NUDCD3	ENSG00000015676	ENST00000493613	processed_transcript	KNOWN	None	22208	None	None	44425492	44465549	-1	None	KIAA1068
7	NUDCD3	ENSG00000015676	ENST00000472246	processed_transcript	KNOWN	None	22208	None	None	44431984	44511559	-1	None	KIAA1068
7	NUDCD3	ENSG00000015676	ENST00000464812	retained_intron	KNOWN	None	22208	None	None	44444112	44530205	-1	None	KIAA1068
7	NUDCD3	ENSG00000015676	ENST00000478769	processed_transcript	KNOWN	None	22208	None	None	44465509	44467240	-1	None	KIAA1068
7	NUDCD3	ENSG00000015676	ENST00000480209	processed_transcript	KNOWN	None	22208	None	None	44524043	44524873	-1	None	KIAA1068
7	NUDCD3	ENSG00000015676	ENST00000497978	processed_transcript	KNOWN	None	22208	None	None	44524668	44529864	-1	None	KIAA1068
9	GLE1	ENSG00000119392	ENST00000309971	protein_coding	KNOWN	CCDS35154	4315	2097	698	131266979	131304567	1	GLE1L, LCCS1	hGLE1
9	GLE1	ENSG00000119392	ENST00000372770	protein_coding	KNOWN	CCDS6904	4315	1980	659	131267010	131302156	1	GLE1L, LCCS1	hGLE1
9	GLE1	ENSG00000119392	ENST00000494417	processed_transcript	KNOWN	None	4315	None	None	131285927	131295928	1	GLE1L, LCCS1	hGLE1
9	GLE1	ENSG00000119392	ENST00000539582	protein_coding	KNOWN	None	4315	1335	444	131267085	131303743	1	GLE1L, LCCS1	hGLE1
8	SDR16C5	ENSG00000170786	ENST00000396721	protein_coding	KNOWN	None	30311	798	265	57212569	57232734	-1	None	RDHE2, RDH-E2
8	SDR16C5	ENSG00000170786	ENST00000303749	protein_coding	KNOWN	CCDS6167	30311	930	309	57213767	57233241	-1	None	RDHE2, RDH-E2
8	SDR16C5	ENSG00000170786	ENST00000522671	protein_coding	PUTATIVE	None	30311	957	318	57213860	57233335	-1	None	RDHE2, RDH-E2
6	C6orf99	ENSG00000203711	ENST00000367073	protein_coding	KNOWN	None	21179	609	202	159290954	159331385	1	None	yR211F11.1
6	C6orf99	ENSG00000203711	ENST00000367072	protein_coding	KNOWN	CCDS55073	21179	378	125	159290971	159331289	1	None	yR211F11.1
6	C6orf99	ENSG00000203711	ENST00000486232	processed_transcript	KNOWN	None	21179	None	None	159329869	159331268	1	None	yR211F11.1
HSCHR6_MHC_COX	HSPA1A	ENSG00000237724	ENST00000441618	protein_coding	KNOWN	None	5232	1926	641	31770617	31773099	1	HSPA1	HSP70-1
HSCHR6_MHC_COX	HSPA1A	ENSG00000237724	ENST00000449876	protein_coding	KNOWN	None	5232	1431	476	31770696	31773099	1	HSPA1	HSP70-1
12	GPD1	ENSG00000167588	ENST00000301149	protein_coding	KNOWN	CCDS8799	4455	1050	349	50497602	50505102	1	None	None
12	GPD1	ENSG00000167588	ENST00000547964	nonsense_mediated_decay	KNOWN	None	4455	153	50	50497765	50500170	1	None	None
12	GPD1	ENSG00000167588	ENST00000551939	retained_intron	KNOWN	None	4455	None	None	50497791	50499825	1	None	None
12	GPD1	ENSG00000167588	ENST00000547190	processed_transcript	KNOWN	None	4455	None	None	50497791	50501891	1	None	None
12	GPD1	ENSG00000167588	ENST00000548814	protein_coding	NOVEL	CCDS58229	4455	981	326	50497791	50503869	1	None	None
12	GPD1	ENSG00000167588	ENST00000548152	processed_transcript	KNOWN	None	4455	None	None	50498130	50501296	1	None	None
12	GPD1	ENSG00000167588	ENST00000550172	retained_intron	KNOWN	None	4455	None	None	50498929	50500699	1	None	None
X	RAB39B	ENSG00000155961	ENST00000369454	protein_coding	KNOWN	CCDS14766	16499	642	213	154487526	154493874	-1	None	None
8	PENK	ENSG00000181195	ENST00000517415	protein_coding	PUTATIVE	None	8831	267	88	57349233	57358503	-1	None	None
8	PENK	ENSG00000181195	ENST00000520589	processed_transcript	KNOWN	None	8831	None	None	57349274	57351069	-1	None	None
8	PENK	ENSG00000181195	ENST00000314922	protein_coding	KNOWN	CCDS6168	8831	804	267	57353513	57358589	-1	None	None
8	PENK	ENSG00000181195	ENST00000451791	protein_coding	KNOWN	CCDS6168	8831	804	267	57353831	57359293	-1	None	None
8	PENK	ENSG00000181195	ENST00000523274	processed_transcript	KNOWN	None	8831	None	None	57353951	57358207	-1	None	None
8	PENK	ENSG00000181195	ENST00000518974	protein_coding	KNOWN	None	8831	317	104	57354318	57359131	-1	None	None
8	PENK	ENSG00000181195	ENST00000523051	protein_coding	PUTATIVE	None	8831	240	79	57356077	57359200	-1	None	None
8	PENK	ENSG00000181195	ENST00000518770	protein_coding	PUTATIVE	None	8831	279	92	57357804	57359222	-1	None	None
8	PENK	ENSG00000181195	ENST00000521153	retained_intron	KNOWN	None	8831	None	None	57358565	57359230	-1	None	None
7	PRKRIP1	ENSG00000128563	ENST00000477886	processed_transcript	KNOWN	None	21894	None	None	102004319	102045072	1	None	C114, FLJ13902, KRBOX3
7	PRKRIP1	ENSG00000128563	ENST00000469763	processed_transcript	KNOWN	None	21894	None	None	102004341	102065893	1	None	C114, FLJ13902, KRBOX3
7	PRKRIP1	ENSG00000128563	ENST00000482549	processed_transcript	KNOWN	None	21894	None	None	102004342	102065896	1	None	C114, FLJ13902, KRBOX3
7	PRKRIP1	ENSG00000128563	ENST00000496391	protein_coding	KNOWN	CCDS34714	21894	555	184	102004344	102067123	1	None	C114, FLJ13902, KRBOX3
7	PRKRIP1	ENSG00000128563	ENST00000482465	processed_transcript	KNOWN	None	21894	None	None	102006489	102067113	1	None	C114, FLJ13902, KRBOX3
7	PRKRIP1	ENSG00000128563	ENST00000462601	protein_coding	PUTATIVE	None	21894	384	127	102016666	102065988	1	None	C114, FLJ13902, KRBOX3
7	PRKRIP1	ENSG00000128563	ENST00000397912	protein_coding	KNOWN	CCDS34714	21894	555	184	102036810	102067113	1	None	C114, FLJ13902, KRBOX3
7	PRKRIP1	ENSG00000128563	ENST00000468316	retained_intron	KNOWN	None	21894	None	None	102044804	102067113	1	None	C114, FLJ13902, KRBOX3
7	PRKRIP1	ENSG00000128563	ENST00000354783	protein_coding	KNOWN	None	21894	474	157	102036882	102065995	1	None	C114, FLJ13902, KRBOX3
14	None	ENSG00000258928	ENST00000556834	protein_coding	PUTATIVE	None	None	186	61	52382863	52385289	-1	None	None
14	None	ENSG00000267802	ENST00000597846	protein_coding	NOVEL	None	None	234	77	52436014	52436247	-1	None	None
14	C14orf166	ENSG00000087302	ENST00000261700	protein_coding	KNOWN	CCDS9705	23169	735	244	52456193	52471414	1	None	CGI-99, RLLM1, CLE, CLE7, LCRP369
14	C14orf166	ENSG00000087302	ENST00000557553	nonsense_mediated_decay	KNOWN	None	23169	207	68	52456232	52468584	1	None	CGI-99, RLLM1, CLE, CLE7, LCRP369
14	C14orf166	ENSG00000087302	ENST00000556760	protein_coding	PUTATIVE	None	23169	582	193	52456333	52471371	1	None	CGI-99, RLLM1, CLE, CLE7, LCRP369
14	C14orf166	ENSG00000087302	ENST00000553362	protein_coding	PUTATIVE	None	23169	390	129	52460444	52471420	1	None	CGI-99, RLLM1, CLE, CLE7, LCRP369
14	C14orf166	ENSG00000087302	ENST00000553707	retained_intron	KNOWN	None	23169	None	None	52464643	52466591	1	None	CGI-99, RLLM1, CLE, CLE7, LCRP369
14	C14orf166	ENSG00000087302	ENST00000555319	retained_intron	KNOWN	None	23169	None	None	52466056	52468634	1	None	CGI-99, RLLM1, CLE, CLE7, LCRP369
14	C14orf166	ENSG00000087302	ENST00000553479	retained_intron	KNOWN	None	23169	None	None	52470730	52471410	1	None	CGI-99, RLLM1, CLE, CLE7, LCRP369
6	RSPH3	ENSG00000130363	ENST00000367069	protein_coding	KNOWN	None	21054	1257	418	159393903	159421219	-1	RSHL2	dJ111C20.1, RSP3
6	RSPH3	ENSG00000130363	ENST00000607398	processed_transcript	PUTATIVE	None	21054	None	None	159396423	159397874	-1	RSHL2	dJ111C20.1, RSP3
6	RSPH3	ENSG00000130363	ENST00000449822	protein_coding	KNOWN	None	21054	969	322	159397866	159420813	-1	RSHL2	dJ111C20.1, RSP3
6	RSPH3	ENSG00000130363	ENST00000252655	protein_coding	KNOWN	CCDS5260	21054	1683	560	159398268	159421198	-1	RSHL2	dJ111C20.1, RSP3
6	RSPH3	ENSG00000130363	ENST00000297262	protein_coding	KNOWN	None	21054	1395	464	159398268	159421198	-1	RSHL2	dJ111C20.1, RSP3
19	ZNF540	ENSG00000171817	ENST00000592533	protein_coding	KNOWN	CCDS12506	25331	1983	660	38042308	38104996	1	None	DKFZp547B0714
19	ZNF540	ENSG00000171817	ENST00000589117	protein_coding	KNOWN	CCDS54258	25331	1887	628	38085731	38104288	1	None	DKFZp547B0714
19	ZNF540	ENSG00000171817	ENST00000587220	processed_transcript	KNOWN	None	25331	None	None	38085777	38092058	1	None	DKFZp547B0714
19	ZNF540	ENSG00000171817	ENST00000589857	processed_transcript	KNOWN	None	25331	None	None	38085777	38102591	1	None	DKFZp547B0714
19	ZNF540	ENSG00000171817	ENST00000316433	protein_coding	KNOWN	CCDS12506	25331	1983	660	38085787	38104998	1	None	DKFZp547B0714
19	ZNF540	ENSG00000171817	ENST00000590588	protein_coding	NOVEL	None	25331	300	99	38085806	38102478	1	None	DKFZp547B0714
19	ZNF540	ENSG00000171817	ENST00000586134	protein_coding	KNOWN	None	25331	1656	551	38085810	38103837	1	None	DKFZp547B0714
19	ZNF540	ENSG00000171817	ENST00000586792	protein_coding	PUTATIVE	None	25331	90	29	38085874	38102773	1	None	DKFZp547B0714
19	ZNF540	ENSG00000171817	ENST00000343599	protein_coding	KNOWN	CCDS12506	25331	1983	660	38086154	38104996	1	None	DKFZp547B0714
19	ZNF540	ENSG00000171817	ENST00000589285	retained_intron	KNOWN	None	25331	None	None	38101889	38104994	1	None	DKFZp547B0714
15	UNC45A	ENSG00000140553	ENST00000480470	processed_transcript	KNOWN	None	30594	None	None	91473410	91478190	1	None	SMAP-1, GC-UNC45
15	UNC45A	ENSG00000140553	ENST00000461266	processed_transcript	KNOWN	None	30594	None	None	91473410	91478351	1	None	SMAP-1, GC-UNC45
15	UNC45A	ENSG00000140553	ENST00000394275	protein_coding	KNOWN	CCDS42082	30594	2790	929	91473410	91497323	1	None	SMAP-1, GC-UNC45
15	UNC45A	ENSG00000140553	ENST00000556319	processed_transcript	KNOWN	None	30594	None	None	91473448	91474809	1	None	SMAP-1, GC-UNC45
15	UNC45A	ENSG00000140553	ENST00000495068	retained_intron	KNOWN	None	30594	None	None	91478515	91479685	1	None	SMAP-1, GC-UNC45
15	UNC45A	ENSG00000140553	ENST00000497152	retained_intron	KNOWN	None	30594	None	None	91478515	91483007	1	None	SMAP-1, GC-UNC45
15	UNC45A	ENSG00000140553	ENST00000553671	processed_transcript	KNOWN	None	30594	None	None	91478515	91486314	1	None	SMAP-1, GC-UNC45
15	UNC45A	ENSG00000140553	ENST00000557212	retained_intron	KNOWN	None	30594	None	None	91478515	91486319	1	None	SMAP-1, GC-UNC45
15	UNC45A	ENSG00000140553	ENST00000418476	protein_coding	KNOWN	CCDS10367	30594	2835	944	91478515	91497323	1	None	SMAP-1, GC-UNC45
15	UNC45A	ENSG00000140553	ENST00000486253	retained_intron	KNOWN	None	30594	None	None	91478540	91484206	1	None	SMAP-1, GC-UNC45
15	UNC45A	ENSG00000140553	ENST00000556482	processed_transcript	KNOWN	None	30594	None	None	91478654	91483047	1	None	SMAP-1, GC-UNC45
15	UNC45A	ENSG00000140553	ENST00000556704	retained_intron	KNOWN	None	30594	None	None	91485673	91491785	1	None	SMAP-1, GC-UNC45
15	UNC45A	ENSG00000140553	ENST00000554481	retained_intron	KNOWN	None	30594	None	None	91488266	91490368	1	None	SMAP-1, GC-UNC45
15	UNC45A	ENSG00000140553	ENST00000487875	retained_intron	KNOWN	None	30594	None	None	91490467	91497323	1	None	SMAP-1, GC-UNC45
15	UNC45A	ENSG00000140553	ENST00000471780	retained_intron	KNOWN	None	30594	None	None	91492583	91497323	1	None	SMAP-1, GC-UNC45
2	ATIC	ENSG00000138363	ENST00000236959	protein_coding	KNOWN	CCDS2398	794	1779	592	216176540	216214486	1	None	PURH, AICARFT, IMPCHASE
2	ATIC	ENSG00000138363	ENST00000444305	nonsense_mediated_decay	KNOWN	None	794	255	84	216176679	216190779	1	None	PURH, AICARFT, IMPCHASE
2	ATIC	ENSG00000138363	ENST00000488712	retained_intron	KNOWN	None	794	None	None	216176715	216190862	1	None	PURH, AICARFT, IMPCHASE
2	ATIC	ENSG00000138363	ENST00000443953	nonsense_mediated_decay	KNOWN	None	794	132	43	216176795	216214486	1	None	PURH, AICARFT, IMPCHASE
2	ATIC	ENSG00000138363	ENST00000435675	protein_coding	NOVEL	None	794	1776	591	216176814	216214486	1	None	PURH, AICARFT, IMPCHASE
2	ATIC	ENSG00000138363	ENST00000427397	nonsense_mediated_decay	KNOWN	None	794	132	43	216176853	216199727	1	None	PURH, AICARFT, IMPCHASE
2	ATIC	ENSG00000138363	ENST00000413174	protein_coding	PUTATIVE	None	794	511	169	216177221	216191701	1	None	PURH, AICARFT, IMPCHASE
2	ATIC	ENSG00000138363	ENST00000446622	protein_coding	PUTATIVE	None	794	601	199	216199640	216212375	1	None	PURH, AICARFT, IMPCHASE
2	ATIC	ENSG00000138363	ENST00000426233	protein_coding	PUTATIVE	None	794	694	230	216200745	216214021	1	None	PURH, AICARFT, IMPCHASE
2	ATIC	ENSG00000138363	ENST00000479093	retained_intron	KNOWN	None	794	None	None	216203489	216214456	1	None	PURH, AICARFT, IMPCHASE
2	ATIC	ENSG00000138363	ENST00000467388	retained_intron	KNOWN	None	794	None	None	216203492	216211963	1	None	PURH, AICARFT, IMPCHASE
2	ATIC	ENSG00000138363	ENST00000459796	retained_intron	KNOWN	None	794	None	None	216203593	216210310	1	None	PURH, AICARFT, IMPCHASE
2	ATIC	ENSG00000138363	ENST00000442048	protein_coding	PUTATIVE	None	794	324	107	216213407	216214487	1	None	PURH, AICARFT, IMPCHASE
2	ATIC	ENSG00000138363	ENST00000478734	retained_intron	KNOWN	None	794	None	None	216213708	216214479	1	None	PURH, AICARFT, IMPCHASE
2	ATIC	ENSG00000138363	ENST00000540518	protein_coding	KNOWN	None	794	1602	533	216176795	216214486	1	None	PURH, AICARFT, IMPCHASE
16	ERN2	ENSG00000134398	ENST00000457008	protein_coding	NOVEL	None	16942	2625	874	23701647	23724547	-1	None	IRE1b
16	ERN2	ENSG00000134398	ENST00000256797	protein_coding	KNOWN	CCDS32407	16942	2925	974	23701697	23724821	-1	None	IRE1b
16	ERN2	ENSG00000134398	ENST00000562458	protein_coding	PUTATIVE	None	16942	566	187	23701959	23706081	-1	None	IRE1b
16	ERN2	ENSG00000134398	ENST00000562562	nonsense_mediated_decay	KNOWN	None	16942	390	129	23706175	23724543	-1	None	IRE1b
16	ERN2	ENSG00000134398	ENST00000566565	retained_intron	KNOWN	None	16942	None	None	23717541	23718175	-1	None	IRE1b
16	ERN2	ENSG00000134398	ENST00000561478	retained_intron	KNOWN	None	16942	None	None	23718128	23718684	-1	None	IRE1b
16	ERN2	ENSG00000134398	ENST00000569903	nonsense_mediated_decay	KNOWN	None	16942	243	80	23720925	23724531	-1	None	IRE1b
8	IMPAD1	ENSG00000104331	ENST00000262644	protein_coding	KNOWN	CCDS6169	26019	1080	359	57870492	57906403	-1	None	FLJ20421, IMPA3, gPAPP
8	IMPAD1	ENSG00000104331	ENST00000520392	nonsense_mediated_decay	KNOWN	None	26019	248	81	57876485	57892671	-1	None	FLJ20421, IMPA3, gPAPP
8	IMPAD1	ENSG00000104331	ENST00000517461	protein_coding	PUTATIVE	None	26019	249	82	57876692	57905919	-1	None	FLJ20421, IMPA3, gPAPP
12	COX14	ENSG00000178449	ENST00000550487	protein_coding	KNOWN	CCDS8800	28216	174	57	50505762	50514234	1	C12orf62	MGC14288
12	COX14	ENSG00000178449	ENST00000317943	protein_coding	KNOWN	CCDS8800	28216	174	57	50505865	50514234	1	C12orf62	MGC14288
12	COX14	ENSG00000178449	ENST00000550654	protein_coding	KNOWN	CCDS8800	28216	174	57	50505987	50514240	1	C12orf62	MGC14288
12	COX14	ENSG00000178449	ENST00000548985	protein_coding	KNOWN	CCDS8800	28216	174	57	50506020	50514234	1	C12orf62	MGC14288
4	HTRA3	ENSG00000170801	ENST00000307358	protein_coding	KNOWN	CCDS3400	30406	1362	453	8271492	8308838	1	None	Tasp, Prsp
4	HTRA3	ENSG00000170801	ENST00000382512	protein_coding	KNOWN	None	30406	1074	357	8271504	8298201	1	None	Tasp, Prsp
3	SEC61A1	ENSG00000058262	ENST00000464451	protein_coding	NOVEL	None	18276	1449	482	127770484	127788682	1	None	None
3	SEC61A1	ENSG00000058262	ENST00000243253	protein_coding	KNOWN	CCDS3046	18276	1431	476	127771212	127790525	1	None	None
3	SEC61A1	ENSG00000058262	ENST00000481210	protein_coding	PUTATIVE	None	18276	303	100	127771269	127779054	1	None	None
3	SEC61A1	ENSG00000058262	ENST00000491668	retained_intron	KNOWN	None	18276	None	None	127771332	127774593	1	None	None
3	SEC61A1	ENSG00000058262	ENST00000424880	protein_coding	KNOWN	None	18276	1071	356	127771602	127790520	1	None	None
3	SEC61A1	ENSG00000058262	ENST00000483956	processed_transcript	KNOWN	None	18276	None	None	127783742	127790526	1	None	None
3	SEC61A1	ENSG00000058262	ENST00000498837	processed_transcript	KNOWN	None	18276	None	None	127786624	127788594	1	None	None
9	CBWD1	ENSG00000172785	ENST00000356521	protein_coding	KNOWN	CCDS6438	17134	1188	395	121041	179058	-1	None	None
9	CBWD1	ENSG00000172785	ENST00000475990	processed_transcript	KNOWN	None	17134	None	None	121052	146140	-1	None	None
9	CBWD1	ENSG00000172785	ENST00000382447	protein_coding	KNOWN	CCDS47947	17134	1131	376	121409	179021	-1	None	None
9	CBWD1	ENSG00000172785	ENST00000487575	processed_transcript	KNOWN	None	17134	None	None	121410	166599	-1	None	None
9	CBWD1	ENSG00000172785	ENST00000314367	protein_coding	KNOWN	CCDS47948	17134	1080	359	121410	179028	-1	None	None
9	CBWD1	ENSG00000172785	ENST00000465014	processed_transcript	KNOWN	None	17134	None	None	121410	188979	-1	None	None
9	CBWD1	ENSG00000172785	ENST00000464198	processed_transcript	KNOWN	None	17134	None	None	121411	123747	-1	None	None
9	CBWD1	ENSG00000172785	ENST00000495302	processed_transcript	KNOWN	None	17134	None	None	121418	167605	-1	None	None
9	CBWD1	ENSG00000172785	ENST00000462513	processed_transcript	KNOWN	None	17134	None	None	121503	146154	-1	None	None
9	CBWD1	ENSG00000172785	ENST00000475411	processed_transcript	KNOWN	None	17134	None	None	121971	149446	-1	None	None
9	CBWD1	ENSG00000172785	ENST00000498044	processed_transcript	KNOWN	None	17134	None	None	146114	172172	-1	None	None
9	CBWD1	ENSG00000172785	ENST00000489272	retained_intron	KNOWN	None	17134	None	None	151745	161647	-1	None	None
9	CBWD1	ENSG00000172785	ENST00000377447	protein_coding	KNOWN	None	17134	753	250	153634	179025	-1	None	None
9	CBWD1	ENSG00000172785	ENST00000431099	protein_coding	KNOWN	None	17134	441	146	160088	179018	-1	None	None
9	CBWD1	ENSG00000172785	ENST00000483817	retained_intron	KNOWN	None	17134	None	None	171596	173366	-1	None	None
9	CBWD1	ENSG00000172785	ENST00000382393	protein_coding	KNOWN	None	17134	342	113	171953	179058	-1	None	None
9	CBWD1	ENSG00000172785	ENST00000382389	protein_coding	KNOWN	None	17134	234	77	172945	179023	-1	None	None
9	CBWD1	ENSG00000172785	ENST00000377400	protein_coding	KNOWN	None	17134	1044	347	121042	179072	-1	None	None
X	CLIC2	ENSG00000155962	ENST00000369449	protein_coding	KNOWN	CCDS14767	2063	744	247	154505500	154563955	-1	None	XAP121
X	CLIC2	ENSG00000155962	ENST00000465553	processed_transcript	KNOWN	None	2063	None	None	154507269	154563851	-1	None	XAP121
X	CLIC2	ENSG00000155962	ENST00000321926	protein_coding	NOVEL	None	2063	399	132	154508495	154563966	-1	None	XAP121
X	CLIC2	ENSG00000155962	ENST00000491205	processed_transcript	KNOWN	None	2063	None	None	154508558	154563736	-1	None	XAP121
7	NPC1L1	ENSG00000015520	ENST00000289547	protein_coding	KNOWN	CCDS5491	7898	4080	1359	44552134	44580914	-1	None	None
7	NPC1L1	ENSG00000015520	ENST00000381160	protein_coding	KNOWN	CCDS43575	7898	3999	1332	44552960	44580914	-1	None	None
7	NPC1L1	ENSG00000015520	ENST00000423141	protein_coding	PUTATIVE	None	7898	2175	724	44572826	44580914	-1	None	None
7	NPC1L1	ENSG00000015520	ENST00000546276	protein_coding	KNOWN	None	7898	3861	1286	44552960	44580912	-1	None	None
11	ARHGEF17	ENSG00000110237	ENST00000263674	protein_coding	KNOWN	CCDS8221	21726	6192	2063	73019334	73080136	1	None	TEM4, KIAA0337, p164-RhoGEF
11	ARHGEF17	ENSG00000110237	ENST00000544519	protein_coding	PUTATIVE	None	21726	579	192	73022610	73058240	1	None	TEM4, KIAA0337, p164-RhoGEF
11	ARHGEF17	ENSG00000110237	ENST00000536170	processed_transcript	PUTATIVE	None	21726	None	None	73054041	73064307	1	None	TEM4, KIAA0337, p164-RhoGEF
11	ARHGEF17	ENSG00000110237	ENST00000537198	retained_intron	KNOWN	None	21726	None	None	73067522	73068137	1	None	TEM4, KIAA0337, p164-RhoGEF
11	ARHGEF17	ENSG00000110237	ENST00000536481	retained_intron	KNOWN	None	21726	None	None	73075259	73076167	1	None	TEM4, KIAA0337, p164-RhoGEF
11	ARHGEF17	ENSG00000110237	ENST00000543530	retained_intron	KNOWN	None	21726	None	None	73076270	73078988	1	None	TEM4, KIAA0337, p164-RhoGEF
4	PIGY	ENSG00000255072	ENST00000527353	protein_coding	KNOWN	CCDS54778	28213	216	71	89442724	89442940	-1	None	MGC14156
4	NAP1L5	ENSG00000177432	ENST00000323061	protein_coding	KNOWN	CCDS3632	19968	549	182	89617066	89619386	-1	None	DRLM
6	None	ENSG00000271793	ENST00000503906	nonsense_mediated_decay	KNOWN	None	None	293	96	86267696	86324952	-1	None	None
14	NID2	ENSG00000087303	ENST00000216286	protein_coding	KNOWN	CCDS9706	13389	4128	1375	52471521	52535712	-1	None	None
14	NID2	ENSG00000087303	ENST00000556686	retained_intron	KNOWN	None	13389	None	None	52471934	52474642	-1	None	None
14	NID2	ENSG00000087303	ENST00000555310	retained_intron	KNOWN	None	13389	None	None	52472022	52474824	-1	None	None
14	NID2	ENSG00000087303	ENST00000556572	protein_coding	NOVEL	None	13389	1933	643	52472173	52505670	-1	None	None
14	NID2	ENSG00000087303	ENST00000553297	retained_intron	KNOWN	None	13389	None	None	52474528	52478739	-1	None	None
14	NID2	ENSG00000087303	ENST00000557051	retained_intron	KNOWN	None	13389	None	None	52481050	52486980	-1	None	None
14	NID2	ENSG00000087303	ENST00000554284	retained_intron	KNOWN	None	13389	None	None	52495341	52508829	-1	None	None
14	NID2	ENSG00000087303	ENST00000541773	protein_coding	KNOWN	None	13389	3825	1274	52471521	52535712	-1	None	None
17	AATF	ENSG00000108270	ENST00000225402	protein_coding	KNOWN	CCDS32632	19235	1683	560	35306175	35414171	1	None	DED, CHE-1, CHE1
17	AATF	ENSG00000108270	ENST00000592751	nonsense_mediated_decay	KNOWN	None	19235	168	55	35306319	35345991	1	None	DED, CHE-1, CHE1
17	AATF	ENSG00000108270	ENST00000589579	protein_coding	PUTATIVE	None	19235	465	154	35345957	35378453	1	None	DED, CHE-1, CHE1
17	AATF	ENSG00000108270	ENST00000593084	protein_coding	NOVEL	None	19235	296	97	35348074	35414170	1	None	DED, CHE-1, CHE1
17	AATF	ENSG00000108270	ENST00000588486	retained_intron	KNOWN	None	19235	None	None	35376250	35414171	1	None	DED, CHE-1, CHE1
17	AATF	ENSG00000108270	ENST00000592219	retained_intron	KNOWN	None	19235	None	None	35388662	35414165	1	None	DED, CHE-1, CHE1
17	AATF	ENSG00000108270	ENST00000587618	processed_transcript	PUTATIVE	None	19235	None	None	35408433	35414169	1	None	DED, CHE-1, CHE1
17	AATF	ENSG00000108270	ENST00000590321	processed_transcript	PUTATIVE	None	19235	None	None	35411765	35414158	1	None	DED, CHE-1, CHE1
17	AATF	ENSG00000108270	ENST00000586981	retained_intron	KNOWN	None	19235	None	None	35412127	35414170	1	None	DED, CHE-1, CHE1
X	IDS	ENSG00000010404	ENST00000340855	protein_coding	KNOWN	CCDS14685	5389	1653	550	148558521	148586877	-1	SIDS	None
X	IDS	ENSG00000010404	ENST00000466323	nonsense_mediated_decay	KNOWN	None	5389	939	312	148568662	148586877	-1	SIDS	None
X	IDS	ENSG00000010404	ENST00000370441	protein_coding	KNOWN	CCDS14686	5389	1032	343	148568662	148586877	-1	SIDS	None
X	IDS	ENSG00000010404	ENST00000490775	processed_transcript	KNOWN	None	5389	None	None	148568691	148584918	-1	SIDS	None
X	IDS	ENSG00000010404	ENST00000464251	nonsense_mediated_decay	KNOWN	None	5389	321	106	148568818	148585749	-1	SIDS	None
X	IDS	ENSG00000010404	ENST00000466019	processed_transcript	KNOWN	None	5389	None	None	148577014	148579797	-1	SIDS	None
X	IDS	ENSG00000010404	ENST00000428056	protein_coding	KNOWN	None	5389	540	179	148584190	148586810	-1	SIDS	None
X	IDS	ENSG00000010404	ENST00000521702	protein_coding	KNOWN	None	5389	259	85	148585001	148602635	-1	SIDS	None
X	IDS	ENSG00000010404	ENST00000541269	protein_coding	KNOWN	None	5389	1020	339	148564074	148615470	-1	SIDS	None
X	IDS	ENSG00000010404	ENST00000537071	protein_coding	KNOWN	None	5389	462	153	148563758	148571884	-1	SIDS	None
X	IDS	ENSG00000010404	ENST00000370443	protein_coding	KNOWN	None	5389	939	312	148573139	148586884	-1	SIDS	None
15	THBS1	ENSG00000137801	ENST00000397591	protein_coding	KNOWN	None	11785	282	93	39873280	39874608	1	None	TSP1, THBS, TSP, THBS-1, TSP-1
15	THBS1	ENSG00000137801	ENST00000260356	protein_coding	KNOWN	CCDS32194	11785	3513	1170	39873294	39891667	1	None	TSP1, THBS, TSP, THBS-1, TSP-1
15	THBS1	ENSG00000137801	ENST00000478845	retained_intron	KNOWN	None	11785	None	None	39877836	39880817	1	None	TSP1, THBS, TSP, THBS-1, TSP-1
15	THBS1	ENSG00000137801	ENST00000497720	retained_intron	KNOWN	None	11785	None	None	39879632	39880986	1	None	TSP1, THBS, TSP, THBS-1, TSP-1
15	THBS1	ENSG00000137801	ENST00000466755	retained_intron	KNOWN	None	11785	None	None	39879653	39880673	1	None	TSP1, THBS, TSP, THBS-1, TSP-1
15	THBS1	ENSG00000137801	ENST00000490247	retained_intron	KNOWN	None	11785	None	None	39881049	39882044	1	None	TSP1, THBS, TSP, THBS-1, TSP-1
15	THBS1	ENSG00000137801	ENST00000560894	retained_intron	KNOWN	None	11785	None	None	39883129	39883819	1	None	TSP1, THBS, TSP, THBS-1, TSP-1
15	THBS1	ENSG00000137801	ENST00000484734	retained_intron	KNOWN	None	11785	None	None	39885246	39887730	1	None	TSP1, THBS, TSP, THBS-1, TSP-1
15	THBS1	ENSG00000137801	ENST00000559746	retained_intron	KNOWN	None	11785	None	None	39886269	39887752	1	None	TSP1, THBS, TSP, THBS-1, TSP-1
15	STARD9	ENSG00000159433	ENST00000564158	retained_intron	KNOWN	None	19162	None	None	42867857	42965312	1	None	KIAA1300
15	STARD9	ENSG00000159433	ENST00000290607	protein_coding	KNOWN	CCDS53935	19162	14103	4700	42867857	43013179	1	None	KIAA1300
15	STARD9	ENSG00000159433	ENST00000563872	retained_intron	KNOWN	None	19162	None	None	42867868	42930349	1	None	KIAA1300
15	STARD9	ENSG00000159433	ENST00000568493	retained_intron	KNOWN	None	19162	None	None	42922040	42962248	1	None	KIAA1300
15	STARD9	ENSG00000159433	ENST00000569419	protein_coding	NOVEL	None	19162	666	221	42958005	42973785	1	None	KIAA1300
15	STARD9	ENSG00000159433	ENST00000562139	retained_intron	KNOWN	None	19162	None	None	42967694	42974411	1	None	KIAA1300
15	STARD9	ENSG00000159433	ENST00000562619	nonsense_mediated_decay	KNOWN	None	19162	4761	1586	42981793	43013057	1	None	KIAA1300
7	ORAI2	ENSG00000160991	ENST00000482237	protein_coding	KNOWN	None	21667	91	29	102073553	102079494	1	C7orf19, TMEM142B	CBCIP2, FLJ12474, FLJ14733, H_NH0514P08.8
7	ORAI2	ENSG00000160991	ENST00000495936	protein_coding	KNOWN	None	21667	688	228	102073982	102087422	1	C7orf19, TMEM142B	CBCIP2, FLJ12474, FLJ14733, H_NH0514P08.8
7	ORAI2	ENSG00000160991	ENST00000488996	processed_transcript	KNOWN	None	21667	None	None	102073996	102087495	1	C7orf19, TMEM142B	CBCIP2, FLJ12474, FLJ14733, H_NH0514P08.8
7	ORAI2	ENSG00000160991	ENST00000478730	protein_coding	KNOWN	CCDS5722	21667	765	254	102074017	102089163	1	C7orf19, TMEM142B	CBCIP2, FLJ12474, FLJ14733, H_NH0514P08.8
7	ORAI2	ENSG00000160991	ENST00000468241	protein_coding	KNOWN	None	21667	637	211	102074023	102087371	1	C7orf19, TMEM142B	CBCIP2, FLJ12474, FLJ14733, H_NH0514P08.8
7	ORAI2	ENSG00000160991	ENST00000403646	protein_coding	KNOWN	CCDS5722	21667	765	254	102074023	102089163	1	C7orf19, TMEM142B	CBCIP2, FLJ12474, FLJ14733, H_NH0514P08.8
7	ORAI2	ENSG00000160991	ENST00000498661	protein_coding	KNOWN	None	21667	292	96	102076607	102087026	1	C7orf19, TMEM142B	CBCIP2, FLJ12474, FLJ14733, H_NH0514P08.8
7	ORAI2	ENSG00000160991	ENST00000473939	protein_coding	KNOWN	CCDS5722	21667	765	254	102076746	102089179	1	C7orf19, TMEM142B	CBCIP2, FLJ12474, FLJ14733, H_NH0514P08.8
7	ORAI2	ENSG00000160991	ENST00000356387	protein_coding	KNOWN	CCDS5722	21667	765	254	102073996	102097268	1	C7orf19, TMEM142B	CBCIP2, FLJ12474, FLJ14733, H_NH0514P08.8
8	FAM110B	ENSG00000169122	ENST00000519262	processed_transcript	KNOWN	None	28587	None	None	58907068	59058558	1	C8orf72	MGC39325
8	FAM110B	ENSG00000169122	ENST00000361488	protein_coding	KNOWN	CCDS6170	28587	1113	370	58907113	59061347	1	C8orf72	MGC39325
8	FAM110B	ENSG00000169122	ENST00000520369	processed_transcript	KNOWN	None	28587	None	None	58907127	59116838	1	C8orf72	MGC39325
8	FAM110B	ENSG00000169122	ENST00000522059	processed_transcript	KNOWN	None	28587	None	None	58944175	59058599	1	C8orf72	MGC39325
8	FAM110B	ENSG00000169122	ENST00000518427	processed_transcript	KNOWN	None	28587	None	None	58982766	58988182	1	C8orf72	MGC39325
8	FAM110B	ENSG00000169122	ENST00000523486	processed_transcript	KNOWN	None	28587	None	None	58982786	59110651	1	C8orf72	MGC39325
8	FAM110B	ENSG00000169122	ENST00000521413	processed_transcript	KNOWN	None	28587	None	None	58982877	59058596	1	C8orf72	MGC39325
8	UBXN2B	ENSG00000215114	ENST00000399598	protein_coding	KNOWN	CCDS43741	27035	996	331	59323823	59364060	1	None	p37
8	UBXN2B	ENSG00000215114	ENST00000522978	processed_transcript	KNOWN	None	27035	None	None	59323918	59347500	1	None	p37
8	UBXN2B	ENSG00000215114	ENST00000520732	nonsense_mediated_decay	KNOWN	None	27035	315	104	59323940	59358624	1	None	p37
8	UBXN2B	ENSG00000215114	ENST00000523409	nonsense_mediated_decay	KNOWN	None	27035	591	196	59323940	59360243	1	None	p37
8	UBXN2B	ENSG00000215114	ENST00000521796	protein_coding	PUTATIVE	None	27035	427	141	59329489	59347665	1	None	p37
6	TAGAP	ENSG00000164691	ENST00000367066	protein_coding	KNOWN	CCDS5261	15669	2196	731	159455500	159466184	-1	None	FLJ32631, IDDM21, ARHGAP47
6	TAGAP	ENSG00000164691	ENST00000326965	protein_coding	KNOWN	CCDS5262	15669	1662	553	159456169	159466184	-1	None	FLJ32631, IDDM21, ARHGAP47
6	TAGAP	ENSG00000164691	ENST00000338313	protein_coding	KNOWN	CCDS5263	15669	801	266	159459944	159466050	-1	None	FLJ32631, IDDM21, ARHGAP47
4	FAM13A	ENSG00000138640	ENST00000395002	protein_coding	KNOWN	CCDS58913	19367	2010	669	89647106	89744512	-1	FAM13A1	KIAA0914, ARHGAP48
4	FAM13A	ENSG00000138640	ENST00000264344	protein_coding	KNOWN	CCDS34029	19367	3072	1023	89647106	89978323	-1	FAM13A1	KIAA0914, ARHGAP48
4	FAM13A	ENSG00000138640	ENST00000509478	retained_intron	KNOWN	None	19367	None	None	89648220	89653172	-1	FAM13A1	KIAA0914, ARHGAP48
4	FAM13A	ENSG00000138640	ENST00000511573	retained_intron	KNOWN	None	19367	None	None	89648220	89680620	-1	FAM13A1	KIAA0914, ARHGAP48
4	FAM13A	ENSG00000138640	ENST00000503556	protein_coding	NOVEL	CCDS58912	19367	2052	683	89648577	89744382	-1	FAM13A1	KIAA0914, ARHGAP48
4	FAM13A	ENSG00000138640	ENST00000511976	protein_coding	NOVEL	None	19367	1830	609	89648580	89978311	-1	FAM13A1	KIAA0914, ARHGAP48
4	FAM13A	ENSG00000138640	ENST00000508369	protein_coding	KNOWN	CCDS43251	19367	2094	697	89648806	89744352	-1	FAM13A1	KIAA0914, ARHGAP48
4	FAM13A	ENSG00000138640	ENST00000513837	protein_coding	NOVEL	CCDS58911	19367	2010	669	89649330	89744381	-1	FAM13A1	KIAA0914, ARHGAP48
4	FAM13A	ENSG00000138640	ENST00000506433	processed_transcript	KNOWN	None	19367	None	None	89652480	89657785	-1	FAM13A1	KIAA0914, ARHGAP48
4	FAM13A	ENSG00000138640	ENST00000504229	retained_intron	KNOWN	None	19367	None	None	89652513	89653710	-1	FAM13A1	KIAA0914, ARHGAP48
4	FAM13A	ENSG00000138640	ENST00000502811	retained_intron	KNOWN	None	19367	None	None	89652513	89653710	-1	FAM13A1	KIAA0914, ARHGAP48
4	FAM13A	ENSG00000138640	ENST00000504836	nonsense_mediated_decay	KNOWN	None	19367	561	186	89652549	89744409	-1	FAM13A1	KIAA0914, ARHGAP48
4	FAM13A	ENSG00000138640	ENST00000508360	retained_intron	KNOWN	None	19367	None	None	89652984	89671018	-1	FAM13A1	KIAA0914, ARHGAP48
4	FAM13A	ENSG00000138640	ENST00000511623	retained_intron	KNOWN	None	19367	None	None	89653273	89658790	-1	FAM13A1	KIAA0914, ARHGAP48
4	FAM13A	ENSG00000138640	ENST00000507352	nonsense_mediated_decay	KNOWN	None	19367	492	163	89670103	89744355	-1	FAM13A1	KIAA0914, ARHGAP48
4	FAM13A	ENSG00000138640	ENST00000515155	retained_intron	KNOWN	None	19367	None	None	89671597	89680317	-1	FAM13A1	KIAA0914, ARHGAP48
4	FAM13A	ENSG00000138640	ENST00000502914	retained_intron	KNOWN	None	19367	None	None	89679941	89689565	-1	FAM13A1	KIAA0914, ARHGAP48
4	FAM13A	ENSG00000138640	ENST00000502459	processed_transcript	KNOWN	None	19367	None	None	89689134	90032549	-1	FAM13A1	KIAA0914, ARHGAP48
4	FAM13A	ENSG00000138640	ENST00000512339	nonsense_mediated_decay	KNOWN	None	19367	453	150	89776518	89978301	-1	FAM13A1	KIAA0914, ARHGAP48
4	FAM13A	ENSG00000138640	ENST00000511145	processed_transcript	KNOWN	None	19367	None	None	89776661	89857573	-1	FAM13A1	KIAA0914, ARHGAP48
4	FAM13A	ENSG00000138640	ENST00000509094	protein_coding	PUTATIVE	None	19367	834	277	89857434	89978313	-1	FAM13A1	KIAA0914, ARHGAP48
4	FAM13A	ENSG00000138640	ENST00000515600	protein_coding	PUTATIVE	None	19367	609	202	89910775	89978496	-1	FAM13A1	KIAA0914, ARHGAP48
4	FAM13A	ENSG00000138640	ENST00000506913	protein_coding	PUTATIVE	None	19367	387	128	89941681	89951051	-1	FAM13A1	KIAA0914, ARHGAP48
5	RANBP17	ENSG00000204764	ENST00000443155	retained_intron	KNOWN	None	14428	None	None	170288874	170338413	1	None	None
5	RANBP17	ENSG00000204764	ENST00000523189	protein_coding	KNOWN	CCDS34287	14428	3267	1088	170288874	170727019	1	None	None
5	RANBP17	ENSG00000204764	ENST00000389118	nonsense_mediated_decay	KNOWN	None	14428	1731	576	170288936	170725862	1	None	None
5	RANBP17	ENSG00000204764	ENST00000519256	nonsense_mediated_decay	KNOWN	None	14428	1731	576	170289022	170670068	1	None	None
5	RANBP17	ENSG00000204764	ENST00000522533	nonsense_mediated_decay	KNOWN	None	14428	1731	576	170289022	170727019	1	None	None
5	RANBP17	ENSG00000204764	ENST00000522066	nonsense_mediated_decay	KNOWN	None	14428	1743	580	170289022	170727019	1	None	None
5	RANBP17	ENSG00000204764	ENST00000519949	nonsense_mediated_decay	KNOWN	None	14428	1731	576	170289022	170727019	1	None	None
5	RANBP17	ENSG00000204764	ENST00000519130	retained_intron	KNOWN	None	14428	None	None	170289027	170338346	1	None	None
5	RANBP17	ENSG00000204764	ENST00000520864	nonsense_mediated_decay	KNOWN	None	14428	1664	553	170289039	170634907	1	None	None
5	RANBP17	ENSG00000204764	ENST00000519944	protein_coding	PUTATIVE	None	14428	114	37	170290490	170319494	1	None	None
5	RANBP17	ENSG00000204764	ENST00000523727	retained_intron	KNOWN	None	14428	None	None	170308843	170323242	1	None	None
5	RANBP17	ENSG00000204764	ENST00000522734	protein_coding	NOVEL	None	14428	525	174	170338032	170351411	1	None	None
5	RANBP17	ENSG00000204764	ENST00000520879	processed_transcript	KNOWN	None	14428	None	None	170345175	170380672	1	None	None
5	RANBP17	ENSG00000204764	ENST00000522380	processed_transcript	KNOWN	None	14428	None	None	170346455	170397662	1	None	None
5	RANBP17	ENSG00000204764	ENST00000517629	processed_transcript	PUTATIVE	None	14428	None	None	170351360	170351922	1	None	None
5	RANBP17	ENSG00000204764	ENST00000521165	retained_intron	KNOWN	None	14428	None	None	170380625	170395510	1	None	None
5	RANBP17	ENSG00000204764	ENST00000518492	nonsense_mediated_decay	KNOWN	None	14428	143	46	170395260	170456204	1	None	None
5	RANBP17	ENSG00000204764	ENST00000521759	processed_transcript	KNOWN	None	14428	None	None	170570271	170726181	1	None	None
5	RANBP17	ENSG00000204764	ENST00000520586	processed_transcript	KNOWN	None	14428	None	None	170570276	170632611	1	None	None
5	RANBP17	ENSG00000204764	ENST00000523665	processed_transcript	KNOWN	None	14428	None	None	170570316	170632583	1	None	None
5	RANBP17	ENSG00000204764	ENST00000524364	processed_transcript	KNOWN	None	14428	None	None	170570325	170640686	1	None	None
5	RANBP17	ENSG00000204764	ENST00000521834	processed_transcript	KNOWN	None	14428	None	None	170668037	170698623	1	None	None
X	H2AFB2	ENSG00000198307	ENST00000354514	protein_coding	KNOWN	CCDS35461	18298	348	115	154610428	154610944	1	None	None
8	CCDC166	ENSG00000255181	ENST00000533508	protein_coding	PUTATIVE	None	41910	607	201	144789522	144790224	-1	None	None
8	CCDC166	ENSG00000255181	ENST00000542437	protein_coding	KNOWN	CCDS55280	41910	1320	439	144788864	144790279	-1	None	None
12	ZDHHC17	ENSG00000186908	ENST00000426126	protein_coding	KNOWN	CCDS44946	18412	1899	632	77157368	77247476	1	None	HIP14, HYPH, KIAA0946
12	ZDHHC17	ENSG00000186908	ENST00000546778	nonsense_mediated_decay	KNOWN	None	18412	108	35	77157883	77220796	1	None	HIP14, HYPH, KIAA0946
12	ZDHHC17	ENSG00000186908	ENST00000552453	nonsense_mediated_decay	KNOWN	None	18412	605	200	77158024	77220694	1	None	HIP14, HYPH, KIAA0946
12	ZDHHC17	ENSG00000186908	ENST00000547620	nonsense_mediated_decay	KNOWN	None	18412	134	43	77158033	77203622	1	None	HIP14, HYPH, KIAA0946
12	ZDHHC17	ENSG00000186908	ENST00000550876	protein_coding	PUTATIVE	None	18412	483	160	77158034	77220762	1	None	HIP14, HYPH, KIAA0946
12	ZDHHC17	ENSG00000186908	ENST00000551407	nonsense_mediated_decay	KNOWN	None	18412	108	35	77158038	77203530	1	None	HIP14, HYPH, KIAA0946
12	ZDHHC17	ENSG00000186908	ENST00000547604	nonsense_mediated_decay	KNOWN	None	18412	87	28	77158038	77203573	1	None	HIP14, HYPH, KIAA0946
12	ZDHHC17	ENSG00000186908	ENST00000550163	nonsense_mediated_decay	KNOWN	None	18412	145	47	77158078	77216309	1	None	HIP14, HYPH, KIAA0946
12	ZDHHC17	ENSG00000186908	ENST00000549682	protein_coding	PUTATIVE	None	18412	380	125	77158353	77203543	1	None	HIP14, HYPH, KIAA0946
12	ZDHHC17	ENSG00000186908	ENST00000549944	nonsense_mediated_decay	KNOWN	None	18412	467	154	77191299	77216270	1	None	HIP14, HYPH, KIAA0946
12	ZDHHC17	ENSG00000186908	ENST00000549010	processed_transcript	PUTATIVE	None	18412	None	None	77233839	77235870	1	None	HIP14, HYPH, KIAA0946
12	ZDHHC17	ENSG00000186908	ENST00000550789	processed_transcript	KNOWN	None	18412	None	None	77234171	77242140	1	None	HIP14, HYPH, KIAA0946
12	ZDHHC17	ENSG00000186908	ENST00000552693	retained_intron	KNOWN	None	18412	None	None	77237694	77242117	1	None	HIP14, HYPH, KIAA0946
12	ZDHHC17	ENSG00000186908	ENST00000553091	processed_transcript	KNOWN	None	18412	None	None	77238655	77243246	1	None	HIP14, HYPH, KIAA0946
12	ZDHHC17	ENSG00000186908	ENST00000550244	retained_intron	KNOWN	None	18412	None	None	77240071	77245172	1	None	HIP14, HYPH, KIAA0946
12	ZDHHC17	ENSG00000186908	ENST00000547673	retained_intron	KNOWN	None	18412	None	None	77242018	77243449	1	None	HIP14, HYPH, KIAA0946
12	ZDHHC17	ENSG00000186908	ENST00000334822	protein_coding	KNOWN	None	18412	1899	632	77157368	77247474	1	None	HIP14, HYPH, KIAA0946
12	ZDHHC17	ENSG00000186908	ENST00000359019	protein_coding	KNOWN	None	18412	651	216	77157368	77214867	1	None	HIP14, HYPH, KIAA0946
X	F8A2	ENSG00000198444	ENST00000369505	protein_coding	KNOWN	CCDS35462	31849	1116	371	154611749	154613449	1	None	None
X	F8A3	ENSG00000185990	ENST00000369445	protein_coding	KNOWN	CCDS35463	31850	1116	371	154686576	154688276	-1	None	None
8	MAPK15	ENSG00000181085	ENST00000338033	protein_coding	KNOWN	CCDS6409	24667	1635	544	144798429	144804628	1	None	ERK8, ERK7
8	MAPK15	ENSG00000181085	ENST00000484654	retained_intron	KNOWN	None	24667	None	None	144798510	144804628	1	None	ERK8, ERK7
8	MAPK15	ENSG00000181085	ENST00000475376	retained_intron	KNOWN	None	24667	None	None	144798519	144800472	1	None	ERK8, ERK7
8	MAPK15	ENSG00000181085	ENST00000395107	protein_coding	KNOWN	None	24667	834	277	144798548	144802461	1	None	ERK8, ERK7
8	MAPK15	ENSG00000181085	ENST00000395108	protein_coding	KNOWN	None	24667	765	254	144798548	144802761	1	None	ERK8, ERK7
8	MAPK15	ENSG00000181085	ENST00000533830	retained_intron	KNOWN	None	24667	None	None	144802362	144803526	1	None	ERK8, ERK7
8	MAPK15	ENSG00000181085	ENST00000461928	retained_intron	KNOWN	None	24667	None	None	144802868	144804029	1	None	ERK8, ERK7
8	MAPK15	ENSG00000181085	ENST00000528175	retained_intron	KNOWN	None	24667	None	None	144803718	144804302	1	None	ERK8, ERK7
4	ACOX3	ENSG00000087008	ENST00000356406	protein_coding	KNOWN	CCDS3401	121	2103	700	8368009	8442438	-1	None	None
4	ACOX3	ENSG00000087008	ENST00000512411	retained_intron	KNOWN	None	121	None	None	8368439	8375542	-1	None	None
4	ACOX3	ENSG00000087008	ENST00000515797	processed_transcript	KNOWN	None	121	None	None	8368439	8375894	-1	None	None
4	ACOX3	ENSG00000087008	ENST00000413009	protein_coding	KNOWN	CCDS47017	121	1875	624	8368439	8442450	-1	None	None
4	ACOX3	ENSG00000087008	ENST00000503233	protein_coding	KNOWN	CCDS3401	121	2103	700	8368688	8430213	-1	None	None
4	ACOX3	ENSG00000087008	ENST00000510365	retained_intron	KNOWN	None	121	None	None	8376195	8417582	-1	None	None
4	ACOX3	ENSG00000087008	ENST00000508302	processed_transcript	KNOWN	None	121	None	None	8383281	8396618	-1	None	None
4	ACOX3	ENSG00000087008	ENST00000514423	protein_coding	PUTATIVE	None	121	332	109	8412009	8430188	-1	None	None
X	H2AFB3	ENSG00000185978	ENST00000369444	protein_coding	KNOWN	CCDS35464	14455	348	115	154689080	154689596	-1	H2AFB	None
X	TMLHE	ENSG00000185973	ENST00000334398	protein_coding	KNOWN	CCDS14768	18308	1266	421	154719776	154842597	-1	None	TMLH, FLJ10727, BBOX2, XAP130
X	TMLHE	ENSG00000185973	ENST00000449645	processed_transcript	KNOWN	None	18308	None	None	154721110	154722150	-1	None	TMLH, FLJ10727, BBOX2, XAP130
X	TMLHE	ENSG00000185973	ENST00000369439	protein_coding	KNOWN	CCDS55547	18308	1131	376	154722196	154842538	-1	None	TMLH, FLJ10727, BBOX2, XAP130
X	TMLHE	ENSG00000185973	ENST00000487422	processed_transcript	KNOWN	None	18308	None	None	154753932	154774938	-1	None	TMLH, FLJ10727, BBOX2, XAP130
X	TMLHE	ENSG00000185973	ENST00000474677	processed_transcript	KNOWN	None	18308	None	None	154774828	154899605	-1	None	TMLH, FLJ10727, BBOX2, XAP130
X	TMLHE	ENSG00000185973	ENST00000461075	processed_transcript	KNOWN	None	18308	None	None	154841789	154842556	-1	None	TMLH, FLJ10727, BBOX2, XAP130
12	CERS5	ENSG00000139624	ENST00000551697	nonsense_mediated_decay	KNOWN	None	23749	1056	351	50523575	50561085	-1	LASS5	Trh4, MGC45411, FLJ25304
12	CERS5	ENSG00000139624	ENST00000380189	nonsense_mediated_decay	KNOWN	None	23749	588	195	50523581	50561103	-1	LASS5	Trh4, MGC45411, FLJ25304
12	CERS5	ENSG00000139624	ENST00000551005	retained_intron	KNOWN	None	23749	None	None	50523582	50537919	-1	LASS5	Trh4, MGC45411, FLJ25304
12	CERS5	ENSG00000139624	ENST00000547787	nonsense_mediated_decay	KNOWN	None	23749	222	73	50523582	50561086	-1	LASS5	Trh4, MGC45411, FLJ25304
12	CERS5	ENSG00000139624	ENST00000317551	protein_coding	KNOWN	CCDS8801	23749	1179	392	50523608	50561205	-1	LASS5	Trh4, MGC45411, FLJ25304
12	CERS5	ENSG00000139624	ENST00000546406	retained_intron	KNOWN	None	23749	None	None	50523641	50526948	-1	LASS5	Trh4, MGC45411, FLJ25304
12	CERS5	ENSG00000139624	ENST00000550919	protein_coding	NOVEL	None	23749	235	77	50523696	50529796	-1	LASS5	Trh4, MGC45411, FLJ25304
12	CERS5	ENSG00000139624	ENST00000553122	protein_coding	PUTATIVE	None	23749	335	110	50524156	50529575	-1	LASS5	Trh4, MGC45411, FLJ25304
12	CERS5	ENSG00000139624	ENST00000550079	retained_intron	KNOWN	None	23749	None	None	50524196	50528611	-1	LASS5	Trh4, MGC45411, FLJ25304
12	CERS5	ENSG00000139624	ENST00000551757	retained_intron	KNOWN	None	23749	None	None	50526862	50528489	-1	LASS5	Trh4, MGC45411, FLJ25304
12	CERS5	ENSG00000139624	ENST00000548942	processed_transcript	KNOWN	None	23749	None	None	50527568	50529320	-1	LASS5	Trh4, MGC45411, FLJ25304
12	CERS5	ENSG00000139624	ENST00000550547	protein_coding	NOVEL	None	23749	407	134	50528356	50535876	-1	LASS5	Trh4, MGC45411, FLJ25304
12	CERS5	ENSG00000139624	ENST00000438450	nonsense_mediated_decay	KNOWN	None	23749	540	179	50528403	50561176	-1	LASS5	Trh4, MGC45411, FLJ25304
12	CERS5	ENSG00000139624	ENST00000547138	processed_transcript	KNOWN	None	23749	None	None	50529189	50531599	-1	LASS5	Trh4, MGC45411, FLJ25304
12	CERS5	ENSG00000139624	ENST00000546676	retained_intron	KNOWN	None	23749	None	None	50529223	50531576	-1	LASS5	Trh4, MGC45411, FLJ25304
12	CERS5	ENSG00000139624	ENST00000542320	nonsense_mediated_decay	KNOWN	None	23749	588	195	50529302	50561083	-1	LASS5	Trh4, MGC45411, FLJ25304
12	CERS5	ENSG00000139624	ENST00000547800	protein_coding	NOVEL	None	23749	584	193	50529514	50537841	-1	LASS5	Trh4, MGC45411, FLJ25304
12	CERS5	ENSG00000139624	ENST00000549089	retained_intron	KNOWN	None	23749	None	None	50529741	50537155	-1	LASS5	Trh4, MGC45411, FLJ25304
12	CERS5	ENSG00000139624	ENST00000548930	processed_transcript	KNOWN	None	23749	None	None	50535863	50538282	-1	LASS5	Trh4, MGC45411, FLJ25304
12	CERS5	ENSG00000139624	ENST00000551384	retained_intron	KNOWN	None	23749	None	None	50536855	50538154	-1	LASS5	Trh4, MGC45411, FLJ25304
12	CERS5	ENSG00000139624	ENST00000549389	nonsense_mediated_decay	KNOWN	None	23749	282	93	50536857	50561111	-1	LASS5	Trh4, MGC45411, FLJ25304
12	CERS5	ENSG00000139624	ENST00000550258	nonsense_mediated_decay	KNOWN	None	23749	201	66	50536863	50561109	-1	LASS5	Trh4, MGC45411, FLJ25304
12	CERS5	ENSG00000139624	ENST00000547455	nonsense_mediated_decay	KNOWN	None	23749	282	93	50536921	50561152	-1	LASS5	Trh4, MGC45411, FLJ25304
12	CERS5	ENSG00000139624	ENST00000546514	nonsense_mediated_decay	KNOWN	None	23749	234	77	50536948	50561142	-1	LASS5	Trh4, MGC45411, FLJ25304
12	CERS5	ENSG00000139624	ENST00000549942	processed_transcript	KNOWN	None	23749	None	None	50537802	50561288	-1	LASS5	Trh4, MGC45411, FLJ25304
12	CERS5	ENSG00000139624	ENST00000550899	nonsense_mediated_decay	KNOWN	None	23749	234	77	50538132	50561152	-1	LASS5	Trh4, MGC45411, FLJ25304
12	CERS5	ENSG00000139624	ENST00000547852	processed_transcript	KNOWN	None	23749	None	None	50559719	50561083	-1	LASS5	Trh4, MGC45411, FLJ25304
12	CERS5	ENSG00000139624	ENST00000422340	protein_coding	KNOWN	None	23749	1005	334	50524198	50561091	-1	LASS5	Trh4, MGC45411, FLJ25304
11	RELT	ENSG00000054967	ENST00000064780	protein_coding	KNOWN	CCDS8222	13764	1293	430	73087309	73108517	1	TNFRSF19L	FLJ14993
11	RELT	ENSG00000054967	ENST00000545687	protein_coding	KNOWN	None	13764	304	100	73087445	73102205	1	TNFRSF19L	FLJ14993
11	RELT	ENSG00000054967	ENST00000544075	nonsense_mediated_decay	KNOWN	None	13764	312	103	73087453	73105539	1	TNFRSF19L	FLJ14993
11	RELT	ENSG00000054967	ENST00000393580	protein_coding	KNOWN	CCDS8222	13764	1293	430	73087713	73107685	1	TNFRSF19L	FLJ14993
11	RELT	ENSG00000054967	ENST00000545886	retained_intron	KNOWN	None	13764	None	None	73103027	73107689	1	TNFRSF19L	FLJ14993
11	RELT	ENSG00000054967	ENST00000539134	retained_intron	KNOWN	None	13764	None	None	73104289	73108519	1	TNFRSF19L	FLJ14993
11	RELT	ENSG00000054967	ENST00000537771	retained_intron	KNOWN	None	13764	None	None	73104729	73106166	1	TNFRSF19L	FLJ14993
3	RUVBL1	ENSG00000175792	ENST00000585057	nonsense_mediated_decay	KNOWN	None	10474	396	131	127783621	127816339	-1	None	TIP49, NMP238, RVB1, TIP49a, Pontin52, ECP54, TIH1, Rvb1, INO80H
3	RUVBL1	ENSG00000175792	ENST00000472125	protein_coding	PUTATIVE	None	10474	667	221	127783625	127820462	-1	None	TIP49, NMP238, RVB1, TIP49a, Pontin52, ECP54, TIH1, Rvb1, INO80H
3	RUVBL1	ENSG00000175792	ENST00000464873	protein_coding	PUTATIVE	None	10474	948	315	127783628	127872757	-1	None	TIP49, NMP238, RVB1, TIP49a, Pontin52, ECP54, TIH1, Rvb1, INO80H
3	RUVBL1	ENSG00000175792	ENST00000322623	protein_coding	KNOWN	CCDS3047	10474	1371	456	127799803	127842667	-1	None	TIP49, NMP238, RVB1, TIP49a, Pontin52, ECP54, TIH1, Rvb1, INO80H
3	RUVBL1	ENSG00000175792	ENST00000582176	retained_intron	KNOWN	None	10474	None	None	127799804	127803865	-1	None	TIP49, NMP238, RVB1, TIP49a, Pontin52, ECP54, TIH1, Rvb1, INO80H
3	RUVBL1	ENSG00000175792	ENST00000478892	protein_coding	NOVEL	None	10474	804	267	127800025	127819587	-1	None	TIP49, NMP238, RVB1, TIP49a, Pontin52, ECP54, TIH1, Rvb1, INO80H
3	RUVBL1	ENSG00000175792	ENST00000480616	processed_transcript	KNOWN	None	10474	None	None	127802445	127806638	-1	None	TIP49, NMP238, RVB1, TIP49a, Pontin52, ECP54, TIH1, Rvb1, INO80H
3	RUVBL1	ENSG00000175792	ENST00000478243	processed_transcript	KNOWN	None	10474	None	None	127803686	127806654	-1	None	TIP49, NMP238, RVB1, TIP49a, Pontin52, ECP54, TIH1, Rvb1, INO80H
3	RUVBL1	ENSG00000175792	ENST00000417360	protein_coding	KNOWN	None	10474	1161	386	127799807	127842643	-1	None	TIP49, NMP238, RVB1, TIP49a, Pontin52, ECP54, TIH1, Rvb1, INO80H
16	UNKL	ENSG00000059145	ENST00000248104	protein_coding	KNOWN	None	14184	690	229	1413207	1429646	-1	C16orf28	ZC3HDC5L, ZC3H5L, FLJ23360
16	UNKL	ENSG00000059145	ENST00000562537	processed_transcript	PUTATIVE	None	14184	None	None	1414175	1416149	-1	C16orf28	ZC3HDC5L, ZC3H5L, FLJ23360
16	UNKL	ENSG00000059145	ENST00000397464	protein_coding	KNOWN	CCDS53980	14184	549	182	1415000	1429684	-1	C16orf28	ZC3HDC5L, ZC3H5L, FLJ23360
16	UNKL	ENSG00000059145	ENST00000508903	protein_coding	NOVEL	None	14184	2202	733	1415013	1464692	-1	C16orf28	ZC3HDC5L, ZC3H5L, FLJ23360
16	UNKL	ENSG00000059145	ENST00000402641	protein_coding	KNOWN	CCDS10437	14184	699	232	1415666	1429687	-1	C16orf28	ZC3HDC5L, ZC3H5L, FLJ23360
16	UNKL	ENSG00000059145	ENST00000511095	retained_intron	KNOWN	None	14184	None	None	1416279	1418204	-1	C16orf28	ZC3HDC5L, ZC3H5L, FLJ23360
16	UNKL	ENSG00000059145	ENST00000513783	protein_coding	KNOWN	None	14184	228	75	1417714	1429122	-1	C16orf28	ZC3HDC5L, ZC3H5L, FLJ23360
16	UNKL	ENSG00000059145	ENST00000515195	processed_transcript	KNOWN	None	14184	None	None	1420234	1429177	-1	C16orf28	ZC3HDC5L, ZC3H5L, FLJ23360
16	UNKL	ENSG00000059145	ENST00000382757	nonsense_mediated_decay	KNOWN	None	14184	351	116	1444132	1464698	-1	C16orf28	ZC3HDC5L, ZC3H5L, FLJ23360
16	UNKL	ENSG00000059145	ENST00000509981	retained_intron	KNOWN	None	14184	None	None	1447046	1449509	-1	C16orf28	ZC3HDC5L, ZC3H5L, FLJ23360
16	UNKL	ENSG00000059145	ENST00000301712	protein_coding	KNOWN	CCDS32359	14184	834	277	1448306	1464752	-1	C16orf28	ZC3HDC5L, ZC3H5L, FLJ23360
16	UNKL	ENSG00000059145	ENST00000502438	retained_intron	KNOWN	None	14184	None	None	1449141	1453191	-1	C16orf28	ZC3HDC5L, ZC3H5L, FLJ23360
16	UNKL	ENSG00000059145	ENST00000503648	processed_transcript	KNOWN	None	14184	None	None	1451338	1464696	-1	C16orf28	ZC3HDC5L, ZC3H5L, FLJ23360
16	UNKL	ENSG00000059145	ENST00000566707	retained_intron	KNOWN	None	14184	None	None	1453209	1464079	-1	C16orf28	ZC3HDC5L, ZC3H5L, FLJ23360
16	UNKL	ENSG00000059145	ENST00000561783	processed_transcript	PUTATIVE	None	14184	None	None	1453238	1457342	-1	C16orf28	ZC3HDC5L, ZC3H5L, FLJ23360
16	UNKL	ENSG00000059145	ENST00000389221	protein_coding	KNOWN	CCDS53981	14184	2043	680	1413206	1464692	-1	C16orf28	ZC3HDC5L, ZC3H5L, FLJ23360
16	UNKL	ENSG00000059145	ENST00000403703	protein_coding	KNOWN	CCDS10437	14184	699	232	1413206	1429681	-1	C16orf28	ZC3HDC5L, ZC3H5L, FLJ23360
16	UNKL	ENSG00000059145	ENST00000391893	protein_coding	KNOWN	None	14184	690	229	1413206	1420007	-1	C16orf28	ZC3HDC5L, ZC3H5L, FLJ23360
16	UNKL	ENSG00000059145	ENST00000397462	protein_coding	KNOWN	None	14184	2271	756	1433524	1464700	-1	C16orf28	ZC3HDC5L, ZC3H5L, FLJ23360
X	UPRT	ENSG00000094841	ENST00000531704	processed_transcript	KNOWN	None	28334	None	None	74493920	74517626	1	None	DKFZp781E1243, MGC23937, FUR1, RP11-311P8.3
X	UPRT	ENSG00000094841	ENST00000373383	protein_coding	KNOWN	CCDS14429	28334	930	309	74493923	74524435	1	None	DKFZp781E1243, MGC23937, FUR1, RP11-311P8.3
X	UPRT	ENSG00000094841	ENST00000373379	protein_coding	KNOWN	None	28334	846	281	74493925	74524435	1	None	DKFZp781E1243, MGC23937, FUR1, RP11-311P8.3
X	UPRT	ENSG00000094841	ENST00000462237	nonsense_mediated_decay	KNOWN	None	28334	531	176	74493951	74523354	1	None	DKFZp781E1243, MGC23937, FUR1, RP11-311P8.3
X	UPRT	ENSG00000094841	ENST00000373373	nonsense_mediated_decay	KNOWN	None	28334	429	142	74493962	74513349	1	None	DKFZp781E1243, MGC23937, FUR1, RP11-311P8.3
X	UPRT	ENSG00000094841	ENST00000530743	protein_coding	PUTATIVE	None	28334	522	173	74494563	74524407	1	None	DKFZp781E1243, MGC23937, FUR1, RP11-311P8.3
X	UPRT	ENSG00000094841	ENST00000526850	processed_transcript	KNOWN	None	28334	None	None	74505269	74523383	1	None	DKFZp781E1243, MGC23937, FUR1, RP11-311P8.3
X	UPRT	ENSG00000094841	ENST00000474175	processed_transcript	KNOWN	None	28334	None	None	74513307	74523757	1	None	DKFZp781E1243, MGC23937, FUR1, RP11-311P8.3
6	SYNCRIP	ENSG00000135316	ENST00000355238	protein_coding	KNOWN	CCDS55041	16918	1689	562	86318053	86352709	-1	None	NSAP1, GRY-RBP, dJ3J17.2, HNRPQ1, hnRNP-Q, HNRNPQ
6	SYNCRIP	ENSG00000135316	ENST00000369622	protein_coding	KNOWN	CCDS5005	16918	1872	623	86323824	86353003	-1	None	NSAP1, GRY-RBP, dJ3J17.2, HNRPQ1, hnRNP-Q, HNRNPQ
6	SYNCRIP	ENSG00000135316	ENST00000444272	protein_coding	KNOWN	None	16918	555	184	86346796	86353510	-1	None	NSAP1, GRY-RBP, dJ3J17.2, HNRPQ1, hnRNP-Q, HNRNPQ
7	ALKBH4	ENSG00000160993	ENST00000292566	protein_coding	KNOWN	CCDS5723	21900	909	302	102096685	102105323	-1	None	FLJ20013
7	ALKBH4	ENSG00000160993	ENST00000490528	nonsense_mediated_decay	KNOWN	None	21900	129	42	102097281	102105310	-1	None	FLJ20013
7	ALKBH4	ENSG00000160993	ENST00000498283	retained_intron	KNOWN	None	21900	None	None	102099844	102105304	-1	None	FLJ20013
3	ITPR1	ENSG00000150995	ENST00000467056	retained_intron	KNOWN	None	6180	None	None	4535034	4687692	1	SCA15, SCA16	Insp3r1, IP3R1
3	ITPR1	ENSG00000150995	ENST00000357086	protein_coding	KNOWN	CCDS46740	6180	8133	2710	4535034	4889286	1	SCA15, SCA16	Insp3r1, IP3R1
3	ITPR1	ENSG00000150995	ENST00000456211	protein_coding	KNOWN	CCDS54550	6180	8088	2695	4535034	4889286	1	SCA15, SCA16	Insp3r1, IP3R1
3	ITPR1	ENSG00000150995	ENST00000443694	protein_coding	KNOWN	CCDS54551	6180	8232	2743	4558176	4889079	1	SCA15, SCA16	Insp3r1, IP3R1
3	ITPR1	ENSG00000150995	ENST00000491868	processed_transcript	PUTATIVE	None	6180	None	None	4637747	4681093	1	SCA15, SCA16	Insp3r1, IP3R1
3	ITPR1	ENSG00000150995	ENST00000477577	processed_transcript	KNOWN	None	6180	None	None	4681059	4713470	1	SCA15, SCA16	Insp3r1, IP3R1
3	ITPR1	ENSG00000150995	ENST00000494681	retained_intron	KNOWN	None	6180	None	None	4753270	4776894	1	SCA15, SCA16	Insp3r1, IP3R1
3	ITPR1	ENSG00000150995	ENST00000487016	retained_intron	KNOWN	None	6180	None	None	4766061	4777309	1	SCA15, SCA16	Insp3r1, IP3R1
3	ITPR1	ENSG00000150995	ENST00000479831	retained_intron	KNOWN	None	6180	None	None	4809951	4817018	1	SCA15, SCA16	Insp3r1, IP3R1
3	ITPR1	ENSG00000150995	ENST00000481415	retained_intron	KNOWN	None	6180	None	None	4824024	4829675	1	SCA15, SCA16	Insp3r1, IP3R1
3	ITPR1	ENSG00000150995	ENST00000467545	retained_intron	KNOWN	None	6180	None	None	4836684	4852990	1	SCA15, SCA16	Insp3r1, IP3R1
3	ITPR1	ENSG00000150995	ENST00000493491	processed_transcript	KNOWN	None	6180	None	None	4841479	4888147	1	SCA15, SCA16	Insp3r1, IP3R1
3	ITPR1	ENSG00000150995	ENST00000463980	processed_transcript	KNOWN	None	6180	None	None	4841483	4888545	1	SCA15, SCA16	Insp3r1, IP3R1
3	ITPR1	ENSG00000150995	ENST00000490572	processed_transcript	KNOWN	None	6180	None	None	4841889	4853144	1	SCA15, SCA16	Insp3r1, IP3R1
3	ITPR1	ENSG00000150995	ENST00000472205	retained_intron	KNOWN	None	6180	None	None	4854731	4859923	1	SCA15, SCA16	Insp3r1, IP3R1
3	ITPR1	ENSG00000150995	ENST00000478515	retained_intron	KNOWN	None	6180	None	None	4856329	4878632	1	SCA15, SCA16	Insp3r1, IP3R1
3	ITPR1	ENSG00000150995	ENST00000302640	protein_coding	KNOWN	CCDS54551	6180	8232	2743	4535032	4889524	1	SCA15, SCA16	Insp3r1, IP3R1
3	ITPR1	ENSG00000150995	ENST00000354582	protein_coding	KNOWN	None	6180	8232	2743	4535032	4889524	1	SCA15, SCA16	Insp3r1, IP3R1
3	ITPR1	ENSG00000150995	ENST00000423119	protein_coding	KNOWN	None	6180	8133	2710	4535032	4889524	1	SCA15, SCA16	Insp3r1, IP3R1
3	ITPR1	ENSG00000150995	ENST00000544951	protein_coding	KNOWN	None	6180	2166	721	4535234	4888394	1	SCA15, SCA16	Insp3r1, IP3R1
8	FAM83H	ENSG00000180921	ENST00000388913	protein_coding	KNOWN	CCDS6410	24797	3540	1179	144806103	144815971	-1	None	FLJ46072
8	FAM83H	ENSG00000180921	ENST00000395103	nonsense_mediated_decay	KNOWN	None	24797	2720	905	144806104	144810810	-1	None	FLJ46072
15	CGNL1	ENSG00000128849	ENST00000559194	processed_transcript	PUTATIVE	None	25931	None	None	57668165	57730215	1	None	FLJ14957, JACOP, KIAA1749, paracingulin
15	CGNL1	ENSG00000128849	ENST00000281282	protein_coding	KNOWN	CCDS10161	25931	3909	1302	57668703	57842925	1	None	FLJ14957, JACOP, KIAA1749, paracingulin
15	CGNL1	ENSG00000128849	ENST00000557813	processed_transcript	KNOWN	None	25931	None	None	57669344	57699472	1	None	FLJ14957, JACOP, KIAA1749, paracingulin
3	GNAT1	ENSG00000114349	ENST00000232461	protein_coding	KNOWN	CCDS2812	4393	1053	350	50229045	50233949	1	None	None
3	GNAT1	ENSG00000114349	ENST00000433068	protein_coding	NOVEL	CCDS2812	4393	1053	350	50229103	50233948	1	None	None
3	GNAT1	ENSG00000114349	ENST00000440836	protein_coding	PUTATIVE	None	4393	390	129	50230105	50231270	1	None	None
3	GNAT1	ENSG00000114349	ENST00000467787	retained_intron	KNOWN	None	4393	None	None	50230131	50230606	1	None	None
3	GNAT1	ENSG00000114349	ENST00000481246	processed_transcript	PUTATIVE	None	4393	None	None	50231005	50231615	1	None	None
5	TRIP13	ENSG00000071539	ENST00000166345	protein_coding	KNOWN	CCDS3858	12307	1299	432	892758	918235	1	None	16E1BP
5	TRIP13	ENSG00000071539	ENST00000512024	retained_intron	KNOWN	None	12307	None	None	892999	909047	1	None	16E1BP
5	TRIP13	ENSG00000071539	ENST00000508456	processed_transcript	KNOWN	None	12307	None	None	893140	896905	1	None	16E1BP
5	TRIP13	ENSG00000071539	ENST00000513435	protein_coding	PUTATIVE	None	12307	746	247	893757	908189	1	None	16E1BP
5	TRIP13	ENSG00000071539	ENST00000510412	processed_transcript	KNOWN	None	12307	None	None	914674	919472	1	None	16E1BP
5	TRIP13	ENSG00000071539	ENST00000509210	processed_transcript	KNOWN	None	12307	None	None	916043	917563	1	None	16E1BP
5	TRIP13	ENSG00000071539	ENST00000508430	processed_transcript	PUTATIVE	None	12307	None	None	917143	918015	1	None	16E1BP
14	PTGDR	ENSG00000168229	ENST00000306051	protein_coding	KNOWN	CCDS9707	9591	1080	359	52734431	52743442	1	None	DP, DP1, PTGDR1
14	PTGDR	ENSG00000168229	ENST00000553372	protein_coding	PUTATIVE	None	9591	891	296	52734530	52741724	1	None	DP, DP1, PTGDR1
14	PTGER2	ENSG00000125384	ENST00000557436	protein_coding	PUTATIVE	None	9594	312	103	52781023	52794227	1	None	EP2
14	PTGER2	ENSG00000125384	ENST00000245457	protein_coding	KNOWN	CCDS9708	9594	1077	358	52781113	52795324	1	None	EP2
19	ZNF571	ENSG00000180479	ENST00000590751	protein_coding	PUTATIVE	None	25000	429	142	38045684	38085656	-1	None	HSPC059
19	ZNF571	ENSG00000180479	ENST00000593133	protein_coding	KNOWN	CCDS12505	25000	1830	609	38055155	38085647	-1	None	HSPC059
19	ZNF571	ENSG00000180479	ENST00000451802	protein_coding	KNOWN	CCDS12505	25000	1830	609	38055166	38085673	-1	None	HSPC059
19	ZNF571	ENSG00000180479	ENST00000358744	protein_coding	KNOWN	CCDS12505	25000	1830	609	38055471	38085662	-1	None	HSPC059
19	ZNF571	ENSG00000180479	ENST00000590390	protein_coding	PUTATIVE	None	25000	252	83	38057087	38075057	-1	None	HSPC059
19	ZNF571	ENSG00000180479	ENST00000328550	protein_coding	KNOWN	CCDS12505	25000	1830	609	38053552	38085672	-1	None	HSPC059
X	GLOD5	ENSG00000171433	ENST00000463327	processed_transcript	KNOWN	None	33358	None	None	48620155	48624642	1	None	None
X	GLOD5	ENSG00000171433	ENST00000470676	processed_transcript	KNOWN	None	33358	None	None	48620702	48632064	1	None	None
X	GLOD5	ENSG00000171433	ENST00000445229	protein_coding	KNOWN	None	33358	383	126	48624277	48632062	1	None	None
X	GLOD5	ENSG00000171433	ENST00000303227	protein_coding	KNOWN	CCDS55410	33358	483	160	48620154	48632062	1	None	None
14	TXNDC16	ENSG00000087301	ENST00000281741	protein_coding	KNOWN	CCDS32083	19965	2478	825	52897308	53019224	-1	KIAA1344	None
14	TXNDC16	ENSG00000087301	ENST00000554399	processed_transcript	KNOWN	None	19965	None	None	52905977	53019240	-1	KIAA1344	None
14	TXNDC16	ENSG00000087301	ENST00000555312	nonsense_mediated_decay	KNOWN	None	19965	323	106	52922159	52937392	-1	KIAA1344	None
14	TXNDC16	ENSG00000087301	ENST00000557374	protein_coding	PUTATIVE	None	19965	58	18	52955081	53019223	-1	KIAA1344	None
X	ZDHHC15	ENSG00000102383	ENST00000373367	protein_coding	KNOWN	CCDS14430	20342	1014	337	74588262	74743090	-1	None	FLJ31812, MRX91
X	ZDHHC15	ENSG00000102383	ENST00000482827	processed_transcript	KNOWN	None	20342	None	None	74721327	74742845	-1	None	FLJ31812, MRX91
X	ZDHHC15	ENSG00000102383	ENST00000541184	protein_coding	KNOWN	CCDS55454	20342	987	328	74588266	74743337	-1	None	FLJ31812, MRX91
X	ZDHHC15	ENSG00000102383	ENST00000373361	protein_coding	KNOWN	None	20342	564	187	74598997	74742873	-1	None	FLJ31812, MRX91
10	None	ENSG00000269783	ENST00000596005	protein_coding	KNOWN	None	None	771	256	99627889	99631294	1	None	None
16	METTL22	ENSG00000067365	ENST00000563958	protein_coding	KNOWN	None	28368	212	69	8715540	8722665	1	C16orf68	FLJ12433,MGC2654
16	METTL22	ENSG00000067365	ENST00000381920	protein_coding	KNOWN	CCDS10533	28368	1215	404	8715545	8740079	1	C16orf68	FLJ12433,MGC2654
16	METTL22	ENSG00000067365	ENST00000163678	nonsense_mediated_decay	KNOWN	None	28368	618	205	8715548	8740081	1	C16orf68	FLJ12433,MGC2654
16	METTL22	ENSG00000067365	ENST00000564554	protein_coding	KNOWN	None	28368	48	15	8715567	8719570	1	C16orf68	FLJ12433,MGC2654
16	METTL22	ENSG00000067365	ENST00000561758	protein_coding	NOVEL	None	28368	1047	348	8715586	8740048	1	C16orf68	FLJ12433,MGC2654
16	METTL22	ENSG00000067365	ENST00000567295	nonsense_mediated_decay	KNOWN	None	28368	144	47	8715589	8729139	1	C16orf68	FLJ12433,MGC2654
16	METTL22	ENSG00000067365	ENST00000563037	processed_transcript	PUTATIVE	None	28368	None	None	8717459	8719432	1	C16orf68	FLJ12433,MGC2654
16	METTL22	ENSG00000067365	ENST00000568967	processed_transcript	KNOWN	None	28368	None	None	8725104	8740079	1	C16orf68	FLJ12433,MGC2654
16	METTL22	ENSG00000067365	ENST00000564624	retained_intron	KNOWN	None	28368	None	None	8729025	8733062	1	C16orf68	FLJ12433,MGC2654
16	METTL22	ENSG00000067365	ENST00000572956	nonsense_mediated_decay	KNOWN	None	28368	465	154	8729082	8740075	1	C16orf68	FLJ12433,MGC2654
16	METTL22	ENSG00000067365	ENST00000561993	retained_intron	KNOWN	None	28368	None	None	8732964	8736784	1	C16orf68	FLJ12433,MGC2654
16	METTL22	ENSG00000067365	ENST00000563501	processed_transcript	PUTATIVE	None	28368	None	None	8733091	8736005	1	C16orf68	FLJ12433,MGC2654
16	METTL22	ENSG00000067365	ENST00000565866	nonsense_mediated_decay	KNOWN	None	28368	140	45	8734988	8740075	1	C16orf68	FLJ12433,MGC2654
16	METTL22	ENSG00000067365	ENST00000562151	protein_coding	PUTATIVE	None	28368	496	164	8734995	8739884	1	C16orf68	FLJ12433,MGC2654
16	METTL22	ENSG00000067365	ENST00000564107	processed_transcript	KNOWN	None	28368	None	None	8735480	8738510	1	C16orf68	FLJ12433,MGC2654
16	METTL22	ENSG00000067365	ENST00000564133	retained_intron	KNOWN	None	28368	None	None	8735735	8736396	1	C16orf68	FLJ12433,MGC2654
16	METTL22	ENSG00000067365	ENST00000562973	protein_coding	PUTATIVE	None	28368	312	103	8736325	8738901	1	C16orf68	FLJ12433,MGC2654
16	METTL22	ENSG00000067365	ENST00000569597	retained_intron	KNOWN	None	28368	None	None	8738294	8740079	1	C16orf68	FLJ12433,MGC2654
8	SCRIB	ENSG00000180900	ENST00000356994	protein_coding	NOVEL	CCDS6412	30377	4968	1655	144873090	144897549	-1	None	KIAA0147, SCRB1, Vartul
8	SCRIB	ENSG00000180900	ENST00000320476	protein_coding	KNOWN	CCDS6411	30377	4893	1630	144873090	144897549	-1	None	KIAA0147, SCRB1, Vartul
8	SCRIB	ENSG00000180900	ENST00000531163	retained_intron	KNOWN	None	30377	None	None	144873095	144873712	-1	None	KIAA0147, SCRB1, Vartul
8	SCRIB	ENSG00000180900	ENST00000525051	retained_intron	KNOWN	None	30377	None	None	144873095	144875758	-1	None	KIAA0147, SCRB1, Vartul
8	SCRIB	ENSG00000180900	ENST00000526832	protein_coding	NOVEL	None	30377	1951	649	144873095	144886321	-1	None	KIAA0147, SCRB1, Vartul
8	SCRIB	ENSG00000180900	ENST00000377533	protein_coding	KNOWN	None	30377	4650	1549	144873096	144897138	-1	None	KIAA0147, SCRB1, Vartul
8	SCRIB	ENSG00000180900	ENST00000546337	processed_transcript	KNOWN	None	30377	None	None	144874779	144876406	-1	None	KIAA0147, SCRB1, Vartul
8	SCRIB	ENSG00000180900	ENST00000531942	protein_coding	PUTATIVE	None	30377	421	139	144887422	144890847	-1	None	KIAA0147, SCRB1, Vartul
20	None	ENSG00000230440	ENST00000416563	lincRNA	KNOWN	None	None	None	None	26113523	26114834	-1	None	None
10	R3HCC1L	ENSG00000166024	ENST00000298999	protein_coding	PUTATIVE	CCDS31267	23512	2337	778	99894428	100004654	1	C10orf28	GIDRP86, PSORT
10	R3HCC1L	ENSG00000166024	ENST00000370586	protein_coding	PUTATIVE	CCDS58093	23512	555	184	99922640	100004106	1	C10orf28	GIDRP86, PSORT
10	R3HCC1L	ENSG00000166024	ENST00000370584	protein_coding	KNOWN	CCDS31267	23512	2337	778	99894387	100004321	1	C10orf28	GIDRP86, PSORT
10	R3HCC1L	ENSG00000166024	ENST00000314594	protein_coding	KNOWN	None	23512	585	194	99894428	100004651	1	C10orf28	GIDRP86, PSORT
X	GATA1	ENSG00000102145	ENST00000376670	protein_coding	KNOWN	CCDS14305	4170	1242	413	48644962	48652715	1	GF1	ERYF1, NFE1, GATA-1, NF-E1
X	GATA1	ENSG00000102145	ENST00000376665	protein_coding	KNOWN	None	4170	1005	334	48644981	48652716	1	GF1	ERYF1, NFE1, GATA-1, NF-E1
X	GATA1	ENSG00000102145	ENST00000447551	protein_coding	KNOWN	None	4170	368	121	48650838	48652718	1	GF1	ERYF1, NFE1, GATA-1, NF-E1
X	SPRY3	ENSG00000168939	ENST00000302805	protein_coding	KNOWN	CCDS14769	11271	867	288	154997474	155012121	1	None	HSPRY3
X	VAMP7	ENSG00000124333	ENST00000286448	protein_coding	KNOWN	CCDS14770	11486	663	220	155110956	155173433	1	SYBL1	VAMP-7, TI-VAMP
X	VAMP7	ENSG00000124333	ENST00000479687	processed_transcript	KNOWN	None	11486	None	None	155111021	155171573	1	SYBL1	VAMP-7, TI-VAMP
X	VAMP7	ENSG00000124333	ENST00000488344	nonsense_mediated_decay	KNOWN	None	11486	180	59	155111023	155171608	1	SYBL1	VAMP-7, TI-VAMP
X	VAMP7	ENSG00000124333	ENST00000463317	processed_transcript	KNOWN	None	11486	None	None	155111035	155169454	1	SYBL1	VAMP-7, TI-VAMP
X	VAMP7	ENSG00000124333	ENST00000262640	protein_coding	KNOWN	CCDS55548	11486	783	260	155111038	155173433	1	SYBL1	VAMP-7, TI-VAMP
X	VAMP7	ENSG00000124333	ENST00000460621	protein_coding	KNOWN	CCDS48199	11486	540	179	155111041	155171653	1	SYBL1	VAMP-7, TI-VAMP
16	HYDIN	ENSG00000157423	ENST00000393567	protein_coding	PUTATIVE	CCDS59269	19368	15366	5121	70841281	71264592	-1	None	DKFZp434D0513, KIAA1864, PPP1R31
16	HYDIN	ENSG00000157423	ENST00000378856	nonsense_mediated_decay	KNOWN	None	19368	148	48	70841398	70900200	-1	None	DKFZp434D0513, KIAA1864, PPP1R31
16	HYDIN	ENSG00000157423	ENST00000542283	processed_transcript	KNOWN	None	19368	None	None	70851014	70852396	-1	None	DKFZp434D0513, KIAA1864, PPP1R31
16	HYDIN	ENSG00000157423	ENST00000546257	nonsense_mediated_decay	KNOWN	None	19368	130	42	70891620	70897073	-1	None	DKFZp434D0513, KIAA1864, PPP1R31
16	HYDIN	ENSG00000157423	ENST00000309900	retained_intron	KNOWN	None	19368	None	None	70927439	71007833	-1	None	DKFZp434D0513, KIAA1864, PPP1R31
16	HYDIN	ENSG00000157423	ENST00000543521	retained_intron	KNOWN	None	19368	None	None	70975290	71008472	-1	None	DKFZp434D0513, KIAA1864, PPP1R31
16	HYDIN	ENSG00000157423	ENST00000546297	retained_intron	KNOWN	None	19368	None	None	70993230	70995918	-1	None	DKFZp434D0513, KIAA1864, PPP1R31
16	HYDIN	ENSG00000157423	ENST00000393552	nonsense_mediated_decay	KNOWN	None	19368	2502	833	71018960	71163623	-1	None	DKFZp434D0513, KIAA1864, PPP1R31
16	HYDIN	ENSG00000157423	ENST00000538568	nonsense_mediated_decay	KNOWN	None	19368	341	112	71052287	71094489	-1	None	DKFZp434D0513, KIAA1864, PPP1R31
16	HYDIN	ENSG00000157423	ENST00000539447	nonsense_mediated_decay	KNOWN	None	19368	455	150	71059383	71220701	-1	None	DKFZp434D0513, KIAA1864, PPP1R31
16	HYDIN	ENSG00000157423	ENST00000321489	protein_coding	KNOWN	CCDS10897	19368	3054	1017	71061013	71264592	-1	None	DKFZp434D0513, KIAA1864, PPP1R31
16	HYDIN	ENSG00000157423	ENST00000538248	protein_coding	KNOWN	CCDS56004	19368	2853	950	71065314	71264625	-1	None	DKFZp434D0513, KIAA1864, PPP1R31
16	HYDIN	ENSG00000157423	ENST00000545230	nonsense_mediated_decay	KNOWN	None	19368	1587	528	71065315	71196513	-1	None	DKFZp434D0513, KIAA1864, PPP1R31
16	HYDIN	ENSG00000157423	ENST00000540892	retained_intron	KNOWN	None	19368	None	None	71065320	71096935	-1	None	DKFZp434D0513, KIAA1864, PPP1R31
16	HYDIN	ENSG00000157423	ENST00000541601	protein_coding	KNOWN	CCDS56005	19368	2823	940	71065370	71264617	-1	None	DKFZp434D0513, KIAA1864, PPP1R31
16	HYDIN	ENSG00000157423	ENST00000288168	protein_coding	KNOWN	None	19368	2178	725	71100380	71264604	-1	None	DKFZp434D0513, KIAA1864, PPP1R31
16	HYDIN	ENSG00000157423	ENST00000542890	protein_coding	PUTATIVE	None	19368	383	126	71100483	71103348	-1	None	DKFZp434D0513, KIAA1864, PPP1R31
16	HYDIN	ENSG00000157423	ENST00000543639	processed_transcript	KNOWN	None	19368	None	None	71103255	71114289	-1	None	DKFZp434D0513, KIAA1864, PPP1R31
16	HYDIN	ENSG00000157423	ENST00000538382	protein_coding	PUTATIVE	None	19368	614	203	71165266	71209541	-1	None	DKFZp434D0513, KIAA1864, PPP1R31
16	HYDIN	ENSG00000157423	ENST00000536785	retained_intron	KNOWN	None	19368	None	None	71166908	71186794	-1	None	DKFZp434D0513, KIAA1864, PPP1R31
16	HYDIN	ENSG00000157423	ENST00000537789	retained_intron	KNOWN	None	19368	None	None	71171252	71212929	-1	None	DKFZp434D0513, KIAA1864, PPP1R31
16	HYDIN	ENSG00000157423	ENST00000539973	protein_coding	KNOWN	None	19368	119	38	71220680	71264598	-1	None	DKFZp434D0513, KIAA1864, PPP1R31
16	HYDIN	ENSG00000157423	ENST00000545267	protein_coding	KNOWN	None	19368	109	35	71220690	71264607	-1	None	DKFZp434D0513, KIAA1864, PPP1R31
16	HYDIN	ENSG00000157423	ENST00000448089	protein_coding	KNOWN	None	19368	3645	1214	71025969	71264558	-1	None	DKFZp434D0513, KIAA1864, PPP1R31
16	HYDIN	ENSG00000157423	ENST00000448691	protein_coding	KNOWN	CCDS10897	19368	3054	1017	71061011	71264569	-1	None	DKFZp434D0513, KIAA1864, PPP1R31
16	HYDIN	ENSG00000157423	ENST00000393550	protein_coding	KNOWN	None	19368	2223	740	71100734	71264558	-1	None	DKFZp434D0513, KIAA1864, PPP1R31
9	GAS1	ENSG00000180447	ENST00000298743	protein_coding	KNOWN	CCDS6674	4165	1038	345	89559279	89562104	-1	None	None
5	None	ENSG00000250173	ENST00000511936	protein_coding	PUTATIVE	None	None	186	61	979480	981415	1	None	None
17	ACACA	ENSG00000132142	ENST00000353139	protein_coding	KNOWN	CCDS42302	84	7152	2383	35441923	35766871	-1	ACAC, ACC	ACC1
17	ACACA	ENSG00000132142	ENST00000360679	protein_coding	KNOWN	CCDS11318	84	6867	2288	35441929	35656692	-1	ACAC, ACC	ACC1
17	ACACA	ENSG00000132142	ENST00000394406	protein_coding	KNOWN	CCDS11317	84	7041	2346	35441929	35716059	-1	ACAC, ACC	ACC1
17	ACACA	ENSG00000132142	ENST00000591119	protein_coding	NOVEL	None	84	2997	998	35441933	35562726	-1	ACAC, ACC	ACC1
17	ACACA	ENSG00000132142	ENST00000335166	protein_coding	KNOWN	CCDS42303	84	6807	2268	35443752	35656692	-1	ACAC, ACC	ACC1
17	ACACA	ENSG00000132142	ENST00000587233	nonsense_mediated_decay	KNOWN	None	84	157	51	35443811	35518749	-1	ACAC, ACC	ACC1
17	ACACA	ENSG00000132142	ENST00000586821	protein_coding	PUTATIVE	None	84	290	95	35443815	35445918	-1	ACAC, ACC	ACC1
17	ACACA	ENSG00000132142	ENST00000593055	retained_intron	KNOWN	None	84	None	None	35444157	35479716	-1	ACAC, ACC	ACC1
17	ACACA	ENSG00000132142	ENST00000592427	protein_coding	PUTATIVE	None	84	708	235	35518514	35545234	-1	ACAC, ACC	ACC1
17	ACACA	ENSG00000132142	ENST00000586621	retained_intron	KNOWN	None	84	None	None	35545243	35550399	-1	ACAC, ACC	ACC1
17	ACACA	ENSG00000132142	ENST00000587598	processed_transcript	KNOWN	None	84	None	None	35557372	35578949	-1	ACAC, ACC	ACC1
17	ACACA	ENSG00000132142	ENST00000587720	processed_transcript	KNOWN	None	84	None	None	35564644	35582492	-1	ACAC, ACC	ACC1
17	ACACA	ENSG00000132142	ENST00000590888	retained_intron	KNOWN	None	84	None	None	35578439	35716064	-1	ACAC, ACC	ACC1
17	ACACA	ENSG00000132142	ENST00000592243	retained_intron	KNOWN	None	84	None	None	35604826	35605600	-1	ACAC, ACC	ACC1
17	ACACA	ENSG00000132142	ENST00000456066	nonsense_mediated_decay	KNOWN	None	84	345	114	35631108	35766763	-1	ACAC, ACC	ACC1
17	ACACA	ENSG00000132142	ENST00000591148	protein_coding	KNOWN	None	84	283	93	35634881	35716039	-1	ACAC, ACC	ACC1
17	ACACA	ENSG00000132142	ENST00000394403	protein_coding	KNOWN	None	84	126	41	35641739	35716059	-1	ACAC, ACC	ACC1
17	ACACA	ENSG00000132142	ENST00000451642	protein_coding	KNOWN	None	84	360	119	35641739	35766871	-1	ACAC, ACC	ACC1
17	ACACA	ENSG00000132142	ENST00000413318	protein_coding	KNOWN	None	84	126	41	35641739	35766871	-1	ACAC, ACC	ACC1
17	ACACA	ENSG00000132142	ENST00000588142	protein_coding	PUTATIVE	None	84	339	112	35685584	35687339	-1	ACAC, ACC	ACC1
17	ACACA	ENSG00000132142	ENST00000456561	non_stop_decay	KNOWN	None	84	252	83	35685901	35722509	-1	ACAC, ACC	ACC1
17	ACACA	ENSG00000132142	ENST00000587653	processed_transcript	KNOWN	None	84	None	None	35717148	35725670	-1	ACAC, ACC	ACC1
17	ACACA	ENSG00000132142	ENST00000587545	processed_transcript	PUTATIVE	None	84	None	None	35717176	35766909	-1	ACAC, ACC	ACC1
17	ACACA	ENSG00000132142	ENST00000589665	processed_transcript	PUTATIVE	None	84	None	None	35744862	35766512	-1	ACAC, ACC	ACC1
17	ACACA	ENSG00000132142	ENST00000361253	protein_coding	KNOWN	None	84	1419	472	35444185	35518749	-1	ACAC, ACC	ACC1
17	ACACA	ENSG00000132142	ENST00000416895	protein_coding	KNOWN	None	84	234	77	35641739	35766871	-1	ACAC, ACC	ACC1
5	NKD2	ENSG00000145506	ENST00000296849	protein_coding	KNOWN	CCDS3859	17046	1356	451	1008944	1039058	1	None	Naked2
5	NKD2	ENSG00000145506	ENST00000274150	protein_coding	PUTATIVE	CCDS59486	17046	936	311	1009077	1038797	1	None	Naked2
5	NKD2	ENSG00000145506	ENST00000519933	retained_intron	KNOWN	None	17046	None	None	1034251	1036287	1	None	Naked2
5	NKD2	ENSG00000145506	ENST00000523688	retained_intron	KNOWN	None	17046	None	None	1034871	1038430	1	None	Naked2
5	NKD2	ENSG00000145506	ENST00000513296	retained_intron	KNOWN	None	17046	None	None	1035920	1038399	1	None	Naked2
5	NKD2	ENSG00000145506	ENST00000537972	protein_coding	KNOWN	CCDS59486	17046	936	311	1009168	1037783	1	None	Naked2
5	NKD2	ENSG00000145506	ENST00000382730	protein_coding	KNOWN	None	17046	507	168	1036895	1038721	1	None	Naked2
19	HNRNPM	ENSG00000099783	ENST00000348943	protein_coding	KNOWN	CCDS12204	5046	2076	691	8509651	8553998	1	NAGR1, HNRPM	HTGR1, HNRNPM4, HNRPM4, CEAR
19	HNRNPM	ENSG00000099783	ENST00000597813	retained_intron	KNOWN	None	5046	None	None	8509804	8528736	1	NAGR1, HNRPM	HTGR1, HNRNPM4, HNRPM4, CEAR
19	HNRNPM	ENSG00000099783	ENST00000325495	protein_coding	KNOWN	CCDS12203	5046	2193	730	8509842	8553998	1	NAGR1, HNRPM	HTGR1, HNRNPM4, HNRPM4, CEAR
19	HNRNPM	ENSG00000099783	ENST00000600092	protein_coding	NOVEL	None	5046	1058	351	8509855	8550532	1	NAGR1, HNRPM	HTGR1, HNRNPM4, HNRPM4, CEAR
19	HNRNPM	ENSG00000099783	ENST00000600806	nonsense_mediated_decay	KNOWN	None	5046	300	99	8509861	8553994	1	NAGR1, HNRPM	HTGR1, HNRNPM4, HNRPM4, CEAR
19	HNRNPM	ENSG00000099783	ENST00000594907	protein_coding	NOVEL	None	5046	1071	356	8509876	8550608	1	NAGR1, HNRPM	HTGR1, HNRNPM4, HNRPM4, CEAR
19	HNRNPM	ENSG00000099783	ENST00000596984	protein_coding	NOVEL	None	5046	658	218	8509877	8532466	1	NAGR1, HNRPM	HTGR1, HNRNPM4, HNRPM4, CEAR
19	HNRNPM	ENSG00000099783	ENST00000601645	protein_coding	NOVEL	None	5046	827	274	8509878	8536294	1	NAGR1, HNRPM	HTGR1, HNRNPM4, HNRPM4, CEAR
19	HNRNPM	ENSG00000099783	ENST00000593293	retained_intron	KNOWN	None	5046	None	None	8526853	8530256	1	NAGR1, HNRPM	HTGR1, HNRNPM4, HNRPM4, CEAR
19	HNRNPM	ENSG00000099783	ENST00000598367	protein_coding	NOVEL	None	5046	298	98	8528381	8539128	1	NAGR1, HNRPM	HTGR1, HNRNPM4, HNRPM4, CEAR
19	HNRNPM	ENSG00000099783	ENST00000597270	protein_coding	NOVEL	None	5046	1147	381	8531133	8551157	1	NAGR1, HNRPM	HTGR1, HNRNPM4, HNRPM4, CEAR
19	HNRNPM	ENSG00000099783	ENST00000597081	processed_transcript	KNOWN	None	5046	None	None	8546353	8551966	1	NAGR1, HNRPM	HTGR1, HNRNPM4, HNRPM4, CEAR
19	HNRNPM	ENSG00000099783	ENST00000598603	retained_intron	KNOWN	None	5046	None	None	8547433	8550607	1	NAGR1, HNRPM	HTGR1, HNRNPM4, HNRPM4, CEAR
19	HNRNPM	ENSG00000099783	ENST00000596295	protein_coding	PUTATIVE	None	5046	643	213	8550746	8553830	1	NAGR1, HNRPM	HTGR1, HNRNPM4, HNRPM4, CEAR
19	HNRNPM	ENSG00000099783	ENST00000598999	protein_coding	PUTATIVE	None	5046	350	115	8551042	8552068	1	NAGR1, HNRPM	HTGR1, HNRNPM4, HNRPM4, CEAR
19	HNRNPM	ENSG00000099783	ENST00000602219	processed_transcript	KNOWN	None	5046	None	None	8552186	8553994	1	NAGR1, HNRPM	HTGR1, HNRNPM4, HNRPM4, CEAR
9	C9orf170	ENSG00000204446	ENST00000375941	protein_coding	KNOWN	CCDS35058	33817	366	121	89763559	89774471	1	None	FLJ45537
20	MIR663A	ENSG00000227195	ENST00000595300	lincRNA	KNOWN	None	32919	None	None	26167556	26168177	-1	MIRN663, MIR663	hsa-mir-663
20	MIR663A	ENSG00000227195	ENST00000432499	lincRNA	KNOWN	None	32919	None	None	26167655	26189527	-1	MIRN663, MIR663	hsa-mir-663
20	MIR663A	ENSG00000227195	ENST00000427348	lincRNA	KNOWN	None	32919	None	None	26167655	26189869	-1	MIRN663, MIR663	hsa-mir-663
20	MIR663A	ENSG00000227195	ENST00000596717	lincRNA	KNOWN	None	32919	None	None	26168268	26175398	-1	MIRN663, MIR663	hsa-mir-663
20	MIR663A	ENSG00000227195	ENST00000601850	lincRNA	KNOWN	None	32919	None	None	26168268	26180161	-1	MIRN663, MIR663	hsa-mir-663
20	MIR663A	ENSG00000227195	ENST00000600222	lincRNA	KNOWN	None	32919	None	None	26168268	26188679	-1	MIRN663, MIR663	hsa-mir-663
20	MIR663A	ENSG00000227195	ENST00000598448	lincRNA	KNOWN	None	32919	None	None	26168268	26188703	-1	MIRN663, MIR663	hsa-mir-663
20	MIR663A	ENSG00000227195	ENST00000596223	lincRNA	KNOWN	None	32919	None	None	26168268	26188874	-1	MIRN663, MIR663	hsa-mir-663
20	MIR663A	ENSG00000227195	ENST00000597267	lincRNA	KNOWN	None	32919	None	None	26168268	26188898	-1	MIRN663, MIR663	hsa-mir-663
20	MIR663A	ENSG00000227195	ENST00000597361	lincRNA	KNOWN	None	32919	None	None	26168268	26189731	-1	MIRN663, MIR663	hsa-mir-663
20	MIR663A	ENSG00000227195	ENST00000598451	lincRNA	KNOWN	None	32919	None	None	26168268	26189731	-1	MIRN663, MIR663	hsa-mir-663
20	MIR663A	ENSG00000227195	ENST00000597979	lincRNA	KNOWN	None	32919	None	None	26168268	26189884	-1	MIRN663, MIR663	hsa-mir-663
20	MIR663A	ENSG00000227195	ENST00000600263	lincRNA	KNOWN	None	32919	None	None	26168268	26189897	-1	MIRN663, MIR663	hsa-mir-663
20	MIR663A	ENSG00000227195	ENST00000601079	lincRNA	KNOWN	None	32919	None	None	26168268	26190098	-1	MIRN663, MIR663	hsa-mir-663
20	MIR663A	ENSG00000227195	ENST00000601901	lincRNA	KNOWN	None	32919	None	None	26168268	26232128	-1	MIRN663, MIR663	hsa-mir-663
20	MIR663A	ENSG00000227195	ENST00000594130	lincRNA	KNOWN	None	32919	None	None	26168268	26232141	-1	MIRN663, MIR663	hsa-mir-663
20	MIR663A	ENSG00000227195	ENST00000596111	lincRNA	KNOWN	None	32919	None	None	26168271	26188874	-1	MIRN663, MIR663	hsa-mir-663
20	MIR663A	ENSG00000227195	ENST00000594135	lincRNA	KNOWN	None	32919	None	None	26168271	26189858	-1	MIRN663, MIR663	hsa-mir-663
20	MIR663A	ENSG00000227195	ENST00000596767	lincRNA	KNOWN	None	32919	None	None	26168271	26232102	-1	MIRN663, MIR663	hsa-mir-663
20	MIR663A	ENSG00000227195	ENST00000601119	lincRNA	KNOWN	None	32919	None	None	26168271	26232162	-1	MIRN663, MIR663	hsa-mir-663
20	MIR663A	ENSG00000227195	ENST00000598150	lincRNA	KNOWN	None	32919	None	None	26168274	26189959	-1	MIRN663, MIR663	hsa-mir-663
20	MIR663A	ENSG00000227195	ENST00000600225	lincRNA	KNOWN	None	32919	None	None	26168274	26189993	-1	MIRN663, MIR663	hsa-mir-663
20	MIR663A	ENSG00000227195	ENST00000596058	lincRNA	KNOWN	None	32919	None	None	26168274	26190475	-1	MIRN663, MIR663	hsa-mir-663
20	MIR663A	ENSG00000227195	ENST00000594150	lincRNA	KNOWN	None	32919	None	None	26168285	26189882	-1	MIRN663, MIR663	hsa-mir-663
20	MIR663A	ENSG00000227195	ENST00000596537	lincRNA	KNOWN	None	32919	None	None	26168475	26188422	-1	MIRN663, MIR663	hsa-mir-663
20	MIR663A	ENSG00000227195	ENST00000593517	retained_intron	KNOWN	None	32919	None	None	26172450	26173473	-1	MIRN663, MIR663	hsa-mir-663
20	MIR663A	ENSG00000227195	ENST00000385250	miRNA	KNOWN	None	32919	None	None	26188822	26188914	-1	MIRN663, MIR663	hsa-mir-663
17	GUCY2D	ENSG00000132518	ENST00000254854	protein_coding	KNOWN	CCDS11127	4689	3312	1103	7905912	7923657	1	CORD6, LCA, GUC2D, GUC1A4	retGC, RETGC-1, ROS-GC1, CYGD, LCA1
17	GUCY2D	ENSG00000132518	ENST00000574510	retained_intron	KNOWN	None	4689	None	None	7919447	7920138	1	CORD6, LCA, GUC2D, GUC1A4	retGC, RETGC-1, ROS-GC1, CYGD, LCA1
19	ZFP30	ENSG00000120784	ENST00000589018	protein_coding	PUTATIVE	None	29555	279	92	38104650	38145630	-1	None	ZNF745, KIAA0961
19	ZFP30	ENSG00000120784	ENST00000351218	protein_coding	KNOWN	CCDS33005	29555	1560	519	38121910	38146313	-1	None	ZNF745, KIAA0961
19	ZFP30	ENSG00000120784	ENST00000514101	protein_coding	KNOWN	CCDS33005	29555	1560	519	38123389	38147162	-1	None	ZNF745, KIAA0961
19	ZFP30	ENSG00000120784	ENST00000587809	protein_coding	KNOWN	None	29555	373	123	38127066	38146368	-1	None	ZNF745, KIAA0961
19	ZFP30	ENSG00000120784	ENST00000588979	protein_coding	KNOWN	None	29555	170	55	38134231	38146731	-1	None	ZNF745, KIAA0961
19	ZFP30	ENSG00000120784	ENST00000477900	retained_intron	KNOWN	None	29555	None	None	38135297	38146368	-1	None	ZNF745, KIAA0961
19	ZFP30	ENSG00000120784	ENST00000587199	protein_coding	KNOWN	None	29555	10	2	38138714	38183238	-1	None	ZNF745, KIAA0961
19	ZFP30	ENSG00000120784	ENST00000591444	protein_coding	KNOWN	None	29555	7	1	38138717	38146310	-1	None	ZNF745, KIAA0961
19	ZFP30	ENSG00000120784	ENST00000589676	processed_transcript	KNOWN	None	29555	None	None	38138771	38183164	-1	None	ZNF745, KIAA0961
19	ZFP30	ENSG00000120784	ENST00000586732	processed_transcript	KNOWN	None	29555	None	None	38138785	38183164	-1	None	ZNF745, KIAA0961
19	ZFP30	ENSG00000120784	ENST00000589789	processed_transcript	KNOWN	None	29555	None	None	38145616	38146366	-1	None	ZNF745, KIAA0961
19	ZFP30	ENSG00000120784	ENST00000392144	protein_coding	KNOWN	CCDS33005	29555	1560	519	38123389	38146289	-1	None	ZNF745, KIAA0961
5	RASGRF2	ENSG00000113319	ENST00000265080	protein_coding	KNOWN	CCDS4052	9876	3714	1237	80256491	80525975	1	None	GRF2, Ras-GRF2
5	RASGRF2	ENSG00000113319	ENST00000503795	nonsense_mediated_decay	KNOWN	None	9876	3456	1151	80256508	80521631	1	None	GRF2, Ras-GRF2
5	RASGRF2	ENSG00000113319	ENST00000514946	processed_transcript	KNOWN	None	9876	None	None	80315226	80369041	1	None	GRF2, Ras-GRF2
5	RASGRF2	ENSG00000113319	ENST00000502677	processed_transcript	KNOWN	None	9876	None	None	80365843	80384383	1	None	GRF2, Ras-GRF2
5	RASGRF2	ENSG00000113319	ENST00000512186	processed_transcript	KNOWN	None	9876	None	None	80388735	80392325	1	None	GRF2, Ras-GRF2
9	DAPK1	ENSG00000196730	ENST00000358077	protein_coding	KNOWN	CCDS43842	2674	4293	1430	90112143	90323546	1	None	DAPK
9	DAPK1	ENSG00000196730	ENST00000472284	protein_coding	KNOWN	CCDS43842	2674	4293	1430	90112596	90323545	1	None	DAPK
9	DAPK1	ENSG00000196730	ENST00000469067	retained_intron	KNOWN	None	2674	None	None	90112651	90265426	1	None	DAPK
9	DAPK1	ENSG00000196730	ENST00000495182	processed_transcript	KNOWN	None	2674	None	None	90112750	90121917	1	None	DAPK
9	DAPK1	ENSG00000196730	ENST00000408954	protein_coding	KNOWN	CCDS43842	2674	4293	1430	90112796	90323543	1	None	DAPK
9	DAPK1	ENSG00000196730	ENST00000470267	retained_intron	KNOWN	None	2674	None	None	90112827	90114267	1	None	DAPK
9	DAPK1	ENSG00000196730	ENST00000496522	processed_transcript	KNOWN	None	2674	None	None	90113450	90252942	1	None	DAPK
9	DAPK1	ENSG00000196730	ENST00000472344	processed_transcript	KNOWN	None	2674	None	None	90113526	90254398	1	None	DAPK
9	DAPK1	ENSG00000196730	ENST00000491893	protein_coding	NOVEL	None	2674	4095	1364	90113920	90322297	1	None	DAPK
9	DAPK1	ENSG00000196730	ENST00000489291	nonsense_mediated_decay	KNOWN	None	2674	567	188	90113921	90322297	1	None	DAPK
9	DAPK1	ENSG00000196730	ENST00000463069	retained_intron	KNOWN	None	2674	None	None	90254353	90255327	1	None	DAPK
9	DAPK1	ENSG00000196730	ENST00000475804	retained_intron	KNOWN	None	2674	None	None	90263490	90266505	1	None	DAPK
9	DAPK1	ENSG00000196730	ENST00000495281	processed_transcript	KNOWN	None	2674	None	None	90263501	90265394	1	None	DAPK
9	DAPK1	ENSG00000196730	ENST00000494010	processed_transcript	KNOWN	None	2674	None	None	90264905	90282962	1	None	DAPK
9	DAPK1	ENSG00000196730	ENST00000466188	processed_transcript	KNOWN	None	2674	None	None	90272331	90283863	1	None	DAPK
9	DAPK1	ENSG00000196730	ENST00000497743	processed_transcript	KNOWN	None	2674	None	None	90283368	90296437	1	None	DAPK
9	DAPK1	ENSG00000196730	ENST00000468482	processed_transcript	KNOWN	None	2674	None	None	90313324	90315132	1	None	DAPK
9	DAPK1	ENSG00000196730	ENST00000469640	protein_coding	KNOWN	None	2674	4368	1455	90112756	90323548	1	None	DAPK
10	LOXL4	ENSG00000138131	ENST00000260702	protein_coding	KNOWN	CCDS7473	17171	2271	756	100007447	100028007	-1	None	FLJ21889, LOXC
3	GNAI2	ENSG00000114353	ENST00000422163	protein_coding	NOVEL	None	4385	1020	339	50263724	50296330	1	GNAI2B	GIP
3	GNAI2	ENSG00000114353	ENST00000446079	nonsense_mediated_decay	KNOWN	None	4385	441	146	50264169	50296330	1	GNAI2B	GIP
3	GNAI2	ENSG00000114353	ENST00000491100	processed_transcript	KNOWN	None	4385	None	None	50266497	50296777	1	GNAI2B	GIP
3	GNAI2	ENSG00000114353	ENST00000480090	processed_transcript	PUTATIVE	None	4385	None	None	50268242	50272722	1	GNAI2B	GIP
3	GNAI2	ENSG00000114353	ENST00000313601	protein_coding	KNOWN	CCDS2813	4385	1068	355	50273384	50296787	1	GNAI2B	GIP
3	GNAI2	ENSG00000114353	ENST00000441156	nonsense_mediated_decay	KNOWN	None	4385	429	142	50273636	50296786	1	GNAI2B	GIP
3	GNAI2	ENSG00000114353	ENST00000440628	protein_coding	PUTATIVE	None	4385	912	303	50275544	50296183	1	GNAI2B	GIP
3	GNAI2	ENSG00000114353	ENST00000451956	protein_coding	PUTATIVE	CCDS54587	4385	957	318	50284326	50296129	1	GNAI2B	GIP
3	GNAI2	ENSG00000114353	ENST00000490122	retained_intron	KNOWN	None	4385	None	None	50288841	50296325	1	GNAI2B	GIP
3	GNAI2	ENSG00000114353	ENST00000468422	retained_intron	KNOWN	None	4385	None	None	50290586	50294123	1	GNAI2B	GIP
3	GNAI2	ENSG00000114353	ENST00000492383	retained_intron	KNOWN	None	4385	None	None	50293715	50295598	1	GNAI2B	GIP
3	GNAI2	ENSG00000114353	ENST00000266027	protein_coding	KNOWN	None	4385	1020	339	50289106	50296771	1	GNAI2B	GIP
3	GNAI2	ENSG00000114353	ENST00000536647	protein_coding	KNOWN	None	4385	825	274	50273636	50296771	1	GNAI2B	GIP
11	BET1L	ENSG00000177951	ENST00000410108	protein_coding	PUTATIVE	None	19348	459	152	167784	207383	-1	None	GS15, GOLIM3
11	BET1L	ENSG00000177951	ENST00000325147	protein_coding	KNOWN	CCDS7689	19348	309	102	202924	207382	-1	None	GS15, GOLIM3
11	BET1L	ENSG00000177951	ENST00000382762	protein_coding	KNOWN	CCDS41582	19348	336	111	202926	207428	-1	None	GS15, GOLIM3
11	BET1L	ENSG00000177951	ENST00000529614	protein_coding	NOVEL	None	19348	279	92	205074	207374	-1	None	GS15, GOLIM3
11	BET1L	ENSG00000177951	ENST00000332865	protein_coding	PUTATIVE	None	19348	177	58	205103	207356	-1	None	GS15, GOLIM3
11	BET1L	ENSG00000177951	ENST00000486280	protein_coding	PUTATIVE	None	19348	267	88	205169	207221	-1	None	GS15, GOLIM3
11	BET1L	ENSG00000177951	ENST00000479463	retained_intron	KNOWN	None	19348	None	None	205436	207378	-1	None	GS15, GOLIM3
14	CKB	ENSG00000166165	ENST00000348956	protein_coding	KNOWN	CCDS9981	1991	1146	381	103985996	103989448	-1	CKBB	None
14	CKB	ENSG00000166165	ENST00000554989	nonsense_mediated_decay	KNOWN	None	1991	61	19	103986005	103987659	-1	CKBB	None
14	CKB	ENSG00000166165	ENST00000554282	retained_intron	KNOWN	None	1991	None	None	103986016	103987780	-1	CKBB	None
14	CKB	ENSG00000166165	ENST00000553528	retained_intron	KNOWN	None	1991	None	None	103986032	103988107	-1	CKBB	None
14	CKB	ENSG00000166165	ENST00000553652	nonsense_mediated_decay	KNOWN	None	1991	177	58	103986039	103989158	-1	CKBB	None
14	CKB	ENSG00000166165	ENST00000553610	protein_coding	NOVEL	None	1991	540	179	103986199	103987679	-1	CKBB	None
14	CKB	ENSG00000166165	ENST00000555039	protein_coding	NOVEL	None	1991	270	89	103986329	103987438	-1	CKBB	None
14	CKB	ENSG00000166165	ENST00000555366	retained_intron	KNOWN	None	1991	None	None	103986490	103987065	-1	CKBB	None
14	CKB	ENSG00000166165	ENST00000557569	retained_intron	KNOWN	None	1991	None	None	103987574	103988535	-1	CKBB	None
14	CKB	ENSG00000166165	ENST00000554426	retained_intron	KNOWN	None	1991	None	None	103987599	103989139	-1	CKBB	None
14	CKB	ENSG00000166165	ENST00000553878	protein_coding	KNOWN	None	1991	653	216	103987600	103989033	-1	CKBB	None
14	CKB	ENSG00000166165	ENST00000557287	retained_intron	KNOWN	None	1991	None	None	103987620	103988639	-1	CKBB	None
14	CKB	ENSG00000166165	ENST00000555659	retained_intron	KNOWN	None	1991	None	None	103987958	103989167	-1	CKBB	None
14	CKB	ENSG00000166165	ENST00000554705	retained_intron	KNOWN	None	1991	None	None	103987985	103989170	-1	CKBB	None
14	CKB	ENSG00000166165	ENST00000555770	retained_intron	KNOWN	None	1991	None	None	103988020	103989167	-1	CKBB	None
14	CKB	ENSG00000166165	ENST00000557530	protein_coding	PUTATIVE	None	1991	385	127	103988164	103989170	-1	CKBB	None
14	CKB	ENSG00000166165	ENST00000553994	retained_intron	KNOWN	None	1991	None	None	103988165	103989033	-1	CKBB	None
16	CHP2	ENSG00000166869	ENST00000300113	protein_coding	KNOWN	CCDS10617	24927	591	196	23765948	23770272	1	None	None
6	FNDC1	ENSG00000164694	ENST00000297267	protein_coding	KNOWN	CCDS47512	21184	5685	1894	159590429	159693141	1	FNDC2	bA243O10.1, KIAA1866, dJ322A24.1
6	FNDC1	ENSG00000164694	ENST00000329629	protein_coding	NOVEL	None	21184	5371	1789	159618479	159693137	1	FNDC2	bA243O10.1, KIAA1866, dJ322A24.1
6	FNDC1	ENSG00000164694	ENST00000480856	processed_transcript	KNOWN	None	21184	None	None	159639329	159647586	1	FNDC2	bA243O10.1, KIAA1866, dJ322A24.1
6	FNDC1	ENSG00000164694	ENST00000340366	protein_coding	KNOWN	None	21184	5496	1831	159590429	159693137	1	FNDC2	bA243O10.1, KIAA1866, dJ322A24.1
16	C16orf91	ENSG00000174109	ENST00000442039	protein_coding	KNOWN	None	27558	399	132	1469745	1470801	-1	None	gs103, CCSMST1
16	C16orf91	ENSG00000174109	ENST00000563974	protein_coding	PUTATIVE	None	27558	198	65	1469753	1470757	-1	None	gs103, CCSMST1
16	C16orf91	ENSG00000174109	ENST00000310355	protein_coding	KNOWN	CCDS32360	27558	1071	356	1469944	1479345	-1	None	gs103, CCSMST1
15	GCOM1	ENSG00000137878	ENST00000380569	protein_coding	KNOWN	CCDS32247	26424	1653	550	57884106	58006943	1	None	FLJ30973, GRINL1A, MYZAP-POLR2M
15	GCOM1	ENSG00000137878	ENST00000587652	protein_coding	NOVEL	None	26424	2298	765	57884212	58006887	1	None	FLJ30973, GRINL1A, MYZAP-POLR2M
15	GCOM1	ENSG00000137878	ENST00000496101	nonsense_mediated_decay	KNOWN	None	26424	1248	415	57884231	57999153	1	None	FLJ30973, GRINL1A, MYZAP-POLR2M
15	GCOM1	ENSG00000137878	ENST00000471563	nonsense_mediated_decay	KNOWN	None	26424	1194	397	57884231	57999153	1	None	FLJ30973, GRINL1A, MYZAP-POLR2M
15	GCOM1	ENSG00000137878	ENST00000488175	nonsense_mediated_decay	KNOWN	CCDS10162	26424	1401	466	57884231	57999153	1	None	FLJ30973, GRINL1A, MYZAP-POLR2M
15	GCOM1	ENSG00000137878	ENST00000468886	nonsense_mediated_decay	KNOWN	None	26424	1308	435	57884231	57999153	1	None	FLJ30973, GRINL1A, MYZAP-POLR2M
15	GCOM1	ENSG00000137878	ENST00000496627	nonsense_mediated_decay	KNOWN	None	26424	1173	390	57884231	58006943	1	None	FLJ30973, GRINL1A, MYZAP-POLR2M
15	GCOM1	ENSG00000137878	ENST00000460962	nonsense_mediated_decay	KNOWN	CCDS42044	26424	1317	438	57884231	58006943	1	None	FLJ30973, GRINL1A, MYZAP-POLR2M
15	GCOM1	ENSG00000137878	ENST00000380568	protein_coding	KNOWN	CCDS42043	26424	1338	445	57884231	58006943	1	None	FLJ30973, GRINL1A, MYZAP-POLR2M
15	GCOM1	ENSG00000137878	ENST00000463717	nonsense_mediated_decay	KNOWN	None	26424	1245	414	57884231	58006943	1	None	FLJ30973, GRINL1A, MYZAP-POLR2M
15	GCOM1	ENSG00000137878	ENST00000482814	nonsense_mediated_decay	KNOWN	None	26424	1224	407	57884231	58006943	1	None	FLJ30973, GRINL1A, MYZAP-POLR2M
15	GCOM1	ENSG00000137878	ENST00000477282	nonsense_mediated_decay	KNOWN	None	26424	1140	379	57884231	58006943	1	None	FLJ30973, GRINL1A, MYZAP-POLR2M
15	GCOM1	ENSG00000137878	ENST00000484300	processed_transcript	KNOWN	None	26424	None	None	57972896	58006943	1	None	FLJ30973, GRINL1A, MYZAP-POLR2M
15	GCOM1	ENSG00000137878	ENST00000569945	retained_intron	KNOWN	None	26424	None	None	57982562	57984896	1	None	FLJ30973, GRINL1A, MYZAP-POLR2M
15	GCOM1	ENSG00000137878	ENST00000380561	protein_coding	KNOWN	None	26424	1248	415	57884114	57998252	1	None	FLJ30973, GRINL1A, MYZAP-POLR2M
15	GCOM1	ENSG00000137878	ENST00000574161	protein_coding	KNOWN	CCDS10162	26424	1401	466	57884114	57977560	1	None	FLJ30973, GRINL1A, MYZAP-POLR2M
15	GCOM1	ENSG00000137878	ENST00000572390	protein_coding	KNOWN	CCDS42044	26424	1317	438	57884114	57977560	1	None	FLJ30973, GRINL1A, MYZAP-POLR2M
15	GCOM1	ENSG00000137878	ENST00000396180	protein_coding	KNOWN	None	26424	1308	435	57884114	57976696	1	None	FLJ30973, GRINL1A, MYZAP-POLR2M
15	GCOM1	ENSG00000137878	ENST00000380560	protein_coding	KNOWN	None	26424	1194	397	57884114	57976696	1	None	FLJ30973, GRINL1A, MYZAP-POLR2M
15	HDDC3	ENSG00000184508	ENST00000394272	protein_coding	KNOWN	None	30522	540	179	91474148	91475799	-1	None	MGC45386
15	HDDC3	ENSG00000184508	ENST00000330334	protein_coding	KNOWN	CCDS10366	30522	423	140	91474155	91475776	-1	None	MGC45386
15	HDDC3	ENSG00000184508	ENST00000494993	retained_intron	KNOWN	None	30522	None	None	91474155	91475782	-1	None	MGC45386
15	HDDC3	ENSG00000184508	ENST00000559898	protein_coding	PUTATIVE	None	30522	432	143	91474329	91475780	-1	None	MGC45386
15	HDDC3	ENSG00000184508	ENST00000559834	retained_intron	KNOWN	None	30522	None	None	91474381	91475754	-1	None	MGC45386
15	HDDC3	ENSG00000184508	ENST00000561036	protein_coding	NOVEL	None	30522	457	151	91474567	91475706	-1	None	MGC45386
17	ALOX15B	ENSG00000179593	ENST00000380183	protein_coding	KNOWN	CCDS11128	434	2031	676	7942335	7952452	1	None	15-LOX-2
17	ALOX15B	ENSG00000179593	ENST00000572022	protein_coding	NOVEL	None	434	1995	664	7942352	7952162	1	None	15-LOX-2
17	ALOX15B	ENSG00000179593	ENST00000571240	retained_intron	KNOWN	None	434	None	None	7942419	7952452	1	None	15-LOX-2
17	ALOX15B	ENSG00000179593	ENST00000573359	protein_coding	KNOWN	CCDS32559	434	1809	602	7942474	7951883	1	None	15-LOX-2
17	ALOX15B	ENSG00000179593	ENST00000380173	protein_coding	KNOWN	CCDS32558	434	1944	647	7942358	7952428	1	None	15-LOX-2
16	PRKCB	ENSG00000166501	ENST00000321728	protein_coding	KNOWN	CCDS10618	9395	2016	671	23847322	24231932	1	PRKCB2, PKCB, PRKCB1	None
16	PRKCB	ENSG00000166501	ENST00000303531	protein_coding	KNOWN	CCDS10619	9395	2022	673	23847345	24231932	1	PRKCB2, PKCB, PRKCB1	None
16	PRKCB	ENSG00000166501	ENST00000498058	protein_coding	PUTATIVE	None	9395	174	57	23847403	23880647	1	PRKCB2, PKCB, PRKCB1	None
16	PRKCB	ENSG00000166501	ENST00000498739	protein_coding	PUTATIVE	None	9395	359	118	23848544	24124386	1	PRKCB2, PKCB, PRKCB1	None
16	PRKCB	ENSG00000166501	ENST00000486868	retained_intron	KNOWN	None	9395	None	None	24043301	24104181	1	PRKCB2, PKCB, PRKCB1	None
16	PRKCB	ENSG00000166501	ENST00000482000	processed_transcript	PUTATIVE	None	9395	None	None	24104111	24122642	1	PRKCB2, PKCB, PRKCB1	None
16	PRKCB	ENSG00000166501	ENST00000472066	protein_coding	PUTATIVE	None	9395	391	129	24163006	24192166	1	PRKCB2, PKCB, PRKCB1	None
16	PRKCB	ENSG00000166501	ENST00000463752	retained_intron	KNOWN	None	9395	None	None	24183497	24186251	1	PRKCB2, PKCB, PRKCB1	None
16	PRKCB	ENSG00000166501	ENST00000487674	retained_intron	KNOWN	None	9395	None	None	24185537	24196888	1	PRKCB2, PKCB, PRKCB1	None
16	PRKCB	ENSG00000166501	ENST00000466124	protein_coding	PUTATIVE	None	9395	367	121	24196852	24202909	1	PRKCB2, PKCB, PRKCB1	None
5	SLC12A7	ENSG00000113504	ENST00000264930	protein_coding	KNOWN	CCDS34129	10915	3252	1083	1050499	1112150	-1	None	KCC4, DKFZP434F076
5	SLC12A7	ENSG00000113504	ENST00000514994	retained_intron	KNOWN	None	10915	None	None	1057326	1063997	-1	None	KCC4, DKFZP434F076
5	SLC12A7	ENSG00000113504	ENST00000513223	protein_coding	PUTATIVE	None	10915	1041	346	1057643	1074825	-1	None	KCC4, DKFZP434F076
5	SLC12A7	ENSG00000113504	ENST00000504576	retained_intron	KNOWN	None	10915	None	None	1074681	1076897	-1	None	KCC4, DKFZP434F076
5	SLC12A7	ENSG00000113504	ENST00000510943	retained_intron	KNOWN	None	10915	None	None	1078634	1081773	-1	None	KCC4, DKFZP434F076
7	LRWD1	ENSG00000161036	ENST00000292616	protein_coding	KNOWN	CCDS34715	21769	1944	647	102105376	102113615	1	None	DKFZp434K1815, ORCA, CENP-33
7	LRWD1	ENSG00000161036	ENST00000463739	nonsense_mediated_decay	KNOWN	None	21769	84	27	102105403	102108824	1	None	DKFZp434K1815, ORCA, CENP-33
7	LRWD1	ENSG00000161036	ENST00000464107	nonsense_mediated_decay	KNOWN	None	21769	138	45	102105448	102107823	1	None	DKFZp434K1815, ORCA, CENP-33
7	LRWD1	ENSG00000161036	ENST00000473880	retained_intron	KNOWN	None	21769	None	None	102105470	102113613	1	None	DKFZp434K1815, ORCA, CENP-33
7	LRWD1	ENSG00000161036	ENST00000476270	nonsense_mediated_decay	KNOWN	None	21769	124	40	102105542	102106717	1	None	DKFZp434K1815, ORCA, CENP-33
7	LRWD1	ENSG00000161036	ENST00000485808	nonsense_mediated_decay	KNOWN	None	21769	538	178	102105599	102109006	1	None	DKFZp434K1815, ORCA, CENP-33
7	LRWD1	ENSG00000161036	ENST00000485417	retained_intron	KNOWN	None	21769	None	None	102107789	102108892	1	None	DKFZp434K1815, ORCA, CENP-33
7	LRWD1	ENSG00000161036	ENST00000468175	protein_coding	PUTATIVE	None	21769	728	241	102110036	102113615	1	None	DKFZp434K1815, ORCA, CENP-33
19	KCNC3	ENSG00000131398	ENST00000376959	protein_coding	NOVEL	None	6235	2187	728	50815194	50832503	-1	SCA13	Kv3.3
19	KCNC3	ENSG00000131398	ENST00000474951	protein_coding	PUTATIVE	None	6235	135	44	50815199	50836772	-1	SCA13	Kv3.3
19	KCNC3	ENSG00000131398	ENST00000477616	protein_coding	KNOWN	CCDS12793	6235	2274	757	50818765	50832634	-1	SCA13	Kv3.3
19	KCNC3	ENSG00000131398	ENST00000391818	protein_coding	KNOWN	None	6235	468	155	50815199	50836772	-1	SCA13	Kv3.3
X	IL9R	ENSG00000124334	ENST00000244174	protein_coding	KNOWN	CCDS14771	6030	1566	521	155227246	155240273	1	None	CD129
X	IL9R	ENSG00000124334	ENST00000369423	protein_coding	KNOWN	CCDS59180	6030	1029	342	155227371	155240482	1	None	CD129
X	IL9R	ENSG00000124334	ENST00000489233	processed_transcript	KNOWN	None	6030	None	None	155227399	155232635	1	None	CD129
X	IL9R	ENSG00000124334	ENST00000494962	processed_transcript	KNOWN	None	6030	None	None	155235779	155237711	1	None	CD129
X	IL9R	ENSG00000124334	ENST00000540897	protein_coding	KNOWN	None	6030	999	332	155227371	155240482	1	None	CD129
X	IL9R	ENSG00000124334	ENST00000424344	protein_coding	KNOWN	None	6030	1503	500	155227246	155240482	1	None	CD129
14	GPR137C	ENSG00000180998	ENST00000321662	protein_coding	KNOWN	CCDS45106	25445	1290	429	53019866	53104431	1	None	DKFZp762F0713, TM7SF1L2
14	GPR137C	ENSG00000180998	ENST00000542169	protein_coding	NOVEL	None	25445	1198	398	53020006	53103443	1	None	DKFZp762F0713, TM7SF1L2
14	GPR137C	ENSG00000180998	ENST00000555622	protein_coding	NOVEL	None	25445	613	203	53020137	53098978	1	None	DKFZp762F0713, TM7SF1L2
14	GPR137C	ENSG00000180998	ENST00000555369	retained_intron	KNOWN	None	25445	None	None	53078198	53104431	1	None	DKFZp762F0713, TM7SF1L2
X	MAGEE2	ENSG00000186675	ENST00000373359	protein_coding	KNOWN	CCDS14431	24935	1572	523	75002823	75005079	-1	None	HCA3
7	DDX56	ENSG00000136271	ENST00000258772	protein_coding	KNOWN	CCDS5492	18193	1644	547	44605016	44613601	-1	None	NOH61
7	DDX56	ENSG00000136271	ENST00000446987	nonsense_mediated_decay	KNOWN	None	18193	558	185	44605403	44613494	-1	None	NOH61
7	DDX56	ENSG00000136271	ENST00000421223	nonsense_mediated_decay	KNOWN	None	18193	1128	375	44605404	44614650	-1	None	NOH61
7	DDX56	ENSG00000136271	ENST00000479602	processed_transcript	KNOWN	None	18193	None	None	44605406	44607381	-1	None	NOH61
7	DDX56	ENSG00000136271	ENST00000485367	processed_transcript	KNOWN	None	18193	None	None	44605418	44613357	-1	None	NOH61
7	DDX56	ENSG00000136271	ENST00000467318	processed_transcript	KNOWN	None	18193	None	None	44605436	44613263	-1	None	NOH61
7	DDX56	ENSG00000136271	ENST00000433257	nonsense_mediated_decay	KNOWN	None	18193	1189	395	44605436	44613263	-1	None	NOH61
7	DDX56	ENSG00000136271	ENST00000431640	protein_coding	NOVEL	CCDS59053	18193	1524	507	44605601	44613524	-1	None	NOH61
7	DDX56	ENSG00000136271	ENST00000448192	protein_coding	PUTATIVE	None	18193	549	182	44605737	44609441	-1	None	NOH61
7	DDX56	ENSG00000136271	ENST00000415758	nonsense_mediated_decay	KNOWN	None	18193	312	103	44607815	44613507	-1	None	NOH61
7	DDX56	ENSG00000136271	ENST00000473924	retained_intron	KNOWN	None	18193	None	None	44609351	44610364	-1	None	NOH61
7	DDX56	ENSG00000136271	ENST00000479440	retained_intron	KNOWN	None	18193	None	None	44612249	44613524	-1	None	NOH61
11	FAM168A	ENSG00000054965	ENST00000064778	protein_coding	KNOWN	None	28999	735	244	73111532	73309234	-1	KIAA0280	TCRP1
11	FAM168A	ENSG00000054965	ENST00000450446	protein_coding	KNOWN	None	28999	390	129	73117028	73309143	-1	KIAA0280	TCRP1
11	FAM168A	ENSG00000054965	ENST00000356467	protein_coding	KNOWN	CCDS41689	28999	708	235	73117028	73309228	-1	KIAA0280	TCRP1
11	FAM168A	ENSG00000054965	ENST00000432223	retained_intron	KNOWN	None	28999	None	None	73141208	73179537	-1	KIAA0280	TCRP1
X	PBDC1	ENSG00000102390	ENST00000373358	protein_coding	KNOWN	CCDS14432	28790	702	233	75392771	75398039	1	CXorf26	MGC874
X	PBDC1	ENSG00000102390	ENST00000373357	protein_coding	KNOWN	None	28790	699	232	75392875	75398031	1	CXorf26	MGC874
12	CCDC77	ENSG00000120647	ENST00000537453	processed_transcript	PUTATIVE	None	28203	None	None	498439	499291	1	None	MGC13183
12	CCDC77	ENSG00000120647	ENST00000540180	protein_coding	KNOWN	CCDS44781	28203	1371	456	498514	551170	1	None	MGC13183
12	CCDC77	ENSG00000120647	ENST00000535052	protein_coding	KNOWN	None	28203	276	91	498528	527665	1	None	MGC13183
12	CCDC77	ENSG00000120647	ENST00000543504	protein_coding	KNOWN	None	28203	1158	385	498561	550096	1	None	MGC13183
12	CCDC77	ENSG00000120647	ENST00000540344	processed_transcript	KNOWN	None	28203	None	None	498585	542646	1	None	MGC13183
12	CCDC77	ENSG00000120647	ENST00000239830	protein_coding	KNOWN	CCDS8503	28203	1467	488	510742	551811	1	None	MGC13183
12	CCDC77	ENSG00000120647	ENST00000412006	protein_coding	KNOWN	CCDS44781	28203	1371	456	510803	551808	1	None	MGC13183
12	CCDC77	ENSG00000120647	ENST00000535959	retained_intron	KNOWN	None	28203	None	None	510817	518947	1	None	MGC13183
12	CCDC77	ENSG00000120647	ENST00000538160	retained_intron	KNOWN	None	28203	None	None	510828	528047	1	None	MGC13183
12	CCDC77	ENSG00000120647	ENST00000540118	retained_intron	KNOWN	None	28203	None	None	542377	547777	1	None	MGC13183
12	CCDC77	ENSG00000120647	ENST00000537286	processed_transcript	KNOWN	None	28203	None	None	547627	551551	1	None	MGC13183
12	CCDC77	ENSG00000120647	ENST00000422000	protein_coding	KNOWN	CCDS44781	28203	1371	456	498516	551804	1	None	MGC13183
16	CCDC154	ENSG00000197599	ENST00000483702	nonsense_mediated_decay	KNOWN	None	34454	300	99	1484384	1487904	-1	C16orf29	LOC645811
16	CCDC154	ENSG00000197599	ENST00000409671	protein_coding	PUTATIVE	None	34454	1569	522	1484386	1494557	-1	C16orf29	LOC645811
16	CCDC154	ENSG00000197599	ENST00000463299	retained_intron	KNOWN	None	34454	None	None	1484389	1485309	-1	C16orf29	LOC645811
16	CCDC154	ENSG00000197599	ENST00000389176	protein_coding	KNOWN	None	34454	2025	674	1484389	1494490	-1	C16orf29	LOC645811
14	TRMT61A	ENSG00000166166	ENST00000389749	protein_coding	KNOWN	CCDS41994	23790	870	289	103995521	104003410	1	C14orf172	FLJ40452, GCD14, Gcd14p, hTRM61
14	TRMT61A	ENSG00000166166	ENST00000299202	protein_coding	PUTATIVE	None	23790	575	190	103995563	104003410	1	C14orf172	FLJ40452, GCD14, Gcd14p, hTRM61
HSCHR6_MHC_COX	HSPA1B	ENSG00000224501	ENST00000391548	protein_coding	KNOWN	None	5233	1926	641	31782890	31785413	1	None	HSP70-2
14	ERO1L	ENSG00000197930	ENST00000395686	protein_coding	KNOWN	CCDS9709	13280	1407	468	53106634	53162423	-1	None	ERO1A, ERO1-alpha
14	ERO1L	ENSG00000197930	ENST00000553714	retained_intron	KNOWN	None	13280	None	None	53109934	53113128	-1	None	ERO1A, ERO1-alpha
14	ERO1L	ENSG00000197930	ENST00000554019	nonsense_mediated_decay	KNOWN	None	13280	774	257	53110006	53162606	-1	None	ERO1A, ERO1-alpha
14	ERO1L	ENSG00000197930	ENST00000556039	nonsense_mediated_decay	KNOWN	None	13280	774	257	53110123	53162618	-1	None	ERO1A, ERO1-alpha
14	ERO1L	ENSG00000197930	ENST00000555069	retained_intron	KNOWN	None	13280	None	None	53112910	53113842	-1	None	ERO1A, ERO1-alpha
14	ERO1L	ENSG00000197930	ENST00000556358	protein_coding	PUTATIVE	None	13280	225	74	53112970	53125259	-1	None	ERO1A, ERO1-alpha
14	ERO1L	ENSG00000197930	ENST00000556769	retained_intron	KNOWN	None	13280	None	None	53113097	53130920	-1	None	ERO1A, ERO1-alpha
14	ERO1L	ENSG00000197930	ENST00000554251	protein_coding	NOVEL	None	13280	507	168	53133095	53162247	-1	None	ERO1A, ERO1-alpha
14	ERO1L	ENSG00000197930	ENST00000557178	retained_intron	KNOWN	None	13280	None	None	53138292	53138953	-1	None	ERO1A, ERO1-alpha
14	ERO1L	ENSG00000197930	ENST00000556223	nonsense_mediated_decay	KNOWN	None	13280	378	125	53138543	53162247	-1	None	ERO1A, ERO1-alpha
19	ZNF781	ENSG00000196381	ENST00000358582	protein_coding	KNOWN	CCDS12507	26745	984	327	38158652	38183223	-1	None	FLJ37549
19	ZNF781	ENSG00000196381	ENST00000590008	protein_coding	KNOWN	CCDS12507	26745	984	327	38159755	38183201	-1	None	FLJ37549
19	ZNF781	ENSG00000196381	ENST00000593040	processed_transcript	KNOWN	None	26745	None	None	38161555	38183216	-1	None	FLJ37549
19	ZNF781	ENSG00000196381	ENST00000585624	processed_transcript	KNOWN	None	26745	None	None	38169524	38183134	-1	None	FLJ37549
X	FAM47C	ENSG00000198173	ENST00000358047	protein_coding	KNOWN	CCDS35227	25301	3108	1035	37026432	37029739	1	None	None
19	None	ENSG00000267552	ENST00000585547	nonsense_mediated_decay	KNOWN	None	None	195	64	38180766	38210089	-1	None	None
19	None	ENSG00000267552	ENST00000586606	nonsense_mediated_decay	KNOWN	None	None	393	130	38180784	38210026	-1	None	None
19	None	ENSG00000267552	ENST00000591114	nonsense_mediated_decay	KNOWN	None	None	120	39	38180785	38210026	-1	None	None
19	ZNF607	ENSG00000198182	ENST00000355202	protein_coding	KNOWN	CCDS33006	28192	2091	696	38187264	38210691	-1	None	MGC13071, FLJ14802
19	ZNF607	ENSG00000198182	ENST00000395835	protein_coding	KNOWN	CCDS54259	28192	2088	695	38187274	38210089	-1	None	MGC13071, FLJ14802
19	ZNF607	ENSG00000198182	ENST00000586559	nonsense_mediated_decay	KNOWN	None	28192	309	102	38190226	38210026	-1	None	MGC13071, FLJ14802
19	ZNF607	ENSG00000198182	ENST00000590670	protein_coding	PUTATIVE	None	28192	338	111	38190421	38210088	-1	None	MGC13071, FLJ14802
19	ZNF607	ENSG00000198182	ENST00000591664	protein_coding	NOVEL	None	28192	212	69	38190721	38210624	-1	None	MGC13071, FLJ14802
X	MAGEE1	ENSG00000198934	ENST00000361470	protein_coding	KNOWN	CCDS14433	24934	2874	957	75648046	75651744	1	None	KIAA1587, DAMAGE
19	NR1H2	ENSG00000131408	ENST00000600355	protein_coding	KNOWN	None	7965	122	39	50832910	50881068	1	UNR	NER, NER-I, RIP15, LXR-b
19	NR1H2	ENSG00000131408	ENST00000593532	nonsense_mediated_decay	KNOWN	None	7965	531	176	50832949	50886236	1	UNR	NER, NER-I, RIP15, LXR-b
19	NR1H2	ENSG00000131408	ENST00000600978	processed_transcript	KNOWN	None	7965	None	None	50832979	50874697	1	UNR	NER, NER-I, RIP15, LXR-b
19	NR1H2	ENSG00000131408	ENST00000595730	retained_intron	KNOWN	None	7965	None	None	50879714	50881412	1	UNR	NER, NER-I, RIP15, LXR-b
19	NR1H2	ENSG00000131408	ENST00000598168	protein_coding	NOVEL	None	7965	1293	430	50879715	50886235	1	UNR	NER, NER-I, RIP15, LXR-b
19	NR1H2	ENSG00000131408	ENST00000411902	protein_coding	NOVEL	CCDS58673	7965	1092	363	50879716	50885988	1	UNR	NER, NER-I, RIP15, LXR-b
19	NR1H2	ENSG00000131408	ENST00000253727	protein_coding	KNOWN	CCDS42593	7965	1383	460	50879726	50886239	1	UNR	NER, NER-I, RIP15, LXR-b
19	NR1H2	ENSG00000131408	ENST00000597790	protein_coding	KNOWN	None	7965	345	114	50879730	50881569	1	UNR	NER, NER-I, RIP15, LXR-b
19	NR1H2	ENSG00000131408	ENST00000597130	protein_coding	KNOWN	None	7965	629	208	50879730	50881935	1	UNR	NER, NER-I, RIP15, LXR-b
19	NR1H2	ENSG00000131408	ENST00000599105	protein_coding	NOVEL	None	7965	1251	416	50879730	50886207	1	UNR	NER, NER-I, RIP15, LXR-b
19	NR1H2	ENSG00000131408	ENST00000593926	protein_coding	KNOWN	CCDS42593	7965	1383	460	50880502	50886201	1	UNR	NER, NER-I, RIP15, LXR-b
19	NR1H2	ENSG00000131408	ENST00000597157	protein_coding	KNOWN	None	7965	684	227	50880691	50881990	1	UNR	NER, NER-I, RIP15, LXR-b
19	NR1H2	ENSG00000131408	ENST00000597085	retained_intron	KNOWN	None	7965	None	None	50881998	50885555	1	UNR	NER, NER-I, RIP15, LXR-b
19	NR1H2	ENSG00000131408	ENST00000542413	protein_coding	KNOWN	None	7965	576	191	50832949	50886218	1	UNR	NER, NER-I, RIP15, LXR-b
X	FGF16	ENSG00000196468	ENST00000439435	protein_coding	KNOWN	None	3672	350	115	76709648	76712769	1	None	None
10	SYT15	ENSG00000204176	ENST00000374328	protein_coding	KNOWN	None	17167	543	180	46955444	46967446	-1	None	CHR10SYT
10	SYT15	ENSG00000204176	ENST00000449358	processed_transcript	KNOWN	None	17167	None	None	46955991	46961727	-1	None	CHR10SYT
10	SYT15	ENSG00000204176	ENST00000503753	protein_coding	KNOWN	CCDS44375	17167	1173	390	46959118	46970484	-1	None	CHR10SYT
10	SYT15	ENSG00000204176	ENST00000374323	protein_coding	KNOWN	None	17167	1425	474	46960446	46971400	-1	None	CHR10SYT
10	SYT15	ENSG00000204176	ENST00000374321	protein_coding	KNOWN	CCDS44376	17167	1266	421	46961934	46970515	-1	None	CHR10SYT
10	SYT15	ENSG00000204176	ENST00000512997	protein_coding	PUTATIVE	None	17167	410	135	46965779	46970533	-1	None	CHR10SYT
10	SYT15	ENSG00000204176	ENST00000374325	protein_coding	KNOWN	CCDS44375	17167	1173	390	46955444	46970601	-1	None	CHR10SYT
6	HTR1E	ENSG00000168830	ENST00000369584	protein_coding	KNOWN	CCDS5006	5291	1098	365	87647410	87726401	1	None	5-HT1E
6	HTR1E	ENSG00000168830	ENST00000305344	protein_coding	KNOWN	CCDS5006	5291	1098	365	87647024	87726388	1	None	5-HT1E
6	CGA	ENSG00000135346	ENST00000369582	protein_coding	KNOWN	CCDS5007	1885	351	116	87795216	87804824	-1	None	HCG, GPHa, GPHA1, FSHA, LHA, TSHA
4	TRMT44	ENSG00000155275	ENST00000532937	retained_intron	KNOWN	None	26653	None	None	8437867	8441028	1	C4orf23, METTL19	FLJ35725, TRM44
4	TRMT44	ENSG00000155275	ENST00000513449	protein_coding	KNOWN	None	26653	1236	411	8440596	8470286	1	C4orf23, METTL19	FLJ35725, TRM44
4	TRMT44	ENSG00000155275	ENST00000528167	processed_transcript	KNOWN	None	26653	None	None	8442532	8451447	1	C4orf23, METTL19	FLJ35725, TRM44
4	TRMT44	ENSG00000155275	ENST00000389737	protein_coding	KNOWN	CCDS3402	26653	2274	757	8442550	8478253	1	C4orf23, METTL19	FLJ35725, TRM44
4	TRMT44	ENSG00000155275	ENST00000504134	protein_coding	NOVEL	None	26653	660	219	8442689	8451604	1	C4orf23, METTL19	FLJ35725, TRM44
4	TRMT44	ENSG00000155275	ENST00000532477	processed_transcript	KNOWN	None	26653	None	None	8456143	8478281	1	C4orf23, METTL19	FLJ35725, TRM44
4	TRMT44	ENSG00000155275	ENST00000531038	retained_intron	KNOWN	None	26653	None	None	8472653	8495258	1	C4orf23, METTL19	FLJ35725, TRM44
4	TRMT44	ENSG00000155275	ENST00000511149	processed_transcript	PUTATIVE	None	26653	None	None	8475034	8477692	1	C4orf23, METTL19	FLJ35725, TRM44
4	TRMT44	ENSG00000155275	ENST00000511366	processed_transcript	KNOWN	None	26653	None	None	8475243	8495258	1	C4orf23, METTL19	FLJ35725, TRM44
5	None	ENSG00000225940	ENST00000438651	protein_coding	NOVEL	None	None	384	127	55807394	55902059	-1	None	None
15	RCCD1	ENSG00000166965	ENST00000394258	protein_coding	KNOWN	CCDS32333	30457	1131	376	91498100	91506349	1	None	MGC14386
15	RCCD1	ENSG00000166965	ENST00000555155	protein_coding	NOVEL	None	30457	1125	374	91498111	91505554	1	None	MGC14386
15	RCCD1	ENSG00000166965	ENST00000555737	retained_intron	KNOWN	None	30457	None	None	91498114	91505452	1	None	MGC14386
15	RCCD1	ENSG00000166965	ENST00000556774	processed_transcript	KNOWN	None	30457	None	None	91498119	91503208	1	None	MGC14386
15	RCCD1	ENSG00000166965	ENST00000557266	retained_intron	KNOWN	None	30457	None	None	91498612	91505572	1	None	MGC14386
15	RCCD1	ENSG00000166965	ENST00000554302	retained_intron	KNOWN	None	30457	None	None	91498623	91500336	1	None	MGC14386
15	RCCD1	ENSG00000166965	ENST00000556618	protein_coding	KNOWN	CCDS32333	30457	1131	376	91499026	91505451	1	None	MGC14386
15	RCCD1	ENSG00000166965	ENST00000556333	nonsense_mediated_decay	KNOWN	None	30457	235	77	91499970	91504999	1	None	MGC14386
15	RCCD1	ENSG00000166965	ENST00000557750	retained_intron	KNOWN	None	30457	None	None	91502982	91505203	1	None	MGC14386
3	EEFSEC	ENSG00000132394	ENST00000254730	protein_coding	KNOWN	CCDS33849	24614	1791	596	127872297	128127485	1	None	SELB, EFSEC
3	EEFSEC	ENSG00000132394	ENST00000483457	protein_coding	NOVEL	None	24614	1311	436	127872344	128127485	1	None	SELB, EFSEC
3	EEFSEC	ENSG00000132394	ENST00000484438	processed_transcript	KNOWN	None	24614	None	None	127872511	128060351	1	None	SELB, EFSEC
3	EEFSEC	ENSG00000132394	ENST00000483569	processed_transcript	KNOWN	None	24614	None	None	128055747	128060631	1	None	SELB, EFSEC
19	ZNF573	ENSG00000189144	ENST00000590674	protein_coding	PUTATIVE	None	26420	57	18	38226734	38231039	-1	None	FLJ30921
19	ZNF573	ENSG00000189144	ENST00000590414	protein_coding	KNOWN	CCDS59381	26420	1998	665	38229188	38264391	-1	None	FLJ30921
19	ZNF573	ENSG00000189144	ENST00000589632	nonsense_mediated_decay	KNOWN	None	26420	378	125	38229188	38270200	-1	None	FLJ30921
19	ZNF573	ENSG00000189144	ENST00000586155	nonsense_mediated_decay	KNOWN	None	26420	315	104	38229203	38270225	-1	None	FLJ30921
19	ZNF573	ENSG00000189144	ENST00000392138	protein_coding	KNOWN	None	26420	1737	578	38229203	38307940	-1	None	FLJ30921
19	ZNF573	ENSG00000189144	ENST00000489148	nonsense_mediated_decay	KNOWN	None	26420	315	104	38230807	38264385	-1	None	FLJ30921
19	ZNF573	ENSG00000189144	ENST00000585724	protein_coding	PUTATIVE	None	26420	135	44	38230847	38270203	-1	None	FLJ30921
19	ZNF573	ENSG00000189144	ENST00000378445	protein_coding	KNOWN	None	26420	423	140	38230962	38270214	-1	None	FLJ30921
19	ZNF573	ENSG00000189144	ENST00000591516	nonsense_mediated_decay	KNOWN	None	26420	333	110	38230985	38270193	-1	None	FLJ30921
19	ZNF573	ENSG00000189144	ENST00000588218	protein_coding	NOVEL	None	26420	306	101	38260679	38270223	-1	None	FLJ30921
19	ZNF573	ENSG00000189144	ENST00000494605	processed_transcript	KNOWN	None	26420	None	None	38261047	38270518	-1	None	FLJ30921
19	ZNF573	ENSG00000189144	ENST00000480587	processed_transcript	KNOWN	None	26420	None	None	38283210	38307861	-1	None	FLJ30921
19	ZNF573	ENSG00000189144	ENST00000587684	processed_transcript	KNOWN	None	26420	None	None	38284073	38307901	-1	None	FLJ30921
19	ZNF573	ENSG00000189144	ENST00000586785	processed_transcript	KNOWN	None	26420	None	None	38284270	38307899	-1	None	FLJ30921
19	ZNF573	ENSG00000189144	ENST00000588443	processed_transcript	KNOWN	None	26420	None	None	38284616	38307932	-1	None	FLJ30921
19	ZNF573	ENSG00000189144	ENST00000589435	processed_transcript	KNOWN	None	26420	None	None	38284675	38307910	-1	None	FLJ30921
19	ZNF573	ENSG00000189144	ENST00000536220	protein_coding	KNOWN	CCDS54260	26420	1734	577	38229203	38270230	-1	None	FLJ30921
19	ZNF573	ENSG00000189144	ENST00000357309	protein_coding	KNOWN	CCDS54260	26420	1734	577	38229203	38270230	-1	None	FLJ30921
19	ZNF573	ENSG00000189144	ENST00000339503	protein_coding	KNOWN	CCDS12508	26420	1824	607	38229203	38270230	-1	None	FLJ30921
14	BAG5	ENSG00000166170	ENST00000445922	protein_coding	KNOWN	CCDS9982	941	1344	447	104022882	104028655	-1	None	None
14	BAG5	ENSG00000166170	ENST00000337322	protein_coding	KNOWN	CCDS41995	941	1467	488	104025956	104028635	-1	None	None
14	BAG5	ENSG00000166170	ENST00000557666	protein_coding	KNOWN	None	941	634	210	104026868	104029168	-1	None	None
14	BAG5	ENSG00000166170	ENST00000299204	protein_coding	KNOWN	CCDS9982	941	1344	447	104022881	104029151	-1	None	None
X	ATRX	ENSG00000085224	ENST00000373344	protein_coding	KNOWN	CCDS14434	886	7479	2492	76760356	77041702	-1	RAD54, JMS	XH2, XNP
X	ATRX	ENSG00000085224	ENST00000395603	protein_coding	KNOWN	CCDS14435	886	7365	2454	76760378	77041702	-1	RAD54, JMS	XH2, XNP
X	ATRX	ENSG00000085224	ENST00000480283	processed_transcript	KNOWN	None	886	None	None	76760378	77041702	-1	RAD54, JMS	XH2, XNP
X	ATRX	ENSG00000085224	ENST00000479487	processed_transcript	KNOWN	None	886	None	None	76855204	76856224	-1	RAD54, JMS	XH2, XNP
X	ATRX	ENSG00000085224	ENST00000400866	protein_coding	KNOWN	None	886	482	159	76871720	76876000	-1	RAD54, JMS	XH2, XNP
X	ATRX	ENSG00000085224	ENST00000460639	processed_transcript	KNOWN	None	886	None	None	76889913	76891547	-1	RAD54, JMS	XH2, XNP
X	ATRX	ENSG00000085224	ENST00000493470	processed_transcript	KNOWN	None	886	None	None	76931535	76937093	-1	RAD54, JMS	XH2, XNP
X	ATRX	ENSG00000085224	ENST00000373341	protein_coding	KNOWN	None	886	381	126	76949188	76972720	-1	RAD54, JMS	XH2, XNP
5	MAP3K1	ENSG00000095015	ENST00000399503	protein_coding	NOVEL	CCDS43318	6848	4539	1512	56111401	56191979	1	MEKK1	MEKK, MAPKKK1
5	MAP3K1	ENSG00000095015	ENST00000469188	retained_intron	KNOWN	None	6848	None	None	56181780	56191979	1	MEKK1	MEKK, MAPKKK1
16	CLCN7	ENSG00000103249	ENST00000563642	retained_intron	KNOWN	None	2025	None	None	1494935	1501970	-1	None	CLC-7, OPTA2, CLC7, ClC-7, PPP1R63
16	CLCN7	ENSG00000103249	ENST00000382745	protein_coding	KNOWN	CCDS32361	2025	2418	805	1494936	1525581	-1	None	CLC-7, OPTA2, CLC7, ClC-7, PPP1R63
16	CLCN7	ENSG00000103249	ENST00000565092	retained_intron	KNOWN	None	2025	None	None	1495345	1499798	-1	None	CLC-7, OPTA2, CLC7, ClC-7, PPP1R63
16	CLCN7	ENSG00000103249	ENST00000262318	protein_coding	PUTATIVE	None	2025	2706	901	1495345	1525058	-1	None	CLC-7, OPTA2, CLC7, ClC-7, PPP1R63
16	CLCN7	ENSG00000103249	ENST00000567836	retained_intron	KNOWN	None	2025	None	None	1496644	1498609	-1	None	CLC-7, OPTA2, CLC7, ClC-7, PPP1R63
16	CLCN7	ENSG00000103249	ENST00000567789	retained_intron	KNOWN	None	2025	None	None	1498293	1499264	-1	None	CLC-7, OPTA2, CLC7, ClC-7, PPP1R63
16	CLCN7	ENSG00000103249	ENST00000563822	retained_intron	KNOWN	None	2025	None	None	1505493	1509413	-1	None	CLC-7, OPTA2, CLC7, ClC-7, PPP1R63
16	CLCN7	ENSG00000103249	ENST00000569851	protein_coding	PUTATIVE	None	2025	648	215	1507255	1521957	-1	None	CLC-7, OPTA2, CLC7, ClC-7, PPP1R63
16	CLCN7	ENSG00000103249	ENST00000564968	retained_intron	KNOWN	None	2025	None	None	1507330	1509331	-1	None	CLC-7, OPTA2, CLC7, ClC-7, PPP1R63
16	CLCN7	ENSG00000103249	ENST00000561665	retained_intron	KNOWN	None	2025	None	None	1510770	1525077	-1	None	CLC-7, OPTA2, CLC7, ClC-7, PPP1R63
16	CLCN7	ENSG00000103249	ENST00000567139	retained_intron	KNOWN	None	2025	None	None	1510771	1525026	-1	None	CLC-7, OPTA2, CLC7, ClC-7, PPP1R63
16	CLCN7	ENSG00000103249	ENST00000564568	protein_coding	PUTATIVE	None	2025	356	117	1510840	1524366	-1	None	CLC-7, OPTA2, CLC7, ClC-7, PPP1R63
16	CLCN7	ENSG00000103249	ENST00000566812	processed_transcript	PUTATIVE	None	2025	None	None	1516600	1525078	-1	None	CLC-7, OPTA2, CLC7, ClC-7, PPP1R63
16	CLCN7	ENSG00000103249	ENST00000448525	protein_coding	KNOWN	CCDS45378	2025	2346	781	1494935	1525085	-1	None	CLC-7, OPTA2, CLC7, ClC-7, PPP1R63
9	SPTAN1	ENSG00000197694	ENST00000372731	protein_coding	KNOWN	CCDS6905	11273	7419	2472	131314869	131395941	1	None	None
9	SPTAN1	ENSG00000197694	ENST00000372739	protein_coding	KNOWN	CCDS48036	11273	7434	2477	131314869	131395941	1	None	None
9	SPTAN1	ENSG00000197694	ENST00000497216	processed_transcript	KNOWN	None	11273	None	None	131314884	131315615	1	None	None
9	SPTAN1	ENSG00000197694	ENST00000472211	processed_transcript	KNOWN	None	11273	None	None	131343235	131344225	1	None	None
9	SPTAN1	ENSG00000197694	ENST00000475367	processed_transcript	KNOWN	None	11273	None	None	131355263	131361983	1	None	None
9	SPTAN1	ENSG00000197694	ENST00000461855	processed_transcript	KNOWN	None	11273	None	None	131362243	131370268	1	None	None
9	SPTAN1	ENSG00000197694	ENST00000476825	processed_transcript	KNOWN	None	11273	None	None	131374180	131378085	1	None	None
9	SPTAN1	ENSG00000197694	ENST00000491712	processed_transcript	KNOWN	None	11273	None	None	131383457	131388134	1	None	None
9	SPTAN1	ENSG00000197694	ENST00000358161	protein_coding	KNOWN	None	11273	7434	2477	131314866	131395938	1	None	None
12	LIMA1	ENSG00000050405	ENST00000552491	protein_coding	KNOWN	None	24636	1371	456	50569571	50594630	-1	None	EPLIN
12	LIMA1	ENSG00000050405	ENST00000547825	protein_coding	KNOWN	CCDS58230	24636	1374	457	50569571	50595895	-1	None	EPLIN
12	LIMA1	ENSG00000050405	ENST00000552823	protein_coding	KNOWN	None	24636	1800	599	50569571	50616131	-1	None	EPLIN
12	LIMA1	ENSG00000050405	ENST00000394943	protein_coding	KNOWN	CCDS44877	24636	2283	760	50569571	50677289	-1	None	EPLIN
12	LIMA1	ENSG00000050405	ENST00000341247	protein_coding	KNOWN	CCDS8802	24636	2280	759	50569571	50677329	-1	None	EPLIN
12	LIMA1	ENSG00000050405	ENST00000552783	protein_coding	KNOWN	CCDS55826	24636	1803	600	50569573	50616488	-1	None	EPLIN
12	LIMA1	ENSG00000050405	ENST00000552909	protein_coding	PUTATIVE	None	24636	1797	598	50570668	50616139	-1	None	EPLIN
12	LIMA1	ENSG00000050405	ENST00000552720	nonsense_mediated_decay	KNOWN	None	24636	1167	388	50570789	50677239	-1	None	EPLIN
12	LIMA1	ENSG00000050405	ENST00000549064	retained_intron	KNOWN	None	24636	None	None	50571481	50575962	-1	None	EPLIN
12	LIMA1	ENSG00000050405	ENST00000552338	processed_transcript	KNOWN	None	24636	None	None	50571557	50589830	-1	None	EPLIN
12	LIMA1	ENSG00000050405	ENST00000552008	processed_transcript	KNOWN	None	24636	None	None	50586235	50614339	-1	None	EPLIN
12	LIMA1	ENSG00000050405	ENST00000552045	retained_intron	KNOWN	None	24636	None	None	50589401	50594675	-1	None	EPLIN
12	LIMA1	ENSG00000050405	ENST00000551486	retained_intron	KNOWN	None	24636	None	None	50598127	50615948	-1	None	EPLIN
12	LIMA1	ENSG00000050405	ENST00000550611	processed_transcript	KNOWN	None	24636	None	None	50615950	50618264	-1	None	EPLIN
12	LIMA1	ENSG00000050405	ENST00000551691	protein_coding	KNOWN	None	24636	391	129	50616043	50677267	-1	None	EPLIN
12	LIMA1	ENSG00000050405	ENST00000550592	protein_coding	KNOWN	None	24636	333	110	50616101	50643676	-1	None	EPLIN
X	None	ENSG00000228572	ENST00000431238	unprocessed_pseudogene	KNOWN	None	None	None	None	170410	172712	1	None	None
11	PLEKHB1	ENSG00000021300	ENST00000354190	protein_coding	KNOWN	CCDS44672	19079	732	243	73357223	73373864	1	PHRET1	PHR1, KPL1
11	PLEKHB1	ENSG00000021300	ENST00000398492	protein_coding	KNOWN	CCDS44673	19079	627	208	73357223	73373864	1	PHRET1	PHR1, KPL1
11	PLEKHB1	ENSG00000021300	ENST00000536527	protein_coding	NOVEL	None	19079	205	67	73357624	73362482	1	PHRET1	PHR1, KPL1
11	PLEKHB1	ENSG00000021300	ENST00000227214	protein_coding	KNOWN	CCDS44675	19079	570	189	73358594	73373864	1	PHRET1	PHR1, KPL1
11	PLEKHB1	ENSG00000021300	ENST00000398494	protein_coding	KNOWN	CCDS44674	19079	675	224	73358654	73373864	1	PHRET1	PHR1, KPL1
11	PLEKHB1	ENSG00000021300	ENST00000543085	protein_coding	NOVEL	None	19079	417	138	73358671	73372710	1	PHRET1	PHR1, KPL1
11	PLEKHB1	ENSG00000021300	ENST00000544532	processed_transcript	KNOWN	None	19079	None	None	73358698	73362924	1	PHRET1	PHR1, KPL1
11	PLEKHB1	ENSG00000021300	ENST00000545798	protein_coding	KNOWN	None	19079	254	83	73358700	73362896	1	PHRET1	PHR1, KPL1
11	PLEKHB1	ENSG00000021300	ENST00000539157	protein_coding	NOVEL	None	19079	463	153	73358700	73371801	1	PHRET1	PHR1, KPL1
11	PLEKHB1	ENSG00000021300	ENST00000546251	protein_coding	NOVEL	None	19079	439	145	73358700	73371811	1	PHRET1	PHR1, KPL1
11	PLEKHB1	ENSG00000021300	ENST00000535582	protein_coding	KNOWN	None	19079	351	116	73358700	73371815	1	PHRET1	PHR1, KPL1
11	PLEKHB1	ENSG00000021300	ENST00000538227	protein_coding	PUTATIVE	None	19079	454	150	73358700	73371918	1	PHRET1	PHR1, KPL1
11	PLEKHB1	ENSG00000021300	ENST00000541760	retained_intron	KNOWN	None	19079	None	None	73358734	73363115	1	PHRET1	PHR1, KPL1
11	PLEKHB1	ENSG00000021300	ENST00000543524	protein_coding	KNOWN	None	19079	464	153	73358759	73372541	1	PHRET1	PHR1, KPL1
11	PLEKHB1	ENSG00000021300	ENST00000541597	protein_coding	KNOWN	None	19079	490	162	73358977	73372567	1	PHRET1	PHR1, KPL1
11	PLEKHB1	ENSG00000021300	ENST00000535129	protein_coding	KNOWN	CCDS44675	19079	570	189	73359735	73372765	1	PHRET1	PHR1, KPL1
11	PLEKHB1	ENSG00000021300	ENST00000542389	protein_coding	KNOWN	None	19079	481	159	73359959	73371840	1	PHRET1	PHR1, KPL1
11	PLEKHB1	ENSG00000021300	ENST00000540431	protein_coding	NOVEL	None	19079	540	179	73360057	73372596	1	PHRET1	PHR1, KPL1
11	PLEKHB1	ENSG00000021300	ENST00000426191	retained_intron	KNOWN	None	19079	None	None	73363485	73373857	1	PHRET1	PHR1, KPL1
11	PLEKHB1	ENSG00000021300	ENST00000540157	retained_intron	KNOWN	None	19079	None	None	73363665	73371970	1	PHRET1	PHR1, KPL1
11	PLEKHB1	ENSG00000021300	ENST00000545106	retained_intron	KNOWN	None	19079	None	None	73371354	73372779	1	PHRET1	PHR1, KPL1
11	PLEKHB1	ENSG00000021300	ENST00000544282	processed_transcript	PUTATIVE	None	19079	None	None	73373398	73373860	1	PHRET1	PHR1, KPL1
X	LINC00685	ENSG00000226179	ENST00000391707	antisense	KNOWN	None	27560	None	None	281725	282586	1	CXYorf10, NCRNA00107, PPP2R3B-AS1	OTTHUMT00000055574
4	TIGD2	ENSG00000180346	ENST00000317005	protein_coding	KNOWN	CCDS3633	18333	1578	525	90033968	90036050	1	None	None
X	None	ENSG00000266731	ENST00000577553	miRNA	NOVEL	None	None	None	None	425316	425416	-1	None	None
X	FABP5P13	ENSG00000234958	ENST00000452144	processed_pseudogene	KNOWN	None	38717	None	None	484510	484837	-1	FABP5L13	None
X	KRT18P53	ENSG00000229232	ENST00000431919	processed_pseudogene	KNOWN	None	38714	None	None	505971	506087	-1	None	None
4	GPRIN3	ENSG00000185477	ENST00000333209	protein_coding	KNOWN	CCDS34030	27733	2331	776	90165429	90229161	-1	None	GRIN3, FLJ42625
17	ALOX12B	ENSG00000179477	ENST00000319144	protein_coding	KNOWN	CCDS11129	430	2106	701	7975954	7991021	-1	None	12R-LOX
17	ALOX12B	ENSG00000179477	ENST00000577351	processed_transcript	KNOWN	None	430	None	None	7976472	7982731	-1	None	12R-LOX
17	ALOX12B	ENSG00000179477	ENST00000583276	retained_intron	KNOWN	None	430	None	None	7979542	7983397	-1	None	12R-LOX
17	ALOX12B	ENSG00000179477	ENST00000584116	retained_intron	KNOWN	None	430	None	None	7979613	7983413	-1	None	12R-LOX
14	PSMC6	ENSG00000100519	ENST00000445930	protein_coding	KNOWN	CCDS9710	9553	1212	403	53173890	53195305	1	None	p42
14	PSMC6	ENSG00000100519	ENST00000555887	retained_intron	KNOWN	None	9553	None	None	53173896	53175807	1	None	p42
14	PSMC6	ENSG00000100519	ENST00000458604	retained_intron	KNOWN	None	9553	None	None	53173902	53185406	1	None	p42
14	PSMC6	ENSG00000100519	ENST00000557240	nonsense_mediated_decay	KNOWN	None	9553	294	97	53173910	53185020	1	None	p42
14	PSMC6	ENSG00000100519	ENST00000554956	retained_intron	KNOWN	None	9553	None	None	53173919	53175551	1	None	p42
14	PSMC6	ENSG00000100519	ENST00000554952	processed_transcript	KNOWN	None	9553	None	None	53173920	53177053	1	None	p42
14	PSMC6	ENSG00000100519	ENST00000553899	nonsense_mediated_decay	KNOWN	None	9553	111	36	53173920	53180620	1	None	p42
14	PSMC6	ENSG00000100519	ENST00000606149	protein_coding	KNOWN	None	9553	1170	389	53173922	53194709	1	None	p42
14	PSMC6	ENSG00000100519	ENST00000554044	nonsense_mediated_decay	KNOWN	None	9553	213	70	53173927	53185057	1	None	p42
14	PSMC6	ENSG00000100519	ENST00000555339	protein_coding	NOVEL	None	9553	582	193	53173937	53185057	1	None	p42
14	PSMC6	ENSG00000100519	ENST00000556813	protein_coding	NOVEL	None	9553	785	260	53173940	53190754	1	None	p42
14	PSMC6	ENSG00000100519	ENST00000553798	nonsense_mediated_decay	KNOWN	None	9553	100	32	53173949	53175384	1	None	p42
14	PSMC6	ENSG00000100519	ENST00000557517	nonsense_mediated_decay	KNOWN	None	9553	44	13	53174005	53176325	1	None	p42
14	PSMC6	ENSG00000100519	ENST00000557085	retained_intron	KNOWN	None	9553	None	None	53177264	53180750	1	None	p42
14	PSMC6	ENSG00000100519	ENST00000555175	nonsense_mediated_decay	KNOWN	None	9553	202	66	53184949	53194712	1	None	p42
14	PSMC6	ENSG00000100519	ENST00000551328	retained_intron	KNOWN	None	9553	None	None	53185225	53187696	1	None	p42
14	PSMC6	ENSG00000100519	ENST00000557557	processed_transcript	KNOWN	None	9553	None	None	53188218	53194708	1	None	p42
14	PSMC6	ENSG00000100519	ENST00000557632	retained_intron	KNOWN	None	9553	None	None	53190463	53194535	1	None	p42
6	ZNF292	ENSG00000188994	ENST00000392985	protein_coding	PUTATIVE	None	18410	201	66	87862551	87880082	1	None	KIAA0530, ZFP292, bA393I2.3, Zn-15, Zn-16
6	ZNF292	ENSG00000188994	ENST00000369577	protein_coding	KNOWN	CCDS47457	18410	8172	2723	87865267	87973914	1	None	KIAA0530, ZFP292, bA393I2.3, Zn-15, Zn-16
6	ZNF292	ENSG00000188994	ENST00000369578	processed_transcript	KNOWN	None	18410	None	None	87865283	87933654	1	None	KIAA0530, ZFP292, bA393I2.3, Zn-15, Zn-16
6	ZNF292	ENSG00000188994	ENST00000518845	protein_coding	NOVEL	None	18410	261	86	87865294	87953285	1	None	KIAA0530, ZFP292, bA393I2.3, Zn-15, Zn-16
6	ZNF292	ENSG00000188994	ENST00000339907	protein_coding	NOVEL	None	18410	8157	2718	87865299	87971638	1	None	KIAA0530, ZFP292, bA393I2.3, Zn-15, Zn-16
6	ZNF292	ENSG00000188994	ENST00000496806	protein_coding	PUTATIVE	None	18410	770	255	87865339	87970363	1	None	KIAA0530, ZFP292, bA393I2.3, Zn-15, Zn-16
6	ZNF292	ENSG00000188994	ENST00000524067	processed_transcript	KNOWN	None	18410	None	None	87923432	87932622	1	None	KIAA0530, ZFP292, bA393I2.3, Zn-15, Zn-16
6	ZNF292	ENSG00000188994	ENST00000485016	processed_transcript	KNOWN	None	18410	None	None	87923456	87932585	1	None	KIAA0530, ZFP292, bA393I2.3, Zn-15, Zn-16
6	ZNF292	ENSG00000188994	ENST00000466062	protein_coding	PUTATIVE	None	18410	397	131	87943242	87964767	1	None	KIAA0530, ZFP292, bA393I2.3, Zn-15, Zn-16
6	SOD2	ENSG00000112096	ENST00000367055	protein_coding	KNOWN	CCDS5265	11180	669	222	160100096	160114266	-1	None	None
6	SOD2	ENSG00000112096	ENST00000546260	nonsense_mediated_decay	KNOWN	None	11180	426	141	160100096	160114273	-1	None	None
6	SOD2	ENSG00000112096	ENST00000538183	protein_coding	KNOWN	CCDS5265	11180	669	222	160100096	160114360	-1	None	None
6	SOD2	ENSG00000112096	ENST00000367054	protein_coding	KNOWN	CCDS34564	11180	552	183	160100148	160114260	-1	None	None
6	SOD2	ENSG00000112096	ENST00000546087	protein_coding	PUTATIVE	None	11180	531	176	160100151	160183561	-1	None	None
6	SOD2	ENSG00000112096	ENST00000444946	protein_coding	NOVEL	None	11180	489	162	160103171	160114273	-1	None	None
6	SOD2	ENSG00000112096	ENST00000337404	protein_coding	KNOWN	CCDS34564	11180	552	183	160103197	160114310	-1	None	None
6	SOD2	ENSG00000112096	ENST00000535459	retained_intron	KNOWN	None	11180	None	None	160103493	160109380	-1	None	None
6	SOD2	ENSG00000112096	ENST00000541573	processed_transcript	KNOWN	None	11180	None	None	160103514	160113110	-1	None	None
6	SOD2	ENSG00000112096	ENST00000540491	processed_transcript	KNOWN	None	11180	None	None	160103642	160113682	-1	None	None
6	SOD2	ENSG00000112096	ENST00000545162	protein_coding	PUTATIVE	None	11180	571	189	160105907	160148389	-1	None	None
6	SOD2	ENSG00000112096	ENST00000535561	protein_coding	PUTATIVE	None	11180	550	182	160105928	160147976	-1	None	None
6	SOD2	ENSG00000112096	ENST00000537657	protein_coding	PUTATIVE	None	11180	335	110	160105936	160166218	-1	None	None
6	SOD2	ENSG00000112096	ENST00000401980	protein_coding	PUTATIVE	None	11180	183	60	160105971	160148385	-1	None	None
6	SOD2	ENSG00000112096	ENST00000452684	protein_coding	PUTATIVE	None	11180	423	140	160111951	160114276	-1	None	None
6	SOD2	ENSG00000112096	ENST00000535372	processed_transcript	KNOWN	None	11180	None	None	160181290	160183364	-1	None	None
4	GPR78	ENSG00000155269	ENST00000503981	processed_transcript	PUTATIVE	None	4528	None	None	8560452	8582251	1	None	None
4	GPR78	ENSG00000155269	ENST00000503448	processed_transcript	PUTATIVE	None	4528	None	None	8560559	8582438	1	None	None
4	GPR78	ENSG00000155269	ENST00000514302	nonsense_mediated_decay	KNOWN	None	4528	786	261	8580052	8621476	1	None	None
4	GPR78	ENSG00000155269	ENST00000509216	processed_transcript	KNOWN	None	4528	None	None	8581964	8589247	1	None	None
4	GPR78	ENSG00000155269	ENST00000382487	protein_coding	KNOWN	CCDS3403	4528	1092	363	8582293	8589275	1	None	None
4	GPR78	ENSG00000155269	ENST00000504255	processed_transcript	KNOWN	None	4528	None	None	8584518	8589477	1	None	None
4	GPR78	ENSG00000155269	ENST00000513120	retained_intron	KNOWN	None	4528	None	None	8603697	8621486	1	None	None
3	LSMEM2	ENSG00000179564	ENST00000316436	protein_coding	KNOWN	CCDS2814	26781	495	164	50316458	50325545	1	C3orf45	FLJ38608
17	None	ENSG00000214999	ENST00000399413	protein_coding	PUTATIVE	None	None	495	164	7982800	7984883	1	None	None
8	CYP7A1	ENSG00000167910	ENST00000301645	protein_coding	KNOWN	CCDS6171	2651	1515	504	59402737	59412795	-1	CYP7	None
11	SCGB1C1	ENSG00000188076	ENST00000342878	protein_coding	KNOWN	CCDS41581	18394	288	95	193080	194573	1	None	RYD5
3	DNAJB8	ENSG00000179407	ENST00000469083	protein_coding	KNOWN	CCDS3048	23699	699	232	128181282	128185811	-1	None	MGC33884
3	DNAJB8	ENSG00000179407	ENST00000319153	protein_coding	KNOWN	CCDS3048	23699	699	232	128181285	128186091	-1	None	MGC33884
10	PYROXD2	ENSG00000119943	ENST00000483923	processed_transcript	KNOWN	None	23517	None	None	100143322	100171634	-1	C10orf33	FLJ23849
10	PYROXD2	ENSG00000119943	ENST00000370575	protein_coding	KNOWN	CCDS7474	23517	1746	581	100143322	100174941	-1	C10orf33	FLJ23849
10	PYROXD2	ENSG00000119943	ENST00000464808	processed_transcript	KNOWN	None	23517	None	None	100146958	100148193	-1	C10orf33	FLJ23849
10	PYROXD2	ENSG00000119943	ENST00000494941	processed_transcript	KNOWN	None	23517	None	None	100173705	100174815	-1	C10orf33	FLJ23849
10	PYROXD2	ENSG00000119943	ENST00000462874	processed_transcript	KNOWN	None	23517	None	None	100173924	100174915	-1	C10orf33	FLJ23849
9	PAX5	ENSG00000196092	ENST00000358127	protein_coding	KNOWN	CCDS6607	8619	1176	391	36833272	37034103	-1	None	BSAP
9	PAX5	ENSG00000196092	ENST00000377853	protein_coding	NOVEL	None	8619	1089	362	36840169	37034038	-1	None	BSAP
9	PAX5	ENSG00000196092	ENST00000377840	nonsense_mediated_decay	KNOWN	None	8619	867	288	36840169	37034038	-1	None	BSAP
9	PAX5	ENSG00000196092	ENST00000377852	protein_coding	NOVEL	None	8619	1074	357	36840169	37034038	-1	None	BSAP
9	PAX5	ENSG00000196092	ENST00000523241	protein_coding	NOVEL	None	8619	975	324	36840169	37034038	-1	None	BSAP
9	PAX5	ENSG00000196092	ENST00000520154	protein_coding	NOVEL	None	8619	888	295	36840169	37034038	-1	None	BSAP
9	PAX5	ENSG00000196092	ENST00000520281	protein_coding	NOVEL	None	8619	960	319	36840548	37034028	-1	None	BSAP
9	PAX5	ENSG00000196092	ENST00000446742	protein_coding	NOVEL	None	8619	876	291	36840548	37034028	-1	None	BSAP
9	PAX5	ENSG00000196092	ENST00000522003	protein_coding	NOVEL	None	8619	852	283	36840548	37034028	-1	None	BSAP
9	PAX5	ENSG00000196092	ENST00000523145	protein_coding	NOVEL	None	8619	663	220	36840548	37034028	-1	None	BSAP
9	PAX5	ENSG00000196092	ENST00000523493	nonsense_mediated_decay	KNOWN	None	8619	924	307	36840548	37034028	-1	None	BSAP
9	PAX5	ENSG00000196092	ENST00000414447	protein_coding	NOVEL	None	8619	1047	348	36840548	37034028	-1	None	BSAP
9	PAX5	ENSG00000196092	ENST00000377847	protein_coding	NOVEL	None	8619	987	328	36840548	37034028	-1	None	BSAP
9	PAX5	ENSG00000196092	ENST00000524340	protein_coding	NOVEL	None	8619	657	218	36840555	37002672	-1	None	BSAP
9	PAX5	ENSG00000196092	ENST00000522932	protein_coding	NOVEL	None	8619	182	59	36840555	37002749	-1	None	BSAP
9	PAX5	ENSG00000196092	ENST00000520083	retained_intron	KNOWN	None	8619	None	None	36922691	36966586	-1	None	BSAP
17	ALOXE3	ENSG00000179148	ENST00000380149	protein_coding	PUTATIVE	None	13743	2604	867	7999218	8021807	-1	None	eLOX3, E-LOX
17	ALOXE3	ENSG00000179148	ENST00000448843	protein_coding	KNOWN	CCDS11130	13743	2136	711	7999219	8021831	-1	None	eLOX3, E-LOX
17	ALOXE3	ENSG00000179148	ENST00000583808	retained_intron	KNOWN	None	13743	None	None	7999567	8006833	-1	None	eLOX3, E-LOX
17	ALOXE3	ENSG00000179148	ENST00000318227	protein_coding	KNOWN	CCDS54084	13743	2532	843	7999693	8022365	-1	None	eLOX3, E-LOX
4	CPZ	ENSG00000109625	ENST00000360986	protein_coding	KNOWN	CCDS33953	2333	1959	652	8594387	8621478	1	None	None
4	CPZ	ENSG00000109625	ENST00000506287	processed_transcript	KNOWN	None	2333	None	None	8594435	8603225	1	None	None
4	CPZ	ENSG00000109625	ENST00000515606	nonsense_mediated_decay	KNOWN	None	2333	210	69	8594453	8621478	1	None	None
4	CPZ	ENSG00000109625	ENST00000315782	protein_coding	NOVEL	CCDS3404	2333	1926	641	8594483	8621476	1	None	None
4	CPZ	ENSG00000109625	ENST00000514602	retained_intron	KNOWN	None	2333	None	None	8594509	8603235	1	None	None
4	CPZ	ENSG00000109625	ENST00000504070	processed_transcript	KNOWN	None	2333	None	None	8594524	8603177	1	None	None
4	CPZ	ENSG00000109625	ENST00000514875	retained_intron	KNOWN	None	2333	None	None	8594561	8601688	1	None	None
4	CPZ	ENSG00000109625	ENST00000513486	retained_intron	KNOWN	None	2333	None	None	8619819	8621214	1	None	None
4	CPZ	ENSG00000109625	ENST00000382480	protein_coding	KNOWN	CCDS43212	2333	1548	515	8594435	8621488	1	None	None
4	CPZ	ENSG00000109625	ENST00000429646	protein_coding	KNOWN	None	2333	783	260	8603697	8621486	1	None	None
3	GATA2	ENSG00000179348	ENST00000341105	protein_coding	KNOWN	CCDS3049	4171	1443	480	128198270	128212028	-1	None	NFE1B
3	GATA2	ENSG00000179348	ENST00000489987	processed_transcript	KNOWN	None	4171	None	None	128198989	128200921	-1	None	NFE1B
3	GATA2	ENSG00000179348	ENST00000430265	protein_coding	KNOWN	CCDS46903	4171	1401	466	128198989	128206759	-1	None	NFE1B
3	GATA2	ENSG00000179348	ENST00000487848	protein_coding	KNOWN	CCDS3049	4171	1443	480	128199862	128207373	-1	None	NFE1B
3	GATA2	ENSG00000179348	ENST00000492608	protein_coding	KNOWN	None	4171	450	149	128204991	128209491	-1	None	NFE1B
3	GATA2	ENSG00000179348	ENST00000498200	protein_coding	KNOWN	None	4171	24	7	128205851	128212016	-1	None	NFE1B
11	ODF3	ENSG00000177947	ENST00000325113	protein_coding	KNOWN	CCDS7688	19905	765	254	196738	200258	1	None	SHIPPO1, hSHIPPO, CT135
11	ODF3	ENSG00000177947	ENST00000531679	retained_intron	KNOWN	None	19905	None	None	196795	200261	1	None	SHIPPO1, hSHIPPO, CT135
11	ODF3	ENSG00000177947	ENST00000525282	protein_coding	NOVEL	None	19905	624	207	196953	200071	1	None	SHIPPO1, hSHIPPO, CT135
11	ODF3	ENSG00000177947	ENST00000342593	protein_coding	KNOWN	None	19905	417	138	196761	198135	1	None	SHIPPO1, hSHIPPO, CT135
7	POLR2J	ENSG00000005075	ENST00000292614	protein_coding	KNOWN	CCDS5724	9197	354	117	102113565	102119354	-1	None	RPB11, hRPB14, RPB11A, RPB11m, POLR2J1
7	POLR2J	ENSG00000005075	ENST00000393794	protein_coding	KNOWN	None	9197	384	127	102113910	102119346	-1	None	RPB11, hRPB14, RPB11A, RPB11m, POLR2J1
3	IFRD2	ENSG00000214706	ENST00000417626	protein_coding	KNOWN	None	5457	1329	442	50325163	50330026	-1	None	SKMc15, SM15, IFNRP
3	IFRD2	ENSG00000214706	ENST00000426499	protein_coding	NOVEL	None	5457	216	71	50325174	50326070	-1	None	SKMc15, SM15, IFNRP
3	IFRD2	ENSG00000214706	ENST00000436390	protein_coding	KNOWN	None	5457	1329	442	50325174	50330349	-1	None	SKMc15, SM15, IFNRP
3	IFRD2	ENSG00000214706	ENST00000474556	retained_intron	KNOWN	None	5457	None	None	50325372	50329855	-1	None	SKMc15, SM15, IFNRP
3	IFRD2	ENSG00000214706	ENST00000464258	retained_intron	KNOWN	None	5457	None	None	50325562	50327032	-1	None	SKMc15, SM15, IFNRP
3	IFRD2	ENSG00000214706	ENST00000486322	retained_intron	KNOWN	None	5457	None	None	50325802	50326491	-1	None	SKMc15, SM15, IFNRP
3	IFRD2	ENSG00000214706	ENST00000438296	nonsense_mediated_decay	KNOWN	None	5457	513	170	50325861	50327682	-1	None	SKMc15, SM15, IFNRP
3	IFRD2	ENSG00000214706	ENST00000492387	retained_intron	KNOWN	None	5457	None	None	50325943	50326657	-1	None	SKMc15, SM15, IFNRP
3	IFRD2	ENSG00000214706	ENST00000469855	retained_intron	KNOWN	None	5457	None	None	50326094	50326694	-1	None	SKMc15, SM15, IFNRP
3	IFRD2	ENSG00000214706	ENST00000414734	nonsense_mediated_decay	KNOWN	None	5457	225	74	50326230	50329820	-1	None	SKMc15, SM15, IFNRP
3	IFRD2	ENSG00000214706	ENST00000483071	retained_intron	KNOWN	None	5457	None	None	50326639	50327501	-1	None	SKMc15, SM15, IFNRP
3	IFRD2	ENSG00000214706	ENST00000489569	retained_intron	KNOWN	None	5457	None	None	50326679	50329851	-1	None	SKMc15, SM15, IFNRP
3	IFRD2	ENSG00000214706	ENST00000484043	processed_transcript	KNOWN	None	5457	None	None	50327437	50329480	-1	None	SKMc15, SM15, IFNRP
3	IFRD2	ENSG00000214706	ENST00000462001	retained_intron	KNOWN	None	5457	None	None	50327440	50329867	-1	None	SKMc15, SM15, IFNRP
3	IFRD2	ENSG00000214706	ENST00000468737	processed_transcript	KNOWN	None	5457	None	None	50327612	50329487	-1	None	SKMc15, SM15, IFNRP
3	IFRD2	ENSG00000214706	ENST00000336089	protein_coding	KNOWN	None	5457	1827	608	50325188	50330349	-1	None	SKMc15, SM15, IFNRP
3	IFRD2	ENSG00000214706	ENST00000429673	protein_coding	KNOWN	CCDS46831	5457	1521	506	50325188	50329897	-1	None	SKMc15, SM15, IFNRP
11	RIC8A	ENSG00000177963	ENST00000526104	protein_coding	KNOWN	None	29550	1596	531	207511	215113	1	None	synembryn, synembryn-A
11	RIC8A	ENSG00000177963	ENST00000325207	protein_coding	KNOWN	CCDS7690	29550	1614	537	208530	215113	1	None	synembryn, synembryn-A
11	RIC8A	ENSG00000177963	ENST00000528357	protein_coding	NOVEL	None	29550	445	147	208800	209791	1	None	synembryn, synembryn-A
11	RIC8A	ENSG00000177963	ENST00000526982	nonsense_mediated_decay	KNOWN	None	29550	159	52	208800	210662	1	None	synembryn, synembryn-A
11	RIC8A	ENSG00000177963	ENST00000532373	retained_intron	KNOWN	None	29550	None	None	208837	209788	1	None	synembryn, synembryn-A
11	RIC8A	ENSG00000177963	ENST00000530889	protein_coding	NOVEL	None	29550	549	182	208841	209811	1	None	synembryn, synembryn-A
11	RIC8A	ENSG00000177963	ENST00000527696	protein_coding	PUTATIVE	None	29550	1578	525	209069	215113	1	None	synembryn, synembryn-A
11	RIC8A	ENSG00000177963	ENST00000527468	protein_coding	PUTATIVE	None	29550	134	43	209080	209738	1	None	synembryn, synembryn-A
11	RIC8A	ENSG00000177963	ENST00000527728	protein_coding	NOVEL	None	29550	859	285	209630	212724	1	None	synembryn, synembryn-A
11	RIC8A	ENSG00000177963	ENST00000527039	retained_intron	KNOWN	None	29550	None	None	209745	212591	1	None	synembryn, synembryn-A
11	RIC8A	ENSG00000177963	ENST00000530149	retained_intron	KNOWN	None	29550	None	None	210364	213780	1	None	synembryn, synembryn-A
11	RIC8A	ENSG00000177963	ENST00000532241	retained_intron	KNOWN	None	29550	None	None	212468	212916	1	None	synembryn, synembryn-A
11	RIC8A	ENSG00000177963	ENST00000524854	protein_coding	NOVEL	None	29550	442	146	212728	214557	1	None	synembryn, synembryn-A
11	RIC8A	ENSG00000177963	ENST00000529275	protein_coding	PUTATIVE	None	29550	440	145	212870	214495	1	None	synembryn, synembryn-A
11	RIC8A	ENSG00000177963	ENST00000526557	retained_intron	KNOWN	None	29550	None	None	213036	214516	1	None	synembryn, synembryn-A
11	RIC8A	ENSG00000177963	ENST00000531541	processed_transcript	KNOWN	None	29550	None	None	213449	214556	1	None	synembryn, synembryn-A
7	RASA4B	ENSG00000170667	ENST00000477184	retained_intron	KNOWN	None	35202	None	None	102122892	102133758	-1	None	None
7	RASA4B	ENSG00000170667	ENST00000488284	retained_intron	KNOWN	None	35202	None	None	102123591	102135315	-1	None	None
7	RASA4B	ENSG00000170667	ENST00000465829	protein_coding	KNOWN	None	35202	2412	803	102123591	102158228	-1	None	None
7	RASA4B	ENSG00000170667	ENST00000495352	retained_intron	KNOWN	None	35202	None	None	102123618	102135269	-1	None	None
7	RASA4B	ENSG00000170667	ENST00000481893	protein_coding	NOVEL	None	35202	2196	731	102123791	102184211	-1	None	None
7	RASA4B	ENSG00000170667	ENST00000467351	retained_intron	KNOWN	None	35202	None	None	102123931	102133758	-1	None	None
7	RASA4B	ENSG00000170667	ENST00000306682	protein_coding	NOVEL	None	35202	2196	731	102124009	102158202	-1	None	None
7	RASA4B	ENSG00000170667	ENST00000541662	protein_coding	KNOWN	CCDS59506	35202	2274	757	102123590	102158157	-1	None	None
5	TLX3	ENSG00000164438	ENST00000296921	protein_coding	KNOWN	CCDS34288	13532	876	291	170736288	170739138	1	HOX11L2	RNX
14	KLC1	ENSG00000126214	ENST00000557172	protein_coding	KNOWN	None	6387	450	149	104028233	104124071	1	KNS2	KNS2A, KLC, hKLC1S, hKLC1N, hKLC1P, hKLC1G, hKLC1R, hKLC1J, hKLC1B
14	KLC1	ENSG00000126214	ENST00000348520	protein_coding	KNOWN	CCDS41996	6387	1722	573	104095514	104167888	1	KNS2	KNS2A, KLC, hKLC1S, hKLC1N, hKLC1P, hKLC1G, hKLC1R, hKLC1J, hKLC1B
14	KLC1	ENSG00000126214	ENST00000380038	protein_coding	NOVEL	None	6387	1731	576	104095540	104151653	1	KNS2	KNS2A, KLC, hKLC1S, hKLC1N, hKLC1P, hKLC1G, hKLC1R, hKLC1J, hKLC1B
14	KLC1	ENSG00000126214	ENST00000555467	retained_intron	KNOWN	None	6387	None	None	104095548	104121175	1	KNS2	KNS2A, KLC, hKLC1S, hKLC1N, hKLC1P, hKLC1G, hKLC1R, hKLC1J, hKLC1B
14	KLC1	ENSG00000126214	ENST00000389744	protein_coding	KNOWN	CCDS32165	6387	1683	560	104095564	104153254	1	KNS2	KNS2A, KLC, hKLC1S, hKLC1N, hKLC1P, hKLC1G, hKLC1R, hKLC1J, hKLC1B
14	KLC1	ENSG00000126214	ENST00000557575	protein_coding	PUTATIVE	None	6387	1656	551	104095574	104152253	1	KNS2	KNS2A, KLC, hKLC1S, hKLC1N, hKLC1P, hKLC1G, hKLC1R, hKLC1J, hKLC1B
14	KLC1	ENSG00000126214	ENST00000553286	protein_coding	KNOWN	CCDS32165	6387	1683	560	104095574	104152548	1	KNS2	KNS2A, KLC, hKLC1S, hKLC1N, hKLC1P, hKLC1G, hKLC1R, hKLC1J, hKLC1B
14	KLC1	ENSG00000126214	ENST00000347839	protein_coding	KNOWN	None	6387	1887	628	104095574	104160080	1	KNS2	KNS2A, KLC, hKLC1S, hKLC1N, hKLC1P, hKLC1G, hKLC1R, hKLC1J, hKLC1B
14	KLC1	ENSG00000126214	ENST00000555836	protein_coding	KNOWN	None	6387	1893	630	104095574	104167851	1	KNS2	KNS2A, KLC, hKLC1S, hKLC1N, hKLC1P, hKLC1G, hKLC1R, hKLC1J, hKLC1B
14	KLC1	ENSG00000126214	ENST00000334553	protein_coding	KNOWN	None	6387	1920	639	104095574	104167881	1	KNS2	KNS2A, KLC, hKLC1S, hKLC1N, hKLC1P, hKLC1G, hKLC1R, hKLC1J, hKLC1B
14	KLC1	ENSG00000126214	ENST00000246489	protein_coding	KNOWN	None	6387	1914	637	104095578	104160080	1	KNS2	KNS2A, KLC, hKLC1S, hKLC1N, hKLC1P, hKLC1G, hKLC1R, hKLC1J, hKLC1B
14	KLC1	ENSG00000126214	ENST00000554228	nonsense_mediated_decay	KNOWN	CCDS32165	6387	1683	560	104095578	104160290	1	KNS2	KNS2A, KLC, hKLC1S, hKLC1N, hKLC1P, hKLC1G, hKLC1R, hKLC1J, hKLC1B
14	KLC1	ENSG00000126214	ENST00000557450	protein_coding	KNOWN	None	6387	1695	564	104095578	104167851	1	KNS2	KNS2A, KLC, hKLC1S, hKLC1N, hKLC1P, hKLC1G, hKLC1R, hKLC1J, hKLC1B
14	KLC1	ENSG00000126214	ENST00000452929	protein_coding	KNOWN	CCDS45168	6387	1857	618	104095578	104167881	1	KNS2	KNS2A, KLC, hKLC1S, hKLC1N, hKLC1P, hKLC1G, hKLC1R, hKLC1J, hKLC1B
14	KLC1	ENSG00000126214	ENST00000554280	protein_coding	NOVEL	None	6387	1830	609	104095578	104167881	1	KNS2	KNS2A, KLC, hKLC1S, hKLC1N, hKLC1P, hKLC1G, hKLC1R, hKLC1J, hKLC1B
14	KLC1	ENSG00000126214	ENST00000445352	protein_coding	NOVEL	None	6387	1650	549	104095634	104152523	1	KNS2	KNS2A, KLC, hKLC1S, hKLC1N, hKLC1P, hKLC1G, hKLC1R, hKLC1J, hKLC1B
14	KLC1	ENSG00000126214	ENST00000537046	protein_coding	NOVEL	None	6387	805	267	104139692	104160025	1	KNS2	KNS2A, KLC, hKLC1S, hKLC1N, hKLC1P, hKLC1G, hKLC1R, hKLC1J, hKLC1B
14	KLC1	ENSG00000126214	ENST00000553325	protein_coding	KNOWN	None	6387	395	130	104141889	104152537	1	KNS2	KNS2A, KLC, hKLC1S, hKLC1N, hKLC1P, hKLC1G, hKLC1R, hKLC1J, hKLC1B
14	KLC1	ENSG00000126214	ENST00000553436	protein_coding	PUTATIVE	None	6387	485	160	104141901	104146135	1	KNS2	KNS2A, KLC, hKLC1S, hKLC1N, hKLC1P, hKLC1G, hKLC1R, hKLC1J, hKLC1B
14	KLC1	ENSG00000126214	ENST00000555856	protein_coding	NOVEL	None	6387	452	149	104141907	104152039	1	KNS2	KNS2A, KLC, hKLC1S, hKLC1N, hKLC1P, hKLC1G, hKLC1R, hKLC1J, hKLC1B
14	KLC1	ENSG00000126214	ENST00000535194	protein_coding	PUTATIVE	None	6387	181	59	104145735	104160384	1	KNS2	KNS2A, KLC, hKLC1S, hKLC1N, hKLC1P, hKLC1G, hKLC1R, hKLC1J, hKLC1B
14	KLC1	ENSG00000126214	ENST00000553680	retained_intron	KNOWN	None	6387	None	None	104151114	104152233	1	KNS2	KNS2A, KLC, hKLC1S, hKLC1N, hKLC1P, hKLC1G, hKLC1R, hKLC1J, hKLC1B
14	KLC1	ENSG00000126214	ENST00000538504	retained_intron	KNOWN	None	6387	None	None	104153144	104167881	1	KNS2	KNS2A, KLC, hKLC1S, hKLC1N, hKLC1P, hKLC1G, hKLC1R, hKLC1J, hKLC1B
14	KLC1	ENSG00000126214	ENST00000557143	retained_intron	KNOWN	None	6387	None	None	104153200	104160174	1	KNS2	KNS2A, KLC, hKLC1S, hKLC1N, hKLC1P, hKLC1G, hKLC1R, hKLC1J, hKLC1B
14	KLC1	ENSG00000126214	ENST00000557686	nonsense_mediated_decay	KNOWN	None	6387	133	43	104158696	104167850	1	KNS2	KNS2A, KLC, hKLC1S, hKLC1N, hKLC1P, hKLC1G, hKLC1R, hKLC1J, hKLC1B
14	KLC1	ENSG00000126214	ENST00000556986	retained_intron	KNOWN	None	6387	None	None	104166259	104167881	1	KNS2	KNS2A, KLC, hKLC1S, hKLC1N, hKLC1P, hKLC1G, hKLC1R, hKLC1J, hKLC1B
12	CSRP2	ENSG00000175183	ENST00000311083	protein_coding	KNOWN	CCDS9015	2470	582	193	77252495	77272840	-1	None	SmLIM, CRP2, LMO5
12	CSRP2	ENSG00000175183	ENST00000548783	retained_intron	KNOWN	None	2470	None	None	77252496	77258734	-1	None	SmLIM, CRP2, LMO5
12	CSRP2	ENSG00000175183	ENST00000552330	protein_coding	NOVEL	None	2470	732	243	77252609	77272771	-1	None	SmLIM, CRP2, LMO5
12	CSRP2	ENSG00000175183	ENST00000546966	protein_coding	KNOWN	CCDS9015	2470	582	193	77252622	77272803	-1	None	SmLIM, CRP2, LMO5
12	CSRP2	ENSG00000175183	ENST00000547435	protein_coding	PUTATIVE	None	2470	564	187	77253249	77272765	-1	None	SmLIM, CRP2, LMO5
12	CSRP2	ENSG00000175183	ENST00000547557	retained_intron	KNOWN	None	2470	None	None	77259449	77272777	-1	None	SmLIM, CRP2, LMO5
12	CSRP2	ENSG00000175183	ENST00000551725	retained_intron	KNOWN	None	2470	None	None	77259885	77272754	-1	None	SmLIM, CRP2, LMO5
5	CKMT2	ENSG00000131730	ENST00000254035	protein_coding	KNOWN	CCDS4053	1996	1260	419	80529104	80562216	1	None	SMTCK
5	CKMT2	ENSG00000131730	ENST00000511719	protein_coding	KNOWN	None	1996	512	169	80529139	80550876	1	None	SMTCK
5	CKMT2	ENSG00000131730	ENST00000513094	processed_transcript	KNOWN	None	1996	None	None	80529143	80550793	1	None	SMTCK
5	CKMT2	ENSG00000131730	ENST00000515615	processed_transcript	KNOWN	None	1996	None	None	80529143	80550859	1	None	SMTCK
5	CKMT2	ENSG00000131730	ENST00000424301	protein_coding	KNOWN	CCDS4053	1996	1260	419	80529143	80562216	1	None	SMTCK
5	CKMT2	ENSG00000131730	ENST00000505060	protein_coding	PUTATIVE	None	1996	473	156	80529144	80552759	1	None	SMTCK
5	CKMT2	ENSG00000131730	ENST00000515238	retained_intron	KNOWN	None	1996	None	None	80529145	80550366	1	None	SMTCK
5	CKMT2	ENSG00000131730	ENST00000505704	processed_transcript	KNOWN	None	1996	None	None	80529158	80548105	1	None	SMTCK
5	CKMT2	ENSG00000131730	ENST00000505135	retained_intron	KNOWN	None	1996	None	None	80548552	80553742	1	None	SMTCK
5	CKMT2	ENSG00000131730	ENST00000514086	retained_intron	KNOWN	None	1996	None	None	80550400	80562215	1	None	SMTCK
5	CKMT2	ENSG00000131730	ENST00000505850	retained_intron	KNOWN	None	1996	None	None	80550802	80555203	1	None	SMTCK
5	CKMT2	ENSG00000131730	ENST00000437669	protein_coding	KNOWN	CCDS4053	1996	1260	419	80529139	80562214	1	None	SMTCK
3	C3orf27	ENSG00000198685	ENST00000356020	protein_coding	KNOWN	CCDS3050	17099	450	149	128290843	128294929	-1	None	GR6
5	NPM1	ENSG00000181163	ENST00000517671	protein_coding	KNOWN	CCDS4376	7910	885	294	170814120	170837887	1	None	B23, NPM
5	NPM1	ENSG00000181163	ENST00000296930	protein_coding	KNOWN	CCDS4376	7910	885	294	170814652	170838141	1	None	B23, NPM
5	NPM1	ENSG00000181163	ENST00000521672	protein_coding	PUTATIVE	None	7910	335	110	170814803	170827159	1	None	B23, NPM
5	NPM1	ENSG00000181163	ENST00000351986	protein_coding	KNOWN	CCDS4377	7910	798	265	170814833	170837888	1	None	B23, NPM
5	NPM1	ENSG00000181163	ENST00000393820	protein_coding	KNOWN	CCDS43399	7910	780	259	170814855	170834129	1	None	B23, NPM
5	NPM1	ENSG00000181163	ENST00000523339	retained_intron	KNOWN	None	7910	None	None	170814856	170817167	1	None	B23, NPM
5	NPM1	ENSG00000181163	ENST00000523622	protein_coding	NOVEL	None	7910	179	58	170814885	170818373	1	None	B23, NPM
5	NPM1	ENSG00000181163	ENST00000518587	retained_intron	KNOWN	None	7910	None	None	170814889	170819967	1	None	B23, NPM
5	NPM1	ENSG00000181163	ENST00000521260	retained_intron	KNOWN	None	7910	None	None	170817098	170818781	1	None	B23, NPM
5	NPM1	ENSG00000181163	ENST00000521710	retained_intron	KNOWN	None	7910	None	None	170818087	170818753	1	None	B23, NPM
5	NPM1	ENSG00000181163	ENST00000519955	retained_intron	KNOWN	None	7910	None	None	170827790	170832736	1	None	B23, NPM
5	NPM1	ENSG00000181163	ENST00000524204	retained_intron	KNOWN	None	7910	None	None	170834497	170837888	1	None	B23, NPM
X	None	ENSG00000237531	ENST00000420865	lincRNA	KNOWN	None	None	None	None	950956	955100	1	None	None
X	RPL14P5	ENSG00000225661	ENST00000436474	processed_pseudogene	KNOWN	None	37720	None	None	969238	970836	-1	None	None
3	RPN1	ENSG00000163902	ENST00000296255	protein_coding	KNOWN	CCDS3051	10381	1824	607	128338817	128369692	-1	None	OST1
3	RPN1	ENSG00000163902	ENST00000497289	protein_coding	PUTATIVE	None	10381	1308	435	128339002	128399918	-1	None	OST1
3	RPN1	ENSG00000163902	ENST00000490166	processed_transcript	KNOWN	None	10381	None	None	128344817	128346109	-1	None	OST1
3	RPN1	ENSG00000163902	ENST00000495462	processed_transcript	KNOWN	None	10381	None	None	128350964	128370372	-1	None	OST1
3	RPN1	ENSG00000163902	ENST00000479113	processed_transcript	KNOWN	None	10381	None	None	128356663	128361407	-1	None	OST1
3	RPN1	ENSG00000163902	ENST00000476931	nonsense_mediated_decay	KNOWN	None	10381	366	121	128356881	128369663	-1	None	OST1
3	RPN1	ENSG00000163902	ENST00000497415	processed_transcript	KNOWN	None	10381	None	None	128359889	128369659	-1	None	OST1
3	RPN1	ENSG00000163902	ENST00000481168	retained_intron	KNOWN	None	10381	None	None	128363358	128369664	-1	None	OST1
X	None	ENSG00000264510	ENST00000581137	miRNA	NOVEL	None	None	None	None	1410648	1410721	1	None	None
19	NAPSA	ENSG00000131400	ENST00000253719	protein_coding	KNOWN	CCDS12794	13395	1263	420	50861734	50869087	-1	None	NAP1, NAPA, Kdap, KAP
19	NAPSA	ENSG00000131400	ENST00000598044	retained_intron	KNOWN	None	13395	None	None	50861735	50862478	-1	None	NAP1, NAPA, Kdap, KAP
19	NAPSA	ENSG00000131400	ENST00000599181	retained_intron	KNOWN	None	13395	None	None	50861735	50866100	-1	None	NAP1, NAPA, Kdap, KAP
19	NAPSA	ENSG00000131400	ENST00000598915	protein_coding	NOVEL	None	13395	806	267	50862863	50868882	-1	None	NAP1, NAPA, Kdap, KAP
19	NAPSA	ENSG00000131400	ENST00000599233	nonsense_mediated_decay	KNOWN	None	13395	315	104	50863006	50869087	-1	None	NAP1, NAPA, Kdap, KAP
19	NAPSA	ENSG00000131400	ENST00000596653	retained_intron	KNOWN	None	13395	None	None	50864202	50869044	-1	None	NAP1, NAPA, Kdap, KAP
19	NAPSA	ENSG00000131400	ENST00000597378	retained_intron	KNOWN	None	13395	None	None	50865166	50866039	-1	None	NAP1, NAPA, Kdap, KAP
7	TMED4	ENSG00000158604	ENST00000457408	protein_coding	KNOWN	CCDS5493	22301	684	227	44617493	44621858	-1	None	HNLF
7	TMED4	ENSG00000158604	ENST00000289577	protein_coding	NOVEL	None	22301	537	178	44617493	44621886	-1	None	HNLF
7	TMED4	ENSG00000158604	ENST00000481238	protein_coding	NOVEL	None	22301	561	186	44619496	44621830	-1	None	HNLF
7	TMED4	ENSG00000158604	ENST00000477639	retained_intron	KNOWN	None	22301	None	None	44619503	44621809	-1	None	HNLF
7	TMED4	ENSG00000158604	ENST00000444131	processed_transcript	KNOWN	None	22301	None	None	44620692	44621840	-1	None	HNLF
6	GJB7	ENSG00000164411	ENST00000525899	protein_coding	KNOWN	CCDS5008	16690	672	223	87992696	88038996	-1	None	CX25, bA136M9.1
6	GJB7	ENSG00000164411	ENST00000369576	protein_coding	KNOWN	None	16690	488	161	87994143	88001706	-1	None	CX25, bA136M9.1
6	GJB7	ENSG00000164411	ENST00000442973	processed_transcript	PUTATIVE	None	16690	None	None	88032001	88038959	-1	None	CX25, bA136M9.1
6	GJB7	ENSG00000164411	ENST00000296882	protein_coding	KNOWN	CCDS5008	16690	672	223	87992697	88032795	-1	None	CX25, bA136M9.1
10	HPS1	ENSG00000107521	ENST00000361490	protein_coding	KNOWN	CCDS7475	5163	2103	700	100175955	100206667	-1	HPS	None
10	HPS1	ENSG00000107521	ENST00000325103	protein_coding	KNOWN	CCDS7475	5163	2103	700	100175955	100206683	-1	HPS	None
10	HPS1	ENSG00000107521	ENST00000467246	processed_transcript	KNOWN	None	5163	None	None	100176772	100206644	-1	HPS	None
10	HPS1	ENSG00000107521	ENST00000462743	processed_transcript	KNOWN	None	5163	None	None	100177909	100180126	-1	HPS	None
10	HPS1	ENSG00000107521	ENST00000359632	protein_coding	KNOWN	None	5163	978	325	100183365	100191039	-1	HPS	None
10	HPS1	ENSG00000107521	ENST00000478087	processed_transcript	KNOWN	None	5163	None	None	100183365	100193848	-1	HPS	None
10	HPS1	ENSG00000107521	ENST00000470095	processed_transcript	KNOWN	None	5163	None	None	100183374	100193848	-1	HPS	None
10	HPS1	ENSG00000107521	ENST00000497527	processed_transcript	KNOWN	None	5163	None	None	100183637	100185860	-1	HPS	None
10	HPS1	ENSG00000107521	ENST00000498219	processed_transcript	KNOWN	None	5163	None	None	100185663	100206630	-1	HPS	None
10	HPS1	ENSG00000107521	ENST00000338546	protein_coding	KNOWN	CCDS7476	5163	975	324	100188908	100206670	-1	HPS	None
10	HPS1	ENSG00000107521	ENST00000414009	protein_coding	KNOWN	None	5163	478	158	100188913	100193848	-1	HPS	None
10	HPS1	ENSG00000107521	ENST00000480020	processed_transcript	KNOWN	None	5163	None	None	100190328	100206619	-1	HPS	None
10	HPS1	ENSG00000107521	ENST00000474873	processed_transcript	KNOWN	None	5163	None	None	100194843	100205170	-1	HPS	None
10	HPS1	ENSG00000107521	ENST00000465957	processed_transcript	KNOWN	None	5163	None	None	100202145	100206684	-1	HPS	None
11	OR9Q1	ENSG00000186509	ENST00000335397	protein_coding	KNOWN	CCDS31543	14724	933	310	57791353	57949088	1	None	None
2	FN1	ENSG00000115414	ENST00000421182	protein_coding	KNOWN	None	3778	6723	2240	216225163	216300790	-1	None	MSF, CIG, LETS, GFND2, FINC
2	FN1	ENSG00000115414	ENST00000323926	protein_coding	KNOWN	None	3778	7341	2446	216225177	216300791	-1	None	MSF, CIG, LETS, GFND2, FINC
2	FN1	ENSG00000115414	ENST00000336916	protein_coding	KNOWN	CCDS2399	3778	7068	2355	216225177	216300791	-1	None	MSF, CIG, LETS, GFND2, FINC
2	FN1	ENSG00000115414	ENST00000357867	protein_coding	KNOWN	CCDS2400	3778	6531	2176	216225177	216300791	-1	None	MSF, CIG, LETS, GFND2, FINC
2	FN1	ENSG00000115414	ENST00000354785	protein_coding	KNOWN	CCDS42814	3778	7434	2477	216225177	216300895	-1	None	MSF, CIG, LETS, GFND2, FINC
2	FN1	ENSG00000115414	ENST00000492816	retained_intron	KNOWN	None	3778	None	None	216225585	216258444	-1	None	MSF, CIG, LETS, GFND2, FINC
2	FN1	ENSG00000115414	ENST00000446046	protein_coding	KNOWN	CCDS46510	3778	6993	2330	216225585	216300791	-1	None	MSF, CIG, LETS, GFND2, FINC
2	FN1	ENSG00000115414	ENST00000443816	protein_coding	KNOWN	None	3778	6798	2265	216225585	216300796	-1	None	MSF, CIG, LETS, GFND2, FINC
2	FN1	ENSG00000115414	ENST00000432072	protein_coding	KNOWN	None	3778	6804	2267	216225588	216300790	-1	None	MSF, CIG, LETS, GFND2, FINC
2	FN1	ENSG00000115414	ENST00000498719	retained_intron	KNOWN	None	3778	None	None	216225589	216228363	-1	None	MSF, CIG, LETS, GFND2, FINC
2	FN1	ENSG00000115414	ENST00000356005	protein_coding	KNOWN	CCDS42813	3778	6891	2296	216225589	216300791	-1	None	MSF, CIG, LETS, GFND2, FINC
2	FN1	ENSG00000115414	ENST00000456923	protein_coding	PUTATIVE	None	3778	3312	1103	216225870	216257870	-1	None	MSF, CIG, LETS, GFND2, FINC
2	FN1	ENSG00000115414	ENST00000494446	retained_intron	KNOWN	None	3778	None	None	216226064	216230399	-1	None	MSF, CIG, LETS, GFND2, FINC
2	FN1	ENSG00000115414	ENST00000469569	retained_intron	KNOWN	None	3778	None	None	216229093	216230240	-1	None	MSF, CIG, LETS, GFND2, FINC
2	FN1	ENSG00000115414	ENST00000473614	retained_intron	KNOWN	None	3778	None	None	216229390	216230476	-1	None	MSF, CIG, LETS, GFND2, FINC
2	FN1	ENSG00000115414	ENST00000480024	retained_intron	KNOWN	None	3778	None	None	216232402	216235243	-1	None	MSF, CIG, LETS, GFND2, FINC
2	FN1	ENSG00000115414	ENST00000461974	retained_intron	KNOWN	None	3778	None	None	216235066	216237205	-1	None	MSF, CIG, LETS, GFND2, FINC
2	FN1	ENSG00000115414	ENST00000485567	retained_intron	KNOWN	None	3778	None	None	216235103	216237162	-1	None	MSF, CIG, LETS, GFND2, FINC
2	FN1	ENSG00000115414	ENST00000460217	retained_intron	KNOWN	None	3778	None	None	216236587	216240448	-1	None	MSF, CIG, LETS, GFND2, FINC
2	FN1	ENSG00000115414	ENST00000438981	protein_coding	PUTATIVE	None	3778	723	240	216236632	216240412	-1	None	MSF, CIG, LETS, GFND2, FINC
2	FN1	ENSG00000115414	ENST00000474036	retained_intron	KNOWN	None	3778	None	None	216240356	216246052	-1	None	MSF, CIG, LETS, GFND2, FINC
2	FN1	ENSG00000115414	ENST00000490833	processed_transcript	KNOWN	None	3778	None	None	216243928	216248206	-1	None	MSF, CIG, LETS, GFND2, FINC
2	FN1	ENSG00000115414	ENST00000480737	retained_intron	KNOWN	None	3778	None	None	216246882	216248803	-1	None	MSF, CIG, LETS, GFND2, FINC
2	FN1	ENSG00000115414	ENST00000471193	retained_intron	KNOWN	None	3778	None	None	216273042	216274673	-1	None	MSF, CIG, LETS, GFND2, FINC
2	FN1	ENSG00000115414	ENST00000426059	protein_coding	KNOWN	CCDS46512	3778	1974	657	216279384	216300796	-1	None	MSF, CIG, LETS, GFND2, FINC
2	FN1	ENSG00000115414	ENST00000496542	retained_intron	KNOWN	None	3778	None	None	216284012	216285993	-1	None	MSF, CIG, LETS, GFND2, FINC
2	FN1	ENSG00000115414	ENST00000359671	protein_coding	KNOWN	None	3778	7161	2386	216225181	216300791	-1	None	MSF, CIG, LETS, GFND2, FINC
2	FN1	ENSG00000115414	ENST00000346544	protein_coding	KNOWN	None	3778	6636	2211	216225181	216300791	-1	None	MSF, CIG, LETS, GFND2, FINC
2	FN1	ENSG00000115414	ENST00000345488	protein_coding	KNOWN	None	3778	6555	2184	216225181	216300791	-1	None	MSF, CIG, LETS, GFND2, FINC
2	FN1	ENSG00000115414	ENST00000357009	protein_coding	KNOWN	None	3778	6096	2031	216225181	216300791	-1	None	MSF, CIG, LETS, GFND2, FINC
12	E2F7	ENSG00000165891	ENST00000322886	protein_coding	KNOWN	CCDS9016	23820	2736	911	77415027	77459360	-1	None	None
12	E2F7	ENSG00000165891	ENST00000416496	protein_coding	KNOWN	None	23820	2187	728	77415028	77459343	-1	None	None
12	E2F7	ENSG00000165891	ENST00000550669	protein_coding	PUTATIVE	None	23820	2079	692	77421724	77459347	-1	None	None
12	E2F7	ENSG00000165891	ENST00000552907	nonsense_mediated_decay	KNOWN	None	23820	627	208	77427786	77444521	-1	None	None
12	E2F7	ENSG00000165891	ENST00000551058	protein_coding	PUTATIVE	None	23820	659	218	77438314	77444526	-1	None	None
12	E2F7	ENSG00000165891	ENST00000551558	retained_intron	KNOWN	None	23820	None	None	77439402	77459343	-1	None	None
12	E2F7	ENSG00000165891	ENST00000547316	protein_coding	KNOWN	None	23820	346	114	77449658	77459330	-1	None	None
19	WDR87	ENSG00000171804	ENST00000447313	protein_coding	KNOWN	None	29934	8739	2912	38375463	38397253	-1	None	NYD-SP11
19	WDR87	ENSG00000171804	ENST00000303868	protein_coding	KNOWN	CCDS46063	29934	8622	2873	38375572	38397317	-1	None	NYD-SP11
19	WDR87	ENSG00000171804	ENST00000473328	retained_intron	KNOWN	None	29934	None	None	38386652	38397262	-1	None	NYD-SP11
8	PUF60	ENSG00000179950	ENST00000526683	protein_coding	KNOWN	CCDS47934	17042	1680	559	144898514	144912029	-1	None	FIR, SIAHBP1, RoBPI
8	PUF60	ENSG00000179950	ENST00000453551	protein_coding	KNOWN	CCDS47935	17042	1551	516	144898547	144911196	-1	None	FIR, SIAHBP1, RoBPI
8	PUF60	ENSG00000179950	ENST00000313352	protein_coding	KNOWN	CCDS59514	17042	1500	499	144898547	144911209	-1	None	FIR, SIAHBP1, RoBPI
8	PUF60	ENSG00000179950	ENST00000456095	protein_coding	PUTATIVE	CCDS59516	17042	1593	530	144898547	144911473	-1	None	FIR, SIAHBP1, RoBPI
8	PUF60	ENSG00000179950	ENST00000349157	protein_coding	KNOWN	CCDS47933	17042	1629	542	144898547	144911522	-1	None	FIR, SIAHBP1, RoBPI
8	PUF60	ENSG00000179950	ENST00000527197	protein_coding	PUTATIVE	CCDS59515	17042	1542	513	144898690	144911490	-1	None	FIR, SIAHBP1, RoBPI
8	PUF60	ENSG00000179950	ENST00000524570	processed_transcript	KNOWN	None	17042	None	None	144899212	144905452	-1	None	FIR, SIAHBP1, RoBPI
8	PUF60	ENSG00000179950	ENST00000532884	protein_coding	PUTATIVE	None	17042	819	272	144899250	144900646	-1	None	FIR, SIAHBP1, RoBPI
8	PUF60	ENSG00000179950	ENST00000526459	protein_coding	NOVEL	None	17042	968	321	144899748	144911508	-1	None	FIR, SIAHBP1, RoBPI
8	PUF60	ENSG00000179950	ENST00000527744	protein_coding	NOVEL	None	17042	1007	334	144899756	144911469	-1	None	FIR, SIAHBP1, RoBPI
8	PUF60	ENSG00000179950	ENST00000531951	processed_transcript	KNOWN	None	17042	None	None	144900036	144911198	-1	None	FIR, SIAHBP1, RoBPI
8	PUF60	ENSG00000179950	ENST00000528320	retained_intron	KNOWN	None	17042	None	None	144900056	144906569	-1	None	FIR, SIAHBP1, RoBPI
8	PUF60	ENSG00000179950	ENST00000529999	protein_coding	PUTATIVE	None	17042	789	262	144900120	144911214	-1	None	FIR, SIAHBP1, RoBPI
8	PUF60	ENSG00000179950	ENST00000528999	processed_transcript	KNOWN	None	17042	None	None	144900149	144901207	-1	None	FIR, SIAHBP1, RoBPI
8	PUF60	ENSG00000179950	ENST00000531897	protein_coding	PUTATIVE	None	17042	743	246	144900166	144911474	-1	None	FIR, SIAHBP1, RoBPI
8	PUF60	ENSG00000179950	ENST00000529693	retained_intron	KNOWN	None	17042	None	None	144900363	144901133	-1	None	FIR, SIAHBP1, RoBPI
8	PUF60	ENSG00000179950	ENST00000533162	protein_coding	PUTATIVE	None	17042	685	227	144900392	144911508	-1	None	FIR, SIAHBP1, RoBPI
8	PUF60	ENSG00000179950	ENST00000527584	retained_intron	KNOWN	None	17042	None	None	144900543	144906630	-1	None	FIR, SIAHBP1, RoBPI
8	PUF60	ENSG00000179950	ENST00000531995	retained_intron	KNOWN	None	17042	None	None	144902403	144903913	-1	None	FIR, SIAHBP1, RoBPI
8	PUF60	ENSG00000179950	ENST00000532127	retained_intron	KNOWN	None	17042	None	None	144902596	144911489	-1	None	FIR, SIAHBP1, RoBPI
8	PUF60	ENSG00000179950	ENST00000526151	retained_intron	KNOWN	None	17042	None	None	144903519	144911485	-1	None	FIR, SIAHBP1, RoBPI
8	PUF60	ENSG00000179950	ENST00000533362	processed_transcript	KNOWN	None	17042	None	None	144903767	144907310	-1	None	FIR, SIAHBP1, RoBPI
3	RAB7A	ENSG00000075785	ENST00000265062	protein_coding	KNOWN	CCDS3052	9788	624	207	128444965	128533639	1	RAB7	None
3	RAB7A	ENSG00000075785	ENST00000482525	protein_coding	NOVEL	None	9788	483	160	128445036	128533196	1	RAB7	None
3	RAB7A	ENSG00000075785	ENST00000491681	retained_intron	KNOWN	None	9788	None	None	128445195	128517268	1	RAB7	None
3	RAB7A	ENSG00000075785	ENST00000464496	protein_coding	KNOWN	None	9788	451	149	128514086	128526437	1	RAB7	None
3	RAB7A	ENSG00000075785	ENST00000490093	protein_coding	PUTATIVE	None	9788	350	115	128514202	128526459	1	RAB7	None
3	RAB7A	ENSG00000075785	ENST00000493186	protein_coding	PUTATIVE	None	9788	297	98	128514202	128532288	1	RAB7	None
3	RAB7A	ENSG00000075785	ENST00000483906	protein_coding	PUTATIVE	None	9788	405	134	128514202	128532384	1	RAB7	None
3	RAB7A	ENSG00000075785	ENST00000485280	protein_coding	PUTATIVE	None	9788	276	91	128514202	128532487	1	RAB7	None
11	OR6Q1	ENSG00000172381	ENST00000302622	protein_coding	KNOWN	CCDS31541	15302	954	317	57798402	57799403	1	None	None
11	OR9I1	ENSG00000172377	ENST00000302610	protein_coding	KNOWN	CCDS31542	14718	945	314	57885972	57886916	-1	None	None
11	OR9Q2	ENSG00000186513	ENST00000311591	protein_coding	KNOWN	CCDS31544	15328	945	314	57957906	57958990	1	OR9Q2P	None
6	SMIM8	ENSG00000111850	ENST00000229570	protein_coding	KNOWN	CCDS34496	21401	294	97	88032311	88052040	1	C6orf162	DKFZP586E1923, dJ102H19.2
6	SMIM8	ENSG00000111850	ENST00000392863	protein_coding	KNOWN	CCDS34496	21401	294	97	88032306	88052043	1	C6orf162	DKFZP586E1923, dJ102H19.2
11	OR1S2	ENSG00000197887	ENST00000302592	protein_coding	KNOWN	CCDS31545	15141	978	325	57970674	57971653	-1	None	None
11	OR1S1	ENSG00000172774	ENST00000309433	protein_coding	KNOWN	CCDS31546	8227	978	325	57982217	57983195	1	None	OST034
19	PRAM1	ENSG00000133246	ENST00000599698	retained_intron	KNOWN	None	30091	None	None	8554940	8555759	-1	None	PML-RAR
19	PRAM1	ENSG00000133246	ENST00000423345	protein_coding	KNOWN	CCDS45954	30091	2013	670	8554940	8567996	-1	None	PML-RAR
19	PRAM1	ENSG00000133246	ENST00000594696	retained_intron	KNOWN	None	30091	None	None	8554969	8556907	-1	None	PML-RAR
19	PRAM1	ENSG00000133246	ENST00000600262	protein_coding	NOVEL	None	30091	540	179	8564080	8567518	-1	None	PML-RAR
19	PRAM1	ENSG00000133246	ENST00000255612	protein_coding	KNOWN	None	30091	2010	669	8554941	8567495	-1	None	PML-RAR
11	OR10Q1	ENSG00000180475	ENST00000316770	protein_coding	KNOWN	CCDS31547	15134	960	319	57995354	57996390	-1	None	None
6	C6orf163	ENSG00000203872	ENST00000369574	protein_coding	KNOWN	None	21403	612	203	88054600	88075181	1	None	None
6	C6orf163	ENSG00000203872	ENST00000388923	protein_coding	KNOWN	CCDS55042	21403	990	329	88054571	88075173	1	None	None
X	None	ENSG00000264819	ENST00000580687	miRNA	NOVEL	None	None	None	None	1410987	1411060	1	None	None
11	OR10W1	ENSG00000172772	ENST00000395079	protein_coding	KNOWN	CCDS7968	15139	918	305	58034264	58035732	-1	OR10W1P	None
11	OR5B17	ENSG00000197786	ENST00000357377	protein_coding	KNOWN	CCDS31548	15267	945	314	58125597	58126542	-1	OR5B20P	None
12	B4GALNT3	ENSG00000139044	ENST00000266383	protein_coding	KNOWN	CCDS8504	24137	2997	998	569530	672675	1	None	B4GalNac-T3, FLJ16224, FLJ40362
12	B4GALNT3	ENSG00000139044	ENST00000535680	retained_intron	KNOWN	None	24137	None	None	569636	655994	1	None	B4GalNac-T3, FLJ16224, FLJ40362
12	B4GALNT3	ENSG00000139044	ENST00000544638	processed_transcript	KNOWN	None	24137	None	None	649629	657467	1	None	B4GalNac-T3, FLJ16224, FLJ40362
12	B4GALNT3	ENSG00000139044	ENST00000540836	retained_intron	KNOWN	None	24137	None	None	652284	654570	1	None	B4GalNac-T3, FLJ16224, FLJ40362
12	B4GALNT3	ENSG00000139044	ENST00000322843	protein_coding	PUTATIVE	None	24137	1910	635	652299	664596	1	None	B4GalNac-T3, FLJ16224, FLJ40362
12	B4GALNT3	ENSG00000139044	ENST00000535402	retained_intron	KNOWN	None	24137	None	None	661241	672664	1	None	B4GalNac-T3, FLJ16224, FLJ40362
19	POLD1	ENSG00000062822	ENST00000600859	nonsense_mediated_decay	KNOWN	None	9175	3030	1009	50887461	50921269	1	POLD	CDC2
19	POLD1	ENSG00000062822	ENST00000440232	protein_coding	KNOWN	CCDS12795	9175	3324	1107	50887596	50921271	1	POLD	CDC2
19	POLD1	ENSG00000062822	ENST00000601098	protein_coding	KNOWN	None	9175	607	201	50887599	50905399	1	POLD	CDC2
19	POLD1	ENSG00000062822	ENST00000599857	protein_coding	KNOWN	CCDS12795	9175	3324	1107	50887608	50921271	1	POLD	CDC2
19	POLD1	ENSG00000062822	ENST00000600746	retained_intron	KNOWN	None	9175	None	None	50887624	50905922	1	POLD	CDC2
19	POLD1	ENSG00000062822	ENST00000593887	protein_coding	KNOWN	None	9175	316	104	50887630	50902741	1	POLD	CDC2
19	POLD1	ENSG00000062822	ENST00000595904	protein_coding	NOVEL	None	9175	3402	1133	50902109	50921204	1	POLD	CDC2
19	POLD1	ENSG00000062822	ENST00000596425	protein_coding	NOVEL	None	9175	563	186	50910341	50916758	1	POLD	CDC2
19	POLD1	ENSG00000062822	ENST00000593407	protein_coding	NOVEL	None	9175	867	288	50916760	50920320	1	POLD	CDC2
19	POLD1	ENSG00000062822	ENST00000593981	protein_coding	NOVEL	None	9175	873	290	50917123	50921180	1	POLD	CDC2
19	POLD1	ENSG00000062822	ENST00000596648	retained_intron	KNOWN	None	9175	None	None	50918766	50920348	1	POLD	CDC2
19	POLD1	ENSG00000062822	ENST00000597963	retained_intron	KNOWN	None	9175	None	None	50919570	50921273	1	POLD	CDC2
19	POLD1	ENSG00000062822	ENST00000596221	retained_intron	KNOWN	None	9175	None	None	50920210	50921267	1	POLD	CDC2
4	SNCA	ENSG00000145335	ENST00000345009	protein_coding	KNOWN	CCDS43252	11138	339	112	90647035	90756831	-1	PARK1, PARK4	NACP, PD1, alpha-synuclein
4	SNCA	ENSG00000145335	ENST00000394986	protein_coding	KNOWN	CCDS3634	11138	423	140	90647204	90758290	-1	PARK1, PARK4	NACP, PD1, alpha-synuclein
4	SNCA	ENSG00000145335	ENST00000394991	protein_coding	KNOWN	CCDS3634	11138	423	140	90647204	90758379	-1	PARK1, PARK4	NACP, PD1, alpha-synuclein
4	SNCA	ENSG00000145335	ENST00000336904	protein_coding	KNOWN	CCDS3634	11138	423	140	90647204	90759466	-1	PARK1, PARK4	NACP, PD1, alpha-synuclein
4	SNCA	ENSG00000145335	ENST00000508895	protein_coding	KNOWN	CCDS3634	11138	423	140	90647409	90757364	-1	PARK1, PARK4	NACP, PD1, alpha-synuclein
4	SNCA	ENSG00000145335	ENST00000506244	protein_coding	KNOWN	CCDS3634	11138	423	140	90647728	90758319	-1	PARK1, PARK4	NACP, PD1, alpha-synuclein
4	SNCA	ENSG00000145335	ENST00000505199	protein_coding	KNOWN	None	11138	381	126	90647767	90756836	-1	PARK1, PARK4	NACP, PD1, alpha-synuclein
4	SNCA	ENSG00000145335	ENST00000502987	protein_coding	PUTATIVE	None	11138	348	115	90743003	90756846	-1	PARK1, PARK4	NACP, PD1, alpha-synuclein
4	SNCA	ENSG00000145335	ENST00000506691	protein_coding	KNOWN	None	11138	200	65	90743503	90758227	-1	PARK1, PARK4	NACP, PD1, alpha-synuclein
4	SNCA	ENSG00000145335	ENST00000394989	protein_coding	KNOWN	None	11138	381	126	90645250	90758350	-1	PARK1, PARK4	NACP, PD1, alpha-synuclein
4	SNCA	ENSG00000145335	ENST00000420646	protein_coding	KNOWN	CCDS43252	11138	339	112	90645250	90758127	-1	PARK1, PARK4	NACP, PD1, alpha-synuclein
16	CACNG3	ENSG00000006116	ENST00000005284	protein_coding	KNOWN	CCDS10620	1407	948	315	24266874	24374122	1	None	None
X	None	ENSG00000263980	ENST00000578699	miRNA	NOVEL	None	None	None	None	1412508	1412582	1	None	None
X	MIR3690	ENSG00000265658	ENST00000580266	miRNA	KNOWN	None	38967	None	None	1412811	1412885	1	None	hsa-mir-3690
5	SLC6A19	ENSG00000174358	ENST00000515652	nonsense_mediated_decay	KNOWN	None	27960	1065	354	1201710	1223385	1	None	None
5	SLC6A19	ENSG00000174358	ENST00000304460	protein_coding	KNOWN	CCDS34130	27960	1905	634	1201710	1225232	1	None	None
6	WTAP	ENSG00000146457	ENST00000358372	protein_coding	KNOWN	CCDS5266	16846	1191	396	160146617	160177351	1	None	KIAA0105, MGC3925
6	WTAP	ENSG00000146457	ENST00000494513	processed_transcript	KNOWN	None	16846	None	None	160148562	160157750	1	None	KIAA0105, MGC3925
6	WTAP	ENSG00000146457	ENST00000337387	protein_coding	KNOWN	CCDS5267	16846	456	151	160148620	160170447	1	None	KIAA0105, MGC3925
6	WTAP	ENSG00000146457	ENST00000462110	processed_transcript	KNOWN	None	16846	None	None	160162625	160164726	1	None	KIAA0105, MGC3925
X	None	ENSG00000263835	ENST00000583047	miRNA	NOVEL	None	None	None	None	1413025	1413099	1	None	None
X	RNA5SP498	ENSG00000223274	ENST00000411342	rRNA	KNOWN	None	43398	None	None	1419149	1419268	-1	RN5S498	None
X	RN7SL355P	ENSG00000265350	ENST00000577896	misc_RNA	KNOWN	None	46371	None	None	1437739	1438052	-1	None	None
X	LINC00106	ENSG00000236871	ENST00000434938	lincRNA	KNOWN	None	31843	None	None	1515320	1517851	1	CXYorf8, NCRNA00106	OTTHUMG00000021061
X	LINC00106	ENSG00000236871	ENST00000430235	lincRNA	KNOWN	None	31843	None	None	1515918	1518295	1	CXYorf8, NCRNA00106	OTTHUMG00000021061
7	OGDH	ENSG00000105953	ENST00000439616	protein_coding	NOVEL	None	8124	2622	873	44646171	44747829	1	None	E1k
7	OGDH	ENSG00000105953	ENST00000443864	protein_coding	KNOWN	CCDS47580	8124	1284	427	44646187	44716193	1	None	E1k
7	OGDH	ENSG00000105953	ENST00000447398	protein_coding	NOVEL	None	8124	3105	1034	44646190	44747877	1	None	E1k
7	OGDH	ENSG00000105953	ENST00000449767	protein_coding	NOVEL	CCDS55107	8124	3060	1019	44646190	44747927	1	None	E1k
7	OGDH	ENSG00000105953	ENST00000419661	protein_coding	KNOWN	None	8124	633	210	44646194	44706450	1	None	E1k
7	OGDH	ENSG00000105953	ENST00000444676	protein_coding	NOVEL	None	8124	3117	1038	44646227	44747737	1	None	E1k
7	OGDH	ENSG00000105953	ENST00000222673	protein_coding	KNOWN	CCDS34627	8124	3072	1023	44646238	44748665	1	None	E1k
7	OGDH	ENSG00000105953	ENST00000459672	processed_transcript	KNOWN	None	8124	None	None	44706220	44714844	1	None	E1k
7	OGDH	ENSG00000105953	ENST00000497326	retained_intron	KNOWN	None	8124	None	None	44706394	44714351	1	None	E1k
7	OGDH	ENSG00000105953	ENST00000543843	protein_coding	KNOWN	None	8124	2925	974	44664061	44747877	1	None	E1k
16	RBBP6	ENSG00000122257	ENST00000564314	protein_coding	NOVEL	None	9889	3024	1007	24549014	24581434	1	None	P2P-R, PACT, SNAMA
16	RBBP6	ENSG00000122257	ENST00000567686	protein_coding	KNOWN	None	9889	901	299	24549033	24572986	1	None	P2P-R, PACT, SNAMA
16	RBBP6	ENSG00000122257	ENST00000568015	protein_coding	KNOWN	None	9889	476	157	24550877	24567180	1	None	P2P-R, PACT, SNAMA
16	RBBP6	ENSG00000122257	ENST00000568316	retained_intron	KNOWN	None	9889	None	None	24550906	24551605	1	None	P2P-R, PACT, SNAMA
16	RBBP6	ENSG00000122257	ENST00000319715	protein_coding	KNOWN	CCDS10621	9889	5379	1792	24551516	24584184	1	None	P2P-R, PACT, SNAMA
16	RBBP6	ENSG00000122257	ENST00000452655	protein_coding	NOVEL	CCDS45444	9889	357	118	24551817	24560722	1	None	P2P-R, PACT, SNAMA
16	RBBP6	ENSG00000122257	ENST00000381039	protein_coding	KNOWN	None	9889	2859	952	24551841	24584184	1	None	P2P-R, PACT, SNAMA
16	RBBP6	ENSG00000122257	ENST00000348022	protein_coding	KNOWN	CCDS10622	9889	5277	1758	24551904	24584184	1	None	P2P-R, PACT, SNAMA
16	RBBP6	ENSG00000122257	ENST00000564726	retained_intron	KNOWN	None	9889	None	None	24564577	24567654	1	None	P2P-R, PACT, SNAMA
16	RBBP6	ENSG00000122257	ENST00000562430	retained_intron	KNOWN	None	9889	None	None	24565798	24584181	1	None	P2P-R, PACT, SNAMA
16	RBBP6	ENSG00000122257	ENST00000562683	retained_intron	KNOWN	None	9889	None	None	24567151	24571126	1	None	P2P-R, PACT, SNAMA
16	RBBP6	ENSG00000122257	ENST00000570185	retained_intron	KNOWN	None	9889	None	None	24574601	24578691	1	None	P2P-R, PACT, SNAMA
11	RAB6A	ENSG00000175582	ENST00000310653	protein_coding	KNOWN	CCDS8223	9786	627	208	73386683	73472182	-1	RAB6	None
11	RAB6A	ENSG00000175582	ENST00000336083	protein_coding	KNOWN	CCDS8224	9786	627	208	73386941	73472136	-1	RAB6	None
11	RAB6A	ENSG00000175582	ENST00000541973	protein_coding	NOVEL	None	9786	605	200	73388444	73471140	-1	RAB6	None
11	RAB6A	ENSG00000175582	ENST00000541588	protein_coding	NOVEL	CCDS58156	9786	315	104	73388939	73472119	-1	RAB6	None
11	RAB6A	ENSG00000175582	ENST00000545625	nonsense_mediated_decay	KNOWN	None	9786	264	87	73388953	73471683	-1	RAB6	None
11	RAB6A	ENSG00000175582	ENST00000540771	protein_coding	NOVEL	None	9786	215	70	73388989	73472164	-1	RAB6	None
11	RAB6A	ENSG00000175582	ENST00000537446	nonsense_mediated_decay	KNOWN	None	9786	264	87	73390731	73471703	-1	RAB6	None
11	RAB6A	ENSG00000175582	ENST00000400470	protein_coding	PUTATIVE	None	9786	522	173	73415209	73471655	-1	RAB6	None
11	RAB6A	ENSG00000175582	ENST00000541795	retained_intron	KNOWN	None	9786	None	None	73440509	73472062	-1	RAB6	None
11	RAB6A	ENSG00000175582	ENST00000536566	protein_coding	KNOWN	CCDS58155	9786	528	175	73388444	73471138	-1	RAB6	None
19	ZNF414	ENSG00000133250	ENST00000393927	protein_coding	KNOWN	CCDS54211	20630	1173	390	8575462	8579044	-1	None	MGC15716, Zfp414
19	ZNF414	ENSG00000133250	ENST00000596772	protein_coding	PUTATIVE	None	20630	361	119	8575464	8576583	-1	None	MGC15716, Zfp414
19	ZNF414	ENSG00000133250	ENST00000595348	retained_intron	KNOWN	None	20630	None	None	8575862	8576690	-1	None	MGC15716, Zfp414
19	ZNF414	ENSG00000133250	ENST00000593661	protein_coding	NOVEL	None	20630	512	169	8575862	8577283	-1	None	MGC15716, Zfp414
19	ZNF414	ENSG00000133250	ENST00000594748	protein_coding	NOVEL	None	20630	462	153	8575880	8577298	-1	None	MGC15716, Zfp414
19	ZNF414	ENSG00000133250	ENST00000255616	protein_coding	KNOWN	CCDS12205	20630	939	312	8576219	8579032	-1	None	MGC15716, Zfp414
19	ZNF414	ENSG00000133250	ENST00000602128	retained_intron	KNOWN	None	20630	None	None	8576369	8576891	-1	None	MGC15716, Zfp414
19	ZNF414	ENSG00000133250	ENST00000599379	nonsense_mediated_decay	KNOWN	None	20630	138	45	8576751	8579037	-1	None	MGC15716, Zfp414
19	ZNF414	ENSG00000133250	ENST00000600906	retained_intron	KNOWN	None	20630	None	None	8577880	8579048	-1	None	MGC15716, Zfp414
19	SIPA1L3	ENSG00000105738	ENST00000222345	protein_coding	KNOWN	CCDS33007	23801	5346	1781	38397868	38699012	1	None	KIAA0545
19	SIPA1L3	ENSG00000105738	ENST00000599644	processed_transcript	KNOWN	None	23801	None	None	38397885	38398614	1	None	KIAA0545
19	SIPA1L3	ENSG00000105738	ENST00000476317	processed_transcript	KNOWN	None	23801	None	None	38422986	38572088	1	None	KIAA0545
19	SIPA1L3	ENSG00000105738	ENST00000595982	protein_coding	PUTATIVE	None	23801	163	53	38578396	38579491	1	None	KIAA0545
19	SIPA1L3	ENSG00000105738	ENST00000595384	nonsense_mediated_decay	KNOWN	None	23801	496	164	38590622	38600955	1	None	KIAA0545
19	SIPA1L3	ENSG00000105738	ENST00000601222	retained_intron	KNOWN	None	23801	None	None	38600304	38600999	1	None	KIAA0545
19	SIPA1L3	ENSG00000105738	ENST00000594553	retained_intron	KNOWN	None	23801	None	None	38600839	38610133	1	None	KIAA0545
19	SIPA1L3	ENSG00000105738	ENST00000601881	retained_intron	KNOWN	None	23801	None	None	38610289	38621471	1	None	KIAA0545
19	SIPA1L3	ENSG00000105738	ENST00000600919	protein_coding	PUTATIVE	None	23801	407	134	38610473	38622375	1	None	KIAA0545
19	SIPA1L3	ENSG00000105738	ENST00000595495	retained_intron	KNOWN	None	23801	None	None	38655411	38673606	1	None	KIAA0545
19	SIPA1L3	ENSG00000105738	ENST00000601054	protein_coding	PUTATIVE	None	23801	572	189	38664266	38684316	1	None	KIAA0545
19	SIPA1L3	ENSG00000105738	ENST00000596403	retained_intron	KNOWN	None	23801	None	None	38694332	38697030	1	None	KIAA0545
7	POLR2J3	ENSG00000168255	ENST00000464525	nonsense_mediated_decay	KNOWN	None	33853	387	128	102178365	102213007	-1	None	None
7	POLR2J3	ENSG00000168255	ENST00000489144	nonsense_mediated_decay	KNOWN	None	33853	477	158	102178365	102213014	-1	None	None
7	POLR2J3	ENSG00000168255	ENST00000379340	nonsense_mediated_decay	KNOWN	CCDS47673	33853	348	115	102178366	102212986	-1	None	None
7	POLR2J3	ENSG00000168255	ENST00000486319	nonsense_mediated_decay	KNOWN	None	33853	351	116	102178367	102213096	-1	None	None
7	POLR2J3	ENSG00000168255	ENST00000503564	processed_transcript	KNOWN	None	33853	None	None	102178788	102207076	-1	None	None
7	POLR2J3	ENSG00000168255	ENST00000511773	processed_transcript	KNOWN	None	33853	None	None	102180123	102207517	-1	None	None
7	POLR2J3	ENSG00000168255	ENST00000508848	nonsense_mediated_decay	KNOWN	CCDS47673	33853	348	115	102180471	102213000	-1	None	None
7	POLR2J3	ENSG00000168255	ENST00000513506	protein_coding	NOVEL	None	33853	823	273	102180471	102213103	-1	None	None
7	POLR2J3	ENSG00000168255	ENST00000504677	processed_transcript	KNOWN	None	33853	None	None	102180506	102207105	-1	None	None
7	POLR2J3	ENSG00000168255	ENST00000506060	processed_transcript	KNOWN	None	33853	None	None	102181551	102212968	-1	None	None
7	POLR2J3	ENSG00000168255	ENST00000502415	processed_transcript	KNOWN	None	33853	None	None	102181598	102212917	-1	None	None
7	POLR2J3	ENSG00000168255	ENST00000507355	nonsense_mediated_decay	KNOWN	None	33853	231	76	102184015	102213030	-1	None	None
7	POLR2J3	ENSG00000168255	ENST00000511313	protein_coding	NOVEL	None	33853	231	76	102206323	102213030	-1	None	None
7	POLR2J3	ENSG00000168255	ENST00000504157	processed_transcript	KNOWN	None	33853	None	None	102206423	102213007	-1	None	None
7	POLR2J3	ENSG00000168255	ENST00000508910	processed_transcript	KNOWN	None	33853	None	None	102207074	102213002	-1	None	None
7	POLR2J3	ENSG00000168255	ENST00000443430	processed_transcript	KNOWN	None	33853	None	None	102207931	102213030	-1	None	None
7	POLR2J3	ENSG00000168255	ENST00000513438	protein_coding	PUTATIVE	None	33853	222	73	102209647	102213030	-1	None	None
7	POLR2J3	ENSG00000168255	ENST00000504101	retained_intron	KNOWN	None	33853	None	None	102209752	102213027	-1	None	None
7	POLR2J3	ENSG00000168255	ENST00000379357	protein_coding	KNOWN	None	33853	792	263	102178366	102184083	-1	None	None
11	OR5B3	ENSG00000172769	ENST00000309403	protein_coding	KNOWN	CCDS31549	8324	945	314	58169937	58170882	-1	OR5B13	OST129
6	C6orf164	ENSG00000203871	ENST00000369572	protein_coding	KNOWN	None	21404	180	59	88107017	88109467	1	None	dJ102H19.4
6	C6orf164	ENSG00000203871	ENST00000369570	protein_coding	KNOWN	None	21404	231	76	88106840	88109459	1	None	dJ102H19.4
11	OR5B2	ENSG00000172365	ENST00000302581	protein_coding	KNOWN	CCDS31550	8323	930	309	58189738	58190786	-1	None	OST073
12	None	ENSG00000268519	ENST00000600558	protein_coding	NOVEL	None	None	42	13	77949297	77950568	-1	None	None
11	OR5B12	ENSG00000172362	ENST00000302572	protein_coding	KNOWN	CCDS31551	15432	945	314	58206593	58207646	-1	OR5B12P, OR5B16	OST743
14	CCDC175	ENSG00000151838	ENST00000553317	processed_transcript	KNOWN	None	19847	None	None	59971257	59977431	-1	C14orf38	None
14	CCDC175	ENSG00000151838	ENST00000537690	protein_coding	KNOWN	CCDS53898	19847	2382	793	59971779	60043549	-1	C14orf38	None
14	CCDC175	ENSG00000151838	ENST00000556936	processed_transcript	KNOWN	None	19847	None	None	60007401	60031172	-1	C14orf38	None
14	CCDC175	ENSG00000151838	ENST00000556996	processed_transcript	KNOWN	None	19847	None	None	60017890	60031208	-1	C14orf38	None
14	CCDC175	ENSG00000151838	ENST00000281581	protein_coding	KNOWN	None	19847	2487	828	59977148	60043549	-1	C14orf38	None
11	OR5B21	ENSG00000198283	ENST00000360374	protein_coding	KNOWN	CCDS31552	19616	930	309	58274648	58275578	-1	None	None
5	ZCCHC9	ENSG00000131732	ENST00000507402	processed_transcript	KNOWN	None	25424	None	None	80597409	80608736	1	None	DKFZp761J139, PPP1R41
5	ZCCHC9	ENSG00000131732	ENST00000254037	protein_coding	KNOWN	CCDS4054	25424	816	271	80597422	80609116	1	None	DKFZp761J139, PPP1R41
5	ZCCHC9	ENSG00000131732	ENST00000407610	protein_coding	KNOWN	CCDS4054	25424	816	271	80597431	80609116	1	None	DKFZp761J139, PPP1R41
5	ZCCHC9	ENSG00000131732	ENST00000506458	processed_transcript	KNOWN	None	25424	None	None	80597442	80608791	1	None	DKFZp761J139, PPP1R41
5	ZCCHC9	ENSG00000131732	ENST00000380199	protein_coding	KNOWN	CCDS4054	25424	816	271	80597443	80608973	1	None	DKFZp761J139, PPP1R41
5	ZCCHC9	ENSG00000131732	ENST00000438268	protein_coding	KNOWN	CCDS4054	25424	816	271	80597460	80608481	1	None	DKFZp761J139, PPP1R41
5	ZCCHC9	ENSG00000131732	ENST00000504502	retained_intron	KNOWN	None	25424	None	None	80597481	80604977	1	None	DKFZp761J139, PPP1R41
5	ZCCHC9	ENSG00000131732	ENST00000505860	retained_intron	KNOWN	None	25424	None	None	80604226	80608433	1	None	DKFZp761J139, PPP1R41
5	ZCCHC9	ENSG00000131732	ENST00000510227	retained_intron	KNOWN	None	25424	None	None	80604487	80608792	1	None	DKFZp761J139, PPP1R41
6	None	ENSG00000272514	ENST00000369562	protein_coding	KNOWN	CCDS34498	None	1869	622	88117701	88174183	1	None	None
6	None	ENSG00000272514	ENST00000296885	retained_intron	KNOWN	None	None	None	None	88117731	88145775	1	None	None
6	None	ENSG00000272514	ENST00000489338	nonsense_mediated_decay	KNOWN	None	None	288	95	88117744	88174178	1	None	None
6	None	ENSG00000272514	ENST00000480123	protein_coding	KNOWN	None	None	755	250	88118207	88128049	1	None	None
2	MREG	ENSG00000118242	ENST00000263268	protein_coding	KNOWN	CCDS46513	25478	645	214	216809213	216878346	-1	None	FLJ10116, DSU, WDT2
2	MREG	ENSG00000118242	ENST00000439791	protein_coding	PUTATIVE	None	25478	387	128	216809682	216898527	-1	None	FLJ10116, DSU, WDT2
2	MREG	ENSG00000118242	ENST00000424992	protein_coding	PUTATIVE	None	25478	358	118	216809711	216898819	-1	None	FLJ10116, DSU, WDT2
2	MREG	ENSG00000118242	ENST00000420348	protein_coding	PUTATIVE	None	25478	346	114	216810296	216897682	-1	None	FLJ10116, DSU, WDT2
6	MSH5-SAPCD1	ENSG00000255152	ENST00000493662	nonsense_mediated_decay	KNOWN	None	41994	2556	851	31707797	31732627	1	MSH5-C6orf26	None
6	MSH5-SAPCD1	ENSG00000255152	ENST00000498473	nonsense_mediated_decay	KNOWN	None	41994	793	263	31727222	31732627	1	MSH5-C6orf26	None
6	MSH5-SAPCD1	ENSG00000255152	ENST00000491552	processed_transcript	KNOWN	None	41994	None	None	31728497	31730921	1	MSH5-C6orf26	None
6	MSH5-SAPCD1	ENSG00000255152	ENST00000476085	nonsense_mediated_decay	KNOWN	None	41994	88	28	31730221	31732628	1	MSH5-C6orf26	None
2	PECR	ENSG00000115425	ENST00000442122	nonsense_mediated_decay	KNOWN	None	18281	474	157	216861052	216946513	-1	None	HSA250303, TERP, SDR29C1
2	PECR	ENSG00000115425	ENST00000265322	protein_coding	KNOWN	CCDS33375	18281	912	303	216903132	216946539	-1	None	HSA250303, TERP, SDR29C1
2	PECR	ENSG00000115425	ENST00000461330	retained_intron	KNOWN	None	18281	None	None	216903979	216931246	-1	None	HSA250303, TERP, SDR29C1
2	PECR	ENSG00000115425	ENST00000464737	processed_transcript	KNOWN	None	18281	None	None	216908695	216922670	-1	None	HSA250303, TERP, SDR29C1
2	PECR	ENSG00000115425	ENST00000497889	processed_transcript	KNOWN	None	18281	None	None	216913986	216946468	-1	None	HSA250303, TERP, SDR29C1
2	PECR	ENSG00000115425	ENST00000487318	processed_transcript	KNOWN	None	18281	None	None	216928612	216946524	-1	None	HSA250303, TERP, SDR29C1
2	PECR	ENSG00000115425	ENST00000474093	retained_intron	KNOWN	None	18281	None	None	216929933	216946523	-1	None	HSA250303, TERP, SDR29C1
2	PECR	ENSG00000115425	ENST00000464722	processed_transcript	PUTATIVE	None	18281	None	None	216930173	216947678	-1	None	HSA250303, TERP, SDR29C1
11	LPXN	ENSG00000110031	ENST00000530561	nonsense_mediated_decay	KNOWN	None	14061	321	106	58294344	58343309	-1	None	LDPL
11	LPXN	ENSG00000110031	ENST00000395074	protein_coding	KNOWN	CCDS7969	14061	1161	386	58294344	58343334	-1	None	LDPL
11	LPXN	ENSG00000110031	ENST00000528954	protein_coding	KNOWN	CCDS53635	14061	1176	391	58294344	58345639	-1	None	LDPL
11	LPXN	ENSG00000110031	ENST00000528489	protein_coding	PUTATIVE	None	14061	1101	366	58294512	58345693	-1	None	LDPL
11	LPXN	ENSG00000110031	ENST00000529915	retained_intron	KNOWN	None	14061	None	None	58322228	58343356	-1	None	LDPL
17	HES7	ENSG00000179111	ENST00000541682	protein_coding	KNOWN	CCDS54085	15977	693	230	8023908	8027402	-1	None	bHLHb37
17	HES7	ENSG00000179111	ENST00000317814	protein_coding	KNOWN	CCDS42258	15977	678	225	8024889	8027402	-1	None	bHLHb37
17	HES7	ENSG00000179111	ENST00000577735	protein_coding	PUTATIVE	None	15977	436	144	8025122	8027410	-1	None	bHLHb37
12	None	ENSG00000269529	ENST00000598429	protein_coding	KNOWN	None	None	369	122	50690489	50691718	1	None	None
2	TMEM169	ENSG00000163449	ENST00000433112	protein_coding	KNOWN	None	25130	350	115	216946589	216964721	1	None	FLJ34263
2	TMEM169	ENSG00000163449	ENST00000437356	protein_coding	KNOWN	CCDS2401	25130	894	297	216946612	216965788	1	None	FLJ34263
2	TMEM169	ENSG00000163449	ENST00000295658	protein_coding	KNOWN	CCDS2401	25130	894	297	216946618	216967506	1	None	FLJ34263
2	TMEM169	ENSG00000163449	ENST00000455479	protein_coding	KNOWN	None	25130	305	100	216946642	216964676	1	None	FLJ34263
2	TMEM169	ENSG00000163449	ENST00000406027	protein_coding	KNOWN	CCDS2401	25130	894	297	216946642	216967105	1	None	FLJ34263
2	TMEM169	ENSG00000163449	ENST00000454545	protein_coding	KNOWN	CCDS2401	25130	894	297	216946589	216967505	1	None	FLJ34263
11	SIRT3	ENSG00000142082	ENST00000382743	protein_coding	KNOWN	CCDS7691	14931	1200	399	215458	236431	-1	None	SIR2L3
11	SIRT3	ENSG00000142082	ENST00000529937	nonsense_mediated_decay	KNOWN	None	14931	405	134	216145	236337	-1	None	SIR2L3
11	SIRT3	ENSG00000142082	ENST00000532837	nonsense_mediated_decay	KNOWN	None	14931	141	46	216179	236343	-1	None	SIR2L3
11	SIRT3	ENSG00000142082	ENST00000525319	protein_coding	NOVEL	None	14931	957	318	216206	236354	-1	None	SIR2L3
11	SIRT3	ENSG00000142082	ENST00000524564	protein_coding	NOVEL	None	14931	1062	353	216391	236354	-1	None	SIR2L3
11	SIRT3	ENSG00000142082	ENST00000532956	protein_coding	NOVEL	None	14931	1038	345	216525	236352	-1	None	SIR2L3
11	SIRT3	ENSG00000142082	ENST00000529382	protein_coding	KNOWN	CCDS53590	14931	774	257	216611	236834	-1	None	SIR2L3
11	SIRT3	ENSG00000142082	ENST00000531753	processed_transcript	KNOWN	None	14931	None	None	224090	233928	-1	None	SIR2L3
11	SIRT3	ENSG00000142082	ENST00000526854	nonsense_mediated_decay	KNOWN	None	14931	288	95	224167	236330	-1	None	SIR2L3
11	SIRT3	ENSG00000142082	ENST00000529055	nonsense_mediated_decay	KNOWN	None	14931	141	46	224222	236339	-1	None	SIR2L3
11	SIRT3	ENSG00000142082	ENST00000528702	processed_transcript	KNOWN	None	14931	None	None	225673	236931	-1	None	SIR2L3
11	SIRT3	ENSG00000142082	ENST00000534381	retained_intron	KNOWN	None	14931	None	None	225762	230692	-1	None	SIR2L3
11	SIRT3	ENSG00000142082	ENST00000530067	nonsense_mediated_decay	KNOWN	None	14931	141	46	230603	236345	-1	None	SIR2L3
11	SIRT3	ENSG00000142082	ENST00000528469	protein_coding	PUTATIVE	None	14931	280	92	232983	236859	-1	None	SIR2L3
11	SIRT3	ENSG00000142082	ENST00000525776	protein_coding	PUTATIVE	None	14931	71	22	233192	233683	-1	None	SIR2L3
11	SIRT3	ENSG00000142082	ENST00000525237	protein_coding	PUTATIVE	None	14931	54	17	233209	236326	-1	None	SIR2L3
8	SORBS3	ENSG00000120896	ENST00000522037	processed_transcript	KNOWN	None	30907	None	None	22402499	22414418	1	None	SCAM-1, SH3D4, vinexin
8	SORBS3	ENSG00000120896	ENST00000523941	processed_transcript	KNOWN	None	30907	None	None	22402503	22412493	1	None	SCAM-1, SH3D4, vinexin
8	SORBS3	ENSG00000120896	ENST00000240123	protein_coding	KNOWN	CCDS6031	30907	2016	671	22409208	22433301	1	None	SCAM-1, SH3D4, vinexin
8	SORBS3	ENSG00000120896	ENST00000517500	nonsense_mediated_decay	KNOWN	None	30907	987	328	22409440	22424207	1	None	SCAM-1, SH3D4, vinexin
8	SORBS3	ENSG00000120896	ENST00000517535	retained_intron	KNOWN	None	30907	None	None	22411761	22432561	1	None	SCAM-1, SH3D4, vinexin
8	SORBS3	ENSG00000120896	ENST00000523402	protein_coding	PUTATIVE	None	30907	651	216	22411964	22419202	1	None	SCAM-1, SH3D4, vinexin
8	SORBS3	ENSG00000120896	ENST00000520563	protein_coding	PUTATIVE	None	30907	456	151	22412411	22421819	1	None	SCAM-1, SH3D4, vinexin
8	SORBS3	ENSG00000120896	ENST00000524057	protein_coding	PUTATIVE	None	30907	564	187	22414199	22421875	1	None	SCAM-1, SH3D4, vinexin
8	SORBS3	ENSG00000120896	ENST00000518512	processed_transcript	KNOWN	None	30907	None	None	22418444	22423385	1	None	SCAM-1, SH3D4, vinexin
8	SORBS3	ENSG00000120896	ENST00000520574	retained_intron	KNOWN	None	30907	None	None	22422286	22423178	1	None	SCAM-1, SH3D4, vinexin
8	SORBS3	ENSG00000120896	ENST00000521787	processed_transcript	KNOWN	None	30907	None	None	22422340	22424368	1	None	SCAM-1, SH3D4, vinexin
8	SORBS3	ENSG00000120896	ENST00000523740	processed_transcript	KNOWN	None	30907	None	None	22422381	22428584	1	None	SCAM-1, SH3D4, vinexin
8	SORBS3	ENSG00000120896	ENST00000522315	retained_intron	KNOWN	None	30907	None	None	22422565	22424625	1	None	SCAM-1, SH3D4, vinexin
8	SORBS3	ENSG00000120896	ENST00000519453	retained_intron	KNOWN	None	30907	None	None	22422779	22426761	1	None	SCAM-1, SH3D4, vinexin
8	SORBS3	ENSG00000120896	ENST00000523900	protein_coding	PUTATIVE	None	30907	522	173	22422796	22428539	1	None	SCAM-1, SH3D4, vinexin
8	SORBS3	ENSG00000120896	ENST00000518912	protein_coding	PUTATIVE	None	30907	406	134	22423179	22426787	1	None	SCAM-1, SH3D4, vinexin
8	SORBS3	ENSG00000120896	ENST00000523965	protein_coding	PUTATIVE	None	30907	782	259	22423281	22429295	1	None	SCAM-1, SH3D4, vinexin
8	SORBS3	ENSG00000120896	ENST00000521554	protein_coding	PUTATIVE	None	30907	858	285	22423282	22429331	1	None	SCAM-1, SH3D4, vinexin
8	SORBS3	ENSG00000120896	ENST00000522721	protein_coding	PUTATIVE	None	30907	282	93	22423514	22424691	1	None	SCAM-1, SH3D4, vinexin
8	SORBS3	ENSG00000120896	ENST00000523348	protein_coding	PUTATIVE	None	30907	680	225	22424551	22429334	1	None	SCAM-1, SH3D4, vinexin
8	SORBS3	ENSG00000120896	ENST00000517962	protein_coding	PUTATIVE	None	30907	560	185	22428457	22432824	1	None	SCAM-1, SH3D4, vinexin
8	SORBS3	ENSG00000120896	ENST00000520207	protein_coding	PUTATIVE	None	30907	471	156	22429205	22432518	1	None	SCAM-1, SH3D4, vinexin
8	SORBS3	ENSG00000120896	ENST00000519127	protein_coding	PUTATIVE	None	30907	209	68	22430850	22432302	1	None	SCAM-1, SH3D4, vinexin
8	SORBS3	ENSG00000120896	ENST00000428103	protein_coding	KNOWN	CCDS47824	30907	990	329	22423179	22433007	1	None	SCAM-1, SH3D4, vinexin
12	FAM186A	ENSG00000185958	ENST00000543111	protein_coding	PUTATIVE	None	26980	7047	2348	50720013	50790405	-1	None	LOC121006
12	FAM186A	ENSG00000185958	ENST00000539751	nonsense_mediated_decay	KNOWN	None	26980	220	72	50721092	50727886	-1	None	LOC121006
12	FAM186A	ENSG00000185958	ENST00000327337	protein_coding	KNOWN	CCDS44878	26980	7056	2351	50721095	50790267	-1	None	LOC121006
12	FAM186A	ENSG00000185958	ENST00000543096	protein_coding	KNOWN	None	26980	1080	359	50720013	50744668	-1	None	LOC121006
15	LINGO1	ENSG00000169783	ENST00000355300	protein_coding	KNOWN	CCDS45313	21205	1863	620	77905369	77924832	-1	LRRN6A	FLJ14594, LERN1
15	LINGO1	ENSG00000169783	ENST00000561030	protein_coding	KNOWN	None	21205	1845	614	77906012	77988490	-1	LRRN6A	FLJ14594, LERN1
15	LINGO1	ENSG00000169783	ENST00000557798	protein_coding	PUTATIVE	None	21205	978	325	77907286	77926695	-1	LRRN6A	FLJ14594, LERN1
15	LINGO1	ENSG00000169783	ENST00000561686	protein_coding	KNOWN	None	21205	536	177	77907695	78079356	-1	LRRN6A	FLJ14594, LERN1
15	LINGO1	ENSG00000169783	ENST00000567726	protein_coding	KNOWN	None	21205	376	124	77907855	77999849	-1	LRRN6A	FLJ14594, LERN1
15	LINGO1	ENSG00000169783	ENST00000566711	protein_coding	KNOWN	None	21205	216	71	77908015	78111794	-1	LRRN6A	FLJ14594, LERN1
15	LINGO1	ENSG00000169783	ENST00000559893	protein_coding	KNOWN	None	21205	167	54	77908064	77988837	-1	LRRN6A	FLJ14594, LERN1
15	LINGO1	ENSG00000169783	ENST00000564472	protein_coding	KNOWN	None	21205	107	34	77908124	78013093	-1	LRRN6A	FLJ14594, LERN1
15	LINGO1	ENSG00000169783	ENST00000570216	protein_coding	KNOWN	None	21205	56	17	77908175	78113242	-1	LRRN6A	FLJ14594, LERN1
15	LINGO1	ENSG00000169783	ENST00000562933	protein_coding	KNOWN	None	21205	35	10	77908196	78112674	-1	LRRN6A	FLJ14594, LERN1
15	LINGO1	ENSG00000169783	ENST00000563316	protein_coding	KNOWN	None	21205	12	3	77908219	78113213	-1	LRRN6A	FLJ14594, LERN1
15	LINGO1	ENSG00000169783	ENST00000567605	processed_transcript	KNOWN	None	21205	None	None	77969449	78111870	-1	LRRN6A	FLJ14594, LERN1
15	LINGO1	ENSG00000169783	ENST00000568951	processed_transcript	KNOWN	None	21205	None	None	77969451	78113196	-1	LRRN6A	FLJ14594, LERN1
15	LINGO1	ENSG00000169783	ENST00000564066	processed_transcript	KNOWN	None	21205	None	None	77969498	78112566	-1	LRRN6A	FLJ14594, LERN1
12	NINJ2	ENSG00000171840	ENST00000305108	protein_coding	KNOWN	CCDS8505	7825	567	188	673462	772945	-1	None	None
12	NINJ2	ENSG00000171840	ENST00000397265	protein_coding	PUTATIVE	None	7825	408	135	673542	719584	-1	None	None
12	NINJ2	ENSG00000171840	ENST00000542920	protein_coding	PUTATIVE	None	7825	321	106	673747	752831	-1	None	None
12	NINJ2	ENSG00000171840	ENST00000433832	protein_coding	PUTATIVE	None	7825	273	90	674526	752802	-1	None	None
12	NINJ2	ENSG00000171840	ENST00000537416	processed_transcript	PUTATIVE	None	7825	None	None	674999	752851	-1	None	None
2	XRCC5	ENSG00000079246	ENST00000392133	protein_coding	KNOWN	CCDS2402	12833	2199	732	216972187	217071026	1	None	KU80, KARP-1, Ku86, KUB2
2	XRCC5	ENSG00000079246	ENST00000429133	processed_transcript	KNOWN	None	12833	None	None	216974054	216983862	1	None	KU80, KARP-1, Ku86, KUB2
2	XRCC5	ENSG00000079246	ENST00000476360	retained_intron	KNOWN	None	12833	None	None	216974065	216981761	1	None	KU80, KARP-1, Ku86, KUB2
2	XRCC5	ENSG00000079246	ENST00000417391	protein_coding	PUTATIVE	None	12833	395	130	216974074	216983831	1	None	KU80, KARP-1, Ku86, KUB2
2	XRCC5	ENSG00000079246	ENST00000451695	nonsense_mediated_decay	KNOWN	None	12833	59	18	216977815	216983888	1	None	KU80, KARP-1, Ku86, KUB2
2	XRCC5	ENSG00000079246	ENST00000460284	retained_intron	KNOWN	None	12833	None	None	216981608	217070146	1	None	KU80, KARP-1, Ku86, KUB2
2	XRCC5	ENSG00000079246	ENST00000493706	retained_intron	KNOWN	None	12833	None	None	216990646	216992713	1	None	KU80, KARP-1, Ku86, KUB2
2	XRCC5	ENSG00000079246	ENST00000471649	processed_transcript	KNOWN	None	12833	None	None	216995433	217006042	1	None	KU80, KARP-1, Ku86, KUB2
2	XRCC5	ENSG00000079246	ENST00000485763	retained_intron	KNOWN	None	12833	None	None	217068739	217070145	1	None	KU80, KARP-1, Ku86, KUB2
2	XRCC5	ENSG00000079246	ENST00000392132	protein_coding	KNOWN	CCDS2402	12833	2199	732	216974020	217071014	1	None	KU80, KARP-1, Ku86, KUB2
6	SAPCD1	ENSG00000228727	ENST00000433778	protein_coding	KNOWN	None	13938	351	116	31730576	31731936	1	C6orf26	NG23
6	SAPCD1	ENSG00000228727	ENST00000415669	protein_coding	KNOWN	CCDS34411	13938	537	178	31730773	31732628	1	C6orf26	NG23
6	SAPCD1	ENSG00000228727	ENST00000494299	retained_intron	KNOWN	None	13938	None	None	31731397	31732076	1	C6orf26	NG23
6	SAPCD1	ENSG00000228727	ENST00000425424	protein_coding	KNOWN	None	13938	447	148	31730773	31732622	1	C6orf26	NG23
12	NAV3	ENSG00000067798	ENST00000549464	protein_coding	PUTATIVE	None	15998	2038	678	78224685	78443787	1	None	KIAA0938, POMFIL1
12	NAV3	ENSG00000067798	ENST00000536525	protein_coding	KNOWN	CCDS41815	15998	7092	2363	78225069	78604418	1	None	KIAA0938, POMFIL1
12	NAV3	ENSG00000067798	ENST00000397909	protein_coding	KNOWN	None	15998	7158	2385	78225069	78606787	1	None	KIAA0938, POMFIL1
12	NAV3	ENSG00000067798	ENST00000549369	processed_transcript	PUTATIVE	None	15998	None	None	78334047	78344675	1	None	KIAA0938, POMFIL1
12	NAV3	ENSG00000067798	ENST00000551277	processed_transcript	PUTATIVE	None	15998	None	None	78334099	78341333	1	None	KIAA0938, POMFIL1
12	NAV3	ENSG00000067798	ENST00000547725	processed_transcript	KNOWN	None	15998	None	None	78360056	78400374	1	None	KIAA0938, POMFIL1
12	NAV3	ENSG00000067798	ENST00000550503	protein_coding	NOVEL	None	15998	698	231	78360056	78400546	1	None	KIAA0938, POMFIL1
12	NAV3	ENSG00000067798	ENST00000550673	processed_transcript	PUTATIVE	None	15998	None	None	78400958	78404677	1	None	KIAA0938, POMFIL1
12	NAV3	ENSG00000067798	ENST00000552895	protein_coding	NOVEL	None	15998	3775	1257	78511824	78606788	1	None	KIAA0938, POMFIL1
12	NAV3	ENSG00000067798	ENST00000550788	protein_coding	NOVEL	None	15998	2398	798	78516042	78593194	1	None	KIAA0938, POMFIL1
12	NAV3	ENSG00000067798	ENST00000548948	retained_intron	KNOWN	None	15998	None	None	78573200	78582084	1	None	KIAA0938, POMFIL1
12	NAV3	ENSG00000067798	ENST00000552300	processed_transcript	KNOWN	None	15998	None	None	78574657	78583970	1	None	KIAA0938, POMFIL1
12	NAV3	ENSG00000067798	ENST00000551162	protein_coding	NOVEL	None	15998	760	252	78592856	78604763	1	None	KIAA0938, POMFIL1
12	NAV3	ENSG00000067798	ENST00000547884	retained_intron	KNOWN	None	15998	None	None	78592939	78594342	1	None	KIAA0938, POMFIL1
12	NAV3	ENSG00000067798	ENST00000228327	protein_coding	KNOWN	None	15998	7092	2363	78225069	78606790	1	None	KIAA0938, POMFIL1
12	NAV3	ENSG00000067798	ENST00000266692	protein_coding	KNOWN	None	15998	6561	2186	78225069	78606790	1	None	KIAA0938, POMFIL1
12	NAV3	ENSG00000067798	ENST00000541270	protein_coding	KNOWN	None	15998	648	215	78592856	78604763	1	None	KIAA0938, POMFIL1
2	MARCH4	ENSG00000144583	ENST00000273067	protein_coding	KNOWN	CCDS33376	29269	1233	410	217122588	217236750	-1	None	KIAA1399, MARCH-IV, RNF174
17	PER1	ENSG00000179094	ENST00000317276	protein_coding	KNOWN	CCDS11131	8845	3873	1290	8043790	8055753	-1	PER	RIGUI
17	PER1	ENSG00000179094	ENST00000581082	protein_coding	NOVEL	None	8845	3804	1267	8043795	8054150	-1	PER	RIGUI
17	PER1	ENSG00000179094	ENST00000582719	nonsense_mediated_decay	KNOWN	None	8845	2475	824	8044118	8055662	-1	PER	RIGUI
17	PER1	ENSG00000179094	ENST00000583677	retained_intron	KNOWN	None	8845	None	None	8044534	8045509	-1	PER	RIGUI
17	PER1	ENSG00000179094	ENST00000585284	retained_intron	KNOWN	None	8845	None	None	8044551	8045788	-1	PER	RIGUI
17	PER1	ENSG00000179094	ENST00000579098	retained_intron	KNOWN	None	8845	None	None	8045866	8046662	-1	PER	RIGUI
17	PER1	ENSG00000179094	ENST00000578089	processed_transcript	KNOWN	None	8845	None	None	8046759	8049806	-1	PER	RIGUI
17	PER1	ENSG00000179094	ENST00000578950	retained_intron	KNOWN	None	8845	None	None	8047075	8048488	-1	PER	RIGUI
17	PER1	ENSG00000179094	ENST00000354903	protein_coding	PUTATIVE	None	8845	2580	859	8047373	8059678	-1	PER	RIGUI
17	PER1	ENSG00000179094	ENST00000583559	protein_coding	PUTATIVE	None	8845	507	168	8047374	8049342	-1	PER	RIGUI
17	PER1	ENSG00000179094	ENST00000581395	nonsense_mediated_decay	KNOWN	None	8845	1719	572	8047374	8059824	-1	PER	RIGUI
17	PER1	ENSG00000179094	ENST00000585095	retained_intron	KNOWN	None	8845	None	None	8049958	8050867	-1	PER	RIGUI
17	PER1	ENSG00000179094	ENST00000577424	retained_intron	KNOWN	None	8845	None	None	8050187	8050900	-1	PER	RIGUI
17	PER1	ENSG00000179094	ENST00000579203	retained_intron	KNOWN	None	8845	None	None	8050577	8051323	-1	PER	RIGUI
17	PER1	ENSG00000179094	ENST00000578223	retained_intron	KNOWN	None	8845	None	None	8050866	8052307	-1	PER	RIGUI
17	PER1	ENSG00000179094	ENST00000579065	retained_intron	KNOWN	None	8845	None	None	8052557	8055701	-1	PER	RIGUI
17	PER1	ENSG00000179094	ENST00000581703	protein_coding	PUTATIVE	None	8845	525	174	8053293	8055753	-1	PER	RIGUI
17	PER1	ENSG00000179094	ENST00000577253	protein_coding	PUTATIVE	None	8845	351	116	8053368	8059723	-1	PER	RIGUI
17	PER1	ENSG00000179094	ENST00000584202	protein_coding	KNOWN	None	8845	337	111	8053574	8059673	-1	PER	RIGUI
2	SMARCAL1	ENSG00000138375	ENST00000430374	protein_coding	KNOWN	None	11102	437	144	217277137	217279864	1	None	HHARP, HARP
2	SMARCAL1	ENSG00000138375	ENST00000357276	protein_coding	KNOWN	CCDS2403	11102	2865	954	217277137	217347776	1	None	HHARP, HARP
2	SMARCAL1	ENSG00000138375	ENST00000444508	protein_coding	KNOWN	None	11102	391	129	217277233	217279818	1	None	HHARP, HARP
2	SMARCAL1	ENSG00000138375	ENST00000425815	protein_coding	KNOWN	None	11102	58	18	217277284	217279485	1	None	HHARP, HARP
2	SMARCAL1	ENSG00000138375	ENST00000358207	protein_coding	KNOWN	CCDS2403	11102	2865	954	217277466	217347740	1	None	HHARP, HARP
2	SMARCAL1	ENSG00000138375	ENST00000496037	retained_intron	KNOWN	None	11102	None	None	217277488	217279086	1	None	HHARP, HARP
2	SMARCAL1	ENSG00000138375	ENST00000434435	protein_coding	KNOWN	None	11102	277	91	217277488	217279704	1	None	HHARP, HARP
2	SMARCAL1	ENSG00000138375	ENST00000427645	protein_coding	NOVEL	None	11102	977	324	217279731	217293502	1	None	HHARP, HARP
2	SMARCAL1	ENSG00000138375	ENST00000392128	protein_coding	NOVEL	None	11102	2391	796	217279836	217347740	1	None	HHARP, HARP
2	SMARCAL1	ENSG00000138375	ENST00000412913	protein_coding	PUTATIVE	None	11102	424	140	217280668	217293435	1	None	HHARP, HARP
2	SMARCAL1	ENSG00000138375	ENST00000479008	processed_transcript	KNOWN	None	11102	None	None	217291778	217297495	1	None	HHARP, HARP
2	SMARCAL1	ENSG00000138375	ENST00000445153	protein_coding	NOVEL	None	11102	484	160	217293499	217311784	1	None	HHARP, HARP
2	SMARCAL1	ENSG00000138375	ENST00000486983	retained_intron	KNOWN	None	11102	None	None	217311845	217316324	1	None	HHARP, HARP
11	ZFP91	ENSG00000186660	ENST00000316059	protein_coding	KNOWN	CCDS31553	14983	1713	570	58346584	58388515	1	None	PZF, ZNF757
3	ACAD9	ENSG00000177646	ENST00000505602	processed_transcript	KNOWN	None	21497	None	None	128598439	128603532	1	None	NPD002, MGC14452
3	ACAD9	ENSG00000177646	ENST00000514643	nonsense_mediated_decay	KNOWN	None	21497	300	99	128598447	128618243	1	None	NPD002, MGC14452
3	ACAD9	ENSG00000177646	ENST00000308982	protein_coding	KNOWN	CCDS3053	21497	1866	621	128598454	128631957	1	None	NPD002, MGC14452
3	ACAD9	ENSG00000177646	ENST00000512801	nonsense_mediated_decay	KNOWN	None	21497	282	93	128598463	128618182	1	None	NPD002, MGC14452
3	ACAD9	ENSG00000177646	ENST00000505192	nonsense_mediated_decay	KNOWN	None	21497	210	69	128598466	128627467	1	None	NPD002, MGC14452
3	ACAD9	ENSG00000177646	ENST00000511227	nonsense_mediated_decay	KNOWN	None	21497	282	93	128598466	128631770	1	None	NPD002, MGC14452
3	ACAD9	ENSG00000177646	ENST00000515429	nonsense_mediated_decay	KNOWN	None	21497	282	93	128598472	128612444	1	None	NPD002, MGC14452
3	ACAD9	ENSG00000177646	ENST00000514336	protein_coding	PUTATIVE	None	21497	520	172	128598472	128615309	1	None	NPD002, MGC14452
3	ACAD9	ENSG00000177646	ENST00000505867	nonsense_mediated_decay	KNOWN	None	21497	282	93	128598489	128631857	1	None	NPD002, MGC14452
3	ACAD9	ENSG00000177646	ENST00000511526	processed_transcript	KNOWN	None	21497	None	None	128616496	128631947	1	None	NPD002, MGC14452
3	ACAD9	ENSG00000177646	ENST00000508971	nonsense_mediated_decay	KNOWN	None	21497	1155	384	128618208	128634910	1	None	NPD002, MGC14452
3	ACAD9	ENSG00000177646	ENST00000511325	retained_intron	KNOWN	None	21497	None	None	128623219	128631943	1	None	NPD002, MGC14452
X	HDAC6	ENSG00000094631	ENST00000423941	protein_coding	KNOWN	None	14064	427	141	48659784	48664068	1	None	KIAA0901, JM21, HD6, FLJ16239
X	HDAC6	ENSG00000094631	ENST00000438518	protein_coding	KNOWN	None	14064	153	50	48659803	48661337	1	None	KIAA0901, JM21, HD6, FLJ16239
X	HDAC6	ENSG00000094631	ENST00000376643	protein_coding	KNOWN	None	14064	632	209	48660107	48665113	1	None	KIAA0901, JM21, HD6, FLJ16239
X	HDAC6	ENSG00000094631	ENST00000469223	processed_transcript	KNOWN	None	14064	None	None	48660200	48666544	1	None	KIAA0901, JM21, HD6, FLJ16239
X	HDAC6	ENSG00000094631	ENST00000376610	protein_coding	KNOWN	None	14064	632	209	48660356	48665113	1	None	KIAA0901, JM21, HD6, FLJ16239
X	HDAC6	ENSG00000094631	ENST00000483656	processed_transcript	KNOWN	None	14064	None	None	48660398	48666453	1	None	KIAA0901, JM21, HD6, FLJ16239
X	HDAC6	ENSG00000094631	ENST00000334136	protein_coding	KNOWN	CCDS14306	14064	3648	1215	48660402	48683386	1	None	KIAA0901, JM21, HD6, FLJ16239
X	HDAC6	ENSG00000094631	ENST00000462730	retained_intron	KNOWN	None	14064	None	None	48660423	48665353	1	None	KIAA0901, JM21, HD6, FLJ16239
X	HDAC6	ENSG00000094631	ENST00000376619	protein_coding	KNOWN	CCDS14306	14064	3648	1215	48660441	48683386	1	None	KIAA0901, JM21, HD6, FLJ16239
X	HDAC6	ENSG00000094631	ENST00000477528	retained_intron	KNOWN	None	14064	None	None	48660462	48683392	1	None	KIAA0901, JM21, HD6, FLJ16239
X	HDAC6	ENSG00000094631	ENST00000465269	retained_intron	KNOWN	None	14064	None	None	48660471	48664262	1	None	KIAA0901, JM21, HD6, FLJ16239
X	HDAC6	ENSG00000094631	ENST00000476625	retained_intron	KNOWN	None	14064	None	None	48660489	48664640	1	None	KIAA0901, JM21, HD6, FLJ16239
X	HDAC6	ENSG00000094631	ENST00000477561	processed_transcript	KNOWN	None	14064	None	None	48660517	48666677	1	None	KIAA0901, JM21, HD6, FLJ16239
X	HDAC6	ENSG00000094631	ENST00000481929	retained_intron	KNOWN	None	14064	None	None	48660593	48664152	1	None	KIAA0901, JM21, HD6, FLJ16239
X	HDAC6	ENSG00000094631	ENST00000441703	protein_coding	KNOWN	None	14064	483	160	48660594	48664820	1	None	KIAA0901, JM21, HD6, FLJ16239
X	HDAC6	ENSG00000094631	ENST00000426196	protein_coding	KNOWN	None	14064	808	268	48660599	48666735	1	None	KIAA0901, JM21, HD6, FLJ16239
X	HDAC6	ENSG00000094631	ENST00000489352	retained_intron	KNOWN	None	14064	None	None	48660614	48664253	1	None	KIAA0901, JM21, HD6, FLJ16239
X	HDAC6	ENSG00000094631	ENST00000443563	protein_coding	KNOWN	None	14064	501	166	48660922	48664838	1	None	KIAA0901, JM21, HD6, FLJ16239
X	HDAC6	ENSG00000094631	ENST00000440653	protein_coding	KNOWN	None	14064	515	170	48660957	48664852	1	None	KIAA0901, JM21, HD6, FLJ16239
X	HDAC6	ENSG00000094631	ENST00000468949	retained_intron	KNOWN	None	14064	None	None	48661187	48665055	1	None	KIAA0901, JM21, HD6, FLJ16239
X	HDAC6	ENSG00000094631	ENST00000493923	retained_intron	KNOWN	None	14064	None	None	48661315	48661846	1	None	KIAA0901, JM21, HD6, FLJ16239
X	HDAC6	ENSG00000094631	ENST00000461608	retained_intron	KNOWN	None	14064	None	None	48664826	48665366	1	None	KIAA0901, JM21, HD6, FLJ16239
X	HDAC6	ENSG00000094631	ENST00000486227	retained_intron	KNOWN	None	14064	None	None	48671760	48683386	1	None	KIAA0901, JM21, HD6, FLJ16239
X	HDAC6	ENSG00000094631	ENST00000478095	retained_intron	KNOWN	None	14064	None	None	48672947	48673835	1	None	KIAA0901, JM21, HD6, FLJ16239
X	HDAC6	ENSG00000094631	ENST00000485102	retained_intron	KNOWN	None	14064	None	None	48673172	48674583	1	None	KIAA0901, JM21, HD6, FLJ16239
X	HDAC6	ENSG00000094631	ENST00000488905	retained_intron	KNOWN	None	14064	None	None	48673676	48674251	1	None	KIAA0901, JM21, HD6, FLJ16239
X	HDAC6	ENSG00000094631	ENST00000465457	retained_intron	KNOWN	None	14064	None	None	48674206	48675743	1	None	KIAA0901, JM21, HD6, FLJ16239
X	HDAC6	ENSG00000094631	ENST00000495515	retained_intron	KNOWN	None	14064	None	None	48674597	48675360	1	None	KIAA0901, JM21, HD6, FLJ16239
X	HDAC6	ENSG00000094631	ENST00000486665	processed_transcript	KNOWN	None	14064	None	None	48674880	48678587	1	None	KIAA0901, JM21, HD6, FLJ16239
X	HDAC6	ENSG00000094631	ENST00000470942	retained_intron	KNOWN	None	14064	None	None	48674977	48678610	1	None	KIAA0901, JM21, HD6, FLJ16239
X	HDAC6	ENSG00000094631	ENST00000483506	retained_intron	KNOWN	None	14064	None	None	48675367	48676492	1	None	KIAA0901, JM21, HD6, FLJ16239
X	HDAC6	ENSG00000094631	ENST00000498808	processed_transcript	KNOWN	None	14064	None	None	48675863	48681489	1	None	KIAA0901, JM21, HD6, FLJ16239
X	HDAC6	ENSG00000094631	ENST00000489053	retained_intron	KNOWN	None	14064	None	None	48676045	48676693	1	None	KIAA0901, JM21, HD6, FLJ16239
X	HDAC6	ENSG00000094631	ENST00000480525	processed_transcript	KNOWN	None	14064	None	None	48676478	48681519	1	None	KIAA0901, JM21, HD6, FLJ16239
X	HDAC6	ENSG00000094631	ENST00000488543	retained_intron	KNOWN	None	14064	None	None	48677854	48683386	1	None	KIAA0901, JM21, HD6, FLJ16239
X	HDAC6	ENSG00000094631	ENST00000430858	protein_coding	PUTATIVE	None	14064	254	83	48681928	48683386	1	None	KIAA0901, JM21, HD6, FLJ16239
X	HDAC6	ENSG00000094631	ENST00000444343	protein_coding	KNOWN	None	14064	3690	1229	48660287	48683166	1	None	KIAA0901, JM21, HD6, FLJ16239
X	HDAC6	ENSG00000094631	ENST00000413163	protein_coding	KNOWN	None	14064	891	296	48660570	48673261	1	None	KIAA0901, JM21, HD6, FLJ16239
3	HYAL3	ENSG00000186792	ENST00000359051	protein_coding	KNOWN	CCDS56257	5322	1164	387	50330262	50336290	-1	None	LUCA-3, LUCA14, Minna14
3	HYAL3	ENSG00000186792	ENST00000336307	protein_coding	KNOWN	CCDS2815	5322	1254	417	50330262	50336899	-1	None	LUCA-3, LUCA14, Minna14
3	HYAL3	ENSG00000186792	ENST00000415204	protein_coding	KNOWN	CCDS56260	5322	507	168	50330412	50336832	-1	None	LUCA-3, LUCA14, Minna14
3	HYAL3	ENSG00000186792	ENST00000513170	protein_coding	KNOWN	CCDS56259	5322	417	138	50330476	50336663	-1	None	LUCA-3, LUCA14, Minna14
3	HYAL3	ENSG00000186792	ENST00000435141	protein_coding	KNOWN	None	5322	479	158	50332555	50333204	-1	None	LUCA-3, LUCA14, Minna14
3	HYAL3	ENSG00000186792	ENST00000450982	protein_coding	KNOWN	CCDS56257	5322	1164	387	50330476	50336663	-1	None	LUCA-3, LUCA14, Minna14
2	RPL37A	ENSG00000197756	ENST00000491306	protein_coding	KNOWN	CCDS2404	10348	279	92	217362912	217368274	1	None	L37A
2	RPL37A	ENSG00000197756	ENST00000478153	retained_intron	KNOWN	None	10348	None	None	217363548	217366179	1	None	L37A
2	RPL37A	ENSG00000197756	ENST00000490649	retained_intron	KNOWN	None	10348	None	None	217363548	217366190	1	None	L37A
2	RPL37A	ENSG00000197756	ENST00000487233	retained_intron	KNOWN	None	10348	None	None	217363567	217366183	1	None	L37A
2	RPL37A	ENSG00000197756	ENST00000600880	protein_coding	PUTATIVE	None	10348	219	72	217363573	217394177	1	None	L37A
2	RPL37A	ENSG00000197756	ENST00000446558	protein_coding	PUTATIVE	None	10348	228	75	217363578	217443903	1	None	L37A
2	RPL37A	ENSG00000197756	ENST00000420712	nonsense_mediated_decay	KNOWN	None	10348	177	58	217363585	217366185	1	None	L37A
2	RPL37A	ENSG00000197756	ENST00000359681	retained_intron	KNOWN	None	10348	None	None	217363590	217366190	1	None	L37A
2	RPL37A	ENSG00000197756	ENST00000456586	protein_coding	PUTATIVE	None	10348	207	68	217363809	217366186	1	None	L37A
2	RPL37A	ENSG00000197756	ENST00000598925	protein_coding	PUTATIVE	None	10348	183	60	217363809	217394171	1	None	L37A
2	RPL37A	ENSG00000197756	ENST00000427280	protein_coding	PUTATIVE	None	10348	267	88	217363809	217394174	1	None	L37A
2	RPL37A	ENSG00000197756	ENST00000441179	protein_coding	PUTATIVE	None	10348	183	60	217363863	217394207	1	None	L37A
6	KIAA0319	ENSG00000137261	ENST00000378214	protein_coding	KNOWN	CCDS34348	21580	3219	1072	24544335	24646383	-1	None	None
6	KIAA0319	ENSG00000137261	ENST00000537886	protein_coding	KNOWN	CCDS54971	21580	3036	1011	24544332	24646383	-1	None	None
6	KIAA0319	ENSG00000137261	ENST00000543707	protein_coding	KNOWN	CCDS34348	21580	3219	1072	24547256	24645956	-1	None	None
6	KIAA0319	ENSG00000137261	ENST00000535378	protein_coding	KNOWN	CCDS54970	21580	3192	1063	24544332	24646383	-1	None	None
6	KIAA0319	ENSG00000137261	ENST00000430948	protein_coding	KNOWN	CCDS54969	21580	3084	1027	24544332	24646249	-1	None	None
2	IGFBP2	ENSG00000115457	ENST00000434997	protein_coding	PUTATIVE	None	5471	234	77	217497551	217526640	1	IBP2	None
2	IGFBP2	ENSG00000115457	ENST00000233809	protein_coding	KNOWN	CCDS42815	5471	978	325	217498118	217529159	1	IBP2	None
2	IGFBP2	ENSG00000115457	ENST00000490362	retained_intron	KNOWN	None	5471	None	None	217498152	217529156	1	IBP2	None
2	IGFBP2	ENSG00000115457	ENST00000456764	protein_coding	PUTATIVE	None	5471	546	181	217524341	217529008	1	IBP2	None
2	IGFBP2	ENSG00000115457	ENST00000436812	protein_coding	PUTATIVE	None	5471	297	98	217525456	217529132	1	IBP2	None
6	ACAT2	ENSG00000120437	ENST00000367048	protein_coding	KNOWN	CCDS5268	94	1194	397	160181360	160200087	1	None	None
6	ACAT2	ENSG00000120437	ENST00000467951	processed_transcript	KNOWN	None	94	None	None	160183527	160196339	1	None	None
6	ACAT2	ENSG00000120437	ENST00000472052	processed_transcript	KNOWN	None	94	None	None	160196318	160200078	1	None	None
6	ACAT2	ENSG00000120437	ENST00000541436	protein_coding	KNOWN	None	94	1281	426	160183511	160200144	1	None	None
12	WNK1	ENSG00000060237	ENST00000535572	protein_coding	KNOWN	CCDS53731	14540	6405	2134	861759	1020466	1	PRKWNK1, HSN2	HSAN2
12	WNK1	ENSG00000060237	ENST00000315939	protein_coding	KNOWN	CCDS8506	14540	7149	2382	862089	1020618	1	PRKWNK1, HSN2	HSAN2
12	WNK1	ENSG00000060237	ENST00000447667	protein_coding	KNOWN	None	14540	1182	393	862222	936667	1	PRKWNK1, HSN2	HSAN2
12	WNK1	ENSG00000060237	ENST00000540360	processed_transcript	KNOWN	None	14540	None	None	939091	970301	1	PRKWNK1, HSN2	HSAN2
12	WNK1	ENSG00000060237	ENST00000538787	processed_transcript	KNOWN	None	14540	None	None	960590	968541	1	PRKWNK1, HSN2	HSAN2
12	WNK1	ENSG00000060237	ENST00000544965	protein_coding	PUTATIVE	None	14540	653	216	971247	992160	1	PRKWNK1, HSN2	HSAN2
12	WNK1	ENSG00000060237	ENST00000545285	protein_coding	NOVEL	None	14540	528	175	971340	990083	1	PRKWNK1, HSN2	HSAN2
12	WNK1	ENSG00000060237	ENST00000535698	protein_coding	PUTATIVE	None	14540	736	244	971401	989980	1	PRKWNK1, HSN2	HSAN2
12	WNK1	ENSG00000060237	ENST00000574564	protein_coding	KNOWN	None	14540	1305	434	976960	978360	1	PRKWNK1, HSN2	HSAN2
12	WNK1	ENSG00000060237	ENST00000574679	protein_coding	PUTATIVE	None	14540	722	239	977734	987478	1	PRKWNK1, HSN2	HSAN2
12	WNK1	ENSG00000060237	ENST00000542543	retained_intron	KNOWN	None	14540	None	None	987181	991137	1	PRKWNK1, HSN2	HSAN2
12	WNK1	ENSG00000060237	ENST00000545055	retained_intron	KNOWN	None	14540	None	None	990637	992585	1	PRKWNK1, HSN2	HSAN2
12	WNK1	ENSG00000060237	ENST00000534872	protein_coding	PUTATIVE	None	14540	584	193	990930	993854	1	PRKWNK1, HSN2	HSAN2
12	WNK1	ENSG00000060237	ENST00000542424	retained_intron	KNOWN	None	14540	None	None	1005789	1010240	1	PRKWNK1, HSN2	HSAN2
12	WNK1	ENSG00000060237	ENST00000537603	retained_intron	KNOWN	None	14540	None	None	1009639	1017367	1	PRKWNK1, HSN2	HSAN2
12	WNK1	ENSG00000060237	ENST00000544559	protein_coding	PUTATIVE	None	14540	226	74	1009763	1017122	1	PRKWNK1, HSN2	HSAN2
12	WNK1	ENSG00000060237	ENST00000543065	protein_coding	PUTATIVE	None	14540	201	66	1009764	1013653	1	PRKWNK1, HSN2	HSAN2
12	WNK1	ENSG00000060237	ENST00000540885	retained_intron	KNOWN	None	14540	None	None	1016886	1018199	1	PRKWNK1, HSN2	HSAN2
12	WNK1	ENSG00000060237	ENST00000537687	protein_coding	KNOWN	None	14540	7929	2642	862089	1020618	1	PRKWNK1, HSN2	HSAN2
12	WNK1	ENSG00000060237	ENST00000530271	protein_coding	KNOWN	None	14540	8643	2880	862732	1017958	1	PRKWNK1, HSN2	HSAN2
12	WNK1	ENSG00000060237	ENST00000340908	protein_coding	KNOWN	None	14540	5928	1975	960859	1020618	1	PRKWNK1, HSN2	HSAN2
2	IGFBP5	ENSG00000115461	ENST00000233813	protein_coding	KNOWN	CCDS2405	5474	819	272	217536828	217560248	-1	None	None
2	IGFBP5	ENSG00000115461	ENST00000486341	retained_intron	KNOWN	None	5474	None	None	217543481	217559390	-1	None	None
2	IGFBP5	ENSG00000115461	ENST00000449583	protein_coding	NOVEL	None	5474	699	232	217543576	217559517	-1	None	None
2	TNP1	ENSG00000118245	ENST00000236979	protein_coding	KNOWN	CCDS2406	11951	168	55	217724181	217724787	-1	None	None
2	None	ENSG00000223874	ENST00000456163	protein_coding	PUTATIVE	None	None	294	97	217735495	217736362	1	None	None
19	SPIB	ENSG00000142539	ENST00000599632	protein_coding	PUTATIVE	None	11242	1192	396	50919056	50931666	1	None	SPI-B
19	SPIB	ENSG00000142539	ENST00000439922	protein_coding	KNOWN	CCDS58674	11242	516	171	50922198	50931844	1	None	SPI-B
2	DIRC3	ENSG00000231672	ENST00000474063	processed_transcript	KNOWN	None	17805	None	None	218148742	218464655	-1	None	FLJ14199
2	DIRC3	ENSG00000231672	ENST00000486365	processed_transcript	KNOWN	None	17805	None	None	218183890	218621316	-1	None	FLJ14199
2	DIRC3	ENSG00000231672	ENST00000484635	processed_transcript	KNOWN	None	17805	None	None	218290233	218298939	-1	None	FLJ14199
2	DIRC3	ENSG00000231672	ENST00000423123	protein_coding	PUTATIVE	None	17805	396	131	218568623	218621278	-1	None	FLJ14199
19	SPIB	ENSG00000269404	ENST00000595883	protein_coding	KNOWN	CCDS33080	11242	789	262	50922195	50934570	1	None	SPI-B
19	SPIB	ENSG00000269404	ENST00000599923	retained_intron	KNOWN	None	11242	None	None	50922196	50926232	1	None	SPI-B
19	SPIB	ENSG00000269404	ENST00000594188	retained_intron	KNOWN	None	11242	None	None	50922198	50926454	1	None	SPI-B
19	SPIB	ENSG00000269404	ENST00000597855	protein_coding	PUTATIVE	None	11242	414	137	50922198	50931381	1	None	SPI-B
19	SPIB	ENSG00000269404	ENST00000596074	protein_coding	PUTATIVE	None	11242	234	77	50922198	50931844	1	None	SPI-B
19	SPIB	ENSG00000269404	ENST00000594685	protein_coding	NOVEL	None	11242	382	126	50922211	50926284	1	None	SPI-B
19	SPIB	ENSG00000269404	ENST00000270632	protein_coding	KNOWN	CCDS59412	11242	534	177	50922215	50932246	1	None	SPI-B
12	LARP4	ENSG00000161813	ENST00000550522	protein_coding	PUTATIVE	None	24320	169	55	50786166	50824334	1	None	PP13296
12	LARP4	ENSG00000161813	ENST00000429001	protein_coding	KNOWN	None	24320	2193	730	50794640	50871300	1	None	PP13296
12	LARP4	ENSG00000161813	ENST00000548174	protein_coding	PUTATIVE	None	24320	347	114	50794672	50822874	1	None	PP13296
12	LARP4	ENSG00000161813	ENST00000548697	protein_coding	PUTATIVE	None	24320	108	35	50794678	50822869	1	None	PP13296
12	LARP4	ENSG00000161813	ENST00000548993	protein_coding	PUTATIVE	None	24320	376	124	50794679	50831568	1	None	PP13296
12	LARP4	ENSG00000161813	ENST00000398473	protein_coding	KNOWN	CCDS41782	24320	2175	724	50794682	50873787	1	None	PP13296
12	LARP4	ENSG00000161813	ENST00000522085	protein_coding	NOVEL	CCDS53789	24320	1338	445	50794691	50855270	1	None	PP13296
12	LARP4	ENSG00000161813	ENST00000518444	protein_coding	KNOWN	CCDS44879	24320	2172	723	50794712	50870246	1	None	PP13296
12	LARP4	ENSG00000161813	ENST00000551886	protein_coding	NOVEL	None	24320	507	168	50794715	50829382	1	None	PP13296
12	LARP4	ENSG00000161813	ENST00000523389	protein_coding	PUTATIVE	None	24320	111	36	50794733	50822872	1	None	PP13296
12	LARP4	ENSG00000161813	ENST00000518561	protein_coding	PUTATIVE	None	24320	1128	375	50794739	50855270	1	None	PP13296
12	LARP4	ENSG00000161813	ENST00000347328	protein_coding	KNOWN	CCDS44880	24320	1962	653	50794768	50871280	1	None	PP13296
12	LARP4	ENSG00000161813	ENST00000550260	protein_coding	NOVEL	None	24320	573	190	50794784	50831561	1	None	PP13296
12	LARP4	ENSG00000161813	ENST00000517559	protein_coding	PUTATIVE	None	24320	253	83	50794891	50829335	1	None	PP13296
12	LARP4	ENSG00000161813	ENST00000552445	protein_coding	PUTATIVE	None	24320	183	60	50794976	50824348	1	None	PP13296
12	LARP4	ENSG00000161813	ENST00000520064	protein_coding	PUTATIVE	None	24320	1476	491	50834222	50870239	1	None	PP13296
12	LARP4	ENSG00000161813	ENST00000521120	retained_intron	KNOWN	None	24320	None	None	50834262	50848745	1	None	PP13296
12	LARP4	ENSG00000161813	ENST00000293618	protein_coding	KNOWN	CCDS53790	24320	1962	653	50794592	50873779	1	None	PP13296
11	MRPL48	ENSG00000175581	ENST00000310614	protein_coding	KNOWN	CCDS44676	16653	639	212	73498361	73575656	1	None	CGI-118
11	MRPL48	ENSG00000175581	ENST00000508278	nonsense_mediated_decay	KNOWN	None	16653	126	41	73498917	73576178	1	None	CGI-118
11	MRPL48	ENSG00000175581	ENST00000540162	nonsense_mediated_decay	KNOWN	None	16653	159	52	73498922	73575560	1	None	CGI-118
11	MRPL48	ENSG00000175581	ENST00000544140	nonsense_mediated_decay	KNOWN	None	16653	153	50	73498928	73571525	1	None	CGI-118
11	MRPL48	ENSG00000175581	ENST00000544819	nonsense_mediated_decay	KNOWN	None	16653	153	50	73498930	73575469	1	None	CGI-118
11	MRPL48	ENSG00000175581	ENST00000497094	protein_coding	PUTATIVE	None	16653	32	9	73498936	73555979	1	None	CGI-118
11	MRPL48	ENSG00000175581	ENST00000411840	protein_coding	PUTATIVE	None	16653	342	113	73498940	73575643	1	None	CGI-118
11	MRPL48	ENSG00000175581	ENST00000535277	protein_coding	PUTATIVE	None	16653	79	25	73498951	73556026	1	None	CGI-118
11	MRPL48	ENSG00000175581	ENST00000398483	protein_coding	PUTATIVE	None	16653	342	113	73498951	73575650	1	None	CGI-118
11	MRPL48	ENSG00000175581	ENST00000542303	protein_coding	NOVEL	None	16653	366	121	73498954	73575647	1	None	CGI-118
11	MRPL48	ENSG00000175581	ENST00000537007	protein_coding	PUTATIVE	None	16653	39	12	73498975	73555986	1	None	CGI-118
11	MRPL48	ENSG00000175581	ENST00000543058	nonsense_mediated_decay	KNOWN	None	16653	153	50	73499002	73575652	1	None	CGI-118
11	MRPL48	ENSG00000175581	ENST00000543374	retained_intron	KNOWN	None	16653	None	None	73519353	73556182	1	None	CGI-118
11	MRPL48	ENSG00000175581	ENST00000314282	protein_coding	PUTATIVE	None	16653	342	113	73553158	73575644	1	None	CGI-118
11	MRPL48	ENSG00000175581	ENST00000535529	protein_coding	KNOWN	None	16653	585	194	73498917	73576178	1	None	CGI-118
6	C6orf165	ENSG00000213204	ENST00000507897	nonsense_mediated_decay	KNOWN	CCDS34498	21405	1869	622	88117730	88205858	1	None	FLJ25974, dJ382I10.1
6	C6orf165	ENSG00000213204	ENST00000506888	processed_transcript	KNOWN	None	21405	None	None	88146409	88221352	1	None	FLJ25974, dJ382I10.1
6	C6orf165	ENSG00000213204	ENST00000513191	processed_transcript	KNOWN	None	21405	None	None	88146451	88187153	1	None	FLJ25974, dJ382I10.1
7	None	ENSG00000270249	ENST00000514917	protein_coding	PUTATIVE	None	None	911	302	102181948	102232891	-1	None	None
7	SPDYE2	ENSG00000205238	ENST00000507918	protein_coding	KNOWN	CCDS34716	33841	1209	402	102191679	102202516	1	None	MGC119295
7	SPDYE2	ENSG00000205238	ENST00000341656	protein_coding	KNOWN	None	33841	777	258	102196256	102202755	1	None	MGC119295
7	SPDYE2	ENSG00000205238	ENST00000432940	protein_coding	KNOWN	None	33841	777	258	102191679	102201622	1	None	MGC119295
19	DPF1	ENSG00000011332	ENST00000420980	protein_coding	KNOWN	CCDS33008	20225	1143	380	38701646	38714890	-1	None	neuro-d4, NEUD4, BAF45b
19	DPF1	ENSG00000011332	ENST00000416611	protein_coding	NOVEL	None	20225	1197	398	38701683	38720354	-1	None	neuro-d4, NEUD4, BAF45b
19	DPF1	ENSG00000011332	ENST00000418517	nonsense_mediated_decay	KNOWN	None	20225	303	100	38702340	38720313	-1	None	neuro-d4, NEUD4, BAF45b
19	DPF1	ENSG00000011332	ENST00000414789	protein_coding	KNOWN	CCDS46065	20225	999	332	38702342	38713938	-1	None	neuro-d4, NEUD4, BAF45b
19	DPF1	ENSG00000011332	ENST00000355526	protein_coding	KNOWN	CCDS46064	20225	1245	414	38702343	38714890	-1	None	neuro-d4, NEUD4, BAF45b
19	DPF1	ENSG00000011332	ENST00000473716	retained_intron	KNOWN	None	20225	None	None	38702357	38710579	-1	None	neuro-d4, NEUD4, BAF45b
19	DPF1	ENSG00000011332	ENST00000456296	protein_coding	NOVEL	None	20225	1167	388	38702395	38720317	-1	None	neuro-d4, NEUD4, BAF45b
19	DPF1	ENSG00000011332	ENST00000472656	retained_intron	KNOWN	None	20225	None	None	38702602	38708292	-1	None	neuro-d4, NEUD4, BAF45b
19	DPF1	ENSG00000011332	ENST00000471976	retained_intron	KNOWN	None	20225	None	None	38702614	38714890	-1	None	neuro-d4, NEUD4, BAF45b
19	DPF1	ENSG00000011332	ENST00000494031	retained_intron	KNOWN	None	20225	None	None	38702705	38707150	-1	None	neuro-d4, NEUD4, BAF45b
19	DPF1	ENSG00000011332	ENST00000488378	retained_intron	KNOWN	None	20225	None	None	38702712	38704619	-1	None	neuro-d4, NEUD4, BAF45b
19	DPF1	ENSG00000011332	ENST00000438060	protein_coding	PUTATIVE	None	20225	631	209	38706882	38714601	-1	None	neuro-d4, NEUD4, BAF45b
19	DPF1	ENSG00000011332	ENST00000475938	retained_intron	KNOWN	None	20225	None	None	38708031	38720294	-1	None	neuro-d4, NEUD4, BAF45b
19	DPF1	ENSG00000011332	ENST00000438365	protein_coding	KNOWN	None	20225	296	97	38709268	38713813	-1	None	neuro-d4, NEUD4, BAF45b
19	DPF1	ENSG00000011332	ENST00000586624	protein_coding	KNOWN	None	20225	163	53	38709669	38719333	-1	None	neuro-d4, NEUD4, BAF45b
19	DPF1	ENSG00000011332	ENST00000412732	protein_coding	KNOWN	CCDS46065	20225	999	332	38701649	38720317	-1	None	neuro-d4, NEUD4, BAF45b
2	TNS1	ENSG00000079308	ENST00000171887	protein_coding	KNOWN	CCDS2407	11973	5208	1735	218664512	218808851	-1	TNS, MXRA6	DKFZp586K0617
2	TNS1	ENSG00000079308	ENST00000446688	protein_coding	NOVEL	None	11973	2622	873	218667512	218706883	-1	TNS, MXRA6	DKFZp586K0617
2	TNS1	ENSG00000079308	ENST00000490566	retained_intron	KNOWN	None	11973	None	None	218668521	218678739	-1	TNS, MXRA6	DKFZp586K0617
2	TNS1	ENSG00000079308	ENST00000419504	protein_coding	NOVEL	None	11973	5166	1721	218668589	218784932	-1	TNS, MXRA6	DKFZp586K0617
2	TNS1	ENSG00000079308	ENST00000430930	protein_coding	NOVEL	None	11973	5145	1714	218668589	218784932	-1	TNS, MXRA6	DKFZp586K0617
2	TNS1	ENSG00000079308	ENST00000480416	retained_intron	KNOWN	None	11973	None	None	218674437	218675027	-1	TNS, MXRA6	DKFZp586K0617
2	TNS1	ENSG00000079308	ENST00000495556	retained_intron	KNOWN	None	11973	None	None	218678432	218680091	-1	TNS, MXRA6	DKFZp586K0617
2	TNS1	ENSG00000079308	ENST00000446903	protein_coding	PUTATIVE	None	11973	2341	779	218712899	218867718	-1	TNS, MXRA6	DKFZp586K0617
2	TNS1	ENSG00000079308	ENST00000479185	retained_intron	KNOWN	None	11973	None	None	218713079	218750603	-1	TNS, MXRA6	DKFZp586K0617
2	TNS1	ENSG00000079308	ENST00000480665	processed_transcript	PUTATIVE	None	11973	None	None	218713195	218723356	-1	TNS, MXRA6	DKFZp586K0617
2	TNS1	ENSG00000079308	ENST00000413554	protein_coding	PUTATIVE	None	11973	1462	486	218713607	218770184	-1	TNS, MXRA6	DKFZp586K0617
2	TNS1	ENSG00000079308	ENST00000310858	protein_coding	PUTATIVE	None	11973	1251	416	218723952	218768536	-1	TNS, MXRA6	DKFZp586K0617
2	TNS1	ENSG00000079308	ENST00000453356	protein_coding	PUTATIVE	None	11973	448	148	218744015	218750533	-1	TNS, MXRA6	DKFZp586K0617
2	TNS1	ENSG00000079308	ENST00000492338	retained_intron	KNOWN	None	11973	None	None	218755051	218759779	-1	TNS, MXRA6	DKFZp586K0617
2	TNS1	ENSG00000079308	ENST00000413280	protein_coding	KNOWN	None	11973	308	101	218758196	218843657	-1	TNS, MXRA6	DKFZp586K0617
2	TNS1	ENSG00000079308	ENST00000439083	protein_coding	KNOWN	None	11973	184	60	218759764	218766732	-1	TNS, MXRA6	DKFZp586K0617
2	TNS1	ENSG00000079308	ENST00000423413	protein_coding	PUTATIVE	None	11973	366	121	218762518	218801885	-1	TNS, MXRA6	DKFZp586K0617
2	TNS1	ENSG00000079308	ENST00000449814	protein_coding	KNOWN	None	11973	73	23	218762616	218808793	-1	TNS, MXRA6	DKFZp586K0617
2	TNS1	ENSG00000079308	ENST00000465306	processed_transcript	PUTATIVE	None	11973	None	None	218851463	218855752	-1	TNS, MXRA6	DKFZp586K0617
6	TCP1	ENSG00000120438	ENST00000321394	protein_coding	KNOWN	CCDS5269	11655	1671	556	160199530	160210781	-1	None	D6S230E, CCT1, Ccta
6	TCP1	ENSG00000120438	ENST00000544255	protein_coding	PUTATIVE	None	11655	999	332	160199996	160210628	-1	None	D6S230E, CCT1, Ccta
6	TCP1	ENSG00000120438	ENST00000420894	protein_coding	PUTATIVE	None	11655	1302	433	160200017	160210604	-1	None	D6S230E, CCT1, Ccta
6	TCP1	ENSG00000120438	ENST00000392168	protein_coding	KNOWN	CCDS43522	11655	1206	401	160200019	160210735	-1	None	D6S230E, CCT1, Ccta
6	TCP1	ENSG00000120438	ENST00000546204	retained_intron	KNOWN	None	11655	None	None	160200624	160201293	-1	None	D6S230E, CCT1, Ccta
6	TCP1	ENSG00000120438	ENST00000539756	protein_coding	NOVEL	None	11655	663	220	160200948	160210617	-1	None	D6S230E, CCT1, Ccta
6	TCP1	ENSG00000120438	ENST00000536807	retained_intron	KNOWN	None	11655	None	None	160202057	160206357	-1	None	D6S230E, CCT1, Ccta
6	TCP1	ENSG00000120438	ENST00000538530	nonsense_mediated_decay	KNOWN	None	11655	198	65	160205022	160210616	-1	None	D6S230E, CCT1, Ccta
6	TCP1	ENSG00000120438	ENST00000543532	processed_transcript	KNOWN	None	11655	None	None	160205022	160210704	-1	None	D6S230E, CCT1, Ccta
6	TCP1	ENSG00000120438	ENST00000467544	retained_intron	KNOWN	None	11655	None	None	160205708	160206903	-1	None	D6S230E, CCT1, Ccta
6	TCP1	ENSG00000120438	ENST00000538128	protein_coding	PUTATIVE	None	11655	177	58	160205831	160210704	-1	None	D6S230E, CCT1, Ccta
6	TCP1	ENSG00000120438	ENST00000543517	nonsense_mediated_decay	KNOWN	None	11655	303	100	160205843	160210634	-1	None	D6S230E, CCT1, Ccta
6	TCP1	ENSG00000120438	ENST00000539948	protein_coding	PUTATIVE	None	11655	408	135	160206432	160209471	-1	None	D6S230E, CCT1, Ccta
6	TCP1	ENSG00000120438	ENST00000545764	retained_intron	KNOWN	None	11655	None	None	160206450	160209306	-1	None	D6S230E, CCT1, Ccta
6	TCP1	ENSG00000120438	ENST00000537390	protein_coding	PUTATIVE	None	11655	334	110	160206506	160210704	-1	None	D6S230E, CCT1, Ccta
6	TCP1	ENSG00000120438	ENST00000536394	protein_coding	PUTATIVE	None	11655	274	90	160206969	160209900	-1	None	D6S230E, CCT1, Ccta
6	TCP1	ENSG00000120438	ENST00000536607	retained_intron	KNOWN	None	11655	None	None	160208776	160210608	-1	None	D6S230E, CCT1, Ccta
6	TCP1	ENSG00000120438	ENST00000546023	processed_transcript	KNOWN	None	11655	None	None	160209469	160210705	-1	None	D6S230E, CCT1, Ccta
11	ZFP91-CNTF	ENSG00000255073	ENST00000389919	nonsense_mediated_decay	KNOWN	None	33441	1590	529	58346645	58392039	1	None	None
11	ZFP91-CNTF	ENSG00000255073	ENST00000422974	nonsense_mediated_decay	KNOWN	None	33441	1065	354	58377452	58392112	1	None	None
6	SLC35A1	ENSG00000164414	ENST00000464978	processed_transcript	KNOWN	None	11021	None	None	88180341	88221521	1	None	CMPST, hCST
6	SLC35A1	ENSG00000164414	ENST00000369552	protein_coding	KNOWN	CCDS5010	11021	1014	337	88182695	88222054	1	None	CMPST, hCST
6	SLC35A1	ENSG00000164414	ENST00000369556	protein_coding	KNOWN	CCDS55043	11021	837	278	88182643	88222048	1	None	CMPST, hCST
6	SLC35A1	ENSG00000164414	ENST00000369557	protein_coding	KNOWN	None	11021	570	189	88182722	88221244	1	None	CMPST, hCST
6	SLC35A1	ENSG00000164414	ENST00000544441	protein_coding	KNOWN	None	11021	612	203	88182692	88221567	1	None	CMPST, hCST
14	FOXN3	ENSG00000053254	ENST00000557572	protein_coding	PUTATIVE	None	1928	240	79	89591215	89647088	-1	C14orf116, CHES1	None
14	FOXN3	ENSG00000053254	ENST00000345097	protein_coding	KNOWN	CCDS41977	1928	1473	490	89622516	90085474	-1	C14orf116, CHES1	None
14	FOXN3	ENSG00000053254	ENST00000557258	protein_coding	KNOWN	CCDS32138	1928	1407	468	89627729	89883456	-1	C14orf116, CHES1	None
14	FOXN3	ENSG00000053254	ENST00000555353	protein_coding	KNOWN	CCDS32138	1928	1407	468	89628706	90085493	-1	C14orf116, CHES1	None
14	FOXN3	ENSG00000053254	ENST00000553840	protein_coding	NOVEL	None	1928	555	184	89629222	89878369	-1	C14orf116, CHES1	None
14	FOXN3	ENSG00000053254	ENST00000556541	processed_transcript	PUTATIVE	None	1928	None	None	89647100	89652217	-1	C14orf116, CHES1	None
14	FOXN3	ENSG00000053254	ENST00000555010	processed_transcript	PUTATIVE	None	1928	None	None	89647103	89689686	-1	C14orf116, CHES1	None
14	FOXN3	ENSG00000053254	ENST00000557496	processed_transcript	PUTATIVE	None	1928	None	None	89647132	89650498	-1	C14orf116, CHES1	None
14	FOXN3	ENSG00000053254	ENST00000557718	nonsense_mediated_decay	KNOWN	None	1928	231	76	89647134	89878361	-1	C14orf116, CHES1	None
14	FOXN3	ENSG00000053254	ENST00000553353	protein_coding	NOVEL	None	1928	366	121	89656726	89868009	-1	C14orf116, CHES1	None
14	FOXN3	ENSG00000053254	ENST00000556916	protein_coding	PUTATIVE	None	1928	335	110	89697072	89878402	-1	C14orf116, CHES1	None
14	FOXN3	ENSG00000053254	ENST00000555658	processed_transcript	PUTATIVE	None	1928	None	None	89729937	89817135	-1	C14orf116, CHES1	None
14	FOXN3	ENSG00000053254	ENST00000554005	nonsense_mediated_decay	KNOWN	None	1928	276	91	89747294	89878379	-1	C14orf116, CHES1	None
14	FOXN3	ENSG00000053254	ENST00000557261	processed_transcript	PUTATIVE	None	1928	None	None	89815877	89817665	-1	C14orf116, CHES1	None
14	FOXN3	ENSG00000053254	ENST00000555855	protein_coding	KNOWN	None	1928	624	207	89817072	90085481	-1	C14orf116, CHES1	None
14	FOXN3	ENSG00000053254	ENST00000555034	protein_coding	KNOWN	None	1928	280	92	89878541	89960395	-1	C14orf116, CHES1	None
14	FOXN3	ENSG00000053254	ENST00000553904	protein_coding	KNOWN	None	1928	164	53	89878657	89960529	-1	C14orf116, CHES1	None
14	FOXN3	ENSG00000053254	ENST00000261302	protein_coding	KNOWN	CCDS41977	1928	1473	490	89622529	89878836	-1	C14orf116, CHES1	None
11	None	ENSG00000269570	ENST00000601906	protein_coding	NOVEL	None	None	171	56	58378589	58378759	-1	None	None
11	CNTF	ENSG00000242689	ENST00000361987	protein_coding	KNOWN	CCDS31554	2169	603	200	58390146	58393198	1	None	HCNTF
3	NAT6	ENSG00000243477	ENST00000354862	protein_coding	KNOWN	CCDS43095	30252	927	308	50333833	50336847	-1	None	FUS2
3	NAT6	ENSG00000243477	ENST00000417393	protein_coding	KNOWN	CCDS56258	30252	861	286	50333835	50336290	-1	None	FUS2
3	NAT6	ENSG00000243477	ENST00000443094	protein_coding	KNOWN	CCDS56258	30252	861	286	50333849	50336852	-1	None	FUS2
3	NAT6	ENSG00000243477	ENST00000443842	protein_coding	KNOWN	CCDS56258	30252	861	286	50333883	50336831	-1	None	FUS2
3	NAT6	ENSG00000243477	ENST00000450489	protein_coding	KNOWN	None	30252	259	85	50334636	50336548	-1	None	FUS2
3	NAT6	ENSG00000243477	ENST00000442620	protein_coding	KNOWN	None	30252	171	56	50334724	50336320	-1	None	FUS2
3	NAT6	ENSG00000243477	ENST00000452674	protein_coding	KNOWN	None	30252	28	8	50334867	50336320	-1	None	FUS2
2	RUFY4	ENSG00000188282	ENST00000497857	processed_transcript	PUTATIVE	None	24804	None	None	218899683	218933572	1	None	FLJ46536
2	RUFY4	ENSG00000188282	ENST00000457754	nonsense_mediated_decay	KNOWN	None	24804	519	172	218899711	218955304	1	None	FLJ46536
2	RUFY4	ENSG00000188282	ENST00000463618	processed_transcript	KNOWN	None	24804	None	None	218899792	218935237	1	None	FLJ46536
2	RUFY4	ENSG00000188282	ENST00000465568	processed_transcript	KNOWN	None	24804	None	None	218899819	218935561	1	None	FLJ46536
2	RUFY4	ENSG00000188282	ENST00000480164	processed_transcript	PUTATIVE	None	24804	None	None	218933709	218935346	1	None	FLJ46536
2	RUFY4	ENSG00000188282	ENST00000472496	processed_transcript	KNOWN	None	24804	None	None	218933737	218935540	1	None	FLJ46536
2	RUFY4	ENSG00000188282	ENST00000374155	protein_coding	KNOWN	None	24804	1824	607	218933978	218955303	1	None	FLJ46536
2	RUFY4	ENSG00000188282	ENST00000495721	retained_intron	KNOWN	None	24804	None	None	218935029	218937222	1	None	FLJ46536
2	RUFY4	ENSG00000188282	ENST00000463872	processed_transcript	PUTATIVE	None	24804	None	None	218937594	218940443	1	None	FLJ46536
2	RUFY4	ENSG00000188282	ENST00000344321	protein_coding	KNOWN	None	24804	1716	571	218933738	218955303	1	None	FLJ46536
2	RUFY4	ENSG00000188282	ENST00000441828	protein_coding	KNOWN	None	24804	519	172	218933738	218955303	1	None	FLJ46536
11	GLYAT	ENSG00000149124	ENST00000586098	protein_coding	PUTATIVE	None	13734	215	70	58407899	58480322	-1	None	GAT, ACGNAT
11	GLYAT	ENSG00000149124	ENST00000344743	protein_coding	KNOWN	CCDS7970	13734	891	296	58476537	58499434	-1	None	GAT, ACGNAT
11	GLYAT	ENSG00000149124	ENST00000529732	protein_coding	KNOWN	CCDS7970	13734	891	296	58477141	58496202	-1	None	GAT, ACGNAT
11	GLYAT	ENSG00000149124	ENST00000278400	protein_coding	KNOWN	CCDS7971	13734	492	163	58477556	58499447	-1	None	GAT, ACGNAT
11	GLYAT	ENSG00000149124	ENST00000531084	retained_intron	KNOWN	None	13734	None	None	58491708	58499401	-1	None	GAT, ACGNAT
19	MYBPC2	ENSG00000086967	ENST00000357701	protein_coding	KNOWN	CCDS46152	7550	3426	1141	50936160	50969578	1	None	MYBPCF, MYBPC, MGC163408
19	MYBPC2	ENSG00000086967	ENST00000597498	retained_intron	KNOWN	None	7550	None	None	50967488	50969576	1	None	MYBPCF, MYBPC, MGC163408
2	CXCR2	ENSG00000180871	ENST00000453237	protein_coding	KNOWN	None	6027	602	199	218990012	219000126	1	IL8RB	CMKAR2, CD182
2	CXCR2	ENSG00000180871	ENST00000415392	protein_coding	KNOWN	None	6027	415	137	218990404	218999939	1	IL8RB	CMKAR2, CD182
2	CXCR2	ENSG00000180871	ENST00000449014	protein_coding	KNOWN	None	6027	45	14	218990428	218999569	1	IL8RB	CMKAR2, CD182
2	CXCR2	ENSG00000180871	ENST00000318507	protein_coding	KNOWN	CCDS2408	6027	1083	360	218990727	219001976	1	IL8RB	CMKAR2, CD182
2	CXCR2	ENSG00000180871	ENST00000454148	protein_coding	KNOWN	None	6027	407	134	218990742	218999931	1	IL8RB	CMKAR2, CD182
2	CXCR2	ENSG00000180871	ENST00000428565	protein_coding	KNOWN	None	6027	517	171	218994010	219000041	1	IL8RB	CMKAR2, CD182
2	CXCR2	ENSG00000180871	ENST00000418878	protein_coding	KNOWN	None	6027	45	14	218995573	218999569	1	IL8RB	CMKAR2, CD182
16	FTSJD1	ENSG00000180917	ENST00000338099	protein_coding	KNOWN	CCDS10898	25635	2313	770	71315292	71323512	-1	FTSJD1	FLJ11171, AFT, MTr2
16	FTSJD1	ENSG00000180917	ENST00000434935	protein_coding	KNOWN	CCDS10898	25635	2313	770	71316203	71323442	-1	FTSJD1	FLJ11171, AFT, MTr2
16	FTSJD1	ENSG00000180917	ENST00000563876	protein_coding	KNOWN	None	25635	479	158	71319345	71323618	-1	FTSJD1	FLJ11171, AFT, MTr2
16	FTSJD1	ENSG00000180917	ENST00000564183	protein_coding	KNOWN	None	25635	476	157	71319348	71322648	-1	FTSJD1	FLJ11171, AFT, MTr2
16	FTSJD1	ENSG00000180917	ENST00000565850	protein_coding	KNOWN	None	25635	397	131	71319427	71323317	-1	FTSJD1	FLJ11171, AFT, MTr2
16	FTSJD1	ENSG00000180917	ENST00000567610	protein_coding	KNOWN	None	25635	316	104	71319508	71322599	-1	FTSJD1	FLJ11171, AFT, MTr2
16	FTSJD1	ENSG00000180917	ENST00000568910	protein_coding	KNOWN	None	25635	271	89	71319553	71323330	-1	FTSJD1	FLJ11171, AFT, MTr2
16	FTSJD1	ENSG00000180917	ENST00000564690	retained_intron	KNOWN	None	25635	None	None	71320363	71323332	-1	FTSJD1	FLJ11171, AFT, MTr2
3	KIAA1257	ENSG00000114656	ENST00000511438	protein_coding	PUTATIVE	None	29231	1203	400	128628709	128712919	-1	None	None
3	KIAA1257	ENSG00000114656	ENST00000265068	protein_coding	KNOWN	CCDS46905	29231	1230	409	128685432	128712958	-1	None	None
3	KIAA1257	ENSG00000114656	ENST00000515659	protein_coding	PUTATIVE	None	29231	894	297	128689823	128710740	-1	None	None
3	KIAA1257	ENSG00000114656	ENST00000507225	processed_transcript	KNOWN	None	29231	None	None	128690167	128697158	-1	None	None
3	KIAA1257	ENSG00000114656	ENST00000510149	processed_transcript	KNOWN	None	29231	None	None	128695856	128721533	-1	None	None
2	CXCR1	ENSG00000163464	ENST00000295683	protein_coding	KNOWN	CCDS2409	6026	1053	350	219027568	219031718	-1	CMKAR1, IL8RA	CKR-1, CDw128a, CD181
3	HYAL1	ENSG00000114378	ENST00000395144	protein_coding	KNOWN	CCDS2816	5320	1308	435	50337320	50341051	-1	None	LUCA1, HYAL-1, FUS2, NAT6
3	HYAL1	ENSG00000114378	ENST00000266031	protein_coding	KNOWN	CCDS2816	5320	1308	435	50337321	50341003	-1	None	LUCA1, HYAL-1, FUS2, NAT6
3	HYAL1	ENSG00000114378	ENST00000320295	protein_coding	KNOWN	CCDS2816	5320	1308	435	50337325	50349812	-1	None	LUCA1, HYAL-1, FUS2, NAT6
3	HYAL1	ENSG00000114378	ENST00000395143	protein_coding	KNOWN	CCDS2817	5320	1218	405	50337742	50341004	-1	None	LUCA1, HYAL-1, FUS2, NAT6
3	HYAL1	ENSG00000114378	ENST00000457214	protein_coding	KNOWN	CCDS46832	5320	762	253	50337913	50341004	-1	None	LUCA1, HYAL-1, FUS2, NAT6
3	HYAL1	ENSG00000114378	ENST00000447605	protein_coding	KNOWN	CCDS46833	5320	531	176	50337913	50341004	-1	None	LUCA1, HYAL-1, FUS2, NAT6
3	HYAL1	ENSG00000114378	ENST00000418723	protein_coding	KNOWN	None	5320	310	102	50340078	50341005	-1	None	LUCA1, HYAL-1, FUS2, NAT6
3	HYAL1	ENSG00000114378	ENST00000452672	protein_coding	KNOWN	None	5320	208	68	50340180	50341547	-1	None	LUCA1, HYAL-1, FUS2, NAT6
2	ARPC2	ENSG00000163466	ENST00000315717	protein_coding	KNOWN	CCDS2410	705	903	300	219081817	219119071	1	None	p34-Arc, ARC34
2	ARPC2	ENSG00000163466	ENST00000420104	protein_coding	KNOWN	None	705	269	88	219081864	219099121	1	None	p34-Arc, ARC34
2	ARPC2	ENSG00000163466	ENST00000489598	retained_intron	KNOWN	None	705	None	None	219081870	219099775	1	None	p34-Arc, ARC34
2	ARPC2	ENSG00000163466	ENST00000491780	processed_transcript	KNOWN	None	705	None	None	219081872	219100113	1	None	p34-Arc, ARC34
2	ARPC2	ENSG00000163466	ENST00000420201	nonsense_mediated_decay	KNOWN	None	705	276	91	219081904	219103572	1	None	p34-Arc, ARC34
2	ARPC2	ENSG00000163466	ENST00000478612	processed_transcript	KNOWN	None	705	None	None	219081917	219110180	1	None	p34-Arc, ARC34
2	ARPC2	ENSG00000163466	ENST00000480062	processed_transcript	KNOWN	None	705	None	None	219081920	219103446	1	None	p34-Arc, ARC34
2	ARPC2	ENSG00000163466	ENST00000414983	nonsense_mediated_decay	KNOWN	None	705	117	38	219081925	219104208	1	None	p34-Arc, ARC34
2	ARPC2	ENSG00000163466	ENST00000295685	protein_coding	KNOWN	CCDS2410	705	903	300	219081933	219119079	1	None	p34-Arc, ARC34
2	ARPC2	ENSG00000163466	ENST00000465395	retained_intron	KNOWN	None	705	None	None	219082178	219103918	1	None	p34-Arc, ARC34
2	ARPC2	ENSG00000163466	ENST00000471355	retained_intron	KNOWN	None	705	None	None	219090642	219094026	1	None	p34-Arc, ARC34
2	ARPC2	ENSG00000163466	ENST00000472753	retained_intron	KNOWN	None	705	None	None	219090642	219103740	1	None	p34-Arc, ARC34
2	ARPC2	ENSG00000163466	ENST00000484961	processed_transcript	KNOWN	None	705	None	None	219093526	219103453	1	None	p34-Arc, ARC34
2	ARPC2	ENSG00000163466	ENST00000470146	retained_intron	KNOWN	None	705	None	None	219097723	219118831	1	None	p34-Arc, ARC34
2	ARPC2	ENSG00000163466	ENST00000477992	processed_transcript	KNOWN	None	705	None	None	219100064	219118831	1	None	p34-Arc, ARC34
2	ARPC2	ENSG00000163466	ENST00000462034	processed_transcript	PUTATIVE	None	705	None	None	219103442	219104285	1	None	p34-Arc, ARC34
2	ARPC2	ENSG00000163466	ENST00000456575	protein_coding	PUTATIVE	None	705	498	165	219110149	219118846	1	None	p34-Arc, ARC34
2	ARPC2	ENSG00000163466	ENST00000487321	processed_transcript	PUTATIVE	None	705	None	None	219114315	219118833	1	None	p34-Arc, ARC34
11	GLYATL2	ENSG00000156689	ENST00000287275	protein_coding	KNOWN	CCDS41649	24178	885	294	58601542	58612257	-1	None	BXMAS2-10, MGC24009
11	GLYATL2	ENSG00000156689	ENST00000532258	protein_coding	KNOWN	CCDS41649	24178	885	294	58601570	58611999	-1	None	BXMAS2-10, MGC24009
11	GLYATL2	ENSG00000156689	ENST00000533636	processed_transcript	KNOWN	None	24178	None	None	58602203	58671688	-1	None	BXMAS2-10, MGC24009
5	FGF18	ENSG00000156427	ENST00000274625	protein_coding	KNOWN	CCDS4378	3674	624	207	170846660	170884627	1	None	FGF-18, ZFGF5
2	GPBAR1	ENSG00000179921	ENST00000479077	protein_coding	KNOWN	CCDS46515	19680	993	330	219124219	219128582	1	None	BG37, GPCR, TGR5, M-BAR, GPCR19, GPR131, MGC40597
2	GPBAR1	ENSG00000179921	ENST00000522678	protein_coding	KNOWN	CCDS46515	19680	993	330	219125738	219128582	1	None	BG37, GPCR, TGR5, M-BAR, GPCR19, GPR131, MGC40597
2	GPBAR1	ENSG00000179921	ENST00000519574	protein_coding	KNOWN	CCDS46515	19680	993	330	219125738	219128582	1	None	BG37, GPCR, TGR5, M-BAR, GPCR19, GPR131, MGC40597
2	GPBAR1	ENSG00000179921	ENST00000521462	protein_coding	KNOWN	CCDS46515	19680	993	330	219125757	219128571	1	None	BG37, GPCR, TGR5, M-BAR, GPCR19, GPR131, MGC40597
7	RASA4	ENSG00000105808	ENST00000262940	protein_coding	KNOWN	CCDS5725	23181	2412	803	102220093	102257204	-1	None	KIAA0538, CAPRI, GAPL
7	RASA4	ENSG00000105808	ENST00000461209	protein_coding	PUTATIVE	None	23181	2196	731	102222770	102252038	-1	None	KIAA0538, CAPRI, GAPL
7	RASA4	ENSG00000105808	ENST00000449970	protein_coding	KNOWN	CCDS47674	23181	2274	757	102222772	102257203	-1	None	KIAA0538, CAPRI, GAPL
7	RASA4	ENSG00000105808	ENST00000522223	retained_intron	KNOWN	None	23181	None	None	102222797	102234438	-1	None	KIAA0538, CAPRI, GAPL
7	RASA4	ENSG00000105808	ENST00000462172	protein_coding	PUTATIVE	None	23181	2196	731	102223138	102257176	-1	None	KIAA0538, CAPRI, GAPL
7	RASA4	ENSG00000105808	ENST00000523568	retained_intron	KNOWN	None	23181	None	None	102227789	102257203	-1	None	KIAA0538, CAPRI, GAPL
7	RASA4	ENSG00000105808	ENST00000521822	processed_transcript	KNOWN	None	23181	None	None	102227894	102232770	-1	None	KIAA0538, CAPRI, GAPL
7	RASA4	ENSG00000105808	ENST00000521397	protein_coding	NOVEL	None	23181	817	271	102232798	102236184	-1	None	KIAA0538, CAPRI, GAPL
7	RASA4	ENSG00000105808	ENST00000520577	retained_intron	KNOWN	None	23181	None	None	102234161	102234907	-1	None	KIAA0538, CAPRI, GAPL
7	RASA4	ENSG00000105808	ENST00000519539	nonsense_mediated_decay	KNOWN	None	23181	412	136	102235749	102242843	-1	None	KIAA0538, CAPRI, GAPL
7	RASA4	ENSG00000105808	ENST00000522801	protein_coding	NOVEL	None	23181	918	305	102236112	102257185	-1	None	KIAA0538, CAPRI, GAPL
7	RASA4	ENSG00000105808	ENST00000519878	retained_intron	KNOWN	None	23181	None	None	102240307	102246624	-1	None	KIAA0538, CAPRI, GAPL
7	RASA4	ENSG00000105808	ENST00000520042	protein_coding	PUTATIVE	None	23181	294	97	102242771	102252589	-1	None	KIAA0538, CAPRI, GAPL
7	RASA4	ENSG00000105808	ENST00000521076	protein_coding	PUTATIVE	None	23181	164	53	102242771	102257139	-1	None	KIAA0538, CAPRI, GAPL
7	RASA4	ENSG00000105808	ENST00000522443	retained_intron	KNOWN	None	23181	None	None	102249005	102257193	-1	None	KIAA0538, CAPRI, GAPL
7	RASA4	ENSG00000105808	ENST00000521892	retained_intron	KNOWN	None	23181	None	None	102249522	102257203	-1	None	KIAA0538, CAPRI, GAPL
16	CALB2	ENSG00000172137	ENST00000302628	protein_coding	KNOWN	CCDS10899	1435	816	271	71392619	71424341	1	None	CAL2
16	CALB2	ENSG00000172137	ENST00000562305	protein_coding	NOVEL	None	1435	704	233	71392697	71423729	1	None	CAL2
16	CALB2	ENSG00000172137	ENST00000490520	protein_coding	NOVEL	None	1435	472	156	71406081	71419539	1	None	CAL2
16	CALB2	ENSG00000172137	ENST00000467817	retained_intron	KNOWN	None	1435	None	None	71419246	71423769	1	None	CAL2
16	CALB2	ENSG00000172137	ENST00000349553	protein_coding	KNOWN	None	1435	579	192	71392616	71424339	1	None	CAL2
6	RARS2	ENSG00000146282	ENST00000369536	protein_coding	KNOWN	CCDS5011	21406	1737	578	88224096	88299721	-1	RARSL	MGC14993, MGC23778, PRO1992, dJ382I10.6, DALRD2
6	RARS2	ENSG00000146282	ENST00000493269	processed_transcript	KNOWN	None	21406	None	None	88224125	88226598	-1	RARSL	MGC14993, MGC23778, PRO1992, dJ382I10.6, DALRD2
6	RARS2	ENSG00000146282	ENST00000497828	processed_transcript	KNOWN	None	21406	None	None	88228194	88228949	-1	RARSL	MGC14993, MGC23778, PRO1992, dJ382I10.6, DALRD2
6	RARS2	ENSG00000146282	ENST00000451155	protein_coding	KNOWN	None	21406	618	205	88255334	88279308	-1	RARSL	MGC14993, MGC23778, PRO1992, dJ382I10.6, DALRD2
3	None	ENSG00000187695	ENST00000508239	protein_coding	KNOWN	None	None	1719	572	128628717	128690173	-1	None	None
3	None	ENSG00000187695	ENST00000511204	protein_coding	KNOWN	None	None	388	128	128664422	128684488	-1	None	None
2	AAMP	ENSG00000127837	ENST00000248450	protein_coding	KNOWN	CCDS33378	18	1305	434	219128850	219134980	-1	None	None
2	AAMP	ENSG00000127837	ENST00000444053	protein_coding	NOVEL	None	18	1308	435	219128852	219134901	-1	None	None
2	AAMP	ENSG00000127837	ENST00000475678	retained_intron	KNOWN	None	18	None	None	219128853	219134811	-1	None	None
2	AAMP	ENSG00000127837	ENST00000420660	protein_coding	PUTATIVE	None	18	1248	415	219128885	219134463	-1	None	None
2	AAMP	ENSG00000127837	ENST00000494720	retained_intron	KNOWN	None	18	None	None	219128904	219130644	-1	None	None
2	AAMP	ENSG00000127837	ENST00000489767	retained_intron	KNOWN	None	18	None	None	219128906	219134839	-1	None	None
2	AAMP	ENSG00000127837	ENST00000422731	protein_coding	NOVEL	None	18	569	188	219129083	219130804	-1	None	None
2	AAMP	ENSG00000127837	ENST00000465442	retained_intron	KNOWN	None	18	None	None	219130140	219131567	-1	None	None
2	AAMP	ENSG00000127837	ENST00000447885	protein_coding	PUTATIVE	None	18	602	199	219130810	219134433	-1	None	None
2	AAMP	ENSG00000127837	ENST00000461911	retained_intron	KNOWN	None	18	None	None	219132103	219134868	-1	None	None
11	GLYATL1	ENSG00000166840	ENST00000534674	processed_transcript	PUTATIVE	None	30519	None	None	58672871	58715410	1	None	MGC15397, FLJ34646
11	GLYATL1	ENSG00000166840	ENST00000524629	processed_transcript	KNOWN	None	30519	None	None	58672897	58676071	1	None	MGC15397, FLJ34646
11	GLYATL1	ENSG00000166840	ENST00000525608	protein_coding	KNOWN	None	30519	206	67	58695102	58722262	1	None	MGC15397, FLJ34646
11	GLYATL1	ENSG00000166840	ENST00000526351	protein_coding	PUTATIVE	None	30519	520	172	58695108	58722786	1	None	MGC15397, FLJ34646
11	GLYATL1	ENSG00000166840	ENST00000317391	protein_coding	KNOWN	CCDS55768	30519	909	302	58695174	58723878	1	None	MGC15397, FLJ34646
11	GLYATL1	ENSG00000166840	ENST00000533864	processed_transcript	KNOWN	None	30519	None	None	58695186	58722792	1	None	MGC15397, FLJ34646
11	GLYATL1	ENSG00000166840	ENST00000534612	nonsense_mediated_decay	KNOWN	None	30519	153	50	58706921	58715422	1	None	MGC15397, FLJ34646
11	GLYATL1	ENSG00000166840	ENST00000524403	processed_transcript	KNOWN	None	30519	None	None	58706921	58722371	1	None	MGC15397, FLJ34646
11	GLYATL1	ENSG00000166840	ENST00000532726	protein_coding	KNOWN	None	30519	238	78	58706957	58722294	1	None	MGC15397, FLJ34646
11	GLYATL1	ENSG00000166840	ENST00000527708	nonsense_mediated_decay	KNOWN	None	30519	177	58	58710722	58723879	1	None	MGC15397, FLJ34646
11	GLYATL1	ENSG00000166840	ENST00000300079	protein_coding	KNOWN	CCDS31556	30519	1002	333	58710722	58724516	1	None	MGC15397, FLJ34646
11	GLYATL1	ENSG00000166840	ENST00000530774	nonsense_mediated_decay	KNOWN	None	30519	222	73	58710733	58723129	1	None	MGC15397, FLJ34646
11	GLYATL1	ENSG00000166840	ENST00000534241	retained_intron	KNOWN	None	30519	None	None	58710760	58714948	1	None	MGC15397, FLJ34646
11	GLYATL1	ENSG00000166840	ENST00000530240	nonsense_mediated_decay	KNOWN	None	30519	153	50	58710785	58723903	1	None	MGC15397, FLJ34646
11	GLYATL1	ENSG00000166840	ENST00000531245	retained_intron	KNOWN	None	30519	None	None	58710789	58714734	1	None	MGC15397, FLJ34646
11	GLYATL1	ENSG00000166840	ENST00000524881	nonsense_mediated_decay	KNOWN	None	30519	153	50	58710844	58722807	1	None	MGC15397, FLJ34646
11	GLYATL1	ENSG00000166840	ENST00000534119	retained_intron	KNOWN	None	30519	None	None	58714257	58723876	1	None	MGC15397, FLJ34646
11	GLYATL1	ENSG00000166840	ENST00000534063	processed_transcript	PUTATIVE	None	30519	None	None	58714519	58811000	1	None	MGC15397, FLJ34646
12	SYT1	ENSG00000067715	ENST00000393240	protein_coding	KNOWN	CCDS9017	11509	1269	422	79257773	79844059	1	SYT, SVP65	P65
12	SYT1	ENSG00000067715	ENST00000261205	protein_coding	KNOWN	CCDS9017	11509	1269	422	79258449	79845786	1	SYT, SVP65	P65
12	SYT1	ENSG00000067715	ENST00000457153	protein_coding	NOVEL	None	11509	1260	419	79258592	79845788	1	SYT, SVP65	P65
12	SYT1	ENSG00000067715	ENST00000552074	protein_coding	KNOWN	None	11509	284	93	79262490	79679684	1	SYT, SVP65	P65
12	SYT1	ENSG00000067715	ENST00000549454	processed_transcript	KNOWN	None	11509	None	None	79262552	79611297	1	SYT, SVP65	P65
12	SYT1	ENSG00000067715	ENST00000547046	protein_coding	KNOWN	None	11509	174	57	79357815	79679574	1	SYT, SVP65	P65
12	SYT1	ENSG00000067715	ENST00000549671	protein_coding	KNOWN	None	11509	217	71	79371302	79679617	1	SYT, SVP65	P65
12	SYT1	ENSG00000067715	ENST00000551304	protein_coding	KNOWN	None	11509	218	71	79371565	79679618	1	SYT, SVP65	P65
12	SYT1	ENSG00000067715	ENST00000552744	protein_coding	KNOWN	CCDS9017	11509	1269	422	79439411	79844074	1	SYT, SVP65	P65
12	SYT1	ENSG00000067715	ENST00000552624	protein_coding	NOVEL	None	11509	521	172	79439485	79689904	1	SYT, SVP65	P65
12	SYT1	ENSG00000067715	ENST00000446242	protein_coding	KNOWN	None	11509	545	180	79440098	79689919	1	SYT, SVP65	P65
12	SYT1	ENSG00000067715	ENST00000549559	protein_coding	NOVEL	None	11509	556	184	79685579	79747322	1	SYT, SVP65	P65
5	None	ENSG00000253110	ENST00000524175	protein_coding	NOVEL	None	None	528	175	171200656	171201743	1	None	None
2	PNKD	ENSG00000127838	ENST00000248451	protein_coding	KNOWN	CCDS42816	9153	429	142	219135115	219137670	1	None	DYT8, PDC, DKFZp564N1362, FPD1, MR-1, BRP17, FKSG19, TAHCCP2, KIAA1184, KIPP1184, MGC31943, PKND1
2	PNKD	ENSG00000127838	ENST00000273077	protein_coding	KNOWN	CCDS2411	9153	1158	385	219135208	219211516	1	None	DYT8, PDC, DKFZp564N1362, FPD1, MR-1, BRP17, FKSG19, TAHCCP2, KIAA1184, KIPP1184, MGC31943, PKND1
2	PNKD	ENSG00000127838	ENST00000469689	retained_intron	KNOWN	None	9153	None	None	219135243	219137634	1	None	DYT8, PDC, DKFZp564N1362, FPD1, MR-1, BRP17, FKSG19, TAHCCP2, KIAA1184, KIPP1184, MGC31943, PKND1
2	PNKD	ENSG00000127838	ENST00000472650	processed_transcript	PUTATIVE	None	9153	None	None	219136103	219182979	1	None	DYT8, PDC, DKFZp564N1362, FPD1, MR-1, BRP17, FKSG19, TAHCCP2, KIAA1184, KIPP1184, MGC31943, PKND1
2	PNKD	ENSG00000127838	ENST00000494954	processed_transcript	PUTATIVE	None	9153	None	None	219181451	219182731	1	None	DYT8, PDC, DKFZp564N1362, FPD1, MR-1, BRP17, FKSG19, TAHCCP2, KIAA1184, KIPP1184, MGC31943, PKND1
2	PNKD	ENSG00000127838	ENST00000258362	protein_coding	KNOWN	CCDS2413	9153	1086	361	219187896	219211514	1	None	DYT8, PDC, DKFZp564N1362, FPD1, MR-1, BRP17, FKSG19, TAHCCP2, KIAA1184, KIPP1184, MGC31943, PKND1
2	PNKD	ENSG00000127838	ENST00000436005	protein_coding	NOVEL	None	9153	978	325	219199426	219209704	1	None	DYT8, PDC, DKFZp564N1362, FPD1, MR-1, BRP17, FKSG19, TAHCCP2, KIAA1184, KIPP1184, MGC31943, PKND1
2	PNKD	ENSG00000127838	ENST00000483797	retained_intron	KNOWN	None	9153	None	None	219204818	219205612	1	None	DYT8, PDC, DKFZp564N1362, FPD1, MR-1, BRP17, FKSG19, TAHCCP2, KIAA1184, KIPP1184, MGC31943, PKND1
5	C5orf50	ENSG00000185662	ENST00000523047	protein_coding	NOVEL	None	34440	346	114	171212890	171217933	1	None	LOC644994
5	C5orf50	ENSG00000185662	ENST00000330910	protein_coding	KNOWN	None	34440	468	155	171212876	171221602	1	None	LOC644994
3	EFCC1	ENSG00000114654	ENST00000480450	protein_coding	NOVEL	CCDS3054	25692	1797	598	128720472	128759583	1	C3orf73, CCDC48	FLJ12057
3	EFCC1	ENSG00000114654	ENST00000481536	retained_intron	KNOWN	None	25692	None	None	128749292	128759583	1	C3orf73, CCDC48	FLJ12057
3	EFCC1	ENSG00000114654	ENST00000436022	protein_coding	KNOWN	None	25692	486	161	128720472	128759585	1	C3orf73, CCDC48	FLJ12057
19	FAM71E1	ENSG00000142530	ENST00000593796	non_stop_decay	KNOWN	None	25107	443	146	50970042	50978742	-1	None	None
19	FAM71E1	ENSG00000142530	ENST00000600100	protein_coding	KNOWN	None	25107	744	247	50970044	50980010	-1	None	None
19	FAM71E1	ENSG00000142530	ENST00000602178	non_stop_decay	KNOWN	None	25107	581	192	50970045	50979528	-1	None	None
19	FAM71E1	ENSG00000142530	ENST00000595790	protein_coding	KNOWN	CCDS33081	25107	696	231	50970045	50980003	-1	None	None
19	FAM71E1	ENSG00000142530	ENST00000599206	nonsense_mediated_decay	KNOWN	None	25107	507	168	50970047	50979558	-1	None	None
19	FAM71E1	ENSG00000142530	ENST00000600330	retained_intron	KNOWN	None	25107	None	None	50978561	50979513	-1	None	None
11	COA4	ENSG00000181924	ENST00000355693	protein_coding	KNOWN	CCDS8225	24604	264	87	73583712	73588033	-1	CHCHD8	E2IG2, CMC3
11	COA4	ENSG00000181924	ENST00000545127	protein_coding	KNOWN	CCDS8225	24604	264	87	73583714	73587719	-1	CHCHD8	E2IG2, CMC3
11	COA4	ENSG00000181924	ENST00000541455	protein_coding	KNOWN	None	24604	291	96	73583807	73585520	-1	CHCHD8	E2IG2, CMC3
11	COA4	ENSG00000181924	ENST00000537289	protein_coding	KNOWN	CCDS8225	24604	264	87	73584042	73587888	-1	CHCHD8	E2IG2, CMC3
11	COA4	ENSG00000181924	ENST00000544575	processed_transcript	PUTATIVE	None	24604	None	None	73586804	73587611	-1	CHCHD8	E2IG2, CMC3
11	COA4	ENSG00000181924	ENST00000537581	processed_transcript	PUTATIVE	None	24604	None	None	73587200	73587946	-1	CHCHD8	E2IG2, CMC3
5	FBXW11	ENSG00000072803	ENST00000296933	protein_coding	KNOWN	CCDS47341	13607	1590	529	171288553	171433877	-1	FBXW1B	KIAA0696, Fbw1b, BTRCP2, BTRC2, Hos, Fbw11
5	FBXW11	ENSG00000072803	ENST00000265094	protein_coding	KNOWN	CCDS34289	13607	1629	542	171288556	171433644	-1	FBXW1B	KIAA0696, Fbw1b, BTRCP2, BTRC2, Hos, Fbw11
5	FBXW11	ENSG00000072803	ENST00000393802	protein_coding	KNOWN	CCDS47340	13607	1527	508	171290625	171433654	-1	FBXW1B	KIAA0696, Fbw1b, BTRCP2, BTRC2, Hos, Fbw11
5	FBXW11	ENSG00000072803	ENST00000523843	nonsense_mediated_decay	KNOWN	None	13607	144	47	171290931	171433653	-1	FBXW1B	KIAA0696, Fbw1b, BTRCP2, BTRC2, Hos, Fbw11
5	FBXW11	ENSG00000072803	ENST00000518106	processed_transcript	PUTATIVE	None	13607	None	None	171294782	171295666	-1	FBXW1B	KIAA0696, Fbw1b, BTRCP2, BTRC2, Hos, Fbw11
5	FBXW11	ENSG00000072803	ENST00000522376	processed_transcript	KNOWN	None	13607	None	None	171294839	171303295	-1	FBXW1B	KIAA0696, Fbw1b, BTRCP2, BTRC2, Hos, Fbw11
5	FBXW11	ENSG00000072803	ENST00000522891	processed_transcript	KNOWN	None	13607	None	None	171303406	171335863	-1	FBXW1B	KIAA0696, Fbw1b, BTRCP2, BTRC2, Hos, Fbw11
5	FBXW11	ENSG00000072803	ENST00000519693	nonsense_mediated_decay	KNOWN	None	13607	144	47	171326937	171433663	-1	FBXW1B	KIAA0696, Fbw1b, BTRCP2, BTRC2, Hos, Fbw11
5	FBXW11	ENSG00000072803	ENST00000517395	protein_coding	NOVEL	None	13607	590	195	171326951	171433552	-1	FBXW1B	KIAA0696, Fbw1b, BTRCP2, BTRC2, Hos, Fbw11
5	FBXW11	ENSG00000072803	ENST00000520376	nonsense_mediated_decay	KNOWN	None	13607	144	47	171337635	171433653	-1	FBXW1B	KIAA0696, Fbw1b, BTRCP2, BTRC2, Hos, Fbw11
5	FBXW11	ENSG00000072803	ENST00000518752	protein_coding	PUTATIVE	None	13607	222	73	171337676	171404760	-1	FBXW1B	KIAA0696, Fbw1b, BTRCP2, BTRC2, Hos, Fbw11
5	FBXW11	ENSG00000072803	ENST00000522507	processed_transcript	PUTATIVE	None	13607	None	None	171337738	171433573	-1	FBXW1B	KIAA0696, Fbw1b, BTRCP2, BTRC2, Hos, Fbw11
5	FBXW11	ENSG00000072803	ENST00000425623	protein_coding	KNOWN	None	13607	1533	510	171290931	171423991	-1	FBXW1B	KIAA0696, Fbw1b, BTRCP2, BTRC2, Hos, Fbw11
3	GP9	ENSG00000169704	ENST00000307395	protein_coding	KNOWN	CCDS3055	4444	534	177	128779610	128781249	1	None	CD42a, GPIX
17	None	ENSG00000263620	ENST00000498285	protein_coding	PUTATIVE	None	None	364	120	8054134	8066293	-1	None	None
2	TMBIM1	ENSG00000135926	ENST00000258412	protein_coding	KNOWN	CCDS2412	23410	936	311	219138915	219157300	-1	None	PP1201, RECS1, LFG3
2	TMBIM1	ENSG00000135926	ENST00000465082	retained_intron	KNOWN	None	23410	None	None	219138924	219145715	-1	None	PP1201, RECS1, LFG3
2	TMBIM1	ENSG00000135926	ENST00000444881	protein_coding	KNOWN	CCDS2412	23410	936	311	219138924	219151572	-1	None	PP1201, RECS1, LFG3
2	TMBIM1	ENSG00000135926	ENST00000445635	protein_coding	PUTATIVE	None	23410	414	137	219139729	219157236	-1	None	PP1201, RECS1, LFG3
2	TMBIM1	ENSG00000135926	ENST00000437694	nonsense_mediated_decay	KNOWN	None	23410	648	215	219140155	219157226	-1	None	PP1201, RECS1, LFG3
2	TMBIM1	ENSG00000135926	ENST00000439306	nonsense_mediated_decay	KNOWN	None	23410	423	140	219142086	219146904	-1	None	PP1201, RECS1, LFG3
2	TMBIM1	ENSG00000135926	ENST00000492966	retained_intron	KNOWN	None	23410	None	None	219142524	219144804	-1	None	PP1201, RECS1, LFG3
2	TMBIM1	ENSG00000135926	ENST00000429501	protein_coding	KNOWN	None	23410	513	170	219142658	219154812	-1	None	PP1201, RECS1, LFG3
2	TMBIM1	ENSG00000135926	ENST00000466012	retained_intron	KNOWN	None	23410	None	None	219142658	219157258	-1	None	PP1201, RECS1, LFG3
2	TMBIM1	ENSG00000135926	ENST00000425694	protein_coding	KNOWN	None	23410	502	166	219142669	219146931	-1	None	PP1201, RECS1, LFG3
2	TMBIM1	ENSG00000135926	ENST00000476429	retained_intron	KNOWN	None	23410	None	None	219143132	219144262	-1	None	PP1201, RECS1, LFG3
2	TMBIM1	ENSG00000135926	ENST00000495113	retained_intron	KNOWN	None	23410	None	None	219143202	219157235	-1	None	PP1201, RECS1, LFG3
2	TMBIM1	ENSG00000135926	ENST00000418569	protein_coding	KNOWN	None	23410	452	149	219143259	219152026	-1	None	PP1201, RECS1, LFG3
2	TMBIM1	ENSG00000135926	ENST00000440422	protein_coding	KNOWN	None	23410	322	106	219144058	219157309	-1	None	PP1201, RECS1, LFG3
2	TMBIM1	ENSG00000135926	ENST00000444183	protein_coding	KNOWN	None	23410	319	105	219144061	219157257	-1	None	PP1201, RECS1, LFG3
2	TMBIM1	ENSG00000135926	ENST00000453776	protein_coding	KNOWN	None	23410	275	90	219144777	219150731	-1	None	PP1201, RECS1, LFG3
2	TMBIM1	ENSG00000135926	ENST00000444000	protein_coding	KNOWN	None	23410	270	89	219144782	219152014	-1	None	PP1201, RECS1, LFG3
2	TMBIM1	ENSG00000135926	ENST00000453281	protein_coding	KNOWN	None	23410	252	83	219144800	219157258	-1	None	PP1201, RECS1, LFG3
2	TMBIM1	ENSG00000135926	ENST00000451181	protein_coding	KNOWN	None	23410	219	72	219144833	219154717	-1	None	PP1201, RECS1, LFG3
2	TMBIM1	ENSG00000135926	ENST00000434015	protein_coding	KNOWN	None	23410	202	66	219146663	219157252	-1	None	PP1201, RECS1, LFG3
2	TMBIM1	ENSG00000135926	ENST00000413976	protein_coding	KNOWN	None	23410	138	45	219146727	219157236	-1	None	PP1201, RECS1, LFG3
2	TMBIM1	ENSG00000135926	ENST00000420341	protein_coding	KNOWN	None	23410	24	7	219146841	219157257	-1	None	PP1201, RECS1, LFG3
2	TMBIM1	ENSG00000135926	ENST00000396809	protein_coding	KNOWN	CCDS2412	23410	936	311	219138924	219150657	-1	None	PP1201, RECS1, LFG3
19	SPINT2	ENSG00000167642	ENST00000590510	protein_coding	PUTATIVE	None	11247	157	51	38734675	38778545	1	None	Kop, HAI-2
19	SPINT2	ENSG00000167642	ENST00000301244	protein_coding	KNOWN	CCDS12510	11247	759	252	38755098	38783254	1	None	Kop, HAI-2
19	SPINT2	ENSG00000167642	ENST00000587090	protein_coding	PUTATIVE	None	11247	609	202	38755216	38783091	1	None	Kop, HAI-2
19	SPINT2	ENSG00000167642	ENST00000454580	protein_coding	KNOWN	CCDS54261	11247	588	195	38755216	38783108	1	None	Kop, HAI-2
19	SPINT2	ENSG00000167642	ENST00000587516	protein_coding	NOVEL	None	11247	524	173	38755308	38781207	1	None	Kop, HAI-2
19	SPINT2	ENSG00000167642	ENST00000590210	retained_intron	KNOWN	None	11247	None	None	38755336	38778621	1	None	Kop, HAI-2
19	SPINT2	ENSG00000167642	ENST00000592007	protein_coding	PUTATIVE	None	11247	187	61	38755978	38778575	1	None	Kop, HAI-2
19	SPINT2	ENSG00000167642	ENST00000585357	retained_intron	KNOWN	None	11247	None	None	38779046	38783108	1	None	Kop, HAI-2
19	SPINT2	ENSG00000167642	ENST00000589749	retained_intron	KNOWN	None	11247	None	None	38779521	38781276	1	None	Kop, HAI-2
19	SPINT2	ENSG00000167642	ENST00000590738	protein_coding	PUTATIVE	None	11247	392	129	38779778	38781527	1	None	Kop, HAI-2
19	SPINT2	ENSG00000167642	ENST00000587334	protein_coding	NOVEL	None	11247	319	105	38780827	38782710	1	None	Kop, HAI-2
3	RAB43	ENSG00000172780	ENST00000315150	protein_coding	KNOWN	CCDS33850	19983	639	212	128806412	128840633	-1	None	RAB41, RAB11B, ISY1
3	RAB43	ENSG00000172780	ENST00000393304	protein_coding	KNOWN	CCDS33850	19983	639	212	128806412	128840647	-1	None	RAB41, RAB11B, ISY1
3	RAB43	ENSG00000172780	ENST00000393308	protein_coding	KNOWN	CCDS33850	19983	639	212	128806412	128840765	-1	None	RAB41, RAB11B, ISY1
3	RAB43	ENSG00000172780	ENST00000393307	protein_coding	KNOWN	CCDS33850	19983	639	212	128806412	128840857	-1	None	RAB41, RAB11B, ISY1
3	RAB43	ENSG00000172780	ENST00000393305	protein_coding	KNOWN	CCDS33850	19983	639	212	128806412	128840993	-1	None	RAB41, RAB11B, ISY1
3	RAB43	ENSG00000172780	ENST00000476465	protein_coding	PUTATIVE	CCDS56275	19983	468	155	128809337	128840624	-1	None	RAB41, RAB11B, ISY1
3	RAB43	ENSG00000172780	ENST00000457077	protein_coding	KNOWN	None	19983	259	85	128813958	128841644	-1	None	RAB41, RAB11B, ISY1
2	C2orf62	ENSG00000158428	ENST00000289388	protein_coding	KNOWN	CCDS2414	25062	1164	387	219221579	219232817	1	None	MGC50811
2	C2orf62	ENSG00000158428	ENST00000480532	retained_intron	KNOWN	None	25062	None	None	219221586	219222513	1	None	MGC50811
2	C2orf62	ENSG00000158428	ENST00000495773	retained_intron	KNOWN	None	25062	None	None	219222208	219225353	1	None	MGC50811
2	C2orf62	ENSG00000158428	ENST00000481940	processed_transcript	KNOWN	None	25062	None	None	219222426	219232822	1	None	MGC50811
2	C2orf62	ENSG00000158428	ENST00000494447	retained_intron	KNOWN	None	25062	None	None	219230231	219232816	1	None	MGC50811
3	HYAL2	ENSG00000068001	ENST00000447092	protein_coding	KNOWN	CCDS2818	5321	1422	473	50355221	50360213	-1	None	LuCa-2, LUCA2
3	HYAL2	ENSG00000068001	ENST00000357750	protein_coding	KNOWN	CCDS2818	5321	1422	473	50355227	50360337	-1	None	LuCa-2, LUCA2
3	HYAL2	ENSG00000068001	ENST00000395139	protein_coding	KNOWN	CCDS2818	5321	1422	473	50355240	50359144	-1	None	LuCa-2, LUCA2
3	HYAL2	ENSG00000068001	ENST00000442581	protein_coding	KNOWN	CCDS2818	5321	1422	473	50355243	50360208	-1	None	LuCa-2, LUCA2
3	HYAL2	ENSG00000068001	ENST00000481597	retained_intron	KNOWN	None	5321	None	None	50356020	50360172	-1	None	LuCa-2, LUCA2
3	HYAL2	ENSG00000068001	ENST00000458018	protein_coding	KNOWN	None	5321	363	120	50357558	50358648	-1	None	LuCa-2, LUCA2
3	HYAL2	ENSG00000068001	ENST00000424190	protein_coding	KNOWN	None	5321	353	116	50357568	50358418	-1	None	LuCa-2, LUCA2
3	HYAL2	ENSG00000068001	ENST00000426286	protein_coding	KNOWN	None	5321	244	80	50357677	50358379	-1	None	LuCa-2, LUCA2
3	HYAL2	ENSG00000068001	ENST00000428028	protein_coding	KNOWN	None	5321	230	75	50357691	50360172	-1	None	LuCa-2, LUCA2
3	HYAL2	ENSG00000068001	ENST00000415028	protein_coding	KNOWN	None	5321	143	46	50357778	50358580	-1	None	LuCa-2, LUCA2
17	VAMP2	ENSG00000220205	ENST00000316509	protein_coding	KNOWN	CCDS32561	12643	351	116	8062467	8066293	-1	SYB2	VAMP-2
17	VAMP2	ENSG00000220205	ENST00000404970	protein_coding	PUTATIVE	None	12643	207	68	8063724	8066864	-1	SYB2	VAMP-2
17	VAMP2	ENSG00000220205	ENST00000488857	protein_coding	PUTATIVE	None	12643	357	118	8064137	8066250	-1	SYB2	VAMP-2
17	VAMP2	ENSG00000220205	ENST00000481878	protein_coding	PUTATIVE	None	12643	342	113	8064637	8066266	-1	SYB2	VAMP-2
15	TBC1D2B	ENSG00000167202	ENST00000465531	protein_coding	PUTATIVE	None	29183	368	121	78276378	78294026	-1	None	KIAA1055
15	TBC1D2B	ENSG00000167202	ENST00000300584	protein_coding	KNOWN	CCDS45314	29183	2892	963	78287327	78369994	-1	None	KIAA1055
15	TBC1D2B	ENSG00000167202	ENST00000409931	protein_coding	KNOWN	CCDS32301	29183	2745	914	78287328	78370066	-1	None	KIAA1055
15	TBC1D2B	ENSG00000167202	ENST00000418039	retained_intron	KNOWN	None	29183	None	None	78287329	78291723	-1	None	KIAA1055
15	TBC1D2B	ENSG00000167202	ENST00000491479	retained_intron	KNOWN	None	29183	None	None	78290458	78294296	-1	None	KIAA1055
15	TBC1D2B	ENSG00000167202	ENST00000492078	processed_transcript	PUTATIVE	None	29183	None	None	78290586	78294008	-1	None	KIAA1055
15	TBC1D2B	ENSG00000167202	ENST00000459715	processed_transcript	PUTATIVE	None	29183	None	None	78290861	78294005	-1	None	KIAA1055
15	TBC1D2B	ENSG00000167202	ENST00000497942	retained_intron	KNOWN	None	29183	None	None	78294046	78295921	-1	None	KIAA1055
15	TBC1D2B	ENSG00000167202	ENST00000472786	retained_intron	KNOWN	None	29183	None	None	78294824	78309628	-1	None	KIAA1055
15	TBC1D2B	ENSG00000167202	ENST00000486703	retained_intron	KNOWN	None	29183	None	None	78316743	78317970	-1	None	KIAA1055
15	TBC1D2B	ENSG00000167202	ENST00000435468	protein_coding	PUTATIVE	None	29183	874	290	78316758	78358465	-1	None	KIAA1055
15	TBC1D2B	ENSG00000167202	ENST00000482562	processed_transcript	KNOWN	None	29183	None	None	78337339	78346343	-1	None	KIAA1055
2	SLC11A1	ENSG00000018280	ENST00000468221	retained_intron	KNOWN	None	10907	None	None	219246752	219260750	1	LSH, NRAMP, NRAMP1	None
2	SLC11A1	ENSG00000018280	ENST00000233202	protein_coding	KNOWN	CCDS2415	10907	1653	550	219246752	219261617	1	LSH, NRAMP, NRAMP1	None
2	SLC11A1	ENSG00000018280	ENST00000473367	processed_transcript	KNOWN	None	10907	None	None	219246892	219251390	1	LSH, NRAMP, NRAMP1	None
2	SLC11A1	ENSG00000018280	ENST00000465984	retained_intron	KNOWN	None	10907	None	None	219246911	219260749	1	LSH, NRAMP, NRAMP1	None
2	SLC11A1	ENSG00000018280	ENST00000486451	processed_transcript	KNOWN	None	10907	None	None	219246926	219251884	1	LSH, NRAMP, NRAMP1	None
2	SLC11A1	ENSG00000018280	ENST00000354352	nonsense_mediated_decay	KNOWN	None	10907	492	163	219246971	219260046	1	LSH, NRAMP, NRAMP1	None
2	SLC11A1	ENSG00000018280	ENST00000481524	processed_transcript	KNOWN	None	10907	None	None	219246996	219252307	1	LSH, NRAMP, NRAMP1	None
2	SLC11A1	ENSG00000018280	ENST00000494322	retained_intron	KNOWN	None	10907	None	None	219246996	219257358	1	LSH, NRAMP, NRAMP1	None
2	SLC11A1	ENSG00000018280	ENST00000471875	retained_intron	KNOWN	None	10907	None	None	219247002	219251495	1	LSH, NRAMP, NRAMP1	None
2	SLC11A1	ENSG00000018280	ENST00000469799	retained_intron	KNOWN	None	10907	None	None	219247002	219251835	1	LSH, NRAMP, NRAMP1	None
2	SLC11A1	ENSG00000018280	ENST00000492413	retained_intron	KNOWN	None	10907	None	None	219247010	219251857	1	LSH, NRAMP, NRAMP1	None
2	SLC11A1	ENSG00000018280	ENST00000475225	retained_intron	KNOWN	None	10907	None	None	219247025	219253108	1	LSH, NRAMP, NRAMP1	None
2	SLC11A1	ENSG00000018280	ENST00000469449	retained_intron	KNOWN	None	10907	None	None	219248410	219253108	1	LSH, NRAMP, NRAMP1	None
2	SLC11A1	ENSG00000018280	ENST00000483487	retained_intron	KNOWN	None	10907	None	None	219248890	219251536	1	LSH, NRAMP, NRAMP1	None
2	SLC11A1	ENSG00000018280	ENST00000460592	retained_intron	KNOWN	None	10907	None	None	219249878	219250297	1	LSH, NRAMP, NRAMP1	None
2	SLC11A1	ENSG00000018280	ENST00000490872	retained_intron	KNOWN	None	10907	None	None	219254688	219256494	1	LSH, NRAMP, NRAMP1	None
2	SLC11A1	ENSG00000018280	ENST00000490536	retained_intron	KNOWN	None	10907	None	None	219257313	219259358	1	LSH, NRAMP, NRAMP1	None
2	SLC11A1	ENSG00000018280	ENST00000468721	retained_intron	KNOWN	None	10907	None	None	219257563	219258909	1	LSH, NRAMP, NRAMP1	None
2	SLC11A1	ENSG00000018280	ENST00000539932	protein_coding	KNOWN	None	10907	1299	432	219247032	219260014	1	LSH, NRAMP, NRAMP1	None
11	PAAF1	ENSG00000175575	ENST00000541951	protein_coding	PUTATIVE	CCDS58158	25687	834	277	73587744	73638615	1	WDR71	FLJ11848, Rpn14
11	PAAF1	ENSG00000175575	ENST00000310571	protein_coding	KNOWN	CCDS8226	25687	1179	392	73588014	73638779	1	WDR71	FLJ11848, Rpn14
11	PAAF1	ENSG00000175575	ENST00000381783	retained_intron	KNOWN	None	25687	None	None	73588019	73591748	1	WDR71	FLJ11848, Rpn14
11	PAAF1	ENSG00000175575	ENST00000504441	protein_coding	KNOWN	None	25687	711	236	73588025	73625492	1	WDR71	FLJ11848, Rpn14
11	PAAF1	ENSG00000175575	ENST00000543814	protein_coding	KNOWN	None	25687	741	246	73588037	73625522	1	WDR71	FLJ11848, Rpn14
11	PAAF1	ENSG00000175575	ENST00000535604	protein_coding	PUTATIVE	CCDS58158	25687	834	277	73588040	73638658	1	WDR71	FLJ11848, Rpn14
11	PAAF1	ENSG00000175575	ENST00000542293	protein_coding	PUTATIVE	None	25687	301	99	73588042	73620557	1	WDR71	FLJ11848, Rpn14
11	PAAF1	ENSG00000175575	ENST00000536003	protein_coding	KNOWN	CCDS58157	25687	1128	375	73588042	73638773	1	WDR71	FLJ11848, Rpn14
11	PAAF1	ENSG00000175575	ENST00000544552	protein_coding	KNOWN	CCDS58157	25687	1128	375	73588073	73638790	1	WDR71	FLJ11848, Rpn14
11	PAAF1	ENSG00000175575	ENST00000546039	protein_coding	PUTATIVE	None	25687	483	160	73589822	73627661	1	WDR71	FLJ11848, Rpn14
11	PAAF1	ENSG00000175575	ENST00000543079	processed_transcript	KNOWN	None	25687	None	None	73598122	73611429	1	WDR71	FLJ11848, Rpn14
11	PAAF1	ENSG00000175575	ENST00000536582	protein_coding	PUTATIVE	None	25687	451	149	73598246	73611450	1	WDR71	FLJ11848, Rpn14
11	PAAF1	ENSG00000175575	ENST00000544909	protein_coding	PUTATIVE	None	25687	1182	393	73599839	73638770	1	WDR71	FLJ11848, Rpn14
11	PAAF1	ENSG00000175575	ENST00000540659	protein_coding	NOVEL	None	25687	349	115	73611413	73627690	1	WDR71	FLJ11848, Rpn14
11	PAAF1	ENSG00000175575	ENST00000376384	protein_coding	KNOWN	CCDS58157	25687	1128	375	73598108	73638770	1	WDR71	FLJ11848, Rpn14
4	RNF150	ENSG00000170153	ENST00000306799	protein_coding	KNOWN	None	23138	1191	396	141786725	142054616	-1	None	KIAA1214
4	RNF150	ENSG00000170153	ENST00000420921	protein_coding	KNOWN	None	23138	894	297	141786725	142134031	-1	None	KIAA1214
4	RNF150	ENSG00000170153	ENST00000515673	protein_coding	KNOWN	CCDS34065	23138	1317	438	141788938	142053996	-1	None	KIAA1214
4	RNF150	ENSG00000170153	ENST00000507500	protein_coding	KNOWN	None	23138	1218	405	141832207	142054203	-1	None	KIAA1214
4	RNF150	ENSG00000170153	ENST00000506101	protein_coding	NOVEL	None	23138	691	229	141832298	141918190	-1	None	KIAA1214
4	RNF150	ENSG00000170153	ENST00000515057	processed_transcript	KNOWN	None	23138	None	None	141865703	141889024	-1	None	KIAA1214
4	RNF150	ENSG00000170153	ENST00000379512	protein_coding	KNOWN	None	23138	894	297	141786725	141974880	-1	None	KIAA1214
7	ZMIZ2	ENSG00000122515	ENST00000413916	protein_coding	NOVEL	None	22229	2589	862	44788180	44808293	1	None	KIAA1886, hZIMP7, ZIMP7, DKFZp761I2123, NET27
7	ZMIZ2	ENSG00000122515	ENST00000457123	protein_coding	KNOWN	None	22229	269	88	44788461	44796649	1	None	KIAA1886, hZIMP7, ZIMP7, DKFZp761I2123, NET27
7	ZMIZ2	ENSG00000122515	ENST00000309315	protein_coding	KNOWN	CCDS43576	22229	2763	920	44788530	44809477	1	None	KIAA1886, hZIMP7, ZIMP7, DKFZp761I2123, NET27
7	ZMIZ2	ENSG00000122515	ENST00000416856	nonsense_mediated_decay	KNOWN	None	22229	189	62	44788561	44797160	1	None	KIAA1886, hZIMP7, ZIMP7, DKFZp761I2123, NET27
7	ZMIZ2	ENSG00000122515	ENST00000492001	retained_intron	KNOWN	None	22229	None	None	44795787	44796591	1	None	KIAA1886, hZIMP7, ZIMP7, DKFZp761I2123, NET27
7	ZMIZ2	ENSG00000122515	ENST00000433667	protein_coding	NOVEL	None	22229	2667	888	44795787	44808293	1	None	KIAA1886, hZIMP7, ZIMP7, DKFZp761I2123, NET27
7	ZMIZ2	ENSG00000122515	ENST00000265346	protein_coding	KNOWN	CCDS43577	22229	2685	894	44795804	44808135	1	None	KIAA1886, hZIMP7, ZIMP7, DKFZp761I2123, NET27
7	ZMIZ2	ENSG00000122515	ENST00000478045	retained_intron	KNOWN	None	22229	None	None	44799333	44808287	1	None	KIAA1886, hZIMP7, ZIMP7, DKFZp761I2123, NET27
7	ZMIZ2	ENSG00000122515	ENST00000463056	retained_intron	KNOWN	None	22229	None	None	44799550	44808296	1	None	KIAA1886, hZIMP7, ZIMP7, DKFZp761I2123, NET27
7	ZMIZ2	ENSG00000122515	ENST00000480964	retained_intron	KNOWN	None	22229	None	None	44801407	44805324	1	None	KIAA1886, hZIMP7, ZIMP7, DKFZp761I2123, NET27
7	ZMIZ2	ENSG00000122515	ENST00000492558	processed_transcript	KNOWN	None	22229	None	None	44803288	44805116	1	None	KIAA1886, hZIMP7, ZIMP7, DKFZp761I2123, NET27
7	ZMIZ2	ENSG00000122515	ENST00000463931	processed_transcript	KNOWN	None	22229	None	None	44805310	44807216	1	None	KIAA1886, hZIMP7, ZIMP7, DKFZp761I2123, NET27
7	ZMIZ2	ENSG00000122515	ENST00000482322	retained_intron	KNOWN	None	22229	None	None	44805343	44806153	1	None	KIAA1886, hZIMP7, ZIMP7, DKFZp761I2123, NET27
7	ZMIZ2	ENSG00000122515	ENST00000441627	protein_coding	KNOWN	CCDS43576	22229	2763	920	44795778	44809477	1	None	KIAA1886, hZIMP7, ZIMP7, DKFZp761I2123, NET27
2	CTDSP1	ENSG00000144579	ENST00000491064	processed_transcript	KNOWN	None	21614	None	None	219262979	219269141	1	None	NLIIF, SCP1
2	CTDSP1	ENSG00000144579	ENST00000443891	protein_coding	PUTATIVE	CCDS56166	21614	783	260	219263061	219269399	1	None	NLIIF, SCP1
2	CTDSP1	ENSG00000144579	ENST00000492545	processed_transcript	PUTATIVE	None	21614	None	None	219263426	219264793	1	None	NLIIF, SCP1
2	CTDSP1	ENSG00000144579	ENST00000473420	processed_transcript	KNOWN	None	21614	None	None	219263501	219268123	1	None	NLIIF, SCP1
2	CTDSP1	ENSG00000144579	ENST00000498160	processed_transcript	KNOWN	None	21614	None	None	219263697	219268138	1	None	NLIIF, SCP1
2	CTDSP1	ENSG00000144579	ENST00000273062	protein_coding	KNOWN	CCDS2416	21614	786	261	219264478	219270664	1	None	NLIIF, SCP1
2	CTDSP1	ENSG00000144579	ENST00000497677	retained_intron	KNOWN	None	21614	None	None	219264794	219268464	1	None	NLIIF, SCP1
2	CTDSP1	ENSG00000144579	ENST00000494067	retained_intron	KNOWN	None	21614	None	None	219264856	219267154	1	None	NLIIF, SCP1
2	CTDSP1	ENSG00000144579	ENST00000452977	protein_coding	NOVEL	None	21614	764	253	219264857	219269202	1	None	NLIIF, SCP1
2	CTDSP1	ENSG00000144579	ENST00000428361	protein_coding	NOVEL	None	21614	788	261	219265031	219269202	1	None	NLIIF, SCP1
2	CTDSP1	ENSG00000144579	ENST00000496785	processed_transcript	PUTATIVE	None	21614	None	None	219265310	219266435	1	None	NLIIF, SCP1
2	CTDSP1	ENSG00000144579	ENST00000431127	protein_coding	NOVEL	None	21614	586	194	219265401	219267130	1	None	NLIIF, SCP1
2	CTDSP1	ENSG00000144579	ENST00000488627	processed_transcript	KNOWN	None	21614	None	None	219265785	219269496	1	None	NLIIF, SCP1
2	CTDSP1	ENSG00000144579	ENST00000482272	retained_intron	KNOWN	None	21614	None	None	219265890	219268140	1	None	NLIIF, SCP1
2	CTDSP1	ENSG00000144579	ENST00000464255	processed_transcript	KNOWN	None	21614	None	None	219265891	219269310	1	None	NLIIF, SCP1
19	EMC10	ENSG00000161671	ENST00000601780	nonsense_mediated_decay	KNOWN	None	27609	129	42	50979657	50986608	1	C19orf63	INM02, HSS1, HSM1
19	EMC10	ENSG00000161671	ENST00000597426	protein_coding	PUTATIVE	None	27609	131	42	50979753	50982274	1	C19orf63	INM02, HSS1, HSM1
19	EMC10	ENSG00000161671	ENST00000334976	protein_coding	KNOWN	CCDS12796	27609	789	262	50979756	50986585	1	C19orf63	INM02, HSS1, HSM1
19	EMC10	ENSG00000161671	ENST00000376918	protein_coding	KNOWN	CCDS42594	27609	765	254	50979756	50986608	1	C19orf63	INM02, HSS1, HSM1
19	EMC10	ENSG00000161671	ENST00000598585	protein_coding	PUTATIVE	None	27609	1116	371	50979778	50986455	1	C19orf63	INM02, HSS1, HSM1
19	EMC10	ENSG00000161671	ENST00000599293	nonsense_mediated_decay	KNOWN	None	27609	129	42	50979791	50986577	1	C19orf63	INM02, HSS1, HSM1
19	EMC10	ENSG00000161671	ENST00000597799	protein_coding	PUTATIVE	None	27609	266	87	50980200	50982323	1	C19orf63	INM02, HSS1, HSM1
19	EMC10	ENSG00000161671	ENST00000594508	retained_intron	KNOWN	None	27609	None	None	50984347	50985205	1	C19orf63	INM02, HSS1, HSM1
11	None	ENSG00000224130	ENST00000454512	protein_coding	KNOWN	None	None	372	123	58672897	58676071	1	None	None
6	MRPL18	ENSG00000112110	ENST00000476826	processed_transcript	KNOWN	None	14477	None	None	160210844	160219345	1	None	HSPC071
6	MRPL18	ENSG00000112110	ENST00000479638	processed_transcript	KNOWN	None	14477	None	None	160210918	160218436	1	None	HSPC071
6	MRPL18	ENSG00000112110	ENST00000367034	protein_coding	KNOWN	CCDS5270	14477	543	180	160211498	160219468	1	None	HSPC071
6	MRPL18	ENSG00000112110	ENST00000480842	processed_transcript	KNOWN	None	14477	None	None	160211549	160219468	1	None	HSPC071
3	ISY1-RAB43	ENSG00000261796	ENST00000418265	protein_coding	KNOWN	CCDS56276	42969	996	331	128806418	128879879	-1	None	None
16	ZNF23	ENSG00000167377	ENST00000564528	protein_coding	PUTATIVE	None	13023	1758	585	71481500	71487876	-1	ZNF359	KOX16, Zfp612, ZNF612
16	ZNF23	ENSG00000167377	ENST00000393539	protein_coding	KNOWN	CCDS10900	13023	1932	643	71481500	71496117	-1	ZNF359	KOX16, Zfp612, ZNF612
16	ZNF23	ENSG00000167377	ENST00000497160	protein_coding	PUTATIVE	None	13023	252	83	71481500	71496149	-1	ZNF359	KOX16, Zfp612, ZNF612
16	ZNF23	ENSG00000167377	ENST00000357254	protein_coding	KNOWN	CCDS10900	13023	1932	643	71481500	71496662	-1	ZNF359	KOX16, Zfp612, ZNF612
16	ZNF23	ENSG00000167377	ENST00000358700	protein_coding	PUTATIVE	None	13023	252	83	71481522	71490733	-1	ZNF359	KOX16, Zfp612, ZNF612
16	ZNF23	ENSG00000167377	ENST00000539742	processed_transcript	KNOWN	None	13023	None	None	71481539	71496155	-1	ZNF359	KOX16, Zfp612, ZNF612
16	ZNF23	ENSG00000167377	ENST00000565718	protein_coding	NOVEL	None	13023	311	102	71483560	71496148	-1	ZNF359	KOX16, Zfp612, ZNF612
16	ZNF23	ENSG00000167377	ENST00000567340	protein_coding	KNOWN	None	13023	81	26	71487207	71496998	-1	ZNF359	KOX16, Zfp612, ZNF612
16	ZNF23	ENSG00000167377	ENST00000564588	processed_transcript	KNOWN	None	13023	None	None	71490685	71496295	-1	ZNF359	KOX16, Zfp612, ZNF612
16	ZNF23	ENSG00000167377	ENST00000417828	protein_coding	KNOWN	CCDS10900	13023	1932	643	71481513	71496117	-1	ZNF359	KOX16, Zfp612, ZNF612
16	ZNF23	ENSG00000167377	ENST00000428724	protein_coding	KNOWN	None	13023	1758	585	71481513	71496149	-1	ZNF359	KOX16, Zfp612, ZNF612
X	PRRG1	ENSG00000130962	ENST00000378628	protein_coding	KNOWN	CCDS14239	9469	657	218	37208528	37316548	1	None	PRGP1
X	PRRG1	ENSG00000130962	ENST00000491253	processed_transcript	KNOWN	None	9469	None	None	37208562	37312900	1	None	PRGP1
X	PRRG1	ENSG00000130962	ENST00000466533	protein_coding	KNOWN	None	9469	447	148	37208583	37312664	1	None	PRGP1
X	PRRG1	ENSG00000130962	ENST00000484460	protein_coding	KNOWN	None	9469	344	113	37208617	37312561	1	None	PRGP1
X	PRRG1	ENSG00000130962	ENST00000449135	protein_coding	KNOWN	CCDS14239	9469	657	218	37208625	37316542	1	None	PRGP1
X	PRRG1	ENSG00000130962	ENST00000463135	protein_coding	PUTATIVE	CCDS55397	9469	249	82	37208632	37301477	1	None	PRGP1
X	PRRG1	ENSG00000130962	ENST00000470290	retained_intron	KNOWN	None	9469	None	None	37285005	37312899	1	None	PRGP1
X	PRRG1	ENSG00000130962	ENST00000542554	protein_coding	KNOWN	CCDS14239	9469	657	218	37208583	37316545	1	None	PRGP1
X	PRRG1	ENSG00000130962	ENST00000543642	protein_coding	KNOWN	CCDS14239	9469	657	218	37208583	37316545	1	None	PRGP1
X	NXF5	ENSG00000126952	ENST00000263032	nonsense_mediated_decay	KNOWN	None	8075	1194	397	101087085	101112549	-1	None	None
X	NXF5	ENSG00000126952	ENST00000372803	nonsense_mediated_decay	KNOWN	None	8075	1107	368	101087085	101112549	-1	None	None
X	NXF5	ENSG00000126952	ENST00000493509	nonsense_mediated_decay	KNOWN	None	8075	507	168	101087085	101112549	-1	None	None
X	NXF5	ENSG00000126952	ENST00000361330	nonsense_mediated_decay	KNOWN	None	8075	918	305	101087085	101112549	-1	None	None
X	NXF5	ENSG00000126952	ENST00000332614	nonsense_mediated_decay	KNOWN	None	8075	909	302	101087085	101112549	-1	None	None
X	NXF5	ENSG00000126952	ENST00000473265	protein_coding	KNOWN	CCDS14491	8075	1098	365	101087171	101098171	-1	None	None
X	NXF5	ENSG00000126952	ENST00000537026	protein_coding	KNOWN	CCDS14491	8075	1098	365	101087085	101112549	-1	None	None
X	NXF5	ENSG00000126952	ENST00000361708	protein_coding	KNOWN	None	8075	1194	397	101091161	101112549	-1	None	None
2	VIL1	ENSG00000127831	ENST00000248444	protein_coding	KNOWN	CCDS2417	12690	2484	827	219283815	219318018	1	VIL	D2S1471
2	VIL1	ENSG00000127831	ENST00000454069	protein_coding	NOVEL	None	12690	473	156	219283844	219292978	1	VIL	D2S1471
2	VIL1	ENSG00000127831	ENST00000392114	protein_coding	PUTATIVE	None	12690	1551	516	219283846	219314247	1	VIL	D2S1471
2	VIL1	ENSG00000127831	ENST00000440053	protein_coding	PUTATIVE	None	12690	1266	421	219288488	219295939	1	VIL	D2S1471
2	VIL1	ENSG00000127831	ENST00000419986	protein_coding	NOVEL	None	12690	639	212	219297238	219301310	1	VIL	D2S1471
3	ISY1	ENSG00000240682	ENST00000393295	protein_coding	KNOWN	CCDS43149	29201	858	285	128846258	128880136	-1	None	KIAA1160, fSAP33
3	ISY1	ENSG00000240682	ENST00000471497	processed_transcript	KNOWN	None	29201	None	None	128848217	128875732	-1	None	KIAA1160, fSAP33
3	ISY1	ENSG00000240682	ENST00000273541	protein_coding	KNOWN	CCDS56277	29201	924	307	128848217	128879891	-1	None	KIAA1160, fSAP33
3	ISY1	ENSG00000240682	ENST00000471306	retained_intron	KNOWN	None	29201	None	None	128848634	128849546	-1	None	KIAA1160, fSAP33
3	ISY1	ENSG00000240682	ENST00000496163	protein_coding	PUTATIVE	None	29201	447	148	128848722	128864717	-1	None	KIAA1160, fSAP33
3	ISY1	ENSG00000240682	ENST00000393292	protein_coding	PUTATIVE	None	29201	759	252	128848860	128879880	-1	None	KIAA1160, fSAP33
3	ISY1	ENSG00000240682	ENST00000485703	nonsense_mediated_decay	KNOWN	None	29201	375	124	128852918	128879871	-1	None	KIAA1160, fSAP33
11	FAM111B	ENSG00000189057	ENST00000528234	retained_intron	KNOWN	None	24200	None	None	58874709	58877480	1	None	CANP
11	FAM111B	ENSG00000189057	ENST00000529618	protein_coding	KNOWN	CCDS44611	24200	2115	704	58874709	58893909	1	None	CANP
11	FAM111B	ENSG00000189057	ENST00000534403	protein_coding	KNOWN	None	24200	488	161	58874710	58892148	1	None	CANP
11	FAM111B	ENSG00000189057	ENST00000343597	protein_coding	KNOWN	CCDS7972	24200	2205	734	58874710	58894867	1	None	CANP
11	FAM111B	ENSG00000189057	ENST00000411426	protein_coding	KNOWN	CCDS44611	24200	2115	704	58874658	58894883	1	None	CANP
12	PAWR	ENSG00000177425	ENST00000548075	processed_transcript	KNOWN	None	8614	None	None	79968759	79991762	-1	None	par-4, PAR4
12	PAWR	ENSG00000177425	ENST00000328827	protein_coding	KNOWN	CCDS31863	8614	1023	340	79978654	80084877	-1	None	par-4, PAR4
12	PAWR	ENSG00000177425	ENST00000550603	protein_coding	PUTATIVE	None	8614	219	72	79978659	79990314	-1	None	par-4, PAR4
12	PAWR	ENSG00000177425	ENST00000549050	processed_transcript	PUTATIVE	None	8614	None	None	79983572	80025942	-1	None	par-4, PAR4
12	PAWR	ENSG00000177425	ENST00000547699	retained_intron	KNOWN	None	8614	None	None	79986295	79990869	-1	None	par-4, PAR4
12	PAWR	ENSG00000177425	ENST00000551712	protein_coding	PUTATIVE	None	8614	583	193	79997448	80083860	-1	None	par-4, PAR4
12	PAWR	ENSG00000177425	ENST00000550006	processed_transcript	PUTATIVE	None	8614	None	None	80014895	80083837	-1	None	par-4, PAR4
12	PAWR	ENSG00000177425	ENST00000547571	processed_transcript	PUTATIVE	None	8614	None	None	80061759	80083810	-1	None	par-4, PAR4
12	PAWR	ENSG00000177425	ENST00000547016	processed_transcript	PUTATIVE	None	8614	None	None	80082152	80083841	-1	None	par-4, PAR4
12	PAWR	ENSG00000177425	ENST00000548426	protein_coding	KNOWN	None	8614	227	74	80083798	80084594	-1	None	par-4, PAR4
12	PAWR	ENSG00000177425	ENST00000552637	protein_coding	KNOWN	None	8614	191	62	80083834	80084361	-1	None	par-4, PAR4
15	LACTB	ENSG00000103642	ENST00000261893	protein_coding	KNOWN	CCDS10182	16468	1644	547	63413999	63434260	1	MRPL56	FLJ14902
15	LACTB	ENSG00000103642	ENST00000413507	protein_coding	KNOWN	CCDS45275	16468	1122	373	63414032	63422715	1	MRPL56	FLJ14902
15	LACTB	ENSG00000103642	ENST00000557972	protein_coding	PUTATIVE	None	16468	379	125	63414782	63419792	1	MRPL56	FLJ14902
15	LACTB	ENSG00000103642	ENST00000559782	retained_intron	KNOWN	None	16468	None	None	63421558	63433545	1	MRPL56	FLJ14902
17	TMEM107	ENSG00000179029	ENST00000449985	protein_coding	PUTATIVE	None	28128	108	35	8076555	8079691	-1	None	MGC10744
17	TMEM107	ENSG00000179029	ENST00000532998	protein_coding	PUTATIVE	None	28128	324	107	8077060	8079691	-1	None	MGC10744
17	TMEM107	ENSG00000179029	ENST00000437139	protein_coding	KNOWN	CCDS45607	28128	423	140	8077285	8079692	-1	None	MGC10744
17	TMEM107	ENSG00000179029	ENST00000533070	protein_coding	KNOWN	None	28128	420	139	8077317	8079706	-1	None	MGC10744
17	TMEM107	ENSG00000179029	ENST00000316425	protein_coding	KNOWN	CCDS11132	28128	441	146	8077319	8079717	-1	None	MGC10744
17	TMEM107	ENSG00000179029	ENST00000431792	protein_coding	PUTATIVE	None	28128	225	74	8077321	8079634	-1	None	MGC10744
17	TMEM107	ENSG00000179029	ENST00000526920	retained_intron	KNOWN	None	28128	None	None	8077420	8079710	-1	None	MGC10744
17	TMEM107	ENSG00000179029	ENST00000529756	retained_intron	KNOWN	None	28128	None	None	8077489	8079705	-1	None	MGC10744
17	TMEM107	ENSG00000179029	ENST00000417073	retained_intron	KNOWN	None	28128	None	None	8077902	8079694	-1	None	MGC10744
6	PNLDC1	ENSG00000146453	ENST00000275275	protein_coding	KNOWN	CCDS5271	21185	1563	520	160221301	160241736	1	None	FLJ40240, dJ195P10.2
6	PNLDC1	ENSG00000146453	ENST00000392167	protein_coding	PUTATIVE	None	21185	1596	531	160221306	160241735	1	None	FLJ40240, dJ195P10.2
11	FAM111A	ENSG00000166801	ENST00000528737	protein_coding	KNOWN	CCDS7973	24725	1836	611	58910221	58922512	1	None	FLJ22794, KIAA1895
11	FAM111A	ENSG00000166801	ENST00000532790	retained_intron	KNOWN	None	24725	None	None	58910329	58916456	1	None	FLJ22794, KIAA1895
11	FAM111A	ENSG00000166801	ENST00000529985	processed_transcript	PUTATIVE	None	24725	None	None	58910330	58911170	1	None	FLJ22794, KIAA1895
11	FAM111A	ENSG00000166801	ENST00000531676	retained_intron	KNOWN	None	24725	None	None	58910332	58911020	1	None	FLJ22794, KIAA1895
11	FAM111A	ENSG00000166801	ENST00000527629	protein_coding	KNOWN	None	24725	550	182	58912252	58919691	1	None	FLJ22794, KIAA1895
11	FAM111A	ENSG00000166801	ENST00000361723	protein_coding	KNOWN	CCDS7973	24725	1836	611	58912252	58922509	1	None	FLJ22794, KIAA1895
11	FAM111A	ENSG00000166801	ENST00000531408	protein_coding	KNOWN	None	24725	288	95	58912272	58919429	1	None	FLJ22794, KIAA1895
11	FAM111A	ENSG00000166801	ENST00000529358	retained_intron	KNOWN	None	24725	None	None	58912335	58916652	1	None	FLJ22794, KIAA1895
11	FAM111A	ENSG00000166801	ENST00000533703	protein_coding	KNOWN	CCDS7973	24725	1836	611	58912536	58922512	1	None	FLJ22794, KIAA1895
11	FAM111A	ENSG00000166801	ENST00000531147	protein_coding	KNOWN	CCDS7973	24725	1836	611	58915718	58922509	1	None	FLJ22794, KIAA1895
11	FAM111A	ENSG00000166801	ENST00000420244	protein_coding	KNOWN	CCDS7973	24725	1836	611	58910318	58922507	1	None	FLJ22794, KIAA1895
2	USP37	ENSG00000135913	ENST00000258399	protein_coding	KNOWN	CCDS2418	20063	2940	979	219314974	219433084	-1	None	KIAA1594
2	USP37	ENSG00000135913	ENST00000454775	protein_coding	KNOWN	CCDS2418	20063	2940	979	219317991	219433048	-1	None	KIAA1594
2	USP37	ENSG00000135913	ENST00000415516	protein_coding	PUTATIVE	None	20063	2658	885	219318224	219433064	-1	None	KIAA1594
2	USP37	ENSG00000135913	ENST00000418019	protein_coding	KNOWN	CCDS2418	20063	2940	979	219319538	219433014	-1	None	KIAA1594
2	USP37	ENSG00000135913	ENST00000473554	processed_transcript	KNOWN	None	20063	None	None	219330856	219344438	-1	None	KIAA1594
2	USP37	ENSG00000135913	ENST00000484018	processed_transcript	PUTATIVE	None	20063	None	None	219339473	219341681	-1	None	KIAA1594
2	USP37	ENSG00000135913	ENST00000475553	processed_transcript	KNOWN	None	20063	None	None	219341666	219351101	-1	None	KIAA1594
2	USP37	ENSG00000135913	ENST00000466523	processed_transcript	KNOWN	None	20063	None	None	219360498	219363136	-1	None	KIAA1594
2	USP37	ENSG00000135913	ENST00000486242	processed_transcript	KNOWN	None	20063	None	None	219362492	219379151	-1	None	KIAA1594
2	USP37	ENSG00000135913	ENST00000478329	processed_transcript	KNOWN	None	20063	None	None	219374730	219414547	-1	None	KIAA1594
2	USP37	ENSG00000135913	ENST00000338465	protein_coding	PUTATIVE	None	20063	909	302	219392994	219433049	-1	None	KIAA1594
14	RTN1	ENSG00000139970	ENST00000481205	retained_intron	KNOWN	None	10467	None	None	60062694	60072820	-1	NSP	None
14	RTN1	ENSG00000139970	ENST00000395090	protein_coding	NOVEL	None	10467	582	193	60062695	60097327	-1	NSP	None
14	RTN1	ENSG00000139970	ENST00000342503	protein_coding	KNOWN	CCDS9741	10467	627	208	60062695	60097532	-1	NSP	None
14	RTN1	ENSG00000139970	ENST00000267484	protein_coding	KNOWN	CCDS9740	10467	2331	776	60062695	60337684	-1	NSP	None
14	RTN1	ENSG00000139970	ENST00000432103	retained_intron	KNOWN	None	10467	None	None	60062723	60194431	-1	NSP	None
14	RTN1	ENSG00000139970	ENST00000474911	retained_intron	KNOWN	None	10467	None	None	60062732	60074325	-1	NSP	None
14	RTN1	ENSG00000139970	ENST00000557422	processed_transcript	KNOWN	None	10467	None	None	60063475	60097330	-1	NSP	None
14	RTN1	ENSG00000139970	ENST00000490111	retained_intron	KNOWN	None	10467	None	None	60070479	60072227	-1	NSP	None
3	TUSC2	ENSG00000114383	ENST00000462137	processed_transcript	PUTATIVE	None	17034	None	None	50357458	50365588	-1	PDAP2	FUS1, PAP, C3orf11
3	TUSC2	ENSG00000114383	ENST00000232496	protein_coding	KNOWN	CCDS2819	17034	333	110	50362338	50365674	-1	PDAP2	FUS1, PAP, C3orf11
3	TUSC2	ENSG00000114383	ENST00000454201	nonsense_mediated_decay	KNOWN	None	17034	198	65	50363439	50365637	-1	PDAP2	FUS1, PAP, C3orf11
3	TUSC2	ENSG00000114383	ENST00000421918	nonsense_mediated_decay	KNOWN	None	17034	198	65	50363439	50365682	-1	PDAP2	FUS1, PAP, C3orf11
3	TUSC2	ENSG00000114383	ENST00000463304	processed_transcript	PUTATIVE	None	17034	None	None	50363521	50365669	-1	PDAP2	FUS1, PAP, C3orf11
3	TUSC2	ENSG00000114383	ENST00000417867	nonsense_mediated_decay	KNOWN	None	17034	174	57	50363787	50365626	-1	PDAP2	FUS1, PAP, C3orf11
6	ORC3	ENSG00000135336	ENST00000392844	protein_coding	KNOWN	CCDS43486	8489	2136	711	88299839	88377169	1	ORC3L	IMAGE50150, LATHEO
6	ORC3	ENSG00000135336	ENST00000257789	protein_coding	KNOWN	CCDS5012	8489	2139	712	88299853	88377169	1	ORC3L	IMAGE50150, LATHEO
6	ORC3	ENSG00000135336	ENST00000468486	processed_transcript	KNOWN	None	8489	None	None	88304071	88305160	1	ORC3L	IMAGE50150, LATHEO
6	ORC3	ENSG00000135336	ENST00000478028	processed_transcript	KNOWN	None	8489	None	None	88317391	88319249	1	ORC3L	IMAGE50150, LATHEO
6	ORC3	ENSG00000135336	ENST00000508875	protein_coding	PUTATIVE	None	8489	98	31	88360648	88362932	1	ORC3L	IMAGE50150, LATHEO
6	ORC3	ENSG00000135336	ENST00000417380	protein_coding	KNOWN	None	8489	1335	444	88299863	88372760	1	ORC3L	IMAGE50150, LATHEO
6	ORC3	ENSG00000135336	ENST00000546266	protein_coding	KNOWN	CCDS56440	8489	1707	568	88299861	88376883	1	ORC3L	IMAGE50150, LATHEO
2	RQCD1	ENSG00000144580	ENST00000273064	protein_coding	KNOWN	CCDS33379	10445	900	299	219433303	219461803	1	None	RCD1, RCD1+, CNOT9, CT129
2	RQCD1	ENSG00000144580	ENST00000433439	nonsense_mediated_decay	KNOWN	None	10445	126	41	219433538	219445447	1	None	RCD1, RCD1+, CNOT9, CT129
2	RQCD1	ENSG00000144580	ENST00000432877	nonsense_mediated_decay	KNOWN	None	10445	228	75	219433582	219449379	1	None	RCD1, RCD1+, CNOT9, CT129
2	RQCD1	ENSG00000144580	ENST00000295701	protein_coding	PUTATIVE	None	10445	777	258	219433598	219458568	1	None	RCD1, RCD1+, CNOT9, CT129
2	RQCD1	ENSG00000144580	ENST00000489687	processed_transcript	PUTATIVE	None	10445	None	None	219433654	219438882	1	None	RCD1, RCD1+, CNOT9, CT129
2	RQCD1	ENSG00000144580	ENST00000473626	retained_intron	KNOWN	None	10445	None	None	219457027	219457795	1	None	RCD1, RCD1+, CNOT9, CT129
2	RQCD1	ENSG00000144580	ENST00000418808	protein_coding	PUTATIVE	None	10445	186	61	219457039	219459619	1	None	RCD1, RCD1+, CNOT9, CT129
2	RQCD1	ENSG00000144580	ENST00000509807	protein_coding	KNOWN	None	10445	996	331	219433303	219459249	1	None	RCD1, RCD1+, CNOT9, CT129
2	RQCD1	ENSG00000144580	ENST00000542068	protein_coding	KNOWN	CCDS33379	10445	900	299	219433431	219461147	1	None	RCD1, RCD1+, CNOT9, CT129
19	JOSD2	ENSG00000161677	ENST00000601423	protein_coding	KNOWN	CCDS12797	28853	567	188	51009255	51014419	-1	None	SBBI54
19	JOSD2	ENSG00000161677	ENST00000598418	protein_coding	KNOWN	CCDS12797	28853	567	188	51009255	51014610	-1	None	SBBI54
19	JOSD2	ENSG00000161677	ENST00000595669	protein_coding	NOVEL	CCDS59413	28853	441	146	51009259	51014477	-1	None	SBBI54
19	JOSD2	ENSG00000161677	ENST00000594350	protein_coding	KNOWN	None	28853	483	160	51009514	51014416	-1	None	SBBI54
19	JOSD2	ENSG00000161677	ENST00000602146	retained_intron	KNOWN	None	28853	None	None	51009703	51011286	-1	None	SBBI54
19	JOSD2	ENSG00000161677	ENST00000595718	retained_intron	KNOWN	None	28853	None	None	51013397	51014402	-1	None	SBBI54
19	JOSD2	ENSG00000161677	ENST00000391815	protein_coding	KNOWN	CCDS12797	28853	567	188	51009259	51014345	-1	None	SBBI54
7	None	ENSG00000205236	ENST00000519541	nonsense_mediated_decay	KNOWN	None	None	891	296	102222970	102283316	-1	None	None
20	None	ENSG00000238129	ENST00000416638	lincRNA	KNOWN	None	None	None	None	26171625	26174582	1	None	None
2	PLCD4	ENSG00000115556	ENST00000450993	protein_coding	KNOWN	CCDS46516	9062	2289	762	219472488	219501904	1	None	None
2	PLCD4	ENSG00000115556	ENST00000483685	retained_intron	KNOWN	None	9062	None	None	219472578	219501371	1	None	None
2	PLCD4	ENSG00000115556	ENST00000444453	nonsense_mediated_decay	KNOWN	None	9062	210	69	219472622	219486271	1	None	None
2	PLCD4	ENSG00000115556	ENST00000446503	nonsense_mediated_decay	KNOWN	None	9062	210	69	219472622	219486909	1	None	None
2	PLCD4	ENSG00000115556	ENST00000469493	retained_intron	KNOWN	None	9062	None	None	219472622	219493938	1	None	None
2	PLCD4	ENSG00000115556	ENST00000473443	retained_intron	KNOWN	None	9062	None	None	219472639	219501896	1	None	None
2	PLCD4	ENSG00000115556	ENST00000465713	retained_intron	KNOWN	None	9062	None	None	219472642	219498603	1	None	None
2	PLCD4	ENSG00000115556	ENST00000417849	protein_coding	KNOWN	CCDS46516	9062	2289	762	219472642	219501904	1	None	None
2	PLCD4	ENSG00000115556	ENST00000415854	protein_coding	KNOWN	None	9062	296	97	219473965	219483416	1	None	None
2	PLCD4	ENSG00000115556	ENST00000432688	protein_coding	NOVEL	None	9062	2385	794	219474463	219501898	1	None	None
2	PLCD4	ENSG00000115556	ENST00000459791	retained_intron	KNOWN	None	9062	None	None	219487085	219501907	1	None	None
2	PLCD4	ENSG00000115556	ENST00000497482	retained_intron	KNOWN	None	9062	None	None	219494077	219498395	1	None	None
2	PLCD4	ENSG00000115556	ENST00000458239	nonsense_mediated_decay	KNOWN	None	9062	370	122	219495369	219499277	1	None	None
2	PLCD4	ENSG00000115556	ENST00000484718	retained_intron	KNOWN	None	9062	None	None	219498362	219501111	1	None	None
2	PLCD4	ENSG00000115556	ENST00000457773	protein_coding	KNOWN	None	9062	334	110	219500578	219501896	1	None	None
20	None	ENSG00000204555	ENST00000376400	processed_pseudogene	KNOWN	None	None	None	None	29449474	29449652	-1	None	None
12	DIP2B	ENSG00000066084	ENST00000549620	retained_intron	KNOWN	None	29284	None	None	50898768	51074065	1	None	KIAA1463, FLJ34278
12	DIP2B	ENSG00000066084	ENST00000301180	protein_coding	KNOWN	CCDS31799	29284	4731	1576	50898890	51142450	1	None	KIAA1463, FLJ34278
12	DIP2B	ENSG00000066084	ENST00000546719	retained_intron	KNOWN	None	29284	None	None	51034588	51074065	1	None	KIAA1463, FLJ34278
12	DIP2B	ENSG00000066084	ENST00000552328	retained_intron	KNOWN	None	29284	None	None	51079631	51080675	1	None	KIAA1463, FLJ34278
12	DIP2B	ENSG00000066084	ENST00000546732	nonsense_mediated_decay	KNOWN	None	29284	193	63	51079669	51138878	1	None	KIAA1463, FLJ34278
20	None	ENSG00000205611	ENST00000380888	lincRNA	KNOWN	None	None	None	None	29513582	29521213	-1	None	None
17	C17orf59	ENSG00000196544	ENST00000389017	protein_coding	KNOWN	CCDS11133	25939	1074	357	8091652	8093564	-1	None	FLJ20014
X	None	ENSG00000250349	ENST00000465127	protein_coding	PUTATIVE	None	None	840	279	37208583	38546928	1	None	None
3	RASSF1	ENSG00000068028	ENST00000327761	protein_coding	KNOWN	CCDS2821	9882	813	270	50367219	50374895	-1	None	NORE2A, REH3P21, RDA32, 123F2
3	RASSF1	ENSG00000068028	ENST00000395126	protein_coding	KNOWN	CCDS2822	9882	570	189	50367219	50375664	-1	None	NORE2A, REH3P21, RDA32, 123F2
3	RASSF1	ENSG00000068028	ENST00000357043	protein_coding	KNOWN	CCDS2820	9882	1035	344	50367219	50378272	-1	None	NORE2A, REH3P21, RDA32, 123F2
3	RASSF1	ENSG00000068028	ENST00000395117	nonsense_mediated_decay	KNOWN	None	9882	279	92	50367219	50378272	-1	None	NORE2A, REH3P21, RDA32, 123F2
3	RASSF1	ENSG00000068028	ENST00000359365	protein_coding	KNOWN	CCDS43096	9882	1023	340	50367219	50378343	-1	None	NORE2A, REH3P21, RDA32, 123F2
3	RASSF1	ENSG00000068028	ENST00000482447	nonsense_mediated_decay	KNOWN	None	9882	459	152	50367219	50378343	-1	None	NORE2A, REH3P21, RDA32, 123F2
3	RASSF1	ENSG00000068028	ENST00000478619	retained_intron	KNOWN	None	9882	None	None	50373808	50378411	-1	None	NORE2A, REH3P21, RDA32, 123F2
3	RASSF1	ENSG00000068028	ENST00000488024	processed_transcript	KNOWN	None	9882	None	None	50374001	50378261	-1	None	NORE2A, REH3P21, RDA32, 123F2
3	RASSF1	ENSG00000068028	ENST00000494145	retained_intron	KNOWN	None	9882	None	None	50374231	50375719	-1	None	NORE2A, REH3P21, RDA32, 123F2
2	ZNF142	ENSG00000115568	ENST00000449707	protein_coding	KNOWN	CCDS42817	12927	5064	1687	219502639	219524247	-1	None	KIAA0236, pHZ-49
2	ZNF142	ENSG00000115568	ENST00000433921	nonsense_mediated_decay	KNOWN	None	12927	297	98	219502868	219524225	-1	None	KIAA0236, pHZ-49
2	ZNF142	ENSG00000115568	ENST00000450765	nonsense_mediated_decay	KNOWN	None	12927	297	98	219502868	219524378	-1	None	KIAA0236, pHZ-49
2	ZNF142	ENSG00000115568	ENST00000440934	protein_coding	NOVEL	None	12927	880	292	219515224	219521126	-1	None	KIAA0236, pHZ-49
2	ZNF142	ENSG00000115568	ENST00000450560	protein_coding	KNOWN	None	12927	80	25	219521073	219524199	-1	None	KIAA0236, pHZ-49
2	ZNF142	ENSG00000115568	ENST00000432460	protein_coding	KNOWN	None	12927	43	13	219521110	219524262	-1	None	KIAA0236, pHZ-49
2	ZNF142	ENSG00000115568	ENST00000411696	protein_coding	KNOWN	CCDS42817	12927	5064	1687	219502872	219524263	-1	None	KIAA0236, pHZ-49
20	None	ENSG00000225490	ENST00000454331	lincRNA	KNOWN	None	None	None	None	29521637	29522987	-1	None	None
12	PPP1R12A	ENSG00000058272	ENST00000450142	protein_coding	KNOWN	CCDS44947	7618	3093	1030	80167348	80328978	-1	MYPT1	MBS, M130
12	PPP1R12A	ENSG00000058272	ENST00000437004	protein_coding	KNOWN	CCDS58260	7618	2988	995	80168186	80329240	-1	MYPT1	MBS, M130
12	PPP1R12A	ENSG00000058272	ENST00000546762	nonsense_mediated_decay	KNOWN	None	7618	703	233	80169321	80191017	-1	MYPT1	MBS, M130
12	PPP1R12A	ENSG00000058272	ENST00000550903	nonsense_mediated_decay	KNOWN	None	7618	486	161	80169694	80191034	-1	MYPT1	MBS, M130
12	PPP1R12A	ENSG00000058272	ENST00000547253	retained_intron	KNOWN	None	7618	None	None	80169698	80176121	-1	MYPT1	MBS, M130
12	PPP1R12A	ENSG00000058272	ENST00000550351	retained_intron	KNOWN	None	7618	None	None	80169698	80180694	-1	MYPT1	MBS, M130
12	PPP1R12A	ENSG00000058272	ENST00000550299	protein_coding	PUTATIVE	None	7618	566	187	80169698	80190570	-1	MYPT1	MBS, M130
12	PPP1R12A	ENSG00000058272	ENST00000546369	protein_coding	KNOWN	CCDS44948	7618	2832	943	80169703	80307691	-1	MYPT1	MBS, M130
12	PPP1R12A	ENSG00000058272	ENST00000550107	protein_coding	KNOWN	CCDS58259	7618	2925	974	80169709	80328711	-1	MYPT1	MBS, M130
12	PPP1R12A	ENSG00000058272	ENST00000548908	retained_intron	KNOWN	None	7618	None	None	80169711	80184265	-1	MYPT1	MBS, M130
12	PPP1R12A	ENSG00000058272	ENST00000552892	retained_intron	KNOWN	None	7618	None	None	80169715	80174525	-1	MYPT1	MBS, M130
12	PPP1R12A	ENSG00000058272	ENST00000550369	retained_intron	KNOWN	None	7618	None	None	80183577	80187653	-1	MYPT1	MBS, M130
12	PPP1R12A	ENSG00000058272	ENST00000551781	retained_intron	KNOWN	None	7618	None	None	80187577	80191178	-1	MYPT1	MBS, M130
12	PPP1R12A	ENSG00000058272	ENST00000553081	protein_coding	NOVEL	None	7618	1101	366	80190697	80211223	-1	MYPT1	MBS, M130
12	PPP1R12A	ENSG00000058272	ENST00000547330	protein_coding	NOVEL	None	7618	2076	691	80191014	80328910	-1	MYPT1	MBS, M130
12	PPP1R12A	ENSG00000058272	ENST00000550007	retained_intron	KNOWN	None	7618	None	None	80191049	80199596	-1	MYPT1	MBS, M130
12	PPP1R12A	ENSG00000058272	ENST00000547131	protein_coding	NOVEL	None	7618	897	298	80191110	80214898	-1	MYPT1	MBS, M130
12	PPP1R12A	ENSG00000058272	ENST00000550001	retained_intron	KNOWN	None	7618	None	None	80200596	80203595	-1	MYPT1	MBS, M130
12	PPP1R12A	ENSG00000058272	ENST00000550510	protein_coding	NOVEL	None	7618	631	209	80214892	80328495	-1	MYPT1	MBS, M130
12	PPP1R12A	ENSG00000058272	ENST00000551191	retained_intron	KNOWN	None	7618	None	None	80221908	80226376	-1	MYPT1	MBS, M130
12	PPP1R12A	ENSG00000058272	ENST00000548318	protein_coding	PUTATIVE	None	7618	291	96	80222151	80266652	-1	MYPT1	MBS, M130
12	PPP1R12A	ENSG00000058272	ENST00000261207	protein_coding	KNOWN	CCDS44947	7618	3093	1030	80167343	80329235	-1	MYPT1	MBS, M130
15	RPS27L	ENSG00000185088	ENST00000559763	processed_transcript	KNOWN	None	18476	None	None	63418071	63447914	-1	None	None
15	RPS27L	ENSG00000185088	ENST00000330964	protein_coding	KNOWN	CCDS42048	18476	255	84	63445539	63450001	-1	None	None
15	RPS27L	ENSG00000185088	ENST00000462430	protein_coding	PUTATIVE	None	18476	303	100	63446052	63448973	-1	None	None
15	RPS27L	ENSG00000185088	ENST00000455271	protein_coding	PUTATIVE	None	18476	159	52	63446052	63449480	-1	None	None
15	RPS27L	ENSG00000185088	ENST00000482846	retained_intron	KNOWN	None	18476	None	None	63446052	63449676	-1	None	None
15	RPS27L	ENSG00000185088	ENST00000411926	protein_coding	PUTATIVE	None	18476	159	52	63446058	63450220	-1	None	None
15	RPS27L	ENSG00000185088	ENST00000439025	protein_coding	PUTATIVE	None	18476	294	97	63447170	63449698	-1	None	None
20	None	ENSG00000200325	ENST00000363455	misc_RNA	NOVEL	None	None	None	None	29543691	29543802	-1	None	None
17	AURKB	ENSG00000178999	ENST00000316199	protein_coding	NOVEL	None	11390	1038	345	8108056	8113900	-1	STK12	Aik2, IPL1, AurB, AIM-1, ARK2, STK5, PPP1R48
17	AURKB	ENSG00000178999	ENST00000534871	protein_coding	PUTATIVE	CCDS58514	11390	912	303	8108061	8113899	-1	STK12	Aik2, IPL1, AurB, AIM-1, ARK2, STK5, PPP1R48
17	AURKB	ENSG00000178999	ENST00000585124	protein_coding	KNOWN	CCDS11134	11390	1035	344	8108091	8113916	-1	STK12	Aik2, IPL1, AurB, AIM-1, ARK2, STK5, PPP1R48
17	AURKB	ENSG00000178999	ENST00000584972	protein_coding	NOVEL	None	11390	727	241	8108177	8110685	-1	STK12	Aik2, IPL1, AurB, AIM-1, ARK2, STK5, PPP1R48
17	AURKB	ENSG00000178999	ENST00000578549	protein_coding	NOVEL	None	11390	939	312	8108189	8113542	-1	STK12	Aik2, IPL1, AurB, AIM-1, ARK2, STK5, PPP1R48
17	AURKB	ENSG00000178999	ENST00000580998	nonsense_mediated_decay	KNOWN	None	11390	372	123	8108220	8113565	-1	STK12	Aik2, IPL1, AurB, AIM-1, ARK2, STK5, PPP1R48
17	AURKB	ENSG00000178999	ENST00000578753	retained_intron	KNOWN	None	11390	None	None	8108279	8110016	-1	STK12	Aik2, IPL1, AurB, AIM-1, ARK2, STK5, PPP1R48
17	AURKB	ENSG00000178999	ENST00000577833	protein_coding	PUTATIVE	None	11390	692	229	8108583	8113886	-1	STK12	Aik2, IPL1, AurB, AIM-1, ARK2, STK5, PPP1R48
17	AURKB	ENSG00000178999	ENST00000581511	protein_coding	KNOWN	None	11390	686	227	8109809	8113902	-1	STK12	Aik2, IPL1, AurB, AIM-1, ARK2, STK5, PPP1R48
17	AURKB	ENSG00000178999	ENST00000580390	retained_intron	KNOWN	None	11390	None	None	8109811	8111543	-1	STK12	Aik2, IPL1, AurB, AIM-1, ARK2, STK5, PPP1R48
17	AURKB	ENSG00000178999	ENST00000584561	retained_intron	KNOWN	None	11390	None	None	8109837	8113877	-1	STK12	Aik2, IPL1, AurB, AIM-1, ARK2, STK5, PPP1R48
17	AURKB	ENSG00000178999	ENST00000582368	protein_coding	PUTATIVE	None	11390	516	171	8109856	8113572	-1	STK12	Aik2, IPL1, AurB, AIM-1, ARK2, STK5, PPP1R48
17	AURKB	ENSG00000178999	ENST00000583915	protein_coding	PUTATIVE	None	11390	209	68	8110560	8113899	-1	STK12	Aik2, IPL1, AurB, AIM-1, ARK2, STK5, PPP1R48
17	AURKB	ENSG00000178999	ENST00000583124	retained_intron	KNOWN	None	11390	None	None	8113316	8113918	-1	STK12	Aik2, IPL1, AurB, AIM-1, ARK2, STK5, PPP1R48
17	AURKB	ENSG00000178999	ENST00000535053	protein_coding	KNOWN	None	11390	429	142	8108189	8113542	-1	STK12	Aik2, IPL1, AurB, AIM-1, ARK2, STK5, PPP1R48
11	DTX4	ENSG00000110042	ENST00000532982	protein_coding	KNOWN	None	29151	1542	513	58938903	58972382	1	None	KIAA0937, RNF155
11	DTX4	ENSG00000110042	ENST00000227451	protein_coding	KNOWN	CCDS44612	29151	1860	619	58939965	58976060	1	None	KIAA0937, RNF155
11	DTX4	ENSG00000110042	ENST00000531902	processed_transcript	KNOWN	None	29151	None	None	58952733	58959724	1	None	KIAA0937, RNF155
11	DTX4	ENSG00000110042	ENST00000527475	retained_intron	KNOWN	None	29151	None	None	58962365	58972231	1	None	KIAA0937, RNF155
2	BCS1L	ENSG00000074582	ENST00000428880	protein_coding	KNOWN	None	1020	230	75	219523487	219525940	1	None	Hs.6719, BCS, h-BCS, BJS
2	BCS1L	ENSG00000074582	ENST00000430322	protein_coding	KNOWN	None	1020	618	205	219523528	219526639	1	None	Hs.6719, BCS, h-BCS, BJS
2	BCS1L	ENSG00000074582	ENST00000456050	protein_coding	KNOWN	None	1020	618	205	219524099	219526639	1	None	Hs.6719, BCS, h-BCS, BJS
2	BCS1L	ENSG00000074582	ENST00000443791	protein_coding	PUTATIVE	None	1020	452	149	219524379	219527325	1	None	Hs.6719, BCS, h-BCS, BJS
2	BCS1L	ENSG00000074582	ENST00000359273	protein_coding	KNOWN	CCDS2419	1020	1260	419	219524379	219528166	1	None	Hs.6719, BCS, h-BCS, BJS
2	BCS1L	ENSG00000074582	ENST00000490188	retained_intron	KNOWN	None	1020	None	None	219524382	219525321	1	None	Hs.6719, BCS, h-BCS, BJS
2	BCS1L	ENSG00000074582	ENST00000392109	protein_coding	KNOWN	CCDS2419	1020	1260	419	219524432	219528166	1	None	Hs.6719, BCS, h-BCS, BJS
2	BCS1L	ENSG00000074582	ENST00000392110	protein_coding	KNOWN	CCDS2419	1020	1260	419	219524437	219528165	1	None	Hs.6719, BCS, h-BCS, BJS
2	BCS1L	ENSG00000074582	ENST00000423377	protein_coding	KNOWN	None	1020	331	109	219524440	219526139	1	None	Hs.6719, BCS, h-BCS, BJS
2	BCS1L	ENSG00000074582	ENST00000392111	protein_coding	KNOWN	CCDS2419	1020	1260	419	219524458	219528166	1	None	Hs.6719, BCS, h-BCS, BJS
2	BCS1L	ENSG00000074582	ENST00000412366	protein_coding	KNOWN	CCDS2419	1020	1260	419	219524460	219528166	1	None	Hs.6719, BCS, h-BCS, BJS
2	BCS1L	ENSG00000074582	ENST00000439945	protein_coding	KNOWN	CCDS2419	1020	1260	419	219524483	219528127	1	None	Hs.6719, BCS, h-BCS, BJS
2	BCS1L	ENSG00000074582	ENST00000431802	protein_coding	KNOWN	CCDS2419	1020	1260	419	219524495	219528165	1	None	Hs.6719, BCS, h-BCS, BJS
2	BCS1L	ENSG00000074582	ENST00000493376	retained_intron	KNOWN	None	1020	None	None	219525590	219526237	1	None	Hs.6719, BCS, h-BCS, BJS
2	BCS1L	ENSG00000074582	ENST00000471576	retained_intron	KNOWN	None	1020	None	None	219525787	219527263	1	None	Hs.6719, BCS, h-BCS, BJS
2	BCS1L	ENSG00000074582	ENST00000477422	retained_intron	KNOWN	None	1020	None	None	219526389	219528136	1	None	Hs.6719, BCS, h-BCS, BJS
2	BCS1L	ENSG00000074582	ENST00000460579	retained_intron	KNOWN	None	1020	None	None	219526574	219528137	1	None	Hs.6719, BCS, h-BCS, BJS
2	BCS1L	ENSG00000074582	ENST00000465706	processed_transcript	KNOWN	None	1020	None	None	219526641	219528164	1	None	Hs.6719, BCS, h-BCS, BJS
2	BCS1L	ENSG00000074582	ENST00000426649	protein_coding	NOVEL	None	1020	604	200	219526673	219528165	1	None	Hs.6719, BCS, h-BCS, BJS
2	BCS1L	ENSG00000074582	ENST00000436603	protein_coding	PUTATIVE	None	1020	365	120	219526920	219528165	1	None	Hs.6719, BCS, h-BCS, BJS
6	MAS1	ENSG00000130368	ENST00000252660	protein_coding	KNOWN	CCDS5272	6899	978	325	160327974	160329108	1	None	None
16	None	ENSG00000261611	ENST00000561908	nonsense_mediated_decay	KNOWN	None	None	285	94	71481503	71523214	-1	None	None
5	STK10	ENSG00000072786	ENST00000176763	protein_coding	KNOWN	CCDS34290	11388	2907	968	171469077	171615390	-1	None	LOK, PRO2729
5	STK10	ENSG00000072786	ENST00000517360	retained_intron	KNOWN	None	11388	None	None	171470115	171480204	-1	None	LOK, PRO2729
5	STK10	ENSG00000072786	ENST00000520476	protein_coding	PUTATIVE	None	11388	845	280	171471672	171488172	-1	None	LOK, PRO2729
5	STK10	ENSG00000072786	ENST00000523615	retained_intron	KNOWN	None	11388	None	None	171482726	171488634	-1	None	LOK, PRO2729
5	STK10	ENSG00000072786	ENST00000519269	retained_intron	KNOWN	None	11388	None	None	171484016	171488199	-1	None	LOK, PRO2729
5	STK10	ENSG00000072786	ENST00000523603	processed_transcript	PUTATIVE	None	11388	None	None	171484468	171490604	-1	None	LOK, PRO2729
5	STK10	ENSG00000072786	ENST00000522879	retained_intron	KNOWN	None	11388	None	None	171491369	171509409	-1	None	LOK, PRO2729
5	STK10	ENSG00000072786	ENST00000517775	processed_transcript	PUTATIVE	None	11388	None	None	171519432	171520581	-1	None	LOK, PRO2729
5	STK10	ENSG00000072786	ENST00000517524	retained_intron	KNOWN	None	11388	None	None	171523442	171535292	-1	None	LOK, PRO2729
5	STK10	ENSG00000072786	ENST00000517527	retained_intron	KNOWN	None	11388	None	None	171532575	171533802	-1	None	LOK, PRO2729
5	STK10	ENSG00000072786	ENST00000522936	processed_transcript	KNOWN	None	11388	None	None	171532662	171541804	-1	None	LOK, PRO2729
5	STK10	ENSG00000072786	ENST00000519710	processed_transcript	KNOWN	None	11388	None	None	171533666	171583729	-1	None	LOK, PRO2729
5	STK10	ENSG00000072786	ENST00000521322	retained_intron	KNOWN	None	11388	None	None	171533714	171535030	-1	None	LOK, PRO2729
5	STK10	ENSG00000072786	ENST00000518267	processed_transcript	PUTATIVE	None	11388	None	None	171533807	171542148	-1	None	LOK, PRO2729
5	STK10	ENSG00000072786	ENST00000519441	retained_intron	KNOWN	None	11388	None	None	171533820	171535065	-1	None	LOK, PRO2729
5	STK10	ENSG00000072786	ENST00000517381	processed_transcript	PUTATIVE	None	11388	None	None	171533820	171541804	-1	None	LOK, PRO2729
X	LANCL3	ENSG00000147036	ENST00000378621	protein_coding	KNOWN	CCDS14240	24767	1167	388	37430822	37543716	1	None	FLJ42925
X	LANCL3	ENSG00000147036	ENST00000378619	protein_coding	KNOWN	CCDS55398	24767	1263	420	37430905	37536647	1	None	FLJ42925
2	RNF25	ENSG00000163481	ENST00000295704	protein_coding	KNOWN	CCDS2420	14662	1380	459	219528587	219537134	-1	None	AO7, FLJ13906
2	RNF25	ENSG00000163481	ENST00000473034	retained_intron	KNOWN	None	14662	None	None	219528615	219536700	-1	None	AO7, FLJ13906
2	RNF25	ENSG00000163481	ENST00000474339	retained_intron	KNOWN	None	14662	None	None	219528890	219529624	-1	None	AO7, FLJ13906
2	RNF25	ENSG00000163481	ENST00000463188	retained_intron	KNOWN	None	14662	None	None	219529550	219536707	-1	None	AO7, FLJ13906
2	RNF25	ENSG00000163481	ENST00000423170	nonsense_mediated_decay	KNOWN	None	14662	477	158	219529877	219536690	-1	None	AO7, FLJ13906
2	RNF25	ENSG00000163481	ENST00000497832	retained_intron	KNOWN	None	14662	None	None	219530655	219532891	-1	None	AO7, FLJ13906
3	CNBP	ENSG00000169714	ENST00000502976	protein_coding	KNOWN	CCDS54637	13164	513	170	128888327	128902748	-1	DM2, ZNF9	RNF163, ZCCHC22, CNBP1
3	CNBP	ENSG00000169714	ENST00000422453	protein_coding	KNOWN	CCDS3056	13164	534	177	128888327	128902765	-1	DM2, ZNF9	RNF163, ZCCHC22, CNBP1
3	CNBP	ENSG00000169714	ENST00000451728	protein_coding	KNOWN	CCDS46907	13164	537	178	128888330	128902742	-1	DM2, ZNF9	RNF163, ZCCHC22, CNBP1
3	CNBP	ENSG00000169714	ENST00000446936	protein_coding	KNOWN	CCDS46908	13164	519	172	128888330	128902742	-1	DM2, ZNF9	RNF163, ZCCHC22, CNBP1
3	CNBP	ENSG00000169714	ENST00000500450	protein_coding	NOVEL	None	13164	483	160	128888412	128902753	-1	DM2, ZNF9	RNF163, ZCCHC22, CNBP1
3	CNBP	ENSG00000169714	ENST00000504813	protein_coding	KNOWN	None	13164	504	167	128888412	128902765	-1	DM2, ZNF9	RNF163, ZCCHC22, CNBP1
3	CNBP	ENSG00000169714	ENST00000441626	protein_coding	KNOWN	CCDS46906	13164	540	179	128888945	128902753	-1	DM2, ZNF9	RNF163, ZCCHC22, CNBP1
3	CNBP	ENSG00000169714	ENST00000502372	retained_intron	KNOWN	None	13164	None	None	128889075	128902707	-1	DM2, ZNF9	RNF163, ZCCHC22, CNBP1
3	CNBP	ENSG00000169714	ENST00000512338	protein_coding	NOVEL	None	13164	341	112	128890011	128902765	-1	DM2, ZNF9	RNF163, ZCCHC22, CNBP1
3	CNBP	ENSG00000169714	ENST00000507573	retained_intron	KNOWN	None	13164	None	None	128890095	128902739	-1	DM2, ZNF9	RNF163, ZCCHC22, CNBP1
16	ZNF19	ENSG00000157429	ENST00000567225	protein_coding	PUTATIVE	None	12981	303	100	71498453	71516039	-1	None	KOX12, MGC51021
16	ZNF19	ENSG00000157429	ENST00000288177	protein_coding	KNOWN	CCDS10901	12981	1377	458	71507493	71523241	-1	None	KOX12, MGC51021
16	ZNF19	ENSG00000157429	ENST00000565637	protein_coding	NOVEL	None	12981	1251	416	71508282	71523217	-1	None	KOX12, MGC51021
16	ZNF19	ENSG00000157429	ENST00000565100	protein_coding	PUTATIVE	None	12981	1167	388	71508287	71518513	-1	None	KOX12, MGC51021
16	ZNF19	ENSG00000157429	ENST00000569717	nonsense_mediated_decay	KNOWN	None	12981	138	45	71508652	71518516	-1	None	KOX12, MGC51021
16	ZNF19	ENSG00000157429	ENST00000564230	protein_coding	KNOWN	CCDS10901	12981	1377	458	71508713	71523179	-1	None	KOX12, MGC51021
16	ZNF19	ENSG00000157429	ENST00000565541	nonsense_mediated_decay	KNOWN	None	12981	192	63	71510066	71516225	-1	None	KOX12, MGC51021
16	ZNF19	ENSG00000157429	ENST00000568815	protein_coding	KNOWN	None	12981	353	116	71510097	71521013	-1	None	KOX12, MGC51021
16	ZNF19	ENSG00000157429	ENST00000561469	protein_coding	PUTATIVE	None	12981	243	80	71511789	71512902	-1	None	KOX12, MGC51021
16	ZNF19	ENSG00000157429	ENST00000562210	retained_intron	KNOWN	None	12981	None	None	71512123	71518517	-1	None	KOX12, MGC51021
16	ZNF19	ENSG00000157429	ENST00000564225	protein_coding	KNOWN	None	12981	219	72	71512186	71580238	-1	None	KOX12, MGC51021
16	ZNF19	ENSG00000157429	ENST00000566202	protein_coding	KNOWN	None	12981	69	22	71512873	71598992	-1	None	KOX12, MGC51021
16	ZNF19	ENSG00000157429	ENST00000569072	protein_coding	KNOWN	None	12981	15	4	71516003	71523254	-1	None	KOX12, MGC51021
16	ZNF19	ENSG00000157429	ENST00000568446	processed_transcript	KNOWN	None	12981	None	None	71518524	71598843	-1	None	KOX12, MGC51021
14	JPH4	ENSG00000092051	ENST00000356300	protein_coding	KNOWN	CCDS9603	20156	1887	628	24037244	24048009	-1	JPHL1	KIAA1831
14	JPH4	ENSG00000092051	ENST00000397118	protein_coding	KNOWN	CCDS9603	20156	1887	628	24037247	24047994	-1	JPHL1	KIAA1831
14	JPH4	ENSG00000092051	ENST00000544177	protein_coding	PUTATIVE	None	20156	882	293	24038624	24042210	-1	JPHL1	KIAA1831
14	JPH4	ENSG00000092051	ENST00000553505	retained_intron	KNOWN	None	20156	None	None	24044160	24047779	-1	JPHL1	KIAA1831
19	PPP1R14A	ENSG00000167641	ENST00000587515	protein_coding	PUTATIVE	None	14871	234	77	38741877	38743897	-1	PPP1INL	CPI-17
19	PPP1R14A	ENSG00000167641	ENST00000591291	protein_coding	PUTATIVE	None	14871	372	123	38741877	38747012	-1	PPP1INL	CPI-17
19	PPP1R14A	ENSG00000167641	ENST00000347262	protein_coding	NOVEL	CCDS58660	14871	363	120	38741877	38747172	-1	PPP1INL	CPI-17
19	PPP1R14A	ENSG00000167641	ENST00000301242	protein_coding	KNOWN	CCDS12509	14871	444	147	38741877	38747231	-1	PPP1INL	CPI-17
19	PPP1R14A	ENSG00000167641	ENST00000591585	protein_coding	PUTATIVE	None	14871	366	121	38742505	38747172	-1	PPP1INL	CPI-17
11	MPEG1	ENSG00000197629	ENST00000361050	protein_coding	KNOWN	CCDS41650	29619	2151	716	58975983	58980424	-1	None	MPG1
11	OR5AN1	ENSG00000176495	ENST00000313940	protein_coding	KNOWN	CCDS31559	15255	936	311	59131885	59132921	1	None	None
11	OR5A2	ENSG00000172324	ENST00000302040	protein_coding	KNOWN	CCDS31560	15249	975	324	59189416	59190449	-1	None	None
19	None	ENSG00000267748	ENST00000587519	protein_coding	PUTATIVE	None	None	487	161	38779791	38795550	1	None	None
19	None	ENSG00000267748	ENST00000591889	protein_coding	PUTATIVE	None	None	461	152	38779808	38795549	1	None	None
11	OR5A1	ENSG00000172320	ENST00000302030	protein_coding	KNOWN	CCDS31561	8319	948	315	59210617	59211667	1	OR5A1P	OST181
11	OR4D6	ENSG00000166884	ENST00000300127	protein_coding	KNOWN	CCDS31562	15175	945	314	59224411	59225464	1	None	None
11	OR4D10	ENSG00000254466	ENST00000530162	protein_coding	KNOWN	CCDS53636	15173	936	311	59244846	59245869	1	OR4D10P	OST711
11	OR4D11	ENSG00000176200	ENST00000313253	protein_coding	KNOWN	CCDS31563	15174	936	311	59271049	59271984	1	OR4D11P	None
2	STK36	ENSG00000163482	ENST00000295709	protein_coding	KNOWN	CCDS2421	17209	3948	1315	219536749	219567438	1	None	KIAA1278, FU
2	STK36	ENSG00000163482	ENST00000392105	protein_coding	KNOWN	CCDS58750	17209	3885	1294	219536792	219567432	1	None	KIAA1278, FU
2	STK36	ENSG00000163482	ENST00000455724	protein_coding	PUTATIVE	None	17209	227	74	219536794	219540151	1	None	KIAA1278, FU
2	STK36	ENSG00000163482	ENST00000440309	protein_coding	KNOWN	CCDS2421	17209	3948	1315	219537019	219567346	1	None	KIAA1278, FU
2	STK36	ENSG00000163482	ENST00000468026	retained_intron	KNOWN	None	17209	None	None	219537044	219537976	1	None	KIAA1278, FU
2	STK36	ENSG00000163482	ENST00000473557	retained_intron	KNOWN	None	17209	None	None	219537062	219540114	1	None	KIAA1278, FU
2	STK36	ENSG00000163482	ENST00000424080	protein_coding	KNOWN	None	17209	836	277	219537066	219544340	1	None	KIAA1278, FU
2	STK36	ENSG00000163482	ENST00000414413	nonsense_mediated_decay	KNOWN	None	17209	320	105	219544773	219554586	1	None	KIAA1278, FU
2	STK36	ENSG00000163482	ENST00000422778	nonsense_mediated_decay	KNOWN	None	17209	199	65	219545416	219555250	1	None	KIAA1278, FU
2	STK36	ENSG00000163482	ENST00000470568	retained_intron	KNOWN	None	17209	None	None	219549457	219553504	1	None	KIAA1278, FU
2	STK36	ENSG00000163482	ENST00000480709	retained_intron	KNOWN	None	17209	None	None	219553560	219557273	1	None	KIAA1278, FU
2	STK36	ENSG00000163482	ENST00000492486	retained_intron	KNOWN	None	17209	None	None	219557150	219559001	1	None	KIAA1278, FU
2	STK36	ENSG00000163482	ENST00000486644	retained_intron	KNOWN	None	17209	None	None	219558019	219561913	1	None	KIAA1278, FU
2	STK36	ENSG00000163482	ENST00000473681	retained_intron	KNOWN	None	17209	None	None	219559247	219561683	1	None	KIAA1278, FU
2	STK36	ENSG00000163482	ENST00000419433	nonsense_mediated_decay	KNOWN	None	17209	445	147	219561252	219567439	1	None	KIAA1278, FU
2	STK36	ENSG00000163482	ENST00000462031	retained_intron	KNOWN	None	17209	None	None	219561751	219563424	1	None	KIAA1278, FU
2	STK36	ENSG00000163482	ENST00000392106	protein_coding	KNOWN	None	17209	3885	1294	219536762	219567434	1	None	KIAA1278, FU
20	None	ENSG00000231934	ENST00000445151	antisense	KNOWN	None	None	None	None	29558488	29570363	-1	None	None
20	None	ENSG00000231934	ENST00000432067	antisense	KNOWN	None	None	None	None	29565756	29596406	-1	None	None
6	IGF2R	ENSG00000197081	ENST00000356956	protein_coding	KNOWN	CCDS5273	5467	7476	2491	160390131	160527583	1	None	CD222, MPRI, MPR1, CIMPR, M6P-R
6	IGF2R	ENSG00000197081	ENST00000464636	retained_intron	KNOWN	None	5467	None	None	160431370	160445725	1	None	CD222, MPRI, MPR1, CIMPR, M6P-R
6	IGF2R	ENSG00000197081	ENST00000479434	processed_transcript	KNOWN	None	5467	None	None	160466881	160477480	1	None	CD222, MPRI, MPR1, CIMPR, M6P-R
6	IGF2R	ENSG00000197081	ENST00000487607	retained_intron	KNOWN	None	5467	None	None	160494448	160495093	1	None	CD222, MPRI, MPR1, CIMPR, M6P-R
6	IGF2R	ENSG00000197081	ENST00000475834	protein_coding	PUTATIVE	None	5467	556	184	160506093	160511372	1	None	CD222, MPRI, MPR1, CIMPR, M6P-R
6	IGF2R	ENSG00000197081	ENST00000475584	processed_transcript	KNOWN	None	5467	None	None	160517479	160534539	1	None	CD222, MPRI, MPR1, CIMPR, M6P-R
19	YIF1B	ENSG00000167645	ENST00000592694	protein_coding	KNOWN	CCDS12512	30511	852	283	38795753	38806554	-1	None	FinGER8
19	YIF1B	ENSG00000167645	ENST00000337679	protein_coding	KNOWN	CCDS46067	30511	876	291	38795754	38806563	-1	None	FinGER8
19	YIF1B	ENSG00000167645	ENST00000392124	protein_coding	KNOWN	CCDS12512	30511	852	283	38795755	38800563	-1	None	FinGER8
19	YIF1B	ENSG00000167645	ENST00000586319	retained_intron	KNOWN	None	30511	None	None	38795756	38799779	-1	None	FinGER8
19	YIF1B	ENSG00000167645	ENST00000339413	protein_coding	KNOWN	CCDS33010	30511	945	314	38795758	38806603	-1	None	FinGER8
19	YIF1B	ENSG00000167645	ENST00000592246	protein_coding	NOVEL	None	30511	747	248	38795838	38800283	-1	None	FinGER8
19	YIF1B	ENSG00000167645	ENST00000329420	protein_coding	KNOWN	CCDS46066	30511	900	299	38795992	38806433	-1	None	FinGER8
19	YIF1B	ENSG00000167645	ENST00000591784	protein_coding	KNOWN	CCDS12512	30511	852	283	38795992	38806439	-1	None	FinGER8
19	YIF1B	ENSG00000167645	ENST00000589151	retained_intron	KNOWN	None	30511	None	None	38796002	38798275	-1	None	FinGER8
19	YIF1B	ENSG00000167645	ENST00000591755	protein_coding	KNOWN	None	30511	885	294	38797337	38806560	-1	None	FinGER8
19	YIF1B	ENSG00000167645	ENST00000589644	retained_intron	KNOWN	None	30511	None	None	38797402	38806582	-1	None	FinGER8
19	YIF1B	ENSG00000167645	ENST00000588002	protein_coding	NOVEL	None	30511	575	190	38798068	38800283	-1	None	FinGER8
19	YIF1B	ENSG00000167645	ENST00000585563	retained_intron	KNOWN	None	30511	None	None	38798068	38806376	-1	None	FinGER8
19	YIF1B	ENSG00000167645	ENST00000589247	protein_coding	PUTATIVE	None	30511	695	230	38798111	38806408	-1	None	FinGER8
19	YIF1B	ENSG00000167645	ENST00000587361	processed_transcript	KNOWN	None	30511	None	None	38799451	38806403	-1	None	FinGER8
19	YIF1B	ENSG00000167645	ENST00000587039	protein_coding	KNOWN	None	30511	309	102	38799864	38807913	-1	None	FinGER8
15	RAB8B	ENSG00000166128	ENST00000321437	protein_coding	KNOWN	CCDS10183	30273	624	207	63481668	63559981	1	None	None
15	RAB8B	ENSG00000166128	ENST00000558990	nonsense_mediated_decay	KNOWN	None	30273	144	47	63481759	63548793	1	None	None
15	RAB8B	ENSG00000166128	ENST00000558119	nonsense_mediated_decay	KNOWN	None	30273	279	92	63481793	63555878	1	None	None
15	RAB8B	ENSG00000166128	ENST00000559927	nonsense_mediated_decay	KNOWN	None	30273	147	48	63481802	63555795	1	None	None
15	RAB8B	ENSG00000166128	ENST00000559006	protein_coding	PUTATIVE	None	30273	565	187	63481805	63554975	1	None	None
15	RAB8B	ENSG00000166128	ENST00000448330	protein_coding	KNOWN	None	30273	573	190	63481805	63556587	1	None	None
20	None	ENSG00000221319	ENST00000408392	miRNA	NOVEL	None	None	None	None	29637162	29637300	1	None	None
20	MLLT10P1	ENSG00000238151	ENST00000418346	processed_pseudogene	KNOWN	None	15794	None	None	29637799	29638060	-1	MLLT10L	bA348I14.3
20	DKKL1P1	ENSG00000215546	ENST00000400550	processed_pseudogene	KNOWN	None	16593	None	None	29861973	29862670	1	DKKL2	dJ854E16.1
11	OR4D9	ENSG00000172742	ENST00000329328	protein_coding	KNOWN	CCDS31564	15178	945	314	59282386	59283330	1	None	None
11	OSBP	ENSG00000110048	ENST00000263847	protein_coding	KNOWN	CCDS7974	8503	2424	807	59341871	59383617	-1	None	OSBP1
11	OSBP	ENSG00000110048	ENST00000525357	nonsense_mediated_decay	KNOWN	None	8503	515	170	59344306	59368329	-1	None	OSBP1
11	OSBP	ENSG00000110048	ENST00000528903	retained_intron	KNOWN	None	8503	None	None	59360953	59368065	-1	None	OSBP1
2	TTLL4	ENSG00000135912	ENST00000457313	protein_coding	PUTATIVE	None	28976	2922	973	219575568	219619416	1	None	KIAA0173
2	TTLL4	ENSG00000135912	ENST00000415717	protein_coding	KNOWN	None	28976	303	100	219575572	219602702	1	None	KIAA0173
2	TTLL4	ENSG00000135912	ENST00000392102	protein_coding	KNOWN	CCDS2422	28976	3600	1199	219575598	219620139	1	None	KIAA0173
2	TTLL4	ENSG00000135912	ENST00000437755	protein_coding	KNOWN	None	28976	523	173	219575635	219602922	1	None	KIAA0173
2	TTLL4	ENSG00000135912	ENST00000442769	protein_coding	NOVEL	None	28976	3408	1135	219575679	219619416	1	None	KIAA0173
2	TTLL4	ENSG00000135912	ENST00000424644	protein_coding	KNOWN	None	28976	302	99	219575717	219602701	1	None	KIAA0173
2	TTLL4	ENSG00000135912	ENST00000417196	nonsense_mediated_decay	KNOWN	None	28976	539	178	219609840	219613620	1	None	KIAA0173
2	TTLL4	ENSG00000135912	ENST00000461181	retained_intron	KNOWN	None	28976	None	None	219610110	219611052	1	None	KIAA0173
2	TTLL4	ENSG00000135912	ENST00000494428	retained_intron	KNOWN	None	28976	None	None	219610276	219612926	1	None	KIAA0173
2	TTLL4	ENSG00000135912	ENST00000467841	retained_intron	KNOWN	None	28976	None	None	219610718	219614085	1	None	KIAA0173
2	TTLL4	ENSG00000135912	ENST00000480472	retained_intron	KNOWN	None	28976	None	None	219610819	219614005	1	None	KIAA0173
2	TTLL4	ENSG00000135912	ENST00000475950	retained_intron	KNOWN	None	28976	None	None	219610855	219612307	1	None	KIAA0173
2	TTLL4	ENSG00000135912	ENST00000480929	retained_intron	KNOWN	None	28976	None	None	219610862	219613377	1	None	KIAA0173
2	TTLL4	ENSG00000135912	ENST00000465558	retained_intron	KNOWN	None	28976	None	None	219610874	219618077	1	None	KIAA0173
2	TTLL4	ENSG00000135912	ENST00000434241	nonsense_mediated_decay	KNOWN	None	28976	302	99	219610878	219613642	1	None	KIAA0173
2	TTLL4	ENSG00000135912	ENST00000491899	retained_intron	KNOWN	None	28976	None	None	219611484	219612391	1	None	KIAA0173
2	TTLL4	ENSG00000135912	ENST00000448224	protein_coding	NOVEL	None	28976	583	193	219611757	219614086	1	None	KIAA0173
2	TTLL4	ENSG00000135912	ENST00000436668	protein_coding	NOVEL	None	28976	738	245	219613625	219618943	1	None	KIAA0173
2	TTLL4	ENSG00000135912	ENST00000417855	protein_coding	PUTATIVE	None	28976	488	161	219616477	219619139	1	None	KIAA0173
2	TTLL4	ENSG00000135912	ENST00000472527	retained_intron	KNOWN	None	28976	None	None	219617821	219619226	1	None	KIAA0173
2	TTLL4	ENSG00000135912	ENST00000258398	protein_coding	KNOWN	CCDS2422	28976	3600	1199	219602297	219620139	1	None	KIAA0173
20	None	ENSG00000224628	ENST00000445194	processed_pseudogene	KNOWN	None	None	None	None	29873120	29874638	-1	None	None
7	PPIA	ENSG00000196262	ENST00000481437	retained_intron	KNOWN	None	9253	None	None	44836279	44839415	1	None	CYPA
7	PPIA	ENSG00000196262	ENST00000451562	protein_coding	PUTATIVE	None	9253	366	121	44836279	44839610	1	None	CYPA
7	PPIA	ENSG00000196262	ENST00000468812	protein_coding	KNOWN	CCDS5494	9253	498	165	44836279	44842716	1	None	CYPA
7	PPIA	ENSG00000196262	ENST00000489459	protein_coding	PUTATIVE	None	9253	318	105	44836280	44841229	1	None	CYPA
7	PPIA	ENSG00000196262	ENST00000355968	protein_coding	PUTATIVE	None	9253	318	105	44836280	44841230	1	None	CYPA
7	PPIA	ENSG00000196262	ENST00000479021	nonsense_mediated_decay	KNOWN	None	9253	177	58	44836280	44864163	1	None	CYPA
7	PPIA	ENSG00000196262	ENST00000415933	nonsense_mediated_decay	KNOWN	None	9253	363	120	44836281	44841223	1	None	CYPA
7	PPIA	ENSG00000196262	ENST00000494484	retained_intron	KNOWN	None	9253	None	None	44837572	44841246	1	None	CYPA
7	PPIA	ENSG00000196262	ENST00000480603	processed_transcript	KNOWN	None	9253	None	None	44838413	44841223	1	None	CYPA
7	UPK3BL	ENSG00000267368	ENST00000340457	protein_coding	KNOWN	CCDS47675	37278	792	263	102277472	102283238	-1	None	UPLP
20	RPL31P3	ENSG00000237929	ENST00000458430	processed_pseudogene	KNOWN	None	16549	None	None	29899106	29899765	-1	None	dJ1018D12.4
17	C17orf78	ENSG00000167230	ENST00000586700	protein_coding	PUTATIVE	None	26831	480	159	35732928	35749660	1	None	FLJ39647
17	C17orf78	ENSG00000167230	ENST00000300618	protein_coding	KNOWN	CCDS45655	26831	828	275	35732985	35749662	1	None	FLJ39647
2	CYP27A1	ENSG00000135929	ENST00000494263	retained_intron	KNOWN	None	2605	None	None	219646472	219680011	1	CYP27	CTX, CP27
2	CYP27A1	ENSG00000135929	ENST00000258415	protein_coding	KNOWN	CCDS2423	2605	1596	531	219646479	219680016	1	CYP27	CTX, CP27
2	CYP27A1	ENSG00000135929	ENST00000445971	nonsense_mediated_decay	KNOWN	None	2605	348	115	219646876	219678790	1	CYP27	CTX, CP27
2	CYP27A1	ENSG00000135929	ENST00000466602	retained_intron	KNOWN	None	2605	None	None	219646897	219678814	1	CYP27	CTX, CP27
2	CYP27A1	ENSG00000135929	ENST00000411688	protein_coding	PUTATIVE	None	2605	664	220	219670637	219677748	1	CYP27	CTX, CP27
19	ASPDH	ENSG00000204653	ENST00000376916	protein_coding	KNOWN	CCDS33082	33856	537	178	51014857	51017947	-1	None	None
19	ASPDH	ENSG00000204653	ENST00000597232	retained_intron	KNOWN	None	33856	None	None	51014861	51015753	-1	None	None
19	ASPDH	ENSG00000204653	ENST00000389208	protein_coding	KNOWN	CCDS46153	33856	852	283	51014861	51017142	-1	None	None
19	ASPDH	ENSG00000204653	ENST00000601207	protein_coding	PUTATIVE	None	33856	403	133	51014989	51017881	-1	None	None
19	ASPDH	ENSG00000204653	ENST00000601287	retained_intron	KNOWN	None	33856	None	None	51015083	51017916	-1	None	None
19	ASPDH	ENSG00000204653	ENST00000597030	processed_transcript	KNOWN	None	33856	None	None	51015418	51017922	-1	None	None
19	ASPDH	ENSG00000204653	ENST00000593569	retained_intron	KNOWN	None	33856	None	None	51015901	51017925	-1	None	None
19	ASPDH	ENSG00000204653	ENST00000598657	protein_coding	NOVEL	None	33856	155	50	51016030	51017921	-1	None	None
17	CTC1	ENSG00000178971	ENST00000449476	nonsense_mediated_decay	KNOWN	None	26169	3096	1031	8130191	8151360	-1	C17orf68	FLJ22170, AAF132
17	CTC1	ENSG00000178971	ENST00000315684	protein_coding	KNOWN	CCDS42259	26169	3654	1217	8131136	8151362	-1	C17orf68	FLJ22170, AAF132
17	CTC1	ENSG00000178971	ENST00000581729	protein_coding	NOVEL	None	26169	371	122	8131300	8132723	-1	C17orf68	FLJ22170, AAF132
17	CTC1	ENSG00000178971	ENST00000580299	protein_coding	NOVEL	None	26169	375	124	8131867	8133715	-1	C17orf68	FLJ22170, AAF132
17	CTC1	ENSG00000178971	ENST00000578441	retained_intron	KNOWN	None	26169	None	None	8132103	8134763	-1	C17orf68	FLJ22170, AAF132
17	CTC1	ENSG00000178971	ENST00000578537	nonsense_mediated_decay	KNOWN	None	26169	404	133	8132145	8135501	-1	C17orf68	FLJ22170, AAF132
17	CTC1	ENSG00000178971	ENST00000578240	retained_intron	KNOWN	None	26169	None	None	8132676	8135966	-1	C17orf68	FLJ22170, AAF132
17	CTC1	ENSG00000178971	ENST00000584439	retained_intron	KNOWN	None	26169	None	None	8133586	8134251	-1	C17orf68	FLJ22170, AAF132
17	CTC1	ENSG00000178971	ENST00000581967	retained_intron	KNOWN	None	26169	None	None	8136030	8138086	-1	C17orf68	FLJ22170, AAF132
17	CTC1	ENSG00000178971	ENST00000583254	retained_intron	KNOWN	None	26169	None	None	8136230	8138120	-1	C17orf68	FLJ22170, AAF132
17	CTC1	ENSG00000178971	ENST00000579066	retained_intron	KNOWN	None	26169	None	None	8137952	8138684	-1	C17orf68	FLJ22170, AAF132
17	CTC1	ENSG00000178971	ENST00000581671	processed_transcript	KNOWN	None	26169	None	None	8139561	8151359	-1	C17orf68	FLJ22170, AAF132
17	CTC1	ENSG00000178971	ENST00000584842	retained_intron	KNOWN	None	26169	None	None	8141607	8146442	-1	C17orf68	FLJ22170, AAF132
7	None	ENSG00000228049	ENST00000358438	protein_coding	PUTATIVE	None	None	477	158	102306526	102312076	-1	None	None
7	None	ENSG00000228049	ENST00000333432	protein_coding	KNOWN	None	None	351	116	102281097	102312048	-1	None	None
7	None	ENSG00000228049	ENST00000591000	protein_coding	KNOWN	CCDS43627	None	348	115	102277474	102312068	-1	None	None
X	XK	ENSG00000047597	ENST00000378616	protein_coding	KNOWN	CCDS14241	12811	1335	444	37545012	37591383	1	None	XKR1, Kx, X1k
12	ATF1	ENSG00000123268	ENST00000552510	protein_coding	KNOWN	None	783	511	169	51157493	51207975	1	None	TREB36
12	ATF1	ENSG00000123268	ENST00000549612	nonsense_mediated_decay	KNOWN	None	783	234	77	51157861	51203258	1	None	TREB36
12	ATF1	ENSG00000123268	ENST00000262053	protein_coding	KNOWN	CCDS8803	783	816	271	51158075	51214905	1	None	TREB36
12	ATF1	ENSG00000123268	ENST00000551831	nonsense_mediated_decay	KNOWN	None	783	168	55	51158263	51213793	1	None	TREB36
12	ATF1	ENSG00000123268	ENST00000552487	protein_coding	KNOWN	None	783	600	199	51158292	51208151	1	None	TREB36
12	ATF1	ENSG00000123268	ENST00000539132	protein_coding	KNOWN	None	783	411	136	51158263	51213793	1	None	TREB36
2	PRKAG3	ENSG00000115592	ENST00000233944	nonsense_mediated_decay	KNOWN	CCDS2424	9387	1470	489	219687106	219696539	-1	None	None
2	PRKAG3	ENSG00000115592	ENST00000529249	protein_coding	KNOWN	CCDS2424	9387	1470	489	219688049	219696809	-1	None	None
2	PRKAG3	ENSG00000115592	ENST00000470307	nonsense_mediated_decay	KNOWN	None	9387	1062	353	219689086	219696526	-1	None	None
2	PRKAG3	ENSG00000115592	ENST00000490971	retained_intron	KNOWN	None	9387	None	None	219691358	219696526	-1	None	None
2	PRKAG3	ENSG00000115592	ENST00000430489	protein_coding	NOVEL	None	9387	300	99	219695022	219696524	-1	None	None
2	PRKAG3	ENSG00000115592	ENST00000439262	protein_coding	KNOWN	None	9387	1395	464	219687106	219696514	-1	None	None
2	PRKAG3	ENSG00000115592	ENST00000545803	protein_coding	KNOWN	None	9387	918	305	219687587	219696524	-1	None	None
2	PRKAG3	ENSG00000115592	ENST00000392098	protein_coding	KNOWN	None	9387	1062	353	219689262	219696526	-1	None	None
20	HAUS6P2	ENSG00000236121	ENST00000433254	processed_pseudogene	KNOWN	None	43765	None	None	29929174	29932274	-1	None	None
16	CHST4	ENSG00000140835	ENST00000338482	protein_coding	KNOWN	CCDS10902	1972	1161	386	71559136	71572649	1	None	HEC-GLCNAC-6-ST, LSST
16	CHST4	ENSG00000140835	ENST00000539698	protein_coding	KNOWN	CCDS10902	1972	1161	386	71560154	71572500	1	None	HEC-GLCNAC-6-ST, LSST
16	CHST4	ENSG00000140835	ENST00000572450	protein_coding	KNOWN	CCDS10902	1972	1161	386	71560023	71572491	1	None	HEC-GLCNAC-6-ST, LSST
5	EFCAB9	ENSG00000214360	ENST00000398186	protein_coding	KNOWN	CCDS54946	34530	594	197	171621176	171630456	1	None	None
5	UBTD2	ENSG00000168246	ENST00000393792	protein_coding	KNOWN	CCDS4379	24463	705	234	171636644	171711075	-1	None	DC-UbP, MGC30022
17	TADA2A	ENSG00000108264	ENST00000394395	protein_coding	KNOWN	CCDS11319	11531	1332	443	35766965	35839835	1	TADA2L	ADA2, hADA2, ADA2A
17	TADA2A	ENSG00000108264	ENST00000585341	retained_intron	KNOWN	None	11531	None	None	35766977	35798174	1	TADA2L	ADA2, hADA2, ADA2A
17	TADA2A	ENSG00000108264	ENST00000589153	protein_coding	NOVEL	None	11531	400	132	35766977	35802718	1	TADA2L	ADA2, hADA2, ADA2A
17	TADA2A	ENSG00000108264	ENST00000587420	nonsense_mediated_decay	KNOWN	None	11531	288	95	35766981	35825575	1	TADA2L	ADA2, hADA2, ADA2A
17	TADA2A	ENSG00000108264	ENST00000490992	nonsense_mediated_decay	KNOWN	CCDS11319	11531	1332	443	35766981	35838372	1	TADA2L	ADA2, hADA2, ADA2A
17	TADA2A	ENSG00000108264	ENST00000587211	retained_intron	KNOWN	None	11531	None	None	35766998	35798056	1	TADA2L	ADA2, hADA2, ADA2A
17	TADA2A	ENSG00000108264	ENST00000586023	protein_coding	KNOWN	CCDS45656	11531	918	305	35767030	35825757	1	TADA2L	ADA2, hADA2, ADA2A
17	TADA2A	ENSG00000108264	ENST00000225396	protein_coding	KNOWN	CCDS11319	11531	1332	443	35767311	35837333	1	TADA2L	ADA2, hADA2, ADA2A
17	TADA2A	ENSG00000108264	ENST00000590005	protein_coding	PUTATIVE	None	11531	170	55	35767335	35800680	1	TADA2L	ADA2, hADA2, ADA2A
17	TADA2A	ENSG00000108264	ENST00000590957	protein_coding	PUTATIVE	None	11531	583	193	35767401	35825645	1	TADA2L	ADA2, hADA2, ADA2A
17	TADA2A	ENSG00000108264	ENST00000589849	processed_transcript	PUTATIVE	None	11531	None	None	35783668	35786765	1	TADA2L	ADA2, hADA2, ADA2A
17	TADA2A	ENSG00000108264	ENST00000591992	processed_transcript	KNOWN	None	11531	None	None	35796488	35831213	1	TADA2L	ADA2, hADA2, ADA2A
17	TADA2A	ENSG00000108264	ENST00000587593	nonsense_mediated_decay	KNOWN	None	11531	253	83	35797838	35836955	1	TADA2L	ADA2, hADA2, ADA2A
17	TADA2A	ENSG00000108264	ENST00000591933	processed_transcript	KNOWN	None	11531	None	None	35810667	35837061	1	TADA2L	ADA2, hADA2, ADA2A
17	TADA2A	ENSG00000108264	ENST00000591335	retained_intron	KNOWN	None	11531	None	None	35821924	35830601	1	TADA2L	ADA2, hADA2, ADA2A
17	TADA2A	ENSG00000108264	ENST00000588405	processed_transcript	PUTATIVE	None	11531	None	None	35837524	35838547	1	TADA2L	ADA2, hADA2, ADA2A
17	TADA2A	ENSG00000108264	ENST00000417170	protein_coding	KNOWN	CCDS45656	11531	918	305	35767312	35825757	1	TADA2L	ADA2, hADA2, ADA2A
2	WNT6	ENSG00000115596	ENST00000233948	protein_coding	KNOWN	CCDS2425	12785	1098	365	219724544	219738955	1	None	None
2	WNT6	ENSG00000115596	ENST00000486233	processed_transcript	PUTATIVE	None	12785	None	None	219724688	219736461	1	None	None
11	PATL1	ENSG00000166889	ENST00000300146	protein_coding	KNOWN	CCDS44613	26721	2313	770	59404189	59436453	-1	None	FLJ36874, Pat1b
11	PATL1	ENSG00000166889	ENST00000531919	retained_intron	KNOWN	None	26721	None	None	59410147	59415359	-1	None	FLJ36874, Pat1b
20	RNA5SP480	ENSG00000252649	ENST00000516840	rRNA	KNOWN	None	43380	None	None	29944673	29944781	1	RN5S480	None
2	WNT10A	ENSG00000135925	ENST00000258411	protein_coding	KNOWN	CCDS2426	13829	1254	417	219745085	219758653	1	None	None
2	WNT10A	ENSG00000135925	ENST00000458582	protein_coding	NOVEL	None	13829	636	211	219746883	219757868	1	None	None
2	WNT10A	ENSG00000135925	ENST00000483911	processed_transcript	PUTATIVE	None	13829	None	None	219748572	219754821	1	None	None
2	WNT10A	ENSG00000135925	ENST00000489887	processed_transcript	PUTATIVE	None	13829	None	None	219757943	219764303	1	None	None
2	CDK5R2	ENSG00000171450	ENST00000302625	protein_coding	KNOWN	CCDS2427	1776	1104	367	219824377	219826876	1	None	p39nck5ai, P39, NCK5AI
2	FEV	ENSG00000163497	ENST00000295727	protein_coding	KNOWN	CCDS2428	18562	717	238	219845809	219850379	-1	None	Pet-1
2	FEV	ENSG00000163497	ENST00000470119	retained_intron	KNOWN	None	18562	None	None	219846680	219849197	-1	None	Pet-1
5	SH3PXD2B	ENSG00000174705	ENST00000519643	protein_coding	PUTATIVE	None	29242	1293	430	171752185	171881362	-1	KIAA1295	FLJ20831
5	SH3PXD2B	ENSG00000174705	ENST00000523651	processed_transcript	PUTATIVE	None	29242	None	None	171760503	171761239	-1	KIAA1295	FLJ20831
5	SH3PXD2B	ENSG00000174705	ENST00000518522	protein_coding	PUTATIVE	None	29242	245	80	171760503	171777390	-1	KIAA1295	FLJ20831
5	SH3PXD2B	ENSG00000174705	ENST00000311601	protein_coding	KNOWN	CCDS34291	29242	2736	911	171760503	171881527	-1	KIAA1295	FLJ20831
2	CRYBA2	ENSG00000163499	ENST00000392096	protein_coding	KNOWN	CCDS2429	2395	594	197	219854911	219858143	-1	None	None
2	CRYBA2	ENSG00000163499	ENST00000496566	retained_intron	KNOWN	None	2395	None	None	219854912	219855929	-1	None	None
2	CRYBA2	ENSG00000163499	ENST00000487181	processed_transcript	KNOWN	None	2395	None	None	219854912	219856218	-1	None	None
2	CRYBA2	ENSG00000163499	ENST00000295728	protein_coding	KNOWN	CCDS2429	2395	594	197	219854912	219858135	-1	None	None
2	CRYBA2	ENSG00000163499	ENST00000453769	protein_coding	KNOWN	None	2395	386	127	219855634	219858123	-1	None	None
2	CRYBA2	ENSG00000163499	ENST00000490678	retained_intron	KNOWN	None	2395	None	None	219856569	219857900	-1	None	None
11	DNAJB13	ENSG00000187726	ENST00000339764	protein_coding	KNOWN	CCDS8227	30718	951	316	73661364	73681332	1	None	TSARG6, RSPH16A
11	DNAJB13	ENSG00000187726	ENST00000535730	retained_intron	KNOWN	None	30718	None	None	73662071	73670916	1	None	TSARG6, RSPH16A
11	DNAJB13	ENSG00000187726	ENST00000537753	protein_coding	KNOWN	None	30718	426	141	73675873	73681275	1	None	TSARG6, RSPH16A
11	DNAJB13	ENSG00000187726	ENST00000542350	protein_coding	PUTATIVE	None	30718	652	216	73675888	73681283	1	None	TSARG6, RSPH16A
11	DNAJB13	ENSG00000187726	ENST00000543947	protein_coding	KNOWN	None	30718	426	141	73676281	73681411	1	None	TSARG6, RSPH16A
15	CDAN1	ENSG00000140326	ENST00000562465	nonsense_mediated_decay	KNOWN	None	1713	1044	347	43015757	43022962	-1	None	CDA-I, CDAI
15	CDAN1	ENSG00000140326	ENST00000563604	retained_intron	KNOWN	None	1713	None	None	43015760	43017835	-1	None	CDA-I, CDAI
15	CDAN1	ENSG00000140326	ENST00000356231	protein_coding	KNOWN	CCDS32209	1713	3684	1227	43015760	43029324	-1	None	CDA-I, CDAI
15	CDAN1	ENSG00000140326	ENST00000565930	retained_intron	KNOWN	None	1713	None	None	43017093	43017737	-1	None	CDA-I, CDAI
15	CDAN1	ENSG00000140326	ENST00000563260	protein_coding	PUTATIVE	None	1713	285	94	43028760	43029252	-1	None	CDA-I, CDAI
16	TAT	ENSG00000198650	ENST00000355962	protein_coding	KNOWN	CCDS10903	11573	1365	454	71599563	71611033	-1	None	None
16	TAT	ENSG00000198650	ENST00000564007	retained_intron	KNOWN	None	11573	None	None	71601892	71603837	-1	None	None
16	TAT	ENSG00000198650	ENST00000566094	retained_intron	KNOWN	None	11573	None	None	71608981	71610995	-1	None	None
16	TAT	ENSG00000198650	ENST00000566010	retained_intron	KNOWN	None	11573	None	None	71609306	71610995	-1	None	None
19	LRRC4B	ENSG00000131409	ENST00000599957	protein_coding	KNOWN	CCDS42595	25042	2142	713	51020149	51054299	-1	LRIG4	DKFZp761A179, HSM
19	LRRC4B	ENSG00000131409	ENST00000600381	protein_coding	KNOWN	None	25042	716	237	51022254	51071302	-1	LRIG4	DKFZp761A179, HSM
19	LRRC4B	ENSG00000131409	ENST00000389201	protein_coding	KNOWN	CCDS42595	25042	2142	713	51020149	51071302	-1	LRIG4	DKFZp761A179, HSM
12	TMPRSS12	ENSG00000186452	ENST00000551456	protein_coding	PUTATIVE	None	28779	963	320	51236703	51281667	1	None	MGC57341
12	TMPRSS12	ENSG00000186452	ENST00000398458	protein_coding	KNOWN	CCDS44881	28779	1047	348	51236716	51281667	1	None	MGC57341
7	H2AFV	ENSG00000105968	ENST00000222690	protein_coding	KNOWN	CCDS5495	20664	345	114	44866390	44887676	-1	H2AV	MGC10170, MGC10831, MGC1947
7	H2AFV	ENSG00000105968	ENST00000437072	protein_coding	NOVEL	None	20664	231	76	44869496	44887681	-1	H2AV	MGC10170, MGC10831, MGC1947
7	H2AFV	ENSG00000105968	ENST00000349299	protein_coding	KNOWN	CCDS5498	20664	273	90	44873827	44887620	-1	H2AV	MGC10170, MGC10831, MGC1947
7	H2AFV	ENSG00000105968	ENST00000308153	protein_coding	KNOWN	CCDS5496	20664	387	128	44873827	44887662	-1	H2AV	MGC10170, MGC10831, MGC1947
7	H2AFV	ENSG00000105968	ENST00000350771	protein_coding	KNOWN	CCDS5497	20664	309	102	44873827	44887675	-1	H2AV	MGC10170, MGC10831, MGC1947
7	H2AFV	ENSG00000105968	ENST00000381124	protein_coding	KNOWN	CCDS47581	20664	201	66	44873838	44887679	-1	H2AV	MGC10170, MGC10831, MGC1947
7	H2AFV	ENSG00000105968	ENST00000521529	protein_coding	NOVEL	None	20664	123	40	44873909	44887639	-1	H2AV	MGC10170, MGC10831, MGC1947
7	H2AFV	ENSG00000105968	ENST00000446531	protein_coding	PUTATIVE	None	20664	369	122	44874524	44887682	-1	H2AV	MGC10170, MGC10831, MGC1947
19	SYT3	ENSG00000213023	ENST00000595557	nonsense_mediated_decay	KNOWN	None	11511	240	79	51124564	51128547	-1	None	None
19	SYT3	ENSG00000213023	ENST00000338916	protein_coding	KNOWN	CCDS12798	11511	1773	590	51125234	51141302	-1	None	None
19	SYT3	ENSG00000213023	ENST00000600079	protein_coding	KNOWN	CCDS12798	11511	1773	590	51125234	51143075	-1	None	None
19	SYT3	ENSG00000213023	ENST00000593901	protein_coding	KNOWN	CCDS12798	11511	1773	590	51125234	51143084	-1	None	None
19	SYT3	ENSG00000213023	ENST00000595117	retained_intron	KNOWN	None	11511	None	None	51125677	51129391	-1	None	None
19	SYT3	ENSG00000213023	ENST00000598997	protein_coding	KNOWN	None	11511	289	95	51135928	51142563	-1	None	None
19	SYT3	ENSG00000213023	ENST00000544769	protein_coding	KNOWN	CCDS12798	11511	1773	590	51125236	51171651	-1	None	None
12	METTL7A	ENSG00000185432	ENST00000548553	protein_coding	KNOWN	CCDS8804	24550	735	244	51317255	51326293	1	None	DKFZP586A0522
12	METTL7A	ENSG00000185432	ENST00000550502	protein_coding	KNOWN	None	24550	540	179	51317788	51323738	1	None	DKFZP586A0522
12	METTL7A	ENSG00000185432	ENST00000547104	nonsense_mediated_decay	KNOWN	CCDS8804	24550	735	244	51318766	51326290	1	None	DKFZP586A0522
12	METTL7A	ENSG00000185432	ENST00000546513	nonsense_mediated_decay	KNOWN	CCDS8804	24550	735	244	51318769	51326288	1	None	DKFZP586A0522
12	METTL7A	ENSG00000185432	ENST00000550097	nonsense_mediated_decay	KNOWN	None	24550	733	243	51318824	51326221	1	None	DKFZP586A0522
12	METTL7A	ENSG00000185432	ENST00000332160	protein_coding	KNOWN	CCDS8804	24550	735	244	51318534	51326300	1	None	DKFZP586A0522
7	POLR2J2	ENSG00000267645	ENST00000476151	nonsense_mediated_decay	KNOWN	CCDS43627	23208	348	115	102277496	102312088	-1	None	RPB11b1
7	SPDYE2B	ENSG00000173678	ENST00000507450	protein_coding	NOVEL	CCDS59507	48334	1209	402	102290772	102301606	1	None	None
7	SPDYE2B	ENSG00000173678	ENST00000455020	protein_coding	KNOWN	None	48334	777	258	102295340	102301845	1	None	None
7	SPDYE2B	ENSG00000173678	ENST00000436228	protein_coding	KNOWN	CCDS59507	48334	1209	402	102292796	102301847	1	None	None
3	ZMYND10	ENSG00000004838	ENST00000490675	processed_transcript	KNOWN	None	19412	None	None	50378541	50379879	-1	None	BLU
3	ZMYND10	ENSG00000004838	ENST00000231749	protein_coding	KNOWN	CCDS2825	19412	1323	440	50378541	50384283	-1	None	BLU
3	ZMYND10	ENSG00000004838	ENST00000360165	protein_coding	KNOWN	None	19412	1308	435	50378545	50383163	-1	None	BLU
3	ZMYND10	ENSG00000004838	ENST00000475688	retained_intron	KNOWN	None	19412	None	None	50378546	50380599	-1	None	BLU
3	ZMYND10	ENSG00000004838	ENST00000442887	protein_coding	PUTATIVE	None	19412	848	281	50379468	50383152	-1	None	BLU
3	ZMYND10	ENSG00000004838	ENST00000443080	nonsense_mediated_decay	KNOWN	None	19412	114	37	50379953	50383103	-1	None	BLU
3	ZMYND10	ENSG00000004838	ENST00000478269	retained_intron	KNOWN	None	19412	None	None	50380600	50381467	-1	None	BLU
3	ZMYND10	ENSG00000004838	ENST00000431869	nonsense_mediated_decay	KNOWN	None	19412	114	37	50380832	50383152	-1	None	BLU
3	ZMYND10	ENSG00000004838	ENST00000468182	processed_transcript	PUTATIVE	None	19412	None	None	50382270	50383112	-1	None	BLU
2	CCDC108	ENSG00000181378	ENST00000341552	protein_coding	KNOWN	CCDS2430	25325	5778	1925	219867568	219906245	-1	None	DKFZp434O0527, MGC35338
2	CCDC108	ENSG00000181378	ENST00000413871	protein_coding	PUTATIVE	None	25325	383	126	219882978	219884426	-1	None	DKFZp434O0527, MGC35338
2	CCDC108	ENSG00000181378	ENST00000462848	retained_intron	KNOWN	None	25325	None	None	219891270	219906249	-1	None	DKFZp434O0527, MGC35338
2	CCDC108	ENSG00000181378	ENST00000474601	retained_intron	KNOWN	None	25325	None	None	219891272	219894523	-1	None	DKFZp434O0527, MGC35338
2	CCDC108	ENSG00000181378	ENST00000463683	retained_intron	KNOWN	None	25325	None	None	219891369	219903937	-1	None	DKFZp434O0527, MGC35338
2	CCDC108	ENSG00000181378	ENST00000409865	protein_coding	PUTATIVE	None	25325	2355	784	219891785	219906238	-1	None	DKFZp434O0527, MGC35338
2	CCDC108	ENSG00000181378	ENST00000410037	protein_coding	PUTATIVE	None	25325	2193	730	219891802	219906238	-1	None	DKFZp434O0527, MGC35338
2	CCDC108	ENSG00000181378	ENST00000457968	protein_coding	PUTATIVE	None	25325	703	233	219895828	219906238	-1	None	DKFZp434O0527, MGC35338
2	CCDC108	ENSG00000181378	ENST00000436631	protein_coding	PUTATIVE	None	25325	352	116	219897290	219906238	-1	None	DKFZp434O0527, MGC35338
2	CCDC108	ENSG00000181378	ENST00000295729	protein_coding	KNOWN	CCDS2431	25325	495	164	219898414	219906245	-1	None	DKFZp434O0527, MGC35338
2	CCDC108	ENSG00000181378	ENST00000458526	protein_coding	PUTATIVE	None	25325	343	113	219900206	219906226	-1	None	DKFZp434O0527, MGC35338
2	CCDC108	ENSG00000181378	ENST00000441968	protein_coding	KNOWN	CCDS2430	25325	5778	1925	219867576	219906245	-1	None	DKFZp434O0527, MGC35338
2	CCDC108	ENSG00000181378	ENST00000453220	protein_coding	KNOWN	CCDS2430	25325	5778	1925	219867576	219903779	-1	None	DKFZp434O0527, MGC35338
2	CCDC108	ENSG00000181378	ENST00000324264	protein_coding	KNOWN	CCDS2431	25325	495	164	219900054	219903937	-1	None	DKFZp434O0527, MGC35338
11	UCP2	ENSG00000175567	ENST00000310473	protein_coding	KNOWN	CCDS8228	12518	930	309	73685712	73694352	-1	None	SLC25A8
11	UCP2	ENSG00000175567	ENST00000536983	protein_coding	PUTATIVE	None	12518	678	225	73685754	73693875	-1	None	SLC25A8
11	UCP2	ENSG00000175567	ENST00000544615	protein_coding	NOVEL	None	12518	849	282	73685897	73689186	-1	None	SLC25A8
11	UCP2	ENSG00000175567	ENST00000545212	protein_coding	NOVEL	None	12518	389	128	73686575	73688051	-1	None	SLC25A8
11	UCP2	ENSG00000175567	ENST00000545562	retained_intron	KNOWN	None	12518	None	None	73687686	73688109	-1	None	SLC25A8
11	UCP2	ENSG00000175567	ENST00000543714	retained_intron	KNOWN	None	12518	None	None	73689236	73693888	-1	None	SLC25A8
11	UCP2	ENSG00000175567	ENST00000539764	protein_coding	KNOWN	None	12518	98	31	73689326	73691983	-1	None	SLC25A8
11	UCP2	ENSG00000175567	ENST00000542615	processed_transcript	PUTATIVE	None	12518	None	None	73689622	73693888	-1	None	SLC25A8
11	UCP2	ENSG00000175567	ENST00000541027	processed_transcript	KNOWN	None	12518	None	None	73689741	73693888	-1	None	SLC25A8
11	UCP2	ENSG00000175567	ENST00000539330	retained_intron	KNOWN	None	12518	None	None	73692193	73693888	-1	None	SLC25A8
5	None	ENSG00000268553	ENST00000601856	protein_coding	KNOWN	None	None	192	63	172036245	172036436	-1	None	None
6	AKIRIN2	ENSG00000135334	ENST00000257787	protein_coding	KNOWN	CCDS5013	21407	612	203	88384790	88411927	-1	C6orf166	FLJ10342, dJ486L4.2
2	IHH	ENSG00000163501	ENST00000295731	protein_coding	KNOWN	CCDS33380	5956	1236	411	219919146	219925189	-1	None	HHG2, BDA1
5	NEURL1B	ENSG00000214357	ENST00000520919	protein_coding	NOVEL	None	35422	948	315	172068269	172113928	1	None	DKFZP761M1511, Neur2
5	NEURL1B	ENSG00000214357	ENST00000522853	protein_coding	NOVEL	None	35422	1122	373	172068269	172113928	1	None	DKFZP761M1511, Neur2
5	NEURL1B	ENSG00000214357	ENST00000369800	protein_coding	KNOWN	CCDS47342	35422	1668	555	172068269	172118543	1	None	DKFZP761M1511, Neur2
7	FAM185A	ENSG00000222011	ENST00000481697	processed_transcript	KNOWN	None	22412	None	None	102389418	102420257	1	None	MGC35361
7	FAM185A	ENSG00000222011	ENST00000442873	nonsense_mediated_decay	KNOWN	None	22412	435	144	102389418	102449672	1	None	MGC35361
7	FAM185A	ENSG00000222011	ENST00000487807	processed_transcript	KNOWN	None	22412	None	None	102389425	102427817	1	None	MGC35361
7	FAM185A	ENSG00000222011	ENST00000420217	nonsense_mediated_decay	KNOWN	None	22412	216	71	102389457	102449671	1	None	MGC35361
7	FAM185A	ENSG00000222011	ENST00000409231	protein_coding	NOVEL	CCDS47677	22412	828	275	102389475	102449287	1	None	MGC35361
7	FAM185A	ENSG00000222011	ENST00000418198	protein_coding	PUTATIVE	None	22412	584	193	102389484	102398323	1	None	MGC35361
7	FAM185A	ENSG00000222011	ENST00000413034	protein_coding	KNOWN	CCDS47676	22412	1179	392	102389655	102448849	1	None	MGC35361
7	FAM185A	ENSG00000222011	ENST00000496790	processed_transcript	KNOWN	None	22412	None	None	102389889	102395846	1	None	MGC35361
12	HIGD1C	ENSG00000214511	ENST00000398455	protein_coding	KNOWN	CCDS44882	28044	294	97	51347705	51364289	1	None	Gm921
16	MARVELD3	ENSG00000140832	ENST00000567566	protein_coding	PUTATIVE	None	30525	660	219	71660064	71663583	1	MRVLDC3	None
16	MARVELD3	ENSG00000140832	ENST00000565261	protein_coding	PUTATIVE	CCDS59270	30525	447	148	71660087	71675165	1	MRVLDC3	None
16	MARVELD3	ENSG00000140832	ENST00000268485	protein_coding	KNOWN	CCDS10904	30525	1206	401	71660089	71670368	1	MRVLDC3	None
16	MARVELD3	ENSG00000140832	ENST00000299952	protein_coding	KNOWN	CCDS32478	30525	1233	410	71660090	71675868	1	MRVLDC3	None
16	MARVELD3	ENSG00000140832	ENST00000567501	protein_coding	PUTATIVE	None	30525	183	60	71662973	71668450	1	MRVLDC3	None
16	MARVELD3	ENSG00000140832	ENST00000561682	processed_transcript	KNOWN	None	30525	None	None	71671738	71676017	1	MRVLDC3	None
2	NHEJ1	ENSG00000187736	ENST00000409720	protein_coding	KNOWN	None	25737	951	316	219940039	220023084	-1	None	Cernunnos, XLF, FLJ12610
2	NHEJ1	ENSG00000187736	ENST00000356853	protein_coding	KNOWN	CCDS2432	25737	900	299	219940043	220025575	-1	None	Cernunnos, XLF, FLJ12610
2	NHEJ1	ENSG00000187736	ENST00000418099	nonsense_mediated_decay	KNOWN	None	25737	699	232	219940051	220025520	-1	None	Cernunnos, XLF, FLJ12610
2	NHEJ1	ENSG00000187736	ENST00000494211	processed_transcript	KNOWN	None	25737	None	None	219941014	219989486	-1	None	Cernunnos, XLF, FLJ12610
2	NHEJ1	ENSG00000187736	ENST00000426304	protein_coding	NOVEL	None	25737	675	224	219941025	220022343	-1	None	Cernunnos, XLF, FLJ12610
2	NHEJ1	ENSG00000187736	ENST00000491159	processed_transcript	KNOWN	None	25737	None	None	219941040	219990374	-1	None	Cernunnos, XLF, FLJ12610
2	NHEJ1	ENSG00000187736	ENST00000483627	processed_transcript	KNOWN	None	25737	None	None	219941100	219990382	-1	None	Cernunnos, XLF, FLJ12610
2	NHEJ1	ENSG00000187736	ENST00000457600	protein_coding	KNOWN	None	25737	688	228	219942829	220025277	-1	None	Cernunnos, XLF, FLJ12610
2	NHEJ1	ENSG00000187736	ENST00000450447	nonsense_mediated_decay	KNOWN	None	25737	153	50	220011429	220025587	-1	None	Cernunnos, XLF, FLJ12610
2	NHEJ1	ENSG00000187736	ENST00000481764	processed_transcript	PUTATIVE	None	25737	None	None	220023542	220025484	-1	None	Cernunnos, XLF, FLJ12610
3	COPG1	ENSG00000181789	ENST00000314797	protein_coding	KNOWN	CCDS33851	2236	2625	874	128968449	128996614	1	COPG	None
3	COPG1	ENSG00000181789	ENST00000513965	retained_intron	KNOWN	None	2236	None	None	128968470	128971941	1	COPG	None
3	COPG1	ENSG00000181789	ENST00000515725	retained_intron	KNOWN	None	2236	None	None	128968475	128996614	1	COPG	None
3	COPG1	ENSG00000181789	ENST00000504350	nonsense_mediated_decay	KNOWN	None	2236	150	49	128968496	128973883	1	COPG	None
3	COPG1	ENSG00000181789	ENST00000509208	retained_intron	KNOWN	None	2236	None	None	128973170	128973882	1	COPG	None
3	COPG1	ENSG00000181789	ENST00000504547	retained_intron	KNOWN	None	2236	None	None	128979070	128984518	1	COPG	None
3	COPG1	ENSG00000181789	ENST00000513410	retained_intron	KNOWN	None	2236	None	None	128982754	128986078	1	COPG	None
3	COPG1	ENSG00000181789	ENST00000509889	protein_coding	PUTATIVE	None	2236	566	187	128984595	128996300	1	COPG	None
3	COPG1	ENSG00000181789	ENST00000514478	nonsense_mediated_decay	KNOWN	None	2236	230	75	128991139	128996341	1	COPG	None
3	COPG1	ENSG00000181789	ENST00000512034	retained_intron	KNOWN	None	2236	None	None	128991696	128994026	1	COPG	None
X	CYBB	ENSG00000165168	ENST00000378588	protein_coding	KNOWN	CCDS14242	2578	1713	570	37639264	37672714	1	CGD	GP91-PHOX, NOX2
X	CYBB	ENSG00000165168	ENST00000492288	processed_transcript	KNOWN	None	2578	None	None	37657473	37663332	1	CGD	GP91-PHOX, NOX2
X	CYBB	ENSG00000165168	ENST00000545017	protein_coding	KNOWN	None	2578	1617	538	37639312	37670356	1	CGD	GP91-PHOX, NOX2
X	CYBB	ENSG00000165168	ENST00000536160	protein_coding	KNOWN	None	2578	912	303	37639317	37670388	1	CGD	GP91-PHOX, NOX2
2	SLC23A3	ENSG00000213901	ENST00000498327	retained_intron	KNOWN	None	20601	None	None	219940051	220035549	-1	None	SVCT3, FLJ31168, Yspl1
2	SLC23A3	ENSG00000213901	ENST00000318673	nonsense_mediated_decay	KNOWN	None	20601	312	103	219940695	220034709	-1	None	SVCT3, FLJ31168, Yspl1
2	SLC23A3	ENSG00000213901	ENST00000295738	protein_coding	KNOWN	CCDS42819	20601	1482	493	220026187	220034817	-1	None	SVCT3, FLJ31168, Yspl1
2	SLC23A3	ENSG00000213901	ENST00000409878	protein_coding	KNOWN	CCDS46518	20601	1833	610	220026487	220034739	-1	None	SVCT3, FLJ31168, Yspl1
2	SLC23A3	ENSG00000213901	ENST00000455516	protein_coding	KNOWN	CCDS46517	20601	1857	618	220026488	220034754	-1	None	SVCT3, FLJ31168, Yspl1
2	SLC23A3	ENSG00000213901	ENST00000497918	retained_intron	KNOWN	None	20601	None	None	220029300	220034779	-1	None	SVCT3, FLJ31168, Yspl1
2	SLC23A3	ENSG00000213901	ENST00000414999	nonsense_mediated_decay	KNOWN	None	20601	34	10	220032651	220034284	-1	None	SVCT3, FLJ31168, Yspl1
2	SLC23A3	ENSG00000213901	ENST00000409370	protein_coding	NOVEL	None	20601	779	258	220032936	220034712	-1	None	SVCT3, FLJ31168, Yspl1
2	SLC23A3	ENSG00000213901	ENST00000465580	retained_intron	KNOWN	None	20601	None	None	220033359	220034755	-1	None	SVCT3, FLJ31168, Yspl1
2	SLC23A3	ENSG00000213901	ENST00000430764	protein_coding	NOVEL	None	20601	539	178	220033374	220034726	-1	None	SVCT3, FLJ31168, Yspl1
2	SLC23A3	ENSG00000213901	ENST00000421779	nonsense_mediated_decay	KNOWN	None	20601	387	128	220033506	220034757	-1	None	SVCT3, FLJ31168, Yspl1
2	SLC23A3	ENSG00000213901	ENST00000461812	retained_intron	KNOWN	None	20601	None	None	220034077	220034751	-1	None	SVCT3, FLJ31168, Yspl1
2	SLC23A3	ENSG00000213901	ENST00000396775	protein_coding	KNOWN	None	20601	585	194	220026181	220034817	-1	None	SVCT3, FLJ31168, Yspl1
19	C19orf81	ENSG00000235034	ENST00000425202	protein_coding	KNOWN	CCDS54296	40041	597	198	51152702	51162562	1	None	None
19	C19orf81	ENSG00000235034	ENST00000458538	protein_coding	PUTATIVE	None	40041	472	156	51153045	51162352	1	None	None
19	C19orf81	ENSG00000235034	ENST00000490451	processed_transcript	KNOWN	None	40041	None	None	51161753	51162567	1	None	None
2	CNPPD1	ENSG00000115649	ENST00000360507	protein_coding	KNOWN	CCDS2433	25220	1233	410	220036619	220041688	-1	C2orf24	CGI-57
2	CNPPD1	ENSG00000115649	ENST00000409789	protein_coding	KNOWN	CCDS2433	25220	1233	410	220036896	220042828	-1	C2orf24	CGI-57
2	CNPPD1	ENSG00000115649	ENST00000453038	protein_coding	KNOWN	None	25220	925	307	220037616	220042035	-1	C2orf24	CGI-57
2	CNPPD1	ENSG00000115649	ENST00000451647	protein_coding	NOVEL	None	25220	849	282	220037773	220041620	-1	C2orf24	CGI-57
4	KCNIP4	ENSG00000185774	ENST00000382148	protein_coding	KNOWN	CCDS43217	30083	678	225	20730239	21699397	-1	None	CALP, KCHIP4, MGC44947
4	KCNIP4	ENSG00000185774	ENST00000447367	protein_coding	KNOWN	CCDS43215	30083	651	216	20730829	21950368	-1	None	CALP, KCHIP4, MGC44947
4	KCNIP4	ENSG00000185774	ENST00000382150	protein_coding	KNOWN	CCDS3428	30083	690	229	20730833	21305612	-1	None	CALP, KCHIP4, MGC44947
4	KCNIP4	ENSG00000185774	ENST00000382152	protein_coding	KNOWN	CCDS43216	30083	753	250	20730859	21950422	-1	None	CALP, KCHIP4, MGC44947
4	KCNIP4	ENSG00000185774	ENST00000509207	protein_coding	KNOWN	CCDS47035	30083	567	188	20731261	21546279	-1	None	CALP, KCHIP4, MGC44947
4	KCNIP4	ENSG00000185774	ENST00000382149	processed_transcript	KNOWN	None	30083	None	None	20731539	20985548	-1	None	CALP, KCHIP4, MGC44947
4	KCNIP4	ENSG00000185774	ENST00000515786	nonsense_mediated_decay	KNOWN	None	30083	105	34	20731705	21950254	-1	None	CALP, KCHIP4, MGC44947
4	KCNIP4	ENSG00000185774	ENST00000515373	retained_intron	KNOWN	None	30083	None	None	20851938	20884333	-1	None	CALP, KCHIP4, MGC44947
4	KCNIP4	ENSG00000185774	ENST00000512102	processed_transcript	KNOWN	None	30083	None	None	21731473	21857338	-1	None	CALP, KCHIP4, MGC44947
4	KCNIP4	ENSG00000185774	ENST00000359001	protein_coding	KNOWN	CCDS47035	30083	567	188	20731539	20985632	-1	None	CALP, KCHIP4, MGC44947
12	SLC11A2	ENSG00000110911	ENST00000551215	nonsense_mediated_decay	KNOWN	None	10908	380	125	51373184	51385992	-1	NRAMP2	DCT1, DMT1
12	SLC11A2	ENSG00000110911	ENST00000262051	protein_coding	KNOWN	CCDS53792	10908	1707	568	51373318	51420142	-1	NRAMP2	DCT1, DMT1
12	SLC11A2	ENSG00000110911	ENST00000546636	nonsense_mediated_decay	KNOWN	CCDS53792	10908	1707	568	51373603	51420151	-1	NRAMP2	DCT1, DMT1
12	SLC11A2	ENSG00000110911	ENST00000547198	protein_coding	KNOWN	CCDS53792	10908	1707	568	51374792	51420121	-1	NRAMP2	DCT1, DMT1
12	SLC11A2	ENSG00000110911	ENST00000262052	protein_coding	KNOWN	CCDS8805	10908	1686	561	51379775	51420167	-1	NRAMP2	DCT1, DMT1
12	SLC11A2	ENSG00000110911	ENST00000550782	retained_intron	KNOWN	None	10908	None	None	51379776	51388875	-1	NRAMP2	DCT1, DMT1
12	SLC11A2	ENSG00000110911	ENST00000547688	protein_coding	PUTATIVE	CCDS53793	10908	1773	590	51381722	51422349	-1	NRAMP2	DCT1, DMT1
12	SLC11A2	ENSG00000110911	ENST00000541174	protein_coding	KNOWN	CCDS8805	10908	1686	561	51381729	51419924	-1	NRAMP2	DCT1, DMT1
12	SLC11A2	ENSG00000110911	ENST00000545993	protein_coding	PUTATIVE	CCDS53791	10908	1674	557	51381956	51403032	-1	NRAMP2	DCT1, DMT1
12	SLC11A2	ENSG00000110911	ENST00000546743	protein_coding	PUTATIVE	None	10908	1449	482	51382103	51420183	-1	NRAMP2	DCT1, DMT1
12	SLC11A2	ENSG00000110911	ENST00000548554	retained_intron	KNOWN	None	10908	None	None	51384367	51385450	-1	NRAMP2	DCT1, DMT1
12	SLC11A2	ENSG00000110911	ENST00000551231	retained_intron	KNOWN	None	10908	None	None	51385382	51386927	-1	NRAMP2	DCT1, DMT1
12	SLC11A2	ENSG00000110911	ENST00000550061	retained_intron	KNOWN	None	10908	None	None	51389467	51393348	-1	NRAMP2	DCT1, DMT1
12	SLC11A2	ENSG00000110911	ENST00000547510	nonsense_mediated_decay	KNOWN	None	10908	222	73	51390654	51420176	-1	NRAMP2	DCT1, DMT1
12	SLC11A2	ENSG00000110911	ENST00000546488	protein_coding	NOVEL	None	10908	461	152	51390724	51420167	-1	NRAMP2	DCT1, DMT1
12	SLC11A2	ENSG00000110911	ENST00000547579	protein_coding	PUTATIVE	None	10908	450	149	51390744	51420174	-1	NRAMP2	DCT1, DMT1
12	SLC11A2	ENSG00000110911	ENST00000550714	protein_coding	NOVEL	None	10908	443	146	51393151	51420167	-1	NRAMP2	DCT1, DMT1
12	SLC11A2	ENSG00000110911	ENST00000547732	protein_coding	PUTATIVE	None	10908	294	97	51394101	51420146	-1	NRAMP2	DCT1, DMT1
12	SLC11A2	ENSG00000110911	ENST00000549110	protein_coding	PUTATIVE	None	10908	262	86	51394133	51399631	-1	NRAMP2	DCT1, DMT1
12	SLC11A2	ENSG00000110911	ENST00000548193	protein_coding	KNOWN	None	10908	447	148	51394185	51420167	-1	NRAMP2	DCT1, DMT1
12	SLC11A2	ENSG00000110911	ENST00000549625	nonsense_mediated_decay	KNOWN	None	10908	243	80	51399102	51420167	-1	NRAMP2	DCT1, DMT1
12	SLC11A2	ENSG00000110911	ENST00000549193	processed_transcript	KNOWN	None	10908	None	None	51399105	51402951	-1	NRAMP2	DCT1, DMT1
12	SLC11A2	ENSG00000110911	ENST00000550995	processed_transcript	KNOWN	None	10908	None	None	51399187	51420148	-1	NRAMP2	DCT1, DMT1
12	SLC11A2	ENSG00000110911	ENST00000550329	retained_intron	KNOWN	None	10908	None	None	51401928	51420162	-1	NRAMP2	DCT1, DMT1
12	SLC11A2	ENSG00000110911	ENST00000548150	protein_coding	KNOWN	None	10908	9	2	51404503	51418626	-1	NRAMP2	DCT1, DMT1
12	SLC11A2	ENSG00000110911	ENST00000394904	protein_coding	KNOWN	CCDS53793	10908	1773	590	51379775	51422058	-1	NRAMP2	DCT1, DMT1
2	FAM134A	ENSG00000144567	ENST00000458520	protein_coding	PUTATIVE	None	28450	502	166	220040947	220046842	1	C2orf17	MGC3035
2	FAM134A	ENSG00000144567	ENST00000443757	protein_coding	PUTATIVE	None	28450	16	4	220042645	220045473	1	C2orf17	MGC3035
2	FAM134A	ENSG00000144567	ENST00000430297	protein_coding	KNOWN	CCDS2434	28450	1632	543	220042939	220050201	1	C2orf17	MGC3035
2	FAM134A	ENSG00000144567	ENST00000273048	nonsense_mediated_decay	KNOWN	None	28450	537	178	220042949	220048214	1	C2orf17	MGC3035
2	FAM134A	ENSG00000144567	ENST00000452293	nonsense_mediated_decay	KNOWN	None	28450	309	102	220042999	220045476	1	C2orf17	MGC3035
2	FAM134A	ENSG00000144567	ENST00000430747	protein_coding	PUTATIVE	None	28450	15	4	220043436	220045472	1	C2orf17	MGC3035
2	FAM134A	ENSG00000144567	ENST00000452022	protein_coding	PUTATIVE	None	28450	282	93	220043449	220046385	1	C2orf17	MGC3035
2	FAM134A	ENSG00000144567	ENST00000465672	retained_intron	KNOWN	None	28450	None	None	220043708	220044961	1	C2orf17	MGC3035
2	FAM134A	ENSG00000144567	ENST00000481925	retained_intron	KNOWN	None	28450	None	None	220045390	220046415	1	C2orf17	MGC3035
2	FAM134A	ENSG00000144567	ENST00000420189	protein_coding	PUTATIVE	None	28450	610	202	220046400	220048522	1	C2orf17	MGC3035
19	SHANK1	ENSG00000161681	ENST00000391813	protein_coding	KNOWN	None	15474	4647	1548	51165084	51192661	-1	None	SSTRIP, SPANK-1, synamon
19	SHANK1	ENSG00000161681	ENST00000293441	protein_coding	KNOWN	CCDS12799	15474	6486	2161	51165084	51220195	-1	None	SSTRIP, SPANK-1, synamon
19	SHANK1	ENSG00000161681	ENST00000391814	protein_coding	KNOWN	None	15474	6510	2169	51165198	51222707	-1	None	SSTRIP, SPANK-1, synamon
19	SHANK1	ENSG00000161681	ENST00000359082	protein_coding	PUTATIVE	None	15474	6459	2152	51165222	51220176	-1	None	SSTRIP, SPANK-1, synamon
19	SHANK1	ENSG00000161681	ENST00000483981	processed_transcript	PUTATIVE	None	15474	None	None	51165591	51166426	-1	None	SSTRIP, SPANK-1, synamon
19	SHANK1	ENSG00000161681	ENST00000468654	nonsense_mediated_decay	KNOWN	None	15474	552	183	51165887	51169990	-1	None	SSTRIP, SPANK-1, synamon
19	SHANK1	ENSG00000161681	ENST00000461154	retained_intron	KNOWN	None	15474	None	None	51206956	51207763	-1	None	SSTRIP, SPANK-1, synamon
19	SHANK1	ENSG00000161681	ENST00000483128	retained_intron	KNOWN	None	15474	None	None	51214284	51217205	-1	None	SSTRIP, SPANK-1, synamon
5	DUSP1	ENSG00000120129	ENST00000239223	protein_coding	KNOWN	CCDS4380	3064	1104	367	172195093	172198198	-1	PTPN10	HVH1, CL100, MKP-1
11	OR10V1	ENSG00000172289	ENST00000307552	protein_coding	KNOWN	CCDS31565	15136	930	309	59480296	59481337	-1	None	None
2	ZFAND2B	ENSG00000158552	ENST00000436556	protein_coding	KNOWN	None	25206	150	49	220059959	220072143	1	None	AIRAPL
2	ZFAND2B	ENSG00000158552	ENST00000409206	protein_coding	KNOWN	None	25206	531	176	220071506	220073622	1	None	AIRAPL
2	ZFAND2B	ENSG00000158552	ENST00000409594	protein_coding	KNOWN	None	25206	531	176	220071515	220074369	1	None	AIRAPL
2	ZFAND2B	ENSG00000158552	ENST00000289528	protein_coding	KNOWN	CCDS2435	25206	774	257	220071515	220074373	1	None	AIRAPL
2	ZFAND2B	ENSG00000158552	ENST00000422255	protein_coding	PUTATIVE	None	25206	642	213	220071526	220073262	1	None	AIRAPL
2	ZFAND2B	ENSG00000158552	ENST00000476713	retained_intron	KNOWN	None	25206	None	None	220071529	220072498	1	None	AIRAPL
2	ZFAND2B	ENSG00000158552	ENST00000409412	protein_coding	PUTATIVE	None	25206	438	145	220071529	220072838	1	None	AIRAPL
2	ZFAND2B	ENSG00000158552	ENST00000409097	protein_coding	PUTATIVE	None	25206	678	225	220071529	220074328	1	None	AIRAPL
2	ZFAND2B	ENSG00000158552	ENST00000409336	protein_coding	KNOWN	CCDS2435	25206	774	257	220071531	220074140	1	None	AIRAPL
2	ZFAND2B	ENSG00000158552	ENST00000486734	retained_intron	KNOWN	None	25206	None	None	220071534	220073597	1	None	AIRAPL
2	ZFAND2B	ENSG00000158552	ENST00000409217	protein_coding	PUTATIVE	None	25206	675	224	220071537	220073418	1	None	AIRAPL
2	ZFAND2B	ENSG00000158552	ENST00000468301	processed_transcript	KNOWN	None	25206	None	None	220071570	220072725	1	None	AIRAPL
2	ZFAND2B	ENSG00000158552	ENST00000409319	protein_coding	PUTATIVE	None	25206	438	145	220071597	220072984	1	None	AIRAPL
2	ZFAND2B	ENSG00000158552	ENST00000489197	retained_intron	KNOWN	None	25206	None	None	220071602	220072740	1	None	AIRAPL
2	ZFAND2B	ENSG00000158552	ENST00000448496	nonsense_mediated_decay	KNOWN	None	25206	291	96	220071604	220073583	1	None	AIRAPL
2	ZFAND2B	ENSG00000158552	ENST00000464902	retained_intron	KNOWN	None	25206	None	None	220071807	220074369	1	None	AIRAPL
2	ZFAND2B	ENSG00000158552	ENST00000469596	processed_transcript	KNOWN	None	25206	None	None	220071940	220073335	1	None	AIRAPL
2	ZFAND2B	ENSG00000158552	ENST00000475533	retained_intron	KNOWN	None	25206	None	None	220071985	220074216	1	None	AIRAPL
2	ZFAND2B	ENSG00000158552	ENST00000425849	protein_coding	PUTATIVE	None	25206	458	151	220073180	220074370	1	None	AIRAPL
2	ZFAND2B	ENSG00000158552	ENST00000444522	protein_coding	KNOWN	None	25206	678	225	220071689	220074119	1	None	AIRAPL
11	STX3	ENSG00000166900	ENST00000337979	protein_coding	KNOWN	CCDS7975	11438	870	289	59522532	59570179	1	STX3A	None
11	STX3	ENSG00000166900	ENST00000533637	nonsense_mediated_decay	KNOWN	None	11438	132	43	59522849	59568435	1	STX3A	None
11	STX3	ENSG00000166900	ENST00000529177	protein_coding	KNOWN	CCDS53637	11438	834	277	59522925	59568958	1	STX3A	None
11	STX3	ENSG00000166900	ENST00000530498	retained_intron	KNOWN	None	11438	None	None	59522932	59556674	1	STX3A	None
11	STX3	ENSG00000166900	ENST00000528805	protein_coding	NOVEL	None	11438	615	204	59554540	59564839	1	STX3A	None
11	STX3	ENSG00000166900	ENST00000530221	protein_coding	KNOWN	None	11438	231	76	59560952	59567420	1	STX3A	None
11	STX3	ENSG00000166900	ENST00000535361	protein_coding	KNOWN	None	11438	759	252	59522532	59573354	1	STX3A	None
11	STX3	ENSG00000166900	ENST00000300150	protein_coding	KNOWN	None	11438	777	258	59480929	59570176	1	STX3A	None
11	STX3	ENSG00000166900	ENST00000437946	protein_coding	KNOWN	None	11438	543	180	59522849	59568435	1	STX3A	None
14	DHRS2	ENSG00000100867	ENST00000553896	processed_transcript	KNOWN	None	18349	None	None	24099324	24111647	1	None	HEP27, SDR25C1
14	DHRS2	ENSG00000100867	ENST00000432832	protein_coding	KNOWN	None	18349	675	224	24099324	24113752	1	None	HEP27, SDR25C1
14	DHRS2	ENSG00000100867	ENST00000250383	protein_coding	KNOWN	CCDS9604	18349	843	280	24105544	24114848	1	None	HEP27, SDR25C1
14	DHRS2	ENSG00000100867	ENST00000556701	retained_intron	KNOWN	None	18349	None	None	24105576	24114846	1	None	HEP27, SDR25C1
14	DHRS2	ENSG00000100867	ENST00000344777	protein_coding	KNOWN	CCDS41927	18349	903	300	24105582	24114848	1	None	HEP27, SDR25C1
14	DHRS2	ENSG00000100867	ENST00000556729	retained_intron	KNOWN	None	18349	None	None	24107241	24114848	1	None	HEP27, SDR25C1
14	DHRS2	ENSG00000100867	ENST00000557535	protein_coding	PUTATIVE	None	18349	541	179	24108502	24114848	1	None	HEP27, SDR25C1
14	DHRS2	ENSG00000100867	ENST00000553600	protein_coding	PUTATIVE	None	18349	486	161	24108548	24114504	1	None	HEP27, SDR25C1
14	DHRS2	ENSG00000100867	ENST00000556550	retained_intron	KNOWN	None	18349	None	None	24112254	24114848	1	None	HEP27, SDR25C1
6	SPACA1	ENSG00000118434	ENST00000237201	protein_coding	KNOWN	CCDS5014	14967	885	294	88757507	88776550	1	None	SAMP32
6	SPACA1	ENSG00000118434	ENST00000462690	processed_transcript	KNOWN	None	14967	None	None	88769171	88776550	1	None	SAMP32
6	SPACA1	ENSG00000118434	ENST00000462227	processed_transcript	KNOWN	None	14967	None	None	88769171	88776550	1	None	SAMP32
2	ABCB6	ENSG00000115657	ENST00000265316	protein_coding	KNOWN	CCDS2436	47	2529	842	220074490	220083712	-1	None	EST45597, umat, MTABC3
2	ABCB6	ENSG00000115657	ENST00000487380	retained_intron	KNOWN	None	47	None	None	220074494	220075761	-1	None	EST45597, umat, MTABC3
2	ABCB6	ENSG00000115657	ENST00000485773	retained_intron	KNOWN	None	47	None	None	220074494	220075830	-1	None	EST45597, umat, MTABC3
2	ABCB6	ENSG00000115657	ENST00000497882	retained_intron	KNOWN	None	47	None	None	220074494	220080607	-1	None	EST45597, umat, MTABC3
2	ABCB6	ENSG00000115657	ENST00000295750	protein_coding	NOVEL	None	47	2072	689	220074494	220083076	-1	None	EST45597, umat, MTABC3
2	ABCB6	ENSG00000115657	ENST00000443805	nonsense_mediated_decay	KNOWN	None	47	122	39	220074498	220075760	-1	None	EST45597, umat, MTABC3
2	ABCB6	ENSG00000115657	ENST00000492543	retained_intron	KNOWN	None	47	None	None	220075433	220078142	-1	None	EST45597, umat, MTABC3
2	ABCB6	ENSG00000115657	ENST00000448398	nonsense_mediated_decay	KNOWN	None	47	358	118	220077962	220083198	-1	None	EST45597, umat, MTABC3
2	ABCB6	ENSG00000115657	ENST00000494639	retained_intron	KNOWN	None	47	None	None	220078324	220079405	-1	None	EST45597, umat, MTABC3
2	ABCB6	ENSG00000115657	ENST00000496984	retained_intron	KNOWN	None	47	None	None	220078620	220080159	-1	None	EST45597, umat, MTABC3
2	ABCB6	ENSG00000115657	ENST00000492953	retained_intron	KNOWN	None	47	None	None	220078863	220081010	-1	None	EST45597, umat, MTABC3
2	ABCB6	ENSG00000115657	ENST00000417678	nonsense_mediated_decay	KNOWN	None	47	443	146	220078890	220083148	-1	None	EST45597, umat, MTABC3
2	ABCB6	ENSG00000115657	ENST00000452545	nonsense_mediated_decay	KNOWN	None	47	207	68	220079751	220082912	-1	None	EST45597, umat, MTABC3
2	ABCB6	ENSG00000115657	ENST00000439002	protein_coding	KNOWN	None	47	2391	796	220074494	220083672	-1	None	EST45597, umat, MTABC3
7	FBXL13	ENSG00000161040	ENST00000379305	protein_coding	KNOWN	None	21658	2124	707	102453677	102715280	-1	None	MGC21636, Fbl13
7	FBXL13	ENSG00000161040	ENST00000448002	nonsense_mediated_decay	KNOWN	None	21658	2055	684	102453677	102715286	-1	None	MGC21636, Fbl13
7	FBXL13	ENSG00000161040	ENST00000436908	protein_coding	KNOWN	CCDS5726	21658	2208	735	102453680	102690506	-1	None	MGC21636, Fbl13
7	FBXL13	ENSG00000161040	ENST00000313221	protein_coding	KNOWN	CCDS5726	21658	2208	735	102453680	102715015	-1	None	MGC21636, Fbl13
7	FBXL13	ENSG00000161040	ENST00000456695	protein_coding	KNOWN	None	21658	1362	453	102453680	102715172	-1	None	MGC21636, Fbl13
7	FBXL13	ENSG00000161040	ENST00000480422	processed_transcript	PUTATIVE	None	21658	None	None	102453685	102456718	-1	None	MGC21636, Fbl13
7	FBXL13	ENSG00000161040	ENST00000455112	protein_coding	KNOWN	CCDS47678	21658	2073	690	102453722	102715172	-1	None	MGC21636, Fbl13
7	FBXL13	ENSG00000161040	ENST00000477915	processed_transcript	KNOWN	None	21658	None	None	102524019	102613666	-1	None	MGC21636, Fbl13
7	FBXL13	ENSG00000161040	ENST00000468216	processed_transcript	PUTATIVE	None	21658	None	None	102566730	102574182	-1	None	MGC21636, Fbl13
7	FBXL13	ENSG00000161040	ENST00000471074	processed_transcript	KNOWN	None	21658	None	None	102603985	102715243	-1	None	MGC21636, Fbl13
7	FBXL13	ENSG00000161040	ENST00000440067	protein_coding	NOVEL	None	21658	631	209	102665644	102715258	-1	None	MGC21636, Fbl13
7	FBXL13	ENSG00000161040	ENST00000393772	protein_coding	KNOWN	None	21658	2124	707	102453308	102715015	-1	None	MGC21636, Fbl13
7	FBXL13	ENSG00000161040	ENST00000379308	protein_coding	KNOWN	CCDS47678	21658	2073	690	102453308	102715015	-1	None	MGC21636, Fbl13
7	FBXL13	ENSG00000161040	ENST00000379306	protein_coding	KNOWN	None	21658	1362	453	102453308	102715015	-1	None	MGC21636, Fbl13
16	PHLPP2	ENSG00000040199	ENST00000568004	nonsense_mediated_decay	KNOWN	None	29149	2172	723	71671738	71715757	-1	PHLPPL	KIAA0931
16	PHLPP2	ENSG00000040199	ENST00000564884	nonsense_mediated_decay	KNOWN	None	29149	959	318	71671739	71697874	-1	PHLPPL	KIAA0931
16	PHLPP2	ENSG00000040199	ENST00000568954	protein_coding	KNOWN	CCDS32479	29149	3972	1323	71678827	71758604	-1	PHLPPL	KIAA0931
16	PHLPP2	ENSG00000040199	ENST00000393524	protein_coding	PUTATIVE	None	29149	3771	1256	71678831	71749432	-1	PHLPPL	KIAA0931
16	PHLPP2	ENSG00000040199	ENST00000567016	protein_coding	PUTATIVE	None	29149	4077	1358	71682073	71757785	-1	PHLPPL	KIAA0931
16	PHLPP2	ENSG00000040199	ENST00000538126	retained_intron	KNOWN	None	29149	None	None	71710491	71757715	-1	PHLPPL	KIAA0931
16	PHLPP2	ENSG00000040199	ENST00000574977	retained_intron	KNOWN	None	29149	None	None	71712826	71718560	-1	PHLPPL	KIAA0931
16	PHLPP2	ENSG00000040199	ENST00000360429	protein_coding	KNOWN	None	29149	2871	956	71678705	71748704	-1	PHLPPL	KIAA0931
16	PHLPP2	ENSG00000040199	ENST00000540628	protein_coding	KNOWN	None	29149	501	166	71671739	71697874	-1	PHLPPL	KIAA0931
16	PHLPP2	ENSG00000040199	ENST00000356272	protein_coding	KNOWN	CCDS32479	29149	3972	1323	71678852	71748704	-1	PHLPPL	KIAA0931
11	UCP3	ENSG00000175564	ENST00000314032	protein_coding	KNOWN	CCDS8229	12519	939	312	73711326	73720480	-1	None	SLC25A9
11	UCP3	ENSG00000175564	ENST00000545271	processed_transcript	PUTATIVE	None	12519	None	None	73712523	73713299	-1	None	SLC25A9
11	UCP3	ENSG00000175564	ENST00000426995	protein_coding	KNOWN	CCDS44677	12519	828	275	73714493	73720130	-1	None	SLC25A9
11	UCP3	ENSG00000175564	ENST00000544614	protein_coding	KNOWN	None	12519	289	95	73717262	73718349	-1	None	SLC25A9
11	UCP3	ENSG00000175564	ENST00000348534	protein_coding	KNOWN	None	12519	633	210	73711333	73720282	-1	None	SLC25A9
5	ERGIC1	ENSG00000113719	ENST00000393784	protein_coding	KNOWN	CCDS34292	29205	873	290	172261278	172379688	1	None	ERGIC32, ERGIC-32, KIAA1181, NET24
5	ERGIC1	ENSG00000113719	ENST00000519860	processed_transcript	KNOWN	None	29205	None	None	172261322	172325588	1	None	ERGIC32, ERGIC-32, KIAA1181, NET24
5	ERGIC1	ENSG00000113719	ENST00000520326	protein_coding	PUTATIVE	None	29205	549	182	172261338	172342694	1	None	ERGIC32, ERGIC-32, KIAA1181, NET24
5	ERGIC1	ENSG00000113719	ENST00000520642	nonsense_mediated_decay	KNOWN	None	29205	168	55	172261388	172351064	1	None	ERGIC32, ERGIC-32, KIAA1181, NET24
5	ERGIC1	ENSG00000113719	ENST00000523291	protein_coding	PUTATIVE	None	29205	417	138	172261414	172347574	1	None	ERGIC32, ERGIC-32, KIAA1181, NET24
5	ERGIC1	ENSG00000113719	ENST00000518247	protein_coding	PUTATIVE	None	29205	316	104	172332220	172351083	1	None	ERGIC32, ERGIC-32, KIAA1181, NET24
5	ERGIC1	ENSG00000113719	ENST00000326654	protein_coding	PUTATIVE	None	29205	480	159	172332243	172345338	1	None	ERGIC32, ERGIC-32, KIAA1181, NET24
5	ERGIC1	ENSG00000113719	ENST00000519567	protein_coding	PUTATIVE	None	29205	501	166	172333063	172353566	1	None	ERGIC32, ERGIC-32, KIAA1181, NET24
5	ERGIC1	ENSG00000113719	ENST00000519796	nonsense_mediated_decay	KNOWN	None	29205	163	53	172336670	172359481	1	None	ERGIC32, ERGIC-32, KIAA1181, NET24
5	ERGIC1	ENSG00000113719	ENST00000523650	processed_transcript	KNOWN	None	29205	None	None	172347367	172359539	1	None	ERGIC32, ERGIC-32, KIAA1181, NET24
5	ERGIC1	ENSG00000113719	ENST00000521392	processed_transcript	KNOWN	None	29205	None	None	172349148	172359514	1	None	ERGIC32, ERGIC-32, KIAA1181, NET24
5	ERGIC1	ENSG00000113719	ENST00000523366	processed_transcript	KNOWN	None	29205	None	None	172351106	172354102	1	None	ERGIC32, ERGIC-32, KIAA1181, NET24
5	ERGIC1	ENSG00000113719	ENST00000520399	retained_intron	KNOWN	None	29205	None	None	172358096	172365010	1	None	ERGIC32, ERGIC-32, KIAA1181, NET24
5	ERGIC1	ENSG00000113719	ENST00000523215	retained_intron	KNOWN	None	29205	None	None	172360665	172379683	1	None	ERGIC32, ERGIC-32, KIAA1181, NET24
7	PURB	ENSG00000146676	ENST00000395699	protein_coding	KNOWN	CCDS5499	9702	939	312	44915896	44924960	-1	None	PURBETA
17	DUSP14	ENSG00000161326	ENST00000394389	protein_coding	KNOWN	CCDS11320	17007	597	198	35849937	35873603	1	None	MKP-L, MKP6
17	DUSP14	ENSG00000161326	ENST00000394386	protein_coding	KNOWN	CCDS11320	17007	597	198	35851570	35873589	1	None	MKP-L, MKP6
17	DUSP14	ENSG00000161326	ENST00000487847	protein_coding	KNOWN	CCDS11320	17007	597	198	35869981	35873603	1	None	MKP-L, MKP6
7	MYO1G	ENSG00000136286	ENST00000495831	nonsense_mediated_decay	KNOWN	None	13880	129	42	45002261	45018668	-1	None	HA-2
7	MYO1G	ENSG00000136286	ENST00000483585	retained_intron	KNOWN	None	13880	None	None	45002261	45018678	-1	None	HA-2
7	MYO1G	ENSG00000136286	ENST00000488554	retained_intron	KNOWN	None	13880	None	None	45002265	45014705	-1	None	HA-2
7	MYO1G	ENSG00000136286	ENST00000463516	retained_intron	KNOWN	None	13880	None	None	45002265	45014814	-1	None	HA-2
7	MYO1G	ENSG00000136286	ENST00000258787	protein_coding	KNOWN	CCDS34629	13880	3057	1018	45002265	45018697	-1	None	HA-2
7	MYO1G	ENSG00000136286	ENST00000480503	retained_intron	KNOWN	None	13880	None	None	45008122	45018599	-1	None	HA-2
7	MYO1G	ENSG00000136286	ENST00000464434	nonsense_mediated_decay	KNOWN	None	13880	633	210	45008122	45018687	-1	None	HA-2
15	FSIP1	ENSG00000150667	ENST00000350221	protein_coding	KNOWN	CCDS10050	21674	1746	581	39892232	40075031	-1	None	FLJ35989
15	FSIP1	ENSG00000150667	ENST00000559547	protein_coding	KNOWN	None	21674	47	14	39892450	39893127	-1	None	FLJ35989
15	FSIP1	ENSG00000150667	ENST00000559692	processed_transcript	KNOWN	None	21674	None	None	40031866	40039648	-1	None	FLJ35989
19	C19orf33	ENSG00000167644	ENST00000301246	protein_coding	KNOWN	CCDS12511	16668	321	106	38794801	38795649	1	None	IMUP-1, IMUP-2, H2RSP, IMUP
19	C19orf33	ENSG00000167644	ENST00000588605	protein_coding	KNOWN	None	16668	258	85	38794804	38795646	1	None	IMUP-1, IMUP-2, H2RSP, IMUP
19	C19orf33	ENSG00000167644	ENST00000589986	retained_intron	KNOWN	None	16668	None	None	38794891	38795643	1	None	IMUP-1, IMUP-2, H2RSP, IMUP
19	C19orf33	ENSG00000167644	ENST00000591852	retained_intron	KNOWN	None	16668	None	None	38794913	38795646	1	None	IMUP-1, IMUP-2, H2RSP, IMUP
2	ATG9A	ENSG00000198925	ENST00000446716	nonsense_mediated_decay	KNOWN	None	22408	766	254	220074494	220087460	-1	APG9L1	FLJ22169
2	ATG9A	ENSG00000198925	ENST00000409033	nonsense_mediated_decay	KNOWN	None	22408	1587	528	220084102	220094348	-1	APG9L1	FLJ22169
2	ATG9A	ENSG00000198925	ENST00000396761	protein_coding	KNOWN	CCDS42820	22408	2520	839	220084102	220094439	-1	APG9L1	FLJ22169
2	ATG9A	ENSG00000198925	ENST00000409618	protein_coding	KNOWN	CCDS42820	22408	2520	839	220084104	220094090	-1	APG9L1	FLJ22169
2	ATG9A	ENSG00000198925	ENST00000361242	protein_coding	KNOWN	CCDS42820	22408	2520	839	220084776	220094392	-1	APG9L1	FLJ22169
2	ATG9A	ENSG00000198925	ENST00000475339	retained_intron	KNOWN	None	22408	None	None	220084931	220086970	-1	APG9L1	FLJ22169
2	ATG9A	ENSG00000198925	ENST00000409422	protein_coding	KNOWN	None	22408	2337	778	220085169	220094351	-1	APG9L1	FLJ22169
2	ATG9A	ENSG00000198925	ENST00000429920	protein_coding	NOVEL	None	22408	733	243	220085996	220088686	-1	APG9L1	FLJ22169
2	ATG9A	ENSG00000198925	ENST00000431715	protein_coding	PUTATIVE	None	22408	400	132	220089405	220094361	-1	APG9L1	FLJ22169
2	ATG9A	ENSG00000198925	ENST00000436856	protein_coding	KNOWN	None	22408	563	186	220089530	220094340	-1	APG9L1	FLJ22169
2	ATG9A	ENSG00000198925	ENST00000457841	protein_coding	KNOWN	None	22408	516	171	220089793	220094361	-1	APG9L1	FLJ22169
2	ATG9A	ENSG00000198925	ENST00000428226	protein_coding	KNOWN	None	22408	509	168	220089800	220094340	-1	APG9L1	FLJ22169
2	ATG9A	ENSG00000198925	ENST00000412355	nonsense_mediated_decay	KNOWN	None	22408	297	98	220089868	220094358	-1	APG9L1	FLJ22169
2	ATG9A	ENSG00000198925	ENST00000432520	protein_coding	KNOWN	None	22408	434	143	220089875	220094064	-1	APG9L1	FLJ22169
2	ATG9A	ENSG00000198925	ENST00000439812	protein_coding	KNOWN	None	22408	393	130	220089916	220094361	-1	APG9L1	FLJ22169
2	ATG9A	ENSG00000198925	ENST00000456708	nonsense_mediated_decay	KNOWN	None	22408	297	98	220089918	220094361	-1	APG9L1	FLJ22169
2	ATG9A	ENSG00000198925	ENST00000466217	retained_intron	KNOWN	None	22408	None	None	220090054	220094316	-1	APG9L1	FLJ22169
2	ATG9A	ENSG00000198925	ENST00000486766	retained_intron	KNOWN	None	22408	None	None	220090137	220094328	-1	APG9L1	FLJ22169
2	ATG9A	ENSG00000198925	ENST00000455079	nonsense_mediated_decay	KNOWN	None	22408	297	98	220090137	220094361	-1	APG9L1	FLJ22169
2	ATG9A	ENSG00000198925	ENST00000443140	protein_coding	KNOWN	None	22408	291	96	220090216	220094047	-1	APG9L1	FLJ22169
2	ATG9A	ENSG00000198925	ENST00000434939	protein_coding	KNOWN	None	22408	279	92	220090228	220093415	-1	APG9L1	FLJ22169
2	ATG9A	ENSG00000198925	ENST00000488833	processed_transcript	KNOWN	None	22408	None	None	220091596	220094062	-1	APG9L1	FLJ22169
6	CNR1	ENSG00000118432	ENST00000369501	protein_coding	KNOWN	CCDS5015	2159	1419	472	88849583	88876078	-1	CNR	CB1K5, CB-R, CB1, CANN6, CB1A
6	CNR1	ENSG00000118432	ENST00000369499	protein_coding	KNOWN	CCDS5015	2159	1419	472	88849595	88874062	-1	CNR	CB1K5, CB-R, CB1, CANN6, CB1A
6	CNR1	ENSG00000118432	ENST00000549890	protein_coding	KNOWN	CCDS5015	2159	1419	472	88852963	88855084	-1	CNR	CB1K5, CB-R, CB1, CANN6, CB1A
6	CNR1	ENSG00000118432	ENST00000362094	protein_coding	PUTATIVE	None	2159	111	36	88853575	88854993	-1	CNR	CB1K5, CB-R, CB1, CANN6, CB1A
6	CNR1	ENSG00000118432	ENST00000468898	protein_coding	KNOWN	CCDS5016	2159	1320	439	88853575	88854993	-1	CNR	CB1K5, CB-R, CB1, CANN6, CB1A
6	CNR1	ENSG00000118432	ENST00000428600	protein_coding	KNOWN	CCDS5015	2159	1419	472	88853575	88872743	-1	CNR	CB1K5, CB-R, CB1, CANN6, CB1A
6	CNR1	ENSG00000118432	ENST00000551417	protein_coding	KNOWN	None	2159	234	77	88854760	88875634	-1	CNR	CB1K5, CB-R, CB1, CANN6, CB1A
6	CNR1	ENSG00000118432	ENST00000535130	protein_coding	KNOWN	CCDS5015	2159	1419	472	88849583	88875767	-1	CNR	CB1K5, CB-R, CB1, CANN6, CB1A
6	CNR1	ENSG00000118432	ENST00000537554	protein_coding	KNOWN	CCDS5015	2159	1419	472	88849583	88860882	-1	CNR	CB1K5, CB-R, CB1, CANN6, CB1A
6	CNR1	ENSG00000118432	ENST00000549716	protein_coding	KNOWN	None	2159	1236	411	88853575	88854977	-1	CNR	CB1K5, CB-R, CB1, CANN6, CB1A
20	DEFB117	ENSG00000212717	ENST00000602356	processed_pseudogene	KNOWN	None	18098	None	None	29948593	29948733	1	None	DEFB-17
20	DEFB117	ENSG00000212717	ENST00000391409	processed_pseudogene	KNOWN	None	18098	None	None	29948578	29948706	1	None	DEFB-17
17	PFAS	ENSG00000178921	ENST00000585183	protein_coding	KNOWN	None	8863	263	86	8150936	8157604	1	None	PURL, FGARAT, KIAA0361
17	PFAS	ENSG00000178921	ENST00000584044	protein_coding	KNOWN	None	8863	407	134	8152604	8158842	1	None	PURL, FGARAT, KIAA0361
17	PFAS	ENSG00000178921	ENST00000580356	nonsense_mediated_decay	KNOWN	None	8863	396	131	8152604	8172748	1	None	PURL, FGARAT, KIAA0361
17	PFAS	ENSG00000178921	ENST00000314666	protein_coding	KNOWN	CCDS11136	8863	4017	1338	8152604	8173803	1	None	PURL, FGARAT, KIAA0361
17	PFAS	ENSG00000178921	ENST00000581242	protein_coding	KNOWN	None	8863	310	102	8152660	8158376	1	None	PURL, FGARAT, KIAA0361
17	PFAS	ENSG00000178921	ENST00000585319	processed_transcript	KNOWN	None	8863	None	None	8165778	8167632	1	None	PURL, FGARAT, KIAA0361
17	PFAS	ENSG00000178921	ENST00000583059	protein_coding	NOVEL	None	8863	349	115	8166238	8167585	1	None	PURL, FGARAT, KIAA0361
17	PFAS	ENSG00000178921	ENST00000581288	retained_intron	KNOWN	None	8863	None	None	8166579	8167959	1	None	PURL, FGARAT, KIAA0361
17	PFAS	ENSG00000178921	ENST00000578979	nonsense_mediated_decay	KNOWN	None	8863	188	61	8169291	8170547	1	None	PURL, FGARAT, KIAA0361
17	PFAS	ENSG00000178921	ENST00000546020	protein_coding	PUTATIVE	None	8863	1157	384	8169324	8173809	1	None	PURL, FGARAT, KIAA0361
17	PFAS	ENSG00000178921	ENST00000580251	retained_intron	KNOWN	None	8863	None	None	8169590	8170547	1	None	PURL, FGARAT, KIAA0361
17	PFAS	ENSG00000178921	ENST00000545834	protein_coding	KNOWN	None	8863	2745	914	8152604	8172748	1	None	PURL, FGARAT, KIAA0361
17	SYNRG	ENSG00000006114	ENST00000339208	protein_coding	KNOWN	CCDS11321	557	3945	1314	35874900	35969544	-1	AP1GBP1	SYNG, MGC104959
17	SYNRG	ENSG00000006114	ENST00000590102	processed_transcript	PUTATIVE	None	557	None	None	35875548	35877445	-1	AP1GBP1	SYNG, MGC104959
17	SYNRG	ENSG00000006114	ENST00000345615	protein_coding	KNOWN	CCDS11322	557	3675	1224	35877933	35969459	-1	AP1GBP1	SYNG, MGC104959
17	SYNRG	ENSG00000006114	ENST00000502449	protein_coding	NOVEL	CCDS59285	557	3540	1179	35878564	35969434	-1	AP1GBP1	SYNG, MGC104959
17	SYNRG	ENSG00000006114	ENST00000394378	protein_coding	NOVEL	CCDS54114	557	3780	1259	35878990	35969429	-1	AP1GBP1	SYNG, MGC104959
17	SYNRG	ENSG00000006114	ENST00000585472	protein_coding	NOVEL	CCDS59284	557	3708	1235	35878990	35969429	-1	AP1GBP1	SYNG, MGC104959
17	SYNRG	ENSG00000006114	ENST00000591288	protein_coding	KNOWN	CCDS54113	557	3327	1108	35878990	35969429	-1	AP1GBP1	SYNG, MGC104959
17	SYNRG	ENSG00000006114	ENST00000508220	retained_intron	KNOWN	None	557	None	None	35879113	35897580	-1	AP1GBP1	SYNG, MGC104959
17	SYNRG	ENSG00000006114	ENST00000591427	protein_coding	NOVEL	None	557	709	235	35896188	35902488	-1	AP1GBP1	SYNG, MGC104959
17	SYNRG	ENSG00000006114	ENST00000421408	retained_intron	KNOWN	None	557	None	None	35900728	35936578	-1	AP1GBP1	SYNG, MGC104959
17	SYNRG	ENSG00000006114	ENST00000588194	processed_transcript	KNOWN	None	557	None	None	35913518	35939512	-1	AP1GBP1	SYNG, MGC104959
17	SYNRG	ENSG00000006114	ENST00000587040	processed_transcript	KNOWN	None	557	None	None	35914089	35929022	-1	AP1GBP1	SYNG, MGC104959
17	SYNRG	ENSG00000006114	ENST00000378189	retained_intron	KNOWN	None	557	None	None	35926951	35961035	-1	AP1GBP1	SYNG, MGC104959
17	SYNRG	ENSG00000006114	ENST00000394379	processed_transcript	KNOWN	None	557	None	None	35931932	35969486	-1	AP1GBP1	SYNG, MGC104959
17	SYNRG	ENSG00000006114	ENST00000427923	protein_coding	PUTATIVE	None	557	323	106	35944430	35945521	-1	AP1GBP1	SYNG, MGC104959
17	SYNRG	ENSG00000006114	ENST00000585689	protein_coding	PUTATIVE	None	557	376	124	35945450	35969520	-1	AP1GBP1	SYNG, MGC104959
17	SYNRG	ENSG00000006114	ENST00000346661	protein_coding	KNOWN	None	557	3909	1302	35874901	35969486	-1	AP1GBP1	SYNG, MGC104959
20	None	ENSG00000212134	ENST00000390832	snoRNA	NOVEL	None	None	None	None	29964122	29964249	1	None	None
X	ZMAT1	ENSG00000166432	ENST00000372782	protein_coding	KNOWN	CCDS35348	29377	1917	638	101137262	101186737	-1	None	KIAA1789
X	ZMAT1	ENSG00000166432	ENST00000494068	processed_transcript	KNOWN	None	29377	None	None	101137630	101145193	-1	None	KIAA1789
X	ZMAT1	ENSG00000166432	ENST00000488347	processed_transcript	KNOWN	None	29377	None	None	101138612	101187000	-1	None	KIAA1789
X	ZMAT1	ENSG00000166432	ENST00000490757	processed_transcript	KNOWN	None	29377	None	None	101139668	101142698	-1	None	KIAA1789
X	ZMAT1	ENSG00000166432	ENST00000540921	protein_coding	KNOWN	CCDS35348	29377	1917	638	101138032	101173606	-1	None	KIAA1789
X	ZMAT1	ENSG00000166432	ENST00000458570	protein_coding	KNOWN	None	29377	1404	467	101138032	101187004	-1	None	KIAA1789
2	ANKZF1	ENSG00000163516	ENST00000323348	protein_coding	KNOWN	CCDS42821	25527	2181	726	220094479	220101391	1	None	FLJ10415, ZNF744
2	ANKZF1	ENSG00000163516	ENST00000464763	retained_intron	KNOWN	None	25527	None	None	220094505	220095478	1	None	FLJ10415, ZNF744
2	ANKZF1	ENSG00000163516	ENST00000453432	protein_coding	PUTATIVE	None	25527	346	114	220094505	220097388	1	None	FLJ10415, ZNF744
2	ANKZF1	ENSG00000163516	ENST00000409849	protein_coding	PUTATIVE	None	25527	1551	516	220094509	220101391	1	None	FLJ10415, ZNF744
2	ANKZF1	ENSG00000163516	ENST00000475202	retained_intron	KNOWN	None	25527	None	None	220094528	220097692	1	None	FLJ10415, ZNF744
2	ANKZF1	ENSG00000163516	ENST00000474225	retained_intron	KNOWN	None	25527	None	None	220094528	220098185	1	None	FLJ10415, ZNF744
2	ANKZF1	ENSG00000163516	ENST00000467884	retained_intron	KNOWN	None	25527	None	None	220094528	220099071	1	None	FLJ10415, ZNF744
2	ANKZF1	ENSG00000163516	ENST00000461731	retained_intron	KNOWN	None	25527	None	None	220094528	220099415	1	None	FLJ10415, ZNF744
2	ANKZF1	ENSG00000163516	ENST00000477479	retained_intron	KNOWN	None	25527	None	None	220094549	220101340	1	None	FLJ10415, ZNF744
2	ANKZF1	ENSG00000163516	ENST00000496346	retained_intron	KNOWN	None	25527	None	None	220094557	220099394	1	None	FLJ10415, ZNF744
2	ANKZF1	ENSG00000163516	ENST00000435521	nonsense_mediated_decay	KNOWN	None	25527	162	53	220094560	220097838	1	None	FLJ10415, ZNF744
2	ANKZF1	ENSG00000163516	ENST00000463792	retained_intron	KNOWN	None	25527	None	None	220094560	220101373	1	None	FLJ10415, ZNF744
2	ANKZF1	ENSG00000163516	ENST00000486203	retained_intron	KNOWN	None	25527	None	None	220094569	220097756	1	None	FLJ10415, ZNF744
2	ANKZF1	ENSG00000163516	ENST00000416565	protein_coding	NOVEL	None	25527	179	58	220094607	220096735	1	None	FLJ10415, ZNF744
2	ANKZF1	ENSG00000163516	ENST00000410034	protein_coding	KNOWN	CCDS42821	25527	2181	726	220094610	220101371	1	None	FLJ10415, ZNF744
2	ANKZF1	ENSG00000163516	ENST00000447157	protein_coding	KNOWN	None	25527	422	139	220094618	220097269	1	None	FLJ10415, ZNF744
2	ANKZF1	ENSG00000163516	ENST00000436226	protein_coding	KNOWN	None	25527	272	89	220094681	220096992	1	None	FLJ10415, ZNF744
2	ANKZF1	ENSG00000163516	ENST00000491181	retained_intron	KNOWN	None	25527	None	None	220094958	220097503	1	None	FLJ10415, ZNF744
2	ANKZF1	ENSG00000163516	ENST00000465550	retained_intron	KNOWN	None	25527	None	None	220095347	220099444	1	None	FLJ10415, ZNF744
2	ANKZF1	ENSG00000163516	ENST00000489580	retained_intron	KNOWN	None	25527	None	None	220096566	220097481	1	None	FLJ10415, ZNF744
2	ANKZF1	ENSG00000163516	ENST00000493563	retained_intron	KNOWN	None	25527	None	None	220096904	220097601	1	None	FLJ10415, ZNF744
2	ANKZF1	ENSG00000163516	ENST00000490526	retained_intron	KNOWN	None	25527	None	None	220097035	220098166	1	None	FLJ10415, ZNF744
2	ANKZF1	ENSG00000163516	ENST00000494886	retained_intron	KNOWN	None	25527	None	None	220097620	220098488	1	None	FLJ10415, ZNF744
2	ANKZF1	ENSG00000163516	ENST00000468387	retained_intron	KNOWN	None	25527	None	None	220098389	220099138	1	None	FLJ10415, ZNF744
2	ANKZF1	ENSG00000163516	ENST00000483188	retained_intron	KNOWN	None	25527	None	None	220099873	220100523	1	None	FLJ10415, ZNF744
2	ANKZF1	ENSG00000163516	ENST00000460966	retained_intron	KNOWN	None	25527	None	None	220100367	220101373	1	None	FLJ10415, ZNF744
19	KCNK6	ENSG00000099337	ENST00000263372	protein_coding	KNOWN	CCDS12513	6281	942	313	38810484	38819660	1	None	K2p6.1, TWIK-2
19	KCNK6	ENSG00000099337	ENST00000588137	processed_transcript	KNOWN	None	6281	None	None	38810883	38816129	1	None	K2p6.1, TWIK-2
20	DEFB122	ENSG00000204547	ENST00000433453	processed_transcript	KNOWN	None	18102	None	None	30009239	30016983	-1	None	DEFB-22, DEFB122P
20	DEFB122	ENSG00000204547	ENST00000569013	transcribed_unprocessed_pseudogene	KNOWN	None	18102	None	None	30009333	30011670	-1	None	DEFB-22, DEFB122P
20	DEFB122	ENSG00000204547	ENST00000545884	unprocessed_pseudogene	KNOWN	None	18102	None	None	30009242	30011670	-1	None	DEFB-22, DEFB122P
19	CATSPERG	ENSG00000099338	ENST00000410018	protein_coding	NOVEL	None	25243	3360	1119	38826415	38861583	1	C19orf15	DKFZp434A1022, FLJ46353
19	CATSPERG	ENSG00000099338	ENST00000409235	protein_coding	KNOWN	CCDS12514	25243	3480	1159	38826415	38861583	1	C19orf15	DKFZp434A1022, FLJ46353
19	CATSPERG	ENSG00000099338	ENST00000312265	nonsense_mediated_decay	KNOWN	None	25243	879	292	38826458	38861583	1	C19orf15	DKFZp434A1022, FLJ46353
19	CATSPERG	ENSG00000099338	ENST00000471517	nonsense_mediated_decay	KNOWN	None	25243	480	159	38826473	38861582	1	C19orf15	DKFZp434A1022, FLJ46353
19	CATSPERG	ENSG00000099338	ENST00000475343	nonsense_mediated_decay	KNOWN	None	25243	411	136	38826489	38837243	1	C19orf15	DKFZp434A1022, FLJ46353
19	CATSPERG	ENSG00000099338	ENST00000409410	protein_coding	PUTATIVE	None	25243	1982	659	38826636	38852389	1	C19orf15	DKFZp434A1022, FLJ46353
19	CATSPERG	ENSG00000099338	ENST00000477793	retained_intron	KNOWN	None	25243	None	None	38827668	38828501	1	C19orf15	DKFZp434A1022, FLJ46353
19	CATSPERG	ENSG00000099338	ENST00000466060	processed_transcript	KNOWN	None	25243	None	None	38834268	38849200	1	C19orf15	DKFZp434A1022, FLJ46353
19	CATSPERG	ENSG00000099338	ENST00000412458	nonsense_mediated_decay	KNOWN	None	25243	498	165	38834307	38861255	1	C19orf15	DKFZp434A1022, FLJ46353
19	CATSPERG	ENSG00000099338	ENST00000475646	retained_intron	KNOWN	None	25243	None	None	38834389	38835016	1	C19orf15	DKFZp434A1022, FLJ46353
19	CATSPERG	ENSG00000099338	ENST00000488473	retained_intron	KNOWN	None	25243	None	None	38834467	38837269	1	C19orf15	DKFZp434A1022, FLJ46353
19	CATSPERG	ENSG00000099338	ENST00000467739	processed_transcript	KNOWN	None	25243	None	None	38837124	38840269	1	C19orf15	DKFZp434A1022, FLJ46353
19	CATSPERG	ENSG00000099338	ENST00000489693	protein_coding	NOVEL	None	25243	541	179	38843055	38851220	1	C19orf15	DKFZp434A1022, FLJ46353
19	CATSPERG	ENSG00000099338	ENST00000470292	retained_intron	KNOWN	None	25243	None	None	38848710	38850287	1	C19orf15	DKFZp434A1022, FLJ46353
19	CATSPERG	ENSG00000099338	ENST00000585424	retained_intron	KNOWN	None	25243	None	None	38849152	38850497	1	C19orf15	DKFZp434A1022, FLJ46353
19	CATSPERG	ENSG00000099338	ENST00000492088	retained_intron	KNOWN	None	25243	None	None	38855531	38861581	1	C19orf15	DKFZp434A1022, FLJ46353
19	CATSPERG	ENSG00000099338	ENST00000215069	protein_coding	KNOWN	None	25243	1554	517	38826783	38861589	1	C19orf15	DKFZp434A1022, FLJ46353
20	LINC00028	ENSG00000233354	ENST00000435497	lincRNA	KNOWN	None	16224	None	None	30073581	30075377	1	C20orf93, NCRNA00028	dJ1093G12.6
2	GLB1L	ENSG00000163521	ENST00000295759	protein_coding	KNOWN	CCDS2437	28129	1965	654	220101328	220110194	-1	None	MGC10771
2	GLB1L	ENSG00000163521	ENST00000497855	processed_transcript	KNOWN	None	28129	None	None	220101483	220104956	-1	None	MGC10771
2	GLB1L	ENSG00000163521	ENST00000409640	protein_coding	KNOWN	None	28129	1695	564	220101488	220108336	-1	None	MGC10771
2	GLB1L	ENSG00000163521	ENST00000392089	protein_coding	KNOWN	CCDS2437	28129	1965	654	220101493	220110200	-1	None	MGC10771
2	GLB1L	ENSG00000163521	ENST00000447002	nonsense_mediated_decay	KNOWN	None	28129	153	50	220104144	220108320	-1	None	MGC10771
2	GLB1L	ENSG00000163521	ENST00000440853	protein_coding	NOVEL	None	28129	556	184	220104605	220107906	-1	None	MGC10771
2	GLB1L	ENSG00000163521	ENST00000471516	retained_intron	KNOWN	None	28129	None	None	220104771	220107828	-1	None	MGC10771
2	GLB1L	ENSG00000163521	ENST00000459951	retained_intron	KNOWN	None	28129	None	None	220104876	220108094	-1	None	MGC10771
2	GLB1L	ENSG00000163521	ENST00000428427	protein_coding	KNOWN	None	28129	344	113	220107536	220110128	-1	None	MGC10771
2	GLB1L	ENSG00000163521	ENST00000467548	retained_intron	KNOWN	None	28129	None	None	220107565	220108320	-1	None	MGC10771
2	GLB1L	ENSG00000163521	ENST00000424620	protein_coding	KNOWN	None	28129	79	25	220108030	220110166	-1	None	MGC10771
2	GLB1L	ENSG00000163521	ENST00000432839	protein_coding	KNOWN	None	28129	27	8	220108269	220110163	-1	None	MGC10771
2	GLB1L	ENSG00000163521	ENST00000356283	protein_coding	KNOWN	None	28129	1695	564	220101505	220110131	-1	None	MGC10771
8	GTF2E2	ENSG00000197265	ENST00000355904	protein_coding	KNOWN	CCDS6078	4651	876	291	30435835	30515768	-1	None	TFIIE-B, FE, TF2E2
8	GTF2E2	ENSG00000197265	ENST00000522833	processed_transcript	KNOWN	None	4651	None	None	30442020	30469882	-1	None	TFIIE-B, FE, TF2E2
8	GTF2E2	ENSG00000197265	ENST00000523499	nonsense_mediated_decay	KNOWN	None	4651	222	73	30464574	30515549	-1	None	TFIIE-B, FE, TF2E2
8	GTF2E2	ENSG00000197265	ENST00000518599	protein_coding	KNOWN	None	4651	596	197	30464621	30514522	-1	None	TFIIE-B, FE, TF2E2
8	GTF2E2	ENSG00000197265	ENST00000518445	protein_coding	KNOWN	None	4651	378	125	30469987	30515135	-1	None	TFIIE-B, FE, TF2E2
11	C2CD3	ENSG00000168014	ENST00000442398	nonsense_mediated_decay	KNOWN	None	24564	2034	677	73723763	73796840	-1	None	DKFZP586P0123
11	C2CD3	ENSG00000168014	ENST00000542452	processed_transcript	KNOWN	None	24564	None	None	73724489	73744954	-1	None	DKFZP586P0123
11	C2CD3	ENSG00000168014	ENST00000538625	processed_transcript	PUTATIVE	None	24564	None	None	73744875	73753247	-1	None	DKFZP586P0123
11	C2CD3	ENSG00000168014	ENST00000540452	processed_transcript	PUTATIVE	None	24564	None	None	73745477	73753205	-1	None	DKFZP586P0123
11	C2CD3	ENSG00000168014	ENST00000313663	protein_coding	KNOWN	CCDS31636	24564	5892	1963	73745479	73882064	-1	None	DKFZP586P0123
11	C2CD3	ENSG00000168014	ENST00000414160	protein_coding	PUTATIVE	None	24564	2331	776	73745487	73801922	-1	None	DKFZP586P0123
11	C2CD3	ENSG00000168014	ENST00000538361	protein_coding	PUTATIVE	None	24564	514	170	73747173	73760442	-1	None	DKFZP586P0123
11	C2CD3	ENSG00000168014	ENST00000542484	processed_transcript	PUTATIVE	None	24564	None	None	73760564	73781914	-1	None	DKFZP586P0123
11	C2CD3	ENSG00000168014	ENST00000535645	processed_transcript	PUTATIVE	None	24564	None	None	73789230	73796644	-1	None	DKFZP586P0123
11	C2CD3	ENSG00000168014	ENST00000540057	retained_intron	KNOWN	None	24564	None	None	73796567	73802409	-1	None	DKFZP586P0123
11	C2CD3	ENSG00000168014	ENST00000537285	processed_transcript	KNOWN	None	24564	None	None	73811654	73821633	-1	None	DKFZP586P0123
11	C2CD3	ENSG00000168014	ENST00000366334	retained_intron	KNOWN	None	24564	None	None	73818921	73820537	-1	None	DKFZP586P0123
11	C2CD3	ENSG00000168014	ENST00000415191	retained_intron	KNOWN	None	24564	None	None	73824246	73882002	-1	None	DKFZP586P0123
11	C2CD3	ENSG00000168014	ENST00000539061	protein_coding	PUTATIVE	None	24564	1521	506	73839575	73882029	-1	None	DKFZP586P0123
11	C2CD3	ENSG00000168014	ENST00000436679	retained_intron	KNOWN	None	24564	None	None	73840219	73844675	-1	None	DKFZP586P0123
11	C2CD3	ENSG00000168014	ENST00000541922	processed_transcript	KNOWN	None	24564	None	None	73850863	73882043	-1	None	DKFZP586P0123
11	C2CD3	ENSG00000168014	ENST00000535954	protein_coding	PUTATIVE	None	24564	574	190	73872479	73882255	-1	None	DKFZP586P0123
11	C2CD3	ENSG00000168014	ENST00000544293	retained_intron	KNOWN	None	24564	None	None	73879059	73881913	-1	None	DKFZP586P0123
11	C2CD3	ENSG00000168014	ENST00000542930	retained_intron	KNOWN	None	24564	None	None	73879278	73882217	-1	None	DKFZP586P0123
11	C2CD3	ENSG00000168014	ENST00000334126	protein_coding	KNOWN	None	24564	7062	2353	73724430	73882064	-1	None	DKFZP586P0123
3	NPRL2	ENSG00000114388	ENST00000476064	retained_intron	KNOWN	None	24969	None	None	50384761	50388210	-1	TUSC4	NPR2L, NPR2
3	NPRL2	ENSG00000114388	ENST00000487632	retained_intron	KNOWN	None	24969	None	None	50384919	50388198	-1	TUSC4	NPR2L, NPR2
3	NPRL2	ENSG00000114388	ENST00000461020	retained_intron	KNOWN	None	24969	None	None	50384919	50388213	-1	TUSC4	NPR2L, NPR2
3	NPRL2	ENSG00000114388	ENST00000467294	retained_intron	KNOWN	None	24969	None	None	50384919	50388213	-1	TUSC4	NPR2L, NPR2
3	NPRL2	ENSG00000114388	ENST00000232501	protein_coding	KNOWN	CCDS2826	24969	1143	380	50384919	50388522	-1	TUSC4	NPR2L, NPR2
3	NPRL2	ENSG00000114388	ENST00000429366	nonsense_mediated_decay	KNOWN	None	24969	174	57	50384921	50388135	-1	TUSC4	NPR2L, NPR2
3	NPRL2	ENSG00000114388	ENST00000480296	retained_intron	KNOWN	None	24969	None	None	50384922	50387796	-1	TUSC4	NPR2L, NPR2
3	NPRL2	ENSG00000114388	ENST00000451194	nonsense_mediated_decay	KNOWN	None	24969	264	87	50384922	50388185	-1	TUSC4	NPR2L, NPR2
3	NPRL2	ENSG00000114388	ENST00000493465	processed_transcript	KNOWN	None	24969	None	None	50384925	50386217	-1	TUSC4	NPR2L, NPR2
3	NPRL2	ENSG00000114388	ENST00000479512	retained_intron	KNOWN	None	24969	None	None	50384930	50388197	-1	TUSC4	NPR2L, NPR2
3	NPRL2	ENSG00000114388	ENST00000433381	nonsense_mediated_decay	KNOWN	None	24969	264	87	50384949	50388212	-1	TUSC4	NPR2L, NPR2
3	NPRL2	ENSG00000114388	ENST00000418825	nonsense_mediated_decay	KNOWN	None	24969	264	87	50385577	50388212	-1	TUSC4	NPR2L, NPR2
3	NPRL2	ENSG00000114388	ENST00000433999	nonsense_mediated_decay	KNOWN	None	24969	174	57	50385592	50388176	-1	TUSC4	NPR2L, NPR2
3	NPRL2	ENSG00000114388	ENST00000492805	retained_intron	KNOWN	None	24969	None	None	50385684	50386560	-1	TUSC4	NPR2L, NPR2
3	NPRL2	ENSG00000114388	ENST00000448302	nonsense_mediated_decay	KNOWN	None	24969	264	87	50385747	50388212	-1	TUSC4	NPR2L, NPR2
3	NPRL2	ENSG00000114388	ENST00000469839	retained_intron	KNOWN	None	24969	None	None	50386587	50388206	-1	TUSC4	NPR2L, NPR2
3	NPRL2	ENSG00000114388	ENST00000493907	retained_intron	KNOWN	None	24969	None	None	50386866	50388252	-1	TUSC4	NPR2L, NPR2
2	STK16	ENSG00000115661	ENST00000409638	protein_coding	KNOWN	CCDS42822	11394	918	305	220110177	220115059	1	None	PKL12, MPSK
2	STK16	ENSG00000115661	ENST00000491697	retained_intron	KNOWN	None	11394	None	None	220110195	220111146	1	None	PKL12, MPSK
2	STK16	ENSG00000115661	ENST00000461417	retained_intron	KNOWN	None	11394	None	None	220110201	220111689	1	None	PKL12, MPSK
2	STK16	ENSG00000115661	ENST00000475696	retained_intron	KNOWN	None	11394	None	None	220110201	220112913	1	None	PKL12, MPSK
2	STK16	ENSG00000115661	ENST00000396738	protein_coding	KNOWN	CCDS42822	11394	918	305	220110201	220113614	1	None	PKL12, MPSK
2	STK16	ENSG00000115661	ENST00000409516	protein_coding	NOVEL	None	11394	564	187	220110205	220113468	1	None	PKL12, MPSK
2	STK16	ENSG00000115661	ENST00000496443	retained_intron	KNOWN	None	11394	None	None	220110229	220113626	1	None	PKL12, MPSK
2	STK16	ENSG00000115661	ENST00000496800	retained_intron	KNOWN	None	11394	None	None	220110232	220112548	1	None	PKL12, MPSK
2	STK16	ENSG00000115661	ENST00000475342	retained_intron	KNOWN	None	11394	None	None	220110280	220112353	1	None	PKL12, MPSK
2	STK16	ENSG00000115661	ENST00000409260	protein_coding	NOVEL	None	11394	1053	350	220110614	220113613	1	None	PKL12, MPSK
2	STK16	ENSG00000115661	ENST00000478018	retained_intron	KNOWN	None	11394	None	None	220110617	220113617	1	None	PKL12, MPSK
2	STK16	ENSG00000115661	ENST00000486813	processed_transcript	PUTATIVE	None	11394	None	None	220110618	220112256	1	None	PKL12, MPSK
2	STK16	ENSG00000115661	ENST00000409743	protein_coding	NOVEL	None	11394	822	273	220110618	220113424	1	None	PKL12, MPSK
12	None	ENSG00000269531	ENST00000598624	protein_coding	NOVEL	None	None	30	9	80198742	80202321	1	None	None
15	GPR176	ENSG00000166073	ENST00000299092	protein_coding	NOVEL	None	32370	1545	514	40091233	40212426	-1	None	Gm1012
15	GPR176	ENSG00000166073	ENST00000561100	protein_coding	KNOWN	CCDS10051	32370	1548	515	40092931	40213093	-1	None	Gm1012
15	GPR176	ENSG00000166073	ENST00000558041	processed_transcript	KNOWN	None	32370	None	None	40093828	40212152	-1	None	Gm1012
15	GPR176	ENSG00000166073	ENST00000560729	processed_transcript	KNOWN	None	32370	None	None	40094025	40186728	-1	None	Gm1012
15	GPR176	ENSG00000166073	ENST00000543580	protein_coding	KNOWN	None	32370	1413	470	40093150	40121477	-1	None	Gm1012
6	RNGTT	ENSG00000111880	ENST00000369485	protein_coding	KNOWN	CCDS5017	10073	1794	597	89319985	89673315	-1	None	HCE, HCE1, hCAP
6	RNGTT	ENSG00000111880	ENST00000369475	protein_coding	KNOWN	None	10073	1626	541	89387713	89673280	-1	None	HCE, HCE1, hCAP
6	RNGTT	ENSG00000111880	ENST00000265607	protein_coding	KNOWN	None	10073	1725	574	89319989	89673348	-1	None	HCE, HCE1, hCAP
6	RNGTT	ENSG00000111880	ENST00000538899	protein_coding	KNOWN	None	10073	1545	514	89322082	89673337	-1	None	HCE, HCE1, hCAP
2	TUBA4A	ENSG00000127824	ENST00000248437	protein_coding	KNOWN	CCDS2438	12407	1347	448	220114433	220118754	-1	TUBA1	FLJ30169, H2-ALPHA
2	TUBA4A	ENSG00000127824	ENST00000392088	protein_coding	PUTATIVE	None	12407	1302	433	220114433	220119330	-1	TUBA1	FLJ30169, H2-ALPHA
2	TUBA4A	ENSG00000127824	ENST00000498660	processed_transcript	KNOWN	None	12407	None	None	220115451	220118623	-1	TUBA1	FLJ30169, H2-ALPHA
2	TUBA4A	ENSG00000127824	ENST00000398989	protein_coding	PUTATIVE	None	12407	468	155	220115494	220142598	-1	TUBA1	FLJ30169, H2-ALPHA
2	TUBA4A	ENSG00000127824	ENST00000427737	protein_coding	PUTATIVE	None	12407	541	179	220115835	220142892	-1	TUBA1	FLJ30169, H2-ALPHA
2	TUBA4A	ENSG00000127824	ENST00000456818	protein_coding	PUTATIVE	None	12407	595	197	220115895	220117867	-1	TUBA1	FLJ30169, H2-ALPHA
2	TUBA4A	ENSG00000127824	ENST00000447205	protein_coding	PUTATIVE	None	12407	460	152	220115916	220118076	-1	TUBA1	FLJ30169, H2-ALPHA
2	TUBA4A	ENSG00000127824	ENST00000462806	retained_intron	KNOWN	None	12407	None	None	220115916	220118638	-1	TUBA1	FLJ30169, H2-ALPHA
2	TUBA4A	ENSG00000127824	ENST00000475683	retained_intron	KNOWN	None	12407	None	None	220116261	220118638	-1	TUBA1	FLJ30169, H2-ALPHA
2	TUBA4A	ENSG00000127824	ENST00000425551	protein_coding	PUTATIVE	None	12407	359	118	220116309	220117715	-1	TUBA1	FLJ30169, H2-ALPHA
5	RPL26L1	ENSG00000037241	ENST00000519974	protein_coding	KNOWN	CCDS4382	17050	438	145	172385732	172396719	1	RPL26P1	None
5	RPL26L1	ENSG00000037241	ENST00000521476	protein_coding	KNOWN	CCDS4382	17050	438	145	172385896	172396724	1	RPL26P1	None
5	RPL26L1	ENSG00000037241	ENST00000265100	protein_coding	KNOWN	CCDS4382	17050	438	145	172386427	172396774	1	RPL26P1	None
5	RPL26L1	ENSG00000037241	ENST00000519239	protein_coding	KNOWN	CCDS4382	17050	438	145	172386463	172396721	1	RPL26P1	None
5	RPL26L1	ENSG00000037241	ENST00000519522	protein_coding	KNOWN	None	17050	116	37	172386523	172386992	1	RPL26P1	None
5	RPL26L1	ENSG00000037241	ENST00000519156	protein_coding	KNOWN	None	17050	384	127	172386768	172396490	1	RPL26P1	None
12	OTOGL	ENSG00000165899	ENST00000547103	protein_coding	NOVEL	None	26901	6999	2332	80603233	80772855	1	C12orf64	FLJ90579
12	OTOGL	ENSG00000165899	ENST00000298820	protein_coding	NOVEL	None	26901	2258	751	80730292	80772859	1	C12orf64	FLJ90579
12	OTOGL	ENSG00000165899	ENST00000546620	protein_coding	NOVEL	None	26901	1092	363	80750134	80772870	1	C12orf64	FLJ90579
12	OTOGL	ENSG00000165899	ENST00000551340	nonsense_mediated_decay	KNOWN	None	26901	500	165	80750262	80772639	1	C12orf64	FLJ90579
12	OTOGL	ENSG00000165899	ENST00000550182	protein_coding	PUTATIVE	None	26901	801	266	80750652	80764618	1	C12orf64	FLJ90579
12	OTOGL	ENSG00000165899	ENST00000458043	protein_coding	KNOWN	None	26901	7035	2344	80603233	80772870	1	C12orf64	FLJ90579
11	MRPL16	ENSG00000166902	ENST00000300151	protein_coding	KNOWN	CCDS7976	14476	756	251	59573608	59578345	-1	None	FLJ20484, PNAS-111
11	MRPL16	ENSG00000166902	ENST00000534340	protein_coding	PUTATIVE	None	14476	259	85	59574008	59577773	-1	None	FLJ20484, PNAS-111
11	MRPL16	ENSG00000166902	ENST00000525470	retained_intron	KNOWN	None	14476	None	None	59574709	59577495	-1	None	FLJ20484, PNAS-111
11	MRPL16	ENSG00000166902	ENST00000531802	retained_intron	KNOWN	None	14476	None	None	59577007	59578246	-1	None	FLJ20484, PNAS-111
2	DNAJB2	ENSG00000135924	ENST00000336576	protein_coding	KNOWN	CCDS2439	5228	975	324	220143989	220151622	1	HSJ1	HSPF3
2	DNAJB2	ENSG00000135924	ENST00000425450	protein_coding	KNOWN	None	5228	684	227	220144064	220149418	1	HSJ1	HSPF3
2	DNAJB2	ENSG00000135924	ENST00000392086	protein_coding	KNOWN	CCDS46519	5228	834	277	220144066	220151620	1	HSJ1	HSPF3
2	DNAJB2	ENSG00000135924	ENST00000421532	protein_coding	NOVEL	None	5228	396	131	220144088	220146827	1	HSJ1	HSPF3
2	DNAJB2	ENSG00000135924	ENST00000480537	retained_intron	KNOWN	None	5228	None	None	220144089	220147382	1	HSJ1	HSPF3
2	DNAJB2	ENSG00000135924	ENST00000477917	retained_intron	KNOWN	None	5228	None	None	220144089	220151617	1	HSJ1	HSPF3
2	DNAJB2	ENSG00000135924	ENST00000482988	retained_intron	KNOWN	None	5228	None	None	220144091	220144892	1	HSJ1	HSPF3
2	DNAJB2	ENSG00000135924	ENST00000392087	protein_coding	NOVEL	None	5228	733	243	220144187	220149560	1	HSJ1	HSPF3
2	DNAJB2	ENSG00000135924	ENST00000442681	protein_coding	KNOWN	None	5228	368	121	220144238	220147574	1	HSJ1	HSPF3
2	DNAJB2	ENSG00000135924	ENST00000439026	protein_coding	KNOWN	None	5228	445	147	220144239	220147651	1	HSJ1	HSPF3
2	DNAJB2	ENSG00000135924	ENST00000481815	retained_intron	KNOWN	None	5228	None	None	220144310	220145415	1	HSJ1	HSPF3
2	DNAJB2	ENSG00000135924	ENST00000485220	retained_intron	KNOWN	None	5228	None	None	220144628	220146095	1	HSJ1	HSPF3
2	DNAJB2	ENSG00000135924	ENST00000463463	processed_transcript	KNOWN	None	5228	None	None	220144642	220149550	1	HSJ1	HSPF3
2	DNAJB2	ENSG00000135924	ENST00000487855	processed_transcript	KNOWN	None	5228	None	None	220145335	220147387	1	HSJ1	HSPF3
2	DNAJB2	ENSG00000135924	ENST00000473750	retained_intron	KNOWN	None	5228	None	None	220147420	220149918	1	HSJ1	HSPF3
2	DNAJB2	ENSG00000135924	ENST00000472019	retained_intron	KNOWN	None	5228	None	None	220147464	220151561	1	HSJ1	HSPF3
2	DNAJB2	ENSG00000135924	ENST00000476254	retained_intron	KNOWN	None	5228	None	None	220147786	220149596	1	HSJ1	HSPF3
2	DNAJB2	ENSG00000135924	ENST00000470530	processed_transcript	PUTATIVE	None	5228	None	None	220149985	220150922	1	HSJ1	HSPF3
11	GIF	ENSG00000134812	ENST00000257248	protein_coding	KNOWN	CCDS7977	4268	1254	417	59596741	59612974	-1	None	TCN3, IF, IFMH, INF
11	GIF	ENSG00000134812	ENST00000525058	nonsense_mediated_decay	KNOWN	None	4268	147	48	59596748	59612972	-1	None	TCN3, IF, IFMH, INF
11	GIF	ENSG00000134812	ENST00000533067	retained_intron	KNOWN	None	4268	None	None	59599004	59603400	-1	None	TCN3, IF, IFMH, INF
11	GIF	ENSG00000134812	ENST00000533847	retained_intron	KNOWN	None	4268	None	None	59603261	59608794	-1	None	TCN3, IF, IFMH, INF
11	GIF	ENSG00000134812	ENST00000532070	retained_intron	KNOWN	None	4268	None	None	59609940	59612972	-1	None	TCN3, IF, IFMH, INF
11	GIF	ENSG00000134812	ENST00000541311	protein_coding	KNOWN	None	4268	1179	392	59596748	59612972	-1	None	TCN3, IF, IFMH, INF
8	SMIM18	ENSG00000253457	ENST00000517349	protein_coding	PUTATIVE	CCDS56529	42973	288	95	30496117	30503581	1	None	None
20	None	ENSG00000101898	ENST00000394552	processed_pseudogene	KNOWN	None	None	None	None	30135307	30135852	1	None	None
5	ATP6V0E1	ENSG00000113732	ENST00000519374	protein_coding	KNOWN	CCDS4383	863	246	81	172410760	172462448	1	ATP6H, ATP6V0E	M9.2
5	ATP6V0E1	ENSG00000113732	ENST00000519911	protein_coding	PUTATIVE	None	863	177	58	172410784	172461887	1	ATP6H, ATP6V0E	M9.2
5	ATP6V0E1	ENSG00000113732	ENST00000265093	protein_coding	NOVEL	None	863	198	65	172410819	172461895	1	ATP6H, ATP6V0E	M9.2
5	ATP6V0E1	ENSG00000113732	ENST00000517669	protein_coding	KNOWN	CCDS4383	863	246	81	172410834	172447560	1	ATP6H, ATP6V0E	M9.2
20	HM13-IT1	ENSG00000235313	ENST00000421894	sense_intronic	KNOWN	None	41424	None	None	30150969	30151879	1	None	None
20	HM13-AS1	ENSG00000230613	ENST00000412178	antisense	KNOWN	None	41940	None	None	30155510	30161066	-1	None	None
20	RNU6-384P	ENSG00000201770	ENST00000364900	snRNA	KNOWN	None	47347	None	None	30168892	30168995	1	None	None
15	APH1B	ENSG00000138613	ENST00000560890	protein_coding	PUTATIVE	None	24080	566	187	63568217	63597934	1	None	PSFL, APH-1B, DKFZp564D0372
15	APH1B	ENSG00000138613	ENST00000559744	processed_transcript	KNOWN	None	24080	None	None	63568233	63569051	1	None	PSFL, APH-1B, DKFZp564D0372
15	APH1B	ENSG00000138613	ENST00000261879	protein_coding	KNOWN	CCDS10184	24080	774	257	63569753	63601325	1	None	PSFL, APH-1B, DKFZp564D0372
15	APH1B	ENSG00000138613	ENST00000380343	protein_coding	KNOWN	CCDS45276	24080	651	216	63569809	63598000	1	None	PSFL, APH-1B, DKFZp564D0372
15	APH1B	ENSG00000138613	ENST00000380340	nonsense_mediated_decay	KNOWN	None	24080	246	81	63569809	63598000	1	None	PSFL, APH-1B, DKFZp564D0372
15	APH1B	ENSG00000138613	ENST00000560353	protein_coding	PUTATIVE	None	24080	666	221	63569817	63598000	1	None	PSFL, APH-1B, DKFZp564D0372
15	APH1B	ENSG00000138613	ENST00000559971	nonsense_mediated_decay	KNOWN	None	24080	60	19	63569880	63598525	1	None	PSFL, APH-1B, DKFZp564D0372
15	APH1B	ENSG00000138613	ENST00000558631	retained_intron	KNOWN	None	24080	None	None	63579380	63594692	1	None	PSFL, APH-1B, DKFZp564D0372
15	APH1B	ENSG00000138613	ENST00000559823	processed_transcript	KNOWN	None	24080	None	None	63579415	63598109	1	None	PSFL, APH-1B, DKFZp564D0372
15	APH1B	ENSG00000138613	ENST00000560716	processed_transcript	KNOWN	None	24080	None	None	63583885	63598103	1	None	PSFL, APH-1B, DKFZp564D0372
20	MIR3193	ENSG00000264395	ENST00000578262	miRNA	KNOWN	None	38204	None	None	30194989	30195043	1	None	hsa-mir-3193
20	None	ENSG00000236559	ENST00000412972	antisense	KNOWN	None	None	None	None	30274019	30304628	1	None	None
20	None	ENSG00000230801	ENST00000428124	processed_pseudogene	KNOWN	None	None	None	None	30396306	30396552	-1	None	None
2	PTPRN	ENSG00000054356	ENST00000409251	protein_coding	NOVEL	CCDS56168	9676	2853	950	220154345	220174220	-1	None	IA-2
2	PTPRN	ENSG00000054356	ENST00000295718	protein_coding	KNOWN	CCDS2440	9676	2940	979	220154345	220174295	-1	None	IA-2
2	PTPRN	ENSG00000054356	ENST00000460801	retained_intron	KNOWN	None	9676	None	None	220154347	220157618	-1	None	IA-2
2	PTPRN	ENSG00000054356	ENST00000462351	retained_intron	KNOWN	None	9676	None	None	220154347	220172919	-1	None	IA-2
2	PTPRN	ENSG00000054356	ENST00000443981	protein_coding	PUTATIVE	None	9676	413	136	220154371	220161063	-1	None	IA-2
2	PTPRN	ENSG00000054356	ENST00000423636	protein_coding	KNOWN	CCDS56167	9676	2670	889	220154563	220173706	-1	None	IA-2
2	PTPRN	ENSG00000054356	ENST00000497977	processed_transcript	KNOWN	None	9676	None	None	220154774	220161480	-1	None	IA-2
2	PTPRN	ENSG00000054356	ENST00000486480	retained_intron	KNOWN	None	9676	None	None	220162145	220164294	-1	None	IA-2
2	PTPRN	ENSG00000054356	ENST00000489650	retained_intron	KNOWN	None	9676	None	None	220162701	220164214	-1	None	IA-2
2	PTPRN	ENSG00000054356	ENST00000412847	protein_coding	PUTATIVE	None	9676	376	124	220167207	220173731	-1	None	IA-2
2	PTPRN	ENSG00000054356	ENST00000446182	protein_coding	PUTATIVE	None	9676	374	123	220167209	220174370	-1	None	IA-2
2	PTPRN	ENSG00000054356	ENST00000440552	protein_coding	PUTATIVE	None	9676	498	165	220167340	220173895	-1	None	IA-2
2	PTPRN	ENSG00000054356	ENST00000476930	retained_intron	KNOWN	None	9676	None	None	220167385	220168863	-1	None	IA-2
2	PTPRN	ENSG00000054356	ENST00000442029	protein_coding	PUTATIVE	None	9676	260	85	220167407	220173729	-1	None	IA-2
2	PTPRN	ENSG00000054356	ENST00000451506	protein_coding	PUTATIVE	None	9676	201	66	220167466	220174260	-1	None	IA-2
2	PTPRN	ENSG00000054356	ENST00000606213	nonsense_mediated_decay	KNOWN	None	9676	159	52	220167490	220174103	-1	None	IA-2
2	PTPRN	ENSG00000054356	ENST00000468454	processed_transcript	KNOWN	None	9676	None	None	220171740	220173645	-1	None	IA-2
2	PTPRN	ENSG00000054356	ENST00000484986	retained_intron	KNOWN	None	9676	None	None	220172205	220174124	-1	None	IA-2
2	PTPRN	ENSG00000054356	ENST00000477819	retained_intron	KNOWN	None	9676	None	None	220172250	220173062	-1	None	IA-2
20	RNU1-94P	ENSG00000199497	ENST00000362627	snRNA	KNOWN	None	48436	None	None	30489057	30489229	1	None	None
16	AP1G1	ENSG00000166747	ENST00000299980	protein_coding	KNOWN	CCDS32480	555	2469	822	71762913	71843104	-1	CLAPG1, ADTG	None
16	AP1G1	ENSG00000166747	ENST00000564155	protein_coding	PUTATIVE	None	555	744	247	71765786	71781299	-1	CLAPG1, ADTG	None
16	AP1G1	ENSG00000166747	ENST00000569748	protein_coding	KNOWN	CCDS32480	555	2469	822	71765786	71843006	-1	CLAPG1, ADTG	None
16	AP1G1	ENSG00000166747	ENST00000570052	retained_intron	KNOWN	None	555	None	None	71766288	71768502	-1	CLAPG1, ADTG	None
16	AP1G1	ENSG00000166747	ENST00000393512	protein_coding	KNOWN	CCDS45522	555	2478	825	71766288	71843104	-1	CLAPG1, ADTG	None
16	AP1G1	ENSG00000166747	ENST00000565009	nonsense_mediated_decay	KNOWN	None	555	627	208	71772845	71842885	-1	CLAPG1, ADTG	None
16	AP1G1	ENSG00000166747	ENST00000565642	retained_intron	KNOWN	None	555	None	None	71776185	71805102	-1	CLAPG1, ADTG	None
16	AP1G1	ENSG00000166747	ENST00000562934	processed_transcript	KNOWN	None	555	None	None	71782171	71785240	-1	CLAPG1, ADTG	None
16	AP1G1	ENSG00000166747	ENST00000568327	nonsense_mediated_decay	KNOWN	None	555	711	236	71783822	71842737	-1	CLAPG1, ADTG	None
16	AP1G1	ENSG00000166747	ENST00000566179	nonsense_mediated_decay	KNOWN	None	555	177	58	71784113	71798578	-1	CLAPG1, ADTG	None
16	AP1G1	ENSG00000166747	ENST00000569044	retained_intron	KNOWN	None	555	None	None	71787473	71789958	-1	CLAPG1, ADTG	None
16	AP1G1	ENSG00000166747	ENST00000450149	nonsense_mediated_decay	KNOWN	None	555	531	176	71792800	71842735	-1	CLAPG1, ADTG	None
16	AP1G1	ENSG00000166747	ENST00000563259	protein_coding	KNOWN	None	555	561	186	71805063	71842197	-1	CLAPG1, ADTG	None
16	AP1G1	ENSG00000166747	ENST00000563104	protein_coding	PUTATIVE	None	555	434	143	71807158	71842716	-1	CLAPG1, ADTG	None
16	AP1G1	ENSG00000166747	ENST00000569185	protein_coding	KNOWN	None	555	419	138	71807173	71842396	-1	CLAPG1, ADTG	None
16	AP1G1	ENSG00000166747	ENST00000566161	retained_intron	KNOWN	None	555	None	None	71808235	71843053	-1	CLAPG1, ADTG	None
16	AP1G1	ENSG00000166747	ENST00000567583	protein_coding	KNOWN	None	555	275	90	71808422	71842735	-1	CLAPG1, ADTG	None
16	AP1G1	ENSG00000166747	ENST00000565412	protein_coding	PUTATIVE	None	555	257	84	71808440	71842717	-1	CLAPG1, ADTG	None
16	AP1G1	ENSG00000166747	ENST00000569975	protein_coding	KNOWN	None	555	160	52	71823223	71842716	-1	CLAPG1, ADTG	None
16	AP1G1	ENSG00000166747	ENST00000570297	processed_transcript	KNOWN	None	555	None	None	71823226	71842716	-1	CLAPG1, ADTG	None
16	AP1G1	ENSG00000166747	ENST00000570017	protein_coding	KNOWN	None	555	80	25	71823303	71843006	-1	CLAPG1, ADTG	None
16	AP1G1	ENSG00000166747	ENST00000565161	processed_transcript	KNOWN	None	555	None	None	71841810	71842987	-1	CLAPG1, ADTG	None
16	AP1G1	ENSG00000166747	ENST00000433195	protein_coding	KNOWN	None	555	2538	845	71765786	71842965	-1	CLAPG1, ADTG	None
16	AP1G1	ENSG00000166747	ENST00000423132	protein_coding	KNOWN	None	555	2478	825	71764926	71842941	-1	CLAPG1, ADTG	None
2	RESP18	ENSG00000182698	ENST00000470719	retained_intron	KNOWN	None	33762	None	None	220192131	220195900	-1	None	None
2	RESP18	ENSG00000182698	ENST00000392083	protein_coding	PUTATIVE	None	33762	276	91	220192131	220197351	-1	None	None
2	RESP18	ENSG00000182698	ENST00000333527	protein_coding	PUTATIVE	CCDS33382	33762	687	228	220192131	220197899	-1	None	None
7	CCM2	ENSG00000136280	ENST00000461377	processed_transcript	KNOWN	None	21708	None	None	45039074	45115951	1	C7orf22	MGC4607
7	CCM2	ENSG00000136280	ENST00000258781	protein_coding	KNOWN	CCDS5500	21708	1335	444	45039784	45116066	1	C7orf22	MGC4607
7	CCM2	ENSG00000136280	ENST00000478582	processed_transcript	KNOWN	None	21708	None	None	45039788	45113118	1	C7orf22	MGC4607
7	CCM2	ENSG00000136280	ENST00000488727	nonsense_mediated_decay	KNOWN	None	21708	816	271	45039848	45116013	1	C7orf22	MGC4607
7	CCM2	ENSG00000136280	ENST00000478169	processed_transcript	KNOWN	None	21708	None	None	45066614	45104093	1	C7orf22	MGC4607
7	CCM2	ENSG00000136280	ENST00000475551	protein_coding	KNOWN	None	21708	1317	438	45066625	45116050	1	C7orf22	MGC4607
7	CCM2	ENSG00000136280	ENST00000482714	processed_transcript	KNOWN	None	21708	None	None	45067271	45110779	1	C7orf22	MGC4607
7	CCM2	ENSG00000136280	ENST00000492883	retained_intron	KNOWN	None	21708	None	None	45067271	45112765	1	C7orf22	MGC4607
7	CCM2	ENSG00000136280	ENST00000480658	retained_intron	KNOWN	None	21708	None	None	45067271	45112887	1	C7orf22	MGC4607
7	CCM2	ENSG00000136280	ENST00000474617	protein_coding	PUTATIVE	None	21708	1044	347	45067271	45116030	1	C7orf22	MGC4607
7	CCM2	ENSG00000136280	ENST00000472223	processed_transcript	KNOWN	None	21708	None	None	45067300	45110156	1	C7orf22	MGC4607
7	CCM2	ENSG00000136280	ENST00000476594	processed_transcript	KNOWN	None	21708	None	None	45077860	45104221	1	C7orf22	MGC4607
7	CCM2	ENSG00000136280	ENST00000481194	retained_intron	KNOWN	None	21708	None	None	45104202	45116052	1	C7orf22	MGC4607
7	CCM2	ENSG00000136280	ENST00000477605	retained_intron	KNOWN	None	21708	None	None	45107235	45116036	1	C7orf22	MGC4607
7	CCM2	ENSG00000136280	ENST00000480382	protein_coding	PUTATIVE	None	21708	406	134	45108093	45112385	1	C7orf22	MGC4607
7	CCM2	ENSG00000136280	ENST00000470837	retained_intron	KNOWN	None	21708	None	None	45111937	45113161	1	C7orf22	MGC4607
7	CCM2	ENSG00000136280	ENST00000541586	protein_coding	KNOWN	CCDS55109	21708	1161	386	45039787	45116068	1	C7orf22	MGC4607
7	CCM2	ENSG00000136280	ENST00000544363	protein_coding	KNOWN	CCDS55108	21708	1062	353	45039787	45116068	1	C7orf22	MGC4607
7	CCM2	ENSG00000136280	ENST00000381112	protein_coding	KNOWN	CCDS34630	21708	1398	465	45066625	45116050	1	C7orf22	MGC4607
5	CREBRF	ENSG00000164463	ENST00000522692	protein_coding	KNOWN	CCDS54948	24050	1254	417	172483355	172519333	1	C5orf41	LRF
5	CREBRF	ENSG00000164463	ENST00000296953	protein_coding	KNOWN	CCDS34293	24050	1920	639	172483355	172566287	1	C5orf41	LRF
5	CREBRF	ENSG00000164463	ENST00000520420	protein_coding	KNOWN	CCDS54948	24050	1254	417	172483371	172518539	1	C5orf41	LRF
5	CREBRF	ENSG00000164463	ENST00000520464	retained_intron	KNOWN	None	24050	None	None	172483393	172551584	1	C5orf41	LRF
5	CREBRF	ENSG00000164463	ENST00000517882	processed_transcript	PUTATIVE	None	24050	None	None	172484347	172487458	1	C5orf41	LRF
5	CREBRF	ENSG00000164463	ENST00000523161	protein_coding	KNOWN	None	24050	78	25	172484397	172513572	1	C5orf41	LRF
5	CREBRF	ENSG00000164463	ENST00000540014	protein_coding	KNOWN	None	24050	1926	641	172483355	172566291	1	C5orf41	LRF
2	DNPEP	ENSG00000123992	ENST00000273075	protein_coding	KNOWN	CCDS42823	2981	1458	485	220238268	220252737	-1	None	DAP, ASPEP
2	DNPEP	ENSG00000123992	ENST00000373972	protein_coding	PUTATIVE	None	2981	1233	410	220238916	220253598	-1	None	DAP, ASPEP
2	DNPEP	ENSG00000123992	ENST00000523282	protein_coding	NOVEL	None	2981	1482	493	220238916	220264729	-1	None	DAP, ASPEP
2	DNPEP	ENSG00000123992	ENST00000373963	nonsense_mediated_decay	KNOWN	None	2981	144	47	220238918	220252651	-1	None	DAP, ASPEP
2	DNPEP	ENSG00000123992	ENST00000373966	nonsense_mediated_decay	KNOWN	None	2981	111	36	220238918	220252654	-1	None	DAP, ASPEP
2	DNPEP	ENSG00000123992	ENST00000490371	processed_transcript	KNOWN	None	2981	None	None	220238919	220246612	-1	None	DAP, ASPEP
2	DNPEP	ENSG00000123992	ENST00000488051	retained_intron	KNOWN	None	2981	None	None	220239602	220246501	-1	None	DAP, ASPEP
2	DNPEP	ENSG00000123992	ENST00000462779	retained_intron	KNOWN	None	2981	None	None	220239646	220246208	-1	None	DAP, ASPEP
2	DNPEP	ENSG00000123992	ENST00000488881	retained_intron	KNOWN	None	2981	None	None	220246525	220249295	-1	None	DAP, ASPEP
2	DNPEP	ENSG00000123992	ENST00000457935	protein_coding	NOVEL	None	2981	994	330	220246720	220264744	-1	None	DAP, ASPEP
2	DNPEP	ENSG00000123992	ENST00000429013	protein_coding	PUTATIVE	None	2981	820	272	220247927	220252069	-1	None	DAP, ASPEP
2	DNPEP	ENSG00000123992	ENST00000521459	protein_coding	NOVEL	None	2981	674	223	220247931	220252556	-1	None	DAP, ASPEP
2	DNPEP	ENSG00000123992	ENST00000460963	retained_intron	KNOWN	None	2981	None	None	220249308	220252514	-1	None	DAP, ASPEP
2	DNPEP	ENSG00000123992	ENST00000522421	retained_intron	KNOWN	None	2981	None	None	220249876	220250556	-1	None	DAP, ASPEP
2	DNPEP	ENSG00000123992	ENST00000322176	protein_coding	NOVEL	None	2981	812	269	220250153	220252629	-1	None	DAP, ASPEP
2	DNPEP	ENSG00000123992	ENST00000434339	protein_coding	PUTATIVE	None	2981	413	136	220250381	220264729	-1	None	DAP, ASPEP
2	DNPEP	ENSG00000123992	ENST00000430206	protein_coding	PUTATIVE	None	2981	351	116	220250704	220252068	-1	None	DAP, ASPEP
2	DNPEP	ENSG00000123992	ENST00000520694	nonsense_mediated_decay	KNOWN	None	2981	111	36	220250760	220252518	-1	None	DAP, ASPEP
2	DNPEP	ENSG00000123992	ENST00000523527	retained_intron	KNOWN	None	2981	None	None	220250926	220252540	-1	None	DAP, ASPEP
2	DNPEP	ENSG00000123992	ENST00000519698	nonsense_mediated_decay	KNOWN	None	2981	138	45	220251404	220264728	-1	None	DAP, ASPEP
2	DNPEP	ENSG00000123992	ENST00000519905	protein_coding	PUTATIVE	None	2981	269	88	220251409	220264703	-1	None	DAP, ASPEP
11	TCN1	ENSG00000134827	ENST00000529251	retained_intron	KNOWN	None	11652	None	None	59620273	59622240	-1	None	TCI, TC1
11	TCN1	ENSG00000134827	ENST00000257264	protein_coding	KNOWN	CCDS7978	11652	1302	433	59620273	59634048	-1	None	TCI, TC1
11	TCN1	ENSG00000134827	ENST00000532419	processed_transcript	KNOWN	None	11652	None	None	59622139	59633962	-1	None	TCI, TC1
11	TCN1	ENSG00000134827	ENST00000534531	processed_transcript	KNOWN	None	11652	None	None	59623416	59633944	-1	None	TCI, TC1
11	TCN1	ENSG00000134827	ENST00000533734	processed_transcript	KNOWN	None	11652	None	None	59626655	59630108	-1	None	TCI, TC1
3	CYB561D2	ENSG00000114395	ENST00000425346	protein_coding	KNOWN	CCDS2827	30253	669	222	50388126	50391500	1	None	101F6, TSP10
3	CYB561D2	ENSG00000114395	ENST00000424512	protein_coding	KNOWN	CCDS2827	30253	669	222	50388276	50391483	1	None	101F6, TSP10
3	CYB561D2	ENSG00000114395	ENST00000232508	protein_coding	KNOWN	CCDS2827	30253	669	222	50388276	50391500	1	None	101F6, TSP10
3	CYB561D2	ENSG00000114395	ENST00000418577	protein_coding	KNOWN	CCDS2827	30253	669	222	50388289	50391463	1	None	101F6, TSP10
3	CYB561D2	ENSG00000114395	ENST00000419046	processed_transcript	PUTATIVE	None	30253	None	None	50388304	50390824	1	None	101F6, TSP10
3	CYB561D2	ENSG00000114395	ENST00000490926	processed_transcript	PUTATIVE	None	30253	None	None	50388628	50395891	1	None	101F6, TSP10
11	None	ENSG00000214788	ENST00000398992	protein_coding	KNOWN	None	None	369	122	59705928	59712807	1	None	None
17	SLC25A35	ENSG00000125434	ENST00000579192	protein_coding	KNOWN	CCDS11138	31921	888	295	8191081	8198661	-1	None	FLJ40217
17	SLC25A35	ENSG00000125434	ENST00000380067	protein_coding	KNOWN	CCDS11138	31921	888	295	8191082	8198170	-1	None	FLJ40217
17	SLC25A35	ENSG00000125434	ENST00000581320	processed_transcript	KNOWN	None	31921	None	None	8191487	8192353	-1	None	FLJ40217
17	SLC25A35	ENSG00000125434	ENST00000585311	nonsense_mediated_decay	KNOWN	None	31921	876	291	8192178	8198154	-1	None	FLJ40217
17	SLC25A35	ENSG00000125434	ENST00000580340	protein_coding	KNOWN	CCDS11138	31921	888	295	8192179	8198156	-1	None	FLJ40217
17	SLC25A35	ENSG00000125434	ENST00000579681	nonsense_mediated_decay	KNOWN	None	31921	864	287	8192934	8198125	-1	None	FLJ40217
17	SLC25A35	ENSG00000125434	ENST00000577745	protein_coding	KNOWN	None	31921	903	300	8193377	8198636	-1	None	FLJ40217
17	SLC25A35	ENSG00000125434	ENST00000396278	protein_coding	KNOWN	None	31921	876	291	8191082	8198661	-1	None	FLJ40217
2	DES	ENSG00000175084	ENST00000373960	protein_coding	KNOWN	CCDS33383	2770	1413	470	220283099	220291461	1	None	CMD1I, CSM1, CSM2
2	DES	ENSG00000175084	ENST00000477226	retained_intron	KNOWN	None	2770	None	None	220284767	220288542	1	None	CMD1I, CSM1, CSM2
2	DES	ENSG00000175084	ENST00000492726	retained_intron	KNOWN	None	2770	None	None	220284844	220288565	1	None	CMD1I, CSM1, CSM2
2	DES	ENSG00000175084	ENST00000483395	retained_intron	KNOWN	None	2770	None	None	220290242	220290906	1	None	CMD1I, CSM1, CSM2
11	PLAC1L	ENSG00000149507	ENST00000278855	protein_coding	KNOWN	CCDS7979	26699	477	158	59807748	59815517	1	TMEM122	FLJ36198
11	PLAC1L	ENSG00000149507	ENST00000527395	retained_intron	KNOWN	None	26699	None	None	59807933	59811206	1	TMEM122	FLJ36198
11	PLAC1L	ENSG00000149507	ENST00000532905	protein_coding	PUTATIVE	None	26699	261	86	59807962	59814364	1	TMEM122	FLJ36198
6	None	ENSG00000203863	ENST00000369474	protein_coding	KNOWN	None	None	435	144	89674246	89676685	1	None	None
6	PNRC1	ENSG00000146278	ENST00000369472	protein_coding	PUTATIVE	None	17278	429	142	89790470	89794064	1	PROL2	B4-2, PRR2
6	PNRC1	ENSG00000146278	ENST00000336032	protein_coding	KNOWN	CCDS5018	17278	984	327	89790497	89794879	1	PROL2	B4-2, PRR2
6	PNRC1	ENSG00000146278	ENST00000354922	protein_coding	PUTATIVE	None	17278	429	142	89791555	89793916	1	PROL2	B4-2, PRR2
5	BNIP1	ENSG00000113734	ENST00000231668	protein_coding	KNOWN	CCDS4385	1082	816	271	172571445	172591343	1	None	Nip1, SEC20
5	BNIP1	ENSG00000113734	ENST00000351486	protein_coding	KNOWN	CCDS4384	1082	687	228	172571518	172591390	1	None	Nip1, SEC20
5	BNIP1	ENSG00000113734	ENST00000352523	protein_coding	KNOWN	CCDS4386	1082	714	237	172571540	172591344	1	None	Nip1, SEC20
5	BNIP1	ENSG00000113734	ENST00000393770	protein_coding	KNOWN	CCDS43400	1082	585	194	172571549	172591060	1	None	Nip1, SEC20
5	BNIP1	ENSG00000113734	ENST00000519459	protein_coding	PUTATIVE	None	1082	123	40	172586979	172588880	1	None	Nip1, SEC20
8	GSR	ENSG00000104687	ENST00000221130	protein_coding	KNOWN	CCDS34877	4623	1569	522	30535583	30585443	-1	None	None
8	GSR	ENSG00000104687	ENST00000523295	nonsense_mediated_decay	KNOWN	None	4623	396	131	30539448	30585184	-1	None	None
8	GSR	ENSG00000104687	ENST00000520888	protein_coding	NOVEL	None	4623	900	299	30546679	30585218	-1	None	None
8	GSR	ENSG00000104687	ENST00000521479	protein_coding	PUTATIVE	None	4623	434	143	30553922	30584527	-1	None	None
8	GSR	ENSG00000104687	ENST00000546342	protein_coding	KNOWN	CCDS56531	4623	1482	493	30537037	30585352	-1	None	None
8	GSR	ENSG00000104687	ENST00000541648	protein_coding	KNOWN	CCDS56532	4623	1410	469	30537037	30585352	-1	None	None
8	GSR	ENSG00000104687	ENST00000537535	protein_coding	KNOWN	CCDS56530	4623	1323	440	30537037	30585352	-1	None	None
8	GSR	ENSG00000104687	ENST00000414019	protein_coding	KNOWN	None	4623	1440	479	30535584	30585223	-1	None	None
X	TCEAL2	ENSG00000184905	ENST00000476749	processed_transcript	KNOWN	None	29818	None	None	101380660	101381872	1	None	my048, MY0876G05
X	TCEAL2	ENSG00000184905	ENST00000329035	protein_coding	KNOWN	CCDS14496	29818	684	227	101380675	101382683	1	None	my048, MY0876G05
X	TCEAL2	ENSG00000184905	ENST00000372780	protein_coding	KNOWN	CCDS14496	29818	684	227	101380660	101382683	1	None	my048, MY0876G05
11	MS4A3	ENSG00000149516	ENST00000395032	protein_coding	KNOWN	CCDS41651	7317	276	91	59824060	59838068	1	CD20L	HTM4
11	MS4A3	ENSG00000149516	ENST00000528298	retained_intron	KNOWN	None	7317	None	None	59824101	59830142	1	CD20L	HTM4
11	MS4A3	ENSG00000149516	ENST00000278865	protein_coding	KNOWN	CCDS31567	7317	645	214	59824156	59838601	1	CD20L	HTM4
11	MS4A3	ENSG00000149516	ENST00000525686	nonsense_mediated_decay	KNOWN	None	7317	252	83	59824176	59837827	1	CD20L	HTM4
11	MS4A3	ENSG00000149516	ENST00000526199	processed_transcript	PUTATIVE	None	7317	None	None	59828405	59828971	1	CD20L	HTM4
11	MS4A3	ENSG00000149516	ENST00000534744	protein_coding	KNOWN	CCDS31568	7317	507	168	59828634	59837706	1	CD20L	HTM4
11	MS4A3	ENSG00000149516	ENST00000528952	retained_intron	KNOWN	None	7317	None	None	59837004	59838454	1	CD20L	HTM4
11	MS4A3	ENSG00000149516	ENST00000358152	protein_coding	KNOWN	CCDS31568	7317	507	168	59824101	59838587	1	CD20L	HTM4
6	SRSF12	ENSG00000154548	ENST00000452027	protein_coding	KNOWN	CCDS47459	21220	786	261	89805678	89827800	-1	SFRS13B	SRrp35, SFRS19
6	SRSF12	ENSG00000154548	ENST00000524221	retained_intron	KNOWN	None	21220	None	None	89808572	89815535	-1	SFRS13B	SRrp35, SFRS19
6	SRSF12	ENSG00000154548	ENST00000488604	retained_intron	KNOWN	None	21220	None	None	89808656	89815685	-1	SFRS13B	SRrp35, SFRS19
6	SRSF12	ENSG00000154548	ENST00000475068	nonsense_mediated_decay	KNOWN	None	21220	129	42	89814864	89827724	-1	SFRS13B	SRrp35, SFRS19
6	SRSF12	ENSG00000154548	ENST00000517387	nonsense_mediated_decay	KNOWN	None	21220	126	41	89815200	89827694	-1	SFRS13B	SRrp35, SFRS19
3	None	ENSG00000272104	ENST00000606589	protein_coding	PUTATIVE	None	None	153	50	50388323	50405354	1	None	None
2	SPEG	ENSG00000072195	ENST00000312358	protein_coding	NOVEL	CCDS42824	16901	9804	3267	220299568	220358354	1	APEG1	MGC12676, KIAA1297, SPEGalpha, SPEGbeta, BPEG
2	SPEG	ENSG00000072195	ENST00000498378	processed_transcript	KNOWN	None	16901	None	None	220301997	220331583	1	APEG1	MGC12676, KIAA1297, SPEGalpha, SPEGbeta, BPEG
2	SPEG	ENSG00000072195	ENST00000435853	protein_coding	PUTATIVE	None	16901	563	186	220306238	220312893	1	APEG1	MGC12676, KIAA1297, SPEGalpha, SPEGbeta, BPEG
2	SPEG	ENSG00000072195	ENST00000403148	nonsense_mediated_decay	KNOWN	None	16901	162	53	220306738	220309566	1	APEG1	MGC12676, KIAA1297, SPEGalpha, SPEGbeta, BPEG
2	SPEG	ENSG00000072195	ENST00000431523	protein_coding	NOVEL	None	16901	898	298	220306745	220313237	1	APEG1	MGC12676, KIAA1297, SPEGalpha, SPEGbeta, BPEG
2	SPEG	ENSG00000072195	ENST00000396698	protein_coding	NOVEL	None	16901	2577	858	220306767	220331582	1	APEG1	MGC12676, KIAA1297, SPEGalpha, SPEGbeta, BPEG
2	SPEG	ENSG00000072195	ENST00000452101	nonsense_mediated_decay	KNOWN	None	16901	255	84	220306769	220312913	1	APEG1	MGC12676, KIAA1297, SPEGalpha, SPEGbeta, BPEG
2	SPEG	ENSG00000072195	ENST00000420132	nonsense_mediated_decay	KNOWN	None	16901	162	53	220306771	220309637	1	APEG1	MGC12676, KIAA1297, SPEGalpha, SPEGbeta, BPEG
2	SPEG	ENSG00000072195	ENST00000464989	retained_intron	KNOWN	None	16901	None	None	220308396	220331583	1	APEG1	MGC12676, KIAA1297, SPEGalpha, SPEGbeta, BPEG
2	SPEG	ENSG00000072195	ENST00000451076	protein_coding	NOVEL	None	16901	551	182	220309379	220312880	1	APEG1	MGC12676, KIAA1297, SPEGalpha, SPEGbeta, BPEG
2	SPEG	ENSG00000072195	ENST00000409595	nonsense_mediated_decay	KNOWN	None	16901	130	42	220309767	220316505	1	APEG1	MGC12676, KIAA1297, SPEGalpha, SPEGbeta, BPEG
2	SPEG	ENSG00000072195	ENST00000497065	processed_transcript	KNOWN	None	16901	None	None	220310273	220313117	1	APEG1	MGC12676, KIAA1297, SPEGalpha, SPEGbeta, BPEG
2	SPEG	ENSG00000072195	ENST00000491248	processed_transcript	KNOWN	None	16901	None	None	220310302	220313177	1	APEG1	MGC12676, KIAA1297, SPEGalpha, SPEGbeta, BPEG
2	SPEG	ENSG00000072195	ENST00000485813	processed_transcript	KNOWN	None	16901	None	None	220310349	220358315	1	APEG1	MGC12676, KIAA1297, SPEGalpha, SPEGbeta, BPEG
2	SPEG	ENSG00000072195	ENST00000462545	processed_transcript	KNOWN	None	16901	None	None	220315392	220331583	1	APEG1	MGC12676, KIAA1297, SPEGalpha, SPEGbeta, BPEG
2	SPEG	ENSG00000072195	ENST00000463218	processed_transcript	KNOWN	None	16901	None	None	220316463	220329389	1	APEG1	MGC12676, KIAA1297, SPEGalpha, SPEGbeta, BPEG
2	SPEG	ENSG00000072195	ENST00000396688	protein_coding	KNOWN	CCDS54432	16901	342	113	220325488	220331563	1	APEG1	MGC12676, KIAA1297, SPEGalpha, SPEGbeta, BPEG
2	SPEG	ENSG00000072195	ENST00000496786	processed_transcript	KNOWN	None	16901	None	None	220325944	220329376	1	APEG1	MGC12676, KIAA1297, SPEGalpha, SPEGbeta, BPEG
2	SPEG	ENSG00000072195	ENST00000475921	retained_intron	KNOWN	None	16901	None	None	220325962	220331583	1	APEG1	MGC12676, KIAA1297, SPEGalpha, SPEGbeta, BPEG
2	SPEG	ENSG00000072195	ENST00000396686	protein_coding	KNOWN	CCDS54432	16901	342	113	220325977	220331377	1	APEG1	MGC12676, KIAA1297, SPEGalpha, SPEGbeta, BPEG
2	SPEG	ENSG00000072195	ENST00000396689	protein_coding	KNOWN	CCDS54432	16901	342	113	220326107	220331584	1	APEG1	MGC12676, KIAA1297, SPEGalpha, SPEGbeta, BPEG
2	SPEG	ENSG00000072195	ENST00000485069	retained_intron	KNOWN	None	16901	None	None	220336384	220339100	1	APEG1	MGC12676, KIAA1297, SPEGalpha, SPEGbeta, BPEG
2	SPEG	ENSG00000072195	ENST00000412982	protein_coding	PUTATIVE	None	16901	1030	342	220356589	220362966	1	APEG1	MGC12676, KIAA1297, SPEGalpha, SPEGbeta, BPEG
2	SPEG	ENSG00000072195	ENST00000475104	retained_intron	KNOWN	None	16901	None	None	220362413	220363009	1	APEG1	MGC12676, KIAA1297, SPEGalpha, SPEGbeta, BPEG
2	SPEG	ENSG00000072195	ENST00000396695	protein_coding	KNOWN	None	16901	513	170	220306773	220331583	1	APEG1	MGC12676, KIAA1297, SPEGalpha, SPEGbeta, BPEG
3	TMEM115	ENSG00000126062	ENST00000266025	protein_coding	KNOWN	CCDS2828	30055	1056	351	50392180	50397041	-1	None	PL6
X	TCEAL6	ENSG00000204071	ENST00000372774	protein_coding	KNOWN	CCDS43978	24553	552	183	101395448	101397477	-1	None	None
X	TCEAL6	ENSG00000204071	ENST00000372773	protein_coding	KNOWN	CCDS43978	24553	552	183	101395682	101397942	-1	None	None
X	BEX5	ENSG00000184515	ENST00000333643	protein_coding	KNOWN	CCDS35350	27990	336	111	101408684	101411029	-1	NGFRAP1L1	None
X	BEX5	ENSG00000184515	ENST00000484837	processed_transcript	KNOWN	None	27990	None	None	101409712	101410762	-1	NGFRAP1L1	None
X	BEX5	ENSG00000184515	ENST00000543160	protein_coding	KNOWN	CCDS35350	27990	336	111	101408680	101410762	-1	NGFRAP1L1	None
2	GMPPA	ENSG00000144591	ENST00000313597	protein_coding	KNOWN	CCDS2441	22923	1263	420	220363589	220371709	1	None	None
2	GMPPA	ENSG00000144591	ENST00000480506	retained_intron	KNOWN	None	22923	None	None	220363606	220367163	1	None	None
2	GMPPA	ENSG00000144591	ENST00000373917	protein_coding	NOVEL	None	22923	1422	473	220363610	220371657	1	None	None
2	GMPPA	ENSG00000144591	ENST00000358215	protein_coding	KNOWN	CCDS2441	22923	1263	420	220363623	220371710	1	None	None
2	GMPPA	ENSG00000144591	ENST00000443704	nonsense_mediated_decay	KNOWN	None	22923	873	290	220363627	220371655	1	None	None
2	GMPPA	ENSG00000144591	ENST00000373908	protein_coding	KNOWN	CCDS2441	22923	1263	420	220363628	220371710	1	None	None
2	GMPPA	ENSG00000144591	ENST00000455657	protein_coding	KNOWN	None	22923	491	162	220363629	220368806	1	None	None
2	GMPPA	ENSG00000144591	ENST00000435316	protein_coding	PUTATIVE	None	22923	748	248	220363631	220370277	1	None	None
2	GMPPA	ENSG00000144591	ENST00000341142	protein_coding	KNOWN	CCDS2441	22923	1263	420	220363637	220371709	1	None	None
2	GMPPA	ENSG00000144591	ENST00000481170	retained_intron	KNOWN	None	22923	None	None	220364497	220371709	1	None	None
2	GMPPA	ENSG00000144591	ENST00000480034	retained_intron	KNOWN	None	22923	None	None	220370447	220371416	1	None	None
2	GMPPA	ENSG00000144591	ENST00000496536	retained_intron	KNOWN	None	22923	None	None	220370662	220371144	1	None	None
3	CACNA2D2	ENSG00000007402	ENST00000423994	protein_coding	NOVEL	None	1400	3462	1153	50400233	50540854	-1	None	KIAA0558
3	CACNA2D2	ENSG00000007402	ENST00000429770	protein_coding	NOVEL	None	1400	3435	1144	50400233	50540859	-1	None	KIAA0558
3	CACNA2D2	ENSG00000007402	ENST00000266039	protein_coding	KNOWN	None	1400	3438	1145	50400233	50541028	-1	None	KIAA0558
3	CACNA2D2	ENSG00000007402	ENST00000360963	protein_coding	KNOWN	None	1400	3231	1076	50400233	50541675	-1	None	KIAA0558
3	CACNA2D2	ENSG00000007402	ENST00000483620	retained_intron	KNOWN	None	1400	None	None	50400286	50403213	-1	None	KIAA0558
3	CACNA2D2	ENSG00000007402	ENST00000424201	protein_coding	KNOWN	CCDS33763	1400	3432	1143	50400323	50540854	-1	None	KIAA0558
3	CACNA2D2	ENSG00000007402	ENST00000479441	protein_coding	KNOWN	CCDS54588	1400	3453	1150	50402097	50540854	-1	None	KIAA0558
3	CACNA2D2	ENSG00000007402	ENST00000487413	processed_transcript	KNOWN	None	1400	None	None	50453234	50541065	-1	None	KIAA0558
3	CACNA2D2	ENSG00000007402	ENST00000435965	protein_coding	KNOWN	None	1400	3462	1153	50400233	50541028	-1	None	KIAA0558
3	CACNA2D2	ENSG00000007402	ENST00000395083	protein_coding	KNOWN	None	1400	3441	1146	50400233	50541028	-1	None	KIAA0558
2	ASIC4	ENSG00000072182	ENST00000461395	retained_intron	KNOWN	None	21263	None	None	220378892	220398780	1	ACCN4	BNAC4
2	ASIC4	ENSG00000072182	ENST00000347842	protein_coding	KNOWN	CCDS2442	21263	1944	647	220379052	220403494	1	ACCN4	BNAC4
2	ASIC4	ENSG00000072182	ENST00000358078	protein_coding	NOVEL	None	21263	2001	666	220379052	220403494	1	ACCN4	BNAC4
2	ASIC4	ENSG00000072182	ENST00000474489	retained_intron	KNOWN	None	21263	None	None	220381858	220403494	1	ACCN4	BNAC4
2	ASIC4	ENSG00000072182	ENST00000473709	processed_transcript	KNOWN	None	21263	None	None	220381963	220397753	1	ACCN4	BNAC4
2	CHPF	ENSG00000123989	ENST00000243776	protein_coding	KNOWN	CCDS2443	24291	2328	775	220403669	220408509	-1	None	CSS2, CHSY2
2	CHPF	ENSG00000123989	ENST00000373891	protein_coding	PUTATIVE	None	24291	897	298	220406182	220408295	-1	None	CSS2, CHSY2
2	CHPF	ENSG00000123989	ENST00000535926	protein_coding	KNOWN	CCDS56169	24291	1842	613	220404094	220407819	-1	None	CSS2, CHSY2
2	TMEM198	ENSG00000188760	ENST00000344458	protein_coding	KNOWN	CCDS33385	33704	1083	360	220408385	220415301	1	None	MGC99813, TMEM198A
2	TMEM198	ENSG00000188760	ENST00000421791	protein_coding	KNOWN	None	33704	681	226	220408728	220412742	1	None	MGC99813, TMEM198A
2	TMEM198	ENSG00000188760	ENST00000373883	protein_coding	KNOWN	CCDS33385	33704	1083	360	220408745	220415317	1	None	MGC99813, TMEM198A
2	TMEM198	ENSG00000188760	ENST00000451952	protein_coding	NOVEL	None	33704	468	155	220408772	220412271	1	None	MGC99813, TMEM198A
15	EIF2AK4	ENSG00000128829	ENST00000559624	protein_coding	KNOWN	None	19687	1851	616	40226347	40267630	1	None	GCN2, KIAA1338
15	EIF2AK4	ENSG00000128829	ENST00000263791	protein_coding	KNOWN	CCDS42016	19687	4950	1649	40226354	40327791	1	None	GCN2, KIAA1338
15	EIF2AK4	ENSG00000128829	ENST00000560648	protein_coding	PUTATIVE	None	19687	411	136	40226377	40239096	1	None	GCN2, KIAA1338
15	EIF2AK4	ENSG00000128829	ENST00000560855	protein_coding	KNOWN	None	19687	4282	1426	40246176	40327792	1	None	GCN2, KIAA1338
15	EIF2AK4	ENSG00000128829	ENST00000558629	retained_intron	KNOWN	None	19687	None	None	40283367	40327792	1	None	GCN2, KIAA1338
15	EIF2AK4	ENSG00000128829	ENST00000559311	processed_transcript	KNOWN	None	19687	None	None	40294592	40300394	1	None	GCN2, KIAA1338
15	EIF2AK4	ENSG00000128829	ENST00000558557	retained_intron	KNOWN	None	19687	None	None	40294592	40327792	1	None	GCN2, KIAA1338
15	EIF2AK4	ENSG00000128829	ENST00000558743	retained_intron	KNOWN	None	19687	None	None	40312727	40314798	1	None	GCN2, KIAA1338
15	EIF2AK4	ENSG00000128829	ENST00000559032	retained_intron	KNOWN	None	19687	None	None	40313744	40318203	1	None	GCN2, KIAA1338
15	EIF2AK4	ENSG00000128829	ENST00000558823	protein_coding	NOVEL	None	19687	241	79	40322594	40327682	1	None	GCN2, KIAA1338
15	EIF2AK4	ENSG00000128829	ENST00000382727	protein_coding	KNOWN	None	19687	4866	1621	40226347	40327797	1	None	GCN2, KIAA1338
12	LETMD1	ENSG00000050426	ENST00000551477	protein_coding	PUTATIVE	None	24241	872	289	51441745	51451870	1	None	HCCR1
12	LETMD1	ENSG00000050426	ENST00000547318	nonsense_mediated_decay	KNOWN	None	24241	417	138	51442084	51454192	1	None	HCCR1
12	LETMD1	ENSG00000050426	ENST00000552430	processed_transcript	KNOWN	None	24241	None	None	51442096	51450020	1	None	HCCR1
12	LETMD1	ENSG00000050426	ENST00000553175	processed_transcript	KNOWN	None	24241	None	None	51442100	51450004	1	None	HCCR1
12	LETMD1	ENSG00000050426	ENST00000550755	nonsense_mediated_decay	KNOWN	None	24241	132	43	51442101	51449760	1	None	HCCR1
12	LETMD1	ENSG00000050426	ENST00000550446	processed_transcript	KNOWN	None	24241	None	None	51442101	51450558	1	None	HCCR1
12	LETMD1	ENSG00000050426	ENST00000550929	protein_coding	NOVEL	None	24241	915	304	51442101	51453588	1	None	HCCR1
12	LETMD1	ENSG00000050426	ENST00000262055	protein_coding	KNOWN	CCDS8806	24241	1083	360	51442101	51454204	1	None	HCCR1
12	LETMD1	ENSG00000050426	ENST00000547029	processed_transcript	KNOWN	None	24241	None	None	51442102	51451911	1	None	HCCR1
12	LETMD1	ENSG00000050426	ENST00000550442	protein_coding	NOVEL	None	24241	432	143	51442103	51450174	1	None	HCCR1
12	LETMD1	ENSG00000050426	ENST00000549340	protein_coding	NOVEL	None	24241	782	259	51442104	51451831	1	None	HCCR1
12	LETMD1	ENSG00000050426	ENST00000548390	retained_intron	KNOWN	None	24241	None	None	51442110	51443213	1	None	HCCR1
12	LETMD1	ENSG00000050426	ENST00000546992	retained_intron	KNOWN	None	24241	None	None	51442110	51446144	1	None	HCCR1
12	LETMD1	ENSG00000050426	ENST00000551261	nonsense_mediated_decay	KNOWN	None	24241	300	99	51442110	51449631	1	None	HCCR1
12	LETMD1	ENSG00000050426	ENST00000548209	protein_coding	NOVEL	None	24241	538	178	51442110	51450211	1	None	HCCR1
12	LETMD1	ENSG00000050426	ENST00000548251	protein_coding	NOVEL	None	24241	552	183	51442110	51450273	1	None	HCCR1
12	LETMD1	ENSG00000050426	ENST00000550715	retained_intron	KNOWN	None	24241	None	None	51442110	51450735	1	None	HCCR1
12	LETMD1	ENSG00000050426	ENST00000550814	protein_coding	NOVEL	None	24241	474	157	51442110	51451850	1	None	HCCR1
12	LETMD1	ENSG00000050426	ENST00000547660	protein_coding	PUTATIVE	None	24241	329	108	51442110	51453195	1	None	HCCR1
12	LETMD1	ENSG00000050426	ENST00000547555	nonsense_mediated_decay	KNOWN	None	24241	126	41	51442110	51454207	1	None	HCCR1
12	LETMD1	ENSG00000050426	ENST00000548401	protein_coding	NOVEL	None	24241	405	134	51442112	51445984	1	None	HCCR1
12	LETMD1	ENSG00000050426	ENST00000549686	nonsense_mediated_decay	KNOWN	None	24241	132	43	51442121	51453315	1	None	HCCR1
12	LETMD1	ENSG00000050426	ENST00000418425	protein_coding	NOVEL	CCDS58231	24241	1122	373	51442121	51454196	1	None	HCCR1
12	LETMD1	ENSG00000050426	ENST00000547008	protein_coding	NOVEL	None	24241	711	236	51442124	51454152	1	None	HCCR1
12	LETMD1	ENSG00000050426	ENST00000547877	retained_intron	KNOWN	None	24241	None	None	51442126	51454204	1	None	HCCR1
12	LETMD1	ENSG00000050426	ENST00000550100	nonsense_mediated_decay	KNOWN	None	24241	468	155	51442127	51454086	1	None	HCCR1
12	LETMD1	ENSG00000050426	ENST00000380135	nonsense_mediated_decay	KNOWN	None	24241	444	147	51442127	51454146	1	None	HCCR1
12	LETMD1	ENSG00000050426	ENST00000552739	protein_coding	NOVEL	None	24241	732	243	51442129	51454184	1	None	HCCR1
12	LETMD1	ENSG00000050426	ENST00000548516	processed_transcript	KNOWN	None	24241	None	None	51442141	51453442	1	None	HCCR1
12	LETMD1	ENSG00000050426	ENST00000552645	retained_intron	KNOWN	None	24241	None	None	51442657	51454204	1	None	HCCR1
12	LETMD1	ENSG00000050426	ENST00000547256	protein_coding	NOVEL	None	24241	332	109	51442861	51453500	1	None	HCCR1
12	LETMD1	ENSG00000050426	ENST00000552433	retained_intron	KNOWN	None	24241	None	None	51449482	51450312	1	None	HCCR1
12	LETMD1	ENSG00000050426	ENST00000546814	retained_intron	KNOWN	None	24241	None	None	51449663	51453317	1	None	HCCR1
12	LETMD1	ENSG00000050426	ENST00000551931	protein_coding	NOVEL	None	24241	434	143	51449692	51453485	1	None	HCCR1
12	LETMD1	ENSG00000050426	ENST00000550274	retained_intron	KNOWN	None	24241	None	None	51449840	51453610	1	None	HCCR1
12	LETMD1	ENSG00000050426	ENST00000553043	protein_coding	NOVEL	None	24241	295	97	51449962	51453650	1	None	HCCR1
12	LETMD1	ENSG00000050426	ENST00000549395	processed_transcript	KNOWN	None	24241	None	None	51450154	51453432	1	None	HCCR1
12	LETMD1	ENSG00000050426	ENST00000380123	protein_coding	KNOWN	None	24241	300	99	51442110	51454201	1	None	HCCR1
2	OBSL1	ENSG00000124006	ENST00000462534	retained_intron	KNOWN	None	29092	None	None	220415451	220417111	-1	None	KIAA0657
2	OBSL1	ENSG00000124006	ENST00000489804	retained_intron	KNOWN	None	29092	None	None	220415451	220417436	-1	None	KIAA0657
2	OBSL1	ENSG00000124006	ENST00000465149	retained_intron	KNOWN	None	29092	None	None	220415451	220435461	-1	None	KIAA0657
2	OBSL1	ENSG00000124006	ENST00000404537	protein_coding	KNOWN	CCDS46520	29092	5691	1896	220415464	220436011	-1	None	KIAA0657
2	OBSL1	ENSG00000124006	ENST00000373876	protein_coding	NOVEL	None	29092	5415	1804	220415478	220435963	-1	None	KIAA0657
2	OBSL1	ENSG00000124006	ENST00000596474	retained_intron	KNOWN	None	29092	None	None	220418951	220419494	-1	None	KIAA0657
2	OBSL1	ENSG00000124006	ENST00000603926	protein_coding	KNOWN	None	29092	4632	1543	220419888	220436011	-1	None	KIAA0657
2	OBSL1	ENSG00000124006	ENST00000604031	protein_coding	PUTATIVE	None	29092	1238	411	220420183	220427234	-1	None	KIAA0657
2	OBSL1	ENSG00000124006	ENST00000456147	protein_coding	PUTATIVE	None	29092	1337	444	220420485	220424153	-1	None	KIAA0657
2	OBSL1	ENSG00000124006	ENST00000472388	retained_intron	KNOWN	None	29092	None	None	220420964	220421749	-1	None	KIAA0657
2	OBSL1	ENSG00000124006	ENST00000373873	protein_coding	KNOWN	CCDS54433	29092	3078	1025	220426444	220436011	-1	None	KIAA0657
2	OBSL1	ENSG00000124006	ENST00000289656	protein_coding	PUTATIVE	None	29092	1839	612	220426469	220436186	-1	None	KIAA0657
2	OBSL1	ENSG00000124006	ENST00000462385	retained_intron	KNOWN	None	29092	None	None	220427537	220430101	-1	None	KIAA0657
2	OBSL1	ENSG00000124006	ENST00000465589	processed_transcript	PUTATIVE	None	29092	None	None	220434943	220436214	-1	None	KIAA0657
2	OBSL1	ENSG00000124006	ENST00000491370	processed_transcript	PUTATIVE	None	29092	None	None	220435180	220436581	-1	None	KIAA0657
2	OBSL1	ENSG00000124006	ENST00000265317	protein_coding	KNOWN	None	29092	1329	442	220419872	220424153	-1	None	KIAA0657
2	OBSL1	ENSG00000124006	ENST00000265318	protein_coding	KNOWN	None	29092	4206	1401	220415451	220436268	-1	None	KIAA0657
2	INHA	ENSG00000123999	ENST00000489456	processed_transcript	KNOWN	None	6065	None	None	220433884	220439775	1	None	None
2	INHA	ENSG00000123999	ENST00000243786	protein_coding	KNOWN	CCDS2444	6065	1101	366	220436917	220440435	1	None	None
19	PSMD8	ENSG00000099341	ENST00000215071	protein_coding	KNOWN	CCDS12515	9566	1053	350	38865176	38874464	1	None	S14, Nin1p, p31, HIP6, HYPF, Rpn12
19	PSMD8	ENSG00000099341	ENST00000585598	protein_coding	PUTATIVE	None	9566	423	140	38865398	38873487	1	None	S14, Nin1p, p31, HIP6, HYPF, Rpn12
19	PSMD8	ENSG00000099341	ENST00000602911	protein_coding	KNOWN	None	9566	864	287	38865399	38874464	1	None	S14, Nin1p, p31, HIP6, HYPF, Rpn12
19	PSMD8	ENSG00000099341	ENST00000591216	retained_intron	KNOWN	None	9566	None	None	38865410	38870003	1	None	S14, Nin1p, p31, HIP6, HYPF, Rpn12
19	PSMD8	ENSG00000099341	ENST00000592561	protein_coding	PUTATIVE	None	9566	771	256	38865412	38872894	1	None	S14, Nin1p, p31, HIP6, HYPF, Rpn12
19	PSMD8	ENSG00000099341	ENST00000592001	retained_intron	KNOWN	None	9566	None	None	38865428	38871875	1	None	S14, Nin1p, p31, HIP6, HYPF, Rpn12
19	PSMD8	ENSG00000099341	ENST00000592035	protein_coding	PUTATIVE	None	9566	519	172	38865649	38873393	1	None	S14, Nin1p, p31, HIP6, HYPF, Rpn12
19	PSMD8	ENSG00000099341	ENST00000591250	protein_coding	PUTATIVE	None	9566	201	66	38865697	38870045	1	None	S14, Nin1p, p31, HIP6, HYPF, Rpn12
19	PSMD8	ENSG00000099341	ENST00000590331	nonsense_mediated_decay	KNOWN	None	9566	192	63	38871539	38873937	1	None	S14, Nin1p, p31, HIP6, HYPF, Rpn12
17	RANGRF	ENSG00000108961	ENST00000226105	protein_coding	KNOWN	CCDS11137	17679	561	186	8191815	8193410	1	None	MOG1, HSPC165, HSPC236, RANGNRF
17	RANGRF	ENSG00000108961	ENST00000407006	protein_coding	KNOWN	CCDS54086	17679	441	146	8191972	8193408	1	None	MOG1, HSPC165, HSPC236, RANGNRF
17	RANGRF	ENSG00000108961	ENST00000580434	protein_coding	KNOWN	None	17679	357	118	8191989	8193410	1	None	MOG1, HSPC165, HSPC236, RANGNRF
17	RANGRF	ENSG00000108961	ENST00000439238	protein_coding	KNOWN	CCDS54087	17679	498	165	8191996	8193410	1	None	MOG1, HSPC165, HSPC236, RANGNRF
17	RANGRF	ENSG00000108961	ENST00000578849	retained_intron	KNOWN	None	17679	None	None	8192017	8192713	1	None	MOG1, HSPC165, HSPC236, RANGNRF
17	RANGRF	ENSG00000108961	ENST00000580777	retained_intron	KNOWN	None	17679	None	None	8192203	8193259	1	None	MOG1, HSPC165, HSPC236, RANGNRF
2	STK11IP	ENSG00000144589	ENST00000456909	protein_coding	NOVEL	None	19184	3267	1088	220462582	220481173	1	None	LIP1, KIAA1898, LKB1IP, STK11IP1
2	STK11IP	ENSG00000144589	ENST00000475843	retained_intron	KNOWN	None	19184	None	None	220462593	220466562	1	None	LIP1, KIAA1898, LKB1IP, STK11IP1
2	STK11IP	ENSG00000144589	ENST00000456857	nonsense_mediated_decay	KNOWN	None	19184	333	110	220462816	220466805	1	None	LIP1, KIAA1898, LKB1IP, STK11IP1
2	STK11IP	ENSG00000144589	ENST00000475396	retained_intron	KNOWN	None	19184	None	None	220462861	220474428	1	None	LIP1, KIAA1898, LKB1IP, STK11IP1
2	STK11IP	ENSG00000144589	ENST00000468584	processed_transcript	KNOWN	None	19184	None	None	220462916	220467431	1	None	LIP1, KIAA1898, LKB1IP, STK11IP1
2	STK11IP	ENSG00000144589	ENST00000459692	processed_transcript	KNOWN	None	19184	None	None	220463165	220470780	1	None	LIP1, KIAA1898, LKB1IP, STK11IP1
2	STK11IP	ENSG00000144589	ENST00000465230	retained_intron	KNOWN	None	19184	None	None	220470229	220471355	1	None	LIP1, KIAA1898, LKB1IP, STK11IP1
2	STK11IP	ENSG00000144589	ENST00000466648	retained_intron	KNOWN	None	19184	None	None	220470251	220471579	1	None	LIP1, KIAA1898, LKB1IP, STK11IP1
2	STK11IP	ENSG00000144589	ENST00000473899	retained_intron	KNOWN	None	19184	None	None	220473120	220474194	1	None	LIP1, KIAA1898, LKB1IP, STK11IP1
2	STK11IP	ENSG00000144589	ENST00000483319	protein_coding	PUTATIVE	None	19184	290	95	220473868	220474848	1	None	LIP1, KIAA1898, LKB1IP, STK11IP1
2	STK11IP	ENSG00000144589	ENST00000413891	nonsense_mediated_decay	KNOWN	None	19184	598	198	220476765	220479924	1	None	LIP1, KIAA1898, LKB1IP, STK11IP1
2	STK11IP	ENSG00000144589	ENST00000495941	retained_intron	KNOWN	None	19184	None	None	220477773	220479442	1	None	LIP1, KIAA1898, LKB1IP, STK11IP1
2	STK11IP	ENSG00000144589	ENST00000447191	protein_coding	PUTATIVE	None	19184	500	165	220478638	220480717	1	None	LIP1, KIAA1898, LKB1IP, STK11IP1
2	STK11IP	ENSG00000144589	ENST00000494777	retained_intron	KNOWN	None	19184	None	None	220479528	220480934	1	None	LIP1, KIAA1898, LKB1IP, STK11IP1
2	STK11IP	ENSG00000144589	ENST00000295641	protein_coding	KNOWN	CCDS46521	19184	3300	1099	220462596	220481173	1	None	LIP1, KIAA1898, LKB1IP, STK11IP1
6	PM20D2	ENSG00000146281	ENST00000275072	protein_coding	KNOWN	CCDS34499	21408	1311	436	89855769	89875284	1	ACY1L2	bA63L7.3
6	GABRR1	ENSG00000146276	ENST00000454853	protein_coding	KNOWN	CCDS5019	4090	1440	479	89887220	89927152	-1	None	None
6	GABRR1	ENSG00000146276	ENST00000369451	protein_coding	PUTATIVE	CCDS59028	4090	1179	392	89888318	89940997	-1	None	None
6	GABRR1	ENSG00000146276	ENST00000457434	nonsense_mediated_decay	KNOWN	None	4090	138	45	89888489	89927496	-1	None	None
6	GABRR1	ENSG00000146276	ENST00000481493	processed_transcript	PUTATIVE	None	4090	None	None	89915190	89926980	-1	None	None
6	GABRR1	ENSG00000146276	ENST00000435811	protein_coding	KNOWN	CCDS59029	4090	1389	462	89887223	89927496	-1	None	None
11	MS4A2	ENSG00000149534	ENST00000524868	protein_coding	KNOWN	None	7316	124	40	59855734	59857232	1	FCER1B, IGER, APY	MS4A1
11	MS4A2	ENSG00000149534	ENST00000440896	retained_intron	KNOWN	None	7316	None	None	59856137	59861504	1	FCER1B, IGER, APY	MS4A1
11	MS4A2	ENSG00000149534	ENST00000278888	protein_coding	KNOWN	CCDS7980	7316	735	244	59856137	59863444	1	FCER1B, IGER, APY	MS4A1
15	TTBK2	ENSG00000128881	ENST00000267890	protein_coding	KNOWN	CCDS42029	19141	3735	1244	43030932	43212677	-1	SCA11	KIAA0847
15	TTBK2	ENSG00000128881	ENST00000567840	protein_coding	KNOWN	None	19141	1437	478	43069116	43213007	-1	SCA11	KIAA0847
15	TTBK2	ENSG00000128881	ENST00000567274	protein_coding	NOVEL	None	19141	1332	443	43069148	43212960	-1	SCA11	KIAA0847
15	TTBK2	ENSG00000128881	ENST00000564431	protein_coding	NOVEL	None	19141	352	116	43120175	43212959	-1	SCA11	KIAA0847
15	TTBK2	ENSG00000128881	ENST00000562880	protein_coding	KNOWN	None	19141	429	142	43122139	43200473	-1	SCA11	KIAA0847
15	TTBK2	ENSG00000128881	ENST00000566931	protein_coding	NOVEL	None	19141	252	83	43122168	43212836	-1	SCA11	KIAA0847
15	TTBK2	ENSG00000128881	ENST00000567485	processed_transcript	KNOWN	None	19141	None	None	43147317	43211986	-1	SCA11	KIAA0847
5	NKX2-5	ENSG00000183072	ENST00000329198	protein_coding	KNOWN	CCDS4387	2488	975	324	172659112	172662360	-1	CSX, NKX2E	CSX1, NKX2.5, NKX4-1
5	NKX2-5	ENSG00000183072	ENST00000424406	protein_coding	KNOWN	CCDS54950	2488	339	112	172659896	172662267	-1	CSX, NKX2E	CSX1, NKX2.5, NKX4-1
5	NKX2-5	ENSG00000183072	ENST00000521848	protein_coding	PUTATIVE	CCDS54949	2488	456	151	172659898	172662209	-1	CSX, NKX2E	CSX1, NKX2.5, NKX4-1
5	NKX2-5	ENSG00000183072	ENST00000517440	protein_coding	PUTATIVE	None	2488	427	141	172661051	172662314	-1	CSX, NKX2E	CSX1, NKX2.5, NKX4-1
19	GGN	ENSG00000179168	ENST00000334928	protein_coding	KNOWN	CCDS12516	18869	1959	652	38874905	38878666	-1	None	FLJ35713, MGC33369
19	GGN	ENSG00000179168	ENST00000591809	processed_transcript	KNOWN	None	18869	None	None	38874993	38878664	-1	None	FLJ35713, MGC33369
19	GGN	ENSG00000179168	ENST00000585737	nonsense_mediated_decay	KNOWN	None	18869	1374	457	38874993	38878674	-1	None	FLJ35713, MGC33369
19	GGN	ENSG00000179168	ENST00000586599	protein_coding	PUTATIVE	None	18869	246	81	38877407	38878632	-1	None	FLJ35713, MGC33369
19	GGN	ENSG00000179168	ENST00000587676	protein_coding	KNOWN	None	18869	179	58	38877723	38878722	-1	None	FLJ35713, MGC33369
7	NACAD	ENSG00000136274	ENST00000490531	protein_coding	KNOWN	CCDS47582	22196	4689	1562	45120037	45128513	-1	None	KIAA0363
7	NACAD	ENSG00000136274	ENST00000460409	retained_intron	KNOWN	None	22196	None	None	45120578	45120999	-1	None	KIAA0363
17	ARHGEF15	ENSG00000198844	ENST00000583529	protein_coding	KNOWN	None	15590	349	115	8213559	8215706	1	None	KIAA0915, Vsm-RhoGEF, ARGEF15, FLJ13791, MGC44868
17	ARHGEF15	ENSG00000198844	ENST00000455564	retained_intron	KNOWN	None	15590	None	None	8213598	8217349	1	None	KIAA0915, Vsm-RhoGEF, ARGEF15, FLJ13791, MGC44868
17	ARHGEF15	ENSG00000198844	ENST00000361926	protein_coding	KNOWN	CCDS11139	15590	2526	841	8213601	8225829	1	None	KIAA0915, Vsm-RhoGEF, ARGEF15, FLJ13791, MGC44868
17	ARHGEF15	ENSG00000198844	ENST00000579439	protein_coding	KNOWN	None	15590	623	206	8214140	8216261	1	None	KIAA0915, Vsm-RhoGEF, ARGEF15, FLJ13791, MGC44868
17	ARHGEF15	ENSG00000198844	ENST00000581809	nonsense_mediated_decay	KNOWN	None	15590	276	91	8216359	8217360	1	None	KIAA0915, Vsm-RhoGEF, ARGEF15, FLJ13791, MGC44868
17	ARHGEF15	ENSG00000198844	ENST00000578286	retained_intron	KNOWN	None	15590	None	None	8218187	8218892	1	None	KIAA0915, Vsm-RhoGEF, ARGEF15, FLJ13791, MGC44868
17	ARHGEF15	ENSG00000198844	ENST00000582060	processed_transcript	KNOWN	None	15590	None	None	8222084	8222476	1	None	KIAA0915, Vsm-RhoGEF, ARGEF15, FLJ13791, MGC44868
17	ARHGEF15	ENSG00000198844	ENST00000421050	protein_coding	KNOWN	CCDS11139	15590	2526	841	8215307	8225828	1	None	KIAA0915, Vsm-RhoGEF, ARGEF15, FLJ13791, MGC44868
2	SLC4A3	ENSG00000114923	ENST00000358055	protein_coding	KNOWN	CCDS2445	11029	3699	1232	220492049	220506693	1	None	AE3, SLC2C
2	SLC4A3	ENSG00000114923	ENST00000373760	protein_coding	KNOWN	CCDS2445	11029	3699	1232	220492116	220506693	1	None	AE3, SLC2C
2	SLC4A3	ENSG00000114923	ENST00000273063	protein_coding	KNOWN	CCDS2446	11029	3780	1259	220492287	220506702	1	None	AE3, SLC2C
2	SLC4A3	ENSG00000114923	ENST00000425141	nonsense_mediated_decay	KNOWN	None	11029	1557	518	220492349	220506450	1	None	AE3, SLC2C
2	SLC4A3	ENSG00000114923	ENST00000317151	protein_coding	KNOWN	CCDS2445	11029	3699	1232	220492383	220506702	1	None	AE3, SLC2C
2	SLC4A3	ENSG00000114923	ENST00000497589	processed_transcript	KNOWN	None	11029	None	None	220493238	220497140	1	None	AE3, SLC2C
2	SLC4A3	ENSG00000114923	ENST00000413743	protein_coding	NOVEL	None	11029	683	226	220495852	220497731	1	None	AE3, SLC2C
2	SLC4A3	ENSG00000114923	ENST00000416910	nonsense_mediated_decay	KNOWN	None	11029	622	206	220496781	220502517	1	None	AE3, SLC2C
2	SLC4A3	ENSG00000114923	ENST00000444906	nonsense_mediated_decay	KNOWN	None	11029	223	73	220498068	220500503	1	None	AE3, SLC2C
2	SLC4A3	ENSG00000114923	ENST00000373762	protein_coding	KNOWN	CCDS2446	11029	3780	1259	220492292	220506701	1	None	AE3, SLC2C
11	MS4A6A	ENSG00000110077	ENST00000528851	protein_coding	KNOWN	CCDS44615	13375	678	225	59939487	59950577	-1	MS4A6	CD20L3
11	MS4A6A	ENSG00000110077	ENST00000420732	protein_coding	KNOWN	CCDS44616	13375	537	178	59939488	59950513	-1	MS4A6	CD20L3
11	MS4A6A	ENSG00000110077	ENST00000530839	protein_coding	KNOWN	CCDS7981	13375	747	248	59939488	59952139	-1	MS4A6	CD20L3
11	MS4A6A	ENSG00000110077	ENST00000533989	protein_coding	NOVEL	None	13375	341	112	59939492	59949139	-1	MS4A6	CD20L3
11	MS4A6A	ENSG00000110077	ENST00000531914	retained_intron	KNOWN	None	13375	None	None	59939493	59945826	-1	MS4A6	CD20L3
11	MS4A6A	ENSG00000110077	ENST00000529054	protein_coding	PUTATIVE	None	13375	831	276	59939520	59952106	-1	MS4A6	CD20L3
11	MS4A6A	ENSG00000110077	ENST00000412309	protein_coding	PUTATIVE	CCDS58134	13375	762	253	59939970	59950696	-1	MS4A6	CD20L3
11	MS4A6A	ENSG00000110077	ENST00000533023	protein_coding	PUTATIVE	None	13375	345	114	59940144	59950504	-1	MS4A6	CD20L3
11	MS4A6A	ENSG00000110077	ENST00000527254	nonsense_mediated_decay	KNOWN	None	13375	363	120	59940501	59950540	-1	MS4A6	CD20L3
11	MS4A6A	ENSG00000110077	ENST00000529906	processed_transcript	KNOWN	None	13375	None	None	59944492	59947438	-1	MS4A6	CD20L3
11	MS4A6A	ENSG00000110077	ENST00000525549	retained_intron	KNOWN	None	13375	None	None	59945452	59950503	-1	MS4A6	CD20L3
11	MS4A6A	ENSG00000110077	ENST00000530179	retained_intron	KNOWN	None	13375	None	None	59945644	59950556	-1	MS4A6	CD20L3
11	MS4A6A	ENSG00000110077	ENST00000526677	retained_intron	KNOWN	None	13375	None	None	59946964	59950615	-1	MS4A6	CD20L3
11	MS4A6A	ENSG00000110077	ENST00000532169	protein_coding	PUTATIVE	None	13375	426	141	59946964	59951891	-1	MS4A6	CD20L3
11	MS4A6A	ENSG00000110077	ENST00000534596	protein_coding	PUTATIVE	None	13375	303	100	59947367	59951893	-1	MS4A6	CD20L3
11	MS4A6A	ENSG00000110077	ENST00000533660	retained_intron	KNOWN	None	13375	None	None	59948885	59950031	-1	MS4A6	CD20L3
11	MS4A6A	ENSG00000110077	ENST00000531531	protein_coding	PUTATIVE	None	13375	231	76	59949054	59951986	-1	MS4A6	CD20L3
11	MS4A6A	ENSG00000110077	ENST00000533409	protein_coding	KNOWN	None	13375	69	22	59949132	59951439	-1	MS4A6	CD20L3
11	MS4A6A	ENSG00000110077	ENST00000526697	retained_intron	KNOWN	None	13375	None	None	59950278	59951216	-1	MS4A6	CD20L3
11	MS4A6A	ENSG00000110077	ENST00000528925	processed_transcript	PUTATIVE	None	13375	None	None	59950643	59952139	-1	MS4A6	CD20L3
11	MS4A6A	ENSG00000110077	ENST00000323961	protein_coding	KNOWN	CCDS7981	13375	747	248	59939081	59950674	-1	MS4A6	CD20L3
11	MS4A6A	ENSG00000110077	ENST00000426738	protein_coding	KNOWN	None	13375	543	180	59939544	59950499	-1	MS4A6	CD20L3
4	ALB	ENSG00000163631	ENST00000441319	protein_coding	PUTATIVE	None	399	591	196	74262831	74275174	1	None	None
4	ALB	ENSG00000163631	ENST00000295897	protein_coding	KNOWN	CCDS3555	399	1830	609	74269956	74287129	1	None	None
4	ALB	ENSG00000163631	ENST00000510166	processed_transcript	KNOWN	None	399	None	None	74270004	74274536	1	None	None
4	ALB	ENSG00000163631	ENST00000515133	retained_intron	KNOWN	None	399	None	None	74270004	74274664	1	None	None
4	ALB	ENSG00000163631	ENST00000415165	protein_coding	KNOWN	None	399	1254	417	74270004	74286973	1	None	None
4	ALB	ENSG00000163631	ENST00000514786	processed_transcript	KNOWN	None	399	None	None	74270006	74275197	1	None	None
4	ALB	ENSG00000163631	ENST00000476441	nonsense_mediated_decay	KNOWN	None	399	318	105	74270018	74286935	1	None	None
4	ALB	ENSG00000163631	ENST00000503124	protein_coding	PUTATIVE	None	399	1380	459	74270018	74286939	1	None	None
4	ALB	ENSG00000163631	ENST00000509063	protein_coding	NOVEL	None	399	1815	604	74270021	74286910	1	None	None
4	ALB	ENSG00000163631	ENST00000401494	protein_coding	NOVEL	None	399	1485	494	74270025	74286939	1	None	None
4	ALB	ENSG00000163631	ENST00000505649	processed_transcript	KNOWN	None	399	None	None	74274355	74286917	1	None	None
4	ALB	ENSG00000163631	ENST00000511370	protein_coding	PUTATIVE	None	399	1363	453	74275057	74286941	1	None	None
4	ALB	ENSG00000163631	ENST00000507673	retained_intron	KNOWN	None	399	None	None	74276097	74277944	1	None	None
4	ALB	ENSG00000163631	ENST00000484992	retained_intron	KNOWN	None	399	None	None	74278974	74283331	1	None	None
4	ALB	ENSG00000163631	ENST00000504043	retained_intron	KNOWN	None	399	None	None	74279291	74281112	1	None	None
4	ALB	ENSG00000163631	ENST00000486939	retained_intron	KNOWN	None	399	None	None	74283723	74285262	1	None	None
4	ALB	ENSG00000163631	ENST00000508932	retained_intron	KNOWN	None	399	None	None	74284998	74286934	1	None	None
4	ALB	ENSG00000163631	ENST00000495173	processed_transcript	KNOWN	None	399	None	None	74285264	74286936	1	None	None
7	TBRG4	ENSG00000136270	ENST00000258770	protein_coding	KNOWN	CCDS5501	17443	1896	631	45139699	45151313	-1	None	Cpr2, KIAA0948, H_TD2522F11.8, FASTKD4
7	TBRG4	ENSG00000136270	ENST00000361278	protein_coding	KNOWN	CCDS5502	17443	1566	521	45139699	45151317	-1	None	Cpr2, KIAA0948, H_TD2522F11.8, FASTKD4
7	TBRG4	ENSG00000136270	ENST00000395655	protein_coding	KNOWN	CCDS5502	17443	1566	521	45139699	45151646	-1	None	Cpr2, KIAA0948, H_TD2522F11.8, FASTKD4
7	TBRG4	ENSG00000136270	ENST00000495973	retained_intron	KNOWN	None	17443	None	None	45139700	45147063	-1	None	Cpr2, KIAA0948, H_TD2522F11.8, FASTKD4
7	TBRG4	ENSG00000136270	ENST00000494076	protein_coding	KNOWN	CCDS5501	17443	1896	631	45139700	45151305	-1	None	Cpr2, KIAA0948, H_TD2522F11.8, FASTKD4
7	TBRG4	ENSG00000136270	ENST00000483615	protein_coding	PUTATIVE	None	17443	822	273	45141102	45143839	-1	None	Cpr2, KIAA0948, H_TD2522F11.8, FASTKD4
7	TBRG4	ENSG00000136270	ENST00000482482	retained_intron	KNOWN	None	17443	None	None	45141199	45142170	-1	None	Cpr2, KIAA0948, H_TD2522F11.8, FASTKD4
7	TBRG4	ENSG00000136270	ENST00000478116	retained_intron	KNOWN	None	17443	None	None	45141373	45142289	-1	None	Cpr2, KIAA0948, H_TD2522F11.8, FASTKD4
7	TBRG4	ENSG00000136270	ENST00000488222	retained_intron	KNOWN	None	17443	None	None	45142630	45145268	-1	None	Cpr2, KIAA0948, H_TD2522F11.8, FASTKD4
7	TBRG4	ENSG00000136270	ENST00000484326	retained_intron	KNOWN	None	17443	None	None	45143231	45145077	-1	None	Cpr2, KIAA0948, H_TD2522F11.8, FASTKD4
7	TBRG4	ENSG00000136270	ENST00000478532	protein_coding	NOVEL	None	17443	850	282	45143808	45151307	-1	None	Cpr2, KIAA0948, H_TD2522F11.8, FASTKD4
7	TBRG4	ENSG00000136270	ENST00000461363	protein_coding	PUTATIVE	None	17443	745	247	45144137	45151279	-1	None	Cpr2, KIAA0948, H_TD2522F11.8, FASTKD4
7	TBRG4	ENSG00000136270	ENST00000477328	retained_intron	KNOWN	None	17443	None	None	45144885	45148542	-1	None	Cpr2, KIAA0948, H_TD2522F11.8, FASTKD4
7	TBRG4	ENSG00000136270	ENST00000471142	processed_transcript	KNOWN	None	17443	None	None	45147350	45151296	-1	None	Cpr2, KIAA0948, H_TD2522F11.8, FASTKD4
7	TBRG4	ENSG00000136270	ENST00000475893	protein_coding	KNOWN	None	17443	384	127	45148453	45151620	-1	None	Cpr2, KIAA0948, H_TD2522F11.8, FASTKD4
7	TBRG4	ENSG00000136270	ENST00000482285	protein_coding	KNOWN	None	17443	354	117	45148483	45151100	-1	None	Cpr2, KIAA0948, H_TD2522F11.8, FASTKD4
7	TBRG4	ENSG00000136270	ENST00000495078	protein_coding	KNOWN	None	17443	310	102	45148527	45151296	-1	None	Cpr2, KIAA0948, H_TD2522F11.8, FASTKD4
2	EPHA4	ENSG00000116106	ENST00000469354	processed_transcript	PUTATIVE	None	3388	None	None	222282747	222290295	-1	TYRO1	Hek8
2	EPHA4	ENSG00000116106	ENST00000472696	processed_transcript	PUTATIVE	None	3388	None	None	222285165	222290260	-1	TYRO1	Hek8
2	EPHA4	ENSG00000116106	ENST00000409854	protein_coding	PUTATIVE	None	3388	2850	949	222290319	222437003	-1	TYRO1	Hek8
2	EPHA4	ENSG00000116106	ENST00000409938	protein_coding	KNOWN	CCDS2447	3388	2961	986	222290621	222438922	-1	TYRO1	Hek8
2	EPHA4	ENSG00000116106	ENST00000424339	nonsense_mediated_decay	KNOWN	None	3388	114	37	222290635	222298969	-1	TYRO1	Hek8
2	EPHA4	ENSG00000116106	ENST00000495693	retained_intron	KNOWN	None	3388	None	None	222301177	222302216	-1	TYRO1	Hek8
2	EPHA4	ENSG00000116106	ENST00000443796	protein_coding	NOVEL	None	3388	532	176	222322609	222437020	-1	TYRO1	Hek8
2	EPHA4	ENSG00000116106	ENST00000441679	protein_coding	NOVEL	None	3388	565	187	222322674	222367280	-1	TYRO1	Hek8
2	EPHA4	ENSG00000116106	ENST00000463446	retained_intron	KNOWN	None	3388	None	None	222347160	222366064	-1	TYRO1	Hek8
2	EPHA4	ENSG00000116106	ENST00000415749	nonsense_mediated_decay	KNOWN	None	3388	117	38	222428713	222437020	-1	TYRO1	Hek8
2	EPHA4	ENSG00000116106	ENST00000419964	protein_coding	PUTATIVE	None	3388	380	125	222428717	222434201	-1	TYRO1	Hek8
2	EPHA4	ENSG00000116106	ENST00000541600	protein_coding	KNOWN	None	3388	448	148	222428826	222437078	-1	TYRO1	Hek8
2	EPHA4	ENSG00000116106	ENST00000434266	protein_coding	KNOWN	None	3388	275	90	222428999	222438878	-1	TYRO1	Hek8
2	EPHA4	ENSG00000116106	ENST00000281821	protein_coding	KNOWN	CCDS2447	3388	2961	986	222282749	222437010	-1	TYRO1	Hek8
2	EPHA4	ENSG00000116106	ENST00000392071	protein_coding	KNOWN	None	3388	2808	935	222290644	222437016	-1	TYRO1	Hek8
5	STC2	ENSG00000113739	ENST00000265087	protein_coding	KNOWN	CCDS4388	11374	909	302	172741716	172756506	-1	None	STC-2
5	STC2	ENSG00000113739	ENST00000520593	processed_transcript	PUTATIVE	None	11374	None	None	172745181	172751289	-1	None	STC-2
5	STC2	ENSG00000113739	ENST00000520648	protein_coding	PUTATIVE	None	11374	370	122	172749972	172755056	-1	None	STC-2
5	STC2	ENSG00000113739	ENST00000518455	protein_coding	PUTATIVE	None	11374	160	52	172750313	172753800	-1	None	STC-2
5	STC2	ENSG00000113739	ENST00000519511	retained_intron	KNOWN	None	11374	None	None	172752837	172755450	-1	None	STC-2
19	SPRED3	ENSG00000188766	ENST00000587013	protein_coding	PUTATIVE	None	31041	1365	454	38879061	38886881	1	None	None
19	SPRED3	ENSG00000188766	ENST00000586301	protein_coding	KNOWN	CCDS42560	31041	1233	410	38880252	38886788	1	None	None
19	SPRED3	ENSG00000188766	ENST00000587947	protein_coding	KNOWN	None	31041	544	180	38880695	38885403	1	None	None
19	SPRED3	ENSG00000188766	ENST00000338502	protein_coding	KNOWN	CCDS42560	31041	1233	410	38880840	38886868	1	None	None
19	SPRED3	ENSG00000188766	ENST00000587564	processed_transcript	KNOWN	None	31041	None	None	38880939	38885116	1	None	None
19	SPRED3	ENSG00000188766	ENST00000586958	nonsense_mediated_decay	KNOWN	None	31041	366	121	38880939	38885310	1	None	None
19	SPRED3	ENSG00000188766	ENST00000590962	retained_intron	KNOWN	None	31041	None	None	38882631	38883287	1	None	None
6	GABRR2	ENSG00000111886	ENST00000602432	retained_intron	KNOWN	None	4091	None	None	89966927	89979072	-1	None	None
6	GABRR2	ENSG00000111886	ENST00000402938	protein_coding	KNOWN	CCDS5020	4091	1398	465	89967239	90025018	-1	None	None
6	GABRR2	ENSG00000111886	ENST00000602808	processed_transcript	KNOWN	None	4091	None	None	89980112	90025018	-1	None	None
6	GABRR2	ENSG00000111886	ENST00000602399	protein_coding	KNOWN	None	4091	1473	490	89967239	90024967	-1	None	None
5	BOD1	ENSG00000145919	ENST00000311086	protein_coding	KNOWN	CCDS4389	25114	558	185	173034517	173043663	-1	FAM44B	None
5	BOD1	ENSG00000145919	ENST00000285908	protein_coding	KNOWN	CCDS54951	25114	390	129	173034524	173043591	-1	FAM44B	None
5	BOD1	ENSG00000145919	ENST00000477985	protein_coding	PUTATIVE	None	25114	355	117	173034802	173043361	-1	FAM44B	None
5	BOD1	ENSG00000145919	ENST00000480951	protein_coding	PUTATIVE	None	25114	258	85	173034936	173043656	-1	FAM44B	None
5	BOD1	ENSG00000145919	ENST00000518658	retained_intron	KNOWN	None	25114	None	None	173035063	173036743	-1	FAM44B	None
5	BOD1	ENSG00000145919	ENST00000462674	protein_coding	PUTATIVE	None	25114	125	40	173036360	173041855	-1	FAM44B	None
5	BOD1	ENSG00000145919	ENST00000471339	processed_transcript	KNOWN	None	25114	None	None	173036571	173043662	-1	FAM44B	None
14	None	ENSG00000197775	ENST00000354854	protein_coding	KNOWN	None	None	198	65	24407940	24409196	1	None	None
6	UBE2J1	ENSG00000198833	ENST00000435041	protein_coding	KNOWN	CCDS5021	17598	957	318	90036344	90062567	-1	None	HSPC153, CGI-76, NCUBE1, UBC6
2	PAX3	ENSG00000135903	ENST00000392069	protein_coding	KNOWN	CCDS2448	8617	1518	505	223064607	223163700	-1	WS1	HUP2
2	PAX3	ENSG00000135903	ENST00000344493	protein_coding	KNOWN	CCDS2450	8617	1212	403	223064607	223163715	-1	WS1	HUP2
2	PAX3	ENSG00000135903	ENST00000350526	protein_coding	KNOWN	CCDS42826	8617	1440	479	223064610	223163471	-1	WS1	HUP2
2	PAX3	ENSG00000135903	ENST00000336840	protein_coding	KNOWN	CCDS2449	8617	1224	407	223065507	223163715	-1	WS1	HUP2
2	PAX3	ENSG00000135903	ENST00000392070	protein_coding	KNOWN	CCDS42825	8617	1455	484	223065705	223163715	-1	WS1	HUP2
2	PAX3	ENSG00000135903	ENST00000409551	protein_coding	KNOWN	CCDS46522	8617	1452	483	223066077	223163614	-1	WS1	HUP2
2	PAX3	ENSG00000135903	ENST00000464706	processed_transcript	KNOWN	None	8617	None	None	223066685	223086418	-1	WS1	HUP2
2	PAX3	ENSG00000135903	ENST00000555548	processed_transcript	KNOWN	None	8617	None	None	223066856	223086129	-1	WS1	HUP2
2	PAX3	ENSG00000135903	ENST00000409828	protein_coding	KNOWN	CCDS46523	8617	648	215	223158349	223163465	-1	WS1	HUP2
2	PAX3	ENSG00000135903	ENST00000258387	protein_coding	KNOWN	CCDS2451	8617	621	206	223158355	223163584	-1	WS1	HUP2
19	FAM98C	ENSG00000130244	ENST00000588262	protein_coding	PUTATIVE	None	27119	561	186	38893775	38899680	1	None	FLJ44669
19	FAM98C	ENSG00000130244	ENST00000252530	protein_coding	KNOWN	CCDS42562	27119	1050	349	38893775	38899724	1	None	FLJ44669
19	FAM98C	ENSG00000130244	ENST00000343358	protein_coding	KNOWN	None	27119	804	267	38893794	38899724	1	None	FLJ44669
19	FAM98C	ENSG00000130244	ENST00000588348	retained_intron	KNOWN	None	27119	None	None	38893794	38899728	1	None	FLJ44669
19	FAM98C	ENSG00000130244	ENST00000589408	protein_coding	PUTATIVE	None	27119	542	179	38893809	38895636	1	None	FLJ44669
19	FAM98C	ENSG00000130244	ENST00000589029	nonsense_mediated_decay	KNOWN	None	27119	169	55	38893827	38895636	1	None	FLJ44669
19	FAM98C	ENSG00000130244	ENST00000586372	retained_intron	KNOWN	None	27119	None	None	38893978	38899723	1	None	FLJ44669
19	FAM98C	ENSG00000130244	ENST00000585954	processed_transcript	KNOWN	None	27119	None	None	38894305	38895753	1	None	FLJ44669
19	FAM98C	ENSG00000130244	ENST00000592992	retained_intron	KNOWN	None	27119	None	None	38895894	38896548	1	None	FLJ44669
19	FAM98C	ENSG00000130244	ENST00000589027	retained_intron	KNOWN	None	27119	None	None	38897384	38899726	1	None	FLJ44669
17	ODF4	ENSG00000184650	ENST00000328248	protein_coding	KNOWN	CCDS11140	19056	774	257	8243182	8249364	1	None	OPPO1, CT136
17	ODF4	ENSG00000184650	ENST00000584943	protein_coding	NOVEL	None	19056	429	142	8243188	8249363	1	None	OPPO1, CT136
17	None	ENSG00000198150	ENST00000535173	protein_coding	KNOWN	None	None	414	137	8261731	8263538	-1	None	None
17	KRBA2	ENSG00000184619	ENST00000396267	protein_coding	PUTATIVE	None	26989	1233	410	8271955	8280029	-1	None	None
17	KRBA2	ENSG00000184619	ENST00000331336	protein_coding	KNOWN	CCDS11141	26989	1479	492	8271973	8274858	-1	None	None
2	CCDC140	ENSG00000163081	ENST00000295226	protein_coding	KNOWN	CCDS2452	26514	492	163	223162866	223169936	1	None	FLJ32447
2	CCDC140	ENSG00000163081	ENST00000440903	protein_coding	KNOWN	None	26514	51	16	223167697	223168672	1	None	FLJ32447
17	None	ENSG00000263809	ENST00000582471	nonsense_mediated_decay	KNOWN	None	None	324	107	8271956	8286505	-1	None	None
2	SGPP2	ENSG00000163082	ENST00000321276	protein_coding	KNOWN	CCDS2453	19953	1200	399	223289236	223425667	1	None	SPP2, FLJ39004
X	NXF2	ENSG00000185554	ENST00000372763	protein_coding	KNOWN	None	8072	1230	409	101478829	101581634	1	None	CT39, TAPL-2
X	NXF2	ENSG00000185554	ENST00000372758	protein_coding	KNOWN	CCDS14497	8072	1881	626	101478939	101581631	1	None	CT39, TAPL-2
X	NXF2	ENSG00000185554	ENST00000372757	protein_coding	KNOWN	CCDS14497	8072	1881	626	101502170	101581631	1	None	CT39, TAPL-2
X	NXF2	ENSG00000185554	ENST00000472029	processed_transcript	KNOWN	None	8072	None	None	101576203	101577414	1	None	CT39, TAPL-2
X	NXF2	ENSG00000185554	ENST00000395088	protein_coding	KNOWN	CCDS14497	8072	1881	626	101470280	101581634	1	None	CT39, TAPL-2
X	NXF2	ENSG00000185554	ENST00000330252	protein_coding	KNOWN	CCDS14497	8072	1881	626	101470280	101581631	1	None	CT39, TAPL-2
2	FARSB	ENSG00000116120	ENST00000281828	protein_coding	KNOWN	CCDS2454	17800	1770	589	223435255	223521056	-1	FARSLB	PheHB, FRSB
2	FARSB	ENSG00000116120	ENST00000536361	protein_coding	KNOWN	None	17800	1473	490	223436464	223520770	-1	FARSLB	PheHB, FRSB
2	MOGAT1	ENSG00000124003	ENST00000446656	protein_coding	KNOWN	CCDS46524	18210	1008	335	223536505	223574649	1	DGAT2L1	DGAT2L, MGAT1
2	ACSL3	ENSG00000123983	ENST00000357430	protein_coding	KNOWN	CCDS2455	3570	2163	720	223725652	223809357	1	FACL3	ACS3, PRO2194
2	ACSL3	ENSG00000123983	ENST00000392066	protein_coding	KNOWN	CCDS2455	3570	2163	720	223725660	223806940	1	FACL3	ACS3, PRO2194
2	ACSL3	ENSG00000123983	ENST00000535678	protein_coding	KNOWN	None	3570	287	94	223725744	223773777	1	FACL3	ACS3, PRO2194
2	ACSL3	ENSG00000123983	ENST00000413316	protein_coding	KNOWN	None	3570	264	87	223726281	223773754	1	FACL3	ACS3, PRO2194
2	ACSL3	ENSG00000123983	ENST00000542810	retained_intron	KNOWN	None	3570	None	None	223773803	223781398	1	FACL3	ACS3, PRO2194
2	ACSL3	ENSG00000123983	ENST00000540115	protein_coding	PUTATIVE	None	3570	423	140	223774334	223786071	1	FACL3	ACS3, PRO2194
2	ACSL3	ENSG00000123983	ENST00000463813	retained_intron	KNOWN	None	3570	None	None	223782406	223783822	1	FACL3	ACS3, PRO2194
2	ACSL3	ENSG00000123983	ENST00000421680	protein_coding	PUTATIVE	None	3570	639	212	223785672	223791771	1	FACL3	ACS3, PRO2194
2	ACSL3	ENSG00000123983	ENST00000407441	protein_coding	NOVEL	None	3570	538	178	223789272	223806245	1	FACL3	ACS3, PRO2194
2	ACSL3	ENSG00000123983	ENST00000474422	retained_intron	KNOWN	None	3570	None	None	223795329	223798441	1	FACL3	ACS3, PRO2194
2	ACSL3	ENSG00000123983	ENST00000495541	retained_intron	KNOWN	None	3570	None	None	223797736	223806542	1	FACL3	ACS3, PRO2194
2	KCNE4	ENSG00000152049	ENST00000281830	protein_coding	KNOWN	None	6244	666	221	223916532	223920355	1	None	MiRP3
2	KCNE4	ENSG00000152049	ENST00000488477	processed_transcript	KNOWN	None	6244	None	None	223916918	224063117	1	None	MiRP3
2	KCNE4	ENSG00000152049	ENST00000604125	protein_coding	KNOWN	CCDS2456	6244	513	170	223916862	223920353	1	None	MiRP3
2	SCG2	ENSG00000171951	ENST00000305409	protein_coding	KNOWN	CCDS2457	10575	1854	617	224461658	224467221	-1	None	CHGC, SgII, SN
2	SCG2	ENSG00000171951	ENST00000421386	protein_coding	KNOWN	None	10575	432	143	224463569	224467002	-1	None	CHGC, SgII, SN
2	SCG2	ENSG00000171951	ENST00000433889	protein_coding	KNOWN	None	10575	377	124	224463624	224467079	-1	None	CHGC, SgII, SN
2	AP1S3	ENSG00000152056	ENST00000443700	protein_coding	KNOWN	None	18971	495	164	224616403	224702319	-1	None	None
2	AP1S3	ENSG00000152056	ENST00000415298	nonsense_mediated_decay	KNOWN	None	18971	315	104	224621706	224702452	-1	None	None
2	AP1S3	ENSG00000152056	ENST00000334271	nonsense_mediated_decay	KNOWN	None	18971	246	81	224621707	224702287	-1	None	None
2	AP1S3	ENSG00000152056	ENST00000396654	protein_coding	KNOWN	CCDS42827	18971	465	154	224623199	224702299	-1	None	None
2	AP1S3	ENSG00000152056	ENST00000396653	protein_coding	PUTATIVE	None	18971	192	63	224629795	224702299	-1	None	None
2	AP1S3	ENSG00000152056	ENST00000446015	protein_coding	KNOWN	None	18971	465	154	224629894	224702201	-1	None	None
2	AP1S3	ENSG00000152056	ENST00000444408	protein_coding	PUTATIVE	None	18971	170	55	224629985	224702744	-1	None	None
2	AP1S3	ENSG00000152056	ENST00000409375	protein_coding	PUTATIVE	None	18971	414	137	224630027	224702258	-1	None	None
2	AP1S3	ENSG00000152056	ENST00000423110	protein_coding	KNOWN	None	18971	315	104	224638045	224702299	-1	None	None
2	WDFY1	ENSG00000085449	ENST00000462702	processed_transcript	KNOWN	None	20451	None	None	224720433	224743405	-1	None	KIAA1435, FENS-1, WDF1, ZFYVE17
2	WDFY1	ENSG00000085449	ENST00000233055	protein_coding	KNOWN	CCDS33387	20451	1233	410	224740064	224810104	-1	None	KIAA1435, FENS-1, WDF1, ZFYVE17
2	WDFY1	ENSG00000085449	ENST00000491453	retained_intron	KNOWN	None	20451	None	None	224749386	224759177	-1	None	KIAA1435, FENS-1, WDF1, ZFYVE17
2	WDFY1	ENSG00000085449	ENST00000493001	retained_intron	KNOWN	None	20451	None	None	224758952	224763993	-1	None	KIAA1435, FENS-1, WDF1, ZFYVE17
2	WDFY1	ENSG00000085449	ENST00000429915	protein_coding	NOVEL	None	20451	646	214	224759007	224810074	-1	None	KIAA1435, FENS-1, WDF1, ZFYVE17
2	WDFY1	ENSG00000085449	ENST00000483061	retained_intron	KNOWN	None	20451	None	None	224765572	224810052	-1	None	KIAA1435, FENS-1, WDF1, ZFYVE17
2	MRPL44	ENSG00000135900	ENST00000258383	protein_coding	KNOWN	CCDS2459	16650	999	332	224822121	224832431	1	None	FLJ12701, FLJ13990
2	SERPINE2	ENSG00000135919	ENST00000409304	protein_coding	KNOWN	CCDS46526	8951	1194	397	224839829	224904005	-1	PI7	PN1, GDN, PNI, nexin
2	SERPINE2	ENSG00000135919	ENST00000258405	protein_coding	KNOWN	CCDS2460	8951	1197	398	224839829	224904036	-1	PI7	PN1, GDN, PNI, nexin
2	SERPINE2	ENSG00000135919	ENST00000473202	retained_intron	KNOWN	None	8951	None	None	224839870	224847497	-1	PI7	PN1, GDN, PNI, nexin
2	SERPINE2	ENSG00000135919	ENST00000409840	protein_coding	NOVEL	CCDS46526	8951	1194	397	224839870	224896195	-1	PI7	PN1, GDN, PNI, nexin
2	SERPINE2	ENSG00000135919	ENST00000447280	protein_coding	PUTATIVE	CCDS46525	8951	1230	409	224840399	224903521	-1	PI7	PN1, GDN, PNI, nexin
2	SERPINE2	ENSG00000135919	ENST00000478966	retained_intron	KNOWN	None	8951	None	None	224840531	224849785	-1	PI7	PN1, GDN, PNI, nexin
2	SERPINE2	ENSG00000135919	ENST00000432738	protein_coding	KNOWN	None	8951	827	274	224849526	224878666	-1	PI7	PN1, GDN, PNI, nexin
2	SERPINE2	ENSG00000135919	ENST00000489065	retained_intron	KNOWN	None	8951	None	None	224866269	224904007	-1	PI7	PN1, GDN, PNI, nexin
2	SERPINE2	ENSG00000135919	ENST00000454956	protein_coding	KNOWN	None	8951	260	85	224866358	224904035	-1	PI7	PN1, GDN, PNI, nexin
2	SERPINE2	ENSG00000135919	ENST00000423446	protein_coding	KNOWN	None	8951	127	41	224866491	224895518	-1	PI7	PN1, GDN, PNI, nexin
2	FAM124B	ENSG00000124019	ENST00000389874	protein_coding	KNOWN	CCDS2461	26224	819	272	225243415	225266711	-1	None	FLJ22746
2	FAM124B	ENSG00000124019	ENST00000409685	protein_coding	KNOWN	CCDS46527	26224	1368	455	225243415	225266751	-1	None	FLJ22746
2	FAM124B	ENSG00000124019	ENST00000243806	protein_coding	KNOWN	CCDS2461	26224	819	272	225264242	225266802	-1	None	FLJ22746
2	CUL3	ENSG00000036257	ENST00000264414	protein_coding	KNOWN	CCDS2462	2553	2307	768	225334867	225450065	-1	None	None
2	CUL3	ENSG00000036257	ENST00000497715	retained_intron	KNOWN	None	2553	None	None	225338619	225344841	-1	None	None
2	CUL3	ENSG00000036257	ENST00000454323	nonsense_mediated_decay	KNOWN	None	2553	132	43	225338627	225360623	-1	None	None
2	CUL3	ENSG00000036257	ENST00000409096	protein_coding	KNOWN	None	2553	2235	744	225338639	225434542	-1	None	None
2	CUL3	ENSG00000036257	ENST00000409777	protein_coding	KNOWN	None	2553	2235	744	225338656	225428016	-1	None	None
2	CUL3	ENSG00000036257	ENST00000451538	protein_coding	NOVEL	None	2553	334	110	225338750	225362536	-1	None	None
2	CUL3	ENSG00000036257	ENST00000536702	processed_transcript	KNOWN	None	2553	None	None	225343020	225350101	-1	None	None
2	CUL3	ENSG00000036257	ENST00000487558	retained_intron	KNOWN	None	2553	None	None	225359723	225365114	-1	None	None
2	CUL3	ENSG00000036257	ENST00000481135	retained_intron	KNOWN	None	2553	None	None	225367709	225369041	-1	None	None
2	CUL3	ENSG00000036257	ENST00000484081	retained_intron	KNOWN	None	2553	None	None	225370466	225376128	-1	None	None
2	CUL3	ENSG00000036257	ENST00000541548	processed_transcript	KNOWN	None	2553	None	None	225376155	225397811	-1	None	None
2	CUL3	ENSG00000036257	ENST00000432260	processed_transcript	KNOWN	None	2553	None	None	225378332	225422537	-1	None	None
2	CUL3	ENSG00000036257	ENST00000436172	protein_coding	NOVEL	None	2553	576	191	225379353	225428037	-1	None	None
2	CUL3	ENSG00000036257	ENST00000546102	processed_transcript	KNOWN	None	2553	None	None	225400324	225425385	-1	None	None
2	CUL3	ENSG00000036257	ENST00000344951	protein_coding	KNOWN	CCDS58751	2553	2109	702	225334869	225450110	-1	None	None
14	DHRS4	ENSG00000157326	ENST00000313250	protein_coding	KNOWN	CCDS9605	16985	837	278	24422795	24438483	1	None	SCAD-SRL, SDR-SRL, humNRDR, FLJ11008, SDR25C2
14	DHRS4	ENSG00000157326	ENST00000558263	protein_coding	KNOWN	None	16985	567	188	24422943	24438483	1	None	SCAD-SRL, SDR-SRL, humNRDR, FLJ11008, SDR25C2
14	DHRS4	ENSG00000157326	ENST00000543741	protein_coding	PUTATIVE	None	16985	468	155	24422979	24437332	1	None	SCAD-SRL, SDR-SRL, humNRDR, FLJ11008, SDR25C2
14	DHRS4	ENSG00000157326	ENST00000397075	protein_coding	KNOWN	None	16985	579	192	24422988	24438218	1	None	SCAD-SRL, SDR-SRL, humNRDR, FLJ11008, SDR25C2
14	DHRS4	ENSG00000157326	ENST00000397074	protein_coding	KNOWN	None	16985	477	158	24422995	24438385	1	None	SCAD-SRL, SDR-SRL, humNRDR, FLJ11008, SDR25C2
14	DHRS4	ENSG00000157326	ENST00000559632	protein_coding	KNOWN	None	16985	600	199	24422998	24438483	1	None	SCAD-SRL, SDR-SRL, humNRDR, FLJ11008, SDR25C2
14	DHRS4	ENSG00000157326	ENST00000558581	protein_coding	NOVEL	None	16985	735	244	24422998	24438488	1	None	SCAD-SRL, SDR-SRL, humNRDR, FLJ11008, SDR25C2
14	DHRS4	ENSG00000157326	ENST00000559975	protein_coding	PUTATIVE	None	16985	186	61	24435567	24438483	1	None	SCAD-SRL, SDR-SRL, humNRDR, FLJ11008, SDR25C2
14	DHRS4	ENSG00000157326	ENST00000421831	protein_coding	KNOWN	None	16985	681	226	24422979	24438080	1	None	SCAD-SRL, SDR-SRL, humNRDR, FLJ11008, SDR25C2
14	DHRS4	ENSG00000157326	ENST00000397073	protein_coding	KNOWN	None	16985	546	181	24422979	24438080	1	None	SCAD-SRL, SDR-SRL, humNRDR, FLJ11008, SDR25C2
14	DHRS4	ENSG00000157326	ENST00000308178	protein_coding	KNOWN	None	16985	423	140	24422979	24438080	1	None	SCAD-SRL, SDR-SRL, humNRDR, FLJ11008, SDR25C2
14	DHRS4	ENSG00000157326	ENST00000382761	protein_coding	KNOWN	None	16985	513	170	24422979	24438016	1	None	SCAD-SRL, SDR-SRL, humNRDR, FLJ11008, SDR25C2
20	None	ENSG00000260903	ENST00000562532	sense_overlapping	KNOWN	None	None	None	None	30586850	30591190	1	None	None
20	RNA5SP481	ENSG00000252623	ENST00000516814	rRNA	KNOWN	None	43381	None	None	30596154	30596275	1	RN5S481	None
20	None	ENSG00000226239	ENST00000449519	antisense	KNOWN	None	None	None	None	30615556	30619378	-1	None	None
20	RNA5SP482	ENSG00000212571	ENST00000391269	rRNA	KNOWN	None	43382	None	None	30638391	30638508	1	RN5S482	None
2	DOCK10	ENSG00000135905	ENST00000409592	protein_coding	KNOWN	None	23479	6543	2180	225629807	225811782	-1	None	ZIZ3, KIAA0694
2	DOCK10	ENSG00000135905	ENST00000258390	protein_coding	KNOWN	CCDS46528	23479	6561	2186	225629807	225907159	-1	None	ZIZ3, KIAA0694
2	DOCK10	ENSG00000135905	ENST00000535663	protein_coding	NOVEL	None	23479	568	188	225637958	225651835	-1	None	ZIZ3, KIAA0694
2	DOCK10	ENSG00000135905	ENST00000492251	retained_intron	KNOWN	None	23479	None	None	225657691	225659843	-1	None	ZIZ3, KIAA0694
2	DOCK10	ENSG00000135905	ENST00000422684	protein_coding	NOVEL	None	23479	1140	379	225664879	225681369	-1	None	ZIZ3, KIAA0694
2	DOCK10	ENSG00000135905	ENST00000489831	retained_intron	KNOWN	None	23479	None	None	225671962	225672650	-1	None	ZIZ3, KIAA0694
2	DOCK10	ENSG00000135905	ENST00000472652	retained_intron	KNOWN	None	23479	None	None	225702446	225704922	-1	None	ZIZ3, KIAA0694
2	DOCK10	ENSG00000135905	ENST00000492369	retained_intron	KNOWN	None	23479	None	None	225725297	225907159	-1	None	ZIZ3, KIAA0694
2	DOCK10	ENSG00000135905	ENST00000543715	retained_intron	KNOWN	None	23479	None	None	225739417	225750971	-1	None	ZIZ3, KIAA0694
2	DOCK10	ENSG00000135905	ENST00000471810	processed_transcript	KNOWN	None	23479	None	None	225750798	225847020	-1	None	ZIZ3, KIAA0694
2	DOCK10	ENSG00000135905	ENST00000474102	processed_transcript	KNOWN	None	23479	None	None	225758059	225811622	-1	None	ZIZ3, KIAA0694
2	DOCK10	ENSG00000135905	ENST00000435582	nonsense_mediated_decay	KNOWN	None	23479	429	142	225758265	225907162	-1	None	ZIZ3, KIAA0694
2	DOCK10	ENSG00000135905	ENST00000458608	nonsense_mediated_decay	KNOWN	None	23479	129	42	225848132	225907101	-1	None	ZIZ3, KIAA0694
20	None	ENSG00000265736	ENST00000583886	miRNA	NOVEL	None	None	None	None	30706457	30706554	-1	None	None
20	RSL24D1P6	ENSG00000224452	ENST00000426934	processed_pseudogene	KNOWN	None	37876	None	None	30758193	30758593	-1	RPL24P1	dJ836N17.3
2	NYAP2	ENSG00000144460	ENST00000272907	protein_coding	KNOWN	CCDS46529	29291	1962	653	226265364	226518734	1	KIAA1486	None
2	NYAP2	ENSG00000144460	ENST00000409269	protein_coding	KNOWN	None	29291	435	144	226273597	226491846	1	KIAA1486	None
20	TSPY26P	ENSG00000235217	ENST00000565928	processed_transcript	KNOWN	None	16256	None	None	30774280	30778163	-1	TSPYL3	bA392M18.1
20	TSPY26P	ENSG00000235217	ENST00000476365	transcribed_processed_pseudogene	KNOWN	None	16256	None	None	30777005	30778330	-1	TSPYL3	bA392M18.1
20	TSPY26P	ENSG00000235217	ENST00000400643	processed_pseudogene	KNOWN	None	16256	None	None	30777005	30778177	-1	TSPYL3	bA392M18.1
2	IRS1	ENSG00000169047	ENST00000305123	protein_coding	KNOWN	CCDS2463	6125	3729	1242	227599757	227664475	-1	None	HIRS-1
2	IRS1	ENSG00000169047	ENST00000498335	processed_transcript	KNOWN	None	6125	None	None	227656854	227659962	-1	None	HIRS-1
2	RHBDD1	ENSG00000144468	ENST00000424132	protein_coding	KNOWN	None	23081	404	133	227700297	227729813	1	None	DKFZp547E052
2	RHBDD1	ENSG00000144468	ENST00000341329	protein_coding	KNOWN	CCDS2464	23081	948	315	227700652	227863931	1	None	DKFZp547E052
2	RHBDD1	ENSG00000144468	ENST00000437454	protein_coding	KNOWN	None	23081	151	49	227700750	227729560	1	None	DKFZp547E052
2	RHBDD1	ENSG00000144468	ENST00000443477	protein_coding	KNOWN	None	23081	18	5	227700760	227729427	1	None	DKFZp547E052
2	RHBDD1	ENSG00000144468	ENST00000423616	protein_coding	KNOWN	None	23081	454	150	227700766	227731922	1	None	DKFZp547E052
2	RHBDD1	ENSG00000144468	ENST00000448992	protein_coding	KNOWN	None	23081	372	123	227700772	227729781	1	None	DKFZp547E052
2	RHBDD1	ENSG00000144468	ENST00000539613	processed_transcript	KNOWN	None	23081	None	None	227700798	227704342	1	None	DKFZp547E052
2	RHBDD1	ENSG00000144468	ENST00000450679	processed_transcript	KNOWN	None	23081	None	None	227702240	227704323	1	None	DKFZp547E052
2	RHBDD1	ENSG00000144468	ENST00000436481	protein_coding	KNOWN	None	23081	163	53	227702264	227729572	1	None	DKFZp547E052
2	RHBDD1	ENSG00000144468	ENST00000409053	protein_coding	PUTATIVE	None	23081	474	157	227771428	227853214	1	None	DKFZp547E052
2	RHBDD1	ENSG00000144468	ENST00000491490	retained_intron	KNOWN	None	23081	None	None	227771463	227860471	1	None	DKFZp547E052
2	RHBDD1	ENSG00000144468	ENST00000473218	retained_intron	KNOWN	None	23081	None	None	227771567	227779353	1	None	DKFZp547E052
2	RHBDD1	ENSG00000144468	ENST00000493526	processed_transcript	KNOWN	None	23081	None	None	227772937	227860617	1	None	DKFZp547E052
2	RHBDD1	ENSG00000144468	ENST00000483268	processed_transcript	KNOWN	None	23081	None	None	227799915	227860391	1	None	DKFZp547E052
2	RHBDD1	ENSG00000144468	ENST00000392062	protein_coding	KNOWN	CCDS2464	23081	948	315	227700671	227863917	1	None	DKFZp547E052
20	None	ENSG00000243952	ENST00000434904	processed_transcript	PUTATIVE	None	None	None	None	30822717	30824519	1	None	None
2	COL4A4	ENSG00000081052	ENST00000396625	protein_coding	KNOWN	CCDS42828	2206	5073	1690	227867427	228028829	-1	None	CA44
2	COL4A4	ENSG00000081052	ENST00000329662	protein_coding	KNOWN	None	2206	5064	1687	227872041	228028829	-1	None	CA44
2	COL4A3	ENSG00000169031	ENST00000396578	protein_coding	KNOWN	CCDS42829	2204	5013	1670	228029281	228179508	1	None	None
2	COL4A3	ENSG00000169031	ENST00000487633	retained_intron	KNOWN	None	2204	None	None	228149020	228155755	1	None	None
2	COL4A3	ENSG00000169031	ENST00000304990	protein_coding	PUTATIVE	None	2204	471	156	228153874	228158920	1	None	None
2	COL4A3	ENSG00000169031	ENST00000468753	processed_transcript	KNOWN	None	2204	None	None	228161015	228168616	1	None	None
2	COL4A3	ENSG00000169031	ENST00000471862	retained_intron	KNOWN	None	2204	None	None	228162407	228169044	1	None	None
2	COL4A3	ENSG00000169031	ENST00000469504	processed_transcript	KNOWN	None	2204	None	None	228172488	228176586	1	None	None
14	LRRC9	ENSG00000131951	ENST00000445360	protein_coding	NOVEL	None	19848	4362	1453	60386431	60530277	1	None	FLJ46156
14	LRRC9	ENSG00000131951	ENST00000254271	nonsense_mediated_decay	KNOWN	None	19848	3336	1111	60386431	60530277	1	None	FLJ46156
14	LRRC9	ENSG00000131951	ENST00000454474	processed_transcript	KNOWN	None	19848	None	None	60386499	60426697	1	None	FLJ46156
14	LRRC9	ENSG00000131951	ENST00000570145	protein_coding	NOVEL	None	19848	342	113	60386867	60397710	1	None	FLJ46156
14	LRRC9	ENSG00000131951	ENST00000562571	retained_intron	KNOWN	None	19848	None	None	60470355	60473466	1	None	FLJ46156
14	LRRC9	ENSG00000131951	ENST00000568404	nonsense_mediated_decay	KNOWN	None	19848	337	111	60494774	60530124	1	None	FLJ46156
X	DYNLT3	ENSG00000165169	ENST00000378581	protein_coding	KNOWN	None	11694	459	152	37696010	37706767	-1	TCTE1L	TCTEX1L
X	DYNLT3	ENSG00000165169	ENST00000378578	protein_coding	KNOWN	CCDS14243	11694	351	116	37698089	37706890	-1	TCTE1L	TCTEX1L
X	DYNLT3	ENSG00000165169	ENST00000432389	protein_coding	KNOWN	None	11694	369	122	37699796	37706661	-1	TCTE1L	TCTEX1L
8	PPP2CB	ENSG00000104695	ENST00000523023	nonsense_mediated_decay	KNOWN	None	9300	157	51	30631973	30648796	-1	None	PP2Abeta
8	PPP2CB	ENSG00000104695	ENST00000221138	protein_coding	KNOWN	CCDS6079	9300	930	309	30643126	30670388	-1	None	PP2Abeta
8	PPP2CB	ENSG00000104695	ENST00000518564	protein_coding	PUTATIVE	None	9300	144	47	30643132	30670113	-1	None	PP2Abeta
8	PPP2CB	ENSG00000104695	ENST00000518532	retained_intron	KNOWN	None	9300	None	None	30643625	30649079	-1	None	PP2Abeta
8	PPP2CB	ENSG00000104695	ENST00000522113	processed_transcript	PUTATIVE	None	9300	None	None	30643645	30644004	-1	None	PP2Abeta
8	PPP2CB	ENSG00000104695	ENST00000520334	protein_coding	PUTATIVE	None	9300	375	124	30648506	30651797	-1	None	PP2Abeta
8	PPP2CB	ENSG00000104695	ENST00000523804	retained_intron	KNOWN	None	9300	None	None	30650632	30652006	-1	None	PP2Abeta
8	PPP2CB	ENSG00000104695	ENST00000518243	protein_coding	PUTATIVE	None	9300	552	183	30651478	30670394	-1	None	PP2Abeta
8	PPP2CB	ENSG00000104695	ENST00000520056	protein_coding	PUTATIVE	None	9300	375	124	30651714	30667792	-1	None	PP2Abeta
8	PPP2CB	ENSG00000104695	ENST00000520500	processed_transcript	PUTATIVE	None	9300	None	None	30657097	30671830	-1	None	PP2Abeta
10	KCNMA1	ENSG00000156113	ENST00000604624	protein_coding	NOVEL	None	6284	3129	1042	78629359	79163742	-1	SLO	KCa1.1, mSLO1
10	KCNMA1	ENSG00000156113	ENST00000372437	protein_coding	NOVEL	None	6284	3516	1171	78637355	79397205	-1	SLO	KCa1.1, mSLO1
10	KCNMA1	ENSG00000156113	ENST00000372408	protein_coding	NOVEL	None	6284	3504	1167	78637355	79397211	-1	SLO	KCa1.1, mSLO1
10	KCNMA1	ENSG00000156113	ENST00000372421	protein_coding	PUTATIVE	None	6284	3457	1151	78637355	79397320	-1	SLO	KCa1.1, mSLO1
10	KCNMA1	ENSG00000156113	ENST00000457953	protein_coding	NOVEL	None	6284	3630	1209	78637355	79397322	-1	SLO	KCa1.1, mSLO1
10	KCNMA1	ENSG00000156113	ENST00000404771	protein_coding	PUTATIVE	None	6284	3867	1288	78637355	79397516	-1	SLO	KCa1.1, mSLO1
10	KCNMA1	ENSG00000156113	ENST00000372440	protein_coding	NOVEL	None	6284	3534	1177	78637355	79397751	-1	SLO	KCa1.1, mSLO1
10	KCNMA1	ENSG00000156113	ENST00000372443	protein_coding	NOVEL	None	6284	3618	1205	78637355	79398127	-1	SLO	KCa1.1, mSLO1
10	KCNMA1	ENSG00000156113	ENST00000372403	protein_coding	NOVEL	None	6284	3548	1181	78637497	79397252	-1	SLO	KCa1.1, mSLO1
10	KCNMA1	ENSG00000156113	ENST00000434208	protein_coding	NOVEL	None	6284	2659	885	78643874	78870096	-1	SLO	KCa1.1, mSLO1
10	KCNMA1	ENSG00000156113	ENST00000286628	protein_coding	KNOWN	None	6284	3711	1236	78644639	79397400	-1	SLO	KCa1.1, mSLO1
10	KCNMA1	ENSG00000156113	ENST00000286627	protein_coding	KNOWN	CCDS7352	6284	3537	1178	78644639	79398353	-1	SLO	KCa1.1, mSLO1
10	KCNMA1	ENSG00000156113	ENST00000468471	processed_transcript	KNOWN	None	6284	None	None	78647223	78647668	-1	SLO	KCa1.1, mSLO1
10	KCNMA1	ENSG00000156113	ENST00000475352	processed_transcript	KNOWN	None	6284	None	None	78733751	78778821	-1	SLO	KCa1.1, mSLO1
10	KCNMA1	ENSG00000156113	ENST00000450795	protein_coding	KNOWN	None	6284	793	263	78755042	78839308	-1	SLO	KCa1.1, mSLO1
10	KCNMA1	ENSG00000156113	ENST00000428546	protein_coding	PUTATIVE	None	6284	542	179	78771956	78839282	-1	SLO	KCa1.1, mSLO1
10	KCNMA1	ENSG00000156113	ENST00000484507	processed_transcript	KNOWN	None	6284	None	None	78823450	78844475	-1	SLO	KCa1.1, mSLO1
10	KCNMA1	ENSG00000156113	ENST00000484343	processed_transcript	KNOWN	None	6284	None	None	78830993	78839308	-1	SLO	KCa1.1, mSLO1
10	KCNMA1	ENSG00000156113	ENST00000481070	protein_coding	PUTATIVE	None	6284	387	128	79395957	79397547	-1	SLO	KCa1.1, mSLO1
10	KCNMA1	ENSG00000156113	ENST00000480683	protein_coding	KNOWN	None	6284	507	168	79395957	79397751	-1	SLO	KCa1.1, mSLO1
10	KCNMA1	ENSG00000156113	ENST00000406533	protein_coding	KNOWN	None	6284	3723	1240	78647024	79397400	-1	SLO	KCa1.1, mSLO1
10	KCNMA1	ENSG00000156113	ENST00000354353	protein_coding	KNOWN	None	6284	3720	1239	78647024	79397400	-1	SLO	KCa1.1, mSLO1
10	KCNMA1	ENSG00000156113	ENST00000404857	protein_coding	KNOWN	CCDS53545	6284	3660	1219	78647024	79397400	-1	SLO	KCa1.1, mSLO1
2	MFF	ENSG00000168958	ENST00000423098	protein_coding	KNOWN	None	24858	98	31	228189867	228195479	1	C2orf33	GL004
2	MFF	ENSG00000168958	ENST00000304593	protein_coding	KNOWN	None	24858	876	291	228189885	228222550	1	C2orf33	GL004
2	MFF	ENSG00000168958	ENST00000476924	processed_transcript	KNOWN	None	24858	None	None	228189937	228221970	1	C2orf33	GL004
2	MFF	ENSG00000168958	ENST00000489696	retained_intron	KNOWN	None	24858	None	None	228189950	228197215	1	C2orf33	GL004
2	MFF	ENSG00000168958	ENST00000353339	protein_coding	KNOWN	CCDS2465	24858	1029	342	228189955	228222549	1	C2orf33	GL004
2	MFF	ENSG00000168958	ENST00000354503	protein_coding	KNOWN	None	24858	657	218	228189966	228221931	1	C2orf33	GL004
2	MFF	ENSG00000168958	ENST00000530359	protein_coding	PUTATIVE	None	24858	177	58	228189967	228211990	1	C2orf33	GL004
2	MFF	ENSG00000168958	ENST00000531278	protein_coding	PUTATIVE	None	24858	207	68	228189973	228212095	1	C2orf33	GL004
2	MFF	ENSG00000168958	ENST00000409565	protein_coding	KNOWN	None	24858	657	218	228189975	228222515	1	C2orf33	GL004
2	MFF	ENSG00000168958	ENST00000452930	protein_coding	KNOWN	None	24858	414	137	228189977	228205070	1	C2orf33	GL004
2	MFF	ENSG00000168958	ENST00000409616	protein_coding	KNOWN	None	24858	717	238	228189978	228221867	1	C2orf33	GL004
2	MFF	ENSG00000168958	ENST00000460756	retained_intron	KNOWN	None	24858	None	None	228189981	228222549	1	C2orf33	GL004
2	MFF	ENSG00000168958	ENST00000337110	protein_coding	KNOWN	None	24858	732	243	228189984	228222549	1	C2orf33	GL004
2	MFF	ENSG00000168958	ENST00000525195	protein_coding	KNOWN	None	24858	157	51	228189987	228195538	1	C2orf33	GL004
2	MFF	ENSG00000168958	ENST00000470090	retained_intron	KNOWN	None	24858	None	None	228189987	228205277	1	C2orf33	GL004
2	MFF	ENSG00000168958	ENST00000534203	protein_coding	PUTATIVE	None	24858	213	70	228189987	228220477	1	C2orf33	GL004
2	MFF	ENSG00000168958	ENST00000524634	protein_coding	PUTATIVE	None	24858	270	89	228189987	228221847	1	C2orf33	GL004
2	MFF	ENSG00000168958	ENST00000349901	protein_coding	KNOWN	None	24858	717	238	228189992	228222528	1	C2orf33	GL004
2	MFF	ENSG00000168958	ENST00000436237	protein_coding	KNOWN	None	24858	102	33	228190081	228195405	1	C2orf33	GL004
2	MFF	ENSG00000168958	ENST00000443428	protein_coding	KNOWN	None	24858	214	70	228190159	228195517	1	C2orf33	GL004
2	MFF	ENSG00000168958	ENST00000418961	protein_coding	KNOWN	None	24858	180	59	228190167	228195561	1	C2orf33	GL004
2	MFF	ENSG00000168958	ENST00000436791	processed_transcript	KNOWN	None	24858	None	None	228195417	228212099	1	C2orf33	GL004
2	MFF	ENSG00000168958	ENST00000456345	protein_coding	NOVEL	None	24858	465	154	228205008	228222097	1	C2orf33	GL004
2	MFF	ENSG00000168958	ENST00000490857	retained_intron	KNOWN	None	24858	None	None	228211441	228222549	1	C2orf33	GL004
2	MFF	ENSG00000168958	ENST00000476262	retained_intron	KNOWN	None	24858	None	None	228216397	228222547	1	C2orf33	GL004
2	MFF	ENSG00000168958	ENST00000477362	retained_intron	KNOWN	None	24858	None	None	228220014	228221897	1	C2orf33	GL004
2	MFF	ENSG00000168958	ENST00000392059	protein_coding	KNOWN	CCDS2465	24858	1029	342	228192228	228222543	1	C2orf33	GL004
20	MIR1825	ENSG00000221667	ENST00000408740	miRNA	KNOWN	None	35389	None	None	30825598	30825650	1	MIRN1825	hsa-mir-1825
2	TM4SF20	ENSG00000168955	ENST00000304568	protein_coding	KNOWN	CCDS2466	26230	690	229	228226872	228244022	-1	None	FLJ22800, TCCE518
2	TM4SF20	ENSG00000168955	ENST00000449706	protein_coding	KNOWN	None	26230	43	13	228243942	228246711	-1	None	FLJ22800, TCCE518
20	None	ENSG00000264308	ENST00000581364	miRNA	NOVEL	None	None	None	None	30865503	30865591	-1	None	None
20	None	ENSG00000236772	ENST00000442179	antisense	KNOWN	None	None	None	None	31037558	31041410	1	None	None
2	AGFG1	ENSG00000173744	ENST00000409979	protein_coding	KNOWN	CCDS46533	5175	1755	584	228336868	228419275	1	HRB	RIP, RAB
2	AGFG1	ENSG00000173744	ENST00000310078	protein_coding	KNOWN	CCDS2467	5175	1689	562	228336878	228421384	1	HRB	RIP, RAB
2	AGFG1	ENSG00000173744	ENST00000409315	protein_coding	NOVEL	None	5175	1626	541	228337085	228420444	1	HRB	RIP, RAB
2	AGFG1	ENSG00000173744	ENST00000373671	protein_coding	KNOWN	CCDS46535	5175	1569	522	228337088	228419261	1	HRB	RIP, RAB
2	AGFG1	ENSG00000173744	ENST00000409171	protein_coding	KNOWN	CCDS46534	5175	1683	560	228337088	228419261	1	HRB	RIP, RAB
2	AGFG1	ENSG00000173744	ENST00000456594	protein_coding	PUTATIVE	None	5175	713	236	228372988	228398397	1	HRB	RIP, RAB
2	AGFG1	ENSG00000173744	ENST00000486932	processed_transcript	KNOWN	None	5175	None	None	228375437	228389620	1	HRB	RIP, RAB
2	AGFG1	ENSG00000173744	ENST00000458212	protein_coding	NOVEL	None	5175	398	131	228401671	228419628	1	HRB	RIP, RAB
20	None	ENSG00000233293	ENST00000413983	antisense	KNOWN	None	None	None	None	31148895	31161690	1	None	None
2	C2orf83	ENSG00000042304	ENST00000264387	protein_coding	KNOWN	CCDS33388	25344	453	150	228474806	228497888	-1	None	DKFZp547H025
2	C2orf83	ENSG00000042304	ENST00000409066	protein_coding	PUTATIVE	CCDS54434	25344	291	96	228474807	228498036	-1	None	DKFZp547H025
20	None	ENSG00000228156	ENST00000457213	processed_transcript	PUTATIVE	None	None	None	None	31169765	31181702	1	None	None
2	SLC19A3	ENSG00000135917	ENST00000425817	nonsense_mediated_decay	KNOWN	CCDS2468	16266	1491	496	228549926	228582726	-1	None	THTR2
2	SLC19A3	ENSG00000135917	ENST00000409287	protein_coding	PUTATIVE	None	16266	279	92	228550571	228582726	-1	None	THTR2
2	SLC19A3	ENSG00000135917	ENST00000258403	protein_coding	KNOWN	CCDS2468	16266	1491	496	228550571	228582728	-1	None	THTR2
2	SLC19A3	ENSG00000135917	ENST00000456524	protein_coding	KNOWN	None	16266	397	131	228564034	228579328	-1	None	THTR2
2	SLC19A3	ENSG00000135917	ENST00000431622	nonsense_mediated_decay	KNOWN	None	16266	171	56	228564113	228582715	-1	None	THTR2
2	SLC19A3	ENSG00000135917	ENST00000419059	protein_coding	KNOWN	None	16266	193	63	228564238	228567693	-1	None	THTR2
2	SLC19A3	ENSG00000135917	ENST00000409456	protein_coding	KNOWN	None	16266	162	53	228564269	228582717	-1	None	THTR2
2	SLC19A3	ENSG00000135917	ENST00000477697	retained_intron	KNOWN	None	16266	None	None	228566323	228582715	-1	None	THTR2
2	SLC19A3	ENSG00000135917	ENST00000541617	protein_coding	KNOWN	None	16266	1479	492	228551905	228582715	-1	None	THTR2
20	C20orf203	ENSG00000198547	ENST00000360785	processed_transcript	KNOWN	None	26592	None	None	31220661	31239680	-1	None	FLJ33706
2	CCL20	ENSG00000115009	ENST00000409189	protein_coding	KNOWN	CCDS46536	10619	288	95	228678558	228682272	1	SCYA20	LARC, MIP-3a, exodus-1, ST38, CKb4
2	CCL20	ENSG00000115009	ENST00000489160	retained_intron	KNOWN	None	10619	None	None	228678559	228680700	1	SCYA20	LARC, MIP-3a, exodus-1, ST38, CKb4
2	CCL20	ENSG00000115009	ENST00000358813	protein_coding	KNOWN	CCDS2469	10619	291	96	228678570	228682250	1	SCYA20	LARC, MIP-3a, exodus-1, ST38, CKb4
2	CCL20	ENSG00000115009	ENST00000473642	processed_transcript	KNOWN	None	10619	None	None	228680085	228682179	1	SCYA20	LARC, MIP-3a, exodus-1, ST38, CKb4
20	BAK1P1	ENSG00000175730	ENST00000317045	processed_pseudogene	KNOWN	None	996	None	None	31277982	31278617	-1	BCL2L7P1	BAK2
20	BAK1P1	ENSG00000175730	ENST00000417822	processed_pseudogene	KNOWN	None	996	None	None	31276723	31278816	-1	BCL2L7P1	BAK2
2	DAW1	ENSG00000123977	ENST00000373666	protein_coding	NOVEL	None	26383	1110	369	228735770	228789060	1	WDR69	FLJ25955, ODA16
2	DAW1	ENSG00000123977	ENST00000309931	protein_coding	KNOWN	CCDS2470	26383	1248	415	228736323	228789057	1	WDR69	FLJ25955, ODA16
2	DAW1	ENSG00000123977	ENST00000440997	protein_coding	PUTATIVE	None	26383	213	70	228736351	228754716	1	WDR69	FLJ25955, ODA16
2	DAW1	ENSG00000123977	ENST00000454999	nonsense_mediated_decay	KNOWN	None	26383	111	36	228736358	228767802	1	WDR69	FLJ25955, ODA16
2	DAW1	ENSG00000123977	ENST00000472604	processed_transcript	KNOWN	None	26383	None	None	228754229	228760307	1	WDR69	FLJ25955, ODA16
2	DAW1	ENSG00000123977	ENST00000545118	protein_coding	KNOWN	None	26383	1203	400	228736379	228788692	1	WDR69	FLJ25955, ODA16
20	None	ENSG00000260536	ENST00000565572	antisense	KNOWN	None	None	None	None	31430934	31442063	-1	None	None
20	None	ENSG00000260257	ENST00000569087	lincRNA	KNOWN	None	None	None	None	31444848	31446557	1	None	None
2	SPHKAP	ENSG00000153820	ENST00000392056	protein_coding	KNOWN	CCDS46537	30619	5103	1700	228844666	229046361	-1	None	SKIP
2	SPHKAP	ENSG00000153820	ENST00000344657	protein_coding	KNOWN	CCDS33389	30619	5016	1671	228844673	229046342	-1	None	SKIP
2	SPHKAP	ENSG00000153820	ENST00000490603	retained_intron	KNOWN	None	30619	None	None	228855624	228860351	-1	None	SKIP
2	PID1	ENSG00000153823	ENST00000482518	processed_transcript	KNOWN	None	26084	None	None	229715242	230109776	-1	None	NYGGF4, FLJ20701
2	PID1	ENSG00000153823	ENST00000392054	protein_coding	KNOWN	CCDS2471	26084	747	248	229888690	230135981	-1	None	NYGGF4, FLJ20701
2	PID1	ENSG00000153823	ENST00000409462	protein_coding	KNOWN	None	26084	507	168	229888705	230135996	-1	None	NYGGF4, FLJ20701
2	PID1	ENSG00000153823	ENST00000392055	protein_coding	KNOWN	CCDS42830	26084	654	217	229888711	230136001	-1	None	NYGGF4, FLJ20701
2	PID1	ENSG00000153823	ENST00000354069	protein_coding	KNOWN	None	26084	753	250	229890293	230096801	-1	None	NYGGF4, FLJ20701
2	PID1	ENSG00000153823	ENST00000534952	nonsense_mediated_decay	KNOWN	None	26084	126	41	229890752	230135955	-1	None	NYGGF4, FLJ20701
20	HDHD1P3	ENSG00000214245	ENST00000445368	processed_pseudogene	KNOWN	None	38118	None	None	31635323	31635958	-1	HDHD1DP	None
2	DNER	ENSG00000187957	ENST00000341772	protein_coding	KNOWN	CCDS33390	24456	2214	737	230222345	230579274	-1	None	UNQ26, bet
2	DNER	ENSG00000187957	ENST00000482831	processed_transcript	KNOWN	None	24456	None	None	230444870	230451893	-1	None	UNQ26, bet
20	None	ENSG00000263856	ENST00000579962	miRNA	NOVEL	None	None	None	None	31645394	31645476	-1	None	None
20	SOCS2P1	ENSG00000237662	ENST00000417727	processed_pseudogene	KNOWN	None	16069	None	None	31775197	31776098	1	None	None
15	CA12	ENSG00000074410	ENST00000178638	protein_coding	KNOWN	CCDS10185	1371	1065	354	63613577	63674360	-1	None	HsT18816
15	CA12	ENSG00000074410	ENST00000344366	protein_coding	KNOWN	CCDS10186	1371	1032	343	63616887	63674034	-1	None	HsT18816
15	CA12	ENSG00000074410	ENST00000422263	protein_coding	NOVEL	None	1371	852	283	63616906	63674045	-1	None	HsT18816
15	CA12	ENSG00000074410	ENST00000560666	processed_transcript	KNOWN	None	1371	None	None	63618179	63624012	-1	None	HsT18816
15	CA12	ENSG00000074410	ENST00000558287	retained_intron	KNOWN	None	1371	None	None	63632221	63634273	-1	None	HsT18816
15	CA12	ENSG00000074410	ENST00000560293	retained_intron	KNOWN	None	1371	None	None	63667659	63671272	-1	None	HsT18816
20	BPIFA4P	ENSG00000183566	ENST00000605211	retained_intron	KNOWN	None	20469	None	None	31781391	31786602	1	None	BASE
20	BPIFA4P	ENSG00000183566	ENST00000603168	unitary_pseudogene	KNOWN	None	20469	None	None	31781411	31798268	1	None	BASE
20	BPIFA4P	ENSG00000183566	ENST00000375465	processed_transcript	KNOWN	None	20469	None	None	31781411	31798268	1	None	BASE
20	BPIFA4P	ENSG00000183566	ENST00000420169	processed_transcript	KNOWN	None	20469	None	None	31786015	31792975	1	None	BASE
2	TRIP12	ENSG00000153827	ENST00000283943	protein_coding	KNOWN	CCDS33391	12306	5979	1992	230628554	230786725	-1	None	KIAA0045
2	TRIP12	ENSG00000153827	ENST00000389045	protein_coding	NOVEL	None	12306	5169	1722	230632157	230786619	-1	None	KIAA0045
2	TRIP12	ENSG00000153827	ENST00000389044	protein_coding	NOVEL	None	12306	6123	2040	230632157	230786715	-1	None	KIAA0045
2	TRIP12	ENSG00000153827	ENST00000418123	protein_coding	PUTATIVE	None	12306	562	186	230633332	230643181	-1	None	KIAA0045
2	TRIP12	ENSG00000153827	ENST00000459841	retained_intron	KNOWN	None	12306	None	None	230638277	230643291	-1	None	KIAA0045
2	TRIP12	ENSG00000153827	ENST00000470302	retained_intron	KNOWN	None	12306	None	None	230656504	230657823	-1	None	KIAA0045
2	TRIP12	ENSG00000153827	ENST00000495322	retained_intron	KNOWN	None	12306	None	None	230656690	230658084	-1	None	KIAA0045
2	TRIP12	ENSG00000153827	ENST00000461189	retained_intron	KNOWN	None	12306	None	None	230659577	230661448	-1	None	KIAA0045
2	TRIP12	ENSG00000153827	ENST00000487178	retained_intron	KNOWN	None	12306	None	None	230666967	230670865	-1	None	KIAA0045
2	TRIP12	ENSG00000153827	ENST00000479037	retained_intron	KNOWN	None	12306	None	None	230672035	230786725	-1	None	KIAA0045
2	TRIP12	ENSG00000153827	ENST00000477441	retained_intron	KNOWN	None	12306	None	None	230675673	230679209	-1	None	KIAA0045
2	TRIP12	ENSG00000153827	ENST00000409677	protein_coding	PUTATIVE	None	12306	1293	430	230695748	230786668	-1	None	KIAA0045
2	TRIP12	ENSG00000153827	ENST00000453485	protein_coding	PUTATIVE	None	12306	652	216	230701579	230723998	-1	None	KIAA0045
2	TRIP12	ENSG00000153827	ENST00000435716	protein_coding	KNOWN	None	12306	462	153	230723927	230787955	-1	None	KIAA0045
2	TRIP12	ENSG00000153827	ENST00000428959	protein_coding	KNOWN	None	12306	447	148	230723942	230786074	-1	None	KIAA0045
2	TRIP12	ENSG00000153827	ENST00000430954	protein_coding	NOVEL	None	12306	571	189	230723944	230786378	-1	None	KIAA0045
2	TRIP12	ENSG00000153827	ENST00000343290	protein_coding	KNOWN	None	12306	297	98	230724092	230786710	-1	None	KIAA0045
2	TRIP12	ENSG00000153827	ENST00000543084	protein_coding	KNOWN	None	12306	1041	346	230661368	230786679	-1	None	KIAA0045
2	FBXO36	ENSG00000153832	ENST00000373652	protein_coding	PUTATIVE	None	27020	474	157	230787018	230877825	1	None	Fbx36, FLJ37592
2	FBXO36	ENSG00000153832	ENST00000465090	retained_intron	KNOWN	None	27020	None	None	230787207	230841890	1	None	Fbx36, FLJ37592
2	FBXO36	ENSG00000153832	ENST00000283946	protein_coding	KNOWN	CCDS2472	27020	567	188	230787212	230877825	1	None	Fbx36, FLJ37592
2	FBXO36	ENSG00000153832	ENST00000409992	protein_coding	NOVEL	None	27020	507	168	230787222	230876996	1	None	Fbx36, FLJ37592
X	CXorf27	ENSG00000187516	ENST00000341016	protein_coding	KNOWN	CCDS43929	18417	354	117	37850070	37850569	1	None	HYPM, HIP17
2	SLC16A14	ENSG00000163053	ENST00000295190	protein_coding	KNOWN	CCDS2473	26417	1533	510	230899698	230933715	-1	None	FLJ30794, MCT14
2	SLC16A14	ENSG00000163053	ENST00000457406	protein_coding	PUTATIVE	None	26417	1469	488	230910373	230933623	-1	None	FLJ30794, MCT14
2	SLC16A14	ENSG00000163053	ENST00000412034	protein_coding	PUTATIVE	None	26417	1456	484	230910386	230933264	-1	None	FLJ30794, MCT14
2	SLC16A14	ENSG00000163053	ENST00000425822	protein_coding	KNOWN	None	26417	126	41	230923943	230933005	-1	None	FLJ30794, MCT14
2	SLC16A14	ENSG00000163053	ENST00000436869	protein_coding	KNOWN	None	26417	54	17	230924015	230933709	-1	None	FLJ30794, MCT14
2	SP110	ENSG00000135899	ENST00000477068	retained_intron	KNOWN	None	5401	None	None	231032009	231038230	-1	IFI41, IFI75	None
2	SP110	ENSG00000135899	ENST00000480916	processed_transcript	KNOWN	None	5401	None	None	231033634	231036332	-1	IFI41, IFI75	None
2	SP110	ENSG00000135899	ENST00000258381	protein_coding	KNOWN	CCDS2475	5401	2142	713	231033634	231084665	-1	IFI41, IFI75	None
2	SP110	ENSG00000135899	ENST00000483067	retained_intron	KNOWN	None	5401	None	None	231033648	231037028	-1	IFI41, IFI75	None
2	SP110	ENSG00000135899	ENST00000358662	protein_coding	KNOWN	CCDS2474	5401	2070	689	231033652	231084666	-1	IFI41, IFI75	None
2	SP110	ENSG00000135899	ENST00000463022	retained_intron	KNOWN	None	5401	None	None	231033844	231035631	-1	IFI41, IFI75	None
2	SP110	ENSG00000135899	ENST00000392048	protein_coding	KNOWN	None	5401	1644	547	231041189	231084688	-1	IFI41, IFI75	None
2	SP110	ENSG00000135899	ENST00000258382	protein_coding	KNOWN	CCDS2476	5401	1650	549	231041191	231084827	-1	IFI41, IFI75	None
2	SP110	ENSG00000135899	ENST00000489597	retained_intron	KNOWN	None	5401	None	None	231042082	231042973	-1	IFI41, IFI75	None
2	SP110	ENSG00000135899	ENST00000490880	retained_intron	KNOWN	None	5401	None	None	231065184	231076262	-1	IFI41, IFI75	None
2	SP110	ENSG00000135899	ENST00000486146	processed_transcript	KNOWN	None	5401	None	None	231067649	231077620	-1	IFI41, IFI75	None
2	SP110	ENSG00000135899	ENST00000409815	protein_coding	KNOWN	None	5401	665	220	231077064	231084617	-1	IFI41, IFI75	None
2	SP110	ENSG00000135899	ENST00000455674	protein_coding	PUTATIVE	None	5401	480	159	231077111	231084676	-1	IFI41, IFI75	None
2	SP110	ENSG00000135899	ENST00000462232	processed_transcript	KNOWN	None	5401	None	None	231077131	231084704	-1	IFI41, IFI75	None
2	SP110	ENSG00000135899	ENST00000416610	protein_coding	KNOWN	None	5401	304	100	231079677	231090444	-1	IFI41, IFI75	None
2	SP110	ENSG00000135899	ENST00000540870	protein_coding	KNOWN	CCDS54435	5401	1668	555	231041275	231090444	-1	IFI41, IFI75	None
2	SP110	ENSG00000135899	ENST00000338556	protein_coding	KNOWN	None	5401	756	251	231041381	231084827	-1	IFI41, IFI75	None
15	UBR1	ENSG00000159459	ENST00000290650	protein_coding	KNOWN	CCDS10091	16808	5250	1749	43235095	43398299	-1	None	None
15	UBR1	ENSG00000159459	ENST00000562173	retained_intron	KNOWN	None	16808	None	None	43237385	43242772	-1	None	None
15	UBR1	ENSG00000159459	ENST00000566493	retained_intron	KNOWN	None	16808	None	None	43280691	43290397	-1	None	None
15	UBR1	ENSG00000159459	ENST00000568782	processed_transcript	KNOWN	None	16808	None	None	43295452	43308067	-1	None	None
15	UBR1	ENSG00000159459	ENST00000546274	retained_intron	KNOWN	None	16808	None	None	43307854	43398311	-1	None	None
15	UBR1	ENSG00000159459	ENST00000569243	protein_coding	PUTATIVE	None	16808	517	171	43313279	43318861	-1	None	None
15	UBR1	ENSG00000159459	ENST00000564540	nonsense_mediated_decay	KNOWN	None	16808	214	70	43313283	43320003	-1	None	None
15	UBR1	ENSG00000159459	ENST00000569066	nonsense_mediated_decay	KNOWN	None	16808	447	148	43313283	43330027	-1	None	None
15	UBR1	ENSG00000159459	ENST00000569971	nonsense_mediated_decay	KNOWN	None	16808	219	72	43335412	43352002	-1	None	None
15	UBR1	ENSG00000159459	ENST00000563239	nonsense_mediated_decay	KNOWN	None	16808	96	31	43335542	43398286	-1	None	None
15	UBR1	ENSG00000159459	ENST00000569337	nonsense_mediated_decay	KNOWN	None	16808	189	62	43374909	43398305	-1	None	None
15	UBR1	ENSG00000159459	ENST00000382177	protein_coding	KNOWN	None	16808	2412	803	43235106	43398286	-1	None	None
2	SP140	ENSG00000079263	ENST00000456542	protein_coding	NOVEL	None	17133	88	28	231067826	231099681	1	None	LYSP100-B, LYSP100-A
2	SP140	ENSG00000079263	ENST00000441657	processed_transcript	KNOWN	None	17133	None	None	231068340	231078874	1	None	LYSP100-B, LYSP100-A
2	SP140	ENSG00000079263	ENST00000392045	protein_coding	KNOWN	CCDS42831	17133	2604	867	231090446	231177927	1	None	LYSP100-B, LYSP100-A
2	SP140	ENSG00000079263	ENST00000417495	protein_coding	NOVEL	None	17133	2262	753	231090457	231177929	1	None	LYSP100-B, LYSP100-A
2	SP140	ENSG00000079263	ENST00000343805	protein_coding	NOVEL	None	17133	2424	807	231090460	231177785	1	None	LYSP100-B, LYSP100-A
2	SP140	ENSG00000079263	ENST00000543928	retained_intron	KNOWN	None	17133	None	None	231090464	231103234	1	None	LYSP100-B, LYSP100-A
2	SP140	ENSG00000079263	ENST00000373645	protein_coding	NOVEL	CCDS33392	17133	519	172	231090479	231103802	1	None	LYSP100-B, LYSP100-A
2	SP140	ENSG00000079263	ENST00000473711	retained_intron	KNOWN	None	17133	None	None	231090507	231102329	1	None	LYSP100-B, LYSP100-A
2	SP140	ENSG00000079263	ENST00000544128	processed_transcript	KNOWN	None	17133	None	None	231095126	231103782	1	None	LYSP100-B, LYSP100-A
2	SP140	ENSG00000079263	ENST00000538494	processed_transcript	KNOWN	None	17133	None	None	231095129	231103642	1	None	LYSP100-B, LYSP100-A
2	SP140	ENSG00000079263	ENST00000476126	retained_intron	KNOWN	None	17133	None	None	231134613	231152812	1	None	LYSP100-B, LYSP100-A
2	SP140	ENSG00000079263	ENST00000486750	retained_intron	KNOWN	None	17133	None	None	231159004	231175103	1	None	LYSP100-B, LYSP100-A
2	SP140	ENSG00000079263	ENST00000479539	retained_intron	KNOWN	None	17133	None	None	231174856	231176238	1	None	LYSP100-B, LYSP100-A
2	SP140	ENSG00000079263	ENST00000486687	protein_coding	KNOWN	None	17133	2307	768	231090445	231223762	1	None	LYSP100-B, LYSP100-A
2	SP140	ENSG00000079263	ENST00000420434	protein_coding	KNOWN	None	17133	2523	840	231090460	231177785	1	None	LYSP100-B, LYSP100-A
2	SP140	ENSG00000079263	ENST00000350136	protein_coding	KNOWN	None	17133	2211	736	231090445	231177930	1	None	LYSP100-B, LYSP100-A
X	SYTL5	ENSG00000147041	ENST00000297875	protein_coding	KNOWN	CCDS14244	15589	2193	730	37865835	37988069	1	None	None
X	SYTL5	ENSG00000147041	ENST00000357972	protein_coding	KNOWN	CCDS14244	15589	2193	730	37865835	37988072	1	None	None
X	SYTL5	ENSG00000147041	ENST00000456733	protein_coding	KNOWN	CCDS55399	15589	2259	752	37892787	37988072	1	None	None
2	SP140L	ENSG00000185404	ENST00000444636	protein_coding	KNOWN	None	25105	1317	438	231191899	231265339	1	None	None
2	SP140L	ENSG00000185404	ENST00000415673	protein_coding	KNOWN	CCDS46538	25105	1743	580	231191899	231268447	1	None	None
2	SP140L	ENSG00000185404	ENST00000458341	protein_coding	KNOWN	None	25105	390	129	231206785	231237459	1	None	None
2	SP140L	ENSG00000185404	ENST00000483728	retained_intron	KNOWN	None	25105	None	None	231235621	231268445	1	None	None
2	SP140L	ENSG00000185404	ENST00000462156	retained_intron	KNOWN	None	25105	None	None	231249956	231253501	1	None	None
2	SP140L	ENSG00000185404	ENST00000496870	retained_intron	KNOWN	None	25105	None	None	231256430	231265768	1	None	None
2	SP140L	ENSG00000185404	ENST00000466656	retained_intron	KNOWN	None	25105	None	None	231264536	231265192	1	None	None
2	SP140L	ENSG00000185404	ENST00000497212	retained_intron	KNOWN	None	25105	None	None	231265846	231267603	1	None	None
2	SP140L	ENSG00000185404	ENST00000243810	protein_coding	KNOWN	None	25105	1317	438	231191985	231268445	1	None	None
2	SP140L	ENSG00000185404	ENST00000396563	protein_coding	KNOWN	None	25105	1212	403	231191985	231268445	1	None	None
2	SP100	ENSG00000067066	ENST00000264052	protein_coding	KNOWN	CCDS2477	11206	2640	879	231280657	231381242	1	None	None
2	SP100	ENSG00000067066	ENST00000432979	protein_coding	NOVEL	None	11206	578	191	231280936	231314095	1	None	None
2	SP100	ENSG00000067066	ENST00000409824	protein_coding	NOVEL	None	11206	1368	455	231280955	231335204	1	None	None
2	SP100	ENSG00000067066	ENST00000409341	protein_coding	KNOWN	CCDS56171	11206	1443	480	231280962	231335232	1	None	None
2	SP100	ENSG00000067066	ENST00000409112	protein_coding	KNOWN	CCDS56170	11206	2067	688	231280981	231372861	1	None	None
2	SP100	ENSG00000067066	ENST00000340126	protein_coding	KNOWN	CCDS42832	11206	2658	885	231280981	231407898	1	None	None
2	SP100	ENSG00000067066	ENST00000409897	protein_coding	PUTATIVE	CCDS56173	11206	1338	445	231281471	231335245	1	None	None
2	SP100	ENSG00000067066	ENST00000470940	retained_intron	KNOWN	None	11206	None	None	231314090	231326043	1	None	None
2	SP100	ENSG00000067066	ENST00000466710	retained_intron	KNOWN	None	11206	None	None	231314284	231327344	1	None	None
2	SP100	ENSG00000067066	ENST00000413284	protein_coding	PUTATIVE	None	11206	377	124	231327150	231334818	1	None	None
2	SP100	ENSG00000067066	ENST00000452345	protein_coding	PUTATIVE	None	11206	580	192	231327182	231359175	1	None	None
2	SP100	ENSG00000067066	ENST00000462751	retained_intron	KNOWN	None	11206	None	None	231328333	231331862	1	None	None
2	SP100	ENSG00000067066	ENST00000494508	retained_intron	KNOWN	None	11206	None	None	231333547	231335075	1	None	None
2	SP100	ENSG00000067066	ENST00000492546	retained_intron	KNOWN	None	11206	None	None	231337832	231363237	1	None	None
2	SP100	ENSG00000067066	ENST00000459786	retained_intron	KNOWN	None	11206	None	None	231368932	231371481	1	None	None
2	SP100	ENSG00000067066	ENST00000431952	protein_coding	NOVEL	None	11206	778	258	231368977	231408805	1	None	None
2	SP100	ENSG00000067066	ENST00000494901	retained_intron	KNOWN	None	11206	None	None	231372861	231407837	1	None	None
2	SP100	ENSG00000067066	ENST00000488180	retained_intron	KNOWN	None	11206	None	None	231402357	231408805	1	None	None
2	SP100	ENSG00000067066	ENST00000427101	protein_coding	KNOWN	CCDS56172	11206	1359	452	231280934	231335236	1	None	None
2	SP100	ENSG00000067066	ENST00000341950	protein_coding	KNOWN	None	11206	1422	473	231280981	231334568	1	None	None
2	CAB39	ENSG00000135932	ENST00000258418	protein_coding	KNOWN	CCDS2478	20292	1026	341	231577560	231685790	1	None	CGI-66, MO25
2	CAB39	ENSG00000135932	ENST00000410084	protein_coding	KNOWN	CCDS2478	20292	1026	341	231578263	231683419	1	None	CGI-66, MO25
2	CAB39	ENSG00000135932	ENST00000409788	protein_coding	KNOWN	CCDS2478	20292	1026	341	231578263	231683465	1	None	CGI-66, MO25
2	CAB39	ENSG00000135932	ENST00000484398	processed_transcript	KNOWN	None	20292	None	None	231643721	231655693	1	None	CGI-66, MO25
2	CAB39	ENSG00000135932	ENST00000478152	retained_intron	KNOWN	None	20292	None	None	231655613	231663839	1	None	CGI-66, MO25
2	CAB39	ENSG00000135932	ENST00000493540	retained_intron	KNOWN	None	20292	None	None	231678698	231682897	1	None	CGI-66, MO25
20	None	ENSG00000224876	ENST00000419613	antisense	KNOWN	None	None	None	None	31802726	31804873	-1	None	None
20	RPL12P3	ENSG00000233106	ENST00000440080	processed_pseudogene	KNOWN	None	16335	None	None	31860068	31860463	-1	None	bA49G10.7
2	ITM2C	ENSG00000135916	ENST00000457215	protein_coding	KNOWN	None	6175	541	179	231729354	231741662	1	None	BRI3, E25, hRPC.1050_D_4, ITM3, BRICD2C
2	ITM2C	ENSG00000135916	ENST00000541852	protein_coding	PUTATIVE	None	6175	375	124	231729369	231741682	1	None	BRI3, E25, hRPC.1050_D_4, ITM3, BRICD2C
2	ITM2C	ENSG00000135916	ENST00000326427	protein_coding	KNOWN	CCDS2479	6175	804	267	231729615	231743962	1	None	BRI3, E25, hRPC.1050_D_4, ITM3, BRICD2C
2	ITM2C	ENSG00000135916	ENST00000335005	protein_coding	KNOWN	CCDS33396	6175	663	220	231729663	231743962	1	None	BRI3, E25, hRPC.1050_D_4, ITM3, BRICD2C
2	ITM2C	ENSG00000135916	ENST00000326407	protein_coding	KNOWN	CCDS33395	6175	693	230	231729695	231743963	1	None	BRI3, E25, hRPC.1050_D_4, ITM3, BRICD2C
2	ITM2C	ENSG00000135916	ENST00000543957	protein_coding	PUTATIVE	None	6175	368	121	231729963	231741675	1	None	BRI3, E25, hRPC.1050_D_4, ITM3, BRICD2C
2	ITM2C	ENSG00000135916	ENST00000409704	protein_coding	PUTATIVE	None	6175	618	205	231729983	231743100	1	None	BRI3, E25, hRPC.1050_D_4, ITM3, BRICD2C
2	ITM2C	ENSG00000135916	ENST00000418408	protein_coding	PUTATIVE	None	6175	375	124	231730379	231741682	1	None	BRI3, E25, hRPC.1050_D_4, ITM3, BRICD2C
2	ITM2C	ENSG00000135916	ENST00000492029	processed_transcript	KNOWN	None	6175	None	None	231737946	231741682	1	None	BRI3, E25, hRPC.1050_D_4, ITM3, BRICD2C
20	BPIFB5P	ENSG00000233146	ENST00000457066	unitary_pseudogene	KNOWN	None	42177	None	None	31904675	31917775	1	None	None
2	GPR55	ENSG00000135898	ENST00000444078	nonsense_mediated_decay	KNOWN	CCDS2480	4511	960	319	231772033	231789941	-1	None	None
2	GPR55	ENSG00000135898	ENST00000392039	protein_coding	KNOWN	CCDS2480	4511	960	319	231774581	231825781	-1	None	None
2	GPR55	ENSG00000135898	ENST00000438398	protein_coding	KNOWN	None	4511	726	241	231774952	231789941	-1	None	None
2	GPR55	ENSG00000135898	ENST00000392040	protein_coding	KNOWN	CCDS2480	4511	960	319	231772043	231789941	-1	None	None
4	GPR125	ENSG00000152990	ENST00000511051	nonsense_mediated_decay	KNOWN	None	13839	105	34	22346694	22403127	-1	None	FLJ38547, PGR21
4	GPR125	ENSG00000152990	ENST00000334304	protein_coding	KNOWN	CCDS33964	13839	3966	1321	22389007	22517677	-1	None	FLJ38547, PGR21
4	GPR125	ENSG00000152990	ENST00000499527	retained_intron	KNOWN	None	13839	None	None	22389023	22396491	-1	None	FLJ38547, PGR21
4	GPR125	ENSG00000152990	ENST00000282943	processed_transcript	KNOWN	None	13839	None	None	22389331	22457457	-1	None	FLJ38547, PGR21
4	GPR125	ENSG00000152990	ENST00000504617	processed_transcript	KNOWN	None	13839	None	None	22394168	22414938	-1	None	FLJ38547, PGR21
4	GPR125	ENSG00000152990	ENST00000506155	processed_transcript	KNOWN	None	13839	None	None	22414829	22415709	-1	None	FLJ38547, PGR21
4	GPR125	ENSG00000152990	ENST00000508133	protein_coding	KNOWN	None	13839	1146	381	22415817	22444758	-1	None	FLJ38547, PGR21
4	GPR125	ENSG00000152990	ENST00000502482	protein_coding	KNOWN	None	13839	1851	616	22421661	22517620	-1	None	FLJ38547, PGR21
4	GPR125	ENSG00000152990	ENST00000514129	protein_coding	NOVEL	None	13839	291	96	22439881	22475441	-1	None	FLJ38547, PGR21
4	GPR125	ENSG00000152990	ENST00000506133	processed_transcript	KNOWN	None	13839	None	None	22444273	22475429	-1	None	FLJ38547, PGR21
4	GPR125	ENSG00000152990	ENST00000513385	processed_transcript	KNOWN	None	13839	None	None	22446623	22516203	-1	None	FLJ38547, PGR21
4	GPR125	ENSG00000152990	ENST00000514749	processed_transcript	KNOWN	None	13839	None	None	22449063	22479859	-1	None	FLJ38547, PGR21
4	GPR125	ENSG00000152990	ENST00000506346	processed_transcript	PUTATIVE	None	13839	None	None	22474643	22517319	-1	None	FLJ38547, PGR21
20	BPIFB9P	ENSG00000125997	ENST00000246222	unprocessed_pseudogene	KNOWN	None	16109	None	None	31935526	31942250	1	C20orf115	dJ1187J4.2
2	SPATA3	ENSG00000173699	ENST00000424440	protein_coding	KNOWN	CCDS2481	17884	579	192	231860836	231871999	1	None	TSARG1
2	SPATA3	ENSG00000173699	ENST00000452881	protein_coding	KNOWN	CCDS2481	17884	579	192	231860841	231889770	1	None	TSARG1
2	SPATA3	ENSG00000173699	ENST00000433428	protein_coding	KNOWN	CCDS2481	17884	579	192	231860853	231871999	1	None	TSARG1
2	SPATA3	ENSG00000173699	ENST00000454918	nonsense_mediated_decay	KNOWN	None	17884	114	37	231860885	231867471	1	None	TSARG1
2	SPATA3	ENSG00000173699	ENST00000455816	protein_coding	KNOWN	CCDS2481	17884	579	192	231860949	231889734	1	None	TSARG1
2	SPATA3	ENSG00000173699	ENST00000440792	protein_coding	NOVEL	None	17884	315	104	231861051	231871999	1	None	TSARG1
2	SPATA3	ENSG00000173699	ENST00000423134	protein_coding	NOVEL	None	17884	262	86	231861104	231871999	1	None	TSARG1
2	SPATA3	ENSG00000173699	ENST00000409956	processed_transcript	PUTATIVE	None	17884	None	None	231864284	231871986	1	None	TSARG1
2	SPATA3	ENSG00000173699	ENST00000495639	protein_coding	KNOWN	None	17884	19	5	231867486	231889770	1	None	TSARG1
2	C2orf72	ENSG00000204128	ENST00000373640	protein_coding	PUTATIVE	CCDS46539	27418	888	295	231902205	231914429	1	None	LOC257407
2	C2orf72	ENSG00000204128	ENST00000477463	processed_transcript	PUTATIVE	None	27418	None	None	231902277	231911961	1	None	LOC257407
2	C2orf72	ENSG00000204128	ENST00000463834	retained_intron	KNOWN	None	27418	None	None	231905822	231914434	1	None	LOC257407
14	None	ENSG00000258792	ENST00000550332	protein_coding	PUTATIVE	None	None	222	73	90095265	90097910	-1	None	None
14	None	ENSG00000258792	ENST00000553996	processed_transcript	PUTATIVE	None	None	None	None	90095265	90109015	-1	None	None
14	None	ENSG00000258792	ENST00000555560	processed_transcript	PUTATIVE	None	None	None	None	90095285	90100426	-1	None	None
2	PSMD1	ENSG00000173692	ENST00000308696	protein_coding	KNOWN	CCDS2482	9554	2862	953	231921578	232037541	1	None	S1, P112, Rpn2
2	PSMD1	ENSG00000173692	ENST00000431051	nonsense_mediated_decay	KNOWN	None	9554	147	48	231921581	232029949	1	None	S1, P112, Rpn2
2	PSMD1	ENSG00000173692	ENST00000440838	protein_coding	NOVEL	None	9554	610	202	231921589	231934820	1	None	S1, P112, Rpn2
2	PSMD1	ENSG00000173692	ENST00000409643	protein_coding	KNOWN	CCDS54436	9554	2769	922	231921608	232035426	1	None	S1, P112, Rpn2
2	PSMD1	ENSG00000173692	ENST00000444007	protein_coding	NOVEL	None	9554	491	162	231931618	231940280	1	None	S1, P112, Rpn2
2	PSMD1	ENSG00000173692	ENST00000447633	protein_coding	PUTATIVE	None	9554	578	191	231948278	232003784	1	None	S1, P112, Rpn2
2	PSMD1	ENSG00000173692	ENST00000488354	processed_transcript	PUTATIVE	None	9554	None	None	231949794	231973836	1	None	S1, P112, Rpn2
2	PSMD1	ENSG00000173692	ENST00000467792	retained_intron	KNOWN	None	9554	None	None	232018183	232028424	1	None	S1, P112, Rpn2
2	PSMD1	ENSG00000173692	ENST00000477120	retained_intron	KNOWN	None	9554	None	None	232027807	232030001	1	None	S1, P112, Rpn2
2	PSMD1	ENSG00000173692	ENST00000481003	retained_intron	KNOWN	None	9554	None	None	232029673	232030608	1	None	S1, P112, Rpn2
2	PSMD1	ENSG00000173692	ENST00000491229	retained_intron	KNOWN	None	9554	None	None	232035116	232037474	1	None	S1, P112, Rpn2
2	PSMD1	ENSG00000173692	ENST00000373635	protein_coding	KNOWN	CCDS54436	9554	2769	922	231921578	232037538	1	None	S1, P112, Rpn2
2	HTR2B	ENSG00000135914	ENST00000258400	protein_coding	KNOWN	CCDS2483	5294	1446	481	231972944	231989832	-1	None	5-HT(2B), 5-HT2B
9	ORM1	ENSG00000229314	ENST00000259396	protein_coding	KNOWN	CCDS6803	8498	606	201	117085336	117088755	1	None	None
9	ORM1	ENSG00000229314	ENST00000477456	processed_transcript	KNOWN	None	8498	None	None	117086046	117087531	1	None	None
9	ORM1	ENSG00000229314	ENST00000538816	protein_coding	KNOWN	None	8498	585	194	117085377	117086584	1	None	None
2	ARMC9	ENSG00000135931	ENST00000349938	protein_coding	KNOWN	CCDS2484	20730	1998	665	232063260	232209914	1	None	FLJ12584, KIAA1868, ARM, KU-MEL-1
2	ARMC9	ENSG00000135931	ENST00000482392	retained_intron	KNOWN	None	20730	None	None	232063357	232079993	1	None	FLJ12584, KIAA1868, ARM, KU-MEL-1
2	ARMC9	ENSG00000135931	ENST00000440107	protein_coding	KNOWN	None	20730	499	165	232063467	232081501	1	None	FLJ12584, KIAA1868, ARM, KU-MEL-1
2	ARMC9	ENSG00000135931	ENST00000483477	processed_transcript	KNOWN	None	20730	None	None	232070952	232239548	1	None	FLJ12584, KIAA1868, ARM, KU-MEL-1
2	ARMC9	ENSG00000135931	ENST00000469789	processed_transcript	KNOWN	None	20730	None	None	232079647	232100067	1	None	FLJ12584, KIAA1868, ARM, KU-MEL-1
2	ARMC9	ENSG00000135931	ENST00000444285	protein_coding	PUTATIVE	None	20730	222	73	232100053	232104870	1	None	FLJ12584, KIAA1868, ARM, KU-MEL-1
2	ARMC9	ENSG00000135931	ENST00000436339	protein_coding	NOVEL	None	20730	626	207	232100065	232141489	1	None	FLJ12584, KIAA1868, ARM, KU-MEL-1
2	ARMC9	ENSG00000135931	ENST00000467698	retained_intron	KNOWN	None	20730	None	None	232123678	232143140	1	None	FLJ12584, KIAA1868, ARM, KU-MEL-1
2	ARMC9	ENSG00000135931	ENST00000424740	protein_coding	NOVEL	None	20730	582	193	232123682	232141488	1	None	FLJ12584, KIAA1868, ARM, KU-MEL-1
2	ARMC9	ENSG00000135931	ENST00000446447	protein_coding	PUTATIVE	None	20730	475	157	232135245	232143169	1	None	FLJ12584, KIAA1868, ARM, KU-MEL-1
2	ARMC9	ENSG00000135931	ENST00000481520	retained_intron	KNOWN	None	20730	None	None	232135456	232156148	1	None	FLJ12584, KIAA1868, ARM, KU-MEL-1
2	ARMC9	ENSG00000135931	ENST00000428662	nonsense_mediated_decay	KNOWN	None	20730	517	171	232135694	232209914	1	None	FLJ12584, KIAA1868, ARM, KU-MEL-1
2	ARMC9	ENSG00000135931	ENST00000486787	retained_intron	KNOWN	None	20730	None	None	232158533	232209914	1	None	FLJ12584, KIAA1868, ARM, KU-MEL-1
2	ARMC9	ENSG00000135931	ENST00000488821	processed_transcript	PUTATIVE	None	20730	None	None	232235285	232236930	1	None	FLJ12584, KIAA1868, ARM, KU-MEL-1
2	B3GNT7	ENSG00000156966	ENST00000287590	protein_coding	KNOWN	CCDS46540	18811	1206	401	232260254	232265875	1	None	beta3GnT7
2	B3GNT7	ENSG00000156966	ENST00000479618	processed_transcript	PUTATIVE	None	18811	None	None	232261887	232262968	1	None	beta3GnT7
2	None	ENSG00000233538	ENST00000370380	protein_coding	PUTATIVE	None	None	344	113	232316906	232317864	1	None	None
2	NCL	ENSG00000115053	ENST00000322723	protein_coding	KNOWN	CCDS33397	7667	2133	710	232318242	232329305	-1	None	C23
2	NCL	ENSG00000115053	ENST00000461347	retained_intron	KNOWN	None	7667	None	None	232319619	232348352	-1	None	C23
2	NCL	ENSG00000115053	ENST00000356936	protein_coding	NOVEL	None	7667	890	295	232320153	232323068	-1	None	C23
2	NCL	ENSG00000115053	ENST00000466274	retained_intron	KNOWN	None	7667	None	None	232320721	232322121	-1	None	C23
2	NCL	ENSG00000115053	ENST00000494618	retained_intron	KNOWN	None	7667	None	None	232322137	232325436	-1	None	C23
2	NCL	ENSG00000115053	ENST00000454824	protein_coding	PUTATIVE	None	7667	511	169	232326305	232328918	-1	None	C23
2	NCL	ENSG00000115053	ENST00000417652	protein_coding	PUTATIVE	None	7667	498	165	232326318	232328910	-1	None	C23
2	NCL	ENSG00000115053	ENST00000453992	protein_coding	PUTATIVE	None	7667	454	150	232326362	232328891	-1	None	C23
2	NCL	ENSG00000115053	ENST00000436894	protein_coding	PUTATIVE	None	7667	424	140	232326392	232328404	-1	None	C23
2	NCL	ENSG00000115053	ENST00000484328	retained_intron	KNOWN	None	7667	None	None	232327703	232329090	-1	None	C23
2	NMUR1	ENSG00000171596	ENST00000305141	protein_coding	KNOWN	CCDS2486	4518	1281	426	232387871	232395206	-1	GPR66	GPC-R, FM-3, NMU1R
14	EFCAB11	ENSG00000140025	ENST00000316738	protein_coding	KNOWN	CCDS9887	20357	492	163	90261013	90421033	-1	C14orf143	None
14	EFCAB11	ENSG00000140025	ENST00000555872	protein_coding	KNOWN	None	20357	420	139	90261491	90420901	-1	C14orf143	None
14	EFCAB11	ENSG00000140025	ENST00000557685	nonsense_mediated_decay	KNOWN	None	20357	354	117	90263471	90420345	-1	C14orf143	None
14	EFCAB11	ENSG00000140025	ENST00000556609	protein_coding	PUTATIVE	None	20357	348	115	90263481	90421121	-1	C14orf143	None
14	EFCAB11	ENSG00000140025	ENST00000553871	processed_transcript	KNOWN	None	20357	None	None	90263501	90418949	-1	C14orf143	None
14	EFCAB11	ENSG00000140025	ENST00000556078	processed_transcript	PUTATIVE	None	20357	None	None	90265517	90390971	-1	C14orf143	None
14	EFCAB11	ENSG00000140025	ENST00000556639	nonsense_mediated_decay	KNOWN	None	20357	186	61	90296175	90421074	-1	C14orf143	None
14	EFCAB11	ENSG00000140025	ENST00000555608	processed_transcript	KNOWN	None	20357	None	None	90297408	90421085	-1	C14orf143	None
14	EFCAB11	ENSG00000140025	ENST00000550103	processed_transcript	PUTATIVE	None	20357	None	None	90314777	90398938	-1	C14orf143	None
14	EFCAB11	ENSG00000140025	ENST00000538485	protein_coding	NOVEL	None	20357	429	142	90389652	90421094	-1	C14orf143	None
14	EFCAB11	ENSG00000140025	ENST00000556005	protein_coding	KNOWN	None	20357	357	118	90389670	90420867	-1	C14orf143	None
14	EFCAB11	ENSG00000140025	ENST00000554761	retained_intron	KNOWN	None	20357	None	None	90397388	90418932	-1	C14orf143	None
14	EFCAB11	ENSG00000140025	ENST00000555430	processed_transcript	PUTATIVE	None	20357	None	None	90404351	90418884	-1	C14orf143	None
14	EFCAB11	ENSG00000140025	ENST00000267544	protein_coding	KNOWN	None	20357	450	149	90302907	90421028	-1	C14orf143	None
2	C2orf57	ENSG00000177673	ENST00000313965	protein_coding	KNOWN	CCDS2487	28563	1188	395	232457575	232458994	1	None	MGC35154
2	None	ENSG00000269363	ENST00000595658	protein_coding	NOVEL	None	None	105	34	232571517	232571621	-1	None	None
2	PTMA	ENSG00000187514	ENST00000466801	processed_transcript	KNOWN	None	9623	None	None	232571605	232577723	1	TMSA	None
2	PTMA	ENSG00000187514	ENST00000448874	nonsense_mediated_decay	KNOWN	None	9623	132	43	232572340	232578175	1	TMSA	None
2	PTMA	ENSG00000187514	ENST00000409321	protein_coding	PUTATIVE	None	9623	396	131	232572394	232577818	1	TMSA	None
2	PTMA	ENSG00000187514	ENST00000409115	protein_coding	KNOWN	CCDS46541	9623	333	110	232573219	232578251	1	TMSA	None
2	PTMA	ENSG00000187514	ENST00000341369	protein_coding	KNOWN	CCDS42833	9623	336	111	232573226	232578246	1	TMSA	None
2	PTMA	ENSG00000187514	ENST00000468027	retained_intron	KNOWN	None	9623	None	None	232573240	232577385	1	TMSA	None
2	PTMA	ENSG00000187514	ENST00000481928	retained_intron	KNOWN	None	9623	None	None	232573240	232578216	1	TMSA	None
2	PTMA	ENSG00000187514	ENST00000409683	protein_coding	NOVEL	None	9623	324	107	232573246	232577999	1	TMSA	None
2	PTMA	ENSG00000187514	ENST00000410064	protein_coding	PUTATIVE	None	9623	411	136	232574491	232577566	1	TMSA	None
2	PTMA	ENSG00000187514	ENST00000412128	protein_coding	NOVEL	None	9623	446	147	232575137	232577978	1	TMSA	None
2	PTMA	ENSG00000187514	ENST00000440384	protein_coding	NOVEL	None	9623	222	73	232575201	232576093	1	TMSA	None
2	PTMA	ENSG00000187514	ENST00000467816	retained_intron	KNOWN	None	9623	None	None	232575841	232576688	1	TMSA	None
2	PDE6D	ENSG00000156973	ENST00000287600	protein_coding	KNOWN	CCDS33398	8788	453	150	232597135	232646019	-1	None	None
2	PDE6D	ENSG00000156973	ENST00000409772	protein_coding	PUTATIVE	None	8788	282	93	232597514	232646001	-1	None	None
2	PDE6D	ENSG00000156973	ENST00000428104	protein_coding	PUTATIVE	None	8788	314	103	232601897	232650982	-1	None	None
2	PDE6D	ENSG00000156973	ENST00000486044	retained_intron	KNOWN	None	8788	None	None	232602132	232645973	-1	None	None
2	PDE6D	ENSG00000156973	ENST00000477748	processed_transcript	PUTATIVE	None	8788	None	None	232643433	232645992	-1	None	None
8	EBAG9	ENSG00000147654	ENST00000395785	protein_coding	KNOWN	CCDS6313	3123	642	213	110551940	110577389	1	None	EB9, RCAS1
8	EBAG9	ENSG00000147654	ENST00000529502	processed_transcript	KNOWN	None	3123	None	None	110551988	110570146	1	None	EB9, RCAS1
8	EBAG9	ENSG00000147654	ENST00000529931	protein_coding	PUTATIVE	None	3123	123	40	110552067	110569256	1	None	EB9, RCAS1
8	EBAG9	ENSG00000147654	ENST00000337573	protein_coding	KNOWN	CCDS6313	3123	642	213	110552406	110578225	1	None	EB9, RCAS1
8	EBAG9	ENSG00000147654	ENST00000527709	nonsense_mediated_decay	KNOWN	None	3123	462	153	110552414	110573095	1	None	EB9, RCAS1
8	EBAG9	ENSG00000147654	ENST00000530629	protein_coding	KNOWN	None	3123	591	196	110552855	110576737	1	None	EB9, RCAS1
8	EBAG9	ENSG00000147654	ENST00000534318	protein_coding	KNOWN	None	3123	235	77	110562476	110567030	1	None	EB9, RCAS1
8	EBAG9	ENSG00000147654	ENST00000531677	protein_coding	NOVEL	None	3123	777	258	110563054	110576788	1	None	EB9, RCAS1
X	CXorf40A	ENSG00000197620	ENST00000431132	protein_coding	KNOWN	None	28089	90	29	148621900	148627266	1	CXorf40	EOLA1
X	CXorf40A	ENSG00000197620	ENST00000450602	protein_coding	KNOWN	CCDS14687	28089	477	158	148622175	148628855	1	CXorf40	EOLA1
X	CXorf40A	ENSG00000197620	ENST00000441248	protein_coding	KNOWN	CCDS14687	28089	477	158	148622187	148628855	1	CXorf40	EOLA1
X	CXorf40A	ENSG00000197620	ENST00000393985	protein_coding	KNOWN	CCDS14687	28089	477	158	148622519	148628580	1	CXorf40	EOLA1
X	CXorf40A	ENSG00000197620	ENST00000423421	protein_coding	KNOWN	CCDS14687	28089	477	158	148622520	148628855	1	CXorf40	EOLA1
X	CXorf40A	ENSG00000197620	ENST00000423540	protein_coding	KNOWN	CCDS14687	28089	477	158	148622528	148628700	1	CXorf40	EOLA1
X	CXorf40A	ENSG00000197620	ENST00000434353	protein_coding	PUTATIVE	CCDS55522	28089	441	146	148622532	148631485	1	CXorf40	EOLA1
X	CXorf40A	ENSG00000197620	ENST00000514208	protein_coding	PUTATIVE	CCDS55522	28089	441	146	148622569	148632055	1	CXorf40	EOLA1
X	CXorf40A	ENSG00000197620	ENST00000448332	processed_transcript	KNOWN	None	28089	None	None	148622982	148623595	1	CXorf40	EOLA1
X	CXorf40A	ENSG00000197620	ENST00000428236	protein_coding	PUTATIVE	None	28089	291	96	148623564	148628855	1	CXorf40	EOLA1
X	CXorf40A	ENSG00000197620	ENST00000422892	protein_coding	PUTATIVE	CCDS55522	28089	441	146	148626066	148631537	1	CXorf40	EOLA1
X	CXorf40A	ENSG00000197620	ENST00000359293	protein_coding	KNOWN	CCDS14687	28089	477	158	148627024	148628852	1	CXorf40	EOLA1
8	NKAIN3	ENSG00000185942	ENST00000519049	processed_transcript	KNOWN	None	26829	None	None	63161150	63878188	1	FAM77D	FLJ39630
8	NKAIN3	ENSG00000185942	ENST00000523367	processed_transcript	KNOWN	None	26829	None	None	63161228	63776057	1	FAM77D	FLJ39630
8	NKAIN3	ENSG00000185942	ENST00000523211	protein_coding	KNOWN	CCDS55239	26829	594	197	63161501	63912211	1	FAM77D	FLJ39630
8	NKAIN3	ENSG00000185942	ENST00000524201	protein_coding	PUTATIVE	None	26829	303	100	63161522	63659601	1	FAM77D	FLJ39630
8	NKAIN3	ENSG00000185942	ENST00000328472	protein_coding	KNOWN	CCDS55239	26829	594	197	63161633	63902788	1	FAM77D	FLJ39630
2	COPS7B	ENSG00000144524	ENST00000410024	protein_coding	KNOWN	CCDS2488	16760	795	264	232646381	232672434	1	None	CSN7B
2	COPS7B	ENSG00000144524	ENST00000409295	protein_coding	PUTATIVE	None	16760	693	230	232646388	232672525	1	None	CSN7B
2	COPS7B	ENSG00000144524	ENST00000409091	protein_coding	PUTATIVE	None	16760	474	157	232646395	232672405	1	None	CSN7B
2	COPS7B	ENSG00000144524	ENST00000479430	retained_intron	KNOWN	None	16760	None	None	232646417	232653637	1	None	CSN7B
2	COPS7B	ENSG00000144524	ENST00000452375	nonsense_mediated_decay	KNOWN	None	16760	207	68	232646417	232655879	1	None	CSN7B
2	COPS7B	ENSG00000144524	ENST00000449784	nonsense_mediated_decay	KNOWN	None	16760	165	54	232646417	232661021	1	None	CSN7B
2	COPS7B	ENSG00000144524	ENST00000466901	retained_intron	KNOWN	None	16760	None	None	232646418	232656686	1	None	CSN7B
2	COPS7B	ENSG00000144524	ENST00000350033	protein_coding	KNOWN	CCDS2488	16760	795	264	232651124	232673963	1	None	CSN7B
2	COPS7B	ENSG00000144524	ENST00000412591	protein_coding	NOVEL	None	16760	450	149	232651144	232663653	1	None	CSN7B
2	COPS7B	ENSG00000144524	ENST00000413197	nonsense_mediated_decay	KNOWN	None	16760	189	62	232651144	232673957	1	None	CSN7B
2	COPS7B	ENSG00000144524	ENST00000450501	nonsense_mediated_decay	KNOWN	None	16760	189	62	232651145	232656496	1	None	CSN7B
2	COPS7B	ENSG00000144524	ENST00000357490	nonsense_mediated_decay	KNOWN	None	16760	165	54	232651146	232656472	1	None	CSN7B
2	COPS7B	ENSG00000144524	ENST00000432387	nonsense_mediated_decay	KNOWN	None	16760	237	78	232651146	232656518	1	None	CSN7B
2	COPS7B	ENSG00000144524	ENST00000492423	retained_intron	KNOWN	None	16760	None	None	232651155	232653859	1	None	CSN7B
2	COPS7B	ENSG00000144524	ENST00000410017	protein_coding	NOVEL	None	16760	837	278	232651155	232673433	1	None	CSN7B
2	COPS7B	ENSG00000144524	ENST00000412922	nonsense_mediated_decay	KNOWN	None	16760	312	103	232651155	232673474	1	None	CSN7B
2	COPS7B	ENSG00000144524	ENST00000373608	protein_coding	NOVEL	None	16760	822	273	232651158	232673963	1	None	CSN7B
2	COPS7B	ENSG00000144524	ENST00000436564	nonsense_mediated_decay	KNOWN	None	16760	149	48	232653399	232660855	1	None	CSN7B
2	COPS7B	ENSG00000144524	ENST00000461350	retained_intron	KNOWN	None	16760	None	None	232654364	232673433	1	None	CSN7B
2	COPS7B	ENSG00000144524	ENST00000474042	retained_intron	KNOWN	None	16760	None	None	232656314	232672507	1	None	CSN7B
2	COPS7B	ENSG00000144524	ENST00000488111	retained_intron	KNOWN	None	16760	None	None	232658226	232673432	1	None	CSN7B
2	COPS7B	ENSG00000144524	ENST00000449174	protein_coding	PUTATIVE	None	16760	519	172	232660897	232673434	1	None	CSN7B
9	ZCCHC7	ENSG00000147905	ENST00000336755	protein_coding	KNOWN	CCDS6608	26209	1632	543	37120536	37358146	1	None	FLJ22611, AIR1
9	ZCCHC7	ENSG00000147905	ENST00000322831	protein_coding	KNOWN	None	26209	618	205	37120602	37187051	1	None	FLJ22611, AIR1
9	ZCCHC7	ENSG00000147905	ENST00000461038	processed_transcript	KNOWN	None	26209	None	None	37120633	37358146	1	None	FLJ22611, AIR1
9	ZCCHC7	ENSG00000147905	ENST00000488607	processed_transcript	KNOWN	None	26209	None	None	37144929	37356977	1	None	FLJ22611, AIR1
9	ZCCHC7	ENSG00000147905	ENST00000463625	processed_transcript	KNOWN	None	26209	None	None	37284160	37354799	1	None	FLJ22611, AIR1
9	ZCCHC7	ENSG00000147905	ENST00000497924	processed_transcript	KNOWN	None	26209	None	None	37326031	37357156	1	None	FLJ22611, AIR1
9	ZCCHC7	ENSG00000147905	ENST00000481507	processed_transcript	KNOWN	None	26209	None	None	37326921	37357387	1	None	FLJ22611, AIR1
9	ZCCHC7	ENSG00000147905	ENST00000496099	processed_transcript	KNOWN	None	26209	None	None	37327317	37357162	1	None	FLJ22611, AIR1
9	ZCCHC7	ENSG00000147905	ENST00000534928	protein_coding	KNOWN	None	26209	762	253	37120560	37357563	1	None	FLJ22611, AIR1
2	NPPC	ENSG00000163273	ENST00000409852	protein_coding	KNOWN	CCDS2489	7941	381	126	232786530	232791113	-1	None	CNP
2	NPPC	ENSG00000163273	ENST00000295440	protein_coding	KNOWN	CCDS2489	7941	381	126	232790095	232791038	-1	None	CNP
15	SH2D7	ENSG00000183476	ENST00000409568	protein_coding	PUTATIVE	None	34549	948	315	78370150	78396712	1	None	LOC646892
15	SH2D7	ENSG00000183476	ENST00000328828	protein_coding	NOVEL	CCDS45315	34549	1356	451	78384927	78397251	1	None	LOC646892
15	CIB2	ENSG00000136425	ENST00000258930	protein_coding	KNOWN	CCDS10296	24579	564	187	78396948	78423886	-1	DFNB48, USH1J	KIP2
15	CIB2	ENSG00000136425	ENST00000539011	protein_coding	PUTATIVE	None	24579	435	144	78396991	78423877	-1	DFNB48, USH1J	KIP2
15	CIB2	ENSG00000136425	ENST00000557846	protein_coding	NOVEL	None	24579	417	138	78397354	78423775	-1	DFNB48, USH1J	KIP2
15	CIB2	ENSG00000136425	ENST00000557818	nonsense_mediated_decay	KNOWN	None	24579	147	48	78397530	78403608	-1	DFNB48, USH1J	KIP2
15	CIB2	ENSG00000136425	ENST00000557917	nonsense_mediated_decay	KNOWN	None	24579	279	92	78397626	78423613	-1	DFNB48, USH1J	KIP2
15	CIB2	ENSG00000136425	ENST00000561190	protein_coding	NOVEL	None	24579	380	125	78397641	78423567	-1	DFNB48, USH1J	KIP2
15	CIB2	ENSG00000136425	ENST00000560618	protein_coding	PUTATIVE	None	24579	504	167	78397832	78423605	-1	DFNB48, USH1J	KIP2
15	CIB2	ENSG00000136425	ENST00000559645	protein_coding	NOVEL	None	24579	442	146	78398196	78423577	-1	DFNB48, USH1J	KIP2
15	CIB2	ENSG00000136425	ENST00000559054	protein_coding	PUTATIVE	None	24579	164	53	78401630	78423613	-1	DFNB48, USH1J	KIP2
8	TEX15	ENSG00000133863	ENST00000256246	protein_coding	KNOWN	CCDS6080	11738	8370	2789	30689060	30706608	-1	None	CT42
8	TEX15	ENSG00000133863	ENST00000523186	processed_transcript	KNOWN	None	11738	None	None	30706243	30746222	-1	None	CT42
8	TEX15	ENSG00000133863	ENST00000518257	processed_transcript	KNOWN	None	11738	None	None	30732509	30748122	-1	None	CT42
4	ZNF330	ENSG00000109445	ENST00000514826	retained_intron	KNOWN	None	15462	None	None	142142041	142144030	1	None	NOA36, HSA6591
4	ZNF330	ENSG00000109445	ENST00000262990	protein_coding	KNOWN	CCDS3754	15462	963	320	142142041	142155851	1	None	NOA36, HSA6591
4	ZNF330	ENSG00000109445	ENST00000507532	nonsense_mediated_decay	KNOWN	None	15462	108	35	142142054	142153743	1	None	NOA36, HSA6591
4	ZNF330	ENSG00000109445	ENST00000512809	protein_coding	KNOWN	None	15462	688	228	142142065	142153796	1	None	NOA36, HSA6591
4	ZNF330	ENSG00000109445	ENST00000515453	nonsense_mediated_decay	KNOWN	None	15462	126	41	142142082	142145173	1	None	NOA36, HSA6591
4	ZNF330	ENSG00000109445	ENST00000503649	protein_coding	KNOWN	None	15462	419	138	142142084	142150852	1	None	NOA36, HSA6591
4	ZNF330	ENSG00000109445	ENST00000512738	protein_coding	KNOWN	None	15462	459	152	142142084	142151360	1	None	NOA36, HSA6591
4	ZNF330	ENSG00000109445	ENST00000506302	nonsense_mediated_decay	KNOWN	None	15462	234	77	142142088	142155250	1	None	NOA36, HSA6591
4	ZNF330	ENSG00000109445	ENST00000421169	protein_coding	KNOWN	None	15462	783	260	142142088	142155250	1	None	NOA36, HSA6591
2	DIS3L2	ENSG00000144535	ENST00000273009	protein_coding	KNOWN	CCDS58752	28648	1812	603	232825955	233209060	1	FAM6A	FLJ36974, MGC42174
2	DIS3L2	ENSG00000144535	ENST00000409401	protein_coding	KNOWN	CCDS58753	28648	750	249	232826394	232996600	1	FAM6A	FLJ36974, MGC42174
2	DIS3L2	ENSG00000144535	ENST00000390005	nonsense_mediated_decay	KNOWN	None	28648	1860	619	232826394	233201908	1	FAM6A	FLJ36974, MGC42174
2	DIS3L2	ENSG00000144535	ENST00000445090	nonsense_mediated_decay	KNOWN	CCDS58753	28648	750	249	232826402	233201265	1	FAM6A	FLJ36974, MGC42174
2	DIS3L2	ENSG00000144535	ENST00000441279	protein_coding	KNOWN	None	28648	432	143	232826418	232952262	1	FAM6A	FLJ36974, MGC42174
2	DIS3L2	ENSG00000144535	ENST00000409307	protein_coding	KNOWN	CCDS42834	28648	2658	885	232879638	233201340	1	FAM6A	FLJ36974, MGC42174
2	DIS3L2	ENSG00000144535	ENST00000433430	nonsense_mediated_decay	KNOWN	None	28648	1071	356	232879638	233201687	1	FAM6A	FLJ36974, MGC42174
2	DIS3L2	ENSG00000144535	ENST00000464554	retained_intron	KNOWN	None	28648	None	None	232880311	232952554	1	FAM6A	FLJ36974, MGC42174
2	DIS3L2	ENSG00000144535	ENST00000470087	processed_transcript	KNOWN	None	28648	None	None	232880562	232995585	1	FAM6A	FLJ36974, MGC42174
2	DIS3L2	ENSG00000144535	ENST00000424049	protein_coding	NOVEL	None	28648	1149	382	233028314	233199164	1	FAM6A	FLJ36974, MGC42174
2	DIS3L2	ENSG00000144535	ENST00000498319	processed_transcript	KNOWN	None	28648	None	None	233114050	233172488	1	FAM6A	FLJ36974, MGC42174
2	DIS3L2	ENSG00000144535	ENST00000429283	retained_intron	KNOWN	None	28648	None	None	233193218	233201686	1	FAM6A	FLJ36974, MGC42174
2	DIS3L2	ENSG00000144535	ENST00000434477	protein_coding	PUTATIVE	None	28648	590	195	233198653	233205709	1	FAM6A	FLJ36974, MGC42174
2	DIS3L2	ENSG00000144535	ENST00000418143	protein_coding	PUTATIVE	None	28648	499	165	233199370	233201684	1	FAM6A	FLJ36974, MGC42174
2	DIS3L2	ENSG00000144535	ENST00000417808	protein_coding	PUTATIVE	None	28648	207	68	233200495	233201683	1	FAM6A	FLJ36974, MGC42174
2	DIS3L2	ENSG00000144535	ENST00000325385	protein_coding	KNOWN	CCDS42834	28648	2658	885	232826293	233201907	1	FAM6A	FLJ36974, MGC42174
2	DIS3L2	ENSG00000144535	ENST00000360410	protein_coding	KNOWN	None	28648	1071	356	232826293	233028230	1	FAM6A	FLJ36974, MGC42174
9	C9orf66	ENSG00000183784	ENST00000382387	protein_coding	KNOWN	CCDS6439	26436	888	295	213108	215893	-1	None	FLJ31158
2	ALPP	ENSG00000163283	ENST00000392027	protein_coding	KNOWN	CCDS2490	439	1608	535	233243244	233247599	1	None	None
2	ALPP	ENSG00000163283	ENST00000474529	retained_intron	KNOWN	None	439	None	None	233243434	233244494	1	None	None
2	ALPP	ENSG00000163283	ENST00000485563	retained_intron	KNOWN	None	439	None	None	233245949	233247319	1	None	None
2	ALPPL2	ENSG00000163286	ENST00000295453	protein_coding	KNOWN	CCDS2491	441	1599	532	233271553	233275424	1	None	None
2	ALPI	ENSG00000163295	ENST00000295463	protein_coding	KNOWN	CCDS2492	437	1587	528	233320833	233324742	1	None	None
2	ALPI	ENSG00000163295	ENST00000457560	nonsense_mediated_decay	KNOWN	None	437	153	50	233320835	233323994	1	None	None
2	ECEL1	ENSG00000171551	ENST00000411860	protein_coding	NOVEL	None	3147	507	168	233344537	233347168	-1	None	XCE, DINE
2	ECEL1	ENSG00000171551	ENST00000482346	retained_intron	KNOWN	None	3147	None	None	233344537	233352531	-1	None	XCE, DINE
2	ECEL1	ENSG00000171551	ENST00000304546	protein_coding	KNOWN	CCDS2493	3147	2328	775	233344537	233352538	-1	None	XCE, DINE
2	ECEL1	ENSG00000171551	ENST00000409941	protein_coding	KNOWN	None	3147	2322	773	233344863	233351363	-1	None	XCE, DINE
8	SYBU	ENSG00000147642	ENST00000533895	protein_coding	KNOWN	CCDS43763	26011	1989	662	110586207	110661065	-1	None	FLJ20366, GOLSYN, KIAA1472, OCSYN, SNPHL
8	SYBU	ENSG00000147642	ENST00000424158	protein_coding	NOVEL	None	26011	2007	668	110586405	110661008	-1	None	FLJ20366, GOLSYN, KIAA1472, OCSYN, SNPHL
8	SYBU	ENSG00000147642	ENST00000532779	protein_coding	KNOWN	None	26011	1788	595	110586405	110703833	-1	None	FLJ20366, GOLSYN, KIAA1472, OCSYN, SNPHL
8	SYBU	ENSG00000147642	ENST00000399066	protein_coding	KNOWN	CCDS43764	26011	1983	660	110586411	110655904	-1	None	FLJ20366, GOLSYN, KIAA1472, OCSYN, SNPHL
8	SYBU	ENSG00000147642	ENST00000446070	protein_coding	KNOWN	CCDS43763	26011	1989	662	110586411	110661065	-1	None	FLJ20366, GOLSYN, KIAA1472, OCSYN, SNPHL
8	SYBU	ENSG00000147642	ENST00000528331	protein_coding	KNOWN	CCDS55271	26011	1635	544	110586411	110661065	-1	None	FLJ20366, GOLSYN, KIAA1472, OCSYN, SNPHL
8	SYBU	ENSG00000147642	ENST00000529175	protein_coding	PUTATIVE	None	26011	1374	457	110586415	110592766	-1	None	FLJ20366, GOLSYN, KIAA1472, OCSYN, SNPHL
8	SYBU	ENSG00000147642	ENST00000276646	protein_coding	KNOWN	CCDS47912	26011	1992	663	110586415	110657046	-1	None	FLJ20366, GOLSYN, KIAA1472, OCSYN, SNPHL
8	SYBU	ENSG00000147642	ENST00000528647	protein_coding	KNOWN	CCDS43763	26011	1989	662	110586415	110657746	-1	None	FLJ20366, GOLSYN, KIAA1472, OCSYN, SNPHL
8	SYBU	ENSG00000147642	ENST00000533065	protein_coding	KNOWN	CCDS55271	26011	1635	544	110586435	110657046	-1	None	FLJ20366, GOLSYN, KIAA1472, OCSYN, SNPHL
8	SYBU	ENSG00000147642	ENST00000529690	protein_coding	PUTATIVE	None	26011	1602	533	110586882	110620304	-1	None	FLJ20366, GOLSYN, KIAA1472, OCSYN, SNPHL
8	SYBU	ENSG00000147642	ENST00000533171	protein_coding	KNOWN	CCDS47912	26011	1992	663	110586981	110693234	-1	None	FLJ20366, GOLSYN, KIAA1472, OCSYN, SNPHL
8	SYBU	ENSG00000147642	ENST00000527707	processed_transcript	KNOWN	None	26011	None	None	110588204	110593287	-1	None	FLJ20366, GOLSYN, KIAA1472, OCSYN, SNPHL
8	SYBU	ENSG00000147642	ENST00000533394	protein_coding	PUTATIVE	None	26011	434	143	110588204	110615683	-1	None	FLJ20366, GOLSYN, KIAA1472, OCSYN, SNPHL
8	SYBU	ENSG00000147642	ENST00000532594	nonsense_mediated_decay	KNOWN	None	26011	144	47	110590125	110620229	-1	None	FLJ20366, GOLSYN, KIAA1472, OCSYN, SNPHL
8	SYBU	ENSG00000147642	ENST00000528045	protein_coding	KNOWN	None	26011	377	124	110592028	110660975	-1	None	FLJ20366, GOLSYN, KIAA1472, OCSYN, SNPHL
8	SYBU	ENSG00000147642	ENST00000527664	processed_transcript	KNOWN	None	26011	None	None	110592038	110693103	-1	None	FLJ20366, GOLSYN, KIAA1472, OCSYN, SNPHL
8	SYBU	ENSG00000147642	ENST00000528735	retained_intron	KNOWN	None	26011	None	None	110592141	110598758	-1	None	FLJ20366, GOLSYN, KIAA1472, OCSYN, SNPHL
8	SYBU	ENSG00000147642	ENST00000529190	protein_coding	KNOWN	None	26011	612	203	110592147	110704018	-1	None	FLJ20366, GOLSYN, KIAA1472, OCSYN, SNPHL
8	SYBU	ENSG00000147642	ENST00000528569	protein_coding	KNOWN	None	26011	240	79	110592165	110655655	-1	None	FLJ20366, GOLSYN, KIAA1472, OCSYN, SNPHL
8	SYBU	ENSG00000147642	ENST00000532189	protein_coding	KNOWN	None	26011	240	79	110592165	110693144	-1	None	FLJ20366, GOLSYN, KIAA1472, OCSYN, SNPHL
8	SYBU	ENSG00000147642	ENST00000526736	retained_intron	KNOWN	None	26011	None	None	110597951	110620228	-1	None	FLJ20366, GOLSYN, KIAA1472, OCSYN, SNPHL
8	SYBU	ENSG00000147642	ENST00000533821	protein_coding	KNOWN	None	26011	488	161	110598328	110692448	-1	None	FLJ20366, GOLSYN, KIAA1472, OCSYN, SNPHL
8	SYBU	ENSG00000147642	ENST00000530841	protein_coding	KNOWN	None	26011	106	34	110598356	110657747	-1	None	FLJ20366, GOLSYN, KIAA1472, OCSYN, SNPHL
8	SYBU	ENSG00000147642	ENST00000531230	protein_coding	KNOWN	None	26011	103	33	110598359	110693143	-1	None	FLJ20366, GOLSYN, KIAA1472, OCSYN, SNPHL
8	SYBU	ENSG00000147642	ENST00000534501	protein_coding	KNOWN	None	26011	455	150	110598364	110657618	-1	None	FLJ20366, GOLSYN, KIAA1472, OCSYN, SNPHL
8	SYBU	ENSG00000147642	ENST00000531284	retained_intron	KNOWN	None	26011	None	None	110631040	110657008	-1	None	FLJ20366, GOLSYN, KIAA1472, OCSYN, SNPHL
8	SYBU	ENSG00000147642	ENST00000524720	protein_coding	KNOWN	None	26011	412	136	110631086	110661195	-1	None	FLJ20366, GOLSYN, KIAA1472, OCSYN, SNPHL
8	SYBU	ENSG00000147642	ENST00000534184	protein_coding	KNOWN	None	26011	311	102	110631184	110693153	-1	None	FLJ20366, GOLSYN, KIAA1472, OCSYN, SNPHL
8	SYBU	ENSG00000147642	ENST00000528716	protein_coding	KNOWN	None	26011	285	94	110631213	110693041	-1	None	FLJ20366, GOLSYN, KIAA1472, OCSYN, SNPHL
8	SYBU	ENSG00000147642	ENST00000526302	protein_coding	KNOWN	None	26011	229	75	110654957	110661091	-1	None	FLJ20366, GOLSYN, KIAA1472, OCSYN, SNPHL
8	SYBU	ENSG00000147642	ENST00000534578	protein_coding	KNOWN	None	26011	229	75	110654957	110703834	-1	None	FLJ20366, GOLSYN, KIAA1472, OCSYN, SNPHL
8	SYBU	ENSG00000147642	ENST00000527600	protein_coding	KNOWN	None	26011	221	72	110654965	110693057	-1	None	FLJ20366, GOLSYN, KIAA1472, OCSYN, SNPHL
8	SYBU	ENSG00000147642	ENST00000422135	protein_coding	KNOWN	CCDS47912	26011	1992	663	110586417	110704020	-1	None	FLJ20366, GOLSYN, KIAA1472, OCSYN, SNPHL
8	SYBU	ENSG00000147642	ENST00000419099	protein_coding	KNOWN	CCDS43763	26011	1989	662	110586417	110704020	-1	None	FLJ20366, GOLSYN, KIAA1472, OCSYN, SNPHL
8	SYBU	ENSG00000147642	ENST00000433638	protein_coding	KNOWN	CCDS47912	26011	1992	663	110586417	110661132	-1	None	FLJ20366, GOLSYN, KIAA1472, OCSYN, SNPHL
8	SYBU	ENSG00000147642	ENST00000408908	protein_coding	KNOWN	CCDS47912	26011	1992	663	110586417	110661132	-1	None	FLJ20366, GOLSYN, KIAA1472, OCSYN, SNPHL
8	SYBU	ENSG00000147642	ENST00000440310	protein_coding	KNOWN	CCDS47912	26011	1992	663	110586417	110657822	-1	None	FLJ20366, GOLSYN, KIAA1472, OCSYN, SNPHL
8	SYBU	ENSG00000147642	ENST00000408889	protein_coding	KNOWN	CCDS55271	26011	1635	544	110586417	110693234	-1	None	FLJ20366, GOLSYN, KIAA1472, OCSYN, SNPHL
14	TDP1	ENSG00000042088	ENST00000554976	nonsense_mediated_decay	KNOWN	None	18884	576	191	90421283	90509596	1	None	FLJ11090, SCAN1
14	TDP1	ENSG00000042088	ENST00000393452	protein_coding	PUTATIVE	None	18884	1770	589	90422246	90509685	1	None	FLJ11090, SCAN1
14	TDP1	ENSG00000042088	ENST00000554180	protein_coding	KNOWN	None	18884	839	278	90422251	90446931	1	None	FLJ11090, SCAN1
14	TDP1	ENSG00000042088	ENST00000393454	protein_coding	KNOWN	CCDS9888	18884	1827	608	90422282	90509688	1	None	FLJ11090, SCAN1
14	TDP1	ENSG00000042088	ENST00000553617	protein_coding	PUTATIVE	None	18884	659	218	90422285	90450931	1	None	FLJ11090, SCAN1
14	TDP1	ENSG00000042088	ENST00000335725	protein_coding	KNOWN	CCDS9888	18884	1827	608	90422295	90511106	1	None	FLJ11090, SCAN1
14	TDP1	ENSG00000042088	ENST00000555565	processed_transcript	KNOWN	None	18884	None	None	90422299	90446936	1	None	FLJ11090, SCAN1
14	TDP1	ENSG00000042088	ENST00000556867	protein_coding	KNOWN	None	18884	455	150	90422337	90429913	1	None	FLJ11090, SCAN1
14	TDP1	ENSG00000042088	ENST00000553569	retained_intron	KNOWN	None	18884	None	None	90422354	90423531	1	None	FLJ11090, SCAN1
14	TDP1	ENSG00000042088	ENST00000553527	protein_coding	KNOWN	None	18884	438	145	90422381	90429896	1	None	FLJ11090, SCAN1
14	TDP1	ENSG00000042088	ENST00000553989	protein_coding	KNOWN	None	18884	443	146	90422867	90429901	1	None	FLJ11090, SCAN1
14	TDP1	ENSG00000042088	ENST00000545686	nonsense_mediated_decay	KNOWN	None	18884	897	298	90422909	90509685	1	None	FLJ11090, SCAN1
14	TDP1	ENSG00000042088	ENST00000555178	nonsense_mediated_decay	KNOWN	None	18884	780	259	90422916	90509659	1	None	FLJ11090, SCAN1
14	TDP1	ENSG00000042088	ENST00000556498	protein_coding	KNOWN	None	18884	485	160	90424637	90429943	1	None	FLJ11090, SCAN1
14	TDP1	ENSG00000042088	ENST00000555880	protein_coding	NOVEL	None	18884	1737	578	90429449	90509653	1	None	FLJ11090, SCAN1
14	TDP1	ENSG00000042088	ENST00000557782	nonsense_mediated_decay	KNOWN	None	18884	156	51	90442125	90449549	1	None	FLJ11090, SCAN1
14	TDP1	ENSG00000042088	ENST00000556063	protein_coding	PUTATIVE	None	18884	844	280	90451503	90499960	1	None	FLJ11090, SCAN1
14	TDP1	ENSG00000042088	ENST00000357382	protein_coding	KNOWN	None	18884	1110	369	90422299	90509659	1	None	FLJ11090, SCAN1
8	PDLIM2	ENSG00000120913	ENST00000456545	protein_coding	PUTATIVE	None	13992	706	234	22435792	22447197	1	None	None
8	PDLIM2	ENSG00000120913	ENST00000308354	protein_coding	KNOWN	CCDS6032	13992	1809	602	22436254	22451811	1	None	None
8	PDLIM2	ENSG00000120913	ENST00000452226	protein_coding	PUTATIVE	None	13992	763	253	22436643	22447254	1	None	None
8	PDLIM2	ENSG00000120913	ENST00000397761	protein_coding	PUTATIVE	None	13992	1059	352	22436663	22451778	1	None	None
8	PDLIM2	ENSG00000120913	ENST00000436754	protein_coding	PUTATIVE	None	13992	461	152	22437664	22442675	1	None	None
8	PDLIM2	ENSG00000120913	ENST00000426493	protein_coding	PUTATIVE	None	13992	521	172	22437725	22442893	1	None	None
8	PDLIM2	ENSG00000120913	ENST00000429812	protein_coding	PUTATIVE	None	13992	540	179	22437739	22442912	1	None	None
8	PDLIM2	ENSG00000120913	ENST00000409141	protein_coding	KNOWN	CCDS34861	13992	837	278	22437984	22451811	1	None	None
8	PDLIM2	ENSG00000120913	ENST00000265810	protein_coding	KNOWN	CCDS34860	13992	1101	366	22438003	22455538	1	None	None
8	PDLIM2	ENSG00000120913	ENST00000409417	protein_coding	PUTATIVE	None	13992	1059	352	22438042	22451775	1	None	None
8	PDLIM2	ENSG00000120913	ENST00000416159	nonsense_mediated_decay	KNOWN	None	13992	117	38	22438113	22447249	1	None	None
8	PDLIM2	ENSG00000120913	ENST00000448520	processed_transcript	KNOWN	None	13992	None	None	22442353	22451599	1	None	None
8	PDLIM2	ENSG00000120913	ENST00000491330	retained_intron	KNOWN	None	13992	None	None	22442367	22443213	1	None	None
8	PDLIM2	ENSG00000120913	ENST00000464275	retained_intron	KNOWN	None	13992	None	None	22445715	22451803	1	None	None
8	PDLIM2	ENSG00000120913	ENST00000443561	processed_transcript	KNOWN	None	13992	None	None	22446796	22451708	1	None	None
8	PDLIM2	ENSG00000120913	ENST00000397760	protein_coding	KNOWN	None	13992	1059	352	22436643	22451801	1	None	None
8	PDLIM2	ENSG00000120913	ENST00000339162	protein_coding	KNOWN	CCDS34861	13992	837	278	22436643	22451801	1	None	None
10	ST8SIA6	ENSG00000148488	ENST00000440449	protein_coding	PUTATIVE	None	23317	385	127	17360382	17369108	-1	SIAT8F	None
10	ST8SIA6	ENSG00000148488	ENST00000377602	protein_coding	KNOWN	CCDS31158	23317	1197	398	17361873	17496329	-1	SIAT8F	None
14	DHRS4L2	ENSG00000187630	ENST00000397071	protein_coding	PUTATIVE	None	19731	579	192	24458027	24475617	1	None	SDR25C3
14	DHRS4L2	ENSG00000187630	ENST00000559411	protein_coding	PUTATIVE	None	19731	728	241	24458031	24475157	1	None	SDR25C3
14	DHRS4L2	ENSG00000187630	ENST00000335125	protein_coding	KNOWN	CCDS9606	19731	699	232	24458031	24475617	1	None	SDR25C3
14	DHRS4L2	ENSG00000187630	ENST00000558753	protein_coding	NOVEL	None	19731	474	157	24458097	24473601	1	None	SDR25C3
14	DHRS4L2	ENSG00000187630	ENST00000537912	protein_coding	PUTATIVE	None	19731	474	157	24458097	24473963	1	None	SDR25C3
14	DHRS4L2	ENSG00000187630	ENST00000559387	protein_coding	PUTATIVE	None	19731	146	47	24459391	24470286	1	None	SDR25C3
14	DHRS4L2	ENSG00000187630	ENST00000557812	retained_intron	KNOWN	None	19731	None	None	24459500	24475124	1	None	SDR25C3
14	DHRS4L2	ENSG00000187630	ENST00000560276	protein_coding	NOVEL	None	19731	328	108	24464306	24475157	1	None	SDR25C3
14	DHRS4L2	ENSG00000187630	ENST00000545240	protein_coding	KNOWN	None	19731	468	155	24458157	24474458	1	None	SDR25C3
14	DHRS4L2	ENSG00000187630	ENST00000382755	protein_coding	KNOWN	None	19731	774	257	24458163	24475610	1	None	SDR25C3
14	DHRS4L2	ENSG00000187630	ENST00000543805	protein_coding	KNOWN	None	19731	174	57	24439148	24475610	1	None	SDR25C3
14	DHRS4L2	ENSG00000187630	ENST00000534993	protein_coding	KNOWN	None	19731	276	91	24439148	24475608	1	None	SDR25C3
15	IDH3A	ENSG00000166411	ENST00000558605	processed_transcript	KNOWN	None	5384	None	None	78423840	78449921	1	None	None
15	IDH3A	ENSG00000166411	ENST00000299518	protein_coding	KNOWN	CCDS10297	5384	1101	366	78441663	78464291	1	None	None
15	IDH3A	ENSG00000166411	ENST00000558933	nonsense_mediated_decay	KNOWN	None	5384	183	60	78441668	78458542	1	None	None
15	IDH3A	ENSG00000166411	ENST00000558554	protein_coding	NOVEL	None	5384	996	331	78441702	78461902	1	None	None
15	IDH3A	ENSG00000166411	ENST00000560667	nonsense_mediated_decay	KNOWN	None	5384	114	37	78441702	78462057	1	None	None
15	IDH3A	ENSG00000166411	ENST00000557826	protein_coding	PUTATIVE	None	5384	139	45	78441704	78452548	1	None	None
15	IDH3A	ENSG00000166411	ENST00000561279	protein_coding	NOVEL	None	5384	527	174	78441704	78454709	1	None	None
15	IDH3A	ENSG00000166411	ENST00000559186	protein_coding	PUTATIVE	None	5384	327	108	78441710	78454110	1	None	None
15	IDH3A	ENSG00000166411	ENST00000560396	nonsense_mediated_decay	KNOWN	None	5384	129	42	78441715	78454110	1	None	None
15	IDH3A	ENSG00000166411	ENST00000560770	protein_coding	PUTATIVE	None	5384	24	7	78441719	78449973	1	None	None
15	IDH3A	ENSG00000166411	ENST00000559865	nonsense_mediated_decay	KNOWN	None	5384	114	37	78441719	78454034	1	None	None
15	IDH3A	ENSG00000166411	ENST00000559881	protein_coding	PUTATIVE	None	5384	404	133	78441719	78454652	1	None	None
15	IDH3A	ENSG00000166411	ENST00000558509	nonsense_mediated_decay	KNOWN	None	5384	183	60	78441719	78455905	1	None	None
15	IDH3A	ENSG00000166411	ENST00000559889	retained_intron	KNOWN	None	5384	None	None	78441720	78462016	1	None	None
15	IDH3A	ENSG00000166411	ENST00000559803	nonsense_mediated_decay	KNOWN	None	5384	183	60	78441722	78461308	1	None	None
15	IDH3A	ENSG00000166411	ENST00000559205	protein_coding	PUTATIVE	None	5384	264	87	78441722	78461625	1	None	None
15	IDH3A	ENSG00000166411	ENST00000560414	retained_intron	KNOWN	None	5384	None	None	78441734	78448074	1	None	None
15	IDH3A	ENSG00000166411	ENST00000559106	nonsense_mediated_decay	KNOWN	None	5384	109	35	78441751	78453975	1	None	None
15	IDH3A	ENSG00000166411	ENST00000558602	retained_intron	KNOWN	None	5384	None	None	78449265	78462013	1	None	None
15	IDH3A	ENSG00000166411	ENST00000558535	processed_transcript	KNOWN	None	5384	None	None	78452312	78462884	1	None	None
15	IDH3A	ENSG00000166411	ENST00000561366	protein_coding	PUTATIVE	None	5384	138	45	78456058	78458815	1	None	None
15	IDH3A	ENSG00000166411	ENST00000558016	retained_intron	KNOWN	None	5384	None	None	78458447	78461600	1	None	None
15	IDH3A	ENSG00000166411	ENST00000557960	nonsense_mediated_decay	KNOWN	None	5384	146	47	78458583	78463597	1	None	None
15	IDH3A	ENSG00000166411	ENST00000441490	protein_coding	KNOWN	None	5384	774	257	78441733	78461385	1	None	None
X	MAGEA9B	ENSG00000123584	ENST00000243314	protein_coding	KNOWN	CCDS35423	31909	948	315	148663309	148669116	-1	None	None
5	SETD9	ENSG00000155542	ENST00000475908	processed_transcript	KNOWN	None	28508	None	None	56205087	56212771	1	C5orf35	MGC33648
5	SETD9	ENSG00000155542	ENST00000285947	protein_coding	KNOWN	CCDS3972	28508	900	299	56205087	56213062	1	C5orf35	MGC33648
5	SETD9	ENSG00000155542	ENST00000498322	processed_transcript	PUTATIVE	None	28508	None	None	56205420	56207415	1	C5orf35	MGC33648
5	SETD9	ENSG00000155542	ENST00000418299	nonsense_mediated_decay	KNOWN	None	28508	120	39	56205442	56213175	1	C5orf35	MGC33648
5	SETD9	ENSG00000155542	ENST00000480414	processed_transcript	KNOWN	None	28508	None	None	56205451	56208943	1	C5orf35	MGC33648
5	SETD9	ENSG00000155542	ENST00000463805	processed_transcript	KNOWN	None	28508	None	None	56205887	56212746	1	C5orf35	MGC33648
5	SETD9	ENSG00000155542	ENST00000472636	processed_transcript	KNOWN	None	28508	None	None	56205914	56209804	1	C5orf35	MGC33648
5	SETD9	ENSG00000155542	ENST00000423328	protein_coding	PUTATIVE	None	28508	147	48	56205932	56207122	1	C5orf35	MGC33648
5	SETD9	ENSG00000155542	ENST00000477359	processed_transcript	KNOWN	None	28508	None	None	56206604	56209809	1	C5orf35	MGC33648
5	SETD9	ENSG00000155542	ENST00000541720	protein_coding	KNOWN	CCDS54857	28508	816	271	56205087	56221359	1	C5orf35	MGC33648
10	PTPLA	ENSG00000165996	ENST00000361271	protein_coding	KNOWN	CCDS7121	9639	867	288	17631958	17659376	-1	None	CAP
10	PTPLA	ENSG00000165996	ENST00000498812	nonsense_mediated_decay	KNOWN	None	9639	114	37	17632274	17645743	-1	None	CAP
10	PTPLA	ENSG00000165996	ENST00000471481	retained_intron	KNOWN	None	9639	None	None	17636208	17645827	-1	None	CAP
10	PTPLA	ENSG00000165996	ENST00000466335	protein_coding	PUTATIVE	None	9639	523	173	17641073	17659234	-1	None	CAP
10	PTPLA	ENSG00000165996	ENST00000326961	protein_coding	PUTATIVE	None	9639	477	158	17657476	17659366	-1	None	CAP
X	HSFX2	ENSG00000171129	ENST00000524178	protein_coding	KNOWN	CCDS48179	32701	1272	423	148674172	148676974	-1	None	None
X	HSFX2	ENSG00000171129	ENST00000522155	nonsense_mediated_decay	KNOWN	None	32701	663	220	148674868	148676436	-1	None	None
X	TMEM185A	ENSG00000155984	ENST00000513505	nonsense_mediated_decay	KNOWN	None	17125	138	45	148678216	148713402	-1	CXorf13, FAM11A	None
X	TMEM185A	ENSG00000155984	ENST00000316916	protein_coding	KNOWN	CCDS14689	17125	1053	350	148678216	148713568	-1	CXorf13, FAM11A	None
X	TMEM185A	ENSG00000155984	ENST00000519015	retained_intron	KNOWN	None	17125	None	None	148678217	148683886	-1	CXorf13, FAM11A	None
X	TMEM185A	ENSG00000155984	ENST00000502858	protein_coding	PUTATIVE	None	17125	671	222	148679625	148690438	-1	CXorf13, FAM11A	None
X	TMEM185A	ENSG00000155984	ENST00000502618	nonsense_mediated_decay	KNOWN	None	17125	181	59	148681969	148693146	-1	CXorf13, FAM11A	None
X	TMEM185A	ENSG00000155984	ENST00000507237	protein_coding	PUTATIVE	None	17125	522	173	148685375	148713381	-1	CXorf13, FAM11A	None
X	TMEM185A	ENSG00000155984	ENST00000502900	nonsense_mediated_decay	KNOWN	None	17125	240	79	148686838	148713403	-1	CXorf13, FAM11A	None
X	TMEM185A	ENSG00000155984	ENST00000517359	retained_intron	KNOWN	None	17125	None	None	148690141	148693008	-1	CXorf13, FAM11A	None
X	TMEM185A	ENSG00000155984	ENST00000511776	protein_coding	PUTATIVE	None	17125	181	59	148690379	148713365	-1	CXorf13, FAM11A	None
X	TMEM185A	ENSG00000155984	ENST00000536359	protein_coding	KNOWN	CCDS55523	17125	876	291	148678216	148713487	-1	CXorf13, FAM11A	None
9	GRHPR	ENSG00000137106	ENST00000493368	processed_transcript	KNOWN	None	4570	None	None	37422663	37429155	1	GLXR	PH2
9	GRHPR	ENSG00000137106	ENST00000318158	protein_coding	KNOWN	CCDS6609	4570	987	328	37422663	37436987	1	GLXR	PH2
9	GRHPR	ENSG00000137106	ENST00000460882	processed_transcript	KNOWN	None	4570	None	None	37422693	37436845	1	GLXR	PH2
9	GRHPR	ENSG00000137106	ENST00000487399	processed_transcript	KNOWN	None	4570	None	None	37422711	37426647	1	GLXR	PH2
9	GRHPR	ENSG00000137106	ENST00000377824	retained_intron	KNOWN	None	4570	None	None	37422711	37431716	1	GLXR	PH2
9	GRHPR	ENSG00000137106	ENST00000491488	processed_transcript	KNOWN	None	4570	None	None	37422722	37436689	1	GLXR	PH2
9	GRHPR	ENSG00000137106	ENST00000607784	protein_coding	PUTATIVE	None	4570	1077	358	37422743	37434876	1	GLXR	PH2
9	GRHPR	ENSG00000137106	ENST00000497693	retained_intron	KNOWN	None	4570	None	None	37427703	37436986	1	GLXR	PH2
9	GRHPR	ENSG00000137106	ENST00000480596	retained_intron	KNOWN	None	4570	None	None	37428535	37436984	1	GLXR	PH2
9	GRHPR	ENSG00000137106	ENST00000494290	nonsense_mediated_decay	KNOWN	None	4570	759	252	37428992	37436987	1	GLXR	PH2
9	GRHPR	ENSG00000137106	ENST00000482603	processed_transcript	KNOWN	None	4570	None	None	37429783	37432808	1	GLXR	PH2
9	GRHPR	ENSG00000137106	ENST00000512404	processed_transcript	PUTATIVE	None	4570	None	None	37432084	37433878	1	GLXR	PH2
10	STAM	ENSG00000136738	ENST00000377524	protein_coding	KNOWN	CCDS7122	11357	1623	540	17686124	17757913	1	None	STAM1
10	STAM	ENSG00000136738	ENST00000445846	nonsense_mediated_decay	KNOWN	None	11357	129	42	17686207	17735280	1	None	STAM1
10	STAM	ENSG00000136738	ENST00000377500	protein_coding	PUTATIVE	None	11357	521	172	17686207	17742220	1	None	STAM1
10	STAM	ENSG00000136738	ENST00000486183	retained_intron	KNOWN	None	11357	None	None	17726784	17730156	1	None	STAM1
10	STAM	ENSG00000136738	ENST00000494250	retained_intron	KNOWN	None	11357	None	None	17736925	17742240	1	None	STAM1
10	STAM	ENSG00000136738	ENST00000540523	protein_coding	KNOWN	None	11357	1290	429	17686264	17757237	1	None	STAM1
X	MAGEA11	ENSG00000185247	ENST00000412632	protein_coding	PUTATIVE	None	6798	886	294	148769894	148798119	1	MAGE11	MAGE-11, MAGEA-11, MGC10511, CT1.11
X	MAGEA11	ENSG00000185247	ENST00000518694	retained_intron	KNOWN	None	6798	None	None	148769903	148798926	1	MAGE11	MAGE-11, MAGEA-11, MGC10511, CT1.11
X	MAGEA11	ENSG00000185247	ENST00000355220	protein_coding	KNOWN	CCDS48180	6798	1290	429	148793738	148798908	1	MAGE11	MAGE-11, MAGEA-11, MGC10511, CT1.11
X	MAGEA11	ENSG00000185247	ENST00000333104	protein_coding	KNOWN	None	6798	1203	400	148770484	148798926	1	MAGE11	MAGE-11, MAGEA-11, MGC10511, CT1.11
14	KCNK13	ENSG00000152315	ENST00000282146	protein_coding	KNOWN	CCDS9889	6275	1227	408	90528109	90652201	1	None	K2p13.1, THIK-1, THIK1
14	PSMC1	ENSG00000100764	ENST00000261303	protein_coding	KNOWN	CCDS32139	9547	1323	440	90722839	90738966	1	None	S4, p56
14	PSMC1	ENSG00000100764	ENST00000553835	protein_coding	PUTATIVE	None	9547	253	83	90722871	90734618	1	None	S4, p56
14	PSMC1	ENSG00000100764	ENST00000554624	retained_intron	KNOWN	None	9547	None	None	90722872	90730014	1	None	S4, p56
14	PSMC1	ENSG00000100764	ENST00000557357	retained_intron	KNOWN	None	9547	None	None	90722898	90730271	1	None	S4, p56
14	PSMC1	ENSG00000100764	ENST00000555679	retained_intron	KNOWN	None	9547	None	None	90722898	90730288	1	None	S4, p56
14	PSMC1	ENSG00000100764	ENST00000543772	protein_coding	PUTATIVE	None	9547	1104	367	90722922	90738894	1	None	S4, p56
14	PSMC1	ENSG00000100764	ENST00000555787	retained_intron	KNOWN	None	9547	None	None	90733820	90738968	1	None	S4, p56
X	HSFX1	ENSG00000171116	ENST00000370416	protein_coding	KNOWN	CCDS44011	29603	1272	423	148855726	148858525	1	None	LW-1
X	MAGEA9	ENSG00000166008	ENST00000439010	protein_coding	KNOWN	None	6807	342	113	148863584	148868214	1	MAGE9	MGC8421, CT1.9
X	MAGEA9	ENSG00000166008	ENST00000298974	protein_coding	KNOWN	CCDS14691	6807	948	315	148863600	148869397	1	MAGE9	MGC8421, CT1.9
X	MAGEA9	ENSG00000166008	ENST00000522429	protein_coding	KNOWN	None	6807	587	194	148863612	148868459	1	MAGE9	MGC8421, CT1.9
X	MAGEA9	ENSG00000166008	ENST00000519822	protein_coding	KNOWN	None	6807	926	307	148863612	148868798	1	MAGE9	MGC8421, CT1.9
X	MAGEA9	ENSG00000166008	ENST00000523516	protein_coding	KNOWN	None	6807	292	96	148864169	148868164	1	MAGE9	MGC8421, CT1.9
10	TMEM236	ENSG00000148483	ENST00000377495	protein_coding	KNOWN	CCDS41492	23473	1056	351	17794251	17842867	1	FAM23B, FAM23A	bA16O1.2, bA162I21.2
10	TMEM236	ENSG00000148483	ENST00000338221	protein_coding	KNOWN	CCDS41492	23473	1056	351	17794260	17842160	1	FAM23B, FAM23A	bA16O1.2, bA162I21.2
X	MAGEA8	ENSG00000156009	ENST00000286482	protein_coding	KNOWN	CCDS14692	6806	957	318	149009995	149014608	1	MAGE8	MGC2182, CT1.8
X	MAGEA8	ENSG00000156009	ENST00000345830	processed_transcript	KNOWN	None	6806	None	None	149010020	149013338	1	MAGE8	MGC2182, CT1.8
X	MAGEA8	ENSG00000156009	ENST00000493910	processed_transcript	KNOWN	None	6806	None	None	149010021	149013328	1	MAGE8	MGC2182, CT1.8
X	MAGEA8	ENSG00000156009	ENST00000535454	protein_coding	KNOWN	CCDS14692	6806	957	318	149009941	149014609	1	MAGE8	MGC2182, CT1.8
X	MAGEA8	ENSG00000156009	ENST00000542674	protein_coding	KNOWN	CCDS14692	6806	957	318	149009941	149014609	1	MAGE8	MGC2182, CT1.8
10	None	ENSG00000183748	ENST00000331429	protein_coding	NOVEL	None	None	4371	1456	17851362	17953178	1	None	None
10	None	ENSG00000183748	ENST00000457317	protein_coding	KNOWN	None	None	1497	498	17851362	17896832	1	None	None
14	NRDE2	ENSG00000119720	ENST00000354366	protein_coding	KNOWN	CCDS9890	20186	3495	1164	90742580	90798481	-1	C14orf102	FLJ14051
14	NRDE2	ENSG00000119720	ENST00000556189	nonsense_mediated_decay	KNOWN	None	20186	682	226	90744398	90778860	-1	C14orf102	FLJ14051
14	NRDE2	ENSG00000119720	ENST00000553409	nonsense_mediated_decay	KNOWN	None	20186	132	43	90744404	90798254	-1	C14orf102	FLJ14051
14	NRDE2	ENSG00000119720	ENST00000557732	retained_intron	KNOWN	None	20186	None	None	90744405	90745627	-1	C14orf102	FLJ14051
14	NRDE2	ENSG00000119720	ENST00000555903	retained_intron	KNOWN	None	20186	None	None	90744902	90755229	-1	C14orf102	FLJ14051
14	NRDE2	ENSG00000119720	ENST00000554464	protein_coding	NOVEL	None	20186	612	203	90756919	90769181	-1	C14orf102	FLJ14051
14	NRDE2	ENSG00000119720	ENST00000557064	processed_transcript	PUTATIVE	None	20186	None	None	90770298	90770998	-1	C14orf102	FLJ14051
14	NRDE2	ENSG00000119720	ENST00000557106	processed_transcript	KNOWN	None	20186	None	None	90782931	90798313	-1	C14orf102	FLJ14051
14	NRDE2	ENSG00000119720	ENST00000357904	protein_coding	KNOWN	None	20186	2802	933	90744398	90798279	-1	C14orf102	FLJ14051
8	PURG	ENSG00000172733	ENST00000339382	protein_coding	KNOWN	CCDS34878	17930	969	322	30853321	30891231	-1	None	PURG-A, PURG-B
8	PURG	ENSG00000172733	ENST00000475541	protein_coding	KNOWN	CCDS6081	17930	1044	347	30888357	30891231	-1	None	PURG-A, PURG-B
8	PURG	ENSG00000172733	ENST00000523392	protein_coding	KNOWN	None	17930	491	162	30889808	30890710	-1	None	PURG-A, PURG-B
15	ACSBG1	ENSG00000103740	ENST00000258873	protein_coding	KNOWN	CCDS10298	29567	2175	724	78459810	78527049	-1	None	BGM, FLJ30320, MGC14352, BG1, KIAA0631, hBG1, hsBG
15	ACSBG1	ENSG00000103740	ENST00000560124	nonsense_mediated_decay	KNOWN	None	29567	156	51	78463196	78526867	-1	None	BGM, FLJ30320, MGC14352, BG1, KIAA0631, hBG1, hsBG
15	ACSBG1	ENSG00000103740	ENST00000560817	protein_coding	PUTATIVE	None	29567	1449	482	78463256	78538030	-1	None	BGM, FLJ30320, MGC14352, BG1, KIAA0631, hBG1, hsBG
15	ACSBG1	ENSG00000103740	ENST00000560183	retained_intron	KNOWN	None	29567	None	None	78465935	78467154	-1	None	BGM, FLJ30320, MGC14352, BG1, KIAA0631, hBG1, hsBG
15	ACSBG1	ENSG00000103740	ENST00000558301	retained_intron	KNOWN	None	29567	None	None	78471150	78473425	-1	None	BGM, FLJ30320, MGC14352, BG1, KIAA0631, hBG1, hsBG
15	ACSBG1	ENSG00000103740	ENST00000559707	nonsense_mediated_decay	KNOWN	None	29567	243	80	78471305	78526916	-1	None	BGM, FLJ30320, MGC14352, BG1, KIAA0631, hBG1, hsBG
15	ACSBG1	ENSG00000103740	ENST00000558728	retained_intron	KNOWN	None	29567	None	None	78472080	78475228	-1	None	BGM, FLJ30320, MGC14352, BG1, KIAA0631, hBG1, hsBG
15	ACSBG1	ENSG00000103740	ENST00000557935	nonsense_mediated_decay	KNOWN	None	29567	168	55	78475047	78526944	-1	None	BGM, FLJ30320, MGC14352, BG1, KIAA0631, hBG1, hsBG
15	ACSBG1	ENSG00000103740	ENST00000559114	protein_coding	PUTATIVE	None	29567	416	137	78475054	78500127	-1	None	BGM, FLJ30320, MGC14352, BG1, KIAA0631, hBG1, hsBG
15	ACSBG1	ENSG00000103740	ENST00000559241	protein_coding	PUTATIVE	None	29567	731	242	78475084	78505841	-1	None	BGM, FLJ30320, MGC14352, BG1, KIAA0631, hBG1, hsBG
15	ACSBG1	ENSG00000103740	ENST00000558130	protein_coding	NOVEL	None	29567	545	180	78485954	78526867	-1	None	BGM, FLJ30320, MGC14352, BG1, KIAA0631, hBG1, hsBG
15	ACSBG1	ENSG00000103740	ENST00000558828	processed_transcript	PUTATIVE	None	29567	None	None	78486990	78538030	-1	None	BGM, FLJ30320, MGC14352, BG1, KIAA0631, hBG1, hsBG
15	ACSBG1	ENSG00000103740	ENST00000558793	processed_transcript	PUTATIVE	None	29567	None	None	78500397	78538030	-1	None	BGM, FLJ30320, MGC14352, BG1, KIAA0631, hBG1, hsBG
15	ACSBG1	ENSG00000103740	ENST00000559713	processed_transcript	PUTATIVE	None	29567	None	None	78505865	78526967	-1	None	BGM, FLJ30320, MGC14352, BG1, KIAA0631, hBG1, hsBG
15	ACSBG1	ENSG00000103740	ENST00000541759	protein_coding	KNOWN	None	29567	1449	482	78463196	78526867	-1	None	BGM, FLJ30320, MGC14352, BG1, KIAA0631, hBG1, hsBG
X	CXorf40B	ENSG00000197021	ENST00000462691	protein_coding	PUTATIVE	None	17402	441	146	149097745	149106653	-1	None	None
X	CXorf40B	ENSG00000197021	ENST00000370406	protein_coding	KNOWN	CCDS35426	17402	477	158	149100415	149107029	-1	None	None
X	CXorf40B	ENSG00000197021	ENST00000355203	protein_coding	KNOWN	CCDS35426	17402	477	158	149100416	149105732	-1	None	None
X	CXorf40B	ENSG00000197021	ENST00000370404	protein_coding	KNOWN	CCDS35426	17402	477	158	149100419	149106677	-1	None	None
X	CXorf40B	ENSG00000197021	ENST00000370409	protein_coding	KNOWN	None	17402	442	146	149100797	149106690	-1	None	None
X	CXorf40B	ENSG00000197021	ENST00000483447	protein_coding	KNOWN	None	17402	137	44	149101956	149106679	-1	None	None
X	CXorf40B	ENSG00000197021	ENST00000497550	processed_transcript	KNOWN	None	17402	None	None	149105667	149106918	-1	None	None
9	ZBTB5	ENSG00000168795	ENST00000307750	protein_coding	KNOWN	CCDS6610	23836	2034	677	37438111	37465396	-1	None	KIAA0354
9	POLR1E	ENSG00000137054	ENST00000377798	protein_coding	KNOWN	CCDS6611	17631	1260	419	37485932	37503694	1	PRAF1	FLJ13390, PAF53, FLJ13970
9	POLR1E	ENSG00000137054	ENST00000377792	protein_coding	KNOWN	None	17631	1446	481	37486150	37503694	1	PRAF1	FLJ13390, PAF53, FLJ13970
9	POLR1E	ENSG00000137054	ENST00000442009	protein_coding	KNOWN	None	17631	1050	349	37485945	37503550	1	PRAF1	FLJ13390, PAF53, FLJ13970
8	None	ENSG00000248050	ENST00000499579	protein_coding	PUTATIVE	None	None	327	108	110656344	110660313	1	None	None
8	KCNV1	ENSG00000164794	ENST00000524391	protein_coding	KNOWN	CCDS6314	18861	1503	500	110975874	110988076	-1	None	Kv8.1
8	KCNV1	ENSG00000164794	ENST00000297404	protein_coding	KNOWN	CCDS6314	18861	1503	500	110979235	110986959	-1	None	Kv8.1
20	None	ENSG00000242518	ENST00000420264	processed_transcript	PUTATIVE	None	None	None	None	31938669	31941866	1	None	None
20	RN7SL511P	ENSG00000264923	ENST00000578559	misc_RNA	KNOWN	None	46527	None	None	32046605	32046854	-1	None	None
8	WRN	ENSG00000165392	ENST00000298139	protein_coding	KNOWN	CCDS6082	12791	4299	1432	30891317	31031285	1	None	RECQL2, RECQ3
8	WRN	ENSG00000165392	ENST00000521620	retained_intron	KNOWN	None	12791	None	None	30945160	31031279	1	None	RECQL2, RECQ3
8	WRN	ENSG00000165392	ENST00000520169	retained_intron	KNOWN	None	12791	None	None	30977472	30982481	1	None	RECQL2, RECQ3
20	None	ENSG00000272521	ENST00000607224	antisense	KNOWN	None	None	None	None	32244893	32245415	1	None	None
19	AES	ENSG00000104964	ENST00000592414	retained_intron	KNOWN	None	307	None	None	3052908	3056766	-1	None	GRG5, TLE5
19	AES	ENSG00000104964	ENST00000221561	protein_coding	KNOWN	CCDS12101	307	795	264	3052908	3063105	-1	None	GRG5, TLE5
19	AES	ENSG00000104964	ENST00000586742	protein_coding	NOVEL	None	307	793	263	3052981	3062881	-1	None	GRG5, TLE5
19	AES	ENSG00000104964	ENST00000327141	protein_coding	KNOWN	CCDS12102	307	594	197	3053160	3062555	-1	None	GRG5, TLE5
19	AES	ENSG00000104964	ENST00000587393	retained_intron	KNOWN	None	307	None	None	3053210	3057746	-1	None	GRG5, TLE5
19	AES	ENSG00000104964	ENST00000592330	processed_transcript	KNOWN	None	307	None	None	3053406	3062188	-1	None	GRG5, TLE5
19	AES	ENSG00000104964	ENST00000590067	retained_intron	KNOWN	None	307	None	None	3053547	3056194	-1	None	GRG5, TLE5
19	AES	ENSG00000104964	ENST00000586839	protein_coding	PUTATIVE	None	307	426	141	3053589	3061402	-1	None	GRG5, TLE5
19	AES	ENSG00000104964	ENST00000585557	nonsense_mediated_decay	KNOWN	None	307	147	48	3054021	3062408	-1	None	GRG5, TLE5
19	AES	ENSG00000104964	ENST00000587083	retained_intron	KNOWN	None	307	None	None	3054166	3056677	-1	None	GRG5, TLE5
19	AES	ENSG00000104964	ENST00000585782	retained_intron	KNOWN	None	307	None	None	3057438	3062275	-1	None	GRG5, TLE5
19	AES	ENSG00000104964	ENST00000586003	retained_intron	KNOWN	None	307	None	None	3060950	3062232	-1	None	GRG5, TLE5
20	None	ENSG00000271803	ENST00000606866	antisense	KNOWN	None	None	None	None	32262323	32263186	1	None	None
20	None	ENSG00000229188	ENST00000441029	antisense	KNOWN	None	None	None	None	32316737	32319634	-1	None	None
20	RPL31P2	ENSG00000230837	ENST00000413849	processed_pseudogene	KNOWN	None	16575	None	None	32339973	32340349	-1	None	dJ553F4.5
20	None	ENSG00000230753	ENST00000423074	antisense	KNOWN	None	None	None	None	32375179	32380833	-1	None	None
20	None	ENSG00000230753	ENST00000443171	antisense	KNOWN	None	None	None	None	32375181	32398903	-1	None	None
20	None	ENSG00000230753	ENST00000439444	antisense	KNOWN	None	None	None	None	32375253	32398880	-1	None	None
20	TPM3P2	ENSG00000214200	ENST00000397772	processed_pseudogene	KNOWN	None	16556	None	None	32500129	32501142	-1	TPM5P	dJ1125A11.2
8	CSMD3	ENSG00000164796	ENST00000343508	protein_coding	KNOWN	CCDS6317	19291	11004	3667	113235157	114389382	-1	None	None
8	CSMD3	ENSG00000164796	ENST00000297405	protein_coding	KNOWN	CCDS6315	19291	11124	3707	113235157	114449328	-1	None	None
8	CSMD3	ENSG00000164796	ENST00000339701	protein_coding	NOVEL	None	19291	8934	2977	113235161	113702271	-1	None	None
8	CSMD3	ENSG00000164796	ENST00000455883	protein_coding	KNOWN	CCDS6316	19291	10617	3538	113235161	114449112	-1	None	None
8	CSMD3	ENSG00000164796	ENST00000534172	retained_intron	KNOWN	None	19291	None	None	113236277	113268157	-1	None	None
8	CSMD3	ENSG00000164796	ENST00000492692	retained_intron	KNOWN	None	19291	None	None	113322454	113349804	-1	None	None
8	CSMD3	ENSG00000164796	ENST00000497026	retained_intron	KNOWN	None	19291	None	None	114031005	114449168	-1	None	None
8	CSMD3	ENSG00000164796	ENST00000519485	processed_transcript	KNOWN	None	19291	None	None	114110754	114186049	-1	None	None
8	CSMD3	ENSG00000164796	ENST00000462254	retained_intron	KNOWN	None	19291	None	None	114110915	114186129	-1	None	None
8	CSMD3	ENSG00000164796	ENST00000493303	retained_intron	KNOWN	None	19291	None	None	114321434	114449019	-1	None	None
8	CSMD3	ENSG00000164796	ENST00000352409	protein_coding	KNOWN	None	19291	10914	3637	113235161	114449242	-1	None	None
9	DOCK8	ENSG00000107099	ENST00000469197	nonsense_mediated_decay	KNOWN	None	19191	201	66	214854	286636	1	None	FLJ00026, FLJ00152, ZIR8, FLJ00346
9	DOCK8	ENSG00000107099	ENST00000524396	nonsense_mediated_decay	KNOWN	None	19191	153	50	214865	340620	1	None	FLJ00026, FLJ00152, ZIR8, FLJ00346
9	DOCK8	ENSG00000107099	ENST00000453981	protein_coding	KNOWN	CCDS6440	19191	6300	2099	214865	465255	1	None	FLJ00026, FLJ00152, ZIR8, FLJ00346
9	DOCK8	ENSG00000107099	ENST00000454469	retained_intron	KNOWN	None	19191	None	None	214868	340620	1	None	FLJ00026, FLJ00152, ZIR8, FLJ00346
9	DOCK8	ENSG00000107099	ENST00000479404	protein_coding	PUTATIVE	None	19191	198	65	215171	289579	1	None	FLJ00026, FLJ00152, ZIR8, FLJ00346
9	DOCK8	ENSG00000107099	ENST00000487230	protein_coding	PUTATIVE	None	19191	323	106	273050	304703	1	None	FLJ00026, FLJ00152, ZIR8, FLJ00346
9	DOCK8	ENSG00000107099	ENST00000382341	retained_intron	KNOWN	None	19191	None	None	273050	340620	1	None	FLJ00026, FLJ00152, ZIR8, FLJ00346
9	DOCK8	ENSG00000107099	ENST00000483757	nonsense_mediated_decay	KNOWN	None	19191	1509	502	273059	381387	1	None	FLJ00026, FLJ00152, ZIR8, FLJ00346
9	DOCK8	ENSG00000107099	ENST00000478380	retained_intron	KNOWN	None	19191	None	None	273066	312941	1	None	FLJ00026, FLJ00152, ZIR8, FLJ00346
9	DOCK8	ENSG00000107099	ENST00000469391	protein_coding	PUTATIVE	CCDS55284	19191	6000	1999	273070	464526	1	None	FLJ00026, FLJ00152, ZIR8, FLJ00346
9	DOCK8	ENSG00000107099	ENST00000495184	retained_intron	KNOWN	None	19191	None	None	273084	465241	1	None	FLJ00026, FLJ00152, ZIR8, FLJ00346
9	DOCK8	ENSG00000107099	ENST00000474772	processed_transcript	KNOWN	None	19191	None	None	311958	314466	1	None	FLJ00026, FLJ00152, ZIR8, FLJ00346
9	DOCK8	ENSG00000107099	ENST00000382331	protein_coding	PUTATIVE	None	19191	1320	439	366229	405099	1	None	FLJ00026, FLJ00152, ZIR8, FLJ00346
9	DOCK8	ENSG00000107099	ENST00000382329	protein_coding	PUTATIVE	None	19191	4701	1566	366251	465255	1	None	FLJ00026, FLJ00152, ZIR8, FLJ00346
9	DOCK8	ENSG00000107099	ENST00000493666	processed_transcript	KNOWN	None	19191	None	None	420116	426953	1	None	FLJ00026, FLJ00152, ZIR8, FLJ00346
9	DOCK8	ENSG00000107099	ENST00000462618	processed_transcript	KNOWN	None	19191	None	None	463555	465247	1	None	FLJ00026, FLJ00152, ZIR8, FLJ00346
9	DOCK8	ENSG00000107099	ENST00000432829	protein_coding	KNOWN	CCDS55283	19191	6096	2031	214865	465259	1	None	FLJ00026, FLJ00152, ZIR8, FLJ00346
20	PIGPP3	ENSG00000228958	ENST00000425307	processed_pseudogene	KNOWN	None	45155	None	None	32552968	32553382	1	None	None
20	None	ENSG00000228265	ENST00000432859	lincRNA	KNOWN	None	None	None	None	32570858	32580930	-1	None	None
20	None	ENSG00000228265	ENST00000440595	lincRNA	KNOWN	None	None	None	None	32580294	32582161	-1	None	None
20	None	ENSG00000228265	ENST00000419662	lincRNA	KNOWN	None	None	None	None	32580317	32582163	-1	None	None
X	MAMLD1	ENSG00000013619	ENST00000468306	processed_transcript	KNOWN	None	2568	None	None	149529689	149638367	1	CXorf6	CG1, F18
X	MAMLD1	ENSG00000013619	ENST00000370401	protein_coding	KNOWN	CCDS14693	2568	2325	774	149531551	149682448	1	CXorf6	CG1, F18
X	MAMLD1	ENSG00000013619	ENST00000432680	protein_coding	KNOWN	CCDS55526	2568	2997	998	149531686	149681395	1	CXorf6	CG1, F18
X	MAMLD1	ENSG00000013619	ENST00000358892	protein_coding	KNOWN	None	2568	409	135	149589273	149638254	1	CXorf6	CG1, F18
X	MAMLD1	ENSG00000013619	ENST00000464149	retained_intron	KNOWN	None	2568	None	None	149677595	149682439	1	CXorf6	CG1, F18
X	MAMLD1	ENSG00000013619	ENST00000262858	protein_coding	KNOWN	CCDS14693	2568	2325	774	149613720	149682448	1	CXorf6	CG1, F18
X	MAMLD1	ENSG00000013619	ENST00000426613	protein_coding	KNOWN	CCDS55525	2568	2250	749	149613720	149682448	1	CXorf6	CG1, F18
X	MAMLD1	ENSG00000013619	ENST00000455522	protein_coding	KNOWN	None	2568	645	214	149639280	149680512	1	CXorf6	CG1, F18
14	CALM1	ENSG00000198668	ENST00000557020	protein_coding	PUTATIVE	None	1442	295	97	90862846	90870840	1	CALML2	CAMI, PHKD, DD132
14	CALM1	ENSG00000198668	ENST00000356978	protein_coding	KNOWN	CCDS9892	1442	450	149	90863327	90874605	1	CALML2	CAMI, PHKD, DD132
14	CALM1	ENSG00000198668	ENST00000447653	protein_coding	PUTATIVE	None	1442	453	150	90863373	90871416	1	CALML2	CAMI, PHKD, DD132
14	CALM1	ENSG00000198668	ENST00000555132	processed_transcript	PUTATIVE	None	1442	None	None	90863376	90865147	1	CALML2	CAMI, PHKD, DD132
14	CALM1	ENSG00000198668	ENST00000557123	retained_intron	KNOWN	None	1442	None	None	90863376	90866775	1	CALML2	CAMI, PHKD, DD132
14	CALM1	ENSG00000198668	ENST00000556757	retained_intron	KNOWN	None	1442	None	None	90863376	90867957	1	CALML2	CAMI, PHKD, DD132
14	CALM1	ENSG00000198668	ENST00000553995	retained_intron	KNOWN	None	1442	None	None	90863376	90870411	1	CALML2	CAMI, PHKD, DD132
14	CALM1	ENSG00000198668	ENST00000553630	nonsense_mediated_decay	KNOWN	None	1442	252	83	90863384	90871947	1	CALML2	CAMI, PHKD, DD132
14	CALM1	ENSG00000198668	ENST00000553542	protein_coding	PUTATIVE	None	1442	342	113	90863400	90871392	1	CALML2	CAMI, PHKD, DD132
14	CALM1	ENSG00000198668	ENST00000553964	retained_intron	KNOWN	None	1442	None	None	90864276	90871151	1	CALML2	CAMI, PHKD, DD132
14	CALM1	ENSG00000198668	ENST00000544280	protein_coding	PUTATIVE	None	1442	342	113	90864606	90871451	1	CALML2	CAMI, PHKD, DD132
14	CALM1	ENSG00000198668	ENST00000555267	retained_intron	KNOWN	None	1442	None	None	90866322	90870497	1	CALML2	CAMI, PHKD, DD132
14	CALM1	ENSG00000198668	ENST00000553422	nonsense_mediated_decay	KNOWN	None	1442	231	76	90867677	90871177	1	CALML2	CAMI, PHKD, DD132
14	CALM1	ENSG00000198668	ENST00000554296	retained_intron	KNOWN	None	1442	None	None	90869976	90871090	1	CALML2	CAMI, PHKD, DD132
14	CALM1	ENSG00000198668	ENST00000556721	retained_intron	KNOWN	None	1442	None	None	90870512	90871129	1	CALML2	CAMI, PHKD, DD132
15	DNAJA4	ENSG00000140403	ENST00000394855	protein_coding	KNOWN	CCDS10299	14885	1281	426	78556428	78574538	1	None	PRO1472
15	DNAJA4	ENSG00000140403	ENST00000489435	protein_coding	PUTATIVE	None	14885	420	139	78556487	78558381	1	None	PRO1472
15	DNAJA4	ENSG00000140403	ENST00000440911	nonsense_mediated_decay	KNOWN	None	14885	636	211	78556886	78572883	1	None	PRO1472
15	DNAJA4	ENSG00000140403	ENST00000423642	nonsense_mediated_decay	KNOWN	None	14885	345	114	78556904	78566608	1	None	PRO1472
15	DNAJA4	ENSG00000140403	ENST00000483802	nonsense_mediated_decay	KNOWN	None	14885	660	219	78556904	78573010	1	None	PRO1472
15	DNAJA4	ENSG00000140403	ENST00000343789	protein_coding	KNOWN	CCDS45316	14885	1194	397	78556904	78574538	1	None	PRO1472
15	DNAJA4	ENSG00000140403	ENST00000394852	protein_coding	KNOWN	CCDS45316	14885	1194	397	78556916	78574534	1	None	PRO1472
15	DNAJA4	ENSG00000140403	ENST00000542636	nonsense_mediated_decay	KNOWN	None	14885	162	53	78556951	78572401	1	None	PRO1472
15	DNAJA4	ENSG00000140403	ENST00000446172	protein_coding	KNOWN	CCDS45317	14885	1113	370	78558523	78573026	1	None	PRO1472
15	DNAJA4	ENSG00000140403	ENST00000485075	retained_intron	KNOWN	None	14885	None	None	78562359	78567778	1	None	PRO1472
15	DNAJA4	ENSG00000140403	ENST00000493321	retained_intron	KNOWN	None	14885	None	None	78567339	78572887	1	None	PRO1472
15	DNAJA4	ENSG00000140403	ENST00000480425	retained_intron	KNOWN	None	14885	None	None	78571479	78574538	1	None	PRO1472
10	None	ENSG00000184040	ENST00000480516	protein_coding	KNOWN	None	None	1056	351	18041218	18089855	1	None	None
10	None	ENSG00000184040	ENST00000457860	protein_coding	KNOWN	None	None	1056	351	18041227	18089148	1	None	None
10	MRC1	ENSG00000120586	ENST00000239761	protein_coding	KNOWN	CCDS7123	7228	4371	1456	18098352	18200091	1	MRC1L1	CLEC13D, CD206, bA541I19.1, CLEC13DL
14	LRRC16B	ENSG00000186648	ENST00000342740	protein_coding	KNOWN	CCDS32054	20272	4119	1372	24521209	24538937	1	C14orf121	BC008134, crml-1, CARMIL3
14	LRRC16B	ENSG00000186648	ENST00000559694	retained_intron	KNOWN	None	20272	None	None	24526424	24538935	1	C14orf121	BC008134, crml-1, CARMIL3
14	LRRC16B	ENSG00000186648	ENST00000561354	retained_intron	KNOWN	None	20272	None	None	24529950	24531139	1	C14orf121	BC008134, crml-1, CARMIL3
14	LRRC16B	ENSG00000186648	ENST00000560349	retained_intron	KNOWN	None	20272	None	None	24531128	24538933	1	C14orf121	BC008134, crml-1, CARMIL3
14	LRRC16B	ENSG00000186648	ENST00000334420	protein_coding	KNOWN	None	20272	1278	425	24521206	24538916	1	C14orf121	BC008134, crml-1, CARMIL3
X	MTM1	ENSG00000171100	ENST00000370396	protein_coding	KNOWN	CCDS14694	7448	1812	603	149737069	149841795	1	None	None
X	MTM1	ENSG00000171100	ENST00000424519	protein_coding	PUTATIVE	None	7448	310	102	149737072	149807494	1	None	None
X	MTM1	ENSG00000171100	ENST00000370393	processed_transcript	KNOWN	None	7448	None	None	149737075	149765457	1	None	None
X	MTM1	ENSG00000171100	ENST00000306167	processed_transcript	KNOWN	None	7448	None	None	149737084	149841347	1	None	None
X	MTM1	ENSG00000171100	ENST00000490530	processed_transcript	KNOWN	None	7448	None	None	149737089	149814344	1	None	None
X	MTM1	ENSG00000171100	ENST00000413012	protein_coding	KNOWN	None	7448	1701	566	149737093	149840111	1	None	None
X	MTM1	ENSG00000171100	ENST00000542741	protein_coding	KNOWN	None	7448	1251	416	149737071	149840210	1	None	None
X	MTM1	ENSG00000171100	ENST00000543350	protein_coding	KNOWN	None	7448	1467	488	149737071	149840364	1	None	None
9	FBXO10	ENSG00000147912	ENST00000432825	protein_coding	KNOWN	CCDS47966	13589	2871	956	37510889	37576250	-1	None	FBX10, PRMT11
9	FBXO10	ENSG00000147912	ENST00000276960	nonsense_mediated_decay	KNOWN	None	13589	1722	573	37514991	37576320	-1	None	FBX10, PRMT11
9	FBXO10	ENSG00000147912	ENST00000543968	processed_transcript	KNOWN	None	13589	None	None	37521715	37536059	-1	None	FBX10, PRMT11
9	FBXO10	ENSG00000147912	ENST00000544208	processed_transcript	KNOWN	None	13589	None	None	37522344	37525154	-1	None	FBX10, PRMT11
9	FBXO10	ENSG00000147912	ENST00000541607	protein_coding	KNOWN	None	13589	213	70	37541553	37576346	-1	None	FBX10, PRMT11
9	FBXO10	ENSG00000147912	ENST00000541829	protein_coding	KNOWN	None	13589	1446	481	37512544	37588871	-1	None	FBX10, PRMT11
14	TTC7B	ENSG00000165914	ENST00000555005	nonsense_mediated_decay	KNOWN	None	19858	1254	417	91006932	91156056	-1	TTC7L1	None
14	TTC7B	ENSG00000165914	ENST00000328459	protein_coding	KNOWN	CCDS32140	19858	2532	843	91006933	91282761	-1	TTC7L1	None
14	TTC7B	ENSG00000165914	ENST00000553972	protein_coding	KNOWN	None	19858	993	330	91006986	91110552	-1	TTC7L1	None
14	TTC7B	ENSG00000165914	ENST00000554654	processed_transcript	KNOWN	None	19858	None	None	91006986	91111288	-1	TTC7L1	None
14	TTC7B	ENSG00000165914	ENST00000555894	protein_coding	NOVEL	None	19858	642	213	91007530	91084367	-1	TTC7L1	None
14	TTC7B	ENSG00000165914	ENST00000557292	protein_coding	NOVEL	None	19858	814	270	91007662	91077120	-1	TTC7L1	None
14	TTC7B	ENSG00000165914	ENST00000556960	processed_transcript	PUTATIVE	None	19858	None	None	91044450	91052143	-1	TTC7L1	None
14	TTC7B	ENSG00000165914	ENST00000557059	retained_intron	KNOWN	None	19858	None	None	91044529	91060275	-1	TTC7L1	None
14	TTC7B	ENSG00000165914	ENST00000555239	nonsense_mediated_decay	KNOWN	None	19858	317	104	91077138	91146871	-1	TTC7L1	None
14	TTC7B	ENSG00000165914	ENST00000556490	processed_transcript	KNOWN	None	19858	None	None	91110392	91124362	-1	TTC7L1	None
14	TTC7B	ENSG00000165914	ENST00000556749	retained_intron	KNOWN	None	19858	None	None	91113292	91123791	-1	TTC7L1	None
14	TTC7B	ENSG00000165914	ENST00000554462	protein_coding	NOVEL	None	19858	525	174	91119185	91144189	-1	TTC7L1	None
14	TTC7B	ENSG00000165914	ENST00000557766	protein_coding	NOVEL	None	19858	614	203	91155980	91252581	-1	TTC7L1	None
14	TTC7B	ENSG00000165914	ENST00000553948	protein_coding	NOVEL	None	19858	144	47	91211262	91282823	-1	TTC7L1	None
14	TTC7B	ENSG00000165914	ENST00000557187	processed_transcript	PUTATIVE	None	19858	None	None	91238994	91247140	-1	TTC7L1	None
14	TTC7B	ENSG00000165914	ENST00000357056	protein_coding	KNOWN	None	19858	2583	860	91006933	91282761	-1	TTC7L1	None
9	None	ENSG00000256966	ENST00000544475	processed_transcript	KNOWN	None	None	None	None	37512544	37588871	-1	None	None
9	None	ENSG00000256966	ENST00000541804	processed_transcript	KNOWN	None	None	None	None	37512544	37588871	-1	None	None
9	None	ENSG00000256966	ENST00000537239	nonsense_mediated_decay	KNOWN	None	None	195	64	37541337	37592466	-1	None	None
9	TOMM5	ENSG00000175768	ENST00000540941	nonsense_mediated_decay	KNOWN	None	31369	216	71	37582643	37592466	-1	C9orf105	bA613M10.3
9	TOMM5	ENSG00000175768	ENST00000377773	protein_coding	KNOWN	CCDS47967	31369	258	85	37588410	37592594	-1	C9orf105	bA613M10.3
9	TOMM5	ENSG00000175768	ENST00000321301	protein_coding	KNOWN	CCDS43803	31369	156	51	37588410	37592639	-1	C9orf105	bA613M10.3
9	TOMM5	ENSG00000175768	ENST00000401811	protein_coding	PUTATIVE	None	31369	297	98	37588455	37592601	-1	C9orf105	bA613M10.3
9	TOMM5	ENSG00000175768	ENST00000544379	protein_coding	KNOWN	CCDS47968	31369	279	92	37588639	37592593	-1	C9orf105	bA613M10.3
15	WDR61	ENSG00000140395	ENST00000558453	protein_coding	PUTATIVE	None	30300	219	72	78570177	78581979	-1	None	REC14
15	WDR61	ENSG00000140395	ENST00000560807	protein_coding	PUTATIVE	None	30300	490	162	78570177	78582371	-1	None	REC14
15	WDR61	ENSG00000140395	ENST00000558412	retained_intron	KNOWN	None	30300	None	None	78575577	78578242	-1	None	REC14
15	WDR61	ENSG00000140395	ENST00000559332	processed_transcript	PUTATIVE	None	30300	None	None	78575577	78578475	-1	None	REC14
15	WDR61	ENSG00000140395	ENST00000559940	retained_intron	KNOWN	None	30300	None	None	78575577	78579205	-1	None	REC14
15	WDR61	ENSG00000140395	ENST00000558311	protein_coding	KNOWN	CCDS10300	30300	918	305	78575577	78591947	-1	None	REC14
15	WDR61	ENSG00000140395	ENST00000267973	protein_coding	KNOWN	CCDS10300	30300	918	305	78575577	78592136	-1	None	REC14
15	WDR61	ENSG00000140395	ENST00000558459	protein_coding	NOVEL	None	30300	639	212	78575598	78591933	-1	None	REC14
15	WDR61	ENSG00000140395	ENST00000560569	protein_coding	KNOWN	None	30300	882	293	78575810	78591912	-1	None	REC14
15	WDR61	ENSG00000140395	ENST00000560610	nonsense_mediated_decay	KNOWN	None	30300	147	48	78580631	78591943	-1	None	REC14
15	WDR61	ENSG00000140395	ENST00000559848	nonsense_mediated_decay	KNOWN	None	30300	570	189	78580681	78591939	-1	None	REC14
15	WDR61	ENSG00000140395	ENST00000560063	retained_intron	KNOWN	None	30300	None	None	78584104	78591949	-1	None	REC14
15	WDR61	ENSG00000140395	ENST00000559700	retained_intron	KNOWN	None	30300	None	None	78584416	78591951	-1	None	REC14
15	WDR61	ENSG00000140395	ENST00000558840	processed_transcript	KNOWN	None	30300	None	None	78584974	78591978	-1	None	REC14
15	WDR61	ENSG00000140395	ENST00000560946	retained_intron	KNOWN	None	30300	None	None	78586817	78591956	-1	None	REC14
15	WDR61	ENSG00000140395	ENST00000561347	retained_intron	KNOWN	None	30300	None	None	78587079	78592045	-1	None	REC14
9	ORM2	ENSG00000228278	ENST00000431067	protein_coding	KNOWN	CCDS6804	8499	606	201	117092149	117095532	1	None	AGP-B, AGP-B', AGP2
9	ORM2	ENSG00000228278	ENST00000412657	protein_coding	KNOWN	None	8499	585	194	117092152	117094201	1	None	AGP-B, AGP-B', AGP2
X	MTMR1	ENSG00000063601	ENST00000493995	protein_coding	KNOWN	None	7449	441	146	149861444	149899947	1	None	None
X	MTMR1	ENSG00000063601	ENST00000439546	protein_coding	KNOWN	None	7449	270	89	149861451	149898601	1	None	None
X	MTMR1	ENSG00000063601	ENST00000429965	protein_coding	KNOWN	None	7449	263	86	149861456	149898594	1	None	None
X	MTMR1	ENSG00000063601	ENST00000434699	protein_coding	KNOWN	None	7449	261	86	149861482	149898592	1	None	None
X	MTMR1	ENSG00000063601	ENST00000485376	nonsense_mediated_decay	KNOWN	None	7449	1707	568	149861839	149933575	1	None	None
X	MTMR1	ENSG00000063601	ENST00000370390	protein_coding	KNOWN	CCDS14695	7449	1998	665	149861847	149933576	1	None	None
X	MTMR1	ENSG00000063601	ENST00000490316	protein_coding	NOVEL	None	7449	556	184	149861852	149896242	1	None	None
X	MTMR1	ENSG00000063601	ENST00000445323	protein_coding	KNOWN	None	7449	2022	673	149861883	149933575	1	None	None
X	MTMR1	ENSG00000063601	ENST00000438018	protein_coding	NOVEL	None	7449	397	131	149867681	149896237	1	None	None
X	MTMR1	ENSG00000063601	ENST00000436701	protein_coding	NOVEL	None	7449	448	148	149867681	149896237	1	None	None
X	MTMR1	ENSG00000063601	ENST00000488357	nonsense_mediated_decay	KNOWN	None	7449	1217	404	149887149	149933397	1	None	None
X	MTMR1	ENSG00000063601	ENST00000493480	retained_intron	KNOWN	None	7449	None	None	149895585	149899037	1	None	None
X	MTMR1	ENSG00000063601	ENST00000370387	retained_intron	KNOWN	None	7449	None	None	149903871	149919761	1	None	None
X	MTMR1	ENSG00000063601	ENST00000544228	protein_coding	KNOWN	CCDS14695	7449	1998	665	149861883	149933397	1	None	None
X	MTMR1	ENSG00000063601	ENST00000451863	protein_coding	KNOWN	None	7449	1707	568	149861883	149919552	1	None	None
X	MTMR1	ENSG00000063601	ENST00000542156	protein_coding	KNOWN	None	7449	1092	363	149861845	149904171	1	None	None
X	MTMR1	ENSG00000063601	ENST00000541925	protein_coding	KNOWN	None	7449	1716	571	149861435	149931380	1	None	None
X	MTMR1	ENSG00000063601	ENST00000538506	protein_coding	KNOWN	None	7449	1182	393	149887149	149933397	1	None	None
10	SLC39A12	ENSG00000148482	ENST00000377374	protein_coding	KNOWN	CCDS7124	20860	1965	654	18240821	18332216	1	None	FLJ30499
10	SLC39A12	ENSG00000148482	ENST00000377371	protein_coding	KNOWN	None	20860	2073	690	18240843	18332216	1	None	FLJ30499
10	SLC39A12	ENSG00000148482	ENST00000377369	protein_coding	KNOWN	CCDS44362	20860	2076	691	18240768	18332221	1	None	FLJ30499
10	SLC39A12	ENSG00000148482	ENST00000539911	protein_coding	KNOWN	None	20860	1674	557	18240892	18331784	1	None	FLJ30499
X	SRPX	ENSG00000101955	ENST00000378533	protein_coding	KNOWN	CCDS14245	11309	1395	464	38008592	38080152	-1	None	ETX1
X	SRPX	ENSG00000101955	ENST00000479015	processed_transcript	KNOWN	None	11309	None	None	38008604	38019351	-1	None	ETX1
X	SRPX	ENSG00000101955	ENST00000461865	processed_transcript	KNOWN	None	11309	None	None	38008884	38013834	-1	None	ETX1
X	SRPX	ENSG00000101955	ENST00000343800	protein_coding	KNOWN	None	11309	1356	451	38008595	38080696	-1	None	ETX1
X	SRPX	ENSG00000101955	ENST00000544439	protein_coding	KNOWN	CCDS55400	11309	1335	444	38008589	38080177	-1	None	ETX1
X	SRPX	ENSG00000101955	ENST00000432886	protein_coding	KNOWN	CCDS55401	11309	1218	405	38008589	38080177	-1	None	ETX1
X	SRPX	ENSG00000101955	ENST00000538295	protein_coding	KNOWN	CCDS55402	11309	1140	379	38008589	38080177	-1	None	ETX1
9	None	ENSG00000255872	ENST00000540557	nonsense_mediated_decay	KNOWN	None	None	894	297	37588410	38068684	-1	None	None
9	FRMPD1	ENSG00000070601	ENST00000377765	protein_coding	KNOWN	CCDS6612	29159	4737	1578	37650997	37746901	1	None	KIAA0967, FRMD2
9	FRMPD1	ENSG00000070601	ENST00000539465	protein_coding	KNOWN	CCDS6612	29159	4737	1578	37668002	37746901	1	None	KIAA0967, FRMD2
9	FRMPD1	ENSG00000070601	ENST00000359927	protein_coding	KNOWN	None	29159	188	61	37669775	37707499	1	None	KIAA0967, FRMD2
9	FRMPD1	ENSG00000070601	ENST00000541302	protein_coding	KNOWN	None	29159	2046	681	37715642	37741165	1	None	KIAA0967, FRMD2
9	FRMPD1	ENSG00000070601	ENST00000536622	protein_coding	KNOWN	None	29159	1905	634	37715635	37741313	1	None	KIAA0967, FRMD2
10	CACNB2	ENSG00000165995	ENST00000324631	protein_coding	KNOWN	CCDS7125	1402	1983	660	18429606	18830056	1	MYSB, CACNLB2	None
10	CACNB2	ENSG00000165995	ENST00000352115	protein_coding	KNOWN	CCDS7126	1402	1911	636	18429666	18828653	1	MYSB, CACNLB2	None
10	CACNB2	ENSG00000165995	ENST00000377328	protein_coding	NOVEL	None	1402	1233	410	18429666	18828653	1	MYSB, CACNLB2	None
10	CACNB2	ENSG00000165995	ENST00000468177	retained_intron	KNOWN	None	1402	None	None	18429676	18440198	1	MYSB, CACNLB2	None
10	CACNB2	ENSG00000165995	ENST00000467034	processed_transcript	KNOWN	None	1402	None	None	18429721	18471036	1	MYSB, CACNLB2	None
10	CACNB2	ENSG00000165995	ENST00000282343	protein_coding	KNOWN	CCDS7127	1402	1899	632	18429887	18830056	1	MYSB, CACNLB2	None
10	CACNB2	ENSG00000165995	ENST00000377331	protein_coding	KNOWN	CCDS41493	1402	1827	608	18430109	18828653	1	MYSB, CACNLB2	None
10	CACNB2	ENSG00000165995	ENST00000396576	protein_coding	KNOWN	CCDS7128	1402	1818	605	18549698	18830798	1	MYSB, CACNLB2	None
10	CACNB2	ENSG00000165995	ENST00000377319	protein_coding	KNOWN	None	1402	1704	567	18550190	18830056	1	MYSB, CACNLB2	None
10	CACNB2	ENSG00000165995	ENST00000498816	retained_intron	KNOWN	None	1402	None	None	18629646	18787722	1	MYSB, CACNLB2	None
10	CACNB2	ENSG00000165995	ENST00000377329	protein_coding	KNOWN	CCDS41494	1402	1821	606	18629666	18830038	1	MYSB, CACNLB2	None
10	CACNB2	ENSG00000165995	ENST00000377315	protein_coding	KNOWN	CCDS7129	1402	1839	612	18689742	18830056	1	MYSB, CACNLB2	None
14	RPS6KA5	ENSG00000100784	ENST00000261991	protein_coding	KNOWN	CCDS9893	10434	2409	802	91336799	91526952	-1	None	MSK1, RLPK
14	RPS6KA5	ENSG00000100784	ENST00000536315	protein_coding	PUTATIVE	None	10434	2172	723	91337848	91526478	-1	None	MSK1, RLPK
14	RPS6KA5	ENSG00000100784	ENST00000556178	nonsense_mediated_decay	KNOWN	None	10434	239	78	91338418	91444868	-1	None	MSK1, RLPK
14	RPS6KA5	ENSG00000100784	ENST00000418736	protein_coding	KNOWN	CCDS45149	10434	1650	549	91360318	91526944	-1	None	MSK1, RLPK
14	RPS6KA5	ENSG00000100784	ENST00000554206	nonsense_mediated_decay	KNOWN	None	10434	660	219	91367019	91526980	-1	None	MSK1, RLPK
14	RPS6KA5	ENSG00000100784	ENST00000556304	processed_transcript	PUTATIVE	None	10434	None	None	91372536	91377813	-1	None	MSK1, RLPK
14	RPS6KA5	ENSG00000100784	ENST00000556594	nonsense_mediated_decay	KNOWN	None	10434	252	83	91444739	91526929	-1	None	MSK1, RLPK
9	TRMT10B	ENSG00000165275	ENST00000540616	nonsense_mediated_decay	KNOWN	None	26454	219	72	37753814	37763754	1	RG9MTD3	FLJ31455, bA3J10.9
9	TRMT10B	ENSG00000165275	ENST00000538370	nonsense_mediated_decay	KNOWN	None	26454	219	72	37753814	37768160	1	RG9MTD3	FLJ31455, bA3J10.9
9	TRMT10B	ENSG00000165275	ENST00000537016	nonsense_mediated_decay	KNOWN	None	26454	426	141	37753814	37776427	1	RG9MTD3	FLJ31455, bA3J10.9
9	TRMT10B	ENSG00000165275	ENST00000488673	nonsense_mediated_decay	KNOWN	None	26454	525	174	37753814	37778019	1	RG9MTD3	FLJ31455, bA3J10.9
9	TRMT10B	ENSG00000165275	ENST00000377754	protein_coding	NOVEL	None	26454	666	221	37753814	37778678	1	RG9MTD3	FLJ31455, bA3J10.9
9	TRMT10B	ENSG00000165275	ENST00000297994	protein_coding	KNOWN	CCDS43804	26454	951	316	37753814	37778969	1	RG9MTD3	FLJ31455, bA3J10.9
9	TRMT10B	ENSG00000165275	ENST00000509577	retained_intron	KNOWN	None	26454	None	None	37769554	37770752	1	RG9MTD3	FLJ31455, bA3J10.9
9	TRMT10B	ENSG00000165275	ENST00000377753	protein_coding	KNOWN	None	26454	690	229	37753804	37778433	1	RG9MTD3	FLJ31455, bA3J10.9
9	TRMT10B	ENSG00000165275	ENST00000537911	protein_coding	KNOWN	None	26454	771	256	37753810	37777909	1	RG9MTD3	FLJ31455, bA3J10.9
20	None	ENSG00000228386	ENST00000451556	lincRNA	KNOWN	None	None	None	None	32602775	32605555	-1	None	None
15	CRABP1	ENSG00000166426	ENST00000299529	protein_coding	KNOWN	CCDS10301	2338	414	137	78632666	78640572	1	RBP5	CRABP, CRABP-I, CRABPI
15	CRABP1	ENSG00000166426	ENST00000406419	nonsense_mediated_decay	KNOWN	None	2338	340	112	78632818	78640420	1	RBP5	CRABP, CRABP-I, CRABPI
15	CRABP1	ENSG00000166426	ENST00000560753	retained_intron	KNOWN	None	2338	None	None	78640163	78640563	1	RBP5	CRABP, CRABP-I, CRABPI
20	MIR4755	ENSG00000264616	ENST00000583905	miRNA	KNOWN	None	41815	None	None	32636925	32636996	1	None	hsa-mir-4755
20	None	ENSG00000229472	ENST00000434926	antisense	KNOWN	None	None	None	None	32668955	32669754	1	None	None
15	IREB2	ENSG00000136381	ENST00000560840	protein_coding	PUTATIVE	None	6115	115	37	78729773	78757606	1	None	IRP2
15	IREB2	ENSG00000136381	ENST00000559215	nonsense_mediated_decay	KNOWN	None	6115	141	46	78730518	78758778	1	None	IRP2
15	IREB2	ENSG00000136381	ENST00000258886	protein_coding	KNOWN	CCDS10302	6115	2892	963	78730531	78793798	1	None	IRP2
15	IREB2	ENSG00000136381	ENST00000558525	nonsense_mediated_decay	KNOWN	None	6115	156	51	78730570	78764143	1	None	IRP2
15	IREB2	ENSG00000136381	ENST00000560440	protein_coding	PUTATIVE	None	6115	1032	343	78730626	78769042	1	None	IRP2
15	IREB2	ENSG00000136381	ENST00000558570	nonsense_mediated_decay	KNOWN	None	6115	663	220	78730651	78790551	1	None	IRP2
15	IREB2	ENSG00000136381	ENST00000560454	processed_transcript	PUTATIVE	None	6115	None	None	78730764	78755286	1	None	IRP2
15	IREB2	ENSG00000136381	ENST00000559427	processed_transcript	KNOWN	None	6115	None	None	78757641	78763290	1	None	IRP2
15	IREB2	ENSG00000136381	ENST00000559676	retained_intron	KNOWN	None	6115	None	None	78775762	78781098	1	None	IRP2
15	IREB2	ENSG00000136381	ENST00000559091	protein_coding	PUTATIVE	None	6115	268	88	78786552	78789680	1	None	IRP2
20	RPS2P1	ENSG00000225246	ENST00000434010	processed_pseudogene	KNOWN	None	16580	None	None	32710276	32711096	1	None	dJ64K7.1
4	AFP	ENSG00000081051	ENST00000513720	processed_transcript	KNOWN	None	317	None	None	74296855	74302927	1	HPAFP	FETA
4	AFP	ENSG00000081051	ENST00000515675	processed_transcript	KNOWN	None	317	None	None	74296876	74302927	1	HPAFP	FETA
4	AFP	ENSG00000081051	ENST00000395792	protein_coding	KNOWN	CCDS3556	317	1830	609	74301880	74321891	1	HPAFP	FETA
4	AFP	ENSG00000081051	ENST00000226359	protein_coding	PUTATIVE	None	317	1869	622	74301964	74321460	1	HPAFP	FETA
4	AFP	ENSG00000081051	ENST00000508838	retained_intron	KNOWN	None	317	None	None	74316266	74321458	1	HPAFP	FETA
4	AFP	ENSG00000081051	ENST00000514279	retained_intron	KNOWN	None	317	None	None	74318117	74321287	1	HPAFP	FETA
4	AFP	ENSG00000081051	ENST00000506820	processed_transcript	KNOWN	None	317	None	None	74319207	74321494	1	HPAFP	FETA
20	XPOTP1	ENSG00000214185	ENST00000443317	processed_pseudogene	KNOWN	None	16586	None	None	32801301	32803698	-1	None	dJ785G19.1, XPO3P1
20	None	ENSG00000250917	ENST00000512005	processed_transcript	PUTATIVE	None	None	None	None	32822646	32868979	-1	None	None
20	None	ENSG00000236456	ENST00000433096	processed_pseudogene	KNOWN	None	None	None	None	32833759	32834343	-1	None	None
X	CD99L2	ENSG00000102181	ENST00000346693	processed_transcript	KNOWN	None	18237	None	None	149934810	150067103	-1	MIC2L1	CD99B
X	CD99L2	ENSG00000102181	ENST00000370377	protein_coding	KNOWN	CCDS35427	18237	789	262	149934810	150067179	-1	MIC2L1	CD99B
X	CD99L2	ENSG00000102181	ENST00000466436	protein_coding	KNOWN	CCDS14698	18237	642	213	149937202	150067102	-1	MIC2L1	CD99B
X	CD99L2	ENSG00000102181	ENST00000418547	protein_coding	KNOWN	None	18237	474	157	149945375	149999722	-1	MIC2L1	CD99B
X	CD99L2	ENSG00000102181	ENST00000491877	processed_transcript	KNOWN	None	18237	None	None	149983373	150067082	-1	MIC2L1	CD99B
X	CD99L2	ENSG00000102181	ENST00000355149	protein_coding	KNOWN	CCDS14697	18237	573	190	149934812	150067289	-1	MIC2L1	CD99B
X	CD99L2	ENSG00000102181	ENST00000437787	protein_coding	KNOWN	CCDS55527	18237	570	189	149934812	150067289	-1	MIC2L1	CD99B
X	CD99L2	ENSG00000102181	ENST00000320893	protein_coding	KNOWN	None	18237	438	145	149997770	150067179	-1	MIC2L1	CD99B
9	EXOSC3	ENSG00000107371	ENST00000465229	nonsense_mediated_decay	KNOWN	CCDS43805	17944	495	164	37766975	37785058	-1	None	hRrp40p, Rrp40p, RRP40, CGI-102, p10, hRrp-40
9	EXOSC3	ENSG00000107371	ENST00000327304	protein_coding	KNOWN	CCDS35016	17944	828	275	37779711	37785054	-1	None	hRrp40p, Rrp40p, RRP40, CGI-102, p10, hRrp-40
9	EXOSC3	ENSG00000107371	ENST00000490516	processed_transcript	KNOWN	None	17944	None	None	37780585	37784710	-1	None	hRrp40p, Rrp40p, RRP40, CGI-102, p10, hRrp-40
9	EXOSC3	ENSG00000107371	ENST00000396521	protein_coding	KNOWN	CCDS43805	17944	495	164	37780604	37785061	-1	None	hRrp40p, Rrp40p, RRP40, CGI-102, p10, hRrp-40
9	EXOSC3	ENSG00000107371	ENST00000489414	processed_transcript	KNOWN	None	17944	None	None	37780688	37800706	-1	None	hRrp40p, Rrp40p, RRP40, CGI-102, p10, hRrp-40
9	EXOSC3	ENSG00000107371	ENST00000482614	processed_transcript	KNOWN	None	17944	None	None	37780803	37801434	-1	None	hRrp40p, Rrp40p, RRP40, CGI-102, p10, hRrp-40
9	EXOSC3	ENSG00000107371	ENST00000465860	retained_intron	KNOWN	None	17944	None	None	37781801	37784742	-1	None	hRrp40p, Rrp40p, RRP40, CGI-102, p10, hRrp-40
9	EXOSC3	ENSG00000107371	ENST00000496910	retained_intron	KNOWN	None	17944	None	None	37783869	37784742	-1	None	hRrp40p, Rrp40p, RRP40, CGI-102, p10, hRrp-40
14	PCNXL4	ENSG00000126773	ENST00000317623	protein_coding	KNOWN	None	20349	2817	938	60558629	60601532	1	C14orf135	None
14	PCNXL4	ENSG00000126773	ENST00000391611	protein_coding	NOVEL	None	20349	693	230	60558637	60577875	1	C14orf135	None
14	PCNXL4	ENSG00000126773	ENST00000406854	protein_coding	KNOWN	None	20349	3519	1172	60558637	60601532	1	C14orf135	None
14	PCNXL4	ENSG00000126773	ENST00000406949	protein_coding	PUTATIVE	None	20349	2622	873	60558645	60635851	1	C14orf135	None
14	PCNXL4	ENSG00000126773	ENST00000556907	processed_transcript	PUTATIVE	None	20349	None	None	60558695	60582488	1	C14orf135	None
14	PCNXL4	ENSG00000126773	ENST00000555569	retained_intron	KNOWN	None	20349	None	None	60558904	60581698	1	C14orf135	None
14	PCNXL4	ENSG00000126773	ENST00000483571	retained_intron	KNOWN	None	20349	None	None	60582062	60592908	1	C14orf135	None
14	PCNXL4	ENSG00000126773	ENST00000553513	retained_intron	KNOWN	None	20349	None	None	60582339	60585267	1	C14orf135	None
14	PCNXL4	ENSG00000126773	ENST00000554534	protein_coding	NOVEL	None	20349	357	118	60582700	60590991	1	C14orf135	None
14	PCNXL4	ENSG00000126773	ENST00000555740	nonsense_mediated_decay	KNOWN	None	20349	1584	527	60585161	60601527	1	C14orf135	None
14	PCNXL4	ENSG00000126773	ENST00000555929	nonsense_mediated_decay	KNOWN	None	20349	290	95	60585342	60600945	1	C14orf135	None
14	PCNXL4	ENSG00000126773	ENST00000556360	nonsense_mediated_decay	KNOWN	None	20349	419	138	60591024	60600803	1	C14orf135	None
14	PCNXL4	ENSG00000126773	ENST00000553898	processed_transcript	PUTATIVE	None	20349	None	None	60614043	60635849	1	C14orf135	None
14	PCNXL4	ENSG00000126773	ENST00000404681	protein_coding	KNOWN	None	20349	3519	1172	60574357	60601527	1	C14orf135	None
14	PCNXL4	ENSG00000126773	ENST00000535349	protein_coding	KNOWN	None	20349	897	298	60585161	60601527	1	C14orf135	None
8	GGH	ENSG00000137563	ENST00000518466	processed_transcript	KNOWN	None	4248	None	None	63927638	63938792	-1	None	None
8	GGH	ENSG00000137563	ENST00000260118	protein_coding	KNOWN	CCDS6177	4248	957	318	63927644	63951730	-1	None	None
8	GGH	ENSG00000137563	ENST00000522852	retained_intron	KNOWN	None	4248	None	None	63927988	63930529	-1	None	None
8	GGH	ENSG00000137563	ENST00000520609	retained_intron	KNOWN	None	4248	None	None	63929893	63951360	-1	None	None
8	GGH	ENSG00000137563	ENST00000518113	processed_transcript	KNOWN	None	4248	None	None	63936068	63942775	-1	None	None
8	GGH	ENSG00000137563	ENST00000518966	retained_intron	KNOWN	None	4248	None	None	63939559	63951360	-1	None	None
8	GGH	ENSG00000137563	ENST00000523479	processed_transcript	KNOWN	None	4248	None	None	63939753	63941044	-1	None	None
8	GGH	ENSG00000137563	ENST00000523788	retained_intron	KNOWN	None	4248	None	None	63942543	63951361	-1	None	None
X	TCP11X1	ENSG00000215046	ENST00000333110	protein_coding	KNOWN	None	48369	1224	407	101470280	101481785	1	None	None
X	TCP11X1	ENSG00000215046	ENST00000448512	nonsense_mediated_decay	KNOWN	None	48369	369	122	101470280	101567445	1	None	None
X	TCP11X1	ENSG00000215046	ENST00000487514	retained_intron	KNOWN	None	48369	None	None	101478599	101479112	1	None	None
15	SRP14	ENSG00000140319	ENST00000267884	protein_coding	KNOWN	CCDS42017	11299	411	136	40327940	40331389	-1	None	ALURBP, MGC14326
15	SRP14	ENSG00000140319	ENST00000558527	processed_transcript	KNOWN	None	11299	None	None	40328242	40331365	-1	None	ALURBP, MGC14326
15	SRP14	ENSG00000140319	ENST00000558720	protein_coding	PUTATIVE	None	11299	171	56	40328243	40331251	-1	None	ALURBP, MGC14326
15	SRP14	ENSG00000140319	ENST00000560773	protein_coding	PUTATIVE	None	11299	171	56	40328444	40331357	-1	None	ALURBP, MGC14326
15	SRP14	ENSG00000140319	ENST00000559439	processed_transcript	KNOWN	None	11299	None	None	40328455	40331074	-1	None	ALURBP, MGC14326
15	SRP14	ENSG00000140319	ENST00000559475	processed_transcript	KNOWN	None	11299	None	None	40328505	40331296	-1	None	ALURBP, MGC14326
15	SRP14	ENSG00000140319	ENST00000559081	protein_coding	PUTATIVE	None	11299	348	115	40328889	40331354	-1	None	ALURBP, MGC14326
15	SRP14	ENSG00000140319	ENST00000558243	retained_intron	KNOWN	None	11299	None	None	40329187	40331363	-1	None	ALURBP, MGC14326
5	MIER3	ENSG00000155545	ENST00000381226	protein_coding	NOVEL	None	26678	1668	555	56215429	56247945	-1	None	FLJ35954, DKFZp686L09111, DKFZp781I1119
5	MIER3	ENSG00000155545	ENST00000381213	protein_coding	KNOWN	CCDS3973	26678	1650	549	56215430	56247952	-1	None	FLJ35954, DKFZp686L09111, DKFZp781I1119
5	MIER3	ENSG00000155545	ENST00000381199	protein_coding	KNOWN	None	26678	1653	550	56215431	56247940	-1	None	FLJ35954, DKFZp686L09111, DKFZp781I1119
5	MIER3	ENSG00000155545	ENST00000452157	nonsense_mediated_decay	KNOWN	None	26678	360	119	56215431	56247949	-1	None	FLJ35954, DKFZp686L09111, DKFZp781I1119
5	MIER3	ENSG00000155545	ENST00000409421	protein_coding	PUTATIVE	None	26678	1464	487	56218411	56236960	-1	None	FLJ35954, DKFZp686L09111, DKFZp781I1119
5	MIER3	ENSG00000155545	ENST00000336942	protein_coding	PUTATIVE	None	26678	436	144	56231498	56248030	-1	None	FLJ35954, DKFZp686L09111, DKFZp781I1119
5	MIER3	ENSG00000155545	ENST00000451637	nonsense_mediated_decay	KNOWN	None	26678	134	43	56231571	56234798	-1	None	FLJ35954, DKFZp686L09111, DKFZp781I1119
5	MIER3	ENSG00000155545	ENST00000480115	retained_intron	KNOWN	None	26678	None	None	56234641	56247939	-1	None	FLJ35954, DKFZp686L09111, DKFZp781I1119
5	MIER3	ENSG00000155545	ENST00000546593	processed_transcript	KNOWN	None	26678	None	None	56242858	56267502	-1	None	FLJ35954, DKFZp686L09111, DKFZp781I1119
5	MIER3	ENSG00000155545	ENST00000440000	protein_coding	PUTATIVE	None	26678	72	23	56242858	56267502	-1	None	FLJ35954, DKFZp686L09111, DKFZp781I1119
5	MIER3	ENSG00000155545	ENST00000497185	processed_transcript	KNOWN	None	26678	None	None	56242859	56267502	-1	None	FLJ35954, DKFZp686L09111, DKFZp781I1119
20	None	ENSG00000234087	ENST00000437424	processed_pseudogene	KNOWN	None	None	None	None	32935477	32935591	-1	None	None
20	None	ENSG00000201498	ENST00000364628	misc_RNA	NOVEL	None	None	None	None	32971971	32972071	-1	None	None
20	CDC42P1	ENSG00000234933	ENST00000456658	processed_pseudogene	KNOWN	None	16339	None	None	32989955	32990502	-1	None	bK3216D2.3
14	C14orf159	ENSG00000133943	ENST00000521334	protein_coding	KNOWN	None	20498	456	151	91526677	91636545	1	None	FLJ39975
14	C14orf159	ENSG00000133943	ENST00000522837	protein_coding	KNOWN	None	20498	257	84	91527176	91633722	1	None	FLJ39975
14	C14orf159	ENSG00000133943	ENST00000518871	protein_coding	KNOWN	None	20498	327	108	91574330	91636416	1	None	FLJ39975
14	C14orf159	ENSG00000133943	ENST00000521081	protein_coding	KNOWN	None	20498	75	24	91580407	91626713	1	None	FLJ39975
14	C14orf159	ENSG00000133943	ENST00000520328	protein_coding	KNOWN	CCDS45150	20498	1695	564	91580407	91691696	1	None	FLJ39975
14	C14orf159	ENSG00000133943	ENST00000256324	protein_coding	KNOWN	CCDS41979	20498	1866	621	91580407	91691976	1	None	FLJ39975
14	C14orf159	ENSG00000133943	ENST00000524232	protein_coding	KNOWN	None	20498	157	51	91580409	91633622	1	None	FLJ39975
14	C14orf159	ENSG00000133943	ENST00000522170	protein_coding	KNOWN	None	20498	607	201	91580411	91639783	1	None	FLJ39975
14	C14orf159	ENSG00000133943	ENST00000519950	protein_coding	KNOWN	None	20498	604	200	91580424	91639780	1	None	FLJ39975
14	C14orf159	ENSG00000133943	ENST00000523879	protein_coding	KNOWN	None	20498	251	82	91580427	91633716	1	None	FLJ39975
14	C14orf159	ENSG00000133943	ENST00000521077	protein_coding	KNOWN	None	20498	1746	581	91580429	91691699	1	None	FLJ39975
14	C14orf159	ENSG00000133943	ENST00000518665	protein_coding	KNOWN	None	20498	480	159	91580431	91634065	1	None	FLJ39975
14	C14orf159	ENSG00000133943	ENST00000519994	nonsense_mediated_decay	KNOWN	None	20498	315	104	91580443	91655346	1	None	FLJ39975
14	C14orf159	ENSG00000133943	ENST00000523837	nonsense_mediated_decay	KNOWN	None	20498	114	37	91580464	91691699	1	None	FLJ39975
14	C14orf159	ENSG00000133943	ENST00000518868	protein_coding	KNOWN	CCDS41979	20498	1866	621	91580714	91691696	1	None	FLJ39975
14	C14orf159	ENSG00000133943	ENST00000518649	processed_transcript	KNOWN	None	20498	None	None	91580720	91647593	1	None	FLJ39975
14	C14orf159	ENSG00000133943	ENST00000519019	protein_coding	PUTATIVE	None	20498	285	94	91580732	91634051	1	None	FLJ39975
14	C14orf159	ENSG00000133943	ENST00000523816	protein_coding	KNOWN	CCDS32141	20498	1851	616	91580734	91691699	1	None	FLJ39975
14	C14orf159	ENSG00000133943	ENST00000517518	protein_coding	KNOWN	None	20498	1295	430	91580745	91662818	1	None	FLJ39975
14	C14orf159	ENSG00000133943	ENST00000428926	protein_coding	KNOWN	CCDS32141	20498	1851	616	91580786	91691696	1	None	FLJ39975
14	C14orf159	ENSG00000133943	ENST00000517362	protein_coding	KNOWN	None	20498	194	63	91580793	91633659	1	None	FLJ39975
14	C14orf159	ENSG00000133943	ENST00000523894	protein_coding	KNOWN	None	20498	456	151	91581014	91636545	1	None	FLJ39975
14	C14orf159	ENSG00000133943	ENST00000522322	protein_coding	KNOWN	CCDS32141	20498	1851	616	91581030	91691699	1	None	FLJ39975
14	C14orf159	ENSG00000133943	ENST00000523771	protein_coding	KNOWN	CCDS32141	20498	1851	616	91581044	91691699	1	None	FLJ39975
14	C14orf159	ENSG00000133943	ENST00000521064	protein_coding	KNOWN	None	20498	377	124	91591883	91636466	1	None	FLJ39975
14	C14orf159	ENSG00000133943	ENST00000517877	protein_coding	PUTATIVE	None	20498	261	86	91624010	91634002	1	None	FLJ39975
14	C14orf159	ENSG00000133943	ENST00000523461	nonsense_mediated_decay	KNOWN	None	20498	1694	563	91626685	91691675	1	None	FLJ39975
14	C14orf159	ENSG00000133943	ENST00000517306	nonsense_mediated_decay	KNOWN	None	20498	1520	505	91636385	91691699	1	None	FLJ39975
14	C14orf159	ENSG00000133943	ENST00000520130	retained_intron	KNOWN	None	20498	None	None	91642093	91647611	1	None	FLJ39975
14	C14orf159	ENSG00000133943	ENST00000557303	processed_transcript	KNOWN	None	20498	None	None	91656131	91682137	1	None	FLJ39975
14	C14orf159	ENSG00000133943	ENST00000522816	protein_coding	PUTATIVE	None	20498	827	274	91662737	91687110	1	None	FLJ39975
14	C14orf159	ENSG00000133943	ENST00000523576	processed_transcript	PUTATIVE	None	20498	None	None	91682201	91691166	1	None	FLJ39975
14	C14orf159	ENSG00000133943	ENST00000412671	protein_coding	KNOWN	CCDS41979	20498	1866	621	91614122	91691696	1	None	FLJ39975
14	C14orf159	ENSG00000133943	ENST00000298858	protein_coding	KNOWN	None	20498	480	159	91580357	91634035	1	None	FLJ39975
14	C14orf159	ENSG00000133943	ENST00000525393	protein_coding	KNOWN	None	20498	1479	492	91580783	91691696	1	None	FLJ39975
20	ITCH-AS1	ENSG00000236388	ENST00000454205	antisense	KNOWN	None	40659	None	None	33029397	33029830	-1	None	None
20	ITCH-IT1	ENSG00000231795	ENST00000418598	sense_intronic	KNOWN	None	41397	None	None	33038735	33042357	1	None	None
20	MIR644A	ENSG00000207997	ENST00000385262	miRNA	KNOWN	None	32900	None	None	33054130	33054223	1	MIRN644, MIR644	hsa-mir-644
8	None	ENSG00000253207	ENST00000521500	protein_coding	PUTATIVE	None	None	87	28	114612539	114629187	1	None	None
8	None	ENSG00000253207	ENST00000518558	processed_transcript	KNOWN	None	None	None	None	114627733	114629187	1	None	None
20	FDX1P1	ENSG00000181741	ENST00000449115	processed_pseudogene	KNOWN	None	3640	None	None	33063729	33064279	-1	ADXP1, FDXP1	None
20	None	ENSG00000206582	ENST00000383855	misc_RNA	NOVEL	None	None	None	None	33114315	33114411	-1	None	None
20	None	ENSG00000231034	ENST00000450770	processed_pseudogene	KNOWN	None	None	None	None	33276492	33276782	1	None	None
8	TRPS1	ENSG00000104447	ENST00000395715	protein_coding	KNOWN	CCDS6318	12340	3885	1294	116420724	116681228	-1	None	LGCR
8	TRPS1	ENSG00000104447	ENST00000220888	protein_coding	KNOWN	None	12340	3846	1281	116424777	116680929	-1	None	LGCR
8	TRPS1	ENSG00000104447	ENST00000519076	protein_coding	PUTATIVE	None	12340	3108	1035	116426042	116632297	-1	None	LGCR
8	TRPS1	ENSG00000104447	ENST00000520276	protein_coding	KNOWN	None	12340	3858	1285	116426150	116680234	-1	None	LGCR
8	TRPS1	ENSG00000104447	ENST00000518018	protein_coding	PUTATIVE	None	12340	813	270	116426657	116504448	-1	None	LGCR
8	TRPS1	ENSG00000104447	ENST00000519674	protein_coding	PUTATIVE	None	12340	2709	902	116527417	116681130	-1	None	LGCR
8	TRPS1	ENSG00000104447	ENST00000517323	protein_coding	NOVEL	None	12340	2073	690	116599228	116680208	-1	None	LGCR
8	TRPS1	ENSG00000104447	ENST00000395713	protein_coding	PUTATIVE	None	12340	351	116	116631974	116673905	-1	None	LGCR
8	TRPS1	ENSG00000104447	ENST00000519815	protein_coding	PUTATIVE	None	12340	324	107	116632001	116681710	-1	None	LGCR
8	TRPS1	ENSG00000104447	ENST00000422939	protein_coding	PUTATIVE	None	12340	185	60	116632140	116821899	-1	None	LGCR
8	TRPS1	ENSG00000104447	ENST00000451156	protein_coding	PUTATIVE	None	12340	27	8	116635838	116680521	-1	None	LGCR
20	HMGB3P1	ENSG00000225336	ENST00000393368	processed_pseudogene	KNOWN	None	16240	None	None	33421378	33422265	-1	HMG4L, HMGB3L1	dJ18C9.3
20	MIR499A	ENSG00000207635	ENST00000384903	miRNA	KNOWN	None	32133	None	None	33578179	33578300	1	MIRN499, MIR499	hsa-mir-499
9	DCAF10	ENSG00000122741	ENST00000377724	protein_coding	KNOWN	CCDS6613	23686	1680	559	37800499	37863322	1	WDR32	MGC10765, FLJ23201
9	DCAF10	ENSG00000122741	ENST00000461549	processed_transcript	KNOWN	None	23686	None	None	37819291	37860438	1	WDR32	MGC10765, FLJ23201
9	DCAF10	ENSG00000122741	ENST00000483167	processed_transcript	KNOWN	None	23686	None	None	37854816	37863322	1	WDR32	MGC10765, FLJ23201
9	DCAF10	ENSG00000122741	ENST00000478453	processed_transcript	KNOWN	None	23686	None	None	37858477	37861438	1	WDR32	MGC10765, FLJ23201
9	DCAF10	ENSG00000122741	ENST00000242323	protein_coding	KNOWN	None	23686	1569	522	37800790	37867663	1	WDR32	MGC10765, FLJ23201
20	RNU6-407P	ENSG00000202150	ENST00000365280	snRNA	KNOWN	None	47370	None	None	33618120	33618223	-1	None	None
15	HYKK	ENSG00000188266	ENST00000566289	nonsense_mediated_decay	KNOWN	None	34403	519	172	78799924	78821143	1	AGPHD1	LOC123688
15	HYKK	ENSG00000188266	ENST00000566332	protein_coding	PUTATIVE	None	34403	681	226	78799959	78820606	1	AGPHD1	LOC123688
15	HYKK	ENSG00000188266	ENST00000569878	protein_coding	KNOWN	CCDS42063	34403	1122	373	78805431	78826012	1	AGPHD1	LOC123688
15	HYKK	ENSG00000188266	ENST00000563233	protein_coding	KNOWN	CCDS45318	34403	663	220	78805431	78829713	1	AGPHD1	LOC123688
15	HYKK	ENSG00000188266	ENST00000408962	protein_coding	KNOWN	CCDS45318	34403	663	220	78799906	78829714	1	AGPHD1	LOC123688
15	HYKK	ENSG00000188266	ENST00000388988	protein_coding	KNOWN	CCDS42063	34403	1122	373	78799906	78826012	1	AGPHD1	LOC123688
15	HYKK	ENSG00000188266	ENST00000360519	protein_coding	KNOWN	None	34403	519	172	78799906	78810971	1	AGPHD1	LOC123688
4	AFM	ENSG00000079557	ENST00000226355	protein_coding	KNOWN	CCDS3557	316	1800	599	74347400	74369691	1	None	ALB2, ALBA
4	AFM	ENSG00000079557	ENST00000505794	retained_intron	KNOWN	None	316	None	None	74360832	74363466	1	None	ALB2, ALBA
15	None	ENSG00000268838	ENST00000599596	protein_coding	KNOWN	None	None	252	83	78830023	78831288	1	None	None
15	PSMA4	ENSG00000041357	ENST00000560217	protein_coding	NOVEL	None	9533	693	230	78832747	78841379	1	None	HC9, HsT17706
15	PSMA4	ENSG00000041357	ENST00000044462	protein_coding	KNOWN	CCDS10303	9533	786	261	78832755	78841604	1	None	HC9, HsT17706
15	PSMA4	ENSG00000041357	ENST00000559082	protein_coding	KNOWN	CCDS10303	9533	786	261	78832763	78841528	1	None	HC9, HsT17706
15	PSMA4	ENSG00000041357	ENST00000560033	retained_intron	KNOWN	None	9533	None	None	78832769	78835025	1	None	HC9, HsT17706
15	PSMA4	ENSG00000041357	ENST00000559948	protein_coding	PUTATIVE	None	9533	545	180	78832769	78839026	1	None	HC9, HsT17706
15	PSMA4	ENSG00000041357	ENST00000413382	protein_coding	KNOWN	CCDS45319	9533	573	190	78832769	78841546	1	None	HC9, HsT17706
15	PSMA4	ENSG00000041357	ENST00000559146	protein_coding	NOVEL	None	9533	551	182	78832782	78839038	1	None	HC9, HsT17706
15	PSMA4	ENSG00000041357	ENST00000558639	retained_intron	KNOWN	None	9533	None	None	78832786	78837274	1	None	HC9, HsT17706
15	PSMA4	ENSG00000041357	ENST00000559934	retained_intron	KNOWN	None	9533	None	None	78832786	78841248	1	None	HC9, HsT17706
15	PSMA4	ENSG00000041357	ENST00000558635	retained_intron	KNOWN	None	9533	None	None	78832801	78834901	1	None	HC9, HsT17706
15	PSMA4	ENSG00000041357	ENST00000560099	retained_intron	KNOWN	None	9533	None	None	78832803	78841546	1	None	HC9, HsT17706
15	PSMA4	ENSG00000041357	ENST00000557929	processed_transcript	KNOWN	None	9533	None	None	78832809	78838952	1	None	HC9, HsT17706
15	PSMA4	ENSG00000041357	ENST00000558281	protein_coding	PUTATIVE	None	9533	525	174	78832820	78841312	1	None	HC9, HsT17706
15	PSMA4	ENSG00000041357	ENST00000559365	protein_coding	KNOWN	None	9533	662	219	78833077	78841162	1	None	HC9, HsT17706
15	PSMA4	ENSG00000041357	ENST00000558341	protein_coding	PUTATIVE	None	9533	378	125	78833156	78841518	1	None	HC9, HsT17706
15	PSMA4	ENSG00000041357	ENST00000559437	protein_coding	KNOWN	None	9533	629	208	78833189	78839038	1	None	HC9, HsT17706
15	PSMA4	ENSG00000041357	ENST00000560842	retained_intron	KNOWN	None	9533	None	None	78833898	78834717	1	None	HC9, HsT17706
15	PSMA4	ENSG00000041357	ENST00000560737	protein_coding	KNOWN	None	9533	710	235	78834032	78841210	1	None	HC9, HsT17706
15	PSMA4	ENSG00000041357	ENST00000559906	processed_transcript	KNOWN	None	9533	None	None	78836160	78838019	1	None	HC9, HsT17706
15	PSMA4	ENSG00000041357	ENST00000559154	protein_coding	PUTATIVE	None	9533	367	121	78836918	78839040	1	None	HC9, HsT17706
15	PSMA4	ENSG00000041357	ENST00000558094	protein_coding	PUTATIVE	None	9533	261	86	78836987	78841338	1	None	HC9, HsT17706
9	SLC25A51	ENSG00000122696	ENST00000496760	processed_transcript	KNOWN	None	23323	None	None	37879400	37904350	-1	MCART1	MGC14836, CG7943
9	SLC25A51	ENSG00000122696	ENST00000377716	protein_coding	KNOWN	CCDS6614	23323	894	297	37887601	37904107	-1	MCART1	MGC14836, CG7943
9	SLC25A51	ENSG00000122696	ENST00000242275	protein_coding	KNOWN	CCDS6614	23323	894	297	37887648	37904130	-1	MCART1	MGC14836, CG7943
9	SLC25A51	ENSG00000122696	ENST00000380590	protein_coding	KNOWN	CCDS6614	23323	894	297	37885377	37888591	-1	MCART1	MGC14836, CG7943
X	HMGB3	ENSG00000029993	ENST00000419110	protein_coding	KNOWN	None	5004	566	187	150148982	150156350	1	HMG4	HMG2A, MGC90319
X	HMGB3	ENSG00000029993	ENST00000325307	protein_coding	KNOWN	CCDS35428	5004	603	200	150151759	150159248	1	HMG4	HMG2A, MGC90319
X	HMGB3	ENSG00000029993	ENST00000455596	protein_coding	KNOWN	None	5004	581	192	150151858	150156365	1	HMG4	HMG2A, MGC90319
X	HMGB3	ENSG00000029993	ENST00000430118	protein_coding	KNOWN	None	5004	460	152	150154004	150155770	1	HMG4	HMG2A, MGC90319
X	HMGB3	ENSG00000029993	ENST00000448905	protein_coding	KNOWN	CCDS35428	5004	603	200	150151879	150156405	1	HMG4	HMG2A, MGC90319
8	EIF3H	ENSG00000147677	ENST00000521861	protein_coding	KNOWN	CCDS6319	3273	1059	352	117654369	117768060	-1	EIF3S3	eIF3-gamma, eIF3-p40, eIF3h
8	EIF3H	ENSG00000147677	ENST00000276682	protein_coding	PUTATIVE	None	3273	1101	366	117657072	117778494	-1	EIF3S3	eIF3-gamma, eIF3-p40, eIF3h
8	EIF3H	ENSG00000147677	ENST00000520289	retained_intron	KNOWN	None	3273	None	None	117658820	117670014	-1	EIF3S3	eIF3-gamma, eIF3-p40, eIF3h
8	EIF3H	ENSG00000147677	ENST00000518949	protein_coding	PUTATIVE	None	3273	732	243	117661045	117768023	-1	EIF3S3	eIF3-gamma, eIF3-p40, eIF3h
8	EIF3H	ENSG00000147677	ENST00000518995	protein_coding	NOVEL	None	3273	706	234	117668144	117768061	-1	EIF3S3	eIF3-gamma, eIF3-p40, eIF3h
8	EIF3H	ENSG00000147677	ENST00000522800	nonsense_mediated_decay	KNOWN	None	3273	171	56	117669459	117768068	-1	EIF3S3	eIF3-gamma, eIF3-p40, eIF3h
8	EIF3H	ENSG00000147677	ENST00000518034	retained_intron	KNOWN	None	3273	None	None	117670488	117768062	-1	EIF3S3	eIF3-gamma, eIF3-p40, eIF3h
8	EIF3H	ENSG00000147677	ENST00000517974	retained_intron	KNOWN	None	3273	None	None	117670784	117768062	-1	EIF3S3	eIF3-gamma, eIF3-p40, eIF3h
8	EIF3H	ENSG00000147677	ENST00000522453	protein_coding	PUTATIVE	None	3273	510	169	117671071	117768044	-1	EIF3S3	eIF3-gamma, eIF3-p40, eIF3h
8	EIF3H	ENSG00000147677	ENST00000519046	nonsense_mediated_decay	KNOWN	None	3273	141	46	117671125	117768062	-1	EIF3S3	eIF3-gamma, eIF3-p40, eIF3h
8	EIF3H	ENSG00000147677	ENST00000520813	protein_coding	PUTATIVE	None	3273	292	96	117738294	117779164	-1	EIF3S3	eIF3-gamma, eIF3-p40, eIF3h
9	SHB	ENSG00000107338	ENST00000377707	protein_coding	KNOWN	CCDS43806	10838	1530	509	37919131	38069208	-1	None	None
9	SHB	ENSG00000107338	ENST00000377700	protein_coding	KNOWN	None	10838	894	297	38015422	38069210	-1	None	None
4	RASSF6	ENSG00000169435	ENST00000307439	protein_coding	KNOWN	CCDS3559	20796	1014	337	74437267	74486265	-1	None	None
4	RASSF6	ENSG00000169435	ENST00000342081	protein_coding	KNOWN	CCDS3558	20796	1110	369	74438862	74486348	-1	None	None
4	RASSF6	ENSG00000169435	ENST00000395777	protein_coding	KNOWN	CCDS58904	20796	912	303	74440288	74486129	-1	None	None
4	RASSF6	ENSG00000169435	ENST00000335049	protein_coding	KNOWN	CCDS58905	20796	978	325	74441570	74486217	-1	None	None
4	RASSF6	ENSG00000169435	ENST00000512591	processed_transcript	KNOWN	None	20796	None	None	74469796	74486134	-1	None	None
10	NSUN6	ENSG00000241058	ENST00000377304	protein_coding	KNOWN	CCDS7130	23529	1410	469	18834490	18940551	-1	NOPD1	FLJ23743
10	NSUN6	ENSG00000241058	ENST00000493816	processed_transcript	KNOWN	None	23529	None	None	18834991	18840751	-1	NOPD1	FLJ23743
9	ALDH1B1	ENSG00000137124	ENST00000377698	protein_coding	KNOWN	CCDS6615	407	1554	517	38392661	38398658	1	ALDH5	ALDHX
15	BMF	ENSG00000104081	ENST00000354670	protein_coding	KNOWN	CCDS10052	24132	555	184	40380091	40401075	-1	None	FLJ00065
15	BMF	ENSG00000104081	ENST00000397573	protein_coding	KNOWN	CCDS10052	24132	555	184	40380094	40398649	-1	None	FLJ00065
15	BMF	ENSG00000104081	ENST00000561360	protein_coding	KNOWN	CCDS10052	24132	555	184	40383877	40398846	-1	None	FLJ00065
15	BMF	ENSG00000104081	ENST00000561282	protein_coding	KNOWN	CCDS10052	24132	555	184	40383919	40398623	-1	None	FLJ00065
15	BMF	ENSG00000104081	ENST00000558774	protein_coding	PUTATIVE	CCDS32196	24132	390	129	40383935	40401093	-1	None	FLJ00065
15	BMF	ENSG00000104081	ENST00000431415	protein_coding	KNOWN	CCDS45223	24132	492	163	40383988	40398287	-1	None	FLJ00065
15	BMF	ENSG00000104081	ENST00000559701	protein_coding	KNOWN	CCDS32196	24132	390	129	40383992	40401080	-1	None	FLJ00065
15	BMF	ENSG00000104081	ENST00000557870	protein_coding	KNOWN	None	24132	184	60	40398104	40401080	-1	None	FLJ00065
15	BMF	ENSG00000104081	ENST00000560430	protein_coding	KNOWN	None	24132	39	12	40398249	40400905	-1	None	FLJ00065
15	BMF	ENSG00000104081	ENST00000558057	processed_transcript	KNOWN	None	24132	None	None	40400244	40401079	-1	None	FLJ00065
15	BMF	ENSG00000104081	ENST00000220446	protein_coding	KNOWN	CCDS32196	24132	390	129	40380094	40398287	-1	None	FLJ00065
15	USP3	ENSG00000140455	ENST00000561442	protein_coding	NOVEL	None	12626	396	131	63796793	63845932	1	None	None
15	USP3	ENSG00000140455	ENST00000560070	protein_coding	NOVEL	None	12626	400	132	63796794	63850386	1	None	None
15	USP3	ENSG00000140455	ENST00000380324	protein_coding	KNOWN	CCDS32265	12626	1563	520	63796810	63883666	1	None	None
15	USP3	ENSG00000140455	ENST00000557884	nonsense_mediated_decay	KNOWN	None	12626	171	56	63796811	63852083	1	None	None
15	USP3	ENSG00000140455	ENST00000558157	nonsense_mediated_decay	KNOWN	None	12626	171	56	63796834	63883643	1	None	None
15	USP3	ENSG00000140455	ENST00000561326	processed_transcript	KNOWN	None	12626	None	None	63796855	63866351	1	None	None
15	USP3	ENSG00000140455	ENST00000559873	nonsense_mediated_decay	KNOWN	None	12626	240	79	63796873	63880595	1	None	None
15	USP3	ENSG00000140455	ENST00000559192	nonsense_mediated_decay	KNOWN	None	12626	168	55	63796933	63886839	1	None	None
15	USP3	ENSG00000140455	ENST00000559771	protein_coding	PUTATIVE	None	12626	378	125	63807645	63848941	1	None	None
15	USP3	ENSG00000140455	ENST00000559276	protein_coding	PUTATIVE	None	12626	118	38	63820032	63829255	1	None	None
15	USP3	ENSG00000140455	ENST00000558285	protein_coding	PUTATIVE	None	12626	1512	503	63824705	63883154	1	None	None
15	USP3	ENSG00000140455	ENST00000559257	nonsense_mediated_decay	KNOWN	None	12626	1331	442	63829304	63886832	1	None	None
15	USP3	ENSG00000140455	ENST00000538686	nonsense_mediated_decay	KNOWN	None	12626	20	5	63829337	63883666	1	None	None
15	USP3	ENSG00000140455	ENST00000559711	protein_coding	PUTATIVE	None	12626	1296	431	63836824	63883335	1	None	None
15	USP3	ENSG00000140455	ENST00000558925	retained_intron	KNOWN	None	12626	None	None	63845532	63848900	1	None	None
15	USP3	ENSG00000140455	ENST00000558218	processed_transcript	KNOWN	None	12626	None	None	63878807	63883124	1	None	None
15	USP3	ENSG00000140455	ENST00000561381	retained_intron	KNOWN	None	12626	None	None	63880169	63883202	1	None	None
15	USP3	ENSG00000140455	ENST00000559718	retained_intron	KNOWN	None	12626	None	None	63880719	63883252	1	None	None
15	USP3	ENSG00000140455	ENST00000560202	nonsense_mediated_decay	KNOWN	None	12626	321	106	63880928	63886793	1	None	None
15	USP3	ENSG00000140455	ENST00000540797	protein_coding	KNOWN	CCDS58370	12626	1431	476	63796794	63883421	1	None	None
15	USP3	ENSG00000140455	ENST00000536001	protein_coding	KNOWN	None	12626	471	156	63796855	63866580	1	None	None
15	USP3	ENSG00000140455	ENST00000268049	protein_coding	KNOWN	None	12626	1497	498	63796834	63883643	1	None	None
15	USP3	ENSG00000140455	ENST00000539772	protein_coding	KNOWN	None	12626	816	271	63796855	63883436	1	None	None
X	GPR50	ENSG00000102195	ENST00000218316	protein_coding	KNOWN	CCDS44012	4506	1854	617	150345125	150349937	1	None	H9, Mel1c
X	VMA21	ENSG00000160131	ENST00000477649	processed_transcript	KNOWN	None	22082	None	None	150564987	150573629	1	MEAX	XMEA
X	VMA21	ENSG00000160131	ENST00000370361	protein_coding	KNOWN	None	22082	471	156	150565038	150573629	1	MEAX	XMEA
X	VMA21	ENSG00000160131	ENST00000330374	protein_coding	KNOWN	CCDS35430	22082	306	101	150565676	150577836	1	MEAX	XMEA
9	IGFBPL1	ENSG00000137142	ENST00000377694	protein_coding	KNOWN	CCDS35017	20081	837	278	38408991	38424444	-1	None	bA113O24.1
20	None	ENSG00000201151	ENST00000364281	snoRNA	NOVEL	None	None	None	None	33704939	33705010	-1	None	None
20	RNA5SP483	ENSG00000200301	ENST00000363431	rRNA	KNOWN	None	43383	None	None	33783109	33783226	1	RN5S483	None
20	None	ENSG00000269202	ENST00000594413	lincRNA	KNOWN	None	None	None	None	33789550	33791091	-1	None	None
20	None	ENSG00000264888	ENST00000578222	miRNA	NOVEL	None	None	None	None	33802392	33802492	1	None	None
9	ANKRD18A	ENSG00000180071	ENST00000562942	processed_transcript	KNOWN	None	23643	None	None	38540564	38542762	-1	None	KIAA2015, FLJ35740
9	ANKRD18A	ENSG00000180071	ENST00000566717	nonsense_mediated_decay	KNOWN	None	23643	669	222	38540564	38577204	-1	None	KIAA2015, FLJ35740
9	ANKRD18A	ENSG00000180071	ENST00000564591	nonsense_mediated_decay	KNOWN	None	23643	665	220	38540680	38577200	-1	None	KIAA2015, FLJ35740
9	ANKRD18A	ENSG00000180071	ENST00000566538	processed_transcript	KNOWN	None	23643	None	None	38542386	38543212	-1	None	KIAA2015, FLJ35740
9	ANKRD18A	ENSG00000180071	ENST00000567428	processed_transcript	KNOWN	None	23643	None	None	38542462	38568285	-1	None	KIAA2015, FLJ35740
9	ANKRD18A	ENSG00000180071	ENST00000357072	processed_transcript	KNOWN	None	23643	None	None	38543250	38577153	-1	None	KIAA2015, FLJ35740
9	ANKRD18A	ENSG00000180071	ENST00000602295	protein_coding	PUTATIVE	None	23643	1206	401	38571355	38595506	-1	None	KIAA2015, FLJ35740
9	ANKRD18A	ENSG00000180071	ENST00000399703	protein_coding	KNOWN	CCDS55311	23643	2979	992	38571355	38620657	-1	None	KIAA2015, FLJ35740
9	ANKRD18A	ENSG00000180071	ENST00000475234	processed_transcript	KNOWN	None	23643	None	None	38601166	38604916	-1	None	KIAA2015, FLJ35740
9	ANKRD18A	ENSG00000180071	ENST00000313339	protein_coding	KNOWN	None	23643	618	205	38540566	38577204	-1	None	KIAA2015, FLJ35740
20	MMP24-AS1	ENSG00000126005	ENST00000566203	antisense	KNOWN	None	44421	None	None	33804634	33865925	-1	None	None
20	MMP24-AS1	ENSG00000126005	ENST00000433764	antisense	KNOWN	None	44421	None	None	33805628	33865928	-1	None	None
20	MMP24-AS1	ENSG00000126005	ENST00000438751	antisense	KNOWN	None	44421	None	None	33812323	33865907	-1	None	None
20	MMP24-AS1	ENSG00000126005	ENST00000454184	antisense	KNOWN	None	44421	None	None	33812547	33865934	-1	None	None
20	MMP24-AS1	ENSG00000126005	ENST00000456350	antisense	KNOWN	None	44421	None	None	33813403	33865906	-1	None	None
20	MMP24-AS1	ENSG00000126005	ENST00000453892	antisense	KNOWN	None	44421	None	None	33843840	33859859	-1	None	None
20	MMP24-AS1	ENSG00000126005	ENST00000455178	antisense	KNOWN	None	44421	None	None	33859808	33865906	-1	None	None
20	MMP24-AS1	ENSG00000126005	ENST00000435366	antisense	KNOWN	None	44421	None	None	33864148	33865830	-1	None	None
20	MMP24-AS1	ENSG00000126005	ENST00000424358	antisense	KNOWN	None	44421	None	None	33864953	33865932	-1	None	None
20	MMP24-AS1	ENSG00000126005	ENST00000456790	antisense	KNOWN	None	44421	None	None	33865145	33865932	-1	None	None
8	UTP23	ENSG00000147679	ENST00000309822	protein_coding	KNOWN	CCDS6320	28224	750	249	117778742	117786923	1	C8orf53	MGC14595
8	UTP23	ENSG00000147679	ENST00000521703	nonsense_mediated_decay	KNOWN	None	28224	243	80	117778744	117861525	1	C8orf53	MGC14595
8	UTP23	ENSG00000147679	ENST00000517814	protein_coding	PUTATIVE	None	28224	467	154	117778747	117791825	1	C8orf53	MGC14595
8	UTP23	ENSG00000147679	ENST00000521071	nonsense_mediated_decay	KNOWN	None	28224	210	69	117778748	117799037	1	C8orf53	MGC14595
8	UTP23	ENSG00000147679	ENST00000519443	retained_intron	KNOWN	None	28224	None	None	117778795	117783088	1	C8orf53	MGC14595
8	UTP23	ENSG00000147679	ENST00000517820	protein_coding	PUTATIVE	None	28224	318	105	117778811	117861702	1	C8orf53	MGC14595
8	UTP23	ENSG00000147679	ENST00000521974	retained_intron	KNOWN	None	28224	None	None	117782337	117784022	1	C8orf53	MGC14595
8	UTP23	ENSG00000147679	ENST00000520733	protein_coding	PUTATIVE	None	28224	195	64	117782429	117861318	1	C8orf53	MGC14595
8	UTP23	ENSG00000147679	ENST00000524128	nonsense_mediated_decay	KNOWN	None	28224	204	67	117782429	117861318	1	C8orf53	MGC14595
8	UTP23	ENSG00000147679	ENST00000357148	protein_coding	KNOWN	None	28224	438	145	117778742	117798816	1	C8orf53	MGC14595
8	TTPA	ENSG00000137561	ENST00000521138	processed_transcript	KNOWN	None	12404	None	None	63961112	63998608	-1	AVED	None
8	TTPA	ENSG00000137561	ENST00000260116	protein_coding	KNOWN	CCDS6178	12404	837	278	63972342	63998612	-1	AVED	None
X	PASD1	ENSG00000166049	ENST00000370357	protein_coding	KNOWN	CCDS35431	20686	2322	773	150732094	150845211	1	None	CT63
X	PASD1	ENSG00000166049	ENST00000464219	retained_intron	KNOWN	None	20686	None	None	150732201	150844987	1	None	CT63
8	NRG1	ENSG00000157168	ENST00000518104	protein_coding	NOVEL	None	7997	1444	480	31496902	32621540	1	HGL	HRG, NDF, GGF
8	NRG1	ENSG00000157168	ENST00000519301	protein_coding	KNOWN	CCDS55218	7997	1773	590	31496902	32621923	1	HGL	HRG, NDF, GGF
8	NRG1	ENSG00000157168	ENST00000520407	protein_coding	KNOWN	CCDS47836	7997	1269	422	31497271	32600742	1	HGL	HRG, NDF, GGF
8	NRG1	ENSG00000157168	ENST00000523534	protein_coding	PUTATIVE	None	7997	2142	713	31497942	32622294	1	HGL	HRG, NDF, GGF
8	NRG1	ENSG00000157168	ENST00000523079	protein_coding	PUTATIVE	CCDS55219	7997	1263	420	32405728	32618507	1	HGL	HRG, NDF, GGF
8	NRG1	ENSG00000157168	ENST00000287842	protein_coding	KNOWN	CCDS6084	7997	1914	637	32405785	32622029	1	HGL	HRG, NDF, GGF
8	NRG1	ENSG00000157168	ENST00000405005	protein_coding	KNOWN	CCDS6085	7997	1923	640	32405829	32621989	1	HGL	HRG, NDF, GGF
8	NRG1	ENSG00000157168	ENST00000521670	protein_coding	KNOWN	CCDS6086	7997	1389	462	32406137	32621516	1	HGL	HRG, NDF, GGF
8	NRG1	ENSG00000157168	ENST00000518206	protein_coding	PUTATIVE	None	7997	380	125	32463166	32600742	1	HGL	HRG, NDF, GGF
8	NRG1	ENSG00000157168	ENST00000522569	retained_intron	KNOWN	None	7997	None	None	32471893	32614046	1	HGL	HRG, NDF, GGF
8	NRG1	ENSG00000157168	ENST00000520502	protein_coding	KNOWN	CCDS6087	7997	891	296	32505237	32600725	1	HGL	HRG, NDF, GGF
8	NRG1	ENSG00000157168	ENST00000523041	protein_coding	PUTATIVE	None	7997	591	196	32505357	32600739	1	HGL	HRG, NDF, GGF
8	NRG1	ENSG00000157168	ENST00000518084	protein_coding	NOVEL	None	7997	305	100	32579271	32611941	1	HGL	HRG, NDF, GGF
8	NRG1	ENSG00000157168	ENST00000522402	protein_coding	NOVEL	None	7997	386	127	32579337	32613965	1	HGL	HRG, NDF, GGF
8	NRG1	ENSG00000157168	ENST00000519240	protein_coding	NOVEL	None	7997	405	134	32579363	32613993	1	HGL	HRG, NDF, GGF
8	NRG1	ENSG00000157168	ENST00000523681	processed_transcript	KNOWN	None	7997	None	None	32606342	32608673	1	HGL	HRG, NDF, GGF
8	NRG1	ENSG00000157168	ENST00000338921	protein_coding	KNOWN	None	7997	1947	648	32405728	32622548	1	HGL	HRG, NDF, GGF
8	NRG1	ENSG00000157168	ENST00000356819	protein_coding	KNOWN	CCDS6083	7997	1938	645	32405728	32622548	1	HGL	HRG, NDF, GGF
8	NRG1	ENSG00000157168	ENST00000287840	protein_coding	KNOWN	CCDS6085	7997	1923	640	32405728	32622548	1	HGL	HRG, NDF, GGF
8	NRG1	ENSG00000157168	ENST00000287845	protein_coding	KNOWN	None	7997	1836	611	32405728	32622548	1	HGL	HRG, NDF, GGF
8	NRG1	ENSG00000157168	ENST00000341377	protein_coding	KNOWN	None	7997	744	247	32405728	32622548	1	HGL	HRG, NDF, GGF
8	NRG1	ENSG00000157168	ENST00000539990	protein_coding	KNOWN	None	7997	1452	483	32579363	32622026	1	HGL	HRG, NDF, GGF
16	ABAT	ENSG00000183044	ENST00000268251	protein_coding	KNOWN	CCDS10534	23	1503	500	8768422	8878432	1	None	GABAT
16	ABAT	ENSG00000183044	ENST00000564714	protein_coding	PUTATIVE	None	23	287	94	8768453	8844313	1	None	GABAT
16	ABAT	ENSG00000183044	ENST00000563992	retained_intron	KNOWN	None	23	None	None	8768474	8831330	1	None	GABAT
16	ABAT	ENSG00000183044	ENST00000568847	protein_coding	KNOWN	None	23	95	30	8806694	8839882	1	None	GABAT
16	ABAT	ENSG00000183044	ENST00000561870	protein_coding	KNOWN	None	23	196	64	8806812	8841992	1	None	GABAT
16	ABAT	ENSG00000183044	ENST00000569695	processed_transcript	PUTATIVE	None	23	None	None	8806825	8807722	1	None	GABAT
16	ABAT	ENSG00000183044	ENST00000566590	nonsense_mediated_decay	KNOWN	None	23	162	53	8806847	8875388	1	None	GABAT
16	ABAT	ENSG00000183044	ENST00000563215	processed_transcript	PUTATIVE	None	23	None	None	8807219	8809490	1	None	GABAT
16	ABAT	ENSG00000183044	ENST00000565016	protein_coding	NOVEL	None	23	274	90	8807458	8844342	1	None	GABAT
16	ABAT	ENSG00000183044	ENST00000567812	protein_coding	PUTATIVE	None	23	1548	515	8807471	8875436	1	None	GABAT
16	ABAT	ENSG00000183044	ENST00000425191	protein_coding	KNOWN	CCDS10534	23	1503	500	8814573	8875447	1	None	GABAT
16	ABAT	ENSG00000183044	ENST00000569156	protein_coding	PUTATIVE	None	23	1548	515	8814576	8875379	1	None	GABAT
16	ABAT	ENSG00000183044	ENST00000562115	nonsense_mediated_decay	KNOWN	None	23	354	117	8814679	8851661	1	None	GABAT
16	ABAT	ENSG00000183044	ENST00000565671	processed_transcript	KNOWN	None	23	None	None	8839859	8854286	1	None	GABAT
16	ABAT	ENSG00000183044	ENST00000564453	retained_intron	KNOWN	None	23	None	None	8859642	8862703	1	None	GABAT
16	ABAT	ENSG00000183044	ENST00000396600	protein_coding	KNOWN	CCDS10534	23	1503	500	8806826	8878432	1	None	GABAT
10	None	ENSG00000271786	ENST00000606425	protein_coding	PUTATIVE	None	None	275	90	18931405	18944123	-1	None	None
10	ARL5B	ENSG00000165997	ENST00000377275	protein_coding	KNOWN	CCDS7131	23052	540	179	18948334	18970568	1	ARL8	None
4	IL8	ENSG00000169429	ENST00000307407	protein_coding	KNOWN	CCDS34005	6025	300	99	74606223	74609433	1	None	SCYB8, LUCT, LECT, MDNCF, TSG-1, CXCL8, IL-8, NAP-1, 3-10C, MONAP, AMCF-I, LYNAP, NAF, b-ENAP, GCP-1, K60, GCP1, NAP1
4	IL8	ENSG00000169429	ENST00000401931	protein_coding	PUTATIVE	None	6025	288	95	74606258	74608047	1	None	SCYB8, LUCT, LECT, MDNCF, TSG-1, CXCL8, IL-8, NAP-1, 3-10C, MONAP, AMCF-I, LYNAP, NAF, b-ENAP, GCP-1, K60, GCP1, NAP1
4	IL8	ENSG00000169429	ENST00000483500	retained_intron	KNOWN	None	6025	None	None	74606286	74607703	1	None	SCYB8, LUCT, LECT, MDNCF, TSG-1, CXCL8, IL-8, NAP-1, 3-10C, MONAP, AMCF-I, LYNAP, NAF, b-ENAP, GCP-1, K60, GCP1, NAP1
X	NXF2B	ENSG00000185945	ENST00000372752	protein_coding	KNOWN	None	23984	1230	409	101615316	101718195	-1	None	bA353J17.1
X	NXF2B	ENSG00000185945	ENST00000372749	protein_coding	KNOWN	CCDS43979	23984	1881	626	101615319	101694853	-1	None	bA353J17.1
X	NXF2B	ENSG00000185945	ENST00000372750	protein_coding	KNOWN	CCDS43979	23984	1881	626	101615319	101718085	-1	None	bA353J17.1
X	NXF2B	ENSG00000185945	ENST00000489531	processed_transcript	KNOWN	None	23984	None	None	101619553	101620747	-1	None	bA353J17.1
X	NXF2B	ENSG00000185945	ENST00000457521	protein_coding	KNOWN	CCDS43979	23984	1881	626	101615316	101726732	-1	None	bA353J17.1
X	NXF2B	ENSG00000185945	ENST00000412230	protein_coding	KNOWN	CCDS43979	23984	1881	626	101615319	101726732	-1	None	bA353J17.1
X	RPGR	ENSG00000156313	ENST00000318842	protein_coding	KNOWN	CCDS14246	10295	2448	815	38128416	38186817	-1	CRD, RP3, RP15, COD1	CORDX1
X	RPGR	ENSG00000156313	ENST00000476559	retained_intron	KNOWN	None	10295	None	None	38128599	38133195	-1	CRD, RP3, RP15, COD1	CORDX1
X	RPGR	ENSG00000156313	ENST00000482855	nonsense_mediated_decay	KNOWN	None	10295	1941	646	38128602	38186675	-1	CRD, RP3, RP15, COD1	CORDX1
X	RPGR	ENSG00000156313	ENST00000474584	nonsense_mediated_decay	KNOWN	None	10295	1443	480	38128773	38186759	-1	CRD, RP3, RP15, COD1	CORDX1
X	RPGR	ENSG00000156313	ENST00000494707	protein_coding	PUTATIVE	None	10295	426	141	38132688	38150718	-1	CRD, RP3, RP15, COD1	CORDX1
X	RPGR	ENSG00000156313	ENST00000378505	protein_coding	KNOWN	CCDS35229	10295	3459	1152	38143662	38186797	-1	CRD, RP3, RP15, COD1	CORDX1
X	RPGR	ENSG00000156313	ENST00000494841	retained_intron	KNOWN	None	10295	None	None	38156561	38164084	-1	CRD, RP3, RP15, COD1	CORDX1
X	RPGR	ENSG00000156313	ENST00000464437	protein_coding	PUTATIVE	None	10295	389	128	38157584	38160624	-1	CRD, RP3, RP15, COD1	CORDX1
X	RPGR	ENSG00000156313	ENST00000470183	retained_intron	KNOWN	None	10295	None	None	38176499	38178243	-1	CRD, RP3, RP15, COD1	CORDX1
X	RPGR	ENSG00000156313	ENST00000339363	protein_coding	KNOWN	None	10295	3063	1020	38128424	38186788	-1	CRD, RP3, RP15, COD1	CORDX1
X	RPGR	ENSG00000156313	ENST00000309513	protein_coding	KNOWN	None	10295	2262	753	38128424	38186788	-1	CRD, RP3, RP15, COD1	CORDX1
X	RPGR	ENSG00000156313	ENST00000342811	protein_coding	KNOWN	None	10295	1941	646	38138423	38186788	-1	CRD, RP3, RP15, COD1	CORDX1
X	RPGR	ENSG00000156313	ENST00000338898	protein_coding	KNOWN	None	10295	1443	480	38128424	38186788	-1	CRD, RP3, RP15, COD1	CORDX1
8	RAD21	ENSG00000164754	ENST00000297338	protein_coding	KNOWN	CCDS6321	9811	1896	631	117858174	117887105	-1	None	KIAA0078, hHR21, SCC1
8	RAD21	ENSG00000164754	ENST00000523986	protein_coding	PUTATIVE	None	9811	408	135	117859144	117864491	-1	None	KIAA0078, hHR21, SCC1
8	RAD21	ENSG00000164754	ENST00000517749	protein_coding	PUTATIVE	None	9811	210	69	117859466	117861722	-1	None	KIAA0078, hHR21, SCC1
8	RAD21	ENSG00000164754	ENST00000518055	protein_coding	PUTATIVE	None	9811	531	176	117859573	117864490	-1	None	KIAA0078, hHR21, SCC1
8	RAD21	ENSG00000164754	ENST00000520992	protein_coding	PUTATIVE	None	9811	684	227	117869510	117886663	-1	None	KIAA0078, hHR21, SCC1
8	RAD21	ENSG00000164754	ENST00000517485	protein_coding	PUTATIVE	None	9811	676	224	117869518	117886767	-1	None	KIAA0078, hHR21, SCC1
8	RAD21	ENSG00000164754	ENST00000523547	processed_transcript	KNOWN	None	9811	None	None	117869528	117886567	-1	None	KIAA0078, hHR21, SCC1
8	RAD21	ENSG00000164754	ENST00000519837	protein_coding	PUTATIVE	None	9811	372	123	117874082	117886599	-1	None	KIAA0078, hHR21, SCC1
8	RAD21	ENSG00000164754	ENST00000522699	protein_coding	PUTATIVE	None	9811	361	119	117874093	117886599	-1	None	KIAA0078, hHR21, SCC1
8	RAD21	ENSG00000164754	ENST00000519469	retained_intron	KNOWN	None	9811	None	None	117875356	117879230	-1	None	KIAA0078, hHR21, SCC1
8	YTHDF3	ENSG00000185728	ENST00000521674	processed_transcript	KNOWN	None	26465	None	None	64081112	64125344	1	None	FLJ31657
8	YTHDF3	ENSG00000185728	ENST00000522282	retained_intron	KNOWN	None	26465	None	None	64081121	64082050	1	None	FLJ31657
8	YTHDF3	ENSG00000185728	ENST00000519428	retained_intron	KNOWN	None	26465	None	None	64081180	64088259	1	None	FLJ31657
8	YTHDF3	ENSG00000185728	ENST00000523455	processed_transcript	KNOWN	None	26465	None	None	64081211	64099121	1	None	FLJ31657
8	YTHDF3	ENSG00000185728	ENST00000517371	protein_coding	PUTATIVE	None	26465	159	52	64081213	64125003	1	None	FLJ31657
8	YTHDF3	ENSG00000185728	ENST00000524135	nonsense_mediated_decay	KNOWN	None	26465	126	41	64081214	64125344	1	None	FLJ31657
8	YTHDF3	ENSG00000185728	ENST00000518763	processed_transcript	KNOWN	None	26465	None	None	64081220	64098755	1	None	FLJ31657
8	YTHDF3	ENSG00000185728	ENST00000518438	processed_transcript	KNOWN	None	26465	None	None	64081246	64099057	1	None	FLJ31657
8	YTHDF3	ENSG00000185728	ENST00000517375	processed_transcript	KNOWN	None	26465	None	None	64081520	64098819	1	None	FLJ31657
8	YTHDF3	ENSG00000185728	ENST00000521547	processed_transcript	KNOWN	None	26465	None	None	64081562	64099029	1	None	FLJ31657
8	YTHDF3	ENSG00000185728	ENST00000520640	processed_transcript	KNOWN	None	26465	None	None	64081562	64122725	1	None	FLJ31657
8	YTHDF3	ENSG00000185728	ENST00000523056	processed_transcript	KNOWN	None	26465	None	None	64081579	64098918	1	None	FLJ31657
8	YTHDF3	ENSG00000185728	ENST00000517303	processed_transcript	KNOWN	None	26465	None	None	64081581	64122663	1	None	FLJ31657
8	YTHDF3	ENSG00000185728	ENST00000518373	protein_coding	PUTATIVE	None	26465	300	99	64100088	64101600	1	None	FLJ31657
8	YTHDF3	ENSG00000185728	ENST00000539294	protein_coding	KNOWN	None	26465	1755	584	64081121	64125346	1	None	FLJ31657
8	YTHDF3	ENSG00000185728	ENST00000542911	protein_coding	KNOWN	None	26465	1188	395	64081214	64125343	1	None	FLJ31657
20	MT1P3	ENSG00000229230	ENST00000421424	processed_pseudogene	KNOWN	None	16120	None	None	33805812	33805988	1	C20orf127, MTL4	dJ614O4.6
20	MT1P3	ENSG00000229230	ENST00000434133	processed_pseudogene	KNOWN	None	16120	None	None	33805812	33805931	1	C20orf127, MTL4	dJ614O4.6
X	ERAS	ENSG00000187682	ENST00000338270	protein_coding	KNOWN	CCDS35246	5174	702	233	48687283	48688548	1	HRAS2, HRASP	None
6	TDP2	ENSG00000111802	ENST00000378198	protein_coding	KNOWN	CCDS4557	17768	1089	362	24650205	24667261	-1	TTRAP	None
6	TDP2	ENSG00000111802	ENST00000341060	protein_coding	KNOWN	None	17768	915	304	24650207	24666819	-1	TTRAP	None
6	TDP2	ENSG00000111802	ENST00000478507	processed_transcript	KNOWN	None	17768	None	None	24651215	24667158	-1	TTRAP	None
6	TDP2	ENSG00000111802	ENST00000478285	processed_transcript	KNOWN	None	17768	None	None	24654606	24659400	-1	TTRAP	None
6	TDP2	ENSG00000111802	ENST00000480495	processed_transcript	KNOWN	None	17768	None	None	24666215	24667014	-1	TTRAP	None
6	TDP2	ENSG00000111802	ENST00000545995	protein_coding	KNOWN	None	17768	1179	392	24650206	24667180	-1	TTRAP	None
X	PCSK1N	ENSG00000102109	ENST00000218230	protein_coding	KNOWN	CCDS14307	17301	783	260	48689504	48694035	-1	None	SAAS
X	PCSK1N	ENSG00000102109	ENST00000476838	processed_transcript	KNOWN	None	17301	None	None	48689506	48693970	-1	None	SAAS
X	PCSK1N	ENSG00000102109	ENST00000478242	processed_transcript	KNOWN	None	17301	None	None	48690673	48693221	-1	None	SAAS
8	None	ENSG00000248235	ENST00000450780	protein_coding	PUTATIVE	None	None	977	324	22446787	22459597	1	None	None
8	None	ENSG00000248235	ENST00000430850	protein_coding	PUTATIVE	None	None	399	132	22446806	22458479	1	None	None
8	None	ENSG00000248235	ENST00000447849	protein_coding	PUTATIVE	None	None	424	140	22446837	22458873	1	None	None
20	None	ENSG00000261582	ENST00000444717	antisense	KNOWN	None	None	None	None	33855688	33867846	-1	None	None
20	FAM83C-AS1	ENSG00000235214	ENST00000429167	antisense	KNOWN	None	16113	None	None	33873054	33873559	1	C20orf120, NCRNA00154	dJ614O4.3
20	MIR1289-1	ENSG00000221763	ENST00000408836	miRNA	KNOWN	None	35281	None	None	34041776	34041919	-1	MIRN1289-1	hsa-mir-1289-1
10	C10orf112	ENSG00000204740	ENST00000377266	protein_coding	NOVEL	None	24331	4461	1486	19492779	20023166	1	None	bA265G8.2
10	C10orf112	ENSG00000204740	ENST00000441070	protein_coding	PUTATIVE	None	24331	774	257	19641097	19780501	1	None	bA265G8.2
10	C10orf112	ENSG00000204740	ENST00000492202	processed_transcript	KNOWN	None	24331	None	None	19777524	19820231	1	None	bA265G8.2
10	C10orf112	ENSG00000204740	ENST00000377265	protein_coding	NOVEL	None	24331	1522	506	19778023	20023405	1	None	bA265G8.2
10	C10orf112	ENSG00000204740	ENST00000480707	processed_transcript	KNOWN	None	24331	None	None	19981239	20079330	1	None	bA265G8.2
10	C10orf112	ENSG00000204740	ENST00000418367	protein_coding	PUTATIVE	None	24331	201	66	20019503	20023407	1	None	bA265G8.2
10	C10orf112	ENSG00000204740	ENST00000454679	protein_coding	KNOWN	None	24331	4422	1473	19493245	20023405	1	None	bA265G8.2
10	C10orf112	ENSG00000204740	ENST00000455457	protein_coding	KNOWN	None	24331	1053	350	19778023	20023405	1	None	bA265G8.2
X	TIMM17B	ENSG00000126768	ENST00000376582	protein_coding	KNOWN	CCDS14308	17310	519	172	48750730	48755426	-1	None	DXS9822, JM3
X	TIMM17B	ENSG00000126768	ENST00000466995	processed_transcript	KNOWN	None	17310	None	None	48750732	48755054	-1	None	DXS9822, JM3
X	TIMM17B	ENSG00000126768	ENST00000495490	processed_transcript	KNOWN	None	17310	None	None	48750736	48755047	-1	None	DXS9822, JM3
X	TIMM17B	ENSG00000126768	ENST00000472645	processed_transcript	KNOWN	None	17310	None	None	48750837	48754511	-1	None	DXS9822, JM3
X	TIMM17B	ENSG00000126768	ENST00000465150	processed_transcript	KNOWN	None	17310	None	None	48750867	48755045	-1	None	DXS9822, JM3
X	TIMM17B	ENSG00000126768	ENST00000490755	processed_transcript	KNOWN	None	17310	None	None	48751283	48755030	-1	None	DXS9822, JM3
X	TIMM17B	ENSG00000126768	ENST00000464663	processed_transcript	KNOWN	None	17310	None	None	48753461	48755051	-1	None	DXS9822, JM3
X	TIMM17B	ENSG00000126768	ENST00000396779	protein_coding	KNOWN	CCDS55411	17310	669	222	48750731	48755426	-1	None	DXS9822, JM3
8	C8orf58	ENSG00000241852	ENST00000409586	protein_coding	KNOWN	CCDS56527	32233	1074	357	22457114	22461646	1	None	FLJ34715
8	C8orf58	ENSG00000241852	ENST00000289989	protein_coding	KNOWN	CCDS34862	32233	1098	365	22457160	22461663	1	None	FLJ34715
8	C8orf58	ENSG00000241852	ENST00000453427	processed_transcript	PUTATIVE	None	32233	None	None	22457338	22458720	1	None	FLJ34715
8	C8orf58	ENSG00000241852	ENST00000475994	protein_coding	PUTATIVE	None	32233	445	147	22459309	22460099	1	None	FLJ34715
8	C8orf58	ENSG00000241852	ENST00000495957	protein_coding	PUTATIVE	None	32233	526	174	22459516	22460441	1	None	FLJ34715
14	DHRS7	ENSG00000100612	ENST00000216500	protein_coding	KNOWN	CCDS9743	21524	1020	339	60610838	60636574	-1	None	retDSR4, SDR34C1
14	DHRS7	ENSG00000100612	ENST00000557751	protein_coding	PUTATIVE	None	21524	638	211	60611524	60619892	-1	None	retDSR4, SDR34C1
14	DHRS7	ENSG00000100612	ENST00000536410	protein_coding	KNOWN	None	21524	870	289	60611524	60636561	-1	None	retDSR4, SDR34C1
14	DHRS7	ENSG00000100612	ENST00000554101	protein_coding	PUTATIVE	None	21524	1199	398	60615666	60632011	-1	None	retDSR4, SDR34C1
14	DHRS7	ENSG00000100612	ENST00000553986	processed_transcript	KNOWN	None	21524	None	None	60616177	60620723	-1	None	retDSR4, SDR34C1
14	DHRS7	ENSG00000100612	ENST00000557137	protein_coding	NOVEL	None	21524	480	159	60616818	60632026	-1	None	retDSR4, SDR34C1
14	DHRS7	ENSG00000100612	ENST00000556502	retained_intron	KNOWN	None	21524	None	None	60619407	60632068	-1	None	retDSR4, SDR34C1
14	DHRS7	ENSG00000100612	ENST00000555171	retained_intron	KNOWN	None	21524	None	None	60622550	60632136	-1	None	retDSR4, SDR34C1
14	DHRS7	ENSG00000100612	ENST00000557326	protein_coding	KNOWN	None	21524	183	60	60622821	60633023	-1	None	retDSR4, SDR34C1
14	DHRS7	ENSG00000100612	ENST00000553328	processed_transcript	PUTATIVE	None	21524	None	None	60632027	60636489	-1	None	retDSR4, SDR34C1
14	DHRS7	ENSG00000100612	ENST00000557185	protein_coding	KNOWN	CCDS9743	21524	1020	339	60611502	60632211	-1	None	retDSR4, SDR34C1
X	PRRG3	ENSG00000130032	ENST00000448726	protein_coding	KNOWN	None	30798	156	51	150863596	150868616	1	None	TMG3
X	PRRG3	ENSG00000130032	ENST00000370354	protein_coding	KNOWN	None	30798	309	102	150863951	150869193	1	None	TMG3
X	PRRG3	ENSG00000130032	ENST00000370353	protein_coding	KNOWN	CCDS14699	30798	696	231	150866779	150874396	1	None	TMG3
X	PRRG3	ENSG00000130032	ENST00000448324	protein_coding	KNOWN	None	30798	276	91	150869023	150873975	1	None	TMG3
X	PRRG3	ENSG00000130032	ENST00000538575	protein_coding	KNOWN	CCDS14699	30798	696	231	150863730	150870063	1	None	TMG3
4	CXCL6	ENSG00000124875	ENST00000226317	protein_coding	KNOWN	CCDS3560	10643	345	114	74702214	74704477	1	SCYB6	GCP-2, CKA-3
4	CXCL6	ENSG00000124875	ENST00000515050	protein_coding	PUTATIVE	None	10643	342	113	74702357	74703123	1	SCYB6	GCP-2, CKA-3
4	CXCL6	ENSG00000124875	ENST00000503446	processed_transcript	PUTATIVE	None	10643	None	None	74702904	74714781	1	SCYB6	GCP-2, CKA-3
20	None	ENSG00000230155	ENST00000453914	antisense	KNOWN	None	None	None	None	34064028	34078808	-1	None	None
20	None	ENSG00000230155	ENST00000444933	antisense	KNOWN	None	None	None	None	34064199	34078743	-1	None	None
20	None	ENSG00000230155	ENST00000416260	antisense	KNOWN	None	None	None	None	34064199	34078745	-1	None	None
20	None	ENSG00000268340	ENST00000599751	lincRNA	KNOWN	None	None	None	None	34106682	34107108	1	None	None
4	GBA3	ENSG00000249948	ENST00000508166	polymorphic_pseudogene	KNOWN	None	19069	1410	469	22694537	22821198	1	None	GLUC, KLrP
4	GBA3	ENSG00000249948	ENST00000503442	polymorphic_pseudogene	KNOWN	None	19069	489	162	22694548	22821198	1	None	GLUC, KLrP
4	GBA3	ENSG00000249948	ENST00000511446	polymorphic_pseudogene	KNOWN	None	19069	897	298	22715712	22821150	1	None	GLUC, KLrP
4	GBA3	ENSG00000249948	ENST00000504802	processed_transcript	KNOWN	None	19069	None	None	22715715	22717119	1	None	GLUC, KLrP
4	GBA3	ENSG00000249948	ENST00000508264	processed_transcript	KNOWN	None	19069	None	None	22756036	22820905	1	None	GLUC, KLrP
15	CHRNA5	ENSG00000169684	ENST00000299565	protein_coding	KNOWN	CCDS10304	1959	1407	468	78857862	78887611	1	None	None
15	CHRNA5	ENSG00000169684	ENST00000559554	protein_coding	PUTATIVE	None	1959	483	160	78857913	78885877	1	None	None
15	CHRNA5	ENSG00000169684	ENST00000394802	protein_coding	PUTATIVE	None	1959	547	181	78873232	78885616	1	None	None
15	CHRNA5	ENSG00000169684	ENST00000559576	protein_coding	PUTATIVE	None	1959	170	55	78882704	78886043	1	None	None
20	None	ENSG00000242507	ENST00000422009	processed_transcript	KNOWN	None	None	None	None	34108680	34116084	-1	None	None
20	None	ENSG00000242507	ENST00000450773	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	34108912	34111001	-1	None	None
20	None	ENSG00000242507	ENST00000432650	processed_transcript	KNOWN	None	None	None	None	34110064	34111087	-1	None	None
20	None	ENSG00000242507	ENST00000419294	unprocessed_pseudogene	KNOWN	None	None	None	None	34108569	34117481	-1	None	None
8	BHLHE22	ENSG00000180828	ENST00000321870	protein_coding	KNOWN	CCDS6179	11963	1146	381	65492814	65496181	1	TNRC20, BHLHB5	CAGL85, Beta3, bHLHe22
8	CYP7B1	ENSG00000172817	ENST00000523954	processed_transcript	KNOWN	None	2652	None	None	65500320	65528371	-1	SPG5A	None
8	CYP7B1	ENSG00000172817	ENST00000310193	protein_coding	KNOWN	CCDS6180	2652	1521	506	65508692	65711318	-1	SPG5A	None
14	CPNE6	ENSG00000100884	ENST00000397016	protein_coding	KNOWN	CCDS9607	2319	1674	557	24540046	24547309	1	None	None
14	CPNE6	ENSG00000100884	ENST00000560356	protein_coding	KNOWN	None	2319	423	140	24540057	24543334	1	None	None
14	CPNE6	ENSG00000100884	ENST00000558450	protein_coding	KNOWN	None	2319	393	130	24540106	24543304	1	None	None
14	CPNE6	ENSG00000100884	ENST00000558995	retained_intron	KNOWN	None	2319	None	None	24540158	24547295	1	None	None
14	CPNE6	ENSG00000100884	ENST00000559778	protein_coding	KNOWN	None	2319	317	104	24540226	24542856	1	None	None
14	CPNE6	ENSG00000100884	ENST00000560761	protein_coding	KNOWN	None	2319	447	148	24540299	24543523	1	None	None
14	CPNE6	ENSG00000100884	ENST00000557889	protein_coding	KNOWN	None	2319	158	51	24540396	24542303	1	None	None
14	CPNE6	ENSG00000100884	ENST00000558541	protein_coding	KNOWN	None	2319	678	225	24540569	24544386	1	None	None
14	CPNE6	ENSG00000100884	ENST00000558859	protein_coding	PUTATIVE	None	2319	78	25	24540731	24543935	1	None	None
14	CPNE6	ENSG00000100884	ENST00000560092	processed_transcript	KNOWN	None	2319	None	None	24540734	24543510	1	None	None
14	CPNE6	ENSG00000100884	ENST00000559197	protein_coding	NOVEL	None	2319	459	152	24540741	24543520	1	None	None
14	CPNE6	ENSG00000100884	ENST00000560828	protein_coding	NOVEL	None	2319	475	157	24540741	24543791	1	None	None
14	CPNE6	ENSG00000100884	ENST00000560884	protein_coding	NOVEL	None	2319	479	158	24540759	24543520	1	None	None
14	CPNE6	ENSG00000100884	ENST00000558795	nonsense_mediated_decay	KNOWN	None	2319	198	65	24540771	24544720	1	None	None
14	CPNE6	ENSG00000100884	ENST00000559207	protein_coding	PUTATIVE	None	2319	332	109	24540790	24544793	1	None	None
14	CPNE6	ENSG00000100884	ENST00000460657	retained_intron	KNOWN	None	2319	None	None	24540798	24547295	1	None	None
14	CPNE6	ENSG00000100884	ENST00000557829	retained_intron	KNOWN	None	2319	None	None	24544767	24547296	1	None	None
14	CPNE6	ENSG00000100884	ENST00000560845	retained_intron	KNOWN	None	2319	None	None	24545040	24546049	1	None	None
14	CPNE6	ENSG00000100884	ENST00000537691	protein_coding	KNOWN	None	2319	1839	612	24540046	24547204	1	None	None
14	CPNE6	ENSG00000100884	ENST00000216775	protein_coding	KNOWN	CCDS9607	2319	1674	557	24540756	24547295	1	None	None
4	PPARGC1A	ENSG00000109819	ENST00000509702	processed_transcript	KNOWN	None	9237	None	None	23756664	23883734	-1	PPARGC1	PGC1, PGC1A
4	PPARGC1A	ENSG00000109819	ENST00000264867	protein_coding	KNOWN	CCDS3429	9237	2397	798	23793644	23891700	-1	PPARGC1	PGC1, PGC1A
4	PPARGC1A	ENSG00000109819	ENST00000506055	nonsense_mediated_decay	KNOWN	None	9237	816	271	23797321	23891655	-1	PPARGC1	PGC1, PGC1A
4	PPARGC1A	ENSG00000109819	ENST00000513205	nonsense_mediated_decay	KNOWN	None	9237	906	301	23815956	23891658	-1	PPARGC1	PGC1, PGC1A
4	PPARGC1A	ENSG00000109819	ENST00000509642	processed_transcript	KNOWN	None	9237	None	None	23816012	23883755	-1	PPARGC1	PGC1, PGC1A
4	PPARGC1A	ENSG00000109819	ENST00000514479	retained_intron	KNOWN	None	9237	None	None	23830113	23831294	-1	PPARGC1	PGC1, PGC1A
4	PPARGC1A	ENSG00000109819	ENST00000508380	processed_transcript	KNOWN	None	9237	None	None	23830185	23883734	-1	PPARGC1	PGC1, PGC1A
4	PPARGC1A	ENSG00000109819	ENST00000512169	processed_transcript	KNOWN	None	9237	None	None	23833152	23883755	-1	PPARGC1	PGC1, PGC1A
4	PPARGC1A	ENSG00000109819	ENST00000507342	processed_transcript	KNOWN	None	9237	None	None	23833330	23900941	-1	PPARGC1	PGC1, PGC1A
4	PPARGC1A	ENSG00000109819	ENST00000515534	processed_transcript	PUTATIVE	None	9237	None	None	23867743	23891652	-1	PPARGC1	PGC1, PGC1A
4	PPARGC1A	ENSG00000109819	ENST00000503714	processed_transcript	PUTATIVE	None	9237	None	None	23877405	23886554	-1	PPARGC1	PGC1, PGC1A
4	PPARGC1A	ENSG00000109819	ENST00000505469	retained_intron	KNOWN	None	9237	None	None	23879319	23883736	-1	PPARGC1	PGC1, PGC1A
4	PPARGC1A	ENSG00000109819	ENST00000514517	processed_transcript	PUTATIVE	None	9237	None	None	23882711	23883726	-1	PPARGC1	PGC1, PGC1A
4	PPARGC1A	ENSG00000109819	ENST00000507380	protein_coding	PUTATIVE	None	9237	300	99	23884302	23891658	-1	PPARGC1	PGC1, PGC1A
4	PPARGC1A	ENSG00000109819	ENST00000514494	retained_intron	KNOWN	None	9237	None	None	23886122	23905712	-1	PPARGC1	PGC1, PGC1A
15	BUB1B	ENSG00000156970	ENST00000560120	processed_transcript	KNOWN	None	1149	None	None	40453224	40468822	1	None	BUBR1, MAD3L, Bub1A, SSK1
15	BUB1B	ENSG00000156970	ENST00000287598	protein_coding	KNOWN	CCDS10053	1149	3153	1050	40453227	40513337	1	None	BUBR1, MAD3L, Bub1A, SSK1
15	BUB1B	ENSG00000156970	ENST00000559414	processed_transcript	KNOWN	None	1149	None	None	40453244	40468751	1	None	BUBR1, MAD3L, Bub1A, SSK1
15	BUB1B	ENSG00000156970	ENST00000558715	nonsense_mediated_decay	KNOWN	None	1149	291	96	40453268	40462800	1	None	BUBR1, MAD3L, Bub1A, SSK1
15	BUB1B	ENSG00000156970	ENST00000412359	protein_coding	KNOWN	None	1149	3195	1064	40453268	40513239	1	None	BUBR1, MAD3L, Bub1A, SSK1
15	BUB1B	ENSG00000156970	ENST00000559733	nonsense_mediated_decay	KNOWN	None	1149	199	65	40475915	40494835	1	None	BUBR1, MAD3L, Bub1A, SSK1
15	BUB1B	ENSG00000156970	ENST00000559461	retained_intron	KNOWN	None	1149	None	None	40475925	40477682	1	None	BUBR1, MAD3L, Bub1A, SSK1
15	BUB1B	ENSG00000156970	ENST00000557848	retained_intron	KNOWN	None	1149	None	None	40477527	40488935	1	None	BUBR1, MAD3L, Bub1A, SSK1
15	BUB1B	ENSG00000156970	ENST00000559772	retained_intron	KNOWN	None	1149	None	None	40477673	40492490	1	None	BUBR1, MAD3L, Bub1A, SSK1
15	BUB1B	ENSG00000156970	ENST00000558972	retained_intron	KNOWN	None	1149	None	None	40492239	40498475	1	None	BUBR1, MAD3L, Bub1A, SSK1
15	BUB1B	ENSG00000156970	ENST00000558151	retained_intron	KNOWN	None	1149	None	None	40509618	40512845	1	None	BUBR1, MAD3L, Bub1A, SSK1
9	CNTNAP3	ENSG00000106714	ENST00000297668	protein_coding	KNOWN	CCDS6616	13834	3867	1288	39072764	39288135	-1	None	CASPR3, KIAA1714, FLJ14195, CNTNAP3A
9	CNTNAP3	ENSG00000106714	ENST00000493965	processed_transcript	KNOWN	None	13834	None	None	39073671	39088470	-1	None	CASPR3, KIAA1714, FLJ14195, CNTNAP3A
9	CNTNAP3	ENSG00000106714	ENST00000477002	processed_transcript	KNOWN	None	13834	None	None	39078815	39086145	-1	None	CASPR3, KIAA1714, FLJ14195, CNTNAP3A
9	CNTNAP3	ENSG00000106714	ENST00000358144	protein_coding	KNOWN	None	13834	3120	1039	39084974	39239171	-1	None	CASPR3, KIAA1714, FLJ14195, CNTNAP3A
9	CNTNAP3	ENSG00000106714	ENST00000483502	processed_transcript	KNOWN	None	13834	None	None	39099812	39103911	-1	None	CASPR3, KIAA1714, FLJ14195, CNTNAP3A
9	CNTNAP3	ENSG00000106714	ENST00000448573	processed_transcript	KNOWN	None	13834	None	None	39103676	39140573	-1	None	CASPR3, KIAA1714, FLJ14195, CNTNAP3A
9	CNTNAP3	ENSG00000106714	ENST00000443583	nonsense_mediated_decay	KNOWN	None	13834	1815	604	39103678	39288312	-1	None	CASPR3, KIAA1714, FLJ14195, CNTNAP3A
9	CNTNAP3	ENSG00000106714	ENST00000495573	processed_transcript	KNOWN	None	13834	None	None	39103688	39109284	-1	None	CASPR3, KIAA1714, FLJ14195, CNTNAP3A
9	CNTNAP3	ENSG00000106714	ENST00000377659	protein_coding	KNOWN	None	13834	2238	745	39117924	39288300	-1	None	CASPR3, KIAA1714, FLJ14195, CNTNAP3A
9	CNTNAP3	ENSG00000106714	ENST00000469061	processed_transcript	KNOWN	None	13834	None	None	39139747	39140614	-1	None	CASPR3, KIAA1714, FLJ14195, CNTNAP3A
9	CNTNAP3	ENSG00000106714	ENST00000377653	processed_transcript	KNOWN	None	13834	None	None	39172783	39267003	-1	None	CASPR3, KIAA1714, FLJ14195, CNTNAP3A
9	CNTNAP3	ENSG00000106714	ENST00000377656	protein_coding	KNOWN	None	13834	3624	1207	39073734	39288205	-1	None	CASPR3, KIAA1714, FLJ14195, CNTNAP3A
9	CNTNAP3	ENSG00000106714	ENST00000323947	protein_coding	KNOWN	None	13834	1959	652	39117920	39288092	-1	None	CASPR3, KIAA1714, FLJ14195, CNTNAP3A
9	AKNA	ENSG00000106948	ENST00000374088	protein_coding	KNOWN	CCDS6805	24108	4320	1439	117098407	117150243	-1	None	KIAA1968
9	AKNA	ENSG00000106948	ENST00000492875	processed_transcript	KNOWN	None	24108	None	None	117098411	117109054	-1	None	KIAA1968
9	AKNA	ENSG00000106948	ENST00000223791	protein_coding	KNOWN	None	24108	2700	899	117098445	117139244	-1	None	KIAA1968
9	AKNA	ENSG00000106948	ENST00000374075	protein_coding	KNOWN	None	24108	4077	1358	117098445	117139915	-1	None	KIAA1968
9	AKNA	ENSG00000106948	ENST00000491133	processed_transcript	KNOWN	None	24108	None	None	117110053	117111279	-1	None	KIAA1968
9	AKNA	ENSG00000106948	ENST00000490767	processed_transcript	KNOWN	None	24108	None	None	117118406	117120617	-1	None	KIAA1968
9	AKNA	ENSG00000106948	ENST00000312033	protein_coding	KNOWN	None	24108	2496	831	117121367	117150361	-1	None	KIAA1968
9	AKNA	ENSG00000106948	ENST00000307564	protein_coding	KNOWN	CCDS6805	24108	4320	1439	117096436	117156685	-1	None	KIAA1968
9	AKNA	ENSG00000106948	ENST00000374079	protein_coding	KNOWN	None	24108	1155	384	117096436	117111222	-1	None	KIAA1968
X	FATE1	ENSG00000147378	ENST00000370350	protein_coding	KNOWN	CCDS14700	24683	552	183	150884507	150891666	1	None	FATE, CT43
X	FATE1	ENSG00000147378	ENST00000417321	protein_coding	NOVEL	None	24683	243	80	150884616	150891260	1	None	FATE, CT43
4	PF4V1	ENSG00000109272	ENST00000226524	protein_coding	KNOWN	CCDS3561	8862	315	104	74718906	74719872	1	None	SCYB4V1, CXCL4V1, CXCL4L1
4	CXCL1	ENSG00000163739	ENST00000509101	processed_transcript	PUTATIVE	None	4602	None	None	74735110	74735894	1	MGSA, GRO1, FSP	SCYB1, GROa, MGSA-a, NAP-3
4	CXCL1	ENSG00000163739	ENST00000395761	protein_coding	KNOWN	CCDS47074	4602	324	107	74735121	74736959	1	MGSA, GRO1, FSP	SCYB1, GROa, MGSA-a, NAP-3
20	RPL36P4	ENSG00000224497	ENST00000456725	processed_pseudogene	KNOWN	None	16569	None	None	34132175	34132492	-1	None	dJ477O4.3
14	PPM1A	ENSG00000100614	ENST00000325642	protein_coding	KNOWN	CCDS45120	9275	1368	455	60712470	60759449	1	None	MGC9201, PP2Calpha, PP2CA
14	PPM1A	ENSG00000100614	ENST00000531143	nonsense_mediated_decay	KNOWN	None	9275	282	93	60712475	60759200	1	None	MGC9201, PP2Calpha, PP2CA
14	PPM1A	ENSG00000100614	ENST00000532036	nonsense_mediated_decay	KNOWN	None	9275	495	164	60712503	60760073	1	None	MGC9201, PP2Calpha, PP2CA
14	PPM1A	ENSG00000100614	ENST00000395076	protein_coding	KNOWN	CCDS9744	9275	1149	382	60715986	60765805	1	None	MGC9201, PP2Calpha, PP2CA
14	PPM1A	ENSG00000100614	ENST00000325658	protein_coding	KNOWN	CCDS9745	9275	975	324	60716159	60755273	1	None	MGC9201, PP2Calpha, PP2CA
14	PPM1A	ENSG00000100614	ENST00000528241	protein_coding	KNOWN	None	9275	386	127	60716378	60749807	1	None	MGC9201, PP2Calpha, PP2CA
14	PPM1A	ENSG00000100614	ENST00000525399	protein_coding	KNOWN	None	9275	563	186	60717149	60749984	1	None	MGC9201, PP2Calpha, PP2CA
14	PPM1A	ENSG00000100614	ENST00000531937	protein_coding	KNOWN	None	9275	444	147	60723480	60749865	1	None	MGC9201, PP2Calpha, PP2CA
14	PPM1A	ENSG00000100614	ENST00000529574	protein_coding	KNOWN	CCDS9744	9275	1149	382	60712475	60759200	1	None	MGC9201, PP2Calpha, PP2CA
15	CHRNA3	ENSG00000080644	ENST00000559002	processed_transcript	KNOWN	None	1957	None	None	78885394	78889074	-1	None	None
15	CHRNA3	ENSG00000080644	ENST00000559658	nonsense_mediated_decay	KNOWN	CCDS10305	1957	1518	505	78885394	78913205	-1	None	None
15	CHRNA3	ENSG00000080644	ENST00000348639	protein_coding	KNOWN	CCDS53964	1957	1470	489	78885394	78913637	-1	None	None
15	CHRNA3	ENSG00000080644	ENST00000326828	protein_coding	KNOWN	CCDS10305	1957	1518	505	78887647	78913521	-1	None	None
15	CHRNA3	ENSG00000080644	ENST00000558903	processed_transcript	PUTATIVE	None	1957	None	None	78894118	78899866	-1	None	None
15	CHRNA3	ENSG00000080644	ENST00000561128	retained_intron	KNOWN	None	1957	None	None	78910722	78913131	-1	None	None
15	CHRNA3	ENSG00000080644	ENST00000559080	protein_coding	PUTATIVE	None	1957	53	16	78910972	78911620	-1	None	None
15	CHRNA3	ENSG00000080644	ENST00000559941	processed_transcript	PUTATIVE	None	1957	None	None	78911191	78912603	-1	None	None
15	EPB42	ENSG00000166947	ENST00000570199	processed_transcript	KNOWN	None	3381	None	None	43398423	43472136	-1	None	PA, MGC116735, MGC116737
15	EPB42	ENSG00000166947	ENST00000563128	processed_transcript	KNOWN	None	3381	None	None	43471991	43498679	-1	None	PA, MGC116735, MGC116737
15	EPB42	ENSG00000166947	ENST00000300215	protein_coding	KNOWN	CCDS10093	3381	2166	721	43487571	43513481	-1	None	PA, MGC116735, MGC116737
15	EPB42	ENSG00000166947	ENST00000540029	protein_coding	NOVEL	None	3381	1842	613	43489428	43513207	-1	None	PA, MGC116735, MGC116737
15	EPB42	ENSG00000166947	ENST00000441366	protein_coding	KNOWN	CCDS45249	3381	2076	691	43489428	43513249	-1	None	PA, MGC116735, MGC116737
15	EPB42	ENSG00000166947	ENST00000568508	protein_coding	NOVEL	None	3381	1632	543	43489461	43508520	-1	None	PA, MGC116735, MGC116737
15	EPB42	ENSG00000166947	ENST00000567019	retained_intron	KNOWN	None	3381	None	None	43489463	43501818	-1	None	PA, MGC116735, MGC116737
15	EPB42	ENSG00000166947	ENST00000565459	protein_coding	PUTATIVE	None	3381	442	146	43498190	43499437	-1	None	PA, MGC116735, MGC116737
15	EPB42	ENSG00000166947	ENST00000569204	protein_coding	NOVEL	None	3381	574	190	43500488	43507386	-1	None	PA, MGC116735, MGC116737
20	FER1L4	ENSG00000088340	ENST00000434828	retained_intron	KNOWN	None	15801	None	None	34146507	34152457	-1	C20orf124	bA563A22B.1, dJ309K20.1
20	FER1L4	ENSG00000088340	ENST00000262870	retained_intron	KNOWN	None	15801	None	None	34146507	34166852	-1	C20orf124	bA563A22B.1, dJ309K20.1
20	FER1L4	ENSG00000088340	ENST00000400461	retained_intron	KNOWN	None	15801	None	None	34146507	34187594	-1	C20orf124	bA563A22B.1, dJ309K20.1
20	FER1L4	ENSG00000088340	ENST00000411519	retained_intron	KNOWN	None	15801	None	None	34146512	34170537	-1	C20orf124	bA563A22B.1, dJ309K20.1
20	FER1L4	ENSG00000088340	ENST00000400465	retained_intron	KNOWN	None	15801	None	None	34146514	34171889	-1	C20orf124	bA563A22B.1, dJ309K20.1
20	FER1L4	ENSG00000088340	ENST00000431615	unitary_pseudogene	KNOWN	None	15801	None	None	34146636	34195416	-1	C20orf124	bA563A22B.1, dJ309K20.1
20	FER1L4	ENSG00000088340	ENST00000440443	processed_transcript	KNOWN	None	15801	None	None	34164098	34167183	-1	C20orf124	bA563A22B.1, dJ309K20.1
20	FER1L4	ENSG00000088340	ENST00000452272	retained_intron	KNOWN	None	15801	None	None	34164152	34164508	-1	C20orf124	bA563A22B.1, dJ309K20.1
20	FER1L4	ENSG00000088340	ENST00000430275	processed_transcript	KNOWN	None	15801	None	None	34170041	34195484	-1	C20orf124	bA563A22B.1, dJ309K20.1
20	FER1L4	ENSG00000088340	ENST00000412452	retained_intron	KNOWN	None	15801	None	None	34187633	34188696	-1	C20orf124	bA563A22B.1, dJ309K20.1
20	FER1L4	ENSG00000088340	ENST00000325076	retained_intron	KNOWN	None	15801	None	None	34188621	34193248	-1	C20orf124	bA563A22B.1, dJ309K20.1
20	FER1L4	ENSG00000088340	ENST00000434843	retained_intron	KNOWN	None	15801	None	None	34191026	34194462	-1	C20orf124	bA563A22B.1, dJ309K20.1
20	FER1L4	ENSG00000088340	ENST00000426117	processed_transcript	KNOWN	None	15801	None	None	34191843	34195451	-1	C20orf124	bA563A22B.1, dJ309K20.1
10	PLXDC2	ENSG00000120594	ENST00000377252	protein_coding	KNOWN	CCDS7132	21013	1590	529	20105168	20569286	1	None	TEM7R, FLJ14623
10	PLXDC2	ENSG00000120594	ENST00000377242	protein_coding	KNOWN	None	21013	1443	480	20105168	20569286	1	None	TEM7R, FLJ14623
10	PLXDC2	ENSG00000120594	ENST00000377238	processed_transcript	KNOWN	None	21013	None	None	20332249	20569286	1	None	TEM7R, FLJ14623
8	ARMC1	ENSG00000104442	ENST00000276569	protein_coding	KNOWN	CCDS6181	17684	849	282	66514694	66546442	-1	None	FLJ10511, Arcp
8	ARMC1	ENSG00000104442	ENST00000528721	nonsense_mediated_decay	KNOWN	None	17684	309	102	66516610	66546406	-1	None	FLJ10511, Arcp
8	ARMC1	ENSG00000104442	ENST00000518908	protein_coding	PUTATIVE	None	17684	571	189	66517668	66546397	-1	None	FLJ10511, Arcp
8	ARMC1	ENSG00000104442	ENST00000519352	protein_coding	PUTATIVE	None	17684	371	122	66525573	66546412	-1	None	FLJ10511, Arcp
8	ARMC1	ENSG00000104442	ENST00000523384	processed_transcript	KNOWN	None	17684	None	None	66525573	66546425	-1	None	FLJ10511, Arcp
8	ARMC1	ENSG00000104442	ENST00000458464	protein_coding	KNOWN	None	17684	543	180	66516610	66546406	-1	None	FLJ10511, Arcp
X	CNGA2	ENSG00000183862	ENST00000329903	protein_coding	KNOWN	CCDS14701	2149	1995	664	150906923	150913776	1	CNCA1, CNCA	CNG2, OCNC1, OCNCa, OCNCALPHA, OCNCalpha, FLJ46312
4	PF4	ENSG00000163737	ENST00000296029	protein_coding	KNOWN	CCDS3562	8861	306	101	74846794	74847841	-1	None	SCYB4, CXCL4
4	PPBP	ENSG00000163736	ENST00000296028	protein_coding	KNOWN	CCDS3563	9240	387	128	74852755	74853914	-1	THBGB1	SCYB7, TGB, NAP-2-L1, LA-PF4, MDGF, LDGF, Beta-TG, CTAP3, CXCL7, PBP, b-TG1, TGB1, CTAPIII, NAP-2
X	TCP11X2	ENSG00000215029	ENST00000429905	nonsense_mediated_decay	KNOWN	None	48335	369	122	101629549	101726732	-1	None	None
X	TCP11X2	ENSG00000215029	ENST00000453326	protein_coding	KNOWN	CCDS59530	48335	1224	407	101715240	101726732	-1	None	None
X	TCP11X2	ENSG00000215029	ENST00000462555	retained_intron	KNOWN	None	48335	None	None	101717912	101718425	-1	None	None
HSCHR6_MHC_COX	LY6G6F	ENSG00000240008	ENST00000447811	protein_coding	KNOWN	None	13933	894	297	31662077	31665787	1	LY6G6D, C6orf21	G6f, NG32
X	TMSB15A	ENSG00000158164	ENST00000289373	protein_coding	KNOWN	CCDS14498	30744	138	45	101768604	101771712	-1	TMSL8	TMSNB
4	IL15	ENSG00000164136	ENST00000320650	protein_coding	KNOWN	CCDS3755	5977	489	162	142557752	142654588	1	None	IL-15, MGC9721
4	IL15	ENSG00000164136	ENST00000296545	protein_coding	KNOWN	CCDS3755	5977	489	162	142557755	142655140	1	None	IL-15, MGC9721
4	IL15	ENSG00000164136	ENST00000514653	protein_coding	KNOWN	CCDS3756	5977	408	135	142557879	142654335	1	None	IL-15, MGC9721
4	IL15	ENSG00000164136	ENST00000529613	protein_coding	KNOWN	CCDS3755	5977	489	162	142558100	142654276	1	None	IL-15, MGC9721
4	IL15	ENSG00000164136	ENST00000477265	protein_coding	KNOWN	CCDS3756	5977	408	135	142635810	142654611	1	None	IL-15, MGC9721
4	IL15	ENSG00000164136	ENST00000505351	retained_intron	KNOWN	None	5977	None	None	142640284	142641920	1	None	IL-15, MGC9721
4	IL15	ENSG00000164136	ENST00000509249	retained_intron	KNOWN	None	5977	None	None	142642935	142649137	1	None	IL-15, MGC9721
4	IL15	ENSG00000164136	ENST00000394159	protein_coding	KNOWN	CCDS3756	5977	408	135	142642302	142654611	1	None	IL-15, MGC9721
X	MAGEA4	ENSG00000147381	ENST00000431963	protein_coding	KNOWN	None	6802	515	170	151080981	151092651	1	MAGE4	MAGE4A, MAGE4B, MAGE-41, MAGE-X2, MGC21336, CT1.4
X	MAGEA4	ENSG00000147381	ENST00000448295	protein_coding	KNOWN	None	6802	651	216	151081935	151092787	1	MAGE4	MAGE4A, MAGE4B, MAGE-41, MAGE-X2, MGC21336, CT1.4
X	MAGEA4	ENSG00000147381	ENST00000430273	protein_coding	KNOWN	None	6802	724	240	151082624	151092860	1	MAGE4	MAGE4A, MAGE4B, MAGE-41, MAGE-X2, MGC21336, CT1.4
X	MAGEA4	ENSG00000147381	ENST00000441865	protein_coding	KNOWN	None	6802	724	240	151083302	151092860	1	MAGE4	MAGE4A, MAGE4B, MAGE-41, MAGE-X2, MGC21336, CT1.4
X	MAGEA4	ENSG00000147381	ENST00000370340	protein_coding	KNOWN	CCDS14702	6802	954	317	151083980	151093642	1	MAGE4	MAGE4A, MAGE4B, MAGE-41, MAGE-X2, MGC21336, CT1.4
X	MAGEA4	ENSG00000147381	ENST00000425182	protein_coding	KNOWN	None	6802	651	216	151084667	151092787	1	MAGE4	MAGE4A, MAGE4B, MAGE-41, MAGE-X2, MGC21336, CT1.4
X	MAGEA4	ENSG00000147381	ENST00000416020	protein_coding	KNOWN	None	6802	691	229	151084667	151092827	1	MAGE4	MAGE4A, MAGE4B, MAGE-41, MAGE-X2, MGC21336, CT1.4
X	MAGEA4	ENSG00000147381	ENST00000457310	protein_coding	KNOWN	None	6802	724	240	151085346	151092860	1	MAGE4	MAGE4A, MAGE4B, MAGE-41, MAGE-X2, MGC21336, CT1.4
X	MAGEA4	ENSG00000147381	ENST00000370335	protein_coding	KNOWN	CCDS14702	6802	954	317	151086024	151093642	1	MAGE4	MAGE4A, MAGE4B, MAGE-41, MAGE-X2, MGC21336, CT1.4
X	MAGEA4	ENSG00000147381	ENST00000360243	protein_coding	KNOWN	CCDS14702	6802	954	317	151086699	151093642	1	MAGE4	MAGE4A, MAGE4B, MAGE-41, MAGE-X2, MGC21336, CT1.4
X	MAGEA4	ENSG00000147381	ENST00000431971	protein_coding	KNOWN	None	6802	724	240	151087374	151092860	1	MAGE4	MAGE4A, MAGE4B, MAGE-41, MAGE-X2, MGC21336, CT1.4
X	MAGEA4	ENSG00000147381	ENST00000276344	protein_coding	KNOWN	CCDS14702	6802	954	317	151081361	151093642	1	MAGE4	MAGE4A, MAGE4B, MAGE-41, MAGE-X2, MGC21336, CT1.4
X	MAGEA4	ENSG00000147381	ENST00000393921	protein_coding	KNOWN	CCDS14702	6802	954	317	151081977	151093642	1	MAGE4	MAGE4A, MAGE4B, MAGE-41, MAGE-X2, MGC21336, CT1.4
X	MAGEA4	ENSG00000147381	ENST00000370337	protein_coding	KNOWN	CCDS14702	6802	954	317	151082665	151093642	1	MAGE4	MAGE4A, MAGE4B, MAGE-41, MAGE-X2, MGC21336, CT1.4
X	MAGEA4	ENSG00000147381	ENST00000393920	protein_coding	KNOWN	CCDS14702	6802	954	317	151083353	151093642	1	MAGE4	MAGE4A, MAGE4B, MAGE-41, MAGE-X2, MGC21336, CT1.4
6	ACOT13	ENSG00000112304	ENST00000230048	protein_coding	KNOWN	CCDS4558	20999	423	140	24667299	24705274	1	THEM2	HT012
6	ACOT13	ENSG00000112304	ENST00000476436	processed_transcript	KNOWN	None	20999	None	None	24687630	24701942	1	THEM2	HT012
6	ACOT13	ENSG00000112304	ENST00000537591	protein_coding	KNOWN	CCDS54972	20999	354	117	24667263	24705293	1	THEM2	HT012
X	ARMCX5	ENSG00000125962	ENST00000246174	protein_coding	KNOWN	CCDS14500	25772	1677	558	101854096	101859087	1	None	FLJ12969
X	ARMCX5	ENSG00000125962	ENST00000473968	protein_coding	KNOWN	None	25772	23	6	101854438	101857092	1	None	FLJ12969
X	ARMCX5	ENSG00000125962	ENST00000604957	protein_coding	KNOWN	CCDS14500	25772	1677	558	101854448	101859087	1	None	FLJ12969
X	ARMCX5	ENSG00000125962	ENST00000477663	protein_coding	KNOWN	None	25772	213	70	101854450	101857282	1	None	FLJ12969
X	ARMCX5	ENSG00000125962	ENST00000479502	protein_coding	KNOWN	None	25772	204	67	101854466	101857273	1	None	FLJ12969
X	ARMCX5	ENSG00000125962	ENST00000372742	protein_coding	KNOWN	CCDS14500	25772	1677	558	101856065	101859081	1	None	FLJ12969
X	ARMCX5	ENSG00000125962	ENST00000537008	protein_coding	KNOWN	CCDS14500	25772	1677	558	101854096	101859083	1	None	FLJ12969
X	ARMCX5	ENSG00000125962	ENST00000541409	protein_coding	KNOWN	CCDS14500	25772	1677	558	101854096	101859083	1	None	FLJ12969
X	ARMCX5	ENSG00000125962	ENST00000536530	protein_coding	KNOWN	CCDS14500	25772	1677	558	101854426	101859083	1	None	FLJ12969
X	PQBP1	ENSG00000102103	ENST00000447146	protein_coding	KNOWN	CCDS14309	9330	798	265	48755214	48760413	1	RENS1, MRXS8, SHS, MRX55	None
X	PQBP1	ENSG00000102103	ENST00000473764	processed_transcript	KNOWN	None	9330	None	None	48755221	48760419	1	RENS1, MRXS8, SHS, MRX55	None
X	PQBP1	ENSG00000102103	ENST00000247140	protein_coding	KNOWN	CCDS55412	9330	513	170	48755223	48760419	1	RENS1, MRXS8, SHS, MRX55	None
X	PQBP1	ENSG00000102103	ENST00000472742	processed_transcript	KNOWN	None	9330	None	None	48755226	48760070	1	RENS1, MRXS8, SHS, MRX55	None
X	PQBP1	ENSG00000102103	ENST00000486150	processed_transcript	KNOWN	None	9330	None	None	48755229	48758883	1	RENS1, MRXS8, SHS, MRX55	None
X	PQBP1	ENSG00000102103	ENST00000477997	processed_transcript	KNOWN	None	9330	None	None	48755235	48760420	1	RENS1, MRXS8, SHS, MRX55	None
X	PQBP1	ENSG00000102103	ENST00000470062	processed_transcript	KNOWN	None	9330	None	None	48755279	48760375	1	RENS1, MRXS8, SHS, MRX55	None
X	PQBP1	ENSG00000102103	ENST00000474671	processed_transcript	KNOWN	None	9330	None	None	48755324	48760420	1	RENS1, MRXS8, SHS, MRX55	None
X	PQBP1	ENSG00000102103	ENST00000443648	protein_coding	KNOWN	None	9330	639	212	48755543	48760070	1	RENS1, MRXS8, SHS, MRX55	None
X	PQBP1	ENSG00000102103	ENST00000456306	protein_coding	KNOWN	None	9330	451	149	48755601	48760333	1	RENS1, MRXS8, SHS, MRX55	None
X	PQBP1	ENSG00000102103	ENST00000463529	processed_transcript	KNOWN	None	9330	None	None	48755793	48760361	1	RENS1, MRXS8, SHS, MRX55	None
X	PQBP1	ENSG00000102103	ENST00000470059	processed_transcript	KNOWN	None	9330	None	None	48755793	48760361	1	RENS1, MRXS8, SHS, MRX55	None
X	PQBP1	ENSG00000102103	ENST00000465859	processed_transcript	KNOWN	None	9330	None	None	48755793	48760361	1	RENS1, MRXS8, SHS, MRX55	None
X	PQBP1	ENSG00000102103	ENST00000376563	protein_coding	KNOWN	CCDS14309	9330	798	265	48755195	48760419	1	RENS1, MRXS8, SHS, MRX55	None
X	PQBP1	ENSG00000102103	ENST00000376566	protein_coding	KNOWN	CCDS55412	9330	513	170	48755195	48760419	1	RENS1, MRXS8, SHS, MRX55	None
X	PQBP1	ENSG00000102103	ENST00000218224	protein_coding	KNOWN	CCDS14309	9330	798	265	48755539	48760419	1	RENS1, MRXS8, SHS, MRX55	None
X	PQBP1	ENSG00000102103	ENST00000396763	protein_coding	KNOWN	CCDS14309	9330	798	265	48755539	48760419	1	RENS1, MRXS8, SHS, MRX55	None
X	PQBP1	ENSG00000102103	ENST00000376548	protein_coding	KNOWN	None	9330	204	67	48755214	48758820	1	RENS1, MRXS8, SHS, MRX55	None
4	CXCL5	ENSG00000163735	ENST00000296027	protein_coding	KNOWN	CCDS34006	10642	345	114	74861359	74864496	-1	SCYB5	ENA-78
4	CXCL3	ENSG00000163734	ENST00000296026	protein_coding	KNOWN	CCDS34007	4604	324	107	74902306	74904406	-1	GRO3	SCYB3, GROg, MIP-2b, CINC-2b
4	CXCL3	ENSG00000163734	ENST00000511669	processed_transcript	PUTATIVE	None	4604	None	None	74902786	74904524	-1	GRO3	SCYB3, GROg, MIP-2b, CINC-2b
4	CXCL3	ENSG00000163734	ENST00000502974	processed_transcript	PUTATIVE	None	4604	None	None	74902849	74904406	-1	GRO3	SCYB3, GROg, MIP-2b, CINC-2b
4	CXCL3	ENSG00000163734	ENST00000510390	processed_transcript	PUTATIVE	None	4604	None	None	74903373	74904367	-1	GRO3	SCYB3, GROg, MIP-2b, CINC-2b
19	GNA11	ENSG00000088256	ENST00000078429	protein_coding	KNOWN	CCDS12103	4379	1080	359	3094408	3124002	1	None	None
19	GNA11	ENSG00000088256	ENST00000586763	processed_transcript	KNOWN	None	4379	None	None	3094647	3115001	1	None	None
19	GNA11	ENSG00000088256	ENST00000587636	protein_coding	PUTATIVE	None	4379	710	235	3113461	3121455	1	None	None
19	GNA11	ENSG00000088256	ENST00000588401	processed_transcript	KNOWN	None	4379	None	None	3114945	3115426	1	None	None
19	GNA11	ENSG00000088256	ENST00000590534	retained_intron	KNOWN	None	4379	None	None	3117148	3121452	1	None	None
19	GNA11	ENSG00000088256	ENST00000586180	processed_transcript	KNOWN	None	4379	None	None	3118694	3121317	1	None	None
19	GNA11	ENSG00000088256	ENST00000591301	retained_intron	KNOWN	None	4379	None	None	3118811	3119351	1	None	None
14	C14orf39	ENSG00000179008	ENST00000498565	nonsense_mediated_decay	KNOWN	None	19849	218	71	60863187	60921768	-1	None	SIX6OS1
14	C14orf39	ENSG00000179008	ENST00000321731	protein_coding	KNOWN	CCDS9746	19849	1764	587	60902674	60952814	-1	None	SIX6OS1
14	C14orf39	ENSG00000179008	ENST00000557138	nonsense_mediated_decay	KNOWN	None	19849	114	37	60903341	60952737	-1	None	SIX6OS1
14	C14orf39	ENSG00000179008	ENST00000555476	protein_coding	PUTATIVE	None	19849	344	113	60938350	60952762	-1	None	SIX6OS1
14	C14orf39	ENSG00000179008	ENST00000556799	protein_coding	KNOWN	None	19849	266	87	60945075	60982261	-1	None	SIX6OS1
15	CHRNB4	ENSG00000117971	ENST00000261751	protein_coding	KNOWN	CCDS10306	1964	1497	498	78916461	78933587	-1	None	None
15	CHRNB4	ENSG00000117971	ENST00000412074	protein_coding	PUTATIVE	CCDS58392	1964	696	231	78916750	78933587	-1	None	None
15	CHRNB4	ENSG00000117971	ENST00000559849	nonsense_mediated_decay	KNOWN	None	1964	201	66	78921695	78952874	-1	None	None
15	CHRNB4	ENSG00000117971	ENST00000560511	processed_transcript	KNOWN	None	1964	None	None	78923404	79012628	-1	None	None
15	CHRNB4	ENSG00000117971	ENST00000560868	processed_transcript	KNOWN	None	1964	None	None	78979260	79000394	-1	None	None
15	CHRNB4	ENSG00000117971	ENST00000558216	processed_transcript	KNOWN	None	1964	None	None	78984920	79020096	-1	None	None
8	KIAA1967	ENSG00000158941	ENST00000308511	protein_coding	KNOWN	CCDS34863	23360	2772	923	22462145	22479027	1	KIAA1967	DBC-1, DBC1, NET35
8	KIAA1967	ENSG00000158941	ENST00000523801	protein_coding	PUTATIVE	None	23360	549	182	22462276	22465521	1	KIAA1967	DBC-1, DBC1, NET35
8	KIAA1967	ENSG00000158941	ENST00000521301	protein_coding	PUTATIVE	None	23360	246	81	22462304	22464216	1	KIAA1967	DBC-1, DBC1, NET35
8	KIAA1967	ENSG00000158941	ENST00000389279	protein_coding	KNOWN	CCDS34863	23360	2772	923	22462551	22477984	1	KIAA1967	DBC-1, DBC1, NET35
8	KIAA1967	ENSG00000158941	ENST00000521837	protein_coding	PUTATIVE	None	23360	451	149	22463013	22464802	1	KIAA1967	DBC-1, DBC1, NET35
8	KIAA1967	ENSG00000158941	ENST00000523349	protein_coding	PUTATIVE	None	23360	487	161	22463232	22464838	1	KIAA1967	DBC-1, DBC1, NET35
8	KIAA1967	ENSG00000158941	ENST00000518989	protein_coding	PUTATIVE	None	23360	445	147	22464113	22465590	1	KIAA1967	DBC-1, DBC1, NET35
8	KIAA1967	ENSG00000158941	ENST00000520861	protein_coding	PUTATIVE	None	23360	1797	598	22464421	22477981	1	KIAA1967	DBC-1, DBC1, NET35
8	KIAA1967	ENSG00000158941	ENST00000522599	protein_coding	PUTATIVE	None	23360	831	276	22470216	22473109	1	KIAA1967	DBC-1, DBC1, NET35
8	KIAA1967	ENSG00000158941	ENST00000521020	retained_intron	KNOWN	None	23360	None	None	22471398	22472086	1	KIAA1967	DBC-1, DBC1, NET35
8	KIAA1967	ENSG00000158941	ENST00000520738	protein_coding	PUTATIVE	None	23360	1847	614	22471901	22477981	1	KIAA1967	DBC-1, DBC1, NET35
8	KIAA1967	ENSG00000158941	ENST00000521436	retained_intron	KNOWN	None	23360	None	None	22474901	22477981	1	KIAA1967	DBC-1, DBC1, NET35
8	KIAA1967	ENSG00000158941	ENST00000520536	retained_intron	KNOWN	None	23360	None	None	22475670	22478477	1	KIAA1967	DBC-1, DBC1, NET35
4	CXCL2	ENSG00000081041	ENST00000508487	protein_coding	KNOWN	CCDS34008	4603	324	107	74962752	74965010	-1	GRO2	SCYB2, GROb, MIP-2a, MGSA-b, CINC-2a
4	CXCL2	ENSG00000081041	ENST00000296031	processed_transcript	PUTATIVE	None	4603	None	None	74963393	74964912	-1	GRO2	SCYB2, GROb, MIP-2a, MGSA-b, CINC-2a
4	CXCL2	ENSG00000081041	ENST00000510048	retained_intron	KNOWN	None	4603	None	None	74964248	74964913	-1	GRO2	SCYB2, GROb, MIP-2a, MGSA-b, CINC-2a
14	GPR68	ENSG00000119714	ENST00000531499	protein_coding	KNOWN	CCDS9894	4519	1098	365	91698876	91720269	-1	None	OGR1
14	GPR68	ENSG00000119714	ENST00000529102	protein_coding	KNOWN	None	4519	1014	337	91700381	91710852	-1	None	OGR1
14	GPR68	ENSG00000119714	ENST00000529300	processed_transcript	KNOWN	None	4519	None	None	91701462	91720224	-1	None	OGR1
14	GPR68	ENSG00000119714	ENST00000238699	protein_coding	KNOWN	None	4519	1128	375	91698877	91720224	-1	None	OGR1
14	GPR68	ENSG00000119714	ENST00000535815	protein_coding	KNOWN	CCDS9894	4519	1098	365	91698877	91710852	-1	None	OGR1
6	C6orf62	ENSG00000112308	ENST00000378119	protein_coding	KNOWN	CCDS4559	20998	690	229	24705089	24721064	-1	None	FLJ12619, DKFZP564G182, XTP12
6	C6orf62	ENSG00000112308	ENST00000378102	protein_coding	KNOWN	None	20998	603	200	24706324	24720226	-1	None	FLJ12619, DKFZP564G182, XTP12
6	C6orf62	ENSG00000112308	ENST00000540769	protein_coding	KNOWN	None	20998	516	171	24706152	24720620	-1	None	FLJ12619, DKFZP564G182, XTP12
8	MTFR1	ENSG00000066855	ENST00000523170	processed_transcript	KNOWN	None	29510	None	None	66556969	66616982	1	None	CHPPR, KIAA0009, FAM54A2
8	MTFR1	ENSG00000066855	ENST00000523222	nonsense_mediated_decay	KNOWN	None	29510	171	56	66556969	66617058	1	None	CHPPR, KIAA0009, FAM54A2
8	MTFR1	ENSG00000066855	ENST00000522239	processed_transcript	KNOWN	None	29510	None	None	66556969	66617061	1	None	CHPPR, KIAA0009, FAM54A2
8	MTFR1	ENSG00000066855	ENST00000424808	retained_intron	KNOWN	None	29510	None	None	66556974	66620573	1	None	CHPPR, KIAA0009, FAM54A2
8	MTFR1	ENSG00000066855	ENST00000262146	protein_coding	KNOWN	CCDS6182	29510	1002	333	66556974	66622791	1	None	CHPPR, KIAA0009, FAM54A2
8	MTFR1	ENSG00000066855	ENST00000517944	processed_transcript	KNOWN	None	29510	None	None	66582106	66620211	1	None	CHPPR, KIAA0009, FAM54A2
8	MTFR1	ENSG00000066855	ENST00000518800	protein_coding	PUTATIVE	None	29510	875	290	66582216	66622797	1	None	CHPPR, KIAA0009, FAM54A2
8	MTFR1	ENSG00000066855	ENST00000518636	processed_transcript	KNOWN	None	29510	None	None	66591738	66617072	1	None	CHPPR, KIAA0009, FAM54A2
8	MTFR1	ENSG00000066855	ENST00000521247	protein_coding	PUTATIVE	None	29510	435	144	66619280	66683496	1	None	CHPPR, KIAA0009, FAM54A2
8	MTFR1	ENSG00000066855	ENST00000527155	protein_coding	PUTATIVE	None	29510	556	184	66619288	66683487	1	None	CHPPR, KIAA0009, FAM54A2
8	MTFR1	ENSG00000066855	ENST00000518352	retained_intron	KNOWN	None	29510	None	None	66619456	66631983	1	None	CHPPR, KIAA0009, FAM54A2
8	MTFR1	ENSG00000066855	ENST00000523158	processed_transcript	KNOWN	None	29510	None	None	66620092	66637835	1	None	CHPPR, KIAA0009, FAM54A2
8	MTFR1	ENSG00000066855	ENST00000520398	processed_transcript	KNOWN	None	29510	None	None	66620125	66632831	1	None	CHPPR, KIAA0009, FAM54A2
8	MTFR1	ENSG00000066855	ENST00000527553	processed_transcript	PUTATIVE	None	29510	None	None	66637586	66640838	1	None	CHPPR, KIAA0009, FAM54A2
8	MTFR1	ENSG00000066855	ENST00000458689	protein_coding	KNOWN	CCDS55240	29510	903	300	66582108	66622796	1	None	CHPPR, KIAA0009, FAM54A2
15	TMEM62	ENSG00000137842	ENST00000564698	protein_coding	PUTATIVE	None	26269	389	128	43415477	43441262	1	None	FLJ23375
15	TMEM62	ENSG00000137842	ENST00000569535	nonsense_mediated_decay	KNOWN	None	26269	123	40	43425342	43440986	1	None	FLJ23375
15	TMEM62	ENSG00000137842	ENST00000565291	protein_coding	PUTATIVE	None	26269	115	37	43425360	43438719	1	None	FLJ23375
15	TMEM62	ENSG00000137842	ENST00000260403	protein_coding	KNOWN	CCDS32210	26269	1932	643	43425722	43477344	1	None	FLJ23375
15	TMEM62	ENSG00000137842	ENST00000569926	nonsense_mediated_decay	KNOWN	None	26269	189	62	43425917	43438788	1	None	FLJ23375
15	TMEM62	ENSG00000137842	ENST00000570109	retained_intron	KNOWN	None	26269	None	None	43426040	43427980	1	None	FLJ23375
15	TMEM62	ENSG00000137842	ENST00000568182	nonsense_mediated_decay	KNOWN	None	26269	150	49	43426040	43444032	1	None	FLJ23375
15	TMEM62	ENSG00000137842	ENST00000567441	nonsense_mediated_decay	KNOWN	None	26269	149	48	43426041	43444088	1	None	FLJ23375
15	TMEM62	ENSG00000137842	ENST00000568197	nonsense_mediated_decay	KNOWN	None	26269	66	21	43426124	43438805	1	None	FLJ23375
15	TMEM62	ENSG00000137842	ENST00000564494	protein_coding	NOVEL	None	26269	1622	539	43426480	43477187	1	None	FLJ23375
15	TMEM62	ENSG00000137842	ENST00000569897	retained_intron	KNOWN	None	26269	None	None	43438321	43441334	1	None	FLJ23375
15	TMEM62	ENSG00000137842	ENST00000566308	retained_intron	KNOWN	None	26269	None	None	43452521	43462051	1	None	FLJ23375
15	TMEM62	ENSG00000137842	ENST00000563859	retained_intron	KNOWN	None	26269	None	None	43452592	43477287	1	None	FLJ23375
15	TMEM62	ENSG00000137842	ENST00000569369	processed_transcript	KNOWN	None	26269	None	None	43461213	43476583	1	None	FLJ23375
15	TMEM62	ENSG00000137842	ENST00000566122	retained_intron	KNOWN	None	26269	None	None	43472859	43476666	1	None	FLJ23375
4	MTHFD2L	ENSG00000163738	ENST00000429519	nonsense_mediated_decay	KNOWN	None	31865	672	223	74979891	75107927	1	None	MGC72244
4	MTHFD2L	ENSG00000163738	ENST00000490698	retained_intron	KNOWN	None	31865	None	None	74988990	75026231	1	None	MGC72244
4	MTHFD2L	ENSG00000163738	ENST00000475291	retained_intron	KNOWN	None	31865	None	None	74989056	75026487	1	None	MGC72244
4	MTHFD2L	ENSG00000163738	ENST00000429335	nonsense_mediated_decay	KNOWN	None	31865	321	106	74989061	75047467	1	None	MGC72244
4	MTHFD2L	ENSG00000163738	ENST00000423607	nonsense_mediated_decay	KNOWN	None	31865	321	106	75023825	75049648	1	None	MGC72244
4	MTHFD2L	ENSG00000163738	ENST00000461101	processed_transcript	PUTATIVE	None	31865	None	None	75023835	75027970	1	None	MGC72244
4	MTHFD2L	ENSG00000163738	ENST00000359107	protein_coding	KNOWN	None	31865	757	251	75023867	75147267	1	None	MGC72244
4	MTHFD2L	ENSG00000163738	ENST00000325278	protein_coding	KNOWN	None	31865	870	289	75023890	75168816	1	None	MGC72244
4	MTHFD2L	ENSG00000163738	ENST00000484725	processed_transcript	PUTATIVE	None	31865	None	None	75023892	75027823	1	None	MGC72244
4	MTHFD2L	ENSG00000163738	ENST00000492183	retained_intron	KNOWN	None	31865	None	None	75059757	75168315	1	None	MGC72244
4	MTHFD2L	ENSG00000163738	ENST00000461856	processed_transcript	KNOWN	None	31865	None	None	75089785	75167707	1	None	MGC72244
4	MTHFD2L	ENSG00000163738	ENST00000465255	processed_transcript	PUTATIVE	None	31865	None	None	75145958	75168352	1	None	MGC72244
4	MTHFD2L	ENSG00000163738	ENST00000490128	processed_transcript	PUTATIVE	None	31865	None	None	75147142	75159392	1	None	MGC72244
4	MTHFD2L	ENSG00000163738	ENST00000395759	protein_coding	KNOWN	CCDS47075	31865	1044	347	75023829	75168809	1	None	MGC72244
4	MTHFD2L	ENSG00000163738	ENST00000331145	protein_coding	KNOWN	None	31865	672	223	75023829	75107324	1	None	MGC72244
4	MTHFD2L	ENSG00000163738	ENST00000433372	protein_coding	KNOWN	None	31865	441	146	74991155	75107914	1	None	MGC72244
X	GPRASP1	ENSG00000198932	ENST00000361600	protein_coding	KNOWN	CCDS35352	24834	4188	1395	101906294	101914011	1	None	GASP
X	GPRASP1	ENSG00000198932	ENST00000466098	retained_intron	KNOWN	None	24834	None	None	101907774	101908743	1	None	GASP
X	GPRASP1	ENSG00000198932	ENST00000415986	protein_coding	KNOWN	CCDS35352	24834	4188	1395	101906294	101914008	1	None	GASP
X	GPRASP1	ENSG00000198932	ENST00000444152	protein_coding	KNOWN	CCDS35352	24834	4188	1395	101906294	101914008	1	None	GASP
X	GPRASP1	ENSG00000198932	ENST00000537097	protein_coding	KNOWN	CCDS35352	24834	4188	1395	101906329	101914008	1	None	GASP
14	NRL	ENSG00000129535	ENST00000397002	protein_coding	KNOWN	CCDS9608	8002	714	237	24549316	24553834	-1	None	D14S46E, RP27, NRL-MAF
14	NRL	ENSG00000129535	ENST00000561028	protein_coding	KNOWN	CCDS9608	8002	714	237	24549376	24584223	-1	None	D14S46E, RP27, NRL-MAF
14	NRL	ENSG00000129535	ENST00000396997	protein_coding	KNOWN	CCDS9608	8002	714	237	24550086	24564339	-1	None	D14S46E, RP27, NRL-MAF
14	NRL	ENSG00000129535	ENST00000560550	protein_coding	PUTATIVE	None	8002	297	98	24550209	24551195	-1	None	D14S46E, RP27, NRL-MAF
14	NRL	ENSG00000129535	ENST00000396995	protein_coding	PUTATIVE	None	8002	297	98	24550217	24551137	-1	None	D14S46E, RP27, NRL-MAF
14	NRL	ENSG00000129535	ENST00000558280	protein_coding	KNOWN	None	8002	195	64	24551863	24584219	-1	None	D14S46E, RP27, NRL-MAF
15	FBXL22	ENSG00000197361	ENST00000360587	protein_coding	KNOWN	CCDS10187	27537	744	247	63889552	63894627	1	None	Fbl22, FLJ39626
15	FBXL22	ENSG00000197361	ENST00000534939	protein_coding	PUTATIVE	None	27537	393	130	63889590	63891556	1	None	Fbl22, FLJ39626
15	FBXL22	ENSG00000197361	ENST00000560325	protein_coding	PUTATIVE	None	27537	84	27	63889901	63893804	1	None	Fbl22, FLJ39626
15	FBXL22	ENSG00000197361	ENST00000539570	protein_coding	KNOWN	None	27537	726	241	63889596	63894618	1	None	Fbl22, FLJ39626
14	TPPP2	ENSG00000179636	ENST00000533755	retained_intron	KNOWN	None	19293	None	None	21492268	21499167	1	C14orf8	p25beta, p18
14	TPPP2	ENSG00000179636	ENST00000534434	retained_intron	KNOWN	None	19293	None	None	21498345	21500974	1	C14orf8	p25beta, p18
14	TPPP2	ENSG00000179636	ENST00000525425	retained_intron	KNOWN	None	19293	None	None	21498382	21499123	1	C14orf8	p25beta, p18
14	TPPP2	ENSG00000179636	ENST00000321760	protein_coding	KNOWN	CCDS9566	19293	513	170	21498385	21500327	1	C14orf8	p25beta, p18
14	TPPP2	ENSG00000179636	ENST00000532060	retained_intron	KNOWN	None	19293	None	None	21498409	21499167	1	C14orf8	p25beta, p18
14	TPPP2	ENSG00000179636	ENST00000460647	protein_coding	PUTATIVE	None	19293	414	137	21498409	21499441	1	C14orf8	p25beta, p18
14	TPPP2	ENSG00000179636	ENST00000530140	protein_coding	KNOWN	CCDS9566	19293	513	170	21498430	21500310	1	C14orf8	p25beta, p18
14	TPPP2	ENSG00000179636	ENST00000472458	protein_coding	PUTATIVE	None	19293	411	136	21498430	21504433	1	C14orf8	p25beta, p18
14	TPPP2	ENSG00000179636	ENST00000481535	protein_coding	PUTATIVE	None	19293	360	119	21498756	21504433	1	C14orf8	p25beta, p18
14	TPPP2	ENSG00000179636	ENST00000529496	retained_intron	KNOWN	None	19293	None	None	21498762	21504433	1	C14orf8	p25beta, p18
14	TPPP2	ENSG00000179636	ENST00000495665	nonsense_mediated_decay	KNOWN	None	19293	332	109	21498766	21504435	1	C14orf8	p25beta, p18
14	TPPP2	ENSG00000179636	ENST00000555751	protein_coding	PUTATIVE	None	19293	191	62	21499182	21504236	1	C14orf8	p25beta, p18
X	GPRASP2	ENSG00000158301	ENST00000332262	protein_coding	KNOWN	CCDS14501	25169	2517	838	101967104	101972661	1	None	GASP2, FLJ37327
X	GPRASP2	ENSG00000158301	ENST00000483720	processed_transcript	KNOWN	None	25169	None	None	101967318	101969648	1	None	GASP2, FLJ37327
X	GPRASP2	ENSG00000158301	ENST00000486814	processed_transcript	KNOWN	None	25169	None	None	101967373	101969742	1	None	GASP2, FLJ37327
X	GPRASP2	ENSG00000158301	ENST00000465228	processed_transcript	KNOWN	None	25169	None	None	101970754	101971570	1	None	GASP2, FLJ37327
X	GPRASP2	ENSG00000158301	ENST00000543253	protein_coding	KNOWN	CCDS14501	25169	2517	838	101967257	101973607	1	None	GASP2, FLJ37327
X	GPRASP2	ENSG00000158301	ENST00000535209	protein_coding	KNOWN	CCDS14501	25169	2517	838	101967257	101973607	1	None	GASP2, FLJ37327
10	NEBL	ENSG00000078114	ENST00000377122	protein_coding	KNOWN	CCDS7134	16932	3045	1014	21068902	21186531	-1	None	None
10	NEBL	ENSG00000078114	ENST00000417816	protein_coding	KNOWN	CCDS7133	16932	813	270	21072835	21463116	-1	None	None
10	NEBL	ENSG00000078114	ENST00000493005	retained_intron	KNOWN	None	16932	None	None	21098796	21124490	-1	None	None
10	NEBL	ENSG00000078114	ENST00000492325	processed_transcript	KNOWN	None	16932	None	None	21102669	21104754	-1	None	None
10	NEBL	ENSG00000078114	ENST00000473616	processed_transcript	KNOWN	None	16932	None	None	21102669	21106579	-1	None	None
10	NEBL	ENSG00000078114	ENST00000481592	retained_intron	KNOWN	None	16932	None	None	21102669	21108409	-1	None	None
10	NEBL	ENSG00000078114	ENST00000460652	processed_transcript	KNOWN	None	16932	None	None	21102669	21115400	-1	None	None
10	NEBL	ENSG00000078114	ENST00000498424	retained_intron	KNOWN	None	16932	None	None	21120075	21120512	-1	None	None
10	NEBL	ENSG00000078114	ENST00000482754	processed_transcript	KNOWN	None	16932	None	None	21124442	21134424	-1	None	None
10	NEBL	ENSG00000078114	ENST00000377119	protein_coding	KNOWN	None	16932	696	231	21156688	21186144	-1	None	None
10	NEBL	ENSG00000078114	ENST00000434381	protein_coding	KNOWN	None	16932	352	116	21169803	21188620	-1	None	None
10	NEBL	ENSG00000078114	ENST00000485750	processed_transcript	KNOWN	None	16932	None	None	21459191	21461381	-1	None	None
10	NEBL	ENSG00000078114	ENST00000464278	processed_transcript	KNOWN	None	16932	None	None	21460476	21462767	-1	None	None
10	NEBL	ENSG00000078114	ENST00000377159	protein_coding	KNOWN	None	16932	711	236	21074400	21358946	-1	None	None
14	None	ENSG00000255472	ENST00000531638	protein_coding	PUTATIVE	None	None	378	125	21500977	21502054	1	None	None
14	RNASE13	ENSG00000206150	ENST00000382951	protein_coding	KNOWN	CCDS32039	25285	471	156	21500979	21502944	-1	None	None
14	RNASE7	ENSG00000165799	ENST00000298690	protein_coding	KNOWN	CCDS41914	19278	471	156	21510385	21512392	1	None	None
14	RNASE7	ENSG00000165799	ENST00000481538	nonsense_mediated_decay	KNOWN	CCDS41914	19278	471	156	21510475	21512393	1	None	None
X	OTC	ENSG00000036473	ENST00000039007	protein_coding	KNOWN	CCDS14247	8512	1065	354	38211798	38280703	1	None	None
X	OTC	ENSG00000036473	ENST00000488812	processed_transcript	KNOWN	None	8512	None	None	38211858	38262920	1	None	None
X	OTC	ENSG00000036473	ENST00000487658	processed_transcript	KNOWN	None	8512	None	None	38260616	38271142	1	None	None
15	HERC1	ENSG00000103657	ENST00000443617	protein_coding	KNOWN	CCDS45277	4867	14586	4861	63900817	64126087	-1	None	p532, p619
15	HERC1	ENSG00000103657	ENST00000559996	retained_intron	KNOWN	None	4867	None	None	63907980	63908931	-1	None	p532, p619
15	HERC1	ENSG00000103657	ENST00000558324	nonsense_mediated_decay	KNOWN	None	4867	458	151	63915037	63922750	-1	None	p532, p619
15	HERC1	ENSG00000103657	ENST00000561348	retained_intron	KNOWN	None	4867	None	None	63916480	63922896	-1	None	p532, p619
15	HERC1	ENSG00000103657	ENST00000561436	retained_intron	KNOWN	None	4867	None	None	63922719	63927140	-1	None	p532, p619
15	HERC1	ENSG00000103657	ENST00000561359	nonsense_mediated_decay	KNOWN	None	4867	143	46	63922731	63926075	-1	None	p532, p619
15	HERC1	ENSG00000103657	ENST00000560897	nonsense_mediated_decay	KNOWN	None	4867	81	26	63926162	63929749	-1	None	p532, p619
15	HERC1	ENSG00000103657	ENST00000559715	protein_coding	NOVEL	None	4867	495	164	63966940	63970185	-1	None	p532, p619
15	HERC1	ENSG00000103657	ENST00000561400	protein_coding	PUTATIVE	None	4867	2073	690	63988323	64126141	-1	None	p532, p619
15	HERC1	ENSG00000103657	ENST00000560983	retained_intron	KNOWN	None	4867	None	None	64010628	64015456	-1	None	p532, p619
15	HERC1	ENSG00000103657	ENST00000560519	retained_intron	KNOWN	None	4867	None	None	64026842	64041648	-1	None	p532, p619
15	HERC1	ENSG00000103657	ENST00000559886	retained_intron	KNOWN	None	4867	None	None	64044714	64126116	-1	None	p532, p619
15	HERC1	ENSG00000103657	ENST00000558532	protein_coding	KNOWN	None	4867	459	152	64067364	64126116	-1	None	p532, p619
15	HERC1	ENSG00000103657	ENST00000560462	protein_coding	KNOWN	None	4867	436	144	64067387	64126114	-1	None	p532, p619
15	HERC1	ENSG00000103657	ENST00000560316	protein_coding	KNOWN	None	4867	60	19	64067763	64126084	-1	None	p532, p619
14	RNASE8	ENSG00000173431	ENST00000308227	protein_coding	KNOWN	CCDS9567	19277	465	154	21525981	21526614	1	None	None
14	PCK2	ENSG00000100889	ENST00000559250	protein_coding	PUTATIVE	None	8725	1530	509	24563262	24573334	1	None	PEPCK, PEPCK2
14	PCK2	ENSG00000100889	ENST00000216780	protein_coding	KNOWN	CCDS9609	8725	1923	640	24563347	24573339	1	None	PEPCK, PEPCK2
14	PCK2	ENSG00000100889	ENST00000560736	protein_coding	PUTATIVE	None	8725	339	112	24563359	24568334	1	None	PEPCK, PEPCK2
14	PCK2	ENSG00000100889	ENST00000396973	protein_coding	KNOWN	CCDS41928	8725	1326	441	24563368	24569771	1	None	PEPCK, PEPCK2
14	PCK2	ENSG00000100889	ENST00000559837	protein_coding	PUTATIVE	None	8725	322	106	24563403	24568317	1	None	PEPCK, PEPCK2
14	PCK2	ENSG00000100889	ENST00000560106	nonsense_mediated_decay	KNOWN	None	8725	129	42	24563490	24567800	1	None	PEPCK, PEPCK2
14	PCK2	ENSG00000100889	ENST00000545054	protein_coding	PUTATIVE	None	8725	1521	506	24563510	24573239	1	None	PEPCK, PEPCK2
14	PCK2	ENSG00000100889	ENST00000561050	retained_intron	KNOWN	None	8725	None	None	24563520	24569452	1	None	PEPCK, PEPCK2
14	PCK2	ENSG00000100889	ENST00000561286	protein_coding	PUTATIVE	None	8725	1521	506	24563520	24573333	1	None	PEPCK, PEPCK2
14	PCK2	ENSG00000100889	ENST00000558674	retained_intron	KNOWN	None	8725	None	None	24563522	24569512	1	None	PEPCK, PEPCK2
14	PCK2	ENSG00000100889	ENST00000560657	processed_transcript	PUTATIVE	None	8725	None	None	24563559	24566272	1	None	PEPCK, PEPCK2
14	PCK2	ENSG00000100889	ENST00000559584	nonsense_mediated_decay	KNOWN	None	8725	189	62	24563566	24567437	1	None	PEPCK, PEPCK2
14	PCK2	ENSG00000100889	ENST00000558096	protein_coding	PUTATIVE	None	8725	1425	474	24563586	24573339	1	None	PEPCK, PEPCK2
14	PCK2	ENSG00000100889	ENST00000559503	nonsense_mediated_decay	KNOWN	None	8725	367	121	24567721	24572039	1	None	PEPCK, PEPCK2
14	PCK2	ENSG00000100889	ENST00000559171	protein_coding	PUTATIVE	None	8725	328	108	24569358	24579807	1	None	PEPCK, PEPCK2
14	PCK2	ENSG00000100889	ENST00000557969	retained_intron	KNOWN	None	8725	None	None	24571884	24572931	1	None	PEPCK, PEPCK2
14	None	ENSG00000258875	ENST00000553725	protein_coding	PUTATIVE	None	None	213	70	91709103	91717179	1	None	None
14	None	ENSG00000258875	ENST00000554096	protein_coding	PUTATIVE	None	None	456	151	91709279	91717426	1	None	None
8	AARD	ENSG00000205002	ENST00000378279	protein_coding	KNOWN	CCDS34935	33842	468	155	117950438	117956726	1	C8orf85	LOC441376
8	AARD	ENSG00000205002	ENST00000523536	processed_transcript	KNOWN	None	33842	None	None	117950785	117955161	1	C8orf85	LOC441376
14	CCDC88C	ENSG00000015133	ENST00000556726	nonsense_mediated_decay	KNOWN	None	19967	394	130	91737667	91755675	-1	KIAA1509	DAPLE, HkRP2
14	CCDC88C	ENSG00000015133	ENST00000389857	protein_coding	KNOWN	CCDS45151	19967	6087	2028	91737669	91884121	-1	KIAA1509	DAPLE, HkRP2
14	CCDC88C	ENSG00000015133	ENST00000334448	retained_intron	KNOWN	None	19967	None	None	91739813	91749967	-1	KIAA1509	DAPLE, HkRP2
14	CCDC88C	ENSG00000015133	ENST00000557455	retained_intron	KNOWN	None	19967	None	None	91744485	91746321	-1	KIAA1509	DAPLE, HkRP2
14	CCDC88C	ENSG00000015133	ENST00000555995	retained_intron	KNOWN	None	19967	None	None	91755076	91757415	-1	KIAA1509	DAPLE, HkRP2
14	CCDC88C	ENSG00000015133	ENST00000557507	retained_intron	KNOWN	None	19967	None	None	91780287	91782214	-1	KIAA1509	DAPLE, HkRP2
14	CCDC88C	ENSG00000015133	ENST00000554051	retained_intron	KNOWN	None	19967	None	None	91804398	91805200	-1	KIAA1509	DAPLE, HkRP2
14	CCDC88C	ENSG00000015133	ENST00000554872	retained_intron	KNOWN	None	19967	None	None	91805206	91883182	-1	KIAA1509	DAPLE, HkRP2
14	CCDC88C	ENSG00000015133	ENST00000553437	retained_intron	KNOWN	None	19967	None	None	91808487	91875102	-1	KIAA1509	DAPLE, HkRP2
14	CCDC88C	ENSG00000015133	ENST00000389856	protein_coding	PUTATIVE	None	19967	267	88	91844985	91883690	-1	KIAA1509	DAPLE, HkRP2
14	CCDC88C	ENSG00000015133	ENST00000553403	protein_coding	PUTATIVE	None	19967	291	96	91845003	91884188	-1	KIAA1509	DAPLE, HkRP2
14	CCDC88C	ENSG00000015133	ENST00000554165	processed_transcript	PUTATIVE	None	19967	None	None	91850734	91884022	-1	KIAA1509	DAPLE, HkRP2
14	CCDC88C	ENSG00000015133	ENST00000556767	retained_intron	KNOWN	None	19967	None	None	91874474	91883119	-1	KIAA1509	DAPLE, HkRP2
14	CCDC88C	ENSG00000015133	ENST00000331194	protein_coding	KNOWN	None	19967	1659	552	91738969	91752012	-1	KIAA1509	DAPLE, HkRP2
14	ARHGEF40	ENSG00000165801	ENST00000298694	protein_coding	KNOWN	CCDS32041	25516	4560	1519	21538429	21558399	1	None	solo, FLJ10357
14	ARHGEF40	ENSG00000165801	ENST00000555038	protein_coding	NOVEL	None	25516	1672	556	21538432	21543712	1	None	solo, FLJ10357
14	ARHGEF40	ENSG00000165801	ENST00000556399	nonsense_mediated_decay	KNOWN	None	25516	1509	502	21538450	21557714	1	None	solo, FLJ10357
14	ARHGEF40	ENSG00000165801	ENST00000553709	nonsense_mediated_decay	KNOWN	None	25516	1863	620	21538476	21557704	1	None	solo, FLJ10357
14	ARHGEF40	ENSG00000165801	ENST00000555232	retained_intron	KNOWN	None	25516	None	None	21538527	21555065	1	None	solo, FLJ10357
14	ARHGEF40	ENSG00000165801	ENST00000555052	retained_intron	KNOWN	None	25516	None	None	21542936	21544615	1	None	solo, FLJ10357
14	ARHGEF40	ENSG00000165801	ENST00000554514	retained_intron	KNOWN	None	25516	None	None	21549056	21557704	1	None	solo, FLJ10357
14	ARHGEF40	ENSG00000165801	ENST00000557498	retained_intron	KNOWN	None	25516	None	None	21555912	21557573	1	None	solo, FLJ10357
14	ARHGEF40	ENSG00000165801	ENST00000298693	protein_coding	KNOWN	None	25516	4416	1471	21538527	21558036	1	None	solo, FLJ10357
8	FUT10	ENSG00000172728	ENST00000327671	protein_coding	KNOWN	CCDS6088	19234	1440	479	33228342	33330940	-1	None	None
8	FUT10	ENSG00000172728	ENST00000518672	protein_coding	NOVEL	None	19234	1356	451	33228579	33319245	-1	None	None
8	FUT10	ENSG00000172728	ENST00000519440	processed_transcript	PUTATIVE	None	19234	None	None	33229347	33235074	-1	None	None
8	FUT10	ENSG00000172728	ENST00000517942	processed_transcript	KNOWN	None	19234	None	None	33229597	33246768	-1	None	None
8	FUT10	ENSG00000172728	ENST00000524021	protein_coding	NOVEL	None	19234	1356	451	33229782	33330637	-1	None	None
8	FUT10	ENSG00000172728	ENST00000517891	processed_transcript	PUTATIVE	None	19234	None	None	33229900	33235098	-1	None	None
8	FUT10	ENSG00000172728	ENST00000520767	retained_intron	KNOWN	None	19234	None	None	33246414	33330652	-1	None	None
8	FUT10	ENSG00000172728	ENST00000518076	processed_transcript	KNOWN	None	19234	None	None	33246481	33313339	-1	None	None
8	FUT10	ENSG00000172728	ENST00000416169	retained_intron	KNOWN	None	19234	None	None	33309246	33330631	-1	None	None
8	FUT10	ENSG00000172728	ENST00000520935	retained_intron	KNOWN	None	19234	None	None	33310592	33313350	-1	None	None
8	FUT10	ENSG00000172728	ENST00000520503	processed_transcript	KNOWN	None	19234	None	None	33310900	33330609	-1	None	None
8	FUT10	ENSG00000172728	ENST00000335589	protein_coding	KNOWN	None	19234	1074	357	33246433	33330664	-1	None	None
9	KANK1	ENSG00000107104	ENST00000382303	protein_coding	KNOWN	CCDS34976	19309	4059	1352	470291	746105	1	ANKRD15	KIAA0172, KANK
9	KANK1	ENSG00000107104	ENST00000467541	processed_transcript	KNOWN	None	19309	None	None	470592	484491	1	ANKRD15	KIAA0172, KANK
9	KANK1	ENSG00000107104	ENST00000475690	processed_transcript	KNOWN	None	19309	None	None	471467	476769	1	ANKRD15	KIAA0172, KANK
9	KANK1	ENSG00000107104	ENST00000489369	processed_transcript	KNOWN	None	19309	None	None	504702	746103	1	ANKRD15	KIAA0172, KANK
9	KANK1	ENSG00000107104	ENST00000354485	retained_intron	KNOWN	None	19309	None	None	504703	734129	1	ANKRD15	KIAA0172, KANK
9	KANK1	ENSG00000107104	ENST00000382297	protein_coding	KNOWN	CCDS34976	19309	4059	1352	504716	746105	1	ANKRD15	KIAA0172, KANK
9	KANK1	ENSG00000107104	ENST00000382293	protein_coding	KNOWN	CCDS6441	19309	3585	1194	706889	746103	1	ANKRD15	KIAA0172, KANK
9	KANK1	ENSG00000107104	ENST00000382289	protein_coding	KNOWN	None	19309	1059	352	732442	746102	1	ANKRD15	KIAA0172, KANK
9	KANK1	ENSG00000107104	ENST00000382286	protein_coding	KNOWN	None	19309	852	283	732616	746104	1	ANKRD15	KIAA0172, KANK
8	SLC30A8	ENSG00000164756	ENST00000521243	protein_coding	PUTATIVE	CCDS55272	20303	963	320	117962512	118185030	1	None	None
8	SLC30A8	ENSG00000164756	ENST00000524274	protein_coding	PUTATIVE	None	20303	263	86	117962729	118165321	1	None	None
8	SLC30A8	ENSG00000164756	ENST00000521035	processed_transcript	KNOWN	None	20303	None	None	117963188	118159250	1	None	None
8	SLC30A8	ENSG00000164756	ENST00000518521	retained_intron	KNOWN	None	20303	None	None	118147047	118165214	1	None	None
8	SLC30A8	ENSG00000164756	ENST00000518396	retained_intron	KNOWN	None	20303	None	None	118147266	118159377	1	None	None
8	SLC30A8	ENSG00000164756	ENST00000520469	retained_intron	KNOWN	None	20303	None	None	118147313	118159848	1	None	None
8	SLC30A8	ENSG00000164756	ENST00000519688	protein_coding	PUTATIVE	CCDS55272	20303	963	320	118147498	118184974	1	None	None
8	SLC30A8	ENSG00000164756	ENST00000456015	protein_coding	KNOWN	CCDS6322	20303	1110	369	118147567	118186330	1	None	None
8	SLC30A8	ENSG00000164756	ENST00000427715	protein_coding	KNOWN	CCDS55272	20303	963	320	117963190	118188953	1	None	None
4	INPP4B	ENSG00000109452	ENST00000513000	protein_coding	KNOWN	CCDS3757	6075	2775	924	142944313	143767443	-1	None	None
4	INPP4B	ENSG00000109452	ENST00000508116	protein_coding	KNOWN	CCDS3757	6075	2775	924	142949898	143394568	-1	None	None
4	INPP4B	ENSG00000109452	ENST00000509777	protein_coding	KNOWN	None	6075	2817	938	142950109	143767453	-1	None	None
4	INPP4B	ENSG00000109452	ENST00000511838	protein_coding	PUTATIVE	None	6075	2065	687	143003206	143227097	-1	None	None
4	INPP4B	ENSG00000109452	ENST00000512630	nonsense_mediated_decay	KNOWN	None	6075	1251	416	143003222	143435448	-1	None	None
4	INPP4B	ENSG00000109452	ENST00000510812	protein_coding	KNOWN	None	6075	2452	816	143007332	143481822	-1	None	None
4	INPP4B	ENSG00000109452	ENST00000514525	protein_coding	PUTATIVE	None	6075	2058	685	143007339	143226985	-1	None	None
4	INPP4B	ENSG00000109452	ENST00000506297	nonsense_mediated_decay	KNOWN	None	6075	102	33	143159017	143324162	-1	None	None
4	INPP4B	ENSG00000109452	ENST00000507462	nonsense_mediated_decay	KNOWN	None	6075	196	64	143191816	143326413	-1	None	None
4	INPP4B	ENSG00000109452	ENST00000506217	protein_coding	KNOWN	None	6075	396	131	143304969	143352412	-1	None	None
4	INPP4B	ENSG00000109452	ENST00000506788	protein_coding	KNOWN	None	6075	252	83	143326362	143768585	-1	None	None
4	INPP4B	ENSG00000109452	ENST00000506517	processed_transcript	KNOWN	None	6075	None	None	143326378	143435441	-1	None	None
4	INPP4B	ENSG00000109452	ENST00000506000	nonsense_mediated_decay	KNOWN	None	6075	144	47	143326458	143435434	-1	None	None
4	INPP4B	ENSG00000109452	ENST00000504632	processed_transcript	KNOWN	None	6075	None	None	143344933	143435441	-1	None	None
4	INPP4B	ENSG00000109452	ENST00000506243	processed_transcript	KNOWN	None	6075	None	None	143346360	143435452	-1	None	None
4	INPP4B	ENSG00000109452	ENST00000507861	protein_coding	KNOWN	None	6075	162	53	143347634	143395561	-1	None	None
4	INPP4B	ENSG00000109452	ENST00000503927	protein_coding	KNOWN	None	6075	117	38	143350345	143767454	-1	None	None
4	INPP4B	ENSG00000109452	ENST00000514964	processed_transcript	KNOWN	None	6075	None	None	143575665	143687972	-1	None	None
4	INPP4B	ENSG00000109452	ENST00000505483	processed_transcript	KNOWN	None	6075	None	None	143687027	143689007	-1	None	None
4	INPP4B	ENSG00000109452	ENST00000512489	processed_transcript	KNOWN	None	6075	None	None	143687891	143689122	-1	None	None
4	INPP4B	ENSG00000109452	ENST00000508084	processed_transcript	KNOWN	None	6075	None	None	143716305	143767484	-1	None	None
4	INPP4B	ENSG00000109452	ENST00000262992	protein_coding	KNOWN	CCDS3757	6075	2775	924	142949186	143383906	-1	None	None
4	INPP4B	ENSG00000109452	ENST00000308502	protein_coding	KNOWN	CCDS3757	6075	2775	924	142949894	143352532	-1	None	None
15	ADAMTS7	ENSG00000136378	ENST00000388820	protein_coding	KNOWN	CCDS32303	223	5061	1686	79051545	79103773	-1	None	ADAM-TS7, DKFZp434H204
15	ADAMTS7	ENSG00000136378	ENST00000569934	retained_intron	KNOWN	None	223	None	None	79056293	79057455	-1	None	ADAM-TS7, DKFZp434H204
15	ADAMTS7	ENSG00000136378	ENST00000566303	processed_transcript	KNOWN	None	223	None	None	79059175	79103625	-1	None	ADAM-TS7, DKFZp434H204
15	ADAMTS7	ENSG00000136378	ENST00000565793	retained_intron	KNOWN	None	223	None	None	79062968	79092886	-1	None	ADAM-TS7, DKFZp434H204
15	ADAMTS7	ENSG00000136378	ENST00000568712	retained_intron	KNOWN	None	223	None	None	79063137	79103574	-1	None	ADAM-TS7, DKFZp434H204
14	SIX6	ENSG00000184302	ENST00000327720	protein_coding	KNOWN	CCDS9747	10892	741	246	60975669	60979568	1	OPTX2	Six9
14	SIX1	ENSG00000126778	ENST00000247182	protein_coding	KNOWN	CCDS9748	10887	855	284	61110133	61116180	-1	DFNA23	None
14	SIX1	ENSG00000126778	ENST00000555955	nonsense_mediated_decay	KNOWN	None	10887	331	109	61111989	61119849	-1	DFNA23	None
14	SIX1	ENSG00000126778	ENST00000553535	nonsense_mediated_decay	KNOWN	None	10887	15	4	61112682	61119744	-1	DFNA23	None
14	SIX1	ENSG00000126778	ENST00000554986	protein_coding	PUTATIVE	None	10887	336	111	61112861	61124977	-1	DFNA23	None
14	SIX1	ENSG00000126778	ENST00000555627	retained_intron	KNOWN	None	10887	None	None	61118493	61119797	-1	DFNA23	None
9	SPATA31A1	ENSG00000204849	ENST00000377647	protein_coding	KNOWN	CCDS43808	23394	4044	1347	39355699	39361956	1	C9orf36, FAM75A1	DKFZP434B204, C9orf36A, OTTHUMG00000013156
9	SPATA31A1	ENSG00000204849	ENST00000473440	processed_transcript	KNOWN	None	23394	None	None	39357332	39358696	1	C9orf36, FAM75A1	DKFZP434B204, C9orf36A, OTTHUMG00000013156
4	DHX15	ENSG00000109606	ENST00000510645	processed_transcript	KNOWN	None	2738	None	None	24519064	24534574	-1	DDX15	HRH2, DBP1, PRP43, PrPp43p, PRPF43
4	DHX15	ENSG00000109606	ENST00000508032	processed_transcript	KNOWN	None	2738	None	None	24529098	24540773	-1	DDX15	HRH2, DBP1, PRP43, PrPp43p, PRPF43
4	DHX15	ENSG00000109606	ENST00000336812	protein_coding	KNOWN	CCDS33966	2738	2388	795	24529098	24586173	-1	DDX15	HRH2, DBP1, PRP43, PrPp43p, PRPF43
4	DHX15	ENSG00000109606	ENST00000513036	processed_transcript	KNOWN	None	2738	None	None	24529100	24532506	-1	DDX15	HRH2, DBP1, PRP43, PrPp43p, PRPF43
4	DHX15	ENSG00000109606	ENST00000512903	processed_transcript	KNOWN	None	2738	None	None	24529100	24535822	-1	DDX15	HRH2, DBP1, PRP43, PrPp43p, PRPF43
4	DHX15	ENSG00000109606	ENST00000508368	processed_transcript	KNOWN	None	2738	None	None	24529337	24534573	-1	DDX15	HRH2, DBP1, PRP43, PrPp43p, PRPF43
4	DHX15	ENSG00000109606	ENST00000504279	processed_transcript	KNOWN	None	2738	None	None	24529383	24531702	-1	DDX15	HRH2, DBP1, PRP43, PrPp43p, PRPF43
4	DHX15	ENSG00000109606	ENST00000503562	retained_intron	KNOWN	None	2738	None	None	24541332	24543522	-1	DDX15	HRH2, DBP1, PRP43, PrPp43p, PRPF43
4	DHX15	ENSG00000109606	ENST00000511553	processed_transcript	KNOWN	None	2738	None	None	24578092	24585905	-1	DDX15	HRH2, DBP1, PRP43, PrPp43p, PRPF43
4	DHX15	ENSG00000109606	ENST00000513092	processed_transcript	KNOWN	None	2738	None	None	24578173	24586160	-1	DDX15	HRH2, DBP1, PRP43, PrPp43p, PRPF43
X	TSPAN7	ENSG00000156298	ENST00000378482	protein_coding	KNOWN	CCDS14248	11854	750	249	38420623	38548167	1	MXS1, TM4SF2, MRX58	DXS1692E, TALLA-1, A15, CD231
X	TSPAN7	ENSG00000156298	ENST00000471410	nonsense_mediated_decay	KNOWN	None	11854	192	63	38420795	38547422	1	MXS1, TM4SF2, MRX58	DXS1692E, TALLA-1, A15, CD231
X	TSPAN7	ENSG00000156298	ENST00000480976	nonsense_mediated_decay	KNOWN	None	11854	132	43	38420797	38533519	1	MXS1, TM4SF2, MRX58	DXS1692E, TALLA-1, A15, CD231
X	TSPAN7	ENSG00000156298	ENST00000475216	nonsense_mediated_decay	KNOWN	None	11854	138	45	38420797	38547525	1	MXS1, TM4SF2, MRX58	DXS1692E, TALLA-1, A15, CD231
X	TSPAN7	ENSG00000156298	ENST00000286824	protein_coding	PUTATIVE	None	11854	801	266	38420797	38547651	1	MXS1, TM4SF2, MRX58	DXS1692E, TALLA-1, A15, CD231
X	TSPAN7	ENSG00000156298	ENST00000488893	processed_transcript	KNOWN	None	11854	None	None	38429936	38535070	1	MXS1, TM4SF2, MRX58	DXS1692E, TALLA-1, A15, CD231
X	TSPAN7	ENSG00000156298	ENST00000494037	processed_transcript	KNOWN	None	11854	None	None	38471575	38530670	1	MXS1, TM4SF2, MRX58	DXS1692E, TALLA-1, A15, CD231
X	TSPAN7	ENSG00000156298	ENST00000419600	retained_intron	KNOWN	None	11854	None	None	38525350	38548169	1	MXS1, TM4SF2, MRX58	DXS1692E, TALLA-1, A15, CD231
X	TSPAN7	ENSG00000156298	ENST00000422612	protein_coding	KNOWN	None	11854	828	275	38420795	38547422	1	MXS1, TM4SF2, MRX58	DXS1692E, TALLA-1, A15, CD231
X	TSPAN7	ENSG00000156298	ENST00000545599	protein_coding	KNOWN	None	11854	672	223	38420797	38547525	1	MXS1, TM4SF2, MRX58	DXS1692E, TALLA-1, A15, CD231
X	GABRE	ENSG00000102287	ENST00000370328	protein_coding	KNOWN	CCDS14703	4085	1521	506	151121596	151143151	-1	None	None
X	GABRE	ENSG00000102287	ENST00000483564	processed_transcript	KNOWN	None	4085	None	None	151121597	151124942	-1	None	None
X	GABRE	ENSG00000102287	ENST00000486255	retained_intron	KNOWN	None	4085	None	None	151121597	151128195	-1	None	None
X	GABRE	ENSG00000102287	ENST00000370325	protein_coding	PUTATIVE	None	4085	1098	365	151121597	151143151	-1	None	None
X	GABRE	ENSG00000102287	ENST00000495862	retained_intron	KNOWN	None	4085	None	None	151123525	151124385	-1	None	None
X	GABRE	ENSG00000102287	ENST00000489333	retained_intron	KNOWN	None	4085	None	None	151123576	151124307	-1	None	None
X	GABRE	ENSG00000102287	ENST00000462018	processed_transcript	KNOWN	None	4085	None	None	151123869	151125984	-1	None	None
X	GABRE	ENSG00000102287	ENST00000441219	nonsense_mediated_decay	KNOWN	None	4085	132	43	151125755	151143152	-1	None	None
X	GABRE	ENSG00000102287	ENST00000476016	retained_intron	KNOWN	None	4085	None	None	151127118	151131065	-1	None	None
X	GABRE	ENSG00000102287	ENST00000474932	retained_intron	KNOWN	None	4085	None	None	151129697	151138208	-1	None	None
X	GABRE	ENSG00000102287	ENST00000465405	retained_intron	KNOWN	None	4085	None	None	151137871	151139024	-1	None	None
X	GABRE	ENSG00000102287	ENST00000491339	retained_intron	KNOWN	None	4085	None	None	151138324	151141132	-1	None	None
X	GABRE	ENSG00000102287	ENST00000417300	nonsense_mediated_decay	KNOWN	None	4085	132	43	151138529	151143136	-1	None	None
X	GABRE	ENSG00000102287	ENST00000393914	protein_coding	KNOWN	None	4085	420	139	151125755	151143143	-1	None	None
X	BHLHB9	ENSG00000198908	ENST00000483294	processed_transcript	KNOWN	None	29353	None	None	101975616	102003809	1	None	p60TRP, KIAA1701
X	BHLHB9	ENSG00000198908	ENST00000361229	protein_coding	KNOWN	CCDS14502	29353	1644	547	101975654	102007369	1	None	p60TRP, KIAA1701
X	BHLHB9	ENSG00000198908	ENST00000486988	processed_transcript	KNOWN	None	29353	None	None	101975692	102003663	1	None	p60TRP, KIAA1701
X	BHLHB9	ENSG00000198908	ENST00000372735	protein_coding	KNOWN	CCDS14502	29353	1644	547	102001022	102008468	1	None	p60TRP, KIAA1701
X	BHLHB9	ENSG00000198908	ENST00000457056	protein_coding	KNOWN	CCDS14502	29353	1644	547	101975642	102007366	1	None	p60TRP, KIAA1701
X	BHLHB9	ENSG00000198908	ENST00000447531	protein_coding	KNOWN	CCDS14502	29353	1644	547	102000907	102007366	1	None	p60TRP, KIAA1701
X	BHLHB9	ENSG00000198908	ENST00000448867	protein_coding	KNOWN	CCDS14502	29353	1644	547	102000907	102007366	1	None	p60TRP, KIAA1701
14	SIX4	ENSG00000100625	ENST00000216513	protein_coding	KNOWN	CCDS9749	10890	2346	781	61176246	61190852	-1	None	AREC3
14	SIX4	ENSG00000100625	ENST00000554079	nonsense_mediated_decay	KNOWN	None	10890	137	44	61179885	61189883	-1	None	AREC3
14	SIX4	ENSG00000100625	ENST00000556952	protein_coding	KNOWN	None	10890	1483	493	61186520	61191066	-1	None	AREC3
9	SPATA31A2	ENSG00000204848	ENST00000456183	protein_coding	KNOWN	CCDS43809	32002	4044	1347	39884975	39891210	1	FAM75A2	OTTHUMG00000013563
15	CCNDBP1	ENSG00000166946	ENST00000564630	retained_intron	KNOWN	None	1587	None	None	43477316	43485504	1	None	DIP1, GCIP
15	CCNDBP1	ENSG00000166946	ENST00000300213	protein_coding	KNOWN	CCDS10092	1587	1083	360	43477455	43487396	1	None	DIP1, GCIP
15	CCNDBP1	ENSG00000166946	ENST00000566515	nonsense_mediated_decay	KNOWN	None	1587	930	309	43477526	43487362	1	None	DIP1, GCIP
15	CCNDBP1	ENSG00000166946	ENST00000569745	nonsense_mediated_decay	KNOWN	None	1587	129	42	43477603	43487358	1	None	DIP1, GCIP
15	CCNDBP1	ENSG00000166946	ENST00000563065	nonsense_mediated_decay	KNOWN	None	1587	189	62	43477604	43487393	1	None	DIP1, GCIP
15	CCNDBP1	ENSG00000166946	ENST00000567434	nonsense_mediated_decay	KNOWN	None	1587	129	42	43477607	43483873	1	None	DIP1, GCIP
15	CCNDBP1	ENSG00000166946	ENST00000566833	retained_intron	KNOWN	None	1587	None	None	43477637	43481664	1	None	DIP1, GCIP
15	CCNDBP1	ENSG00000166946	ENST00000568507	nonsense_mediated_decay	KNOWN	None	1587	429	142	43477637	43487378	1	None	DIP1, GCIP
15	CCNDBP1	ENSG00000166946	ENST00000565296	nonsense_mediated_decay	KNOWN	None	1587	930	309	43477637	43487393	1	None	DIP1, GCIP
15	CCNDBP1	ENSG00000166946	ENST00000562553	nonsense_mediated_decay	KNOWN	None	1587	189	62	43477644	43483873	1	None	DIP1, GCIP
15	CCNDBP1	ENSG00000166946	ENST00000567690	retained_intron	KNOWN	None	1587	None	None	43478118	43486659	1	None	DIP1, GCIP
15	CCNDBP1	ENSG00000166946	ENST00000444658	retained_intron	KNOWN	None	1587	None	None	43478138	43487390	1	None	DIP1, GCIP
15	CCNDBP1	ENSG00000166946	ENST00000566882	retained_intron	KNOWN	None	1587	None	None	43480650	43485554	1	None	DIP1, GCIP
15	CCNDBP1	ENSG00000166946	ENST00000568936	retained_intron	KNOWN	None	1587	None	None	43481460	43485533	1	None	DIP1, GCIP
15	CCNDBP1	ENSG00000166946	ENST00000565958	retained_intron	KNOWN	None	1587	None	None	43486382	43487396	1	None	DIP1, GCIP
15	CCNDBP1	ENSG00000166946	ENST00000356633	protein_coding	KNOWN	None	1587	600	199	43477637	43487378	1	None	DIP1, GCIP
9	None	ENSG00000227921	ENST00000426179	protein_coding	PUTATIVE	None	None	122	39	40028620	40032417	1	None	None
X	RAB40AL	ENSG00000102128	ENST00000218249	protein_coding	KNOWN	CCDS35353	25410	837	278	102192200	102193228	1	None	RAR2, RLGP
X	BEX1	ENSG00000133169	ENST00000372728	protein_coding	KNOWN	CCDS35354	1036	378	125	102317579	102319168	-1	None	None
X	SLC35A2	ENSG00000102100	ENST00000247138	protein_coding	KNOWN	CCDS14311	11022	1191	396	48760459	48768917	-1	UGALT	UGAT, UGT, UGT1, UGT2, UGTL
X	SLC35A2	ENSG00000102100	ENST00000376529	protein_coding	KNOWN	None	11022	675	224	48760538	48768913	-1	UGALT	UGAT, UGT, UGT1, UGT2, UGTL
X	SLC35A2	ENSG00000102100	ENST00000376521	protein_coding	KNOWN	CCDS43937	11022	1182	393	48760889	48769235	-1	UGALT	UGAT, UGT, UGT1, UGT2, UGTL
X	SLC35A2	ENSG00000102100	ENST00000445167	protein_coding	KNOWN	CCDS35247	11022	729	242	48760890	48768933	-1	UGALT	UGAT, UGT, UGT1, UGT2, UGTL
X	SLC35A2	ENSG00000102100	ENST00000376515	protein_coding	KNOWN	None	11022	657	218	48761605	48769235	-1	UGALT	UGAT, UGT, UGT1, UGT2, UGTL
X	SLC35A2	ENSG00000102100	ENST00000446885	protein_coding	KNOWN	None	11022	527	174	48762443	48769214	-1	UGALT	UGAT, UGT, UGT1, UGT2, UGTL
X	SLC35A2	ENSG00000102100	ENST00000376512	protein_coding	KNOWN	None	11022	492	163	48763473	48768946	-1	UGALT	UGAT, UGT, UGT1, UGT2, UGTL
X	SLC35A2	ENSG00000102100	ENST00000413561	protein_coding	KNOWN	None	11022	999	332	48761589	48768923	-1	UGALT	UGAT, UGT, UGT1, UGT2, UGTL
X	SLC35A2	ENSG00000102100	ENST00000452555	protein_coding	KNOWN	None	11022	1266	421	48761717	48768923	-1	UGALT	UGAT, UGT, UGT1, UGT2, UGTL
9	SPATA31A3	ENSG00000147926	ENST00000356699	protein_coding	KNOWN	CCDS47969	32003	4044	1347	40700291	40706537	1	FAM75A3	OTTHUMG00000013164, DKFZp434B204
9	SPATA31A3	ENSG00000147926	ENST00000463536	processed_transcript	KNOWN	None	32003	None	None	40701913	40703262	1	FAM75A3	OTTHUMG00000013164, DKFZp434B204
8	TTI2	ENSG00000129696	ENST00000519356	processed_transcript	KNOWN	None	26262	None	None	33330904	33367303	-1	C8orf41	FLJ23263
8	TTI2	ENSG00000129696	ENST00000360742	protein_coding	KNOWN	CCDS6090	26262	1527	508	33356472	33370627	-1	C8orf41	FLJ23263
8	TTI2	ENSG00000129696	ENST00000431156	protein_coding	KNOWN	CCDS6090	26262	1527	508	33356474	33371119	-1	C8orf41	FLJ23263
8	TTI2	ENSG00000129696	ENST00000520636	protein_coding	PUTATIVE	None	26262	1434	477	33356636	33370230	-1	C8orf41	FLJ23263
8	TTI2	ENSG00000129696	ENST00000523305	protein_coding	KNOWN	None	26262	303	100	33369829	33370637	-1	C8orf41	FLJ23263
14	MNAT1	ENSG00000020426	ENST00000555545	processed_transcript	PUTATIVE	None	7181	None	None	61201460	61220672	1	None	MAT1, RNF66
14	MNAT1	ENSG00000020426	ENST00000261245	protein_coding	KNOWN	CCDS9750	7181	930	309	61201480	61436671	1	None	MAT1, RNF66
14	MNAT1	ENSG00000020426	ENST00000556764	retained_intron	KNOWN	None	7181	None	None	61201491	61275733	1	None	MAT1, RNF66
14	MNAT1	ENSG00000020426	ENST00000539616	protein_coding	KNOWN	CCDS53899	7181	804	267	61201494	61435396	1	None	MAT1, RNF66
14	MNAT1	ENSG00000020426	ENST00000553354	processed_transcript	PUTATIVE	None	7181	None	None	61201497	61275146	1	None	MAT1, RNF66
14	MNAT1	ENSG00000020426	ENST00000556525	processed_transcript	KNOWN	None	7181	None	None	61263038	61285578	1	None	MAT1, RNF66
14	MNAT1	ENSG00000020426	ENST00000554002	protein_coding	PUTATIVE	None	7181	522	173	61275042	61435398	1	None	MAT1, RNF66
14	MNAT1	ENSG00000020426	ENST00000554641	retained_intron	KNOWN	None	7181	None	None	61278704	61346759	1	None	MAT1, RNF66
14	MNAT1	ENSG00000020426	ENST00000557134	protein_coding	KNOWN	None	7181	510	169	61278705	61435398	1	None	MAT1, RNF66
14	DCAF11	ENSG00000100897	ENST00000559017	protein_coding	KNOWN	None	20258	324	107	24583404	24586515	1	WDR23	PRO2389, GL014
14	DCAF11	ENSG00000100897	ENST00000561056	processed_transcript	PUTATIVE	None	20258	None	None	24583836	24586220	1	WDR23	PRO2389, GL014
14	DCAF11	ENSG00000100897	ENST00000559115	protein_coding	KNOWN	CCDS9610	20258	1641	546	24583836	24593238	1	WDR23	PRO2389, GL014
14	DCAF11	ENSG00000100897	ENST00000558215	protein_coding	KNOWN	None	20258	220	72	24583986	24586190	1	WDR23	PRO2389, GL014
14	DCAF11	ENSG00000100897	ENST00000557809	processed_transcript	KNOWN	None	20258	None	None	24583986	24586554	1	WDR23	PRO2389, GL014
14	DCAF11	ENSG00000100897	ENST00000557810	protein_coding	KNOWN	None	20258	367	121	24583986	24586558	1	WDR23	PRO2389, GL014
14	DCAF11	ENSG00000100897	ENST00000561375	protein_coding	NOVEL	None	20258	548	181	24583986	24587645	1	WDR23	PRO2389, GL014
14	DCAF11	ENSG00000100897	ENST00000446197	protein_coding	KNOWN	CCDS9610	20258	1641	546	24583989	24594449	1	WDR23	PRO2389, GL014
14	DCAF11	ENSG00000100897	ENST00000557802	nonsense_mediated_decay	KNOWN	None	20258	216	71	24584000	24594451	1	WDR23	PRO2389, GL014
14	DCAF11	ENSG00000100897	ENST00000559796	protein_coding	KNOWN	None	20258	202	66	24584011	24586195	1	WDR23	PRO2389, GL014
14	DCAF11	ENSG00000100897	ENST00000560713	protein_coding	NOVEL	None	20258	348	115	24584019	24586891	1	WDR23	PRO2389, GL014
14	DCAF11	ENSG00000100897	ENST00000560901	protein_coding	NOVEL	None	20258	436	144	24584019	24587343	1	WDR23	PRO2389, GL014
14	DCAF11	ENSG00000100897	ENST00000559382	protein_coding	NOVEL	None	20258	356	117	24584021	24586602	1	WDR23	PRO2389, GL014
14	DCAF11	ENSG00000100897	ENST00000561001	protein_coding	KNOWN	None	20258	384	127	24584070	24586927	1	WDR23	PRO2389, GL014
14	DCAF11	ENSG00000100897	ENST00000559396	protein_coding	KNOWN	None	20258	91	29	24584385	24584894	1	WDR23	PRO2389, GL014
14	DCAF11	ENSG00000100897	ENST00000560457	nonsense_mediated_decay	KNOWN	None	20258	216	71	24584395	24586895	1	WDR23	PRO2389, GL014
14	DCAF11	ENSG00000100897	ENST00000558706	nonsense_mediated_decay	KNOWN	None	20258	171	56	24584397	24586915	1	WDR23	PRO2389, GL014
14	DCAF11	ENSG00000100897	ENST00000561016	processed_transcript	KNOWN	None	20258	None	None	24584416	24586618	1	WDR23	PRO2389, GL014
14	DCAF11	ENSG00000100897	ENST00000560171	processed_transcript	PUTATIVE	None	20258	None	None	24584417	24587732	1	WDR23	PRO2389, GL014
14	DCAF11	ENSG00000100897	ENST00000560614	nonsense_mediated_decay	KNOWN	None	20258	171	56	24584418	24587325	1	WDR23	PRO2389, GL014
14	DCAF11	ENSG00000100897	ENST00000558638	protein_coding	NOVEL	None	20258	449	148	24584434	24587314	1	WDR23	PRO2389, GL014
14	DCAF11	ENSG00000100897	ENST00000561041	protein_coding	KNOWN	None	20258	462	153	24584447	24586927	1	WDR23	PRO2389, GL014
14	DCAF11	ENSG00000100897	ENST00000559288	protein_coding	NOVEL	None	20258	314	103	24584455	24586560	1	WDR23	PRO2389, GL014
14	DCAF11	ENSG00000100897	ENST00000557952	processed_transcript	PUTATIVE	None	20258	None	None	24584484	24586253	1	WDR23	PRO2389, GL014
14	DCAF11	ENSG00000100897	ENST00000326009	nonsense_mediated_decay	KNOWN	None	20258	216	71	24584484	24593238	1	WDR23	PRO2389, GL014
14	DCAF11	ENSG00000100897	ENST00000558408	protein_coding	KNOWN	None	20258	280	92	24584492	24586250	1	WDR23	PRO2389, GL014
14	DCAF11	ENSG00000100897	ENST00000557888	nonsense_mediated_decay	KNOWN	None	20258	216	71	24584524	24586910	1	WDR23	PRO2389, GL014
14	DCAF11	ENSG00000100897	ENST00000559354	protein_coding	KNOWN	None	20258	270	89	24584527	24586539	1	WDR23	PRO2389, GL014
14	DCAF11	ENSG00000100897	ENST00000560459	protein_coding	KNOWN	None	20258	318	105	24584535	24586564	1	WDR23	PRO2389, GL014
14	DCAF11	ENSG00000100897	ENST00000559593	protein_coding	KNOWN	None	20258	428	141	24584535	24586893	1	WDR23	PRO2389, GL014
14	DCAF11	ENSG00000100897	ENST00000558914	nonsense_mediated_decay	KNOWN	None	20258	414	137	24584535	24593005	1	WDR23	PRO2389, GL014
14	DCAF11	ENSG00000100897	ENST00000396941	protein_coding	KNOWN	CCDS41929	20258	1563	520	24584535	24593238	1	WDR23	PRO2389, GL014
14	DCAF11	ENSG00000100897	ENST00000559451	nonsense_mediated_decay	KNOWN	None	20258	171	56	24584537	24587307	1	WDR23	PRO2389, GL014
14	DCAF11	ENSG00000100897	ENST00000396936	protein_coding	KNOWN	None	20258	1341	446	24584583	24593190	1	WDR23	PRO2389, GL014
14	DCAF11	ENSG00000100897	ENST00000560046	retained_intron	KNOWN	None	20258	None	None	24586543	24588611	1	WDR23	PRO2389, GL014
14	DCAF11	ENSG00000100897	ENST00000558624	retained_intron	KNOWN	None	20258	None	None	24587752	24593239	1	WDR23	PRO2389, GL014
14	DCAF11	ENSG00000100897	ENST00000559144	protein_coding	PUTATIVE	None	20258	798	265	24588355	24592571	1	WDR23	PRO2389, GL014
14	DCAF11	ENSG00000100897	ENST00000559472	retained_intron	KNOWN	None	20258	None	None	24590168	24591383	1	WDR23	PRO2389, GL014
9	ZNF658	ENSG00000196409	ENST00000479710	nonsense_mediated_decay	KNOWN	None	25226	1854	617	40760700	40836415	-1	None	MGC35232, DKFZp572C163, FLJ32813
9	ZNF658	ENSG00000196409	ENST00000602553	protein_coding	KNOWN	CCDS35023	25226	3180	1059	40771415	40792098	-1	None	MGC35232, DKFZp572C163, FLJ32813
9	ZNF658	ENSG00000196409	ENST00000377626	protein_coding	KNOWN	CCDS35023	25226	3180	1059	40771900	40792063	-1	None	MGC35232, DKFZp572C163, FLJ32813
9	ZNF658	ENSG00000196409	ENST00000441795	protein_coding	KNOWN	None	25226	1848	615	40768558	40792098	-1	None	MGC35232, DKFZp572C163, FLJ32813
8	MAK16	ENSG00000198042	ENST00000360128	protein_coding	KNOWN	CCDS6089	13703	903	300	33342268	33358778	1	RBM13	MAK16L
8	MAK16	ENSG00000198042	ENST00000517567	retained_intron	KNOWN	None	13703	None	None	33342700	33346530	1	RBM13	MAK16L
8	MAK16	ENSG00000198042	ENST00000520763	retained_intron	KNOWN	None	13703	None	None	33342700	33346809	1	RBM13	MAK16L
8	MAK16	ENSG00000198042	ENST00000518389	nonsense_mediated_decay	KNOWN	None	13703	412	136	33342718	33356164	1	RBM13	MAK16L
8	MAK16	ENSG00000198042	ENST00000519089	retained_intron	KNOWN	None	13703	None	None	33342725	33346120	1	RBM13	MAK16L
X	PIM2	ENSG00000102096	ENST00000376509	protein_coding	KNOWN	CCDS14312	8987	936	311	48770459	48776301	-1	None	None
X	PIM2	ENSG00000102096	ENST00000485431	processed_transcript	KNOWN	None	8987	None	None	48771381	48772191	-1	None	None
X	PIM2	ENSG00000102096	ENST00000442430	protein_coding	KNOWN	None	8987	435	144	48771673	48773012	-1	None	None
8	MED30	ENSG00000164758	ENST00000297347	protein_coding	KNOWN	CCDS6323	23032	537	178	118532952	118552501	1	THRAP6	TRAP25
8	MED30	ENSG00000164758	ENST00000519879	retained_intron	KNOWN	None	23032	None	None	118533003	118541144	1	THRAP6	TRAP25
8	MED30	ENSG00000164758	ENST00000522839	protein_coding	NOVEL	None	23032	432	143	118533072	118552217	1	THRAP6	TRAP25
8	MED30	ENSG00000164758	ENST00000519391	retained_intron	KNOWN	None	23032	None	None	118542603	118552241	1	THRAP6	TRAP25
X	OTUD5	ENSG00000068308	ENST00000455452	protein_coding	KNOWN	None	25402	1335	444	48779483	48814451	-1	None	DKFZp761A052, DUBA
X	OTUD5	ENSG00000068308	ENST00000156084	protein_coding	KNOWN	CCDS14313	25402	1716	571	48779488	48814893	-1	None	DKFZp761A052, DUBA
X	OTUD5	ENSG00000068308	ENST00000376488	protein_coding	KNOWN	CCDS48104	25402	1701	566	48779489	48814861	-1	None	DKFZp761A052, DUBA
X	OTUD5	ENSG00000068308	ENST00000428668	protein_coding	KNOWN	CCDS48105	25402	1050	349	48780220	48815648	-1	None	DKFZp761A052, DUBA
X	OTUD5	ENSG00000068308	ENST00000484499	processed_transcript	KNOWN	None	25402	None	None	48783210	48814318	-1	None	DKFZp761A052, DUBA
X	OTUD5	ENSG00000068308	ENST00000481142	processed_transcript	KNOWN	None	25402	None	None	48791855	48793610	-1	None	DKFZp761A052, DUBA
X	OTUD5	ENSG00000068308	ENST00000396743	protein_coding	KNOWN	CCDS48104	25402	1701	566	48779305	48814893	-1	None	DKFZp761A052, DUBA
15	PAK6	ENSG00000137843	ENST00000561230	protein_coding	KNOWN	None	16061	314	103	40530960	40558152	1	None	PAK5
15	PAK6	ENSG00000137843	ENST00000558055	protein_coding	KNOWN	None	16061	366	121	40531255	40558204	1	None	PAK5
15	PAK6	ENSG00000137843	ENST00000455577	protein_coding	NOVEL	None	16061	1911	636	40531292	40569687	1	None	PAK5
15	PAK6	ENSG00000137843	ENST00000560346	protein_coding	KNOWN	CCDS10054	16061	2046	681	40531621	40569686	1	None	PAK5
15	PAK6	ENSG00000137843	ENST00000260404	protein_coding	KNOWN	CCDS10054	16061	2046	681	40532071	40569688	1	None	PAK5
15	PAK6	ENSG00000137843	ENST00000558878	protein_coding	PUTATIVE	None	16061	173	56	40532723	40557141	1	None	PAK5
15	PAK6	ENSG00000137843	ENST00000558183	protein_coding	PUTATIVE	None	16061	222	73	40532768	40557190	1	None	PAK5
15	PAK6	ENSG00000137843	ENST00000560806	protein_coding	PUTATIVE	None	16061	60	19	40532846	40557028	1	None	PAK5
15	PAK6	ENSG00000137843	ENST00000558106	protein_coding	KNOWN	None	16061	369	122	40544391	40558207	1	None	PAK5
15	PAK6	ENSG00000137843	ENST00000559617	protein_coding	KNOWN	None	16061	337	111	40544749	40558175	1	None	PAK5
15	PAK6	ENSG00000137843	ENST00000560684	protein_coding	PUTATIVE	None	16061	213	70	40544752	40557181	1	None	PAK5
15	PAK6	ENSG00000137843	ENST00000559139	protein_coding	KNOWN	None	16061	327	108	40545089	40558165	1	None	PAK5
15	PAK6	ENSG00000137843	ENST00000560669	protein_coding	KNOWN	None	16061	854	283	40545204	40558692	1	None	PAK5
15	PAK6	ENSG00000137843	ENST00000542403	protein_coding	NOVEL	CCDS10054	16061	2046	681	40545385	40569688	1	None	PAK5
15	PAK6	ENSG00000137843	ENST00000559901	processed_transcript	KNOWN	None	16061	None	None	40558215	40559183	1	None	PAK5
15	PAK6	ENSG00000137843	ENST00000557926	processed_transcript	KNOWN	None	16061	None	None	40558813	40564555	1	None	PAK5
15	PAK6	ENSG00000137843	ENST00000557808	retained_intron	KNOWN	None	16061	None	None	40566131	40568585	1	None	PAK5
15	PAK6	ENSG00000137843	ENST00000441369	protein_coding	KNOWN	CCDS10054	16061	2046	681	40509629	40569687	1	None	PAK5
15	PAK6	ENSG00000137843	ENST00000453867	protein_coding	KNOWN	CCDS10054	16061	2046	681	40509629	40569687	1	None	PAK5
8	RNF122	ENSG00000133874	ENST00000256257	protein_coding	KNOWN	CCDS6091	21147	468	155	33405273	33424643	-1	None	FLJ12526
8	DUSP26	ENSG00000133878	ENST00000256261	protein_coding	KNOWN	CCDS6092	28161	636	211	33448856	33457624	-1	None	MGC1136, DUSP24
8	DUSP26	ENSG00000133878	ENST00000523956	protein_coding	KNOWN	CCDS6092	28161	636	211	33449366	33457496	-1	None	MGC1136, DUSP24
8	DUSP26	ENSG00000133878	ENST00000522982	protein_coding	KNOWN	None	28161	437	144	33451050	33455325	-1	None	MGC1136, DUSP24
4	None	ENSG00000269559	ENST00000600169	protein_coding	KNOWN	None	None	759	252	75023327	75024085	-1	None	None
8	UNC5D	ENSG00000156687	ENST00000404895	protein_coding	KNOWN	CCDS6093	18634	2862	953	35092975	35648143	1	None	KIAA1777, Unc5h4
8	UNC5D	ENSG00000156687	ENST00000420357	protein_coding	NOVEL	None	18634	2661	886	35093283	35648366	1	None	KIAA1777, Unc5h4
8	UNC5D	ENSG00000156687	ENST00000287272	protein_coding	NOVEL	None	18634	2655	884	35093283	35654068	1	None	KIAA1777, Unc5h4
8	UNC5D	ENSG00000156687	ENST00000416672	protein_coding	NOVEL	None	18634	2877	958	35093293	35648726	1	None	KIAA1777, Unc5h4
8	UNC5D	ENSG00000156687	ENST00000453357	protein_coding	KNOWN	None	18634	2847	948	35401910	35652180	1	None	KIAA1777, Unc5h4
8	UNC5D	ENSG00000156687	ENST00000474634	retained_intron	KNOWN	None	18634	None	None	35541100	35585385	1	None	KIAA1777, Unc5h4
8	UNC5D	ENSG00000156687	ENST00000449677	protein_coding	PUTATIVE	None	18634	1590	529	35581669	35648828	1	None	KIAA1777, Unc5h4
8	None	ENSG00000233863	ENST00000437887	protein_coding	KNOWN	None	None	417	138	35649365	35653384	1	None	None
8	KCNU1	ENSG00000215262	ENST00000523973	protein_coding	PUTATIVE	None	18867	926	307	36641842	36671918	1	None	KCa5.1, Slo3, KCNMC1, Kcnma3
8	KCNU1	ENSG00000215262	ENST00000399881	protein_coding	KNOWN	CCDS55220	18867	3450	1149	36641892	36793646	1	None	KCa5.1, Slo3, KCNMC1, Kcnma3
8	KCNU1	ENSG00000215262	ENST00000522372	nonsense_mediated_decay	KNOWN	None	18867	2844	947	36641901	36793643	1	None	KCa5.1, Slo3, KCNMC1, Kcnma3
8	KCNU1	ENSG00000215262	ENST00000522417	nonsense_mediated_decay	KNOWN	None	18867	342	113	36641917	36664922	1	None	KCa5.1, Slo3, KCNMC1, Kcnma3
8	KCNU1	ENSG00000215262	ENST00000518904	protein_coding	PUTATIVE	None	18867	156	51	36786423	36788663	1	None	KCa5.1, Slo3, KCNMC1, Kcnma3
X	KCND1	ENSG00000102057	ENST00000376477	protein_coding	KNOWN	None	6237	813	270	48818639	48824793	-1	None	Kv4.1
X	KCND1	ENSG00000102057	ENST00000218176	protein_coding	KNOWN	CCDS14314	6237	1944	647	48818647	48827976	-1	None	Kv4.1
X	KCND1	ENSG00000102057	ENST00000419374	protein_coding	KNOWN	None	6237	397	131	48822497	48823165	-1	None	Kv4.1
15	TGM5	ENSG00000104055	ENST00000220420	protein_coding	KNOWN	CCDS32212	11781	2163	720	43524793	43559055	-1	None	TGX
15	TGM5	ENSG00000104055	ENST00000349114	protein_coding	KNOWN	CCDS32211	11781	1917	638	43525356	43559055	-1	None	TGX
15	TGM5	ENSG00000104055	ENST00000396996	retained_intron	KNOWN	None	11781	None	None	43525375	43531941	-1	None	TGX
15	TGM5	ENSG00000104055	ENST00000563838	retained_intron	KNOWN	None	11781	None	None	43531251	43533448	-1	None	TGX
4	EPGN	ENSG00000182585	ENST00000413830	protein_coding	KNOWN	CCDS59478	17470	465	154	75174190	75181024	1	None	epigen, EPG, PRO9904, ALGV3072
4	EPGN	ENSG00000182585	ENST00000502835	nonsense_mediated_decay	KNOWN	None	17470	285	94	75174191	75180387	1	None	epigen, EPG, PRO9904, ALGV3072
4	EPGN	ENSG00000182585	ENST00000332112	protein_coding	PUTATIVE	None	17470	402	133	75174204	75179307	1	None	epigen, EPG, PRO9904, ALGV3072
4	EPGN	ENSG00000182585	ENST00000514968	protein_coding	NOVEL	CCDS59475	17470	312	103	75174251	75180354	1	None	epigen, EPG, PRO9904, ALGV3072
4	EPGN	ENSG00000182585	ENST00000503098	protein_coding	NOVEL	CCDS59477	17470	339	112	75174251	75180354	1	None	epigen, EPG, PRO9904, ALGV3072
4	EPGN	ENSG00000182585	ENST00000502358	protein_coding	NOVEL	CCDS59479	17470	312	103	75174251	75180354	1	None	epigen, EPG, PRO9904, ALGV3072
4	EPGN	ENSG00000182585	ENST00000509145	protein_coding	NOVEL	None	17470	222	73	75174251	75180354	1	None	epigen, EPG, PRO9904, ALGV3072
4	EPGN	ENSG00000182585	ENST00000505212	protein_coding	NOVEL	CCDS59476	17470	285	94	75174251	75180354	1	None	epigen, EPG, PRO9904, ALGV3072
4	EPGN	ENSG00000182585	ENST00000446430	protein_coding	NOVEL	None	17470	391	129	75174814	75180701	1	None	epigen, EPG, PRO9904, ALGV3072
X	GRIPAP1	ENSG00000068400	ENST00000376425	protein_coding	KNOWN	None	18706	2433	810	48830134	48858645	-1	None	GRASP-1, GRASP1, KIAA1167, MPMGp800B12492Q3, DKFZp434P0630
X	GRIPAP1	ENSG00000068400	ENST00000376444	protein_coding	KNOWN	None	18706	2391	796	48830134	48858660	-1	None	GRASP-1, GRASP1, KIAA1167, MPMGp800B12492Q3, DKFZp434P0630
X	GRIPAP1	ENSG00000068400	ENST00000376441	protein_coding	KNOWN	CCDS35248	18706	2526	841	48830134	48858675	-1	None	GRASP-1, GRASP1, KIAA1167, MPMGp800B12492Q3, DKFZp434P0630
X	GRIPAP1	ENSG00000068400	ENST00000473581	processed_transcript	KNOWN	None	18706	None	None	48833319	48847798	-1	None	GRASP-1, GRASP1, KIAA1167, MPMGp800B12492Q3, DKFZp434P0630
X	GRIPAP1	ENSG00000068400	ENST00000376423	protein_coding	KNOWN	CCDS35249	18706	1878	625	48833319	48858673	-1	None	GRASP-1, GRASP1, KIAA1167, MPMGp800B12492Q3, DKFZp434P0630
X	GRIPAP1	ENSG00000068400	ENST00000488361	processed_transcript	KNOWN	None	18706	None	None	48834246	48837221	-1	None	GRASP-1, GRASP1, KIAA1167, MPMGp800B12492Q3, DKFZp434P0630
X	GRIPAP1	ENSG00000068400	ENST00000474512	processed_transcript	KNOWN	None	18706	None	None	48839804	48845063	-1	None	GRASP-1, GRASP1, KIAA1167, MPMGp800B12492Q3, DKFZp434P0630
X	GRIPAP1	ENSG00000068400	ENST00000480041	processed_transcript	PUTATIVE	None	18706	None	None	48854360	48855810	-1	None	GRASP-1, GRASP1, KIAA1167, MPMGp800B12492Q3, DKFZp434P0630
X	GRIPAP1	ENSG00000068400	ENST00000495258	processed_transcript	PUTATIVE	None	18706	None	None	48855386	48855916	-1	None	GRASP-1, GRASP1, KIAA1167, MPMGp800B12492Q3, DKFZp434P0630
8	ZNF703	ENSG00000183779	ENST00000331569	protein_coding	KNOWN	CCDS6094	25883	1773	590	37553269	37557537	1	None	FLJ14299, ZNF503L
8	None	ENSG00000183154	ENST00000330539	protein_coding	PUTATIVE	None	None	618	205	37592279	37594944	-1	None	None
X	NXF3	ENSG00000147206	ENST00000395065	protein_coding	KNOWN	CCDS14503	8073	1596	531	102330738	102348053	-1	None	None
X	NXF3	ENSG00000147206	ENST00000497850	processed_transcript	KNOWN	None	8073	None	None	102330752	102336663	-1	None	None
X	NXF3	ENSG00000147206	ENST00000468528	processed_transcript	KNOWN	None	8073	None	None	102331204	102334655	-1	None	None
X	NXF3	ENSG00000147206	ENST00000470724	processed_transcript	KNOWN	None	8073	None	None	102332603	102335076	-1	None	None
X	NXF3	ENSG00000147206	ENST00000427570	protein_coding	KNOWN	None	8073	1081	359	102332663	102338600	-1	None	None
X	NXF3	ENSG00000147206	ENST00000494300	processed_transcript	KNOWN	None	8073	None	None	102334311	102335662	-1	None	None
X	NXF3	ENSG00000147206	ENST00000497215	processed_transcript	KNOWN	None	8073	None	None	102334760	102336971	-1	None	None
X	NXF3	ENSG00000147206	ENST00000460791	processed_transcript	KNOWN	None	8073	None	None	102337024	102338408	-1	None	None
X	NXF3	ENSG00000147206	ENST00000425644	protein_coding	KNOWN	None	8073	612	203	102330752	102348022	-1	None	None
X	NXF3	ENSG00000147206	ENST00000425463	protein_coding	KNOWN	None	8073	702	233	102336914	102348157	-1	None	None
8	ERLIN2	ENSG00000147475	ENST00000397228	protein_coding	KNOWN	CCDS34879	1356	459	152	37594117	37604040	1	C8orf2, SPFH2, Erlin-2	NET32, SPG18
8	ERLIN2	ENSG00000147475	ENST00000519872	retained_intron	KNOWN	None	1356	None	None	37594119	37598232	1	C8orf2, SPFH2, Erlin-2	NET32, SPG18
8	ERLIN2	ENSG00000147475	ENST00000518526	protein_coding	PUTATIVE	None	1356	592	196	37594141	37609215	1	C8orf2, SPFH2, Erlin-2	NET32, SPG18
8	ERLIN2	ENSG00000147475	ENST00000523887	protein_coding	KNOWN	None	1356	621	206	37594143	37604068	1	C8orf2, SPFH2, Erlin-2	NET32, SPG18
8	ERLIN2	ENSG00000147475	ENST00000276461	protein_coding	KNOWN	CCDS6095	1356	1020	339	37594145	37616619	1	C8orf2, SPFH2, Erlin-2	NET32, SPG18
8	ERLIN2	ENSG00000147475	ENST00000518586	protein_coding	PUTATIVE	None	1356	621	206	37594199	37604071	1	C8orf2, SPFH2, Erlin-2	NET32, SPG18
8	ERLIN2	ENSG00000147475	ENST00000335171	protein_coding	PUTATIVE	CCDS34879	1356	459	152	37594203	37604066	1	C8orf2, SPFH2, Erlin-2	NET32, SPG18
8	ERLIN2	ENSG00000147475	ENST00000521644	protein_coding	PUTATIVE	None	1356	1016	337	37594210	37611629	1	C8orf2, SPFH2, Erlin-2	NET32, SPG18
8	ERLIN2	ENSG00000147475	ENST00000523107	protein_coding	KNOWN	None	1356	621	206	37594526	37602439	1	C8orf2, SPFH2, Erlin-2	NET32, SPG18
8	ERLIN2	ENSG00000147475	ENST00000519638	protein_coding	PUTATIVE	CCDS6095	1356	1020	339	37595084	37611974	1	C8orf2, SPFH2, Erlin-2	NET32, SPG18
8	ERLIN2	ENSG00000147475	ENST00000521993	retained_intron	KNOWN	None	1356	None	None	37597883	37607684	1	C8orf2, SPFH2, Erlin-2	NET32, SPG18
15	TGM7	ENSG00000159495	ENST00000562372	retained_intron	KNOWN	None	30790	None	None	43568478	43569205	-1	None	TGMZ
15	TGM7	ENSG00000159495	ENST00000452443	protein_coding	KNOWN	CCDS32213	30790	2133	710	43568478	43594453	-1	None	TGMZ
15	LCMT2	ENSG00000168806	ENST00000305641	protein_coding	KNOWN	CCDS10094	17558	2061	686	43619974	43622803	-1	None	KIAA0547, MGC9534, TYW4, PPM2
15	LCMT2	ENSG00000168806	ENST00000567039	protein_coding	PUTATIVE	None	17558	120	39	43620484	43622780	-1	None	KIAA0547, MGC9534, TYW4, PPM2
15	LCMT2	ENSG00000168806	ENST00000544735	protein_coding	KNOWN	None	17558	798	265	43620484	43622773	-1	None	KIAA0547, MGC9534, TYW4, PPM2
15	ADAL	ENSG00000168803	ENST00000428046	protein_coding	KNOWN	CCDS53936	31853	987	328	43622872	43646096	1	None	None
15	ADAL	ENSG00000168803	ENST00000389651	protein_coding	KNOWN	CCDS32214	31853	804	267	43622925	43641610	1	None	None
15	ADAL	ENSG00000168803	ENST00000565555	retained_intron	KNOWN	None	31853	None	None	43623023	43624581	1	None	None
15	ADAL	ENSG00000168803	ENST00000563551	nonsense_mediated_decay	KNOWN	None	31853	108	35	43624173	43638075	1	None	None
15	ADAL	ENSG00000168803	ENST00000562188	protein_coding	KNOWN	None	31853	1068	355	43627290	43644287	1	None	None
15	ADAL	ENSG00000168803	ENST00000566154	protein_coding	PUTATIVE	None	31853	332	109	43638105	43645507	1	None	None
15	ADAL	ENSG00000168803	ENST00000422466	protein_coding	KNOWN	None	31853	1068	355	43622872	43646094	1	None	None
14	None	ENSG00000259371	ENST00000558325	protein_coding	PUTATIVE	None	None	828	275	24590560	24601038	1	None	None
20	RPL37P1	ENSG00000227401	ENST00000432310	processed_pseudogene	KNOWN	None	16337	None	None	34176246	34176529	1	None	bA563A22B.2
14	FITM1	ENSG00000139914	ENST00000267426	protein_coding	KNOWN	CCDS9611	33714	879	292	24600484	24602058	1	None	FIT1
14	FITM1	ENSG00000139914	ENST00000559294	protein_coding	PUTATIVE	None	33714	291	96	24601259	24602058	1	None	FIT1
20	RN7SKP271	ENSG00000222460	ENST00000410528	misc_RNA	KNOWN	None	45995	None	None	34231065	34231384	1	None	None
20	RNU6-759P	ENSG00000252549	ENST00000516740	snRNA	KNOWN	None	47722	None	None	34235250	34235352	-1	None	None
20	None	ENSG00000238549	ENST00000459110	snoRNA	NOVEL	None	None	None	None	34304393	34304492	1	None	None
20	RPF2P1	ENSG00000225357	ENST00000424137	processed_pseudogene	KNOWN	None	16186	None	None	34340736	34341641	1	C20orf53, BXDC1P, RPF2P	bA353C18.4
14	PSME1	ENSG00000092010	ENST00000206451	protein_coding	KNOWN	CCDS9612	9568	750	249	24605367	24608176	1	None	IFI5111, PA28alpha
14	PSME1	ENSG00000092010	ENST00000559123	protein_coding	PUTATIVE	None	9568	273	90	24605372	24608168	1	None	IFI5111, PA28alpha
14	PSME1	ENSG00000092010	ENST00000561059	retained_intron	KNOWN	None	9568	None	None	24605406	24607508	1	None	IFI5111, PA28alpha
14	PSME1	ENSG00000092010	ENST00000561142	retained_intron	KNOWN	None	9568	None	None	24605406	24607996	1	None	IFI5111, PA28alpha
14	PSME1	ENSG00000092010	ENST00000382708	protein_coding	KNOWN	CCDS41930	9568	753	250	24605409	24608173	1	None	IFI5111, PA28alpha
14	PSME1	ENSG00000092010	ENST00000561435	protein_coding	PUTATIVE	None	9568	702	233	24605436	24608176	1	None	IFI5111, PA28alpha
14	PSME1	ENSG00000092010	ENST00000470718	processed_transcript	KNOWN	None	9568	None	None	24605437	24606970	1	None	IFI5111, PA28alpha
14	PSME1	ENSG00000092010	ENST00000559741	retained_intron	KNOWN	None	9568	None	None	24606607	24608168	1	None	IFI5111, PA28alpha
14	PSME1	ENSG00000092010	ENST00000560420	retained_intron	KNOWN	None	9568	None	None	24606729	24608113	1	None	IFI5111, PA28alpha
14	PSME1	ENSG00000092010	ENST00000558112	nonsense_mediated_decay	KNOWN	None	9568	345	114	24606729	24608168	1	None	IFI5111, PA28alpha
20	RNU6-1166P	ENSG00000222152	ENST00000410220	snRNA	KNOWN	None	48129	None	None	34357707	34357789	-1	None	None
20	COX7BP2	ENSG00000234274	ENST00000437976	processed_pseudogene	KNOWN	None	16601	None	None	34438596	34438837	-1	None	dJ901O8.2
20	None	ENSG00000199676	ENST00000362806	misc_RNA	NOVEL	None	None	None	None	34441174	34441286	-1	None	None
20	HIGD1AP16	ENSG00000219608	ENST00000450986	processed_pseudogene	KNOWN	None	43011	None	None	34466398	34466655	1	None	None
20	RNU4-40P	ENSG00000201221	ENST00000364351	snRNA	KNOWN	None	46976	None	None	34475581	34475723	1	None	None
20	RNU6-937P	ENSG00000207053	ENST00000384325	snRNA	KNOWN	None	47900	None	None	34516492	34516597	-1	None	None
15	ZSCAN29	ENSG00000140265	ENST00000396976	protein_coding	KNOWN	CCDS10095	26673	2559	852	43650370	43662246	-1	ZNF690	FLJ35867, Zfp690
15	ZSCAN29	ENSG00000140265	ENST00000566849	nonsense_mediated_decay	KNOWN	None	26673	600	199	43653216	43662260	-1	ZNF690	FLJ35867, Zfp690
15	ZSCAN29	ENSG00000140265	ENST00000562072	protein_coding	PUTATIVE	None	26673	1671	556	43653271	43662108	-1	ZNF690	FLJ35867, Zfp690
15	ZSCAN29	ENSG00000140265	ENST00000568898	protein_coding	PUTATIVE	None	26673	1389	462	43653271	43662108	-1	ZNF690	FLJ35867, Zfp690
15	ZSCAN29	ENSG00000140265	ENST00000570181	protein_coding	PUTATIVE	None	26673	993	330	43655947	43661874	-1	ZNF690	FLJ35867, Zfp690
15	ZSCAN29	ENSG00000140265	ENST00000561661	protein_coding	KNOWN	None	26673	63	20	43662049	43663223	-1	ZNF690	FLJ35867, Zfp690
15	ZSCAN29	ENSG00000140265	ENST00000563508	processed_transcript	KNOWN	None	26673	None	None	43662196	43663105	-1	ZNF690	FLJ35867, Zfp690
15	ZSCAN29	ENSG00000140265	ENST00000396972	protein_coding	KNOWN	None	26673	1392	463	43650370	43662258	-1	ZNF690	FLJ35867, Zfp690
20	LINC00657	ENSG00000260032	ENST00000565493	lincRNA	KNOWN	None	44311	None	None	34633544	34638882	-1	None	None
8	PROSC	ENSG00000147471	ENST00000328195	protein_coding	KNOWN	CCDS6096	9457	828	275	37620111	37637283	1	None	None
8	PROSC	ENSG00000147471	ENST00000520073	retained_intron	KNOWN	None	9457	None	None	37620113	37624259	1	None	None
8	PROSC	ENSG00000147471	ENST00000523358	protein_coding	PUTATIVE	None	9457	456	151	37620118	37630409	1	None	None
8	PROSC	ENSG00000147471	ENST00000523187	protein_coding	PUTATIVE	None	9457	411	136	37620118	37632969	1	None	None
8	PROSC	ENSG00000147471	ENST00000518036	nonsense_mediated_decay	KNOWN	None	9457	225	74	37620128	37630384	1	None	None
8	PROSC	ENSG00000147471	ENST00000523994	retained_intron	KNOWN	None	9457	None	None	37620173	37624234	1	None	None
8	PROSC	ENSG00000147471	ENST00000523521	protein_coding	PUTATIVE	None	9457	384	127	37623798	37632999	1	None	None
8	PROSC	ENSG00000147471	ENST00000521631	retained_intron	KNOWN	None	9457	None	None	37630271	37632991	1	None	None
8	PROSC	ENSG00000147471	ENST00000522808	retained_intron	KNOWN	None	9457	None	None	37632454	37635598	1	None	None
20	None	ENSG00000234139	ENST00000430679	lincRNA	KNOWN	None	None	None	None	34660363	34662831	1	None	None
20	None	ENSG00000234139	ENST00000450129	lincRNA	KNOWN	None	None	None	None	34660600	34673182	1	None	None
15	TUBGCP4	ENSG00000137822	ENST00000570081	processed_transcript	KNOWN	None	16691	None	None	43661419	43668822	1	None	76P, FLJ14797
15	TUBGCP4	ENSG00000137822	ENST00000563517	nonsense_mediated_decay	KNOWN	None	16691	249	82	43663271	43670101	1	None	76P, FLJ14797
15	TUBGCP4	ENSG00000137822	ENST00000260383	protein_coding	KNOWN	None	16691	2004	667	43663299	43697771	1	None	76P, FLJ14797
15	TUBGCP4	ENSG00000137822	ENST00000564079	protein_coding	KNOWN	CCDS42030	16691	2001	666	43663313	43699293	1	None	76P, FLJ14797
15	TUBGCP4	ENSG00000137822	ENST00000561691	nonsense_mediated_decay	KNOWN	None	16691	1193	396	43668738	43697517	1	None	76P, FLJ14797
15	TUBGCP4	ENSG00000137822	ENST00000564511	retained_intron	KNOWN	None	16691	None	None	43669796	43675702	1	None	76P, FLJ14797
15	TUBGCP4	ENSG00000137822	ENST00000563412	nonsense_mediated_decay	KNOWN	None	16691	312	103	43670090	43678114	1	None	76P, FLJ14797
15	TUBGCP4	ENSG00000137822	ENST00000563963	retained_intron	KNOWN	None	16691	None	None	43686279	43697521	1	None	76P, FLJ14797
15	TUBGCP4	ENSG00000137822	ENST00000562053	retained_intron	KNOWN	None	16691	None	None	43689408	43690581	1	None	76P, FLJ14797
15	TUBGCP4	ENSG00000137822	ENST00000563147	protein_coding	NOVEL	None	16691	516	171	43690328	43697742	1	None	76P, FLJ14797
15	TUBGCP4	ENSG00000137822	ENST00000565548	protein_coding	PUTATIVE	None	16691	318	105	43694004	43699258	1	None	76P, FLJ14797
15	TUBGCP4	ENSG00000137822	ENST00000566251	nonsense_mediated_decay	KNOWN	None	16691	201	66	43694016	43697526	1	None	76P, FLJ14797
15	TUBGCP4	ENSG00000137822	ENST00000399460	protein_coding	KNOWN	None	16691	1029	342	43668738	43697516	1	None	76P, FLJ14797
20	HMGB3P2	ENSG00000231470	ENST00000411913	processed_pseudogene	KNOWN	None	16574	None	None	34663940	34664523	-1	HMG4L2, HMGB3L2	dJ550H1.1
20	None	ENSG00000237063	ENST00000433587	lincRNA	KNOWN	None	None	None	None	34674174	34676114	-1	None	None
20	None	ENSG00000239089	ENST00000458846	snoRNA	NOVEL	None	None	None	None	34708884	34708994	1	None	None
X	TFE3	ENSG00000068323	ENST00000493583	processed_transcript	KNOWN	None	11752	None	None	48886242	48900936	-1	None	TFEA, bHLHe33
X	TFE3	ENSG00000068323	ENST00000478476	processed_transcript	KNOWN	None	11752	None	None	48886242	48900989	-1	None	TFEA, bHLHe33
X	TFE3	ENSG00000068323	ENST00000315869	protein_coding	KNOWN	CCDS14315	11752	1728	575	48886242	48901012	-1	None	TFEA, bHLHe33
X	TFE3	ENSG00000068323	ENST00000495940	processed_transcript	KNOWN	None	11752	None	None	48888024	48889580	-1	None	TFEA, bHLHe33
X	TFE3	ENSG00000068323	ENST00000487451	processed_transcript	KNOWN	None	11752	None	None	48888912	48897328	-1	None	TFEA, bHLHe33
X	TFE3	ENSG00000068323	ENST00000481606	processed_transcript	KNOWN	None	11752	None	None	48895264	48895784	-1	None	TFEA, bHLHe33
20	None	ENSG00000232406	ENST00000441208	processed_transcript	KNOWN	None	None	None	None	34738335	34743655	-1	None	None
14	EMC9	ENSG00000100908	ENST00000558045	retained_intron	KNOWN	None	20273	None	None	24608174	24608732	-1	C14orf122, FAM158A	CGI-112
14	EMC9	ENSG00000100908	ENST00000560403	protein_coding	PUTATIVE	None	20273	405	134	24608174	24610779	-1	C14orf122, FAM158A	CGI-112
14	EMC9	ENSG00000100908	ENST00000419198	protein_coding	KNOWN	CCDS9613	20273	627	208	24608174	24610794	-1	C14orf122, FAM158A	CGI-112
14	EMC9	ENSG00000100908	ENST00000216799	protein_coding	KNOWN	CCDS9613	20273	627	208	24608174	24610797	-1	C14orf122, FAM158A	CGI-112
14	EMC9	ENSG00000100908	ENST00000560600	nonsense_mediated_decay	KNOWN	None	20273	285	94	24608339	24610696	-1	C14orf122, FAM158A	CGI-112
14	EMC9	ENSG00000100908	ENST00000559101	retained_intron	KNOWN	None	20273	None	None	24608598	24609217	-1	C14orf122, FAM158A	CGI-112
14	EMC9	ENSG00000100908	ENST00000558200	processed_transcript	KNOWN	None	20273	None	None	24608754	24610762	-1	C14orf122, FAM158A	CGI-112
20	None	ENSG00000232907	ENST00000439595	antisense	KNOWN	None	None	None	None	35136563	35201678	-1	None	None
20	None	ENSG00000232907	ENST00000425233	antisense	KNOWN	None	None	None	None	35153904	35201387	-1	None	None
20	None	ENSG00000232907	ENST00000559455	antisense	KNOWN	None	None	None	None	35190610	35201560	-1	None	None
20	None	ENSG00000232907	ENST00000559804	antisense	KNOWN	None	None	None	None	35198895	35201794	-1	None	None
X	CCDC120	ENSG00000147144	ENST00000597275	protein_coding	KNOWN	CCDS14316	28910	1893	630	48911101	48926000	1	None	JM11
X	CCDC120	ENSG00000147144	ENST00000496529	protein_coding	KNOWN	CCDS14316	28910	1893	630	48916497	48925875	1	None	JM11
X	CCDC120	ENSG00000147144	ENST00000376396	protein_coding	KNOWN	CCDS14316	28910	1893	630	48916514	48927509	1	None	JM11
X	CCDC120	ENSG00000147144	ENST00000603986	protein_coding	KNOWN	None	28910	2091	696	48916533	48926305	1	None	JM11
X	CCDC120	ENSG00000147144	ENST00000536628	protein_coding	KNOWN	CCDS55413	28910	1857	618	48916546	48925890	1	None	JM11
X	CCDC120	ENSG00000147144	ENST00000603906	nonsense_mediated_decay	KNOWN	None	28910	192	63	48916552	48926482	1	None	JM11
X	CCDC120	ENSG00000147144	ENST00000482476	retained_intron	KNOWN	None	28910	None	None	48919409	48920196	1	None	JM11
X	CCDC120	ENSG00000147144	ENST00000603745	retained_intron	KNOWN	None	28910	None	None	48923926	48927506	1	None	JM11
X	CCDC120	ENSG00000147144	ENST00000422185	protein_coding	KNOWN	CCDS55414	28910	1986	661	48916523	48927509	1	None	JM11
X	MID1IP1	ENSG00000165175	ENST00000378474	protein_coding	KNOWN	CCDS14249	20715	552	183	38660707	38665686	1	None	STRAIT11499, FLJ10386, MIG12, THRSPL, G12-like
X	MID1IP1	ENSG00000165175	ENST00000336949	protein_coding	KNOWN	CCDS14249	20715	552	183	38662986	38665790	1	None	STRAIT11499, FLJ10386, MIG12, THRSPL, G12-like
X	MID1IP1	ENSG00000165175	ENST00000457894	protein_coding	KNOWN	CCDS14249	20715	552	183	38660685	38665781	1	None	STRAIT11499, FLJ10386, MIG12, THRSPL, G12-like
14	PSME2	ENSG00000100911	ENST00000559005	retained_intron	KNOWN	None	9569	None	None	24612574	24613161	-1	None	PA28beta
14	PSME2	ENSG00000100911	ENST00000560410	protein_coding	NOVEL	None	9569	687	228	24612574	24615814	-1	None	PA28beta
14	PSME2	ENSG00000100911	ENST00000216802	protein_coding	KNOWN	CCDS9614	9569	720	239	24612574	24616430	-1	None	PA28beta
14	PSME2	ENSG00000100911	ENST00000471700	processed_transcript	KNOWN	None	9569	None	None	24612575	24615788	-1	None	PA28beta
14	PSME2	ENSG00000100911	ENST00000559042	retained_intron	KNOWN	None	9569	None	None	24612576	24613218	-1	None	PA28beta
14	PSME2	ENSG00000100911	ENST00000559453	retained_intron	KNOWN	None	9569	None	None	24612591	24615447	-1	None	PA28beta
14	PSME2	ENSG00000100911	ENST00000558273	nonsense_mediated_decay	KNOWN	None	9569	120	39	24612614	24616444	-1	None	PA28beta
14	PSME2	ENSG00000100911	ENST00000558931	retained_intron	KNOWN	None	9569	None	None	24612616	24616467	-1	None	PA28beta
14	PSME2	ENSG00000100911	ENST00000560370	nonsense_mediated_decay	KNOWN	None	9569	147	48	24612803	24615800	-1	None	PA28beta
14	PSME2	ENSG00000100911	ENST00000559359	retained_intron	KNOWN	None	9569	None	None	24613243	24613866	-1	None	PA28beta
14	PSME2	ENSG00000100911	ENST00000559056	protein_coding	PUTATIVE	None	9569	255	84	24613412	24615523	-1	None	PA28beta
14	PSME2	ENSG00000100911	ENST00000559493	retained_intron	KNOWN	None	9569	None	None	24614009	24615787	-1	None	PA28beta
14	PSME2	ENSG00000100911	ENST00000560592	retained_intron	KNOWN	None	9569	None	None	24614343	24615830	-1	None	PA28beta
14	PSME2	ENSG00000100911	ENST00000560788	retained_intron	KNOWN	None	9569	None	None	24614379	24615805	-1	None	PA28beta
14	PSME2	ENSG00000100911	ENST00000559613	processed_transcript	KNOWN	None	9569	None	None	24614950	24615838	-1	None	PA28beta
14	PSME2	ENSG00000100911	ENST00000561103	processed_transcript	PUTATIVE	None	9569	None	None	24616019	24616779	-1	None	PA28beta
20	None	ENSG00000259729	ENST00000433238	processed_transcript	KNOWN	None	None	None	None	35141012	35154533	-1	None	None
20	None	ENSG00000259716	ENST00000561134	antisense	KNOWN	None	None	None	None	35177530	35232932	-1	None	None
20	HNRNPA3P2	ENSG00000227688	ENST00000451198	unprocessed_pseudogene	KNOWN	None	16605	None	None	35248806	35249826	1	HNRPA3P, HNRPA3P2	dJ977B1.2
20	None	ENSG00000202255	ENST00000365385	misc_RNA	NOVEL	None	None	None	None	35296962	35297073	-1	None	None
15	TP53BP1	ENSG00000067369	ENST00000263801	protein_coding	KNOWN	CCDS10096	11999	5919	1972	43699407	43802812	-1	None	53BP1, p202
15	TP53BP1	ENSG00000067369	ENST00000476454	retained_intron	KNOWN	None	11999	None	None	43699412	43709414	-1	None	53BP1, p202
15	TP53BP1	ENSG00000067369	ENST00000411772	nonsense_mediated_decay	KNOWN	None	11999	577	191	43699412	43748529	-1	None	53BP1, p202
15	TP53BP1	ENSG00000067369	ENST00000382039	protein_coding	NOVEL	None	11999	5784	1927	43699412	43785303	-1	None	53BP1, p202
15	TP53BP1	ENSG00000067369	ENST00000382044	protein_coding	KNOWN	CCDS45250	11999	5934	1977	43699412	43785369	-1	None	53BP1, p202
15	TP53BP1	ENSG00000067369	ENST00000450115	protein_coding	KNOWN	CCDS45251	11999	5928	1975	43699414	43785325	-1	None	53BP1, p202
15	TP53BP1	ENSG00000067369	ENST00000434595	protein_coding	NOVEL	None	11999	446	147	43701208	43705484	-1	None	53BP1, p202
15	TP53BP1	ENSG00000067369	ENST00000434561	nonsense_mediated_decay	KNOWN	None	11999	492	163	43705467	43712572	-1	None	53BP1, p202
15	TP53BP1	ENSG00000067369	ENST00000572085	retained_intron	KNOWN	None	11999	None	None	43707420	43785354	-1	None	53BP1, p202
15	TP53BP1	ENSG00000067369	ENST00000571145	processed_transcript	KNOWN	None	11999	None	None	43707920	43713255	-1	None	53BP1, p202
15	TP53BP1	ENSG00000067369	ENST00000417342	nonsense_mediated_decay	KNOWN	None	11999	145	47	43713288	43730605	-1	None	53BP1, p202
15	TP53BP1	ENSG00000067369	ENST00000467474	protein_coding	PUTATIVE	None	11999	434	143	43713870	43720314	-1	None	53BP1, p202
15	TP53BP1	ENSG00000067369	ENST00000413546	protein_coding	NOVEL	None	11999	3100	1032	43724847	43785284	-1	None	53BP1, p202
15	TP53BP1	ENSG00000067369	ENST00000480860	retained_intron	KNOWN	None	11999	None	None	43733457	43748350	-1	None	53BP1, p202
15	TP53BP1	ENSG00000067369	ENST00000605155	processed_transcript	KNOWN	None	11999	None	None	43738731	43748376	-1	None	53BP1, p202
15	TP53BP1	ENSG00000067369	ENST00000414758	processed_transcript	KNOWN	None	11999	None	None	43739353	43748222	-1	None	53BP1, p202
15	TP53BP1	ENSG00000067369	ENST00000477089	processed_transcript	PUTATIVE	None	11999	None	None	43789636	43802926	-1	None	53BP1, p202
20	None	ENSG00000265441	ENST00000578418	miRNA	NOVEL	None	None	None	None	35374459	35374533	1	None	None
5	GPBP1	ENSG00000062194	ENST00000424459	protein_coding	KNOWN	None	29520	1482	493	56469775	56560506	1	None	DKFZp761C169, vasculin
5	GPBP1	ENSG00000062194	ENST00000514387	protein_coding	KNOWN	CCDS56368	29520	909	302	56469876	56559414	1	None	DKFZp761C169, vasculin
5	GPBP1	ENSG00000062194	ENST00000506184	protein_coding	KNOWN	CCDS34162	29520	1422	473	56469944	56558909	1	None	DKFZp761C169, vasculin
5	GPBP1	ENSG00000062194	ENST00000511209	protein_coding	KNOWN	CCDS47212	29520	1398	465	56471773	56558912	1	None	DKFZp761C169, vasculin
5	GPBP1	ENSG00000062194	ENST00000264779	protein_coding	KNOWN	CCDS47211	29520	1443	480	56509948	56558912	1	None	DKFZp761C169, vasculin
5	GPBP1	ENSG00000062194	ENST00000513732	retained_intron	KNOWN	None	29520	None	None	56527130	56533316	1	None	DKFZp761C169, vasculin
5	GPBP1	ENSG00000062194	ENST00000513524	retained_intron	KNOWN	None	29520	None	None	56532868	56545306	1	None	DKFZp761C169, vasculin
5	GPBP1	ENSG00000062194	ENST00000309096	retained_intron	KNOWN	None	29520	None	None	56541295	56546839	1	None	DKFZp761C169, vasculin
5	GPBP1	ENSG00000062194	ENST00000515484	retained_intron	KNOWN	None	29520	None	None	56544689	56557065	1	None	DKFZp761C169, vasculin
5	GPBP1	ENSG00000062194	ENST00000454432	protein_coding	KNOWN	None	29520	1482	493	56471275	56560505	1	None	DKFZp761C169, vasculin
5	GPBP1	ENSG00000062194	ENST00000538707	protein_coding	KNOWN	None	29520	1443	480	56509958	56560505	1	None	DKFZp761C169, vasculin
8	GPR124	ENSG00000020181	ENST00000428068	protein_coding	PUTATIVE	None	17849	571	189	37641709	37687511	1	None	TEM5, DKFZp434C211, DKFZp434J0911, KIAA1531, FLJ14390
8	GPR124	ENSG00000020181	ENST00000315215	protein_coding	KNOWN	None	17849	3366	1121	37654424	37702414	1	None	TEM5, DKFZp434C211, DKFZp434J0911, KIAA1531, FLJ14390
8	GPR124	ENSG00000020181	ENST00000412232	protein_coding	KNOWN	CCDS6097	17849	4017	1338	37654774	37701494	1	None	TEM5, DKFZp434C211, DKFZp434J0911, KIAA1531, FLJ14390
X	PRAF2	ENSG00000243279	ENST00000376390	protein_coding	KNOWN	CCDS14317	28911	537	178	48928813	48931730	-1	None	JM4
X	PRAF2	ENSG00000243279	ENST00000491199	processed_transcript	KNOWN	None	28911	None	None	48929254	48931494	-1	None	JM4
X	PRAF2	ENSG00000243279	ENST00000376386	protein_coding	NOVEL	None	28911	483	160	48929690	48931648	-1	None	JM4
8	PDE7A	ENSG00000205268	ENST00000401827	protein_coding	KNOWN	CCDS56538	8791	1449	482	66629745	66754187	-1	None	HCP1
8	PDE7A	ENSG00000205268	ENST00000379419	protein_coding	KNOWN	CCDS34901	8791	1371	456	66630614	66701319	-1	None	HCP1
8	PDE7A	ENSG00000205268	ENST00000396642	protein_coding	PUTATIVE	None	8791	1275	424	66634033	66753743	-1	None	HCP1
8	PDE7A	ENSG00000205268	ENST00000522220	retained_intron	KNOWN	None	8791	None	None	66639109	66640392	-1	None	HCP1
8	PDE7A	ENSG00000205268	ENST00000518667	processed_transcript	KNOWN	None	8791	None	None	66639145	66677907	-1	None	HCP1
8	PDE7A	ENSG00000205268	ENST00000519231	processed_transcript	KNOWN	None	8791	None	None	66659940	66754323	-1	None	HCP1
8	PDE7A	ENSG00000205268	ENST00000523253	protein_coding	PUTATIVE	None	8791	257	84	66659987	66750983	-1	None	HCP1
8	PDE7A	ENSG00000205268	ENST00000519626	processed_transcript	KNOWN	None	8791	None	None	66660000	66754557	-1	None	HCP1
8	BIN3	ENSG00000147439	ENST00000276416	protein_coding	KNOWN	CCDS47825	1054	762	253	22477931	22526633	-1	None	None
8	BIN3	ENSG00000147439	ENST00000520489	retained_intron	KNOWN	None	1054	None	None	22477949	22484055	-1	None	None
8	BIN3	ENSG00000147439	ENST00000519513	protein_coding	KNOWN	None	1054	600	199	22478225	22526626	-1	None	None
8	BIN3	ENSG00000147439	ENST00000399977	protein_coding	PUTATIVE	None	1054	618	205	22478288	22502317	-1	None	None
8	BIN3	ENSG00000147439	ENST00000519335	processed_transcript	KNOWN	None	1054	None	None	22478783	22526592	-1	None	None
8	BIN3	ENSG00000147439	ENST00000519863	processed_transcript	KNOWN	None	1054	None	None	22479044	22502317	-1	None	None
8	BIN3	ENSG00000147439	ENST00000522687	nonsense_mediated_decay	KNOWN	None	1054	192	63	22481743	22526638	-1	None	None
8	BIN3	ENSG00000147439	ENST00000520292	protein_coding	PUTATIVE	None	1054	450	149	22482560	22526635	-1	None	None
8	BIN3	ENSG00000147439	ENST00000521140	retained_intron	KNOWN	None	1054	None	None	22487217	22502317	-1	None	None
8	BIN3	ENSG00000147439	ENST00000518366	retained_intron	KNOWN	None	1054	None	None	22494103	22526604	-1	None	None
8	BIN3	ENSG00000147439	ENST00000522268	protein_coding	PUTATIVE	None	1054	84	27	22502101	22526661	-1	None	None
X	WDR45	ENSG00000196998	ENST00000465806	retained_intron	KNOWN	None	28912	None	None	48932092	48958108	-1	WDRX1	JM5, WIPI4, NBIA5
X	WDR45	ENSG00000196998	ENST00000376372	protein_coding	KNOWN	CCDS35250	28912	1083	360	48932101	48937574	-1	WDRX1	JM5, WIPI4, NBIA5
X	WDR45	ENSG00000196998	ENST00000470270	processed_transcript	KNOWN	None	28912	None	None	48932102	48937561	-1	WDRX1	JM5, WIPI4, NBIA5
X	WDR45	ENSG00000196998	ENST00000486337	protein_coding	PUTATIVE	None	28912	244	80	48932299	48932940	-1	WDRX1	JM5, WIPI4, NBIA5
X	WDR45	ENSG00000196998	ENST00000322995	protein_coding	KNOWN	None	28912	1116	371	48932299	48937505	-1	WDRX1	JM5, WIPI4, NBIA5
X	WDR45	ENSG00000196998	ENST00000356463	protein_coding	KNOWN	CCDS14318	28912	1086	361	48932299	48958059	-1	WDRX1	JM5, WIPI4, NBIA5
X	WDR45	ENSG00000196998	ENST00000485908	protein_coding	NOVEL	None	28912	978	325	48932317	48937551	-1	WDRX1	JM5, WIPI4, NBIA5
X	WDR45	ENSG00000196998	ENST00000367375	protein_coding	NOVEL	None	28912	862	286	48932328	48935405	-1	WDRX1	JM5, WIPI4, NBIA5
X	WDR45	ENSG00000196998	ENST00000433252	retained_intron	KNOWN	None	28912	None	None	48932345	48933604	-1	WDRX1	JM5, WIPI4, NBIA5
X	WDR45	ENSG00000196998	ENST00000473974	protein_coding	PUTATIVE	None	28912	771	256	48932359	48937531	-1	WDRX1	JM5, WIPI4, NBIA5
X	WDR45	ENSG00000196998	ENST00000376368	protein_coding	KNOWN	CCDS14318	28912	1086	361	48932363	48937548	-1	WDRX1	JM5, WIPI4, NBIA5
X	WDR45	ENSG00000196998	ENST00000396681	protein_coding	NOVEL	None	28912	1041	346	48932462	48937540	-1	WDRX1	JM5, WIPI4, NBIA5
X	WDR45	ENSG00000196998	ENST00000474217	retained_intron	KNOWN	None	28912	None	None	48932501	48935070	-1	WDRX1	JM5, WIPI4, NBIA5
X	WDR45	ENSG00000196998	ENST00000475977	protein_coding	PUTATIVE	None	28912	357	118	48932514	48933412	-1	WDRX1	JM5, WIPI4, NBIA5
X	WDR45	ENSG00000196998	ENST00000480412	retained_intron	KNOWN	None	28912	None	None	48933014	48933533	-1	WDRX1	JM5, WIPI4, NBIA5
X	WDR45	ENSG00000196998	ENST00000471338	protein_coding	NOVEL	None	28912	428	141	48933300	48937546	-1	WDRX1	JM5, WIPI4, NBIA5
X	WDR45	ENSG00000196998	ENST00000472654	retained_intron	KNOWN	None	28912	None	None	48933314	48934549	-1	WDRX1	JM5, WIPI4, NBIA5
X	WDR45	ENSG00000196998	ENST00000475880	protein_coding	NOVEL	None	28912	499	165	48933328	48937539	-1	WDRX1	JM5, WIPI4, NBIA5
X	WDR45	ENSG00000196998	ENST00000474053	protein_coding	NOVEL	None	28912	641	212	48933363	48935771	-1	WDRX1	JM5, WIPI4, NBIA5
X	WDR45	ENSG00000196998	ENST00000419567	protein_coding	NOVEL	None	28912	571	189	48933524	48935771	-1	WDRX1	JM5, WIPI4, NBIA5
X	WDR45	ENSG00000196998	ENST00000476728	protein_coding	NOVEL	None	28912	415	137	48933554	48937546	-1	WDRX1	JM5, WIPI4, NBIA5
X	WDR45	ENSG00000196998	ENST00000465382	protein_coding	KNOWN	None	28912	476	157	48933598	48937684	-1	WDRX1	JM5, WIPI4, NBIA5
X	WDR45	ENSG00000196998	ENST00000465431	processed_transcript	KNOWN	None	28912	None	None	48934590	48937505	-1	WDRX1	JM5, WIPI4, NBIA5
X	WDR45	ENSG00000196998	ENST00000496803	retained_intron	KNOWN	None	28912	None	None	48934733	48937553	-1	WDRX1	JM5, WIPI4, NBIA5
X	WDR45	ENSG00000196998	ENST00000376357	retained_intron	KNOWN	None	28912	None	None	48935146	48937756	-1	WDRX1	JM5, WIPI4, NBIA5
X	WDR45	ENSG00000196998	ENST00000423215	protein_coding	KNOWN	None	28912	166	54	48935371	48937915	-1	WDRX1	JM5, WIPI4, NBIA5
X	WDR45	ENSG00000196998	ENST00000460501	processed_transcript	KNOWN	None	28912	None	None	48937760	48958082	-1	WDRX1	JM5, WIPI4, NBIA5
X	WDR45	ENSG00000196998	ENST00000553851	protein_coding	KNOWN	None	28912	879	292	48929385	48937546	-1	WDRX1	JM5, WIPI4, NBIA5
14	RNF31	ENSG00000092098	ENST00000560875	protein_coding	KNOWN	None	16031	169	55	24615892	24617076	1	None	ZIBRA, FLJ10111, FLJ23501, HOIP
14	RNF31	ENSG00000092098	ENST00000559308	protein_coding	PUTATIVE	None	16031	158	51	24615894	24618696	1	None	ZIBRA, FLJ10111, FLJ23501, HOIP
14	RNF31	ENSG00000092098	ENST00000558634	processed_transcript	KNOWN	None	16031	None	None	24615895	24617893	1	None	ZIBRA, FLJ10111, FLJ23501, HOIP
14	RNF31	ENSG00000092098	ENST00000557878	processed_transcript	KNOWN	None	16031	None	None	24615931	24618594	1	None	ZIBRA, FLJ10111, FLJ23501, HOIP
14	RNF31	ENSG00000092098	ENST00000559533	protein_coding	PUTATIVE	None	16031	448	148	24615949	24619463	1	None	ZIBRA, FLJ10111, FLJ23501, HOIP
14	RNF31	ENSG00000092098	ENST00000557991	protein_coding	KNOWN	None	16031	510	169	24615960	24617865	1	None	ZIBRA, FLJ10111, FLJ23501, HOIP
14	RNF31	ENSG00000092098	ENST00000559438	processed_transcript	KNOWN	None	16031	None	None	24616084	24618640	1	None	ZIBRA, FLJ10111, FLJ23501, HOIP
14	RNF31	ENSG00000092098	ENST00000560071	protein_coding	PUTATIVE	None	16031	182	59	24616086	24618720	1	None	ZIBRA, FLJ10111, FLJ23501, HOIP
14	RNF31	ENSG00000092098	ENST00000559275	protein_coding	PUTATIVE	None	16031	2766	921	24616096	24629868	1	None	ZIBRA, FLJ10111, FLJ23501, HOIP
14	RNF31	ENSG00000092098	ENST00000324103	protein_coding	KNOWN	CCDS41931	16031	3219	1072	24616588	24629870	1	None	ZIBRA, FLJ10111, FLJ23501, HOIP
14	RNF31	ENSG00000092098	ENST00000559882	processed_transcript	KNOWN	None	16031	None	None	24616709	24617543	1	None	ZIBRA, FLJ10111, FLJ23501, HOIP
14	RNF31	ENSG00000092098	ENST00000559260	protein_coding	PUTATIVE	None	16031	96	31	24616709	24618634	1	None	ZIBRA, FLJ10111, FLJ23501, HOIP
14	RNF31	ENSG00000092098	ENST00000491351	nonsense_mediated_decay	KNOWN	None	16031	363	120	24616709	24629869	1	None	ZIBRA, FLJ10111, FLJ23501, HOIP
14	RNF31	ENSG00000092098	ENST00000560342	retained_intron	KNOWN	None	16031	None	None	24616925	24618359	1	None	ZIBRA, FLJ10111, FLJ23501, HOIP
14	RNF31	ENSG00000092098	ENST00000558907	nonsense_mediated_decay	KNOWN	None	16031	459	152	24617185	24619500	1	None	ZIBRA, FLJ10111, FLJ23501, HOIP
14	RNF31	ENSG00000092098	ENST00000560787	protein_coding	NOVEL	None	16031	2753	916	24617291	24629863	1	None	ZIBRA, FLJ10111, FLJ23501, HOIP
14	RNF31	ENSG00000092098	ENST00000559583	processed_transcript	KNOWN	None	16031	None	None	24617657	24619456	1	None	ZIBRA, FLJ10111, FLJ23501, HOIP
14	RNF31	ENSG00000092098	ENST00000559071	retained_intron	KNOWN	None	16031	None	None	24620210	24629864	1	None	ZIBRA, FLJ10111, FLJ23501, HOIP
14	RNF31	ENSG00000092098	ENST00000560754	protein_coding	PUTATIVE	None	16031	409	135	24624169	24626544	1	None	ZIBRA, FLJ10111, FLJ23501, HOIP
14	RNF31	ENSG00000092098	ENST00000558452	retained_intron	KNOWN	None	16031	None	None	24624831	24627117	1	None	ZIBRA, FLJ10111, FLJ23501, HOIP
14	RNF31	ENSG00000092098	ENST00000559449	nonsense_mediated_decay	KNOWN	None	16031	422	139	24624876	24629863	1	None	ZIBRA, FLJ10111, FLJ23501, HOIP
14	RNF31	ENSG00000092098	ENST00000483895	nonsense_mediated_decay	KNOWN	None	16031	431	142	24626500	24629814	1	None	ZIBRA, FLJ10111, FLJ23501, HOIP
14	RNF31	ENSG00000092098	ENST00000559719	protein_coding	PUTATIVE	None	16031	497	164	24626729	24629864	1	None	ZIBRA, FLJ10111, FLJ23501, HOIP
14	RNF31	ENSG00000092098	ENST00000559491	retained_intron	KNOWN	None	16031	None	None	24628997	24629864	1	None	ZIBRA, FLJ10111, FLJ23501, HOIP
14	RNF31	ENSG00000092098	ENST00000560631	retained_intron	KNOWN	None	16031	None	None	24629320	24629751	1	None	ZIBRA, FLJ10111, FLJ23501, HOIP
14	RNF31	ENSG00000092098	ENST00000382687	protein_coding	KNOWN	None	16031	2766	921	24617645	24629867	1	None	ZIBRA, FLJ10111, FLJ23501, HOIP
8	BRF2	ENSG00000104221	ENST00000220659	protein_coding	KNOWN	CCDS6098	17298	1260	419	37700786	37707422	-1	None	FLJ11052, BRFU, TFIIIB50
8	BRF2	ENSG00000104221	ENST00000520601	protein_coding	NOVEL	None	17298	609	202	37702220	37707356	-1	None	FLJ11052, BRFU, TFIIIB50
8	BRF2	ENSG00000104221	ENST00000521170	protein_coding	PUTATIVE	None	17298	219	72	37704475	37707379	-1	None	FLJ11052, BRFU, TFIIIB50
8	BRF2	ENSG00000104221	ENST00000522539	nonsense_mediated_decay	KNOWN	None	17298	219	72	37704574	37707372	-1	None	FLJ11052, BRFU, TFIIIB50
8	RAB11FIP1	ENSG00000156675	ENST00000287263	protein_coding	KNOWN	CCDS34881	30265	1950	649	37716136	37756985	-1	None	RCP, FLJ22622, FLJ22524, Rab11-FIP1
8	RAB11FIP1	ENSG00000156675	ENST00000330843	protein_coding	KNOWN	CCDS34882	30265	3852	1283	37716467	37756972	-1	None	RCP, FLJ22622, FLJ22524, Rab11-FIP1
8	RAB11FIP1	ENSG00000156675	ENST00000522727	protein_coding	PUTATIVE	None	30265	1506	501	37720277	37756972	-1	None	RCP, FLJ22622, FLJ22524, Rab11-FIP1
8	RAB11FIP1	ENSG00000156675	ENST00000523182	processed_transcript	KNOWN	None	30265	None	None	37720413	37730796	-1	None	RCP, FLJ22622, FLJ22524, Rab11-FIP1
8	RAB11FIP1	ENSG00000156675	ENST00000522774	retained_intron	KNOWN	None	30265	None	None	37720413	37730796	-1	None	RCP, FLJ22622, FLJ22524, Rab11-FIP1
8	RAB11FIP1	ENSG00000156675	ENST00000524118	protein_coding	KNOWN	None	30265	1320	439	37727905	37735635	-1	None	RCP, FLJ22622, FLJ22524, Rab11-FIP1
4	SOD3	ENSG00000109610	ENST00000598411	protein_coding	KNOWN	None	11181	162	53	24791534	24801305	1	None	EC-SOD
4	SOD3	ENSG00000109610	ENST00000593742	retained_intron	KNOWN	None	11181	None	None	24791569	24792228	1	None	EC-SOD
4	SOD3	ENSG00000109610	ENST00000382120	protein_coding	KNOWN	CCDS3430	11181	723	240	24797085	24802464	1	None	EC-SOD
15	MAP1A	ENSG00000166963	ENST00000382031	protein_coding	NOVEL	None	6835	9126	3041	43803156	43823818	1	MAP1L	None
15	MAP1A	ENSG00000166963	ENST00000300231	protein_coding	KNOWN	CCDS42031	6835	8412	2803	43809823	43823818	1	MAP1L	None
15	MAP1A	ENSG00000166963	ENST00000399453	protein_coding	KNOWN	None	6835	8418	2805	43809806	43823818	1	MAP1L	None
8	GOT1L1	ENSG00000169154	ENST00000307599	protein_coding	KNOWN	CCDS47839	28487	1266	421	37791799	37797647	-1	None	MGC33309
8	GOT1L1	ENSG00000169154	ENST00000518826	protein_coding	PUTATIVE	None	28487	366	121	37792507	37794331	-1	None	MGC33309
8	GOT1L1	ENSG00000169154	ENST00000524298	protein_coding	PUTATIVE	None	28487	505	167	37795156	37797621	-1	None	MGC33309
8	ADRB3	ENSG00000188778	ENST00000345060	protein_coding	KNOWN	CCDS6099	288	1227	408	37820516	37824483	-1	None	None
8	ADRB3	ENSG00000188778	ENST00000520341	processed_transcript	KNOWN	None	288	None	None	37821480	37823262	-1	None	None
15	MORF4L1	ENSG00000185787	ENST00000379535	protein_coding	PUTATIVE	None	16989	1047	348	79102829	79190072	1	None	MRG15, MORFRG15, HsT17725, Eaf3, MEAF3
15	MORF4L1	ENSG00000185787	ENST00000559697	processed_transcript	KNOWN	None	16989	None	None	79140009	79178503	1	None	MRG15, MORFRG15, HsT17725, Eaf3, MEAF3
15	MORF4L1	ENSG00000185787	ENST00000426013	protein_coding	KNOWN	CCDS32304	16989	972	323	79165118	79190075	1	None	MRG15, MORFRG15, HsT17725, Eaf3, MEAF3
15	MORF4L1	ENSG00000185787	ENST00000331268	protein_coding	KNOWN	CCDS10307	16989	1089	362	79165156	79190475	1	None	MRG15, MORFRG15, HsT17725, Eaf3, MEAF3
15	MORF4L1	ENSG00000185787	ENST00000557961	retained_intron	KNOWN	None	16989	None	None	79165158	79178716	1	None	MRG15, MORFRG15, HsT17725, Eaf3, MEAF3
15	MORF4L1	ENSG00000185787	ENST00000559930	protein_coding	PUTATIVE	None	16989	222	73	79165229	79184601	1	None	MRG15, MORFRG15, HsT17725, Eaf3, MEAF3
15	MORF4L1	ENSG00000185787	ENST00000558746	protein_coding	PUTATIVE	None	16989	810	269	79165296	79187250	1	None	MRG15, MORFRG15, HsT17725, Eaf3, MEAF3
15	MORF4L1	ENSG00000185787	ENST00000558893	retained_intron	KNOWN	None	16989	None	None	79165315	79185360	1	None	MRG15, MORFRG15, HsT17725, Eaf3, MEAF3
15	MORF4L1	ENSG00000185787	ENST00000558830	protein_coding	NOVEL	None	16989	356	117	79165317	79185960	1	None	MRG15, MORFRG15, HsT17725, Eaf3, MEAF3
15	MORF4L1	ENSG00000185787	ENST00000558522	retained_intron	KNOWN	None	16989	None	None	79165326	79184047	1	None	MRG15, MORFRG15, HsT17725, Eaf3, MEAF3
15	MORF4L1	ENSG00000185787	ENST00000559619	retained_intron	KNOWN	None	16989	None	None	79165329	79179785	1	None	MRG15, MORFRG15, HsT17725, Eaf3, MEAF3
15	MORF4L1	ENSG00000185787	ENST00000559345	protein_coding	PUTATIVE	CCDS58393	16989	708	235	79165347	79189731	1	None	MRG15, MORFRG15, HsT17725, Eaf3, MEAF3
15	MORF4L1	ENSG00000185787	ENST00000561171	processed_transcript	KNOWN	None	16989	None	None	79165367	79189856	1	None	MRG15, MORFRG15, HsT17725, Eaf3, MEAF3
15	MORF4L1	ENSG00000185787	ENST00000558502	protein_coding	NOVEL	CCDS58393	16989	708	235	79165372	79189419	1	None	MRG15, MORFRG15, HsT17725, Eaf3, MEAF3
15	MORF4L1	ENSG00000185787	ENST00000559258	retained_intron	KNOWN	None	16989	None	None	79165385	79185943	1	None	MRG15, MORFRG15, HsT17725, Eaf3, MEAF3
15	MORF4L1	ENSG00000185787	ENST00000559690	protein_coding	PUTATIVE	None	16989	339	112	79166065	79185943	1	None	MRG15, MORFRG15, HsT17725, Eaf3, MEAF3
15	MORF4L1	ENSG00000185787	ENST00000559158	protein_coding	PUTATIVE	None	16989	469	155	79166163	79186503	1	None	MRG15, MORFRG15, HsT17725, Eaf3, MEAF3
15	MORF4L1	ENSG00000185787	ENST00000560422	protein_coding	PUTATIVE	None	16989	736	244	79168834	79186476	1	None	MRG15, MORFRG15, HsT17725, Eaf3, MEAF3
15	MORF4L1	ENSG00000185787	ENST00000558539	processed_transcript	KNOWN	None	16989	None	None	79170107	79179639	1	None	MRG15, MORFRG15, HsT17725, Eaf3, MEAF3
15	MORF4L1	ENSG00000185787	ENST00000559244	protein_coding	PUTATIVE	None	16989	175	57	79170120	79183915	1	None	MRG15, MORFRG15, HsT17725, Eaf3, MEAF3
15	MORF4L1	ENSG00000185787	ENST00000559751	protein_coding	NOVEL	None	16989	639	212	79170582	79185932	1	None	MRG15, MORFRG15, HsT17725, Eaf3, MEAF3
15	MORF4L1	ENSG00000185787	ENST00000558923	retained_intron	KNOWN	None	16989	None	None	79182984	79185941	1	None	MRG15, MORFRG15, HsT17725, Eaf3, MEAF3
15	MORF4L1	ENSG00000185787	ENST00000560710	retained_intron	KNOWN	None	16989	None	None	79183894	79187095	1	None	MRG15, MORFRG15, HsT17725, Eaf3, MEAF3
9	DMRT1	ENSG00000137090	ENST00000564322	retained_intron	KNOWN	None	2934	None	None	841690	894985	1	None	DMT1
9	DMRT1	ENSG00000137090	ENST00000382276	protein_coding	KNOWN	CCDS6442	2934	1122	373	841690	969090	1	None	DMT1
9	DMRT1	ENSG00000137090	ENST00000569227	protein_coding	PUTATIVE	None	2934	648	215	842714	968515	1	None	DMT1
20	RN7SL156P	ENSG00000242509	ENST00000480334	misc_RNA	KNOWN	None	46172	None	None	35498502	35498793	1	None	None
19	GNA15	ENSG00000060558	ENST00000262958	protein_coding	KNOWN	CCDS12104	4383	1125	374	3136191	3163767	1	None	GNA16
19	GNA15	ENSG00000060558	ENST00000592455	nonsense_mediated_decay	KNOWN	None	4383	159	52	3136440	3151820	1	None	GNA16
19	GNA15	ENSG00000060558	ENST00000586082	retained_intron	KNOWN	None	4383	None	None	3149838	3155824	1	None	GNA16
4	CCDC149	ENSG00000181982	ENST00000504487	protein_coding	KNOWN	CCDS47036	25405	1590	529	24807739	24914508	-1	None	DKFZp761B107
4	CCDC149	ENSG00000181982	ENST00000389609	protein_coding	PUTATIVE	CCDS33967	25405	1590	529	24809618	24981770	-1	None	DKFZp761B107
4	CCDC149	ENSG00000181982	ENST00000502801	protein_coding	PUTATIVE	None	25405	426	141	24809810	24914576	-1	None	DKFZp761B107
4	CCDC149	ENSG00000181982	ENST00000507096	processed_transcript	KNOWN	None	25405	None	None	24810294	24821819	-1	None	DKFZp761B107
4	CCDC149	ENSG00000181982	ENST00000508236	processed_transcript	KNOWN	None	25405	None	None	24822679	24824667	-1	None	DKFZp761B107
4	CCDC149	ENSG00000181982	ENST00000324309	retained_intron	KNOWN	None	25405	None	None	24828562	24981826	-1	None	DKFZp761B107
4	CCDC149	ENSG00000181982	ENST00000512432	processed_transcript	KNOWN	None	25405	None	None	24838058	24854890	-1	None	DKFZp761B107
4	CCDC149	ENSG00000181982	ENST00000428116	protein_coding	KNOWN	None	25405	261	86	24809392	24914580	-1	None	DKFZp761B107
6	GMNN	ENSG00000112312	ENST00000356509	protein_coding	KNOWN	CCDS4560	17493	630	209	24775159	24786323	1	None	Gem
6	GMNN	ENSG00000112312	ENST00000230056	protein_coding	KNOWN	CCDS4560	17493	630	209	24775166	24786327	1	None	Gem
6	GMNN	ENSG00000112312	ENST00000468943	retained_intron	KNOWN	None	17493	None	None	24775177	24777964	1	None	Gem
6	GMNN	ENSG00000112312	ENST00000378054	protein_coding	KNOWN	None	17493	538	178	24775641	24785935	1	None	Gem
6	GMNN	ENSG00000112312	ENST00000476555	protein_coding	KNOWN	None	17493	197	64	24775695	24781772	1	None	Gem
6	GMNN	ENSG00000112312	ENST00000378059	protein_coding	KNOWN	None	17493	307	101	24777094	24784347	1	None	Gem
14	TRMT5	ENSG00000126814	ENST00000261249	protein_coding	KNOWN	CCDS32092	23141	1530	509	61438169	61448076	-1	KIAA1393	TRM5
14	TRMT5	ENSG00000126814	ENST00000553903	protein_coding	PUTATIVE	None	23141	508	168	61446192	61447888	-1	KIAA1393	TRM5
14	TRMT5	ENSG00000126814	ENST00000555420	protein_coding	PUTATIVE	None	23141	456	151	61446241	61447769	-1	KIAA1393	TRM5
9	DMRT3	ENSG00000064218	ENST00000190165	protein_coding	KNOWN	CCDS6443	13909	1419	472	976964	991731	1	DMRTA3	None
9	DMRT3	ENSG00000064218	ENST00000417254	protein_coding	KNOWN	None	13909	336	111	989837	990333	1	DMRTA3	None
16	TMEM186	ENSG00000184857	ENST00000564869	processed_transcript	KNOWN	None	24530	None	None	8874241	8891499	-1	C16orf51	DKFZP564K2062
16	TMEM186	ENSG00000184857	ENST00000333050	protein_coding	KNOWN	CCDS10535	24530	642	213	8889037	8891505	-1	C16orf51	DKFZP564K2062
X	BCOR	ENSG00000183337	ENST00000413905	protein_coding	PUTATIVE	None	20893	1785	594	39909068	39923802	-1	None	FLJ20285, KIAA1575
X	BCOR	ENSG00000183337	ENST00000378463	protein_coding	KNOWN	None	20893	1869	622	39909068	39927373	-1	None	FLJ20285, KIAA1575
X	BCOR	ENSG00000183337	ENST00000397354	protein_coding	KNOWN	CCDS14250	20893	5166	1721	39910499	39956656	-1	None	FLJ20285, KIAA1575
X	BCOR	ENSG00000183337	ENST00000378455	protein_coding	KNOWN	CCDS48092	20893	5112	1703	39910499	40036582	-1	None	FLJ20285, KIAA1575
X	BCOR	ENSG00000183337	ENST00000378444	protein_coding	KNOWN	CCDS48093	20893	5268	1755	39910501	39956656	-1	None	FLJ20285, KIAA1575
X	BCOR	ENSG00000183337	ENST00000442018	protein_coding	PUTATIVE	None	20893	999	332	39910508	39922190	-1	None	FLJ20285, KIAA1575
X	BCOR	ENSG00000183337	ENST00000427012	protein_coding	PUTATIVE	None	20893	869	288	39910510	39922255	-1	None	FLJ20285, KIAA1575
X	BCOR	ENSG00000183337	ENST00000406200	protein_coding	PUTATIVE	None	20893	3862	1286	39922208	40036573	-1	None	FLJ20285, KIAA1575
X	BCOR	ENSG00000183337	ENST00000490976	retained_intron	KNOWN	None	20893	None	None	39931159	39937222	-1	None	FLJ20285, KIAA1575
X	BCOR	ENSG00000183337	ENST00000412952	protein_coding	KNOWN	None	20893	86	27	39937097	40005882	-1	None	FLJ20285, KIAA1575
X	BCOR	ENSG00000183337	ENST00000342274	protein_coding	KNOWN	CCDS14250	20893	5166	1721	39910501	40036582	-1	None	FLJ20285, KIAA1575
9	DMRT2	ENSG00000173253	ENST00000382255	protein_coding	KNOWN	CCDS6445	2935	681	226	1050354	1057547	1	None	None
9	DMRT2	ENSG00000173253	ENST00000412350	protein_coding	KNOWN	CCDS6445	2935	681	226	1050355	1055872	1	None	None
9	DMRT2	ENSG00000173253	ENST00000358146	protein_coding	KNOWN	CCDS6444	2935	1686	561	1051614	1057552	1	None	None
9	DMRT2	ENSG00000173253	ENST00000259622	protein_coding	KNOWN	CCDS6445	2935	681	226	1051614	1057552	1	None	None
9	DMRT2	ENSG00000173253	ENST00000382251	protein_coding	KNOWN	CCDS6444	2935	1686	561	1050354	1057550	1	None	None
9	DMRT2	ENSG00000173253	ENST00000302441	protein_coding	KNOWN	CCDS6444	2935	1686	561	1050620	1057550	1	None	None
14	SMEK1	ENSG00000100796	ENST00000554684	protein_coding	KNOWN	CCDS9895	20219	2463	820	91923955	91976488	-1	KIAA2010	FLJ20707, MSTP033, FLFL1, smk-1, smk1
14	SMEK1	ENSG00000100796	ENST00000554943	protein_coding	KNOWN	None	20219	2502	833	91924352	91976107	-1	KIAA2010	FLJ20707, MSTP033, FLFL1, smk-1, smk1
14	SMEK1	ENSG00000100796	ENST00000555462	protein_coding	KNOWN	None	20219	1785	594	91924483	91976822	-1	KIAA2010	FLJ20707, MSTP033, FLFL1, smk-1, smk1
14	SMEK1	ENSG00000100796	ENST00000557382	retained_intron	KNOWN	None	20219	None	None	91924674	91928028	-1	KIAA2010	FLJ20707, MSTP033, FLFL1, smk-1, smk1
14	SMEK1	ENSG00000100796	ENST00000555718	processed_transcript	KNOWN	None	20219	None	None	91925203	91932699	-1	KIAA2010	FLJ20707, MSTP033, FLFL1, smk-1, smk1
14	SMEK1	ENSG00000100796	ENST00000554308	nonsense_mediated_decay	KNOWN	None	20219	1630	542	91927725	91975998	-1	KIAA2010	FLJ20707, MSTP033, FLFL1, smk-1, smk1
14	SMEK1	ENSG00000100796	ENST00000554390	non_stop_decay	KNOWN	None	20219	2120	705	91928398	91976824	-1	KIAA2010	FLJ20707, MSTP033, FLFL1, smk-1, smk1
14	SMEK1	ENSG00000100796	ENST00000555029	protein_coding	NOVEL	None	20219	571	189	91939693	91975991	-1	KIAA2010	FLJ20707, MSTP033, FLFL1, smk-1, smk1
14	SMEK1	ENSG00000100796	ENST00000554574	retained_intron	KNOWN	None	20219	None	None	91940985	91948342	-1	KIAA2010	FLJ20707, MSTP033, FLFL1, smk-1, smk1
14	SMEK1	ENSG00000100796	ENST00000555470	protein_coding	NOVEL	None	20219	595	197	91942164	91948217	-1	KIAA2010	FLJ20707, MSTP033, FLFL1, smk-1, smk1
14	SMEK1	ENSG00000100796	ENST00000557018	protein_coding	KNOWN	None	20219	451	149	91948384	91976898	-1	KIAA2010	FLJ20707, MSTP033, FLFL1, smk-1, smk1
14	SMEK1	ENSG00000100796	ENST00000554511	protein_coding	KNOWN	None	20219	297	98	91951976	91976644	-1	KIAA2010	FLJ20707, MSTP033, FLFL1, smk-1, smk1
14	SMEK1	ENSG00000100796	ENST00000337238	protein_coding	KNOWN	CCDS9895	20219	2463	820	91923955	91976644	-1	KIAA2010	FLJ20707, MSTP033, FLFL1, smk-1, smk1
14	SMEK1	ENSG00000100796	ENST00000428424	protein_coding	KNOWN	None	20219	1785	594	91923955	91976644	-1	KIAA2010	FLJ20707, MSTP033, FLFL1, smk-1, smk1
16	PMM2	ENSG00000140650	ENST00000566983	protein_coding	PUTATIVE	None	9115	660	219	8882680	8941725	1	CDG1	CDGS, CDG1a, PMI, PMI1
16	PMM2	ENSG00000140650	ENST00000565837	processed_transcript	PUTATIVE	None	9115	None	None	8882697	8889519	1	CDG1	CDGS, CDG1a, PMI, PMI1
16	PMM2	ENSG00000140650	ENST00000268261	protein_coding	KNOWN	CCDS10536	9115	741	246	8891674	8943188	1	CDG1	CDGS, CDG1a, PMI, PMI1
16	PMM2	ENSG00000140650	ENST00000564030	retained_intron	KNOWN	None	9115	None	None	8891678	8900891	1	CDG1	CDGS, CDG1a, PMI, PMI1
16	PMM2	ENSG00000140650	ENST00000566604	nonsense_mediated_decay	KNOWN	None	9115	360	119	8891694	8941981	1	CDG1	CDGS, CDG1a, PMI, PMI1
16	PMM2	ENSG00000140650	ENST00000570134	nonsense_mediated_decay	KNOWN	None	9115	201	66	8891695	8923115	1	CDG1	CDGS, CDG1a, PMI, PMI1
16	PMM2	ENSG00000140650	ENST00000566196	retained_intron	KNOWN	None	9115	None	None	8891696	8896246	1	CDG1	CDGS, CDG1a, PMI, PMI1
16	PMM2	ENSG00000140650	ENST00000562448	retained_intron	KNOWN	None	9115	None	None	8891699	8900536	1	CDG1	CDGS, CDG1a, PMI, PMI1
16	PMM2	ENSG00000140650	ENST00000568602	nonsense_mediated_decay	KNOWN	None	9115	276	91	8891699	8904968	1	CDG1	CDGS, CDG1a, PMI, PMI1
16	PMM2	ENSG00000140650	ENST00000565896	nonsense_mediated_decay	KNOWN	None	9115	198	65	8891699	8905524	1	CDG1	CDGS, CDG1a, PMI, PMI1
16	PMM2	ENSG00000140650	ENST00000562318	nonsense_mediated_decay	KNOWN	None	9115	201	66	8891699	8941908	1	CDG1	CDGS, CDG1a, PMI, PMI1
16	PMM2	ENSG00000140650	ENST00000566540	nonsense_mediated_decay	KNOWN	None	9115	201	66	8891699	8942634	1	CDG1	CDGS, CDG1a, PMI, PMI1
16	PMM2	ENSG00000140650	ENST00000570076	nonsense_mediated_decay	KNOWN	None	9115	273	90	8891707	8942179	1	CDG1	CDGS, CDG1a, PMI, PMI1
16	PMM2	ENSG00000140650	ENST00000565221	nonsense_mediated_decay	KNOWN	None	9115	213	70	8891724	8941887	1	CDG1	CDGS, CDG1a, PMI, PMI1
16	PMM2	ENSG00000140650	ENST00000569958	protein_coding	PUTATIVE	None	9115	468	155	8891724	8941896	1	CDG1	CDGS, CDG1a, PMI, PMI1
16	PMM2	ENSG00000140650	ENST00000564069	nonsense_mediated_decay	KNOWN	None	9115	427	141	8891769	8906924	1	CDG1	CDGS, CDG1a, PMI, PMI1
16	PMM2	ENSG00000140650	ENST00000567697	retained_intron	KNOWN	None	9115	None	None	8901421	8943182	1	CDG1	CDGS, CDG1a, PMI, PMI1
16	PMM2	ENSG00000140650	ENST00000562025	processed_transcript	PUTATIVE	None	9115	None	None	8936064	8941976	1	CDG1	CDGS, CDG1a, PMI, PMI1
16	PMM2	ENSG00000140650	ENST00000539622	protein_coding	KNOWN	None	9115	492	163	8891699	8941908	1	CDG1	CDGS, CDG1a, PMI, PMI1
16	PMM2	ENSG00000140650	ENST00000537352	protein_coding	KNOWN	None	9115	366	121	8891724	8941887	1	CDG1	CDGS, CDG1a, PMI, PMI1
20	RPS3AP3	ENSG00000231241	ENST00000411933	processed_pseudogene	KNOWN	None	16537	None	None	35650146	35650387	-1	None	bA332A4.2
20	RPS27AP3	ENSG00000226144	ENST00000453803	processed_pseudogene	KNOWN	None	16538	None	None	35677657	35678110	1	RPS27AP	bA332A4.3
20	None	ENSG00000236159	ENST00000447075	processed_pseudogene	KNOWN	None	None	None	None	35794177	35794715	-1	None	None
20	RPL7AP14	ENSG00000213979	ENST00000424041	processed_pseudogene	KNOWN	None	16590	None	None	36073135	36073936	-1	RPL7AL4	dJ823N20.2
20	None	ENSG00000235167	ENST00000411780	processed_transcript	PUTATIVE	None	None	None	None	36120874	36137633	-1	None	None
20	None	ENSG00000235167	ENST00000447625	processed_transcript	PUTATIVE	None	None	None	None	36120936	36124164	-1	None	None
20	PPIAP3	ENSG00000235044	ENST00000450588	processed_pseudogene	KNOWN	None	16545	None	None	36158441	36158945	1	None	bA425M5.2
15	None	ENSG00000259288	ENST00000558965	retained_intron	KNOWN	None	None	None	None	40509629	40568382	1	None	None
15	None	ENSG00000259288	ENST00000559936	retained_intron	KNOWN	None	None	None	None	40509650	40568597	1	None	None
15	None	ENSG00000259288	ENST00000558658	nonsense_mediated_decay	KNOWN	None	None	483	160	40509788	40568588	1	None	None
15	None	ENSG00000259288	ENST00000559435	nonsense_mediated_decay	KNOWN	None	None	424	140	40510701	40557091	1	None	None
20	None	ENSG00000228234	ENST00000423261	processed_pseudogene	KNOWN	None	None	None	None	36231254	36231587	-1	None	None
8	EXT1	ENSG00000182197	ENST00000378204	protein_coding	KNOWN	CCDS6324	3512	2241	746	118806729	119124092	-1	LGCR, LGS	ttv
8	EXT1	ENSG00000182197	ENST00000437196	nonsense_mediated_decay	KNOWN	None	3512	126	41	118812059	119123581	-1	LGCR, LGS	ttv
8	EXT1	ENSG00000182197	ENST00000436216	protein_coding	PUTATIVE	None	3512	622	206	118842476	119122653	-1	LGCR, LGS	ttv
20	LINC00489	ENSG00000225759	ENST00000457816	lincRNA	KNOWN	None	43426	None	None	36247700	36251521	-1	None	None
20	None	ENSG00000204117	ENST00000373508	lincRNA	KNOWN	None	None	None	None	36305312	36311636	1	None	None
15	PPIP5K1	ENSG00000168781	ENST00000381885	protein_coding	NOVEL	None	29023	4290	1429	43825660	43877062	-1	HISPPD2A	KIAA0377, IPS1, VIP1
15	PPIP5K1	ENSG00000168781	ENST00000396923	protein_coding	NOVEL	CCDS45252	29023	4302	1433	43825660	43877090	-1	HISPPD2A	KIAA0377, IPS1, VIP1
15	PPIP5K1	ENSG00000168781	ENST00000360301	protein_coding	KNOWN	CCDS32215	29023	4227	1408	43825660	43882373	-1	HISPPD2A	KIAA0377, IPS1, VIP1
15	PPIP5K1	ENSG00000168781	ENST00000360135	protein_coding	NOVEL	CCDS53937	29023	4221	1406	43825660	43882373	-1	HISPPD2A	KIAA0377, IPS1, VIP1
15	PPIP5K1	ENSG00000168781	ENST00000334933	protein_coding	KNOWN	CCDS32215	29023	4227	1408	43825660	43882399	-1	HISPPD2A	KIAA0377, IPS1, VIP1
15	PPIP5K1	ENSG00000168781	ENST00000381879	protein_coding	NOVEL	None	29023	4230	1409	43825673	43882399	-1	HISPPD2A	KIAA0377, IPS1, VIP1
15	PPIP5K1	ENSG00000168781	ENST00000488490	processed_transcript	KNOWN	None	29023	None	None	43840605	43860714	-1	HISPPD2A	KIAA0377, IPS1, VIP1
15	PPIP5K1	ENSG00000168781	ENST00000439195	protein_coding	NOVEL	None	29023	589	195	43851028	43863695	-1	HISPPD2A	KIAA0377, IPS1, VIP1
15	PPIP5K1	ENSG00000168781	ENST00000437065	protein_coding	NOVEL	None	29023	777	258	43857065	43865633	-1	HISPPD2A	KIAA0377, IPS1, VIP1
15	PPIP5K1	ENSG00000168781	ENST00000432870	processed_transcript	KNOWN	None	29023	None	None	43861266	43877090	-1	HISPPD2A	KIAA0377, IPS1, VIP1
15	PPIP5K1	ENSG00000168781	ENST00000462136	retained_intron	KNOWN	None	29023	None	None	43863659	43865380	-1	HISPPD2A	KIAA0377, IPS1, VIP1
15	PPIP5K1	ENSG00000168781	ENST00000488768	retained_intron	KNOWN	None	29023	None	None	43865311	43882388	-1	HISPPD2A	KIAA0377, IPS1, VIP1
15	PPIP5K1	ENSG00000168781	ENST00000469229	retained_intron	KNOWN	None	29023	None	None	43866038	43866833	-1	HISPPD2A	KIAA0377, IPS1, VIP1
15	PPIP5K1	ENSG00000168781	ENST00000465123	retained_intron	KNOWN	None	29023	None	None	43868366	43869146	-1	HISPPD2A	KIAA0377, IPS1, VIP1
15	PPIP5K1	ENSG00000168781	ENST00000427877	nonsense_mediated_decay	KNOWN	None	29023	356	117	43871272	43874390	-1	HISPPD2A	KIAA0377, IPS1, VIP1
15	PPIP5K1	ENSG00000168781	ENST00000476294	retained_intron	KNOWN	None	29023	None	None	43873886	43874415	-1	HISPPD2A	KIAA0377, IPS1, VIP1
15	PPIP5K1	ENSG00000168781	ENST00000472547	retained_intron	KNOWN	None	29023	None	None	43874948	43876650	-1	HISPPD2A	KIAA0377, IPS1, VIP1
15	PPIP5K1	ENSG00000168781	ENST00000453080	protein_coding	KNOWN	None	29023	400	132	43875094	43882353	-1	HISPPD2A	KIAA0377, IPS1, VIP1
15	PPIP5K1	ENSG00000168781	ENST00000429176	protein_coding	KNOWN	None	29023	343	113	43875602	43882140	-1	HISPPD2A	KIAA0377, IPS1, VIP1
15	PPIP5K1	ENSG00000168781	ENST00000417085	protein_coding	KNOWN	None	29023	343	113	43875602	43882382	-1	HISPPD2A	KIAA0377, IPS1, VIP1
15	PPIP5K1	ENSG00000168781	ENST00000431962	protein_coding	KNOWN	None	29023	215	70	43875730	43882394	-1	HISPPD2A	KIAA0377, IPS1, VIP1
15	PPIP5K1	ENSG00000168781	ENST00000420765	protein_coding	KNOWN	CCDS45252	29023	4302	1433	43825660	43882430	-1	HISPPD2A	KIAA0377, IPS1, VIP1
15	PPIP5K1	ENSG00000168781	ENST00000348806	protein_coding	KNOWN	CCDS53937	29023	4221	1406	43826010	43876702	-1	HISPPD2A	KIAA0377, IPS1, VIP1
20	RN7SKP185	ENSG00000199683	ENST00000362813	misc_RNA	KNOWN	None	45909	None	None	36603558	36603883	-1	None	None
20	None	ENSG00000252791	ENST00000516982	misc_RNA	NOVEL	None	None	None	None	36681049	36681148	-1	None	None
14	SLC38A6	ENSG00000139974	ENST00000267488	protein_coding	KNOWN	CCDS9751	19863	1371	456	61447880	61519348	1	None	NAT-1
14	SLC38A6	ENSG00000139974	ENST00000525723	nonsense_mediated_decay	KNOWN	None	19863	222	73	61447944	61550451	1	None	NAT-1
14	SLC38A6	ENSG00000139974	ENST00000554304	processed_transcript	KNOWN	None	19863	None	None	61447951	61471355	1	None	NAT-1
14	SLC38A6	ENSG00000139974	ENST00000532148	processed_transcript	KNOWN	None	19863	None	None	61447955	61468954	1	None	NAT-1
14	SLC38A6	ENSG00000139974	ENST00000491344	nonsense_mediated_decay	KNOWN	None	19863	327	108	61447995	61550447	1	None	NAT-1
14	SLC38A6	ENSG00000139974	ENST00000451406	protein_coding	KNOWN	None	19863	1551	516	61448011	61550447	1	None	NAT-1
14	SLC38A6	ENSG00000139974	ENST00000527591	nonsense_mediated_decay	KNOWN	None	19863	63	20	61448155	61519163	1	None	NAT-1
14	SLC38A6	ENSG00000139974	ENST00000529345	nonsense_mediated_decay	KNOWN	None	19863	56	17	61448162	61550450	1	None	NAT-1
14	SLC38A6	ENSG00000139974	ENST00000524402	nonsense_mediated_decay	KNOWN	None	19863	270	89	61448914	61504401	1	None	NAT-1
14	SLC38A6	ENSG00000139974	ENST00000526105	protein_coding	PUTATIVE	None	19863	380	125	61449083	61503836	1	None	NAT-1
14	SLC38A6	ENSG00000139974	ENST00000525585	retained_intron	KNOWN	None	19863	None	None	61449262	61454308	1	None	NAT-1
14	SLC38A6	ENSG00000139974	ENST00000528350	nonsense_mediated_decay	KNOWN	None	19863	173	56	61449275	61509926	1	None	NAT-1
14	SLC38A6	ENSG00000139974	ENST00000533744	protein_coding	NOVEL	None	19863	583	193	61449275	61512790	1	None	NAT-1
14	SLC38A6	ENSG00000139974	ENST00000554072	retained_intron	KNOWN	None	19863	None	None	61451482	61501017	1	None	NAT-1
14	SLC38A6	ENSG00000139974	ENST00000534758	retained_intron	KNOWN	None	19863	None	None	61486254	61497757	1	None	NAT-1
14	SLC38A6	ENSG00000139974	ENST00000529212	protein_coding	NOVEL	None	19863	690	229	61509868	61519179	1	None	NAT-1
14	SLC38A6	ENSG00000139974	ENST00000526539	nonsense_mediated_decay	KNOWN	None	19863	66	21	61512825	61550351	1	None	NAT-1
14	SLC38A6	ENSG00000139974	ENST00000556938	retained_intron	KNOWN	None	19863	None	None	61518533	61519177	1	None	NAT-1
14	SLC38A6	ENSG00000139974	ENST00000554498	retained_intron	KNOWN	None	19863	None	None	61518604	61519182	1	None	NAT-1
14	SLC38A6	ENSG00000139974	ENST00000354886	protein_coding	KNOWN	CCDS53900	19863	1566	521	61447832	61550450	1	None	NAT-1
14	SLC38A6	ENSG00000139974	ENST00000456840	protein_coding	KNOWN	None	19863	1464	487	61448162	61550450	1	None	NAT-1
19	S1PR4	ENSG00000125910	ENST00000591346	processed_transcript	KNOWN	None	3170	None	None	3172344	3179525	1	EDG6	None
19	S1PR4	ENSG00000125910	ENST00000246115	protein_coding	KNOWN	CCDS12105	3170	1155	384	3178736	3180329	1	EDG6	None
9	SPATA31A4	ENSG00000234214	ENST00000377509	protein_coding	KNOWN	None	32004	4073	1356	41321107	41327364	-1	FAM75A4	OTTHUMG00000066731
9	SPATA31A4	ENSG00000234214	ENST00000603182	processed_transcript	KNOWN	None	32004	None	None	41323415	41325655	-1	FAM75A4	OTTHUMG00000066731
9	SPATA31A4	ENSG00000234214	ENST00000603746	processed_transcript	KNOWN	None	32004	None	None	41323686	41325695	-1	FAM75A4	OTTHUMG00000066731
9	SPATA31A4	ENSG00000234214	ENST00000604139	processed_transcript	KNOWN	None	32004	None	None	41324600	41326657	-1	FAM75A4	OTTHUMG00000066731
9	SPATA31A4	ENSG00000234214	ENST00000603452	processed_transcript	KNOWN	None	32004	None	None	41324691	41326062	-1	FAM75A4	OTTHUMG00000066731
9	SPATA31A4	ENSG00000234214	ENST00000429767	protein_coding	KNOWN	None	32004	4044	1347	41321107	41327364	-1	FAM75A4	OTTHUMG00000066731
14	ZNF219	ENSG00000165804	ENST00000360947	protein_coding	KNOWN	CCDS9568	13011	2169	722	21558205	21566799	-1	None	None
14	ZNF219	ENSG00000165804	ENST00000451119	protein_coding	KNOWN	CCDS9568	13011	2169	722	21558241	21572881	-1	None	None
14	ZNF219	ENSG00000165804	ENST00000421093	protein_coding	KNOWN	CCDS9568	13011	2169	722	21558243	21567173	-1	None	None
14	ZNF219	ENSG00000165804	ENST00000555270	protein_coding	KNOWN	None	13011	634	210	21560822	21562659	-1	None	None
14	ZNF219	ENSG00000165804	ENST00000554478	protein_coding	PUTATIVE	None	13011	474	157	21561120	21567081	-1	None	None
14	ZNF219	ENSG00000165804	ENST00000556174	protein_coding	KNOWN	None	13011	333	110	21561123	21567014	-1	None	None
14	ZNF219	ENSG00000165804	ENST00000554923	protein_coding	PUTATIVE	None	13011	436	144	21561131	21562694	-1	None	None
14	ZNF219	ENSG00000165804	ENST00000553296	protein_coding	KNOWN	None	13011	323	106	21561133	21561987	-1	None	None
14	ZNF219	ENSG00000165804	ENST00000553980	protein_coding	PUTATIVE	None	13011	171	56	21561162	21567104	-1	None	None
14	ZNF219	ENSG00000165804	ENST00000556944	retained_intron	KNOWN	None	13011	None	None	21561326	21567070	-1	None	None
14	ZNF219	ENSG00000165804	ENST00000555697	protein_coding	KNOWN	None	13011	94	30	21561362	21571738	-1	None	None
14	ZNF219	ENSG00000165804	ENST00000556101	processed_transcript	PUTATIVE	None	13011	None	None	21561417	21562607	-1	None	None
X	MAGEA10	ENSG00000124260	ENST00000370323	protein_coding	KNOWN	CCDS14705	6797	1110	369	151301782	151307025	-1	MAGE10	MGC10599, CT1.10
X	MAGEA10	ENSG00000124260	ENST00000444834	protein_coding	KNOWN	None	6797	553	183	151303540	151306982	-1	MAGE10	MGC10599, CT1.10
X	MAGEA10	ENSG00000124260	ENST00000427322	protein_coding	KNOWN	None	6797	482	159	151303608	151307033	-1	MAGE10	MGC10599, CT1.10
X	MAGEA10	ENSG00000124260	ENST00000583480	protein_coding	KNOWN	None	6797	213	70	151303880	151307012	-1	MAGE10	MGC10599, CT1.10
X	MAGEA10	ENSG00000124260	ENST00000579960	protein_coding	KNOWN	None	6797	175	57	151303918	151307000	-1	MAGE10	MGC10599, CT1.10
X	MAGEA10	ENSG00000124260	ENST00000244096	protein_coding	KNOWN	CCDS14705	6797	1110	369	151302910	151307025	-1	MAGE10	MGC10599, CT1.10
10	C10orf113	ENSG00000204683	ENST00000534331	protein_coding	KNOWN	CCDS31162	31447	468	155	21414692	21435488	-1	None	bA165O3.1
10	C10orf113	ENSG00000204683	ENST00000529198	protein_coding	KNOWN	CCDS53496	31447	240	79	21414692	21435488	-1	None	bA165O3.1
10	C10orf113	ENSG00000204683	ENST00000377118	protein_coding	KNOWN	None	31447	438	145	21414693	21435488	-1	None	bA165O3.1
10	CASC10	ENSG00000204682	ENST00000377113	protein_coding	KNOWN	CCDS31163	31448	411	136	21781587	21786191	-1	C10orf114	bA418C1.3
20	RN7SL237P	ENSG00000264767	ENST00000580912	misc_RNA	KNOWN	None	46253	None	None	36726798	36727102	-1	None	None
20	None	ENSG00000206249	ENST00000437016	antisense	KNOWN	None	None	None	None	36916733	36954938	-1	None	None
9	SPATA31A5	ENSG00000233788	ENST00000377621	protein_coding	KNOWN	CCDS47970	32005	4044	1347	41500679	41506925	1	FAM75A5	OTTHUMG00000013204
9	SPATA31A5	ENSG00000233788	ENST00000464795	processed_transcript	KNOWN	None	32005	None	None	41502298	41503646	1	FAM75A5	OTTHUMG00000013204
20	None	ENSG00000224635	ENST00000422519	lincRNA	KNOWN	None	None	None	None	37034658	37045444	-1	None	None
15	C15orf56	ENSG00000176753	ENST00000319503	protein_coding	KNOWN	CCDS32197	33868	486	161	40542865	40545111	-1	None	FLJ38596
15	C15orf56	ENSG00000176753	ENST00000559727	protein_coding	PUTATIVE	None	33868	366	121	40543977	40545170	-1	None	FLJ38596
10	SKIDA1	ENSG00000180592	ENST00000449193	protein_coding	KNOWN	CCDS44363	32697	2727	908	21802407	21814611	-1	C10orf140	FLJ45187
10	SKIDA1	ENSG00000180592	ENST00000487107	processed_transcript	KNOWN	None	32697	None	None	21808437	21812824	-1	C10orf140	FLJ45187
10	SKIDA1	ENSG00000180592	ENST00000444772	protein_coding	KNOWN	None	32697	2490	829	21803945	21806848	-1	C10orf140	FLJ45187
19	NCLN	ENSG00000125912	ENST00000590671	protein_coding	PUTATIVE	None	26923	1470	489	3185561	3207854	1	None	NICALIN, NET59
19	NCLN	ENSG00000125912	ENST00000246117	protein_coding	KNOWN	CCDS32869	26923	1692	563	3185598	3209568	1	None	NICALIN, NET59
19	NCLN	ENSG00000125912	ENST00000588428	protein_coding	NOVEL	None	26923	985	327	3185934	3206174	1	None	NICALIN, NET59
19	NCLN	ENSG00000125912	ENST00000587740	nonsense_mediated_decay	KNOWN	None	26923	1053	350	3198839	3209573	1	None	NICALIN, NET59
19	NCLN	ENSG00000125912	ENST00000592737	protein_coding	NOVEL	None	26923	848	281	3203795	3209573	1	None	NICALIN, NET59
19	NCLN	ENSG00000125912	ENST00000586904	nonsense_mediated_decay	KNOWN	None	26923	331	109	3204013	3207466	1	None	NICALIN, NET59
19	NCLN	ENSG00000125912	ENST00000592235	protein_coding	PUTATIVE	None	26923	218	71	3206420	3207848	1	None	NICALIN, NET59
19	NCLN	ENSG00000125912	ENST00000591062	processed_transcript	KNOWN	None	26923	None	None	3207464	3209569	1	None	NICALIN, NET59
4	EREG	ENSG00000124882	ENST00000244869	protein_coding	KNOWN	CCDS3564	3443	510	169	75230860	75254468	1	None	ER
4	EREG	ENSG00000124882	ENST00000507603	retained_intron	KNOWN	None	3443	None	None	75230890	75247730	1	None	ER
4	EREG	ENSG00000124882	ENST00000503689	processed_transcript	PUTATIVE	None	3443	None	None	75248140	75250669	1	None	ER
20	SNHG17	ENSG00000196756	ENST00000423536	processed_transcript	KNOWN	None	48600	None	None	37049235	37059709	-1	None	None
20	SNHG17	ENSG00000196756	ENST00000436764	processed_transcript	KNOWN	None	48600	None	None	37049235	37063976	-1	None	None
20	SNHG17	ENSG00000196756	ENST00000449469	processed_transcript	KNOWN	None	48600	None	None	37049239	37057973	-1	None	None
20	SNHG17	ENSG00000196756	ENST00000414142	retained_intron	KNOWN	None	48600	None	None	37049240	37063916	-1	None	None
20	SNHG17	ENSG00000196756	ENST00000417578	processed_transcript	KNOWN	None	48600	None	None	37049240	37063920	-1	None	None
20	SNHG17	ENSG00000196756	ENST00000413755	processed_transcript	KNOWN	None	48600	None	None	37050839	37063996	-1	None	None
20	SNHG17	ENSG00000196756	ENST00000456953	processed_transcript	KNOWN	None	48600	None	None	37055103	37063976	-1	None	None
20	SNHG17	ENSG00000196756	ENST00000424235	retained_intron	KNOWN	None	48600	None	None	37059423	37063977	-1	None	None
20	SNHG17	ENSG00000196756	ENST00000362582	snoRNA	KNOWN	None	48600	None	None	37050294	37050421	-1	None	None
15	DAPK2	ENSG00000035664	ENST00000559007	nonsense_mediated_decay	KNOWN	None	2675	276	91	64199235	64332466	-1	None	DRP-1, MGC119312
15	DAPK2	ENSG00000035664	ENST00000457488	protein_coding	KNOWN	CCDS10188	2675	1113	370	64200122	64338521	-1	None	DRP-1, MGC119312
15	DAPK2	ENSG00000035664	ENST00000559731	processed_transcript	KNOWN	None	2675	None	None	64200452	64208791	-1	None	DRP-1, MGC119312
15	DAPK2	ENSG00000035664	ENST00000558064	nonsense_mediated_decay	KNOWN	None	2675	147	48	64201383	64204142	-1	None	DRP-1, MGC119312
15	DAPK2	ENSG00000035664	ENST00000557867	retained_intron	KNOWN	None	2675	None	None	64204051	64218400	-1	None	DRP-1, MGC119312
15	DAPK2	ENSG00000035664	ENST00000558069	protein_coding	PUTATIVE	None	2675	1467	488	64214934	64338521	-1	None	DRP-1, MGC119312
15	DAPK2	ENSG00000035664	ENST00000558076	retained_intron	KNOWN	None	2675	None	None	64216711	64218273	-1	None	DRP-1, MGC119312
15	DAPK2	ENSG00000035664	ENST00000558482	processed_transcript	KNOWN	None	2675	None	None	64221750	64338635	-1	None	DRP-1, MGC119312
15	DAPK2	ENSG00000035664	ENST00000559897	processed_transcript	KNOWN	None	2675	None	None	64231492	64322219	-1	None	DRP-1, MGC119312
15	DAPK2	ENSG00000035664	ENST00000561162	nonsense_mediated_decay	KNOWN	None	2675	267	88	64263723	64338580	-1	None	DRP-1, MGC119312
15	DAPK2	ENSG00000035664	ENST00000559306	protein_coding	KNOWN	None	2675	242	79	64275804	64364232	-1	None	DRP-1, MGC119312
15	DAPK2	ENSG00000035664	ENST00000261891	protein_coding	KNOWN	CCDS10188	2675	1113	370	64199235	64332466	-1	None	DRP-1, MGC119312
8	EIF4EBP1	ENSG00000187840	ENST00000338825	protein_coding	KNOWN	CCDS6100	3288	357	118	37887859	37917883	1	None	PHAS-I, 4E-BP1
8	EIF4EBP1	ENSG00000187840	ENST00000520657	processed_transcript	PUTATIVE	None	3288	None	None	37904857	37917883	1	None	PHAS-I, 4E-BP1
10	MLLT10	ENSG00000078403	ENST00000377100	protein_coding	KNOWN	CCDS55707	16063	540	179	21823094	21846111	1	None	AF10
10	MLLT10	ENSG00000078403	ENST00000377072	protein_coding	KNOWN	CCDS7135	16063	3084	1027	21823102	22032559	1	None	AF10
10	MLLT10	ENSG00000078403	ENST00000307729	protein_coding	KNOWN	CCDS55708	16063	3207	1068	21823272	22032559	1	None	AF10
10	MLLT10	ENSG00000078403	ENST00000377091	protein_coding	KNOWN	CCDS55706	16063	381	126	21823274	21845954	1	None	AF10
10	MLLT10	ENSG00000078403	ENST00000471315	processed_transcript	KNOWN	None	16063	None	None	21823397	21827893	1	None	AF10
10	MLLT10	ENSG00000078403	ENST00000495130	processed_transcript	KNOWN	None	16063	None	None	21823419	21901380	1	None	AF10
10	MLLT10	ENSG00000078403	ENST00000476557	processed_transcript	KNOWN	None	16063	None	None	21823631	21884511	1	None	AF10
10	MLLT10	ENSG00000078403	ENST00000430455	protein_coding	KNOWN	None	16063	184	60	21823678	21884307	1	None	AF10
10	MLLT10	ENSG00000078403	ENST00000462999	processed_transcript	KNOWN	None	16063	None	None	21823678	21884313	1	None	AF10
10	MLLT10	ENSG00000078403	ENST00000480415	processed_transcript	KNOWN	None	16063	None	None	21823678	21884313	1	None	AF10
10	MLLT10	ENSG00000078403	ENST00000479634	processed_transcript	KNOWN	None	16063	None	None	21823678	21884313	1	None	AF10
10	MLLT10	ENSG00000078403	ENST00000438473	protein_coding	KNOWN	None	16063	1085	360	21940683	22019873	1	None	AF10
10	MLLT10	ENSG00000078403	ENST00000468309	processed_transcript	KNOWN	None	16063	None	None	21957901	21959943	1	None	AF10
10	MLLT10	ENSG00000078403	ENST00000420525	protein_coding	KNOWN	None	16063	538	178	21962507	22002851	1	None	AF10
10	MLLT10	ENSG00000078403	ENST00000446906	protein_coding	KNOWN	None	16063	3036	1011	21823102	22032554	1	None	AF10
10	MLLT10	ENSG00000078403	ENST00000377059	protein_coding	KNOWN	None	16063	3036	1011	21823574	22032554	1	None	AF10
6	None	ENSG00000260286	ENST00000565469	protein_coding	PUTATIVE	None	None	693	230	24797549	24799117	-1	None	None
8	ASH2L	ENSG00000129691	ENST00000343823	protein_coding	KNOWN	CCDS6101	744	1887	628	37962760	37997483	1	ASH2L1	ASH2L2, ASH2, Bre2
8	ASH2L	ENSG00000129691	ENST00000517719	protein_coding	NOVEL	None	744	605	200	37963018	37968329	1	ASH2L1	ASH2L2, ASH2, Bre2
8	ASH2L	ENSG00000129691	ENST00000517496	nonsense_mediated_decay	KNOWN	None	744	366	121	37963068	37997041	1	ASH2L1	ASH2L2, ASH2, Bre2
8	ASH2L	ENSG00000129691	ENST00000428278	protein_coding	KNOWN	CCDS47840	744	1605	534	37963311	37997221	1	ASH2L1	ASH2L2, ASH2, Bre2
8	ASH2L	ENSG00000129691	ENST00000521652	protein_coding	KNOWN	CCDS59100	744	1506	501	37963457	37997221	1	ASH2L1	ASH2L2, ASH2, Bre2
8	ASH2L	ENSG00000129691	ENST00000524263	processed_transcript	KNOWN	None	744	None	None	37968255	37975330	1	ASH2L1	ASH2L2, ASH2, Bre2
8	ASH2L	ENSG00000129691	ENST00000522675	retained_intron	KNOWN	None	744	None	None	37972276	37976813	1	ASH2L1	ASH2L2, ASH2, Bre2
8	ASH2L	ENSG00000129691	ENST00000518186	retained_intron	KNOWN	None	744	None	None	37976613	37985896	1	ASH2L1	ASH2L2, ASH2, Bre2
8	ASH2L	ENSG00000129691	ENST00000524247	protein_coding	PUTATIVE	None	744	575	190	37985858	37996403	1	ASH2L1	ASH2L2, ASH2, Bre2
8	ASH2L	ENSG00000129691	ENST00000521808	nonsense_mediated_decay	KNOWN	None	744	271	89	37993182	38001594	1	ASH2L1	ASH2L2, ASH2, Bre2
8	ASH2L	ENSG00000129691	ENST00000520079	retained_intron	KNOWN	None	744	None	None	37995013	37997219	1	ASH2L1	ASH2L2, ASH2, Bre2
8	ASH2L	ENSG00000129691	ENST00000250635	protein_coding	KNOWN	CCDS59100	744	1506	501	37963011	37997225	1	ASH2L1	ASH2L2, ASH2, Bre2
8	ASH2L	ENSG00000129691	ENST00000545394	protein_coding	KNOWN	None	744	1470	489	37963068	37997041	1	ASH2L1	ASH2L2, ASH2, Bre2
15	PLCB2	ENSG00000137841	ENST00000560009	retained_intron	KNOWN	None	9055	None	None	40570377	40581773	-1	None	FLJ38135
15	PLCB2	ENSG00000137841	ENST00000559671	protein_coding	PUTATIVE	None	9055	262	86	40576457	40582873	-1	None	FLJ38135
15	PLCB2	ENSG00000137841	ENST00000260402	protein_coding	KNOWN	CCDS42020	9055	3558	1185	40580108	40600123	-1	None	FLJ38135
15	PLCB2	ENSG00000137841	ENST00000559381	retained_intron	KNOWN	None	9055	None	None	40580109	40583530	-1	None	FLJ38135
15	PLCB2	ENSG00000137841	ENST00000559618	nonsense_mediated_decay	KNOWN	None	9055	225	74	40580110	40581493	-1	None	FLJ38135
15	PLCB2	ENSG00000137841	ENST00000558588	nonsense_mediated_decay	KNOWN	None	9055	2685	894	40580110	40599894	-1	None	FLJ38135
15	PLCB2	ENSG00000137841	ENST00000557821	protein_coding	KNOWN	None	9055	3546	1181	40580110	40600038	-1	None	FLJ38135
15	PLCB2	ENSG00000137841	ENST00000456256	protein_coding	NOVEL	None	9055	3513	1170	40580340	40600026	-1	None	FLJ38135
15	PLCB2	ENSG00000137841	ENST00000558505	retained_intron	KNOWN	None	9055	None	None	40580773	40583531	-1	None	FLJ38135
15	PLCB2	ENSG00000137841	ENST00000560701	retained_intron	KNOWN	None	9055	None	None	40581267	40583554	-1	None	FLJ38135
15	PLCB2	ENSG00000137841	ENST00000561378	retained_intron	KNOWN	None	9055	None	None	40584075	40585823	-1	None	FLJ38135
15	PLCB2	ENSG00000137841	ENST00000558409	retained_intron	KNOWN	None	9055	None	None	40588766	40589920	-1	None	FLJ38135
15	PLCB2	ENSG00000137841	ENST00000560093	retained_intron	KNOWN	None	9055	None	None	40590495	40591490	-1	None	FLJ38135
15	PLCB2	ENSG00000137841	ENST00000543785	protein_coding	PUTATIVE	None	9055	600	199	40592868	40600111	-1	None	FLJ38135
15	PLCB2	ENSG00000137841	ENST00000559634	retained_intron	KNOWN	None	9055	None	None	40596088	40600136	-1	None	FLJ38135
6	FAM65B	ENSG00000111913	ENST00000562221	protein_coding	KNOWN	None	13872	183	60	24797601	24810026	-1	C6orf32	KIAA0386, DIFF48, MYONAP
6	FAM65B	ENSG00000111913	ENST00000259698	protein_coding	KNOWN	CCDS47383	13872	3207	1068	24804513	24911195	-1	C6orf32	KIAA0386, DIFF48, MYONAP
6	FAM65B	ENSG00000111913	ENST00000463828	retained_intron	KNOWN	None	13872	None	None	24828367	24836278	-1	C6orf32	KIAA0386, DIFF48, MYONAP
6	FAM65B	ENSG00000111913	ENST00000378023	protein_coding	KNOWN	CCDS47384	13872	1776	591	24839587	24877583	-1	C6orf32	KIAA0386, DIFF48, MYONAP
6	FAM65B	ENSG00000111913	ENST00000473070	processed_transcript	KNOWN	None	13872	None	None	24840500	24843364	-1	C6orf32	KIAA0386, DIFF48, MYONAP
6	FAM65B	ENSG00000111913	ENST00000538035	protein_coding	KNOWN	None	13872	3144	1047	24806551	24936188	-1	C6orf32	KIAA0386, DIFF48, MYONAP
6	FAM65B	ENSG00000111913	ENST00000510784	protein_coding	KNOWN	None	13872	1944	647	24840553	25042238	-1	C6orf32	KIAA0386, DIFF48, MYONAP
6	FAM65B	ENSG00000111913	ENST00000540914	protein_coding	KNOWN	None	13872	1842	613	24840351	24877541	-1	C6orf32	KIAA0386, DIFF48, MYONAP
X	GABRA3	ENSG00000011677	ENST00000370314	protein_coding	KNOWN	CCDS14706	4077	1479	492	151334706	151619830	-1	None	None
X	GABRA3	ENSG00000011677	ENST00000370311	protein_coding	KNOWN	CCDS14706	4077	1479	492	151336625	151620337	-1	None	None
X	GABRA3	ENSG00000011677	ENST00000497894	processed_transcript	KNOWN	None	4077	None	None	151355681	151358415	-1	None	None
X	GABRA3	ENSG00000011677	ENST00000417858	protein_coding	KNOWN	None	4077	338	111	151419530	151424470	-1	None	None
X	GABRA3	ENSG00000011677	ENST00000535043	protein_coding	KNOWN	CCDS14706	4077	1479	492	151336700	151557969	-1	None	None
14	None	ENSG00000259529	ENST00000558468	nonsense_mediated_decay	KNOWN	None	None	1644	547	24620427	24636611	1	None	None
9	ANKRD20A2	ENSG00000183148	ENST00000377601	protein_coding	KNOWN	CCDS35028	31979	2472	823	42368303	42411410	1	None	None
9	ANKRD20A2	ENSG00000183148	ENST00000477139	processed_transcript	KNOWN	None	31979	None	None	42375428	42403797	1	None	None
9	SMARCA2	ENSG00000080503	ENST00000450198	protein_coding	KNOWN	None	11098	1677	558	2015374	2060971	1	SNF2L2	BAF190, hSNF2a, hBRM, Sth1p, SNF2LA, BRM, SNF2, SWI2
9	SMARCA2	ENSG00000080503	ENST00000457226	protein_coding	KNOWN	None	11098	199	65	2017087	2029221	1	SNF2L2	BAF190, hSNF2a, hBRM, Sth1p, SNF2LA, BRM, SNF2, SWI2
9	SMARCA2	ENSG00000080503	ENST00000439732	protein_coding	KNOWN	None	11098	464	153	2017439	2039574	1	SNF2L2	BAF190, hSNF2a, hBRM, Sth1p, SNF2LA, BRM, SNF2, SWI2
9	SMARCA2	ENSG00000080503	ENST00000382203	protein_coding	KNOWN	CCDS34977	11098	4773	1590	2021945	2193624	1	SNF2L2	BAF190, hSNF2a, hBRM, Sth1p, SNF2LA, BRM, SNF2, SWI2
9	SMARCA2	ENSG00000080503	ENST00000382194	protein_coding	KNOWN	CCDS34978	11098	4719	1572	2029019	2193577	1	SNF2L2	BAF190, hSNF2a, hBRM, Sth1p, SNF2LA, BRM, SNF2, SWI2
9	SMARCA2	ENSG00000080503	ENST00000491574	processed_transcript	KNOWN	None	11098	None	None	2032539	2039857	1	SNF2L2	BAF190, hSNF2a, hBRM, Sth1p, SNF2LA, BRM, SNF2, SWI2
9	SMARCA2	ENSG00000080503	ENST00000452193	protein_coding	KNOWN	None	11098	512	169	2157680	2186154	1	SNF2L2	BAF190, hSNF2a, hBRM, Sth1p, SNF2LA, BRM, SNF2, SWI2
9	SMARCA2	ENSG00000080503	ENST00000302401	protein_coding	KNOWN	None	11098	837	278	2158456	2193621	1	SNF2L2	BAF190, hSNF2a, hBRM, Sth1p, SNF2LA, BRM, SNF2, SWI2
9	SMARCA2	ENSG00000080503	ENST00000423555	protein_coding	KNOWN	None	11098	460	152	2158464	2182183	1	SNF2L2	BAF190, hSNF2a, hBRM, Sth1p, SNF2LA, BRM, SNF2, SWI2
9	SMARCA2	ENSG00000080503	ENST00000382186	protein_coding	KNOWN	None	11098	765	254	2158481	2192752	1	SNF2L2	BAF190, hSNF2a, hBRM, Sth1p, SNF2LA, BRM, SNF2, SWI2
9	SMARCA2	ENSG00000080503	ENST00000417599	protein_coding	KNOWN	None	11098	815	270	2158485	2191428	1	SNF2L2	BAF190, hSNF2a, hBRM, Sth1p, SNF2LA, BRM, SNF2, SWI2
9	SMARCA2	ENSG00000080503	ENST00000382185	protein_coding	KNOWN	None	11098	711	236	2158509	2193571	1	SNF2L2	BAF190, hSNF2a, hBRM, Sth1p, SNF2LA, BRM, SNF2, SWI2
9	SMARCA2	ENSG00000080503	ENST00000382183	protein_coding	KNOWN	None	11098	711	236	2158513	2193040	1	SNF2L2	BAF190, hSNF2a, hBRM, Sth1p, SNF2LA, BRM, SNF2, SWI2
9	SMARCA2	ENSG00000080503	ENST00000416751	protein_coding	KNOWN	None	11098	532	176	2159945	2186228	1	SNF2L2	BAF190, hSNF2a, hBRM, Sth1p, SNF2LA, BRM, SNF2, SWI2
9	SMARCA2	ENSG00000080503	ENST00000349721	protein_coding	KNOWN	CCDS34977	11098	4773	1590	2015342	2193624	1	SNF2L2	BAF190, hSNF2a, hBRM, Sth1p, SNF2LA, BRM, SNF2, SWI2
9	SMARCA2	ENSG00000080503	ENST00000357248	protein_coding	KNOWN	CCDS34978	11098	4719	1572	2015342	2193624	1	SNF2L2	BAF190, hSNF2a, hBRM, Sth1p, SNF2LA, BRM, SNF2, SWI2
9	SMARCA2	ENSG00000080503	ENST00000324954	protein_coding	KNOWN	None	11098	711	236	2158456	2192856	1	SNF2L2	BAF190, hSNF2a, hBRM, Sth1p, SNF2LA, BRM, SNF2, SWI2
14	IRF9	ENSG00000213928	ENST00000396864	protein_coding	KNOWN	CCDS9615	6131	1182	393	24630262	24635774	1	ISGF3G	None
14	IRF9	ENSG00000213928	ENST00000557894	protein_coding	NOVEL	None	6131	1062	353	24630482	24635601	1	ISGF3G	None
14	IRF9	ENSG00000213928	ENST00000561342	nonsense_mediated_decay	KNOWN	None	6131	153	50	24630486	24635111	1	ISGF3G	None
14	IRF9	ENSG00000213928	ENST00000561009	retained_intron	KNOWN	None	6131	None	None	24630499	24632490	1	ISGF3G	None
14	IRF9	ENSG00000213928	ENST00000560365	retained_intron	KNOWN	None	6131	None	None	24630499	24632795	1	ISGF3G	None
14	IRF9	ENSG00000213928	ENST00000561415	retained_intron	KNOWN	None	6131	None	None	24630499	24635463	1	ISGF3G	None
14	IRF9	ENSG00000213928	ENST00000559284	protein_coding	NOVEL	None	6131	536	177	24630502	24633312	1	ISGF3G	None
14	IRF9	ENSG00000213928	ENST00000560275	protein_coding	NOVEL	None	6131	802	266	24630510	24633948	1	ISGF3G	None
14	IRF9	ENSG00000213928	ENST00000561412	retained_intron	KNOWN	None	6131	None	None	24630513	24631925	1	ISGF3G	None
14	IRF9	ENSG00000213928	ENST00000560852	nonsense_mediated_decay	KNOWN	None	6131	153	50	24630526	24632974	1	ISGF3G	None
14	IRF9	ENSG00000213928	ENST00000324076	protein_coding	NOVEL	None	6131	630	209	24632205	24635433	1	ISGF3G	None
14	IRF9	ENSG00000213928	ENST00000559863	retained_intron	KNOWN	None	6131	None	None	24632821	24633496	1	ISGF3G	None
14	IRF9	ENSG00000213928	ENST00000559229	retained_intron	KNOWN	None	6131	None	None	24633084	24634129	1	ISGF3G	None
14	IRF9	ENSG00000213928	ENST00000560542	retained_intron	KNOWN	None	6131	None	None	24633739	24634658	1	ISGF3G	None
14	IRF9	ENSG00000213928	ENST00000560311	retained_intron	KNOWN	None	6131	None	None	24634968	24635774	1	ISGF3G	None
4	AREG	ENSG00000109321	ENST00000395748	protein_coding	KNOWN	CCDS3565	651	759	252	75310851	75320726	1	SDGF	None
4	AREG	ENSG00000109321	ENST00000502307	protein_coding	PUTATIVE	None	651	825	274	75311019	75320722	1	SDGF	None
4	AREG	ENSG00000109321	ENST00000511560	processed_transcript	PUTATIVE	None	651	None	None	75314356	75316249	1	SDGF	None
4	AREG	ENSG00000109321	ENST00000264487	protein_coding	KNOWN	CCDS3565	651	759	252	75310853	75318354	1	SDGF	None
20	SNORA71B	ENSG00000235408	ENST00000439232	lincRNA	KNOWN	None	10233	None	None	37053843	37053978	-1	RNU71B	U71b
20	SNORA71B	ENSG00000235408	ENST00000364546	snoRNA	KNOWN	None	10233	None	None	37053846	37053979	-1	RNU71B	U71b
20	SNORA71A	ENSG00000225091	ENST00000439912	processed_transcript	KNOWN	None	10232	None	None	37055949	37056086	-1	RNU71A	U71a
20	SNORA71A	ENSG00000225091	ENST00000364729	snoRNA	KNOWN	None	10232	None	None	37055952	37056085	-1	RNU71A	U71a
20	SNORA71C	ENSG00000201512	ENST00000364642	snoRNA	KNOWN	None	32656	None	None	37058313	37058446	-1	None	U71c
20	SNORA71D	ENSG00000200354	ENST00000363484	snoRNA	KNOWN	None	32657	None	None	37062508	37062641	-1	None	U71d
8	SAMD12	ENSG00000177570	ENST00000453675	protein_coding	PUTATIVE	None	31750	445	147	119208412	119593134	-1	None	FLJ39458
8	SAMD12	ENSG00000177570	ENST00000524796	protein_coding	PUTATIVE	None	31750	462	153	119209786	119593121	-1	None	FLJ39458
8	SAMD12	ENSG00000177570	ENST00000445741	nonsense_mediated_decay	KNOWN	None	31750	207	68	119252105	119634132	-1	None	FLJ39458
8	SAMD12	ENSG00000177570	ENST00000527515	processed_transcript	PUTATIVE	None	31750	None	None	119387940	119391844	-1	None	FLJ39458
8	SAMD12	ENSG00000177570	ENST00000314727	protein_coding	KNOWN	CCDS6325	31750	606	201	119390227	119634192	-1	None	FLJ39458
8	SAMD12	ENSG00000177570	ENST00000526328	protein_coding	PUTATIVE	None	31750	463	153	119391799	119634184	-1	None	FLJ39458
8	SAMD12	ENSG00000177570	ENST00000526765	protein_coding	PUTATIVE	None	31750	507	168	119391799	119634234	-1	None	FLJ39458
8	SAMD12	ENSG00000177570	ENST00000409003	protein_coding	KNOWN	CCDS47913	31750	486	161	119201698	119634184	-1	None	FLJ39458
20	None	ENSG00000201811	ENST00000364941	snoRNA	NOVEL	None	None	None	None	37070679	37070812	1	None	None
9	DFNB31	ENSG00000095397	ENST00000265134	protein_coding	KNOWN	CCDS43870	16361	1575	524	117164360	117265453	-1	None	CIP98, WHRN, USH2D, PDZD7B
9	DFNB31	ENSG00000095397	ENST00000374059	protein_coding	KNOWN	None	16361	1671	556	117164361	117188351	-1	None	CIP98, WHRN, USH2D, PDZD7B
9	DFNB31	ENSG00000095397	ENST00000362057	protein_coding	KNOWN	CCDS6806	16361	2724	907	117164361	117267250	-1	None	CIP98, WHRN, USH2D, PDZD7B
9	DFNB31	ENSG00000095397	ENST00000374057	protein_coding	KNOWN	None	16361	1038	345	117240601	117267730	-1	None	CIP98, WHRN, USH2D, PDZD7B
9	DFNB31	ENSG00000095397	ENST00000480518	processed_transcript	KNOWN	None	16361	None	None	117265831	117266619	-1	None	CIP98, WHRN, USH2D, PDZD7B
X	None	ENSG00000250232	ENST00000376358	protein_coding	PUTATIVE	None	None	879	292	48929385	48937546	-1	None	None
4	AREGB	ENSG00000205595	ENST00000380846	protein_coding	KNOWN	None	34509	759	252	75480629	75490486	1	None	None
4	AREGB	ENSG00000205595	ENST00000511772	processed_transcript	PUTATIVE	None	34509	None	None	75484115	75486006	1	None	None
X	BEX4	ENSG00000102409	ENST00000372695	protein_coding	KNOWN	CCDS35355	25475	363	120	102470020	102472174	1	BEXL1	FLJ10097
X	BEX4	ENSG00000102409	ENST00000372691	protein_coding	KNOWN	CCDS35355	25475	363	120	102470052	102472027	1	BEXL1	FLJ10097
X	GABRQ	ENSG00000147402	ENST00000370306	protein_coding	KNOWN	CCDS14707	14454	1899	632	151806637	151825999	1	None	THETA
8	DNAJC5B	ENSG00000147570	ENST00000524076	processed_transcript	KNOWN	None	24138	None	None	66933795	66992700	1	None	MGC26226, CSP-beta
8	DNAJC5B	ENSG00000147570	ENST00000276570	protein_coding	KNOWN	CCDS6183	24138	600	199	66933795	67012751	1	None	MGC26226, CSP-beta
8	DNAJC5B	ENSG00000147570	ENST00000519330	processed_transcript	KNOWN	None	24138	None	None	66933849	67012369	1	None	MGC26226, CSP-beta
8	DNAJC5B	ENSG00000147570	ENST00000522619	protein_coding	PUTATIVE	None	24138	289	95	66955712	66989064	1	None	MGC26226, CSP-beta
9	None	ENSG00000240240	ENST00000590154	processed_transcript	KNOWN	None	None	None	None	42409989	42419103	1	None	None
9	None	ENSG00000240240	ENST00000421686	nonsense_mediated_decay	KNOWN	None	None	226	74	42410363	42474239	1	None	None
9	None	ENSG00000240240	ENST00000588568	nonsense_mediated_decay	KNOWN	None	None	6	1	42419017	42429602	1	None	None
20	SNHG11	ENSG00000174365	ENST00000453698	processed_transcript	KNOWN	None	25046	None	None	37075221	37079564	1	C20orf198	LINC00101
20	SNHG11	ENSG00000174365	ENST00000400436	processed_transcript	KNOWN	None	25046	None	None	37075297	37079564	1	C20orf198	LINC00101
20	SNHG11	ENSG00000174365	ENST00000483342	processed_transcript	KNOWN	None	25046	None	None	37075328	37079564	1	C20orf198	LINC00101
20	SNHG11	ENSG00000174365	ENST00000421599	processed_transcript	KNOWN	None	25046	None	None	37075334	37079564	1	C20orf198	LINC00101
20	SNHG11	ENSG00000174365	ENST00000449351	processed_transcript	KNOWN	None	25046	None	None	37075344	37079564	1	C20orf198	LINC00101
20	SNHG11	ENSG00000174365	ENST00000420006	processed_transcript	KNOWN	None	25046	None	None	37075353	37079500	1	C20orf198	LINC00101
20	SNHG11	ENSG00000174365	ENST00000359074	processed_transcript	KNOWN	None	25046	None	None	37075353	37079564	1	C20orf198	LINC00101
20	SNHG11	ENSG00000174365	ENST00000440918	processed_transcript	KNOWN	None	25046	None	None	37075359	37079006	1	C20orf198	LINC00101
20	SNHG11	ENSG00000174365	ENST00000432153	processed_transcript	KNOWN	None	25046	None	None	37075367	37079564	1	C20orf198	LINC00101
20	SNHG11	ENSG00000174365	ENST00000437028	processed_transcript	KNOWN	None	25046	None	None	37075370	37079564	1	C20orf198	LINC00101
20	SNHG11	ENSG00000174365	ENST00000434729	processed_transcript	KNOWN	None	25046	None	None	37075400	37079564	1	C20orf198	LINC00101
20	SNHG11	ENSG00000174365	ENST00000418383	processed_transcript	KNOWN	None	25046	None	None	37075530	37076654	1	C20orf198	LINC00101
20	SNHG11	ENSG00000174365	ENST00000457218	processed_transcript	KNOWN	None	25046	None	None	37075957	37079564	1	C20orf198	LINC00101
20	SNHG11	ENSG00000174365	ENST00000442419	processed_transcript	KNOWN	None	25046	None	None	37076181	37079564	1	C20orf198	LINC00101
20	SNHG11	ENSG00000174365	ENST00000444816	processed_transcript	KNOWN	None	25046	None	None	37077254	37079564	1	C20orf198	LINC00101
20	SNHG11	ENSG00000174365	ENST00000365032	snoRNA	KNOWN	None	25046	None	None	37076727	37076858	1	C20orf198	LINC00101
8	None	ENSG00000225885	ENST00000420844	processed_transcript	KNOWN	None	None	None	None	119294378	119307932	1	None	None
8	None	ENSG00000225885	ENST00000366457	protein_coding	PUTATIVE	None	None	111	36	119294481	119297202	1	None	None
8	None	ENSG00000225885	ENST00000449065	nonsense_mediated_decay	KNOWN	None	None	111	36	119294500	119300595	1	None	None
8	None	ENSG00000225885	ENST00000434023	processed_transcript	KNOWN	None	None	None	None	119296535	119307933	1	None	None
8	None	ENSG00000225885	ENST00000430457	processed_transcript	KNOWN	None	None	None	None	119303447	119412844	1	None	None
4	BTC	ENSG00000174808	ENST00000395743	protein_coding	KNOWN	CCDS3566	1121	537	178	75669969	75719896	-1	None	None
4	BTC	ENSG00000174808	ENST00000512743	protein_coding	NOVEL	None	1121	326	107	75671589	75695366	-1	None	None
5	ACTBL2	ENSG00000169067	ENST00000423391	protein_coding	KNOWN	CCDS34163	17780	1131	376	56775846	56778636	-1	None	DKFZp686D0972
14	None	ENSG00000268657	ENST00000596306	protein_coding	NOVEL	None	None	447	148	92038788	92041383	-1	None	None
15	FAM96A	ENSG00000166797	ENST00000300030	protein_coding	KNOWN	CCDS10189	26235	483	160	64364758	64386217	-1	None	FLJ22875
15	FAM96A	ENSG00000166797	ENST00000558779	processed_transcript	KNOWN	None	26235	None	None	64364764	64366016	-1	None	FLJ22875
15	FAM96A	ENSG00000166797	ENST00000380290	protein_coding	PUTATIVE	CCDS45278	26235	309	102	64364777	64386007	-1	None	FLJ22875
15	FAM96A	ENSG00000166797	ENST00000559705	nonsense_mediated_decay	KNOWN	None	26235	210	69	64365180	64386052	-1	None	FLJ22875
15	FAM96A	ENSG00000166797	ENST00000557835	protein_coding	KNOWN	CCDS45278	26235	309	102	64366517	64385994	-1	None	FLJ22875
15	FAM96A	ENSG00000166797	ENST00000559950	protein_coding	NOVEL	None	26235	393	130	64367604	64386056	-1	None	FLJ22875
5	PLK2	ENSG00000145632	ENST00000274289	protein_coding	KNOWN	CCDS3974	19699	2058	685	57749809	57756087	-1	None	SNK
5	PLK2	ENSG00000145632	ENST00000502671	processed_transcript	KNOWN	None	19699	None	None	57749812	57753396	-1	None	SNK
5	PLK2	ENSG00000145632	ENST00000511326	retained_intron	KNOWN	None	19699	None	None	57750533	57750943	-1	None	SNK
5	PLK2	ENSG00000145632	ENST00000503378	retained_intron	KNOWN	None	19699	None	None	57750802	57752021	-1	None	SNK
5	PLK2	ENSG00000145632	ENST00000505244	retained_intron	KNOWN	None	19699	None	None	57751438	57752240	-1	None	SNK
5	PLK2	ENSG00000145632	ENST00000503713	retained_intron	KNOWN	None	19699	None	None	57751974	57753106	-1	None	SNK
5	PLK2	ENSG00000145632	ENST00000510629	retained_intron	KNOWN	None	19699	None	None	57752570	57753248	-1	None	SNK
5	PLK2	ENSG00000145632	ENST00000503115	retained_intron	KNOWN	None	19699	None	None	57752833	57753564	-1	None	SNK
5	PLK2	ENSG00000145632	ENST00000515415	retained_intron	KNOWN	None	19699	None	None	57752888	57755332	-1	None	SNK
5	PLK2	ENSG00000145632	ENST00000509555	retained_intron	KNOWN	None	19699	None	None	57753136	57754722	-1	None	SNK
5	PLK2	ENSG00000145632	ENST00000509422	retained_intron	KNOWN	None	19699	None	None	57753321	57754400	-1	None	SNK
5	PLK2	ENSG00000145632	ENST00000508300	retained_intron	KNOWN	None	19699	None	None	57753343	57754966	-1	None	SNK
5	PLK2	ENSG00000145632	ENST00000514306	retained_intron	KNOWN	None	19699	None	None	57754124	57755686	-1	None	SNK
5	PLK2	ENSG00000145632	ENST00000504196	retained_intron	KNOWN	None	19699	None	None	57754692	57755913	-1	None	SNK
14	CATSPERB	ENSG00000133962	ENST00000557036	nonsense_mediated_decay	KNOWN	None	20500	204	67	92047040	92136274	-1	C14orf161	FLJ14298
14	CATSPERB	ENSG00000133962	ENST00000256343	protein_coding	KNOWN	CCDS32142	20500	3351	1116	92047118	92198430	-1	C14orf161	FLJ14298
14	CATSPERB	ENSG00000133962	ENST00000556429	retained_intron	KNOWN	None	20500	None	None	92055923	92058896	-1	C14orf161	FLJ14298
14	CATSPERB	ENSG00000133962	ENST00000556901	retained_intron	KNOWN	None	20500	None	None	92101868	92112579	-1	C14orf161	FLJ14298
14	CATSPERB	ENSG00000133962	ENST00000553329	protein_coding	NOVEL	None	20500	452	149	92170919	92198403	-1	C14orf161	FLJ14298
14	CATSPERB	ENSG00000133962	ENST00000554560	protein_coding	KNOWN	None	20500	300	99	92189402	92247051	-1	C14orf161	FLJ14298
14	CATSPERB	ENSG00000133962	ENST00000556661	protein_coding	KNOWN	None	20500	222	73	92189480	92247032	-1	C14orf161	FLJ14298
14	CATSPERB	ENSG00000133962	ENST00000553676	protein_coding	KNOWN	None	20500	221	72	92189481	92247032	-1	C14orf161	FLJ14298
4	LGI2	ENSG00000153012	ENST00000382114	protein_coding	KNOWN	CCDS3431	18710	1638	545	25000469	25032501	-1	None	KIAA1916, FLJ10675
4	LGI2	ENSG00000153012	ENST00000512108	protein_coding	PUTATIVE	None	18710	767	254	25001389	25032287	-1	None	KIAA1916, FLJ10675
14	TMEM253	ENSG00000232070	ENST00000554329	protein_coding	NOVEL	None	32545	381	126	21567097	21570896	1	NCRNA00220, C14orf95, C14orf176	None
14	TMEM253	ENSG00000232070	ENST00000554844	retained_intron	KNOWN	None	32545	None	None	21569238	21569956	1	NCRNA00220, C14orf95, C14orf176	None
14	TMEM253	ENSG00000232070	ENST00000556585	protein_coding	KNOWN	CCDS53884	32545	654	217	21569262	21571881	1	NCRNA00220, C14orf95, C14orf176	None
14	TMEM253	ENSG00000232070	ENST00000555314	retained_intron	KNOWN	None	32545	None	None	21569757	21570850	1	NCRNA00220, C14orf95, C14orf176	None
14	TMEM253	ENSG00000232070	ENST00000553744	retained_intron	KNOWN	None	32545	None	None	21570542	21570853	1	NCRNA00220, C14orf95, C14orf176	None
14	TMEM253	ENSG00000232070	ENST00000418511	protein_coding	KNOWN	CCDS53884	32545	654	217	21567096	21571883	1	NCRNA00220, C14orf95, C14orf176	None
14	OR5AU1	ENSG00000169327	ENST00000304418	protein_coding	KNOWN	CCDS32042	15362	1089	362	21623026	21624222	-1	None	None
X	TCEAL8	ENSG00000180964	ENST00000360000	protein_coding	KNOWN	CCDS14504	28683	354	117	102507923	102510113	-1	None	MGC45400
X	TCEAL8	ENSG00000180964	ENST00000372685	protein_coding	KNOWN	CCDS14504	28683	354	117	102507923	102510131	-1	None	MGC45400
X	TCEAL8	ENSG00000180964	ENST00000451678	protein_coding	KNOWN	None	28683	223	73	102508586	102510120	-1	None	MGC45400
8	TNFRSF11B	ENSG00000164761	ENST00000297350	protein_coding	KNOWN	CCDS6326	11909	1206	401	119935796	119964439	-1	OPG	OCIF, TR1
8	TNFRSF11B	ENSG00000164761	ENST00000521597	retained_intron	KNOWN	None	11909	None	None	119936714	119941312	-1	OPG	OCIF, TR1
8	TNFRSF11B	ENSG00000164761	ENST00000517352	nonsense_mediated_decay	KNOWN	None	11909	438	145	119938749	119964122	-1	OPG	OCIF, TR1
4	PARM1	ENSG00000169116	ENST00000513238	protein_coding	NOVEL	None	24536	207	68	75858305	75975325	1	None	DKFZP564O0823, Cipar1, WSC4
4	PARM1	ENSG00000169116	ENST00000307428	protein_coding	KNOWN	CCDS47077	24536	933	310	75858326	75975323	1	None	DKFZP564O0823, Cipar1, WSC4
8	TRIM55	ENSG00000147573	ENST00000315962	protein_coding	KNOWN	CCDS6184	14215	1647	548	67039131	67087720	1	RNF29	MURF-2
8	TRIM55	ENSG00000147573	ENST00000353317	protein_coding	KNOWN	CCDS6185	14215	1359	452	67039131	67087720	1	RNF29	MURF-2
8	TRIM55	ENSG00000147573	ENST00000276573	protein_coding	KNOWN	CCDS6187	14215	1623	540	67039278	67086827	1	RNF29	MURF-2
8	TRIM55	ENSG00000147573	ENST00000350034	protein_coding	KNOWN	CCDS6186	14215	726	241	67039278	67087053	1	RNF29	MURF-2
8	TRIM55	ENSG00000147573	ENST00000517647	retained_intron	KNOWN	None	14215	None	None	67064533	67087240	1	RNF29	MURF-2
16	CARHSP1	ENSG00000153048	ENST00000396593	protein_coding	KNOWN	CCDS10537	17150	444	147	8946799	8962258	-1	None	CRHSP-24, CSDC1
16	CARHSP1	ENSG00000153048	ENST00000311052	protein_coding	KNOWN	CCDS10537	17150	444	147	8948770	8962866	-1	None	CRHSP-24, CSDC1
16	CARHSP1	ENSG00000153048	ENST00000561530	protein_coding	KNOWN	CCDS10537	17150	444	147	8948778	8962218	-1	None	CRHSP-24, CSDC1
16	CARHSP1	ENSG00000153048	ENST00000567554	protein_coding	KNOWN	CCDS10537	17150	444	147	8948922	8955570	-1	None	CRHSP-24, CSDC1
16	CARHSP1	ENSG00000153048	ENST00000565287	protein_coding	KNOWN	None	17150	394	130	8949071	8962863	-1	None	CRHSP-24, CSDC1
16	CARHSP1	ENSG00000153048	ENST00000567908	protein_coding	KNOWN	None	17150	377	124	8949088	8961744	-1	None	CRHSP-24, CSDC1
16	CARHSP1	ENSG00000153048	ENST00000570125	protein_coding	KNOWN	None	17150	374	123	8949091	8962576	-1	None	CRHSP-24, CSDC1
16	CARHSP1	ENSG00000153048	ENST00000568117	protein_coding	KNOWN	None	17150	337	111	8949128	8961285	-1	None	CRHSP-24, CSDC1
16	CARHSP1	ENSG00000153048	ENST00000568968	protein_coding	PUTATIVE	None	17150	344	113	8949147	8955634	-1	None	CRHSP-24, CSDC1
16	CARHSP1	ENSG00000153048	ENST00000563815	retained_intron	KNOWN	None	17150	None	None	8951321	8962863	-1	None	CRHSP-24, CSDC1
16	CARHSP1	ENSG00000153048	ENST00000562843	protein_coding	PUTATIVE	None	17150	285	94	8951947	8962200	-1	None	CRHSP-24, CSDC1
16	CARHSP1	ENSG00000153048	ENST00000569398	protein_coding	KNOWN	None	17150	213	70	8952275	8955630	-1	None	CRHSP-24, CSDC1
16	CARHSP1	ENSG00000153048	ENST00000569572	retained_intron	KNOWN	None	17150	None	None	8952770	8962863	-1	None	CRHSP-24, CSDC1
16	CARHSP1	ENSG00000153048	ENST00000562586	retained_intron	KNOWN	None	17150	None	None	8952921	8962211	-1	None	CRHSP-24, CSDC1
16	CARHSP1	ENSG00000153048	ENST00000567626	processed_transcript	KNOWN	None	17150	None	None	8953188	8955638	-1	None	CRHSP-24, CSDC1
9	CBWD7	ENSG00000215126	ENST00000467192	processed_transcript	KNOWN	None	31977	None	None	42668608	42714594	1	None	OTTHUMG00000067194
9	CBWD7	ENSG00000215126	ENST00000460896	processed_transcript	KNOWN	None	31977	None	None	42669321	42714593	1	None	OTTHUMG00000067194
9	CBWD7	ENSG00000215126	ENST00000467791	processed_transcript	KNOWN	None	31977	None	None	42671887	42689878	1	None	OTTHUMG00000067194
9	CBWD7	ENSG00000215126	ENST00000496146	processed_transcript	KNOWN	None	31977	None	None	42671887	42714591	1	None	OTTHUMG00000067194
9	CBWD7	ENSG00000215126	ENST00000486387	processed_transcript	KNOWN	None	31977	None	None	42671887	42714592	1	None	OTTHUMG00000067194
9	CBWD7	ENSG00000215126	ENST00000456520	protein_coding	KNOWN	None	31977	701	232	42671887	42714961	1	None	OTTHUMG00000067194
9	CBWD7	ENSG00000215126	ENST00000377391	protein_coding	KNOWN	None	31977	758	251	42671887	42714962	1	None	OTTHUMG00000067194
9	CBWD7	ENSG00000215126	ENST00000489423	processed_transcript	KNOWN	None	31977	None	None	42671915	42682133	1	None	OTTHUMG00000067194
9	CBWD7	ENSG00000215126	ENST00000382436	processed_transcript	KNOWN	None	31977	None	None	42671915	42714945	1	None	OTTHUMG00000067194
9	CBWD7	ENSG00000215126	ENST00000494538	processed_transcript	KNOWN	None	31977	None	None	42673491	42714914	1	None	OTTHUMG00000067194
9	CBWD7	ENSG00000215126	ENST00000490294	processed_transcript	KNOWN	None	31977	None	None	42675904	42689866	1	None	OTTHUMG00000067194
9	CBWD7	ENSG00000215126	ENST00000466582	protein_coding	KNOWN	None	31977	531	176	42687353	42714912	1	None	OTTHUMG00000067194
9	CBWD7	ENSG00000215126	ENST00000496513	processed_transcript	KNOWN	None	31977	None	None	42700305	42714914	1	None	OTTHUMG00000067194
9	CBWD7	ENSG00000215126	ENST00000457288	protein_coding	PUTATIVE	None	31977	418	138	42704004	42714567	1	None	OTTHUMG00000067194
9	CBWD7	ENSG00000215126	ENST00000478448	processed_transcript	KNOWN	None	31977	None	None	42711081	42714404	1	None	OTTHUMG00000067194
9	CBWD7	ENSG00000215126	ENST00000462573	processed_transcript	KNOWN	None	31977	None	None	42712256	42714592	1	None	OTTHUMG00000067194
X	TCEAL5	ENSG00000204065	ENST00000372680	protein_coding	KNOWN	CCDS35356	22282	621	206	102528619	102531800	-1	None	None
15	SNX1	ENSG00000028528	ENST00000560829	protein_coding	PUTATIVE	None	11172	915	304	64386322	64430205	1	None	SNX1A, MGC8664, HsT17379, Vps5
15	SNX1	ENSG00000028528	ENST00000559061	protein_coding	PUTATIVE	None	11172	57	18	64386475	64418298	1	None	SNX1A, MGC8664, HsT17379, Vps5
15	SNX1	ENSG00000028528	ENST00000380285	nonsense_mediated_decay	KNOWN	None	11172	309	102	64388190	64436430	1	None	SNX1A, MGC8664, HsT17379, Vps5
15	SNX1	ENSG00000028528	ENST00000261889	protein_coding	PUTATIVE	CCDS58371	11172	1674	557	64388192	64432074	1	None	SNX1A, MGC8664, HsT17379, Vps5
15	SNX1	ENSG00000028528	ENST00000559844	protein_coding	KNOWN	CCDS32266	11172	1569	522	64388199	64430205	1	None	SNX1A, MGC8664, HsT17379, Vps5
15	SNX1	ENSG00000028528	ENST00000560260	nonsense_mediated_decay	KNOWN	None	11172	324	107	64388203	64427153	1	None	SNX1A, MGC8664, HsT17379, Vps5
15	SNX1	ENSG00000028528	ENST00000561026	protein_coding	KNOWN	CCDS32268	11172	1374	457	64388213	64429817	1	None	SNX1A, MGC8664, HsT17379, Vps5
15	SNX1	ENSG00000028528	ENST00000558040	protein_coding	PUTATIVE	None	11172	387	128	64388225	64438289	1	None	SNX1A, MGC8664, HsT17379, Vps5
15	SNX1	ENSG00000028528	ENST00000559389	nonsense_mediated_decay	KNOWN	None	11172	334	110	64388230	64418419	1	None	SNX1A, MGC8664, HsT17379, Vps5
15	SNX1	ENSG00000028528	ENST00000559401	retained_intron	KNOWN	None	11172	None	None	64423822	64427000	1	None	SNX1A, MGC8664, HsT17379, Vps5
15	SNX1	ENSG00000028528	ENST00000559339	processed_transcript	PUTATIVE	None	11172	None	None	64424028	64424575	1	None	SNX1A, MGC8664, HsT17379, Vps5
15	SNX1	ENSG00000028528	ENST00000559961	retained_intron	KNOWN	None	11172	None	None	64426375	64428608	1	None	SNX1A, MGC8664, HsT17379, Vps5
15	SNX1	ENSG00000028528	ENST00000560861	protein_coding	PUTATIVE	None	11172	213	70	64428529	64435507	1	None	SNX1A, MGC8664, HsT17379, Vps5
15	SNX1	ENSG00000028528	ENST00000353874	protein_coding	KNOWN	None	11172	1425	474	64388177	64436433	1	None	SNX1A, MGC8664, HsT17379, Vps5
14	HNRNPC	ENSG00000092199	ENST00000336053	protein_coding	PUTATIVE	None	5035	867	288	21677295	21737653	-1	HNRPC	hnRNPC
14	HNRNPC	ENSG00000092199	ENST00000554969	protein_coding	KNOWN	CCDS45079	5035	882	293	21678693	21737584	-1	HNRPC	hnRNPC
14	HNRNPC	ENSG00000092199	ENST00000556142	protein_coding	PUTATIVE	None	5035	696	231	21678705	21737582	-1	HNRPC	hnRNPC
14	HNRNPC	ENSG00000092199	ENST00000554455	protein_coding	KNOWN	CCDS41915	5035	921	306	21678709	21737584	-1	HNRPC	hnRNPC
14	HNRNPC	ENSG00000092199	ENST00000430246	protein_coding	KNOWN	CCDS45079	5035	882	293	21678715	21733675	-1	HNRPC	hnRNPC
14	HNRNPC	ENSG00000092199	ENST00000553753	protein_coding	PUTATIVE	None	5035	867	288	21678741	21737562	-1	HNRPC	hnRNPC
14	HNRNPC	ENSG00000092199	ENST00000555914	protein_coding	NOVEL	None	5035	879	292	21678772	21737563	-1	HNRPC	hnRNPC
14	HNRNPC	ENSG00000092199	ENST00000555309	protein_coding	NOVEL	None	5035	918	305	21678772	21737580	-1	HNRPC	hnRNPC
14	HNRNPC	ENSG00000092199	ENST00000557442	nonsense_mediated_decay	KNOWN	None	5035	444	147	21679063	21737583	-1	HNRPC	hnRNPC
14	HNRNPC	ENSG00000092199	ENST00000556628	protein_coding	KNOWN	None	5035	681	226	21679082	21737569	-1	HNRPC	hnRNPC
14	HNRNPC	ENSG00000092199	ENST00000555883	protein_coding	KNOWN	None	5035	753	250	21679092	21737559	-1	HNRPC	hnRNPC
14	HNRNPC	ENSG00000092199	ENST00000556513	protein_coding	PUTATIVE	None	5035	696	231	21679092	21737584	-1	HNRPC	hnRNPC
14	HNRNPC	ENSG00000092199	ENST00000553444	retained_intron	KNOWN	None	5035	None	None	21679096	21680161	-1	HNRPC	hnRNPC
14	HNRNPC	ENSG00000092199	ENST00000557201	protein_coding	KNOWN	CCDS41915	5035	921	306	21679096	21737584	-1	HNRPC	hnRNPC
14	HNRNPC	ENSG00000092199	ENST00000553300	protein_coding	KNOWN	CCDS45079	5035	882	293	21679096	21737601	-1	HNRPC	hnRNPC
14	HNRNPC	ENSG00000092199	ENST00000556897	protein_coding	KNOWN	CCDS45079	5035	882	293	21679125	21730836	-1	HNRPC	hnRNPC
14	HNRNPC	ENSG00000092199	ENST00000420743	protein_coding	KNOWN	CCDS41915	5035	921	306	21679265	21737584	-1	HNRPC	hnRNPC
14	HNRNPC	ENSG00000092199	ENST00000557157	protein_coding	PUTATIVE	None	5035	644	213	21679383	21699581	-1	HNRPC	hnRNPC
14	HNRNPC	ENSG00000092199	ENST00000554539	protein_coding	PUTATIVE	None	5035	540	179	21679415	21737604	-1	HNRPC	hnRNPC
14	HNRNPC	ENSG00000092199	ENST00000554383	protein_coding	KNOWN	None	5035	786	261	21679577	21737601	-1	HNRPC	hnRNPC
14	HNRNPC	ENSG00000092199	ENST00000555585	retained_intron	KNOWN	None	5035	None	None	21679618	21681578	-1	HNRPC	hnRNPC
14	HNRNPC	ENSG00000092199	ENST00000554417	retained_intron	KNOWN	None	5035	None	None	21679649	21698819	-1	HNRPC	hnRNPC
14	HNRNPC	ENSG00000092199	ENST00000555215	protein_coding	KNOWN	None	5035	561	186	21681120	21737568	-1	HNRPC	hnRNPC
14	HNRNPC	ENSG00000092199	ENST00000555137	protein_coding	KNOWN	None	5035	525	174	21681156	21737570	-1	HNRPC	hnRNPC
14	HNRNPC	ENSG00000092199	ENST00000554891	protein_coding	KNOWN	None	5035	378	125	21681264	21737551	-1	HNRPC	hnRNPC
14	HNRNPC	ENSG00000092199	ENST00000556226	protein_coding	KNOWN	None	5035	365	120	21698478	21737570	-1	HNRPC	hnRNPC
14	HNRNPC	ENSG00000092199	ENST00000555176	protein_coding	KNOWN	None	5035	352	116	21698491	21736810	-1	HNRPC	hnRNPC
14	HNRNPC	ENSG00000092199	ENST00000553614	retained_intron	KNOWN	None	5035	None	None	21699057	21737582	-1	HNRPC	hnRNPC
14	HNRNPC	ENSG00000092199	ENST00000557336	protein_coding	KNOWN	None	5035	199	65	21702154	21737565	-1	HNRPC	hnRNPC
14	HNRNPC	ENSG00000092199	ENST00000557768	protein_coding	KNOWN	None	5035	163	53	21702190	21737584	-1	HNRPC	hnRNPC
14	HNRNPC	ENSG00000092199	ENST00000557033	retained_intron	KNOWN	None	5035	None	None	21730762	21737601	-1	HNRPC	hnRNPC
14	HNRNPC	ENSG00000092199	ENST00000555127	retained_intron	KNOWN	None	5035	None	None	21731152	21737548	-1	HNRPC	hnRNPC
14	HNRNPC	ENSG00000092199	ENST00000320084	protein_coding	KNOWN	CCDS41915	5035	921	306	21677295	21737638	-1	HNRPC	hnRNPC
14	HNRNPC	ENSG00000092199	ENST00000449098	protein_coding	KNOWN	CCDS45079	5035	882	293	21677295	21737638	-1	HNRPC	hnRNPC
10	DLG5	ENSG00000151208	ENST00000424842	protein_coding	KNOWN	None	2904	2643	880	79550549	79589200	-1	None	P-dlg, KIAA0583
10	DLG5	ENSG00000151208	ENST00000475613	retained_intron	KNOWN	None	2904	None	None	79550549	79628949	-1	None	P-dlg, KIAA0583
10	DLG5	ENSG00000151208	ENST00000372391	protein_coding	KNOWN	CCDS7353	2904	5760	1919	79550549	79686284	-1	None	P-dlg, KIAA0583
10	DLG5	ENSG00000151208	ENST00000463362	retained_intron	KNOWN	None	2904	None	None	79551659	79579806	-1	None	P-dlg, KIAA0583
10	DLG5	ENSG00000151208	ENST00000459739	processed_transcript	KNOWN	None	2904	None	None	79553302	79581296	-1	None	P-dlg, KIAA0583
10	DLG5	ENSG00000151208	ENST00000468332	nonsense_mediated_decay	KNOWN	None	2904	645	214	79555819	79649265	-1	None	P-dlg, KIAA0583
10	DLG5	ENSG00000151208	ENST00000489547	processed_transcript	KNOWN	None	2904	None	None	79565863	79571987	-1	None	P-dlg, KIAA0583
10	DLG5	ENSG00000151208	ENST00000484525	processed_transcript	KNOWN	None	2904	None	None	79566554	79567735	-1	None	P-dlg, KIAA0583
10	DLG5	ENSG00000151208	ENST00000476354	retained_intron	KNOWN	None	2904	None	None	79575791	79579779	-1	None	P-dlg, KIAA0583
10	DLG5	ENSG00000151208	ENST00000466198	retained_intron	KNOWN	None	2904	None	None	79581540	79584488	-1	None	P-dlg, KIAA0583
10	DLG5	ENSG00000151208	ENST00000372388	protein_coding	KNOWN	None	2904	4740	1579	79550551	79686378	-1	None	P-dlg, KIAA0583
4	RCHY1	ENSG00000163743	ENST00000324439	protein_coding	KNOWN	CCDS3567	17479	786	261	76404247	76439895	-1	ZNF363	CHIMP, DKFZp586C1620, PRO1996, RNF199, ARNIP, PIRH2
4	RCHY1	ENSG00000163743	ENST00000380840	protein_coding	NOVEL	None	17479	666	221	76406679	76439496	-1	ZNF363	CHIMP, DKFZp586C1620, PRO1996, RNF199, ARNIP, PIRH2
4	RCHY1	ENSG00000163743	ENST00000505105	nonsense_mediated_decay	KNOWN	None	17479	567	188	76407218	76439522	-1	ZNF363	CHIMP, DKFZp586C1620, PRO1996, RNF199, ARNIP, PIRH2
4	RCHY1	ENSG00000163743	ENST00000514589	retained_intron	KNOWN	None	17479	None	None	76407218	76439628	-1	ZNF363	CHIMP, DKFZp586C1620, PRO1996, RNF199, ARNIP, PIRH2
4	RCHY1	ENSG00000163743	ENST00000512567	retained_intron	KNOWN	None	17479	None	None	76407296	76419641	-1	ZNF363	CHIMP, DKFZp586C1620, PRO1996, RNF199, ARNIP, PIRH2
4	RCHY1	ENSG00000163743	ENST00000504085	nonsense_mediated_decay	KNOWN	None	17479	324	107	76407552	76439613	-1	ZNF363	CHIMP, DKFZp586C1620, PRO1996, RNF199, ARNIP, PIRH2
4	RCHY1	ENSG00000163743	ENST00000512706	protein_coding	PUTATIVE	None	17479	720	239	76407623	76439640	-1	ZNF363	CHIMP, DKFZp586C1620, PRO1996, RNF199, ARNIP, PIRH2
4	RCHY1	ENSG00000163743	ENST00000513257	protein_coding	KNOWN	CCDS34012	17479	759	252	76407748	76439496	-1	ZNF363	CHIMP, DKFZp586C1620, PRO1996, RNF199, ARNIP, PIRH2
4	RCHY1	ENSG00000163743	ENST00000507014	protein_coding	NOVEL	None	17479	639	212	76407748	76439507	-1	ZNF363	CHIMP, DKFZp586C1620, PRO1996, RNF199, ARNIP, PIRH2
4	RCHY1	ENSG00000163743	ENST00000513909	nonsense_mediated_decay	KNOWN	None	17479	336	111	76407814	76439466	-1	ZNF363	CHIMP, DKFZp586C1620, PRO1996, RNF199, ARNIP, PIRH2
4	RCHY1	ENSG00000163743	ENST00000505514	retained_intron	KNOWN	None	17479	None	None	76415808	76435017	-1	ZNF363	CHIMP, DKFZp586C1620, PRO1996, RNF199, ARNIP, PIRH2
4	RCHY1	ENSG00000163743	ENST00000513083	retained_intron	KNOWN	None	17479	None	None	76416817	76439496	-1	ZNF363	CHIMP, DKFZp586C1620, PRO1996, RNF199, ARNIP, PIRH2
4	RCHY1	ENSG00000163743	ENST00000514021	processed_transcript	KNOWN	None	17479	None	None	76417121	76439974	-1	ZNF363	CHIMP, DKFZp586C1620, PRO1996, RNF199, ARNIP, PIRH2
4	RCHY1	ENSG00000163743	ENST00000451788	protein_coding	KNOWN	CCDS47078	17479	603	200	76404357	76439628	-1	ZNF363	CHIMP, DKFZp586C1620, PRO1996, RNF199, ARNIP, PIRH2
X	BEX2	ENSG00000133134	ENST00000372677	protein_coding	KNOWN	CCDS14505	30933	387	128	102564274	102565974	-1	None	DJ79P11.1
X	BEX2	ENSG00000133134	ENST00000372674	protein_coding	KNOWN	CCDS14505	30933	387	128	102564430	102565935	-1	None	DJ79P11.1
X	BEX2	ENSG00000133134	ENST00000449185	protein_coding	KNOWN	None	30933	305	100	102564600	102565863	-1	None	DJ79P11.1
X	BEX2	ENSG00000133134	ENST00000536889	protein_coding	KNOWN	CCDS55467	30933	483	160	102564282	102565883	-1	None	DJ79P11.1
X	MAGEA6	ENSG00000197172	ENST00000329342	protein_coding	KNOWN	CCDS14708	6804	945	314	151867214	151870825	1	MAGE6	CT1.6
X	MAGEA6	ENSG00000197172	ENST00000412733	protein_coding	KNOWN	None	6804	604	200	151867245	151869914	1	MAGE6	CT1.6
X	MAGEA6	ENSG00000197172	ENST00000457643	protein_coding	KNOWN	None	6804	707	234	151867284	151870017	1	MAGE6	CT1.6
19	CELF5	ENSG00000161082	ENST00000292672	protein_coding	KNOWN	CCDS12106	14058	1458	485	3224701	3297074	1	BRUNOL5	None
19	CELF5	ENSG00000161082	ENST00000541430	protein_coding	KNOWN	CCDS54197	14058	1230	409	3224702	3296334	1	BRUNOL5	None
19	CELF5	ENSG00000161082	ENST00000334293	nonsense_mediated_decay	KNOWN	None	14058	963	320	3225483	3297014	1	BRUNOL5	None
19	CELF5	ENSG00000161082	ENST00000586050	processed_transcript	KNOWN	None	14058	None	None	3270612	3290345	1	BRUNOL5	None
19	CELF5	ENSG00000161082	ENST00000589370	processed_transcript	KNOWN	None	14058	None	None	3270619	3282451	1	BRUNOL5	None
19	CELF5	ENSG00000161082	ENST00000588350	nonsense_mediated_decay	KNOWN	None	14058	888	295	3273903	3297074	1	BRUNOL5	None
19	CELF5	ENSG00000161082	ENST00000588101	processed_transcript	KNOWN	None	14058	None	None	3282255	3286789	1	BRUNOL5	None
19	CELF5	ENSG00000161082	ENST00000591483	retained_intron	KNOWN	None	14058	None	None	3284760	3293399	1	BRUNOL5	None
8	COLEC10	ENSG00000184374	ENST00000521788	processed_transcript	KNOWN	None	2220	None	None	120007691	120116106	1	None	CL-L1
8	COLEC10	ENSG00000184374	ENST00000332843	protein_coding	KNOWN	CCDS6327	2220	834	277	120079480	120118821	1	None	CL-L1
6	LRRC16A	ENSG00000079691	ENST00000461945	processed_transcript	KNOWN	None	21581	None	None	25279306	25452825	1	LRRC16	dJ501N12.1, FLJ20048, CARMIL, CARMIL1
6	LRRC16A	ENSG00000079691	ENST00000329474	protein_coding	NOVEL	CCDS54973	21581	4116	1371	25279656	25620758	1	LRRC16	dJ501N12.1, FLJ20048, CARMIL, CARMIL1
6	LRRC16A	ENSG00000079691	ENST00000497227	processed_transcript	KNOWN	None	21581	None	None	25465764	25472859	1	LRRC16	dJ501N12.1, FLJ20048, CARMIL, CARMIL1
6	LRRC16A	ENSG00000079691	ENST00000476458	processed_transcript	KNOWN	None	21581	None	None	25610350	25620758	1	LRRC16	dJ501N12.1, FLJ20048, CARMIL, CARMIL1
6	LRRC16A	ENSG00000079691	ENST00000377969	protein_coding	KNOWN	None	21581	531	176	25279875	25479475	1	LRRC16	dJ501N12.1, FLJ20048, CARMIL, CARMIL1
4	SEPSECS	ENSG00000109618	ENST00000382103	protein_coding	KNOWN	CCDS3432	30605	1506	501	25121636	25162064	-1	None	SLA/LP, SLA
4	SEPSECS	ENSG00000109618	ENST00000358971	nonsense_mediated_decay	KNOWN	None	30605	339	112	25123877	25162016	-1	None	SLA/LP, SLA
4	SEPSECS	ENSG00000109618	ENST00000514585	nonsense_mediated_decay	KNOWN	None	30605	144	47	25125472	25162053	-1	None	SLA/LP, SLA
4	SEPSECS	ENSG00000109618	ENST00000503150	nonsense_mediated_decay	KNOWN	None	30605	286	94	25125703	25157720	-1	None	SLA/LP, SLA
4	SEPSECS	ENSG00000109618	ENST00000515272	processed_transcript	KNOWN	None	30605	None	None	25126923	25128930	-1	None	SLA/LP, SLA
4	SEPSECS	ENSG00000109618	ENST00000505513	retained_intron	KNOWN	None	30605	None	None	25128886	25156853	-1	None	SLA/LP, SLA
4	SEPSECS	ENSG00000109618	ENST00000513285	protein_coding	PUTATIVE	None	30605	532	176	25160567	25162020	-1	None	SLA/LP, SLA
4	SEPSECS	ENSG00000109618	ENST00000302922	protein_coding	KNOWN	None	30605	1269	422	25121627	25162204	-1	None	SLA/LP, SLA
X	MAGEA2B	ENSG00000183305	ENST00000492402	processed_transcript	KNOWN	None	19340	None	None	151883082	151885563	1	None	MAGEA2b, MAGE2, MGC16973, MAGEA2
X	MAGEA2B	ENSG00000183305	ENST00000370293	protein_coding	KNOWN	CCDS44016	19340	945	314	151883090	151887096	1	None	MAGEA2b, MAGE2, MGC16973, MAGEA2
X	MAGEA2B	ENSG00000183305	ENST00000423993	protein_coding	KNOWN	None	19340	456	151	151883098	151886051	1	None	MAGEA2b, MAGE2, MGC16973, MAGEA2
X	MAGEA2B	ENSG00000183305	ENST00000447530	protein_coding	KNOWN	None	19340	267	88	151883117	151885862	1	None	MAGEA2b, MAGE2, MGC16973, MAGEA2
X	MAGEA2B	ENSG00000183305	ENST00000458057	protein_coding	KNOWN	None	19340	111	36	151883119	151885706	1	None	MAGEA2b, MAGE2, MGC16973, MAGEA2
X	MAGEA2B	ENSG00000183305	ENST00000422085	protein_coding	KNOWN	None	19340	360	119	151883131	151885955	1	None	MAGEA2b, MAGE2, MGC16973, MAGEA2
X	MAGEA2B	ENSG00000183305	ENST00000497578	processed_transcript	KNOWN	None	19340	None	None	151883136	151885195	1	None	MAGEA2b, MAGE2, MGC16973, MAGEA2
X	MAGEA2B	ENSG00000183305	ENST00000453150	protein_coding	KNOWN	None	19340	445	147	151883170	151886040	1	None	MAGEA2b, MAGE2, MGC16973, MAGEA2
X	MAGEA2B	ENSG00000183305	ENST00000409560	protein_coding	KNOWN	None	19340	101	32	151883174	151885696	1	None	MAGEA2b, MAGE2, MGC16973, MAGEA2
X	MAGEA2B	ENSG00000183305	ENST00000467743	processed_transcript	KNOWN	None	19340	None	None	151883180	151885581	1	None	MAGEA2b, MAGE2, MGC16973, MAGEA2
X	MAGEA2B	ENSG00000183305	ENST00000331220	protein_coding	KNOWN	CCDS44016	19340	945	314	151883119	151887095	1	None	MAGEA2b, MAGE2, MGC16973, MAGEA2
8	NOV	ENSG00000136999	ENST00000259526	protein_coding	KNOWN	CCDS6328	7885	1074	357	120428546	120436593	1	None	IGFBP9, CCN3
8	NOV	ENSG00000136999	ENST00000520082	retained_intron	KNOWN	None	7885	None	None	120428690	120429360	1	None	IGFBP9, CCN3
X	TCEAL7	ENSG00000182916	ENST00000332431	protein_coding	KNOWN	CCDS14506	28336	303	100	102585124	102587254	1	None	MGC23947
X	TCEAL7	ENSG00000182916	ENST00000372666	protein_coding	KNOWN	CCDS14506	28336	303	100	102585157	102587016	1	None	MGC23947
8	EGR3	ENSG00000179388	ENST00000317216	protein_coding	KNOWN	CCDS6033	3240	1164	387	22545172	22550815	-1	None	PILOT
8	EGR3	ENSG00000179388	ENST00000522910	protein_coding	NOVEL	CCDS56528	3240	1050	349	22547556	22549927	-1	None	PILOT
8	EGR3	ENSG00000179388	ENST00000519492	protein_coding	PUTATIVE	None	3240	216	71	22547937	22550691	-1	None	PILOT
8	EGR3	ENSG00000179388	ENST00000524088	processed_transcript	KNOWN	None	3240	None	None	22547985	22550230	-1	None	PILOT
8	EGR3	ENSG00000179388	ENST00000518773	processed_transcript	PUTATIVE	None	3240	None	None	22548678	22549737	-1	None	PILOT
14	PRKCH	ENSG00000027075	ENST00000555185	protein_coding	PUTATIVE	None	9403	454	150	61654277	61997302	1	PRKCL	PKC-L, PKCL
14	PRKCH	ENSG00000027075	ENST00000557294	protein_coding	KNOWN	None	9403	354	117	61654287	61789173	1	PRKCL	PKC-L, PKCL
14	PRKCH	ENSG00000027075	ENST00000556778	protein_coding	PUTATIVE	None	9403	389	128	61654287	61919983	1	PRKCL	PKC-L, PKCL
14	PRKCH	ENSG00000027075	ENST00000555542	protein_coding	PUTATIVE	None	9403	45	14	61747671	61909929	1	PRKCL	PKC-L, PKCL
14	PRKCH	ENSG00000027075	ENST00000555906	protein_coding	PUTATIVE	None	9403	219	72	61747867	61915970	1	PRKCL	PKC-L, PKCL
14	PRKCH	ENSG00000027075	ENST00000554835	processed_transcript	PUTATIVE	None	9403	None	None	61747902	61766572	1	PRKCL	PKC-L, PKCL
14	PRKCH	ENSG00000027075	ENST00000332981	protein_coding	KNOWN	CCDS9752	9403	2052	683	61788435	62017694	1	PRKCL	PKC-L, PKCL
14	PRKCH	ENSG00000027075	ENST00000555082	protein_coding	PUTATIVE	None	9403	1569	522	61789382	62017694	1	PRKCL	PKC-L, PKCL
14	PRKCH	ENSG00000027075	ENST00000552875	processed_transcript	KNOWN	None	9403	None	None	61789471	61820707	1	PRKCL	PKC-L, PKCL
14	PRKCH	ENSG00000027075	ENST00000553830	protein_coding	PUTATIVE	None	9403	434	143	61793631	61912439	1	PRKCL	PKC-L, PKCL
14	PRKCH	ENSG00000027075	ENST00000553831	protein_coding	PUTATIVE	None	9403	250	82	61810960	61917590	1	PRKCL	PKC-L, PKCL
14	PRKCH	ENSG00000027075	ENST00000553726	protein_coding	PUTATIVE	None	9403	159	52	61811042	61923899	1	PRKCL	PKC-L, PKCL
14	PRKCH	ENSG00000027075	ENST00000553265	protein_coding	PUTATIVE	None	9403	263	86	61814609	61917603	1	PRKCL	PKC-L, PKCL
14	PRKCH	ENSG00000027075	ENST00000556164	protein_coding	PUTATIVE	None	9403	214	70	61827792	61915965	1	PRKCL	PKC-L, PKCL
14	PRKCH	ENSG00000027075	ENST00000557585	protein_coding	PUTATIVE	None	9403	673	223	61857412	61924275	1	PRKCL	PKC-L, PKCL
14	PRKCH	ENSG00000027075	ENST00000557473	protein_coding	PUTATIVE	None	9403	319	105	61909276	61917659	1	PRKCL	PKC-L, PKCL
14	PRKCH	ENSG00000027075	ENST00000553889	processed_transcript	KNOWN	None	9403	None	None	61919489	61924371	1	PRKCL	PKC-L, PKCL
14	PRKCH	ENSG00000027075	ENST00000557559	processed_transcript	PUTATIVE	None	9403	None	None	61923560	61924343	1	PRKCL	PKC-L, PKCL
14	PRKCH	ENSG00000027075	ENST00000555604	processed_transcript	PUTATIVE	None	9403	None	None	61924224	61943234	1	PRKCL	PKC-L, PKCL
14	PRKCH	ENSG00000027075	ENST00000555233	processed_transcript	KNOWN	None	9403	None	None	61929787	61995927	1	PRKCL	PKC-L, PKCL
14	PRKCH	ENSG00000027075	ENST00000536400	processed_transcript	KNOWN	None	9403	None	None	61943885	62016664	1	PRKCL	PKC-L, PKCL
14	PRKCH	ENSG00000027075	ENST00000555628	processed_transcript	KNOWN	None	9403	None	None	61958911	62014582	1	PRKCL	PKC-L, PKCL
14	PRKCH	ENSG00000027075	ENST00000555110	processed_transcript	KNOWN	None	9403	None	None	61991808	61995923	1	PRKCL	PKC-L, PKCL
14	PRKCH	ENSG00000027075	ENST00000555382	processed_transcript	KNOWN	None	9403	None	None	61992370	62014604	1	PRKCL	PKC-L, PKCL
14	PRKCH	ENSG00000027075	ENST00000557599	processed_transcript	KNOWN	None	9403	None	None	61992370	62016520	1	PRKCL	PKC-L, PKCL
14	PRKCH	ENSG00000027075	ENST00000553846	processed_transcript	KNOWN	None	9403	None	None	61994655	62014564	1	PRKCL	PKC-L, PKCL
14	PRKCH	ENSG00000027075	ENST00000556245	processed_transcript	KNOWN	None	9403	None	None	62010080	62017690	1	PRKCL	PKC-L, PKCL
9	ATP6V1G1	ENSG00000136888	ENST00000374050	protein_coding	KNOWN	CCDS6807	864	357	118	117350026	117360653	1	ATP6J, ATP6G1	ATP6GL, Vma10, ATP6G, DKFZp547P234
9	ATP6V1G1	ENSG00000136888	ENST00000473413	processed_transcript	KNOWN	None	864	None	None	117350057	117354959	1	ATP6J, ATP6G1	ATP6GL, Vma10, ATP6G, DKFZp547P234
HSCHR6_MHC_COX	LY6G6E	ENSG00000224708	ENST00000491901	processed_transcript	KNOWN	None	13934	None	None	31667522	31668998	-1	C6orf22	G6e
HSCHR6_MHC_COX	LY6G6E	ENSG00000224708	ENST00000430237	protein_coding	KNOWN	None	13934	201	66	31667527	31668998	-1	C6orf22	G6e
HSCHR6_MHC_COX	LY6G6E	ENSG00000224708	ENST00000446610	protein_coding	KNOWN	None	13934	303	100	31667527	31668998	-1	C6orf22	G6e
HSCHR6_MHC_COX	LY6G6E	ENSG00000224708	ENST00000547421	protein_coding	KNOWN	None	13934	378	125	31667522	31668998	-1	C6orf22	G6e
8	CRH	ENSG00000147571	ENST00000276571	protein_coding	KNOWN	CCDS6188	2355	591	196	67088620	67090960	-1	None	CRF
X	WBP5	ENSG00000185222	ENST00000372661	protein_coding	KNOWN	CCDS14507	30084	315	104	102611373	102613397	1	None	DKFZp313K1940, TCEAL9
X	WBP5	ENSG00000185222	ENST00000372656	protein_coding	KNOWN	CCDS14507	30084	315	104	102611380	102613308	1	None	DKFZp313K1940, TCEAL9
8	RRS1	ENSG00000179041	ENST00000320270	protein_coding	KNOWN	CCDS6189	17083	1098	365	67341263	67342966	1	None	KIAA0112
8	ADHFE1	ENSG00000147576	ENST00000523113	protein_coding	PUTATIVE	None	16354	265	87	67342420	67357559	1	None	ADHFe1, FLJ32430
8	ADHFE1	ENSG00000147576	ENST00000396623	protein_coding	KNOWN	CCDS6190	16354	1404	467	67344721	67381142	1	None	ADHFe1, FLJ32430
8	ADHFE1	ENSG00000147576	ENST00000415254	protein_coding	PUTATIVE	None	16354	1260	419	67344727	67381044	1	None	ADHFe1, FLJ32430
8	ADHFE1	ENSG00000147576	ENST00000424777	nonsense_mediated_decay	KNOWN	None	16354	912	303	67344733	67381044	1	None	ADHFe1, FLJ32430
8	ADHFE1	ENSG00000147576	ENST00000276576	nonsense_mediated_decay	KNOWN	None	16354	117	38	67344734	67381042	1	None	ADHFe1, FLJ32430
8	ADHFE1	ENSG00000147576	ENST00000396621	nonsense_mediated_decay	KNOWN	None	16354	381	126	67344735	67366243	1	None	ADHFe1, FLJ32430
8	ADHFE1	ENSG00000147576	ENST00000426810	nonsense_mediated_decay	KNOWN	None	16354	117	38	67344736	67381044	1	None	ADHFe1, FLJ32430
8	ADHFE1	ENSG00000147576	ENST00000496501	processed_transcript	KNOWN	None	16354	None	None	67344739	67380769	1	None	ADHFe1, FLJ32430
8	ADHFE1	ENSG00000147576	ENST00000466920	retained_intron	KNOWN	None	16354	None	None	67344740	67357484	1	None	ADHFe1, FLJ32430
8	ADHFE1	ENSG00000147576	ENST00000431959	nonsense_mediated_decay	KNOWN	None	16354	105	34	67344740	67357649	1	None	ADHFe1, FLJ32430
8	ADHFE1	ENSG00000147576	ENST00000449512	nonsense_mediated_decay	KNOWN	None	16354	108	35	67344740	67359577	1	None	ADHFe1, FLJ32430
8	ADHFE1	ENSG00000147576	ENST00000422166	nonsense_mediated_decay	KNOWN	None	16354	396	131	67344740	67366302	1	None	ADHFe1, FLJ32430
8	ADHFE1	ENSG00000147576	ENST00000443372	nonsense_mediated_decay	KNOWN	None	16354	108	35	67344743	67364241	1	None	ADHFe1, FLJ32430
8	ADHFE1	ENSG00000147576	ENST00000463261	retained_intron	KNOWN	None	16354	None	None	67344745	67356883	1	None	ADHFe1, FLJ32430
8	ADHFE1	ENSG00000147576	ENST00000419955	nonsense_mediated_decay	KNOWN	None	16354	105	34	67344748	67381044	1	None	ADHFe1, FLJ32430
8	ADHFE1	ENSG00000147576	ENST00000518781	processed_transcript	KNOWN	None	16354	None	None	67351503	67356916	1	None	ADHFe1, FLJ32430
8	ADHFE1	ENSG00000147576	ENST00000480040	processed_transcript	KNOWN	None	16354	None	None	67366332	67383836	1	None	ADHFe1, FLJ32430
8	ADHFE1	ENSG00000147576	ENST00000466739	processed_transcript	KNOWN	None	16354	None	None	67371759	67380899	1	None	ADHFe1, FLJ32430
8	ADHFE1	ENSG00000147576	ENST00000379385	protein_coding	KNOWN	None	16354	912	303	67344718	67365969	1	None	ADHFe1, FLJ32430
X	NGFRAP1	ENSG00000166681	ENST00000361298	protein_coding	KNOWN	CCDS14509	13388	306	101	102631268	102633005	1	None	BEX3, HGR74, Bex, NADE, DXS6984E
X	NGFRAP1	ENSG00000166681	ENST00000372645	protein_coding	KNOWN	CCDS14508	13388	336	111	102631323	102633005	1	None	BEX3, HGR74, Bex, NADE, DXS6984E
X	NGFRAP1	ENSG00000166681	ENST00000372635	protein_coding	KNOWN	CCDS14508	13388	336	111	102631335	102632988	1	None	BEX3, HGR74, Bex, NADE, DXS6984E
X	NGFRAP1	ENSG00000166681	ENST00000372634	protein_coding	KNOWN	CCDS14509	13388	306	101	102631844	102632999	1	None	BEX3, HGR74, Bex, NADE, DXS6984E
X	NGFRAP1	ENSG00000166681	ENST00000299872	protein_coding	KNOWN	CCDS14508	13388	336	111	102632109	102632992	1	None	BEX3, HGR74, Bex, NADE, DXS6984E
X	ATP6AP2	ENSG00000182220	ENST00000378438	protein_coding	KNOWN	CCDS14252	18305	1053	350	40440160	40465889	1	ATP6IP2	M8-9, APT6M8-9, ATP6M8-9
X	ATP6AP2	ENSG00000182220	ENST00000436783	protein_coding	KNOWN	None	18305	609	202	40440222	40458864	1	ATP6IP2	M8-9, APT6M8-9, ATP6M8-9
X	ATP6AP2	ENSG00000182220	ENST00000486558	processed_transcript	KNOWN	None	18305	None	None	40440234	40460133	1	ATP6IP2	M8-9, APT6M8-9, ATP6M8-9
X	ATP6AP2	ENSG00000182220	ENST00000447485	protein_coding	KNOWN	None	18305	777	258	40440263	40460128	1	ATP6IP2	M8-9, APT6M8-9, ATP6M8-9
X	ATP6AP2	ENSG00000182220	ENST00000423649	protein_coding	KNOWN	None	18305	728	241	40440263	40464861	1	ATP6IP2	M8-9, APT6M8-9, ATP6M8-9
X	ATP6AP2	ENSG00000182220	ENST00000487051	processed_transcript	KNOWN	None	18305	None	None	40448245	40450683	1	ATP6IP2	M8-9, APT6M8-9, ATP6M8-9
X	ATP6AP2	ENSG00000182220	ENST00000479120	processed_transcript	KNOWN	None	18305	None	None	40456170	40456916	1	ATP6IP2	M8-9, APT6M8-9, ATP6M8-9
X	ATP6AP2	ENSG00000182220	ENST00000535539	protein_coding	KNOWN	None	18305	957	318	40440146	40465389	1	ATP6IP2	M8-9, APT6M8-9, ATP6M8-9
X	ATP6AP2	ENSG00000182220	ENST00000535777	protein_coding	KNOWN	None	18305	819	272	40440234	40465110	1	ATP6IP2	M8-9, APT6M8-9, ATP6M8-9
X	ATP6AP2	ENSG00000182220	ENST00000544975	protein_coding	KNOWN	None	18305	825	274	40440222	40465300	1	ATP6IP2	M8-9, APT6M8-9, ATP6M8-9
4	PI4K2B	ENSG00000038210	ENST00000510415	processed_transcript	PUTATIVE	None	18215	None	None	25162263	25163309	1	None	PI4KIIB, FLJ11105, PIK42B
4	PI4K2B	ENSG00000038210	ENST00000512921	protein_coding	PUTATIVE	None	18215	1158	385	25162285	25278928	1	None	PI4KIIB, FLJ11105, PIK42B
4	PI4K2B	ENSG00000038210	ENST00000507794	processed_transcript	KNOWN	None	18215	None	None	25162294	25202498	1	None	PI4KIIB, FLJ11105, PIK42B
4	PI4K2B	ENSG00000038210	ENST00000264864	protein_coding	KNOWN	CCDS3433	18215	1446	481	25235597	25280714	1	None	PI4KIIB, FLJ11105, PIK42B
8	ENPP2	ENSG00000136960	ENST00000259486	protein_coding	KNOWN	CCDS6329	3357	2748	915	120569326	120651070	-1	PDNP2	ATX, PD-IALPHA
8	ENPP2	ENSG00000136960	ENST00000427067	protein_coding	PUTATIVE	None	3357	2655	884	120569326	120685693	-1	PDNP2	ATX, PD-IALPHA
8	ENPP2	ENSG00000136960	ENST00000523861	retained_intron	KNOWN	None	3357	None	None	120569327	120593347	-1	PDNP2	ATX, PD-IALPHA
8	ENPP2	ENSG00000136960	ENST00000522167	protein_coding	PUTATIVE	None	3357	1497	498	120569649	120605248	-1	PDNP2	ATX, PD-IALPHA
8	ENPP2	ENSG00000136960	ENST00000522826	protein_coding	KNOWN	CCDS47914	3357	2667	888	120569761	120651020	-1	PDNP2	ATX, PD-IALPHA
8	ENPP2	ENSG00000136960	ENST00000075322	protein_coding	KNOWN	CCDS34936	3357	2592	863	120569761	120651079	-1	PDNP2	ATX, PD-IALPHA
8	ENPP2	ENSG00000136960	ENST00000518109	processed_transcript	KNOWN	None	3357	None	None	120584860	120590725	-1	PDNP2	ATX, PD-IALPHA
8	ENPP2	ENSG00000136960	ENST00000520066	protein_coding	NOVEL	None	3357	735	244	120628493	120651054	-1	PDNP2	ATX, PD-IALPHA
8	ENPP2	ENSG00000136960	ENST00000518958	nonsense_mediated_decay	KNOWN	None	3357	489	162	120628509	120651064	-1	PDNP2	ATX, PD-IALPHA
9	VLDLR	ENSG00000147852	ENST00000382100	protein_coding	KNOWN	CCDS6446	12698	2622	873	2621834	2654480	1	None	CARMQ1, CHRMQ1, VLDLRCH
9	VLDLR	ENSG00000147852	ENST00000382096	protein_coding	PUTATIVE	None	12698	521	172	2621975	2643355	1	None	CARMQ1, CHRMQ1, VLDLRCH
9	VLDLR	ENSG00000147852	ENST00000382099	protein_coding	NOVEL	CCDS34979	12698	2538	845	2622100	2654480	1	None	CARMQ1, CHRMQ1, VLDLRCH
9	VLDLR	ENSG00000147852	ENST00000478776	processed_transcript	KNOWN	None	12698	None	None	2646338	2647768	1	None	CARMQ1, CHRMQ1, VLDLRCH
X	RAB40A	ENSG00000172476	ENST00000372633	protein_coding	KNOWN	CCDS35357	18283	834	277	102754678	102757803	-1	None	RAR2A, Rar-2
X	RAB40A	ENSG00000172476	ENST00000304236	protein_coding	KNOWN	CCDS35357	18283	834	277	102754682	102774417	-1	None	RAR2A, Rar-2
X	TCEAL4	ENSG00000133142	ENST00000372629	protein_coding	KNOWN	None	26121	1077	358	102831159	102842446	1	None	FLJ21174
X	TCEAL4	ENSG00000133142	ENST00000468024	protein_coding	KNOWN	CCDS14510	26121	648	215	102840420	102842446	1	None	FLJ21174
X	TCEAL4	ENSG00000133142	ENST00000481555	retained_intron	KNOWN	None	26121	None	None	102840433	102841427	1	None	FLJ21174
X	TCEAL4	ENSG00000133142	ENST00000472484	protein_coding	KNOWN	CCDS14510	26121	648	215	102840441	102842657	1	None	FLJ21174
X	TCEAL4	ENSG00000133142	ENST00000415568	protein_coding	KNOWN	CCDS14510	26121	648	215	102840443	102842430	1	None	FLJ21174
X	TCEAL4	ENSG00000133142	ENST00000490644	protein_coding	KNOWN	None	26121	230	75	102840451	102841833	1	None	FLJ21174
X	TCEAL4	ENSG00000133142	ENST00000459722	protein_coding	KNOWN	None	26121	274	90	102840456	102841877	1	None	FLJ21174
X	TCEAL4	ENSG00000133142	ENST00000472745	protein_coding	KNOWN	CCDS14510	26121	648	215	102840461	102842622	1	None	FLJ21174
X	TCEAL4	ENSG00000133142	ENST00000494801	protein_coding	KNOWN	CCDS14510	26121	648	215	102840491	102842454	1	None	FLJ21174
X	TCEAL4	ENSG00000133142	ENST00000434216	protein_coding	KNOWN	None	26121	150	49	102840506	102841753	1	None	FLJ21174
X	TCEAL4	ENSG00000133142	ENST00000425011	protein_coding	KNOWN	None	26121	174	57	102840543	102841777	1	None	FLJ21174
X	TCEAL4	ENSG00000133142	ENST00000469586	protein_coding	KNOWN	None	26121	388	128	102841064	102841991	1	None	FLJ21174
8	PEBP4	ENSG00000134020	ENST00000256404	protein_coding	KNOWN	CCDS43724	28319	684	227	22570769	22785421	-1	None	MGC22776, CORK1, hPEBP4
8	PEBP4	ENSG00000134020	ENST00000521284	processed_transcript	KNOWN	None	28319	None	None	22672586	22798849	-1	None	MGC22776, CORK1, hPEBP4
8	PEBP4	ENSG00000134020	ENST00000522278	protein_coding	PUTATIVE	None	28319	281	92	22785097	22857513	-1	None	MGC22776, CORK1, hPEBP4
4	ZCCHC4	ENSG00000168228	ENST00000505451	processed_transcript	KNOWN	None	22917	None	None	25314407	25354163	1	None	HSPC052, FLJ23024
4	ZCCHC4	ENSG00000168228	ENST00000302874	protein_coding	KNOWN	CCDS43218	22917	1542	513	25314408	25372005	1	None	HSPC052, FLJ23024
4	ZCCHC4	ENSG00000168228	ENST00000507760	nonsense_mediated_decay	KNOWN	None	22917	690	229	25314417	25367737	1	None	HSPC052, FLJ23024
4	ZCCHC4	ENSG00000168228	ENST00000505412	protein_coding	PUTATIVE	None	22917	907	301	25334883	25371648	1	None	HSPC052, FLJ23024
4	ZCCHC4	ENSG00000168228	ENST00000508058	retained_intron	KNOWN	None	22917	None	None	25363331	25366770	1	None	HSPC052, FLJ23024
15	SNX22	ENSG00000157734	ENST00000557789	retained_intron	KNOWN	None	16315	None	None	64443914	64449680	1	None	FLJ13952
15	SNX22	ENSG00000157734	ENST00000325881	protein_coding	KNOWN	CCDS10190	16315	582	193	64443916	64449680	1	None	FLJ13952
15	SNX22	ENSG00000157734	ENST00000561334	retained_intron	KNOWN	None	16315	None	None	64443938	64447118	1	None	FLJ13952
15	SNX22	ENSG00000157734	ENST00000558466	nonsense_mediated_decay	KNOWN	None	16315	363	120	64443938	64448032	1	None	FLJ13952
15	SNX22	ENSG00000157734	ENST00000560607	retained_intron	KNOWN	None	16315	None	None	64443940	64446961	1	None	FLJ13952
15	SNX22	ENSG00000157734	ENST00000560945	retained_intron	KNOWN	None	16315	None	None	64443943	64446813	1	None	FLJ13952
15	SNX22	ENSG00000157734	ENST00000560997	retained_intron	KNOWN	None	16315	None	None	64445679	64449679	1	None	FLJ13952
20	SNORA60	ENSG00000199266	ENST00000362396	snoRNA	KNOWN	None	32654	None	None	37078013	37078146	1	None	ACA60
20	MIR548O2	ENSG00000263473	ENST00000583129	miRNA	KNOWN	None	41882	None	None	37145206	37145275	1	None	hsa-mir-548o-2
14	TMEM30B	ENSG00000182107	ENST00000555868	protein_coding	KNOWN	CCDS32093	27254	1056	351	61744088	61748558	-1	None	CDC50B
14	TMEM30B	ENSG00000182107	ENST00000557163	processed_transcript	KNOWN	None	27254	None	None	61746590	61748194	-1	None	CDC50B
14	TMEM30B	ENSG00000182107	ENST00000554497	processed_transcript	KNOWN	None	27254	None	None	61747521	61748479	-1	None	CDC50B
14	TMEM30B	ENSG00000182107	ENST00000355702	protein_coding	KNOWN	CCDS32093	27254	1056	351	61744406	61747959	-1	None	CDC50B
14	None	ENSG00000258989	ENST00000556347	protein_coding	PUTATIVE	None	None	437	144	61995846	62124682	1	None	None
14	None	ENSG00000232774	ENST00000229465	nonsense_mediated_decay	KNOWN	None	None	276	91	62037258	62125414	1	None	None
14	None	ENSG00000232774	ENST00000556569	protein_coding	NOVEL	None	None	276	91	62037314	62121431	1	None	None
14	None	ENSG00000232774	ENST00000556717	protein_coding	PUTATIVE	None	None	201	66	62114138	62120719	1	None	None
20	RPS3P2	ENSG00000231307	ENST00000421346	processed_pseudogene	KNOWN	None	16603	None	None	37166401	37167101	1	None	dJ927M24.3
15	PPIB	ENSG00000166794	ENST00000300026	protein_coding	KNOWN	CCDS10191	9255	651	216	64448011	64455404	-1	None	CYPB, OI9
15	PPIB	ENSG00000166794	ENST00000558492	processed_transcript	KNOWN	None	9255	None	None	64448977	64455205	-1	None	CYPB, OI9
15	PPIB	ENSG00000166794	ENST00000561048	retained_intron	KNOWN	None	9255	None	None	64451473	64455220	-1	None	CYPB, OI9
20	None	ENSG00000213959	ENST00000397037	processed_pseudogene	KNOWN	None	None	None	None	37243556	37244119	-1	None	None
4	ANAPC4	ENSG00000053900	ENST00000315368	protein_coding	KNOWN	CCDS3434	19990	2427	808	25378835	25420120	1	None	APC4
4	ANAPC4	ENSG00000053900	ENST00000510092	protein_coding	KNOWN	None	19990	2430	809	25378915	25420111	1	None	APC4
4	ANAPC4	ENSG00000053900	ENST00000505080	nonsense_mediated_decay	KNOWN	None	19990	252	83	25378937	25391805	1	None	APC4
4	ANAPC4	ENSG00000053900	ENST00000505991	protein_coding	KNOWN	None	19990	487	161	25378942	25390476	1	None	APC4
4	ANAPC4	ENSG00000053900	ENST00000507809	retained_intron	KNOWN	None	19990	None	None	25378979	25382230	1	None	APC4
4	ANAPC4	ENSG00000053900	ENST00000507925	retained_intron	KNOWN	None	19990	None	None	25395483	25397042	1	None	APC4
4	ANAPC4	ENSG00000053900	ENST00000503805	retained_intron	KNOWN	None	19990	None	None	25396380	25411391	1	None	APC4
4	ANAPC4	ENSG00000053900	ENST00000505842	retained_intron	KNOWN	None	19990	None	None	25398341	25415493	1	None	APC4
4	ANAPC4	ENSG00000053900	ENST00000504256	retained_intron	KNOWN	None	19990	None	None	25407223	25420120	1	None	APC4
4	ANAPC4	ENSG00000053900	ENST00000515848	retained_intron	KNOWN	None	19990	None	None	25414540	25419883	1	None	APC4
4	ANAPC4	ENSG00000053900	ENST00000506973	retained_intron	KNOWN	None	19990	None	None	25416774	25420119	1	None	APC4
14	TC2N	ENSG00000165929	ENST00000435962	protein_coding	KNOWN	CCDS9897	19859	1473	490	92246095	92333873	-1	C14orf47, MTAC2D1	FLJ36557, Tac2-N, C2CD1
14	TC2N	ENSG00000165929	ENST00000340892	protein_coding	KNOWN	CCDS9897	19859	1473	490	92246523	92302784	-1	C14orf47, MTAC2D1	FLJ36557, Tac2-N, C2CD1
14	TC2N	ENSG00000165929	ENST00000360594	protein_coding	KNOWN	CCDS9897	19859	1473	490	92247299	92302791	-1	C14orf47, MTAC2D1	FLJ36557, Tac2-N, C2CD1
14	TC2N	ENSG00000165929	ENST00000556018	protein_coding	KNOWN	None	19859	1281	426	92249167	92302870	-1	C14orf47, MTAC2D1	FLJ36557, Tac2-N, C2CD1
14	TC2N	ENSG00000165929	ENST00000556590	protein_coding	NOVEL	None	19859	729	242	92249271	92265342	-1	C14orf47, MTAC2D1	FLJ36557, Tac2-N, C2CD1
14	TC2N	ENSG00000165929	ENST00000554424	retained_intron	KNOWN	None	19859	None	None	92278360	92280172	-1	C14orf47, MTAC2D1	FLJ36557, Tac2-N, C2CD1
14	TC2N	ENSG00000165929	ENST00000555302	processed_transcript	PUTATIVE	None	19859	None	None	92332619	92333880	-1	C14orf47, MTAC2D1	FLJ36557, Tac2-N, C2CD1
16	USP7	ENSG00000187555	ENST00000344836	protein_coding	KNOWN	CCDS32385	12630	3309	1102	8985951	9057341	-1	HAUSP	None
16	USP7	ENSG00000187555	ENST00000563961	nonsense_mediated_decay	KNOWN	None	12630	276	91	8986629	9057279	-1	HAUSP	None
16	USP7	ENSG00000187555	ENST00000381886	protein_coding	PUTATIVE	None	12630	3261	1086	8987653	9030586	-1	HAUSP	None
16	USP7	ENSG00000187555	ENST00000565455	nonsense_mediated_decay	KNOWN	None	12630	144	47	8987797	9030530	-1	HAUSP	None
16	USP7	ENSG00000187555	ENST00000563085	protein_coding	PUTATIVE	None	12630	2728	908	8988902	9050237	-1	HAUSP	None
16	USP7	ENSG00000187555	ENST00000567113	retained_intron	KNOWN	None	12630	None	None	8988916	8991111	-1	HAUSP	None
16	USP7	ENSG00000187555	ENST00000565883	retained_intron	KNOWN	None	12630	None	None	8988941	8992401	-1	HAUSP	None
16	USP7	ENSG00000187555	ENST00000562615	retained_intron	KNOWN	None	12630	None	None	8990921	8992577	-1	HAUSP	None
16	USP7	ENSG00000187555	ENST00000563043	nonsense_mediated_decay	KNOWN	None	12630	207	68	8992451	8995062	-1	HAUSP	None
16	USP7	ENSG00000187555	ENST00000562051	retained_intron	KNOWN	None	12630	None	None	8993007	8993988	-1	HAUSP	None
16	USP7	ENSG00000187555	ENST00000567692	nonsense_mediated_decay	KNOWN	None	12630	52	16	8993032	8995042	-1	HAUSP	None
16	USP7	ENSG00000187555	ENST00000569448	retained_intron	KNOWN	None	12630	None	None	8993164	8995076	-1	HAUSP	None
16	USP7	ENSG00000187555	ENST00000566131	retained_intron	KNOWN	None	12630	None	None	8993437	8994777	-1	HAUSP	None
16	USP7	ENSG00000187555	ENST00000570256	retained_intron	KNOWN	None	12630	None	None	8995790	8998390	-1	HAUSP	None
16	USP7	ENSG00000187555	ENST00000567329	retained_intron	KNOWN	None	12630	None	None	8995996	8998379	-1	HAUSP	None
16	USP7	ENSG00000187555	ENST00000542333	nonsense_mediated_decay	KNOWN	None	12630	1530	509	8996000	9043510	-1	HAUSP	None
16	USP7	ENSG00000187555	ENST00000566004	protein_coding	PUTATIVE	None	12630	391	129	9014262	9050237	-1	HAUSP	None
16	USP7	ENSG00000187555	ENST00000569230	protein_coding	PUTATIVE	None	12630	353	116	9014300	9058371	-1	HAUSP	None
16	USP7	ENSG00000187555	ENST00000566273	protein_coding	PUTATIVE	None	12630	477	158	9015017	9056469	-1	HAUSP	None
16	USP7	ENSG00000187555	ENST00000564117	protein_coding	PUTATIVE	None	12630	328	108	9015034	9029713	-1	HAUSP	None
16	USP7	ENSG00000187555	ENST00000566224	processed_transcript	KNOWN	None	12630	None	None	9017164	9029615	-1	HAUSP	None
16	USP7	ENSG00000187555	ENST00000535863	protein_coding	KNOWN	None	12630	3012	1003	8987797	9030530	-1	HAUSP	None
14	HIF1A	ENSG00000100644	ENST00000557446	processed_transcript	PUTATIVE	None	4910	None	None	62162231	62188542	1	None	MOP1, HIF-1alpha, PASD8, HIF1, bHLHe78
14	HIF1A	ENSG00000100644	ENST00000553999	processed_transcript	KNOWN	None	4910	None	None	62162231	62193481	1	None	MOP1, HIF-1alpha, PASD8, HIF1, bHLHe78
14	HIF1A	ENSG00000100644	ENST00000337138	protein_coding	KNOWN	CCDS9753	4910	2481	826	62162258	62214976	1	None	MOP1, HIF-1alpha, PASD8, HIF1, bHLHe78
14	HIF1A	ENSG00000100644	ENST00000394997	protein_coding	NOVEL	None	4910	2484	827	62162258	62214976	1	None	MOP1, HIF-1alpha, PASD8, HIF1, bHLHe78
14	HIF1A	ENSG00000100644	ENST00000323441	protein_coding	NOVEL	CCDS9754	4910	2208	735	62162495	62214976	1	None	MOP1, HIF-1alpha, PASD8, HIF1, bHLHe78
14	HIF1A	ENSG00000100644	ENST00000557538	protein_coding	NOVEL	None	4910	2304	767	62164340	62214489	1	None	MOP1, HIF-1alpha, PASD8, HIF1, bHLHe78
14	HIF1A	ENSG00000100644	ENST00000557206	processed_transcript	KNOWN	None	4910	None	None	62165613	62194350	1	None	MOP1, HIF-1alpha, PASD8, HIF1, bHLHe78
14	HIF1A	ENSG00000100644	ENST00000556237	processed_transcript	PUTATIVE	None	4910	None	None	62193139	62194367	1	None	MOP1, HIF-1alpha, PASD8, HIF1, bHLHe78
14	HIF1A	ENSG00000100644	ENST00000555014	processed_transcript	PUTATIVE	None	4910	None	None	62203608	62207906	1	None	MOP1, HIF-1alpha, PASD8, HIF1, bHLHe78
14	HIF1A	ENSG00000100644	ENST00000547430	retained_intron	KNOWN	None	4910	None	None	62206779	62207616	1	None	MOP1, HIF-1alpha, PASD8, HIF1, bHLHe78
14	HIF1A	ENSG00000100644	ENST00000556827	retained_intron	KNOWN	None	4910	None	None	62212323	62214190	1	None	MOP1, HIF-1alpha, PASD8, HIF1, bHLHe78
14	HIF1A	ENSG00000100644	ENST00000539097	protein_coding	KNOWN	CCDS58324	4910	2553	850	62164340	62214489	1	None	MOP1, HIF-1alpha, PASD8, HIF1, bHLHe78
8	RHOBTB2	ENSG00000008853	ENST00000519685	protein_coding	PUTATIVE	CCDS55210	18756	2250	749	22844930	22875954	1	None	KIAA0717, DBC2
8	RHOBTB2	ENSG00000008853	ENST00000524077	protein_coding	PUTATIVE	None	18756	548	181	22844995	22863658	1	None	KIAA0717, DBC2
8	RHOBTB2	ENSG00000008853	ENST00000518534	processed_transcript	KNOWN	None	18756	None	None	22849610	22856674	1	None	KIAA0717, DBC2
8	RHOBTB2	ENSG00000008853	ENST00000522948	protein_coding	PUTATIVE	CCDS55211	18756	2205	734	22853354	22877705	1	None	KIAA0717, DBC2
8	RHOBTB2	ENSG00000008853	ENST00000251822	protein_coding	KNOWN	CCDS6034	18756	2184	727	22857092	22877712	1	None	KIAA0717, DBC2
8	RHOBTB2	ENSG00000008853	ENST00000517528	retained_intron	KNOWN	None	18756	None	None	22857442	22862357	1	None	KIAA0717, DBC2
8	RHOBTB2	ENSG00000008853	ENST00000523918	processed_transcript	KNOWN	None	18756	None	None	22861557	22863642	1	None	KIAA0717, DBC2
8	RHOBTB2	ENSG00000008853	ENST00000519210	retained_intron	KNOWN	None	18756	None	None	22865352	22868154	1	None	KIAA0717, DBC2
X	MAGEA12	ENSG00000213401	ENST00000357916	protein_coding	KNOWN	CCDS14710	6799	945	314	151899293	151903184	-1	MAGE12	CT1.12
X	MAGEA12	ENSG00000213401	ENST00000393869	protein_coding	KNOWN	CCDS14710	6799	945	314	151899302	151903184	-1	MAGE12	CT1.12
X	MAGEA12	ENSG00000213401	ENST00000393900	protein_coding	KNOWN	CCDS14710	6799	945	314	151899302	151903101	-1	MAGE12	CT1.12
X	TCEAL3	ENSG00000196507	ENST00000372628	protein_coding	KNOWN	CCDS14511	28247	603	200	102862379	102864855	1	None	MGC15737
X	TCEAL3	ENSG00000196507	ENST00000372627	protein_coding	KNOWN	CCDS14511	28247	603	200	102862834	102864855	1	None	MGC15737
X	TCEAL3	ENSG00000196507	ENST00000477014	processed_transcript	KNOWN	None	28247	None	None	102862899	102884618	1	None	MGC15737
X	TCEAL3	ENSG00000196507	ENST00000243286	protein_coding	KNOWN	CCDS14511	28247	603	200	102862834	102864854	1	None	MGC15737
X	CSAG1	ENSG00000198930	ENST00000370287	protein_coding	KNOWN	CCDS14711	24294	237	78	151903228	151909518	1	None	CSAGE, CT24.1
X	CSAG1	ENSG00000198930	ENST00000452779	protein_coding	KNOWN	CCDS14711	24294	237	78	151903257	151909515	1	None	CSAGE, CT24.1
X	CSAG1	ENSG00000198930	ENST00000361211	nonsense_mediated_decay	KNOWN	None	24294	84	27	151903264	151909518	1	None	CSAGE, CT24.1
X	CSAG1	ENSG00000198930	ENST00000370291	protein_coding	KNOWN	None	24294	222	73	151903272	151909518	1	None	CSAGE, CT24.1
15	CSNK1G1	ENSG00000169118	ENST00000303052	protein_coding	KNOWN	CCDS10192	2454	1269	422	64457716	64648386	-1	None	CK1gamma1
15	CSNK1G1	ENSG00000169118	ENST00000607537	protein_coding	PUTATIVE	None	2454	1428	475	64457933	64648372	-1	None	CK1gamma1
15	CSNK1G1	ENSG00000169118	ENST00000606225	nonsense_mediated_decay	KNOWN	None	2454	1182	393	64463828	64592826	-1	None	CK1gamma1
15	CSNK1G1	ENSG00000169118	ENST00000303032	protein_coding	KNOWN	None	2454	1182	393	64481605	64648442	-1	None	CK1gamma1
X	TCEAL1	ENSG00000172465	ENST00000372626	protein_coding	KNOWN	CCDS35358	11616	480	159	102883632	102885375	1	None	p21, pp21, SIIR, P21
X	TCEAL1	ENSG00000172465	ENST00000372625	protein_coding	KNOWN	CCDS35358	11616	480	159	102883902	102885881	1	None	p21, pp21, SIIR, P21
X	TCEAL1	ENSG00000172465	ENST00000469820	processed_transcript	KNOWN	None	11616	None	None	102883912	102885145	1	None	p21, pp21, SIIR, P21
X	TCEAL1	ENSG00000172465	ENST00000372624	protein_coding	KNOWN	CCDS35358	11616	480	159	102883927	102885881	1	None	p21, pp21, SIIR, P21
X	MORF4L2	ENSG00000123562	ENST00000360458	protein_coding	KNOWN	CCDS14512	16849	867	288	102930424	102942992	-1	None	KIAA0026, MRGX
X	MORF4L2	ENSG00000123562	ENST00000372620	protein_coding	KNOWN	None	16849	513	170	102930428	102933308	-1	None	KIAA0026, MRGX
X	MORF4L2	ENSG00000123562	ENST00000441076	protein_coding	KNOWN	CCDS14512	16849	867	288	102930433	102941596	-1	None	KIAA0026, MRGX
X	MORF4L2	ENSG00000123562	ENST00000434230	protein_coding	KNOWN	None	16849	533	176	102931423	102942966	-1	None	KIAA0026, MRGX
X	MORF4L2	ENSG00000123562	ENST00000418819	protein_coding	KNOWN	None	16849	531	176	102931425	102942969	-1	None	KIAA0026, MRGX
X	MORF4L2	ENSG00000123562	ENST00000442614	protein_coding	KNOWN	None	16849	474	157	102931482	102941637	-1	None	KIAA0026, MRGX
X	MORF4L2	ENSG00000123562	ENST00000492116	processed_transcript	KNOWN	None	16849	None	None	102931622	102943050	-1	None	KIAA0026, MRGX
X	MORF4L2	ENSG00000123562	ENST00000422355	protein_coding	KNOWN	None	16849	202	66	102931754	102941633	-1	None	KIAA0026, MRGX
X	MORF4L2	ENSG00000123562	ENST00000474653	processed_transcript	KNOWN	None	16849	None	None	102931844	102940433	-1	None	KIAA0026, MRGX
X	MORF4L2	ENSG00000123562	ENST00000467755	processed_transcript	KNOWN	None	16849	None	None	102931907	102941612	-1	None	KIAA0026, MRGX
X	MORF4L2	ENSG00000123562	ENST00000498064	processed_transcript	KNOWN	None	16849	None	None	102931907	102941744	-1	None	KIAA0026, MRGX
X	MORF4L2	ENSG00000123562	ENST00000488331	processed_transcript	KNOWN	None	16849	None	None	102939902	102942955	-1	None	KIAA0026, MRGX
X	MORF4L2	ENSG00000123562	ENST00000433176	protein_coding	KNOWN	CCDS14512	16849	867	288	102930428	102943086	-1	None	KIAA0026, MRGX
X	MORF4L2	ENSG00000123562	ENST00000422154	protein_coding	KNOWN	CCDS14512	16849	867	288	102930428	102941746	-1	None	KIAA0026, MRGX
X	MORF4L2	ENSG00000123562	ENST00000451301	protein_coding	KNOWN	CCDS14512	16849	867	288	102930428	102941746	-1	None	KIAA0026, MRGX
X	MORF4L2	ENSG00000123562	ENST00000423833	protein_coding	KNOWN	CCDS14512	16849	867	288	102930433	102941149	-1	None	KIAA0026, MRGX
10	DNAJC1	ENSG00000136770	ENST00000376980	protein_coding	KNOWN	CCDS7136	20090	1665	554	22045466	22292654	-1	None	DNAJL1, ERdj1, MTJ1
10	DNAJC1	ENSG00000136770	ENST00000483085	processed_transcript	KNOWN	None	20090	None	None	22048438	22149835	-1	None	DNAJL1, ERdj1, MTJ1
10	DNAJC1	ENSG00000136770	ENST00000476103	nonsense_mediated_decay	KNOWN	None	20090	330	109	22208818	22292514	-1	None	DNAJL1, ERdj1, MTJ1
10	DNAJC1	ENSG00000136770	ENST00000447548	protein_coding	KNOWN	None	20090	349	115	22208832	22292328	-1	None	DNAJL1, ERdj1, MTJ1
10	DNAJC1	ENSG00000136770	ENST00000376946	protein_coding	KNOWN	None	20090	330	109	22209539	22292698	-1	None	DNAJL1, ERdj1, MTJ1
15	None	ENSG00000259316	ENST00000561349	protein_coding	PUTATIVE	None	None	1082	359	64472547	64665968	-1	None	None
15	None	ENSG00000259316	ENST00000606793	protein_coding	PUTATIVE	None	None	1215	404	64473387	64665911	-1	None	None
15	None	ENSG00000259316	ENST00000560278	protein_coding	PUTATIVE	None	None	185	60	64592514	64665980	-1	None	None
15	None	ENSG00000259316	ENST00000558783	retained_intron	KNOWN	None	None	None	None	64592806	64665964	-1	None	None
15	None	ENSG00000259316	ENST00000559280	retained_intron	KNOWN	None	None	None	None	64658143	64665970	-1	None	None
9	KCNV2	ENSG00000168263	ENST00000382082	protein_coding	KNOWN	CCDS6447	19698	1638	545	2717502	2730037	1	None	Kv8.2
8	C8orf46	ENSG00000169085	ENST00000482608	processed_transcript	KNOWN	None	28498	None	None	67372238	67425842	1	None	MGC33510
8	C8orf46	ENSG00000169085	ENST00000519702	processed_transcript	KNOWN	None	28498	None	None	67372539	67428165	1	None	MGC33510
8	C8orf46	ENSG00000169085	ENST00000498712	processed_transcript	KNOWN	None	28498	None	None	67383676	67387174	1	None	MGC33510
8	C8orf46	ENSG00000169085	ENST00000470796	processed_transcript	KNOWN	None	28498	None	None	67386019	67417703	1	None	MGC33510
8	C8orf46	ENSG00000169085	ENST00000490228	processed_transcript	KNOWN	None	28498	None	None	67386113	67387174	1	None	MGC33510
8	C8orf46	ENSG00000169085	ENST00000305454	protein_coding	KNOWN	CCDS6191	28498	624	207	67405443	67430759	1	None	MGC33510
8	C8orf46	ENSG00000169085	ENST00000521495	protein_coding	NOVEL	None	28498	369	122	67405755	67428213	1	None	MGC33510
8	C8orf46	ENSG00000169085	ENST00000521813	processed_transcript	PUTATIVE	None	28498	None	None	67405785	67415760	1	None	MGC33510
8	C8orf46	ENSG00000169085	ENST00000460144	nonsense_mediated_decay	KNOWN	None	28498	234	77	67405796	67430759	1	None	MGC33510
8	C8orf46	ENSG00000169085	ENST00000450307	nonsense_mediated_decay	KNOWN	None	28498	147	48	67405797	67430733	1	None	MGC33510
8	C8orf46	ENSG00000169085	ENST00000484919	retained_intron	KNOWN	None	28498	None	None	67405827	67422575	1	None	MGC33510
8	C8orf46	ENSG00000169085	ENST00000522977	protein_coding	NOVEL	None	28498	405	134	67405841	67429053	1	None	MGC33510
8	C8orf46	ENSG00000169085	ENST00000480005	protein_coding	PUTATIVE	None	28498	444	147	67405862	67426275	1	None	MGC33510
8	C8orf46	ENSG00000169085	ENST00000485639	processed_transcript	KNOWN	None	28498	None	None	67405886	67426526	1	None	MGC33510
8	C8orf46	ENSG00000169085	ENST00000488582	processed_transcript	KNOWN	None	28498	None	None	67406779	67408729	1	None	MGC33510
20	RN7SKP173	ENSG00000199691	ENST00000362821	misc_RNA	KNOWN	None	45897	None	None	37390171	37390485	1	None	None
20	RN7SL116P	ENSG00000240474	ENST00000470786	misc_RNA	KNOWN	None	46132	None	None	37501413	37501720	1	None	None
20	None	ENSG00000261431	ENST00000570096	antisense	KNOWN	None	None	None	None	37590568	37590754	-1	None	None
20	NPM1P19	ENSG00000223864	ENST00000450070	processed_pseudogene	KNOWN	None	7921	None	None	37606354	37607065	-1	None	None
20	None	ENSG00000230324	ENST00000412672	lincRNA	KNOWN	None	None	None	None	37842420	37853391	-1	None	None
9	KIAA0020	ENSG00000080608	ENST00000490444	nonsense_mediated_decay	KNOWN	None	29676	150	49	2720469	2807830	-1	None	XTP5, PEN, PUF6, hPUF-A, HA-8
9	KIAA0020	ENSG00000080608	ENST00000397885	protein_coding	KNOWN	CCDS6448	29676	1947	648	2804164	2844241	-1	None	XTP5, PEN, PUF6, hPUF-A, HA-8
9	KIAA0020	ENSG00000080608	ENST00000382032	retained_intron	KNOWN	None	29676	None	None	2804167	2807974	-1	None	XTP5, PEN, PUF6, hPUF-A, HA-8
9	KIAA0020	ENSG00000080608	ENST00000469168	processed_transcript	KNOWN	None	29676	None	None	2828475	2829925	-1	None	XTP5, PEN, PUF6, hPUF-A, HA-8
20	None	ENSG00000211534	ENST00000390200	miRNA	NOVEL	None	None	None	None	37900183	37900258	1	None	None
20	ATG3P1	ENSG00000224357	ENST00000419507	processed_pseudogene	KNOWN	None	31123	None	None	37957657	37958567	-1	ATG3P	dJ54G6.1
20	RN7SL680P	ENSG00000263943	ENST00000583513	misc_RNA	KNOWN	None	46696	None	None	37977739	37978035	-1	None	None
20	RN7SL194P	ENSG00000241840	ENST00000493629	misc_RNA	KNOWN	None	46210	None	None	37981402	37981674	1	None	None
20	None	ENSG00000229976	ENST00000444436	lincRNA	KNOWN	None	None	None	None	38414363	38441871	1	None	None
15	KIAA0101	ENSG00000166803	ENST00000300035	protein_coding	KNOWN	CCDS10193	28961	336	111	64657193	64673709	-1	None	NS5ATP9, OEATC-1, p15(PAF)
15	KIAA0101	ENSG00000166803	ENST00000380258	protein_coding	PUTATIVE	CCDS32269	28961	198	65	64657564	64673643	-1	None	NS5ATP9, OEATC-1, p15(PAF)
15	KIAA0101	ENSG00000166803	ENST00000559519	protein_coding	PUTATIVE	None	28961	255	84	64657805	64673640	-1	None	NS5ATP9, OEATC-1, p15(PAF)
15	KIAA0101	ENSG00000166803	ENST00000558008	protein_coding	PUTATIVE	None	28961	348	115	64657933	64673637	-1	None	NS5ATP9, OEATC-1, p15(PAF)
15	KIAA0101	ENSG00000166803	ENST00000558043	retained_intron	KNOWN	None	28961	None	None	64657947	64673354	-1	None	NS5ATP9, OEATC-1, p15(PAF)
15	KIAA0101	ENSG00000166803	ENST00000560234	protein_coding	PUTATIVE	None	28961	276	91	64658067	64679883	-1	None	NS5ATP9, OEATC-1, p15(PAF)
15	KIAA0101	ENSG00000166803	ENST00000558250	protein_coding	PUTATIVE	None	28961	228	75	64674624	64679886	-1	None	NS5ATP9, OEATC-1, p15(PAF)
20	None	ENSG00000234878	ENST00000421494	processed_pseudogene	KNOWN	None	None	None	None	38561564	38561881	-1	None	None
20	None	ENSG00000237767	ENST00000432633	lincRNA	KNOWN	None	None	None	None	38633119	38636887	1	None	None
20	None	ENSG00000237767	ENST00000445606	lincRNA	KNOWN	None	None	None	None	38633126	38637171	1	None	None
20	None	ENSG00000233415	ENST00000423153	lincRNA	KNOWN	None	None	None	None	38660227	38672531	1	None	None
4	SLC34A2	ENSG00000157765	ENST00000513204	protein_coding	KNOWN	None	11020	489	162	25656923	25667862	1	None	NAPI-3B
4	SLC34A2	ENSG00000157765	ENST00000504570	protein_coding	KNOWN	CCDS54750	11020	2070	689	25657444	25678391	1	None	NAPI-3B
4	SLC34A2	ENSG00000157765	ENST00000382051	protein_coding	KNOWN	CCDS3435	11020	2073	690	25657466	25680370	1	None	NAPI-3B
4	SLC34A2	ENSG00000157765	ENST00000503434	protein_coding	KNOWN	CCDS54750	11020	2070	689	25658086	25678371	1	None	NAPI-3B
4	SLC34A2	ENSG00000157765	ENST00000507530	protein_coding	KNOWN	None	11020	483	160	25658091	25667853	1	None	NAPI-3B
4	SLC34A2	ENSG00000157765	ENST00000510033	processed_transcript	KNOWN	None	11020	None	None	25666516	25671315	1	None	NAPI-3B
20	None	ENSG00000263518	ENST00000584209	miRNA	NOVEL	None	None	None	None	38731860	38731998	-1	None	None
20	None	ENSG00000223410	ENST00000445278	lincRNA	KNOWN	None	None	None	None	38749682	38754998	1	None	None
X	MAGEA2	ENSG00000184750	ENST00000370284	protein_coding	KNOWN	CCDS14713	6800	945	314	151918387	151922340	-1	MAGE2	MAGEA2A, CT1.2
X	MAGEA2	ENSG00000184750	ENST00000480629	processed_transcript	KNOWN	None	6800	None	None	151919225	151922362	-1	MAGE2	MAGEA2A, CT1.2
X	MAGEA2	ENSG00000184750	ENST00000479268	processed_transcript	KNOWN	None	6800	None	None	151919471	151922353	-1	MAGE2	MAGEA2A, CT1.2
X	MAGEA2	ENSG00000184750	ENST00000469970	processed_transcript	KNOWN	None	6800	None	None	151919777	151922364	-1	MAGE2	MAGEA2A, CT1.2
X	MAGEA2	ENSG00000184750	ENST00000543232	protein_coding	KNOWN	CCDS14713	6800	945	314	151918388	151922364	-1	MAGE2	MAGEA2A, CT1.2
X	MAGEA2	ENSG00000184750	ENST00000393876	protein_coding	KNOWN	CCDS14713	6800	945	314	151918388	151922364	-1	MAGE2	MAGEA2A, CT1.2
X	MAGEA2	ENSG00000184750	ENST00000393872	protein_coding	KNOWN	CCDS14713	6800	945	314	151918388	151922364	-1	MAGE2	MAGEA2A, CT1.2
14	SNAPC1	ENSG00000023608	ENST00000216294	protein_coding	KNOWN	CCDS9755	11134	1107	368	62229075	62263146	1	None	SNAP43, PTFgamma
15	ANKRD63	ENSG00000230778	ENST00000434396	protein_coding	KNOWN	None	40027	1143	380	40573645	40574787	-1	None	None
20	None	ENSG00000252434	ENST00000516625	snoRNA	NOVEL	None	None	None	None	39045515	39045586	1	None	None
20	None	ENSG00000229771	ENST00000428495	lincRNA	KNOWN	None	None	None	None	39326535	39327256	-1	None	None
15	TRIP4	ENSG00000103671	ENST00000559833	processed_transcript	KNOWN	None	12310	None	None	64679947	64689959	1	None	HsT17391
15	TRIP4	ENSG00000103671	ENST00000559565	processed_transcript	KNOWN	None	12310	None	None	64679952	64702001	1	None	HsT17391
15	TRIP4	ENSG00000103671	ENST00000261884	protein_coding	KNOWN	CCDS10194	12310	1746	581	64680003	64747502	1	None	HsT17391
15	TRIP4	ENSG00000103671	ENST00000557834	processed_transcript	KNOWN	None	12310	None	None	64680035	64689934	1	None	HsT17391
15	TRIP4	ENSG00000103671	ENST00000558820	nonsense_mediated_decay	KNOWN	None	12310	132	43	64680054	64701883	1	None	HsT17391
15	TRIP4	ENSG00000103671	ENST00000560567	nonsense_mediated_decay	KNOWN	None	12310	1107	368	64680058	64716529	1	None	HsT17391
15	TRIP4	ENSG00000103671	ENST00000558442	processed_transcript	KNOWN	None	12310	None	None	64680061	64686225	1	None	HsT17391
15	TRIP4	ENSG00000103671	ENST00000560920	nonsense_mediated_decay	KNOWN	None	12310	381	126	64680061	64693020	1	None	HsT17391
15	TRIP4	ENSG00000103671	ENST00000561265	retained_intron	KNOWN	None	12310	None	None	64685895	64702004	1	None	HsT17391
15	TRIP4	ENSG00000103671	ENST00000560475	protein_coding	PUTATIVE	None	12310	184	60	64701917	64747502	1	None	HsT17391
15	TRIP4	ENSG00000103671	ENST00000558162	protein_coding	PUTATIVE	None	12310	334	110	64716314	64743185	1	None	HsT17391
15	TRIP4	ENSG00000103671	ENST00000559777	processed_transcript	PUTATIVE	None	12310	None	None	64736858	64747435	1	None	HsT17391
14	SYT16	ENSG00000139973	ENST00000430451	protein_coding	NOVEL	CCDS45121	23142	1938	645	62462541	62568424	1	SYT14L	yt14r, CHR14SYT, Strep14
14	SYT16	ENSG00000139973	ENST00000555409	nonsense_mediated_decay	KNOWN	None	23142	1152	383	62462552	62568431	1	SYT14L	yt14r, CHR14SYT, Strep14
14	SYT16	ENSG00000139973	ENST00000446982	protein_coding	KNOWN	None	23142	1152	383	62453803	62547783	1	SYT14L	yt14r, CHR14SYT, Strep14
X	GLRA4	ENSG00000188828	ENST00000372617	protein_coding	KNOWN	CCDS43980	31715	1254	417	102962152	102983552	-1	None	None
X	GLRA4	ENSG00000188828	ENST00000436213	nonsense_mediated_decay	KNOWN	None	31715	135	44	102962228	102983583	-1	None	None
X	GLRA4	ENSG00000188828	ENST00000480725	retained_intron	KNOWN	None	31715	None	None	102973502	102983552	-1	None	None
X	GLRA4	ENSG00000188828	ENST00000469567	processed_transcript	PUTATIVE	None	31715	None	None	102974442	102977139	-1	None	None
15	C15orf52	ENSG00000188549	ENST00000397536	protein_coding	KNOWN	None	33488	975	324	40623653	40630334	-1	None	FLJ43339
15	C15orf52	ENSG00000188549	ENST00000382688	retained_intron	KNOWN	None	33488	None	None	40623653	40631177	-1	None	FLJ43339
15	C15orf52	ENSG00000188549	ENST00000559313	protein_coding	KNOWN	CCDS10055	33488	1605	534	40625958	40633168	-1	None	FLJ43339
15	C15orf52	ENSG00000188549	ENST00000558858	protein_coding	PUTATIVE	None	33488	104	33	40627834	40630241	-1	None	FLJ43339
15	C15orf52	ENSG00000188549	ENST00000558912	retained_intron	KNOWN	None	33488	None	None	40628760	40632839	-1	None	FLJ43339
15	C15orf52	ENSG00000188549	ENST00000560922	protein_coding	PUTATIVE	None	33488	521	172	40630051	40632243	-1	None	FLJ43339
15	C15orf52	ENSG00000188549	ENST00000557973	processed_transcript	KNOWN	None	33488	None	None	40631789	40633121	-1	None	FLJ43339
8	MYBL1	ENSG00000185697	ENST00000522677	protein_coding	KNOWN	CCDS47867	7547	2259	752	67474410	67525484	-1	None	AMYB, A-myb
8	MYBL1	ENSG00000185697	ENST00000517885	protein_coding	NOVEL	None	7547	1233	410	67476907	67525529	-1	None	AMYB, A-myb
8	MYBL1	ENSG00000185697	ENST00000524176	protein_coding	KNOWN	CCDS55241	7547	2079	692	67476932	67525142	-1	None	AMYB, A-myb
8	MYBL1	ENSG00000185697	ENST00000522419	processed_transcript	PUTATIVE	None	7547	None	None	67477368	67479193	-1	None	AMYB, A-myb
8	MYBL1	ENSG00000185697	ENST00000518079	processed_transcript	KNOWN	None	7547	None	None	67509745	67524856	-1	None	AMYB, A-myb
8	MYBL1	ENSG00000185697	ENST00000523304	retained_intron	KNOWN	None	7547	None	None	67524380	67526482	-1	None	AMYB, A-myb
14	KCNH5	ENSG00000140015	ENST00000322893	protein_coding	KNOWN	CCDS9756	6254	2967	988	63173287	63512173	-1	None	Kv10.2, H-EAG2, eag2
14	KCNH5	ENSG00000140015	ENST00000420622	protein_coding	NOVEL	CCDS45122	6254	1836	611	63174285	63511904	-1	None	Kv10.2, H-EAG2, eag2
14	KCNH5	ENSG00000140015	ENST00000394968	protein_coding	NOVEL	CCDS45123	6254	1875	624	63178958	63568584	-1	None	Kv10.2, H-EAG2, eag2
14	KCNH5	ENSG00000140015	ENST00000394964	protein_coding	NOVEL	None	6254	1269	422	63416536	63568755	-1	None	Kv10.2, H-EAG2, eag2
15	CTSH	ENSG00000103811	ENST00000220166	protein_coding	KNOWN	CCDS10308	2535	1008	335	79213400	79237433	-1	CPSB	ACC-4, ACC-5
15	CTSH	ENSG00000103811	ENST00000527715	retained_intron	KNOWN	None	2535	None	None	79214107	79219246	-1	CPSB	ACC-4, ACC-5
15	CTSH	ENSG00000103811	ENST00000525807	nonsense_mediated_decay	KNOWN	None	2535	357	118	79214111	79237404	-1	CPSB	ACC-4, ACC-5
15	CTSH	ENSG00000103811	ENST00000533777	nonsense_mediated_decay	KNOWN	None	2535	189	62	79214117	79237388	-1	CPSB	ACC-4, ACC-5
15	CTSH	ENSG00000103811	ENST00000534237	processed_transcript	KNOWN	None	2535	None	None	79214459	79224372	-1	CPSB	ACC-4, ACC-5
15	CTSH	ENSG00000103811	ENST00000534533	processed_transcript	KNOWN	None	2535	None	None	79215401	79229575	-1	CPSB	ACC-4, ACC-5
15	CTSH	ENSG00000103811	ENST00000527138	retained_intron	KNOWN	None	2535	None	None	79219549	79224295	-1	CPSB	ACC-4, ACC-5
15	CTSH	ENSG00000103811	ENST00000529612	retained_intron	KNOWN	None	2535	None	None	79219951	79228092	-1	CPSB	ACC-4, ACC-5
15	CTSH	ENSG00000103811	ENST00000529861	nonsense_mediated_decay	KNOWN	None	2535	126	41	79221753	79237436	-1	CPSB	ACC-4, ACC-5
15	CTSH	ENSG00000103811	ENST00000528741	protein_coding	PUTATIVE	None	2535	402	133	79221754	79241916	-1	CPSB	ACC-4, ACC-5
15	CTSH	ENSG00000103811	ENST00000529263	retained_intron	KNOWN	None	2535	None	None	79221783	79230057	-1	CPSB	ACC-4, ACC-5
15	CTSH	ENSG00000103811	ENST00000528191	processed_transcript	KNOWN	None	2535	None	None	79224227	79229528	-1	CPSB	ACC-4, ACC-5
15	CTSH	ENSG00000103811	ENST00000534038	processed_transcript	KNOWN	None	2535	None	None	79224348	79237388	-1	CPSB	ACC-4, ACC-5
15	CTSH	ENSG00000103811	ENST00000530010	retained_intron	KNOWN	None	2535	None	None	79227186	79237340	-1	CPSB	ACC-4, ACC-5
15	CTSH	ENSG00000103811	ENST00000530929	retained_intron	KNOWN	None	2535	None	None	79227189	79241843	-1	CPSB	ACC-4, ACC-5
15	CTSH	ENSG00000103811	ENST00000534268	processed_transcript	PUTATIVE	None	2535	None	None	79229660	79237363	-1	CPSB	ACC-4, ACC-5
15	CTSH	ENSG00000103811	ENST00000528436	processed_transcript	PUTATIVE	None	2535	None	None	79229755	79237384	-1	CPSB	ACC-4, ACC-5
4	USP38	ENSG00000170185	ENST00000510377	protein_coding	PUTATIVE	None	20067	3015	1004	144106070	144136730	1	None	KIAA1891, HP43.8KD
4	USP38	ENSG00000170185	ENST00000307017	protein_coding	KNOWN	CCDS3758	20067	3129	1042	144106098	144144983	1	None	KIAA1891, HP43.8KD
4	USP38	ENSG00000170185	ENST00000511739	nonsense_mediated_decay	KNOWN	None	20067	1044	347	144106847	144144983	1	None	KIAA1891, HP43.8KD
20	RNA5SP484	ENSG00000238908	ENST00000458857	rRNA	KNOWN	None	43384	None	None	39482759	39482869	-1	RN5S484	None
4	SEL1L3	ENSG00000091490	ENST00000399878	protein_coding	KNOWN	CCDS47037	29108	3399	1132	25749055	25864581	-1	None	KIAA0746
4	SEL1L3	ENSG00000091490	ENST00000264868	protein_coding	KNOWN	None	29108	3294	1097	25749055	25865217	-1	None	KIAA0746
4	SEL1L3	ENSG00000091490	ENST00000513416	retained_intron	KNOWN	None	29108	None	None	25749056	25761599	-1	None	KIAA0746
4	SEL1L3	ENSG00000091490	ENST00000512286	retained_intron	KNOWN	None	29108	None	None	25749686	25759474	-1	None	KIAA0746
4	SEL1L3	ENSG00000091490	ENST00000502949	protein_coding	KNOWN	None	29108	2940	979	25749888	25865159	-1	None	KIAA0746
4	SEL1L3	ENSG00000091490	ENST00000510448	protein_coding	PUTATIVE	None	29108	392	129	25757544	25766982	-1	None	KIAA0746
4	SEL1L3	ENSG00000091490	ENST00000507618	protein_coding	PUTATIVE	None	29108	393	130	25759156	25769394	-1	None	KIAA0746
4	SEL1L3	ENSG00000091490	ENST00000509290	retained_intron	KNOWN	None	29108	None	None	25769206	25778341	-1	None	KIAA0746
4	SEL1L3	ENSG00000091490	ENST00000514321	protein_coding	PUTATIVE	None	29108	234	77	25779238	25780825	-1	None	KIAA0746
4	SEL1L3	ENSG00000091490	ENST00000513364	processed_transcript	KNOWN	None	29108	None	None	25834685	25864610	-1	None	KIAA0746
4	SEL1L3	ENSG00000091490	ENST00000510880	protein_coding	KNOWN	None	29108	225	74	25848965	25862253	-1	None	KIAA0746
4	SEL1L3	ENSG00000091490	ENST00000513691	protein_coding	KNOWN	None	29108	186	61	25849004	25865364	-1	None	KIAA0746
4	SEL1L3	ENSG00000091490	ENST00000514872	protein_coding	KNOWN	None	29108	107	34	25849083	25865382	-1	None	KIAA0746
20	RNU2-52P	ENSG00000222612	ENST00000410680	snRNA	KNOWN	None	48545	None	None	39652845	39653034	1	None	None
X	TMEM31	ENSG00000179363	ENST00000319560	protein_coding	KNOWN	CCDS35359	28601	507	168	102965837	102968956	1	None	MGC39655
X	CXorf38	ENSG00000185753	ENST00000327877	protein_coding	KNOWN	CCDS14253	28589	960	319	40488285	40506799	-1	None	MGC39350
X	CXorf38	ENSG00000185753	ENST00000378426	protein_coding	KNOWN	None	28589	603	200	40488285	40506806	-1	None	MGC39350
X	CXorf38	ENSG00000185753	ENST00000378421	protein_coding	KNOWN	None	28589	603	200	40489189	40506773	-1	None	MGC39350
X	CXorf38	ENSG00000185753	ENST00000440784	protein_coding	KNOWN	None	28589	705	234	40489780	40506783	-1	None	MGC39350
X	CXorf38	ENSG00000185753	ENST00000378418	protein_coding	KNOWN	None	28589	468	155	40499456	40506819	-1	None	MGC39350
X	PLP1	ENSG00000123560	ENST00000434483	protein_coding	KNOWN	None	9086	368	121	103028647	103041570	1	SPG2, PLP	GPM6C
X	PLP1	ENSG00000123560	ENST00000429977	protein_coding	KNOWN	None	9086	410	135	103029314	103041612	1	SPG2, PLP	GPM6C
X	PLP1	ENSG00000123560	ENST00000455268	protein_coding	KNOWN	None	9086	409	135	103030400	103041611	1	SPG2, PLP	GPM6C
X	PLP1	ENSG00000123560	ENST00000422393	protein_coding	KNOWN	None	9086	382	126	103030473	103041584	1	SPG2, PLP	GPM6C
X	PLP1	ENSG00000123560	ENST00000433491	protein_coding	KNOWN	None	9086	302	99	103031434	103041504	1	SPG2, PLP	GPM6C
X	PLP1	ENSG00000123560	ENST00000443502	protein_coding	KNOWN	None	9086	335	110	103031546	103041537	1	SPG2, PLP	GPM6C
X	PLP1	ENSG00000123560	ENST00000303958	protein_coding	KNOWN	CCDS14513	9086	834	277	103031778	103047548	1	SPG2, PLP	GPM6C
X	PLP1	ENSG00000123560	ENST00000361621	protein_coding	KNOWN	CCDS14514	9086	729	242	103031778	103047548	1	SPG2, PLP	GPM6C
X	PLP1	ENSG00000123560	ENST00000464776	processed_transcript	KNOWN	None	9086	None	None	103031802	103041512	1	SPG2, PLP	GPM6C
X	PLP1	ENSG00000123560	ENST00000494475	processed_transcript	KNOWN	None	9086	None	None	103031802	103041568	1	SPG2, PLP	GPM6C
X	PLP1	ENSG00000123560	ENST00000465975	processed_transcript	PUTATIVE	None	9086	None	None	103031802	103041876	1	SPG2, PLP	GPM6C
X	PLP1	ENSG00000123560	ENST00000480325	retained_intron	KNOWN	None	9086	None	None	103031845	103040906	1	SPG2, PLP	GPM6C
X	PLP1	ENSG00000123560	ENST00000485931	processed_transcript	PUTATIVE	None	9086	None	None	103031846	103041919	1	SPG2, PLP	GPM6C
X	PLP1	ENSG00000123560	ENST00000495678	processed_transcript	KNOWN	None	9086	None	None	103034893	103041482	1	SPG2, PLP	GPM6C
X	PLP1	ENSG00000123560	ENST00000479569	processed_transcript	KNOWN	None	9086	None	None	103036081	103042898	1	SPG2, PLP	GPM6C
X	PLP1	ENSG00000123560	ENST00000485688	processed_transcript	KNOWN	None	9086	None	None	103040964	103045521	1	SPG2, PLP	GPM6C
X	PLP1	ENSG00000123560	ENST00000478642	processed_transcript	PUTATIVE	None	9086	None	None	103040990	103043389	1	SPG2, PLP	GPM6C
X	PLP1	ENSG00000123560	ENST00000476160	processed_transcript	PUTATIVE	None	9086	None	None	103040992	103041766	1	SPG2, PLP	GPM6C
X	PLP1	ENSG00000123560	ENST00000461231	processed_transcript	KNOWN	None	9086	None	None	103040992	103044314	1	SPG2, PLP	GPM6C
X	PLP1	ENSG00000123560	ENST00000466486	processed_transcript	KNOWN	None	9086	None	None	103042438	103045717	1	SPG2, PLP	GPM6C
X	PLP1	ENSG00000123560	ENST00000494119	processed_transcript	PUTATIVE	None	9086	None	None	103042728	103043763	1	SPG2, PLP	GPM6C
X	PLP1	ENSG00000123560	ENST00000496836	retained_intron	KNOWN	None	9086	None	None	103043836	103045510	1	SPG2, PLP	GPM6C
X	PLP1	ENSG00000123560	ENST00000418604	protein_coding	KNOWN	CCDS14513	9086	834	277	103031439	103047545	1	SPG2, PLP	GPM6C
9	C9orf91	ENSG00000157693	ENST00000288502	protein_coding	KNOWN	CCDS6808	24513	1029	342	117373486	117406441	1	None	DKFZp547P234, FLJ38045
9	C9orf91	ENSG00000157693	ENST00000374049	protein_coding	KNOWN	None	24513	1032	343	117373486	117408702	1	None	DKFZp547P234, FLJ38045
9	C9orf91	ENSG00000157693	ENST00000471206	processed_transcript	KNOWN	None	24513	None	None	117373738	117390505	1	None	DKFZp547P234, FLJ38045
9	C9orf91	ENSG00000157693	ENST00000482552	processed_transcript	KNOWN	None	24513	None	None	117405547	117406984	1	None	DKFZp547P234, FLJ38045
HSCHR6_MHC_COX	C6orf25	ENSG00000230060	ENST00000467835	retained_intron	KNOWN	None	13937	None	None	31673784	31681900	1	None	G6b, NG31
HSCHR6_MHC_COX	C6orf25	ENSG00000230060	ENST00000426729	protein_coding	KNOWN	None	13937	714	237	31678563	31681900	1	None	G6b, NG31
HSCHR6_MHC_COX	C6orf25	ENSG00000230060	ENST00000457884	protein_coding	KNOWN	None	13937	726	241	31678574	31681900	1	None	G6b, NG31
HSCHR6_MHC_COX	C6orf25	ENSG00000230060	ENST00000422012	protein_coding	KNOWN	None	13937	654	217	31678574	31681900	1	None	G6b, NG31
HSCHR6_MHC_COX	C6orf25	ENSG00000230060	ENST00000431888	protein_coding	KNOWN	None	13937	594	197	31678574	31681900	1	None	G6b, NG31
HSCHR6_MHC_COX	C6orf25	ENSG00000230060	ENST00000417610	protein_coding	KNOWN	None	13937	582	193	31678574	31681900	1	None	G6b, NG31
HSCHR6_MHC_COX	C6orf25	ENSG00000230060	ENST00000491949	retained_intron	KNOWN	None	13937	None	None	31678574	31681900	1	None	G6b, NG31
HSCHR6_MHC_COX	C6orf25	ENSG00000230060	ENST00000460024	retained_intron	KNOWN	None	13937	None	None	31678574	31681900	1	None	G6b, NG31
20	None	ENSG00000226648	ENST00000454626	antisense	KNOWN	None	None	None	None	39726969	39766643	-1	None	None
20	None	ENSG00000272029	ENST00000423733	antisense	KNOWN	None	None	None	None	39809096	39825427	1	None	None
15	ZNF609	ENSG00000180357	ENST00000416172	protein_coding	NOVEL	None	29003	996	331	64752941	64795257	1	None	KIAA0295
15	ZNF609	ENSG00000180357	ENST00000326648	protein_coding	KNOWN	CCDS32270	29003	4236	1411	64791491	64978264	1	None	KIAA0295
15	ZNF609	ENSG00000180357	ENST00000558680	processed_transcript	KNOWN	None	29003	None	None	64794577	64962634	1	None	KIAA0295
15	ZNF609	ENSG00000180357	ENST00000559364	processed_transcript	KNOWN	None	29003	None	None	64935969	64966970	1	None	KIAA0295
20	None	ENSG00000272407	ENST00000606979	transcribed_processed_pseudogene	KNOWN	None	None	None	None	39825287	39825578	-1	None	None
20	RPL23AP81	ENSG00000242748	ENST00000455252	transcribed_processed_pseudogene	KNOWN	None	36246	None	None	39825331	39825797	1	None	None
14	FBLN5	ENSG00000140092	ENST00000556961	processed_transcript	PUTATIVE	None	3602	None	None	92335756	92341160	-1	None	EVEC, UP50, DANCE, ARMD3
14	FBLN5	ENSG00000140092	ENST00000267620	protein_coding	NOVEL	None	3602	1470	489	92335785	92413743	-1	None	EVEC, UP50, DANCE, ARMD3
14	FBLN5	ENSG00000140092	ENST00000342058	protein_coding	KNOWN	CCDS9898	3602	1347	448	92336386	92414167	-1	None	EVEC, UP50, DANCE, ARMD3
14	FBLN5	ENSG00000140092	ENST00000556154	protein_coding	PUTATIVE	None	3602	1362	453	92336387	92413418	-1	None	EVEC, UP50, DANCE, ARMD3
14	FBLN5	ENSG00000140092	ENST00000554121	protein_coding	NOVEL	None	3602	470	155	92336571	92344386	-1	None	EVEC, UP50, DANCE, ARMD3
14	FBLN5	ENSG00000140092	ENST00000557088	nonsense_mediated_decay	KNOWN	None	3602	135	44	92361352	92413928	-1	None	EVEC, UP50, DANCE, ARMD3
14	FBLN5	ENSG00000140092	ENST00000557462	processed_transcript	KNOWN	None	3602	None	None	92403355	92413580	-1	None	EVEC, UP50, DANCE, ARMD3
14	FBLN5	ENSG00000140092	ENST00000554468	protein_coding	KNOWN	None	3602	273	90	92403397	92414331	-1	None	EVEC, UP50, DANCE, ARMD3
14	FBLN5	ENSG00000140092	ENST00000557570	nonsense_mediated_decay	KNOWN	None	3602	108	35	92406909	92414035	-1	None	EVEC, UP50, DANCE, ARMD3
20	RN7SL615P	ENSG00000263989	ENST00000584065	misc_RNA	KNOWN	None	46631	None	None	39918922	39919217	-1	None	None
20	None	ENSG00000235102	ENST00000438914	processed_pseudogene	KNOWN	None	None	None	None	39959763	39960300	1	None	None
9	RFX3	ENSG00000080298	ENST00000382004	protein_coding	KNOWN	CCDS6449	9984	2250	749	3218297	3525983	-1	None	None
9	RFX3	ENSG00000080298	ENST00000358730	protein_coding	KNOWN	CCDS6450	9984	2124	707	3247037	3395596	-1	None	None
9	RFX3	ENSG00000080298	ENST00000449234	protein_coding	KNOWN	None	9984	375	124	3247514	3257199	-1	None	None
9	RFX3	ENSG00000080298	ENST00000458034	protein_coding	KNOWN	None	9984	522	173	3257002	3270738	-1	None	None
9	RFX3	ENSG00000080298	ENST00000457373	protein_coding	KNOWN	None	9984	649	215	3293084	3489416	-1	None	None
9	RFX3	ENSG00000080298	ENST00000451859	protein_coding	KNOWN	None	9984	552	183	3301543	3489428	-1	None	None
9	RFX3	ENSG00000080298	ENST00000442560	protein_coding	KNOWN	None	9984	408	135	3323961	3346764	-1	None	None
9	RFX3	ENSG00000080298	ENST00000420720	protein_coding	KNOWN	None	9984	471	156	3323961	3346764	-1	None	None
9	RFX3	ENSG00000080298	ENST00000449190	protein_coding	KNOWN	None	9984	416	137	3330317	3526004	-1	None	None
9	RFX3	ENSG00000080298	ENST00000381984	protein_coding	KNOWN	None	9984	258	85	3344732	3395588	-1	None	None
9	RFX3	ENSG00000080298	ENST00000302303	protein_coding	KNOWN	CCDS6450	9984	2124	707	3247037	3525983	-1	None	None
20	None	ENSG00000229398	ENST00000440222	processed_pseudogene	KNOWN	None	None	None	None	40011023	40011747	1	None	None
20	None	ENSG00000235088	ENST00000423903	processed_pseudogene	KNOWN	None	None	None	None	40087994	40090584	-1	None	None
5	GAPT	ENSG00000175857	ENST00000502276	protein_coding	KNOWN	None	26588	206	67	57787262	57790569	1	C5orf29	FLJ33641
5	GAPT	ENSG00000175857	ENST00000396776	protein_coding	KNOWN	CCDS3975	26588	474	157	57787262	57792917	1	C5orf29	FLJ33641
5	GAPT	ENSG00000175857	ENST00000511930	protein_coding	KNOWN	None	26588	207	68	57787264	57790570	1	C5orf29	FLJ33641
5	GAPT	ENSG00000175857	ENST00000513924	processed_transcript	KNOWN	None	26588	None	None	57787308	57790342	1	C5orf29	FLJ33641
5	GAPT	ENSG00000175857	ENST00000515443	processed_transcript	KNOWN	None	26588	None	None	57787319	57790343	1	C5orf29	FLJ33641
5	GAPT	ENSG00000175857	ENST00000511178	processed_transcript	KNOWN	None	26588	None	None	57789562	57792917	1	C5orf29	FLJ33641
5	GAPT	ENSG00000175857	ENST00000318469	protein_coding	KNOWN	CCDS3975	26588	474	157	57790067	57792185	1	C5orf29	FLJ33641
14	RHOJ	ENSG00000126785	ENST00000557447	nonsense_mediated_decay	KNOWN	None	688	462	153	63670832	63759937	1	RASL7B, ARHJ	FLJ14445, TCL
14	RHOJ	ENSG00000126785	ENST00000316754	protein_coding	KNOWN	CCDS9757	688	645	214	63671126	63759937	1	RASL7B, ARHJ	FLJ14445, TCL
14	RHOJ	ENSG00000126785	ENST00000557133	processed_transcript	PUTATIVE	None	688	None	None	63671403	63736044	1	RASL7B, ARHJ	FLJ14445, TCL
14	RHOJ	ENSG00000126785	ENST00000555125	protein_coding	PUTATIVE	None	688	537	178	63671577	63749973	1	RASL7B, ARHJ	FLJ14445, TCL
20	RPL12P11	ENSG00000232493	ENST00000439970	processed_pseudogene	KNOWN	None	15835	None	None	40176061	40176561	1	RPL12L2	dJ661I20.1
8	VCPIP1	ENSG00000175073	ENST00000310421	protein_coding	KNOWN	CCDS6192	30897	3669	1222	67540722	67579452	-1	None	VCIP135, KIAA1850, FLJ23132, DUBA3
20	RNU6-1018P	ENSG00000252386	ENST00000516577	snRNA	KNOWN	None	47981	None	None	40313625	40313730	-1	None	None
15	OAZ2	ENSG00000180304	ENST00000326005	protein_coding	KNOWN	CCDS58372	8096	570	189	64979772	64995480	-1	None	None
15	OAZ2	ENSG00000180304	ENST00000558194	retained_intron	KNOWN	None	8096	None	None	64979775	64988502	-1	None	None
15	OAZ2	ENSG00000180304	ENST00000560258	protein_coding	PUTATIVE	None	8096	390	129	64979803	64995407	-1	None	None
15	OAZ2	ENSG00000180304	ENST00000559753	protein_coding	PUTATIVE	None	8096	183	60	64980684	64995400	-1	None	None
15	OAZ2	ENSG00000180304	ENST00000560837	processed_transcript	KNOWN	None	8096	None	None	64982366	64995393	-1	None	None
15	OAZ2	ENSG00000180304	ENST00000559912	protein_coding	NOVEL	None	8096	409	135	64982619	64995414	-1	None	None
15	OAZ2	ENSG00000180304	ENST00000560781	processed_transcript	KNOWN	None	8096	None	None	64982644	64995417	-1	None	None
15	OAZ2	ENSG00000180304	ENST00000559665	processed_transcript	KNOWN	None	8096	None	None	64982660	64995414	-1	None	None
15	OAZ2	ENSG00000180304	ENST00000559555	processed_transcript	KNOWN	None	8096	None	None	64983633	64992789	-1	None	None
20	None	ENSG00000199287	ENST00000362417	misc_RNA	NOVEL	None	None	None	None	40328260	40328355	-1	None	None
8	C8orf44-SGK3	ENSG00000270024	ENST00000520044	processed_transcript	KNOWN	None	48354	None	None	67579831	67706068	1	None	None
8	C8orf44-SGK3	ENSG00000270024	ENST00000519289	protein_coding	KNOWN	CCDS6195	48354	1491	496	67579851	67772707	1	None	None
9	FOXD4L2	ENSG00000204828	ENST00000377590	protein_coding	KNOWN	CCDS43817	24813	1251	416	42717234	42720342	1	None	OTTHUMG00000066752
14	PPP2R5E	ENSG00000154001	ENST00000337537	protein_coding	KNOWN	CCDS9758	9313	1404	467	63838075	64010092	-1	None	None
14	PPP2R5E	ENSG00000154001	ENST00000555899	protein_coding	NOVEL	None	9313	1389	462	63842479	64010016	-1	None	None
14	PPP2R5E	ENSG00000154001	ENST00000556484	processed_transcript	KNOWN	None	9313	None	None	63842623	63974956	-1	None	None
14	PPP2R5E	ENSG00000154001	ENST00000553266	processed_transcript	KNOWN	None	9313	None	None	63848774	64010072	-1	None	None
14	PPP2R5E	ENSG00000154001	ENST00000556150	processed_transcript	KNOWN	None	9313	None	None	63851249	63920494	-1	None	None
14	PPP2R5E	ENSG00000154001	ENST00000556878	retained_intron	KNOWN	None	9313	None	None	63917992	64010091	-1	None	None
14	PPP2R5E	ENSG00000154001	ENST00000422769	protein_coding	KNOWN	None	9313	1176	391	63842571	63974955	-1	None	None
9	ANKRD20A3	ENSG00000132498	ENST00000417703	nonsense_mediated_decay	KNOWN	None	31981	226	74	43064966	43091472	-1	None	None
9	ANKRD20A3	ENSG00000132498	ENST00000344538	processed_transcript	KNOWN	None	31981	None	None	43074435	43091857	-1	None	None
9	ANKRD20A3	ENSG00000132498	ENST00000592959	processed_transcript	KNOWN	None	31981	None	None	43082799	43091846	-1	None	None
9	ANKRD20A3	ENSG00000132498	ENST00000254835	protein_coding	KNOWN	CCDS35029	31981	2472	823	43089972	43133544	-1	None	None
9	ANKRD20A3	ENSG00000132498	ENST00000473324	processed_transcript	KNOWN	None	31981	None	None	43093621	43099506	-1	None	None
9	ANKRD20A3	ENSG00000132498	ENST00000485255	processed_transcript	KNOWN	None	31981	None	None	43098071	43133363	-1	None	None
8	C8orf44	ENSG00000213865	ENST00000521113	processed_transcript	KNOWN	None	25646	None	None	67579850	67597799	1	None	FLJ11267
8	C8orf44	ENSG00000213865	ENST00000519561	protein_coding	KNOWN	CCDS6193	25646	480	159	67579853	67593393	1	None	FLJ11267
8	C8orf44	ENSG00000213865	ENST00000521889	protein_coding	NOVEL	None	25646	258	85	67579887	67590535	1	None	FLJ11267
8	C8orf44	ENSG00000213865	ENST00000390159	protein_coding	KNOWN	CCDS6193	25646	480	159	67588454	67593235	1	None	FLJ11267
8	C8orf44	ENSG00000213865	ENST00000518860	processed_transcript	KNOWN	None	25646	None	None	67591774	67597795	1	None	FLJ11267
8	SGK3	ENSG00000104205	ENST00000521198	protein_coding	KNOWN	CCDS6195	10812	1491	496	67624653	67773094	1	SGK2, SGKL	None
8	SGK3	ENSG00000104205	ENST00000523401	processed_transcript	KNOWN	None	10812	None	None	67624969	67716682	1	SGK2, SGKL	None
8	SGK3	ENSG00000104205	ENST00000494528	processed_transcript	PUTATIVE	None	10812	None	None	67625012	67649901	1	SGK2, SGKL	None
8	SGK3	ENSG00000104205	ENST00000521960	protein_coding	NOVEL	None	10812	326	107	67687449	67743548	1	SGK2, SGKL	None
8	SGK3	ENSG00000104205	ENST00000522398	protein_coding	KNOWN	CCDS6195	10812	1491	496	67687453	67773075	1	SGK2, SGKL	None
8	SGK3	ENSG00000104205	ENST00000522629	protein_coding	NOVEL	None	10812	449	148	67687459	67748029	1	SGK2, SGKL	None
8	SGK3	ENSG00000104205	ENST00000520976	protein_coding	KNOWN	CCDS6196	10812	1395	464	67687462	67772690	1	SGK2, SGKL	None
8	SGK3	ENSG00000104205	ENST00000518388	protein_coding	PUTATIVE	None	10812	385	127	67687801	67734662	1	SGK2, SGKL	None
8	SGK3	ENSG00000104205	ENST00000345714	protein_coding	KNOWN	CCDS6195	10812	1491	496	67705849	67774257	1	SGK2, SGKL	None
8	SGK3	ENSG00000104205	ENST00000519396	protein_coding	PUTATIVE	None	10812	379	125	67716610	67748301	1	SGK2, SGKL	None
8	SGK3	ENSG00000104205	ENST00000521152	protein_coding	PUTATIVE	None	10812	500	165	67716614	67752305	1	SGK2, SGKL	None
8	SGK3	ENSG00000104205	ENST00000521435	processed_transcript	KNOWN	None	10812	None	None	67752036	67755749	1	SGK2, SGKL	None
8	SGK3	ENSG00000104205	ENST00000523260	processed_transcript	PUTATIVE	None	10812	None	None	67752915	67759490	1	SGK2, SGKL	None
8	SGK3	ENSG00000104205	ENST00000396596	protein_coding	KNOWN	CCDS6195	10812	1491	496	67687462	67774246	1	SGK2, SGKL	None
8	TNFRSF10B	ENSG00000120889	ENST00000523752	retained_intron	KNOWN	None	11905	None	None	22877646	22885481	-1	None	DR5, KILLER, TRICK2A, TRAIL-R2, TRICKB, CD262
8	TNFRSF10B	ENSG00000120889	ENST00000276431	protein_coding	KNOWN	CCDS6035	11905	1323	440	22877646	22926692	-1	None	DR5, KILLER, TRICK2A, TRAIL-R2, TRICKB, CD262
8	TNFRSF10B	ENSG00000120889	ENST00000347739	protein_coding	KNOWN	CCDS6036	11905	1236	411	22879824	22926534	-1	None	DR5, KILLER, TRICK2A, TRAIL-R2, TRICKB, CD262
8	TNFRSF10B	ENSG00000120889	ENST00000523504	nonsense_mediated_decay	KNOWN	None	11905	273	90	22879987	22926544	-1	None	DR5, KILLER, TRICK2A, TRAIL-R2, TRICKB, CD262
8	TNFRSF10B	ENSG00000120889	ENST00000520109	retained_intron	KNOWN	None	11905	None	None	22880399	22885147	-1	None	DR5, KILLER, TRICK2A, TRAIL-R2, TRICKB, CD262
8	TNFRSF10B	ENSG00000120889	ENST00000518531	retained_intron	KNOWN	None	11905	None	None	22885778	22888385	-1	None	DR5, KILLER, TRICK2A, TRAIL-R2, TRICKB, CD262
8	TNFRSF10B	ENSG00000120889	ENST00000519910	processed_transcript	KNOWN	None	11905	None	None	22886053	22907440	-1	None	DR5, KILLER, TRICK2A, TRAIL-R2, TRICKB, CD262
8	TNFRSF10B	ENSG00000120889	ENST00000519028	retained_intron	KNOWN	None	11905	None	None	22900417	22926535	-1	None	DR5, KILLER, TRICK2A, TRAIL-R2, TRICKB, CD262
8	TNFRSF10B	ENSG00000120889	ENST00000542226	protein_coding	KNOWN	None	11905	783	260	22879987	22926544	-1	None	DR5, KILLER, TRICK2A, TRAIL-R2, TRICKB, CD262
15	RBPMS2	ENSG00000166831	ENST00000560606	protein_coding	PUTATIVE	None	19098	297	98	65032091	65053416	-1	None	None
15	RBPMS2	ENSG00000166831	ENST00000300069	protein_coding	KNOWN	CCDS32271	19098	630	209	65032097	65067786	-1	None	None
9	None	ENSG00000203286	ENST00000366116	protein_coding	NOVEL	None	None	312	103	3452305	3469181	-1	None	None
4	THAP6	ENSG00000174796	ENST00000506261	protein_coding	KNOWN	None	23189	240	79	76439156	76442141	1	None	MGC30052
4	THAP6	ENSG00000174796	ENST00000504218	protein_coding	KNOWN	None	23189	98	31	76439428	76441999	1	None	MGC30052
4	THAP6	ENSG00000174796	ENST00000504384	retained_intron	KNOWN	None	23189	None	None	76439648	76442930	1	None	MGC30052
4	THAP6	ENSG00000174796	ENST00000507557	protein_coding	PUTATIVE	None	23189	270	89	76439654	76469650	1	None	MGC30052
4	THAP6	ENSG00000174796	ENST00000508105	protein_coding	PUTATIVE	None	23189	336	111	76439683	76447792	1	None	MGC30052
4	THAP6	ENSG00000174796	ENST00000311638	protein_coding	KNOWN	CCDS3568	23189	669	222	76439683	76455236	1	None	MGC30052
4	THAP6	ENSG00000174796	ENST00000380837	protein_coding	NOVEL	None	23189	543	180	76439683	76455236	1	None	MGC30052
4	THAP6	ENSG00000174796	ENST00000507556	protein_coding	PUTATIVE	None	23189	483	160	76439683	76468169	1	None	MGC30052
4	THAP6	ENSG00000174796	ENST00000504190	protein_coding	PUTATIVE	None	23189	234	77	76439683	76468265	1	None	MGC30052
4	THAP6	ENSG00000174796	ENST00000507885	protein_coding	PUTATIVE	None	23189	360	119	76439683	76469872	1	None	MGC30052
4	THAP6	ENSG00000174796	ENST00000502620	protein_coding	PUTATIVE	None	23189	297	98	76439689	76475683	1	None	MGC30052
4	THAP6	ENSG00000174796	ENST00000503831	retained_intron	KNOWN	None	23189	None	None	76439699	76447260	1	None	MGC30052
4	THAP6	ENSG00000174796	ENST00000514480	protein_coding	KNOWN	CCDS3568	23189	669	222	76439730	76452424	1	None	MGC30052
9	GLIS3	ENSG00000107249	ENST00000324333	protein_coding	KNOWN	CCDS6451	28510	2328	775	3824127	4152183	-1	ZNF515	MGC33662
9	GLIS3	ENSG00000107249	ENST00000461870	processed_transcript	KNOWN	None	28510	None	None	3825255	3975199	-1	ZNF515	MGC33662
9	GLIS3	ENSG00000107249	ENST00000381971	protein_coding	KNOWN	CCDS43784	28510	2793	930	3827698	4299916	-1	ZNF515	MGC33662
9	GLIS3	ENSG00000107249	ENST00000467497	retained_intron	KNOWN	None	28510	None	None	3855437	4118017	-1	ZNF515	MGC33662
9	GLIS3	ENSG00000107249	ENST00000463680	retained_intron	KNOWN	None	28510	None	None	3898254	3937189	-1	ZNF515	MGC33662
9	GLIS3	ENSG00000107249	ENST00000464391	processed_transcript	KNOWN	None	28510	None	None	3932360	4081361	-1	ZNF515	MGC33662
9	GLIS3	ENSG00000107249	ENST00000469833	processed_transcript	KNOWN	None	28510	None	None	3937094	4035998	-1	ZNF515	MGC33662
9	GLIS3	ENSG00000107249	ENST00000490709	processed_transcript	KNOWN	None	28510	None	None	4118530	4299836	-1	ZNF515	MGC33662
9	GLIS3	ENSG00000107249	ENST00000473846	processed_transcript	KNOWN	None	28510	None	None	4118745	4145193	-1	ZNF515	MGC33662
9	GLIS3	ENSG00000107249	ENST00000462164	protein_coding	KNOWN	None	28510	268	88	4118745	4145193	-1	ZNF515	MGC33662
9	GLIS3	ENSG00000107249	ENST00000478315	protein_coding	KNOWN	None	28510	268	88	4118745	4147644	-1	ZNF515	MGC33662
9	GLIS3	ENSG00000107249	ENST00000478844	protein_coding	KNOWN	None	28510	268	88	4118745	4298496	-1	ZNF515	MGC33662
9	GLIS3	ENSG00000107249	ENST00000481827	protein_coding	KNOWN	None	28510	733	243	4118745	4298496	-1	ZNF515	MGC33662
9	GLIS3	ENSG00000107249	ENST00000491889	nonsense_mediated_decay	KNOWN	None	28510	429	142	4118745	4299594	-1	ZNF515	MGC33662
9	GLIS3	ENSG00000107249	ENST00000477901	protein_coding	KNOWN	None	28510	733	243	4118745	4299916	-1	ZNF515	MGC33662
9	GLIS3	ENSG00000107249	ENST00000465708	retained_intron	KNOWN	None	28510	None	None	4285539	4299916	-1	ZNF515	MGC33662
9	GLIS3	ENSG00000107249	ENST00000471664	processed_transcript	KNOWN	None	28510	None	None	4285539	4348392	-1	ZNF515	MGC33662
19	NFIC	ENSG00000141905	ENST00000589123	protein_coding	KNOWN	CCDS45914	7786	1500	499	3359561	3469215	1	NFI	CTF, NF-I, CTF5
19	NFIC	ENSG00000141905	ENST00000395111	protein_coding	KNOWN	CCDS58640	7786	1293	430	3359645	3463140	1	NFI	CTF, NF-I, CTF5
19	NFIC	ENSG00000141905	ENST00000586919	protein_coding	PUTATIVE	None	7786	1221	406	3359681	3456598	1	NFI	CTF, NF-I, CTF5
19	NFIC	ENSG00000141905	ENST00000341919	protein_coding	KNOWN	CCDS12107	7786	1287	428	3366547	3462965	1	NFI	CTF, NF-I, CTF5
19	NFIC	ENSG00000141905	ENST00000590282	protein_coding	NOVEL	CCDS59331	7786	1320	439	3366581	3462898	1	NFI	CTF, NF-I, CTF5
19	NFIC	ENSG00000141905	ENST00000443272	protein_coding	KNOWN	CCDS59330	7786	1527	508	3366584	3462905	1	NFI	CTF, NF-I, CTF5
19	NFIC	ENSG00000141905	ENST00000588839	processed_transcript	KNOWN	None	7786	None	None	3410594	3425145	1	NFI	CTF, NF-I, CTF5
19	NFIC	ENSG00000141905	ENST00000589537	retained_intron	KNOWN	None	7786	None	None	3435044	3463253	1	NFI	CTF, NF-I, CTF5
19	NFIC	ENSG00000141905	ENST00000589164	processed_transcript	KNOWN	None	7786	None	None	3452577	3457987	1	NFI	CTF, NF-I, CTF5
19	NFIC	ENSG00000141905	ENST00000589969	retained_intron	KNOWN	None	7786	None	None	3452639	3454348	1	NFI	CTF, NF-I, CTF5
19	NFIC	ENSG00000141905	ENST00000346156	protein_coding	KNOWN	None	7786	1221	406	3359616	3463603	1	NFI	CTF, NF-I, CTF5
15	PIF1	ENSG00000140451	ENST00000268043	protein_coding	KNOWN	CCDS10195	26220	1926	641	65107831	65117867	-1	C15orf20	FLJ22692
15	PIF1	ENSG00000140451	ENST00000333425	protein_coding	KNOWN	None	26220	2124	707	65107831	65117867	-1	C15orf20	FLJ22692
15	PIF1	ENSG00000140451	ENST00000559239	protein_coding	KNOWN	CCDS10195	26220	1926	641	65107836	65117838	-1	C15orf20	FLJ22692
15	PIF1	ENSG00000140451	ENST00000559872	retained_intron	KNOWN	None	26220	None	None	65108851	65113330	-1	C15orf20	FLJ22692
15	PIF1	ENSG00000140451	ENST00000559522	retained_intron	KNOWN	None	26220	None	None	65110209	65111023	-1	C15orf20	FLJ22692
15	PIF1	ENSG00000140451	ENST00000558380	retained_intron	KNOWN	None	26220	None	None	65111236	65113656	-1	C15orf20	FLJ22692
15	PIF1	ENSG00000140451	ENST00000558547	retained_intron	KNOWN	None	26220	None	None	65113266	65113618	-1	C15orf20	FLJ22692
15	PIF1	ENSG00000140451	ENST00000560444	retained_intron	KNOWN	None	26220	None	None	65113789	65117824	-1	C15orf20	FLJ22692
15	PIF1	ENSG00000140451	ENST00000560504	retained_intron	KNOWN	None	26220	None	None	65115465	65117816	-1	C15orf20	FLJ22692
X	MAGEA3	ENSG00000221867	ENST00000370278	protein_coding	KNOWN	CCDS14715	6801	945	314	151934652	151938240	-1	MAGE3	HYPD, HIP8, MGC14613, CT1.3
X	MAGEA3	ENSG00000221867	ENST00000417212	protein_coding	KNOWN	None	6801	595	197	151935572	151938225	-1	MAGE3	HYPD, HIP8, MGC14613, CT1.3
X	MAGEA3	ENSG00000221867	ENST00000393902	protein_coding	KNOWN	CCDS14715	6801	945	314	151934653	151938171	-1	MAGE3	HYPD, HIP8, MGC14613, CT1.3
X	RAB9B	ENSG00000123570	ENST00000243298	protein_coding	KNOWN	CCDS14515	14090	606	201	103077252	103087158	-1	None	RAB9L
X	TMSB15B	ENSG00000158427	ENST00000419165	protein_coding	KNOWN	CCDS59172	28612	138	45	103173479	103220554	1	None	MGC39900
X	TMSB15B	ENSG00000158427	ENST00000455723	processed_transcript	KNOWN	None	28612	None	None	103173770	103187485	1	None	MGC39900
X	TMSB15B	ENSG00000158427	ENST00000563257	protein_coding	PUTATIVE	None	28612	138	45	103217214	103221285	1	None	MGC39900
X	TMSB15B	ENSG00000158427	ENST00000436583	protein_coding	KNOWN	CCDS59172	28612	138	45	103217242	103220554	1	None	MGC39900
X	TMSB15B	ENSG00000158427	ENST00000567181	protein_coding	PUTATIVE	None	28612	243	80	103217242	103229570	1	None	MGC39900
X	TMSB15B	ENSG00000158427	ENST00000569577	protein_coding	KNOWN	CCDS59172	28612	138	45	103217248	103220541	1	None	MGC39900
X	TMSB15B	ENSG00000158427	ENST00000540220	protein_coding	KNOWN	CCDS59172	28612	138	45	103217224	103220868	1	None	MGC39900
4	SMIM20	ENSG00000250317	ENST00000515764	processed_transcript	KNOWN	None	37260	None	None	25863452	25931167	1	C4orf52	None
4	SMIM20	ENSG00000250317	ENST00000506197	protein_coding	KNOWN	CCDS47038	37260	204	67	25915826	25931434	1	C4orf52	None
4	SMIM20	ENSG00000250317	ENST00000514384	protein_coding	NOVEL	None	37260	147	48	25915931	25931435	1	C4orf52	None
4	SMIM20	ENSG00000250317	ENST00000522137	processed_transcript	KNOWN	None	37260	None	None	25929837	25931047	1	C4orf52	None
X	CETN2	ENSG00000147400	ENST00000370277	protein_coding	KNOWN	CCDS14716	1867	519	172	151995517	151999321	-1	CALT	CEN2
X	CETN2	ENSG00000147400	ENST00000493482	processed_transcript	KNOWN	None	1867	None	None	151996354	151998241	-1	CALT	CEN2
9	None	ENSG00000232866	ENST00000377437	protein_coding	NOVEL	None	None	420	139	43135095	43135514	1	None	None
9	SPATA31A6	ENSG00000185775	ENST00000332857	protein_coding	KNOWN	CCDS47973	32006	4032	1343	43624507	43630730	-1	FAM75A6	OTTHUMG00000013224
9	SPATA31A6	ENSG00000185775	ENST00000496386	processed_transcript	KNOWN	None	32006	None	None	43627769	43629117	-1	FAM75A6	OTTHUMG00000013224
X	NSDHL	ENSG00000147383	ENST00000370274	protein_coding	KNOWN	CCDS14717	13398	1122	373	151999511	152038273	1	None	XAP104, H105e3, SDR31E1
X	NSDHL	ENSG00000147383	ENST00000432467	protein_coding	KNOWN	None	13398	763	253	151999541	152036191	1	None	XAP104, H105e3, SDR31E1
X	NSDHL	ENSG00000147383	ENST00000440023	protein_coding	KNOWN	CCDS14717	13398	1122	373	151999511	152037907	1	None	XAP104, H105e3, SDR31E1
20	None	ENSG00000212224	ENST00000390922	snoRNA	NOVEL	None	None	None	None	40341118	40341239	-1	None	None
20	None	ENSG00000225458	ENST00000431589	antisense	KNOWN	None	None	None	None	40619780	40692609	1	None	None
4	RBPJ	ENSG00000168214	ENST00000512351	protein_coding	KNOWN	None	5724	283	93	26165077	26417227	1	IGKJRB1, RBPSUH	SUH, IGKJRB, RBPJK, KBF2, RBP-J, CBF1
4	RBPJ	ENSG00000168214	ENST00000510778	protein_coding	PUTATIVE	None	5724	689	228	26274229	26426048	1	IGKJRB1, RBPSUH	SUH, IGKJRB, RBPJK, KBF2, RBP-J, CBF1
4	RBPJ	ENSG00000168214	ENST00000506956	protein_coding	KNOWN	None	5724	291	96	26321284	26417235	1	IGKJRB1, RBPSUH	SUH, IGKJRB, RBPJK, KBF2, RBP-J, CBF1
4	RBPJ	ENSG00000168214	ENST00000512671	protein_coding	KNOWN	None	5724	535	177	26321308	26422347	1	IGKJRB1, RBPSUH	SUH, IGKJRB, RBPJK, KBF2, RBP-J, CBF1
4	RBPJ	ENSG00000168214	ENST00000345843	protein_coding	KNOWN	CCDS3436	5724	1458	485	26321332	26432688	1	IGKJRB1, RBPSUH	SUH, IGKJRB, RBPJK, KBF2, RBP-J, CBF1
4	RBPJ	ENSG00000168214	ENST00000361572	protein_coding	KNOWN	CCDS3437	5724	1503	500	26322185	26432629	1	IGKJRB1, RBPSUH	SUH, IGKJRB, RBPJK, KBF2, RBP-J, CBF1
4	RBPJ	ENSG00000168214	ENST00000514380	retained_intron	KNOWN	None	5724	None	None	26322347	26432079	1	IGKJRB1, RBPSUH	SUH, IGKJRB, RBPJK, KBF2, RBP-J, CBF1
4	RBPJ	ENSG00000168214	ENST00000514807	protein_coding	KNOWN	None	5724	145	47	26322409	26407885	1	IGKJRB1, RBPSUH	SUH, IGKJRB, RBPJK, KBF2, RBP-J, CBF1
4	RBPJ	ENSG00000168214	ENST00000348160	protein_coding	KNOWN	CCDS43219	5724	1464	487	26322422	26432688	1	IGKJRB1, RBPSUH	SUH, IGKJRB, RBPJK, KBF2, RBP-J, CBF1
4	RBPJ	ENSG00000168214	ENST00000509158	protein_coding	KNOWN	None	5724	147	48	26322429	26407887	1	IGKJRB1, RBPSUH	SUH, IGKJRB, RBPJK, KBF2, RBP-J, CBF1
4	RBPJ	ENSG00000168214	ENST00000513182	nonsense_mediated_decay	KNOWN	None	5724	162	53	26322629	26417205	1	IGKJRB1, RBPSUH	SUH, IGKJRB, RBPJK, KBF2, RBP-J, CBF1
4	RBPJ	ENSG00000168214	ENST00000511401	processed_transcript	KNOWN	None	5724	None	None	26322636	26417262	1	IGKJRB1, RBPSUH	SUH, IGKJRB, RBPJK, KBF2, RBP-J, CBF1
4	RBPJ	ENSG00000168214	ENST00000515023	processed_transcript	KNOWN	None	5724	None	None	26322642	26417262	1	IGKJRB1, RBPSUH	SUH, IGKJRB, RBPJK, KBF2, RBP-J, CBF1
4	RBPJ	ENSG00000168214	ENST00000505958	protein_coding	KNOWN	None	5724	85	27	26322987	26407825	1	IGKJRB1, RBPSUH	SUH, IGKJRB, RBPJK, KBF2, RBP-J, CBF1
4	RBPJ	ENSG00000168214	ENST00000507561	protein_coding	KNOWN	None	5724	1398	465	26323224	26432805	1	IGKJRB1, RBPSUH	SUH, IGKJRB, RBPJK, KBF2, RBP-J, CBF1
4	RBPJ	ENSG00000168214	ENST00000514730	protein_coding	KNOWN	None	5724	339	112	26323786	26422193	1	IGKJRB1, RBPSUH	SUH, IGKJRB, RBPJK, KBF2, RBP-J, CBF1
4	RBPJ	ENSG00000168214	ENST00000507574	protein_coding	KNOWN	None	5724	472	156	26323831	26426005	1	IGKJRB1, RBPSUH	SUH, IGKJRB, RBPJK, KBF2, RBP-J, CBF1
4	RBPJ	ENSG00000168214	ENST00000514675	protein_coding	KNOWN	None	5724	331	109	26324492	26422185	1	IGKJRB1, RBPSUH	SUH, IGKJRB, RBPJK, KBF2, RBP-J, CBF1
4	RBPJ	ENSG00000168214	ENST00000515573	protein_coding	KNOWN	None	5724	568	188	26344762	26426101	1	IGKJRB1, RBPSUH	SUH, IGKJRB, RBPJK, KBF2, RBP-J, CBF1
4	RBPJ	ENSG00000168214	ENST00000511546	protein_coding	KNOWN	None	5724	321	106	26361313	26422175	1	IGKJRB1, RBPSUH	SUH, IGKJRB, RBPJK, KBF2, RBP-J, CBF1
4	RBPJ	ENSG00000168214	ENST00000504907	protein_coding	PUTATIVE	None	5724	1149	382	26364058	26432778	1	IGKJRB1, RBPSUH	SUH, IGKJRB, RBPJK, KBF2, RBP-J, CBF1
4	RBPJ	ENSG00000168214	ENST00000342320	protein_coding	KNOWN	CCDS33969	5724	1461	486	26364058	26436541	1	IGKJRB1, RBPSUH	SUH, IGKJRB, RBPJK, KBF2, RBP-J, CBF1
4	RBPJ	ENSG00000168214	ENST00000514656	processed_transcript	PUTATIVE	None	5724	None	None	26364068	26369767	1	IGKJRB1, RBPSUH	SUH, IGKJRB, RBPJK, KBF2, RBP-J, CBF1
4	RBPJ	ENSG00000168214	ENST00000511451	retained_intron	KNOWN	None	5724	None	None	26364098	26422460	1	IGKJRB1, RBPSUH	SUH, IGKJRB, RBPJK, KBF2, RBP-J, CBF1
4	RBPJ	ENSG00000168214	ENST00000504938	protein_coding	KNOWN	None	5724	430	142	26364152	26422347	1	IGKJRB1, RBPSUH	SUH, IGKJRB, RBPJK, KBF2, RBP-J, CBF1
4	RBPJ	ENSG00000168214	ENST00000506903	retained_intron	KNOWN	None	5724	None	None	26422192	26426616	1	IGKJRB1, RBPSUH	SUH, IGKJRB, RBPJK, KBF2, RBP-J, CBF1
4	RBPJ	ENSG00000168214	ENST00000510725	retained_intron	KNOWN	None	5724	None	None	26430235	26431817	1	IGKJRB1, RBPSUH	SUH, IGKJRB, RBPJK, KBF2, RBP-J, CBF1
4	RBPJ	ENSG00000168214	ENST00000504423	protein_coding	NOVEL	None	5724	405	134	26430342	26432473	1	IGKJRB1, RBPSUH	SUH, IGKJRB, RBPJK, KBF2, RBP-J, CBF1
4	RBPJ	ENSG00000168214	ENST00000505727	retained_intron	KNOWN	None	5724	None	None	26431768	26432796	1	IGKJRB1, RBPSUH	SUH, IGKJRB, RBPJK, KBF2, RBP-J, CBF1
4	RBPJ	ENSG00000168214	ENST00000342295	protein_coding	KNOWN	CCDS3437	5724	1503	500	26321332	26433278	1	IGKJRB1, RBPSUH	SUH, IGKJRB, RBPJK, KBF2, RBP-J, CBF1
4	RBPJ	ENSG00000168214	ENST00000355476	protein_coding	KNOWN	CCDS33969	5724	1461	486	26322448	26433278	1	IGKJRB1, RBPSUH	SUH, IGKJRB, RBPJK, KBF2, RBP-J, CBF1
20	None	ENSG00000223651	ENST00000432563	processed_pseudogene	KNOWN	None	None	None	None	40625771	40628037	-1	None	None
X	H2BFWT	ENSG00000123569	ENST00000217926	protein_coding	KNOWN	CCDS35362	27252	528	175	103265719	103268259	-1	None	None
14	WDR89	ENSG00000140006	ENST00000394942	protein_coding	KNOWN	CCDS9759	20489	1164	387	64063757	64108579	-1	C14orf150	MGC9907
14	WDR89	ENSG00000140006	ENST00000267522	protein_coding	KNOWN	CCDS9759	20489	1164	387	64065220	64108125	-1	C14orf150	MGC9907
14	WDR89	ENSG00000140006	ENST00000554717	protein_coding	PUTATIVE	None	20489	680	225	64065981	64108571	-1	C14orf150	MGC9907
X	H2BFM	ENSG00000101812	ENST00000355016	protein_coding	NOVEL	CCDS55468	27867	465	154	103294516	103297021	1	None	None
X	H2BFM	ENSG00000101812	ENST00000417637	protein_coding	NOVEL	None	27867	159	52	103294850	103297021	1	None	None
X	H2BFM	ENSG00000101812	ENST00000243297	protein_coding	KNOWN	None	27867	774	257	103268269	103297020	1	None	None
14	SGPP1	ENSG00000126821	ENST00000247225	protein_coding	KNOWN	CCDS9760	17720	1326	441	64150932	64194757	-1	None	None
5	None	ENSG00000250127	ENST00000504333	protein_coding	PUTATIVE	None	None	363	120	57837394	57854070	-1	None	None
9	CNTNAP3B	ENSG00000154529	ENST00000377564	protein_coding	KNOWN	CCDS55312	32035	3867	1288	43684902	43924049	1	None	None
9	CNTNAP3B	ENSG00000154529	ENST00000276974	protein_coding	KNOWN	None	32035	1143	380	43684910	43821362	1	None	None
9	CNTNAP3B	ENSG00000154529	ENST00000341990	retained_intron	KNOWN	None	32035	None	None	43685063	43876326	1	None	None
9	CNTNAP3B	ENSG00000154529	ENST00000479351	nonsense_mediated_decay	KNOWN	None	32035	1818	605	43685063	43890529	1	None	None
9	CNTNAP3B	ENSG00000154529	ENST00000377561	retained_intron	KNOWN	None	32035	None	None	43685149	43909293	1	None	None
9	CNTNAP3B	ENSG00000154529	ENST00000491438	processed_transcript	KNOWN	None	32035	None	None	43853497	43854386	1	None	None
9	CNTNAP3B	ENSG00000154529	ENST00000489789	retained_intron	KNOWN	None	32035	None	None	43884945	43890520	1	None	None
9	CNTNAP3B	ENSG00000154529	ENST00000476961	processed_transcript	KNOWN	None	32035	None	None	43905778	43920585	1	None	None
9	CNTNAP3B	ENSG00000154529	ENST00000480466	processed_transcript	KNOWN	None	32035	None	None	43907407	43909438	1	None	None
9	CNTNAP3B	ENSG00000154529	ENST00000484254	processed_transcript	KNOWN	None	32035	None	None	43908051	43915863	1	None	None
9	CNTNAP3B	ENSG00000154529	ENST00000467854	processed_transcript	KNOWN	None	32035	None	None	43914415	43915887	1	None	None
8	MCMDC2	ENSG00000178460	ENST00000396592	protein_coding	KNOWN	CCDS47869	26368	1773	590	67782984	67814016	1	C8orf45	FLJ25692
8	MCMDC2	ENSG00000178460	ENST00000422365	protein_coding	KNOWN	CCDS6197	26368	2046	681	67782984	67834283	1	C8orf45	FLJ25692
8	MCMDC2	ENSG00000178460	ENST00000428734	nonsense_mediated_decay	KNOWN	None	26368	129	42	67783006	67831570	1	C8orf45	FLJ25692
8	MCMDC2	ENSG00000178460	ENST00000492775	protein_coding	NOVEL	None	26368	1107	368	67783025	67796857	1	C8orf45	FLJ25692
8	MCMDC2	ENSG00000178460	ENST00000469823	processed_transcript	KNOWN	None	26368	None	None	67783033	67790962	1	C8orf45	FLJ25692
8	MCMDC2	ENSG00000178460	ENST00000313616	protein_coding	KNOWN	CCDS47868	26368	1899	632	67783737	67817598	1	C8orf45	FLJ25692
8	MCMDC2	ENSG00000178460	ENST00000415737	nonsense_mediated_decay	KNOWN	None	26368	192	63	67786283	67831817	1	C8orf45	FLJ25692
8	MCMDC2	ENSG00000178460	ENST00000541540	protein_coding	KNOWN	None	26368	1857	618	67786449	67834282	1	C8orf45	FLJ25692
5	RAB3C	ENSG00000152932	ENST00000513316	processed_transcript	KNOWN	None	30269	None	None	57878048	57913698	1	None	None
5	RAB3C	ENSG00000152932	ENST00000282878	protein_coding	KNOWN	CCDS3976	30269	684	227	57878867	58155213	1	None	None
5	RAB3C	ENSG00000152932	ENST00000507977	processed_transcript	KNOWN	None	30269	None	None	57940191	58090358	1	None	None
5	RAB3C	ENSG00000152932	ENST00000381158	processed_transcript	KNOWN	None	30269	None	None	58084106	58147354	1	None	None
X	MED14	ENSG00000180182	ENST00000324817	protein_coding	KNOWN	CCDS14254	2370	4365	1454	40507558	40594783	-1	CXorf4, CRSP2	EXLM1, CRSP150, TRAP170, RGR1, CSRP
X	MED14	ENSG00000180182	ENST00000416199	protein_coding	KNOWN	None	2370	468	155	40508795	40518586	-1	CXorf4, CRSP2	EXLM1, CRSP150, TRAP170, RGR1, CSRP
X	MED14	ENSG00000180182	ENST00000433003	protein_coding	KNOWN	None	2370	996	331	40513124	40523703	-1	CXorf4, CRSP2	EXLM1, CRSP150, TRAP170, RGR1, CSRP
X	MED14	ENSG00000180182	ENST00000472736	processed_transcript	KNOWN	None	2370	None	None	40518479	40519071	-1	CXorf4, CRSP2	EXLM1, CRSP150, TRAP170, RGR1, CSRP
X	MED14	ENSG00000180182	ENST00000496531	processed_transcript	KNOWN	None	2370	None	None	40531179	40542165	-1	CXorf4, CRSP2	EXLM1, CRSP150, TRAP170, RGR1, CSRP
X	MED14	ENSG00000180182	ENST00000482034	processed_transcript	KNOWN	None	2370	None	None	40573084	40595110	-1	CXorf4, CRSP2	EXLM1, CRSP150, TRAP170, RGR1, CSRP
X	MED14	ENSG00000180182	ENST00000492219	processed_transcript	KNOWN	None	2370	None	None	40573130	40574303	-1	CXorf4, CRSP2	EXLM1, CRSP150, TRAP170, RGR1, CSRP
X	MED14	ENSG00000180182	ENST00000495865	processed_transcript	KNOWN	None	2370	None	None	40585707	40594550	-1	CXorf4, CRSP2	EXLM1, CRSP150, TRAP170, RGR1, CSRP
X	MED14	ENSG00000180182	ENST00000463072	processed_transcript	KNOWN	None	2370	None	None	40585780	40588792	-1	CXorf4, CRSP2	EXLM1, CRSP150, TRAP170, RGR1, CSRP
X	SLC25A53	ENSG00000176274	ENST00000357421	protein_coding	KNOWN	CCDS35363	31894	924	307	103343898	103401708	-1	MCART6	None
X	SLC25A53	ENSG00000176274	ENST00000467290	processed_transcript	KNOWN	None	31894	None	None	103375285	103401669	-1	MCART6	None
9	TNFSF15	ENSG00000181634	ENST00000374045	protein_coding	KNOWN	CCDS6809	11931	756	251	117546915	117568406	-1	None	TL1, VEGI, TL1A, VEGI192A, MGC129934, MGC129935
9	TNFSF15	ENSG00000181634	ENST00000374044	protein_coding	KNOWN	None	11931	525	174	117551600	117554388	-1	None	TL1, VEGI, TL1A, VEGI192A, MGC129934, MGC129935
8	TAF2	ENSG00000064313	ENST00000378164	protein_coding	KNOWN	CCDS34937	11536	3600	1199	120743015	120845103	-1	TAF2B	TAFII150, CIF150
8	TAF2	ENSG00000064313	ENST00000529653	protein_coding	NOVEL	None	11536	1128	375	120744055	120772908	-1	TAF2B	TAFII150, CIF150
8	TAF2	ENSG00000064313	ENST00000526969	retained_intron	KNOWN	None	11536	None	None	120744302	120756826	-1	TAF2B	TAFII150, CIF150
8	TAF2	ENSG00000064313	ENST00000519355	processed_transcript	KNOWN	None	11536	None	None	120759106	120779368	-1	TAF2B	TAFII150, CIF150
8	TAF2	ENSG00000064313	ENST00000523078	retained_intron	KNOWN	None	11536	None	None	120768296	120775148	-1	TAF2B	TAFII150, CIF150
8	TAF2	ENSG00000064313	ENST00000523098	nonsense_mediated_decay	KNOWN	None	11536	202	66	120772695	120774774	-1	TAF2B	TAFII150, CIF150
8	TAF2	ENSG00000064313	ENST00000523904	protein_coding	NOVEL	None	11536	855	284	120800594	120810070	-1	TAF2B	TAFII150, CIF150
8	TAF2	ENSG00000064313	ENST00000523734	retained_intron	KNOWN	None	11536	None	None	120801919	120804114	-1	TAF2B	TAFII150, CIF150
8	TAF2	ENSG00000064313	ENST00000521007	nonsense_mediated_decay	KNOWN	None	11536	183	60	120816201	120845074	-1	TAF2B	TAFII150, CIF150
20	None	ENSG00000228959	ENST00000412348	lincRNA	KNOWN	None	None	None	None	40642674	40644118	-1	None	None
4	GAB1	ENSG00000109458	ENST00000262995	protein_coding	KNOWN	CCDS3760	4066	2175	724	144257915	144395721	1	None	None
4	GAB1	ENSG00000109458	ENST00000262994	protein_coding	KNOWN	CCDS3759	4066	2085	694	144258040	144390603	1	None	None
4	GAB1	ENSG00000109458	ENST00000514639	protein_coding	NOVEL	None	4066	717	238	144258331	144359194	1	None	None
4	GAB1	ENSG00000109458	ENST00000515366	protein_coding	PUTATIVE	None	4066	145	47	144297978	144354730	1	None	None
4	GAB1	ENSG00000109458	ENST00000505913	protein_coding	PUTATIVE	None	4066	1776	591	144303098	144390720	1	None	None
4	GAB1	ENSG00000109458	ENST00000515388	processed_transcript	KNOWN	None	4066	None	None	144303101	144316873	1	None	None
4	GAB1	ENSG00000109458	ENST00000509992	protein_coding	PUTATIVE	None	4066	530	175	144312663	144354869	1	None	None
4	GAB1	ENSG00000109458	ENST00000511836	nonsense_mediated_decay	KNOWN	None	4066	283	93	144336662	144354833	1	None	None
4	GAB1	ENSG00000109458	ENST00000512843	protein_coding	PUTATIVE	None	4066	275	90	144354644	144390560	1	None	None
4	GAB1	ENSG00000109458	ENST00000507334	retained_intron	KNOWN	None	4066	None	None	144359410	144361169	1	None	None
4	GAB1	ENSG00000109458	ENST00000507070	retained_intron	KNOWN	None	4066	None	None	144360803	144380582	1	None	None
4	GAB1	ENSG00000109458	ENST00000510615	retained_intron	KNOWN	None	4066	None	None	144360826	144380586	1	None	None
4	GAB1	ENSG00000109458	ENST00000508833	processed_transcript	KNOWN	None	4066	None	None	144361326	144387328	1	None	None
4	GAB1	ENSG00000109458	ENST00000511109	retained_intron	KNOWN	None	4066	None	None	144387150	144390792	1	None	None
20	None	ENSG00000229892	ENST00000446195	processed_pseudogene	KNOWN	None	None	None	None	41235334	41236199	1	None	None
15	PHGR1	ENSG00000233041	ENST00000560745	retained_intron	KNOWN	None	37226	None	None	40643234	40645973	1	None	None
15	PHGR1	ENSG00000233041	ENST00000448599	protein_coding	KNOWN	CCDS45225	37226	249	82	40643234	40648635	1	None	None
20	None	ENSG00000229042	ENST00000457704	processed_transcript	KNOWN	None	None	None	None	41314123	41316285	1	None	None
14	TRIP11	ENSG00000100815	ENST00000267622	protein_coding	KNOWN	CCDS9899	12305	5940	1979	92432335	92506403	-1	None	CEV14, Trip230, GMAP-210
14	TRIP11	ENSG00000100815	ENST00000554357	protein_coding	NOVEL	None	12305	5086	1694	92435857	92482095	-1	None	CEV14, Trip230, GMAP-210
14	TRIP11	ENSG00000100815	ENST00000557017	nonsense_mediated_decay	KNOWN	None	12305	531	176	92441516	92465723	-1	None	CEV14, Trip230, GMAP-210
14	TRIP11	ENSG00000100815	ENST00000555516	protein_coding	PUTATIVE	None	12305	203	66	92482177	92507240	-1	None	CEV14, Trip230, GMAP-210
14	TRIP11	ENSG00000100815	ENST00000555105	processed_transcript	PUTATIVE	None	12305	None	None	92496885	92506361	-1	None	CEV14, Trip230, GMAP-210
20	None	ENSG00000227599	ENST00000412519	antisense	KNOWN	None	None	None	None	41597383	41600132	1	None	None
15	DISP2	ENSG00000140323	ENST00000267889	protein_coding	KNOWN	CCDS10056	19712	4206	1401	40650436	40663257	1	None	DISPB, KIAA1742, HsT16908
15	DISP2	ENSG00000140323	ENST00000559721	retained_intron	KNOWN	None	19712	None	None	40657208	40657895	1	None	DISPB, KIAA1742, HsT16908
15	DISP2	ENSG00000140323	ENST00000558623	protein_coding	PUTATIVE	None	19712	110	35	40662056	40663257	1	None	DISPB, KIAA1742, HsT16908
20	RN7SKP100	ENSG00000223190	ENST00000411258	misc_RNA	KNOWN	None	45824	None	None	41691966	41692249	1	None	None
20	None	ENSG00000233508	ENST00000430025	antisense	KNOWN	None	None	None	None	41818862	41830011	1	None	None
20	RN7SL666P	ENSG00000240639	ENST00000460953	misc_RNA	KNOWN	None	46682	None	None	41850846	41851147	1	None	None
20	PPIAP21	ENSG00000226038	ENST00000464473	processed_pseudogene	KNOWN	None	16246	None	None	41859400	41859900	1	PPIAL	dJ269M15.1
20	PPIAP21	ENSG00000226038	ENST00000403264	processed_pseudogene	KNOWN	None	16246	None	None	41859400	41859897	1	PPIAL	dJ269M15.1
4	C4orf26	ENSG00000174792	ENST00000514064	processed_transcript	KNOWN	None	26300	None	None	76481258	76488532	1	None	FLJ23657
4	C4orf26	ENSG00000174792	ENST00000511093	nonsense_mediated_decay	KNOWN	None	26300	123	40	76481258	76489855	1	None	FLJ23657
4	C4orf26	ENSG00000174792	ENST00000311623	protein_coding	KNOWN	CCDS3569	26300	393	130	76481258	76491095	1	None	FLJ23657
4	C4orf26	ENSG00000174792	ENST00000435974	protein_coding	PUTATIVE	CCDS56334	26300	531	176	76481275	76489754	1	None	FLJ23657
20	None	ENSG00000252193	ENST00000516384	snoRNA	NOVEL	None	None	None	None	41933195	41933319	1	None	None
20	None	ENSG00000237555	ENST00000443304	processed_pseudogene	KNOWN	None	None	None	None	42017282	42017681	-1	None	None
20	RNU6-743P	ENSG00000201021	ENST00000364151	snRNA	KNOWN	None	47706	None	None	42034113	42034218	1	None	None
14	SYNE2	ENSG00000054654	ENST00000344113	protein_coding	KNOWN	CCDS41963	17084	20658	6885	64319701	64693151	1	None	SYNE-2, DKFZP434H2235, Nesprin-2, NUANCE, NUA, KIAA1011, Nesp2
14	SYNE2	ENSG00000054654	ENST00000341472	protein_coding	NOVEL	None	17084	858	285	64319710	64427595	1	None	SYNE-2, DKFZP434H2235, Nesprin-2, NUANCE, NUA, KIAA1011, Nesp2
14	SYNE2	ENSG00000054654	ENST00000556725	processed_transcript	PUTATIVE	None	17084	None	None	64331106	64340724	1	None	SYNE-2, DKFZP434H2235, Nesprin-2, NUANCE, NUA, KIAA1011, Nesp2
14	SYNE2	ENSG00000054654	ENST00000554584	protein_coding	NOVEL	None	17084	20457	6818	64375816	64692282	1	None	SYNE-2, DKFZP434H2235, Nesprin-2, NUANCE, NUA, KIAA1011, Nesp2
14	SYNE2	ENSG00000054654	ENST00000557005	retained_intron	KNOWN	None	17084	None	None	64469742	64515997	1	None	SYNE-2, DKFZP434H2235, Nesprin-2, NUANCE, NUA, KIAA1011, Nesp2
14	SYNE2	ENSG00000054654	ENST00000555002	protein_coding	NOVEL	None	17084	10626	3541	64529500	64693150	1	None	SYNE-2, DKFZP434H2235, Nesprin-2, NUANCE, NUA, KIAA1011, Nesp2
14	SYNE2	ENSG00000054654	ENST00000557060	retained_intron	KNOWN	None	17084	None	None	64540706	64567078	1	None	SYNE-2, DKFZP434H2235, Nesprin-2, NUANCE, NUA, KIAA1011, Nesp2
14	SYNE2	ENSG00000054654	ENST00000394768	protein_coding	NOVEL	None	17084	9813	3270	64542333	64693148	1	None	SYNE-2, DKFZP434H2235, Nesprin-2, NUANCE, NUA, KIAA1011, Nesp2
14	SYNE2	ENSG00000054654	ENST00000555323	processed_transcript	PUTATIVE	None	17084	None	None	64565163	64568761	1	None	SYNE-2, DKFZP434H2235, Nesprin-2, NUANCE, NUA, KIAA1011, Nesp2
14	SYNE2	ENSG00000054654	ENST00000553308	protein_coding	PUTATIVE	None	17084	517	171	64565443	64580290	1	None	SYNE-2, DKFZP434H2235, Nesprin-2, NUANCE, NUA, KIAA1011, Nesp2
14	SYNE2	ENSG00000054654	ENST00000553455	protein_coding	PUTATIVE	None	17084	645	214	64586148	64589240	1	None	SYNE-2, DKFZP434H2235, Nesprin-2, NUANCE, NUA, KIAA1011, Nesp2
14	SYNE2	ENSG00000054654	ENST00000555612	nonsense_mediated_decay	KNOWN	None	17084	3342	1113	64608156	64693148	1	None	SYNE-2, DKFZP434H2235, Nesprin-2, NUANCE, NUA, KIAA1011, Nesp2
14	SYNE2	ENSG00000054654	ENST00000557024	retained_intron	KNOWN	None	17084	None	None	64625425	64629567	1	None	SYNE-2, DKFZP434H2235, Nesprin-2, NUANCE, NUA, KIAA1011, Nesp2
14	SYNE2	ENSG00000054654	ENST00000553289	nonsense_mediated_decay	KNOWN	None	17084	1713	570	64628832	64693150	1	None	SYNE-2, DKFZP434H2235, Nesprin-2, NUANCE, NUA, KIAA1011, Nesp2
14	SYNE2	ENSG00000054654	ENST00000556342	processed_transcript	KNOWN	None	17084	None	None	64633504	64635617	1	None	SYNE-2, DKFZP434H2235, Nesprin-2, NUANCE, NUA, KIAA1011, Nesp2
14	SYNE2	ENSG00000054654	ENST00000555241	processed_transcript	PUTATIVE	None	17084	None	None	64663472	64675663	1	None	SYNE-2, DKFZP434H2235, Nesprin-2, NUANCE, NUA, KIAA1011, Nesp2
14	SYNE2	ENSG00000054654	ENST00000553801	processed_transcript	PUTATIVE	None	17084	None	None	64663502	64676172	1	None	SYNE-2, DKFZP434H2235, Nesprin-2, NUANCE, NUA, KIAA1011, Nesp2
14	SYNE2	ENSG00000054654	ENST00000556906	protein_coding	PUTATIVE	None	17084	486	161	64668911	64676695	1	None	SYNE-2, DKFZP434H2235, Nesprin-2, NUANCE, NUA, KIAA1011, Nesp2
14	SYNE2	ENSG00000054654	ENST00000555022	protein_coding	NOVEL	None	17084	2292	763	64671073	64693148	1	None	SYNE-2, DKFZP434H2235, Nesprin-2, NUANCE, NUA, KIAA1011, Nesp2
14	SYNE2	ENSG00000054654	ENST00000553806	retained_intron	KNOWN	None	17084	None	None	64675838	64679693	1	None	SYNE-2, DKFZP434H2235, Nesprin-2, NUANCE, NUA, KIAA1011, Nesp2
14	SYNE2	ENSG00000054654	ENST00000554805	protein_coding	NOVEL	None	17084	2007	668	64676042	64693148	1	None	SYNE-2, DKFZP434H2235, Nesprin-2, NUANCE, NUA, KIAA1011, Nesp2
14	SYNE2	ENSG00000054654	ENST00000554997	retained_intron	KNOWN	None	17084	None	None	64676326	64679584	1	None	SYNE-2, DKFZP434H2235, Nesprin-2, NUANCE, NUA, KIAA1011, Nesp2
14	SYNE2	ENSG00000054654	ENST00000557307	retained_intron	KNOWN	None	17084	None	None	64679529	64681242	1	None	SYNE-2, DKFZP434H2235, Nesprin-2, NUANCE, NUA, KIAA1011, Nesp2
14	SYNE2	ENSG00000054654	ENST00000557084	nonsense_mediated_decay	KNOWN	None	17084	123	40	64680862	64686032	1	None	SYNE-2, DKFZP434H2235, Nesprin-2, NUANCE, NUA, KIAA1011, Nesp2
14	SYNE2	ENSG00000054654	ENST00000458046	protein_coding	KNOWN	CCDS45124	17084	1671	556	64680862	64693150	1	None	SYNE-2, DKFZP434H2235, Nesprin-2, NUANCE, NUA, KIAA1011, Nesp2
14	SYNE2	ENSG00000054654	ENST00000441438	protein_coding	KNOWN	CCDS45125	17084	1290	429	64682150	64693148	1	None	SYNE-2, DKFZP434H2235, Nesprin-2, NUANCE, NUA, KIAA1011, Nesp2
14	SYNE2	ENSG00000054654	ENST00000554928	retained_intron	KNOWN	None	17084	None	None	64684950	64690098	1	None	SYNE-2, DKFZP434H2235, Nesprin-2, NUANCE, NUA, KIAA1011, Nesp2
14	SYNE2	ENSG00000054654	ENST00000358025	protein_coding	KNOWN	CCDS9761	17084	20724	6907	64319683	64693165	1	None	SYNE-2, DKFZP434H2235, Nesprin-2, NUANCE, NUA, KIAA1011, Nesp2
14	SYNE2	ENSG00000054654	ENST00000356081	protein_coding	KNOWN	None	17084	804	267	64319732	64423164	1	None	SYNE-2, DKFZP434H2235, Nesprin-2, NUANCE, NUA, KIAA1011, Nesp2
14	SYNE2	ENSG00000054654	ENST00000357395	protein_coding	KNOWN	None	17084	9813	3270	64319683	64693165	1	None	SYNE-2, DKFZP434H2235, Nesprin-2, NUANCE, NUA, KIAA1011, Nesp2
20	EIF4EBP2P	ENSG00000233711	ENST00000450009	processed_pseudogene	KNOWN	None	16596	None	None	42051836	42052178	-1	None	dJ862K6.3
9	TNFSF8	ENSG00000106952	ENST00000474301	processed_transcript	KNOWN	None	11938	None	None	117656003	117666588	-1	CD30LG	CD153
9	TNFSF8	ENSG00000106952	ENST00000223795	protein_coding	KNOWN	CCDS6810	11938	705	234	117665124	117692697	-1	CD30LG	CD153
X	ZCCHC18	ENSG00000166707	ENST00000423478	processed_transcript	KNOWN	None	32459	None	None	103356822	103357563	1	None	SIZN2, PNMA7B
X	ZCCHC18	ENSG00000166707	ENST00000422784	processed_transcript	KNOWN	None	32459	None	None	103357235	103360533	1	None	SIZN2, PNMA7B
X	ZCCHC18	ENSG00000166707	ENST00000605784	processed_transcript	KNOWN	None	32459	None	None	103357578	103358331	1	None	SIZN2, PNMA7B
X	ZCCHC18	ENSG00000166707	ENST00000603049	processed_transcript	KNOWN	None	32459	None	None	103357580	103358271	1	None	SIZN2, PNMA7B
X	ZCCHC18	ENSG00000166707	ENST00000537356	protein_coding	PUTATIVE	None	32459	1212	403	103358803	103360050	1	None	SIZN2, PNMA7B
X	FAM199X	ENSG00000123575	ENST00000493442	protein_coding	KNOWN	CCDS35364	25195	1167	388	103411301	103440583	1	CXorf39	None
X	FAM199X	ENSG00000123575	ENST00000299906	processed_transcript	KNOWN	None	25195	None	None	103430799	103436127	1	CXorf39	None
15	KNSTRN	ENSG00000128944	ENST00000559604	retained_intron	KNOWN	None	30767	None	None	40674922	40675639	1	C15orf23	FLJ14502, SKAP, kinastrin, TRAF4AF1
15	KNSTRN	ENSG00000128944	ENST00000416151	protein_coding	KNOWN	CCDS45226	30767	861	286	40674922	40686355	1	C15orf23	FLJ14502, SKAP, kinastrin, TRAF4AF1
15	KNSTRN	ENSG00000128944	ENST00000560981	nonsense_mediated_decay	KNOWN	None	30767	381	126	40674922	40686373	1	C15orf23	FLJ14502, SKAP, kinastrin, TRAF4AF1
15	KNSTRN	ENSG00000128944	ENST00000249776	protein_coding	KNOWN	CCDS42021	30767	951	316	40674922	40686446	1	C15orf23	FLJ14502, SKAP, kinastrin, TRAF4AF1
15	KNSTRN	ENSG00000128944	ENST00000448395	protein_coding	KNOWN	CCDS45227	30767	726	241	40675037	40686373	1	C15orf23	FLJ14502, SKAP, kinastrin, TRAF4AF1
15	KNSTRN	ENSG00000128944	ENST00000560321	nonsense_mediated_decay	KNOWN	None	30767	386	127	40675140	40685878	1	C15orf23	FLJ14502, SKAP, kinastrin, TRAF4AF1
15	KNSTRN	ENSG00000128944	ENST00000559591	retained_intron	KNOWN	None	30767	None	None	40675142	40677123	1	C15orf23	FLJ14502, SKAP, kinastrin, TRAF4AF1
15	KNSTRN	ENSG00000128944	ENST00000561196	retained_intron	KNOWN	None	30767	None	None	40675177	40676877	1	C15orf23	FLJ14502, SKAP, kinastrin, TRAF4AF1
15	KNSTRN	ENSG00000128944	ENST00000560220	nonsense_mediated_decay	KNOWN	None	30767	202	66	40675177	40685827	1	C15orf23	FLJ14502, SKAP, kinastrin, TRAF4AF1
15	KNSTRN	ENSG00000128944	ENST00000561169	nonsense_mediated_decay	KNOWN	None	30767	373	123	40675180	40686361	1	C15orf23	FLJ14502, SKAP, kinastrin, TRAF4AF1
15	KNSTRN	ENSG00000128944	ENST00000559304	nonsense_mediated_decay	KNOWN	None	30767	195	64	40675181	40685819	1	C15orf23	FLJ14502, SKAP, kinastrin, TRAF4AF1
15	KNSTRN	ENSG00000128944	ENST00000557920	protein_coding	NOVEL	None	30767	651	216	40675197	40682130	1	C15orf23	FLJ14502, SKAP, kinastrin, TRAF4AF1
15	KNSTRN	ENSG00000128944	ENST00000560673	retained_intron	KNOWN	None	30767	None	None	40675205	40679049	1	C15orf23	FLJ14502, SKAP, kinastrin, TRAF4AF1
15	KNSTRN	ENSG00000128944	ENST00000559083	nonsense_mediated_decay	KNOWN	None	30767	82	26	40675456	40684224	1	C15orf23	FLJ14502, SKAP, kinastrin, TRAF4AF1
15	KNSTRN	ENSG00000128944	ENST00000561367	retained_intron	KNOWN	None	30767	None	None	40682009	40684201	1	C15orf23	FLJ14502, SKAP, kinastrin, TRAF4AF1
15	None	ENSG00000249240	ENST00000502574	retained_intron	KNOWN	None	None	None	None	65134082	65214680	1	None	None
15	None	ENSG00000249240	ENST00000437723	protein_coding	PUTATIVE	None	None	681	226	65134147	65223118	1	None	None
15	PLEKHO2	ENSG00000241839	ENST00000323544	protein_coding	KNOWN	CCDS10196	30026	1473	490	65134088	65160206	1	PLEKHQ1	DKFZp761K2312, PP1628, pp9099
9	SLC1A1	ENSG00000106688	ENST00000262352	protein_coding	KNOWN	CCDS6452	10939	1575	524	4490444	4587469	1	None	EAAC1, EAAT3
9	SLC1A1	ENSG00000106688	ENST00000490167	processed_transcript	KNOWN	None	10939	None	None	4559805	4564458	1	None	EAAC1, EAAT3
9	SLC1A1	ENSG00000106688	ENST00000422398	protein_coding	KNOWN	None	10939	726	241	4572335	4585557	1	None	EAAC1, EAAT3
15	ANKDD1A	ENSG00000166839	ENST00000496480	processed_transcript	KNOWN	None	28002	None	None	65204101	65224165	1	None	FLJ25870
15	ANKDD1A	ENSG00000166839	ENST00000491145	processed_transcript	KNOWN	None	28002	None	None	65204101	65224954	1	None	FLJ25870
15	ANKDD1A	ENSG00000166839	ENST00000380230	protein_coding	KNOWN	CCDS10197	28002	1569	522	65204101	65251042	1	None	FLJ25870
15	ANKDD1A	ENSG00000166839	ENST00000496660	protein_coding	KNOWN	None	28002	546	181	65204117	65224712	1	None	FLJ25870
15	ANKDD1A	ENSG00000166839	ENST00000513267	nonsense_mediated_decay	KNOWN	None	28002	372	123	65204127	65224518	1	None	FLJ25870
15	ANKDD1A	ENSG00000166839	ENST00000483400	protein_coding	NOVEL	None	28002	402	133	65208064	65224712	1	None	FLJ25870
15	ANKDD1A	ENSG00000166839	ENST00000395723	protein_coding	KNOWN	None	28002	1200	399	65214126	65249577	1	None	FLJ25870
15	ANKDD1A	ENSG00000166839	ENST00000487867	nonsense_mediated_decay	KNOWN	None	28002	1272	423	65214126	65251033	1	None	FLJ25870
15	ANKDD1A	ENSG00000166839	ENST00000488082	retained_intron	KNOWN	None	28002	None	None	65226313	65235953	1	None	FLJ25870
15	ANKDD1A	ENSG00000166839	ENST00000357698	protein_coding	KNOWN	None	28002	1473	490	65204101	65251039	1	None	FLJ25870
15	ANKDD1A	ENSG00000166839	ENST00000395720	protein_coding	KNOWN	None	28002	1545	514	65204101	65243230	1	None	FLJ25870
15	ANKDD1A	ENSG00000166839	ENST00000319580	protein_coding	KNOWN	None	28002	126	41	65204120	65223750	1	None	FLJ25870
X	ESX1	ENSG00000123576	ENST00000372588	protein_coding	KNOWN	CCDS14516	14865	1221	406	103494719	103499614	-1	ESX1L	ESXR1
X	IL1RAPL2	ENSG00000189108	ENST00000372582	protein_coding	KNOWN	CCDS14517	5997	2061	686	103810996	105011822	1	None	IL-1R9, TIGIRR-1, IL1RAPL-2, IL1R9
X	IL1RAPL2	ENSG00000189108	ENST00000485671	processed_transcript	KNOWN	None	5997	None	None	104984642	105009338	1	None	IL-1R9, TIGIRR-1, IL1RAPL-2, IL1R9
X	IL1RAPL2	ENSG00000189108	ENST00000344799	protein_coding	KNOWN	CCDS14517	5997	2061	686	103903595	105011654	1	None	IL-1R9, TIGIRR-1, IL1RAPL-2, IL1R9
X	IL1RAPL2	ENSG00000189108	ENST00000538500	protein_coding	KNOWN	None	5997	876	291	104996733	105012102	1	None	IL-1R9, TIGIRR-1, IL1RAPL-2, IL1R9
8	TCF24	ENSG00000261787	ENST00000563496	protein_coding	KNOWN	CCDS59103	32275	504	167	67858736	67874825	-1	None	bHLHa25
8	TCF24	ENSG00000261787	ENST00000566129	processed_transcript	PUTATIVE	None	32275	None	None	67859825	67867352	-1	None	bHLHa25
8	PPP1R42	ENSG00000178125	ENST00000521998	processed_transcript	KNOWN	None	33732	None	None	67876334	67894369	-1	LRRC67	dtr, TLLR
8	PPP1R42	ENSG00000178125	ENST00000522331	processed_transcript	PUTATIVE	None	33732	None	None	67876338	67894422	-1	LRRC67	dtr, TLLR
8	PPP1R42	ENSG00000178125	ENST00000519987	processed_transcript	KNOWN	None	33732	None	None	67876338	67923017	-1	LRRC67	dtr, TLLR
8	PPP1R42	ENSG00000178125	ENST00000521410	processed_transcript	KNOWN	None	33732	None	None	67876338	67925216	-1	LRRC67	dtr, TLLR
8	PPP1R42	ENSG00000178125	ENST00000522909	protein_coding	KNOWN	None	33732	930	309	67876435	67933580	-1	LRRC67	dtr, TLLR
8	PPP1R42	ENSG00000178125	ENST00000521040	processed_transcript	KNOWN	None	33732	None	None	67876440	67926773	-1	LRRC67	dtr, TLLR
8	PPP1R42	ENSG00000178125	ENST00000518588	processed_transcript	KNOWN	None	33732	None	None	67894273	67925240	-1	LRRC67	dtr, TLLR
8	PPP1R42	ENSG00000178125	ENST00000324682	protein_coding	KNOWN	CCDS34902	33732	687	228	67900366	67940786	-1	LRRC67	dtr, TLLR
8	PPP1R42	ENSG00000178125	ENST00000519919	processed_transcript	PUTATIVE	None	33732	None	None	67922850	67926733	-1	LRRC67	dtr, TLLR
8	PPP1R42	ENSG00000178125	ENST00000520633	processed_transcript	KNOWN	None	33732	None	None	67922853	67940772	-1	LRRC67	dtr, TLLR
8	PPP1R42	ENSG00000178125	ENST00000517834	processed_transcript	KNOWN	None	33732	None	None	67925133	67968839	-1	LRRC67	dtr, TLLR
8	PPP1R42	ENSG00000178125	ENST00000521581	processed_transcript	KNOWN	None	33732	None	None	67926742	67940796	-1	LRRC67	dtr, TLLR
8	PPP1R42	ENSG00000178125	ENST00000523545	processed_transcript	KNOWN	None	33732	None	None	67926760	67940755	-1	LRRC67	dtr, TLLR
X	TEX13A	ENSG00000133149	ENST00000372578	protein_coding	KNOWN	None	11735	1059	352	104463611	104465358	-1	None	None
X	TEX13A	ENSG00000133149	ENST00000372575	protein_coding	KNOWN	None	11735	1059	352	104463613	104465358	-1	None	None
X	TEX13A	ENSG00000133149	ENST00000413579	protein_coding	KNOWN	None	11735	1230	409	104463614	104465358	-1	None	None
9	SPATA6L	ENSG00000106686	ENST00000485616	nonsense_mediated_decay	KNOWN	None	25472	573	190	4553386	4666508	-1	C9orf68	FLJ10058
9	SPATA6L	ENSG00000106686	ENST00000461761	nonsense_mediated_decay	KNOWN	None	25472	1179	392	4588821	4666423	-1	C9orf68	FLJ10058
9	SPATA6L	ENSG00000106686	ENST00000486047	nonsense_mediated_decay	KNOWN	None	25472	498	165	4588821	4666428	-1	C9orf68	FLJ10058
9	SPATA6L	ENSG00000106686	ENST00000381890	protein_coding	PUTATIVE	None	25472	876	291	4600520	4666347	-1	C9orf68	FLJ10058
9	SPATA6L	ENSG00000106686	ENST00000475086	protein_coding	PUTATIVE	CCDS43785	25472	1005	334	4600610	4666666	-1	C9orf68	FLJ10058
9	SPATA6L	ENSG00000106686	ENST00000406861	nonsense_mediated_decay	KNOWN	None	25472	498	165	4600611	4666449	-1	C9orf68	FLJ10058
9	SPATA6L	ENSG00000106686	ENST00000223517	processed_transcript	PUTATIVE	None	25472	None	None	4625404	4666423	-1	C9orf68	FLJ10058
9	SPATA6L	ENSG00000106686	ENST00000496798	processed_transcript	KNOWN	None	25472	None	None	4625509	4666428	-1	C9orf68	FLJ10058
9	SPATA6L	ENSG00000106686	ENST00000498087	processed_transcript	KNOWN	None	25472	None	None	4625526	4666674	-1	C9orf68	FLJ10058
9	SPATA6L	ENSG00000106686	ENST00000451763	retained_intron	KNOWN	None	25472	None	None	4625638	4666399	-1	C9orf68	FLJ10058
9	SPATA6L	ENSG00000106686	ENST00000485981	processed_transcript	KNOWN	None	25472	None	None	4635275	4666436	-1	C9orf68	FLJ10058
9	SPATA6L	ENSG00000106686	ENST00000471669	retained_intron	KNOWN	None	25472	None	None	4646299	4666307	-1	C9orf68	FLJ10058
9	SPATA6L	ENSG00000106686	ENST00000497383	processed_transcript	KNOWN	None	25472	None	None	4663098	4666464	-1	C9orf68	FLJ10058
9	SPATA6L	ENSG00000106686	ENST00000454239	protein_coding	KNOWN	None	25472	1179	392	4598326	4666674	-1	C9orf68	FLJ10058
9	SPATA6L	ENSG00000106686	ENST00000381895	protein_coding	KNOWN	None	25472	810	269	4600611	4666449	-1	C9orf68	FLJ10058
X	ZNF185	ENSG00000147394	ENST00000370268	protein_coding	KNOWN	CCDS48184	12976	2070	689	152082997	152142015	1	None	None
X	ZNF185	ENSG00000147394	ENST00000370270	protein_coding	KNOWN	None	12976	1359	452	152086665	152142025	1	None	None
X	ZNF185	ENSG00000147394	ENST00000426821	protein_coding	KNOWN	None	12976	1426	474	152087545	152142017	1	None	None
X	ZNF185	ENSG00000147394	ENST00000447088	protein_coding	KNOWN	None	12976	660	219	152088893	152106707	1	None	None
X	ZNF185	ENSG00000147394	ENST00000447792	protein_coding	KNOWN	None	12976	411	136	152089251	152106707	1	None	None
X	ZNF185	ENSG00000147394	ENST00000436731	protein_coding	KNOWN	None	12976	633	210	152100283	152128354	1	None	None
X	ZNF185	ENSG00000147394	ENST00000454925	protein_coding	KNOWN	None	12976	992	329	152110245	152142016	1	None	None
X	ZNF185	ENSG00000147394	ENST00000535861	protein_coding	KNOWN	CCDS55529	12976	2166	721	152082986	152142024	1	None	None
X	ZNF185	ENSG00000147394	ENST00000539731	protein_coding	KNOWN	CCDS55530	12976	2079	692	152082986	152142024	1	None	None
X	ZNF185	ENSG00000147394	ENST00000449285	protein_coding	KNOWN	CCDS55528	12976	2073	690	152082986	152142024	1	None	None
X	ZNF185	ENSG00000147394	ENST00000318504	protein_coding	KNOWN	CCDS55531	12976	1893	630	152082986	152142024	1	None	None
X	ZNF185	ENSG00000147394	ENST00000324823	protein_coding	KNOWN	None	12976	1374	457	152082986	152142024	1	None	None
X	ZNF185	ENSG00000147394	ENST00000318529	protein_coding	KNOWN	CCDS55532	12976	1407	468	152086409	152142024	1	None	None
20	None	ENSG00000206998	ENST00000384271	misc_RNA	NOVEL	None	None	None	None	42079799	42079900	-1	None	None
20	RNU6-1251P	ENSG00000201372	ENST00000364502	snRNA	KNOWN	None	48214	None	None	42101653	42101759	1	None	None
20	None	ENSG00000234271	ENST00000432727	processed_pseudogene	KNOWN	None	None	None	None	42151901	42152212	-1	None	None
20	None	ENSG00000226143	ENST00000442482	antisense	KNOWN	None	None	None	None	42178029	42179589	-1	None	None
20	RPL27AP	ENSG00000215467	ENST00000358609	processed_pseudogene	KNOWN	None	16250	None	None	42281163	42281931	1	None	dJ1028D15.2
20	RNU6-639P	ENSG00000206801	ENST00000384074	snRNA	KNOWN	None	47602	None	None	42425077	42425183	-1	None	None
X	NRK	ENSG00000123572	ENST00000243300	protein_coding	KNOWN	None	25391	4749	1582	105066536	105202602	1	None	DKFZp686A17109
X	NRK	ENSG00000123572	ENST00000428173	protein_coding	KNOWN	None	25391	4752	1583	105066536	105202601	1	None	DKFZp686A17109
X	NRK	ENSG00000123572	ENST00000536164	protein_coding	KNOWN	None	25391	567	188	105066574	105139308	1	None	DKFZp686A17109
X	NRK	ENSG00000123572	ENST00000540278	protein_coding	KNOWN	None	25391	492	163	105192430	105200585	1	None	DKFZp686A17109
20	None	ENSG00000233277	ENST00000428529	lincRNA	KNOWN	None	None	None	None	42523360	42524108	1	None	None
20	RN7SL443P	ENSG00000241229	ENST00000464331	misc_RNA	KNOWN	None	46459	None	None	42635888	42636178	1	None	None
20	OSER1-AS1	ENSG00000223891	ENST00000439943	lincRNA	KNOWN	None	48585	None	None	42839600	42854667	1	None	None
20	OSER1-AS1	ENSG00000223891	ENST00000437730	lincRNA	KNOWN	None	48585	None	None	42839632	42854667	1	None	None
20	OSER1-AS1	ENSG00000223891	ENST00000442383	lincRNA	KNOWN	None	48585	None	None	42839722	42854667	1	None	None
20	OSER1-AS1	ENSG00000223891	ENST00000435163	lincRNA	KNOWN	None	48585	None	None	42839892	42853618	1	None	None
4	CCKAR	ENSG00000163394	ENST00000295589	protein_coding	KNOWN	CCDS3438	1570	1287	428	26483022	26492084	-1	None	None
8	COPS5	ENSG00000121022	ENST00000523086	processed_transcript	KNOWN	None	2240	None	None	67955314	67968795	-1	None	JAB1, SGN5, MOV-34, CSN5
8	COPS5	ENSG00000121022	ENST00000357849	protein_coding	KNOWN	CCDS6198	2240	1005	334	67955314	67974552	-1	None	JAB1, SGN5, MOV-34, CSN5
8	COPS5	ENSG00000121022	ENST00000521509	retained_intron	KNOWN	None	2240	None	None	67955314	67974571	-1	None	JAB1, SGN5, MOV-34, CSN5
8	COPS5	ENSG00000121022	ENST00000517736	protein_coding	NOVEL	None	2240	594	197	67955314	67977178	-1	None	JAB1, SGN5, MOV-34, CSN5
8	COPS5	ENSG00000121022	ENST00000521386	retained_intron	KNOWN	None	2240	None	None	67955317	67973864	-1	None	JAB1, SGN5, MOV-34, CSN5
8	COPS5	ENSG00000121022	ENST00000518374	nonsense_mediated_decay	KNOWN	None	2240	207	68	67955317	67974558	-1	None	JAB1, SGN5, MOV-34, CSN5
8	COPS5	ENSG00000121022	ENST00000523890	nonsense_mediated_decay	KNOWN	None	2240	174	57	67958045	67974264	-1	None	JAB1, SGN5, MOV-34, CSN5
8	COPS5	ENSG00000121022	ENST00000518747	protein_coding	NOVEL	None	2240	453	150	67968768	67976509	-1	None	JAB1, SGN5, MOV-34, CSN5
8	COPS5	ENSG00000121022	ENST00000517793	processed_transcript	PUTATIVE	None	2240	None	None	67970333	67976873	-1	None	JAB1, SGN5, MOV-34, CSN5
8	COPS5	ENSG00000121022	ENST00000517406	nonsense_mediated_decay	KNOWN	None	2240	237	78	67971651	67974388	-1	None	JAB1, SGN5, MOV-34, CSN5
8	COPS5	ENSG00000121022	ENST00000519963	processed_transcript	KNOWN	None	2240	None	None	67972708	67995968	-1	None	JAB1, SGN5, MOV-34, CSN5
8	COPS5	ENSG00000121022	ENST00000519057	processed_transcript	KNOWN	None	2240	None	None	67973579	67995979	-1	None	JAB1, SGN5, MOV-34, CSN5
8	COPS5	ENSG00000121022	ENST00000518768	processed_transcript	KNOWN	None	2240	None	None	67974186	67996018	-1	None	JAB1, SGN5, MOV-34, CSN5
4	TBC1D19	ENSG00000109680	ENST00000513455	protein_coding	PUTATIVE	None	25624	204	67	26578059	26622289	1	None	FLJ11082
4	TBC1D19	ENSG00000109680	ENST00000512840	protein_coding	PUTATIVE	None	25624	802	266	26578304	26689970	1	None	FLJ11082
4	TBC1D19	ENSG00000109680	ENST00000504442	processed_transcript	KNOWN	None	25624	None	None	26578318	26668027	1	None	FLJ11082
4	TBC1D19	ENSG00000109680	ENST00000264866	protein_coding	KNOWN	CCDS3439	25624	1581	526	26585538	26756973	1	None	FLJ11082
4	TBC1D19	ENSG00000109680	ENST00000502873	retained_intron	KNOWN	None	25624	None	None	26585706	26755849	1	None	FLJ11082
4	TBC1D19	ENSG00000109680	ENST00000505206	protein_coding	PUTATIVE	None	25624	669	222	26585711	26685344	1	None	FLJ11082
4	TBC1D19	ENSG00000109680	ENST00000511789	protein_coding	NOVEL	None	25624	1386	461	26585816	26756569	1	None	FLJ11082
4	TBC1D19	ENSG00000109680	ENST00000515568	processed_transcript	KNOWN	None	25624	None	None	26585904	26664695	1	None	FLJ11082
4	TBC1D19	ENSG00000109680	ENST00000513596	protein_coding	PUTATIVE	None	25624	352	116	26586576	26641777	1	None	FLJ11082
15	SPG21	ENSG00000090487	ENST00000204566	protein_coding	KNOWN	CCDS10198	20373	927	308	65255362	65282274	-1	None	ACP33, GL010, BM-019, MAST
15	SPG21	ENSG00000090487	ENST00000559199	protein_coding	PUTATIVE	None	20373	465	154	65255368	65273965	-1	None	ACP33, GL010, BM-019, MAST
15	SPG21	ENSG00000090487	ENST00000433215	protein_coding	NOVEL	CCDS10198	20373	927	308	65255368	65281812	-1	None	ACP33, GL010, BM-019, MAST
15	SPG21	ENSG00000090487	ENST00000561078	nonsense_mediated_decay	KNOWN	None	20373	390	129	65255397	65282153	-1	None	ACP33, GL010, BM-019, MAST
15	SPG21	ENSG00000090487	ENST00000416889	protein_coding	NOVEL	CCDS45279	20373	846	281	65255545	65282249	-1	None	ACP33, GL010, BM-019, MAST
15	SPG21	ENSG00000090487	ENST00000558765	protein_coding	PUTATIVE	None	20373	452	149	65266940	65282045	-1	None	ACP33, GL010, BM-019, MAST
15	SPG21	ENSG00000090487	ENST00000557795	protein_coding	PUTATIVE	None	20373	424	140	65266968	65281844	-1	None	ACP33, GL010, BM-019, MAST
15	SPG21	ENSG00000090487	ENST00000560564	processed_transcript	KNOWN	None	20373	None	None	65267004	65282284	-1	None	ACP33, GL010, BM-019, MAST
15	SPG21	ENSG00000090487	ENST00000559677	protein_coding	PUTATIVE	None	20373	308	101	65268811	65282648	-1	None	ACP33, GL010, BM-019, MAST
15	SPG21	ENSG00000090487	ENST00000558943	protein_coding	PUTATIVE	None	20373	215	70	65273212	65279814	-1	None	ACP33, GL010, BM-019, MAST
15	SPG21	ENSG00000090487	ENST00000558415	protein_coding	PUTATIVE	None	20373	159	52	65273268	65281834	-1	None	ACP33, GL010, BM-019, MAST
15	SPG21	ENSG00000090487	ENST00000560878	protein_coding	PUTATIVE	None	20373	120	39	65273307	65281263	-1	None	ACP33, GL010, BM-019, MAST
15	SPG21	ENSG00000090487	ENST00000558339	processed_transcript	KNOWN	None	20373	None	None	65275271	65282249	-1	None	ACP33, GL010, BM-019, MAST
15	SPG21	ENSG00000090487	ENST00000561088	retained_intron	KNOWN	None	20373	None	None	65281070	65281864	-1	None	ACP33, GL010, BM-019, MAST
X	SERPINA7	ENSG00000123561	ENST00000327674	protein_coding	KNOWN	CCDS14518	11583	1248	415	105277197	105281385	-1	TBG	None
X	SERPINA7	ENSG00000123561	ENST00000372563	protein_coding	KNOWN	CCDS14518	11583	1248	415	105277197	105282729	-1	TBG	None
X	SERPINA7	ENSG00000123561	ENST00000487487	processed_transcript	KNOWN	None	11583	None	None	105277678	105279271	-1	TBG	None
X	MUM1L1	ENSG00000157502	ENST00000357175	protein_coding	KNOWN	CCDS55469	26583	2091	696	105412298	105452949	1	None	FLJ33516
X	MUM1L1	ENSG00000157502	ENST00000372552	protein_coding	KNOWN	CCDS55469	26583	2091	696	105445729	105452948	1	None	FLJ33516
X	MUM1L1	ENSG00000157502	ENST00000337685	protein_coding	KNOWN	CCDS55469	26583	2091	696	105412298	105452948	1	None	FLJ33516
X	CXorf57	ENSG00000147231	ENST00000372548	protein_coding	KNOWN	CCDS14519	25486	2568	855	105855202	105922672	1	None	FLJ14191, FLJ10178
X	CXorf57	ENSG00000147231	ENST00000461251	nonsense_mediated_decay	KNOWN	None	25486	1704	567	105855205	105881908	1	None	FLJ14191, FLJ10178
X	CXorf57	ENSG00000147231	ENST00000421550	protein_coding	KNOWN	None	25486	1701	566	105855887	105922667	1	None	FLJ14191, FLJ10178
X	CXorf57	ENSG00000147231	ENST00000478395	processed_transcript	KNOWN	None	25486	None	None	105882524	105883812	1	None	FLJ14191, FLJ10178
X	CXorf57	ENSG00000147231	ENST00000497124	processed_transcript	KNOWN	None	25486	None	None	105883685	105912442	1	None	FLJ14191, FLJ10178
X	CXorf57	ENSG00000147231	ENST00000372544	protein_coding	KNOWN	CCDS55470	25486	2277	758	105855160	105922667	1	None	FLJ14191, FLJ10178
9	PPAPDC2	ENSG00000205808	ENST00000381883	protein_coding	KNOWN	CCDS34981	23682	888	295	4662298	4665256	1	None	FLJ90191, FLJ46512, PDP1
15	RASGRF1	ENSG00000058335	ENST00000558480	protein_coding	KNOWN	CCDS45320	9875	3774	1257	79252289	79383106	-1	GRF1	CDC25L, CDC25, GRF55, H-GRF55, GNRP, PP13187
15	RASGRF1	ENSG00000058335	ENST00000419573	protein_coding	KNOWN	CCDS10309	9875	3822	1273	79252289	79383115	-1	GRF1	CDC25L, CDC25, GRF55, H-GRF55, GNRP, PP13187
15	RASGRF1	ENSG00000058335	ENST00000394745	protein_coding	KNOWN	CCDS42065	9875	1470	489	79254284	79298007	-1	GRF1	CDC25L, CDC25, GRF55, H-GRF55, GNRP, PP13187
15	RASGRF1	ENSG00000058335	ENST00000559926	processed_transcript	PUTATIVE	None	9875	None	None	79264245	79271467	-1	GRF1	CDC25L, CDC25, GRF55, H-GRF55, GNRP, PP13187
15	RASGRF1	ENSG00000058335	ENST00000560334	processed_transcript	KNOWN	None	9875	None	None	79270722	79357005	-1	GRF1	CDC25L, CDC25, GRF55, H-GRF55, GNRP, PP13187
15	RASGRF1	ENSG00000058335	ENST00000560286	retained_intron	KNOWN	None	9875	None	None	79272767	79277652	-1	GRF1	CDC25L, CDC25, GRF55, H-GRF55, GNRP, PP13187
15	RASGRF1	ENSG00000058335	ENST00000560943	retained_intron	KNOWN	None	9875	None	None	79272999	79290608	-1	GRF1	CDC25L, CDC25, GRF55, H-GRF55, GNRP, PP13187
15	RASGRF1	ENSG00000058335	ENST00000561112	processed_transcript	PUTATIVE	None	9875	None	None	79284054	79290413	-1	GRF1	CDC25L, CDC25, GRF55, H-GRF55, GNRP, PP13187
8	CSPP1	ENSG00000104218	ENST00000521919	protein_coding	PUTATIVE	None	26193	462	153	67974661	68005855	1	None	FLJ22490, CSPP
8	CSPP1	ENSG00000104218	ENST00000262210	protein_coding	KNOWN	CCDS43744	26193	3666	1221	67976603	68108498	1	None	FLJ22490, CSPP
8	CSPP1	ENSG00000104218	ENST00000519701	nonsense_mediated_decay	KNOWN	None	26193	201	66	67976661	68004104	1	None	FLJ22490, CSPP
8	CSPP1	ENSG00000104218	ENST00000519163	nonsense_mediated_decay	KNOWN	None	26193	1215	404	67976663	68071271	1	None	FLJ22490, CSPP
8	CSPP1	ENSG00000104218	ENST00000519668	protein_coding	KNOWN	None	26193	2631	876	67996083	68107846	1	None	FLJ22490, CSPP
8	CSPP1	ENSG00000104218	ENST00000521168	processed_transcript	KNOWN	None	26193	None	None	68069862	68107753	1	None	FLJ22490, CSPP
8	CSPP1	ENSG00000104218	ENST00000521324	processed_transcript	KNOWN	None	26193	None	None	68084747	68105812	1	None	FLJ22490, CSPP
8	CSPP1	ENSG00000104218	ENST00000412460	protein_coding	KNOWN	None	26193	2631	876	67976603	68108494	1	None	FLJ22490, CSPP
14	RPGRIP1	ENSG00000092200	ENST00000556336	protein_coding	NOVEL	None	13436	2832	943	21756098	21819460	1	RPGRIP	RGI1, LCA6, CORD13
14	RPGRIP1	ENSG00000092200	ENST00000557771	protein_coding	NOVEL	None	13436	3747	1248	21756098	21819460	1	RPGRIP	RGI1, LCA6, CORD13
14	RPGRIP1	ENSG00000092200	ENST00000400017	protein_coding	KNOWN	CCDS45080	13436	3861	1286	21756136	21819454	1	RPGRIP	RGI1, LCA6, CORD13
14	RPGRIP1	ENSG00000092200	ENST00000554750	retained_intron	KNOWN	None	13436	None	None	21769308	21771128	1	RPGRIP	RGI1, LCA6, CORD13
14	RPGRIP1	ENSG00000092200	ENST00000382933	protein_coding	KNOWN	None	13436	1839	612	21785698	21819460	1	RPGRIP	RGI1, LCA6, CORD13
14	RPGRIP1	ENSG00000092200	ENST00000557351	protein_coding	NOVEL	None	13436	500	165	21785712	21789449	1	RPGRIP	RGI1, LCA6, CORD13
14	RPGRIP1	ENSG00000092200	ENST00000553500	processed_transcript	KNOWN	None	13436	None	None	21788310	21794026	1	RPGRIP	RGI1, LCA6, CORD13
14	RPGRIP1	ENSG00000092200	ENST00000555322	nonsense_mediated_decay	KNOWN	None	13436	80	25	21789518	21819460	1	RPGRIP	RGI1, LCA6, CORD13
14	RPGRIP1	ENSG00000092200	ENST00000555587	protein_coding	NOVEL	None	13436	2286	761	21789523	21819460	1	RPGRIP	RGI1, LCA6, CORD13
14	RPGRIP1	ENSG00000092200	ENST00000554303	protein_coding	NOVEL	None	13436	429	142	21789532	21793057	1	RPGRIP	RGI1, LCA6, CORD13
14	RPGRIP1	ENSG00000092200	ENST00000555489	nonsense_mediated_decay	KNOWN	None	13436	180	59	21790076	21819460	1	RPGRIP	RGI1, LCA6, CORD13
14	RPGRIP1	ENSG00000092200	ENST00000553927	retained_intron	KNOWN	None	13436	None	None	21792083	21819457	1	RPGRIP	RGI1, LCA6, CORD13
14	RPGRIP1	ENSG00000092200	ENST00000557606	protein_coding	NOVEL	None	13436	402	133	21796758	21811324	1	RPGRIP	RGI1, LCA6, CORD13
14	RPGRIP1	ENSG00000092200	ENST00000206660	protein_coding	KNOWN	None	13436	3861	1286	21756136	21819458	1	RPGRIP	RGI1, LCA6, CORD13
14	RPGRIP1	ENSG00000092200	ENST00000307974	protein_coding	KNOWN	None	13436	1938	645	21792789	21819458	1	RPGRIP	RGI1, LCA6, CORD13
9	CDC37L1	ENSG00000106993	ENST00000381858	protein_coding	PUTATIVE	None	17179	927	308	4679559	4703208	1	None	HARC, FLJ20639, CDC37B
9	CDC37L1	ENSG00000106993	ENST00000381854	protein_coding	KNOWN	CCDS6454	17179	1014	337	4679566	4708398	1	None	HARC, FLJ20639, CDC37B
9	CDC37L1	ENSG00000106993	ENST00000479095	processed_transcript	KNOWN	None	17179	None	None	4679715	4685475	1	None	HARC, FLJ20639, CDC37B
15	MTFMT	ENSG00000103707	ENST00000220058	protein_coding	KNOWN	CCDS45280	29666	1170	389	65294845	65321965	-1	None	FMT1
15	MTFMT	ENSG00000103707	ENST00000558460	nonsense_mediated_decay	KNOWN	CCDS45280	29666	1170	389	65294916	65321954	-1	None	FMT1
15	MTFMT	ENSG00000103707	ENST00000560717	nonsense_mediated_decay	KNOWN	None	29666	405	134	65295334	65321936	-1	None	FMT1
15	MTFMT	ENSG00000103707	ENST00000543678	nonsense_mediated_decay	KNOWN	None	29666	435	144	65308171	65321977	-1	None	FMT1
15	MTFMT	ENSG00000103707	ENST00000558614	retained_intron	KNOWN	None	29666	None	None	65308593	65321912	-1	None	FMT1
15	MTFMT	ENSG00000103707	ENST00000561025	processed_transcript	PUTATIVE	None	29666	None	None	65313852	65319269	-1	None	FMT1
15	MTFMT	ENSG00000103707	ENST00000559633	retained_intron	KNOWN	None	29666	None	None	65319086	65321870	-1	None	FMT1
5	PDE4D	ENSG00000113448	ENST00000340635	protein_coding	KNOWN	CCDS47213	8783	2430	809	58264865	59189625	-1	DPDE3	None
5	PDE4D	ENSG00000113448	ENST00000360047	protein_coding	KNOWN	CCDS54858	8783	2022	673	58269515	58882325	-1	DPDE3	None
5	PDE4D	ENSG00000113448	ENST00000507116	protein_coding	KNOWN	CCDS56373	8783	2238	745	58269515	59064471	-1	DPDE3	None
5	PDE4D	ENSG00000113448	ENST00000358923	protein_coding	KNOWN	CCDS56370	8783	1524	507	58269599	58335339	-1	DPDE3	None
5	PDE4D	ENSG00000113448	ENST00000317118	protein_coding	KNOWN	CCDS56369	8783	1557	518	58269845	58295759	-1	DPDE3	None
5	PDE4D	ENSG00000113448	ENST00000503258	protein_coding	KNOWN	CCDS56371	8783	2040	679	58270388	58571945	-1	DPDE3	None
5	PDE4D	ENSG00000113448	ENST00000405755	protein_coding	KNOWN	CCDS56372	8783	2064	687	58270390	58652801	-1	DPDE3	None
5	PDE4D	ENSG00000113448	ENST00000515011	retained_intron	KNOWN	None	8783	None	None	58270482	58335342	-1	DPDE3	None
5	PDE4D	ENSG00000113448	ENST00000502484	protein_coding	KNOWN	CCDS54859	8783	2247	748	58270484	59783903	-1	DPDE3	None
5	PDE4D	ENSG00000113448	ENST00000505453	protein_coding	KNOWN	None	8783	1267	421	58270748	58882219	-1	DPDE3	None
5	PDE4D	ENSG00000113448	ENST00000309641	nonsense_mediated_decay	KNOWN	None	8783	648	215	58270748	59064335	-1	DPDE3	None
5	PDE4D	ENSG00000113448	ENST00000405053	processed_transcript	KNOWN	None	8783	None	None	58289252	59189112	-1	DPDE3	None
5	PDE4D	ENSG00000113448	ENST00000502575	protein_coding	KNOWN	None	8783	660	219	58452893	59064462	-1	DPDE3	None
5	PDE4D	ENSG00000113448	ENST00000503947	processed_transcript	KNOWN	None	8783	None	None	58460774	58511794	-1	DPDE3	None
5	PDE4D	ENSG00000113448	ENST00000515324	processed_transcript	KNOWN	None	8783	None	None	58470176	58511761	-1	DPDE3	None
5	PDE4D	ENSG00000113448	ENST00000514231	retained_intron	KNOWN	None	8783	None	None	58511280	59284459	-1	DPDE3	None
5	PDE4D	ENSG00000113448	ENST00000512069	processed_transcript	KNOWN	None	8783	None	None	58854386	59284531	-1	DPDE3	None
5	PDE4D	ENSG00000113448	ENST00000509368	nonsense_mediated_decay	KNOWN	None	8783	54	17	59282225	59558386	-1	DPDE3	None
5	PDE4D	ENSG00000113448	ENST00000509355	retained_intron	KNOWN	None	8783	None	None	59283986	59783925	-1	DPDE3	None
5	PDE4D	ENSG00000113448	ENST00000504624	processed_transcript	KNOWN	None	8783	None	None	59284062	59284531	-1	DPDE3	None
5	PDE4D	ENSG00000113448	ENST00000506024	retained_intron	KNOWN	None	8783	None	None	59284148	59744534	-1	DPDE3	None
5	PDE4D	ENSG00000113448	ENST00000506510	retained_intron	KNOWN	None	8783	None	None	59284188	59817947	-1	DPDE3	None
5	PDE4D	ENSG00000113448	ENST00000511382	retained_intron	KNOWN	None	8783	None	None	59284268	59783892	-1	DPDE3	None
5	PDE4D	ENSG00000113448	ENST00000505507	protein_coding	KNOWN	None	8783	243	80	59284344	59783890	-1	DPDE3	None
5	PDE4D	ENSG00000113448	ENST00000514552	protein_coding	KNOWN	None	8783	224	73	59284363	59668541	-1	DPDE3	None
5	PDE4D	ENSG00000113448	ENST00000515835	nonsense_mediated_decay	KNOWN	None	8783	90	29	59284429	59783890	-1	DPDE3	None
5	PDE4D	ENSG00000113448	ENST00000546160	protein_coding	KNOWN	CCDS54859	8783	2247	748	58270491	59481425	-1	DPDE3	None
9	AK3	ENSG00000147853	ENST00000381809	protein_coding	KNOWN	CCDS6455	17376	684	227	4711155	4741318	-1	AK6, AK3L1	AKL3L1
9	AK3	ENSG00000147853	ENST00000359883	protein_coding	KNOWN	CCDS56561	17376	474	157	4712045	4742043	-1	AK6, AK3L1	AKL3L1
9	AK3	ENSG00000147853	ENST00000447596	protein_coding	KNOWN	CCDS56562	17376	564	187	4712975	4741227	-1	AK6, AK3L1	AKL3L1
4	STIM2	ENSG00000109689	ENST00000494628	protein_coding	PUTATIVE	None	19205	478	158	26859300	27003850	1	None	None
4	STIM2	ENSG00000109689	ENST00000463501	protein_coding	PUTATIVE	None	19205	644	213	26859550	27004016	1	None	None
4	STIM2	ENSG00000109689	ENST00000478425	processed_transcript	KNOWN	None	19205	None	None	26859870	26860541	1	None	None
4	STIM2	ENSG00000109689	ENST00000467087	protein_coding	KNOWN	CCDS3440	19205	2241	746	26862313	27027003	1	None	None
4	STIM2	ENSG00000109689	ENST00000467011	protein_coding	NOVEL	CCDS54752	19205	1800	599	26862416	27025809	1	None	None
4	STIM2	ENSG00000109689	ENST00000465503	protein_coding	NOVEL	CCDS54751	19205	2265	754	26862463	27025588	1	None	None
4	STIM2	ENSG00000109689	ENST00000478049	protein_coding	PUTATIVE	None	19205	262	86	26863081	26997024	1	None	None
4	STIM2	ENSG00000109689	ENST00000473519	protein_coding	PUTATIVE	None	19205	1044	347	27004622	27024462	1	None	None
4	STIM2	ENSG00000109689	ENST00000477474	protein_coding	NOVEL	None	19205	666	221	27010095	27021222	1	None	None
4	STIM2	ENSG00000109689	ENST00000504511	retained_intron	KNOWN	None	19205	None	None	27022904	27024283	1	None	None
4	STIM2	ENSG00000109689	ENST00000382009	protein_coding	KNOWN	None	19205	2526	841	26862313	27027003	1	None	None
4	STIM2	ENSG00000109689	ENST00000237364	protein_coding	KNOWN	None	19205	2502	833	26862313	27027003	1	None	None
4	STIM2	ENSG00000109689	ENST00000412829	protein_coding	KNOWN	None	19205	2061	686	26862416	27025806	1	None	None
4	CDKL2	ENSG00000138769	ENST00000429927	protein_coding	KNOWN	CCDS3570	1782	1482	493	76503215	76555900	-1	None	P56, KKIAMRE
4	CDKL2	ENSG00000138769	ENST00000307465	protein_coding	NOVEL	None	1782	1713	570	76504074	76555710	-1	None	P56, KKIAMRE
4	CDKL2	ENSG00000138769	ENST00000515793	retained_intron	KNOWN	None	1782	None	None	76521264	76522324	-1	None	P56, KKIAMRE
4	CDKL2	ENSG00000138769	ENST00000506234	nonsense_mediated_decay	KNOWN	None	1782	177	58	76523303	76555670	-1	None	P56, KKIAMRE
X	RNF128	ENSG00000133135	ENST00000418562	protein_coding	KNOWN	None	21153	748	248	105937024	106033435	1	None	FLJ23516, GRAIL
X	RNF128	ENSG00000133135	ENST00000324342	protein_coding	KNOWN	CCDS14520	21153	1209	402	105937068	106040223	1	None	FLJ23516, GRAIL
X	RNF128	ENSG00000133135	ENST00000255499	protein_coding	KNOWN	CCDS14521	21153	1287	428	105969894	106040223	1	None	FLJ23516, GRAIL
10	EBLN1	ENSG00000223601	ENST00000422359	protein_coding	KNOWN	None	39430	1101	366	22497743	22498950	-1	None	None
15	SLC51B	ENSG00000186198	ENST00000334287	protein_coding	KNOWN	CCDS10199	29956	387	128	65337708	65345734	1	None	OSTbeta
9	RCL1	ENSG00000120158	ENST00000381750	protein_coding	KNOWN	CCDS6456	17687	1122	373	4792869	4861064	1	None	RPCL1, RNAC
9	RCL1	ENSG00000120158	ENST00000381732	protein_coding	KNOWN	None	17687	528	175	4792976	4827337	1	None	RPCL1, RNAC
9	RCL1	ENSG00000120158	ENST00000442869	protein_coding	PUTATIVE	None	17687	546	181	4792980	4860173	1	None	RPCL1, RNAC
9	RCL1	ENSG00000120158	ENST00000473230	processed_transcript	KNOWN	None	17687	None	None	4793087	4841357	1	None	RPCL1, RNAC
9	RCL1	ENSG00000120158	ENST00000381730	protein_coding	NOVEL	None	17687	564	187	4836726	4860472	1	None	RPCL1, RNAC
9	RCL1	ENSG00000120158	ENST00000381728	protein_coding	PUTATIVE	None	17687	564	187	4839518	4860292	1	None	RPCL1, RNAC
9	RCL1	ENSG00000120158	ENST00000441844	protein_coding	KNOWN	None	17687	413	136	4839777	4849550	1	None	RPCL1, RNAC
9	RCL1	ENSG00000120158	ENST00000445485	processed_transcript	PUTATIVE	None	17687	None	None	4860454	4885917	1	None	RPCL1, RNAC
9	RCL1	ENSG00000120158	ENST00000448872	protein_coding	KNOWN	None	17687	564	187	4839769	4860436	1	None	RPCL1, RNAC
15	RASL12	ENSG00000103710	ENST00000220062	protein_coding	KNOWN	CCDS10200	30289	801	266	65345679	65360450	-1	None	RIS
15	RASL12	ENSG00000103710	ENST00000421977	protein_coding	NOVEL	None	30289	744	247	65346566	65360281	-1	None	RIS
15	RASL12	ENSG00000103710	ENST00000434605	protein_coding	NOVEL	None	30289	768	255	65347115	65369028	-1	None	RIS
20	None	ENSG00000201363	ENST00000364493	misc_RNA	NOVEL	None	None	None	None	42973479	42973569	1	None	None
20	None	ENSG00000226812	ENST00000438702	antisense	KNOWN	None	None	None	None	42976192	42983825	-1	None	None
20	None	ENSG00000226812	ENST00000430481	antisense	KNOWN	None	None	None	None	42979362	42980742	-1	None	None
X	TBC1D8B	ENSG00000133138	ENST00000357242	protein_coding	KNOWN	CCDS14522	24715	3363	1120	106045910	106119375	1	None	FLJ20298, RP11-321G1.1
X	TBC1D8B	ENSG00000133138	ENST00000310452	protein_coding	KNOWN	CCDS14523	24715	1899	632	106045919	106093061	1	None	FLJ20298, RP11-321G1.1
X	TBC1D8B	ENSG00000133138	ENST00000481617	protein_coding	PUTATIVE	None	24715	1260	419	106045935	106073313	1	None	FLJ20298, RP11-321G1.1
X	TBC1D8B	ENSG00000133138	ENST00000276175	protein_coding	NOVEL	None	24715	3345	1114	106046043	106117347	1	None	FLJ20298, RP11-321G1.1
X	TBC1D8B	ENSG00000133138	ENST00000460545	protein_coding	PUTATIVE	None	24715	66	21	106061627	106064225	1	None	FLJ20298, RP11-321G1.1
X	TBC1D8B	ENSG00000133138	ENST00000431860	protein_coding	NOVEL	None	24715	654	217	106096742	106112769	1	None	FLJ20298, RP11-321G1.1
X	TBC1D8B	ENSG00000133138	ENST00000492970	retained_intron	KNOWN	None	24715	None	None	106108776	106110092	1	None	FLJ20298, RP11-321G1.1
20	None	ENSG00000229005	ENST00000452481	processed_transcript	KNOWN	None	None	None	None	43006383	43024346	-1	None	None
15	KBTBD13	ENSG00000234438	ENST00000432196	protein_coding	KNOWN	CCDS45281	37227	1377	458	65369154	65372276	1	None	hCG_1645727, NEM6
20	None	ENSG00000233376	ENST00000455642	processed_transcript	PUTATIVE	None	None	None	None	43018264	43020177	-1	None	None
15	UBAP1L	ENSG00000246922	ENST00000559089	protein_coding	NOVEL	CCDS53948	40028	1146	381	65385338	65407535	-1	None	None
15	UBAP1L	ENSG00000246922	ENST00000561387	retained_intron	KNOWN	None	40028	None	None	65385347	65393966	-1	None	None
15	UBAP1L	ENSG00000246922	ENST00000558802	nonsense_mediated_decay	KNOWN	None	40028	354	117	65385386	65398579	-1	None	None
15	UBAP1L	ENSG00000246922	ENST00000502113	protein_coding	KNOWN	CCDS53948	40028	1146	381	65385344	65398697	-1	None	None
20	MIR3646	ENSG00000266151	ENST00000578301	miRNA	KNOWN	None	38935	None	None	43036760	43036843	1	None	hsa-mir-3646
10	COMMD3	ENSG00000148444	ENST00000376836	protein_coding	KNOWN	CCDS7137	23332	588	195	22604903	22609235	1	C10orf8	BUP
10	COMMD3	ENSG00000148444	ENST00000602574	retained_intron	KNOWN	None	23332	None	None	22605315	22609235	1	C10orf8	BUP
10	COMMD3	ENSG00000148444	ENST00000468179	retained_intron	KNOWN	None	23332	None	None	22605328	22608210	1	C10orf8	BUP
10	COMMD3	ENSG00000148444	ENST00000479958	retained_intron	KNOWN	None	23332	None	None	22605338	22609232	1	C10orf8	BUP
10	COMMD3	ENSG00000148444	ENST00000470045	retained_intron	KNOWN	None	23332	None	None	22605344	22607332	1	C10orf8	BUP
10	COMMD3	ENSG00000148444	ENST00000456711	protein_coding	NOVEL	None	23332	490	162	22605346	22609185	1	C10orf8	BUP
10	COMMD3	ENSG00000148444	ENST00000444869	protein_coding	NOVEL	None	23332	532	176	22605349	22609216	1	C10orf8	BUP
10	COMMD3	ENSG00000148444	ENST00000472610	nonsense_mediated_decay	KNOWN	None	23332	146	47	22605357	22607642	1	C10orf8	BUP
10	COMMD3	ENSG00000148444	ENST00000496071	retained_intron	KNOWN	None	23332	None	None	22605358	22609235	1	C10orf8	BUP
10	COMMD3	ENSG00000148444	ENST00000463688	retained_intron	KNOWN	None	23332	None	None	22605370	22609235	1	C10orf8	BUP
10	COMMD3	ENSG00000148444	ENST00000448361	protein_coding	NOVEL	None	23332	449	148	22605374	22609235	1	C10orf8	BUP
10	COMMD3	ENSG00000148444	ENST00000468469	processed_transcript	KNOWN	None	23332	None	None	22605664	22607755	1	C10orf8	BUP
10	COMMD3	ENSG00000148444	ENST00000472673	processed_transcript	KNOWN	None	23332	None	None	22606423	22607293	1	C10orf8	BUP
10	COMMD3	ENSG00000148444	ENST00000483684	processed_transcript	KNOWN	None	23332	None	None	22606813	22609235	1	C10orf8	BUP
10	COMMD3	ENSG00000148444	ENST00000471350	protein_coding	PUTATIVE	None	23332	225	74	22607201	22608210	1	C10orf8	BUP
15	PDCD7	ENSG00000090470	ENST00000204549	protein_coding	KNOWN	CCDS10201	8767	1458	485	65409717	65426174	-1	None	HES18, ES18
15	PDCD7	ENSG00000090470	ENST00000560313	protein_coding	NOVEL	None	8767	309	102	65411097	65421508	-1	None	HES18, ES18
15	PDCD7	ENSG00000090470	ENST00000559051	retained_intron	KNOWN	None	8767	None	None	65411302	65412112	-1	None	HES18, ES18
20	None	ENSG00000265893	ENST00000581483	miRNA	NOVEL	None	None	None	None	43053692	43053781	-1	None	None
20	None	ENSG00000237907	ENST00000415299	antisense	KNOWN	None	None	None	None	43077417	43078732	-1	None	None
20	RPL37AP1	ENSG00000226243	ENST00000412502	processed_pseudogene	KNOWN	None	16548	None	None	43095204	43095482	-1	None	dJ1013A22.4
15	CLPX	ENSG00000166855	ENST00000300107	protein_coding	KNOWN	CCDS10202	2088	1902	633	65440557	65477680	-1	None	None
15	CLPX	ENSG00000166855	ENST00000559152	nonsense_mediated_decay	KNOWN	None	2088	807	268	65442852	65477554	-1	None	None
15	CLPX	ENSG00000166855	ENST00000560166	retained_intron	KNOWN	None	2088	None	None	65447017	65448189	-1	None	None
15	CLPX	ENSG00000166855	ENST00000558958	retained_intron	KNOWN	None	2088	None	None	65449024	65477680	-1	None	None
15	CLPX	ENSG00000166855	ENST00000558103	retained_intron	KNOWN	None	2088	None	None	65450529	65454985	-1	None	None
15	CLPX	ENSG00000166855	ENST00000559218	protein_coding	PUTATIVE	None	2088	391	129	65458989	65476822	-1	None	None
20	None	ENSG00000132832	ENST00000255183	antisense	KNOWN	None	None	None	None	43285092	43292139	-1	None	None
20	None	ENSG00000132832	ENST00000415889	antisense	KNOWN	None	None	None	None	43285092	43324737	-1	None	None
9	None	ENSG00000269305	ENST00000599351	protein_coding	KNOWN	None	None	141	46	4859120	4859260	-1	None	None
20	None	ENSG00000244558	ENST00000427598	antisense	KNOWN	None	None	None	None	43323533	43367537	-1	None	None
20	None	ENSG00000244558	ENST00000419931	antisense	KNOWN	None	None	None	None	43323717	43324725	-1	None	None
20	None	ENSG00000244558	ENST00000445420	antisense	KNOWN	None	None	None	None	43323843	43374636	-1	None	None
20	None	ENSG00000244558	ENST00000427303	antisense	KNOWN	None	None	None	None	43340503	43374662	-1	None	None
X	MORC4	ENSG00000133131	ENST00000604604	protein_coding	PUTATIVE	None	23485	115	37	106057101	106236570	-1	ZCWCC2	ZCW4, FLJ11565
X	MORC4	ENSG00000133131	ENST00000355610	protein_coding	KNOWN	CCDS14525	23485	2814	937	106183964	106243474	-1	ZCWCC2	ZCW4, FLJ11565
X	MORC4	ENSG00000133131	ENST00000255495	protein_coding	KNOWN	CCDS48146	23485	2703	900	106184654	106243308	-1	ZCWCC2	ZCW4, FLJ11565
X	MORC4	ENSG00000133131	ENST00000478924	retained_intron	KNOWN	None	23485	None	None	106184694	106185814	-1	ZCWCC2	ZCW4, FLJ11565
X	MORC4	ENSG00000133131	ENST00000535534	protein_coding	KNOWN	None	23485	1947	648	106183975	106243474	-1	ZCWCC2	ZCW4, FLJ11565
9	JAK2	ENSG00000096968	ENST00000476574	processed_transcript	KNOWN	None	6192	None	None	4985033	5022065	1	None	JTK10
9	JAK2	ENSG00000096968	ENST00000381652	protein_coding	KNOWN	CCDS6457	6192	3399	1132	4985245	5128183	1	None	JTK10
9	JAK2	ENSG00000096968	ENST00000487310	processed_transcript	KNOWN	None	6192	None	None	5125965	5126974	1	None	JTK10
9	JAK2	ENSG00000096968	ENST00000539801	protein_coding	KNOWN	CCDS6457	6192	3399	1132	4985086	5126814	1	None	JTK10
9	JAK2	ENSG00000096968	ENST00000544510	protein_coding	KNOWN	None	6192	2952	983	5041634	5126849	1	None	JTK10
8	DSCC1	ENSG00000136982	ENST00000313655	protein_coding	KNOWN	CCDS6330	24453	1182	393	120846216	120868250	-1	None	DCC1, hDCC1, MGC5528
8	DSCC1	ENSG00000136982	ENST00000521795	retained_intron	KNOWN	None	24453	None	None	120864998	120868098	-1	None	DCC1, hDCC1, MGC5528
8	ARFGEF1	ENSG00000066777	ENST00000520381	protein_coding	NOVEL	None	15772	3765	1254	68085747	68179679	-1	None	DKFZP434L057, BIG1, ARFGEP1, p200
8	ARFGEF1	ENSG00000066777	ENST00000522878	processed_transcript	KNOWN	None	15772	None	None	68087722	68123764	-1	None	DKFZP434L057, BIG1, ARFGEP1, p200
8	ARFGEF1	ENSG00000066777	ENST00000262215	protein_coding	KNOWN	CCDS6199	15772	5550	1849	68109884	68255912	-1	None	DKFZP434L057, BIG1, ARFGEP1, p200
8	ARFGEF1	ENSG00000066777	ENST00000518290	retained_intron	KNOWN	None	15772	None	None	68109909	68114040	-1	None	DKFZP434L057, BIG1, ARFGEP1, p200
8	ARFGEF1	ENSG00000066777	ENST00000517955	processed_transcript	PUTATIVE	None	15772	None	None	68110640	68114124	-1	None	DKFZP434L057, BIG1, ARFGEP1, p200
8	ARFGEF1	ENSG00000066777	ENST00000518789	protein_coding	PUTATIVE	None	15772	466	154	68111246	68119425	-1	None	DKFZP434L057, BIG1, ARFGEP1, p200
8	ARFGEF1	ENSG00000066777	ENST00000518230	protein_coding	NOVEL	None	15772	2109	702	68112164	68150732	-1	None	DKFZP434L057, BIG1, ARFGEP1, p200
8	ARFGEF1	ENSG00000066777	ENST00000517631	protein_coding	PUTATIVE	None	15772	366	121	68139469	68140368	-1	None	DKFZP434L057, BIG1, ARFGEP1, p200
8	ARFGEF1	ENSG00000066777	ENST00000519436	protein_coding	NOVEL	None	15772	354	117	68211549	68255912	-1	None	DKFZP434L057, BIG1, ARFGEP1, p200
8	DEPTOR	ENSG00000155792	ENST00000523492	protein_coding	NOVEL	None	22953	927	308	120885957	121062283	1	DEPDC6	DEP.6, FLJ12428
8	DEPTOR	ENSG00000155792	ENST00000286234	protein_coding	KNOWN	CCDS6331	22953	1230	409	120885957	121063152	1	DEPDC6	DEP.6, FLJ12428
8	DEPTOR	ENSG00000155792	ENST00000518057	processed_transcript	KNOWN	None	22953	None	None	120982028	121061830	1	DEPDC6	DEP.6, FLJ12428
X	USP9X	ENSG00000124486	ENST00000378308	protein_coding	KNOWN	CCDS55403	12632	7665	2554	40944888	41091850	1	None	DFFRX, FAF
X	USP9X	ENSG00000124486	ENST00000324545	protein_coding	KNOWN	CCDS43930	12632	7713	2570	40944888	41093672	1	None	DFFRX, FAF
X	USP9X	ENSG00000124486	ENST00000453805	nonsense_mediated_decay	KNOWN	None	12632	3057	1018	40982858	41091872	1	None	DFFRX, FAF
X	USP9X	ENSG00000124486	ENST00000467173	retained_intron	KNOWN	None	12632	None	None	41026398	41027495	1	None	DFFRX, FAF
X	USP9X	ENSG00000124486	ENST00000465386	retained_intron	KNOWN	None	12632	None	None	41043247	41043993	1	None	DFFRX, FAF
X	USP9X	ENSG00000124486	ENST00000463829	retained_intron	KNOWN	None	12632	None	None	41047319	41049175	1	None	DFFRX, FAF
X	USP9X	ENSG00000124486	ENST00000462850	nonsense_mediated_decay	KNOWN	None	12632	139	45	41055158	41057824	1	None	DFFRX, FAF
X	USP9X	ENSG00000124486	ENST00000487625	retained_intron	KNOWN	None	12632	None	None	41064312	41069907	1	None	DFFRX, FAF
X	USP9X	ENSG00000124486	ENST00000485180	retained_intron	KNOWN	None	12632	None	None	41088236	41089149	1	None	DFFRX, FAF
4	None	ENSG00000250038	ENST00000507759	protein_coding	PUTATIVE	None	None	309	102	28363901	28404323	-1	None	None
4	None	ENSG00000250038	ENST00000515720	protein_coding	PUTATIVE	None	None	189	62	28383119	28404486	-1	None	None
4	PCDH7	ENSG00000169851	ENST00000361762	protein_coding	KNOWN	CCDS33971	8659	3210	1069	30722037	30733590	1	None	BH-Pcdh
4	PCDH7	ENSG00000169851	ENST00000511884	protein_coding	PUTATIVE	None	8659	2812	936	30723977	31148422	1	None	BH-Pcdh
4	PCDH7	ENSG00000169851	ENST00000507864	processed_transcript	PUTATIVE	None	8659	None	None	30724672	30726218	1	None	BH-Pcdh
4	PCDH7	ENSG00000169851	ENST00000509925	processed_transcript	KNOWN	None	8659	None	None	30921775	30989429	1	None	BH-Pcdh
4	PCDH7	ENSG00000169851	ENST00000509759	processed_transcript	KNOWN	None	8659	None	None	30951771	31144353	1	None	BH-Pcdh
4	PCDH7	ENSG00000169851	ENST00000543491	protein_coding	KNOWN	CCDS54753	8659	3768	1255	30723045	31144471	1	None	BH-Pcdh
15	CILP	ENSG00000138615	ENST00000261883	protein_coding	KNOWN	CCDS10203	1980	3555	1184	65488337	65503826	-1	None	HsT18872
X	RIPPLY1	ENSG00000147223	ENST00000276173	protein_coding	KNOWN	CCDS48145	25117	456	151	106143293	106146547	-1	None	None
X	RIPPLY1	ENSG00000147223	ENST00000411805	protein_coding	KNOWN	CCDS55471	25117	315	104	106143556	106146565	-1	None	None
15	PARP16	ENSG00000138617	ENST00000559805	nonsense_mediated_decay	KNOWN	None	26040	217	71	65526798	65553345	-1	C15orf30	FLJ20509, FLJ25281, pART15
15	PARP16	ENSG00000138617	ENST00000261888	protein_coding	KNOWN	CCDS10204	26040	972	323	65550432	65579210	-1	C15orf30	FLJ20509, FLJ25281, pART15
15	PARP16	ENSG00000138617	ENST00000444347	protein_coding	NOVEL	None	26040	624	207	65550434	65579181	-1	C15orf30	FLJ20509, FLJ25281, pART15
15	PARP16	ENSG00000138617	ENST00000560149	processed_transcript	KNOWN	None	26040	None	None	65551624	65578704	-1	C15orf30	FLJ20509, FLJ25281, pART15
15	PARP16	ENSG00000138617	ENST00000558873	processed_transcript	KNOWN	None	26040	None	None	65558915	65592956	-1	C15orf30	FLJ20509, FLJ25281, pART15
4	ARAP2	ENSG00000047365	ENST00000503225	processed_transcript	KNOWN	None	16924	None	None	35949843	36075457	-1	CENTD1	PARX
4	ARAP2	ENSG00000047365	ENST00000513032	processed_transcript	KNOWN	None	16924	None	None	36006987	36047656	-1	CENTD1	PARX
4	ARAP2	ENSG00000047365	ENST00000505837	processed_transcript	KNOWN	None	16924	None	None	36047598	36048907	-1	CENTD1	PARX
4	ARAP2	ENSG00000047365	ENST00000303965	protein_coding	KNOWN	CCDS3441	16924	5115	1704	36067620	36246131	-1	CENTD1	PARX
4	ARAP2	ENSG00000047365	ENST00000512804	retained_intron	KNOWN	None	16924	None	None	36150063	36161363	-1	CENTD1	PARX
4	ARAP2	ENSG00000047365	ENST00000503904	processed_transcript	KNOWN	None	16924	None	None	36159026	36160417	-1	CENTD1	PARX
4	ARAP2	ENSG00000047365	ENST00000508066	retained_intron	KNOWN	None	16924	None	None	36161734	36245484	-1	CENTD1	PARX
4	ARAP2	ENSG00000047365	ENST00000511416	protein_coding	PUTATIVE	None	16924	152	49	36210997	36212367	-1	CENTD1	PARX
4	ARAP2	ENSG00000047365	ENST00000506189	protein_coding	KNOWN	None	16924	141	46	36230968	36245561	-1	CENTD1	PARX
6	SCGN	ENSG00000079689	ENST00000377961	protein_coding	KNOWN	CCDS4561	16941	831	276	25652464	25702011	1	None	SECRET, DJ501N12.8, SEGN, CALBL
6	SCGN	ENSG00000079689	ENST00000334979	protein_coding	KNOWN	None	16941	150	49	25652632	25701563	1	None	SECRET, DJ501N12.8, SEGN, CALBL
X	CLDN2	ENSG00000165376	ENST00000336803	protein_coding	KNOWN	CCDS14524	2041	693	230	106163634	106174091	1	None	None
X	CLDN2	ENSG00000165376	ENST00000541806	protein_coding	KNOWN	CCDS14524	2041	693	230	106143394	106174089	1	None	None
X	CLDN2	ENSG00000165376	ENST00000540876	protein_coding	KNOWN	CCDS14524	2041	693	230	106161590	106174089	1	None	None
X	RBM41	ENSG00000089682	ENST00000372487	protein_coding	KNOWN	CCDS55472	25617	1218	405	106307650	106362030	-1	None	FLJ11016
X	RBM41	ENSG00000089682	ENST00000495517	nonsense_mediated_decay	KNOWN	None	25617	936	311	106309530	106362053	-1	None	FLJ11016
X	RBM41	ENSG00000089682	ENST00000474499	processed_transcript	KNOWN	None	25617	None	None	106309875	106312507	-1	None	FLJ11016
X	RBM41	ENSG00000089682	ENST00000372479	protein_coding	KNOWN	CCDS14526	25617	1242	413	106310368	106362034	-1	None	FLJ11016
X	RBM41	ENSG00000089682	ENST00000434854	protein_coding	KNOWN	None	25617	610	202	106312540	106359996	-1	None	FLJ11016
X	RBM41	ENSG00000089682	ENST00000475556	processed_transcript	KNOWN	None	25617	None	None	106331666	106358684	-1	None	FLJ11016
X	RBM41	ENSG00000089682	ENST00000485676	processed_transcript	KNOWN	None	25617	None	None	106331756	106359998	-1	None	FLJ11016
X	RBM41	ENSG00000089682	ENST00000471079	processed_transcript	KNOWN	None	25617	None	None	106357530	106359996	-1	None	FLJ11016
X	RBM41	ENSG00000089682	ENST00000203616	protein_coding	KNOWN	None	25617	936	311	106313420	106362057	-1	None	FLJ11016
9	None	ENSG00000268155	ENST00000601793	protein_coding	NOVEL	None	None	66	21	5077163	5084580	-1	None	None
15	IGDCC3	ENSG00000174498	ENST00000327987	protein_coding	KNOWN	CCDS10205	9700	2445	814	65619465	65670378	-1	PUNC	HsT18880
15	IGDCC3	ENSG00000174498	ENST00000558354	protein_coding	NOVEL	None	9700	1605	534	65621917	65648710	-1	PUNC	HsT18880
15	IGDCC3	ENSG00000174498	ENST00000559231	processed_transcript	KNOWN	None	9700	None	None	65623442	65626979	-1	PUNC	HsT18880
15	IGDCC3	ENSG00000174498	ENST00000559058	protein_coding	PUTATIVE	None	9700	411	136	65627109	65648249	-1	PUNC	HsT18880
15	IGDCC3	ENSG00000174498	ENST00000559947	retained_intron	KNOWN	None	9700	None	None	65665827	65667638	-1	PUNC	HsT18880
9	INSL6	ENSG00000120210	ENST00000510407	processed_transcript	KNOWN	None	6089	None	None	5131979	5164251	-1	None	RIF1
9	INSL6	ENSG00000120210	ENST00000381641	protein_coding	KNOWN	CCDS6458	6089	642	213	5163863	5185668	-1	None	RIF1
8	CPA6	ENSG00000165078	ENST00000479862	nonsense_mediated_decay	KNOWN	None	17245	279	92	68334360	68658578	-1	None	CPAH
8	CPA6	ENSG00000165078	ENST00000297770	protein_coding	KNOWN	CCDS6200	17245	1314	437	68334408	68658580	-1	None	CPAH
8	CPA6	ENSG00000165078	ENST00000518549	protein_coding	KNOWN	None	17245	948	315	68395517	68658578	-1	None	CPAH
8	CPA6	ENSG00000165078	ENST00000297769	protein_coding	KNOWN	None	17245	582	193	68334405	68658620	-1	None	CPAH
20	RN7SL31P	ENSG00000263911	ENST00000579266	misc_RNA	KNOWN	None	46047	None	None	43509479	43509775	-1	None	None
4	G3BP2	ENSG00000138757	ENST00000395719	protein_coding	KNOWN	CCDS3571	30291	1449	482	76567966	76598298	-1	None	KIAA0660
4	G3BP2	ENSG00000138757	ENST00000359707	protein_coding	KNOWN	CCDS3571	30291	1449	482	76567966	76599153	-1	None	KIAA0660
4	G3BP2	ENSG00000138757	ENST00000357854	protein_coding	KNOWN	CCDS3572	30291	1350	449	76569573	76598585	-1	None	KIAA0660
4	G3BP2	ENSG00000138757	ENST00000507133	retained_intron	KNOWN	None	30291	None	None	76571639	76574286	-1	None	KIAA0660
4	G3BP2	ENSG00000138757	ENST00000507947	retained_intron	KNOWN	None	30291	None	None	76580098	76582878	-1	None	KIAA0660
4	G3BP2	ENSG00000138757	ENST00000510902	nonsense_mediated_decay	KNOWN	None	30291	72	23	76580250	76584080	-1	None	KIAA0660
4	G3BP2	ENSG00000138757	ENST00000503660	protein_coding	KNOWN	None	30291	595	197	76580381	76598341	-1	None	KIAA0660
4	G3BP2	ENSG00000138757	ENST00000502654	processed_transcript	KNOWN	None	30291	None	None	76581027	76598562	-1	None	KIAA0660
4	G3BP2	ENSG00000138757	ENST00000507745	protein_coding	KNOWN	None	30291	425	140	76582125	76597865	-1	None	KIAA0660
4	G3BP2	ENSG00000138757	ENST00000513927	processed_transcript	KNOWN	None	30291	None	None	76582157	76598330	-1	None	KIAA0660
4	G3BP2	ENSG00000138757	ENST00000509100	protein_coding	KNOWN	None	30291	375	124	76582175	76598111	-1	None	KIAA0660
4	G3BP2	ENSG00000138757	ENST00000511146	protein_coding	KNOWN	None	30291	347	114	76582745	76597895	-1	None	KIAA0660
4	G3BP2	ENSG00000138757	ENST00000515457	protein_coding	KNOWN	None	30291	332	109	76582760	76598571	-1	None	KIAA0660
4	G3BP2	ENSG00000138757	ENST00000507252	protein_coding	KNOWN	None	30291	307	101	76582785	76597865	-1	None	KIAA0660
4	G3BP2	ENSG00000138757	ENST00000511868	protein_coding	KNOWN	None	30291	299	98	76582793	76649709	-1	None	KIAA0660
4	G3BP2	ENSG00000138757	ENST00000509561	protein_coding	KNOWN	None	30291	233	76	76582859	76649629	-1	None	KIAA0660
4	G3BP2	ENSG00000138757	ENST00000508510	protein_coding	KNOWN	None	30291	177	58	76584027	76649559	-1	None	KIAA0660
4	G3BP2	ENSG00000138757	ENST00000499709	protein_coding	KNOWN	None	30291	168	55	76584036	76649654	-1	None	KIAA0660
4	G3BP2	ENSG00000138757	ENST00000507701	retained_intron	KNOWN	None	30291	None	None	76586699	76598534	-1	None	KIAA0660
9	INSL4	ENSG00000120211	ENST00000239316	protein_coding	KNOWN	CCDS6459	6087	420	139	5231419	5235304	1	None	EPIL
20	STK4-AS1	ENSG00000227477	ENST00000434401	processed_transcript	KNOWN	None	43811	None	None	43592435	43595043	-1	None	None
20	STK4-AS1	ENSG00000227477	ENST00000445571	processed_transcript	PUTATIVE	None	43811	None	None	43592441	43594258	-1	None	None
9	RLN2	ENSG00000107014	ENST00000381627	protein_coding	KNOWN	CCDS6460	10027	558	185	5299868	5304969	-1	None	H2, RLXH2, bA12D24.1.1, bA12D24.1.2
9	RLN2	ENSG00000107014	ENST00000416837	protein_coding	PUTATIVE	None	10027	206	67	5299876	5304432	-1	None	H2, RLXH2, bA12D24.1.1, bA12D24.1.2
9	RLN2	ENSG00000107014	ENST00000308420	protein_coding	KNOWN	None	10027	354	117	5299868	5304580	-1	None	H2, RLXH2, bA12D24.1.1, bA12D24.1.2
9	RLN1	ENSG00000107018	ENST00000487557	processed_transcript	KNOWN	None	10026	None	None	5334969	5339396	-1	None	H1
9	RLN1	ENSG00000107018	ENST00000223862	protein_coding	KNOWN	CCDS6462	10026	558	185	5334969	5339873	-1	None	H1
9	RLN1	ENSG00000107018	ENST00000223858	protein_coding	KNOWN	None	10026	354	117	5334969	5339873	-1	None	H1
20	None	ENSG00000252021	ENST00000516212	misc_RNA	NOVEL	None	None	None	None	43632989	43633095	1	None	None
20	None	ENSG00000233352	ENST00000422041	unprocessed_pseudogene	KNOWN	None	None	None	None	43858458	43858832	1	None	None
X	NUP62CL	ENSG00000198088	ENST00000372466	protein_coding	KNOWN	CCDS14527	25960	555	184	106366657	106449663	-1	None	FLJ20130
X	NUP62CL	ENSG00000198088	ENST00000484614	nonsense_mediated_decay	KNOWN	None	25960	219	72	106366702	106449663	-1	None	FLJ20130
X	NUP62CL	ENSG00000198088	ENST00000432145	protein_coding	KNOWN	None	25960	595	197	106367378	106397464	-1	None	FLJ20130
X	NUP62CL	ENSG00000198088	ENST00000421752	protein_coding	KNOWN	None	25960	410	135	106396522	106449663	-1	None	FLJ20130
X	NUP62CL	ENSG00000198088	ENST00000372461	protein_coding	KNOWN	None	25960	219	72	106366660	106449670	-1	None	FLJ20130
20	None	ENSG00000243995	ENST00000461248	processed_transcript	PUTATIVE	None	None	None	None	43859509	43861972	1	None	None
20	None	ENSG00000243995	ENST00000486547	unitary_pseudogene	KNOWN	None	None	None	None	43859583	43860069	1	None	None
20	None	ENSG00000232880	ENST00000452541	processed_pseudogene	KNOWN	None	None	None	None	44016987	44017345	-1	None	None
15	IGDCC4	ENSG00000103742	ENST00000352385	protein_coding	NOVEL	CCDS10206	13770	3753	1250	65673802	65715410	-1	None	NOPE, LOC57722
15	IGDCC4	ENSG00000103742	ENST00000558048	processed_transcript	KNOWN	None	13770	None	None	65673825	65678108	-1	None	NOPE, LOC57722
15	IGDCC4	ENSG00000103742	ENST00000559327	retained_intron	KNOWN	None	13770	None	None	65673825	65688767	-1	None	NOPE, LOC57722
15	IGDCC4	ENSG00000103742	ENST00000561309	retained_intron	KNOWN	None	13770	None	None	65677186	65678369	-1	None	NOPE, LOC57722
15	IGDCC4	ENSG00000103742	ENST00000560319	retained_intron	KNOWN	None	13770	None	None	65677954	65678983	-1	None	NOPE, LOC57722
15	IGDCC4	ENSG00000103742	ENST00000558819	retained_intron	KNOWN	None	13770	None	None	65702704	65703423	-1	None	NOPE, LOC57722
9	PLGRKT	ENSG00000107020	ENST00000223864	protein_coding	KNOWN	CCDS6463	23633	444	147	5357973	5437878	-1	C9orf46	MDS030, FLJ14688, AD025, Plg-RKT
9	PLGRKT	ENSG00000107020	ENST00000482696	processed_transcript	KNOWN	None	23633	None	None	5361758	5437867	-1	C9orf46	MDS030, FLJ14688, AD025, Plg-RKT
9	PLGRKT	ENSG00000107020	ENST00000472145	processed_transcript	KNOWN	None	23633	None	None	5361781	5437706	-1	C9orf46	MDS030, FLJ14688, AD025, Plg-RKT
9	PLGRKT	ENSG00000107020	ENST00000473877	processed_transcript	KNOWN	None	23633	None	None	5392333	5436694	-1	C9orf46	MDS030, FLJ14688, AD025, Plg-RKT
8	TNFRSF10C	ENSG00000173535	ENST00000397703	protein_coding	PUTATIVE	None	11906	468	155	22941868	22961071	1	None	DcR1, TRAILR3, LIT, TRID, CD263
8	TNFRSF10C	ENSG00000173535	ENST00000520607	processed_transcript	KNOWN	None	11906	None	None	22941916	22973049	1	None	DcR1, TRAILR3, LIT, TRID, CD263
8	TNFRSF10C	ENSG00000173535	ENST00000356864	protein_coding	KNOWN	CCDS6037	11906	780	259	22960103	22974950	1	None	DcR1, TRAILR3, LIT, TRID, CD263
8	TNFRSF10C	ENSG00000173535	ENST00000517558	nonsense_mediated_decay	KNOWN	None	11906	204	67	22960434	22974563	1	None	DcR1, TRAILR3, LIT, TRID, CD263
8	TNFRSF10C	ENSG00000173535	ENST00000518135	retained_intron	KNOWN	None	11906	None	None	22972020	22974187	1	None	DcR1, TRAILR3, LIT, TRID, CD263
8	TNFRSF10C	ENSG00000173535	ENST00000540813	protein_coding	KNOWN	None	11906	474	157	22960434	22974563	1	None	DcR1, TRAILR3, LIT, TRID, CD263
8	PREX2	ENSG00000046889	ENST00000288368	protein_coding	KNOWN	CCDS6201	22950	4821	1606	68864353	69149265	1	DEPDC2	DEP.2, FLJ12987, P-REX2
8	PREX2	ENSG00000046889	ENST00000529398	processed_transcript	KNOWN	None	22950	None	None	68864603	69018242	1	DEPDC2	DEP.2, FLJ12987, P-REX2
8	PREX2	ENSG00000046889	ENST00000517617	processed_transcript	KNOWN	None	22950	None	None	68864724	69023324	1	DEPDC2	DEP.2, FLJ12987, P-REX2
8	PREX2	ENSG00000046889	ENST00000522247	processed_transcript	KNOWN	None	22950	None	None	69069610	69104865	1	DEPDC2	DEP.2, FLJ12987, P-REX2
8	PREX2	ENSG00000046889	ENST00000520235	processed_transcript	KNOWN	None	22950	None	None	69069642	69132585	1	DEPDC2	DEP.2, FLJ12987, P-REX2
9	CD274	ENSG00000120217	ENST00000381577	protein_coding	KNOWN	CCDS6464	17635	873	290	5450525	5470547	1	PDCD1LG1	B7-H, B7H1, PD-L1, PDL1, B7-H1
9	CD274	ENSG00000120217	ENST00000498261	processed_transcript	KNOWN	None	17635	None	None	5456114	5467866	1	PDCD1LG1	B7-H, B7H1, PD-L1, PDL1, B7-H1
9	CD274	ENSG00000120217	ENST00000474218	processed_transcript	KNOWN	None	17635	None	None	5457384	5463238	1	PDCD1LG1	B7-H, B7H1, PD-L1, PDL1, B7-H1
9	CD274	ENSG00000120217	ENST00000492923	processed_transcript	KNOWN	None	17635	None	None	5462935	5465912	1	PDCD1LG1	B7-H, B7H1, PD-L1, PDL1, B7-H1
9	CD274	ENSG00000120217	ENST00000381573	protein_coding	KNOWN	CCDS59118	17635	531	176	5450503	5470566	1	PDCD1LG1	B7-H, B7H1, PD-L1, PDL1, B7-H1
X	PIH1D3	ENSG00000080572	ENST00000372453	protein_coding	KNOWN	CCDS14528	28570	645	214	106449862	106487473	1	CXorf41	MGC35261, NYSAR97
X	PIH1D3	ENSG00000080572	ENST00000336387	protein_coding	KNOWN	CCDS14528	28570	645	214	106450378	106486594	1	CXorf41	MGC35261, NYSAR97
X	PIH1D3	ENSG00000080572	ENST00000535523	protein_coding	KNOWN	CCDS14528	28570	645	214	106449862	106487472	1	CXorf41	MGC35261, NYSAR97
20	None	ENSG00000234011	ENST00000424705	lincRNA	KNOWN	None	None	None	None	44076042	44076982	1	None	None
20	None	ENSG00000237464	ENST00000417630	antisense	KNOWN	None	None	None	None	44116253	44118888	1	None	None
20	RPL5P2	ENSG00000237068	ENST00000429598	processed_pseudogene	KNOWN	None	16568	None	None	44119458	44120311	-1	None	dJ461P17.5
20	None	ENSG00000232135	ENST00000437445	processed_pseudogene	KNOWN	None	None	None	None	44165435	44165653	-1	None	None
20	HSPD1P21	ENSG00000229900	ENST00000436541	processed_pseudogene	KNOWN	None	38592	None	None	44168622	44168866	-1	None	HSPD1-3P
20	RNA5SP485	ENSG00000201923	ENST00000365053	rRNA	KNOWN	None	43385	None	None	44188397	44188515	-1	RN5S485	None
20	CCNB1IP1P2	ENSG00000230860	ENST00000432876	processed_pseudogene	KNOWN	None	37694	None	None	44196629	44197446	-1	None	None
20	RPS2P7	ENSG00000235508	ENST00000447334	processed_pseudogene	KNOWN	None	15838	None	None	44269125	44270009	-1	RPS2L1	dJ688G8.1
20	RPS2P7	ENSG00000235508	ENST00000395947	processed_pseudogene	KNOWN	None	15838	None	None	44269458	44270009	-1	RPS2L1	dJ688G8.1
15	DPP8	ENSG00000074603	ENST00000341861	protein_coding	KNOWN	CCDS10207	16490	2697	898	65734801	65809611	-1	None	DP8, DPRP1, MSTP141, FLJ14920, FLJ20283, MGC26191
15	DPP8	ENSG00000074603	ENST00000358939	protein_coding	KNOWN	CCDS10209	16490	2349	782	65738955	65810018	-1	None	DP8, DPRP1, MSTP141, FLJ14920, FLJ20283, MGC26191
15	DPP8	ENSG00000074603	ENST00000300141	protein_coding	KNOWN	CCDS10210	16490	2649	882	65738957	65810037	-1	None	DP8, DPRP1, MSTP141, FLJ14920, FLJ20283, MGC26191
15	DPP8	ENSG00000074603	ENST00000321147	protein_coding	KNOWN	CCDS10208	16490	2544	847	65738959	65810042	-1	None	DP8, DPRP1, MSTP141, FLJ14920, FLJ20283, MGC26191
15	DPP8	ENSG00000074603	ENST00000558786	protein_coding	NOVEL	None	16490	935	310	65738975	65759530	-1	None	DP8, DPRP1, MSTP141, FLJ14920, FLJ20283, MGC26191
15	DPP8	ENSG00000074603	ENST00000559233	protein_coding	NOVEL	CCDS10207	16490	2697	898	65739078	65808142	-1	None	DP8, DPRP1, MSTP141, FLJ14920, FLJ20283, MGC26191
15	DPP8	ENSG00000074603	ENST00000395652	nonsense_mediated_decay	KNOWN	None	16490	2190	729	65739079	65808142	-1	None	DP8, DPRP1, MSTP141, FLJ14920, FLJ20283, MGC26191
15	DPP8	ENSG00000074603	ENST00000560048	processed_transcript	KNOWN	None	16490	None	None	65743077	65748029	-1	None	DP8, DPRP1, MSTP141, FLJ14920, FLJ20283, MGC26191
15	DPP8	ENSG00000074603	ENST00000558559	protein_coding	NOVEL	None	16490	1083	360	65744382	65782624	-1	None	DP8, DPRP1, MSTP141, FLJ14920, FLJ20283, MGC26191
15	DPP8	ENSG00000074603	ENST00000560597	retained_intron	KNOWN	None	16490	None	None	65747732	65756183	-1	None	DP8, DPRP1, MSTP141, FLJ14920, FLJ20283, MGC26191
15	DPP8	ENSG00000074603	ENST00000558363	processed_transcript	KNOWN	None	16490	None	None	65748625	65759493	-1	None	DP8, DPRP1, MSTP141, FLJ14920, FLJ20283, MGC26191
15	DPP8	ENSG00000074603	ENST00000559526	protein_coding	NOVEL	None	16490	488	161	65790255	65810001	-1	None	DP8, DPRP1, MSTP141, FLJ14920, FLJ20283, MGC26191
15	DPP8	ENSG00000074603	ENST00000558529	protein_coding	PUTATIVE	None	16490	658	218	65790289	65805169	-1	None	DP8, DPRP1, MSTP141, FLJ14920, FLJ20283, MGC26191
15	DPP8	ENSG00000074603	ENST00000560436	protein_coding	PUTATIVE	None	16490	360	119	65799641	65809676	-1	None	DP8, DPRP1, MSTP141, FLJ14920, FLJ20283, MGC26191
15	DPP8	ENSG00000074603	ENST00000560194	processed_transcript	KNOWN	None	16490	None	None	65804299	65809966	-1	None	DP8, DPRP1, MSTP141, FLJ14920, FLJ20283, MGC26191
15	DPP8	ENSG00000074603	ENST00000560665	protein_coding	PUTATIVE	None	16490	252	83	65804640	65810019	-1	None	DP8, DPRP1, MSTP141, FLJ14920, FLJ20283, MGC26191
15	DPP8	ENSG00000074603	ENST00000321118	protein_coding	KNOWN	None	16490	2550	849	65738975	65810026	-1	None	DP8, DPRP1, MSTP141, FLJ14920, FLJ20283, MGC26191
15	DPP8	ENSG00000074603	ENST00000339244	protein_coding	KNOWN	None	16490	2178	725	65738975	65810026	-1	None	DP8, DPRP1, MSTP141, FLJ14920, FLJ20283, MGC26191
X	FRMPD3	ENSG00000147234	ENST00000439554	protein_coding	NOVEL	None	29382	5277	1758	106769876	106848481	1	None	RP5-1070B1.1, KIAA1817
X	FRMPD3	ENSG00000147234	ENST00000477796	processed_transcript	KNOWN	None	29382	None	None	106787813	106798427	1	None	RP5-1070B1.1, KIAA1817
X	FRMPD3	ENSG00000147234	ENST00000276185	protein_coding	KNOWN	None	29382	5433	1810	106765680	106846603	1	None	RP5-1070B1.1, KIAA1817
9	PDCD1LG2	ENSG00000197646	ENST00000397747	protein_coding	KNOWN	CCDS6465	18731	822	273	5510570	5571252	1	None	PD-L2, Btdc, PDL2, bA574F11.2, CD273, B7-DC
9	PDCD1LG2	ENSG00000197646	ENST00000397745	protein_coding	KNOWN	None	18731	552	183	5510545	5571282	1	None	PD-L2, Btdc, PDL2, bA574F11.2, CD273, B7-DC
X	PRPS1	ENSG00000147224	ENST00000372435	protein_coding	KNOWN	CCDS14529	9462	957	318	106871737	106894256	1	DFN2	CMTX5, DFNX1
X	PRPS1	ENSG00000147224	ENST00000372419	protein_coding	KNOWN	None	9462	507	168	106871760	106884354	1	DFN2	CMTX5, DFNX1
X	PRPS1	ENSG00000147224	ENST00000372418	protein_coding	KNOWN	None	9462	657	218	106882588	106893531	1	DFN2	CMTX5, DFNX1
X	PRPS1	ENSG00000147224	ENST00000543248	protein_coding	KNOWN	CCDS14529	9462	957	318	106871793	106893487	1	DFN2	CMTX5, DFNX1
X	PRPS1	ENSG00000147224	ENST00000372428	protein_coding	KNOWN	None	9462	756	251	106871745	106893480	1	DFN2	CMTX5, DFNX1
15	IVD	ENSG00000128928	ENST00000490194	processed_transcript	KNOWN	None	6186	None	None	40697996	40703550	1	None	ACAD2
15	IVD	ENSG00000128928	ENST00000487418	protein_coding	KNOWN	CCDS10057	6186	1281	426	40697996	40710966	1	None	ACAD2
15	IVD	ENSG00000128928	ENST00000479013	protein_coding	KNOWN	CCDS53930	6186	1191	396	40697996	40713498	1	None	ACAD2
15	IVD	ENSG00000128928	ENST00000558610	protein_coding	PUTATIVE	None	6186	638	211	40698275	40703889	1	None	ACAD2
15	IVD	ENSG00000128928	ENST00000473112	protein_coding	PUTATIVE	None	6186	920	305	40700145	40727755	1	None	ACAD2
15	IVD	ENSG00000128928	ENST00000484250	retained_intron	KNOWN	None	6186	None	None	40702918	40705377	1	None	ACAD2
15	IVD	ENSG00000128928	ENST00000481262	nonsense_mediated_decay	KNOWN	None	6186	437	144	40702935	40727964	1	None	ACAD2
15	IVD	ENSG00000128928	ENST00000491554	protein_coding	PUTATIVE	None	6186	732	243	40703807	40728146	1	None	ACAD2
15	IVD	ENSG00000128928	ENST00000497252	processed_transcript	KNOWN	None	6186	None	None	40704811	40710374	1	None	ACAD2
15	IVD	ENSG00000128928	ENST00000560660	retained_intron	KNOWN	None	6186	None	None	40706605	40707660	1	None	ACAD2
15	IVD	ENSG00000128928	ENST00000497816	retained_intron	KNOWN	None	6186	None	None	40707345	40711356	1	None	ACAD2
15	IVD	ENSG00000128928	ENST00000559575	protein_coding	PUTATIVE	None	6186	124	40	40708354	40711572	1	None	ACAD2
15	IVD	ENSG00000128928	ENST00000466756	protein_coding	PUTATIVE	None	6186	175	57	40708366	40716672	1	None	ACAD2
15	IVD	ENSG00000128928	ENST00000249760	protein_coding	KNOWN	None	6186	1272	423	40697686	40713512	1	None	ACAD2
20	MIR3617	ENSG00000266071	ENST00000577518	miRNA	KNOWN	None	38977	None	None	44333741	44333819	-1	None	hsa-mir-3617
20	HNRNPA1P3	ENSG00000226188	ENST00000440968	processed_pseudogene	KNOWN	None	16567	None	None	44374376	44374926	-1	HNRPA1P3	dJ447F3.1
20	SPINT5P	ENSG00000168630	ENST00000448174	processed_pseudogene	KNOWN	None	16161	None	None	44378559	44378713	1	C20orf168	dJ447F3.6
20	RNU6ATAC38P	ENSG00000221046	ENST00000408119	snRNA	KNOWN	None	46937	None	None	44407337	44407462	1	None	None
20	None	ENSG00000271984	ENST00000607703	antisense	KNOWN	None	None	None	None	44521333	44522058	-1	None	None
20	FTLP1	ENSG00000235525	ENST00000449155	processed_pseudogene	KNOWN	None	16547	None	None	44603888	44604714	-1	FTLP	bA465L10.3
20	None	ENSG00000203346	ENST00000366171	pseudogene	NOVEL	None	None	None	None	44644111	44644231	1	None	None
20	None	ENSG00000204044	ENST00000419897	antisense	KNOWN	None	None	None	None	44649258	44650366	-1	None	None
20	None	ENSG00000204044	ENST00000535913	antisense	KNOWN	None	None	None	None	44642141	44650712	-1	None	None
9	KIAA1432	ENSG00000107036	ENST00000251879	protein_coding	NOVEL	CCDS47949	17686	3498	1165	5629025	5769674	1	None	bA207C16.1
9	KIAA1432	ENSG00000107036	ENST00000414202	protein_coding	NOVEL	CCDS34982	17686	4272	1423	5629119	5776557	1	None	bA207C16.1
9	KIAA1432	ENSG00000107036	ENST00000545641	protein_coding	NOVEL	None	17686	3946	1314	5656654	5774298	1	None	bA207C16.1
9	KIAA1432	ENSG00000107036	ENST00000276898	retained_intron	KNOWN	None	17686	None	None	5712845	5769106	1	None	bA207C16.1
9	KIAA1432	ENSG00000107036	ENST00000545243	nonsense_mediated_decay	KNOWN	None	17686	490	162	5763397	5775238	1	None	bA207C16.1
9	KIAA1432	ENSG00000107036	ENST00000490816	protein_coding	PUTATIVE	None	17686	444	147	5770206	5773204	1	None	bA207C16.1
9	KIAA1432	ENSG00000107036	ENST00000418622	protein_coding	KNOWN	None	17686	4035	1344	5656583	5776552	1	None	bA207C16.1
9	KIAA1432	ENSG00000107036	ENST00000449720	protein_coding	KNOWN	None	17686	3924	1307	5656654	5774298	1	None	bA207C16.1
9	KIAA1432	ENSG00000107036	ENST00000381532	protein_coding	KNOWN	None	17686	3261	1086	5629327	5769452	1	None	bA207C16.1
20	None	ENSG00000240742	ENST00000428198	processed_transcript	PUTATIVE	None	None	None	None	44650415	44656438	1	None	None
20	None	ENSG00000240742	ENST00000413737	processed_transcript	PUTATIVE	None	None	None	None	44650489	44652228	1	None	None
8	TNFRSF10D	ENSG00000173530	ENST00000312584	protein_coding	KNOWN	CCDS6038	11907	1161	386	22993101	23021543	-1	None	DcR2, TRUNDD, TRAILR4, CD264
4	DTHD1	ENSG00000197057	ENST00000357504	protein_coding	KNOWN	None	37261	1851	616	36283244	36346407	1	None	FLJ16686
4	DTHD1	ENSG00000197057	ENST00000507598	protein_coding	NOVEL	None	37261	2466	821	36285484	36345488	1	None	FLJ16686
4	DTHD1	ENSG00000197057	ENST00000506008	processed_transcript	KNOWN	None	37261	None	None	36317206	36318108	1	None	FLJ16686
4	DTHD1	ENSG00000197057	ENST00000503528	processed_transcript	KNOWN	None	37261	None	None	36334363	36347378	1	None	FLJ16686
4	DTHD1	ENSG00000197057	ENST00000456874	protein_coding	KNOWN	CCDS54754	37261	2346	781	36285644	36347377	1	None	FLJ16686
X	TSC22D3	ENSG00000157514	ENST00000372390	protein_coding	KNOWN	CCDS35365	3051	234	77	106956451	106959775	-1	DSIPI	DIP, GILZ, TSC-22R, hDIP
X	TSC22D3	ENSG00000157514	ENST00000372397	protein_coding	KNOWN	CCDS14531	3051	405	134	106956451	106960365	-1	DSIPI	DIP, GILZ, TSC-22R, hDIP
X	TSC22D3	ENSG00000157514	ENST00000315660	protein_coding	KNOWN	CCDS14530	3051	603	200	106956451	107019215	-1	DSIPI	DIP, GILZ, TSC-22R, hDIP
X	TSC22D3	ENSG00000157514	ENST00000372383	protein_coding	KNOWN	CCDS14530	3051	603	200	106956454	107019017	-1	DSIPI	DIP, GILZ, TSC-22R, hDIP
X	TSC22D3	ENSG00000157514	ENST00000372384	protein_coding	KNOWN	CCDS14530	3051	603	200	106956454	107019218	-1	DSIPI	DIP, GILZ, TSC-22R, hDIP
X	TSC22D3	ENSG00000157514	ENST00000372382	protein_coding	PUTATIVE	None	3051	333	110	106957230	106965502	-1	DSIPI	DIP, GILZ, TSC-22R, hDIP
X	TSC22D3	ENSG00000157514	ENST00000506081	protein_coding	KNOWN	CCDS14530	3051	603	200	106957600	107020297	-1	DSIPI	DIP, GILZ, TSC-22R, hDIP
X	TSC22D3	ENSG00000157514	ENST00000514426	protein_coding	PUTATIVE	None	3051	399	132	106957717	107020308	-1	DSIPI	DIP, GILZ, TSC-22R, hDIP
X	TSC22D3	ENSG00000157514	ENST00000486554	protein_coding	KNOWN	None	3051	76	24	106957907	106959631	-1	DSIPI	DIP, GILZ, TSC-22R, hDIP
X	TSC22D3	ENSG00000157514	ENST00000503515	protein_coding	PUTATIVE	None	3051	300	99	106959003	106960292	-1	DSIPI	DIP, GILZ, TSC-22R, hDIP
X	TSC22D3	ENSG00000157514	ENST00000514897	protein_coding	KNOWN	None	3051	373	123	106959128	107020572	-1	DSIPI	DIP, GILZ, TSC-22R, hDIP
X	TSC22D3	ENSG00000157514	ENST00000480691	protein_coding	KNOWN	None	3051	368	121	106959133	107020285	-1	DSIPI	DIP, GILZ, TSC-22R, hDIP
X	TSC22D3	ENSG00000157514	ENST00000510887	protein_coding	KNOWN	None	3051	359	118	106959142	107019944	-1	DSIPI	DIP, GILZ, TSC-22R, hDIP
X	TSC22D3	ENSG00000157514	ENST00000502650	protein_coding	KNOWN	None	3051	348	115	106959153	107019345	-1	DSIPI	DIP, GILZ, TSC-22R, hDIP
X	TSC22D3	ENSG00000157514	ENST00000506724	protein_coding	KNOWN	None	3051	302	99	107018348	107019488	-1	DSIPI	DIP, GILZ, TSC-22R, hDIP
X	TSC22D3	ENSG00000157514	ENST00000505965	protein_coding	KNOWN	None	3051	253	83	107018397	107020567	-1	DSIPI	DIP, GILZ, TSC-22R, hDIP
X	TSC22D3	ENSG00000157514	ENST00000502961	protein_coding	KNOWN	None	3051	174	57	107018476	107020559	-1	DSIPI	DIP, GILZ, TSC-22R, hDIP
20	RPL13P2	ENSG00000213820	ENST00000440687	processed_pseudogene	KNOWN	None	16342	None	None	44728157	44728815	1	RPL13P3	dJ599F21.2
4	KIAA1239	ENSG00000174145	ENST00000309447	protein_coding	KNOWN	CCDS47040	29229	5229	1742	37245842	37451087	1	None	None
20	None	ENSG00000229957	ENST00000450586	lincRNA	KNOWN	None	None	None	None	44797043	44799876	-1	None	None
8	None	ENSG00000248801	ENST00000512294	protein_coding	PUTATIVE	None	None	294	97	69215703	69243726	-1	None	None
8	None	ENSG00000248801	ENST00000584858	processed_transcript	KNOWN	None	None	None	None	69216867	69224452	-1	None	None
4	C4orf19	ENSG00000154274	ENST00000381980	protein_coding	KNOWN	CCDS3442	25618	945	314	37455563	37593448	1	None	FLJ11017
4	C4orf19	ENSG00000154274	ENST00000508175	protein_coding	PUTATIVE	None	25618	117	38	37455610	37625117	1	None	FLJ11017
4	C4orf19	ENSG00000154274	ENST00000284437	protein_coding	KNOWN	CCDS3442	25618	945	314	37585855	37593448	1	None	FLJ11017
20	None	ENSG00000215452	ENST00000400371	processed_transcript	KNOWN	None	None	None	None	45042867	45087915	-1	None	None
20	None	ENSG00000215452	ENST00000472805	unitary_pseudogene	KNOWN	None	None	None	None	45084226	45085724	-1	None	None
9	TNC	ENSG00000041982	ENST00000350763	protein_coding	KNOWN	CCDS6811	5318	6606	2201	117782813	117880536	-1	HXB	TN, MGC167029, DFNA56
9	TNC	ENSG00000041982	ENST00000341037	protein_coding	NOVEL	None	5318	6060	2019	117782839	117853426	-1	HXB	TN, MGC167029, DFNA56
9	TNC	ENSG00000041982	ENST00000423613	protein_coding	NOVEL	None	5318	5787	1928	117783225	117875036	-1	HXB	TN, MGC167029, DFNA56
9	TNC	ENSG00000041982	ENST00000537320	protein_coding	NOVEL	None	5318	4695	1564	117783308	117853420	-1	HXB	TN, MGC167029, DFNA56
9	TNC	ENSG00000041982	ENST00000542877	protein_coding	NOVEL	None	5318	5517	1838	117783436	117853297	-1	HXB	TN, MGC167029, DFNA56
9	TNC	ENSG00000041982	ENST00000544972	protein_coding	NOVEL	None	5318	1844	613	117791651	117827191	-1	HXB	TN, MGC167029, DFNA56
9	TNC	ENSG00000041982	ENST00000460345	processed_transcript	KNOWN	None	5318	None	None	117792536	117798175	-1	HXB	TN, MGC167029, DFNA56
9	TNC	ENSG00000041982	ENST00000498724	processed_transcript	KNOWN	None	5318	None	None	117798381	117835920	-1	HXB	TN, MGC167029, DFNA56
9	TNC	ENSG00000041982	ENST00000476680	processed_transcript	KNOWN	None	5318	None	None	117798464	117825447	-1	HXB	TN, MGC167029, DFNA56
9	TNC	ENSG00000041982	ENST00000473855	processed_transcript	KNOWN	None	5318	None	None	117808746	117836051	-1	HXB	TN, MGC167029, DFNA56
9	TNC	ENSG00000041982	ENST00000481475	processed_transcript	KNOWN	None	5318	None	None	117810539	117818028	-1	HXB	TN, MGC167029, DFNA56
9	TNC	ENSG00000041982	ENST00000534839	protein_coding	KNOWN	None	5318	276	91	117853022	117880478	-1	HXB	TN, MGC167029, DFNA56
9	TNC	ENSG00000041982	ENST00000340094	protein_coding	KNOWN	None	5318	5514	1837	117782806	117880486	-1	HXB	TN, MGC167029, DFNA56
9	TNC	ENSG00000041982	ENST00000535648	protein_coding	KNOWN	None	5318	5241	1746	117782806	117880486	-1	HXB	TN, MGC167029, DFNA56
9	TNC	ENSG00000041982	ENST00000346706	protein_coding	KNOWN	None	5318	4968	1655	117782806	117880486	-1	HXB	TN, MGC167029, DFNA56
9	TNC	ENSG00000041982	ENST00000345230	protein_coding	KNOWN	None	5318	4695	1564	117782806	117880486	-1	HXB	TN, MGC167029, DFNA56
8	C8orf34	ENSG00000165084	ENST00000518698	protein_coding	KNOWN	CCDS6203	30905	1617	538	69242957	69730796	1	None	vest-1, VEST1
8	C8orf34	ENSG00000165084	ENST00000349492	processed_transcript	KNOWN	None	30905	None	None	69243377	69434174	1	None	vest-1, VEST1
8	C8orf34	ENSG00000165084	ENST00000523686	protein_coding	KNOWN	None	30905	390	129	69243457	69360245	1	None	vest-1, VEST1
8	C8orf34	ENSG00000165084	ENST00000348340	protein_coding	KNOWN	None	30905	864	287	69243460	69448062	1	None	vest-1, VEST1
8	C8orf34	ENSG00000165084	ENST00000337103	protein_coding	KNOWN	None	30905	1284	427	69350148	69731257	1	None	vest-1, VEST1
8	C8orf34	ENSG00000165084	ENST00000521406	nonsense_mediated_decay	KNOWN	None	30905	621	206	69351711	69730509	1	None	vest-1, VEST1
8	C8orf34	ENSG00000165084	ENST00000518515	processed_transcript	KNOWN	None	30905	None	None	69445255	69699848	1	None	vest-1, VEST1
8	C8orf34	ENSG00000165084	ENST00000325233	protein_coding	KNOWN	None	30905	606	201	69537694	69704806	1	None	vest-1, VEST1
8	C8orf34	ENSG00000165084	ENST00000539993	protein_coding	KNOWN	None	30905	1359	452	69242957	69730790	1	None	vest-1, VEST1
4	RELL1	ENSG00000181826	ENST00000314117	protein_coding	KNOWN	CCDS43221	27379	816	271	37592422	37687998	-1	None	None
4	RELL1	ENSG00000181826	ENST00000454158	protein_coding	KNOWN	CCDS43221	27379	816	271	37614523	37687998	-1	None	None
4	RELL1	ENSG00000181826	ENST00000512114	protein_coding	PUTATIVE	None	27379	743	246	37636509	37667003	-1	None	None
14	SUPT16H	ENSG00000092201	ENST00000216297	protein_coding	KNOWN	CCDS9569	11465	3144	1047	21819631	21852425	-1	None	FACT, FACTP140, SPT16/CDC68, FLJ14010, FLJ10857, CDC68
14	SUPT16H	ENSG00000092201	ENST00000557394	retained_intron	KNOWN	None	11465	None	None	21819638	21826561	-1	None	FACT, FACTP140, SPT16/CDC68, FLJ14010, FLJ10857, CDC68
14	SUPT16H	ENSG00000092201	ENST00000552829	retained_intron	KNOWN	None	11465	None	None	21821719	21823102	-1	None	FACT, FACTP140, SPT16/CDC68, FLJ14010, FLJ10857, CDC68
14	SUPT16H	ENSG00000092201	ENST00000556309	nonsense_mediated_decay	KNOWN	None	11465	201	66	21837508	21852105	-1	None	FACT, FACTP140, SPT16/CDC68, FLJ14010, FLJ10857, CDC68
14	SUPT16H	ENSG00000092201	ENST00000556217	retained_intron	KNOWN	None	11465	None	None	21837595	21852169	-1	None	FACT, FACTP140, SPT16/CDC68, FLJ14010, FLJ10857, CDC68
14	SUPT16H	ENSG00000092201	ENST00000557652	nonsense_mediated_decay	KNOWN	None	11465	246	81	21837979	21852154	-1	None	FACT, FACTP140, SPT16/CDC68, FLJ14010, FLJ10857, CDC68
14	SUPT16H	ENSG00000092201	ENST00000555752	retained_intron	KNOWN	None	11465	None	None	21840234	21852172	-1	None	FACT, FACTP140, SPT16/CDC68, FLJ14010, FLJ10857, CDC68
14	SUPT16H	ENSG00000092201	ENST00000555943	protein_coding	PUTATIVE	None	11465	252	83	21851134	21852140	-1	None	FACT, FACTP140, SPT16/CDC68, FLJ14010, FLJ10857, CDC68
9	ERMP1	ENSG00000099219	ENST00000462592	nonsense_mediated_decay	KNOWN	CCDS34983	23703	2715	904	5765076	5833070	-1	KIAA1815	FLJ23309, FXNA
9	ERMP1	ENSG00000099219	ENST00000214893	processed_transcript	KNOWN	None	23703	None	None	5784571	5832841	-1	KIAA1815	FLJ23309, FXNA
9	ERMP1	ENSG00000099219	ENST00000339450	protein_coding	KNOWN	CCDS34983	23703	2715	904	5784573	5833117	-1	KIAA1815	FLJ23309, FXNA
9	ERMP1	ENSG00000099219	ENST00000489219	nonsense_mediated_decay	KNOWN	None	23703	2526	841	5786643	5833055	-1	KIAA1815	FLJ23309, FXNA
9	ERMP1	ENSG00000099219	ENST00000487088	nonsense_mediated_decay	KNOWN	None	23703	1056	351	5787035	5832957	-1	KIAA1815	FLJ23309, FXNA
9	ERMP1	ENSG00000099219	ENST00000475005	retained_intron	KNOWN	None	23703	None	None	5812737	5833073	-1	KIAA1815	FLJ23309, FXNA
9	ERMP1	ENSG00000099219	ENST00000543230	protein_coding	KNOWN	None	23703	1260	419	5787029	5811195	-1	KIAA1815	FLJ23309, FXNA
9	ERMP1	ENSG00000099219	ENST00000381506	protein_coding	KNOWN	None	23703	1056	351	5787035	5830787	-1	KIAA1815	FLJ23309, FXNA
14	ESR2	ENSG00000140009	ENST00000556275	protein_coding	NOVEL	None	3468	1406	467	64550950	64761128	-1	None	NR3A2, Erb
14	ESR2	ENSG00000140009	ENST00000554572	protein_coding	KNOWN	CCDS32096	3468	1488	495	64693425	64804814	-1	None	NR3A2, Erb
14	ESR2	ENSG00000140009	ENST00000358599	protein_coding	KNOWN	CCDS32096	3468	1488	495	64694145	64804830	-1	None	NR3A2, Erb
14	ESR2	ENSG00000140009	ENST00000555278	protein_coding	NOVEL	CCDS55920	3468	1446	481	64694171	64749703	-1	None	NR3A2, Erb
14	ESR2	ENSG00000140009	ENST00000344288	nonsense_mediated_decay	KNOWN	None	3468	972	323	64694224	64749754	-1	None	NR3A2, Erb
14	ESR2	ENSG00000140009	ENST00000553796	protein_coding	NOVEL	None	3468	1425	474	64694536	64749703	-1	None	NR3A2, Erb
14	ESR2	ENSG00000140009	ENST00000557772	protein_coding	KNOWN	CCDS55919	3468	1419	472	64697636	64749703	-1	None	NR3A2, Erb
14	ESR2	ENSG00000140009	ENST00000555483	processed_transcript	KNOWN	None	3468	None	None	64699747	64749560	-1	None	NR3A2, Erb
14	ESR2	ENSG00000140009	ENST00000554520	processed_transcript	KNOWN	None	3468	None	None	64699788	64749531	-1	None	NR3A2, Erb
14	ESR2	ENSG00000140009	ENST00000341099	protein_coding	KNOWN	CCDS9762	3468	1593	530	64699806	64761078	-1	None	NR3A2, Erb
14	ESR2	ENSG00000140009	ENST00000555783	processed_transcript	KNOWN	None	3468	None	None	64701781	64727245	-1	None	NR3A2, Erb
14	ESR2	ENSG00000140009	ENST00000542956	protein_coding	KNOWN	None	3468	1542	513	64550950	64761128	-1	None	NR3A2, Erb
14	ESR2	ENSG00000140009	ENST00000353772	protein_coding	KNOWN	CCDS32096	3468	1488	495	64693753	64761128	-1	None	NR3A2, Erb
14	ESR2	ENSG00000140009	ENST00000357782	protein_coding	KNOWN	CCDS55920	3468	1446	481	64694608	64761128	-1	None	NR3A2, Erb
14	ESR2	ENSG00000140009	ENST00000267525	protein_coding	KNOWN	None	3468	1320	439	64699855	64761128	-1	None	NR3A2, Erb
4	PGM2	ENSG00000169299	ENST00000381967	protein_coding	KNOWN	CCDS3443	8906	1839	612	37828255	37864558	1	None	FLJ10983
4	PGM2	ENSG00000169299	ENST00000515668	nonsense_mediated_decay	KNOWN	None	8906	588	195	37828330	37848957	1	None	FLJ10983
4	PGM2	ENSG00000169299	ENST00000505986	nonsense_mediated_decay	KNOWN	None	8906	588	195	37828341	37849099	1	None	FLJ10983
4	PGM2	ENSG00000169299	ENST00000512556	nonsense_mediated_decay	KNOWN	None	8906	261	86	37828343	37863634	1	None	FLJ10983
4	PGM2	ENSG00000169299	ENST00000510084	nonsense_mediated_decay	KNOWN	None	8906	180	59	37848661	37863341	1	None	FLJ10983
4	PGM2	ENSG00000169299	ENST00000544359	protein_coding	KNOWN	None	8906	876	291	37828341	37849099	1	None	FLJ10983
4	PGM2	ENSG00000169299	ENST00000537241	protein_coding	KNOWN	None	8906	1359	452	37828343	37863634	1	None	FLJ10983
X	NCBP2L	ENSG00000170935	ENST00000372379	protein_coding	KNOWN	None	31795	462	153	107037451	107037912	1	None	None
X	MID2	ENSG00000080561	ENST00000451923	protein_coding	PUTATIVE	None	7096	656	217	107068985	107084611	1	None	FXY2, TRIM1, RNF60
X	MID2	ENSG00000080561	ENST00000262843	protein_coding	KNOWN	CCDS14532	7096	2208	735	107069109	107170423	1	None	FXY2, TRIM1, RNF60
X	MID2	ENSG00000080561	ENST00000443968	protein_coding	KNOWN	CCDS14533	7096	2118	705	107069644	107170423	1	None	FXY2, TRIM1, RNF60
X	MID2	ENSG00000080561	ENST00000474517	retained_intron	KNOWN	None	7096	None	None	107160732	107169702	1	None	FXY2, TRIM1, RNF60
20	MKRN7P	ENSG00000225849	ENST00000433469	processed_pseudogene	KNOWN	None	7119	None	None	45092541	45093763	-1	ZNF127L5, MKRNP3	None
8	TNFRSF10A	ENSG00000104689	ENST00000221132	protein_coding	KNOWN	CCDS6039	11904	1407	468	23047965	23082639	-1	None	DR4, Apo2, TRAILR-1, CD261
8	TNFRSF10A	ENSG00000104689	ENST00000519862	retained_intron	KNOWN	None	11904	None	None	23049327	23054786	-1	None	DR4, Apo2, TRAILR-1, CD261
8	TNFRSF10A	ENSG00000104689	ENST00000524158	protein_coding	PUTATIVE	None	11904	225	74	23057399	23082113	-1	None	DR4, Apo2, TRAILR-1, CD261
6	HIST1H2AA	ENSG00000164508	ENST00000297012	protein_coding	KNOWN	CCDS4562	18729	396	131	25726291	25726790	-1	None	bA317E16.2, H2AFR
6	HIST1H2BA	ENSG00000146047	ENST00000274764	protein_coding	KNOWN	CCDS4563	18730	384	127	25727137	25727573	1	None	bA317E16.3, STBP, TSH2B, H2BFU
8	SULF1	ENSG00000137573	ENST00000525061	protein_coding	KNOWN	None	20391	89	28	70378859	70476299	1	None	KIAA1077, SULF-1
8	SULF1	ENSG00000137573	ENST00000458141	protein_coding	KNOWN	CCDS6204	20391	2616	871	70378859	70573150	1	None	KIAA1077, SULF-1
8	SULF1	ENSG00000137573	ENST00000528286	processed_transcript	KNOWN	None	20391	None	None	70379052	70408085	1	None	KIAA1077, SULF-1
8	SULF1	ENSG00000137573	ENST00000529134	protein_coding	KNOWN	None	20391	254	83	70379222	70488286	1	None	KIAA1077, SULF-1
8	SULF1	ENSG00000137573	ENST00000402687	protein_coding	KNOWN	CCDS6204	20391	2616	871	70404996	70572290	1	None	KIAA1077, SULF-1
8	SULF1	ENSG00000137573	ENST00000419716	protein_coding	KNOWN	CCDS6204	20391	2616	871	70405028	70572290	1	None	KIAA1077, SULF-1
8	SULF1	ENSG00000137573	ENST00000529041	retained_intron	KNOWN	None	20391	None	None	70405067	70475932	1	None	KIAA1077, SULF-1
8	SULF1	ENSG00000137573	ENST00000534179	protein_coding	KNOWN	None	20391	169	55	70475043	70476379	1	None	KIAA1077, SULF-1
8	SULF1	ENSG00000137573	ENST00000525112	retained_intron	KNOWN	None	20391	None	None	70475048	70476112	1	None	KIAA1077, SULF-1
8	SULF1	ENSG00000137573	ENST00000528783	protein_coding	KNOWN	None	20391	230	75	70475677	70488262	1	None	KIAA1077, SULF-1
8	SULF1	ENSG00000137573	ENST00000525999	protein_coding	KNOWN	None	20391	516	171	70476097	70498695	1	None	KIAA1077, SULF-1
8	SULF1	ENSG00000137573	ENST00000531064	processed_transcript	KNOWN	None	20391	None	None	70476283	70501355	1	None	KIAA1077, SULF-1
8	SULF1	ENSG00000137573	ENST00000526808	processed_transcript	KNOWN	None	20391	None	None	70476331	70498743	1	None	KIAA1077, SULF-1
8	SULF1	ENSG00000137573	ENST00000534088	processed_transcript	PUTATIVE	None	20391	None	None	70505119	70509827	1	None	KIAA1077, SULF-1
8	SULF1	ENSG00000137573	ENST00000521946	processed_transcript	KNOWN	None	20391	None	None	70505145	70571643	1	None	KIAA1077, SULF-1
8	SULF1	ENSG00000137573	ENST00000528146	processed_transcript	PUTATIVE	None	20391	None	None	70505174	70509782	1	None	KIAA1077, SULF-1
8	SULF1	ENSG00000137573	ENST00000524731	processed_transcript	KNOWN	None	20391	None	None	70538189	70541806	1	None	KIAA1077, SULF-1
8	SULF1	ENSG00000137573	ENST00000531512	nonsense_mediated_decay	KNOWN	None	20391	394	130	70540039	70572286	1	None	KIAA1077, SULF-1
8	SULF1	ENSG00000137573	ENST00000530674	retained_intron	KNOWN	None	20391	None	None	70549839	70571642	1	None	KIAA1077, SULF-1
8	SULF1	ENSG00000137573	ENST00000532015	retained_intron	KNOWN	None	20391	None	None	70550926	70571127	1	None	KIAA1077, SULF-1
8	SULF1	ENSG00000137573	ENST00000526654	retained_intron	KNOWN	None	20391	None	None	70551046	70553382	1	None	KIAA1077, SULF-1
8	SULF1	ENSG00000137573	ENST00000260128	protein_coding	KNOWN	CCDS6204	20391	2616	871	70378859	70573147	1	None	KIAA1077, SULF-1
6	SLC17A4	ENSG00000146039	ENST00000377905	protein_coding	KNOWN	CCDS4564	10932	1494	497	25754927	25781419	1	None	KIAA2138
6	SLC17A4	ENSG00000146039	ENST00000439485	protein_coding	KNOWN	None	10932	804	267	25754968	25780198	1	None	KIAA2138
6	SLC17A4	ENSG00000146039	ENST00000397076	protein_coding	KNOWN	None	10932	666	221	25762151	25779728	1	None	KIAA2138
14	ATXN3	ENSG00000066427	ENST00000526245	processed_transcript	KNOWN	None	7106	None	None	92524896	92559661	-1	SCA3, MJD	ATX3, JOS
14	ATXN3	ENSG00000066427	ENST00000393287	protein_coding	KNOWN	CCDS9900	7106	1086	361	92527095	92572954	-1	SCA3, MJD	ATX3, JOS
14	ATXN3	ENSG00000066427	ENST00000359366	nonsense_mediated_decay	KNOWN	None	7106	240	79	92529118	92572934	-1	SCA3, MJD	ATX3, JOS
14	ATXN3	ENSG00000066427	ENST00000502250	protein_coding	PUTATIVE	CCDS53908	7106	549	182	92530225	92572926	-1	SCA3, MJD	ATX3, JOS
14	ATXN3	ENSG00000066427	ENST00000503767	protein_coding	KNOWN	CCDS45154	7106	1041	346	92530438	92572944	-1	SCA3, MJD	ATX3, JOS
14	ATXN3	ENSG00000066427	ENST00000340660	protein_coding	KNOWN	CCDS32143	7106	921	306	92530438	92572954	-1	SCA3, MJD	ATX3, JOS
14	ATXN3	ENSG00000066427	ENST00000532032	protein_coding	KNOWN	None	7106	1095	364	92537089	92572906	-1	SCA3, MJD	ATX3, JOS
14	ATXN3	ENSG00000066427	ENST00000555381	protein_coding	NOVEL	None	7106	781	259	92537279	92572918	-1	SCA3, MJD	ATX3, JOS
14	ATXN3	ENSG00000066427	ENST00000557311	protein_coding	PUTATIVE	None	7106	454	150	92537279	92572918	-1	SCA3, MJD	ATX3, JOS
14	ATXN3	ENSG00000066427	ENST00000555816	nonsense_mediated_decay	KNOWN	None	7106	240	79	92537279	92572918	-1	SCA3, MJD	ATX3, JOS
14	ATXN3	ENSG00000066427	ENST00000554592	protein_coding	NOVEL	None	7106	988	328	92537279	92572918	-1	SCA3, MJD	ATX3, JOS
14	ATXN3	ENSG00000066427	ENST00000556315	nonsense_mediated_decay	KNOWN	None	7106	237	78	92537279	92572918	-1	SCA3, MJD	ATX3, JOS
14	ATXN3	ENSG00000066427	ENST00000556898	nonsense_mediated_decay	KNOWN	None	7106	480	159	92537279	92572918	-1	SCA3, MJD	ATX3, JOS
14	ATXN3	ENSG00000066427	ENST00000554672	protein_coding	PUTATIVE	None	7106	697	231	92537279	92572918	-1	SCA3, MJD	ATX3, JOS
14	ATXN3	ENSG00000066427	ENST00000557030	nonsense_mediated_decay	KNOWN	None	7106	603	200	92537282	92572917	-1	SCA3, MJD	ATX3, JOS
14	ATXN3	ENSG00000066427	ENST00000556644	processed_transcript	KNOWN	None	7106	None	None	92537282	92572918	-1	SCA3, MJD	ATX3, JOS
14	ATXN3	ENSG00000066427	ENST00000553488	nonsense_mediated_decay	KNOWN	None	7106	240	79	92537282	92572918	-1	SCA3, MJD	ATX3, JOS
14	ATXN3	ENSG00000066427	ENST00000554040	processed_transcript	KNOWN	None	7106	None	None	92537282	92572918	-1	SCA3, MJD	ATX3, JOS
14	ATXN3	ENSG00000066427	ENST00000556958	nonsense_mediated_decay	KNOWN	None	7106	300	99	92537282	92572918	-1	SCA3, MJD	ATX3, JOS
14	ATXN3	ENSG00000066427	ENST00000556374	nonsense_mediated_decay	KNOWN	None	7106	345	114	92537282	92572918	-1	SCA3, MJD	ATX3, JOS
14	ATXN3	ENSG00000066427	ENST00000553491	protein_coding	NOVEL	None	7106	835	277	92537282	92572918	-1	SCA3, MJD	ATX3, JOS
14	ATXN3	ENSG00000066427	ENST00000553686	processed_transcript	KNOWN	None	7106	None	None	92537282	92572918	-1	SCA3, MJD	ATX3, JOS
14	ATXN3	ENSG00000066427	ENST00000554214	processed_transcript	KNOWN	None	7106	None	None	92537282	92572918	-1	SCA3, MJD	ATX3, JOS
14	ATXN3	ENSG00000066427	ENST00000556288	nonsense_mediated_decay	KNOWN	None	7106	240	79	92537282	92572918	-1	SCA3, MJD	ATX3, JOS
14	ATXN3	ENSG00000066427	ENST00000556274	nonsense_mediated_decay	KNOWN	None	7106	240	79	92537282	92572918	-1	SCA3, MJD	ATX3, JOS
14	ATXN3	ENSG00000066427	ENST00000556339	processed_transcript	KNOWN	None	7106	None	None	92537282	92572918	-1	SCA3, MJD	ATX3, JOS
14	ATXN3	ENSG00000066427	ENST00000555958	processed_transcript	KNOWN	None	7106	None	None	92537282	92572918	-1	SCA3, MJD	ATX3, JOS
14	ATXN3	ENSG00000066427	ENST00000553570	nonsense_mediated_decay	KNOWN	None	7106	288	95	92537282	92572918	-1	SCA3, MJD	ATX3, JOS
14	ATXN3	ENSG00000066427	ENST00000554994	nonsense_mediated_decay	KNOWN	None	7106	453	150	92537282	92572918	-1	SCA3, MJD	ATX3, JOS
14	ATXN3	ENSG00000066427	ENST00000556671	nonsense_mediated_decay	KNOWN	None	7106	333	110	92537282	92572918	-1	SCA3, MJD	ATX3, JOS
14	ATXN3	ENSG00000066427	ENST00000554350	nonsense_mediated_decay	KNOWN	None	7106	333	110	92537282	92572918	-1	SCA3, MJD	ATX3, JOS
14	ATXN3	ENSG00000066427	ENST00000556220	protein_coding	NOVEL	None	7106	670	222	92537282	92572918	-1	SCA3, MJD	ATX3, JOS
14	ATXN3	ENSG00000066427	ENST00000553287	processed_transcript	KNOWN	None	7106	None	None	92537282	92572918	-1	SCA3, MJD	ATX3, JOS
14	ATXN3	ENSG00000066427	ENST00000553309	processed_transcript	KNOWN	None	7106	None	None	92537282	92572918	-1	SCA3, MJD	ATX3, JOS
14	ATXN3	ENSG00000066427	ENST00000554491	processed_transcript	KNOWN	None	7106	None	None	92537282	92572918	-1	SCA3, MJD	ATX3, JOS
14	ATXN3	ENSG00000066427	ENST00000553498	processed_transcript	KNOWN	None	7106	None	None	92537282	92572918	-1	SCA3, MJD	ATX3, JOS
14	ATXN3	ENSG00000066427	ENST00000556082	nonsense_mediated_decay	KNOWN	None	7106	240	79	92537282	92572918	-1	SCA3, MJD	ATX3, JOS
14	ATXN3	ENSG00000066427	ENST00000554673	nonsense_mediated_decay	KNOWN	None	7106	486	161	92547309	92572918	-1	SCA3, MJD	ATX3, JOS
14	ATXN3	ENSG00000066427	ENST00000515746	nonsense_mediated_decay	KNOWN	None	7106	300	99	92547332	92572907	-1	SCA3, MJD	ATX3, JOS
14	ATXN3	ENSG00000066427	ENST00000506466	protein_coding	NOVEL	None	7106	616	204	92547367	92572917	-1	SCA3, MJD	ATX3, JOS
14	ATXN3	ENSG00000066427	ENST00000526872	protein_coding	NOVEL	None	7106	597	198	92548687	92563182	-1	SCA3, MJD	ATX3, JOS
14	ATXN3	ENSG00000066427	ENST00000511362	processed_transcript	KNOWN	None	7106	None	None	92556540	92572911	-1	SCA3, MJD	ATX3, JOS
14	ATXN3	ENSG00000066427	ENST00000507965	retained_intron	KNOWN	None	7106	None	None	92559723	92572917	-1	SCA3, MJD	ATX3, JOS
14	ATXN3	ENSG00000066427	ENST00000504047	processed_transcript	KNOWN	None	7106	None	None	92559896	92572935	-1	SCA3, MJD	ATX3, JOS
14	ATXN3	ENSG00000066427	ENST00000454964	retained_intron	KNOWN	None	7106	None	None	92562621	92572908	-1	SCA3, MJD	ATX3, JOS
14	ATXN3	ENSG00000066427	ENST00000545170	protein_coding	KNOWN	None	7106	1113	370	92524896	92572965	-1	SCA3, MJD	ATX3, JOS
14	ATXN3	ENSG00000066427	ENST00000429774	protein_coding	KNOWN	None	7106	1065	354	92524896	92572965	-1	SCA3, MJD	ATX3, JOS
20	ZNF840	ENSG00000184617	ENST00000504759	unprocessed_pseudogene	KNOWN	None	34344	None	None	45113100	45121279	1	C20orf157, ZNF840P	dJ981L23.3
20	ZNF840	ENSG00000184617	ENST00000328749	unprocessed_pseudogene	KNOWN	None	34344	None	None	45119750	45121183	1	C20orf157, ZNF840P	dJ981L23.3
20	None	ENSG00000271784	ENST00000606362	lincRNA	KNOWN	None	None	None	None	45318298	45318928	1	None	None
20	None	ENSG00000266136	ENST00000408058	miRNA	NOVEL	None	None	None	None	45439477	45439561	-1	None	None
15	PTPLAD1	ENSG00000074696	ENST00000562901	protein_coding	PUTATIVE	None	24175	738	245	65822756	65869011	1	None	B-ind1, HSPC121
15	PTPLAD1	ENSG00000074696	ENST00000261875	protein_coding	KNOWN	CCDS45282	24175	1089	362	65822804	65870687	1	None	B-ind1, HSPC121
15	PTPLAD1	ENSG00000074696	ENST00000442729	protein_coding	NOVEL	None	24175	924	307	65822820	65868975	1	None	B-ind1, HSPC121
15	PTPLAD1	ENSG00000074696	ENST00000565299	protein_coding	NOVEL	None	24175	1203	400	65822828	65868837	1	None	B-ind1, HSPC121
15	PTPLAD1	ENSG00000074696	ENST00000568793	protein_coding	PUTATIVE	None	24175	1014	337	65822843	65869400	1	None	B-ind1, HSPC121
15	PTPLAD1	ENSG00000074696	ENST00000566239	retained_intron	KNOWN	None	24175	None	None	65822926	65844275	1	None	B-ind1, HSPC121
15	PTPLAD1	ENSG00000074696	ENST00000566074	protein_coding	PUTATIVE	None	24175	738	245	65823092	65869293	1	None	B-ind1, HSPC121
15	PTPLAD1	ENSG00000074696	ENST00000566511	protein_coding	PUTATIVE	None	24175	738	245	65823598	65869315	1	None	B-ind1, HSPC121
15	PTPLAD1	ENSG00000074696	ENST00000569894	protein_coding	PUTATIVE	None	24175	738	245	65843157	65869064	1	None	B-ind1, HSPC121
15	PTPLAD1	ENSG00000074696	ENST00000562832	protein_coding	PUTATIVE	None	24175	418	138	65843364	65862537	1	None	B-ind1, HSPC121
15	PTPLAD1	ENSG00000074696	ENST00000561763	processed_transcript	PUTATIVE	None	24175	None	None	65866603	65868837	1	None	B-ind1, HSPC121
20	RN7SKP33	ENSG00000222874	ENST00000410942	misc_RNA	KNOWN	None	45757	None	None	45487972	45488311	1	None	None
20	None	ENSG00000235922	ENST00000423396	processed_pseudogene	KNOWN	None	None	None	None	45492202	45492743	-1	None	None
20	None	ENSG00000236028	ENST00000414085	lincRNA	KNOWN	None	None	None	None	45529782	45530365	-1	None	None
X	TEX13B	ENSG00000170925	ENST00000302917	protein_coding	KNOWN	CCDS14534	11736	939	312	107224094	107225600	-1	None	TSGA5, TGC3B
8	COL14A1	ENSG00000187955	ENST00000498051	nonsense_mediated_decay	KNOWN	None	2191	1605	534	121072019	121244329	1	UND	None
8	COL14A1	ENSG00000187955	ENST00000309791	protein_coding	KNOWN	None	2191	5343	1780	121137347	121383156	1	UND	None
8	COL14A1	ENSG00000187955	ENST00000297848	protein_coding	KNOWN	CCDS34938	2191	5391	1796	121137347	121384275	1	UND	None
8	COL14A1	ENSG00000187955	ENST00000432943	processed_transcript	KNOWN	None	2191	None	None	121137383	121290104	1	UND	None
8	COL14A1	ENSG00000187955	ENST00000523142	protein_coding	PUTATIVE	None	2191	1008	335	121209040	121228731	1	UND	None
8	COL14A1	ENSG00000187955	ENST00000434620	protein_coding	PUTATIVE	None	2191	2532	843	121209155	121279231	1	UND	None
8	COL14A1	ENSG00000187955	ENST00000440844	protein_coding	PUTATIVE	None	2191	450	149	121357685	121383320	1	UND	None
8	COL14A1	ENSG00000187955	ENST00000247781	protein_coding	KNOWN	None	2191	5106	1701	121137352	121384266	1	UND	None
8	COL14A1	ENSG00000187955	ENST00000537875	protein_coding	KNOWN	None	2191	1605	534	121117816	121244326	1	UND	None
20	GAPDHP54	ENSG00000226769	ENST00000432657	processed_pseudogene	KNOWN	None	38560	None	None	45626235	45627127	1	None	None
19	C19orf77	ENSG00000095932	ENST00000591708	protein_coding	PUTATIVE	None	37244	183	60	3474405	3478486	-1	None	HSPC323
19	C19orf77	ENSG00000095932	ENST00000215531	protein_coding	KNOWN	CCDS45915	37244	393	130	3474405	3480540	-1	None	HSPC323
19	C19orf77	ENSG00000095932	ENST00000587847	protein_coding	PUTATIVE	None	37244	183	60	3474506	3479086	-1	None	HSPC323
19	C19orf77	ENSG00000095932	ENST00000586804	processed_transcript	KNOWN	None	37244	None	None	3478818	3480520	-1	None	HSPC323
X	VSIG1	ENSG00000101842	ENST00000217957	protein_coding	KNOWN	CCDS14535	28675	1164	387	107288244	107322327	1	None	MGC44287
X	VSIG1	ENSG00000101842	ENST00000458383	protein_coding	PUTATIVE	None	28675	504	167	107288295	107310348	1	None	MGC44287
X	VSIG1	ENSG00000101842	ENST00000485533	processed_transcript	KNOWN	None	28675	None	None	107307969	107316494	1	None	MGC44287
X	VSIG1	ENSG00000101842	ENST00000479635	retained_intron	KNOWN	None	28675	None	None	107316026	107317083	1	None	MGC44287
X	VSIG1	ENSG00000101842	ENST00000415430	protein_coding	KNOWN	CCDS55474	28675	1272	423	107288200	107322414	1	None	MGC44287
9	None	ENSG00000268708	ENST00000598421	protein_coding	KNOWN	None	None	162	53	44325916	44326077	-1	None	None
9	None	ENSG00000212952	ENST00000540551	protein_coding	KNOWN	None	None	366	121	44400717	44402427	-1	None	None
20	None	ENSG00000239783	ENST00000429337	processed_pseudogene	KNOWN	None	None	None	None	45700504	45700875	1	None	None
9	None	ENSG00000204814	ENST00000377548	protein_coding	NOVEL	None	None	240	79	44867571	44870528	1	None	None
9	None	ENSG00000204814	ENST00000448436	protein_coding	PUTATIVE	None	None	240	79	44868935	44870444	1	None	None
9	FAM27C	ENSG00000154537	ENST00000377542	protein_coding	KNOWN	None	23668	204	67	44990314	44991483	1	None	bA374M1.5, FAM27A3
9	None	ENSG00000268578	ENST00000599070	protein_coding	KNOWN	None	None	270	89	45441273	45441542	-1	None	None
9	FAM27A	ENSG00000182368	ENST00000377531	protein_coding	KNOWN	None	19729	204	67	45727107	45728274	1	None	bA7G23.5, FAM27A1
9	FAM27E2	ENSG00000204807	ENST00000377529	protein_coding	KNOWN	None	32013	378	125	45733559	45734896	1	None	None
9	FAM27E1	ENSG00000237198	ENST00000377525	protein_coding	KNOWN	None	32014	381	126	46385691	46387031	-1	None	None
9	FAM27D1	ENSG00000231997	ENST00000417276	protein_coding	KNOWN	None	32015	624	207	46389110	46391556	1	None	OTTHUMG00000013267
9	FAM27D1	ENSG00000231997	ENST00000426006	protein_coding	KNOWN	None	32015	381	126	46390277	46390685	1	None	OTTHUMG00000013267
9	None	ENSG00000236029	ENST00000420228	protein_coding	KNOWN	None	None	541	179	47295855	47314222	-1	None	None
9	None	ENSG00000236029	ENST00000438517	protein_coding	PUTATIVE	None	None	872	289	47295879	47314322	-1	None	None
9	None	ENSG00000236029	ENST00000486809	processed_transcript	KNOWN	None	None	None	None	47299315	47314148	-1	None	None
9	None	ENSG00000236029	ENST00000469570	processed_transcript	KNOWN	None	None	None	None	47304013	47305485	-1	None	None
9	None	ENSG00000236029	ENST00000490984	processed_transcript	KNOWN	None	None	None	None	47304037	47311881	-1	None	None
9	None	ENSG00000236029	ENST00000477211	processed_transcript	KNOWN	None	None	None	None	47304438	47311821	-1	None	None
9	None	ENSG00000236029	ENST00000497264	processed_transcript	KNOWN	None	None	None	None	47310441	47312524	-1	None	None
9	None	ENSG00000236029	ENST00000414020	protein_coding	KNOWN	None	None	389	128	47310639	47314322	-1	None	None
15	ANKRD34C	ENSG00000235711	ENST00000558647	protein_coding	KNOWN	CCDS53965	33888	1608	535	79585627	79587234	1	None	None
15	ANKRD34C	ENSG00000235711	ENST00000421388	protein_coding	KNOWN	CCDS53965	33888	1608	535	79575146	79590580	1	None	None
15	TMED3	ENSG00000166557	ENST00000299705	protein_coding	KNOWN	CCDS10310	28889	654	217	79603404	79615189	1	C15orf22	p24B
15	TMED3	ENSG00000166557	ENST00000424155	protein_coding	NOVEL	None	28889	522	173	79603487	79704334	1	C15orf22	p24B
15	TMED3	ENSG00000166557	ENST00000536821	protein_coding	NOVEL	None	28889	468	155	79603498	79675802	1	C15orf22	p24B
15	TMED3	ENSG00000166557	ENST00000543455	nonsense_mediated_decay	KNOWN	None	28889	441	146	79603501	79615179	1	C15orf22	p24B
15	TMED3	ENSG00000166557	ENST00000558562	processed_transcript	PUTATIVE	None	28889	None	None	79608273	79615164	1	C15orf22	p24B
10	COMMD3-BMI1	ENSG00000269897	ENST00000475460	protein_coding	NOVEL	None	48326	478	158	22605317	22615487	1	None	None
10	COMMD3-BMI1	ENSG00000269897	ENST00000602390	protein_coding	NOVEL	CCDS59213	48326	1410	469	22605338	22618471	1	None	None
10	COMMD3-BMI1	ENSG00000269897	ENST00000489125	protein_coding	NOVEL	None	48326	329	108	22605360	22615450	1	None	None
10	COMMD3-BMI1	ENSG00000269897	ENST00000463409	processed_transcript	KNOWN	None	48326	None	None	22605361	22615450	1	None	None
10	COMMD3-BMI1	ENSG00000269897	ENST00000417470	nonsense_mediated_decay	KNOWN	None	48326	161	52	22605381	22618027	1	None	None
10	COMMD3-BMI1	ENSG00000269897	ENST00000602395	retained_intron	KNOWN	None	48326	None	None	22607230	22615450	1	None	None
9	SPATA31A7	ENSG00000234734	ENST00000355045	protein_coding	KNOWN	CCDS43825	32007	4044	1347	65503363	65509610	-1	FAM75A7	OTTHUMG00000013196
9	SPATA31A7	ENSG00000234734	ENST00000604445	processed_transcript	KNOWN	None	32007	None	None	65505671	65507911	-1	FAM75A7	OTTHUMG00000013196
9	SPATA31A7	ENSG00000234734	ENST00000491812	processed_transcript	KNOWN	None	32007	None	None	65506635	65507990	-1	FAM75A7	OTTHUMG00000013196
9	SPATA31A7	ENSG00000234734	ENST00000603014	processed_transcript	KNOWN	None	32007	None	None	65506807	65508001	-1	FAM75A7	OTTHUMG00000013196
9	SPATA31A7	ENSG00000234734	ENST00000604596	processed_transcript	KNOWN	None	32007	None	None	65506845	65508001	-1	FAM75A7	OTTHUMG00000013196
9	SPATA31A7	ENSG00000234734	ENST00000604785	processed_transcript	KNOWN	None	32007	None	None	65506856	65508903	-1	FAM75A7	OTTHUMG00000013196
9	SPATA31A7	ENSG00000234734	ENST00000604226	processed_transcript	KNOWN	None	32007	None	None	65506999	65508001	-1	FAM75A7	OTTHUMG00000013196
9	SPATA31A7	ENSG00000234734	ENST00000603237	processed_transcript	KNOWN	None	32007	None	None	65508321	65509609	-1	FAM75A7	OTTHUMG00000013196
14	MTHFD1	ENSG00000100714	ENST00000545908	protein_coding	NOVEL	None	7432	3063	1020	64854749	64926722	1	MTHFC, MTHFD	None
14	MTHFD1	ENSG00000100714	ENST00000216605	protein_coding	KNOWN	None	7432	2976	991	64854958	64926721	1	MTHFC, MTHFD	None
14	MTHFD1	ENSG00000100714	ENST00000554739	processed_transcript	KNOWN	None	7432	None	None	64855026	64882147	1	MTHFC, MTHFD	None
14	MTHFD1	ENSG00000100714	ENST00000554768	processed_transcript	KNOWN	None	7432	None	None	64855026	64882153	1	MTHFC, MTHFD	None
14	MTHFD1	ENSG00000100714	ENST00000555252	protein_coding	NOVEL	None	7432	1905	634	64855029	64907165	1	MTHFC, MTHFD	None
14	MTHFD1	ENSG00000100714	ENST00000557539	processed_transcript	KNOWN	None	7432	None	None	64855445	64882428	1	MTHFC, MTHFD	None
14	MTHFD1	ENSG00000100714	ENST00000554057	processed_transcript	KNOWN	None	7432	None	None	64885921	64892910	1	MTHFC, MTHFD	None
14	MTHFD1	ENSG00000100714	ENST00000553391	processed_transcript	KNOWN	None	7432	None	None	64890933	64894192	1	MTHFC, MTHFD	None
14	MTHFD1	ENSG00000100714	ENST00000554677	retained_intron	KNOWN	None	7432	None	None	64898546	64908530	1	MTHFC, MTHFD	None
14	MTHFD1	ENSG00000100714	ENST00000555858	retained_intron	KNOWN	None	7432	None	None	64902285	64906094	1	MTHFC, MTHFD	None
14	MTHFD1	ENSG00000100714	ENST00000556771	retained_intron	KNOWN	None	7432	None	None	64906939	64911856	1	MTHFC, MTHFD	None
14	MTHFD1	ENSG00000100714	ENST00000553405	retained_intron	KNOWN	None	7432	None	None	64907966	64920525	1	MTHFC, MTHFD	None
14	MTHFD1	ENSG00000100714	ENST00000556284	processed_transcript	KNOWN	None	7432	None	None	64916219	64926700	1	MTHFC, MTHFD	None
14	MTHFD1	ENSG00000100714	ENST00000557370	retained_intron	KNOWN	None	7432	None	None	64920470	64921891	1	MTHFC, MTHFD	None
14	MTHFD1	ENSG00000100714	ENST00000554353	retained_intron	KNOWN	None	7432	None	None	64924715	64926721	1	MTHFC, MTHFD	None
14	MTHFD1	ENSG00000100714	ENST00000555709	protein_coding	KNOWN	CCDS9763	7432	2808	935	64854759	64926725	1	MTHFC, MTHFD	None
10	BMI1	ENSG00000168283	ENST00000376663	protein_coding	KNOWN	CCDS7138	1066	981	326	22610140	22620413	1	PCGF4	RNF51
10	BMI1	ENSG00000168283	ENST00000602523	retained_intron	KNOWN	None	1066	None	None	22610388	22615869	1	PCGF4	RNF51
10	BMI1	ENSG00000168283	ENST00000456675	retained_intron	KNOWN	None	1066	None	None	22610514	22616733	1	PCGF4	RNF51
10	BMI1	ENSG00000168283	ENST00000442508	protein_coding	KNOWN	None	1066	452	149	22611035	22617089	1	PCGF4	RNF51
10	BMI1	ENSG00000168283	ENST00000416820	protein_coding	KNOWN	None	1066	315	104	22614586	22616720	1	PCGF4	RNF51
10	BMI1	ENSG00000168283	ENST00000602358	retained_intron	KNOWN	None	1066	None	None	22614599	22617600	1	PCGF4	RNF51
10	BMI1	ENSG00000168283	ENST00000602524	retained_intron	KNOWN	None	1066	None	None	22614862	22615760	1	PCGF4	RNF51
10	BMI1	ENSG00000168283	ENST00000443519	protein_coding	NOVEL	None	1066	552	183	22615448	22618327	1	PCGF4	RNF51
10	BMI1	ENSG00000168283	ENST00000496174	retained_intron	KNOWN	None	1066	None	None	22616811	22618019	1	PCGF4	RNF51
10	BMI1	ENSG00000168283	ENST00000490311	retained_intron	KNOWN	None	1066	None	None	22616875	22618420	1	PCGF4	RNF51
15	KIAA1024	ENSG00000169330	ENST00000305428	protein_coding	KNOWN	CCDS32306	29172	2751	916	79724858	79764632	1	None	None
15	KIAA1024	ENSG00000169330	ENST00000559272	nonsense_mediated_decay	KNOWN	None	29172	2565	854	79748438	79763486	1	None	None
15	MTHFS	ENSG00000136371	ENST00000560261	nonsense_mediated_decay	KNOWN	None	7437	118	38	80125927	80137669	-1	None	HsT19268
15	MTHFS	ENSG00000136371	ENST00000258874	protein_coding	KNOWN	CCDS10311	7437	612	203	80137318	80189391	-1	None	HsT19268
15	MTHFS	ENSG00000136371	ENST00000560919	nonsense_mediated_decay	KNOWN	None	7437	135	44	80181434	80189339	-1	None	HsT19268
15	MTHFS	ENSG00000136371	ENST00000559722	processed_transcript	PUTATIVE	None	7437	None	None	80181434	80189721	-1	None	HsT19268
4	USO1	ENSG00000138768	ENST00000603759	protein_coding	KNOWN	None	30904	66	21	76649777	76650069	1	None	TAP, VDP, p115
4	USO1	ENSG00000138768	ENST00000264904	protein_coding	NOVEL	None	30904	2671	889	76678650	76735366	1	None	TAP, VDP, p115
4	USO1	ENSG00000138768	ENST00000512893	retained_intron	KNOWN	None	30904	None	None	76691276	76692291	1	None	TAP, VDP, p115
4	USO1	ENSG00000138768	ENST00000441296	protein_coding	PUTATIVE	None	30904	1916	637	76711301	76735382	1	None	TAP, VDP, p115
4	USO1	ENSG00000138768	ENST00000508454	retained_intron	KNOWN	None	30904	None	None	76726162	76727708	1	None	TAP, VDP, p115
4	USO1	ENSG00000138768	ENST00000538159	protein_coding	KNOWN	None	30904	2916	971	76650004	76734448	1	None	TAP, VDP, p115
4	USO1	ENSG00000138768	ENST00000514213	protein_coding	KNOWN	None	30904	2844	947	76650004	76734448	1	None	TAP, VDP, p115
9	FAM27E3	ENSG00000232833	ENST00000455764	protein_coding	KNOWN	None	28655	342	113	67784944	67786624	-1	None	MGC42630
15	ST20-MTHFS	ENSG00000259332	ENST00000479961	protein_coding	KNOWN	CCDS58394	44655	540	179	80137537	80216086	-1	None	None
15	ST20-MTHFS	ENSG00000259332	ENST00000494999	processed_transcript	PUTATIVE	None	44655	None	None	80137718	80216096	-1	None	None
9	FAM27B	ENSG00000170215	ENST00000377484	protein_coding	KNOWN	None	23667	204	67	67792938	67794111	-1	None	bA12A20.3, FAM27A2
15	ST20	ENSG00000180953	ENST00000562759	protein_coding	KNOWN	CCDS42067	33520	240	79	80191182	80200378	-1	None	HCCS-1
15	ST20	ENSG00000180953	ENST00000478497	protein_coding	KNOWN	CCDS42067	33520	240	79	80191189	80207598	-1	None	HCCS-1
15	ST20	ENSG00000180953	ENST00000485386	protein_coding	KNOWN	CCDS42067	33520	240	79	80191246	80216044	-1	None	HCCS-1
4	SMARCA5	ENSG00000153147	ENST00000283131	protein_coding	KNOWN	CCDS3761	11101	3159	1052	144434616	144478639	1	None	hSNF2H, hISWI, ISWI
4	SMARCA5	ENSG00000153147	ENST00000515531	retained_intron	KNOWN	None	11101	None	None	144464786	144465509	1	None	hSNF2H, hISWI, ISWI
4	SMARCA5	ENSG00000153147	ENST00000508573	retained_intron	KNOWN	None	11101	None	None	144468585	144469371	1	None	hSNF2H, hISWI, ISWI
9	None	ENSG00000233434	ENST00000543078	protein_coding	NOVEL	None	None	420	139	67924791	67925210	-1	None	None
9	ANKRD20A1	ENSG00000196774	ENST00000377477	protein_coding	KNOWN	CCDS6620	23665	2472	823	67926761	67969840	1	ANKRD20A	DKFZp434A171
15	C15orf37	ENSG00000259642	ENST00000560255	protein_coding	KNOWN	None	27521	393	130	80215113	80217194	1	None	FLJ33788
15	None	ENSG00000257028	ENST00000542003	protein_coding	KNOWN	None	None	600	199	80215507	80217194	1	None	None
15	BCL2A1	ENSG00000140379	ENST00000267953	protein_coding	KNOWN	CCDS10312	991	528	175	80253231	80263788	-1	HBPA1	GRS, BFL1, BCL2L5, ACC-1, ACC-2
15	BCL2A1	ENSG00000140379	ENST00000335661	protein_coding	KNOWN	CCDS45322	991	492	163	80253234	80263511	-1	HBPA1	GRS, BFL1, BCL2L5, ACC-1, ACC-2
8	CHMP7	ENSG00000147457	ENST00000397677	protein_coding	KNOWN	CCDS6040	28439	1362	453	23101150	23119505	1	None	MGC29816
8	CHMP7	ENSG00000147457	ENST00000519414	nonsense_mediated_decay	KNOWN	None	28439	474	157	23104150	23114076	1	None	MGC29816
8	CHMP7	ENSG00000147457	ENST00000517325	nonsense_mediated_decay	KNOWN	None	28439	240	79	23104155	23119505	1	None	MGC29816
8	CHMP7	ENSG00000147457	ENST00000519984	protein_coding	NOVEL	None	28439	629	208	23104172	23112878	1	None	MGC29816
8	CHMP7	ENSG00000147457	ENST00000519529	retained_intron	KNOWN	None	28439	None	None	23104172	23116004	1	None	MGC29816
8	CHMP7	ENSG00000147457	ENST00000519503	nonsense_mediated_decay	KNOWN	None	28439	492	163	23104179	23116343	1	None	MGC29816
8	CHMP7	ENSG00000147457	ENST00000523091	retained_intron	KNOWN	None	28439	None	None	23112319	23119507	1	None	MGC29816
8	CHMP7	ENSG00000147457	ENST00000520102	processed_transcript	KNOWN	None	28439	None	None	23114116	23117799	1	None	MGC29816
8	CHMP7	ENSG00000147457	ENST00000521656	retained_intron	KNOWN	None	28439	None	None	23117406	23118100	1	None	MGC29816
8	CHMP7	ENSG00000147457	ENST00000313219	protein_coding	KNOWN	CCDS6040	28439	1362	453	23104157	23119512	1	None	MGC29816
15	ZFAND6	ENSG00000086666	ENST00000261749	protein_coding	KNOWN	CCDS10313	30164	627	208	80351910	80430735	1	ZA20D3	ZFAND5B, AWP1
15	ZFAND6	ENSG00000086666	ENST00000561060	protein_coding	PUTATIVE	CCDS10313	30164	627	208	80351955	80430020	1	ZA20D3	ZFAND5B, AWP1
15	ZFAND6	ENSG00000086666	ENST00000559157	protein_coding	KNOWN	CCDS58395	30164	591	196	80351977	80430702	1	ZA20D3	ZFAND5B, AWP1
15	ZFAND6	ENSG00000086666	ENST00000561012	protein_coding	PUTATIVE	None	30164	216	71	80352018	80412746	1	ZA20D3	ZFAND5B, AWP1
15	ZFAND6	ENSG00000086666	ENST00000564367	protein_coding	PUTATIVE	None	30164	445	147	80352032	80429902	1	ZA20D3	ZFAND5B, AWP1
15	ZFAND6	ENSG00000086666	ENST00000558494	protein_coding	KNOWN	CCDS10313	30164	627	208	80352056	80430702	1	ZA20D3	ZFAND5B, AWP1
15	ZFAND6	ENSG00000086666	ENST00000560470	protein_coding	KNOWN	None	30164	61	19	80352766	80412747	1	ZA20D3	ZFAND5B, AWP1
15	ZFAND6	ENSG00000086666	ENST00000560228	protein_coding	KNOWN	None	30164	96	31	80364906	80412782	1	ZA20D3	ZFAND5B, AWP1
15	ZFAND6	ENSG00000086666	ENST00000559835	protein_coding	KNOWN	CCDS10313	30164	627	208	80364920	80430702	1	ZA20D3	ZFAND5B, AWP1
15	ZFAND6	ENSG00000086666	ENST00000559775	protein_coding	KNOWN	CCDS10313	30164	627	208	80364925	80430700	1	ZA20D3	ZFAND5B, AWP1
15	ZFAND6	ENSG00000086666	ENST00000558688	protein_coding	PUTATIVE	None	30164	534	177	80364929	80423859	1	ZA20D3	ZFAND5B, AWP1
15	ZFAND6	ENSG00000086666	ENST00000560392	protein_coding	KNOWN	None	30164	263	86	80364930	80414162	1	ZA20D3	ZFAND5B, AWP1
15	ZFAND6	ENSG00000086666	ENST00000560976	protein_coding	PUTATIVE	None	30164	466	154	80364930	80423575	1	ZA20D3	ZFAND5B, AWP1
15	ZFAND6	ENSG00000086666	ENST00000558272	protein_coding	KNOWN	None	30164	193	63	80364932	80414092	1	ZA20D3	ZFAND5B, AWP1
15	ZFAND6	ENSG00000086666	ENST00000558390	protein_coding	PUTATIVE	None	30164	474	157	80364932	80423583	1	ZA20D3	ZFAND5B, AWP1
15	ZFAND6	ENSG00000086666	ENST00000557793	retained_intron	KNOWN	None	30164	None	None	80364933	80413144	1	ZA20D3	ZFAND5B, AWP1
15	ZFAND6	ENSG00000086666	ENST00000558997	protein_coding	KNOWN	None	30164	479	158	80367503	80423636	1	ZA20D3	ZFAND5B, AWP1
15	ZFAND6	ENSG00000086666	ENST00000558087	protein_coding	KNOWN	CCDS10313	30164	627	208	80367503	80430153	1	ZA20D3	ZFAND5B, AWP1
15	ZFAND6	ENSG00000086666	ENST00000558724	protein_coding	PUTATIVE	None	30164	524	173	80367533	80423636	1	ZA20D3	ZFAND5B, AWP1
15	ZFAND6	ENSG00000086666	ENST00000561017	retained_intron	KNOWN	None	30164	None	None	80414061	80415409	1	ZA20D3	ZFAND5B, AWP1
15	ZFAND6	ENSG00000086666	ENST00000557983	retained_intron	KNOWN	None	30164	None	None	80421942	80430721	1	ZA20D3	ZFAND5B, AWP1
X	PNMA5	ENSG00000198883	ENST00000361887	protein_coding	KNOWN	CCDS14718	18743	1347	448	152157368	152160758	-1	None	KIAA1934
X	PNMA5	ENSG00000198883	ENST00000437210	protein_coding	KNOWN	None	18743	420	139	152159723	152161330	-1	None	KIAA1934
X	PNMA5	ENSG00000198883	ENST00000535214	protein_coding	KNOWN	CCDS14718	18743	1347	448	152157369	152162671	-1	None	KIAA1934
X	PNMA5	ENSG00000198883	ENST00000439251	protein_coding	KNOWN	CCDS14718	18743	1347	448	152157369	152160761	-1	None	KIAA1934
X	PNMA5	ENSG00000198883	ENST00000452693	protein_coding	KNOWN	CCDS14718	18743	1347	448	152157369	152160761	-1	None	KIAA1934
9	None	ENSG00000155282	ENST00000417488	protein_coding	PUTATIVE	None	None	778	258	67968793	67987998	1	None	None
9	None	ENSG00000155282	ENST00000456982	protein_coding	NOVEL	None	None	515	170	67977438	67987998	1	None	None
4	TBC1D1	ENSG00000065882	ENST00000508802	protein_coding	NOVEL	CCDS58897	11578	3480	1159	37892708	38139240	1	None	TBC, TBC1, KIAA1108
4	TBC1D1	ENSG00000065882	ENST00000261439	protein_coding	KNOWN	CCDS33972	11578	3507	1168	37892708	38140794	1	None	TBC, TBC1, KIAA1108
4	TBC1D1	ENSG00000065882	ENST00000402522	protein_coding	PUTATIVE	None	11578	435	144	37892720	37954433	1	None	TBC, TBC1, KIAA1108
4	TBC1D1	ENSG00000065882	ENST00000510573	nonsense_mediated_decay	KNOWN	None	11578	312	103	37903624	38139364	1	None	TBC, TBC1, KIAA1108
4	TBC1D1	ENSG00000065882	ENST00000446803	protein_coding	PUTATIVE	None	11578	1797	598	37978931	38091686	1	None	TBC, TBC1, KIAA1108
4	TBC1D1	ENSG00000065882	ENST00000491553	retained_intron	KNOWN	None	11578	None	None	38016504	38022485	1	None	TBC, TBC1, KIAA1108
4	TBC1D1	ENSG00000065882	ENST00000513936	protein_coding	NOVEL	None	11578	530	175	38029409	38055865	1	None	TBC, TBC1, KIAA1108
4	TBC1D1	ENSG00000065882	ENST00000509761	processed_transcript	KNOWN	None	11578	None	None	38032012	38051425	1	None	TBC, TBC1, KIAA1108
4	TBC1D1	ENSG00000065882	ENST00000443855	protein_coding	NOVEL	None	11578	755	250	38046095	38091620	1	None	TBC, TBC1, KIAA1108
4	TBC1D1	ENSG00000065882	ENST00000421339	protein_coding	NOVEL	None	11578	679	225	38047492	38091738	1	None	TBC, TBC1, KIAA1108
4	TBC1D1	ENSG00000065882	ENST00000469803	processed_transcript	KNOWN	None	11578	None	None	38051378	38056663	1	None	TBC, TBC1, KIAA1108
4	TBC1D1	ENSG00000065882	ENST00000511238	retained_intron	KNOWN	None	11578	None	None	38104669	38120074	1	None	TBC, TBC1, KIAA1108
4	TBC1D1	ENSG00000065882	ENST00000401554	processed_transcript	KNOWN	None	11578	None	None	38111802	38139165	1	None	TBC, TBC1, KIAA1108
4	TBC1D1	ENSG00000065882	ENST00000407365	processed_transcript	KNOWN	None	11578	None	None	38113523	38140796	1	None	TBC, TBC1, KIAA1108
4	TBC1D1	ENSG00000065882	ENST00000475531	retained_intron	KNOWN	None	11578	None	None	38117521	38120206	1	None	TBC, TBC1, KIAA1108
4	TBC1D1	ENSG00000065882	ENST00000406664	processed_transcript	KNOWN	None	11578	None	None	38121575	38139248	1	None	TBC, TBC1, KIAA1108
4	TBC1D1	ENSG00000065882	ENST00000405444	processed_transcript	KNOWN	None	11578	None	None	38134328	38139023	1	None	TBC, TBC1, KIAA1108
4	TBC1D1	ENSG00000065882	ENST00000492180	retained_intron	KNOWN	None	11578	None	None	38134381	38138870	1	None	TBC, TBC1, KIAA1108
4	PPEF2	ENSG00000156194	ENST00000511880	nonsense_mediated_decay	KNOWN	None	9244	420	139	76781020	76823576	-1	None	PPP7CB
4	PPEF2	ENSG00000156194	ENST00000286719	protein_coding	KNOWN	CCDS34013	9244	2262	753	76781025	76823681	-1	None	PPP7CB
4	PPEF2	ENSG00000156194	ENST00000513324	retained_intron	KNOWN	None	9244	None	None	76803906	76805976	-1	None	PPP7CB
4	PPEF2	ENSG00000156194	ENST00000515552	retained_intron	KNOWN	None	9244	None	None	76804102	76804685	-1	None	PPP7CB
4	PPEF2	ENSG00000156194	ENST00000503352	processed_transcript	KNOWN	None	9244	None	None	76809454	76811195	-1	None	PPP7CB
4	PPEF2	ENSG00000156194	ENST00000510607	processed_transcript	KNOWN	None	9244	None	None	76813087	76823724	-1	None	PPP7CB
8	MRPL13	ENSG00000172172	ENST00000521648	nonsense_mediated_decay	KNOWN	None	14278	144	47	121393000	121426351	-1	None	L13, RPL13, L13mt, RPML13, L13A
8	MRPL13	ENSG00000172172	ENST00000518696	nonsense_mediated_decay	KNOWN	None	14278	177	58	121407676	121457642	-1	None	L13, RPL13, L13mt, RPML13, L13A
8	MRPL13	ENSG00000172172	ENST00000522717	retained_intron	KNOWN	None	14278	None	None	121408086	121426430	-1	None	L13, RPL13, L13mt, RPML13, L13A
8	MRPL13	ENSG00000172172	ENST00000306185	protein_coding	KNOWN	CCDS6332	14278	537	178	121408086	121457626	-1	None	L13, RPL13, L13mt, RPML13, L13A
8	MRPL13	ENSG00000172172	ENST00000523316	retained_intron	KNOWN	None	14278	None	None	121408087	121428319	-1	None	L13, RPL13, L13mt, RPML13, L13A
8	MRPL13	ENSG00000172172	ENST00000518918	protein_coding	PUTATIVE	None	14278	443	146	121426230	121457332	-1	None	L13, RPL13, L13mt, RPML13, L13A
8	MRPL13	ENSG00000172172	ENST00000520677	retained_intron	KNOWN	None	14278	None	None	121431896	121457339	-1	None	L13, RPL13, L13mt, RPML13, L13A
9	FOXD4L6	ENSG00000204793	ENST00000377473	protein_coding	NOVEL	CCDS43826	31986	1254	417	69199480	69202204	-1	None	OTTHUMG00000066822
10	SPAG6	ENSG00000077327	ENST00000376624	protein_coding	KNOWN	CCDS7139	11215	1530	509	22634399	22706550	1	None	Repro-SA-1, pf16
10	SPAG6	ENSG00000077327	ENST00000456231	protein_coding	KNOWN	None	11215	575	190	22634416	22690184	1	None	Repro-SA-1, pf16
10	SPAG6	ENSG00000077327	ENST00000488555	processed_transcript	KNOWN	None	11215	None	None	22634416	22690206	1	None	Repro-SA-1, pf16
10	SPAG6	ENSG00000077327	ENST00000313311	protein_coding	KNOWN	CCDS7140	11215	1377	458	22634426	22706539	1	None	Repro-SA-1, pf16
10	SPAG6	ENSG00000077327	ENST00000435326	protein_coding	NOVEL	None	11215	739	245	22634427	22675721	1	None	Repro-SA-1, pf16
10	SPAG6	ENSG00000077327	ENST00000490361	processed_transcript	KNOWN	None	11215	None	None	22680732	22700599	1	None	Repro-SA-1, pf16
10	SPAG6	ENSG00000077327	ENST00000487973	processed_transcript	KNOWN	None	11215	None	None	22680734	22743153	1	None	Repro-SA-1, pf16
10	SPAG6	ENSG00000077327	ENST00000376603	protein_coding	KNOWN	None	11215	1758	585	22634399	22706525	1	None	Repro-SA-1, pf16
10	SPAG6	ENSG00000077327	ENST00000376601	protein_coding	KNOWN	None	11215	813	270	22634399	22706525	1	None	Repro-SA-1, pf16
10	SPAG6	ENSG00000077327	ENST00000538630	protein_coding	KNOWN	CCDS58071	11215	1455	484	22634399	22705702	1	None	Repro-SA-1, pf16
X	PSMD10	ENSG00000101843	ENST00000217958	protein_coding	KNOWN	CCDS14536	9555	681	226	107327437	107334848	-1	None	p28
X	PSMD10	ENSG00000101843	ENST00000372296	protein_coding	PUTATIVE	None	9555	333	110	107327827	107334772	-1	None	p28
X	PSMD10	ENSG00000101843	ENST00000372295	protein_coding	NOVEL	None	9555	558	185	107328005	107334772	-1	None	p28
X	PSMD10	ENSG00000101843	ENST00000361815	protein_coding	KNOWN	CCDS14537	9555	456	151	107328060	107334772	-1	None	p28
X	PSMD10	ENSG00000101843	ENST00000340200	protein_coding	NOVEL	None	9555	582	193	107328073	107334750	-1	None	p28
X	PSMD10	ENSG00000101843	ENST00000553388	retained_intron	KNOWN	None	9555	None	None	107330275	107334768	-1	None	p28
X	PSMD10	ENSG00000101843	ENST00000338548	retained_intron	KNOWN	None	9555	None	None	107331710	107334779	-1	None	p28
9	CBWD6	ENSG00000204790	ENST00000416428	protein_coding	PUTATIVE	None	31978	280	92	69204538	69229650	-1	None	OTTHUMG00000066820
9	CBWD6	ENSG00000204790	ENST00000377457	protein_coding	KNOWN	CCDS43827	31978	1188	395	69204538	69262593	-1	None	OTTHUMG00000066820
9	CBWD6	ENSG00000204790	ENST00000377449	protein_coding	NOVEL	None	31978	1080	359	69204556	69262509	-1	None	OTTHUMG00000066820
9	CBWD6	ENSG00000204790	ENST00000477430	processed_transcript	KNOWN	None	31978	None	None	69204585	69219221	-1	None	OTTHUMG00000066820
9	CBWD6	ENSG00000204790	ENST00000466320	processed_transcript	KNOWN	None	31978	None	None	69204585	69262530	-1	None	OTTHUMG00000066820
9	CBWD6	ENSG00000204790	ENST00000468061	processed_transcript	KNOWN	None	31978	None	None	69204587	69232145	-1	None	OTTHUMG00000066820
9	CBWD6	ENSG00000204790	ENST00000468763	processed_transcript	KNOWN	None	31978	None	None	69204906	69250143	-1	None	OTTHUMG00000066820
9	CBWD6	ENSG00000204790	ENST00000498101	processed_transcript	KNOWN	None	31978	None	None	69204907	69208438	-1	None	OTTHUMG00000066820
9	CBWD6	ENSG00000204790	ENST00000495626	processed_transcript	KNOWN	None	31978	None	None	69204907	69262568	-1	None	OTTHUMG00000066820
9	CBWD6	ENSG00000204790	ENST00000461037	processed_transcript	KNOWN	None	31978	None	None	69204909	69251015	-1	None	OTTHUMG00000066820
9	CBWD6	ENSG00000204790	ENST00000485382	processed_transcript	KNOWN	None	31978	None	None	69229612	69247581	-1	None	OTTHUMG00000066820
9	CBWD6	ENSG00000204790	ENST00000494632	processed_transcript	KNOWN	None	31978	None	None	69233652	69245156	-1	None	OTTHUMG00000066820
9	CBWD6	ENSG00000204790	ENST00000461834	processed_transcript	KNOWN	None	31978	None	None	69237162	69245163	-1	None	OTTHUMG00000066820
9	CBWD6	ENSG00000204790	ENST00000377445	retained_intron	KNOWN	None	31978	None	None	69237896	69262560	-1	None	OTTHUMG00000066820
9	CBWD6	ENSG00000204790	ENST00000476973	processed_transcript	KNOWN	None	31978	None	None	69243600	69262534	-1	None	OTTHUMG00000066820
9	CBWD6	ENSG00000204790	ENST00000377441	protein_coding	NOVEL	None	31978	342	113	69256418	69262551	-1	None	OTTHUMG00000066820
9	CBWD6	ENSG00000204790	ENST00000470192	processed_transcript	KNOWN	None	31978	None	None	69256455	69262541	-1	None	OTTHUMG00000066820
9	CBWD6	ENSG00000204790	ENST00000480351	processed_transcript	KNOWN	None	31978	None	None	69256801	69269662	-1	None	OTTHUMG00000066820
9	CBWD6	ENSG00000204790	ENST00000377439	protein_coding	PUTATIVE	None	31978	249	82	69258930	69262539	-1	None	OTTHUMG00000066820
9	CBWD6	ENSG00000204790	ENST00000382399	protein_coding	KNOWN	None	31978	1128	375	69204906	69262536	-1	None	OTTHUMG00000066820
9	KIAA2026	ENSG00000183354	ENST00000436015	nonsense_mediated_decay	KNOWN	None	23378	622	206	5881596	5921097	-1	None	FLJ20375
9	KIAA2026	ENSG00000183354	ENST00000443149	processed_transcript	KNOWN	None	23378	None	None	5898937	5913860	-1	None	FLJ20375
9	KIAA2026	ENSG00000183354	ENST00000399933	protein_coding	NOVEL	None	23378	6312	2103	5919008	6007787	-1	None	FLJ20375
9	KIAA2026	ENSG00000183354	ENST00000381461	protein_coding	NOVEL	None	23378	6222	2073	5919022	6007787	-1	None	FLJ20375
9	KIAA2026	ENSG00000183354	ENST00000540714	nonsense_mediated_decay	KNOWN	None	23378	395	130	5919632	5968081	-1	None	FLJ20375
9	KIAA2026	ENSG00000183354	ENST00000513355	protein_coding	NOVEL	None	23378	1853	616	5968177	6007901	-1	None	FLJ20375
X	PNMA3	ENSG00000183837	ENST00000370265	protein_coding	PUTATIVE	None	18742	1368	455	152224766	152228827	1	None	MA5, MA3, MGC132756, MGC132758
X	PNMA3	ENSG00000183837	ENST00000424805	nonsense_mediated_decay	KNOWN	CCDS35435	18742	1392	463	152224839	152228822	1	None	MA5, MA3, MGC132756, MGC132758
X	PNMA3	ENSG00000183837	ENST00000370264	protein_coding	KNOWN	CCDS35435	18742	1392	463	152225387	152227632	1	None	MA5, MA3, MGC132756, MGC132758
X	PNMA3	ENSG00000183837	ENST00000447306	protein_coding	KNOWN	CCDS35435	18742	1392	463	152224766	152228827	1	None	MA5, MA3, MGC132756, MGC132758
X	PNMA6C	ENSG00000235961	ENST00000421798	protein_coding	KNOWN	CCDS55533	41914	1200	399	152240819	152243401	1	None	None
8	MTBP	ENSG00000172167	ENST00000456899	retained_intron	KNOWN	None	7417	None	None	121457640	121463575	1	None	None
8	MTBP	ENSG00000172167	ENST00000522308	retained_intron	KNOWN	None	7417	None	None	121457662	121465069	1	None	None
8	MTBP	ENSG00000172167	ENST00000523373	nonsense_mediated_decay	KNOWN	None	7417	990	329	121457662	121483177	1	None	None
8	MTBP	ENSG00000172167	ENST00000305949	protein_coding	KNOWN	CCDS6333	7417	2715	904	121457666	121535875	1	None	None
8	MTBP	ENSG00000172167	ENST00000522449	retained_intron	KNOWN	None	7417	None	None	121471516	121486190	1	None	None
8	MTBP	ENSG00000172167	ENST00000519188	retained_intron	KNOWN	None	7417	None	None	121500401	121502943	1	None	None
8	MTBP	ENSG00000172167	ENST00000519556	nonsense_mediated_decay	KNOWN	None	7417	202	66	121530943	121554205	1	None	None
8	MTBP	ENSG00000172167	ENST00000519841	processed_transcript	KNOWN	None	7417	None	None	121550935	121554373	1	None	None
X	PNMA6A	ENSG00000224201	ENST00000453825	protein_coding	KNOWN	CCDS14719	28248	1200	399	152338301	152340864	1	None	MGC15827
X	PNMA6A	ENSG00000224201	ENST00000535416	protein_coding	KNOWN	CCDS14719	28248	1200	399	152240839	152340107	1	None	MGC15827
X	PNMA6D	ENSG00000257088	ENST00000538162	protein_coding	KNOWN	CCDS56608	41924	1200	399	152244152	152245958	-1	None	None
X	PNMA6B	ENSG00000203902	ENST00000370261	protein_coding	KNOWN	None	26681	1200	399	152341458	152343394	-1	None	None
X	MAGEA1	ENSG00000198681	ENST00000356661	protein_coding	KNOWN	CCDS14720	6796	930	309	152481522	152486115	-1	MAGE1	MGC9326, CT1.1
4	NAAA	ENSG00000138744	ENST00000286733	protein_coding	KNOWN	CCDS43239	736	1080	359	76834813	76862204	-1	ASAHL	None
4	NAAA	ENSG00000138744	ENST00000511606	processed_transcript	KNOWN	None	736	None	None	76835122	76842180	-1	ASAHL	None
4	NAAA	ENSG00000138744	ENST00000513045	nonsense_mediated_decay	KNOWN	None	736	418	138	76835458	76846966	-1	ASAHL	None
4	NAAA	ENSG00000138744	ENST00000602782	protein_coding	NOVEL	None	736	668	221	76837591	76857383	-1	ASAHL	None
4	NAAA	ENSG00000138744	ENST00000507956	protein_coding	KNOWN	None	736	972	323	76838620	76862126	-1	ASAHL	None
4	NAAA	ENSG00000138744	ENST00000505594	protein_coding	PUTATIVE	None	736	759	252	76840495	76861413	-1	ASAHL	None
4	NAAA	ENSG00000138744	ENST00000507187	protein_coding	PUTATIVE	None	736	504	167	76856044	76862136	-1	ASAHL	None
4	NAAA	ENSG00000138744	ENST00000507940	retained_intron	KNOWN	None	736	None	None	76857317	76861377	-1	ASAHL	None
4	NAAA	ENSG00000138744	ENST00000503636	retained_intron	KNOWN	None	736	None	None	76861123	76862164	-1	ASAHL	None
4	NAAA	ENSG00000138744	ENST00000399497	protein_coding	KNOWN	CCDS43238	736	972	323	76831809	76862166	-1	ASAHL	None
X	ZNF275	ENSG00000063587	ENST00000370251	protein_coding	NOVEL	None	13069	990	329	152599613	152617037	1	None	None
X	ZNF275	ENSG00000063587	ENST00000370249	protein_coding	NOVEL	None	13069	1131	376	152609735	152616851	1	None	None
X	ZNF275	ENSG00000063587	ENST00000421401	protein_coding	KNOWN	None	13069	1290	429	152599613	152618384	1	None	None
X	ZNF275	ENSG00000063587	ENST00000440091	protein_coding	KNOWN	None	13069	1380	459	152609656	152618384	1	None	None
8	SNTB1	ENSG00000172164	ENST00000395601	protein_coding	KNOWN	CCDS6334	11168	1617	538	121547985	121825513	-1	SNT2B1	59-DAP, A1B, BSYN2, TIP-43, SNT2
8	SNTB1	ENSG00000172164	ENST00000517992	protein_coding	KNOWN	CCDS6334	11168	1617	538	121550761	121824383	-1	SNT2B1	59-DAP, A1B, BSYN2, TIP-43, SNT2
8	SNTB1	ENSG00000172164	ENST00000519177	processed_transcript	KNOWN	None	11168	None	None	121582499	121823803	-1	SNT2B1	59-DAP, A1B, BSYN2, TIP-43, SNT2
8	SNTB1	ENSG00000172164	ENST00000519298	processed_transcript	KNOWN	None	11168	None	None	121644850	121706148	-1	SNT2B1	59-DAP, A1B, BSYN2, TIP-43, SNT2
8	SNTB1	ENSG00000172164	ENST00000520717	protein_coding	KNOWN	None	11168	85	27	121823999	121825092	-1	SNT2B1	59-DAP, A1B, BSYN2, TIP-43, SNT2
15	FAH	ENSG00000103876	ENST00000558022	protein_coding	KNOWN	None	3579	483	160	80444832	80460421	1	None	None
15	FAH	ENSG00000103876	ENST00000407106	protein_coding	KNOWN	CCDS10314	3579	1260	419	80445122	80479288	1	None	None
15	FAH	ENSG00000103876	ENST00000537726	retained_intron	KNOWN	None	3579	None	None	80445131	80455473	1	None	None
15	FAH	ENSG00000103876	ENST00000558767	retained_intron	KNOWN	None	3579	None	None	80445136	80456049	1	None	None
15	FAH	ENSG00000103876	ENST00000261755	protein_coding	KNOWN	CCDS10314	3579	1260	419	80445136	80478685	1	None	None
15	FAH	ENSG00000103876	ENST00000561369	retained_intron	KNOWN	None	3579	None	None	80445197	80454825	1	None	None
15	FAH	ENSG00000103876	ENST00000561421	protein_coding	KNOWN	CCDS10314	3579	1260	419	80445239	80478682	1	None	None
15	FAH	ENSG00000103876	ENST00000539156	protein_coding	PUTATIVE	None	3579	1050	349	80448293	80478690	1	None	None
15	FAH	ENSG00000103876	ENST00000558627	processed_transcript	KNOWN	None	3579	None	None	80452400	80467434	1	None	None
15	FAH	ENSG00000103876	ENST00000558514	retained_intron	KNOWN	None	3579	None	None	80460393	80460761	1	None	None
15	FAH	ENSG00000103876	ENST00000559542	retained_intron	KNOWN	None	3579	None	None	80464549	80466095	1	None	None
15	FAH	ENSG00000103876	ENST00000561353	nonsense_mediated_decay	KNOWN	None	3579	181	59	80467423	80473442	1	None	None
15	FAH	ENSG00000103876	ENST00000559217	retained_intron	KNOWN	None	3579	None	None	80469749	80478693	1	None	None
X	ZFP92	ENSG00000189420	ENST00000338647	protein_coding	KNOWN	CCDS59177	12865	1251	416	152683780	152687087	1	None	ZNF897
19	DOHH	ENSG00000129932	ENST00000250937	protein_coding	KNOWN	CCDS12108	28662	909	302	3490819	3500635	-1	HLRC1	MGC4293
19	DOHH	ENSG00000129932	ENST00000586906	retained_intron	KNOWN	None	28662	None	None	3491308	3494169	-1	HLRC1	MGC4293
19	DOHH	ENSG00000129932	ENST00000592858	protein_coding	KNOWN	None	28662	670	222	3491729	3500911	-1	HLRC1	MGC4293
19	DOHH	ENSG00000129932	ENST00000587122	protein_coding	PUTATIVE	None	28662	586	194	3492000	3496666	-1	HLRC1	MGC4293
19	DOHH	ENSG00000129932	ENST00000427575	protein_coding	KNOWN	CCDS12108	28662	909	302	3490820	3500938	-1	HLRC1	MGC4293
20	None	ENSG00000215450	ENST00000400363	processed_pseudogene	KNOWN	None	None	None	None	45789477	45790339	-1	None	None
15	VWA9	ENSG00000138614	ENST00000573314	nonsense_mediated_decay	KNOWN	None	25372	174	57	65871091	65903474	-1	C15orf44	DKFZP564O1664
15	VWA9	ENSG00000138614	ENST00000313182	protein_coding	KNOWN	None	25372	1557	518	65871120	65903583	-1	C15orf44	DKFZP564O1664
15	VWA9	ENSG00000138614	ENST00000567744	protein_coding	KNOWN	None	25372	1665	554	65871365	65903459	-1	C15orf44	DKFZP564O1664
15	VWA9	ENSG00000138614	ENST00000431261	protein_coding	KNOWN	None	25372	1320	439	65871403	65903596	-1	C15orf44	DKFZP564O1664
15	VWA9	ENSG00000138614	ENST00000569491	protein_coding	PUTATIVE	None	25372	1407	468	65871435	65903469	-1	C15orf44	DKFZP564O1664
15	VWA9	ENSG00000138614	ENST00000420799	protein_coding	KNOWN	CCDS55969	25372	1386	461	65871485	65903580	-1	C15orf44	DKFZP564O1664
15	VWA9	ENSG00000138614	ENST00000442903	protein_coding	NOVEL	None	25372	1449	482	65871586	65903627	-1	C15orf44	DKFZP564O1664
15	VWA9	ENSG00000138614	ENST00000569180	processed_transcript	PUTATIVE	None	25372	None	None	65877167	65879296	-1	C15orf44	DKFZP564O1664
15	VWA9	ENSG00000138614	ENST00000569004	nonsense_mediated_decay	KNOWN	None	25372	465	154	65888071	65899747	-1	C15orf44	DKFZP564O1664
15	VWA9	ENSG00000138614	ENST00000563729	retained_intron	KNOWN	None	25372	None	None	65888103	65891203	-1	C15orf44	DKFZP564O1664
15	VWA9	ENSG00000138614	ENST00000564306	retained_intron	KNOWN	None	25372	None	None	65891715	65903492	-1	C15orf44	DKFZP564O1664
15	VWA9	ENSG00000138614	ENST00000561769	protein_coding	KNOWN	None	25372	213	70	65892148	65903469	-1	C15orf44	DKFZP564O1664
15	VWA9	ENSG00000138614	ENST00000567923	protein_coding	NOVEL	None	25372	509	168	65892185	65903561	-1	C15orf44	DKFZP564O1664
15	VWA9	ENSG00000138614	ENST00000568573	protein_coding	PUTATIVE	None	25372	230	75	65892221	65903459	-1	C15orf44	DKFZP564O1664
15	VWA9	ENSG00000138614	ENST00000567940	nonsense_mediated_decay	KNOWN	None	25372	174	57	65892235	65903486	-1	C15orf44	DKFZP564O1664
15	VWA9	ENSG00000138614	ENST00000562830	protein_coding	NOVEL	None	25372	117	38	65897521	65903461	-1	C15orf44	DKFZP564O1664
15	VWA9	ENSG00000138614	ENST00000569565	nonsense_mediated_decay	KNOWN	None	25372	174	57	65897541	65903477	-1	C15orf44	DKFZP564O1664
15	VWA9	ENSG00000138614	ENST00000395644	protein_coding	KNOWN	None	25372	1557	518	65871122	65903407	-1	C15orf44	DKFZP564O1664
X	TREX2	ENSG00000183479	ENST00000393862	protein_coding	KNOWN	CCDS35437	12270	711	236	152710178	152713321	-1	None	None
X	TREX2	ENSG00000183479	ENST00000330912	protein_coding	KNOWN	CCDS35437	12270	711	236	152710178	152736045	-1	None	None
X	TREX2	ENSG00000183479	ENST00000338525	protein_coding	KNOWN	CCDS35437	12270	711	236	152710178	152736045	-1	None	None
X	TREX2	ENSG00000183479	ENST00000334497	protein_coding	KNOWN	None	12270	840	279	152710178	152736045	-1	None	None
X	TREX2	ENSG00000183479	ENST00000370232	protein_coding	KNOWN	None	12270	840	279	152710178	152736045	-1	None	None
X	TREX2	ENSG00000183479	ENST00000402951	protein_coding	KNOWN	None	12270	840	279	152710178	152713321	-1	None	None
X	TREX2	ENSG00000183479	ENST00000414588	protein_coding	KNOWN	None	12270	837	278	152710178	152713321	-1	None	None
X	TREX2	ENSG00000183479	ENST00000370231	protein_coding	KNOWN	CCDS35437	12270	711	236	152710178	152711945	-1	None	None
8	HAS2	ENSG00000170961	ENST00000303924	protein_coding	KNOWN	CCDS6335	4819	1659	552	122624356	122653630	-1	None	None
20	MIR3616	ENSG00000264901	ENST00000584070	miRNA	KNOWN	None	38943	None	None	45795609	45795700	1	None	hsa-mir-3616
8	ZHX2	ENSG00000178764	ENST00000314393	protein_coding	KNOWN	CCDS6336	18513	2514	837	123793633	123986750	1	None	KIAA0854
8	ZHX2	ENSG00000178764	ENST00000534247	protein_coding	KNOWN	None	18513	499	165	123875624	123964249	1	None	KIAA0854
20	RN7SL243P	ENSG00000265532	ENST00000582058	misc_RNA	KNOWN	None	46259	None	None	45936797	45937126	-1	None	None
10	PIP4K2A	ENSG00000150867	ENST00000376573	protein_coding	KNOWN	CCDS7141	8997	1221	406	22823778	23003484	-1	PIP5K2A	PIP5KIIA, PIP5KIIalpha
10	PIP4K2A	ENSG00000150867	ENST00000323883	protein_coding	PUTATIVE	None	8997	801	266	22825667	22880642	-1	PIP5K2A	PIP5KIIA, PIP5KIIalpha
10	PIP4K2A	ENSG00000150867	ENST00000474335	processed_transcript	KNOWN	None	8997	None	None	22825822	22828564	-1	PIP5K2A	PIP5KIIA, PIP5KIIalpha
10	PIP4K2A	ENSG00000150867	ENST00000545335	protein_coding	NOVEL	None	8997	1044	347	22825944	23003037	-1	PIP5K2A	PIP5KIIA, PIP5KIIalpha
10	PIP4K2A	ENSG00000150867	ENST00000604912	protein_coding	PUTATIVE	None	8997	426	141	22830881	22880604	-1	PIP5K2A	PIP5KIIA, PIP5KIIalpha
10	PIP4K2A	ENSG00000150867	ENST00000422321	processed_transcript	KNOWN	None	8997	None	None	22856466	22898646	-1	PIP5K2A	PIP5KIIA, PIP5KIIalpha
10	PIP4K2A	ENSG00000150867	ENST00000432610	processed_transcript	KNOWN	None	8997	None	None	22896747	22898646	-1	PIP5K2A	PIP5KIIA, PIP5KIIalpha
10	PIP4K2A	ENSG00000150867	ENST00000605011	processed_transcript	KNOWN	None	8997	None	None	22930951	22980759	-1	PIP5K2A	PIP5KIIA, PIP5KIIalpha
20	None	ENSG00000263770	ENST00000577832	miRNA	NOVEL	None	None	None	None	45943269	45943336	-1	None	None
20	None	ENSG00000231119	ENST00000413818	processed_transcript	PUTATIVE	None	None	None	None	45981305	45983377	1	None	None
9	MLANA	ENSG00000120215	ENST00000381477	protein_coding	KNOWN	CCDS6466	7124	357	118	5890802	5910606	1	None	MART1
9	MLANA	ENSG00000120215	ENST00000381476	protein_coding	KNOWN	CCDS6466	7124	357	118	5890908	5908943	1	None	MART1
9	MLANA	ENSG00000120215	ENST00000381471	protein_coding	KNOWN	CCDS6466	7124	357	118	5890922	5908945	1	None	MART1
9	MLANA	ENSG00000120215	ENST00000482341	processed_transcript	KNOWN	None	7124	None	None	5892511	5907194	1	None	MART1
9	MLANA	ENSG00000120215	ENST00000490518	processed_transcript	KNOWN	None	7124	None	None	5897564	5907189	1	None	MART1
4	SDAD1	ENSG00000198301	ENST00000502543	processed_transcript	KNOWN	None	25537	None	None	76862103	76878524	-1	None	FLJ10498
4	SDAD1	ENSG00000198301	ENST00000395710	nonsense_mediated_decay	KNOWN	None	25537	219	72	76871059	76912091	-1	None	FLJ10498
4	SDAD1	ENSG00000198301	ENST00000356260	protein_coding	KNOWN	CCDS3573	25537	2064	687	76871069	76912113	-1	None	FLJ10498
4	SDAD1	ENSG00000198301	ENST00000395711	protein_coding	NOVEL	None	25537	1953	650	76871439	76912090	-1	None	FLJ10498
4	SDAD1	ENSG00000198301	ENST00000513089	processed_transcript	KNOWN	None	25537	None	None	76881275	76894544	-1	None	FLJ10498
4	SDAD1	ENSG00000198301	ENST00000507396	processed_transcript	KNOWN	None	25537	None	None	76886937	76896997	-1	None	FLJ10498
4	SDAD1	ENSG00000198301	ENST00000515836	processed_transcript	KNOWN	None	25537	None	None	76892538	76898838	-1	None	FLJ10498
4	SDAD1	ENSG00000198301	ENST00000503411	nonsense_mediated_decay	KNOWN	None	25537	267	88	76894513	76912084	-1	None	FLJ10498
4	SDAD1	ENSG00000198301	ENST00000504975	processed_transcript	KNOWN	None	25537	None	None	76898822	76912115	-1	None	FLJ10498
4	SDAD1	ENSG00000198301	ENST00000514710	nonsense_mediated_decay	KNOWN	None	25537	144	47	76898876	76912098	-1	None	FLJ10498
8	DERL1	ENSG00000136986	ENST00000259512	protein_coding	KNOWN	CCDS6337	28454	756	251	124025404	124054663	-1	None	MGC3067, PRO2577, FLJ13784, DER1, DER-1, derlin-1
8	DERL1	ENSG00000136986	ENST00000524119	retained_intron	KNOWN	None	28454	None	None	124026389	124042959	-1	None	MGC3067, PRO2577, FLJ13784, DER1, DER-1, derlin-1
8	DERL1	ENSG00000136986	ENST00000405944	protein_coding	KNOWN	CCDS47915	28454	696	231	124026389	124054362	-1	None	MGC3067, PRO2577, FLJ13784, DER1, DER-1, derlin-1
8	DERL1	ENSG00000136986	ENST00000419562	protein_coding	NOVEL	None	28454	456	151	124027405	124054542	-1	None	MGC3067, PRO2577, FLJ13784, DER1, DER-1, derlin-1
8	DERL1	ENSG00000136986	ENST00000519018	protein_coding	PUTATIVE	None	28454	456	151	124027682	124037890	-1	None	MGC3067, PRO2577, FLJ13784, DER1, DER-1, derlin-1
8	DERL1	ENSG00000136986	ENST00000523036	protein_coding	PUTATIVE	None	28454	456	151	124027686	124038012	-1	None	MGC3067, PRO2577, FLJ13784, DER1, DER-1, derlin-1
10	None	ENSG00000204049	ENST00000372387	protein_coding	KNOWN	None	None	378	125	79626633	79629368	1	None	None
15	BAHD1	ENSG00000140320	ENST00000561234	protein_coding	KNOWN	None	29153	2340	779	40731920	40760428	1	None	KIAA0945
15	BAHD1	ENSG00000140320	ENST00000416165	protein_coding	KNOWN	CCDS10058	29153	2343	780	40733411	40760441	1	None	KIAA0945
15	BAHD1	ENSG00000140320	ENST00000560846	protein_coding	NOVEL	None	29153	2334	777	40750664	40760427	1	None	KIAA0945
15	BAHD1	ENSG00000140320	ENST00000561464	retained_intron	KNOWN	None	29153	None	None	40757109	40758203	1	None	KIAA0945
X	HAUS7	ENSG00000213397	ENST00000370211	protein_coding	KNOWN	None	32979	1077	358	152713124	152736089	-1	UCHL5IP	UIP1
X	HAUS7	ENSG00000213397	ENST00000474022	processed_transcript	KNOWN	None	32979	None	None	152713126	152722020	-1	UCHL5IP	UIP1
X	HAUS7	ENSG00000213397	ENST00000460898	processed_transcript	KNOWN	None	32979	None	None	152713128	152721751	-1	UCHL5IP	UIP1
X	HAUS7	ENSG00000213397	ENST00000435662	protein_coding	PUTATIVE	None	32979	635	210	152713128	152721808	-1	UCHL5IP	UIP1
X	HAUS7	ENSG00000213397	ENST00000484394	processed_transcript	KNOWN	None	32979	None	None	152713128	152722649	-1	UCHL5IP	UIP1
X	HAUS7	ENSG00000213397	ENST00000477380	processed_transcript	KNOWN	None	32979	None	None	152713128	152734725	-1	UCHL5IP	UIP1
X	HAUS7	ENSG00000213397	ENST00000437046	processed_transcript	KNOWN	None	32979	None	None	152713207	152720601	-1	UCHL5IP	UIP1
X	HAUS7	ENSG00000213397	ENST00000491286	processed_transcript	KNOWN	None	32979	None	None	152713319	152722620	-1	UCHL5IP	UIP1
X	HAUS7	ENSG00000213397	ENST00000490165	processed_transcript	KNOWN	None	32979	None	None	152720923	152736011	-1	UCHL5IP	UIP1
X	HAUS7	ENSG00000213397	ENST00000472228	processed_transcript	KNOWN	None	32979	None	None	152721199	152734726	-1	UCHL5IP	UIP1
X	HAUS7	ENSG00000213397	ENST00000490453	processed_transcript	KNOWN	None	32979	None	None	152721951	152736023	-1	UCHL5IP	UIP1
X	HAUS7	ENSG00000213397	ENST00000464993	processed_transcript	KNOWN	None	32979	None	None	152722188	152736013	-1	UCHL5IP	UIP1
X	HAUS7	ENSG00000213397	ENST00000492596	processed_transcript	KNOWN	None	32979	None	None	152726608	152736028	-1	UCHL5IP	UIP1
X	HAUS7	ENSG00000213397	ENST00000370210	protein_coding	PUTATIVE	None	32979	384	127	152727018	152760974	-1	UCHL5IP	UIP1
X	HAUS7	ENSG00000213397	ENST00000370219	protein_coding	KNOWN	CCDS35438	32979	1107	368	152713124	152736603	-1	UCHL5IP	UIP1
X	HAUS7	ENSG00000213397	ENST00000370212	protein_coding	KNOWN	None	32979	1284	427	152713336	152736045	-1	UCHL5IP	UIP1
X	HAUS7	ENSG00000213397	ENST00000421080	protein_coding	KNOWN	None	32979	411	136	152713128	152760978	-1	UCHL5IP	UIP1
HSCHR6_MHC_COX	SAPCD1	ENSG00000229176	ENST00000383205	protein_coding	KNOWN	None	13938	444	147	31717958	31720011	1	C6orf26	NG23
HSCHR6_MHC_COX	SAPCD1	ENSG00000229176	ENST00000457185	protein_coding	KNOWN	None	13938	537	178	31718155	31720011	1	C6orf26	NG23
HSCHR6_MHC_COX	SAPCD1	ENSG00000229176	ENST00000465353	retained_intron	KNOWN	None	13938	None	None	31718779	31719458	1	C6orf26	NG23
HSCHR6_MHC_COX	SAPCD1	ENSG00000229176	ENST00000547662	protein_coding	KNOWN	None	13938	447	148	31718155	31720005	1	C6orf26	NG23
15	None	ENSG00000259495	ENST00000559267	processed_transcript	PUTATIVE	None	None	None	None	80637195	80690349	-1	None	None
15	None	ENSG00000259495	ENST00000559008	protein_coding	PUTATIVE	None	None	171	56	80672219	80695917	-1	None	None
X	ATG4A	ENSG00000101844	ENST00000372232	protein_coding	KNOWN	CCDS14538	16489	1197	398	107334898	107397901	1	AUTL2, APG4A	None
X	ATG4A	ENSG00000101844	ENST00000345734	protein_coding	KNOWN	CCDS14539	16489	1011	336	107334898	107397901	1	AUTL2, APG4A	None
X	ATG4A	ENSG00000101844	ENST00000457035	protein_coding	PUTATIVE	None	16489	607	201	107334999	107393405	1	AUTL2, APG4A	None
X	ATG4A	ENSG00000101844	ENST00000372246	nonsense_mediated_decay	KNOWN	None	16489	144	47	107335014	107397901	1	AUTL2, APG4A	None
X	ATG4A	ENSG00000101844	ENST00000343524	nonsense_mediated_decay	KNOWN	None	16489	696	231	107335040	107397901	1	AUTL2, APG4A	None
X	ATG4A	ENSG00000101844	ENST00000394892	protein_coding	NOVEL	None	16489	935	310	107369307	107395088	1	AUTL2, APG4A	None
X	ATG4A	ENSG00000101844	ENST00000474825	processed_transcript	PUTATIVE	None	16489	None	None	107393262	107396240	1	AUTL2, APG4A	None
X	ATG4A	ENSG00000101844	ENST00000489247	processed_transcript	PUTATIVE	None	16489	None	None	107393298	107397098	1	AUTL2, APG4A	None
X	ATG4A	ENSG00000101844	ENST00000372254	protein_coding	KNOWN	None	16489	1125	374	107334934	107397893	1	AUTL2, APG4A	None
X	ATG4A	ENSG00000101844	ENST00000545696	protein_coding	KNOWN	None	16489	780	259	107335018	107397243	1	AUTL2, APG4A	None
8	TBC1D31	ENSG00000156787	ENST00000520368	protein_coding	PUTATIVE	None	30888	133	43	124054208	124096509	1	WDR67	MGC21654, Gm85
8	TBC1D31	ENSG00000156787	ENST00000287380	protein_coding	KNOWN	CCDS6338	30888	3201	1066	124084920	124164390	1	WDR67	MGC21654, Gm85
8	TBC1D31	ENSG00000156787	ENST00000519418	protein_coding	PUTATIVE	None	30888	440	145	124084922	124121860	1	WDR67	MGC21654, Gm85
8	TBC1D31	ENSG00000156787	ENST00000327098	protein_coding	KNOWN	CCDS47916	30888	2913	970	124084953	124164194	1	WDR67	MGC21654, Gm85
8	TBC1D31	ENSG00000156787	ENST00000522420	protein_coding	PUTATIVE	None	30888	2886	961	124084953	124164204	1	WDR67	MGC21654, Gm85
8	TBC1D31	ENSG00000156787	ENST00000518099	retained_intron	KNOWN	None	30888	None	None	124084963	124113327	1	WDR67	MGC21654, Gm85
8	TBC1D31	ENSG00000156787	ENST00000521676	protein_coding	PUTATIVE	None	30888	2832	943	124084999	124164393	1	WDR67	MGC21654, Gm85
8	TBC1D31	ENSG00000156787	ENST00000524307	nonsense_mediated_decay	KNOWN	None	30888	243	80	124085006	124164390	1	WDR67	MGC21654, Gm85
8	TBC1D31	ENSG00000156787	ENST00000522276	protein_coding	PUTATIVE	None	30888	743	246	124085489	124109623	1	WDR67	MGC21654, Gm85
8	TBC1D31	ENSG00000156787	ENST00000518684	protein_coding	PUTATIVE	None	30888	205	67	124087160	124105879	1	WDR67	MGC21654, Gm85
8	TBC1D31	ENSG00000156787	ENST00000521980	retained_intron	KNOWN	None	30888	None	None	124094748	124110088	1	WDR67	MGC21654, Gm85
8	TBC1D31	ENSG00000156787	ENST00000521914	protein_coding	PUTATIVE	None	30888	467	154	124105901	124116441	1	WDR67	MGC21654, Gm85
8	TBC1D31	ENSG00000156787	ENST00000518805	protein_coding	PUTATIVE	None	30888	1863	620	124113193	124164393	1	WDR67	MGC21654, Gm85
8	TBC1D31	ENSG00000156787	ENST00000518577	nonsense_mediated_decay	KNOWN	None	30888	235	77	124121574	124141412	1	WDR67	MGC21654, Gm85
8	TBC1D31	ENSG00000156787	ENST00000518866	retained_intron	KNOWN	None	30888	None	None	124140090	124154696	1	WDR67	MGC21654, Gm85
8	TBC1D31	ENSG00000156787	ENST00000309336	protein_coding	KNOWN	None	30888	3006	1001	124084920	124164390	1	WDR67	MGC21654, Gm85
8	TBC1D31	ENSG00000156787	ENST00000378080	protein_coding	KNOWN	None	30888	1935	644	124085006	124164390	1	WDR67	MGC21654, Gm85
10	POLR3A	ENSG00000148606	ENST00000372371	protein_coding	KNOWN	CCDS7354	30074	4173	1390	79734907	79789303	-1	None	RPC1, RPC155, hRPC155
10	POLR3A	ENSG00000148606	ENST00000472014	processed_transcript	KNOWN	None	30074	None	None	79750867	79769425	-1	None	RPC1, RPC155, hRPC155
10	POLR3A	ENSG00000148606	ENST00000473588	nonsense_mediated_decay	KNOWN	None	30074	599	198	79761955	79779010	-1	None	RPC1, RPC155, hRPC155
10	POLR3A	ENSG00000148606	ENST00000484760	processed_transcript	KNOWN	None	30074	None	None	79772844	79779931	-1	None	RPC1, RPC155, hRPC155
9	RANBP6	ENSG00000137040	ENST00000259569	protein_coding	KNOWN	CCDS6467	9851	3318	1105	6011043	6015618	-1	None	None
9	RANBP6	ENSG00000137040	ENST00000485372	processed_transcript	KNOWN	None	9851	None	None	6013498	6015612	-1	None	None
20	None	ENSG00000224565	ENST00000437920	lincRNA	KNOWN	None	None	None	None	46020673	46041071	-1	None	None
14	ZBTB25	ENSG00000089775	ENST00000555220	protein_coding	PUTATIVE	None	13112	261	86	64915824	64971931	-1	ZNF46, C14orf51	KUP
14	ZBTB25	ENSG00000089775	ENST00000555424	protein_coding	PUTATIVE	None	13112	285	94	64916048	64957251	-1	ZNF46, C14orf51	KUP
14	ZBTB25	ENSG00000089775	ENST00000261683	protein_coding	KNOWN	CCDS9765	13112	1308	435	64953555	64970563	-1	ZNF46, C14orf51	KUP
14	ZBTB25	ENSG00000089775	ENST00000394715	protein_coding	KNOWN	CCDS9765	13112	1308	435	64953557	64971302	-1	ZNF46, C14orf51	KUP
10	ARMC3	ENSG00000165309	ENST00000298032	protein_coding	KNOWN	CCDS7142	30964	2619	872	23216953	23326516	1	None	FLJ32827, CT81
10	ARMC3	ENSG00000165309	ENST00000409983	protein_coding	KNOWN	None	30964	2598	865	23216966	23326518	1	None	FLJ32827, CT81
10	ARMC3	ENSG00000165309	ENST00000409049	protein_coding	KNOWN	None	30964	2067	688	23216993	23303418	1	None	FLJ32827, CT81
10	ARMC3	ENSG00000165309	ENST00000496741	processed_transcript	KNOWN	None	30964	None	None	23217006	23270382	1	None	FLJ32827, CT81
10	ARMC3	ENSG00000165309	ENST00000484642	processed_transcript	KNOWN	None	30964	None	None	23217006	23270537	1	None	FLJ32827, CT81
10	ARMC3	ENSG00000165309	ENST00000447081	protein_coding	PUTATIVE	None	30964	356	117	23217014	23250895	1	None	FLJ32827, CT81
10	ARMC3	ENSG00000165309	ENST00000468003	processed_transcript	KNOWN	None	30964	None	None	23217014	23257271	1	None	FLJ32827, CT81
10	ARMC3	ENSG00000165309	ENST00000483596	processed_transcript	KNOWN	None	30964	None	None	23217015	23250996	1	None	FLJ32827, CT81
10	ARMC3	ENSG00000165309	ENST00000465729	retained_intron	KNOWN	None	30964	None	None	23220925	23235612	1	None	FLJ32827, CT81
10	ARMC3	ENSG00000165309	ENST00000464017	processed_transcript	KNOWN	None	30964	None	None	23244125	23250656	1	None	FLJ32827, CT81
10	ARMC3	ENSG00000165309	ENST00000491803	processed_transcript	KNOWN	None	30964	None	None	23295664	23297303	1	None	FLJ32827, CT81
10	ARMC3	ENSG00000165309	ENST00000473919	retained_intron	KNOWN	None	30964	None	None	23319560	23320124	1	None	FLJ32827, CT81
10	ARMC3	ENSG00000165309	ENST00000376528	protein_coding	KNOWN	None	30964	1830	609	23217006	23326495	1	None	FLJ32827, CT81
9	IL33	ENSG00000137033	ENST00000381434	protein_coding	KNOWN	CCDS6468	16028	813	270	6241682	6257983	1	C9orf26	DVS27, DKFZp586H0523, NF-HEV, IL1F11
9	IL33	ENSG00000137033	ENST00000463336	processed_transcript	KNOWN	None	16028	None	None	6241693	6242734	1	C9orf26	DVS27, DKFZp586H0523, NF-HEV, IL1F11
9	IL33	ENSG00000137033	ENST00000417746	protein_coding	KNOWN	CCDS56564	16028	435	144	6215805	6256617	1	C9orf26	DVS27, DKFZp586H0523, NF-HEV, IL1F11
9	IL33	ENSG00000137033	ENST00000456383	protein_coding	KNOWN	CCDS56563	16028	687	228	6215809	6256729	1	C9orf26	DVS27, DKFZp586H0523, NF-HEV, IL1F11
14	AKAP5	ENSG00000179841	ENST00000394718	protein_coding	KNOWN	CCDS9764	375	1284	427	64932217	64936396	1	None	AKAP75, AKAP79
14	AKAP5	ENSG00000179841	ENST00000320636	protein_coding	KNOWN	CCDS9764	375	1284	427	64933825	64936425	1	None	AKAP75, AKAP79
15	ARNT2	ENSG00000172379	ENST00000529181	retained_intron	KNOWN	None	16876	None	None	80696692	80767921	1	None	KIAA0307, bHLHe1
15	ARNT2	ENSG00000172379	ENST00000303329	protein_coding	KNOWN	CCDS32307	16876	2154	717	80696693	80890278	1	None	KIAA0307, bHLHe1
15	ARNT2	ENSG00000172379	ENST00000533983	protein_coding	KNOWN	None	16876	2121	706	80733572	80890269	1	None	KIAA0307, bHLHe1
15	ARNT2	ENSG00000172379	ENST00000527771	protein_coding	KNOWN	None	16876	2121	706	80733580	80886234	1	None	KIAA0307, bHLHe1
15	ARNT2	ENSG00000172379	ENST00000525103	protein_coding	PUTATIVE	None	16876	390	129	80733581	80845094	1	None	KIAA0307, bHLHe1
15	ARNT2	ENSG00000172379	ENST00000531595	processed_transcript	PUTATIVE	None	16876	None	None	80762584	80781076	1	None	KIAA0307, bHLHe1
15	ARNT2	ENSG00000172379	ENST00000558849	retained_intron	KNOWN	None	16876	None	None	80843445	80866525	1	None	KIAA0307, bHLHe1
15	ARNT2	ENSG00000172379	ENST00000525505	retained_intron	KNOWN	None	16876	None	None	80866407	80873646	1	None	KIAA0307, bHLHe1
14	ZBTB1	ENSG00000126804	ENST00000556818	processed_transcript	PUTATIVE	None	20259	None	None	64970430	64971572	1	None	KIAA0997, ZNF909
14	ZBTB1	ENSG00000126804	ENST00000553583	protein_coding	KNOWN	None	20259	466	154	64970443	64988688	1	None	KIAA0997, ZNF909
14	ZBTB1	ENSG00000126804	ENST00000556965	protein_coding	KNOWN	None	20259	391	129	64970669	64988613	1	None	KIAA0997, ZNF909
14	ZBTB1	ENSG00000126804	ENST00000554015	protein_coding	KNOWN	CCDS45126	20259	2142	713	64970703	64990616	1	None	KIAA0997, ZNF909
14	ZBTB1	ENSG00000126804	ENST00000358738	protein_coding	KNOWN	CCDS32097	20259	1935	644	64971292	65000408	1	None	KIAA0997, ZNF909
14	ZBTB1	ENSG00000126804	ENST00000555321	protein_coding	KNOWN	None	20259	102	33	64971444	64988324	1	None	KIAA0997, ZNF909
14	ZBTB1	ENSG00000126804	ENST00000394712	protein_coding	KNOWN	CCDS45126	20259	2142	713	64971292	64991665	1	None	KIAA0997, ZNF909
9	None	ENSG00000196400	ENST00000354995	protein_coding	KNOWN	None	None	438	145	69252845	69254032	1	None	None
9	None	ENSG00000204788	ENST00000414341	protein_coding	KNOWN	None	None	420	139	69377902	69380597	-1	None	None
9	ANKRD20A4	ENSG00000172014	ENST00000357336	protein_coding	KNOWN	CCDS43828	31982	2472	823	69381812	69425560	1	None	OTTHUMG00000066855
9	ANKRD20A4	ENSG00000172014	ENST00000427650	retained_intron	KNOWN	None	31982	None	None	69381829	69400536	1	None	OTTHUMG00000066855
4	None	ENSG00000268788	ENST00000599764	protein_coding	NOVEL	None	None	282	93	76871883	76878526	1	None	None
4	CXCL9	ENSG00000138755	ENST00000264888	protein_coding	KNOWN	CCDS34014	7098	378	125	76922428	76928641	-1	CMK, MIG	SCYB9, Humig, crg-10
X	None	ENSG00000224963	ENST00000428676	protein_coding	PUTATIVE	None	None	378	125	152751314	152752546	1	None	None
15	ABHD17C	ENSG00000136379	ENST00000560609	protein_coding	PUTATIVE	None	26925	285	94	80972025	81046860	1	FAM108C1	None
15	ABHD17C	ENSG00000136379	ENST00000258884	protein_coding	KNOWN	CCDS45323	26925	990	329	80987644	81047962	1	FAM108C1	None
15	ABHD17C	ENSG00000136379	ENST00000558464	protein_coding	KNOWN	None	26925	888	295	80987652	81047680	1	FAM108C1	None
15	ABHD17C	ENSG00000136379	ENST00000559506	processed_transcript	KNOWN	None	26925	None	None	80995024	81047960	1	FAM108C1	None
15	ABHD17C	ENSG00000136379	ENST00000560126	processed_transcript	KNOWN	None	26925	None	None	80996925	81046538	1	FAM108C1	None
9	TPD52L3	ENSG00000170777	ENST00000381428	protein_coding	KNOWN	CCDS34985	23382	399	132	6328375	6330914	1	None	NYD-SP25
9	TPD52L3	ENSG00000170777	ENST00000314556	protein_coding	KNOWN	CCDS34984	23382	411	136	6328404	6331900	1	None	NYD-SP25
9	TPD52L3	ENSG00000170777	ENST00000344545	protein_coding	KNOWN	CCDS34986	23382	423	140	6328349	6330920	1	None	NYD-SP25
X	BGN	ENSG00000182492	ENST00000331595	protein_coding	KNOWN	CCDS14721	1044	1107	368	152760397	152775012	1	None	DSPG1, SLRR1A
X	BGN	ENSG00000182492	ENST00000472615	processed_transcript	KNOWN	None	1044	None	None	152760439	152775004	1	None	DSPG1, SLRR1A
X	BGN	ENSG00000182492	ENST00000480756	processed_transcript	KNOWN	None	1044	None	None	152760441	152775004	1	None	DSPG1, SLRR1A
X	BGN	ENSG00000182492	ENST00000431891	protein_coding	KNOWN	None	1044	714	237	152760451	152772084	1	None	DSPG1, SLRR1A
X	BGN	ENSG00000182492	ENST00000370204	protein_coding	KNOWN	None	1044	924	307	152767902	152775004	1	None	DSPG1, SLRR1A
X	BGN	ENSG00000182492	ENST00000492658	processed_transcript	KNOWN	None	1044	None	None	152771327	152774263	1	None	DSPG1, SLRR1A
14	HSPA2	ENSG00000126803	ENST00000394709	protein_coding	KNOWN	CCDS9766	5235	1920	639	65002623	65009955	1	None	None
14	HSPA2	ENSG00000126803	ENST00000554883	processed_transcript	PUTATIVE	None	5235	None	None	65007459	65008293	1	None	None
14	HSPA2	ENSG00000126803	ENST00000247207	protein_coding	KNOWN	CCDS9766	5235	1920	639	65007186	65009952	1	None	None
4	ART3	ENSG00000156219	ENST00000513353	protein_coding	KNOWN	None	725	322	106	76932337	77003229	1	None	None
4	ART3	ENSG00000156219	ENST00000510669	processed_transcript	KNOWN	None	725	None	None	76932353	77033834	1	None	None
4	ART3	ENSG00000156219	ENST00000341029	protein_coding	KNOWN	CCDS47080	725	1104	367	76932353	77033955	1	None	None
4	ART3	ENSG00000156219	ENST00000513122	protein_coding	KNOWN	None	725	605	200	76932402	77003512	1	None	None
4	ART3	ENSG00000156219	ENST00000504914	protein_coding	KNOWN	None	725	389	128	76933250	77003296	1	None	None
4	ART3	ENSG00000156219	ENST00000355810	protein_coding	KNOWN	CCDS47079	725	1170	389	76995863	77033944	1	None	None
4	ART3	ENSG00000156219	ENST00000349321	protein_coding	KNOWN	CCDS3575	725	1137	378	76995863	77033944	1	None	None
4	ART3	ENSG00000156219	ENST00000513494	processed_transcript	PUTATIVE	None	725	None	None	76995866	77020754	1	None	None
4	ART3	ENSG00000156219	ENST00000510423	protein_coding	KNOWN	None	725	524	173	76996404	77003431	1	None	None
4	ART3	ENSG00000156219	ENST00000395688	processed_transcript	KNOWN	None	725	None	None	76997034	77033690	1	None	None
4	ART3	ENSG00000156219	ENST00000506667	processed_transcript	KNOWN	None	725	None	None	76997034	77033690	1	None	None
4	ART3	ENSG00000156219	ENST00000504112	processed_transcript	KNOWN	None	725	None	None	76997034	77033690	1	None	None
4	ART3	ENSG00000156219	ENST00000506313	processed_transcript	KNOWN	None	725	None	None	77003652	77033565	1	None	None
4	ART3	ENSG00000156219	ENST00000511188	protein_coding	PUTATIVE	None	725	352	116	77003652	77033565	1	None	None
4	ART3	ENSG00000156219	ENST00000510863	retained_intron	KNOWN	None	725	None	None	77028369	77033733	1	None	None
14	PPP1R36	ENSG00000165807	ENST00000298705	protein_coding	KNOWN	CCDS9767	20097	1269	422	65016620	65056096	1	C14orf50	None
14	PPP1R36	ENSG00000165807	ENST00000555645	nonsense_mediated_decay	KNOWN	None	20097	225	74	65016638	65031543	1	C14orf50	None
14	PPP1R36	ENSG00000165807	ENST00000467261	nonsense_mediated_decay	KNOWN	None	20097	138	45	65016658	65056075	1	C14orf50	None
14	PPP1R36	ENSG00000165807	ENST00000557202	protein_coding	PUTATIVE	None	20097	134	43	65016927	65035165	1	C14orf50	None
14	PPP1R36	ENSG00000165807	ENST00000554400	retained_intron	KNOWN	None	20097	None	None	65052826	65056098	1	C14orf50	None
14	PPP1R36	ENSG00000165807	ENST00000556023	retained_intron	KNOWN	None	20097	None	None	65053543	65055283	1	C14orf50	None
4	PTTG2	ENSG00000250254	ENST00000504686	protein_coding	KNOWN	CCDS54755	9691	576	191	37962056	37962746	1	None	None
4	None	ENSG00000196355	ENST00000436901	protein_coding	KNOWN	None	None	543	180	38628029	38666430	-1	None	None
15	KIAA1199	ENSG00000103888	ENST00000220244	protein_coding	KNOWN	CCDS10315	29213	4086	1361	81071684	81244117	1	None	IR2155535, TMEM2L
15	KIAA1199	ENSG00000103888	ENST00000394685	protein_coding	KNOWN	CCDS10315	29213	4086	1361	81071712	81244117	1	None	IR2155535, TMEM2L
15	KIAA1199	ENSG00000103888	ENST00000356249	protein_coding	KNOWN	CCDS10315	29213	4086	1361	81071712	81244117	1	None	IR2155535, TMEM2L
15	KIAA1199	ENSG00000103888	ENST00000560027	protein_coding	PUTATIVE	None	29213	437	144	81225767	81230535	1	None	IR2155535, TMEM2L
15	KIAA1199	ENSG00000103888	ENST00000495041	nonsense_mediated_decay	KNOWN	None	29213	229	75	81229212	81235382	1	None	IR2155535, TMEM2L
15	KIAA1199	ENSG00000103888	ENST00000559966	retained_intron	KNOWN	None	29213	None	None	81239285	81241503	1	None	IR2155535, TMEM2L
9	None	ENSG00000176134	ENST00000322495	protein_coding	NOVEL	None	None	279	92	69650263	69660358	1	None	None
9	FOXD4L5	ENSG00000204779	ENST00000377420	protein_coding	KNOWN	CCDS47977	18522	1251	416	70175707	70178815	-1	None	bA15J10.2, OTTHUMG00000013332
9	FOXD4L4	ENSG00000184659	ENST00000377413	protein_coding	KNOWN	CCDS6621	23762	1251	416	70426623	70429731	-1	None	bA460E7.2, OTTHUMG00000013337
9	UHRF2	ENSG00000147854	ENST00000468435	nonsense_mediated_decay	KNOWN	None	12557	1512	503	6413151	6507054	1	None	RNF107, NIRF, URF2, MGC33463
9	UHRF2	ENSG00000147854	ENST00000469298	processed_transcript	KNOWN	None	12557	None	None	6413193	6434348	1	None	RNF107, NIRF, URF2, MGC33463
9	UHRF2	ENSG00000147854	ENST00000276893	protein_coding	KNOWN	CCDS6469	12557	2409	802	6413323	6507054	1	None	RNF107, NIRF, URF2, MGC33463
9	UHRF2	ENSG00000147854	ENST00000381373	protein_coding	KNOWN	None	12557	411	136	6413418	6422979	1	None	RNF107, NIRF, URF2, MGC33463
9	UHRF2	ENSG00000147854	ENST00000481049	processed_transcript	KNOWN	None	12557	None	None	6413777	6460581	1	None	RNF107, NIRF, URF2, MGC33463
9	UHRF2	ENSG00000147854	ENST00000461236	processed_transcript	KNOWN	None	12557	None	None	6414058	6434025	1	None	RNF107, NIRF, URF2, MGC33463
9	UHRF2	ENSG00000147854	ENST00000450508	protein_coding	KNOWN	None	12557	337	111	6421031	6477654	1	None	RNF107, NIRF, URF2, MGC33463
9	UHRF2	ENSG00000147854	ENST00000484159	retained_intron	KNOWN	None	12557	None	None	6434088	6495998	1	None	RNF107, NIRF, URF2, MGC33463
9	UHRF2	ENSG00000147854	ENST00000477183	processed_transcript	KNOWN	None	12557	None	None	6482051	6492844	1	None	RNF107, NIRF, URF2, MGC33463
9	UHRF2	ENSG00000147854	ENST00000485617	processed_transcript	KNOWN	None	12557	None	None	6486871	6507054	1	None	RNF107, NIRF, URF2, MGC33463
9	UHRF2	ENSG00000147854	ENST00000479000	processed_transcript	KNOWN	None	12557	None	None	6497049	6498150	1	None	RNF107, NIRF, URF2, MGC33463
9	UHRF2	ENSG00000147854	ENST00000492853	processed_transcript	KNOWN	None	12557	None	None	6498352	6507054	1	None	RNF107, NIRF, URF2, MGC33463
9	UHRF2	ENSG00000147854	ENST00000481243	processed_transcript	KNOWN	None	12557	None	None	6504350	6506112	1	None	RNF107, NIRF, URF2, MGC33463
4	KLF3	ENSG00000109787	ENST00000261438	protein_coding	KNOWN	CCDS3444	16516	1038	345	38665817	38702663	1	None	BKLF
4	KLF3	ENSG00000109787	ENST00000514033	protein_coding	PUTATIVE	None	16516	699	232	38665818	38692372	1	None	BKLF
4	KLF3	ENSG00000109787	ENST00000482150	retained_intron	KNOWN	None	16516	None	None	38665965	38682606	1	None	BKLF
X	DDX3X	ENSG00000215301	ENST00000399959	protein_coding	KNOWN	CCDS43931	2745	1989	662	41192651	41209462	1	DDX3	DBX, HLP2, DDX14
X	DDX3X	ENSG00000215301	ENST00000478993	processed_transcript	KNOWN	None	2745	None	None	41192651	41223725	1	DDX3	DBX, HLP2, DDX14
X	DDX3X	ENSG00000215301	ENST00000480592	processed_transcript	KNOWN	None	2745	None	None	41193427	41197762	1	DDX3	DBX, HLP2, DDX14
X	DDX3X	ENSG00000215301	ENST00000457138	protein_coding	KNOWN	CCDS55404	2745	1941	646	41193415	41207289	1	DDX3	DBX, HLP2, DDX14
X	DDX3X	ENSG00000215301	ENST00000441189	protein_coding	KNOWN	None	2745	420	139	41193415	41207512	1	DDX3	DBX, HLP2, DDX14
X	DDX3X	ENSG00000215301	ENST00000542215	protein_coding	KNOWN	None	2745	927	308	41193844	41205804	1	DDX3	DBX, HLP2, DDX14
9	CBWD5	ENSG00000147996	ENST00000382405	protein_coding	KNOWN	None	24584	1188	395	70432004	70490246	-1	None	None
9	CBWD5	ENSG00000147996	ENST00000461932	processed_transcript	KNOWN	None	24584	None	None	70432051	70446660	-1	None	None
9	CBWD5	ENSG00000147996	ENST00000485088	retained_intron	KNOWN	None	24584	None	None	70432053	70459612	-1	None	None
9	CBWD5	ENSG00000147996	ENST00000480229	nonsense_mediated_decay	KNOWN	None	24584	483	160	70432186	70490139	-1	None	None
9	CBWD5	ENSG00000147996	ENST00000377395	protein_coding	NOVEL	CCDS43831	24584	1044	347	70432369	70490107	-1	None	None
9	CBWD5	ENSG00000147996	ENST00000491485	retained_intron	KNOWN	None	24584	None	None	70432371	70433352	-1	None	None
9	CBWD5	ENSG00000147996	ENST00000430059	protein_coding	NOVEL	None	24584	1131	376	70432371	70490121	-1	None	None
9	CBWD5	ENSG00000147996	ENST00000476797	processed_transcript	KNOWN	None	24584	None	None	70432372	70477644	-1	None	None
9	CBWD5	ENSG00000147996	ENST00000429800	protein_coding	NOVEL	None	24584	1128	375	70432372	70490117	-1	None	None
9	CBWD5	ENSG00000147996	ENST00000377389	nonsense_mediated_decay	KNOWN	None	24584	177	58	70432372	70490208	-1	None	None
9	CBWD5	ENSG00000147996	ENST00000463075	retained_intron	KNOWN	None	24584	None	None	70432373	70434709	-1	None	None
9	CBWD5	ENSG00000147996	ENST00000486221	nonsense_mediated_decay	KNOWN	None	24584	549	182	70432373	70490115	-1	None	None
9	CBWD5	ENSG00000147996	ENST00000480819	retained_intron	KNOWN	None	24584	None	None	70432374	70446090	-1	None	None
9	CBWD5	ENSG00000147996	ENST00000489273	protein_coding	NOVEL	None	24584	532	176	70432374	70465758	-1	None	None
9	CBWD5	ENSG00000147996	ENST00000497250	nonsense_mediated_decay	KNOWN	None	24584	543	180	70432375	70490149	-1	None	None
9	CBWD5	ENSG00000147996	ENST00000486191	processed_transcript	KNOWN	None	24584	None	None	70432398	70442961	-1	None	None
9	CBWD5	ENSG00000147996	ENST00000468066	processed_transcript	KNOWN	None	24584	None	None	70432465	70457139	-1	None	None
9	CBWD5	ENSG00000147996	ENST00000476161	nonsense_mediated_decay	KNOWN	None	24584	543	180	70433652	70490151	-1	None	None
9	CBWD5	ENSG00000147996	ENST00000465474	nonsense_mediated_decay	KNOWN	None	24584	177	58	70433804	70490115	-1	None	None
9	CBWD5	ENSG00000147996	ENST00000496364	processed_transcript	KNOWN	None	24584	None	None	70457087	70475078	-1	None	None
9	CBWD5	ENSG00000147996	ENST00000468198	retained_intron	KNOWN	None	24584	None	None	70461122	70475078	-1	None	None
9	CBWD5	ENSG00000147996	ENST00000469921	nonsense_mediated_decay	KNOWN	None	24584	177	58	70462574	70490187	-1	None	None
9	CBWD5	ENSG00000147996	ENST00000471620	retained_intron	KNOWN	None	24584	None	None	70462742	70472652	-1	None	None
9	CBWD5	ENSG00000147996	ENST00000472916	processed_transcript	KNOWN	None	24584	None	None	70463031	70484430	-1	None	None
9	CBWD5	ENSG00000147996	ENST00000382404	retained_intron	KNOWN	None	24584	None	None	70464630	70490058	-1	None	None
9	CBWD5	ENSG00000147996	ENST00000495615	retained_intron	KNOWN	None	24584	None	None	70464937	70472659	-1	None	None
9	CBWD5	ENSG00000147996	ENST00000478650	retained_intron	KNOWN	None	24584	None	None	70482703	70484471	-1	None	None
9	CBWD5	ENSG00000147996	ENST00000377384	protein_coding	PUTATIVE	None	24584	342	113	70483468	70490170	-1	None	None
9	CBWD5	ENSG00000147996	ENST00000377380	retained_intron	KNOWN	None	24584	None	None	70484019	70490170	-1	None	None
9	CBWD5	ENSG00000147996	ENST00000441808	processed_transcript	KNOWN	None	24584	None	None	70484383	70497240	-1	None	None
9	CBWD5	ENSG00000147996	ENST00000486466	retained_intron	KNOWN	None	24584	None	None	70486501	70490120	-1	None	None
9	CBWD5	ENSG00000147996	ENST00000464913	processed_transcript	KNOWN	None	24584	None	None	70486833	70490104	-1	None	None
9	CBWD5	ENSG00000147996	ENST00000377392	protein_coding	KNOWN	None	24584	1080	359	70432373	70488865	-1	None	None
15	SLC24A1	ENSG00000074621	ENST00000434116	retained_intron	KNOWN	None	10975	None	None	65903704	65945267	1	None	NCKX1, NCKX, RODX, KIAA0702, HsT17412
15	SLC24A1	ENSG00000074621	ENST00000425561	processed_transcript	PUTATIVE	None	10975	None	None	65903716	65918195	1	None	NCKX1, NCKX, RODX, KIAA0702, HsT17412
15	SLC24A1	ENSG00000074621	ENST00000537259	protein_coding	PUTATIVE	None	10975	3039	1012	65903743	65953333	1	None	NCKX1, NCKX, RODX, KIAA0702, HsT17412
15	SLC24A1	ENSG00000074621	ENST00000535950	processed_transcript	KNOWN	None	10975	None	None	65904150	65916356	1	None	NCKX1, NCKX, RODX, KIAA0702, HsT17412
15	SLC24A1	ENSG00000074621	ENST00000261892	protein_coding	KNOWN	CCDS45284	10975	3300	1099	65914270	65948598	1	None	NCKX1, NCKX, RODX, KIAA0702, HsT17412
15	SLC24A1	ENSG00000074621	ENST00000544319	protein_coding	NOVEL	None	10975	2958	985	65914347	65946418	1	None	NCKX1, NCKX, RODX, KIAA0702, HsT17412
15	SLC24A1	ENSG00000074621	ENST00000399033	protein_coding	NOVEL	None	10975	3210	1069	65916337	65946448	1	None	NCKX1, NCKX, RODX, KIAA0702, HsT17412
15	SLC24A1	ENSG00000074621	ENST00000546330	protein_coding	KNOWN	None	10975	3246	1081	65916419	65946417	1	None	NCKX1, NCKX, RODX, KIAA0702, HsT17412
15	SLC24A1	ENSG00000074621	ENST00000449142	processed_transcript	KNOWN	None	10975	None	None	65935243	65946529	1	None	NCKX1, NCKX, RODX, KIAA0702, HsT17412
15	SLC24A1	ENSG00000074621	ENST00000539516	retained_intron	KNOWN	None	10975	None	None	65936266	65942946	1	None	NCKX1, NCKX, RODX, KIAA0702, HsT17412
15	SLC24A1	ENSG00000074621	ENST00000505666	protein_coding	PUTATIVE	None	10975	170	55	65945077	65947851	1	None	NCKX1, NCKX, RODX, KIAA0702, HsT17412
15	SLC24A1	ENSG00000074621	ENST00000339868	protein_coding	KNOWN	None	10975	3246	1081	65914270	65948598	1	None	NCKX1, NCKX, RODX, KIAA0702, HsT17412
10	MSRB2	ENSG00000148450	ENST00000376510	protein_coding	KNOWN	CCDS41495	17061	549	182	23384435	23410942	1	MSRB	PILB, CGI-131, CBS1, CBS-1
10	MSRB2	ENSG00000148450	ENST00000472663	nonsense_mediated_decay	KNOWN	None	17061	362	119	23393073	23409883	1	MSRB	PILB, CGI-131, CBS1, CBS-1
10	MSRB2	ENSG00000148450	ENST00000468633	processed_transcript	KNOWN	None	17061	None	None	23408073	23409822	1	MSRB	PILB, CGI-131, CBS1, CBS-1
10	PTF1A	ENSG00000168267	ENST00000376504	protein_coding	KNOWN	CCDS7143	23734	987	328	23481256	23483181	1	None	PTF1-p48, bHLHa29
10	C10orf115	ENSG00000204566	ENST00000376501	protein_coding	KNOWN	None	31449	285	94	23492745	23528745	-1	None	bA215C7.4
10	C10orf67	ENSG00000179133	ENST00000376500	protein_coding	KNOWN	None	28716	888	295	23556124	23632893	-1	None	MGC46732
10	C10orf67	ENSG00000179133	ENST00000323327	protein_coding	KNOWN	CCDS44365	28716	558	185	23605666	23633774	-1	None	MGC46732
4	TLR10	ENSG00000174123	ENST00000308973	protein_coding	KNOWN	CCDS3445	15634	2436	811	38773860	38784579	-1	None	CD290
4	TLR10	ENSG00000174123	ENST00000506111	protein_coding	KNOWN	CCDS3445	15634	2436	811	38774234	38777817	-1	None	CD290
4	TLR10	ENSG00000174123	ENST00000508334	protein_coding	KNOWN	CCDS3445	15634	2436	811	38774746	38777818	-1	None	CD290
4	TLR10	ENSG00000174123	ENST00000502321	protein_coding	PUTATIVE	None	15634	283	93	38776887	38784610	-1	None	CD290
4	TLR10	ENSG00000174123	ENST00000507953	processed_transcript	KNOWN	None	15634	None	None	38777457	38784611	-1	None	CD290
4	TLR10	ENSG00000174123	ENST00000361424	protein_coding	KNOWN	CCDS3445	15634	2436	811	38774263	38784589	-1	None	CD290
10	OTUD1	ENSG00000165312	ENST00000376495	protein_coding	KNOWN	CCDS44366	27346	1446	481	23728198	23731308	1	OTDC1	DUBA7
X	ATP2B3	ENSG00000067842	ENST00000349466	protein_coding	KNOWN	CCDS35440	816	3663	1220	152783134	152846047	1	None	PMCA3
X	ATP2B3	ENSG00000067842	ENST00000370186	protein_coding	KNOWN	None	816	3480	1159	152783134	152848397	1	None	PMCA3
X	ATP2B3	ENSG00000067842	ENST00000393842	protein_coding	KNOWN	None	816	3465	1154	152798392	152835420	1	None	PMCA3
X	ATP2B3	ENSG00000067842	ENST00000359149	protein_coding	KNOWN	CCDS14722	816	3522	1173	152801580	152846047	1	None	PMCA3
X	ATP2B3	ENSG00000067842	ENST00000460549	processed_transcript	KNOWN	None	816	None	None	152822404	152826282	1	None	PMCA3
X	ATP2B3	ENSG00000067842	ENST00000496610	processed_transcript	KNOWN	None	816	None	None	152835106	152846027	1	None	PMCA3
X	ATP2B3	ENSG00000067842	ENST00000263519	protein_coding	KNOWN	CCDS35440	816	3663	1220	152801580	152848387	1	None	PMCA3
X	ATP2B3	ENSG00000067842	ENST00000370181	protein_coding	KNOWN	None	816	3480	1159	152801580	152848387	1	None	PMCA3
14	PLEKHG3	ENSG00000126822	ENST00000555982	protein_coding	KNOWN	None	20364	566	187	65170820	65197406	1	KIAA0599	ARHGEF43
14	PLEKHG3	ENSG00000126822	ENST00000247226	protein_coding	KNOWN	CCDS32098	20364	3492	1163	65171154	65213610	1	KIAA0599	ARHGEF43
14	PLEKHG3	ENSG00000126822	ENST00000394691	protein_coding	KNOWN	None	20364	3660	1219	65171315	65211010	1	KIAA0599	ARHGEF43
14	PLEKHG3	ENSG00000126822	ENST00000554088	protein_coding	PUTATIVE	None	20364	188	61	65182421	65194474	1	KIAA0599	ARHGEF43
14	PLEKHG3	ENSG00000126822	ENST00000554499	protein_coding	KNOWN	None	20364	485	160	65190499	65196996	1	KIAA0599	ARHGEF43
14	PLEKHG3	ENSG00000126822	ENST00000556801	processed_transcript	PUTATIVE	None	20364	None	None	65194602	65197406	1	KIAA0599	ARHGEF43
14	PLEKHG3	ENSG00000126822	ENST00000490180	retained_intron	KNOWN	None	20364	None	None	65197368	65211057	1	KIAA0599	ARHGEF43
14	PLEKHG3	ENSG00000126822	ENST00000471182	protein_coding	PUTATIVE	None	20364	2259	752	65204733	65211061	1	KIAA0599	ARHGEF43
14	PLEKHG3	ENSG00000126822	ENST00000484731	protein_coding	PUTATIVE	None	20364	2175	724	65204753	65211063	1	KIAA0599	ARHGEF43
14	PLEKHG3	ENSG00000126822	ENST00000492928	processed_transcript	KNOWN	None	20364	None	None	65208314	65211060	1	KIAA0599	ARHGEF43
10	KIAA1217	ENSG00000120549	ENST00000376462	protein_coding	PUTATIVE	CCDS41496	25428	3795	1264	23983675	24836772	1	None	DKFZP761L0424, SKT
10	KIAA1217	ENSG00000120549	ENST00000481700	processed_transcript	KNOWN	None	25428	None	None	23983711	24166424	1	None	DKFZP761L0424, SKT
10	KIAA1217	ENSG00000120549	ENST00000376456	protein_coding	NOVEL	None	25428	2800	932	24497720	24816871	1	None	DKFZP761L0424, SKT
10	KIAA1217	ENSG00000120549	ENST00000376454	protein_coding	KNOWN	CCDS31165	25428	5832	1943	24498093	24836772	1	None	DKFZP761L0424, SKT
10	KIAA1217	ENSG00000120549	ENST00000438429	protein_coding	PUTATIVE	None	25428	2350	782	24528124	24816871	1	None	DKFZP761L0424, SKT
10	KIAA1217	ENSG00000120549	ENST00000307544	protein_coding	PUTATIVE	None	25428	2799	932	24738362	24834197	1	None	DKFZP761L0424, SKT
10	KIAA1217	ENSG00000120549	ENST00000396446	protein_coding	PUTATIVE	None	25428	2601	866	24755460	24834245	1	None	DKFZP761L0424, SKT
10	KIAA1217	ENSG00000120549	ENST00000396445	protein_coding	PUTATIVE	None	25428	2721	906	24755460	24836772	1	None	DKFZP761L0424, SKT
10	KIAA1217	ENSG00000120549	ENST00000376451	protein_coding	PUTATIVE	None	25428	4398	1465	24755460	24836772	1	None	DKFZP761L0424, SKT
10	KIAA1217	ENSG00000120549	ENST00000460373	processed_transcript	PUTATIVE	None	25428	None	None	24783903	24802276	1	None	DKFZP761L0424, SKT
10	KIAA1217	ENSG00000120549	ENST00000492009	retained_intron	KNOWN	None	25428	None	None	24831349	24832637	1	None	DKFZP761L0424, SKT
10	KIAA1217	ENSG00000120549	ENST00000458595	protein_coding	KNOWN	None	25428	4050	1349	24497720	24836771	1	None	DKFZP761L0424, SKT
10	KIAA1217	ENSG00000120549	ENST00000376452	protein_coding	KNOWN	None	25428	4125	1374	24498102	24836627	1	None	DKFZP761L0424, SKT
10	KIAA1217	ENSG00000120549	ENST00000430453	protein_coding	KNOWN	None	25428	1836	611	24544257	24820821	1	None	DKFZP761L0424, SKT
6	SLC17A1	ENSG00000124568	ENST00000244527	protein_coding	KNOWN	CCDS4565	10929	1404	467	25783125	25832287	-1	NPT1	NAPI-1
6	SLC17A1	ENSG00000124568	ENST00000377886	nonsense_mediated_decay	KNOWN	None	10929	630	209	25783354	25832224	-1	NPT1	NAPI-1
6	SLC17A1	ENSG00000124568	ENST00000476801	protein_coding	KNOWN	CCDS4565	10929	1404	467	25798811	25832269	-1	NPT1	NAPI-1
6	SLC17A1	ENSG00000124568	ENST00000468082	protein_coding	KNOWN	None	10929	1242	413	25799013	25830785	-1	NPT1	NAPI-1
6	SLC17A1	ENSG00000124568	ENST00000427328	protein_coding	KNOWN	None	10929	1242	413	25783128	25832287	-1	NPT1	NAPI-1
8	FAM83A	ENSG00000147689	ENST00000523819	processed_transcript	KNOWN	None	28210	None	None	124191200	124192855	1	None	MGC14128, BJ-TSA-9
8	FAM83A	ENSG00000147689	ENST00000518448	protein_coding	KNOWN	CCDS6340	28210	1305	434	124191287	124222002	1	None	MGC14128, BJ-TSA-9
8	FAM83A	ENSG00000147689	ENST00000520541	retained_intron	KNOWN	None	28210	None	None	124191338	124194823	1	None	MGC14128, BJ-TSA-9
8	FAM83A	ENSG00000147689	ENST00000523412	processed_transcript	KNOWN	None	28210	None	None	124191354	124192959	1	None	MGC14128, BJ-TSA-9
8	FAM83A	ENSG00000147689	ENST00000522648	protein_coding	KNOWN	None	28210	885	294	124194921	124222314	1	None	MGC14128, BJ-TSA-9
8	FAM83A	ENSG00000147689	ENST00000276699	protein_coding	KNOWN	CCDS6339	28210	1104	367	124194921	124222314	1	None	MGC14128, BJ-TSA-9
8	FAM83A	ENSG00000147689	ENST00000521468	processed_transcript	KNOWN	None	28210	None	None	124195398	124212234	1	None	MGC14128, BJ-TSA-9
8	FAM83A	ENSG00000147689	ENST00000546351	protein_coding	KNOWN	None	28210	885	294	124192399	124221775	1	None	MGC14128, BJ-TSA-9
8	FAM83A	ENSG00000147689	ENST00000536633	protein_coding	KNOWN	CCDS6339	28210	1104	367	124192399	124221736	1	None	MGC14128, BJ-TSA-9
8	FAM83A	ENSG00000147689	ENST00000318462	protein_coding	KNOWN	CCDS6340	28210	1305	434	124194752	124221203	1	None	MGC14128, BJ-TSA-9
15	None	ENSG00000259649	ENST00000560560	protein_coding	PUTATIVE	None	None	309	102	81188532	81202118	-1	None	None
15	None	ENSG00000259649	ENST00000561295	protein_coding	PUTATIVE	None	None	105	34	81188539	81195510	-1	None	None
15	None	ENSG00000259649	ENST00000558261	nonsense_mediated_decay	KNOWN	None	None	165	54	81188548	81202101	-1	None	None
4	CXCL10	ENSG00000169245	ENST00000306602	protein_coding	KNOWN	CCDS43240	10637	297	98	76942273	76944650	-1	INP10, SCYB10	IFI10, IP-10, crg-2, mob-1, C7, gIP-10
15	MESDC2	ENSG00000117899	ENST00000561312	nonsense_mediated_decay	KNOWN	CCDS32308	13520	705	234	81239667	81282169	-1	None	KIAA0081, BOCA, MESD
15	MESDC2	ENSG00000117899	ENST00000422879	nonsense_mediated_decay	KNOWN	None	13520	417	138	81240427	81282160	-1	None	KIAA0081, BOCA, MESD
15	MESDC2	ENSG00000117899	ENST00000560244	processed_transcript	KNOWN	None	13520	None	None	81240843	81271154	-1	None	KIAA0081, BOCA, MESD
15	MESDC2	ENSG00000117899	ENST00000560189	processed_transcript	PUTATIVE	None	13520	None	None	81241017	81271481	-1	None	KIAA0081, BOCA, MESD
15	MESDC2	ENSG00000117899	ENST00000559537	nonsense_mediated_decay	KNOWN	None	13520	243	80	81244416	81282136	-1	None	KIAA0081, BOCA, MESD
15	MESDC2	ENSG00000117899	ENST00000261758	protein_coding	KNOWN	CCDS32308	13520	705	234	81268095	81282219	-1	None	KIAA0081, BOCA, MESD
8	C8orf76	ENSG00000189376	ENST00000276704	protein_coding	KNOWN	CCDS6341	25924	1143	380	124232196	124253638	-1	None	FLJ14825
8	C8orf76	ENSG00000189376	ENST00000519791	processed_transcript	KNOWN	None	25924	None	None	124232435	124253526	-1	None	FLJ14825
8	C8orf76	ENSG00000189376	ENST00000517760	processed_transcript	KNOWN	None	25924	None	None	124238600	124243832	-1	None	FLJ14825
8	C8orf76	ENSG00000189376	ENST00000521310	processed_transcript	KNOWN	None	25924	None	None	124238738	124253584	-1	None	FLJ14825
8	C8orf76	ENSG00000189376	ENST00000518996	retained_intron	KNOWN	None	25924	None	None	124243644	124251626	-1	None	FLJ14825
8	C8orf76	ENSG00000189376	ENST00000523726	retained_intron	KNOWN	None	25924	None	None	124250809	124253595	-1	None	FLJ14825
8	C8orf76	ENSG00000189376	ENST00000522477	processed_transcript	PUTATIVE	None	25924	None	None	124251880	124253617	-1	None	FLJ14825
4	CXCL11	ENSG00000169248	ENST00000306621	protein_coding	KNOWN	CCDS3574	10638	285	94	76954835	76957350	-1	SCYB9B, SCYB11	H174, b-R1, I-TAC, IP-9
4	CXCL11	ENSG00000169248	ENST00000503860	protein_coding	PUTATIVE	CCDS3574	10638	285	94	76955843	76962568	-1	SCYB9B, SCYB11	H174, b-R1, I-TAC, IP-9
15	MESDC1	ENSG00000140406	ENST00000267984	protein_coding	KNOWN	CCDS10316	13519	1089	362	81293295	81296342	1	None	MGC99595
15	C15orf26	ENSG00000156206	ENST00000560091	protein_coding	PUTATIVE	None	26782	334	110	81299374	81430408	1	None	FLJ38615
15	C15orf26	ENSG00000156206	ENST00000561216	protein_coding	PUTATIVE	None	26782	317	104	81391749	81429089	1	None	FLJ38615
15	C15orf26	ENSG00000156206	ENST00000286732	protein_coding	KNOWN	CCDS42068	26782	906	301	81426588	81441516	1	None	FLJ38615
X	COL4A6	ENSG00000197565	ENST00000334504	protein_coding	KNOWN	CCDS14542	2208	5073	1690	107398837	107681660	-1	None	None
X	COL4A6	ENSG00000197565	ENST00000372216	protein_coding	KNOWN	CCDS14541	2208	5076	1691	107398837	107682702	-1	None	None
X	COL4A6	ENSG00000197565	ENST00000487645	processed_transcript	PUTATIVE	None	2208	None	None	107404861	107406828	-1	None	None
X	COL4A6	ENSG00000197565	ENST00000468338	retained_intron	KNOWN	None	2208	None	None	107457022	107682702	-1	None	None
X	COL4A6	ENSG00000197565	ENST00000461897	processed_transcript	KNOWN	None	2208	None	None	107510872	107681660	-1	None	None
X	COL4A6	ENSG00000197565	ENST00000477085	processed_transcript	KNOWN	None	2208	None	None	107510872	107682727	-1	None	None
X	COL4A6	ENSG00000197565	ENST00000418180	protein_coding	KNOWN	None	2208	783	260	107386780	107403199	-1	None	None
X	COL4A6	ENSG00000197565	ENST00000394872	protein_coding	KNOWN	None	2208	5076	1691	107398838	107681658	-1	None	None
X	COL4A6	ENSG00000197565	ENST00000545689	protein_coding	KNOWN	None	2208	5001	1666	107399275	107681556	-1	None	None
X	COL4A6	ENSG00000197565	ENST00000538570	protein_coding	KNOWN	None	2208	4902	1633	107399275	107681556	-1	None	None
4	NUP54	ENSG00000138750	ENST00000508604	retained_intron	KNOWN	None	17359	None	None	77035812	77052004	-1	None	None
4	NUP54	ENSG00000138750	ENST00000507257	nonsense_mediated_decay	KNOWN	None	17359	309	102	77035812	77069569	-1	None	None
4	NUP54	ENSG00000138750	ENST00000264883	protein_coding	KNOWN	CCDS3576	17359	1524	507	77035817	77069668	-1	None	None
4	NUP54	ENSG00000138750	ENST00000502850	nonsense_mediated_decay	KNOWN	None	17359	417	138	77036240	77069558	-1	None	None
4	NUP54	ENSG00000138750	ENST00000508465	processed_transcript	KNOWN	None	17359	None	None	77036257	77051854	-1	None	None
4	NUP54	ENSG00000138750	ENST00000514987	protein_coding	NOVEL	None	17359	1380	459	77036359	77069550	-1	None	None
4	NUP54	ENSG00000138750	ENST00000512151	nonsense_mediated_decay	KNOWN	None	17359	309	102	77036454	77069550	-1	None	None
4	NUP54	ENSG00000138750	ENST00000513248	retained_intron	KNOWN	None	17359	None	None	77036591	77039590	-1	None	None
4	NUP54	ENSG00000138750	ENST00000504173	retained_intron	KNOWN	None	17359	None	None	77045733	77069597	-1	None	None
4	NUP54	ENSG00000138750	ENST00000514313	retained_intron	KNOWN	None	17359	None	None	77053473	77055464	-1	None	None
4	NUP54	ENSG00000138750	ENST00000515460	processed_transcript	KNOWN	None	17359	None	None	77055329	77069530	-1	None	None
4	NUP54	ENSG00000138750	ENST00000514307	processed_transcript	KNOWN	None	17359	None	None	77057341	77069355	-1	None	None
4	NUP54	ENSG00000138750	ENST00000506098	processed_transcript	KNOWN	None	17359	None	None	77057474	77068974	-1	None	None
4	NUP54	ENSG00000138750	ENST00000514901	protein_coding	PUTATIVE	None	17359	476	157	77065283	77069551	-1	None	None
4	NUP54	ENSG00000138750	ENST00000508583	processed_transcript	KNOWN	None	17359	None	None	77065283	77069587	-1	None	None
4	NUP54	ENSG00000138750	ENST00000510569	processed_transcript	PUTATIVE	None	17359	None	None	77065302	77066973	-1	None	None
4	NUP54	ENSG00000138750	ENST00000510884	processed_transcript	KNOWN	None	17359	None	None	77065337	77069353	-1	None	None
4	NUP54	ENSG00000138750	ENST00000513352	nonsense_mediated_decay	KNOWN	None	17359	255	84	77065350	77069550	-1	None	None
4	NUP54	ENSG00000138750	ENST00000342467	protein_coding	KNOWN	None	17359	876	291	77035818	77069552	-1	None	None
4	NUP54	ENSG00000138750	ENST00000458189	protein_coding	KNOWN	None	17359	984	327	77036454	77069550	-1	None	None
8	ZHX1-C8ORF76	ENSG00000259305	ENST00000357082	protein_coding	KNOWN	CCDS56552	42975	879	292	124238431	124279627	-1	None	None
15	IL16	ENSG00000172349	ENST00000560989	processed_transcript	KNOWN	None	5980	None	None	81451916	81475224	1	None	LCF, IL-16, prIL-16, HsT19289, FLJ42735, FLJ16806
15	IL16	ENSG00000172349	ENST00000560241	nonsense_mediated_decay	KNOWN	None	5980	1365	454	81474941	81585281	1	None	LCF, IL-16, prIL-16, HsT19289, FLJ42735, FLJ16806
15	IL16	ENSG00000172349	ENST00000559388	protein_coding	KNOWN	None	5980	3664	1220	81475200	81598886	1	None	LCF, IL-16, prIL-16, HsT19289, FLJ42735, FLJ16806
15	IL16	ENSG00000172349	ENST00000360547	nonsense_mediated_decay	KNOWN	None	5980	1455	484	81475201	81601439	1	None	LCF, IL-16, prIL-16, HsT19289, FLJ42735, FLJ16806
15	IL16	ENSG00000172349	ENST00000559383	protein_coding	KNOWN	None	5980	1782	593	81489219	81585258	1	None	LCF, IL-16, prIL-16, HsT19289, FLJ42735, FLJ16806
15	IL16	ENSG00000172349	ENST00000394660	protein_coding	KNOWN	CCDS53966	5980	3996	1331	81489220	81605104	1	None	LCF, IL-16, prIL-16, HsT19289, FLJ42735, FLJ16806
15	IL16	ENSG00000172349	ENST00000302987	protein_coding	KNOWN	CCDS42069	5980	3999	1332	81517741	81601139	1	None	LCF, IL-16, prIL-16, HsT19289, FLJ42735, FLJ16806
15	IL16	ENSG00000172349	ENST00000560115	nonsense_mediated_decay	KNOWN	None	5980	604	200	81571219	81598889	1	None	LCF, IL-16, prIL-16, HsT19289, FLJ42735, FLJ16806
15	IL16	ENSG00000172349	ENST00000394652	protein_coding	KNOWN	CCDS10317	5980	1896	631	81589254	81601424	1	None	LCF, IL-16, prIL-16, HsT19289, FLJ42735, FLJ16806
15	IL16	ENSG00000172349	ENST00000560230	processed_transcript	PUTATIVE	None	5980	None	None	81589311	81592401	1	None	LCF, IL-16, prIL-16, HsT19289, FLJ42735, FLJ16806
15	IL16	ENSG00000172349	ENST00000558857	nonsense_mediated_decay	KNOWN	None	5980	135	44	81589329	81598889	1	None	LCF, IL-16, prIL-16, HsT19289, FLJ42735, FLJ16806
15	IL16	ENSG00000172349	ENST00000558332	protein_coding	PUTATIVE	None	5980	1835	610	81591757	81599193	1	None	LCF, IL-16, prIL-16, HsT19289, FLJ42735, FLJ16806
15	IL16	ENSG00000172349	ENST00000559342	processed_transcript	KNOWN	None	5980	None	None	81594428	81598798	1	None	LCF, IL-16, prIL-16, HsT19289, FLJ42735, FLJ16806
15	IL16	ENSG00000172349	ENST00000559953	retained_intron	KNOWN	None	5980	None	None	81598087	81598867	1	None	LCF, IL-16, prIL-16, HsT19289, FLJ42735, FLJ16806
4	TLR1	ENSG00000174125	ENST00000510552	processed_transcript	KNOWN	None	11847	None	None	38792298	38796254	-1	None	rsc786, KIAA0012, CD281
4	TLR1	ENSG00000174125	ENST00000505744	processed_transcript	KNOWN	None	11847	None	None	38792469	38806440	-1	None	rsc786, KIAA0012, CD281
4	TLR1	ENSG00000174125	ENST00000502213	protein_coding	KNOWN	CCDS33973	11847	2361	786	38797904	38805997	-1	None	rsc786, KIAA0012, CD281
4	TLR1	ENSG00000174125	ENST00000505940	protein_coding	KNOWN	None	11847	483	160	38799970	38806472	-1	None	rsc786, KIAA0012, CD281
4	TLR1	ENSG00000174125	ENST00000515861	protein_coding	KNOWN	None	11847	271	89	38800182	38806537	-1	None	rsc786, KIAA0012, CD281
4	TLR1	ENSG00000174125	ENST00000506146	protein_coding	KNOWN	None	11847	146	47	38800307	38858438	-1	None	rsc786, KIAA0012, CD281
4	TLR1	ENSG00000174125	ENST00000508364	protein_coding	KNOWN	None	11847	71	22	38800382	38807199	-1	None	rsc786, KIAA0012, CD281
4	TLR1	ENSG00000174125	ENST00000509754	processed_transcript	KNOWN	None	11847	None	None	38802093	38806410	-1	None	rsc786, KIAA0012, CD281
4	TLR1	ENSG00000174125	ENST00000508535	processed_transcript	KNOWN	None	11847	None	None	38802491	38807154	-1	None	rsc786, KIAA0012, CD281
4	TLR1	ENSG00000174125	ENST00000308979	protein_coding	KNOWN	CCDS33973	11847	2361	786	38797880	38806412	-1	None	rsc786, KIAA0012, CD281
20	RPL35AP	ENSG00000234075	ENST00000425552	processed_pseudogene	KNOWN	None	16546	None	None	46106958	46107754	-1	None	bA456N23.1
8	ZHX1	ENSG00000165156	ENST00000395571	protein_coding	KNOWN	CCDS6342	12871	2622	873	124260696	124286735	-1	None	None
8	ZHX1	ENSG00000165156	ENST00000517516	processed_transcript	KNOWN	None	12871	None	None	124261900	124279631	-1	None	None
8	ZHX1	ENSG00000165156	ENST00000522655	protein_coding	KNOWN	CCDS6342	12871	2622	873	124262370	124287781	-1	None	None
8	ZHX1	ENSG00000165156	ENST00000602651	protein_coding	KNOWN	None	12871	118	38	124264669	124265682	-1	None	None
8	ZHX1	ENSG00000165156	ENST00000522595	processed_transcript	KNOWN	None	12871	None	None	124267775	124286724	-1	None	None
8	ZHX1	ENSG00000165156	ENST00000524267	processed_transcript	KNOWN	None	12871	None	None	124268160	124286237	-1	None	None
8	ZHX1	ENSG00000165156	ENST00000480132	processed_transcript	KNOWN	None	12871	None	None	124268360	124286506	-1	None	None
8	ZHX1	ENSG00000165156	ENST00000297857	protein_coding	KNOWN	CCDS6342	12871	2622	873	124260697	124286547	-1	None	None
20	RNU6-497P	ENSG00000202186	ENST00000365316	snRNA	KNOWN	None	47460	None	None	46113022	46113125	-1	None	None
20	RNU6-563P	ENSG00000201742	ENST00000364872	snRNA	KNOWN	None	47526	None	None	46121722	46121829	-1	None	None
20	None	ENSG00000221294	ENST00000408367	miRNA	NOVEL	None	None	None	None	46199679	46199759	1	None	None
8	SLCO5A1	ENSG00000137571	ENST00000260126	protein_coding	KNOWN	CCDS6205	19046	2547	848	70584568	70747299	-1	SLC21A15	OATPRP4, OATP-J, OATP5A1
8	SLCO5A1	ENSG00000137571	ENST00000524945	protein_coding	PUTATIVE	CCDS55243	19046	2064	687	70584578	70745625	-1	SLC21A15	OATPRP4, OATP-J, OATP5A1
8	SLCO5A1	ENSG00000137571	ENST00000526750	nonsense_mediated_decay	KNOWN	None	19046	939	312	70584788	70747094	-1	SLC21A15	OATPRP4, OATP-J, OATP5A1
8	SLCO5A1	ENSG00000137571	ENST00000530307	protein_coding	NOVEL	CCDS55242	19046	2382	793	70584898	70744950	-1	SLC21A15	OATPRP4, OATP-J, OATP5A1
8	SLCO5A1	ENSG00000137571	ENST00000532388	retained_intron	KNOWN	None	19046	None	None	70617127	70746244	-1	SLC21A15	OATPRP4, OATP-J, OATP5A1
8	SLCO5A1	ENSG00000137571	ENST00000528658	processed_transcript	KNOWN	None	19046	None	None	70673600	70747201	-1	SLC21A15	OATPRP4, OATP-J, OATP5A1
8	SLCO5A1	ENSG00000137571	ENST00000524703	processed_transcript	PUTATIVE	None	19046	None	None	70744919	70746460	-1	SLC21A15	OATPRP4, OATP-J, OATP5A1
8	SLCO5A1	ENSG00000137571	ENST00000531422	processed_transcript	PUTATIVE	None	19046	None	None	70744958	70745863	-1	SLC21A15	OATPRP4, OATP-J, OATP5A1
8	ATAD2	ENSG00000156802	ENST00000517666	nonsense_mediated_decay	KNOWN	None	30123	195	64	124332090	124408674	-1	None	PRO2000, DKFZp667N1320, MGC5254, MGC29843
8	ATAD2	ENSG00000156802	ENST00000287394	protein_coding	KNOWN	CCDS6343	30123	4173	1390	124332090	124408705	-1	None	PRO2000, DKFZp667N1320, MGC5254, MGC29843
8	ATAD2	ENSG00000156802	ENST00000521903	protein_coding	PUTATIVE	None	30123	2127	708	124332742	124428590	-1	None	PRO2000, DKFZp667N1320, MGC5254, MGC29843
8	ATAD2	ENSG00000156802	ENST00000519124	nonsense_mediated_decay	KNOWN	None	30123	192	63	124332921	124408619	-1	None	PRO2000, DKFZp667N1320, MGC5254, MGC29843
8	ATAD2	ENSG00000156802	ENST00000521496	retained_intron	KNOWN	None	30123	None	None	124356753	124408641	-1	None	PRO2000, DKFZp667N1320, MGC5254, MGC29843
8	ATAD2	ENSG00000156802	ENST00000550993	retained_intron	KNOWN	None	30123	None	None	124368340	124369861	-1	None	PRO2000, DKFZp667N1320, MGC5254, MGC29843
8	ATAD2	ENSG00000156802	ENST00000534257	processed_transcript	KNOWN	None	30123	None	None	124371484	124381628	-1	None	PRO2000, DKFZp667N1320, MGC5254, MGC29843
8	ATAD2	ENSG00000156802	ENST00000530065	retained_intron	KNOWN	None	30123	None	None	124384902	124393154	-1	None	PRO2000, DKFZp667N1320, MGC5254, MGC29843
20	None	ENSG00000229853	ENST00000448675	processed_pseudogene	KNOWN	None	None	None	None	46259010	46260182	-1	None	None
4	TLR6	ENSG00000174130	ENST00000381950	protein_coding	KNOWN	CCDS3446	16711	2391	796	38828223	38831160	-1	None	CD286
4	TLR6	ENSG00000174130	ENST00000508254	protein_coding	KNOWN	None	16711	451	149	38830644	38858438	-1	None	CD286
4	TLR6	ENSG00000174130	ENST00000514655	protein_coding	KNOWN	None	16711	274	90	38830821	38858438	-1	None	CD286
4	TLR6	ENSG00000174130	ENST00000436693	protein_coding	KNOWN	CCDS3446	16711	2391	796	38825336	38858437	-1	None	CD286
X	FAM58A	ENSG00000147382	ENST00000370175	processed_transcript	KNOWN	None	28434	None	None	152853377	152864641	-1	None	MGC29729, FLJ21610
X	FAM58A	ENSG00000147382	ENST00000470284	processed_transcript	KNOWN	None	28434	None	None	152853385	152864488	-1	None	MGC29729, FLJ21610
X	FAM58A	ENSG00000147382	ENST00000370173	processed_transcript	KNOWN	None	28434	None	None	152853390	152864573	-1	None	MGC29729, FLJ21610
X	FAM58A	ENSG00000147382	ENST00000370171	processed_transcript	KNOWN	None	28434	None	None	152853390	152864573	-1	None	MGC29729, FLJ21610
X	FAM58A	ENSG00000147382	ENST00000276345	processed_transcript	KNOWN	None	28434	None	None	152853390	152864573	-1	None	MGC29729, FLJ21610
X	FAM58A	ENSG00000147382	ENST00000429336	protein_coding	NOVEL	None	28434	283	93	152853513	152861521	-1	None	MGC29729, FLJ21610
X	FAM58A	ENSG00000147382	ENST00000440428	protein_coding	NOVEL	None	28434	364	120	152853614	152861464	-1	None	MGC29729, FLJ21610
X	FAM58A	ENSG00000147382	ENST00000428722	processed_transcript	KNOWN	None	28434	None	None	152853621	152864511	-1	None	MGC29729, FLJ21610
X	FAM58A	ENSG00000147382	ENST00000465867	processed_transcript	KNOWN	None	28434	None	None	152858033	152864572	-1	None	MGC29729, FLJ21610
X	FAM58A	ENSG00000147382	ENST00000482182	protein_coding	PUTATIVE	None	28434	425	140	152858070	152865500	-1	None	MGC29729, FLJ21610
X	FAM58A	ENSG00000147382	ENST00000406277	protein_coding	KNOWN	None	28434	741	246	152853385	152864632	-1	None	MGC29729, FLJ21610
10	None	ENSG00000269879	ENST00000596413	protein_coding	NOVEL	None	None	360	119	24770273	24770632	-1	None	None
10	ARHGAP21	ENSG00000107863	ENST00000396432	protein_coding	KNOWN	CCDS7144	23725	5877	1958	24872538	25012597	-1	None	KIAA1424, ARHGAP10
10	ARHGAP21	ENSG00000107863	ENST00000486374	retained_intron	KNOWN	None	23725	None	None	24872543	24910298	-1	None	KIAA1424, ARHGAP10
10	ARHGAP21	ENSG00000107863	ENST00000477190	retained_intron	KNOWN	None	23725	None	None	24874849	24878971	-1	None	KIAA1424, ARHGAP10
10	ARHGAP21	ENSG00000107863	ENST00000418033	protein_coding	NOVEL	None	23725	590	195	24874962	24884889	-1	None	KIAA1424, ARHGAP10
10	ARHGAP21	ENSG00000107863	ENST00000482792	retained_intron	KNOWN	None	23725	None	None	24880274	24883965	-1	None	KIAA1424, ARHGAP10
10	ARHGAP21	ENSG00000107863	ENST00000418325	protein_coding	NOVEL	None	23725	340	112	24883899	24884972	-1	None	KIAA1424, ARHGAP10
10	ARHGAP21	ENSG00000107863	ENST00000376410	protein_coding	KNOWN	None	23725	3498	1165	24885618	25010856	-1	None	KIAA1424, ARHGAP10
10	ARHGAP21	ENSG00000107863	ENST00000446003	protein_coding	KNOWN	None	23725	3395	1130	24885751	25012169	-1	None	KIAA1424, ARHGAP10
10	ARHGAP21	ENSG00000107863	ENST00000493154	processed_transcript	KNOWN	None	23725	None	None	24886398	24896800	-1	None	KIAA1424, ARHGAP10
10	ARHGAP21	ENSG00000107863	ENST00000476067	retained_intron	KNOWN	None	23725	None	None	24896373	24896807	-1	None	KIAA1424, ARHGAP10
10	ARHGAP21	ENSG00000107863	ENST00000483114	retained_intron	KNOWN	None	23725	None	None	24909808	24911771	-1	None	KIAA1424, ARHGAP10
10	ARHGAP21	ENSG00000107863	ENST00000476499	retained_intron	KNOWN	None	23725	None	None	24917943	25010963	-1	None	KIAA1424, ARHGAP10
10	ARHGAP21	ENSG00000107863	ENST00000416305	protein_coding	PUTATIVE	None	23725	540	179	24918453	25010795	-1	None	KIAA1424, ARHGAP10
10	ARHGAP21	ENSG00000107863	ENST00000472150	processed_transcript	KNOWN	None	23725	None	None	24959268	25012176	-1	None	KIAA1424, ARHGAP10
10	ARHGAP21	ENSG00000107863	ENST00000463892	processed_transcript	PUTATIVE	None	23725	None	None	25010941	25011689	-1	None	KIAA1424, ARHGAP10
10	ARHGAP21	ENSG00000107863	ENST00000320481	protein_coding	KNOWN	None	23725	3654	1217	24874859	24911763	-1	None	KIAA1424, ARHGAP10
X	DUSP9	ENSG00000130829	ENST00000477033	processed_transcript	KNOWN	None	3076	None	None	152907946	152913467	1	None	MKP-4, MKP4
X	DUSP9	ENSG00000130829	ENST00000370167	protein_coding	KNOWN	CCDS14724	3076	1155	384	152907988	152916781	1	None	MKP-4, MKP4
X	DUSP9	ENSG00000130829	ENST00000433144	protein_coding	KNOWN	None	3076	1067	354	152908932	152916777	1	None	MKP-4, MKP4
X	DUSP9	ENSG00000130829	ENST00000342782	protein_coding	KNOWN	CCDS14724	3076	1155	384	152912650	152916773	1	None	MKP-4, MKP4
4	SCARB2	ENSG00000138760	ENST00000264896	protein_coding	KNOWN	CCDS3577	1665	1437	478	77079890	77135046	-1	CD36L2	HLGP85, LIMPII, SR-BII, LIMP-2
4	SCARB2	ENSG00000138760	ENST00000452464	protein_coding	NOVEL	CCDS56335	1665	1008	335	77082439	77134756	-1	CD36L2	HLGP85, LIMPII, SR-BII, LIMP-2
4	SCARB2	ENSG00000138760	ENST00000511129	retained_intron	KNOWN	None	1665	None	None	77084362	77088017	-1	CD36L2	HLGP85, LIMPII, SR-BII, LIMP-2
4	SCARB2	ENSG00000138760	ENST00000502908	retained_intron	KNOWN	None	1665	None	None	77101888	77116998	-1	CD36L2	HLGP85, LIMPII, SR-BII, LIMP-2
4	SCARB2	ENSG00000138760	ENST00000509994	nonsense_mediated_decay	KNOWN	None	1665	321	106	77102167	77134753	-1	CD36L2	HLGP85, LIMPII, SR-BII, LIMP-2
14	SPTB	ENSG00000070182	ENST00000342835	processed_transcript	KNOWN	None	11274	None	None	65215025	65230558	-1	None	None
14	SPTB	ENSG00000070182	ENST00000553938	protein_coding	NOVEL	None	11274	3087	1028	65215655	65249268	-1	None	None
14	SPTB	ENSG00000070182	ENST00000556227	retained_intron	KNOWN	None	11274	None	None	65215673	65224259	-1	None	None
14	SPTB	ENSG00000070182	ENST00000556626	protein_coding	KNOWN	CCDS32099	11274	6987	2328	65215673	65346601	-1	None	None
14	SPTB	ENSG00000070182	ENST00000389721	protein_coding	KNOWN	CCDS32100	11274	6414	2137	65233117	65289845	-1	None	None
14	SPTB	ENSG00000070182	ENST00000389720	protein_coding	PUTATIVE	None	11274	6321	2106	65233418	65289812	-1	None	None
14	SPTB	ENSG00000070182	ENST00000542694	retained_intron	KNOWN	None	11274	None	None	65234042	65234931	-1	None	None
14	SPTB	ENSG00000070182	ENST00000389722	protein_coding	KNOWN	CCDS32099	11274	6987	2328	65213002	65289866	-1	None	None
14	SPTB	ENSG00000070182	ENST00000542895	protein_coding	KNOWN	CCDS32100	11274	6414	2137	65233118	65346555	-1	None	None
X	PNCK	ENSG00000130822	ENST00000340888	protein_coding	KNOWN	None	13415	1032	343	152935185	152939300	-1	None	MGC45419, CaMK1b
X	PNCK	ENSG00000130822	ENST00000370150	protein_coding	KNOWN	None	13415	1032	343	152935188	152939148	-1	None	MGC45419, CaMK1b
X	PNCK	ENSG00000130822	ENST00000466074	retained_intron	KNOWN	None	13415	None	None	152935188	152939401	-1	None	MGC45419, CaMK1b
X	PNCK	ENSG00000130822	ENST00000438984	protein_coding	KNOWN	None	13415	244	80	152935190	152936286	-1	None	MGC45419, CaMK1b
X	PNCK	ENSG00000130822	ENST00000472324	retained_intron	KNOWN	None	13415	None	None	152935190	152939257	-1	None	MGC45419, CaMK1b
X	PNCK	ENSG00000130822	ENST00000370142	protein_coding	KNOWN	None	13415	1101	366	152935223	152939780	-1	None	MGC45419, CaMK1b
X	PNCK	ENSG00000130822	ENST00000370145	protein_coding	PUTATIVE	CCDS48189	13415	1083	360	152935239	152938743	-1	None	MGC45419, CaMK1b
X	PNCK	ENSG00000130822	ENST00000447676	protein_coding	KNOWN	CCDS35503	13415	1281	426	152935475	152939816	-1	None	MGC45419, CaMK1b
X	PNCK	ENSG00000130822	ENST00000488994	retained_intron	KNOWN	None	13415	None	None	152935985	152952243	-1	None	MGC45419, CaMK1b
X	PNCK	ENSG00000130822	ENST00000473680	retained_intron	KNOWN	None	13415	None	None	152936411	152938531	-1	None	MGC45419, CaMK1b
X	PNCK	ENSG00000130822	ENST00000439087	protein_coding	KNOWN	None	13415	678	225	152936582	152938828	-1	None	MGC45419, CaMK1b
X	PNCK	ENSG00000130822	ENST00000433470	nonsense_mediated_decay	KNOWN	None	13415	300	99	152936585	152939254	-1	None	MGC45419, CaMK1b
X	PNCK	ENSG00000130822	ENST00000422811	protein_coding	KNOWN	None	13415	673	223	152936587	152938629	-1	None	MGC45419, CaMK1b
X	PNCK	ENSG00000130822	ENST00000466638	retained_intron	KNOWN	None	13415	None	None	152936694	152939277	-1	None	MGC45419, CaMK1b
X	PNCK	ENSG00000130822	ENST00000489536	retained_intron	KNOWN	None	13415	None	None	152936763	152939289	-1	None	MGC45419, CaMK1b
X	PNCK	ENSG00000130822	ENST00000411968	nonsense_mediated_decay	KNOWN	None	13415	249	82	152936812	152939278	-1	None	MGC45419, CaMK1b
X	PNCK	ENSG00000130822	ENST00000488168	retained_intron	KNOWN	None	13415	None	None	152936954	152939800	-1	None	MGC45419, CaMK1b
X	PNCK	ENSG00000130822	ENST00000475172	processed_transcript	KNOWN	None	13415	None	None	152937007	152939204	-1	None	MGC45419, CaMK1b
X	PNCK	ENSG00000130822	ENST00000465303	retained_intron	KNOWN	None	13415	None	None	152937015	152939259	-1	None	MGC45419, CaMK1b
X	PNCK	ENSG00000130822	ENST00000463548	retained_intron	KNOWN	None	13415	None	None	152937145	152938836	-1	None	MGC45419, CaMK1b
X	PNCK	ENSG00000130822	ENST00000419804	protein_coding	KNOWN	None	13415	128	41	152937435	152953023	-1	None	MGC45419, CaMK1b
X	PNCK	ENSG00000130822	ENST00000458354	protein_coding	KNOWN	None	13415	128	41	152937556	152954465	-1	None	MGC45419, CaMK1b
X	PNCK	ENSG00000130822	ENST00000466662	retained_intron	KNOWN	None	13415	None	None	152937577	152938405	-1	None	MGC45419, CaMK1b
X	PNCK	ENSG00000130822	ENST00000418241	protein_coding	PUTATIVE	None	13415	284	93	152937592	152940366	-1	None	MGC45419, CaMK1b
X	PNCK	ENSG00000130822	ENST00000434652	protein_coding	KNOWN	None	13415	259	85	152937597	152938816	-1	None	MGC45419, CaMK1b
X	PNCK	ENSG00000130822	ENST00000425526	protein_coding	KNOWN	None	13415	128	41	152937628	152953017	-1	None	MGC45419, CaMK1b
X	PNCK	ENSG00000130822	ENST00000423545	protein_coding	KNOWN	None	13415	128	41	152938093	152953020	-1	None	MGC45419, CaMK1b
X	PNCK	ENSG00000130822	ENST00000462280	processed_transcript	PUTATIVE	None	13415	None	None	152938402	152939955	-1	None	MGC45419, CaMK1b
X	PNCK	ENSG00000130822	ENST00000460106	processed_transcript	KNOWN	None	13415	None	None	152940122	152952247	-1	None	MGC45419, CaMK1b
X	PNCK	ENSG00000130822	ENST00000473831	processed_transcript	PUTATIVE	None	13415	None	None	152951911	152953198	-1	None	MGC45419, CaMK1b
X	PNCK	ENSG00000130822	ENST00000480693	processed_transcript	KNOWN	None	13415	None	None	152951919	152954333	-1	None	MGC45419, CaMK1b
X	PNCK	ENSG00000130822	ENST00000484705	processed_transcript	PUTATIVE	None	13415	None	None	152952080	152953250	-1	None	MGC45419, CaMK1b
X	PNCK	ENSG00000130822	ENST00000393831	protein_coding	KNOWN	None	13415	1101	366	152935190	152939816	-1	None	MGC45419, CaMK1b
15	STARD5	ENSG00000172345	ENST00000302824	protein_coding	KNOWN	CCDS10318	18065	642	213	81601394	81616466	-1	None	MGC10327
15	STARD5	ENSG00000172345	ENST00000560916	processed_transcript	KNOWN	None	18065	None	None	81601697	81602480	-1	None	MGC10327
15	STARD5	ENSG00000172345	ENST00000560723	retained_intron	KNOWN	None	18065	None	None	81605008	81616482	-1	None	MGC10327
15	STARD5	ENSG00000172345	ENST00000325346	nonsense_mediated_decay	KNOWN	None	18065	192	63	81605009	81616524	-1	None	MGC10327
15	STARD5	ENSG00000172345	ENST00000560156	nonsense_mediated_decay	KNOWN	None	18065	333	110	81611692	81616482	-1	None	MGC10327
15	STARD5	ENSG00000172345	ENST00000559913	processed_transcript	KNOWN	None	18065	None	None	81611741	81616482	-1	None	MGC10327
10	PRTFDC1	ENSG00000099256	ENST00000320152	protein_coding	KNOWN	CCDS7145	23333	678	225	25137536	25241533	-1	None	HHGP
10	PRTFDC1	ENSG00000099256	ENST00000376378	protein_coding	KNOWN	None	23333	573	190	25138636	25241513	-1	None	HHGP
10	PRTFDC1	ENSG00000099256	ENST00000376376	protein_coding	KNOWN	None	23333	522	173	25197230	25241521	-1	None	HHGP
19	FZR1	ENSG00000105325	ENST00000441788	protein_coding	KNOWN	CCDS12109	24824	1482	493	3506271	3538328	1	None	HCDH1, CDH1, HCDH, FZR, FZR2, KIAA1242, CDC20C
19	FZR1	ENSG00000105325	ENST00000588327	retained_intron	KNOWN	None	24824	None	None	3506375	3527058	1	None	HCDH1, CDH1, HCDH, FZR, FZR2, KIAA1242, CDC20C
19	FZR1	ENSG00000105325	ENST00000591290	nonsense_mediated_decay	KNOWN	None	24824	1086	361	3522982	3534837	1	None	HCDH1, CDH1, HCDH, FZR, FZR2, KIAA1242, CDC20C
19	FZR1	ENSG00000105325	ENST00000395095	protein_coding	KNOWN	CCDS45916	24824	1491	496	3522988	3534834	1	None	HCDH1, CDH1, HCDH, FZR, FZR2, KIAA1242, CDC20C
19	FZR1	ENSG00000105325	ENST00000313639	protein_coding	KNOWN	CCDS45917	24824	1215	404	3522988	3534834	1	None	HCDH1, CDH1, HCDH, FZR, FZR2, KIAA1242, CDC20C
19	FZR1	ENSG00000105325	ENST00000592214	retained_intron	KNOWN	None	24824	None	None	3526098	3531764	1	None	HCDH1, CDH1, HCDH, FZR, FZR2, KIAA1242, CDC20C
19	FZR1	ENSG00000105325	ENST00000586212	retained_intron	KNOWN	None	24824	None	None	3532481	3533746	1	None	HCDH1, CDH1, HCDH, FZR, FZR2, KIAA1242, CDC20C
19	FZR1	ENSG00000105325	ENST00000588084	retained_intron	KNOWN	None	24824	None	None	3534283	3535234	1	None	HCDH1, CDH1, HCDH, FZR, FZR2, KIAA1242, CDC20C
4	FAM114A1	ENSG00000197712	ENST00000510213	protein_coding	KNOWN	None	25087	401	132	38869298	38893416	1	None	Noxp20
4	FAM114A1	ENSG00000197712	ENST00000515037	protein_coding	NOVEL	None	25087	1071	356	38869372	38945181	1	None	Noxp20
4	FAM114A1	ENSG00000197712	ENST00000358869	protein_coding	KNOWN	CCDS3447	25087	1692	563	38869437	38947360	1	None	Noxp20
4	FAM114A1	ENSG00000197712	ENST00000512889	retained_intron	KNOWN	None	25087	None	None	38916240	38930904	1	None	Noxp20
4	FAM114A1	ENSG00000197712	ENST00000508737	retained_intron	KNOWN	None	25087	None	None	38930720	38945654	1	None	Noxp20
4	FAM114A1	ENSG00000197712	ENST00000513966	processed_transcript	KNOWN	None	25087	None	None	38937353	38940325	1	None	Noxp20
8	WDYHV1	ENSG00000156795	ENST00000287387	protein_coding	KNOWN	CCDS6344	25490	618	205	124428965	124454261	1	C8orf32	FLJ10204
8	WDYHV1	ENSG00000156795	ENST00000523984	protein_coding	PUTATIVE	None	25490	438	145	124428966	124454480	1	C8orf32	FLJ10204
8	WDYHV1	ENSG00000156795	ENST00000524254	processed_transcript	KNOWN	None	25490	None	None	124428995	124460331	1	C8orf32	FLJ10204
8	WDYHV1	ENSG00000156795	ENST00000522194	protein_coding	PUTATIVE	None	25490	262	86	124429011	124442301	1	C8orf32	FLJ10204
8	WDYHV1	ENSG00000156795	ENST00000517609	processed_transcript	KNOWN	None	25490	None	None	124429032	124453863	1	C8orf32	FLJ10204
8	WDYHV1	ENSG00000156795	ENST00000519199	nonsense_mediated_decay	KNOWN	None	25490	191	62	124429041	124453836	1	C8orf32	FLJ10204
8	WDYHV1	ENSG00000156795	ENST00000523551	processed_transcript	KNOWN	None	25490	None	None	124429043	124479470	1	C8orf32	FLJ10204
8	WDYHV1	ENSG00000156795	ENST00000523356	protein_coding	PUTATIVE	None	25490	591	196	124429053	124453764	1	C8orf32	FLJ10204
8	WDYHV1	ENSG00000156795	ENST00000518125	protein_coding	PUTATIVE	None	25490	174	57	124442235	124454261	1	C8orf32	FLJ10204
15	TMC3	ENSG00000188869	ENST00000558726	protein_coding	NOVEL	None	22995	3306	1101	81623558	81666554	-1	None	None
15	TMC3	ENSG00000188869	ENST00000359440	protein_coding	KNOWN	CCDS45324	22995	3303	1100	81623558	81666554	-1	None	None
15	TMC3	ENSG00000188869	ENST00000559982	retained_intron	KNOWN	None	22995	None	None	81629983	81666497	-1	None	None
4	FAM47E	ENSG00000189157	ENST00000510197	protein_coding	NOVEL	CCDS58907	34343	888	295	77135193	77204933	1	None	FLJ42946, LOC100129583
4	FAM47E	ENSG00000189157	ENST00000512895	protein_coding	PUTATIVE	None	34343	400	132	77135257	77189922	1	None	FLJ42946, LOC100129583
4	FAM47E	ENSG00000189157	ENST00000515589	processed_transcript	PUTATIVE	None	34343	None	None	77157422	77177613	1	None	FLJ42946, LOC100129583
4	FAM47E	ENSG00000189157	ENST00000510328	retained_intron	KNOWN	None	34343	None	None	77172853	77199808	1	None	FLJ42946, LOC100129583
4	FAM47E	ENSG00000189157	ENST00000502320	retained_intron	KNOWN	None	34343	None	None	77172886	77204932	1	None	FLJ42946, LOC100129583
4	FAM47E	ENSG00000189157	ENST00000424749	protein_coding	KNOWN	CCDS47081	34343	1182	393	77172894	77204907	1	None	FLJ42946, LOC100129583
4	FAM47E	ENSG00000189157	ENST00000606246	protein_coding	PUTATIVE	None	34343	374	123	77177606	77190064	1	None	FLJ42946, LOC100129583
4	FAM47E	ENSG00000189157	ENST00000606550	retained_intron	KNOWN	None	34343	None	None	77188659	77190767	1	None	FLJ42946, LOC100129583
4	FAM47E	ENSG00000189157	ENST00000511946	processed_transcript	PUTATIVE	None	34343	None	None	77199272	77204927	1	None	FLJ42946, LOC100129583
4	FAM47E	ENSG00000189157	ENST00000339906	protein_coding	KNOWN	CCDS58907	34343	888	295	77138761	77204921	1	None	FLJ42946, LOC100129583
9	None	ENSG00000269337	ENST00000594172	protein_coding	KNOWN	None	None	282	93	70646589	70648956	1	None	None
9	CBWD3	ENSG00000196873	ENST00000360171	protein_coding	KNOWN	CCDS35038	18519	1188	395	70856397	70914929	1	None	bA561O23.1
9	CBWD3	ENSG00000196873	ENST00000377349	nonsense_mediated_decay	KNOWN	None	18519	177	58	70856861	70862843	1	None	bA561O23.1
9	CBWD3	ENSG00000196873	ENST00000377344	nonsense_mediated_decay	KNOWN	None	18519	483	160	70856905	70914885	1	None	bA561O23.1
9	CBWD3	ENSG00000196873	ENST00000478048	protein_coding	PUTATIVE	None	18519	333	110	70856957	70863953	1	None	bA561O23.1
9	CBWD3	ENSG00000196873	ENST00000469687	retained_intron	KNOWN	None	18519	None	None	70871837	70885811	1	None	bA561O23.1
9	CBWD3	ENSG00000196873	ENST00000377342	protein_coding	KNOWN	None	18519	1128	375	70856899	70914560	1	None	bA561O23.1
15	DENND4A	ENSG00000174485	ENST00000561863	protein_coding	KNOWN	None	24321	79	25	65950384	65954267	-1	MYCPBP	IRLB
15	DENND4A	ENSG00000174485	ENST00000443035	protein_coding	KNOWN	CCDS53949	24321	5721	1906	65952954	66084462	-1	MYCPBP	IRLB
15	DENND4A	ENSG00000174485	ENST00000431932	protein_coding	KNOWN	CCDS45285	24321	5592	1863	65954115	66084462	-1	MYCPBP	IRLB
15	DENND4A	ENSG00000174485	ENST00000562540	retained_intron	KNOWN	None	24321	None	None	65954159	65957294	-1	MYCPBP	IRLB
15	DENND4A	ENSG00000174485	ENST00000567323	processed_transcript	PUTATIVE	None	24321	None	None	65973171	65982876	-1	MYCPBP	IRLB
15	DENND4A	ENSG00000174485	ENST00000564674	protein_coding	KNOWN	None	24321	3004	1000	65983796	66084631	-1	MYCPBP	IRLB
15	DENND4A	ENSG00000174485	ENST00000562028	retained_intron	KNOWN	None	24321	None	None	65988654	65994139	-1	MYCPBP	IRLB
15	DENND4A	ENSG00000174485	ENST00000568515	retained_intron	KNOWN	None	24321	None	None	66007413	66084545	-1	MYCPBP	IRLB
HSCHR6_MHC_COX	VWA7	ENSG00000227144	ENST00000452630	protein_coding	KNOWN	None	13939	2676	891	31720750	31732438	-1	C6orf27	G7c, NG37
HSCHR6_MHC_COX	VWA7	ENSG00000227144	ENST00000471284	retained_intron	KNOWN	None	13939	None	None	31721197	31722845	-1	C6orf27	G7c, NG37
HSCHR6_MHC_COX	VWA7	ENSG00000227144	ENST00000466571	processed_transcript	KNOWN	None	13939	None	None	31721447	31732416	-1	C6orf27	G7c, NG37
HSCHR6_MHC_COX	VWA7	ENSG00000227144	ENST00000489929	processed_transcript	KNOWN	None	13939	None	None	31726416	31728152	-1	C6orf27	G7c, NG37
HSCHR6_MHC_COX	VWA7	ENSG00000227144	ENST00000462834	processed_transcript	PUTATIVE	None	13939	None	None	31731203	31732063	-1	C6orf27	G7c, NG37
HSCHR6_MHC_COX	VWA7	ENSG00000227144	ENST00000550450	protein_coding	KNOWN	None	13939	2559	852	31720754	31732475	-1	C6orf27	G7c, NG37
HSCHR6_MHC_COX	VWA7	ENSG00000227144	ENST00000550291	protein_coding	KNOWN	None	13939	2067	688	31721718	31732475	-1	C6orf27	G7c, NG37
10	ENKUR	ENSG00000151023	ENST00000331161	protein_coding	KNOWN	CCDS7146	28388	771	256	25270908	25305085	-1	C10orf63	MGC26778, enkurin
10	ENKUR	ENSG00000151023	ENST00000496261	nonsense_mediated_decay	KNOWN	CCDS7146	28388	771	256	25270908	25305089	-1	C10orf63	MGC26778, enkurin
10	ENKUR	ENSG00000151023	ENST00000376363	protein_coding	KNOWN	None	28388	768	255	25273331	25305085	-1	C10orf63	MGC26778, enkurin
10	ENKUR	ENSG00000151023	ENST00000483339	protein_coding	PUTATIVE	None	28388	376	124	25273765	25304889	-1	C10orf63	MGC26778, enkurin
4	None	ENSG00000272414	ENST00000515604	protein_coding	KNOWN	CCDS58908	None	1056	351	77172874	77232273	1	None	None
4	None	ENSG00000272414	ENST00000514365	nonsense_mediated_decay	KNOWN	None	None	162	53	77172885	77231532	1	None	None
4	None	ENSG00000272414	ENST00000509377	nonsense_mediated_decay	KNOWN	None	None	162	53	77172886	77231197	1	None	None
4	None	ENSG00000272414	ENST00000514140	protein_coding	NOVEL	None	None	576	191	77184965	77232282	1	None	None
8	FBXO32	ENSG00000156804	ENST00000517956	protein_coding	KNOWN	CCDS6345	16731	1068	355	124510129	124553446	-1	None	MAFbx, ATROGIN1, Fbx32
8	FBXO32	ENSG00000156804	ENST00000524000	retained_intron	KNOWN	None	16731	None	None	124515346	124518865	-1	None	MAFbx, ATROGIN1, Fbx32
8	FBXO32	ENSG00000156804	ENST00000287396	retained_intron	KNOWN	None	16731	None	None	124515358	124544383	-1	None	MAFbx, ATROGIN1, Fbx32
8	FBXO32	ENSG00000156804	ENST00000443022	protein_coding	NOVEL	CCDS56553	16731	789	262	124515367	124553446	-1	None	MAFbx, ATROGIN1, Fbx32
8	FBXO32	ENSG00000156804	ENST00000521719	retained_intron	KNOWN	None	16731	None	None	124525514	124553429	-1	None	MAFbx, ATROGIN1, Fbx32
8	FBXO32	ENSG00000156804	ENST00000520511	retained_intron	KNOWN	None	16731	None	None	124539236	124553430	-1	None	MAFbx, ATROGIN1, Fbx32
9	C9orf38	ENSG00000215066	ENST00000355513	protein_coding	KNOWN	None	23398	357	118	6467618	6470375	-1	None	PRO0365
10	THNSL1	ENSG00000185875	ENST00000524413	protein_coding	KNOWN	CCDS7147	26160	2232	743	25305587	25315593	1	None	FLJ22002
10	THNSL1	ENSG00000185875	ENST00000376356	protein_coding	KNOWN	CCDS7147	26160	2232	743	25305587	25315593	1	None	FLJ22002
4	FAM47E-STBD1	ENSG00000118804	ENST00000237642	protein_coding	KNOWN	CCDS3578	44667	1077	358	77227179	77232752	1	None	None
4	FAM47E-STBD1	ENSG00000118804	ENST00000539752	protein_coding	KNOWN	None	44667	630	209	77172886	77231197	1	None	None
15	MEX3B	ENSG00000183496	ENST00000329713	protein_coding	KNOWN	CCDS10319	25297	1710	569	82334119	82338482	-1	RKHD3	DKFZp434J0617, RNF195
15	MEX3B	ENSG00000183496	ENST00000558133	protein_coding	PUTATIVE	None	25297	477	158	82334128	82338460	-1	RKHD3	DKFZp434J0617, RNF195
10	GPR158	ENSG00000151025	ENST00000376351	protein_coding	KNOWN	CCDS31166	23689	3648	1215	25463991	25891155	1	None	KIAA1136
10	GPR158	ENSG00000151025	ENST00000482641	processed_transcript	KNOWN	None	23689	None	None	25755119	25764878	1	None	KIAA1136
10	GPR158	ENSG00000151025	ENST00000490549	processed_transcript	KNOWN	None	23689	None	None	25883142	25891155	1	None	KIAA1136
15	None	ENSG00000259518	ENST00000558082	retained_intron	KNOWN	None	None	None	None	82380935	82390035	1	None	None
15	None	ENSG00000259518	ENST00000559788	protein_coding	PUTATIVE	None	None	249	82	82380974	82388048	1	None	None
15	None	ENSG00000259518	ENST00000557838	protein_coding	PUTATIVE	None	None	207	68	82381032	82384321	1	None	None
9	GLDC	ENSG00000178445	ENST00000321612	protein_coding	KNOWN	CCDS34987	4313	3063	1020	6532464	6645650	-1	None	GCSP, NKH
9	GLDC	ENSG00000178445	ENST00000477960	processed_transcript	KNOWN	None	4313	None	None	6532899	6540179	-1	None	GCSP, NKH
9	GLDC	ENSG00000178445	ENST00000467946	processed_transcript	KNOWN	None	4313	None	None	6553432	6554909	-1	None	GCSP, NKH
9	GLDC	ENSG00000178445	ENST00000460457	processed_transcript	KNOWN	None	4313	None	None	6557948	6565418	-1	None	GCSP, NKH
9	GLDC	ENSG00000178445	ENST00000463305	processed_transcript	KNOWN	None	4313	None	None	6589207	6605272	-1	None	GCSP, NKH
4	CCDC158	ENSG00000163749	ENST00000504667	retained_intron	KNOWN	None	26374	None	None	77234154	77288787	-1	None	FLJ25770
4	CCDC158	ENSG00000163749	ENST00000388914	protein_coding	KNOWN	CCDS43242	26374	3342	1113	77234155	77328458	-1	None	FLJ25770
4	CCDC158	ENSG00000163749	ENST00000434846	protein_coding	PUTATIVE	None	26374	1221	406	77296330	77328476	-1	None	FLJ25770
4	CCDC158	ENSG00000163749	ENST00000509851	retained_intron	KNOWN	None	26374	None	None	77305532	77342996	-1	None	FLJ25770
4	CCDC158	ENSG00000163749	ENST00000504868	processed_transcript	KNOWN	None	26374	None	None	77317422	77343021	-1	None	FLJ25770
15	EFTUD1	ENSG00000140598	ENST00000268206	protein_coding	KNOWN	CCDS42071	25789	3363	1120	82422571	82555104	-1	None	FLJ13119, FAM42A, HsT19294, RIA1
15	EFTUD1	ENSG00000140598	ENST00000359445	protein_coding	KNOWN	CCDS42070	25789	3210	1069	82422574	82555055	-1	None	FLJ13119, FAM42A, HsT19294, RIA1
15	EFTUD1	ENSG00000140598	ENST00000561340	processed_transcript	KNOWN	None	25789	None	None	82444498	82452411	-1	None	FLJ13119, FAM42A, HsT19294, RIA1
15	EFTUD1	ENSG00000140598	ENST00000559429	retained_intron	KNOWN	None	25789	None	None	82449807	82456298	-1	None	FLJ13119, FAM42A, HsT19294, RIA1
15	EFTUD1	ENSG00000140598	ENST00000560095	processed_transcript	PUTATIVE	None	25789	None	None	82507124	82508004	-1	None	FLJ13119, FAM42A, HsT19294, RIA1
15	EFTUD1	ENSG00000140598	ENST00000561331	processed_transcript	KNOWN	None	25789	None	None	82519807	82526115	-1	None	FLJ13119, FAM42A, HsT19294, RIA1
15	EFTUD1	ENSG00000140598	ENST00000557939	protein_coding	NOVEL	None	25789	417	138	82530649	82545100	-1	None	FLJ13119, FAM42A, HsT19294, RIA1
15	EFTUD1	ENSG00000140598	ENST00000561389	nonsense_mediated_decay	KNOWN	None	25789	177	58	82530795	82555075	-1	None	FLJ13119, FAM42A, HsT19294, RIA1
15	EFTUD1	ENSG00000140598	ENST00000557844	protein_coding	KNOWN	None	25789	91	29	82554029	82555002	-1	None	FLJ13119, FAM42A, HsT19294, RIA1
15	EFTUD1	ENSG00000140598	ENST00000558974	protein_coding	KNOWN	None	25789	50	15	82554070	82554805	-1	None	FLJ13119, FAM42A, HsT19294, RIA1
8	KLHL38	ENSG00000175946	ENST00000325995	protein_coding	KNOWN	CCDS43766	34435	1746	581	124657767	124665190	-1	None	C8ORFK36
8	None	ENSG00000269197	ENST00000602248	protein_coding	KNOWN	None	None	216	71	70850403	70850635	1	None	None
8	PRDM14	ENSG00000147596	ENST00000276594	protein_coding	KNOWN	CCDS6206	14001	1716	571	70963886	70983562	-1	None	None
8	PRDM14	ENSG00000147596	ENST00000426346	protein_coding	KNOWN	None	14001	299	98	70981797	70983928	-1	None	None
10	MYO3A	ENSG00000095777	ENST00000265944	protein_coding	KNOWN	CCDS7148	7601	4851	1616	26223196	26501456	1	DFNB30	None
10	MYO3A	ENSG00000095777	ENST00000376302	protein_coding	KNOWN	None	7601	744	247	26223203	26312410	1	DFNB30	None
10	MYO3A	ENSG00000095777	ENST00000376301	protein_coding	KNOWN	None	7601	594	197	26241029	26305956	1	DFNB30	None
10	MYO3A	ENSG00000095777	ENST00000477691	processed_transcript	KNOWN	None	7601	None	None	26454771	26457767	1	DFNB30	None
10	MYO3A	ENSG00000095777	ENST00000478093	processed_transcript	KNOWN	None	7601	None	None	26491953	26493431	1	DFNB30	None
10	MYO3A	ENSG00000095777	ENST00000543632	protein_coding	KNOWN	None	7601	1995	664	26224717	26501138	1	DFNB30	None
8	ANXA13	ENSG00000104537	ENST00000262219	protein_coding	KNOWN	CCDS34939	536	1074	357	124693034	124749642	-1	ANX13	None
8	ANXA13	ENSG00000104537	ENST00000419625	protein_coding	KNOWN	CCDS47917	536	951	316	124693035	124749647	-1	ANX13	None
8	ANXA13	ENSG00000104537	ENST00000520519	protein_coding	PUTATIVE	None	536	339	112	124707787	124741488	-1	ANX13	None
8	ANXA13	ENSG00000104537	ENST00000523822	retained_intron	KNOWN	None	536	None	None	124723873	124740751	-1	ANX13	None
8	ANXA13	ENSG00000104537	ENST00000520591	processed_transcript	PUTATIVE	None	536	None	None	124724949	124740163	-1	ANX13	None
8	ANXA13	ENSG00000104537	ENST00000519045	processed_transcript	PUTATIVE	None	536	None	None	124740510	124741490	-1	ANX13	None
8	NCOA2	ENSG00000140396	ENST00000452400	protein_coding	KNOWN	CCDS47872	7669	4395	1464	71021997	71316040	-1	None	TIF2, GRIP1, NCoA-2, KAT13C, bHLHe75
8	NCOA2	ENSG00000140396	ENST00000518287	nonsense_mediated_decay	KNOWN	None	7669	2841	946	71024305	71314314	-1	None	TIF2, GRIP1, NCoA-2, KAT13C, bHLHe75
8	NCOA2	ENSG00000140396	ENST00000518363	protein_coding	PUTATIVE	None	7669	1771	589	71025804	71060695	-1	None	TIF2, GRIP1, NCoA-2, KAT13C, bHLHe75
8	NCOA2	ENSG00000140396	ENST00000521239	retained_intron	KNOWN	None	7669	None	None	71038844	71040982	-1	None	TIF2, GRIP1, NCoA-2, KAT13C, bHLHe75
8	NCOA2	ENSG00000140396	ENST00000522054	retained_intron	KNOWN	None	7669	None	None	71050208	71053477	-1	None	TIF2, GRIP1, NCoA-2, KAT13C, bHLHe75
8	NCOA2	ENSG00000140396	ENST00000524223	processed_transcript	PUTATIVE	None	7669	None	None	71068206	71069381	-1	None	TIF2, GRIP1, NCoA-2, KAT13C, bHLHe75
8	NCOA2	ENSG00000140396	ENST00000519724	protein_coding	KNOWN	None	7669	50	15	71128931	71157610	-1	None	TIF2, GRIP1, NCoA-2, KAT13C, bHLHe75
8	NCOA2	ENSG00000140396	ENST00000520416	protein_coding	KNOWN	None	7669	25	7	71128956	71314822	-1	None	TIF2, GRIP1, NCoA-2, KAT13C, bHLHe75
8	NCOA2	ENSG00000140396	ENST00000267974	protein_coding	KNOWN	None	7669	1659	552	71025804	71060621	-1	None	TIF2, GRIP1, NCoA-2, KAT13C, bHLHe75
8	FAM91A1	ENSG00000176853	ENST00000521166	protein_coding	PUTATIVE	None	26306	2370	789	124780696	124822719	1	None	FLJ23790
8	FAM91A1	ENSG00000176853	ENST00000334705	protein_coding	KNOWN	CCDS6346	26306	2517	838	124780697	124827692	1	None	FLJ23790
8	FAM91A1	ENSG00000176853	ENST00000519721	nonsense_mediated_decay	KNOWN	None	26306	657	218	124780886	124827013	1	None	FLJ23790
8	FAM91A1	ENSG00000176853	ENST00000521704	retained_intron	KNOWN	None	26306	None	None	124792267	124797035	1	None	FLJ23790
8	FAM91A1	ENSG00000176853	ENST00000517912	nonsense_mediated_decay	KNOWN	None	26306	344	113	124792720	124799595	1	None	FLJ23790
8	FAM91A1	ENSG00000176853	ENST00000518333	retained_intron	KNOWN	None	26306	None	None	124820999	124825000	1	None	FLJ23790
8	FAM91A1	ENSG00000176853	ENST00000518976	nonsense_mediated_decay	KNOWN	None	26306	183	60	124821147	124825082	1	None	FLJ23790
8	FAM91A1	ENSG00000176853	ENST00000520246	retained_intron	KNOWN	None	26306	None	None	124821169	124823695	1	None	FLJ23790
4	SHROOM3	ENSG00000138771	ENST00000296043	protein_coding	KNOWN	CCDS3579	30422	5991	1996	77356253	77704406	1	None	ShrmL, SHRM, KIAA1481, APXL3
4	SHROOM3	ENSG00000138771	ENST00000497440	processed_transcript	PUTATIVE	None	30422	None	None	77357265	77566798	1	None	ShrmL, SHRM, KIAA1481, APXL3
4	SHROOM3	ENSG00000138771	ENST00000466541	processed_transcript	PUTATIVE	None	30422	None	None	77357299	77480729	1	None	ShrmL, SHRM, KIAA1481, APXL3
4	SHROOM3	ENSG00000138771	ENST00000469923	processed_transcript	KNOWN	None	30422	None	None	77476767	77675739	1	None	ShrmL, SHRM, KIAA1481, APXL3
4	SHROOM3	ENSG00000138771	ENST00000490690	processed_transcript	PUTATIVE	None	30422	None	None	77507293	77566507	1	None	ShrmL, SHRM, KIAA1481, APXL3
4	SHROOM3	ENSG00000138771	ENST00000481002	processed_transcript	KNOWN	None	30422	None	None	77507408	77659988	1	None	ShrmL, SHRM, KIAA1481, APXL3
4	SHROOM3	ENSG00000138771	ENST00000485780	processed_transcript	PUTATIVE	None	30422	None	None	77507439	77566798	1	None	ShrmL, SHRM, KIAA1481, APXL3
4	SHROOM3	ENSG00000138771	ENST00000484236	processed_transcript	PUTATIVE	None	30422	None	None	77507466	77508418	1	None	ShrmL, SHRM, KIAA1481, APXL3
4	SHROOM3	ENSG00000138771	ENST00000486758	retained_intron	KNOWN	None	30422	None	None	77610724	77663283	1	None	ShrmL, SHRM, KIAA1481, APXL3
4	SHROOM3	ENSG00000138771	ENST00000473602	processed_transcript	KNOWN	None	30422	None	None	77630920	77660146	1	None	ShrmL, SHRM, KIAA1481, APXL3
15	FAM154B	ENSG00000188659	ENST00000566205	protein_coding	PUTATIVE	None	33727	90	29	82555151	82557230	1	None	DKFZp666G057
15	FAM154B	ENSG00000188659	ENST00000339465	protein_coding	KNOWN	CCDS32310	33727	1197	398	82555152	82577271	1	None	DKFZp666G057
15	FAM154B	ENSG00000188659	ENST00000569120	protein_coding	PUTATIVE	None	33727	92	29	82555159	82558089	1	None	DKFZp666G057
15	FAM154B	ENSG00000188659	ENST00000566861	protein_coding	PUTATIVE	None	33727	126	41	82555167	82557230	1	None	DKFZp666G057
15	FAM154B	ENSG00000188659	ENST00000562097	processed_transcript	KNOWN	None	33727	None	None	82555168	82557222	1	None	DKFZp666G057
15	FAM154B	ENSG00000188659	ENST00000565432	protein_coding	PUTATIVE	None	33727	315	104	82555185	82564435	1	None	DKFZp666G057
15	FAM154B	ENSG00000188659	ENST00000565501	processed_transcript	KNOWN	None	33727	None	None	82555186	82575920	1	None	DKFZp666G057
15	FAM154B	ENSG00000188659	ENST00000565006	processed_transcript	KNOWN	None	33727	None	None	82555485	82557230	1	None	DKFZp666G057
15	FAM154B	ENSG00000188659	ENST00000427381	protein_coding	KNOWN	None	33727	1152	383	82555192	82575769	1	None	DKFZp666G057
4	TMEM156	ENSG00000121895	ENST00000381938	protein_coding	KNOWN	CCDS3448	26260	891	296	38968365	39034041	-1	None	FLJ23235
4	TMEM156	ENSG00000121895	ENST00000344606	protein_coding	NOVEL	None	26260	538	178	38995355	39034542	-1	None	FLJ23235
4	TMEM156	ENSG00000121895	ENST00000372489	processed_transcript	KNOWN	None	26260	None	None	39000080	39034027	-1	None	FLJ23235
4	TMEM156	ENSG00000121895	ENST00000495029	processed_transcript	KNOWN	None	26260	None	None	39029995	39034340	-1	None	FLJ23235
9	None	ENSG00000228537	ENST00000417734	protein_coding	KNOWN	None	None	438	145	70866135	70866572	-1	None	None
14	NDUFB1	ENSG00000183648	ENST00000553514	protein_coding	KNOWN	None	7695	177	58	92582466	92588068	-1	None	MNLL, CI-MNLL
14	NDUFB1	ENSG00000183648	ENST00000329559	protein_coding	KNOWN	CCDS9901	7695	318	105	92582467	92588261	-1	None	MNLL, CI-MNLL
14	NDUFB1	ENSG00000183648	ENST00000605997	protein_coding	KNOWN	None	7695	177	58	92582469	92588071	-1	None	MNLL, CI-MNLL
14	NDUFB1	ENSG00000183648	ENST00000553666	retained_intron	KNOWN	None	7695	None	None	92582470	92585070	-1	None	MNLL, CI-MNLL
14	NDUFB1	ENSG00000183648	ENST00000555441	protein_coding	KNOWN	None	7695	177	58	92582470	92587748	-1	None	MNLL, CI-MNLL
14	NDUFB1	ENSG00000183648	ENST00000556555	processed_transcript	PUTATIVE	None	7695	None	None	92586675	92588037	-1	None	MNLL, CI-MNLL
16	C16orf72	ENSG00000182831	ENST00000327827	protein_coding	KNOWN	CCDS10538	30103	828	275	9185505	9215497	1	None	FLJ41272, PRO0149
9	FOXD4L3	ENSG00000187559	ENST00000342833	protein_coding	KNOWN	CCDS43833	18523	1254	417	70917276	70920000	1	None	OTTHUMG00000019959, FOXD6
14	CHD8	ENSG00000100888	ENST00000430710	protein_coding	KNOWN	CCDS45081	20153	6909	2302	21853353	21905402	-1	HELSNF1	KIAA1564, DUPLIN
14	CHD8	ENSG00000100888	ENST00000557727	retained_intron	KNOWN	None	20153	None	None	21853358	21854503	-1	HELSNF1	KIAA1564, DUPLIN
14	CHD8	ENSG00000100888	ENST00000557364	protein_coding	KNOWN	CCDS53885	20153	7746	2581	21853645	21924239	-1	HELSNF1	KIAA1564, DUPLIN
14	CHD8	ENSG00000100888	ENST00000553870	protein_coding	NOVEL	None	20153	679	225	21854170	21860947	-1	HELSNF1	KIAA1564, DUPLIN
14	CHD8	ENSG00000100888	ENST00000555301	retained_intron	KNOWN	None	20153	None	None	21861830	21863173	-1	HELSNF1	KIAA1564, DUPLIN
14	CHD8	ENSG00000100888	ENST00000557329	retained_intron	KNOWN	None	20153	None	None	21862268	21862926	-1	HELSNF1	KIAA1564, DUPLIN
14	CHD8	ENSG00000100888	ENST00000555962	processed_transcript	KNOWN	None	20153	None	None	21863183	21905389	-1	HELSNF1	KIAA1564, DUPLIN
14	CHD8	ENSG00000100888	ENST00000555935	protein_coding	NOVEL	None	20153	2617	871	21867765	21878049	-1	HELSNF1	KIAA1564, DUPLIN
14	CHD8	ENSG00000100888	ENST00000554384	retained_intron	KNOWN	None	20153	None	None	21876482	21881165	-1	HELSNF1	KIAA1564, DUPLIN
14	CHD8	ENSG00000100888	ENST00000553283	protein_coding	PUTATIVE	None	20153	295	97	21897296	21905403	-1	HELSNF1	KIAA1564, DUPLIN
14	CHD8	ENSG00000100888	ENST00000553622	protein_coding	NOVEL	None	20153	454	150	21899274	21905424	-1	HELSNF1	KIAA1564, DUPLIN
14	CHD8	ENSG00000100888	ENST00000556833	processed_transcript	KNOWN	None	20153	None	None	21899892	21924285	-1	HELSNF1	KIAA1564, DUPLIN
14	CHD8	ENSG00000100888	ENST00000553651	processed_transcript	KNOWN	None	20153	None	None	21899897	21905457	-1	HELSNF1	KIAA1564, DUPLIN
14	CHD8	ENSG00000100888	ENST00000399982	protein_coding	KNOWN	CCDS53885	20153	7746	2581	21853354	21899867	-1	HELSNF1	KIAA1564, DUPLIN
10	GAD2	ENSG00000136750	ENST00000376261	protein_coding	KNOWN	CCDS7149	4093	1758	585	26505236	26593487	1	None	GAD65
10	GAD2	ENSG00000136750	ENST00000259271	protein_coding	KNOWN	CCDS7149	4093	1758	585	26505594	26593487	1	None	GAD65
10	GAD2	ENSG00000136750	ENST00000428517	protein_coding	KNOWN	None	4093	564	187	26505662	26508249	1	None	GAD65
10	GAD2	ENSG00000136750	ENST00000376248	protein_coding	KNOWN	None	4093	390	129	26507122	26513689	1	None	GAD65
9	PGM5	ENSG00000154330	ENST00000604870	processed_transcript	KNOWN	None	8908	None	None	70943224	71021261	1	None	PGMRP
9	PGM5	ENSG00000154330	ENST00000396392	protein_coding	NOVEL	None	8908	1164	387	70971815	71081471	1	None	PGMRP
9	PGM5	ENSG00000154330	ENST00000396396	protein_coding	KNOWN	CCDS6622	8908	1704	567	70971815	71145977	1	None	PGMRP
9	PGM5	ENSG00000154330	ENST00000431583	protein_coding	PUTATIVE	None	8908	616	204	70972146	71006617	1	None	PGMRP
9	PGM5	ENSG00000154330	ENST00000587852	processed_transcript	KNOWN	None	8908	None	None	71011440	71021260	1	None	PGMRP
9	PGM5	ENSG00000154330	ENST00000472639	processed_transcript	KNOWN	None	8908	None	None	71079437	71114201	1	None	PGMRP
9	PGM5	ENSG00000154330	ENST00000496758	retained_intron	KNOWN	None	8908	None	None	71111741	71145977	1	None	PGMRP
16	None	ENSG00000260362	ENST00000561538	protein_coding	PUTATIVE	None	None	300	99	9760742	9770700	-1	None	None
X	SLC6A8	ENSG00000130821	ENST00000253122	protein_coding	KNOWN	CCDS14726	11055	1908	635	152953554	152962048	1	None	CRTR, CT1
X	SLC6A8	ENSG00000130821	ENST00000476466	processed_transcript	KNOWN	None	11055	None	None	152954178	152956336	1	None	CRTR, CT1
X	SLC6A8	ENSG00000130821	ENST00000430077	protein_coding	KNOWN	CCDS48190	11055	1563	520	152954922	152960782	1	None	CRTR, CT1
X	SLC6A8	ENSG00000130821	ENST00000466243	processed_transcript	KNOWN	None	11055	None	None	152956573	152957537	1	None	CRTR, CT1
X	SLC6A8	ENSG00000130821	ENST00000467402	processed_transcript	KNOWN	None	11055	None	None	152956818	152959427	1	None	CRTR, CT1
X	SLC6A8	ENSG00000130821	ENST00000429147	protein_coding	KNOWN	None	11055	334	110	152956916	152957670	1	None	CRTR, CT1
X	SLC6A8	ENSG00000130821	ENST00000485324	processed_transcript	KNOWN	None	11055	None	None	152957686	152960855	1	None	CRTR, CT1
X	SLC6A8	ENSG00000130821	ENST00000413787	protein_coding	KNOWN	None	11055	468	155	152958509	152960031	1	None	CRTR, CT1
X	SLC6A8	ENSG00000130821	ENST00000442457	protein_coding	KNOWN	None	11055	523	173	152958722	152959875	1	None	CRTR, CT1
X	SLC6A8	ENSG00000130821	ENST00000457723	protein_coding	KNOWN	None	11055	266	87	152958917	152959619	1	None	CRTR, CT1
4	KLHL5	ENSG00000109790	ENST00000261425	protein_coding	PUTATIVE	CCDS33975	6356	2130	709	39046659	39123829	1	None	None
4	KLHL5	ENSG00000109790	ENST00000508137	protein_coding	PUTATIVE	CCDS54756	6356	1707	568	39046680	39123828	1	None	None
4	KLHL5	ENSG00000109790	ENST00000504108	protein_coding	KNOWN	CCDS33974	6356	2268	755	39063852	39122825	1	None	None
4	KLHL5	ENSG00000109790	ENST00000381930	protein_coding	KNOWN	None	6356	2274	757	39064060	39117952	1	None	None
4	KLHL5	ENSG00000109790	ENST00000261426	protein_coding	NOVEL	CCDS3449	6356	2085	694	39064060	39123826	1	None	None
4	KLHL5	ENSG00000109790	ENST00000514399	nonsense_mediated_decay	KNOWN	None	6356	109	35	39064560	39082802	1	None	None
4	KLHL5	ENSG00000109790	ENST00000515612	protein_coding	KNOWN	None	6356	847	281	39104935	39128477	1	None	None
4	KLHL5	ENSG00000109790	ENST00000359687	protein_coding	KNOWN	None	6356	2313	770	39063852	39128415	1	None	None
15	None	ENSG00000205281	ENST00000439287	protein_coding	KNOWN	CCDS45325	None	1440	479	82635130	82641706	-1	None	None
15	None	ENSG00000205281	ENST00000559712	retained_intron	NOVEL	None	None	None	None	82639472	82641668	-1	None	None
4	SOWAHB	ENSG00000186212	ENST00000334306	protein_coding	KNOWN	CCDS34017	32958	2382	793	77816082	77819002	-1	ANKRD56	None
4	SEPT11	ENSG00000138758	ENST00000264893	protein_coding	KNOWN	CCDS34018	25589	1290	429	77870856	77959767	1	None	FLJ10849
4	SEPT11	ENSG00000138758	ENST00000502584	protein_coding	PUTATIVE	None	25589	1278	425	77870904	77953311	1	None	FLJ10849
4	SEPT11	ENSG00000138758	ENST00000510641	protein_coding	PUTATIVE	None	25589	1116	371	77870919	77951989	1	None	FLJ10849
4	SEPT11	ENSG00000138758	ENST00000505788	protein_coding	PUTATIVE	None	25589	1299	432	77870962	77961537	1	None	FLJ10849
4	SEPT11	ENSG00000138758	ENST00000512575	processed_transcript	KNOWN	None	25589	None	None	77870989	77955820	1	None	FLJ10849
4	SEPT11	ENSG00000138758	ENST00000510515	protein_coding	PUTATIVE	None	25589	1320	439	77870990	77955974	1	None	FLJ10849
4	SEPT11	ENSG00000138758	ENST00000504637	protein_coding	PUTATIVE	None	25589	378	125	77871015	77932897	1	None	FLJ10849
4	SEPT11	ENSG00000138758	ENST00000512778	protein_coding	PUTATIVE	None	25589	409	135	77906177	77932928	1	None	FLJ10849
4	SEPT11	ENSG00000138758	ENST00000512333	processed_transcript	KNOWN	None	25589	None	None	77908941	77933072	1	None	FLJ10849
4	SEPT11	ENSG00000138758	ENST00000504460	processed_transcript	KNOWN	None	25589	None	None	77930933	77936170	1	None	FLJ10849
4	SEPT11	ENSG00000138758	ENST00000506047	retained_intron	KNOWN	None	25589	None	None	77936024	77942792	1	None	FLJ10849
4	SEPT11	ENSG00000138758	ENST00000506731	protein_coding	PUTATIVE	None	25589	482	159	77941685	77960359	1	None	FLJ10849
4	SEPT11	ENSG00000138758	ENST00000502401	protein_coding	PUTATIVE	None	25589	249	82	77949870	77960268	1	None	FLJ10849
4	SEPT11	ENSG00000138758	ENST00000513373	processed_transcript	KNOWN	None	25589	None	None	77951936	77961253	1	None	FLJ10849
4	SEPT11	ENSG00000138758	ENST00000513697	processed_transcript	KNOWN	None	25589	None	None	77952050	77960479	1	None	FLJ10849
4	SEPT11	ENSG00000138758	ENST00000515671	processed_transcript	KNOWN	None	25589	None	None	77956077	77961305	1	None	FLJ10849
4	SEPT11	ENSG00000138758	ENST00000541121	protein_coding	KNOWN	None	25589	1320	439	77917035	77959767	1	None	FLJ10849
14	CPSF2	ENSG00000165934	ENST00000298875	protein_coding	KNOWN	CCDS9902	2325	2349	782	92588281	92630755	1	None	KIAA1367
14	CPSF2	ENSG00000165934	ENST00000553427	protein_coding	KNOWN	None	2325	242	79	92588316	92600447	1	None	KIAA1367
14	CPSF2	ENSG00000165934	ENST00000554290	nonsense_mediated_decay	KNOWN	None	2325	189	62	92588329	92601776	1	None	KIAA1367
14	CPSF2	ENSG00000165934	ENST00000556622	retained_intron	KNOWN	None	2325	None	None	92620365	92621497	1	None	KIAA1367
14	CPSF2	ENSG00000165934	ENST00000555244	protein_coding	NOVEL	None	2325	806	267	92621523	92627590	1	None	KIAA1367
15	GOLGA6L9	ENSG00000197978	ENST00000558668	retained_intron	KNOWN	None	37229	None	None	82722223	82724418	1	None	None
15	GOLGA6L9	ENSG00000197978	ENST00000300515	protein_coding	KNOWN	CCDS45326	37229	1299	432	82722225	82731338	1	None	None
8	TRAM1	ENSG00000067167	ENST00000521425	protein_coding	PUTATIVE	None	20568	867	288	71485677	71520013	-1	None	TRAM, TRAMP
8	TRAM1	ENSG00000067167	ENST00000262213	protein_coding	KNOWN	CCDS6207	20568	1125	374	71485677	71520604	-1	None	TRAM, TRAMP
8	TRAM1	ENSG00000067167	ENST00000521049	processed_transcript	PUTATIVE	None	20568	None	None	71495941	71520574	-1	None	TRAM, TRAMP
8	TRAM1	ENSG00000067167	ENST00000520700	processed_transcript	KNOWN	None	20568	None	None	71506736	71520587	-1	None	TRAM, TRAMP
8	TRAM1	ENSG00000067167	ENST00000518678	protein_coding	PUTATIVE	None	20568	337	111	71510126	71520622	-1	None	TRAM, TRAMP
8	TRAM1	ENSG00000067167	ENST00000536748	protein_coding	KNOWN	None	20568	1032	343	71487087	71520608	-1	None	TRAM, TRAMP
8	FER1L6	ENSG00000214814	ENST00000522917	protein_coding	KNOWN	CCDS43767	28065	5574	1857	124864227	125132302	1	None	C8ORFK23
8	FER1L6	ENSG00000214814	ENST00000399018	protein_coding	KNOWN	CCDS43767	28065	5574	1857	124968225	125132302	1	None	C8ORFK23
9	TMEM252	ENSG00000181778	ENST00000377311	protein_coding	KNOWN	CCDS35040	28537	513	170	71151496	71155783	-1	C9orf71	MGC34760
15	RPS17	ENSG00000184779	ENST00000330339	protein_coding	KNOWN	CCDS10320	10397	408	135	82821158	82824972	-1	None	RPS17L1, RPS17L2, MGC72007, S17
15	RPS17	ENSG00000184779	ENST00000560151	retained_intron	KNOWN	None	10397	None	None	82821163	82824848	-1	None	RPS17L1, RPS17L2, MGC72007, S17
15	RPS17	ENSG00000184779	ENST00000559187	protein_coding	PUTATIVE	None	10397	411	136	82821163	82824867	-1	None	RPS17L1, RPS17L2, MGC72007, S17
15	RPS17	ENSG00000184779	ENST00000560826	protein_coding	PUTATIVE	None	10397	574	190	82821164	82824843	-1	None	RPS17L1, RPS17L2, MGC72007, S17
15	RPS17	ENSG00000184779	ENST00000560977	nonsense_mediated_decay	KNOWN	None	10397	179	58	82821167	82824539	-1	None	RPS17L1, RPS17L2, MGC72007, S17
15	RPS17	ENSG00000184779	ENST00000559636	retained_intron	KNOWN	None	10397	None	None	82821171	82824550	-1	None	RPS17L1, RPS17L2, MGC72007, S17
15	RPS17	ENSG00000184779	ENST00000560084	retained_intron	KNOWN	None	10397	None	None	82821196	82824541	-1	None	RPS17L1, RPS17L2, MGC72007, S17
15	RPS17	ENSG00000184779	ENST00000560652	retained_intron	KNOWN	None	10397	None	None	82821217	82824860	-1	None	RPS17L1, RPS17L2, MGC72007, S17
15	RPS17	ENSG00000184779	ENST00000559854	retained_intron	KNOWN	None	10397	None	None	82823073	82824827	-1	None	RPS17L1, RPS17L2, MGC72007, S17
15	RPS17	ENSG00000184779	ENST00000560024	retained_intron	KNOWN	None	10397	None	None	82824015	82824864	-1	None	RPS17L1, RPS17L2, MGC72007, S17
9	PIP5K1B	ENSG00000107242	ENST00000265382	protein_coding	KNOWN	CCDS6624	8995	1623	540	71320616	71624091	1	None	STM7, MSS4
9	PIP5K1B	ENSG00000107242	ENST00000472907	processed_transcript	KNOWN	None	8995	None	None	71320901	71401076	1	None	STM7, MSS4
9	PIP5K1B	ENSG00000107242	ENST00000474356	processed_transcript	KNOWN	None	8995	None	None	71320902	71323057	1	None	STM7, MSS4
9	PIP5K1B	ENSG00000107242	ENST00000377284	protein_coding	KNOWN	None	8995	311	102	71354750	71491703	1	None	STM7, MSS4
9	PIP5K1B	ENSG00000107242	ENST00000437200	protein_coding	KNOWN	None	8995	487	161	71356500	71509270	1	None	STM7, MSS4
9	PIP5K1B	ENSG00000107242	ENST00000440050	protein_coding	KNOWN	None	8995	471	156	71357171	71504049	1	None	STM7, MSS4
9	PIP5K1B	ENSG00000107242	ENST00000478500	nonsense_mediated_decay	KNOWN	None	8995	1650	549	71357171	71624092	1	None	STM7, MSS4
9	PIP5K1B	ENSG00000107242	ENST00000541509	protein_coding	KNOWN	None	8995	1509	502	71320575	71623690	1	None	STM7, MSS4
14	SLC24A4	ENSG00000140090	ENST00000393265	protein_coding	KNOWN	CCDS45156	10978	1677	558	92788925	92962595	1	None	NCKX4
14	SLC24A4	ENSG00000140090	ENST00000531433	protein_coding	KNOWN	CCDS45155	10978	1812	603	92789537	92962595	1	None	NCKX4
14	SLC24A4	ENSG00000140090	ENST00000532405	protein_coding	KNOWN	CCDS9903	10978	1869	622	92789949	92962595	1	None	NCKX4
14	SLC24A4	ENSG00000140090	ENST00000554461	protein_coding	PUTATIVE	None	10978	192	63	92874723	92909097	1	None	NCKX4
14	SLC24A4	ENSG00000140090	ENST00000525557	protein_coding	PUTATIVE	None	10978	1393	463	92905708	92962596	1	None	NCKX4
14	SLC24A4	ENSG00000140090	ENST00000554925	retained_intron	KNOWN	None	10978	None	None	92909709	92960266	1	None	NCKX4
14	SLC24A4	ENSG00000140090	ENST00000556739	processed_transcript	KNOWN	None	10978	None	None	92916562	92929091	1	None	NCKX4
14	SLC24A4	ENSG00000140090	ENST00000526482	retained_intron	KNOWN	None	10978	None	None	92919110	92962596	1	None	NCKX4
14	SLC24A4	ENSG00000140090	ENST00000298877	protein_coding	KNOWN	None	10978	1818	605	92790202	92962595	1	None	NCKX4
14	SLC24A4	ENSG00000140090	ENST00000351924	protein_coding	KNOWN	None	10978	1761	586	92790202	92962595	1	None	NCKX4
8	TMEM65	ENSG00000164983	ENST00000297632	protein_coding	KNOWN	CCDS6348	25203	723	240	125324231	125384933	-1	None	None
10	APBB1IP	ENSG00000077420	ENST00000376236	protein_coding	KNOWN	CCDS31167	17379	2001	666	26727132	26856732	1	None	INAG1, RIAM
10	APBB1IP	ENSG00000077420	ENST00000356785	protein_coding	KNOWN	None	17379	519	172	26727354	26790867	1	None	INAG1, RIAM
10	APBB1IP	ENSG00000077420	ENST00000493857	processed_transcript	KNOWN	None	17379	None	None	26850872	26856155	1	None	INAG1, RIAM
8	TRMT12	ENSG00000183665	ENST00000521443	processed_transcript	PUTATIVE	None	26091	None	None	125463061	125474391	1	None	FLJ20772, Trm12, TYW2
8	TRMT12	ENSG00000183665	ENST00000522518	nonsense_mediated_decay	KNOWN	None	26091	453	150	125463158	125464982	1	None	FLJ20772, Trm12, TYW2
8	TRMT12	ENSG00000183665	ENST00000328599	protein_coding	KNOWN	CCDS6349	26091	1347	448	125463048	125465262	1	None	FLJ20772, Trm12, TYW2
15	None	ENSG00000215749	ENST00000560844	processed_transcript	KNOWN	None	None	None	None	82930438	82939159	-1	None	None
15	None	ENSG00000215749	ENST00000559949	protein_coding	PUTATIVE	None	None	1611	536	82932454	82939157	-1	None	None
15	None	ENSG00000215749	ENST00000558035	processed_transcript	KNOWN	None	None	None	None	82936963	82939159	-1	None	None
8	RNF139	ENSG00000170881	ENST00000303545	protein_coding	KNOWN	CCDS6350	17023	1995	664	125486979	125500155	1	None	TRC8, RCA1, HRCA1
8	RNF139	ENSG00000170881	ENST00000517684	protein_coding	PUTATIVE	None	17023	204	67	125495586	125498475	1	None	TRC8, RCA1, HRCA1
9	KDM4C	ENSG00000107077	ENST00000438023	nonsense_mediated_decay	KNOWN	None	17071	1122	373	6757641	7014337	1	JMJD2C	GASC1, KIAA0780, TDRD14C
9	KDM4C	ENSG00000107077	ENST00000401787	protein_coding	PUTATIVE	None	17071	456	151	6757654	6815149	1	JMJD2C	GASC1, KIAA0780, TDRD14C
9	KDM4C	ENSG00000107077	ENST00000381306	protein_coding	KNOWN	CCDS55287	17071	3144	1047	6757656	7170932	1	JMJD2C	GASC1, KIAA0780, TDRD14C
9	KDM4C	ENSG00000107077	ENST00000381309	protein_coding	KNOWN	CCDS6471	17071	3171	1056	6757656	7175648	1	JMJD2C	GASC1, KIAA0780, TDRD14C
9	KDM4C	ENSG00000107077	ENST00000489243	processed_transcript	KNOWN	None	17071	None	None	6758103	6893632	1	JMJD2C	GASC1, KIAA0780, TDRD14C
9	KDM4C	ENSG00000107077	ENST00000480996	processed_transcript	KNOWN	None	17071	None	None	6805617	6819079	1	JMJD2C	GASC1, KIAA0780, TDRD14C
9	KDM4C	ENSG00000107077	ENST00000496464	processed_transcript	KNOWN	None	17071	None	None	6893123	6948214	1	JMJD2C	GASC1, KIAA0780, TDRD14C
9	KDM4C	ENSG00000107077	ENST00000494570	processed_transcript	KNOWN	None	17071	None	None	6984281	6986866	1	JMJD2C	GASC1, KIAA0780, TDRD14C
9	KDM4C	ENSG00000107077	ENST00000420847	protein_coding	KNOWN	None	17071	1064	353	7013788	7169829	1	JMJD2C	GASC1, KIAA0780, TDRD14C
9	KDM4C	ENSG00000107077	ENST00000495890	processed_transcript	KNOWN	None	17071	None	None	7049192	7104017	1	JMJD2C	GASC1, KIAA0780, TDRD14C
9	KDM4C	ENSG00000107077	ENST00000490806	processed_transcript	KNOWN	None	17071	None	None	7104268	7170212	1	JMJD2C	GASC1, KIAA0780, TDRD14C
9	KDM4C	ENSG00000107077	ENST00000466673	processed_transcript	KNOWN	None	17071	None	None	7127907	7169884	1	JMJD2C	GASC1, KIAA0780, TDRD14C
9	KDM4C	ENSG00000107077	ENST00000535193	protein_coding	KNOWN	CCDS55285	17071	2508	835	6720863	7077262	1	JMJD2C	GASC1, KIAA0780, TDRD14C
9	KDM4C	ENSG00000107077	ENST00000543771	protein_coding	KNOWN	CCDS55286	17071	2442	813	6757641	7077262	1	JMJD2C	GASC1, KIAA0780, TDRD14C
9	KDM4C	ENSG00000107077	ENST00000442236	protein_coding	KNOWN	None	17071	2406	801	6758068	7174824	1	JMJD2C	GASC1, KIAA0780, TDRD14C
9	KDM4C	ENSG00000107077	ENST00000536108	protein_coding	KNOWN	None	17071	1890	629	6758118	7165355	1	JMJD2C	GASC1, KIAA0780, TDRD14C
9	KDM4C	ENSG00000107077	ENST00000428870	protein_coding	KNOWN	None	17071	2232	743	6925501	7175347	1	JMJD2C	GASC1, KIAA0780, TDRD14C
8	TATDN1	ENSG00000147687	ENST00000522927	nonsense_mediated_decay	KNOWN	None	24220	228	75	125500726	125551319	-1	None	CDA11
8	TATDN1	ENSG00000147687	ENST00000276692	protein_coding	KNOWN	CCDS6351	24220	894	297	125500749	125551325	-1	None	CDA11
8	TATDN1	ENSG00000147687	ENST00000523214	nonsense_mediated_decay	KNOWN	None	24220	624	207	125500749	125551329	-1	None	CDA11
8	TATDN1	ENSG00000147687	ENST00000523631	retained_intron	KNOWN	None	24220	None	None	125500751	125520756	-1	None	CDA11
8	TATDN1	ENSG00000147687	ENST00000519548	protein_coding	KNOWN	CCDS55273	24220	753	250	125500754	125551317	-1	None	CDA11
8	TATDN1	ENSG00000147687	ENST00000522810	protein_coding	NOVEL	None	24220	966	321	125500871	125551311	-1	None	CDA11
8	TATDN1	ENSG00000147687	ENST00000518485	retained_intron	KNOWN	None	24220	None	None	125506044	125516939	-1	None	CDA11
8	TATDN1	ENSG00000147687	ENST00000517678	protein_coding	PUTATIVE	None	24220	633	210	125506065	125551319	-1	None	CDA11
8	TATDN1	ENSG00000147687	ENST00000519776	nonsense_mediated_decay	KNOWN	None	24220	123	40	125507713	125551350	-1	None	CDA11
8	TATDN1	ENSG00000147687	ENST00000521546	processed_transcript	KNOWN	None	24220	None	None	125507759	125550710	-1	None	CDA11
8	TATDN1	ENSG00000147687	ENST00000521973	processed_transcript	KNOWN	None	24220	None	None	125516136	125534442	-1	None	CDA11
8	TATDN1	ENSG00000147687	ENST00000605953	protein_coding	PUTATIVE	None	24220	633	210	125516415	125551323	-1	None	CDA11
8	TATDN1	ENSG00000147687	ENST00000520321	nonsense_mediated_decay	KNOWN	None	24220	171	56	125516512	125551313	-1	None	CDA11
8	TATDN1	ENSG00000147687	ENST00000522310	nonsense_mediated_decay	KNOWN	None	24220	123	40	125516512	125551335	-1	None	CDA11
8	TATDN1	ENSG00000147687	ENST00000519232	protein_coding	PUTATIVE	None	24220	604	200	125520715	125551278	-1	None	CDA11
8	TATDN1	ENSG00000147687	ENST00000520938	nonsense_mediated_decay	KNOWN	None	24220	189	62	125520844	125551329	-1	None	CDA11
8	TATDN1	ENSG00000147687	ENST00000523888	protein_coding	KNOWN	None	24220	330	109	125520848	125551297	-1	None	CDA11
8	TATDN1	ENSG00000147687	ENST00000523152	protein_coding	PUTATIVE	None	24220	280	92	125520859	125551699	-1	None	CDA11
8	TATDN1	ENSG00000147687	ENST00000518133	processed_transcript	KNOWN	None	24220	None	None	125528165	125535720	-1	None	CDA11
8	TATDN1	ENSG00000147687	ENST00000522280	retained_intron	KNOWN	None	24220	None	None	125533878	125551319	-1	None	CDA11
15	None	ENSG00000259243	ENST00000557886	protein_coding	PUTATIVE	None	None	1653	550	83011379	83018198	-1	None	None
15	None	ENSG00000259243	ENST00000561032	retained_intron	KNOWN	None	None	None	None	83015964	83018160	-1	None	None
4	CCNI	ENSG00000118816	ENST00000237654	protein_coding	KNOWN	CCDS3580	1595	1134	377	77968311	77997158	-1	None	None
4	CCNI	ENSG00000118816	ENST00000515468	protein_coding	NOVEL	None	1595	532	176	77969268	77977202	-1	None	None
4	CCNI	ENSG00000118816	ENST00000506614	retained_intron	KNOWN	None	1595	None	None	77976387	77977638	-1	None	None
4	CCNI	ENSG00000118816	ENST00000511943	nonsense_mediated_decay	KNOWN	None	1595	171	56	77976476	77996846	-1	None	None
4	CCNI	ENSG00000118816	ENST00000505609	protein_coding	KNOWN	None	1595	377	124	77977197	77996063	-1	None	None
4	CCNI	ENSG00000118816	ENST00000504697	processed_transcript	KNOWN	None	1595	None	None	77977218	77986233	-1	None	None
4	CCNI	ENSG00000118816	ENST00000513774	protein_coding	KNOWN	None	1595	240	79	77979663	77996485	-1	None	None
4	CCNI	ENSG00000118816	ENST00000507788	protein_coding	PUTATIVE	None	1595	149	48	77979712	77997142	-1	None	None
4	CCNI	ENSG00000118816	ENST00000515790	retained_intron	KNOWN	None	1595	None	None	77987318	77996773	-1	None	None
4	CCNI	ENSG00000118816	ENST00000537948	protein_coding	KNOWN	None	1595	1092	363	77969288	77997142	-1	None	None
16	GRIN2A	ENSG00000183454	ENST00000396573	protein_coding	KNOWN	CCDS10539	4585	4395	1464	9852376	10276611	-1	NMDAR2A	GluN2A
16	GRIN2A	ENSG00000183454	ENST00000562109	protein_coding	KNOWN	CCDS45407	4585	3846	1281	9856532	10274289	-1	NMDAR2A	GluN2A
16	GRIN2A	ENSG00000183454	ENST00000330684	protein_coding	KNOWN	CCDS10539	4585	4395	1464	9856918	10276263	-1	NMDAR2A	GluN2A
16	GRIN2A	ENSG00000183454	ENST00000461292	processed_transcript	PUTATIVE	None	4585	None	None	9857032	9857663	-1	NMDAR2A	GluN2A
16	GRIN2A	ENSG00000183454	ENST00000463531	processed_transcript	PUTATIVE	None	4585	None	None	9858696	9863085	-1	NMDAR2A	GluN2A
16	GRIN2A	ENSG00000183454	ENST00000566683	processed_transcript	PUTATIVE	None	4585	None	None	9943744	10125421	-1	NMDAR2A	GluN2A
16	GRIN2A	ENSG00000183454	ENST00000568247	processed_transcript	PUTATIVE	None	4585	None	None	10031924	10064652	-1	NMDAR2A	GluN2A
16	GRIN2A	ENSG00000183454	ENST00000566670	processed_transcript	PUTATIVE	None	4585	None	None	10032011	10125437	-1	NMDAR2A	GluN2A
16	GRIN2A	ENSG00000183454	ENST00000566665	retained_intron	KNOWN	None	4585	None	None	10273348	10276116	-1	NMDAR2A	GluN2A
16	GRIN2A	ENSG00000183454	ENST00000396575	protein_coding	KNOWN	CCDS10539	4585	4395	1464	9857006	10274268	-1	NMDAR2A	GluN2A
16	GRIN2A	ENSG00000183454	ENST00000404927	protein_coding	KNOWN	CCDS45407	4585	3846	1281	9856533	10275924	-1	NMDAR2A	GluN2A
16	GRIN2A	ENSG00000183454	ENST00000535259	protein_coding	KNOWN	None	4585	3375	1124	9856533	10064652	-1	NMDAR2A	GluN2A
15	None	ENSG00000196648	ENST00000561062	protein_coding	PUTATIVE	None	None	1335	444	83098710	83105136	1	None	None
15	None	ENSG00000196648	ENST00000560889	retained_intron	KNOWN	None	None	None	None	83098748	83100943	1	None	None
15	None	ENSG00000196648	ENST00000561383	retained_intron	KNOWN	None	None	None	None	83098775	83107878	1	None	None
15	None	ENSG00000196648	ENST00000358583	protein_coding	KNOWN	None	None	1299	432	83098710	83108085	1	None	None
9	FAM122A	ENSG00000187866	ENST00000394264	protein_coding	KNOWN	CCDS6623	23490	864	287	71394964	71398609	1	C9orf42	MGC17347
15	RAB11A	ENSG00000103769	ENST00000569304	processed_transcript	PUTATIVE	None	9760	None	None	66018392	66180261	1	None	YL8
15	RAB11A	ENSG00000103769	ENST00000563580	processed_transcript	PUTATIVE	None	9760	None	None	66084785	66152089	1	None	YL8
15	RAB11A	ENSG00000103769	ENST00000568850	processed_transcript	KNOWN	None	9760	None	None	66084785	66170157	1	None	YL8
15	RAB11A	ENSG00000103769	ENST00000564910	protein_coding	NOVEL	None	9760	441	146	66161794	66180585	1	None	YL8
15	RAB11A	ENSG00000103769	ENST00000261890	protein_coding	KNOWN	CCDS10212	9760	651	216	66161796	66184329	1	None	YL8
15	RAB11A	ENSG00000103769	ENST00000566233	protein_coding	NOVEL	None	9760	466	154	66161802	66180074	1	None	YL8
15	RAB11A	ENSG00000103769	ENST00000565075	protein_coding	NOVEL	None	9760	597	198	66161829	66180197	1	None	YL8
15	RAB11A	ENSG00000103769	ENST00000569896	protein_coding	KNOWN	CCDS58373	9760	468	155	66161879	66180973	1	None	YL8
15	RAB11A	ENSG00000103769	ENST00000567671	protein_coding	PUTATIVE	None	9760	245	80	66162351	66180129	1	None	YL8
15	RAB11A	ENSG00000103769	ENST00000435304	protein_coding	KNOWN	None	9760	468	155	66161830	66180090	1	None	YL8
X	BCAP31	ENSG00000185825	ENST00000345046	protein_coding	KNOWN	CCDS14727	16695	741	246	152965952	152990152	-1	None	DXS1357E, BAP31, 6C6-Ag, CDM
X	BCAP31	ENSG00000185825	ENST00000477175	processed_transcript	KNOWN	None	16695	None	None	152965954	152986351	-1	None	DXS1357E, BAP31, 6C6-Ag, CDM
X	BCAP31	ENSG00000185825	ENST00000458587	protein_coding	KNOWN	CCDS48191	16695	942	313	152965954	152989549	-1	None	DXS1357E, BAP31, 6C6-Ag, CDM
X	BCAP31	ENSG00000185825	ENST00000442093	protein_coding	KNOWN	None	16695	566	187	152968425	152989838	-1	None	DXS1357E, BAP31, 6C6-Ag, CDM
X	BCAP31	ENSG00000185825	ENST00000429550	protein_coding	KNOWN	None	16695	561	186	152968430	152990020	-1	None	DXS1357E, BAP31, 6C6-Ag, CDM
X	BCAP31	ENSG00000185825	ENST00000416815	protein_coding	KNOWN	None	16695	546	181	152968445	152989568	-1	None	DXS1357E, BAP31, 6C6-Ag, CDM
X	BCAP31	ENSG00000185825	ENST00000423827	protein_coding	KNOWN	None	16695	535	177	152968456	152989499	-1	None	DXS1357E, BAP31, 6C6-Ag, CDM
X	BCAP31	ENSG00000185825	ENST00000430088	protein_coding	KNOWN	None	16695	415	137	152969476	152988854	-1	None	DXS1357E, BAP31, 6C6-Ag, CDM
X	BCAP31	ENSG00000185825	ENST00000468947	processed_transcript	KNOWN	None	16695	None	None	152981022	152986612	-1	None	DXS1357E, BAP31, 6C6-Ag, CDM
X	BCAP31	ENSG00000185825	ENST00000441714	protein_coding	KNOWN	CCDS14727	16695	741	246	152965947	152989838	-1	None	DXS1357E, BAP31, 6C6-Ag, CDM
9	PRKACG	ENSG00000165059	ENST00000377276	protein_coding	KNOWN	CCDS6625	9382	1056	351	71627469	71629039	-1	None	PKACg
9	FXN	ENSG00000165060	ENST00000377270	protein_coding	KNOWN	CCDS6626	3951	633	210	71650175	71689129	1	FRDA	FA, FARR, X25, CyaY
9	FXN	ENSG00000165060	ENST00000396366	protein_coding	KNOWN	CCDS43834	3951	591	196	71650678	71687938	1	FRDA	FA, FARR, X25, CyaY
9	FXN	ENSG00000165060	ENST00000498653	protein_coding	PUTATIVE	None	3951	408	135	71651077	71688021	1	FRDA	FA, FARR, X25, CyaY
9	FXN	ENSG00000165060	ENST00000484259	protein_coding	NOVEL	None	3951	325	107	71661323	71687712	1	FRDA	FA, FARR, X25, CyaY
9	FXN	ENSG00000165060	ENST00000396364	protein_coding	KNOWN	CCDS55313	3951	516	171	71650479	71715094	1	FRDA	FA, FARR, X25, CyaY
15	RPS17L	ENSG00000182774	ENST00000330244	protein_coding	KNOWN	CCDS53967	40029	408	135	83205504	83209315	-1	None	None
15	RPS17L	ENSG00000182774	ENST00000560229	retained_intron	KNOWN	None	40029	None	None	83205506	83209208	-1	None	None
15	RPS17L	ENSG00000182774	ENST00000561157	protein_coding	PUTATIVE	None	40029	411	136	83205506	83209210	-1	None	None
15	RPS17L	ENSG00000182774	ENST00000558397	non_stop_decay	KNOWN	None	40029	574	190	83205507	83209188	-1	None	None
15	RPS17L	ENSG00000182774	ENST00000561068	nonsense_mediated_decay	KNOWN	None	40029	179	58	83205510	83208882	-1	None	None
15	RPS17L	ENSG00000182774	ENST00000560612	retained_intron	KNOWN	None	40029	None	None	83205514	83208893	-1	None	None
15	RPS17L	ENSG00000182774	ENST00000561440	retained_intron	KNOWN	None	40029	None	None	83205539	83208884	-1	None	None
15	RPS17L	ENSG00000182774	ENST00000560639	retained_intron	KNOWN	None	40029	None	None	83205560	83209203	-1	None	None
15	RPS17L	ENSG00000182774	ENST00000559776	retained_intron	KNOWN	None	40029	None	None	83207416	83209170	-1	None	None
15	RPS17L	ENSG00000182774	ENST00000559273	retained_intron	KNOWN	None	40029	None	None	83208335	83209207	-1	None	None
14	CHURC1	ENSG00000258289	ENST00000549115	protein_coding	KNOWN	CCDS55921	20099	420	139	65381079	65401103	1	C14orf52	My015, FLJ33064
14	CHURC1	ENSG00000258289	ENST00000607599	protein_coding	KNOWN	CCDS32101	20099	423	140	65381079	65402086	1	C14orf52	My015, FLJ33064
14	CHURC1	ENSG00000258289	ENST00000548752	protein_coding	KNOWN	CCDS55922	20099	318	105	65381133	65399038	1	C14orf52	My015, FLJ33064
14	CHURC1	ENSG00000258289	ENST00000552002	protein_coding	KNOWN	None	20099	339	112	65381142	65401103	1	C14orf52	My015, FLJ33064
14	CHURC1	ENSG00000258289	ENST00000551947	protein_coding	PUTATIVE	None	20099	251	82	65381161	65411309	1	C14orf52	My015, FLJ33064
14	CHURC1	ENSG00000258289	ENST00000556089	retained_intron	KNOWN	None	20099	None	None	65381176	65391202	1	C14orf52	My015, FLJ33064
14	CHURC1	ENSG00000258289	ENST00000551093	protein_coding	PUTATIVE	None	20099	379	125	65381195	65410774	1	C14orf52	My015, FLJ33064
14	CHURC1	ENSG00000258289	ENST00000547625	protein_coding	PUTATIVE	None	20099	287	94	65390728	65397655	1	C14orf52	My015, FLJ33064
14	CHURC1	ENSG00000258289	ENST00000359118	protein_coding	KNOWN	None	20099	342	113	65381140	65401913	1	C14orf52	My015, FLJ33064
10	PDSS1	ENSG00000148459	ENST00000376215	protein_coding	KNOWN	CCDS31168	17759	1248	415	26986588	27035727	1	TPRT	TPT, COQ1
10	PDSS1	ENSG00000148459	ENST00000473224	processed_transcript	KNOWN	None	17759	None	None	26994237	27012948	1	TPRT	TPT, COQ1
10	PDSS1	ENSG00000148459	ENST00000491711	nonsense_mediated_decay	KNOWN	None	17759	476	157	27009272	27035470	1	TPRT	TPT, COQ1
10	PDSS1	ENSG00000148459	ENST00000470978	processed_transcript	KNOWN	None	17759	None	None	27023580	27035711	1	TPRT	TPT, COQ1
10	PDSS1	ENSG00000148459	ENST00000376203	protein_coding	KNOWN	None	17759	921	306	26986595	27035724	1	TPRT	TPT, COQ1
4	CCNG2	ENSG00000138764	ENST00000316355	protein_coding	KNOWN	CCDS3581	1593	1035	344	78078304	78091212	1	None	None
4	CCNG2	ENSG00000138764	ENST00000502280	protein_coding	KNOWN	CCDS3581	1593	1035	344	78078363	78087337	1	None	None
4	CCNG2	ENSG00000138764	ENST00000497512	processed_transcript	KNOWN	None	1593	None	None	78078378	78354542	1	None	None
4	CCNG2	ENSG00000138764	ENST00000395640	protein_coding	KNOWN	CCDS3581	1593	1035	344	78079450	78087216	1	None	None
4	CCNG2	ENSG00000138764	ENST00000512918	protein_coding	KNOWN	None	1593	482	159	78079509	78082079	1	None	None
4	CCNG2	ENSG00000138764	ENST00000509972	protein_coding	PUTATIVE	None	1593	915	304	78079579	78086163	1	None	None
4	CCNG2	ENSG00000138764	ENST00000514756	processed_transcript	KNOWN	None	1593	None	None	78108917	78353534	1	None	None
4	CCNG2	ENSG00000138764	ENST00000354403	protein_coding	KNOWN	None	1593	1035	344	78078357	78106262	1	None	None
4	WDR19	ENSG00000157796	ENST00000399820	protein_coding	KNOWN	CCDS47042	18340	4029	1342	39184024	39287430	1	None	Pwdmp, KIAA1638, FLJ23127, ORF26, DYF-2, Oseg6, IFT144, NPHP13
4	WDR19	ENSG00000157796	ENST00000503697	nonsense_mediated_decay	KNOWN	None	18340	300	99	39184124	39217539	1	None	Pwdmp, KIAA1638, FLJ23127, ORF26, DYF-2, Oseg6, IFT144, NPHP13
4	WDR19	ENSG00000157796	ENST00000511729	processed_transcript	KNOWN	None	18340	None	None	39184144	39236451	1	None	Pwdmp, KIAA1638, FLJ23127, ORF26, DYF-2, Oseg6, IFT144, NPHP13
4	WDR19	ENSG00000157796	ENST00000509560	protein_coding	PUTATIVE	None	18340	426	141	39184149	39205342	1	None	Pwdmp, KIAA1638, FLJ23127, ORF26, DYF-2, Oseg6, IFT144, NPHP13
4	WDR19	ENSG00000157796	ENST00000512112	protein_coding	PUTATIVE	None	18340	128	41	39184149	39205347	1	None	Pwdmp, KIAA1638, FLJ23127, ORF26, DYF-2, Oseg6, IFT144, NPHP13
4	WDR19	ENSG00000157796	ENST00000505055	nonsense_mediated_decay	KNOWN	None	18340	237	78	39184149	39207192	1	None	Pwdmp, KIAA1638, FLJ23127, ORF26, DYF-2, Oseg6, IFT144, NPHP13
4	WDR19	ENSG00000157796	ENST00000506869	nonsense_mediated_decay	KNOWN	None	18340	303	100	39184149	39287400	1	None	Pwdmp, KIAA1638, FLJ23127, ORF26, DYF-2, Oseg6, IFT144, NPHP13
4	WDR19	ENSG00000157796	ENST00000502389	retained_intron	KNOWN	None	18340	None	None	39184151	39196401	1	None	Pwdmp, KIAA1638, FLJ23127, ORF26, DYF-2, Oseg6, IFT144, NPHP13
4	WDR19	ENSG00000157796	ENST00000506503	protein_coding	KNOWN	None	18340	1446	481	39184168	39220753	1	None	Pwdmp, KIAA1638, FLJ23127, ORF26, DYF-2, Oseg6, IFT144, NPHP13
4	WDR19	ENSG00000157796	ENST00000512448	retained_intron	KNOWN	None	18340	None	None	39201098	39207735	1	None	Pwdmp, KIAA1638, FLJ23127, ORF26, DYF-2, Oseg6, IFT144, NPHP13
4	WDR19	ENSG00000157796	ENST00000512095	retained_intron	KNOWN	None	18340	None	None	39217502	39276959	1	None	Pwdmp, KIAA1638, FLJ23127, ORF26, DYF-2, Oseg6, IFT144, NPHP13
4	WDR19	ENSG00000157796	ENST00000507228	nonsense_mediated_decay	KNOWN	None	18340	407	134	39230151	39241954	1	None	Pwdmp, KIAA1638, FLJ23127, ORF26, DYF-2, Oseg6, IFT144, NPHP13
4	WDR19	ENSG00000157796	ENST00000515631	processed_transcript	KNOWN	None	18340	None	None	39230175	39236495	1	None	Pwdmp, KIAA1638, FLJ23127, ORF26, DYF-2, Oseg6, IFT144, NPHP13
4	WDR19	ENSG00000157796	ENST00000502718	processed_transcript	PUTATIVE	None	18340	None	None	39236387	39239614	1	None	Pwdmp, KIAA1638, FLJ23127, ORF26, DYF-2, Oseg6, IFT144, NPHP13
4	WDR19	ENSG00000157796	ENST00000512534	retained_intron	KNOWN	None	18340	None	None	39271673	39287429	1	None	Pwdmp, KIAA1638, FLJ23127, ORF26, DYF-2, Oseg6, IFT144, NPHP13
4	WDR19	ENSG00000157796	ENST00000512588	retained_intron	KNOWN	None	18340	None	None	39278582	39287430	1	None	Pwdmp, KIAA1638, FLJ23127, ORF26, DYF-2, Oseg6, IFT144, NPHP13
4	WDR19	ENSG00000157796	ENST00000503733	retained_intron	KNOWN	None	18340	None	None	39278584	39287428	1	None	Pwdmp, KIAA1638, FLJ23127, ORF26, DYF-2, Oseg6, IFT144, NPHP13
4	WDR19	ENSG00000157796	ENST00000510315	retained_intron	KNOWN	None	18340	None	None	39279891	39287256	1	None	Pwdmp, KIAA1638, FLJ23127, ORF26, DYF-2, Oseg6, IFT144, NPHP13
4	WDR19	ENSG00000157796	ENST00000288634	protein_coding	KNOWN	None	18340	3549	1182	39184149	39287400	1	None	Pwdmp, KIAA1638, FLJ23127, ORF26, DYF-2, Oseg6, IFT144, NPHP13
9	TJP2	ENSG00000119139	ENST00000413932	retained_intron	KNOWN	None	11828	None	None	71736209	71737148	1	DFNA51	ZO-2, X104, ZO2
9	TJP2	ENSG00000119139	ENST00000606364	protein_coding	PUTATIVE	None	11828	403	133	71736224	71835932	1	DFNA51	ZO-2, X104, ZO2
9	TJP2	ENSG00000119139	ENST00000377259	protein_coding	PUTATIVE	None	11828	306	101	71766562	71833455	1	DFNA51	ZO-2, X104, ZO2
9	TJP2	ENSG00000119139	ENST00000423935	protein_coding	NOVEL	None	11828	483	160	71766566	71836012	1	DFNA51	ZO-2, X104, ZO2
9	TJP2	ENSG00000119139	ENST00000377245	protein_coding	KNOWN	CCDS6627	11828	3573	1190	71789081	71870120	1	DFNA51	ZO-2, X104, ZO2
9	TJP2	ENSG00000119139	ENST00000348208	protein_coding	NOVEL	CCDS6628	11828	3132	1043	71789193	71870120	1	DFNA51	ZO-2, X104, ZO2
9	TJP2	ENSG00000119139	ENST00000265384	protein_coding	KNOWN	CCDS55314	11828	2982	993	71789210	71863906	1	DFNA51	ZO-2, X104, ZO2
9	TJP2	ENSG00000119139	ENST00000498204	processed_transcript	KNOWN	None	11828	None	None	71861142	71863005	1	DFNA51	ZO-2, X104, ZO2
9	TJP2	ENSG00000119139	ENST00000535702	protein_coding	KNOWN	CCDS55315	11828	3474	1157	71819927	71870124	1	DFNA51	ZO-2, X104, ZO2
9	TJP2	ENSG00000119139	ENST00000539225	protein_coding	KNOWN	CCDS55316	11828	3666	1221	71820078	71870124	1	DFNA51	ZO-2, X104, ZO2
9	TJP2	ENSG00000119139	ENST00000453658	protein_coding	KNOWN	CCDS55317	11828	3063	1020	71736224	71870124	1	DFNA51	ZO-2, X104, ZO2
15	None	ENSG00000260836	ENST00000562833	protein_coding	PUTATIVE	None	None	880	292	83208783	83224682	-1	None	None
15	None	ENSG00000261086	ENST00000568285	protein_coding	PUTATIVE	None	None	204	67	83209620	83231124	1	None	None
15	CPEB1	ENSG00000214575	ENST00000569015	retained_intron	KNOWN	None	21744	None	None	83211951	83225286	-1	None	FLJ13203, CPEB
15	CPEB1	ENSG00000214575	ENST00000450751	protein_coding	KNOWN	CCDS45330	21744	1461	486	83211951	83316356	-1	None	FLJ13203, CPEB
15	CPEB1	ENSG00000214575	ENST00000563800	protein_coding	PUTATIVE	None	21744	1767	588	83211953	83298936	-1	None	FLJ13203, CPEB
15	CPEB1	ENSG00000214575	ENST00000398591	protein_coding	KNOWN	CCDS42072	21744	1476	491	83212573	83240573	-1	None	FLJ13203, CPEB
15	CPEB1	ENSG00000214575	ENST00000562019	protein_coding	KNOWN	None	21744	1701	566	83212573	83297220	-1	None	FLJ13203, CPEB
15	CPEB1	ENSG00000214575	ENST00000423133	protein_coding	KNOWN	CCDS45330	21744	1461	486	83213023	83240559	-1	None	FLJ13203, CPEB
15	CPEB1	ENSG00000214575	ENST00000568128	protein_coding	KNOWN	CCDS45329	21744	1686	561	83213023	83316728	-1	None	FLJ13203, CPEB
15	CPEB1	ENSG00000214575	ENST00000564522	protein_coding	KNOWN	CCDS45330	21744	1461	486	83213045	83240509	-1	None	FLJ13203, CPEB
15	CPEB1	ENSG00000214575	ENST00000261723	protein_coding	PUTATIVE	None	21744	1695	564	83213045	83241961	-1	None	FLJ13203, CPEB
15	CPEB1	ENSG00000214575	ENST00000568757	protein_coding	KNOWN	CCDS45330	21744	1461	486	83213108	83316110	-1	None	FLJ13203, CPEB
15	CPEB1	ENSG00000214575	ENST00000570229	nonsense_mediated_decay	KNOWN	None	21744	417	138	83213203	83240534	-1	None	FLJ13203, CPEB
15	CPEB1	ENSG00000214575	ENST00000570205	retained_intron	KNOWN	None	21744	None	None	83226272	83240197	-1	None	FLJ13203, CPEB
15	CPEB1	ENSG00000214575	ENST00000568994	protein_coding	KNOWN	None	21744	342	113	83226549	83240828	-1	None	FLJ13203, CPEB
15	CPEB1	ENSG00000214575	ENST00000569257	protein_coding	KNOWN	None	21744	107	34	83240141	83315874	-1	None	FLJ13203, CPEB
15	CPEB1	ENSG00000214575	ENST00000567678	protein_coding	KNOWN	None	21744	52	16	83240196	83316254	-1	None	FLJ13203, CPEB
15	CPEB1	ENSG00000214575	ENST00000566716	processed_transcript	KNOWN	None	21744	None	None	83296040	83317612	-1	None	FLJ13203, CPEB
15	CPEB1	ENSG00000214575	ENST00000563519	processed_transcript	KNOWN	None	21744	None	None	83301933	83317129	-1	None	FLJ13203, CPEB
15	CPEB1	ENSG00000214575	ENST00000398592	protein_coding	KNOWN	None	21744	1008	335	83213203	83240534	-1	None	FLJ13203, CPEB
14	RIN3	ENSG00000100599	ENST00000216487	protein_coding	KNOWN	CCDS32144	18751	2958	985	92980118	93155339	1	None	FLJ22439
14	RIN3	ENSG00000100599	ENST00000555589	nonsense_mediated_decay	KNOWN	None	18751	480	159	92980137	93154386	1	None	FLJ22439
14	RIN3	ENSG00000100599	ENST00000557762	protein_coding	PUTATIVE	None	18751	237	78	92980148	92981851	1	None	FLJ22439
14	RIN3	ENSG00000100599	ENST00000556385	retained_intron	KNOWN	None	18751	None	None	93022185	93082373	1	None	FLJ22439
14	RIN3	ENSG00000100599	ENST00000418924	processed_transcript	KNOWN	None	18751	None	None	93042579	93155332	1	None	FLJ22439
14	RIN3	ENSG00000100599	ENST00000555908	processed_transcript	KNOWN	None	18751	None	None	93042589	93052925	1	None	FLJ22439
14	RIN3	ENSG00000100599	ENST00000555891	retained_intron	KNOWN	None	18751	None	None	93043640	93052925	1	None	FLJ22439
14	RIN3	ENSG00000100599	ENST00000554888	processed_transcript	PUTATIVE	None	18751	None	None	93081818	93111535	1	None	FLJ22439
14	RIN3	ENSG00000100599	ENST00000553992	processed_transcript	PUTATIVE	None	18751	None	None	93117263	93118460	1	None	FLJ22439
14	RIN3	ENSG00000100599	ENST00000556418	protein_coding	KNOWN	None	18751	1261	419	93118846	93154394	1	None	FLJ22439
14	RIN3	ENSG00000100599	ENST00000553959	processed_transcript	KNOWN	None	18751	None	None	93125730	93154394	1	None	FLJ22439
X	COL4A5	ENSG00000188153	ENST00000477429	processed_transcript	KNOWN	None	2207	None	None	107683074	107686321	1	ASLN, ATS	None
X	COL4A5	ENSG00000188153	ENST00000328300	protein_coding	KNOWN	CCDS35366	2207	5076	1691	107683112	107940771	1	ASLN, ATS	None
X	COL4A5	ENSG00000188153	ENST00000361603	protein_coding	KNOWN	CCDS14543	2207	5058	1685	107683112	107940775	1	ASLN, ATS	None
X	COL4A5	ENSG00000188153	ENST00000470339	retained_intron	KNOWN	None	2207	None	None	107683172	107812265	1	ASLN, ATS	None
X	COL4A5	ENSG00000188153	ENST00000483338	retained_intron	KNOWN	None	2207	None	None	107825722	107870499	1	ASLN, ATS	None
X	COL4A5	ENSG00000188153	ENST00000505728	protein_coding	PUTATIVE	None	2207	524	173	107865906	107869785	1	ASLN, ATS	None
X	COL4A5	ENSG00000188153	ENST00000489230	retained_intron	KNOWN	None	2207	None	None	107913265	107930730	1	ASLN, ATS	None
X	COL4A5	ENSG00000188153	ENST00000510690	processed_transcript	KNOWN	None	2207	None	None	107917682	107920809	1	ASLN, ATS	None
X	COL4A5	ENSG00000188153	ENST00000515658	protein_coding	PUTATIVE	None	2207	347	114	107925107	107939992	1	ASLN, ATS	None
X	COL4A5	ENSG00000188153	ENST00000504541	protein_coding	PUTATIVE	None	2207	222	73	107936052	107940166	1	ASLN, ATS	None
X	ABCD1	ENSG00000101986	ENST00000218104	protein_coding	KNOWN	CCDS14728	61	2238	745	152990323	153010216	1	ALD	AMN, ALDP, adrenoleukodystrophy
X	ABCD1	ENSG00000101986	ENST00000370129	protein_coding	PUTATIVE	None	61	684	227	152991272	152995352	1	ALD	AMN, ALDP, adrenoleukodystrophy
X	ABCD1	ENSG00000101986	ENST00000443684	protein_coding	KNOWN	None	61	668	221	153000798	153006058	1	ALD	AMN, ALDP, adrenoleukodystrophy
4	CXCL13	ENSG00000156234	ENST00000286758	protein_coding	KNOWN	CCDS3582	10639	330	109	78432907	78532988	1	SCYB13	BLC, BCA-1, BLR1L, ANGIE, ANGIE2
4	CXCL13	ENSG00000156234	ENST00000506590	retained_intron	KNOWN	None	10639	None	None	78526986	78532076	1	SCYB13	BLC, BCA-1, BLR1L, ANGIE, ANGIE2
20	None	ENSG00000255438	ENST00000526566	antisense	KNOWN	None	None	None	None	46306645	46315041	1	None	None
15	CHST14	ENSG00000169105	ENST00000559991	protein_coding	NOVEL	None	24464	1056	351	40763285	40765327	1	D4ST1	HD4ST, D4ST-1
15	CHST14	ENSG00000169105	ENST00000306243	protein_coding	KNOWN	CCDS10059	24464	1131	376	40763160	40765353	1	D4ST1	HD4ST, D4ST-1
14	CHURC1-FNTB	ENSG00000125954	ENST00000552941	nonsense_mediated_decay	KNOWN	None	42960	323	106	65381203	65528521	1	None	None
14	CHURC1-FNTB	ENSG00000125954	ENST00000549987	protein_coding	KNOWN	None	42960	1419	472	65381211	65528079	1	None	None
14	CHURC1-FNTB	ENSG00000125954	ENST00000553743	protein_coding	NOVEL	None	42960	207	68	65390754	65482393	1	None	None
14	CHURC1-FNTB	ENSG00000125954	ENST00000551823	nonsense_mediated_decay	KNOWN	None	42960	258	85	65390754	65482401	1	None	None
14	CHURC1-FNTB	ENSG00000125954	ENST00000447296	protein_coding	KNOWN	None	42960	1416	471	65381211	65528079	1	None	None
14	CHURC1-FNTB	ENSG00000125954	ENST00000542227	protein_coding	KNOWN	None	42960	1176	391	65381203	65528521	1	None	None
14	CHURC1-FNTB	ENSG00000125954	ENST00000448390	protein_coding	KNOWN	None	42960	582	193	65482301	65529368	1	None	None
10	ABI1	ENSG00000136754	ENST00000376170	protein_coding	KNOWN	CCDS53499	11320	1356	451	27035522	27149821	-1	SSH3BP1	E3B1, ABI-1
10	ABI1	ENSG00000136754	ENST00000376142	protein_coding	KNOWN	CCDS7150	11320	1527	508	27035522	27149864	-1	SSH3BP1	E3B1, ABI-1
10	ABI1	ENSG00000136754	ENST00000359188	protein_coding	KNOWN	CCDS53500	11320	1443	480	27035522	27149864	-1	SSH3BP1	E3B1, ABI-1
10	ABI1	ENSG00000136754	ENST00000376139	protein_coding	KNOWN	CCDS31169	11320	1431	476	27035522	27149900	-1	SSH3BP1	E3B1, ABI-1
10	ABI1	ENSG00000136754	ENST00000376160	protein_coding	KNOWN	None	11320	1428	475	27035522	27149902	-1	SSH3BP1	E3B1, ABI-1
10	ABI1	ENSG00000136754	ENST00000376166	protein_coding	KNOWN	CCDS53498	11320	1341	446	27035522	27149915	-1	SSH3BP1	E3B1, ABI-1
10	ABI1	ENSG00000136754	ENST00000376138	protein_coding	KNOWN	CCDS31170	11320	1359	452	27035522	27149959	-1	SSH3BP1	E3B1, ABI-1
10	ABI1	ENSG00000136754	ENST00000376140	protein_coding	KNOWN	CCDS31171	11320	1446	481	27037499	27149792	-1	SSH3BP1	E3B1, ABI-1
10	ABI1	ENSG00000136754	ENST00000473481	processed_transcript	KNOWN	None	11320	None	None	27065555	27112219	-1	SSH3BP1	E3B1, ABI-1
10	ABI1	ENSG00000136754	ENST00000355394	protein_coding	KNOWN	None	11320	1530	509	27035525	27150016	-1	SSH3BP1	E3B1, ABI-1
10	ABI1	ENSG00000136754	ENST00000346832	protein_coding	KNOWN	CCDS53501	11320	1491	496	27035525	27150016	-1	SSH3BP1	E3B1, ABI-1
10	ABI1	ENSG00000136754	ENST00000376134	protein_coding	KNOWN	None	11320	1449	482	27035525	27150016	-1	SSH3BP1	E3B1, ABI-1
10	ABI1	ENSG00000136754	ENST00000376137	protein_coding	KNOWN	None	11320	1272	423	27035525	27150016	-1	SSH3BP1	E3B1, ABI-1
10	ABI1	ENSG00000136754	ENST00000536334	protein_coding	KNOWN	None	11320	1185	394	27035525	27150016	-1	SSH3BP1	E3B1, ABI-1
10	ABI1	ENSG00000136754	ENST00000490841	protein_coding	KNOWN	CCDS53497	11320	990	329	27035525	27150016	-1	SSH3BP1	E3B1, ABI-1
8	None	ENSG00000213002	ENST00000391684	protein_coding	NOVEL	None	None	147	48	71485681	71486671	1	None	None
8	NDUFB9	ENSG00000147684	ENST00000276689	protein_coding	KNOWN	CCDS6352	7704	540	179	125551344	125562220	1	None	B22, UQOR22, LYRM3
8	NDUFB9	ENSG00000147684	ENST00000518008	protein_coding	PUTATIVE	None	7704	537	178	125551372	125559679	1	None	B22, UQOR22, LYRM3
8	NDUFB9	ENSG00000147684	ENST00000522532	protein_coding	NOVEL	None	7704	666	221	125551381	125580751	1	None	B22, UQOR22, LYRM3
8	NDUFB9	ENSG00000147684	ENST00000517367	protein_coding	NOVEL	None	7704	507	168	125551385	125562219	1	None	B22, UQOR22, LYRM3
8	NDUFB9	ENSG00000147684	ENST00000518657	retained_intron	KNOWN	None	7704	None	None	125555181	125562219	1	None	B22, UQOR22, LYRM3
8	NDUFB9	ENSG00000147684	ENST00000524241	retained_intron	KNOWN	None	7704	None	None	125558919	125562219	1	None	B22, UQOR22, LYRM3
8	NDUFB9	ENSG00000147684	ENST00000517830	processed_transcript	KNOWN	None	7704	None	None	125562015	125564559	1	None	B22, UQOR22, LYRM3
8	None	ENSG00000246366	ENST00000499227	protein_coding	PUTATIVE	None	None	633	210	71520812	71575514	1	None	None
8	None	ENSG00000246366	ENST00000519358	processed_transcript	KNOWN	None	None	None	None	71520827	71545031	1	None	None
8	None	ENSG00000246366	ENST00000518553	processed_transcript	KNOWN	None	None	None	None	71520839	71566216	1	None	None
8	None	ENSG00000246366	ENST00000518152	processed_transcript	KNOWN	None	None	None	None	71520917	71558725	1	None	None
8	None	ENSG00000246366	ENST00000519167	processed_transcript	KNOWN	None	None	None	None	71526170	71558944	1	None	None
4	CNOT6L	ENSG00000138767	ENST00000504123	protein_coding	KNOWN	None	18042	1668	555	78634541	78740522	-1	None	DKFZp434K098
4	CNOT6L	ENSG00000138767	ENST00000515506	protein_coding	PUTATIVE	None	18042	1408	468	78639175	78740217	-1	None	DKFZp434K098
4	CNOT6L	ENSG00000138767	ENST00000512485	protein_coding	PUTATIVE	None	18042	1689	562	78641384	78740769	-1	None	DKFZp434K098
4	CNOT6L	ENSG00000138767	ENST00000504804	nonsense_mediated_decay	KNOWN	None	18042	141	46	78641392	78740530	-1	None	DKFZp434K098
4	CNOT6L	ENSG00000138767	ENST00000505983	protein_coding	PUTATIVE	None	18042	781	259	78647320	78663626	-1	None	DKFZp434K098
4	CNOT6L	ENSG00000138767	ENST00000508371	retained_intron	KNOWN	None	18042	None	None	78650031	78653035	-1	None	DKFZp434K098
4	CNOT6L	ENSG00000138767	ENST00000506166	processed_transcript	KNOWN	None	18042	None	None	78663357	78740520	-1	None	DKFZp434K098
4	CNOT6L	ENSG00000138767	ENST00000515441	protein_coding	PUTATIVE	None	18042	490	162	78678016	78740544	-1	None	DKFZp434K098
4	CNOT6L	ENSG00000138767	ENST00000264903	protein_coding	KNOWN	CCDS47082	18042	1668	555	78634541	78740544	-1	None	DKFZp434K098
6	SLC17A3	ENSG00000124564	ENST00000481949	protein_coding	KNOWN	None	10931	299	98	25833294	25850105	-1	None	NPT4
6	SLC17A3	ENSG00000124564	ENST00000505420	protein_coding	KNOWN	None	10931	156	51	25841533	25849622	-1	None	NPT4
6	SLC17A3	ENSG00000124564	ENST00000397060	protein_coding	KNOWN	CCDS47385	10931	1497	498	25845084	25874471	-1	None	NPT4
6	SLC17A3	ENSG00000124564	ENST00000361703	protein_coding	KNOWN	CCDS4566	10931	1263	420	25845328	25874440	-1	None	NPT4
6	SLC17A3	ENSG00000124564	ENST00000360657	protein_coding	KNOWN	CCDS4566	10931	1263	420	25845328	25882514	-1	None	NPT4
6	SLC17A3	ENSG00000124564	ENST00000509714	retained_intron	KNOWN	None	10931	None	None	25850042	25868717	-1	None	NPT4
6	SLC17A3	ENSG00000124564	ENST00000506105	nonsense_mediated_decay	KNOWN	None	10931	339	112	25850141	25874463	-1	None	NPT4
6	SLC17A3	ENSG00000124564	ENST00000503922	retained_intron	KNOWN	None	10931	None	None	25850406	25874466	-1	None	NPT4
6	SLC17A3	ENSG00000124564	ENST00000308453	retained_intron	KNOWN	None	10931	None	None	25850753	25868688	-1	None	NPT4
6	SLC17A3	ENSG00000124564	ENST00000449356	nonsense_mediated_decay	KNOWN	None	10931	339	112	25851001	25868683	-1	None	NPT4
X	PLXNB3	ENSG00000198753	ENST00000361971	protein_coding	KNOWN	CCDS14729	9105	5730	1909	153029711	153044796	1	PLXN6	PLEXR, PLEXB3
X	PLXNB3	ENSG00000198753	ENST00000411613	protein_coding	KNOWN	None	9105	774	257	153040214	153042411	1	PLXN6	PLEXR, PLEXB3
X	PLXNB3	ENSG00000198753	ENST00000482654	processed_transcript	KNOWN	None	9105	None	None	153040384	153041854	1	PLXN6	PLEXR, PLEXB3
X	PLXNB3	ENSG00000198753	ENST00000455214	protein_coding	KNOWN	None	9105	489	162	153041431	153042487	1	PLXN6	PLEXR, PLEXB3
X	PLXNB3	ENSG00000198753	ENST00000485980	processed_transcript	KNOWN	None	9105	None	None	153042697	153043781	1	PLXN6	PLEXR, PLEXB3
X	PLXNB3	ENSG00000198753	ENST00000448847	protein_coding	KNOWN	None	9105	526	174	153042972	153043756	1	PLXN6	PLEXR, PLEXB3
X	PLXNB3	ENSG00000198753	ENST00000469190	processed_transcript	KNOWN	None	9105	None	None	153043646	153044795	1	PLXN6	PLEXR, PLEXB3
X	PLXNB3	ENSG00000198753	ENST00000472415	processed_transcript	KNOWN	None	9105	None	None	153043837	153044795	1	PLXN6	PLEXR, PLEXB3
X	PLXNB3	ENSG00000198753	ENST00000538776	protein_coding	KNOWN	None	9105	4689	1562	153029726	153044795	1	PLXN6	PLEXR, PLEXB3
X	PLXNB3	ENSG00000198753	ENST00000538282	protein_coding	KNOWN	None	9105	2967	988	153030957	153040693	1	PLXN6	PLEXR, PLEXB3
X	PLXNB3	ENSG00000198753	ENST00000538543	protein_coding	KNOWN	None	9105	675	224	153029726	153037518	1	PLXN6	PLEXR, PLEXB3
X	PLXNB3	ENSG00000198753	ENST00000538966	protein_coding	KNOWN	CCDS55536	9105	5799	1932	153029651	153044801	1	PLXN6	PLEXR, PLEXB3
8	MTSS1	ENSG00000170873	ENST00000378017	protein_coding	KNOWN	None	20443	2193	730	125563031	125740259	-1	None	KIAA0429, MIMA, MIMB, MIM
8	MTSS1	ENSG00000170873	ENST00000518547	protein_coding	KNOWN	CCDS6353	20443	2268	755	125563031	125740670	-1	None	KIAA0429, MIMA, MIMB, MIM
8	MTSS1	ENSG00000170873	ENST00000520771	retained_intron	KNOWN	None	20443	None	None	125563217	125568813	-1	None	KIAA0429, MIMA, MIMB, MIM
8	MTSS1	ENSG00000170873	ENST00000519168	protein_coding	NOVEL	None	20443	1630	542	125565041	125577968	-1	None	KIAA0429, MIMA, MIMB, MIM
8	MTSS1	ENSG00000170873	ENST00000325064	protein_coding	NOVEL	None	20443	2280	759	125565054	125740514	-1	None	KIAA0429, MIMA, MIMB, MIM
8	MTSS1	ENSG00000170873	ENST00000431961	protein_coding	PUTATIVE	None	20443	1422	473	125565129	125581082	-1	None	KIAA0429, MIMA, MIMB, MIM
8	MTSS1	ENSG00000170873	ENST00000523587	processed_transcript	KNOWN	None	20443	None	None	125565131	125575668	-1	None	KIAA0429, MIMA, MIMB, MIM
8	MTSS1	ENSG00000170873	ENST00000524090	protein_coding	NOVEL	None	20443	1938	645	125565143	125581045	-1	None	KIAA0429, MIMA, MIMB, MIM
8	MTSS1	ENSG00000170873	ENST00000523179	protein_coding	PUTATIVE	None	20443	857	284	125568040	125580779	-1	None	KIAA0429, MIMA, MIMB, MIM
8	MTSS1	ENSG00000170873	ENST00000520094	processed_transcript	KNOWN	None	20443	None	None	125568054	125570236	-1	None	KIAA0429, MIMA, MIMB, MIM
8	MTSS1	ENSG00000170873	ENST00000522722	processed_transcript	KNOWN	None	20443	None	None	125568502	125577043	-1	None	KIAA0429, MIMA, MIMB, MIM
8	MTSS1	ENSG00000170873	ENST00000522118	protein_coding	PUTATIVE	None	20443	623	206	125569929	125581062	-1	None	KIAA0429, MIMA, MIMB, MIM
8	MTSS1	ENSG00000170873	ENST00000519226	retained_intron	KNOWN	None	20443	None	None	125575208	125578450	-1	None	KIAA0429, MIMA, MIMB, MIM
8	MTSS1	ENSG00000170873	ENST00000522162	protein_coding	PUTATIVE	None	20443	553	183	125580669	125739857	-1	None	KIAA0429, MIMA, MIMB, MIM
8	MTSS1	ENSG00000170873	ENST00000529463	processed_transcript	KNOWN	None	20443	None	None	125597328	125685754	-1	None	KIAA0429, MIMA, MIMB, MIM
8	MTSS1	ENSG00000170873	ENST00000519671	processed_transcript	KNOWN	None	20443	None	None	125601906	125631720	-1	None	KIAA0429, MIMA, MIMB, MIM
8	MTSS1	ENSG00000170873	ENST00000524243	processed_transcript	KNOWN	None	20443	None	None	125710280	125740239	-1	None	KIAA0429, MIMA, MIMB, MIM
8	MTSS1	ENSG00000170873	ENST00000472084	retained_intron	KNOWN	None	20443	None	None	125711331	125740259	-1	None	KIAA0429, MIMA, MIMB, MIM
8	MTSS1	ENSG00000170873	ENST00000354184	protein_coding	KNOWN	None	20443	1422	473	125563031	125740730	-1	None	KIAA0429, MIMA, MIMB, MIM
8	MTSS1	ENSG00000170873	ENST00000395508	protein_coding	KNOWN	None	20443	1590	529	125565041	125577968	-1	None	KIAA0429, MIMA, MIMB, MIM
15	MEGF11	ENSG00000157890	ENST00000409699	protein_coding	KNOWN	CCDS10213	29635	3135	1044	66187417	66546085	-1	None	KIAA1781, DKFZp434L121
15	MEGF11	ENSG00000157890	ENST00000288745	protein_coding	KNOWN	None	29635	2910	969	66187634	66546075	-1	None	KIAA1781, DKFZp434L121
15	MEGF11	ENSG00000157890	ENST00000478721	processed_transcript	KNOWN	None	29635	None	None	66191071	66206456	-1	None	KIAA1781, DKFZp434L121
15	MEGF11	ENSG00000157890	ENST00000490495	nonsense_mediated_decay	KNOWN	None	29635	1740	579	66194110	66263027	-1	None	KIAA1781, DKFZp434L121
15	MEGF11	ENSG00000157890	ENST00000489275	processed_transcript	KNOWN	None	29635	None	None	66194534	66204538	-1	None	KIAA1781, DKFZp434L121
15	MEGF11	ENSG00000157890	ENST00000562154	processed_transcript	KNOWN	None	29635	None	None	66198075	66202109	-1	None	KIAA1781, DKFZp434L121
15	MEGF11	ENSG00000157890	ENST00000493192	processed_transcript	KNOWN	None	29635	None	None	66198122	66204816	-1	None	KIAA1781, DKFZp434L121
15	MEGF11	ENSG00000157890	ENST00000478590	retained_intron	KNOWN	None	29635	None	None	66205864	66207936	-1	None	KIAA1781, DKFZp434L121
15	MEGF11	ENSG00000157890	ENST00000564573	processed_transcript	KNOWN	None	29635	None	None	66214030	66214713	-1	None	KIAA1781, DKFZp434L121
15	MEGF11	ENSG00000157890	ENST00000455812	protein_coding	PUTATIVE	None	29635	683	226	66222059	66263558	-1	None	KIAA1781, DKFZp434L121
15	MEGF11	ENSG00000157890	ENST00000484618	processed_transcript	KNOWN	None	29635	None	None	66257290	66263568	-1	None	KIAA1781, DKFZp434L121
15	MEGF11	ENSG00000157890	ENST00000474398	retained_intron	KNOWN	None	29635	None	None	66257385	66263576	-1	None	KIAA1781, DKFZp434L121
15	MEGF11	ENSG00000157890	ENST00000469917	processed_transcript	KNOWN	None	29635	None	None	66257513	66263602	-1	None	KIAA1781, DKFZp434L121
15	MEGF11	ENSG00000157890	ENST00000422354	protein_coding	KNOWN	CCDS10213	29635	3135	1044	66187634	66546075	-1	None	KIAA1781, DKFZp434L121
15	MEGF11	ENSG00000157890	ENST00000395625	protein_coding	KNOWN	None	29635	2910	969	66187634	66546075	-1	None	KIAA1781, DKFZp434L121
15	MEGF11	ENSG00000157890	ENST00000395614	protein_coding	KNOWN	None	29635	414	137	66201413	66545995	-1	None	KIAA1781, DKFZp434L121
15	MEGF11	ENSG00000157890	ENST00000360698	protein_coding	KNOWN	None	29635	2628	875	66187634	66546075	-1	None	KIAA1781, DKFZp434L121
14	LGMN	ENSG00000100600	ENST00000555699	protein_coding	PUTATIVE	None	9472	1119	372	93170152	93214957	-1	PRSC1	LGMN1
14	LGMN	ENSG00000100600	ENST00000334869	protein_coding	KNOWN	CCDS9904	9472	1302	433	93170154	93215047	-1	PRSC1	LGMN1
14	LGMN	ENSG00000100600	ENST00000555169	protein_coding	PUTATIVE	None	9472	275	90	93170167	93183804	-1	PRSC1	LGMN1
14	LGMN	ENSG00000100600	ENST00000557434	protein_coding	NOVEL	None	9472	1131	376	93170184	93214990	-1	PRSC1	LGMN1
14	LGMN	ENSG00000100600	ENST00000393218	protein_coding	KNOWN	CCDS9904	9472	1302	433	93170189	93215024	-1	PRSC1	LGMN1
14	LGMN	ENSG00000100600	ENST00000557609	nonsense_mediated_decay	KNOWN	None	9472	354	117	93170192	93214948	-1	PRSC1	LGMN1
14	LGMN	ENSG00000100600	ENST00000556790	retained_intron	KNOWN	None	9472	None	None	93170621	93171250	-1	PRSC1	LGMN1
14	LGMN	ENSG00000100600	ENST00000557725	retained_intron	KNOWN	None	9472	None	None	93172698	93179179	-1	PRSC1	LGMN1
14	LGMN	ENSG00000100600	ENST00000556097	nonsense_mediated_decay	KNOWN	None	9472	672	223	93178004	93214957	-1	PRSC1	LGMN1
14	LGMN	ENSG00000100600	ENST00000554189	nonsense_mediated_decay	KNOWN	None	9472	147	48	93180197	93214972	-1	PRSC1	LGMN1
14	LGMN	ENSG00000100600	ENST00000553802	protein_coding	NOVEL	None	9472	405	134	93180769	93214972	-1	PRSC1	LGMN1
14	LGMN	ENSG00000100600	ENST00000557694	retained_intron	KNOWN	None	9472	None	None	93182089	93214957	-1	PRSC1	LGMN1
14	LGMN	ENSG00000100600	ENST00000554397	protein_coding	KNOWN	None	9472	236	77	93185092	93214972	-1	PRSC1	LGMN1
14	LGMN	ENSG00000100600	ENST00000554919	protein_coding	KNOWN	None	9472	236	77	93185092	93214972	-1	PRSC1	LGMN1
14	LGMN	ENSG00000100600	ENST00000554080	protein_coding	KNOWN	None	9472	173	56	93185155	93214972	-1	PRSC1	LGMN1
14	LGMN	ENSG00000100600	ENST00000553371	protein_coding	KNOWN	None	9472	172	56	93185156	93214972	-1	PRSC1	LGMN1
14	LGMN	ENSG00000100600	ENST00000557315	retained_intron	KNOWN	None	9472	None	None	93198741	93214969	-1	PRSC1	LGMN1
14	LGMN	ENSG00000100600	ENST00000553918	protein_coding	KNOWN	None	9472	59	18	93199073	93214915	-1	PRSC1	LGMN1
14	LGMN	ENSG00000100600	ENST00000557034	processed_transcript	PUTATIVE	None	9472	None	None	93207778	93214971	-1	PRSC1	LGMN1
4	MRPL1	ENSG00000169288	ENST00000315567	protein_coding	KNOWN	CCDS3583	14275	978	325	78783674	78873944	1	None	BM022
4	MRPL1	ENSG00000169288	ENST00000515625	processed_transcript	KNOWN	None	14275	None	None	78783984	78804652	1	None	BM022
4	MRPL1	ENSG00000169288	ENST00000511521	processed_transcript	KNOWN	None	14275	None	None	78784022	78806472	1	None	BM022
4	MRPL1	ENSG00000169288	ENST00000502384	protein_coding	PUTATIVE	None	14275	694	230	78804393	78873903	1	None	BM022
4	MRPL1	ENSG00000169288	ENST00000506674	processed_transcript	KNOWN	None	14275	None	None	78804403	78830466	1	None	BM022
4	MRPL1	ENSG00000169288	ENST00000504901	protein_coding	NOVEL	None	14275	359	118	78829479	78873937	1	None	BM022
8	LACTB2	ENSG00000147592	ENST00000522447	protein_coding	KNOWN	CCDS6208	18512	867	288	71547553	71581409	-1	None	CGI-83
8	LACTB2	ENSG00000147592	ENST00000276590	protein_coding	KNOWN	CCDS6208	18512	867	288	71549491	71581392	-1	None	CGI-83
8	LACTB2	ENSG00000147592	ENST00000517601	processed_transcript	KNOWN	None	18512	None	None	71550786	71556487	-1	None	CGI-83
8	LACTB2	ENSG00000147592	ENST00000522558	retained_intron	KNOWN	None	18512	None	None	71552808	71556363	-1	None	CGI-83
8	XKR9	ENSG00000221947	ENST00000520092	nonsense_mediated_decay	KNOWN	None	20937	378	125	71581600	71646726	1	None	None
8	XKR9	ENSG00000221947	ENST00000408926	protein_coding	KNOWN	CCDS34905	20937	1122	373	71581600	71648177	1	None	None
8	XKR9	ENSG00000221947	ENST00000520030	protein_coding	KNOWN	CCDS34905	20937	1122	373	71581633	71646725	1	None	None
8	XKR9	ENSG00000221947	ENST00000520273	processed_transcript	KNOWN	None	20937	None	None	71581643	71702606	1	None	None
8	XKR9	ENSG00000221947	ENST00000519350	protein_coding	KNOWN	None	20937	267	88	71582808	71593560	1	None	None
8	EYA1	ENSG00000104313	ENST00000388742	protein_coding	KNOWN	CCDS34906	3519	1779	592	72109668	72268913	-1	BOR	None
8	EYA1	ENSG00000104313	ENST00000465115	nonsense_mediated_decay	KNOWN	None	3519	639	212	72109668	72273966	-1	BOR	None
8	EYA1	ENSG00000104313	ENST00000340726	protein_coding	KNOWN	CCDS34906	3519	1779	592	72109668	72274467	-1	BOR	None
8	EYA1	ENSG00000104313	ENST00000303824	protein_coding	NOVEL	None	3519	1761	586	72109674	72274095	-1	BOR	None
8	EYA1	ENSG00000104313	ENST00000388741	protein_coding	NOVEL	None	3519	1677	558	72110363	72274371	-1	BOR	None
8	EYA1	ENSG00000104313	ENST00000388743	protein_coding	NOVEL	None	3519	1776	591	72111304	72268844	-1	BOR	None
8	EYA1	ENSG00000104313	ENST00000496494	retained_intron	KNOWN	None	3519	None	None	72111476	72268868	-1	BOR	None
8	EYA1	ENSG00000104313	ENST00000419131	protein_coding	NOVEL	CCDS34907	3519	1674	557	72111555	72268721	-1	BOR	None
8	EYA1	ENSG00000104313	ENST00000493349	nonsense_mediated_decay	KNOWN	None	3519	126	41	72127730	72211343	-1	BOR	None
8	EYA1	ENSG00000104313	ENST00000422295	retained_intron	KNOWN	None	3519	None	None	72229894	72234696	-1	BOR	None
8	EYA1	ENSG00000104313	ENST00000388740	protein_coding	KNOWN	CCDS47873	3519	1680	559	72109670	72268979	-1	BOR	None
4	FREM3	ENSG00000183090	ENST00000329798	protein_coding	PUTATIVE	CCDS54808	25172	6420	2139	144498455	144621828	-1	None	None
4	FREM3	ENSG00000183090	ENST00000508899	processed_transcript	KNOWN	None	25172	None	None	144522972	144542205	-1	None	None
14	GPX2	ENSG00000176153	ENST00000553522	nonsense_mediated_decay	KNOWN	None	4554	237	78	65405870	65409463	-1	None	GSHPX-GI
14	GPX2	ENSG00000176153	ENST00000389614	protein_coding	KNOWN	CCDS41964	4554	573	190	65405876	65409531	-1	None	GSHPX-GI
14	GPX2	ENSG00000176153	ENST00000557049	protein_coding	PUTATIVE	None	4554	405	134	65406135	65409438	-1	None	GSHPX-GI
14	GPX2	ENSG00000176153	ENST00000557323	nonsense_mediated_decay	KNOWN	None	4554	237	78	65406226	65409464	-1	None	GSHPX-GI
14	RAB15	ENSG00000139998	ENST00000267512	protein_coding	KNOWN	CCDS9768	20150	627	208	65412532	65438875	-1	None	None
14	RAB15	ENSG00000139998	ENST00000533601	protein_coding	KNOWN	None	20150	639	212	65412534	65439132	-1	None	None
14	RAB15	ENSG00000139998	ENST00000585059	nonsense_mediated_decay	KNOWN	None	20150	422	139	65413960	65438612	-1	None	None
14	RAB15	ENSG00000139998	ENST00000426039	protein_coding	PUTATIVE	None	20150	501	166	65414953	65424706	-1	None	None
14	RAB15	ENSG00000139998	ENST00000554593	protein_coding	PUTATIVE	None	20150	452	149	65415121	65439494	-1	None	None
14	RAB15	ENSG00000139998	ENST00000555256	retained_intron	KNOWN	None	20150	None	None	65415395	65417545	-1	None	None
14	RAB15	ENSG00000139998	ENST00000436278	protein_coding	KNOWN	None	20150	321	106	65413960	65438612	-1	None	None
HSCHR6_MHC_COX	LY6G6C	ENSG00000236183	ENST00000497123	protein_coding	KNOWN	None	13936	210	69	31673838	31676869	-1	C6orf24	G6c, NG24
HSCHR6_MHC_COX	LY6G6C	ENSG00000236183	ENST00000434915	protein_coding	KNOWN	None	13936	378	125	31673838	31677035	-1	C6orf24	G6c, NG24
9	DEC1	ENSG00000173077	ENST00000374016	protein_coding	KNOWN	CCDS6812	23658	213	70	117904097	118164923	1	None	CTS9
9	DEC1	ENSG00000173077	ENST00000477580	processed_transcript	KNOWN	None	23658	None	None	118053076	118076759	1	None	CTS9
9	DEC1	ENSG00000173077	ENST00000484171	processed_transcript	KNOWN	None	23658	None	None	118054127	118093609	1	None	CTS9
14	FNTB	ENSG00000257365	ENST00000246166	protein_coding	KNOWN	CCDS9769	3785	1314	437	65453438	65529316	1	None	FPTB
14	FNTB	ENSG00000257365	ENST00000555372	processed_transcript	KNOWN	None	3785	None	None	65453613	65488848	1	None	FPTB
14	FNTB	ENSG00000257365	ENST00000555742	processed_transcript	KNOWN	None	3785	None	None	65453933	65494317	1	None	FPTB
14	FNTB	ENSG00000257365	ENST00000554210	retained_intron	KNOWN	None	3785	None	None	65478890	65499110	1	None	FPTB
14	FNTB	ENSG00000257365	ENST00000554334	retained_intron	KNOWN	None	3785	None	None	65482256	65529368	1	None	FPTB
14	FNTB	ENSG00000257365	ENST00000556709	processed_transcript	KNOWN	None	3785	None	None	65483222	65507545	1	None	FPTB
14	FNTB	ENSG00000257365	ENST00000555618	retained_intron	KNOWN	None	3785	None	None	65494105	65494499	1	None	FPTB
14	FNTB	ENSG00000257365	ENST00000557300	retained_intron	KNOWN	None	3785	None	None	65519878	65528123	1	None	FPTB
9	C9orf123	ENSG00000137038	ENST00000358227	protein_coding	KNOWN	CCDS34989	30536	339	112	7796490	7800067	-1	C9orf123	MGC4730
9	C9orf123	ENSG00000137038	ENST00000484082	processed_transcript	KNOWN	None	30536	None	None	7798199	7800148	-1	C9orf123	MGC4730
9	C9orf123	ENSG00000137038	ENST00000469050	processed_transcript	KNOWN	None	30536	None	None	7798344	7888380	-1	C9orf123	MGC4730
X	None	ENSG00000260548	ENST00000563887	protein_coding	PUTATIVE	None	None	114	37	107965300	107975917	-1	None	None
X	IRS4	ENSG00000133124	ENST00000372129	protein_coding	KNOWN	CCDS14544	6128	3774	1257	107975712	107979651	-1	None	PY160, IRS-4
X	GUCY2F	ENSG00000101890	ENST00000218006	protein_coding	KNOWN	CCDS14545	4691	3327	1108	108616135	108725301	-1	None	GUC2DL, GC-F, RetGC-2, ROS-GC2, CYGF
9	PAPPA	ENSG00000182752	ENST00000328252	protein_coding	KNOWN	CCDS6813	8602	4884	1627	118916083	119164601	1	None	PAPP-A, PAPPA1, IGFBP-4ase, PAPA, ASBABP2, DIPLA1
9	PAPPA	ENSG00000182752	ENST00000460463	processed_transcript	KNOWN	None	8602	None	None	119094711	119097353	1	None	PAPP-A, PAPPA1, IGFBP-4ase, PAPA, ASBABP2, DIPLA1
9	PAPPA	ENSG00000182752	ENST00000483254	processed_transcript	KNOWN	None	8602	None	None	119135478	119158895	1	None	PAPP-A, PAPPA1, IGFBP-4ase, PAPA, ASBABP2, DIPLA1
9	PAPPA	ENSG00000182752	ENST00000534838	protein_coding	KNOWN	None	8602	1998	665	118950452	119159041	1	None	PAPP-A, PAPPA1, IGFBP-4ase, PAPA, ASBABP2, DIPLA1
4	GYPE	ENSG00000197465	ENST00000358615	protein_coding	KNOWN	CCDS47138	4705	237	78	144792020	144826712	-1	None	GPE, MNS
4	GYPE	ENSG00000197465	ENST00000506264	nonsense_mediated_decay	KNOWN	None	4705	180	59	144792049	144826672	-1	None	GPE, MNS
4	GYPE	ENSG00000197465	ENST00000437468	protein_coding	KNOWN	CCDS47138	4705	237	78	144796466	144826716	-1	None	GPE, MNS
9	PTPRD	ENSG00000153707	ENST00000381196	protein_coding	KNOWN	CCDS43786	9668	5739	1912	8314246	10033790	-1	None	PTPD, HPTP
9	PTPRD	ENSG00000153707	ENST00000486161	protein_coding	KNOWN	CCDS6472	9668	4518	1505	8317404	8733894	-1	None	PTPD, HPTP
9	PTPRD	ENSG00000153707	ENST00000397606	protein_coding	NOVEL	CCDS55289	9668	4518	1505	8317405	8733894	-1	None	PTPD, HPTP
9	PTPRD	ENSG00000153707	ENST00000477552	retained_intron	KNOWN	None	9668	None	None	8484238	8485636	-1	None	PTPD, HPTP
9	PTPRD	ENSG00000153707	ENST00000471274	processed_transcript	KNOWN	None	9668	None	None	8485763	8501059	-1	None	PTPD, HPTP
9	PTPRD	ENSG00000153707	ENST00000488774	processed_transcript	KNOWN	None	9668	None	None	8524949	8633460	-1	None	PTPD, HPTP
9	PTPRD	ENSG00000153707	ENST00000463477	protein_coding	PUTATIVE	None	9668	609	202	8528152	10612723	-1	None	PTPD, HPTP
9	PTPRD	ENSG00000153707	ENST00000481079	protein_coding	KNOWN	None	9668	279	92	8633390	8857776	-1	None	PTPD, HPTP
9	PTPRD	ENSG00000153707	ENST00000356435	protein_coding	KNOWN	CCDS43786	9668	5739	1912	8314247	8733949	-1	None	PTPD, HPTP
9	PTPRD	ENSG00000153707	ENST00000360074	protein_coding	KNOWN	None	9668	5700	1899	8314247	8733946	-1	None	PTPD, HPTP
9	PTPRD	ENSG00000153707	ENST00000358503	protein_coding	KNOWN	None	9668	5673	1890	8314247	8733946	-1	None	PTPD, HPTP
9	PTPRD	ENSG00000153707	ENST00000355233	protein_coding	KNOWN	CCDS55290	9668	4521	1506	8314247	8733946	-1	None	PTPD, HPTP
9	PTPRD	ENSG00000153707	ENST00000397617	protein_coding	KNOWN	None	9668	4518	1505	8314247	8733946	-1	None	PTPD, HPTP
9	PTPRD	ENSG00000153707	ENST00000397611	protein_coding	KNOWN	CCDS55288	9668	4509	1502	8314247	8733946	-1	None	PTPD, HPTP
9	PTPRD	ENSG00000153707	ENST00000537002	protein_coding	KNOWN	None	9668	4509	1502	8314247	8733946	-1	None	PTPD, HPTP
9	PTPRD	ENSG00000153707	ENST00000540109	protein_coding	KNOWN	CCDS43786	9668	5739	1912	8317277	8733949	-1	None	PTPD, HPTP
8	None	ENSG00000253379	ENST00000523987	protein_coding	PUTATIVE	None	None	195	64	72315675	72459892	-1	None	None
8	None	ENSG00000253379	ENST00000519927	processed_transcript	KNOWN	None	None	None	None	72441642	72460422	-1	None	None
8	None	ENSG00000253379	ENST00000518177	processed_transcript	KNOWN	None	None	None	None	72443107	72504260	-1	None	None
8	None	ENSG00000253379	ENST00000523327	processed_transcript	PUTATIVE	None	None	None	None	72462224	72481002	-1	None	None
8	None	ENSG00000253379	ENST00000521794	processed_transcript	PUTATIVE	None	None	None	None	72480408	72497435	-1	None	None
15	DIS3L	ENSG00000166938	ENST00000319194	protein_coding	KNOWN	CCDS10214	28698	2916	971	66585555	66626236	1	None	MGC4562, FLJ38088, KIAA1955
15	DIS3L	ENSG00000166938	ENST00000525134	protein_coding	KNOWN	None	28698	171	56	66585629	66599288	1	None	MGC4562, FLJ38088, KIAA1955
15	DIS3L	ENSG00000166938	ENST00000524795	nonsense_mediated_decay	KNOWN	None	28698	168	55	66585645	66618326	1	None	MGC4562, FLJ38088, KIAA1955
15	DIS3L	ENSG00000166938	ENST00000565281	retained_intron	KNOWN	None	28698	None	None	66585839	66618789	1	None	MGC4562, FLJ38088, KIAA1955
15	DIS3L	ENSG00000166938	ENST00000319212	protein_coding	KNOWN	CCDS45286	28698	3165	1054	66585885	66626082	1	None	MGC4562, FLJ38088, KIAA1955
15	DIS3L	ENSG00000166938	ENST00000564909	retained_intron	KNOWN	None	28698	None	None	66585934	66618899	1	None	MGC4562, FLJ38088, KIAA1955
15	DIS3L	ENSG00000166938	ENST00000525109	protein_coding	NOVEL	None	28698	451	149	66585977	66607412	1	None	MGC4562, FLJ38088, KIAA1955
15	DIS3L	ENSG00000166938	ENST00000532580	protein_coding	KNOWN	None	28698	309	102	66586170	66601182	1	None	MGC4562, FLJ38088, KIAA1955
15	DIS3L	ENSG00000166938	ENST00000532293	processed_transcript	KNOWN	None	28698	None	None	66586181	66587411	1	None	MGC4562, FLJ38088, KIAA1955
15	DIS3L	ENSG00000166938	ENST00000530615	protein_coding	KNOWN	None	28698	292	96	66586397	66601165	1	None	MGC4562, FLJ38088, KIAA1955
15	DIS3L	ENSG00000166938	ENST00000530537	nonsense_mediated_decay	KNOWN	None	28698	168	55	66587435	66626066	1	None	MGC4562, FLJ38088, KIAA1955
15	DIS3L	ENSG00000166938	ENST00000562314	retained_intron	KNOWN	None	28698	None	None	66599158	66604239	1	None	MGC4562, FLJ38088, KIAA1955
15	DIS3L	ENSG00000166938	ENST00000564945	retained_intron	KNOWN	None	28698	None	None	66621335	66621886	1	None	MGC4562, FLJ38088, KIAA1955
15	DIS3L	ENSG00000166938	ENST00000568874	processed_transcript	PUTATIVE	None	28698	None	None	66621618	66622362	1	None	MGC4562, FLJ38088, KIAA1955
15	DIS3L	ENSG00000166938	ENST00000441424	protein_coding	KNOWN	None	28698	762	253	66585645	66618326	1	None	MGC4562, FLJ38088, KIAA1955
10	RPS24	ENSG00000138326	ENST00000485708	processed_transcript	KNOWN	None	10411	None	None	79793602	79800428	1	None	S24
10	RPS24	ENSG00000138326	ENST00000478655	retained_intron	KNOWN	None	10411	None	None	79793621	79797360	1	None	S24
10	RPS24	ENSG00000138326	ENST00000372360	protein_coding	KNOWN	CCDS7355	10411	402	133	79793623	79800455	1	None	S24
10	RPS24	ENSG00000138326	ENST00000464716	processed_transcript	KNOWN	None	10411	None	None	79793632	79797230	1	None	S24
10	RPS24	ENSG00000138326	ENST00000476545	processed_transcript	KNOWN	None	10411	None	None	79793636	79814689	1	None	S24
10	RPS24	ENSG00000138326	ENST00000360830	protein_coding	NOVEL	CCDS7356	10411	393	130	79793641	79800455	1	None	S24
10	RPS24	ENSG00000138326	ENST00000466129	retained_intron	KNOWN	None	10411	None	None	79793644	79795844	1	None	S24
10	RPS24	ENSG00000138326	ENST00000475468	processed_transcript	KNOWN	None	10411	None	None	79793662	79795412	1	None	S24
10	RPS24	ENSG00000138326	ENST00000482069	processed_transcript	KNOWN	None	10411	None	None	79793675	79800454	1	None	S24
10	RPS24	ENSG00000138326	ENST00000465692	processed_transcript	KNOWN	None	10411	None	None	79795110	79814434	1	None	S24
10	RPS24	ENSG00000138326	ENST00000480662	retained_intron	KNOWN	None	10411	None	None	79799356	79800455	1	None	S24
10	RPS24	ENSG00000138326	ENST00000440692	protein_coding	KNOWN	CCDS44443	10411	870	289	79793518	79816570	1	None	S24
10	RPS24	ENSG00000138326	ENST00000435275	protein_coding	KNOWN	None	10411	396	131	79793518	79800471	1	None	S24
8	None	ENSG00000235531	ENST00000521467	protein_coding	PUTATIVE	None	None	210	69	72740402	72914640	1	None	None
8	None	ENSG00000235531	ENST00000522519	nonsense_mediated_decay	KNOWN	None	None	354	117	72755358	72965282	1	None	None
8	None	ENSG00000235531	ENST00000524152	protein_coding	PUTATIVE	None	None	195	64	72755796	72964948	1	None	None
8	None	ENSG00000235531	ENST00000457356	processed_transcript	KNOWN	None	None	None	None	72756338	72968547	1	None	None
8	None	ENSG00000235531	ENST00000519751	processed_transcript	KNOWN	None	None	None	None	72756379	72964842	1	None	None
8	None	ENSG00000235531	ENST00000518916	processed_transcript	KNOWN	None	None	None	None	72756393	73030628	1	None	None
8	None	ENSG00000235531	ENST00000518700	processed_transcript	KNOWN	None	None	None	None	72874169	72879014	1	None	None
8	None	ENSG00000235531	ENST00000519068	nonsense_mediated_decay	KNOWN	None	None	195	64	72875157	72974527	1	None	None
8	None	ENSG00000235531	ENST00000523133	processed_transcript	PUTATIVE	None	None	None	None	72882901	72914629	1	None	None
8	None	ENSG00000235531	ENST00000512290	processed_transcript	PUTATIVE	None	None	None	None	72941961	72965557	1	None	None
8	None	ENSG00000235531	ENST00000537896	protein_coding	KNOWN	None	None	549	182	72755367	72965282	1	None	None
X	NXT2	ENSG00000101888	ENST00000218004	protein_coding	KNOWN	CCDS14546	18151	594	197	108779010	108787913	1	None	P15-2
X	NXT2	ENSG00000101888	ENST00000372107	protein_coding	KNOWN	CCDS56606	18151	345	114	108779893	108786203	1	None	P15-2
X	NXT2	ENSG00000101888	ENST00000372106	protein_coding	KNOWN	CCDS56605	18151	429	142	108780105	108787919	1	None	P15-2
X	NXT2	ENSG00000101888	ENST00000372103	protein_coding	KNOWN	CCDS56606	18151	345	114	108780347	108786435	1	None	P15-2
14	MAX	ENSG00000125952	ENST00000341653	protein_coding	KNOWN	CCDS9770	6913	252	83	65472892	65569105	-1	None	bHLHd4, bHLHd5, bHLHd6, bHLHd7, bHLHd8
14	MAX	ENSG00000125952	ENST00000358402	protein_coding	KNOWN	CCDS9772	6913	456	151	65541842	65569222	-1	None	bHLHd4, bHLHd5, bHLHd6, bHLHd7, bHLHd8
14	MAX	ENSG00000125952	ENST00000394606	nonsense_mediated_decay	KNOWN	CCDS41965	6913	312	103	65541845	65569237	-1	None	bHLHd4, bHLHd5, bHLHd6, bHLHd7, bHLHd8
14	MAX	ENSG00000125952	ENST00000555932	protein_coding	NOVEL	None	6913	249	82	65541876	65569188	-1	None	bHLHd4, bHLHd5, bHLHd6, bHLHd7, bHLHd8
14	MAX	ENSG00000125952	ENST00000284165	protein_coding	PUTATIVE	None	6913	405	134	65541920	65569206	-1	None	bHLHd4, bHLHd5, bHLHd6, bHLHd7, bHLHd8
14	MAX	ENSG00000125952	ENST00000358664	protein_coding	KNOWN	CCDS9771	6913	483	160	65542262	65569188	-1	None	bHLHd4, bHLHd5, bHLHd6, bHLHd7, bHLHd8
14	MAX	ENSG00000125952	ENST00000555419	protein_coding	NOVEL	None	6913	375	124	65542804	65569057	-1	None	bHLHd4, bHLHd5, bHLHd6, bHLHd7, bHLHd8
14	MAX	ENSG00000125952	ENST00000553928	nonsense_mediated_decay	KNOWN	CCDS41965	6913	312	103	65543176	65569078	-1	None	bHLHd4, bHLHd5, bHLHd6, bHLHd7, bHLHd8
14	MAX	ENSG00000125952	ENST00000557277	protein_coding	PUTATIVE	None	6913	294	97	65543180	65569408	-1	None	bHLHd4, bHLHd5, bHLHd6, bHLHd7, bHLHd8
14	MAX	ENSG00000125952	ENST00000556892	protein_coding	PUTATIVE	None	6913	131	42	65543327	65569413	-1	None	bHLHd4, bHLHd5, bHLHd6, bHLHd7, bHLHd8
14	MAX	ENSG00000125952	ENST00000553951	retained_intron	KNOWN	None	6913	None	None	65543911	65568403	-1	None	bHLHd4, bHLHd5, bHLHd6, bHLHd7, bHLHd8
14	MAX	ENSG00000125952	ENST00000556979	protein_coding	KNOWN	CCDS41965	6913	312	103	65544005	65569235	-1	None	bHLHd4, bHLHd5, bHLHd6, bHLHd7, bHLHd8
14	MAX	ENSG00000125952	ENST00000555667	protein_coding	NOVEL	None	6913	285	94	65544019	65569235	-1	None	bHLHd4, bHLHd5, bHLHd6, bHLHd7, bHLHd8
14	MAX	ENSG00000125952	ENST00000557746	protein_coding	NOVEL	None	6913	366	121	65544103	65569235	-1	None	bHLHd4, bHLHd5, bHLHd6, bHLHd7, bHLHd8
14	MAX	ENSG00000125952	ENST00000556443	protein_coding	NOVEL	None	6913	378	125	65544492	65569235	-1	None	bHLHd4, bHLHd5, bHLHd6, bHLHd7, bHLHd8
14	MAX	ENSG00000125952	ENST00000246163	protein_coding	KNOWN	CCDS9774	6913	291	96	65550462	65569227	-1	None	bHLHd4, bHLHd5, bHLHd6, bHLHd7, bHLHd8
14	MAX	ENSG00000125952	ENST00000556702	retained_intron	KNOWN	None	6913	None	None	65560216	65569196	-1	None	bHLHd4, bHLHd5, bHLHd6, bHLHd7, bHLHd8
14	MAX	ENSG00000125952	ENST00000554709	retained_intron	KNOWN	None	6913	None	None	65560421	65569235	-1	None	bHLHd4, bHLHd5, bHLHd6, bHLHd7, bHLHd8
4	RFC1	ENSG00000035928	ENST00000349703	protein_coding	KNOWN	CCDS3450	9969	3444	1147	39289076	39367971	-1	None	A1, PO-GA, RFC140, MHCBFB
4	RFC1	ENSG00000035928	ENST00000381897	protein_coding	KNOWN	CCDS56329	9969	3447	1148	39289076	39367995	-1	None	A1, PO-GA, RFC140, MHCBFB
4	RFC1	ENSG00000035928	ENST00000510783	processed_transcript	KNOWN	None	9969	None	None	39290317	39297519	-1	None	A1, PO-GA, RFC140, MHCBFB
4	RFC1	ENSG00000035928	ENST00000502991	processed_transcript	KNOWN	None	9969	None	None	39290399	39293694	-1	None	A1, PO-GA, RFC140, MHCBFB
4	RFC1	ENSG00000035928	ENST00000504974	processed_transcript	KNOWN	None	9969	None	None	39290435	39293755	-1	None	A1, PO-GA, RFC140, MHCBFB
4	RFC1	ENSG00000035928	ENST00000514572	protein_coding	PUTATIVE	None	9969	304	100	39291176	39293358	-1	None	A1, PO-GA, RFC140, MHCBFB
4	RFC1	ENSG00000035928	ENST00000505077	retained_intron	KNOWN	None	9969	None	None	39301936	39304813	-1	None	A1, PO-GA, RFC140, MHCBFB
4	RFC1	ENSG00000035928	ENST00000504554	protein_coding	KNOWN	None	9969	561	186	39304710	39318633	-1	None	A1, PO-GA, RFC140, MHCBFB
4	RFC1	ENSG00000035928	ENST00000502706	processed_transcript	KNOWN	None	9969	None	None	39308254	39314392	-1	None	A1, PO-GA, RFC140, MHCBFB
4	RFC1	ENSG00000035928	ENST00000509084	processed_transcript	KNOWN	None	9969	None	None	39314384	39319690	-1	None	A1, PO-GA, RFC140, MHCBFB
4	RFC1	ENSG00000035928	ENST00000512881	processed_transcript	KNOWN	None	9969	None	None	39318603	39324024	-1	None	A1, PO-GA, RFC140, MHCBFB
4	RFC1	ENSG00000035928	ENST00000512726	retained_intron	KNOWN	None	9969	None	None	39322080	39323448	-1	None	A1, PO-GA, RFC140, MHCBFB
4	RFC1	ENSG00000035928	ENST00000418436	processed_transcript	KNOWN	None	9969	None	None	39322085	39367982	-1	None	A1, PO-GA, RFC140, MHCBFB
4	RFC1	ENSG00000035928	ENST00000504849	retained_intron	KNOWN	None	9969	None	None	39324823	39367955	-1	None	A1, PO-GA, RFC140, MHCBFB
4	RFC1	ENSG00000035928	ENST00000512275	nonsense_mediated_decay	KNOWN	None	9969	393	130	39329144	39367959	-1	None	A1, PO-GA, RFC140, MHCBFB
4	RFC1	ENSG00000035928	ENST00000503784	protein_coding	NOVEL	None	9969	396	131	39329228	39367969	-1	None	A1, PO-GA, RFC140, MHCBFB
8	MSC	ENSG00000178860	ENST00000325509	protein_coding	KNOWN	CCDS43746	7321	621	206	72753784	72756703	-1	None	ABF-1, bHLHa22
8	MSC	ENSG00000178860	ENST00000518440	processed_transcript	PUTATIVE	None	7321	None	None	72754584	72755227	-1	None	ABF-1, bHLHa22
8	MSC	ENSG00000178860	ENST00000521739	processed_transcript	PUTATIVE	None	7321	None	None	72754655	72755648	-1	None	ABF-1, bHLHa22
8	TRPA1	ENSG00000104321	ENST00000523582	protein_coding	PUTATIVE	None	497	2751	916	72932152	72977793	-1	ANKTM1	None
8	TRPA1	ENSG00000104321	ENST00000262209	protein_coding	KNOWN	CCDS34908	497	3360	1119	72933486	72987852	-1	ANKTM1	None
8	TRPA1	ENSG00000104321	ENST00000520596	processed_transcript	PUTATIVE	None	497	None	None	72935364	72936105	-1	ANKTM1	None
8	TRPA1	ENSG00000104321	ENST00000519720	processed_transcript	KNOWN	None	497	None	None	72946545	72953580	-1	ANKTM1	None
8	TRPA1	ENSG00000104321	ENST00000522271	retained_intron	KNOWN	None	497	None	None	72951001	72958780	-1	ANKTM1	None
8	TRPA1	ENSG00000104321	ENST00000520788	retained_intron	KNOWN	None	497	None	None	72965624	72967774	-1	ANKTM1	None
X	KCNE1L	ENSG00000176076	ENST00000372101	protein_coding	KNOWN	CCDS14547	6241	429	142	108866929	108868393	-1	None	None
4	GYPB	ENSG00000250361	ENST00000506679	nonsense_mediated_decay	KNOWN	None	4703	129	42	144917257	144940492	-1	MNS	GPB, SS, CD235b
4	GYPB	ENSG00000250361	ENST00000502664	protein_coding	KNOWN	CCDS54809	4703	276	91	144917259	144940492	-1	MNS	GPB, SS, CD235b
4	GYPB	ENSG00000250361	ENST00000507009	processed_transcript	KNOWN	None	4703	None	None	144917295	144940490	-1	MNS	GPB, SS, CD235b
4	GYPB	ENSG00000250361	ENST00000513128	protein_coding	NOVEL	None	4703	177	58	144917306	144940477	-1	MNS	GPB, SS, CD235b
4	GYPB	ENSG00000250361	ENST00000505583	nonsense_mediated_decay	KNOWN	None	4703	138	45	144917306	144940477	-1	MNS	GPB, SS, CD235b
4	GYPB	ENSG00000250361	ENST00000506516	nonsense_mediated_decay	KNOWN	None	4703	60	19	144917350	144940477	-1	MNS	GPB, SS, CD235b
4	GYPB	ENSG00000250361	ENST00000513557	processed_transcript	KNOWN	None	4703	None	None	144917350	144940477	-1	MNS	GPB, SS, CD235b
4	GYPB	ENSG00000250361	ENST00000513677	processed_transcript	KNOWN	None	4703	None	None	144917350	144940477	-1	MNS	GPB, SS, CD235b
4	GYPB	ENSG00000250361	ENST00000511198	nonsense_mediated_decay	KNOWN	None	4703	138	45	144917350	144940477	-1	MNS	GPB, SS, CD235b
4	GYPB	ENSG00000250361	ENST00000504951	nonsense_mediated_decay	KNOWN	None	4703	138	45	144917350	144940477	-1	MNS	GPB, SS, CD235b
4	GYPB	ENSG00000250361	ENST00000510196	processed_transcript	KNOWN	None	4703	None	None	144917350	144940477	-1	MNS	GPB, SS, CD235b
4	GYPB	ENSG00000250361	ENST00000503255	retained_intron	KNOWN	None	4703	None	None	144918492	144940455	-1	MNS	GPB, SS, CD235b
4	GYPB	ENSG00000250361	ENST00000429670	protein_coding	PUTATIVE	None	4703	189	62	144918698	144940490	-1	MNS	GPB, SS, CD235b
4	GYPB	ENSG00000250361	ENST00000508618	retained_intron	KNOWN	None	4703	None	None	144920409	144940498	-1	MNS	GPB, SS, CD235b
4	GYPB	ENSG00000250361	ENST00000508841	retained_intron	KNOWN	None	4703	None	None	144921213	144940498	-1	MNS	GPB, SS, CD235b
4	GYPB	ENSG00000250361	ENST00000283126	protein_coding	KNOWN	None	4703	276	91	144917257	145061844	-1	MNS	GPB, SS, CD235b
HSCHR6_MHC_COX	DDAH2	ENSG00000226634	ENST00000436457	protein_coding	KNOWN	None	2716	565	187	31682228	31684067	-1	None	None
HSCHR6_MHC_COX	DDAH2	ENSG00000226634	ENST00000475648	retained_intron	KNOWN	None	2716	None	None	31682228	31684697	-1	None	None
HSCHR6_MHC_COX	DDAH2	ENSG00000226634	ENST00000443533	protein_coding	KNOWN	None	2716	858	285	31682228	31684982	-1	None	None
HSCHR6_MHC_COX	DDAH2	ENSG00000226634	ENST00000493926	processed_transcript	KNOWN	None	2716	None	None	31682228	31685417	-1	None	None
HSCHR6_MHC_COX	DDAH2	ENSG00000226634	ENST00000494205	processed_transcript	KNOWN	None	2716	None	None	31682228	31685452	-1	None	None
HSCHR6_MHC_COX	DDAH2	ENSG00000226634	ENST00000413532	protein_coding	KNOWN	None	2716	858	285	31682228	31685453	-1	None	None
HSCHR6_MHC_COX	DDAH2	ENSG00000226634	ENST00000411456	protein_coding	KNOWN	None	2716	858	285	31682228	31685807	-1	None	None
HSCHR6_MHC_COX	DDAH2	ENSG00000226634	ENST00000455919	protein_coding	KNOWN	None	2716	709	235	31682765	31684986	-1	None	None
HSCHR6_MHC_COX	DDAH2	ENSG00000226634	ENST00000434107	protein_coding	KNOWN	None	2716	678	225	31682796	31684691	-1	None	None
HSCHR6_MHC_COX	DDAH2	ENSG00000226634	ENST00000490665	retained_intron	KNOWN	None	2716	None	None	31683371	31685435	-1	None	None
X	ACSL4	ENSG00000068366	ENST00000505075	processed_transcript	KNOWN	None	3571	None	None	108872579	108902742	-1	FACL4, MRX63, MRX68	ACS4, LACS4
X	ACSL4	ENSG00000068366	ENST00000469796	protein_coding	KNOWN	CCDS14548	3571	2136	711	108884566	108976531	-1	FACL4, MRX63, MRX68	ACS4, LACS4
X	ACSL4	ENSG00000068366	ENST00000348502	protein_coding	KNOWN	CCDS14549	3571	2013	670	108884566	108976632	-1	FACL4, MRX63, MRX68	ACS4, LACS4
X	ACSL4	ENSG00000068366	ENST00000514500	nonsense_mediated_decay	KNOWN	None	3571	470	155	108887255	108912338	-1	FACL4, MRX63, MRX68	ACS4, LACS4
X	ACSL4	ENSG00000068366	ENST00000505855	protein_coding	KNOWN	None	3571	463	153	108924548	108935376	-1	FACL4, MRX63, MRX68	ACS4, LACS4
X	ACSL4	ENSG00000068366	ENST00000502391	protein_coding	KNOWN	None	3571	435	144	108926042	108976554	-1	FACL4, MRX63, MRX68	ACS4, LACS4
X	ACSL4	ENSG00000068366	ENST00000508092	protein_coding	KNOWN	None	3571	384	127	108926093	108976554	-1	FACL4, MRX63, MRX68	ACS4, LACS4
X	ACSL4	ENSG00000068366	ENST00000504980	protein_coding	KNOWN	None	3571	379	125	108926098	108976442	-1	FACL4, MRX63, MRX68	ACS4, LACS4
X	ACSL4	ENSG00000068366	ENST00000469857	protein_coding	KNOWN	None	3571	162	53	108926554	108976460	-1	FACL4, MRX63, MRX68	ACS4, LACS4
X	ACSL4	ENSG00000068366	ENST00000504383	processed_transcript	KNOWN	None	3571	None	None	108938880	108976504	-1	FACL4, MRX63, MRX68	ACS4, LACS4
X	ACSL4	ENSG00000068366	ENST00000340800	protein_coding	KNOWN	CCDS14548	3571	2136	711	108884566	108976621	-1	FACL4, MRX63, MRX68	ACS4, LACS4
8	KCNB2	ENSG00000182674	ENST00000523207	protein_coding	KNOWN	CCDS6209	6232	2736	911	73449626	73850584	1	None	Kv2.2
8	TERF1	ENSG00000147601	ENST00000276603	protein_coding	KNOWN	CCDS6211	11728	1320	439	73921099	73958706	1	TRBF1	PIN2, TRF1, TRF
8	TERF1	ENSG00000147601	ENST00000276602	protein_coding	KNOWN	CCDS6210	11728	1260	419	73921099	73960357	1	TRBF1	PIN2, TRF1, TRF
8	TERF1	ENSG00000147601	ENST00000518874	protein_coding	NOVEL	None	11728	506	167	73921112	73934515	1	TRBF1	PIN2, TRF1, TRF
8	TERF1	ENSG00000147601	ENST00000518695	retained_intron	KNOWN	None	11728	None	None	73921143	73924740	1	TRBF1	PIN2, TRF1, TRF
8	TERF1	ENSG00000147601	ENST00000517390	protein_coding	PUTATIVE	None	11728	559	185	73925092	73939271	1	TRBF1	PIN2, TRF1, TRF
8	TERF1	ENSG00000147601	ENST00000522018	processed_transcript	KNOWN	None	11728	None	None	73934468	73951033	1	TRBF1	PIN2, TRF1, TRF
8	TERF1	ENSG00000147601	ENST00000518961	retained_intron	KNOWN	None	11728	None	None	73942188	73959210	1	TRBF1	PIN2, TRF1, TRF
8	TERF1	ENSG00000147601	ENST00000520783	processed_transcript	KNOWN	None	11728	None	None	73943848	73951039	1	TRBF1	PIN2, TRF1, TRF
14	FUT8	ENSG00000033170	ENST00000360689	protein_coding	KNOWN	CCDS9775	4019	1728	575	65877310	66210839	1	None	None
14	FUT8	ENSG00000033170	ENST00000394586	protein_coding	KNOWN	CCDS9775	4019	1728	575	65877840	66209860	1	None	None
14	FUT8	ENSG00000033170	ENST00000556518	protein_coding	KNOWN	None	4019	89	28	65878581	66028370	1	None	None
14	FUT8	ENSG00000033170	ENST00000342677	nonsense_mediated_decay	KNOWN	None	4019	927	308	65878583	66209860	1	None	None
14	FUT8	ENSG00000033170	ENST00000557164	protein_coding	KNOWN	CCDS9776	4019	1239	412	65878592	66209654	1	None	None
14	FUT8	ENSG00000033170	ENST00000549235	processed_transcript	KNOWN	None	4019	None	None	65878609	65924906	1	None	None
14	FUT8	ENSG00000033170	ENST00000555559	protein_coding	KNOWN	None	4019	122	39	65878654	66028403	1	None	None
14	FUT8	ENSG00000033170	ENST00000553924	protein_coding	KNOWN	None	4019	47	14	65879724	66028328	1	None	None
14	FUT8	ENSG00000033170	ENST00000358307	protein_coding	PUTATIVE	None	4019	1341	446	65879726	66209860	1	None	None
14	FUT8	ENSG00000033170	ENST00000557338	protein_coding	KNOWN	None	4019	152	49	65879737	66028433	1	None	None
14	FUT8	ENSG00000033170	ENST00000554610	protein_coding	KNOWN	None	4019	134	43	65879740	66028415	1	None	None
14	FUT8	ENSG00000033170	ENST00000556292	processed_transcript	KNOWN	None	4019	None	None	65879787	65924906	1	None	None
14	FUT8	ENSG00000033170	ENST00000554667	protein_coding	KNOWN	None	4019	139	45	65955036	66028420	1	None	None
14	FUT8	ENSG00000033170	ENST00000557536	processed_transcript	KNOWN	None	4019	None	None	66103234	66188630	1	None	None
14	FUT8	ENSG00000033170	ENST00000554765	processed_transcript	KNOWN	None	4019	None	None	66103235	66188576	1	None	None
14	FUT8	ENSG00000033170	ENST00000394585	protein_coding	KNOWN	CCDS9775	4019	1728	575	65879535	66209961	1	None	None
14	FUT8	ENSG00000033170	ENST00000417683	protein_coding	KNOWN	None	4019	510	169	66136133	66209961	1	None	None
16	ATF7IP2	ENSG00000166669	ENST00000564797	processed_transcript	PUTATIVE	None	20397	None	None	10420291	10513477	1	None	FLJ12668
16	ATF7IP2	ENSG00000166669	ENST00000562527	protein_coding	KNOWN	None	20397	52	16	10479912	10524529	1	None	FLJ12668
16	ATF7IP2	ENSG00000166669	ENST00000396560	protein_coding	KNOWN	CCDS10540	20397	2049	682	10479912	10577495	1	None	FLJ12668
16	ATF7IP2	ENSG00000166669	ENST00000396559	protein_coding	KNOWN	CCDS58422	20397	1632	543	10479912	10577495	1	None	FLJ12668
16	ATF7IP2	ENSG00000166669	ENST00000566316	retained_intron	KNOWN	None	20397	None	None	10479915	10481598	1	None	FLJ12668
16	ATF7IP2	ENSG00000166669	ENST00000561932	processed_transcript	PUTATIVE	None	20397	None	None	10479915	10522861	1	None	FLJ12668
16	ATF7IP2	ENSG00000166669	ENST00000562102	protein_coding	KNOWN	None	20397	252	83	10479915	10524729	1	None	FLJ12668
16	ATF7IP2	ENSG00000166669	ENST00000543967	protein_coding	PUTATIVE	None	20397	681	226	10479916	10576343	1	None	FLJ12668
16	ATF7IP2	ENSG00000166669	ENST00000562396	retained_intron	KNOWN	None	20397	None	None	10479918	10481598	1	None	FLJ12668
16	ATF7IP2	ENSG00000166669	ENST00000569939	protein_coding	KNOWN	None	20397	79	25	10479918	10524556	1	None	FLJ12668
16	ATF7IP2	ENSG00000166669	ENST00000569900	protein_coding	KNOWN	None	20397	223	73	10479918	10524700	1	None	FLJ12668
16	ATF7IP2	ENSG00000166669	ENST00000535850	nonsense_mediated_decay	KNOWN	None	20397	1278	425	10479918	10575975	1	None	FLJ12668
16	ATF7IP2	ENSG00000166669	ENST00000570163	retained_intron	KNOWN	None	20397	None	None	10480949	10481594	1	None	FLJ12668
16	ATF7IP2	ENSG00000166669	ENST00000568027	nonsense_mediated_decay	KNOWN	None	20397	1197	398	10522758	10577495	1	None	FLJ12668
16	ATF7IP2	ENSG00000166669	ENST00000565616	retained_intron	KNOWN	None	20397	None	None	10547879	10551468	1	None	FLJ12668
16	ATF7IP2	ENSG00000166669	ENST00000565450	retained_intron	KNOWN	None	20397	None	None	10565781	10574820	1	None	FLJ12668
16	ATF7IP2	ENSG00000166669	ENST00000356427	protein_coding	KNOWN	CCDS10540	20397	2049	682	10524452	10577494	1	None	FLJ12668
16	ATF7IP2	ENSG00000166669	ENST00000324570	protein_coding	KNOWN	CCDS58422	20397	1632	543	10524478	10577494	1	None	FLJ12668
19	MFSD12	ENSG00000161091	ENST00000389395	protein_coding	KNOWN	CCDS42463	28299	1422	473	3538259	3557401	-1	C19orf28	MGC20700, PP3501
19	MFSD12	ENSG00000161091	ENST00000585788	retained_intron	KNOWN	None	28299	None	None	3538273	3540041	-1	C19orf28	MGC20700, PP3501
19	MFSD12	ENSG00000161091	ENST00000398558	protein_coding	KNOWN	CCDS42464	28299	1617	538	3538273	3557401	-1	C19orf28	MGC20700, PP3501
19	MFSD12	ENSG00000161091	ENST00000589157	retained_intron	KNOWN	None	28299	None	None	3538648	3543380	-1	C19orf28	MGC20700, PP3501
19	MFSD12	ENSG00000161091	ENST00000588918	nonsense_mediated_decay	KNOWN	None	28299	1416	471	3544197	3557561	-1	C19orf28	MGC20700, PP3501
19	MFSD12	ENSG00000161091	ENST00000355415	protein_coding	KNOWN	CCDS42465	28299	1443	480	3544197	3557571	-1	C19orf28	MGC20700, PP3501
19	MFSD12	ENSG00000161091	ENST00000589063	protein_coding	PUTATIVE	None	28299	543	180	3544674	3547329	-1	C19orf28	MGC20700, PP3501
19	MFSD12	ENSG00000161091	ENST00000589995	protein_coding	PUTATIVE	None	28299	777	258	3544832	3551043	-1	C19orf28	MGC20700, PP3501
19	MFSD12	ENSG00000161091	ENST00000585814	nonsense_mediated_decay	KNOWN	None	28299	216	71	3547289	3573849	-1	C19orf28	MGC20700, PP3501
19	MFSD12	ENSG00000161091	ENST00000592652	protein_coding	PUTATIVE	None	28299	441	146	3547325	3573627	-1	C19orf28	MGC20700, PP3501
19	MFSD12	ENSG00000161091	ENST00000591878	processed_transcript	KNOWN	None	28299	None	None	3547917	3573787	-1	C19orf28	MGC20700, PP3501
19	MFSD12	ENSG00000161091	ENST00000588626	nonsense_mediated_decay	KNOWN	None	28299	162	53	3550986	3573612	-1	C19orf28	MGC20700, PP3501
19	MFSD12	ENSG00000161091	ENST00000586402	processed_transcript	KNOWN	None	28299	None	None	3571570	3574288	-1	C19orf28	MGC20700, PP3501
15	TIPIN	ENSG00000075131	ENST00000261881	protein_coding	KNOWN	CCDS10215	30750	906	301	66628544	66649054	-1	None	FLJ20516
15	TIPIN	ENSG00000075131	ENST00000566524	nonsense_mediated_decay	KNOWN	None	30750	225	74	66628722	66649023	-1	None	FLJ20516
15	TIPIN	ENSG00000075131	ENST00000562124	protein_coding	KNOWN	None	30750	883	293	66629319	66679062	-1	None	FLJ20516
15	TIPIN	ENSG00000075131	ENST00000568216	protein_coding	KNOWN	None	30750	424	140	66641640	66679050	-1	None	FLJ20516
15	TIPIN	ENSG00000075131	ENST00000570251	protein_coding	KNOWN	None	30750	350	115	66641714	66679084	-1	None	FLJ20516
15	TIPIN	ENSG00000075131	ENST00000561773	processed_transcript	KNOWN	None	30750	None	None	66671608	66679045	-1	None	FLJ20516
15	TIPIN	ENSG00000075131	ENST00000367709	protein_coding	KNOWN	None	30750	603	200	66628722	66649023	-1	None	FLJ20516
6	SLC17A2	ENSG00000112337	ENST00000360488	protein_coding	KNOWN	CCDS4567	10930	1311	436	25912982	25930839	-1	None	NPT3
6	SLC17A2	ENSG00000112337	ENST00000265425	protein_coding	KNOWN	None	10930	1320	439	25913545	25926045	-1	None	NPT3
6	SLC17A2	ENSG00000112337	ENST00000377850	protein_coding	KNOWN	None	10930	1437	478	25912982	25930946	-1	None	NPT3
8	SBSPON	ENSG00000164764	ENST00000297354	protein_coding	KNOWN	CCDS43747	30362	795	264	73976775	74005507	-1	C8orf84	RPESP
8	SBSPON	ENSG00000164764	ENST00000519697	processed_transcript	KNOWN	None	30362	None	None	73978767	74036323	-1	C8orf84	RPESP
9	PAPPA-AS1	ENSG00000256040	ENST00000445861	protein_coding	KNOWN	None	35152	309	102	119160439	119162885	-1	PAPPAS	PAPPA-AS, DIPAS, TAF4B, TAF2C2, TAFII105, NCRNA00156
X	TMEM164	ENSG00000157600	ENST00000497754	processed_transcript	KNOWN	None	26217	None	None	109245859	109246822	1	None	FLJ22679, RP13-360B22.2
X	TMEM164	ENSG00000157600	ENST00000471255	processed_transcript	KNOWN	None	26217	None	None	109245915	109310624	1	None	FLJ22679, RP13-360B22.2
X	TMEM164	ENSG00000157600	ENST00000372073	protein_coding	KNOWN	CCDS14550	26217	894	297	109246323	109421016	1	None	FLJ22679, RP13-360B22.2
X	TMEM164	ENSG00000157600	ENST00000288381	protein_coding	KNOWN	None	26217	777	258	109246343	109421016	1	None	FLJ22679, RP13-360B22.2
X	TMEM164	ENSG00000157600	ENST00000461715	processed_transcript	KNOWN	None	26217	None	None	109308329	109414739	1	None	FLJ22679, RP13-360B22.2
X	TMEM164	ENSG00000157600	ENST00000464177	processed_transcript	KNOWN	None	26217	None	None	109388083	109425962	1	None	FLJ22679, RP13-360B22.2
X	TMEM164	ENSG00000157600	ENST00000372068	protein_coding	KNOWN	CCDS14550	26217	894	297	109246342	109421012	1	None	FLJ22679, RP13-360B22.2
X	TMEM164	ENSG00000157600	ENST00000372072	protein_coding	KNOWN	CCDS55475	26217	447	148	109245863	109421012	1	None	FLJ22679, RP13-360B22.2
8	RPL7	ENSG00000147604	ENST00000487500	processed_transcript	PUTATIVE	None	10363	None	None	74202506	74203372	-1	None	humL7-1, L7
8	RPL7	ENSG00000147604	ENST00000396467	protein_coding	NOVEL	None	10363	627	208	74202519	74205868	-1	None	humL7-1, L7
8	RPL7	ENSG00000147604	ENST00000352983	protein_coding	KNOWN	CCDS6212	10363	747	248	74202874	74206133	-1	None	humL7-1, L7
8	RPL7	ENSG00000147604	ENST00000396466	protein_coding	NOVEL	None	10363	627	208	74203275	74208024	-1	None	humL7-1, L7
8	RPL7	ENSG00000147604	ENST00000396465	protein_coding	NOVEL	None	10363	627	208	74203277	74206673	-1	None	humL7-1, L7
8	RPL7	ENSG00000147604	ENST00000466821	retained_intron	KNOWN	None	10363	None	None	74203349	74204138	-1	None	humL7-1, L7
8	RPL7	ENSG00000147604	ENST00000435330	protein_coding	PUTATIVE	None	10363	298	98	74204018	74205157	-1	None	humL7-1, L7
8	RPL7	ENSG00000147604	ENST00000431653	protein_coding	PUTATIVE	None	10363	265	87	74204051	74205577	-1	None	humL7-1, L7
4	KLB	ENSG00000134962	ENST00000257408	protein_coding	KNOWN	CCDS3451	15527	3135	1044	39408473	39453156	1	None	None
15	MAP2K1	ENSG00000169032	ENST00000307102	protein_coding	KNOWN	CCDS10216	6840	1182	393	66679155	66784650	1	PRKMK1	MEK1, MAPKK1
15	MAP2K1	ENSG00000169032	ENST00000425818	retained_intron	KNOWN	None	6840	None	None	66679175	66737304	1	PRKMK1	MEK1, MAPKK1
15	MAP2K1	ENSG00000169032	ENST00000566326	protein_coding	PUTATIVE	None	6840	654	217	66745792	66783681	1	PRKMK1	MEK1, MAPKK1
4	RPL9	ENSG00000163682	ENST00000295955	protein_coding	KNOWN	CCDS3452	10369	579	192	39455744	39460568	-1	None	L9
4	RPL9	ENSG00000163682	ENST00000503277	retained_intron	KNOWN	None	10369	None	None	39455752	39460061	-1	None	L9
4	RPL9	ENSG00000163682	ENST00000449470	protein_coding	KNOWN	CCDS3452	10369	579	192	39455757	39460508	-1	None	L9
4	RPL9	ENSG00000163682	ENST00000508595	protein_coding	PUTATIVE	None	10369	568	188	39455757	39460545	-1	None	L9
4	RPL9	ENSG00000163682	ENST00000511643	retained_intron	KNOWN	None	10369	None	None	39455758	39456896	-1	None	L9
4	RPL9	ENSG00000163682	ENST00000506581	protein_coding	NOVEL	None	10369	274	90	39455759	39459302	-1	None	L9
4	RPL9	ENSG00000163682	ENST00000514842	retained_intron	KNOWN	None	10369	None	None	39455791	39460521	-1	None	L9
4	RPL9	ENSG00000163682	ENST00000503040	protein_coding	NOVEL	None	10369	545	180	39456182	39460535	-1	None	L9
4	RPL9	ENSG00000163682	ENST00000504470	protein_coding	KNOWN	None	10369	498	165	39456244	39460542	-1	None	L9
4	RPL9	ENSG00000163682	ENST00000511075	retained_intron	KNOWN	None	10369	None	None	39457431	39460551	-1	None	L9
4	RPL9	ENSG00000163682	ENST00000437992	retained_intron	KNOWN	None	10369	None	None	39457948	39460535	-1	None	L9
X	AMMECR1	ENSG00000101935	ENST00000262844	protein_coding	KNOWN	CCDS14551	467	1002	333	109437414	109561467	-1	None	None
X	AMMECR1	ENSG00000101935	ENST00000372059	protein_coding	KNOWN	CCDS35368	467	891	296	109439600	109561312	-1	None	None
X	AMMECR1	ENSG00000101935	ENST00000372057	protein_coding	KNOWN	CCDS55476	467	633	210	109439638	109683461	-1	None	None
X	AMMECR1	ENSG00000101935	ENST00000473662	processed_transcript	KNOWN	None	467	None	None	109462708	109560999	-1	None	None
X	AMMECR1	ENSG00000101935	ENST00000496695	processed_transcript	KNOWN	None	467	None	None	109552378	109560984	-1	None	None
8	RDH10	ENSG00000121039	ENST00000240285	protein_coding	KNOWN	CCDS6213	19975	1026	341	74206847	74237516	1	None	SDR16C4
8	RDH10	ENSG00000121039	ENST00000518870	retained_intron	KNOWN	None	19975	None	None	74207751	74209975	1	None	SDR16C4
8	RDH10	ENSG00000121039	ENST00000521928	protein_coding	PUTATIVE	None	19975	186	61	74208074	74233223	1	None	SDR16C4
8	RDH10	ENSG00000121039	ENST00000519380	protein_coding	PUTATIVE	None	19975	531	176	74209251	74235334	1	None	SDR16C4
8	RDH10	ENSG00000121039	ENST00000521013	retained_intron	KNOWN	None	19975	None	None	74234075	74235543	1	None	SDR16C4
9	TYRP1	ENSG00000107165	ENST00000473763	protein_coding	KNOWN	None	12450	307	101	12685439	12694303	1	TYRP, CAS2	GP75, CATB, TRP, b-PROTEIN, OCA3
9	TYRP1	ENSG00000107165	ENST00000459790	retained_intron	KNOWN	None	12450	None	None	12693309	12694487	1	TYRP, CAS2	GP75, CATB, TRP, b-PROTEIN, OCA3
9	TYRP1	ENSG00000107165	ENST00000388918	protein_coding	KNOWN	CCDS34990	12450	1614	537	12693435	12710290	1	TYRP, CAS2	GP75, CATB, TRP, b-PROTEIN, OCA3
9	TYRP1	ENSG00000107165	ENST00000381136	protein_coding	PUTATIVE	None	12450	744	247	12695720	12709235	1	TYRP, CAS2	GP75, CATB, TRP, b-PROTEIN, OCA3
9	TYRP1	ENSG00000107165	ENST00000381142	processed_transcript	KNOWN	None	12450	None	None	12698506	12709267	1	TYRP, CAS2	GP75, CATB, TRP, b-PROTEIN, OCA3
9	TYRP1	ENSG00000107165	ENST00000470909	processed_transcript	KNOWN	None	12450	None	None	12701645	12702442	1	TYRP, CAS2	GP75, CATB, TRP, b-PROTEIN, OCA3
9	TYRP1	ENSG00000107165	ENST00000473504	processed_transcript	KNOWN	None	12450	None	None	12707671	12709294	1	TYRP, CAS2	GP75, CATB, TRP, b-PROTEIN, OCA3
9	TYRP1	ENSG00000107165	ENST00000381137	protein_coding	KNOWN	None	12450	741	246	12693386	12710266	1	TYRP, CAS2	GP75, CATB, TRP, b-PROTEIN, OCA3
15	SNAPC5	ENSG00000174446	ENST00000563480	protein_coding	KNOWN	CCDS10217	15484	297	98	66782473	66790088	-1	None	SNAP19
15	SNAPC5	ENSG00000174446	ENST00000395589	protein_coding	KNOWN	CCDS10217	15484	297	98	66782644	66790088	-1	None	SNAP19
15	SNAPC5	ENSG00000174446	ENST00000562411	nonsense_mediated_decay	KNOWN	CCDS10217	15484	297	98	66782974	66790118	-1	None	SNAP19
15	SNAPC5	ENSG00000174446	ENST00000568875	nonsense_mediated_decay	KNOWN	None	15484	252	83	66785806	66790118	-1	None	SNAP19
15	SNAPC5	ENSG00000174446	ENST00000316634	protein_coding	KNOWN	CCDS10217	15484	297	98	66786151	66790151	-1	None	SNAP19
15	SNAPC5	ENSG00000174446	ENST00000565465	nonsense_mediated_decay	KNOWN	None	15484	204	67	66786182	66790097	-1	None	SNAP19
15	SNAPC5	ENSG00000174446	ENST00000307979	protein_coding	NOVEL	None	15484	207	68	66786218	66790100	-1	None	SNAP19
15	SNAPC5	ENSG00000174446	ENST00000566658	protein_coding	PUTATIVE	None	15484	204	67	66786566	66790076	-1	None	SNAP19
8	STAU2	ENSG00000040341	ENST00000522695	protein_coding	KNOWN	CCDS55248	11371	1617	538	74332604	74650562	-1	None	39K2
8	STAU2	ENSG00000040341	ENST00000524300	protein_coding	KNOWN	CCDS55247	11371	1713	570	74332606	74659172	-1	None	39K2
8	STAU2	ENSG00000040341	ENST00000522818	processed_transcript	KNOWN	None	11371	None	None	74333194	74371022	-1	None	39K2
8	STAU2	ENSG00000040341	ENST00000523558	protein_coding	PUTATIVE	CCDS55244	11371	1197	398	74333365	74659075	-1	None	39K2
8	STAU2	ENSG00000040341	ENST00000521210	protein_coding	PUTATIVE	CCDS55245	11371	1515	504	74333447	74659075	-1	None	39K2
8	STAU2	ENSG00000040341	ENST00000523533	protein_coding	PUTATIVE	None	11371	489	162	74439604	74495065	-1	None	39K2
8	STAU2	ENSG00000040341	ENST00000355780	protein_coding	KNOWN	CCDS6214	11371	1440	479	74461839	74659075	-1	None	39K2
8	STAU2	ENSG00000040341	ENST00000519961	protein_coding	NOVEL	None	11371	1536	511	74461927	74650579	-1	None	39K2
8	STAU2	ENSG00000040341	ENST00000521727	protein_coding	PUTATIVE	None	11371	1476	491	74462021	74659932	-1	None	39K2
8	STAU2	ENSG00000040341	ENST00000521451	protein_coding	PUTATIVE	None	11371	876	291	74462782	74659119	-1	None	39K2
8	STAU2	ENSG00000040341	ENST00000522509	protein_coding	KNOWN	CCDS6214	11371	1440	479	74463878	74659943	-1	None	39K2
8	STAU2	ENSG00000040341	ENST00000517542	protein_coding	PUTATIVE	CCDS55246	11371	1422	473	74464065	74659114	-1	None	39K2
8	STAU2	ENSG00000040341	ENST00000518981	nonsense_mediated_decay	KNOWN	None	11371	1173	390	74464131	74659706	-1	None	39K2
8	STAU2	ENSG00000040341	ENST00000518767	protein_coding	PUTATIVE	None	11371	960	319	74464301	74659701	-1	None	39K2
8	STAU2	ENSG00000040341	ENST00000518502	protein_coding	PUTATIVE	None	11371	405	134	74464361	74659138	-1	None	39K2
8	STAU2	ENSG00000040341	ENST00000521293	processed_transcript	KNOWN	None	11371	None	None	74526126	74659075	-1	None	39K2
8	STAU2	ENSG00000040341	ENST00000521447	protein_coding	KNOWN	None	11371	612	203	74526162	74659084	-1	None	39K2
8	STAU2	ENSG00000040341	ENST00000524104	protein_coding	KNOWN	None	11371	318	105	74564492	74659075	-1	None	39K2
8	STAU2	ENSG00000040341	ENST00000522962	processed_transcript	KNOWN	None	11371	None	None	74565733	74659053	-1	None	39K2
8	STAU2	ENSG00000040341	ENST00000521419	protein_coding	PUTATIVE	None	11371	378	125	74565893	74659123	-1	None	39K2
8	STAU2	ENSG00000040341	ENST00000524191	processed_transcript	KNOWN	None	11371	None	None	74584419	74659117	-1	None	39K2
8	STAU2	ENSG00000040341	ENST00000524113	retained_intron	KNOWN	None	11371	None	None	74585217	74659075	-1	None	39K2
8	STAU2	ENSG00000040341	ENST00000520945	processed_transcript	KNOWN	None	11371	None	None	74585374	74659075	-1	None	39K2
8	STAU2	ENSG00000040341	ENST00000521736	protein_coding	KNOWN	None	11371	191	62	74585465	74659075	-1	None	39K2
8	STAU2	ENSG00000040341	ENST00000521845	processed_transcript	KNOWN	None	11371	None	None	74585475	74659075	-1	None	39K2
8	STAU2	ENSG00000040341	ENST00000520872	processed_transcript	KNOWN	None	11371	None	None	74600886	74659708	-1	None	39K2
8	STAU2	ENSG00000040341	ENST00000519818	processed_transcript	KNOWN	None	11371	None	None	74600970	74659078	-1	None	39K2
8	STAU2	ENSG00000040341	ENST00000522061	processed_transcript	KNOWN	None	11371	None	None	74600988	74659075	-1	None	39K2
8	STAU2	ENSG00000040341	ENST00000523160	processed_transcript	KNOWN	None	11371	None	None	74650536	74659601	-1	None	39K2
14	None	ENSG00000258847	ENST00000554907	protein_coding	PUTATIVE	None	None	261	86	66424015	66471241	-1	None	None
X	GNG5P2	ENSG00000133136	ENST00000372054	protein_coding	KNOWN	None	24826	207	68	109589700	109590201	-1	None	None
14	GPHN	ENSG00000171723	ENST00000315266	protein_coding	KNOWN	CCDS32103	15465	2211	736	66974125	67648515	1	None	KIAA1385
14	GPHN	ENSG00000171723	ENST00000478722	protein_coding	KNOWN	CCDS9777	15465	2310	769	66974125	67648520	1	None	KIAA1385
14	GPHN	ENSG00000171723	ENST00000459628	protein_coding	PUTATIVE	None	15465	1143	380	66974856	67525746	1	None	KIAA1385
14	GPHN	ENSG00000171723	ENST00000543237	protein_coding	NOVEL	None	15465	2349	782	66975222	67647740	1	None	KIAA1385
14	GPHN	ENSG00000171723	ENST00000555668	nonsense_mediated_decay	KNOWN	None	15465	150	49	66975225	67346750	1	None	KIAA1385
14	GPHN	ENSG00000171723	ENST00000556633	nonsense_mediated_decay	KNOWN	None	15465	153	50	66975225	67389475	1	None	KIAA1385
14	GPHN	ENSG00000171723	ENST00000557654	nonsense_mediated_decay	KNOWN	None	15465	150	49	66975234	67346751	1	None	KIAA1385
14	GPHN	ENSG00000171723	ENST00000553936	nonsense_mediated_decay	KNOWN	None	15465	120	39	66975234	67382751	1	None	KIAA1385
14	GPHN	ENSG00000171723	ENST00000556020	processed_transcript	KNOWN	None	15465	None	None	66975777	67291272	1	None	KIAA1385
14	GPHN	ENSG00000171723	ENST00000544752	processed_transcript	KNOWN	None	15465	None	None	67289813	67647810	1	None	KIAA1385
14	GPHN	ENSG00000171723	ENST00000555456	protein_coding	NOVEL	None	15465	841	279	67291192	67525443	1	None	KIAA1385
14	GPHN	ENSG00000171723	ENST00000556501	retained_intron	KNOWN	None	15465	None	None	67525366	67577004	1	None	KIAA1385
14	GPHN	ENSG00000171723	ENST00000555527	processed_transcript	KNOWN	None	15465	None	None	67578632	67635708	1	None	KIAA1385
14	GPHN	ENSG00000171723	ENST00000555503	protein_coding	PUTATIVE	None	15465	606	201	67579787	67635853	1	None	KIAA1385
14	GPHN	ENSG00000171723	ENST00000557678	retained_intron	KNOWN	None	15465	None	None	67609718	67631947	1	None	KIAA1385
14	GPHN	ENSG00000171723	ENST00000556240	protein_coding	PUTATIVE	None	15465	182	59	67647566	67648509	1	None	KIAA1385
14	GPHN	ENSG00000171723	ENST00000305960	protein_coding	KNOWN	None	15465	2118	705	66975231	67647914	1	None	KIAA1385
15	RPL4	ENSG00000174444	ENST00000307961	protein_coding	KNOWN	CCDS10218	10353	1284	427	66790355	66797221	-1	None	L4
15	RPL4	ENSG00000174444	ENST00000567229	retained_intron	KNOWN	None	10353	None	None	66791658	66797184	-1	None	L4
15	RPL4	ENSG00000174444	ENST00000565723	processed_transcript	KNOWN	None	10353	None	None	66791661	66792156	-1	None	L4
15	RPL4	ENSG00000174444	ENST00000568588	protein_coding	PUTATIVE	None	10353	1002	333	66791661	66816870	-1	None	L4
15	RPL4	ENSG00000174444	ENST00000561775	retained_intron	KNOWN	None	10353	None	None	66791684	66797165	-1	None	L4
15	RPL4	ENSG00000174444	ENST00000569696	protein_coding	PUTATIVE	None	10353	513	170	66791913	66797184	-1	None	L4
15	RPL4	ENSG00000174444	ENST00000564744	retained_intron	KNOWN	None	10353	None	None	66792394	66793180	-1	None	L4
15	RPL4	ENSG00000174444	ENST00000564647	retained_intron	KNOWN	None	10353	None	None	66792396	66794745	-1	None	L4
15	RPL4	ENSG00000174444	ENST00000563473	processed_transcript	KNOWN	None	10353	None	None	66792469	66793719	-1	None	L4
15	RPL4	ENSG00000174444	ENST00000566039	retained_intron	KNOWN	None	10353	None	None	66793346	66797184	-1	None	L4
15	RPL4	ENSG00000174444	ENST00000564439	retained_intron	KNOWN	None	10353	None	None	66793737	66797183	-1	None	L4
15	RPL4	ENSG00000174444	ENST00000566622	retained_intron	KNOWN	None	10353	None	None	66793898	66797171	-1	None	L4
15	RPL4	ENSG00000174444	ENST00000569438	protein_coding	PUTATIVE	None	10353	510	169	66794123	66797183	-1	None	L4
15	RPL4	ENSG00000174444	ENST00000566624	retained_intron	KNOWN	None	10353	None	None	66794608	66797184	-1	None	L4
15	RPL4	ENSG00000174444	ENST00000561554	retained_intron	KNOWN	None	10353	None	None	66795040	66797184	-1	None	L4
15	RPL4	ENSG00000174444	ENST00000566491	retained_intron	KNOWN	None	10353	None	None	66795334	66797184	-1	None	L4
15	RPL4	ENSG00000174444	ENST00000564517	processed_transcript	PUTATIVE	None	10353	None	None	66797581	66815749	-1	None	L4
X	RGAG1	ENSG00000243978	ENST00000520821	protein_coding	KNOWN	None	29245	264	87	109602044	109694109	1	None	KIAA1318, Mart9, Mar9
X	RGAG1	ENSG00000243978	ENST00000465301	protein_coding	KNOWN	CCDS14552	29245	4167	1388	109662285	109699562	1	None	KIAA1318, Mart9, Mar9
X	RGAG1	ENSG00000243978	ENST00000540313	protein_coding	KNOWN	CCDS14552	29245	4167	1388	109693793	109699554	1	None	KIAA1318, Mart9, Mar9
9	LURAP1L	ENSG00000153714	ENST00000319264	protein_coding	KNOWN	CCDS6473	31452	687	228	12775020	12822130	1	C9orf150	MGC46502, FLJ38505, bA3L8.2
9	LURAP1L	ENSG00000153714	ENST00000489107	processed_transcript	KNOWN	None	31452	None	None	12775667	12777577	1	C9orf150	MGC46502, FLJ38505, bA3L8.2
4	LIAS	ENSG00000121897	ENST00000340169	protein_coding	KNOWN	CCDS3454	16429	969	322	39460620	39479204	1	None	LAS
4	LIAS	ENSG00000121897	ENST00000261434	protein_coding	KNOWN	CCDS3453	16429	1119	372	39460620	39479273	1	None	LAS
4	LIAS	ENSG00000121897	ENST00000509519	retained_intron	KNOWN	None	16429	None	None	39460665	39465858	1	None	LAS
4	LIAS	ENSG00000121897	ENST00000424936	retained_intron	KNOWN	None	16429	None	None	39460678	39465783	1	None	LAS
4	LIAS	ENSG00000121897	ENST00000513731	protein_coding	NOVEL	None	16429	729	242	39460686	39478775	1	None	LAS
4	LIAS	ENSG00000121897	ENST00000381846	protein_coding	NOVEL	None	16429	990	329	39460692	39479241	1	None	LAS
4	LIAS	ENSG00000121897	ENST00000515061	processed_transcript	KNOWN	None	16429	None	None	39460740	39467692	1	None	LAS
X	CHRDL1	ENSG00000101938	ENST00000372045	protein_coding	KNOWN	None	29861	1353	450	109917084	110038993	-1	None	NRLN1, CHL
X	CHRDL1	ENSG00000101938	ENST00000394797	protein_coding	KNOWN	CCDS14553	29861	1371	456	109918473	110038993	-1	None	NRLN1, CHL
X	CHRDL1	ENSG00000101938	ENST00000372042	protein_coding	KNOWN	CCDS48149	29861	1377	458	109919004	110039039	-1	None	NRLN1, CHL
X	CHRDL1	ENSG00000101938	ENST00000482160	protein_coding	NOVEL	CCDS48148	29861	1137	378	109919169	110039047	-1	None	NRLN1, CHL
X	CHRDL1	ENSG00000101938	ENST00000444321	protein_coding	KNOWN	CCDS48150	29861	1374	457	109919285	110039047	-1	None	NRLN1, CHL
X	CHRDL1	ENSG00000101938	ENST00000434224	protein_coding	KNOWN	None	29861	1134	377	109917092	110039286	-1	None	NRLN1, CHL
X	CHRDL1	ENSG00000101938	ENST00000218054	protein_coding	KNOWN	CCDS14553	29861	1371	456	109917092	110039076	-1	None	NRLN1, CHL
9	ASTN2	ENSG00000148219	ENST00000288520	protein_coding	KNOWN	CCDS48009	17021	1323	440	119187507	119449494	-1	None	KIAA0634
9	ASTN2	ENSG00000148219	ENST00000341734	protein_coding	KNOWN	CCDS6814	17021	1188	395	119187507	119449513	-1	None	KIAA0634
9	ASTN2	ENSG00000148219	ENST00000373986	protein_coding	NOVEL	None	17021	3189	1062	119187507	119976832	-1	None	KIAA0634
9	ASTN2	ENSG00000148219	ENST00000361209	protein_coding	KNOWN	CCDS6815	17021	3867	1288	119187507	120177348	-1	None	KIAA0634
9	ASTN2	ENSG00000148219	ENST00000417725	protein_coding	KNOWN	None	17021	296	97	119199502	119203014	-1	None	KIAA0634
9	ASTN2	ENSG00000148219	ENST00000358637	protein_coding	KNOWN	CCDS55334	17021	585	194	119373179	119449500	-1	None	KIAA0634
9	ASTN2	ENSG00000148219	ENST00000361477	protein_coding	KNOWN	CCDS6814	17021	1188	395	119187869	120177317	-1	None	KIAA0634
9	ASTN2	ENSG00000148219	ENST00000313400	protein_coding	KNOWN	None	17021	4020	1339	119187504	120177317	-1	None	KIAA0634
9	ASTN2	ENSG00000148219	ENST00000373996	protein_coding	KNOWN	None	17021	4008	1335	119187504	120177216	-1	None	KIAA0634
9	MPDZ	ENSG00000107186	ENST00000319217	protein_coding	KNOWN	None	7208	6213	2070	13105703	13279589	-1	None	MUPP1
9	MPDZ	ENSG00000107186	ENST00000381017	retained_intron	KNOWN	None	7208	None	None	13105705	13120649	-1	None	MUPP1
9	MPDZ	ENSG00000107186	ENST00000541718	protein_coding	KNOWN	CCDS47951	7208	6126	2041	13105709	13279563	-1	None	MUPP1
9	MPDZ	ENSG00000107186	ENST00000539508	retained_intron	KNOWN	None	7208	None	None	13106490	13190176	-1	None	MUPP1
9	MPDZ	ENSG00000107186	ENST00000438511	protein_coding	NOVEL	None	7208	1836	611	13106497	13136180	-1	None	MUPP1
9	MPDZ	ENSG00000107186	ENST00000319198	retained_intron	KNOWN	None	7208	None	None	13106497	13175891	-1	None	MUPP1
9	MPDZ	ENSG00000107186	ENST00000545857	protein_coding	NOVEL	None	7208	3021	1006	13106571	13175823	-1	None	MUPP1
9	MPDZ	ENSG00000107186	ENST00000538841	protein_coding	PUTATIVE	None	7208	2790	929	13106741	13165468	-1	None	MUPP1
9	MPDZ	ENSG00000107186	ENST00000536827	protein_coding	NOVEL	CCDS59119	7208	6027	2008	13106858	13250357	-1	None	MUPP1
9	MPDZ	ENSG00000107186	ENST00000447879	protein_coding	NOVEL	CCDS59120	7208	6114	2037	13106859	13250357	-1	None	MUPP1
9	MPDZ	ENSG00000107186	ENST00000542806	nonsense_mediated_decay	KNOWN	None	7208	103	33	13106930	13140044	-1	None	MUPP1
9	MPDZ	ENSG00000107186	ENST00000546205	protein_coding	NOVEL	None	7208	6255	2084	13106942	13279406	-1	None	MUPP1
9	MPDZ	ENSG00000107186	ENST00000437441	nonsense_mediated_decay	KNOWN	None	7208	239	78	13115320	13123270	-1	None	MUPP1
9	MPDZ	ENSG00000107186	ENST00000535169	nonsense_mediated_decay	KNOWN	None	7208	287	94	13125215	13140069	-1	None	MUPP1
9	MPDZ	ENSG00000107186	ENST00000540202	processed_transcript	KNOWN	None	7208	None	None	13136155	13140942	-1	None	MUPP1
9	MPDZ	ENSG00000107186	ENST00000433359	protein_coding	PUTATIVE	None	7208	575	190	13138047	13165506	-1	None	MUPP1
9	MPDZ	ENSG00000107186	ENST00000542239	protein_coding	PUTATIVE	None	7208	386	127	13143484	13165457	-1	None	MUPP1
9	MPDZ	ENSG00000107186	ENST00000494251	nonsense_mediated_decay	KNOWN	None	7208	92	29	13205919	13219697	-1	None	MUPP1
9	MPDZ	ENSG00000107186	ENST00000381022	protein_coding	KNOWN	CCDS47951	7208	6126	2041	13105711	13250365	-1	None	MUPP1
9	MPDZ	ENSG00000107186	ENST00000381015	protein_coding	KNOWN	None	7208	6213	2070	13106859	13250357	-1	None	MUPP1
9	MPDZ	ENSG00000107186	ENST00000541093	protein_coding	KNOWN	None	7208	915	304	13106497	13136180	-1	None	MUPP1
4	UGDH	ENSG00000109814	ENST00000316423	protein_coding	KNOWN	CCDS3455	12525	1485	494	39500375	39529238	-1	None	None
4	UGDH	ENSG00000109814	ENST00000501493	protein_coding	NOVEL	CCDS54758	12525	1284	427	39500383	39529057	-1	None	None
4	UGDH	ENSG00000109814	ENST00000506179	protein_coding	KNOWN	CCDS3455	12525	1485	494	39500408	39528177	-1	None	None
4	UGDH	ENSG00000109814	ENST00000507089	protein_coding	PUTATIVE	CCDS54757	12525	1194	397	39501531	39529059	-1	None	None
4	UGDH	ENSG00000109814	ENST00000515021	protein_coding	PUTATIVE	None	12525	544	180	39512131	39529184	-1	None	None
4	UGDH	ENSG00000109814	ENST00000514106	protein_coding	KNOWN	None	12525	459	152	39512287	39529520	-1	None	None
4	UGDH	ENSG00000109814	ENST00000510881	nonsense_mediated_decay	KNOWN	None	12525	168	55	39512317	39529535	-1	None	None
4	UGDH	ENSG00000109814	ENST00000503779	nonsense_mediated_decay	KNOWN	None	12525	168	55	39512329	39529057	-1	None	None
4	UGDH	ENSG00000109814	ENST00000509391	protein_coding	KNOWN	None	12525	390	129	39512356	39529057	-1	None	None
4	UGDH	ENSG00000109814	ENST00000515398	processed_transcript	KNOWN	None	12525	None	None	39512435	39529853	-1	None	None
4	UGDH	ENSG00000109814	ENST00000505698	protein_coding	KNOWN	None	12525	254	83	39515713	39529931	-1	None	None
4	UGDH	ENSG00000109814	ENST00000510490	protein_coding	KNOWN	None	12525	161	52	39522972	39529218	-1	None	None
X	PAK3	ENSG00000077264	ENST00000484442	processed_transcript	KNOWN	None	8592	None	None	110339553	110342014	1	MRX30, MRX47	hPAK3, bPAK
X	PAK3	ENSG00000077264	ENST00000372010	protein_coding	KNOWN	CCDS48153	8592	1680	559	110339588	110464159	1	MRX30, MRX47	hPAK3, bPAK
X	PAK3	ENSG00000077264	ENST00000519681	protein_coding	KNOWN	CCDS48152	8592	1698	565	110339588	110464173	1	MRX30, MRX47	hPAK3, bPAK
X	PAK3	ENSG00000077264	ENST00000372007	protein_coding	KNOWN	CCDS14554	8592	1635	544	110339605	110464159	1	MRX30, MRX47	hPAK3, bPAK
X	PAK3	ENSG00000077264	ENST00000518291	protein_coding	KNOWN	CCDS48151	8592	1743	580	110340615	110463675	1	MRX30, MRX47	hPAK3, bPAK
X	PAK3	ENSG00000077264	ENST00000429193	protein_coding	KNOWN	None	8592	545	180	110366304	110395644	1	MRX30, MRX47	hPAK3, bPAK
X	PAK3	ENSG00000077264	ENST00000487802	processed_transcript	KNOWN	None	8592	None	None	110385371	110395990	1	MRX30, MRX47	hPAK3, bPAK
X	PAK3	ENSG00000077264	ENST00000446737	protein_coding	KNOWN	CCDS14554	8592	1635	544	110187513	110464146	1	MRX30, MRX47	hPAK3, bPAK
X	PAK3	ENSG00000077264	ENST00000425146	protein_coding	KNOWN	CCDS14554	8592	1635	544	110187513	110464146	1	MRX30, MRX47	hPAK3, bPAK
X	PAK3	ENSG00000077264	ENST00000360648	protein_coding	KNOWN	CCDS48151	8592	1743	580	110366305	110464146	1	MRX30, MRX47	hPAK3, bPAK
X	PAK3	ENSG00000077264	ENST00000417227	protein_coding	KNOWN	CCDS48152	8592	1698	565	110366305	110464146	1	MRX30, MRX47	hPAK3, bPAK
X	PAK3	ENSG00000077264	ENST00000262836	protein_coding	KNOWN	CCDS48153	8592	1680	559	110366305	110464146	1	MRX30, MRX47	hPAK3, bPAK
4	SMIM14	ENSG00000163683	ENST00000295958	protein_coding	KNOWN	CCDS3456	27321	300	99	39552541	39640710	-1	C4orf34	FLJ13289
4	SMIM14	ENSG00000163683	ENST00000512441	processed_transcript	KNOWN	None	27321	None	None	39553230	39585578	-1	C4orf34	FLJ13289
4	SMIM14	ENSG00000163683	ENST00000511809	protein_coding	NOVEL	None	27321	165	54	39553263	39640513	-1	C4orf34	FLJ13289
4	SMIM14	ENSG00000163683	ENST00000510628	processed_transcript	KNOWN	None	27321	None	None	39553405	39639850	-1	C4orf34	FLJ13289
4	SMIM14	ENSG00000163683	ENST00000507613	nonsense_mediated_decay	KNOWN	None	27321	117	38	39553459	39640465	-1	C4orf34	FLJ13289
4	SMIM14	ENSG00000163683	ENST00000505729	protein_coding	KNOWN	None	27321	268	88	39558047	39640522	-1	C4orf34	FLJ13289
4	UBE2K	ENSG00000078140	ENST00000261427	protein_coding	KNOWN	CCDS33976	4914	603	200	39699664	39784412	1	HIP2	HYPG, UBC1
4	UBE2K	ENSG00000078140	ENST00000510934	protein_coding	NOVEL	None	4914	370	122	39699729	39780004	1	HIP2	HYPG, UBC1
4	UBE2K	ENSG00000078140	ENST00000513231	processed_transcript	KNOWN	None	4914	None	None	39699759	39780227	1	HIP2	HYPG, UBC1
4	UBE2K	ENSG00000078140	ENST00000438068	processed_transcript	KNOWN	None	4914	None	None	39699759	39781612	1	HIP2	HYPG, UBC1
4	UBE2K	ENSG00000078140	ENST00000503368	protein_coding	KNOWN	CCDS47044	4914	450	149	39699783	39780330	1	HIP2	HYPG, UBC1
4	UBE2K	ENSG00000078140	ENST00000445950	protein_coding	NOVEL	CCDS47043	4914	474	157	39699796	39781603	1	HIP2	HYPG, UBC1
4	UBE2K	ENSG00000078140	ENST00000510719	nonsense_mediated_decay	KNOWN	None	4914	135	44	39699948	39780253	1	HIP2	HYPG, UBC1
4	UBE2K	ENSG00000078140	ENST00000295963	protein_coding	KNOWN	None	4914	420	139	39699729	39780638	1	HIP2	HYPG, UBC1
8	None	ENSG00000258677	ENST00000358757	nonsense_mediated_decay	KNOWN	None	None	486	161	74600926	74791089	-1	None	None
8	UBE2W	ENSG00000104343	ENST00000523278	protein_coding	PUTATIVE	None	25616	467	154	74692332	74742709	-1	None	FLJ11011
8	UBE2W	ENSG00000104343	ENST00000517608	protein_coding	KNOWN	CCDS47874	25616	543	180	74698455	74791145	-1	None	FLJ11011
8	UBE2W	ENSG00000104343	ENST00000422906	nonsense_mediated_decay	KNOWN	None	25616	183	60	74702840	74791110	-1	None	FLJ11011
8	UBE2W	ENSG00000104343	ENST00000419880	protein_coding	KNOWN	CCDS47875	25616	576	191	74704598	74791144	-1	None	FLJ11011
8	UBE2W	ENSG00000104343	ENST00000519277	nonsense_mediated_decay	KNOWN	None	25616	183	60	74706059	74791089	-1	None	FLJ11011
8	UBE2W	ENSG00000104343	ENST00000519255	nonsense_mediated_decay	KNOWN	None	25616	183	60	74706277	74791095	-1	None	FLJ11011
8	UBE2W	ENSG00000104343	ENST00000453587	protein_coding	KNOWN	None	25616	480	159	74692332	74791060	-1	None	FLJ11011
8	UBE2W	ENSG00000104343	ENST00000602969	protein_coding	KNOWN	None	25616	489	162	74702842	74791110	-1	None	FLJ11011
8	UBE2W	ENSG00000104343	ENST00000602593	protein_coding	KNOWN	None	25616	456	151	74702842	74791110	-1	None	FLJ11011
14	FAM71D	ENSG00000172717	ENST00000524532	protein_coding	PUTATIVE	None	20101	196	64	67656110	67669847	1	C14orf54	None
14	FAM71D	ENSG00000172717	ENST00000311864	nonsense_mediated_decay	KNOWN	CCDS9778	20101	1269	422	67656146	67695267	1	C14orf54	None
14	FAM71D	ENSG00000172717	ENST00000530728	protein_coding	PUTATIVE	None	20101	233	76	67656157	67669884	1	C14orf54	None
14	FAM71D	ENSG00000172717	ENST00000524914	nonsense_mediated_decay	KNOWN	None	20101	171	56	67656160	67667277	1	C14orf54	None
14	FAM71D	ENSG00000172717	ENST00000534174	nonsense_mediated_decay	KNOWN	None	20101	1203	400	67656178	67695262	1	C14orf54	None
14	FAM71D	ENSG00000172717	ENST00000556046	nonsense_mediated_decay	KNOWN	None	20101	261	86	67663491	67690657	1	C14orf54	None
14	FAM71D	ENSG00000172717	ENST00000531566	processed_transcript	KNOWN	None	20101	None	None	67664006	67670004	1	C14orf54	None
14	FAM71D	ENSG00000172717	ENST00000556117	protein_coding	PUTATIVE	None	20101	157	51	67671665	67690657	1	C14orf54	None
14	FAM71D	ENSG00000172717	ENST00000557671	protein_coding	PUTATIVE	None	20101	215	70	67675034	67691545	1	C14orf54	None
14	FAM71D	ENSG00000172717	ENST00000554500	processed_transcript	PUTATIVE	None	20101	None	None	67694188	67695261	1	C14orf54	None
5	None	ENSG00000224838	ENST00000412930	protein_coding	KNOWN	None	None	375	124	59726565	59726939	1	None	None
X	CAPN6	ENSG00000077274	ENST00000324068	protein_coding	KNOWN	CCDS14555	1483	1926	641	110488331	110513751	-1	None	CAPNX, CalpM, CANPX
X	CAPN6	ENSG00000077274	ENST00000541758	protein_coding	KNOWN	None	1483	1161	386	110489584	110507104	-1	None	CAPNX, CalpM, CANPX
4	PDS5A	ENSG00000121892	ENST00000303538	protein_coding	KNOWN	CCDS47045	29088	4014	1337	39824483	39979576	-1	None	KIAA0648, PIG54, SCC-112
4	PDS5A	ENSG00000121892	ENST00000507766	retained_intron	KNOWN	None	29088	None	None	39838632	39850181	-1	None	KIAA0648, PIG54, SCC-112
4	PDS5A	ENSG00000121892	ENST00000507020	nonsense_mediated_decay	KNOWN	None	29088	381	126	39864606	39876028	-1	None	KIAA0648, PIG54, SCC-112
4	PDS5A	ENSG00000121892	ENST00000503696	retained_intron	KNOWN	None	29088	None	None	39874412	39876020	-1	None	KIAA0648, PIG54, SCC-112
4	PDS5A	ENSG00000121892	ENST00000503396	protein_coding	KNOWN	CCDS54759	29088	1803	600	39899634	39979576	-1	None	KIAA0648, PIG54, SCC-112
4	PDS5A	ENSG00000121892	ENST00000513798	protein_coding	NOVEL	None	29088	494	163	39902046	39929726	-1	None	KIAA0648, PIG54, SCC-112
4	PDS5A	ENSG00000121892	ENST00000512643	nonsense_mediated_decay	KNOWN	None	29088	132	43	39902075	39915346	-1	None	KIAA0648, PIG54, SCC-112
4	PDS5A	ENSG00000121892	ENST00000503867	retained_intron	KNOWN	None	29088	None	None	39905662	39910504	-1	None	KIAA0648, PIG54, SCC-112
4	PDS5A	ENSG00000121892	ENST00000508625	retained_intron	KNOWN	None	29088	None	None	39911685	39915307	-1	None	KIAA0648, PIG54, SCC-112
4	PDS5A	ENSG00000121892	ENST00000506262	retained_intron	KNOWN	None	29088	None	None	39977733	39979130	-1	None	KIAA0648, PIG54, SCC-112
14	MPP5	ENSG00000072415	ENST00000261681	protein_coding	KNOWN	CCDS9779	18669	2028	675	67707826	67802536	1	None	PALS1, FLJ12615
14	MPP5	ENSG00000072415	ENST00000554911	processed_transcript	KNOWN	None	18669	None	None	67708059	67736481	1	None	PALS1, FLJ12615
14	MPP5	ENSG00000072415	ENST00000556345	protein_coding	PUTATIVE	None	18669	375	124	67708140	67746703	1	None	PALS1, FLJ12615
14	MPP5	ENSG00000072415	ENST00000555925	protein_coding	KNOWN	CCDS58325	18669	1926	641	67708140	67802536	1	None	PALS1, FLJ12615
14	MPP5	ENSG00000072415	ENST00000554208	retained_intron	KNOWN	None	18669	None	None	67708152	67738776	1	None	PALS1, FLJ12615
14	MPP5	ENSG00000072415	ENST00000557783	protein_coding	KNOWN	None	18669	448	148	67708155	67759410	1	None	PALS1, FLJ12615
14	MPP5	ENSG00000072415	ENST00000557237	protein_coding	KNOWN	None	18669	14	3	67708344	67746003	1	None	PALS1, FLJ12615
8	TCEB1	ENSG00000154582	ENST00000602840	protein_coding	PUTATIVE	None	11617	198	65	74851404	74884421	-1	None	SIII
8	TCEB1	ENSG00000154582	ENST00000518127	protein_coding	PUTATIVE	CCDS34910	11617	339	112	74857354	74884522	-1	None	SIII
8	TCEB1	ENSG00000154582	ENST00000520210	protein_coding	NOVEL	CCDS56539	11617	291	96	74857843	74884405	-1	None	SIII
8	TCEB1	ENSG00000154582	ENST00000520242	protein_coding	KNOWN	CCDS34910	11617	339	112	74857852	74884482	-1	None	SIII
8	TCEB1	ENSG00000154582	ENST00000519487	protein_coding	PUTATIVE	CCDS34910	11617	339	112	74858499	74882872	-1	None	SIII
8	TCEB1	ENSG00000154582	ENST00000284811	protein_coding	PUTATIVE	CCDS34910	11617	339	112	74858636	74884341	-1	None	SIII
8	TCEB1	ENSG00000154582	ENST00000522337	protein_coding	NOVEL	CCDS34910	11617	339	112	74858708	74884467	-1	None	SIII
8	TCEB1	ENSG00000154582	ENST00000523815	protein_coding	PUTATIVE	CCDS34910	11617	339	112	74858769	74884143	-1	None	SIII
8	TCEB1	ENSG00000154582	ENST00000519082	protein_coding	PUTATIVE	None	11617	269	88	74858935	74884487	-1	None	SIII
X	DCX	ENSG00000077279	ENST00000358070	protein_coding	NOVEL	None	2714	1316	437	110537008	110654177	-1	None	SCLH, DC, LISX, DBCN, XLIS
X	DCX	ENSG00000077279	ENST00000338081	protein_coding	KNOWN	CCDS14556	2714	1326	441	110537008	110654374	-1	None	SCLH, DC, LISX, DBCN, XLIS
X	DCX	ENSG00000077279	ENST00000356220	protein_coding	KNOWN	CCDS14558	2714	1098	365	110543132	110655415	-1	None	SCLH, DC, LISX, DBCN, XLIS
X	DCX	ENSG00000077279	ENST00000488120	protein_coding	KNOWN	CCDS14557	2714	1083	360	110543836	110655603	-1	None	SCLH, DC, LISX, DBCN, XLIS
X	DCX	ENSG00000077279	ENST00000496551	processed_transcript	KNOWN	None	2714	None	None	110573977	110655415	-1	None	SCLH, DC, LISX, DBCN, XLIS
X	DCX	ENSG00000077279	ENST00000468911	protein_coding	KNOWN	None	2714	339	112	110653288	110655035	-1	None	SCLH, DC, LISX, DBCN, XLIS
X	DCX	ENSG00000077279	ENST00000356915	protein_coding	KNOWN	CCDS14558	2714	1098	365	110537007	110655406	-1	None	SCLH, DC, LISX, DBCN, XLIS
X	DCX	ENSG00000077279	ENST00000371993	protein_coding	KNOWN	CCDS14557	2714	1083	360	110537007	110655306	-1	None	SCLH, DC, LISX, DBCN, XLIS
8	TMEM70	ENSG00000175606	ENST00000520167	processed_transcript	KNOWN	None	26050	None	None	74884672	74891369	1	None	FLJ20533
8	TMEM70	ENSG00000175606	ENST00000523794	processed_transcript	KNOWN	None	26050	None	None	74884787	74888726	1	None	FLJ20533
8	TMEM70	ENSG00000175606	ENST00000416961	nonsense_mediated_decay	KNOWN	None	26050	336	111	74888430	74893821	1	None	FLJ20533
8	TMEM70	ENSG00000175606	ENST00000517439	protein_coding	KNOWN	CCDS47876	26050	324	107	74888442	74893601	1	None	FLJ20533
8	TMEM70	ENSG00000175606	ENST00000312184	protein_coding	KNOWN	CCDS6215	26050	783	260	74888444	74895018	1	None	FLJ20533
8	TMEM70	ENSG00000175606	ENST00000517614	retained_intron	KNOWN	None	26050	None	None	74888454	74891256	1	None	FLJ20533
8	TMEM70	ENSG00000175606	ENST00000519551	retained_intron	KNOWN	None	26050	None	None	74890983	74893716	1	None	FLJ20533
15	ZWILCH	ENSG00000174442	ENST00000535141	protein_coding	PUTATIVE	None	25468	1434	477	66797297	66840764	1	None	FLJ10036, KNTC1AP
15	ZWILCH	ENSG00000174442	ENST00000307897	protein_coding	KNOWN	CCDS10219	25468	1776	591	66797297	66842115	1	None	FLJ10036, KNTC1AP
15	ZWILCH	ENSG00000174442	ENST00000446801	protein_coding	KNOWN	None	25468	1434	477	66797455	66841825	1	None	FLJ10036, KNTC1AP
15	ZWILCH	ENSG00000174442	ENST00000563698	retained_intron	KNOWN	None	25468	None	None	66797633	66811420	1	None	FLJ10036, KNTC1AP
15	ZWILCH	ENSG00000174442	ENST00000565627	protein_coding	KNOWN	None	25468	1434	477	66797633	66839043	1	None	FLJ10036, KNTC1AP
15	ZWILCH	ENSG00000174442	ENST00000564309	processed_transcript	KNOWN	None	25468	None	None	66797638	66806860	1	None	FLJ10036, KNTC1AP
15	ZWILCH	ENSG00000174442	ENST00000567926	retained_intron	KNOWN	None	25468	None	None	66797638	66811467	1	None	FLJ10036, KNTC1AP
15	ZWILCH	ENSG00000174442	ENST00000564179	protein_coding	KNOWN	None	25468	253	83	66797638	66813002	1	None	FLJ10036, KNTC1AP
15	ZWILCH	ENSG00000174442	ENST00000565960	processed_transcript	KNOWN	None	25468	None	None	66797664	66812995	1	None	FLJ10036, KNTC1AP
15	ZWILCH	ENSG00000174442	ENST00000561583	retained_intron	KNOWN	None	25468	None	None	66812846	66821271	1	None	FLJ10036, KNTC1AP
15	ZWILCH	ENSG00000174442	ENST00000562645	retained_intron	KNOWN	None	25468	None	None	66815849	66821247	1	None	FLJ10036, KNTC1AP
15	ZWILCH	ENSG00000174442	ENST00000567816	protein_coding	KNOWN	None	25468	297	98	66829507	66839630	1	None	FLJ10036, KNTC1AP
15	ZWILCH	ENSG00000174442	ENST00000569489	protein_coding	KNOWN	None	25468	147	48	66832491	66839225	1	None	FLJ10036, KNTC1AP
5	DEPDC1B	ENSG00000035499	ENST00000265036	protein_coding	KNOWN	CCDS3977	24902	1590	529	59892739	59995988	-1	None	XTP1, BRCC3
5	DEPDC1B	ENSG00000035499	ENST00000453022	protein_coding	KNOWN	CCDS47214	24902	1404	467	59893456	59995961	-1	None	XTP1, BRCC3
5	DEPDC1B	ENSG00000035499	ENST00000512078	nonsense_mediated_decay	KNOWN	None	24902	69	22	59893495	59995961	-1	None	XTP1, BRCC3
5	DEPDC1B	ENSG00000035499	ENST00000509006	processed_transcript	KNOWN	None	24902	None	None	59901511	59924518	-1	None	XTP1, BRCC3
5	DEPDC1B	ENSG00000035499	ENST00000505017	retained_intron	KNOWN	None	24902	None	None	59941343	59943974	-1	None	XTP1, BRCC3
5	DEPDC1B	ENSG00000035499	ENST00000512452	nonsense_mediated_decay	KNOWN	None	24902	111	36	59943225	59996017	-1	None	XTP1, BRCC3
5	DEPDC1B	ENSG00000035499	ENST00000545085	protein_coding	KNOWN	None	24902	1323	440	59893495	59995961	-1	None	XTP1, BRCC3
14	ATP6V1D	ENSG00000100554	ENST00000554087	nonsense_mediated_decay	KNOWN	CCDS9780	13527	744	247	67761088	67826508	-1	ATP6M	VATD, VMA8
14	ATP6V1D	ENSG00000100554	ENST00000553974	processed_transcript	KNOWN	None	13527	None	None	67778722	67804493	-1	ATP6M	VATD, VMA8
14	ATP6V1D	ENSG00000100554	ENST00000553408	protein_coding	PUTATIVE	None	13527	135	44	67802905	67817386	-1	ATP6M	VATD, VMA8
14	ATP6V1D	ENSG00000100554	ENST00000555625	nonsense_mediated_decay	KNOWN	None	13527	462	153	67803395	67815778	-1	ATP6M	VATD, VMA8
14	ATP6V1D	ENSG00000100554	ENST00000555474	protein_coding	NOVEL	None	13527	447	148	67804788	67826520	-1	ATP6M	VATD, VMA8
14	ATP6V1D	ENSG00000100554	ENST00000216442	protein_coding	KNOWN	CCDS9780	13527	744	247	67804788	67826966	-1	ATP6M	VATD, VMA8
14	ATP6V1D	ENSG00000100554	ENST00000555431	protein_coding	PUTATIVE	None	13527	579	192	67804968	67826504	-1	ATP6M	VATD, VMA8
14	ATP6V1D	ENSG00000100554	ENST00000554236	protein_coding	PUTATIVE	None	13527	540	179	67805216	67826504	-1	ATP6M	VATD, VMA8
14	ATP6V1D	ENSG00000100554	ENST00000555723	protein_coding	PUTATIVE	None	13527	360	119	67805272	67819654	-1	ATP6M	VATD, VMA8
14	ATP6V1D	ENSG00000100554	ENST00000556058	nonsense_mediated_decay	KNOWN	None	13527	261	86	67810089	67826511	-1	ATP6M	VATD, VMA8
14	ATP6V1D	ENSG00000100554	ENST00000555335	retained_intron	KNOWN	None	13527	None	None	67815572	67826511	-1	ATP6M	VATD, VMA8
14	ATP6V1D	ENSG00000100554	ENST00000553687	protein_coding	PUTATIVE	None	13527	178	58	67817335	67826549	-1	ATP6M	VATD, VMA8
14	ATP6V1D	ENSG00000100554	ENST00000555012	protein_coding	KNOWN	None	13527	218	71	67817349	67826982	-1	ATP6M	VATD, VMA8
14	ATP6V1D	ENSG00000100554	ENST00000557244	retained_intron	KNOWN	None	13527	None	None	67819448	67826459	-1	ATP6M	VATD, VMA8
X	ALG13	ENSG00000101901	ENST00000487141	processed_transcript	KNOWN	None	30881	None	None	110909043	110956525	1	GLT28D1, CXorf45	MDS031, YGL047W, FLJ23018, TDRD13
X	ALG13	ENSG00000101901	ENST00000371979	protein_coding	KNOWN	CCDS14559	30881	498	165	110924346	110932028	1	GLT28D1, CXorf45	MDS031, YGL047W, FLJ23018, TDRD13
X	ALG13	ENSG00000101901	ENST00000473389	processed_transcript	KNOWN	None	30881	None	None	110924417	110931297	1	GLT28D1, CXorf45	MDS031, YGL047W, FLJ23018, TDRD13
X	ALG13	ENSG00000101901	ENST00000482374	processed_transcript	KNOWN	None	30881	None	None	110924420	110931362	1	GLT28D1, CXorf45	MDS031, YGL047W, FLJ23018, TDRD13
X	ALG13	ENSG00000101901	ENST00000486353	protein_coding	PUTATIVE	None	30881	667	221	110924420	110951538	1	GLT28D1, CXorf45	MDS031, YGL047W, FLJ23018, TDRD13
X	ALG13	ENSG00000101901	ENST00000492038	processed_transcript	KNOWN	None	30881	None	None	110924430	110931687	1	GLT28D1, CXorf45	MDS031, YGL047W, FLJ23018, TDRD13
X	ALG13	ENSG00000101901	ENST00000394780	protein_coding	PUTATIVE	CCDS55477	30881	3414	1137	110924435	111003872	1	GLT28D1, CXorf45	MDS031, YGL047W, FLJ23018, TDRD13
X	ALG13	ENSG00000101901	ENST00000489033	processed_transcript	KNOWN	None	30881	None	None	110924444	110931409	1	GLT28D1, CXorf45	MDS031, YGL047W, FLJ23018, TDRD13
X	ALG13	ENSG00000101901	ENST00000495283	protein_coding	PUTATIVE	None	30881	1268	421	110924460	110967105	1	GLT28D1, CXorf45	MDS031, YGL047W, FLJ23018, TDRD13
X	ALG13	ENSG00000101901	ENST00000468657	processed_transcript	KNOWN	None	30881	None	None	110924464	110931329	1	GLT28D1, CXorf45	MDS031, YGL047W, FLJ23018, TDRD13
X	ALG13	ENSG00000101901	ENST00000471924	processed_transcript	KNOWN	None	30881	None	None	110924464	110951470	1	GLT28D1, CXorf45	MDS031, YGL047W, FLJ23018, TDRD13
X	ALG13	ENSG00000101901	ENST00000482742	processed_transcript	KNOWN	None	30881	None	None	110924891	110931268	1	GLT28D1, CXorf45	MDS031, YGL047W, FLJ23018, TDRD13
X	ALG13	ENSG00000101901	ENST00000470704	processed_transcript	KNOWN	None	30881	None	None	110931955	110952257	1	GLT28D1, CXorf45	MDS031, YGL047W, FLJ23018, TDRD13
X	ALG13	ENSG00000101901	ENST00000436609	protein_coding	PUTATIVE	None	30881	2076	691	110956448	111003877	1	GLT28D1, CXorf45	MDS031, YGL047W, FLJ23018, TDRD13
X	ALG13	ENSG00000101901	ENST00000490774	processed_transcript	KNOWN	None	30881	None	None	110961447	110967087	1	GLT28D1, CXorf45	MDS031, YGL047W, FLJ23018, TDRD13
X	ALG13	ENSG00000101901	ENST00000470971	processed_transcript	KNOWN	None	30881	None	None	110970078	111003495	1	GLT28D1, CXorf45	MDS031, YGL047W, FLJ23018, TDRD13
X	ALG13	ENSG00000101901	ENST00000460092	processed_transcript	KNOWN	None	30881	None	None	110970871	110980107	1	GLT28D1, CXorf45	MDS031, YGL047W, FLJ23018, TDRD13
X	ALG13	ENSG00000101901	ENST00000486578	processed_transcript	KNOWN	None	30881	None	None	110970904	110980161	1	GLT28D1, CXorf45	MDS031, YGL047W, FLJ23018, TDRD13
X	ALG13	ENSG00000101901	ENST00000461669	processed_transcript	KNOWN	None	30881	None	None	110980255	111003389	1	GLT28D1, CXorf45	MDS031, YGL047W, FLJ23018, TDRD13
X	ALG13	ENSG00000101901	ENST00000474121	processed_transcript	KNOWN	None	30881	None	None	110988074	110996394	1	GLT28D1, CXorf45	MDS031, YGL047W, FLJ23018, TDRD13
X	ALG13	ENSG00000101901	ENST00000485371	processed_transcript	KNOWN	None	30881	None	None	110995974	111003032	1	GLT28D1, CXorf45	MDS031, YGL047W, FLJ23018, TDRD13
X	ALG13	ENSG00000101901	ENST00000487243	processed_transcript	PUTATIVE	None	30881	None	None	111000506	111003127	1	GLT28D1, CXorf45	MDS031, YGL047W, FLJ23018, TDRD13
X	ALG13	ENSG00000101901	ENST00000251943	protein_coding	KNOWN	CCDS59173	30881	2865	954	110924346	111003873	1	GLT28D1, CXorf45	MDS031, YGL047W, FLJ23018, TDRD13
8	LY96	ENSG00000154589	ENST00000284818	protein_coding	KNOWN	CCDS6216	17156	483	160	74903587	74941322	1	None	MD-2
8	LY96	ENSG00000154589	ENST00000518893	protein_coding	NOVEL	CCDS56540	17156	393	130	74903661	74941309	1	None	MD-2
8	JPH1	ENSG00000104369	ENST00000342232	protein_coding	KNOWN	CCDS6217	14201	1986	661	75146935	75233563	-1	None	JP-1
8	JPH1	ENSG00000104369	ENST00000518195	processed_transcript	KNOWN	None	14201	None	None	75149038	75157023	-1	None	JP-1
8	JPH1	ENSG00000104369	ENST00000519947	nonsense_mediated_decay	KNOWN	None	14201	240	79	75149468	75233562	-1	None	JP-1
4	N4BP2	ENSG00000078177	ENST00000261435	protein_coding	KNOWN	CCDS3457	29851	5313	1770	40058446	40159872	1	None	B3BP
4	N4BP2	ENSG00000078177	ENST00000511480	nonsense_mediated_decay	KNOWN	None	29851	300	99	40058533	40159871	1	None	B3BP
4	N4BP2	ENSG00000078177	ENST00000515550	protein_coding	PUTATIVE	None	29851	521	172	40058556	40104226	1	None	B3BP
4	N4BP2	ENSG00000078177	ENST00000513269	protein_coding	KNOWN	None	29851	4201	1399	40104527	40157017	1	None	B3BP
8	GDAP1	ENSG00000104381	ENST00000521096	processed_transcript	KNOWN	None	15968	None	None	75233365	75276525	1	CMT4A	CMT4
8	GDAP1	ENSG00000104381	ENST00000520797	processed_transcript	KNOWN	None	15968	None	None	75233749	75276495	1	CMT4A	CMT4
8	GDAP1	ENSG00000104381	ENST00000220822	protein_coding	KNOWN	CCDS34911	15968	1077	358	75262617	75279111	1	CMT4A	CMT4
8	GDAP1	ENSG00000104381	ENST00000434412	protein_coding	KNOWN	CCDS47877	15968	873	290	75262653	75276839	1	CMT4A	CMT4
8	GDAP1	ENSG00000104381	ENST00000523640	processed_transcript	KNOWN	None	15968	None	None	75262669	75272483	1	CMT4A	CMT4
8	GDAP1	ENSG00000104381	ENST00000524366	processed_transcript	KNOWN	None	15968	None	None	75262679	75276264	1	CMT4A	CMT4
8	GDAP1	ENSG00000104381	ENST00000522568	nonsense_mediated_decay	KNOWN	None	15968	183	60	75262679	75276976	1	CMT4A	CMT4
8	GDAP1	ENSG00000104381	ENST00000524195	processed_transcript	KNOWN	None	15968	None	None	75275186	75401107	1	CMT4A	CMT4
14	EIF2S1	ENSG00000134001	ENST00000256383	protein_coding	KNOWN	CCDS9781	3265	948	315	67826714	67853233	1	EIF2	EIF-2alpha, EIF2A
14	EIF2S1	ENSG00000134001	ENST00000556724	retained_intron	KNOWN	None	3265	None	None	67827070	67841365	1	EIF2	EIF-2alpha, EIF2A
14	EIF2S1	ENSG00000134001	ENST00000557310	protein_coding	KNOWN	None	3265	819	272	67827273	67849304	1	EIF2	EIF-2alpha, EIF2A
14	EIF2S1	ENSG00000134001	ENST00000466499	protein_coding	KNOWN	CCDS9781	3265	948	315	67830725	67850839	1	EIF2	EIF-2alpha, EIF2A
14	EIF2S1	ENSG00000134001	ENST00000555876	protein_coding	PUTATIVE	None	3265	758	251	67831615	67849398	1	EIF2	EIF-2alpha, EIF2A
14	EIF2S1	ENSG00000134001	ENST00000554332	retained_intron	KNOWN	None	3265	None	None	67849128	67850385	1	EIF2	EIF-2alpha, EIF2A
15	LCTL	ENSG00000188501	ENST00000341509	protein_coding	KNOWN	CCDS10220	15583	1704	567	66839517	66857835	-1	None	KLPH, FLJ33279, KLG
15	LCTL	ENSG00000188501	ENST00000537670	protein_coding	PUTATIVE	None	15583	1185	394	66839806	66858302	-1	None	KLPH, FLJ33279, KLG
15	LCTL	ENSG00000188501	ENST00000565875	nonsense_mediated_decay	KNOWN	None	15583	111	36	66840671	66858317	-1	None	KLPH, FLJ33279, KLG
15	LCTL	ENSG00000188501	ENST00000563438	processed_transcript	KNOWN	None	15583	None	None	66855905	66858312	-1	None	KLPH, FLJ33279, KLG
15	LCTL	ENSG00000188501	ENST00000562179	processed_transcript	KNOWN	None	15583	None	None	66856616	66858231	-1	None	KLPH, FLJ33279, KLG
4	RHOH	ENSG00000168421	ENST00000505618	protein_coding	KNOWN	CCDS3458	686	576	191	40192673	40245615	1	ARHH	RhoH, TTF
4	RHOH	ENSG00000168421	ENST00000507851	protein_coding	KNOWN	None	686	327	108	40194587	40245333	1	ARHH	RhoH, TTF
4	RHOH	ENSG00000168421	ENST00000503754	processed_transcript	KNOWN	None	686	None	None	40194588	40244877	1	ARHH	RhoH, TTF
4	RHOH	ENSG00000168421	ENST00000508513	protein_coding	KNOWN	None	686	48	15	40194610	40245054	1	ARHH	RhoH, TTF
4	RHOH	ENSG00000168421	ENST00000511967	processed_transcript	KNOWN	None	686	None	None	40194666	40244841	1	ARHH	RhoH, TTF
4	RHOH	ENSG00000168421	ENST00000503941	protein_coding	KNOWN	None	686	309	102	40195283	40245315	1	ARHH	RhoH, TTF
4	RHOH	ENSG00000168421	ENST00000381799	protein_coding	KNOWN	CCDS3458	686	576	191	40198527	40246281	1	ARHH	RhoH, TTF
4	RHOH	ENSG00000168421	ENST00000514839	processed_transcript	KNOWN	None	686	None	None	40198609	40219800	1	ARHH	RhoH, TTF
4	RHOH	ENSG00000168421	ENST00000513894	processed_transcript	KNOWN	None	686	None	None	40198615	40244813	1	ARHH	RhoH, TTF
4	RHOH	ENSG00000168421	ENST00000515702	processed_transcript	KNOWN	None	686	None	None	40198653	40244421	1	ARHH	RhoH, TTF
4	RHOH	ENSG00000168421	ENST00000515718	processed_transcript	KNOWN	None	686	None	None	40198654	40244929	1	ARHH	RhoH, TTF
4	RHOH	ENSG00000168421	ENST00000515503	processed_transcript	KNOWN	None	686	None	None	40198678	40244830	1	ARHH	RhoH, TTF
4	RHOH	ENSG00000168421	ENST00000514143	processed_transcript	KNOWN	None	686	None	None	40198681	40211289	1	ARHH	RhoH, TTF
4	RHOH	ENSG00000168421	ENST00000504638	processed_transcript	PUTATIVE	None	686	None	None	40198865	40244807	1	ARHH	RhoH, TTF
4	RHOH	ENSG00000168421	ENST00000511121	protein_coding	KNOWN	None	686	19	5	40201964	40245025	1	ARHH	RhoH, TTF
4	RHOH	ENSG00000168421	ENST00000503978	processed_transcript	KNOWN	None	686	None	None	40201965	40244872	1	ARHH	RhoH, TTF
8	None	ENSG00000254349	ENST00000518190	protein_coding	PUTATIVE	None	None	144	47	75512010	75615914	1	None	None
8	None	ENSG00000254349	ENST00000523442	nonsense_mediated_decay	KNOWN	None	None	306	101	75512016	75735548	1	None	None
8	None	ENSG00000254349	ENST00000523118	protein_coding	PUTATIVE	None	None	306	101	75512101	75670587	1	None	None
8	None	ENSG00000254349	ENST00000521762	nonsense_mediated_decay	KNOWN	None	None	225	74	75614575	75680718	1	None	None
8	PI15	ENSG00000137558	ENST00000260113	protein_coding	KNOWN	CCDS6218	8946	777	258	75736772	75767264	1	None	P25TI
8	PI15	ENSG00000137558	ENST00000523773	protein_coding	KNOWN	CCDS6218	8946	777	258	75737021	75761660	1	None	P25TI
14	PLEK2	ENSG00000100558	ENST00000216446	protein_coding	KNOWN	CCDS9782	19238	1062	353	67853700	67878917	-1	None	None
14	PLEK2	ENSG00000100558	ENST00000556532	protein_coding	NOVEL	None	19238	353	116	67853704	67859422	-1	None	None
14	PLEK2	ENSG00000100558	ENST00000555803	nonsense_mediated_decay	KNOWN	None	19238	384	127	67854105	67864537	-1	None	None
14	PLEK2	ENSG00000100558	ENST00000554395	protein_coding	NOVEL	None	19238	612	203	67854963	67864387	-1	None	None
14	PLEK2	ENSG00000100558	ENST00000553387	nonsense_mediated_decay	KNOWN	None	19238	234	77	67854969	67878788	-1	None	None
14	PLEK2	ENSG00000100558	ENST00000557388	processed_transcript	KNOWN	None	19238	None	None	67864463	67878884	-1	None	None
8	CRISPLD1	ENSG00000121005	ENST00000262207	protein_coding	KNOWN	CCDS6219	18206	1503	500	75896750	75946793	1	LCRISP1	Cocoacrisp, DKFZp762F133
8	CRISPLD1	ENSG00000121005	ENST00000519798	processed_transcript	KNOWN	None	18206	None	None	75896837	75924785	1	LCRISP1	Cocoacrisp, DKFZp762F133
8	CRISPLD1	ENSG00000121005	ENST00000520277	protein_coding	KNOWN	None	18206	315	104	75896863	75924724	1	LCRISP1	Cocoacrisp, DKFZp762F133
8	CRISPLD1	ENSG00000121005	ENST00000523524	protein_coding	PUTATIVE	None	18206	939	312	75912389	75945076	1	LCRISP1	Cocoacrisp, DKFZp762F133
8	CRISPLD1	ENSG00000121005	ENST00000517786	protein_coding	PUTATIVE	None	18206	945	314	75912409	75945076	1	LCRISP1	Cocoacrisp, DKFZp762F133
10	ZMIZ1	ENSG00000108175	ENST00000334512	protein_coding	KNOWN	CCDS7357	16493	3204	1067	80828792	81076276	1	RAI17	RP11-519K18.1, KIAA1224, FLJ13541, hZIMP10, Zimp10, MIZ
10	ZMIZ1	ENSG00000108175	ENST00000472035	processed_transcript	KNOWN	None	16493	None	None	81003426	81050842	1	RAI17	RP11-519K18.1, KIAA1224, FLJ13541, hZIMP10, Zimp10, MIZ
10	ZMIZ1	ENSG00000108175	ENST00000478357	processed_transcript	KNOWN	None	16493	None	None	81036936	81056692	1	RAI17	RP11-519K18.1, KIAA1224, FLJ13541, hZIMP10, Zimp10, MIZ
10	ZMIZ1	ENSG00000108175	ENST00000446377	protein_coding	KNOWN	None	16493	402	133	81065975	81072506	1	RAI17	RP11-519K18.1, KIAA1224, FLJ13541, hZIMP10, Zimp10, MIZ
6	TRIM38	ENSG00000112343	ENST00000357085	protein_coding	KNOWN	CCDS4568	10059	1398	465	25963030	25987384	1	RNF15	RORET
6	TRIM38	ENSG00000112343	ENST00000349458	protein_coding	KNOWN	CCDS4568	10059	1398	465	25963275	25985348	1	RNF15	RORET
9	NFIB	ENSG00000147862	ENST00000380959	protein_coding	KNOWN	CCDS6474	7785	1263	420	14081847	14313984	-1	None	NFI-RED, NFIB2, NFIB3
9	NFIB	ENSG00000147862	ENST00000380953	protein_coding	KNOWN	CCDS55291	7785	1485	494	14087568	14313666	-1	None	NFI-RED, NFIB2, NFIB3
9	NFIB	ENSG00000147862	ENST00000397575	protein_coding	KNOWN	None	7785	1686	561	14087571	14314068	-1	None	NFI-RED, NFIB2, NFIB3
9	NFIB	ENSG00000147862	ENST00000397581	protein_coding	KNOWN	None	7785	1713	570	14087599	14314518	-1	None	NFI-RED, NFIB2, NFIB3
9	NFIB	ENSG00000147862	ENST00000397579	protein_coding	NOVEL	None	7785	1464	487	14087602	14314581	-1	None	NFI-RED, NFIB2, NFIB3
9	NFIB	ENSG00000147862	ENST00000380924	protein_coding	PUTATIVE	None	7785	507	168	14088303	14180791	-1	None	NFI-RED, NFIB2, NFIB3
9	NFIB	ENSG00000147862	ENST00000380921	protein_coding	PUTATIVE	None	7785	603	200	14305752	14313956	-1	None	NFI-RED, NFIB2, NFIB3
9	NFIB	ENSG00000147862	ENST00000493697	protein_coding	PUTATIVE	None	7785	500	165	14307035	14308012	-1	None	NFI-RED, NFIB2, NFIB3
9	NFIB	ENSG00000147862	ENST00000606230	protein_coding	PUTATIVE	None	7785	177	58	14307361	14322337	-1	None	NFI-RED, NFIB2, NFIB3
9	NFIB	ENSG00000147862	ENST00000543693	protein_coding	KNOWN	None	7785	930	309	14087605	14180797	-1	None	NFI-RED, NFIB2, NFIB3
9	NFIB	ENSG00000147862	ENST00000380934	protein_coding	KNOWN	CCDS55292	7785	1341	446	14081842	14398982	-1	None	NFI-RED, NFIB2, NFIB3
4	GYPA	ENSG00000170180	ENST00000360771	protein_coding	KNOWN	CCDS34069	4702	453	150	145030457	145061904	-1	MNS	GPA, MN, CD235a
4	GYPA	ENSG00000170180	ENST00000510771	retained_intron	KNOWN	None	4702	None	None	145032072	145036058	-1	MNS	GPA, MN, CD235a
4	GYPA	ENSG00000170180	ENST00000324022	protein_coding	NOVEL	None	4702	354	117	145032208	145061846	-1	MNS	GPA, MN, CD235a
4	GYPA	ENSG00000170180	ENST00000508337	nonsense_mediated_decay	KNOWN	None	4702	129	42	145032498	145061825	-1	MNS	GPA, MN, CD235a
4	GYPA	ENSG00000170180	ENST00000512064	protein_coding	NOVEL	None	4702	414	137	145032520	145061788	-1	MNS	GPA, MN, CD235a
4	GYPA	ENSG00000170180	ENST00000512789	protein_coding	PUTATIVE	None	4702	258	85	145032547	145061788	-1	MNS	GPA, MN, CD235a
4	GYPA	ENSG00000170180	ENST00000504786	protein_coding	NOVEL	None	4702	357	118	145032547	145061788	-1	MNS	GPA, MN, CD235a
4	GYPA	ENSG00000170180	ENST00000503627	protein_coding	NOVEL	None	4702	318	105	145032547	145061788	-1	MNS	GPA, MN, CD235a
4	GYPA	ENSG00000170180	ENST00000509346	retained_intron	KNOWN	None	4702	None	None	145039717	145061846	-1	MNS	GPA, MN, CD235a
4	GYPA	ENSG00000170180	ENST00000514603	retained_intron	KNOWN	None	4702	None	None	145040516	145061846	-1	MNS	GPA, MN, CD235a
4	GYPA	ENSG00000170180	ENST00000535709	protein_coding	KNOWN	None	4702	375	124	145032498	145061825	-1	MNS	GPA, MN, CD235a
15	None	ENSG00000259471	ENST00000558797	protein_coding	NOVEL	None	None	342	113	66874528	66978132	1	None	None
15	SMAD6	ENSG00000137834	ENST00000288840	protein_coding	KNOWN	CCDS10221	6772	1491	496	66994566	67074338	1	MADH7, MADH6	HsT17432
15	SMAD6	ENSG00000137834	ENST00000557916	nonsense_mediated_decay	KNOWN	None	6772	1017	338	66995597	67073651	1	MADH7, MADH6	HsT17432
15	SMAD6	ENSG00000137834	ENST00000559931	nonsense_mediated_decay	KNOWN	None	6772	189	62	67004014	67073651	1	MADH7, MADH6	HsT17432
15	SMAD6	ENSG00000137834	ENST00000558937	protein_coding	PUTATIVE	None	6772	168	55	67004035	67009875	1	MADH7, MADH6	HsT17432
15	SMAD6	ENSG00000137834	ENST00000457357	protein_coding	KNOWN	None	6772	1017	338	66994674	67009411	1	MADH7, MADH6	HsT17432
15	SMAD6	ENSG00000137834	ENST00000338426	protein_coding	KNOWN	CCDS45287	6772	708	235	67000930	67074335	1	MADH7, MADH6	HsT17432
6	HIST1H1A	ENSG00000124610	ENST00000244573	protein_coding	KNOWN	CCDS4569	4715	648	215	26017260	26018040	-1	H1F1	H1.1, H1a
6	HIST1H3A	ENSG00000198366	ENST00000357647	protein_coding	KNOWN	CCDS4570	4766	411	136	26020718	26021186	1	H3FA	H3/A
6	HIST1H4A	ENSG00000196176	ENST00000359907	protein_coding	KNOWN	CCDS4571	4781	312	103	26021907	26022278	1	H4FA	None
14	TMEM229B	ENSG00000198133	ENST00000555638	nonsense_mediated_decay	KNOWN	CCDS9783	20130	504	167	67913801	67982202	-1	C14orf83	FLJ33387
14	TMEM229B	ENSG00000198133	ENST00000554675	retained_intron	KNOWN	None	20130	None	None	67921183	67934063	-1	C14orf83	FLJ33387
14	TMEM229B	ENSG00000198133	ENST00000557006	protein_coding	KNOWN	CCDS9783	20130	504	167	67936983	67982188	-1	C14orf83	FLJ33387
14	TMEM229B	ENSG00000198133	ENST00000554278	protein_coding	KNOWN	None	20130	404	133	67940237	68000456	-1	C14orf83	FLJ33387
14	TMEM229B	ENSG00000198133	ENST00000554480	protein_coding	KNOWN	None	20130	239	78	67940402	67955449	-1	C14orf83	FLJ33387
14	TMEM229B	ENSG00000198133	ENST00000555994	protein_coding	KNOWN	None	20130	170	55	67940471	67981899	-1	C14orf83	FLJ33387
14	TMEM229B	ENSG00000198133	ENST00000557779	protein_coding	KNOWN	None	20130	166	54	67940475	67982146	-1	C14orf83	FLJ33387
14	TMEM229B	ENSG00000198133	ENST00000357461	protein_coding	KNOWN	CCDS9783	20130	504	167	67936983	67982021	-1	C14orf83	FLJ33387
6	HIST1H4B	ENSG00000124529	ENST00000377364	protein_coding	KNOWN	CCDS4572	4789	312	103	26027124	26027480	-1	H4FI	H4/I
19	C19orf71	ENSG00000183397	ENST00000329493	protein_coding	KNOWN	CCDS45918	34496	630	209	3539152	3544028	1	None	LOC100128569
6	HIST1H3B	ENSG00000124693	ENST00000244661	protein_coding	KNOWN	CCDS4573	4776	411	136	26031817	26032288	-1	H3FL	H3/l
4	CHRNA9	ENSG00000174343	ENST00000310169	protein_coding	KNOWN	CCDS3459	14079	1440	479	40337346	40357234	1	None	NACHRA9
4	CHRNA9	ENSG00000174343	ENST00000502377	processed_transcript	KNOWN	None	14079	None	None	40339303	40350156	1	None	NACHRA9
4	CHRNA9	ENSG00000174343	ENST00000509518	processed_transcript	KNOWN	None	14079	None	None	40351604	40356111	1	None	NACHRA9
6	HIST1H2AB	ENSG00000137259	ENST00000259791	protein_coding	KNOWN	CCDS4574	4734	393	130	26033320	26033796	-1	H2AFM	H2A/m
19	HMG20B	ENSG00000064961	ENST00000416526	protein_coding	KNOWN	None	5002	645	214	3572775	3576942	1	None	SOXL, HMGX2, BRAF35, SMARCE1r, BRAF25, HMGXB2
19	HMG20B	ENSG00000064961	ENST00000470356	retained_intron	KNOWN	None	5002	None	None	3572821	3574267	1	None	SOXL, HMGX2, BRAF35, SMARCE1r, BRAF25, HMGXB2
19	HMG20B	ENSG00000064961	ENST00000333651	protein_coding	KNOWN	CCDS45919	5002	954	317	3572936	3579086	1	None	SOXL, HMGX2, BRAF35, SMARCE1r, BRAF25, HMGXB2
19	HMG20B	ENSG00000064961	ENST00000417382	protein_coding	PUTATIVE	None	5002	496	164	3572946	3575640	1	None	SOXL, HMGX2, BRAF35, SMARCE1r, BRAF25, HMGXB2
19	HMG20B	ENSG00000064961	ENST00000453933	protein_coding	KNOWN	None	5002	426	141	3572975	3575612	1	None	SOXL, HMGX2, BRAF35, SMARCE1r, BRAF25, HMGXB2
19	HMG20B	ENSG00000064961	ENST00000435022	nonsense_mediated_decay	KNOWN	None	5002	378	125	3572977	3576600	1	None	SOXL, HMGX2, BRAF35, SMARCE1r, BRAF25, HMGXB2
19	HMG20B	ENSG00000064961	ENST00000488973	retained_intron	KNOWN	None	5002	None	None	3572977	3579086	1	None	SOXL, HMGX2, BRAF35, SMARCE1r, BRAF25, HMGXB2
19	HMG20B	ENSG00000064961	ENST00000262949	protein_coding	NOVEL	None	5002	859	285	3572984	3577105	1	None	SOXL, HMGX2, BRAF35, SMARCE1r, BRAF25, HMGXB2
19	HMG20B	ENSG00000064961	ENST00000585741	processed_transcript	KNOWN	None	5002	None	None	3573695	3574159	1	None	SOXL, HMGX2, BRAF35, SMARCE1r, BRAF25, HMGXB2
19	HMG20B	ENSG00000064961	ENST00000486028	retained_intron	KNOWN	None	5002	None	None	3574291	3575962	1	None	SOXL, HMGX2, BRAF35, SMARCE1r, BRAF25, HMGXB2
19	HMG20B	ENSG00000064961	ENST00000483417	retained_intron	KNOWN	None	5002	None	None	3575540	3576985	1	None	SOXL, HMGX2, BRAF35, SMARCE1r, BRAF25, HMGXB2
19	HMG20B	ENSG00000064961	ENST00000487894	retained_intron	KNOWN	None	5002	None	None	3575649	3578669	1	None	SOXL, HMGX2, BRAF35, SMARCE1r, BRAF25, HMGXB2
19	HMG20B	ENSG00000064961	ENST00000464304	retained_intron	KNOWN	None	5002	None	None	3575874	3577020	1	None	SOXL, HMGX2, BRAF35, SMARCE1r, BRAF25, HMGXB2
19	HMG20B	ENSG00000064961	ENST00000493191	retained_intron	KNOWN	None	5002	None	None	3576350	3578340	1	None	SOXL, HMGX2, BRAF35, SMARCE1r, BRAF25, HMGXB2
19	HMG20B	ENSG00000064961	ENST00000585900	protein_coding	PUTATIVE	None	5002	555	184	3576614	3579081	1	None	SOXL, HMGX2, BRAF35, SMARCE1r, BRAF25, HMGXB2
19	HMG20B	ENSG00000064961	ENST00000461099	retained_intron	KNOWN	None	5002	None	None	3576883	3578442	1	None	SOXL, HMGX2, BRAF35, SMARCE1r, BRAF25, HMGXB2
15	SMAD3	ENSG00000166949	ENST00000559460	protein_coding	PUTATIVE	None	6769	277	91	67356101	67459176	1	MADH3	JV15-2, HsT17436
15	SMAD3	ENSG00000166949	ENST00000327367	protein_coding	KNOWN	CCDS10222	6769	1278	425	67358183	67487533	1	MADH3	JV15-2, HsT17436
15	SMAD3	ENSG00000166949	ENST00000559937	retained_intron	KNOWN	None	6769	None	None	67370324	67463013	1	MADH3	JV15-2, HsT17436
15	SMAD3	ENSG00000166949	ENST00000559092	protein_coding	PUTATIVE	None	6769	291	96	67390920	67457373	1	MADH3	JV15-2, HsT17436
15	SMAD3	ENSG00000166949	ENST00000560175	protein_coding	NOVEL	None	6769	343	113	67391017	67462942	1	MADH3	JV15-2, HsT17436
15	SMAD3	ENSG00000166949	ENST00000540846	protein_coding	NOVEL	CCDS53950	6769	963	320	67418054	67483100	1	MADH3	JV15-2, HsT17436
15	SMAD3	ENSG00000166949	ENST00000558894	protein_coding	NOVEL	None	6769	639	212	67420441	67479785	1	MADH3	JV15-2, HsT17436
15	SMAD3	ENSG00000166949	ENST00000439724	protein_coding	NOVEL	CCDS45288	6769	1146	381	67430339	67483232	1	MADH3	JV15-2, HsT17436
15	SMAD3	ENSG00000166949	ENST00000558739	protein_coding	PUTATIVE	None	6769	189	62	67430573	67457694	1	MADH3	JV15-2, HsT17436
15	SMAD3	ENSG00000166949	ENST00000537194	protein_coding	NOVEL	CCDS53951	6769	693	230	67458357	67483100	1	MADH3	JV15-2, HsT17436
15	SMAD3	ENSG00000166949	ENST00000558428	protein_coding	PUTATIVE	None	6769	253	83	67458869	67473758	1	MADH3	JV15-2, HsT17436
15	SMAD3	ENSG00000166949	ENST00000558827	protein_coding	PUTATIVE	None	6769	338	111	67458869	67477116	1	MADH3	JV15-2, HsT17436
15	SMAD3	ENSG00000166949	ENST00000560402	retained_intron	KNOWN	None	6769	None	None	67466641	67485518	1	MADH3	JV15-2, HsT17436
15	SMAD3	ENSG00000166949	ENST00000560424	protein_coding	NOVEL	None	6769	470	155	67477113	67483179	1	MADH3	JV15-2, HsT17436
15	SMAD3	ENSG00000166949	ENST00000558763	retained_intron	KNOWN	None	6769	None	None	67479000	67483859	1	MADH3	JV15-2, HsT17436
6	HIST1H2BB	ENSG00000196226	ENST00000357905	protein_coding	KNOWN	CCDS4575	4751	381	126	26043455	26043885	-1	H2BFF	H2B/f
10	PPIF	ENSG00000108179	ENST00000498681	processed_transcript	KNOWN	None	9259	None	None	81107225	81111365	1	None	hCyP3, Cyp-D
10	PPIF	ENSG00000108179	ENST00000472580	nonsense_mediated_decay	KNOWN	None	9259	438	145	81107225	81113462	1	None	hCyP3, Cyp-D
10	PPIF	ENSG00000108179	ENST00000225174	protein_coding	KNOWN	CCDS7358	9259	624	207	81107234	81115093	1	None	hCyP3, Cyp-D
10	PPIF	ENSG00000108179	ENST00000492149	processed_transcript	KNOWN	None	9259	None	None	81107256	81109791	1	None	hCyP3, Cyp-D
10	PPIF	ENSG00000108179	ENST00000448165	protein_coding	KNOWN	None	9259	497	164	81107414	81113842	1	None	hCyP3, Cyp-D
10	PPIF	ENSG00000108179	ENST00000394579	protein_coding	KNOWN	None	9259	468	155	81107227	81114230	1	None	hCyP3, Cyp-D
4	RBM47	ENSG00000163694	ENST00000381793	protein_coding	KNOWN	CCDS43223	30358	1782	593	40425284	40516775	-1	None	FLJ20273, NET18
4	RBM47	ENSG00000163694	ENST00000381795	protein_coding	KNOWN	CCDS3460	30358	1575	524	40425284	40517990	-1	None	FLJ20273, NET18
4	RBM47	ENSG00000163694	ENST00000510871	nonsense_mediated_decay	KNOWN	None	30358	1182	393	40425698	40631881	-1	None	FLJ20273, NET18
4	RBM47	ENSG00000163694	ENST00000295971	protein_coding	KNOWN	CCDS43223	30358	1782	593	40426355	40631881	-1	None	FLJ20273, NET18
4	RBM47	ENSG00000163694	ENST00000514014	protein_coding	PUTATIVE	None	30358	1668	555	40427429	40632640	-1	None	FLJ20273, NET18
4	RBM47	ENSG00000163694	ENST00000515809	processed_transcript	KNOWN	None	30358	None	None	40434720	40468662	-1	None	FLJ20273, NET18
4	RBM47	ENSG00000163694	ENST00000515053	protein_coding	KNOWN	None	30358	652	216	40440259	40632333	-1	None	FLJ20273, NET18
4	RBM47	ENSG00000163694	ENST00000513473	protein_coding	KNOWN	None	30358	579	192	40440332	40516560	-1	None	FLJ20273, NET18
4	RBM47	ENSG00000163694	ENST00000505414	protein_coding	KNOWN	None	30358	476	157	40440435	40632862	-1	None	FLJ20273, NET18
4	RBM47	ENSG00000163694	ENST00000514782	protein_coding	KNOWN	None	30358	412	136	40440499	40632140	-1	None	FLJ20273, NET18
4	RBM47	ENSG00000163694	ENST00000507180	protein_coding	KNOWN	None	30358	371	122	40440540	40477766	-1	None	FLJ20273, NET18
4	RBM47	ENSG00000163694	ENST00000511598	protein_coding	KNOWN	None	30358	341	112	40440570	40632892	-1	None	FLJ20273, NET18
4	RBM47	ENSG00000163694	ENST00000511902	protein_coding	KNOWN	None	30358	178	58	40440732	40632803	-1	None	FLJ20273, NET18
4	RBM47	ENSG00000163694	ENST00000505220	protein_coding	KNOWN	None	30358	178	58	40440733	40632803	-1	None	FLJ20273, NET18
4	RBM47	ENSG00000163694	ENST00000513044	retained_intron	KNOWN	None	30358	None	None	40544540	40631546	-1	None	FLJ20273, NET18
4	RBM47	ENSG00000163694	ENST00000319592	protein_coding	KNOWN	CCDS3460	30358	1575	524	40425272	40631883	-1	None	FLJ20273, NET18
6	HIST1H3C	ENSG00000196532	ENST00000540144	protein_coding	KNOWN	CCDS4576	4768	411	136	26045639	26046097	1	H3FC	H3/c, H3.1
6	HIST1H1C	ENSG00000187837	ENST00000343677	protein_coding	KNOWN	CCDS4577	4716	642	213	26055968	26056699	-1	H1F2	H1.2, H1s-1, H1c
14	PLEKHH1	ENSG00000054690	ENST00000329153	protein_coding	KNOWN	CCDS45128	17733	4095	1364	68000018	68056329	1	None	KIAA1200
14	PLEKHH1	ENSG00000054690	ENST00000558386	retained_intron	KNOWN	None	17733	None	None	68035750	68054398	1	None	KIAA1200
14	PLEKHH1	ENSG00000054690	ENST00000561456	retained_intron	KNOWN	None	17733	None	None	68036456	68040019	1	None	KIAA1200
14	PLEKHH1	ENSG00000054690	ENST00000558981	retained_intron	KNOWN	None	17733	None	None	68037185	68042316	1	None	KIAA1200
14	PLEKHH1	ENSG00000054690	ENST00000557971	retained_intron	KNOWN	None	17733	None	None	68037780	68056157	1	None	KIAA1200
14	PLEKHH1	ENSG00000054690	ENST00000561135	retained_intron	KNOWN	None	17733	None	None	68038505	68040093	1	None	KIAA1200
14	PLEKHH1	ENSG00000054690	ENST00000561370	nonsense_mediated_decay	KNOWN	None	17733	547	181	68045280	68054265	1	None	KIAA1200
14	PLEKHH1	ENSG00000054690	ENST00000558296	retained_intron	KNOWN	None	17733	None	None	68046011	68047024	1	None	KIAA1200
14	PLEKHH1	ENSG00000054690	ENST00000560100	retained_intron	KNOWN	None	17733	None	None	68046146	68048874	1	None	KIAA1200
14	PLEKHH1	ENSG00000054690	ENST00000558366	retained_intron	KNOWN	None	17733	None	None	68047612	68052319	1	None	KIAA1200
14	PLEKHH1	ENSG00000054690	ENST00000559981	retained_intron	KNOWN	None	17733	None	None	68048303	68056328	1	None	KIAA1200
14	PLEKHH1	ENSG00000054690	ENST00000561057	nonsense_mediated_decay	KNOWN	None	17733	104	33	68050828	68054083	1	None	KIAA1200
14	PLEKHH1	ENSG00000054690	ENST00000559766	retained_intron	KNOWN	None	17733	None	None	68051833	68052701	1	None	KIAA1200
14	PLEKHH1	ENSG00000054690	ENST00000559832	processed_transcript	KNOWN	None	17733	None	None	68052708	68053628	1	None	KIAA1200
14	PLEKHH1	ENSG00000054690	ENST00000559168	nonsense_mediated_decay	KNOWN	None	17733	244	80	68052733	68055948	1	None	KIAA1200
14	PLEKHH1	ENSG00000054690	ENST00000558214	retained_intron	KNOWN	None	17733	None	None	68053128	68056250	1	None	KIAA1200
14	PLEKHH1	ENSG00000054690	ENST00000417684	protein_coding	KNOWN	None	17733	990	329	68045280	68054265	1	None	KIAA1200
6	HFE	ENSG00000010704	ENST00000397022	protein_coding	KNOWN	CCDS47387	4886	978	325	26087509	26094596	1	None	HLA-H
6	HFE	ENSG00000010704	ENST00000353147	protein_coding	KNOWN	CCDS4581	4886	507	168	26087509	26094596	1	None	HLA-H
6	HFE	ENSG00000010704	ENST00000352392	protein_coding	KNOWN	CCDS4582	4886	231	76	26087509	26094716	1	None	HLA-H
6	HFE	ENSG00000010704	ENST00000349999	protein_coding	KNOWN	CCDS4580	4886	783	260	26087509	26095215	1	None	HLA-H
6	HFE	ENSG00000010704	ENST00000317896	protein_coding	KNOWN	CCDS4579	4886	771	256	26087509	26095445	1	None	HLA-H
6	HFE	ENSG00000010704	ENST00000483782	retained_intron	KNOWN	None	4886	None	None	26087547	26093210	1	None	HLA-H
6	HFE	ENSG00000010704	ENST00000357618	protein_coding	KNOWN	CCDS4578	4886	1047	348	26087547	26098571	1	None	HLA-H
6	HFE	ENSG00000010704	ENST00000470149	protein_coding	KNOWN	None	4886	1038	345	26087620	26094490	1	None	HLA-H
6	HFE	ENSG00000010704	ENST00000336625	protein_coding	KNOWN	CCDS47386	4886	729	242	26087625	26094485	1	None	HLA-H
6	HFE	ENSG00000010704	ENST00000486147	retained_intron	KNOWN	None	4886	None	None	26087626	26094485	1	None	HLA-H
6	HFE	ENSG00000010704	ENST00000461397	protein_coding	KNOWN	CCDS54974	4886	1005	334	26087633	26094458	1	None	HLA-H
6	HFE	ENSG00000010704	ENST00000488199	protein_coding	KNOWN	CCDS54975	4886	741	246	26087633	26094458	1	None	HLA-H
6	HFE	ENSG00000010704	ENST00000309234	protein_coding	PUTATIVE	None	4886	1014	337	26087667	26094781	1	None	HLA-H
6	HFE	ENSG00000010704	ENST00000485729	protein_coding	PUTATIVE	None	4886	168	55	26093176	26095248	1	None	HLA-H
8	HNF4G	ENSG00000164749	ENST00000494318	processed_transcript	KNOWN	None	5026	None	None	76320149	76439369	1	None	NR2A2
8	HNF4G	ENSG00000164749	ENST00000396419	processed_transcript	KNOWN	None	5026	None	None	76320177	76465341	1	None	NR2A2
8	HNF4G	ENSG00000164749	ENST00000354370	protein_coding	KNOWN	None	5026	1227	408	76320271	76476562	1	None	NR2A2
8	HNF4G	ENSG00000164749	ENST00000396423	protein_coding	KNOWN	CCDS6220	5026	1338	445	76452104	76479078	1	None	NR2A2
8	ZFHX4	ENSG00000091656	ENST00000521891	protein_coding	KNOWN	CCDS47878	30939	10851	3616	77593454	77779521	1	None	ZFH4, FLJ20980
8	ZFHX4	ENSG00000091656	ENST00000517683	processed_transcript	KNOWN	None	30939	None	None	77593474	77690675	1	None	ZFH4, FLJ20980
8	ZFHX4	ENSG00000091656	ENST00000458716	retained_intron	KNOWN	None	30939	None	None	77593515	77620493	1	None	ZFH4, FLJ20980
8	ZFHX4	ENSG00000091656	ENST00000520307	protein_coding	KNOWN	None	30939	466	154	77594762	77616789	1	None	ZFH4, FLJ20980
8	ZFHX4	ENSG00000091656	ENST00000523885	protein_coding	KNOWN	None	30939	303	100	77596016	77616626	1	None	ZFH4, FLJ20980
8	ZFHX4	ENSG00000091656	ENST00000517585	protein_coding	KNOWN	None	30939	466	154	77605641	77616789	1	None	ZFH4, FLJ20980
8	ZFHX4	ENSG00000091656	ENST00000523809	protein_coding	KNOWN	None	30939	420	139	77605668	77616743	1	None	ZFH4, FLJ20980
8	ZFHX4	ENSG00000091656	ENST00000518282	protein_coding	KNOWN	None	30939	10773	3590	77616280	77778159	1	None	ZFH4, FLJ20980
8	ZFHX4	ENSG00000091656	ENST00000523625	nonsense_mediated_decay	KNOWN	None	30939	247	81	77690518	77761944	1	None	ZFH4, FLJ20980
8	ZFHX4	ENSG00000091656	ENST00000524290	retained_intron	KNOWN	None	30939	None	None	77690524	77745862	1	None	ZFH4, FLJ20980
8	ZFHX4	ENSG00000091656	ENST00000519536	nonsense_mediated_decay	KNOWN	None	30939	259	85	77690524	77761307	1	None	ZFH4, FLJ20980
8	ZFHX4	ENSG00000091656	ENST00000522409	retained_intron	KNOWN	None	30939	None	None	77762036	77763181	1	None	ZFH4, FLJ20980
8	ZFHX4	ENSG00000091656	ENST00000455469	protein_coding	KNOWN	None	30939	10716	3571	77593515	77779520	1	None	ZFH4, FLJ20980
8	ZFHX4	ENSG00000091656	ENST00000050961	protein_coding	KNOWN	None	30939	10704	3567	77593515	77776801	1	None	ZFH4, FLJ20980
5	ELOVL7	ENSG00000164181	ENST00000508821	protein_coding	KNOWN	CCDS34164	26292	846	281	60047618	60140216	-1	None	FLJ23563
5	ELOVL7	ENSG00000164181	ENST00000505959	protein_coding	PUTATIVE	None	26292	807	268	60047620	60140042	-1	None	FLJ23563
5	ELOVL7	ENSG00000164181	ENST00000504455	nonsense_mediated_decay	KNOWN	None	26292	216	71	60050285	60083292	-1	None	FLJ23563
5	ELOVL7	ENSG00000164181	ENST00000511799	protein_coding	KNOWN	None	26292	496	164	60060057	60139365	-1	None	FLJ23563
5	ELOVL7	ENSG00000164181	ENST00000507047	protein_coding	KNOWN	None	26292	496	164	60060057	60140096	-1	None	FLJ23563
5	ELOVL7	ENSG00000164181	ENST00000514809	nonsense_mediated_decay	KNOWN	None	26292	267	88	60060088	60140037	-1	None	FLJ23563
5	ELOVL7	ENSG00000164181	ENST00000438340	protein_coding	KNOWN	CCDS34164	26292	846	281	60047619	60140101	-1	None	FLJ23563
5	ELOVL7	ENSG00000164181	ENST00000425382	protein_coding	KNOWN	CCDS34164	26292	846	281	60047619	60140101	-1	None	FLJ23563
X	TRPC5	ENSG00000072315	ENST00000262839	protein_coding	KNOWN	CCDS14561	12337	2922	973	111017543	111326004	-1	None	None
X	ZCCHC16	ENSG00000187823	ENST00000340433	protein_coding	KNOWN	CCDS35369	25214	933	310	111697727	111700473	1	None	Mart4, Mar4, FLJ46608
X	LHFPL1	ENSG00000182508	ENST00000371968	protein_coding	KNOWN	CCDS14562	6587	663	220	111873876	111923282	-1	None	None
X	LHFPL1	ENSG00000182508	ENST00000478229	processed_transcript	KNOWN	None	6587	None	None	111874502	111923282	-1	None	None
X	LHFPL1	ENSG00000182508	ENST00000536453	protein_coding	KNOWN	None	6587	564	187	111873879	111923375	-1	None	None
16	EMP2	ENSG00000213853	ENST00000359543	protein_coding	KNOWN	CCDS10541	3334	504	167	10622279	10674555	-1	None	XMP
16	EMP2	ENSG00000213853	ENST00000566033	processed_transcript	PUTATIVE	None	3334	None	None	10623161	10625796	-1	None	XMP
16	EMP2	ENSG00000213853	ENST00000536829	protein_coding	KNOWN	CCDS10541	3334	504	167	10626706	10653011	-1	None	XMP
16	EMP2	ENSG00000213853	ENST00000342147	retained_intron	KNOWN	None	3334	None	None	10638037	10674489	-1	None	XMP
15	None	ENSG00000259202	ENST00000558463	protein_coding	PUTATIVE	None	None	189	62	67435072	67439277	-1	None	None
16	TEKT5	ENSG00000153060	ENST00000574923	processed_transcript	KNOWN	None	26554	None	None	10721358	10765635	-1	None	FLJ32871
16	TEKT5	ENSG00000153060	ENST00000283025	protein_coding	KNOWN	CCDS10542	26554	1458	485	10721358	10788802	-1	None	FLJ32871
16	TEKT5	ENSG00000153060	ENST00000576638	protein_coding	PUTATIVE	None	26554	560	185	10729621	10783976	-1	None	FLJ32871
15	AAGAB	ENSG00000103591	ENST00000261880	protein_coding	KNOWN	CCDS42050	25662	948	315	67493371	67547074	-1	None	FLJ11506, p34
15	AAGAB	ENSG00000103591	ENST00000538028	processed_transcript	KNOWN	None	25662	None	None	67494011	67513540	-1	None	FLJ11506, p34
15	AAGAB	ENSG00000103591	ENST00000561452	protein_coding	NOVEL	None	25662	621	206	67494045	67547013	-1	None	FLJ11506, p34
15	AAGAB	ENSG00000103591	ENST00000542650	protein_coding	NOVEL	None	25662	621	206	67495078	67547533	-1	None	FLJ11506, p34
15	AAGAB	ENSG00000103591	ENST00000558725	processed_transcript	KNOWN	None	25662	None	None	67519037	67546992	-1	None	FLJ11506, p34
15	AAGAB	ENSG00000103591	ENST00000560362	protein_coding	PUTATIVE	None	25662	174	57	67524186	67535209	-1	None	FLJ11506, p34
15	AAGAB	ENSG00000103591	ENST00000561229	processed_transcript	KNOWN	None	25662	None	None	67529056	67546992	-1	None	FLJ11506, p34
10	ZCCHC24	ENSG00000165424	ENST00000372336	protein_coding	KNOWN	CCDS7359	26911	726	241	81142081	81205383	-1	C10orf56	FLJ90798
10	ZCCHC24	ENSG00000165424	ENST00000372333	protein_coding	KNOWN	None	26911	687	228	81145793	81203975	-1	C10orf56	FLJ90798
4	NSUN7	ENSG00000179299	ENST00000381782	protein_coding	KNOWN	CCDS3461	25857	2157	718	40751914	40812002	1	None	FLJ14001
4	NSUN7	ENSG00000179299	ENST00000316607	protein_coding	NOVEL	None	25857	1428	475	40751942	40812002	1	None	FLJ14001
4	NSUN7	ENSG00000179299	ENST00000473399	retained_intron	KNOWN	None	25857	None	None	40751981	40777473	1	None	FLJ14001
4	NSUN7	ENSG00000179299	ENST00000463952	processed_transcript	KNOWN	None	25857	None	None	40764623	40778205	1	None	FLJ14001
4	NSUN7	ENSG00000179299	ENST00000469033	retained_intron	KNOWN	None	25857	None	None	40776282	40778493	1	None	FLJ14001
4	NSUN7	ENSG00000179299	ENST00000423784	processed_transcript	KNOWN	None	25857	None	None	40778092	40810520	1	None	FLJ14001
4	NSUN7	ENSG00000179299	ENST00000478857	processed_transcript	KNOWN	None	25857	None	None	40800891	40810560	1	None	FLJ14001
5	ERCC8	ENSG00000049167	ENST00000381118	nonsense_mediated_decay	KNOWN	None	3439	174	57	60169658	60240878	-1	CKN1	CSA
5	ERCC8	ENSG00000049167	ENST00000265038	protein_coding	KNOWN	CCDS3978	3439	1191	396	60169659	60240878	-1	CKN1	CSA
5	ERCC8	ENSG00000049167	ENST00000462279	processed_transcript	KNOWN	None	3439	None	None	60169661	60203350	-1	CKN1	CSA
5	ERCC8	ENSG00000049167	ENST00000495985	processed_transcript	KNOWN	None	3439	None	None	60194141	60214386	-1	CKN1	CSA
5	ERCC8	ENSG00000049167	ENST00000484330	processed_transcript	KNOWN	None	3439	None	None	60194151	60214440	-1	CKN1	CSA
5	ERCC8	ENSG00000049167	ENST00000439176	protein_coding	PUTATIVE	None	3439	403	133	60198309	60240900	-1	CKN1	CSA
5	ERCC8	ENSG00000049167	ENST00000497892	retained_intron	KNOWN	None	3439	None	None	60199187	60240878	-1	CKN1	CSA
5	ERCC8	ENSG00000049167	ENST00000477893	retained_intron	KNOWN	None	3439	None	None	60213790	60240886	-1	CKN1	CSA
5	ERCC8	ENSG00000049167	ENST00000426742	protein_coding	KNOWN	None	3439	1017	338	60169658	60240878	-1	CKN1	CSA
5	ERCC8	ENSG00000049167	ENST00000543101	protein_coding	KNOWN	None	3439	732	243	60170047	60240885	-1	CKN1	CSA
X	AMOT	ENSG00000126016	ENST00000304758	protein_coding	KNOWN	CCDS14563	17810	2028	675	112017731	112084043	-1	None	KIAA1071
X	AMOT	ENSG00000126016	ENST00000371962	protein_coding	KNOWN	None	17810	2559	852	112021740	112065764	-1	None	KIAA1071
X	AMOT	ENSG00000126016	ENST00000524145	protein_coding	KNOWN	CCDS48154	17810	3255	1084	112021795	112068356	-1	None	KIAA1071
X	AMOT	ENSG00000126016	ENST00000371958	protein_coding	KNOWN	None	17810	1794	597	112023583	112065812	-1	None	KIAA1071
X	AMOT	ENSG00000126016	ENST00000462114	processed_transcript	KNOWN	None	17810	None	None	112066365	112083911	-1	None	KIAA1071
X	AMOT	ENSG00000126016	ENST00000371959	protein_coding	KNOWN	CCDS48154	17810	3255	1084	112018105	112066354	-1	None	KIAA1071
4	HHIP	ENSG00000164161	ENST00000296575	protein_coding	KNOWN	CCDS3762	14866	2103	700	145567173	145666423	1	None	HIP, FLJ20992
4	HHIP	ENSG00000164161	ENST00000434550	protein_coding	KNOWN	None	14866	963	320	145567324	145581425	1	None	HIP, FLJ20992
4	HHIP	ENSG00000164161	ENST00000505891	processed_transcript	KNOWN	None	14866	None	None	145568251	145580928	1	None	HIP, FLJ20992
4	HHIP	ENSG00000164161	ENST00000511314	processed_transcript	KNOWN	None	14866	None	None	145569332	145581008	1	None	HIP, FLJ20992
4	HHIP	ENSG00000164161	ENST00000515080	processed_transcript	KNOWN	None	14866	None	None	145571767	145579991	1	None	HIP, FLJ20992
4	HHIP	ENSG00000164161	ENST00000509630	processed_transcript	KNOWN	None	14866	None	None	145573811	145606817	1	None	HIP, FLJ20992
4	HHIP	ENSG00000164161	ENST00000512791	retained_intron	KNOWN	None	14866	None	None	145629283	145636775	1	None	HIP, FLJ20992
4	HHIP	ENSG00000164161	ENST00000503090	processed_transcript	KNOWN	None	14866	None	None	145656019	145660045	1	None	HIP, FLJ20992
14	PIGH	ENSG00000100564	ENST00000561272	protein_coding	PUTATIVE	None	8964	548	181	68048672	68066886	-1	None	GPI-H
14	PIGH	ENSG00000100564	ENST00000216452	protein_coding	KNOWN	CCDS9784	8964	567	188	68056028	68067004	-1	None	GPI-H
14	PIGH	ENSG00000100564	ENST00000558987	protein_coding	PUTATIVE	None	8964	410	135	68056431	68060635	-1	None	GPI-H
14	PIGH	ENSG00000100564	ENST00000559118	retained_intron	KNOWN	None	8964	None	None	68056472	68059493	-1	None	GPI-H
14	PIGH	ENSG00000100564	ENST00000560722	protein_coding	NOVEL	None	8964	564	187	68056523	68066985	-1	None	GPI-H
14	PIGH	ENSG00000100564	ENST00000558493	protein_coding	NOVEL	None	8964	412	136	68056710	68066849	-1	None	GPI-H
14	PIGH	ENSG00000100564	ENST00000558198	nonsense_mediated_decay	KNOWN	None	8964	252	83	68056754	68066982	-1	None	GPI-H
14	PIGH	ENSG00000100564	ENST00000561303	nonsense_mediated_decay	KNOWN	None	8964	402	133	68056829	68066963	-1	None	GPI-H
14	PIGH	ENSG00000100564	ENST00000558001	nonsense_mediated_decay	KNOWN	None	8964	252	83	68056844	68066999	-1	None	GPI-H
14	PIGH	ENSG00000100564	ENST00000559581	protein_coding	PUTATIVE	None	8964	552	183	68058526	68066984	-1	None	GPI-H
14	PIGH	ENSG00000100564	ENST00000559415	protein_coding	PUTATIVE	None	8964	411	136	68059121	68066985	-1	None	GPI-H
14	PIGH	ENSG00000100564	ENST00000559097	retained_intron	KNOWN	None	8964	None	None	68059971	68067003	-1	None	GPI-H
9	ZDHHC21	ENSG00000175893	ENST00000380916	protein_coding	KNOWN	CCDS6475	20750	798	265	14615530	14693469	-1	None	HSPC097, DNZ1
9	ZDHHC21	ENSG00000175893	ENST00000497966	processed_transcript	KNOWN	None	20750	None	None	14677364	14693263	-1	None	HSPC097, DNZ1
8	PEX2	ENSG00000164751	ENST00000357039	protein_coding	KNOWN	CCDS6221	9717	918	305	77892494	77912462	-1	PXMP3	PMP35, PAF-1, RNF72, ZWS3
8	PEX2	ENSG00000164751	ENST00000520103	protein_coding	KNOWN	CCDS6221	9717	918	305	77895170	77913183	-1	PXMP3	PMP35, PAF-1, RNF72, ZWS3
8	PEX2	ENSG00000164751	ENST00000522527	protein_coding	KNOWN	CCDS6221	9717	918	305	77895193	77912503	-1	PXMP3	PMP35, PAF-1, RNF72, ZWS3
8	PEX2	ENSG00000164751	ENST00000518986	protein_coding	KNOWN	None	9717	539	178	77895876	77898763	-1	PXMP3	PMP35, PAF-1, RNF72, ZWS3
8	PEX2	ENSG00000164751	ENST00000519956	protein_coding	KNOWN	None	9717	9	2	77896406	77913280	-1	PXMP3	PMP35, PAF-1, RNF72, ZWS3
8	PEX2	ENSG00000164751	ENST00000520203	processed_transcript	KNOWN	None	9717	None	None	77900128	77912466	-1	PXMP3	PMP35, PAF-1, RNF72, ZWS3
8	PEX2	ENSG00000164751	ENST00000419564	protein_coding	KNOWN	CCDS6221	9717	918	305	77892494	77913280	-1	PXMP3	PMP35, PAF-1, RNF72, ZWS3
16	NUBP1	ENSG00000103274	ENST00000574334	protein_coding	NOVEL	None	8041	504	167	10837643	10851851	1	NBP1	None
16	NUBP1	ENSG00000103274	ENST00000571790	processed_transcript	KNOWN	None	8041	None	None	10837698	10857691	1	NBP1	None
16	NUBP1	ENSG00000103274	ENST00000574137	retained_intron	KNOWN	None	8041	None	None	10837701	10855969	1	NBP1	None
16	NUBP1	ENSG00000103274	ENST00000283027	protein_coding	KNOWN	CCDS10543	8041	963	320	10837702	10863208	1	NBP1	None
16	NUBP1	ENSG00000103274	ENST00000433392	protein_coding	KNOWN	None	8041	930	309	10837712	10863208	1	NBP1	None
16	NUBP1	ENSG00000103274	ENST00000571175	protein_coding	NOVEL	None	8041	428	141	10851730	10863208	1	NBP1	None
16	NUBP1	ENSG00000103274	ENST00000574691	protein_coding	PUTATIVE	None	8041	191	62	10851868	10863208	1	NBP1	None
16	NUBP1	ENSG00000103274	ENST00000573663	processed_transcript	KNOWN	None	8041	None	None	10858881	10863170	1	NBP1	None
9	CER1	ENSG00000147869	ENST00000380911	protein_coding	KNOWN	CCDS6476	1862	804	267	14719722	14722715	-1	None	DAND4
X	HTR2C	ENSG00000147246	ENST00000371951	protein_coding	KNOWN	CCDS14564	5295	1377	458	113818551	114143070	1	HTR1C	5-HT2C
X	HTR2C	ENSG00000147246	ENST00000276198	protein_coding	KNOWN	CCDS14564	5295	1377	458	113818551	114144624	1	HTR1C	5-HT2C
X	HTR2C	ENSG00000147246	ENST00000371950	protein_coding	KNOWN	CCDS59174	5295	747	248	113818555	114144624	1	HTR1C	5-HT2C
10	None	ENSG00000235705	ENST00000538322	protein_coding	KNOWN	None	None	1128	375	81266126	81270678	-1	None	None
10	EIF5AL1	ENSG00000253626	ENST00000520547	protein_coding	KNOWN	CCDS53546	17419	465	154	81272357	81276188	1	EIF5AP1	bA342M3.3
10	SFTPA2	ENSG00000185303	ENST00000372325	protein_coding	KNOWN	CCDS41540	10799	747	248	81315608	81320151	-1	None	SP-A2, COLEC5
10	SFTPA2	ENSG00000185303	ENST00000417041	protein_coding	KNOWN	None	10799	474	157	81317238	81320153	-1	None	SP-A2, COLEC5
10	SFTPA2	ENSG00000185303	ENST00000492049	protein_coding	KNOWN	None	10799	293	96	81318641	81319590	-1	None	SP-A2, COLEC5
10	SFTPA2	ENSG00000185303	ENST00000372327	protein_coding	KNOWN	CCDS41540	10799	747	248	81316344	81320153	-1	None	SP-A2, COLEC5
19	GIPC3	ENSG00000179855	ENST00000322315	protein_coding	KNOWN	CCDS32871	18183	939	312	3585551	3593539	1	C19orf64, DFNB72, DFNB15	DFNB95
9	FREM1	ENSG00000164946	ENST00000380894	protein_coding	KNOWN	CCDS55293	23399	2148	715	14737150	14779531	-1	C9orf154	FLJ25461, C9orf145, C9orf143, DKFZp686M16108, TILRR
9	FREM1	ENSG00000164946	ENST00000380875	nonsense_mediated_decay	KNOWN	None	23399	4008	1335	14737198	14910993	-1	C9orf154	FLJ25461, C9orf145, C9orf143, DKFZp686M16108, TILRR
9	FREM1	ENSG00000164946	ENST00000427623	nonsense_mediated_decay	KNOWN	None	23399	669	222	14737364	14774159	-1	C9orf154	FLJ25461, C9orf145, C9orf143, DKFZp686M16108, TILRR
9	FREM1	ENSG00000164946	ENST00000380880	protein_coding	KNOWN	CCDS47952	23399	6540	2179	14737394	14910428	-1	C9orf154	FLJ25461, C9orf145, C9orf143, DKFZp686M16108, TILRR
9	FREM1	ENSG00000164946	ENST00000486223	processed_transcript	KNOWN	None	23399	None	None	14751703	14775903	-1	C9orf154	FLJ25461, C9orf145, C9orf143, DKFZp686M16108, TILRR
9	FREM1	ENSG00000164946	ENST00000485068	processed_transcript	KNOWN	None	23399	None	None	14775821	14784632	-1	C9orf154	FLJ25461, C9orf145, C9orf143, DKFZp686M16108, TILRR
9	FREM1	ENSG00000164946	ENST00000466679	processed_transcript	KNOWN	None	23399	None	None	14775933	14792799	-1	C9orf154	FLJ25461, C9orf145, C9orf143, DKFZp686M16108, TILRR
9	FREM1	ENSG00000164946	ENST00000497634	retained_intron	KNOWN	None	23399	None	None	14784270	14792882	-1	C9orf154	FLJ25461, C9orf145, C9orf143, DKFZp686M16108, TILRR
9	FREM1	ENSG00000164946	ENST00000380881	protein_coding	KNOWN	None	23399	6543	2180	14734664	14910993	-1	C9orf154	FLJ25461, C9orf145, C9orf143, DKFZp686M16108, TILRR
9	FREM1	ENSG00000164946	ENST00000422223	protein_coding	KNOWN	CCDS47952	23399	6540	2179	14734664	14910993	-1	C9orf154	FLJ25461, C9orf145, C9orf143, DKFZp686M16108, TILRR
10	SFTPA1	ENSG00000122852	ENST00000419470	protein_coding	KNOWN	CCDS44444	10798	792	263	81370701	81373954	1	SFTP1	SP-A, SP-A1, COLEC4
10	SFTPA1	ENSG00000122852	ENST00000429958	protein_coding	KNOWN	None	10798	474	157	81370709	81373596	1	SFTP1	SP-A, SP-A1, COLEC4
10	SFTPA1	ENSG00000122852	ENST00000439264	protein_coding	KNOWN	None	10798	474	157	81370711	81373596	1	SFTP1	SP-A, SP-A1, COLEC4
10	SFTPA1	ENSG00000122852	ENST00000486922	retained_intron	KNOWN	None	10798	None	None	81370717	81371654	1	SFTP1	SP-A, SP-A1, COLEC4
10	SFTPA1	ENSG00000122852	ENST00000372308	protein_coding	KNOWN	None	10798	738	245	81370695	81374798	1	SFTP1	SP-A, SP-A1, COLEC4
10	SFTPA1	ENSG00000122852	ENST00000398636	protein_coding	KNOWN	CCDS44445	10798	747	248	81370695	81375196	1	SFTP1	SP-A, SP-A1, COLEC4
10	SFTPA1	ENSG00000122852	ENST00000428376	protein_coding	KNOWN	CCDS44445	10798	747	248	81370695	81375196	1	SFTP1	SP-A, SP-A1, COLEC4
10	SFTPA1	ENSG00000122852	ENST00000372313	protein_coding	KNOWN	None	10798	570	189	81370698	81374268	1	SFTP1	SP-A, SP-A1, COLEC4
14	ARG2	ENSG00000081181	ENST00000261783	protein_coding	KNOWN	CCDS9785	664	1065	354	68086515	68118437	1	None	None
14	ARG2	ENSG00000081181	ENST00000557120	retained_intron	KNOWN	None	664	None	None	68086653	68113632	1	None	None
14	ARG2	ENSG00000081181	ENST00000556491	processed_transcript	KNOWN	None	664	None	None	68086697	68113457	1	None	None
14	ARG2	ENSG00000081181	ENST00000557319	retained_intron	KNOWN	None	664	None	None	68113165	68117525	1	None	None
19	TBXA2R	ENSG00000006638	ENST00000375190	protein_coding	KNOWN	CCDS42467	11608	1032	343	3594504	3606838	-1	None	None
19	TBXA2R	ENSG00000006638	ENST00000589966	protein_coding	PUTATIVE	None	11608	780	259	3594550	3600667	-1	None	None
19	TBXA2R	ENSG00000006638	ENST00000411851	protein_coding	KNOWN	CCDS54198	11608	1224	407	3594778	3606658	-1	None	None
19	TBXA2R	ENSG00000006638	ENST00000587717	processed_transcript	KNOWN	None	11608	None	None	3597920	3600131	-1	None	None
8	PKIA	ENSG00000171033	ENST00000396418	protein_coding	KNOWN	CCDS6222	9017	231	76	79428374	79517502	1	PRKACN1	None
8	PKIA	ENSG00000171033	ENST00000352966	protein_coding	KNOWN	CCDS6222	9017	231	76	79428590	79515420	1	PRKACN1	None
8	PKIA	ENSG00000171033	ENST00000518467	protein_coding	KNOWN	CCDS6222	9017	231	76	79503466	79514333	1	PRKACN1	None
4	ANAPC10	ENSG00000164162	ENST00000506851	processed_transcript	KNOWN	None	24077	None	None	145888264	146019365	-1	None	APC10, DOC1, DKFZP564L0562
4	ANAPC10	ENSG00000164162	ENST00000502651	processed_transcript	KNOWN	None	24077	None	None	145916077	146019368	-1	None	APC10, DOC1, DKFZP564L0562
4	ANAPC10	ENSG00000164162	ENST00000507656	protein_coding	KNOWN	CCDS43273	24077	558	185	145916152	146019353	-1	None	APC10, DOC1, DKFZP564L0562
4	ANAPC10	ENSG00000164162	ENST00000451299	protein_coding	KNOWN	CCDS43273	24077	558	185	145916310	146019341	-1	None	APC10, DOC1, DKFZP564L0562
4	ANAPC10	ENSG00000164162	ENST00000309439	protein_coding	KNOWN	CCDS43273	24077	558	185	145916310	146019365	-1	None	APC10, DOC1, DKFZP564L0562
4	ANAPC10	ENSG00000164162	ENST00000510270	processed_transcript	KNOWN	None	24077	None	None	145916313	146019341	-1	None	APC10, DOC1, DKFZP564L0562
4	ANAPC10	ENSG00000164162	ENST00000511466	processed_transcript	KNOWN	None	24077	None	None	145916348	146019343	-1	None	APC10, DOC1, DKFZP564L0562
4	ANAPC10	ENSG00000164162	ENST00000514390	protein_coding	KNOWN	None	24077	476	157	145916607	146019693	-1	None	APC10, DOC1, DKFZP564L0562
4	ANAPC10	ENSG00000164162	ENST00000513054	protein_coding	KNOWN	None	24077	475	157	145916608	146019332	-1	None	APC10, DOC1, DKFZP564L0562
4	ANAPC10	ENSG00000164162	ENST00000502562	processed_transcript	KNOWN	None	24077	None	None	145954197	146019348	-1	None	APC10, DOC1, DKFZP564L0562
4	ANAPC10	ENSG00000164162	ENST00000512680	protein_coding	PUTATIVE	None	24077	381	126	145974831	146018903	-1	None	APC10, DOC1, DKFZP564L0562
4	ANAPC10	ENSG00000164162	ENST00000508087	processed_transcript	KNOWN	None	24077	None	None	145985138	146019316	-1	None	APC10, DOC1, DKFZP564L0562
4	ANAPC10	ENSG00000164162	ENST00000504721	protein_coding	KNOWN	None	24077	327	108	145985724	146018534	-1	None	APC10, DOC1, DKFZP564L0562
4	ANAPC10	ENSG00000164162	ENST00000514704	retained_intron	KNOWN	None	24077	None	None	146002695	146019319	-1	None	APC10, DOC1, DKFZP564L0562
4	ANAPC10	ENSG00000164162	ENST00000507134	retained_intron	KNOWN	None	24077	None	None	146002741	146019335	-1	None	APC10, DOC1, DKFZP564L0562
4	ANAPC10	ENSG00000164162	ENST00000502847	protein_coding	KNOWN	None	24077	206	67	146002812	146019287	-1	None	APC10, DOC1, DKFZP564L0562
9	TRIM32	ENSG00000119401	ENST00000373983	protein_coding	KNOWN	CCDS6817	16380	1962	653	119449609	119463579	1	LGMD2H	HT2A, TATIP, BBS11
9	TRIM32	ENSG00000119401	ENST00000411410	protein_coding	KNOWN	None	16380	518	171	119449622	119460539	1	LGMD2H	HT2A, TATIP, BBS11
9	TRIM32	ENSG00000119401	ENST00000450136	protein_coding	KNOWN	CCDS6817	16380	1962	653	119449581	119463577	1	LGMD2H	HT2A, TATIP, BBS11
19	CACTIN	ENSG00000105298	ENST00000429344	protein_coding	KNOWN	CCDS45920	29938	2277	758	3610639	3626813	-1	C19orf29	NY-REN-24, fSAPc, cactin
19	CACTIN	ENSG00000105298	ENST00000591726	protein_coding	KNOWN	None	29938	354	117	3610643	3612274	-1	C19orf29	NY-REN-24, fSAPc, cactin
19	CACTIN	ENSG00000105298	ENST00000592721	protein_coding	KNOWN	None	29938	874	290	3610643	3613536	-1	C19orf29	NY-REN-24, fSAPc, cactin
19	CACTIN	ENSG00000105298	ENST00000585942	nonsense_mediated_decay	KNOWN	CCDS45920	29938	2277	758	3610645	3626813	-1	C19orf29	NY-REN-24, fSAPc, cactin
19	CACTIN	ENSG00000105298	ENST00000589321	nonsense_mediated_decay	KNOWN	None	29938	424	140	3611566	3619189	-1	C19orf29	NY-REN-24, fSAPc, cactin
19	CACTIN	ENSG00000105298	ENST00000587175	retained_intron	KNOWN	None	29938	None	None	3611566	3621026	-1	C19orf29	NY-REN-24, fSAPc, cactin
19	CACTIN	ENSG00000105298	ENST00000588749	protein_coding	PUTATIVE	None	29938	391	129	3613505	3619164	-1	C19orf29	NY-REN-24, fSAPc, cactin
19	CACTIN	ENSG00000105298	ENST00000591978	retained_intron	KNOWN	None	29938	None	None	3614408	3616690	-1	C19orf29	NY-REN-24, fSAPc, cactin
19	CACTIN	ENSG00000105298	ENST00000221899	protein_coding	KNOWN	None	29938	2604	867	3610665	3626813	-1	C19orf29	NY-REN-24, fSAPc, cactin
19	CACTIN	ENSG00000105298	ENST00000248420	protein_coding	KNOWN	CCDS45920	29938	2277	758	3610650	3626813	-1	C19orf29	NY-REN-24, fSAPc, cactin
4	APBB2	ENSG00000163697	ENST00000295974	protein_coding	KNOWN	CCDS54761	582	2277	758	40812044	41216635	-1	None	FE65L, FE65L1, MGC35575
4	APBB2	ENSG00000163697	ENST00000513140	protein_coding	NOVEL	CCDS43224	582	2211	736	40816624	41216475	-1	None	FE65L, FE65L1, MGC35575
4	APBB2	ENSG00000163697	ENST00000513611	protein_coding	NOVEL	None	582	2185	727	40817330	41016402	-1	None	FE65L, FE65L1, MGC35575
4	APBB2	ENSG00000163697	ENST00000508593	protein_coding	NOVEL	CCDS54762	582	2280	759	40817341	41216549	-1	None	FE65L, FE65L1, MGC35575
4	APBB2	ENSG00000163697	ENST00000502841	protein_coding	PUTATIVE	CCDS54760	582	633	210	40817350	40859172	-1	None	FE65L, FE65L1, MGC35575
4	APBB2	ENSG00000163697	ENST00000506352	protein_coding	KNOWN	None	582	2214	737	40817634	41216632	-1	None	FE65L, FE65L1, MGC35575
4	APBB2	ENSG00000163697	ENST00000504305	protein_coding	PUTATIVE	CCDS54760	582	633	210	40817763	40859172	-1	None	FE65L, FE65L1, MGC35575
4	APBB2	ENSG00000163697	ENST00000502687	retained_intron	KNOWN	None	582	None	None	40817990	40824483	-1	None	FE65L, FE65L1, MGC35575
4	APBB2	ENSG00000163697	ENST00000510925	nonsense_mediated_decay	KNOWN	None	582	125	40	40818102	40832532	-1	None	FE65L, FE65L1, MGC35575
4	APBB2	ENSG00000163697	ENST00000512510	protein_coding	PUTATIVE	None	582	539	178	40824000	40892442	-1	None	FE65L, FE65L1, MGC35575
4	APBB2	ENSG00000163697	ENST00000510670	protein_coding	PUTATIVE	None	582	306	101	40824047	40859209	-1	None	FE65L, FE65L1, MGC35575
4	APBB2	ENSG00000163697	ENST00000514920	protein_coding	PUTATIVE	None	582	285	94	40825661	40844533	-1	None	FE65L, FE65L1, MGC35575
4	APBB2	ENSG00000163697	ENST00000507831	processed_transcript	KNOWN	None	582	None	None	40825683	40892931	-1	None	FE65L, FE65L1, MGC35575
4	APBB2	ENSG00000163697	ENST00000513516	protein_coding	PUTATIVE	None	582	261	86	40825685	40859194	-1	None	FE65L, FE65L1, MGC35575
4	APBB2	ENSG00000163697	ENST00000513493	protein_coding	NOVEL	None	582	426	141	40827904	40895289	-1	None	FE65L, FE65L1, MGC35575
4	APBB2	ENSG00000163697	ENST00000514094	retained_intron	KNOWN	None	582	None	None	40828803	40936504	-1	None	FE65L, FE65L1, MGC35575
4	APBB2	ENSG00000163697	ENST00000509475	retained_intron	KNOWN	None	582	None	None	40892326	41016402	-1	None	FE65L, FE65L1, MGC35575
4	APBB2	ENSG00000163697	ENST00000504484	retained_intron	KNOWN	None	582	None	None	40894412	40937643	-1	None	FE65L, FE65L1, MGC35575
4	APBB2	ENSG00000163697	ENST00000511120	retained_intron	KNOWN	None	582	None	None	40895380	40937457	-1	None	FE65L, FE65L1, MGC35575
4	APBB2	ENSG00000163697	ENST00000509446	protein_coding	PUTATIVE	None	582	420	139	41015964	41216510	-1	None	FE65L, FE65L1, MGC35575
4	APBB2	ENSG00000163697	ENST00000508707	protein_coding	KNOWN	None	582	205	67	41016230	41216537	-1	None	FE65L, FE65L1, MGC35575
4	APBB2	ENSG00000163697	ENST00000503264	protein_coding	PUTATIVE	None	582	79	25	41016305	41216535	-1	None	FE65L, FE65L1, MGC35575
4	APBB2	ENSG00000163697	ENST00000508676	protein_coding	KNOWN	None	582	82	26	41016353	41216625	-1	None	FE65L, FE65L1, MGC35575
4	APBB2	ENSG00000163697	ENST00000503503	protein_coding	KNOWN	None	582	30	9	41016405	41216502	-1	None	FE65L, FE65L1, MGC35575
4	APBB2	ENSG00000163697	ENST00000506999	processed_transcript	KNOWN	None	582	None	None	41035307	41216586	-1	None	FE65L, FE65L1, MGC35575
4	APBB2	ENSG00000163697	ENST00000503555	processed_transcript	KNOWN	None	582	None	None	41067607	41209925	-1	None	FE65L, FE65L1, MGC35575
4	APBB2	ENSG00000163697	ENST00000511572	processed_transcript	KNOWN	None	582	None	None	41067622	41216586	-1	None	FE65L, FE65L1, MGC35575
4	APBB2	ENSG00000163697	ENST00000502682	processed_transcript	KNOWN	None	582	None	None	41067686	41218731	-1	None	FE65L, FE65L1, MGC35575
4	APBB2	ENSG00000163697	ENST00000505266	processed_transcript	KNOWN	None	582	None	None	41195810	41216514	-1	None	FE65L, FE65L1, MGC35575
4	APBB2	ENSG00000163697	ENST00000543538	protein_coding	KNOWN	CCDS54760	582	633	210	40812045	40859172	-1	None	FE65L, FE65L1, MGC35575
X	IL13RA2	ENSG00000123496	ENST00000371936	protein_coding	KNOWN	CCDS14565	5975	1143	380	114238538	114253536	-1	None	IL-13R, IL13BP, CD213a2, CT19
X	IL13RA2	ENSG00000123496	ENST00000468224	processed_transcript	KNOWN	None	5975	None	None	114249089	114254540	-1	None	IL-13R, IL13BP, CD213a2, CT19
X	IL13RA2	ENSG00000123496	ENST00000243213	protein_coding	KNOWN	CCDS14565	5975	1143	380	114238540	114252207	-1	None	IL-13R, IL13BP, CD213a2, CT19
14	VTI1B	ENSG00000100568	ENST00000554659	protein_coding	KNOWN	CCDS9786	17793	699	232	68113792	68141548	-1	None	VTI2
14	VTI1B	ENSG00000100568	ENST00000554636	protein_coding	PUTATIVE	None	17793	385	127	68117869	68126508	-1	None	VTI2
14	VTI1B	ENSG00000100568	ENST00000556461	protein_coding	PUTATIVE	None	17793	310	102	68117978	68126562	-1	None	VTI2
14	VTI1B	ENSG00000100568	ENST00000216456	nonsense_mediated_decay	KNOWN	None	17793	135	44	68117981	68141327	-1	None	VTI2
14	VTI1B	ENSG00000100568	ENST00000553619	retained_intron	KNOWN	None	17793	None	None	68123197	68126911	-1	None	VTI2
14	VTI1B	ENSG00000100568	ENST00000555543	nonsense_mediated_decay	KNOWN	None	17793	180	59	68123227	68141537	-1	None	VTI2
8	ZC2HC1A	ENSG00000104427	ENST00000263849	protein_coding	KNOWN	CCDS6223	24277	978	325	79578282	79632000	1	C8orf70, FAM164A	CGI-62
8	ZC2HC1A	ENSG00000104427	ENST00000521873	retained_intron	KNOWN	None	24277	None	None	79578324	79591625	1	C8orf70, FAM164A	CGI-62
8	ZC2HC1A	ENSG00000104427	ENST00000521176	processed_transcript	KNOWN	None	24277	None	None	79578364	79609740	1	C8orf70, FAM164A	CGI-62
8	ZC2HC1A	ENSG00000104427	ENST00000519307	protein_coding	PUTATIVE	None	24277	592	196	79609641	79629737	1	C8orf70, FAM164A	CGI-62
15	IQCH	ENSG00000103599	ENST00000512104	protein_coding	NOVEL	CCDS10223	25721	507	168	67547138	67599562	1	None	FLJ12476
15	IQCH	ENSG00000103599	ENST00000514049	nonsense_mediated_decay	KNOWN	None	25721	183	60	67547139	67794142	1	None	FLJ12476
15	IQCH	ENSG00000103599	ENST00000335894	protein_coding	KNOWN	CCDS32273	25721	3084	1027	67547169	67794142	1	None	FLJ12476
15	IQCH	ENSG00000103599	ENST00000535744	nonsense_mediated_decay	KNOWN	None	25721	513	170	67547186	67664508	1	None	FLJ12476
15	IQCH	ENSG00000103599	ENST00000559568	nonsense_mediated_decay	KNOWN	None	25721	60	19	67547186	67666506	1	None	FLJ12476
15	IQCH	ENSG00000103599	ENST00000560497	processed_transcript	KNOWN	None	25721	None	None	67547375	67571789	1	None	FLJ12476
15	IQCH	ENSG00000103599	ENST00000561339	nonsense_mediated_decay	KNOWN	None	25721	141	46	67553640	67664782	1	None	FLJ12476
15	IQCH	ENSG00000103599	ENST00000560790	processed_transcript	KNOWN	None	25721	None	None	67571820	67574578	1	None	FLJ12476
15	IQCH	ENSG00000103599	ENST00000559172	retained_intron	KNOWN	None	25721	None	None	67649683	67652433	1	None	FLJ12476
15	IQCH	ENSG00000103599	ENST00000561357	protein_coding	NOVEL	None	25721	583	193	67664858	67692564	1	None	FLJ12476
15	IQCH	ENSG00000103599	ENST00000558759	protein_coding	KNOWN	None	25721	273	90	67782353	67794598	1	None	FLJ12476
15	IQCH	ENSG00000103599	ENST00000358767	protein_coding	KNOWN	None	25721	2091	696	67547138	67794141	1	None	FLJ12476
15	IQCH	ENSG00000103599	ENST00000360277	protein_coding	KNOWN	None	25721	1866	621	67663863	67794141	1	None	FLJ12476
15	IQCH	ENSG00000103599	ENST00000546225	protein_coding	KNOWN	None	25721	2055	684	67547138	67794141	1	None	FLJ12476
9	TLR4	ENSG00000136869	ENST00000394487	protein_coding	KNOWN	None	11850	2400	799	120466610	120478053	1	None	hToll, CD284, TLR-4, ARMD10
9	TLR4	ENSG00000136869	ENST00000355622	protein_coding	KNOWN	CCDS6818	11850	2520	839	120466650	120479149	1	None	hToll, CD284, TLR-4, ARMD10
9	TLR4	ENSG00000136869	ENST00000472304	processed_transcript	KNOWN	None	11850	None	None	120466667	120477230	1	None	hToll, CD284, TLR-4, ARMD10
9	TLR4	ENSG00000136869	ENST00000490685	processed_transcript	KNOWN	None	11850	None	None	120470475	120471257	1	None	hToll, CD284, TLR-4, ARMD10
8	IL7	ENSG00000104432	ENST00000523959	processed_transcript	KNOWN	None	6023	None	None	79587978	79650805	-1	None	IL-7
8	IL7	ENSG00000104432	ENST00000519833	processed_transcript	KNOWN	None	6023	None	None	79630135	79652317	-1	None	IL-7
8	IL7	ENSG00000104432	ENST00000263851	protein_coding	KNOWN	CCDS6224	6023	534	177	79645007	79717758	-1	None	IL-7
8	IL7	ENSG00000104432	ENST00000518982	nonsense_mediated_decay	KNOWN	None	6023	216	71	79645283	79717699	-1	None	IL-7
8	IL7	ENSG00000104432	ENST00000520269	protein_coding	NOVEL	CCDS56541	6023	402	133	79645900	79717163	-1	None	IL-7
8	IL7	ENSG00000104432	ENST00000520215	nonsense_mediated_decay	KNOWN	None	6023	114	37	79645900	79717163	-1	None	IL-7
8	IL7	ENSG00000104432	ENST00000520317	nonsense_mediated_decay	KNOWN	None	6023	114	37	79645900	79717686	-1	None	IL-7
8	IL7	ENSG00000104432	ENST00000521323	retained_intron	KNOWN	None	6023	None	None	79710069	79717355	-1	None	IL-7
8	IL7	ENSG00000104432	ENST00000541183	protein_coding	KNOWN	None	6023	195	64	79645948	79652311	-1	None	IL-7
8	IL7	ENSG00000104432	ENST00000379113	protein_coding	KNOWN	None	6023	216	71	79659263	79717758	-1	None	IL-7
5	NDUFAF2	ENSG00000164182	ENST00000296597	protein_coding	KNOWN	CCDS3979	28086	510	169	60240956	60448853	1	NDUFA12L	B17.2L, MMTN, mimitin
5	NDUFAF2	ENSG00000164182	ENST00000511107	protein_coding	PUTATIVE	None	28086	183	60	60241034	60448853	1	NDUFA12L	B17.2L, MMTN, mimitin
5	NDUFAF2	ENSG00000164182	ENST00000502658	protein_coding	PUTATIVE	None	28086	155	50	60241162	60448853	1	NDUFA12L	B17.2L, MMTN, mimitin
5	NDUFAF2	ENSG00000164182	ENST00000512623	processed_transcript	KNOWN	None	28086	None	None	60346203	60448843	1	NDUFA12L	B17.2L, MMTN, mimitin
X	LRCH2	ENSG00000130224	ENST00000317135	protein_coding	KNOWN	CCDS48155	29292	2298	765	114345185	114468635	-1	None	KIAA1495
X	LRCH2	ENSG00000130224	ENST00000538422	protein_coding	KNOWN	CCDS59175	29292	2247	748	114345686	114468628	-1	None	KIAA1495
16	TVP23A	ENSG00000166676	ENST00000572980	processed_transcript	KNOWN	None	20398	None	None	10854776	10912464	-1	FAM18A	YDR084C
16	TVP23A	ENSG00000166676	ENST00000573857	processed_transcript	KNOWN	None	20398	None	None	10855083	10912457	-1	FAM18A	YDR084C
16	TVP23A	ENSG00000166676	ENST00000575135	nonsense_mediated_decay	KNOWN	CCDS45408	20398	642	213	10855083	10912457	-1	FAM18A	YDR084C
16	TVP23A	ENSG00000166676	ENST00000456096	nonsense_mediated_decay	KNOWN	None	20398	567	188	10855083	10912457	-1	FAM18A	YDR084C
16	TVP23A	ENSG00000166676	ENST00000572428	protein_coding	KNOWN	None	20398	453	150	10860533	10868853	-1	FAM18A	YDR084C
16	TVP23A	ENSG00000166676	ENST00000573360	nonsense_mediated_decay	KNOWN	None	20398	114	37	10860533	10912508	-1	FAM18A	YDR084C
16	TVP23A	ENSG00000166676	ENST00000299866	protein_coding	KNOWN	CCDS45408	20398	642	213	10860533	10912642	-1	FAM18A	YDR084C
16	TVP23A	ENSG00000166676	ENST00000572102	protein_coding	NOVEL	None	20398	189	62	10860538	10867298	-1	FAM18A	YDR084C
16	TVP23A	ENSG00000166676	ENST00000570692	processed_transcript	KNOWN	None	20398	None	None	10868871	10912651	-1	FAM18A	YDR084C
14	None	ENSG00000258466	ENST00000553306	nonsense_mediated_decay	KNOWN	None	None	356	117	68126537	68157084	-1	None	None
14	None	ENSG00000258466	ENST00000553582	retained_intron	KNOWN	None	None	None	None	68126581	68156984	-1	None	None
14	None	ENSG00000258466	ENST00000554493	processed_transcript	KNOWN	None	None	None	None	68126581	68156984	-1	None	None
14	None	ENSG00000258466	ENST00000557564	protein_coding	PUTATIVE	None	None	274	90	68126581	68157084	-1	None	None
10	NUTM2B	ENSG00000188199	ENST00000372321	protein_coding	KNOWN	None	23445	1689	562	81463035	81474437	1	FAM22B	bA119F19.1
10	NUTM2B	ENSG00000188199	ENST00000342531	protein_coding	PUTATIVE	None	23445	1969	655	81466084	81472511	1	FAM22B	bA119F19.1
10	NUTM2B	ENSG00000188199	ENST00000448135	protein_coding	KNOWN	None	23445	1890	629	81462983	81472688	1	FAM22B	bA119F19.1
10	NUTM2B	ENSG00000188199	ENST00000429828	protein_coding	KNOWN	None	23445	2637	878	81462983	81472507	1	FAM22B	bA119F19.1
14	RDH11	ENSG00000072042	ENST00000381346	protein_coding	KNOWN	CCDS32104	17964	957	318	68143518	68162531	-1	None	MDT1, SDR7C1, ARSDR1
14	RDH11	ENSG00000072042	ENST00000553384	protein_coding	KNOWN	None	17964	918	305	68144081	68162471	-1	None	MDT1, SDR7C1, ARSDR1
14	RDH11	ENSG00000072042	ENST00000553578	retained_intron	KNOWN	None	17964	None	None	68144110	68159568	-1	None	MDT1, SDR7C1, ARSDR1
14	RDH11	ENSG00000072042	ENST00000428130	protein_coding	NOVEL	CCDS58326	17964	747	248	68144751	68162450	-1	None	MDT1, SDR7C1, ARSDR1
14	RDH11	ENSG00000072042	ENST00000554731	nonsense_mediated_decay	KNOWN	None	17964	186	61	68144790	68162483	-1	None	MDT1, SDR7C1, ARSDR1
14	RDH11	ENSG00000072042	ENST00000554035	protein_coding	PUTATIVE	None	17964	615	204	68144804	68159200	-1	None	MDT1, SDR7C1, ARSDR1
14	RDH11	ENSG00000072042	ENST00000553816	retained_intron	KNOWN	None	17964	None	None	68151227	68162434	-1	None	MDT1, SDR7C1, ARSDR1
14	RDH11	ENSG00000072042	ENST00000557273	protein_coding	PUTATIVE	None	17964	535	177	68151790	68162447	-1	None	MDT1, SDR7C1, ARSDR1
14	RDH11	ENSG00000072042	ENST00000557726	protein_coding	PUTATIVE	None	17964	560	185	68151870	68162481	-1	None	MDT1, SDR7C1, ARSDR1
14	RDH11	ENSG00000072042	ENST00000557331	nonsense_mediated_decay	KNOWN	None	17964	189	62	68156992	68162491	-1	None	MDT1, SDR7C1, ARSDR1
14	RDH11	ENSG00000072042	ENST00000556692	retained_intron	KNOWN	None	17964	None	None	68159133	68162510	-1	None	MDT1, SDR7C1, ARSDR1
9	DBC1	ENSG00000078725	ENST00000482797	processed_transcript	KNOWN	None	2687	None	None	121915736	121971164	-1	DBCCR1, DBC1	FAM5A
9	DBC1	ENSG00000078725	ENST00000265922	protein_coding	KNOWN	CCDS6822	2687	2286	761	121928908	122131745	-1	DBCCR1, DBC1	FAM5A
9	DBC1	ENSG00000078725	ENST00000373964	protein_coding	NOVEL	None	2687	963	320	121975898	122131703	-1	DBCCR1, DBC1	FAM5A
8	STMN2	ENSG00000104435	ENST00000220876	protein_coding	KNOWN	CCDS43748	10577	540	179	80523049	80578410	1	SCGN10	SCG10
8	STMN2	ENSG00000104435	ENST00000518111	protein_coding	NOVEL	CCDS56542	10577	564	187	80523387	80577242	1	SCGN10	SCG10
8	STMN2	ENSG00000104435	ENST00000518491	protein_coding	PUTATIVE	None	10577	507	168	80523970	80577116	1	SCGN10	SCG10
5	None	ENSG00000269267	ENST00000594278	protein_coding	NOVEL	None	None	225	74	60411538	60411762	-1	None	None
5	SMIM15	ENSG00000188725	ENST00000339020	protein_coding	KNOWN	CCDS34165	33861	225	74	60453536	60458301	-1	C5orf43	DKFZP686E2158
5	SMIM15	ENSG00000188725	ENST00000507416	protein_coding	KNOWN	CCDS34165	33861	225	74	60455749	60458295	-1	C5orf43	DKFZP686E2158
10	NUTM2E	ENSG00000228570	ENST00000602967	protein_coding	KNOWN	None	23448	1977	658	81601114	81610632	1	FAM22E	None
10	NUTM2E	ENSG00000228570	ENST00000429984	protein_coding	KNOWN	None	23448	2637	878	81601114	81610628	1	FAM22E	None
X	RBMXL3	ENSG00000175718	ENST00000424776	protein_coding	KNOWN	CCDS55478	26859	3204	1067	114423963	114427431	1	CXorf55	FLJ40249
X	LUZP4	ENSG00000102021	ENST00000371921	protein_coding	KNOWN	None	24971	237	78	114524293	114542119	1	None	HOM-TES-85, CT-8, CT28
X	LUZP4	ENSG00000102021	ENST00000371920	protein_coding	KNOWN	CCDS14567	24971	942	313	114524319	114542121	1	None	HOM-TES-85, CT-8, CT28
X	LUZP4	ENSG00000102021	ENST00000451986	protein_coding	KNOWN	None	24971	696	231	114524293	114542119	1	None	HOM-TES-85, CT-8, CT28
5	ZSWIM6	ENSG00000130449	ENST00000252744	protein_coding	NOVEL	CCDS47215	29316	3648	1215	60628100	60841997	1	None	KIAA1577
10	SFTPD	ENSG00000133661	ENST00000372292	protein_coding	KNOWN	CCDS7362	10803	1128	375	81697496	81708859	-1	SFTP4	SP-D, COLEC7
10	SFTPD	ENSG00000133661	ENST00000444384	protein_coding	PUTATIVE	None	10803	655	217	81701205	81742370	-1	SFTP4	SP-D, COLEC7
X	PLS3	ENSG00000102024	ENST00000489283	nonsense_mediated_decay	KNOWN	None	9091	129	42	114795501	114864228	1	None	T-plastin
X	PLS3	ENSG00000102024	ENST00000355899	protein_coding	KNOWN	CCDS14568	9091	1893	630	114795509	114885177	1	None	T-plastin
X	PLS3	ENSG00000102024	ENST00000289290	protein_coding	NOVEL	None	9091	1785	594	114795582	114884078	1	None	T-plastin
X	PLS3	ENSG00000102024	ENST00000481823	nonsense_mediated_decay	KNOWN	None	9091	129	42	114827865	114884376	1	None	T-plastin
X	PLS3	ENSG00000102024	ENST00000473026	protein_coding	PUTATIVE	None	9091	492	163	114844555	114868393	1	None	T-plastin
X	PLS3	ENSG00000102024	ENST00000497870	protein_coding	PUTATIVE	None	9091	568	188	114874030	114880751	1	None	T-plastin
X	PLS3	ENSG00000102024	ENST00000466150	retained_intron	KNOWN	None	9091	None	None	114874616	114880477	1	None	T-plastin
X	PLS3	ENSG00000102024	ENST00000498113	protein_coding	PUTATIVE	None	9091	261	86	114874720	114884310	1	None	T-plastin
X	PLS3	ENSG00000102024	ENST00000420625	protein_coding	KNOWN	CCDS14568	9091	1893	630	114827819	114885181	1	None	T-plastin
X	PLS3	ENSG00000102024	ENST00000537301	protein_coding	KNOWN	None	9091	1854	617	114795555	114884078	1	None	T-plastin
X	PLS3	ENSG00000102024	ENST00000539310	protein_coding	KNOWN	None	9091	1758	585	114827865	114884376	1	None	T-plastin
X	PLS3	ENSG00000102024	ENST00000543070	protein_coding	KNOWN	None	9091	675	224	114874751	114884022	1	None	T-plastin
4	ABCE1	ENSG00000164163	ENST00000296577	protein_coding	KNOWN	CCDS34071	69	1800	599	146019084	146050331	1	RNASEL1, RNASELI, RNS4I	RLI, OABP
4	ABCE1	ENSG00000164163	ENST00000502586	protein_coding	KNOWN	None	69	630	209	146019440	146032136	1	RNASEL1, RNASELI, RNS4I	RLI, OABP
4	ABCE1	ENSG00000164163	ENST00000502803	processed_transcript	KNOWN	None	69	None	None	146019463	146044457	1	RNASEL1, RNASELI, RNS4I	RLI, OABP
4	ABCE1	ENSG00000164163	ENST00000507193	nonsense_mediated_decay	KNOWN	None	69	1266	421	146019463	146048725	1	RNASEL1, RNASELI, RNS4I	RLI, OABP
4	ABCE1	ENSG00000164163	ENST00000506506	processed_transcript	KNOWN	None	69	None	None	146019466	146044690	1	RNASEL1, RNASELI, RNS4I	RLI, OABP
4	ABCE1	ENSG00000164163	ENST00000504292	nonsense_mediated_decay	KNOWN	None	69	444	147	146029179	146038567	1	RNASEL1, RNASELI, RNS4I	RLI, OABP
4	ABCE1	ENSG00000164163	ENST00000515678	retained_intron	KNOWN	None	69	None	None	146042162	146044842	1	RNASEL1, RNASELI, RNS4I	RLI, OABP
4	ABCE1	ENSG00000164163	ENST00000509593	retained_intron	KNOWN	None	69	None	None	146042186	146044479	1	RNASEL1, RNASELI, RNS4I	RLI, OABP
4	ABCE1	ENSG00000164163	ENST00000510321	retained_intron	KNOWN	None	69	None	None	146042472	146045083	1	RNASEL1, RNASELI, RNS4I	RLI, OABP
4	ABCE1	ENSG00000164163	ENST00000504683	retained_intron	KNOWN	None	69	None	None	146044021	146048795	1	RNASEL1, RNASELI, RNS4I	RLI, OABP
16	CIITA	ENSG00000179583	ENST00000324288	protein_coding	KNOWN	CCDS10544	7067	3393	1130	10971055	11023624	1	MHC2TA	C2TA, NLRA
16	CIITA	ENSG00000179583	ENST00000381835	protein_coding	NOVEL	None	7067	1641	546	10971067	11018294	1	MHC2TA	C2TA, NLRA
16	CIITA	ENSG00000179583	ENST00000570546	retained_intron	KNOWN	None	7067	None	None	10971067	11018661	1	MHC2TA	C2TA, NLRA
16	CIITA	ENSG00000179583	ENST00000573309	retained_intron	KNOWN	None	7067	None	None	10971073	11002744	1	MHC2TA	C2TA, NLRA
16	CIITA	ENSG00000179583	ENST00000571186	nonsense_mediated_decay	KNOWN	None	7067	519	172	10971080	10996579	1	MHC2TA	C2TA, NLRA
16	CIITA	ENSG00000179583	ENST00000537380	processed_transcript	KNOWN	None	7067	None	None	10971188	11004100	1	MHC2TA	C2TA, NLRA
16	CIITA	ENSG00000179583	ENST00000576601	protein_coding	PUTATIVE	None	7067	532	176	10972826	10996017	1	MHC2TA	C2TA, NLRA
16	CIITA	ENSG00000179583	ENST00000571190	retained_intron	KNOWN	None	7067	None	None	10995416	10995894	1	MHC2TA	C2TA, NLRA
16	CIITA	ENSG00000179583	ENST00000572665	processed_transcript	KNOWN	None	7067	None	None	11009503	11010867	1	MHC2TA	C2TA, NLRA
16	CIITA	ENSG00000179583	ENST00000575513	retained_intron	KNOWN	None	7067	None	None	11016782	11017849	1	MHC2TA	C2TA, NLRA
16	CIITA	ENSG00000179583	ENST00000571545	processed_transcript	KNOWN	None	7067	None	None	11022021	11026079	1	MHC2TA	C2TA, NLRA
9	TTC39B	ENSG00000155158	ENST00000512701	protein_coding	KNOWN	CCDS6477	23704	2049	682	15171561	15307358	-1	C9orf52	FLJ33868
9	TTC39B	ENSG00000155158	ENST00000380853	retained_intron	KNOWN	None	23704	None	None	15171562	15188063	-1	C9orf52	FLJ33868
9	TTC39B	ENSG00000155158	ENST00000507285	protein_coding	PUTATIVE	CCDS55294	23704	1554	517	15171927	15232442	-1	C9orf52	FLJ33868
9	TTC39B	ENSG00000155158	ENST00000507993	protein_coding	PUTATIVE	CCDS55294	23704	1554	517	15171944	15250114	-1	C9orf52	FLJ33868
9	TTC39B	ENSG00000155158	ENST00000505732	retained_intron	KNOWN	None	23704	None	None	15186585	15307358	-1	C9orf52	FLJ33868
9	TTC39B	ENSG00000155158	ENST00000582994	processed_transcript	KNOWN	None	23704	None	None	15214136	15232442	-1	C9orf52	FLJ33868
9	TTC39B	ENSG00000155158	ENST00000506891	protein_coding	PUTATIVE	None	23704	210	69	15249040	15307207	-1	C9orf52	FLJ33868
9	TTC39B	ENSG00000155158	ENST00000380850	protein_coding	KNOWN	CCDS55296	23704	2010	669	15170843	15307358	-1	C9orf52	FLJ33868
9	TTC39B	ENSG00000155158	ENST00000297615	protein_coding	KNOWN	CCDS55295	23704	1842	613	15170843	15307358	-1	C9orf52	FLJ33868
9	TTC39B	ENSG00000155158	ENST00000355694	protein_coding	KNOWN	None	23704	1851	616	15170843	15307358	-1	C9orf52	FLJ33868
9	TTC39B	ENSG00000155158	ENST00000541445	protein_coding	KNOWN	None	23704	585	194	15190553	15307209	-1	C9orf52	FLJ33868
8	HEY1	ENSG00000164683	ENST00000354724	protein_coding	KNOWN	CCDS6225	4880	915	304	80676245	80680098	-1	None	HESR-1, CHF2, HESR1, HRT-1, CHF-2, HERP2, BHLHb31
8	HEY1	ENSG00000164683	ENST00000337919	protein_coding	KNOWN	CCDS43749	4880	927	308	80676248	80680092	-1	None	HESR-1, CHF2, HESR1, HRT-1, CHF-2, HERP2, BHLHb31
8	HEY1	ENSG00000164683	ENST00000435063	processed_transcript	KNOWN	None	4880	None	None	80676729	80678728	-1	None	HESR-1, CHF2, HESR1, HRT-1, CHF-2, HERP2, BHLHb31
8	HEY1	ENSG00000164683	ENST00000523976	protein_coding	PUTATIVE	None	4880	645	214	80676955	80678710	-1	None	HESR-1, CHF2, HESR1, HRT-1, CHF-2, HERP2, BHLHb31
8	HEY1	ENSG00000164683	ENST00000518733	protein_coding	PUTATIVE	None	4880	558	185	80677666	80679707	-1	None	HESR-1, CHF2, HESR1, HRT-1, CHF-2, HERP2, BHLHb31
8	HEY1	ENSG00000164683	ENST00000521111	retained_intron	KNOWN	None	4880	None	None	80679002	80680019	-1	None	HESR-1, CHF2, HESR1, HRT-1, CHF-2, HERP2, BHLHb31
8	HEY1	ENSG00000164683	ENST00000519075	retained_intron	KNOWN	None	4880	None	None	80679169	80679995	-1	None	HESR-1, CHF2, HESR1, HRT-1, CHF-2, HERP2, BHLHb31
8	HEY1	ENSG00000164683	ENST00000523531	retained_intron	KNOWN	None	4880	None	None	80679245	80680092	-1	None	HESR-1, CHF2, HESR1, HRT-1, CHF-2, HERP2, BHLHb31
19	PIP5K1C	ENSG00000186111	ENST00000335312	protein_coding	KNOWN	CCDS32872	8996	2007	668	3630181	3700477	-1	None	PIP5Kgamma, KIAA0589, LCCS3
19	PIP5K1C	ENSG00000186111	ENST00000539785	protein_coding	KNOWN	CCDS56074	8996	1923	640	3632874	3700463	-1	None	PIP5Kgamma, KIAA0589, LCCS3
19	PIP5K1C	ENSG00000186111	ENST00000589578	protein_coding	NOVEL	None	8996	2124	707	3636599	3700388	-1	None	PIP5Kgamma, KIAA0589, LCCS3
19	PIP5K1C	ENSG00000186111	ENST00000537021	protein_coding	KNOWN	None	8996	2103	700	3636599	3700388	-1	None	PIP5Kgamma, KIAA0589, LCCS3
19	PIP5K1C	ENSG00000186111	ENST00000592530	processed_transcript	KNOWN	None	8996	None	None	3644087	3649427	-1	None	PIP5Kgamma, KIAA0589, LCCS3
19	PIP5K1C	ENSG00000186111	ENST00000587482	processed_transcript	KNOWN	None	8996	None	None	3649889	3700439	-1	None	PIP5Kgamma, KIAA0589, LCCS3
14	RDH12	ENSG00000139988	ENST00000551171	protein_coding	KNOWN	CCDS9787	19977	951	316	68168603	68201169	1	None	FLJ30273, SDR7C2, LCA13, RP53
14	RDH12	ENSG00000139988	ENST00000547463	processed_transcript	KNOWN	None	19977	None	None	68184523	68187616	1	None	FLJ30273, SDR7C2, LCA13, RP53
14	RDH12	ENSG00000139988	ENST00000552873	retained_intron	KNOWN	None	19977	None	None	68193881	68196463	1	None	FLJ30273, SDR7C2, LCA13, RP53
14	RDH12	ENSG00000139988	ENST00000267502	protein_coding	KNOWN	CCDS9787	19977	951	316	68187559	68201167	1	None	FLJ30273, SDR7C2, LCA13, RP53
14	RDH12	ENSG00000139988	ENST00000539142	protein_coding	KNOWN	CCDS9787	19977	951	316	68189190	68201167	1	None	FLJ30273, SDR7C2, LCA13, RP53
15	C15orf61	ENSG00000189227	ENST00000342683	protein_coding	KNOWN	CCDS45289	34453	474	157	67813406	67819628	1	None	LOC145853
15	C15orf61	ENSG00000189227	ENST00000560041	processed_transcript	PUTATIVE	None	34453	None	None	67814023	67818979	1	None	LOC145853
15	C15orf61	ENSG00000189227	ENST00000557807	protein_coding	PUTATIVE	None	34453	183	60	67814033	67818976	1	None	LOC145853
15	C15orf61	ENSG00000189227	ENST00000560547	processed_transcript	PUTATIVE	None	34453	None	None	67814123	67818879	1	None	LOC145853
6	HIST1H4C	ENSG00000197061	ENST00000377803	protein_coding	KNOWN	CCDS4583	4787	312	103	26104104	26104518	1	H4FG	H4/g, dJ221C16.1
5	C5orf64	ENSG00000178722	ENST00000507461	processed_transcript	KNOWN	None	26744	None	None	60933535	61047590	1	None	FLJ37543
5	C5orf64	ENSG00000178722	ENST00000511407	processed_transcript	PUTATIVE	None	26744	None	None	60933608	61026400	1	None	FLJ37543
5	C5orf64	ENSG00000178722	ENST00000505642	protein_coding	KNOWN	CCDS54860	26744	393	130	60933636	61002362	1	None	FLJ37543
5	C5orf64	ENSG00000178722	ENST00000510414	processed_transcript	KNOWN	None	26744	None	None	60933636	61026205	1	None	FLJ37543
5	C5orf64	ENSG00000178722	ENST00000502395	retained_intron	KNOWN	None	26744	None	None	60982699	61000010	1	None	FLJ37543
5	C5orf64	ENSG00000178722	ENST00000313303	protein_coding	KNOWN	CCDS54860	26744	393	130	60939162	60999884	1	None	FLJ37543
6	HIST1H1T	ENSG00000187475	ENST00000338379	protein_coding	KNOWN	CCDS34349	4720	624	207	26107640	26108364	-1	H1FT	H1t
9	None	ENSG00000260970	ENST00000565320	protein_coding	NOVEL	None	None	180	59	122257653	122286403	1	None	None
6	HIST1H2BC	ENSG00000180596	ENST00000314332	protein_coding	KNOWN	CCDS4584	4757	381	126	26115101	26124138	-1	H2BFL	H2B/l, H2B.1
6	HIST1H2BC	ENSG00000180596	ENST00000396984	protein_coding	KNOWN	CCDS4584	4757	381	126	26123584	26124154	-1	H2BFL	H2B/l, H2B.1
14	ZFYVE26	ENSG00000072121	ENST00000394455	retained_intron	KNOWN	None	20761	None	None	68194091	68237194	-1	SPG15	KIAA0321
14	ZFYVE26	ENSG00000072121	ENST00000347230	protein_coding	KNOWN	CCDS9788	20761	7620	2539	68213237	68283306	-1	SPG15	KIAA0321
14	ZFYVE26	ENSG00000072121	ENST00000554557	nonsense_mediated_decay	KNOWN	None	20761	1335	444	68214750	68283297	-1	SPG15	KIAA0321
14	ZFYVE26	ENSG00000072121	ENST00000554523	retained_intron	KNOWN	None	20761	None	None	68214946	68283304	-1	SPG15	KIAA0321
14	ZFYVE26	ENSG00000072121	ENST00000557306	protein_coding	PUTATIVE	None	20761	984	327	68217190	68228208	-1	SPG15	KIAA0321
14	ZFYVE26	ENSG00000072121	ENST00000554783	retained_intron	KNOWN	None	20761	None	None	68220428	68223138	-1	SPG15	KIAA0321
14	ZFYVE26	ENSG00000072121	ENST00000555452	protein_coding	PUTATIVE	None	20761	6678	2225	68227499	68283304	-1	SPG15	KIAA0321
14	ZFYVE26	ENSG00000072121	ENST00000557204	retained_intron	KNOWN	None	20761	None	None	68244301	68245044	-1	SPG15	KIAA0321
14	ZFYVE26	ENSG00000072121	ENST00000557366	retained_intron	KNOWN	None	20761	None	None	68262938	68283302	-1	SPG15	KIAA0321
14	ZFYVE26	ENSG00000072121	ENST00000557407	retained_intron	KNOWN	None	20761	None	None	68264037	68283302	-1	SPG15	KIAA0321
14	ZFYVE26	ENSG00000072121	ENST00000553399	retained_intron	KNOWN	None	20761	None	None	68282246	68283307	-1	SPG15	KIAA0321
15	MAP2K5	ENSG00000137764	ENST00000178640	protein_coding	KNOWN	CCDS10224	6845	1347	448	67835047	68099461	1	PRKMK5	MEK5, MAPKK5, HsT17454
15	MAP2K5	ENSG00000137764	ENST00000560591	processed_transcript	KNOWN	None	6845	None	None	67835601	67951694	1	PRKMK5	MEK5, MAPKK5, HsT17454
15	MAP2K5	ENSG00000137764	ENST00000395476	protein_coding	KNOWN	CCDS42051	6845	1317	438	67835669	68099455	1	PRKMK5	MEK5, MAPKK5, HsT17454
15	MAP2K5	ENSG00000137764	ENST00000560086	processed_transcript	KNOWN	None	6845	None	None	67838491	67842413	1	PRKMK5	MEK5, MAPKK5, HsT17454
15	MAP2K5	ENSG00000137764	ENST00000354498	protein_coding	KNOWN	CCDS55970	6845	1239	412	67841336	68099449	1	PRKMK5	MEK5, MAPKK5, HsT17454
15	MAP2K5	ENSG00000137764	ENST00000439036	protein_coding	PUTATIVE	None	6845	387	128	67855638	67933827	1	PRKMK5	MEK5, MAPKK5, HsT17454
15	MAP2K5	ENSG00000137764	ENST00000558392	retained_intron	KNOWN	None	6845	None	None	67878080	68099421	1	PRKMK5	MEK5, MAPKK5, HsT17454
15	MAP2K5	ENSG00000137764	ENST00000559262	processed_transcript	KNOWN	None	6845	None	None	67878226	67972294	1	PRKMK5	MEK5, MAPKK5, HsT17454
15	MAP2K5	ENSG00000137764	ENST00000340972	protein_coding	PUTATIVE	None	6845	777	258	67932891	68099451	1	PRKMK5	MEK5, MAPKK5, HsT17454
15	MAP2K5	ENSG00000137764	ENST00000557869	retained_intron	KNOWN	None	6845	None	None	67995696	68062267	1	PRKMK5	MEK5, MAPKK5, HsT17454
15	MAP2K5	ENSG00000137764	ENST00000558274	processed_transcript	KNOWN	None	6845	None	None	68010335	68099070	1	PRKMK5	MEK5, MAPKK5, HsT17454
15	MAP2K5	ENSG00000137764	ENST00000558021	retained_intron	KNOWN	None	6845	None	None	68040706	68062243	1	PRKMK5	MEK5, MAPKK5, HsT17454
8	MRPS28	ENSG00000147586	ENST00000276585	protein_coding	KNOWN	CCDS6226	14513	564	187	80830952	80942506	-1	None	MRP-S28, HSPC007, MRPS35
8	MRPS28	ENSG00000147586	ENST00000522938	nonsense_mediated_decay	KNOWN	None	14513	284	93	80831090	80915417	-1	None	MRP-S28, HSPC007, MRPS35
8	MRPS28	ENSG00000147586	ENST00000519386	protein_coding	PUTATIVE	None	14513	430	142	80831090	80942074	-1	None	MRP-S28, HSPC007, MRPS35
8	MRPS28	ENSG00000147586	ENST00000521434	protein_coding	PUTATIVE	None	14513	378	125	80831175	80942147	-1	None	MRP-S28, HSPC007, MRPS35
8	MRPS28	ENSG00000147586	ENST00000521605	protein_coding	NOVEL	None	14513	261	86	80831201	80942524	-1	None	MRP-S28, HSPC007, MRPS35
8	MRPS28	ENSG00000147586	ENST00000519120	protein_coding	PUTATIVE	None	14513	310	102	80831223	80942199	-1	None	MRP-S28, HSPC007, MRPS35
8	MRPS28	ENSG00000147586	ENST00000520946	protein_coding	PUTATIVE	None	14513	326	107	80831267	80942209	-1	None	MRP-S28, HSPC007, MRPS35
8	MRPS28	ENSG00000147586	ENST00000518271	protein_coding	PUTATIVE	None	14513	487	161	80831360	80942467	-1	None	MRP-S28, HSPC007, MRPS35
8	MRPS28	ENSG00000147586	ENST00000518371	protein_coding	PUTATIVE	None	14513	250	82	80870038	80915383	-1	None	MRP-S28, HSPC007, MRPS35
8	MRPS28	ENSG00000147586	ENST00000522987	processed_transcript	KNOWN	None	14513	None	None	80870507	80942489	-1	None	MRP-S28, HSPC007, MRPS35
X	None	ENSG00000228532	ENST00000449327	protein_coding	NOVEL	None	None	288	95	114952650	114953669	-1	None	None
X	AGTR2	ENSG00000180772	ENST00000371906	protein_coding	KNOWN	CCDS14569	338	1092	363	115301975	115306225	1	None	AT2, MRX88
4	UCHL1	ENSG00000154277	ENST00000514924	protein_coding	KNOWN	None	12513	174	57	41258430	41259754	1	PARK5	PGP9.5, Uch-L1
4	UCHL1	ENSG00000154277	ENST00000503431	protein_coding	KNOWN	CCDS3462	12513	672	223	41258786	41270273	1	PARK5	PGP9.5, Uch-L1
4	UCHL1	ENSG00000154277	ENST00000284440	protein_coding	KNOWN	CCDS3462	12513	672	223	41258850	41270446	1	PARK5	PGP9.5, Uch-L1
4	UCHL1	ENSG00000154277	ENST00000381760	retained_intron	KNOWN	None	12513	None	None	41258925	41270445	1	PARK5	PGP9.5, Uch-L1
4	UCHL1	ENSG00000154277	ENST00000512419	nonsense_mediated_decay	KNOWN	None	12513	210	69	41258928	41270472	1	PARK5	PGP9.5, Uch-L1
4	UCHL1	ENSG00000154277	ENST00000505232	nonsense_mediated_decay	KNOWN	None	12513	471	156	41258949	41270125	1	PARK5	PGP9.5, Uch-L1
4	UCHL1	ENSG00000154277	ENST00000504818	processed_transcript	KNOWN	None	12513	None	None	41258950	41263940	1	PARK5	PGP9.5, Uch-L1
4	UCHL1	ENSG00000154277	ENST00000508768	protein_coding	NOVEL	None	12513	624	207	41258957	41270256	1	PARK5	PGP9.5, Uch-L1
4	UCHL1	ENSG00000154277	ENST00000512788	protein_coding	NOVEL	None	12513	726	241	41258962	41270142	1	PARK5	PGP9.5, Uch-L1
4	UCHL1	ENSG00000154277	ENST00000472501	retained_intron	KNOWN	None	12513	None	None	41258963	41270444	1	PARK5	PGP9.5, Uch-L1
4	UCHL1	ENSG00000154277	ENST00000514764	retained_intron	KNOWN	None	12513	None	None	41262656	41270446	1	PARK5	PGP9.5, Uch-L1
4	UCHL1	ENSG00000154277	ENST00000510566	retained_intron	KNOWN	None	12513	None	None	41263756	41266482	1	PARK5	PGP9.5, Uch-L1
9	CDK5RAP2	ENSG00000136861	ENST00000349780	protein_coding	KNOWN	CCDS6823	18672	5682	1893	123151148	123342436	-1	MCPH3	C48, FLJ10867, CEP215
9	CDK5RAP2	ENSG00000136861	ENST00000360190	protein_coding	KNOWN	CCDS43871	18672	5445	1814	123151154	123342436	-1	MCPH3	C48, FLJ10867, CEP215
9	CDK5RAP2	ENSG00000136861	ENST00000495406	retained_intron	KNOWN	None	18672	None	None	123151473	123152555	-1	MCPH3	C48, FLJ10867, CEP215
9	CDK5RAP2	ENSG00000136861	ENST00000474262	retained_intron	KNOWN	None	18672	None	None	123151474	123163297	-1	MCPH3	C48, FLJ10867, CEP215
9	CDK5RAP2	ENSG00000136861	ENST00000473282	nonsense_mediated_decay	KNOWN	None	18672	1383	460	123151474	123342283	-1	MCPH3	C48, FLJ10867, CEP215
9	CDK5RAP2	ENSG00000136861	ENST00000480112	nonsense_mediated_decay	KNOWN	None	18672	2250	749	123151474	123342283	-1	MCPH3	C48, FLJ10867, CEP215
9	CDK5RAP2	ENSG00000136861	ENST00000416449	protein_coding	PUTATIVE	None	18672	3864	1287	123151476	123239632	-1	MCPH3	C48, FLJ10867, CEP215
9	CDK5RAP2	ENSG00000136861	ENST00000433194	processed_transcript	KNOWN	None	18672	None	None	123151477	123165730	-1	MCPH3	C48, FLJ10867, CEP215
9	CDK5RAP2	ENSG00000136861	ENST00000480467	processed_transcript	KNOWN	None	18672	None	None	123151477	123165773	-1	MCPH3	C48, FLJ10867, CEP215
9	CDK5RAP2	ENSG00000136861	ENST00000484546	retained_intron	KNOWN	None	18672	None	None	123151477	123165940	-1	MCPH3	C48, FLJ10867, CEP215
9	CDK5RAP2	ENSG00000136861	ENST00000425647	protein_coding	PUTATIVE	None	18672	2712	903	123151479	123210350	-1	MCPH3	C48, FLJ10867, CEP215
9	CDK5RAP2	ENSG00000136861	ENST00000483412	retained_intron	KNOWN	None	18672	None	None	123168424	123298715	-1	MCPH3	C48, FLJ10867, CEP215
9	CDK5RAP2	ENSG00000136861	ENST00000468989	processed_transcript	KNOWN	None	18672	None	None	123201796	123202697	-1	MCPH3	C48, FLJ10867, CEP215
9	CDK5RAP2	ENSG00000136861	ENST00000479584	processed_transcript	KNOWN	None	18672	None	None	123202068	123220800	-1	MCPH3	C48, FLJ10867, CEP215
9	CDK5RAP2	ENSG00000136861	ENST00000482047	protein_coding	PUTATIVE	None	18672	400	132	123280878	123294833	-1	MCPH3	C48, FLJ10867, CEP215
9	CDK5RAP2	ENSG00000136861	ENST00000472883	processed_transcript	KNOWN	None	18672	None	None	123290104	123301398	-1	MCPH3	C48, FLJ10867, CEP215
9	CDK5RAP2	ENSG00000136861	ENST00000481266	nonsense_mediated_decay	KNOWN	None	18672	828	275	123290184	123342339	-1	MCPH3	C48, FLJ10867, CEP215
9	CDK5RAP2	ENSG00000136861	ENST00000491334	retained_intron	KNOWN	None	18672	None	None	123334025	123342448	-1	MCPH3	C48, FLJ10867, CEP215
9	CDK5RAP2	ENSG00000136861	ENST00000360822	protein_coding	KNOWN	None	18672	5586	1861	123151147	123342437	-1	MCPH3	C48, FLJ10867, CEP215
9	CDK5RAP2	ENSG00000136861	ENST00000359309	protein_coding	KNOWN	None	18672	5559	1852	123151147	123342437	-1	MCPH3	C48, FLJ10867, CEP215
X	SLC6A14	ENSG00000087916	ENST00000371900	protein_coding	KNOWN	CCDS14570	11047	1929	642	115567790	115592625	1	None	None
X	SLC6A14	ENSG00000087916	ENST00000463626	processed_transcript	KNOWN	None	11047	None	None	115586143	115590108	1	None	None
8	TPD52	ENSG00000076554	ENST00000379096	protein_coding	KNOWN	CCDS55249	12005	555	184	80947103	81083793	-1	None	D52, hD52, N8L
8	TPD52	ENSG00000076554	ENST00000518937	protein_coding	KNOWN	CCDS47879	12005	624	207	80948335	81083894	-1	None	D52, hD52, N8L
8	TPD52	ENSG00000076554	ENST00000520527	protein_coding	PUTATIVE	None	12005	744	247	80948820	80993051	-1	None	D52, hD52, N8L
8	TPD52	ENSG00000076554	ENST00000517427	protein_coding	NOVEL	None	12005	702	233	80948820	80993051	-1	None	D52, hD52, N8L
8	TPD52	ENSG00000076554	ENST00000517462	nonsense_mediated_decay	KNOWN	None	12005	456	151	80948826	80993051	-1	None	D52, hD52, N8L
8	TPD52	ENSG00000076554	ENST00000379097	protein_coding	KNOWN	CCDS34912	12005	675	224	80948826	80993051	-1	None	D52, hD52, N8L
8	TPD52	ENSG00000076554	ENST00000519303	protein_coding	PUTATIVE	None	12005	183	60	80949542	81083435	-1	None	D52, hD52, N8L
8	TPD52	ENSG00000076554	ENST00000523395	processed_transcript	KNOWN	None	12005	None	None	80949912	80963651	-1	None	D52, hD52, N8L
8	TPD52	ENSG00000076554	ENST00000523193	retained_intron	KNOWN	None	12005	None	None	80949976	80964094	-1	None	D52, hD52, N8L
8	TPD52	ENSG00000076554	ENST00000523319	retained_intron	KNOWN	None	12005	None	None	80950101	80976905	-1	None	D52, hD52, N8L
8	TPD52	ENSG00000076554	ENST00000521354	nonsense_mediated_decay	KNOWN	None	12005	186	61	80950118	81083791	-1	None	D52, hD52, N8L
8	TPD52	ENSG00000076554	ENST00000520877	processed_transcript	KNOWN	None	12005	None	None	80950121	80963636	-1	None	D52, hD52, N8L
8	TPD52	ENSG00000076554	ENST00000521618	retained_intron	KNOWN	None	12005	None	None	80950183	80955146	-1	None	D52, hD52, N8L
8	TPD52	ENSG00000076554	ENST00000518517	nonsense_mediated_decay	KNOWN	None	12005	117	38	80950420	81083706	-1	None	D52, hD52, N8L
8	TPD52	ENSG00000076554	ENST00000524194	retained_intron	KNOWN	None	12005	None	None	80950437	80965665	-1	None	D52, hD52, N8L
8	TPD52	ENSG00000076554	ENST00000521241	nonsense_mediated_decay	KNOWN	None	12005	336	111	80950452	81083808	-1	None	D52, hD52, N8L
8	TPD52	ENSG00000076554	ENST00000517445	retained_intron	KNOWN	None	12005	None	None	80954855	80965588	-1	None	D52, hD52, N8L
8	TPD52	ENSG00000076554	ENST00000523753	nonsense_mediated_decay	KNOWN	None	12005	117	38	80956405	81083743	-1	None	D52, hD52, N8L
8	TPD52	ENSG00000076554	ENST00000522364	retained_intron	KNOWN	None	12005	None	None	80963713	80992849	-1	None	D52, hD52, N8L
8	TPD52	ENSG00000076554	ENST00000519250	processed_transcript	KNOWN	None	12005	None	None	80963779	81143467	-1	None	D52, hD52, N8L
8	TPD52	ENSG00000076554	ENST00000518500	retained_intron	KNOWN	None	12005	None	None	80965281	80976787	-1	None	D52, hD52, N8L
8	TPD52	ENSG00000076554	ENST00000520795	protein_coding	PUTATIVE	None	12005	445	147	80965514	81083618	-1	None	D52, hD52, N8L
8	TPD52	ENSG00000076554	ENST00000520741	retained_intron	KNOWN	None	12005	None	None	80976698	80992848	-1	None	D52, hD52, N8L
8	TPD52	ENSG00000076554	ENST00000521561	processed_transcript	PUTATIVE	None	12005	None	None	80976710	81071122	-1	None	D52, hD52, N8L
8	TPD52	ENSG00000076554	ENST00000523783	processed_transcript	PUTATIVE	None	12005	None	None	80979127	80992631	-1	None	D52, hD52, N8L
8	TPD52	ENSG00000076554	ENST00000523564	processed_transcript	KNOWN	None	12005	None	None	81089892	81130765	-1	None	D52, hD52, N8L
8	TPD52	ENSG00000076554	ENST00000520035	processed_transcript	KNOWN	None	12005	None	None	81090228	81143407	-1	None	D52, hD52, N8L
8	TPD52	ENSG00000076554	ENST00000602950	processed_transcript	KNOWN	None	12005	None	None	81095256	81143454	-1	None	D52, hD52, N8L
8	TPD52	ENSG00000076554	ENST00000537855	protein_coding	KNOWN	None	12005	837	278	80870571	80993010	-1	None	D52, hD52, N8L
8	TPD52	ENSG00000076554	ENST00000448733	protein_coding	KNOWN	None	12005	717	238	80948824	80993051	-1	None	D52, hD52, N8L
9	SNAPC3	ENSG00000164975	ENST00000380821	protein_coding	KNOWN	CCDS6478	11136	1236	411	15422702	15464132	1	None	SNAP50, PTFbeta, MGC33124, MGC132011
9	SNAPC3	ENSG00000164975	ENST00000467062	nonsense_mediated_decay	KNOWN	CCDS6478	11136	1236	411	15422732	15465951	1	None	SNAP50, PTFbeta, MGC33124, MGC132011
9	SNAPC3	ENSG00000164975	ENST00000490969	nonsense_mediated_decay	KNOWN	CCDS6478	11136	1236	411	15422867	15462458	1	None	SNAP50, PTFbeta, MGC33124, MGC132011
9	SNAPC3	ENSG00000164975	ENST00000421710	protein_coding	KNOWN	None	11136	729	242	15422877	15453102	1	None	SNAP50, PTFbeta, MGC33124, MGC132011
9	SNAPC3	ENSG00000164975	ENST00000461041	processed_transcript	KNOWN	None	11136	None	None	15423140	15433822	1	None	SNAP50, PTFbeta, MGC33124, MGC132011
9	SNAPC3	ENSG00000164975	ENST00000380799	protein_coding	KNOWN	None	11136	375	124	15447110	15453575	1	None	SNAP50, PTFbeta, MGC33124, MGC132011
X	CXorf61	ENSG00000204019	ENST00000371894	protein_coding	KNOWN	CCDS35372	33494	342	113	115592849	115594164	-1	None	KK-LC-1, FLJ20611, FLJ22913, CT83
X	KLHL13	ENSG00000003096	ENST00000371882	protein_coding	KNOWN	None	22931	1815	604	117031776	117250761	-1	BKLHD2, KIAA1309	FLJ10262
X	KLHL13	ENSG00000003096	ENST00000371876	protein_coding	KNOWN	None	22931	1815	604	117031777	117081905	-1	BKLHD2, KIAA1309	FLJ10262
X	KLHL13	ENSG00000003096	ENST00000371878	protein_coding	KNOWN	None	22931	1815	604	117031777	117107542	-1	BKLHD2, KIAA1309	FLJ10262
X	KLHL13	ENSG00000003096	ENST00000447671	protein_coding	KNOWN	None	22931	1815	604	117031777	117107701	-1	BKLHD2, KIAA1309	FLJ10262
X	KLHL13	ENSG00000003096	ENST00000469946	protein_coding	KNOWN	None	22931	1815	604	117032535	117119283	-1	BKLHD2, KIAA1309	FLJ10262
X	KLHL13	ENSG00000003096	ENST00000453826	protein_coding	KNOWN	None	22931	113	36	117054308	117162458	-1	BKLHD2, KIAA1309	FLJ10262
X	KLHL13	ENSG00000003096	ENST00000541812	protein_coding	KNOWN	CCDS55481	22931	1920	639	117031777	117251303	-1	BKLHD2, KIAA1309	FLJ10262
X	KLHL13	ENSG00000003096	ENST00000540167	protein_coding	KNOWN	CCDS55481	22931	1920	639	117031777	117250828	-1	BKLHD2, KIAA1309	FLJ10262
X	KLHL13	ENSG00000003096	ENST00000539496	protein_coding	KNOWN	CCDS55480	22931	1977	658	117031777	117119243	-1	BKLHD2, KIAA1309	FLJ10262
X	KLHL13	ENSG00000003096	ENST00000262820	protein_coding	KNOWN	CCDS14571	22931	1968	655	117031777	117107701	-1	BKLHD2, KIAA1309	FLJ10262
X	KLHL13	ENSG00000003096	ENST00000545703	protein_coding	KNOWN	CCDS55479	22931	1842	613	117031777	117250828	-1	BKLHD2, KIAA1309	FLJ10262
10	TMEM254	ENSG00000133678	ENST00000472622	processed_transcript	KNOWN	None	25804	None	None	81838402	81851058	1	C10orf57	FLJ13263, bA369J21.6
10	TMEM254	ENSG00000133678	ENST00000372281	protein_coding	KNOWN	CCDS7363	25804	372	123	81838426	81852313	1	C10orf57	FLJ13263, bA369J21.6
10	TMEM254	ENSG00000133678	ENST00000372275	protein_coding	KNOWN	CCDS58087	25804	255	84	81838438	81851091	1	C10orf57	FLJ13263, bA369J21.6
10	TMEM254	ENSG00000133678	ENST00000372274	protein_coding	KNOWN	CCDS58086	25804	312	103	81838448	81850694	1	C10orf57	FLJ13263, bA369J21.6
10	TMEM254	ENSG00000133678	ENST00000372273	protein_coding	NOVEL	None	25804	434	143	81838792	81852313	1	C10orf57	FLJ13263, bA369J21.6
10	TMEM254	ENSG00000133678	ENST00000467529	processed_transcript	KNOWN	None	25804	None	None	81839026	81852313	1	C10orf57	FLJ13263, bA369J21.6
10	TMEM254	ENSG00000133678	ENST00000463029	processed_transcript	KNOWN	None	25804	None	None	81839029	81851105	1	C10orf57	FLJ13263, bA369J21.6
10	TMEM254	ENSG00000133678	ENST00000476173	processed_transcript	KNOWN	None	25804	None	None	81839051	81851108	1	C10orf57	FLJ13263, bA369J21.6
10	TMEM254	ENSG00000133678	ENST00000483732	processed_transcript	KNOWN	None	25804	None	None	81839084	81850806	1	C10orf57	FLJ13263, bA369J21.6
10	TMEM254	ENSG00000133678	ENST00000463209	processed_transcript	KNOWN	None	25804	None	None	81841459	81846197	1	C10orf57	FLJ13263, bA369J21.6
10	TMEM254	ENSG00000133678	ENST00000450179	protein_coding	NOVEL	None	25804	304	100	81841479	81851088	1	C10orf57	FLJ13263, bA369J21.6
10	TMEM254	ENSG00000133678	ENST00000372277	protein_coding	KNOWN	CCDS58086	25804	312	103	81838426	81850168	1	C10orf57	FLJ13263, bA369J21.6
9	PSIP1	ENSG00000164985	ENST00000380738	protein_coding	KNOWN	CCDS6479	9527	1593	530	15464064	15510993	-1	PSIP2	p52, LEDGF, p75
9	PSIP1	ENSG00000164985	ENST00000380733	protein_coding	KNOWN	CCDS6479	9527	1593	530	15464064	15511017	-1	PSIP2	p52, LEDGF, p75
9	PSIP1	ENSG00000164985	ENST00000380715	protein_coding	KNOWN	None	9527	990	329	15470634	15510989	-1	PSIP2	p52, LEDGF, p75
9	PSIP1	ENSG00000164985	ENST00000380716	protein_coding	KNOWN	CCDS6480	9527	1002	333	15470634	15510992	-1	PSIP2	p52, LEDGF, p75
9	PSIP1	ENSG00000164985	ENST00000481862	processed_transcript	KNOWN	None	9527	None	None	15470988	15472748	-1	PSIP2	p52, LEDGF, p75
9	PSIP1	ENSG00000164985	ENST00000495873	processed_transcript	KNOWN	None	9527	None	None	15472079	15474199	-1	PSIP2	p52, LEDGF, p75
9	PSIP1	ENSG00000164985	ENST00000487363	processed_transcript	KNOWN	None	9527	None	None	15485901	15510287	-1	PSIP2	p52, LEDGF, p75
9	PSIP1	ENSG00000164985	ENST00000463712	processed_transcript	KNOWN	None	9527	None	None	15489268	15510944	-1	PSIP2	p52, LEDGF, p75
9	PSIP1	ENSG00000164985	ENST00000488797	processed_transcript	KNOWN	None	9527	None	None	15491950	15510989	-1	PSIP2	p52, LEDGF, p75
9	PSIP1	ENSG00000164985	ENST00000484265	processed_transcript	KNOWN	None	9527	None	None	15504957	15510987	-1	PSIP2	p52, LEDGF, p75
9	PSIP1	ENSG00000164985	ENST00000397519	protein_coding	KNOWN	CCDS6480	9527	1002	333	15470644	15510287	-1	PSIP2	p52, LEDGF, p75
15	SKOR1	ENSG00000188779	ENST00000341418	protein_coding	KNOWN	CCDS58374	21326	2607	868	68112042	68126899	1	LBXCOR1	CORL1, FUSSEL15
15	SKOR1	ENSG00000188779	ENST00000554240	protein_coding	NOVEL	None	21326	2781	926	68115895	68126876	1	LBXCOR1	CORL1, FUSSEL15
15	SKOR1	ENSG00000188779	ENST00000554054	protein_coding	NOVEL	None	21326	2814	937	68117854	68126893	1	LBXCOR1	CORL1, FUSSEL15
15	SKOR1	ENSG00000188779	ENST00000380035	protein_coding	KNOWN	None	21326	2898	965	68117883	68126893	1	LBXCOR1	CORL1, FUSSEL15
15	SKOR1	ENSG00000188779	ENST00000389002	protein_coding	KNOWN	None	21326	2766	921	68117941	68126174	1	LBXCOR1	CORL1, FUSSEL15
5	KIF2A	ENSG00000068796	ENST00000401507	protein_coding	KNOWN	CCDS3980	6318	2121	706	61601989	61681503	1	KIF2	HK2
5	KIF2A	ENSG00000068796	ENST00000509663	processed_transcript	KNOWN	None	6318	None	None	61602033	61833076	1	KIF2	HK2
5	KIF2A	ENSG00000068796	ENST00000381103	protein_coding	PUTATIVE	CCDS58949	6318	2061	686	61602078	61682210	1	KIF2	HK2
5	KIF2A	ENSG00000068796	ENST00000514082	protein_coding	NOVEL	None	6318	853	283	61602279	61657106	1	KIF2	HK2
5	KIF2A	ENSG00000068796	ENST00000407818	protein_coding	KNOWN	CCDS47216	6318	2235	744	61602279	61681455	1	KIF2	HK2
5	KIF2A	ENSG00000068796	ENST00000504883	retained_intron	KNOWN	None	6318	None	None	61602285	61648848	1	KIF2	HK2
5	KIF2A	ENSG00000068796	ENST00000512541	protein_coding	KNOWN	None	6318	240	79	61602755	61645934	1	KIF2	HK2
5	KIF2A	ENSG00000068796	ENST00000506857	protein_coding	KNOWN	None	6318	1983	660	61607640	61681546	1	KIF2	HK2
5	KIF2A	ENSG00000068796	ENST00000512006	protein_coding	NOVEL	None	6318	392	129	61657133	61673558	1	KIF2	HK2
5	KIF2A	ENSG00000068796	ENST00000509624	retained_intron	KNOWN	None	6318	None	None	61658166	61659094	1	KIF2	HK2
X	WDR44	ENSG00000131725	ENST00000254029	protein_coding	KNOWN	CCDS14572	30512	2742	913	117480072	117583924	1	None	DKFZp686L20145, RPH11, RAB11BP
X	WDR44	ENSG00000131725	ENST00000371825	protein_coding	KNOWN	CCDS55482	30512	2718	905	117480106	117583900	1	None	DKFZp686L20145, RPH11, RAB11BP
X	WDR44	ENSG00000131725	ENST00000493448	processed_transcript	KNOWN	None	30512	None	None	117480162	117527178	1	None	DKFZp686L20145, RPH11, RAB11BP
X	WDR44	ENSG00000131725	ENST00000371848	protein_coding	KNOWN	None	30512	2419	805	117526711	117583299	1	None	DKFZp686L20145, RPH11, RAB11BP
X	WDR44	ENSG00000131725	ENST00000371822	protein_coding	KNOWN	CCDS55483	30512	2475	824	117480036	117583921	1	None	DKFZp686L20145, RPH11, RAB11BP
6	HIST1H2AC	ENSG00000180573	ENST00000314088	nonsense_mediated_decay	KNOWN	CCDS4585	4733	393	130	26124373	26139344	1	H2AFL	None
6	HIST1H2AC	ENSG00000180573	ENST00000602637	protein_coding	KNOWN	CCDS4585	4733	393	130	26124431	26139312	1	H2AFL	None
6	HIST1H2AC	ENSG00000180573	ENST00000377791	protein_coding	KNOWN	CCDS4585	4733	393	130	26124373	26124918	1	H2AFL	None
6	HIST1H1E	ENSG00000168298	ENST00000304218	protein_coding	KNOWN	CCDS4586	4718	660	219	26156559	26157343	1	H1F4	H1.4, H1e, H1s-4
6	HIST1H2BD	ENSG00000158373	ENST00000289316	protein_coding	KNOWN	CCDS4587	4747	381	126	26158374	26171577	1	H2BFB	H2B/b
6	HIST1H2BD	ENSG00000158373	ENST00000377777	protein_coding	KNOWN	CCDS4587	4747	381	126	26158349	26158871	1	H2BFB	H2B/b
6	HIST1H2BE	ENSG00000197697	ENST00000356530	protein_coding	KNOWN	CCDS4588	4753	381	126	26183958	26184454	1	H2BFH	H2B/h, H2B.h
6	HIST1H4D	ENSG00000188987	ENST00000340756	protein_coding	KNOWN	CCDS4589	4782	312	103	26188938	26189304	-1	H4FB	H4/b
6	HIST1H3D	ENSG00000197409	ENST00000356476	protein_coding	KNOWN	CCDS4590	4767	411	136	26197068	26197478	-1	H3FB	H3/b
6	HIST1H3D	ENSG00000197409	ENST00000377831	protein_coding	KNOWN	CCDS4590	4767	411	136	26197068	26199521	-1	H3FB	H3/b
10	PLAC9	ENSG00000189129	ENST00000372270	protein_coding	PUTATIVE	None	19255	168	55	81891438	81904820	1	None	None
10	PLAC9	ENSG00000189129	ENST00000372267	protein_coding	NOVEL	None	19255	264	87	81892347	81904793	1	None	None
10	PLAC9	ENSG00000189129	ENST00000372263	protein_coding	KNOWN	CCDS31232	19255	294	97	81892477	81905115	1	None	None
10	PLAC9	ENSG00000189129	ENST00000465660	retained_intron	KNOWN	None	19255	None	None	81903804	81904786	1	None	None
15	PIAS1	ENSG00000033800	ENST00000249636	protein_coding	KNOWN	CCDS45290	2752	1956	651	68346517	68480402	1	DDXBP1	GBP, GU/RH-II, ZMIZ3
15	PIAS1	ENSG00000033800	ENST00000564915	nonsense_mediated_decay	KNOWN	None	2752	483	160	68346647	68434677	1	DDXBP1	GBP, GU/RH-II, ZMIZ3
15	PIAS1	ENSG00000033800	ENST00000562190	nonsense_mediated_decay	KNOWN	None	2752	63	20	68346656	68434677	1	DDXBP1	GBP, GU/RH-II, ZMIZ3
15	PIAS1	ENSG00000033800	ENST00000545237	protein_coding	NOVEL	None	2752	1962	653	68346914	68480402	1	DDXBP1	GBP, GU/RH-II, ZMIZ3
15	PIAS1	ENSG00000033800	ENST00000564009	processed_transcript	PUTATIVE	None	2752	None	None	68439000	68446299	1	DDXBP1	GBP, GU/RH-II, ZMIZ3
15	PIAS1	ENSG00000033800	ENST00000567417	processed_transcript	PUTATIVE	None	2752	None	None	68468876	68474211	1	DDXBP1	GBP, GU/RH-II, ZMIZ3
15	PIAS1	ENSG00000033800	ENST00000563996	nonsense_mediated_decay	KNOWN	None	2752	194	63	68473549	68483096	1	DDXBP1	GBP, GU/RH-II, ZMIZ3
6	HIST1H2AD	ENSG00000196866	ENST00000341023	protein_coding	KNOWN	CCDS4591	4729	393	130	26199079	26199471	-1	H2AFG	H2A/g, H2A.3
6	HIST1H2BF	ENSG00000197846	ENST00000359985	protein_coding	KNOWN	CCDS4592	4752	381	126	26199748	26200942	1	H2BFG	H2B/g
6	HIST1H4E	ENSG00000198518	ENST00000360441	protein_coding	KNOWN	CCDS4593	4790	312	103	26204858	26206266	1	H4FJ	H4/j
6	HIST1H2BG	ENSG00000187990	ENST00000244601	protein_coding	KNOWN	CCDS4594	4746	381	126	26216428	26216872	-1	H2BFA	H2B/a, H2B.1A
19	TJP3	ENSG00000105289	ENST00000541714	protein_coding	KNOWN	CCDS32873	11829	2760	919	3708107	3750810	1	None	ZO-3
19	TJP3	ENSG00000105289	ENST00000590545	protein_coding	PUTATIVE	None	11829	371	122	3708360	3730432	1	None	ZO-3
19	TJP3	ENSG00000105289	ENST00000539908	protein_coding	PUTATIVE	None	11829	2652	883	3708501	3750808	1	None	ZO-3
19	TJP3	ENSG00000105289	ENST00000587912	retained_intron	KNOWN	None	11829	None	None	3721615	3730285	1	None	ZO-3
19	TJP3	ENSG00000105289	ENST00000589378	protein_coding	PUTATIVE	CCDS59332	11829	2787	928	3721735	3750807	1	None	ZO-3
19	TJP3	ENSG00000105289	ENST00000587686	protein_coding	KNOWN	None	11829	2817	938	3728374	3750811	1	None	ZO-3
19	TJP3	ENSG00000105289	ENST00000591493	retained_intron	KNOWN	None	11829	None	None	3743661	3747892	1	None	ZO-3
19	TJP3	ENSG00000105289	ENST00000586032	nonsense_mediated_decay	KNOWN	None	11829	178	58	3746641	3750811	1	None	ZO-3
19	TJP3	ENSG00000105289	ENST00000587641	processed_transcript	KNOWN	None	11829	None	None	3749612	3750808	1	None	ZO-3
19	TJP3	ENSG00000105289	ENST00000262968	protein_coding	KNOWN	None	11829	2859	952	3728374	3750682	1	None	ZO-3
19	TJP3	ENSG00000105289	ENST00000382008	protein_coding	KNOWN	None	11829	2802	933	3721735	3750807	1	None	ZO-3
6	HIST1H2AE	ENSG00000168274	ENST00000303910	protein_coding	KNOWN	CCDS4595	4724	393	130	26217165	26217711	1	H2AFA	H2A/a, H2A.1
10	ANXA11	ENSG00000122359	ENST00000372231	protein_coding	KNOWN	CCDS7364	535	1518	505	81910645	81965328	-1	ANX11	None
10	ANXA11	ENSG00000122359	ENST00000438331	protein_coding	KNOWN	CCDS7364	535	1518	505	81910645	81965328	-1	ANX11	None
10	ANXA11	ENSG00000122359	ENST00000422982	protein_coding	KNOWN	CCDS7364	535	1518	505	81914880	81965328	-1	ANX11	None
10	ANXA11	ENSG00000122359	ENST00000463340	processed_transcript	KNOWN	None	535	None	None	81915344	81917774	-1	ANX11	None
10	ANXA11	ENSG00000122359	ENST00000447489	protein_coding	KNOWN	None	535	446	147	81915396	81921768	-1	ANX11	None
10	ANXA11	ENSG00000122359	ENST00000481805	retained_intron	KNOWN	None	535	None	None	81926155	81928843	-1	ANX11	None
10	ANXA11	ENSG00000122359	ENST00000437799	protein_coding	KNOWN	None	535	450	149	81928836	81932777	-1	ANX11	None
10	ANXA11	ENSG00000122359	ENST00000463657	processed_transcript	KNOWN	None	535	None	None	81932590	81965278	-1	ANX11	None
10	ANXA11	ENSG00000122359	ENST00000474545	processed_transcript	KNOWN	None	535	None	None	81940858	81964675	-1	ANX11	None
10	ANXA11	ENSG00000122359	ENST00000360615	protein_coding	KNOWN	CCDS7364	535	1518	505	81914880	81965328	-1	ANX11	None
10	ANXA11	ENSG00000122359	ENST00000265447	protein_coding	KNOWN	CCDS7364	535	1518	505	81914880	81965328	-1	ANX11	None
10	ANXA11	ENSG00000122359	ENST00000535999	protein_coding	KNOWN	CCDS7364	535	1518	505	81915350	81964247	-1	ANX11	None
10	ANXA11	ENSG00000122359	ENST00000537102	protein_coding	KNOWN	None	535	1419	472	81915514	81965314	-1	ANX11	None
16	DEXI	ENSG00000182108	ENST00000469379	processed_transcript	KNOWN	None	13267	None	None	11022748	11035988	-1	None	MYLE
16	DEXI	ENSG00000182108	ENST00000331808	protein_coding	KNOWN	CCDS10545	13267	288	95	11022748	11036317	-1	None	MYLE
16	DEXI	ENSG00000182108	ENST00000570992	processed_transcript	KNOWN	None	13267	None	None	11022799	11035575	-1	None	MYLE
4	OTUD4	ENSG00000164164	ENST00000455611	processed_transcript	KNOWN	None	24949	None	None	146031990	146100793	-1	None	HSHIN1, KIAA1046, DUBA6
4	OTUD4	ENSG00000164164	ENST00000454497	protein_coding	KNOWN	CCDS47139	24949	3150	1049	146054801	146100832	-1	None	HSHIN1, KIAA1046, DUBA6
4	OTUD4	ENSG00000164164	ENST00000447906	protein_coding	KNOWN	None	24949	3345	1114	146058286	146101313	-1	None	HSHIN1, KIAA1046, DUBA6
4	OTUD4	ENSG00000164164	ENST00000509517	retained_intron	KNOWN	None	24949	None	None	146067246	146072047	-1	None	HSHIN1, KIAA1046, DUBA6
4	OTUD4	ENSG00000164164	ENST00000514973	protein_coding	PUTATIVE	None	24949	1117	371	146067526	146100832	-1	None	HSHIN1, KIAA1046, DUBA6
4	OTUD4	ENSG00000164164	ENST00000505976	processed_transcript	KNOWN	None	24949	None	None	146076965	146101080	-1	None	HSHIN1, KIAA1046, DUBA6
4	OTUD4	ENSG00000164164	ENST00000509620	protein_coding	KNOWN	CCDS3764	24949	438	145	146080289	146099307	-1	None	HSHIN1, KIAA1046, DUBA6
4	OTUD4	ENSG00000164164	ENST00000504501	protein_coding	KNOWN	None	24949	417	138	146080672	146100763	-1	None	HSHIN1, KIAA1046, DUBA6
4	OTUD4	ENSG00000164164	ENST00000509985	processed_transcript	KNOWN	None	24949	None	None	146080672	146100785	-1	None	HSHIN1, KIAA1046, DUBA6
4	OTUD4	ENSG00000164164	ENST00000504331	processed_transcript	KNOWN	None	24949	None	None	146091921	146092863	-1	None	HSHIN1, KIAA1046, DUBA6
4	OTUD4	ENSG00000164164	ENST00000296579	protein_coding	KNOWN	CCDS3764	24949	438	145	146080289	146100832	-1	None	HSHIN1, KIAA1046, DUBA6
6	HIST1H3E	ENSG00000196966	ENST00000360408	protein_coding	KNOWN	CCDS4596	4769	411	136	26225383	26225844	1	H3FD	H3/d, H3.1
6	HIST1H1D	ENSG00000124575	ENST00000244534	protein_coding	KNOWN	CCDS4597	4717	666	221	26234440	26235216	-1	H1F3	H1.3, H1d, H1s-2
6	HIST1H4F	ENSG00000198327	ENST00000377745	protein_coding	KNOWN	CCDS4598	4783	312	103	26240561	26240976	1	H4FC	H4/c, H4
16	CLEC16A	ENSG00000038532	ENST00000409790	protein_coding	KNOWN	CCDS45409	29013	3162	1053	11038345	11276046	1	KIAA0350	Gop-1
16	CLEC16A	ENSG00000038532	ENST00000409552	protein_coding	KNOWN	CCDS58423	29013	2721	906	11038438	11220201	1	KIAA0350	Gop-1
16	CLEC16A	ENSG00000038532	ENST00000494853	retained_intron	KNOWN	None	29013	None	None	11066338	11118776	1	KIAA0350	Gop-1
16	CLEC16A	ENSG00000038532	ENST00000463896	retained_intron	KNOWN	None	29013	None	None	11118010	11142375	1	KIAA0350	Gop-1
16	CLEC16A	ENSG00000038532	ENST00000476025	processed_transcript	KNOWN	None	29013	None	None	11118330	11141199	1	KIAA0350	Gop-1
16	CLEC16A	ENSG00000038532	ENST00000465491	processed_transcript	KNOWN	None	29013	None	None	11118337	11217777	1	KIAA0350	Gop-1
16	CLEC16A	ENSG00000038532	ENST00000487189	retained_intron	KNOWN	None	29013	None	None	11118675	11138079	1	KIAA0350	Gop-1
16	CLEC16A	ENSG00000038532	ENST00000463459	processed_transcript	KNOWN	None	29013	None	None	11118724	11142369	1	KIAA0350	Gop-1
16	CLEC16A	ENSG00000038532	ENST00000428742	protein_coding	PUTATIVE	None	29013	386	127	11217600	11251082	1	KIAA0350	Gop-1
16	CLEC16A	ENSG00000038532	ENST00000436973	protein_coding	PUTATIVE	None	29013	357	118	11217752	11251090	1	KIAA0350	Gop-1
16	CLEC16A	ENSG00000038532	ENST00000261657	protein_coding	PUTATIVE	None	29013	457	151	11217757	11276038	1	KIAA0350	Gop-1
16	CLEC16A	ENSG00000038532	ENST00000459723	processed_transcript	PUTATIVE	None	29013	None	None	11219867	11244174	1	KIAA0350	Gop-1
16	CLEC16A	ENSG00000038532	ENST00000381822	protein_coding	KNOWN	None	29013	423	140	11219925	11276026	1	KIAA0350	Gop-1
6	HIST1H4G	ENSG00000124578	ENST00000244537	protein_coding	KNOWN	CCDS4599	4792	297	98	26246886	26247259	-1	H4FL	H4/l
6	HIST1H3F	ENSG00000256316	ENST00000446824	protein_coding	KNOWN	CCDS4600	4773	411	136	26250370	26250835	-1	H3FI	H3/i
6	HIST1H2BH	ENSG00000197459	ENST00000356350	protein_coding	KNOWN	CCDS4601	4755	381	126	26251879	26252303	1	H2BFJ	H2B/j
6	HIST1H3G	ENSG00000256018	ENST00000305910	protein_coding	KNOWN	CCDS4602	4772	411	136	26271146	26271612	-1	H3FH	H3/h
6	HIST1H2BI	ENSG00000168242	ENST00000377733	protein_coding	KNOWN	CCDS4603	4756	381	126	26273144	26273622	1	H2BFK	H2B/k
5	DIMT1	ENSG00000086189	ENST00000199320	protein_coding	KNOWN	CCDS3981	30217	942	313	61683081	61699760	-1	DIMT1L	HSA9761
5	DIMT1	ENSG00000086189	ENST00000514605	retained_intron	KNOWN	None	30217	None	None	61684737	61687194	-1	DIMT1L	HSA9761
5	DIMT1	ENSG00000086189	ENST00000506390	protein_coding	PUTATIVE	None	30217	828	275	61687544	61699725	-1	DIMT1L	HSA9761
5	DIMT1	ENSG00000086189	ENST00000514911	nonsense_mediated_decay	KNOWN	None	30217	465	154	61688005	61699766	-1	DIMT1L	HSA9761
5	DIMT1	ENSG00000086189	ENST00000509182	retained_intron	KNOWN	None	30217	None	None	61688639	61699718	-1	DIMT1L	HSA9761
6	HIST1H4H	ENSG00000158406	ENST00000377727	protein_coding	KNOWN	CCDS4604	4788	312	103	26285341	26285737	-1	H4FH	H4/h
6	HIST1H4H	ENSG00000158406	ENST00000289352	protein_coding	KNOWN	CCDS4604	4788	312	103	26281283	26285762	-1	H4FH	H4/h
6	BTN3A2	ENSG00000186470	ENST00000532865	protein_coding	PUTATIVE	None	1139	589	195	26365387	26370831	1	None	None
6	BTN3A2	ENSG00000186470	ENST00000530653	protein_coding	PUTATIVE	None	1139	346	114	26365398	26370588	1	None	None
6	BTN3A2	ENSG00000186470	ENST00000527417	protein_coding	NOVEL	None	1139	479	158	26365398	26373170	1	None	None
6	BTN3A2	ENSG00000186470	ENST00000524682	processed_transcript	KNOWN	None	1139	None	None	26365432	26374601	1	None	None
6	BTN3A2	ENSG00000186470	ENST00000528222	retained_intron	KNOWN	None	1139	None	None	26365436	26368957	1	None	None
6	BTN3A2	ENSG00000186470	ENST00000524459	nonsense_mediated_decay	KNOWN	None	1139	132	43	26365456	26369028	1	None	None
6	BTN3A2	ENSG00000186470	ENST00000532627	processed_transcript	KNOWN	None	1139	None	None	26365456	26373524	1	None	None
6	BTN3A2	ENSG00000186470	ENST00000527422	protein_coding	KNOWN	CCDS4605	1139	1005	334	26365459	26375965	1	None	None
6	BTN3A2	ENSG00000186470	ENST00000356386	protein_coding	KNOWN	CCDS4605	1139	1005	334	26365459	26378546	1	None	None
6	BTN3A2	ENSG00000186470	ENST00000528541	retained_intron	KNOWN	None	1139	None	None	26365486	26368993	1	None	None
6	BTN3A2	ENSG00000186470	ENST00000377708	protein_coding	KNOWN	CCDS4605	1139	1005	334	26365492	26376464	1	None	None
6	BTN3A2	ENSG00000186470	ENST00000396948	protein_coding	KNOWN	CCDS4605	1139	1005	334	26365494	26376044	1	None	None
6	BTN3A2	ENSG00000186470	ENST00000532994	processed_transcript	KNOWN	None	1139	None	None	26365497	26373315	1	None	None
6	BTN3A2	ENSG00000186470	ENST00000532294	retained_intron	KNOWN	None	1139	None	None	26370653	26375036	1	None	None
6	BTN3A2	ENSG00000186470	ENST00000531055	retained_intron	KNOWN	None	1139	None	None	26370719	26373834	1	None	None
6	BTN3A2	ENSG00000186470	ENST00000527639	protein_coding	PUTATIVE	None	1139	348	115	26370747	26373816	1	None	None
6	BTN3A2	ENSG00000186470	ENST00000604202	retained_intron	KNOWN	None	1139	None	None	26372921	26375929	1	None	None
6	BTN3A2	ENSG00000186470	ENST00000396934	protein_coding	KNOWN	CCDS56399	1139	936	311	26365476	26376190	1	None	None
6	BTN3A2	ENSG00000186470	ENST00000508906	protein_coding	KNOWN	CCDS56400	1139	879	292	26365503	26376443	1	None	None
4	LIMCH1	ENSG00000064042	ENST00000513024	protein_coding	PUTATIVE	None	29191	2733	910	41361624	41701020	1	None	DKFZP686A01247, LIMCH1A, LMO7B
4	LIMCH1	ENSG00000064042	ENST00000509638	protein_coding	NOVEL	None	29191	462	153	41362648	41621953	1	None	DKFZP686A01247, LIMCH1A, LMO7B
4	LIMCH1	ENSG00000064042	ENST00000508501	protein_coding	NOVEL	CCDS54764	29191	3171	1056	41362802	41701029	1	None	DKFZP686A01247, LIMCH1A, LMO7B
4	LIMCH1	ENSG00000064042	ENST00000512946	protein_coding	KNOWN	CCDS54763	29191	3174	1057	41362802	41701029	1	None	DKFZP686A01247, LIMCH1A, LMO7B
4	LIMCH1	ENSG00000064042	ENST00000313860	protein_coding	KNOWN	CCDS33977	29191	3252	1083	41362804	41702061	1	None	DKFZP686A01247, LIMCH1A, LMO7B
4	LIMCH1	ENSG00000064042	ENST00000512228	processed_transcript	KNOWN	None	29191	None	None	41362824	41601138	1	None	DKFZP686A01247, LIMCH1A, LMO7B
4	LIMCH1	ENSG00000064042	ENST00000512632	protein_coding	NOVEL	None	29191	2943	980	41362824	41701017	1	None	DKFZP686A01247, LIMCH1A, LMO7B
4	LIMCH1	ENSG00000064042	ENST00000514190	processed_transcript	KNOWN	None	29191	None	None	41362826	41615574	1	None	DKFZP686A01247, LIMCH1A, LMO7B
4	LIMCH1	ENSG00000064042	ENST00000512820	protein_coding	KNOWN	None	29191	3210	1069	41362832	41701037	1	None	DKFZP686A01247, LIMCH1A, LMO7B
4	LIMCH1	ENSG00000064042	ENST00000511424	protein_coding	PUTATIVE	None	29191	78	25	41387820	41615551	1	None	DKFZP686A01247, LIMCH1A, LMO7B
4	LIMCH1	ENSG00000064042	ENST00000446625	protein_coding	PUTATIVE	None	29191	380	125	41387996	41621379	1	None	DKFZP686A01247, LIMCH1A, LMO7B
4	LIMCH1	ENSG00000064042	ENST00000515847	processed_transcript	PUTATIVE	None	29191	None	None	41420756	41600965	1	None	DKFZP686A01247, LIMCH1A, LMO7B
4	LIMCH1	ENSG00000064042	ENST00000503057	protein_coding	KNOWN	None	29191	4404	1467	41540174	41699831	1	None	DKFZP686A01247, LIMCH1A, LMO7B
4	LIMCH1	ENSG00000064042	ENST00000511496	protein_coding	KNOWN	None	29191	2694	897	41540191	41699561	1	None	DKFZP686A01247, LIMCH1A, LMO7B
4	LIMCH1	ENSG00000064042	ENST00000514096	protein_coding	NOVEL	None	29191	2694	897	41614356	41699831	1	None	DKFZP686A01247, LIMCH1A, LMO7B
4	LIMCH1	ENSG00000064042	ENST00000509277	protein_coding	NOVEL	None	29191	2751	916	41614726	41699559	1	None	DKFZP686A01247, LIMCH1A, LMO7B
4	LIMCH1	ENSG00000064042	ENST00000509454	protein_coding	PUTATIVE	None	29191	483	160	41614919	41622311	1	None	DKFZP686A01247, LIMCH1A, LMO7B
4	LIMCH1	ENSG00000064042	ENST00000396595	protein_coding	KNOWN	CCDS47047	29191	2709	902	41614919	41702060	1	None	DKFZP686A01247, LIMCH1A, LMO7B
4	LIMCH1	ENSG00000064042	ENST00000381753	protein_coding	KNOWN	CCDS54765	29191	2673	890	41614919	41702061	1	None	DKFZP686A01247, LIMCH1A, LMO7B
4	LIMCH1	ENSG00000064042	ENST00000508466	protein_coding	NOVEL	None	29191	2753	916	41615493	41699500	1	None	DKFZP686A01247, LIMCH1A, LMO7B
4	LIMCH1	ENSG00000064042	ENST00000515785	processed_transcript	KNOWN	None	29191	None	None	41694972	41699912	1	None	DKFZP686A01247, LIMCH1A, LMO7B
4	LIMCH1	ENSG00000064042	ENST00000505705	processed_transcript	PUTATIVE	None	29191	None	None	41695213	41700496	1	None	DKFZP686A01247, LIMCH1A, LMO7B
19	APBA3	ENSG00000011132	ENST00000588984	retained_intron	KNOWN	None	580	None	None	3750817	3754798	-1	None	X11L2, mint3
19	APBA3	ENSG00000011132	ENST00000590064	retained_intron	KNOWN	None	580	None	None	3750877	3756270	-1	None	X11L2, mint3
19	APBA3	ENSG00000011132	ENST00000316757	protein_coding	KNOWN	CCDS12110	580	1728	575	3750878	3761697	-1	None	X11L2, mint3
19	APBA3	ENSG00000011132	ENST00000591678	retained_intron	KNOWN	None	580	None	None	3751064	3751729	-1	None	X11L2, mint3
19	APBA3	ENSG00000011132	ENST00000586991	retained_intron	KNOWN	None	580	None	None	3751248	3751892	-1	None	X11L2, mint3
19	APBA3	ENSG00000011132	ENST00000592826	retained_intron	KNOWN	None	580	None	None	3752598	3754139	-1	None	X11L2, mint3
19	APBA3	ENSG00000011132	ENST00000590238	retained_intron	KNOWN	None	580	None	None	3753895	3760125	-1	None	X11L2, mint3
19	APBA3	ENSG00000011132	ENST00000589934	retained_intron	KNOWN	None	580	None	None	3759610	3761568	-1	None	X11L2, mint3
16	RMI2	ENSG00000175643	ENST00000573910	retained_intron	KNOWN	None	28349	None	None	11343476	11410818	1	C16orf75	MGC24665, BLAP18
16	RMI2	ENSG00000175643	ENST00000572173	protein_coding	KNOWN	None	28349	255	84	11343506	11445612	1	C16orf75	MGC24665, BLAP18
16	RMI2	ENSG00000175643	ENST00000572992	processed_transcript	KNOWN	None	28349	None	None	11406757	11410893	1	C16orf75	MGC24665, BLAP18
16	RMI2	ENSG00000175643	ENST00000312499	protein_coding	KNOWN	CCDS10548	28349	444	147	11439288	11445619	1	C16orf75	MGC24665, BLAP18
16	RMI2	ENSG00000175643	ENST00000576027	protein_coding	PUTATIVE	None	28349	84	27	11439307	11445222	1	C16orf75	MGC24665, BLAP18
16	RMI2	ENSG00000175643	ENST00000381820	protein_coding	KNOWN	None	28349	255	84	11410636	11445585	1	C16orf75	MGC24665, BLAP18
5	IPO11	ENSG00000086200	ENST00000514647	protein_coding	KNOWN	None	20628	446	147	61699799	61747690	1	None	RanBP11
5	IPO11	ENSG00000086200	ENST00000424533	nonsense_mediated_decay	KNOWN	None	20628	2592	863	61699877	61876507	1	None	RanBP11
5	IPO11	ENSG00000086200	ENST00000505902	protein_coding	KNOWN	None	20628	191	62	61708488	61738862	1	None	RanBP11
5	IPO11	ENSG00000086200	ENST00000325324	protein_coding	KNOWN	CCDS34167	20628	2928	975	61708594	61924404	1	None	RanBP11
5	IPO11	ENSG00000086200	ENST00000506200	protein_coding	KNOWN	None	20628	486	161	61709209	61747730	1	None	RanBP11
5	IPO11	ENSG00000086200	ENST00000409296	protein_coding	KNOWN	CCDS47217	20628	3048	1015	61714711	61923531	1	None	RanBP11
5	IPO11	ENSG00000086200	ENST00000506905	retained_intron	KNOWN	None	20628	None	None	61745558	61763034	1	None	RanBP11
5	IPO11	ENSG00000086200	ENST00000507640	retained_intron	KNOWN	None	20628	None	None	61763031	61779217	1	None	RanBP11
5	IPO11	ENSG00000086200	ENST00000502862	retained_intron	KNOWN	None	20628	None	None	61811278	61822572	1	None	RanBP11
5	IPO11	ENSG00000086200	ENST00000511713	protein_coding	PUTATIVE	None	20628	482	159	61811285	61924373	1	None	RanBP11
5	IPO11	ENSG00000086200	ENST00000511133	processed_transcript	KNOWN	None	20628	None	None	61856523	61887477	1	None	RanBP11
5	IPO11	ENSG00000086200	ENST00000413749	nonsense_mediated_decay	KNOWN	None	20628	180	59	61856963	61877294	1	None	RanBP11
5	IPO11	ENSG00000086200	ENST00000409534	protein_coding	NOVEL	None	20628	285	94	61874648	61924409	1	None	RanBP11
5	IPO11	ENSG00000086200	ENST00000512177	processed_transcript	KNOWN	None	20628	None	None	61897056	61923396	1	None	RanBP11
14	RAD51B	ENSG00000182185	ENST00000479335	nonsense_mediated_decay	KNOWN	None	9822	327	108	68286496	68944768	1	RAD51L1	REC2, hREC2, R51H2
14	RAD51B	ENSG00000182185	ENST00000487861	protein_coding	PUTATIVE	None	9822	1278	425	68286496	69078282	1	RAD51L1	REC2, hREC2, R51H2
14	RAD51B	ENSG00000182185	ENST00000471583	protein_coding	KNOWN	CCDS9790	9822	1053	350	68286525	68944816	1	RAD51L1	REC2, hREC2, R51H2
14	RAD51B	ENSG00000182185	ENST00000487270	protein_coding	KNOWN	CCDS9789	9822	1155	384	68286525	69062713	1	RAD51L1	REC2, hREC2, R51H2
14	RAD51B	ENSG00000182185	ENST00000488612	protein_coding	KNOWN	None	9822	1101	366	68286546	69196935	1	RAD51L1	REC2, hREC2, R51H2
14	RAD51B	ENSG00000182185	ENST00000485181	protein_coding	KNOWN	None	9822	400	132	68288882	68331804	1	RAD51L1	REC2, hREC2, R51H2
14	RAD51B	ENSG00000182185	ENST00000553334	protein_coding	KNOWN	None	9822	225	74	68290237	68301823	1	RAD51L1	REC2, hREC2, R51H2
14	RAD51B	ENSG00000182185	ENST00000553734	processed_transcript	KNOWN	None	9822	None	None	68310150	68353867	1	RAD51L1	REC2, hREC2, R51H2
14	RAD51B	ENSG00000182185	ENST00000555907	processed_transcript	KNOWN	None	9822	None	None	68324609	68353929	1	RAD51L1	REC2, hREC2, R51H2
14	RAD51B	ENSG00000182185	ENST00000553595	processed_transcript	KNOWN	None	9822	None	None	68331749	69149835	1	RAD51L1	REC2, hREC2, R51H2
14	RAD51B	ENSG00000182185	ENST00000474051	retained_intron	KNOWN	None	9822	None	None	68352450	68354267	1	RAD51L1	REC2, hREC2, R51H2
14	RAD51B	ENSG00000182185	ENST00000497460	processed_transcript	KNOWN	None	9822	None	None	68353315	69006966	1	RAD51L1	REC2, hREC2, R51H2
14	RAD51B	ENSG00000182185	ENST00000492236	processed_transcript	KNOWN	None	9822	None	None	68353473	68878174	1	RAD51L1	REC2, hREC2, R51H2
14	RAD51B	ENSG00000182185	ENST00000554244	processed_transcript	KNOWN	None	9822	None	None	68353784	69149835	1	RAD51L1	REC2, hREC2, R51H2
14	RAD51B	ENSG00000182185	ENST00000478014	processed_transcript	KNOWN	None	9822	None	None	68353819	69149888	1	RAD51L1	REC2, hREC2, R51H2
14	RAD51B	ENSG00000182185	ENST00000460526	processed_transcript	KNOWN	None	9822	None	None	68353847	68964279	1	RAD51L1	REC2, hREC2, R51H2
14	RAD51B	ENSG00000182185	ENST00000469165	processed_transcript	KNOWN	None	9822	None	None	68353847	68964598	1	RAD51L1	REC2, hREC2, R51H2
14	RAD51B	ENSG00000182185	ENST00000468382	processed_transcript	KNOWN	None	9822	None	None	68375022	68934967	1	RAD51L1	REC2, hREC2, R51H2
14	RAD51B	ENSG00000182185	ENST00000557045	processed_transcript	KNOWN	None	9822	None	None	68466996	68963974	1	RAD51L1	REC2, hREC2, R51H2
14	RAD51B	ENSG00000182185	ENST00000554183	processed_transcript	KNOWN	None	9822	None	None	68853854	68964168	1	RAD51L1	REC2, hREC2, R51H2
14	RAD51B	ENSG00000182185	ENST00000554575	protein_coding	PUTATIVE	None	9822	108	35	68878227	68937434	1	RAD51L1	REC2, hREC2, R51H2
14	RAD51B	ENSG00000182185	ENST00000555782	processed_transcript	PUTATIVE	None	9822	None	None	68938750	68944818	1	RAD51L1	REC2, hREC2, R51H2
14	RAD51B	ENSG00000182185	ENST00000556251	processed_transcript	PUTATIVE	None	9822	None	None	69012279	69061705	1	RAD51L1	REC2, hREC2, R51H2
14	RAD51B	ENSG00000182185	ENST00000390683	protein_coding	KNOWN	None	9822	1101	366	68290261	69117562	1	RAD51L1	REC2, hREC2, R51H2
16	SOCS1	ENSG00000185338	ENST00000332029	protein_coding	KNOWN	CCDS10546	19383	636	211	11348262	11350036	-1	None	SOCS-1, SSI-1, JAB, TIP3, Cish1
16	TNP2	ENSG00000178279	ENST00000560751	retained_intron	KNOWN	None	11952	None	None	11361605	11363390	-1	None	TP2
16	TNP2	ENSG00000178279	ENST00000312693	protein_coding	KNOWN	CCDS45410	11952	417	138	11361714	11363189	-1	None	TP2
16	PRM3	ENSG00000178257	ENST00000327157	protein_coding	KNOWN	None	13732	309	102	11367144	11367452	-1	None	None
16	PRM2	ENSG00000122304	ENST00000241808	protein_coding	KNOWN	CCDS42118	9448	309	102	11369496	11370337	-1	None	CT94.2
16	PRM2	ENSG00000122304	ENST00000435245	protein_coding	NOVEL	None	9448	423	140	11369497	11370337	-1	None	CT94.2
19	MRPL54	ENSG00000183617	ENST00000330133	protein_coding	KNOWN	CCDS12111	16685	417	138	3762662	3767563	1	None	None
19	MRPL54	ENSG00000183617	ENST00000589174	protein_coding	PUTATIVE	None	16685	230	75	3762703	3768573	1	None	None
4	SMAD1	ENSG00000170365	ENST00000514778	protein_coding	KNOWN	None	6767	319	105	146402346	146436084	1	MADH1	MADR1, JV4-1
4	SMAD1	ENSG00000170365	ENST00000507594	protein_coding	KNOWN	None	6767	287	94	146402458	146436052	1	MADH1	MADR1, JV4-1
4	SMAD1	ENSG00000170365	ENST00000514831	protein_coding	KNOWN	None	6767	338	111	146402850	146436103	1	MADH1	MADR1, JV4-1
4	SMAD1	ENSG00000170365	ENST00000302085	protein_coding	KNOWN	CCDS3765	6767	1398	465	146402944	146479231	1	MADH1	MADR1, JV4-1
4	SMAD1	ENSG00000170365	ENST00000512019	protein_coding	KNOWN	None	6767	400	132	146403023	146436165	1	MADH1	MADR1, JV4-1
4	SMAD1	ENSG00000170365	ENST00000503324	protein_coding	KNOWN	None	6767	175	57	146403638	146435940	1	MADH1	MADR1, JV4-1
4	SMAD1	ENSG00000170365	ENST00000515527	processed_transcript	KNOWN	None	6767	None	None	146403650	146435898	1	MADH1	MADR1, JV4-1
4	SMAD1	ENSG00000170365	ENST00000507367	protein_coding	KNOWN	None	6767	30	9	146403944	146435795	1	MADH1	MADR1, JV4-1
4	SMAD1	ENSG00000170365	ENST00000394092	protein_coding	KNOWN	CCDS3765	6767	1398	465	146403957	146479106	1	MADH1	MADR1, JV4-1
4	SMAD1	ENSG00000170365	ENST00000515385	protein_coding	KNOWN	CCDS3765	6767	1398	465	146403963	146479231	1	MADH1	MADR1, JV4-1
4	SMAD1	ENSG00000170365	ENST00000514168	processed_transcript	KNOWN	None	6767	None	None	146403965	146435645	1	MADH1	MADR1, JV4-1
4	SMAD1	ENSG00000170365	ENST00000506626	processed_transcript	KNOWN	None	6767	None	None	146405665	146435855	1	MADH1	MADR1, JV4-1
4	SMAD1	ENSG00000170365	ENST00000502342	processed_transcript	PUTATIVE	None	6767	None	None	146446872	146461121	1	MADH1	MADR1, JV4-1
4	SMAD1	ENSG00000170365	ENST00000511125	retained_intron	KNOWN	None	6767	None	None	146465330	146479231	1	MADH1	MADR1, JV4-1
4	SMAD1	ENSG00000170365	ENST00000510948	processed_transcript	KNOWN	None	6767	None	None	146467229	146475187	1	MADH1	MADR1, JV4-1
4	SMAD1	ENSG00000170365	ENST00000511255	retained_intron	KNOWN	None	6767	None	None	146467672	146475069	1	MADH1	MADR1, JV4-1
9	CCDC171	ENSG00000164989	ENST00000380701	protein_coding	KNOWN	CCDS6481	29828	3981	1326	15553084	15974037	1	C9orf93	FLJ39267, FLJ46740, Em:AL513423.1, bA778P13.1, bA536D16.1
9	CCDC171	ENSG00000164989	ENST00000474193	processed_transcript	KNOWN	None	29828	None	None	15553289	15564022	1	C9orf93	FLJ39267, FLJ46740, Em:AL513423.1, bA778P13.1, bA536D16.1
9	CCDC171	ENSG00000164989	ENST00000449575	protein_coding	PUTATIVE	None	29828	1409	468	15744503	15886803	1	C9orf93	FLJ39267, FLJ46740, Em:AL513423.1, bA778P13.1, bA536D16.1
9	CCDC171	ENSG00000164989	ENST00000432954	protein_coding	KNOWN	None	29828	773	256	15777766	15876081	1	C9orf93	FLJ39267, FLJ46740, Em:AL513423.1, bA778P13.1, bA536D16.1
9	CCDC171	ENSG00000164989	ENST00000470191	processed_transcript	KNOWN	None	29828	None	None	15845637	15971895	1	C9orf93	FLJ39267, FLJ46740, Em:AL513423.1, bA778P13.1, bA536D16.1
9	CCDC171	ENSG00000164989	ENST00000498725	processed_transcript	KNOWN	None	29828	None	None	15850224	15971733	1	C9orf93	FLJ39267, FLJ46740, Em:AL513423.1, bA778P13.1, bA536D16.1
9	CCDC171	ENSG00000164989	ENST00000486641	processed_transcript	KNOWN	None	29828	None	None	15874539	16061661	1	C9orf93	FLJ39267, FLJ46740, Em:AL513423.1, bA778P13.1, bA536D16.1
9	CCDC171	ENSG00000164989	ENST00000472806	processed_transcript	KNOWN	None	29828	None	None	15887793	15920332	1	C9orf93	FLJ39267, FLJ46740, Em:AL513423.1, bA778P13.1, bA536D16.1
9	CCDC171	ENSG00000164989	ENST00000478913	processed_transcript	KNOWN	None	29828	None	None	16042796	16061318	1	C9orf93	FLJ39267, FLJ46740, Em:AL513423.1, bA778P13.1, bA536D16.1
9	CCDC171	ENSG00000164989	ENST00000297641	protein_coding	KNOWN	None	29828	3690	1229	15553005	15883161	1	C9orf93	FLJ39267, FLJ46740, Em:AL513423.1, bA778P13.1, bA536D16.1
9	CCDC171	ENSG00000164989	ENST00000535968	protein_coding	KNOWN	None	29828	954	317	15552895	15660144	1	C9orf93	FLJ39267, FLJ46740, Em:AL513423.1, bA778P13.1, bA536D16.1
16	PRM1	ENSG00000175646	ENST00000312511	protein_coding	KNOWN	CCDS10547	9447	156	51	11374693	11375207	-1	None	CT94.1
15	CALML4	ENSG00000129007	ENST00000478113	nonsense_mediated_decay	KNOWN	None	18445	90	29	68483043	68497636	-1	None	MGC4809, NY-BR-20
15	CALML4	ENSG00000129007	ENST00000395465	protein_coding	NOVEL	None	18445	180	59	68483131	68498417	-1	None	MGC4809, NY-BR-20
15	CALML4	ENSG00000129007	ENST00000448060	protein_coding	KNOWN	CCDS42052	18445	450	149	68484395	68497826	-1	None	MGC4809, NY-BR-20
15	CALML4	ENSG00000129007	ENST00000395463	nonsense_mediated_decay	KNOWN	None	18445	183	60	68486141	68498387	-1	None	MGC4809, NY-BR-20
15	CALML4	ENSG00000129007	ENST00000467188	retained_intron	KNOWN	None	18445	None	None	68486142	68490088	-1	None	MGC4809, NY-BR-20
15	CALML4	ENSG00000129007	ENST00000467889	protein_coding	KNOWN	CCDS10226	18445	591	196	68486142	68497899	-1	None	MGC4809, NY-BR-20
15	CALML4	ENSG00000129007	ENST00000354678	protein_coding	PUTATIVE	None	18445	265	87	68489778	68492300	-1	None	MGC4809, NY-BR-20
15	CALML4	ENSG00000129007	ENST00000540479	protein_coding	KNOWN	None	18445	363	120	68486141	68498387	-1	None	MGC4809, NY-BR-20
6	BTN2A2	ENSG00000124508	ENST00000469230	protein_coding	KNOWN	CCDS56401	1137	1011	336	26383324	26395102	1	None	BTF2, BT2.2
6	BTN2A2	ENSG00000124508	ENST00000490025	protein_coding	PUTATIVE	None	1137	712	236	26383329	26392950	1	None	BTF2, BT2.2
6	BTN2A2	ENSG00000124508	ENST00000356709	protein_coding	KNOWN	CCDS4606	1137	1572	523	26383329	26395102	1	None	BTF2, BT2.2
6	BTN2A2	ENSG00000124508	ENST00000467485	retained_intron	KNOWN	None	1137	None	None	26383330	26391136	1	None	BTF2, BT2.2
6	BTN2A2	ENSG00000124508	ENST00000352867	protein_coding	KNOWN	CCDS4607	1137	1224	407	26383330	26395102	1	None	BTF2, BT2.2
6	BTN2A2	ENSG00000124508	ENST00000493275	protein_coding	KNOWN	None	1137	719	238	26383341	26388517	1	None	BTF2, BT2.2
6	BTN2A2	ENSG00000124508	ENST00000472507	protein_coding	KNOWN	None	1137	331	109	26383354	26388477	1	None	BTF2, BT2.2
6	BTN2A2	ENSG00000124508	ENST00000482536	protein_coding	NOVEL	CCDS56403	1137	942	313	26383354	26393235	1	None	BTF2, BT2.2
6	BTN2A2	ENSG00000124508	ENST00000432533	protein_coding	PUTATIVE	CCDS56402	1137	771	256	26383354	26393236	1	None	BTF2, BT2.2
6	BTN2A2	ENSG00000124508	ENST00000482842	protein_coding	PUTATIVE	None	1137	242	79	26383356	26390365	1	None	BTF2, BT2.2
6	BTN2A2	ENSG00000124508	ENST00000482636	retained_intron	KNOWN	None	1137	None	None	26383371	26385787	1	None	BTF2, BT2.2
6	BTN2A2	ENSG00000124508	ENST00000471116	nonsense_mediated_decay	KNOWN	None	1137	120	39	26383419	26388387	1	None	BTF2, BT2.2
6	BTN2A2	ENSG00000124508	ENST00000416795	protein_coding	KNOWN	CCDS4606	1137	1572	523	26383436	26394220	1	None	BTF2, BT2.2
6	BTN2A2	ENSG00000124508	ENST00000494184	protein_coding	KNOWN	None	1137	289	95	26383446	26385437	1	None	BTF2, BT2.2
6	BTN2A2	ENSG00000124508	ENST00000483410	protein_coding	KNOWN	None	1137	553	183	26383661	26390409	1	None	BTF2, BT2.2
6	BTN2A2	ENSG00000124508	ENST00000495632	protein_coding	PUTATIVE	None	1137	171	56	26390331	26394197	1	None	BTF2, BT2.2
8	ZBTB10	ENSG00000205189	ENST00000379091	protein_coding	KNOWN	None	30953	1740	579	81397854	81432039	1	None	RINZF, FLJ12752
8	ZBTB10	ENSG00000205189	ENST00000430430	protein_coding	KNOWN	CCDS47880	30953	2616	871	81397902	81438500	1	None	RINZF, FLJ12752
8	ZBTB10	ENSG00000205189	ENST00000455036	protein_coding	KNOWN	CCDS47880	30953	2616	871	81398448	81434007	1	None	RINZF, FLJ12752
8	ZBTB10	ENSG00000205189	ENST00000426744	protein_coding	KNOWN	None	30953	2544	847	81398448	81434610	1	None	RINZF, FLJ12752
19	RAX2	ENSG00000173976	ENST00000555978	protein_coding	KNOWN	CCDS12112	18286	555	184	3769087	3772209	-1	RAXL1	MGC15631, ARMD6, CORD11
19	RAX2	ENSG00000173976	ENST00000555633	protein_coding	PUTATIVE	CCDS12112	18286	555	184	3769087	3772233	-1	RAXL1	MGC15631, ARMD6, CORD11
15	None	ENSG00000260007	ENST00000562767	protein_coding	PUTATIVE	None	None	279	92	68486139	68522056	-1	None	None
10	None	ENSG00000204038	ENST00000356374	protein_coding	KNOWN	None	None	843	280	82009466	82013395	1	None	None
15	CLN6	ENSG00000128973	ENST00000249806	protein_coding	KNOWN	CCDS10227	2077	936	311	68499330	68522080	-1	None	FLJ20561, HsT18960, nclf
15	CLN6	ENSG00000128973	ENST00000565471	protein_coding	PUTATIVE	None	2077	477	158	68499968	68522009	-1	None	FLJ20561, HsT18960, nclf
15	CLN6	ENSG00000128973	ENST00000567060	nonsense_mediated_decay	KNOWN	None	2077	318	105	68500271	68522008	-1	None	FLJ20561, HsT18960, nclf
15	CLN6	ENSG00000128973	ENST00000566347	protein_coding	PUTATIVE	None	2077	747	248	68500378	68522056	-1	None	FLJ20561, HsT18960, nclf
15	CLN6	ENSG00000128973	ENST00000538696	protein_coding	NOVEL	None	2077	1032	343	68500405	68549444	-1	None	FLJ20561, HsT18960, nclf
15	CLN6	ENSG00000128973	ENST00000564752	protein_coding	PUTATIVE	None	2077	642	213	68500665	68522047	-1	None	FLJ20561, HsT18960, nclf
15	CLN6	ENSG00000128973	ENST00000563917	retained_intron	KNOWN	None	2077	None	None	68501964	68506705	-1	None	FLJ20561, HsT18960, nclf
15	CLN6	ENSG00000128973	ENST00000564846	retained_intron	KNOWN	None	2077	None	None	68505595	68549549	-1	None	FLJ20561, HsT18960, nclf
15	CLN6	ENSG00000128973	ENST00000569336	processed_transcript	KNOWN	None	2077	None	None	68509751	68522008	-1	None	FLJ20561, HsT18960, nclf
15	CLN6	ENSG00000128973	ENST00000418702	protein_coding	KNOWN	None	2077	549	182	68500271	68522008	-1	None	FLJ20561, HsT18960, nclf
16	None	ENSG00000188897	ENST00000595168	protein_coding	PUTATIVE	None	None	141	46	11453702	11477562	-1	None	None
16	None	ENSG00000188897	ENST00000599216	protein_coding	PUTATIVE	None	None	1366	454	11465872	11485922	-1	None	None
16	None	ENSG00000188897	ENST00000595360	protein_coding	NOVEL	None	None	2202	733	11465872	11492366	-1	None	None
16	None	ENSG00000188897	ENST00000600548	retained_intron	KNOWN	None	None	None	None	11481047	11484311	-1	None	None
16	None	ENSG00000188897	ENST00000598232	retained_intron	KNOWN	None	None	None	None	11490261	11496120	-1	None	None
16	None	ENSG00000188897	ENST00000598234	protein_coding	NOVEL	None	None	7474	2490	11493348	11617444	-1	None	None
16	None	ENSG00000188897	ENST00000596416	retained_intron	KNOWN	None	None	None	None	11495987	11508411	-1	None	None
16	None	ENSG00000188897	ENST00000595170	nonsense_mediated_decay	KNOWN	None	None	240	79	11536047	11585611	-1	None	None
16	None	ENSG00000188897	ENST00000600877	retained_intron	KNOWN	None	None	None	None	11544557	11550995	-1	None	None
16	None	ENSG00000188897	ENST00000344649	protein_coding	KNOWN	None	None	1653	550	11536047	11585611	-1	None	None
X	DOCK11	ENSG00000147251	ENST00000276204	protein_coding	NOVEL	None	23483	6234	2077	117629861	117820126	1	None	FLJ32122, FLJ43653, ZIZ2
X	DOCK11	ENSG00000147251	ENST00000276202	protein_coding	KNOWN	CCDS35373	23483	6222	2073	117629872	117820110	1	None	FLJ32122, FLJ43653, ZIZ2
X	DOCK11	ENSG00000147251	ENST00000498252	processed_transcript	KNOWN	None	23483	None	None	117712531	117722273	1	None	FLJ32122, FLJ43653, ZIZ2
10	MAT1A	ENSG00000151224	ENST00000485270	processed_transcript	KNOWN	None	6903	None	None	82031576	82035235	-1	None	MAT, SAMS, MATA1, SAMS1
10	MAT1A	ENSG00000151224	ENST00000372213	protein_coding	KNOWN	CCDS7365	6903	1188	395	82031576	82049440	-1	None	MAT, SAMS, MATA1, SAMS1
10	MAT1A	ENSG00000151224	ENST00000480845	processed_transcript	KNOWN	None	6903	None	None	82031814	82034955	-1	None	MAT, SAMS, MATA1, SAMS1
10	MAT1A	ENSG00000151224	ENST00000455001	protein_coding	KNOWN	None	6903	435	144	82036276	82049113	-1	None	MAT, SAMS, MATA1, SAMS1
19	MATK	ENSG00000007264	ENST00000395040	protein_coding	KNOWN	CCDS42468	6906	1401	466	3777971	3786411	-1	None	HYLTK, CTK, HYL, Lsk, CHK, HHYLTK, DKFZp434N1212, MGC1708, MGC2101
19	MATK	ENSG00000007264	ENST00000310132	protein_coding	KNOWN	CCDS12114	6906	1524	507	3777971	3786414	-1	None	HYLTK, CTK, HYL, Lsk, CHK, HHYLTK, DKFZp434N1212, MGC1708, MGC2101
19	MATK	ENSG00000007264	ENST00000585778	protein_coding	NOVEL	None	6906	1521	506	3777973	3786280	-1	None	HYLTK, CTK, HYL, Lsk, CHK, HHYLTK, DKFZp434N1212, MGC1708, MGC2101
19	MATK	ENSG00000007264	ENST00000395045	protein_coding	KNOWN	CCDS12113	6906	1527	508	3777973	3801810	-1	None	HYLTK, CTK, HYL, Lsk, CHK, HHYLTK, DKFZp434N1212, MGC1708, MGC2101
19	MATK	ENSG00000007264	ENST00000590493	protein_coding	PUTATIVE	None	6906	801	266	3779131	3784150	-1	None	HYLTK, CTK, HYL, Lsk, CHK, HHYLTK, DKFZp434N1212, MGC1708, MGC2101
19	MATK	ENSG00000007264	ENST00000588983	protein_coding	PUTATIVE	None	6906	711	236	3779387	3783916	-1	None	HYLTK, CTK, HYL, Lsk, CHK, HHYLTK, DKFZp434N1212, MGC1708, MGC2101
19	MATK	ENSG00000007264	ENST00000587180	protein_coding	PUTATIVE	None	6906	394	130	3779787	3784571	-1	None	HYLTK, CTK, HYL, Lsk, CHK, HHYLTK, DKFZp434N1212, MGC1708, MGC2101
19	MATK	ENSG00000007264	ENST00000590028	protein_coding	KNOWN	None	6906	524	173	3783870	3786071	-1	None	HYLTK, CTK, HYL, Lsk, CHK, HHYLTK, DKFZp434N1212, MGC1708, MGC2101
19	MATK	ENSG00000007264	ENST00000590849	protein_coding	KNOWN	None	6906	252	83	3784019	3801797	-1	None	HYLTK, CTK, HYL, Lsk, CHK, HHYLTK, DKFZp434N1212, MGC1708, MGC2101
19	MATK	ENSG00000007264	ENST00000591059	protein_coding	KNOWN	None	6906	39	12	3785095	3786014	-1	None	HYLTK, CTK, HYL, Lsk, CHK, HHYLTK, DKFZp434N1212, MGC1708, MGC2101
19	MATK	ENSG00000007264	ENST00000590980	protein_coding	NOVEL	None	6906	115	37	3785245	3802127	-1	None	HYLTK, CTK, HYL, Lsk, CHK, HHYLTK, DKFZp434N1212, MGC1708, MGC2101
19	MATK	ENSG00000007264	ENST00000590821	processed_transcript	KNOWN	None	6906	None	None	3787458	3801800	-1	None	HYLTK, CTK, HYL, Lsk, CHK, HHYLTK, DKFZp434N1212, MGC1708, MGC2101
19	MATK	ENSG00000007264	ENST00000592612	processed_transcript	KNOWN	None	6906	None	None	3793072	3801779	-1	None	HYLTK, CTK, HYL, Lsk, CHK, HHYLTK, DKFZp434N1212, MGC1708, MGC2101
19	MATK	ENSG00000007264	ENST00000592300	processed_transcript	KNOWN	None	6906	None	None	3793128	3801801	-1	None	HYLTK, CTK, HYL, Lsk, CHK, HHYLTK, DKFZp434N1212, MGC1708, MGC2101
10	DYDC1	ENSG00000170788	ENST00000372204	protein_coding	KNOWN	CCDS7366	23460	534	177	82095861	82116500	-1	None	bA36D19.5, DPY30D1
10	DYDC1	ENSG00000170788	ENST00000372202	protein_coding	KNOWN	CCDS7366	23460	534	177	82095885	82116509	-1	None	bA36D19.5, DPY30D1
10	DYDC1	ENSG00000170788	ENST00000454362	protein_coding	KNOWN	None	23460	458	151	82098269	82116470	-1	None	bA36D19.5, DPY30D1
10	DYDC1	ENSG00000170788	ENST00000453477	protein_coding	KNOWN	None	23460	240	79	82111666	82116511	-1	None	bA36D19.5, DPY30D1
10	DYDC1	ENSG00000170788	ENST00000421924	protein_coding	KNOWN	None	23460	555	184	82097970	82116511	-1	None	bA36D19.5, DPY30D1
4	MMAA	ENSG00000151611	ENST00000281317	protein_coding	KNOWN	CCDS3766	18871	1257	418	146539415	146581187	1	None	cblA
4	MMAA	ENSG00000151611	ENST00000506919	retained_intron	KNOWN	None	18871	None	None	146540137	146567774	1	None	cblA
4	MMAA	ENSG00000151611	ENST00000511969	nonsense_mediated_decay	KNOWN	None	18871	783	260	146560245	146576720	1	None	cblA
4	MMAA	ENSG00000151611	ENST00000503730	retained_intron	KNOWN	None	18871	None	None	146572071	146576646	1	None	cblA
4	MMAA	ENSG00000151611	ENST00000541599	protein_coding	KNOWN	None	18871	414	137	146560245	146576720	1	None	cblA
16	LITAF	ENSG00000189067	ENST00000571688	protein_coding	KNOWN	CCDS32386	16841	486	161	11641853	11681419	-1	None	PIG7, SIMPLE, FLJ38636, TP53I7
16	LITAF	ENSG00000189067	ENST00000413364	protein_coding	KNOWN	CCDS45411	16841	459	152	11641855	11680806	-1	None	PIG7, SIMPLE, FLJ38636, TP53I7
16	LITAF	ENSG00000189067	ENST00000339430	protein_coding	KNOWN	CCDS32386	16841	486	161	11641856	11680229	-1	None	PIG7, SIMPLE, FLJ38636, TP53I7
16	LITAF	ENSG00000189067	ENST00000570904	protein_coding	KNOWN	CCDS32386	16841	486	161	11642963	11681103	-1	None	PIG7, SIMPLE, FLJ38636, TP53I7
16	LITAF	ENSG00000189067	ENST00000571459	protein_coding	PUTATIVE	None	16841	228	75	11643168	11680759	-1	None	PIG7, SIMPLE, FLJ38636, TP53I7
16	LITAF	ENSG00000189067	ENST00000575426	nonsense_mediated_decay	KNOWN	None	16841	32	9	11643216	11650300	-1	None	PIG7, SIMPLE, FLJ38636, TP53I7
16	LITAF	ENSG00000189067	ENST00000573332	nonsense_mediated_decay	KNOWN	None	16841	246	81	11643304	11680775	-1	None	PIG7, SIMPLE, FLJ38636, TP53I7
16	LITAF	ENSG00000189067	ENST00000572255	protein_coding	PUTATIVE	None	16841	207	68	11643458	11680775	-1	None	PIG7, SIMPLE, FLJ38636, TP53I7
16	LITAF	ENSG00000189067	ENST00000576036	protein_coding	KNOWN	CCDS32386	16841	486	161	11643469	11723066	-1	None	PIG7, SIMPLE, FLJ38636, TP53I7
16	LITAF	ENSG00000189067	ENST00000574763	protein_coding	KNOWN	CCDS32386	16841	486	161	11643482	11680775	-1	None	PIG7, SIMPLE, FLJ38636, TP53I7
16	LITAF	ENSG00000189067	ENST00000571627	protein_coding	KNOWN	None	16841	461	152	11643518	11692356	-1	None	PIG7, SIMPLE, FLJ38636, TP53I7
16	LITAF	ENSG00000189067	ENST00000570798	protein_coding	KNOWN	None	16841	412	136	11643567	11680774	-1	None	PIG7, SIMPLE, FLJ38636, TP53I7
16	LITAF	ENSG00000189067	ENST00000574701	protein_coding	KNOWN	None	16841	409	135	11645629	11681145	-1	None	PIG7, SIMPLE, FLJ38636, TP53I7
16	LITAF	ENSG00000189067	ENST00000571976	protein_coding	PUTATIVE	None	16841	381	126	11647279	11680797	-1	None	PIG7, SIMPLE, FLJ38636, TP53I7
16	LITAF	ENSG00000189067	ENST00000574703	protein_coding	PUTATIVE	None	16841	318	105	11650140	11680775	-1	None	PIG7, SIMPLE, FLJ38636, TP53I7
16	LITAF	ENSG00000189067	ENST00000574848	protein_coding	PUTATIVE	None	16841	264	87	11650413	11730237	-1	None	PIG7, SIMPLE, FLJ38636, TP53I7
16	LITAF	ENSG00000189067	ENST00000571277	protein_coding	KNOWN	None	16841	119	38	11650468	11680775	-1	None	PIG7, SIMPLE, FLJ38636, TP53I7
16	LITAF	ENSG00000189067	ENST00000576334	protein_coding	PUTATIVE	None	16841	99	32	11650578	11730233	-1	None	PIG7, SIMPLE, FLJ38636, TP53I7
16	LITAF	ENSG00000189067	ENST00000381810	protein_coding	KNOWN	None	16841	687	228	11642459	11680788	-1	None	PIG7, SIMPLE, FLJ38636, TP53I7
10	DYDC2	ENSG00000133665	ENST00000372199	protein_coding	KNOWN	CCDS7367	23468	534	177	82104501	82127829	1	None	bA36D19.6, MGC16186
10	DYDC2	ENSG00000133665	ENST00000372198	protein_coding	KNOWN	CCDS58088	23468	576	191	82104501	82127829	1	None	bA36D19.6, MGC16186
10	DYDC2	ENSG00000133665	ENST00000372197	protein_coding	KNOWN	CCDS7367	23468	534	177	82104515	82127829	1	None	bA36D19.6, MGC16186
10	DYDC2	ENSG00000133665	ENST00000411538	protein_coding	KNOWN	None	23468	377	124	82116529	82126550	1	None	bA36D19.6, MGC16186
10	DYDC2	ENSG00000133665	ENST00000256039	protein_coding	KNOWN	CCDS7367	23468	534	177	82116558	82127829	1	None	bA36D19.6, MGC16186
10	DYDC2	ENSG00000133665	ENST00000444807	protein_coding	KNOWN	CCDS7367	23468	534	177	82116053	82127037	1	None	bA36D19.6, MGC16186
4	C4orf51	ENSG00000237136	ENST00000511965	protein_coding	KNOWN	None	37264	488	161	146601477	146653946	1	None	None
4	C4orf51	ENSG00000237136	ENST00000508981	processed_transcript	KNOWN	None	37264	None	None	146653605	146675503	1	None	None
4	C4orf51	ENSG00000237136	ENST00000510096	processed_transcript	KNOWN	None	37264	None	None	146653606	146692184	1	None	None
4	C4orf51	ENSG00000237136	ENST00000438731	protein_coding	KNOWN	CCDS47140	37264	609	202	146601356	146653949	1	None	None
4	ZNF827	ENSG00000151612	ENST00000508784	protein_coding	KNOWN	None	27193	3246	1081	146678779	146859787	-1	None	None
4	ZNF827	ENSG00000151612	ENST00000513320	protein_coding	KNOWN	None	27193	2196	731	146681881	146859641	-1	None	None
4	ZNF827	ENSG00000151612	ENST00000379448	protein_coding	PUTATIVE	CCDS34072	27193	3234	1077	146681890	146859623	-1	None	None
4	ZNF827	ENSG00000151612	ENST00000503462	protein_coding	PUTATIVE	None	27193	538	178	146682281	146686207	-1	None	None
4	ZNF827	ENSG00000151612	ENST00000511659	protein_coding	PUTATIVE	None	27193	536	177	146682434	146695819	-1	None	None
4	ZNF827	ENSG00000151612	ENST00000515386	retained_intron	KNOWN	None	27193	None	None	146685841	146695714	-1	None	None
4	ZNF827	ENSG00000151612	ENST00000509940	processed_transcript	KNOWN	None	27193	None	None	146740990	146767144	-1	None	None
4	ZNF827	ENSG00000151612	ENST00000511534	processed_transcript	KNOWN	None	27193	None	None	146770503	146791919	-1	None	None
4	ZNF827	ENSG00000151612	ENST00000508995	processed_transcript	KNOWN	None	27193	None	None	146791453	146813567	-1	None	None
4	ZNF827	ENSG00000151612	ENST00000513840	processed_transcript	KNOWN	None	27193	None	None	146797648	146806900	-1	None	None
10	FAM213A	ENSG00000122378	ENST00000372188	protein_coding	KNOWN	CCDS7368	28651	690	229	82167585	82191864	1	C10orf58	MGC4248, PAMM
10	FAM213A	ENSG00000122378	ENST00000372187	protein_coding	KNOWN	CCDS7368	28651	690	229	82168249	82192753	1	C10orf58	MGC4248, PAMM
10	FAM213A	ENSG00000122378	ENST00000372185	protein_coding	KNOWN	CCDS58089	28651	657	218	82168250	82192753	1	C10orf58	MGC4248, PAMM
10	FAM213A	ENSG00000122378	ENST00000372181	protein_coding	KNOWN	CCDS7368	28651	690	229	82179754	82192753	1	C10orf58	MGC4248, PAMM
5	None	ENSG00000268942	ENST00000600888	protein_coding	KNOWN	None	None	240	79	61808070	61808309	-1	None	None
5	LRRC70	ENSG00000186105	ENST00000334994	protein_coding	KNOWN	CCDS47218	35155	1869	622	61874562	61877275	1	None	SLRN, LOC100130733
5	LRRC70	ENSG00000186105	ENST00000448151	processed_transcript	KNOWN	None	35155	None	None	61874664	61877269	1	None	SLRN, LOC100130733
5	LRRC70	ENSG00000186105	ENST00000491184	protein_coding	PUTATIVE	None	35155	216	71	61874702	61876690	1	None	SLRN, LOC100130733
6	BTN3A1	ENSG00000026950	ENST00000476549	protein_coding	KNOWN	CCDS4609	1138	1059	352	26402465	26413474	1	None	BT3.1, BTF5, CD277
6	BTN3A1	ENSG00000026950	ENST00000289361	protein_coding	KNOWN	CCDS4608	1138	1542	513	26402465	26415444	1	None	BT3.1, BTF5, CD277
6	BTN3A1	ENSG00000026950	ENST00000465690	retained_intron	KNOWN	None	1138	None	None	26402478	26404783	1	None	BT3.1, BTF5, CD277
6	BTN3A1	ENSG00000026950	ENST00000450085	protein_coding	KNOWN	None	1138	357	118	26402478	26406408	1	None	BT3.1, BTF5, CD277
6	BTN3A1	ENSG00000026950	ENST00000425234	protein_coding	KNOWN	CCDS47389	1138	1137	378	26402478	26413148	1	None	BT3.1, BTF5, CD277
6	BTN3A1	ENSG00000026950	ENST00000427334	protein_coding	KNOWN	None	1138	130	42	26402486	26406181	1	None	BT3.1, BTF5, CD277
6	BTN3A1	ENSG00000026950	ENST00000506698	protein_coding	KNOWN	None	1138	275	90	26402503	26406326	1	None	BT3.1, BTF5, CD277
6	BTN3A1	ENSG00000026950	ENST00000414912	protein_coding	KNOWN	CCDS47388	1138	1386	461	26402523	26414301	1	None	BT3.1, BTF5, CD277
6	BTN3A1	ENSG00000026950	ENST00000082468	retained_intron	KNOWN	None	1138	None	None	26402536	26415432	1	None	BT3.1, BTF5, CD277
6	BTN3A1	ENSG00000026950	ENST00000513047	retained_intron	KNOWN	None	1138	None	None	26409773	26413445	1	None	BT3.1, BTF5, CD277
6	BTN3A1	ENSG00000026950	ENST00000502361	retained_intron	KNOWN	None	1138	None	None	26409811	26413230	1	None	BT3.1, BTF5, CD277
5	HTR1A	ENSG00000178394	ENST00000506598	protein_coding	KNOWN	None	5286	125	40	63257422	63258334	-1	ADRB2RL1, ADRBRL1	5-HT1A
5	HTR1A	ENSG00000178394	ENST00000323865	protein_coding	KNOWN	CCDS34168	5286	1269	422	63256183	63257780	-1	ADRB2RL1, ADRBRL1	5-HT1A
19	ZFR2	ENSG00000105278	ENST00000262961	protein_coding	KNOWN	CCDS45921	29189	2820	939	3804022	3869026	-1	KIAA1086	None
19	ZFR2	ENSG00000105278	ENST00000438164	nonsense_mediated_decay	KNOWN	None	29189	1101	366	3821425	3869026	-1	KIAA1086	None
19	ZFR2	ENSG00000105278	ENST00000591965	processed_transcript	KNOWN	None	29189	None	None	3831499	3869027	-1	KIAA1086	None
19	ZFR2	ENSG00000105278	ENST00000592807	retained_intron	KNOWN	None	29189	None	None	3833539	3869027	-1	KIAA1086	None
19	ZFR2	ENSG00000105278	ENST00000587212	nonsense_mediated_decay	KNOWN	None	29189	135	44	3833718	3869027	-1	KIAA1086	None
19	ZFR2	ENSG00000105278	ENST00000586578	nonsense_mediated_decay	KNOWN	None	29189	133	43	3851803	3869013	-1	KIAA1086	None
19	ZFR2	ENSG00000105278	ENST00000439086	protein_coding	KNOWN	CCDS45922	29189	213	70	3851811	3869030	-1	KIAA1086	None
19	ZFR2	ENSG00000105278	ENST00000592398	protein_coding	PUTATIVE	None	29189	207	68	3852360	3869021	-1	KIAA1086	None
19	ZFR2	ENSG00000105278	ENST00000591712	protein_coding	PUTATIVE	None	29189	207	68	3852438	3855588	-1	KIAA1086	None
5	RNF180	ENSG00000164197	ENST00000296615	protein_coding	KNOWN	CCDS34169	27752	1251	416	63461671	63513613	1	None	None
5	RNF180	ENSG00000164197	ENST00000389100	protein_coding	KNOWN	CCDS47219	27752	1779	592	63461709	63668696	1	None	None
5	RNF180	ENSG00000164197	ENST00000504296	protein_coding	KNOWN	None	27752	321	106	63461989	63509474	1	None	None
5	RNF180	ENSG00000164197	ENST00000381081	protein_coding	KNOWN	None	27752	291	96	63461671	63513613	1	None	None
10	TSPAN14	ENSG00000108219	ENST00000429989	protein_coding	KNOWN	CCDS7369	23303	813	270	82213922	82282387	1	TM4SF14	DC-TM4F2, MGC11352
10	TSPAN14	ENSG00000108219	ENST00000481124	protein_coding	KNOWN	CCDS44448	23303	444	147	82214021	82277972	1	TM4SF14	DC-TM4F2, MGC11352
10	TSPAN14	ENSG00000108219	ENST00000372157	protein_coding	KNOWN	None	23303	669	222	82214078	82277678	1	TM4SF14	DC-TM4F2, MGC11352
10	TSPAN14	ENSG00000108219	ENST00000469149	processed_transcript	KNOWN	None	23303	None	None	82214085	82269676	1	TM4SF14	DC-TM4F2, MGC11352
10	TSPAN14	ENSG00000108219	ENST00000372164	protein_coding	KNOWN	None	23303	762	253	82214086	82282387	1	TM4SF14	DC-TM4F2, MGC11352
10	TSPAN14	ENSG00000108219	ENST00000372158	protein_coding	KNOWN	CCDS7369	23303	813	270	82214109	82277797	1	TM4SF14	DC-TM4F2, MGC11352
10	TSPAN14	ENSG00000108219	ENST00000341863	protein_coding	KNOWN	None	23303	642	213	82214111	82278093	1	TM4SF14	DC-TM4F2, MGC11352
10	TSPAN14	ENSG00000108219	ENST00000372156	protein_coding	KNOWN	CCDS7369	23303	813	270	82219058	82277797	1	TM4SF14	DC-TM4F2, MGC11352
10	TSPAN14	ENSG00000108219	ENST00000265450	processed_transcript	KNOWN	None	23303	None	None	82275223	82279391	1	TM4SF14	DC-TM4F2, MGC11352
16	SNN	ENSG00000184602	ENST00000329565	protein_coding	KNOWN	CCDS10549	11149	267	88	11762270	11773015	1	None	None
16	TXNDC11	ENSG00000153066	ENST00000283033	protein_coding	KNOWN	CCDS32387	28030	2877	958	11772936	11836734	-1	None	EFP1
16	TXNDC11	ENSG00000153066	ENST00000570917	processed_transcript	KNOWN	None	28030	None	None	11772939	11783953	-1	None	EFP1
16	TXNDC11	ENSG00000153066	ENST00000356957	protein_coding	KNOWN	None	28030	2958	985	11772939	11836694	-1	None	EFP1
16	TXNDC11	ENSG00000153066	ENST00000575349	retained_intron	KNOWN	None	28030	None	None	11778091	11782424	-1	None	EFP1
16	TXNDC11	ENSG00000153066	ENST00000572732	retained_intron	KNOWN	None	28030	None	None	11784590	11786098	-1	None	EFP1
16	TXNDC11	ENSG00000153066	ENST00000575591	protein_coding	NOVEL	None	28030	615	204	11785846	11829986	-1	None	EFP1
16	TXNDC11	ENSG00000153066	ENST00000576969	nonsense_mediated_decay	KNOWN	None	28030	444	147	11785870	11836403	-1	None	EFP1
16	TXNDC11	ENSG00000153066	ENST00000571882	nonsense_mediated_decay	KNOWN	None	28030	76	24	11785906	11827855	-1	None	EFP1
16	TXNDC11	ENSG00000153066	ENST00000573174	processed_transcript	KNOWN	None	28030	None	None	11791990	11836650	-1	None	EFP1
5	RGS7BP	ENSG00000186479	ENST00000508162	processed_transcript	KNOWN	None	23271	None	None	63802084	63871731	1	None	R7BP
5	RGS7BP	ENSG00000186479	ENST00000334025	protein_coding	KNOWN	CCDS34170	23271	774	257	63802126	63908139	1	None	R7BP
5	RGS7BP	ENSG00000186479	ENST00000505263	retained_intron	KNOWN	None	23271	None	None	63871509	63905019	1	None	R7BP
4	LSM6	ENSG00000164167	ENST00000296581	protein_coding	KNOWN	CCDS3767	17017	243	80	147096837	147111196	1	None	YDR378C
4	LSM6	ENSG00000164167	ENST00000515311	nonsense_mediated_decay	KNOWN	CCDS3767	17017	243	80	147096855	147121152	1	None	YDR378C
4	LSM6	ENSG00000164167	ENST00000503982	processed_transcript	KNOWN	None	17017	None	None	147096879	147104798	1	None	YDR378C
4	LSM6	ENSG00000164167	ENST00000502781	protein_coding	KNOWN	CCDS3767	17017	243	80	147096881	147111198	1	None	YDR378C
4	LSM6	ENSG00000164167	ENST00000504181	nonsense_mediated_decay	KNOWN	CCDS3767	17017	243	80	147096900	147111339	1	None	YDR378C
4	LSM6	ENSG00000164167	ENST00000510331	processed_transcript	KNOWN	None	17017	None	None	147096922	147097838	1	None	YDR378C
4	LSM6	ENSG00000164167	ENST00000507449	retained_intron	KNOWN	None	17017	None	None	147104075	147108703	1	None	YDR378C
5	FAM159B	ENSG00000145642	ENST00000389074	protein_coding	KNOWN	CCDS47220	34236	483	160	63986135	64013897	1	None	None
5	FAM159B	ENSG00000145642	ENST00000509189	nonsense_mediated_decay	KNOWN	None	34236	213	70	63986269	64013917	1	None	None
5	FAM159B	ENSG00000145642	ENST00000506473	nonsense_mediated_decay	KNOWN	None	34236	213	70	63986359	64013790	1	None	None
5	FAM159B	ENSG00000145642	ENST00000512767	processed_transcript	KNOWN	None	34236	None	None	63987068	64013826	1	None	None
5	FAM159B	ENSG00000145642	ENST00000513930	processed_transcript	KNOWN	None	34236	None	None	63987146	64013909	1	None	None
19	ATCAY	ENSG00000167654	ENST00000598136	protein_coding	KNOWN	None	779	298	98	3879862	3905593	1	None	None
19	ATCAY	ENSG00000167654	ENST00000450849	protein_coding	KNOWN	CCDS45923	779	1116	371	3880581	3928077	1	None	None
19	ATCAY	ENSG00000167654	ENST00000595916	processed_transcript	KNOWN	None	779	None	None	3880683	3893667	1	None	None
19	ATCAY	ENSG00000167654	ENST00000597739	nonsense_mediated_decay	KNOWN	None	779	225	74	3880683	3924995	1	None	None
19	ATCAY	ENSG00000167654	ENST00000600960	protein_coding	PUTATIVE	None	779	1134	377	3885766	3926314	1	None	None
19	ATCAY	ENSG00000167654	ENST00000601323	processed_transcript	KNOWN	None	779	None	None	3925281	3926314	1	None	None
19	ATCAY	ENSG00000167654	ENST00000301260	protein_coding	KNOWN	None	779	1134	377	3880618	3922184	1	None	None
19	ATCAY	ENSG00000167654	ENST00000398448	protein_coding	KNOWN	None	779	1134	377	3880683	3924995	1	None	None
9	MEGF9	ENSG00000106780	ENST00000373930	protein_coding	KNOWN	CCDS48010	3234	1809	602	123363091	123476748	-1	EGFL5	None
9	MEGF9	ENSG00000106780	ENST00000426959	protein_coding	KNOWN	None	3234	1920	639	123363091	123476612	-1	EGFL5	None
5	SREK1IP1	ENSG00000153006	ENST00000513458	protein_coding	KNOWN	CCDS34171	26716	468	155	64013971	64064512	-1	SFRS12IP1	FLJ36754, P18SRP
5	SREK1IP1	ENSG00000153006	ENST00000495198	retained_intron	KNOWN	None	26716	None	None	64023498	64064446	-1	SFRS12IP1	FLJ36754, P18SRP
5	SREK1IP1	ENSG00000153006	ENST00000510616	processed_transcript	KNOWN	None	26716	None	None	64036884	64064454	-1	SFRS12IP1	FLJ36754, P18SRP
5	SREK1IP1	ENSG00000153006	ENST00000506252	processed_transcript	KNOWN	None	26716	None	None	64036963	64064476	-1	SFRS12IP1	FLJ36754, P18SRP
4	None	ENSG00000250673	ENST00000504313	protein_coding	PUTATIVE	None	None	394	130	147145709	147150208	1	None	None
4	SLC10A7	ENSG00000120519	ENST00000432059	protein_coding	KNOWN	None	23088	984	327	147175127	147443116	-1	C4orf13	MGC25043, DKFZp566M114, DKFZp313H0531, DKFZp779O2438
4	SLC10A7	ENSG00000120519	ENST00000335472	protein_coding	KNOWN	CCDS34073	23088	1023	340	147176084	147443085	-1	C4orf13	MGC25043, DKFZp566M114, DKFZp313H0531, DKFZp779O2438
4	SLC10A7	ENSG00000120519	ENST00000507030	protein_coding	KNOWN	None	23088	1077	358	147177643	147442869	-1	C4orf13	MGC25043, DKFZp566M114, DKFZp313H0531, DKFZp779O2438
4	SLC10A7	ENSG00000120519	ENST00000507560	processed_transcript	KNOWN	None	23088	None	None	147247113	147443025	-1	C4orf13	MGC25043, DKFZp566M114, DKFZp313H0531, DKFZp779O2438
4	SLC10A7	ENSG00000120519	ENST00000394059	protein_coding	KNOWN	CCDS3768	23088	480	159	147362818	147443047	-1	C4orf13	MGC25043, DKFZp566M114, DKFZp313H0531, DKFZp779O2438
4	SLC10A7	ENSG00000120519	ENST00000511315	processed_transcript	KNOWN	None	23088	None	None	147363470	147442982	-1	C4orf13	MGC25043, DKFZp566M114, DKFZp313H0531, DKFZp779O2438
4	SLC10A7	ENSG00000120519	ENST00000511374	protein_coding	PUTATIVE	None	23088	258	85	147363477	147442982	-1	C4orf13	MGC25043, DKFZp566M114, DKFZp313H0531, DKFZp779O2438
4	SLC10A7	ENSG00000120519	ENST00000513583	processed_transcript	KNOWN	None	23088	None	None	147399031	147425055	-1	C4orf13	MGC25043, DKFZp566M114, DKFZp313H0531, DKFZp779O2438
4	SLC10A7	ENSG00000120519	ENST00000502607	protein_coding	KNOWN	None	23088	195	64	147435054	147443074	-1	C4orf13	MGC25043, DKFZp566M114, DKFZp313H0531, DKFZp779O2438
4	SLC10A7	ENSG00000120519	ENST00000394062	protein_coding	KNOWN	None	23088	1077	358	147178005	147443123	-1	C4orf13	MGC25043, DKFZp566M114, DKFZp313H0531, DKFZp779O2438
4	SLC10A7	ENSG00000120519	ENST00000264986	protein_coding	KNOWN	None	23088	258	85	147177179	147442991	-1	C4orf13	MGC25043, DKFZp566M114, DKFZp313H0531, DKFZp779O2438
6	BTN3A3	ENSG00000111801	ENST00000494393	protein_coding	KNOWN	None	1140	413	136	26440700	26444512	1	None	BTF3
6	BTN3A3	ENSG00000111801	ENST00000482451	protein_coding	NOVEL	None	1140	383	126	26440700	26445935	1	None	BTF3
6	BTN3A3	ENSG00000111801	ENST00000244519	protein_coding	KNOWN	CCDS4611	1140	1755	584	26440700	26453643	1	None	BTF3
6	BTN3A3	ENSG00000111801	ENST00000471353	protein_coding	NOVEL	None	1140	422	139	26440704	26446046	1	None	BTF3
6	BTN3A3	ENSG00000111801	ENST00000361232	protein_coding	NOVEL	CCDS4612	1140	1608	535	26440716	26453043	1	None	BTF3
6	BTN3A3	ENSG00000111801	ENST00000474790	retained_intron	KNOWN	None	1140	None	None	26440721	26444167	1	None	BTF3
6	BTN3A3	ENSG00000111801	ENST00000487627	protein_coding	NOVEL	None	1140	301	99	26440725	26444526	1	None	BTF3
6	BTN3A3	ENSG00000111801	ENST00000496719	protein_coding	KNOWN	None	1140	713	236	26440725	26446211	1	None	BTF3
6	BTN3A3	ENSG00000111801	ENST00000480110	retained_intron	KNOWN	None	1140	None	None	26440736	26453642	1	None	BTF3
6	BTN3A3	ENSG00000111801	ENST00000467524	retained_intron	KNOWN	None	1140	None	None	26440738	26444032	1	None	BTF3
6	BTN3A3	ENSG00000111801	ENST00000490254	protein_coding	NOVEL	None	1140	631	209	26440784	26452145	1	None	BTF3
6	BTN3A3	ENSG00000111801	ENST00000487272	protein_coding	NOVEL	None	1140	751	249	26440786	26448637	1	None	BTF3
6	BTN3A3	ENSG00000111801	ENST00000483179	retained_intron	KNOWN	None	1140	None	None	26445766	26452389	1	None	BTF3
6	BTN3A3	ENSG00000111801	ENST00000477388	retained_intron	KNOWN	None	1140	None	None	26449465	26450442	1	None	BTF3
6	BTN3A3	ENSG00000111801	ENST00000497681	retained_intron	KNOWN	None	1140	None	None	26449643	26452143	1	None	BTF3
6	BTN3A3	ENSG00000111801	ENST00000339789	protein_coding	KNOWN	None	1140	1629	542	26440700	26453642	1	None	BTF3
10	SH2D4B	ENSG00000178217	ENST00000339284	protein_coding	KNOWN	CCDS7370	31440	1074	357	82297658	82406316	1	None	None
10	SH2D4B	ENSG00000178217	ENST00000372150	processed_transcript	KNOWN	None	31440	None	None	82367055	82406314	1	None	None
10	SH2D4B	ENSG00000178217	ENST00000481537	processed_transcript	KNOWN	None	31440	None	None	82402752	82406314	1	None	None
10	SH2D4B	ENSG00000178217	ENST00000470604	protein_coding	KNOWN	None	31440	1296	431	82298088	82406316	1	None	None
10	SH2D4B	ENSG00000178217	ENST00000313455	protein_coding	KNOWN	CCDS44449	31440	930	309	82300575	82406316	1	None	None
5	CWC27	ENSG00000153015	ENST00000381070	protein_coding	KNOWN	CCDS3982	10664	1419	472	64064757	64314590	1	SDCCAG10	NY-CO-10
5	CWC27	ENSG00000153015	ENST00000508024	protein_coding	PUTATIVE	None	10664	1146	381	64064773	64104389	1	SDCCAG10	NY-CO-10
5	CWC27	ENSG00000153015	ENST00000485990	processed_transcript	KNOWN	None	10664	None	None	64069679	64084847	1	SDCCAG10	NY-CO-10
5	CWC27	ENSG00000153015	ENST00000506168	retained_intron	KNOWN	None	10664	None	None	64096072	64100734	1	SDCCAG10	NY-CO-10
5	CWC27	ENSG00000153015	ENST00000545000	processed_transcript	KNOWN	None	10664	None	None	64179983	64314418	1	SDCCAG10	NY-CO-10
16	ZC3H7A	ENSG00000122299	ENST00000396516	protein_coding	KNOWN	CCDS10550	30959	2916	971	11844442	11876408	-1	ZC3HDC7, ZC3H7	HSPC055, FLJ20318
16	ZC3H7A	ENSG00000122299	ENST00000355758	protein_coding	KNOWN	CCDS10550	30959	2916	971	11844442	11891123	-1	ZC3HDC7, ZC3H7	HSPC055, FLJ20318
16	ZC3H7A	ENSG00000122299	ENST00000570918	retained_intron	KNOWN	None	30959	None	None	11844447	11847018	-1	ZC3HDC7, ZC3H7	HSPC055, FLJ20318
16	ZC3H7A	ENSG00000122299	ENST00000575984	protein_coding	KNOWN	None	30959	504	167	11844449	11853706	-1	ZC3HDC7, ZC3H7	HSPC055, FLJ20318
16	ZC3H7A	ENSG00000122299	ENST00000571405	nonsense_mediated_decay	KNOWN	None	30959	676	224	11844451	11859417	-1	ZC3HDC7, ZC3H7	HSPC055, FLJ20318
16	ZC3H7A	ENSG00000122299	ENST00000570862	retained_intron	KNOWN	None	30959	None	None	11850178	11855518	-1	ZC3HDC7, ZC3H7	HSPC055, FLJ20318
16	ZC3H7A	ENSG00000122299	ENST00000571198	protein_coding	NOVEL	None	30959	2200	732	11850185	11891088	-1	ZC3HDC7, ZC3H7	HSPC055, FLJ20318
16	ZC3H7A	ENSG00000122299	ENST00000572938	retained_intron	KNOWN	None	30959	None	None	11855804	11857085	-1	ZC3HDC7, ZC3H7	HSPC055, FLJ20318
16	ZC3H7A	ENSG00000122299	ENST00000571676	retained_intron	KNOWN	None	30959	None	None	11858821	11864697	-1	ZC3HDC7, ZC3H7	HSPC055, FLJ20318
16	ZC3H7A	ENSG00000122299	ENST00000575041	nonsense_mediated_decay	KNOWN	None	30959	279	92	11859373	11868148	-1	ZC3HDC7, ZC3H7	HSPC055, FLJ20318
16	ZC3H7A	ENSG00000122299	ENST00000576247	retained_intron	KNOWN	None	30959	None	None	11859431	11862377	-1	ZC3HDC7, ZC3H7	HSPC055, FLJ20318
16	ZC3H7A	ENSG00000122299	ENST00000576009	protein_coding	NOVEL	None	30959	986	327	11861293	11870376	-1	ZC3HDC7, ZC3H7	HSPC055, FLJ20318
16	ZC3H7A	ENSG00000122299	ENST00000575170	processed_transcript	KNOWN	None	30959	None	None	11869383	11891085	-1	ZC3HDC7, ZC3H7	HSPC055, FLJ20318
16	ZC3H7A	ENSG00000122299	ENST00000572870	protein_coding	KNOWN	None	30959	458	151	11870614	11876890	-1	ZC3HDC7, ZC3H7	HSPC055, FLJ20318
16	ZC3H7A	ENSG00000122299	ENST00000576018	protein_coding	KNOWN	None	30959	232	76	11873096	11890383	-1	ZC3HDC7, ZC3H7	HSPC055, FLJ20318
16	ZC3H7A	ENSG00000122299	ENST00000572781	protein_coding	KNOWN	None	30959	210	69	11873118	11891102	-1	ZC3HDC7, ZC3H7	HSPC055, FLJ20318
16	ZC3H7A	ENSG00000122299	ENST00000574995	protein_coding	KNOWN	None	30959	182	59	11873146	11890808	-1	ZC3HDC7, ZC3H7	HSPC055, FLJ20318
9	FBXW2	ENSG00000119402	ENST00000493559	processed_transcript	KNOWN	None	13608	None	None	123514256	123538933	-1	None	FBW2, Md6, Fwd2
9	FBXW2	ENSG00000119402	ENST00000373926	protein_coding	KNOWN	CCDS43872	13608	1365	454	123526450	123555690	-1	None	FBW2, Md6, Fwd2
9	FBXW2	ENSG00000119402	ENST00000453291	protein_coding	KNOWN	None	13608	626	207	123533689	123555660	-1	None	FBW2, Md6, Fwd2
9	FBXW2	ENSG00000119402	ENST00000474117	processed_transcript	KNOWN	None	13608	None	None	123538367	123555645	-1	None	FBW2, Md6, Fwd2
9	FBXW2	ENSG00000119402	ENST00000476481	processed_transcript	KNOWN	None	13608	None	None	123550294	123555658	-1	None	FBW2, Md6, Fwd2
9	FBXW2	ENSG00000119402	ENST00000340778	protein_coding	KNOWN	None	13608	1170	389	123526453	123555655	-1	None	FBW2, Md6, Fwd2
10	NRG3	ENSG00000185737	ENST00000372141	protein_coding	KNOWN	CCDS31233	7999	2091	696	83635070	84745401	1	None	None
10	NRG3	ENSG00000185737	ENST00000404547	protein_coding	KNOWN	None	7999	2163	720	83635097	84745361	1	None	None
10	NRG3	ENSG00000185737	ENST00000372142	protein_coding	KNOWN	CCDS53547	7999	1500	499	83637443	84746723	1	None	None
10	NRG3	ENSG00000185737	ENST00000602794	nonsense_mediated_decay	KNOWN	None	7999	165	54	83637653	84746935	1	None	None
10	NRG3	ENSG00000185737	ENST00000555784	nonsense_mediated_decay	KNOWN	None	7999	231	76	83637717	84745361	1	None	None
10	NRG3	ENSG00000185737	ENST00000404576	protein_coding	NOVEL	None	7999	1503	500	83637717	84745361	1	None	None
10	NRG3	ENSG00000185737	ENST00000556918	protein_coding	NOVEL	None	7999	1581	526	83637717	84745361	1	None	None
10	NRG3	ENSG00000185737	ENST00000545131	protein_coding	KNOWN	None	7999	1041	346	84559498	84745590	1	None	None
10	NRG3	ENSG00000185737	ENST00000537893	protein_coding	KNOWN	None	7999	1041	346	84559498	84745361	1	None	None
19	NMRK2	ENSG00000077009	ENST00000168977	protein_coding	KNOWN	CCDS12115	17871	693	230	3933101	3942414	1	ITGB1BP3	MIBP, NRK2
19	NMRK2	ENSG00000077009	ENST00000599576	protein_coding	PUTATIVE	None	17871	339	112	3933114	3942411	1	ITGB1BP3	MIBP, NRK2
19	NMRK2	ENSG00000077009	ENST00000593949	protein_coding	NOVEL	None	17871	708	235	3933605	3942367	1	ITGB1BP3	MIBP, NRK2
19	NMRK2	ENSG00000077009	ENST00000597889	nonsense_mediated_decay	KNOWN	None	17871	251	82	3936620	3942172	1	ITGB1BP3	MIBP, NRK2
5	ADAMTS6	ENSG00000049192	ENST00000381055	protein_coding	KNOWN	CCDS3983	222	3354	1117	64444563	64777747	-1	None	ADAM-TS6
5	ADAMTS6	ENSG00000049192	ENST00000381052	nonsense_mediated_decay	KNOWN	None	222	879	292	64444566	64777244	-1	None	ADAM-TS6
5	ADAMTS6	ENSG00000049192	ENST00000314351	processed_transcript	KNOWN	None	222	None	None	64447355	64494592	-1	None	ADAM-TS6
5	ADAMTS6	ENSG00000049192	ENST00000417396	processed_transcript	KNOWN	None	222	None	None	64468767	64510010	-1	None	ADAM-TS6
5	ADAMTS6	ENSG00000049192	ENST00000470597	retained_intron	KNOWN	None	222	None	None	64510225	64769521	-1	None	ADAM-TS6
5	ADAMTS6	ENSG00000049192	ENST00000464680	protein_coding	NOVEL	None	222	2724	907	64510472	64769518	-1	None	ADAM-TS6
5	ADAMTS6	ENSG00000049192	ENST00000504282	processed_transcript	PUTATIVE	None	222	None	None	64552217	64558764	-1	None	ADAM-TS6
5	ADAMTS6	ENSG00000049192	ENST00000502886	retained_intron	KNOWN	None	222	None	None	64747143	64769500	-1	None	ADAM-TS6
5	ADAMTS6	ENSG00000049192	ENST00000536360	protein_coding	KNOWN	None	222	1407	468	64593035	64777704	-1	None	ADAM-TS6
9	PSMD5	ENSG00000095261	ENST00000373920	protein_coding	PUTATIVE	None	9563	342	113	123577774	123586796	-1	None	S5B, KIAA0072
9	PSMD5	ENSG00000095261	ENST00000210313	protein_coding	KNOWN	CCDS6824	9563	1515	504	123578331	123605262	-1	None	S5B, KIAA0072
9	PSMD5	ENSG00000095261	ENST00000373904	protein_coding	KNOWN	CCDS59143	9563	1386	461	123580074	123605229	-1	None	S5B, KIAA0072
9	PSMD5	ENSG00000095261	ENST00000373903	retained_intron	KNOWN	None	9563	None	None	123586408	123589172	-1	None	S5B, KIAA0072
9	PSMD5	ENSG00000095261	ENST00000496688	retained_intron	KNOWN	None	9563	None	None	123588873	123593679	-1	None	S5B, KIAA0072
9	PSMD5	ENSG00000095261	ENST00000476949	nonsense_mediated_decay	KNOWN	None	9563	219	72	123593645	123605189	-1	None	S5B, KIAA0072
9	PSMD5	ENSG00000095261	ENST00000471789	retained_intron	KNOWN	None	9563	None	None	123593948	123605160	-1	None	S5B, KIAA0072
9	PSMD5	ENSG00000095261	ENST00000604848	protein_coding	KNOWN	None	9563	294	97	123578001	123583719	-1	None	S5B, KIAA0072
19	DAPK3	ENSG00000167657	ENST00000545797	protein_coding	KNOWN	CCDS12116	2676	1365	454	3958451	3971068	-1	None	ZIP, ZIPK
19	DAPK3	ENSG00000167657	ENST00000595279	retained_intron	KNOWN	None	2676	None	None	3958456	3961838	-1	None	ZIP, ZIPK
19	DAPK3	ENSG00000167657	ENST00000594894	protein_coding	PUTATIVE	None	2676	278	91	3959637	3961157	-1	None	ZIP, ZIPK
19	DAPK3	ENSG00000167657	ENST00000596311	protein_coding	KNOWN	None	2676	475	157	3964320	3971121	-1	None	ZIP, ZIPK
19	DAPK3	ENSG00000167657	ENST00000601824	protein_coding	KNOWN	None	2676	474	157	3964321	3970622	-1	None	ZIP, ZIPK
19	DAPK3	ENSG00000167657	ENST00000593844	protein_coding	KNOWN	None	2676	423	140	3964629	3969936	-1	None	ZIP, ZIPK
19	DAPK3	ENSG00000167657	ENST00000301264	protein_coding	KNOWN	CCDS12116	2676	1365	454	3958452	3969826	-1	None	ZIP, ZIPK
10	GHITM	ENSG00000165678	ENST00000372134	protein_coding	KNOWN	CCDS41542	17281	1038	345	85899196	85913001	1	None	HSPC282, PTD010, DERP2, My021, TMBIM5
6	BTN2A1	ENSG00000112763	ENST00000377600	nonsense_mediated_decay	KNOWN	None	1136	456	151	26458150	26469830	1	None	BT2.1, BTF1
6	BTN2A1	ENSG00000112763	ENST00000312541	protein_coding	KNOWN	CCDS4613	1136	1584	527	26458153	26469865	1	None	BT2.1, BTF1
6	BTN2A1	ENSG00000112763	ENST00000493173	protein_coding	PUTATIVE	None	1136	257	84	26458178	26463481	1	None	BT2.1, BTF1
6	BTN2A1	ENSG00000112763	ENST00000429381	protein_coding	KNOWN	CCDS47390	1136	1005	334	26458189	26469865	1	None	BT2.1, BTF1
6	BTN2A1	ENSG00000112763	ENST00000469185	protein_coding	PUTATIVE	CCDS56404	1136	993	330	26458196	26476849	1	None	BT2.1, BTF1
6	BTN2A1	ENSG00000112763	ENST00000480218	protein_coding	PUTATIVE	None	1136	236	77	26465455	26476847	1	None	BT2.1, BTF1
6	BTN2A1	ENSG00000112763	ENST00000541522	protein_coding	KNOWN	CCDS56405	1136	1401	466	26458178	26468862	1	None	BT2.1, BTF1
4	POU4F2	ENSG00000151615	ENST00000281321	protein_coding	KNOWN	CCDS34074	9219	1230	409	147560045	147563626	1	BRN3B	Brn-3b
9	PHF19	ENSG00000119403	ENST00000373896	protein_coding	KNOWN	CCDS35116	24566	1743	580	123617977	123639606	-1	None	DKFZP727G051, PCL3, MTF2L1, TDRD19B
9	PHF19	ENSG00000119403	ENST00000487555	processed_transcript	KNOWN	None	24566	None	None	123620208	123631122	-1	None	DKFZP727G051, PCL3, MTF2L1, TDRD19B
9	PHF19	ENSG00000119403	ENST00000462229	processed_transcript	KNOWN	None	24566	None	None	123620472	123622824	-1	None	DKFZP727G051, PCL3, MTF2L1, TDRD19B
9	PHF19	ENSG00000119403	ENST00000464712	retained_intron	KNOWN	None	24566	None	None	123623190	123628047	-1	None	DKFZP727G051, PCL3, MTF2L1, TDRD19B
9	PHF19	ENSG00000119403	ENST00000467266	processed_transcript	KNOWN	None	24566	None	None	123623389	123625304	-1	None	DKFZP727G051, PCL3, MTF2L1, TDRD19B
9	PHF19	ENSG00000119403	ENST00000453868	protein_coding	PUTATIVE	None	24566	521	172	123624266	123631116	-1	None	DKFZP727G051, PCL3, MTF2L1, TDRD19B
9	PHF19	ENSG00000119403	ENST00000474402	retained_intron	KNOWN	None	24566	None	None	123626357	123631142	-1	None	DKFZP727G051, PCL3, MTF2L1, TDRD19B
9	PHF19	ENSG00000119403	ENST00000478371	retained_intron	KNOWN	None	24566	None	None	123628062	123630634	-1	None	DKFZP727G051, PCL3, MTF2L1, TDRD19B
9	PHF19	ENSG00000119403	ENST00000439674	protein_coding	PUTATIVE	None	24566	180	59	123628081	123630900	-1	None	DKFZP727G051, PCL3, MTF2L1, TDRD19B
9	PHF19	ENSG00000119403	ENST00000436309	protein_coding	KNOWN	None	24566	497	164	123631577	123639304	-1	None	DKFZP727G051, PCL3, MTF2L1, TDRD19B
9	PHF19	ENSG00000119403	ENST00000312189	protein_coding	KNOWN	CCDS35117	24566	624	207	123631865	123639466	-1	None	DKFZP727G051, PCL3, MTF2L1, TDRD19B
9	PHF19	ENSG00000119403	ENST00000456291	protein_coding	KNOWN	None	24566	320	105	123632765	123638711	-1	None	DKFZP727G051, PCL3, MTF2L1, TDRD19B
9	PHF19	ENSG00000119403	ENST00000419155	protein_coding	KNOWN	None	24566	1116	371	123619897	123631159	-1	None	DKFZP727G051, PCL3, MTF2L1, TDRD19B
4	TTC29	ENSG00000137473	ENST00000513335	protein_coding	KNOWN	None	29936	1506	501	147627790	147866984	-1	None	NYD-SP14
4	TTC29	ENSG00000137473	ENST00000508306	nonsense_mediated_decay	KNOWN	None	29936	1092	363	147628184	147866985	-1	None	NYD-SP14
4	TTC29	ENSG00000137473	ENST00000504425	protein_coding	KNOWN	None	29936	1425	474	147628185	147867034	-1	None	NYD-SP14
4	TTC29	ENSG00000137473	ENST00000504272	processed_transcript	KNOWN	None	29936	None	None	147628339	147685339	-1	None	NYD-SP14
4	TTC29	ENSG00000137473	ENST00000506019	processed_transcript	KNOWN	None	29936	None	None	147724628	147734182	-1	None	NYD-SP14
4	TTC29	ENSG00000137473	ENST00000515315	protein_coding	KNOWN	None	29936	281	92	147830375	147866200	-1	None	NYD-SP14
4	TTC29	ENSG00000137473	ENST00000502319	protein_coding	KNOWN	None	29936	79	25	147860969	147867031	-1	None	NYD-SP14
4	TTC29	ENSG00000137473	ENST00000398886	protein_coding	KNOWN	None	29936	1506	501	147628180	147863807	-1	None	NYD-SP14
4	TTC29	ENSG00000137473	ENST00000325106	protein_coding	KNOWN	CCDS47141	29936	1428	475	147628180	147867034	-1	None	NYD-SP14
19	EEF2	ENSG00000167658	ENST00000600794	protein_coding	PUTATIVE	None	3214	256	84	3976054	3978132	-1	EF2	EEF-2
19	EEF2	ENSG00000167658	ENST00000309311	protein_coding	KNOWN	CCDS12117	3214	2577	858	3976054	3985467	-1	EF2	EEF-2
19	EEF2	ENSG00000167658	ENST00000596417	retained_intron	KNOWN	None	3214	None	None	3978084	3979457	-1	EF2	EEF-2
19	EEF2	ENSG00000167658	ENST00000598182	retained_intron	KNOWN	None	3214	None	None	3980685	3982311	-1	EF2	EEF-2
19	EEF2	ENSG00000167658	ENST00000598436	retained_intron	KNOWN	None	3214	None	None	3980938	3982532	-1	EF2	EEF-2
19	EEF2	ENSG00000167658	ENST00000600720	processed_transcript	KNOWN	None	3214	None	None	3983252	3985110	-1	EF2	EEF-2
19	EEF2	ENSG00000167658	ENST00000594885	retained_intron	KNOWN	None	3214	None	None	3983855	3985461	-1	EF2	EEF-2
16	RSL1D1	ENSG00000171490	ENST00000571133	protein_coding	KNOWN	CCDS10551	24534	1473	490	11929056	11945442	-1	None	PBK1, L12, DKFZP564M182, CSIG, UTP30
16	RSL1D1	ENSG00000171490	ENST00000396503	nonsense_mediated_decay	KNOWN	None	24534	120	39	11931575	11945437	-1	None	PBK1, L12, DKFZP564M182, CSIG, UTP30
16	RSL1D1	ENSG00000171490	ENST00000573618	nonsense_mediated_decay	KNOWN	None	24534	144	47	11931812	11945375	-1	None	PBK1, L12, DKFZP564M182, CSIG, UTP30
16	RSL1D1	ENSG00000171490	ENST00000355674	protein_coding	NOVEL	None	24534	1291	429	11931823	11945401	-1	None	PBK1, L12, DKFZP564M182, CSIG, UTP30
16	RSL1D1	ENSG00000171490	ENST00000573029	nonsense_mediated_decay	KNOWN	None	24534	141	46	11931827	11945375	-1	None	PBK1, L12, DKFZP564M182, CSIG, UTP30
16	RSL1D1	ENSG00000171490	ENST00000573251	protein_coding	NOVEL	None	24534	890	295	11933706	11945373	-1	None	PBK1, L12, DKFZP564M182, CSIG, UTP30
16	RSL1D1	ENSG00000171490	ENST00000574823	retained_intron	KNOWN	None	24534	None	None	11935263	11940424	-1	None	PBK1, L12, DKFZP564M182, CSIG, UTP30
16	RSL1D1	ENSG00000171490	ENST00000570767	nonsense_mediated_decay	KNOWN	None	24534	132	43	11935565	11945399	-1	None	PBK1, L12, DKFZP564M182, CSIG, UTP30
16	RSL1D1	ENSG00000171490	ENST00000572090	nonsense_mediated_decay	KNOWN	None	24534	281	92	11940358	11945365	-1	None	PBK1, L12, DKFZP564M182, CSIG, UTP30
16	RSL1D1	ENSG00000171490	ENST00000571988	protein_coding	PUTATIVE	None	24534	474	157	11940417	11944902	-1	None	PBK1, L12, DKFZP564M182, CSIG, UTP30
16	RSL1D1	ENSG00000171490	ENST00000573791	protein_coding	PUTATIVE	None	24534	296	97	11940591	11945089	-1	None	PBK1, L12, DKFZP564M182, CSIG, UTP30
16	RSL1D1	ENSG00000171490	ENST00000574287	retained_intron	KNOWN	None	24534	None	None	11941431	11945376	-1	None	PBK1, L12, DKFZP564M182, CSIG, UTP30
16	RSL1D1	ENSG00000171490	ENST00000542106	protein_coding	KNOWN	None	24534	813	270	11931575	11945437	-1	None	PBK1, L12, DKFZP564M182, CSIG, UTP30
10	C10orf99	ENSG00000188373	ENST00000372126	protein_coding	KNOWN	CCDS7371	31428	246	81	85933494	85945050	1	None	UNQ1833, RLLV1833, FLJ21763, Em:AC022389.2
10	C10orf99	ENSG00000188373	ENST00000472542	processed_transcript	KNOWN	None	31428	None	None	85936274	85945040	1	None	UNQ1833, RLLV1833, FLJ21763, Em:AC022389.2
10	CDHR1	ENSG00000148600	ENST00000332904	protein_coding	KNOWN	CCDS53548	14550	2238	745	85954410	85979377	1	PCDH21	KIAA1775, CORD15
10	CDHR1	ENSG00000148600	ENST00000372117	protein_coding	KNOWN	CCDS7372	14550	2580	859	85954414	85977122	1	PCDH21	KIAA1775, CORD15
10	CDHR1	ENSG00000148600	ENST00000459673	retained_intron	KNOWN	None	14550	None	None	85972633	85977122	1	PCDH21	KIAA1775, CORD15
10	CDHR1	ENSG00000148600	ENST00000440770	protein_coding	KNOWN	None	14550	1692	563	85961658	85977119	1	PCDH21	KIAA1775, CORD15
6	BTN1A1	ENSG00000124557	ENST00000244513	protein_coding	KNOWN	CCDS4614	1135	1581	526	26501449	26510650	1	BTN	BT
5	CENPK	ENSG00000123219	ENST00000514814	protein_coding	KNOWN	CCDS3984	29479	810	269	64813593	64858995	-1	None	FKSG14, SOLT, CENP-K
5	CENPK	ENSG00000123219	ENST00000396679	protein_coding	KNOWN	CCDS3984	29479	810	269	64813593	64858998	-1	None	FKSG14, SOLT, CENP-K
5	CENPK	ENSG00000123219	ENST00000508421	protein_coding	PUTATIVE	None	29479	720	239	64813647	64858952	-1	None	FKSG14, SOLT, CENP-K
5	CENPK	ENSG00000123219	ENST00000510693	protein_coding	PUTATIVE	None	29479	621	206	64814162	64858972	-1	None	FKSG14, SOLT, CENP-K
5	CENPK	ENSG00000123219	ENST00000506282	processed_transcript	KNOWN	None	29479	None	None	64814384	64858995	-1	None	FKSG14, SOLT, CENP-K
5	CENPK	ENSG00000123219	ENST00000509397	protein_coding	PUTATIVE	None	29479	411	136	64820428	64838653	-1	None	FKSG14, SOLT, CENP-K
5	CENPK	ENSG00000123219	ENST00000511841	processed_transcript	KNOWN	None	29479	None	None	64824291	64847062	-1	None	FKSG14, SOLT, CENP-K
5	CENPK	ENSG00000123219	ENST00000505960	nonsense_mediated_decay	KNOWN	None	29479	321	106	64824291	64857362	-1	None	FKSG14, SOLT, CENP-K
5	CENPK	ENSG00000123219	ENST00000515497	protein_coding	PUTATIVE	None	29479	529	175	64824353	64858995	-1	None	FKSG14, SOLT, CENP-K
5	CENPK	ENSG00000123219	ENST00000515873	processed_transcript	KNOWN	None	29479	None	None	64824355	64858954	-1	None	FKSG14, SOLT, CENP-K
5	CENPK	ENSG00000123219	ENST00000510768	nonsense_mediated_decay	KNOWN	None	29479	354	117	64824370	64858954	-1	None	FKSG14, SOLT, CENP-K
5	CENPK	ENSG00000123219	ENST00000513951	retained_intron	KNOWN	None	29479	None	None	64824807	64825613	-1	None	FKSG14, SOLT, CENP-K
5	CENPK	ENSG00000123219	ENST00000502997	protein_coding	KNOWN	None	29479	396	131	64824820	64851098	-1	None	FKSG14, SOLT, CENP-K
5	CENPK	ENSG00000123219	ENST00000510354	protein_coding	PUTATIVE	None	29479	321	106	64846294	64857391	-1	None	FKSG14, SOLT, CENP-K
5	CENPK	ENSG00000123219	ENST00000504508	retained_intron	KNOWN	None	29479	None	None	64856797	64858963	-1	None	FKSG14, SOLT, CENP-K
5	CENPK	ENSG00000123219	ENST00000508311	retained_intron	KNOWN	None	29479	None	None	64856943	64858950	-1	None	FKSG14, SOLT, CENP-K
5	CENPK	ENSG00000123219	ENST00000242872	protein_coding	KNOWN	CCDS3984	29479	810	269	64813594	64850792	-1	None	FKSG14, SOLT, CENP-K
6	HMGN4	ENSG00000182952	ENST00000377575	protein_coding	KNOWN	CCDS4615	4989	273	90	26538633	26546482	1	HMG17L3	NHC
6	HMGN4	ENSG00000182952	ENST00000477243	processed_transcript	KNOWN	None	4989	None	None	26538666	26540177	1	HMG17L3	NHC
4	EDNRA	ENSG00000151617	ENST00000511804	protein_coding	PUTATIVE	CCDS58927	3179	609	202	148402084	148464030	1	None	None
4	EDNRA	ENSG00000151617	ENST00000324300	protein_coding	KNOWN	CCDS3769	3179	1284	427	148402084	148466106	1	None	None
4	EDNRA	ENSG00000151617	ENST00000510697	nonsense_mediated_decay	KNOWN	None	3179	564	187	148406834	148463845	1	None	None
4	EDNRA	ENSG00000151617	ENST00000506066	protein_coding	KNOWN	CCDS54810	3179	957	318	148406834	148463845	1	None	None
4	EDNRA	ENSG00000151617	ENST00000514245	processed_transcript	KNOWN	None	3179	None	None	148406986	148453811	1	None	None
4	EDNRA	ENSG00000151617	ENST00000503721	processed_transcript	KNOWN	None	3179	None	None	148452795	148465132	1	None	None
4	EDNRA	ENSG00000151617	ENST00000358556	protein_coding	KNOWN	CCDS54810	3179	957	318	148402069	148466106	1	None	None
4	EDNRA	ENSG00000151617	ENST00000339690	protein_coding	KNOWN	None	3179	486	161	148402069	148466106	1	None	None
6	ABT1	ENSG00000146109	ENST00000274849	protein_coding	KNOWN	CCDS4616	17369	819	272	26597180	26600278	1	None	None
6	ZNF322	ENSG00000181315	ENST00000415922	protein_coding	KNOWN	CCDS4617	23640	1209	402	26636518	26659980	-1	ZNF489, ZNF388, HCG12, ZNF322A	bA457M11.3, bA457M11.2
6	ZNF322	ENSG00000181315	ENST00000471278	protein_coding	KNOWN	CCDS4617	23640	1209	402	26636519	26651724	-1	ZNF489, ZNF388, HCG12, ZNF322A	bA457M11.3, bA457M11.2
6	ZNF322	ENSG00000181315	ENST00000480036	protein_coding	KNOWN	None	23640	78	25	26638704	26659913	-1	ZNF489, ZNF388, HCG12, ZNF322A	bA457M11.3, bA457M11.2
6	ZNF322	ENSG00000181315	ENST00000465674	processed_transcript	KNOWN	None	23640	None	None	26638855	26659963	-1	ZNF489, ZNF388, HCG12, ZNF322A	bA457M11.3, bA457M11.2
6	ZNF322	ENSG00000181315	ENST00000461899	processed_transcript	KNOWN	None	23640	None	None	26638868	26659917	-1	ZNF489, ZNF388, HCG12, ZNF322A	bA457M11.3, bA457M11.2
19	PIAS4	ENSG00000105229	ENST00000262971	protein_coding	KNOWN	CCDS12118	17002	1533	510	4007644	4039384	1	None	Piasg, PIASY, FLJ12419, ZMIZ6
19	PIAS4	ENSG00000105229	ENST00000599999	processed_transcript	KNOWN	None	17002	None	None	4007752	4028585	1	None	Piasg, PIASY, FLJ12419, ZMIZ6
19	PIAS4	ENSG00000105229	ENST00000600566	retained_intron	KNOWN	None	17002	None	None	4007754	4028223	1	None	Piasg, PIASY, FLJ12419, ZMIZ6
19	PIAS4	ENSG00000105229	ENST00000593518	processed_transcript	KNOWN	None	17002	None	None	4007756	4017798	1	None	Piasg, PIASY, FLJ12419, ZMIZ6
19	PIAS4	ENSG00000105229	ENST00000596144	processed_transcript	KNOWN	None	17002	None	None	4018433	4028784	1	None	Piasg, PIASY, FLJ12419, ZMIZ6
19	PIAS4	ENSG00000105229	ENST00000601439	retained_intron	KNOWN	None	17002	None	None	4028459	4028812	1	None	Piasg, PIASY, FLJ12419, ZMIZ6
10	LRIT2	ENSG00000204033	ENST00000372113	protein_coding	KNOWN	CCDS31234	23443	1653	550	85980254	85985282	-1	LRRC22	AC022389.4
10	LRIT2	ENSG00000204033	ENST00000538192	protein_coding	KNOWN	None	23443	1683	560	85981048	85985345	-1	LRRC22	AC022389.4
6	HIST1H2BJ	ENSG00000124635	ENST00000607124	protein_coding	KNOWN	CCDS4618	4761	381	126	27093676	27100529	-1	H2BFR	H2B/r
6	HIST1H2BJ	ENSG00000124635	ENST00000606923	protein_coding	PUTATIVE	None	4761	65	20	27093858	27100327	-1	H2BFR	H2B/r
6	HIST1H2BJ	ENSG00000124635	ENST00000339812	protein_coding	KNOWN	CCDS4618	4761	381	126	27100149	27100529	-1	H2BFR	H2B/r
6	HIST1H2BJ	ENSG00000124635	ENST00000541790	protein_coding	KNOWN	CCDS4618	4761	381	126	27094058	27100541	-1	H2BFR	H2B/r
10	LRIT1	ENSG00000148602	ENST00000372105	protein_coding	KNOWN	CCDS7373	23404	1872	623	85991349	86001217	-1	LRRC21	PAL, DKFZP434K091, FIGLER9
10	RGR	ENSG00000148604	ENST00000469446	processed_transcript	KNOWN	None	9990	None	None	86004809	86007710	1	None	RP44
10	RGR	ENSG00000148604	ENST00000478727	processed_transcript	KNOWN	None	9990	None	None	86004809	86018338	1	None	RP44
10	RGR	ENSG00000148604	ENST00000359452	protein_coding	KNOWN	CCDS7374	9990	888	295	86004809	86019716	1	None	RP44
10	RGR	ENSG00000148604	ENST00000483660	processed_transcript	KNOWN	None	9990	None	None	86004819	86018338	1	None	RP44
10	RGR	ENSG00000148604	ENST00000372092	protein_coding	KNOWN	None	9990	363	120	86004842	86010683	1	None	RP44
10	RGR	ENSG00000148604	ENST00000483771	retained_intron	KNOWN	None	9990	None	None	86004845	86018895	1	None	RP44
10	RGR	ENSG00000148604	ENST00000483744	processed_transcript	KNOWN	None	9990	None	None	86007461	86014187	1	None	RP44
10	RGR	ENSG00000148604	ENST00000497161	processed_transcript	KNOWN	None	9990	None	None	86008707	86015196	1	None	RP44
10	RGR	ENSG00000148604	ENST00000479725	processed_transcript	KNOWN	None	9990	None	None	86014926	86018671	1	None	RP44
10	RGR	ENSG00000148604	ENST00000358110	protein_coding	KNOWN	CCDS41543	9990	762	253	86004835	86019715	1	None	RP44
9	TRAF1	ENSG00000056558	ENST00000373887	protein_coding	KNOWN	CCDS6825	12031	1251	416	123664671	123691047	-1	None	EBI6
9	TRAF1	ENSG00000056558	ENST00000540010	protein_coding	KNOWN	CCDS6825	12031	1251	416	123664671	123691451	-1	None	EBI6
9	TRAF1	ENSG00000056558	ENST00000546084	protein_coding	KNOWN	CCDS55335	12031	885	294	123664671	123676850	-1	None	EBI6
6	HIST1H2AG	ENSG00000196787	ENST00000359193	protein_coding	KNOWN	CCDS4619	4737	393	130	27100832	27103070	1	H2AFP	pH2A/f, H2A/p, H2A.1b
4	TMEM184C	ENSG00000164168	ENST00000296582	protein_coding	KNOWN	CCDS3770	25587	1317	438	148538534	148557872	1	TMEM34	FLJ10846
4	TMEM184C	ENSG00000164168	ENST00000508208	protein_coding	PUTATIVE	None	25587	786	261	148538537	148593195	1	TMEM34	FLJ10846
4	TMEM184C	ENSG00000164168	ENST00000505999	nonsense_mediated_decay	KNOWN	None	25587	219	72	148550763	148555679	1	TMEM34	FLJ10846
4	TMEM184C	ENSG00000164168	ENST00000506826	retained_intron	KNOWN	None	25587	None	None	148553698	148555329	1	TMEM34	FLJ10846
6	HIST1H2BK	ENSG00000197903	ENST00000356950	protein_coding	KNOWN	CCDS4621	13954	381	126	27114197	27114577	-1	H2BFT	H2BFAiii
6	HIST1H2BK	ENSG00000197903	ENST00000396891	protein_coding	KNOWN	CCDS4621	13954	381	126	27106073	27114619	-1	H2BFT	H2BFAiii
16	GSPT1	ENSG00000103342	ENST00000434724	protein_coding	KNOWN	CCDS45412	4621	1914	637	11961985	12009777	-1	None	GST1, ETF3A, eRF3a
16	GSPT1	ENSG00000103342	ENST00000439887	protein_coding	KNOWN	CCDS45413	4621	1911	636	11966536	12009735	-1	None	GST1, ETF3A, eRF3a
16	GSPT1	ENSG00000103342	ENST00000565267	protein_coding	NOVEL	None	4621	1427	474	11966539	11991738	-1	None	GST1, ETF3A, eRF3a
16	GSPT1	ENSG00000103342	ENST00000563468	protein_coding	KNOWN	CCDS45414	4621	1500	499	11966541	11991745	-1	None	GST1, ETF3A, eRF3a
16	GSPT1	ENSG00000103342	ENST00000420576	protein_coding	KNOWN	CCDS45414	4621	1500	499	11966976	12009939	-1	None	GST1, ETF3A, eRF3a
16	GSPT1	ENSG00000103342	ENST00000564790	processed_transcript	KNOWN	None	4621	None	None	11974082	11980761	-1	None	GST1, ETF3A, eRF3a
16	GSPT1	ENSG00000103342	ENST00000562794	retained_intron	KNOWN	None	4621	None	None	11976872	11980818	-1	None	GST1, ETF3A, eRF3a
16	GSPT1	ENSG00000103342	ENST00000568849	protein_coding	PUTATIVE	None	4621	599	198	11981464	12009067	-1	None	GST1, ETF3A, eRF3a
16	GSPT1	ENSG00000103342	ENST00000567631	retained_intron	KNOWN	None	4621	None	None	11984650	11989141	-1	None	GST1, ETF3A, eRF3a
16	GSPT1	ENSG00000103342	ENST00000562169	protein_coding	PUTATIVE	None	4621	282	93	11990473	12009060	-1	None	GST1, ETF3A, eRF3a
6	HIST1H4I	ENSG00000198339	ENST00000354348	protein_coding	KNOWN	CCDS4620	4793	312	103	27107076	27108418	1	H4FM	H4/m
5	PPWD1	ENSG00000113593	ENST00000508982	retained_intron	KNOWN	None	28954	None	None	64859063	64863906	1	None	KIAA0073
5	PPWD1	ENSG00000113593	ENST00000261308	protein_coding	KNOWN	CCDS3985	28954	1941	646	64859066	64883376	1	None	KIAA0073
5	PPWD1	ENSG00000113593	ENST00000503435	nonsense_mediated_decay	KNOWN	None	28954	327	108	64859117	64865798	1	None	KIAA0073
5	PPWD1	ENSG00000113593	ENST00000515447	nonsense_mediated_decay	KNOWN	None	28954	324	107	64859120	64867711	1	None	KIAA0073
5	PPWD1	ENSG00000113593	ENST00000510930	nonsense_mediated_decay	KNOWN	None	28954	207	68	64859123	64883249	1	None	KIAA0073
5	PPWD1	ENSG00000113593	ENST00000511908	nonsense_mediated_decay	KNOWN	None	28954	255	84	64859126	64883354	1	None	KIAA0073
5	PPWD1	ENSG00000113593	ENST00000502703	protein_coding	PUTATIVE	None	28954	322	106	64859694	64867754	1	None	KIAA0073
5	PPWD1	ENSG00000113593	ENST00000505380	protein_coding	PUTATIVE	None	28954	724	240	64859715	64868111	1	None	KIAA0073
5	PPWD1	ENSG00000113593	ENST00000507608	retained_intron	KNOWN	None	28954	None	None	64865190	64872753	1	None	KIAA0073
5	PPWD1	ENSG00000113593	ENST00000514172	nonsense_mediated_decay	KNOWN	None	28954	399	132	64867913	64878939	1	None	KIAA0073
5	PPWD1	ENSG00000113593	ENST00000511334	retained_intron	KNOWN	None	28954	None	None	64872779	64879118	1	None	KIAA0073
5	PPWD1	ENSG00000113593	ENST00000515151	retained_intron	KNOWN	None	28954	None	None	64875123	64880874	1	None	KIAA0073
5	PPWD1	ENSG00000113593	ENST00000513773	retained_intron	KNOWN	None	28954	None	None	64878383	64883105	1	None	KIAA0073
5	PPWD1	ENSG00000113593	ENST00000535264	protein_coding	KNOWN	None	28954	1851	616	64859123	64883249	1	None	KIAA0073
5	PPWD1	ENSG00000113593	ENST00000538977	protein_coding	KNOWN	None	28954	1473	490	64859126	64883354	1	None	KIAA0073
6	HIST1H2AH	ENSG00000184825	ENST00000377459	protein_coding	KNOWN	CCDS4622	13671	387	128	27114861	27115317	1	None	H2AFALii, dJ86C11.1, H2A/S
19	None	ENSG00000205147	ENST00000535853	protein_coding	KNOWN	None	None	414	137	4041127	4043154	-1	None	None
19	ZBTB7A	ENSG00000178951	ENST00000322357	protein_coding	KNOWN	CCDS12119	18078	1755	584	4044362	4066943	-1	ZBTB7	FBI-1, LRF, DKFZp547O146, pokemon, ZNF857A
19	ZBTB7A	ENSG00000178951	ENST00000601588	protein_coding	KNOWN	CCDS12119	18078	1755	584	4047740	4065730	-1	ZBTB7	FBI-1, LRF, DKFZp547O146, pokemon, ZNF857A
9	C5	ENSG00000106804	ENST00000223642	protein_coding	KNOWN	CCDS6826	1331	5031	1676	123714616	123812554	-1	None	CPAMD4, C5a, C5b
9	C5	ENSG00000106804	ENST00000480188	retained_intron	KNOWN	None	1331	None	None	123719239	123724985	-1	None	CPAMD4, C5a, C5b
9	C5	ENSG00000106804	ENST00000489802	processed_transcript	KNOWN	None	1331	None	None	123741837	123744170	-1	None	CPAMD4, C5a, C5b
9	C5	ENSG00000106804	ENST00000466280	processed_transcript	KNOWN	None	1331	None	None	123761955	123769206	-1	None	CPAMD4, C5a, C5b
9	C5	ENSG00000106804	ENST00000460578	processed_transcript	KNOWN	None	1331	None	None	123787974	123797104	-1	None	CPAMD4, C5a, C5b
6	PRSS16	ENSG00000112812	ENST00000454665	nonsense_mediated_decay	KNOWN	None	9480	438	145	27215480	27223647	1	None	TSSP
6	PRSS16	ENSG00000112812	ENST00000421826	protein_coding	NOVEL	None	9480	774	257	27215480	27224232	1	None	TSSP
6	PRSS16	ENSG00000112812	ENST00000230582	protein_coding	KNOWN	CCDS4623	9480	1545	514	27215502	27224250	1	None	TSSP
6	PRSS16	ENSG00000112812	ENST00000470870	nonsense_mediated_decay	KNOWN	None	9480	501	166	27215510	27222478	1	None	TSSP
6	PRSS16	ENSG00000112812	ENST00000468930	nonsense_mediated_decay	KNOWN	None	9480	279	92	27215510	27222515	1	None	TSSP
6	PRSS16	ENSG00000112812	ENST00000466364	nonsense_mediated_decay	KNOWN	None	9480	300	99	27215510	27222898	1	None	TSSP
6	PRSS16	ENSG00000112812	ENST00000485993	protein_coding	NOVEL	None	9480	414	137	27216715	27222478	1	None	TSSP
6	PRSS16	ENSG00000112812	ENST00000475106	protein_coding	KNOWN	None	9480	492	163	27216715	27222478	1	None	TSSP
6	PRSS16	ENSG00000112812	ENST00000495683	retained_intron	KNOWN	None	9480	None	None	27218850	27223599	1	None	TSSP
6	PRSS16	ENSG00000112812	ENST00000488649	retained_intron	KNOWN	None	9480	None	None	27218973	27223441	1	None	TSSP
6	PRSS16	ENSG00000112812	ENST00000481125	retained_intron	KNOWN	None	9480	None	None	27218981	27223293	1	None	TSSP
6	PRSS16	ENSG00000112812	ENST00000462664	retained_intron	KNOWN	None	9480	None	None	27218992	27220049	1	None	TSSP
6	PRSS16	ENSG00000112812	ENST00000492575	retained_intron	KNOWN	None	9480	None	None	27218992	27223687	1	None	TSSP
6	PRSS16	ENSG00000112812	ENST00000484493	processed_transcript	KNOWN	None	9480	None	None	27219078	27223350	1	None	TSSP
6	PRSS16	ENSG00000112812	ENST00000459736	processed_transcript	KNOWN	None	9480	None	None	27219101	27223125	1	None	TSSP
6	PRSS16	ENSG00000112812	ENST00000478690	processed_transcript	KNOWN	None	9480	None	None	27219101	27223432	1	None	TSSP
6	PRSS16	ENSG00000112812	ENST00000377456	processed_transcript	KNOWN	None	9480	None	None	27219367	27224235	1	None	TSSP
6	PRSS16	ENSG00000112812	ENST00000468138	processed_transcript	KNOWN	None	9480	None	None	27219399	27223098	1	None	TSSP
6	PRSS16	ENSG00000112812	ENST00000471463	processed_transcript	KNOWN	None	9480	None	None	27219441	27223160	1	None	TSSP
6	PRSS16	ENSG00000112812	ENST00000485603	retained_intron	KNOWN	None	9480	None	None	27220765	27224403	1	None	TSSP
4	PRMT10	ENSG00000164169	ENST00000322396	protein_coding	KNOWN	CCDS3771	25099	2538	845	148558936	148605381	-1	None	FLJ46629
4	PRMT10	ENSG00000164169	ENST00000510269	retained_intron	KNOWN	None	25099	None	None	148559536	148582469	-1	None	FLJ46629
4	PRMT10	ENSG00000164169	ENST00000514886	nonsense_mediated_decay	KNOWN	None	25099	201	66	148559536	148605276	-1	None	FLJ46629
4	PRMT10	ENSG00000164169	ENST00000511687	retained_intron	KNOWN	None	25099	None	None	148559832	148560444	-1	None	FLJ46629
4	PRMT10	ENSG00000164169	ENST00000541232	protein_coding	KNOWN	None	25099	2199	732	148559536	148605276	-1	None	FLJ46629
19	MAP2K2	ENSG00000126934	ENST00000262948	protein_coding	KNOWN	CCDS12120	6842	1203	400	4090319	4124126	-1	PRKMK2	MEK2
19	MAP2K2	ENSG00000126934	ENST00000600584	retained_intron	KNOWN	None	6842	None	None	4090322	4100677	-1	PRKMK2	MEK2
19	MAP2K2	ENSG00000126934	ENST00000601786	retained_intron	KNOWN	None	6842	None	None	4090322	4103202	-1	PRKMK2	MEK2
19	MAP2K2	ENSG00000126934	ENST00000597263	processed_transcript	KNOWN	None	6842	None	None	4090432	4101270	-1	PRKMK2	MEK2
19	MAP2K2	ENSG00000126934	ENST00000599021	protein_coding	PUTATIVE	None	6842	313	103	4090595	4101045	-1	PRKMK2	MEK2
19	MAP2K2	ENSG00000126934	ENST00000595715	processed_transcript	KNOWN	None	6842	None	None	4095386	4100070	-1	PRKMK2	MEK2
19	MAP2K2	ENSG00000126934	ENST00000593364	processed_transcript	KNOWN	None	6842	None	None	4099193	4103211	-1	PRKMK2	MEK2
19	MAP2K2	ENSG00000126934	ENST00000602167	processed_transcript	KNOWN	None	6842	None	None	4099407	4104790	-1	PRKMK2	MEK2
19	MAP2K2	ENSG00000126934	ENST00000597008	retained_intron	KNOWN	None	6842	None	None	4100457	4102502	-1	PRKMK2	MEK2
19	MAP2K2	ENSG00000126934	ENST00000599345	processed_transcript	KNOWN	None	6842	None	None	4101069	4124069	-1	PRKMK2	MEK2
19	MAP2K2	ENSG00000126934	ENST00000394867	protein_coding	KNOWN	None	6842	912	303	4090331	4124114	-1	PRKMK2	MEK2
10	CCSER2	ENSG00000107771	ENST00000359979	protein_coding	PUTATIVE	None	29197	1704	567	86088342	86133761	1	KIAA1128, FAM190B	None
10	CCSER2	ENSG00000107771	ENST00000224756	protein_coding	KNOWN	CCDS31235	29197	2505	834	86088419	86278273	1	KIAA1128, FAM190B	None
10	CCSER2	ENSG00000107771	ENST00000494144	processed_transcript	KNOWN	None	29197	None	None	86153609	86274161	1	KIAA1128, FAM190B	None
10	CCSER2	ENSG00000107771	ENST00000494586	processed_transcript	KNOWN	None	29197	None	None	86184703	86223701	1	KIAA1128, FAM190B	None
10	CCSER2	ENSG00000107771	ENST00000493409	processed_transcript	KNOWN	None	29197	None	None	86184938	86273417	1	KIAA1128, FAM190B	None
10	CCSER2	ENSG00000107771	ENST00000498300	processed_transcript	KNOWN	None	29197	None	None	86198299	86273458	1	KIAA1128, FAM190B	None
10	CCSER2	ENSG00000107771	ENST00000466105	processed_transcript	KNOWN	None	29197	None	None	86211973	86273452	1	KIAA1128, FAM190B	None
10	CCSER2	ENSG00000107771	ENST00000480006	processed_transcript	KNOWN	None	29197	None	None	86211973	86273626	1	KIAA1128, FAM190B	None
10	CCSER2	ENSG00000107771	ENST00000372088	protein_coding	KNOWN	None	29197	3144	1047	86088419	86274162	1	KIAA1128, FAM190B	None
10	CCSER2	ENSG00000107771	ENST00000543283	protein_coding	KNOWN	None	29197	786	261	86184695	86273323	1	KIAA1128, FAM190B	None
4	ARHGAP10	ENSG00000071205	ENST00000510379	retained_intron	KNOWN	None	26099	None	None	148653214	148779639	1	None	FLJ20896, FLJ41791, GRAF2
4	ARHGAP10	ENSG00000071205	ENST00000336498	protein_coding	KNOWN	CCDS34075	26099	2361	786	148653214	148993931	1	None	FLJ20896, FLJ41791, GRAF2
4	ARHGAP10	ENSG00000071205	ENST00000506054	retained_intron	KNOWN	None	26099	None	None	148782134	148993927	1	None	FLJ20896, FLJ41791, GRAF2
4	ARHGAP10	ENSG00000071205	ENST00000507661	protein_coding	PUTATIVE	None	26099	1240	412	148803018	148993926	1	None	FLJ20896, FLJ41791, GRAF2
4	ARHGAP10	ENSG00000071205	ENST00000506020	retained_intron	KNOWN	None	26099	None	None	148867390	148993927	1	None	FLJ20896, FLJ41791, GRAF2
4	ARHGAP10	ENSG00000071205	ENST00000513548	retained_intron	KNOWN	None	26099	None	None	148944205	148984428	1	None	FLJ20896, FLJ41791, GRAF2
4	ARHGAP10	ENSG00000071205	ENST00000510076	processed_transcript	PUTATIVE	None	26099	None	None	148986391	148993527	1	None	FLJ20896, FLJ41791, GRAF2
4	ARHGAP10	ENSG00000071205	ENST00000414545	protein_coding	KNOWN	None	26099	1155	384	148803018	148993926	1	None	FLJ20896, FLJ41791, GRAF2
16	None	ENSG00000234719	ENST00000399147	protein_coding	PUTATIVE	None	None	1194	397	12021230	12035902	-1	None	None
16	None	ENSG00000234719	ENST00000540412	retained_intron	KNOWN	None	None	None	None	12021452	12023200	-1	None	None
16	None	ENSG00000234719	ENST00000547494	protein_coding	PUTATIVE	None	None	921	306	12021452	12035902	-1	None	None
16	None	ENSG00000234719	ENST00000356023	retained_intron	KNOWN	None	None	None	None	12022838	12023494	-1	None	None
16	None	ENSG00000234719	ENST00000538896	protein_coding	PUTATIVE	None	None	107	34	12024370	12070491	-1	None	None
16	None	ENSG00000234719	ENST00000532936	processed_transcript	KNOWN	None	None	None	None	12027480	12070500	-1	None	None
10	GRID1	ENSG00000182771	ENST00000327946	protein_coding	KNOWN	CCDS31236	4575	3030	1009	87359312	88126235	-1	None	GluD1, KIAA1220
10	GRID1	ENSG00000182771	ENST00000552278	processed_transcript	KNOWN	None	4575	None	None	87361750	87372890	-1	None	GluD1, KIAA1220
10	GRID1	ENSG00000182771	ENST00000464741	nonsense_mediated_decay	KNOWN	None	4575	2268	755	87361751	88126250	-1	None	GluD1, KIAA1220
10	GRID1	ENSG00000182771	ENST00000536331	protein_coding	KNOWN	None	4575	1743	580	87361734	87551316	-1	None	GluD1, KIAA1220
19	CREB3L3	ENSG00000060566	ENST00000078445	protein_coding	KNOWN	CCDS12121	18855	1386	461	4153598	4173051	1	None	CREB-H
19	CREB3L3	ENSG00000060566	ENST00000595923	protein_coding	NOVEL	None	18855	1383	460	4153637	4171966	1	None	CREB-H
19	CREB3L3	ENSG00000060566	ENST00000602257	protein_coding	NOVEL	None	18855	1380	459	4153665	4171981	1	None	CREB-H
19	CREB3L3	ENSG00000060566	ENST00000602147	protein_coding	PUTATIVE	None	18855	1014	337	4153665	4171989	1	None	CREB-H
19	CREB3L3	ENSG00000060566	ENST00000598894	retained_intron	KNOWN	None	18855	None	None	4164440	4171660	1	None	CREB-H
19	CREB3L3	ENSG00000060566	ENST00000252587	protein_coding	KNOWN	None	18855	900	299	4153629	4173050	1	None	CREB-H
5	TRIM23	ENSG00000113595	ENST00000231524	protein_coding	KNOWN	CCDS3987	660	1725	574	64885507	64920473	-1	ARFD1	ARD1, RNF46
5	TRIM23	ENSG00000113595	ENST00000381018	protein_coding	KNOWN	CCDS43322	660	1710	569	64886003	64920123	-1	ARFD1	ARD1, RNF46
5	TRIM23	ENSG00000113595	ENST00000274327	protein_coding	KNOWN	CCDS3986	660	1641	546	64886003	64920126	-1	ARFD1	ARD1, RNF46
5	TRIM23	ENSG00000113595	ENST00000508808	processed_transcript	PUTATIVE	None	660	None	None	64902743	64906701	-1	ARFD1	ARD1, RNF46
5	TRIM23	ENSG00000113595	ENST00000506400	nonsense_mediated_decay	KNOWN	None	660	105	34	64906689	64920147	-1	ARFD1	ARD1, RNF46
5	TRIM23	ENSG00000113595	ENST00000505205	nonsense_mediated_decay	KNOWN	None	660	381	126	64907497	64920187	-1	ARFD1	ARD1, RNF46
5	TRIM23	ENSG00000113595	ENST00000513794	protein_coding	KNOWN	None	660	105	34	64914059	64921802	-1	ARFD1	ARD1, RNF46
16	TNFRSF17	ENSG00000048462	ENST00000053243	protein_coding	KNOWN	CCDS10552	11913	555	184	12058964	12061925	1	BCMA	BCM, CD269, TNFRSF13A
16	TNFRSF17	ENSG00000048462	ENST00000396495	protein_coding	NOVEL	None	11913	408	135	12059070	12061852	1	BCMA	BCM, CD269, TNFRSF13A
16	TNFRSF17	ENSG00000048462	ENST00000562385	protein_coding	PUTATIVE	None	11913	401	132	12059207	12061561	1	BCMA	BCM, CD269, TNFRSF13A
16	None	ENSG00000269121	ENST00000597717	protein_coding	NOVEL	None	None	147	48	12062000	12062333	-1	None	None
16	SNX29	ENSG00000048471	ENST00000569801	nonsense_mediated_decay	KNOWN	None	30542	291	96	12070594	12136854	1	RUNDC2A	FLJ12363
16	SNX29	ENSG00000048471	ENST00000566228	protein_coding	PUTATIVE	CCDS10553	30542	2442	813	12070595	12668146	1	RUNDC2A	FLJ12363
16	SNX29	ENSG00000048471	ENST00000564111	retained_intron	KNOWN	None	30542	None	None	12070602	12147141	1	RUNDC2A	FLJ12363
16	SNX29	ENSG00000048471	ENST00000568949	retained_intron	KNOWN	None	30542	None	None	12094182	12121590	1	RUNDC2A	FLJ12363
16	SNX29	ENSG00000048471	ENST00000568359	processed_transcript	KNOWN	None	30542	None	None	12132567	12145725	1	RUNDC2A	FLJ12363
16	SNX29	ENSG00000048471	ENST00000563308	protein_coding	PUTATIVE	None	30542	527	174	12146055	12229594	1	RUNDC2A	FLJ12363
16	SNX29	ENSG00000048471	ENST00000564791	protein_coding	PUTATIVE	None	30542	849	282	12223554	12621254	1	RUNDC2A	FLJ12363
16	SNX29	ENSG00000048471	ENST00000562510	protein_coding	PUTATIVE	None	30542	210	69	12450110	12537222	1	RUNDC2A	FLJ12363
16	SNX29	ENSG00000048471	ENST00000306030	protein_coding	KNOWN	None	30542	1287	428	12146055	12668145	1	RUNDC2A	FLJ12363
16	SNX29	ENSG00000048471	ENST00000323433	protein_coding	KNOWN	None	30542	1227	408	12146055	12620470	1	RUNDC2A	FLJ12363
6	POM121L2	ENSG00000158553	ENST00000429945	protein_coding	PUTATIVE	None	13973	279	92	27253682	27279091	-1	None	POM121-L
6	POM121L2	ENSG00000158553	ENST00000444565	protein_coding	KNOWN	CCDS59497	13973	3108	1035	27276842	27279949	-1	None	POM121-L
6	POM121L2	ENSG00000158553	ENST00000377451	protein_coding	KNOWN	None	13973	2916	971	27276842	27279949	-1	None	POM121-L
9	CNTRL	ENSG00000119397	ENST00000373865	protein_coding	NOVEL	None	1858	1381	459	123837141	123880849	1	CEP1, CEP110	None
9	CNTRL	ENSG00000119397	ENST00000373855	protein_coding	KNOWN	CCDS35118	1858	6978	2325	123837290	123939886	1	CEP1, CEP110	None
9	CNTRL	ENSG00000119397	ENST00000468952	processed_transcript	KNOWN	None	1858	None	None	123873341	123875969	1	CEP1, CEP110	None
9	CNTRL	ENSG00000119397	ENST00000373851	retained_intron	KNOWN	None	1858	None	None	123874737	123912932	1	CEP1, CEP110	None
9	CNTRL	ENSG00000119397	ENST00000373850	protein_coding	NOVEL	None	1858	5322	1773	123880747	123939888	1	CEP1, CEP110	None
9	CNTRL	ENSG00000119397	ENST00000373847	protein_coding	NOVEL	None	1858	2985	994	123884079	123920392	1	CEP1, CEP110	None
9	CNTRL	ENSG00000119397	ENST00000431571	protein_coding	NOVEL	None	1858	1039	345	123906331	123922523	1	CEP1, CEP110	None
9	CNTRL	ENSG00000119397	ENST00000373845	processed_transcript	KNOWN	None	1858	None	None	123914321	123939888	1	CEP1, CEP110	None
9	CNTRL	ENSG00000119397	ENST00000373844	protein_coding	NOVEL	None	1858	438	145	123920121	123923783	1	CEP1, CEP110	None
9	CNTRL	ENSG00000119397	ENST00000491018	processed_transcript	KNOWN	None	1858	None	None	123920864	123923783	1	CEP1, CEP110	None
9	CNTRL	ENSG00000119397	ENST00000238341	protein_coding	KNOWN	CCDS35118	1858	6978	2325	123850574	123939886	1	CEP1, CEP110	None
6	ZNF391	ENSG00000124613	ENST00000477999	processed_transcript	KNOWN	None	18779	None	None	27342394	27367327	1	None	dJ153G14.3
6	ZNF391	ENSG00000124613	ENST00000244576	protein_coding	KNOWN	CCDS43429	18779	1077	358	27356497	27371683	1	None	dJ153G14.3
6	ZNF391	ENSG00000124613	ENST00000482767	processed_transcript	KNOWN	None	18779	None	None	27356683	27358911	1	None	dJ153G14.3
6	ZNF391	ENSG00000124613	ENST00000461521	protein_coding	KNOWN	None	18779	399	132	27356771	27368548	1	None	dJ153G14.3
10	WAPAL	ENSG00000062650	ENST00000484070	processed_transcript	KNOWN	None	23293	None	None	88195013	88203789	-1	KIAA0261	FOE, WAPL
10	WAPAL	ENSG00000062650	ENST00000298767	protein_coding	KNOWN	CCDS7375	23293	3573	1190	88195013	88281572	-1	KIAA0261	FOE, WAPL
10	WAPAL	ENSG00000062650	ENST00000372075	protein_coding	KNOWN	None	23293	1209	402	88196767	88227265	-1	KIAA0261	FOE, WAPL
10	WAPAL	ENSG00000062650	ENST00000495124	processed_transcript	KNOWN	None	23293	None	None	88211774	88213638	-1	KIAA0261	FOE, WAPL
10	WAPAL	ENSG00000062650	ENST00000489996	processed_transcript	KNOWN	None	23293	None	None	88226810	88232044	-1	KIAA0261	FOE, WAPL
10	WAPAL	ENSG00000062650	ENST00000263070	protein_coding	KNOWN	None	23293	1209	402	88196770	88230766	-1	KIAA0261	FOE, WAPL
19	SIRT6	ENSG00000077463	ENST00000599365	nonsense_mediated_decay	KNOWN	None	14934	132	43	4174106	4182541	-1	None	None
19	SIRT6	ENSG00000077463	ENST00000601488	protein_coding	PUTATIVE	None	14934	564	187	4174106	4182544	-1	None	None
19	SIRT6	ENSG00000077463	ENST00000305232	protein_coding	KNOWN	CCDS54199	14934	987	328	4174106	4182547	-1	None	None
19	SIRT6	ENSG00000077463	ENST00000337491	protein_coding	KNOWN	CCDS12122	14934	1068	355	4174106	4182601	-1	None	None
19	SIRT6	ENSG00000077463	ENST00000600938	nonsense_mediated_decay	KNOWN	None	14934	132	43	4174107	4182562	-1	None	None
19	SIRT6	ENSG00000077463	ENST00000594279	protein_coding	PUTATIVE	None	14934	531	176	4174138	4182276	-1	None	None
19	SIRT6	ENSG00000077463	ENST00000596119	retained_intron	KNOWN	None	14934	None	None	4174617	4182527	-1	None	None
19	SIRT6	ENSG00000077463	ENST00000597896	protein_coding	NOVEL	None	14934	827	274	4174633	4182497	-1	None	None
19	SIRT6	ENSG00000077463	ENST00000595670	retained_intron	KNOWN	None	14934	None	None	4174701	4182531	-1	None	None
19	SIRT6	ENSG00000077463	ENST00000600540	retained_intron	KNOWN	None	14934	None	None	4174701	4182562	-1	None	None
19	SIRT6	ENSG00000077463	ENST00000601571	protein_coding	PUTATIVE	None	14934	561	186	4174858	4182530	-1	None	None
19	SIRT6	ENSG00000077463	ENST00000601069	retained_intron	KNOWN	None	14934	None	None	4174875	4182563	-1	None	None
19	SIRT6	ENSG00000077463	ENST00000596298	retained_intron	KNOWN	None	14934	None	None	4175569	4182531	-1	None	None
19	SIRT6	ENSG00000077463	ENST00000599394	retained_intron	KNOWN	None	14934	None	None	4175788	4179500	-1	None	None
19	SIRT6	ENSG00000077463	ENST00000594341	retained_intron	KNOWN	None	14934	None	None	4180609	4182543	-1	None	None
19	SIRT6	ENSG00000077463	ENST00000381935	protein_coding	KNOWN	None	14934	852	283	4174107	4182562	-1	None	None
6	ZNF184	ENSG00000096654	ENST00000377419	protein_coding	KNOWN	CCDS4624	12975	2256	751	27418599	27440460	-1	None	None
6	ZNF184	ENSG00000096654	ENST00000211936	protein_coding	KNOWN	CCDS4624	12975	2256	751	27418522	27440897	-1	None	None
5	TRAPPC13	ENSG00000113597	ENST00000399438	protein_coding	KNOWN	CCDS47222	25828	1254	417	64920543	64962060	1	C5orf44	FLJ13611, FLJ26957, MGC48585
5	TRAPPC13	ENSG00000113597	ENST00000512009	retained_intron	KNOWN	None	25828	None	None	64920831	64961901	1	C5orf44	FLJ13611, FLJ26957, MGC48585
5	TRAPPC13	ENSG00000113597	ENST00000438419	protein_coding	NOVEL	CCDS47221	25828	1257	418	64920861	64960591	1	C5orf44	FLJ13611, FLJ26957, MGC48585
5	TRAPPC13	ENSG00000113597	ENST00000231526	protein_coding	KNOWN	CCDS47223	25828	1236	411	64920867	64961896	1	C5orf44	FLJ13611, FLJ26957, MGC48585
5	TRAPPC13	ENSG00000113597	ENST00000504751	nonsense_mediated_decay	KNOWN	None	25828	246	81	64920872	64954309	1	C5orf44	FLJ13611, FLJ26957, MGC48585
5	TRAPPC13	ENSG00000113597	ENST00000505553	protein_coding	KNOWN	CCDS58950	25828	1239	412	64920872	64960593	1	C5orf44	FLJ13611, FLJ26957, MGC48585
5	TRAPPC13	ENSG00000113597	ENST00000508304	retained_intron	KNOWN	None	25828	None	None	64920896	64948563	1	C5orf44	FLJ13611, FLJ26957, MGC48585
5	TRAPPC13	ENSG00000113597	ENST00000504243	nonsense_mediated_decay	KNOWN	None	25828	161	52	64931167	64956640	1	C5orf44	FLJ13611, FLJ26957, MGC48585
5	TRAPPC13	ENSG00000113597	ENST00000520525	retained_intron	KNOWN	None	25828	None	None	64951461	64956914	1	C5orf44	FLJ13611, FLJ26957, MGC48585
5	TRAPPC13	ENSG00000113597	ENST00000509234	retained_intron	KNOWN	None	25828	None	None	64953798	64960208	1	C5orf44	FLJ13611, FLJ26957, MGC48585
5	TRAPPC13	ENSG00000113597	ENST00000505108	retained_intron	KNOWN	None	25828	None	None	64957543	64960591	1	C5orf44	FLJ13611, FLJ26957, MGC48585
5	TRAPPC13	ENSG00000113597	ENST00000415825	retained_intron	KNOWN	None	25828	None	None	64959946	64960593	1	C5orf44	FLJ13611, FLJ26957, MGC48585
5	TRAPPC13	ENSG00000113597	ENST00000545191	protein_coding	KNOWN	None	25828	1260	419	64920872	64961892	1	C5orf44	FLJ13611, FLJ26957, MGC48585
4	NR3C2	ENSG00000151623	ENST00000344721	protein_coding	KNOWN	CCDS3772	7979	2955	984	148999913	149365850	-1	MLR	MR
4	NR3C2	ENSG00000151623	ENST00000358102	protein_coding	KNOWN	CCDS3772	7979	2955	984	148999920	149363672	-1	MLR	MR
4	NR3C2	ENSG00000151623	ENST00000512865	protein_coding	KNOWN	CCDS54811	7979	2604	867	149001344	149363376	-1	MLR	MR
4	NR3C2	ENSG00000151623	ENST00000342437	protein_coding	KNOWN	None	7979	2121	706	149002018	149363523	-1	MLR	MR
4	NR3C2	ENSG00000151623	ENST00000511528	protein_coding	PUTATIVE	None	7979	2967	988	149002495	149358012	-1	MLR	MR
4	NR3C2	ENSG00000151623	ENST00000503313	processed_transcript	PUTATIVE	None	7979	None	None	149067739	149122283	-1	MLR	MR
4	NR3C2	ENSG00000151623	ENST00000503174	retained_intron	KNOWN	None	7979	None	None	149073568	149075995	-1	MLR	MR
4	NR3C2	ENSG00000151623	ENST00000504753	processed_transcript	PUTATIVE	None	7979	None	None	149115922	149289622	-1	MLR	MR
4	NR3C2	ENSG00000151623	ENST00000355292	protein_coding	KNOWN	None	7979	2967	988	148999916	149363672	-1	MLR	MR
6	HIST1H2BL	ENSG00000185130	ENST00000377401	protein_coding	KNOWN	CCDS4625	4748	381	126	27775257	27775709	-1	H2BFC	H2B/c, dJ97D16.4
16	None	ENSG00000175604	ENST00000312019	protein_coding	PUTATIVE	None	None	585	194	12180603	12184159	-1	None	None
6	HIST1H2AI	ENSG00000196747	ENST00000358739	protein_coding	KNOWN	CCDS4626	4725	393	130	27775899	27776429	1	H2AFC	H2A/c
16	CPPED1	ENSG00000103381	ENST00000381774	protein_coding	KNOWN	CCDS42120	25632	945	314	12756919	12897874	-1	None	CSTP1, FLJ11151
16	CPPED1	ENSG00000103381	ENST00000433677	protein_coding	KNOWN	CCDS42119	25632	519	172	12757344	12897708	-1	None	CSTP1, FLJ11151
16	CPPED1	ENSG00000103381	ENST00000261660	protein_coding	PUTATIVE	None	25632	369	122	12757344	12897708	-1	None	CSTP1, FLJ11151
16	CPPED1	ENSG00000103381	ENST00000539677	retained_intron	KNOWN	None	25632	None	None	12874831	12897701	-1	None	CSTP1, FLJ11151
6	HIST1H3H	ENSG00000203813	ENST00000369163	protein_coding	KNOWN	CCDS4627	4775	411	136	27777842	27778314	1	H3FK	H3/k, H3F1K
6	HIST1H2AJ	ENSG00000182611	ENST00000333151	protein_coding	KNOWN	CCDS4628	4727	387	128	27782112	27782607	-1	H2AFE	H2A/E
6	HIST1H2BM	ENSG00000196374	ENST00000359465	protein_coding	KNOWN	CCDS4629	4750	381	126	27782822	27783267	1	H2BFE	H2B/e, dJ160A22.3
16	SHISA9	ENSG00000237515	ENST00000424107	protein_coding	KNOWN	CCDS45417	37231	1275	424	12995477	13329566	1	None	None
16	SHISA9	ENSG00000237515	ENST00000423335	protein_coding	KNOWN	CCDS45418	37231	666	221	12995614	13005507	1	None	None
16	SHISA9	ENSG00000237515	ENST00000482916	processed_transcript	KNOWN	None	37231	None	None	12996736	13002767	1	None	None
16	SHISA9	ENSG00000237515	ENST00000566106	processed_transcript	KNOWN	None	37231	None	None	13176237	13329150	1	None	None
16	SHISA9	ENSG00000237515	ENST00000558583	protein_coding	KNOWN	None	37231	1398	465	12995477	13334272	1	None	None
16	SHISA9	ENSG00000237515	ENST00000558318	protein_coding	KNOWN	None	37231	789	262	12995477	13005507	1	None	None
6	HIST1H4J	ENSG00000197238	ENST00000355057	protein_coding	KNOWN	CCDS4630	4785	312	103	27791884	27792257	1	H4FE	H4/e, H4F2iv
6	HIST1H4K	ENSG00000197914	ENST00000357549	protein_coding	KNOWN	CCDS4631	4784	312	103	27798952	27799305	-1	H4FD	H4/d, H4F2iii, dJ160A22.1
6	HIST1H2BN	ENSG00000233822	ENST00000449538	nonsense_mediated_decay	KNOWN	CCDS4633	4749	381	126	27806323	27819982	1	H2BFD	H2B/d
6	HIST1H2BN	ENSG00000233822	ENST00000606613	protein_coding	PUTATIVE	None	4749	501	166	27806379	27823487	1	H2BFD	H2B/d
6	HIST1H2BN	ENSG00000233822	ENST00000396980	protein_coding	KNOWN	CCDS4633	4749	381	126	27806440	27806888	1	H2BFD	H2B/d
6	HIST1H2AK	ENSG00000184348	ENST00000330180	protein_coding	KNOWN	CCDS4632	4726	393	130	27805658	27806117	-1	H2AFD	H2A/d
16	ERCC4	ENSG00000175595	ENST00000575156	protein_coding	NOVEL	None	3436	1119	372	14014014	14027104	1	XPF	RAD1, FANCQ
16	ERCC4	ENSG00000175595	ENST00000311895	protein_coding	KNOWN	CCDS32390	3436	2751	916	14014014	14046202	1	XPF	RAD1, FANCQ
16	ERCC4	ENSG00000175595	ENST00000576348	retained_intron	KNOWN	None	3436	None	None	14014048	14020658	1	XPF	RAD1, FANCQ
16	ERCC4	ENSG00000175595	ENST00000574194	nonsense_mediated_decay	KNOWN	None	3436	227	74	14020409	14026096	1	XPF	RAD1, FANCQ
16	ERCC4	ENSG00000175595	ENST00000574781	processed_transcript	KNOWN	None	3436	None	None	14021307	14024735	1	XPF	RAD1, FANCQ
16	ERCC4	ENSG00000175595	ENST00000389138	retained_intron	KNOWN	None	3436	None	None	14025883	14042282	1	XPF	RAD1, FANCQ
16	ERCC4	ENSG00000175595	ENST00000573018	retained_intron	KNOWN	None	3436	None	None	14027879	14029244	1	XPF	RAD1, FANCQ
16	ERCC4	ENSG00000175595	ENST00000462862	nonsense_mediated_decay	KNOWN	None	3436	108	35	14031621	14041861	1	XPF	RAD1, FANCQ
10	OPN4	ENSG00000122375	ENST00000241891	protein_coding	KNOWN	CCDS7376	14449	1437	478	88414374	88426212	1	None	MOP, melanopsin
10	OPN4	ENSG00000122375	ENST00000443292	protein_coding	PUTATIVE	None	14449	1486	494	88414374	88426605	1	None	MOP, melanopsin
10	OPN4	ENSG00000122375	ENST00000372071	protein_coding	KNOWN	CCDS31237	14449	1470	489	88414314	88426212	1	None	MOP, melanopsin
6	HIST1H2AL	ENSG00000198374	ENST00000357320	protein_coding	KNOWN	CCDS4634	4730	393	130	27833034	27833606	1	H2AFI	H2A/i, dJ193B12.9
6	HIST1H1B	ENSG00000184357	ENST00000331442	protein_coding	KNOWN	CCDS4635	4719	681	226	27834570	27835359	-1	H1F5	H1.5, H1b, H1s-3
4	DCLK2	ENSG00000170390	ENST00000296550	protein_coding	KNOWN	CCDS34076	19002	2301	766	150999426	151178609	1	DCAMKL2	MGC45428, DCDC3, DCDC3B, DCK2
4	DCLK2	ENSG00000170390	ENST00000411937	nonsense_mediated_decay	KNOWN	None	19002	2088	695	151000141	151178590	1	DCAMKL2	MGC45428, DCDC3, DCDC3B, DCK2
4	DCLK2	ENSG00000170390	ENST00000506325	protein_coding	KNOWN	None	19002	2298	765	151000180	151177399	1	DCAMKL2	MGC45428, DCDC3, DCDC3B, DCK2
4	DCLK2	ENSG00000170390	ENST00000302176	protein_coding	KNOWN	CCDS47142	19002	2352	783	151000180	151178590	1	DCAMKL2	MGC45428, DCDC3, DCDC3B, DCK2
4	DCLK2	ENSG00000170390	ENST00000507694	processed_transcript	KNOWN	None	19002	None	None	151096595	151119255	1	DCAMKL2	MGC45428, DCDC3, DCDC3B, DCK2
6	HIST1H3I	ENSG00000182572	ENST00000328488	protein_coding	KNOWN	CCDS4636	4771	411	136	27839623	27840099	-1	H3FF	H3/f, H3.f
6	HIST1H4L	ENSG00000198558	ENST00000355981	protein_coding	KNOWN	CCDS4637	4791	312	103	27840926	27841289	-1	H4FK	H4.k, H4/k
6	HIST1H3J	ENSG00000197153	ENST00000479986	processed_transcript	PUTATIVE	None	4774	None	None	27858413	27860884	-1	H3FJ	H3/j
6	HIST1H3J	ENSG00000197153	ENST00000359303	protein_coding	KNOWN	CCDS4638	4774	411	136	27858093	27858570	-1	H3FJ	H3/j
10	LDB3	ENSG00000122367	ENST00000372066	protein_coding	KNOWN	CCDS41545	15710	852	283	88428370	88459798	1	None	PDLIM6, KIAA0613, ZASP
10	LDB3	ENSG00000122367	ENST00000361373	protein_coding	KNOWN	CCDS7377	15710	2184	727	88428428	88495825	1	None	PDLIM6, KIAA0613, ZASP
10	LDB3	ENSG00000122367	ENST00000477489	retained_intron	KNOWN	None	15710	None	None	88478487	88486208	1	None	PDLIM6, KIAA0613, ZASP
10	LDB3	ENSG00000122367	ENST00000429277	protein_coding	KNOWN	CCDS53550	15710	2199	732	88428206	88495825	1	None	PDLIM6, KIAA0613, ZASP
10	LDB3	ENSG00000122367	ENST00000458213	protein_coding	KNOWN	CCDS41544	15710	1854	617	88428206	88495825	1	None	PDLIM6, KIAA0613, ZASP
10	LDB3	ENSG00000122367	ENST00000352360	protein_coding	KNOWN	None	15710	1413	470	88428206	88495825	1	None	PDLIM6, KIAA0613, ZASP
10	LDB3	ENSG00000122367	ENST00000263066	protein_coding	KNOWN	CCDS41544	15710	1854	617	88428426	88495822	1	None	PDLIM6, KIAA0613, ZASP
10	LDB3	ENSG00000122367	ENST00000372056	protein_coding	KNOWN	CCDS53549	15710	1197	398	88428426	88459810	1	None	PDLIM6, KIAA0613, ZASP
10	LDB3	ENSG00000122367	ENST00000310944	protein_coding	KNOWN	CCDS44450	15710	993	330	88428426	88459810	1	None	PDLIM6, KIAA0613, ZASP
10	LDB3	ENSG00000122367	ENST00000542786	protein_coding	KNOWN	None	15710	696	231	88428449	88459800	1	None	PDLIM6, KIAA0613, ZASP
6	HIST1H2AM	ENSG00000233224	ENST00000359611	protein_coding	KNOWN	CCDS4639	4735	393	130	27860477	27860963	-1	H2AFN	H2A/n, H2A.1
6	HIST1H2BO	ENSG00000196331	ENST00000303806	protein_coding	KNOWN	CCDS4640	4758	381	126	27861203	27861669	1	H2BFN	H2B/n, H2B.2
6	OR2B2	ENSG00000168131	ENST00000303324	protein_coding	KNOWN	CCDS4641	13966	1074	357	27878963	27880174	-1	OR2B9	hs6M1-10, OR6-1, OR2B2Q
16	MKL2	ENSG00000186260	ENST00000574998	protein_coding	KNOWN	None	29819	210	69	14165178	14304155	1	None	MRTF-B, FLJ31823
16	MKL2	ENSG00000186260	ENST00000572400	retained_intron	KNOWN	None	29819	None	None	14165179	14238642	1	None	MRTF-B, FLJ31823
16	MKL2	ENSG00000186260	ENST00000571589	protein_coding	NOVEL	None	29819	3300	1099	14165179	14360628	1	None	MRTF-B, FLJ31823
16	MKL2	ENSG00000186260	ENST00000574045	protein_coding	KNOWN	CCDS32391	29819	3150	1049	14165196	14355305	1	None	MRTF-B, FLJ31823
16	MKL2	ENSG00000186260	ENST00000575537	processed_transcript	KNOWN	None	29819	None	None	14165201	14243393	1	None	MRTF-B, FLJ31823
16	MKL2	ENSG00000186260	ENST00000575833	processed_transcript	KNOWN	None	29819	None	None	14186694	14235386	1	None	MRTF-B, FLJ31823
16	MKL2	ENSG00000186260	ENST00000573434	protein_coding	PUTATIVE	None	29819	159	52	14234482	14264327	1	None	MRTF-B, FLJ31823
16	MKL2	ENSG00000186260	ENST00000575768	processed_transcript	KNOWN	None	29819	None	None	14234490	14308792	1	None	MRTF-B, FLJ31823
16	MKL2	ENSG00000186260	ENST00000572567	protein_coding	PUTATIVE	None	29819	1110	369	14280574	14335282	1	None	MRTF-B, FLJ31823
16	MKL2	ENSG00000186260	ENST00000573051	protein_coding	PUTATIVE	None	29819	1137	378	14294187	14335325	1	None	MRTF-B, FLJ31823
16	MKL2	ENSG00000186260	ENST00000572588	retained_intron	KNOWN	None	29819	None	None	14341268	14360630	1	None	MRTF-B, FLJ31823
16	MKL2	ENSG00000186260	ENST00000571770	nonsense_mediated_decay	KNOWN	None	29819	575	190	14351980	14356297	1	None	MRTF-B, FLJ31823
16	MKL2	ENSG00000186260	ENST00000318282	protein_coding	KNOWN	CCDS32391	29819	3150	1049	14173145	14360629	1	None	MRTF-B, FLJ31823
16	MKL2	ENSG00000186260	ENST00000341243	protein_coding	KNOWN	None	29819	3267	1088	14280772	14355499	1	None	MRTF-B, FLJ31823
6	OR2B6	ENSG00000124657	ENST00000244623	protein_coding	KNOWN	CCDS4642	8241	942	313	27925019	27925960	1	OR2B6P, OR2B1, OR2B1P, OR2B5	OR6-31, dJ408B20.2, OR5-40, OR5-41
5	None	ENSG00000253251	ENST00000510585	protein_coding	PUTATIVE	None	None	753	250	64920592	64926718	1	None	None
5	None	ENSG00000253251	ENST00000514404	processed_transcript	KNOWN	None	None	None	None	64921836	64925428	1	None	None
6	ZNF165	ENSG00000197279	ENST00000377325	protein_coding	KNOWN	CCDS4643	12953	1458	485	28048753	28057341	1	None	ZSCAN7, CT53
5	SGTB	ENSG00000197860	ENST00000381007	protein_coding	KNOWN	CCDS3988	23567	915	304	64961755	65017957	-1	None	Sgt2, FLJ39002
5	SGTB	ENSG00000197860	ENST00000506816	protein_coding	KNOWN	None	23567	586	194	64976515	65018862	-1	None	Sgt2, FLJ39002
6	ZSCAN16	ENSG00000196812	ENST00000340487	protein_coding	KNOWN	CCDS4644	20813	1047	348	28092338	28097860	1	ZNF392, ZNF435	FLJ22191, dJ265C24.3
19	ANKRD24	ENSG00000089847	ENST00000600132	protein_coding	KNOWN	CCDS45925	29424	3441	1146	4183351	4224811	1	None	KIAA1981
19	ANKRD24	ENSG00000089847	ENST00000597689	protein_coding	NOVEL	None	29424	2519	838	4186418	4217763	1	None	KIAA1981
19	ANKRD24	ENSG00000089847	ENST00000262970	protein_coding	NOVEL	None	29424	3711	1236	4198137	4224502	1	None	KIAA1981
19	ANKRD24	ENSG00000089847	ENST00000595928	nonsense_mediated_decay	KNOWN	None	29424	491	162	4198408	4207901	1	None	KIAA1981
19	ANKRD24	ENSG00000089847	ENST00000595096	processed_transcript	KNOWN	None	29424	None	None	4208960	4216570	1	None	KIAA1981
19	ANKRD24	ENSG00000089847	ENST00000318934	protein_coding	KNOWN	CCDS45925	29424	3441	1146	4186267	4224811	1	None	KIAA1981
6	ZKSCAN8	ENSG00000198315	ENST00000606198	nonsense_mediated_decay	KNOWN	None	12983	477	158	28109688	28121889	1	ZNF192	LD5-1, ZSCAN40
6	ZKSCAN8	ENSG00000198315	ENST00000457389	protein_coding	KNOWN	CCDS4645	12983	1737	578	28109716	28121851	1	ZNF192	LD5-1, ZSCAN40
6	ZKSCAN8	ENSG00000198315	ENST00000330236	protein_coding	KNOWN	CCDS4645	12983	1737	578	28109716	28127250	1	ZNF192	LD5-1, ZSCAN40
6	ZKSCAN8	ENSG00000198315	ENST00000536028	nonsense_mediated_decay	KNOWN	None	12983	477	158	28109989	28120857	1	ZNF192	LD5-1, ZSCAN40
5	NLN	ENSG00000123213	ENST00000380985	protein_coding	KNOWN	CCDS3989	16058	2115	704	65018023	65125111	1	AGTBP	KIAA1226
5	NLN	ENSG00000123213	ENST00000502464	protein_coding	PUTATIVE	None	16058	1803	600	65018070	65125111	1	AGTBP	KIAA1226
5	NLN	ENSG00000123213	ENST00000514991	nonsense_mediated_decay	KNOWN	None	16058	147	48	65018074	65058816	1	AGTBP	KIAA1226
5	NLN	ENSG00000123213	ENST00000506539	retained_intron	KNOWN	None	16058	None	None	65018085	65089476	1	AGTBP	KIAA1226
5	NLN	ENSG00000123213	ENST00000506799	retained_intron	KNOWN	None	16058	None	None	65073244	65119153	1	AGTBP	KIAA1226
5	NLN	ENSG00000123213	ENST00000506677	retained_intron	KNOWN	None	16058	None	None	65075855	65081887	1	AGTBP	KIAA1226
5	NLN	ENSG00000123213	ENST00000511299	protein_coding	PUTATIVE	None	16058	1245	414	65077243	65119156	1	AGTBP	KIAA1226
5	NLN	ENSG00000123213	ENST00000509935	protein_coding	PUTATIVE	None	16058	852	283	65084190	65167553	1	AGTBP	KIAA1226
5	NLN	ENSG00000123213	ENST00000507201	processed_transcript	KNOWN	None	16058	None	None	65104953	65108098	1	AGTBP	KIAA1226
5	NLN	ENSG00000123213	ENST00000515595	processed_transcript	PUTATIVE	None	16058	None	None	65114549	65119065	1	AGTBP	KIAA1226
4	LRBA	ENSG00000198589	ENST00000510413	protein_coding	NOVEL	CCDS58928	1742	8556	2851	151185683	151936419	-1	CDC4L	BGL, LAB300, LBA
4	LRBA	ENSG00000198589	ENST00000515096	retained_intron	KNOWN	None	1742	None	None	151185811	151232521	-1	CDC4L	BGL, LAB300, LBA
4	LRBA	ENSG00000198589	ENST00000503716	processed_transcript	KNOWN	None	1742	None	None	151185811	151502874	-1	CDC4L	BGL, LAB300, LBA
4	LRBA	ENSG00000198589	ENST00000357115	protein_coding	KNOWN	CCDS3773	1742	8592	2863	151185811	151936649	-1	CDC4L	BGL, LAB300, LBA
4	LRBA	ENSG00000198589	ENST00000509835	protein_coding	NOVEL	None	1742	4517	1504	151185813	151770689	-1	CDC4L	BGL, LAB300, LBA
4	LRBA	ENSG00000198589	ENST00000510157	retained_intron	KNOWN	None	1742	None	None	151186178	151236786	-1	CDC4L	BGL, LAB300, LBA
4	LRBA	ENSG00000198589	ENST00000508606	protein_coding	PUTATIVE	None	1742	443	146	151186718	151223863	-1	CDC4L	BGL, LAB300, LBA
4	LRBA	ENSG00000198589	ENST00000507224	protein_coding	PUTATIVE	None	1742	7728	2575	151235875	151936429	-1	CDC4L	BGL, LAB300, LBA
4	LRBA	ENSG00000198589	ENST00000513021	processed_transcript	KNOWN	None	1742	None	None	151412109	151600819	-1	CDC4L	BGL, LAB300, LBA
4	LRBA	ENSG00000198589	ENST00000508396	processed_transcript	KNOWN	None	1742	None	None	151604755	151605115	-1	CDC4L	BGL, LAB300, LBA
4	LRBA	ENSG00000198589	ENST00000502839	protein_coding	PUTATIVE	None	1742	405	134	151761692	151770039	-1	CDC4L	BGL, LAB300, LBA
4	LRBA	ENSG00000198589	ENST00000514435	retained_intron	KNOWN	None	1742	None	None	151933957	151936436	-1	CDC4L	BGL, LAB300, LBA
4	LRBA	ENSG00000198589	ENST00000510841	retained_intron	KNOWN	None	1742	None	None	151933981	151936879	-1	CDC4L	BGL, LAB300, LBA
4	LRBA	ENSG00000198589	ENST00000535741	protein_coding	KNOWN	None	1742	8559	2852	151185594	151936879	-1	CDC4L	BGL, LAB300, LBA
6	ZSCAN9	ENSG00000137185	ENST00000531941	protein_coding	KNOWN	None	12984	123	40	28192664	28194985	1	ZNF193	PRD51
6	ZSCAN9	ENSG00000137185	ENST00000531981	protein_coding	PUTATIVE	None	12984	483	160	28193042	28195736	1	ZNF193	PRD51
6	ZSCAN9	ENSG00000137185	ENST00000425468	protein_coding	NOVEL	CCDS56407	12984	1338	445	28193053	28201244	1	ZNF193	PRD51
6	ZSCAN9	ENSG00000137185	ENST00000252207	protein_coding	KNOWN	CCDS4646	12984	1185	394	28193070	28201244	1	ZNF193	PRD51
6	ZSCAN9	ENSG00000137185	ENST00000531979	protein_coding	KNOWN	CCDS4646	12984	1185	394	28193070	28201260	1	ZNF193	PRD51
6	ZSCAN9	ENSG00000137185	ENST00000527436	protein_coding	PUTATIVE	None	12984	786	261	28193117	28197008	1	ZNF193	PRD51
6	ZSCAN9	ENSG00000137185	ENST00000526391	protein_coding	KNOWN	None	12984	593	196	28194699	28200364	1	ZNF193	PRD51
6	ZSCAN9	ENSG00000137185	ENST00000527844	protein_coding	NOVEL	None	12984	1109	368	28194790	28200793	1	ZNF193	PRD51
10	BMPR1A	ENSG00000107779	ENST00000372037	protein_coding	KNOWN	CCDS7378	1076	1599	532	88516407	88684945	1	ACVRLK3	ALK3, CD292
10	BMPR1A	ENSG00000107779	ENST00000480152	processed_transcript	KNOWN	None	1076	None	None	88598696	88649874	1	ACVRLK3	ALK3, CD292
19	EBI3	ENSG00000105246	ENST00000221847	protein_coding	KNOWN	CCDS12123	3129	690	229	4229495	4237528	1	None	None
19	EBI3	ENSG00000105246	ENST00000599339	retained_intron	KNOWN	None	3129	None	None	4233028	4234755	1	None	None
6	ZKSCAN4	ENSG00000187626	ENST00000377294	protein_coding	KNOWN	CCDS4647	13854	1638	545	28212401	28220002	-1	ZNF307, ZNF427	p373c6.1, P1P373C6, FLJ32136, ZSCAN36
6	ZKSCAN4	ENSG00000187626	ENST00000423974	protein_coding	KNOWN	None	13854	1173	390	28212692	28227011	-1	ZNF307, ZNF427	p373c6.1, P1P373C6, FLJ32136, ZSCAN36
19	CCDC94	ENSG00000105248	ENST00000262962	protein_coding	KNOWN	CCDS12124	25518	972	323	4247076	4269087	1	None	FLJ10374
19	CCDC94	ENSG00000105248	ENST00000596496	protein_coding	PUTATIVE	None	25518	482	159	4248012	4258420	1	None	FLJ10374
9	RAB14	ENSG00000119396	ENST00000373840	protein_coding	KNOWN	CCDS6827	16524	648	215	123940415	123964147	-1	None	FBP, RAB-14
9	RAB14	ENSG00000119396	ENST00000451303	protein_coding	KNOWN	None	16524	545	180	123943777	123985292	-1	None	FBP, RAB-14
10	MMRN2	ENSG00000173269	ENST00000372027	protein_coding	KNOWN	CCDS7379	19888	2850	949	88695297	88717372	-1	EMILIN3	EndoGlyx-1, FLJ13465
10	MMRN2	ENSG00000173269	ENST00000488950	processed_transcript	KNOWN	None	19888	None	None	88703628	88704328	-1	EMILIN3	EndoGlyx-1, FLJ13465
10	MMRN2	ENSG00000173269	ENST00000474994	protein_coding	PUTATIVE	None	19888	370	122	88704121	88729238	-1	EMILIN3	EndoGlyx-1, FLJ13465
10	MMRN2	ENSG00000173269	ENST00000440490	processed_transcript	KNOWN	None	19888	None	None	88725496	88728935	-1	EMILIN3	EndoGlyx-1, FLJ13465
10	MMRN2	ENSG00000173269	ENST00000418273	processed_transcript	KNOWN	None	19888	None	None	88725496	88729158	-1	EMILIN3	EndoGlyx-1, FLJ13465
6	NKAPL	ENSG00000189134	ENST00000343684	protein_coding	KNOWN	CCDS34353	21584	1209	402	28227098	28228736	1	C6orf194	bA424I5.1
16	PARN	ENSG00000140694	ENST00000437198	protein_coding	KNOWN	CCDS45419	8609	1920	639	14529558	14724124	-1	None	DAN
16	PARN	ENSG00000140694	ENST00000420015	protein_coding	NOVEL	CCDS58425	8609	1782	593	14530130	14724116	-1	None	DAN
16	PARN	ENSG00000140694	ENST00000341484	protein_coding	KNOWN	CCDS45420	8609	1737	578	14530462	14724133	-1	None	DAN
16	PARN	ENSG00000140694	ENST00000539279	protein_coding	NOVEL	None	8609	1395	464	14530525	14724095	-1	None	DAN
16	PARN	ENSG00000140694	ENST00000564882	processed_transcript	KNOWN	None	8609	None	None	14540814	14595546	-1	None	DAN
16	PARN	ENSG00000140694	ENST00000564904	processed_transcript	KNOWN	None	8609	None	None	14576495	14658932	-1	None	DAN
16	PARN	ENSG00000140694	ENST00000564113	processed_transcript	KNOWN	None	8609	None	None	14649511	14685934	-1	None	DAN
16	PARN	ENSG00000140694	ENST00000569444	protein_coding	NOVEL	None	8609	783	260	14649511	14704600	-1	None	DAN
16	PARN	ENSG00000140694	ENST00000563697	processed_transcript	KNOWN	None	8609	None	None	14649543	14678617	-1	None	DAN
16	PARN	ENSG00000140694	ENST00000562715	processed_transcript	KNOWN	None	8609	None	None	14669929	14678648	-1	None	DAN
16	PARN	ENSG00000140694	ENST00000563641	nonsense_mediated_decay	KNOWN	None	8609	198	65	14680175	14724117	-1	None	DAN
16	PARN	ENSG00000140694	ENST00000538472	nonsense_mediated_decay	KNOWN	None	8609	624	207	14693792	14724075	-1	None	DAN
16	PARN	ENSG00000140694	ENST00000563155	retained_intron	KNOWN	None	8609	None	None	14701964	14704556	-1	None	DAN
16	PARN	ENSG00000140694	ENST00000566021	processed_transcript	KNOWN	None	8609	None	None	14704522	14724108	-1	None	DAN
16	PARN	ENSG00000140694	ENST00000562896	protein_coding	PUTATIVE	None	8609	329	108	14721033	14726585	-1	None	DAN
6	PGBD1	ENSG00000137338	ENST00000259883	protein_coding	KNOWN	CCDS4648	19398	2430	809	28249349	28270326	1	None	HUCEP-4, dJ874C20.4, SCAND4
6	PGBD1	ENSG00000137338	ENST00000405948	protein_coding	KNOWN	CCDS4648	19398	2430	809	28249314	28270325	1	None	HUCEP-4, dJ874C20.4, SCAND4
5	ERBB2IP	ENSG00000112851	ENST00000284037	protein_coding	KNOWN	CCDS58953	15842	4239	1412	65222303	65378377	1	None	ERBIN, LAP2
5	ERBB2IP	ENSG00000112851	ENST00000380943	protein_coding	KNOWN	CCDS3990	15842	4116	1371	65222384	65376344	1	None	ERBIN, LAP2
5	ERBB2IP	ENSG00000112851	ENST00000507490	processed_transcript	KNOWN	None	15842	None	None	65222389	65280673	1	None	ERBIN, LAP2
5	ERBB2IP	ENSG00000112851	ENST00000416865	protein_coding	NOVEL	None	15842	1833	610	65222395	65374579	1	None	ERBIN, LAP2
5	ERBB2IP	ENSG00000112851	ENST00000380938	protein_coding	KNOWN	CCDS58954	15842	4041	1346	65222438	65374764	1	None	ERBIN, LAP2
5	ERBB2IP	ENSG00000112851	ENST00000511297	protein_coding	NOVEL	CCDS58951	15842	4104	1367	65222555	65374374	1	None	ERBIN, LAP2
5	ERBB2IP	ENSG00000112851	ENST00000506030	protein_coding	NOVEL	CCDS58952	15842	4260	1419	65222601	65374393	1	None	ERBIN, LAP2
5	ERBB2IP	ENSG00000112851	ENST00000508515	protein_coding	KNOWN	CCDS34172	15842	3909	1302	65284461	65374764	1	None	ERBIN, LAP2
5	ERBB2IP	ENSG00000112851	ENST00000507128	retained_intron	KNOWN	None	15842	None	None	65318700	65320201	1	None	ERBIN, LAP2
5	ERBB2IP	ENSG00000112851	ENST00000515185	retained_intron	KNOWN	None	15842	None	None	65321134	65321805	1	None	ERBIN, LAP2
5	ERBB2IP	ENSG00000112851	ENST00000511671	protein_coding	NOVEL	None	15842	589	195	65350461	65368122	1	None	ERBIN, LAP2
5	ERBB2IP	ENSG00000112851	ENST00000503913	processed_transcript	KNOWN	None	15842	None	None	65350890	65374561	1	None	ERBIN, LAP2
5	ERBB2IP	ENSG00000112851	ENST00000512354	protein_coding	NOVEL	None	15842	474	157	65364705	65371058	1	None	ERBIN, LAP2
5	ERBB2IP	ENSG00000112851	ENST00000505822	retained_intron	KNOWN	None	15842	None	None	65370974	65372425	1	None	ERBIN, LAP2
5	ERBB2IP	ENSG00000112851	ENST00000509946	retained_intron	KNOWN	None	15842	None	None	65371938	65374517	1	None	ERBIN, LAP2
5	ERBB2IP	ENSG00000112851	ENST00000506744	retained_intron	KNOWN	None	15842	None	None	65372237	65374382	1	None	ERBIN, LAP2
5	ERBB2IP	ENSG00000112851	ENST00000380939	protein_coding	KNOWN	None	15842	4083	1360	65222402	65376850	1	None	ERBIN, LAP2
5	ERBB2IP	ENSG00000112851	ENST00000380936	protein_coding	KNOWN	None	15842	4023	1340	65222402	65376850	1	None	ERBIN, LAP2
5	ERBB2IP	ENSG00000112851	ENST00000380935	protein_coding	KNOWN	CCDS34172	15842	3909	1302	65222402	65376850	1	None	ERBIN, LAP2
19	SHD	ENSG00000105251	ENST00000543264	protein_coding	KNOWN	CCDS12125	30633	1023	340	4278598	4290721	1	None	None
19	SHD	ENSG00000105251	ENST00000599689	protein_coding	NOVEL	None	30633	903	300	4279293	4290688	1	None	None
19	SHD	ENSG00000105251	ENST00000593383	nonsense_mediated_decay	KNOWN	None	30633	117	38	4283080	4290650	1	None	None
19	SHD	ENSG00000105251	ENST00000600475	processed_transcript	KNOWN	None	30633	None	None	4284428	4288311	1	None	None
19	SHD	ENSG00000105251	ENST00000597466	retained_intron	KNOWN	None	30633	None	None	4288189	4290561	1	None	None
10	SNCG	ENSG00000173267	ENST00000465679	processed_transcript	KNOWN	None	11141	None	None	88718375	88722630	1	None	BCSG1, SR, persyn
10	SNCG	ENSG00000173267	ENST00000348795	protein_coding	KNOWN	None	11141	381	126	88718387	88722922	1	None	BCSG1, SR, persyn
10	SNCG	ENSG00000173267	ENST00000372017	protein_coding	KNOWN	CCDS7380	11141	384	127	88718413	88723017	1	None	BCSG1, SR, persyn
10	SNCG	ENSG00000173267	ENST00000483064	processed_transcript	KNOWN	None	11141	None	None	88719132	88723015	1	None	BCSG1, SR, persyn
6	ZSCAN31	ENSG00000235109	ENST00000481934	processed_transcript	PUTATIVE	None	14097	None	None	28292470	28294494	-1	ZNF310P, ZNF323	None
6	ZSCAN31	ENSG00000235109	ENST00000439158	protein_coding	KNOWN	CCDS4649	14097	1221	406	28292514	28303911	-1	ZNF310P, ZNF323	None
6	ZSCAN31	ENSG00000235109	ENST00000396838	protein_coding	KNOWN	CCDS4649	14097	1221	406	28292514	28321972	-1	ZNF310P, ZNF323	None
6	ZSCAN31	ENSG00000235109	ENST00000414429	protein_coding	KNOWN	CCDS4649	14097	1221	406	28292517	28324048	-1	ZNF310P, ZNF323	None
6	ZSCAN31	ENSG00000235109	ENST00000446474	protein_coding	PUTATIVE	CCDS59001	14097	744	247	28292526	28303911	-1	ZNF310P, ZNF323	None
6	ZSCAN31	ENSG00000235109	ENST00000344279	protein_coding	KNOWN	CCDS4649	14097	1221	406	28292724	28303942	-1	ZNF310P, ZNF323	None
6	ZSCAN31	ENSG00000235109	ENST00000435857	protein_coding	PUTATIVE	None	14097	615	204	28294072	28304152	-1	ZNF310P, ZNF323	None
6	ZSCAN31	ENSG00000235109	ENST00000414431	protein_coding	PUTATIVE	None	14097	313	103	28294374	28303911	-1	ZNF310P, ZNF323	None
6	ZSCAN31	ENSG00000235109	ENST00000453745	protein_coding	KNOWN	None	14097	651	216	28294513	28303975	-1	ZNF310P, ZNF323	None
6	ZSCAN31	ENSG00000235109	ENST00000426434	protein_coding	PUTATIVE	None	14097	264	87	28294552	28321981	-1	ZNF310P, ZNF323	None
6	ZSCAN31	ENSG00000235109	ENST00000439636	protein_coding	KNOWN	None	14097	467	154	28295225	28303228	-1	ZNF310P, ZNF323	None
6	ZSCAN31	ENSG00000235109	ENST00000447021	protein_coding	KNOWN	None	14097	443	146	28295249	28303713	-1	ZNF310P, ZNF323	None
6	ZSCAN31	ENSG00000235109	ENST00000426756	protein_coding	KNOWN	None	14097	320	105	28297141	28309528	-1	ZNF310P, ZNF323	None
6	ZSCAN31	ENSG00000235109	ENST00000446222	protein_coding	KNOWN	None	14097	310	102	28297151	28321963	-1	ZNF310P, ZNF323	None
6	ZSCAN31	ENSG00000235109	ENST00000434036	protein_coding	KNOWN	None	14097	234	77	28297227	28321981	-1	ZNF310P, ZNF323	None
6	ZSCAN31	ENSG00000235109	ENST00000444081	protein_coding	KNOWN	None	14097	73	23	28297388	28321842	-1	ZNF310P, ZNF323	None
6	ZSCAN31	ENSG00000235109	ENST00000439628	protein_coding	KNOWN	None	14097	52	16	28297409	28321981	-1	ZNF310P, ZNF323	None
6	ZSCAN31	ENSG00000235109	ENST00000476001	processed_transcript	PUTATIVE	None	14097	None	None	28304677	28321981	-1	ZNF310P, ZNF323	None
9	GSN	ENSG00000148180	ENST00000434663	processed_transcript	KNOWN	None	4620	None	None	123970072	124027464	1	None	DKFZp313L0718
9	GSN	ENSG00000148180	ENST00000373823	protein_coding	KNOWN	CCDS6829	4620	2196	731	123970078	124095121	1	None	DKFZp313L0718
9	GSN	ENSG00000148180	ENST00000449773	protein_coding	PUTATIVE	None	4620	685	227	124030338	124074755	1	None	DKFZp313L0718
9	GSN	ENSG00000148180	ENST00000432226	protein_coding	PUTATIVE	None	4620	780	259	124030338	124079390	1	None	DKFZp313L0718
9	GSN	ENSG00000148180	ENST00000477863	processed_transcript	KNOWN	None	4620	None	None	124030441	124074753	1	None	DKFZp313L0718
9	GSN	ENSG00000148180	ENST00000483960	processed_transcript	KNOWN	None	4620	None	None	124043750	124083589	1	None	DKFZp313L0718
9	GSN	ENSG00000148180	ENST00000475428	processed_transcript	KNOWN	None	4620	None	None	124043789	124074767	1	None	DKFZp313L0718
9	GSN	ENSG00000148180	ENST00000477104	processed_transcript	KNOWN	None	4620	None	None	124048401	124074773	1	None	DKFZp313L0718
9	GSN	ENSG00000148180	ENST00000373818	protein_coding	KNOWN	CCDS6828	4620	2349	782	124062071	124095120	1	None	DKFZp313L0718
9	GSN	ENSG00000148180	ENST00000485767	processed_transcript	KNOWN	None	4620	None	None	124070649	124080164	1	None	DKFZp313L0718
9	GSN	ENSG00000148180	ENST00000373807	protein_coding	NOVEL	None	4620	1458	485	124073749	124094168	1	None	DKFZp313L0718
9	GSN	ENSG00000148180	ENST00000373806	protein_coding	PUTATIVE	None	4620	624	207	124088860	124094940	1	None	DKFZp313L0718
9	GSN	ENSG00000148180	ENST00000373805	processed_transcript	KNOWN	None	4620	None	None	124089010	124091593	1	None	DKFZp313L0718
9	GSN	ENSG00000148180	ENST00000477553	processed_transcript	PUTATIVE	None	4620	None	None	124091131	124094867	1	None	DKFZp313L0718
9	GSN	ENSG00000148180	ENST00000545652	protein_coding	KNOWN	None	4620	2220	739	124048870	124094934	1	None	DKFZp313L0718
9	GSN	ENSG00000148180	ENST00000436847	protein_coding	KNOWN	CCDS48011	4620	2229	742	124030380	124095120	1	None	DKFZp313L0718
9	GSN	ENSG00000148180	ENST00000394353	protein_coding	KNOWN	CCDS48011	4620	2229	742	124030380	124095120	1	None	DKFZp313L0718
9	GSN	ENSG00000148180	ENST00000449733	protein_coding	KNOWN	CCDS6829	4620	2196	731	124030380	124095120	1	None	DKFZp313L0718
9	GSN	ENSG00000148180	ENST00000412819	protein_coding	KNOWN	CCDS6829	4620	2196	731	124030380	124095120	1	None	DKFZp313L0718
9	GSN	ENSG00000148180	ENST00000341272	protein_coding	KNOWN	CCDS6829	4620	2196	731	124030380	124095120	1	None	DKFZp313L0718
9	GSN	ENSG00000148180	ENST00000373808	protein_coding	KNOWN	CCDS6829	4620	2196	731	124030380	124095120	1	None	DKFZp313L0718
10	ADIRF	ENSG00000148671	ENST00000372013	protein_coding	KNOWN	CCDS7381	24043	231	76	88727949	88730672	1	C10orf116	APM2, AFRO
10	ADIRF	ENSG00000148671	ENST00000416348	protein_coding	NOVEL	None	24043	116	37	88728189	88730287	1	C10orf116	APM2, AFRO
10	ADIRF	ENSG00000148671	ENST00000561504	nonsense_mediated_decay	KNOWN	CCDS7381	24043	231	76	88728247	88743691	1	C10orf116	APM2, AFRO
10	FAM25A	ENSG00000188100	ENST00000343959	protein_coding	KNOWN	CCDS44451	23436	270	89	88780063	88784487	1	None	bA96C23.5
19	TMIGD2	ENSG00000167664	ENST00000595645	protein_coding	KNOWN	CCDS59334	28324	837	278	4292229	4302390	-1	None	MGC23244
19	TMIGD2	ENSG00000167664	ENST00000301272	protein_coding	KNOWN	CCDS12126	28324	849	282	4292229	4302428	-1	None	MGC23244
19	TMIGD2	ENSG00000167664	ENST00000600114	protein_coding	PUTATIVE	None	28324	489	162	4292596	4302382	-1	None	MGC23244
19	TMIGD2	ENSG00000167664	ENST00000600349	protein_coding	PUTATIVE	None	28324	333	110	4292596	4302382	-1	None	MGC23244
10	GLUD1	ENSG00000148672	ENST00000277865	protein_coding	KNOWN	CCDS7382	4335	1677	558	88810243	88854623	-1	GLUD	GDH
10	GLUD1	ENSG00000148672	ENST00000487058	processed_transcript	KNOWN	None	4335	None	None	88817475	88820137	-1	GLUD	GDH
10	GLUD1	ENSG00000148672	ENST00000465164	processed_transcript	KNOWN	None	4335	None	None	88820218	88820809	-1	GLUD	GDH
10	GLUD1	ENSG00000148672	ENST00000474574	processed_transcript	KNOWN	None	4335	None	None	88820710	88827596	-1	GLUD	GDH
10	GLUD1	ENSG00000148672	ENST00000544149	protein_coding	KNOWN	None	4335	1278	425	88811358	88853844	-1	GLUD	GDH
10	GLUD1	ENSG00000148672	ENST00000537649	protein_coding	KNOWN	None	4335	1176	391	88810247	88853827	-1	GLUD	GDH
19	FSD1	ENSG00000105255	ENST00000221856	protein_coding	KNOWN	CCDS12127	13745	1491	496	4304597	4323833	1	None	MGC3213, MIR1
19	FSD1	ENSG00000105255	ENST00000599375	retained_intron	KNOWN	None	13745	None	None	4304657	4311128	1	None	MGC3213, MIR1
19	FSD1	ENSG00000105255	ENST00000601678	retained_intron	KNOWN	None	13745	None	None	4304657	4311574	1	None	MGC3213, MIR1
19	FSD1	ENSG00000105255	ENST00000597590	protein_coding	NOVEL	None	13745	1314	437	4304673	4323803	1	None	MGC3213, MIR1
19	FSD1	ENSG00000105255	ENST00000601006	protein_coding	PUTATIVE	None	13745	196	64	4304686	4323090	1	None	MGC3213, MIR1
19	FSD1	ENSG00000105255	ENST00000601815	retained_intron	KNOWN	None	13745	None	None	4304697	4310752	1	None	MGC3213, MIR1
19	FSD1	ENSG00000105255	ENST00000597480	protein_coding	PUTATIVE	None	13745	530	175	4305998	4323763	1	None	MGC3213, MIR1
19	FSD1	ENSG00000105255	ENST00000598010	processed_transcript	KNOWN	None	13745	None	None	4307936	4318947	1	None	MGC3213, MIR1
19	FSD1	ENSG00000105255	ENST00000598179	retained_intron	KNOWN	None	13745	None	None	4311470	4323840	1	None	MGC3213, MIR1
19	FSD1	ENSG00000105255	ENST00000594438	protein_coding	PUTATIVE	None	13745	379	125	4323032	4323662	1	None	MGC3213, MIR1
6	ZKSCAN3	ENSG00000189298	ENST00000341464	protein_coding	KNOWN	CCDS56408	13853	1173	390	28317727	28334523	1	ZNF306, ZNF309	Zfp47, ZF47, ZSCAN35
6	ZKSCAN3	ENSG00000189298	ENST00000377255	protein_coding	KNOWN	CCDS4650	13853	1617	538	28317727	28336947	1	ZNF306, ZNF309	Zfp47, ZF47, ZSCAN35
6	ZKSCAN3	ENSG00000189298	ENST00000252211	protein_coding	KNOWN	CCDS4650	13853	1617	538	28317691	28334523	1	ZNF306, ZNF309	Zfp47, ZF47, ZSCAN35
6	ZSCAN12	ENSG00000158691	ENST00000361028	protein_coding	KNOWN	None	13172	1815	604	28346732	28367511	-1	ZNF305, ZNF96	KIAA0426, ZNF29K1, ZFP96, dJ29K1.2
6	ZSCAN12	ENSG00000158691	ENST00000396827	protein_coding	KNOWN	None	13172	1815	604	28346996	28367508	-1	ZNF305, ZNF96	KIAA0426, ZNF29K1, ZFP96, dJ29K1.2
6	ZSCAN23	ENSG00000187987	ENST00000481983	nonsense_mediated_decay	KNOWN	None	21193	441	146	28399707	28411257	-1	ZNF453, ZNF390	dJ29K1.3.1
6	ZSCAN23	ENSG00000187987	ENST00000289788	protein_coding	KNOWN	CCDS47393	21193	1170	389	28400432	28411244	-1	ZNF453, ZNF390	dJ29K1.3.1
6	ZSCAN23	ENSG00000187987	ENST00000486481	processed_transcript	KNOWN	None	21193	None	None	28402668	28411279	-1	ZNF453, ZNF390	dJ29K1.3.1
16	None	ENSG00000269049	ENST00000599734	protein_coding	NOVEL	None	None	213	70	14564842	14565054	1	None	None
16	BFAR	ENSG00000103429	ENST00000261658	protein_coding	KNOWN	CCDS10554	17613	1353	450	14726672	14763093	1	None	BAR, RNF47
16	BFAR	ENSG00000103429	ENST00000566520	retained_intron	KNOWN	None	17613	None	None	14726788	14744413	1	None	BAR, RNF47
16	BFAR	ENSG00000103429	ENST00000563971	protein_coding	NOVEL	None	17613	978	325	14726788	14762207	1	None	BAR, RNF47
16	BFAR	ENSG00000103429	ENST00000562442	retained_intron	KNOWN	None	17613	None	None	14726789	14744428	1	None	BAR, RNF47
16	BFAR	ENSG00000103429	ENST00000562121	processed_transcript	KNOWN	None	17613	None	None	14726800	14749028	1	None	BAR, RNF47
16	BFAR	ENSG00000103429	ENST00000563313	nonsense_mediated_decay	KNOWN	None	17613	270	89	14726831	14758876	1	None	BAR, RNF47
16	BFAR	ENSG00000103429	ENST00000570219	protein_coding	KNOWN	None	17613	328	108	14727020	14742309	1	None	BAR, RNF47
16	BFAR	ENSG00000103429	ENST00000566710	nonsense_mediated_decay	KNOWN	None	17613	426	141	14738145	14761925	1	None	BAR, RNF47
16	BFAR	ENSG00000103429	ENST00000562545	protein_coding	NOVEL	None	17613	619	205	14742401	14761694	1	None	BAR, RNF47
16	BFAR	ENSG00000103429	ENST00000564078	protein_coding	PUTATIVE	None	17613	309	102	14755821	14759038	1	None	BAR, RNF47
16	BFAR	ENSG00000103429	ENST00000565478	protein_coding	PUTATIVE	None	17613	294	97	14755887	14763088	1	None	BAR, RNF47
16	BFAR	ENSG00000103429	ENST00000563082	processed_transcript	KNOWN	None	17613	None	None	14761177	14763089	1	None	BAR, RNF47
16	BFAR	ENSG00000103429	ENST00000426842	protein_coding	KNOWN	None	17613	969	322	14738145	14761925	1	None	BAR, RNF47
6	GPX6	ENSG00000198704	ENST00000361902	protein_coding	KNOWN	CCDS43432	4558	666	221	28471073	28483570	-1	GPXP3	None
6	GPX6	ENSG00000198704	ENST00000474923	protein_coding	PUTATIVE	None	4558	546	181	28471963	28483564	-1	GPXP3	None
6	GPX6	ENSG00000198704	ENST00000483058	processed_transcript	KNOWN	None	4558	None	None	28474110	28495992	-1	GPXP3	None
19	STAP2	ENSG00000178078	ENST00000601956	protein_coding	NOVEL	None	30430	319	105	4324040	4326949	-1	None	STAP-2, BKS
19	STAP2	ENSG00000178078	ENST00000598443	protein_coding	NOVEL	None	30430	478	158	4324040	4328770	-1	None	STAP-2, BKS
19	STAP2	ENSG00000178078	ENST00000600324	protein_coding	KNOWN	CCDS12128	30430	1350	449	4324040	4338818	-1	None	STAP-2, BKS
19	STAP2	ENSG00000178078	ENST00000594605	protein_coding	KNOWN	CCDS45926	30430	1212	403	4324040	4338874	-1	None	STAP-2, BKS
19	STAP2	ENSG00000178078	ENST00000599736	nonsense_mediated_decay	KNOWN	None	30430	318	105	4324041	4342783	-1	None	STAP-2, BKS
19	STAP2	ENSG00000178078	ENST00000597593	processed_transcript	KNOWN	None	30430	None	None	4324607	4328223	-1	None	STAP-2, BKS
19	STAP2	ENSG00000178078	ENST00000596242	retained_intron	KNOWN	None	30430	None	None	4324814	4327367	-1	None	STAP-2, BKS
19	STAP2	ENSG00000178078	ENST00000602007	retained_intron	KNOWN	None	30430	None	None	4324876	4327381	-1	None	STAP-2, BKS
19	STAP2	ENSG00000178078	ENST00000601179	retained_intron	KNOWN	None	30430	None	None	4325415	4328990	-1	None	STAP-2, BKS
19	STAP2	ENSG00000178078	ENST00000601482	protein_coding	NOVEL	None	30430	781	259	4325456	4338806	-1	None	STAP-2, BKS
6	GPX5	ENSG00000224586	ENST00000412168	protein_coding	KNOWN	CCDS4652	4557	666	221	28493702	28502729	1	None	None
6	GPX5	ENSG00000224586	ENST00000469384	protein_coding	KNOWN	CCDS4653	4557	303	100	28493789	28501822	1	None	None
6	GPX5	ENSG00000224586	ENST00000442674	processed_transcript	KNOWN	None	4557	None	None	28496103	28502729	1	None	None
6	GPX5	ENSG00000224586	ENST00000483784	processed_transcript	KNOWN	None	4557	None	None	28496108	28501756	1	None	None
10	FAM35A	ENSG00000122376	ENST00000437629	protein_coding	KNOWN	None	28773	280	92	88853918	88911391	1	None	MGC5560, bA163M19.1, FAM35A1
10	FAM35A	ENSG00000122376	ENST00000298784	protein_coding	KNOWN	CCDS7383	28773	2508	835	88854953	88951220	1	None	MGC5560, bA163M19.1, FAM35A1
10	FAM35A	ENSG00000122376	ENST00000298786	protein_coding	KNOWN	None	28773	2715	904	88854953	88951225	1	None	MGC5560, bA163M19.1, FAM35A1
4	MAB21L2	ENSG00000181541	ENST00000317605	protein_coding	KNOWN	CCDS3774	6758	1080	359	151503077	151505843	1	None	None
4	RPS3A	ENSG00000145425	ENST00000274065	protein_coding	KNOWN	CCDS3775	10421	795	264	152020725	152025804	1	MFTL	S3A
4	RPS3A	ENSG00000145425	ENST00000509736	protein_coding	PUTATIVE	None	10421	438	145	152020776	152025789	1	MFTL	S3A
4	RPS3A	ENSG00000145425	ENST00000505243	protein_coding	PUTATIVE	None	10421	305	100	152020780	152024084	1	MFTL	S3A
4	RPS3A	ENSG00000145425	ENST00000507485	retained_intron	KNOWN	None	10421	None	None	152020780	152025357	1	MFTL	S3A
4	RPS3A	ENSG00000145425	ENST00000515818	nonsense_mediated_decay	KNOWN	None	10421	288	95	152020781	152025390	1	MFTL	S3A
4	RPS3A	ENSG00000145425	ENST00000514682	protein_coding	PUTATIVE	None	10421	684	227	152020781	152025789	1	MFTL	S3A
4	RPS3A	ENSG00000145425	ENST00000503002	protein_coding	PUTATIVE	None	10421	195	64	152020783	152022266	1	MFTL	S3A
4	RPS3A	ENSG00000145425	ENST00000512690	protein_coding	PUTATIVE	None	10421	618	205	152020791	152025789	1	MFTL	S3A
4	RPS3A	ENSG00000145425	ENST00000508783	protein_coding	PUTATIVE	None	10421	377	124	152020792	152024156	1	MFTL	S3A
4	RPS3A	ENSG00000145425	ENST00000512797	protein_coding	PUTATIVE	None	10421	573	190	152020820	152025689	1	MFTL	S3A
4	RPS3A	ENSG00000145425	ENST00000507327	protein_coding	PUTATIVE	None	10421	581	192	152020821	152025642	1	MFTL	S3A
4	RPS3A	ENSG00000145425	ENST00000515792	protein_coding	NOVEL	None	10421	627	208	152020823	152025789	1	MFTL	S3A
4	RPS3A	ENSG00000145425	ENST00000506126	protein_coding	PUTATIVE	None	10421	684	227	152020826	152025775	1	MFTL	S3A
4	RPS3A	ENSG00000145425	ENST00000510993	protein_coding	PUTATIVE	None	10421	670	222	152021025	152025680	1	MFTL	S3A
4	RPS3A	ENSG00000145425	ENST00000322686	protein_coding	KNOWN	None	10421	528	175	152020781	152025069	1	MFTL	S3A
10	NUTM2A	ENSG00000184923	ENST00000381707	protein_coding	KNOWN	CCDS44452	23438	2637	878	88985205	88994735	1	FAM22A	None
10	NUTM2A	ENSG00000184923	ENST00000381689	protein_coding	NOVEL	None	23438	1890	629	88985257	88996665	1	FAM22A	None
16	PLA2G10	ENSG00000069764	ENST00000438167	protein_coding	KNOWN	CCDS10555	9029	498	165	14766405	14788526	-1	None	GXPLA2
16	PLA2G10	ENSG00000069764	ENST00000567462	nonsense_mediated_decay	KNOWN	None	9029	393	130	14766538	14788133	-1	None	GXPLA2
6	SCAND3	ENSG00000232040	ENST00000452236	protein_coding	KNOWN	CCDS34355	13851	3978	1325	28539407	28555112	-1	ZNF305P2, ZNF452	ZFP38-L, KIAA1925, FLJ31087, Buster4
6	SCAND3	ENSG00000232040	ENST00000530247	processed_transcript	KNOWN	None	13851	None	None	28543794	28583989	-1	ZNF305P2, ZNF452	ZFP38-L, KIAA1925, FLJ31087, Buster4
6	SCAND3	ENSG00000232040	ENST00000526291	processed_transcript	KNOWN	None	13851	None	None	28552983	28554301	-1	ZNF305P2, ZNF452	ZFP38-L, KIAA1925, FLJ31087, Buster4
6	SCAND3	ENSG00000232040	ENST00000524745	processed_transcript	KNOWN	None	13851	None	None	28555784	28557480	-1	ZNF305P2, ZNF452	ZFP38-L, KIAA1925, FLJ31087, Buster4
16	NPIPA3	ENSG00000224712	ENST00000526520	protein_coding	NOVEL	None	41978	954	317	14802801	14818635	1	None	None
16	NPIPA3	ENSG00000224712	ENST00000531598	protein_coding	NOVEL	None	41978	1110	369	14802801	14820195	1	None	None
16	NPIPA3	ENSG00000224712	ENST00000552140	protein_coding	NOVEL	CCDS59262	41978	1053	350	14805546	14820150	1	None	None
10	NUTM2D	ENSG00000214562	ENST00000381697	protein_coding	KNOWN	None	23447	2421	806	89117425	89126952	1	FAM22D	None
10	NUTM2D	ENSG00000214562	ENST00000412718	protein_coding	NOVEL	CCDS41546	23447	1674	557	89117477	89130452	1	FAM22D	None
10	NUTM2D	ENSG00000214562	ENST00000465545	protein_coding	PUTATIVE	None	23447	458	151	89124746	89126248	1	FAM22D	None
6	TRIM27	ENSG00000204713	ENST00000414543	protein_coding	KNOWN	None	9975	745	247	28870779	28876766	-1	RFP	RNF76
6	TRIM27	ENSG00000204713	ENST00000481474	retained_intron	KNOWN	None	9975	None	None	28870779	28891690	-1	RFP	RNF76
6	TRIM27	ENSG00000204713	ENST00000377194	protein_coding	KNOWN	None	9975	1077	358	28870779	28891765	-1	RFP	RNF76
6	TRIM27	ENSG00000204713	ENST00000377199	protein_coding	KNOWN	CCDS4654	9975	1542	513	28870779	28891766	-1	RFP	RNF76
6	TRIM27	ENSG00000204713	ENST00000467742	processed_transcript	KNOWN	None	9975	None	None	28872251	28875361	-1	RFP	RNF76
6	TRIM27	ENSG00000204713	ENST00000498117	processed_transcript	KNOWN	None	9975	None	None	28879084	28889753	-1	RFP	RNF76
6	TRIM27	ENSG00000204713	ENST00000496091	processed_transcript	KNOWN	None	9975	None	None	28882553	28887960	-1	RFP	RNF76
16	NPIPA2	ENSG00000254852	ENST00000530328	protein_coding	NOVEL	None	41979	954	317	14841923	14857755	1	None	None
16	NPIPA2	ENSG00000254852	ENST00000529166	protein_coding	NOVEL	None	41979	1110	369	14841923	14859270	1	None	None
16	NPIPA2	ENSG00000254852	ENST00000553201	protein_coding	NOVEL	CCDS59263	41979	1053	350	14844670	14859270	1	None	None
10	MINPP1	ENSG00000107789	ENST00000371996	protein_coding	KNOWN	CCDS7384	7102	1464	487	89264632	89313145	1	None	MIPP
10	MINPP1	ENSG00000107789	ENST00000371994	protein_coding	KNOWN	CCDS53551	7102	939	312	89264632	89313145	1	None	MIPP
10	MINPP1	ENSG00000107789	ENST00000472891	processed_transcript	KNOWN	None	7102	None	None	89280872	89312394	1	None	MIPP
10	MINPP1	ENSG00000107789	ENST00000536010	protein_coding	KNOWN	CCDS53552	7102	861	286	89267590	89313217	1	None	MIPP
16	NOMO1	ENSG00000103512	ENST00000287667	protein_coding	KNOWN	CCDS10556	30060	3669	1222	14927538	14990017	1	None	PM5
16	NOMO1	ENSG00000103512	ENST00000566720	processed_transcript	KNOWN	None	30060	None	None	14942378	14947461	1	None	PM5
16	NOMO1	ENSG00000103512	ENST00000566883	processed_transcript	KNOWN	None	30060	None	None	14946911	14956917	1	None	PM5
16	NOMO1	ENSG00000103512	ENST00000566917	retained_intron	KNOWN	None	30060	None	None	14947113	14951408	1	None	PM5
16	NOMO1	ENSG00000103512	ENST00000565655	protein_coding	KNOWN	None	30060	433	143	14980632	14990013	1	None	PM5
16	NOMO1	ENSG00000103512	ENST00000566823	retained_intron	KNOWN	None	30060	None	None	14981911	14990013	1	None	PM5
19	MPND	ENSG00000008382	ENST00000262966	protein_coding	KNOWN	CCDS42470	25934	1416	471	4343524	4360083	1	None	FLJ14981
19	MPND	ENSG00000008382	ENST00000359935	protein_coding	KNOWN	CCDS54200	25934	1356	451	4343551	4360078	1	None	FLJ14981
19	MPND	ENSG00000008382	ENST00000599840	protein_coding	NOVEL	None	25934	1506	501	4343556	4360069	1	None	FLJ14981
19	MPND	ENSG00000008382	ENST00000594716	nonsense_mediated_decay	KNOWN	None	25934	1260	419	4343563	4359220	1	None	FLJ14981
19	MPND	ENSG00000008382	ENST00000596722	protein_coding	PUTATIVE	None	25934	1512	503	4343602	4360065	1	None	FLJ14981
19	MPND	ENSG00000008382	ENST00000597036	protein_coding	NOVEL	None	25934	1409	468	4343708	4360035	1	None	FLJ14981
19	MPND	ENSG00000008382	ENST00000601877	protein_coding	PUTATIVE	None	25934	366	121	4352987	4354574	1	None	FLJ14981
19	MPND	ENSG00000008382	ENST00000594162	protein_coding	NOVEL	None	25934	330	109	4354946	4360076	1	None	FLJ14981
4	SH3D19	ENSG00000109686	ENST00000604922	processed_transcript	KNOWN	None	30418	None	None	152023903	152041963	-1	None	DKFZp434D0215, EVE1, EBP, Kryn, SH3P19
4	SH3D19	ENSG00000109686	ENST00000409598	protein_coding	KNOWN	CCDS47144	30418	2304	767	152041431	152147750	-1	None	DKFZp434D0215, EVE1, EBP, Kryn, SH3P19
4	SH3D19	ENSG00000109686	ENST00000409252	protein_coding	KNOWN	CCDS34077	30418	2373	790	152041436	152147218	-1	None	DKFZp434D0215, EVE1, EBP, Kryn, SH3P19
4	SH3D19	ENSG00000109686	ENST00000478503	retained_intron	KNOWN	None	30418	None	None	152041439	152087472	-1	None	DKFZp434D0215, EVE1, EBP, Kryn, SH3P19
4	SH3D19	ENSG00000109686	ENST00000514152	protein_coding	KNOWN	CCDS47144	30418	2304	767	152041439	152149182	-1	None	DKFZp434D0215, EVE1, EBP, Kryn, SH3P19
4	SH3D19	ENSG00000109686	ENST00000427414	protein_coding	KNOWN	CCDS47143	30418	2196	731	152042972	152096704	-1	None	DKFZp434D0215, EVE1, EBP, Kryn, SH3P19
4	SH3D19	ENSG00000109686	ENST00000508492	retained_intron	KNOWN	None	30418	None	None	152058885	152065556	-1	None	DKFZp434D0215, EVE1, EBP, Kryn, SH3P19
4	SH3D19	ENSG00000109686	ENST00000462257	processed_transcript	KNOWN	None	30418	None	None	152091685	152096444	-1	None	DKFZp434D0215, EVE1, EBP, Kryn, SH3P19
4	SH3D19	ENSG00000109686	ENST00000604030	processed_transcript	KNOWN	None	30418	None	None	152096652	152246784	-1	None	DKFZp434D0215, EVE1, EBP, Kryn, SH3P19
4	SH3D19	ENSG00000109686	ENST00000604440	processed_transcript	KNOWN	None	30418	None	None	152097709	152187398	-1	None	DKFZp434D0215, EVE1, EBP, Kryn, SH3P19
4	SH3D19	ENSG00000109686	ENST00000474743	processed_transcript	KNOWN	None	30418	None	None	152097771	152147605	-1	None	DKFZp434D0215, EVE1, EBP, Kryn, SH3P19
4	SH3D19	ENSG00000109686	ENST00000514013	processed_transcript	KNOWN	None	30418	None	None	152097777	152149069	-1	None	DKFZp434D0215, EVE1, EBP, Kryn, SH3P19
4	SH3D19	ENSG00000109686	ENST00000304527	protein_coding	KNOWN	CCDS34077	30418	2373	790	152041433	152147660	-1	None	DKFZp434D0215, EVE1, EBP, Kryn, SH3P19
4	SH3D19	ENSG00000109686	ENST00000455740	protein_coding	KNOWN	CCDS47144	30418	2304	767	152041433	152147660	-1	None	DKFZp434D0215, EVE1, EBP, Kryn, SH3P19
4	SH3D19	ENSG00000109686	ENST00000424281	protein_coding	KNOWN	CCDS47143	30418	2196	731	152041433	152147660	-1	None	DKFZp434D0215, EVE1, EBP, Kryn, SH3P19
9	STOM	ENSG00000148175	ENST00000286713	protein_coding	KNOWN	CCDS6830	3383	867	288	124101355	124132483	-1	EPB7, EPB72	BND7
9	STOM	ENSG00000148175	ENST00000347359	protein_coding	KNOWN	CCDS6831	3383	372	123	124103048	124132531	-1	EPB7, EPB72	BND7
9	STOM	ENSG00000148175	ENST00000538954	protein_coding	KNOWN	None	3383	714	237	124103027	124132526	-1	EPB7, EPB72	BND7
10	PAPSS2	ENSG00000198682	ENST00000361175	protein_coding	KNOWN	CCDS7385	8604	1845	614	89419370	89507462	1	None	ATPSK2
10	PAPSS2	ENSG00000198682	ENST00000465996	processed_transcript	KNOWN	None	8604	None	None	89420114	89472939	1	None	ATPSK2
10	PAPSS2	ENSG00000198682	ENST00000482258	processed_transcript	KNOWN	None	8604	None	None	89420741	89473067	1	None	ATPSK2
10	PAPSS2	ENSG00000198682	ENST00000456849	protein_coding	KNOWN	CCDS44453	8604	1860	619	89419476	89507460	1	None	ATPSK2
10	PAPSS2	ENSG00000198682	ENST00000427144	protein_coding	KNOWN	None	8604	1857	618	89420708	89505790	1	None	ATPSK2
5	SREK1	ENSG00000153914	ENST00000521691	protein_coding	KNOWN	None	17882	228	75	65435799	65458101	1	SFRS12	DKFZp564B176, SRrp86, SRrp508
5	SREK1	ENSG00000153914	ENST00000334121	protein_coding	KNOWN	CCDS43323	17882	1875	624	65440046	65479443	1	SFRS12	DKFZp564B176, SRrp86, SRrp508
5	SREK1	ENSG00000153914	ENST00000523851	processed_transcript	PUTATIVE	None	17882	None	None	65440092	65449551	1	SFRS12	DKFZp564B176, SRrp86, SRrp508
5	SREK1	ENSG00000153914	ENST00000520058	retained_intron	KNOWN	None	17882	None	None	65440135	65449618	1	SFRS12	DKFZp564B176, SRrp86, SRrp508
5	SREK1	ENSG00000153914	ENST00000522912	nonsense_mediated_decay	KNOWN	None	17882	399	132	65440143	65474685	1	SFRS12	DKFZp564B176, SRrp86, SRrp508
5	SREK1	ENSG00000153914	ENST00000520953	nonsense_mediated_decay	KNOWN	None	17882	129	42	65440143	65475007	1	SFRS12	DKFZp564B176, SRrp86, SRrp508
5	SREK1	ENSG00000153914	ENST00000524111	retained_intron	KNOWN	None	17882	None	None	65440164	65466456	1	SFRS12	DKFZp564B176, SRrp86, SRrp508
5	SREK1	ENSG00000153914	ENST00000380918	protein_coding	KNOWN	CCDS3991	17882	1527	508	65440663	65474942	1	SFRS12	DKFZp564B176, SRrp86, SRrp508
5	SREK1	ENSG00000153914	ENST00000284041	processed_transcript	KNOWN	None	17882	None	None	65453955	65476639	1	SFRS12	DKFZp564B176, SRrp86, SRrp508
5	SREK1	ENSG00000153914	ENST00000518110	retained_intron	KNOWN	None	17882	None	None	65454528	65458064	1	SFRS12	DKFZp564B176, SRrp86, SRrp508
5	SREK1	ENSG00000153914	ENST00000520580	retained_intron	KNOWN	None	17882	None	None	65454934	65466643	1	SFRS12	DKFZp564B176, SRrp86, SRrp508
5	SREK1	ENSG00000153914	ENST00000519259	retained_intron	KNOWN	None	17882	None	None	65459411	65476707	1	SFRS12	DKFZp564B176, SRrp86, SRrp508
5	SREK1	ENSG00000153914	ENST00000523655	nonsense_mediated_decay	KNOWN	None	17882	181	59	65459620	65466477	1	SFRS12	DKFZp564B176, SRrp86, SRrp508
5	SREK1	ENSG00000153914	ENST00000522214	retained_intron	KNOWN	None	17882	None	None	65470452	65474865	1	SFRS12	DKFZp564B176, SRrp86, SRrp508
5	SREK1	ENSG00000153914	ENST00000519205	retained_intron	KNOWN	None	17882	None	None	65473155	65474767	1	SFRS12	DKFZp564B176, SRrp86, SRrp508
6	C6orf100	ENSG00000204709	ENST00000377186	protein_coding	KNOWN	None	21195	189	62	28911654	28912314	1	None	dJ25J6.5
6	ZNF311	ENSG00000197935	ENST00000377179	protein_coding	KNOWN	CCDS34357	13847	2001	666	28962562	28973037	-1	None	None
6	ZNF311	ENSG00000197935	ENST00000483450	processed_transcript	KNOWN	None	13847	None	None	28962562	28973093	-1	None	None
9	None	ENSG00000267987	ENST00000594963	protein_coding	NOVEL	None	None	180	59	124103625	124110410	1	None	None
9	DAB2IP	ENSG00000136848	ENST00000394340	protein_coding	KNOWN	None	17294	874	290	124329336	124522506	1	None	AF9Q34, DIP1/2, KIAA1743, AIP1
9	DAB2IP	ENSG00000136848	ENST00000436835	protein_coding	KNOWN	None	17294	687	228	124329381	124522607	1	None	AF9Q34, DIP1/2, KIAA1743, AIP1
9	DAB2IP	ENSG00000136848	ENST00000489314	processed_transcript	KNOWN	None	17294	None	None	124360547	124441061	1	None	AF9Q34, DIP1/2, KIAA1743, AIP1
9	DAB2IP	ENSG00000136848	ENST00000408936	protein_coding	KNOWN	None	17294	3570	1189	124413873	124547809	1	None	AF9Q34, DIP1/2, KIAA1743, AIP1
9	DAB2IP	ENSG00000136848	ENST00000465078	processed_transcript	KNOWN	None	17294	None	None	124413964	124441124	1	None	AF9Q34, DIP1/2, KIAA1743, AIP1
9	DAB2IP	ENSG00000136848	ENST00000373782	protein_coding	KNOWN	None	17294	3210	1069	124461649	124547807	1	None	AF9Q34, DIP1/2, KIAA1743, AIP1
9	DAB2IP	ENSG00000136848	ENST00000309989	protein_coding	KNOWN	CCDS6832	17294	3198	1065	124505064	124544932	1	None	AF9Q34, DIP1/2, KIAA1743, AIP1
9	DAB2IP	ENSG00000136848	ENST00000487716	processed_transcript	KNOWN	None	17294	None	None	124513251	124519355	1	None	AF9Q34, DIP1/2, KIAA1743, AIP1
9	DAB2IP	ENSG00000136848	ENST00000459906	processed_transcript	KNOWN	None	17294	None	None	124522619	124530805	1	None	AF9Q34, DIP1/2, KIAA1743, AIP1
9	DAB2IP	ENSG00000136848	ENST00000259371	protein_coding	KNOWN	CCDS6833	17294	3399	1132	124329399	124547807	1	None	AF9Q34, DIP1/2, KIAA1743, AIP1
6	OR2W1	ENSG00000204704	ENST00000377175	protein_coding	KNOWN	CCDS4656	8281	963	320	29011990	29013017	-1	None	hs6M1-15
6	OR2B3	ENSG00000204703	ENST00000377173	protein_coding	KNOWN	CCDS34358	8238	942	313	29053985	29055090	-1	OR2B3P	OR6-4
6	OR2J1	ENSG00000204702	ENST00000377171	protein_coding	KNOWN	None	8259	939	312	29068386	29069658	1	OR2J1P	OR6-5, hs6M1-4, dJ80I19.2
10	ATAD1	ENSG00000138138	ENST00000308448	protein_coding	KNOWN	CCDS7386	25903	1086	361	89511269	89577917	-1	None	FLJ14600
10	ATAD1	ENSG00000138138	ENST00000328142	protein_coding	KNOWN	CCDS7386	25903	1086	361	89512874	89574639	-1	None	FLJ14600
10	ATAD1	ENSG00000138138	ENST00000495903	processed_transcript	KNOWN	None	25903	None	None	89544309	89601100	-1	None	FLJ14600
10	ATAD1	ENSG00000138138	ENST00000400215	protein_coding	KNOWN	None	25903	822	273	89514003	89552514	-1	None	FLJ14600
10	ATAD1	ENSG00000138138	ENST00000541004	protein_coding	KNOWN	None	25903	864	287	89519512	89577917	-1	None	FLJ14600
19	SH3GL1	ENSG00000141985	ENST00000269886	protein_coding	KNOWN	CCDS32874	10830	1107	368	4360367	4400544	-1	None	SH3P8, SH3D2B, CNSA1, EEN, MGC111371
19	SH3GL1	ENSG00000141985	ENST00000598564	protein_coding	KNOWN	CCDS59335	10830	915	304	4360368	4400415	-1	None	SH3P8, SH3D2B, CNSA1, EEN, MGC111371
19	SH3GL1	ENSG00000141985	ENST00000417295	protein_coding	KNOWN	CCDS56076	10830	963	320	4361313	4400522	-1	None	SH3P8, SH3D2B, CNSA1, EEN, MGC111371
19	SH3GL1	ENSG00000141985	ENST00000593591	protein_coding	PUTATIVE	None	10830	417	138	4363819	4390607	-1	None	SH3P8, SH3D2B, CNSA1, EEN, MGC111371
19	SH3GL1	ENSG00000141985	ENST00000598230	protein_coding	PUTATIVE	None	10830	386	127	4363850	4380289	-1	None	SH3P8, SH3D2B, CNSA1, EEN, MGC111371
19	SH3GL1	ENSG00000141985	ENST00000598219	protein_coding	PUTATIVE	None	10830	80	25	4366500	4396020	-1	None	SH3P8, SH3D2B, CNSA1, EEN, MGC111371
6	OR2J3	ENSG00000204701	ENST00000377169	protein_coding	KNOWN	CCDS43433	8261	936	311	29079668	29080603	1	None	OR6-6
6	OR2J2	ENSG00000204700	ENST00000377167	protein_coding	KNOWN	CCDS43434	8260	939	312	29141311	29142351	1	None	OR6-8, hs6M1-6, dJ80I19.4
6	OR14J1	ENSG00000204695	ENST00000377160	protein_coding	KNOWN	CCDS34362	13971	966	321	29274403	29275519	1	OR5U1	hs6M1-28
6	OR5V1	ENSG00000243729	ENST00000377154	protein_coding	KNOWN	CCDS4657	13972	966	321	29323007	29399744	-1	None	hs6M1-21
6	OR5V1	ENSG00000243729	ENST00000543825	protein_coding	KNOWN	CCDS4657	13972	966	321	29323007	29324054	-1	None	hs6M1-21
6	OR12D3	ENSG00000112462	ENST00000396806	protein_coding	KNOWN	CCDS4658	13963	951	316	29341200	29343068	-1	None	hs6M1-27
5	MAST4	ENSG00000069020	ENST00000403625	protein_coding	NOVEL	CCDS54861	19037	7872	2623	65892189	66465423	1	None	KIAA0303
5	MAST4	ENSG00000069020	ENST00000406374	protein_coding	KNOWN	CCDS47224	19037	753	250	65892208	66282351	1	None	KIAA0303
5	MAST4	ENSG00000069020	ENST00000406039	protein_coding	PUTATIVE	None	19037	717	238	65892484	66282314	1	None	KIAA0303
5	MAST4	ENSG00000069020	ENST00000478569	processed_transcript	KNOWN	None	19037	None	None	66033859	66084533	1	None	KIAA0303
5	MAST4	ENSG00000069020	ENST00000452953	protein_coding	PUTATIVE	None	19037	299	98	66055556	66226789	1	None	KIAA0303
5	MAST4	ENSG00000069020	ENST00000432817	protein_coding	PUTATIVE	None	19037	369	122	66055558	66282351	1	None	KIAA0303
5	MAST4	ENSG00000069020	ENST00000451144	processed_transcript	PUTATIVE	None	19037	None	None	66084515	66088367	1	None	KIAA0303
5	MAST4	ENSG00000069020	ENST00000434115	protein_coding	PUTATIVE	None	19037	243	80	66084560	66282351	1	None	KIAA0303
5	MAST4	ENSG00000069020	ENST00000411628	protein_coding	PUTATIVE	None	19037	200	65	66084609	66282351	1	None	KIAA0303
5	MAST4	ENSG00000069020	ENST00000490016	protein_coding	PUTATIVE	None	19037	1053	350	66124602	66410903	1	None	KIAA0303
5	MAST4	ENSG00000069020	ENST00000470421	retained_intron	KNOWN	None	19037	None	None	66124604	66213201	1	None	KIAA0303
5	MAST4	ENSG00000069020	ENST00000403666	protein_coding	KNOWN	CCDS47225	19037	7305	2434	66124604	66463092	1	None	KIAA0303
5	MAST4	ENSG00000069020	ENST00000450827	protein_coding	PUTATIVE	None	19037	177	58	66124690	66282351	1	None	KIAA0303
5	MAST4	ENSG00000069020	ENST00000405643	protein_coding	KNOWN	None	19037	7335	2444	66254698	66462879	1	None	KIAA0303
5	MAST4	ENSG00000069020	ENST00000407621	protein_coding	PUTATIVE	None	19037	171	56	66254725	66282351	1	None	KIAA0303
5	MAST4	ENSG00000069020	ENST00000432426	protein_coding	PUTATIVE	None	19037	178	58	66254816	66386031	1	None	KIAA0303
5	MAST4	ENSG00000069020	ENST00000261569	protein_coding	KNOWN	None	19037	7290	2429	66300448	66462879	1	None	KIAA0303
5	MAST4	ENSG00000069020	ENST00000436277	protein_coding	KNOWN	None	19037	503	166	66300483	66398378	1	None	KIAA0303
5	MAST4	ENSG00000069020	ENST00000447738	nonsense_mediated_decay	KNOWN	None	19037	501	166	66300580	66400403	1	None	KIAA0303
5	MAST4	ENSG00000069020	ENST00000485768	retained_intron	KNOWN	None	19037	None	None	66437992	66438848	1	None	KIAA0303
5	MAST4	ENSG00000069020	ENST00000443808	protein_coding	NOVEL	None	19037	5041	1679	66438262	66463111	1	None	KIAA0303
5	MAST4	ENSG00000069020	ENST00000404260	protein_coding	KNOWN	None	19037	7881	2626	65892176	66465423	1	None	KIAA0303
6	OR12D2	ENSG00000168787	ENST00000383555	protein_coding	KNOWN	CCDS4659	8178	924	307	29364416	29365448	1	None	hs6M1-20
6	OR12D1P	ENSG00000251608	ENST00000514827	polymorphic_pseudogene	KNOWN	None	8177	947	314	29385057	29386003	1	OR12D1P	hs6M1-19
6	OR11A1	ENSG00000204694	ENST00000377148	protein_coding	KNOWN	CCDS34363	8176	948	315	29393281	29396243	-1	OR11A2	hs6M1-18
6	OR11A1	ENSG00000204694	ENST00000377149	protein_coding	KNOWN	CCDS34363	8176	948	315	29393281	29424848	-1	OR11A2	hs6M1-18
6	OR11A1	ENSG00000204694	ENST00000377147	protein_coding	KNOWN	CCDS34363	8176	948	315	29393281	29395509	-1	OR11A2	hs6M1-18
6	OR10C1	ENSG00000206474	ENST00000444197	protein_coding	KNOWN	CCDS34364	8165	939	312	29407083	29408731	1	OR10C2	hs6M1-17, OR10C1P
6	OR2H1	ENSG00000204688	ENST00000377136	protein_coding	KNOWN	CCDS4660	8252	951	316	29424958	29432105	1	OR2H6, OR2H8	OR6-2
6	OR2H1	ENSG00000204688	ENST00000377133	protein_coding	KNOWN	CCDS4660	8252	951	316	29424965	29432105	1	OR2H6, OR2H8	OR6-2
6	OR2H1	ENSG00000204688	ENST00000484371	processed_transcript	KNOWN	None	8252	None	None	29424980	29428863	1	OR2H6, OR2H8	OR6-2
6	OR2H1	ENSG00000204688	ENST00000377132	protein_coding	KNOWN	CCDS4660	8252	951	316	29427548	29432105	1	OR2H6, OR2H8	OR6-2
6	OR2H1	ENSG00000204688	ENST00000396792	protein_coding	KNOWN	CCDS4660	8252	951	316	29429217	29430510	1	OR2H6, OR2H8	OR6-2
6	OR2H1	ENSG00000204688	ENST00000473369	processed_transcript	KNOWN	None	8252	None	None	29429272	29430497	1	OR2H6, OR2H8	OR6-2
6	OR2H1	ENSG00000204688	ENST00000484554	processed_transcript	KNOWN	None	8252	None	None	29429272	29430497	1	OR2H6, OR2H8	OR6-2
6	OR2H1	ENSG00000204688	ENST00000442615	protein_coding	KNOWN	CCDS4660	8252	951	316	29426230	29432097	1	OR2H6, OR2H8	OR6-2
10	KLLN	ENSG00000227268	ENST00000445946	protein_coding	KNOWN	CCDS44454	37212	537	178	89618918	89623194	-1	None	killin
10	PTEN	ENSG00000171862	ENST00000371953	protein_coding	KNOWN	CCDS31238	9588	1212	403	89622870	89731687	1	BZS, MHAM	MMAC1, TEP1, PTEN1
10	PTEN	ENSG00000171862	ENST00000487939	processed_transcript	KNOWN	None	9588	None	None	89624206	89626806	1	BZS, MHAM	MMAC1, TEP1, PTEN1
10	PTEN	ENSG00000171862	ENST00000462694	processed_transcript	KNOWN	None	9588	None	None	89624225	89654083	1	BZS, MHAM	MMAC1, TEP1, PTEN1
10	PTEN	ENSG00000171862	ENST00000498703	processed_transcript	KNOWN	None	9588	None	None	89685280	89693244	1	BZS, MHAM	MMAC1, TEP1, PTEN1
10	PTEN	ENSG00000171862	ENST00000472832	processed_transcript	KNOWN	None	9588	None	None	89711956	89721066	1	BZS, MHAM	MMAC1, TEP1, PTEN1
16	NPIPA1	ENSG00000183426	ENST00000472413	processed_transcript	KNOWN	None	7909	None	None	15016659	15045915	1	NPIP	morpheus
16	NPIPA1	ENSG00000183426	ENST00000541836	processed_transcript	KNOWN	None	7909	None	None	15021140	15045731	1	NPIP	morpheus
16	NPIPA1	ENSG00000183426	ENST00000545831	processed_transcript	KNOWN	None	7909	None	None	15031271	15039780	1	NPIP	morpheus
16	NPIPA1	ENSG00000183426	ENST00000328085	protein_coding	NOVEL	CCDS10557	7909	1053	350	15031300	15045913	1	NPIP	morpheus
16	NPIPA1	ENSG00000183426	ENST00000424549	protein_coding	PUTATIVE	None	7909	657	218	15032072	15043937	1	NPIP	morpheus
16	NPIPA1	ENSG00000183426	ENST00000545479	retained_intron	KNOWN	None	7909	None	None	15035376	15039730	1	NPIP	morpheus
16	NPIPA1	ENSG00000183426	ENST00000534720	retained_intron	KNOWN	None	7909	None	None	15035677	15044557	1	NPIP	morpheus
16	NPIPA1	ENSG00000183426	ENST00000537062	protein_coding	PUTATIVE	None	7909	557	184	15039742	15044378	1	NPIP	morpheus
6	MAS1L	ENSG00000204687	ENST00000377127	protein_coding	KNOWN	CCDS4661	13961	1137	378	29454474	29455738	-1	None	MAS-L, MRG, dJ994E9.2
6	UBD	ENSG00000213886	ENST00000377050	protein_coding	KNOWN	CCDS4662	18795	498	165	29523292	29527702	-1	None	FAT10
6	GABBR1	ENSG00000204681	ENST00000355973	protein_coding	KNOWN	CCDS4665	4070	2535	844	29523406	29595815	-1	None	hGB1a, GPRC3A
6	GABBR1	ENSG00000204681	ENST00000472823	nonsense_mediated_decay	KNOWN	None	4070	396	131	29570005	29600908	-1	None	hGB1a, GPRC3A
6	GABBR1	ENSG00000204681	ENST00000377016	protein_coding	KNOWN	CCDS4664	4070	2700	899	29570007	29600912	-1	None	hGB1a, GPRC3A
6	GABBR1	ENSG00000204681	ENST00000377012	protein_coding	KNOWN	CCDS4665	4070	2535	844	29570012	29595829	-1	None	hGB1a, GPRC3A
6	GABBR1	ENSG00000204681	ENST00000491829	nonsense_mediated_decay	KNOWN	None	4070	414	137	29570015	29600711	-1	None	hGB1a, GPRC3A
6	GABBR1	ENSG00000204681	ENST00000377034	protein_coding	KNOWN	CCDS4663	4070	2886	961	29570015	29600962	-1	None	hGB1a, GPRC3A
6	GABBR1	ENSG00000204681	ENST00000478931	retained_intron	KNOWN	None	4070	None	None	29571091	29572926	-1	None	hGB1a, GPRC3A
6	GABBR1	ENSG00000204681	ENST00000494877	nonsense_mediated_decay	KNOWN	None	4070	1737	578	29572690	29600162	-1	None	hGB1a, GPRC3A
6	GABBR1	ENSG00000204681	ENST00000488334	retained_intron	KNOWN	None	4070	None	None	29572728	29573886	-1	None	hGB1a, GPRC3A
6	GABBR1	ENSG00000204681	ENST00000486434	retained_intron	KNOWN	None	4070	None	None	29573187	29574366	-1	None	hGB1a, GPRC3A
6	GABBR1	ENSG00000204681	ENST00000473774	retained_intron	KNOWN	None	4070	None	None	29574932	29578934	-1	None	hGB1a, GPRC3A
6	GABBR1	ENSG00000204681	ENST00000489839	retained_intron	KNOWN	None	4070	None	None	29576231	29580376	-1	None	hGB1a, GPRC3A
6	GABBR1	ENSG00000204681	ENST00000494634	retained_intron	KNOWN	None	4070	None	None	29581238	29590346	-1	None	hGB1a, GPRC3A
6	GABBR1	ENSG00000204681	ENST00000477029	retained_intron	KNOWN	None	4070	None	None	29589581	29592038	-1	None	hGB1a, GPRC3A
6	GABBR1	ENSG00000204681	ENST00000485508	nonsense_mediated_decay	KNOWN	None	4070	294	97	29589591	29600286	-1	None	hGB1a, GPRC3A
6	GABBR1	ENSG00000204681	ENST00000489385	nonsense_mediated_decay	KNOWN	None	4070	582	193	29595263	29600236	-1	None	hGB1a, GPRC3A
6	GABBR1	ENSG00000204681	ENST00000467259	retained_intron	KNOWN	None	4070	None	None	29597676	29600844	-1	None	hGB1a, GPRC3A
6	GABBR1	ENSG00000204681	ENST00000462632	protein_coding	KNOWN	None	4070	470	155	29598240	29601753	-1	None	hGB1a, GPRC3A
6	GABBR1	ENSG00000204681	ENST00000476670	protein_coding	PUTATIVE	None	4070	401	132	29598324	29600559	-1	None	hGB1a, GPRC3A
6	GABBR1	ENSG00000204681	ENST00000376977	protein_coding	KNOWN	None	4070	1737	578	29570006	29600962	-1	None	hGB1a, GPRC3A
19	CHAF1A	ENSG00000167670	ENST00000301280	protein_coding	KNOWN	CCDS32875	1910	2871	956	4402659	4443389	1	None	CAF1P150, CAF1B, CAF-1, CAF1, P150, MGC71229
19	CHAF1A	ENSG00000167670	ENST00000587580	processed_transcript	KNOWN	None	1910	None	None	4402699	4409204	1	None	CAF1P150, CAF1B, CAF-1, CAF1, P150, MGC71229
19	CHAF1A	ENSG00000167670	ENST00000585854	protein_coding	PUTATIVE	None	1910	453	150	4402714	4409300	1	None	CAF1P150, CAF1B, CAF-1, CAF1, P150, MGC71229
19	CHAF1A	ENSG00000167670	ENST00000587739	protein_coding	NOVEL	None	1910	875	290	4409442	4428860	1	None	CAF1P150, CAF1B, CAF-1, CAF1, P150, MGC71229
19	CHAF1A	ENSG00000167670	ENST00000585371	nonsense_mediated_decay	KNOWN	None	1910	54	17	4418026	4429513	1	None	CAF1P150, CAF1B, CAF-1, CAF1, P150, MGC71229
19	CHAF1A	ENSG00000167670	ENST00000587368	processed_transcript	KNOWN	None	1910	None	None	4431052	4433314	1	None	CAF1P150, CAF1B, CAF-1, CAF1, P150, MGC71229
19	CHAF1A	ENSG00000167670	ENST00000589648	protein_coding	PUTATIVE	None	1910	144	47	4442251	4445015	1	None	CAF1P150, CAF1B, CAF-1, CAF1, P150, MGC71229
9	TTLL11	ENSG00000175764	ENST00000486362	processed_transcript	KNOWN	None	18113	None	None	124584246	124585139	-1	C9orf20	bA244O19.1
9	TTLL11	ENSG00000175764	ENST00000373778	processed_transcript	KNOWN	None	18113	None	None	124584250	124855087	-1	C9orf20	bA244O19.1
9	TTLL11	ENSG00000175764	ENST00000474723	processed_transcript	KNOWN	None	18113	None	None	124584292	124855563	-1	C9orf20	bA244O19.1
9	TTLL11	ENSG00000175764	ENST00000487468	processed_transcript	KNOWN	None	18113	None	None	124751189	124855045	-1	C9orf20	bA244O19.1
9	TTLL11	ENSG00000175764	ENST00000373776	protein_coding	KNOWN	CCDS6834	18113	1617	538	124751189	124855885	-1	C9orf20	bA244O19.1
9	TTLL11	ENSG00000175764	ENST00000321582	protein_coding	KNOWN	CCDS48012	18113	2403	800	124584207	124855885	-1	C9orf20	bA244O19.1
16	PDXDC1	ENSG00000179889	ENST00000563679	protein_coding	PUTATIVE	None	28995	2421	806	15068448	15130535	1	None	KIAA0251
16	PDXDC1	ENSG00000179889	ENST00000563667	protein_coding	PUTATIVE	None	28995	554	183	15068594	15100281	1	None	KIAA0251
16	PDXDC1	ENSG00000179889	ENST00000563522	protein_coding	PUTATIVE	None	28995	361	119	15068660	15100267	1	None	KIAA0251
16	PDXDC1	ENSG00000179889	ENST00000535621	protein_coding	PUTATIVE	None	28995	1497	498	15068869	15233196	1	None	KIAA0251
16	PDXDC1	ENSG00000179889	ENST00000566426	protein_coding	PUTATIVE	None	28995	73	23	15068888	15092219	1	None	KIAA0251
16	PDXDC1	ENSG00000179889	ENST00000455313	protein_coding	KNOWN	None	28995	1290	429	15068937	15123662	1	None	KIAA0251
16	PDXDC1	ENSG00000179889	ENST00000562119	nonsense_mediated_decay	KNOWN	None	28995	195	64	15068946	15130054	1	None	KIAA0251
16	PDXDC1	ENSG00000179889	ENST00000396410	protein_coding	KNOWN	CCDS32393	28995	2367	788	15068960	15131552	1	None	KIAA0251
16	PDXDC1	ENSG00000179889	ENST00000570001	retained_intron	KNOWN	None	28995	None	None	15068962	15131544	1	None	KIAA0251
16	PDXDC1	ENSG00000179889	ENST00000569715	protein_coding	NOVEL	None	28995	2286	761	15068980	15131544	1	None	KIAA0251
16	PDXDC1	ENSG00000179889	ENST00000565362	nonsense_mediated_decay	KNOWN	None	28995	246	81	15069009	15102697	1	None	KIAA0251
16	PDXDC1	ENSG00000179889	ENST00000567306	protein_coding	PUTATIVE	None	28995	814	270	15070620	15111244	1	None	KIAA0251
16	PDXDC1	ENSG00000179889	ENST00000561930	retained_intron	KNOWN	None	28995	None	None	15103168	15111010	1	None	KIAA0251
16	PDXDC1	ENSG00000179889	ENST00000566633	retained_intron	KNOWN	None	28995	None	None	15119081	15126510	1	None	KIAA0251
16	PDXDC1	ENSG00000179889	ENST00000565986	retained_intron	KNOWN	None	28995	None	None	15127949	15129944	1	None	KIAA0251
16	PDXDC1	ENSG00000179889	ENST00000450288	protein_coding	KNOWN	None	28995	2283	760	15068986	15130461	1	None	KIAA0251
16	PDXDC1	ENSG00000179889	ENST00000325823	protein_coding	KNOWN	None	28995	2322	773	15068599	15130535	1	None	KIAA0251
16	PDXDC1	ENSG00000179889	ENST00000447912	protein_coding	KNOWN	None	28995	2094	697	15068675	15130251	1	None	KIAA0251
10	RNLS	ENSG00000184719	ENST00000371947	protein_coding	KNOWN	CCDS7388	25641	948	315	90033621	90344287	-1	C10orf59	FLJ11218, renalase
10	RNLS	ENSG00000184719	ENST00000331772	protein_coding	KNOWN	CCDS31239	25641	1029	342	90044716	90342970	-1	C10orf59	FLJ11218, renalase
10	RNLS	ENSG00000184719	ENST00000466945	processed_transcript	KNOWN	None	25641	None	None	90074270	90343089	-1	C10orf59	FLJ11218, renalase
10	RNLS	ENSG00000184719	ENST00000481793	processed_transcript	KNOWN	None	25641	None	None	90122309	90343087	-1	C10orf59	FLJ11218, renalase
10	RNLS	ENSG00000184719	ENST00000437752	protein_coding	KNOWN	None	25641	699	232	90034718	90342947	-1	C10orf59	FLJ11218, renalase
4	PRSS48	ENSG00000189099	ENST00000455694	protein_coding	KNOWN	CCDS47145	24635	987	328	152198323	152212605	1	None	ESSPL
4	PRSS48	ENSG00000189099	ENST00000441586	protein_coding	KNOWN	None	24635	558	185	152198323	152212605	1	None	ESSPL
4	FAM160A1	ENSG00000164142	ENST00000508198	processed_transcript	KNOWN	None	34237	None	None	152330368	152487410	1	None	FLJ43373
4	FAM160A1	ENSG00000164142	ENST00000503146	protein_coding	KNOWN	None	34237	120	39	152330398	152498616	1	None	FLJ43373
4	FAM160A1	ENSG00000164142	ENST00000511501	processed_transcript	PUTATIVE	None	34237	None	None	152330504	152455928	1	None	FLJ43373
4	FAM160A1	ENSG00000164142	ENST00000513086	protein_coding	KNOWN	None	34237	40	12	152330504	152487451	1	None	FLJ43373
4	FAM160A1	ENSG00000164142	ENST00000513962	protein_coding	KNOWN	None	34237	127	41	152357587	152498623	1	None	FLJ43373
4	FAM160A1	ENSG00000164142	ENST00000512597	protein_coding	KNOWN	None	34237	180	59	152403761	152498676	1	None	FLJ43373
4	FAM160A1	ENSG00000164142	ENST00000505231	protein_coding	KNOWN	CCDS47146	34237	3123	1040	152454164	152584780	1	None	FLJ43373
4	FAM160A1	ENSG00000164142	ENST00000435205	protein_coding	KNOWN	CCDS47146	34237	3123	1040	152330398	152584784	1	None	FLJ43373
9	NDUFA8	ENSG00000119421	ENST00000373768	protein_coding	KNOWN	CCDS6835	7692	519	172	124906337	124922098	-1	None	PGIV, MGC793
9	NDUFA8	ENSG00000119421	ENST00000537618	protein_coding	KNOWN	None	7692	387	128	124894745	124922066	-1	None	PGIV, MGC793
10	LIPJ	ENSG00000204022	ENST00000526923	retained_intron	KNOWN	None	21773	None	None	90346510	90354069	1	LIPL1	bA425M17.2
10	LIPJ	ENSG00000204022	ENST00000371939	protein_coding	KNOWN	CCDS31240	21773	1101	366	90346519	90366733	1	LIPL1	bA425M17.2
10	LIPJ	ENSG00000204022	ENST00000531458	protein_coding	PUTATIVE	None	21773	462	153	90354503	90366580	1	LIPL1	bA425M17.2
19	UBXN6	ENSG00000167671	ENST00000591919	protein_coding	NOVEL	None	14928	1114	370	4444996	4454090	-1	UBXD1	UBXDC2
19	UBXN6	ENSG00000167671	ENST00000301281	protein_coding	KNOWN	CCDS12129	14928	1326	441	4445003	4457819	-1	UBXD1	UBXDC2
19	UBXN6	ENSG00000167671	ENST00000588238	retained_intron	KNOWN	None	14928	None	None	4445004	4449601	-1	UBXD1	UBXDC2
19	UBXN6	ENSG00000167671	ENST00000587009	retained_intron	KNOWN	None	14928	None	None	4445007	4448113	-1	UBXD1	UBXDC2
19	UBXN6	ENSG00000167671	ENST00000394765	protein_coding	KNOWN	CCDS54201	14928	1167	388	4445007	4455295	-1	UBXD1	UBXDC2
19	UBXN6	ENSG00000167671	ENST00000590466	protein_coding	PUTATIVE	None	14928	396	131	4445088	4446617	-1	UBXD1	UBXDC2
19	UBXN6	ENSG00000167671	ENST00000587324	retained_intron	KNOWN	None	14928	None	None	4445473	4446695	-1	UBXD1	UBXDC2
19	UBXN6	ENSG00000167671	ENST00000593024	retained_intron	KNOWN	None	14928	None	None	4447547	4448867	-1	UBXD1	UBXDC2
19	UBXN6	ENSG00000167671	ENST00000592358	retained_intron	KNOWN	None	14928	None	None	4447836	4452409	-1	UBXD1	UBXDC2
19	UBXN6	ENSG00000167671	ENST00000592515	protein_coding	PUTATIVE	None	14928	389	128	4448393	4455435	-1	UBXD1	UBXDC2
10	LIPF	ENSG00000182333	ENST00000238983	protein_coding	KNOWN	CCDS7389	6622	1197	398	90424214	90438571	1	None	HGL, HLAL
10	LIPF	ENSG00000182333	ENST00000355843	protein_coding	KNOWN	CCDS55719	6622	1098	365	90424215	90438571	1	None	HGL, HLAL
10	LIPF	ENSG00000182333	ENST00000496797	processed_transcript	KNOWN	None	6622	None	None	90435250	90438271	1	None	HGL, HLAL
10	LIPF	ENSG00000182333	ENST00000394375	protein_coding	KNOWN	CCDS55718	6622	1227	408	90424198	90438568	1	None	HGL, HLAL
9	MORN5	ENSG00000185681	ENST00000373764	protein_coding	KNOWN	CCDS6836	17841	486	161	124922190	124962367	1	C9orf113, C9orf18	FLJ46909
9	MORN5	ENSG00000185681	ENST00000418632	protein_coding	KNOWN	None	17841	332	109	124926894	124936847	1	C9orf113, C9orf18	FLJ46909
9	MORN5	ENSG00000185681	ENST00000486801	processed_transcript	KNOWN	None	17841	None	None	124929047	124962362	1	C9orf113, C9orf18	FLJ46909
9	MORN5	ENSG00000185681	ENST00000477017	processed_transcript	KNOWN	None	17841	None	None	124931940	124937033	1	C9orf113, C9orf18	FLJ46909
9	MORN5	ENSG00000185681	ENST00000536616	protein_coding	KNOWN	None	17841	528	175	124922214	124937972	1	C9orf113, C9orf18	FLJ46909
4	PET112	ENSG00000059691	ENST00000263985	protein_coding	KNOWN	CCDS3776	8849	1674	557	152591656	152682175	-1	PET112L	None
4	PET112	ENSG00000059691	ENST00000510396	retained_intron	KNOWN	None	8849	None	None	152591990	152597040	-1	PET112L	None
4	PET112	ENSG00000059691	ENST00000515564	retained_intron	KNOWN	None	8849	None	None	152592001	152645632	-1	PET112L	None
4	PET112	ENSG00000059691	ENST00000515812	protein_coding	NOVEL	None	8849	1551	516	152592001	152682151	-1	PET112L	None
4	PET112	ENSG00000059691	ENST00000503160	nonsense_mediated_decay	KNOWN	None	8849	410	135	152592015	152682082	-1	PET112L	None
4	PET112	ENSG00000059691	ENST00000510720	nonsense_mediated_decay	KNOWN	None	8849	397	131	152592040	152622670	-1	PET112L	None
4	PET112	ENSG00000059691	ENST00000507592	processed_transcript	KNOWN	None	8849	None	None	152592096	152608235	-1	PET112L	None
4	PET112	ENSG00000059691	ENST00000513504	processed_transcript	KNOWN	None	8849	None	None	152592288	152612876	-1	PET112L	None
4	PET112	ENSG00000059691	ENST00000505211	retained_intron	KNOWN	None	8849	None	None	152609889	152637396	-1	PET112L	None
4	PET112	ENSG00000059691	ENST00000515884	nonsense_mediated_decay	KNOWN	None	8849	424	140	152622548	152682105	-1	PET112L	None
4	PET112	ENSG00000059691	ENST00000511538	nonsense_mediated_decay	KNOWN	None	8849	441	146	152624331	152682122	-1	PET112L	None
4	PET112	ENSG00000059691	ENST00000512306	protein_coding	PUTATIVE	None	8849	1074	357	152624494	152682137	-1	PET112L	None
4	PET112	ENSG00000059691	ENST00000515490	retained_intron	KNOWN	None	8849	None	None	152626382	152638483	-1	PET112L	None
4	PET112	ENSG00000059691	ENST00000508611	protein_coding	PUTATIVE	None	8849	348	115	152643098	152682142	-1	PET112L	None
9	LHX6	ENSG00000106852	ENST00000373755	protein_coding	KNOWN	CCDS56583	21735	1092	363	124964856	124989865	-1	None	LHX6.1
9	LHX6	ENSG00000106852	ENST00000373754	protein_coding	NOVEL	None	21735	1047	348	124964856	124989865	-1	None	LHX6.1
9	LHX6	ENSG00000106852	ENST00000340587	protein_coding	KNOWN	CCDS6837	21735	1134	377	124964856	124991220	-1	None	LHX6.1
9	LHX6	ENSG00000106852	ENST00000394319	protein_coding	KNOWN	CCDS6838	21735	1179	392	124964857	124991124	-1	None	LHX6.1
9	LHX6	ENSG00000106852	ENST00000559895	protein_coding	KNOWN	CCDS59144	21735	531	176	124964862	124984019	-1	None	LHX6.1
9	LHX6	ENSG00000106852	ENST00000541397	protein_coding	KNOWN	CCDS56584	21735	1101	366	124965210	124990707	-1	None	LHX6.1
9	LHX6	ENSG00000106852	ENST00000464484	protein_coding	PUTATIVE	None	21735	108	35	124966410	124976201	-1	None	LHX6.1
9	LHX6	ENSG00000106852	ENST00000482062	protein_coding	PUTATIVE	None	21735	153	50	124966534	124976172	-1	None	LHX6.1
9	LHX6	ENSG00000106852	ENST00000558672	retained_intron	KNOWN	None	21735	None	None	124979362	124989040	-1	None	LHX6.1
9	LHX6	ENSG00000106852	ENST00000560152	retained_intron	KNOWN	None	21735	None	None	124979384	124989402	-1	None	LHX6.1
9	LHX6	ENSG00000106852	ENST00000560485	protein_coding	KNOWN	None	21735	101	32	124989278	124990710	-1	None	LHX6.1
9	LHX6	ENSG00000106852	ENST00000559529	processed_transcript	KNOWN	None	21735	None	None	124989695	124991905	-1	None	LHX6.1
10	LIPK	ENSG00000204021	ENST00000404190	protein_coding	KNOWN	CCDS44455	23444	1200	399	90484301	90512543	1	LIPL2	bA186O14.2
10	LIPN	ENSG00000204020	ENST00000404459	protein_coding	KNOWN	CCDS44456	23452	1197	398	90521163	90537999	1	LIPL4	bA186O14.3
10	LIPM	ENSG00000173239	ENST00000404743	protein_coding	KNOWN	CCDS44457	23455	1272	423	90562487	90580258	1	LIPL3	bA304I5.1
10	LIPM	ENSG00000173239	ENST00000539337	protein_coding	KNOWN	None	23455	1152	383	90562705	90580303	1	LIPL3	bA304I5.1
19	None	ENSG00000167674	ENST00000301284	protein_coding	KNOWN	CCDS42472	None	2031	676	4472284	4502223	1	None	None
19	None	ENSG00000167674	ENST00000586684	protein_coding	KNOWN	CCDS59336	None	2028	675	4472303	4502219	1	None	None
19	None	ENSG00000167674	ENST00000601353	nonsense_mediated_decay	KNOWN	None	None	294	97	4472305	4491679	1	None	None
19	None	ENSG00000167674	ENST00000589486	protein_coding	PUTATIVE	None	None	363	120	4474889	4493759	1	None	None
19	None	ENSG00000167674	ENST00000592691	protein_coding	PUTATIVE	None	None	74	23	4474909	4488833	1	None	None
19	None	ENSG00000167674	ENST00000590872	nonsense_mediated_decay	KNOWN	None	None	1420	472	4475346	4502213	1	None	None
19	None	ENSG00000167674	ENST00000587016	protein_coding	PUTATIVE	None	None	527	174	4496330	4502116	1	None	None
19	None	ENSG00000167674	ENST00000592417	protein_coding	PUTATIVE	None	None	519	172	4498016	4502219	1	None	None
19	None	ENSG00000167674	ENST00000586428	protein_coding	PUTATIVE	None	None	477	158	4498359	4502220	1	None	None
19	None	ENSG00000167674	ENST00000591328	protein_coding	PUTATIVE	None	None	254	83	4499586	4502045	1	None	None
19	None	ENSG00000167674	ENST00000588271	protein_coding	PUTATIVE	None	None	222	73	4499626	4501590	1	None	None
10	ANKRD22	ENSG00000152766	ENST00000371930	protein_coding	KNOWN	CCDS7390	28321	576	191	90581889	90611575	-1	None	MGC22805
10	ANKRD22	ENSG00000152766	ENST00000476963	processed_transcript	KNOWN	None	28321	None	None	90582558	90583272	-1	None	MGC22805
10	STAMBPL1	ENSG00000138134	ENST00000371926	protein_coding	KNOWN	CCDS7391	24105	1311	436	90639491	90683244	1	None	AMSH-LP, KIAA1373, AMSH-FP, FLJ31524, ALMalpha, bA399O19.2
10	STAMBPL1	ENSG00000138134	ENST00000371927	protein_coding	KNOWN	None	24105	1386	461	90639491	90734910	1	None	AMSH-LP, KIAA1373, AMSH-FP, FLJ31524, ALMalpha, bA399O19.2
10	STAMBPL1	ENSG00000138134	ENST00000461650	processed_transcript	KNOWN	None	24105	None	None	90639981	90653670	1	None	AMSH-LP, KIAA1373, AMSH-FP, FLJ31524, ALMalpha, bA399O19.2
10	STAMBPL1	ENSG00000138134	ENST00000468698	processed_transcript	KNOWN	None	24105	None	None	90641840	90642614	1	None	AMSH-LP, KIAA1373, AMSH-FP, FLJ31524, ALMalpha, bA399O19.2
10	STAMBPL1	ENSG00000138134	ENST00000371924	protein_coding	KNOWN	CCDS7391	24105	1311	436	90660832	90683244	1	None	AMSH-LP, KIAA1373, AMSH-FP, FLJ31524, ALMalpha, bA399O19.2
10	STAMBPL1	ENSG00000138134	ENST00000371922	protein_coding	KNOWN	None	24105	813	270	90672113	90683244	1	None	AMSH-LP, KIAA1373, AMSH-FP, FLJ31524, ALMalpha, bA399O19.2
HSCHR6_MHC_COX	ZBTB12	ENSG00000237900	ENST00000441555	protein_coding	KNOWN	None	19066	1380	459	31854934	31857319	-1	C6orf46	G10, NG35, D6S59E
5	CD180	ENSG00000134061	ENST00000256447	protein_coding	KNOWN	CCDS3992	6726	1986	661	66478103	66492627	-1	LY64	RP105, Ly78
5	CD180	ENSG00000134061	ENST00000515027	retained_intron	KNOWN	None	6726	None	None	66480350	66482125	-1	LY64	RP105, Ly78
5	None	ENSG00000253787	ENST00000520762	protein_coding	PUTATIVE	None	None	162	53	67485704	67494235	1	None	None
5	PIK3R1	ENSG00000145675	ENST00000521381	protein_coding	KNOWN	CCDS3993	8979	2175	724	67511548	67597649	1	None	GRB1, p85-ALPHA, p85
5	PIK3R1	ENSG00000145675	ENST00000521657	protein_coding	KNOWN	CCDS3993	8979	2175	724	67511604	67594581	1	None	GRB1, p85-ALPHA, p85
5	PIK3R1	ENSG00000145675	ENST00000517643	processed_transcript	PUTATIVE	None	8979	None	None	67513294	67522370	1	None	GRB1, p85-ALPHA, p85
5	PIK3R1	ENSG00000145675	ENST00000517412	retained_intron	KNOWN	None	8979	None	None	67522265	67569509	1	None	GRB1, p85-ALPHA, p85
5	PIK3R1	ENSG00000145675	ENST00000520675	protein_coding	PUTATIVE	None	8979	395	130	67535726	67576410	1	None	GRB1, p85-ALPHA, p85
5	PIK3R1	ENSG00000145675	ENST00000523807	protein_coding	PUTATIVE	None	8979	352	116	67576068	67589174	1	None	GRB1, p85-ALPHA, p85
5	PIK3R1	ENSG00000145675	ENST00000522084	protein_coding	PUTATIVE	None	8979	308	101	67576135	67589027	1	None	GRB1, p85-ALPHA, p85
5	PIK3R1	ENSG00000145675	ENST00000320694	protein_coding	KNOWN	CCDS3994	8979	1275	424	67584196	67594411	1	None	GRB1, p85-ALPHA, p85
5	PIK3R1	ENSG00000145675	ENST00000521409	protein_coding	KNOWN	None	8979	413	136	67584523	67590440	1	None	GRB1, p85-ALPHA, p85
5	PIK3R1	ENSG00000145675	ENST00000336483	protein_coding	KNOWN	CCDS3995	8979	1365	454	67586465	67594411	1	None	GRB1, p85-ALPHA, p85
5	PIK3R1	ENSG00000145675	ENST00000518292	retained_intron	KNOWN	None	8979	None	None	67586500	67589220	1	None	GRB1, p85-ALPHA, p85
5	PIK3R1	ENSG00000145675	ENST00000517698	nonsense_mediated_decay	KNOWN	None	8979	117	38	67586510	67591313	1	None	GRB1, p85-ALPHA, p85
5	PIK3R1	ENSG00000145675	ENST00000518813	retained_intron	KNOWN	None	8979	None	None	67586628	67594433	1	None	GRB1, p85-ALPHA, p85
5	PIK3R1	ENSG00000145675	ENST00000519025	protein_coding	PUTATIVE	None	8979	567	188	67588314	67590486	1	None	GRB1, p85-ALPHA, p85
5	PIK3R1	ENSG00000145675	ENST00000523872	protein_coding	PUTATIVE	CCDS56374	8979	1086	361	67588396	67594584	1	None	GRB1, p85-ALPHA, p85
5	PIK3R1	ENSG00000145675	ENST00000520550	retained_intron	KNOWN	None	8979	None	None	67588511	67591571	1	None	GRB1, p85-ALPHA, p85
5	PIK3R1	ENSG00000145675	ENST00000396611	protein_coding	KNOWN	None	8979	2199	732	67522462	67597647	1	None	GRB1, p85-ALPHA, p85
5	PIK3R1	ENSG00000145675	ENST00000274335	protein_coding	KNOWN	CCDS3993	8979	2175	724	67522462	67597647	1	None	GRB1, p85-ALPHA, p85
16	NTAN1	ENSG00000157045	ENST00000287706	protein_coding	KNOWN	CCDS10558	29909	933	310	15131710	15149921	-1	None	None
16	NTAN1	ENSG00000157045	ENST00000566542	retained_intron	KNOWN	None	29909	None	None	15131711	15139911	-1	None	None
16	NTAN1	ENSG00000157045	ENST00000565187	nonsense_mediated_decay	KNOWN	None	29909	138	45	15131731	15149884	-1	None	None
16	NTAN1	ENSG00000157045	ENST00000568738	nonsense_mediated_decay	KNOWN	None	29909	57	18	15132002	15141351	-1	None	None
16	NTAN1	ENSG00000157045	ENST00000568320	protein_coding	PUTATIVE	None	29909	438	145	15132431	15149911	-1	None	None
16	NTAN1	ENSG00000157045	ENST00000566419	protein_coding	NOVEL	None	29909	670	222	15132433	15149896	-1	None	None
16	NTAN1	ENSG00000157045	ENST00000570292	retained_intron	KNOWN	None	29909	None	None	15132465	15134324	-1	None	None
16	NTAN1	ENSG00000157045	ENST00000563940	nonsense_mediated_decay	KNOWN	None	29909	84	27	15135480	15149774	-1	None	None
16	NTAN1	ENSG00000157045	ENST00000567030	retained_intron	KNOWN	None	29909	None	None	15141073	15149800	-1	None	None
16	NTAN1	ENSG00000157045	ENST00000567420	retained_intron	KNOWN	None	29909	None	None	15141285	15149644	-1	None	None
9	RBM18	ENSG00000119446	ENST00000417201	protein_coding	KNOWN	CCDS6839	28413	573	190	124999903	125027118	-1	None	MGC2734
9	RBM18	ENSG00000119446	ENST00000491850	processed_transcript	KNOWN	None	28413	None	None	125003949	125009825	-1	None	MGC2734
9	RBM18	ENSG00000119446	ENST00000483428	processed_transcript	KNOWN	None	28413	None	None	125004037	125027073	-1	None	MGC2734
10	ACTA2	ENSG00000107796	ENST00000224784	protein_coding	KNOWN	CCDS7392	130	1134	377	90694831	90712530	-1	None	ACTSA
10	ACTA2	ENSG00000107796	ENST00000480297	processed_transcript	KNOWN	None	130	None	None	90700758	90712504	-1	None	ACTSA
10	ACTA2	ENSG00000107796	ENST00000458159	protein_coding	KNOWN	None	130	454	150	90701542	90751045	-1	None	ACTSA
10	ACTA2	ENSG00000107796	ENST00000415557	protein_coding	KNOWN	None	130	454	150	90701542	90751096	-1	None	ACTSA
10	ACTA2	ENSG00000107796	ENST00000488967	processed_transcript	KNOWN	None	130	None	None	90706577	90712530	-1	None	ACTSA
10	ACTA2	ENSG00000107796	ENST00000482085	processed_transcript	KNOWN	None	130	None	None	90707999	90712530	-1	None	ACTSA
10	ACTA2	ENSG00000107796	ENST00000458208	protein_coding	KNOWN	CCDS7392	130	1134	377	90694833	90751147	-1	None	ACTSA
4	FBXW7	ENSG00000109670	ENST00000281708	protein_coding	KNOWN	CCDS3777	16712	2124	707	153242410	153457253	-1	None	AGO, FLJ11071, SEL-10, SEL10, FBW7, FBX30, CDC4, FBXW6
4	FBXW7	ENSG00000109670	ENST00000296555	protein_coding	KNOWN	CCDS34078	16712	1770	589	153242411	153303667	-1	None	AGO, FLJ11071, SEL-10, SEL10, FBW7, FBX30, CDC4, FBXW6
4	FBXW7	ENSG00000109670	ENST00000263981	protein_coding	KNOWN	CCDS3778	16712	1884	627	153242415	153274123	-1	None	AGO, FLJ11071, SEL-10, SEL10, FBW7, FBX30, CDC4, FBXW6
4	FBXW7	ENSG00000109670	ENST00000603548	protein_coding	KNOWN	CCDS3777	16712	2124	707	153243775	153456153	-1	None	AGO, FLJ11071, SEL-10, SEL10, FBW7, FBX30, CDC4, FBXW6
4	FBXW7	ENSG00000109670	ENST00000603821	retained_intron	KNOWN	None	16712	None	None	153243971	153250225	-1	None	AGO, FLJ11071, SEL-10, SEL10, FBW7, FBX30, CDC4, FBXW6
4	FBXW7	ENSG00000109670	ENST00000393956	protein_coding	PUTATIVE	None	16712	1596	531	153243971	153269958	-1	None	AGO, FLJ11071, SEL-10, SEL10, FBW7, FBX30, CDC4, FBXW6
4	FBXW7	ENSG00000109670	ENST00000603841	protein_coding	KNOWN	CCDS3777	16712	2124	707	153243971	153333030	-1	None	AGO, FLJ11071, SEL-10, SEL10, FBW7, FBX30, CDC4, FBXW6
4	FBXW7	ENSG00000109670	ENST00000604316	retained_intron	KNOWN	None	16712	None	None	153244027	153245588	-1	None	AGO, FLJ11071, SEL-10, SEL10, FBW7, FBX30, CDC4, FBXW6
4	FBXW7	ENSG00000109670	ENST00000604069	retained_intron	KNOWN	None	16712	None	None	153247374	153253919	-1	None	AGO, FLJ11071, SEL-10, SEL10, FBW7, FBX30, CDC4, FBXW6
4	FBXW7	ENSG00000109670	ENST00000604822	retained_intron	KNOWN	None	16712	None	None	153267964	153273848	-1	None	AGO, FLJ11071, SEL-10, SEL10, FBW7, FBX30, CDC4, FBXW6
4	FBXW7	ENSG00000109670	ENST00000604872	protein_coding	PUTATIVE	None	16712	531	176	153332312	153456392	-1	None	AGO, FLJ11071, SEL-10, SEL10, FBW7, FBX30, CDC4, FBXW6
4	FBXW7	ENSG00000109670	ENST00000605042	protein_coding	KNOWN	None	16712	475	157	153332481	153333758	-1	None	AGO, FLJ11071, SEL-10, SEL10, FBW7, FBX30, CDC4, FBXW6
4	FBXW7	ENSG00000109670	ENST00000604095	processed_transcript	KNOWN	None	16712	None	None	153451425	153456362	-1	None	AGO, FLJ11071, SEL-10, SEL10, FBW7, FBX30, CDC4, FBXW6
9	MRRF	ENSG00000148187	ENST00000344641	protein_coding	KNOWN	CCDS6840	7234	789	262	125026935	125085743	1	None	RRF
9	MRRF	ENSG00000148187	ENST00000441707	protein_coding	KNOWN	None	7234	459	152	125027166	125047566	1	None	RRF
9	MRRF	ENSG00000148187	ENST00000373729	protein_coding	KNOWN	None	7234	657	218	125027183	125085003	1	None	RRF
9	MRRF	ENSG00000148187	ENST00000373727	protein_coding	KNOWN	None	7234	477	158	125027193	125047673	1	None	RRF
9	MRRF	ENSG00000148187	ENST00000373728	protein_coding	KNOWN	None	7234	477	158	125027193	125048006	1	None	RRF
9	MRRF	ENSG00000148187	ENST00000470366	nonsense_mediated_decay	KNOWN	None	7234	507	168	125027205	125084957	1	None	RRF
9	MRRF	ENSG00000148187	ENST00000373724	protein_coding	KNOWN	None	7234	375	124	125027741	125048225	1	None	RRF
9	MRRF	ENSG00000148187	ENST00000467864	nonsense_mediated_decay	KNOWN	None	7234	531	176	125033087	125075609	1	None	RRF
9	MRRF	ENSG00000148187	ENST00000489572	nonsense_mediated_decay	KNOWN	None	7234	507	168	125033127	125085367	1	None	RRF
9	MRRF	ENSG00000148187	ENST00000297908	protein_coding	KNOWN	CCDS55336	7234	633	210	125026882	125085740	1	None	RRF
9	MRRF	ENSG00000148187	ENST00000373723	protein_coding	KNOWN	CCDS48013	7234	606	201	125026882	125085740	1	None	RRF
9	MRRF	ENSG00000148187	ENST00000394315	protein_coding	KNOWN	CCDS48013	7234	606	201	125033143	125085740	1	None	RRF
9	MRRF	ENSG00000148187	ENST00000373730	protein_coding	KNOWN	None	7234	531	176	125026882	125048389	1	None	RRF
9	MRRF	ENSG00000148187	ENST00000546115	protein_coding	KNOWN	None	7234	507	168	125026882	125048106	1	None	RRF
19	PLIN4	ENSG00000167676	ENST00000301286	protein_coding	NOVEL	CCDS45927	29393	4074	1357	4502204	4517716	-1	KIAA1881	S3-12
16	RRN3	ENSG00000085721	ENST00000198767	protein_coding	KNOWN	CCDS10559	30346	1956	651	15153879	15188174	-1	None	DKFZp566E104
16	RRN3	ENSG00000085721	ENST00000563559	protein_coding	PUTATIVE	None	30346	1917	638	15153892	15188168	-1	None	DKFZp566E104
16	RRN3	ENSG00000085721	ENST00000429751	protein_coding	NOVEL	None	30346	1866	621	15155285	15188106	-1	None	DKFZp566E104
16	RRN3	ENSG00000085721	ENST00000327307	protein_coding	PUTATIVE	None	30346	1857	618	15155486	15187865	-1	None	DKFZp566E104
16	RRN3	ENSG00000085721	ENST00000561685	retained_intron	KNOWN	None	30346	None	None	15168534	15177607	-1	None	DKFZp566E104
16	RRN3	ENSG00000085721	ENST00000564131	protein_coding	PUTATIVE	None	30346	918	305	15170292	15188110	-1	None	DKFZp566E104
16	RRN3	ENSG00000085721	ENST00000540462	protein_coding	KNOWN	None	30346	1410	469	15155595	15180257	-1	None	DKFZp566E104
19	PLIN5	ENSG00000214456	ENST00000381848	protein_coding	KNOWN	CCDS42473	33196	1392	463	4522543	4535236	-1	None	LSDP5, LSDA5, OXPAT, MLDP
19	PLIN5	ENSG00000214456	ENST00000589728	retained_intron	KNOWN	None	33196	None	None	4523921	4525861	-1	None	LSDP5, LSDA5, OXPAT, MLDP
19	PLIN5	ENSG00000214456	ENST00000590350	retained_intron	KNOWN	None	33196	None	None	4529290	4535197	-1	None	LSDP5, LSDA5, OXPAT, MLDP
19	PLIN5	ENSG00000214456	ENST00000588887	protein_coding	PUTATIVE	None	33196	516	171	4529422	4535236	-1	None	LSDP5, LSDA5, OXPAT, MLDP
19	PLIN5	ENSG00000214456	ENST00000592610	protein_coding	PUTATIVE	None	33196	177	58	4532384	4534286	-1	None	LSDP5, LSDA5, OXPAT, MLDP
19	PLIN5	ENSG00000214456	ENST00000586133	protein_coding	PUTATIVE	None	33196	177	58	4533261	4535236	-1	None	LSDP5, LSDA5, OXPAT, MLDP
19	None	ENSG00000267385	ENST00000586020	nonsense_mediated_decay	KNOWN	None	None	255	84	4528439	4540079	-1	None	None
HSCHR6_MHC_COX	None	ENSG00000257320	ENST00000553090	protein_coding	NOVEL	None	None	246	81	31866341	31866586	-1	None	None
19	LRG1	ENSG00000171236	ENST00000306390	protein_coding	KNOWN	CCDS12130	29480	1044	347	4536421	4540486	-1	None	LRG
19	LRG1	ENSG00000171236	ENST00000586883	processed_transcript	KNOWN	None	29480	None	None	4538486	4540048	-1	None	LRG
10	FAS	ENSG00000026103	ENST00000355740	protein_coding	KNOWN	CCDS7393	11920	1008	335	90750414	90775542	1	FAS1, APT1, TNFRSF6	CD95, APO-1
10	FAS	ENSG00000026103	ENST00000352159	protein_coding	PUTATIVE	None	11920	702	233	90750444	90774712	1	FAS1, APT1, TNFRSF6	CD95, APO-1
10	FAS	ENSG00000026103	ENST00000484444	nonsense_mediated_decay	KNOWN	None	11920	312	103	90750488	90774376	1	FAS1, APT1, TNFRSF6	CD95, APO-1
10	FAS	ENSG00000026103	ENST00000357339	protein_coding	KNOWN	CCDS7394	11920	945	314	90750535	90774207	1	FAS1, APT1, TNFRSF6	CD95, APO-1
10	FAS	ENSG00000026103	ENST00000488877	nonsense_mediated_decay	KNOWN	None	11920	450	149	90750609	90774207	1	FAS1, APT1, TNFRSF6	CD95, APO-1
10	FAS	ENSG00000026103	ENST00000494410	nonsense_mediated_decay	KNOWN	None	11920	450	149	90750609	90774341	1	FAS1, APT1, TNFRSF6	CD95, APO-1
10	FAS	ENSG00000026103	ENST00000479522	nonsense_mediated_decay	KNOWN	None	11920	261	86	90750609	90774341	1	FAS1, APT1, TNFRSF6	CD95, APO-1
10	FAS	ENSG00000026103	ENST00000492756	nonsense_mediated_decay	KNOWN	None	11920	399	132	90750634	90774207	1	FAS1, APT1, TNFRSF6	CD95, APO-1
10	FAS	ENSG00000026103	ENST00000355279	protein_coding	NOVEL	CCDS7395	11920	663	220	90750634	90774207	1	FAS1, APT1, TNFRSF6	CD95, APO-1
10	FAS	ENSG00000026103	ENST00000460510	processed_transcript	KNOWN	None	11920	None	None	90750717	90768754	1	FAS1, APT1, TNFRSF6	CD95, APO-1
10	FAS	ENSG00000026103	ENST00000477270	processed_transcript	KNOWN	None	11920	None	None	90750777	90770572	1	FAS1, APT1, TNFRSF6	CD95, APO-1
10	FAS	ENSG00000026103	ENST00000313771	processed_transcript	KNOWN	None	11920	None	None	90751045	90773934	1	FAS1, APT1, TNFRSF6	CD95, APO-1
10	FAS	ENSG00000026103	ENST00000466081	processed_transcript	KNOWN	None	11920	None	None	90751185	90770417	1	FAS1, APT1, TNFRSF6	CD95, APO-1
10	FAS	ENSG00000026103	ENST00000371857	retained_intron	KNOWN	None	11920	None	None	90751188	90770709	1	FAS1, APT1, TNFRSF6	CD95, APO-1
10	FAS	ENSG00000026103	ENST00000494799	processed_transcript	KNOWN	None	11920	None	None	90751200	90773973	1	FAS1, APT1, TNFRSF6	CD95, APO-1
10	FAS	ENSG00000026103	ENST00000487314	processed_transcript	KNOWN	None	11920	None	None	90751205	90771979	1	FAS1, APT1, TNFRSF6	CD95, APO-1
19	SEMA6B	ENSG00000167680	ENST00000586582	protein_coding	KNOWN	CCDS12131	10739	2667	888	4542605	4559820	-1	SEMAN	semaZ, SEMA-VIB, SEM-SEMA-Y
19	SEMA6B	ENSG00000167680	ENST00000586965	protein_coding	PUTATIVE	None	10739	2034	677	4542926	4558469	-1	SEMAN	semaZ, SEMA-VIB, SEM-SEMA-Y
19	SEMA6B	ENSG00000167680	ENST00000589889	retained_intron	KNOWN	None	10739	None	None	4545802	4546481	-1	SEMAN	semaZ, SEMA-VIB, SEM-SEMA-Y
19	SEMA6B	ENSG00000167680	ENST00000301293	protein_coding	KNOWN	CCDS12131	10739	2667	888	4542600	4558507	-1	SEMAN	semaZ, SEMA-VIB, SEM-SEMA-Y
HSCHR6_MHC_COX	CFB	ENSG00000239754	ENST00000417261	protein_coding	KNOWN	None	1037	2295	764	31900979	31907413	1	BFD, BF	H2-Bf
HSCHR6_MHC_COX	CFB	ENSG00000239754	ENST00000427888	protein_coding	KNOWN	None	1037	2295	764	31901323	31907413	1	BFD, BF	H2-Bf
HSCHR6_MHC_COX	CFB	ENSG00000239754	ENST00000484113	retained_intron	KNOWN	None	1037	None	None	31901426	31902197	1	BFD, BF	H2-Bf
HSCHR6_MHC_COX	CFB	ENSG00000239754	ENST00000459734	processed_transcript	PUTATIVE	None	1037	None	None	31901455	31903172	1	BFD, BF	H2-Bf
HSCHR6_MHC_COX	CFB	ENSG00000239754	ENST00000486718	retained_intron	KNOWN	None	1037	None	None	31901551	31905974	1	BFD, BF	H2-Bf
HSCHR6_MHC_COX	CFB	ENSG00000239754	ENST00000474773	retained_intron	KNOWN	None	1037	None	None	31902610	31904880	1	BFD, BF	H2-Bf
HSCHR6_MHC_COX	CFB	ENSG00000239754	ENST00000490040	processed_transcript	KNOWN	None	1037	None	None	31903126	31904927	1	BFD, BF	H2-Bf
HSCHR6_MHC_COX	CFB	ENSG00000239754	ENST00000484015	processed_transcript	KNOWN	None	1037	None	None	31903687	31904927	1	BFD, BF	H2-Bf
HSCHR6_MHC_COX	CFB	ENSG00000239754	ENST00000478409	retained_intron	KNOWN	None	1037	None	None	31904327	31904927	1	BFD, BF	H2-Bf
HSCHR6_MHC_COX	CFB	ENSG00000239754	ENST00000477453	retained_intron	KNOWN	None	1037	None	None	31905060	31906573	1	BFD, BF	H2-Bf
HSCHR6_MHC_COX	CFB	ENSG00000239754	ENST00000480285	retained_intron	KNOWN	None	1037	None	None	31906203	31907413	1	BFD, BF	H2-Bf
HSCHR6_MHC_COX	CFB	ENSG00000239754	ENST00000463368	retained_intron	KNOWN	None	1037	None	None	31906744	31907413	1	BFD, BF	H2-Bf
9	PTGS1	ENSG00000095303	ENST00000223423	protein_coding	KNOWN	CCDS6843	9604	1689	562	125133359	125155457	1	None	COX1, PGHS-1, PTGHS
9	PTGS1	ENSG00000095303	ENST00000362012	protein_coding	KNOWN	CCDS6842	9604	1800	599	125133359	125157982	1	None	COX1, PGHS-1, PTGHS
9	PTGS1	ENSG00000095303	ENST00000426608	protein_coding	KNOWN	None	9604	468	155	125133467	125145811	1	None	COX1, PGHS-1, PTGHS
9	PTGS1	ENSG00000095303	ENST00000540753	protein_coding	KNOWN	CCDS59520	9604	1614	537	125132824	125154933	1	None	COX1, PGHS-1, PTGHS
9	PTGS1	ENSG00000095303	ENST00000373698	protein_coding	KNOWN	CCDS59521	9604	1473	490	125137601	125155067	1	None	COX1, PGHS-1, PTGHS
16	NPIPA5	ENSG00000183793	ENST00000360151	protein_coding	NOVEL	CCDS59264	41980	1053	350	15457516	15472151	-1	None	None
16	NPIPA5	ENSG00000183793	ENST00000534094	protein_coding	NOVEL	None	41980	954	317	15459031	15474904	-1	None	None
16	NPIPA5	ENSG00000183793	ENST00000543801	protein_coding	KNOWN	None	41980	699	232	15457815	15472151	-1	None	None
16	NPIPA5	ENSG00000183793	ENST00000432570	protein_coding	KNOWN	None	41980	528	175	15458702	15463926	-1	None	None
5	SLC30A5	ENSG00000145740	ENST00000396591	protein_coding	KNOWN	CCDS3996	19089	2298	765	68389473	68426896	1	None	ZTL1, ZnT-5, FLJ12496, FLJ12756, ZNT5, MGC5499, ZNTL1
5	SLC30A5	ENSG00000145740	ENST00000380860	protein_coding	KNOWN	CCDS34173	19089	357	118	68389818	68400567	1	None	ZTL1, ZnT-5, FLJ12496, FLJ12756, ZNT5, MGC5499, ZNTL1
5	SLC30A5	ENSG00000145740	ENST00000504103	protein_coding	NOVEL	None	19089	215	70	68389916	68400522	1	None	ZTL1, ZnT-5, FLJ12496, FLJ12756, ZNT5, MGC5499, ZNTL1
5	SLC30A5	ENSG00000145740	ENST00000502979	protein_coding	NOVEL	CCDS58955	19089	234	77	68390025	68400261	1	None	ZTL1, ZnT-5, FLJ12496, FLJ12756, ZNT5, MGC5499, ZNTL1
5	SLC30A5	ENSG00000145740	ENST00000507354	retained_intron	KNOWN	None	19089	None	None	68398399	68419366	1	None	ZTL1, ZnT-5, FLJ12496, FLJ12756, ZNT5, MGC5499, ZNTL1
5	SLC30A5	ENSG00000145740	ENST00000513937	nonsense_mediated_decay	KNOWN	None	19089	196	64	68413170	68419247	1	None	ZTL1, ZnT-5, FLJ12496, FLJ12756, ZNT5, MGC5499, ZNTL1
5	SLC30A5	ENSG00000145740	ENST00000512367	retained_intron	KNOWN	None	19089	None	None	68414199	68417722	1	None	ZTL1, ZnT-5, FLJ12496, FLJ12756, ZNT5, MGC5499, ZNTL1
5	SLC30A5	ENSG00000145740	ENST00000511158	protein_coding	NOVEL	None	19089	254	83	68419170	68425953	1	None	ZTL1, ZnT-5, FLJ12496, FLJ12756, ZNT5, MGC5499, ZNTL1
16	None	ENSG00000261130	ENST00000568766	protein_coding	PUTATIVE	None	None	354	117	15489611	15609205	1	None	None
16	None	ENSG00000261130	ENST00000568222	nonsense_mediated_decay	KNOWN	None	None	362	119	15489807	15609190	1	None	None
16	None	ENSG00000261130	ENST00000567442	nonsense_mediated_decay	KNOWN	None	None	293	96	15489807	15609190	1	None	None
16	MPV17L	ENSG00000156968	ENST00000287594	protein_coding	KNOWN	CCDS10560	26827	444	147	15489611	15503458	1	None	FLJ39599, MLPH1, MLPH2, MPV17L1
16	MPV17L	ENSG00000156968	ENST00000396385	protein_coding	KNOWN	CCDS45421	26827	591	196	15489636	15502296	1	None	FLJ39599, MLPH1, MLPH2, MPV17L1
16	MPV17L	ENSG00000156968	ENST00000564148	nonsense_mediated_decay	KNOWN	None	26827	159	52	15489941	15501975	1	None	FLJ39599, MLPH1, MLPH2, MPV17L1
6	OR2H2	ENSG00000204657	ENST00000383640	protein_coding	KNOWN	CCDS34365	8253	939	312	29555683	29556745	1	None	hs6M1-12
19	TNFAIP8L1	ENSG00000185361	ENST00000327473	protein_coding	KNOWN	CCDS12132	28279	561	186	4639530	4655580	1	None	MGC17791
19	TNFAIP8L1	ENSG00000185361	ENST00000598107	processed_transcript	KNOWN	None	28279	None	None	4639549	4642494	1	None	MGC17791
19	TNFAIP8L1	ENSG00000185361	ENST00000536716	protein_coding	KNOWN	CCDS12132	28279	561	186	4640029	4655580	1	None	MGC17791
4	TMEM154	ENSG00000170006	ENST00000304385	protein_coding	KNOWN	CCDS3779	26489	552	183	153539784	153601317	-1	None	FLJ32028
4	TMEM154	ENSG00000170006	ENST00000510252	retained_intron	KNOWN	None	26489	None	None	153549401	153562577	-1	None	FLJ32028
4	TMEM154	ENSG00000170006	ENST00000504064	protein_coding	KNOWN	None	26489	378	125	153567710	153601164	-1	None	FLJ32028
6	MOG	ENSG00000204655	ENST00000376917	protein_coding	KNOWN	CCDS34370	7197	744	247	29624758	29640149	1	None	None
6	MOG	ENSG00000204655	ENST00000376903	nonsense_mediated_decay	KNOWN	None	7197	138	45	29624779	29634037	1	None	None
6	MOG	ENSG00000204655	ENST00000376888	protein_coding	KNOWN	CCDS47395	7197	396	131	29624780	29639888	1	None	None
6	MOG	ENSG00000204655	ENST00000376894	protein_coding	PUTATIVE	None	7197	888	295	29624869	29640149	1	None	None
6	MOG	ENSG00000204655	ENST00000469353	retained_intron	KNOWN	None	7197	None	None	29624907	29627701	1	None	None
6	MOG	ENSG00000204655	ENST00000396704	protein_coding	KNOWN	CCDS34369	7197	675	224	29624987	29638962	1	None	None
6	MOG	ENSG00000204655	ENST00000483013	protein_coding	NOVEL	None	7197	279	92	29624987	29638962	1	None	None
6	MOG	ENSG00000204655	ENST00000490427	protein_coding	NOVEL	CCDS54977	7197	327	108	29624987	29638962	1	None	None
6	MOG	ENSG00000204655	ENST00000416766	protein_coding	NOVEL	None	7197	630	209	29624987	29638962	1	None	None
6	MOG	ENSG00000204655	ENST00000376891	protein_coding	KNOWN	CCDS34368	7197	621	206	29624987	29639495	1	None	None
6	MOG	ENSG00000204655	ENST00000376898	protein_coding	KNOWN	CCDS4667	7197	759	252	29624987	29639495	1	None	None
6	MOG	ENSG00000204655	ENST00000396701	protein_coding	KNOWN	CCDS34367	7197	642	213	29624987	29639495	1	None	None
6	MOG	ENSG00000204655	ENST00000494692	protein_coding	KNOWN	CCDS34366	7197	690	229	29624987	29639495	1	None	None
6	MOG	ENSG00000204655	ENST00000431798	protein_coding	KNOWN	CCDS47394	7197	627	208	29624987	29640149	1	None	None
6	MOG	ENSG00000204655	ENST00000476244	processed_transcript	KNOWN	None	7197	None	None	29624993	29631772	1	None	None
6	MOG	ENSG00000204655	ENST00000469603	processed_transcript	KNOWN	None	7197	None	None	29624993	29632512	1	None	None
6	MOG	ENSG00000204655	ENST00000485211	nonsense_mediated_decay	KNOWN	None	7197	428	141	29627096	29639495	1	None	None
6	MOG	ENSG00000204655	ENST00000376889	nonsense_mediated_decay	KNOWN	None	7197	428	141	29627096	29640149	1	None	None
6	MOG	ENSG00000204655	ENST00000485885	retained_intron	KNOWN	None	7197	None	None	29637894	29638718	1	None	None
6	MOG	ENSG00000204655	ENST00000376902	protein_coding	KNOWN	None	7197	516	171	29624758	29640147	1	None	None
6	MOG	ENSG00000204655	ENST00000533330	protein_coding	KNOWN	None	7197	516	171	29624758	29640147	1	None	None
19	C19orf10	ENSG00000074842	ENST00000599761	protein_coding	PUTATIVE	None	16948	254	83	4641386	4664918	-1	IL27, IL27w	R33729_1, IL25, SF20, IL-25, IL-27
19	C19orf10	ENSG00000074842	ENST00000262947	protein_coding	KNOWN	CCDS12133	16948	522	173	4657557	4670382	-1	IL27, IL27w	R33729_1, IL25, SF20, IL-25, IL-27
19	C19orf10	ENSG00000074842	ENST00000599630	protein_coding	PUTATIVE	None	16948	570	189	4659700	4670374	-1	IL27, IL27w	R33729_1, IL25, SF20, IL-25, IL-27
19	C19orf10	ENSG00000074842	ENST00000596031	retained_intron	KNOWN	None	16948	None	None	4660592	4668708	-1	IL27, IL27w	R33729_1, IL25, SF20, IL-25, IL-27
16	C16orf45	ENSG00000166780	ENST00000300006	protein_coding	KNOWN	CCDS10561	19213	615	204	15528152	15682116	1	None	FLJ32618
16	C16orf45	ENSG00000166780	ENST00000566490	protein_coding	NOVEL	None	19213	456	151	15528332	15681829	1	None	FLJ32618
16	C16orf45	ENSG00000166780	ENST00000570249	nonsense_mediated_decay	KNOWN	None	19213	111	36	15528393	15675175	1	None	FLJ32618
16	C16orf45	ENSG00000166780	ENST00000561813	nonsense_mediated_decay	KNOWN	None	19213	267	88	15528425	15677095	1	None	FLJ32618
16	C16orf45	ENSG00000166780	ENST00000567550	retained_intron	KNOWN	None	19213	None	None	15528445	15675249	1	None	FLJ32618
16	C16orf45	ENSG00000166780	ENST00000452191	protein_coding	KNOWN	CCDS45422	19213	564	187	15596123	15681931	1	None	FLJ32618
16	C16orf45	ENSG00000166780	ENST00000564389	protein_coding	PUTATIVE	None	19213	527	174	15609162	15681705	1	None	FLJ32618
16	C16orf45	ENSG00000166780	ENST00000561692	protein_coding	PUTATIVE	None	19213	405	134	15609200	15678039	1	None	FLJ32618
16	C16orf45	ENSG00000166780	ENST00000563380	processed_transcript	PUTATIVE	None	19213	None	None	15626900	15630805	1	None	FLJ32618
16	C16orf45	ENSG00000166780	ENST00000565857	protein_coding	PUTATIVE	None	19213	346	114	15661840	15718885	1	None	FLJ32618
16	C16orf45	ENSG00000166780	ENST00000565913	processed_transcript	KNOWN	None	19213	None	None	15670991	15681214	1	None	FLJ32618
4	TIGD4	ENSG00000169989	ENST00000304337	protein_coding	KNOWN	CCDS34079	18335	1539	512	153690506	153700916	-1	None	None
4	ARFIP1	ENSG00000164144	ENST00000451320	protein_coding	KNOWN	CCDS34080	21496	1122	373	153701089	153833509	1	None	HSU52521
4	ARFIP1	ENSG00000164144	ENST00000429148	protein_coding	NOVEL	None	21496	582	193	153701091	153832226	1	None	HSU52521
4	ARFIP1	ENSG00000164144	ENST00000405727	protein_coding	KNOWN	CCDS3780	21496	1026	341	153701123	153831816	1	None	HSU52521
4	ARFIP1	ENSG00000164144	ENST00000356064	protein_coding	KNOWN	CCDS3780	21496	1026	341	153701137	153831396	1	None	HSU52521
4	ARFIP1	ENSG00000164144	ENST00000510831	processed_transcript	KNOWN	None	21496	None	None	153701145	153731540	1	None	HSU52521
4	ARFIP1	ENSG00000164144	ENST00000509413	processed_transcript	KNOWN	None	21496	None	None	153701261	153731538	1	None	HSU52521
4	ARFIP1	ENSG00000164144	ENST00000511289	processed_transcript	KNOWN	None	21496	None	None	153771795	153802325	1	None	HSU52521
4	ARFIP1	ENSG00000164144	ENST00000513361	processed_transcript	KNOWN	None	21496	None	None	153771800	153802263	1	None	HSU52521
4	ARFIP1	ENSG00000164144	ENST00000514499	processed_transcript	KNOWN	None	21496	None	None	153804397	153831530	1	None	HSU52521
4	ARFIP1	ENSG00000164144	ENST00000510497	processed_transcript	KNOWN	None	21496	None	None	153832722	153839615	1	None	HSU52521
4	ARFIP1	ENSG00000164144	ENST00000353617	protein_coding	KNOWN	CCDS34080	21496	1122	373	153701112	153833064	1	None	HSU52521
19	DPP9	ENSG00000142002	ENST00000594671	protein_coding	NOVEL	None	18648	2511	836	4675236	4714318	-1	None	None
19	DPP9	ENSG00000142002	ENST00000262960	protein_coding	KNOWN	CCDS45928	18648	2679	892	4675238	4723875	-1	None	None
19	DPP9	ENSG00000142002	ENST00000597145	retained_intron	KNOWN	None	18648	None	None	4675776	4714232	-1	None	None
19	DPP9	ENSG00000142002	ENST00000601720	protein_coding	NOVEL	None	18648	661	219	4676476	4688815	-1	None	None
19	DPP9	ENSG00000142002	ENST00000598800	protein_coding	NOVEL	None	18648	2592	863	4676576	4723818	-1	None	None
19	DPP9	ENSG00000142002	ENST00000597900	nonsense_mediated_decay	KNOWN	None	18648	188	61	4679849	4685759	-1	None	None
19	DPP9	ENSG00000142002	ENST00000601173	processed_transcript	KNOWN	None	18648	None	None	4682956	4684822	-1	None	None
19	DPP9	ENSG00000142002	ENST00000595327	protein_coding	NOVEL	None	18648	423	140	4685640	4690918	-1	None	None
19	DPP9	ENSG00000142002	ENST00000597253	retained_intron	KNOWN	None	18648	None	None	4688304	4694747	-1	None	None
19	DPP9	ENSG00000142002	ENST00000599998	retained_intron	KNOWN	None	18648	None	None	4689668	4695106	-1	None	None
19	DPP9	ENSG00000142002	ENST00000599163	nonsense_mediated_decay	KNOWN	None	18648	456	151	4690890	4704163	-1	None	None
19	DPP9	ENSG00000142002	ENST00000597849	protein_coding	PUTATIVE	None	18648	1557	518	4694329	4723762	-1	None	None
19	DPP9	ENSG00000142002	ENST00000601764	retained_intron	KNOWN	None	18648	None	None	4694330	4723825	-1	None	None
19	DPP9	ENSG00000142002	ENST00000597726	protein_coding	PUTATIVE	None	18648	205	67	4702696	4723854	-1	None	None
19	DPP9	ENSG00000142002	ENST00000600621	protein_coding	KNOWN	None	18648	421	139	4705875	4722784	-1	None	None
19	DPP9	ENSG00000142002	ENST00000600556	nonsense_mediated_decay	KNOWN	None	18648	189	62	4705911	4723832	-1	None	None
19	DPP9	ENSG00000142002	ENST00000602161	protein_coding	KNOWN	None	18648	369	122	4705927	4723847	-1	None	None
19	DPP9	ENSG00000142002	ENST00000598360	protein_coding	KNOWN	None	18648	358	118	4705938	4722743	-1	None	None
19	DPP9	ENSG00000142002	ENST00000598041	protein_coding	KNOWN	None	18648	288	95	4714118	4724685	-1	None	None
19	DPP9	ENSG00000142002	ENST00000601130	protein_coding	KNOWN	None	18648	233	76	4714173	4723854	-1	None	None
19	DPP9	ENSG00000142002	ENST00000595940	processed_transcript	KNOWN	None	18648	None	None	4714199	4723842	-1	None	None
19	DPP9	ENSG00000142002	ENST00000599248	protein_coding	PUTATIVE	None	18648	202	66	4714216	4717900	-1	None	None
19	DPP9	ENSG00000142002	ENST00000593973	protein_coding	NOVEL	None	18648	61	19	4714258	4716139	-1	None	None
19	DPP9	ENSG00000142002	ENST00000600497	processed_transcript	KNOWN	None	18648	None	None	4715902	4723794	-1	None	None
19	DPP9	ENSG00000142002	ENST00000597024	processed_transcript	KNOWN	None	18648	None	None	4719630	4723809	-1	None	None
16	KIAA0430	ENSG00000166783	ENST00000396368	protein_coding	KNOWN	CCDS10562	29562	5229	1742	15688243	15737023	-1	None	LKAP, PPP1R34, Marf1
16	KIAA0430	ENSG00000166783	ENST00000540441	protein_coding	NOVEL	None	29562	4734	1577	15688244	15736881	-1	None	LKAP, PPP1R34, Marf1
16	KIAA0430	ENSG00000166783	ENST00000552771	retained_intron	KNOWN	None	29562	None	None	15688245	15695720	-1	None	LKAP, PPP1R34, Marf1
16	KIAA0430	ENSG00000166783	ENST00000548025	protein_coding	KNOWN	CCDS55991	29562	5220	1739	15690028	15736965	-1	None	LKAP, PPP1R34, Marf1
16	KIAA0430	ENSG00000166783	ENST00000551742	protein_coding	KNOWN	CCDS53990	29562	5229	1742	15690028	15736965	-1	None	LKAP, PPP1R34, Marf1
16	KIAA0430	ENSG00000166783	ENST00000602337	protein_coding	KNOWN	CCDS55991	29562	5220	1739	15690028	15736965	-1	None	LKAP, PPP1R34, Marf1
16	KIAA0430	ENSG00000166783	ENST00000551878	nonsense_mediated_decay	KNOWN	None	29562	59	18	15690492	15694317	-1	None	LKAP, PPP1R34, Marf1
16	KIAA0430	ENSG00000166783	ENST00000552553	nonsense_mediated_decay	KNOWN	None	29562	3114	1037	15690550	15733090	-1	None	LKAP, PPP1R34, Marf1
16	KIAA0430	ENSG00000166783	ENST00000551579	retained_intron	KNOWN	None	29562	None	None	15690624	15693028	-1	None	LKAP, PPP1R34, Marf1
16	KIAA0430	ENSG00000166783	ENST00000549337	retained_intron	KNOWN	None	29562	None	None	15692779	15694836	-1	None	LKAP, PPP1R34, Marf1
16	KIAA0430	ENSG00000166783	ENST00000547936	processed_transcript	KNOWN	None	29562	None	None	15695985	15699971	-1	None	LKAP, PPP1R34, Marf1
16	KIAA0430	ENSG00000166783	ENST00000552535	retained_intron	KNOWN	None	29562	None	None	15706563	15711222	-1	None	LKAP, PPP1R34, Marf1
16	KIAA0430	ENSG00000166783	ENST00000546864	retained_intron	KNOWN	None	29562	None	None	15710642	15717007	-1	None	LKAP, PPP1R34, Marf1
16	KIAA0430	ENSG00000166783	ENST00000551678	processed_transcript	PUTATIVE	None	29562	None	None	15715350	15716939	-1	None	LKAP, PPP1R34, Marf1
16	KIAA0430	ENSG00000166783	ENST00000548216	retained_intron	KNOWN	None	29562	None	None	15724091	15736999	-1	None	LKAP, PPP1R34, Marf1
16	KIAA0430	ENSG00000166783	ENST00000549219	protein_coding	KNOWN	None	29562	493	163	15729851	15736345	-1	None	LKAP, PPP1R34, Marf1
16	KIAA0430	ENSG00000166783	ENST00000344181	protein_coding	KNOWN	None	29562	4293	1430	15688245	15737009	-1	None	LKAP, PPP1R34, Marf1
5	CCNB1	ENSG00000134057	ENST00000256442	protein_coding	KNOWN	CCDS3997	1579	1302	433	68462837	68474072	1	CCNB	None
5	CCNB1	ENSG00000134057	ENST00000506572	protein_coding	PUTATIVE	None	1579	1203	400	68462962	68473185	1	CCNB	None
5	CCNB1	ENSG00000134057	ENST00000508407	protein_coding	NOVEL	None	1579	733	243	68463043	68470890	1	CCNB	None
5	CCNB1	ENSG00000134057	ENST00000505500	protein_coding	NOVEL	None	1579	1190	395	68463090	68473457	1	CCNB	None
5	CCNB1	ENSG00000134057	ENST00000503507	nonsense_mediated_decay	KNOWN	None	1579	186	61	68463093	68470082	1	CCNB	None
5	CCNB1	ENSG00000134057	ENST00000507798	protein_coding	PUTATIVE	None	1579	558	185	68470084	68473527	1	CCNB	None
5	CCNB1	ENSG00000134057	ENST00000513102	retained_intron	KNOWN	None	1579	None	None	68472888	68473524	1	CCNB	None
9	None	ENSG00000269738	ENST00000600713	protein_coding	NOVEL	None	None	87	28	125148344	125148928	-1	None	None
9	OR1J1	ENSG00000136834	ENST00000259357	protein_coding	KNOWN	CCDS35120	8208	969	322	125239220	125240235	-1	None	hg32
9	OR1J2	ENSG00000197233	ENST00000335302	protein_coding	KNOWN	CCDS35121	8209	942	313	125273081	125274022	1	OR1J3, OR1J5	OST044
9	OR1J4	ENSG00000239590	ENST00000340750	protein_coding	KNOWN	CCDS35122	8211	942	313	125281420	125282361	1	None	HTPCRX01, HSHTPCRX01
10	CH25H	ENSG00000138135	ENST00000371852	protein_coding	KNOWN	CCDS7400	1907	819	272	90965694	90967071	-1	None	None
9	OR1N1	ENSG00000171505	ENST00000304880	protein_coding	KNOWN	CCDS6844	8221	936	311	125288637	125289572	-1	OR1N3	OR1-26
10	LIPA	ENSG00000107798	ENST00000336233	protein_coding	KNOWN	CCDS7401	6617	1200	399	90973326	91011815	-1	None	LAL, CESD
10	LIPA	ENSG00000107798	ENST00000371837	protein_coding	PUTATIVE	None	6617	1032	343	90973326	91174314	-1	None	LAL, CESD
10	LIPA	ENSG00000107798	ENST00000428800	protein_coding	KNOWN	None	6617	872	289	90982290	91007588	-1	None	LAL, CESD
10	LIPA	ENSG00000107798	ENST00000282673	protein_coding	KNOWN	None	6617	658	218	90984866	91102461	-1	None	LAL, CESD
10	LIPA	ENSG00000107798	ENST00000487618	processed_transcript	KNOWN	None	6617	None	None	91037681	91102431	-1	None	LAL, CESD
10	LIPA	ENSG00000107798	ENST00000463623	processed_transcript	KNOWN	None	6617	None	None	91051748	91102367	-1	None	LAL, CESD
10	LIPA	ENSG00000107798	ENST00000489359	processed_transcript	KNOWN	None	6617	None	None	91095093	91102416	-1	None	LAL, CESD
10	LIPA	ENSG00000107798	ENST00000456827	protein_coding	KNOWN	CCDS7401	6617	1200	399	90973332	91011660	-1	None	LAL, CESD
9	OR1N2	ENSG00000171501	ENST00000373688	protein_coding	KNOWN	CCDS35123	15111	993	330	125315391	125316493	1	None	None
9	OR1L8	ENSG00000171496	ENST00000304865	protein_coding	KNOWN	CCDS35124	15110	930	309	125329778	125330838	-1	None	None
9	OR1Q1	ENSG00000165202	ENST00000297913	protein_coding	KNOWN	CCDS35125	8223	945	314	125376948	125378026	1	OR1Q2, OR1Q3	OST226, OR9-A, HSTPCR106, OST226OR9-A, TPCR106
4	FHDC1	ENSG00000137460	ENST00000511601	protein_coding	KNOWN	CCDS34081	29363	3432	1143	153857504	153900838	1	None	KIAA1727
4	FHDC1	ENSG00000137460	ENST00000260008	protein_coding	KNOWN	CCDS34081	29363	3432	1143	153864135	153900848	1	None	KIAA1727
9	OR1B1	ENSG00000171484	ENST00000304833	protein_coding	NOVEL	CCDS35126	8181	957	318	125390858	125391852	-1	None	OR9-B
9	OR1L1	ENSG00000173679	ENST00000309623	protein_coding	KNOWN	CCDS35127	8213	933	310	125423995	125424927	1	OR1L2	OR9-C
9	OR1L1	ENSG00000173679	ENST00000373686	protein_coding	KNOWN	None	8213	1083	360	125423845	125424927	1	OR1L2	OR9-C
9	OR1L3	ENSG00000171481	ENST00000304820	protein_coding	KNOWN	CCDS35128	8215	975	324	125437315	125438432	1	None	OR9-D
9	OR1L4	ENSG00000136939	ENST00000259466	protein_coding	KNOWN	CCDS35129	8216	936	311	125486269	125487204	1	OR1L5	OR9-E
9	OR1L6	ENSG00000171459	ENST00000304720	protein_coding	KNOWN	CCDS35130	8218	936	311	125512127	125513062	1	OR1L7	None
9	OR1L6	ENSG00000171459	ENST00000373684	protein_coding	KNOWN	None	8218	1044	347	125512019	125513062	1	OR1L7	None
9	OR5C1	ENSG00000148215	ENST00000373680	protein_coding	KNOWN	CCDS35131	8331	963	320	125551150	125552237	1	OR5C2P	OR9-F, hRPK-465_F_21
9	PDCL	ENSG00000136940	ENST00000436632	protein_coding	KNOWN	None	8770	274	90	125560668	125588965	-1	None	PhLP, DKFZp564M1863
9	PDCL	ENSG00000136940	ENST00000259467	protein_coding	KNOWN	CCDS6845	8770	906	301	125580623	125590910	-1	None	PhLP, DKFZp564M1863
9	PDCL	ENSG00000136940	ENST00000394285	protein_coding	KNOWN	None	8770	328	108	125582823	125589031	-1	None	PhLP, DKFZp564M1863
4	TRIM2	ENSG00000109654	ENST00000491446	processed_transcript	PUTATIVE	None	15974	None	None	154073494	154078324	1	None	KIAA0517, RNF86
4	TRIM2	ENSG00000109654	ENST00000441616	protein_coding	PUTATIVE	None	15974	415	137	154073645	154214176	1	None	KIAA0517, RNF86
4	TRIM2	ENSG00000109654	ENST00000437508	protein_coding	KNOWN	CCDS47147	15974	2235	744	154074270	154257514	1	None	KIAA0517, RNF86
4	TRIM2	ENSG00000109654	ENST00000496978	processed_transcript	PUTATIVE	None	15974	None	None	154125598	154143821	1	None	KIAA0517, RNF86
4	TRIM2	ENSG00000109654	ENST00000479711	processed_transcript	KNOWN	None	15974	None	None	154125598	154216835	1	None	KIAA0517, RNF86
4	TRIM2	ENSG00000109654	ENST00000494872	processed_transcript	KNOWN	None	15974	None	None	154125598	154231413	1	None	KIAA0517, RNF86
4	TRIM2	ENSG00000109654	ENST00000338700	protein_coding	KNOWN	CCDS3781	15974	2316	771	154125618	154260472	1	None	KIAA0517, RNF86
4	TRIM2	ENSG00000109654	ENST00000502281	processed_transcript	PUTATIVE	None	15974	None	None	154178531	154191681	1	None	KIAA0517, RNF86
4	TRIM2	ENSG00000109654	ENST00000482578	retained_intron	KNOWN	None	15974	None	None	154178555	154197420	1	None	KIAA0517, RNF86
4	TRIM2	ENSG00000109654	ENST00000433687	protein_coding	PUTATIVE	None	15974	332	109	154178562	154215522	1	None	KIAA0517, RNF86
4	TRIM2	ENSG00000109654	ENST00000460908	retained_intron	KNOWN	None	15974	None	None	154243802	154245642	1	None	KIAA0517, RNF86
5	CENPH	ENSG00000153044	ENST00000283006	protein_coding	KNOWN	CCDS3998	17268	744	247	68485375	68506184	1	None	None
5	CENPH	ENSG00000153044	ENST00000515001	protein_coding	NOVEL	None	17268	687	228	68485401	68506183	1	None	None
5	CENPH	ENSG00000153044	ENST00000513575	nonsense_mediated_decay	KNOWN	None	17268	297	98	68485419	68498396	1	None	None
5	CENPH	ENSG00000153044	ENST00000514753	retained_intron	KNOWN	None	17268	None	None	68485473	68493326	1	None	None
5	CENPH	ENSG00000153044	ENST00000502689	protein_coding	NOVEL	None	17268	562	186	68485569	68505756	1	None	None
5	CENPH	ENSG00000153044	ENST00000510742	retained_intron	KNOWN	None	17268	None	None	68503558	68505628	1	None	None
9	OR1K1	ENSG00000165204	ENST00000277309	protein_coding	KNOWN	CCDS35132	8212	951	316	125562370	125563395	1	None	hg99, MNAB
9	RC3H2	ENSG00000056586	ENST00000373670	protein_coding	KNOWN	CCDS43874	21461	3576	1191	125606835	125660389	-1	MNAB	FLJ20301, FLJ20713, RNF164
9	RC3H2	ENSG00000056586	ENST00000498479	nonsense_mediated_decay	KNOWN	None	21461	1437	478	125609834	125667501	-1	MNAB	FLJ20301, FLJ20713, RNF164
9	RC3H2	ENSG00000056586	ENST00000454740	protein_coding	PUTATIVE	None	21461	566	187	125611716	125616885	-1	MNAB	FLJ20301, FLJ20713, RNF164
9	RC3H2	ENSG00000056586	ENST00000495727	retained_intron	KNOWN	None	21461	None	None	125612078	125613848	-1	MNAB	FLJ20301, FLJ20713, RNF164
9	RC3H2	ENSG00000056586	ENST00000423239	protein_coding	KNOWN	CCDS48014	21461	3195	1064	125616024	125667620	-1	MNAB	FLJ20301, FLJ20713, RNF164
9	RC3H2	ENSG00000056586	ENST00000398671	protein_coding	PUTATIVE	None	21461	336	111	125616053	125618016	-1	MNAB	FLJ20301, FLJ20713, RNF164
9	RC3H2	ENSG00000056586	ENST00000335387	protein_coding	KNOWN	None	21461	1521	506	125636065	125667494	-1	MNAB	FLJ20301, FLJ20713, RNF164
9	RC3H2	ENSG00000056586	ENST00000478216	processed_transcript	KNOWN	None	21461	None	None	125652449	125667559	-1	MNAB	FLJ20301, FLJ20713, RNF164
9	RC3H2	ENSG00000056586	ENST00000471874	protein_coding	KNOWN	None	21461	657	218	125652450	125659813	-1	MNAB	FLJ20301, FLJ20713, RNF164
9	RC3H2	ENSG00000056586	ENST00000357244	protein_coding	KNOWN	CCDS43874	21461	3576	1191	125611732	125667562	-1	MNAB	FLJ20301, FLJ20713, RNF164
9	RC3H2	ENSG00000056586	ENST00000373665	protein_coding	KNOWN	None	21461	1437	478	125627743	125667562	-1	MNAB	FLJ20301, FLJ20713, RNF164
6	ZFP57	ENSG00000204644	ENST00000488757	protein_coding	KNOWN	CCDS43436	18791	1611	536	29640169	29644931	-1	C6orf40	ZNF698, bA145L22, bA145L22.2
6	ZFP57	ENSG00000204644	ENST00000376883	protein_coding	KNOWN	None	18791	1551	516	29640260	29648887	-1	C6orf40	ZNF698, bA145L22, bA145L22.2
6	ZFP57	ENSG00000204644	ENST00000376881	protein_coding	KNOWN	None	18791	1551	516	29640169	29644780	-1	C6orf40	ZNF698, bA145L22, bA145L22.2
4	MND1	ENSG00000121211	ENST00000240488	protein_coding	KNOWN	CCDS3782	24839	618	205	154265801	154336270	1	None	GAJ
4	MND1	ENSG00000121211	ENST00000503967	processed_transcript	PUTATIVE	None	24839	None	None	154265814	154276961	1	None	GAJ
4	MND1	ENSG00000121211	ENST00000509752	nonsense_mediated_decay	KNOWN	None	24839	381	126	154265833	154336017	1	None	GAJ
4	MND1	ENSG00000121211	ENST00000508731	protein_coding	PUTATIVE	None	24839	307	101	154266505	154315489	1	None	GAJ
4	MND1	ENSG00000121211	ENST00000504860	protein_coding	PUTATIVE	None	24839	498	165	154271215	154330297	1	None	GAJ
5	MRPS36	ENSG00000134056	ENST00000256441	protein_coding	KNOWN	CCDS34174	16631	312	103	68513587	68525956	1	None	DC47, MRP-S36
5	MRPS36	ENSG00000134056	ENST00000507022	processed_transcript	KNOWN	None	16631	None	None	68513613	68525058	1	None	DC47, MRP-S36
5	MRPS36	ENSG00000134056	ENST00000512880	protein_coding	PUTATIVE	None	16631	117	38	68513659	68525702	1	None	DC47, MRP-S36
5	MRPS36	ENSG00000134056	ENST00000602380	protein_coding	PUTATIVE	None	16631	117	38	68513659	68525702	1	None	DC47, MRP-S36
5	MRPS36	ENSG00000134056	ENST00000503793	processed_transcript	KNOWN	None	16631	None	None	68513714	68524029	1	None	DC47, MRP-S36
6	HLA-F	ENSG00000204642	ENST00000376861	protein_coding	KNOWN	CCDS43438	4963	1041	346	29690552	29694303	1	None	None
6	HLA-F	ENSG00000204642	ENST00000414333	protein_coding	KNOWN	None	4963	393	130	29691056	29692008	1	None	None
6	HLA-F	ENSG00000204642	ENST00000462777	processed_transcript	KNOWN	None	4963	None	None	29691169	29692192	1	None	None
6	HLA-F	ENSG00000204642	ENST00000259951	protein_coding	KNOWN	CCDS43437	4963	1329	442	29691185	29695073	1	None	None
6	HLA-F	ENSG00000204642	ENST00000489502	processed_transcript	KNOWN	None	4963	None	None	29691204	29694303	1	None	None
6	HLA-F	ENSG00000204642	ENST00000482257	processed_transcript	KNOWN	None	4963	None	None	29691211	29692864	1	None	None
6	HLA-F	ENSG00000204642	ENST00000434407	protein_coding	KNOWN	CCDS43439	4963	765	254	29691241	29694303	1	None	None
6	HLA-F	ENSG00000204642	ENST00000486194	processed_transcript	KNOWN	None	4963	None	None	29691281	29692129	1	None	None
6	HLA-F	ENSG00000204642	ENST00000485513	processed_transcript	KNOWN	None	4963	None	None	29691717	29693076	1	None	None
6	HLA-F	ENSG00000204642	ENST00000429294	protein_coding	KNOWN	None	4963	677	224	29691816	29694303	1	None	None
6	HLA-F	ENSG00000204642	ENST00000484704	processed_transcript	KNOWN	None	4963	None	None	29691934	29694303	1	None	None
6	HLA-F	ENSG00000204642	ENST00000606273	processed_transcript	KNOWN	None	4963	None	None	29692194	29694305	1	None	None
6	HLA-F	ENSG00000204642	ENST00000465459	processed_transcript	KNOWN	None	4963	None	None	29692831	29706305	1	None	None
6	HLA-F	ENSG00000204642	ENST00000475996	processed_transcript	KNOWN	None	4963	None	None	29693231	29697128	1	None	None
6	HLA-F	ENSG00000204642	ENST00000444621	protein_coding	KNOWN	None	4963	374	123	29693311	29695073	1	None	None
6	HLA-F	ENSG00000204642	ENST00000334668	protein_coding	KNOWN	CCDS43438	4963	1041	346	29691117	29694300	1	None	None
6	HLA-F	ENSG00000204642	ENST00000440587	protein_coding	KNOWN	None	4963	780	259	29691219	29706234	1	None	None
5	CDK7	ENSG00000134058	ENST00000506563	protein_coding	PUTATIVE	None	1778	448	148	68530668	68568731	1	None	CAK1, CDKN7, MO15, STK1, CAK
5	CDK7	ENSG00000134058	ENST00000512687	retained_intron	KNOWN	None	1778	None	None	68530688	68551848	1	None	CAK1, CDKN7, MO15, STK1, CAK
5	CDK7	ENSG00000134058	ENST00000256443	protein_coding	KNOWN	CCDS3999	1778	1041	346	68530700	68573250	1	None	CAK1, CDKN7, MO15, STK1, CAK
5	CDK7	ENSG00000134058	ENST00000515391	nonsense_mediated_decay	KNOWN	None	1778	234	77	68530706	68565120	1	None	CAK1, CDKN7, MO15, STK1, CAK
5	CDK7	ENSG00000134058	ENST00000512985	retained_intron	KNOWN	None	1778	None	None	68530710	68531322	1	None	CAK1, CDKN7, MO15, STK1, CAK
5	CDK7	ENSG00000134058	ENST00000515180	nonsense_mediated_decay	KNOWN	None	1778	168	55	68530714	68555701	1	None	CAK1, CDKN7, MO15, STK1, CAK
5	CDK7	ENSG00000134058	ENST00000506789	nonsense_mediated_decay	KNOWN	None	1778	177	58	68530719	68558034	1	None	CAK1, CDKN7, MO15, STK1, CAK
5	CDK7	ENSG00000134058	ENST00000510106	nonsense_mediated_decay	KNOWN	None	1778	132	43	68530725	68568778	1	None	CAK1, CDKN7, MO15, STK1, CAK
5	CDK7	ENSG00000134058	ENST00000514676	protein_coding	NOVEL	None	1778	930	309	68530739	68573132	1	None	CAK1, CDKN7, MO15, STK1, CAK
5	CDK7	ENSG00000134058	ENST00000504147	nonsense_mediated_decay	KNOWN	None	1778	177	58	68530785	68558121	1	None	CAK1, CDKN7, MO15, STK1, CAK
5	CDK7	ENSG00000134058	ENST00000508726	nonsense_mediated_decay	KNOWN	None	1778	210	69	68530796	68572396	1	None	CAK1, CDKN7, MO15, STK1, CAK
5	CDK7	ENSG00000134058	ENST00000502604	protein_coding	PUTATIVE	None	1778	762	253	68530944	68573165	1	None	CAK1, CDKN7, MO15, STK1, CAK
5	CDK7	ENSG00000134058	ENST00000513629	processed_transcript	KNOWN	None	1778	None	None	68530970	68568823	1	None	CAK1, CDKN7, MO15, STK1, CAK
10	IFIT2	ENSG00000119922	ENST00000371826	protein_coding	KNOWN	CCDS41548	5409	1419	472	91061712	91069033	1	IFI54, G10P2	IFI-54, ISG-54K, cig42, GARG-39
4	KIAA0922	ENSG00000121210	ENST00000409663	protein_coding	KNOWN	CCDS3783	29146	4830	1609	154387498	154557863	1	None	DKFZp586H1322, TMEM131L
4	KIAA0922	ENSG00000121210	ENST00000445960	nonsense_mediated_decay	KNOWN	None	29146	216	71	154387500	154478217	1	None	DKFZp586H1322, TMEM131L
4	KIAA0922	ENSG00000121210	ENST00000409959	protein_coding	KNOWN	CCDS47148	29146	4833	1610	154387501	154557863	1	None	DKFZp586H1322, TMEM131L
4	KIAA0922	ENSG00000121210	ENST00000462540	retained_intron	KNOWN	None	29146	None	None	154475333	154479923	1	None	DKFZp586H1322, TMEM131L
4	KIAA0922	ENSG00000121210	ENST00000240487	protein_coding	PUTATIVE	None	29146	4164	1387	154477048	154557863	1	None	DKFZp586H1322, TMEM131L
4	KIAA0922	ENSG00000121210	ENST00000509565	retained_intron	KNOWN	None	29146	None	None	154504690	154507541	1	None	DKFZp586H1322, TMEM131L
4	KIAA0922	ENSG00000121210	ENST00000497247	retained_intron	KNOWN	None	29146	None	None	154523107	154524766	1	None	DKFZp586H1322, TMEM131L
4	KIAA0922	ENSG00000121210	ENST00000478919	retained_intron	KNOWN	None	29146	None	None	154553516	154555478	1	None	DKFZp586H1322, TMEM131L
4	KIAA0922	ENSG00000121210	ENST00000440693	protein_coding	KNOWN	None	29146	4581	1526	154387498	154557860	1	None	DKFZp586H1322, TMEM131L
10	IFIT3	ENSG00000119917	ENST00000371818	protein_coding	KNOWN	CCDS7402	5411	1473	490	91087651	91100728	1	IFIT4	ISG60, RIG-G, CIG-49, IFI60, GARG-49, IRG2
10	IFIT3	ENSG00000119917	ENST00000371811	protein_coding	KNOWN	CCDS31241	5411	1473	490	91092241	91100728	1	IFIT4	ISG60, RIG-G, CIG-49, IFI60, GARG-49, IRG2
10	IFIT1B	ENSG00000204010	ENST00000371809	protein_coding	KNOWN	CCDS31242	23442	1425	474	91137813	91144962	1	IFIT1L	bA149I23.6
10	IFIT1	ENSG00000185745	ENST00000371804	protein_coding	KNOWN	CCDS31243	5407	1437	478	91152303	91163745	1	G10P1, IFI56, IFNAI1	GARG-16
10	IFIT1	ENSG00000185745	ENST00000546318	protein_coding	KNOWN	CCDS59220	5407	1344	447	91158562	91163607	1	G10P1, IFI56, IFNAI1	GARG-16
10	IFIT5	ENSG00000152778	ENST00000371795	protein_coding	KNOWN	CCDS7403	13328	1449	482	91174343	91180758	1	None	RI58
10	IFIT5	ENSG00000152778	ENST00000416601	protein_coding	KNOWN	None	13328	1305	434	91174519	91178576	1	None	RI58
16	NDE1	ENSG00000072864	ENST00000396355	protein_coding	KNOWN	CCDS10564	17619	1008	335	15737124	15820210	1	None	nudE, FLJ20101, NDE
16	NDE1	ENSG00000072864	ENST00000396354	protein_coding	KNOWN	CCDS10564	17619	1008	335	15744084	15820210	1	None	nudE, FLJ20101, NDE
16	NDE1	ENSG00000072864	ENST00000570727	protein_coding	KNOWN	None	17619	381	126	15744104	15771801	1	None	nudE, FLJ20101, NDE
16	NDE1	ENSG00000072864	ENST00000572756	nonsense_mediated_decay	KNOWN	None	17619	379	125	15744104	15785181	1	None	nudE, FLJ20101, NDE
16	NDE1	ENSG00000072864	ENST00000573203	nonsense_mediated_decay	KNOWN	None	17619	330	109	15744114	15785076	1	None	nudE, FLJ20101, NDE
16	NDE1	ENSG00000072864	ENST00000574163	retained_intron	KNOWN	None	17619	None	None	15766520	15781325	1	None	nudE, FLJ20101, NDE
16	NDE1	ENSG00000072864	ENST00000577101	protein_coding	NOVEL	None	17619	575	190	15771782	15790623	1	None	nudE, FLJ20101, NDE
16	NDE1	ENSG00000072864	ENST00000574109	protein_coding	PUTATIVE	None	17619	522	173	15781284	15793787	1	None	nudE, FLJ20101, NDE
16	NDE1	ENSG00000072864	ENST00000573694	protein_coding	NOVEL	None	17619	411	136	15785020	15818079	1	None	nudE, FLJ20101, NDE
16	NDE1	ENSG00000072864	ENST00000576502	protein_coding	PUTATIVE	None	17619	462	153	15785057	15794348	1	None	nudE, FLJ20101, NDE
16	NDE1	ENSG00000072864	ENST00000572967	protein_coding	PUTATIVE	None	17619	420	139	15785099	15818079	1	None	nudE, FLJ20101, NDE
16	NDE1	ENSG00000072864	ENST00000572503	processed_transcript	KNOWN	None	17619	None	None	15815350	15818148	1	None	nudE, FLJ20101, NDE
16	NDE1	ENSG00000072864	ENST00000571896	processed_transcript	KNOWN	None	17619	None	None	15815494	15818991	1	None	nudE, FLJ20101, NDE
16	NDE1	ENSG00000072864	ENST00000342673	protein_coding	KNOWN	CCDS10564	17619	1008	335	15758584	15820210	1	None	nudE, FLJ20101, NDE
16	NDE1	ENSG00000072864	ENST00000396353	protein_coding	KNOWN	None	17619	1041	346	15737124	15793679	1	None	nudE, FLJ20101, NDE
10	SLC16A12	ENSG00000152779	ENST00000371790	protein_coding	KNOWN	CCDS7404	23094	1551	516	91190056	91295313	-1	None	MCT12
10	SLC16A12	ENSG00000152779	ENST00000475682	protein_coding	KNOWN	None	23094	76	24	91222260	91316398	-1	None	MCT12
10	SLC16A12	ENSG00000152779	ENST00000341233	protein_coding	KNOWN	None	23094	1461	486	91190051	91295313	-1	None	MCT12
5	CCDC125	ENSG00000183323	ENST00000396496	protein_coding	KNOWN	CCDS4000	28924	1536	511	68576002	68628543	-1	None	KENAE
5	CCDC125	ENSG00000183323	ENST00000460090	processed_transcript	KNOWN	None	28924	None	None	68577172	68616410	-1	None	KENAE
5	CCDC125	ENSG00000183323	ENST00000383374	protein_coding	PUTATIVE	None	28924	939	312	68577885	68628636	-1	None	KENAE
5	CCDC125	ENSG00000183323	ENST00000511257	protein_coding	KNOWN	None	28924	1161	386	68578304	68628620	-1	None	KENAE
5	CCDC125	ENSG00000183323	ENST00000512045	retained_intron	KNOWN	None	28924	None	None	68603495	68619674	-1	None	KENAE
5	CCDC125	ENSG00000183323	ENST00000513172	processed_transcript	KNOWN	None	28924	None	None	68609465	68616407	-1	None	KENAE
5	CCDC125	ENSG00000183323	ENST00000396499	protein_coding	KNOWN	CCDS4000	28924	1536	511	68576522	68616410	-1	None	KENAE
19	FEM1A	ENSG00000141965	ENST00000269856	protein_coding	KNOWN	CCDS12135	16934	2010	669	4791728	4795571	1	None	None
10	PANK1	ENSG00000152782	ENST00000322191	protein_coding	KNOWN	CCDS7405	8598	945	314	91342745	91403631	-1	PANK	MGC24596, PANK1a, PANK1b
10	PANK1	ENSG00000152782	ENST00000342512	protein_coding	KNOWN	CCDS7406	8598	1122	373	91342745	91403644	-1	PANK	MGC24596, PANK1a, PANK1b
10	PANK1	ENSG00000152782	ENST00000461829	processed_transcript	KNOWN	None	8598	None	None	91358919	91371665	-1	PANK	MGC24596, PANK1a, PANK1b
10	PANK1	ENSG00000152782	ENST00000488482	processed_transcript	KNOWN	None	8598	None	None	91385452	91403713	-1	PANK	MGC24596, PANK1a, PANK1b
10	PANK1	ENSG00000152782	ENST00000307534	protein_coding	KNOWN	CCDS31244	8598	1797	598	91342749	91405215	-1	PANK	MGC24596, PANK1a, PANK1b
10	PANK1	ENSG00000152782	ENST00000371774	protein_coding	KNOWN	None	8598	1203	400	91342746	91403648	-1	PANK	MGC24596, PANK1a, PANK1b
19	TICAM1	ENSG00000127666	ENST00000248244	protein_coding	KNOWN	CCDS12136	18348	2139	712	4815944	4831716	-1	None	TRIF, TICAM-1, MGC35334, PRVTIRB
9	ZBTB6	ENSG00000186130	ENST00000373659	protein_coding	KNOWN	CCDS6846	16764	1275	424	125670335	125675609	-1	ZNF482	ZID
19	PLIN3	ENSG00000105355	ENST00000221957	protein_coding	KNOWN	CCDS12137	16893	1305	434	4838353	4867780	-1	M6PRBP1	TIP47, PP17
19	PLIN3	ENSG00000105355	ENST00000592528	protein_coding	NOVEL	CCDS59337	16893	1269	422	4838381	4867665	-1	M6PRBP1	TIP47, PP17
19	PLIN3	ENSG00000105355	ENST00000589163	protein_coding	NOVEL	None	16893	878	291	4838383	4859648	-1	M6PRBP1	TIP47, PP17
19	PLIN3	ENSG00000105355	ENST00000585479	protein_coding	KNOWN	CCDS59338	16893	1302	433	4839074	4867706	-1	M6PRBP1	TIP47, PP17
19	PLIN3	ENSG00000105355	ENST00000589034	protein_coding	PUTATIVE	None	16893	518	171	4852051	4867649	-1	M6PRBP1	TIP47, PP17
19	PLIN3	ENSG00000105355	ENST00000589494	protein_coding	PUTATIVE	None	16893	505	167	4852220	4867675	-1	M6PRBP1	TIP47, PP17
19	PLIN3	ENSG00000105355	ENST00000587462	protein_coding	KNOWN	None	16893	107	34	4859996	4867124	-1	M6PRBP1	TIP47, PP17
9	ZBTB26	ENSG00000171448	ENST00000373656	protein_coding	KNOWN	CCDS6847	23383	1326	441	125677845	125693779	-1	ZNF481	None
9	ZBTB26	ENSG00000171448	ENST00000373654	protein_coding	KNOWN	CCDS6847	23383	1326	441	125680379	125693544	-1	ZNF481	None
6	HLA-G	ENSG00000204632	ENST00000376828	protein_coding	KNOWN	None	4964	1032	343	29794744	29798902	1	None	None
6	HLA-G	ENSG00000204632	ENST00000360323	protein_coding	KNOWN	CCDS4668	4964	1017	338	29795598	29798902	1	None	None
6	HLA-G	ENSG00000204632	ENST00000478355	retained_intron	KNOWN	None	4964	None	None	29795622	29798902	1	None	None
6	HLA-G	ENSG00000204632	ENST00000376818	protein_coding	KNOWN	None	4964	741	246	29795622	29798902	1	None	None
6	HLA-G	ENSG00000204632	ENST00000478519	nonsense_mediated_decay	KNOWN	None	4964	741	246	29795622	29798902	1	None	None
6	HLA-G	ENSG00000204632	ENST00000376815	protein_coding	KNOWN	None	4964	465	154	29795622	29798902	1	None	None
6	HLA-G	ENSG00000204632	ENST00000428701	protein_coding	KNOWN	CCDS4668	4964	1017	338	29794756	29798899	1	None	None
9	RABGAP1	ENSG00000011454	ENST00000456584	nonsense_mediated_decay	KNOWN	None	17155	1800	599	125703112	125865547	1	None	GAPCenA, TBC1D11
9	RABGAP1	ENSG00000011454	ENST00000373647	protein_coding	KNOWN	CCDS6848	17155	3210	1069	125703288	125867145	1	None	GAPCenA, TBC1D11
9	RABGAP1	ENSG00000011454	ENST00000459903	processed_transcript	KNOWN	None	17155	None	None	125703299	125748695	1	None	GAPCenA, TBC1D11
9	RABGAP1	ENSG00000011454	ENST00000317419	retained_intron	KNOWN	None	17155	None	None	125703299	125753048	1	None	GAPCenA, TBC1D11
9	RABGAP1	ENSG00000011454	ENST00000402311	protein_coding	KNOWN	None	17155	337	111	125703312	125746950	1	None	GAPCenA, TBC1D11
9	RABGAP1	ENSG00000011454	ENST00000426918	nonsense_mediated_decay	KNOWN	None	17155	201	66	125703369	125759614	1	None	GAPCenA, TBC1D11
9	RABGAP1	ENSG00000011454	ENST00000485090	retained_intron	KNOWN	None	17155	None	None	125752442	125758599	1	None	GAPCenA, TBC1D11
9	RABGAP1	ENSG00000011454	ENST00000493854	processed_transcript	KNOWN	None	17155	None	None	125795788	125836589	1	None	GAPCenA, TBC1D11
9	RABGAP1	ENSG00000011454	ENST00000475607	processed_transcript	KNOWN	None	17155	None	None	125795946	125836596	1	None	GAPCenA, TBC1D11
9	RABGAP1	ENSG00000011454	ENST00000468760	processed_transcript	KNOWN	None	17155	None	None	125795964	125796963	1	None	GAPCenA, TBC1D11
9	RABGAP1	ENSG00000011454	ENST00000474707	retained_intron	KNOWN	None	17155	None	None	125835839	125839278	1	None	GAPCenA, TBC1D11
9	RABGAP1	ENSG00000011454	ENST00000480054	retained_intron	KNOWN	None	17155	None	None	125851831	125860032	1	None	GAPCenA, TBC1D11
9	RABGAP1	ENSG00000011454	ENST00000373643	protein_coding	KNOWN	None	17155	1227	408	125795788	125865845	1	None	GAPCenA, TBC1D11
5	TAF9	ENSG00000085231	ENST00000380822	protein_coding	KNOWN	CCDS4001	11542	519	172	68646811	68665369	-1	TAF2G	TAFII31, TAFII32, TAFIID32, MGC5067, CGI-137, MGC1603, MGC3647, AD-004
5	TAF9	ENSG00000085231	ENST00000502819	processed_transcript	KNOWN	None	11542	None	None	68647472	68665330	-1	TAF2G	TAFII31, TAFII32, TAFIID32, MGC5067, CGI-137, MGC1603, MGC3647, AD-004
5	TAF9	ENSG00000085231	ENST00000380818	protein_coding	KNOWN	CCDS43324	11542	510	169	68647553	68665840	-1	TAF2G	TAFII31, TAFII32, TAFIID32, MGC5067, CGI-137, MGC1603, MGC3647, AD-004
5	TAF9	ENSG00000085231	ENST00000512561	protein_coding	NOVEL	None	11542	426	141	68647757	68665347	-1	TAF2G	TAFII31, TAFII32, TAFIID32, MGC5067, CGI-137, MGC1603, MGC3647, AD-004
5	TAF9	ENSG00000085231	ENST00000506736	protein_coding	KNOWN	CCDS4002	11542	795	264	68660570	68662648	-1	TAF2G	TAFII31, TAFII32, TAFIID32, MGC5067, CGI-137, MGC1603, MGC3647, AD-004
5	TAF9	ENSG00000085231	ENST00000217893	protein_coding	KNOWN	CCDS4002	11542	795	264	68660572	68665469	-1	TAF2G	TAFII31, TAFII32, TAFIID32, MGC5067, CGI-137, MGC1603, MGC3647, AD-004
5	TAF9	ENSG00000085231	ENST00000503245	protein_coding	KNOWN	None	11542	593	196	68660972	68665317	-1	TAF2G	TAFII31, TAFII32, TAFIID32, MGC5067, CGI-137, MGC1603, MGC3647, AD-004
5	TAF9	ENSG00000085231	ENST00000509462	protein_coding	KNOWN	None	11542	499	165	68661066	68665143	-1	TAF2G	TAFII31, TAFII32, TAFIID32, MGC5067, CGI-137, MGC1603, MGC3647, AD-004
5	TAF9	ENSG00000085231	ENST00000504109	protein_coding	KNOWN	None	11542	407	134	68661158	68663736	-1	TAF2G	TAFII31, TAFII32, TAFIID32, MGC5067, CGI-137, MGC1603, MGC3647, AD-004
5	TAF9	ENSG00000085231	ENST00000512152	protein_coding	KNOWN	None	11542	381	126	68661184	68665304	-1	TAF2G	TAFII31, TAFII32, TAFIID32, MGC5067, CGI-137, MGC1603, MGC3647, AD-004
5	TAF9	ENSG00000085231	ENST00000508954	protein_coding	KNOWN	None	11542	306	101	68661259	68664989	-1	TAF2G	TAFII31, TAFII32, TAFIID32, MGC5067, CGI-137, MGC1603, MGC3647, AD-004
5	TAF9	ENSG00000085231	ENST00000328663	protein_coding	KNOWN	CCDS4002	11542	795	264	68660571	68665840	-1	TAF2G	TAFII31, TAFII32, TAFIID32, MGC5067, CGI-137, MGC1603, MGC3647, AD-004
10	KIF20B	ENSG00000138182	ENST00000260753	protein_coding	KNOWN	CCDS7407	7212	5343	1780	91461367	91534696	1	MPHOSPH1	MPP1, KRMP1, CT90
10	KIF20B	ENSG00000138182	ENST00000371728	protein_coding	KNOWN	None	7212	5463	1820	91461374	91534696	1	MPHOSPH1	MPP1, KRMP1, CT90
10	KIF20B	ENSG00000138182	ENST00000447580	protein_coding	KNOWN	None	7212	620	205	91461436	91470847	1	MPHOSPH1	MPP1, KRMP1, CT90
10	KIF20B	ENSG00000138182	ENST00000478929	processed_transcript	KNOWN	None	7212	None	None	91483333	91534696	1	MPHOSPH1	MPP1, KRMP1, CT90
10	KIF20B	ENSG00000138182	ENST00000416354	protein_coding	KNOWN	None	7212	5553	1850	91461367	91534700	1	MPHOSPH1	MPP1, KRMP1, CT90
10	KIF20B	ENSG00000138182	ENST00000394289	protein_coding	KNOWN	None	7212	5169	1722	91461367	91526203	1	MPHOSPH1	MPP1, KRMP1, CT90
16	MYH11	ENSG00000133392	ENST00000396324	protein_coding	KNOWN	CCDS45423	7569	5940	1979	15797029	15950868	-1	None	SMMHC, SMHC
16	MYH11	ENSG00000133392	ENST00000452625	protein_coding	KNOWN	CCDS45424	7569	5838	1945	15797029	15950868	-1	None	SMMHC, SMHC
16	MYH11	ENSG00000133392	ENST00000573908	processed_transcript	PUTATIVE	None	7569	None	None	15797598	15805127	-1	None	SMMHC, SMHC
16	MYH11	ENSG00000133392	ENST00000576790	protein_coding	KNOWN	CCDS10566	7569	5817	1938	15797644	15950890	-1	None	SMMHC, SMHC
16	MYH11	ENSG00000133392	ENST00000300036	protein_coding	KNOWN	CCDS10565	7569	5919	1972	15797848	15950890	-1	None	SMMHC, SMHC
16	MYH11	ENSG00000133392	ENST00000576164	retained_intron	KNOWN	None	7569	None	None	15806747	15818185	-1	None	SMMHC, SMHC
16	MYH11	ENSG00000133392	ENST00000571275	retained_intron	KNOWN	None	7569	None	None	15806753	15818995	-1	None	SMMHC, SMHC
16	MYH11	ENSG00000133392	ENST00000574119	retained_intron	KNOWN	None	7569	None	None	15835410	15836048	-1	None	SMMHC, SMHC
16	MYH11	ENSG00000133392	ENST00000570785	retained_intron	KNOWN	None	7569	None	None	15843025	15877389	-1	None	SMMHC, SMHC
16	MYH11	ENSG00000133392	ENST00000571910	retained_intron	KNOWN	None	7569	None	None	15869699	15873280	-1	None	SMMHC, SMHC
16	MYH11	ENSG00000133392	ENST00000571505	retained_intron	KNOWN	None	7569	None	None	15878872	15950885	-1	None	SMMHC, SMHC
16	MYH11	ENSG00000133392	ENST00000338282	protein_coding	KNOWN	CCDS10566	7569	5817	1938	15796992	15950887	-1	None	SMMHC, SMHC
4	TLR2	ENSG00000137462	ENST00000260010	protein_coding	KNOWN	CCDS3784	11848	2355	784	154622652	154626851	1	None	TIL4, CD282
4	RNF175	ENSG00000145428	ENST00000347063	protein_coding	KNOWN	CCDS47149	27735	987	328	154631277	154681387	-1	None	FLJ34190
4	RNF175	ENSG00000145428	ENST00000513656	nonsense_mediated_decay	KNOWN	None	27735	111	36	154633635	154681122	-1	None	FLJ34190
4	RNF175	ENSG00000145428	ENST00000503694	nonsense_mediated_decay	KNOWN	None	27735	366	121	154634235	154681162	-1	None	FLJ34190
4	RNF175	ENSG00000145428	ENST00000508248	protein_coding	PUTATIVE	None	27735	450	149	154641336	154681149	-1	None	FLJ34190
4	RNF175	ENSG00000145428	ENST00000508967	processed_transcript	KNOWN	None	27735	None	None	154641422	154669901	-1	None	FLJ34190
4	RNF175	ENSG00000145428	ENST00000506505	processed_transcript	KNOWN	None	27735	None	None	154641422	154681159	-1	None	FLJ34190
4	RNF175	ENSG00000145428	ENST00000507512	nonsense_mediated_decay	KNOWN	None	27735	207	68	154644552	154681025	-1	None	FLJ34190
4	RNF175	ENSG00000145428	ENST00000509321	retained_intron	KNOWN	None	27735	None	None	154669557	154681113	-1	None	FLJ34190
4	RNF175	ENSG00000145428	ENST00000506358	retained_intron	KNOWN	None	27735	None	None	154669688	154681176	-1	None	FLJ34190
4	RNF175	ENSG00000145428	ENST00000274068	protein_coding	KNOWN	None	27735	546	181	154634235	154681162	-1	None	FLJ34190
19	ARRDC5	ENSG00000205784	ENST00000381781	protein_coding	KNOWN	CCDS45929	31407	1029	342	4890449	4902879	-1	None	None
6	HLA-A	ENSG00000206503	ENST00000396634	protein_coding	KNOWN	CCDS34373	4931	1098	365	29909037	29913661	1	None	None
6	HLA-A	ENSG00000206503	ENST00000376806	protein_coding	KNOWN	None	4931	1116	371	29910022	29913661	1	None	None
6	HLA-A	ENSG00000206503	ENST00000496081	retained_intron	KNOWN	None	4931	None	None	29910325	29913661	1	None	None
6	HLA-A	ENSG00000206503	ENST00000376802	protein_coding	KNOWN	None	4931	900	299	29910326	29913661	1	None	None
6	HLA-A	ENSG00000206503	ENST00000495183	retained_intron	KNOWN	None	4931	None	None	29910329	29913661	1	None	None
6	HLA-A	ENSG00000206503	ENST00000479320	retained_intron	KNOWN	None	4931	None	None	29910331	29913058	1	None	None
6	HLA-A	ENSG00000206503	ENST00000461903	retained_intron	KNOWN	None	4931	None	None	29910331	29913058	1	None	None
6	HLA-A	ENSG00000206503	ENST00000376809	protein_coding	KNOWN	CCDS34373	4931	1098	365	29910309	29913660	1	None	None
19	KDM4B	ENSG00000127663	ENST00000588337	protein_coding	KNOWN	None	29136	362	119	4969125	5041192	1	JMJD2B	KIAA0876, TDRD14B
19	KDM4B	ENSG00000127663	ENST00000159111	protein_coding	KNOWN	CCDS12138	29136	3291	1096	4969132	5153606	1	JMJD2B	KIAA0876, TDRD14B
19	KDM4B	ENSG00000127663	ENST00000381759	protein_coding	KNOWN	None	29136	1347	448	4969143	5113351	1	JMJD2B	KIAA0876, TDRD14B
19	KDM4B	ENSG00000127663	ENST00000536461	protein_coding	NOVEL	None	29136	3393	1130	5016336	5153116	1	JMJD2B	KIAA0876, TDRD14B
19	KDM4B	ENSG00000127663	ENST00000592175	processed_transcript	KNOWN	None	29136	None	None	5047009	5082448	1	JMJD2B	KIAA0876, TDRD14B
19	KDM4B	ENSG00000127663	ENST00000589104	retained_intron	KNOWN	None	29136	None	None	5070629	5151935	1	JMJD2B	KIAA0876, TDRD14B
19	KDM4B	ENSG00000127663	ENST00000588961	processed_transcript	KNOWN	None	29136	None	None	5080699	5110745	1	JMJD2B	KIAA0876, TDRD14B
19	KDM4B	ENSG00000127663	ENST00000588361	protein_coding	PUTATIVE	None	29136	1871	622	5082463	5141514	1	JMJD2B	KIAA0876, TDRD14B
19	KDM4B	ENSG00000127663	ENST00000592159	processed_transcript	KNOWN	None	29136	None	None	5112369	5119693	1	JMJD2B	KIAA0876, TDRD14B
19	KDM4B	ENSG00000127663	ENST00000588166	processed_transcript	KNOWN	None	29136	None	None	5135547	5138481	1	JMJD2B	KIAA0876, TDRD14B
5	RAD17	ENSG00000152942	ENST00000514066	processed_transcript	KNOWN	None	9807	None	None	68665120	68677853	1	None	Rad24, RAD17Sp, CCYC
5	RAD17	ENSG00000152942	ENST00000361732	protein_coding	KNOWN	CCDS4004	9807	2013	670	68665124	68710628	1	None	Rad24, RAD17Sp, CCYC
5	RAD17	ENSG00000152942	ENST00000507927	protein_coding	KNOWN	None	9807	62	19	68665137	68669709	1	None	Rad24, RAD17Sp, CCYC
5	RAD17	ENSG00000152942	ENST00000509734	protein_coding	KNOWN	CCDS4003	9807	2046	681	68665633	68710628	1	None	Rad24, RAD17Sp, CCYC
5	RAD17	ENSG00000152942	ENST00000354868	protein_coding	KNOWN	CCDS4004	9807	2013	670	68665639	68710628	1	None	Rad24, RAD17Sp, CCYC
5	RAD17	ENSG00000152942	ENST00000511349	processed_transcript	KNOWN	None	9807	None	None	68665645	68667296	1	None	Rad24, RAD17Sp, CCYC
5	RAD17	ENSG00000152942	ENST00000521422	protein_coding	KNOWN	CCDS47226	9807	1518	505	68665647	68710187	1	None	Rad24, RAD17Sp, CCYC
5	RAD17	ENSG00000152942	ENST00000504177	processed_transcript	KNOWN	None	9807	None	None	68665648	68710320	1	None	Rad24, RAD17Sp, CCYC
5	RAD17	ENSG00000152942	ENST00000354312	protein_coding	KNOWN	CCDS4004	9807	2013	670	68665652	68710628	1	None	Rad24, RAD17Sp, CCYC
5	RAD17	ENSG00000152942	ENST00000345306	protein_coding	KNOWN	CCDS4004	9807	2013	670	68665669	68710628	1	None	Rad24, RAD17Sp, CCYC
5	RAD17	ENSG00000152942	ENST00000512785	protein_coding	NOVEL	None	9807	150	49	68665919	68680760	1	None	Rad24, RAD17Sp, CCYC
5	RAD17	ENSG00000152942	ENST00000506564	protein_coding	KNOWN	None	9807	508	168	68666073	68677884	1	None	Rad24, RAD17Sp, CCYC
5	RAD17	ENSG00000152942	ENST00000305138	protein_coding	KNOWN	CCDS4004	9807	2013	670	68666532	68710628	1	None	Rad24, RAD17Sp, CCYC
5	RAD17	ENSG00000152942	ENST00000282891	protein_coding	KNOWN	CCDS4005	9807	1755	584	68666862	68710187	1	None	Rad24, RAD17Sp, CCYC
5	RAD17	ENSG00000152942	ENST00000380774	protein_coding	KNOWN	CCDS4003	9807	2046	681	68667281	68710128	1	None	Rad24, RAD17Sp, CCYC
5	RAD17	ENSG00000152942	ENST00000514626	processed_transcript	KNOWN	None	9807	None	None	68679907	68687746	1	None	Rad24, RAD17Sp, CCYC
5	RAD17	ENSG00000152942	ENST00000508320	nonsense_mediated_decay	KNOWN	None	9807	498	165	68682050	68689327	1	None	Rad24, RAD17Sp, CCYC
5	RAD17	ENSG00000152942	ENST00000513214	protein_coding	PUTATIVE	None	9807	555	184	68687795	68710082	1	None	Rad24, RAD17Sp, CCYC
5	RAD17	ENSG00000152942	ENST00000358030	protein_coding	KNOWN	CCDS47226	9807	1518	505	68666862	68710626	1	None	Rad24, RAD17Sp, CCYC
4	SFRP2	ENSG00000145423	ENST00000274063	protein_coding	KNOWN	CCDS34082	10777	888	295	154701744	154710272	-1	None	SARP1, SDF-5, FRP-2
4	DCHS2	ENSG00000197410	ENST00000357232	protein_coding	KNOWN	CCDS3785	23111	8751	2916	155155527	155312449	-1	CDH27, PCDH23	CDHJ, FLJ20047, PCDHJ, CDHR7
4	DCHS2	ENSG00000197410	ENST00000339452	protein_coding	KNOWN	CCDS47150	23111	4110	1369	155243806	155412868	-1	CDH27, PCDH23	CDHJ, FLJ20047, PCDHJ, CDHR7
4	DCHS2	ENSG00000197410	ENST00000507542	processed_transcript	PUTATIVE	None	23111	None	None	155254208	155273661	-1	CDH27, PCDH23	CDHJ, FLJ20047, PCDHJ, CDHR7
4	DCHS2	ENSG00000197410	ENST00000504580	processed_transcript	KNOWN	None	23111	None	None	155254422	155276882	-1	CDH27, PCDH23	CDHJ, FLJ20047, PCDHJ, CDHR7
4	DCHS2	ENSG00000197410	ENST00000456341	protein_coding	PUTATIVE	None	23111	2109	702	155407595	155412486	-1	CDH27, PCDH23	CDHJ, FLJ20047, PCDHJ, CDHR7
4	DCHS2	ENSG00000197410	ENST00000443500	protein_coding	KNOWN	CCDS47151	23111	2130	709	155407595	155412930	-1	CDH27, PCDH23	CDHJ, FLJ20047, PCDHJ, CDHR7
9	GPR21	ENSG00000188394	ENST00000373642	protein_coding	KNOWN	CCDS6849	4476	1050	349	125796806	125797975	1	None	None
9	STRBP	ENSG00000165209	ENST00000530364	processed_transcript	PUTATIVE	None	16462	None	None	125871779	125884502	-1	ILF3L	FLJ11307, SPNR
9	STRBP	ENSG00000165209	ENST00000478973	nonsense_mediated_decay	KNOWN	None	16462	174	57	125871793	125895247	-1	ILF3L	FLJ11307, SPNR
9	STRBP	ENSG00000165209	ENST00000471564	nonsense_mediated_decay	KNOWN	None	16462	254	83	125871836	125895246	-1	ILF3L	FLJ11307, SPNR
9	STRBP	ENSG00000165209	ENST00000496533	nonsense_mediated_decay	KNOWN	None	16462	270	89	125883570	125898415	-1	ILF3L	FLJ11307, SPNR
9	STRBP	ENSG00000165209	ENST00000348403	protein_coding	KNOWN	CCDS6851	16462	2019	672	125886990	126030843	-1	ILF3L	FLJ11307, SPNR
9	STRBP	ENSG00000165209	ENST00000360998	protein_coding	KNOWN	CCDS55337	16462	1977	658	125887318	126030855	-1	ILF3L	FLJ11307, SPNR
9	STRBP	ENSG00000165209	ENST00000407982	nonsense_mediated_decay	KNOWN	None	16462	285	94	125887499	126030843	-1	ILF3L	FLJ11307, SPNR
9	STRBP	ENSG00000165209	ENST00000492885	retained_intron	KNOWN	None	16462	None	None	125898086	125898782	-1	ILF3L	FLJ11307, SPNR
9	STRBP	ENSG00000165209	ENST00000479114	protein_coding	KNOWN	None	16462	224	73	125941286	125976187	-1	ILF3L	FLJ11307, SPNR
9	STRBP	ENSG00000165209	ENST00000447404	protein_coding	KNOWN	CCDS6851	16462	2019	672	125883910	126030855	-1	ILF3L	FLJ11307, SPNR
19	PTPRS	ENSG00000105426	ENST00000588552	processed_transcript	KNOWN	None	9681	None	None	5158506	5340814	-1	None	None
19	PTPRS	ENSG00000105426	ENST00000587303	protein_coding	KNOWN	CCDS45930	9681	5847	1948	5206379	5286251	-1	None	None
19	PTPRS	ENSG00000105426	ENST00000592099	protein_coding	KNOWN	CCDS12139	9681	4506	1501	5206548	5286174	-1	None	None
19	PTPRS	ENSG00000105426	ENST00000588012	protein_coding	KNOWN	CCDS12140	9681	5733	1910	5206548	5286174	-1	None	None
19	PTPRS	ENSG00000105426	ENST00000589851	retained_intron	KNOWN	None	9681	None	None	5215378	5220027	-1	None	None
19	PTPRS	ENSG00000105426	ENST00000590509	protein_coding	PUTATIVE	None	9681	387	128	5273072	5286399	-1	None	None
19	PTPRS	ENSG00000105426	ENST00000591760	protein_coding	KNOWN	None	9681	272	89	5273560	5293263	-1	None	None
19	PTPRS	ENSG00000105426	ENST00000586065	protein_coding	KNOWN	None	9681	237	78	5274210	5292798	-1	None	None
19	PTPRS	ENSG00000105426	ENST00000372412	protein_coding	KNOWN	None	9681	5850	1949	5205519	5340814	-1	None	None
19	PTPRS	ENSG00000105426	ENST00000357368	protein_coding	KNOWN	CCDS45930	9681	5847	1948	5205519	5340814	-1	None	None
19	PTPRS	ENSG00000105426	ENST00000262963	protein_coding	KNOWN	None	9681	5787	1928	5205519	5340814	-1	None	None
19	PTPRS	ENSG00000105426	ENST00000348075	protein_coding	KNOWN	CCDS12140	9681	5733	1910	5205519	5340814	-1	None	None
19	PTPRS	ENSG00000105426	ENST00000353284	protein_coding	KNOWN	CCDS12139	9681	4506	1501	5205519	5340814	-1	None	None
4	PLRG1	ENSG00000171566	ENST00000499023	protein_coding	KNOWN	CCDS34083	9089	1545	514	155456158	155471587	-1	None	PRL1, Prp46, PRPF46, Cwc1, TANGO4
4	PLRG1	ENSG00000171566	ENST00000512773	retained_intron	KNOWN	None	9089	None	None	155457584	155458694	-1	None	PRL1, Prp46, PRPF46, Cwc1, TANGO4
4	PLRG1	ENSG00000171566	ENST00000506627	nonsense_mediated_decay	KNOWN	None	9089	470	155	155457673	155462088	-1	None	PRL1, Prp46, PRPF46, Cwc1, TANGO4
4	PLRG1	ENSG00000171566	ENST00000503251	protein_coding	NOVEL	None	9089	321	106	155457752	155460336	-1	None	PRL1, Prp46, PRPF46, Cwc1, TANGO4
4	PLRG1	ENSG00000171566	ENST00000302078	protein_coding	KNOWN	CCDS56341	9089	1518	505	155457771	155471549	-1	None	PRL1, Prp46, PRPF46, Cwc1, TANGO4
4	PLRG1	ENSG00000171566	ENST00000507125	retained_intron	KNOWN	None	9089	None	None	155460166	155461424	-1	None	PRL1, Prp46, PRPF46, Cwc1, TANGO4
4	PLRG1	ENSG00000171566	ENST00000506192	nonsense_mediated_decay	KNOWN	None	9089	396	131	155461823	155471544	-1	None	PRL1, Prp46, PRPF46, Cwc1, TANGO4
4	PLRG1	ENSG00000171566	ENST00000506918	retained_intron	KNOWN	None	9089	None	None	155463110	155467106	-1	None	PRL1, Prp46, PRPF46, Cwc1, TANGO4
4	PLRG1	ENSG00000171566	ENST00000504341	protein_coding	PUTATIVE	None	9089	637	211	155463383	155470293	-1	None	PRL1, Prp46, PRPF46, Cwc1, TANGO4
4	PLRG1	ENSG00000171566	ENST00000512719	retained_intron	KNOWN	None	9089	None	None	155467005	155471535	-1	None	PRL1, Prp46, PRPF46, Cwc1, TANGO4
4	PLRG1	ENSG00000171566	ENST00000509975	nonsense_mediated_decay	KNOWN	None	9089	177	58	155467302	155471546	-1	None	PRL1, Prp46, PRPF46, Cwc1, TANGO4
4	PLRG1	ENSG00000171566	ENST00000503751	retained_intron	KNOWN	None	9089	None	None	155467695	155471552	-1	None	PRL1, Prp46, PRPF46, Cwc1, TANGO4
4	PLRG1	ENSG00000171566	ENST00000515520	retained_intron	KNOWN	None	9089	None	None	155468634	155471548	-1	None	PRL1, Prp46, PRPF46, Cwc1, TANGO4
4	PLRG1	ENSG00000171566	ENST00000393905	protein_coding	KNOWN	None	9089	1545	514	155457663	155470138	-1	None	PRL1, Prp46, PRPF46, Cwc1, TANGO4
10	HTR7	ENSG00000148680	ENST00000336152	protein_coding	KNOWN	CCDS7408	5302	1440	479	92500580	92617455	-1	None	5-HT7
10	HTR7	ENSG00000148680	ENST00000277874	protein_coding	KNOWN	CCDS7409	5302	1338	445	92500580	92617455	-1	None	5-HT7
10	HTR7	ENSG00000148680	ENST00000371719	protein_coding	KNOWN	CCDS7410	5302	1299	432	92500580	92617455	-1	None	5-HT7
10	HTR7	ENSG00000148680	ENST00000371721	protein_coding	KNOWN	None	5302	1440	479	92500578	92617671	-1	None	5-HT7
10	RPP30	ENSG00000148688	ENST00000371703	protein_coding	KNOWN	CCDS7411	17688	807	268	92631473	92661947	1	None	TSG15
10	RPP30	ENSG00000148688	ENST00000487998	retained_intron	KNOWN	None	17688	None	None	92631730	92660519	1	None	TSG15
10	RPP30	ENSG00000148688	ENST00000277882	protein_coding	KNOWN	None	17688	763	253	92631740	92656149	1	None	TSG15
10	RPP30	ENSG00000148688	ENST00000414836	protein_coding	KNOWN	None	17688	639	212	92635315	92660523	1	None	TSG15
10	RPP30	ENSG00000148688	ENST00000466462	processed_transcript	KNOWN	None	17688	None	None	92635361	92660604	1	None	TSG15
10	RPP30	ENSG00000148688	ENST00000480406	processed_transcript	KNOWN	None	17688	None	None	92654530	92665395	1	None	TSG15
10	RPP30	ENSG00000148688	ENST00000489806	processed_transcript	KNOWN	None	17688	None	None	92654532	92665822	1	None	TSG15
10	RPP30	ENSG00000148688	ENST00000479678	processed_transcript	KNOWN	None	17688	None	None	92655425	92660523	1	None	TSG15
10	RPP30	ENSG00000148688	ENST00000470933	processed_transcript	KNOWN	None	17688	None	None	92656083	92668310	1	None	TSG15
10	RPP30	ENSG00000148688	ENST00000413330	protein_coding	KNOWN	CCDS44458	17688	969	322	92631709	92668312	1	None	TSG15
6	ZNRD1	ENSG00000066379	ENST00000471008	retained_intron	KNOWN	None	13182	None	None	30026676	30032686	1	None	hZR14, HTEX-6, tctex-6, RPA12
6	ZNRD1	ENSG00000066379	ENST00000332435	protein_coding	KNOWN	CCDS4670	13182	381	126	30029031	30032686	1	None	hZR14, HTEX-6, tctex-6, RPA12
6	ZNRD1	ENSG00000066379	ENST00000376782	protein_coding	KNOWN	CCDS4670	13182	381	126	30029034	30032686	1	None	hZR14, HTEX-6, tctex-6, RPA12
6	ZNRD1	ENSG00000066379	ENST00000359374	protein_coding	KNOWN	CCDS4670	13182	381	126	30029036	30032686	1	None	hZR14, HTEX-6, tctex-6, RPA12
6	ZNRD1	ENSG00000066379	ENST00000376785	protein_coding	KNOWN	CCDS4670	13182	381	126	30029040	30032686	1	None	hZR14, HTEX-6, tctex-6, RPA12
6	ZNRD1	ENSG00000066379	ENST00000463141	processed_transcript	KNOWN	None	13182	None	None	30029107	30032686	1	None	hZR14, HTEX-6, tctex-6, RPA12
16	FOPNL	ENSG00000133393	ENST00000255759	protein_coding	KNOWN	CCDS10567	26435	525	174	15959577	15982472	-1	C16orf63	DKFZp686N1651, FLJ31153, PHSECRG2, FOR20
16	FOPNL	ENSG00000133393	ENST00000573968	protein_coding	NOVEL	None	26435	303	100	15959578	15982459	-1	C16orf63	DKFZp686N1651, FLJ31153, PHSECRG2, FOR20
16	FOPNL	ENSG00000133393	ENST00000573087	nonsense_mediated_decay	KNOWN	None	26435	249	82	15960926	15982482	-1	C16orf63	DKFZp686N1651, FLJ31153, PHSECRG2, FOR20
16	FOPNL	ENSG00000133393	ENST00000573396	protein_coding	NOVEL	None	26435	387	128	15961036	15982456	-1	C16orf63	DKFZp686N1651, FLJ31153, PHSECRG2, FOR20
16	FOPNL	ENSG00000133393	ENST00000575744	protein_coding	NOVEL	None	26435	327	108	15961077	15982460	-1	C16orf63	DKFZp686N1651, FLJ31153, PHSECRG2, FOR20
16	FOPNL	ENSG00000133393	ENST00000572415	nonsense_mediated_decay	KNOWN	None	26435	375	124	15961164	15982480	-1	C16orf63	DKFZp686N1651, FLJ31153, PHSECRG2, FOR20
16	FOPNL	ENSG00000133393	ENST00000575073	protein_coding	PUTATIVE	None	26435	315	104	15961195	15982482	-1	C16orf63	DKFZp686N1651, FLJ31153, PHSECRG2, FOR20
16	FOPNL	ENSG00000133393	ENST00000573429	protein_coding	NOVEL	None	26435	597	198	15961277	15982471	-1	C16orf63	DKFZp686N1651, FLJ31153, PHSECRG2, FOR20
16	FOPNL	ENSG00000133393	ENST00000575938	protein_coding	NOVEL	None	26435	373	123	15967342	15982450	-1	C16orf63	DKFZp686N1651, FLJ31153, PHSECRG2, FOR20
9	CRB2	ENSG00000148204	ENST00000359999	protein_coding	KNOWN	None	18688	3531	1176	126118449	126136378	1	None	FLJ38464, FLJ16786
9	CRB2	ENSG00000148204	ENST00000373631	protein_coding	KNOWN	CCDS6852	18688	3858	1285	126118539	126141032	1	None	FLJ38464, FLJ16786
9	CRB2	ENSG00000148204	ENST00000460253	nonsense_mediated_decay	KNOWN	None	18688	2862	953	126131058	126142603	1	None	FLJ38464, FLJ16786
9	CRB2	ENSG00000148204	ENST00000373629	protein_coding	KNOWN	None	18688	2862	953	126131168	126141032	1	None	FLJ38464, FLJ16786
6	PPP1R11	ENSG00000204619	ENST00000376773	protein_coding	KNOWN	None	9285	225	74	30034486	30038110	1	TCTE5	HCGV, Tctex5, HCG-V
6	PPP1R11	ENSG00000204619	ENST00000376772	protein_coding	KNOWN	CCDS4671	9285	381	126	30034865	30038110	1	TCTE5	HCGV, Tctex5, HCG-V
6	PPP1R11	ENSG00000204619	ENST00000376769	protein_coding	KNOWN	None	9285	225	74	30034982	30038110	1	TCTE5	HCGV, Tctex5, HCG-V
6	PPP1R11	ENSG00000204619	ENST00000376765	protein_coding	KNOWN	None	9285	225	74	30035320	30038110	1	TCTE5	HCGV, Tctex5, HCG-V
6	PPP1R11	ENSG00000204619	ENST00000376763	protein_coding	KNOWN	None	9285	225	74	30035353	30038110	1	TCTE5	HCGV, Tctex5, HCG-V
6	PPP1R11	ENSG00000204619	ENST00000376758	protein_coding	KNOWN	None	9285	225	74	30035983	30038110	1	TCTE5	HCGV, Tctex5, HCG-V
HG183_PATCH	TEX2	ENSG00000263185	ENST00000571438	protein_coding	KNOWN	None	30884	3405	1134	62224587	62340587	-1	None	HT008, TMEM96, KIAA1738
HG183_PATCH	TEX2	ENSG00000263185	ENST00000577718	retained_intron	KNOWN	None	30884	None	None	62224801	62233594	-1	None	HT008, TMEM96, KIAA1738
HG183_PATCH	TEX2	ENSG00000263185	ENST00000580932	protein_coding	KNOWN	None	30884	3384	1127	62225034	62308116	-1	None	HT008, TMEM96, KIAA1738
HG183_PATCH	TEX2	ENSG00000263185	ENST00000580023	protein_coding	KNOWN	None	30884	3384	1127	62225047	62340661	-1	None	HT008, TMEM96, KIAA1738
HG183_PATCH	TEX2	ENSG00000263185	ENST00000584935	protein_coding	NOVEL	None	30884	1880	625	62226243	62290079	-1	None	HT008, TMEM96, KIAA1738
HG183_PATCH	TEX2	ENSG00000263185	ENST00000579447	processed_transcript	KNOWN	None	30884	None	None	62228204	62232580	-1	None	HT008, TMEM96, KIAA1738
HG183_PATCH	TEX2	ENSG00000263185	ENST00000583042	retained_intron	KNOWN	None	30884	None	None	62232307	62265814	-1	None	HT008, TMEM96, KIAA1738
HG183_PATCH	TEX2	ENSG00000263185	ENST00000580801	protein_coding	KNOWN	None	30884	157	51	62291421	62333451	-1	None	HT008, TMEM96, KIAA1738
HG183_PATCH	TEX2	ENSG00000263185	ENST00000579464	protein_coding	KNOWN	None	30884	128	41	62291450	62340607	-1	None	HT008, TMEM96, KIAA1738
HG183_PATCH	SMURF2	ENSG00000262909	ENST00000577997	nonsense_mediated_decay	KNOWN	None	16809	168	55	62619655	62739257	-1	None	None
HG183_PATCH	SMURF2	ENSG00000262909	ENST00000581389	nonsense_mediated_decay	KNOWN	None	16809	207	68	62622428	62739288	-1	None	None
HG183_PATCH	SMURF2	ENSG00000262909	ENST00000573633	protein_coding	KNOWN	None	16809	2247	748	62622725	62739428	-1	None	None
HG183_PATCH	SMURF2	ENSG00000262909	ENST00000582525	protein_coding	NOVEL	None	16809	1684	560	62632241	62739272	-1	None	None
HG183_PATCH	SMURF2	ENSG00000262909	ENST00000583909	retained_intron	KNOWN	None	16809	None	None	62635001	62640525	-1	None	None
HG183_PATCH	SMURF2	ENSG00000262909	ENST00000584098	processed_transcript	KNOWN	None	16809	None	None	62638200	62738222	-1	None	None
HG183_PATCH	SMURF2	ENSG00000262909	ENST00000580298	retained_intron	KNOWN	None	16809	None	None	62670375	62675805	-1	None	None
HG183_PATCH	None	ENSG00000271812	ENST00000607863	processed_pseudogene	KNOWN	None	None	None	None	62650189	62650441	1	None	None
HG243_PATCH	None	ENSG00000272357	ENST00000607431	antisense	KNOWN	None	None	None	None	145464395	145464879	1	None	None
HG280_PATCH	DNAH12	ENSG00000262840	ENST00000577057	protein_coding	PUTATIVE	None	2943	2350	782	57327727	57386253	-1	DNHD2, DNAH12L, DNAH7L	DLP12, Dnahc3, HL-19, hdhc3, DHC3, FLJ40427, FLJ44290
HG280_PATCH	DNAH12	ENSG00000262840	ENST00000585473	protein_coding	KNOWN	None	2943	9279	3092	57327727	57578372	-1	DNHD2, DNAH12L, DNAH7L	DLP12, Dnahc3, HL-19, hdhc3, DHC3, FLJ40427, FLJ44290
HG280_PATCH	DNAH12	ENSG00000262840	ENST00000574275	processed_transcript	KNOWN	None	2943	None	None	57327728	57331336	-1	DNHD2, DNAH12L, DNAH7L	DLP12, Dnahc3, HL-19, hdhc3, DHC3, FLJ40427, FLJ44290
HG280_PATCH	DNAH12	ENSG00000262840	ENST00000572203	nonsense_mediated_decay	KNOWN	None	2943	165	54	57327728	57343273	-1	DNHD2, DNAH12L, DNAH7L	DLP12, Dnahc3, HL-19, hdhc3, DHC3, FLJ40427, FLJ44290
HG280_PATCH	DNAH12	ENSG00000262840	ENST00000573507	retained_intron	KNOWN	None	2943	None	None	57327732	57331179	-1	DNHD2, DNAH12L, DNAH7L	DLP12, Dnahc3, HL-19, hdhc3, DHC3, FLJ40427, FLJ44290
HG280_PATCH	DNAH12	ENSG00000262840	ENST00000575370	protein_coding	PUTATIVE	None	2943	2214	737	57327777	57386255	-1	DNHD2, DNAH12L, DNAH7L	DLP12, Dnahc3, HL-19, hdhc3, DHC3, FLJ40427, FLJ44290
HG280_PATCH	DNAH12	ENSG00000262840	ENST00000589525	protein_coding	KNOWN	None	2943	2040	679	57327777	57386264	-1	DNHD2, DNAH12L, DNAH7L	DLP12, Dnahc3, HL-19, hdhc3, DHC3, FLJ40427, FLJ44290
HG280_PATCH	DNAH12	ENSG00000262840	ENST00000570568	protein_coding	PUTATIVE	None	2943	6948	2315	57437337	57578372	-1	DNHD2, DNAH12L, DNAH7L	DLP12, Dnahc3, HL-19, hdhc3, DHC3, FLJ40427, FLJ44290
HG280_PATCH	DNAH12	ENSG00000262840	ENST00000570313	protein_coding	KNOWN	None	2943	2355	784	57502681	57578372	-1	DNHD2, DNAH12L, DNAH7L	DLP12, Dnahc3, HL-19, hdhc3, DHC3, FLJ40427, FLJ44290
HG280_PATCH	DNAH12	ENSG00000262840	ENST00000574833	protein_coding	KNOWN	None	2943	1374	457	57532032	57578369	-1	DNHD2, DNAH12L, DNAH7L	DLP12, Dnahc3, HL-19, hdhc3, DHC3, FLJ40427, FLJ44290
HG745_PATCH	SRCIN1	ENSG00000262199	ENST00000570888	protein_coding	KNOWN	None	29506	3552	1183	36686252	36762184	-1	None	SNIP, p140Cap, KIAA1684
HG745_PATCH	SRCIN1	ENSG00000262199	ENST00000581317	protein_coding	NOVEL	None	29506	3654	1217	36688680	36762096	-1	None	SNIP, p140Cap, KIAA1684
HG745_PATCH	SRCIN1	ENSG00000262199	ENST00000575448	protein_coding	PUTATIVE	None	29506	2785	927	36697517	36719661	-1	None	SNIP, p140Cap, KIAA1684
HG745_PATCH	SRCIN1	ENSG00000262199	ENST00000584038	retained_intron	KNOWN	None	29506	None	None	36697520	36720233	-1	None	SNIP, p140Cap, KIAA1684
HG745_PATCH	SRCIN1	ENSG00000262199	ENST00000573779	processed_transcript	KNOWN	None	29506	None	None	36697520	36729068	-1	None	SNIP, p140Cap, KIAA1684
HG745_PATCH	SRCIN1	ENSG00000262199	ENST00000577962	processed_transcript	KNOWN	None	29506	None	None	36701447	36704938	-1	None	SNIP, p140Cap, KIAA1684
HG745_PATCH	SRCIN1	ENSG00000262199	ENST00000579093	processed_transcript	PUTATIVE	None	29506	None	None	36701504	36702957	-1	None	SNIP, p140Cap, KIAA1684
HG745_PATCH	SRCIN1	ENSG00000262199	ENST00000581706	processed_transcript	KNOWN	None	29506	None	None	36707916	36715710	-1	None	SNIP, p140Cap, KIAA1684
HG745_PATCH	SRCIN1	ENSG00000262199	ENST00000580397	protein_coding	PUTATIVE	None	29506	1421	472	36718159	36760866	-1	None	SNIP, p140Cap, KIAA1684
HG75_PATCH	None	ENSG00000267377	ENST00000585402	antisense	KNOWN	None	None	None	None	34443570	34504867	1	None	None
HG75_PATCH	None	ENSG00000267377	ENST00000589945	antisense	KNOWN	None	None	None	None	34503589	34504870	1	None	None
HG75_PATCH	None	ENSG00000266986	ENST00000589514	processed_pseudogene	KNOWN	None	None	None	None	34488982	34490296	1	None	None
HG75_PATCH	None	ENSG00000267536	ENST00000586524	lincRNA	KNOWN	None	None	None	None	34552622	34554183	-1	None	None
HG75_PATCH	None	ENSG00000267602	ENST00000589094	lincRNA	KNOWN	None	None	None	None	34962056	34962685	1	None	None
HG987_PATCH	None	ENSG00000264096	ENST00000582924	processed_pseudogene	KNOWN	None	None	None	None	21348145	21348751	-1	None	None
HG987_PATCH	None	ENSG00000263799	ENST00000579934	lincRNA	KNOWN	None	None	None	None	21359825	21363527	-1	None	None
HG987_PATCH	None	ENSG00000265310	ENST00000583176	lincRNA	KNOWN	None	None	None	None	21360746	21362301	1	None	None
HG987_PATCH	None	ENSG00000264492	ENST00000578169	lincRNA	KNOWN	None	None	None	None	21422826	21424581	1	None	None
HG987_PATCH	None	ENSG00000263836	ENST00000584821	antisense	KNOWN	None	None	None	None	21436286	21446098	1	None	None
HG987_PATCH	None	ENSG00000263867	ENST00000582144	processed_pseudogene	KNOWN	None	None	None	None	21455821	21456023	1	None	None
HG987_PATCH	None	ENSG00000265620	ENST00000579397	processed_pseudogene	KNOWN	None	None	None	None	21477082	21477385	1	None	None
HG987_PATCH	None	ENSG00000265153	ENST00000580046	processed_pseudogene	KNOWN	None	None	None	None	21496106	21497492	1	None	None
HG987_PATCH	None	ENSG00000264795	ENST00000578817	processed_pseudogene	KNOWN	None	None	None	None	21549897	21550065	1	None	None
HG998_1_PATCH	None	ENSG00000262705	ENST00000576146	protein_coding	NOVEL	None	None	504	167	139141824	139143051	1	None	None
HG736_PATCH	None	ENSG00000263064	ENST00000572446	protein_coding	NOVEL	None	None	729	242	56870561	56872546	1	None	None
HG736_PATCH	None	ENSG00000268248	ENST00000594697	protein_coding	NOVEL	None	None	648	215	56881183	56883671	-1	None	None
HG736_PATCH	None	ENSG00000269764	ENST00000599140	protein_coding	NOVEL	None	None	648	215	56884715	56885557	-1	None	None
HG736_PATCH	None	ENSG00000268843	ENST00000598683	protein_coding	NOVEL	None	None	648	215	56886601	56887395	-1	None	None
HG736_PATCH	None	ENSG00000268025	ENST00000597845	protein_coding	NOVEL	None	None	648	215	56888439	56889377	-1	None	None
HG736_PATCH	None	ENSG00000268187	ENST00000599370	protein_coding	KNOWN	None	None	651	216	56890421	56892966	-1	None	None
HG736_PATCH	None	ENSG00000268187	ENST00000601550	protein_coding	KNOWN	None	None	651	216	56890421	56894804	-1	None	None
HG14_PATCH	None	ENSG00000271668	ENST00000605474	processed_pseudogene	KNOWN	None	None	None	None	57552873	57553602	1	None	None
HG115_PATCH	None	ENSG00000263282	ENST00000571398	pseudogene	NOVEL	None	None	None	None	101804400	101804617	-1	None	None
HG115_PATCH	None	ENSG00000262398	ENST00000576879	pseudogene	NOVEL	None	None	None	None	101805576	101806076	1	None	None
HG115_PATCH	None	ENSG00000260297	ENST00000564735	pseudogene	NOVEL	None	None	None	None	101830099	101830319	-1	None	None
HG115_PATCH	None	ENSG00000262935	ENST00000576293	pseudogene	NOVEL	None	None	None	None	101831879	101832108	-1	None	None
HG7_PATCH	None	ENSG00000266214	ENST00000581309	miRNA	NOVEL	None	None	None	None	141559618	141559669	-1	None	None
HG281_PATCH	None	ENSG00000260295	ENST00000564253	unprocessed_pseudogene	KNOWN	None	None	None	None	49872181	49884080	1	None	None
HG281_PATCH	None	ENSG00000260169	ENST00000561515	unprocessed_pseudogene	KNOWN	None	None	None	None	49875632	49880954	-1	None	None
HG185_PATCH	None	ENSG00000270046	ENST00000602613	sense_intronic	KNOWN	None	None	None	None	40194484	40194986	-1	None	None
HG185_PATCH	None	ENSG00000267718	ENST00000593108	sense_intronic	KNOWN	None	None	None	None	40196965	40199369	-1	None	None
HG730_PATCH	None	ENSG00000267017	ENST00000586208	antisense	KNOWN	None	None	None	None	20236186	20261357	-1	None	None
HG730_PATCH	None	ENSG00000267017	ENST00000599925	antisense	KNOWN	None	None	None	None	20236228	20432114	-1	None	None
HG730_PATCH	None	ENSG00000267017	ENST00000587517	antisense	KNOWN	None	None	None	None	20236354	20349261	-1	None	None
HG730_PATCH	None	ENSG00000267017	ENST00000590079	antisense	KNOWN	None	None	None	None	20286909	20349269	-1	None	None
HG730_PATCH	None	ENSG00000267017	ENST00000590620	antisense	KNOWN	None	None	None	None	20326955	20331228	-1	None	None
HG730_PATCH	None	ENSG00000267017	ENST00000590119	antisense	KNOWN	None	None	None	None	20338819	20349240	-1	None	None
HG730_PATCH	None	ENSG00000267584	ENST00000589696	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	20242703	20262717	-1	None	None
HG730_PATCH	None	ENSG00000271479	ENST00000605183	processed_pseudogene	KNOWN	None	None	None	None	20247742	20248042	1	None	None
HG730_PATCH	None	ENSG00000267256	ENST00000590975	processed_pseudogene	KNOWN	None	None	None	None	20285822	20287872	-1	None	None
HG730_PATCH	None	ENSG00000267464	ENST00000591068	unprocessed_pseudogene	KNOWN	None	None	None	None	20317653	20317763	-1	None	None
HG730_PATCH	None	ENSG00000270407	ENST00000604042	processed_pseudogene	KNOWN	None	None	None	None	20332678	20333272	1	None	None
HG730_PATCH	None	ENSG00000268236	ENST00000602196	unprocessed_pseudogene	KNOWN	None	None	None	None	20359861	20361104	1	None	None
HG730_PATCH	None	ENSG00000268507	ENST00000601058	processed_pseudogene	KNOWN	None	None	None	None	20378626	20379200	1	None	None
HG730_PATCH	None	ENSG00000267947	ENST00000597094	unprocessed_pseudogene	KNOWN	None	None	None	None	20405898	20414603	1	None	None
HG730_PATCH	None	ENSG00000270536	ENST00000605746	processed_pseudogene	KNOWN	None	None	None	None	20434801	20435377	-1	None	None
HG730_PATCH	None	ENSG00000271445	ENST00000603770	processed_pseudogene	KNOWN	None	None	None	None	20462311	20462888	1	None	None
HG730_PATCH	None	ENSG00000268399	ENST00000596361	processed_pseudogene	KNOWN	None	None	None	None	20527323	20527878	1	None	None
HG730_PATCH	None	ENSG00000268504	ENST00000594538	lincRNA	KNOWN	None	None	None	None	20543361	20639424	1	None	None
HG730_PATCH	None	ENSG00000269284	ENST00000597588	processed_pseudogene	KNOWN	None	None	None	None	20554024	20554534	-1	None	None
HG730_PATCH	VN1R78P	ENSG00000267956	ENST00000595027	unprocessed_pseudogene	KNOWN	None	37399	None	None	20693893	20694456	-1	None	None
HG730_PATCH	None	ENSG00000269818	ENST00000595898	lincRNA	KNOWN	None	None	None	None	20722368	20726198	1	None	None
HG989_PATCH	None	ENSG00000269100	ENST00000601321	protein_coding	NOVEL	None	None	423	140	31902192	31902614	-1	None	None
HG1007_PATCH	CICP10	ENSG00000262743	ENST00000575956	processed_pseudogene	KNOWN	None	37901	None	None	243062007	243062204	-1	None	None
HG1007_PATCH	None	ENSG00000261859	ENST00000570774	processed_pseudogene	KNOWN	None	None	None	None	243064438	243064620	1	None	None
HG1007_PATCH	None	ENSG00000271453	ENST00000603113	processed_pseudogene	KNOWN	None	None	None	None	243117332	243117785	1	None	None
HG1032_PATCH	None	ENSG00000270851	ENST00000603863	processed_pseudogene	KNOWN	None	None	None	None	190901057	190901762	1	None	None
HG325_PATCH	None	ENSG00000262341	ENST00000574103	pseudogene	NOVEL	None	None	None	None	50277054	50277416	1	None	None
HG414_PATCH	MYO7A	ENSG00000261910	ENST00000571155	protein_coding	KNOWN	None	7606	6648	2215	76839307	76926280	1	USH1B, DFNB2, DFNA11	NSRD2
HG414_PATCH	MYO7A	ENSG00000261910	ENST00000576665	protein_coding	PUTATIVE	None	7606	3537	1178	76839313	76896038	1	USH1B, DFNB2, DFNA11	NSRD2
HG414_PATCH	MYO7A	ENSG00000261910	ENST00000575980	protein_coding	KNOWN	None	7606	6528	2175	76839313	76926280	1	USH1B, DFNB2, DFNA11	NSRD2
HG414_PATCH	MYO7A	ENSG00000261910	ENST00000571849	protein_coding	PUTATIVE	None	7606	6501	2166	76839345	76925996	1	USH1B, DFNB2, DFNA11	NSRD2
HG414_PATCH	MYO7A	ENSG00000261910	ENST00000575902	retained_intron	KNOWN	None	7606	None	None	76890868	76926280	1	USH1B, DFNB2, DFNA11	NSRD2
HG414_PATCH	MYO7A	ENSG00000261910	ENST00000574198	protein_coding	NOVEL	None	7606	4074	1357	76890868	76926280	1	USH1B, DFNB2, DFNA11	NSRD2
HG414_PATCH	MYO7A	ENSG00000261910	ENST00000575883	retained_intron	KNOWN	None	7606	None	None	76895728	76902229	1	USH1B, DFNB2, DFNA11	NSRD2
HG414_PATCH	MYO7A	ENSG00000261910	ENST00000605366	processed_transcript	KNOWN	None	7606	None	None	76914228	76926281	1	USH1B, DFNB2, DFNA11	NSRD2
HG414_PATCH	MYO7A	ENSG00000261910	ENST00000573410	processed_transcript	PUTATIVE	None	7606	None	None	76921929	76924017	1	USH1B, DFNB2, DFNA11	NSRD2
HG414_PATCH	MYO7A	ENSG00000261910	ENST00000576890	retained_intron	KNOWN	None	7606	None	None	76923577	76924960	1	USH1B, DFNB2, DFNA11	NSRD2
HG305_PATCH	MMP13	ENSG00000262325	ENST00000571284	protein_coding	NOVEL	None	7159	1416	471	102813725	102826464	-1	None	CLG3
HG305_PATCH	MMP13	ENSG00000262325	ENST00000572070	protein_coding	NOVEL	None	7159	1470	489	102815060	102826435	-1	None	CLG3
HG299_PATCH	None	ENSG00000272336	ENST00000607116	lincRNA	KNOWN	None	None	None	None	118935973	118936387	-1	None	None
HG299_PATCH	None	ENSG00000272208	ENST00000607627	antisense	KNOWN	None	None	None	None	118938084	118938408	-1	None	None
HG299_PATCH	HMBS	ENSG00000261883	ENST00000573122	processed_transcript	KNOWN	None	4982	None	None	118955575	118960448	1	PBGD, UPS, PORC	None
HG299_PATCH	HMBS	ENSG00000261883	ENST00000571063	retained_intron	KNOWN	None	4982	None	None	118955590	118959684	1	PBGD, UPS, PORC	None
HG299_PATCH	HMBS	ENSG00000261883	ENST00000573333	nonsense_mediated_decay	KNOWN	None	4982	246	81	118955590	118963209	1	PBGD, UPS, PORC	None
HG299_PATCH	HMBS	ENSG00000261883	ENST00000570821	protein_coding	KNOWN	None	4982	1086	361	118955592	118964256	1	PBGD, UPS, PORC	None
HG299_PATCH	HMBS	ENSG00000261883	ENST00000571070	protein_coding	NOVEL	None	4982	358	118	118955594	118960730	1	PBGD, UPS, PORC	None
HG299_PATCH	HMBS	ENSG00000261883	ENST00000571563	protein_coding	KNOWN	None	4982	1035	344	118955594	118964225	1	PBGD, UPS, PORC	None
HG299_PATCH	HMBS	ENSG00000261883	ENST00000575888	protein_coding	NOVEL	None	4982	915	304	118955594	118964255	1	PBGD, UPS, PORC	None
HG299_PATCH	HMBS	ENSG00000261883	ENST00000575748	retained_intron	KNOWN	None	4982	None	None	118955597	118960755	1	PBGD, UPS, PORC	None
HG299_PATCH	HMBS	ENSG00000261883	ENST00000571049	protein_coding	NOVEL	None	4982	574	190	118955609	118962873	1	PBGD, UPS, PORC	None
HG299_PATCH	HMBS	ENSG00000261883	ENST00000574152	protein_coding	KNOWN	None	4982	1035	344	118955614	118964242	1	PBGD, UPS, PORC	None
HG299_PATCH	HMBS	ENSG00000261883	ENST00000571785	nonsense_mediated_decay	KNOWN	None	4982	246	81	118955616	118962250	1	PBGD, UPS, PORC	None
HG299_PATCH	HMBS	ENSG00000261883	ENST00000572264	retained_intron	KNOWN	None	4982	None	None	118955618	118964005	1	PBGD, UPS, PORC	None
HG299_PATCH	HMBS	ENSG00000261883	ENST00000571030	protein_coding	NOVEL	None	4982	966	321	118955623	118964257	1	PBGD, UPS, PORC	None
HG299_PATCH	HMBS	ENSG00000261883	ENST00000571339	nonsense_mediated_decay	KNOWN	None	4982	192	63	118955624	118962249	1	PBGD, UPS, PORC	None
HG299_PATCH	HMBS	ENSG00000261883	ENST00000572161	protein_coding	NOVEL	None	4982	993	330	118955639	118964242	1	PBGD, UPS, PORC	None
HG299_PATCH	HMBS	ENSG00000261883	ENST00000574831	protein_coding	KNOWN	None	4982	561	186	118958212	118962235	1	PBGD, UPS, PORC	None
HG299_PATCH	HMBS	ENSG00000261883	ENST00000574281	protein_coding	KNOWN	None	4982	561	186	118958692	118962235	1	PBGD, UPS, PORC	None
HG299_PATCH	HMBS	ENSG00000261883	ENST00000574920	retained_intron	KNOWN	None	4982	None	None	118958693	118962965	1	PBGD, UPS, PORC	None
HG299_PATCH	HMBS	ENSG00000261883	ENST00000576224	retained_intron	KNOWN	None	4982	None	None	118958696	118964227	1	PBGD, UPS, PORC	None
HG299_PATCH	HMBS	ENSG00000261883	ENST00000573766	retained_intron	KNOWN	None	4982	None	None	118958696	118964256	1	PBGD, UPS, PORC	None
HG299_PATCH	HMBS	ENSG00000261883	ENST00000575587	protein_coding	KNOWN	None	4982	1035	344	118958696	118964258	1	PBGD, UPS, PORC	None
HG299_PATCH	HMBS	ENSG00000261883	ENST00000572198	retained_intron	KNOWN	None	4982	None	None	118958963	118962350	1	PBGD, UPS, PORC	None
HG299_PATCH	HMBS	ENSG00000261883	ENST00000570990	processed_transcript	KNOWN	None	4982	None	None	118959341	118962702	1	PBGD, UPS, PORC	None
HG299_PATCH	HMBS	ENSG00000261883	ENST00000576108	retained_intron	KNOWN	None	4982	None	None	118962247	118963999	1	PBGD, UPS, PORC	None
HG299_PATCH	HMBS	ENSG00000261883	ENST00000574695	retained_intron	KNOWN	None	4982	None	None	118963320	118964252	1	PBGD, UPS, PORC	None
HG729_PATCH	None	ENSG00000268161	ENST00000595344	antisense	KNOWN	None	None	None	None	8646044	8647599	1	None	None
HG729_PATCH	None	ENSG00000268376	ENST00000597827	lincRNA	KNOWN	None	None	None	None	8695555	8703533	1	None	None
HG729_PATCH	None	ENSG00000262330	ENST00000575875	protein_coding	NOVEL	None	None	795	264	8836096	8838684	-1	None	None
HG729_PATCH	None	ENSG00000269880	ENST00000596556	processed_pseudogene	KNOWN	None	None	None	None	8843549	8843745	-1	None	None
HG729_PATCH	ZNF558	ENSG00000262124	ENST00000601964	protein_coding	KNOWN	None	26422	1209	402	8874588	8897212	-1	None	FLJ30932
HG729_PATCH	ZNF558	ENSG00000262124	ENST00000576358	protein_coding	KNOWN	None	26422	1209	402	8874590	8887773	-1	None	FLJ30932
HG729_PATCH	ZNF558	ENSG00000262124	ENST00000597210	retained_intron	KNOWN	None	26422	None	None	8875822	8889983	-1	None	FLJ30932
HG729_PATCH	ZNF558	ENSG00000262124	ENST00000575982	protein_coding	KNOWN	None	26422	996	331	8875822	8886715	-1	None	FLJ30932
HG729_PATCH	ZNF558	ENSG00000262124	ENST00000597181	processed_transcript	KNOWN	None	26422	None	None	8887592	8897198	-1	None	FLJ30932
HG729_PATCH	ZNF558	ENSG00000262124	ENST00000599559	processed_transcript	KNOWN	None	26422	None	None	8889065	8897153	-1	None	FLJ30932
HG729_PATCH	ZNF558	ENSG00000262124	ENST00000600400	processed_transcript	KNOWN	None	26422	None	None	8889164	8897188	-1	None	FLJ30932
HG729_PATCH	ZNF558	ENSG00000262124	ENST00000594029	retained_intron	KNOWN	None	26422	None	None	8896028	8897126	-1	None	FLJ30932
HG873_PATCH	None	ENSG00000262844	ENST00000573343	processed_pseudogene	KNOWN	None	None	None	None	15009217	15010240	-1	None	None
HG348_PATCH	ENDOD1	ENSG00000262523	ENST00000577165	protein_coding	KNOWN	None	29129	1503	500	94822976	94865811	1	None	KIAA0830
HG388_HG400_PATCH	None	ENSG00000263010	ENST00000572847	sense_intronic	KNOWN	None	None	None	None	111886030	111886847	1	None	None
HG388_HG400_PATCH	None	ENSG00000270353	ENST00000605251	processed_pseudogene	KNOWN	None	None	None	None	111907350	111907586	-1	None	None
HG388_HG400_PATCH	C11orf57	ENSG00000262506	ENST00000577170	protein_coding	KNOWN	None	25569	879	292	111944809	111954857	1	None	FLJ10726
HG388_HG400_PATCH	C11orf57	ENSG00000262506	ENST00000575508	protein_coding	KNOWN	None	25569	795	264	111945010	111955873	1	None	FLJ10726
HG388_HG400_PATCH	C11orf57	ENSG00000262506	ENST00000574413	protein_coding	KNOWN	None	25569	879	292	111945012	111955873	1	None	FLJ10726
HG388_HG400_PATCH	C11orf57	ENSG00000262506	ENST00000576901	protein_coding	PUTATIVE	None	25569	348	115	111945033	111953150	1	None	FLJ10726
HG388_HG400_PATCH	C11orf57	ENSG00000262506	ENST00000576832	protein_coding	KNOWN	None	25569	274	90	111945039	111951235	1	None	FLJ10726
HG388_HG400_PATCH	C11orf57	ENSG00000262506	ENST00000575456	nonsense_mediated_decay	KNOWN	None	25569	192	63	111945039	111953668	1	None	FLJ10726
HG388_HG400_PATCH	C11orf57	ENSG00000262506	ENST00000570669	protein_coding	KNOWN	None	25569	882	293	111945039	111955873	1	None	FLJ10726
HG388_HG400_PATCH	C11orf57	ENSG00000262506	ENST00000571513	protein_coding	KNOWN	None	25569	645	214	111945054	111953545	1	None	FLJ10726
HG388_HG400_PATCH	C11orf57	ENSG00000262506	ENST00000574073	protein_coding	PUTATIVE	None	25569	340	112	111945508	111953291	1	None	FLJ10726
HG1293_PATCH	CTSE	ENSG00000264606	ENST00000583663	protein_coding	KNOWN	None	2530	1191	396	206072825	206087470	-1	None	None
HG1293_PATCH	CTSE	ENSG00000264606	ENST00000578413	protein_coding	KNOWN	None	2530	1206	401	206072825	206087470	-1	None	None
HG1293_PATCH	CTSE	ENSG00000264606	ENST00000581049	protein_coding	KNOWN	None	2530	1092	363	206072826	206087456	-1	None	None
HG1293_PATCH	CTSE	ENSG00000264606	ENST00000581414	protein_coding	KNOWN	None	2530	867	288	206073369	206087323	-1	None	None
HG1293_PATCH	CTSE	ENSG00000264606	ENST00000582516	processed_transcript	PUTATIVE	None	2530	None	None	206075892	206077691	-1	None	None
HG1293_PATCH	CTSE	ENSG00000264606	ENST00000579881	processed_transcript	KNOWN	None	2530	None	None	206077335	206084935	-1	None	None
HG1293_PATCH	None	ENSG00000265183	ENST00000581746	snoRNA	NOVEL	None	None	None	None	206143800	206143885	1	None	None
HG1293_PATCH	None	ENSG00000265640	ENST00000582489	lincRNA	KNOWN	None	None	None	None	206238621	206240807	-1	None	None
HG1293_PATCH	None	ENSG00000265448	ENST00000583411	unprocessed_pseudogene	KNOWN	None	None	None	None	206396888	206396999	-1	None	None
HG1293_PATCH	SRGAP2-AS1	ENSG00000264611	ENST00000584144	antisense	KNOWN	None	40902	None	None	206442425	206445160	-1	None	None
HG1293_PATCH	None	ENSG00000264375	ENST00000579118	antisense	KNOWN	None	None	None	None	206698210	206699183	-1	None	None
HG1293_PATCH	DYRK3	ENSG00000265184	ENST00000578483	protein_coding	KNOWN	None	3094	1767	588	206699097	206712754	1	None	RED, REDK, hYAK3-2
HG1293_PATCH	DYRK3	ENSG00000265184	ENST00000581534	protein_coding	KNOWN	None	3094	1707	568	206699140	206712758	1	None	RED, REDK, hYAK3-2
HG1293_PATCH	DYRK3	ENSG00000265184	ENST00000584473	processed_transcript	KNOWN	None	3094	None	None	206699289	206747980	1	None	RED, REDK, hYAK3-2
HG1293_PATCH	DYRK3	ENSG00000265184	ENST00000583372	protein_coding	KNOWN	None	3094	731	242	206699335	206711550	1	None	RED, REDK, hYAK3-2
HG1293_PATCH	DYRK3	ENSG00000265184	ENST00000584909	protein_coding	KNOWN	None	3094	1707	568	206699390	206712675	1	None	RED, REDK, hYAK3-2
HG1293_PATCH	None	ENSG00000263695	ENST00000584138	snoRNA	NOVEL	None	None	None	None	206745524	206745596	1	None	None
HG1293_PATCH	MAPKAPK2	ENSG00000266641	ENST00000579291	protein_coding	KNOWN	None	6887	1113	370	206748505	206796424	1	None	None
HG1293_PATCH	MAPKAPK2	ENSG00000266641	ENST00000579635	protein_coding	KNOWN	None	6887	1203	400	206748598	206797844	1	None	None
HG1293_PATCH	MAPKAPK2	ENSG00000266641	ENST00000578617	processed_transcript	PUTATIVE	None	6887	None	None	206792495	206793031	1	None	None
HG1293_PATCH	MAPKAPK2	ENSG00000266641	ENST00000577629	processed_transcript	PUTATIVE	None	6887	None	None	206794849	206795677	1	None	None
HG1293_PATCH	None	ENSG00000264533	ENST00000579519	processed_pseudogene	KNOWN	None	None	None	None	206759398	206759830	-1	None	None
HG1293_PATCH	None	ENSG00000241541	ENST00000474410	misc_RNA	NOVEL	None	None	None	None	206811541	206811653	-1	None	None
HG1322_PATCH	None	ENSG00000270950	ENST00000604080	processed_pseudogene	KNOWN	None	None	None	None	29730998	29731132	-1	None	None
HG1322_PATCH	None	ENSG00000264325	ENST00000581376	protein_coding	NOVEL	None	None	1056	351	29759097	29769948	1	None	None
HG1322_PATCH	RPL7AP7	ENSG00000263668	ENST00000581004	processed_pseudogene	KNOWN	None	21395	None	None	29770729	29771525	-1	None	RPL7B, dJ377H14.2
HG1322_PATCH	MICG	ENSG00000266810	ENST00000579015	unprocessed_pseudogene	KNOWN	None	16802	None	None	29780097	29780228	-1	None	None
HG1322_PATCH	None	ENSG00000264751	ENST00000607159	protein_coding	KNOWN	None	None	1062	353	29794491	29798126	1	None	None
HG1322_PATCH	None	ENSG00000264751	ENST00000582523	protein_coding	KNOWN	None	None	1131	376	29794491	29798162	1	None	None
HG1322_PATCH	None	ENSG00000264751	ENST00000583373	protein_coding	KNOWN	None	None	1017	338	29794491	29798554	1	None	None
HG1322_PATCH	None	ENSG00000266796	ENST00000452596	protein_coding	NOVEL	None	None	1173	390	29849263	29852237	1	None	None
HG1322_PATCH	None	ENSG00000266796	ENST00000583640	protein_coding	NOVEL	None	None	1086	361	29849263	29852708	1	None	None
HG1322_PATCH	HLA-T	ENSG00000264100	ENST00000579564	unprocessed_pseudogene	KNOWN	None	23478	None	None	29858199	29859330	1	HLA-16	None
HG1322_PATCH	DDX39BP1	ENSG00000264683	ENST00000584800	unprocessed_pseudogene	KNOWN	None	33450	None	None	29868164	29868530	1	BAT1P1	None
HG1322_PATCH	MCCD1P1	ENSG00000266519	ENST00000577533	unprocessed_pseudogene	KNOWN	None	33449	None	None	29869403	29870265	-1	None	OTTHUMG00000130506
HG1322_PATCH	HCG4B	ENSG00000270063	ENST00000539660	unprocessed_pseudogene	KNOWN	None	22919	None	None	29887572	29888562	-1	HCG4P6	HCGIV-6, HCGIV.5, HCGIV-06, bCX67J3.3, Em:AB023056.16, bPG309N1.1, bQB90C11.3
HG1322_PATCH	HLA-K	ENSG00000266161	ENST00000582807	unprocessed_pseudogene	KNOWN	None	4969	None	None	29888048	29890825	1	HLAK, HLA70	HLA-70
HG1322_PATCH	HLA-U	ENSG00000264487	ENST00000584814	unprocessed_pseudogene	KNOWN	None	23477	None	None	29893936	29894121	1	HLA-21	Em:AB023056.13
HG1322_PATCH	HCG4P5	ENSG00000265088	ENST00000580020	unprocessed_pseudogene	KNOWN	None	22925	None	None	29901734	29902726	-1	None	HCGIV-05, HCGIV.4, HCGIV-5
HG1322_PATCH	None	ENSG00000265434	ENST00000606130	protein_coding	KNOWN	None	None	1059	352	29902129	29905544	1	None	None
HG1322_PATCH	None	ENSG00000265434	ENST00000583265	protein_coding	KNOWN	None	None	1098	365	29902129	29905544	1	None	None
HG1322_PATCH	None	ENSG00000265434	ENST00000579721	protein_coding	KNOWN	None	None	1185	394	29902213	29909270	1	None	None
HG1322_PATCH	HLA-W	ENSG00000263992	ENST00000577753	unprocessed_pseudogene	KNOWN	None	23425	None	None	29916221	29918195	1	HLA-80	None
HG1304_PATCH	RNU6-1226P	ENSG00000266735	ENST00000582294	snRNA	KNOWN	None	48189	None	None	112517642	112517748	-1	None	None
HG1304_PATCH	None	ENSG00000266888	ENST00000581594	antisense	KNOWN	None	None	None	None	112557461	112627885	1	None	None
HG1304_PATCH	None	ENSG00000266888	ENST00000590139	antisense	KNOWN	None	None	None	None	112558008	112600728	1	None	None
HG1304_PATCH	None	ENSG00000266888	ENST00000592015	antisense	KNOWN	None	None	None	None	112558008	112614034	1	None	None
HG1304_PATCH	None	ENSG00000266888	ENST00000592998	antisense	KNOWN	None	None	None	None	112558008	112627773	1	None	None
HG1304_PATCH	None	ENSG00000266888	ENST00000589944	antisense	KNOWN	None	None	None	None	112558008	112627881	1	None	None
HG1304_PATCH	None	ENSG00000266888	ENST00000591130	antisense	KNOWN	None	None	None	None	112558008	112627885	1	None	None
HG1304_PATCH	None	ENSG00000266888	ENST00000586551	antisense	KNOWN	None	None	None	None	112558008	112666523	1	None	None
HG1304_PATCH	None	ENSG00000266888	ENST00000593020	antisense	KNOWN	None	None	None	None	112558008	112670906	1	None	None
HG1304_PATCH	None	ENSG00000266888	ENST00000591468	antisense	KNOWN	None	None	None	None	112558008	112671016	1	None	None
HG1304_PATCH	None	ENSG00000266888	ENST00000589988	antisense	KNOWN	None	None	None	None	112558008	112671296	1	None	None
HG1308_PATCH	MIR335	ENSG00000263487	ENST00000577923	miRNA	KNOWN	None	31773	None	None	130135952	130136045	1	MIRN335	hsa-mir-335
HG1308_PATCH	None	ENSG00000272014	ENST00000607773	protein_coding	KNOWN	None	None	426	141	130217801	130218782	1	None	None
HG1308_PATCH	RNA5SP246	ENSG00000264035	ENST00000577748	rRNA	KNOWN	None	43146	None	None	130266449	130266567	-1	RN5S246	None
HG1308_PATCH	MIR29A	ENSG00000265659	ENST00000577462	miRNA	KNOWN	None	31616	None	None	130540390	130540475	-1	MIRN29, MIRN29A	hsa-mir-29, hsa-mir-29a
HG1308_PATCH	MIR29B1	ENSG00000265103	ENST00000582633	miRNA	KNOWN	None	31619	None	None	130541113	130541193	-1	MIRN29B1	hsa-mir-29b-1
HG1308_PATCH	None	ENSG00000265177	ENST00000584405	lincRNA	KNOWN	None	None	None	None	130605414	130771717	-1	None	None
HG1308_PATCH	None	ENSG00000265177	ENST00000581174	lincRNA	KNOWN	None	None	None	None	130607816	130770684	-1	None	None
HG1308_PATCH	None	ENSG00000265177	ENST00000582465	lincRNA	KNOWN	None	None	None	None	130607821	130773830	-1	None	None
HG1308_PATCH	None	ENSG00000265177	ENST00000580522	processed_transcript	KNOWN	None	None	None	None	130607822	130647763	-1	None	None
HG1308_PATCH	None	ENSG00000265177	ENST00000579072	lincRNA	KNOWN	None	None	None	None	130608450	130752128	-1	None	None
HG1308_PATCH	None	ENSG00000265177	ENST00000581076	lincRNA	KNOWN	None	None	None	None	130609264	130771633	-1	None	None
HG1308_PATCH	None	ENSG00000265177	ENST00000580227	lincRNA	KNOWN	None	None	None	None	130706490	130716204	-1	None	None
HG1308_PATCH	None	ENSG00000265177	ENST00000585254	lincRNA	KNOWN	None	None	None	None	130716098	130771753	-1	None	None
HG962_PATCH	None	ENSG00000265385	ENST00000584518	protein_coding	KNOWN	None	None	438	145	70866135	70866572	-1	None	None
HG962_PATCH	None	ENSG00000264996	ENST00000585158	lincRNA	KNOWN	None	None	None	None	70922309	70923361	1	None	None
HG871_PATCH	AKR1C1	ENSG00000266592	ENST00000578362	protein_coding	KNOWN	None	384	972	323	4934796	5020142	1	DDH1	DDH, MBAB, DD1, HAKRC
HG871_PATCH	AKR1C1	ENSG00000266592	ENST00000584030	processed_transcript	KNOWN	None	384	None	None	5005445	5020142	1	DDH1	DDH, MBAB, DD1, HAKRC
HG871_PATCH	AKR1C1	ENSG00000266592	ENST00000582412	protein_coding	KNOWN	None	384	972	323	5005445	5025475	1	DDH1	DDH, MBAB, DD1, HAKRC
HG871_PATCH	AKR1C1	ENSG00000266592	ENST00000578631	protein_coding	KNOWN	None	384	744	247	5005641	5014939	1	DDH1	DDH, MBAB, DD1, HAKRC
HG871_PATCH	AKR1C1	ENSG00000266592	ENST00000584844	protein_coding	KNOWN	None	384	618	205	5005981	5012133	1	DDH1	DDH, MBAB, DD1, HAKRC
HG871_PATCH	AKR1C1	ENSG00000266592	ENST00000577656	processed_transcript	KNOWN	None	384	None	None	5007683	5009240	1	DDH1	DDH, MBAB, DD1, HAKRC
HG871_PATCH	None	ENSG00000264466	ENST00000582982	snoRNA	NOVEL	None	None	None	None	5046902	5047034	1	None	None
HG871_PATCH	None	ENSG00000263495	ENST00000578335	snoRNA	NOVEL	None	None	None	None	5090055	5090173	-1	None	None
HG871_PATCH	None	ENSG00000265721	ENST00000582926	snoRNA	NOVEL	None	None	None	None	5135600	5135735	-1	None	None
HG871_PATCH	None	ENSG00000265431	ENST00000583588	snoRNA	NOVEL	None	None	None	None	5238076	5238165	-1	None	None
HG1211_PATCH	FAM21C	ENSG00000265551	ENST00000579270	protein_coding	KNOWN	None	23414	3957	1318	46222648	46288409	1	None	Em:AC012044.3, KIAA0592
HG1211_PATCH	FAM21C	ENSG00000265551	ENST00000584292	protein_coding	KNOWN	None	23414	3840	1279	46222648	46288409	1	None	Em:AC012044.3, KIAA0592
HG1211_PATCH	FAM21C	ENSG00000265551	ENST00000583993	protein_coding	KNOWN	None	23414	3738	1245	46222648	46288409	1	None	Em:AC012044.3, KIAA0592
HG1211_PATCH	FAM21C	ENSG00000265551	ENST00000578828	protein_coding	KNOWN	None	23414	3963	1320	46222667	46288409	1	None	Em:AC012044.3, KIAA0592
HG1211_PATCH	FAM21C	ENSG00000265551	ENST00000543972	protein_coding	KNOWN	None	23414	3789	1262	46222684	46288409	1	None	Em:AC012044.3, KIAA0592
HG1211_PATCH	FAM21C	ENSG00000265551	ENST00000577859	protein_coding	NOVEL	None	23414	838	278	46222736	46247001	1	None	Em:AC012044.3, KIAA0592
HG1211_PATCH	FAM21C	ENSG00000265551	ENST00000578866	retained_intron	KNOWN	None	23414	None	None	46235639	46240391	1	None	Em:AC012044.3, KIAA0592
HG1211_PATCH	FAM21C	ENSG00000265551	ENST00000583303	retained_intron	KNOWN	None	23414	None	None	46274464	46281411	1	None	Em:AC012044.3, KIAA0592
HG1211_PATCH	FAM21C	ENSG00000265551	ENST00000580778	retained_intron	KNOWN	None	23414	None	None	46281818	46288049	1	None	Em:AC012044.3, KIAA0592
HG1211_PATCH	None	ENSG00000270256	ENST00000603185	processed_pseudogene	KNOWN	None	None	None	None	46308096	46308392	-1	None	None
HG1211_PATCH	FAM25E	ENSG00000264282	ENST00000582383	protein_coding	KNOWN	None	23587	528	175	46310876	46313036	-1	None	AC012044.5
HG1211_PATCH	AGAP4	ENSG00000264842	ENST00000342551	protein_coding	KNOWN	None	23459	1992	663	46321042	46342921	-1	CTGLF1	Em:AC012044.1, MRIP2
HG1211_PATCH	AGAP4	ENSG00000264842	ENST00000582340	processed_transcript	KNOWN	None	23459	None	None	46322788	46349323	-1	CTGLF1	Em:AC012044.1, MRIP2
HG1211_PATCH	AGAP4	ENSG00000264842	ENST00000579115	protein_coding	NOVEL	None	23459	413	136	46326842	46342675	-1	CTGLF1	Em:AC012044.1, MRIP2
HG1211_PATCH	AGAP4	ENSG00000264842	ENST00000583735	retained_intron	KNOWN	None	23459	None	None	46336974	46339951	-1	CTGLF1	Em:AC012044.1, MRIP2
HG1211_PATCH	AGAP4	ENSG00000264842	ENST00000584801	retained_intron	KNOWN	None	23459	None	None	46339714	46342774	-1	CTGLF1	Em:AC012044.1, MRIP2
HG1211_PATCH	None	ENSG00000264889	ENST00000585110	processed_transcript	KNOWN	None	None	None	None	46349541	46387931	-1	None	None
HG1211_PATCH	None	ENSG00000264889	ENST00000579608	unprocessed_pseudogene	KNOWN	None	None	None	None	46358510	46411606	-1	None	None
HG1211_PATCH	None	ENSG00000264889	ENST00000583801	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	46383613	46411619	-1	None	None
HG1211_PATCH	RNA5SP310	ENSG00000264291	ENST00000584695	rRNA	KNOWN	None	43210	None	None	46351755	46351870	1	RN5S310	None
HG1211_PATCH	None	ENSG00000264217	ENST00000584631	processed_pseudogene	KNOWN	None	None	None	None	46435970	46436302	1	None	None
HG1211_PATCH	TIMM23B	ENSG00000265354	ENST00000602869	protein_coding	NOVEL	None	23581	357	118	46467922	46484295	1	None	bA592B15.7
HG1211_PATCH	TIMM23B	ENSG00000265354	ENST00000602504	nonsense_mediated_decay	KNOWN	None	23581	300	99	46467927	46484295	1	None	bA592B15.7
HG1211_PATCH	TIMM23B	ENSG00000265354	ENST00000602798	protein_coding	KNOWN	None	23581	369	122	46467939	46484300	1	None	bA592B15.7
HG1211_PATCH	TIMM23B	ENSG00000265354	ENST00000580018	protein_coding	KNOWN	None	23581	514	170	46467949	46484295	1	None	bA592B15.7
HG1211_PATCH	TIMM23B	ENSG00000265354	ENST00000602497	nonsense_mediated_decay	KNOWN	None	23581	117	38	46467959	46484295	1	None	bA592B15.7
HG1211_PATCH	TIMM23B	ENSG00000265354	ENST00000602555	protein_coding	NOVEL	None	23581	403	133	46467968	46484295	1	None	bA592B15.7
HG1211_PATCH	None	ENSG00000265733	ENST00000580726	snoRNA	NOVEL	None	None	None	None	46480058	46480258	1	None	None
HG1211_PATCH	NCOA4	ENSG00000266412	ENST00000577819	protein_coding	NOVEL	None	7671	1728	575	46500536	46518843	-1	None	ARA70, RFG, ELE1, PTC3, DKFZp762E1112
HG1211_PATCH	NCOA4	ENSG00000266412	ENST00000581486	protein_coding	KNOWN	None	7671	1845	614	46500538	46526043	-1	None	ARA70, RFG, ELE1, PTC3, DKFZp762E1112
HG1211_PATCH	NCOA4	ENSG00000266412	ENST00000585132	protein_coding	KNOWN	None	7671	1845	614	46500538	46518903	-1	None	ARA70, RFG, ELE1, PTC3, DKFZp762E1112
HG1211_PATCH	NCOA4	ENSG00000266412	ENST00000579039	protein_coding	KNOWN	None	7671	1893	630	46500539	46526162	-1	None	ARA70, RFG, ELE1, PTC3, DKFZp762E1112
HG1211_PATCH	NCOA4	ENSG00000266412	ENST00000578454	protein_coding	KNOWN	None	7671	1953	650	46500539	46526162	-1	None	ARA70, RFG, ELE1, PTC3, DKFZp762E1112
HG1211_PATCH	NCOA4	ENSG00000266412	ENST00000583565	protein_coding	KNOWN	None	7671	1845	614	46500539	46514985	-1	None	ARA70, RFG, ELE1, PTC3, DKFZp762E1112
HG1211_PATCH	NCOA4	ENSG00000266412	ENST00000585056	protein_coding	KNOWN	None	7671	1545	514	46501621	46526063	-1	None	ARA70, RFG, ELE1, PTC3, DKFZp762E1112
HG1211_PATCH	NCOA4	ENSG00000266412	ENST00000580070	protein_coding	KNOWN	None	7671	1347	448	46501826	46526040	-1	None	ARA70, RFG, ELE1, PTC3, DKFZp762E1112
HG1211_PATCH	NCOA4	ENSG00000266412	ENST00000578680	protein_coding	KNOWN	None	7671	792	263	46506323	46517970	-1	None	ARA70, RFG, ELE1, PTC3, DKFZp762E1112
HG1211_PATCH	NCOA4	ENSG00000266412	ENST00000581981	processed_transcript	KNOWN	None	7671	None	None	46506453	46526065	-1	None	ARA70, RFG, ELE1, PTC3, DKFZp762E1112
HG1211_PATCH	MSMB	ENSG00000263639	ENST00000582163	protein_coding	KNOWN	None	7372	345	114	46528753	46541772	-1	None	PSP-94, PSP57, PSP94, IGBF, MSP, MSPB, PN44, PRPS, PSP
HG1211_PATCH	MSMB	ENSG00000263639	ENST00000581478	protein_coding	KNOWN	None	7372	234	77	46528759	46541717	-1	None	PSP-94, PSP57, PSP94, IGBF, MSP, MSPB, PN44, PRPS, PSP
HG1211_PATCH	MSMB	ENSG00000263639	ENST00000578902	processed_transcript	KNOWN	None	7372	None	None	46528777	46541717	-1	None	PSP-94, PSP57, PSP94, IGBF, MSP, MSPB, PN44, PRPS, PSP
HG1211_PATCH	MSMB	ENSG00000263639	ENST00000577508	processed_transcript	KNOWN	None	7372	None	None	46528819	46541717	-1	None	PSP-94, PSP57, PSP94, IGBF, MSP, MSPB, PN44, PRPS, PSP
HG1211_PATCH	MSMB	ENSG00000263639	ENST00000577973	processed_transcript	KNOWN	None	7372	None	None	46533910	46541717	-1	None	PSP-94, PSP57, PSP94, IGBF, MSP, MSPB, PN44, PRPS, PSP
HG1211_PATCH	MSMB	ENSG00000263639	ENST00000584537	processed_transcript	KNOWN	None	7372	None	None	46534861	46541717	-1	None	PSP-94, PSP57, PSP94, IGBF, MSP, MSPB, PN44, PRPS, PSP
HG1211_PATCH	None	ENSG00000264852	ENST00000583793	processed_pseudogene	KNOWN	None	None	None	None	46555796	46556144	-1	None	None
HG1211_PATCH	None	ENSG00000264586	ENST00000579116	processed_pseudogene	KNOWN	None	None	None	None	46558698	46559168	1	None	None
HG1211_PATCH	AGAP7	ENSG00000264204	ENST00000311652	protein_coding	KNOWN	None	23465	1992	663	46604943	46627108	1	CTGLF4	bA109G10.1
HG1211_PATCH	None	ENSG00000264221	ENST00000578932	lincRNA	KNOWN	None	None	None	None	46694725	46698084	-1	None	None
HG1211_PATCH	AHCYP1	ENSG00000263471	ENST00000581663	processed_pseudogene	KNOWN	None	44993	None	None	46718591	46719863	1	None	None
HG1211_PATCH	ANTXRLP1	ENSG00000263482	ENST00000604933	transcribed_unprocessed_pseudogene	KNOWN	None	45004	None	None	46729423	46769003	-1	None	None
HG1211_PATCH	ANTXRLP1	ENSG00000263482	ENST00000577434	processed_transcript	KNOWN	None	45004	None	None	46744357	46765021	-1	None	None
HG1211_PATCH	ANTXRLP1	ENSG00000263482	ENST00000582711	unprocessed_pseudogene	KNOWN	None	45004	None	None	46764075	46769005	-1	None	None
HG1211_PATCH	None	ENSG00000263673	ENST00000580215	lincRNA	KNOWN	None	None	None	None	46780296	46781445	1	None	None
HG1211_PATCH	CTGLF8P	ENSG00000266301	ENST00000582278	unprocessed_pseudogene	KNOWN	None	23461	None	None	46832672	46848689	1	None	bA556L1.5
HG1211_PATCH	None	ENSG00000264230	ENST00000584982	protein_coding	KNOWN	None	None	1098	365	46871075	46887229	1	None	None
HG1211_PATCH	None	ENSG00000266170	ENST00000575824	protein_coding	NOVEL	None	None	1128	375	46956547	46961329	-1	None	None
HG1211_PATCH	GPRIN2	ENSG00000262722	ENST00000575926	protein_coding	KNOWN	None	23730	1377	458	47039422	47047139	-1	KIAA0514	MGC15171
HG1211_PATCH	GPRIN2	ENSG00000262722	ENST00000572702	protein_coding	KNOWN	None	23730	1377	458	47044492	47050978	-1	KIAA0514	MGC15171
HG1211_PATCH	SYT15	ENSG00000263480	ENST00000583692	protein_coding	KNOWN	None	17167	1425	474	47073665	47084619	1	None	CHR10SYT
HG1211_PATCH	SYT15	ENSG00000263480	ENST00000578496	protein_coding	KNOWN	None	17167	1173	390	47074464	47089621	1	None	CHR10SYT
HG1211_PATCH	SYT15	ENSG00000263480	ENST00000577882	protein_coding	PUTATIVE	None	17167	410	135	47074532	47079286	1	None	CHR10SYT
HG1211_PATCH	SYT15	ENSG00000263480	ENST00000581986	protein_coding	KNOWN	None	17167	1266	421	47074550	47083131	1	None	CHR10SYT
HG1211_PATCH	SYT15	ENSG00000263480	ENST00000580736	protein_coding	KNOWN	None	17167	1173	390	47074581	47085947	1	None	CHR10SYT
HG1211_PATCH	SYT15	ENSG00000263480	ENST00000581379	protein_coding	KNOWN	None	17167	543	180	47077619	47089621	1	None	CHR10SYT
HG1211_PATCH	SYT15	ENSG00000263480	ENST00000577927	processed_transcript	KNOWN	None	17167	None	None	47083338	47089074	1	None	CHR10SYT
HG1211_PATCH	None	ENSG00000263939	ENST00000583029	antisense	KNOWN	None	None	None	None	47078230	47093593	-1	None	None
HG1211_PATCH	None	ENSG00000263939	ENST00000584388	antisense	KNOWN	None	None	None	None	47091457	47093512	-1	None	None
HG1211_PATCH	None	ENSG00000266253	ENST00000577301	lincRNA	KNOWN	None	None	None	None	47097803	47107602	1	None	None
HG1211_PATCH	None	ENSG00000266253	ENST00000582971	lincRNA	KNOWN	None	None	None	None	47093366	47107602	1	None	None
HG1211_PATCH	None	ENSG00000266253	ENST00000601186	lincRNA	KNOWN	None	None	None	None	47106569	47107457	1	None	None
HG1211_PATCH	None	ENSG00000266253	ENST00000595253	lincRNA	KNOWN	None	None	None	None	47097513	47107457	1	None	None
HG1211_PATCH	None	ENSG00000266253	ENST00000596249	lincRNA	KNOWN	None	None	None	None	47097357	47107457	1	None	None
HG1211_PATCH	FAM35BP	ENSG00000264651	ENST00000577453	transcribed_unprocessed_pseudogene	KNOWN	None	31425	None	None	47105922	47147473	-1	FAM35B	bA38L15.1
HG1211_PATCH	FAM35BP	ENSG00000264651	ENST00000583082	processed_transcript	KNOWN	None	31425	None	None	47121377	47130593	-1	FAM35B	bA38L15.1
HG1211_PATCH	FAM35BP	ENSG00000264651	ENST00000580610	unprocessed_pseudogene	KNOWN	None	31425	None	None	47106446	47130478	-1	FAM35B	bA38L15.1
HG1211_PATCH	None	ENSG00000272340	ENST00000606745	lincRNA	KNOWN	None	None	None	None	47127835	47130920	1	None	None
HG1211_PATCH	RHEBP1	ENSG00000266880	ENST00000578582	processed_pseudogene	KNOWN	None	10010	None	None	47130359	47130914	-1	RHEB1	RHEB
HG1211_PATCH	RN7SL248P	ENSG00000266585	ENST00000577861	misc_RNA	KNOWN	None	46264	None	None	47144396	47144679	1	None	None
HG1211_PATCH	None	ENSG00000264404	ENST00000582385	lincRNA	KNOWN	None	None	None	None	47245542	47246689	1	None	None
HG1211_PATCH	None	ENSG00000264404	ENST00000582543	lincRNA	KNOWN	None	None	None	None	47236044	47246689	1	None	None
HG1211_PATCH	CTSLP3	ENSG00000265854	ENST00000580429	unprocessed_pseudogene	KNOWN	None	2541	None	None	47253537	47254648	1	CTSLL3, CTSL1P3	None
HG1211_PATCH	GLUD1P2	ENSG00000265366	ENST00000597237	processed_transcript	KNOWN	None	4337	None	None	47254541	47282319	-1	GLUDP2	None
HG1211_PATCH	GLUD1P2	ENSG00000265366	ENST00000600326	processed_transcript	KNOWN	None	4337	None	None	47266195	47281604	-1	GLUDP2	None
HG1211_PATCH	GLUD1P2	ENSG00000265366	ENST00000599102	processed_transcript	KNOWN	None	4337	None	None	47254541	47280672	-1	GLUDP2	None
HG1211_PATCH	GLUD1P2	ENSG00000265366	ENST00000597561	processed_transcript	KNOWN	None	4337	None	None	47267877	47280488	-1	GLUDP2	None
HG1211_PATCH	GLUD1P2	ENSG00000265366	ENST00000601495	processed_transcript	KNOWN	None	4337	None	None	47254544	47272816	-1	GLUDP2	None
HG1211_PATCH	GLUD1P2	ENSG00000265366	ENST00000583339	transcribed_unprocessed_pseudogene	KNOWN	None	4337	None	None	47266187	47272281	-1	GLUDP2	None
HG1211_PATCH	DUSP8P1	ENSG00000265424	ENST00000578088	processed_pseudogene	KNOWN	None	3075	None	None	47270683	47271629	-1	DUSP8P	None
HG1211_PATCH	BMS1P5	ENSG00000265124	ENST00000581191	unprocessed_pseudogene	KNOWN	None	23653	None	None	47311838	47333708	1	BMS1LP5	bA508M1.1, OTTHUMG00000018157
HG1211_PATCH	BMS1P5	ENSG00000265124	ENST00000578343	unprocessed_pseudogene	KNOWN	None	23653	None	None	47311852	47333616	1	BMS1LP5	bA508M1.1, OTTHUMG00000018157
HG1211_PATCH	BMS1P5	ENSG00000265124	ENST00000603888	transcribed_unprocessed_pseudogene	KNOWN	None	23653	None	None	47286044	47333268	1	BMS1LP5	bA508M1.1, OTTHUMG00000018157
HG1211_PATCH	BMS1P5	ENSG00000265124	ENST00000585036	processed_transcript	KNOWN	None	23653	None	None	47292164	47331270	1	BMS1LP5	bA508M1.1, OTTHUMG00000018157
HG1211_PATCH	BMS1P5	ENSG00000265124	ENST00000580094	processed_transcript	KNOWN	None	23653	None	None	47283838	47307437	1	BMS1LP5	bA508M1.1, OTTHUMG00000018157
HG1211_PATCH	RNA5SP314	ENSG00000264664	ENST00000580284	rRNA	KNOWN	None	43214	None	None	47302906	47303021	-1	RN5S314	None
HG1211_PATCH	FRMPD2P1	ENSG00000265397	ENST00000578771	unprocessed_pseudogene	KNOWN	None	16843	None	None	47372122	47390774	1	PDZK5A, PDZD5A, FRMPD2L1	yX59F3.2
HG1211_PATCH	FRMPD2P1	ENSG00000265397	ENST00000582652	unprocessed_pseudogene	KNOWN	None	16843	None	None	47366306	47390010	1	PDZK5A, PDZD5A, FRMPD2L1	yX59F3.2
HG1211_PATCH	PTPN20B	ENSG00000264832	ENST00000583632	processed_transcript	KNOWN	None	23423	None	None	47406844	47497770	1	None	bA42B19.1, DKFZP566K0524
HG1211_PATCH	PTPN20B	ENSG00000264832	ENST00000584849	protein_coding	KNOWN	None	23423	1020	339	47406876	47497770	1	None	bA42B19.1, DKFZP566K0524
HG1211_PATCH	PTPN20B	ENSG00000264832	ENST00000584922	processed_transcript	KNOWN	None	23423	None	None	47406876	47497770	1	None	bA42B19.1, DKFZP566K0524
HG1211_PATCH	PTPN20B	ENSG00000264832	ENST00000585175	protein_coding	KNOWN	None	23423	379	125	47406876	47495398	1	None	bA42B19.1, DKFZP566K0524
HG1211_PATCH	PTPN20B	ENSG00000264832	ENST00000583073	protein_coding	KNOWN	None	23423	681	226	47406883	47497768	1	None	bA42B19.1, DKFZP566K0524
HG1211_PATCH	PTPN20B	ENSG00000264832	ENST00000584081	protein_coding	KNOWN	None	23423	1020	339	47406886	47497768	1	None	bA42B19.1, DKFZP566K0524
HG1211_PATCH	PTPN20B	ENSG00000264832	ENST00000581350	protein_coding	KNOWN	None	23423	438	145	47406886	47497768	1	None	bA42B19.1, DKFZP566K0524
HG1211_PATCH	PTPN20B	ENSG00000264832	ENST00000578769	protein_coding	KNOWN	None	23423	810	269	47407229	47496237	1	None	bA42B19.1, DKFZP566K0524
HG1211_PATCH	PTPN20B	ENSG00000264832	ENST00000582347	nonsense_mediated_decay	KNOWN	None	23423	315	104	47407229	47496237	1	None	bA42B19.1, DKFZP566K0524
HG1211_PATCH	PTPN20B	ENSG00000264832	ENST00000582068	processed_transcript	KNOWN	None	23423	None	None	47407229	47496237	1	None	bA42B19.1, DKFZP566K0524
HG1211_PATCH	PTPN20B	ENSG00000264832	ENST00000579331	protein_coding	KNOWN	None	23423	681	226	47407229	47496237	1	None	bA42B19.1, DKFZP566K0524
HG1211_PATCH	PTPN20B	ENSG00000264832	ENST00000579217	processed_transcript	KNOWN	None	23423	None	None	47407229	47496237	1	None	bA42B19.1, DKFZP566K0524
HG1211_PATCH	PTPN20B	ENSG00000264832	ENST00000582312	protein_coding	KNOWN	None	23423	1236	411	47407229	47496237	1	None	bA42B19.1, DKFZP566K0524
HG1211_PATCH	PTPN20B	ENSG00000264832	ENST00000578057	protein_coding	KNOWN	None	23423	654	217	47407229	47496237	1	None	bA42B19.1, DKFZP566K0524
HG1211_PATCH	PTPN20B	ENSG00000264832	ENST00000583723	protein_coding	KNOWN	None	23423	1020	339	47407229	47496237	1	None	bA42B19.1, DKFZP566K0524
HG1211_PATCH	PTPN20B	ENSG00000264832	ENST00000578533	protein_coding	KNOWN	None	23423	621	206	47407229	47496237	1	None	bA42B19.1, DKFZP566K0524
HG1211_PATCH	PTPN20B	ENSG00000264832	ENST00000583680	protein_coding	KNOWN	None	23423	594	197	47407229	47496237	1	None	bA42B19.1, DKFZP566K0524
HG1211_PATCH	PTPN20B	ENSG00000264832	ENST00000577492	protein_coding	KNOWN	None	23423	1179	392	47407229	47496237	1	None	bA42B19.1, DKFZP566K0524
HG1211_PATCH	PTPN20B	ENSG00000264832	ENST00000582045	protein_coding	KNOWN	None	23423	411	136	47407229	47496237	1	None	bA42B19.1, DKFZP566K0524
HG1211_PATCH	PTPN20B	ENSG00000264832	ENST00000581507	protein_coding	KNOWN	None	23423	438	145	47407229	47496237	1	None	bA42B19.1, DKFZP566K0524
HG1211_PATCH	PTPN20B	ENSG00000264832	ENST00000584823	protein_coding	KNOWN	None	23423	687	228	47407229	47496237	1	None	bA42B19.1, DKFZP566K0524
HG1211_PATCH	PTPN20B	ENSG00000264832	ENST00000581588	nonsense_mediated_decay	KNOWN	None	23423	189	62	47416349	47477102	1	None	bA42B19.1, DKFZP566K0524
HG1211_PATCH	PTPN20B	ENSG00000264832	ENST00000584691	protein_coding	KNOWN	None	23423	204	67	47421446	47439440	1	None	bA42B19.1, DKFZP566K0524
HG1211_PATCH	PTPN20B	ENSG00000264832	ENST00000583736	protein_coding	KNOWN	None	23423	1179	392	47427825	47497768	1	None	bA42B19.1, DKFZP566K0524
HG1211_PATCH	PTPN20B	ENSG00000264832	ENST00000578079	protein_coding	KNOWN	None	23423	837	278	47427825	47497768	1	None	bA42B19.1, DKFZP566K0524
HG1211_PATCH	PTPN20B	ENSG00000264832	ENST00000580860	protein_coding	KNOWN	None	23423	621	206	47427825	47497768	1	None	bA42B19.1, DKFZP566K0524
HG1211_PATCH	PTPN20B	ENSG00000264832	ENST00000577619	processed_transcript	KNOWN	None	23423	None	None	47427865	47496236	1	None	bA42B19.1, DKFZP566K0524
HG1211_PATCH	PTPN20B	ENSG00000264832	ENST00000581259	protein_coding	KNOWN	None	23423	438	145	47427865	47496236	1	None	bA42B19.1, DKFZP566K0524
HG1211_PATCH	PTPN20B	ENSG00000264832	ENST00000583297	protein_coding	KNOWN	None	23423	1263	420	47427871	47496237	1	None	bA42B19.1, DKFZP566K0524
HG1211_PATCH	PTPN20B	ENSG00000264832	ENST00000580111	protein_coding	KNOWN	None	23423	597	198	47427871	47496237	1	None	bA42B19.1, DKFZP566K0524
HG1211_PATCH	PTPN20B	ENSG00000264832	ENST00000583506	retained_intron	KNOWN	None	23423	None	None	47427914	47442290	1	None	bA42B19.1, DKFZP566K0524
HG1211_PATCH	PTPN20B	ENSG00000264832	ENST00000577893	nonsense_mediated_decay	KNOWN	None	23423	439	145	47436030	47497936	1	None	bA42B19.1, DKFZP566K0524
HG1211_PATCH	GDF10	ENSG00000266524	ENST00000580279	protein_coding	KNOWN	None	4215	1437	478	47795834	47808995	1	None	BMP-3b
HG1211_PATCH	GDF2	ENSG00000263761	ENST00000581492	protein_coding	KNOWN	None	4217	1290	429	47817957	47821718	1	None	BMP-9, BMP9
HG1211_PATCH	RBP3	ENSG00000265203	ENST00000584701	protein_coding	KNOWN	None	9921	3744	1247	47843819	47853323	1	None	D10S64, D10S65, D10S66
HG1211_PATCH	None	ENSG00000265383	ENST00000584869	miRNA	NOVEL	None	None	None	None	47847188	47847286	-1	None	None
HG1211_PATCH	ZNF488	ENSG00000265763	ENST00000585316	protein_coding	KNOWN	None	23535	1023	340	47860944	47879786	-1	None	FLJ32104
HG1211_PATCH	ZNF488	ENSG00000265763	ENST00000582800	protein_coding	PUTATIVE	None	23535	219	72	47860944	47879709	-1	None	FLJ32104
HG1211_PATCH	ZNF488	ENSG00000265763	ENST00000591025	protein_coding	KNOWN	None	23535	702	233	47860950	47879709	-1	None	FLJ32104
HG1211_PATCH	ZNF488	ENSG00000265763	ENST00000580786	protein_coding	KNOWN	None	23535	389	128	47863889	47875445	-1	None	FLJ32104
HG1211_PATCH	ZNF488	ENSG00000265763	ENST00000581498	protein_coding	KNOWN	None	23535	358	118	47863920	47870424	-1	None	FLJ32104
HG1211_PATCH	ZNF488	ENSG00000265763	ENST00000579523	protein_coding	KNOWN	None	23535	314	103	47863964	47879737	-1	None	FLJ32104
HG1211_PATCH	ZNF488	ENSG00000265763	ENST00000580415	protein_coding	KNOWN	None	23535	258	85	47864020	47879735	-1	None	FLJ32104
HG1211_PATCH	ZNF488	ENSG00000265763	ENST00000579906	protein_coding	KNOWN	None	23535	219	72	47864059	47875459	-1	None	FLJ32104
HG1211_PATCH	ZNF488	ENSG00000265763	ENST00000580468	protein_coding	KNOWN	None	23535	206	67	47864072	47879737	-1	None	FLJ32104
HG1211_PATCH	None	ENSG00000266298	ENST00000577974	antisense	KNOWN	None	None	None	None	47876210	47876884	-1	None	None
HG1211_PATCH	None	ENSG00000263703	ENST00000583360	lincRNA	KNOWN	None	None	None	None	47902613	47910022	1	None	None
HG1211_PATCH	ANXA8	ENSG00000265190	ENST00000602694	processed_transcript	KNOWN	None	546	None	None	47955610	47979531	-1	ANX8	None
HG1211_PATCH	ANXA8	ENSG00000265190	ENST00000602274	processed_transcript	KNOWN	None	546	None	None	47955639	47958131	-1	ANX8	None
HG1211_PATCH	ANXA8	ENSG00000265190	ENST00000583874	protein_coding	NOVEL	None	546	831	276	47963441	47979557	-1	ANX8	None
HG1211_PATCH	ANXA8	ENSG00000265190	ENST00000585281	protein_coding	KNOWN	None	546	984	327	47963447	47979503	-1	ANX8	None
HG1211_PATCH	ANXA8	ENSG00000265190	ENST00000577813	nonsense_mediated_decay	KNOWN	None	546	426	141	47963989	47979464	-1	ANX8	None
HG1211_PATCH	ANXA8	ENSG00000265190	ENST00000583911	protein_coding	KNOWN	None	546	798	265	47963990	47979457	-1	ANX8	None
HG1211_PATCH	ANXA8	ENSG00000265190	ENST00000602877	retained_intron	KNOWN	None	546	None	None	47973104	47979510	-1	ANX8	None
HG1211_PATCH	None	ENSG00000263801	ENST00000583448	protein_coding	NOVEL	None	None	486	161	47955611	47979531	-1	None	None
HG1211_PATCH	None	ENSG00000270156	ENST00000602379	processed_transcript	KNOWN	None	None	None	None	47972596	47985476	-1	None	None
HG1211_PATCH	None	ENSG00000271545	ENST00000603138	processed_pseudogene	KNOWN	None	None	None	None	47979905	47980204	-1	None	None
HG1211_PATCH	FAM25G	ENSG00000264883	ENST00000584817	protein_coding	KNOWN	None	23590	270	89	47982667	47987141	-1	None	bA301J7.4
HG1211_PATCH	FAM25G	ENSG00000264883	ENST00000584996	processed_transcript	KNOWN	None	23590	None	None	47982667	47985888	-1	None	bA301J7.4
HG1211_PATCH	AGAP9	ENSG00000264561	ENST00000584334	protein_coding	KNOWN	None	23463	2112	703	47997302	48045198	-1	CTGLF6	bA301J7.2, FLJ00312
HG1211_PATCH	AGAP9	ENSG00000264561	ENST00000581330	protein_coding	KNOWN	None	23463	1977	658	47997600	48018974	-1	CTGLF6	bA301J7.2, FLJ00312
HG1211_PATCH	RNA5SP313	ENSG00000266787	ENST00000578915	rRNA	KNOWN	None	43213	None	None	48027800	48027915	1	RN5S313	None
HG1211_PATCH	BMS1P6	ENSG00000263605	ENST00000580164	unprocessed_pseudogene	KNOWN	None	23654	None	None	48035554	48047394	-1	BMS1LP6	bA302K17.2, OTTHUMG00000018142
HG1211_PATCH	GLUD1P6	ENSG00000265630	ENST00000585063	unprocessed_pseudogene	KNOWN	None	23610	None	None	48059000	48065145	1	GLUDP6	bK2173J9.1
HG1211_PATCH	DUSP8P2	ENSG00000264436	ENST00000582007	processed_pseudogene	KNOWN	None	45001	None	None	48059704	48061463	1	None	None
HG1211_PATCH	CTSLP2	ENSG00000266217	ENST00000580501	unprocessed_pseudogene	KNOWN	None	2540	None	None	48076662	48077769	-1	CTSLL2, CTSL1P2	None
HG1211_PATCH	FAM35DP	ENSG00000265578	ENST00000578342	unprocessed_pseudogene	KNOWN	None	34038	None	None	48185155	48225884	1	FAM35B2	None
HG1211_PATCH	FAM35DP	ENSG00000265578	ENST00000582109	unprocessed_pseudogene	KNOWN	None	34038	None	None	48202087	48226140	1	FAM35B2	None
HG1211_PATCH	RN7SL453P	ENSG00000266165	ENST00000581257	misc_RNA	KNOWN	None	46469	None	None	48187892	48188175	-1	None	None
HG1211_PATCH	RHEBP2	ENSG00000266034	ENST00000578381	processed_pseudogene	KNOWN	None	44991	None	None	48201651	48202250	1	None	None
HG1211_PATCH	None	ENSG00000264717	ENST00000576178	protein_coding	NOVEL	None	None	1128	375	48332968	48337753	1	None	None
HG1211_PATCH	FAM25C	ENSG00000264199	ENST00000581831	processed_transcript	KNOWN	None	23586	None	None	48405841	48411971	-1	None	bA164N7.4
HG1211_PATCH	FAM25C	ENSG00000264199	ENST00000579142	protein_coding	KNOWN	None	23586	270	89	48409595	48414013	-1	None	bA164N7.4
HG1211_PATCH	CTGLF12P	ENSG00000265018	ENST00000585227	unprocessed_pseudogene	KNOWN	None	23661	None	None	48424102	48445828	-1	None	bA164N7.2
HG1211_PATCH	CTGLF12P	ENSG00000265018	ENST00000582299	unprocessed_pseudogene	KNOWN	None	23661	None	None	48424178	48445940	-1	None	bA164N7.2
HG1211_PATCH	RNA5SP315	ENSG00000263484	ENST00000581731	rRNA	KNOWN	None	43215	None	None	48454691	48454806	1	RN5S315	None
HG1211_PATCH	BMS1P7	ENSG00000270025	ENST00000602440	transcribed_unprocessed_pseudogene	KNOWN	None	23655	None	None	48462448	48474245	-1	BMS1LP7	bA164N7.1, OTTHUMG00000018163
HG271_PATCH	MIR4740	ENSG00000265426	ENST00000581599	miRNA	KNOWN	None	41711	None	None	79374516	79374578	-1	None	hsa-mir-4740
HG271_PATCH	MIR3186	ENSG00000266303	ENST00000583105	miRNA	KNOWN	None	38311	None	None	79424904	79424988	-1	None	hsa-mir-3186
HG271_PATCH	FSCN2	ENSG00000266662	ENST00000584893	protein_coding	KNOWN	None	3960	1479	492	79502196	79510930	1	None	RP30, RFSN
HG271_PATCH	FSCN2	ENSG00000266662	ENST00000581300	protein_coding	KNOWN	None	3960	1551	516	79502332	79510880	1	None	RP30, RFSN
HG271_PATCH	FSCN2	ENSG00000266662	ENST00000579803	retained_intron	KNOWN	None	3960	None	None	79509946	79510756	1	None	RP30, RFSN
HG1472_PATCH	None	ENSG00000268811	ENST00000593310	lincRNA	KNOWN	None	None	None	None	3816936	3822096	1	None	None
HG1472_PATCH	None	ENSG00000268811	ENST00000599318	lincRNA	KNOWN	None	None	None	None	3816968	3833789	1	None	None
HG1472_PATCH	None	ENSG00000268811	ENST00000595298	lincRNA	KNOWN	None	None	None	None	3816980	3832011	1	None	None
HG27_PATCH	ABT1	ENSG00000268612	ENST00000593546	protein_coding	KNOWN	None	17369	819	272	26597180	26600278	1	None	None
HG27_PATCH	None	ENSG00000271281	ENST00000605559	processed_pseudogene	KNOWN	None	None	None	None	26612131	26613337	-1	None	None
HG27_PATCH	VN1R14P	ENSG00000268998	ENST00000601737	unprocessed_pseudogene	KNOWN	None	18721	None	None	26630782	26632007	-1	None	bA457M11.4, hs6M1-5p, VNR6I5P
HG27_PATCH	None	ENSG00000269264	ENST00000598690	3prime_overlapping_ncrna	KNOWN	None	None	None	None	26634611	26637008	-1	None	None
HG27_PATCH	None	ENSG00000269264	ENST00000606381	3prime_overlapping_ncrna	KNOWN	None	None	None	None	26634744	26635861	-1	None	None
HG27_PATCH	ZNF322	ENSG00000267894	ENST00000595473	protein_coding	KNOWN	None	23640	1209	402	26636518	26659980	-1	ZNF489, ZNF388, HCG12, ZNF322A	bA457M11.3, bA457M11.2
HG27_PATCH	ZNF322	ENSG00000267894	ENST00000597141	protein_coding	KNOWN	None	23640	1209	402	26636519	26651724	-1	ZNF489, ZNF388, HCG12, ZNF322A	bA457M11.3, bA457M11.2
HG27_PATCH	ZNF322	ENSG00000267894	ENST00000594002	protein_coding	KNOWN	None	23640	78	25	26638704	26659913	-1	ZNF489, ZNF388, HCG12, ZNF322A	bA457M11.3, bA457M11.2
HG27_PATCH	ZNF322	ENSG00000267894	ENST00000594430	processed_transcript	KNOWN	None	23640	None	None	26638855	26659963	-1	ZNF489, ZNF388, HCG12, ZNF322A	bA457M11.3, bA457M11.2
HG27_PATCH	ZNF322	ENSG00000267894	ENST00000596100	processed_transcript	KNOWN	None	23640	None	None	26638868	26659917	-1	ZNF489, ZNF388, HCG12, ZNF322A	bA457M11.3, bA457M11.2
HG27_PATCH	None	ENSG00000267814	ENST00000600976	lincRNA	KNOWN	None	None	None	None	26686469	26688192	1	None	None
HG1257_PATCH	None	ENSG00000264821	ENST00000579202	miRNA	NOVEL	None	None	None	None	72138047	72138146	1	None	None
HG1257_PATCH	MIR4650-2	ENSG00000264427	ENST00000581597	miRNA	KNOWN	None	41810	None	None	72162874	72162949	1	None	hsa-mir-4650-2
HG1257_PATCH	None	ENSG00000271506	ENST00000604171	processed_pseudogene	KNOWN	None	None	None	None	72187850	72188054	1	None	None
HG1257_PATCH	RN7SL377P	ENSG00000266147	ENST00000579302	misc_RNA	KNOWN	None	46393	None	None	72287855	72288128	-1	None	None
HG1257_PATCH	SBDSP1	ENSG00000262295	ENST00000571413	transcribed_unprocessed_pseudogene	KNOWN	None	21646	None	None	72294382	72301595	1	SBDSP	None
HG1257_PATCH	SBDSP1	ENSG00000262295	ENST00000571977	transcribed_unprocessed_pseudogene	KNOWN	None	21646	None	None	72294447	72298962	1	SBDSP	None
HG1257_PATCH	SBDSP1	ENSG00000262295	ENST00000575155	transcribed_unprocessed_pseudogene	KNOWN	None	21646	None	None	72294458	72302287	1	SBDSP	None
HG1257_PATCH	SBDSP1	ENSG00000262295	ENST00000570792	transcribed_unprocessed_pseudogene	KNOWN	None	21646	None	None	72294464	72298963	1	SBDSP	None
HG1257_PATCH	SBDSP1	ENSG00000262295	ENST00000575025	transcribed_unprocessed_pseudogene	KNOWN	None	21646	None	None	72294613	72301658	1	SBDSP	None
HG1257_PATCH	RN7SL625P	ENSG00000263191	ENST00000574368	misc_RNA	KNOWN	None	46641	None	None	72306396	72306684	-1	None	None
HG1257_PATCH	None	ENSG00000261894	ENST00000572948	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	72327714	72334048	-1	None	None
HG1257_PATCH	None	ENSG00000261894	ENST00000571352	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	72328860	72335467	-1	None	None
HG1257_PATCH	POM121	ENSG00000262122	ENST00000575107	protein_coding	KNOWN	None	19702	3000	999	72344322	72416397	1	None	KIAA0618, DKFZP586G1822, DKFZP586P2220, POM121A
HG1257_PATCH	POM121	ENSG00000262122	ENST00000575723	protein_coding	KNOWN	None	19702	3000	999	72344322	72413427	1	None	KIAA0618, DKFZP586G1822, DKFZP586P2220, POM121A
HG1257_PATCH	POM121	ENSG00000262122	ENST00000575645	protein_coding	KNOWN	None	19702	2955	984	72344322	72413256	1	None	KIAA0618, DKFZP586G1822, DKFZP586P2220, POM121A
HG1257_PATCH	POM121	ENSG00000262122	ENST00000574731	protein_coding	KNOWN	None	19702	2955	984	72355919	72413256	1	None	KIAA0618, DKFZP586G1822, DKFZP586P2220, POM121A
HG1257_PATCH	POM121	ENSG00000262122	ENST00000573728	protein_coding	KNOWN	None	19702	3750	1249	72390079	72411191	1	None	KIAA0618, DKFZP586G1822, DKFZP586P2220, POM121A
HG1257_PATCH	NSUN5P2	ENSG00000262696	ENST00000602283	processed_transcript	KNOWN	None	16609	None	None	72412538	72419663	-1	NSUN5C	WBSCR20C, MGC15057, FLJ11626, DKFZp434K058, NOL1R2, WBSCR20B
HG1257_PATCH	NSUN5P2	ENSG00000262696	ENST00000573416	processed_transcript	KNOWN	None	16609	None	None	72413250	72419670	-1	NSUN5C	WBSCR20C, MGC15057, FLJ11626, DKFZp434K058, NOL1R2, WBSCR20B
HG1257_PATCH	NSUN5P2	ENSG00000262696	ENST00000575309	processed_transcript	KNOWN	None	16609	None	None	72413255	72419677	-1	NSUN5C	WBSCR20C, MGC15057, FLJ11626, DKFZp434K058, NOL1R2, WBSCR20B
HG1257_PATCH	NSUN5P2	ENSG00000262696	ENST00000575996	processed_transcript	KNOWN	None	16609	None	None	72413255	72419747	-1	NSUN5C	WBSCR20C, MGC15057, FLJ11626, DKFZp434K058, NOL1R2, WBSCR20B
HG1257_PATCH	NSUN5P2	ENSG00000262696	ENST00000570377	transcribed_unprocessed_pseudogene	KNOWN	None	16609	None	None	72413442	72419674	-1	NSUN5C	WBSCR20C, MGC15057, FLJ11626, DKFZp434K058, NOL1R2, WBSCR20B
HG1257_PATCH	TRIM74	ENSG00000262421	ENST00000571453	protein_coding	KNOWN	None	17453	750	249	72424442	72431910	-1	TRIM50C	MGC45440
HG1257_PATCH	TRIM74	ENSG00000262421	ENST00000573986	protein_coding	KNOWN	None	17453	753	250	72424442	72434423	-1	TRIM50C	MGC45440
HG1257_PATCH	STAG3L3	ENSG00000263067	ENST00000570348	protein_coding	PUTATIVE	None	33845	387	128	72434653	72470678	-1	None	None
HG1257_PATCH	STAG3L3	ENSG00000263067	ENST00000573109	nonsense_mediated_decay	KNOWN	None	33845	243	80	72462016	72470875	-1	None	None
HG1257_PATCH	STAG3L3	ENSG00000263067	ENST00000456236	protein_coding	KNOWN	None	33845	618	205	72462347	72470874	-1	None	None
HG1257_PATCH	STAG3L3	ENSG00000263067	ENST00000457631	protein_coding	KNOWN	None	33845	456	151	72462347	72470874	-1	None	None
HG1257_PATCH	STAG3L3	ENSG00000263067	ENST00000576379	protein_coding	KNOWN	None	33845	351	116	72463441	72470872	-1	None	None
HG1257_PATCH	STAG3L3	ENSG00000263067	ENST00000576727	nonsense_mediated_decay	KNOWN	None	33845	405	134	72463447	72470879	-1	None	None
HG1257_PATCH	STAG3L3	ENSG00000263067	ENST00000576259	protein_coding	NOVEL	None	33845	540	179	72463450	72470742	-1	None	None
HG1257_PATCH	None	ENSG00000262863	ENST00000576397	unprocessed_pseudogene	KNOWN	None	None	None	None	72434771	72436684	1	None	None
HG1257_PATCH	None	ENSG00000262709	ENST00000576447	misc_RNA	KNOWN	None	None	None	None	72448318	72448418	-1	None	None
HG1257_PATCH	None	ENSG00000269406	ENST00000599472	protein_coding	NOVEL	None	None	78	25	72453906	72459424	1	None	None
HG1257_PATCH	None	ENSG00000268956	ENST00000600248	unprocessed_pseudogene	KNOWN	None	None	None	None	72470498	72486057	1	None	None
HG1257_PATCH	None	ENSG00000268956	ENST00000601012	unprocessed_pseudogene	KNOWN	None	None	None	None	72471060	72486060	1	None	None
HG1257_PATCH	None	ENSG00000268956	ENST00000597758	unprocessed_pseudogene	KNOWN	None	None	None	None	72471104	72606602	1	None	None
HG1257_PATCH	None	ENSG00000268956	ENST00000601942	unprocessed_pseudogene	KNOWN	None	None	None	None	72471116	72478240	1	None	None
HG1257_PATCH	None	ENSG00000268956	ENST00000601754	unprocessed_pseudogene	KNOWN	None	None	None	None	72560691	72570897	1	None	None
HG1257_PATCH	None	ENSG00000262574	ENST00000575753	misc_RNA	NOVEL	None	None	None	None	72476101	72476202	1	None	None
HG1257_PATCH	SPDYE8P	ENSG00000262461	ENST00000576332	unprocessed_pseudogene	KNOWN	None	33771	None	None	72484688	72550991	-1	None	None
HG1257_PATCH	SPDYE8P	ENSG00000262461	ENST00000573748	unprocessed_pseudogene	KNOWN	None	33771	None	None	72484688	72550991	-1	None	None
HG1257_PATCH	SPDYE8P	ENSG00000262461	ENST00000571071	transcribed_unprocessed_pseudogene	KNOWN	None	33771	None	None	72484869	72547052	-1	None	None
HG1257_PATCH	SPDYE8P	ENSG00000262461	ENST00000575125	transcribed_unprocessed_pseudogene	KNOWN	None	33771	None	None	72485301	72550995	-1	None	None
HG1257_PATCH	SPDYE8P	ENSG00000262461	ENST00000570642	transcribed_unprocessed_pseudogene	KNOWN	None	33771	None	None	72487056	72548103	-1	None	None
HG1257_PATCH	None	ENSG00000262060	ENST00000576497	unprocessed_pseudogene	KNOWN	None	None	None	None	72502343	72565663	1	None	None
HG1257_PATCH	None	ENSG00000269634	ENST00000597395	misc_RNA	NOVEL	None	None	None	None	72560314	72560415	1	None	None
HG1257_PATCH	None	ENSG00000261948	ENST00000572225	unprocessed_pseudogene	KNOWN	None	None	None	None	72619902	72670574	1	None	None
HG1257_PATCH	None	ENSG00000261948	ENST00000572534	unprocessed_pseudogene	KNOWN	None	None	None	None	72640372	72670398	1	None	None
HG1257_PATCH	PHBP5	ENSG00000263213	ENST00000573665	processed_pseudogene	KNOWN	None	39284	None	None	72652926	72653693	-1	None	None
HG1257_PATCH	NCF1B	ENSG00000262984	ENST00000570908	unprocessed_pseudogene	KNOWN	None	32522	None	None	72685533	72700901	1	None	SH3PXD1B
HG1257_PATCH	NCF1B	ENSG00000262984	ENST00000576352	processed_transcript	KNOWN	None	32522	None	None	72685581	72694982	1	None	SH3PXD1B
HG1257_PATCH	NCF1B	ENSG00000262984	ENST00000572317	unprocessed_pseudogene	KNOWN	None	32522	None	None	72685581	72696803	1	None	SH3PXD1B
HG1257_PATCH	NCF1B	ENSG00000262984	ENST00000573068	unprocessed_pseudogene	KNOWN	None	32522	None	None	72685582	72695168	1	None	SH3PXD1B
HG1257_PATCH	NCF1B	ENSG00000262984	ENST00000575494	processed_transcript	KNOWN	None	32522	None	None	72685596	72700902	1	None	SH3PXD1B
HG1257_PATCH	NCF1B	ENSG00000262984	ENST00000571039	transcribed_unprocessed_pseudogene	KNOWN	None	32522	None	None	72685603	72700744	1	None	SH3PXD1B
HG1257_PATCH	POM121B	ENSG00000261952	ENST00000570866	unprocessed_pseudogene	KNOWN	None	34004	None	None	72758454	72766118	1	None	None
HG1257_PATCH	POM121B	ENSG00000261952	ENST00000575410	unprocessed_pseudogene	KNOWN	None	34004	None	None	72761884	72767456	1	None	None
HG1257_PATCH	NSUN5	ENSG00000262589	ENST00000575600	protein_coding	NOVEL	None	16385	1176	391	72767474	72773761	-1	WBSCR20, WBSCR20A	NOL1R, p120, (NOL1), FLJ10267, NSUN5A, Ynl022cL
HG1257_PATCH	NSUN5	ENSG00000262589	ENST00000573285	retained_intron	KNOWN	None	16385	None	None	72768182	72773773	-1	WBSCR20, WBSCR20A	NOL1R, p120, (NOL1), FLJ10267, NSUN5A, Ynl022cL
HG1257_PATCH	NSUN5	ENSG00000262589	ENST00000570494	protein_coding	KNOWN	None	16385	1290	429	72768187	72773763	-1	WBSCR20, WBSCR20A	NOL1R, p120, (NOL1), FLJ10267, NSUN5A, Ynl022cL
HG1257_PATCH	NSUN5	ENSG00000262589	ENST00000573847	protein_coding	KNOWN	None	16385	1401	466	72768187	72773824	-1	WBSCR20, WBSCR20A	NOL1R, p120, (NOL1), FLJ10267, NSUN5A, Ynl022cL
HG1257_PATCH	NSUN5	ENSG00000262589	ENST00000577167	protein_coding	NOVEL	None	16385	1413	470	72768192	72773773	-1	WBSCR20, WBSCR20A	NOL1R, p120, (NOL1), FLJ10267, NSUN5A, Ynl022cL
HG1257_PATCH	NSUN5	ENSG00000262589	ENST00000573865	retained_intron	KNOWN	None	16385	None	None	72768888	72769660	-1	WBSCR20, WBSCR20A	NOL1R, p120, (NOL1), FLJ10267, NSUN5A, Ynl022cL
HG1257_PATCH	NSUN5	ENSG00000262589	ENST00000577067	nonsense_mediated_decay	KNOWN	None	16385	176	57	72769273	72773510	-1	WBSCR20, WBSCR20A	NOL1R, p120, (NOL1), FLJ10267, NSUN5A, Ynl022cL
HG1257_PATCH	TRIM50	ENSG00000262964	ENST00000576045	protein_coding	KNOWN	None	19017	1464	487	72777496	72793039	-1	TRIM50A	FLJ32804
HG1257_PATCH	TRIM50	ENSG00000262964	ENST00000574113	protein_coding	KNOWN	None	19017	1464	487	72777868	72790528	-1	TRIM50A	FLJ32804
HG1257_PATCH	TRIM50	ENSG00000262964	ENST00000573047	retained_intron	KNOWN	None	19017	None	None	72778298	72781899	-1	TRIM50A	FLJ32804
HG1257_PATCH	TRIM50	ENSG00000262964	ENST00000574673	processed_transcript	KNOWN	None	19017	None	None	72786856	72792911	-1	TRIM50A	FLJ32804
HG1257_PATCH	None	ENSG00000262374	ENST00000575786	processed_pseudogene	KNOWN	None	None	None	None	72779064	72780170	1	None	None
HG1257_PATCH	FKBP6	ENSG00000262532	ENST00000574089	protein_coding	KNOWN	None	3722	969	322	72793121	72823503	1	None	PPIase, FKBP36
HG1257_PATCH	FKBP6	ENSG00000262532	ENST00000574605	protein_coding	NOVEL	None	3722	758	251	72793210	72806339	1	None	PPIase, FKBP36
HG1257_PATCH	FKBP6	ENSG00000262532	ENST00000576475	protein_coding	NOVEL	None	3722	894	297	72793232	72823582	1	None	PPIase, FKBP36
HG1257_PATCH	FKBP6	ENSG00000262532	ENST00000570737	nonsense_mediated_decay	KNOWN	None	3722	306	101	72793269	72823582	1	None	PPIase, FKBP36
HG1257_PATCH	FKBP6	ENSG00000262532	ENST00000571103	nonsense_mediated_decay	KNOWN	None	3722	600	199	72793290	72806254	1	None	PPIase, FKBP36
HG1257_PATCH	FKBP6	ENSG00000262532	ENST00000575104	retained_intron	KNOWN	None	3722	None	None	72793303	72794546	1	None	PPIase, FKBP36
HG1257_PATCH	FKBP6	ENSG00000262532	ENST00000572911	protein_coding	KNOWN	None	3722	984	327	72793317	72823582	1	None	PPIase, FKBP36
HG1257_PATCH	RNU6-1080P	ENSG00000262901	ENST00000570472	snRNA	KNOWN	None	48043	None	None	72804051	72804157	-1	None	None
HG1257_PATCH	None	ENSG00000262013	ENST00000573690	misc_RNA	NOVEL	None	None	None	None	72868745	72868846	-1	None	None
HG1257_PATCH	FZD9	ENSG00000263254	ENST00000576173	protein_coding	KNOWN	None	4047	1776	591	72898736	72901077	1	None	FZD3, CD349
HG1257_PATCH	BAZ1B	ENSG00000262694	ENST00000575505	protein_coding	KNOWN	None	961	4452	1483	72905355	72987229	-1	WBSCR9, WBSCR10	WSTF
HG1257_PATCH	BAZ1B	ENSG00000262694	ENST00000573731	protein_coding	KNOWN	None	961	4452	1483	72906522	72987235	-1	WBSCR9, WBSCR10	WSTF
HG1257_PATCH	BAZ1B	ENSG00000262694	ENST00000574337	retained_intron	KNOWN	None	961	None	None	72927421	72931344	-1	WBSCR9, WBSCR10	WSTF
HG1257_PATCH	RNU6-1198P	ENSG00000262123	ENST00000573678	snRNA	KNOWN	None	48161	None	None	72972165	72972231	1	None	None
HG1257_PATCH	BCL7B	ENSG00000263151	ENST00000571488	retained_intron	KNOWN	None	1005	None	None	73001313	73004902	-1	None	None
HG1257_PATCH	BCL7B	ENSG00000263151	ENST00000575486	retained_intron	KNOWN	None	1005	None	None	73001313	73005525	-1	None	None
HG1257_PATCH	BCL7B	ENSG00000263151	ENST00000573321	protein_coding	KNOWN	None	1005	609	202	73001313	73022959	-1	None	None
HG1257_PATCH	BCL7B	ENSG00000263151	ENST00000575174	protein_coding	NOVEL	None	1005	438	145	73001328	73022628	-1	None	None
HG1257_PATCH	BCL7B	ENSG00000263151	ENST00000571187	processed_transcript	KNOWN	None	1005	None	None	73001345	73022208	-1	None	None
HG1257_PATCH	BCL7B	ENSG00000263151	ENST00000576781	nonsense_mediated_decay	KNOWN	None	1005	267	88	73001911	73022566	-1	None	None
HG1257_PATCH	BCL7B	ENSG00000263151	ENST00000573069	processed_transcript	KNOWN	None	1005	None	None	73002058	73022168	-1	None	None
HG1257_PATCH	BCL7B	ENSG00000263151	ENST00000570459	nonsense_mediated_decay	KNOWN	None	1005	237	78	73002073	73022611	-1	None	None
HG1257_PATCH	BCL7B	ENSG00000263151	ENST00000572662	nonsense_mediated_decay	KNOWN	None	1005	93	30	73002099	73022633	-1	None	None
HG1257_PATCH	BCL7B	ENSG00000263151	ENST00000575045	processed_transcript	KNOWN	None	1005	None	None	73002116	73008558	-1	None	None
HG1257_PATCH	BCL7B	ENSG00000263151	ENST00000573626	processed_transcript	KNOWN	None	1005	None	None	73002223	73022198	-1	None	None
HG1257_PATCH	BCL7B	ENSG00000263151	ENST00000576184	nonsense_mediated_decay	KNOWN	None	1005	93	30	73002281	73022644	-1	None	None
HG1257_PATCH	BCL7B	ENSG00000263151	ENST00000571752	retained_intron	KNOWN	None	1005	None	None	73004673	73022069	-1	None	None
HG1257_PATCH	BCL7B	ENSG00000263151	ENST00000575908	retained_intron	KNOWN	None	1005	None	None	73004841	73008850	-1	None	None
HG1257_PATCH	TBL2	ENSG00000263049	ENST00000575973	protein_coding	KNOWN	None	11586	1344	447	73033889	73043748	-1	None	WS-betaTRP, WBSCR13, DKFZP43N024
HG1257_PATCH	TBL2	ENSG00000263049	ENST00000574484	processed_transcript	KNOWN	None	11586	None	None	73034617	73043226	-1	None	WS-betaTRP, WBSCR13, DKFZP43N024
HG1257_PATCH	TBL2	ENSG00000263049	ENST00000575586	nonsense_mediated_decay	KNOWN	None	11586	141	46	73034617	73043533	-1	None	WS-betaTRP, WBSCR13, DKFZP43N024
HG1257_PATCH	TBL2	ENSG00000263049	ENST00000575275	nonsense_mediated_decay	KNOWN	None	11586	531	176	73034617	73043547	-1	None	WS-betaTRP, WBSCR13, DKFZP43N024
HG1257_PATCH	TBL2	ENSG00000263049	ENST00000576624	nonsense_mediated_decay	KNOWN	None	11586	132	43	73034965	73043511	-1	None	WS-betaTRP, WBSCR13, DKFZP43N024
HG1257_PATCH	TBL2	ENSG00000263049	ENST00000573977	protein_coding	PUTATIVE	None	11586	1236	411	73035152	73043293	-1	None	WS-betaTRP, WBSCR13, DKFZP43N024
HG1257_PATCH	TBL2	ENSG00000263049	ENST00000574254	nonsense_mediated_decay	KNOWN	None	11586	324	107	73035368	73043556	-1	None	WS-betaTRP, WBSCR13, DKFZP43N024
HG1257_PATCH	TBL2	ENSG00000263049	ENST00000576775	retained_intron	KNOWN	None	11586	None	None	73035428	73036351	-1	None	WS-betaTRP, WBSCR13, DKFZP43N024
HG1257_PATCH	TBL2	ENSG00000263049	ENST00000576193	nonsense_mediated_decay	KNOWN	None	11586	228	75	73035843	73043576	-1	None	WS-betaTRP, WBSCR13, DKFZP43N024
HG1257_PATCH	TBL2	ENSG00000263049	ENST00000575028	protein_coding	PUTATIVE	None	11586	813	270	73036541	73043591	-1	None	WS-betaTRP, WBSCR13, DKFZP43N024
HG1257_PATCH	TBL2	ENSG00000263049	ENST00000576317	retained_intron	KNOWN	None	11586	None	None	73036939	73038289	-1	None	WS-betaTRP, WBSCR13, DKFZP43N024
HG1257_PATCH	TBL2	ENSG00000263049	ENST00000570553	nonsense_mediated_decay	KNOWN	None	11586	120	39	73037805	73043328	-1	None	WS-betaTRP, WBSCR13, DKFZP43N024
HG1257_PATCH	TBL2	ENSG00000263049	ENST00000574973	nonsense_mediated_decay	KNOWN	None	11586	165	54	73037835	73043633	-1	None	WS-betaTRP, WBSCR13, DKFZP43N024
HG1257_PATCH	TBL2	ENSG00000263049	ENST00000572406	nonsense_mediated_decay	KNOWN	None	11586	195	64	73038278	73043311	-1	None	WS-betaTRP, WBSCR13, DKFZP43N024
HG1257_PATCH	TBL2	ENSG00000263049	ENST00000571692	processed_transcript	KNOWN	None	11586	None	None	73038298	73043376	-1	None	WS-betaTRP, WBSCR13, DKFZP43N024
HG1257_PATCH	TBL2	ENSG00000263049	ENST00000573595	processed_transcript	KNOWN	None	11586	None	None	73038300	73043748	-1	None	WS-betaTRP, WBSCR13, DKFZP43N024
HG1257_PATCH	TBL2	ENSG00000263049	ENST00000576662	processed_transcript	KNOWN	None	11586	None	None	73038358	73043304	-1	None	WS-betaTRP, WBSCR13, DKFZP43N024
HG1257_PATCH	TBL2	ENSG00000263049	ENST00000576907	retained_intron	KNOWN	None	11586	None	None	73038789	73043533	-1	None	WS-betaTRP, WBSCR13, DKFZP43N024
HG1257_PATCH	TBL2	ENSG00000263049	ENST00000574349	retained_intron	KNOWN	None	11586	None	None	73038836	73041705	-1	None	WS-betaTRP, WBSCR13, DKFZP43N024
HG1257_PATCH	TBL2	ENSG00000263049	ENST00000575093	processed_transcript	KNOWN	None	11586	None	None	73039402	73043274	-1	None	WS-betaTRP, WBSCR13, DKFZP43N024
HG1257_PATCH	TBL2	ENSG00000263049	ENST00000576110	nonsense_mediated_decay	KNOWN	None	11586	132	43	73039434	73043556	-1	None	WS-betaTRP, WBSCR13, DKFZP43N024
HG1257_PATCH	MLXIPL	ENSG00000262077	ENST00000574203	protein_coding	KNOWN	None	12744	2553	850	73058151	73089449	-1	WBSCR14	WS-bHLH, MIO, CHREBP, MONDOB, bHLHd14
HG1257_PATCH	MLXIPL	ENSG00000262077	ENST00000573014	protein_coding	KNOWN	None	12744	2502	833	73058151	73089449	-1	WBSCR14	WS-bHLH, MIO, CHREBP, MONDOB, bHLHd14
HG1257_PATCH	MLXIPL	ENSG00000262077	ENST00000570592	nonsense_mediated_decay	KNOWN	None	12744	1728	575	73058151	73089449	-1	WBSCR14	WS-bHLH, MIO, CHREBP, MONDOB, bHLHd14
HG1257_PATCH	MLXIPL	ENSG00000262077	ENST00000574926	protein_coding	KNOWN	None	12744	2559	852	73058151	73089497	-1	WBSCR14	WS-bHLH, MIO, CHREBP, MONDOB, bHLHd14
HG1257_PATCH	MLXIPL	ENSG00000262077	ENST00000570829	protein_coding	KNOWN	None	12744	2496	831	73058151	73089497	-1	WBSCR14	WS-bHLH, MIO, CHREBP, MONDOB, bHLHd14
HG1257_PATCH	MLXIPL	ENSG00000262077	ENST00000575492	protein_coding	KNOWN	None	12744	2280	759	73058151	73089497	-1	WBSCR14	WS-bHLH, MIO, CHREBP, MONDOB, bHLHd14
HG1257_PATCH	MLXIPL	ENSG00000262077	ENST00000572858	protein_coding	PUTATIVE	None	12744	2166	721	73058159	73089471	-1	WBSCR14	WS-bHLH, MIO, CHREBP, MONDOB, bHLHd14
HG1257_PATCH	MLXIPL	ENSG00000262077	ENST00000572587	retained_intron	KNOWN	None	12744	None	None	73061131	73062319	-1	WBSCR14	WS-bHLH, MIO, CHREBP, MONDOB, bHLHd14
HG1257_PATCH	MLXIPL	ENSG00000262077	ENST00000573545	retained_intron	KNOWN	None	12744	None	None	73061667	73071781	-1	WBSCR14	WS-bHLH, MIO, CHREBP, MONDOB, bHLHd14
HG1257_PATCH	MLXIPL	ENSG00000262077	ENST00000575853	protein_coding	PUTATIVE	None	12744	639	212	73062602	73089500	-1	WBSCR14	WS-bHLH, MIO, CHREBP, MONDOB, bHLHd14
HG1257_PATCH	MLXIPL	ENSG00000262077	ENST00000571294	retained_intron	KNOWN	None	12744	None	None	73064549	73072077	-1	WBSCR14	WS-bHLH, MIO, CHREBP, MONDOB, bHLHd14
HG1257_PATCH	MLXIPL	ENSG00000262077	ENST00000570536	protein_coding	PUTATIVE	None	12744	706	234	73070867	73081118	-1	WBSCR14	WS-bHLH, MIO, CHREBP, MONDOB, bHLHd14
HG1257_PATCH	VPS37D	ENSG00000262018	ENST00000576116	protein_coding	KNOWN	None	18287	756	251	73132782	73137067	1	WBSCR24	MGC35352
HG1257_PATCH	VPS37D	ENSG00000262018	ENST00000572618	protein_coding	NOVEL	None	18287	501	166	73132850	73137069	1	WBSCR24	MGC35352
HG1257_PATCH	DNAJC30	ENSG00000261940	ENST00000574873	protein_coding	KNOWN	None	16410	681	226	73145926	73148410	-1	WBSCR18	None
HG1257_PATCH	WBSCR22	ENSG00000262030	ENST00000573011	processed_transcript	PUTATIVE	None	16405	None	None	73147982	73151691	1	None	MGC19709, MGC2022, MGC5140, PP3381, WBMT, MERM1
HG1257_PATCH	WBSCR22	ENSG00000262030	ENST00000574150	protein_coding	KNOWN	None	16405	846	281	73148525	73163169	1	None	MGC19709, MGC2022, MGC5140, PP3381, WBMT, MERM1
HG1257_PATCH	WBSCR22	ENSG00000262030	ENST00000571208	nonsense_mediated_decay	KNOWN	None	16405	90	29	73148526	73152052	1	None	MGC19709, MGC2022, MGC5140, PP3381, WBMT, MERM1
HG1257_PATCH	WBSCR22	ENSG00000262030	ENST00000575758	nonsense_mediated_decay	KNOWN	None	16405	423	140	73148528	73159422	1	None	MGC19709, MGC2022, MGC5140, PP3381, WBMT, MERM1
HG1257_PATCH	WBSCR22	ENSG00000262030	ENST00000577074	nonsense_mediated_decay	KNOWN	None	16405	303	100	73148530	73161697	1	None	MGC19709, MGC2022, MGC5140, PP3381, WBMT, MERM1
HG1257_PATCH	WBSCR22	ENSG00000262030	ENST00000572825	retained_intron	KNOWN	None	16405	None	None	73148554	73157830	1	None	MGC19709, MGC2022, MGC5140, PP3381, WBMT, MERM1
HG1257_PATCH	WBSCR22	ENSG00000262030	ENST00000573125	retained_intron	KNOWN	None	16405	None	None	73148554	73159058	1	None	MGC19709, MGC2022, MGC5140, PP3381, WBMT, MERM1
HG1257_PATCH	WBSCR22	ENSG00000262030	ENST00000577159	nonsense_mediated_decay	KNOWN	None	16405	90	29	73148558	73157603	1	None	MGC19709, MGC2022, MGC5140, PP3381, WBMT, MERM1
HG1257_PATCH	WBSCR22	ENSG00000262030	ENST00000575204	nonsense_mediated_decay	KNOWN	None	16405	423	140	73148564	73158961	1	None	MGC19709, MGC2022, MGC5140, PP3381, WBMT, MERM1
HG1257_PATCH	WBSCR22	ENSG00000262030	ENST00000576534	nonsense_mediated_decay	KNOWN	None	16405	90	29	73148564	73170118	1	None	MGC19709, MGC2022, MGC5140, PP3381, WBMT, MERM1
HG1257_PATCH	WBSCR22	ENSG00000262030	ENST00000570347	protein_coding	KNOWN	None	16405	372	123	73148564	73170118	1	None	MGC19709, MGC2022, MGC5140, PP3381, WBMT, MERM1
HG1257_PATCH	WBSCR22	ENSG00000262030	ENST00000575140	retained_intron	KNOWN	None	16405	None	None	73148566	73163113	1	None	MGC19709, MGC2022, MGC5140, PP3381, WBMT, MERM1
HG1257_PATCH	WBSCR22	ENSG00000262030	ENST00000574931	nonsense_mediated_decay	KNOWN	None	16405	90	29	73148583	73163061	1	None	MGC19709, MGC2022, MGC5140, PP3381, WBMT, MERM1
HG1257_PATCH	WBSCR22	ENSG00000262030	ENST00000572912	protein_coding	NOVEL	None	16405	897	298	73148583	73163165	1	None	MGC19709, MGC2022, MGC5140, PP3381, WBMT, MERM1
HG1257_PATCH	WBSCR22	ENSG00000262030	ENST00000575336	retained_intron	KNOWN	None	16405	None	None	73148588	73158508	1	None	MGC19709, MGC2022, MGC5140, PP3381, WBMT, MERM1
HG1257_PATCH	WBSCR22	ENSG00000262030	ENST00000570887	nonsense_mediated_decay	KNOWN	None	16405	119	38	73151777	73163113	1	None	MGC19709, MGC2022, MGC5140, PP3381, WBMT, MERM1
HG1257_PATCH	WBSCR22	ENSG00000262030	ENST00000570412	protein_coding	PUTATIVE	None	16405	385	127	73155873	73163109	1	None	MGC19709, MGC2022, MGC5140, PP3381, WBMT, MERM1
HG1257_PATCH	WBSCR22	ENSG00000262030	ENST00000573915	protein_coding	PUTATIVE	None	16405	196	64	73157553	73163099	1	None	MGC19709, MGC2022, MGC5140, PP3381, WBMT, MERM1
HG1257_PATCH	WBSCR22	ENSG00000262030	ENST00000571121	retained_intron	KNOWN	None	16405	None	None	73159071	73163093	1	None	MGC19709, MGC2022, MGC5140, PP3381, WBMT, MERM1
HG1257_PATCH	STX1A	ENSG00000263024	ENST00000572494	protein_coding	KNOWN	None	11433	867	288	73164163	73184615	-1	STX1	HPC-1, p35-1
HG1257_PATCH	STX1A	ENSG00000263024	ENST00000574942	protein_coding	PUTATIVE	None	11433	756	251	73164163	73184616	-1	STX1	HPC-1, p35-1
HG1257_PATCH	STX1A	ENSG00000263024	ENST00000574208	processed_transcript	PUTATIVE	None	11433	None	None	73164716	73165888	-1	STX1	HPC-1, p35-1
HG1257_PATCH	STX1A	ENSG00000263024	ENST00000572689	processed_transcript	KNOWN	None	11433	None	None	73165244	73169216	-1	STX1	HPC-1, p35-1
HG1257_PATCH	STX1A	ENSG00000263024	ENST00000572934	processed_transcript	PUTATIVE	None	11433	None	None	73165273	73166167	-1	STX1	HPC-1, p35-1
HG1257_PATCH	STX1A	ENSG00000263024	ENST00000573948	protein_coding	PUTATIVE	None	11433	843	280	73165686	73184614	-1	STX1	HPC-1, p35-1
HG1257_PATCH	STX1A	ENSG00000263024	ENST00000576528	retained_intron	KNOWN	None	11433	None	None	73165734	73169012	-1	STX1	HPC-1, p35-1
HG1257_PATCH	STX1A	ENSG00000263024	ENST00000570762	retained_intron	KNOWN	None	11433	None	None	73165740	73169453	-1	STX1	HPC-1, p35-1
HG1257_PATCH	STX1A	ENSG00000263024	ENST00000574805	processed_transcript	KNOWN	None	11433	None	None	73165762	73170837	-1	STX1	HPC-1, p35-1
HG1257_PATCH	STX1A	ENSG00000263024	ENST00000576203	protein_coding	NOVEL	None	11433	783	260	73165784	73184588	-1	STX1	HPC-1, p35-1
HG1257_PATCH	STX1A	ENSG00000263024	ENST00000570352	retained_intron	KNOWN	None	11433	None	None	73167494	73169148	-1	STX1	HPC-1, p35-1
HG1257_PATCH	STX1A	ENSG00000263024	ENST00000574438	processed_transcript	KNOWN	None	11433	None	None	73167802	73184583	-1	STX1	HPC-1, p35-1
HG1257_PATCH	STX1A	ENSG00000263024	ENST00000574173	retained_intron	KNOWN	None	11433	None	None	73168720	73170422	-1	STX1	HPC-1, p35-1
HG1257_PATCH	STX1A	ENSG00000263024	ENST00000573310	retained_intron	KNOWN	None	11433	None	None	73169137	73184629	-1	STX1	HPC-1, p35-1
HG1257_PATCH	MIR4284	ENSG00000266280	ENST00000578864	miRNA	KNOWN	None	38322	None	None	73176274	73176354	1	None	hsa-mir-4284
HG1257_PATCH	RN7SL265P	ENSG00000262387	ENST00000576998	misc_RNA	KNOWN	None	46281	None	None	73197528	73197828	-1	None	None
HG1257_PATCH	LINC00035	ENSG00000261908	ENST00000570578	antisense	KNOWN	None	18289	None	None	73199995	73201011	1	WBSCR26, ABHD11-AS1	NCRNA00035
HG1257_PATCH	ABHD11	ENSG00000262947	ENST00000573012	retained_intron	KNOWN	None	16407	None	None	73201051	73203738	-1	WBSCR21	PP1226
HG1257_PATCH	ABHD11	ENSG00000262947	ENST00000575418	protein_coding	NOVEL	None	16407	927	308	73201051	73203809	-1	WBSCR21	PP1226
HG1257_PATCH	ABHD11	ENSG00000262947	ENST00000571672	nonsense_mediated_decay	KNOWN	None	16407	306	101	73201051	73203809	-1	WBSCR21	PP1226
HG1257_PATCH	ABHD11	ENSG00000262947	ENST00000577109	protein_coding	KNOWN	None	16407	948	315	73201051	73203824	-1	WBSCR21	PP1226
HG1257_PATCH	ABHD11	ENSG00000262947	ENST00000573265	protein_coding	PUTATIVE	None	16407	480	159	73201247	73203780	-1	WBSCR21	PP1226
HG1257_PATCH	ABHD11	ENSG00000262947	ENST00000573535	nonsense_mediated_decay	KNOWN	None	16407	554	183	73201493	73203696	-1	WBSCR21	PP1226
HG1257_PATCH	ABHD11	ENSG00000262947	ENST00000571470	protein_coding	KNOWN	None	16407	777	258	73201516	73203789	-1	WBSCR21	PP1226
HG1257_PATCH	ABHD11	ENSG00000262947	ENST00000573929	nonsense_mediated_decay	KNOWN	None	16407	370	122	73201521	73203420	-1	WBSCR21	PP1226
HG1257_PATCH	ABHD11	ENSG00000262947	ENST00000576627	retained_intron	KNOWN	None	16407	None	None	73201620	73203467	-1	WBSCR21	PP1226
HG1257_PATCH	ABHD11	ENSG00000262947	ENST00000572181	retained_intron	KNOWN	None	16407	None	None	73201814	73202459	-1	WBSCR21	PP1226
HG1257_PATCH	ABHD11	ENSG00000262947	ENST00000573197	nonsense_mediated_decay	KNOWN	None	16407	264	87	73202525	73203724	-1	WBSCR21	PP1226
HG1257_PATCH	ABHD11	ENSG00000262947	ENST00000574284	processed_transcript	PUTATIVE	None	16407	None	None	73202603	73203340	-1	WBSCR21	PP1226
HG1257_PATCH	ABHD11	ENSG00000262947	ENST00000573918	processed_transcript	KNOWN	None	16407	None	None	73202627	73203809	-1	WBSCR21	PP1226
HG1257_PATCH	ABHD11	ENSG00000262947	ENST00000574497	processed_transcript	KNOWN	None	16407	None	None	73202671	73203788	-1	WBSCR21	PP1226
HG1257_PATCH	CLDN3	ENSG00000262073	ENST00000572891	protein_coding	KNOWN	None	2045	663	220	73233955	73235227	-1	C7orf1, CPETR2	RVP1, CPE-R2, HRVP1
HG1257_PATCH	CLDN4	ENSG00000262988	ENST00000572635	processed_transcript	KNOWN	None	2046	None	None	73264499	73294323	1	CPETR, CPETR1	CPE-R, WBSCR8, hCPE-R
HG1257_PATCH	CLDN4	ENSG00000262988	ENST00000573932	protein_coding	KNOWN	None	2046	630	209	73292701	73297641	1	CPETR, CPETR1	CPE-R, WBSCR8, hCPE-R
HG1257_PATCH	CLDN4	ENSG00000262988	ENST00000576022	processed_transcript	PUTATIVE	None	2046	None	None	73292702	73293907	1	CPETR, CPETR1	CPE-R, WBSCR8, hCPE-R
HG1257_PATCH	CLDN4	ENSG00000262988	ENST00000574332	protein_coding	KNOWN	None	2046	630	209	73293131	73297640	1	CPETR, CPETR1	CPE-R, WBSCR8, hCPE-R
HG1257_PATCH	CLDN4	ENSG00000262988	ENST00000573160	protein_coding	KNOWN	None	2046	630	209	73295820	73297641	1	CPETR, CPETR1	CPE-R, WBSCR8, hCPE-R
HG1257_PATCH	WBSCR27	ENSG00000262499	ENST00000575648	protein_coding	KNOWN	None	19068	738	245	73299547	73307492	-1	None	None
HG1257_PATCH	WBSCR27	ENSG00000262499	ENST00000576199	nonsense_mediated_decay	KNOWN	None	19068	273	90	73299872	73307473	-1	None	None
HG1257_PATCH	WBSCR27	ENSG00000262499	ENST00000575969	retained_intron	KNOWN	None	19068	None	None	73304538	73307473	-1	None	None
HG1257_PATCH	WBSCR28	ENSG00000262459	ENST00000575262	protein_coding	KNOWN	None	23018	798	265	73326116	73330850	1	None	MGC26719
HG1257_PATCH	WBSCR28	ENSG00000262459	ENST00000570719	nonsense_mediated_decay	KNOWN	None	23018	183	60	73326129	73330847	1	None	MGC26719
HG1257_PATCH	None	ENSG00000262981	ENST00000573027	lincRNA	KNOWN	None	None	None	None	73450949	73453724	1	None	None
HG1257_PATCH	ELN	ENSG00000262184	ENST00000574785	protein_coding	NOVEL	None	3327	2121	706	73492746	73533720	1	None	WBS, WS, SVAS
HG1257_PATCH	ELN	ENSG00000262184	ENST00000571321	protein_coding	KNOWN	None	3327	2175	724	73492746	73534864	1	None	WBS, WS, SVAS
HG1257_PATCH	ELN	ENSG00000262184	ENST00000576501	protein_coding	KNOWN	None	3327	2379	792	73493054	73534861	1	None	WBS, WS, SVAS
HG1257_PATCH	ELN	ENSG00000262184	ENST00000575717	protein_coding	NOVEL	None	3327	455	150	73493058	73510230	1	None	WBS, WS, SVAS
HG1257_PATCH	ELN	ENSG00000262184	ENST00000571671	protein_coding	NOVEL	None	3327	1932	643	73493063	73534634	1	None	WBS, WS, SVAS
HG1257_PATCH	ELN	ENSG00000262184	ENST00000575964	protein_coding	NOVEL	None	3327	883	293	73493066	73516940	1	None	WBS, WS, SVAS
HG1257_PATCH	ELN	ENSG00000262184	ENST00000573257	retained_intron	KNOWN	None	3327	None	None	73493071	73503008	1	None	WBS, WS, SVAS
HG1257_PATCH	ELN	ENSG00000262184	ENST00000570485	retained_intron	KNOWN	None	3327	None	None	73493081	73507798	1	None	WBS, WS, SVAS
HG1257_PATCH	ELN	ENSG00000262184	ENST00000570343	retained_intron	KNOWN	None	3327	None	None	73493083	73508180	1	None	WBS, WS, SVAS
HG1257_PATCH	ELN	ENSG00000262184	ENST00000572714	protein_coding	NOVEL	None	3327	504	167	73493086	73516912	1	None	WBS, WS, SVAS
HG1257_PATCH	ELN	ENSG00000262184	ENST00000576865	protein_coding	NOVEL	None	3327	2103	700	73493086	73534634	1	None	WBS, WS, SVAS
HG1257_PATCH	ELN	ENSG00000262184	ENST00000575260	protein_coding	NOVEL	None	3327	2193	730	73493098	73533657	1	None	WBS, WS, SVAS
HG1257_PATCH	ELN	ENSG00000262184	ENST00000572762	retained_intron	KNOWN	None	3327	None	None	73493101	73508146	1	None	WBS, WS, SVAS
HG1257_PATCH	ELN	ENSG00000262184	ENST00000573446	protein_coding	KNOWN	None	3327	2034	677	73493114	73534635	1	None	WBS, WS, SVAS
HG1257_PATCH	ELN	ENSG00000262184	ENST00000576288	protein_coding	NOVEL	None	3327	1977	658	73493115	73534864	1	None	WBS, WS, SVAS
HG1257_PATCH	ELN	ENSG00000262184	ENST00000571810	protein_coding	NOVEL	None	3327	2145	714	73493120	73534634	1	None	WBS, WS, SVAS
HG1257_PATCH	ELN	ENSG00000262184	ENST00000570795	protein_coding	KNOWN	None	3327	2136	711	73493127	73534864	1	None	WBS, WS, SVAS
HG1257_PATCH	ELN	ENSG00000262184	ENST00000575799	retained_intron	KNOWN	None	3327	None	None	73493130	73508241	1	None	WBS, WS, SVAS
HG1257_PATCH	ELN	ENSG00000262184	ENST00000576902	retained_intron	KNOWN	None	3327	None	None	73493130	73510272	1	None	WBS, WS, SVAS
HG1257_PATCH	ELN	ENSG00000262184	ENST00000576378	protein_coding	NOVEL	None	3327	643	213	73493130	73513158	1	None	WBS, WS, SVAS
HG1257_PATCH	ELN	ENSG00000262184	ENST00000573673	protein_coding	KNOWN	None	3327	2079	692	73493130	73534861	1	None	WBS, WS, SVAS
HG1257_PATCH	ELN	ENSG00000262184	ENST00000572231	nonsense_mediated_decay	KNOWN	None	3327	207	68	73493132	73508125	1	None	WBS, WS, SVAS
HG1257_PATCH	ELN	ENSG00000262184	ENST00000576507	protein_coding	NOVEL	None	3327	529	175	73493132	73511724	1	None	WBS, WS, SVAS
HG1257_PATCH	ELN	ENSG00000262184	ENST00000572979	protein_coding	NOVEL	None	3327	1713	570	73493132	73534634	1	None	WBS, WS, SVAS
HG1257_PATCH	ELN	ENSG00000262184	ENST00000573296	protein_coding	KNOWN	None	3327	2118	705	73493132	73534635	1	None	WBS, WS, SVAS
HG1257_PATCH	ELN	ENSG00000262184	ENST00000575390	retained_intron	KNOWN	None	3327	None	None	73493133	73508196	1	None	WBS, WS, SVAS
HG1257_PATCH	ELN	ENSG00000262184	ENST00000574130	protein_coding	NOVEL	None	3327	500	165	73493133	73513159	1	None	WBS, WS, SVAS
HG1257_PATCH	ELN	ENSG00000262184	ENST00000576801	protein_coding	KNOWN	None	3327	2274	757	73493145	73533657	1	None	WBS, WS, SVAS
HG1257_PATCH	ELN	ENSG00000262184	ENST00000571410	nonsense_mediated_decay	KNOWN	None	3327	183	60	73507591	73510216	1	None	WBS, WS, SVAS
HG1257_PATCH	ELN	ENSG00000262184	ENST00000572384	retained_intron	KNOWN	None	3327	None	None	73510720	73512674	1	None	WBS, WS, SVAS
HG1257_PATCH	ELN	ENSG00000262184	ENST00000572614	retained_intron	KNOWN	None	3327	None	None	73511616	73517193	1	None	WBS, WS, SVAS
HG1257_PATCH	ELN	ENSG00000262184	ENST00000574230	processed_transcript	KNOWN	None	3327	None	None	73517251	73521322	1	None	WBS, WS, SVAS
HG1257_PATCH	ELN	ENSG00000262184	ENST00000574378	retained_intron	KNOWN	None	3327	None	None	73517808	73521304	1	None	WBS, WS, SVAS
HG1257_PATCH	None	ENSG00000262058	ENST00000571583	antisense	KNOWN	None	None	None	None	73524533	73527241	-1	None	None
HG1257_PATCH	LIMK1	ENSG00000262063	ENST00000573590	protein_coding	PUTATIVE	None	6613	2034	677	73547890	73587482	1	None	LIMK
HG1257_PATCH	LIMK1	ENSG00000262063	ENST00000571928	protein_coding	KNOWN	None	6613	1944	647	73548897	73587482	1	None	LIMK
HG1257_PATCH	LIMK1	ENSG00000262063	ENST00000570926	nonsense_mediated_decay	KNOWN	None	6613	918	305	73548948	73586258	1	None	LIMK
HG1257_PATCH	LIMK1	ENSG00000262063	ENST00000572388	protein_coding	KNOWN	None	6613	1842	613	73558036	73586415	1	None	LIMK
HG1257_PATCH	LIMK1	ENSG00000262063	ENST00000571811	processed_transcript	KNOWN	None	6613	None	None	73558913	73562146	1	None	LIMK
HG1257_PATCH	LIMK1	ENSG00000262063	ENST00000570406	processed_transcript	KNOWN	None	6613	None	None	73559190	73570862	1	None	LIMK
HG1257_PATCH	LIMK1	ENSG00000262063	ENST00000573424	retained_intron	KNOWN	None	6613	None	None	73562060	73576397	1	None	LIMK
HG1257_PATCH	LIMK1	ENSG00000262063	ENST00000570452	retained_intron	KNOWN	None	6613	None	None	73580325	73585986	1	None	LIMK
HG1257_PATCH	EIF4H	ENSG00000263344	ENST00000575843	protein_coding	KNOWN	None	12741	747	248	73639202	73662058	1	WBSCR1	WSCR1, KIAA0038
HG1257_PATCH	EIF4H	ENSG00000263344	ENST00000574174	retained_intron	KNOWN	None	12741	None	None	73639288	73655244	1	WBSCR1	WSCR1, KIAA0038
HG1257_PATCH	EIF4H	ENSG00000263344	ENST00000575925	protein_coding	KNOWN	None	12741	687	228	73639313	73662053	1	WBSCR1	WSCR1, KIAA0038
HG1257_PATCH	EIF4H	ENSG00000263344	ENST00000572311	retained_intron	KNOWN	None	12741	None	None	73639316	73654930	1	WBSCR1	WSCR1, KIAA0038
HG1257_PATCH	EIF4H	ENSG00000263344	ENST00000571522	processed_transcript	KNOWN	None	12741	None	None	73648779	73659762	1	WBSCR1	WSCR1, KIAA0038
HG1257_PATCH	MIR590	ENSG00000263190	ENST00000570942	miRNA	KNOWN	None	32846	None	None	73656155	73656251	1	MIRN590	hsa-mir-590
HG1257_PATCH	LAT2	ENSG00000262128	ENST00000574602	protein_coding	KNOWN	None	12749	175	57	73664609	73684741	1	WBSCR15, WBSCR5	WSCR5, HSPC046, LAB, NTAL
HG1257_PATCH	LAT2	ENSG00000262128	ENST00000570327	protein_coding	KNOWN	None	12749	732	243	73674353	73694788	1	WBSCR15, WBSCR5	WSCR5, HSPC046, LAB, NTAL
HG1257_PATCH	LAT2	ENSG00000262128	ENST00000576566	protein_coding	KNOWN	None	12749	732	243	73674375	73694788	1	WBSCR15, WBSCR5	WSCR5, HSPC046, LAB, NTAL
HG1257_PATCH	LAT2	ENSG00000262128	ENST00000574546	retained_intron	KNOWN	None	12749	None	None	73674884	73680234	1	WBSCR15, WBSCR5	WSCR5, HSPC046, LAB, NTAL
HG1257_PATCH	LAT2	ENSG00000262128	ENST00000574635	protein_coding	KNOWN	None	12749	301	99	73674911	73685576	1	WBSCR15, WBSCR5	WSCR5, HSPC046, LAB, NTAL
HG1257_PATCH	LAT2	ENSG00000262128	ENST00000575527	protein_coding	KNOWN	None	12749	732	243	73674938	73691465	1	WBSCR15, WBSCR5	WSCR5, HSPC046, LAB, NTAL
HG1257_PATCH	LAT2	ENSG00000262128	ENST00000575119	protein_coding	KNOWN	None	12749	191	62	73674963	73684929	1	WBSCR15, WBSCR5	WSCR5, HSPC046, LAB, NTAL
HG1257_PATCH	LAT2	ENSG00000262128	ENST00000570428	nonsense_mediated_decay	KNOWN	None	12749	336	111	73674963	73694788	1	WBSCR15, WBSCR5	WSCR5, HSPC046, LAB, NTAL
HG1257_PATCH	LAT2	ENSG00000262128	ENST00000571529	protein_coding	KNOWN	None	12749	732	243	73674963	73694788	1	WBSCR15, WBSCR5	WSCR5, HSPC046, LAB, NTAL
HG1257_PATCH	LAT2	ENSG00000262128	ENST00000570710	protein_coding	NOVEL	None	12749	302	99	73674980	73685691	1	WBSCR15, WBSCR5	WSCR5, HSPC046, LAB, NTAL
HG1257_PATCH	LAT2	ENSG00000262128	ENST00000575518	retained_intron	KNOWN	None	12749	None	None	73685415	73694029	1	WBSCR15, WBSCR5	WSCR5, HSPC046, LAB, NTAL
HG1257_PATCH	RFC2	ENSG00000261911	ENST00000573234	protein_coding	KNOWN	None	9970	963	320	73696456	73719346	-1	None	A1, RFC40
HG1257_PATCH	RFC2	ENSG00000261911	ENST00000576908	protein_coding	KNOWN	None	9970	1065	354	73696494	73719401	-1	None	A1, RFC40
HG1257_PATCH	RFC2	ENSG00000261911	ENST00000576280	nonsense_mediated_decay	KNOWN	None	9970	361	119	73696731	73704964	-1	None	A1, RFC40
HG1257_PATCH	RFC2	ENSG00000261911	ENST00000576165	nonsense_mediated_decay	KNOWN	None	9970	595	197	73697061	73708203	-1	None	A1, RFC40
HG1257_PATCH	RFC2	ENSG00000261911	ENST00000570552	nonsense_mediated_decay	KNOWN	None	9970	226	74	73700488	73719266	-1	None	A1, RFC40
HG1257_PATCH	RFC2	ENSG00000261911	ENST00000572571	nonsense_mediated_decay	KNOWN	None	9970	263	86	73700488	73719324	-1	None	A1, RFC40
HG1257_PATCH	RFC2	ENSG00000261911	ENST00000576356	nonsense_mediated_decay	KNOWN	None	9970	234	77	73700489	73719364	-1	None	A1, RFC40
HG1257_PATCH	RFC2	ENSG00000261911	ENST00000574108	nonsense_mediated_decay	KNOWN	None	9970	158	51	73702307	73719294	-1	None	A1, RFC40
HG1257_PATCH	RFC2	ENSG00000261911	ENST00000570653	nonsense_mediated_decay	KNOWN	None	9970	87	28	73702365	73717451	-1	None	A1, RFC40
HG1257_PATCH	RFC2	ENSG00000261911	ENST00000570503	nonsense_mediated_decay	KNOWN	None	9970	114	37	73703880	73719346	-1	None	A1, RFC40
HG1257_PATCH	RFC2	ENSG00000261911	ENST00000571279	nonsense_mediated_decay	KNOWN	None	9970	306	101	73703894	73719346	-1	None	A1, RFC40
HG1257_PATCH	RFC2	ENSG00000261911	ENST00000573574	nonsense_mediated_decay	KNOWN	None	9970	272	89	73711672	73719333	-1	None	A1, RFC40
HG1257_PATCH	RNU6-1070P	ENSG00000262047	ENST00000576486	snRNA	KNOWN	None	48033	None	None	73723483	73723573	-1	None	None
HG1257_PATCH	CLIP2	ENSG00000263226	ENST00000575290	protein_coding	KNOWN	None	2586	3036	1011	73754432	73870887	1	WBSCR4, CYLN2, WBSCR3	CLIP-115, KIAA0291, WSCR4, CLIP, WSCR3
HG1257_PATCH	CLIP2	ENSG00000263226	ENST00000575893	protein_coding	KNOWN	None	2586	3141	1046	73754432	73870900	1	WBSCR4, CYLN2, WBSCR3	CLIP-115, KIAA0291, WSCR4, CLIP, WSCR3
HG1257_PATCH	CLIP2	ENSG00000263226	ENST00000573159	protein_coding	KNOWN	None	2586	3141	1046	73782504	73868805	1	WBSCR4, CYLN2, WBSCR3	CLIP-115, KIAA0291, WSCR4, CLIP, WSCR3
HG1257_PATCH	CLIP2	ENSG00000263226	ENST00000576656	retained_intron	KNOWN	None	2586	None	None	73841027	73845998	1	WBSCR4, CYLN2, WBSCR3	CLIP-115, KIAA0291, WSCR4, CLIP, WSCR3
HG1257_PATCH	CLIP2	ENSG00000263226	ENST00000572099	protein_coding	NOVEL	None	2586	561	186	73841652	73862122	1	WBSCR4, CYLN2, WBSCR3	CLIP-115, KIAA0291, WSCR4, CLIP, WSCR3
HG1257_PATCH	CLIP2	ENSG00000263226	ENST00000576257	retained_intron	KNOWN	None	2586	None	None	73844981	73854106	1	WBSCR4, CYLN2, WBSCR3	CLIP-115, KIAA0291, WSCR4, CLIP, WSCR3
HG1257_PATCH	CLIP2	ENSG00000263226	ENST00000574469	retained_intron	KNOWN	None	2586	None	None	73851341	73854389	1	WBSCR4, CYLN2, WBSCR3	CLIP-115, KIAA0291, WSCR4, CLIP, WSCR3
HG1257_PATCH	CLIP2	ENSG00000263226	ENST00000577032	retained_intron	KNOWN	None	2586	None	None	73853627	73862130	1	WBSCR4, CYLN2, WBSCR3	CLIP-115, KIAA0291, WSCR4, CLIP, WSCR3
HG1257_PATCH	CLIP2	ENSG00000263226	ENST00000575380	protein_coding	NOVEL	None	2586	86	27	73865439	73869283	1	WBSCR4, CYLN2, WBSCR3	CLIP-115, KIAA0291, WSCR4, CLIP, WSCR3
HG1257_PATCH	GTF2IRD1	ENSG00000261920	ENST00000574416	protein_coding	KNOWN	None	4661	2880	959	73918747	74067547	1	WBSCR11	MusTRD1, RBAP2, GTF3, WBSCR12, BEN, Cream1
HG1257_PATCH	GTF2IRD1	ENSG00000261920	ENST00000573381	protein_coding	NOVEL	None	4661	2931	976	73918927	74067561	1	WBSCR11	MusTRD1, RBAP2, GTF3, WBSCR12, BEN, Cream1
HG1257_PATCH	GTF2IRD1	ENSG00000261920	ENST00000573543	protein_coding	KNOWN	None	4661	2835	944	73919066	74067558	1	WBSCR11	MusTRD1, RBAP2, GTF3, WBSCR12, BEN, Cream1
HG1257_PATCH	GTF2IRD1	ENSG00000261920	ENST00000573869	protein_coding	NOVEL	None	4661	2883	960	73970949	74067548	1	WBSCR11	MusTRD1, RBAP2, GTF3, WBSCR12, BEN, Cream1
HG1257_PATCH	GTF2IRD1	ENSG00000261920	ENST00000574927	processed_transcript	KNOWN	None	4661	None	None	73973032	74024617	1	WBSCR11	MusTRD1, RBAP2, GTF3, WBSCR12, BEN, Cream1
HG1257_PATCH	GTF2IRD1	ENSG00000261920	ENST00000572452	protein_coding	NOVEL	None	4661	824	273	74010719	74066063	1	WBSCR11	MusTRD1, RBAP2, GTF3, WBSCR12, BEN, Cream1
HG1257_PATCH	GTF2IRD1	ENSG00000261920	ENST00000574789	retained_intron	KNOWN	None	4661	None	None	74065917	74067540	1	WBSCR11	MusTRD1, RBAP2, GTF3, WBSCR12, BEN, Cream1
HG1257_PATCH	RNA5SP233	ENSG00000261918	ENST00000577095	rRNA	KNOWN	None	43133	None	None	73952385	73952497	-1	RN5S233	None
HG1257_PATCH	None	ENSG00000263294	ENST00000576818	miRNA	NOVEL	None	None	None	None	74036304	74036381	1	None	None
HG1257_PATCH	None	ENSG00000263001	ENST00000573035	protein_coding	KNOWN	None	None	2997	998	74122661	74225649	1	None	None
HG1257_PATCH	NCF1	ENSG00000261919	ENST00000573351	protein_coding	KNOWN	None	7660	1173	390	74238919	74254270	1	None	p47phox, NOXO2, NCF1A, SH3PXD1A
HG1257_PATCH	NCF1	ENSG00000261919	ENST00000571290	processed_transcript	KNOWN	None	7660	None	None	74238968	74246579	1	None	p47phox, NOXO2, NCF1A, SH3PXD1A
HG1257_PATCH	NCF1	ENSG00000261919	ENST00000574052	protein_coding	NOVEL	None	7660	563	186	74238968	74247937	1	None	p47phox, NOXO2, NCF1A, SH3PXD1A
HG1257_PATCH	NCF1	ENSG00000261919	ENST00000571777	retained_intron	KNOWN	None	7660	None	None	74238968	74248497	1	None	p47phox, NOXO2, NCF1A, SH3PXD1A
HG1257_PATCH	NCF1	ENSG00000261919	ENST00000576639	retained_intron	KNOWN	None	7660	None	None	74238968	74254271	1	None	p47phox, NOXO2, NCF1A, SH3PXD1A
HG1257_PATCH	NCF1	ENSG00000261919	ENST00000570911	retained_intron	KNOWN	None	7660	None	None	74238982	74254272	1	None	p47phox, NOXO2, NCF1A, SH3PXD1A
HG1257_PATCH	NCF1	ENSG00000261919	ENST00000572305	processed_transcript	KNOWN	None	7660	None	None	74241766	74248589	1	None	p47phox, NOXO2, NCF1A, SH3PXD1A
HG1257_PATCH	NCF1	ENSG00000261919	ENST00000574134	protein_coding	NOVEL	None	7660	439	145	74242224	74245759	1	None	p47phox, NOXO2, NCF1A, SH3PXD1A
HG1257_PATCH	NCF1	ENSG00000261919	ENST00000571367	retained_intron	KNOWN	None	7660	None	None	74244341	74248574	1	None	p47phox, NOXO2, NCF1A, SH3PXD1A
HG1257_PATCH	NCF1	ENSG00000261919	ENST00000576748	retained_intron	KNOWN	None	7660	None	None	74245353	74248362	1	None	p47phox, NOXO2, NCF1A, SH3PXD1A
HG1257_PATCH	NCF1	ENSG00000261919	ENST00000573959	processed_transcript	PUTATIVE	None	7660	None	None	74248400	74250503	1	None	p47phox, NOXO2, NCF1A, SH3PXD1A
HG1257_PATCH	None	ENSG00000268855	ENST00000597473	misc_RNA	NOVEL	None	None	None	None	74360773	74360874	1	None	None
HG1257_PATCH	None	ENSG00000262388	ENST00000575552	processed_pseudogene	KNOWN	None	None	None	None	74429911	74430016	1	None	None
HG1257_PATCH	None	ENSG00000263008	ENST00000574874	protein_coding	KNOWN	None	None	1395	464	74507134	74538820	-1	None	None
HG1257_PATCH	NCF1C	ENSG00000262960	ENST00000576438	unprocessed_pseudogene	KNOWN	None	32523	None	None	74621596	74637001	-1	None	SH3PXD1C
HG1257_PATCH	NCF1C	ENSG00000262960	ENST00000575773	unprocessed_pseudogene	KNOWN	None	32523	None	None	74621597	74636970	-1	None	SH3PXD1C
HG1257_PATCH	NCF1C	ENSG00000262960	ENST00000570860	unprocessed_pseudogene	KNOWN	None	32523	None	None	74625698	74636922	-1	None	SH3PXD1C
HG1257_PATCH	NCF1C	ENSG00000262960	ENST00000576578	unprocessed_pseudogene	KNOWN	None	32523	None	None	74627332	74636921	-1	None	SH3PXD1C
HG1257_PATCH	PHBP15	ENSG00000262648	ENST00000574228	processed_pseudogene	KNOWN	None	39294	None	None	74668898	74669562	1	None	None
HG1257_PATCH	None	ENSG00000263081	ENST00000576046	antisense	KNOWN	None	None	None	None	74697885	74698881	1	None	None
HG1257_PATCH	None	ENSG00000267828	ENST00000598668	misc_RNA	NOVEL	None	None	None	None	74762947	74763048	-1	None	None
HG1257_PATCH	None	ENSG00000268250	ENST00000595292	misc_RNA	NOVEL	None	None	None	None	74790916	74791017	-1	None	None
HG1257_PATCH	None	ENSG00000268978	ENST00000600858	misc_RNA	NOVEL	None	None	None	None	74818842	74818943	-1	None	None
HG1257_PATCH	None	ENSG00000268330	ENST00000594494	protein_coding	NOVEL	None	None	78	25	74835589	74841107	-1	None	None
HG1257_PATCH	None	ENSG00000262779	ENST00000574827	misc_RNA	KNOWN	None	None	None	None	74846595	74846695	1	None	None
HG1257_PATCH	None	ENSG00000261875	ENST00000572055	processed_transcript	KNOWN	None	None	None	None	74856912	74860391	-1	None	None
HG1257_PATCH	None	ENSG00000261875	ENST00000576791	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	74858322	74860238	-1	None	None
HG1257_PATCH	TRIM73	ENSG00000262895	ENST00000571929	protein_coding	PUTATIVE	None	18162	360	119	74860020	74870570	1	TRIM50B	None
HG1257_PATCH	TRIM73	ENSG00000262895	ENST00000570933	processed_transcript	PUTATIVE	None	18162	None	None	74860118	74863987	1	TRIM50B	None
HG1257_PATCH	TRIM73	ENSG00000262895	ENST00000577020	protein_coding	KNOWN	None	18162	753	250	74860586	74870562	1	TRIM50B	None
HG1257_PATCH	TRIM73	ENSG00000262895	ENST00000572482	protein_coding	PUTATIVE	None	18162	849	282	74860713	74875953	1	TRIM50B	None
HG1257_PATCH	TRIM73	ENSG00000262895	ENST00000573293	protein_coding	KNOWN	None	18162	750	249	74863099	74870562	1	TRIM50B	None
HG1257_PATCH	TRIM73	ENSG00000262895	ENST00000572315	protein_coding	KNOWN	None	18162	753	250	74863872	74870562	1	TRIM50B	None
HG1257_PATCH	TRIM73	ENSG00000262895	ENST00000571626	retained_intron	KNOWN	None	18162	None	None	74866576	74870562	1	TRIM50B	None
HG1257_PATCH	NSUN5P1	ENSG00000263044	ENST00000573093	processed_transcript	PUTATIVE	None	19146	None	None	74875279	74876496	1	NSUN5B	WBSCR20B
HG1257_PATCH	NSUN5P1	ENSG00000263044	ENST00000577117	processed_transcript	KNOWN	None	19146	None	None	74875307	74881743	1	NSUN5B	WBSCR20B
HG1257_PATCH	NSUN5P1	ENSG00000263044	ENST00000576264	processed_transcript	KNOWN	None	19146	None	None	74875319	74881744	1	NSUN5B	WBSCR20B
HG1257_PATCH	NSUN5P1	ENSG00000263044	ENST00000577077	processed_transcript	KNOWN	None	19146	None	None	74875320	74881083	1	NSUN5B	WBSCR20B
HG1257_PATCH	NSUN5P1	ENSG00000263044	ENST00000571268	transcribed_unprocessed_pseudogene	KNOWN	None	19146	None	None	74875325	74881554	1	NSUN5B	WBSCR20B
HG1257_PATCH	NSUN5P1	ENSG00000263044	ENST00000576327	processed_transcript	KNOWN	None	19146	None	None	74875352	74881744	1	NSUN5B	WBSCR20B
HG1257_PATCH	NSUN5P1	ENSG00000263044	ENST00000572051	processed_transcript	KNOWN	None	19146	None	None	74876631	74879981	1	NSUN5B	WBSCR20B
HG1257_PATCH	NSUN5P1	ENSG00000263044	ENST00000574124	processed_transcript	KNOWN	None	19146	None	None	74879437	74881744	1	NSUN5B	WBSCR20B
HG1257_PATCH	NSUN5P1	ENSG00000263044	ENST00000572978	unprocessed_pseudogene	KNOWN	None	19146	None	None	74880861	74881411	1	NSUN5B	WBSCR20B
HG1257_PATCH	None	ENSG00000272391	ENST00000607367	protein_coding	KNOWN	None	None	2580	859	74883570	74906074	-1	None	None
HG1257_PATCH	None	ENSG00000262760	ENST00000576770	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	74939664	74951065	-1	None	None
HG1257_PATCH	None	ENSG00000262834	ENST00000571270	unprocessed_pseudogene	KNOWN	None	None	None	None	74959038	74966894	1	None	None
HG1257_PATCH	None	ENSG00000262834	ENST00000574610	unprocessed_pseudogene	KNOWN	None	None	None	None	74959937	74969261	1	None	None
HG1257_PATCH	PMS2P3	ENSG00000261876	ENST00000571823	transcribed_unprocessed_pseudogene	KNOWN	None	9128	None	None	74967887	74992766	-1	PMS2L9, PMS2L3	PMS5, PMSR3
HG1257_PATCH	PMS2P3	ENSG00000261876	ENST00000575819	processed_transcript	KNOWN	None	9128	None	None	74972704	74993008	-1	PMS2L9, PMS2L3	PMS5, PMSR3
HG1257_PATCH	PMS2P3	ENSG00000261876	ENST00000572963	processed_transcript	KNOWN	None	9128	None	None	74972707	74992793	-1	PMS2L9, PMS2L3	PMS5, PMSR3
HG1257_PATCH	PMS2P3	ENSG00000261876	ENST00000574646	processed_transcript	KNOWN	None	9128	None	None	74972710	74993080	-1	PMS2L9, PMS2L3	PMS5, PMSR3
HG1257_PATCH	PMS2P3	ENSG00000261876	ENST00000572421	unprocessed_pseudogene	KNOWN	None	9128	None	None	74972792	74992536	-1	PMS2L9, PMS2L3	PMS5, PMSR3
HG1257_PATCH	PMS2P3	ENSG00000261876	ENST00000577072	processed_transcript	KNOWN	None	9128	None	None	74975974	74992536	-1	PMS2L9, PMS2L3	PMS5, PMSR3
HG1257_PATCH	PMS2P3	ENSG00000261876	ENST00000575940	processed_transcript	KNOWN	None	9128	None	None	74975974	74993045	-1	PMS2L9, PMS2L3	PMS5, PMSR3
HG1257_PATCH	PMS2P3	ENSG00000261876	ENST00000571892	unprocessed_pseudogene	KNOWN	None	9128	None	None	74975974	74992536	-1	PMS2L9, PMS2L3	PMS5, PMSR3
HG1257_PATCH	PMS2P3	ENSG00000261876	ENST00000574783	unprocessed_pseudogene	KNOWN	None	9128	None	None	74975994	74992766	-1	PMS2L9, PMS2L3	PMS5, PMSR3
HG1257_PATCH	PMS2P3	ENSG00000261876	ENST00000575789	processed_transcript	KNOWN	None	9128	None	None	74977546	74993105	-1	PMS2L9, PMS2L3	PMS5, PMSR3
HG1257_PATCH	PMS2P3	ENSG00000261876	ENST00000573362	retained_intron	KNOWN	None	9128	None	None	74981000	74990912	-1	PMS2L9, PMS2L3	PMS5, PMSR3
HG1257_PATCH	None	ENSG00000267932	ENST00000598120	misc_RNA	NOVEL	None	None	None	None	74977982	74978083	-1	None	None
HG1257_PATCH	HIP1	ENSG00000263334	ENST00000575057	protein_coding	KNOWN	None	4913	3114	1037	74998257	75203904	-1	None	ILWEQ
HG1257_PATCH	HIP1	ENSG00000263334	ENST00000576304	protein_coding	NOVEL	None	4913	2961	986	74999045	75203898	-1	None	ILWEQ
HG1257_PATCH	HIP1	ENSG00000263334	ENST00000573022	retained_intron	KNOWN	None	4913	None	None	75023179	75028342	-1	None	ILWEQ
HG1257_PATCH	HIP1	ENSG00000263334	ENST00000571633	protein_coding	PUTATIVE	None	4913	438	145	75047049	75076800	-1	None	ILWEQ
HG1257_PATCH	HIP1	ENSG00000263334	ENST00000571403	processed_transcript	KNOWN	None	4913	None	None	75119370	75203892	-1	None	ILWEQ
HG1257_PATCH	HIP1	ENSG00000263334	ENST00000574410	processed_transcript	KNOWN	None	4913	None	None	75198417	75203919	-1	None	ILWEQ
HG1257_PATCH	RN7SL642P	ENSG00000264942	ENST00000582162	misc_RNA	KNOWN	None	46658	None	None	75045600	75045862	-1	None	None
HG1257_PATCH	CCL26	ENSG00000262029	ENST00000575353	protein_coding	KNOWN	None	10625	285	94	75234490	75237214	-1	SCYA26	MIP-4alpha, eotaxin-3, IMAC, MIP-4a, TSC-1
HG1257_PATCH	CCL26	ENSG00000262029	ENST00000576539	protein_coding	KNOWN	None	10625	285	94	75234490	75254853	-1	SCYA26	MIP-4alpha, eotaxin-3, IMAC, MIP-4a, TSC-1
HG1257_PATCH	CCL24	ENSG00000262306	ENST00000573227	protein_coding	KNOWN	None	10623	360	119	75276622	75278763	-1	SCYA24	Ckb-6, MPIF-2, eotaxin-2, MPIF2
HG1257_PATCH	CCL24	ENSG00000262306	ENST00000576649	protein_coding	KNOWN	None	10623	360	119	75276622	75288313	-1	SCYA24	Ckb-6, MPIF-2, eotaxin-2, MPIF2
HG1257_PATCH	None	ENSG00000263104	ENST00000575776	processed_pseudogene	KNOWN	None	None	None	None	75300620	75301098	1	None	None
HG1257_PATCH	RHBDD2	ENSG00000262744	ENST00000573164	processed_transcript	PUTATIVE	None	23082	None	None	75307559	75347081	1	RHBDL7	NPD007
HG1257_PATCH	RHBDD2	ENSG00000262744	ENST00000571003	processed_transcript	PUTATIVE	None	23082	None	None	75343048	75347122	1	RHBDL7	NPD007
HG1257_PATCH	RHBDD2	ENSG00000262744	ENST00000576689	protein_coding	KNOWN	None	23082	1095	364	75343905	75353878	1	RHBDL7	NPD007
HG1257_PATCH	RHBDD2	ENSG00000262744	ENST00000574493	protein_coding	KNOWN	None	23082	672	223	75343956	75353883	1	RHBDL7	NPD007
HG1257_PATCH	RHBDD2	ENSG00000262744	ENST00000573800	nonsense_mediated_decay	KNOWN	None	23082	240	79	75343961	75353841	1	RHBDL7	NPD007
HG1257_PATCH	RHBDD2	ENSG00000262744	ENST00000574459	processed_transcript	PUTATIVE	None	23082	None	None	75344097	75345262	1	RHBDL7	NPD007
HG1257_PATCH	RHBDD2	ENSG00000262744	ENST00000575219	processed_transcript	PUTATIVE	None	23082	None	None	75344129	75353540	1	RHBDL7	NPD007
HG1257_PATCH	RHBDD2	ENSG00000262744	ENST00000573423	protein_coding	KNOWN	None	23082	672	223	75347001	75353878	1	RHBDL7	NPD007
HG1257_PATCH	RHBDD2	ENSG00000262744	ENST00000574019	processed_transcript	PUTATIVE	None	23082	None	None	75348447	75353225	1	RHBDL7	NPD007
HG1257_PATCH	POR	ENSG00000262569	ENST00000606730	protein_coding	KNOWN	None	9208	421	139	75364157	75445350	1	None	CYPOR, FLJ26468
HG1257_PATCH	POR	ENSG00000262569	ENST00000607870	protein_coding	KNOWN	None	9208	565	187	75372533	75446053	1	None	CYPOR, FLJ26468
HG1257_PATCH	POR	ENSG00000262569	ENST00000573555	protein_coding	KNOWN	None	9208	2043	680	75380036	75451812	1	None	CYPOR, FLJ26468
HG1257_PATCH	POR	ENSG00000262569	ENST00000606294	protein_coding	KNOWN	None	9208	1107	368	75380059	75451811	1	None	CYPOR, FLJ26468
HG1257_PATCH	POR	ENSG00000262569	ENST00000607077	nonsense_mediated_decay	KNOWN	None	9208	306	101	75380106	75445695	1	None	CYPOR, FLJ26468
HG1257_PATCH	POR	ENSG00000262569	ENST00000606073	protein_coding	KNOWN	None	9208	117	38	75380114	75419066	1	None	CYPOR, FLJ26468
HG1257_PATCH	POR	ENSG00000262569	ENST00000607449	retained_intron	KNOWN	None	9208	None	None	75380114	75444743	1	None	CYPOR, FLJ26468
HG1257_PATCH	POR	ENSG00000262569	ENST00000607264	protein_coding	PUTATIVE	None	9208	1902	633	75380121	75451812	1	None	CYPOR, FLJ26468
HG1257_PATCH	POR	ENSG00000262569	ENST00000607470	protein_coding	KNOWN	None	9208	439	145	75380131	75445368	1	None	CYPOR, FLJ26468
HG1257_PATCH	POR	ENSG00000262569	ENST00000606301	protein_coding	KNOWN	None	9208	516	171	75380139	75445445	1	None	CYPOR, FLJ26468
HG1257_PATCH	POR	ENSG00000262569	ENST00000606134	protein_coding	KNOWN	None	9208	499	165	75383601	75445428	1	None	CYPOR, FLJ26468
HG1257_PATCH	POR	ENSG00000262569	ENST00000606732	protein_coding	KNOWN	None	9208	188	61	75386118	75419137	1	None	CYPOR, FLJ26468
HG1257_PATCH	POR	ENSG00000262569	ENST00000607006	protein_coding	KNOWN	None	9208	188	61	75410279	75419137	1	None	CYPOR, FLJ26468
HG1257_PATCH	POR	ENSG00000262569	ENST00000607684	nonsense_mediated_decay	KNOWN	None	9208	636	211	75418946	75451497	1	None	CYPOR, FLJ26468
HG1257_PATCH	POR	ENSG00000262569	ENST00000607103	nonsense_mediated_decay	KNOWN	None	9208	570	189	75418946	75451811	1	None	CYPOR, FLJ26468
HG1257_PATCH	POR	ENSG00000262569	ENST00000607075	protein_coding	PUTATIVE	None	9208	2176	724	75419033	75451556	1	None	CYPOR, FLJ26468
HG1257_PATCH	POR	ENSG00000262569	ENST00000606494	protein_coding	PUTATIVE	None	9208	326	107	75432800	75445396	1	None	CYPOR, FLJ26468
HG1257_PATCH	POR	ENSG00000262569	ENST00000607753	protein_coding	PUTATIVE	None	9208	163	53	75432802	75444494	1	None	CYPOR, FLJ26468
HG1257_PATCH	POR	ENSG00000262569	ENST00000605903	processed_transcript	KNOWN	None	9208	None	None	75432802	75445317	1	None	CYPOR, FLJ26468
HG1257_PATCH	POR	ENSG00000262569	ENST00000606104	protein_coding	KNOWN	None	9208	1467	488	75445316	75451811	1	None	CYPOR, FLJ26468
HG1257_PATCH	POR	ENSG00000262569	ENST00000607551	protein_coding	KNOWN	None	9208	1722	573	75445457	75451556	1	None	CYPOR, FLJ26468
HG1257_PATCH	POR	ENSG00000262569	ENST00000607256	retained_intron	KNOWN	None	9208	None	None	75445889	75448750	1	None	CYPOR, FLJ26468
HG1257_PATCH	POR	ENSG00000262569	ENST00000606339	protein_coding	PUTATIVE	None	9208	1257	418	75446868	75451789	1	None	CYPOR, FLJ26468
HG1257_PATCH	POR	ENSG00000262569	ENST00000605914	retained_intron	KNOWN	None	9208	None	None	75448273	75450702	1	None	CYPOR, FLJ26468
HG1257_PATCH	POR	ENSG00000262569	ENST00000606821	retained_intron	KNOWN	None	9208	None	None	75448393	75450264	1	None	CYPOR, FLJ26468
HG1257_PATCH	POR	ENSG00000262569	ENST00000607791	retained_intron	KNOWN	None	9208	None	None	75448746	75450323	1	None	CYPOR, FLJ26468
HG1257_PATCH	POR	ENSG00000262569	ENST00000607365	retained_intron	KNOWN	None	9208	None	None	75450527	75451812	1	None	CYPOR, FLJ26468
HG1257_PATCH	MIR4651	ENSG00000265726	ENST00000570302	miRNA	KNOWN	None	41647	None	None	75380154	75380226	1	None	hsa-mir-4651
HG1257_PATCH	RPL7L1P3	ENSG00000262650	ENST00000574409	processed_pseudogene	KNOWN	None	39485	None	None	75387712	75388400	1	None	None
HG1257_PATCH	SNORA14A	ENSG00000262432	ENST00000572676	snoRNA	KNOWN	None	32602	None	None	75408739	75408873	1	None	ACA14a
HG1257_PATCH	TMEM120A	ENSG00000262309	ENST00000574312	processed_transcript	KNOWN	None	21697	None	None	75451794	75459616	-1	None	TMPIT, NET29
HG1257_PATCH	TMEM120A	ENSG00000262309	ENST00000573241	processed_transcript	KNOWN	None	21697	None	None	75451940	75459573	-1	None	TMPIT, NET29
HG1257_PATCH	TMEM120A	ENSG00000262309	ENST00000571773	retained_intron	KNOWN	None	21697	None	None	75451942	75452625	-1	None	TMPIT, NET29
HG1257_PATCH	TMEM120A	ENSG00000262309	ENST00000574280	processed_transcript	KNOWN	None	21697	None	None	75451942	75453277	-1	None	TMPIT, NET29
HG1257_PATCH	TMEM120A	ENSG00000262309	ENST00000571069	processed_transcript	KNOWN	None	21697	None	None	75451942	75459531	-1	None	TMPIT, NET29
HG1257_PATCH	TMEM120A	ENSG00000262309	ENST00000570442	processed_transcript	KNOWN	None	21697	None	None	75451946	75453168	-1	None	TMPIT, NET29
HG1257_PATCH	TMEM120A	ENSG00000262309	ENST00000575046	retained_intron	KNOWN	None	21697	None	None	75451949	75452492	-1	None	TMPIT, NET29
HG1257_PATCH	TMEM120A	ENSG00000262309	ENST00000575762	processed_transcript	KNOWN	None	21697	None	None	75451998	75459613	-1	None	TMPIT, NET29
HG1257_PATCH	TMEM120A	ENSG00000262309	ENST00000575339	retained_intron	KNOWN	None	21697	None	None	75452107	75453473	-1	None	TMPIT, NET29
HG1257_PATCH	TMEM120A	ENSG00000262309	ENST00000574131	polymorphic_pseudogene	KNOWN	None	21697	1032	343	75452129	75459527	-1	None	TMPIT, NET29
HG1257_PATCH	TMEM120A	ENSG00000262309	ENST00000573010	retained_intron	KNOWN	None	21697	None	None	75452399	75452935	-1	None	TMPIT, NET29
HG1257_PATCH	TMEM120A	ENSG00000262309	ENST00000573806	processed_transcript	KNOWN	None	21697	None	None	75452499	75459513	-1	None	TMPIT, NET29
HG1257_PATCH	TMEM120A	ENSG00000262309	ENST00000575072	retained_intron	KNOWN	None	21697	None	None	75452884	75457239	-1	None	TMPIT, NET29
HG1257_PATCH	TMEM120A	ENSG00000262309	ENST00000573199	retained_intron	KNOWN	None	21697	None	None	75452993	75457484	-1	None	TMPIT, NET29
HG1257_PATCH	TMEM120A	ENSG00000262309	ENST00000577071	processed_transcript	KNOWN	None	21697	None	None	75453087	75459595	-1	None	TMPIT, NET29
HG1257_PATCH	TMEM120A	ENSG00000262309	ENST00000570437	retained_intron	KNOWN	None	21697	None	None	75453160	75453544	-1	None	TMPIT, NET29
HG1257_PATCH	TMEM120A	ENSG00000262309	ENST00000576563	processed_transcript	KNOWN	None	21697	None	None	75454115	75459609	-1	None	TMPIT, NET29
HG1257_PATCH	STYXL1	ENSG00000262263	ENST00000574630	protein_coding	KNOWN	None	18165	942	313	75461295	75512960	-1	DUSP24	MK-STYX
HG1257_PATCH	STYXL1	ENSG00000262263	ENST00000575229	protein_coding	KNOWN	None	18165	942	313	75461299	75512920	-1	DUSP24	MK-STYX
HG1257_PATCH	STYXL1	ENSG00000262263	ENST00000571002	protein_coding	KNOWN	None	18165	654	217	75461299	75512940	-1	DUSP24	MK-STYX
HG1257_PATCH	STYXL1	ENSG00000262263	ENST00000576803	protein_coding	KNOWN	None	18165	339	112	75461300	75512940	-1	DUSP24	MK-STYX
HG1257_PATCH	STYXL1	ENSG00000262263	ENST00000571315	nonsense_mediated_decay	KNOWN	None	18165	205	67	75461323	75493629	-1	DUSP24	MK-STYX
HG1257_PATCH	STYXL1	ENSG00000262263	ENST00000572175	nonsense_mediated_decay	KNOWN	None	18165	205	67	75461323	75493629	-1	DUSP24	MK-STYX
HG1257_PATCH	STYXL1	ENSG00000262263	ENST00000576767	protein_coding	KNOWN	None	18165	942	313	75461366	75512910	-1	DUSP24	MK-STYX
HG1257_PATCH	STYXL1	ENSG00000262263	ENST00000576170	protein_coding	NOVEL	None	18165	663	220	75461456	75493628	-1	DUSP24	MK-STYX
HG1257_PATCH	STYXL1	ENSG00000262263	ENST00000571528	protein_coding	PUTATIVE	None	18165	849	282	75463502	75512937	-1	DUSP24	MK-STYX
HG1257_PATCH	STYXL1	ENSG00000262263	ENST00000573983	retained_intron	KNOWN	None	18165	None	None	75468696	75512945	-1	DUSP24	MK-STYX
HG1257_PATCH	STYXL1	ENSG00000262263	ENST00000572501	processed_transcript	KNOWN	None	18165	None	None	75478710	75512961	-1	DUSP24	MK-STYX
HG1257_PATCH	MDH2	ENSG00000262847	ENST00000576023	protein_coding	PUTATIVE	None	6971	87	28	75513008	75514004	1	None	None
HG1257_PATCH	MDH2	ENSG00000262847	ENST00000573193	protein_coding	KNOWN	None	6971	1017	338	75513024	75532465	1	None	None
HG1257_PATCH	MDH2	ENSG00000262847	ENST00000574261	protein_coding	PUTATIVE	None	6971	696	231	75513042	75532463	1	None	None
HG1257_PATCH	MDH2	ENSG00000262847	ENST00000574793	retained_intron	KNOWN	None	6971	None	None	75513093	75523132	1	None	None
HG1257_PATCH	MDH2	ENSG00000262847	ENST00000571921	processed_transcript	PUTATIVE	None	6971	None	None	75513118	75522404	1	None	None
HG1257_PATCH	MDH2	ENSG00000262847	ENST00000571648	protein_coding	NOVEL	None	6971	891	296	75513118	75532024	1	None	None
HG1257_PATCH	MDH2	ENSG00000262847	ENST00000573532	retained_intron	KNOWN	None	6971	None	None	75519461	75522417	1	None	None
HG1257_PATCH	MDH2	ENSG00000262847	ENST00000572241	retained_intron	KNOWN	None	6971	None	None	75525325	75530130	1	None	None
HG1257_PATCH	None	ENSG00000263227	ENST00000575681	processed_pseudogene	KNOWN	None	None	None	None	75536426	75539920	-1	None	None
HG1257_PATCH	RNU6-863P	ENSG00000261953	ENST00000576426	snRNA	KNOWN	None	47826	None	None	75552401	75552504	1	None	None
HG1257_PATCH	None	ENSG00000262876	ENST00000576405	processed_transcript	KNOWN	None	None	None	None	75555388	75573736	-1	None	None
HG1257_PATCH	None	ENSG00000262876	ENST00000573467	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	75564397	75566365	-1	None	None
HG1257_PATCH	None	ENSG00000262270	ENST00000576959	unprocessed_pseudogene	KNOWN	None	None	None	None	75573391	75573720	-1	None	None
HG1257_PATCH	None	ENSG00000262064	ENST00000572917	snoRNA	NOVEL	None	None	None	None	75577755	75577853	1	None	None
HG1257_PATCH	None	ENSG00000261851	ENST00000570615	processed_pseudogene	KNOWN	None	None	None	None	75577983	75578357	-1	None	None
HG1257_PATCH	None	ENSG00000262711	ENST00000571985	unprocessed_pseudogene	KNOWN	None	None	None	None	75582682	75597144	-1	None	None
HG1257_PATCH	None	ENSG00000262751	ENST00000573825	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	75638690	75640530	1	None	None
HG1257_PATCH	None	ENSG00000262751	ENST00000572296	processed_transcript	KNOWN	None	None	None	None	75639266	75642162	1	None	None
HG1257_PATCH	SRRM3	ENSG00000262321	ENST00000574979	protein_coding	KNOWN	None	26729	1962	653	75666855	75752242	1	None	FLJ37078
HG1257_PATCH	SRRM3	ENSG00000262321	ENST00000571189	protein_coding	KNOWN	None	26729	1794	597	75666857	75752242	1	None	FLJ37078
HG1257_PATCH	SRRM3	ENSG00000262321	ENST00000575661	retained_intron	KNOWN	None	26729	None	None	75699939	75724994	1	None	FLJ37078
HG1257_PATCH	SRRM3	ENSG00000262321	ENST00000576458	processed_transcript	PUTATIVE	None	26729	None	None	75730364	75734949	1	None	FLJ37078
HG1257_PATCH	SRRM3	ENSG00000262321	ENST00000571491	processed_transcript	PUTATIVE	None	26729	None	None	75738010	75746443	1	None	FLJ37078
HG1257_PATCH	SRRM3	ENSG00000262321	ENST00000576962	protein_coding	PUTATIVE	None	26729	704	233	75747571	75752244	1	None	FLJ37078
HG1257_PATCH	RN7SL212P	ENSG00000265234	ENST00000581131	misc_RNA	KNOWN	None	46228	None	None	75753747	75754010	1	None	None
HG1502_PATCH	GPR107	ENSG00000269797	ENST00000594046	protein_coding	NOVEL	None	17830	1803	600	132815705	132902443	1	None	KIAA1624, RP11-88G17, FLJ20998, LUSTR1
HG1502_PATCH	GPR107	ENSG00000269797	ENST00000594105	protein_coding	KNOWN	None	17830	1659	552	132815705	132902443	1	None	KIAA1624, RP11-88G17, FLJ20998, LUSTR1
HG1502_PATCH	GPR107	ENSG00000269797	ENST00000595693	protein_coding	KNOWN	None	17830	1716	571	132815985	132902448	1	None	KIAA1624, RP11-88G17, FLJ20998, LUSTR1
HG1502_PATCH	GPR107	ENSG00000269797	ENST00000598662	nonsense_mediated_decay	KNOWN	None	17830	387	128	132816200	132892303	1	None	KIAA1624, RP11-88G17, FLJ20998, LUSTR1
HG1502_PATCH	GPR107	ENSG00000269797	ENST00000596620	processed_transcript	KNOWN	None	17830	None	None	132845581	132853185	1	None	KIAA1624, RP11-88G17, FLJ20998, LUSTR1
HG1502_PATCH	GPR107	ENSG00000269797	ENST00000601892	processed_transcript	KNOWN	None	17830	None	None	132869798	132889810	1	None	KIAA1624, RP11-88G17, FLJ20998, LUSTR1
HG1502_PATCH	GPR107	ENSG00000269797	ENST00000594255	processed_transcript	KNOWN	None	17830	None	None	132891870	132895515	1	None	KIAA1624, RP11-88G17, FLJ20998, LUSTR1
HG1502_PATCH	None	ENSG00000267806	ENST00000595609	protein_coding	KNOWN	None	None	570	189	132902889	132906498	-1	None	None
HG1502_PATCH	NCS1	ENSG00000268733	ENST00000601889	protein_coding	KNOWN	None	3953	573	190	132934857	132999583	1	FREQ	NCS-1
HG1502_PATCH	NCS1	ENSG00000268733	ENST00000600461	processed_transcript	KNOWN	None	3953	None	None	132956107	132980199	1	FREQ	NCS-1
HG1502_PATCH	NCS1	ENSG00000268733	ENST00000599518	protein_coding	KNOWN	None	3953	519	172	132962872	132999583	1	FREQ	NCS-1
HG1502_PATCH	HMCN2	ENSG00000269324	ENST00000594717	protein_coding	NOVEL	None	21293	2091	696	133046882	133072340	1	None	DKFZp434P0216, FLJ23816
HG1502_PATCH	HMCN2	ENSG00000269324	ENST00000595580	protein_coding	NOVEL	None	21293	1781	592	133255028	133266942	1	None	DKFZp434P0216, FLJ23816
HG1502_PATCH	HMCN2	ENSG00000269324	ENST00000599744	protein_coding	PUTATIVE	None	21293	421	139	133262700	133266942	1	None	DKFZp434P0216, FLJ23816
HG1502_PATCH	HMCN2	ENSG00000269324	ENST00000593911	processed_transcript	KNOWN	None	21293	None	None	133278777	133279563	1	None	DKFZp434P0216, FLJ23816
HG1502_PATCH	HMCN2	ENSG00000269324	ENST00000602112	protein_coding	PUTATIVE	None	21293	463	153	133290932	133292985	1	None	DKFZp434P0216, FLJ23816
HG1502_PATCH	HMCN2	ENSG00000269324	ENST00000600102	processed_transcript	KNOWN	None	21293	None	None	133290932	133326065	1	None	DKFZp434P0216, FLJ23816
HG1502_PATCH	HMCN2	ENSG00000269324	ENST00000596577	processed_transcript	KNOWN	None	21293	None	None	133305125	133313735	1	None	DKFZp434P0216, FLJ23816
HG1502_PATCH	HMCN2	ENSG00000269324	ENST00000597422	protein_coding	NOVEL	None	21293	2370	789	133317044	133340606	1	None	DKFZp434P0216, FLJ23816
HG1502_PATCH	HMCN2	ENSG00000269324	ENST00000597795	protein_coding	KNOWN	None	21293	663	220	133336765	133340604	1	None	DKFZp434P0216, FLJ23816
HG1500_PATCH	RNU6ATAC	ENSG00000268972	ENST00000594904	snRNA	KNOWN	None	34017	None	None	137029561	137029686	-1	None	RNU6ATAC1
HG1501_PATCH	None	ENSG00000269262	ENST00000601653	lincRNA	KNOWN	None	None	None	None	137198748	137200214	-1	None	None
HG1501_PATCH	RXRA	ENSG00000269571	ENST00000595521	processed_transcript	KNOWN	None	10477	None	None	137221915	137311211	1	None	NR2B1
HG1501_PATCH	RXRA	ENSG00000269571	ENST00000594882	protein_coding	KNOWN	None	10477	1389	462	137231397	137341836	1	None	NR2B1
HG1501_PATCH	RXRA	ENSG00000269571	ENST00000593318	processed_transcript	KNOWN	None	10477	None	None	137276788	137345402	1	None	NR2B1
HG1501_PATCH	RXRA	ENSG00000269571	ENST00000601328	protein_coding	KNOWN	None	10477	1098	365	137311399	137341831	1	None	NR2B1
HG1479_PATCH	PPP2R2D	ENSG00000269277	ENST00000595776	protein_coding	KNOWN	None	23732	1269	422	133787054	133812430	1	None	MDS026
HG1479_PATCH	PPP2R2D	ENSG00000269277	ENST00000600664	nonsense_mediated_decay	KNOWN	None	23732	136	44	133787059	133809158	1	None	MDS026
HG1479_PATCH	PPP2R2D	ENSG00000269277	ENST00000596993	retained_intron	KNOWN	None	23732	None	None	133792379	133796609	1	None	MDS026
HG1479_PATCH	PPP2R2D	ENSG00000269277	ENST00000597594	protein_coding	KNOWN	None	23732	408	135	133792632	133809118	1	None	MDS026
HG1479_PATCH	PPP2R2D	ENSG00000269277	ENST00000593836	retained_intron	KNOWN	None	23732	None	None	133792762	133808845	1	None	MDS026
HG1479_PATCH	PPP2R2D	ENSG00000269277	ENST00000600971	processed_transcript	KNOWN	None	23732	None	None	133793204	133808383	1	None	MDS026
HG1479_PATCH	PPP2R2D	ENSG00000269277	ENST00000600088	retained_intron	KNOWN	None	23732	None	None	133793210	133798528	1	None	MDS026
HG865_PATCH	None	ENSG00000268430	ENST00000606715	protein_coding	KNOWN	None	None	3411	1136	70313961	71020867	-1	None	None
HG865_PATCH	None	ENSG00000268430	ENST00000601538	protein_coding	KNOWN	None	None	5547	1848	70313961	71020867	-1	None	None
HG865_PATCH	None	ENSG00000268430	ENST00000605412	protein_coding	KNOWN	None	None	4173	1390	70313961	71020867	-1	None	None
HG865_PATCH	None	ENSG00000268430	ENST00000601391	protein_coding	KNOWN	None	None	4194	1397	70313961	71020867	-1	None	None
HG865_PATCH	None	ENSG00000268290	ENST00000598283	sense_intronic	KNOWN	None	None	None	None	70323382	70323697	-1	None	None
HG865_PATCH	None	ENSG00000268125	ENST00000594799	sense_intronic	KNOWN	None	None	None	None	70412492	70417428	-1	None	None
HG865_PATCH	SHANK2-AS1	ENSG00000268837	ENST00000599688	antisense	KNOWN	None	40014	None	None	70477199	70481595	1	None	None
HG865_PATCH	SHANK2-AS2	ENSG00000269863	ENST00000596635	antisense	KNOWN	None	40015	None	None	70492270	70493667	1	None	None
HG865_PATCH	None	ENSG00000269137	ENST00000594510	misc_RNA	NOVEL	None	None	None	None	70551272	70551374	-1	None	None
HG865_PATCH	SHANK2-AS3	ENSG00000269211	ENST00000594451	antisense	KNOWN	None	25098	None	None	70708895	70711220	1	C11orf76	None
HG865_PATCH	MIR3664	ENSG00000269325	ENST00000598358	miRNA	KNOWN	None	38899	None	None	70718375	70718473	-1	None	hsa-mir-3664
HG122_PATCH	UBE4A	ENSG00000268110	ENST00000601574	protein_coding	KNOWN	None	12499	3201	1066	118230300	118269926	1	None	UBOX2, UFD2, KIAA0126, E4
HG122_PATCH	UBE4A	ENSG00000268110	ENST00000597644	protein_coding	KNOWN	None	12499	3222	1073	118230359	118269922	1	None	UBOX2, UFD2, KIAA0126, E4
HG122_PATCH	UBE4A	ENSG00000268110	ENST00000599552	protein_coding	KNOWN	None	12499	1617	538	118249216	118267222	1	None	UBOX2, UFD2, KIAA0126, E4
HG122_PATCH	None	ENSG00000269381	ENST00000594020	processed_transcript	KNOWN	None	None	None	None	118267810	118272024	-1	None	None
HG122_PATCH	None	ENSG00000269381	ENST00000601832	protein_coding	PUTATIVE	None	None	117	38	118269621	118272610	-1	None	None
HG122_PATCH	ATP5L	ENSG00000268551	ENST00000599678	protein_coding	KNOWN	None	14247	312	103	118271869	118280560	1	None	ATP5JG
HG122_PATCH	ATP5L	ENSG00000268551	ENST00000598167	retained_intron	KNOWN	None	14247	None	None	118272325	118280292	1	None	ATP5JG
HG122_PATCH	ATP5L	ENSG00000268551	ENST00000595020	processed_transcript	KNOWN	None	14247	None	None	118272334	118279914	1	None	ATP5JG
HG122_PATCH	ATP5L	ENSG00000268551	ENST00000595903	processed_transcript	KNOWN	None	14247	None	None	118272337	118279914	1	None	ATP5JG
HG122_PATCH	ATP5L	ENSG00000268551	ENST00000596478	protein_coding	PUTATIVE	None	14247	231	76	118272347	118302211	1	None	ATP5JG
HG122_PATCH	ATP5L	ENSG00000268551	ENST00000601722	processed_transcript	KNOWN	None	14247	None	None	118272348	118279914	1	None	ATP5JG
HG122_PATCH	ATP5L	ENSG00000268551	ENST00000599442	retained_intron	KNOWN	None	14247	None	None	118272367	118278208	1	None	ATP5JG
HG122_PATCH	ATP5L	ENSG00000268551	ENST00000600126	retained_intron	KNOWN	None	14247	None	None	118276842	118280325	1	None	ATP5JG
HG122_PATCH	None	ENSG00000270027	ENST00000602448	sense_intronic	KNOWN	None	None	None	None	118286692	118287236	1	None	None
HG122_PATCH	RN7SL86P	ENSG00000268254	ENST00000595629	misc_RNA	KNOWN	None	46102	None	None	118301123	118301419	1	None	None
HG122_PATCH	None	ENSG00000267955	ENST00000601013	protein_coding	PUTATIVE	None	None	444	147	118303836	118305921	-1	None	None
HG122_PATCH	KMT2A	ENSG00000267910	ENST00000595462	protein_coding	NOVEL	None	7132	11919	3972	118307205	118397539	1	MLL	TRX1, HRX, ALL-1, HTRX1, CXXC7, MLL1A
HG122_PATCH	KMT2A	ENSG00000267910	ENST00000593514	protein_coding	PUTATIVE	None	7132	4317	1438	118307225	118355029	1	MLL	TRX1, HRX, ALL-1, HTRX1, CXXC7, MLL1A
HG122_PATCH	KMT2A	ENSG00000267910	ENST00000601525	protein_coding	KNOWN	None	7132	11910	3969	118307228	118394632	1	MLL	TRX1, HRX, ALL-1, HTRX1, CXXC7, MLL1A
HG122_PATCH	KMT2A	ENSG00000267910	ENST00000594623	protein_coding	KNOWN	None	7132	11796	3931	118307228	118395411	1	MLL	TRX1, HRX, ALL-1, HTRX1, CXXC7, MLL1A
HG122_PATCH	KMT2A	ENSG00000267910	ENST00000600241	protein_coding	PUTATIVE	None	7132	264	87	118307459	118320699	1	MLL	TRX1, HRX, ALL-1, HTRX1, CXXC7, MLL1A
HG122_PATCH	KMT2A	ENSG00000267910	ENST00000597155	protein_coding	PUTATIVE	None	7132	264	87	118307459	118321461	1	MLL	TRX1, HRX, ALL-1, HTRX1, CXXC7, MLL1A
HG122_PATCH	KMT2A	ENSG00000267910	ENST00000601231	protein_coding	PUTATIVE	None	7132	481	159	118307477	118345022	1	MLL	TRX1, HRX, ALL-1, HTRX1, CXXC7, MLL1A
HG122_PATCH	KMT2A	ENSG00000267910	ENST00000597114	protein_coding	PUTATIVE	None	7132	804	267	118307477	118348917	1	MLL	TRX1, HRX, ALL-1, HTRX1, CXXC7, MLL1A
HG122_PATCH	KMT2A	ENSG00000267910	ENST00000599178	protein_coding	NOVEL	None	7132	1098	365	118352546	118362610	1	MLL	TRX1, HRX, ALL-1, HTRX1, CXXC7, MLL1A
HG122_PATCH	KMT2A	ENSG00000267910	ENST00000594242	processed_transcript	KNOWN	None	7132	None	None	118352703	118355046	1	MLL	TRX1, HRX, ALL-1, HTRX1, CXXC7, MLL1A
HG122_PATCH	KMT2A	ENSG00000267910	ENST00000593688	retained_intron	KNOWN	None	7132	None	None	118371417	118374279	1	MLL	TRX1, HRX, ALL-1, HTRX1, CXXC7, MLL1A
HG122_PATCH	KMT2A	ENSG00000267910	ENST00000599971	retained_intron	KNOWN	None	7132	None	None	118377276	118378480	1	MLL	TRX1, HRX, ALL-1, HTRX1, CXXC7, MLL1A
HG122_PATCH	KMT2A	ENSG00000267910	ENST00000596607	retained_intron	KNOWN	None	7132	None	None	118380661	118383097	1	MLL	TRX1, HRX, ALL-1, HTRX1, CXXC7, MLL1A
HG122_PATCH	KMT2A	ENSG00000267910	ENST00000597218	retained_intron	KNOWN	None	7132	None	None	118390274	118392908	1	MLL	TRX1, HRX, ALL-1, HTRX1, CXXC7, MLL1A
HG122_PATCH	KMT2A	ENSG00000267910	ENST00000598973	retained_intron	KNOWN	None	7132	None	None	118390550	118393124	1	MLL	TRX1, HRX, ALL-1, HTRX1, CXXC7, MLL1A
HG122_PATCH	None	ENSG00000268515	ENST00000594031	antisense	KNOWN	None	None	None	None	118382626	118401292	-1	None	None
HG122_PATCH	None	ENSG00000268515	ENST00000594433	antisense	KNOWN	None	None	None	None	118390100	118401285	-1	None	None
HG122_PATCH	None	ENSG00000268515	ENST00000600367	antisense	KNOWN	None	None	None	None	118390154	118401490	-1	None	None
HG122_PATCH	None	ENSG00000268515	ENST00000598043	antisense	KNOWN	None	None	None	None	118390211	118401284	-1	None	None
HG122_PATCH	None	ENSG00000268515	ENST00000594061	antisense	KNOWN	None	None	None	None	118390331	118401809	-1	None	None
HG122_PATCH	TTC36	ENSG00000269115	ENST00000595779	protein_coding	KNOWN	None	33708	570	189	118398187	118401912	1	None	HBP21
HG122_PATCH	TTC36	ENSG00000269115	ENST00000594147	nonsense_mediated_decay	KNOWN	None	33708	147	48	118398187	118401912	1	None	HBP21
HG122_PATCH	TTC36	ENSG00000269115	ENST00000599933	nonsense_mediated_decay	KNOWN	None	33708	147	48	118398187	118401912	1	None	HBP21
HG122_PATCH	TTC36	ENSG00000269115	ENST00000598891	protein_coding	KNOWN	None	33708	393	130	118398187	118401912	1	None	HBP21
HG122_PATCH	TMEM25	ENSG00000269319	ENST00000597742	protein_coding	KNOWN	None	25890	969	322	118401756	118406550	1	None	FLJ14399
HG122_PATCH	TMEM25	ENSG00000269319	ENST00000602097	protein_coding	KNOWN	None	25890	921	306	118401803	118417995	1	None	FLJ14399
HG122_PATCH	TMEM25	ENSG00000269319	ENST00000596699	protein_coding	KNOWN	None	25890	969	322	118401803	118406547	1	None	FLJ14399
HG122_PATCH	TMEM25	ENSG00000269319	ENST00000601939	retained_intron	KNOWN	None	25890	None	None	118401890	118403085	1	None	FLJ14399
HG122_PATCH	TMEM25	ENSG00000269319	ENST00000601750	retained_intron	KNOWN	None	25890	None	None	118401907	118403025	1	None	FLJ14399
HG122_PATCH	TMEM25	ENSG00000269319	ENST00000593371	nonsense_mediated_decay	KNOWN	None	25890	150	49	118401907	118403722	1	None	FLJ14399
HG122_PATCH	TMEM25	ENSG00000269319	ENST00000597103	nonsense_mediated_decay	KNOWN	None	25890	114	37	118401907	118404240	1	None	FLJ14399
HG122_PATCH	TMEM25	ENSG00000269319	ENST00000594453	protein_coding	PUTATIVE	None	25890	503	166	118401907	118404255	1	None	FLJ14399
HG122_PATCH	TMEM25	ENSG00000269319	ENST00000598004	protein_coding	KNOWN	None	25890	810	269	118401907	118405350	1	None	FLJ14399
HG122_PATCH	TMEM25	ENSG00000269319	ENST00000601595	protein_coding	KNOWN	None	25890	1056	351	118401914	118417199	1	None	FLJ14399
HG122_PATCH	TMEM25	ENSG00000269319	ENST00000599443	retained_intron	KNOWN	None	25890	None	None	118401917	118403146	1	None	FLJ14399
HG122_PATCH	TMEM25	ENSG00000269319	ENST00000598724	processed_transcript	KNOWN	None	25890	None	None	118401917	118403420	1	None	FLJ14399
HG122_PATCH	TMEM25	ENSG00000269319	ENST00000596191	protein_coding	PUTATIVE	None	25890	510	169	118401917	118403855	1	None	FLJ14399
HG122_PATCH	TMEM25	ENSG00000269319	ENST00000602256	processed_transcript	KNOWN	None	25890	None	None	118401917	118403923	1	None	FLJ14399
HG122_PATCH	TMEM25	ENSG00000269319	ENST00000593753	processed_transcript	KNOWN	None	25890	None	None	118401917	118404337	1	None	FLJ14399
HG122_PATCH	TMEM25	ENSG00000269319	ENST00000601547	protein_coding	PUTATIVE	None	25890	505	167	118401917	118404835	1	None	FLJ14399
HG122_PATCH	TMEM25	ENSG00000269319	ENST00000596174	protein_coding	PUTATIVE	None	25890	583	193	118401917	118405258	1	None	FLJ14399
HG122_PATCH	TMEM25	ENSG00000269319	ENST00000599473	protein_coding	KNOWN	None	25890	657	218	118401917	118406543	1	None	FLJ14399
HG122_PATCH	TMEM25	ENSG00000269319	ENST00000599344	retained_intron	KNOWN	None	25890	None	None	118401917	118406543	1	None	FLJ14399
HG122_PATCH	TMEM25	ENSG00000269319	ENST00000596183	protein_coding	KNOWN	None	25890	1146	381	118401917	118406548	1	None	FLJ14399
HG122_PATCH	TMEM25	ENSG00000269319	ENST00000597462	retained_intron	KNOWN	None	25890	None	None	118401917	118406549	1	None	FLJ14399
HG122_PATCH	TMEM25	ENSG00000269319	ENST00000598242	retained_intron	KNOWN	None	25890	None	None	118401918	118403574	1	None	FLJ14399
HG122_PATCH	TMEM25	ENSG00000269319	ENST00000598765	processed_transcript	KNOWN	None	25890	None	None	118401918	118404192	1	None	FLJ14399
HG122_PATCH	TMEM25	ENSG00000269319	ENST00000598413	protein_coding	KNOWN	None	25890	1101	366	118401924	118406550	1	None	FLJ14399
HG122_PATCH	TMEM25	ENSG00000269319	ENST00000600946	protein_coding	PUTATIVE	None	25890	121	39	118402073	118403011	1	None	FLJ14399
HG122_PATCH	TMEM25	ENSG00000269319	ENST00000598958	protein_coding	PUTATIVE	None	25890	969	322	118402105	118406544	1	None	FLJ14399
HG122_PATCH	TMEM25	ENSG00000269319	ENST00000594747	processed_transcript	KNOWN	None	25890	None	None	118402186	118403748	1	None	FLJ14399
HG122_PATCH	TMEM25	ENSG00000269319	ENST00000595733	protein_coding	PUTATIVE	None	25890	415	137	118402211	118403664	1	None	FLJ14399
HG122_PATCH	TMEM25	ENSG00000269319	ENST00000596800	processed_transcript	KNOWN	None	25890	None	None	118402241	118402700	1	None	FLJ14399
HG122_PATCH	TMEM25	ENSG00000269319	ENST00000600685	retained_intron	KNOWN	None	25890	None	None	118402288	118404234	1	None	FLJ14399
HG122_PATCH	TMEM25	ENSG00000269319	ENST00000600285	protein_coding	PUTATIVE	None	25890	601	199	118403747	118405441	1	None	FLJ14399
HG122_PATCH	IFT46	ENSG00000269278	ENST00000597276	protein_coding	KNOWN	None	26146	915	304	118415243	118436791	-1	C11orf60	C11orf2, FLJ21827
HG122_PATCH	IFT46	ENSG00000269278	ENST00000598014	protein_coding	KNOWN	None	26146	1068	355	118415258	118436750	-1	C11orf60	C11orf2, FLJ21827
HG122_PATCH	IFT46	ENSG00000269278	ENST00000595543	protein_coding	PUTATIVE	None	26146	894	297	118415307	118436632	-1	C11orf60	C11orf2, FLJ21827
HG122_PATCH	IFT46	ENSG00000269278	ENST00000594659	retained_intron	KNOWN	None	26146	None	None	118415616	118428371	-1	C11orf60	C11orf2, FLJ21827
HG122_PATCH	IFT46	ENSG00000269278	ENST00000597571	retained_intron	KNOWN	None	26146	None	None	118416540	118426342	-1	C11orf60	C11orf2, FLJ21827
HG122_PATCH	IFT46	ENSG00000269278	ENST00000600698	protein_coding	PUTATIVE	None	26146	589	195	118422945	118431137	-1	C11orf60	C11orf2, FLJ21827
HG122_PATCH	IFT46	ENSG00000269278	ENST00000601455	protein_coding	PUTATIVE	None	26146	584	193	118422950	118436361	-1	C11orf60	C11orf2, FLJ21827
HG122_PATCH	IFT46	ENSG00000269278	ENST00000598210	protein_coding	PUTATIVE	None	26146	477	158	118425735	118443475	-1	C11orf60	C11orf2, FLJ21827
HG122_PATCH	IFT46	ENSG00000269278	ENST00000598778	protein_coding	PUTATIVE	None	26146	323	106	118425736	118443685	-1	C11orf60	C11orf2, FLJ21827
HG122_PATCH	IFT46	ENSG00000269278	ENST00000595675	protein_coding	PUTATIVE	None	26146	185	60	118427621	118443418	-1	C11orf60	C11orf2, FLJ21827
HG122_PATCH	IFT46	ENSG00000269278	ENST00000600837	retained_intron	KNOWN	None	26146	None	None	118427709	118436726	-1	C11orf60	C11orf2, FLJ21827
HG122_PATCH	IFT46	ENSG00000269278	ENST00000600315	processed_transcript	KNOWN	None	26146	None	None	118430780	118436643	-1	C11orf60	C11orf2, FLJ21827
HG122_PATCH	RPL5P30	ENSG00000269627	ENST00000598266	processed_pseudogene	KNOWN	None	35837	None	None	118431405	118432295	1	None	None
HG122_PATCH	ARCN1	ENSG00000269382	ENST00000593602	protein_coding	KNOWN	None	649	1272	423	118443105	118471708	1	COPD	None
HG122_PATCH	ARCN1	ENSG00000269382	ENST00000594860	protein_coding	PUTATIVE	None	649	1659	552	118443139	118473643	1	COPD	None
HG122_PATCH	ARCN1	ENSG00000269382	ENST00000595576	protein_coding	NOVEL	None	649	252	83	118443151	118473748	1	COPD	None
HG122_PATCH	ARCN1	ENSG00000269382	ENST00000596715	protein_coding	KNOWN	None	649	1536	511	118443168	118473643	1	COPD	None
HG122_PATCH	RNU6-1157P	ENSG00000268599	ENST00000600176	snRNA	KNOWN	None	48120	None	None	118464703	118464808	1	None	None
HG122_PATCH	None	ENSG00000267867	ENST00000600882	protein_coding	NOVEL	None	None	4134	1377	118478306	118528753	1	None	None
HG122_PATCH	None	ENSG00000267867	ENST00000601898	protein_coding	NOVEL	None	None	4134	1377	118477213	118528753	1	None	None
HG122_PATCH	None	ENSG00000268378	ENST00000599813	antisense	KNOWN	None	None	None	None	118507335	118508812	1	None	None
HG122_PATCH	None	ENSG00000268021	ENST00000603256	protein_coding	KNOWN	None	None	1662	553	118528947	118550387	-1	None	None
HG122_PATCH	None	ENSG00000268021	ENST00000602002	protein_coding	KNOWN	None	None	1755	584	118528947	118550387	-1	None	None
HG122_PATCH	None	ENSG00000268021	ENST00000598751	protein_coding	KNOWN	None	None	1362	453	118529024	118550365	-1	None	None
HG122_PATCH	None	ENSG00000268021	ENST00000605607	protein_coding	KNOWN	None	None	1731	576	118529024	118550387	-1	None	None
HG122_PATCH	None	ENSG00000268766	ENST00000598045	unprocessed_pseudogene	KNOWN	None	None	None	None	118558754	118561315	-1	None	None
HG122_PATCH	RNU6-376P	ENSG00000268664	ENST00000594593	snRNA	KNOWN	None	47339	None	None	118573057	118573162	1	None	None
HG122_PATCH	None	ENSG00000268331	ENST00000594737	antisense	KNOWN	None	None	None	None	118575322	118620979	1	None	None
HG122_PATCH	DDX6	ENSG00000269612	ENST00000596625	protein_coding	KNOWN	None	2747	1452	483	118620040	118661851	-1	HLR2	RCK
HG122_PATCH	DDX6	ENSG00000269612	ENST00000593895	protein_coding	KNOWN	None	2747	1452	483	118622023	118661594	-1	HLR2	RCK
HG122_PATCH	DDX6	ENSG00000269612	ENST00000593421	retained_intron	KNOWN	None	2747	None	None	118622080	118630084	-1	HLR2	RCK
HG122_PATCH	DDX6	ENSG00000269612	ENST00000600727	protein_coding	PUTATIVE	None	2747	1452	483	118625304	118661663	-1	HLR2	RCK
HG122_PATCH	DDX6	ENSG00000269612	ENST00000599042	retained_intron	KNOWN	None	2747	None	None	118638341	118661851	-1	HLR2	RCK
HG122_PATCH	DDX6	ENSG00000269612	ENST00000600854	retained_intron	KNOWN	None	2747	None	None	118651835	118661074	-1	HLR2	RCK
HG122_PATCH	DDX6	ENSG00000269612	ENST00000596898	retained_intron	KNOWN	None	2747	None	None	118656548	118661864	-1	HLR2	RCK
HG344_PATCH	CD4	ENSG00000268779	ENST00000602064	processed_transcript	KNOWN	None	1678	None	None	6896024	6909611	1	None	None
HG344_PATCH	CD4	ENSG00000268779	ENST00000594128	protein_coding	KNOWN	None	1678	1377	458	6898638	6929974	1	None	None
HG344_PATCH	CD4	ENSG00000268779	ENST00000602038	processed_transcript	KNOWN	None	1678	None	None	6898680	6923399	1	None	None
HG344_PATCH	CD4	ENSG00000268779	ENST00000596986	retained_intron	KNOWN	None	1678	None	None	6898702	6924236	1	None	None
HG344_PATCH	CD4	ENSG00000268779	ENST00000600498	protein_coding	NOVEL	None	1678	447	148	6898702	6925447	1	None	None
HG344_PATCH	CD4	ENSG00000268779	ENST00000598816	processed_transcript	KNOWN	None	1678	None	None	6898702	6925523	1	None	None
HG344_PATCH	CD4	ENSG00000268779	ENST00000593648	retained_intron	KNOWN	None	1678	None	None	6898702	6928997	1	None	None
HG344_PATCH	CD4	ENSG00000268779	ENST00000596927	processed_transcript	KNOWN	None	1678	None	None	6898703	6909623	1	None	None
HG344_PATCH	CD4	ENSG00000268779	ENST00000599051	processed_transcript	KNOWN	None	1678	None	None	6898706	6923424	1	None	None
HG344_PATCH	CD4	ENSG00000268779	ENST00000600809	protein_coding	PUTATIVE	None	1678	136	44	6898734	6909559	1	None	None
HG344_PATCH	CD4	ENSG00000268779	ENST00000597292	processed_transcript	KNOWN	None	1678	None	None	6922718	6925370	1	None	None
HG344_PATCH	CD4	ENSG00000268779	ENST00000593538	retained_intron	KNOWN	None	1678	None	None	6923220	6924008	1	None	None
HG344_PATCH	GPR162	ENSG00000269830	ENST00000601642	protein_coding	KNOWN	None	16693	1767	588	6930711	6936583	1	None	A-2, GRCA
HG344_PATCH	GPR162	ENSG00000269830	ENST00000599853	retained_intron	KNOWN	None	16693	None	None	6930790	6934338	1	None	A-2, GRCA
HG344_PATCH	GPR162	ENSG00000269830	ENST00000594403	protein_coding	NOVEL	None	16693	915	304	6930870	6936586	1	None	A-2, GRCA
HG344_PATCH	GPR162	ENSG00000269830	ENST00000597866	processed_transcript	PUTATIVE	None	16693	None	None	6930995	6933582	1	None	A-2, GRCA
HG344_PATCH	GPR162	ENSG00000269830	ENST00000593673	protein_coding	NOVEL	None	16693	855	284	6931034	6936586	1	None	A-2, GRCA
HG344_PATCH	GPR162	ENSG00000269830	ENST00000597448	protein_coding	PUTATIVE	None	16693	683	226	6933660	6939136	1	None	A-2, GRCA
HG344_PATCH	GPR162	ENSG00000269830	ENST00000598685	processed_transcript	PUTATIVE	None	16693	None	None	6935815	6936586	1	None	A-2, GRCA
HG344_PATCH	LEPREL2	ENSG00000268828	ENST00000597750	protein_coding	KNOWN	None	19318	2208	735	6937572	6949018	1	None	GRCB, HSU47926, P3H3
HG344_PATCH	LEPREL2	ENSG00000268828	ENST00000598308	protein_coding	KNOWN	None	19318	1656	551	6937572	6949018	1	None	GRCB, HSU47926, P3H3
HG344_PATCH	LEPREL2	ENSG00000268828	ENST00000606254	polymorphic_pseudogene	KNOWN	None	19318	2210	735	6937606	6948625	1	None	GRCB, HSU47926, P3H3
HG344_PATCH	LEPREL2	ENSG00000268828	ENST00000593543	retained_intron	KNOWN	None	19318	None	None	6938188	6949010	1	None	GRCB, HSU47926, P3H3
HG344_PATCH	LEPREL2	ENSG00000268828	ENST00000594961	processed_transcript	KNOWN	None	19318	None	None	6938472	6940408	1	None	GRCB, HSU47926, P3H3
HG344_PATCH	LEPREL2	ENSG00000268828	ENST00000595716	retained_intron	KNOWN	None	19318	None	None	6938992	6949010	1	None	GRCB, HSU47926, P3H3
HG344_PATCH	LEPREL2	ENSG00000268828	ENST00000594616	processed_transcript	KNOWN	None	19318	None	None	6939648	6946250	1	None	GRCB, HSU47926, P3H3
HG344_PATCH	LEPREL2	ENSG00000268828	ENST00000601914	retained_intron	KNOWN	None	19318	None	None	6940452	6946849	1	None	GRCB, HSU47926, P3H3
HG344_PATCH	LEPREL2	ENSG00000268828	ENST00000597165	retained_intron	KNOWN	None	19318	None	None	6940987	6947210	1	None	GRCB, HSU47926, P3H3
HG344_PATCH	LEPREL2	ENSG00000268828	ENST00000600696	retained_intron	KNOWN	None	19318	None	None	6941007	6946732	1	None	GRCB, HSU47926, P3H3
HG344_PATCH	LEPREL2	ENSG00000268828	ENST00000600678	retained_intron	KNOWN	None	19318	None	None	6942694	6946932	1	None	GRCB, HSU47926, P3H3
HG344_PATCH	LEPREL2	ENSG00000268828	ENST00000600028	retained_intron	KNOWN	None	19318	None	None	6942779	6944120	1	None	GRCB, HSU47926, P3H3
HG344_PATCH	LEPREL2	ENSG00000268828	ENST00000593733	retained_intron	KNOWN	None	19318	None	None	6942826	6946700	1	None	GRCB, HSU47926, P3H3
HG344_PATCH	GNB3	ENSG00000268195	ENST00000596988	retained_intron	KNOWN	None	4400	None	None	6949118	6956557	1	None	None
HG344_PATCH	GNB3	ENSG00000268195	ENST00000596438	protein_coding	KNOWN	None	4400	1023	340	6949375	6956557	1	None	None
HG344_PATCH	GNB3	ENSG00000268195	ENST00000597971	protein_coding	PUTATIVE	None	4400	696	231	6949550	6953142	1	None	None
HG344_PATCH	GNB3	ENSG00000268195	ENST00000598670	protein_coding	PUTATIVE	None	4400	698	231	6949964	6953141	1	None	None
HG344_PATCH	GNB3	ENSG00000268195	ENST00000599347	protein_coding	NOVEL	None	4400	1020	339	6950138	6956062	1	None	None
HG344_PATCH	GNB3	ENSG00000268195	ENST00000596266	nonsense_mediated_decay	KNOWN	None	4400	111	36	6950159	6952649	1	None	None
HG344_PATCH	GNB3	ENSG00000268195	ENST00000600869	retained_intron	KNOWN	None	4400	None	None	6950205	6952165	1	None	None
HG344_PATCH	GNB3	ENSG00000268195	ENST00000595598	protein_coding	PUTATIVE	None	4400	794	263	6950450	6954967	1	None	None
HG344_PATCH	GNB3	ENSG00000268195	ENST00000601817	retained_intron	KNOWN	None	4400	None	None	6954531	6956516	1	None	None
HG344_PATCH	CDCA3	ENSG00000268136	ENST00000601025	protein_coding	NOVEL	None	14624	660	219	6953957	6960433	-1	None	TOME-1, GRCC8
HG344_PATCH	CDCA3	ENSG00000268136	ENST00000605873	processed_transcript	KNOWN	None	14624	None	None	6953963	6958036	-1	None	TOME-1, GRCC8
HG344_PATCH	CDCA3	ENSG00000268136	ENST00000605048	processed_transcript	KNOWN	None	14624	None	None	6954023	6957531	-1	None	TOME-1, GRCC8
HG344_PATCH	CDCA3	ENSG00000268136	ENST00000598882	protein_coding	KNOWN	None	14624	807	268	6957973	6961230	-1	None	TOME-1, GRCC8
HG344_PATCH	CDCA3	ENSG00000268136	ENST00000597632	protein_coding	PUTATIVE	None	14624	732	243	6957980	6960416	-1	None	TOME-1, GRCC8
HG344_PATCH	CDCA3	ENSG00000268136	ENST00000599860	protein_coding	PUTATIVE	None	14624	807	268	6957993	6960422	-1	None	TOME-1, GRCC8
HG344_PATCH	CDCA3	ENSG00000268136	ENST00000596310	retained_intron	KNOWN	None	14624	None	None	6957993	6960426	-1	None	TOME-1, GRCC8
HG344_PATCH	CDCA3	ENSG00000268136	ENST00000597449	processed_transcript	PUTATIVE	None	14624	None	None	6957996	6958971	-1	None	TOME-1, GRCC8
HG344_PATCH	CDCA3	ENSG00000268136	ENST00000595122	protein_coding	PUTATIVE	None	14624	549	182	6958007	6960413	-1	None	TOME-1, GRCC8
HG344_PATCH	CDCA3	ENSG00000268136	ENST00000593722	processed_transcript	KNOWN	None	14624	None	None	6958239	6960456	-1	None	TOME-1, GRCC8
HG344_PATCH	CDCA3	ENSG00000268136	ENST00000602106	processed_transcript	KNOWN	None	14624	None	None	6958318	6959654	-1	None	TOME-1, GRCC8
HG344_PATCH	CDCA3	ENSG00000268136	ENST00000601080	retained_intron	KNOWN	None	14624	None	None	6959363	6960456	-1	None	TOME-1, GRCC8
HG344_PATCH	USP5	ENSG00000268462	ENST00000595281	protein_coding	KNOWN	None	12628	2577	858	6961292	6975793	1	None	IsoT
HG344_PATCH	USP5	ENSG00000268462	ENST00000597018	protein_coding	KNOWN	None	12628	2508	835	6961312	6975784	1	None	IsoT
HG344_PATCH	USP5	ENSG00000268462	ENST00000596774	protein_coding	PUTATIVE	None	12628	411	136	6961317	6970254	1	None	IsoT
HG344_PATCH	USP5	ENSG00000268462	ENST00000597918	retained_intron	KNOWN	None	12628	None	None	6966020	6967990	1	None	IsoT
HG344_PATCH	USP5	ENSG00000268462	ENST00000601839	retained_intron	KNOWN	None	12628	None	None	6966565	6975796	1	None	IsoT
HG344_PATCH	USP5	ENSG00000268462	ENST00000595123	processed_transcript	KNOWN	None	12628	None	None	6969628	6973080	1	None	IsoT
HG344_PATCH	USP5	ENSG00000268462	ENST00000601227	retained_intron	KNOWN	None	12628	None	None	6972500	6975268	1	None	IsoT
HG344_PATCH	TPI1	ENSG00000268548	ENST00000601074	protein_coding	KNOWN	None	12009	861	286	6976283	6980112	1	None	None
HG344_PATCH	TPI1	ENSG00000268548	ENST00000595390	protein_coding	KNOWN	None	12009	750	249	6976695	6979992	1	None	None
HG344_PATCH	TPI1	ENSG00000268548	ENST00000599583	protein_coding	KNOWN	None	12009	504	167	6977264	6979547	1	None	None
HG344_PATCH	TPI1	ENSG00000268548	ENST00000598287	protein_coding	KNOWN	None	12009	504	167	6977278	6979992	1	None	None
HG344_PATCH	TPI1	ENSG00000268548	ENST00000597066	protein_coding	KNOWN	None	12009	339	112	6977305	6979254	1	None	None
HG344_PATCH	TPI1	ENSG00000268548	ENST00000594265	protein_coding	KNOWN	None	12009	116	37	6977361	6978459	1	None	None
HG344_PATCH	TPI1	ENSG00000268548	ENST00000595602	protein_coding	KNOWN	None	12009	294	97	6977633	6978934	1	None	None
HG344_PATCH	TPI1	ENSG00000268548	ENST00000597282	retained_intron	KNOWN	None	12009	None	None	6978712	6979301	1	None	None
HG344_PATCH	TPI1	ENSG00000268548	ENST00000599574	retained_intron	KNOWN	None	12009	None	None	6979181	6979735	1	None	None
HG344_PATCH	SPSB2	ENSG00000268190	ENST00000598262	protein_coding	KNOWN	None	29522	792	263	6980099	6982449	-1	None	GRCC9, SSB-2
HG344_PATCH	SPSB2	ENSG00000268190	ENST00000597925	protein_coding	KNOWN	None	29522	792	263	6980099	6982500	-1	None	GRCC9, SSB-2
HG344_PATCH	SPSB2	ENSG00000268190	ENST00000601049	protein_coding	PUTATIVE	None	29522	804	267	6980757	6982500	-1	None	GRCC9, SSB-2
HG344_PATCH	SPSB2	ENSG00000268190	ENST00000601683	protein_coding	KNOWN	None	29522	247	81	6981819	6991451	-1	None	GRCC9, SSB-2
HG344_PATCH	SPSB2	ENSG00000268190	ENST00000598174	processed_transcript	KNOWN	None	29522	None	None	6984928	6998522	-1	None	GRCC9, SSB-2
HG344_PATCH	RPL13P5	ENSG00000267877	ENST00000601111	processed_transcript	KNOWN	None	30363	None	None	6982553	6993780	1	RPL13L	RPL13-2
HG344_PATCH	RPL13P5	ENSG00000267877	ENST00000601842	processed_transcript	KNOWN	None	30363	None	None	6982643	6993602	1	RPL13L	RPL13-2
HG344_PATCH	RPL13P5	ENSG00000267877	ENST00000595303	processed_transcript	KNOWN	None	30363	None	None	6982817	6984886	1	RPL13L	RPL13-2
HG344_PATCH	RPL13P5	ENSG00000267877	ENST00000594499	processed_transcript	KNOWN	None	30363	None	None	6982820	6993905	1	RPL13L	RPL13-2
HG344_PATCH	RPL13P5	ENSG00000267877	ENST00000596167	transcribed_processed_pseudogene	KNOWN	None	30363	None	None	6993160	6993777	1	RPL13L	RPL13-2
HG344_PATCH	LRRC23	ENSG00000268135	ENST00000601429	protein_coding	PUTATIVE	None	19138	693	230	6982733	7016897	1	None	B7, LRPB7
HG344_PATCH	LRRC23	ENSG00000268135	ENST00000597907	processed_transcript	PUTATIVE	None	19138	None	None	6982846	7015678	1	None	B7, LRPB7
HG344_PATCH	LRRC23	ENSG00000268135	ENST00000598122	protein_coding	KNOWN	None	19138	1032	343	7013897	7023407	1	None	B7, LRPB7
HG344_PATCH	LRRC23	ENSG00000268135	ENST00000598978	nonsense_mediated_decay	KNOWN	None	19138	189	62	7013955	7023358	1	None	B7, LRPB7
HG344_PATCH	LRRC23	ENSG00000268135	ENST00000593557	nonsense_mediated_decay	KNOWN	None	19138	189	62	7013998	7023393	1	None	B7, LRPB7
HG344_PATCH	LRRC23	ENSG00000268135	ENST00000600515	protein_coding	KNOWN	None	19138	939	312	7014005	7023392	1	None	B7, LRPB7
HG344_PATCH	LRRC23	ENSG00000268135	ENST00000595126	processed_transcript	PUTATIVE	None	19138	None	None	7014027	7015782	1	None	B7, LRPB7
HG344_PATCH	LRRC23	ENSG00000268135	ENST00000598039	retained_intron	KNOWN	None	19138	None	None	7014038	7015919	1	None	B7, LRPB7
HG344_PATCH	LRRC23	ENSG00000268135	ENST00000600001	nonsense_mediated_decay	KNOWN	None	19138	189	62	7014054	7021975	1	None	B7, LRPB7
HG344_PATCH	LRRC23	ENSG00000268135	ENST00000599171	protein_coding	KNOWN	None	19138	1032	343	7014070	7023407	1	None	B7, LRPB7
HG344_PATCH	LRRC23	ENSG00000268135	ENST00000595209	protein_coding	KNOWN	None	19138	283	93	7014175	7015619	1	None	B7, LRPB7
HG344_PATCH	LRRC23	ENSG00000268135	ENST00000597585	protein_coding	NOVEL	None	19138	651	216	7014192	7023132	1	None	B7, LRPB7
HG344_PATCH	LRRC23	ENSG00000268135	ENST00000600963	protein_coding	PUTATIVE	None	19138	609	202	7014798	7023235	1	None	B7, LRPB7
HG344_PATCH	LRRC23	ENSG00000268135	ENST00000598013	processed_transcript	KNOWN	None	19138	None	None	7022266	7023392	1	None	B7, LRPB7
HG344_PATCH	DSTNP2	ENSG00000269361	ENST00000602392	processed_transcript	KNOWN	None	34546	None	None	6993846	6994950	1	None	None
HG344_PATCH	DSTNP2	ENSG00000269361	ENST00000601959	transcribed_unprocessed_pseudogene	KNOWN	None	34546	None	None	6994062	6994848	1	None	None
HG344_PATCH	ENO2	ENSG00000269528	ENST00000595469	protein_coding	PUTATIVE	None	3353	310	102	7022909	7026271	1	None	None
HG344_PATCH	ENO2	ENSG00000269528	ENST00000601485	protein_coding	KNOWN	None	3353	1305	434	7023491	7032859	1	None	None
HG344_PATCH	ENO2	ENSG00000269528	ENST00000596089	protein_coding	KNOWN	None	3353	1305	434	7023614	7032859	1	None	None
HG344_PATCH	ENO2	ENSG00000269528	ENST00000595241	retained_intron	KNOWN	None	3353	None	None	7023702	7025899	1	None	None
HG344_PATCH	ENO2	ENSG00000269528	ENST00000597847	retained_intron	KNOWN	None	3353	None	None	7023721	7025976	1	None	None
HG344_PATCH	ENO2	ENSG00000269528	ENST00000593797	protein_coding	NOVEL	None	3353	1176	391	7023753	7032347	1	None	None
HG344_PATCH	ENO2	ENSG00000269528	ENST00000597321	protein_coding	KNOWN	None	3353	1176	391	7023753	7032347	1	None	None
HG344_PATCH	ENO2	ENSG00000269528	ENST00000593975	retained_intron	KNOWN	None	3353	None	None	7023758	7026423	1	None	None
HG344_PATCH	ENO2	ENSG00000269528	ENST00000595878	retained_intron	KNOWN	None	3353	None	None	7023761	7026873	1	None	None
HG344_PATCH	ENO2	ENSG00000269528	ENST00000600792	protein_coding	NOVEL	None	3353	948	315	7023774	7032861	1	None	None
HG344_PATCH	ENO2	ENSG00000269528	ENST00000594987	protein_coding	KNOWN	None	3353	1305	434	7024371	7032859	1	None	None
HG344_PATCH	ENO2	ENSG00000269528	ENST00000595907	retained_intron	KNOWN	None	3353	None	None	7026493	7027314	1	None	None
HG344_PATCH	ENO2	ENSG00000269528	ENST00000593874	nonsense_mediated_decay	KNOWN	None	3353	222	73	7028738	7031973	1	None	None
HG344_PATCH	ENO2	ENSG00000269528	ENST00000596533	protein_coding	PUTATIVE	None	3353	260	85	7030744	7032048	1	None	None
HG344_PATCH	ENO2	ENSG00000269528	ENST00000596201	processed_transcript	PUTATIVE	None	3353	None	None	7031152	7032081	1	None	None
HG344_PATCH	ATN1	ENSG00000268872	ENST00000594779	protein_coding	KNOWN	None	3033	3573	1190	7033626	7051484	1	D12S755E, DRPLA	B37
HG344_PATCH	ATN1	ENSG00000268872	ENST00000599184	protein_coding	KNOWN	None	3033	3573	1190	7037476	7051426	1	D12S755E, DRPLA	B37
HG344_PATCH	ATN1	ENSG00000268872	ENST00000600781	retained_intron	KNOWN	None	3033	None	None	7046861	7048128	1	D12S755E, DRPLA	B37
HG344_PATCH	ATN1	ENSG00000268872	ENST00000597728	retained_intron	KNOWN	None	3033	None	None	7048270	7051220	1	D12S755E, DRPLA	B37
HG344_PATCH	C12orf57	ENSG00000268123	ENST00000606433	retained_intron	KNOWN	None	29521	None	None	7052141	7054229	1	None	GRCC10, C10
HG344_PATCH	C12orf57	ENSG00000268123	ENST00000607693	processed_transcript	PUTATIVE	None	29521	None	None	7052596	7055166	1	None	GRCC10, C10
HG344_PATCH	C12orf57	ENSG00000268123	ENST00000606341	protein_coding	PUTATIVE	None	29521	380	125	7052665	7055084	1	None	GRCC10, C10
HG344_PATCH	C12orf57	ENSG00000268123	ENST00000605950	protein_coding	PUTATIVE	None	29521	312	103	7052980	7054261	1	None	GRCC10, C10
HG344_PATCH	C12orf57	ENSG00000268123	ENST00000607618	protein_coding	PUTATIVE	None	29521	294	97	7052997	7055165	1	None	GRCC10, C10
HG344_PATCH	C12orf57	ENSG00000268123	ENST00000597504	protein_coding	KNOWN	None	29521	381	126	7053186	7055165	1	None	GRCC10, C10
HG344_PATCH	C12orf57	ENSG00000268123	ENST00000607655	protein_coding	PUTATIVE	None	29521	276	91	7053285	7055159	1	None	GRCC10, C10
HG344_PATCH	None	ENSG00000272322	ENST00000606151	antisense	KNOWN	None	None	None	None	7052671	7053767	-1	None	None
HG344_PATCH	RNU7-1	ENSG00000269269	ENST00000595252	snRNA	KNOWN	None	34033	None	None	7052979	7053041	1	RNU7	U7.1
HG344_PATCH	PTPN6	ENSG00000268954	ENST00000601360	protein_coding	PUTATIVE	None	9658	392	129	7055631	7061343	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
HG344_PATCH	PTPN6	ENSG00000268954	ENST00000595104	nonsense_mediated_decay	KNOWN	None	9658	177	58	7055737	7064425	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
HG344_PATCH	PTPN6	ENSG00000268954	ENST00000600151	processed_transcript	PUTATIVE	None	9658	None	None	7055740	7064102	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
HG344_PATCH	PTPN6	ENSG00000268954	ENST00000595832	protein_coding	KNOWN	None	9658	1794	597	7055740	7070479	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
HG344_PATCH	PTPN6	ENSG00000268954	ENST00000601527	processed_transcript	KNOWN	None	9658	None	None	7055773	7064336	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
HG344_PATCH	PTPN6	ENSG00000268954	ENST00000599028	protein_coding	KNOWN	None	9658	1671	556	7055773	7070447	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
HG344_PATCH	PTPN6	ENSG00000268954	ENST00000598477	retained_intron	KNOWN	None	9658	None	None	7055873	7064430	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
HG344_PATCH	PTPN6	ENSG00000268954	ENST00000601126	protein_coding	PUTATIVE	None	9658	495	164	7060425	7064136	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
HG344_PATCH	PTPN6	ENSG00000268954	ENST00000595623	protein_coding	KNOWN	None	9658	1788	595	7060432	7070476	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
HG344_PATCH	PTPN6	ENSG00000268954	ENST00000594686	protein_coding	KNOWN	None	9658	1875	624	7060434	7070479	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
HG344_PATCH	PTPN6	ENSG00000268954	ENST00000596084	retained_intron	KNOWN	None	9658	None	None	7060448	7062578	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
HG344_PATCH	PTPN6	ENSG00000268954	ENST00000596748	processed_transcript	KNOWN	None	9658	None	None	7060519	7064010	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
HG344_PATCH	PTPN6	ENSG00000268954	ENST00000600446	retained_intron	KNOWN	None	9658	None	None	7060519	7070479	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
HG344_PATCH	PTPN6	ENSG00000268954	ENST00000597200	nonsense_mediated_decay	KNOWN	None	9658	219	72	7060535	7064648	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
HG344_PATCH	PTPN6	ENSG00000268954	ENST00000594402	retained_intron	KNOWN	None	9658	None	None	7060536	7061387	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
HG344_PATCH	PTPN6	ENSG00000268954	ENST00000595466	nonsense_mediated_decay	KNOWN	None	9658	183	60	7060536	7064078	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
HG344_PATCH	PTPN6	ENSG00000268954	ENST00000594603	protein_coding	PUTATIVE	None	9658	452	149	7060536	7064349	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
HG344_PATCH	PTPN6	ENSG00000268954	ENST00000593615	protein_coding	PUTATIVE	None	9658	432	143	7060538	7064352	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
HG344_PATCH	PTPN6	ENSG00000268954	ENST00000596654	processed_transcript	KNOWN	None	9658	None	None	7060598	7062764	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
HG344_PATCH	PTPN6	ENSG00000268954	ENST00000601810	nonsense_mediated_decay	KNOWN	None	9658	171	56	7060600	7064557	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
HG344_PATCH	PTPN6	ENSG00000268954	ENST00000600931	retained_intron	KNOWN	None	9658	None	None	7060604	7064648	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
HG344_PATCH	PTPN6	ENSG00000268954	ENST00000597701	processed_transcript	KNOWN	None	9658	None	None	7068485	7070479	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
HG344_PATCH	PTPN6	ENSG00000268954	ENST00000595340	retained_intron	KNOWN	None	9658	None	None	7068576	7069567	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
HG344_PATCH	PTPN6	ENSG00000268954	ENST00000600874	processed_transcript	KNOWN	None	9658	None	None	7068739	7070479	1	None	HCP, HCPH, PTP-1C, SHP-1, SHP1
HG344_PATCH	None	ENSG00000269851	ENST00000599381	lincRNA	KNOWN	None	None	None	None	7072409	7073610	1	None	None
HG344_PATCH	MIR200C	ENSG00000268594	ENST00000596734	miRNA	KNOWN	None	31580	None	None	7072862	7072929	1	MIRN200C	hsa-mir-200c
HG344_PATCH	MIR141	ENSG00000268031	ENST00000600363	miRNA	KNOWN	None	31528	None	None	7073260	7073354	1	MIRN141	hsa-mir-141
HG344_PATCH	None	ENSG00000272522	ENST00000606481	lincRNA	KNOWN	None	None	None	None	7074112	7074545	1	None	None
HG344_PATCH	PHB2	ENSG00000269079	ENST00000606478	retained_intron	KNOWN	None	30306	None	None	7074490	7076738	-1	None	REA, BCAP37, Bap37, p22
HG344_PATCH	PHB2	ENSG00000269079	ENST00000607871	retained_intron	KNOWN	None	30306	None	None	7074515	7079879	-1	None	REA, BCAP37, Bap37, p22
HG344_PATCH	PHB2	ENSG00000269079	ENST00000606655	protein_coding	PUTATIVE	None	30306	264	87	7074515	7079914	-1	None	REA, BCAP37, Bap37, p22
HG344_PATCH	PHB2	ENSG00000269079	ENST00000607454	protein_coding	KNOWN	None	30306	900	299	7074515	7079988	-1	None	REA, BCAP37, Bap37, p22
HG344_PATCH	PHB2	ENSG00000269079	ENST00000606736	protein_coding	NOVEL	None	30306	804	267	7074627	7079812	-1	None	REA, BCAP37, Bap37, p22
HG344_PATCH	PHB2	ENSG00000269079	ENST00000598395	protein_coding	KNOWN	None	30306	900	299	7074848	7079916	-1	None	REA, BCAP37, Bap37, p22
HG344_PATCH	PHB2	ENSG00000269079	ENST00000607236	protein_coding	KNOWN	None	30306	786	261	7074848	7079822	-1	None	REA, BCAP37, Bap37, p22
HG344_PATCH	PHB2	ENSG00000269079	ENST00000606344	protein_coding	NOVEL	None	30306	309	102	7075587	7077125	-1	None	REA, BCAP37, Bap37, p22
HG344_PATCH	PHB2	ENSG00000269079	ENST00000606490	protein_coding	PUTATIVE	None	30306	784	260	7076874	7079830	-1	None	REA, BCAP37, Bap37, p22
HG344_PATCH	PHB2	ENSG00000269079	ENST00000606925	nonsense_mediated_decay	KNOWN	None	30306	339	112	7076910	7079843	-1	None	REA, BCAP37, Bap37, p22
HG344_PATCH	PHB2	ENSG00000269079	ENST00000605960	protein_coding	NOVEL	None	30306	640	212	7077055	7079805	-1	None	REA, BCAP37, Bap37, p22
HG344_PATCH	PHB2	ENSG00000269079	ENST00000607570	processed_transcript	KNOWN	None	30306	None	None	7077614	7079808	-1	None	REA, BCAP37, Bap37, p22
HG344_PATCH	PHB2	ENSG00000269079	ENST00000607294	retained_intron	KNOWN	None	30306	None	None	7077661	7079808	-1	None	REA, BCAP37, Bap37, p22
HG344_PATCH	PHB2	ENSG00000269079	ENST00000605973	retained_intron	KNOWN	None	30306	None	None	7079091	7079865	-1	None	REA, BCAP37, Bap37, p22
HG344_PATCH	SCARNA12	ENSG00000267818	ENST00000594719	snoRNA	KNOWN	None	32569	None	None	7076500	7076769	-1	None	U89
HG344_PATCH	None	ENSG00000268439	ENST00000599672	protein_coding	KNOWN	None	None	735	244	7079944	7085166	1	None	None
HG344_PATCH	None	ENSG00000268829	ENST00000593628	protein_coding	KNOWN	None	None	1464	487	7085348	7127701	-1	None	None
HG344_PATCH	None	ENSG00000272187	ENST00000607402	lincRNA	KNOWN	None	None	None	None	7087684	7089104	1	None	None
HG344_PATCH	C1S	ENSG00000269882	ENST00000600933	protein_coding	KNOWN	None	1247	2067	688	7097422	7180195	1	None	None
HG344_PATCH	C1S	ENSG00000269882	ENST00000594877	protein_coding	KNOWN	None	1247	2067	688	7169678	7180195	1	None	None
HG344_PATCH	C1S	ENSG00000269882	ENST00000595575	protein_coding	KNOWN	None	1247	2067	688	7169839	7180106	1	None	None
HG344_PATCH	C1S	ENSG00000269882	ENST00000598620	protein_coding	NOVEL	None	1247	1566	521	7169848	7180123	1	None	None
HG344_PATCH	C1S	ENSG00000269882	ENST00000600780	retained_intron	KNOWN	None	1247	None	None	7169880	7171391	1	None	None
HG344_PATCH	C1S	ENSG00000269882	ENST00000597098	processed_transcript	KNOWN	None	1247	None	None	7169886	7174341	1	None	None
HG344_PATCH	C1S	ENSG00000269882	ENST00000593828	processed_transcript	PUTATIVE	None	1247	None	None	7169888	7171971	1	None	None
HG344_PATCH	C1S	ENSG00000269882	ENST00000602043	retained_intron	KNOWN	None	1247	None	None	7169907	7171971	1	None	None
HG344_PATCH	C1S	ENSG00000269882	ENST00000594871	protein_coding	KNOWN	None	1247	302	99	7170375	7172141	1	None	None
HG344_PATCH	C1S	ENSG00000269882	ENST00000600357	protein_coding	KNOWN	None	1247	309	102	7170375	7172148	1	None	None
HG344_PATCH	C1S	ENSG00000269882	ENST00000595846	protein_coding	KNOWN	None	1247	505	167	7170547	7173543	1	None	None
HG344_PATCH	C1S	ENSG00000269882	ENST00000599099	nonsense_mediated_decay	KNOWN	None	1247	1067	354	7171002	7180193	1	None	None
HG344_PATCH	C1S	ENSG00000269882	ENST00000598097	protein_coding	NOVEL	None	1247	471	156	7171746	7175781	1	None	None
HG344_PATCH	C1S	ENSG00000269882	ENST00000597511	retained_intron	KNOWN	None	1247	None	None	7173072	7175061	1	None	None
HG344_PATCH	C1S	ENSG00000269882	ENST00000594036	retained_intron	KNOWN	None	1247	None	None	7173341	7174575	1	None	None
HG344_PATCH	C1S	ENSG00000269882	ENST00000598986	retained_intron	KNOWN	None	1247	None	None	7174403	7175476	1	None	None
HG344_PATCH	C1S	ENSG00000269882	ENST00000599822	retained_intron	KNOWN	None	1247	None	None	7175355	7176825	1	None	None
HG344_PATCH	C1S	ENSG00000269882	ENST00000601425	retained_intron	KNOWN	None	1247	None	None	7175794	7179276	1	None	None
HG344_PATCH	C1S	ENSG00000269882	ENST00000597310	processed_transcript	KNOWN	None	1247	None	None	7176254	7179403	1	None	None
HG344_PATCH	C1S	ENSG00000269882	ENST00000598317	retained_intron	KNOWN	None	1247	None	None	7176558	7177693	1	None	None
HG344_PATCH	None	ENSG00000268048	ENST00000595037	processed_pseudogene	KNOWN	None	None	None	None	7141271	7141561	1	None	None
HG344_PATCH	None	ENSG00000269322	ENST00000602202	processed_pseudogene	KNOWN	None	None	None	None	7150319	7150804	-1	None	None
HG971_PATCH	None	ENSG00000269862	ENST00000600455	antisense	KNOWN	None	None	None	None	99497378	99649053	-1	None	None
HG971_PATCH	PGPEP1L	ENSG00000269733	ENST00000595289	protein_coding	PUTATIVE	None	27080	429	142	99511459	99551024	-1	None	None
HG971_PATCH	PGPEP1L	ENSG00000269733	ENST00000598847	protein_coding	KNOWN	None	27080	591	196	99511509	99548791	-1	None	None
HG971_PATCH	None	ENSG00000269283	ENST00000594047	protein_coding	KNOWN	None	None	3762	1253	99648309	99678794	1	None	None
HG971_PATCH	None	ENSG00000269174	ENST00000597789	antisense	KNOWN	None	None	None	None	99672061	99675035	-1	None	None
HG971_PATCH	TTC23	ENSG00000269714	ENST00000599189	nonsense_mediated_decay	KNOWN	None	25730	1182	393	99679552	99792747	-1	None	FLJ12572, HCC-8
HG971_PATCH	TTC23	ENSG00000269714	ENST00000596370	protein_coding	KNOWN	None	25730	1344	447	99679552	99792787	-1	None	FLJ12572, HCC-8
HG971_PATCH	TTC23	ENSG00000269714	ENST00000597233	protein_coding	KNOWN	None	25730	1344	447	99679552	99792839	-1	None	FLJ12572, HCC-8
HG971_PATCH	TTC23	ENSG00000269714	ENST00000599529	protein_coding	KNOWN	None	25730	1344	447	99679552	99792839	-1	None	FLJ12572, HCC-8
HG971_PATCH	TTC23	ENSG00000269714	ENST00000598575	protein_coding	KNOWN	None	25730	1344	447	99679552	99792839	-1	None	FLJ12572, HCC-8
HG971_PATCH	TTC23	ENSG00000269714	ENST00000601348	retained_intron	KNOWN	None	25730	None	None	99679635	99765093	-1	None	FLJ12572, HCC-8
HG971_PATCH	TTC23	ENSG00000269714	ENST00000598093	protein_coding	KNOWN	None	25730	1344	447	99680782	99794452	-1	None	FLJ12572, HCC-8
HG971_PATCH	TTC23	ENSG00000269714	ENST00000594236	protein_coding	KNOWN	None	25730	1344	447	99680805	99794452	-1	None	FLJ12572, HCC-8
HG971_PATCH	TTC23	ENSG00000269714	ENST00000595584	nonsense_mediated_decay	KNOWN	None	25730	220	72	99680869	99704976	-1	None	FLJ12572, HCC-8
HG971_PATCH	TTC23	ENSG00000269714	ENST00000599399	retained_intron	KNOWN	None	25730	None	None	99681082	99682971	-1	None	FLJ12572, HCC-8
HG971_PATCH	TTC23	ENSG00000269714	ENST00000598434	protein_coding	PUTATIVE	None	25730	790	262	99681171	99718349	-1	None	FLJ12572, HCC-8
HG971_PATCH	TTC23	ENSG00000269714	ENST00000597175	protein_coding	KNOWN	None	25730	1182	393	99682658	99792839	-1	None	FLJ12572, HCC-8
HG971_PATCH	TTC23	ENSG00000269714	ENST00000600849	processed_transcript	KNOWN	None	25730	None	None	99691741	99699508	-1	None	FLJ12572, HCC-8
HG971_PATCH	TTC23	ENSG00000269714	ENST00000595154	protein_coding	PUTATIVE	None	25730	1176	391	99698593	99794446	-1	None	FLJ12572, HCC-8
HG971_PATCH	TTC23	ENSG00000269714	ENST00000598966	protein_coding	KNOWN	None	25730	471	156	99761927	99794452	-1	None	FLJ12572, HCC-8
HG971_PATCH	TTC23	ENSG00000269714	ENST00000597402	protein_coding	KNOWN	None	25730	455	150	99762127	99794452	-1	None	FLJ12572, HCC-8
HG971_PATCH	TTC23	ENSG00000269714	ENST00000595480	protein_coding	KNOWN	None	25730	345	114	99762237	99792829	-1	None	FLJ12572, HCC-8
HG971_PATCH	TTC23	ENSG00000269714	ENST00000601002	protein_coding	KNOWN	None	25730	249	82	99765025	99792839	-1	None	FLJ12572, HCC-8
HG971_PATCH	TTC23	ENSG00000269714	ENST00000601734	retained_intron	KNOWN	None	25730	None	None	99771634	99792674	-1	None	FLJ12572, HCC-8
HG971_PATCH	TTC23	ENSG00000269714	ENST00000600881	protein_coding	KNOWN	None	25730	168	55	99771774	99792836	-1	None	FLJ12572, HCC-8
HG971_PATCH	TTC23	ENSG00000269714	ENST00000599068	protein_coding	KNOWN	None	25730	160	52	99771782	99792760	-1	None	FLJ12572, HCC-8
HG971_PATCH	TTC23	ENSG00000269714	ENST00000598077	processed_transcript	KNOWN	None	25730	None	None	99784616	99792787	-1	None	FLJ12572, HCC-8
HG971_PATCH	None	ENSG00000268741	ENST00000599656	antisense	KNOWN	None	None	None	None	99682546	99688599	1	None	None
HG1208_PATCH	KATNB1	ENSG00000268329	ENST00000594746	protein_coding	KNOWN	None	6217	1968	655	57769642	57791162	1	None	None
HG1208_PATCH	KATNB1	ENSG00000268329	ENST00000593929	protein_coding	KNOWN	None	6217	632	209	57769651	57785967	1	None	None
HG1208_PATCH	KATNB1	ENSG00000268329	ENST00000595872	protein_coding	PUTATIVE	None	6217	625	207	57769703	57785948	1	None	None
HG1208_PATCH	KATNB1	ENSG00000268329	ENST00000594584	retained_intron	KNOWN	None	6217	None	None	57769776	57790797	1	None	None
HG1208_PATCH	KATNB1	ENSG00000268329	ENST00000598173	protein_coding	KNOWN	None	6217	237	78	57770675	57778371	1	None	None
HG1208_PATCH	KATNB1	ENSG00000268329	ENST00000599447	protein_coding	NOVEL	None	6217	351	116	57770885	57785572	1	None	None
HG1208_PATCH	KATNB1	ENSG00000268329	ENST00000600715	retained_intron	KNOWN	None	6217	None	None	57771104	57786016	1	None	None
HG1208_PATCH	KATNB1	ENSG00000268329	ENST00000597041	protein_coding	NOVEL	None	6217	827	274	57787369	57790780	1	None	None
HG1208_PATCH	KATNB1	ENSG00000268329	ENST00000597819	retained_intron	KNOWN	None	6217	None	None	57789058	57790807	1	None	None
HG1208_PATCH	KATNB1	ENSG00000268329	ENST00000599071	retained_intron	KNOWN	None	6217	None	None	57789360	57790796	1	None	None
HG1208_PATCH	KIFC3	ENSG00000269180	ENST00000600009	protein_coding	KNOWN	None	6326	2064	687	57792129	57831676	-1	None	None
HG1208_PATCH	KIFC3	ENSG00000269180	ENST00000593285	protein_coding	KNOWN	None	6326	2502	833	57792129	57836500	-1	None	None
HG1208_PATCH	KIFC3	ENSG00000269180	ENST00000599270	protein_coding	KNOWN	None	6326	2481	826	57792131	57836425	-1	None	None
HG1208_PATCH	KIFC3	ENSG00000269180	ENST00000595197	protein_coding	PUTATIVE	None	6326	589	195	57792232	57794857	-1	None	None
HG1208_PATCH	KIFC3	ENSG00000269180	ENST00000597902	protein_coding	KNOWN	None	6326	2064	687	57792340	57831929	-1	None	None
HG1208_PATCH	KIFC3	ENSG00000269180	ENST00000595318	protein_coding	PUTATIVE	None	6326	2547	848	57792357	57836935	-1	None	None
HG1208_PATCH	KIFC3	ENSG00000269180	ENST00000593651	protein_coding	PUTATIVE	None	6326	2175	724	57792371	57809031	-1	None	None
HG1208_PATCH	KIFC3	ENSG00000269180	ENST00000595707	protein_coding	NOVEL	None	6326	2055	684	57792444	57816209	-1	None	None
HG1208_PATCH	KIFC3	ENSG00000269180	ENST00000601710	protein_coding	KNOWN	None	6326	2064	687	57792632	57816221	-1	None	None
HG1208_PATCH	KIFC3	ENSG00000269180	ENST00000594074	nonsense_mediated_decay	KNOWN	None	6326	1497	498	57792650	57816225	-1	None	None
HG1208_PATCH	KIFC3	ENSG00000269180	ENST00000600218	protein_coding	KNOWN	None	6326	2307	768	57792737	57831724	-1	None	None
HG1208_PATCH	KIFC3	ENSG00000269180	ENST00000597264	retained_intron	KNOWN	None	6326	None	None	57793350	57795173	-1	None	None
HG1208_PATCH	KIFC3	ENSG00000269180	ENST00000601516	protein_coding	PUTATIVE	None	6326	840	279	57793665	57798301	-1	None	None
HG1208_PATCH	KIFC3	ENSG00000269180	ENST00000595526	processed_transcript	KNOWN	None	6326	None	None	57796107	57799757	-1	None	None
HG1208_PATCH	KIFC3	ENSG00000269180	ENST00000593769	protein_coding	PUTATIVE	None	6326	442	146	57804519	57836846	-1	None	None
HG1208_PATCH	KIFC3	ENSG00000269180	ENST00000601866	protein_coding	PUTATIVE	None	6326	503	166	57805198	57832012	-1	None	None
HG1208_PATCH	KIFC3	ENSG00000269180	ENST00000596226	protein_coding	PUTATIVE	None	6326	312	103	57805236	57809031	-1	None	None
HG1208_PATCH	KIFC3	ENSG00000269180	ENST00000601446	protein_coding	PUTATIVE	None	6326	210	69	57805248	57836406	-1	None	None
HG1208_PATCH	KIFC3	ENSG00000269180	ENST00000597517	protein_coding	PUTATIVE	None	6326	181	59	57805277	57836361	-1	None	None
HG1208_PATCH	KIFC3	ENSG00000269180	ENST00000594611	protein_coding	PUTATIVE	None	6326	178	58	57805280	57837165	-1	None	None
HG1208_PATCH	KIFC3	ENSG00000269180	ENST00000600014	processed_transcript	KNOWN	None	6326	None	None	57805472	57837207	-1	None	None
HG1208_PATCH	KIFC3	ENSG00000269180	ENST00000596120	protein_coding	PUTATIVE	None	6326	572	189	57805492	57837334	-1	None	None
HG1208_PATCH	KIFC3	ENSG00000269180	ENST00000601831	protein_coding	PUTATIVE	None	6326	264	87	57805542	57831724	-1	None	None
HG1208_PATCH	KIFC3	ENSG00000269180	ENST00000599075	protein_coding	KNOWN	None	6326	15	4	57805548	57813452	-1	None	None
HG1208_PATCH	KIFC3	ENSG00000269180	ENST00000593819	protein_coding	PUTATIVE	None	6326	15	4	57805548	57816241	-1	None	None
HG1208_PATCH	KIFC3	ENSG00000269180	ENST00000601512	processed_transcript	KNOWN	None	6326	None	None	57805573	57831824	-1	None	None
HG1208_PATCH	KIFC3	ENSG00000269180	ENST00000600167	protein_coding	KNOWN	None	6326	397	131	57805583	57880447	-1	None	None
HG1208_PATCH	KIFC3	ENSG00000269180	ENST00000595512	retained_intron	KNOWN	None	6326	None	None	57807720	57808988	-1	None	None
HG1208_PATCH	KIFC3	ENSG00000269180	ENST00000596077	processed_transcript	PUTATIVE	None	6326	None	None	57810534	57816215	-1	None	None
HG1208_PATCH	KIFC3	ENSG00000269180	ENST00000593951	processed_transcript	PUTATIVE	None	6326	None	None	57813802	57816281	-1	None	None
HG1208_PATCH	KIFC3	ENSG00000269180	ENST00000596489	retained_intron	KNOWN	None	6326	None	None	57819310	57836382	-1	None	None
HG1208_PATCH	KIFC3	ENSG00000269180	ENST00000597883	protein_coding	PUTATIVE	None	6326	497	164	57822510	57836936	-1	None	None
HG1208_PATCH	KIFC3	ENSG00000269180	ENST00000599434	protein_coding	PUTATIVE	None	6326	464	153	57828909	57896965	-1	None	None
HG1208_PATCH	KIFC3	ENSG00000269180	ENST00000595859	protein_coding	KNOWN	None	6326	315	104	57828911	57837165	-1	None	None
HG1208_PATCH	KIFC3	ENSG00000269180	ENST00000602103	processed_transcript	PUTATIVE	None	6326	None	None	57828975	57837159	-1	None	None
HG1208_PATCH	None	ENSG00000270675	ENST00000603733	protein_coding	KNOWN	None	None	690	229	57847692	57850839	1	None	None
HG1208_PATCH	RNU6-20P	ENSG00000269214	ENST00000600798	snRNA	KNOWN	None	34264	None	None	57864448	57864554	-1	RNU6-20	None
HG417_PATCH	None	ENSG00000268320	ENST00000595228	protein_coding	KNOWN	None	None	288	95	77571	79067	1	None	None
HG417_PATCH	None	ENSG00000269234	ENST00000596893	miRNA	NOVEL	None	None	None	None	95168	95255	-1	None	None
HG417_PATCH	DOC2B	ENSG00000268429	ENST00000595924	protein_coding	KNOWN	None	2986	927	308	96017	121634	-1	DOC2BL	None
HG417_PATCH	DOC2B	ENSG00000268429	ENST00000602154	processed_transcript	KNOWN	None	2986	None	None	103538	121168	-1	DOC2BL	None
HG417_PATCH	None	ENSG00000267805	ENST00000593566	lincRNA	KNOWN	None	None	None	None	123822	131585	-1	None	None
HG417_PATCH	RPH3AL	ENSG00000268693	ENST00000596450	protein_coding	KNOWN	None	10296	948	315	152500	292805	-1	None	Noc2
HG417_PATCH	RPH3AL	ENSG00000268693	ENST00000594863	protein_coding	KNOWN	None	10296	861	286	152500	293095	-1	None	Noc2
HG417_PATCH	RPH3AL	ENSG00000268693	ENST00000595996	retained_intron	KNOWN	None	10296	None	None	153322	155931	-1	None	Noc2
HG417_PATCH	RPH3AL	ENSG00000268693	ENST00000597943	protein_coding	KNOWN	None	10296	861	286	153643	292840	-1	None	Noc2
HG417_PATCH	RPH3AL	ENSG00000268693	ENST00000601473	processed_transcript	KNOWN	None	10296	None	None	153802	174583	-1	None	Noc2
HG417_PATCH	RPH3AL	ENSG00000268693	ENST00000594970	processed_transcript	KNOWN	None	10296	None	None	153822	187685	-1	None	Noc2
HG417_PATCH	RPH3AL	ENSG00000268693	ENST00000594873	processed_transcript	KNOWN	None	10296	None	None	154700	259478	-1	None	Noc2
HG417_PATCH	RPH3AL	ENSG00000268693	ENST00000595244	processed_transcript	KNOWN	None	10296	None	None	159695	246679	-1	None	Noc2
HG417_PATCH	RPH3AL	ENSG00000268693	ENST00000598596	protein_coding	KNOWN	None	10296	604	200	187118	279043	-1	None	Noc2
HG417_PATCH	RPH3AL	ENSG00000268693	ENST00000601952	protein_coding	KNOWN	None	10296	580	192	187142	292788	-1	None	Noc2
HG417_PATCH	RPH3AL	ENSG00000268693	ENST00000597860	protein_coding	KNOWN	None	10296	446	147	187189	271025	-1	None	Noc2
HG417_PATCH	RPH3AL	ENSG00000268693	ENST00000597289	protein_coding	KNOWN	None	10296	457	151	187265	279109	-1	None	Noc2
HG417_PATCH	RPH3AL	ENSG00000268693	ENST00000593451	protein_coding	PUTATIVE	None	10296	474	157	201687	267529	-1	None	Noc2
HG417_PATCH	RPH3AL	ENSG00000268693	ENST00000599161	protein_coding	KNOWN	None	10296	437	144	221767	326252	-1	None	Noc2
HG417_PATCH	RPH3AL	ENSG00000268693	ENST00000599820	protein_coding	KNOWN	None	10296	378	125	221826	279657	-1	None	Noc2
HG417_PATCH	RPH3AL	ENSG00000268693	ENST00000601314	protein_coding	KNOWN	None	10296	330	109	259439	326231	-1	None	Noc2
HG417_PATCH	RPH3AL	ENSG00000268693	ENST00000601741	protein_coding	KNOWN	None	10296	264	87	259505	281421	-1	None	Noc2
HG417_PATCH	RPH3AL	ENSG00000268693	ENST00000601954	protein_coding	KNOWN	None	10296	249	82	259520	274064	-1	None	Noc2
HG417_PATCH	RPH3AL	ENSG00000268693	ENST00000595249	protein_coding	KNOWN	None	10296	113	36	261378	278871	-1	None	Noc2
HG417_PATCH	RPH3AL	ENSG00000268693	ENST00000600759	processed_transcript	PUTATIVE	None	10296	None	None	273204	276020	-1	None	Noc2
HG417_PATCH	RPH3AL	ENSG00000268693	ENST00000596441	processed_transcript	PUTATIVE	None	10296	None	None	288908	292799	-1	None	Noc2
HG417_PATCH	None	ENSG00000267917	ENST00000597956	antisense	KNOWN	None	None	None	None	261390	262451	1	None	None
HG417_PATCH	None	ENSG00000267917	ENST00000597617	antisense	KNOWN	None	None	None	None	261515	262451	1	None	None
HG417_PATCH	None	ENSG00000268586	ENST00000596475	antisense	KNOWN	None	None	None	None	271203	273486	1	None	None
HG417_PATCH	None	ENSG00000268586	ENST00000595606	retained_intron	KNOWN	None	None	None	None	271232	273483	1	None	None
HG417_PATCH	None	ENSG00000268586	ENST00000599489	retained_intron	KNOWN	None	None	None	None	271513	272149	1	None	None
HG417_PATCH	None	ENSG00000268586	ENST00000601014	antisense	KNOWN	None	None	None	None	272140	273442	1	None	None
HG417_PATCH	None	ENSG00000268306	ENST00000599542	antisense	KNOWN	None	None	None	None	292636	297579	1	None	None
HG417_PATCH	None	ENSG00000268346	ENST00000595752	antisense	KNOWN	None	None	None	None	294735	296880	1	None	None
HG1146_PATCH	RPS26P8	ENSG00000267930	ENST00000595650	processed_pseudogene	KNOWN	None	31329	None	None	43759014	43759454	-1	None	None
HG1146_PATCH	RPS26P8	ENSG00000267930	ENST00000596871	processed_pseudogene	KNOWN	None	31329	None	None	43759079	43759426	-1	None	None
HG1146_PATCH	None	ENSG00000268284	ENST00000598176	processed_pseudogene	KNOWN	None	None	None	None	43765668	43767139	1	None	None
HG1146_PATCH	None	ENSG00000268986	ENST00000600754	pseudogene	NOVEL	None	None	None	None	43781090	43782161	-1	None	None
HG1146_PATCH	None	ENSG00000267803	ENST00000600300	pseudogene	NOVEL	None	None	None	None	43846595	43847666	1	None	None
HG1146_PATCH	None	ENSG00000269703	ENST00000599974	protein_coding	KNOWN	None	None	348	115	43907914	43908327	1	None	None
HG1146_PATCH	None	ENSG00000269525	ENST00000597079	protein_coding	NOVEL	None	None	147	48	43920023	43920169	1	None	None
HG1146_PATCH	None	ENSG00000269854	ENST00000596359	misc_RNA	NOVEL	None	None	None	None	43929900	43930001	1	None	None
HG1146_PATCH	None	ENSG00000269314	ENST00000599894	protein_coding	NOVEL	None	None	177	58	43954674	43955041	-1	None	None
HG1146_PATCH	None	ENSG00000269513	ENST00000594048	pseudogene	KNOWN	None	None	None	None	44039070	44041322	1	None	None
HG1146_PATCH	None	ENSG00000267945	ENST00000600279	pseudogene	NOVEL	None	None	None	None	44054525	44055596	-1	None	None
HG1146_PATCH	None	ENSG00000269687	ENST00000597300	unprocessed_pseudogene	KNOWN	None	None	None	None	44069223	44074616	1	None	None
HG1146_PATCH	None	ENSG00000269394	ENST00000600122	protein_coding	NOVEL	None	None	4812	1603	44077977	44115835	1	None	None
HG1146_PATCH	None	ENSG00000269394	ENST00000605181	protein_coding	NOVEL	None	None	1929	642	44105409	44115835	1	None	None
HG1146_PATCH	None	ENSG00000269394	ENST00000603969	protein_coding	NOVEL	None	None	2175	724	44080415	44115803	1	None	None
HG1146_PATCH	RN7SL199P	ENSG00000268150	ENST00000597223	misc_RNA	KNOWN	None	46215	None	None	44102810	44103090	1	None	None
HG144_PATCH	DLGAP4	ENSG00000269562	ENST00000594949	protein_coding	KNOWN	None	24476	2970	989	34894258	35116559	1	None	DAP4, KIAA0964, SAPAP4
HG144_PATCH	DLGAP4	ENSG00000269562	ENST00000597268	protein_coding	KNOWN	None	24476	2970	989	34954963	35116557	1	None	DAP4, KIAA0964, SAPAP4
HG144_PATCH	DLGAP4	ENSG00000269562	ENST00000595745	protein_coding	KNOWN	None	24476	2979	992	34955071	35115112	1	None	DAP4, KIAA0964, SAPAP4
HG144_PATCH	DLGAP4	ENSG00000269562	ENST00000598628	protein_coding	KNOWN	None	24476	2979	992	35019640	35116557	1	None	DAP4, KIAA0964, SAPAP4
HG144_PATCH	DLGAP4	ENSG00000269562	ENST00000594096	processed_transcript	KNOWN	None	24476	None	None	35049260	35116559	1	None	DAP4, KIAA0964, SAPAP4
HG144_PATCH	DLGAP4	ENSG00000269562	ENST00000594121	processed_transcript	KNOWN	None	24476	None	None	35049390	35088282	1	None	DAP4, KIAA0964, SAPAP4
HG144_PATCH	DLGAP4	ENSG00000269562	ENST00000596932	processed_transcript	KNOWN	None	24476	None	None	35049400	35088519	1	None	DAP4, KIAA0964, SAPAP4
HG144_PATCH	DLGAP4	ENSG00000269562	ENST00000595663	processed_transcript	KNOWN	None	24476	None	None	35049402	35087239	1	None	DAP4, KIAA0964, SAPAP4
HG144_PATCH	DLGAP4	ENSG00000269562	ENST00000594356	processed_transcript	KNOWN	None	24476	None	None	35049414	35088125	1	None	DAP4, KIAA0964, SAPAP4
HG144_PATCH	DLGAP4	ENSG00000269562	ENST00000596880	protein_coding	KNOWN	None	24476	1362	453	35049669	35115161	1	None	DAP4, KIAA0964, SAPAP4
HG144_PATCH	DLGAP4	ENSG00000269562	ENST00000600769	processed_transcript	KNOWN	None	24476	None	None	35061041	35088192	1	None	DAP4, KIAA0964, SAPAP4
HG144_PATCH	DLGAP4	ENSG00000269562	ENST00000595778	nonsense_mediated_decay	KNOWN	None	24476	735	244	35080305	35115153	1	None	DAP4, KIAA0964, SAPAP4
HG144_PATCH	DLGAP4	ENSG00000269562	ENST00000597176	processed_transcript	KNOWN	None	24476	None	None	35084917	35088449	1	None	DAP4, KIAA0964, SAPAP4
HG144_PATCH	DLGAP4	ENSG00000269562	ENST00000599204	retained_intron	KNOWN	None	24476	None	None	35085739	35115153	1	None	DAP4, KIAA0964, SAPAP4
HG144_PATCH	DLGAP4	ENSG00000269562	ENST00000596347	processed_transcript	KNOWN	None	24476	None	None	35088119	35114769	1	None	DAP4, KIAA0964, SAPAP4
HG144_PATCH	DLGAP4	ENSG00000269562	ENST00000483381	processed_transcript	KNOWN	None	24476	None	None	35112248	35114981	1	None	DAP4, KIAA0964, SAPAP4
HG506_HG507_HG1000_PATCH	GATA5	ENSG00000261345	ENST00000567532	protein_coding	KNOWN	None	15802	1194	397	61038553	61051026	-1	None	bB379O24.1, GATAS
HG506_HG507_HG1000_PATCH	None	ENSG00000272470	ENST00000606033	lincRNA	KNOWN	None	None	None	None	61052926	61053650	1	None	None
HG506_HG507_HG1000_PATCH	None	ENSG00000262780	ENST00000573473	lincRNA	KNOWN	None	None	None	None	61088965	61091152	-1	None	None
HG506_HG507_HG1000_PATCH	C20orf166-AS1	ENSG00000259988	ENST00000563409	antisense	KNOWN	None	26393	None	None	61119399	61126582	-1	C20orf200, NCRNA00335	FLJ30313
HG506_HG507_HG1000_PATCH	C20orf166-AS1	ENSG00000259988	ENST00000566771	antisense	KNOWN	None	26393	None	None	61119603	61126580	-1	C20orf200, NCRNA00335	FLJ30313
HG506_HG507_HG1000_PATCH	C20orf166-AS1	ENSG00000259988	ENST00000566212	antisense	KNOWN	None	26393	None	None	61121870	61126567	-1	C20orf200, NCRNA00335	FLJ30313
HG506_HG507_HG1000_PATCH	C20orf166	ENSG00000272032	ENST00000607653	protein_coding	KNOWN	None	16159	354	117	61125509	61145820	1	None	dJ353C17.1
HG506_HG507_HG1000_PATCH	C20orf166	ENSG00000272032	ENST00000606800	protein_coding	KNOWN	None	16159	300	99	61125509	61145819	1	None	dJ353C17.1
HG506_HG507_HG1000_PATCH	C20orf166	ENSG00000272032	ENST00000606268	protein_coding	PUTATIVE	None	16159	300	99	61128617	61145820	1	None	dJ353C17.1
HG506_HG507_HG1000_PATCH	MIR1-1	ENSG00000261850	ENST00000576326	miRNA	KNOWN	None	31499	None	None	61129359	61129435	1	MIRN1-1	hsa-mir-1-1
HG506_HG507_HG1000_PATCH	MIR133A2	ENSG00000265022	ENST00000581162	miRNA	KNOWN	None	31518	None	None	61139968	61140069	1	MIRN133A2	hsa-mir-133a-2
HG506_HG507_HG1000_PATCH	RPL7P3	ENSG00000259927	ENST00000561939	processed_pseudogene	KNOWN	None	16566	None	None	61147727	61148440	1	None	dJ353C17.2
HG506_HG507_HG1000_PATCH	None	ENSG00000263273	ENST00000571866	lincRNA	KNOWN	None	None	None	None	61150646	61152563	1	None	None
HG506_HG507_HG1000_PATCH	None	ENSG00000263273	ENST00000601182	lincRNA	KNOWN	None	None	None	None	61150653	61152369	1	None	None
HG506_HG507_HG1000_PATCH	None	ENSG00000260888	ENST00000569029	antisense	KNOWN	None	None	None	None	61208737	61210560	-1	None	None
HG506_HG507_HG1000_PATCH	None	ENSG00000260775	ENST00000570100	antisense	KNOWN	None	None	None	None	61208828	61210918	1	None	None
HG1487_PATCH	None	ENSG00000269856	ENST00000597242	lincRNA	KNOWN	None	None	None	None	16095340	16096419	1	None	None
HG1487_PATCH	None	ENSG00000268753	ENST00000594487	unprocessed_pseudogene	KNOWN	None	None	None	None	16109235	16109355	-1	None	None
HG1487_PATCH	None	ENSG00000267949	ENST00000551924	unprocessed_pseudogene	KNOWN	None	None	None	None	16117432	16118009	-1	None	None
HG1486_PATCH	None	ENSG00000269731	ENST00000597090	unprocessed_pseudogene	KNOWN	None	None	None	None	16680767	16687245	-1	None	None
HG1486_PATCH	None	ENSG00000268486	ENST00000594133	protein_coding	KNOWN	None	None	756	251	16699848	16713306	-1	None	None
HG1488_PATCH	ABCD1P4	ENSG00000268183	ENST00000601254	unprocessed_pseudogene	KNOWN	None	65	None	None	16904970	16908163	1	None	None
HG329_PATCH	GSC2	ENSG00000267876	ENST00000595458	protein_coding	KNOWN	None	4613	618	205	19136089	19137796	-1	GSCL	None
HG329_PATCH	None	ENSG00000268587	ENST00000594705	antisense	KNOWN	None	None	None	None	19158908	19160345	1	None	None
HG329_PATCH	SLC25A1	ENSG00000268928	ENST00000598008	protein_coding	KNOWN	None	10979	936	311	19163095	19166343	-1	SLC20A3	CTP
HG329_PATCH	SLC25A1	ENSG00000268928	ENST00000599882	protein_coding	PUTATIVE	None	10979	627	208	19163106	19166034	-1	SLC20A3	CTP
HG329_PATCH	SLC25A1	ENSG00000268928	ENST00000601910	retained_intron	KNOWN	None	10979	None	None	19163123	19166252	-1	SLC20A3	CTP
HG329_PATCH	SLC25A1	ENSG00000268928	ENST00000594354	processed_transcript	PUTATIVE	None	10979	None	None	19164180	19165993	-1	SLC20A3	CTP
HG329_PATCH	SLC25A1	ENSG00000268928	ENST00000601823	processed_transcript	PUTATIVE	None	10979	None	None	19165503	19166148	-1	SLC20A3	CTP
HG329_PATCH	None	ENSG00000269216	ENST00000603372	protein_coding	NOVEL	None	None	507	168	19167297	19263423	-1	None	None
HG329_PATCH	None	ENSG00000269216	ENST00000599495	protein_coding	NOVEL	None	None	4923	1640	19166989	19263423	-1	None	None
HG329_PATCH	None	ENSG00000269216	ENST00000596325	protein_coding	NOVEL	None	None	4923	1640	19166989	19279229	-1	None	None
HG329_PATCH	None	ENSG00000269212	ENST00000598528	processed_pseudogene	KNOWN	None	None	None	None	19225956	19226252	-1	None	None
HG329_PATCH	None	ENSG00000268890	ENST00000599341	snoRNA	NOVEL	None	None	None	None	19237386	19237479	1	None	None
HG329_PATCH	KRT18P62	ENSG00000268638	ENST00000594775	processed_pseudogene	KNOWN	None	48889	None	None	19245033	19246319	1	None	None
HG329_PATCH	HIRA	ENSG00000268569	ENST00000593536	protein_coding	KNOWN	None	4916	2433	810	19318211	19419209	-1	TUPLE1	DGCR1, TUP1
HG329_PATCH	HIRA	ENSG00000268569	ENST00000599450	protein_coding	KNOWN	None	4916	3054	1017	19318211	19419246	-1	TUPLE1	DGCR1, TUP1
HG329_PATCH	HIRA	ENSG00000268569	ENST00000595426	protein_coding	KNOWN	None	4916	2922	973	19318571	19435214	-1	TUPLE1	DGCR1, TUP1
HG329_PATCH	HIRA	ENSG00000268569	ENST00000594867	protein_coding	KNOWN	None	4916	2421	806	19338881	19435204	-1	TUPLE1	DGCR1, TUP1
HG329_PATCH	HIRA	ENSG00000268569	ENST00000593304	processed_transcript	PUTATIVE	None	4916	None	None	19385574	19417776	-1	TUPLE1	DGCR1, TUP1
HG329_PATCH	HIRA	ENSG00000268569	ENST00000596896	nonsense_mediated_decay	KNOWN	None	4916	160	52	19385581	19434963	-1	TUPLE1	DGCR1, TUP1
HG329_PATCH	C22orf39	ENSG00000269301	ENST00000598208	nonsense_mediated_decay	KNOWN	None	27012	279	92	19338881	19435204	-1	None	MGC74441
HG329_PATCH	C22orf39	ENSG00000269301	ENST00000599037	protein_coding	PUTATIVE	None	27012	243	80	19428399	19435205	-1	None	MGC74441
HG329_PATCH	C22orf39	ENSG00000269301	ENST00000596465	protein_coding	KNOWN	None	27012	354	117	19428421	19435745	-1	None	MGC74441
HG329_PATCH	C22orf39	ENSG00000269301	ENST00000594106	protein_coding	KNOWN	None	27012	318	105	19430663	19435745	-1	None	MGC74441
HG329_PATCH	C22orf39	ENSG00000269301	ENST00000598767	protein_coding	KNOWN	None	27012	429	142	19430884	19435745	-1	None	MGC74441
HG497_PATCH	None	ENSG00000267966	ENST00000601819	processed_transcript	KNOWN	None	None	None	None	51195376	51227614	1	None	None
HG497_PATCH	None	ENSG00000267966	ENST00000600385	processed_transcript	PUTATIVE	None	None	None	None	51221682	51237733	1	None	None
HG497_PATCH	None	ENSG00000267966	ENST00000598844	processed_transcript	KNOWN	None	None	None	None	51222185	51237862	1	None	None
HG497_PATCH	None	ENSG00000267966	ENST00000597890	processed_transcript	PUTATIVE	None	None	None	None	51222203	51227382	1	None	None
HG497_PATCH	None	ENSG00000267966	ENST00000601035	processed_transcript	KNOWN	None	None	None	None	51222225	51227781	1	None	None
HG497_PATCH	None	ENSG00000267966	ENST00000595106	processed_transcript	KNOWN	None	None	None	None	51222240	51227600	1	None	None
HG497_PATCH	None	ENSG00000267966	ENST00000596444	processed_transcript	KNOWN	None	None	None	None	51222290	51239737	1	None	None
HG497_PATCH	None	ENSG00000267966	ENST00000602266	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	51237083	51237551	1	None	None
HG497_PATCH	RABL2B	ENSG00000269671	ENST00000598380	protein_coding	KNOWN	None	9800	687	228	51205929	51222090	-1	None	None
HG497_PATCH	RABL2B	ENSG00000269671	ENST00000599205	protein_coding	KNOWN	None	9800	690	229	51205932	51222049	-1	None	None
HG497_PATCH	RABL2B	ENSG00000269671	ENST00000596004	nonsense_mediated_decay	KNOWN	None	9800	306	101	51205934	51220742	-1	None	None
HG497_PATCH	RABL2B	ENSG00000269671	ENST00000599617	protein_coding	NOVEL	None	9800	717	238	51205934	51222070	-1	None	None
HG497_PATCH	RABL2B	ENSG00000269671	ENST00000595999	protein_coding	KNOWN	None	9800	687	228	51205934	51222087	-1	None	None
HG497_PATCH	RABL2B	ENSG00000269671	ENST00000594429	protein_coding	NOVEL	None	9800	498	165	51205934	51222090	-1	None	None
HG497_PATCH	RABL2B	ENSG00000269671	ENST00000594223	protein_coding	KNOWN	None	9800	690	229	51205934	51222091	-1	None	None
HG497_PATCH	RABL2B	ENSG00000269671	ENST00000597825	processed_transcript	KNOWN	None	9800	None	None	51205937	51208930	-1	None	None
HG497_PATCH	RABL2B	ENSG00000269671	ENST00000599992	nonsense_mediated_decay	KNOWN	None	9800	306	101	51205958	51222066	-1	None	None
HG497_PATCH	RABL2B	ENSG00000269671	ENST00000597443	retained_intron	KNOWN	None	9800	None	None	51207955	51214261	-1	None	None
HG497_PATCH	RABL2B	ENSG00000269671	ENST00000596397	retained_intron	KNOWN	None	9800	None	None	51208210	51221714	-1	None	None
HG497_PATCH	RABL2B	ENSG00000269671	ENST00000596737	protein_coding	PUTATIVE	None	9800	300	99	51209638	51222058	-1	None	None
HG497_PATCH	RABL2B	ENSG00000269671	ENST00000598784	nonsense_mediated_decay	KNOWN	None	9800	120	39	51214199	51222028	-1	None	None
HG497_PATCH	RABL2B	ENSG00000269671	ENST00000595276	retained_intron	KNOWN	None	9800	None	None	51216088	51222058	-1	None	None
HG497_PATCH	RABL2B	ENSG00000269671	ENST00000596639	protein_coding	KNOWN	None	9800	61	19	51220662	51221473	-1	None	None
HG1423_PATCH	HMGB1P16	ENSG00000267928	ENST00000597516	processed_pseudogene	KNOWN	None	39098	None	None	36229213	36229752	1	None	None
HG1423_PATCH	CXorf30	ENSG00000268212	ENST00000594014	protein_coding	KNOWN	None	27298	2757	918	36246735	36403180	1	None	None
HG1423_PATCH	CXorf30	ENSG00000268212	ENST00000602218	protein_coding	KNOWN	None	27298	1902	633	36254051	36403433	1	None	None
HG1423_PATCH	CXorf30	ENSG00000268212	ENST00000600025	protein_coding	KNOWN	None	27298	543	180	36379443	36397920	1	None	None
HG1423_PATCH	RPS15AP40	ENSG00000269453	ENST00000593898	processed_pseudogene	KNOWN	None	36041	None	None	36392910	36393300	-1	None	None
HG1423_PATCH	None	ENSG00000269351	ENST00000595938	miRNA	NOVEL	None	None	None	None	36595513	36595608	1	None	None
HG1423_PATCH	None	ENSG00000268258	ENST00000598521	processed_pseudogene	KNOWN	None	None	None	None	36738035	36738338	1	None	None
HG1423_PATCH	None	ENSG00000269062	ENST00000600717	unprocessed_pseudogene	KNOWN	None	None	None	None	36976030	36976256	1	None	None
HG1423_PATCH	None	ENSG00000268867	ENST00000601591	processed_pseudogene	KNOWN	None	None	None	None	36980313	36981542	-1	None	None
HG1423_PATCH	None	ENSG00000268502	ENST00000601690	unprocessed_pseudogene	KNOWN	None	None	None	None	37003640	37004210	-1	None	None
HG1423_PATCH	FAM47C	ENSG00000269230	ENST00000600958	protein_coding	KNOWN	None	25301	3108	1035	37026476	37029783	1	None	None
HG1423_PATCH	FTH1P18	ENSG00000268451	ENST00000598470	unprocessed_pseudogene	KNOWN	None	3988	None	None	37061140	37061688	-1	FTHL18	None
HG1423_PATCH	FTH1P18	ENSG00000268451	ENST00000597677	unprocessed_pseudogene	KNOWN	None	3988	None	None	37061140	37061694	-1	FTHL18	None
HG1423_PATCH	None	ENSG00000269664	ENST00000594832	unprocessed_pseudogene	KNOWN	None	None	None	None	37095968	37096518	-1	None	None
HG1424_PATCH	MOB1AP2	ENSG00000269348	ENST00000600185	processed_pseudogene	KNOWN	None	42639	None	None	37151230	37152289	1	MOBKL1BP2	None
HG1424_PATCH	PRRG1	ENSG00000268431	ENST00000593312	protein_coding	KNOWN	None	9469	657	218	37209337	37317357	1	None	PRGP1
HG1424_PATCH	PRRG1	ENSG00000268431	ENST00000599887	processed_transcript	KNOWN	None	9469	None	None	37209371	37313709	1	None	PRGP1
HG1424_PATCH	PRRG1	ENSG00000268431	ENST00000599066	protein_coding	KNOWN	None	9469	447	148	37209392	37313473	1	None	PRGP1
HG1424_PATCH	PRRG1	ENSG00000268431	ENST00000593805	protein_coding	KNOWN	None	9469	657	218	37209392	37317354	1	None	PRGP1
HG1424_PATCH	PRRG1	ENSG00000268431	ENST00000600043	protein_coding	KNOWN	None	9469	657	218	37209392	37317354	1	None	PRGP1
HG1424_PATCH	PRRG1	ENSG00000268431	ENST00000600993	protein_coding	KNOWN	None	9469	344	113	37209426	37313370	1	None	PRGP1
HG1424_PATCH	PRRG1	ENSG00000268431	ENST00000597842	protein_coding	KNOWN	None	9469	657	218	37209434	37317351	1	None	PRGP1
HG1424_PATCH	PRRG1	ENSG00000268431	ENST00000594336	protein_coding	PUTATIVE	None	9469	249	82	37209441	37302286	1	None	PRGP1
HG1424_PATCH	PRRG1	ENSG00000268431	ENST00000593443	retained_intron	KNOWN	None	9469	None	None	37285814	37313708	1	None	PRGP1
HG1424_PATCH	None	ENSG00000269550	ENST00000596599	protein_coding	PUTATIVE	None	None	840	279	37209392	38547737	1	None	None
HG1424_PATCH	None	ENSG00000268169	ENST00000594789	unprocessed_pseudogene	KNOWN	None	None	None	None	37301585	37302130	1	None	None
HG1424_PATCH	FTH1P19	ENSG00000267902	ENST00000595768	unprocessed_pseudogene	KNOWN	None	33525	None	None	37352083	37352610	1	FTHL19	None
HG1424_PATCH	FTH1P27	ENSG00000269704	ENST00000594547	unprocessed_pseudogene	KNOWN	None	39091	None	None	37365372	37365922	1	None	None
HG1424_PATCH	FAM47DP	ENSG00000268437	ENST00000600488	processed_pseudogene	KNOWN	None	34342	None	None	37401139	37405324	-1	None	None
HG1424_PATCH	LANCL3	ENSG00000269670	ENST00000600106	protein_coding	KNOWN	None	24767	1167	388	37431631	37544525	1	None	FLJ42925
HG1424_PATCH	LANCL3	ENSG00000269670	ENST00000600316	protein_coding	KNOWN	None	24767	1263	420	37431714	37537456	1	None	FLJ42925
HG1424_PATCH	None	ENSG00000272185	ENST00000606137	protein_coding	KNOWN	None	None	420	139	37479778	37487256	1	None	None
HG1424_PATCH	XK	ENSG00000269380	ENST00000601300	protein_coding	KNOWN	None	12811	1335	444	37545821	37592192	1	None	XKR1, Kx, X1k
HG1424_PATCH	CYBB	ENSG00000268765	ENST00000596392	protein_coding	KNOWN	None	2578	1713	570	37640073	37673523	1	CGD	GP91-PHOX, NOX2
HG1424_PATCH	CYBB	ENSG00000268765	ENST00000600599	protein_coding	KNOWN	None	2578	1617	538	37640121	37671165	1	CGD	GP91-PHOX, NOX2
HG1424_PATCH	CYBB	ENSG00000268765	ENST00000602259	protein_coding	KNOWN	None	2578	912	303	37640126	37671197	1	CGD	GP91-PHOX, NOX2
HG1424_PATCH	CYBB	ENSG00000268765	ENST00000598533	processed_transcript	KNOWN	None	2578	None	None	37658282	37664141	1	CGD	GP91-PHOX, NOX2
HG1435_PATCH	None	ENSG00000268420	ENST00000599331	processed_pseudogene	KNOWN	None	None	None	None	45589997	45590933	1	None	None
HG1435_PATCH	None	ENSG00000270080	ENST00000602527	lincRNA	KNOWN	None	None	None	None	45604456	45629519	-1	None	None
HG1435_PATCH	None	ENSG00000270080	ENST00000602444	lincRNA	KNOWN	None	None	None	None	45627625	45629514	-1	None	None
HG1435_PATCH	MIR221	ENSG00000269317	ENST00000601779	miRNA	KNOWN	None	31601	None	None	45605402	45605511	-1	MIRN221	hsa-mir-221
HG1435_PATCH	MIR222	ENSG00000268666	ENST00000599058	miRNA	KNOWN	None	31602	None	None	45606260	45606369	-1	MIRN222	hsa-mir-222
HG1435_PATCH	None	ENSG00000270089	ENST00000602769	lincRNA	KNOWN	None	None	None	None	45624017	45624544	-1	None	None
HG1435_PATCH	None	ENSG00000268513	ENST00000600298	snoRNA	NOVEL	None	None	None	None	45752157	45752224	-1	None	None
HG1435_PATCH	None	ENSG00000269029	ENST00000596127	processed_pseudogene	KNOWN	None	None	None	None	45772363	45773116	1	None	None
HG1435_PATCH	None	ENSG00000269675	ENST00000595398	lincRNA	KNOWN	None	None	None	None	45772512	45776285	-1	None	None
HG1433_PATCH	CCNB3	ENSG00000269438	ENST00000598372	processed_transcript	KNOWN	None	18709	None	None	49967364	50028245	1	None	None
HG1433_PATCH	CCNB3	ENSG00000269438	ENST00000597525	processed_transcript	KNOWN	None	18709	None	None	49969146	50028245	1	None	None
HG1433_PATCH	CCNB3	ENSG00000269438	ENST00000596541	protein_coding	KNOWN	None	18709	4188	1395	49969416	50094910	1	None	None
HG1433_PATCH	CCNB3	ENSG00000269438	ENST00000602116	protein_coding	KNOWN	None	18709	876	291	49969596	50094910	1	None	None
HG1433_PATCH	CCNB3	ENSG00000269438	ENST00000598186	nonsense_mediated_decay	KNOWN	None	18709	336	111	49969596	50094910	1	None	None
HG1433_PATCH	CCNB3	ENSG00000269438	ENST00000601442	protein_coding	KNOWN	None	18709	876	291	50027536	50094910	1	None	None
HG1433_PATCH	CCNB3	ENSG00000269438	ENST00000599832	protein_coding	KNOWN	None	18709	4188	1395	50027540	50094910	1	None	None
HG1433_PATCH	CCNB3	ENSG00000269438	ENST00000596681	retained_intron	KNOWN	None	18709	None	None	50084707	50094716	1	None	None
HG1433_PATCH	None	ENSG00000267972	ENST00000598251	protein_coding	KNOWN	None	None	3816	1271	50111880	50213722	-1	None	None
HG1433_PATCH	SHROOM4	ENSG00000268668	ENST00000601085	protein_coding	KNOWN	None	29215	4482	1493	50334647	50557302	-1	None	KIAA1202
HG1433_PATCH	SHROOM4	ENSG00000268668	ENST00000600171	protein_coding	KNOWN	None	29215	4482	1493	50334647	50557044	-1	None	KIAA1202
HG1433_PATCH	SHROOM4	ENSG00000268668	ENST00000597854	processed_transcript	KNOWN	None	29215	None	None	50334695	50339237	-1	None	KIAA1202
HG1433_PATCH	SHROOM4	ENSG00000268668	ENST00000596464	protein_coding	NOVEL	None	29215	4134	1377	50335365	50386683	-1	None	KIAA1202
HG1433_PATCH	SHROOM4	ENSG00000268668	ENST00000599313	processed_transcript	KNOWN	None	29215	None	None	50430039	50438937	-1	None	KIAA1202
HG1433_PATCH	None	ENSG00000269735	ENST00000593838	miRNA	NOVEL	None	None	None	None	50388118	50388209	1	None	None
HG1433_PATCH	RNU6-935P	ENSG00000269712	ENST00000593958	snRNA	KNOWN	None	47898	None	None	50392641	50392740	1	None	None
HG1433_PATCH	H3F3AP5	ENSG00000269426	ENST00000599943	processed_pseudogene	KNOWN	None	42981	None	None	50648438	50648866	1	None	None
HG1433_PATCH	H3F3AP5	ENSG00000269426	ENST00000601145	processed_pseudogene	KNOWN	None	42981	None	None	50648438	50648845	1	None	None
HG1433_PATCH	BMP15	ENSG00000269479	ENST00000598029	protein_coding	KNOWN	None	1068	1179	392	50653784	50659607	1	None	GDF9B
HG1433_PATCH	HMGB1P15	ENSG00000269669	ENST00000599332	processed_pseudogene	KNOWN	None	39097	None	None	50674114	50674548	-1	None	None
HG1433_PATCH	None	ENSG00000267836	ENST00000597358	unprocessed_pseudogene	KNOWN	None	None	None	None	50773422	50774357	-1	None	None
HG1433_PATCH	None	ENSG00000268011	ENST00000600914	unprocessed_pseudogene	KNOWN	None	None	None	None	50825818	50834228	1	None	None
HG1433_PATCH	None	ENSG00000269413	ENST00000595653	lincRNA	KNOWN	None	None	None	None	50838844	50914400	-1	None	None
HG1433_PATCH	None	ENSG00000269644	ENST00000601998	unprocessed_pseudogene	KNOWN	None	None	None	None	50905864	50906677	1	None	None
HG1433_PATCH	NUDT10	ENSG00000269003	ENST00000598821	protein_coding	KNOWN	None	17621	495	164	51075231	51080525	1	None	DIPP3a, hDIPP3alpha
HG1433_PATCH	NUDT10	ENSG00000269003	ENST00000594895	protein_coding	KNOWN	None	17621	495	164	51075830	51080525	1	None	DIPP3a, hDIPP3alpha
HG1433_PATCH	None	ENSG00000268939	ENST00000595634	antisense	KNOWN	None	None	None	None	51099944	51139462	-1	None	None
HG1433_PATCH	None	ENSG00000268966	ENST00000600593	processed_transcript	PUTATIVE	None	None	None	None	51139511	51141530	1	None	None
HG1433_PATCH	None	ENSG00000268966	ENST00000599691	processed_transcript	PUTATIVE	None	None	None	None	51139531	51208661	1	None	None
HG1433_PATCH	CXorf67	ENSG00000269448	ENST00000594561	protein_coding	KNOWN	None	33738	1512	503	51149915	51151835	1	None	None
HG1433_PATCH	NUDT11	ENSG00000269203	ENST00000597464	protein_coding	KNOWN	None	18011	495	164	51233011	51239596	-1	None	DIPP3b, FLJ10628, hDIPP3beta
HG1433_PATCH	None	ENSG00000269141	ENST00000599800	lincRNA	KNOWN	None	None	None	None	51245090	51254005	-1	None	None
HG1433_PATCH	CENPVP3	ENSG00000269607	ENST00000596588	processed_pseudogene	KNOWN	None	43880	None	None	51361109	51361594	-1	None	None
HG1433_PATCH	CENPVP1	ENSG00000268077	ENST00000593813	transcribed_processed_pseudogene	KNOWN	None	31851	None	None	51453791	51454276	1	CENPVL1	PRR6L1
HG1433_PATCH	CENPVP1	ENSG00000268077	ENST00000602378	processed_transcript	KNOWN	None	31851	None	None	51453829	51455131	1	CENPVL1	PRR6L1
HG1433_PATCH	GSPT2	ENSG00000268273	ENST00000594695	protein_coding	KNOWN	None	4622	1887	628	51486385	51489228	1	None	eRF3b, FLJ10441
HG1433_PATCH	MAGED1	ENSG00000268018	ENST00000599927	protein_coding	KNOWN	None	6813	2337	778	51546007	51645354	1	None	NRAGE, DLXIN-1
HG1433_PATCH	MAGED1	ENSG00000268018	ENST00000597768	protein_coding	KNOWN	None	6813	2337	778	51636533	51645354	1	None	NRAGE, DLXIN-1
HG1433_PATCH	MAGED1	ENSG00000268018	ENST00000597428	protein_coding	KNOWN	None	6813	2337	778	51636602	51645357	1	None	NRAGE, DLXIN-1
HG1433_PATCH	MAGED1	ENSG00000268018	ENST00000593373	protein_coding	KNOWN	None	6813	2505	834	51636639	51645354	1	None	NRAGE, DLXIN-1
HG1433_PATCH	MAGED1	ENSG00000268018	ENST00000596684	processed_transcript	KNOWN	None	6813	None	None	51636640	51644560	1	None	NRAGE, DLXIN-1
HG1433_PATCH	MAGED1	ENSG00000268018	ENST00000595043	processed_transcript	KNOWN	None	6813	None	None	51636646	51638752	1	None	NRAGE, DLXIN-1
HG1433_PATCH	MAGED1	ENSG00000268018	ENST00000600261	processed_transcript	KNOWN	None	6813	None	None	51636649	51645354	1	None	NRAGE, DLXIN-1
HG1433_PATCH	MAGED1	ENSG00000268018	ENST00000600478	processed_transcript	KNOWN	None	6813	None	None	51636658	51645352	1	None	NRAGE, DLXIN-1
HG1433_PATCH	MAGED1	ENSG00000268018	ENST00000600587	processed_transcript	KNOWN	None	6813	None	None	51637569	51638702	1	None	NRAGE, DLXIN-1
HG1433_PATCH	MAGED1	ENSG00000268018	ENST00000597645	processed_transcript	KNOWN	None	6813	None	None	51638656	51639474	1	None	NRAGE, DLXIN-1
HG1433_PATCH	MAGED1	ENSG00000268018	ENST00000594010	processed_transcript	KNOWN	None	6813	None	None	51641611	51645354	1	None	NRAGE, DLXIN-1
HG1433_PATCH	None	ENSG00000268910	ENST00000594840	processed_pseudogene	KNOWN	None	None	None	None	51599968	51601066	1	None	None
HG1433_PATCH	RNU6-504P	ENSG00000268405	ENST00000595308	snRNA	KNOWN	None	47467	None	None	51613706	51613809	-1	None	None
HG1433_PATCH	None	ENSG00000269088	ENST00000601132	unprocessed_pseudogene	KNOWN	None	None	None	None	51646338	51646850	-1	None	None
HG1433_PATCH	IPO7P1	ENSG00000269362	ENST00000596268	processed_pseudogene	KNOWN	None	39837	None	None	51664864	51665499	-1	None	None
HG1433_PATCH	None	ENSG00000268585	ENST00000597708	processed_pseudogene	KNOWN	None	None	None	None	51666552	51666740	1	None	None
HG1433_PATCH	TPMTP3	ENSG00000269527	ENST00000594071	processed_pseudogene	KNOWN	None	44566	None	None	51722223	51723012	-1	None	None
HG1433_PATCH	None	ENSG00000268113	ENST00000595186	protein_coding	KNOWN	None	None	372	123	51793860	51797255	-1	None	None
HG1433_PATCH	MAGED4B	ENSG00000268682	ENST00000605908	nonsense_mediated_decay	KNOWN	None	22880	101	32	51804827	51807543	-1	None	None
HG1433_PATCH	MAGED4B	ENSG00000268682	ENST00000607249	retained_intron	KNOWN	None	22880	None	None	51804827	51809677	-1	None	None
HG1433_PATCH	MAGED4B	ENSG00000268682	ENST00000606501	retained_intron	KNOWN	None	22880	None	None	51804827	51812182	-1	None	None
HG1433_PATCH	MAGED4B	ENSG00000268682	ENST00000606833	protein_coding	KNOWN	None	22880	2226	741	51804827	51812182	-1	None	None
HG1433_PATCH	MAGED4B	ENSG00000268682	ENST00000606606	protein_coding	KNOWN	None	22880	2220	739	51804827	51812198	-1	None	None
HG1433_PATCH	MAGED4B	ENSG00000268682	ENST00000606206	protein_coding	NOVEL	None	22880	2274	757	51804827	51812219	-1	None	None
HG1433_PATCH	MAGED4B	ENSG00000268682	ENST00000606940	protein_coding	KNOWN	None	22880	2226	741	51804827	51812248	-1	None	None
HG1433_PATCH	MAGED4B	ENSG00000268682	ENST00000600173	protein_coding	KNOWN	None	22880	2274	757	51804827	51812272	-1	None	None
HG1433_PATCH	MAGED4B	ENSG00000268682	ENST00000607022	nonsense_mediated_decay	KNOWN	None	22880	1065	354	51804829	51812207	-1	None	None
HG1433_PATCH	MAGED4B	ENSG00000268682	ENST00000606816	processed_transcript	KNOWN	None	22880	None	None	51804839	51807077	-1	None	None
HG1433_PATCH	MAGED4B	ENSG00000268682	ENST00000605882	nonsense_mediated_decay	KNOWN	None	22880	147	48	51805556	51808292	-1	None	None
HG1433_PATCH	MAGED4B	ENSG00000268682	ENST00000607502	retained_intron	KNOWN	None	22880	None	None	51809045	51809657	-1	None	None
HG1433_PATCH	MAGED4B	ENSG00000268682	ENST00000606862	processed_transcript	KNOWN	None	22880	None	None	51810002	51810605	-1	None	None
HG1433_PATCH	MAGED4B	ENSG00000268682	ENST00000606178	protein_coding	NOVEL	None	22880	815	270	51810010	51812172	-1	None	None
HG1433_PATCH	SNORA11E	ENSG00000268369	ENST00000598096	snoRNA	KNOWN	None	33623	None	None	51806347	51806474	-1	None	None
HG1433_PATCH	None	ENSG00000269710	ENST00000599522	protein_coding	KNOWN	None	None	2274	757	51927823	51935266	1	None	None
HG1433_PATCH	None	ENSG00000272246	ENST00000607285	protein_coding	KNOWN	None	None	372	123	51942840	51946226	1	None	None
HG1433_PATCH	XAGE2B	ENSG00000269076	ENST00000596650	protein_coding	KNOWN	None	30680	336	111	52112030	52118680	1	None	None
HG1433_PATCH	None	ENSG00000268347	ENST00000596317	unprocessed_pseudogene	KNOWN	None	None	None	None	52125053	52128614	1	None	None
HG1433_PATCH	None	ENSG00000268572	ENST00000599336	unprocessed_pseudogene	KNOWN	None	None	None	None	52191587	52194138	-1	None	None
HG1433_PATCH	RBM22P10	ENSG00000268905	ENST00000595119	processed_pseudogene	KNOWN	None	39703	None	None	52228046	52228916	-1	None	None
HG1433_PATCH	XAGE1A	ENSG00000269805	ENST00000600138	protein_coding	KNOWN	None	4111	441	146	52238668	52243812	1	GAGED2, XAGE1	XAGE-1, CT12.1a
HG1433_PATCH	XAGE1A	ENSG00000269805	ENST00000597878	protein_coding	KNOWN	None	4111	246	81	52238676	52243812	1	GAGED2, XAGE1	XAGE-1, CT12.1a
HG1433_PATCH	XAGE1A	ENSG00000269805	ENST00000597405	protein_coding	KNOWN	None	4111	210	69	52238832	52243812	1	GAGED2, XAGE1	XAGE-1, CT12.1a
HG1433_PATCH	XAGE1A	ENSG00000269805	ENST00000598946	processed_transcript	KNOWN	None	4111	None	None	52238877	52243812	1	GAGED2, XAGE1	XAGE-1, CT12.1a
HG1433_PATCH	XAGE1A	ENSG00000269805	ENST00000602068	protein_coding	KNOWN	None	4111	210	69	52240362	52243812	1	GAGED2, XAGE1	XAGE-1, CT12.1a
HG1433_PATCH	XAGE1A	ENSG00000269805	ENST00000594304	retained_intron	KNOWN	None	4111	None	None	52240864	52243812	1	GAGED2, XAGE1	XAGE-1, CT12.1a
HG1433_PATCH	RBM22P7	ENSG00000268934	ENST00000594980	processed_pseudogene	KNOWN	None	39700	None	None	52252903	52253164	1	None	None
HG1433_PATCH	XAGE1B	ENSG00000262401	ENST00000594178	protein_coding	KNOWN	None	25400	441	146	52255077	52260221	-1	None	CT12.1b
HG1433_PATCH	XAGE1B	ENSG00000262401	ENST00000596140	protein_coding	KNOWN	None	25400	246	81	52255077	52260213	-1	None	CT12.1b
HG1433_PATCH	XAGE1B	ENSG00000262401	ENST00000600638	protein_coding	KNOWN	None	25400	210	69	52255077	52260057	-1	None	CT12.1b
HG1433_PATCH	XAGE1B	ENSG00000262401	ENST00000595332	processed_transcript	KNOWN	None	25400	None	None	52255077	52260012	-1	None	CT12.1b
HG1433_PATCH	XAGE1B	ENSG00000262401	ENST00000598106	protein_coding	KNOWN	None	25400	210	69	52255077	52258527	-1	None	CT12.1b
HG1433_PATCH	XAGE1B	ENSG00000262401	ENST00000601830	retained_intron	KNOWN	None	25400	None	None	52255077	52258025	-1	None	CT12.1b
HG1433_PATCH	XAGE1B	ENSG00000262401	ENST00000597159	protein_coding	KNOWN	None	25400	246	81	52255080	52263803	-1	None	CT12.1b
HG1433_PATCH	XAGE1B	ENSG00000262401	ENST00000574100	retained_intron	KNOWN	None	25400	None	None	52258168	52260106	-1	None	CT12.1b
HG1433_PATCH	RBM22P6	ENSG00000268071	ENST00000600184	processed_pseudogene	KNOWN	None	39699	None	None	52269974	52270838	1	None	None
HG1433_PATCH	None	ENSG00000268054	ENST00000594556	unprocessed_pseudogene	KNOWN	None	None	None	None	52288151	52290695	1	None	None
HG1433_PATCH	None	ENSG00000268776	ENST00000594631	unprocessed_pseudogene	KNOWN	None	None	None	None	52304769	52305301	-1	None	None
HG1433_PATCH	None	ENSG00000269726	ENST00000593529	unprocessed_pseudogene	KNOWN	None	None	None	None	52326989	52329312	1	None	None
HG1433_PATCH	SSXP4	ENSG00000269530	ENST00000600680	unprocessed_pseudogene	KNOWN	None	30641	None	None	52341494	52346289	1	SSX10	psiSSX4
HG1433_PATCH	None	ENSG00000269544	ENST00000601233	unprocessed_pseudogene	KNOWN	None	None	None	None	52349532	52354758	-1	None	None
HG1433_PATCH	None	ENSG00000269544	ENST00000596656	unprocessed_pseudogene	KNOWN	None	None	None	None	52349535	52354758	-1	None	None
HG1433_PATCH	None	ENSG00000269780	ENST00000593295	processed_pseudogene	KNOWN	None	None	None	None	52355656	52356523	1	None	None
HG1433_PATCH	SSX8	ENSG00000267833	ENST00000597472	unprocessed_pseudogene	KNOWN	None	19654	None	None	52365935	52376948	1	None	None
HG1433_PATCH	SSX8	ENSG00000267833	ENST00000600876	unprocessed_pseudogene	KNOWN	None	19654	None	None	52365935	52373408	1	None	None
HG1433_PATCH	SSX8	ENSG00000267833	ENST00000600526	unprocessed_pseudogene	KNOWN	None	19654	None	None	52367998	52375895	1	None	None
HG1433_PATCH	SSX7	ENSG00000267995	ENST00000598733	protein_coding	KNOWN	None	19653	567	188	52387090	52397900	-1	None	None
HG1433_PATCH	None	ENSG00000268448	ENST00000599929	processed_pseudogene	KNOWN	None	None	None	None	52398207	52400254	1	None	None
HG1433_PATCH	RNA5SP504	ENSG00000269252	ENST00000598009	rRNA	KNOWN	None	43404	None	None	52408231	52408347	1	RN5S504	None
HG1433_PATCH	None	ENSG00000268534	ENST00000596744	unprocessed_pseudogene	KNOWN	None	None	None	None	52415718	52420051	1	None	None
HG1433_PATCH	None	ENSG00000268775	ENST00000594937	processed_pseudogene	KNOWN	None	None	None	None	52430363	52430633	-1	None	None
HG1433_PATCH	SSX2	ENSG00000267864	ENST00000593457	protein_coding	KNOWN	None	11336	672	223	52439896	52450161	-1	SSX	HOM-MEL-40, HD21, MGC3884, MGC15364, MGC119055, CT5.2a
HG1433_PATCH	SSX2	ENSG00000267864	ENST00000593835	protein_coding	KNOWN	None	11336	567	188	52439896	52450189	-1	SSX	HOM-MEL-40, HD21, MGC3884, MGC15364, MGC119055, CT5.2a
HG1433_PATCH	SSX2	ENSG00000267864	ENST00000594296	processed_transcript	KNOWN	None	11336	None	None	52440231	52445728	-1	SSX	HOM-MEL-40, HD21, MGC3884, MGC15364, MGC119055, CT5.2a
HG1433_PATCH	None	ENSG00000268114	ENST00000593488	processed_pseudogene	KNOWN	None	None	None	None	52450602	52452933	1	None	None
HG1433_PATCH	None	ENSG00000269868	ENST00000597732	processed_pseudogene	KNOWN	None	None	None	None	52465319	52465525	1	None	None
HG1433_PATCH	None	ENSG00000268447	ENST00000596480	protein_coding	KNOWN	None	None	567	188	52494231	52504536	1	None	None
HG1433_PATCH	None	ENSG00000269281	ENST00000599675	processed_pseudogene	KNOWN	None	None	None	None	52513808	52514078	1	None	None
HG1433_PATCH	None	ENSG00000268494	ENST00000598439	unprocessed_pseudogene	KNOWN	None	None	None	None	52524452	52528786	-1	None	None
HG1433_PATCH	SPANXN5	ENSG00000268792	ENST00000595963	protein_coding	KNOWN	None	33178	219	72	52539144	52541101	-1	None	SPANX-N5, CT11.10
HG1433_PATCH	None	ENSG00000269128	ENST00000601789	unprocessed_pseudogene	KNOWN	None	None	None	None	52544400	52544529	-1	None	None
HG1433_PATCH	XAGE5	ENSG00000269249	ENST00000593744	protein_coding	KNOWN	None	30930	327	108	52555204	52561298	1	GAGED5	XAGE-5, CT12.5
HG1433_PATCH	XAGE5	ENSG00000269249	ENST00000601552	protein_coding	KNOWN	None	30930	327	108	52555204	52561298	1	GAGED5	XAGE-5, CT12.5
HG1433_PATCH	XAGE5	ENSG00000269249	ENST00000600900	protein_coding	KNOWN	None	30930	228	75	52555204	52561237	1	GAGED5	XAGE-5, CT12.5
HG1433_PATCH	XAGE5	ENSG00000269249	ENST00000594956	protein_coding	KNOWN	None	30930	327	108	52555567	52561301	1	GAGED5	XAGE-5, CT12.5
HG1433_PATCH	XAGE5	ENSG00000269249	ENST00000595704	processed_transcript	PUTATIVE	None	30930	None	None	52557911	52561301	1	GAGED5	XAGE-5, CT12.5
HG1433_PATCH	None	ENSG00000268247	ENST00000596449	unprocessed_pseudogene	KNOWN	None	None	None	None	52567267	52572267	-1	None	None
HG1433_PATCH	None	ENSG00000268247	ENST00000593508	unprocessed_pseudogene	KNOWN	None	None	None	None	52567269	52572267	-1	None	None
HG1433_PATCH	None	ENSG00000268247	ENST00000597362	unprocessed_pseudogene	KNOWN	None	None	None	None	52568267	52572267	-1	None	None
HG1433_PATCH	EIF4A2P4	ENSG00000269819	ENST00000593707	processed_pseudogene	KNOWN	None	45101	None	None	52575704	52576899	-1	None	None
HG1433_PATCH	XAGE3	ENSG00000269052	ENST00000598948	protein_coding	KNOWN	None	14618	336	111	52605528	52610301	-1	PLAC6, GAGED4	XAGE-3, pp9012, CT12.3a, CT12.3b
HG1433_PATCH	XAGE3	ENSG00000269052	ENST00000601427	protein_coding	KNOWN	None	14618	336	111	52605528	52611068	-1	PLAC6, GAGED4	XAGE-3, pp9012, CT12.3a, CT12.3b
HG1433_PATCH	None	ENSG00000268134	ENST00000593751	protein_coding	KNOWN	None	None	642	213	52640400	52651556	1	None	None
HG1433_PATCH	None	ENSG00000268350	ENST00000596733	protein_coding	KNOWN	None	None	642	213	52690258	52701414	-1	None	None
HG1433_PATCH	GPR173	ENSG00000268476	ENST00000596393	protein_coding	KNOWN	None	18186	1122	373	52792091	52823615	1	None	SREB3
HG1433_PATCH	GPR173	ENSG00000268476	ENST00000595504	protein_coding	KNOWN	None	18186	157	51	52792283	52819778	1	None	SREB3
HG1433_PATCH	None	ENSG00000270278	ENST00000603637	processed_pseudogene	KNOWN	None	None	None	None	52808053	52808548	-1	None	None
HG1433_PATCH	TSPYL2	ENSG00000268269	ENST00000593403	retained_intron	KNOWN	None	24358	None	None	52825367	52829413	1	None	SE20-4, HRIHFB2216, CTCL, DENTT, CDA1, CINAP
HG1433_PATCH	TSPYL2	ENSG00000268269	ENST00000598656	protein_coding	KNOWN	None	24358	2082	693	52825367	52831540	1	None	SE20-4, HRIHFB2216, CTCL, DENTT, CDA1, CINAP
HG1433_PATCH	TSPYL2	ENSG00000268269	ENST00000601325	protein_coding	NOVEL	None	24358	751	249	52825381	52829118	1	None	SE20-4, HRIHFB2216, CTCL, DENTT, CDA1, CINAP
HG1433_PATCH	TSPYL2	ENSG00000268269	ENST00000595204	nonsense_mediated_decay	KNOWN	None	24358	370	122	52825993	52828839	1	None	SE20-4, HRIHFB2216, CTCL, DENTT, CDA1, CINAP
HG1433_PATCH	TSPYL2	ENSG00000268269	ENST00000600567	retained_intron	KNOWN	None	24358	None	None	52826123	52831539	1	None	SE20-4, HRIHFB2216, CTCL, DENTT, CDA1, CINAP
HG1433_PATCH	TSPYL2	ENSG00000268269	ENST00000594515	retained_intron	KNOWN	None	24358	None	None	52827699	52828943	1	None	SE20-4, HRIHFB2216, CTCL, DENTT, CDA1, CINAP
HG1433_PATCH	None	ENSG00000269762	ENST00000595932	lincRNA	KNOWN	None	None	None	None	52836710	52837858	-1	None	None
HG1433_PATCH	None	ENSG00000268406	ENST00000604359	lincRNA	KNOWN	None	None	None	None	52837145	52866742	1	None	None
HG1433_PATCH	None	ENSG00000268406	ENST00000604201	lincRNA	KNOWN	None	None	None	None	52837148	52866775	1	None	None
HG1433_PATCH	None	ENSG00000268406	ENST00000604291	lincRNA	KNOWN	None	None	None	None	52837148	52910014	1	None	None
HG1433_PATCH	None	ENSG00000268406	ENST00000601057	lincRNA	KNOWN	None	None	None	None	52837157	52885707	1	None	None
HG1433_PATCH	None	ENSG00000268406	ENST00000597257	lincRNA	KNOWN	None	None	None	None	52837189	52886451	1	None	None
HG1433_PATCH	None	ENSG00000269239	ENST00000599983	processed_pseudogene	KNOWN	None	None	None	None	52856018	52856274	-1	None	None
HG1433_PATCH	RNU7-37P	ENSG00000269098	ENST00000593435	snRNA	KNOWN	None	34133	None	None	52873481	52873541	1	None	U7.37
HG1433_PATCH	ACTG1P10	ENSG00000272242	ENST00000606633	processed_pseudogene	KNOWN	None	155	None	None	52885832	52886913	-1	ACTL1, ACTGP10	None
HG1433_PATCH	None	ENSG00000269643	ENST00000594573	miRNA	NOVEL	None	None	None	None	52886034	52886117	-1	None	None
HG1433_PATCH	None	ENSG00000267944	ENST00000599982	processed_pseudogene	KNOWN	None	None	None	None	52907391	52907557	-1	None	None
HG1433_PATCH	None	ENSG00000271073	ENST00000603034	lincRNA	KNOWN	None	None	None	None	52912097	52913914	1	None	None
HG1433_PATCH	KDM5C	ENSG00000269816	ENST00000596526	protein_coding	KNOWN	None	11114	4140	1379	52934321	52968422	-1	SMCX, JARID1C	DXS1272E, XE169
HG1433_PATCH	KDM5C	ENSG00000269816	ENST00000602020	protein_coding	KNOWN	None	11114	4683	1560	52935152	52968422	-1	SMCX, JARID1C	DXS1272E, XE169
HG1433_PATCH	KDM5C	ENSG00000269816	ENST00000594714	protein_coding	KNOWN	None	11114	4680	1559	52935257	52968176	-1	SMCX, JARID1C	DXS1272E, XE169
HG1433_PATCH	KDM5C	ENSG00000269816	ENST00000595211	protein_coding	KNOWN	None	11114	4674	1557	52935929	52968422	-1	SMCX, JARID1C	DXS1272E, XE169
HG1433_PATCH	KDM5C	ENSG00000269816	ENST00000593469	protein_coding	KNOWN	None	11114	4551	1516	52935929	52968422	-1	SMCX, JARID1C	DXS1272E, XE169
HG1433_PATCH	KDM5C	ENSG00000269816	ENST00000599621	processed_transcript	KNOWN	None	11114	None	None	52940657	52941566	-1	SMCX, JARID1C	DXS1272E, XE169
HG1433_PATCH	KDM5C	ENSG00000269816	ENST00000598363	retained_intron	KNOWN	None	11114	None	None	52941490	52954658	-1	SMCX, JARID1C	DXS1272E, XE169
HG1433_PATCH	KDM5C	ENSG00000269816	ENST00000598291	processed_transcript	KNOWN	None	11114	None	None	52944279	52953547	-1	SMCX, JARID1C	DXS1272E, XE169
HG1433_PATCH	KDM5C	ENSG00000269816	ENST00000599942	retained_intron	KNOWN	None	11114	None	None	52944304	52945773	-1	SMCX, JARID1C	DXS1272E, XE169
HG1433_PATCH	KDM5C	ENSG00000269816	ENST00000594632	retained_intron	KNOWN	None	11114	None	None	52958714	52960149	-1	SMCX, JARID1C	DXS1272E, XE169
HG1433_PATCH	KDM5C	ENSG00000269816	ENST00000594826	nonsense_mediated_decay	KNOWN	None	11114	162	53	52960810	52968208	-1	SMCX, JARID1C	DXS1272E, XE169
HG1433_PATCH	KDM5C	ENSG00000269816	ENST00000600476	processed_transcript	KNOWN	None	11114	None	None	52960829	52961737	-1	SMCX, JARID1C	DXS1272E, XE169
HG1433_PATCH	KDM5C	ENSG00000269816	ENST00000593474	processed_transcript	KNOWN	None	11114	None	None	52960853	52964818	-1	SMCX, JARID1C	DXS1272E, XE169
HG1433_PATCH	KDM5C	ENSG00000269816	ENST00000597414	nonsense_mediated_decay	KNOWN	None	11114	300	99	52961315	52968194	-1	SMCX, JARID1C	DXS1272E, XE169
HG1433_PATCH	KDM5C	ENSG00000269816	ENST00000594646	nonsense_mediated_decay	KNOWN	None	11114	225	74	52964705	52968198	-1	SMCX, JARID1C	DXS1272E, XE169
HG1433_PATCH	KDM5C-IT1	ENSG00000269462	ENST00000597672	sense_intronic	KNOWN	None	41384	None	None	52955408	52957679	-1	None	None
HG1433_PATCH	IQSEC2	ENSG00000268372	ENST00000596391	protein_coding	KNOWN	None	29059	4467	1488	52975876	53064324	-1	None	KIAA0522
HG1433_PATCH	IQSEC2	ENSG00000268372	ENST00000600562	protein_coding	KNOWN	None	29059	4437	1478	52975877	53064324	-1	None	KIAA0522
HG1433_PATCH	IQSEC2	ENSG00000268372	ENST00000602247	protein_coding	KNOWN	None	29059	2850	949	52977110	53024614	-1	None	KIAA0522
HG1433_PATCH	IQSEC2	ENSG00000268372	ENST00000596313	processed_transcript	KNOWN	None	29059	None	None	53009329	53024594	-1	None	KIAA0522
HG1433_PATCH	IQSEC2	ENSG00000268372	ENST00000597417	processed_transcript	KNOWN	None	29059	None	None	53009329	53024594	-1	None	KIAA0522
HG1433_PATCH	IQSEC2	ENSG00000268372	ENST00000601024	processed_transcript	KNOWN	None	29059	None	None	53009329	53024594	-1	None	KIAA0522
HG1433_PATCH	None	ENSG00000269164	ENST00000595738	processed_pseudogene	KNOWN	None	None	None	None	53065990	53066822	1	None	None
HG1433_PATCH	None	ENSG00000269734	ENST00000599453	misc_RNA	NOVEL	None	None	None	None	53067562	53067674	1	None	None
HG1433_PATCH	None	ENSG00000269024	ENST00000597048	processed_pseudogene	KNOWN	None	None	None	None	53080783	53080973	-1	None	None
HG1433_PATCH	None	ENSG00000269844	ENST00000599512	processed_pseudogene	KNOWN	None	None	None	None	53083986	53084505	1	None	None
HG1433_PATCH	SMC1A	ENSG00000269384	ENST00000594240	protein_coding	KNOWN	None	11111	3702	1233	53117149	53165728	-1	SMC1L1	DXS423E, KIAA0178, SB1.8, Smcb
HG1433_PATCH	SMC1A	ENSG00000269384	ENST00000599338	processed_transcript	KNOWN	None	11111	None	None	53123171	53139378	-1	SMC1L1	DXS423E, KIAA0178, SB1.8, Smcb
HG1433_PATCH	SMC1A	ENSG00000269384	ENST00000595542	processed_transcript	KNOWN	None	11111	None	None	53124678	53125646	-1	SMC1L1	DXS423E, KIAA0178, SB1.8, Smcb
HG1433_PATCH	SMC1A	ENSG00000269384	ENST00000599303	protein_coding	KNOWN	None	11111	1551	516	53147799	53165654	-1	SMC1L1	DXS423E, KIAA0178, SB1.8, Smcb
HG1433_PATCH	SMC1A	ENSG00000269384	ENST00000595619	processed_transcript	KNOWN	None	11111	None	None	53154995	53165669	-1	SMC1L1	DXS423E, KIAA0178, SB1.8, Smcb
HG1433_PATCH	SMC1A	ENSG00000269384	ENST00000594131	protein_coding	KNOWN	None	11111	868	288	53155900	53165017	-1	SMC1L1	DXS423E, KIAA0178, SB1.8, Smcb
HG1433_PATCH	RIBC1	ENSG00000269265	ENST00000596808	protein_coding	KNOWN	None	26537	544	180	53165690	53171627	1	None	FLJ32783
HG1433_PATCH	RIBC1	ENSG00000269265	ENST00000600443	protein_coding	KNOWN	None	26537	717	238	53165856	53173845	1	None	FLJ32783
HG1433_PATCH	RIBC1	ENSG00000269265	ENST00000598156	protein_coding	KNOWN	None	26537	579	192	53165890	53172828	1	None	FLJ32783
HG1433_PATCH	RIBC1	ENSG00000269265	ENST00000594801	protein_coding	KNOWN	None	26537	1140	379	53165941	53174111	1	None	FLJ32783
HG1433_PATCH	RIBC1	ENSG00000269265	ENST00000593528	processed_transcript	KNOWN	None	26537	None	None	53171463	53172278	1	None	FLJ32783
HG1433_PATCH	HSD17B10	ENSG00000268188	ENST00000594360	processed_transcript	KNOWN	None	4800	None	None	53174258	53175322	-1	HADH2, MRXS10	ERAB, MHBD, 17b-HSD10, ABAD, SDR5C1, MRPP2, CAMR
HG1433_PATCH	HSD17B10	ENSG00000268188	ENST00000595128	protein_coding	KNOWN	None	4800	759	252	53174258	53177356	-1	HADH2, MRXS10	ERAB, MHBD, 17b-HSD10, ABAD, SDR5C1, MRPP2, CAMR
HG1433_PATCH	HSD17B10	ENSG00000268188	ENST00000601615	protein_coding	KNOWN	None	4800	786	261	53174258	53177373	-1	HADH2, MRXS10	ERAB, MHBD, 17b-HSD10, ABAD, SDR5C1, MRPP2, CAMR
HG1433_PATCH	HSD17B10	ENSG00000268188	ENST00000600143	protein_coding	KNOWN	None	4800	510	169	53174263	53177350	-1	HADH2, MRXS10	ERAB, MHBD, 17b-HSD10, ABAD, SDR5C1, MRPP2, CAMR
HG1433_PATCH	HSD17B10	ENSG00000268188	ENST00000598939	processed_transcript	KNOWN	None	4800	None	None	53174859	53177336	-1	HADH2, MRXS10	ERAB, MHBD, 17b-HSD10, ABAD, SDR5C1, MRPP2, CAMR
HG1433_PATCH	None	ENSG00000268435	ENST00000601961	antisense	KNOWN	None	None	None	None	53175722	53176032	-1	None	None
HG1433_PATCH	None	ENSG00000268780	ENST00000595827	processed_pseudogene	KNOWN	None	None	None	None	53199273	53200029	-1	None	None
HG1433_PATCH	VTRNA3-1P	ENSG00000268244	ENST00000597380	misc_RNA	KNOWN	None	23027	None	None	53205209	53205310	1	VAULTRC4, VTRNA3P	vtRNA3P, hvg-4, HVG4
HG1433_PATCH	None	ENSG00000269233	ENST00000593372	miRNA	NOVEL	None	None	None	None	53229672	53229771	-1	None	None
HG1433_PATCH	None	ENSG00000268980	ENST00000600670	protein_coding	KNOWN	None	None	13125	4374	53275144	53429752	-1	None	None
HG1433_PATCH	MIR98	ENSG00000269370	ENST00000595546	miRNA	KNOWN	None	31649	None	None	53299223	53299341	-1	MIRN98	hsa-mir-98
HG1433_PATCH	MIRLET7F2	ENSG00000268251	ENST00000594058	miRNA	KNOWN	None	31484	None	None	53300192	53300274	-1	MIRNLET7F2	hsa-let-7f-2
HG1433_PATCH	None	ENSG00000269004	ENST00000594532	processed_pseudogene	KNOWN	None	None	None	None	53502026	53502204	1	None	None
HG1433_PATCH	None	ENSG00000268319	ENST00000594132	processed_pseudogene	KNOWN	None	None	None	None	53511986	53512219	-1	None	None
HG1433_PATCH	None	ENSG00000268692	ENST00000601381	processed_pseudogene	KNOWN	None	None	None	None	53550776	53551623	1	None	None
HG1433_PATCH	None	ENSG00000268726	ENST00000597201	processed_pseudogene	KNOWN	None	None	None	None	53568887	53569309	1	None	None
HG1433_PATCH	RNA5SP505	ENSG00000267897	ENST00000599128	rRNA	KNOWN	None	43405	None	None	53652054	53652161	1	RN5S505	None
HG1433_PATCH	PHF8	ENSG00000268312	ENST00000595978	protein_coding	KNOWN	None	20672	3075	1024	53679676	53787174	-1	None	ZNF422, KIAA1111, JHDM1F
HG1433_PATCH	PHF8	ENSG00000268312	ENST00000596621	protein_coding	KNOWN	None	20672	3183	1060	53679676	53788249	-1	None	ZNF422, KIAA1111, JHDM1F
HG1433_PATCH	PHF8	ENSG00000268312	ENST00000601647	protein_coding	KNOWN	None	20672	2847	948	53679682	53787174	-1	None	ZNF422, KIAA1111, JHDM1F
HG1433_PATCH	PHF8	ENSG00000268312	ENST00000599613	protein_coding	NOVEL	None	20672	2861	952	53680498	53765262	-1	None	ZNF422, KIAA1111, JHDM1F
HG1433_PATCH	PHF8	ENSG00000268312	ENST00000593950	retained_intron	KNOWN	None	20672	None	None	53683369	53687564	-1	None	ZNF422, KIAA1111, JHDM1F
HG1433_PATCH	PHF8	ENSG00000268312	ENST00000596173	protein_coding	NOVEL	None	20672	1978	658	53685618	53757449	-1	None	ZNF422, KIAA1111, JHDM1F
HG1433_PATCH	PHF8	ENSG00000268312	ENST00000597844	protein_coding	NOVEL	None	20672	2637	878	53686256	53786194	-1	None	ZNF422, KIAA1111, JHDM1F
HG1433_PATCH	PHF8	ENSG00000268312	ENST00000596866	retained_intron	KNOWN	None	20672	None	None	53730787	53736009	-1	None	ZNF422, KIAA1111, JHDM1F
HG1433_PATCH	PHF8	ENSG00000268312	ENST00000593510	nonsense_mediated_decay	KNOWN	None	20672	525	174	53735794	53754203	-1	None	ZNF422, KIAA1111, JHDM1F
HG1433_PATCH	PHF8	ENSG00000268312	ENST00000593456	protein_coding	PUTATIVE	None	20672	403	133	53735802	53745670	-1	None	ZNF422, KIAA1111, JHDM1F
HG1433_PATCH	PHF8	ENSG00000268312	ENST00000594422	retained_intron	KNOWN	None	20672	None	None	53742487	53757493	-1	None	ZNF422, KIAA1111, JHDM1F
HG1433_PATCH	PHF8	ENSG00000268312	ENST00000593702	protein_coding	KNOWN	None	20672	378	125	53760737	53785986	-1	None	ZNF422, KIAA1111, JHDM1F
HG1433_PATCH	PHF8	ENSG00000268312	ENST00000602183	protein_coding	KNOWN	None	20672	345	114	53760770	53791958	-1	None	ZNF422, KIAA1111, JHDM1F
HG1433_PATCH	PHF8	ENSG00000268312	ENST00000601183	protein_coding	KNOWN	None	20672	344	113	53760771	53787062	-1	None	ZNF422, KIAA1111, JHDM1F
HG1433_PATCH	PHF8	ENSG00000268312	ENST00000596196	protein_coding	KNOWN	None	20672	444	147	53760779	53791935	-1	None	ZNF422, KIAA1111, JHDM1F
HG1433_PATCH	PHF8	ENSG00000268312	ENST00000600504	protein_coding	KNOWN	None	20672	293	96	53765259	53785990	-1	None	ZNF422, KIAA1111, JHDM1F
HG1433_PATCH	PHF8	ENSG00000268312	ENST00000599449	protein_coding	KNOWN	None	20672	293	96	53765259	53786147	-1	None	ZNF422, KIAA1111, JHDM1F
HG1433_PATCH	PHF8	ENSG00000268312	ENST00000598942	processed_transcript	KNOWN	None	20672	None	None	53782630	53785716	-1	None	ZNF422, KIAA1111, JHDM1F
HG1433_PATCH	None	ENSG00000269160	ENST00000600756	snoRNA	NOVEL	None	None	None	None	53807845	53807966	-1	None	None
HG1433_PATCH	FAM120C	ENSG00000268158	ENST00000594687	protein_coding	KNOWN	None	16949	3291	1096	53811324	53926255	-1	CXorf17	ORF34, FLJ20506
HG1433_PATCH	FAM120C	ENSG00000268158	ENST00000600333	protein_coding	PUTATIVE	None	16949	2688	895	53815253	53926255	-1	CXorf17	ORF34, FLJ20506
HG1433_PATCH	FAM120C	ENSG00000268158	ENST00000602205	processed_transcript	KNOWN	None	16949	None	None	53914542	53925778	-1	CXorf17	ORF34, FLJ20506
HG1433_PATCH	FAM120C	ENSG00000268158	ENST00000601479	protein_coding	KNOWN	None	16949	717	238	53916789	53926281	-1	CXorf17	ORF34, FLJ20506
HG1433_PATCH	None	ENSG00000268270	ENST00000596485	processed_pseudogene	KNOWN	None	None	None	None	53890372	53890659	1	None	None
HG1433_PATCH	WNK3	ENSG00000269511	ENST00000599955	protein_coding	KNOWN	None	14543	5232	1743	53935823	54101005	-1	PRKWNK3	None
HG1433_PATCH	WNK3	ENSG00000269511	ENST00000598300	protein_coding	KNOWN	None	14543	5403	1800	53935825	54101005	-1	PRKWNK3	None
HG1433_PATCH	WNK3	ENSG00000269511	ENST00000594373	protein_coding	KNOWN	None	14543	5403	1800	53941324	54076673	-1	PRKWNK3	None
HG1433_PATCH	WNK3	ENSG00000269511	ENST00000596214	protein_coding	KNOWN	None	14543	496	164	54076178	54101642	-1	PRKWNK3	None
HG1433_PATCH	RPL7AP71	ENSG00000268806	ENST00000602081	processed_pseudogene	KNOWN	None	35754	None	None	53966324	53967062	1	None	None
HG1433_PATCH	RNU6-434P	ENSG00000269143	ENST00000594785	snRNA	KNOWN	None	47397	None	None	54086546	54086652	1	None	None
HG1437_PATCH	CBX1P1	ENSG00000268023	ENST00000601969	processed_pseudogene	KNOWN	None	38655	None	None	62518717	62519143	-1	None	None
HG1437_PATCH	CBX1P1	ENSG00000268023	ENST00000600622	processed_pseudogene	KNOWN	None	38655	None	None	62518717	62519142	-1	None	None
HG1437_PATCH	SPIN4	ENSG00000268762	ENST00000596759	protein_coding	KNOWN	None	27040	696	231	62566698	62570814	-1	None	FLJ44984
HG1437_PATCH	SPIN4	ENSG00000268762	ENST00000598379	protein_coding	KNOWN	None	27040	750	249	62566698	62570809	-1	None	FLJ44984
HG1437_PATCH	SPIN4-AS1	ENSG00000268755	ENST00000600309	antisense	KNOWN	None	41177	None	None	62569116	62571648	1	None	None
HG1437_PATCH	None	ENSG00000268042	ENST00000599067	processed_transcript	KNOWN	None	None	None	None	62729412	62780519	-1	None	None
HG1437_PATCH	ARHGEF9	ENSG00000268229	ENST00000601443	protein_coding	KNOWN	None	14561	1551	516	62854437	62974583	-1	None	KIAA0424, PEM-2
HG1437_PATCH	ARHGEF9	ENSG00000268229	ENST00000594535	protein_coding	KNOWN	None	14561	1437	478	62854437	63005003	-1	None	KIAA0424, PEM-2
HG1437_PATCH	ARHGEF9	ENSG00000268229	ENST00000601864	protein_coding	KNOWN	None	14561	1392	463	62854446	63005016	-1	None	KIAA0424, PEM-2
HG1437_PATCH	ARHGEF9	ENSG00000268229	ENST00000602267	protein_coding	KNOWN	None	14561	1245	414	62854446	62974621	-1	None	KIAA0424, PEM-2
HG1437_PATCH	ARHGEF9	ENSG00000268229	ENST00000598400	protein_coding	KNOWN	None	14561	732	243	62857216	62897961	-1	None	KIAA0424, PEM-2
HG1437_PATCH	ARHGEF9	ENSG00000268229	ENST00000595447	processed_transcript	KNOWN	None	14561	None	None	62857450	62974581	-1	None	KIAA0424, PEM-2
HG1437_PATCH	ARHGEF9	ENSG00000268229	ENST00000598276	processed_transcript	KNOWN	None	14561	None	None	62857452	62863736	-1	None	KIAA0424, PEM-2
HG1437_PATCH	ARHGEF9	ENSG00000268229	ENST00000594802	processed_transcript	KNOWN	None	14561	None	None	62857452	62893608	-1	None	KIAA0424, PEM-2
HG1437_PATCH	ARHGEF9	ENSG00000268229	ENST00000597149	protein_coding	KNOWN	None	14561	1488	495	62857452	62974578	-1	None	KIAA0424, PEM-2
HG1437_PATCH	ARHGEF9-IT1	ENSG00000268443	ENST00000593961	sense_intronic	KNOWN	None	41401	None	None	62889666	62890972	-1	None	None
HG1437_PATCH	BTF3P8	ENSG00000267975	ENST00000595216	processed_pseudogene	KNOWN	None	38572	None	None	62986345	62986870	1	None	None
HG1437_PATCH	MIR1468	ENSG00000269724	ENST00000598243	miRNA	KNOWN	None	35250	None	None	63005472	63005557	-1	MIRN1468	hsa-mir-1468
HG1438_PATCH	HDAC8	ENSG00000268498	ENST00000601855	protein_coding	PUTATIVE	None	13315	195	64	71549366	71792687	-1	HDACL1	RPD3
HG1438_PATCH	HDAC8	ENSG00000268498	ENST00000600470	protein_coding	KNOWN	None	13315	1134	377	71549366	71792953	-1	HDACL1	RPD3
HG1438_PATCH	HDAC8	ENSG00000268498	ENST00000599422	protein_coding	KNOWN	None	13315	861	286	71549367	71792953	-1	HDACL1	RPD3
HG1438_PATCH	HDAC8	ENSG00000268498	ENST00000599437	protein_coding	KNOWN	None	13315	549	182	71549662	71792693	-1	HDACL1	RPD3
HG1438_PATCH	HDAC8	ENSG00000268498	ENST00000600351	processed_transcript	KNOWN	None	13315	None	None	71550682	71682294	-1	HDACL1	RPD3
HG1438_PATCH	HDAC8	ENSG00000268498	ENST00000595877	protein_coding	NOVEL	None	13315	745	247	71571676	71792903	-1	HDACL1	RPD3
HG1438_PATCH	HDAC8	ENSG00000268498	ENST00000601285	nonsense_mediated_decay	KNOWN	None	13315	558	185	71681861	71792708	-1	HDACL1	RPD3
HG1438_PATCH	HDAC8	ENSG00000268498	ENST00000598854	protein_coding	NOVEL	None	13315	898	298	71681883	71792626	-1	HDACL1	RPD3
HG1438_PATCH	HDAC8	ENSG00000268498	ENST00000597628	nonsense_mediated_decay	KNOWN	None	13315	171	56	71684518	71792620	-1	HDACL1	RPD3
HG1438_PATCH	HDAC8	ENSG00000268498	ENST00000596513	protein_coding	PUTATIVE	None	13315	762	253	71686548	71792693	-1	HDACL1	RPD3
HG1438_PATCH	HDAC8	ENSG00000268498	ENST00000601791	protein_coding	PUTATIVE	None	13315	771	256	71693266	71792898	-1	HDACL1	RPD3
HG1438_PATCH	HDAC8	ENSG00000268498	ENST00000602209	protein_coding	PUTATIVE	None	13315	471	156	71694261	71792674	-1	HDACL1	RPD3
HG1438_PATCH	HDAC8	ENSG00000268498	ENST00000599061	protein_coding	PUTATIVE	None	13315	420	139	71694385	71792662	-1	HDACL1	RPD3
HG1438_PATCH	HDAC8	ENSG00000268498	ENST00000595682	protein_coding	KNOWN	None	13315	819	272	71694499	71792953	-1	HDACL1	RPD3
HG1438_PATCH	HDAC8	ENSG00000268498	ENST00000597487	processed_transcript	KNOWN	None	13315	None	None	71710784	71792693	-1	HDACL1	RPD3
HG1438_PATCH	HDAC8	ENSG00000268498	ENST00000593737	protein_coding	PUTATIVE	None	13315	395	130	71715044	71792477	-1	HDACL1	RPD3
HG1438_PATCH	HDAC8	ENSG00000268498	ENST00000601811	protein_coding	PUTATIVE	None	13315	477	158	71787432	71792663	-1	HDACL1	RPD3
HG1438_PATCH	HDAC8	ENSG00000268498	ENST00000594004	protein_coding	PUTATIVE	None	13315	441	146	71787435	71792703	-1	HDACL1	RPD3
HG1438_PATCH	HDAC8	ENSG00000268498	ENST00000601787	nonsense_mediated_decay	KNOWN	None	13315	168	55	71788605	71792929	-1	HDACL1	RPD3
HG1438_PATCH	HDAC8	ENSG00000268498	ENST00000596109	retained_intron	KNOWN	None	13315	None	None	71791796	71792666	-1	HDACL1	RPD3
HG1438_PATCH	RNU2-68P	ENSG00000268304	ENST00000601266	snRNA	KNOWN	None	48561	None	None	71596829	71597019	-1	None	None
HG1438_PATCH	PHKA1	ENSG00000268579	ENST00000593378	protein_coding	KNOWN	None	8925	3672	1223	71798664	71933890	-1	PHKA	None
HG1438_PATCH	PHKA1	ENSG00000268579	ENST00000598643	protein_coding	KNOWN	None	8925	3546	1181	71798664	71934169	-1	PHKA	None
HG1438_PATCH	PHKA1	ENSG00000268579	ENST00000600891	protein_coding	KNOWN	None	8925	3633	1210	71798665	71934031	-1	PHKA	None
HG1438_PATCH	PHKA1	ENSG00000268579	ENST00000601371	protein_coding	KNOWN	None	8925	3456	1151	71798665	71934031	-1	PHKA	None
HG1438_PATCH	PHKA1	ENSG00000268579	ENST00000596491	protein_coding	KNOWN	None	8925	3723	1240	71800477	71934108	-1	PHKA	None
HG1438_PATCH	None	ENSG00000268086	ENST00000595887	processed_pseudogene	KNOWN	None	None	None	None	71880320	71880569	1	None	None
HG1438_PATCH	PHKA1-AS1	ENSG00000269878	ENST00000595890	antisense	KNOWN	None	40446	None	None	71908800	71932198	1	None	None
HG1438_PATCH	None	ENSG00000269689	ENST00000597429	snoRNA	NOVEL	None	None	None	None	71945973	71946187	-1	None	None
HG1438_PATCH	None	ENSG00000268356	ENST00000598524	processed_pseudogene	KNOWN	None	None	None	None	71947827	71948671	-1	None	None
HG1438_PATCH	RNU1-112P	ENSG00000269245	ENST00000596257	snRNA	KNOWN	None	48454	None	None	71960556	71960719	-1	None	None
HG1438_PATCH	DMRTC1B	ENSG00000268159	ENST00000600465	nonsense_mediated_decay	KNOWN	None	31686	333	110	71996859	72068652	1	None	None
HG1438_PATCH	DMRTC1B	ENSG00000268159	ENST00000597238	protein_coding	KNOWN	None	31686	579	192	71996998	72068648	1	None	None
HG1438_PATCH	DMRTC1B	ENSG00000268159	ENST00000600929	protein_coding	KNOWN	None	31686	302	99	72062633	72066779	1	None	None
HG1438_PATCH	DMRTC1B	ENSG00000268159	ENST00000596035	protein_coding	KNOWN	None	31686	384	127	72062818	72068648	1	None	None
HG1438_PATCH	DMRTC1B	ENSG00000268159	ENST00000595986	protein_coding	KNOWN	None	31686	192	63	72064706	72065790	1	None	None
HG1438_PATCH	DMRTC1B	ENSG00000268159	ENST00000594574	protein_coding	KNOWN	None	31686	579	192	72064892	72068652	1	None	None
HG1438_PATCH	DMRTC1B	ENSG00000268159	ENST00000601718	protein_coding	KNOWN	None	31686	384	127	72064892	72068652	1	None	None
HG1438_PATCH	DMRTC1B	ENSG00000268159	ENST00000593766	nonsense_mediated_decay	KNOWN	None	31686	336	111	72064989	72068323	1	None	None
HG1438_PATCH	FAM226A	ENSG00000270004	ENST00000602331	sense_intronic	KNOWN	None	28544	None	None	71997458	71998947	1	CXorf50, NCRNA00246, NCRNA00246A, LINC00246A	MGC34827
HG1438_PATCH	FAM226B	ENSG00000270004	ENST00000602331	sense_intronic	KNOWN	None	31964	None	None	71997458	71998947	1	CXorf50B, NCRNA00246B, LINC00246B	None
HG1438_PATCH	None	ENSG00000268994	ENST00000596535	lincRNA	KNOWN	None	None	None	None	72001715	72002480	-1	None	None
HG1438_PATCH	None	ENSG00000268994	ENST00000593662	lincRNA	KNOWN	None	None	None	None	72001715	72002510	-1	None	None
HG1438_PATCH	None	ENSG00000268143	ENST00000594906	lincRNA	KNOWN	None	None	None	None	72027275	72028030	-1	None	None
HG1438_PATCH	None	ENSG00000268143	ENST00000596874	lincRNA	KNOWN	None	None	None	None	72027275	72028060	-1	None	None
HG1438_PATCH	None	ENSG00000269502	ENST00000596389	protein_coding	KNOWN	None	None	384	127	72091883	72097714	-1	None	None
HG1438_PATCH	None	ENSG00000269502	ENST00000595412	protein_coding	KNOWN	None	None	579	192	72091875	72095638	-1	None	None
HG1438_PATCH	None	ENSG00000269401	ENST00000600747	antisense	KNOWN	None	None	None	None	72218238	72222706	-1	None	None
HG1438_PATCH	PABPC1L2B	ENSG00000267891	ENST00000600221	protein_coding	KNOWN	None	31852	603	200	72223363	72225562	1	RBM32B	None
HG1438_PATCH	PABPC1L2B	ENSG00000267891	ENST00000599154	protein_coding	KNOWN	None	31852	603	200	72223460	72224605	1	RBM32B	None
HG1438_PATCH	PABPC1L2A	ENSG00000268574	ENST00000599024	protein_coding	KNOWN	None	27989	603	200	72297126	72299362	-1	RBM32A	None
HG1438_PATCH	PABPC1L2A	ENSG00000268574	ENST00000601374	protein_coding	KNOWN	None	27989	603	200	72298124	72299269	-1	RBM32A	None
HG1438_PATCH	None	ENSG00000268881	ENST00000594167	antisense	KNOWN	None	None	None	None	72300017	72304485	1	None	None
HG1438_PATCH	NAP1L6	ENSG00000268035	ENST00000595054	protein_coding	KNOWN	None	31706	324	107	72345887	72347930	-1	None	FLJ33596
HG1425_PATCH	None	ENSG00000267866	ENST00000593938	processed_pseudogene	KNOWN	None	None	None	None	75249730	75250165	1	None	None
HG1425_PATCH	PBDC1	ENSG00000269056	ENST00000601279	protein_coding	KNOWN	None	28790	702	233	75392771	75398039	1	CXorf26	MGC874
HG1425_PATCH	PBDC1	ENSG00000269056	ENST00000597591	protein_coding	KNOWN	None	28790	699	232	75392875	75398031	1	CXorf26	MGC874
HG1425_PATCH	None	ENSG00000268539	ENST00000595989	processed_pseudogene	KNOWN	None	None	None	None	75442472	75442932	1	None	None
HG1425_PATCH	RNU6-867P	ENSG00000269204	ENST00000600402	snRNA	KNOWN	None	47830	None	None	75464803	75464909	1	None	None
HG1425_PATCH	LDHBP2	ENSG00000268019	ENST00000598795	processed_pseudogene	KNOWN	None	6543	None	None	75554676	75555680	-1	LDHBP, LDHBL2	None
HG1425_PATCH	MAGEE1	ENSG00000269654	ENST00000597016	protein_coding	KNOWN	None	24934	2874	957	75647488	75651186	1	None	KIAA1587, DAMAGE
HG1425_PATCH	RNA5SP508	ENSG00000269593	ENST00000600992	rRNA	KNOWN	None	43408	None	None	75874844	75874962	-1	RN5S508	None
HG1425_PATCH	None	ENSG00000267862	ENST00000595852	processed_pseudogene	KNOWN	None	None	None	None	75875333	75876394	-1	None	None
HG1425_PATCH	MIR325	ENSG00000269677	ENST00000593436	miRNA	KNOWN	None	31768	None	None	76225239	76225336	-1	MIRN325	hsa-mir-325
HG1425_PATCH	RNA5SP509	ENSG00000269616	ENST00000593971	rRNA	KNOWN	None	43409	None	None	76286544	76286662	1	RN5S509	None
HG1425_PATCH	None	ENSG00000268005	ENST00000594502	processed_pseudogene	KNOWN	None	None	None	None	76594047	76601154	1	None	None
HG1439_PATCH	RNU6-934P	ENSG00000269229	ENST00000601397	snRNA	KNOWN	None	47897	None	None	100580392	100580498	1	None	None
HG1439_PATCH	NANOGNBP3	ENSG00000267832	ENST00000598021	processed_pseudogene	KNOWN	None	42160	None	None	100592713	100593277	-1	None	None
HG1439_PATCH	RPL21P132	ENSG00000268820	ENST00000595353	processed_pseudogene	KNOWN	None	35865	None	None	100594905	100595922	1	None	None
HG1439_PATCH	TIMM8A	ENSG00000268249	ENST00000599969	protein_coding	KNOWN	None	11817	294	97	100600649	100604184	-1	DFN1	DDP, MTS
HG1439_PATCH	TIMM8A	ENSG00000268249	ENST00000594750	processed_transcript	KNOWN	None	11817	None	None	100602425	100603737	-1	DFN1	DDP, MTS
HG1439_PATCH	BTK	ENSG00000268897	ENST00000593634	protein_coding	KNOWN	None	1133	1452	483	100604435	100641167	-1	AGMX1, IMD1	ATK, XLA, PSCTK1
HG1439_PATCH	BTK	ENSG00000268897	ENST00000593575	protein_coding	KNOWN	None	1133	1980	659	100604438	100641183	-1	AGMX1, IMD1	ATK, XLA, PSCTK1
HG1439_PATCH	BTK	ENSG00000268897	ENST00000598391	processed_transcript	KNOWN	None	1133	None	None	100608031	100608972	-1	AGMX1, IMD1	ATK, XLA, PSCTK1
HG1439_PATCH	BTK	ENSG00000268897	ENST00000599670	processed_transcript	KNOWN	None	1133	None	None	100608307	100609209	-1	AGMX1, IMD1	ATK, XLA, PSCTK1
HG1439_PATCH	BTK	ENSG00000268897	ENST00000597527	retained_intron	KNOWN	None	1133	None	None	100610573	100611792	-1	AGMX1, IMD1	ATK, XLA, PSCTK1
HG1439_PATCH	BTK	ENSG00000268897	ENST00000598311	retained_intron	KNOWN	None	1133	None	None	100611499	100613349	-1	AGMX1, IMD1	ATK, XLA, PSCTK1
HG1439_PATCH	BTK	ENSG00000268897	ENST00000600563	processed_transcript	KNOWN	None	1133	None	None	100617179	100617803	-1	AGMX1, IMD1	ATK, XLA, PSCTK1
HG1439_PATCH	BTK	ENSG00000268897	ENST00000600254	processed_transcript	KNOWN	None	1133	None	None	100629294	100641136	-1	AGMX1, IMD1	ATK, XLA, PSCTK1
HG1439_PATCH	RPL36A	ENSG00000269315	ENST00000599008	protein_coding	KNOWN	None	10359	429	142	100645812	100651105	1	RPL44	L36A
HG1439_PATCH	RPL36A	ENSG00000269315	ENST00000600969	protein_coding	KNOWN	None	10359	321	106	100645948	100650782	1	RPL44	L36A
HG1439_PATCH	RPL36A	ENSG00000269315	ENST00000598579	protein_coding	PUTATIVE	None	10359	394	130	100645977	100650781	1	RPL44	L36A
HG1439_PATCH	RPL36A	ENSG00000269315	ENST00000595266	retained_intron	KNOWN	None	10359	None	None	100645999	100646957	1	RPL44	L36A
HG1439_PATCH	RPL36A	ENSG00000269315	ENST00000600503	retained_intron	KNOWN	None	10359	None	None	100645999	100648840	1	RPL44	L36A
HG1439_PATCH	RPL36A	ENSG00000269315	ENST00000594831	nonsense_mediated_decay	KNOWN	None	10359	241	79	100646004	100650774	1	RPL44	L36A
HG1439_PATCH	RPL36A	ENSG00000269315	ENST00000600542	retained_intron	KNOWN	None	10359	None	None	100646102	100650783	1	RPL44	L36A
HG1439_PATCH	RPL36A	ENSG00000269315	ENST00000599773	protein_coding	PUTATIVE	None	10359	78	25	100646190	100650783	1	RPL44	L36A
HG1439_PATCH	RPL36A	ENSG00000269315	ENST00000596376	retained_intron	KNOWN	None	10359	None	None	100650141	100650783	1	RPL44	L36A
HG1439_PATCH	RPL36A-HNRNPH2	ENSG00000269719	ENST00000594835	protein_coding	NOVEL	None	48349	267	88	100645999	100667285	1	None	None
HG1439_PATCH	RPL36A-HNRNPH2	ENSG00000269719	ENST00000595729	protein_coding	NOVEL	None	48349	389	128	100646000	100667153	1	None	None
HG1439_PATCH	GLA	ENSG00000268815	ENST00000601677	processed_transcript	KNOWN	None	4296	None	None	100652791	100662784	-1	None	GALA
HG1439_PATCH	GLA	ENSG00000268815	ENST00000598114	protein_coding	KNOWN	None	4296	1290	429	100652791	100662913	-1	None	GALA
HG1439_PATCH	GLA	ENSG00000268815	ENST00000595477	processed_transcript	KNOWN	None	4296	None	None	100652795	100653682	-1	None	GALA
HG1439_PATCH	GLA	ENSG00000268815	ENST00000595551	processed_transcript	KNOWN	None	4296	None	None	100653504	100655841	-1	None	GALA
HG1439_PATCH	GLA	ENSG00000268815	ENST00000598957	processed_transcript	KNOWN	None	4296	None	None	100653800	100662821	-1	None	GALA
HG1439_PATCH	GLA	ENSG00000268815	ENST00000595983	processed_transcript	KNOWN	None	4296	None	None	100653896	100662821	-1	None	GALA
HG1439_PATCH	GLA	ENSG00000268815	ENST00000594437	processed_transcript	KNOWN	None	4296	None	None	100656358	100662875	-1	None	GALA
HG1439_PATCH	HNRNPH2	ENSG00000268642	ENST00000602060	protein_coding	KNOWN	None	5042	1350	449	100663283	100669121	1	HNRPH2	hnRNPH', FTP3, HNRPH'
HG1439_PATCH	ARMCX4	ENSG00000268722	ENST00000594600	nonsense_mediated_decay	KNOWN	None	28615	1083	360	100673275	100788446	1	CXorf35	MGC40053
HG1439_PATCH	ARMCX4	ENSG00000268722	ENST00000601115	processed_transcript	KNOWN	None	28615	None	None	100673286	100701120	1	CXorf35	MGC40053
HG1439_PATCH	ARMCX4	ENSG00000268722	ENST00000598611	processed_transcript	KNOWN	None	28615	None	None	100673287	100674171	1	CXorf35	MGC40053
HG1439_PATCH	ARMCX4	ENSG00000268722	ENST00000594848	processed_transcript	KNOWN	None	28615	None	None	100673770	100702865	1	CXorf35	MGC40053
HG1439_PATCH	ARMCX4	ENSG00000268722	ENST00000595060	nonsense_mediated_decay	KNOWN	None	28615	156	51	100740241	100771941	1	CXorf35	MGC40053
HG1439_PATCH	ARMCX4	ENSG00000268722	ENST00000597143	nonsense_mediated_decay	KNOWN	None	28615	1083	360	100740420	100788446	1	CXorf35	MGC40053
HG1439_PATCH	ARMCX4	ENSG00000268722	ENST00000593453	nonsense_mediated_decay	KNOWN	None	28615	1047	348	100740440	100754031	1	CXorf35	MGC40053
HG1439_PATCH	ARMCX4	ENSG00000268722	ENST00000597383	nonsense_mediated_decay	KNOWN	None	28615	156	51	100740443	100788446	1	CXorf35	MGC40053
HG1439_PATCH	ARMCX4	ENSG00000268722	ENST00000597859	nonsense_mediated_decay	KNOWN	None	28615	1047	348	100740462	100788446	1	CXorf35	MGC40053
HG1439_PATCH	ARMCX4	ENSG00000268722	ENST00000600986	protein_coding	PUTATIVE	None	28615	6873	2290	100743031	100750794	1	CXorf35	MGC40053
HG1439_PATCH	None	ENSG00000268415	ENST00000598206	miRNA	NOVEL	None	None	None	None	100682381	100682483	-1	None	None
HG1439_PATCH	None	ENSG00000267817	ENST00000600471	processed_pseudogene	KNOWN	None	None	None	None	100698695	100699091	-1	None	None
HG1439_PATCH	None	ENSG00000268633	ENST00000595351	processed_pseudogene	KNOWN	None	None	None	None	100792472	100794263	-1	None	None
HG1439_PATCH	ARMCX1	ENSG00000269801	ENST00000601441	protein_coding	KNOWN	None	18073	1362	453	100805518	100809687	1	None	ALEX1
HG1439_PATCH	None	ENSG00000268935	ENST00000595488	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	100852497	100853058	1	None	None
HG1439_PATCH	None	ENSG00000268935	ENST00000602343	processed_transcript	KNOWN	None	None	None	None	100853004	100853658	1	None	None
HG1439_PATCH	ARMCX6	ENSG00000268213	ENST00000598407	processed_transcript	KNOWN	None	26094	None	None	100870107	100872897	-1	None	FLJ20811
HG1439_PATCH	ARMCX6	ENSG00000268213	ENST00000597206	protein_coding	KNOWN	None	26094	903	300	100870107	100872988	-1	None	FLJ20811
HG1439_PATCH	ARMCX6	ENSG00000268213	ENST00000593478	protein_coding	KNOWN	None	26094	903	300	100870113	100872988	-1	None	FLJ20811
HG1439_PATCH	ARMCX6	ENSG00000268213	ENST00000595156	protein_coding	KNOWN	None	26094	903	300	100870113	100872988	-1	None	FLJ20811
HG1439_PATCH	ARMCX6	ENSG00000268213	ENST00000595475	processed_transcript	KNOWN	None	26094	None	None	100870500	100872900	-1	None	FLJ20811
HG1439_PATCH	ARMCX6	ENSG00000268213	ENST00000597535	processed_transcript	KNOWN	None	26094	None	None	100871200	100872987	-1	None	FLJ20811
HG1439_PATCH	ARMCX6	ENSG00000268213	ENST00000594181	processed_transcript	KNOWN	None	26094	None	None	100871383	100872963	-1	None	FLJ20811
HG1439_PATCH	ARMCX6	ENSG00000268213	ENST00000596328	processed_transcript	KNOWN	None	26094	None	None	100871849	100872901	-1	None	FLJ20811
HG1439_PATCH	ARMCX3	ENSG00000269173	ENST00000598606	protein_coding	KNOWN	None	24065	1140	379	100877784	100882830	1	None	ALEX3
HG1439_PATCH	ARMCX3	ENSG00000269173	ENST00000601377	protein_coding	KNOWN	None	24065	1140	379	100878076	100881471	1	None	ALEX3
HG1439_PATCH	ARMCX3	ENSG00000269173	ENST00000599615	protein_coding	KNOWN	None	24065	283	93	100878114	100880249	1	None	ALEX3
HG1439_PATCH	ARMCX3	ENSG00000269173	ENST00000600893	protein_coding	KNOWN	None	24065	191	62	100878115	100880157	1	None	ALEX3
HG1439_PATCH	ARMCX3	ENSG00000269173	ENST00000599608	processed_transcript	KNOWN	None	24065	None	None	100878162	100879519	1	None	ALEX3
HG1439_PATCH	ARMCX3	ENSG00000269173	ENST00000597022	processed_transcript	KNOWN	None	24065	None	None	100878243	100879939	1	None	ALEX3
HG1439_PATCH	ARMCX3	ENSG00000269173	ENST00000601244	protein_coding	KNOWN	None	24065	1140	379	100878348	100882828	1	None	ALEX3
HG1439_PATCH	ARMCX3-AS1	ENSG00000268497	ENST00000601932	antisense	KNOWN	None	41038	None	None	100877970	100879151	-1	None	None
HG1439_PATCH	None	ENSG00000267853	ENST00000594302	sense_overlapping	KNOWN	None	None	None	None	100882855	100883505	1	None	None
HG1439_PATCH	RNU6-30P	ENSG00000269258	ENST00000599527	snRNA	KNOWN	None	34274	None	None	100888993	100889099	-1	RNU6-30	None
HG1439_PATCH	ARMCX2	ENSG00000268151	ENST00000596872	protein_coding	KNOWN	None	16869	1899	632	100910268	100913636	-1	None	ALEX2, KIAA0512
HG1439_PATCH	ARMCX2	ENSG00000268151	ENST00000597913	protein_coding	KNOWN	None	16869	1899	632	100910268	100914831	-1	None	ALEX2, KIAA0512
HG1439_PATCH	ARMCX2	ENSG00000268151	ENST00000597565	protein_coding	KNOWN	None	16869	1899	632	100910454	100914878	-1	None	ALEX2, KIAA0512
HG1439_PATCH	ARMCX2	ENSG00000268151	ENST00000596720	protein_coding	KNOWN	None	16869	502	166	100912074	100914821	-1	None	ALEX2, KIAA0512
HG1439_PATCH	ARMCX2	ENSG00000268151	ENST00000601775	protein_coding	KNOWN	None	16869	496	164	100912080	100913608	-1	None	ALEX2, KIAA0512
HG1439_PATCH	ARMCX2	ENSG00000268151	ENST00000600085	protein_coding	KNOWN	None	16869	314	103	100912262	100914822	-1	None	ALEX2, KIAA0512
HG1439_PATCH	ARMCX2	ENSG00000268151	ENST00000594985	protein_coding	KNOWN	None	16869	278	91	100912298	100914818	-1	None	ALEX2, KIAA0512
HG1439_PATCH	ARMCX2	ENSG00000268151	ENST00000600267	processed_transcript	KNOWN	None	16869	None	None	100912344	100913581	-1	None	ALEX2, KIAA0512
HG1439_PATCH	ARMCX2	ENSG00000268151	ENST00000596394	protein_coding	KNOWN	None	16869	188	61	100912388	100914783	-1	None	ALEX2, KIAA0512
HG1439_PATCH	ARMCX2	ENSG00000268151	ENST00000601818	processed_transcript	KNOWN	None	16869	None	None	100912505	100914823	-1	None	ALEX2, KIAA0512
HG1439_PATCH	ARMCX2	ENSG00000268151	ENST00000595219	processed_transcript	KNOWN	None	16869	None	None	100912654	100914820	-1	None	ALEX2, KIAA0512
HG1439_PATCH	ARMCX2	ENSG00000268151	ENST00000597798	processed_transcript	KNOWN	None	16869	None	None	100913068	100914164	-1	None	ALEX2, KIAA0512
HG1439_PATCH	ARMCX2	ENSG00000268151	ENST00000601308	processed_transcript	KNOWN	None	16869	None	None	100914187	100914817	-1	None	ALEX2, KIAA0512
HG1439_PATCH	None	ENSG00000268198	ENST00000599585	processed_pseudogene	KNOWN	None	None	None	None	100938767	100939436	1	None	None
HG1439_PATCH	RNU6-587P	ENSG00000269341	ENST00000599090	snRNA	KNOWN	None	47550	None	None	100946567	100946672	1	None	None
HG1440_PATCH	TCEAL6	ENSG00000268377	ENST00000598476	protein_coding	KNOWN	None	24553	552	183	101395448	101397477	-1	None	None
HG1440_PATCH	TCEAL6	ENSG00000268377	ENST00000597954	protein_coding	KNOWN	None	24553	552	183	101395682	101397942	-1	None	None
HG1440_PATCH	BEX5	ENSG00000269503	ENST00000602137	protein_coding	KNOWN	None	27990	336	111	101408680	101410762	-1	NGFRAP1L1	None
HG1440_PATCH	BEX5	ENSG00000269503	ENST00000594094	protein_coding	KNOWN	None	27990	336	111	101408684	101411029	-1	NGFRAP1L1	None
HG1440_PATCH	BEX5	ENSG00000269503	ENST00000599463	processed_transcript	KNOWN	None	27990	None	None	101409712	101410762	-1	NGFRAP1L1	None
HG1440_PATCH	TCP11X3P	ENSG00000269817	ENST00000595365	transcribed_unprocessed_pseudogene	KNOWN	None	48370	None	None	101428072	101439993	1	None	None
HG1440_PATCH	TCP11X3P	ENSG00000269817	ENST00000597290	processed_transcript	KNOWN	None	48370	None	None	101437287	101439871	1	None	None
HG1440_PATCH	None	ENSG00000268235	ENST00000597070	protein_coding	NOVEL	None	None	1224	407	101470273	101481763	1	None	None
HG1440_PATCH	None	ENSG00000268235	ENST00000596869	protein_coding	NOVEL	None	None	1533	510	101470273	101481536	1	None	None
HG1440_PATCH	None	ENSG00000269405	ENST00000604790	protein_coding	NOVEL	None	None	1713	570	101571784	101581690	1	None	None
HG1440_PATCH	None	ENSG00000269405	ENST00000600904	protein_coding	KNOWN	None	None	1881	626	101502072	101581691	1	None	None
HG1440_PATCH	None	ENSG00000269437	ENST00000604395	protein_coding	NOVEL	None	None	1713	570	101615369	101625275	-1	None	None
HG1440_PATCH	None	ENSG00000269437	ENST00000602195	protein_coding	KNOWN	None	None	1881	626	101615368	101694980	-1	None	None
HG1440_PATCH	None	ENSG00000268294	ENST00000599869	unitary_pseudogene	KNOWN	None	None	None	None	101680400	101683046	-1	None	None
HG1440_PATCH	None	ENSG00000268029	ENST00000598061	protein_coding	KNOWN	None	None	1533	510	101715518	101726784	-1	None	None
HG1440_PATCH	None	ENSG00000268029	ENST00000601491	protein_coding	KNOWN	None	None	1224	407	101715291	101726784	-1	None	None
HG1440_PATCH	TMSB15A	ENSG00000268368	ENST00000601407	protein_coding	KNOWN	None	30744	138	45	101768648	101771756	-1	TMSL8	TMSNB
HG1441_PATCH	None	ENSG00000268558	ENST00000599162	processed_pseudogene	KNOWN	None	None	None	None	103159251	103159683	-1	None	None
HG1441_PATCH	None	ENSG00000269822	ENST00000595150	processed_pseudogene	KNOWN	None	None	None	None	103165234	103166281	-1	None	None
HG1441_PATCH	None	ENSG00000269065	ENST00000597247	processed_pseudogene	KNOWN	None	None	None	None	103183028	103183946	1	None	None
HG1441_PATCH	DPPA3P1	ENSG00000269625	ENST00000598275	processed_pseudogene	KNOWN	None	32345	None	None	103216738	103217220	-1	None	None
HG1441_PATCH	DPPA3P1	ENSG00000269625	ENST00000601625	processed_pseudogene	KNOWN	None	32345	None	None	103216740	103217208	-1	None	None
HG1441_PATCH	None	ENSG00000268667	ENST00000600894	protein_coding	NOVEL	None	None	138	45	103217580	103221224	1	None	None
HG1441_PATCH	None	ENSG00000267820	ENST00000598335	processed_pseudogene	KNOWN	None	None	None	None	103230754	103231249	1	None	None
HG1441_PATCH	H2BFWT	ENSG00000268381	ENST00000598499	protein_coding	KNOWN	None	27252	528	175	103266076	103268616	-1	None	None
HG1441_PATCH	H2BFM	ENSG00000269685	ENST00000597637	protein_coding	KNOWN	None	27867	774	257	103268626	103297382	1	None	None
HG1441_PATCH	H2BFM	ENSG00000269685	ENST00000596101	protein_coding	NOVEL	None	27867	465	154	103294878	103297383	1	None	None
HG1441_PATCH	H2BFM	ENSG00000269685	ENST00000596976	protein_coding	NOVEL	None	27867	159	52	103295212	103297383	1	None	None
HG1441_PATCH	None	ENSG00000269226	ENST00000598087	protein_coding	NOVEL	None	None	138	45	103327497	103331141	-1	None	None
HG1441_PATCH	None	ENSG00000269518	ENST00000600861	processed_pseudogene	NOVEL	None	None	None	None	103331501	103331983	1	None	None
HG1441_PATCH	None	ENSG00000269743	ENST00000594199	protein_coding	KNOWN	None	None	924	307	103354144	103411956	-1	None	None
HG1441_PATCH	ZCCHC18	ENSG00000268176	ENST00000597526	processed_transcript	KNOWN	None	32459	None	None	103367060	103367801	1	None	SIZN2, PNMA7B
HG1441_PATCH	ZCCHC18	ENSG00000268176	ENST00000594146	processed_transcript	KNOWN	None	32459	None	None	103367473	103370771	1	None	SIZN2, PNMA7B
HG1441_PATCH	ZCCHC18	ENSG00000268176	ENST00000605835	processed_transcript	KNOWN	None	32459	None	None	103367816	103368569	1	None	SIZN2, PNMA7B
HG1441_PATCH	ZCCHC18	ENSG00000268176	ENST00000605256	processed_transcript	KNOWN	None	32459	None	None	103367818	103368509	1	None	SIZN2, PNMA7B
HG1441_PATCH	ZCCHC18	ENSG00000268176	ENST00000599283	protein_coding	PUTATIVE	None	32459	1212	403	103369041	103370288	1	None	SIZN2, PNMA7B
HG1441_PATCH	FAM199X	ENSG00000268570	ENST00000599396	protein_coding	KNOWN	None	25195	1167	388	103421549	103450831	1	CXorf39	None
HG1441_PATCH	FAM199X	ENSG00000268570	ENST00000601017	processed_transcript	KNOWN	None	25195	None	None	103441047	103446375	1	CXorf39	None
HG1441_PATCH	ESX1	ENSG00000268259	ENST00000595622	protein_coding	KNOWN	None	14865	1221	406	103504967	103509862	-1	ESX1L	ESXR1
HG375_PATCH	IL1RAPL2	ENSG00000269512	ENST00000594988	protein_coding	KNOWN	None	5997	2061	686	103810996	105011820	1	None	IL-1R9, TIGIRR-1, IL1RAPL-2, IL1R9
HG375_PATCH	IL1RAPL2	ENSG00000269512	ENST00000593441	protein_coding	KNOWN	None	5997	2061	686	103903595	105011652	1	None	IL-1R9, TIGIRR-1, IL1RAPL-2, IL1R9
HG375_PATCH	IL1RAPL2	ENSG00000269512	ENST00000595914	processed_transcript	KNOWN	None	5997	None	None	104984640	105009336	1	None	IL-1R9, TIGIRR-1, IL1RAPL-2, IL1R9
HG375_PATCH	IL1RAPL2	ENSG00000269512	ENST00000595572	protein_coding	KNOWN	None	5997	876	291	104996731	105012100	1	None	IL-1R9, TIGIRR-1, IL1RAPL-2, IL1R9
HG375_PATCH	None	ENSG00000268629	ENST00000600991	protein_coding	NOVEL	None	None	1230	409	104463614	104465356	-1	None	None
HG1434_PATCH	None	ENSG00000268918	ENST00000594758	processed_pseudogene	KNOWN	None	None	None	None	112765709	112766216	1	None	None
HG1434_PATCH	None	ENSG00000268918	ENST00000594040	processed_pseudogene	KNOWN	None	None	None	None	112765718	112766221	1	None	None
HG1434_PATCH	None	ENSG00000269674	ENST00000594554	lincRNA	KNOWN	None	None	None	None	112859527	113181445	-1	None	None
HG1434_PATCH	None	ENSG00000271703	ENST00000603369	processed_pseudogene	KNOWN	None	None	None	None	113125817	113126894	1	None	None
HG1434_PATCH	None	ENSG00000268305	ENST00000595273	snoRNA	NOVEL	None	None	None	None	113187414	113187626	-1	None	None
HG1434_PATCH	RNU1-57P	ENSG00000269756	ENST00000598037	snRNA	KNOWN	None	48399	None	None	113193144	113193309	1	None	None
HG1434_PATCH	RN7SL93P	ENSG00000269508	ENST00000594675	misc_RNA	KNOWN	None	46109	None	None	113219570	113219860	-1	None	None
HG1434_PATCH	None	ENSG00000268911	ENST00000593849	snoRNA	NOVEL	None	None	None	None	113260260	113260329	1	None	None
HG1462_PATCH	None	ENSG00000269092	ENST00000601200	processed_pseudogene	KNOWN	None	None	None	None	113625458	113625625	-1	None	None
HG1462_PATCH	None	ENSG00000271556	ENST00000602991	processed_pseudogene	KNOWN	None	None	None	None	113625605	113626424	1	None	None
HG1462_PATCH	SSU72P1	ENSG00000268796	ENST00000602018	processed_pseudogene	KNOWN	None	43620	None	None	113627144	113627726	1	None	None
HG1462_PATCH	HTR2C	ENSG00000269075	ENST00000596198	protein_coding	KNOWN	None	5295	1377	458	113820548	114144977	1	HTR1C	5-HT2C
HG1462_PATCH	HTR2C	ENSG00000269075	ENST00000594916	protein_coding	KNOWN	None	5295	1377	458	113820548	114146531	1	HTR1C	5-HT2C
HG1462_PATCH	HTR2C	ENSG00000269075	ENST00000602228	protein_coding	KNOWN	None	5295	747	248	113820552	114146531	1	HTR1C	5-HT2C
HG1462_PATCH	RPL36AP53	ENSG00000269461	ENST00000598645	processed_pseudogene	KNOWN	None	36517	None	None	113826090	113826405	1	None	None
HG1462_PATCH	SNORA35	ENSG00000269368	ENST00000602208	snoRNA	KNOWN	None	32625	None	None	113867267	113867394	1	None	HBI-36
HG1462_PATCH	None	ENSG00000268634	ENST00000596935	miRNA	NOVEL	None	None	None	None	113872730	113872836	1	None	None
HG1462_PATCH	MIR764	ENSG00000269740	ENST00000597536	miRNA	KNOWN	None	37306	None	None	113875905	113875989	1	None	hsa-mir-764
HG1462_PATCH	MIR1912	ENSG00000268450	ENST00000601359	miRNA	KNOWN	None	35396	None	None	113888014	113888093	1	MIRN1912	hsa-mir-1912
HG1462_PATCH	MIR1298	ENSG00000268137	ENST00000599963	miRNA	KNOWN	None	35258	None	None	113951703	113951814	1	MIRN1298	hsa-mir-1298
HG1462_PATCH	HTR2C-IT1	ENSG00000268060	ENST00000599465	sense_intronic	KNOWN	None	41344	None	None	113994563	113997408	1	None	None
HG1462_PATCH	MIR1911	ENSG00000269213	ENST00000597659	miRNA	KNOWN	None	35395	None	None	113999654	113999733	1	MIRN1911	hsa-mir-1911
HG1462_PATCH	HSPA8P7	ENSG00000268607	ENST00000598123	processed_pseudogene	KNOWN	None	44922	None	None	114011298	114013245	-1	None	None
HG1462_PATCH	MIR448	ENSG00000268661	ENST00000597235	miRNA	KNOWN	None	26069	None	None	114059924	114060034	1	MIRN448	hsa-mir-448
HG1462_PATCH	None	ENSG00000271212	ENST00000605556	processed_pseudogene	KNOWN	None	None	None	None	114136829	114137044	-1	None	None
HG1462_PATCH	IL13RA2	ENSG00000268456	ENST00000601634	protein_coding	KNOWN	None	5975	1143	380	114240445	114255443	-1	None	IL-13R, IL13BP, CD213a2, CT19
HG1462_PATCH	IL13RA2	ENSG00000268456	ENST00000599692	protein_coding	KNOWN	None	5975	1143	380	114240447	114254114	-1	None	IL-13R, IL13BP, CD213a2, CT19
HG1462_PATCH	IL13RA2	ENSG00000268456	ENST00000601273	processed_transcript	KNOWN	None	5975	None	None	114250996	114256447	-1	None	IL-13R, IL13BP, CD213a2, CT19
HG1462_PATCH	RNU6-648P	ENSG00000268131	ENST00000598017	snRNA	KNOWN	None	47611	None	None	114268897	114269003	1	None	None
HG1462_PATCH	None	ENSG00000268045	ENST00000594757	processed_pseudogene	KNOWN	None	None	None	None	114300406	114301264	-1	None	None
HG1462_PATCH	YAP1P2	ENSG00000268715	ENST00000597722	processed_pseudogene	KNOWN	None	38017	None	None	114305707	114306316	1	None	None
HG1462_PATCH	LRCH2	ENSG00000268417	ENST00000597734	protein_coding	KNOWN	None	29292	2298	765	114347092	114470542	-1	None	KIAA1495
HG1462_PATCH	LRCH2	ENSG00000268417	ENST00000598874	protein_coding	KNOWN	None	29292	2247	748	114347593	114470535	-1	None	KIAA1495
HG1462_PATCH	None	ENSG00000269023	ENST00000595640	snoRNA	NOVEL	None	None	None	None	114362786	114362914	-1	None	None
HG1462_PATCH	None	ENSG00000268180	ENST00000596761	misc_RNA	NOVEL	None	None	None	None	114375500	114375593	-1	None	None
HG1462_PATCH	RBMXL3	ENSG00000269572	ENST00000598507	protein_coding	KNOWN	None	26859	3204	1067	114425870	114429338	1	CXorf55	FLJ40249
HG1462_PATCH	RPL36P18	ENSG00000268014	ENST00000595614	processed_pseudogene	KNOWN	None	36856	None	None	114434902	114435219	1	None	None
HG1462_PATCH	LUZP4	ENSG00000267900	ENST00000594282	protein_coding	KNOWN	None	24971	237	78	114526197	114544024	1	None	HOM-TES-85, CT-8, CT28
HG1462_PATCH	LUZP4	ENSG00000267900	ENST00000596804	protein_coding	KNOWN	None	24971	696	231	114526197	114544024	1	None	HOM-TES-85, CT-8, CT28
HG1462_PATCH	LUZP4	ENSG00000267900	ENST00000600580	protein_coding	KNOWN	None	24971	942	313	114526223	114544026	1	None	HOM-TES-85, CT-8, CT28
HG1462_PATCH	None	ENSG00000271069	ENST00000603940	processed_pseudogene	KNOWN	None	None	None	None	114691203	114691664	-1	None	None
HG1462_PATCH	None	ENSG00000272184	ENST00000606094	antisense	KNOWN	None	None	None	None	114754652	114799201	-1	None	None
HG1462_PATCH	None	ENSG00000272184	ENST00000607030	antisense	KNOWN	None	None	None	None	114756954	114799177	-1	None	None
HG1462_PATCH	None	ENSG00000268145	ENST00000597087	snoRNA	NOVEL	None	None	None	None	114782107	114782187	1	None	None
HG1462_PATCH	PLS3	ENSG00000268767	ENST00000598593	nonsense_mediated_decay	KNOWN	None	9091	129	42	114797644	114866386	1	None	T-plastin
HG1462_PATCH	PLS3	ENSG00000268767	ENST00000602045	protein_coding	KNOWN	None	9091	1893	630	114797652	114887327	1	None	T-plastin
HG1462_PATCH	PLS3	ENSG00000268767	ENST00000596511	protein_coding	KNOWN	None	9091	1854	617	114797698	114886228	1	None	T-plastin
HG1462_PATCH	PLS3	ENSG00000268767	ENST00000599970	protein_coding	NOVEL	None	9091	1785	594	114797725	114886228	1	None	T-plastin
HG1462_PATCH	PLS3	ENSG00000268767	ENST00000595829	protein_coding	KNOWN	None	9091	1893	630	114829977	114887331	1	None	T-plastin
HG1462_PATCH	PLS3	ENSG00000268767	ENST00000599634	nonsense_mediated_decay	KNOWN	None	9091	129	42	114830023	114886526	1	None	T-plastin
HG1462_PATCH	PLS3	ENSG00000268767	ENST00000594997	protein_coding	KNOWN	None	9091	1758	585	114830023	114886526	1	None	T-plastin
HG1462_PATCH	PLS3	ENSG00000268767	ENST00000600649	protein_coding	PUTATIVE	None	9091	492	163	114846713	114870551	1	None	T-plastin
HG1462_PATCH	PLS3	ENSG00000268767	ENST00000593390	protein_coding	PUTATIVE	None	9091	568	188	114876188	114882901	1	None	T-plastin
HG1462_PATCH	PLS3	ENSG00000268767	ENST00000596777	retained_intron	KNOWN	None	9091	None	None	114876774	114882627	1	None	T-plastin
HG1462_PATCH	PLS3	ENSG00000268767	ENST00000599098	protein_coding	PUTATIVE	None	9091	261	86	114876878	114886460	1	None	T-plastin
HG1462_PATCH	PLS3	ENSG00000268767	ENST00000593934	protein_coding	KNOWN	None	9091	675	224	114876909	114886172	1	None	T-plastin
HG1462_PATCH	None	ENSG00000271132	ENST00000605208	processed_pseudogene	KNOWN	None	None	None	None	114896183	114896492	1	None	None
HG1462_PATCH	ASS1P5	ENSG00000268727	ENST00000601598	processed_pseudogene	KNOWN	None	768	None	None	114901365	114902603	1	ASSP5	None
HG1462_PATCH	EEF1GP5	ENSG00000271915	ENST00000606625	processed_pseudogene	KNOWN	None	44560	None	None	114939281	114940590	1	None	None
HG1462_PATCH	None	ENSG00000269218	ENST00000600052	miRNA	NOVEL	None	None	None	None	114940282	114940337	1	None	None
HG1462_PATCH	None	ENSG00000269390	ENST00000599321	protein_coding	NOVEL	None	None	288	95	114954800	114955819	-1	None	None
HG1462_PATCH	None	ENSG00000269566	ENST00000600207	pseudogene	NOVEL	None	None	None	None	114955250	114955835	-1	None	None
HG1463_PATCH	None	ENSG00000268770	ENST00000593811	antisense	KNOWN	None	None	None	None	114957297	114959381	1	None	None
HG1463_PATCH	None	ENSG00000268770	ENST00000597587	antisense	KNOWN	None	None	None	None	114957343	114959383	1	None	None
HG1463_PATCH	None	ENSG00000267996	ENST00000596796	processed_transcript	KNOWN	None	None	None	None	115032519	115085422	-1	None	None
HG1463_PATCH	RN7SL712P	ENSG00000268127	ENST00000595482	misc_RNA	KNOWN	None	46728	None	None	115108801	115109100	-1	None	None
HG1463_PATCH	AKR1B1P8	ENSG00000269183	ENST00000598888	processed_pseudogene	KNOWN	None	33496	None	None	115159816	115160751	1	None	None
HG1463_PATCH	API5P1	ENSG00000268389	ENST00000596197	processed_pseudogene	KNOWN	None	595	None	None	115223254	115224763	-1	API5L1	None
HG1463_PATCH	AGTR2	ENSG00000269602	ENST00000601039	protein_coding	KNOWN	None	338	1092	363	115287055	115291305	1	None	AT2, MRX88
HG1463_PATCH	RNU6-154P	ENSG00000269582	ENST00000598791	snRNA	KNOWN	None	47117	None	None	115517181	115517286	-1	None	None
HG1463_PATCH	None	ENSG00000268104	ENST00000598581	protein_coding	NOVEL	None	None	1929	642	115552912	115575288	1	None	None
HG1463_PATCH	CXorf61	ENSG00000269010	ENST00000599215	protein_coding	KNOWN	None	33494	342	113	115578015	115579336	-1	None	KK-LC-1, FLJ20611, FLJ22913, CT83
HG1490_PATCH	None	ENSG00000268363	ENST00000598401	unprocessed_pseudogene	KNOWN	None	None	None	None	115803778	115814271	-1	None	None
HG1490_PATCH	None	ENSG00000268703	ENST00000593930	unprocessed_pseudogene	KNOWN	None	None	None	None	115822838	115824153	1	None	None
HG1490_PATCH	None	ENSG00000269070	ENST00000597857	lincRNA	KNOWN	None	None	None	None	115826878	115828156	-1	None	None
HG1490_PATCH	None	ENSG00000269080	ENST00000600857	processed_pseudogene	KNOWN	None	None	None	None	115882498	115882845	-1	None	None
HG1442_PATCH	None	ENSG00000269286	ENST00000593454	lincRNA	KNOWN	None	None	None	None	119144681	119149507	-1	None	None
HG1442_PATCH	None	ENSG00000268748	ENST00000601245	antisense	KNOWN	None	None	None	None	119170199	119280817	1	None	None
HG1442_PATCH	None	ENSG00000268748	ENST00000600082	antisense	KNOWN	None	None	None	None	119254513	119261063	1	None	None
HG1442_PATCH	None	ENSG00000268748	ENST00000598241	antisense	KNOWN	None	None	None	None	119254515	119255825	1	None	None
HG1442_PATCH	RHOXF2B	ENSG00000267960	ENST00000601882	protein_coding	KNOWN	None	33519	867	288	119205846	119211705	-1	None	None
HG1442_PATCH	RHOXF1	ENSG00000268349	ENST00000597523	protein_coding	KNOWN	None	29993	555	184	119243016	119249900	-1	None	OTEX, PEPP1
HG1442_PATCH	None	ENSG00000269105	ENST00000593947	lincRNA	KNOWN	None	None	None	None	119251605	119253663	-1	None	None
HG1442_PATCH	RHOXF2	ENSG00000268919	ENST00000595841	protein_coding	KNOWN	None	30011	867	288	119292524	119298002	1	None	THG1, PEPP-2, PEPP2, CT107
HG1442_PATCH	None	ENSG00000268542	ENST00000597092	processed_pseudogene	KNOWN	None	None	None	None	119336024	119336711	-1	None	None
HG1442_PATCH	EEF1A1P30	ENSG00000269500	ENST00000598617	processed_pseudogene	KNOWN	None	37906	None	None	119344424	119346643	-1	None	None
HG1442_PATCH	ZBTB33	ENSG00000269603	ENST00000599507	protein_coding	KNOWN	None	16682	2019	672	119384715	119392361	1	None	ZNF-kaiso, kaiso, WUGSC:H_DJ525N14.1, KAISO, ZNF348
HG1442_PATCH	ZBTB33	ENSG00000269603	ENST00000602186	protein_coding	KNOWN	None	16682	2019	672	119384718	119389397	1	None	ZNF-kaiso, kaiso, WUGSC:H_DJ525N14.1, KAISO, ZNF348
HG1442_PATCH	TMEM255A	ENSG00000268760	ENST00000596779	protein_coding	KNOWN	None	26086	1050	349	119392613	119445396	-1	FAM70A	FLJ20716
HG1442_PATCH	TMEM255A	ENSG00000268760	ENST00000595610	protein_coding	KNOWN	None	26086	978	325	119392613	119445499	-1	FAM70A	FLJ20716
HG1442_PATCH	TMEM255A	ENSG00000268760	ENST00000594129	protein_coding	KNOWN	None	26086	558	185	119392614	119419954	-1	FAM70A	FLJ20716
HG1442_PATCH	TMEM255A	ENSG00000268760	ENST00000593758	protein_coding	KNOWN	None	26086	726	241	119392614	119445499	-1	FAM70A	FLJ20716
HG1442_PATCH	TMEM255A	ENSG00000268760	ENST00000594849	protein_coding	KNOWN	None	26086	448	148	119402326	119445519	-1	FAM70A	FLJ20716
HG1442_PATCH	TMEM255A	ENSG00000268760	ENST00000600666	processed_transcript	KNOWN	None	26086	None	None	119443856	119445365	-1	FAM70A	FLJ20716
HG1442_PATCH	None	ENSG00000268370	ENST00000596182	processed_pseudogene	KNOWN	None	None	None	None	119407090	119407489	1	None	None
HG1443_HG1444_PATCH	NCLP2	ENSG00000268511	ENST00000597665	processed_pseudogene	KNOWN	None	35473	None	None	134209166	134210627	-1	None	bA85L21.1
HG1443_HG1444_PATCH	LINC00087	ENSG00000269631	ENST00000599384	lincRNA	KNOWN	None	34500	None	None	134229058	134232664	-1	NCRNA00087	RP11-85L21.2
HG1443_HG1444_PATCH	LINC00087	ENSG00000269631	ENST00000596231	lincRNA	KNOWN	None	34500	None	None	134232427	134232630	-1	NCRNA00087	RP11-85L21.2
HG1443_HG1444_PATCH	None	ENSG00000268559	ENST00000602036	processed_transcript	KNOWN	None	None	None	None	134250788	134257982	1	None	None
HG1443_HG1444_PATCH	LINC00633	ENSG00000269263	ENST00000593485	processed_transcript	KNOWN	None	44269	None	None	134252985	134253776	-1	None	None
HG1443_HG1444_PATCH	LINC00633	ENSG00000269263	ENST00000601036	processed_transcript	KNOWN	None	44269	None	None	134252985	134254556	-1	None	None
HG1443_HG1444_PATCH	None	ENSG00000269184	ENST00000599554	pseudogene	NOVEL	None	None	None	None	134253087	134253195	-1	None	None
HG1443_HG1444_PATCH	None	ENSG00000268824	ENST00000594476	lincRNA	KNOWN	None	None	None	None	134257269	134257634	-1	None	None
HG1443_HG1444_PATCH	None	ENSG00000269156	ENST00000594918	pseudogene	NOVEL	None	None	None	None	134257270	134257630	1	None	None
HG1443_HG1444_PATCH	None	ENSG00000268514	ENST00000599034	processed_pseudogene	KNOWN	None	None	None	None	134269179	134269800	-1	None	None
HG1443_HG1444_PATCH	CXorf48	ENSG00000268695	ENST00000593520	protein_coding	KNOWN	None	26047	795	264	134290566	134305428	-1	None	FLJ20527, CT55
HG1443_HG1444_PATCH	CXorf48	ENSG00000268695	ENST00000593638	protein_coding	KNOWN	None	26047	729	242	134290570	134305428	-1	None	FLJ20527, CT55
HG1443_HG1444_PATCH	None	ENSG00000268848	ENST00000598169	unprocessed_pseudogene	KNOWN	None	None	None	None	134314285	134328709	-1	None	None
HG1443_HG1444_PATCH	None	ENSG00000268600	ENST00000593763	unprocessed_pseudogene	KNOWN	None	None	None	None	134335761	134349262	1	None	None
HG1443_HG1444_PATCH	None	ENSG00000267962	ENST00000598897	miRNA	NOVEL	None	None	None	None	134340591	134340676	1	None	None
HG1443_HG1444_PATCH	None	ENSG00000269833	ENST00000600161	processed_pseudogene	KNOWN	None	None	None	None	134370823	134371378	1	None	None
HG1443_HG1444_PATCH	ZNF75D	ENSG00000269162	ENST00000599377	processed_transcript	KNOWN	None	13145	None	None	134382950	134478116	-1	ZNF82, ZNF75	ZKSCAN24, D8C6, ZSCAN28
HG1443_HG1444_PATCH	ZNF75D	ENSG00000269162	ENST00000593516	protein_coding	KNOWN	None	13145	1533	510	134419818	134478116	-1	ZNF82, ZNF75	ZKSCAN24, D8C6, ZSCAN28
HG1443_HG1444_PATCH	ZNF75D	ENSG00000269162	ENST00000597484	protein_coding	KNOWN	None	13145	1248	415	134419822	134430063	-1	ZNF82, ZNF75	ZKSCAN24, D8C6, ZSCAN28
HG1443_HG1444_PATCH	ZNF75D	ENSG00000269162	ENST00000597653	processed_transcript	KNOWN	None	13145	None	None	134420910	134425633	-1	ZNF82, ZNF75	ZKSCAN24, D8C6, ZSCAN28
HG1443_HG1444_PATCH	None	ENSG00000269442	ENST00000596912	lincRNA	KNOWN	None	None	None	None	134386606	134387588	1	None	None
HG1443_HG1444_PATCH	None	ENSG00000269442	ENST00000595869	lincRNA	KNOWN	None	None	None	None	134386822	134387613	1	None	None
HG1443_HG1444_PATCH	ZNF449	ENSG00000269327	ENST00000596735	protein_coding	KNOWN	None	21039	495	164	134478825	134483058	1	None	ZSCAN19, FLJ23614
HG1443_HG1444_PATCH	ZNF449	ENSG00000269327	ENST00000593526	protein_coding	KNOWN	None	21039	1557	518	134478825	134497181	1	None	ZSCAN19, FLJ23614
HG1443_HG1444_PATCH	ZNF449	ENSG00000269327	ENST00000594498	protein_coding	KNOWN	None	21039	384	127	134478825	134482812	1	None	ZSCAN19, FLJ23614
HG1443_HG1444_PATCH	None	ENSG00000269536	ENST00000598353	lincRNA	KNOWN	None	None	None	None	134530458	134531793	1	None	None
HG1443_HG1444_PATCH	LINC00086	ENSG00000268419	ENST00000601569	lincRNA	KNOWN	None	34499	None	None	134555972	134562103	1	NCRNA00086	MGC39606
HG1443_HG1444_PATCH	RNA5SP515	ENSG00000269260	ENST00000597177	rRNA	KNOWN	None	43415	None	None	134562197	134562314	-1	RN5S515	None
HG1443_HG1444_PATCH	CROCCP1	ENSG00000267899	ENST00000600401	processed_pseudogene	KNOWN	None	33602	None	None	134566989	134572663	1	CROCCP	None
HG1443_HG1444_PATCH	None	ENSG00000271476	ENST00000605243	processed_pseudogene	KNOWN	None	None	None	None	134598358	134599513	-1	None	None
HG1443_HG1444_PATCH	DDX26B-AS1	ENSG00000268002	ENST00000596340	antisense	KNOWN	None	41180	None	None	134654112	134654703	-1	None	None
HG1443_HG1444_PATCH	DDX26B	ENSG00000268630	ENST00000600366	protein_coding	KNOWN	None	27334	2586	861	134654688	134716538	1	None	FLJ41215
HG1443_HG1444_PATCH	DDX26B	ENSG00000268630	ENST00000598721	processed_transcript	KNOWN	None	27334	None	None	134654688	134716538	1	None	FLJ41215
HG1443_HG1444_PATCH	DDX26B	ENSG00000268630	ENST00000601082	processed_transcript	KNOWN	None	27334	None	None	134654698	134716538	1	None	FLJ41215
HG1443_HG1444_PATCH	DDX26B	ENSG00000268630	ENST00000598877	processed_transcript	KNOWN	None	27334	None	None	134713914	134716539	1	None	FLJ41215
HG1443_HG1444_PATCH	DDX26B	ENSG00000268630	ENST00000593923	processed_transcript	KNOWN	None	27334	None	None	134713966	134716531	1	None	FLJ41215
HG1443_HG1444_PATCH	None	ENSG00000268880	ENST00000597733	miRNA	NOVEL	None	None	None	None	134702596	134702695	-1	None	None
HG1443_HG1444_PATCH	None	ENSG00000268345	ENST00000599294	processed_pseudogene	KNOWN	None	None	None	None	134717680	134719189	-1	None	None
HG1443_HG1444_PATCH	None	ENSG00000269251	ENST00000593465	unprocessed_pseudogene	KNOWN	None	None	None	None	134732956	134749460	1	None	None
HG1443_HG1444_PATCH	None	ENSG00000268825	ENST00000602231	unprocessed_pseudogene	KNOWN	None	None	None	None	134807620	134820180	-1	None	None
HG1443_HG1444_PATCH	None	ENSG00000268940	ENST00000594565	protein_coding	NOVEL	None	None	570	189	134847482	134857255	1	None	None
HG1443_HG1444_PATCH	None	ENSG00000268449	ENST00000601873	processed_pseudogene	KNOWN	None	None	None	None	134864762	134866226	-1	None	None
HG1443_HG1444_PATCH	None	ENSG00000268233	ENST00000596059	processed_pseudogene	KNOWN	None	None	None	None	134885148	134886612	1	None	None
HG1443_HG1444_PATCH	CT45A3	ENSG00000269096	ENST00000597510	nonsense_mediated_decay	KNOWN	None	33268	570	189	134892386	134971309	-1	None	CT45-3, CT45.3
HG1443_HG1444_PATCH	CT45A3	ENSG00000269096	ENST00000596640	protein_coding	KNOWN	None	33268	570	189	134894186	134971309	-1	None	CT45-3, CT45.3
HG1443_HG1444_PATCH	CT45A3	ENSG00000269096	ENST00000598716	protein_coding	KNOWN	None	33268	570	189	134894188	134898473	-1	None	CT45-3, CT45.3
HG1443_HG1444_PATCH	None	ENSG00000271449	ENST00000605791	protein_coding	NOVEL	None	None	570	189	134928421	134933033	-1	None	None
HG1443_HG1444_PATCH	None	ENSG00000269178	ENST00000603436	protein_coding	NOVEL	None	None	570	189	134946011	134967570	-1	None	None
HG1443_HG1444_PATCH	None	ENSG00000269178	ENST00000595754	protein_coding	NOVEL	None	None	570	189	134946011	135002098	-1	None	None
HG1443_HG1444_PATCH	None	ENSG00000269586	ENST00000594117	protein_coding	NOVEL	None	None	570	189	134962963	135019384	-1	None	None
HG1443_HG1444_PATCH	None	ENSG00000270946	ENST00000604569	protein_coding	NOVEL	None	None	570	189	134980529	134984820	-1	None	None
HG1443_HG1444_PATCH	SAGE1	ENSG00000269820	ENST00000597367	protein_coding	KNOWN	None	30369	2715	904	135023245	135047045	1	None	SAGE, CT14
HG1443_HG1444_PATCH	SAGE1	ENSG00000269820	ENST00000601197	protein_coding	KNOWN	None	30369	2715	904	135027663	135047089	1	None	SAGE, CT14
HG1443_HG1444_PATCH	SAGE1	ENSG00000269820	ENST00000599108	protein_coding	KNOWN	None	30369	1587	528	135027763	135047045	1	None	SAGE, CT14
HG1443_HG1444_PATCH	SAGE1	ENSG00000269820	ENST00000596108	protein_coding	KNOWN	None	30369	2715	904	135030272	135047090	1	None	SAGE, CT14
HG1443_HG1444_PATCH	None	ENSG00000269017	ENST00000598257	unprocessed_pseudogene	KNOWN	None	None	None	None	135076507	135081168	-1	None	None
HG1443_HG1444_PATCH	MMGT1	ENSG00000269231	ENST00000599017	protein_coding	KNOWN	None	28100	396	131	135096099	135108092	-1	TMEM32	EMC5
HG1443_HG1444_PATCH	MMGT1	ENSG00000269231	ENST00000597272	protein_coding	KNOWN	None	28100	591	196	135096107	135107976	-1	TMEM32	EMC5
HG1443_HG1444_PATCH	SLC9A6	ENSG00000269036	ENST00000595850	protein_coding	KNOWN	None	11079	1950	649	135119468	135181168	1	None	NHE6, KIAA0267
HG1443_HG1444_PATCH	SLC9A6	ENSG00000269036	ENST00000597470	protein_coding	KNOWN	None	11079	2010	669	135119497	135181293	1	None	NHE6, KIAA0267
HG1443_HG1444_PATCH	SLC9A6	ENSG00000269036	ENST00000595964	protein_coding	KNOWN	None	11079	2106	701	135119497	135181293	1	None	NHE6, KIAA0267
HG1443_HG1444_PATCH	GAPDHP67	ENSG00000268807	ENST00000601936	processed_pseudogene	KNOWN	None	4145	None	None	135211873	135212660	1	GAPDL12, GAPDHL12	None
HG1443_HG1444_PATCH	None	ENSG00000268893	ENST00000596408	processed_pseudogene	KNOWN	None	None	None	None	135231864	135232377	-1	None	None
HG1453_PATCH	MIR320D2	ENSG00000268676	ENST00000595147	miRNA	KNOWN	None	35388	None	None	140008337	140008384	-1	MIRN320D2	hsa-mir-320d-2
HG1453_PATCH	None	ENSG00000269658	ENST00000599779	lincRNA	KNOWN	None	None	None	None	140013903	140079613	1	None	None
HG1453_PATCH	SPANXB1	ENSG00000269853	ENST00000598204	protein_coding	KNOWN	None	14329	312	103	140084756	140085871	1	None	CT11.2
HG1453_PATCH	RNU6-3P	ENSG00000269617	ENST00000593684	snRNA	KNOWN	None	34275	None	None	140200195	140200301	-1	RNU6-3	U6-3
HG1453_PATCH	None	ENSG00000267856	ENST00000595076	processed_pseudogene	KNOWN	None	None	None	None	140220643	140221339	1	None	None
HG1453_PATCH	None	ENSG00000269060	ENST00000597122	sense_overlapping	KNOWN	None	None	None	None	140255400	140255753	-1	None	None
HG1453_PATCH	LDOC1	ENSG00000268691	ENST00000596527	processed_transcript	KNOWN	None	6548	None	None	140257914	140259181	-1	BCUR1	Mar7, Mart7
HG1453_PATCH	LDOC1	ENSG00000268691	ENST00000601624	protein_coding	KNOWN	None	6548	441	146	140257921	140259290	-1	BCUR1	Mar7, Mart7
HG1453_PATCH	SPANXC	ENSG00000269309	ENST00000594260	protein_coding	KNOWN	None	14331	294	97	140323628	140324661	-1	None	CTp11, CT11.3
HG1453_PATCH	RBMX2P2	ENSG00000268245	ENST00000593494	processed_pseudogene	KNOWN	None	39924	None	None	140343284	140346378	-1	None	None
HG1453_PATCH	None	ENSG00000269108	ENST00000594007	processed_pseudogene	KNOWN	None	None	None	None	140462988	140463272	1	None	None
HG1453_PATCH	SPANXA1	ENSG00000269063	ENST00000597736	protein_coding	KNOWN	None	11218	294	97	140665839	140667176	-1	SPANX	NAP-X, SPAN-Xa, SPAN-Xb, CT11.1
HG1453_PATCH	SPANXA2	ENSG00000268239	ENST00000600641	protein_coding	KNOWN	None	14328	294	97	140671600	140672937	1	SPANX	None
HG1453_PATCH	None	ENSG00000269485	ENST00000600538	lincRNA	KNOWN	None	None	None	None	140708029	140708898	1	None	None
HG1453_PATCH	SPANXD	ENSG00000269838	ENST00000597815	protein_coding	KNOWN	None	14332	294	97	140779576	140780904	-1	None	CT11.4
HG1458_PATCH	None	ENSG00000269247	ENST00000600464	processed_transcript	KNOWN	None	None	None	None	142372763	142604589	1	None	None
HG1458_PATCH	PGBD4P6	ENSG00000269299	ENST00000600884	processed_pseudogene	KNOWN	None	44071	None	None	142431762	142432371	1	None	None
HG1458_PATCH	MTND1P33	ENSG00000267967	ENST00000597117	processed_pseudogene	KNOWN	None	42082	None	None	142520828	142521744	1	None	None
HG1458_PATCH	None	ENSG00000269864	ENST00000602180	processed_pseudogene	KNOWN	None	None	None	None	142522303	142523066	1	None	None
HG1458_PATCH	None	ENSG00000267851	ENST00000594889	miRNA	NOVEL	None	None	None	None	142533994	142534123	-1	None	None
HG1458_PATCH	SPANXN3	ENSG00000268490	ENST00000594053	protein_coding	KNOWN	None	33176	426	141	142596521	142605261	-1	None	SPANX-N3, CT11.8
HG1458_PATCH	None	ENSG00000269158	ENST00000601301	protein_coding	NOVEL	None	None	2514	837	142715914	142722992	-1	None	None
HG1458_PATCH	None	ENSG00000269158	ENST00000596188	protein_coding	NOVEL	None	None	2514	837	142716381	142722289	-1	None	None
HG1458_PATCH	HNRNPH1P2	ENSG00000268526	ENST00000582116	processed_pseudogene	KNOWN	None	48810	None	None	142764939	142766148	-1	None	None
HG1458_PATCH	None	ENSG00000268988	ENST00000598475	protein_coding	NOVEL	None	None	543	180	142799741	142809209	-1	None	None
HG1458_PATCH	None	ENSG00000269268	ENST00000595389	processed_transcript	PUTATIVE	None	None	None	None	142845523	142915919	1	None	None
HG1458_PATCH	None	ENSG00000269569	ENST00000595884	processed_pseudogene	KNOWN	None	None	None	None	142894177	142894519	1	None	None
HG1458_PATCH	None	ENSG00000268718	ENST00000594185	processed_pseudogene	KNOWN	None	None	None	None	143396620	143396866	-1	None	None
HG1458_PATCH	RRM2P4	ENSG00000267921	ENST00000596914	processed_pseudogene	KNOWN	None	10456	None	None	143396918	143397479	1	None	None
HG1459_PATCH	HNRNPCP10	ENSG00000268914	ENST00000594982	processed_pseudogene	KNOWN	None	48821	None	None	143922495	143923378	1	None	None
HG1459_PATCH	RN7SKP189	ENSG00000269045	ENST00000593693	misc_RNA	KNOWN	None	45913	None	None	144138825	144139154	1	None	None
HG1459_PATCH	None	ENSG00000269876	ENST00000596704	processed_pseudogene	KNOWN	None	None	None	None	144258299	144258611	1	None	None
HG1459_PATCH	None	ENSG00000269548	ENST00000600086	antisense	KNOWN	None	None	None	None	144314646	144315336	-1	None	None
HG1459_PATCH	SPANXN1	ENSG00000269436	ENST00000600554	protein_coding	KNOWN	None	33174	219	72	144328545	144337829	1	None	SPANX-N1, CT11.6
HG1459_PATCH	None	ENSG00000268459	ENST00000601868	processed_pseudogene	KNOWN	None	None	None	None	144711933	144714090	1	None	None
HG1459_PATCH	None	ENSG00000270984	ENST00000603225	processed_pseudogene	KNOWN	None	None	None	None	144849810	144850057	1	None	None
HG1459_PATCH	SLITRK2	ENSG00000268737	ENST00000597773	protein_coding	NOVEL	None	13449	2172	723	144899547	144906312	1	SLITL1	KIAA1854, CXorf2
HG1459_PATCH	SLITRK2	ENSG00000268737	ENST00000600096	protein_coding	KNOWN	None	13449	2538	845	144899678	144907555	1	SLITL1	KIAA1854, CXorf2
HG1459_PATCH	SLITRK2	ENSG00000268737	ENST00000601272	protein_coding	KNOWN	None	13449	2538	845	144899886	144907557	1	SLITL1	KIAA1854, CXorf2
HG1459_PATCH	SLITRK2	ENSG00000268737	ENST00000596854	protein_coding	KNOWN	None	13449	2538	845	144903063	144907555	1	SLITL1	KIAA1854, CXorf2
HG1459_PATCH	SLITRK2	ENSG00000268737	ENST00000597981	protein_coding	KNOWN	None	13449	2538	845	144903063	144907555	1	SLITL1	KIAA1854, CXorf2
HG1459_PATCH	SLITRK2	ENSG00000268737	ENST00000597957	protein_coding	KNOWN	None	13449	2538	845	144903063	144907555	1	SLITL1	KIAA1854, CXorf2
HG1459_PATCH	TMEM257	ENSG00000268210	ENST00000598432	protein_coding	KNOWN	None	2562	336	111	144909125	144911565	1	CXorf1	None
HG1459_PATCH	None	ENSG00000269333	ENST00000593623	miRNA	NOVEL	None	None	None	None	145072582	145072652	-1	None	None
HG1459_PATCH	None	ENSG00000269472	ENST00000595024	miRNA	KNOWN	None	None	None	None	145074468	145074540	-1	None	None
HG1459_PATCH	MIR890	ENSG00000269241	ENST00000599503	miRNA	KNOWN	None	33644	None	None	145075990	145076066	-1	MIRN890	hsa-mir-890
HG1459_PATCH	MIR888	ENSG00000269497	ENST00000600838	miRNA	KNOWN	None	33648	None	None	145076499	145076575	-1	MIRN888	hsa-mir-888
HG1459_PATCH	MIR892A	ENSG00000269661	ENST00000600734	miRNA	KNOWN	None	33639	None	None	145078384	145078458	-1	MIRN892A	hsa-mir-892a
HG1459_PATCH	MIR892B	ENSG00000267971	ENST00000598468	miRNA	KNOWN	None	33649	None	None	145078913	145078989	-1	MIRN892B	hsa-mir-892b
HG1459_PATCH	MIR891B	ENSG00000267953	ENST00000598760	miRNA	KNOWN	None	33645	None	None	145082768	145082846	-1	MIRN891B	hsa-mir-891b
HG1459_PATCH	MIR891A	ENSG00000269224	ENST00000600862	miRNA	KNOWN	None	33635	None	None	145109509	145109587	-1	MIRN891A	hsa-mir-891a
HG1459_PATCH	RNA5SP517	ENSG00000268454	ENST00000601755	rRNA	KNOWN	None	43417	None	None	145509171	145509287	-1	RN5S517	None
HG1459_PATCH	None	ENSG00000268547	ENST00000598705	processed_pseudogene	KNOWN	None	None	None	None	145619250	145619763	1	None	None
HG1459_PATCH	ELL2P4	ENSG00000269447	ENST00000597604	processed_pseudogene	KNOWN	None	39346	None	None	145635443	145637480	1	None	None
HG1459_PATCH	None	ENSG00000268008	ENST00000594994	processed_pseudogene	KNOWN	None	None	None	None	145701312	145702299	-1	None	None
HG1459_PATCH	CXorf51B	ENSG00000268684	ENST00000598035	lincRNA	KNOWN	None	42787	None	None	145891499	145892124	1	None	None
HG1459_PATCH	CXorf51A	ENSG00000268774	ENST00000593386	lincRNA	KNOWN	None	30533	None	None	145895821	145896441	-1	CXorf51	None
HG1459_PATCH	None	ENSG00000268152	ENST00000600550	processed_pseudogene	KNOWN	None	None	None	None	146036790	146036924	1	None	None
HG1459_PATCH	None	ENSG00000271501	ENST00000603321	processed_pseudogene	KNOWN	None	None	None	None	146045891	146046200	-1	None	None
HG1459_PATCH	MIR513C	ENSG00000268097	ENST00000598341	miRNA	KNOWN	None	33934	None	None	146271419	146271502	-1	MIRN513C	hsa-mir-513c
HG1459_PATCH	MIR513B	ENSG00000268749	ENST00000593803	miRNA	KNOWN	None	33935	None	None	146280759	146280842	-1	MIRN513B	hsa-mir-513b
HG1459_PATCH	MIR513A1	ENSG00000269628	ENST00000599060	miRNA	KNOWN	None	32141	None	None	146295178	146295306	-1	MIRN513-1, MIRN513A1	hsa-mir-513-1, hsa-mir-513a-1
HG1459_PATCH	MIR513A2	ENSG00000269532	ENST00000597050	miRNA	KNOWN	None	32142	None	None	146307541	146307667	-1	MIRN513-2, MIRN513A-2, MIRN513A2	hsa-mir-513-2
HG1459_PATCH	MIR506	ENSG00000268915	ENST00000595429	miRNA	KNOWN	None	32143	None	None	146312435	146312558	-1	MIRN506	hsa-mir-506
HG1459_PATCH	MIR507	ENSG00000268102	ENST00000598971	miRNA	KNOWN	None	32144	None	None	146312699	146312792	-1	MIRN507	hsa-mir-507
HG1459_PATCH	MIR508	ENSG00000268128	ENST00000594170	miRNA	KNOWN	None	32145	None	None	146318628	146318742	-1	MIRN508	hsa-mir-508
HG1459_PATCH	MIR514B	ENSG00000267936	ENST00000599782	miRNA	KNOWN	None	38292	None	None	146331866	146331945	-1	None	hsa-mir-514b
HG1459_PATCH	MIR509-2	ENSG00000269250	ENST00000600153	miRNA	KNOWN	None	33641	None	None	146340475	146340565	-1	MIRN509-2	hsa-mir-509-2
HG1459_PATCH	MIR509-3	ENSG00000268283	ENST00000600378	miRNA	KNOWN	None	33675	None	None	146341367	146341441	-1	MIRN509-3	hsa-mir-509-3
HG1459_PATCH	MIR509-1	ENSG00000268561	ENST00000598388	miRNA	KNOWN	None	32146	None	None	146342247	146342340	-1	MIRN509, MIRN509-1	hsa-mir-509, hsa-mir-509-1
HG1459_PATCH	MIR510	ENSG00000268522	ENST00000594926	miRNA	KNOWN	None	32147	None	None	146354050	146354123	-1	MIRN510	hsa-mir-510
HG1459_PATCH	MIR514A1	ENSG00000268224	ENST00000595274	miRNA	KNOWN	None	32148	None	None	146360962	146361059	-1	MIRN514-1, MIR514-1	hsa-mir-514-1
HG1459_PATCH	MIR514A2	ENSG00000268106	ENST00000596696	miRNA	KNOWN	None	32149	None	None	146363658	146363745	-1	MIRN514-2, MIR514-2	hsa-mir-514-2
HG1459_PATCH	MIR514A3	ENSG00000269195	ENST00000601294	miRNA	KNOWN	None	32150	None	None	146366356	146366443	-1	MIRN514-3, MIR514-3	hsa-mir-514-3
HG1459_PATCH	None	ENSG00000269344	ENST00000598680	processed_pseudogene	KNOWN	None	None	None	None	146673327	146673624	-1	None	None
HG1459_PATCH	None	ENSG00000269551	ENST00000598130	processed_pseudogene	KNOWN	None	None	None	None	146882720	146883017	1	None	None
HG1459_PATCH	None	ENSG00000271517	ENST00000604778	processed_pseudogene	KNOWN	None	None	None	None	146894448	146894689	-1	None	None
HG1459_PATCH	RNU6-382P	ENSG00000269477	ENST00000598085	snRNA	KNOWN	None	47345	None	None	146908994	146909099	1	None	None
HG1459_PATCH	None	ENSG00000269705	ENST00000597190	antisense	KNOWN	None	None	None	None	146981893	146983174	-1	None	None
HG1459_PATCH	FMR1-AS1	ENSG00000268817	ENST00000595263	antisense	KNOWN	None	39081	None	None	146991146	146993532	-1	FMR1AS, FMR1-AS	ASFMR1, FMR4
HG1459_PATCH	FMR1-AS1	ENSG00000268817	ENST00000600545	antisense	KNOWN	None	39081	None	None	146991146	146993532	-1	FMR1AS, FMR1-AS	ASFMR1, FMR4
HG1459_PATCH	FMR1-AS1	ENSG00000268817	ENST00000594601	retained_intron	KNOWN	None	39081	None	None	146991146	146993532	-1	FMR1AS, FMR1-AS	ASFMR1, FMR4
HG1459_PATCH	FMR1-AS1	ENSG00000268817	ENST00000600119	antisense	KNOWN	None	39081	None	None	146991146	146993532	-1	FMR1AS, FMR1-AS	ASFMR1, FMR4
HG1459_PATCH	FMR1	ENSG00000268103	ENST00000599356	protein_coding	KNOWN	None	3775	1836	611	146993666	147032829	1	POF1, POF	FMRP, FRAXA, MGC87458
HG1459_PATCH	FMR1	ENSG00000268103	ENST00000596189	protein_coding	KNOWN	None	3775	1614	537	146993666	147032829	1	POF1, POF	FMRP, FRAXA, MGC87458
HG1459_PATCH	FMR1	ENSG00000268103	ENST00000600585	protein_coding	KNOWN	None	3775	1749	582	146993678	147032032	1	POF1, POF	FMRP, FRAXA, MGC87458
HG1459_PATCH	FMR1	ENSG00000268103	ENST00000594931	protein_coding	KNOWN	None	3775	894	297	146993767	147015403	1	POF1, POF	FMRP, FRAXA, MGC87458
HG1459_PATCH	FMR1	ENSG00000268103	ENST00000593982	protein_coding	KNOWN	None	3775	1779	592	146993767	147032353	1	POF1, POF	FMRP, FRAXA, MGC87458
HG1459_PATCH	FMR1	ENSG00000268103	ENST00000602057	protein_coding	KNOWN	None	3775	1899	632	146993767	147032842	1	POF1, POF	FMRP, FRAXA, MGC87458
HG1459_PATCH	FMR1	ENSG00000268103	ENST00000599695	processed_transcript	KNOWN	None	3775	None	None	146993877	147014429	1	POF1, POF	FMRP, FRAXA, MGC87458
HG1459_PATCH	FMR1	ENSG00000268103	ENST00000599497	protein_coding	KNOWN	None	3775	1773	590	146993895	147030562	1	POF1, POF	FMRP, FRAXA, MGC87458
HG1459_PATCH	FMR1	ENSG00000268103	ENST00000597486	protein_coding	KNOWN	None	3775	789	262	147011918	147031076	1	POF1, POF	FMRP, FRAXA, MGC87458
HG1459_PATCH	FMR1	ENSG00000268103	ENST00000602126	processed_transcript	KNOWN	None	3775	None	None	147014201	147022353	1	POF1, POF	FMRP, FRAXA, MGC87458
HG1459_PATCH	FMR1	ENSG00000268103	ENST00000594638	processed_transcript	KNOWN	None	3775	None	None	147022297	147025580	1	POF1, POF	FMRP, FRAXA, MGC87458
HG1459_PATCH	FMR1	ENSG00000268103	ENST00000595272	processed_transcript	KNOWN	None	3775	None	None	147024962	147030251	1	POF1, POF	FMRP, FRAXA, MGC87458
HG1459_PATCH	FMR1	ENSG00000268103	ENST00000600195	processed_transcript	KNOWN	None	3775	None	None	147026410	147027432	1	POF1, POF	FMRP, FRAXA, MGC87458
HG1459_PATCH	FMR1-IT1	ENSG00000268323	ENST00000600855	sense_intronic	KNOWN	None	41333	None	None	147028658	147029300	1	None	None
HG1459_PATCH	FMR1NB	ENSG00000268827	ENST00000598268	protein_coding	KNOWN	None	26372	768	255	147063046	147108384	1	None	FLJ25736, NY-SAR-35, CT37
HG1459_PATCH	FMR1NB	ENSG00000268827	ENST00000593332	nonsense_mediated_decay	KNOWN	None	26372	219	72	147088533	147108382	1	None	FLJ25736, NY-SAR-35, CT37
HG1459_PATCH	None	ENSG00000268491	ENST00000595929	rRNA	NOVEL	None	None	None	None	147089817	147089932	-1	None	None
HG1459_PATCH	FTH1P8	ENSG00000269777	ENST00000599364	processed_pseudogene	KNOWN	None	3995	None	None	147133950	147134463	1	FTHL8	None
HG1459_PATCH	None	ENSG00000269493	ENST00000594281	processed_pseudogene	KNOWN	None	None	None	None	147279731	147280595	-1	None	None
HG1459_PATCH	RPL7L1P11	ENSG00000269142	ENST00000593301	processed_pseudogene	KNOWN	None	39493	None	None	147546425	147547145	1	None	None
HG1459_PATCH	None	ENSG00000268325	ENST00000594460	antisense	KNOWN	None	None	None	None	147579830	147582332	-1	None	None
HG1459_PATCH	AFF2	ENSG00000269754	ENST00000595230	protein_coding	KNOWN	None	3776	3936	1311	147582336	148082384	1	FMR2	FRAXE
HG1459_PATCH	AFF2	ENSG00000269754	ENST00000600198	protein_coding	KNOWN	None	3776	3831	1276	147582336	148082384	1	FMR2	FRAXE
HG1459_PATCH	AFF2	ENSG00000269754	ENST00000596968	protein_coding	KNOWN	None	3776	3837	1278	147582425	148076145	1	FMR2	FRAXE
HG1459_PATCH	AFF2	ENSG00000269754	ENST00000600276	protein_coding	KNOWN	None	3776	1284	427	147582726	147986098	1	FMR2	FRAXE
HG1459_PATCH	AFF2	ENSG00000269754	ENST00000594323	protein_coding	KNOWN	None	3776	2859	952	147800812	148082384	1	FMR2	FRAXE
HG1459_PATCH	AFF2-IT1	ENSG00000268961	ENST00000593680	sense_intronic	KNOWN	None	41334	None	None	147628596	147629115	1	None	None
HG1459_PATCH	RN7SKP267	ENSG00000269718	ENST00000599958	misc_RNA	KNOWN	None	45991	None	None	147903885	147904169	-1	None	None
HG1459_PATCH	None	ENSG00000269659	ENST00000600662	unprocessed_pseudogene	KNOWN	None	None	None	None	148138437	148138887	1	None	None
HG1459_PATCH	None	ENSG00000269414	ENST00000595257	miRNA	NOVEL	None	None	None	None	148393954	148394036	1	None	None
HG1459_PATCH	RNU7-98P	ENSG00000267826	ENST00000597425	snRNA	KNOWN	None	45632	None	None	148412623	148412683	1	None	None
HG1459_PATCH	IDS	ENSG00000267816	ENST00000595787	protein_coding	KNOWN	None	5389	1653	550	148558712	148587069	-1	SIDS	None
HG1459_PATCH	IDS	ENSG00000267816	ENST00000599709	protein_coding	KNOWN	None	5389	462	153	148563949	148572075	-1	SIDS	None
HG1459_PATCH	IDS	ENSG00000267816	ENST00000599902	protein_coding	KNOWN	None	5389	1020	339	148564265	148615657	-1	SIDS	None
HG1459_PATCH	IDS	ENSG00000267816	ENST00000596155	nonsense_mediated_decay	KNOWN	None	5389	939	312	148568853	148587069	-1	SIDS	None
HG1459_PATCH	IDS	ENSG00000267816	ENST00000599152	protein_coding	KNOWN	None	5389	1032	343	148568853	148587069	-1	SIDS	None
HG1459_PATCH	IDS	ENSG00000267816	ENST00000594252	processed_transcript	KNOWN	None	5389	None	None	148568882	148585110	-1	SIDS	None
HG1459_PATCH	IDS	ENSG00000267816	ENST00000599307	nonsense_mediated_decay	KNOWN	None	5389	321	106	148569009	148585941	-1	SIDS	None
HG1459_PATCH	IDS	ENSG00000267816	ENST00000595885	protein_coding	KNOWN	None	5389	939	312	148573330	148587076	-1	SIDS	None
HG1459_PATCH	IDS	ENSG00000267816	ENST00000601128	processed_transcript	KNOWN	None	5389	None	None	148577205	148579988	-1	SIDS	None
HG1459_PATCH	IDS	ENSG00000267816	ENST00000594946	protein_coding	KNOWN	None	5389	540	179	148584382	148587002	-1	SIDS	None
HG1459_PATCH	IDS	ENSG00000267816	ENST00000593664	protein_coding	KNOWN	None	5389	259	85	148585193	148602818	-1	SIDS	None
HG1459_PATCH	None	ENSG00000269041	ENST00000600653	processed_transcript	KNOWN	None	None	None	None	148564812	148614716	-1	None	None
HG1459_PATCH	None	ENSG00000269041	ENST00000602087	processed_transcript	KNOWN	None	None	None	None	148564835	148614636	-1	None	None
HG1459_PATCH	None	ENSG00000269041	ENST00000599789	processed_transcript	KNOWN	None	None	None	None	148579909	148614859	-1	None	None
HG1459_PATCH	None	ENSG00000269041	ENST00000596294	processed_transcript	KNOWN	None	None	None	None	148583809	148614690	-1	None	None
HG1459_PATCH	None	ENSG00000269041	ENST00000601821	processed_transcript	KNOWN	None	None	None	None	148609313	148614663	-1	None	None
HG1459_PATCH	None	ENSG00000269041	ENST00000596412	processed_transcript	KNOWN	None	None	None	None	148609455	148614807	-1	None	None
HG1459_PATCH	None	ENSG00000269041	ENST00000600159	processed_transcript	KNOWN	None	None	None	None	148609794	148614808	-1	None	None
HG1459_PATCH	None	ENSG00000269254	ENST00000600614	processed_transcript	KNOWN	None	None	None	None	148593231	148607986	-1	None	None
HG1459_PATCH	IDSP1	ENSG00000268608	ENST00000599088	unprocessed_pseudogene	KNOWN	None	5390	None	None	148606723	148607765	1	None	IDS2
HG1459_PATCH	None	ENSG00000268052	ENST00000598750	processed_transcript	KNOWN	None	None	None	None	148614734	148615605	-1	None	None
HG1459_PATCH	CXorf40A	ENSG00000268314	ENST00000593347	protein_coding	KNOWN	None	28089	90	29	148622077	148627442	1	CXorf40	EOLA1
HG1459_PATCH	CXorf40A	ENSG00000268314	ENST00000595814	protein_coding	KNOWN	None	28089	477	158	148622352	148629031	1	CXorf40	EOLA1
HG1459_PATCH	CXorf40A	ENSG00000268314	ENST00000601066	protein_coding	KNOWN	None	28089	477	158	148622364	148629031	1	CXorf40	EOLA1
HG1459_PATCH	CXorf40A	ENSG00000268314	ENST00000597294	protein_coding	KNOWN	None	28089	477	158	148622696	148628756	1	CXorf40	EOLA1
HG1459_PATCH	CXorf40A	ENSG00000268314	ENST00000598640	protein_coding	KNOWN	None	28089	477	158	148622697	148629031	1	CXorf40	EOLA1
HG1459_PATCH	CXorf40A	ENSG00000268314	ENST00000596374	protein_coding	KNOWN	None	28089	477	158	148622705	148628876	1	CXorf40	EOLA1
HG1459_PATCH	CXorf40A	ENSG00000268314	ENST00000597532	protein_coding	PUTATIVE	None	28089	441	146	148622709	148631662	1	CXorf40	EOLA1
HG1459_PATCH	CXorf40A	ENSG00000268314	ENST00000594483	protein_coding	PUTATIVE	None	28089	441	146	148622746	148632232	1	CXorf40	EOLA1
HG1459_PATCH	CXorf40A	ENSG00000268314	ENST00000600571	processed_transcript	KNOWN	None	28089	None	None	148623159	148623772	1	CXorf40	EOLA1
HG1459_PATCH	CXorf40A	ENSG00000268314	ENST00000601621	protein_coding	PUTATIVE	None	28089	291	96	148623741	148629031	1	CXorf40	EOLA1
HG1459_PATCH	CXorf40A	ENSG00000268314	ENST00000598998	protein_coding	PUTATIVE	None	28089	441	146	148626242	148631714	1	CXorf40	EOLA1
HG1459_PATCH	CXorf40A	ENSG00000268314	ENST00000593915	protein_coding	KNOWN	None	28089	477	158	148627200	148629028	1	CXorf40	EOLA1
HG1459_PATCH	None	ENSG00000268168	ENST00000601458	antisense	KNOWN	None	None	None	None	148629932	148631557	-1	None	None
HG1459_PATCH	MAGEA9	ENSG00000267978	ENST00000595065	protein_coding	KNOWN	None	6807	948	315	148663377	148669174	-1	MAGE9	MGC8421, CT1.9
HG1459_PATCH	MAGEA9	ENSG00000267978	ENST00000598469	protein_coding	KNOWN	None	6807	926	307	148663976	148669162	-1	MAGE9	MGC8421, CT1.9
HG1459_PATCH	MAGEA9	ENSG00000267978	ENST00000593349	protein_coding	KNOWN	None	6807	587	194	148664315	148669162	-1	MAGE9	MGC8421, CT1.9
HG1459_PATCH	MAGEA9	ENSG00000267978	ENST00000602102	protein_coding	KNOWN	None	6807	342	113	148664560	148669190	-1	MAGE9	MGC8421, CT1.9
HG1459_PATCH	MAGEA9	ENSG00000267978	ENST00000594744	protein_coding	KNOWN	None	6807	292	96	148664610	148668605	-1	MAGE9	MGC8421, CT1.9
HG1459_PATCH	None	ENSG00000268738	ENST00000598963	protein_coding	NOVEL	None	None	1272	423	148674245	148677036	-1	None	None
HG1459_PATCH	None	ENSG00000269556	ENST00000600449	protein_coding	KNOWN	None	None	1053	350	148678279	148713446	-1	None	None
HG1459_PATCH	None	ENSG00000268523	ENST00000599076	processed_pseudogene	KNOWN	None	None	None	None	148730896	148731846	-1	None	None
HG1459_PATCH	MAGEA11	ENSG00000268709	ENST00000596671	protein_coding	PUTATIVE	None	6798	886	294	148769950	148798181	1	MAGE11	MAGE-11, MAGEA-11, MGC10511, CT1.11
HG1459_PATCH	MAGEA11	ENSG00000268709	ENST00000595672	retained_intron	KNOWN	None	6798	None	None	148769959	148798988	1	MAGE11	MAGE-11, MAGEA-11, MGC10511, CT1.11
HG1459_PATCH	MAGEA11	ENSG00000268709	ENST00000597305	protein_coding	KNOWN	None	6798	1203	400	148770546	148798988	1	MAGE11	MAGE-11, MAGEA-11, MGC10511, CT1.11
HG1459_PATCH	MAGEA11	ENSG00000268709	ENST00000597932	protein_coding	KNOWN	None	6798	1290	429	148793800	148798970	1	MAGE11	MAGE-11, MAGEA-11, MGC10511, CT1.11
HG1459_PATCH	None	ENSG00000268115	ENST00000601965	unprocessed_pseudogene	KNOWN	None	None	None	None	148839519	148839617	1	None	None
HG1459_PATCH	None	ENSG00000269398	ENST00000598344	unprocessed_pseudogene	KNOWN	None	None	None	None	148839743	148840017	-1	None	None
HG1459_PATCH	None	ENSG00000268645	ENST00000599288	unprocessed_pseudogene	KNOWN	None	None	None	None	148842501	148842596	1	None	None
HG1459_PATCH	TMEM185AP1	ENSG00000268010	ENST00000597324	unprocessed_pseudogene	KNOWN	None	31717	None	None	148850619	148853090	1	TMEM185AL	None
HG1459_PATCH	HSFX1	ENSG00000268122	ENST00000596098	protein_coding	KNOWN	None	29603	1272	423	148855790	148858589	1	None	LW-1
HG1459_PATCH	MAGEA9B	ENSG00000268337	ENST00000595910	protein_coding	KNOWN	None	31909	948	315	148863652	148869459	1	None	None
HG1459_PATCH	MAGEA7P	ENSG00000268096	ENST00000599025	unprocessed_pseudogene	KNOWN	None	6805	None	None	148889936	148890877	1	MAGE7, MAGEA7	None
HG1459_PATCH	DUTP4	ENSG00000268694	ENST00000593773	processed_pseudogene	KNOWN	None	39517	None	None	148898892	148899366	1	None	None
HG1459_PATCH	MAGEA8-AS1	ENSG00000269701	ENST00000594533	antisense	KNOWN	None	45093	None	None	148960558	148962792	-1	None	RP5-869M20.2
HG1459_PATCH	MAGEA8	ENSG00000268422	ENST00000600776	protein_coding	KNOWN	None	6806	957	318	148962863	148967557	1	MAGE8	MGC2182, CT1.8
HG1459_PATCH	MAGEA8	ENSG00000268422	ENST00000597872	protein_coding	KNOWN	None	6806	957	318	148962863	148967557	1	MAGE8	MGC2182, CT1.8
HG1459_PATCH	MAGEA8	ENSG00000268422	ENST00000596200	protein_coding	KNOWN	None	6806	957	318	148962917	148967556	1	MAGE8	MGC2182, CT1.8
HG1459_PATCH	MAGEA8	ENSG00000268422	ENST00000600658	processed_transcript	KNOWN	None	6806	None	None	148962942	148966286	1	MAGE8	MGC2182, CT1.8
HG1459_PATCH	MAGEA8	ENSG00000268422	ENST00000601670	processed_transcript	KNOWN	None	6806	None	None	148962943	148966276	1	MAGE8	MGC2182, CT1.8
HG1459_PATCH	CXorf40B	ENSG00000268871	ENST00000595555	protein_coding	PUTATIVE	None	17402	441	146	149011249	149020157	-1	None	None
HG1459_PATCH	CXorf40B	ENSG00000268871	ENST00000601122	protein_coding	KNOWN	None	17402	477	158	149013919	149020533	-1	None	None
HG1459_PATCH	CXorf40B	ENSG00000268871	ENST00000596222	protein_coding	KNOWN	None	17402	477	158	149013920	149019236	-1	None	None
HG1459_PATCH	CXorf40B	ENSG00000268871	ENST00000600111	protein_coding	KNOWN	None	17402	477	158	149013923	149020181	-1	None	None
HG1459_PATCH	CXorf40B	ENSG00000268871	ENST00000599731	protein_coding	KNOWN	None	17402	442	146	149014301	149020194	-1	None	None
HG1459_PATCH	CXorf40B	ENSG00000268871	ENST00000598489	protein_coding	KNOWN	None	17402	137	44	149015460	149020183	-1	None	None
HG1459_PATCH	CXorf40B	ENSG00000268871	ENST00000601577	processed_transcript	KNOWN	None	17402	None	None	149019171	149020422	-1	None	None
HG1459_PATCH	None	ENSG00000268099	ENST00000595239	antisense	KNOWN	None	None	None	None	149011384	149012420	1	None	None
HG1459_PATCH	LINC00894	ENSG00000269312	ENST00000601620	processed_transcript	KNOWN	None	48579	None	None	149020350	149306302	1	None	None
HG1459_PATCH	LINC00894	ENSG00000269312	ENST00000594733	processed_transcript	PUTATIVE	None	48579	None	None	149021461	149022554	1	None	None
HG1459_PATCH	LINC00894	ENSG00000269312	ENST00000595589	processed_transcript	KNOWN	None	48579	None	None	149021878	149098509	1	None	None
HG1459_PATCH	LINC00894	ENSG00000269312	ENST00000601541	processed_transcript	KNOWN	None	48579	None	None	149027355	149034628	1	None	None
HG1459_PATCH	LINC00894	ENSG00000269312	ENST00000596863	processed_transcript	KNOWN	None	48579	None	None	149027698	149028660	1	None	None
HG1459_PATCH	LINC00894	ENSG00000269312	ENST00000600270	processed_transcript	KNOWN	None	48579	None	None	149028068	149028939	1	None	None
HG1459_PATCH	LINC00894	ENSG00000269312	ENST00000598253	processed_transcript	KNOWN	None	48579	None	None	149029093	149034774	1	None	None
HG1459_PATCH	LINC00894	ENSG00000269312	ENST00000593311	processed_transcript	KNOWN	None	48579	None	None	149042603	149044520	1	None	None
HG1459_PATCH	LINC00894	ENSG00000269312	ENST00000600417	processed_transcript	KNOWN	None	48579	None	None	149097804	149099366	1	None	None
HG1459_PATCH	None	ENSG00000269557	ENST00000597460	processed_pseudogene	KNOWN	None	None	None	None	149196100	149198242	1	None	None
HG1459_PATCH	MIR2114	ENSG00000269684	ENST00000598011	miRNA	KNOWN	None	37308	None	None	149309726	149309805	1	None	hsa-mir-2114
HG1459_PATCH	XRCC6P2	ENSG00000268999	ENST00000594713	processed_pseudogene	KNOWN	None	45184	None	None	149312793	149314223	-1	None	None
HG1459_PATCH	XRCC6P2	ENSG00000268999	ENST00000598151	processed_pseudogene	KNOWN	None	45184	None	None	149312797	149314618	-1	None	None
HG1459_PATCH	MAMLD1	ENSG00000269849	ENST00000597258	processed_transcript	KNOWN	None	2568	None	None	149443144	149551817	1	CXorf6	CG1, F18
HG1459_PATCH	MAMLD1	ENSG00000269849	ENST00000596168	protein_coding	KNOWN	None	2568	2325	774	149445006	149595900	1	CXorf6	CG1, F18
HG1459_PATCH	MAMLD1	ENSG00000269849	ENST00000599483	protein_coding	KNOWN	None	2568	2997	998	149445141	149594847	1	CXorf6	CG1, F18
HG1459_PATCH	MAMLD1	ENSG00000269849	ENST00000594940	protein_coding	KNOWN	None	2568	409	135	149502721	149551704	1	CXorf6	CG1, F18
HG1459_PATCH	MAMLD1	ENSG00000269849	ENST00000599586	protein_coding	KNOWN	None	2568	2325	774	149527176	149595900	1	CXorf6	CG1, F18
HG1459_PATCH	MAMLD1	ENSG00000269849	ENST00000600812	protein_coding	KNOWN	None	2568	2250	749	149527176	149595900	1	CXorf6	CG1, F18
HG1459_PATCH	MAMLD1	ENSG00000269849	ENST00000593521	protein_coding	KNOWN	None	2568	645	214	149552730	149593964	1	CXorf6	CG1, F18
HG1459_PATCH	MAMLD1	ENSG00000269849	ENST00000593894	retained_intron	KNOWN	None	2568	None	None	149591047	149595891	1	CXorf6	CG1, F18
HG1459_PATCH	None	ENSG00000268428	ENST00000600431	miRNA	NOVEL	None	None	None	None	149571254	149571340	-1	None	None
HG1459_PATCH	MTM1	ENSG00000269031	ENST00000598147	protein_coding	KNOWN	None	7448	1812	603	149650341	149755044	1	None	None
HG1459_PATCH	MTM1	ENSG00000269031	ENST00000596570	protein_coding	KNOWN	None	7448	1251	416	149650343	149753459	1	None	None
HG1459_PATCH	MTM1	ENSG00000269031	ENST00000599772	protein_coding	KNOWN	None	7448	1467	488	149650343	149753613	1	None	None
HG1459_PATCH	MTM1	ENSG00000269031	ENST00000601563	protein_coding	PUTATIVE	None	7448	310	102	149650344	149720743	1	None	None
HG1459_PATCH	MTM1	ENSG00000269031	ENST00000598991	processed_transcript	KNOWN	None	7448	None	None	149650347	149678715	1	None	None
HG1459_PATCH	MTM1	ENSG00000269031	ENST00000596275	processed_transcript	KNOWN	None	7448	None	None	149650356	149754596	1	None	None
HG1459_PATCH	MTM1	ENSG00000269031	ENST00000601158	processed_transcript	KNOWN	None	7448	None	None	149650361	149727593	1	None	None
HG1459_PATCH	MTM1	ENSG00000269031	ENST00000600549	protein_coding	KNOWN	None	7448	1701	566	149650365	149753360	1	None	None
HG1459_PATCH	MTMR1	ENSG00000269759	ENST00000595888	protein_coding	KNOWN	None	7449	1716	571	149774684	149844629	1	None	None
HG1459_PATCH	MTMR1	ENSG00000269759	ENST00000599891	protein_coding	KNOWN	None	7449	441	146	149774693	149813196	1	None	None
HG1459_PATCH	MTMR1	ENSG00000269759	ENST00000593757	protein_coding	KNOWN	None	7449	270	89	149774700	149811850	1	None	None
HG1459_PATCH	MTMR1	ENSG00000269759	ENST00000601962	protein_coding	KNOWN	None	7449	263	86	149774705	149811843	1	None	None
HG1459_PATCH	MTMR1	ENSG00000269759	ENST00000597388	protein_coding	KNOWN	None	7449	261	86	149774731	149811841	1	None	None
HG1459_PATCH	MTMR1	ENSG00000269759	ENST00000596801	nonsense_mediated_decay	KNOWN	None	7449	1707	568	149775088	149846824	1	None	None
HG1459_PATCH	MTMR1	ENSG00000269759	ENST00000597376	protein_coding	KNOWN	None	7449	1092	363	149775094	149817420	1	None	None
HG1459_PATCH	MTMR1	ENSG00000269759	ENST00000594143	protein_coding	KNOWN	None	7449	1998	665	149775096	149846825	1	None	None
HG1459_PATCH	MTMR1	ENSG00000269759	ENST00000601730	protein_coding	NOVEL	None	7449	556	184	149775101	149809491	1	None	None
HG1459_PATCH	MTMR1	ENSG00000269759	ENST00000600555	protein_coding	KNOWN	None	7449	2022	673	149775132	149846824	1	None	None
HG1459_PATCH	MTMR1	ENSG00000269759	ENST00000602010	protein_coding	KNOWN	None	7449	1998	665	149775132	149846646	1	None	None
HG1459_PATCH	MTMR1	ENSG00000269759	ENST00000598665	protein_coding	KNOWN	None	7449	1707	568	149775132	149832801	1	None	None
HG1459_PATCH	MTMR1	ENSG00000269759	ENST00000595165	protein_coding	NOVEL	None	7449	397	131	149780930	149809486	1	None	None
HG1459_PATCH	MTMR1	ENSG00000269759	ENST00000596821	protein_coding	NOVEL	None	7449	448	148	149780930	149809486	1	None	None
HG1459_PATCH	MTMR1	ENSG00000269759	ENST00000600600	nonsense_mediated_decay	KNOWN	None	7449	1217	404	149800398	149846646	1	None	None
HG1459_PATCH	MTMR1	ENSG00000269759	ENST00000599523	protein_coding	KNOWN	None	7449	1182	393	149800398	149846646	1	None	None
HG1459_PATCH	MTMR1	ENSG00000269759	ENST00000598099	retained_intron	KNOWN	None	7449	None	None	149808834	149812286	1	None	None
HG1459_PATCH	MTMR1	ENSG00000269759	ENST00000601191	retained_intron	KNOWN	None	7449	None	None	149817120	149833010	1	None	None
HG1459_PATCH	CD99L2	ENSG00000269478	ENST00000599114	processed_transcript	KNOWN	None	18237	None	None	149848059	149980352	-1	MIC2L1	CD99B
HG1459_PATCH	CD99L2	ENSG00000269478	ENST00000597984	protein_coding	KNOWN	None	18237	789	262	149848059	149980428	-1	MIC2L1	CD99B
HG1459_PATCH	CD99L2	ENSG00000269478	ENST00000601765	protein_coding	KNOWN	None	18237	573	190	149848061	149980538	-1	MIC2L1	CD99B
HG1459_PATCH	CD99L2	ENSG00000269478	ENST00000600347	protein_coding	KNOWN	None	18237	570	189	149848061	149980538	-1	MIC2L1	CD99B
HG1459_PATCH	CD99L2	ENSG00000269478	ENST00000596721	protein_coding	KNOWN	None	18237	642	213	149850451	149980351	-1	MIC2L1	CD99B
HG1459_PATCH	CD99L2	ENSG00000269478	ENST00000597838	protein_coding	KNOWN	None	18237	474	157	149858624	149912971	-1	MIC2L1	CD99B
HG1459_PATCH	CD99L2	ENSG00000269478	ENST00000598516	processed_transcript	KNOWN	None	18237	None	None	149896622	149980331	-1	MIC2L1	CD99B
HG1459_PATCH	CD99L2	ENSG00000269478	ENST00000596292	protein_coding	KNOWN	None	18237	438	145	149911019	149980428	-1	MIC2L1	CD99B
HG1459_PATCH	None	ENSG00000269219	ENST00000600024	processed_pseudogene	KNOWN	None	None	None	None	149900475	149900968	1	None	None
HG1459_PATCH	None	ENSG00000268063	ENST00000597744	snoRNA	NOVEL	None	None	None	None	149983843	149983958	1	None	None
HG1459_PATCH	None	ENSG00000268850	ENST00000601628	lincRNA	KNOWN	None	None	None	None	149997535	150002660	1	None	None
HG1459_PATCH	None	ENSG00000268850	ENST00000600950	lincRNA	KNOWN	None	None	None	None	149998885	150002660	1	None	None
HG1459_PATCH	RNU6-383P	ENSG00000269747	ENST00000601976	snRNA	KNOWN	None	47346	None	None	150037216	150037309	-1	None	None
HG1459_PATCH	HMGB3	ENSG00000269411	ENST00000594285	protein_coding	KNOWN	None	5004	566	187	150062231	150069599	1	HMG4	HMG2A, MGC90319
HG1459_PATCH	HMGB3	ENSG00000269411	ENST00000593327	protein_coding	KNOWN	None	5004	603	200	150065008	150072497	1	HMG4	HMG2A, MGC90319
HG1459_PATCH	HMGB3	ENSG00000269411	ENST00000600124	protein_coding	KNOWN	None	5004	581	192	150065107	150069614	1	HMG4	HMG2A, MGC90319
HG1459_PATCH	HMGB3	ENSG00000269411	ENST00000595259	protein_coding	KNOWN	None	5004	603	200	150065128	150069654	1	HMG4	HMG2A, MGC90319
HG1459_PATCH	HMGB3	ENSG00000269411	ENST00000596539	protein_coding	KNOWN	None	5004	460	152	150067253	150069019	1	HMG4	HMG2A, MGC90319
HG1459_PATCH	RPL19P21	ENSG00000267821	ENST00000596994	processed_pseudogene	KNOWN	None	35868	None	None	150075223	150075813	1	None	None
HG1497_PATCH	None	ENSG00000268089	ENST00000598523	protein_coding	NOVEL	None	None	1899	632	151806655	151821834	1	None	None
HG1497_PATCH	None	ENSG00000269475	ENST00000597568	unprocessed_pseudogene	KNOWN	None	None	None	None	151851499	151852315	1	None	None
HG1497_PATCH	None	ENSG00000268196	ENST00000598245	protein_coding	KNOWN	None	None	945	314	151867224	151870818	1	None	None
HG1497_PATCH	CSAG3	ENSG00000268902	ENST00000598036	antisense	KNOWN	None	26237	None	None	151876733	151883021	-1	CSAG3A	None
HG1497_PATCH	CSAG3	ENSG00000268902	ENST00000597884	antisense	KNOWN	None	26237	None	None	151876733	151877737	-1	CSAG3A	None
HG1497_PATCH	None	ENSG00000269081	ENST00000598543	protein_coding	KNOWN	None	None	945	314	151883064	151887057	1	None	None
HG1497_PATCH	CSAG1	ENSG00000268920	ENST00000596661	protein_coding	KNOWN	None	24294	237	78	151895956	151902207	-1	None	CSAGE, CT24.1
HG1497_PATCH	CSAG1	ENSG00000268920	ENST00000595397	nonsense_mediated_decay	KNOWN	None	24294	84	27	151895956	151902171	-1	None	CSAGE, CT24.1
HG1497_PATCH	CSAG1	ENSG00000268920	ENST00000594317	protein_coding	KNOWN	None	24294	222	73	151895956	151902163	-1	None	CSAGE, CT24.1
HG1497_PATCH	CSAG1	ENSG00000268920	ENST00000593759	protein_coding	KNOWN	None	24294	237	78	151895959	151902178	-1	None	CSAGE, CT24.1
HG1497_PATCH	MAGEA12	ENSG00000269452	ENST00000594751	protein_coding	KNOWN	None	6799	945	314	151902251	151906141	1	MAGE12	CT1.12
HG1497_PATCH	MAGEA12	ENSG00000269452	ENST00000595895	protein_coding	KNOWN	None	6799	945	314	151902251	151906132	1	MAGE12	CT1.12
HG1497_PATCH	MAGEA12	ENSG00000269452	ENST00000597359	protein_coding	KNOWN	None	6799	945	314	151902334	151906132	1	MAGE12	CT1.12
HG1497_PATCH	CSAG4	ENSG00000268132	ENST00000600609	processed_transcript	KNOWN	None	20923	None	None	151902299	151909457	1	None	None
HG1497_PATCH	CSAG4	ENSG00000268132	ENST00000594505	transcribed_unprocessed_pseudogene	KNOWN	None	20923	None	None	151908336	151909153	1	None	None
HG1497_PATCH	CSAG4	ENSG00000268132	ENST00000593366	unprocessed_pseudogene	KNOWN	None	20923	None	None	151908722	151909153	1	None	None
HG1497_PATCH	None	ENSG00000269280	ENST00000599290	antisense	KNOWN	None	None	None	None	151915289	151916234	1	None	None
HG1497_PATCH	None	ENSG00000268606	ENST00000595583	protein_coding	KNOWN	None	None	945	314	151918357	151922350	-1	None	None
HG1497_PATCH	None	ENSG00000268916	ENST00000599845	protein_coding	KNOWN	None	None	333	110	151927690	151928694	1	None	None
HG1497_PATCH	MAGEA6	ENSG00000269114	ENST00000596509	protein_coding	KNOWN	None	6804	945	314	151934608	151938219	-1	MAGE6	CT1.6
HG1497_PATCH	MAGEA6	ENSG00000269114	ENST00000595678	protein_coding	KNOWN	None	6804	707	234	151935416	151938149	-1	MAGE6	CT1.6
HG1497_PATCH	MAGEA6	ENSG00000269114	ENST00000595246	protein_coding	KNOWN	None	6804	604	200	151935519	151938188	-1	MAGE6	CT1.6
HG1497_PATCH	CETN2	ENSG00000268512	ENST00000601896	protein_coding	KNOWN	None	1867	519	172	151995445	151999249	-1	CALT	CEN2
HG1497_PATCH	CETN2	ENSG00000268512	ENST00000598983	processed_transcript	KNOWN	None	1867	None	None	151996282	151998169	-1	CALT	CEN2
HG1497_PATCH	NSDHL	ENSG00000269336	ENST00000601774	protein_coding	KNOWN	None	13398	1122	373	151999439	152038201	1	None	XAP104, H105e3, SDR31E1
HG1497_PATCH	NSDHL	ENSG00000269336	ENST00000597693	protein_coding	KNOWN	None	13398	1122	373	151999439	152037835	1	None	XAP104, H105e3, SDR31E1
HG1497_PATCH	NSDHL	ENSG00000269336	ENST00000594392	protein_coding	KNOWN	None	13398	763	253	151999469	152036119	1	None	XAP104, H105e3, SDR31E1
HG1497_PATCH	ZNF185	ENSG00000267825	ENST00000594881	protein_coding	KNOWN	None	12976	2166	721	152082914	152141952	1	None	None
HG1497_PATCH	ZNF185	ENSG00000267825	ENST00000596469	protein_coding	KNOWN	None	12976	2079	692	152082914	152141952	1	None	None
HG1497_PATCH	ZNF185	ENSG00000267825	ENST00000595608	protein_coding	KNOWN	None	12976	2073	690	152082914	152141952	1	None	None
HG1497_PATCH	ZNF185	ENSG00000267825	ENST00000599150	protein_coding	KNOWN	None	12976	1893	630	152082914	152141952	1	None	None
HG1497_PATCH	ZNF185	ENSG00000267825	ENST00000597697	protein_coding	KNOWN	None	12976	1374	457	152082914	152141952	1	None	None
HG1497_PATCH	ZNF185	ENSG00000267825	ENST00000597332	protein_coding	KNOWN	None	12976	2070	689	152082925	152141943	1	None	None
HG1497_PATCH	ZNF185	ENSG00000267825	ENST00000595921	protein_coding	KNOWN	None	12976	1407	468	152086337	152141952	1	None	None
HG1497_PATCH	ZNF185	ENSG00000267825	ENST00000597194	protein_coding	KNOWN	None	12976	1359	452	152086593	152141953	1	None	None
HG1497_PATCH	ZNF185	ENSG00000267825	ENST00000600985	protein_coding	KNOWN	None	12976	1426	474	152087473	152141945	1	None	None
HG1497_PATCH	ZNF185	ENSG00000267825	ENST00000600214	protein_coding	KNOWN	None	12976	660	219	152088821	152106635	1	None	None
HG1497_PATCH	ZNF185	ENSG00000267825	ENST00000598506	protein_coding	KNOWN	None	12976	411	136	152089179	152106635	1	None	None
HG1497_PATCH	ZNF185	ENSG00000267825	ENST00000596794	protein_coding	KNOWN	None	12976	633	210	152100211	152128282	1	None	None
HG1497_PATCH	ZNF185	ENSG00000267825	ENST00000594503	protein_coding	KNOWN	None	12976	992	329	152110173	152141944	1	None	None
HG1497_PATCH	PNMA5	ENSG00000268644	ENST00000593850	protein_coding	KNOWN	None	18743	1347	448	152157296	152160686	-1	None	KIAA1934
HG1497_PATCH	PNMA5	ENSG00000268644	ENST00000597501	protein_coding	KNOWN	None	18743	1347	448	152157297	152162599	-1	None	KIAA1934
HG1497_PATCH	PNMA5	ENSG00000268644	ENST00000600760	protein_coding	KNOWN	None	18743	1347	448	152157297	152160689	-1	None	KIAA1934
HG1497_PATCH	PNMA5	ENSG00000268644	ENST00000599118	protein_coding	KNOWN	None	18743	1347	448	152157297	152160689	-1	None	KIAA1934
HG1497_PATCH	PNMA5	ENSG00000268644	ENST00000598284	protein_coding	KNOWN	None	18743	420	139	152159651	152161258	-1	None	KIAA1934
HG1497_PATCH	RN7SL190P	ENSG00000268227	ENST00000594489	misc_RNA	KNOWN	None	46206	None	None	152163708	152163967	-1	None	None
HG1497_PATCH	None	ENSG00000268933	ENST00000596264	unprocessed_pseudogene	KNOWN	None	None	None	None	152197257	152198918	1	None	None
HG1497_PATCH	None	ENSG00000268990	ENST00000597062	processed_pseudogene	KNOWN	None	None	None	None	152220622	152220885	-1	None	None
HG1497_PATCH	None	ENSG00000268624	ENST00000593810	protein_coding	NOVEL	None	None	1392	463	152225502	152227744	1	None	None
HG1497_PATCH	None	ENSG00000269109	ENST00000599466	protein_coding	KNOWN	None	None	1200	399	152240908	152243490	1	None	None
HG1497_PATCH	PNMA6B	ENSG00000268883	ENST00000598713	protein_coding	KNOWN	None	26681	1200	399	152244085	152246021	-1	None	None
HG1497_PATCH	MAGEA1	ENSG00000269790	ENST00000595385	protein_coding	KNOWN	None	6796	930	309	152386899	152391492	1	MAGE1	MGC9326, CT1.1
HG1497_PATCH	None	ENSG00000269785	ENST00000600507	miRNA	NOVEL	None	None	None	None	152404247	152404298	1	None	None
HG1497_PATCH	None	ENSG00000268268	ENST00000595003	unprocessed_pseudogene	KNOWN	None	None	None	None	152410658	152413148	1	None	None
HG1497_PATCH	None	ENSG00000268540	ENST00000601756	lincRNA	KNOWN	None	None	None	None	152433273	152437670	1	None	None
HG1497_PATCH	None	ENSG00000268540	ENST00000601311	lincRNA	KNOWN	None	None	None	None	152433263	152437328	1	None	None
HG1497_PATCH	None	ENSG00000268508	ENST00000601900	unprocessed_pseudogene	KNOWN	None	None	None	None	152456729	152457305	-1	None	None
HG1497_PATCH	None	ENSG00000268360	ENST00000594160	unprocessed_pseudogene	KNOWN	None	None	None	None	152479232	152485413	1	None	None
HG1497_PATCH	None	ENSG00000268360	ENST00000599856	unprocessed_pseudogene	KNOWN	None	None	None	None	152484518	152485417	1	None	None
HG1497_PATCH	None	ENSG00000268826	ENST00000596803	unprocessed_pseudogene	KNOWN	None	None	None	None	152525297	152528300	-1	None	None
HG1497_PATCH	ZNF275	ENSG00000272120	ENST00000606097	protein_coding	NOVEL	None	13069	990	329	152541769	152559193	1	None	None
HG1497_PATCH	ZNF275	ENSG00000272120	ENST00000607410	protein_coding	KNOWN	None	13069	1290	429	152541769	152560540	1	None	None
HG1497_PATCH	ZNF275	ENSG00000272120	ENST00000606135	protein_coding	KNOWN	None	13069	1380	459	152551812	152560540	1	None	None
HG1497_PATCH	ZNF275	ENSG00000272120	ENST00000606240	protein_coding	NOVEL	None	13069	1131	376	152551891	152559007	1	None	None
HG1497_PATCH	None	ENSG00000269874	ENST00000598672	snoRNA	NOVEL	None	None	None	None	152559087	152559190	1	None	None
HG1497_PATCH	None	ENSG00000269008	ENST00000599330	processed_transcript	KNOWN	None	None	None	None	152559643	152567724	1	None	None
HG1497_PATCH	None	ENSG00000269297	ENST00000593743	unprocessed_pseudogene	KNOWN	None	None	None	None	152563347	152563570	1	None	None
HG1497_PATCH	None	ENSG00000269581	ENST00000598289	transcribed_processed_pseudogene	KNOWN	None	None	None	None	152604577	152606463	-1	None	None
HG1497_PATCH	None	ENSG00000269581	ENST00000595679	processed_transcript	PUTATIVE	None	None	None	None	152605365	152606396	-1	None	None
HG1497_PATCH	RN7SL667P	ENSG00000268409	ENST00000595479	misc_RNA	KNOWN	None	46683	None	None	152611462	152611755	-1	None	None
HG1497_PATCH	ZFP92	ENSG00000269523	ENST00000597345	protein_coding	KNOWN	None	12865	1251	416	152625936	152629243	1	None	ZNF897
HG1497_PATCH	None	ENSG00000268969	ENST00000598646	lincRNA	KNOWN	None	None	None	None	152631366	152634090	1	None	None
HG1497_PATCH	TREX2	ENSG00000269342	ENST00000600040	protein_coding	KNOWN	None	12270	711	236	152652334	152655477	-1	None	None
HG1497_PATCH	TREX2	ENSG00000269342	ENST00000597970	protein_coding	KNOWN	None	12270	711	236	152652334	152678201	-1	None	None
HG1497_PATCH	TREX2	ENSG00000269342	ENST00000596566	protein_coding	KNOWN	None	12270	711	236	152652334	152678201	-1	None	None
HG1497_PATCH	TREX2	ENSG00000269342	ENST00000595172	protein_coding	KNOWN	None	12270	840	279	152652334	152678201	-1	None	None
HG1497_PATCH	TREX2	ENSG00000269342	ENST00000595261	protein_coding	KNOWN	None	12270	840	279	152652334	152678201	-1	None	None
HG1497_PATCH	TREX2	ENSG00000269342	ENST00000594277	protein_coding	KNOWN	None	12270	840	279	152652334	152655477	-1	None	None
HG1497_PATCH	TREX2	ENSG00000269342	ENST00000595871	protein_coding	KNOWN	None	12270	837	278	152652334	152655477	-1	None	None
HG1497_PATCH	TREX2	ENSG00000269342	ENST00000596889	protein_coding	KNOWN	None	12270	711	236	152652334	152654101	-1	None	None
HG1497_PATCH	HAUS7	ENSG00000268671	ENST00000597897	protein_coding	KNOWN	None	32979	1077	358	152655280	152678245	-1	UCHL5IP	UIP1
HG1497_PATCH	HAUS7	ENSG00000268671	ENST00000598817	protein_coding	KNOWN	None	32979	1107	368	152655280	152678759	-1	UCHL5IP	UIP1
HG1497_PATCH	HAUS7	ENSG00000268671	ENST00000600200	processed_transcript	KNOWN	None	32979	None	None	152655282	152664176	-1	UCHL5IP	UIP1
HG1497_PATCH	HAUS7	ENSG00000268671	ENST00000599277	processed_transcript	KNOWN	None	32979	None	None	152655284	152663907	-1	UCHL5IP	UIP1
HG1497_PATCH	HAUS7	ENSG00000268671	ENST00000599647	protein_coding	PUTATIVE	None	32979	635	210	152655284	152663964	-1	UCHL5IP	UIP1
HG1497_PATCH	HAUS7	ENSG00000268671	ENST00000594334	processed_transcript	KNOWN	None	32979	None	None	152655284	152664805	-1	UCHL5IP	UIP1
HG1497_PATCH	HAUS7	ENSG00000268671	ENST00000597539	processed_transcript	KNOWN	None	32979	None	None	152655284	152676881	-1	UCHL5IP	UIP1
HG1497_PATCH	HAUS7	ENSG00000268671	ENST00000595628	protein_coding	KNOWN	None	32979	411	136	152655284	152703134	-1	UCHL5IP	UIP1
HG1497_PATCH	HAUS7	ENSG00000268671	ENST00000595032	processed_transcript	KNOWN	None	32979	None	None	152655363	152662757	-1	UCHL5IP	UIP1
HG1497_PATCH	HAUS7	ENSG00000268671	ENST00000599765	processed_transcript	KNOWN	None	32979	None	None	152655475	152664776	-1	UCHL5IP	UIP1
HG1497_PATCH	HAUS7	ENSG00000268671	ENST00000600844	protein_coding	KNOWN	None	32979	1284	427	152655492	152678201	-1	UCHL5IP	UIP1
HG1497_PATCH	HAUS7	ENSG00000268671	ENST00000595743	processed_transcript	KNOWN	None	32979	None	None	152663079	152678167	-1	UCHL5IP	UIP1
HG1497_PATCH	HAUS7	ENSG00000268671	ENST00000595021	processed_transcript	KNOWN	None	32979	None	None	152663355	152676882	-1	UCHL5IP	UIP1
HG1497_PATCH	HAUS7	ENSG00000268671	ENST00000600391	processed_transcript	KNOWN	None	32979	None	None	152664107	152678179	-1	UCHL5IP	UIP1
HG1497_PATCH	HAUS7	ENSG00000268671	ENST00000599011	processed_transcript	KNOWN	None	32979	None	None	152664344	152678169	-1	UCHL5IP	UIP1
HG1497_PATCH	HAUS7	ENSG00000268671	ENST00000597640	processed_transcript	KNOWN	None	32979	None	None	152668764	152678184	-1	UCHL5IP	UIP1
HG1497_PATCH	HAUS7	ENSG00000268671	ENST00000600339	protein_coding	PUTATIVE	None	32979	384	127	152669174	152703130	-1	UCHL5IP	UIP1
HG1497_PATCH	None	ENSG00000268274	ENST00000602273	protein_coding	PUTATIVE	None	None	378	125	152693470	152694702	1	None	None
HG1497_PATCH	BGN	ENSG00000269168	ENST00000594173	protein_coding	KNOWN	None	1044	1107	368	152702553	152717168	1	None	DSPG1, SLRR1A
HG1497_PATCH	BGN	ENSG00000269168	ENST00000599593	processed_transcript	KNOWN	None	1044	None	None	152702595	152717160	1	None	DSPG1, SLRR1A
HG1497_PATCH	BGN	ENSG00000269168	ENST00000602170	processed_transcript	KNOWN	None	1044	None	None	152702597	152717160	1	None	DSPG1, SLRR1A
HG1497_PATCH	BGN	ENSG00000269168	ENST00000599444	protein_coding	KNOWN	None	1044	714	237	152702607	152714240	1	None	DSPG1, SLRR1A
HG1497_PATCH	BGN	ENSG00000269168	ENST00000600208	protein_coding	KNOWN	None	1044	924	307	152710058	152717160	1	None	DSPG1, SLRR1A
HG1497_PATCH	BGN	ENSG00000269168	ENST00000601834	processed_transcript	KNOWN	None	1044	None	None	152713483	152716419	1	None	DSPG1, SLRR1A
HG1497_PATCH	ATP2B3	ENSG00000263148	ENST00000571969	protein_coding	KNOWN	None	816	3663	1220	152725290	152788203	1	None	PMCA3
HG1497_PATCH	ATP2B3	ENSG00000263148	ENST00000575463	protein_coding	KNOWN	None	816	3480	1159	152725290	152790553	1	None	PMCA3
HG1497_PATCH	ATP2B3	ENSG00000263148	ENST00000571862	protein_coding	KNOWN	None	816	3465	1154	152740548	152777576	1	None	PMCA3
HG1497_PATCH	ATP2B3	ENSG00000263148	ENST00000572057	protein_coding	KNOWN	None	816	3522	1173	152743736	152788203	1	None	PMCA3
HG1497_PATCH	ATP2B3	ENSG00000263148	ENST00000602058	protein_coding	KNOWN	None	816	3663	1220	152743736	152790543	1	None	PMCA3
HG1497_PATCH	ATP2B3	ENSG00000263148	ENST00000601388	protein_coding	KNOWN	None	816	3480	1159	152743736	152790543	1	None	PMCA3
HG1497_PATCH	ATP2B3	ENSG00000263148	ENST00000571205	processed_transcript	KNOWN	None	816	None	None	152764560	152768438	1	None	PMCA3
HG1497_PATCH	ATP2B3	ENSG00000263148	ENST00000573743	processed_transcript	KNOWN	None	816	None	None	152777262	152788183	1	None	PMCA3
HG1497_PATCH	None	ENSG00000262919	ENST00000576892	protein_coding	KNOWN	None	None	747	248	152795541	152806791	-1	None	None
HG1497_PATCH	None	ENSG00000261960	ENST00000574069	antisense	KNOWN	None	None	None	None	152806954	152807507	1	None	None
HG1497_PATCH	None	ENSG00000261960	ENST00000572688	antisense	KNOWN	None	None	None	None	152806986	152811967	1	None	None
HG1497_PATCH	KRT18P48	ENSG00000262424	ENST00000571758	processed_pseudogene	KNOWN	None	33418	None	None	152812111	152812962	-1	None	None
HG1497_PATCH	None	ENSG00000262076	ENST00000572027	processed_pseudogene	KNOWN	None	None	None	None	152814131	152814502	1	None	None
HG1497_PATCH	None	ENSG00000263122	ENST00000571856	lincRNA	KNOWN	None	None	None	None	152818308	152820539	1	None	None
HG1497_PATCH	DUSP9	ENSG00000269798	ENST00000598728	processed_transcript	KNOWN	None	3076	None	None	152850105	152855626	1	None	MKP-4, MKP4
HG1497_PATCH	DUSP9	ENSG00000269798	ENST00000595095	protein_coding	KNOWN	None	3076	1155	384	152850147	152858940	1	None	MKP-4, MKP4
HG1497_PATCH	DUSP9	ENSG00000269798	ENST00000601432	protein_coding	KNOWN	None	3076	1067	354	152851091	152858936	1	None	MKP-4, MKP4
HG1497_PATCH	DUSP9	ENSG00000269798	ENST00000599661	protein_coding	KNOWN	None	3076	1155	384	152854809	152858932	1	None	MKP-4, MKP4
HG1497_PATCH	RPL18AP16	ENSG00000269328	ENST00000598082	processed_pseudogene	KNOWN	None	36288	None	None	152869770	152870306	1	None	None
HG1497_PATCH	RPL18AP16	ENSG00000269328	ENST00000601330	processed_pseudogene	KNOWN	None	36288	None	None	152869776	152870306	1	None	None
HG1497_PATCH	RN7SL687P	ENSG00000269611	ENST00000598063	misc_RNA	KNOWN	None	46703	None	None	152873840	152874129	1	None	None
HG1497_PATCH	PNCK	ENSG00000269773	ENST00000595210	protein_coding	KNOWN	None	13415	1032	343	152877344	152881459	-1	None	MGC45419, CaMK1b
HG1497_PATCH	PNCK	ENSG00000269773	ENST00000596782	protein_coding	KNOWN	None	13415	1032	343	152877347	152881307	-1	None	MGC45419, CaMK1b
HG1497_PATCH	PNCK	ENSG00000269773	ENST00000595346	retained_intron	KNOWN	None	13415	None	None	152877347	152881560	-1	None	MGC45419, CaMK1b
HG1497_PATCH	PNCK	ENSG00000269773	ENST00000596064	protein_coding	KNOWN	None	13415	244	80	152877349	152878445	-1	None	MGC45419, CaMK1b
HG1497_PATCH	PNCK	ENSG00000269773	ENST00000594969	retained_intron	KNOWN	None	13415	None	None	152877349	152881416	-1	None	MGC45419, CaMK1b
HG1497_PATCH	PNCK	ENSG00000269773	ENST00000598622	protein_coding	KNOWN	None	13415	1101	366	152877349	152881975	-1	None	MGC45419, CaMK1b
HG1497_PATCH	PNCK	ENSG00000269773	ENST00000600774	protein_coding	KNOWN	None	13415	1101	366	152877382	152881939	-1	None	MGC45419, CaMK1b
HG1497_PATCH	PNCK	ENSG00000269773	ENST00000598315	protein_coding	PUTATIVE	None	13415	1083	360	152877398	152880902	-1	None	MGC45419, CaMK1b
HG1497_PATCH	PNCK	ENSG00000269773	ENST00000600541	protein_coding	KNOWN	None	13415	1281	426	152877634	152881975	-1	None	MGC45419, CaMK1b
HG1497_PATCH	PNCK	ENSG00000269773	ENST00000596525	retained_intron	KNOWN	None	13415	None	None	152878144	152894402	-1	None	MGC45419, CaMK1b
HG1497_PATCH	PNCK	ENSG00000269773	ENST00000599306	retained_intron	KNOWN	None	13415	None	None	152878570	152880690	-1	None	MGC45419, CaMK1b
HG1497_PATCH	PNCK	ENSG00000269773	ENST00000600902	protein_coding	KNOWN	None	13415	678	225	152878741	152880987	-1	None	MGC45419, CaMK1b
HG1497_PATCH	PNCK	ENSG00000269773	ENST00000597867	nonsense_mediated_decay	KNOWN	None	13415	300	99	152878744	152881413	-1	None	MGC45419, CaMK1b
HG1497_PATCH	PNCK	ENSG00000269773	ENST00000597293	protein_coding	KNOWN	None	13415	673	223	152878746	152880788	-1	None	MGC45419, CaMK1b
HG1497_PATCH	PNCK	ENSG00000269773	ENST00000601255	retained_intron	KNOWN	None	13415	None	None	152878853	152881436	-1	None	MGC45419, CaMK1b
HG1497_PATCH	PNCK	ENSG00000269773	ENST00000596057	retained_intron	KNOWN	None	13415	None	None	152878922	152881448	-1	None	MGC45419, CaMK1b
HG1497_PATCH	PNCK	ENSG00000269773	ENST00000595755	nonsense_mediated_decay	KNOWN	None	13415	249	82	152878971	152881437	-1	None	MGC45419, CaMK1b
HG1497_PATCH	PNCK	ENSG00000269773	ENST00000601840	retained_intron	KNOWN	None	13415	None	None	152879113	152881959	-1	None	MGC45419, CaMK1b
HG1497_PATCH	PNCK	ENSG00000269773	ENST00000593299	processed_transcript	KNOWN	None	13415	None	None	152879166	152881363	-1	None	MGC45419, CaMK1b
HG1497_PATCH	PNCK	ENSG00000269773	ENST00000594731	retained_intron	KNOWN	None	13415	None	None	152879174	152881418	-1	None	MGC45419, CaMK1b
HG1497_PATCH	PNCK	ENSG00000269773	ENST00000601606	retained_intron	KNOWN	None	13415	None	None	152879304	152880995	-1	None	MGC45419, CaMK1b
HG1497_PATCH	PNCK	ENSG00000269773	ENST00000596479	protein_coding	KNOWN	None	13415	128	41	152879594	152895182	-1	None	MGC45419, CaMK1b
HG1497_PATCH	PNCK	ENSG00000269773	ENST00000598437	protein_coding	KNOWN	None	13415	128	41	152879715	152896624	-1	None	MGC45419, CaMK1b
HG1497_PATCH	PNCK	ENSG00000269773	ENST00000596973	retained_intron	KNOWN	None	13415	None	None	152879736	152880564	-1	None	MGC45419, CaMK1b
HG1497_PATCH	PNCK	ENSG00000269773	ENST00000598416	protein_coding	PUTATIVE	None	13415	284	93	152879751	152882525	-1	None	MGC45419, CaMK1b
HG1497_PATCH	PNCK	ENSG00000269773	ENST00000594795	protein_coding	KNOWN	None	13415	259	85	152879756	152880975	-1	None	MGC45419, CaMK1b
HG1497_PATCH	PNCK	ENSG00000269773	ENST00000593289	protein_coding	KNOWN	None	13415	128	41	152879787	152895176	-1	None	MGC45419, CaMK1b
HG1497_PATCH	PNCK	ENSG00000269773	ENST00000600010	protein_coding	KNOWN	None	13415	128	41	152880252	152895179	-1	None	MGC45419, CaMK1b
HG1497_PATCH	PNCK	ENSG00000269773	ENST00000599978	processed_transcript	PUTATIVE	None	13415	None	None	152880561	152882114	-1	None	MGC45419, CaMK1b
HG1497_PATCH	PNCK	ENSG00000269773	ENST00000600783	processed_transcript	KNOWN	None	13415	None	None	152882281	152894406	-1	None	MGC45419, CaMK1b
HG1497_PATCH	PNCK	ENSG00000269773	ENST00000599237	processed_transcript	PUTATIVE	None	13415	None	None	152894070	152895357	-1	None	MGC45419, CaMK1b
HG1497_PATCH	PNCK	ENSG00000269773	ENST00000593550	processed_transcript	KNOWN	None	13415	None	None	152894078	152896492	-1	None	MGC45419, CaMK1b
HG1497_PATCH	PNCK	ENSG00000269773	ENST00000594861	processed_transcript	PUTATIVE	None	13415	None	None	152894239	152895409	-1	None	MGC45419, CaMK1b
HG1497_PATCH	SLC6A8	ENSG00000268982	ENST00000598634	protein_coding	KNOWN	None	11055	1908	635	152895713	152904207	1	None	CRTR, CT1
HG1497_PATCH	SLC6A8	ENSG00000268982	ENST00000600635	processed_transcript	KNOWN	None	11055	None	None	152896337	152898495	1	None	CRTR, CT1
HG1497_PATCH	SLC6A8	ENSG00000268982	ENST00000597046	protein_coding	KNOWN	None	11055	1563	520	152897081	152902941	1	None	CRTR, CT1
HG1497_PATCH	SLC6A8	ENSG00000268982	ENST00000601783	processed_transcript	KNOWN	None	11055	None	None	152898732	152899696	1	None	CRTR, CT1
HG1497_PATCH	SLC6A8	ENSG00000268982	ENST00000599793	processed_transcript	KNOWN	None	11055	None	None	152898977	152901586	1	None	CRTR, CT1
HG1497_PATCH	SLC6A8	ENSG00000268982	ENST00000598198	protein_coding	KNOWN	None	11055	334	110	152899075	152899829	1	None	CRTR, CT1
HG1497_PATCH	SLC6A8	ENSG00000268982	ENST00000599289	processed_transcript	KNOWN	None	11055	None	None	152899845	152903014	1	None	CRTR, CT1
HG1497_PATCH	SLC6A8	ENSG00000268982	ENST00000595080	protein_coding	KNOWN	None	11055	468	155	152900668	152902190	1	None	CRTR, CT1
HG1497_PATCH	SLC6A8	ENSG00000268982	ENST00000601422	protein_coding	KNOWN	None	11055	523	173	152900881	152902034	1	None	CRTR, CT1
HG1497_PATCH	SLC6A8	ENSG00000268982	ENST00000602244	protein_coding	KNOWN	None	11055	266	87	152901076	152901778	1	None	CRTR, CT1
HG1497_PATCH	BCAP31	ENSG00000267977	ENST00000600824	protein_coding	KNOWN	None	16695	741	246	152908106	152931997	-1	None	DXS1357E, BAP31, 6C6-Ag, CDM
HG1497_PATCH	BCAP31	ENSG00000267977	ENST00000596601	protein_coding	KNOWN	None	16695	741	246	152908111	152932311	-1	None	DXS1357E, BAP31, 6C6-Ag, CDM
HG1497_PATCH	BCAP31	ENSG00000267977	ENST00000595205	processed_transcript	KNOWN	None	16695	None	None	152908113	152928510	-1	None	DXS1357E, BAP31, 6C6-Ag, CDM
HG1497_PATCH	BCAP31	ENSG00000267977	ENST00000597329	protein_coding	KNOWN	None	16695	942	313	152908113	152931708	-1	None	DXS1357E, BAP31, 6C6-Ag, CDM
HG1497_PATCH	BCAP31	ENSG00000267977	ENST00000600920	protein_coding	KNOWN	None	16695	566	187	152910584	152931997	-1	None	DXS1357E, BAP31, 6C6-Ag, CDM
HG1497_PATCH	BCAP31	ENSG00000267977	ENST00000598945	protein_coding	KNOWN	None	16695	561	186	152910589	152932179	-1	None	DXS1357E, BAP31, 6C6-Ag, CDM
HG1497_PATCH	BCAP31	ENSG00000267977	ENST00000595960	protein_coding	KNOWN	None	16695	546	181	152910604	152931727	-1	None	DXS1357E, BAP31, 6C6-Ag, CDM
HG1497_PATCH	BCAP31	ENSG00000267977	ENST00000596038	protein_coding	KNOWN	None	16695	535	177	152910615	152931658	-1	None	DXS1357E, BAP31, 6C6-Ag, CDM
HG1497_PATCH	BCAP31	ENSG00000267977	ENST00000599053	protein_coding	KNOWN	None	16695	415	137	152911635	152931013	-1	None	DXS1357E, BAP31, 6C6-Ag, CDM
HG1497_PATCH	BCAP31	ENSG00000267977	ENST00000596611	processed_transcript	KNOWN	None	16695	None	None	152923181	152928771	-1	None	DXS1357E, BAP31, 6C6-Ag, CDM
HG1497_PATCH	ABCD1	ENSG00000268757	ENST00000601366	protein_coding	KNOWN	None	61	2238	745	152932482	152952375	1	ALD	AMN, ALDP, adrenoleukodystrophy
HG1497_PATCH	ABCD1	ENSG00000268757	ENST00000600049	protein_coding	PUTATIVE	None	61	684	227	152933431	152937511	1	ALD	AMN, ALDP, adrenoleukodystrophy
HG1497_PATCH	ABCD1	ENSG00000268757	ENST00000594539	protein_coding	KNOWN	None	61	668	221	152942957	152948217	1	ALD	AMN, ALDP, adrenoleukodystrophy
HG1497_PATCH	None	ENSG00000268808	ENST00000599052	antisense	KNOWN	None	None	None	None	152943239	152974067	-1	None	None
HG1497_PATCH	None	ENSG00000268808	ENST00000595451	antisense	KNOWN	None	None	None	None	152968104	152974092	-1	None	None
HG1497_PATCH	PLXNB3	ENSG00000268591	ENST00000596875	protein_coding	KNOWN	None	9105	5799	1932	152971810	152986960	1	PLXN6	PLEXR, PLEXB3
HG1497_PATCH	PLXNB3	ENSG00000268591	ENST00000593339	protein_coding	KNOWN	None	9105	5730	1909	152971870	152986955	1	PLXN6	PLEXR, PLEXB3
HG1497_PATCH	PLXNB3	ENSG00000268591	ENST00000598748	protein_coding	KNOWN	None	9105	4689	1562	152971885	152986954	1	PLXN6	PLEXR, PLEXB3
HG1497_PATCH	PLXNB3	ENSG00000268591	ENST00000600374	protein_coding	KNOWN	None	9105	675	224	152971885	152979677	1	PLXN6	PLEXR, PLEXB3
HG1497_PATCH	PLXNB3	ENSG00000268591	ENST00000598993	protein_coding	KNOWN	None	9105	2967	988	152973116	152982852	1	PLXN6	PLEXR, PLEXB3
HG1497_PATCH	PLXNB3	ENSG00000268591	ENST00000593734	protein_coding	KNOWN	None	9105	774	257	152982373	152984570	1	PLXN6	PLEXR, PLEXB3
HG1497_PATCH	PLXNB3	ENSG00000268591	ENST00000597399	processed_transcript	KNOWN	None	9105	None	None	152982543	152984013	1	PLXN6	PLEXR, PLEXB3
HG1497_PATCH	PLXNB3	ENSG00000268591	ENST00000596054	protein_coding	KNOWN	None	9105	489	162	152983590	152984646	1	PLXN6	PLEXR, PLEXB3
HG1497_PATCH	PLXNB3	ENSG00000268591	ENST00000595578	processed_transcript	KNOWN	None	9105	None	None	152984856	152985940	1	PLXN6	PLEXR, PLEXB3
HG1497_PATCH	PLXNB3	ENSG00000268591	ENST00000598669	protein_coding	KNOWN	None	9105	526	174	152985131	152985915	1	PLXN6	PLEXR, PLEXB3
HG1497_PATCH	PLXNB3	ENSG00000268591	ENST00000596775	processed_transcript	KNOWN	None	9105	None	None	152985805	152986954	1	PLXN6	PLEXR, PLEXB3
HG1497_PATCH	PLXNB3	ENSG00000268591	ENST00000600525	processed_transcript	KNOWN	None	9105	None	None	152985996	152986954	1	PLXN6	PLEXR, PLEXB3
HG1497_PATCH	SRPK3	ENSG00000268444	ENST00000595821	protein_coding	PUTATIVE	None	11402	1905	634	152984026	152993342	1	STK23	MSSK1
HG1497_PATCH	SRPK3	ENSG00000268444	ENST00000596666	protein_coding	KNOWN	None	11402	1602	533	152988615	152993346	1	STK23	MSSK1
HG1497_PATCH	SRPK3	ENSG00000268444	ENST00000593665	protein_coding	NOVEL	None	11402	1701	566	152988653	152993138	1	STK23	MSSK1
HG1497_PATCH	SRPK3	ENSG00000268444	ENST00000594166	protein_coding	NOVEL	None	11402	1605	534	152988653	152993344	1	STK23	MSSK1
HG1497_PATCH	SRPK3	ENSG00000268444	ENST00000598944	protein_coding	KNOWN	None	11402	1704	567	152988655	152993342	1	STK23	MSSK1
HG1497_PATCH	SRPK3	ENSG00000268444	ENST00000598132	protein_coding	PUTATIVE	None	11402	614	203	152988730	152990483	1	STK23	MSSK1
HG1497_PATCH	SRPK3	ENSG00000268444	ENST00000598196	protein_coding	NOVEL	None	11402	1479	492	152988730	152993342	1	STK23	MSSK1
HG1497_PATCH	SRPK3	ENSG00000268444	ENST00000594739	protein_coding	PUTATIVE	None	11402	386	127	152992318	152993018	1	STK23	MSSK1
HG1497_PATCH	IDH3G	ENSG00000267989	ENST00000600403	protein_coding	NOVEL	None	5386	1143	380	152993380	153002126	-1	None	None
HG1497_PATCH	IDH3G	ENSG00000267989	ENST00000593996	protein_coding	KNOWN	None	5386	1182	393	152993380	153002137	-1	None	None
HG1497_PATCH	IDH3G	ENSG00000267989	ENST00000596840	protein_coding	NOVEL	None	5386	634	210	152993381	152995167	-1	None	None
HG1497_PATCH	IDH3G	ENSG00000267989	ENST00000600205	protein_coding	PUTATIVE	None	5386	467	154	152993381	152995183	-1	None	None
HG1497_PATCH	IDH3G	ENSG00000267989	ENST00000598838	protein_coding	PUTATIVE	None	5386	1023	340	152993381	153001995	-1	None	None
HG1497_PATCH	IDH3G	ENSG00000267989	ENST00000595078	processed_transcript	KNOWN	None	5386	None	None	152993383	152997849	-1	None	None
HG1497_PATCH	IDH3G	ENSG00000267989	ENST00000596495	protein_coding	PUTATIVE	None	5386	969	322	152993412	153001970	-1	None	None
HG1497_PATCH	IDH3G	ENSG00000267989	ENST00000597082	processed_transcript	KNOWN	None	5386	None	None	152993571	152997448	-1	None	None
HG1497_PATCH	IDH3G	ENSG00000267989	ENST00000598003	protein_coding	PUTATIVE	None	5386	855	284	152994415	153001973	-1	None	None
HG1497_PATCH	IDH3G	ENSG00000267989	ENST00000596505	protein_coding	PUTATIVE	None	5386	597	198	152994665	152997404	-1	None	None
HG1497_PATCH	IDH3G	ENSG00000267989	ENST00000600803	processed_transcript	KNOWN	None	5386	None	None	152994741	153001970	-1	None	None
HG1497_PATCH	IDH3G	ENSG00000267989	ENST00000601260	processed_transcript	KNOWN	None	5386	None	None	152995005	153001949	-1	None	None
HG1497_PATCH	IDH3G	ENSG00000267989	ENST00000601848	processed_transcript	KNOWN	None	5386	None	None	152997325	153001960	-1	None	None
HG1497_PATCH	IDH3G	ENSG00000267989	ENST00000598527	processed_transcript	KNOWN	None	5386	None	None	152997452	153001939	-1	None	None
HG1497_PATCH	SSR4	ENSG00000269520	ENST00000594475	protein_coding	KNOWN	None	11326	522	173	153001130	153006112	1	None	TRAPD
HG1497_PATCH	SSR4	ENSG00000269520	ENST00000600521	processed_transcript	KNOWN	None	11326	None	None	153001789	153003956	1	None	TRAPD
HG1497_PATCH	SSR4	ENSG00000269520	ENST00000599757	protein_coding	KNOWN	None	11326	522	173	153001805	153006112	1	None	TRAPD
HG1497_PATCH	SSR4	ENSG00000269520	ENST00000593616	processed_transcript	KNOWN	None	11326	None	None	153002063	153006107	1	None	TRAPD
HG1497_PATCH	SSR4	ENSG00000269520	ENST00000599490	protein_coding	KNOWN	None	11326	522	173	153002253	153006119	1	None	TRAPD
HG1497_PATCH	SSR4	ENSG00000269520	ENST00000602184	processed_transcript	KNOWN	None	11326	None	None	153002273	153006107	1	None	TRAPD
HG1497_PATCH	SSR4	ENSG00000269520	ENST00000597225	protein_coding	KNOWN	None	11326	447	148	153002288	153006112	1	None	TRAPD
HG1497_PATCH	SSR4	ENSG00000269520	ENST00000594434	processed_transcript	KNOWN	None	11326	None	None	153002290	153005117	1	None	TRAPD
HG1497_PATCH	SSR4	ENSG00000269520	ENST00000595453	processed_transcript	KNOWN	None	11326	None	None	153002293	153006107	1	None	TRAPD
HG1497_PATCH	SSR4	ENSG00000269520	ENST00000598542	processed_transcript	KNOWN	None	11326	None	None	153002320	153003840	1	None	TRAPD
HG1497_PATCH	SSR4	ENSG00000269520	ENST00000593501	processed_transcript	KNOWN	None	11326	None	None	153002662	153006111	1	None	TRAPD
HG1497_PATCH	SSR4	ENSG00000269520	ENST00000597306	processed_transcript	KNOWN	None	11326	None	None	153003866	153006111	1	None	TRAPD
HG1497_PATCH	SSR4	ENSG00000269520	ENST00000596175	protein_coding	KNOWN	None	11326	362	119	153005238	153006112	1	None	TRAPD
HG1497_PATCH	PDZD4	ENSG00000267915	ENST00000595215	protein_coding	KNOWN	None	21167	2310	769	153009780	153038104	-1	PDZK4	KIAA1444, LU1, FLJ34125, PDZRN4L
HG1497_PATCH	PDZD4	ENSG00000267915	ENST00000595959	protein_coding	KNOWN	None	21167	2085	694	153009782	153037510	-1	PDZK4	KIAA1444, LU1, FLJ34125, PDZRN4L
HG1497_PATCH	PDZD4	ENSG00000267915	ENST00000601507	protein_coding	KNOWN	None	21167	1983	660	153010901	153037972	-1	PDZK4	KIAA1444, LU1, FLJ34125, PDZRN4L
HG1497_PATCH	PDZD4	ENSG00000267915	ENST00000594441	processed_transcript	KNOWN	None	21167	None	None	153012493	153015753	-1	PDZK4	KIAA1444, LU1, FLJ34125, PDZRN4L
HG1497_PATCH	PDZD4	ENSG00000267915	ENST00000595762	processed_transcript	KNOWN	None	21167	None	None	153012707	153037470	-1	PDZK4	KIAA1444, LU1, FLJ34125, PDZRN4L
HG1497_PATCH	PDZD4	ENSG00000267915	ENST00000601230	processed_transcript	KNOWN	None	21167	None	None	153013159	153037757	-1	PDZK4	KIAA1444, LU1, FLJ34125, PDZRN4L
HG1497_PATCH	PDZD4	ENSG00000267915	ENST00000594727	processed_transcript	KNOWN	None	21167	None	None	153013196	153038179	-1	PDZK4	KIAA1444, LU1, FLJ34125, PDZRN4L
HG1497_PATCH	PDZD4	ENSG00000267915	ENST00000597323	processed_transcript	KNOWN	None	21167	None	None	153014941	153037284	-1	PDZK4	KIAA1444, LU1, FLJ34125, PDZRN4L
HG1497_PATCH	PDZD4	ENSG00000267915	ENST00000599997	processed_transcript	KNOWN	None	21167	None	None	153015597	153037951	-1	PDZK4	KIAA1444, LU1, FLJ34125, PDZRN4L
HG1497_PATCH	None	ENSG00000269672	ENST00000595507	processed_pseudogene	KNOWN	None	None	None	None	153048865	153049179	1	None	None
HG1497_PATCH	None	ENSG00000269629	ENST00000600772	snoRNA	NOVEL	None	None	None	None	153063317	153063381	1	None	None
HG1497_PATCH	L1CAM	ENSG00000267951	ENST00000599241	protein_coding	KNOWN	None	6470	3774	1257	153069128	153093759	-1	HSAS1, SPG1, HSAS, MASA, MIC5, S10	CD171
HG1497_PATCH	L1CAM	ENSG00000267951	ENST00000598861	protein_coding	KNOWN	None	6470	3780	1259	153069132	153083558	-1	HSAS1, SPG1, HSAS, MASA, MIC5, S10	CD171
HG1497_PATCH	L1CAM	ENSG00000267951	ENST00000593479	protein_coding	KNOWN	None	6470	3774	1257	153069132	153083558	-1	HSAS1, SPG1, HSAS, MASA, MIC5, S10	CD171
HG1497_PATCH	L1CAM	ENSG00000267951	ENST00000597820	protein_coding	KNOWN	None	6470	3768	1255	153069132	153083558	-1	HSAS1, SPG1, HSAS, MASA, MIC5, S10	CD171
HG1497_PATCH	L1CAM	ENSG00000267951	ENST00000594481	protein_coding	KNOWN	None	6470	3747	1248	153069132	153083558	-1	HSAS1, SPG1, HSAS, MASA, MIC5, S10	CD171
HG1497_PATCH	L1CAM	ENSG00000267951	ENST00000595648	protein_coding	NOVEL	None	6470	3747	1248	153069567	153093767	-1	HSAS1, SPG1, HSAS, MASA, MIC5, S10	CD171
HG1497_PATCH	L1CAM	ENSG00000267951	ENST00000601465	protein_coding	NOVEL	None	6470	462	153	153070047	153072092	-1	HSAS1, SPG1, HSAS, MASA, MIC5, S10	CD171
HG1497_PATCH	L1CAM	ENSG00000267951	ENST00000598793	protein_coding	KNOWN	None	6470	3762	1253	153070162	153083461	-1	HSAS1, SPG1, HSAS, MASA, MIC5, S10	CD171
HG1497_PATCH	L1CAM	ENSG00000267951	ENST00000601838	retained_intron	KNOWN	None	6470	None	None	153070406	153071583	-1	HSAS1, SPG1, HSAS, MASA, MIC5, S10	CD171
HG1497_PATCH	L1CAM	ENSG00000267951	ENST00000596146	retained_intron	KNOWN	None	6470	None	None	153072578	153073529	-1	HSAS1, SPG1, HSAS, MASA, MIC5, S10	CD171
HG1497_PATCH	L1CAM	ENSG00000267951	ENST00000595260	protein_coding	NOVEL	None	6470	570	189	153074386	153075991	-1	HSAS1, SPG1, HSAS, MASA, MIC5, S10	CD171
HG1497_PATCH	L1CAM	ENSG00000267951	ENST00000600814	retained_intron	KNOWN	None	6470	None	None	153075165	153076237	-1	HSAS1, SPG1, HSAS, MASA, MIC5, S10	CD171
HG1497_PATCH	L1CAM	ENSG00000267951	ENST00000593674	retained_intron	KNOWN	None	6470	None	None	153076021	153076786	-1	HSAS1, SPG1, HSAS, MASA, MIC5, S10	CD171
HG1497_PATCH	L1CAM	ENSG00000267951	ENST00000597494	protein_coding	KNOWN	None	6470	452	149	153078742	153083653	-1	HSAS1, SPG1, HSAS, MASA, MIC5, S10	CD171
HG1497_PATCH	L1CAM	ENSG00000267951	ENST00000596079	protein_coding	NOVEL	None	6470	385	127	153079766	153083641	-1	HSAS1, SPG1, HSAS, MASA, MIC5, S10	CD171
HG1497_PATCH	L1CAM	ENSG00000267951	ENST00000594979	retained_intron	KNOWN	None	6470	None	None	153079835	153116836	-1	HSAS1, SPG1, HSAS, MASA, MIC5, S10	CD171
HG1497_PATCH	L1CAM	ENSG00000267951	ENST00000600189	protein_coding	NOVEL	None	6470	270	89	153079881	153093786	-1	HSAS1, SPG1, HSAS, MASA, MIC5, S10	CD171
HG1497_PATCH	L1CAM	ENSG00000267951	ENST00000596202	protein_coding	KNOWN	None	6470	251	82	153079915	153084005	-1	HSAS1, SPG1, HSAS, MASA, MIC5, S10	CD171
HG1497_PATCH	L1CAM	ENSG00000267951	ENST00000597762	retained_intron	KNOWN	None	6470	None	None	153080563	153093755	-1	HSAS1, SPG1, HSAS, MASA, MIC5, S10	CD171
HG1497_PATCH	L1CAM	ENSG00000267951	ENST00000594730	processed_transcript	KNOWN	None	6470	None	None	153091478	153093774	-1	HSAS1, SPG1, HSAS, MASA, MIC5, S10	CD171
HG1497_PATCH	None	ENSG00000269655	ENST00000593705	protein_coding	PUTATIVE	None	None	998	331	153088286	153096603	1	None	None
HG1497_PATCH	None	ENSG00000269655	ENST00000598674	protein_coding	KNOWN	None	None	492	163	153088286	153096584	1	None	None
HG1497_PATCH	AVPR2	ENSG00000269623	ENST00000602016	nonsense_mediated_decay	KNOWN	None	897	147	48	153110144	153114778	1	DIR3, DIR	V2R
HG1497_PATCH	AVPR2	ENSG00000269623	ENST00000596997	protein_coding	KNOWN	None	897	1116	371	153112348	153114779	1	DIR3, DIR	V2R
HG1497_PATCH	AVPR2	ENSG00000269623	ENST00000595875	protein_coding	PUTATIVE	None	897	1116	371	153112614	153114429	1	DIR3, DIR	V2R
HG1497_PATCH	AVPR2	ENSG00000269623	ENST00000594580	protein_coding	KNOWN	None	897	1116	371	153112688	153114776	1	DIR3, DIR	V2R
HG1497_PATCH	AVPR2	ENSG00000269623	ENST00000600700	protein_coding	PUTATIVE	None	897	930	309	153112727	153114394	1	DIR3, DIR	V2R
HG1497_PATCH	ARHGAP4	ENSG00000268876	ENST00000601174	protein_coding	NOVEL	None	674	2307	768	153114980	153133867	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
HG1497_PATCH	ARHGAP4	ENSG00000268876	ENST00000602200	protein_coding	NOVEL	None	674	2961	986	153114989	153133873	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
HG1497_PATCH	ARHGAP4	ENSG00000268876	ENST00000596128	nonsense_mediated_decay	KNOWN	None	674	1878	625	153114990	153133857	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
HG1497_PATCH	ARHGAP4	ENSG00000268876	ENST00000596481	protein_coding	KNOWN	None	674	2841	946	153114990	153133857	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
HG1497_PATCH	ARHGAP4	ENSG00000268876	ENST00000593440	retained_intron	KNOWN	None	674	None	None	153115028	153120350	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
HG1497_PATCH	ARHGAP4	ENSG00000268876	ENST00000595285	retained_intron	KNOWN	None	674	None	None	153115052	153117271	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
HG1497_PATCH	ARHGAP4	ENSG00000268876	ENST00000595617	protein_coding	NOVEL	None	674	2778	925	153115067	153133857	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
HG1497_PATCH	ARHGAP4	ENSG00000268876	ENST00000600180	retained_intron	KNOWN	None	674	None	None	153115067	153133857	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
HG1497_PATCH	ARHGAP4	ENSG00000268876	ENST00000599401	retained_intron	KNOWN	None	674	None	None	153115067	153133857	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
HG1497_PATCH	ARHGAP4	ENSG00000268876	ENST00000596519	nonsense_mediated_decay	KNOWN	None	674	654	217	153115082	153133918	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
HG1497_PATCH	ARHGAP4	ENSG00000268876	ENST00000597128	protein_coding	KNOWN	None	674	2772	923	153115179	153129785	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
HG1497_PATCH	ARHGAP4	ENSG00000268876	ENST00000594777	protein_coding	NOVEL	None	674	747	248	153117081	153118714	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
HG1497_PATCH	ARHGAP4	ENSG00000268876	ENST00000600462	processed_transcript	KNOWN	None	674	None	None	153117121	153118484	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
HG1497_PATCH	ARHGAP4	ENSG00000268876	ENST00000594879	protein_coding	NOVEL	None	674	880	292	153117354	153120398	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
HG1497_PATCH	ARHGAP4	ENSG00000268876	ENST00000593458	retained_intron	KNOWN	None	674	None	None	153117432	153118132	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
HG1497_PATCH	ARHGAP4	ENSG00000268876	ENST00000599130	retained_intron	KNOWN	None	674	None	None	153120823	153142611	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
HG1497_PATCH	ARHGAP4	ENSG00000268876	ENST00000598911	protein_coding	NOVEL	None	674	642	213	153120841	153128244	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
HG1497_PATCH	ARHGAP4	ENSG00000268876	ENST00000594648	retained_intron	KNOWN	None	674	None	None	153121137	153121866	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
HG1497_PATCH	ARHGAP4	ENSG00000268876	ENST00000599295	protein_coding	PUTATIVE	None	674	953	316	153126455	153134370	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
HG1497_PATCH	ARHGAP4	ENSG00000268876	ENST00000600371	protein_coding	NOVEL	None	674	586	194	153126553	153129016	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
HG1497_PATCH	ARHGAP4	ENSG00000268876	ENST00000599452	protein_coding	PUTATIVE	None	674	833	276	153126575	153129860	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
HG1497_PATCH	ARHGAP4	ENSG00000268876	ENST00000599901	retained_intron	KNOWN	None	674	None	None	153128025	153129012	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
HG1497_PATCH	ARHGAP4	ENSG00000268876	ENST00000594833	protein_coding	PUTATIVE	None	674	530	175	153128321	153136032	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
HG1497_PATCH	ARHGAP4	ENSG00000268876	ENST00000594065	protein_coding	PUTATIVE	None	674	523	173	153128328	153134473	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
HG1497_PATCH	ARHGAP4	ENSG00000268876	ENST00000594736	processed_transcript	KNOWN	None	674	None	None	153128352	153135967	-1	None	KIAA0131, C1, p115, RhoGAP4, SrGAP4
HG1497_PATCH	NAA10	ENSG00000268281	ENST00000596770	protein_coding	KNOWN	None	18704	708	235	153136854	153142835	-1	ARD1, ARD1A	DXS707, TE2
HG1497_PATCH	NAA10	ENSG00000268281	ENST00000597338	retained_intron	KNOWN	None	18704	None	None	153137439	153139052	-1	ARD1, ARD1A	DXS707, TE2
HG1497_PATCH	NAA10	ENSG00000268281	ENST00000595019	protein_coding	PUTATIVE	None	18704	510	169	153137526	153142653	-1	ARD1, ARD1A	DXS707, TE2
HG1497_PATCH	NAA10	ENSG00000268281	ENST00000599818	protein_coding	PUTATIVE	None	18704	555	184	153137533	153142570	-1	ARD1, ARD1A	DXS707, TE2
HG1497_PATCH	NAA10	ENSG00000268281	ENST00000596061	protein_coding	NOVEL	None	18704	663	220	153137536	153142627	-1	ARD1, ARD1A	DXS707, TE2
HG1497_PATCH	NAA10	ENSG00000268281	ENST00000599196	retained_intron	KNOWN	None	18704	None	None	153137538	153142627	-1	ARD1, ARD1A	DXS707, TE2
HG1497_PATCH	NAA10	ENSG00000268281	ENST00000594978	retained_intron	KNOWN	None	18704	None	None	153137653	153140594	-1	ARD1, ARD1A	DXS707, TE2
HG1497_PATCH	NAA10	ENSG00000268281	ENST00000593556	retained_intron	KNOWN	None	18704	None	None	153137688	153142397	-1	ARD1, ARD1A	DXS707, TE2
HG1497_PATCH	NAA10	ENSG00000268281	ENST00000597669	protein_coding	NOVEL	None	18704	427	141	153137817	153142627	-1	ARD1, ARD1A	DXS707, TE2
HG1497_PATCH	NAA10	ENSG00000268281	ENST00000601121	retained_intron	KNOWN	None	18704	None	None	153137905	153139870	-1	ARD1, ARD1A	DXS707, TE2
HG1497_PATCH	NAA10	ENSG00000268281	ENST00000595432	protein_coding	NOVEL	None	18704	437	144	153138391	153142678	-1	ARD1, ARD1A	DXS707, TE2
HG1497_PATCH	NAA10	ENSG00000268281	ENST00000593626	retained_intron	KNOWN	None	18704	None	None	153139383	153142692	-1	ARD1, ARD1A	DXS707, TE2
HG1497_PATCH	NAA10	ENSG00000268281	ENST00000598648	processed_transcript	KNOWN	None	18704	None	None	153139566	153142627	-1	ARD1, ARD1A	DXS707, TE2
HG1497_PATCH	NAA10	ENSG00000268281	ENST00000595819	retained_intron	KNOWN	None	18704	None	None	153139679	153140594	-1	ARD1, ARD1A	DXS707, TE2
HG1497_PATCH	NAA10	ENSG00000268281	ENST00000596812	retained_intron	KNOWN	None	18704	None	None	153141272	153142627	-1	ARD1, ARD1A	DXS707, TE2
HG1497_PATCH	NAA10	ENSG00000268281	ENST00000593963	retained_intron	KNOWN	None	18704	None	None	153141642	153142618	-1	ARD1, ARD1A	DXS707, TE2
HG1497_PATCH	RENBP	ENSG00000269198	ENST00000593344	protein_coding	KNOWN	None	9959	1284	427	153142875	153152302	-1	None	RNBP, RBP
HG1497_PATCH	RENBP	ENSG00000269198	ENST00000600627	protein_coding	KNOWN	None	9959	765	254	153142882	153152391	-1	None	RNBP, RBP
HG1497_PATCH	RENBP	ENSG00000269198	ENST00000594330	nonsense_mediated_decay	KNOWN	None	9959	349	115	153142887	153149581	-1	None	RNBP, RBP
HG1497_PATCH	RENBP	ENSG00000269198	ENST00000597521	protein_coding	NOVEL	None	9959	1242	413	153142895	153152298	-1	None	RNBP, RBP
HG1497_PATCH	RENBP	ENSG00000269198	ENST00000602264	nonsense_mediated_decay	KNOWN	None	9959	183	60	153142898	153152237	-1	None	RNBP, RBP
HG1497_PATCH	RENBP	ENSG00000269198	ENST00000596565	protein_coding	NOVEL	None	9959	376	124	153142945	153147827	-1	None	RNBP, RBP
HG1497_PATCH	RENBP	ENSG00000269198	ENST00000596501	nonsense_mediated_decay	KNOWN	None	9959	480	159	153143611	153151554	-1	None	RNBP, RBP
HG1497_PATCH	RENBP	ENSG00000269198	ENST00000579530	processed_transcript	KNOWN	None	9959	None	None	153149857	153151243	-1	None	RNBP, RBP
HG1497_PATCH	RENBP	ENSG00000269198	ENST00000601820	retained_intron	KNOWN	None	9959	None	None	153150669	153151843	-1	None	RNBP, RBP
HG1497_PATCH	RENBP	ENSG00000269198	ENST00000598313	retained_intron	KNOWN	None	9959	None	None	153151146	153152222	-1	None	RNBP, RBP
HG1497_PATCH	RENBP	ENSG00000269198	ENST00000597381	retained_intron	KNOWN	None	9959	None	None	153151225	153152254	-1	None	RNBP, RBP
HG1497_PATCH	HCFC1	ENSG00000268768	ENST00000596798	protein_coding	KNOWN	None	4839	6108	2035	153155163	153179417	-1	HFC1	HCF-1, HCF1, CFF, VCAF, MGC70925
HG1497_PATCH	HCFC1	ENSG00000268768	ENST00000594343	protein_coding	NOVEL	None	4839	1834	610	153155167	153161731	-1	HFC1	HCF-1, HCF1, CFF, VCAF, MGC70925
HG1497_PATCH	HCFC1	ENSG00000268768	ENST00000597506	protein_coding	NOVEL	None	4839	6243	2080	153155169	153178794	-1	HFC1	HCF-1, HCF1, CFF, VCAF, MGC70925
HG1497_PATCH	HCFC1	ENSG00000268768	ENST00000599201	protein_coding	KNOWN	None	4839	5901	1966	153155173	153178978	-1	HFC1	HCF-1, HCF1, CFF, VCAF, MGC70925
HG1497_PATCH	HCFC1	ENSG00000268768	ENST00000598701	processed_transcript	KNOWN	None	4839	None	None	153167619	153169877	-1	HFC1	HCF-1, HCF1, CFF, VCAF, MGC70925
HG1497_PATCH	HCFC1-AS1	ENSG00000267974	ENST00000596176	antisense	KNOWN	None	40273	None	None	153176935	153177697	1	None	None
HG1497_PATCH	TMEM187	ENSG00000268384	ENST00000600728	protein_coding	KNOWN	None	13705	786	261	153179937	153190805	1	CXorf12	ITBA1, DXS9878E
HG1497_PATCH	TMEM187	ENSG00000268384	ENST00000597625	protein_coding	KNOWN	None	13705	198	65	153180468	153189870	1	CXorf12	ITBA1, DXS9878E
HG1497_PATCH	TMEM187	ENSG00000268384	ENST00000598294	protein_coding	KNOWN	None	13705	99	32	153188216	153189771	1	CXorf12	ITBA1, DXS9878E
HG1497_PATCH	MIR3202-1	ENSG00000269697	ENST00000597148	miRNA	KNOWN	None	38224	None	None	153188707	153188787	1	None	hsa-mir-3202-1
HG1497_PATCH	MIR3202-2	ENSG00000269697	ENST00000597148	miRNA	KNOWN	None	38228	None	None	153188707	153188787	1	None	hsa-mir-3202-2
HG1497_PATCH	IRAK1	ENSG00000268944	ENST00000596145	protein_coding	KNOWN	None	6112	2139	712	153218110	153227590	-1	None	IRAK, pelle
HG1497_PATCH	IRAK1	ENSG00000268944	ENST00000606905	protein_coding	NOVEL	None	6112	1902	633	153218116	153227486	-1	None	IRAK, pelle
HG1497_PATCH	IRAK1	ENSG00000268944	ENST00000606709	protein_coding	KNOWN	None	6112	2082	693	153218119	153227422	-1	None	IRAK, pelle
HG1497_PATCH	IRAK1	ENSG00000268944	ENST00000605928	protein_coding	PUTATIVE	None	6112	705	234	153218130	153227410	-1	None	IRAK, pelle
HG1497_PATCH	IRAK1	ENSG00000268944	ENST00000606247	processed_transcript	KNOWN	None	6112	None	None	153218332	153226257	-1	None	IRAK, pelle
HG1497_PATCH	IRAK1	ENSG00000268944	ENST00000607526	protein_coding	PUTATIVE	None	6112	639	212	153219173	153223683	-1	None	IRAK, pelle
HG1497_PATCH	IRAK1	ENSG00000268944	ENST00000607213	nonsense_mediated_decay	KNOWN	None	6112	1020	339	153219298	153227507	-1	None	IRAK, pelle
HG1497_PATCH	IRAK1	ENSG00000268944	ENST00000606858	protein_coding	NOVEL	None	6112	655	217	153219341	153221856	-1	None	IRAK, pelle
HG1497_PATCH	IRAK1	ENSG00000268944	ENST00000607605	protein_coding	NOVEL	None	6112	830	275	153219437	153224604	-1	None	IRAK, pelle
HG1497_PATCH	IRAK1	ENSG00000268944	ENST00000606231	protein_coding	KNOWN	None	6112	2049	682	153219469	153227422	-1	None	IRAK, pelle
HG1497_PATCH	IRAK1	ENSG00000268944	ENST00000607387	protein_coding	KNOWN	None	6112	2127	708	153219469	153227422	-1	None	IRAK, pelle
HG1497_PATCH	IRAK1	ENSG00000268944	ENST00000606418	protein_coding	NOVEL	None	6112	1175	390	153220653	153226248	-1	None	IRAK, pelle
HG1497_PATCH	IRAK1	ENSG00000268944	ENST00000607828	processed_transcript	PUTATIVE	None	6112	None	None	153220946	153221987	-1	None	IRAK, pelle
HG1497_PATCH	IRAK1	ENSG00000268944	ENST00000607018	retained_intron	KNOWN	None	6112	None	None	153225956	153226555	-1	None	IRAK, pelle
HG1497_PATCH	MIR718	ENSG00000269207	ENST00000597010	miRNA	KNOWN	None	37317	None	None	153227530	153227599	-1	None	hsa-mir-718
HG1497_PATCH	MECP2	ENSG00000268563	ENST00000601699	protein_coding	KNOWN	None	6990	1461	486	153229183	153305365	-1	RTT, MRX16, MRX79	None
HG1497_PATCH	MECP2	ENSG00000268563	ENST00000598049	protein_coding	NOVEL	None	6990	1497	498	153237844	153305330	-1	RTT, MRX16, MRX79	None
HG1497_PATCH	MECP2	ENSG00000268563	ENST00000593590	protein_coding	NOVEL	None	6990	519	172	153238623	153305301	-1	RTT, MRX16, MRX79	None
HG1497_PATCH	MECP2	ENSG00000268563	ENST00000599886	processed_transcript	KNOWN	None	6990	None	None	153238879	153265380	-1	RTT, MRX16, MRX79	None
HG1497_PATCH	MECP2	ENSG00000268563	ENST00000594113	nonsense_mediated_decay	KNOWN	None	6990	103	33	153238980	153305273	-1	RTT, MRX16, MRX79	None
HG1497_PATCH	MECP2	ENSG00000268563	ENST00000595070	processed_transcript	KNOWN	None	6990	None	None	153239983	153304588	-1	RTT, MRX16, MRX79	None
HG1497_PATCH	MECP2	ENSG00000268563	ENST00000594435	processed_transcript	KNOWN	None	6990	None	None	153239983	153344713	-1	RTT, MRX16, MRX79	None
HG1497_PATCH	MECP2	ENSG00000268563	ENST00000599217	processed_transcript	PUTATIVE	None	6990	None	None	153240043	153295666	-1	RTT, MRX16, MRX79	None
HG1497_PATCH	MECP2	ENSG00000268563	ENST00000600768	processed_transcript	PUTATIVE	None	6990	None	None	153240044	153241788	-1	RTT, MRX16, MRX79	None
HG1497_PATCH	MECP2	ENSG00000268563	ENST00000597080	processed_transcript	KNOWN	None	6990	None	None	153240044	153247713	-1	RTT, MRX16, MRX79	None
HG1497_PATCH	MECP2	ENSG00000268563	ENST00000600915	processed_transcript	KNOWN	None	6990	None	None	153240044	153257091	-1	RTT, MRX16, MRX79	None
HG1497_PATCH	MECP2	ENSG00000268563	ENST00000595642	processed_transcript	KNOWN	None	6990	None	None	153240044	153257091	-1	RTT, MRX16, MRX79	None
HG1497_PATCH	MECP2	ENSG00000268563	ENST00000598211	processed_transcript	KNOWN	None	6990	None	None	153240044	153257091	-1	RTT, MRX16, MRX79	None
HG1497_PATCH	MECP2	ENSG00000268563	ENST00000601709	protein_coding	KNOWN	None	6990	150	49	153240044	153304588	-1	RTT, MRX16, MRX79	None
HG1497_PATCH	OPN1LW	ENSG00000268832	ENST00000597195	protein_coding	KNOWN	None	9936	1095	364	153351834	153366642	1	CBBM, RCP, CBP	COD5
HG1497_PATCH	OPN1LW	ENSG00000268832	ENST00000593419	processed_transcript	KNOWN	None	9936	None	None	153351884	153364007	1	CBBM, RCP, CBP	COD5
HG1497_PATCH	OPN1LW	ENSG00000268832	ENST00000595220	protein_coding	NOVEL	None	9936	495	164	153360552	153366633	1	CBBM, RCP, CBP	COD5
HG1497_PATCH	OPN1MW	ENSG00000268221	ENST00000595290	protein_coding	KNOWN	None	4206	1095	364	153390228	153403752	1	GCP, CBBM, CBD	OPN1MW1, COD5
HG1497_PATCH	OPN1MW	ENSG00000268221	ENST00000595330	processed_transcript	KNOWN	None	4206	None	None	153390278	153401121	1	GCP, CBBM, CBD	OPN1MW1, COD5
HG1497_PATCH	OPN1MW	ENSG00000268221	ENST00000596998	protein_coding	NOVEL	None	4206	493	163	153397668	153403747	1	GCP, CBBM, CBD	OPN1MW1, COD5
HG1497_PATCH	OPN1MW2	ENSG00000269133	ENST00000599007	protein_coding	KNOWN	None	26952	1095	364	153427366	153440896	1	None	None
HG1497_PATCH	OPN1MW2	ENSG00000269133	ENST00000601225	processed_transcript	KNOWN	None	26952	None	None	153427407	153438261	1	None	None
HG1497_PATCH	OPN1MW2	ENSG00000269133	ENST00000594463	protein_coding	NOVEL	None	26952	493	163	153434806	153440887	1	None	None
HG1497_PATCH	None	ENSG00000269433	ENST00000599405	protein_coding	NOVEL	None	None	1095	364	153465167	153478621	1	None	None
HG1497_PATCH	TKTL1	ENSG00000268013	ENST00000596987	protein_coding	KNOWN	None	11835	1791	596	153503281	153537960	1	None	TKR, TKT2
HG1497_PATCH	TKTL1	ENSG00000268013	ENST00000597998	nonsense_mediated_decay	KNOWN	None	11835	384	127	153503409	153520250	1	None	TKR, TKT2
HG1497_PATCH	TKTL1	ENSG00000268013	ENST00000596723	protein_coding	KNOWN	None	11835	1011	336	153503409	153537336	1	None	TKR, TKT2
HG1497_PATCH	TKTL1	ENSG00000268013	ENST00000600346	protein_coding	PUTATIVE	None	11835	592	196	153512533	153518770	1	None	TKR, TKT2
HG1497_PATCH	TKTL1	ENSG00000268013	ENST00000593768	protein_coding	PUTATIVE	None	11835	525	174	153512654	153518756	1	None	TKR, TKT2
HG1497_PATCH	TKTL1	ENSG00000268013	ENST00000601851	protein_coding	PUTATIVE	None	11835	1623	540	153512667	153537960	1	None	TKR, TKT2
HG1497_PATCH	TKTL1	ENSG00000268013	ENST00000593683	processed_transcript	KNOWN	None	11835	None	None	153527914	153532995	1	None	TKR, TKT2
HG1497_PATCH	TKTL1	ENSG00000268013	ENST00000594738	processed_transcript	PUTATIVE	None	11835	None	None	153534794	153535509	1	None	TKR, TKT2
HG1497_PATCH	TKTL1	ENSG00000268013	ENST00000596331	processed_transcript	KNOWN	None	11835	None	None	153534986	153537298	1	None	TKR, TKT2
HG1497_PATCH	None	ENSG00000269865	ENST00000601890	antisense	KNOWN	None	None	None	None	153541570	153542647	-1	None	None
HG1497_PATCH	FLNA	ENSG00000269329	ENST00000602134	nonsense_mediated_decay	KNOWN	None	3754	1815	604	153556134	153578813	-1	FLN1, FLN, OPD2, OPD1	ABP-280
HG1497_PATCH	FLNA	ENSG00000269329	ENST00000596447	protein_coding	NOVEL	None	3754	7920	2639	153556136	153578893	-1	FLN1, FLN, OPD2, OPD1	ABP-280
HG1497_PATCH	FLNA	ENSG00000269329	ENST00000598835	processed_transcript	PUTATIVE	None	3754	None	None	153556140	153560493	-1	FLN1, FLN, OPD2, OPD1	ABP-280
HG1497_PATCH	FLNA	ENSG00000269329	ENST00000597475	protein_coding	KNOWN	None	3754	7920	2639	153556142	153582248	-1	FLN1, FLN, OPD2, OPD1	ABP-280
HG1497_PATCH	FLNA	ENSG00000269329	ENST00000599571	retained_intron	KNOWN	None	3754	None	None	153556258	153567248	-1	FLN1, FLN, OPD2, OPD1	ABP-280
HG1497_PATCH	FLNA	ENSG00000269329	ENST00000600520	protein_coding	KNOWN	None	3754	7944	2647	153556258	153582236	-1	FLN1, FLN, OPD2, OPD1	ABP-280
HG1497_PATCH	FLNA	ENSG00000269329	ENST00000594381	protein_coding	KNOWN	None	3754	2343	780	153556266	153565847	-1	FLN1, FLN, OPD2, OPD1	ABP-280
HG1497_PATCH	FLNA	ENSG00000269329	ENST00000599487	protein_coding	NOVEL	None	3754	7824	2607	153556394	153578898	-1	FLN1, FLN, OPD2, OPD1	ABP-280
HG1497_PATCH	FLNA	ENSG00000269329	ENST00000596688	processed_transcript	KNOWN	None	3754	None	None	153556530	153558813	-1	FLN1, FLN, OPD2, OPD1	ABP-280
HG1497_PATCH	FLNA	ENSG00000269329	ENST00000599010	retained_intron	KNOWN	None	3754	None	None	153556532	153557965	-1	FLN1, FLN, OPD2, OPD1	ABP-280
HG1497_PATCH	FLNA	ENSG00000269329	ENST00000599027	protein_coding	NOVEL	None	3754	843	280	153559191	153560779	-1	FLN1, FLN, OPD2, OPD1	ABP-280
HG1497_PATCH	FLNA	ENSG00000269329	ENST00000597104	retained_intron	KNOWN	None	3754	None	None	153559338	153560393	-1	FLN1, FLN, OPD2, OPD1	ABP-280
HG1497_PATCH	FLNA	ENSG00000269329	ENST00000598290	retained_intron	KNOWN	None	3754	None	None	153560148	153561066	-1	FLN1, FLN, OPD2, OPD1	ABP-280
HG1497_PATCH	FLNA	ENSG00000269329	ENST00000594819	nonsense_mediated_decay	KNOWN	None	3754	272	89	153560163	153561208	-1	FLN1, FLN, OPD2, OPD1	ABP-280
HG1497_PATCH	FLNA	ENSG00000269329	ENST00000601317	protein_coding	NOVEL	None	3754	696	231	153560906	153562499	-1	FLN1, FLN, OPD2, OPD1	ABP-280
HG1497_PATCH	FLNA	ENSG00000269329	ENST00000599967	retained_intron	KNOWN	None	3754	None	None	153561640	153562290	-1	FLN1, FLN, OPD2, OPD1	ABP-280
HG1497_PATCH	FLNA	ENSG00000269329	ENST00000594452	processed_transcript	PUTATIVE	None	3754	None	None	153565151	153566274	-1	FLN1, FLN, OPD2, OPD1	ABP-280
HG1497_PATCH	FLNA	ENSG00000269329	ENST00000598050	retained_intron	KNOWN	None	3754	None	None	153572242	153572817	-1	FLN1, FLN, OPD2, OPD1	ABP-280
HG1497_PATCH	EMD	ENSG00000268557	ENST00000594177	protein_coding	KNOWN	None	3331	765	254	153586807	153589133	1	None	STA, LEMD5
HG1497_PATCH	EMD	ENSG00000268557	ENST00000595414	protein_coding	NOVEL	None	3331	660	219	153586883	153588901	1	None	STA, LEMD5
HG1497_PATCH	EMD	ENSG00000268557	ENST00000601118	retained_intron	KNOWN	None	3331	None	None	153586951	153588889	1	None	STA, LEMD5
HG1497_PATCH	EMD	ENSG00000268557	ENST00000597133	nonsense_mediated_decay	KNOWN	None	3331	66	21	153586971	153588893	1	None	STA, LEMD5
HG1497_PATCH	EMD	ENSG00000268557	ENST00000600771	retained_intron	KNOWN	None	3331	None	None	153587014	153588565	1	None	STA, LEMD5
HG1497_PATCH	EMD	ENSG00000268557	ENST00000597394	retained_intron	KNOWN	None	3331	None	None	153587038	153588072	1	None	STA, LEMD5
HG1497_PATCH	EMD	ENSG00000268557	ENST00000595056	retained_intron	KNOWN	None	3331	None	None	153587135	153588504	1	None	STA, LEMD5
HG1497_PATCH	EMD	ENSG00000268557	ENST00000596857	processed_transcript	KNOWN	None	3331	None	None	153587235	153588891	1	None	STA, LEMD5
HG1497_PATCH	EMD	ENSG00000268557	ENST00000596423	retained_intron	KNOWN	None	3331	None	None	153588175	153589053	1	None	STA, LEMD5
HG1497_PATCH	RPL10	ENSG00000268963	ENST00000605992	retained_intron	KNOWN	None	10298	None	None	153597565	153607776	1	None	NOV, QM, DXS648E, DXS648, FLJ23544, L10
HG1497_PATCH	RPL10	ENSG00000268963	ENST00000606463	protein_coding	KNOWN	None	10298	645	214	153604764	153608527	1	None	NOV, QM, DXS648E, DXS648, FLJ23544, L10
HG1497_PATCH	RPL10	ENSG00000268963	ENST00000607702	processed_transcript	KNOWN	None	10298	None	None	153605359	153606229	1	None	NOV, QM, DXS648E, DXS648, FLJ23544, L10
HG1497_PATCH	RPL10	ENSG00000268963	ENST00000595651	protein_coding	KNOWN	None	10298	645	214	153605840	153609949	1	None	NOV, QM, DXS648E, DXS648, FLJ23544, L10
HG1497_PATCH	RPL10	ENSG00000268963	ENST00000607462	protein_coding	KNOWN	None	10298	602	199	153605977	153608421	1	None	NOV, QM, DXS648E, DXS648, FLJ23544, L10
HG1497_PATCH	RPL10	ENSG00000268963	ENST00000607648	protein_coding	KNOWN	None	10298	645	214	153605982	153609949	1	None	NOV, QM, DXS648E, DXS648, FLJ23544, L10
HG1497_PATCH	RPL10	ENSG00000268963	ENST00000607508	retained_intron	KNOWN	None	10298	None	None	153605987	153608508	1	None	NOV, QM, DXS648E, DXS648, FLJ23544, L10
HG1497_PATCH	RPL10	ENSG00000268963	ENST00000606407	retained_intron	KNOWN	None	10298	None	None	153605987	153608523	1	None	NOV, QM, DXS648E, DXS648, FLJ23544, L10
HG1497_PATCH	RPL10	ENSG00000268963	ENST00000607271	protein_coding	PUTATIVE	None	10298	545	180	153605988	153608527	1	None	NOV, QM, DXS648E, DXS648, FLJ23544, L10
HG1497_PATCH	RPL10	ENSG00000268963	ENST00000605972	retained_intron	KNOWN	None	10298	None	None	153605989	153608427	1	None	NOV, QM, DXS648E, DXS648, FLJ23544, L10
HG1497_PATCH	RPL10	ENSG00000268963	ENST00000607631	retained_intron	KNOWN	None	10298	None	None	153605998	153608523	1	None	NOV, QM, DXS648E, DXS648, FLJ23544, L10
HG1497_PATCH	RPL10	ENSG00000268963	ENST00000607538	retained_intron	KNOWN	None	10298	None	None	153606106	153608507	1	None	NOV, QM, DXS648E, DXS648, FLJ23544, L10
HG1497_PATCH	RPL10	ENSG00000268963	ENST00000606677	retained_intron	KNOWN	None	10298	None	None	153606107	153608523	1	None	NOV, QM, DXS648E, DXS648, FLJ23544, L10
HG1497_PATCH	RPL10	ENSG00000268963	ENST00000606462	protein_coding	PUTATIVE	None	10298	492	163	153606500	153608519	1	None	NOV, QM, DXS648E, DXS648, FLJ23544, L10
HG1497_PATCH	RPL10	ENSG00000268963	ENST00000607211	protein_coding	PUTATIVE	None	10298	327	108	153606976	153611307	1	None	NOV, QM, DXS648E, DXS648, FLJ23544, L10
HG1497_PATCH	RPL10	ENSG00000268963	ENST00000606118	protein_coding	PUTATIVE	None	10298	87	28	153607493	153611100	1	None	NOV, QM, DXS648E, DXS648, FLJ23544, L10
HG1497_PATCH	RPL10	ENSG00000268963	ENST00000607793	protein_coding	PUTATIVE	None	10298	396	131	153607493	153611107	1	None	NOV, QM, DXS648E, DXS648, FLJ23544, L10
HG1497_PATCH	RPL10	ENSG00000268963	ENST00000606216	protein_coding	PUTATIVE	None	10298	276	91	153607493	153616778	1	None	NOV, QM, DXS648E, DXS648, FLJ23544, L10
HG1497_PATCH	SNORA70	ENSG00000268237	ENST00000600204	snoRNA	KNOWN	None	10231	None	None	153607891	153608025	1	RNU70	U70, DXS648E
HG1497_PATCH	DNASE1L1	ENSG00000267993	ENST00000597132	protein_coding	KNOWN	None	2957	909	302	153608848	153619700	-1	DNL1L	DNAS1L1, XIB, DNASEX
HG1497_PATCH	DNASE1L1	ENSG00000267993	ENST00000601862	protein_coding	KNOWN	None	2957	909	302	153608848	153619700	-1	DNL1L	DNAS1L1, XIB, DNASEX
HG1497_PATCH	DNASE1L1	ENSG00000267993	ENST00000598223	protein_coding	KNOWN	None	2957	909	302	153609368	153616886	-1	DNL1L	DNAS1L1, XIB, DNASEX
HG1497_PATCH	DNASE1L1	ENSG00000267993	ENST00000595836	protein_coding	KNOWN	None	2957	909	302	153609368	153616888	-1	DNL1L	DNAS1L1, XIB, DNASEX
HG1497_PATCH	DNASE1L1	ENSG00000267993	ENST00000598641	protein_coding	KNOWN	None	2957	909	302	153609368	153617649	-1	DNL1L	DNAS1L1, XIB, DNASEX
HG1497_PATCH	DNASE1L1	ENSG00000267993	ENST00000596762	protein_coding	KNOWN	None	2957	909	302	153609371	153619722	-1	DNL1L	DNAS1L1, XIB, DNASEX
HG1497_PATCH	DNASE1L1	ENSG00000267993	ENST00000599890	retained_intron	KNOWN	None	2957	None	None	153610097	153611206	-1	DNL1L	DNAS1L1, XIB, DNASEX
HG1497_PATCH	DNASE1L1	ENSG00000267993	ENST00000598514	protein_coding	NOVEL	None	2957	255	84	153610332	153613220	-1	DNL1L	DNAS1L1, XIB, DNASEX
HG1497_PATCH	DNASE1L1	ENSG00000267993	ENST00000598859	protein_coding	KNOWN	None	2957	624	207	153610702	153619693	-1	DNL1L	DNAS1L1, XIB, DNASEX
HG1497_PATCH	DNASE1L1	ENSG00000267993	ENST00000596727	protein_coding	NOVEL	None	2957	188	61	153610748	153613228	-1	DNL1L	DNAS1L1, XIB, DNASEX
HG1497_PATCH	DNASE1L1	ENSG00000267993	ENST00000595433	protein_coding	KNOWN	None	2957	311	102	153612438	153619701	-1	DNL1L	DNAS1L1, XIB, DNASEX
HG1497_PATCH	DNASE1L1	ENSG00000267993	ENST00000600568	protein_coding	KNOWN	None	2957	80	25	153613099	153619699	-1	DNL1L	DNAS1L1, XIB, DNASEX
HG1497_PATCH	DNASE1L1	ENSG00000267993	ENST00000595626	processed_transcript	PUTATIVE	None	2957	None	None	153617579	153619690	-1	DNL1L	DNAS1L1, XIB, DNASEX
HG1497_PATCH	None	ENSG00000268904	ENST00000601016	protein_coding	KNOWN	None	None	879	292	153619166	153629330	1	None	None
HG1497_PATCH	None	ENSG00000269723	ENST00000602197	pseudogene	KNOWN	None	None	None	None	153635801	153636059	-1	None	None
HG1497_PATCH	ATP6AP1	ENSG00000269668	ENST00000594478	protein_coding	KNOWN	None	868	1413	470	153636242	153644126	1	ATP6S1, ATP6IP1	ORF, XAP-3, VATPS1, 16A, Ac45, XAP3, CF2
HG1497_PATCH	ATP6AP1	ENSG00000269668	ENST00000600319	protein_coding	NOVEL	None	868	819	272	153636255	153642989	1	ATP6S1, ATP6IP1	ORF, XAP-3, VATPS1, 16A, Ac45, XAP3, CF2
HG1497_PATCH	ATP6AP1	ENSG00000269668	ENST00000599406	protein_coding	NOVEL	None	868	690	229	153636273	153641829	1	ATP6S1, ATP6IP1	ORF, XAP-3, VATPS1, 16A, Ac45, XAP3, CF2
HG1497_PATCH	ATP6AP1	ENSG00000269668	ENST00000594000	nonsense_mediated_decay	KNOWN	None	868	405	134	153636297	153639210	1	ATP6S1, ATP6IP1	ORF, XAP-3, VATPS1, 16A, Ac45, XAP3, CF2
HG1497_PATCH	ATP6AP1	ENSG00000269668	ENST00000597792	nonsense_mediated_decay	KNOWN	None	868	405	134	153636299	153639489	1	ATP6S1, ATP6IP1	ORF, XAP-3, VATPS1, 16A, Ac45, XAP3, CF2
HG1497_PATCH	ATP6AP1	ENSG00000269668	ENST00000596055	nonsense_mediated_decay	KNOWN	None	868	400	132	153636308	153644125	1	ATP6S1, ATP6IP1	ORF, XAP-3, VATPS1, 16A, Ac45, XAP3, CF2
HG1497_PATCH	ATP6AP1	ENSG00000269668	ENST00000594026	nonsense_mediated_decay	KNOWN	None	868	387	128	153636351	153642989	1	ATP6S1, ATP6IP1	ORF, XAP-3, VATPS1, 16A, Ac45, XAP3, CF2
HG1497_PATCH	ATP6AP1	ENSG00000269668	ENST00000599609	retained_intron	KNOWN	None	868	None	None	153636455	153644125	1	ATP6S1, ATP6IP1	ORF, XAP-3, VATPS1, 16A, Ac45, XAP3, CF2
HG1497_PATCH	ATP6AP1	ENSG00000269668	ENST00000596090	processed_transcript	KNOWN	None	868	None	None	153639332	153641879	1	ATP6S1, ATP6IP1	ORF, XAP-3, VATPS1, 16A, Ac45, XAP3, CF2
HG1497_PATCH	GDI1	ENSG00000268690	ENST00000601899	protein_coding	KNOWN	None	4226	1344	447	153644530	153651077	1	MRX48, MRX41, GDIL	RABGDIA, XAP-4, OPHN2, FLJ41411
HG1497_PATCH	GDI1	ENSG00000268690	ENST00000599039	processed_transcript	KNOWN	None	4226	None	None	153644764	153646861	1	MRX48, MRX41, GDIL	RABGDIA, XAP-4, OPHN2, FLJ41411
HG1497_PATCH	GDI1	ENSG00000268690	ENST00000598852	nonsense_mediated_decay	KNOWN	None	4226	123	40	153644764	153647582	1	MRX48, MRX41, GDIL	RABGDIA, XAP-4, OPHN2, FLJ41411
HG1497_PATCH	GDI1	ENSG00000268690	ENST00000596990	nonsense_mediated_decay	KNOWN	None	4226	444	147	153644774	153647799	1	MRX48, MRX41, GDIL	RABGDIA, XAP-4, OPHN2, FLJ41411
HG1497_PATCH	GDI1	ENSG00000268690	ENST00000595445	nonsense_mediated_decay	KNOWN	None	4226	141	46	153644776	153646662	1	MRX48, MRX41, GDIL	RABGDIA, XAP-4, OPHN2, FLJ41411
HG1497_PATCH	GDI1	ENSG00000268690	ENST00000598853	retained_intron	KNOWN	None	4226	None	None	153644799	153648110	1	MRX48, MRX41, GDIL	RABGDIA, XAP-4, OPHN2, FLJ41411
HG1497_PATCH	GDI1	ENSG00000268690	ENST00000596679	processed_transcript	KNOWN	None	4226	None	None	153645270	153646703	1	MRX48, MRX41, GDIL	RABGDIA, XAP-4, OPHN2, FLJ41411
HG1497_PATCH	GDI1	ENSG00000268690	ENST00000601852	retained_intron	KNOWN	None	4226	None	None	153645616	153651075	1	MRX48, MRX41, GDIL	RABGDIA, XAP-4, OPHN2, FLJ41411
HG1497_PATCH	GDI1	ENSG00000268690	ENST00000599095	retained_intron	KNOWN	None	4226	None	None	153647603	153649852	1	MRX48, MRX41, GDIL	RABGDIA, XAP-4, OPHN2, FLJ41411
HG1497_PATCH	GDI1	ENSG00000268690	ENST00000600038	processed_transcript	PUTATIVE	None	4226	None	None	153647878	153649000	1	MRX48, MRX41, GDIL	RABGDIA, XAP-4, OPHN2, FLJ41411
HG1497_PATCH	GDI1	ENSG00000268690	ENST00000599272	retained_intron	KNOWN	None	4226	None	None	153648134	153651075	1	MRX48, MRX41, GDIL	RABGDIA, XAP-4, OPHN2, FLJ41411
HG1497_PATCH	GDI1	ENSG00000268690	ENST00000598438	retained_intron	KNOWN	None	4226	None	None	153648261	153649708	1	MRX48, MRX41, GDIL	RABGDIA, XAP-4, OPHN2, FLJ41411
HG1497_PATCH	GDI1	ENSG00000268690	ENST00000598695	processed_transcript	KNOWN	None	4226	None	None	153649376	153650338	1	MRX48, MRX41, GDIL	RABGDIA, XAP-4, OPHN2, FLJ41411
HG1497_PATCH	GDI1	ENSG00000268690	ENST00000598609	retained_intron	KNOWN	None	4226	None	None	153649659	153650328	1	MRX48, MRX41, GDIL	RABGDIA, XAP-4, OPHN2, FLJ41411
HG1497_PATCH	FAM50A	ENSG00000269645	ENST00000596978	protein_coding	KNOWN	None	18786	1020	339	153651736	153658264	1	None	DXS9928E, XAP5, HXC-26, 9F
HG1497_PATCH	FAM50A	ENSG00000269645	ENST00000597562	retained_intron	KNOWN	None	18786	None	None	153651765	153658264	1	None	DXS9928E, XAP5, HXC-26, 9F
HG1497_PATCH	FAM50A	ENSG00000269645	ENST00000598796	retained_intron	KNOWN	None	18786	None	None	153651858	153656691	1	None	DXS9928E, XAP5, HXC-26, 9F
HG1497_PATCH	FAM50A	ENSG00000269645	ENST00000599173	protein_coding	PUTATIVE	None	18786	780	259	153652069	153657709	1	None	DXS9928E, XAP5, HXC-26, 9F
HG1497_PATCH	FAM50A	ENSG00000269645	ENST00000596142	retained_intron	KNOWN	None	18786	None	None	153653053	153653492	1	None	DXS9928E, XAP5, HXC-26, 9F
HG1497_PATCH	FAM50A	ENSG00000269645	ENST00000593679	retained_intron	KNOWN	None	18786	None	None	153653876	153656745	1	None	DXS9928E, XAP5, HXC-26, 9F
HG1497_PATCH	FAM50A	ENSG00000269645	ENST00000599055	retained_intron	KNOWN	None	18786	None	None	153657497	153657899	1	None	DXS9928E, XAP5, HXC-26, 9F
HG1497_PATCH	PLXNA3	ENSG00000268862	ENST00000593808	protein_coding	KNOWN	None	9101	5616	1871	153665891	153681256	1	PLXN4	SEX, XAP-6, 6.3, Plxn3
HG1497_PATCH	PLXNA3	ENSG00000268862	ENST00000594145	processed_transcript	KNOWN	None	9101	None	None	153665894	153668984	1	PLXN4	SEX, XAP-6, 6.3, Plxn3
HG1497_PATCH	PLXNA3	ENSG00000268862	ENST00000599407	retained_intron	KNOWN	None	9101	None	None	153672059	153672590	1	PLXN4	SEX, XAP-6, 6.3, Plxn3
HG1497_PATCH	PLXNA3	ENSG00000268862	ENST00000599876	retained_intron	KNOWN	None	9101	None	None	153673701	153674375	1	PLXN4	SEX, XAP-6, 6.3, Plxn3
HG1497_PATCH	PLXNA3	ENSG00000268862	ENST00000601221	processed_transcript	PUTATIVE	None	9101	None	None	153674029	153674785	1	PLXN4	SEX, XAP-6, 6.3, Plxn3
HG1497_PATCH	PLXNA3	ENSG00000268862	ENST00000596047	processed_transcript	PUTATIVE	None	9101	None	None	153676227	153676479	1	PLXN4	SEX, XAP-6, 6.3, Plxn3
HG1497_PATCH	PLXNA3	ENSG00000268862	ENST00000594644	retained_intron	KNOWN	None	9101	None	None	153676271	153676960	1	PLXN4	SEX, XAP-6, 6.3, Plxn3
HG1497_PATCH	PLXNA3	ENSG00000268862	ENST00000602092	processed_transcript	KNOWN	None	9101	None	None	153676692	153678318	1	PLXN4	SEX, XAP-6, 6.3, Plxn3
HG1497_PATCH	PLXNA3	ENSG00000268862	ENST00000594610	retained_intron	KNOWN	None	9101	None	None	153678457	153680306	1	PLXN4	SEX, XAP-6, 6.3, Plxn3
HG1497_PATCH	None	ENSG00000269007	ENST00000601651	protein_coding	KNOWN	None	None	432	143	153684511	153686867	-1	None	None
HG1497_PATCH	UBL4A	ENSG00000269715	ENST00000600314	protein_coding	KNOWN	None	12505	474	157	153691327	153694280	-1	UBL4	GDX, DXS254E, GET5, MDY2, TMA24
HG1497_PATCH	UBL4A	ENSG00000269715	ENST00000596949	nonsense_mediated_decay	KNOWN	None	12505	102	33	153691893	153694222	-1	UBL4	GDX, DXS254E, GET5, MDY2, TMA24
HG1497_PATCH	UBL4A	ENSG00000269715	ENST00000593732	protein_coding	PUTATIVE	None	12505	543	180	153692803	153694225	-1	UBL4	GDX, DXS254E, GET5, MDY2, TMA24
HG1497_PATCH	UBL4A	ENSG00000269715	ENST00000599739	processed_transcript	PUTATIVE	None	12505	None	None	153692963	153693712	-1	UBL4	GDX, DXS254E, GET5, MDY2, TMA24
HG1497_PATCH	UBL4A	ENSG00000269715	ENST00000598328	nonsense_mediated_decay	KNOWN	None	12505	312	103	153692986	153694196	-1	UBL4	GDX, DXS254E, GET5, MDY2, TMA24
HG1497_PATCH	UBL4A	ENSG00000269715	ENST00000599113	retained_intron	KNOWN	None	12505	None	None	153693652	153694194	-1	UBL4	GDX, DXS254E, GET5, MDY2, TMA24
HG1497_PATCH	SLC10A3	ENSG00000268604	ENST00000596040	protein_coding	NOVEL	None	22979	1347	448	153694916	153698224	-1	None	P3, DXS253E
HG1497_PATCH	SLC10A3	ENSG00000268604	ENST00000595029	protein_coding	PUTATIVE	None	22979	1599	532	153694921	153698238	-1	None	P3, DXS253E
HG1497_PATCH	SLC10A3	ENSG00000268604	ENST00000593627	protein_coding	KNOWN	None	22979	1434	477	153694923	153698273	-1	None	P3, DXS253E
HG1497_PATCH	SLC10A3	ENSG00000268604	ENST00000594267	protein_coding	KNOWN	None	22979	1434	477	153694953	153698273	-1	None	P3, DXS253E
HG1497_PATCH	SLC10A3	ENSG00000268604	ENST00000593527	protein_coding	KNOWN	None	22979	654	217	153695897	153698287	-1	None	P3, DXS253E
HG1497_PATCH	None	ENSG00000269441	ENST00000596838	miRNA	NOVEL	None	None	None	None	153701740	153701809	1	None	None
HG1497_PATCH	RN7SL697P	ENSG00000264122	ENST00000584507	misc_RNA	KNOWN	None	46713	None	None	153703427	153703723	-1	None	None
HG1497_PATCH	None	ENSG00000268160	ENST00000596546	protein_coding	NOVEL	None	None	693	230	153712629	153723852	-1	None	None
HG1497_PATCH	None	ENSG00000269338	ENST00000597554	sense_overlapping	KNOWN	None	None	None	None	153725450	153726241	-1	None	None
HG1497_PATCH	G6PD	ENSG00000269087	ENST00000594771	protein_coding	KNOWN	None	4057	1638	545	153739001	153754864	-1	None	G6PD1
HG1497_PATCH	G6PD	ENSG00000269087	ENST00000593787	protein_coding	KNOWN	None	4057	1548	515	153739610	153755182	-1	None	G6PD1
HG1497_PATCH	G6PD	ENSG00000269087	ENST00000595441	protein_coding	KNOWN	None	4057	1686	561	153739610	153755182	-1	None	G6PD1
HG1497_PATCH	G6PD	ENSG00000269087	ENST00000596958	retained_intron	KNOWN	None	4057	None	None	153739693	153740684	-1	None	G6PD1
HG1497_PATCH	G6PD	ENSG00000269087	ENST00000600246	protein_coding	NOVEL	None	4057	1016	337	153740590	153754448	-1	None	G6PD1
HG1497_PATCH	G6PD	ENSG00000269087	ENST00000601270	protein_coding	NOVEL	None	4057	962	319	153740644	153755167	-1	None	G6PD1
HG1497_PATCH	G6PD	ENSG00000269087	ENST00000597812	retained_intron	KNOWN	None	4057	None	None	153740927	153741803	-1	None	G6PD1
HG1497_PATCH	G6PD	ENSG00000269087	ENST00000599711	protein_coding	KNOWN	None	4057	769	255	153741646	153754442	-1	None	G6PD1
HG1497_PATCH	G6PD	ENSG00000269087	ENST00000600061	processed_transcript	KNOWN	None	4057	None	None	153742685	153753719	-1	None	G6PD1
HG1497_PATCH	G6PD	ENSG00000269087	ENST00000596187	retained_intron	KNOWN	None	4057	None	None	153743336	153753719	-1	None	G6PD1
HG1497_PATCH	None	ENSG00000269335	ENST00000594239	protein_coding	KNOWN	None	None	1260	419	153754957	153772655	1	None	None
HG1497_PATCH	FAM223B	ENSG00000269432	ENST00000598177	protein_coding	KNOWN	None	34048	369	122	153778858	153779565	1	CXorf52B, NCRNA00204B, LINC00204B	None
HG1497_PATCH	ATF4P2	ENSG00000269359	ENST00000601944	processed_pseudogene	KNOWN	None	34025	None	None	153788536	153789608	1	None	None
HG1497_PATCH	CTAG1A	ENSG00000268651	ENST00000593606	protein_coding	PUTATIVE	None	24198	507	168	153792753	153794426	1	None	LAGE2A, ESO1
HG1497_PATCH	CTAG1A	ENSG00000268651	ENST00000599837	protein_coding	KNOWN	None	24198	543	180	153792764	153794425	1	None	LAGE2A, ESO1
HG1497_PATCH	None	ENSG00000268609	ENST00000598856	processed_pseudogene	KNOWN	None	None	None	None	153813468	153813560	1	None	None
HG1497_PATCH	None	ENSG00000269187	ENST00000595485	protein_coding	KNOWN	None	None	543	180	153825219	153826881	-1	None	None
HG1497_PATCH	ATF4P1	ENSG00000268255	ENST00000601316	processed_pseudogene	KNOWN	None	789	None	None	153830038	153831110	-1	TXREBP, ATF4P	TAXREB67P
HG1497_PATCH	FAM223B	ENSG00000269757	ENST00000593346	protein_coding	KNOWN	None	34048	369	122	153840085	153840792	-1	CXorf52B, NCRNA00204B, LINC00204B	None
HG1497_PATCH	CTAG2	ENSG00000269592	ENST00000595847	protein_coding	PUTATIVE	None	2492	633	210	153859582	153861189	-1	None	LAGE-1, CAMEL, LAGE1, ESO2, MGC3803, MGC138724, CT6.2a, CT6.2b, LAGE-1a, LAGE-1b
HG1497_PATCH	CTAG2	ENSG00000269592	ENST00000601408	protein_coding	KNOWN	None	2492	543	180	153859587	153861178	-1	None	LAGE-1, CAMEL, LAGE1, ESO2, MGC3803, MGC138724, CT6.2a, CT6.2b, LAGE-1a, LAGE-1b
HG1497_PATCH	None	ENSG00000269455	ENST00000599669	unprocessed_pseudogene	KNOWN	None	None	None	None	153862156	153862935	1	None	None
HG1497_PATCH	OR3B1P	ENSG00000269769	ENST00000593689	unprocessed_pseudogene	KNOWN	None	14839	None	None	153866400	153867292	-1	None	None
HG1497_PATCH	GAB3	ENSG00000268699	ENST00000600901	processed_transcript	KNOWN	None	17515	None	None	153882862	153959193	-1	None	None
HG1497_PATCH	GAB3	ENSG00000268699	ENST00000596917	protein_coding	KNOWN	None	17515	1761	586	153882863	153958667	-1	None	None
HG1497_PATCH	GAB3	ENSG00000268699	ENST00000596301	protein_coding	NOVEL	None	17515	1647	548	153883779	153958683	-1	None	None
HG1497_PATCH	GAB3	ENSG00000268699	ENST00000593794	protein_coding	KNOWN	None	17515	1764	587	153885576	153958687	-1	None	None
HG1497_PATCH	GAB3	ENSG00000268699	ENST00000601880	processed_transcript	PUTATIVE	None	17515	None	None	153885900	153903702	-1	None	None
HG1497_PATCH	GAB3	ENSG00000268699	ENST00000600560	protein_coding	PUTATIVE	None	17515	450	149	153886588	153887829	-1	None	None
HG1497_PATCH	DKC1	ENSG00000268226	ENST00000596793	protein_coding	KNOWN	None	2890	1545	514	153970366	153985299	1	DKC	XAP101, dyskerin, NAP57, NOLA4
HG1497_PATCH	DKC1	ENSG00000268226	ENST00000605974	retained_intron	KNOWN	None	2890	None	None	153970462	153972965	1	DKC	XAP101, dyskerin, NAP57, NOLA4
HG1497_PATCH	DKC1	ENSG00000268226	ENST00000606823	protein_coding	NOVEL	None	2890	776	257	153970501	153976901	1	DKC	XAP101, dyskerin, NAP57, NOLA4
HG1497_PATCH	DKC1	ENSG00000268226	ENST00000607506	processed_transcript	KNOWN	None	2890	None	None	153970523	153974165	1	DKC	XAP101, dyskerin, NAP57, NOLA4
HG1497_PATCH	DKC1	ENSG00000268226	ENST00000607302	nonsense_mediated_decay	KNOWN	None	2890	510	169	153972535	153976820	1	DKC	XAP101, dyskerin, NAP57, NOLA4
HG1497_PATCH	DKC1	ENSG00000268226	ENST00000606366	protein_coding	NOVEL	None	2890	686	227	153972537	153975968	1	DKC	XAP101, dyskerin, NAP57, NOLA4
HG1497_PATCH	DKC1	ENSG00000268226	ENST00000606133	nonsense_mediated_decay	KNOWN	None	2890	229	75	153974626	153983870	1	DKC	XAP101, dyskerin, NAP57, NOLA4
HG1497_PATCH	DKC1	ENSG00000268226	ENST00000606571	nonsense_mediated_decay	KNOWN	None	2890	625	207	153974991	153982883	1	DKC	XAP101, dyskerin, NAP57, NOLA4
HG1497_PATCH	DKC1	ENSG00000268226	ENST00000607669	retained_intron	KNOWN	None	2890	None	None	153975634	153978486	1	DKC	XAP101, dyskerin, NAP57, NOLA4
HG1497_PATCH	DKC1	ENSG00000268226	ENST00000606041	processed_transcript	KNOWN	None	2890	None	None	153976153	153983871	1	DKC	XAP101, dyskerin, NAP57, NOLA4
HG1497_PATCH	DKC1	ENSG00000268226	ENST00000605958	retained_intron	KNOWN	None	2890	None	None	153980754	153982924	1	DKC	XAP101, dyskerin, NAP57, NOLA4
HG1497_PATCH	DKC1	ENSG00000268226	ENST00000607156	processed_transcript	KNOWN	None	2890	None	None	153982729	153984521	1	DKC	XAP101, dyskerin, NAP57, NOLA4
HG1497_PATCH	SNORA36A	ENSG00000268261	ENST00000600569	snoRNA	KNOWN	None	32628	None	None	153976138	153976269	1	None	ACA36
HG1497_PATCH	SNORA56	ENSG00000268874	ENST00000601265	snoRNA	KNOWN	None	32650	None	None	153982608	153982736	1	None	ACA56
HG1497_PATCH	MPP1	ENSG00000269326	ENST00000599769	protein_coding	KNOWN	None	7219	1401	466	153986294	154013131	-1	DXS552E	PEMP
HG1497_PATCH	MPP1	ENSG00000269326	ENST00000597942	retained_intron	KNOWN	None	7219	None	None	153986296	153990844	-1	DXS552E	PEMP
HG1497_PATCH	MPP1	ENSG00000269326	ENST00000597401	protein_coding	KNOWN	None	7219	1311	436	153986296	154013137	-1	DXS552E	PEMP
HG1497_PATCH	MPP1	ENSG00000269326	ENST00000598571	retained_intron	KNOWN	None	7219	None	None	153986333	153989206	-1	DXS552E	PEMP
HG1497_PATCH	MPP1	ENSG00000269326	ENST00000601635	nonsense_mediated_decay	KNOWN	None	7219	207	68	153986336	154013066	-1	DXS552E	PEMP
HG1497_PATCH	MPP1	ENSG00000269326	ENST00000595966	protein_coding	NOVEL	None	7219	1341	446	153986763	154013007	-1	DXS552E	PEMP
HG1497_PATCH	MPP1	ENSG00000269326	ENST00000594812	protein_coding	NOVEL	None	7219	617	204	153989364	154013095	-1	DXS552E	PEMP
HG1497_PATCH	MPP1	ENSG00000269326	ENST00000601947	retained_intron	KNOWN	None	7219	None	None	153990319	154013051	-1	DXS552E	PEMP
HG1497_PATCH	MPP1	ENSG00000269326	ENST00000596795	processed_transcript	PUTATIVE	None	7219	None	None	153990855	153993893	-1	DXS552E	PEMP
HG1497_PATCH	MPP1	ENSG00000269326	ENST00000601289	processed_transcript	KNOWN	None	7219	None	None	153990987	154007425	-1	DXS552E	PEMP
HG1497_PATCH	MPP1	ENSG00000269326	ENST00000597737	retained_intron	KNOWN	None	7219	None	None	153991263	153993835	-1	DXS552E	PEMP
HG1497_PATCH	MPP1	ENSG00000269326	ENST00000598637	protein_coding	PUTATIVE	None	7219	724	240	153991641	154028617	-1	DXS552E	PEMP
HG1497_PATCH	MPP1	ENSG00000269326	ENST00000598899	retained_intron	KNOWN	None	7219	None	None	153992311	154013087	-1	DXS552E	PEMP
HG1497_PATCH	MPP1	ENSG00000269326	ENST00000600699	protein_coding	NOVEL	None	7219	469	155	153992667	154013095	-1	DXS552E	PEMP
HG1497_PATCH	MPP1	ENSG00000269326	ENST00000601042	processed_transcript	KNOWN	None	7219	None	None	153992694	153998805	-1	DXS552E	PEMP
HG1497_PATCH	MPP1	ENSG00000269326	ENST00000599003	nonsense_mediated_decay	KNOWN	None	7219	270	89	153993824	154013137	-1	DXS552E	PEMP
HG1497_PATCH	MPP1	ENSG00000269326	ENST00000596083	processed_transcript	KNOWN	None	7219	None	None	153993976	154000032	-1	DXS552E	PEMP
HG1497_PATCH	MPP1	ENSG00000269326	ENST00000597684	protein_coding	NOVEL	None	7219	394	130	153997599	154013108	-1	DXS552E	PEMP
HG1497_PATCH	MPP1	ENSG00000269326	ENST00000596943	processed_transcript	KNOWN	None	7219	None	None	153999241	154013078	-1	DXS552E	PEMP
HG1497_PATCH	HMGN1P37	ENSG00000268017	ENST00000601448	processed_pseudogene	KNOWN	None	39421	None	None	154024709	154025011	-1	None	None
HG1497_PATCH	SMIM9	ENSG00000268084	ENST00000595111	protein_coding	KNOWN	None	41915	300	99	154030958	154040281	-1	CXorf68	None
HG1497_PATCH	SMIM9	ENSG00000268084	ENST00000600691	processed_transcript	KNOWN	None	41915	None	None	154031238	154035068	-1	CXorf68	None
HG1497_PATCH	SMIM9	ENSG00000268084	ENST00000599116	processed_transcript	KNOWN	None	41915	None	None	154038183	154042272	-1	CXorf68	None
HG1497_PATCH	F8	ENSG00000269261	ENST00000593499	protein_coding	PUTATIVE	None	3546	651	216	154043398	154093927	-1	F8C	FVIII, DXS1253E, HEMA
HG1497_PATCH	F8	ENSG00000269261	ENST00000601201	protein_coding	KNOWN	None	3546	7056	2351	154043405	154230363	-1	F8C	FVIII, DXS1253E, HEMA
HG1497_PATCH	F8	ENSG00000269261	ENST00000596703	processed_transcript	PUTATIVE	None	3546	None	None	154173388	154174126	-1	F8C	FVIII, DXS1253E, HEMA
HG1497_PATCH	F8	ENSG00000269261	ENST00000598124	protein_coding	PUTATIVE	None	3546	668	221	154192311	154234550	-1	F8C	FVIII, DXS1253E, HEMA
HG1497_PATCH	F8	ENSG00000269261	ENST00000597615	protein_coding	PUTATIVE	None	3546	494	163	154200635	154234478	-1	F8C	FVIII, DXS1253E, HEMA
HG1497_PATCH	H2AFB1	ENSG00000268813	ENST00000594123	protein_coding	KNOWN	None	22516	348	115	154092652	154093168	1	None	None
HG1497_PATCH	F8A1	ENSG00000268835	ENST00000597478	protein_coding	KNOWN	None	3547	1116	371	154093970	154095670	1	F8A	DXS522E
HG1497_PATCH	MIR1184-1	ENSG00000268216	ENST00000601271	miRNA	KNOWN	None	35265	None	None	154094970	154095068	-1	MIRN1184, MIR1184	hsa-mir-1184
HG1497_PATCH	None	ENSG00000269059	ENST00000597839	processed_pseudogene	KNOWN	None	None	None	None	154105171	154105702	-1	None	None
HG1497_PATCH	EEF1A1P31	ENSG00000267860	ENST00000600886	processed_pseudogene	KNOWN	None	37908	None	None	154116495	154126713	-1	None	None
HG1497_PATCH	None	ENSG00000268300	ENST00000594197	processed_pseudogene	KNOWN	None	None	None	None	154127188	154127792	-1	None	None
HG1497_PATCH	FUNDC2	ENSG00000268109	ENST00000597806	processed_transcript	KNOWN	None	24925	None	None	154233590	154259342	1	None	HCBP6, DC44
HG1497_PATCH	FUNDC2	ENSG00000268109	ENST00000598456	protein_coding	KNOWN	None	24925	570	189	154234295	154267913	1	None	HCBP6, DC44
HG1497_PATCH	FUNDC2	ENSG00000268109	ENST00000594474	processed_transcript	KNOWN	None	24925	None	None	154234763	154262291	1	None	HCBP6, DC44
HG1497_PATCH	FUNDC2	ENSG00000268109	ENST00000600129	retained_intron	KNOWN	None	24925	None	None	154240589	154262223	1	None	HCBP6, DC44
HG1497_PATCH	FUNDC2	ENSG00000268109	ENST00000601583	nonsense_mediated_decay	KNOWN	None	24925	285	94	154241036	154262716	1	None	HCBP6, DC44
HG1497_PATCH	FUNDC2	ENSG00000268109	ENST00000598801	retained_intron	KNOWN	None	24925	None	None	154254667	154262502	1	None	HCBP6, DC44
HG1497_PATCH	FUNDC2	ENSG00000268109	ENST00000598621	retained_intron	KNOWN	None	24925	None	None	154256704	154263181	1	None	HCBP6, DC44
HG1497_PATCH	MTCP1	ENSG00000268700	ENST00000597005	nonsense_mediated_decay	KNOWN	None	7423	30	9	154269232	154273129	-1	None	P13MTCP1, p8MTCP1
HG1497_PATCH	MTCP1	ENSG00000268700	ENST00000596212	protein_coding	KNOWN	None	7423	324	107	154271644	154278836	-1	None	P13MTCP1, p8MTCP1
HG1497_PATCH	MTCP1	ENSG00000268700	ENST00000599200	processed_transcript	KNOWN	None	7423	None	None	154272538	154278746	-1	None	P13MTCP1, p8MTCP1
HG1497_PATCH	MTCP1	ENSG00000268700	ENST00000600338	processed_transcript	KNOWN	None	7423	None	None	154272773	154355547	-1	None	P13MTCP1, p8MTCP1
HG1497_PATCH	MTCP1	ENSG00000268700	ENST00000597096	protein_coding	KNOWN	None	7423	324	107	154272931	154355385	-1	None	P13MTCP1, p8MTCP1
HG1497_PATCH	CMC4	ENSG00000269618	ENST00000598989	protein_coding	KNOWN	None	35428	207	68	154269232	154278972	-1	MTCP1, MTCP1NB	P8MTCP1, p8
HG1497_PATCH	CMC4	ENSG00000269618	ENST00000599805	protein_coding	KNOWN	None	35428	207	68	154269238	154272978	-1	MTCP1, MTCP1NB	P8MTCP1, p8
HG1497_PATCH	BRCC3	ENSG00000269884	ENST00000597217	protein_coding	NOVEL	None	24185	879	292	154279030	154328928	1	CXorf53	C6.1A, BRCC36
HG1497_PATCH	BRCC3	ENSG00000269884	ENST00000601378	protein_coding	KNOWN	None	24185	876	291	154279041	154330337	1	CXorf53	C6.1A, BRCC36
HG1497_PATCH	BRCC3	ENSG00000269884	ENST00000597826	protein_coding	NOVEL	None	24185	744	247	154279109	154330682	1	CXorf53	C6.1A, BRCC36
HG1497_PATCH	BRCC3	ENSG00000269884	ENST00000594541	protein_coding	KNOWN	None	24185	951	316	154279113	154330684	1	CXorf53	C6.1A, BRCC36
HG1497_PATCH	BRCC3	ENSG00000269884	ENST00000596060	protein_coding	NOVEL	None	24185	678	225	154279128	154323793	1	CXorf53	C6.1A, BRCC36
HG1497_PATCH	BRCC3	ENSG00000269884	ENST00000597317	protein_coding	KNOWN	None	24185	954	317	154279138	154327760	1	CXorf53	C6.1A, BRCC36
HG1497_PATCH	BRCC3	ENSG00000269884	ENST00000601561	nonsense_mediated_decay	KNOWN	None	24185	257	84	154279142	154330646	1	CXorf53	C6.1A, BRCC36
HG1497_PATCH	BRCC3	ENSG00000269884	ENST00000600398	protein_coding	PUTATIVE	None	24185	273	90	154281021	154286540	1	CXorf53	C6.1A, BRCC36
HG1497_PATCH	None	ENSG00000269126	ENST00000597772	unprocessed_pseudogene	KNOWN	None	None	None	None	154344721	154364113	1	None	None
HG1497_PATCH	VBP1	ENSG00000268440	ENST00000600922	protein_coding	KNOWN	None	12662	579	192	154404617	154446654	1	None	PFD3, PFDN3
HG1497_PATCH	VBP1	ENSG00000268440	ENST00000601657	protein_coding	KNOWN	None	12662	594	197	154423976	154447427	1	None	PFD3, PFDN3
HG1497_PATCH	VBP1	ENSG00000268440	ENST00000596670	processed_transcript	KNOWN	None	12662	None	None	154434754	154446571	1	None	PFD3, PFDN3
HG1497_PATCH	VBP1	ENSG00000268440	ENST00000594175	processed_transcript	KNOWN	None	12662	None	None	154443295	154447254	1	None	PFD3, PFDN3
HG1497_PATCH	None	ENSG00000268648	ENST00000593834	processed_pseudogene	KNOWN	None	None	None	None	154420531	154421248	-1	None	None
HG1497_PATCH	RAB39B	ENSG00000268359	ENST00000593872	protein_coding	KNOWN	None	16499	642	213	154465851	154472199	-1	None	None
HG1497_PATCH	CLIC2	ENSG00000268943	ENST00000596972	protein_coding	KNOWN	None	2063	744	247	154483821	154542256	-1	None	XAP121
HG1497_PATCH	CLIC2	ENSG00000268943	ENST00000594482	processed_transcript	KNOWN	None	2063	None	None	154485590	154542152	-1	None	XAP121
HG1497_PATCH	CLIC2	ENSG00000268943	ENST00000595251	protein_coding	NOVEL	None	2063	399	132	154486816	154542267	-1	None	XAP121
HG1497_PATCH	CLIC2	ENSG00000268943	ENST00000597328	processed_transcript	KNOWN	None	2063	None	None	154486879	154542037	-1	None	XAP121
HG1497_PATCH	None	ENSG00000268246	ENST00000594115	processed_pseudogene	KNOWN	None	None	None	None	154497970	154498963	-1	None	None
HG1497_PATCH	None	ENSG00000268924	ENST00000594804	processed_pseudogene	KNOWN	None	None	None	None	154499779	154501042	1	None	None
HG1497_PATCH	None	ENSG00000269860	ENST00000595411	processed_pseudogene	KNOWN	None	None	None	None	154517857	154518100	1	None	None
HG1497_PATCH	H2AFB2	ENSG00000267863	ENST00000599985	protein_coding	KNOWN	None	18298	348	115	154588389	154588905	1	None	None
HG1497_PATCH	F8A2	ENSG00000268720	ENST00000598873	protein_coding	KNOWN	None	31849	1116	371	154589710	154591410	1	None	None
HG1497_PATCH	MIR1184-2	ENSG00000268338	ENST00000596780	miRNA	KNOWN	None	38211	None	None	154590710	154590808	-1	None	hsa-mir-1184-2
HG1497_PATCH	MIR1184-3	ENSG00000268338	ENST00000596780	miRNA	KNOWN	None	38389	None	None	154590710	154590808	-1	None	hsa-mir-1184-3
HG1497_PATCH	F8A3	ENSG00000268464	ENST00000599403	protein_coding	KNOWN	None	31850	1116	371	154664525	154666225	-1	None	None
HG1497_PATCH	MIR1184-2	ENSG00000268271	ENST00000593571	miRNA	KNOWN	None	38211	None	None	154665127	154665225	1	None	hsa-mir-1184-2
HG1497_PATCH	MIR1184-3	ENSG00000268271	ENST00000593571	miRNA	KNOWN	None	38389	None	None	154665127	154665225	1	None	hsa-mir-1184-3
HG1497_PATCH	H2AFB3	ENSG00000268901	ENST00000596716	protein_coding	KNOWN	None	14455	348	115	154667029	154667545	-1	H2AFB	None
HG1497_PATCH	TMLHE-AS1	ENSG00000269492	ENST00000601539	antisense	KNOWN	None	44261	None	None	154673580	154675270	1	None	None
HG1497_PATCH	TMLHE-AS1	ENSG00000269492	ENST00000594032	antisense	KNOWN	None	44261	None	None	154674150	154701720	1	None	None
HG1497_PATCH	TMLHE-AS1	ENSG00000269492	ENST00000596072	antisense	KNOWN	None	44261	None	None	154696933	154819226	1	None	None
HG1497_PATCH	None	ENSG00000269166	ENST00000599228	antisense	KNOWN	None	None	None	None	154675896	154694656	1	None	None
HG1497_PATCH	TMLHE	ENSG00000267946	ENST00000597729	protein_coding	KNOWN	None	18308	1266	421	154697725	154820546	-1	None	TMLH, FLJ10727, BBOX2, XAP130
HG1497_PATCH	TMLHE	ENSG00000267946	ENST00000601327	processed_transcript	KNOWN	None	18308	None	None	154699059	154700099	-1	None	TMLH, FLJ10727, BBOX2, XAP130
HG1497_PATCH	TMLHE	ENSG00000267946	ENST00000596345	protein_coding	KNOWN	None	18308	1131	376	154700145	154820487	-1	None	TMLH, FLJ10727, BBOX2, XAP130
HG1497_PATCH	TMLHE	ENSG00000267946	ENST00000595698	processed_transcript	KNOWN	None	18308	None	None	154731881	154752887	-1	None	TMLH, FLJ10727, BBOX2, XAP130
HG1497_PATCH	TMLHE	ENSG00000267946	ENST00000593585	processed_transcript	KNOWN	None	18308	None	None	154752777	154877554	-1	None	TMLH, FLJ10727, BBOX2, XAP130
HG1497_PATCH	TMLHE	ENSG00000267946	ENST00000602214	processed_transcript	KNOWN	None	18308	None	None	154819738	154820505	-1	None	TMLH, FLJ10727, BBOX2, XAP130
HG1292_PATCH	NOTCH2	ENSG00000266766	ENST00000581899	protein_coding	KNOWN	None	7882	7416	2471	120454176	120612249	-1	None	None
HG1292_PATCH	NOTCH2	ENSG00000266766	ENST00000580143	processed_transcript	KNOWN	None	7882	None	None	120465118	120466528	-1	None	None
HG1292_PATCH	NOTCH2	ENSG00000266766	ENST00000580832	processed_transcript	KNOWN	None	7882	None	None	120477890	120480086	-1	None	None
HG1292_PATCH	NOTCH2	ENSG00000266766	ENST00000579475	retained_intron	KNOWN	None	7882	None	None	120492743	120612249	-1	None	None
HG1292_PATCH	NOTCH2	ENSG00000266766	ENST00000602707	protein_coding	PUTATIVE	None	7882	708	235	120535404	120596848	-1	None	None
HG1292_PATCH	NOTCH2	ENSG00000266766	ENST00000579793	processed_transcript	KNOWN	None	7882	None	None	120547856	120572586	-1	None	None
HG1292_PATCH	RNU6-465P	ENSG00000264656	ENST00000466672	snRNA	KNOWN	None	47428	None	None	120669597	120669697	1	None	None
HG1292_PATCH	None	ENSG00000265808	ENST00000578049	protein_coding	KNOWN	None	None	648	215	120698575	120719144	-1	None	None
HG1292_PATCH	None	ENSG00000272089	ENST00000606547	protein_coding	KNOWN	None	None	381	126	120823868	120825921	-1	None	None
HG1292_PATCH	None	ENSG00000270392	ENST00000604437	protein_coding	KNOWN	None	None	180	59	120975013	120976326	-1	None	None
HG1292_PATCH	None	ENSG00000270231	ENST00000583271	protein_coding	KNOWN	None	None	2829	942	120978974	121010467	1	None	None
HG1292_PATCH	None	ENSG00000272497	ENST00000607139	protein_coding	KNOWN	None	None	381	126	121157717	121159770	1	None	None
HG1292_PATCH	None	ENSG00000263353	ENST00000581138	protein_coding	KNOWN	None	None	495	164	121382018	121382802	1	None	None
HG1292_PATCH	None	ENSG00000263560	ENST00000583315	protein_coding	KNOWN	None	None	807	268	121405423	121406510	-1	None	None
HG1292_PATCH	FCGR1B	ENSG00000263850	ENST00000584115	protein_coding	KNOWN	None	3614	843	280	121579624	121588582	1	None	CD64b
HG1292_PATCH	FCGR1B	ENSG00000263850	ENST00000577333	protein_coding	KNOWN	None	3614	567	188	121579667	121588427	1	None	CD64b
HG1292_PATCH	FCGR1B	ENSG00000263850	ENST00000579699	processed_transcript	KNOWN	None	3614	None	None	121579685	121588399	1	None	CD64b
HG1292_PATCH	FCGR1B	ENSG00000263850	ENST00000580079	processed_transcript	KNOWN	None	3614	None	None	121587177	121588362	1	None	CD64b
HG1292_PATCH	FCGR1B	ENSG00000263850	ENST00000579011	processed_transcript	KNOWN	None	3614	None	None	121579630	121588206	1	None	CD64b
HG1292_PATCH	FCGR1B	ENSG00000263850	ENST00000582132	processed_transcript	KNOWN	None	3614	None	None	121579659	121587283	1	None	CD64b
HG1292_PATCH	None	ENSG00000265834	ENST00000581476	antisense	KNOWN	None	None	None	None	121579800	121608948	-1	None	None
HG1292_PATCH	None	ENSG00000265497	ENST00000579994	antisense	KNOWN	None	None	None	None	121582561	121589927	-1	None	None
HG1292_PATCH	HIST2H2BA	ENSG00000265540	ENST00000584933	processed_transcript	KNOWN	None	20560	None	None	121600482	121609529	-1	None	None
HG1292_PATCH	HIST2H2BA	ENSG00000265540	ENST00000578378	transcribed_unprocessed_pseudogene	KNOWN	None	20560	None	None	121609134	121609514	-1	None	None
HG1292_PATCH	None	ENSG00000266116	ENST00000579648	lincRNA	KNOWN	None	None	None	None	121610398	121639098	1	None	None
HG1292_PATCH	HIST2H3DP1	ENSG00000265723	ENST00000585117	unprocessed_pseudogene	KNOWN	None	43797	None	None	121610467	121610882	-1	None	p05
HG1292_PATCH	None	ENSG00000264335	ENST00000578445	processed_pseudogene	KNOWN	None	None	None	None	121634323	121634710	-1	None	None
HG1292_PATCH	FAM72B	ENSG00000264820	ENST00000583647	processed_transcript	KNOWN	None	24805	None	None	121676917	121677839	-1	None	RP11-439A17.6
HG1292_PATCH	FAM72B	ENSG00000264820	ENST00000579712	processed_transcript	KNOWN	None	24805	None	None	121660857	121677811	-1	None	RP11-439A17.6
HG1292_PATCH	FAM72B	ENSG00000264820	ENST00000583781	protein_coding	KNOWN	None	24805	450	149	121659918	121676590	-1	None	RP11-439A17.6
HG1292_PATCH	FAM72B	ENSG00000264820	ENST00000577822	processed_transcript	KNOWN	None	24805	None	None	121669568	121676588	-1	None	RP11-439A17.6
HG1292_PATCH	FAM72B	ENSG00000264820	ENST00000578606	protein_coding	KNOWN	None	24805	361	119	121661015	121676564	-1	None	RP11-439A17.6
HG1292_PATCH	FAM72B	ENSG00000264820	ENST00000582310	protein_coding	KNOWN	None	24805	330	109	121659992	121676183	-1	None	RP11-439A17.6
HG1292_PATCH	None	ENSG00000265389	ENST00000584434	antisense	KNOWN	None	None	None	None	121677252	121679785	1	None	None
HG1292_PATCH	None	ENSG00000266833	ENST00000578191	lincRNA	KNOWN	None	None	None	None	121852428	121890177	-1	None	None
HG1292_PATCH	None	ENSG00000266833	ENST00000579199	lincRNA	KNOWN	None	None	None	None	121889750	121891078	-1	None	None
HG1292_PATCH	SRGAP2C	ENSG00000266659	ENST00000579182	unprocessed_pseudogene	KNOWN	None	30584	None	None	121857535	121880360	1	SRGAP2P1	None
HG1292_PATCH	SRGAP2C	ENSG00000266659	ENST00000577205	unprocessed_pseudogene	KNOWN	None	30584	None	None	121857565	121880103	1	SRGAP2P1	None
HG1292_PATCH	None	ENSG00000270026	ENST00000602460	lincRNA	KNOWN	None	None	None	None	121883667	121884992	1	None	None
HG1292_PATCH	None	ENSG00000265792	ENST00000578463	lincRNA	KNOWN	None	None	None	None	121889026	121955401	1	None	None
HG1292_PATCH	None	ENSG00000266056	ENST00000577444	lincRNA	KNOWN	None	None	None	None	121904991	121921546	1	None	None
HG1292_PATCH	None	ENSG00000264214	ENST00000580399	lincRNA	KNOWN	None	None	None	None	121986651	122002769	-1	None	None
HG1292_PATCH	None	ENSG00000264938	ENST00000582460	processed_pseudogene	KNOWN	None	None	None	None	121994616	121996163	1	None	None
HG1292_PATCH	EMBP1	ENSG00000265305	ENST00000579229	unprocessed_pseudogene	KNOWN	None	38661	None	None	122011617	122061065	1	None	None
HG1292_PATCH	None	ENSG00000265952	ENST00000578821	lincRNA	KNOWN	None	None	None	None	122066218	122072796	-1	None	None
HG1287_PATCH	RNA5SP59	ENSG00000252830	ENST00000517021	rRNA	KNOWN	None	42836	None	None	144126020	144126129	1	RN5S59	None
HG1287_PATCH	DRD5P2	ENSG00000264145	ENST00000582255	processed_pseudogene	KNOWN	None	3028	None	None	144135691	144138791	-1	None	None
HG1287_PATCH	DRD5P2	ENSG00000264145	ENST00000580954	processed_pseudogene	KNOWN	None	3028	None	None	144136303	144137663	-1	None	None
HG1287_PATCH	DRD5P2	ENSG00000264145	ENST00000584652	processed_pseudogene	KNOWN	None	3028	None	None	144136493	144137064	-1	None	None
HG1287_PATCH	None	ENSG00000265030	ENST00000580568	lincRNA	KNOWN	None	None	None	None	144185602	144186927	-1	None	None
HG1287_PATCH	None	ENSG00000270758	ENST00000577983	miRNA	NOVEL	None	None	None	None	144228060	144228125	-1	None	None
HG1287_PATCH	None	ENSG00000263534	ENST00000580985	unprocessed_pseudogene	KNOWN	None	None	None	None	144228183	144259249	1	None	None
HG1287_PATCH	NBPF23	ENSG00000266797	ENST00000584595	unprocessed_pseudogene	KNOWN	None	37075	None	None	144281631	144322056	-1	None	None
HG1287_PATCH	NBPF23	ENSG00000266797	ENST00000582794	unprocessed_pseudogene	KNOWN	None	37075	None	None	144286292	144293051	-1	None	None
HG1287_PATCH	PFN1P12	ENSG00000265581	ENST00000582133	processed_pseudogene	KNOWN	None	42995	None	None	144306409	144306942	1	None	None
HG1287_PATCH	RNU1-114P	ENSG00000266322	ENST00000585211	snRNA	KNOWN	None	48456	None	None	144338465	144338630	-1	None	None
HG1287_PATCH	RNVU1-17	ENSG00000270860	ENST00000603281	snRNA	KNOWN	None	48322	None	None	144385871	144386034	-1	None	vU1.17, RNU1-127
HG1287_PATCH	RNU1-92P	ENSG00000265021	ENST00000584524	snRNA	KNOWN	None	48434	None	None	144406925	144407059	-1	None	None
HG1287_PATCH	RNVU1-18	ENSG00000271684	ENST00000603895	snRNA	KNOWN	None	37496	None	None	144415822	144415985	-1	RNU1P1, RNU1-5, RNU1-25, RNU1-25P	vU1.18, U1P101, U1P15, U1.15
HG1287_PATCH	None	ENSG00000265963	ENST00000577330	lincRNA	KNOWN	None	None	None	None	144422481	144424319	1	None	None
HG1287_PATCH	None	ENSG00000263446	ENST00000578336	lincRNA	KNOWN	None	None	None	None	144431295	144436946	1	None	None
HG1287_PATCH	None	ENSG00000263446	ENST00000580480	lincRNA	KNOWN	None	None	None	None	144431632	144447588	1	None	None
HG1287_PATCH	None	ENSG00000263446	ENST00000578417	lincRNA	KNOWN	None	None	None	None	144431632	144457279	1	None	None
HG1287_PATCH	None	ENSG00000263446	ENST00000579538	lincRNA	KNOWN	None	None	None	None	144431658	144442318	1	None	None
HG1287_PATCH	None	ENSG00000263446	ENST00000581123	lincRNA	KNOWN	None	None	None	None	144434059	144436980	1	None	None
HG1287_PATCH	None	ENSG00000263446	ENST00000578116	lincRNA	KNOWN	None	None	None	None	144436815	144437566	1	None	None
HG1287_PATCH	None	ENSG00000263446	ENST00000583338	lincRNA	KNOWN	None	None	None	None	144442306	144443092	1	None	None
HG1287_PATCH	None	ENSG00000265475	ENST00000582121	transcribed_processed_pseudogene	KNOWN	None	None	None	None	144452955	144455498	1	None	None
HG1287_PATCH	None	ENSG00000270979	ENST00000603828	processed_pseudogene	KNOWN	None	None	None	None	144470791	144471086	1	None	None
HG1287_PATCH	None	ENSG00000266480	ENST00000580463	lincRNA	KNOWN	None	None	None	None	144476425	144478755	1	None	None
HG1287_PATCH	RNU1-143P	ENSG00000263379	ENST00000583883	snRNA	KNOWN	None	48485	None	None	144477957	144478102	-1	None	None
HG1287_PATCH	None	ENSG00000263590	ENST00000578899	lincRNA	KNOWN	None	None	None	None	144479231	144483523	1	None	None
HG1287_PATCH	None	ENSG00000265884	ENST00000584189	lincRNA	KNOWN	None	None	None	None	144497774	144504943	-1	None	None
HG1287_PATCH	None	ENSG00000270626	ENST00000604563	miRNA	NOVEL	None	None	None	None	144515182	144515273	1	None	None
HG1287_PATCH	None	ENSG00000265066	ENST00000581749	processed_pseudogene	KNOWN	None	None	None	None	144532512	144532919	-1	None	None
HG1287_PATCH	None	ENSG00000265531	ENST00000579737	protein_coding	KNOWN	None	None	843	280	144561208	144569993	1	None	None
HG1287_PATCH	None	ENSG00000265531	ENST00000580679	protein_coding	NOVEL	None	None	567	188	144561208	144569993	1	None	None
HG1287_PATCH	None	ENSG00000264088	ENST00000582338	lincRNA	KNOWN	None	None	None	None	144564146	144571491	-1	None	None
HG1287_PATCH	HIST2H2BB	ENSG00000264363	ENST00000578435	unprocessed_pseudogene	KNOWN	None	20654	None	None	144590638	144591018	-1	None	None
HG1287_PATCH	None	ENSG00000264140	ENST00000583425	antisense	KNOWN	None	None	None	None	144591902	144621191	1	None	None
HG1287_PATCH	None	ENSG00000264140	ENST00000578458	antisense	KNOWN	None	None	None	None	144591902	144621423	1	None	None
HG1287_PATCH	HIST2H3PS2	ENSG00000265232	ENST00000583401	unprocessed_pseudogene	KNOWN	None	32060	None	None	144591970	144592381	-1	None	p06
HG1287_PATCH	None	ENSG00000266434	ENST00000578514	processed_pseudogene	KNOWN	None	None	None	None	144616409	144616797	-1	None	None
HG1287_PATCH	None	ENSG00000263513	ENST00000584486	protein_coding	KNOWN	None	None	450	149	144641706	144658404	-1	None	None
HG1287_PATCH	SRGAP2D	ENSG00000270872	ENST00000605551	protein_coding	KNOWN	None	43932	918	305	144661157	144754876	1	None	None
HG1287_PATCH	NKAIN1P1	ENSG00000263771	ENST00000583072	processed_pseudogene	KNOWN	None	38593	None	None	144999835	145000416	1	None	None
HG1287_PATCH	None	ENSG00000265897	ENST00000578059	processed_pseudogene	KNOWN	None	None	None	None	145010684	145011001	1	None	None
HG1287_PATCH	None	ENSG00000271567	ENST00000581164	protein_coding	NOVEL	None	None	495	164	145059290	145060074	-1	None	None
HG1287_PATCH	None	ENSG00000271112	ENST00000603977	processed_pseudogene	KNOWN	None	None	None	None	145087484	145087770	-1	None	None
HG1287_PATCH	RNVU1-15	ENSG00000265044	ENST00000579257	snRNA	KNOWN	None	48320	None	None	145098991	145099155	1	None	vU1.15, RNU1-66
HG1287_PATCH	None	ENSG00000263398	ENST00000585218	lincRNA	KNOWN	None	None	None	None	145104538	145105671	-1	None	None
HG1287_PATCH	None	ENSG00000266639	ENST00000580831	processed_pseudogene	KNOWN	None	None	None	None	145105093	145105605	1	None	None
HG1287_PATCH	NBPF15	ENSG00000266338	ENST00000584793	processed_transcript	KNOWN	None	28791	None	None	145110345	145148089	-1	None	MGC8902
HG1287_PATCH	NBPF15	ENSG00000266338	ENST00000584575	processed_transcript	KNOWN	None	28791	None	None	145135190	145148059	-1	None	MGC8902
HG1287_PATCH	NBPF15	ENSG00000266338	ENST00000579734	processed_transcript	KNOWN	None	28791	None	None	145126408	145147973	-1	None	MGC8902
HG1287_PATCH	NBPF15	ENSG00000266338	ENST00000577412	protein_coding	KNOWN	None	28791	2013	670	145107801	145143224	-1	None	MGC8902
HG1287_PATCH	NBPF15	ENSG00000266338	ENST00000578953	processed_transcript	KNOWN	None	28791	None	None	145135241	145143176	-1	None	MGC8902
HG1287_PATCH	NBPF15	ENSG00000266338	ENST00000581897	protein_coding	KNOWN	None	28791	2013	670	145107805	145143077	-1	None	MGC8902
HG1287_PATCH	PFN1P7	ENSG00000264033	ENST00000580855	processed_pseudogene	KNOWN	None	42993	None	None	145129021	145129419	1	None	None
HG1287_PATCH	None	ENSG00000264805	ENST00000581186	unprocessed_pseudogene	KNOWN	None	None	None	None	145158950	145161205	-1	None	None
HG1287_PATCH	None	ENSG00000270339	ENST00000584068	protein_coding	NOVEL	None	None	495	164	145279283	145280067	1	None	None
HG1287_PATCH	SRGAP2B	ENSG00000265797	ENST00000578863	processed_transcript	KNOWN	None	35237	None	None	145601107	145781943	-1	SRGAP2P2	None
HG1287_PATCH	SRGAP2B	ENSG00000265797	ENST00000580593	processed_transcript	KNOWN	None	35237	None	None	145779458	145781941	-1	SRGAP2P2	None
HG1287_PATCH	SRGAP2B	ENSG00000265797	ENST00000584293	processed_transcript	KNOWN	None	35237	None	None	145779468	145781380	-1	SRGAP2P2	None
HG1287_PATCH	SRGAP2B	ENSG00000265797	ENST00000578880	transcribed_unprocessed_pseudogene	KNOWN	None	35237	None	None	145601107	145779316	-1	SRGAP2P2	None
HG1287_PATCH	None	ENSG00000265886	ENST00000582378	lincRNA	KNOWN	None	None	None	None	145603585	145606317	1	None	None
HG1287_PATCH	None	ENSG00000270206	ENST00000605050	processed_pseudogene	KNOWN	None	None	None	None	145651440	145651550	1	None	None
HG1287_PATCH	FAM72D	ENSG00000264416	ENST00000581557	protein_coding	KNOWN	None	33593	450	149	145782415	145799107	1	None	None
HG1287_PATCH	None	ENSG00000270519	ENST00000604272	miRNA	NOVEL	None	None	None	None	145818577	145818668	1	None	None
HG1287_PATCH	None	ENSG00000272419	ENST00000606004	protein_coding	KNOWN	None	None	372	123	145852607	145856510	-1	None	None
HG1287_PATCH	None	ENSG00000264863	ENST00000577843	protein_coding	KNOWN	None	None	807	268	145901266	145902353	1	None	None
HG1287_PATCH	None	ENSG00000265937	ENST00000579101	processed_pseudogene	KNOWN	None	None	None	None	145919250	145919953	1	None	None
HG1287_PATCH	None	ENSG00000265937	ENST00000582321	processed_pseudogene	KNOWN	None	None	None	None	145919416	145919934	1	None	None
HG1287_PATCH	PPIAL4D	ENSG00000270913	ENST00000583898	protein_coding	KNOWN	None	33998	495	164	145927830	145928614	-1	None	None
HG1287_PATCH	None	ENSG00000270363	ENST00000604821	processed_pseudogene	KNOWN	None	None	None	None	145956019	145956305	-1	None	None
HG1287_PATCH	RNVU1-14	ENSG00000268065	ENST00000595178	snRNA	KNOWN	None	48319	None	None	145967531	145967694	1	None	vU1.14, RNU1-37
HG1287_PATCH	None	ENSG00000265318	ENST00000581413	lincRNA	KNOWN	None	None	None	None	145973025	145974170	-1	None	None
HG1287_PATCH	None	ENSG00000271254	ENST00000594479	protein_coding	KNOWN	None	None	2523	840	145976421	146277520	-1	None	None
HG1287_PATCH	PFN1P3	ENSG00000271372	ENST00000582904	processed_pseudogene	KNOWN	None	42987	None	None	146094187	146094588	1	None	None
HG1287_PATCH	RNU1-137P	ENSG00000270384	ENST00000580816	snRNA	KNOWN	None	48479	None	None	146117942	146118108	-1	None	None
HG1287_PATCH	RNVU1-7	ENSG00000270722	ENST00000605806	snRNA	KNOWN	None	37500	None	None	146152032	146152195	-1	RNU1-9, RNU1-9P	vU1.7
HG1287_PATCH	None	ENSG00000272150	ENST00000606775	protein_coding	NOVEL	None	None	1449	482	146260284	146274466	-1	None	None
HG1287_PATCH	None	ENSG00000264111	ENST00000579110	antisense	KNOWN	None	None	None	None	146288361	146294273	-1	None	None
HG1287_PATCH	GPR89A	ENSG00000264337	ENST00000582339	protein_coding	KNOWN	None	31984	1368	455	146294405	146357063	1	None	UNQ192
HG1287_PATCH	GPR89A	ENSG00000264337	ENST00000582906	retained_intron	KNOWN	None	31984	None	None	146332659	146356878	1	None	UNQ192
HG1287_PATCH	GPR89A	ENSG00000264337	ENST00000582382	nonsense_mediated_decay	KNOWN	None	31984	375	124	146294405	146356878	1	None	UNQ192
HG1287_PATCH	GPR89A	ENSG00000264337	ENST00000578644	retained_intron	KNOWN	None	31984	None	None	146330501	146356875	1	None	UNQ192
HG1287_PATCH	GPR89A	ENSG00000264337	ENST00000582624	protein_coding	KNOWN	None	31984	1008	335	146294375	146356875	1	None	UNQ192
HG1287_PATCH	GPR89A	ENSG00000264337	ENST00000583232	protein_coding	PUTATIVE	None	31984	1293	430	146294463	146356599	1	None	UNQ192
HG1287_PATCH	GPR89A	ENSG00000264337	ENST00000577475	protein_coding	PUTATIVE	None	31984	1293	430	146295028	146356593	1	None	UNQ192
HG1287_PATCH	GPR89A	ENSG00000264337	ENST00000578333	processed_transcript	KNOWN	None	31984	None	None	146317102	146349834	1	None	UNQ192
HG1287_PATCH	GPR89A	ENSG00000264337	ENST00000583471	nonsense_mediated_decay	KNOWN	None	31984	690	229	146294448	146333651	1	None	UNQ192
HG1287_PATCH	GPR89A	ENSG00000264337	ENST00000579785	nonsense_mediated_decay	KNOWN	None	31984	375	124	146294442	146333633	1	None	UNQ192
HG1287_PATCH	GPR89A	ENSG00000264337	ENST00000582562	retained_intron	KNOWN	None	31984	None	None	146317129	146332343	1	None	UNQ192
HG1287_PATCH	GPR89A	ENSG00000264337	ENST00000577740	processed_transcript	KNOWN	None	31984	None	None	146297881	146310129	1	None	UNQ192
HG1287_PATCH	GPR89A	ENSG00000264337	ENST00000580689	retained_intron	KNOWN	None	31984	None	None	146294434	146309639	1	None	UNQ192
HG1287_PATCH	GPR89A	ENSG00000264337	ENST00000585221	nonsense_mediated_decay	KNOWN	None	31984	168	55	146294463	146304766	1	None	UNQ192
HG1287_PATCH	PDZK1	ENSG00000265111	ENST00000582503	protein_coding	KNOWN	None	8821	793	263	146367327	146394563	-1	None	PDZD1, NHERF3
HG1287_PATCH	PDZK1	ENSG00000265111	ENST00000583035	protein_coding	KNOWN	None	8821	1560	519	146357407	146393757	-1	None	PDZD1, NHERF3
HG1287_PATCH	PDZK1	ENSG00000265111	ENST00000582332	protein_coding	KNOWN	None	8821	1227	408	146357681	146393756	-1	None	PDZD1, NHERF3
HG1287_PATCH	PDZK1	ENSG00000265111	ENST00000581121	protein_coding	KNOWN	None	8821	1560	519	146357400	146378217	-1	None	PDZD1, NHERF3
HG1287_PATCH	PDZK1	ENSG00000265111	ENST00000577304	processed_transcript	KNOWN	None	8821	None	None	146357401	146360171	-1	None	PDZD1, NHERF3
HG1287_PATCH	PDZK1	ENSG00000265111	ENST00000578685	processed_transcript	KNOWN	None	8821	None	None	146357402	146360125	-1	None	PDZD1, NHERF3
HG1287_PATCH	PDZK1	ENSG00000265111	ENST00000578751	processed_transcript	KNOWN	None	8821	None	None	146357400	146359263	-1	None	PDZD1, NHERF3
HG1287_PATCH	None	ENSG00000266249	ENST00000584442	protein_coding	KNOWN	None	None	546	181	146414640	146425703	1	None	None
HG1287_PATCH	None	ENSG00000265491	ENST00000582693	protein_coding	NOVEL	None	None	915	304	146432834	146510487	-1	None	None
HG1287_PATCH	POLR3C	ENSG00000264806	ENST00000584371	protein_coding	KNOWN	None	30076	1605	534	146510644	146528920	1	None	RPC62, RPC3
HG1287_PATCH	POLR3C	ENSG00000264806	ENST00000580452	protein_coding	KNOWN	None	30076	1236	411	146510591	146528908	1	None	RPC62, RPC3
HG1287_PATCH	POLR3C	ENSG00000264806	ENST00000577777	processed_transcript	KNOWN	None	30076	None	None	146522952	146526822	1	None	RPC62, RPC3
HG1287_PATCH	POLR3C	ENSG00000264806	ENST00000578637	processed_transcript	PUTATIVE	None	30076	None	None	146525930	146526406	1	None	RPC62, RPC3
HG1287_PATCH	POLR3C	ENSG00000264806	ENST00000579967	processed_transcript	KNOWN	None	30076	None	None	146510503	146523269	1	None	RPC62, RPC3
HG1287_PATCH	POLR3C	ENSG00000264806	ENST00000578703	processed_transcript	KNOWN	None	30076	None	None	146510798	146519771	1	None	RPC62, RPC3
HG1287_PATCH	NUDT17	ENSG00000266054	ENST00000581821	protein_coding	KNOWN	None	26618	987	328	146532044	146535368	1	None	FLJ34433
HG1287_PATCH	NUDT17	ENSG00000266054	ENST00000577362	protein_coding	PUTATIVE	None	26618	553	183	146532520	146534999	1	None	FLJ34433
HG1287_PATCH	NUDT17	ENSG00000266054	ENST00000582306	retained_intron	KNOWN	None	26618	None	None	146531022	146534982	1	None	FLJ34433
HG1287_PATCH	NUDT17	ENSG00000266054	ENST00000581771	retained_intron	KNOWN	None	26618	None	None	146532386	146534679	1	None	FLJ34433
HG1287_PATCH	NUDT17	ENSG00000266054	ENST00000584953	retained_intron	KNOWN	None	26618	None	None	146532048	146534676	1	None	FLJ34433
HG1287_PATCH	NUDT17	ENSG00000266054	ENST00000583415	retained_intron	KNOWN	None	26618	None	None	146532074	146534104	1	None	FLJ34433
HG1287_PATCH	PIAS3	ENSG00000263461	ENST00000578604	protein_coding	PUTATIVE	None	16861	777	258	146541161	146546251	-1	None	FLJ14651, ZMIZ5
HG1287_PATCH	PIAS3	ENSG00000263461	ENST00000581930	protein_coding	KNOWN	None	16861	873	290	146540821	146546194	-1	None	FLJ14651, ZMIZ5
HG1287_PATCH	PIAS3	ENSG00000263461	ENST00000581674	protein_coding	PUTATIVE	None	16861	276	91	146543176	146546160	-1	None	FLJ14651, ZMIZ5
HG1287_PATCH	PIAS3	ENSG00000263461	ENST00000584381	protein_coding	KNOWN	None	16861	1887	628	146534937	146545495	-1	None	FLJ14651, ZMIZ5
HG1287_PATCH	PIAS3	ENSG00000263461	ENST00000577480	protein_coding	NOVEL	None	16861	1782	593	146534937	146545460	-1	None	FLJ14651, ZMIZ5
HG1287_PATCH	PIAS3	ENSG00000263461	ENST00000578203	retained_intron	KNOWN	None	16861	None	None	146542195	146545450	-1	None	FLJ14651, ZMIZ5
HG1287_PATCH	PIAS3	ENSG00000263461	ENST00000583468	retained_intron	KNOWN	None	16861	None	None	146541025	146543161	-1	None	FLJ14651, ZMIZ5
HG1287_PATCH	PIAS3	ENSG00000263461	ENST00000579555	retained_intron	KNOWN	None	16861	None	None	146534937	146541079	-1	None	FLJ14651, ZMIZ5
HG1287_PATCH	PIAS3	ENSG00000263461	ENST00000580196	retained_intron	KNOWN	None	16861	None	None	146534937	146537769	-1	None	FLJ14651, ZMIZ5
HG1287_PATCH	ANKRD35	ENSG00000263773	ENST00000582418	protein_coding	KNOWN	None	26323	3006	1001	146552975	146572260	-1	None	FLJ25124
HG1287_PATCH	ANKRD35	ENSG00000263773	ENST00000585106	protein_coding	KNOWN	None	26323	414	137	146560330	146572246	-1	None	FLJ25124
HG1287_PATCH	ITGA10	ENSG00000264162	ENST00000583017	protein_coding	KNOWN	None	6135	3504	1167	146577623	146596604	-1	None	None
HG1287_PATCH	ITGA10	ENSG00000264162	ENST00000581283	retained_intron	KNOWN	None	6135	None	None	146592173	146596526	-1	None	None
HG1287_PATCH	ITGA10	ENSG00000264162	ENST00000580116	protein_coding	KNOWN	None	6135	3075	1024	146578958	146596479	-1	None	None
HG1287_PATCH	ITGA10	ENSG00000264162	ENST00000584001	protein_coding	KNOWN	None	6135	3111	1036	146578952	146596460	-1	None	None
HG1287_PATCH	ITGA10	ENSG00000264162	ENST00000585276	processed_transcript	KNOWN	None	6135	None	None	146588869	146590541	-1	None	None
HG1287_PATCH	None	ENSG00000266474	ENST00000584369	antisense	KNOWN	None	None	None	None	146579262	146579898	1	None	None
HG1287_PATCH	PEX11B	ENSG00000265832	ENST00000581144	protein_coding	KNOWN	None	8853	780	259	146597765	146605252	-1	None	None
HG1287_PATCH	PEX11B	ENSG00000265832	ENST00000579989	protein_coding	KNOWN	None	8853	738	245	146597766	146604944	-1	None	None
HG1287_PATCH	PEX11B	ENSG00000265832	ENST00000583274	protein_coding	KNOWN	None	8853	246	81	146597765	146598821	-1	None	None
HG1287_PATCH	RBM8A	ENSG00000265241	ENST00000582443	retained_intron	KNOWN	None	9905	None	None	146612897	146613910	-1	RBM8	ZNRP, BOV-1A, BOV-1B, BOV-1C, RBM8B, Y14
HG1287_PATCH	RBM8A	ENSG00000265241	ENST00000579626	retained_intron	KNOWN	None	9905	None	None	146612561	146613910	-1	RBM8	ZNRP, BOV-1A, BOV-1B, BOV-1C, RBM8B, Y14
HG1287_PATCH	RBM8A	ENSG00000265241	ENST00000583313	protein_coding	KNOWN	None	9905	525	174	146610064	146613910	-1	RBM8	ZNRP, BOV-1A, BOV-1B, BOV-1C, RBM8B, Y14
HG1287_PATCH	RBM8A	ENSG00000265241	ENST00000578414	protein_coding	KNOWN	None	9905	522	173	146612057	146613875	-1	RBM8	ZNRP, BOV-1A, BOV-1B, BOV-1C, RBM8B, Y14
HG1287_PATCH	None	ENSG00000264665	ENST00000600413	antisense	KNOWN	None	None	None	None	146613651	146645521	1	None	None
HG1287_PATCH	None	ENSG00000264665	ENST00000593882	antisense	KNOWN	None	None	None	None	146613651	146636750	1	None	None
HG1287_PATCH	None	ENSG00000264665	ENST00000597679	antisense	KNOWN	None	None	None	None	146613651	146635467	1	None	None
HG1287_PATCH	None	ENSG00000264665	ENST00000593747	antisense	KNOWN	None	None	None	None	146613651	146635458	1	None	None
HG1287_PATCH	None	ENSG00000264665	ENST00000599304	antisense	KNOWN	None	None	None	None	146613651	146635238	1	None	None
HG1287_PATCH	None	ENSG00000264665	ENST00000583701	antisense	KNOWN	None	None	None	None	146627543	146635229	1	None	None
HG1287_PATCH	None	ENSG00000264665	ENST00000597435	antisense	KNOWN	None	None	None	None	146613651	146631041	1	None	None
HG1287_PATCH	None	ENSG00000264665	ENST00000577808	antisense	KNOWN	None	None	None	None	146627611	146628664	1	None	None
HG1287_PATCH	None	ENSG00000264665	ENST00000594324	antisense	KNOWN	None	None	None	None	146613651	146628496	1	None	None
HG1287_PATCH	None	ENSG00000264665	ENST00000578540	antisense	KNOWN	None	None	None	None	146614018	146627621	1	None	None
HG1287_PATCH	None	ENSG00000264665	ENST00000583806	antisense	KNOWN	None	None	None	None	146613897	146627621	1	None	None
HG1287_PATCH	None	ENSG00000264665	ENST00000600414	antisense	KNOWN	None	None	None	None	146613651	146627621	1	None	None
HG1287_PATCH	None	ENSG00000264665	ENST00000597861	antisense	KNOWN	None	None	None	None	146613651	146627621	1	None	None
HG1287_PATCH	None	ENSG00000264665	ENST00000580819	antisense	KNOWN	None	None	None	None	146613520	146627621	1	None	None
HG1287_PATCH	None	ENSG00000264665	ENST00000577217	antisense	KNOWN	None	None	None	None	146613290	146627618	1	None	None
HG1287_PATCH	None	ENSG00000264665	ENST00000595611	antisense	KNOWN	None	None	None	None	146613651	146627609	1	None	None
HG1287_PATCH	None	ENSG00000264665	ENST00000584961	antisense	KNOWN	None	None	None	None	146613189	146614151	1	None	None
HG1287_PATCH	None	ENSG00000264665	ENST00000597964	antisense	KNOWN	None	None	None	None	146613005	146613908	1	None	None
HG1287_PATCH	None	ENSG00000271601	ENST00000604000	protein_coding	KNOWN	None	None	852	283	146619839	146644434	-1	None	None
HG1287_PATCH	None	ENSG00000272031	ENST00000606888	protein_coding	NOVEL	None	None	1491	496	146645856	146650997	-1	None	None
HG1287_PATCH	None	ENSG00000266741	ENST00000583194	protein_coding	KNOWN	None	None	657	218	146651118	146665263	1	None	None
HG1287_PATCH	None	ENSG00000265972	ENST00000582401	protein_coding	KNOWN	None	None	1176	391	146678960	146682902	-1	None	None
HG1287_PATCH	HFE2	ENSG00000265970	ENST00000580823	protein_coding	KNOWN	None	4887	942	313	146703885	146708333	-1	None	JH, HFE2A, RGMC, HJV, hemojuvelin, haemojuvelin
HG1287_PATCH	HFE2	ENSG00000265970	ENST00000583557	protein_coding	KNOWN	None	4887	280	92	146705967	146708150	-1	None	JH, HFE2A, RGMC, HJV, hemojuvelin, haemojuvelin
HG1287_PATCH	HFE2	ENSG00000265970	ENST00000579423	protein_coding	KNOWN	None	4887	1281	426	146703883	146708150	-1	None	JH, HFE2A, RGMC, HJV, hemojuvelin, haemojuvelin
HG1287_PATCH	HFE2	ENSG00000265970	ENST00000580693	protein_coding	KNOWN	None	4887	603	200	146703883	146708150	-1	None	JH, HFE2A, RGMC, HJV, hemojuvelin, haemojuvelin
HG1287_PATCH	HFE2	ENSG00000265970	ENST00000577520	protein_coding	KNOWN	None	4887	603	200	146703883	146708149	-1	None	JH, HFE2A, RGMC, HJV, hemojuvelin, haemojuvelin
HG1287_PATCH	RNVU1-6	ENSG00000270840	ENST00000605036	snRNA	KNOWN	None	48314	None	None	146738496	146738659	-1	None	vU1.6, RNU1-99
HG1287_PATCH	None	ENSG00000264851	ENST00000582756	antisense	KNOWN	None	None	None	None	146745748	146748363	1	None	None
HG1287_PATCH	None	ENSG00000271425	ENST00000583866	protein_coding	NOVEL	None	None	10881	3626	146752733	146831219	-1	None	None
HG1287_PATCH	None	ENSG00000264343	ENST00000578207	protein_coding	NOVEL	None	None	711	236	146838681	146915449	-1	None	None
HG1287_PATCH	RNU6-1071P	ENSG00000266790	ENST00000468298	snRNA	KNOWN	None	48034	None	None	146975011	146975111	1	None	None
HG1287_PATCH	None	ENSG00000271121	ENST00000578341	protein_coding	NOVEL	None	None	546	181	146984419	146985587	1	None	None
HG1287_PATCH	None	ENSG00000271001	ENST00000577856	protein_coding	NOVEL	None	None	495	164	147030421	147031205	-1	None	None
HG1287_PATCH	None	ENSG00000272427	ENST00000607817	protein_coding	NOVEL	None	None	1230	409	147429220	147460378	1	None	None
HG1287_PATCH	HYDIN2	ENSG00000265348	ENST00000581630	transcribed_unprocessed_pseudogene	KNOWN	None	33129	None	None	147561736	147585389	1	HYDINP1	None
HG1287_PATCH	HYDIN2	ENSG00000265348	ENST00000582785	processed_transcript	KNOWN	None	33129	None	None	147585240	147586621	1	HYDINP1	None
HG1287_PATCH	HYDIN2	ENSG00000265348	ENST00000583317	processed_transcript	KNOWN	None	33129	None	None	147585357	147600709	1	HYDINP1	None
HG1287_PATCH	PFN1P8	ENSG00000268094	ENST00000600701	processed_pseudogene	KNOWN	None	42986	None	None	147643532	147644074	-1	None	None
HG1287_PATCH	None	ENSG00000268043	ENST00000579935	protein_coding	KNOWN	None	None	3336	1111	147646386	147682613	1	None	None
HG1287_PATCH	None	ENSG00000263387	ENST00000580159	lincRNA	KNOWN	None	None	None	None	147688346	147690033	-1	None	None
HG1287_PATCH	None	ENSG00000263387	ENST00000584562	lincRNA	KNOWN	None	None	None	None	147688697	147689599	-1	None	None
HG1287_PATCH	NBPF13P	ENSG00000264639	ENST00000578219	unprocessed_pseudogene	KNOWN	None	31995	None	None	147705751	147729454	-1	None	None
HG1287_PATCH	NBPF13P	ENSG00000264639	ENST00000583851	unprocessed_pseudogene	KNOWN	None	31995	None	None	147707735	147810940	-1	None	None
HG1287_PATCH	None	ENSG00000266845	ENST00000577792	processed_pseudogene	KNOWN	None	None	None	None	147737232	147738896	1	None	None
HG1287_PATCH	RNVU1-8	ENSG00000263451	ENST00000577892	snRNA	KNOWN	None	48315	None	None	147766161	147766285	1	None	vU1.8, RNU1-145
HG1287_PATCH	None	ENSG00000263915	ENST00000583853	processed_pseudogene	KNOWN	None	None	None	None	147768753	147769993	-1	None	None
HG1287_PATCH	PRKAB2	ENSG00000266198	ENST00000584647	protein_coding	KNOWN	None	9379	819	272	147841521	147858959	-1	None	None
HG1287_PATCH	PRKAB2	ENSG00000266198	ENST00000584465	processed_transcript	KNOWN	None	9379	None	None	147845634	147848925	-1	None	None
HG1287_PATCH	PRKAB2	ENSG00000266198	ENST00000577930	protein_coding	KNOWN	None	9379	573	190	147845905	147858882	-1	None	None
HG1287_PATCH	PRKAB2	ENSG00000266198	ENST00000577979	processed_transcript	KNOWN	None	9379	None	None	147848927	147858965	-1	None	None
HG1287_PATCH	None	ENSG00000265360	ENST00000584228	lincRNA	KNOWN	None	None	None	None	147859186	147861620	1	None	None
HG1287_PATCH	None	ENSG00000265360	ENST00000607120	processed_transcript	KNOWN	None	None	None	None	147859601	147939074	1	None	None
HG1287_PATCH	None	ENSG00000265360	ENST00000606781	lincRNA	KNOWN	None	None	None	None	147859787	147897983	1	None	None
HG1287_PATCH	None	ENSG00000265360	ENST00000606718	lincRNA	KNOWN	None	None	None	None	147859800	147896490	1	None	None
HG1287_PATCH	None	ENSG00000272535	ENST00000607337	antisense	KNOWN	None	None	None	None	147862017	147864155	1	None	None
HG1287_PATCH	PDIA3P	ENSG00000265196	ENST00000579709	processed_pseudogene	KNOWN	None	4607	None	None	147864528	147866037	1	None	GRP58P
HG1287_PATCH	PDIA3P	ENSG00000265196	ENST00000579653	pseudogene	NOVEL	None	4607	None	None	147865207	147866042	1	None	GRP58P
HG1287_PATCH	None	ENSG00000266748	ENST00000578284	protein_coding	KNOWN	None	None	1602	533	147872674	147912053	-1	None	None
HG1287_PATCH	CCT8P1	ENSG00000263665	ENST00000581270	processed_pseudogene	KNOWN	None	35144	None	None	147889691	147891347	-1	None	None
HG1287_PATCH	None	ENSG00000264117	ENST00000578140	processed_pseudogene	KNOWN	None	None	None	None	147909969	147910763	1	None	None
HG1287_PATCH	CHD1L	ENSG00000264980	ENST00000579109	protein_coding	KNOWN	None	1916	2412	803	147929056	147982175	1	None	ALC1
HG1287_PATCH	CHD1L	ENSG00000264980	ENST00000579763	protein_coding	KNOWN	None	1916	2082	693	147929056	147982175	1	None	ALC1
HG1287_PATCH	CHD1L	ENSG00000264980	ENST00000582670	processed_transcript	KNOWN	None	1916	None	None	147929099	147962672	1	None	ALC1
HG1287_PATCH	CHD1L	ENSG00000264980	ENST00000583055	protein_coding	KNOWN	None	1916	2694	897	147929099	147982177	1	None	ALC1
HG1287_PATCH	CHD1L	ENSG00000264980	ENST00000581543	processed_transcript	KNOWN	None	1916	None	None	147929099	147982177	1	None	ALC1
HG1287_PATCH	CHD1L	ENSG00000264980	ENST00000582612	protein_coding	KNOWN	None	1916	1851	616	147929121	147982175	1	None	ALC1
HG1287_PATCH	CHD1L	ENSG00000264980	ENST00000580988	processed_transcript	KNOWN	None	1916	None	None	147929161	147946461	1	None	ALC1
HG1287_PATCH	CHD1L	ENSG00000264980	ENST00000584338	processed_transcript	KNOWN	None	1916	None	None	147957319	147961824	1	None	ALC1
HG1287_PATCH	CHD1L	ENSG00000264980	ENST00000579740	processed_transcript	KNOWN	None	1916	None	None	147958584	147962662	1	None	ALC1
HG1287_PATCH	None	ENSG00000272252	ENST00000607552	protein_coding	NOVEL	None	None	426	141	147950795	147971812	-1	None	None
HG1287_PATCH	None	ENSG00000264481	ENST00000584161	processed_pseudogene	KNOWN	None	None	None	None	148005525	148006639	1	None	None
HG1287_PATCH	OR13Z1P	ENSG00000264154	ENST00000581791	unitary_pseudogene	KNOWN	None	31240	None	None	148105465	148106298	1	None	None
HG1287_PATCH	None	ENSG00000265914	ENST00000464169	misc_RNA	NOVEL	None	None	None	None	148106614	148106715	-1	None	None
HG1287_PATCH	OR13Z2P	ENSG00000271719	ENST00000607843	unprocessed_pseudogene	KNOWN	None	31241	None	None	148131994	148132548	1	None	None
HG1287_PATCH	OR13Z3P	ENSG00000271928	ENST00000606423	unprocessed_pseudogene	KNOWN	None	31242	None	None	148168653	148169043	1	None	None
HG1287_PATCH	BCL9	ENSG00000266095	ENST00000585295	protein_coding	KNOWN	None	1008	4281	1426	148227827	148312631	1	None	None
HG1287_PATCH	BCL9	ENSG00000266095	ENST00000584495	processed_transcript	KNOWN	None	1008	None	None	148286611	148298108	1	None	None
HG1287_PATCH	BCL9	ENSG00000266095	ENST00000583396	processed_transcript	KNOWN	None	1008	None	None	148298028	148302317	1	None	None
HG1287_PATCH	ACP6	ENSG00000265277	ENST00000577715	processed_transcript	KNOWN	None	29609	None	None	148333783	148337097	-1	None	LPAP, ACPL1
HG1287_PATCH	ACP6	ENSG00000265277	ENST00000583509	protein_coding	KNOWN	None	29609	1287	428	148333785	148356911	-1	None	LPAP, ACPL1
HG1287_PATCH	ACP6	ENSG00000265277	ENST00000583177	processed_transcript	KNOWN	None	29609	None	None	148336232	148340689	-1	None	LPAP, ACPL1
HG1287_PATCH	ACP6	ENSG00000265277	ENST00000580532	protein_coding	KNOWN	None	29609	816	271	148339027	148356657	-1	None	LPAP, ACPL1
HG1287_PATCH	ACP6	ENSG00000265277	ENST00000585143	processed_transcript	KNOWN	None	29609	None	None	148345376	148356867	-1	None	LPAP, ACPL1
HG1287_PATCH	None	ENSG00000266723	ENST00000579968	lincRNA	KNOWN	None	None	None	None	148384209	148385750	1	None	None
HG1287_PATCH	None	ENSG00000265107	ENST00000579774	protein_coding	NOVEL	None	None	1077	358	148443603	148445686	-1	None	None
HG1287_PATCH	None	ENSG00000263549	ENST00000577183	lincRNA	KNOWN	None	None	None	None	148464005	148475368	1	None	None
HG1287_PATCH	None	ENSG00000264011	ENST00000577283	processed_pseudogene	KNOWN	None	None	None	None	148527377	148528774	1	None	None
HG1287_PATCH	GJA8	ENSG00000264499	ENST00000578156	protein_coding	KNOWN	None	4281	1302	433	148589235	148595681	1	CAE1, CZP1, CAE	CX50
HG1287_PATCH	GJA8	ENSG00000264499	ENST00000583918	protein_coding	KNOWN	None	4281	1302	433	148594371	148595672	1	CAE1, CZP1, CAE	CX50
HG1287_PATCH	GPR89B	ENSG00000264776	ENST00000580001	protein_coding	KNOWN	None	13840	1368	455	148614808	148679754	1	GPR89	SH120
HG1287_PATCH	GPR89B	ENSG00000264776	ENST00000582510	processed_transcript	KNOWN	None	13840	None	None	148614808	148679754	1	GPR89	SH120
HG1287_PATCH	GPR89B	ENSG00000264776	ENST00000579326	processed_transcript	KNOWN	None	13840	None	None	148614808	148679936	1	GPR89	SH120
HG1287_PATCH	GPR89B	ENSG00000264776	ENST00000584429	protein_coding	PUTATIVE	None	13840	649	215	148614851	148653060	1	GPR89	SH120
HG1287_PATCH	GPR89B	ENSG00000264776	ENST00000584263	processed_transcript	KNOWN	None	13840	None	None	148639759	148672688	1	GPR89	SH120
HG1287_PATCH	GPR89B	ENSG00000264776	ENST00000579757	processed_transcript	KNOWN	None	13840	None	None	148639852	148672704	1	GPR89	SH120
HG1287_PATCH	GPR89B	ENSG00000264776	ENST00000580585	processed_transcript	KNOWN	None	13840	None	None	148653186	148679754	1	GPR89	SH120
HG1287_PATCH	GPR89B	ENSG00000264776	ENST00000579615	processed_transcript	KNOWN	None	13840	None	None	148655350	148679754	1	GPR89	SH120
HG1287_PATCH	None	ENSG00000266084	ENST00000580192	lincRNA	KNOWN	None	None	None	None	148680277	148698514	-1	None	None
HG1287_PATCH	PDZK1P2	ENSG00000265609	ENST00000580144	unprocessed_pseudogene	KNOWN	None	31975	None	None	148680716	148696007	-1	None	OTTHUMG00000074107
HG1287_PATCH	RNU1-129P	ENSG00000270582	ENST00000584730	snRNA	KNOWN	None	48471	None	None	148700832	148700998	-1	None	None
HG1287_PATCH	RNVU1-9	ENSG00000271345	ENST00000603039	snRNA	KNOWN	None	37499	None	None	148725168	148725331	-1	RNU1-6P, RNU1-26P	vU1.9
HG1287_PATCH	None	ENSG00000263956	ENST00000580077	protein_coding	KNOWN	None	None	2760	919	148788461	148838605	-1	None	None
HG1287_PATCH	PFN1P4	ENSG00000270738	ENST00000584062	processed_pseudogene	KNOWN	None	42992	None	None	148815912	148816313	1	None	None
HG1287_PATCH	ABHD17AP1	ENSG00000263366	ENST00000580133	unprocessed_pseudogene	KNOWN	None	28394	None	None	148832809	148835981	1	FAM108A2	C1orf47
HG1287_PATCH	None	ENSG00000267846	ENST00000593392	protein_coding	KNOWN	None	None	462	153	148846103	148846564	-1	None	None
HG1287_PATCH	RNA5SP58	ENSG00000243644	ENST00000474608	rRNA	KNOWN	None	42835	None	None	148880131	148880253	1	RN5S58	None
HG1287_PATCH	None	ENSG00000265449	ENST00000578261	unprocessed_pseudogene	KNOWN	None	None	None	None	148920716	148920750	1	None	None
HG1287_PATCH	None	ENSG00000266681	ENST00000581465	processed_pseudogene	KNOWN	None	None	None	None	148932584	148933100	1	None	None
HG1287_PATCH	RNU1-120P	ENSG00000265297	ENST00000577805	snRNA	KNOWN	None	48462	None	None	148949891	148950047	1	None	None
HG1287_PATCH	None	ENSG00000265468	ENST00000579306	lincRNA	KNOWN	None	None	None	None	148958299	148967164	-1	None	None
HG1287_PATCH	None	ENSG00000263469	ENST00000578732	unprocessed_pseudogene	KNOWN	None	None	None	None	148974416	148975366	-1	None	None
HG1287_PATCH	None	ENSG00000264360	ENST00000578768	lincRNA	KNOWN	None	None	None	None	148977305	148982274	-1	None	None
HG1287_PATCH	None	ENSG00000264430	ENST00000577657	lincRNA	KNOWN	None	None	None	None	148981595	148983971	1	None	None
HG1287_PATCH	None	ENSG00000265925	ENST00000578100	lincRNA	KNOWN	None	None	None	None	148982207	148983686	-1	None	None
HG1287_PATCH	None	ENSG00000266842	ENST00000579087	processed_pseudogene	KNOWN	None	None	None	None	149004098	149004428	-1	None	None
HG1287_PATCH	None	ENSG00000265765	ENST00000581875	lincRNA	KNOWN	None	None	None	None	149015414	149031051	1	None	None
HG1287_PATCH	None	ENSG00000266011	ENST00000583341	misc_RNA	NOVEL	None	None	None	None	149016686	149016809	1	None	None
HG1287_PATCH	RNU1-122P	ENSG00000266686	ENST00000584738	snRNA	KNOWN	None	48464	None	None	149021027	149021177	-1	None	None
HG1287_PATCH	RNVU1-10	ENSG00000270834	ENST00000603951	snRNA	KNOWN	None	48316	None	None	149048785	149048948	-1	None	vU1.10, RNU1-53
HG1287_PATCH	RNU1-135P	ENSG00000263844	ENST00000578484	snRNA	KNOWN	None	48477	None	None	149072244	149072378	-1	None	None
HG1287_PATCH	RNVU1-11	ENSG00000263374	ENST00000579215	snRNA	KNOWN	None	10134	None	None	149074905	149075066	-1	RNU1P2, RNU1-12P	vU1.11, U1P2A
HG1287_PATCH	RNVU1-12	ENSG00000264252	ENST00000580951	snRNA	KNOWN	None	48317	None	None	149089130	149089290	1	None	vU1.12, RNU1-151
HG1287_PATCH	None	ENSG00000266773	ENST00000583913	lincRNA	KNOWN	None	None	None	None	149101612	149115393	1	None	None
HG1287_PATCH	None	ENSG00000266773	ENST00000584786	lincRNA	KNOWN	None	None	None	None	149101612	149115776	1	None	None
HG1287_PATCH	None	ENSG00000265464	ENST00000577993	processed_pseudogene	KNOWN	None	None	None	None	149121520	149123341	1	None	None
HG1287_PATCH	None	ENSG00000263962	ENST00000578332	protein_coding	NOVEL	None	None	807	268	149145229	149146286	1	None	None
HG1287_PATCH	None	ENSG00000263464	ENST00000585245	protein_coding	NOVEL	None	None	495	164	149169083	149169742	-1	None	None
HG1287_PATCH	None	ENSG00000270629	ENST00000581201	protein_coding	NOVEL	None	None	2829	942	149219394	149282305	-1	None	None
HG1287_PATCH	None	ENSG00000268576	ENST00000593495	protein_coding	NOVEL	None	None	750	249	149293453	149366166	-1	None	None
HG1287_PATCH	None	ENSG00000268576	ENST00000606877	protein_coding	NOVEL	None	None	810	269	149283884	149366178	-1	None	None
HG1287_PATCH	None	ENSG00000270650	ENST00000583815	protein_coding	NOVEL	None	None	546	181	149435202	149436370	1	None	None
HG1287_PATCH	None	ENSG00000270746	ENST00000605065	processed_pseudogene	KNOWN	None	None	None	None	149482212	149482740	1	None	None
HG1287_PATCH	RN7SKP88	ENSG00000265862	ENST00000580635	misc_RNA	KNOWN	None	45812	None	None	149525898	149526147	-1	None	None
HG1287_PATCH	None	ENSG00000264708	ENST00000585156	protein_coding	KNOWN	None	None	7041	2346	149575878	149719430	1	None	None
HG1287_PATCH	None	ENSG00000264992	ENST00000579086	protein_coding	KNOWN	None	None	381	126	149579542	149581598	-1	None	None
HG1287_PATCH	RNU2-38P	ENSG00000242576	ENST00000489182	snRNA	KNOWN	None	48531	None	None	149626154	149626232	-1	None	None
HG1287_PATCH	None	ENSG00000264601	ENST00000583504	antisense	KNOWN	None	None	None	None	149692724	149695942	-1	None	None
HG1287_PATCH	None	ENSG00000271636	ENST00000583298	miRNA	NOVEL	None	None	None	None	149693492	149693557	-1	None	None
HG1287_PATCH	None	ENSG00000266874	ENST00000578041	antisense	KNOWN	None	None	None	None	149705086	149712684	-1	None	None
HG1287_PATCH	None	ENSG00000264532	ENST00000578784	antisense	KNOWN	None	None	None	None	149734991	149737688	1	None	None
HG1287_PATCH	None	ENSG00000269713	ENST00000584027	protein_coding	KNOWN	None	None	3336	1111	149740448	149768726	-1	None	None
HG1287_PATCH	None	ENSG00000266350	ENST00000579144	unprocessed_pseudogene	KNOWN	None	None	None	None	149884411	149887505	-1	None	None
HG1287_PATCH	None	ENSG00000264983	ENST00000578189	protein_coding	KNOWN	None	None	711	236	150092791	150154445	1	None	None
HG1287_PATCH	None	ENSG00000271383	ENST00000369227	protein_coding	NOVEL	None	None	2523	840	150162303	150242670	1	None	None
HG1287_PATCH	None	ENSG00000270537	ENST00000583101	protein_coding	NOVEL	None	None	495	164	150270238	150271022	1	None	None
HG1287_PATCH	RNVU1-5	ENSG00000270483	ENST00000581810	snRNA	KNOWN	None	48313	None	None	150323181	150323344	1	None	vU1.5, RNU1-50
HG1287_PATCH	None	ENSG00000272058	ENST00000607157	protein_coding	KNOWN	None	None	510	169	150388743	150392131	1	None	None
HG1287_PATCH	None	ENSG00000270867	ENST00000580829	miRNA	NOVEL	None	None	None	None	150423724	150423815	-1	None	None
HG1287_PATCH	None	ENSG00000266394	ENST00000584267	processed_pseudogene	KNOWN	None	None	None	None	150440716	150441125	-1	None	None
HG1287_PATCH	FCGR1A	ENSG00000266332	ENST00000582600	protein_coding	KNOWN	None	3613	722	239	150469086	150477805	1	None	CD64, CD64A
HG1287_PATCH	FCGR1A	ENSG00000266332	ENST00000580698	protein_coding	KNOWN	None	3613	1125	374	150469105	150478933	1	None	CD64, CD64A
HG1287_PATCH	FCGR1A	ENSG00000266332	ENST00000584101	processed_transcript	KNOWN	None	3613	None	None	150469143	150470366	1	None	CD64, CD64A
HG1287_PATCH	FCGR1A	ENSG00000266332	ENST00000581606	processed_transcript	KNOWN	None	3613	None	None	150476783	150478090	1	None	CD64, CD64A
HG1287_PATCH	HIST2H2BF	ENSG00000263376	ENST00000578867	protein_coding	KNOWN	None	24700	405	134	150469104	150498788	-1	None	None
HG1287_PATCH	HIST2H2BF	ENSG00000263376	ENST00000584281	protein_coding	KNOWN	None	24700	501	166	150479880	150498785	-1	None	None
HG1287_PATCH	HIST2H2BF	ENSG00000263376	ENST00000583288	processed_transcript	KNOWN	None	24700	None	None	150490017	150498753	-1	None	None
HG1287_PATCH	HIST2H2BF	ENSG00000263376	ENST00000583773	protein_coding	KNOWN	None	24700	381	126	150498143	150498774	-1	None	None
HG1287_PATCH	None	ENSG00000265922	ENST00000584477	antisense	KNOWN	None	None	None	None	150469292	150498172	-1	None	None
HG1287_PATCH	None	ENSG00000266386	ENST00000581365	antisense	KNOWN	None	None	None	None	150472074	150479435	-1	None	None
HG1287_PATCH	HIST2H3D	ENSG00000265133	ENST00000578851	protein_coding	KNOWN	None	25311	411	136	150499686	150500096	-1	None	None
HG1287_PATCH	None	ENSG00000270882	ENST00000578186	protein_coding	KNOWN	None	None	312	103	150519072	150519467	1	None	None
HG1287_PATCH	HIST2H3C	ENSG00000270827	ENST00000585113	protein_coding	KNOWN	None	20503	411	136	150525953	150527608	-1	H3F2, H3FM	MGC9629, H3/m, H3, H3.2, H3/M
HG1287_PATCH	None	ENSG00000272196	ENST00000607355	protein_coding	NOVEL	None	None	393	130	150528636	150529113	-1	None	None
HG1287_PATCH	HIST2H2BD	ENSG00000269861	ENST00000578308	processed_pseudogene	KNOWN	None	20517	None	None	150529456	150529948	1	H2BFO	H2B/s, H2B/o
HG1287_PATCH	None	ENSG00000263736	ENST00000580815	sense_overlapping	KNOWN	None	None	None	None	150530913	150535439	-1	None	None
HG1287_PATCH	HIST2H2BC	ENSG00000269488	ENST00000584231	processed_pseudogene	KNOWN	None	20516	None	None	150536608	150537187	-1	None	H2B/t
HG1287_PATCH	HIST2H2AA4	ENSG00000266225	ENST00000580456	protein_coding	KNOWN	None	29668	393	130	150537491	150538039	1	None	H2A/r
HG1287_PATCH	HIST2H3A	ENSG00000270263	ENST00000580481	protein_coding	KNOWN	None	20505	411	136	150539034	150540689	1	None	H3/n, H3/o
HG1287_PATCH	None	ENSG00000270276	ENST00000579512	protein_coding	KNOWN	None	None	312	103	150547179	150547574	-1	None	None
HG1287_PATCH	None	ENSG00000266131	ENST00000578608	antisense	KNOWN	None	None	None	None	150547686	150548919	1	None	None
HG1287_PATCH	HIST2H2BE	ENSG00000264719	ENST00000583061	protein_coding	KNOWN	None	4760	381	126	150570875	150573097	-1	H2B, H2BFQ	H2B/q, H2B.1
HG1287_PATCH	HIST2H2AC	ENSG00000263521	ENST00000228929	protein_coding	KNOWN	None	4738	390	129	150573390	150573826	1	H2A, H2AFQ	H2A/q
HG1287_PATCH	HIST2H2AB	ENSG00000263965	ENST00000579360	protein_coding	KNOWN	None	20508	393	130	150573884	150574331	-1	None	None
HG1287_PATCH	BOLA1	ENSG00000265570	ENST00000580009	protein_coding	KNOWN	None	24263	414	137	150574305	150586906	1	None	CGI-143
HG1287_PATCH	BOLA1	ENSG00000265570	ENST00000581429	protein_coding	KNOWN	None	24263	414	137	150586012	150587207	1	None	CGI-143
HG1287_PATCH	BOLA1	ENSG00000265570	ENST00000577529	processed_transcript	KNOWN	None	24263	None	None	150586021	150587213	1	None	CGI-143
HG1287_PATCH	BOLA1	ENSG00000265570	ENST00000583585	protein_coding	KNOWN	None	24263	414	137	150586041	150586963	1	None	CGI-143
HG1287_PATCH	SV2A	ENSG00000265307	ENST00000581609	protein_coding	KNOWN	None	20566	2229	742	150589733	150604297	-1	None	SV2, KIAA0736
HG1287_PATCH	SV2A	ENSG00000265307	ENST00000584087	protein_coding	KNOWN	None	20566	2049	682	150591887	150604256	-1	None	SV2, KIAA0736
HG1287_PATCH	SF3B4	ENSG00000263977	ENST00000582851	protein_coding	KNOWN	None	10771	1275	424	150609732	150614759	-1	None	SAP49, SF3b49, Hsh49
HG1287_PATCH	SF3B4	ENSG00000263977	ENST00000582075	protein_coding	KNOWN	None	10771	571	189	150612797	150614006	-1	None	SAP49, SF3b49, Hsh49
HG1287_PATCH	MTMR11	ENSG00000264524	ENST00000578453	processed_transcript	KNOWN	None	24307	None	None	150615066	150623240	-1	None	CRA
HG1287_PATCH	MTMR11	ENSG00000264524	ENST00000577505	processed_transcript	KNOWN	None	24307	None	None	150615066	150623284	-1	None	CRA
HG1287_PATCH	MTMR11	ENSG00000264524	ENST00000582796	protein_coding	KNOWN	None	24307	1923	640	150615067	150622765	-1	None	CRA
HG1287_PATCH	MTMR11	ENSG00000264524	ENST00000580277	retained_intron	KNOWN	None	24307	None	None	150615067	150623249	-1	None	CRA
HG1287_PATCH	MTMR11	ENSG00000264524	ENST00000581689	processed_transcript	KNOWN	None	24307	None	None	150615067	150623249	-1	None	CRA
HG1287_PATCH	MTMR11	ENSG00000264524	ENST00000581914	protein_coding	KNOWN	None	24307	2130	709	150615069	150623313	-1	None	CRA
HG1287_PATCH	MTMR11	ENSG00000264524	ENST00000580100	protein_coding	KNOWN	None	24307	819	272	150615069	150623313	-1	None	CRA
HG1287_PATCH	MTMR11	ENSG00000264524	ENST00000583248	protein_coding	KNOWN	None	24307	1065	354	150615069	150623313	-1	None	CRA
HG1287_PATCH	MTMR11	ENSG00000264524	ENST00000578256	processed_transcript	KNOWN	None	24307	None	None	150616089	150618007	-1	None	CRA
HG1287_PATCH	MTMR11	ENSG00000264524	ENST00000583977	processed_transcript	KNOWN	None	24307	None	None	150616492	150617802	-1	None	CRA
HG1287_PATCH	MTMR11	ENSG00000264524	ENST00000584458	processed_transcript	KNOWN	None	24307	None	None	150617783	150620322	-1	None	CRA
HG1287_PATCH	MTMR11	ENSG00000264524	ENST00000578675	processed_transcript	KNOWN	None	24307	None	None	150620598	150621901	-1	None	CRA
HG1287_PATCH	None	ENSG00000264522	ENST00000581312	protein_coding	KNOWN	None	None	2532	843	150626747	150697152	-1	None	None
HG1287_PATCH	None	ENSG00000264738	ENST00000580131	processed_pseudogene	KNOWN	None	None	None	None	150740279	150741449	1	None	None
HG1287_PATCH	None	ENSG00000264082	ENST00000579153	protein_coding	KNOWN	None	None	1713	570	150753700	150831742	1	None	None
HG1287_PATCH	None	ENSG00000272207	ENST00000607609	protein_coding	NOVEL	None	None	1326	441	150836333	150846010	1	None	None
HG1287_PATCH	RN7SL480P	ENSG00000266444	ENST00000579030	misc_RNA	KNOWN	None	46496	None	None	150898047	150898338	1	None	None
HG1287_PATCH	None	ENSG00000265346	ENST00000583931	protein_coding	KNOWN	None	None	807	268	150906790	150922509	-1	None	None
HG1287_PATCH	RNU2-17P	ENSG00000266883	ENST00000584145	snRNA	KNOWN	None	48510	None	None	150923382	150923571	1	None	None
HG1287_PATCH	None	ENSG00000264654	ENST00000582010	protein_coding	KNOWN	None	None	1014	337	150944189	150951476	1	None	None
HG1287_PATCH	None	ENSG00000263486	ENST00000579079	snoRNA	NOVEL	None	None	None	None	150948109	150948212	1	None	None
HG1287_PATCH	APH1A	ENSG00000266334	ENST00000581822	protein_coding	KNOWN	None	29509	798	265	150951819	150955414	-1	None	APH-1A, CGI-78
HG1287_PATCH	APH1A	ENSG00000266334	ENST00000584744	protein_coding	KNOWN	None	29509	744	247	150951821	150955718	-1	None	APH-1A, CGI-78
HG1287_PATCH	APH1A	ENSG00000266334	ENST00000582205	protein_coding	KNOWN	None	29509	588	195	150951838	150955431	-1	None	APH-1A, CGI-78
HG1287_PATCH	APH1A	ENSG00000266334	ENST00000579487	processed_transcript	KNOWN	None	29509	None	None	150952764	150955430	-1	None	APH-1A, CGI-78
HG1287_PATCH	APH1A	ENSG00000266334	ENST00000584376	protein_coding	KNOWN	None	29509	450	149	150953060	150955438	-1	None	APH-1A, CGI-78
HG1287_PATCH	APH1A	ENSG00000266334	ENST00000581651	processed_transcript	KNOWN	None	29509	None	None	150953371	150954181	-1	None	APH-1A, CGI-78
HG1287_PATCH	APH1A	ENSG00000266334	ENST00000578739	processed_transcript	KNOWN	None	29509	None	None	150953512	150954111	-1	None	APH-1A, CGI-78
HG1287_PATCH	APH1A	ENSG00000266334	ENST00000584504	processed_transcript	KNOWN	None	29509	None	None	150953785	150954981	-1	None	APH-1A, CGI-78
HG1287_PATCH	APH1A	ENSG00000266334	ENST00000583402	processed_transcript	KNOWN	None	29509	None	None	150955316	150955995	-1	None	APH-1A, CGI-78
HG1287_PATCH	C1orf54	ENSG00000266177	ENST00000578531	protein_coding	KNOWN	None	26258	396	131	150954615	150967331	1	None	FLJ23221
HG1287_PATCH	C1orf54	ENSG00000266177	ENST00000580040	protein_coding	KNOWN	None	26258	396	131	150959114	150967331	1	None	FLJ23221
HG1287_PATCH	C1orf54	ENSG00000266177	ENST00000579738	protein_coding	KNOWN	None	26258	366	121	150959195	150967329	1	None	FLJ23221
HG1287_PATCH	C1orf51	ENSG00000266764	ENST00000585131	protein_coding	NOVEL	None	25200	677	224	150968958	150973152	1	None	BC017397
HG1287_PATCH	C1orf51	ENSG00000266764	ENST00000577190	protein_coding	KNOWN	None	25200	1158	385	150968958	150973508	1	None	BC017397
HG1287_PATCH	C1orf51	ENSG00000266764	ENST00000578717	protein_coding	NOVEL	None	25200	894	297	150968958	150973508	1	None	BC017397
HG1287_PATCH	C1orf51	ENSG00000266764	ENST00000577320	protein_coding	NOVEL	None	25200	716	237	150969187	150973191	1	None	BC017397
HG1287_PATCH	C1orf51	ENSG00000266764	ENST00000584286	protein_coding	KNOWN	None	25200	1158	385	150969234	150973508	1	None	BC017397
HG1287_PATCH	C1orf51	ENSG00000266764	ENST00000581218	processed_transcript	KNOWN	None	25200	None	None	150969264	150971950	1	None	BC017397
HG1287_PATCH	C1orf51	ENSG00000266764	ENST00000578404	processed_transcript	KNOWN	None	25200	None	None	150969949	150973048	1	None	BC017397
HG1287_PATCH	None	ENSG00000266472	ENST00000581066	protein_coding	KNOWN	None	None	264	87	150980264	150994799	1	None	None
HG1287_PATCH	PRPF3	ENSG00000265228	ENST00000578639	protein_coding	KNOWN	None	17348	2052	683	151007891	151039610	1	RP18	Prp3, hPrp3, SNRNP90
HG1287_PATCH	PRPF3	ENSG00000265228	ENST00000584091	processed_transcript	KNOWN	None	17348	None	None	151007894	151021445	1	RP18	Prp3, hPrp3, SNRNP90
HG1287_PATCH	PRPF3	ENSG00000265228	ENST00000577234	protein_coding	KNOWN	None	17348	1905	634	151007968	151039547	1	RP18	Prp3, hPrp3, SNRNP90
HG1287_PATCH	PRPF3	ENSG00000265228	ENST00000578815	protein_coding	KNOWN	None	17348	846	281	151007968	151032502	1	RP18	Prp3, hPrp3, SNRNP90
HG1287_PATCH	PRPF3	ENSG00000265228	ENST00000583709	processed_transcript	KNOWN	None	17348	None	None	151014190	151039610	1	RP18	Prp3, hPrp3, SNRNP90
HG1287_PATCH	PRPF3	ENSG00000265228	ENST00000581251	processed_transcript	KNOWN	None	17348	None	None	151016167	151021394	1	RP18	Prp3, hPrp3, SNRNP90
HG1287_PATCH	PRPF3	ENSG00000265228	ENST00000579845	processed_transcript	KNOWN	None	17348	None	None	151029566	151030790	1	RP18	Prp3, hPrp3, SNRNP90
HG1287_PATCH	PRPF3	ENSG00000265228	ENST00000579829	processed_transcript	KNOWN	None	17348	None	None	151031955	151035624	1	RP18	Prp3, hPrp3, SNRNP90
HG1287_PATCH	PRPF3	ENSG00000265228	ENST00000578553	processed_transcript	KNOWN	None	17348	None	None	151035099	151039610	1	RP18	Prp3, hPrp3, SNRNP90
HG1287_PATCH	RPRD2	ENSG00000266562	ENST00000583847	processed_transcript	KNOWN	None	29039	None	None	151049506	151159971	1	KIAA0460	FLJ32145, HSPC099
HG1287_PATCH	RPRD2	ENSG00000266562	ENST00000579067	protein_coding	KNOWN	None	29039	4308	1435	151051065	151162981	1	KIAA0460	FLJ32145, HSPC099
HG1287_PATCH	RPRD2	ENSG00000266562	ENST00000582942	protein_coding	KNOWN	None	29039	2805	934	151051108	151158458	1	KIAA0460	FLJ32145, HSPC099
HG1287_PATCH	RPRD2	ENSG00000266562	ENST00000584319	protein_coding	KNOWN	None	29039	459	152	151051123	151128038	1	KIAA0460	FLJ32145, HSPC099
HG1287_PATCH	RPRD2	ENSG00000266562	ENST00000584841	protein_coding	KNOWN	None	29039	4386	1461	151051126	151159971	1	KIAA0460	FLJ32145, HSPC099
HG1592_PATCH	PACS2	ENSG00000271374	ENST00000605330	protein_coding	PUTATIVE	None	23794	2445	814	105766900	105861009	1	PACS1L	KIAA0602
HG1592_PATCH	PACS2	ENSG00000271374	ENST00000605817	protein_coding	KNOWN	None	23794	2670	889	105780752	105861543	1	PACS1L	KIAA0602
HG1592_PATCH	PACS2	ENSG00000271374	ENST00000605802	protein_coding	KNOWN	None	23794	2715	904	105781081	105861592	1	PACS1L	KIAA0602
HG1592_PATCH	PACS2	ENSG00000271374	ENST00000605420	protein_coding	KNOWN	None	23794	2682	893	105781081	105864484	1	PACS1L	KIAA0602
HG1592_PATCH	PACS2	ENSG00000271374	ENST00000603567	protein_coding	NOVEL	None	23794	2580	859	105781224	105861206	1	PACS1L	KIAA0602
HG1592_PATCH	PACS2	ENSG00000271374	ENST00000604377	retained_intron	KNOWN	None	23794	None	None	105781227	105815083	1	PACS1L	KIAA0602
HG1592_PATCH	PACS2	ENSG00000271374	ENST00000603001	protein_coding	PUTATIVE	None	23794	260	85	105802762	105833587	1	PACS1L	KIAA0602
HG1592_PATCH	PACS2	ENSG00000271374	ENST00000603509	retained_intron	KNOWN	None	23794	None	None	105821386	105836495	1	PACS1L	KIAA0602
HG1592_PATCH	PACS2	ENSG00000271374	ENST00000603377	retained_intron	KNOWN	None	23794	None	None	105834422	105861550	1	PACS1L	KIAA0602
HG1592_PATCH	PACS2	ENSG00000271374	ENST00000604198	retained_intron	KNOWN	None	23794	None	None	105848261	105857935	1	PACS1L	KIAA0602
HG1592_PATCH	PACS2	ENSG00000271374	ENST00000604741	protein_coding	PUTATIVE	None	23794	1212	403	105849456	105861588	1	PACS1L	KIAA0602
HG1592_PATCH	PACS2	ENSG00000271374	ENST00000604732	retained_intron	KNOWN	None	23794	None	None	105854959	105858086	1	PACS1L	KIAA0602
HG1592_PATCH	PACS2	ENSG00000271374	ENST00000603757	retained_intron	KNOWN	None	23794	None	None	105856574	105859672	1	PACS1L	KIAA0602
HG1592_PATCH	PACS2	ENSG00000271374	ENST00000604473	protein_coding	PUTATIVE	None	23794	273	90	105857796	105861080	1	PACS1L	KIAA0602
HG1592_PATCH	PACS2	ENSG00000271374	ENST00000603403	retained_intron	KNOWN	None	23794	None	None	105858342	105859880	1	PACS1L	KIAA0602
HG1592_PATCH	RPS20P33	ENSG00000270357	ENST00000605803	processed_pseudogene	KNOWN	None	36725	None	None	105840955	105841308	1	None	None
HG1592_PATCH	None	ENSG00000270943	ENST00000605077	pseudogene	NOVEL	None	None	None	None	105861979	105862477	1	None	None
HG1592_PATCH	TEX22	ENSG00000270616	ENST00000603285	nonsense_mediated_decay	KNOWN	None	40026	192	63	105864916	105916443	1	None	None
HG1592_PATCH	TEX22	ENSG00000270616	ENST00000604417	protein_coding	PUTATIVE	None	40026	453	150	105864920	105880196	1	None	None
HG1592_PATCH	None	ENSG00000270266	ENST00000603903	antisense	KNOWN	None	None	None	None	105883221	105886076	-1	None	None
HG1592_PATCH	None	ENSG00000270266	ENST00000605462	antisense	KNOWN	None	None	None	None	105883918	105886076	-1	None	None
HG1592_PATCH	MTA1	ENSG00000270410	ENST00000603608	protein_coding	KNOWN	None	7410	2148	715	105886159	105937066	1	None	None
HG1592_PATCH	MTA1	ENSG00000270410	ENST00000603532	protein_coding	NOVEL	None	7410	2112	703	105886229	105937066	1	None	None
HG1592_PATCH	MTA1	ENSG00000270410	ENST00000603666	protein_coding	NOVEL	None	7410	2097	698	105886275	105937066	1	None	None
HG1592_PATCH	MTA1	ENSG00000270410	ENST00000604408	nonsense_mediated_decay	KNOWN	None	7410	1293	430	105886353	105936575	1	None	None
HG1592_PATCH	MTA1	ENSG00000270410	ENST00000605494	nonsense_mediated_decay	KNOWN	None	7410	173	56	105886356	105920635	1	None	None
HG1592_PATCH	MTA1	ENSG00000270410	ENST00000605425	retained_intron	KNOWN	None	7410	None	None	105905009	105929568	1	None	None
HG1592_PATCH	MTA1	ENSG00000270410	ENST00000604170	nonsense_mediated_decay	KNOWN	None	7410	166	54	105905052	105927137	1	None	None
HG1592_PATCH	MTA1	ENSG00000270410	ENST00000604648	retained_intron	KNOWN	None	7410	None	None	105915380	105924708	1	None	None
HG1592_PATCH	MTA1	ENSG00000270410	ENST00000604878	protein_coding	PUTATIVE	None	7410	684	227	105915577	105927290	1	None	None
HG1592_PATCH	MTA1	ENSG00000270410	ENST00000604435	protein_coding	NOVEL	None	7410	1536	511	105924681	105937066	1	None	None
HG1592_PATCH	MTA1	ENSG00000270410	ENST00000605263	retained_intron	KNOWN	None	7410	None	None	105927218	105931520	1	None	None
HG1592_PATCH	MTA1	ENSG00000270410	ENST00000605223	protein_coding	PUTATIVE	None	7410	140	45	105927231	105931039	1	None	None
HG1592_PATCH	MTA1	ENSG00000270410	ENST00000603298	protein_coding	KNOWN	None	7410	768	255	105929534	105937020	1	None	None
HG1592_PATCH	MTA1	ENSG00000270410	ENST00000604274	retained_intron	KNOWN	None	7410	None	None	105929596	105930904	1	None	None
HG1592_PATCH	MTA1	ENSG00000270410	ENST00000604363	retained_intron	KNOWN	None	7410	None	None	105929890	105933529	1	None	None
HG1592_PATCH	MTA1	ENSG00000270410	ENST00000603892	retained_intron	KNOWN	None	7410	None	None	105931671	105936879	1	None	None
HG1592_PATCH	MTA1	ENSG00000270410	ENST00000605500	protein_coding	PUTATIVE	None	7410	376	124	105934446	105936544	1	None	None
HG1592_PATCH	MTA1	ENSG00000270410	ENST00000603031	retained_intron	KNOWN	None	7410	None	None	105935312	105936567	1	None	None
HG1592_PATCH	MTA1	ENSG00000270410	ENST00000605111	protein_coding	PUTATIVE	None	7410	427	141	105935406	105936634	1	None	None
HG1592_PATCH	MTA1	ENSG00000270410	ENST00000605347	retained_intron	KNOWN	None	7410	None	None	105935804	105936575	1	None	None
HG1592_PATCH	None	ENSG00000271451	ENST00000605405	antisense	KNOWN	None	None	None	None	105934130	105936954	-1	None	None
HG1592_PATCH	CRIP2	ENSG00000270931	ENST00000605799	protein_coding	PUTATIVE	None	2361	849	282	105939299	105946031	1	None	CRP2, ESP1
HG1592_PATCH	CRIP2	ENSG00000270931	ENST00000603102	protein_coding	KNOWN	None	2361	627	208	105940487	105946499	1	None	CRP2, ESP1
HG1592_PATCH	CRIP2	ENSG00000270931	ENST00000603292	protein_coding	NOVEL	None	2361	313	103	105941151	105946494	1	None	CRP2, ESP1
HG1592_PATCH	CRIP2	ENSG00000270931	ENST00000605861	protein_coding	NOVEL	None	2361	577	191	105941155	105946404	1	None	CRP2, ESP1
HG1592_PATCH	CRIP2	ENSG00000270931	ENST00000603817	retained_intron	KNOWN	None	2361	None	None	105941160	105945553	1	None	CRP2, ESP1
HG1592_PATCH	CRIP2	ENSG00000270931	ENST00000605363	retained_intron	KNOWN	None	2361	None	None	105941169	105946489	1	None	CRP2, ESP1
HG1592_PATCH	CRIP2	ENSG00000270931	ENST00000604132	retained_intron	KNOWN	None	2361	None	None	105941174	105946497	1	None	CRP2, ESP1
HG1592_PATCH	CRIP2	ENSG00000270931	ENST00000604512	processed_transcript	KNOWN	None	2361	None	None	105941648	105945113	1	None	CRP2, ESP1
HG1592_PATCH	CRIP2	ENSG00000270931	ENST00000604825	processed_transcript	KNOWN	None	2361	None	None	105942196	105946498	1	None	CRP2, ESP1
HG1592_PATCH	CRIP2	ENSG00000270931	ENST00000603329	processed_transcript	KNOWN	None	2361	None	None	105943101	105946461	1	None	CRP2, ESP1
HG1592_PATCH	CRIP2	ENSG00000270931	ENST00000603577	retained_intron	KNOWN	None	2361	None	None	105944929	105945630	1	None	CRP2, ESP1
HG1592_PATCH	CRIP1	ENSG00000270784	ENST00000605478	retained_intron	KNOWN	None	2360	None	None	105952654	105955122	1	None	CRIP
HG1592_PATCH	CRIP1	ENSG00000270784	ENST00000604460	protein_coding	KNOWN	None	2360	234	77	105952654	105955128	1	None	CRIP
HG1592_PATCH	CRIP1	ENSG00000270784	ENST00000603619	protein_coding	KNOWN	None	2360	234	77	105953204	105955284	1	None	CRIP
HG1592_PATCH	CRIP1	ENSG00000270784	ENST00000604601	protein_coding	KNOWN	None	2360	234	77	105953254	105955128	1	None	CRIP
HG1592_PATCH	CRIP1	ENSG00000270784	ENST00000605557	retained_intron	KNOWN	None	2360	None	None	105953534	105955122	1	None	CRIP
HG1592_PATCH	CRIP1	ENSG00000270784	ENST00000605252	retained_intron	KNOWN	None	2360	None	None	105954191	105955126	1	None	CRIP
HG1592_PATCH	None	ENSG00000271325	ENST00000605516	nonsense_mediated_decay	KNOWN	None	None	234	77	105953536	105958604	1	None	None
HG1592_PATCH	None	ENSG00000271325	ENST00000605769	retained_intron	KNOWN	None	None	None	None	105954521	105957996	1	None	None
HG1592_PATCH	None	ENSG00000271325	ENST00000604065	nonsense_mediated_decay	KNOWN	None	None	148	48	105954549	105957996	1	None	None
HG1592_PATCH	None	ENSG00000271325	ENST00000605214	nonsense_mediated_decay	KNOWN	None	None	139	45	105954558	105957996	1	None	None
HG1592_PATCH	None	ENSG00000271325	ENST00000604117	nonsense_mediated_decay	KNOWN	None	None	139	45	105954558	105957996	1	None	None
HG1592_PATCH	None	ENSG00000271325	ENST00000604730	nonsense_mediated_decay	KNOWN	None	None	139	45	105954558	105957996	1	None	None
HG1592_PATCH	C14orf80	ENSG00000270288	ENST00000605664	protein_coding	KNOWN	None	20127	1065	354	105956192	105965912	1	None	None
HG1592_PATCH	C14orf80	ENSG00000270288	ENST00000605359	protein_coding	KNOWN	None	20127	240	79	105956200	105958580	1	None	None
HG1592_PATCH	C14orf80	ENSG00000270288	ENST00000603527	protein_coding	NOVEL	None	20127	648	215	105956213	105963780	1	None	None
HG1592_PATCH	C14orf80	ENSG00000270288	ENST00000605236	protein_coding	NOVEL	None	20127	908	301	105956461	105965033	1	None	None
HG1592_PATCH	C14orf80	ENSG00000270288	ENST00000604162	processed_transcript	KNOWN	None	20127	None	None	105956520	105965121	1	None	None
HG1592_PATCH	C14orf80	ENSG00000270288	ENST00000605779	protein_coding	KNOWN	None	20127	1059	352	105956520	105965523	1	None	None
HG1592_PATCH	C14orf80	ENSG00000270288	ENST00000603796	protein_coding	KNOWN	None	20127	331	109	105956633	105958940	1	None	None
HG1592_PATCH	C14orf80	ENSG00000270288	ENST00000605289	protein_coding	KNOWN	None	20127	471	156	105957402	105964212	1	None	None
HG1592_PATCH	C14orf80	ENSG00000270288	ENST00000603381	protein_coding	KNOWN	None	20127	1059	352	105957440	105965551	1	None	None
HG1592_PATCH	C14orf80	ENSG00000270288	ENST00000605060	protein_coding	KNOWN	None	20127	164	53	105957571	105959028	1	None	None
HG1592_PATCH	C14orf80	ENSG00000270288	ENST00000604588	protein_coding	KNOWN	None	20127	1281	426	105957586	105965505	1	None	None
HG1592_PATCH	C14orf80	ENSG00000270288	ENST00000604193	protein_coding	KNOWN	None	20127	1488	495	105957592	105965519	1	None	None
HG1592_PATCH	C14orf80	ENSG00000270288	ENST00000605161	retained_intron	KNOWN	None	20127	None	None	105957599	105959054	1	None	None
HG1592_PATCH	C14orf80	ENSG00000270288	ENST00000603186	protein_coding	KNOWN	None	20127	1182	393	105957605	105965546	1	None	None
HG1592_PATCH	C14orf80	ENSG00000270288	ENST00000604269	retained_intron	KNOWN	None	20127	None	None	105957609	105963994	1	None	None
HG1592_PATCH	C14orf80	ENSG00000270288	ENST00000604216	retained_intron	KNOWN	None	20127	None	None	105957663	105963750	1	None	None
HG1592_PATCH	C14orf80	ENSG00000270288	ENST00000605854	nonsense_mediated_decay	KNOWN	None	20127	360	119	105957704	105965565	1	None	None
HG1592_PATCH	C14orf80	ENSG00000270288	ENST00000603867	protein_coding	KNOWN	None	20127	747	248	105957731	105965283	1	None	None
HG1592_PATCH	C14orf80	ENSG00000270288	ENST00000603549	retained_intron	KNOWN	None	20127	None	None	105960491	105965566	1	None	None
HG1592_PATCH	C14orf80	ENSG00000270288	ENST00000603503	retained_intron	KNOWN	None	20127	None	None	105963963	105965566	1	None	None
HG1592_PATCH	TMEM121	ENSG00000271694	ENST00000604701	protein_coding	KNOWN	None	20511	960	319	105992940	105996539	1	None	MGC4659, hole
HG1592_PATCH	TMEM121	ENSG00000271694	ENST00000605305	processed_transcript	PUTATIVE	None	20511	None	None	105993442	105995090	1	None	MGC4659, hole
HG1592_PATCH	TMEM121	ENSG00000271694	ENST00000605646	protein_coding	KNOWN	None	20511	960	319	105994961	105996539	1	None	MGC4659, hole
HG1592_PATCH	ATP5G1P1	ENSG00000270545	ENST00000603925	processed_pseudogene	KNOWN	None	19815	None	None	106003198	106003576	-1	ATP5GP3	None
HG1592_PATCH	ELK2BP	ENSG00000270707	ENST00000604326	unprocessed_pseudogene	KNOWN	None	3324	None	None	106012947	106016031	-1	ELK2P2	ELK2.2
HG1592_PATCH	IGHA2	ENSG00000270464	ENST00000605666	IG_C_gene	KNOWN	None	5479	1023	340	106053226	106054732	-1	None	None
HG1592_PATCH	None	ENSG00000271055	ENST00000605520	miRNA	NOVEL	None	None	None	None	106056273	106056350	-1	None	None
HG1592_PATCH	None	ENSG00000271512	ENST00000604631	miRNA	NOVEL	None	None	None	None	106057407	106057466	-1	None	None
HG1592_PATCH	None	ENSG00000270944	ENST00000603833	lincRNA	KNOWN	None	None	None	None	106064028	106066420	-1	None	None
HG1592_PATCH	None	ENSG00000270944	ENST00000605662	lincRNA	KNOWN	None	None	None	None	106064224	106066376	-1	None	None
HG1592_PATCH	None	ENSG00000270944	ENST00000604498	lincRNA	KNOWN	None	None	None	None	106064224	106066546	-1	None	None
HG1592_PATCH	None	ENSG00000270944	ENST00000605453	lincRNA	KNOWN	None	None	None	None	106066241	106066546	-1	None	None
HG1592_PATCH	IGHE	ENSG00000270340	ENST00000604997	IG_C_gene	KNOWN	None	5522	228	75	106064224	106066546	-1	None	None
HG1592_PATCH	IGHE	ENSG00000270340	ENST00000604657	IG_C_gene	KNOWN	None	5522	30	9	106066241	106066546	-1	None	None
HG1592_PATCH	IGHE	ENSG00000270340	ENST00000605414	IG_C_gene	KNOWN	None	5522	1287	428	106066278	106068065	-1	None	None
HG1592_PATCH	None	ENSG00000270283	ENST00000605871	lincRNA	KNOWN	None	None	None	None	106067809	106071694	-1	None	None
HG1592_PATCH	None	ENSG00000270283	ENST00000603799	lincRNA	KNOWN	None	None	None	None	106067994	106069282	-1	None	None
HG1592_PATCH	IGHG4	ENSG00000270498	ENST00000605075	IG_C_gene	KNOWN	None	5528	984	327	106090687	106092403	-1	None	None
HG1592_PATCH	IGHG2	ENSG00000270895	ENST00000603473	IG_C_gene	KNOWN	None	5526	981	326	106109389	106111127	-1	None	None
HG1592_PATCH	None	ENSG00000270651	ENST00000605415	lincRNA	KNOWN	None	None	None	None	106110833	106114892	-1	None	None
HG1592_PATCH	None	ENSG00000270651	ENST00000605134	lincRNA	KNOWN	None	None	None	None	106114261	106115394	-1	None	None
HG1592_PATCH	IGHGP	ENSG00000271411	ENST00000603250	IG_C_pseudogene	KNOWN	None	5529	None	None	106130970	106136180	-1	IGHGP1	None
HG1592_PATCH	ELK2AP	ENSG00000270737	ENST00000603754	processed_pseudogene	KNOWN	None	3323	None	None	106138645	106139651	-1	ELK2, ELK2P1	ELK2.1
HG1592_PATCH	None	ENSG00000270203	ENST00000605669	lincRNA	KNOWN	None	None	None	None	106170301	106170939	-1	None	None
HG1592_PATCH	IGHA1	ENSG00000271189	ENST00000604598	IG_C_gene	KNOWN	None	5478	1062	353	106173457	106175002	-1	None	None
HG1592_PATCH	None	ENSG00000270221	ENST00000603984	miRNA	NOVEL	None	None	None	None	106178260	106178329	-1	None	None
HG1592_PATCH	IGHEP1	ENSG00000270715	ENST00000605246	IG_C_pseudogene	KNOWN	None	5523	None	None	106185955	106188274	-1	None	None
HG1592_PATCH	IGHEP1	ENSG00000270715	ENST00000604835	IG_C_pseudogene	KNOWN	None	5523	None	None	106188131	106188864	-1	None	None
HG1592_PATCH	IGHG1	ENSG00000271292	ENST00000604364	IG_C_gene	KNOWN	None	5525	1200	399	106202680	106209408	-1	None	None
HG1592_PATCH	IGHG1	ENSG00000271292	ENST00000605583	IG_C_gene	KNOWN	None	5525	993	330	106207675	106209408	-1	None	None
HG1592_PATCH	IGHG1	ENSG00000271292	ENST00000603328	IG_C_gene	KNOWN	None	5525	888	295	106207676	106209408	-1	None	None
HG1592_PATCH	IGHG3	ENSG00000270355	ENST00000603632	IG_C_gene	KNOWN	None	5527	1133	376	106235439	106237742	-1	None	None
HG1592_PATCH	None	ENSG00000271282	ENST00000604964	processed_pseudogene	KNOWN	None	None	None	None	106251842	106252168	-1	None	None
HG1592_PATCH	IGHD	ENSG00000271438	ENST00000605157	IG_C_gene	KNOWN	None	5480	1292	429	106303102	106312014	-1	None	FLJ00382, FLJ46727, MGC29633
HG1592_PATCH	IGHM	ENSG00000271541	ENST00000605693	IG_C_gene	KNOWN	None	5541	1362	453	106320581	106322555	-1	None	None
HG1592_PATCH	None	ENSG00000271388	ENST00000604286	miRNA	KNOWN	None	None	None	None	106323850	106323909	-1	None	None
HG1592_PATCH	None	ENSG00000271528	ENST00000604403	miRNA	NOVEL	None	None	None	None	106323910	106323969	-1	None	None
HG1592_PATCH	None	ENSG00000271087	ENST00000605427	miRNA	NOVEL	None	None	None	None	106324080	106324139	-1	None	None
HG1592_PATCH	None	ENSG00000270844	ENST00000603692	miRNA	KNOWN	None	None	None	None	106324502	106324579	-1	None	None
HG1592_PATCH	None	ENSG00000270752	ENST00000603251	miRNA	NOVEL	None	None	None	None	106324672	106324749	-1	None	None
HG1592_PATCH	None	ENSG00000270952	ENST00000605562	miRNA	NOVEL	None	None	None	None	106324891	106324960	-1	None	None
HG1592_PATCH	None	ENSG00000270310	ENST00000604410	miRNA	KNOWN	None	None	None	None	106325821	106325890	-1	None	None
HG1592_PATCH	IGHJ6	ENSG00000271008	ENST00000605226	IG_J_gene	KNOWN	None	5540	61	19	106329535	106329595	-1	None	None
HG1592_PATCH	IGHJ3P	ENSG00000271258	ENST00000605523	IG_J_pseudogene	KNOWN	None	5537	None	None	106329753	106329802	-1	None	Jpsi3
HG1592_PATCH	IGHJ5	ENSG00000270662	ENST00000603111	IG_J_gene	KNOWN	None	5539	49	15	106330151	106330199	-1	None	None
HG1592_PATCH	IGHJ4	ENSG00000270564	ENST00000605760	IG_J_gene	KNOWN	None	5538	46	14	106330552	106330597	-1	None	None
HG1592_PATCH	IGHJ3	ENSG00000270396	ENST00000604591	IG_J_gene	KNOWN	None	5536	49	15	106330924	106330972	-1	None	None
HG1592_PATCH	IGHJ2P	ENSG00000270345	ENST00000605654	IG_J_pseudogene	KNOWN	None	5535	None	None	106331130	106331189	-1	None	Jpsi2
HG1592_PATCH	IGHJ2	ENSG00000271169	ENST00000604748	IG_J_gene	KNOWN	None	5534	52	16	106331536	106331587	-1	None	None
HG1592_PATCH	IGHJ1	ENSG00000271323	ENST00000603773	IG_J_gene	KNOWN	None	5532	52	16	106331744	106331795	-1	None	None
HG1592_PATCH	IGHD7-27	ENSG00000271391	ENST00000604319	IG_D_gene	KNOWN	None	5518	11	2	106331888	106331898	-1	None	IGHD727, DHQ52
HG1592_PATCH	IGHJ1P	ENSG00000270940	ENST00000603923	IG_J_pseudogene	KNOWN	None	5533	None	None	106331961	106332015	-1	None	Jpsi1
HG1592_PATCH	IGHD1-26	ENSG00000270454	ENST00000603768	IG_D_gene	KNOWN	None	5485	20	5	106347371	106347390	-1	None	IGHD126
HG1592_PATCH	IGHD6-25	ENSG00000270963	ENST00000604592	IG_D_gene	KNOWN	None	5516	18	5	106347876	106347893	-1	None	IGHD625
HG1592_PATCH	IGHD5-24	ENSG00000271622	ENST00000605864	IG_D_gene	KNOWN	None	5510	20	5	106350240	106350259	-1	None	IGHD524
HG1592_PATCH	IGHD4-23	ENSG00000270805	ENST00000603644	IG_D_gene	KNOWN	None	5504	19	5	106351207	106351225	-1	None	IGHD423
HG1592_PATCH	IGHD3-22	ENSG00000271393	ENST00000603804	IG_D_gene	KNOWN	None	5497	31	9	106352368	106352398	-1	None	IGHD322
HG1592_PATCH	IGHD2-21	ENSG00000271444	ENST00000604055	IG_D_gene	KNOWN	None	5491	28	8	106354888	106354915	-1	None	IGHD221
HG1592_PATCH	None	ENSG00000270967	ENST00000603125	lincRNA	KNOWN	None	None	None	None	106356421	106362446	1	None	None
HG1592_PATCH	None	ENSG00000270967	ENST00000604098	lincRNA	KNOWN	None	None	None	None	106360983	106362914	1	None	None
HG1592_PATCH	IGHD1-20	ENSG00000270473	ENST00000603618	IG_D_gene	KNOWN	None	5484	17	4	106357528	106357544	-1	None	IGHD120
HG1592_PATCH	IGHD6-19	ENSG00000270622	ENST00000603316	IG_D_gene	KNOWN	None	5515	21	6	106358036	106358056	-1	None	IGHD619
HG1592_PATCH	IGHD5-18	ENSG00000271534	ENST00000605850	IG_D_gene	KNOWN	None	5509	20	5	106359879	106359898	-1	None	IGHD518
HG1592_PATCH	IGHD4-17	ENSG00000270643	ENST00000603007	IG_D_gene	KNOWN	None	5503	16	4	106360845	106360860	-1	None	IGHD417
HG1592_PATCH	IGHD3-16	ENSG00000270796	ENST00000603235	IG_D_gene	KNOWN	None	5496	37	11	106361971	106362007	-1	None	IGHD316
HG1592_PATCH	IGHD2-15	ENSG00000270888	ENST00000605143	IG_D_gene	KNOWN	None	5489	31	9	106364294	106364324	-1	None	IGHD215, D2
HG1592_PATCH	IGHD1-14	ENSG00000270686	ENST00000603340	IG_D_gene	KNOWN	None	5483	17	4	106366975	106366991	-1	None	IGHD114, DM2
HG1592_PATCH	IGHD6-13	ENSG00000271634	ENST00000603359	IG_D_gene	KNOWN	None	5514	21	6	106367479	106367499	-1	None	IGHD613, DN1
HG1592_PATCH	IGHD5-12	ENSG00000271688	ENST00000604735	IG_D_gene	KNOWN	None	5508	23	6	106368986	106369008	-1	None	IGHD512, DK1
HG1592_PATCH	IGHD4-11	ENSG00000270418	ENST00000603379	IG_D_gene	KNOWN	None	5502	16	4	106369953	106369968	-1	None	IGHD411, DA1
HG1592_PATCH	IGHD3-10	ENSG00000271312	ENST00000604309	IG_D_gene	KNOWN	None	5495	30	9	106370834	106370864	-1	None	IGHD310, DXP'1
HG1592_PATCH	IGHD3-9	ENSG00000270899	ENST00000604234	IG_D_gene	KNOWN	None	5499	30	9	106371018	106371048	-1	None	IGHD39, DXP1
HG1592_PATCH	IGHD2-8	ENSG00000271144	ENST00000603739	IG_D_gene	KNOWN	None	5492	31	9	106373548	106373578	-1	None	IGHD28, DLR1
HG1592_PATCH	IGHD1-7	ENSG00000270608	ENST00000604564	IG_D_gene	KNOWN	None	5486	17	4	106376244	106376260	-1	None	DM1, IGHD17
HG1592_PATCH	IGHD6-6	ENSG00000271371	ENST00000603303	IG_D_gene	KNOWN	None	5517	18	5	106376747	106376764	-1	None	IGHD66, D(N4)
HG1592_PATCH	IGHD5-5	ENSG00000270311	ENST00000605430	IG_D_gene	KNOWN	None	5511	20	5	106378594	106378613	-1	None	IGHD55, DK4
HG1592_PATCH	IGHD4-4	ENSG00000271276	ENST00000605685	IG_D_gene	KNOWN	None	5505	16	4	106379559	106379574	-1	None	IGHD44, DA4
HG1592_PATCH	IGHD3-3	ENSG00000271031	ENST00000603725	IG_D_gene	KNOWN	None	5498	31	9	106380696	106380726	-1	None	IGHD33, DXP4
HG1592_PATCH	IGHD2-2	ENSG00000271571	ENST00000605709	IG_D_gene	KNOWN	None	5490	31	9	106383163	106383193	-1	None	IGHD22
HG1592_PATCH	IGHD1-1	ENSG00000271432	ENST00000604111	IG_D_gene	KNOWN	None	5482	17	4	106385839	106385855	-1	None	IGHD11
HG1592_PATCH	IGHV6-1	ENSG00000270703	ENST00000603991	IG_V_gene	KNOWN	None	5662	363	120	106406093	106406590	-1	None	None
HG1592_PATCH	IGHVII-1-1	ENSG00000271577	ENST00000605868	IG_V_pseudogene	KNOWN	None	5670	None	None	106411547	106411726	-1	None	IGHV(II)-1-1
HG1592_PATCH	None	ENSG00000271968	ENST00000606026	protein_coding	NOVEL	None	None	996	331	106436075	106438606	-1	None	None
HG1592_PATCH	None	ENSG00000270224	ENST00000605436	processed_pseudogene	KNOWN	None	None	None	None	106444857	106445483	-1	None	None
HG1592_PATCH	IGHV1-2	ENSG00000270452	ENST00000604405	IG_V_gene	KNOWN	None	5550	351	116	106452921	106453420	-1	None	V35
HG1592_PATCH	IGHVIII-2-1	ENSG00000270636	ENST00000603041	IG_V_pseudogene	KNOWN	None	5695	None	None	106467871	106468161	-1	None	IGHV(III)-2-1
HG1592_PATCH	IGHV1-3	ENSG00000271535	ENST00000604008	IG_V_gene	KNOWN	None	5552	351	116	106471434	106471911	-1	None	VI-3B
HG1592_PATCH	IGHV2-5	ENSG00000271062	ENST00000604885	IG_V_gene	KNOWN	None	5576	357	118	106504240	106504702	-1	None	None
HG1592_PATCH	IGHVIII-5-1	ENSG00000270600	ENST00000604402	IG_V_pseudogene	KNOWN	None	5702	None	None	106506003	106506101	-1	None	IGHV(III)-5-1
HG1592_PATCH	IGHVIII-5-2	ENSG00000270877	ENST00000605878	IG_V_pseudogene	KNOWN	None	5703	None	None	106511937	106512197	-1	None	IGHV(III)-5-2
HG1592_PATCH	IGHV3-6	ENSG00000270609	ENST00000605773	IG_V_pseudogene	KNOWN	None	5613	None	None	106521886	106522335	-1	None	None
HG1592_PATCH	IGHV3-7	ENSG00000270398	ENST00000605118	IG_V_gene	KNOWN	None	5620	351	116	106528488	106529020	-1	None	None
HG1592_PATCH	IGHV3-11	ENSG00000271648	ENST00000604832	IG_V_gene	KNOWN	None	5580	351	116	106582974	106583541	-1	None	None
HG1592_PATCH	IGHVIII-11-1	ENSG00000270417	ENST00000605821	IG_V_pseudogene	KNOWN	None	5692	None	None	106586544	106586810	-1	None	IGHV(III)-11-1
HG1592_PATCH	IGHV1-12	ENSG00000271574	ENST00000604789	IG_V_pseudogene	KNOWN	None	5546	None	None	106588757	106589046	-1	None	None
HG1592_PATCH	IGHV3-13	ENSG00000270676	ENST00000603568	IG_V_gene	KNOWN	None	5581	348	115	106595879	106596409	-1	None	None
HG1592_PATCH	IGHVIII-13-1	ENSG00000270873	ENST00000603856	IG_V_pseudogene	KNOWN	None	5693	None	None	106608624	106608914	-1	None	IGHV(III)-13-1
HG1592_PATCH	IGHV1-14	ENSG00000271274	ENST00000604483	IG_V_pseudogene	KNOWN	None	5547	None	None	106612228	106612468	-1	None	None
HG1592_PATCH	IGHV3-15	ENSG00000271058	ENST00000604787	IG_V_gene	KNOWN	None	5582	357	118	106619961	106620500	-1	None	None
HG1592_PATCH	IGHVII-15-1	ENSG00000271497	ENST00000605268	IG_V_pseudogene	KNOWN	None	5671	None	None	106629920	106630139	-1	None	IGHV(II)-15-1
HG1592_PATCH	IGHV3-16	ENSG00000270214	ENST00000604206	IG_V_gene	KNOWN	None	5583	351	116	106631542	106632067	-1	None	None
HG1592_PATCH	IGHV1-17	ENSG00000270373	ENST00000604492	IG_V_pseudogene	KNOWN	None	5548	None	None	106640679	106641097	-1	None	None
HG1592_PATCH	IGHV1-18	ENSG00000271261	ENST00000604973	IG_V_gene	KNOWN	None	5549	351	116	106651238	106651731	-1	None	None
HG1592_PATCH	IGHV3-19	ENSG00000270566	ENST00000603332	IG_V_pseudogene	KNOWN	None	5584	None	None	106663037	106663327	-1	None	None
HG1592_PATCH	None	ENSG00000271191	ENST00000602996	lincRNA	KNOWN	None	None	None	None	106672940	106674908	1	None	None
HG1592_PATCH	None	ENSG00000271106	ENST00000604185	miRNA	NOVEL	None	None	None	None	106673115	106673223	1	None	None
HG1592_PATCH	IGHV3-20	ENSG00000270774	ENST00000605303	IG_V_gene	KNOWN	None	5585	351	116	106677275	106677790	-1	None	None
HG1592_PATCH	IGHV3-21	ENSG00000270642	ENST00000603206	IG_V_gene	KNOWN	None	5586	351	116	106701401	106701931	-1	None	None
HG1592_PATCH	IGHV3-22	ENSG00000270925	ENST00000605132	IG_V_pseudogene	KNOWN	None	5587	None	None	106724099	106724560	-1	None	None
HG1592_PATCH	IGHVII-22-1	ENSG00000270428	ENST00000605776	IG_V_pseudogene	KNOWN	None	5673	None	None	106729699	106729963	-1	None	IGHV(II)-22-1
HG1592_PATCH	IGHVIII-22-2	ENSG00000271446	ENST00000605343	IG_V_pseudogene	KNOWN	None	5696	None	None	106731025	106731052	-1	None	IGHV(III)-22-2
HG1592_PATCH	IGHV3-23	ENSG00000271562	ENST00000604930	IG_V_gene	KNOWN	None	5588	351	116	106734945	106735477	-1	None	None
HG1592_PATCH	IGHV1-24	ENSG00000271689	ENST00000603306	IG_V_gene	KNOWN	None	5551	351	116	106742885	106743380	-1	None	None
HG1592_PATCH	None	ENSG00000271403	ENST00000604637	processed_pseudogene	KNOWN	None	None	None	None	106753148	106753994	-1	None	None
HG1592_PATCH	IGHV3-25	ENSG00000270596	ENST00000604944	IG_V_pseudogene	KNOWN	None	5589	None	None	106755366	106755816	-1	None	None
HG1592_PATCH	IGHVIII-25-1	ENSG00000271193	ENST00000604874	IG_V_pseudogene	KNOWN	None	5697	None	None	106759905	106760145	-1	None	IGHV(III)-25-1
HG1592_PATCH	IGHV2-26	ENSG00000270298	ENST00000604985	IG_V_gene	KNOWN	None	5575	357	118	106767733	106768199	-1	None	None
HG1592_PATCH	IGHVIII-26-1	ENSG00000270649	ENST00000603366	IG_V_pseudogene	KNOWN	None	5698	None	None	106775754	106776003	-1	None	IGHV(III)-26-1
HG1592_PATCH	IGHVII-26-2	ENSG00000271221	ENST00000605581	IG_V_pseudogene	KNOWN	None	5674	None	None	106780988	106781312	-1	None	IGHV(II)-26-2
HG1592_PATCH	IGHV7-27	ENSG00000270819	ENST00000604861	IG_V_pseudogene	KNOWN	None	5663	None	None	106784160	106784573	-1	None	None
HG1592_PATCH	IGHV4-28	ENSG00000271493	ENST00000603153	IG_V_gene	KNOWN	None	5645	351	116	106790593	106791097	-1	None	None
HG1592_PATCH	IGHV3-29	ENSG00000270474	ENST00000604817	IG_V_pseudogene	KNOWN	None	5590	None	None	106797453	106797889	-1	None	None
HG1592_PATCH	IGHV3-30	ENSG00000270550	ENST00000603660	IG_V_gene	KNOWN	None	5591	351	116	106801419	106801950	-1	None	None
HG1592_PATCH	IGHVII-30-1	ENSG00000271539	ENST00000603987	IG_V_pseudogene	KNOWN	None	5676	None	None	106809061	106809292	-1	None	IGHV(II)-30-1
HG1592_PATCH	IGHV3-30-2	ENSG00000271050	ENST00000605731	IG_V_pseudogene	KNOWN	None	5592	None	None	106810732	106811170	-1	None	None
HG1592_PATCH	IGHV4-31	ENSG00000270295	ENST00000605000	IG_V_gene	KNOWN	None	5649	354	117	106815622	106816129	-1	None	None
HG1592_PATCH	IGHVII-31-1	ENSG00000270468	ENST00000603686	IG_V_pseudogene	KNOWN	None	5677	None	None	106821009	106821045	-1	None	IGHV(II)-31-1
HG1592_PATCH	IGHV3-32	ENSG00000270439	ENST00000603253	IG_V_pseudogene	KNOWN	None	5595	None	None	106822502	106822928	-1	None	None
HG1592_PATCH	IGHV3-33	ENSG00000270565	ENST00000603600	IG_V_gene	KNOWN	None	5596	351	116	106826130	106826661	-1	None	None
HG1592_PATCH	IGHVII-33-1	ENSG00000271520	ENST00000605306	IG_V_pseudogene	KNOWN	None	5678	None	None	106833722	106834001	-1	None	IGHV(II)-33-1
HG1592_PATCH	IGHV3-33-2	ENSG00000271176	ENST00000604923	IG_V_pseudogene	KNOWN	None	5597	None	None	106835444	106835883	-1	None	None
HG1592_PATCH	IGHV4-34	ENSG00000271023	ENST00000604045	IG_V_gene	KNOWN	None	5650	369	122	106840000	106840482	-1	None	None
HG1592_PATCH	IGHV7-34-1	ENSG00000270958	ENST00000604413	IG_V_pseudogene	KNOWN	None	5664	None	None	106843637	106844070	-1	None	None
HG1592_PATCH	IGHV3-35	ENSG00000270635	ENST00000604984	IG_V_gene	KNOWN	None	5598	351	116	106855729	106856195	-1	None	None
HG1592_PATCH	IGHV3-36	ENSG00000270227	ENST00000603179	IG_V_pseudogene	KNOWN	None	5599	None	None	106859111	106859568	-1	None	None
HG1592_PATCH	IGHV3-37	ENSG00000270341	ENST00000605267	IG_V_pseudogene	KNOWN	None	5600	None	None	106863013	106863451	-1	None	None
HG1592_PATCH	IGHV3-38	ENSG00000271186	ENST00000605215	IG_V_gene	KNOWN	None	5601	348	115	106876830	106877358	-1	None	None
HG1592_PATCH	IGHVIII-38-1	ENSG00000270250	ENST00000605451	IG_V_pseudogene	KNOWN	None	5699	None	None	106884362	106884415	-1	None	IGHV(III)-38-1
HG1592_PATCH	IGHV4-39	ENSG00000271083	ENST00000603423	IG_V_gene	KNOWN	None	5651	375	124	106888048	106888555	-1	None	None
HG1592_PATCH	IGHV7-40	ENSG00000271592	ENST00000605684	IG_V_pseudogene	KNOWN	None	5666	None	None	106891702	106891900	-1	None	None
HG1592_PATCH	None	ENSG00000271004	ENST00000604205	unprocessed_pseudogene	KNOWN	None	None	None	None	106902752	106902892	-1	None	None
HG1592_PATCH	IGHVII-40-1	ENSG00000270465	ENST00000604661	IG_V_pseudogene	KNOWN	None	5679	None	None	106907287	106907344	-1	None	IGHV(II)-40-1
HG1592_PATCH	None	ENSG00000270559	ENST00000603740	processed_pseudogene	KNOWN	None	None	None	None	106926429	106927392	-1	None	None
HG1592_PATCH	IGHV3-42	ENSG00000270529	ENST00000604455	IG_V_pseudogene	KNOWN	None	5603	None	None	106929595	106929895	-1	None	None
HG1592_PATCH	IGHV3-43	ENSG00000270315	ENST00000604795	IG_V_gene	KNOWN	None	5604	354	117	106936601	106937137	-1	None	None
HG1592_PATCH	IGHVIII-44	ENSG00000270197	ENST00000603455	IG_V_pseudogene	KNOWN	None	5700	None	None	106944557	106944730	-1	None	IGHV(III)-44
HG1592_PATCH	None	ENSG00000270816	ENST00000603633	protein_coding	NOVEL	None	None	258	85	106955103	106961852	1	None	None
HG1592_PATCH	IGHVIV-44-1	ENSG00000271295	ENST00000605699	IG_V_pseudogene	KNOWN	None	5710	None	None	106955682	106956093	-1	None	IGHV(IV)-44-1
HG1592_PATCH	IGHVII-44-2	ENSG00000270613	ENST00000605446	IG_V_pseudogene	KNOWN	None	5681	None	None	106960471	106960720	-1	None	IGHV(II)-44-2
HG1592_PATCH	IGHV1-45	ENSG00000270644	ENST00000605715	IG_V_gene	KNOWN	None	5553	351	116	106973335	106973828	-1	None	None
HG1592_PATCH	IGHV1-46	ENSG00000271224	ENST00000603279	IG_V_gene	KNOWN	None	5554	351	116	106977454	106978193	-1	None	None
HG1592_PATCH	IGHVII-46-1	ENSG00000270309	ENST00000605403	IG_V_pseudogene	KNOWN	None	5682	None	None	106982155	106982191	-1	None	IGHV(II)-46-1
HG1592_PATCH	IGHV3-47	ENSG00000270572	ENST00000605541	IG_V_pseudogene	KNOWN	None	5605	None	None	106984919	106985364	-1	None	None
HG1592_PATCH	IGHVIII-47-1	ENSG00000270476	ENST00000603470	IG_V_pseudogene	KNOWN	None	5701	None	None	106997478	106997808	-1	None	IGHV(III)-47-1
HG1592_PATCH	IGHV3-48	ENSG00000270597	ENST00000604412	IG_V_gene	KNOWN	None	5606	351	116	107004149	107004681	-1	None	None
HG1592_PATCH	IGHV3-49	ENSG00000270786	ENST00000603914	IG_V_gene	KNOWN	None	5607	357	118	107023275	107023814	-1	None	None
HG1592_PATCH	IGHVII-49-1	ENSG00000271300	ENST00000603792	IG_V_pseudogene	KNOWN	None	5683	None	None	107030712	107030935	-1	None	IGHV(II)-49-1
HG1592_PATCH	IGHV3-50	ENSG00000270939	ENST00000605406	IG_V_pseudogene	KNOWN	None	5608	None	None	107032454	107032892	-1	None	None
HG1592_PATCH	IGHV5-51	ENSG00000271531	ENST00000603210	IG_V_gene	KNOWN	None	5659	351	116	107045081	107045573	-1	None	None
HG1592_PATCH	IGHVIII-51-1	ENSG00000270208	ENST00000605033	IG_V_pseudogene	KNOWN	None	5704	None	None	107049843	107050144	-1	None	IGHV(III)-51-1
HG1592_PATCH	IGHVII-51-2	ENSG00000270463	ENST00000604454	IG_V_pseudogene	KNOWN	None	5684	None	None	107051055	107051313	-1	None	IGHV(II)-51-2
HG1592_PATCH	IGHV3-52	ENSG00000271448	ENST00000605158	IG_V_pseudogene	KNOWN	None	5609	None	None	107052713	107053163	-1	None	None
HG1592_PATCH	IGHV3-53	ENSG00000271089	ENST00000604962	IG_V_gene	KNOWN	None	5610	348	115	107059015	107059684	-1	None	None
HG1592_PATCH	IGHVII-53-1	ENSG00000271692	ENST00000604487	IG_V_pseudogene	KNOWN	None	5685	None	None	107066007	107066261	-1	None	IGHV(II)-53-1
HG1592_PATCH	IGHV4-55	ENSG00000271504	ENST00000605095	IG_V_pseudogene	KNOWN	None	5653	None	None	107072438	107072888	-1	None	None
HG1592_PATCH	IGHV7-56	ENSG00000271294	ENST00000603956	IG_V_pseudogene	KNOWN	None	5667	None	None	107076099	107076533	-1	None	None
HG1592_PATCH	IGHV3-57	ENSG00000270841	ENST00000603697	IG_V_pseudogene	KNOWN	None	5612	None	None	107085231	107085510	-1	None	None
HG1592_PATCH	IGHV1-58	ENSG00000271080	ENST00000603573	IG_V_gene	KNOWN	None	5555	351	116	107088696	107089192	-1	None	None
HG1592_PATCH	IGHV4-59	ENSG00000270668	ENST00000604829	IG_V_gene	KNOWN	None	5654	381	126	107092129	107094057	-1	None	None
HG1592_PATCH	IGHV4-59	ENSG00000270668	ENST00000603344	IG_V_gene	KNOWN	None	5654	348	115	107093588	107094162	-1	None	None
HG1592_PATCH	IGHV3-60	ENSG00000270684	ENST00000605052	IG_V_pseudogene	KNOWN	None	5614	None	None	107097534	107097990	-1	None	None
HG1592_PATCH	RNA5SP357	ENSG00000199654	ENST00000362784	rRNA	KNOWN	None	43257	None	None	107103009	107103123	1	RN5S357	None
HG1592_PATCH	RNA5SP389	ENSG00000199654	ENST00000362784	rRNA	KNOWN	None	43289	None	None	107103009	107103123	1	RN5S389	None
HG1592_PATCH	IGHVII-60-1	ENSG00000271416	ENST00000603471	IG_V_pseudogene	KNOWN	None	5686	None	None	107104055	107104310	-1	None	IGHV(II)-60-1
HG1592_PATCH	IGHV4-61	ENSG00000270358	ENST00000603539	IG_V_gene	KNOWN	None	5655	354	117	107105458	107105994	-1	None	None
HG1592_PATCH	IGHV3-62	ENSG00000270284	ENST00000604809	IG_V_pseudogene	KNOWN	None	5615	None	None	107109479	107109922	-1	None	None
HG1592_PATCH	IGHVII-62-1	ENSG00000271575	ENST00000604320	IG_V_pseudogene	KNOWN	None	5687	None	None	107116888	107117122	-1	None	IGHV(II)-62-1
HG1592_PATCH	IGHV3-63	ENSG00000270436	ENST00000604109	IG_V_pseudogene	KNOWN	None	5616	None	None	107118574	107119018	-1	None	None
HG1592_PATCH	IGHV3-64	ENSG00000271450	ENST00000604578	IG_V_gene	KNOWN	None	5617	354	117	107124062	107124595	-1	None	None
HG1592_PATCH	IGHV3-65	ENSG00000270489	ENST00000604374	IG_V_pseudogene	KNOWN	None	5618	None	None	107132429	107132869	-1	None	None
HG1592_PATCH	IGHVII-65-1	ENSG00000270291	ENST00000604163	IG_V_pseudogene	KNOWN	None	5688	None	None	107138134	107138381	-1	None	IGHV(II)-65-1
HG1592_PATCH	IGHV3-66	ENSG00000270881	ENST00000605681	IG_V_gene	KNOWN	None	5619	348	115	107141354	107141881	-1	None	None
HG1592_PATCH	IGHV1-67	ENSG00000271289	ENST00000604573	IG_V_pseudogene	KNOWN	None	5556	None	None	107146940	107147379	-1	None	None
HG1592_PATCH	SLC20A1P1	ENSG00000271422	ENST00000603390	processed_pseudogene	KNOWN	None	20051	None	None	107149732	107150687	-1	None	None
HG1592_PATCH	IGHVII-67-1	ENSG00000271082	ENST00000603035	IG_V_pseudogene	KNOWN	None	5689	None	None	107152854	107152899	-1	None	IGHV(II)-67-1
HG1592_PATCH	IGHVIII-67-2	ENSG00000271331	ENST00000603339	IG_V_pseudogene	KNOWN	None	5705	None	None	107153450	107153537	-1	None	IGHV(III)-67-2
HG1592_PATCH	IGHVIII-67-3	ENSG00000270201	ENST00000603056	IG_V_pseudogene	KNOWN	None	5706	None	None	107158994	107159225	-1	None	IGHV(III)-67-3
HG1592_PATCH	IGHVIII-67-4	ENSG00000271548	ENST00000604671	IG_V_pseudogene	KNOWN	None	5707	None	None	107161439	107161734	-1	None	IGHV(III)-67-4
HG1592_PATCH	IGHV1-68	ENSG00000270530	ENST00000604331	IG_V_pseudogene	KNOWN	None	5557	None	None	107170189	107170483	-1	None	None
HG1592_PATCH	IGHV1-69	ENSG00000271469	ENST00000605716	IG_V_gene	KNOWN	None	5558	351	116	107181021	107181518	-1	IGHV1-E	None
HG1592_PATCH	IGHV2-70	ENSG00000270376	ENST00000604977	IG_V_gene	KNOWN	None	5577	357	118	107189912	107190430	-1	None	None
HG1592_PATCH	IGHV3-71	ENSG00000271060	ENST00000603778	IG_V_pseudogene	KNOWN	None	5621	None	None	107241494	107241955	-1	IGHV3-G	IGHV3-g
HG1592_PATCH	IGHV3-72	ENSG00000271695	ENST00000604096	IG_V_gene	KNOWN	None	5622	357	118	107257031	107257570	-1	None	None
HG1592_PATCH	IGHV3-73	ENSG00000270724	ENST00000603911	IG_V_gene	KNOWN	None	5623	357	118	107269031	107269570	-1	None	None
HG1592_PATCH	IGHV3-74	ENSG00000270305	ENST00000603412	IG_V_gene	KNOWN	None	5624	351	116	107276779	107277468	-1	None	None
HG1592_PATCH	IGHVII-74-1	ENSG00000270717	ENST00000604644	IG_V_pseudogene	KNOWN	None	5690	None	None	107287511	107287751	-1	None	IGHV(II)-74-1
HG1592_PATCH	IGHV3-75	ENSG00000270215	ENST00000605808	IG_V_pseudogene	KNOWN	None	5625	None	None	107290024	107290484	-1	None	None
HG1592_PATCH	IGHV3-76	ENSG00000270551	ENST00000603751	IG_V_pseudogene	KNOWN	None	5626	None	None	107294206	107294500	-1	None	None
HG1592_PATCH	IGHVIII-76-1	ENSG00000270693	ENST00000605524	IG_V_pseudogene	KNOWN	None	5708	None	None	107298104	107298389	-1	None	IGHV(III)-76-1
HG1592_PATCH	None	ENSG00000271319	ENST00000604833	miRNA	KNOWN	None	None	None	None	107317222	107317336	-1	None	None
HG1592_PATCH	IGHV5-78	ENSG00000270254	ENST00000605119	IG_V_pseudogene	KNOWN	None	5660	None	None	107317460	107317754	-1	None	None
HG385_PATCH	AP2B1	ENSG00000270478	ENST00000605026	protein_coding	KNOWN	None	563	453	150	33905065	33935334	1	ADTB2, CLAPB1	None
HG385_PATCH	AP2B1	ENSG00000270478	ENST00000604623	protein_coding	KNOWN	None	563	2814	937	33913918	34053436	1	ADTB2, CLAPB1	None
HG385_PATCH	AP2B1	ENSG00000270478	ENST00000603078	nonsense_mediated_decay	KNOWN	None	563	150	49	33914317	34051108	1	ADTB2, CLAPB1	None
HG385_PATCH	AP2B1	ENSG00000270478	ENST00000603965	protein_coding	NOVEL	None	563	2742	913	33914333	34051105	1	ADTB2, CLAPB1	None
HG385_PATCH	AP2B1	ENSG00000270478	ENST00000604035	protein_coding	KNOWN	None	563	2643	880	33914333	34051105	1	ADTB2, CLAPB1	None
HG385_PATCH	AP2B1	ENSG00000270478	ENST00000604265	nonsense_mediated_decay	KNOWN	None	563	192	63	33914341	33935184	1	ADTB2, CLAPB1	None
HG385_PATCH	AP2B1	ENSG00000270478	ENST00000605296	nonsense_mediated_decay	KNOWN	None	563	192	63	33914341	33935311	1	ADTB2, CLAPB1	None
HG385_PATCH	AP2B1	ENSG00000270478	ENST00000605645	protein_coding	KNOWN	None	563	2856	951	33914341	34051394	1	ADTB2, CLAPB1	None
HG385_PATCH	AP2B1	ENSG00000270478	ENST00000603960	protein_coding	KNOWN	None	563	2856	951	33914386	34050784	1	ADTB2, CLAPB1	None
HG385_PATCH	AP2B1	ENSG00000270478	ENST00000603537	protein_coding	KNOWN	None	563	240	79	33914435	33932820	1	ADTB2, CLAPB1	None
HG385_PATCH	AP2B1	ENSG00000270478	ENST00000604032	protein_coding	KNOWN	None	563	2856	951	33914471	34051108	1	ADTB2, CLAPB1	None
HG385_PATCH	AP2B1	ENSG00000270478	ENST00000605683	processed_transcript	KNOWN	None	563	None	None	33914550	33928056	1	ADTB2, CLAPB1	None
HG385_PATCH	AP2B1	ENSG00000270478	ENST00000604281	nonsense_mediated_decay	KNOWN	None	563	192	63	33914585	33932785	1	ADTB2, CLAPB1	None
HG385_PATCH	AP2B1	ENSG00000270478	ENST00000603148	protein_coding	KNOWN	None	563	398	131	33914757	33935279	1	ADTB2, CLAPB1	None
HG385_PATCH	AP2B1	ENSG00000270478	ENST00000605621	processed_transcript	KNOWN	None	563	None	None	33934856	33953739	1	ADTB2, CLAPB1	None
HG385_PATCH	AP2B1	ENSG00000270478	ENST00000605165	processed_transcript	KNOWN	None	563	None	None	33948294	34050939	1	ADTB2, CLAPB1	None
HG385_PATCH	AP2B1	ENSG00000270478	ENST00000603454	nonsense_mediated_decay	KNOWN	None	563	495	164	33951601	33984634	1	ADTB2, CLAPB1	None
HG385_PATCH	AP2B1	ENSG00000270478	ENST00000604658	protein_coding	PUTATIVE	None	563	546	181	33977669	33987139	1	ADTB2, CLAPB1	None
HG385_PATCH	AP2B1	ENSG00000270478	ENST00000603897	retained_intron	KNOWN	None	563	None	None	34037195	34051169	1	ADTB2, CLAPB1	None
HG385_PATCH	RPL17P42	ENSG00000271510	ENST00000605625	transcribed_processed_pseudogene	KNOWN	None	36749	None	None	34046907	34047461	1	None	None
HG385_PATCH	RASL10B	ENSG00000270885	ENST00000603017	protein_coding	KNOWN	None	30295	612	203	34058668	34070540	1	None	VTS58635, RRP17
HG385_PATCH	RASL10B	ENSG00000270885	ENST00000603498	processed_transcript	PUTATIVE	None	30295	None	None	34062356	34064091	1	None	VTS58635, RRP17
HG385_PATCH	GAS2L2	ENSG00000270765	ENST00000604641	protein_coding	KNOWN	None	24846	2643	880	34071530	34079897	-1	None	GAR17
HG385_PATCH	GAS2L2	ENSG00000270765	ENST00000604063	protein_coding	NOVEL	None	24846	2595	864	34071835	34079897	-1	None	GAR17
HG385_PATCH	None	ENSG00000271392	ENST00000603816	sense_intronic	KNOWN	None	None	None	None	34084218	34085344	-1	None	None
HG385_PATCH	C17orf50	ENSG00000270806	ENST00000604830	protein_coding	PUTATIVE	None	29581	411	136	34087916	34091633	1	None	None
HG385_PATCH	C17orf50	ENSG00000270806	ENST00000603305	protein_coding	PUTATIVE	None	29581	522	173	34087928	34091616	1	None	None
HG385_PATCH	C17orf50	ENSG00000270806	ENST00000605587	protein_coding	KNOWN	None	29581	525	174	34087929	34092098	1	None	None
HG385_PATCH	None	ENSG00000271447	ENST00000605424	protein_coding	KNOWN	None	None	1563	520	34092876	34122655	-1	None	None
HG385_PATCH	None	ENSG00000270829	ENST00000605738	lincRNA	KNOWN	None	None	None	None	34135508	34135916	-1	None	None
HG385_PATCH	TAF15	ENSG00000270647	ENST00000605844	protein_coding	KNOWN	None	11547	1779	592	34136474	34174261	1	TAF2N	hTAFII68, RBP56, Npl3
HG385_PATCH	TAF15	ENSG00000270647	ENST00000604879	protein_coding	NOVEL	None	11547	719	238	34136500	34163205	1	TAF2N	hTAFII68, RBP56, Npl3
HG385_PATCH	TAF15	ENSG00000270647	ENST00000604434	retained_intron	KNOWN	None	11547	None	None	34136501	34138603	1	TAF2N	hTAFII68, RBP56, Npl3
HG385_PATCH	TAF15	ENSG00000270647	ENST00000603427	protein_coding	PUTATIVE	None	11547	96	31	34136503	34149737	1	TAF2N	hTAFII68, RBP56, Npl3
HG385_PATCH	TAF15	ENSG00000270647	ENST00000604360	protein_coding	NOVEL	None	11547	323	106	34136503	34149776	1	TAF2N	hTAFII68, RBP56, Npl3
HG385_PATCH	TAF15	ENSG00000270647	ENST00000605649	retained_intron	KNOWN	None	11547	None	None	34136503	34151131	1	TAF2N	hTAFII68, RBP56, Npl3
HG385_PATCH	TAF15	ENSG00000270647	ENST00000603393	nonsense_mediated_decay	KNOWN	None	11547	366	121	34136503	34171333	1	TAF2N	hTAFII68, RBP56, Npl3
HG385_PATCH	TAF15	ENSG00000270647	ENST00000603777	protein_coding	PUTATIVE	None	11547	1350	449	34136503	34174253	1	TAF2N	hTAFII68, RBP56, Npl3
HG385_PATCH	TAF15	ENSG00000270647	ENST00000604841	protein_coding	KNOWN	None	11547	1770	589	34136508	34174253	1	TAF2N	hTAFII68, RBP56, Npl3
HG385_PATCH	TAF15	ENSG00000270647	ENST00000605197	retained_intron	KNOWN	None	11547	None	None	34136525	34151308	1	TAF2N	hTAFII68, RBP56, Npl3
HG385_PATCH	TAF15	ENSG00000270647	ENST00000603346	retained_intron	KNOWN	None	11547	None	None	34160543	34169396	1	TAF2N	hTAFII68, RBP56, Npl3
HG385_PATCH	TAF15	ENSG00000270647	ENST00000603067	retained_intron	KNOWN	None	11547	None	None	34161284	34169391	1	TAF2N	hTAFII68, RBP56, Npl3
HG385_PATCH	TAF15	ENSG00000270647	ENST00000604694	protein_coding	NOVEL	None	11547	644	213	34171096	34174211	1	TAF2N	hTAFII68, RBP56, Npl3
HG385_PATCH	TAF15	ENSG00000270647	ENST00000603967	protein_coding	PUTATIVE	None	11547	309	102	34171954	34191634	1	TAF2N	hTAFII68, RBP56, Npl3
HG385_PATCH	TAF15	ENSG00000270647	ENST00000604195	retained_intron	KNOWN	None	11547	None	None	34190955	34191631	1	TAF2N	hTAFII68, RBP56, Npl3
HG385_PATCH	None	ENSG00000270871	ENST00000603981	antisense	KNOWN	None	None	None	None	34143736	34157312	-1	None	None
HG385_PATCH	None	ENSG00000270894	ENST00000603678	sense_overlapping	KNOWN	None	None	None	None	34145418	34150732	1	None	None
HG385_PATCH	C17orf66	ENSG00000270379	ENST00000604400	retained_intron	KNOWN	None	26548	None	None	34181970	34195858	-1	None	FLJ32830
HG385_PATCH	C17orf66	ENSG00000270379	ENST00000604834	protein_coding	KNOWN	None	26548	1713	570	34181970	34195910	-1	None	FLJ32830
HG385_PATCH	C17orf66	ENSG00000270379	ENST00000603870	protein_coding	KNOWN	None	26548	1593	530	34181975	34195890	-1	None	FLJ32830
HG385_PATCH	C17orf66	ENSG00000270379	ENST00000603323	nonsense_mediated_decay	KNOWN	None	26548	852	283	34182021	34195846	-1	None	FLJ32830
HG385_PATCH	C17orf66	ENSG00000270379	ENST00000605080	nonsense_mediated_decay	KNOWN	None	26548	1023	340	34182400	34195910	-1	None	FLJ32830
HG385_PATCH	C17orf66	ENSG00000270379	ENST00000603852	nonsense_mediated_decay	KNOWN	None	26548	1143	380	34182765	34195909	-1	None	FLJ32830
HG385_PATCH	C17orf66	ENSG00000270379	ENST00000603218	protein_coding	NOVEL	None	26548	420	139	34191292	34195890	-1	None	FLJ32830
HG385_PATCH	C17orf66	ENSG00000270379	ENST00000604376	processed_transcript	KNOWN	None	26548	None	None	34191777	34195882	-1	None	FLJ32830
HG385_PATCH	None	ENSG00000271268	ENST00000605454	processed_pseudogene	KNOWN	None	None	None	None	34188112	34188585	-1	None	None
HG385_PATCH	None	ENSG00000270240	ENST00000605548	antisense	KNOWN	None	None	None	None	34195986	34212882	1	None	None
HG385_PATCH	CCL5	ENSG00000271503	ENST00000603197	protein_coding	KNOWN	None	10632	276	91	34198510	34207527	-1	D17S136E, SCYA5	RANTES, SISd, TCP228, MGC17164
HG385_PATCH	CCL5	ENSG00000271503	ENST00000605140	protein_coding	PUTATIVE	None	10632	276	91	34198510	34207812	-1	D17S136E, SCYA5	RANTES, SISd, TCP228, MGC17164
HG385_PATCH	CCL5	ENSG00000271503	ENST00000605509	protein_coding	PUTATIVE	None	10632	451	149	34199021	34207310	-1	D17S136E, SCYA5	RANTES, SISd, TCP228, MGC17164
HG385_PATCH	RN7SKP274	ENSG00000271394	ENST00000603504	misc_RNA	KNOWN	None	45998	None	None	34216577	34216823	1	None	None
HG385_PATCH	None	ENSG00000270977	ENST00000604907	lincRNA	KNOWN	None	None	None	None	34220726	34238042	-1	None	None
HG385_PATCH	None	ENSG00000270977	ENST00000604647	lincRNA	KNOWN	None	None	None	None	34232057	34233291	-1	None	None
HG385_PATCH	LRRC37A9P	ENSG00000271013	ENST00000603850	processed_pseudogene	KNOWN	None	43813	None	None	34239654	34245029	-1	None	None
HG385_PATCH	RDM1	ENSG00000270517	ENST00000604214	protein_coding	KNOWN	None	19950	756	251	34245085	34257746	-1	RAD52B	MGC33977
HG385_PATCH	RDM1	ENSG00000270517	ENST00000604890	protein_coding	KNOWN	None	19950	855	284	34245085	34257792	-1	RAD52B	MGC33977
HG385_PATCH	RDM1	ENSG00000270517	ENST00000603127	protein_coding	KNOWN	None	19950	786	261	34245099	34257788	-1	RAD52B	MGC33977
HG385_PATCH	RDM1	ENSG00000270517	ENST00000604138	nonsense_mediated_decay	KNOWN	None	19950	345	114	34245361	34257301	-1	RAD52B	MGC33977
HG385_PATCH	RDM1	ENSG00000270517	ENST00000604461	protein_coding	KNOWN	None	19950	687	228	34245361	34257301	-1	RAD52B	MGC33977
HG385_PATCH	RDM1	ENSG00000270517	ENST00000605466	nonsense_mediated_decay	KNOWN	None	19950	351	116	34245361	34257301	-1	RAD52B	MGC33977
HG385_PATCH	RDM1	ENSG00000270517	ENST00000605651	protein_coding	KNOWN	None	19950	432	143	34245361	34257301	-1	RAD52B	MGC33977
HG385_PATCH	RDM1	ENSG00000270517	ENST00000603400	nonsense_mediated_decay	KNOWN	None	19950	420	139	34245361	34257746	-1	RAD52B	MGC33977
HG385_PATCH	RDM1	ENSG00000270517	ENST00000604606	nonsense_mediated_decay	KNOWN	None	19950	240	79	34245361	34257746	-1	RAD52B	MGC33977
HG385_PATCH	RDM1	ENSG00000270517	ENST00000604476	nonsense_mediated_decay	KNOWN	None	19950	414	137	34245361	34257746	-1	RAD52B	MGC33977
HG385_PATCH	RDM1	ENSG00000270517	ENST00000603959	protein_coding	KNOWN	None	19950	501	166	34245361	34257746	-1	RAD52B	MGC33977
HG385_PATCH	RDM1	ENSG00000270517	ENST00000603590	protein_coding	PUTATIVE	None	19950	642	213	34249174	34257772	-1	RAD52B	MGC33977
HG385_PATCH	RDM1	ENSG00000270517	ENST00000604905	protein_coding	KNOWN	None	19950	711	236	34249497	34257759	-1	RAD52B	MGC33977
HG385_PATCH	RDM1	ENSG00000270517	ENST00000604934	protein_coding	KNOWN	None	19950	351	116	34249500	34257318	-1	RAD52B	MGC33977
HG1079_PATCH	VSTM1	ENSG00000271965	ENST00000606832	protein_coding	NOVEL	None	29455	381	126	54544079	54561677	-1	None	UNQ3033
HG1079_PATCH	VSTM1	ENSG00000271965	ENST00000606013	protein_coding	KNOWN	None	29455	711	236	54544079	54567207	-1	None	UNQ3033
HG1079_PATCH	VSTM1	ENSG00000271965	ENST00000606332	nonsense_mediated_decay	KNOWN	None	29455	525	174	54544083	54567207	-1	None	UNQ3033
HG1079_PATCH	VSTM1	ENSG00000271965	ENST00000606693	protein_coding	KNOWN	None	29455	618	205	54544087	54567207	-1	None	UNQ3033
HG1079_PATCH	VSTM1	ENSG00000271965	ENST00000606453	protein_coding	KNOWN	None	29455	447	148	54544204	54567042	-1	None	UNQ3033
HG1079_PATCH	VSTM1	ENSG00000271965	ENST00000607067	protein_coding	KNOWN	None	29455	432	143	54544204	54567042	-1	None	UNQ3033
HG1079_PATCH	None	ENSG00000270825	ENST00000603661	protein_coding	NOVEL	None	None	816	271	54573201	54584619	-1	None	None
HG1079_PATCH	OSCAR	ENSG00000271658	ENST00000604323	protein_coding	PUTATIVE	None	29960	816	271	54597922	54604046	-1	None	None
HG1079_PATCH	OSCAR	ENSG00000271658	ENST00000603909	protein_coding	KNOWN	None	29960	804	267	54597924	54604046	-1	None	None
HG1079_PATCH	OSCAR	ENSG00000271658	ENST00000605046	protein_coding	PUTATIVE	None	29960	861	286	54597924	54604069	-1	None	None
HG1079_PATCH	OSCAR	ENSG00000271658	ENST00000605003	protein_coding	KNOWN	None	29960	792	263	54597924	54604092	-1	None	None
HG1079_PATCH	OSCAR	ENSG00000271658	ENST00000604775	protein_coding	KNOWN	None	29960	759	252	54597924	54604111	-1	None	None
HG1079_PATCH	OSCAR	ENSG00000271658	ENST00000605761	protein_coding	NOVEL	None	29960	849	282	54597924	54605946	-1	None	None
HG1079_PATCH	OSCAR	ENSG00000271658	ENST00000603266	protein_coding	PUTATIVE	None	29960	486	161	54599028	54604095	-1	None	None
HG1079_PATCH	NDUFA3	ENSG00000271016	ENST00000603699	nonsense_mediated_decay	KNOWN	None	7686	198	65	54605982	54610215	1	None	B9
HG1079_PATCH	NDUFA3	ENSG00000271016	ENST00000603070	nonsense_mediated_decay	KNOWN	None	7686	255	84	54606075	54611958	1	None	B9
HG1079_PATCH	NDUFA3	ENSG00000271016	ENST00000605308	protein_coding	KNOWN	None	7686	255	84	54606091	54610822	1	None	B9
HG1079_PATCH	NDUFA3	ENSG00000271016	ENST00000604101	protein_coding	PUTATIVE	None	7686	219	72	54606106	54610215	1	None	B9
HG1079_PATCH	NDUFA3	ENSG00000271016	ENST00000604978	protein_coding	PUTATIVE	None	7686	222	73	54606109	54609724	1	None	B9
HG1079_PATCH	NDUFA3	ENSG00000271016	ENST00000603117	nonsense_mediated_decay	KNOWN	None	7686	198	65	54606109	54610215	1	None	B9
HG1079_PATCH	NDUFA3	ENSG00000271016	ENST00000605091	protein_coding	PUTATIVE	None	7686	186	61	54606123	54610219	1	None	B9
HG1079_PATCH	NDUFA3	ENSG00000271016	ENST00000603932	protein_coding	PUTATIVE	None	7686	246	81	54606123	54611787	1	None	B9
HG1079_PATCH	NDUFA3	ENSG00000271016	ENST00000605073	retained_intron	KNOWN	None	7686	None	None	54606131	54610215	1	None	B9
HG1079_PATCH	NDUFA3	ENSG00000271016	ENST00000603496	protein_coding	PUTATIVE	None	7686	126	41	54606139	54610215	1	None	B9
HG1079_PATCH	NDUFA3	ENSG00000271016	ENST00000603345	nonsense_mediated_decay	KNOWN	None	7686	209	68	54606368	54611980	1	None	B9
HG1079_PATCH	NDUFA3	ENSG00000271016	ENST00000603051	protein_coding	PUTATIVE	None	7686	103	33	54609219	54610215	1	None	B9
HG1079_PATCH	NDUFA3	ENSG00000271016	ENST00000605841	processed_transcript	KNOWN	None	7686	None	None	54611801	54612183	1	None	B9
HG1079_PATCH	NDUFA3	ENSG00000271016	ENST00000604916	processed_transcript	KNOWN	None	7686	None	None	54611958	54612511	1	None	B9
HG1079_PATCH	TFPT	ENSG00000271203	ENST00000603822	protein_coding	KNOWN	None	13630	762	253	54610267	54618929	-1	None	FB1, amida, INO80F
HG1079_PATCH	TFPT	ENSG00000271203	ENST00000604189	protein_coding	PUTATIVE	None	13630	735	244	54610274	54618328	-1	None	FB1, amida, INO80F
HG1079_PATCH	TFPT	ENSG00000271203	ENST00000605728	nonsense_mediated_decay	KNOWN	None	13630	318	105	54610274	54618539	-1	None	FB1, amida, INO80F
HG1079_PATCH	TFPT	ENSG00000271203	ENST00000604898	protein_coding	PUTATIVE	None	13630	582	193	54610274	54618542	-1	None	FB1, amida, INO80F
HG1079_PATCH	PRPF31	ENSG00000271442	ENST00000604745	protein_coding	KNOWN	None	15446	1500	499	54618711	54634963	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HG1079_PATCH	PRPF31	ENSG00000271442	ENST00000604199	protein_coding	KNOWN	None	15446	853	283	54619008	54627908	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HG1079_PATCH	PRPF31	ENSG00000271442	ENST00000604738	protein_coding	KNOWN	None	15446	1353	450	54619025	54634963	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HG1079_PATCH	PRPF31	ENSG00000271442	ENST00000603481	protein_coding	KNOWN	None	15446	829	275	54619033	54627884	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HG1079_PATCH	PRPF31	ENSG00000271442	ENST00000604557	protein_coding	KNOWN	None	15446	782	259	54619063	54627837	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HG1079_PATCH	PRPF31	ENSG00000271442	ENST00000605341	protein_coding	NOVEL	None	15446	1482	493	54621525	54634963	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HG1079_PATCH	PRPF31	ENSG00000271442	ENST00000603506	retained_intron	KNOWN	None	15446	None	None	54621660	54622065	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HG1079_PATCH	PRPF31	ENSG00000271442	ENST00000605394	retained_intron	KNOWN	None	15446	None	None	54621663	54634963	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HG1079_PATCH	PRPF31	ENSG00000271442	ENST00000604839	processed_transcript	KNOWN	None	15446	None	None	54621867	54631451	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HG1079_PATCH	None	ENSG00000271135	ENST00000605321	antisense	KNOWN	None	None	None	None	54622765	54628597	-1	None	None
HG1079_PATCH	None	ENSG00000270262	ENST00000604940	protein_coding	KNOWN	None	None	2262	753	54640974	54658961	1	None	None
HG1079_PATCH	LENG1	ENSG00000271542	ENST00000605182	protein_coding	KNOWN	None	15502	795	264	54658415	54663136	-1	None	None
HG1079_PATCH	None	ENSG00000270942	ENST00000605521	protein_coding	KNOWN	None	None	2121	706	54663352	54676504	-1	None	None
HG1079_PATCH	MBOAT7	ENSG00000271019	ENST00000605770	protein_coding	KNOWN	None	15505	1200	399	54676667	54693136	-1	LENG4	BB1, hMBOA-7, LPIAT
HG1079_PATCH	MBOAT7	ENSG00000271019	ENST00000605029	nonsense_mediated_decay	KNOWN	None	15505	213	70	54676669	54692697	-1	LENG4	BB1, hMBOA-7, LPIAT
HG1079_PATCH	MBOAT7	ENSG00000271019	ENST00000603936	protein_coding	PUTATIVE	None	15505	1200	399	54676669	54692822	-1	LENG4	BB1, hMBOA-7, LPIAT
HG1079_PATCH	MBOAT7	ENSG00000271019	ENST00000603418	protein_coding	KNOWN	None	15505	1419	472	54676669	54693069	-1	LENG4	BB1, hMBOA-7, LPIAT
HG1079_PATCH	MBOAT7	ENSG00000271019	ENST00000605410	retained_intron	KNOWN	None	15505	None	None	54676673	54684044	-1	LENG4	BB1, hMBOA-7, LPIAT
HG1079_PATCH	MBOAT7	ENSG00000271019	ENST00000604854	protein_coding	PUTATIVE	None	15505	372	123	54677328	54691532	-1	LENG4	BB1, hMBOA-7, LPIAT
HG1079_PATCH	MBOAT7	ENSG00000271019	ENST00000605719	protein_coding	PUTATIVE	None	15505	1035	344	54681591	54692926	-1	LENG4	BB1, hMBOA-7, LPIAT
HG1079_PATCH	MBOAT7	ENSG00000271019	ENST00000602340	protein_coding	PUTATIVE	None	15505	545	180	54682917	54686888	-1	LENG4	BB1, hMBOA-7, LPIAT
HG1079_PATCH	MBOAT7	ENSG00000271019	ENST00000603576	protein_coding	PUTATIVE	None	15505	768	255	54684113	54692549	-1	LENG4	BB1, hMBOA-7, LPIAT
HG1079_PATCH	MBOAT7	ENSG00000271019	ENST00000604382	protein_coding	KNOWN	None	15505	511	169	54684370	54692598	-1	LENG4	BB1, hMBOA-7, LPIAT
HG1079_PATCH	MBOAT7	ENSG00000271019	ENST00000604742	retained_intron	KNOWN	None	15505	None	None	54684378	54691666	-1	LENG4	BB1, hMBOA-7, LPIAT
HG1079_PATCH	MBOAT7	ENSG00000271019	ENST00000603517	processed_transcript	KNOWN	None	15505	None	None	54686775	54692803	-1	LENG4	BB1, hMBOA-7, LPIAT
HG1079_PATCH	MBOAT7	ENSG00000271019	ENST00000605498	retained_intron	KNOWN	None	15505	None	None	54690210	54692614	-1	LENG4	BB1, hMBOA-7, LPIAT
HG1079_PATCH	MBOAT7	ENSG00000271019	ENST00000603018	processed_transcript	KNOWN	None	15505	None	None	54690540	54692823	-1	LENG4	BB1, hMBOA-7, LPIAT
HG1079_PATCH	TSEN34	ENSG00000270502	ENST00000603954	protein_coding	KNOWN	None	15506	727	241	54693192	54695609	1	LENG5	SEN34, SEN34L
HG1079_PATCH	TSEN34	ENSG00000270502	ENST00000604186	protein_coding	PUTATIVE	None	15506	754	250	54693522	54695627	1	LENG5	SEN34, SEN34L
HG1079_PATCH	TSEN34	ENSG00000270502	ENST00000605174	protein_coding	KNOWN	None	15506	933	310	54693522	54696920	1	LENG5	SEN34, SEN34L
HG1079_PATCH	TSEN34	ENSG00000270502	ENST00000604706	protein_coding	KNOWN	None	15506	939	312	54693541	54696984	1	LENG5	SEN34, SEN34L
HG1079_PATCH	TSEN34	ENSG00000270502	ENST00000604315	retained_intron	KNOWN	None	15506	None	None	54693597	54696920	1	LENG5	SEN34, SEN34L
HG1079_PATCH	TSEN34	ENSG00000270502	ENST00000605624	protein_coding	KNOWN	None	15506	933	310	54693985	54696920	1	LENG5	SEN34, SEN34L
HG1079_PATCH	TSEN34	ENSG00000270502	ENST00000604966	protein_coding	KNOWN	None	15506	933	310	54694507	54696920	1	LENG5	SEN34, SEN34L
HG1079_PATCH	None	ENSG00000271038	ENST00000603876	antisense	KNOWN	None	None	None	None	54702708	54703225	-1	None	None
HG1079_PATCH	RPS9	ENSG00000271572	ENST00000604119	protein_coding	KNOWN	None	10442	585	194	54703996	54710901	1	None	S9
HG1079_PATCH	RPS9	ENSG00000271572	ENST00000604633	retained_intron	KNOWN	None	10442	None	None	54704063	54710101	1	None	S9
HG1079_PATCH	RPS9	ENSG00000271572	ENST00000604918	nonsense_mediated_decay	KNOWN	None	10442	234	77	54704112	54752257	1	None	S9
HG1079_PATCH	RPS9	ENSG00000271572	ENST00000605832	nonsense_mediated_decay	KNOWN	None	10442	420	139	54704125	54710776	1	None	S9
HG1079_PATCH	RPS9	ENSG00000271572	ENST00000604611	protein_coding	KNOWN	None	10442	585	194	54704126	54710901	1	None	S9
HG1079_PATCH	RPS9	ENSG00000271572	ENST00000603696	protein_coding	NOVEL	None	10442	420	139	54704126	54710901	1	None	S9
HG1079_PATCH	RPS9	ENSG00000271572	ENST00000603732	nonsense_mediated_decay	KNOWN	None	10442	420	139	54704126	54710901	1	None	S9
HG1079_PATCH	RPS9	ENSG00000271572	ENST00000604300	protein_coding	PUTATIVE	None	10442	240	79	54704128	54710901	1	None	S9
HG1079_PATCH	RPS9	ENSG00000271572	ENST00000604786	retained_intron	KNOWN	None	10442	None	None	54704133	54710898	1	None	S9
HG1079_PATCH	RPS9	ENSG00000271572	ENST00000604018	protein_coding	KNOWN	None	10442	585	194	54704387	54710901	1	None	S9
HG1079_PATCH	RPS9	ENSG00000271572	ENST00000603564	retained_intron	KNOWN	None	10442	None	None	54704414	54705262	1	None	S9
HG1079_PATCH	RPS9	ENSG00000271572	ENST00000603902	protein_coding	PUTATIVE	None	10442	471	156	54704414	54710884	1	None	S9
HG1079_PATCH	None	ENSG00000270267	ENST00000604128	unprocessed_pseudogene	KNOWN	None	None	None	None	54712346	54712672	-1	None	None
HG1079_PATCH	LILRB3	ENSG00000270216	ENST00000604207	protein_coding	KNOWN	None	6607	1896	631	54719532	54726760	-1	None	LIR-3, HL9, ILT5, LIR3, CD85a
HG1079_PATCH	LILRB3	ENSG00000270216	ENST00000605232	protein_coding	KNOWN	None	6607	1896	631	54719532	54726341	-1	None	LIR-3, HL9, ILT5, LIR3, CD85a
HG1079_PATCH	LILRB3	ENSG00000270216	ENST00000603354	nonsense_mediated_decay	KNOWN	None	6607	576	191	54719928	54726232	-1	None	LIR-3, HL9, ILT5, LIR3, CD85a
HG1079_PATCH	LILRB3	ENSG00000270216	ENST00000605650	protein_coding	KNOWN	None	6607	1932	643	54720138	54726293	-1	None	LIR-3, HL9, ILT5, LIR3, CD85a
HG1079_PATCH	LILRB3	ENSG00000270216	ENST00000605772	protein_coding	NOVEL	None	6607	1899	632	54720182	54726232	-1	None	LIR-3, HL9, ILT5, LIR3, CD85a
HG1079_PATCH	LILRB3	ENSG00000270216	ENST00000603516	protein_coding	KNOWN	None	6607	1947	648	54720182	54746007	-1	None	LIR-3, HL9, ILT5, LIR3, CD85a
HG1079_PATCH	LILRB3	ENSG00000270216	ENST00000605274	retained_intron	KNOWN	None	6607	None	None	54720350	54720952	-1	None	LIR-3, HL9, ILT5, LIR3, CD85a
HG1079_PATCH	LILRB3	ENSG00000270216	ENST00000581422	processed_transcript	KNOWN	None	6607	None	None	54720374	54724044	-1	None	LIR-3, HL9, ILT5, LIR3, CD85a
HG1079_PATCH	LILRB3	ENSG00000270216	ENST00000580381	retained_intron	KNOWN	None	6607	None	None	54721849	54722609	-1	None	LIR-3, HL9, ILT5, LIR3, CD85a
HG1079_PATCH	LILRB3	ENSG00000270216	ENST00000603602	retained_intron	KNOWN	None	6607	None	None	54725232	54726341	-1	None	LIR-3, HL9, ILT5, LIR3, CD85a
HG1079_PATCH	LILRB3	ENSG00000270216	ENST00000605102	protein_coding	KNOWN	None	6607	475	157	54725265	54726341	-1	None	LIR-3, HL9, ILT5, LIR3, CD85a
HG1079_PATCH	None	ENSG00000271125	ENST00000605535	lincRNA	KNOWN	None	None	None	None	54727777	54728135	1	None	None
HG1079_PATCH	None	ENSG00000270592	ENST00000603086	processed_pseudogene	KNOWN	None	None	None	None	54732290	54733467	1	None	None
HG1079_PATCH	None	ENSG00000270471	ENST00000604784	unprocessed_pseudogene	KNOWN	None	None	None	None	54749355	54750576	-1	None	None
HG1079_PATCH	None	ENSG00000270848	ENST00000603447	protein_coding	NOVEL	None	None	1776	591	54753663	54760558	-1	None	None
HG1079_PATCH	RNU6-1307P	ENSG00000271561	ENST00000604614	snRNA	KNOWN	None	48270	None	None	54767205	54767313	-1	None	None
HG1079_PATCH	None	ENSG00000270908	ENST00000605435	processed_pseudogene	KNOWN	None	None	None	None	54771258	54772296	1	None	None
HG1079_PATCH	None	ENSG00000271246	ENST00000605567	processed_pseudogene	KNOWN	None	None	None	None	54771259	54772299	1	None	None
HG1079_PATCH	LILRB2	ENSG00000271481	ENST00000604620	protein_coding	NOVEL	None	6606	1794	597	54777075	54784137	-1	None	LIR-2, ILT4, MIR-10, LIR2, CD85d, MIR10
HG1079_PATCH	LILRB2	ENSG00000271481	ENST00000603136	protein_coding	NOVEL	None	6606	1794	597	54777606	54784438	-1	None	LIR-2, ILT4, MIR-10, LIR2, CD85d, MIR10
HG1079_PATCH	LILRB2	ENSG00000271481	ENST00000604928	nonsense_mediated_decay	KNOWN	None	6606	632	209	54777720	54781798	-1	None	LIR-2, ILT4, MIR-10, LIR2, CD85d, MIR10
HG1079_PATCH	LILRB2	ENSG00000271481	ENST00000605807	protein_coding	PUTATIVE	None	6606	1533	510	54777720	54783752	-1	None	LIR-2, ILT4, MIR-10, LIR2, CD85d, MIR10
HG1079_PATCH	LILRB2	ENSG00000271481	ENST00000603333	retained_intron	KNOWN	None	6606	None	None	54777720	54784351	-1	None	LIR-2, ILT4, MIR-10, LIR2, CD85d, MIR10
HG1079_PATCH	LILRB2	ENSG00000271481	ENST00000604866	protein_coding	KNOWN	None	6606	1797	598	54777720	54784438	-1	None	LIR-2, ILT4, MIR-10, LIR2, CD85d, MIR10
HG1079_PATCH	LILRB2	ENSG00000271481	ENST00000604321	protein_coding	KNOWN	None	6606	1449	482	54777722	54784410	-1	None	LIR-2, ILT4, MIR-10, LIR2, CD85d, MIR10
HG1079_PATCH	LILRB2	ENSG00000271481	ENST00000604723	processed_transcript	PUTATIVE	None	6606	None	None	54783104	54783715	-1	None	LIR-2, ILT4, MIR-10, LIR2, CD85d, MIR10
HG1079_PATCH	MIR4752	ENSG00000271012	ENST00000604256	miRNA	KNOWN	None	41803	None	None	54785363	54785434	1	None	hsa-mir-4752
HG1079_PATCH	None	ENSG00000270785	ENST00000603765	unprocessed_pseudogene	KNOWN	None	None	None	None	54797303	54797620	-1	None	None
HG1079_PATCH	None	ENSG00000271489	ENST00000605064	unprocessed_pseudogene	KNOWN	None	None	None	None	54801359	54802068	-1	None	None
HG1079_PATCH	None	ENSG00000271126	ENST00000604090	unprocessed_pseudogene	KNOWN	None	None	None	None	54805012	54809280	-1	None	None
HG1079_PATCH	None	ENSG00000262610	ENST00000570517	protein_coding	NOVEL	None	None	900	299	54810571	54816336	-1	None	None
HG1079_PATCH	VN1R104P	ENSG00000270338	ENST00000605767	unprocessed_pseudogene	KNOWN	None	37427	None	None	54823458	54824466	-1	None	None
HG1079_PATCH	None	ENSG00000271229	ENST00000605037	unprocessed_pseudogene	KNOWN	None	None	None	None	54831526	54834688	-1	None	None
HG1079_PATCH	LILRA4	ENSG00000270366	ENST00000604549	protein_coding	KNOWN	None	15503	1500	499	54836439	54842404	-1	None	ILT7, CD85g
HG1079_PATCH	LILRA4	ENSG00000270366	ENST00000603709	non_stop_decay	KNOWN	None	15503	421	139	54840026	54840702	-1	None	ILT7, CD85g
HG1079_PATCH	LILRA4	ENSG00000270366	ENST00000604871	retained_intron	KNOWN	None	15503	None	None	54841466	54842359	-1	None	ILT7, CD85g
HG1079_PATCH	None	ENSG00000270671	ENST00000573669	protein_coding	NOVEL	None	None	864	287	54856880	54868368	-1	None	None
HG1079_PATCH	None	ENSG00000271037	ENST00000605475	processed_pseudogene	KNOWN	None	None	None	None	54882743	54883214	1	None	None
HG1079_PATCH	None	ENSG00000270420	ENST00000605532	protein_coding	NOVEL	None	None	1356	451	54918685	54940126	1	None	None
HG1079_PATCH	None	ENSG00000271669	ENST00000603715	antisense	KNOWN	None	None	None	None	54933908	54937952	-1	None	None
HG1079_PATCH	None	ENSG00000270630	ENST00000605389	sense_intronic	KNOWN	None	None	None	None	54937437	54937919	1	None	None
HG1079_PATCH	None	ENSG00000270595	ENST00000604468	lincRNA	KNOWN	None	None	None	None	54941264	54941600	-1	None	None
HG1079_PATCH	None	ENSG00000271103	ENST00000604909	lincRNA	KNOWN	None	None	None	None	54941919	54942434	-1	None	None
HG1079_PATCH	LENG8-AS1	ENSG00000271637	ENST00000605431	antisense	KNOWN	None	40705	None	None	54948067	54952268	-1	None	None
HG1079_PATCH	LENG8-AS1	ENSG00000271637	ENST00000604541	antisense	KNOWN	None	40705	None	None	54948290	54951856	-1	None	None
HG1079_PATCH	LENG8-AS1	ENSG00000271637	ENST00000605612	antisense	KNOWN	None	40705	None	None	54951419	54952299	-1	None	None
HG1079_PATCH	None	ENSG00000270238	ENST00000604602	processed_pseudogene	KNOWN	None	None	None	None	54950084	54950301	1	None	None
HG1079_PATCH	None	ENSG00000270985	ENST00000605299	protein_coding	KNOWN	None	None	2403	800	54952141	54965270	1	None	None
HG1079_PATCH	CDC42EP5	ENSG00000270365	ENST00000604813	protein_coding	KNOWN	None	17408	447	148	54968280	54976518	-1	None	CEP5, Borg3
HG1079_PATCH	CDC42EP5	ENSG00000270365	ENST00000605177	processed_transcript	KNOWN	None	17408	None	None	54974760	54976425	-1	None	CEP5, Borg3
HG1079_PATCH	LAIR2	ENSG00000271116	ENST00000604570	protein_coding	PUTATIVE	None	6478	268	88	55001133	55011360	1	None	CD306
HG1079_PATCH	LAIR2	ENSG00000271116	ENST00000603315	protein_coding	KNOWN	None	6478	459	152	55006051	55013941	1	None	CD306
HG1079_PATCH	LAIR2	ENSG00000271116	ENST00000603569	protein_coding	KNOWN	None	6478	408	135	55006161	55013941	1	None	CD306
HG1079_PATCH	None	ENSG00000271030	ENST00000603155	unprocessed_pseudogene	KNOWN	None	None	None	None	55024977	55025285	1	None	None
HG1079_PATCH	None	ENSG00000270220	ENST00000605456	protein_coding	NOVEL	None	None	1059	352	55036045	55046986	1	None	None
HG1079_PATCH	None	ENSG00000270687	ENST00000605827	unprocessed_pseudogene	KNOWN	None	None	None	None	55055224	55055510	1	None	None
HG1079_PATCH	LILRA2	ENSG00000270501	ENST00000604873	processed_transcript	KNOWN	None	6603	None	None	55076174	55078164	1	None	LIR-7, ILT1, CD85h, LIR7
HG1079_PATCH	LILRA2	ENSG00000270501	ENST00000603711	protein_coding	KNOWN	None	6603	982	326	55076282	55079090	1	None	LIR-7, ILT1, CD85h, LIR7
HG1079_PATCH	LILRA2	ENSG00000270501	ENST00000604108	protein_coding	KNOWN	None	6603	1452	483	55076605	55090814	1	None	LIR-7, ILT1, CD85h, LIR7
HG1079_PATCH	LILRA2	ENSG00000270501	ENST00000605148	protein_coding	KNOWN	None	6603	1452	483	55077044	55090812	1	None	LIR-7, ILT1, CD85h, LIR7
HG1079_PATCH	LILRA2	ENSG00000270501	ENST00000605212	protein_coding	KNOWN	None	6603	1401	466	55077046	55090814	1	None	LIR-7, ILT1, CD85h, LIR7
HG1079_PATCH	LILRA2	ENSG00000270501	ENST00000605348	protein_coding	NOVEL	None	6603	1365	454	55077095	55090649	1	None	LIR-7, ILT1, CD85h, LIR7
HG1079_PATCH	LILRA2	ENSG00000270501	ENST00000605708	processed_transcript	KNOWN	None	6603	None	None	55079326	55090801	1	None	LIR-7, ILT1, CD85h, LIR7
HG1079_PATCH	LILRB1	ENSG00000270756	ENST00000603140	protein_coding	KNOWN	None	6605	1953	650	55077133	55140273	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HG1079_PATCH	LILRB1	ENSG00000270756	ENST00000605813	protein_coding	KNOWN	None	6605	1905	634	55077133	55140273	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HG1079_PATCH	LILRB1	ENSG00000270756	ENST00000605114	protein_coding	KNOWN	None	6605	1533	510	55077133	55140273	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HG1079_PATCH	LILRB1	ENSG00000270756	ENST00000605213	protein_coding	KNOWN	None	6605	1953	650	55120412	55140782	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HG1079_PATCH	LILRB1	ENSG00000270756	ENST00000605792	protein_coding	NOVEL	None	6605	1956	651	55133664	55140782	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HG1079_PATCH	LILRB1	ENSG00000270756	ENST00000605248	protein_coding	KNOWN	None	6605	1959	652	55133711	55140782	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HG1079_PATCH	LILRB1	ENSG00000270756	ENST00000605199	protein_coding	KNOWN	None	6605	1953	650	55133711	55140782	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HG1079_PATCH	LILRB1	ENSG00000270756	ENST00000604562	protein_coding	NOVEL	None	6605	1956	651	55133766	55140782	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HG1079_PATCH	LILRB1	ENSG00000270756	ENST00000604147	protein_coding	NOVEL	None	6605	2106	701	55133887	55140444	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HG1079_PATCH	LILRB1	ENSG00000270756	ENST00000604802	protein_coding	NOVEL	None	6605	1905	634	55134328	55140330	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HG1079_PATCH	LILRB1	ENSG00000270756	ENST00000604919	protein_coding	NOVEL	None	6605	1959	652	55134328	55140330	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HG1079_PATCH	LILRB1	ENSG00000270756	ENST00000604020	nonsense_mediated_decay	KNOWN	None	6605	1533	510	55134328	55140330	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HG1079_PATCH	LILRB1	ENSG00000270756	ENST00000603047	processed_transcript	KNOWN	None	6605	None	None	55134516	55135309	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HG1079_PATCH	LILRB1	ENSG00000270756	ENST00000603979	processed_transcript	PUTATIVE	None	6605	None	None	55136380	55137437	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HG1079_PATCH	LILRB1	ENSG00000270756	ENST00000603355	processed_transcript	KNOWN	None	6605	None	None	55136397	55140782	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HG1079_PATCH	LILRB1	ENSG00000270756	ENST00000603142	retained_intron	KNOWN	None	6605	None	None	55137625	55138870	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HG1079_PATCH	LILRB1	ENSG00000270756	ENST00000605024	retained_intron	KNOWN	None	6605	None	None	55138147	55139359	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HG1079_PATCH	None	ENSG00000270219	ENST00000605496	lincRNA	KNOWN	None	None	None	None	55092695	55093541	1	None	None
HG1079_PATCH	LILRA1	ENSG00000271188	ENST00000603508	processed_transcript	KNOWN	None	6602	None	None	55096836	55102974	1	None	LIR-6, CD85i, LIR6
HG1079_PATCH	LILRA1	ENSG00000271188	ENST00000604221	processed_transcript	KNOWN	None	6602	None	None	55096836	55105131	1	None	LIR-6, CD85i, LIR6
HG1079_PATCH	LILRA1	ENSG00000271188	ENST00000605207	protein_coding	KNOWN	None	6602	1470	489	55096902	55104329	1	None	LIR-6, CD85i, LIR6
HG1079_PATCH	LILRA1	ENSG00000271188	ENST00000603258	retained_intron	KNOWN	None	6602	None	None	55096904	55102970	1	None	LIR-6, CD85i, LIR6
HG1079_PATCH	LILRA1	ENSG00000271188	ENST00000605433	protein_coding	NOVEL	None	6602	870	289	55096914	55105344	1	None	LIR-6, CD85i, LIR6
HG1079_PATCH	None	ENSG00000270217	ENST00000604153	unprocessed_pseudogene	KNOWN	None	None	None	None	55111124	55111630	1	None	None
HG1079_PATCH	None	ENSG00000271640	ENST00000603294	miRNA	KNOWN	None	None	None	None	55132646	55132717	-1	None	None
HG1079_PATCH	None	ENSG00000271107	ENST00000604548	protein_coding	PUTATIVE	None	None	201	66	55138976	55142146	-1	None	None
HG1079_PATCH	LILRB4	ENSG00000271326	ENST00000604682	processed_transcript	KNOWN	None	6608	None	None	55147143	55152854	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
HG1079_PATCH	LILRB4	ENSG00000271326	ENST00000603782	protein_coding	KNOWN	None	6608	1347	448	55165382	55173613	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
HG1079_PATCH	LILRB4	ENSG00000271326	ENST00000604043	processed_transcript	KNOWN	None	6608	None	None	55165412	55170953	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
HG1079_PATCH	LILRB4	ENSG00000271326	ENST00000603934	protein_coding	KNOWN	None	6608	1347	448	55165926	55171647	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
HG1079_PATCH	LILRB4	ENSG00000271326	ENST00000603776	protein_coding	NOVEL	None	6608	1344	447	55166249	55171651	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
HG1079_PATCH	LILRB4	ENSG00000271326	ENST00000604394	protein_coding	NOVEL	None	6608	1188	395	55166252	55171651	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
HG1079_PATCH	LILRB4	ENSG00000271326	ENST00000603157	protein_coding	NOVEL	None	6608	1350	449	55166274	55171651	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
HG1079_PATCH	LILRB4	ENSG00000271326	ENST00000603211	protein_coding	PUTATIVE	None	6608	1197	398	55166281	55171047	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
HG1079_PATCH	LILRB4	ENSG00000271326	ENST00000603465	retained_intron	KNOWN	None	6608	None	None	55169052	55170644	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
HG1079_PATCH	LILRB4	ENSG00000271326	ENST00000605479	processed_transcript	KNOWN	None	6608	None	None	55169540	55170292	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
HG1079_PATCH	VN1R105P	ENSG00000271487	ENST00000603638	transcribed_processed_pseudogene	KNOWN	None	37428	None	None	55151198	55152107	1	None	None
HG1079_PATCH	None	ENSG00000271247	ENST00000603880	unprocessed_pseudogene	KNOWN	None	None	None	None	55155339	55155484	1	None	None
HG1079_PATCH	None	ENSG00000270534	ENST00000603983	unprocessed_pseudogene	KNOWN	None	None	None	None	55174485	55175845	1	None	None
HG1079_PATCH	LILRP1	ENSG00000270319	ENST00000605622	unprocessed_pseudogene	KNOWN	None	15496	None	None	55199858	55204159	1	None	ILT9, CD85l, LILRA6P
HG1079_PATCH	None	ENSG00000270247	ENST00000605019	unprocessed_pseudogene	KNOWN	None	None	None	None	55207206	55207489	1	None	None
HG1079_PATCH	None	ENSG00000271619	ENST00000604472	miRNA	NOVEL	None	None	None	None	55209485	55209554	1	None	None
HG1079_PATCH	None	ENSG00000271516	ENST00000605768	processed_transcript	KNOWN	None	None	None	None	55211170	55216707	1	None	None
HG1079_PATCH	LILRP2	ENSG00000270968	ENST00000603348	unprocessed_pseudogene	KNOWN	None	15497	None	None	55211856	55216486	1	None	ILT10, CD85m
HG1079_PATCH	KIR3DL1	ENSG00000271039	ENST00000574618	protein_coding	KNOWN	None	6338	1368	455	55227718	55370248	1	KIR	cl-2, NKB1, cl-11, nkat3, NKB1B, AMB11, CD158e1/2, CD158e1, CD158e2
HG1079_PATCH	KIR3DL1	ENSG00000271039	ENST00000603483	protein_coding	KNOWN	None	6338	1335	444	55227724	55334032	1	KIR	cl-2, NKB1, cl-11, nkat3, NKB1B, AMB11, CD158e1/2, CD158e1, CD158e2
HG1079_PATCH	KIR3DL1	ENSG00000271039	ENST00000603545	protein_coding	KNOWN	None	6338	1284	427	55227727	55334032	1	KIR	cl-2, NKB1, cl-11, nkat3, NKB1B, AMB11, CD158e1/2, CD158e1, CD158e2
HG1079_PATCH	KIR3DL1	ENSG00000271039	ENST00000603295	protein_coding	KNOWN	None	6338	1335	444	55319723	55334033	1	KIR	cl-2, NKB1, cl-11, nkat3, NKB1B, AMB11, CD158e1/2, CD158e1, CD158e2
HG1079_PATCH	KIR3DL1	ENSG00000271039	ENST00000604373	protein_coding	NOVEL	None	6338	1284	427	55319742	55334032	1	KIR	cl-2, NKB1, cl-11, nkat3, NKB1B, AMB11, CD158e1/2, CD158e1, CD158e2
HG1079_PATCH	KIR3DL1	ENSG00000271039	ENST00000605257	protein_coding	NOVEL	None	6338	1050	349	55319745	55334033	1	KIR	cl-2, NKB1, cl-11, nkat3, NKB1B, AMB11, CD158e1/2, CD158e1, CD158e2
HG1079_PATCH	KIR3DL3	ENSG00000271124	ENST00000605796	protein_coding	KNOWN	None	16312	1233	410	55227733	55239790	1	None	KIRC1, KIR3DL7, KIR44, CD158z
HG1079_PATCH	None	ENSG00000271139	ENST00000604496	processed_transcript	KNOWN	None	None	None	None	55227750	55301540	1	None	None
HG1079_PATCH	KIR2DL4	ENSG00000271713	ENST00000603382	protein_coding	KNOWN	None	6332	1194	397	55227751	55317768	1	None	103AS, 15.212, CD158D
HG1079_PATCH	KIR2DL4	ENSG00000271713	ENST00000605643	protein_coding	PUTATIVE	None	6332	822	273	55306866	55317772	1	None	103AS, 15.212, CD158D
HG1079_PATCH	KIR2DL4	ENSG00000271713	ENST00000603698	processed_transcript	KNOWN	None	6332	None	None	55306895	55317772	1	None	103AS, 15.212, CD158D
HG1079_PATCH	KIR2DL4	ENSG00000271713	ENST00000604327	protein_coding	KNOWN	None	6332	1029	342	55306895	55317772	1	None	103AS, 15.212, CD158D
HG1079_PATCH	KIR2DL4	ENSG00000271713	ENST00000605092	protein_coding	KNOWN	None	6332	978	325	55306895	55317772	1	None	103AS, 15.212, CD158D
HG1079_PATCH	KIR2DL4	ENSG00000271713	ENST00000604079	processed_transcript	KNOWN	None	6332	None	None	55306895	55317772	1	None	103AS, 15.212, CD158D
HG1079_PATCH	KIR2DL4	ENSG00000271713	ENST00000604047	protein_coding	KNOWN	None	6332	693	230	55306896	55317377	1	None	103AS, 15.212, CD158D
HG1079_PATCH	KIR2DL4	ENSG00000271713	ENST00000603404	protein_coding	NOVEL	None	6332	744	247	55306907	55317648	1	None	103AS, 15.212, CD158D
HG1079_PATCH	KIR2DL4	ENSG00000271713	ENST00000604007	protein_coding	NOVEL	None	6332	1194	397	55306913	55317772	1	None	103AS, 15.212, CD158D
HG1079_PATCH	KIR2DL3	ENSG00000270787	ENST00000603813	protein_coding	KNOWN	None	6331	1026	341	55241769	55256306	1	None	cl-6, nkat2, nkat2a, nkat2b, p58, CD158B2
HG1079_PATCH	KIR2DL3	ENSG00000270787	ENST00000604693	protein_coding	KNOWN	None	6331	1047	348	55241771	55287579	1	None	cl-6, nkat2, nkat2a, nkat2b, p58, CD158B2
HG1079_PATCH	KIR2DP1	ENSG00000270645	ENST00000604676	unprocessed_pseudogene	KNOWN	None	16344	None	None	55258277	55270625	1	None	KIRZ, KIRY, KIR15, KIR2DL6
HG1079_PATCH	KIR2DL1	ENSG00000270186	ENST00000605027	protein_coding	KNOWN	None	6329	1047	348	55273065	55287577	1	None	cl-42, nkat1, 47.11, p58.1, CD158A
HG1079_PATCH	KIR2DL1	ENSG00000270186	ENST00000603924	protein_coding	NOVEL	None	6329	1125	374	55273079	55287120	1	None	cl-42, nkat1, 47.11, p58.1, CD158A
HG1079_PATCH	KIR3DP1	ENSG00000270481	ENST00000605628	transcribed_unprocessed_pseudogene	KNOWN	None	16343	None	None	55289610	55293573	1	None	KIRX, KIR48, KIR2DS6, KIR3DS2P, CD158C
HG1079_PATCH	KIR2DS4	ENSG00000269642	ENST00000599931	polymorphic_pseudogene	KNOWN	None	6336	893	296	55335931	55351824	1	None	cl-39, KKA3, nkat8, CD158i
HG1079_PATCH	KIR2DS4	ENSG00000269642	ENST00000593676	polymorphic_pseudogene	KNOWN	None	6336	677	224	55336020	55350473	1	None	cl-39, KKA3, nkat8, CD158i
HG1079_PATCH	KIR3DL2	ENSG00000271613	ENST00000603789	protein_coding	KNOWN	None	6339	1368	455	55353698	55370462	1	None	cl-5, nkat4, nkat4a, nkat4b, CD158K
HG1079_PATCH	KIR3DL2	ENSG00000271613	ENST00000604891	protein_coding	NOVEL	None	6339	1317	438	55353731	55370215	1	None	cl-5, nkat4, nkat4a, nkat4b, CD158K
HG1079_PATCH	RNU6-222P	ENSG00000271059	ENST00000603442	snRNA	KNOWN	None	47185	None	None	55372194	55372300	-1	None	None
HG1079_PATCH	FCAR	ENSG00000271210	ENST00000605283	protein_coding	KNOWN	None	3608	540	179	55377503	55393145	1	None	CD89
HG1079_PATCH	FCAR	ENSG00000271210	ENST00000604225	protein_coding	KNOWN	None	3608	720	239	55377535	55392322	1	None	CD89
HG1079_PATCH	FCAR	ENSG00000271210	ENST00000604719	nonsense_mediated_decay	KNOWN	None	3608	684	227	55377535	55392322	1	None	CD89
HG1079_PATCH	FCAR	ENSG00000271210	ENST00000604715	processed_transcript	KNOWN	None	3608	None	None	55377535	55393118	1	None	CD89
HG1079_PATCH	FCAR	ENSG00000271210	ENST00000604959	protein_coding	KNOWN	None	3608	864	287	55377535	55393727	1	None	CD89
HG1079_PATCH	FCAR	ENSG00000271210	ENST00000605332	protein_coding	KNOWN	None	3608	798	265	55377540	55393145	1	None	CD89
HG1079_PATCH	FCAR	ENSG00000271210	ENST00000603446	protein_coding	KNOWN	None	3608	576	191	55377540	55393145	1	None	CD89
HG1079_PATCH	FCAR	ENSG00000271210	ENST00000603443	protein_coding	KNOWN	None	3608	537	178	55377545	55393118	1	None	CD89
HG1079_PATCH	FCAR	ENSG00000271210	ENST00000603273	protein_coding	KNOWN	None	3608	828	275	55377545	55393118	1	None	CD89
HG1079_PATCH	FCAR	ENSG00000271210	ENST00000605765	protein_coding	KNOWN	None	3608	630	209	55377545	55393118	1	None	CD89
HG1079_PATCH	FCAR	ENSG00000271210	ENST00000605825	protein_coding	KNOWN	None	3608	762	253	55377545	55393118	1	None	CD89
HG1079_PATCH	FCAR	ENSG00000271210	ENST00000604537	processed_transcript	KNOWN	None	3608	None	None	55377545	55393118	1	None	CD89
HG1079_PATCH	FCAR	ENSG00000271210	ENST00000603559	processed_transcript	KNOWN	None	3608	None	None	55377545	55393118	1	None	CD89
HG1079_PATCH	None	ENSG00000271067	ENST00000603955	lincRNA	KNOWN	None	None	None	None	55393928	55394675	1	None	None
HG1079_PATCH	NCR1	ENSG00000271000	ENST00000605606	protein_coding	KNOWN	None	6731	915	304	55409405	55416328	1	LY94	NK-p46, NKP46, CD335
HG1079_PATCH	NCR1	ENSG00000271000	ENST00000605090	protein_coding	KNOWN	None	6731	912	303	55409405	55416326	1	LY94	NK-p46, NKP46, CD335
HG1079_PATCH	NCR1	ENSG00000271000	ENST00000603275	retained_intron	KNOWN	None	6731	None	None	55409410	55410033	1	LY94	NK-p46, NKP46, CD335
HG1079_PATCH	NCR1	ENSG00000271000	ENST00000605670	retained_intron	KNOWN	None	6731	None	None	55409410	55412602	1	LY94	NK-p46, NKP46, CD335
HG1079_PATCH	NCR1	ENSG00000271000	ENST00000603990	protein_coding	NOVEL	None	6731	876	291	55409411	55416214	1	LY94	NK-p46, NKP46, CD335
HG1079_PATCH	NCR1	ENSG00000271000	ENST00000605555	protein_coding	KNOWN	None	6731	912	303	55409418	55419395	1	LY94	NK-p46, NKP46, CD335
HG1079_PATCH	NCR1	ENSG00000271000	ENST00000603763	protein_coding	KNOWN	None	6731	630	209	55409436	55416228	1	LY94	NK-p46, NKP46, CD335
HG1079_PATCH	NCR1	ENSG00000271000	ENST00000603586	protein_coding	KNOWN	None	6731	864	287	55409436	55416228	1	LY94	NK-p46, NKP46, CD335
HG1079_PATCH	NCR1	ENSG00000271000	ENST00000605399	protein_coding	NOVEL	None	6731	594	197	55409443	55416126	1	LY94	NK-p46, NKP46, CD335
HG1079_PATCH	NLRP7	ENSG00000270884	ENST00000603510	protein_coding	KNOWN	None	22947	3030	1009	55426764	55450760	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HG1079_PATCH	NLRP7	ENSG00000270884	ENST00000605335	protein_coding	KNOWN	None	22947	2943	980	55426764	55450760	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HG1079_PATCH	NLRP7	ENSG00000270884	ENST00000605774	protein_coding	KNOWN	None	22947	3030	1009	55426765	55445005	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HG1079_PATCH	NLRP7	ENSG00000270884	ENST00000605486	protein_coding	KNOWN	None	22947	2943	980	55426770	55445007	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HG1079_PATCH	NLRP7	ENSG00000270884	ENST00000605016	protein_coding	KNOWN	None	22947	3114	1037	55426770	55469498	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HG1079_PATCH	NLRP7	ENSG00000270884	ENST00000604947	protein_coding	KNOWN	None	22947	3198	1065	55426770	55469498	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HG1079_PATCH	NLRP7	ENSG00000270884	ENST00000605429	nonsense_mediated_decay	KNOWN	None	22947	2892	963	55426907	55450752	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HG1079_PATCH	NLRP7	ENSG00000270884	ENST00000603249	protein_coding	KNOWN	None	22947	3114	1037	55426908	55450752	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HG1079_PATCH	NLRP7	ENSG00000270884	ENST00000605748	protein_coding	KNOWN	None	22947	290	95	55444248	55469508	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HG1079_PATCH	NLRP7	ENSG00000270884	ENST00000603058	protein_coding	KNOWN	None	22947	210	69	55444757	55469567	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HG1079_PATCH	NLRP7	ENSG00000270884	ENST00000604245	protein_coding	KNOWN	None	22947	161	52	55444806	55469498	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HG1079_PATCH	None	ENSG00000271007	ENST00000604943	antisense	KNOWN	None	None	None	None	55454889	55455848	1	None	None
HG1079_PATCH	NLRP2	ENSG00000270370	ENST00000605546	protein_coding	KNOWN	None	22948	420	139	55456385	55484894	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HG1079_PATCH	NLRP2	ENSG00000270370	ENST00000605668	protein_coding	KNOWN	None	22948	373	123	55456423	55481054	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HG1079_PATCH	NLRP2	ENSG00000270370	ENST00000605351	protein_coding	KNOWN	None	22948	463	153	55468325	55484937	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HG1079_PATCH	NLRP2	ENSG00000270370	ENST00000603613	protein_coding	KNOWN	None	22948	3189	1062	55468507	55504397	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HG1079_PATCH	NLRP2	ENSG00000270370	ENST00000603416	retained_intron	KNOWN	None	22948	None	None	55468540	55504397	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HG1079_PATCH	NLRP2	ENSG00000270370	ENST00000605842	protein_coding	KNOWN	None	22948	3117	1038	55468584	55504390	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HG1079_PATCH	NLRP2	ENSG00000270370	ENST00000603440	protein_coding	KNOWN	None	22948	3123	1040	55468591	55504393	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HG1079_PATCH	NLRP2	ENSG00000270370	ENST00000604603	nonsense_mediated_decay	KNOWN	None	22948	330	109	55468599	55484901	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HG1079_PATCH	NLRP2	ENSG00000270370	ENST00000604054	protein_coding	KNOWN	None	22948	3189	1062	55469598	55504395	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HG1079_PATCH	NLRP2	ENSG00000270370	ENST00000604167	protein_coding	KNOWN	None	22948	3123	1040	55469598	55504395	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HG1079_PATCH	NLRP2	ENSG00000270370	ENST00000605361	protein_coding	KNOWN	None	22948	406	134	55469629	55485566	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HG1079_PATCH	NLRP2	ENSG00000270370	ENST00000603681	protein_coding	KNOWN	None	22948	3120	1039	55469629	55504333	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HG1079_PATCH	NLRP2	ENSG00000270370	ENST00000603135	protein_coding	KNOWN	None	22948	3117	1038	55469654	55504388	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HG1079_PATCH	NLRP2	ENSG00000270370	ENST00000604780	protein_coding	NOVEL	None	22948	3180	1059	55469661	55504390	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HG1079_PATCH	NLRP2	ENSG00000270370	ENST00000603617	protein_coding	NOVEL	None	22948	495	164	55477249	55485652	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HG1079_PATCH	NLRP2	ENSG00000270370	ENST00000605718	protein_coding	PUTATIVE	None	22948	592	196	55486741	55489656	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HG1079_PATCH	NLRP2	ENSG00000270370	ENST00000603000	nonsense_mediated_decay	KNOWN	None	22948	267	88	55489461	55497695	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HG1079_PATCH	NLRP2	ENSG00000270370	ENST00000604375	nonsense_mediated_decay	KNOWN	None	22948	28	8	55489547	55493461	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HG1079_PATCH	NLRP2	ENSG00000270370	ENST00000603430	processed_transcript	KNOWN	None	22948	None	None	55493881	55494804	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HG1079_PATCH	NLRP2	ENSG00000270370	ENST00000604618	retained_intron	KNOWN	None	22948	None	None	55496473	55504393	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HG1079_PATCH	None	ENSG00000271279	ENST00000604013	processed_pseudogene	KNOWN	None	None	None	None	55477072	55477672	1	None	None
HG1079_PATCH	None	ENSG00000270594	ENST00000604137	antisense	KNOWN	None	None	None	None	55509448	55551341	1	None	None
HG1079_PATCH	None	ENSG00000270594	ENST00000605068	antisense	KNOWN	None	None	None	None	55509460	55546506	1	None	None
HG1079_PATCH	None	ENSG00000270594	ENST00000604697	antisense	KNOWN	None	None	None	None	55530877	55547572	1	None	None
HG1079_PATCH	GP6	ENSG00000270886	ENST00000603026	protein_coding	KNOWN	None	14388	1020	339	55516960	55541519	-1	None	GPVI
HG1079_PATCH	GP6	ENSG00000270886	ENST00000603929	protein_coding	KNOWN	None	14388	1863	620	55516960	55541519	-1	None	GPVI
HG1079_PATCH	GP6	ENSG00000270886	ENST00000605588	protein_coding	KNOWN	None	14388	966	321	55516960	55541519	-1	None	GPVI
HG1079_PATCH	GP6	ENSG00000270886	ENST00000605831	retained_intron	KNOWN	None	14388	None	None	55517781	55522074	-1	None	GPVI
HG1079_PATCH	GP6	ENSG00000270886	ENST00000605002	protein_coding	PUTATIVE	None	14388	352	116	55530860	55536120	-1	None	GPVI
HG1079_PATCH	None	ENSG00000271206	ENST00000603997	processed_transcript	KNOWN	None	None	None	None	55530848	55557183	-1	None	None
HG1079_PATCH	None	ENSG00000271206	ENST00000605150	processed_transcript	KNOWN	None	None	None	None	55545294	55548204	-1	None	None
HG1079_PATCH	RDH13	ENSG00000270998	ENST00000603572	processed_transcript	KNOWN	None	19978	None	None	55542363	55546362	-1	None	SDR7C3
HG1079_PATCH	RDH13	ENSG00000270998	ENST00000604311	processed_transcript	KNOWN	None	19978	None	None	55542366	55545144	-1	None	SDR7C3
HG1079_PATCH	RDH13	ENSG00000270998	ENST00000604486	nonsense_mediated_decay	KNOWN	None	19978	108	35	55542366	55566331	-1	None	SDR7C3
HG1079_PATCH	RDH13	ENSG00000270998	ENST00000605198	protein_coding	KNOWN	None	19978	996	331	55547598	55566431	-1	None	SDR7C3
HG1079_PATCH	RDH13	ENSG00000270998	ENST00000603710	nonsense_mediated_decay	KNOWN	None	19978	663	220	55547598	55567088	-1	None	SDR7C3
HG1079_PATCH	RDH13	ENSG00000270998	ENST00000605488	protein_coding	KNOWN	None	19978	783	260	55547598	55572784	-1	None	SDR7C3
HG1079_PATCH	RDH13	ENSG00000270998	ENST00000605828	nonsense_mediated_decay	KNOWN	None	19978	663	220	55548110	55566341	-1	None	SDR7C3
HG1079_PATCH	RDH13	ENSG00000270998	ENST00000604638	nonsense_mediated_decay	KNOWN	None	19978	108	35	55550668	55566403	-1	None	SDR7C3
HG1079_PATCH	RDH13	ENSG00000270998	ENST00000603318	processed_transcript	KNOWN	None	19978	None	None	55551912	55562429	-1	None	SDR7C3
HG1079_PATCH	RDH13	ENSG00000270998	ENST00000604124	processed_transcript	KNOWN	None	19978	None	None	55554129	55566374	-1	None	SDR7C3
HG1079_PATCH	RDH13	ENSG00000270998	ENST00000603522	protein_coding	KNOWN	None	19978	127	41	55559908	55572784	-1	None	SDR7C3
HG1079_PATCH	RDH13	ENSG00000270998	ENST00000603574	protein_coding	KNOWN	None	19978	88	28	55562508	55572795	-1	None	SDR7C3
HG1079_PATCH	RDH13	ENSG00000270998	ENST00000604559	processed_transcript	KNOWN	None	19978	None	None	55566296	55567623	-1	None	SDR7C3
HG1079_PATCH	RDH13	ENSG00000270998	ENST00000603627	processed_transcript	KNOWN	None	19978	None	None	55566475	55572795	-1	None	SDR7C3
HG1079_PATCH	RDH13	ENSG00000270998	ENST00000604068	processed_transcript	KNOWN	None	19978	None	None	55566526	55572775	-1	None	SDR7C3
HG1079_PATCH	RDH13	ENSG00000270998	ENST00000603146	processed_transcript	KNOWN	None	19978	None	None	55566763	55572778	-1	None	SDR7C3
HG1079_PATCH	RDH13	ENSG00000270998	ENST00000604850	processed_transcript	KNOWN	None	19978	None	None	55567007	55572746	-1	None	SDR7C3
HG1079_PATCH	RDH13	ENSG00000270998	ENST00000603551	processed_transcript	KNOWN	None	19978	None	None	55567156	55572786	-1	None	SDR7C3
HG1079_PATCH	RDH13	ENSG00000270998	ENST00000603874	processed_transcript	KNOWN	None	19978	None	None	55567203	55574546	-1	None	SDR7C3
HG1079_PATCH	RDH13	ENSG00000270998	ENST00000604889	processed_transcript	KNOWN	None	19978	None	None	55567295	55573147	-1	None	SDR7C3
HG1079_PATCH	RDH13	ENSG00000270998	ENST00000605727	processed_transcript	KNOWN	None	19978	None	None	55570450	55572757	-1	None	SDR7C3
HG1079_PATCH	EPS8L1	ENSG00000270836	ENST00000604540	protein_coding	NOVEL	None	21295	1647	548	55575275	55591174	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HG1079_PATCH	EPS8L1	ENSG00000270836	ENST00000603458	processed_transcript	KNOWN	None	21295	None	None	55579108	55587240	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HG1079_PATCH	EPS8L1	ENSG00000270836	ENST00000604061	retained_intron	KNOWN	None	21295	None	None	55579143	55583631	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HG1079_PATCH	EPS8L1	ENSG00000270836	ENST00000604610	protein_coding	KNOWN	None	21295	2172	723	55579156	55591177	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HG1079_PATCH	EPS8L1	ENSG00000270836	ENST00000602995	protein_coding	NOVEL	None	21295	1980	659	55579158	55591103	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HG1079_PATCH	EPS8L1	ENSG00000270836	ENST00000603065	nonsense_mediated_decay	KNOWN	None	21295	1287	428	55579611	55589147	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HG1079_PATCH	EPS8L1	ENSG00000270836	ENST00000604945	retained_intron	KNOWN	None	21295	None	None	55582840	55583438	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HG1079_PATCH	EPS8L1	ENSG00000270836	ENST00000604277	protein_coding	NOVEL	None	21295	1230	409	55583647	55590944	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HG1079_PATCH	EPS8L1	ENSG00000270836	ENST00000603724	protein_coding	KNOWN	None	21295	1791	596	55583647	55591174	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HG1079_PATCH	EPS8L1	ENSG00000270836	ENST00000604974	retained_intron	KNOWN	None	21295	None	None	55583692	55584582	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HG1079_PATCH	EPS8L1	ENSG00000270836	ENST00000604459	retained_intron	KNOWN	None	21295	None	None	55584287	55585129	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HG1079_PATCH	EPS8L1	ENSG00000270836	ENST00000604989	retained_intron	KNOWN	None	21295	None	None	55584947	55586659	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HG1079_PATCH	EPS8L1	ENSG00000270836	ENST00000605313	retained_intron	KNOWN	None	21295	None	None	55584948	55586735	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HG1079_PATCH	EPS8L1	ENSG00000270836	ENST00000604118	retained_intron	KNOWN	None	21295	None	None	55584948	55591177	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HG1079_PATCH	EPS8L1	ENSG00000270836	ENST00000603092	retained_intron	KNOWN	None	21295	None	None	55585193	55591178	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HG1079_PATCH	EPS8L1	ENSG00000270836	ENST00000605790	processed_transcript	KNOWN	None	21295	None	None	55587720	55589690	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HG1079_PATCH	EPS8L1	ENSG00000270836	ENST00000603623	retained_intron	KNOWN	None	21295	None	None	55588950	55589447	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HG1079_PATCH	EPS8L1	ENSG00000270836	ENST00000605171	processed_transcript	KNOWN	None	21295	None	None	55590032	55591175	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HG1079_PATCH	EPS8L1	ENSG00000270836	ENST00000603204	retained_intron	KNOWN	None	21295	None	None	55590324	55591160	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HG29_PATCH	SLC9A7	ENSG00000271342	ENST00000605845	protein_coding	KNOWN	None	17123	2178	725	46464753	46618490	-1	None	NHE7
HG29_PATCH	SLC9A7	ENSG00000271342	ENST00000605255	processed_transcript	KNOWN	None	17123	None	None	46465696	46495069	-1	None	NHE7
HG29_PATCH	SLC9A7	ENSG00000271342	ENST00000603945	processed_transcript	KNOWN	None	17123	None	None	46465730	46480451	-1	None	NHE7
HG29_PATCH	SLC9A7	ENSG00000271342	ENST00000605763	processed_transcript	KNOWN	None	17123	None	None	46465730	46529121	-1	None	NHE7
HG29_PATCH	RP2	ENSG00000271091	ENST00000603075	protein_coding	KNOWN	None	10274	1053	350	46696375	46741793	1	None	TBCCD2, NME10, NM23-H10
HG29_PATCH	CXorf31	ENSG00000270459	ENST00000605018	protein_coding	KNOWN	None	17986	240	79	46746852	46759138	-1	None	OTTHUMG00000021429
HG29_PATCH	None	ENSG00000271363	ENST00000604041	protein_coding	KNOWN	None	None	2472	823	46771868	46920676	1	None	None
HG29_PATCH	RGN	ENSG00000270349	ENST00000605133	protein_coding	KNOWN	None	9989	900	299	46937811	46952748	1	None	SMP30, RC
HG29_PATCH	RGN	ENSG00000270349	ENST00000604471	protein_coding	KNOWN	None	9989	684	227	46937811	46952748	1	None	SMP30, RC
HG29_PATCH	RGN	ENSG00000270349	ENST00000604038	protein_coding	KNOWN	None	9989	900	299	46937815	46952748	1	None	SMP30, RC
HG29_PATCH	RGN	ENSG00000270349	ENST00000605145	processed_transcript	KNOWN	None	9989	None	None	46937860	46944396	1	None	SMP30, RC
HG29_PATCH	RGN	ENSG00000270349	ENST00000604343	protein_coding	KNOWN	None	9989	900	299	46940294	46952745	1	None	SMP30, RC
HG29_PATCH	RGN	ENSG00000270349	ENST00000603190	processed_transcript	KNOWN	None	9989	None	None	46943973	46952743	1	None	SMP30, RC
HG29_PATCH	RNU6-1189P	ENSG00000270253	ENST00000605116	snRNA	KNOWN	None	48152	None	None	46946941	46947047	1	None	None
HG29_PATCH	RNU12-2P	ENSG00000271665	ENST00000604783	snRNA	KNOWN	None	10109	None	None	46992106	46992261	1	RNU12, RNU12P	U12
HG29_PATCH	NDUFB11	ENSG00000270272	ENST00000603101	protein_coding	KNOWN	None	20372	462	153	47001651	47004939	-1	None	ESSS, NP17.3, Np15
HG29_PATCH	NDUFB11	ENSG00000270272	ENST00000605840	protein_coding	KNOWN	None	20372	492	163	47001655	47004473	-1	None	ESSS, NP17.3, Np15
HG29_PATCH	RBM10	ENSG00000271352	ENST00000603045	protein_coding	KNOWN	None	9896	2793	930	47004304	47046246	1	None	DXS8237E, KIAA0122, GPATC9, ZRANB5, GPATCH9
HG29_PATCH	RBM10	ENSG00000271352	ENST00000604576	processed_transcript	KNOWN	None	9896	None	None	47004664	47046247	1	None	DXS8237E, KIAA0122, GPATC9, ZRANB5, GPATCH9
HG29_PATCH	RBM10	ENSG00000271352	ENST00000604931	protein_coding	KNOWN	None	9896	2559	852	47004667	47046247	1	None	DXS8237E, KIAA0122, GPATC9, ZRANB5, GPATCH9
HG29_PATCH	RBM10	ENSG00000271352	ENST00000603922	protein_coding	KNOWN	None	9896	2562	853	47004714	47046248	1	None	DXS8237E, KIAA0122, GPATC9, ZRANB5, GPATCH9
HG29_PATCH	RBM10	ENSG00000271352	ENST00000603394	processed_transcript	KNOWN	None	9896	None	None	47034447	47046076	1	None	DXS8237E, KIAA0122, GPATC9, ZRANB5, GPATCH9
HG29_PATCH	RBM10	ENSG00000271352	ENST00000603367	processed_transcript	KNOWN	None	9896	None	None	47038750	47040978	1	None	DXS8237E, KIAA0122, GPATC9, ZRANB5, GPATCH9
HG29_PATCH	None	ENSG00000270803	ENST00000604353	processed_pseudogene	KNOWN	None	None	None	None	47016073	47017634	-1	None	None
HG29_PATCH	UBA1	ENSG00000271310	ENST00000604887	protein_coding	KNOWN	None	12469	3177	1058	47050296	47074563	1	A1S9T, GXP1, UBE1	UBE1X, POC20
HG29_PATCH	UBA1	ENSG00000271310	ENST00000605705	protein_coding	KNOWN	None	12469	812	269	47050834	47061046	1	A1S9T, GXP1, UBE1	UBE1X, POC20
HG29_PATCH	UBA1	ENSG00000271310	ENST00000605747	protein_coding	KNOWN	None	12469	521	172	47050858	47059048	1	A1S9T, GXP1, UBE1	UBE1X, POC20
HG29_PATCH	UBA1	ENSG00000271310	ENST00000604856	protein_coding	KNOWN	None	12469	853	283	47053264	47061045	1	A1S9T, GXP1, UBE1	UBE1X, POC20
HG29_PATCH	UBA1	ENSG00000271310	ENST00000605826	protein_coding	KNOWN	None	12469	585	194	47053272	47059001	1	A1S9T, GXP1, UBE1	UBE1X, POC20
HG29_PATCH	UBA1	ENSG00000271310	ENST00000605619	protein_coding	KNOWN	None	12469	3177	1058	47053277	47074563	1	A1S9T, GXP1, UBE1	UBE1X, POC20
HG29_PATCH	UBA1	ENSG00000271310	ENST00000605510	protein_coding	KNOWN	None	12469	702	233	47056634	47060397	1	A1S9T, GXP1, UBE1	UBE1X, POC20
HG29_PATCH	UBA1	ENSG00000271310	ENST00000603707	processed_transcript	KNOWN	None	12469	None	None	47062128	47066099	1	A1S9T, GXP1, UBE1	UBE1X, POC20
HG29_PATCH	UBA1	ENSG00000271310	ENST00000603010	protein_coding	KNOWN	None	12469	1521	506	47067997	47074561	1	A1S9T, GXP1, UBE1	UBE1X, POC20
HG29_PATCH	INE1	ENSG00000271674	ENST00000605652	protein_coding	KNOWN	None	6060	156	51	47064356	47065300	1	None	NCRNA00010
HG29_PATCH	CDK16	ENSG00000270633	ENST00000605220	processed_transcript	KNOWN	None	8749	None	None	47077295	47081815	1	PCTK1	PCTAIRE, PCTAIRE1, PCTGAIRE, FLJ16665
HG29_PATCH	CDK16	ENSG00000270633	ENST00000605517	processed_transcript	KNOWN	None	8749	None	None	47077462	47081765	1	PCTK1	PCTAIRE, PCTAIRE1, PCTGAIRE, FLJ16665
HG29_PATCH	CDK16	ENSG00000270633	ENST00000604531	protein_coding	KNOWN	None	8749	1509	502	47077668	47089432	1	PCTK1	PCTAIRE, PCTAIRE1, PCTGAIRE, FLJ16665
HG29_PATCH	CDK16	ENSG00000270633	ENST00000603554	protein_coding	KNOWN	None	8749	171	56	47077746	47083163	1	PCTK1	PCTAIRE, PCTAIRE1, PCTGAIRE, FLJ16665
HG29_PATCH	CDK16	ENSG00000270633	ENST00000605441	nonsense_mediated_decay	KNOWN	None	8749	252	83	47077822	47083908	1	PCTK1	PCTAIRE, PCTAIRE1, PCTGAIRE, FLJ16665
HG29_PATCH	CDK16	ENSG00000270633	ENST00000605853	protein_coding	KNOWN	None	8749	1491	496	47078123	47089432	1	PCTK1	PCTAIRE, PCTAIRE1, PCTGAIRE, FLJ16665
HG29_PATCH	CDK16	ENSG00000270633	ENST00000603081	protein_coding	KNOWN	None	8749	450	149	47078126	47084166	1	PCTK1	PCTAIRE, PCTAIRE1, PCTGAIRE, FLJ16665
HG29_PATCH	CDK16	ENSG00000270633	ENST00000605563	protein_coding	KNOWN	None	8749	459	152	47078145	47084175	1	PCTK1	PCTAIRE, PCTAIRE1, PCTGAIRE, FLJ16665
HG29_PATCH	CDK16	ENSG00000270633	ENST00000605084	protein_coding	PUTATIVE	None	8749	1180	392	47078153	47088850	1	PCTK1	PCTAIRE, PCTAIRE1, PCTGAIRE, FLJ16665
HG29_PATCH	CDK16	ENSG00000270633	ENST00000603071	retained_intron	KNOWN	None	8749	None	None	47078211	47086013	1	PCTK1	PCTAIRE, PCTAIRE1, PCTGAIRE, FLJ16665
HG29_PATCH	CDK16	ENSG00000270633	ENST00000604211	protein_coding	KNOWN	None	8749	568	188	47081567	47084471	1	PCTK1	PCTAIRE, PCTAIRE1, PCTGAIRE, FLJ16665
HG29_PATCH	CDK16	ENSG00000270633	ENST00000603555	retained_intron	KNOWN	None	8749	None	None	47082288	47088425	1	PCTK1	PCTAIRE, PCTAIRE1, PCTGAIRE, FLJ16665
HG29_PATCH	CDK16	ENSG00000270633	ENST00000605184	protein_coding	KNOWN	None	8749	1491	496	47082444	47088425	1	PCTK1	PCTAIRE, PCTAIRE1, PCTGAIRE, FLJ16665
HG29_PATCH	CDK16	ENSG00000270633	ENST00000603165	protein_coding	KNOWN	None	8749	1713	570	47082453	47089428	1	PCTK1	PCTAIRE, PCTAIRE1, PCTGAIRE, FLJ16665
HG29_PATCH	CDK16	ENSG00000270633	ENST00000605458	protein_coding	PUTATIVE	None	8749	454	150	47083073	47084479	1	PCTK1	PCTAIRE, PCTAIRE1, PCTGAIRE, FLJ16665
HG29_PATCH	CDK16	ENSG00000270633	ENST00000604398	protein_coding	NOVEL	None	8749	783	260	47085400	47088686	1	PCTK1	PCTAIRE, PCTAIRE1, PCTGAIRE, FLJ16665
HG29_PATCH	CDK16	ENSG00000270633	ENST00000605721	retained_intron	KNOWN	None	8749	None	None	47085531	47086658	1	PCTK1	PCTAIRE, PCTAIRE1, PCTGAIRE, FLJ16665
HG29_PATCH	CDK16	ENSG00000270633	ENST00000604852	retained_intron	KNOWN	None	8749	None	None	47085927	47086887	1	PCTK1	PCTAIRE, PCTAIRE1, PCTGAIRE, FLJ16665
HG29_PATCH	CDK16	ENSG00000270633	ENST00000603480	retained_intron	KNOWN	None	8749	None	None	47086558	47087578	1	PCTK1	PCTAIRE, PCTAIRE1, PCTGAIRE, FLJ16665
HG29_PATCH	CDK16	ENSG00000270633	ENST00000604607	protein_coding	PUTATIVE	None	8749	498	165	47086616	47088426	1	PCTK1	PCTAIRE, PCTAIRE1, PCTGAIRE, FLJ16665
HG29_PATCH	CDK16	ENSG00000270633	ENST00000604806	protein_coding	PUTATIVE	None	8749	253	83	47086616	47088906	1	PCTK1	PCTAIRE, PCTAIRE1, PCTGAIRE, FLJ16665
HG29_PATCH	CDK16	ENSG00000270633	ENST00000604462	retained_intron	KNOWN	None	8749	None	None	47087639	47088251	1	PCTK1	PCTAIRE, PCTAIRE1, PCTGAIRE, FLJ16665
HG1436_HG1432_PATCH	None	ENSG00000268921	ENST00000596316	processed_pseudogene	KNOWN	None	None	None	None	47636226	47638096	-1	None	None
HG1436_HG1432_PATCH	WASF4P	ENSG00000268625	ENST00000599502	processed_pseudogene	KNOWN	None	20801	None	None	47657325	47664188	1	WASF4	None
HG1436_HG1432_PATCH	WASF4P	ENSG00000268625	ENST00000596429	processed_pseudogene	KNOWN	None	20801	None	None	47662695	47664188	1	WASF4	None
HG1436_HG1432_PATCH	None	ENSG00000269824	ENST00000593401	protein_coding	KNOWN	None	None	732	243	47695352	47696192	-1	None	None
HG1436_HG1432_PATCH	ZNF81	ENSG00000269594	ENST00000593953	protein_coding	KNOWN	None	13156	1986	661	47696301	47781610	1	MRX45	HFZ20
HG1436_HG1432_PATCH	ZNF81	ENSG00000269594	ENST00000599945	protein_coding	KNOWN	None	13156	1986	661	47696301	47781655	1	MRX45	HFZ20
HG1436_HG1432_PATCH	ZNF81	ENSG00000269594	ENST00000596817	protein_coding	KNOWN	None	13156	210	69	47696345	47747609	1	MRX45	HFZ20
HG1436_HG1432_PATCH	ZNF81	ENSG00000269594	ENST00000595688	protein_coding	KNOWN	None	13156	311	102	47696369	47861960	1	MRX45	HFZ20
HG1436_HG1432_PATCH	ZNF81	ENSG00000269594	ENST00000598655	processed_transcript	KNOWN	None	13156	None	None	47705572	47720444	1	MRX45	HFZ20
HG1436_HG1432_PATCH	RPL7P57	ENSG00000269123	ENST00000594420	processed_pseudogene	KNOWN	None	35901	None	None	47700362	47701101	-1	None	None
HG1436_HG1432_PATCH	ZNF182	ENSG00000269334	ENST00000599989	protein_coding	NOVEL	None	13001	1863	620	47834250	47863354	-1	ZNF21	KOX14, HHZ150, Zfp182
HG1436_HG1432_PATCH	ZNF182	ENSG00000269334	ENST00000601062	protein_coding	KNOWN	None	13001	1920	639	47834251	47863377	-1	ZNF21	KOX14, HHZ150, Zfp182
HG1436_HG1432_PATCH	ZNF182	ENSG00000269334	ENST00000600852	protein_coding	KNOWN	None	13001	1920	639	47834259	47863377	-1	ZNF21	KOX14, HHZ150, Zfp182
HG1436_HG1432_PATCH	ZNF630	ENSG00000269649	ENST00000598722	nonsense_mediated_decay	KNOWN	None	28855	267	88	47842755	47930540	-1	None	BC037316, dJ54B20.2, FLJ20573, MGC138344
HG1436_HG1432_PATCH	ZNF630	ENSG00000269649	ENST00000600445	protein_coding	KNOWN	None	28855	1932	643	47917581	47931033	-1	None	BC037316, dJ54B20.2, FLJ20573, MGC138344
HG1436_HG1432_PATCH	ZNF630	ENSG00000269649	ENST00000600631	protein_coding	KNOWN	None	28855	1974	657	47917613	47930515	-1	None	BC037316, dJ54B20.2, FLJ20573, MGC138344
HG1436_HG1432_PATCH	ZNF630	ENSG00000269649	ENST00000599149	protein_coding	NOVEL	None	28855	1602	533	47917613	47931057	-1	None	BC037316, dJ54B20.2, FLJ20573, MGC138344
HG1436_HG1432_PATCH	ZNF630	ENSG00000269649	ENST00000597631	protein_coding	KNOWN	None	28855	644	213	47919197	47931033	-1	None	BC037316, dJ54B20.2, FLJ20573, MGC138344
HG1436_HG1432_PATCH	ZNF630	ENSG00000269649	ENST00000595420	protein_coding	NOVEL	None	28855	122	39	47919347	47926459	-1	None	BC037316, dJ54B20.2, FLJ20573, MGC138344
HG1436_HG1432_PATCH	SPACA5	ENSG00000268260	ENST00000597249	protein_coding	KNOWN	None	31353	480	159	47863735	47869128	1	None	SLLP2, LYZL5, LYC5, UNQ6288, dJ54B20.3, PNPK6288
HG1436_HG1432_PATCH	SPACA5	ENSG00000268260	ENST00000593552	protein_coding	KNOWN	None	31353	480	159	47867195	47869128	1	None	SLLP2, LYZL5, LYC5, UNQ6288, dJ54B20.3, PNPK6288
HG1436_HG1432_PATCH	None	ENSG00000267933	ENST00000600867	snoRNA	NOVEL	None	None	None	None	47941166	47941269	1	None	None
HG1436_HG1432_PATCH	SSX6	ENSG00000269673	ENST00000594102	protein_coding	KNOWN	None	19652	567	188	47967379	47980090	1	SSXP2	psiSSX2
HG1436_HG1432_PATCH	SSX6	ENSG00000269673	ENST00000601554	protein_coding	KNOWN	None	19652	273	90	47967381	47980085	1	SSXP2	psiSSX2
HG1436_HG1432_PATCH	SSX6	ENSG00000269673	ENST00000600939	retained_intron	KNOWN	None	19652	None	None	47967391	47973710	1	SSXP2	psiSSX2
HG1436_HG1432_PATCH	SSX6	ENSG00000269673	ENST00000595025	nonsense_mediated_decay	KNOWN	None	19652	165	54	47976483	47979609	1	SSXP2	psiSSX2
HG1436_HG1432_PATCH	SPACA5B	ENSG00000268393	ENST00000594756	protein_coding	KNOWN	None	19142	480	159	47990056	47992012	1	None	None
HG1436_HG1432_PATCH	None	ENSG00000268082	ENST00000597763	processed_pseudogene	KNOWN	None	None	None	None	47995057	47995558	-1	None	None
HG1436_HG1432_PATCH	None	ENSG00000269287	ENST00000599623	processed_pseudogene	KNOWN	None	None	None	None	48013267	48015340	-1	None	None
HG1436_HG1432_PATCH	RNU6-707P	ENSG00000268263	ENST00000597538	snRNA	KNOWN	None	47670	None	None	48013379	48013473	-1	None	None
HG1436_HG1432_PATCH	None	ENSG00000269632	ENST00000594352	unprocessed_pseudogene	KNOWN	None	None	None	None	48015766	48025749	1	None	None
HG1436_HG1432_PATCH	None	ENSG00000268092	ENST00000595795	processed_pseudogene	KNOWN	None	None	None	None	48037130	48037422	-1	None	None
HG1436_HG1432_PATCH	SSX5	ENSG00000268256	ENST00000594778	protein_coding	KNOWN	None	11339	567	188	48045619	48054757	-1	None	None
HG1436_HG1432_PATCH	SSX5	ENSG00000268256	ENST00000594016	protein_coding	KNOWN	None	11339	690	229	48045619	48056162	-1	None	None
HG1436_HG1432_PATCH	SSX5	ENSG00000268256	ENST00000596327	protein_coding	KNOWN	None	11339	567	188	48045619	48056162	-1	None	None
HG1436_HG1432_PATCH	SSX5	ENSG00000268256	ENST00000602241	protein_coding	KNOWN	None	11339	387	128	48046174	48051780	-1	None	None
HG1436_HG1432_PATCH	None	ENSG00000267999	ENST00000594495	processed_pseudogene	KNOWN	None	None	None	None	48056620	48058830	1	None	None
HG1436_HG1432_PATCH	RNA5SP503	ENSG00000268610	ENST00000597929	rRNA	KNOWN	None	43403	None	None	48065657	48065773	1	RN5S503	None
HG1436_HG1432_PATCH	None	ENSG00000269567	ENST00000596868	processed_pseudogene	KNOWN	None	None	None	None	48072190	48077409	1	None	None
HG1436_HG1432_PATCH	None	ENSG00000269567	ENST00000597241	processed_pseudogene	KNOWN	None	None	None	None	48072190	48074041	1	None	None
HG1436_HG1432_PATCH	None	ENSG00000268962	ENST00000596790	processed_pseudogene	KNOWN	None	None	None	None	48088232	48088358	-1	None	None
HG1436_HG1432_PATCH	None	ENSG00000268118	ENST00000594888	processed_pseudogene	KNOWN	None	None	None	None	48104293	48105144	1	None	None
HG1436_HG1432_PATCH	SSX1	ENSG00000268546	ENST00000596574	protein_coding	KNOWN	None	11335	567	188	48114716	48126843	1	None	CT5.1
HG1436_HG1432_PATCH	None	ENSG00000269561	ENST00000598171	processed_pseudogene	KNOWN	None	None	None	None	48134303	48134446	-1	None	None
HG1436_HG1432_PATCH	None	ENSG00000268124	ENST00000596618	unprocessed_pseudogene	KNOWN	None	None	None	None	48136103	48136977	-1	None	None
HG1436_HG1432_PATCH	None	ENSG00000269683	ENST00000601269	processed_pseudogene	KNOWN	None	None	None	None	48138822	48141191	1	None	None
HG1436_HG1432_PATCH	SSX9	ENSG00000269306	ENST00000600668	protein_coding	KNOWN	None	19655	567	188	48154849	48165639	-1	None	None
HG1436_HG1432_PATCH	SSX9	ENSG00000269306	ENST00000598348	protein_coding	KNOWN	None	19655	567	188	48156219	48165578	-1	None	None
HG1436_HG1432_PATCH	None	ENSG00000268022	ENST00000599383	processed_pseudogene	KNOWN	None	None	None	None	48166168	48168454	1	None	None
HG1436_HG1432_PATCH	None	ENSG00000268793	ENST00000598954	unprocessed_pseudogene	KNOWN	None	None	None	None	48181748	48186082	1	None	None
HG1436_HG1432_PATCH	None	ENSG00000268952	ENST00000602120	lincRNA	KNOWN	None	None	None	None	48193074	48193838	-1	None	None
HG1436_HG1432_PATCH	None	ENSG00000270603	ENST00000603625	processed_pseudogene	KNOWN	None	None	None	None	48196298	48196568	-1	None	None
HG1436_HG1432_PATCH	SSX3	ENSG00000269122	ENST00000596036	protein_coding	KNOWN	None	11337	567	188	48205827	48216065	-1	None	CT5.3
HG1436_HG1432_PATCH	SSX3	ENSG00000269122	ENST00000595320	protein_coding	KNOWN	None	11337	303	100	48206025	48211646	-1	None	CT5.3
HG1436_HG1432_PATCH	SSX3	ENSG00000269122	ENST00000594782	protein_coding	KNOWN	None	11337	513	170	48207656	48216106	-1	None	CT5.3
HG1436_HG1432_PATCH	None	ENSG00000268917	ENST00000595664	processed_pseudogene	KNOWN	None	None	None	None	48216524	48218894	1	None	None
HG1436_HG1432_PATCH	None	ENSG00000269144	ENST00000601894	processed_pseudogene	KNOWN	None	None	None	None	48231304	48231494	1	None	None
HG1436_HG1432_PATCH	None	ENSG00000268009	ENST00000595689	protein_coding	KNOWN	None	None	567	188	48242915	48252742	1	None	None
HG1436_HG1432_PATCH	None	ENSG00000269791	ENST00000595235	protein_coding	KNOWN	None	None	567	188	48261481	48271309	-1	None	None
HG1436_HG1432_PATCH	None	ENSG00000268611	ENST00000601698	processed_pseudogene	KNOWN	None	None	None	None	48282741	48282867	-1	None	None
HG1436_HG1432_PATCH	None	ENSG00000268197	ENST00000595657	unprocessed_pseudogene	KNOWN	None	None	None	None	48292600	48301018	1	None	None
HG1436_HG1432_PATCH	None	ENSG00000267887	ENST00000597031	processed_pseudogene	KNOWN	None	None	None	None	48306292	48308278	-1	None	None
HG1436_HG1432_PATCH	None	ENSG00000269587	ENST00000595796	protein_coding	KNOWN	None	None	1419	472	48317944	48329576	-1	None	None
HG1436_HG1432_PATCH	FTSJ1	ENSG00000269875	ENST00000598465	processed_transcript	KNOWN	None	13254	None	None	48335552	48341883	1	MRX9, MRX44	JM23, CDLIV, SPB1, TRM7, TRMT7
HG1436_HG1432_PATCH	FTSJ1	ENSG00000269875	ENST00000601551	protein_coding	KNOWN	None	13254	984	327	48335560	48345698	1	MRX9, MRX44	JM23, CDLIV, SPB1, TRM7, TRMT7
HG1436_HG1432_PATCH	FTSJ1	ENSG00000269875	ENST00000597753	protein_coding	KNOWN	None	13254	990	329	48335560	48345704	1	MRX9, MRX44	JM23, CDLIV, SPB1, TRM7, TRMT7
HG1436_HG1432_PATCH	FTSJ1	ENSG00000269875	ENST00000595294	protein_coding	KNOWN	None	13254	579	192	48335596	48345697	1	MRX9, MRX44	JM23, CDLIV, SPB1, TRM7, TRMT7
HG1436_HG1432_PATCH	FTSJ1	ENSG00000269875	ENST00000600037	processed_transcript	KNOWN	None	13254	None	None	48335602	48338469	1	MRX9, MRX44	JM23, CDLIV, SPB1, TRM7, TRMT7
HG1436_HG1432_PATCH	FTSJ1	ENSG00000269875	ENST00000600743	processed_transcript	KNOWN	None	13254	None	None	48335617	48342003	1	MRX9, MRX44	JM23, CDLIV, SPB1, TRM7, TRMT7
HG1436_HG1432_PATCH	FTSJ1	ENSG00000269875	ENST00000599667	processed_transcript	KNOWN	None	13254	None	None	48335659	48338515	1	MRX9, MRX44	JM23, CDLIV, SPB1, TRM7, TRMT7
HG1436_HG1432_PATCH	FTSJ1	ENSG00000269875	ENST00000594571	protein_coding	KNOWN	None	13254	984	327	48337391	48345763	1	MRX9, MRX44	JM23, CDLIV, SPB1, TRM7, TRMT7
HG1436_HG1432_PATCH	FTSJ1	ENSG00000269875	ENST00000593449	processed_transcript	KNOWN	None	13254	None	None	48338080	48342353	1	MRX9, MRX44	JM23, CDLIV, SPB1, TRM7, TRMT7
HG1436_HG1432_PATCH	FTSJ1	ENSG00000269875	ENST00000598829	processed_transcript	KNOWN	None	13254	None	None	48338437	48345710	1	MRX9, MRX44	JM23, CDLIV, SPB1, TRM7, TRMT7
HG1436_HG1432_PATCH	FTSJ1	ENSG00000269875	ENST00000601262	processed_transcript	KNOWN	None	13254	None	None	48340564	48342353	1	MRX9, MRX44	JM23, CDLIV, SPB1, TRM7, TRMT7
HG1436_HG1432_PATCH	FTSJ1	ENSG00000269875	ENST00000598140	processed_transcript	KNOWN	None	13254	None	None	48340825	48345215	1	MRX9, MRX44	JM23, CDLIV, SPB1, TRM7, TRMT7
HG1436_HG1432_PATCH	FTSJ1	ENSG00000269875	ENST00000594955	processed_transcript	KNOWN	None	13254	None	None	48340881	48342353	1	MRX9, MRX44	JM23, CDLIV, SPB1, TRM7, TRMT7
HG1436_HG1432_PATCH	FTSJ1	ENSG00000269875	ENST00000597764	processed_transcript	KNOWN	None	13254	None	None	48341031	48345383	1	MRX9, MRX44	JM23, CDLIV, SPB1, TRM7, TRMT7
HG1436_HG1432_PATCH	None	ENSG00000269090	ENST00000593433	antisense	KNOWN	None	None	None	None	48365922	48368237	-1	None	None
HG1436_HG1432_PATCH	PORCN	ENSG00000268138	ENST00000593935	protein_coding	KNOWN	None	17652	1368	455	48368361	48380205	1	None	MG61, PORC, PPN, por
HG1436_HG1432_PATCH	PORCN	ENSG00000268138	ENST00000593856	processed_transcript	KNOWN	None	17652	None	None	48368365	48370774	1	None	MG61, PORC, PPN, por
HG1436_HG1432_PATCH	PORCN	ENSG00000268138	ENST00000599083	protein_coding	KNOWN	None	17652	1386	461	48368387	48379875	1	None	MG61, PORC, PPN, por
HG1436_HG1432_PATCH	PORCN	ENSG00000268138	ENST00000594578	nonsense_mediated_decay	KNOWN	None	17652	153	50	48368391	48380207	1	None	MG61, PORC, PPN, por
HG1436_HG1432_PATCH	PORCN	ENSG00000268138	ENST00000597627	nonsense_mediated_decay	KNOWN	None	17652	261	86	48368393	48380205	1	None	MG61, PORC, PPN, por
HG1436_HG1432_PATCH	PORCN	ENSG00000268138	ENST00000601026	protein_coding	KNOWN	None	17652	1140	379	48368393	48380205	1	None	MG61, PORC, PPN, por
HG1436_HG1432_PATCH	PORCN	ENSG00000268138	ENST00000595612	protein_coding	KNOWN	None	17652	1371	456	48368401	48380213	1	None	MG61, PORC, PPN, por
HG1436_HG1432_PATCH	PORCN	ENSG00000268138	ENST00000594415	nonsense_mediated_decay	KNOWN	None	17652	261	86	48368410	48372118	1	None	MG61, PORC, PPN, por
HG1436_HG1432_PATCH	PORCN	ENSG00000268138	ENST00000599354	protein_coding	KNOWN	None	17652	293	96	48368429	48370850	1	None	MG61, PORC, PPN, por
HG1436_HG1432_PATCH	PORCN	ENSG00000268138	ENST00000598741	retained_intron	KNOWN	None	17652	None	None	48368430	48380205	1	None	MG61, PORC, PPN, por
HG1436_HG1432_PATCH	PORCN	ENSG00000268138	ENST00000593777	protein_coding	KNOWN	None	17652	1353	450	48368439	48380093	1	None	MG61, PORC, PPN, por
HG1436_HG1432_PATCH	PORCN	ENSG00000268138	ENST00000596153	nonsense_mediated_decay	KNOWN	None	17652	261	86	48369075	48371896	1	None	MG61, PORC, PPN, por
HG1436_HG1432_PATCH	PORCN	ENSG00000268138	ENST00000595805	protein_coding	KNOWN	None	17652	1386	461	48369177	48380201	1	None	MG61, PORC, PPN, por
HG1436_HG1432_PATCH	PORCN	ENSG00000268138	ENST00000600418	protein_coding	KNOWN	None	17652	1368	455	48369183	48380213	1	None	MG61, PORC, PPN, por
HG1436_HG1432_PATCH	PORCN	ENSG00000268138	ENST00000597302	retained_intron	KNOWN	None	17652	None	None	48374841	48375628	1	None	MG61, PORC, PPN, por
HG1436_HG1432_PATCH	EBP	ENSG00000268394	ENST00000598515	protein_coding	KNOWN	None	3133	693	230	48380557	48388115	1	CDPX2	CPX, CPXD, CHO2
HG1436_HG1432_PATCH	EBP	ENSG00000268394	ENST00000600384	processed_transcript	KNOWN	None	3133	None	None	48381198	48388109	1	CDPX2	CPX, CPXD, CHO2
HG1436_HG1432_PATCH	EBP	ENSG00000268394	ENST00000599607	processed_transcript	KNOWN	None	3133	None	None	48381204	48387838	1	CDPX2	CPX, CPXD, CHO2
HG1436_HG1432_PATCH	EBP	ENSG00000268394	ENST00000597879	protein_coding	KNOWN	None	3133	481	159	48381255	48387644	1	CDPX2	CPX, CPXD, CHO2
HG1436_HG1432_PATCH	EBP	ENSG00000268394	ENST00000598584	protein_coding	KNOWN	None	3133	437	144	48381268	48386652	1	CDPX2	CPX, CPXD, CHO2
HG1436_HG1432_PATCH	EBP	ENSG00000268394	ENST00000594677	processed_transcript	KNOWN	None	3133	None	None	48386248	48387070	1	CDPX2	CPX, CPXD, CHO2
HG1436_HG1432_PATCH	TBC1D25	ENSG00000269499	ENST00000600191	protein_coding	KNOWN	None	8092	2067	688	48398856	48422008	1	OATL1	None
HG1436_HG1432_PATCH	TBC1D25	ENSG00000269499	ENST00000598687	protein_coding	KNOWN	None	8092	1305	434	48399128	48420494	1	OATL1	None
HG1436_HG1432_PATCH	TBC1D25	ENSG00000269499	ENST00000598761	processed_transcript	KNOWN	None	8092	None	None	48399136	48419285	1	OATL1	None
HG1436_HG1432_PATCH	TBC1D25	ENSG00000269499	ENST00000596864	protein_coding	KNOWN	None	8092	303	100	48399160	48420460	1	OATL1	None
HG1436_HG1432_PATCH	TBC1D25	ENSG00000269499	ENST00000599496	processed_transcript	KNOWN	None	8092	None	None	48399169	48419084	1	OATL1	None
HG1436_HG1432_PATCH	TBC1D25	ENSG00000269499	ENST00000600116	processed_transcript	KNOWN	None	8092	None	None	48399170	48419121	1	OATL1	None
HG1436_HG1432_PATCH	TBC1D25	ENSG00000269499	ENST00000596500	protein_coding	KNOWN	None	8092	691	229	48399197	48418683	1	OATL1	None
HG1436_HG1432_PATCH	None	ENSG00000268073	ENST00000593755	snoRNA	NOVEL	None	None	None	None	48421101	48421200	-1	None	None
HG1436_HG1432_PATCH	None	ENSG00000268786	ENST00000600661	protein_coding	KNOWN	None	None	390	129	48432493	48434286	-1	None	None
HG1436_HG1432_PATCH	RBM3	ENSG00000268489	ENST00000593522	processed_transcript	KNOWN	None	9900	None	None	48433848	48435990	1	None	IS1-RNPL
HG1436_HG1432_PATCH	RBM3	ENSG00000268489	ENST00000596557	processed_transcript	KNOWN	None	9900	None	None	48433883	48435818	1	None	IS1-RNPL
HG1436_HG1432_PATCH	RBM3	ENSG00000268489	ENST00000595280	processed_transcript	KNOWN	None	9900	None	None	48433890	48437376	1	None	IS1-RNPL
HG1436_HG1432_PATCH	RBM3	ENSG00000268489	ENST00000594291	processed_transcript	KNOWN	None	9900	None	None	48433910	48435919	1	None	IS1-RNPL
HG1436_HG1432_PATCH	RBM3	ENSG00000268489	ENST00000601235	processed_transcript	KNOWN	None	9900	None	None	48433923	48435467	1	None	IS1-RNPL
HG1436_HG1432_PATCH	RBM3	ENSG00000268489	ENST00000598279	processed_transcript	KNOWN	None	9900	None	None	48433923	48437134	1	None	IS1-RNPL
HG1436_HG1432_PATCH	RBM3	ENSG00000268489	ENST00000598825	protein_coding	KNOWN	None	9900	474	157	48433923	48438465	1	None	IS1-RNPL
HG1436_HG1432_PATCH	RBM3	ENSG00000268489	ENST00000594550	processed_transcript	KNOWN	None	9900	None	None	48433935	48435752	1	None	IS1-RNPL
HG1436_HG1432_PATCH	RBM3	ENSG00000268489	ENST00000593579	protein_coding	KNOWN	None	9900	510	169	48433937	48437682	1	None	IS1-RNPL
HG1436_HG1432_PATCH	RBM3	ENSG00000268489	ENST00000600134	protein_coding	KNOWN	None	9900	474	157	48434351	48437267	1	None	IS1-RNPL
HG1436_HG1432_PATCH	RBM3	ENSG00000268489	ENST00000597027	processed_transcript	KNOWN	None	9900	None	None	48434389	48435394	1	None	IS1-RNPL
HG1436_HG1432_PATCH	RBM3	ENSG00000268489	ENST00000599660	protein_coding	KNOWN	None	9900	468	155	48435298	48437690	1	None	IS1-RNPL
HG1436_HG1432_PATCH	None	ENSG00000268619	ENST00000602160	antisense	KNOWN	None	None	None	None	48439173	48440556	-1	None	None
HG1436_HG1432_PATCH	MRPL32P1	ENSG00000268771	ENST00000597387	processed_pseudogene	KNOWN	None	29704	None	None	48442492	48442738	-1	None	None
HG1436_HG1432_PATCH	WDR13	ENSG00000267843	ENST00000600683	processed_transcript	KNOWN	None	14352	None	None	48449441	48458226	1	None	None
HG1436_HG1432_PATCH	WDR13	ENSG00000267843	ENST00000596578	protein_coding	KNOWN	None	14352	1458	485	48456877	48464588	1	None	None
HG1436_HG1432_PATCH	WDR13	ENSG00000267843	ENST00000599106	protein_coding	KNOWN	None	14352	1458	485	48456891	48464592	1	None	None
HG1436_HG1432_PATCH	WDR13	ENSG00000267843	ENST00000600046	processed_transcript	KNOWN	None	14352	None	None	48456904	48459900	1	None	None
HG1436_HG1432_PATCH	WDR13	ENSG00000267843	ENST00000596461	processed_transcript	KNOWN	None	14352	None	None	48456906	48459940	1	None	None
HG1436_HG1432_PATCH	WDR13	ENSG00000267843	ENST00000599119	processed_transcript	KNOWN	None	14352	None	None	48456912	48459994	1	None	None
HG1436_HG1432_PATCH	WDR13	ENSG00000267843	ENST00000599903	processed_transcript	KNOWN	None	14352	None	None	48456914	48459081	1	None	None
HG1436_HG1432_PATCH	WDR13	ENSG00000267843	ENST00000593555	processed_transcript	KNOWN	None	14352	None	None	48456920	48457692	1	None	None
HG1436_HG1432_PATCH	WDR13	ENSG00000267843	ENST00000597100	processed_transcript	KNOWN	None	14352	None	None	48456933	48459680	1	None	None
HG1436_HG1432_PATCH	WDR13	ENSG00000267843	ENST00000594945	processed_transcript	KNOWN	None	14352	None	None	48457208	48464592	1	None	None
HG1436_HG1432_PATCH	WDR13	ENSG00000267843	ENST00000593365	processed_transcript	KNOWN	None	14352	None	None	48458119	48459934	1	None	None
HG1436_HG1432_PATCH	WDR13	ENSG00000267843	ENST00000601867	processed_transcript	KNOWN	None	14352	None	None	48458963	48460110	1	None	None
HG1436_HG1432_PATCH	WDR13	ENSG00000267843	ENST00000596560	processed_transcript	KNOWN	None	14352	None	None	48459981	48464291	1	None	None
HG1436_HG1432_PATCH	WDR13	ENSG00000267843	ENST00000596364	processed_transcript	KNOWN	None	14352	None	None	48463591	48464517	1	None	None
HG1436_HG1432_PATCH	VN1R110P	ENSG00000268487	ENST00000595674	processed_pseudogene	KNOWN	None	37438	None	None	48495564	48496534	1	None	None
HG1436_HG1432_PATCH	WAS	ENSG00000267912	ENST00000601305	protein_coding	KNOWN	None	12731	650	215	48535995	48546270	1	IMD2, THC	WASP
HG1436_HG1432_PATCH	WAS	ENSG00000267912	ENST00000599235	protein_coding	KNOWN	None	12731	1509	502	48543178	48550826	1	IMD2, THC	WASP
HG1436_HG1432_PATCH	WAS	ENSG00000267912	ENST00000596115	processed_transcript	KNOWN	None	12731	None	None	48543218	48547536	1	IMD2, THC	WASP
HG1436_HG1432_PATCH	WAS	ENSG00000267912	ENST00000596856	processed_transcript	KNOWN	None	12731	None	None	48543227	48547597	1	IMD2, THC	WASP
HG1436_HG1432_PATCH	WAS	ENSG00000267912	ENST00000601352	processed_transcript	KNOWN	None	12731	None	None	48545178	48547545	1	IMD2, THC	WASP
HG1436_HG1432_PATCH	WAS	ENSG00000267912	ENST00000600399	processed_transcript	KNOWN	None	12731	None	None	48547678	48548398	1	IMD2, THC	WASP
HG1436_HG1432_PATCH	WAS	ENSG00000267912	ENST00000599774	processed_transcript	KNOWN	None	12731	None	None	48548419	48548993	1	IMD2, THC	WASP
HG1436_HG1432_PATCH	SUV39H1	ENSG00000268740	ENST00000593498	protein_coding	KNOWN	None	11479	1272	423	48554953	48567204	1	SUV39H	KMT1A
HG1436_HG1432_PATCH	SUV39H1	ENSG00000268740	ENST00000595735	protein_coding	KNOWN	None	11479	1239	412	48555994	48568411	1	SUV39H	KMT1A
HG1436_HG1432_PATCH	SUV39H1	ENSG00000268740	ENST00000595129	protein_coding	KNOWN	None	11479	555	184	48556157	48567702	1	SUV39H	KMT1A
HG1436_HG1432_PATCH	SUV39H1	ENSG00000268740	ENST00000595976	processed_transcript	KNOWN	None	11479	None	None	48564660	48567243	1	SUV39H	KMT1A
HG1436_HG1432_PATCH	SUV39H1	ENSG00000268740	ENST00000595399	retained_intron	KNOWN	None	11479	None	None	48565702	48567256	1	SUV39H	KMT1A
HG1436_HG1432_PATCH	None	ENSG00000269626	ENST00000601027	antisense	KNOWN	None	None	None	None	48558362	48596562	-1	None	None
HG1436_HG1432_PATCH	RNU6-1056P	ENSG00000269454	ENST00000600394	snRNA	KNOWN	None	48019	None	None	48583854	48583960	-1	None	None
HG1436_HG1432_PATCH	GLOD5	ENSG00000268712	ENST00000599767	protein_coding	KNOWN	None	33358	483	160	48621149	48633045	1	None	None
HG1436_HG1432_PATCH	GLOD5	ENSG00000268712	ENST00000600842	processed_transcript	KNOWN	None	33358	None	None	48621150	48625636	1	None	None
HG1436_HG1432_PATCH	GLOD5	ENSG00000268712	ENST00000593384	processed_transcript	KNOWN	None	33358	None	None	48621697	48633047	1	None	None
HG1436_HG1432_PATCH	GLOD5	ENSG00000268712	ENST00000598630	protein_coding	KNOWN	None	33358	383	126	48625271	48633045	1	None	None
HG1436_HG1432_PATCH	None	ENSG00000268937	ENST00000596642	processed_pseudogene	KNOWN	None	None	None	None	48635392	48636369	-1	None	None
HG1436_HG1432_PATCH	RNU6-29P	ENSG00000269152	ENST00000600250	snRNA	KNOWN	None	34273	None	None	48636364	48636470	-1	RNU6-29	None
HG1436_HG1432_PATCH	GATA1	ENSG00000267841	ENST00000596667	protein_coding	KNOWN	None	4170	1242	413	48645953	48653707	1	GF1	ERYF1, NFE1, GATA-1, NF-E1
HG1436_HG1432_PATCH	GATA1	ENSG00000267841	ENST00000596219	protein_coding	KNOWN	None	4170	1005	334	48645972	48653708	1	GF1	ERYF1, NFE1, GATA-1, NF-E1
HG1436_HG1432_PATCH	GATA1	ENSG00000267841	ENST00000599393	protein_coding	KNOWN	None	4170	368	121	48651830	48653710	1	GF1	ERYF1, NFE1, GATA-1, NF-E1
HG1436_HG1432_PATCH	HDAC6	ENSG00000269101	ENST00000596157	protein_coding	KNOWN	None	14064	427	141	48660776	48665060	1	None	KIAA0901, JM21, HD6, FLJ16239
HG1436_HG1432_PATCH	HDAC6	ENSG00000269101	ENST00000595592	protein_coding	KNOWN	None	14064	153	50	48660795	48662329	1	None	KIAA0901, JM21, HD6, FLJ16239
HG1436_HG1432_PATCH	HDAC6	ENSG00000269101	ENST00000601534	protein_coding	KNOWN	None	14064	632	209	48661099	48666105	1	None	KIAA0901, JM21, HD6, FLJ16239
HG1436_HG1432_PATCH	HDAC6	ENSG00000269101	ENST00000598189	processed_transcript	KNOWN	None	14064	None	None	48661192	48667536	1	None	KIAA0901, JM21, HD6, FLJ16239
HG1436_HG1432_PATCH	HDAC6	ENSG00000269101	ENST00000597966	protein_coding	KNOWN	None	14064	3690	1229	48661279	48684155	1	None	KIAA0901, JM21, HD6, FLJ16239
HG1436_HG1432_PATCH	HDAC6	ENSG00000269101	ENST00000601504	protein_coding	KNOWN	None	14064	632	209	48661348	48666105	1	None	KIAA0901, JM21, HD6, FLJ16239
HG1436_HG1432_PATCH	HDAC6	ENSG00000269101	ENST00000599629	processed_transcript	KNOWN	None	14064	None	None	48661390	48667445	1	None	KIAA0901, JM21, HD6, FLJ16239
HG1436_HG1432_PATCH	HDAC6	ENSG00000269101	ENST00000595349	protein_coding	KNOWN	None	14064	3648	1215	48661394	48684375	1	None	KIAA0901, JM21, HD6, FLJ16239
HG1436_HG1432_PATCH	HDAC6	ENSG00000269101	ENST00000594109	retained_intron	KNOWN	None	14064	None	None	48661415	48666345	1	None	KIAA0901, JM21, HD6, FLJ16239
HG1436_HG1432_PATCH	HDAC6	ENSG00000269101	ENST00000597097	protein_coding	KNOWN	None	14064	3648	1215	48661433	48684375	1	None	KIAA0901, JM21, HD6, FLJ16239
HG1436_HG1432_PATCH	HDAC6	ENSG00000269101	ENST00000598449	retained_intron	KNOWN	None	14064	None	None	48661454	48684381	1	None	KIAA0901, JM21, HD6, FLJ16239
HG1436_HG1432_PATCH	HDAC6	ENSG00000269101	ENST00000598943	retained_intron	KNOWN	None	14064	None	None	48661463	48665254	1	None	KIAA0901, JM21, HD6, FLJ16239
HG1436_HG1432_PATCH	HDAC6	ENSG00000269101	ENST00000595297	retained_intron	KNOWN	None	14064	None	None	48661481	48665632	1	None	KIAA0901, JM21, HD6, FLJ16239
HG1436_HG1432_PATCH	HDAC6	ENSG00000269101	ENST00000598719	processed_transcript	KNOWN	None	14064	None	None	48661509	48667669	1	None	KIAA0901, JM21, HD6, FLJ16239
HG1436_HG1432_PATCH	HDAC6	ENSG00000269101	ENST00000601771	protein_coding	KNOWN	None	14064	891	296	48661562	48674253	1	None	KIAA0901, JM21, HD6, FLJ16239
HG1436_HG1432_PATCH	HDAC6	ENSG00000269101	ENST00000596076	retained_intron	KNOWN	None	14064	None	None	48661585	48665144	1	None	KIAA0901, JM21, HD6, FLJ16239
HG1436_HG1432_PATCH	HDAC6	ENSG00000269101	ENST00000594912	protein_coding	KNOWN	None	14064	483	160	48661586	48665812	1	None	KIAA0901, JM21, HD6, FLJ16239
HG1436_HG1432_PATCH	HDAC6	ENSG00000269101	ENST00000595105	protein_coding	KNOWN	None	14064	808	268	48661591	48667727	1	None	KIAA0901, JM21, HD6, FLJ16239
HG1436_HG1432_PATCH	HDAC6	ENSG00000269101	ENST00000599323	retained_intron	KNOWN	None	14064	None	None	48661606	48665245	1	None	KIAA0901, JM21, HD6, FLJ16239
HG1436_HG1432_PATCH	HDAC6	ENSG00000269101	ENST00000600035	protein_coding	KNOWN	None	14064	501	166	48661914	48665830	1	None	KIAA0901, JM21, HD6, FLJ16239
HG1436_HG1432_PATCH	HDAC6	ENSG00000269101	ENST00000600375	protein_coding	KNOWN	None	14064	515	170	48661949	48665844	1	None	KIAA0901, JM21, HD6, FLJ16239
HG1436_HG1432_PATCH	HDAC6	ENSG00000269101	ENST00000601362	retained_intron	KNOWN	None	14064	None	None	48662179	48666047	1	None	KIAA0901, JM21, HD6, FLJ16239
HG1436_HG1432_PATCH	HDAC6	ENSG00000269101	ENST00000595008	retained_intron	KNOWN	None	14064	None	None	48662307	48662838	1	None	KIAA0901, JM21, HD6, FLJ16239
HG1436_HG1432_PATCH	HDAC6	ENSG00000269101	ENST00000593884	retained_intron	KNOWN	None	14064	None	None	48665818	48666358	1	None	KIAA0901, JM21, HD6, FLJ16239
HG1436_HG1432_PATCH	HDAC6	ENSG00000269101	ENST00000601536	retained_intron	KNOWN	None	14064	None	None	48672752	48684375	1	None	KIAA0901, JM21, HD6, FLJ16239
HG1436_HG1432_PATCH	HDAC6	ENSG00000269101	ENST00000594897	retained_intron	KNOWN	None	14064	None	None	48673939	48674827	1	None	KIAA0901, JM21, HD6, FLJ16239
HG1436_HG1432_PATCH	HDAC6	ENSG00000269101	ENST00000601103	retained_intron	KNOWN	None	14064	None	None	48674164	48675575	1	None	KIAA0901, JM21, HD6, FLJ16239
HG1436_HG1432_PATCH	HDAC6	ENSG00000269101	ENST00000601177	retained_intron	KNOWN	None	14064	None	None	48674668	48675243	1	None	KIAA0901, JM21, HD6, FLJ16239
HG1436_HG1432_PATCH	HDAC6	ENSG00000269101	ENST00000600113	retained_intron	KNOWN	None	14064	None	None	48675198	48676735	1	None	KIAA0901, JM21, HD6, FLJ16239
HG1436_HG1432_PATCH	HDAC6	ENSG00000269101	ENST00000597228	retained_intron	KNOWN	None	14064	None	None	48675589	48676352	1	None	KIAA0901, JM21, HD6, FLJ16239
HG1436_HG1432_PATCH	HDAC6	ENSG00000269101	ENST00000596490	processed_transcript	KNOWN	None	14064	None	None	48675872	48679579	1	None	KIAA0901, JM21, HD6, FLJ16239
HG1436_HG1432_PATCH	HDAC6	ENSG00000269101	ENST00000598181	retained_intron	KNOWN	None	14064	None	None	48675969	48679602	1	None	KIAA0901, JM21, HD6, FLJ16239
HG1436_HG1432_PATCH	HDAC6	ENSG00000269101	ENST00000599139	retained_intron	KNOWN	None	14064	None	None	48676359	48677484	1	None	KIAA0901, JM21, HD6, FLJ16239
HG1436_HG1432_PATCH	HDAC6	ENSG00000269101	ENST00000600732	processed_transcript	KNOWN	None	14064	None	None	48676855	48682478	1	None	KIAA0901, JM21, HD6, FLJ16239
HG1436_HG1432_PATCH	HDAC6	ENSG00000269101	ENST00000601602	retained_intron	KNOWN	None	14064	None	None	48677037	48677685	1	None	KIAA0901, JM21, HD6, FLJ16239
HG1436_HG1432_PATCH	HDAC6	ENSG00000269101	ENST00000596194	processed_transcript	KNOWN	None	14064	None	None	48677470	48682508	1	None	KIAA0901, JM21, HD6, FLJ16239
HG1436_HG1432_PATCH	HDAC6	ENSG00000269101	ENST00000595438	retained_intron	KNOWN	None	14064	None	None	48678846	48684375	1	None	KIAA0901, JM21, HD6, FLJ16239
HG1436_HG1432_PATCH	HDAC6	ENSG00000269101	ENST00000599915	protein_coding	PUTATIVE	None	14064	254	83	48682917	48684375	1	None	KIAA0901, JM21, HD6, FLJ16239
HG1436_HG1432_PATCH	ERAS	ENSG00000268426	ENST00000598069	protein_coding	KNOWN	None	5174	702	233	48688272	48689537	1	HRAS2, HRASP	None
HG1436_HG1432_PATCH	None	ENSG00000268646	ENST00000601463	protein_coding	NOVEL	None	None	783	260	48690493	48695033	-1	None	None
HG1436_HG1432_PATCH	TIMM17B	ENSG00000267823	ENST00000596806	protein_coding	KNOWN	None	17310	519	172	48752846	48757542	-1	None	DXS9822, JM3
HG1436_HG1432_PATCH	TIMM17B	ENSG00000267823	ENST00000593291	protein_coding	KNOWN	None	17310	669	222	48752847	48757542	-1	None	DXS9822, JM3
HG1436_HG1432_PATCH	TIMM17B	ENSG00000267823	ENST00000599432	processed_transcript	KNOWN	None	17310	None	None	48752848	48757170	-1	None	DXS9822, JM3
HG1436_HG1432_PATCH	TIMM17B	ENSG00000267823	ENST00000600524	processed_transcript	KNOWN	None	17310	None	None	48752852	48757163	-1	None	DXS9822, JM3
HG1436_HG1432_PATCH	TIMM17B	ENSG00000267823	ENST00000595943	processed_transcript	KNOWN	None	17310	None	None	48752953	48756627	-1	None	DXS9822, JM3
HG1436_HG1432_PATCH	TIMM17B	ENSG00000267823	ENST00000599249	processed_transcript	KNOWN	None	17310	None	None	48752983	48757161	-1	None	DXS9822, JM3
HG1436_HG1432_PATCH	TIMM17B	ENSG00000267823	ENST00000601994	processed_transcript	KNOWN	None	17310	None	None	48753399	48757146	-1	None	DXS9822, JM3
HG1436_HG1432_PATCH	TIMM17B	ENSG00000267823	ENST00000601351	processed_transcript	KNOWN	None	17310	None	None	48755577	48757167	-1	None	DXS9822, JM3
HG1436_HG1432_PATCH	PQBP1	ENSG00000268142	ENST00000597699	protein_coding	KNOWN	None	9330	798	265	48757311	48762541	1	RENS1, MRXS8, SHS, MRX55	None
HG1436_HG1432_PATCH	PQBP1	ENSG00000268142	ENST00000600640	protein_coding	KNOWN	None	9330	513	170	48757311	48762541	1	RENS1, MRXS8, SHS, MRX55	None
HG1436_HG1432_PATCH	PQBP1	ENSG00000268142	ENST00000600107	protein_coding	KNOWN	None	9330	798	265	48757330	48762535	1	RENS1, MRXS8, SHS, MRX55	None
HG1436_HG1432_PATCH	PQBP1	ENSG00000268142	ENST00000597809	protein_coding	KNOWN	None	9330	204	67	48757330	48760942	1	RENS1, MRXS8, SHS, MRX55	None
HG1436_HG1432_PATCH	PQBP1	ENSG00000268142	ENST00000600843	processed_transcript	KNOWN	None	9330	None	None	48757337	48762541	1	RENS1, MRXS8, SHS, MRX55	None
HG1436_HG1432_PATCH	PQBP1	ENSG00000268142	ENST00000601234	protein_coding	KNOWN	None	9330	513	170	48757339	48762541	1	RENS1, MRXS8, SHS, MRX55	None
HG1436_HG1432_PATCH	PQBP1	ENSG00000268142	ENST00000593710	processed_transcript	KNOWN	None	9330	None	None	48757342	48762192	1	RENS1, MRXS8, SHS, MRX55	None
HG1436_HG1432_PATCH	PQBP1	ENSG00000268142	ENST00000594698	processed_transcript	KNOWN	None	9330	None	None	48757345	48761005	1	RENS1, MRXS8, SHS, MRX55	None
HG1436_HG1432_PATCH	PQBP1	ENSG00000268142	ENST00000600301	processed_transcript	KNOWN	None	9330	None	None	48757351	48762542	1	RENS1, MRXS8, SHS, MRX55	None
HG1436_HG1432_PATCH	PQBP1	ENSG00000268142	ENST00000601131	processed_transcript	KNOWN	None	9330	None	None	48757395	48762497	1	RENS1, MRXS8, SHS, MRX55	None
HG1436_HG1432_PATCH	PQBP1	ENSG00000268142	ENST00000595328	processed_transcript	KNOWN	None	9330	None	None	48757440	48762542	1	RENS1, MRXS8, SHS, MRX55	None
HG1436_HG1432_PATCH	PQBP1	ENSG00000268142	ENST00000594868	protein_coding	KNOWN	None	9330	798	265	48757655	48762541	1	RENS1, MRXS8, SHS, MRX55	None
HG1436_HG1432_PATCH	PQBP1	ENSG00000268142	ENST00000593464	protein_coding	KNOWN	None	9330	798	265	48757655	48762541	1	RENS1, MRXS8, SHS, MRX55	None
HG1436_HG1432_PATCH	PQBP1	ENSG00000268142	ENST00000602235	protein_coding	KNOWN	None	9330	639	212	48757659	48762192	1	RENS1, MRXS8, SHS, MRX55	None
HG1436_HG1432_PATCH	PQBP1	ENSG00000268142	ENST00000593610	protein_coding	KNOWN	None	9330	451	149	48757717	48762455	1	RENS1, MRXS8, SHS, MRX55	None
HG1436_HG1432_PATCH	PQBP1	ENSG00000268142	ENST00000593774	processed_transcript	KNOWN	None	9330	None	None	48757909	48762483	1	RENS1, MRXS8, SHS, MRX55	None
HG1436_HG1432_PATCH	PQBP1	ENSG00000268142	ENST00000595044	processed_transcript	KNOWN	None	9330	None	None	48757909	48762483	1	RENS1, MRXS8, SHS, MRX55	None
HG1436_HG1432_PATCH	PQBP1	ENSG00000268142	ENST00000599862	processed_transcript	KNOWN	None	9330	None	None	48757909	48762483	1	RENS1, MRXS8, SHS, MRX55	None
HG1436_HG1432_PATCH	SLC35A2	ENSG00000267929	ENST00000598078	protein_coding	KNOWN	None	11022	1191	396	48762581	48771039	-1	UGALT	UGAT, UGT, UGT1, UGT2, UGTL
HG1436_HG1432_PATCH	SLC35A2	ENSG00000267929	ENST00000594639	protein_coding	KNOWN	None	11022	675	224	48762660	48771035	-1	UGALT	UGAT, UGT, UGT1, UGT2, UGTL
HG1436_HG1432_PATCH	SLC35A2	ENSG00000267929	ENST00000595933	protein_coding	KNOWN	None	11022	1182	393	48763011	48771357	-1	UGALT	UGAT, UGT, UGT1, UGT2, UGTL
HG1436_HG1432_PATCH	SLC35A2	ENSG00000267929	ENST00000597583	protein_coding	KNOWN	None	11022	729	242	48763012	48771055	-1	UGALT	UGAT, UGT, UGT1, UGT2, UGTL
HG1436_HG1432_PATCH	SLC35A2	ENSG00000267929	ENST00000594412	protein_coding	KNOWN	None	11022	999	332	48763711	48771045	-1	UGALT	UGAT, UGT, UGT1, UGT2, UGTL
HG1436_HG1432_PATCH	SLC35A2	ENSG00000267929	ENST00000600916	protein_coding	KNOWN	None	11022	657	218	48763727	48771357	-1	UGALT	UGAT, UGT, UGT1, UGT2, UGTL
HG1436_HG1432_PATCH	SLC35A2	ENSG00000267929	ENST00000594983	protein_coding	KNOWN	None	11022	1266	421	48763839	48771045	-1	UGALT	UGAT, UGT, UGT1, UGT2, UGTL
HG1436_HG1432_PATCH	SLC35A2	ENSG00000267929	ENST00000598126	protein_coding	KNOWN	None	11022	527	174	48764565	48771336	-1	UGALT	UGAT, UGT, UGT1, UGT2, UGTL
HG1436_HG1432_PATCH	SLC35A2	ENSG00000267929	ENST00000596160	protein_coding	KNOWN	None	11022	492	163	48765595	48771068	-1	UGALT	UGAT, UGT, UGT1, UGT2, UGTL
HG1436_HG1432_PATCH	PIM2	ENSG00000267878	ENST00000601083	protein_coding	KNOWN	None	8987	936	311	48772581	48778423	-1	None	None
HG1436_HG1432_PATCH	PIM2	ENSG00000267878	ENST00000596337	processed_transcript	KNOWN	None	8987	None	None	48773503	48774313	-1	None	None
HG1436_HG1432_PATCH	PIM2	ENSG00000267878	ENST00000593302	protein_coding	KNOWN	None	8987	435	144	48773795	48775134	-1	None	None
HG1436_HG1432_PATCH	OTUD5	ENSG00000267983	ENST00000601021	protein_coding	KNOWN	None	25402	1701	566	48781427	48817030	-1	None	DKFZp761A052, DUBA
HG1436_HG1432_PATCH	OTUD5	ENSG00000267983	ENST00000596269	protein_coding	KNOWN	None	25402	1335	444	48781605	48816588	-1	None	DKFZp761A052, DUBA
HG1436_HG1432_PATCH	OTUD5	ENSG00000267983	ENST00000597676	protein_coding	KNOWN	None	25402	1716	571	48781610	48817030	-1	None	DKFZp761A052, DUBA
HG1436_HG1432_PATCH	OTUD5	ENSG00000267983	ENST00000596262	protein_coding	KNOWN	None	25402	1701	566	48781611	48816998	-1	None	DKFZp761A052, DUBA
HG1436_HG1432_PATCH	OTUD5	ENSG00000267983	ENST00000594822	protein_coding	KNOWN	None	25402	1050	349	48782342	48817785	-1	None	DKFZp761A052, DUBA
HG1436_HG1432_PATCH	OTUD5	ENSG00000267983	ENST00000597990	processed_transcript	KNOWN	None	25402	None	None	48785333	48816455	-1	None	DKFZp761A052, DUBA
HG1436_HG1432_PATCH	OTUD5	ENSG00000267983	ENST00000594689	processed_transcript	KNOWN	None	25402	None	None	48793981	48795738	-1	None	DKFZp761A052, DUBA
HG1436_HG1432_PATCH	None	ENSG00000268418	ENST00000598941	pseudogene	KNOWN	None	None	None	None	48799391	48800207	1	None	None
HG1436_HG1432_PATCH	RNU6-722P	ENSG00000268033	ENST00000596343	snRNA	KNOWN	None	47685	None	None	48818578	48818681	-1	None	None
HG1436_HG1432_PATCH	KCND1	ENSG00000267829	ENST00000600735	protein_coding	KNOWN	None	6237	813	270	48820777	48827785	-1	None	Kv4.1
HG1436_HG1432_PATCH	KCND1	ENSG00000267829	ENST00000593940	protein_coding	KNOWN	None	6237	1944	647	48820785	48830968	-1	None	Kv4.1
HG1436_HG1432_PATCH	KCND1	ENSG00000267829	ENST00000596377	protein_coding	KNOWN	None	6237	397	131	48825489	48826157	-1	None	Kv4.1
HG1436_HG1432_PATCH	None	ENSG00000268679	ENST00000593475	protein_coding	NOVEL	None	None	1878	625	48836322	48861663	-1	None	None
HG1436_HG1432_PATCH	RN7SL139P	ENSG00000269491	ENST00000597213	misc_RNA	KNOWN	None	46155	None	None	48866958	48867265	-1	None	None
HG1436_HG1432_PATCH	TFE3	ENSG00000269748	ENST00000599758	processed_transcript	KNOWN	None	11752	None	None	48888130	48902809	-1	None	TFEA, bHLHe33
HG1436_HG1432_PATCH	TFE3	ENSG00000269748	ENST00000598455	processed_transcript	KNOWN	None	11752	None	None	48888130	48902862	-1	None	TFEA, bHLHe33
HG1436_HG1432_PATCH	TFE3	ENSG00000269748	ENST00000601543	protein_coding	KNOWN	None	11752	1728	575	48888130	48902885	-1	None	TFEA, bHLHe33
HG1436_HG1432_PATCH	TFE3	ENSG00000269748	ENST00000595593	processed_transcript	KNOWN	None	11752	None	None	48889912	48891464	-1	None	TFEA, bHLHe33
HG1436_HG1432_PATCH	TFE3	ENSG00000269748	ENST00000597398	processed_transcript	KNOWN	None	11752	None	None	48890796	48899202	-1	None	TFEA, bHLHe33
HG1436_HG1432_PATCH	TFE3	ENSG00000269748	ENST00000594540	processed_transcript	KNOWN	None	11752	None	None	48897138	48897658	-1	None	TFEA, bHLHe33
HG1436_HG1432_PATCH	None	ENSG00000272067	ENST00000606812	protein_coding	KNOWN	None	None	1893	630	48912971	48927863	1	None	None
HG1436_HG1432_PATCH	None	ENSG00000269698	ENST00000600785	protein_coding	KNOWN	None	None	879	292	48931125	48939286	-1	None	None
HG1436_HG1432_PATCH	None	ENSG00000269698	ENST00000599759	retained_intron	KNOWN	None	None	None	None	48933832	48960569	-1	None	None
HG1436_HG1432_PATCH	None	ENSG00000269698	ENST00000602067	protein_coding	KNOWN	None	None	1083	360	48933841	48939314	-1	None	None
HG1436_HG1432_PATCH	None	ENSG00000269698	ENST00000594313	processed_transcript	KNOWN	None	None	None	None	48933842	48939301	-1	None	None
HG1436_HG1432_PATCH	None	ENSG00000269698	ENST00000599408	protein_coding	PUTATIVE	None	None	244	80	48934039	48934680	-1	None	None
HG1436_HG1432_PATCH	None	ENSG00000269698	ENST00000596615	protein_coding	KNOWN	None	None	1116	371	48934039	48939245	-1	None	None
HG1436_HG1432_PATCH	None	ENSG00000269698	ENST00000598033	protein_coding	KNOWN	None	None	1086	361	48934039	48960520	-1	None	None
HG1436_HG1432_PATCH	None	ENSG00000269698	ENST00000601290	protein_coding	NOVEL	None	None	978	325	48934057	48939291	-1	None	None
HG1436_HG1432_PATCH	None	ENSG00000269698	ENST00000596020	protein_coding	NOVEL	None	None	862	286	48934068	48937145	-1	None	None
HG1436_HG1432_PATCH	None	ENSG00000269698	ENST00000601747	retained_intron	KNOWN	None	None	None	None	48934085	48935344	-1	None	None
HG1436_HG1432_PATCH	None	ENSG00000269698	ENST00000600730	protein_coding	PUTATIVE	None	None	771	256	48934099	48939271	-1	None	None
HG1436_HG1432_PATCH	None	ENSG00000269698	ENST00000601603	protein_coding	KNOWN	None	None	1086	361	48934103	48939288	-1	None	None
HG1436_HG1432_PATCH	None	ENSG00000269698	ENST00000602268	protein_coding	NOVEL	None	None	1041	346	48934202	48939280	-1	None	None
HG1436_HG1432_PATCH	None	ENSG00000269698	ENST00000599271	retained_intron	KNOWN	None	None	None	None	48934241	48936810	-1	None	None
HG1436_HG1432_PATCH	None	ENSG00000269698	ENST00000595953	protein_coding	PUTATIVE	None	None	357	118	48934254	48935152	-1	None	None
HG1436_HG1432_PATCH	None	ENSG00000269698	ENST00000597903	retained_intron	KNOWN	None	None	None	None	48934754	48935273	-1	None	None
HG1436_HG1432_PATCH	None	ENSG00000269698	ENST00000601175	protein_coding	NOVEL	None	None	428	141	48935040	48939286	-1	None	None
HG1436_HG1432_PATCH	None	ENSG00000269698	ENST00000599834	retained_intron	KNOWN	None	None	None	None	48935054	48936289	-1	None	None
HG1436_HG1432_PATCH	None	ENSG00000269698	ENST00000599262	protein_coding	NOVEL	None	None	499	165	48935068	48939279	-1	None	None
HG1436_HG1432_PATCH	None	ENSG00000269698	ENST00000601190	protein_coding	NOVEL	None	None	641	212	48935103	48937511	-1	None	None
HG1436_HG1432_PATCH	None	ENSG00000269698	ENST00000593749	protein_coding	NOVEL	None	None	571	189	48935264	48937511	-1	None	None
HG1436_HG1432_PATCH	None	ENSG00000269698	ENST00000601827	protein_coding	NOVEL	None	None	415	137	48935294	48939286	-1	None	None
HG1436_HG1432_PATCH	None	ENSG00000269698	ENST00000596407	protein_coding	KNOWN	None	None	476	157	48935338	48939424	-1	None	None
HG1436_HG1432_PATCH	None	ENSG00000269698	ENST00000600030	processed_transcript	KNOWN	None	None	None	None	48936330	48939245	-1	None	None
HG1436_HG1432_PATCH	None	ENSG00000269698	ENST00000597042	retained_intron	KNOWN	None	None	None	None	48936473	48939293	-1	None	None
HG1436_HG1432_PATCH	None	ENSG00000269698	ENST00000597513	retained_intron	KNOWN	None	None	None	None	48936886	48939496	-1	None	None
HG1436_HG1432_PATCH	None	ENSG00000269698	ENST00000598900	protein_coding	KNOWN	None	None	166	54	48937111	48939655	-1	None	None
HG1436_HG1432_PATCH	None	ENSG00000269698	ENST00000595489	processed_transcript	KNOWN	None	None	None	None	48939500	48960543	-1	None	None
HG1436_HG1432_PATCH	None	ENSG00000269389	ENST00000599940	protein_coding	PUTATIVE	None	None	879	292	48931125	48939286	-1	None	None
HG1436_HG1432_PATCH	RNU4-52P	ENSG00000268840	ENST00000599457	snRNA	KNOWN	None	46988	None	None	48941427	48941564	1	None	None
HG1436_HG1432_PATCH	GPKOW	ENSG00000268675	ENST00000598064	protein_coding	KNOWN	None	30677	1431	476	48972795	48983200	-1	None	T54, GPATC5, GPATCH5, Spp2
HG1436_HG1432_PATCH	RN7SL262P	ENSG00000269470	ENST00000594853	misc_RNA	KNOWN	None	46278	None	None	49012050	49012341	1	None	None
HG1436_HG1432_PATCH	None	ENSG00000269313	ENST00000595224	protein_coding	KNOWN	None	None	1005	334	49022242	49026896	1	None	None
HG1436_HG1432_PATCH	PLP2	ENSG00000269034	ENST00000597997	protein_coding	KNOWN	None	9087	438	145	49031325	49033082	1	None	A4, A4-LSB, MGC126187
HG1436_HG1432_PATCH	PLP2	ENSG00000269034	ENST00000595824	protein_coding	KNOWN	None	9087	459	152	49031325	49034638	1	None	A4, A4-LSB, MGC126187
HG1436_HG1432_PATCH	None	ENSG00000268139	ENST00000599218	protein_coding	KNOWN	None	None	1848	615	49034953	49045768	-1	None	None
HG1436_HG1432_PATCH	SYP	ENSG00000268353	ENST00000599440	protein_coding	KNOWN	None	11506	942	313	49047215	49059658	-1	None	None
HG1436_HG1432_PATCH	SYP	ENSG00000268353	ENST00000596664	protein_coding	NOVEL	None	11506	611	202	49048536	49059575	-1	None	None
HG1436_HG1432_PATCH	SYP	ENSG00000268353	ENST00000601081	protein_coding	KNOWN	None	11506	588	195	49048640	49059592	-1	None	None
HG1436_HG1432_PATCH	SYP	ENSG00000268353	ENST00000602220	nonsense_mediated_decay	KNOWN	None	11506	123	40	49048652	49059592	-1	None	None
HG1436_HG1432_PATCH	SYP	ENSG00000268353	ENST00000594524	protein_coding	KNOWN	None	11506	942	313	49049941	49059598	-1	None	None
HG1436_HG1432_PATCH	SYP	ENSG00000268353	ENST00000599610	nonsense_mediated_decay	KNOWN	None	11506	357	118	49053590	49059592	-1	None	None
HG1436_HG1432_PATCH	SYP	ENSG00000268353	ENST00000596506	nonsense_mediated_decay	KNOWN	None	11506	357	118	49053710	49059592	-1	None	None
HG1436_HG1432_PATCH	SYP	ENSG00000268353	ENST00000595236	retained_intron	KNOWN	None	11506	None	None	49056416	49059594	-1	None	None
HG1436_HG1432_PATCH	SYP	ENSG00000268353	ENST00000595579	retained_intron	KNOWN	None	11506	None	None	49056776	49059594	-1	None	None
HG1436_HG1432_PATCH	SYP-AS1	ENSG00000268382	ENST00000598062	antisense	KNOWN	None	40571	None	None	49058365	49061853	1	None	None
HG1436_HG1432_PATCH	None	ENSG00000268253	ENST00000600736	miRNA	NOVEL	None	None	None	None	49062641	49062727	-1	None	None
HG1436_HG1432_PATCH	CACNA1F	ENSG00000269057	ENST00000601604	protein_coding	NOVEL	None	1393	5739	1912	49064462	49092708	-1	CSNB2, AIED	Cav1.4, JM8, JMC8, CSNBX2, CORDX3, CSNB2A, OA2
HG1436_HG1432_PATCH	CACNA1F	ENSG00000269057	ENST00000598102	protein_coding	KNOWN	None	1393	5901	1966	49064462	49092770	-1	CSNB2, AIED	Cav1.4, JM8, JMC8, CSNBX2, CORDX3, CSNB2A, OA2
HG1436_HG1432_PATCH	CACNA1F	ENSG00000269057	ENST00000599684	protein_coding	KNOWN	None	1393	5934	1977	49064462	49092770	-1	CSNB2, AIED	Cav1.4, JM8, JMC8, CSNBX2, CORDX3, CSNB2A, OA2
HG1436_HG1432_PATCH	CACNA1F	ENSG00000269057	ENST00000597930	protein_coding	PUTATIVE	None	1393	351	116	49068215	49069111	-1	CSNB2, AIED	Cav1.4, JM8, JMC8, CSNBX2, CORDX3, CSNB2A, OA2
HG1436_HG1432_PATCH	CACNA1F	ENSG00000269057	ENST00000598591	retained_intron	KNOWN	None	1393	None	None	49069060	49070398	-1	CSNB2, AIED	Cav1.4, JM8, JMC8, CSNBX2, CORDX3, CSNB2A, OA2
HG1436_HG1432_PATCH	CACNA1F	ENSG00000269057	ENST00000597843	processed_transcript	KNOWN	None	1393	None	None	49081657	49082542	-1	CSNB2, AIED	Cav1.4, JM8, JMC8, CSNBX2, CORDX3, CSNB2A, OA2
HG1436_HG1432_PATCH	HSPB1P2	ENSG00000267997	ENST00000600564	processed_pseudogene	KNOWN	None	5252	None	None	49093355	49093900	-1	HSPBL3	None
HG1436_HG1432_PATCH	CCDC22	ENSG00000268501	ENST00000599730	protein_coding	KNOWN	None	28909	1884	627	49094866	49109925	1	CXorf37	JM1
HG1436_HG1432_PATCH	CCDC22	ENSG00000268501	ENST00000599526	processed_transcript	KNOWN	None	28909	None	None	49094895	49102865	1	CXorf37	JM1
HG1436_HG1432_PATCH	CCDC22	ENSG00000268501	ENST00000602052	processed_transcript	KNOWN	None	28909	None	None	49096292	49102745	1	CXorf37	JM1
HG1436_HG1432_PATCH	CCDC22	ENSG00000268501	ENST00000599285	processed_transcript	KNOWN	None	28909	None	None	49107110	49109914	1	CXorf37	JM1
HG1436_HG1432_PATCH	FOXP3	ENSG00000269002	ENST00000596575	protein_coding	KNOWN	None	6106	1296	431	49109835	49124225	-1	IPEX	JM2, XPID, AIID, PIDX, DIETER, SCURFIN
HG1436_HG1432_PATCH	FOXP3	ENSG00000269002	ENST00000599169	protein_coding	KNOWN	None	6106	1191	396	49109838	49124225	-1	IPEX	JM2, XPID, AIID, PIDX, DIETER, SCURFIN
HG1436_HG1432_PATCH	FOXP3	ENSG00000269002	ENST00000602054	protein_coding	PUTATIVE	None	6106	1371	456	49110733	49117904	-1	IPEX	JM2, XPID, AIID, PIDX, DIETER, SCURFIN
HG1436_HG1432_PATCH	FOXP3	ENSG00000269002	ENST00000599600	protein_coding	KNOWN	None	6106	1191	396	49110733	49117926	-1	IPEX	JM2, XPID, AIID, PIDX, DIETER, SCURFIN
HG1436_HG1432_PATCH	FOXP3	ENSG00000269002	ENST00000600505	protein_coding	PUTATIVE	None	6106	1326	441	49110733	49118639	-1	IPEX	JM2, XPID, AIID, PIDX, DIETER, SCURFIN
HG1436_HG1432_PATCH	FOXP3	ENSG00000269002	ENST00000595256	protein_coding	KNOWN	None	6106	1215	404	49110733	49117904	-1	IPEX	JM2, XPID, AIID, PIDX, DIETER, SCURFIN
HG1436_HG1432_PATCH	PPP1R3F	ENSG00000269870	ENST00000601796	protein_coding	PUTATIVE	None	14944	1362	453	49129242	49146624	1	None	Hb2E
HG1436_HG1432_PATCH	PPP1R3F	ENSG00000269870	ENST00000597320	protein_coding	KNOWN	None	14944	1413	470	49129242	49146624	1	None	Hb2E
HG1436_HG1432_PATCH	PPP1R3F	ENSG00000269870	ENST00000596845	protein_coding	KNOWN	None	14944	2400	799	49129253	49147494	1	None	Hb2E
HG1436_HG1432_PATCH	PPP1R3F	ENSG00000269870	ENST00000599468	protein_coding	PUTATIVE	None	14944	1362	453	49129269	49146569	1	None	Hb2E
HG1436_HG1432_PATCH	PPP1R3F	ENSG00000269870	ENST00000597545	protein_coding	PUTATIVE	None	14944	485	160	49130020	49160849	1	None	Hb2E
HG1436_HG1432_PATCH	PPP1R3F	ENSG00000269870	ENST00000596830	protein_coding	PUTATIVE	None	14944	1362	453	49140175	49146909	1	None	Hb2E
HG1436_HG1432_PATCH	None	ENSG00000270129	ENST00000602880	lincRNA	KNOWN	None	None	None	None	49132453	49135167	1	None	None
HG1436_HG1432_PATCH	GAGE10	ENSG00000269030	ENST00000594366	protein_coding	KNOWN	None	30968	351	116	49163068	49179243	1	None	OTTHUMG00000024136
HG1436_HG1432_PATCH	GAGE12J	ENSG00000269149	ENST00000597432	protein_coding	KNOWN	None	17778	354	117	49181456	49188783	1	GAGE11	OTTHUMG00000024137
HG1436_HG1432_PATCH	None	ENSG00000267831	ENST00000593333	protein_coding	KNOWN	None	None	354	117	49190981	49198351	1	None	None
HG1436_HG1432_PATCH	GAGE12B	ENSG00000268524	ENST00000599014	protein_coding	KNOWN	None	26779	23	6	49339268	49339384	1	None	OTTHUMG00000024142
HG1436_HG1432_PATCH	GAGE12C	ENSG00000270290	ENST00000600217	protein_coding	KNOWN	None	28402	354	117	49341610	49348937	1	None	OTTHUMG00000024144
HG1436_HG1432_PATCH	GAGE12D	ENSG00000271641	ENST00000600913	protein_coding	KNOWN	None	31904	354	117	49351166	49358493	1	None	OTTHUMG00000024145
HG1436_HG1432_PATCH	GAGE12E	ENSG00000268016	ENST00000593608	protein_coding	KNOWN	None	31905	354	117	49360732	49368048	1	None	OTTHUMG00000024146
HG1436_HG1432_PATCH	GAGE12F	ENSG00000270928	ENST00000601535	protein_coding	KNOWN	None	31906	354	117	49370275	49377604	1	None	OTTHUMG00000024147
HG1436_HG1432_PATCH	GAGE12G	ENSG00000271467	ENST00000601798	protein_coding	KNOWN	None	31907	354	117	49379833	49387153	1	None	OTTHUMG00000024148
HG1436_HG1432_PATCH	GAGE12H	ENSG00000271354	ENST00000596395	protein_coding	KNOWN	None	31908	354	117	49389382	49396700	1	None	OTTHUMG00000024149
HG1436_HG1432_PATCH	GAGE2A	ENSG00000269016	ENST00000593328	protein_coding	KNOWN	None	4099	351	116	49398928	49406226	1	GAGE2	CT4.2
HG1436_HG1432_PATCH	GAGE1	ENSG00000269663	ENST00000595947	protein_coding	KNOWN	None	4098	420	139	49408424	49417935	1	None	CT4.1
HG1436_HG1432_PATCH	GAGE1	ENSG00000269663	ENST00000594702	protein_coding	KNOWN	None	4098	354	117	49408461	49415754	1	None	CT4.1
HG1436_HG1432_PATCH	VDAC1P2	ENSG00000268004	ENST00000602270	processed_pseudogene	KNOWN	None	12670	None	None	49441899	49442748	-1	VDAC1LP	None
HG1436_HG1432_PATCH	SALL1P1	ENSG00000268185	ENST00000595540	processed_pseudogene	KNOWN	None	10525	None	None	49474243	49478079	-1	SALL1P	None
HG1436_HG1432_PATCH	PAGE1	ENSG00000269840	ENST00000601742	protein_coding	KNOWN	None	4107	441	146	49496849	49505392	-1	GAGEB1	PAGE-1, GAGE-9, CT16.3
HG1436_HG1432_PATCH	PAGE4	ENSG00000268090	ENST00000599013	protein_coding	KNOWN	None	4108	309	102	49638659	49643372	1	GAGEC1	PAGE-4, CT16.7
HG1436_HG1432_PATCH	PAGE4	ENSG00000268090	ENST00000595746	protein_coding	KNOWN	None	4108	309	102	49638702	49643372	1	GAGEC1	PAGE-4, CT16.7
HG1436_HG1432_PATCH	PAGE4	ENSG00000268090	ENST00000593497	processed_transcript	KNOWN	None	4108	None	None	49638747	49640730	1	GAGEC1	PAGE-4, CT16.7
HG1436_HG1432_PATCH	PAGE4	ENSG00000268090	ENST00000599337	processed_transcript	KNOWN	None	4108	None	None	49640083	49643366	1	GAGEC1	PAGE-4, CT16.7
HG1436_HG1432_PATCH	USP27X-AS1	ENSG00000268868	ENST00000599203	lincRNA	KNOWN	None	27249	None	None	49686688	49688640	-1	None	None
HG1436_HG1432_PATCH	None	ENSG00000268425	ENST00000593505	processed_pseudogene	KNOWN	None	None	None	None	49721019	49721761	-1	None	None
HG1436_HG1432_PATCH	CLCN5	ENSG00000269240	ENST00000594930	protein_coding	KNOWN	None	2023	2451	816	49732014	49908634	1	NPHL2, NPHL1	DENTS, XLRH, hClC-K2, hCIC-K2, CLC5, XRN, ClC-5
HG1436_HG1432_PATCH	CLCN5	ENSG00000269240	ENST00000600725	protein_coding	KNOWN	None	2023	2451	816	49732064	49901881	1	NPHL2, NPHL1	DENTS, XLRH, hClC-K2, hCIC-K2, CLC5, XRN, ClC-5
HG1436_HG1432_PATCH	CLCN5	ENSG00000269240	ENST00000597299	processed_transcript	KNOWN	None	2023	None	None	49732187	49851940	1	NPHL2, NPHL1	DENTS, XLRH, hClC-K2, hCIC-K2, CLC5, XRN, ClC-5
HG1436_HG1432_PATCH	CLCN5	ENSG00000269240	ENST00000601418	protein_coding	KNOWN	None	2023	2241	746	49876975	49901805	1	NPHL2, NPHL1	DENTS, XLRH, hClC-K2, hCIC-K2, CLC5, XRN, ClC-5
HG1436_HG1432_PATCH	CLCN5	ENSG00000269240	ENST00000598870	protein_coding	KNOWN	None	2023	2241	746	49878900	49902263	1	NPHL2, NPHL1	DENTS, XLRH, hClC-K2, hCIC-K2, CLC5, XRN, ClC-5
HG1436_HG1432_PATCH	RNU6-421P	ENSG00000268787	ENST00000599702	snRNA	KNOWN	None	47384	None	None	49754735	49754841	-1	None	None
HG1436_HG1432_PATCH	MIR532	ENSG00000268057	ENST00000597052	miRNA	KNOWN	None	32795	None	None	49812547	49812637	1	MIRN532	hsa-mir-532
HG1436_HG1432_PATCH	MIR188	ENSG00000269568	ENST00000593969	miRNA	KNOWN	None	31559	None	None	49812902	49812987	1	MIRN188	hsa-mir-188
HG1436_HG1432_PATCH	None	ENSG00000268795	ENST00000601601	miRNA	NOVEL	None	None	None	None	49816055	49816137	1	None	None
HG1436_HG1432_PATCH	MIR500A	ENSG00000271104	ENST00000596870	miRNA	KNOWN	None	32134	None	None	49817830	49817913	1	MIRN500, MIR500	hsa-mir-500
HG1436_HG1432_PATCH	MIR362	ENSG00000268596	ENST00000599170	miRNA	KNOWN	None	32022	None	None	49818363	49818427	1	MIRN362	hsa-mir-362
HG1436_HG1432_PATCH	MIR501	ENSG00000270245	ENST00000597375	miRNA	KNOWN	None	32135	None	None	49819121	49819204	1	MIRN501	hsa-mir-501
HG1436_HG1432_PATCH	MIR500B	ENSG00000269310	ENST00000596760	miRNA	KNOWN	None	38223	None	None	49820070	49820148	1	None	hsa-mir-500b
HG1436_HG1432_PATCH	MIR660	ENSG00000269033	ENST00000597770	miRNA	KNOWN	None	32916	None	None	49822640	49822736	1	MIRN660	hsa-mir-660
HG1436_HG1432_PATCH	MIR502	ENSG00000271891	ENST00000607465	miRNA	KNOWN	None	32136	None	None	49823997	49824082	1	MIRN502	hsa-mir-502
HG1436_HG1432_PATCH	PYY3	ENSG00000268481	ENST00000599372	processed_pseudogene	KNOWN	None	31855	None	None	49965558	49965770	1	None	OTTHUMG00000021515
HG1436_HG1432_PATCH	None	ENSG00000269039	ENST00000596042	misc_RNA	NOVEL	None	None	None	None	49980596	49980696	-1	None	None
HG1436_HG1432_PATCH	AKAP4	ENSG00000269285	ENST00000601454	protein_coding	KNOWN	None	374	2538	845	50000162	50010412	-1	None	p82, hAKAP82, AKAP82, Fsc1, HI, CT99
HG1436_HG1432_PATCH	AKAP4	ENSG00000269285	ENST00000601275	protein_coding	KNOWN	None	374	1416	471	50000162	50010412	-1	None	p82, hAKAP82, AKAP82, Fsc1, HI, CT99
HG1436_HG1432_PATCH	AKAP4	ENSG00000269285	ENST00000594628	protein_coding	KNOWN	None	374	2565	854	50000167	50010412	-1	None	p82, hAKAP82, AKAP82, Fsc1, HI, CT99
HG1436_HG1432_PATCH	AKAP4	ENSG00000269285	ENST00000594184	protein_coding	KNOWN	None	374	2538	845	50000176	50009771	-1	None	p82, hAKAP82, AKAP82, Fsc1, HI, CT99
HG1436_HG1432_PATCH	AKAP4	ENSG00000269285	ENST00000597804	processed_transcript	KNOWN	None	374	None	None	50000176	50009771	-1	None	p82, hAKAP82, AKAP82, Fsc1, HI, CT99
HG1436_HG1432_PATCH	AKAP4	ENSG00000269285	ENST00000596010	protein_coding	KNOWN	None	374	640	212	50002323	50009771	-1	None	p82, hAKAP82, AKAP82, Fsc1, HI, CT99
HG1436_HG1432_PATCH	AKAP4	ENSG00000269285	ENST00000594732	protein_coding	KNOWN	None	374	763	253	50003322	50009757	-1	None	p82, hAKAP82, AKAP82, Fsc1, HI, CT99
HG1436_HG1432_PATCH	AKAP4	ENSG00000269285	ENST00000601987	processed_transcript	KNOWN	None	374	None	None	50003489	50009771	-1	None	p82, hAKAP82, AKAP82, Fsc1, HI, CT99
HG1436_HG1432_PATCH	CCNB3	ENSG00000268264	ENST00000593943	processed_transcript	KNOWN	None	18709	None	None	50012112	50092435	1	None	None
HG1436_HG1432_PATCH	CCNB3	ENSG00000268264	ENST00000597616	processed_transcript	KNOWN	None	18709	None	None	50013894	50092435	1	None	None
HG1436_HG1432_PATCH	CCNB3	ENSG00000268264	ENST00000597115	protein_coding	KNOWN	None	18709	4188	1395	50014164	50159099	1	None	None
HG1436_HG1432_PATCH	CCNB3	ENSG00000268264	ENST00000598566	protein_coding	KNOWN	None	18709	876	291	50014344	50159099	1	None	None
HG1436_HG1432_PATCH	CCNB3	ENSG00000268264	ENST00000595350	nonsense_mediated_decay	KNOWN	None	18709	336	111	50014344	50159099	1	None	None
HG1436_HG1432_PATCH	CCNB3	ENSG00000268264	ENST00000593643	protein_coding	KNOWN	None	18709	876	291	50091726	50159099	1	None	None
HG1436_HG1432_PATCH	CCNB3	ENSG00000268264	ENST00000594292	protein_coding	KNOWN	None	18709	4188	1395	50091730	50159099	1	None	None
HG1436_HG1432_PATCH	CCNB3	ENSG00000268264	ENST00000593862	retained_intron	KNOWN	None	18709	None	None	50148896	50158905	1	None	None
HG953_PATCH	TGFA	ENSG00000272517	ENST00000607651	protein_coding	KNOWN	None	11765	483	160	70674412	70781147	-1	None	None
HG953_PATCH	TGFA	ENSG00000272517	ENST00000607012	protein_coding	PUTATIVE	None	11765	395	130	70676451	70692865	-1	None	None
HG953_PATCH	TGFA	ENSG00000272517	ENST00000607808	protein_coding	PUTATIVE	None	11765	486	161	70676451	70780904	-1	None	None
HG953_PATCH	TGFA	ENSG00000272517	ENST00000606814	protein_coding	KNOWN	None	11765	480	159	70677305	70780958	-1	None	None
HG953_PATCH	TGFA	ENSG00000272517	ENST00000607390	protein_coding	PUTATIVE	None	11765	498	165	70677788	70780622	-1	None	None
HG953_PATCH	TGFA	ENSG00000272517	ENST00000607257	protein_coding	PUTATIVE	None	11765	501	166	70677904	70780770	-1	None	None
HG953_PATCH	TGFA	ENSG00000272517	ENST00000607725	protein_coding	NOVEL	None	11765	362	119	70683471	70781105	-1	None	None
HG953_PATCH	TGFA	ENSG00000272517	ENST00000606864	processed_transcript	KNOWN	None	11765	None	None	70683498	70780958	-1	None	None
HG953_PATCH	TGFA	ENSG00000272517	ENST00000607087	processed_transcript	PUTATIVE	None	11765	None	None	70741991	70781325	-1	None	None
HG953_PATCH	None	ENSG00000271873	ENST00000606271	miRNA	NOVEL	None	None	None	None	70682662	70682756	-1	None	None
HG953_PATCH	TGFA-IT1	ENSG00000272026	ENST00000607468	sense_intronic	KNOWN	None	41389	None	None	70694517	70695627	-1	None	None
HG953_PATCH	ADD2	ENSG00000271760	ENST00000606120	nonsense_mediated_decay	KNOWN	None	244	2181	726	70834750	70995330	-1	None	ADDB
HG953_PATCH	ADD2	ENSG00000271760	ENST00000607267	protein_coding	KNOWN	None	244	2181	726	70887327	70995309	-1	None	ADDB
HG953_PATCH	ADD2	ENSG00000271760	ENST00000606038	protein_coding	KNOWN	None	244	2181	726	70889262	70994847	-1	None	ADDB
HG953_PATCH	ADD2	ENSG00000271760	ENST00000606698	protein_coding	PUTATIVE	None	244	1932	643	70890615	70995309	-1	None	ADDB
HG953_PATCH	ADD2	ENSG00000271760	ENST00000606113	retained_intron	KNOWN	None	244	None	None	70890630	70900480	-1	None	ADDB
HG953_PATCH	ADD2	ENSG00000271760	ENST00000606312	protein_coding	NOVEL	None	244	839	278	70900443	70933575	-1	None	ADDB
HG953_PATCH	ADD2	ENSG00000271760	ENST00000606970	protein_coding	NOVEL	None	244	997	331	70901810	70933540	-1	None	ADDB
HG953_PATCH	ADD2	ENSG00000271760	ENST00000607524	protein_coding	KNOWN	None	244	1680	559	70902225	70995344	-1	None	ADDB
HG953_PATCH	ADD2	ENSG00000271760	ENST00000607677	protein_coding	KNOWN	None	244	1728	575	70903535	70995329	-1	None	ADDB
HG953_PATCH	ADD2	ENSG00000271760	ENST00000606003	protein_coding	KNOWN	None	244	680	225	70919560	70944910	-1	None	ADDB
HG953_PATCH	ADD2	ENSG00000271760	ENST00000606411	protein_coding	KNOWN	None	244	428	141	70923423	70994601	-1	None	ADDB
HG953_PATCH	ADD2	ENSG00000271760	ENST00000607603	protein_coding	KNOWN	None	244	52	16	70933489	70995328	-1	None	ADDB
HG953_PATCH	ADD2	ENSG00000271760	ENST00000606799	processed_transcript	KNOWN	None	244	None	None	70933545	70995332	-1	None	ADDB
HG953_PATCH	ADD2	ENSG00000271760	ENST00000606333	processed_transcript	PUTATIVE	None	244	None	None	70940202	70995357	-1	None	ADDB
HG953_PATCH	None	ENSG00000272152	ENST00000605900	lincRNA	KNOWN	None	None	None	None	70883916	70885457	-1	None	None
HG953_PATCH	None	ENSG00000272169	ENST00000607185	antisense	KNOWN	None	None	None	None	70914274	70918956	1	None	None
HG953_PATCH	FIGLA	ENSG00000272503	ENST00000606502	protein_coding	KNOWN	None	24669	660	219	71004442	71017775	-1	None	bHLHc8
HG953_PATCH	HMGN2P21	ENSG00000272433	ENST00000606508	processed_pseudogene	KNOWN	None	39386	None	None	71030289	71030558	1	None	None
HG953_PATCH	CLEC4F	ENSG00000272352	ENST00000606720	protein_coding	KNOWN	None	25357	1770	589	71035775	71047732	-1	CLECSF13	FLJ39110, KCLR
HG953_PATCH	CLEC4F	ENSG00000272352	ENST00000606416	protein_coding	PUTATIVE	None	25357	1704	567	71035945	71047679	-1	CLECSF13	FLJ39110, KCLR
HG953_PATCH	None	ENSG00000272095	ENST00000606051	processed_pseudogene	KNOWN	None	None	None	None	71037930	71038606	-1	None	None
HG953_PATCH	CD207	ENSG00000272210	ENST00000605949	protein_coding	KNOWN	None	17935	987	328	71057347	71062953	-1	None	Langerin, CLEC4K
HG953_PATCH	None	ENSG00000272526	ENST00000606354	lincRNA	KNOWN	None	None	None	None	71115002	71117090	1	None	None
HG953_PATCH	VAX2	ENSG00000271772	ENST00000606689	protein_coding	KNOWN	None	12661	873	290	71127721	71160577	1	None	DRES93
HG953_PATCH	None	ENSG00000272353	ENST00000606835	snoRNA	NOVEL	None	None	None	None	71157471	71157546	-1	None	None
HG953_PATCH	ATP6V1B1	ENSG00000271809	ENST00000606226	protein_coding	KNOWN	None	853	1542	513	71163013	71192528	1	VPP3, ATP6B1	VATB, RTA1B, Vma2
HG953_PATCH	ATP6V1B1	ENSG00000271809	ENST00000606444	nonsense_mediated_decay	KNOWN	None	853	747	248	71163033	71192537	1	VPP3, ATP6B1	VATB, RTA1B, Vma2
HG953_PATCH	ATP6V1B1	ENSG00000271809	ENST00000607021	protein_coding	KNOWN	None	853	1491	496	71163052	71192532	1	VPP3, ATP6B1	VATB, RTA1B, Vma2
HG953_PATCH	ATP6V1B1	ENSG00000271809	ENST00000606687	protein_coding	NOVEL	None	853	748	248	71170505	71188163	1	VPP3, ATP6B1	VATB, RTA1B, Vma2
HG953_PATCH	ATP6V1B1	ENSG00000271809	ENST00000606780	protein_coding	NOVEL	None	853	224	73	71170709	71187208	1	VPP3, ATP6B1	VATB, RTA1B, Vma2
HG953_PATCH	ATP6V1B1	ENSG00000271809	ENST00000606941	retained_intron	KNOWN	None	853	None	None	71184902	71187097	1	VPP3, ATP6B1	VATB, RTA1B, Vma2
HG953_PATCH	ATP6V1B1	ENSG00000271809	ENST00000606355	retained_intron	KNOWN	None	853	None	None	71187070	71188951	1	VPP3, ATP6B1	VATB, RTA1B, Vma2
HG953_PATCH	ATP6V1B1	ENSG00000271809	ENST00000607515	protein_coding	PUTATIVE	None	853	355	117	71190753	71192250	1	VPP3, ATP6B1	VATB, RTA1B, Vma2
HG953_PATCH	None	ENSG00000271961	ENST00000607812	protein_coding	PUTATIVE	None	None	594	197	71166449	71222467	-1	None	None
HG953_PATCH	None	ENSG00000271961	ENST00000607792	nonsense_mediated_decay	KNOWN	None	None	148	48	71174671	71221880	-1	None	None
HG953_PATCH	None	ENSG00000272423	ENST00000606302	antisense	KNOWN	None	None	None	None	71168948	71175683	-1	None	None
HG953_PATCH	None	ENSG00000272423	ENST00000606647	antisense	KNOWN	None	None	None	None	71168958	71175741	-1	None	None
HG953_PATCH	TCEB1P21	ENSG00000272111	ENST00000606607	processed_pseudogene	KNOWN	None	38157	None	None	71183030	71183365	-1	None	None
HG953_PATCH	RN7SL160P	ENSG00000272348	ENST00000607046	misc_RNA	KNOWN	None	46176	None	None	71192702	71192996	1	None	None
HG953_PATCH	ANKRD53	ENSG00000271799	ENST00000607239	protein_coding	KNOWN	None	25691	1032	343	71205511	71212627	1	None	FLJ12056, FLJ36160
HG953_PATCH	ANKRD53	ENSG00000271799	ENST00000606943	protein_coding	NOVEL	None	25691	765	254	71205583	71212581	1	None	FLJ12056, FLJ36160
HG953_PATCH	ANKRD53	ENSG00000271799	ENST00000606958	protein_coding	PUTATIVE	None	25691	1491	496	71205638	71212472	1	None	FLJ12056, FLJ36160
HG953_PATCH	ANKRD53	ENSG00000271799	ENST00000607043	protein_coding	PUTATIVE	None	25691	1593	530	71205743	71212470	1	None	FLJ12056, FLJ36160
HG953_PATCH	ANKRD53	ENSG00000271799	ENST00000606415	retained_intron	KNOWN	None	25691	None	None	71206138	71209826	1	None	FLJ12056, FLJ36160
HG953_PATCH	ANKRD53	ENSG00000271799	ENST00000607007	retained_intron	KNOWN	None	25691	None	None	71206142	71209098	1	None	FLJ12056, FLJ36160
HG953_PATCH	ANKRD53	ENSG00000271799	ENST00000607300	retained_intron	KNOWN	None	25691	None	None	71209457	71211356	1	None	FLJ12056, FLJ36160
HG953_PATCH	TEX261	ENSG00000272125	ENST00000605944	protein_coding	KNOWN	None	30712	591	196	71213069	71222076	-1	None	MGC32043, TEG-261
HG953_PATCH	TEX261	ENSG00000272125	ENST00000606329	retained_intron	KNOWN	None	30712	None	None	71213075	71216852	-1	None	MGC32043, TEG-261
HG953_PATCH	TEX261	ENSG00000272125	ENST00000606018	nonsense_mediated_decay	KNOWN	None	30712	156	51	71215485	71221963	-1	None	MGC32043, TEG-261
HG953_PATCH	TEX261	ENSG00000272125	ENST00000607729	processed_transcript	KNOWN	None	30712	None	None	71215731	71221835	-1	None	MGC32043, TEG-261
HG953_PATCH	TEX261	ENSG00000272125	ENST00000606492	retained_intron	KNOWN	None	30712	None	None	71216708	71221934	-1	None	MGC32043, TEG-261
HG953_PATCH	TEX261	ENSG00000272125	ENST00000606844	retained_intron	KNOWN	None	30712	None	None	71218920	71222004	-1	None	MGC32043, TEG-261
HG953_PATCH	None	ENSG00000272318	ENST00000606324	antisense	KNOWN	None	None	None	None	71221574	71222784	1	None	None
HG953_PATCH	None	ENSG00000272318	ENST00000607483	antisense	KNOWN	None	None	None	None	71221641	71229885	1	None	None
HG953_PATCH	None	ENSG00000271718	ENST00000606387	antisense	KNOWN	None	None	None	None	71229662	71291874	-1	None	None
HG953_PATCH	None	ENSG00000272257	ENST00000607152	miRNA	NOVEL	None	None	None	None	71239462	71239538	1	None	None
HG953_PATCH	None	ENSG00000272492	ENST00000607420	miRNA	NOVEL	None	None	None	None	71240220	71240288	-1	None	None
HG953_PATCH	None	ENSG00000272105	ENST00000606931	miRNA	NOVEL	None	None	None	None	71244155	71244240	1	None	None
HG953_PATCH	OR7E91P	ENSG00000271942	ENST00000607167	unprocessed_pseudogene	KNOWN	None	14747	None	None	71256159	71257024	1	None	None
HG357_PATCH	None	ENSG00000272421	ENST00000605965	lincRNA	KNOWN	None	None	None	None	107143410	107147869	1	None	None
HG357_PATCH	None	ENSG00000271735	ENST00000606224	lincRNA	KNOWN	None	None	None	None	107165327	107193879	-1	None	None
HG357_PATCH	None	ENSG00000271735	ENST00000606390	lincRNA	KNOWN	None	None	None	None	107165327	107235300	-1	None	None
HG357_PATCH	None	ENSG00000271735	ENST00000606128	lincRNA	KNOWN	None	None	None	None	107165867	107235306	-1	None	None
HG357_PATCH	None	ENSG00000271735	ENST00000607623	retained_intron	KNOWN	None	None	None	None	107172490	107187962	-1	None	None
HG357_PATCH	None	ENSG00000271735	ENST00000605922	retained_intron	KNOWN	None	None	None	None	107182920	107187650	-1	None	None
HG357_PATCH	None	ENSG00000271735	ENST00000607147	lincRNA	KNOWN	None	None	None	None	107194960	107220168	-1	None	None
HG357_PATCH	None	ENSG00000271735	ENST00000607325	lincRNA	KNOWN	None	None	None	None	107194965	107235349	-1	None	None
HG357_PATCH	None	ENSG00000271735	ENST00000606099	lincRNA	KNOWN	None	None	None	None	107195125	107235310	-1	None	None
HG357_PATCH	None	ENSG00000271735	ENST00000606040	lincRNA	KNOWN	None	None	None	None	107202275	107235416	-1	None	None
HG357_PATCH	None	ENSG00000271735	ENST00000607745	lincRNA	KNOWN	None	None	None	None	107218001	107222879	-1	None	None
HG357_PATCH	None	ENSG00000271735	ENST00000606464	lincRNA	KNOWN	None	None	None	None	107219993	107235354	-1	None	None
HG357_PATCH	None	ENSG00000271735	ENST00000606578	lincRNA	KNOWN	None	None	None	None	107222336	107230342	-1	None	None
HG357_PATCH	RNU6-117P	ENSG00000272528	ENST00000607819	snRNA	KNOWN	None	47080	None	None	107186823	107186929	-1	None	None
HG357_PATCH	MIR587	ENSG00000271764	ENST00000606166	miRNA	KNOWN	None	32843	None	None	107232000	107232095	1	MIRN587	hsa-mir-587
HG357_PATCH	None	ENSG00000272101	ENST00000606820	protein_coding	NOVEL	None	None	270	89	107379652	107379921	-1	None	None
HG357_PATCH	CD24	ENSG00000272398	ENST00000606017	protein_coding	KNOWN	None	1645	243	80	107417708	107422630	-1	None	CD24A
HG357_PATCH	C6orf203	ENSG00000271867	ENST00000607310	protein_coding	KNOWN	None	17971	738	245	107476078	107499215	1	None	HSPC230, PRED31
HG357_PATCH	C6orf203	ENSG00000271867	ENST00000606751	protein_coding	KNOWN	None	17971	723	240	107476078	107499215	1	None	HSPC230, PRED31
HG357_PATCH	C6orf203	ENSG00000271867	ENST00000606920	protein_coding	KNOWN	None	17971	723	240	107476088	107499217	1	None	HSPC230, PRED31
HG357_PATCH	C6orf203	ENSG00000271867	ENST00000606985	processed_transcript	KNOWN	None	17971	None	None	107487867	107488782	1	None	HSPC230, PRED31
HG357_PATCH	BEND3	ENSG00000271753	ENST00000606766	protein_coding	KNOWN	None	23040	2487	828	107513057	107563144	-1	KIAA1553	None
HG357_PATCH	BEND3	ENSG00000271753	ENST00000607422	protein_coding	KNOWN	None	23040	2487	828	107513072	107562307	-1	KIAA1553	None
HG357_PATCH	RNU6-1299P	ENSG00000272013	ENST00000606291	snRNA	KNOWN	None	48262	None	None	107580946	107581045	1	None	None
HG357_PATCH	PDSS2	ENSG00000272309	ENST00000607442	protein_coding	KNOWN	None	23041	1200	399	107600432	107907438	-1	C6orf210	bA59I9.3
HG357_PATCH	PDSS2	ENSG00000272309	ENST00000607846	protein_coding	KNOWN	None	23041	894	297	107602321	107907431	-1	C6orf210	bA59I9.3
HG357_PATCH	PDSS2	ENSG00000272309	ENST00000606022	protein_coding	KNOWN	None	23041	241	79	107645716	107660034	-1	C6orf210	bA59I9.3
HG357_PATCH	PDSS2	ENSG00000272309	ENST00000607324	protein_coding	KNOWN	None	23041	723	240	107712061	107907439	-1	C6orf210	bA59I9.3
HG50_PATCH	None	ENSG00000272222	ENST00000606560	lincRNA	KNOWN	None	None	None	None	92316566	92334585	1	None	None
HG50_PATCH	None	ENSG00000272073	ENST00000607401	lincRNA	KNOWN	None	None	None	None	92414610	92436668	1	None	None
HG50_PATCH	None	ENSG00000272363	ENST00000607155	lincRNA	KNOWN	None	None	None	None	92416642	92417976	-1	None	None
HG1074_PATCH	PARG	ENSG00000271910	ENST00000606131	protein_coding	KNOWN	None	8605	1476	491	51026325	51130715	-1	None	None
HG1074_PATCH	PARG	ENSG00000271910	ENST00000607113	processed_transcript	KNOWN	None	8605	None	None	51040849	51041320	-1	None	None
HG1074_PATCH	PARG	ENSG00000271910	ENST00000607219	processed_transcript	KNOWN	None	8605	None	None	51073367	51075480	-1	None	None
HG1074_PATCH	None	ENSG00000272151	ENST00000606443	processed_pseudogene	KNOWN	None	None	None	None	51117659	51117988	1	None	None
HG1074_PATCH	None	ENSG00000271790	ENST00000606776	snoRNA	NOVEL	None	None	None	None	51162260	51162460	1	None	None
HG1074_PATCH	LINC00843	ENSG00000272331	ENST00000606036	lincRNA	KNOWN	None	45009	None	None	51180809	51189416	1	None	None
HG1074_PATCH	LINC00843	ENSG00000272331	ENST00000606375	lincRNA	KNOWN	None	45009	None	None	51180881	51190099	1	None	None
HG1074_PATCH	RNA5SP317	ENSG00000272074	ENST00000607146	rRNA	KNOWN	None	43217	None	None	51187711	51187826	-1	RN5S317	None
HG1074_PATCH	AGAP6	ENSG00000271962	ENST00000606446	protein_coding	KNOWN	None	23466	1992	663	51196364	51218545	1	CTGLF3	bA324H6.1
HG1074_PATCH	AGAP6	ENSG00000271962	ENST00000606487	protein_coding	PUTATIVE	None	23466	2061	686	51196690	51218471	1	CTGLF3	bA324H6.1
HG1074_PATCH	None	ENSG00000272245	ENST00000607301	processed_transcript	KNOWN	None	None	None	None	51229228	51275849	-1	None	None
HG1074_PATCH	None	ENSG00000272245	ENST00000606075	transcribed_unprocessed_pseudogene	KNOWN	None	None	None	None	51256248	51271422	-1	None	None
HG1074_PATCH	SLC9A3P3	ENSG00000272228	ENST00000607563	processed_pseudogene	KNOWN	None	33492	None	None	51233181	51235409	-1	None	None
HG1074_PATCH	FAM21A	ENSG00000272064	ENST00000606663	protein_coding	KNOWN	None	23416	3963	1320	51275934	51341552	1	None	bA56A21.1
HG1074_PATCH	FAM21A	ENSG00000272064	ENST00000605966	protein_coding	KNOWN	None	23416	3840	1279	51275934	51341552	1	None	bA56A21.1
HG1074_PATCH	FAM21A	ENSG00000272064	ENST00000606795	nonsense_mediated_decay	KNOWN	None	23416	321	106	51275970	51341548	1	None	bA56A21.1
HG1074_PATCH	FAM21A	ENSG00000272064	ENST00000606580	protein_coding	KNOWN	None	23416	4026	1341	51276007	51341192	1	None	bA56A21.1
HG1074_PATCH	FAM21A	ENSG00000272064	ENST00000607764	processed_transcript	KNOWN	None	23416	None	None	51277556	51299551	1	None	bA56A21.1
HG1074_PATCH	FAM21A	ENSG00000272064	ENST00000607170	protein_coding	KNOWN	None	23416	3762	1253	51286172	51341555	1	None	bA56A21.1
HG1074_PATCH	FAM21A	ENSG00000272064	ENST00000607409	processed_transcript	KNOWN	None	23416	None	None	51288922	51293665	1	None	bA56A21.1
HG1074_PATCH	FAM21A	ENSG00000272064	ENST00000607621	protein_coding	KNOWN	None	23416	471	156	51327696	51334554	1	None	bA56A21.1
HG1595_PATCH	ANAPC5	ENSG00000272204	ENST00000607640	retained_intron	KNOWN	None	15713	None	None	121746048	121748197	-1	None	APC5
HG1595_PATCH	ANAPC5	ENSG00000272204	ENST00000607105	retained_intron	KNOWN	None	15713	None	None	121746135	121773412	-1	None	APC5
HG1595_PATCH	ANAPC5	ENSG00000272204	ENST00000607848	nonsense_mediated_decay	KNOWN	None	15713	1189	395	121746160	121775196	-1	None	APC5
HG1595_PATCH	ANAPC5	ENSG00000272204	ENST00000605884	protein_coding	KNOWN	None	15713	1932	643	121746160	121785686	-1	None	APC5
HG1595_PATCH	ANAPC5	ENSG00000272204	ENST00000607400	retained_intron	KNOWN	None	15713	None	None	121746160	121790107	-1	None	APC5
HG1595_PATCH	ANAPC5	ENSG00000272204	ENST00000606422	protein_coding	NOVEL	None	15713	2229	742	121746160	121790191	-1	None	APC5
HG1595_PATCH	ANAPC5	ENSG00000272204	ENST00000607064	protein_coding	KNOWN	None	15713	2268	755	121746160	121790265	-1	None	APC5
HG1595_PATCH	ANAPC5	ENSG00000272204	ENST00000606900	protein_coding	PUTATIVE	None	15713	1266	421	121746161	121769194	-1	None	APC5
HG1595_PATCH	ANAPC5	ENSG00000272204	ENST00000606485	processed_transcript	KNOWN	None	15713	None	None	121746161	121773485	-1	None	APC5
HG1595_PATCH	ANAPC5	ENSG00000272204	ENST00000605978	protein_coding	KNOWN	None	15713	1932	643	121746283	121784798	-1	None	APC5
HG1595_PATCH	ANAPC5	ENSG00000272204	ENST00000606378	processed_transcript	KNOWN	None	15713	None	None	121755693	121775134	-1	None	APC5
HG1595_PATCH	ANAPC5	ENSG00000272204	ENST00000607041	retained_intron	KNOWN	None	15713	None	None	121756338	121758914	-1	None	APC5
HG1595_PATCH	ANAPC5	ENSG00000272204	ENST00000607226	processed_transcript	KNOWN	None	15713	None	None	121764156	121775170	-1	None	APC5
HG1595_PATCH	ANAPC5	ENSG00000272204	ENST00000606750	retained_intron	KNOWN	None	15713	None	None	121764289	121772975	-1	None	APC5
HG1595_PATCH	ANAPC5	ENSG00000272204	ENST00000605939	retained_intron	KNOWN	None	15713	None	None	121766060	121766638	-1	None	APC5
HG1595_PATCH	ANAPC5	ENSG00000272204	ENST00000607392	protein_coding	KNOWN	None	15713	660	219	121766228	121783868	-1	None	APC5
HG1595_PATCH	ANAPC5	ENSG00000272204	ENST00000607596	processed_transcript	KNOWN	None	15713	None	None	121766802	121775198	-1	None	APC5
HG1595_PATCH	ANAPC5	ENSG00000272204	ENST00000607411	retained_intron	KNOWN	None	15713	None	None	121768386	121779874	-1	None	APC5
HG1595_PATCH	ANAPC5	ENSG00000272204	ENST00000607713	retained_intron	KNOWN	None	15713	None	None	121773320	121785678	-1	None	APC5
HG1595_PATCH	ANAPC5	ENSG00000272204	ENST00000607820	protein_coding	PUTATIVE	None	15713	653	216	121773336	121790188	-1	None	APC5
HG1595_PATCH	ANAPC5	ENSG00000272204	ENST00000607137	processed_transcript	KNOWN	None	15713	None	None	121783643	121790220	-1	None	APC5
HG1595_PATCH	ANAPC5	ENSG00000272204	ENST00000606987	protein_coding	NOVEL	None	15713	649	215	121783727	121790198	-1	None	APC5
HG1595_PATCH	ANAPC5	ENSG00000272204	ENST00000607762	protein_coding	KNOWN	None	15713	133	43	121783802	121837699	-1	None	APC5
HG1595_PATCH	ANAPC5	ENSG00000272204	ENST00000607614	retained_intron	KNOWN	None	15713	None	None	121784598	121790130	-1	None	APC5
HG1595_PATCH	None	ENSG00000271866	ENST00000606363	lincRNA	KNOWN	None	None	None	None	121829765	121837662	1	None	None
HG1595_PATCH	RNF34	ENSG00000271829	ENST00000606095	protein_coding	KNOWN	None	17297	1119	372	121837844	121862154	1	None	RIFF, FLJ21786, RIF
HG1595_PATCH	RNF34	ENSG00000271829	ENST00000606383	protein_coding	KNOWN	None	17297	1122	373	121837922	121862151	1	None	RIFF, FLJ21786, RIF
HG1595_PATCH	RNF34	ENSG00000271829	ENST00000606559	retained_intron	KNOWN	None	17297	None	None	121837931	121854412	1	None	RIFF, FLJ21786, RIF
HG1595_PATCH	RNF34	ENSG00000271829	ENST00000607429	retained_intron	KNOWN	None	17297	None	None	121837932	121856543	1	None	RIFF, FLJ21786, RIF
HG1595_PATCH	RNF34	ENSG00000271829	ENST00000606791	protein_coding	PUTATIVE	None	17297	490	162	121837945	121855592	1	None	RIFF, FLJ21786, RIF
HG1595_PATCH	RNF34	ENSG00000271829	ENST00000606568	protein_coding	PUTATIVE	None	17297	1524	507	121837947	121868389	1	None	RIFF, FLJ21786, RIF
HG1595_PATCH	RNF34	ENSG00000271829	ENST00000607227	protein_coding	PUTATIVE	None	17297	138	45	121837950	121861709	1	None	RIFF, FLJ21786, RIF
HG1595_PATCH	RNF34	ENSG00000271829	ENST00000606906	protein_coding	PUTATIVE	None	17297	222	73	121847258	121855324	1	None	RIFF, FLJ21786, RIF
HG1595_PATCH	RNF34	ENSG00000271829	ENST00000607341	protein_coding	PUTATIVE	None	17297	113	36	121847278	121854089	1	None	RIFF, FLJ21786, RIF
HG1595_PATCH	RNF34	ENSG00000271829	ENST00000607748	retained_intron	KNOWN	None	17297	None	None	121857701	121862152	1	None	RIFF, FLJ21786, RIF
HG1595_PATCH	KDM2B	ENSG00000272358	ENST00000606773	protein_coding	KNOWN	None	13610	3798	1265	121866900	122018262	-1	FBXL10	PCCX2, CXXC2, Fbl10, JHDM1B
HG1595_PATCH	KDM2B	ENSG00000272358	ENST00000607408	protein_coding	PUTATIVE	None	13610	2115	704	121867312	121947509	-1	FBXL10	PCCX2, CXXC2, Fbl10, JHDM1B
HG1595_PATCH	KDM2B	ENSG00000272358	ENST00000607235	retained_intron	KNOWN	None	13610	None	None	121867312	121987442	-1	FBXL10	PCCX2, CXXC2, Fbl10, JHDM1B
HG1595_PATCH	KDM2B	ENSG00000272358	ENST00000606143	protein_coding	KNOWN	None	13610	4011	1336	121867580	122018787	-1	FBXL10	PCCX2, CXXC2, Fbl10, JHDM1B
HG1595_PATCH	KDM2B	ENSG00000272358	ENST00000605998	nonsense_mediated_decay	KNOWN	None	13610	315	104	121867674	122018757	-1	FBXL10	PCCX2, CXXC2, Fbl10, JHDM1B
HG1595_PATCH	KDM2B	ENSG00000272358	ENST00000606409	protein_coding	KNOWN	None	13610	1680	559	121867674	122018757	-1	FBXL10	PCCX2, CXXC2, Fbl10, JHDM1B
HG1595_PATCH	KDM2B	ENSG00000272358	ENST00000607649	retained_intron	KNOWN	None	13610	None	None	121877716	121879047	-1	FBXL10	PCCX2, CXXC2, Fbl10, JHDM1B
HG1595_PATCH	KDM2B	ENSG00000272358	ENST00000607485	retained_intron	KNOWN	None	13610	None	None	121881818	121908356	-1	FBXL10	PCCX2, CXXC2, Fbl10, JHDM1B
HG1595_PATCH	KDM2B	ENSG00000272358	ENST00000606758	protein_coding	PUTATIVE	None	13610	1524	507	121931649	122018818	-1	FBXL10	PCCX2, CXXC2, Fbl10, JHDM1B
HG1595_PATCH	KDM2B	ENSG00000272358	ENST00000605969	protein_coding	PUTATIVE	None	13610	1531	509	121947375	122017447	-1	FBXL10	PCCX2, CXXC2, Fbl10, JHDM1B
HG1595_PATCH	KDM2B	ENSG00000272358	ENST00000606477	protein_coding	PUTATIVE	None	13610	377	124	121947746	121962598	-1	FBXL10	PCCX2, CXXC2, Fbl10, JHDM1B
HG1595_PATCH	KDM2B	ENSG00000272358	ENST00000607577	protein_coding	PUTATIVE	None	13610	514	170	121947810	121973872	-1	FBXL10	PCCX2, CXXC2, Fbl10, JHDM1B
HG1595_PATCH	KDM2B	ENSG00000272358	ENST00000606345	protein_coding	PUTATIVE	None	13610	464	153	121951096	121972463	-1	FBXL10	PCCX2, CXXC2, Fbl10, JHDM1B
HG1595_PATCH	KDM2B	ENSG00000272358	ENST00000607085	protein_coding	PUTATIVE	None	13610	125	40	121951131	121973931	-1	FBXL10	PCCX2, CXXC2, Fbl10, JHDM1B
HG1595_PATCH	KDM2B	ENSG00000272358	ENST00000605931	protein_coding	PUTATIVE	None	13610	372	123	121954150	121975419	-1	FBXL10	PCCX2, CXXC2, Fbl10, JHDM1B
HG1595_PATCH	KDM2B	ENSG00000272358	ENST00000607536	protein_coding	PUTATIVE	None	13610	293	96	121958849	121974038	-1	FBXL10	PCCX2, CXXC2, Fbl10, JHDM1B
HG1595_PATCH	KDM2B	ENSG00000272358	ENST00000607317	protein_coding	PUTATIVE	None	13610	540	179	121970649	122018028	-1	FBXL10	PCCX2, CXXC2, Fbl10, JHDM1B
HG1595_PATCH	KDM2B	ENSG00000272358	ENST00000606632	retained_intron	KNOWN	None	13610	None	None	122012168	122017943	-1	FBXL10	PCCX2, CXXC2, Fbl10, JHDM1B
HG1595_PATCH	None	ENSG00000271720	ENST00000607428	lincRNA	KNOWN	None	None	None	None	122018595	122031307	1	None	None
HG1595_PATCH	RNU6-1004P	ENSG00000272044	ENST00000607546	snRNA	KNOWN	None	47967	None	None	122042705	122042815	1	None	None
HG1595_PATCH	ORAI1	ENSG00000272171	ENST00000607141	protein_coding	KNOWN	None	25896	912	303	122064353	122080481	1	TMEM142A	FLJ14466, CRACM1
HG1595_PATCH	ORAI1	ENSG00000272171	ENST00000606103	protein_coding	PUTATIVE	None	25896	487	161	122064619	122079337	1	TMEM142A	FLJ14466, CRACM1
HG1595_PATCH	MORN3	ENSG00000271801	ENST00000607775	protein_coding	KNOWN	None	29807	723	240	122088922	122107458	-1	None	None
HG1595_PATCH	MORN3	ENSG00000271801	ENST00000607636	nonsense_mediated_decay	KNOWN	None	29807	483	160	122089196	122107454	-1	None	None
HG1595_PATCH	MORN3	ENSG00000271801	ENST00000606616	nonsense_mediated_decay	KNOWN	None	29807	483	160	122089196	122110435	-1	None	None
HG944_PATCH	None	ENSG00000272290	ENST00000606608	lincRNA	KNOWN	None	None	None	None	54036874	54043735	-1	None	None
HG944_PATCH	None	ENSG00000272038	ENST00000607099	lincRNA	KNOWN	None	None	None	None	54039558	54043230	1	None	None
HG944_PATCH	None	ENSG00000272038	ENST00000606209	lincRNA	KNOWN	None	None	None	None	54039581	54084752	1	None	None
HG944_PATCH	None	ENSG00000272038	ENST00000606594	lincRNA	KNOWN	None	None	None	None	54039603	54043328	1	None	None
HG944_PATCH	None	ENSG00000272038	ENST00000606414	lincRNA	KNOWN	None	None	None	None	54039908	54043230	1	None	None
HG1426_PATCH	FGF16	ENSG00000268853	ENST00000600602	protein_coding	KNOWN	None	3672	350	115	76715111	76718232	1	None	None
HG1426_PATCH	ATRX	ENSG00000268946	ENST00000596097	protein_coding	KNOWN	None	886	7479	2492	76765832	77047170	-1	RAD54, JMS	XH2, XNP
HG1426_PATCH	ATRX	ENSG00000268946	ENST00000594972	protein_coding	KNOWN	None	886	7365	2454	76765854	77047170	-1	RAD54, JMS	XH2, XNP
HG1426_PATCH	ATRX	ENSG00000268946	ENST00000601165	processed_transcript	KNOWN	None	886	None	None	76765854	77047170	-1	RAD54, JMS	XH2, XNP
HG1426_PATCH	ATRX	ENSG00000268946	ENST00000594359	processed_transcript	KNOWN	None	886	None	None	76860689	76861709	-1	RAD54, JMS	XH2, XNP
HG1426_PATCH	ATRX	ENSG00000268946	ENST00000598135	protein_coding	KNOWN	None	886	482	159	76877206	76881486	-1	RAD54, JMS	XH2, XNP
HG1426_PATCH	ATRX	ENSG00000268946	ENST00000596711	processed_transcript	KNOWN	None	886	None	None	76895376	76897010	-1	RAD54, JMS	XH2, XNP
HG1426_PATCH	ATRX	ENSG00000268946	ENST00000597875	processed_transcript	KNOWN	None	886	None	None	76936994	76942555	-1	RAD54, JMS	XH2, XNP
HG1426_PATCH	ATRX	ENSG00000268946	ENST00000600142	protein_coding	KNOWN	None	886	381	126	76954653	76978197	-1	RAD54, JMS	XH2, XNP
HG1426_PATCH	FABP5P15	ENSG00000269744	ENST00000600954	processed_pseudogene	KNOWN	None	31071	None	None	76988821	76989034	1	FABP5L15	None
HG1426_PATCH	MAGT1	ENSG00000269639	ENST00000597951	protein_coding	KNOWN	None	28880	1104	367	77087318	77156547	-1	None	DKFZp564K142, IAP, OST3B, MRX95
HG1426_PATCH	MAGT1	ENSG00000269639	ENST00000593778	retained_intron	KNOWN	None	28880	None	None	77117414	77156378	-1	None	DKFZp564K142, IAP, OST3B, MRX95
HG1426_PATCH	MAGT1	ENSG00000269639	ENST00000593987	protein_coding	PUTATIVE	None	28880	405	134	77129062	77156394	-1	None	DKFZp564K142, IAP, OST3B, MRX95
HG1426_PATCH	None	ENSG00000269355	ENST00000601457	protein_coding	NOVEL	None	None	231	76	77087321	77088227	1	None	None
HG1426_PATCH	RNU6-854P	ENSG00000268385	ENST00000593481	snRNA	KNOWN	None	47817	None	None	77098243	77098349	1	None	None
HG1426_PATCH	RN7SL460P	ENSG00000269702	ENST00000601859	misc_RNA	KNOWN	None	46476	None	None	77146331	77146584	1	None	None
HG1426_PATCH	COX7B	ENSG00000269083	ENST00000600994	processed_transcript	KNOWN	None	2291	None	None	77160392	77166229	1	None	None
HG1426_PATCH	COX7B	ENSG00000269083	ENST00000598404	protein_coding	KNOWN	None	2291	243	80	77160392	77168327	1	None	None
HG1426_PATCH	COX7B	ENSG00000269083	ENST00000597485	processed_transcript	KNOWN	None	2291	None	None	77160417	77164150	1	None	None
HG1426_PATCH	ATP7A	ENSG00000269395	ENST00000596158	protein_coding	KNOWN	None	869	4269	1422	77171651	77311349	1	MNK	None
HG1426_PATCH	ATP7A	ENSG00000269395	ENST00000597166	protein_coding	KNOWN	None	869	1512	503	77171651	77311349	1	MNK	None
HG1426_PATCH	ATP7A	ENSG00000269395	ENST00000594103	protein_coding	KNOWN	None	869	4503	1500	77171656	77311349	1	MNK	None
HG1426_PATCH	None	ENSG00000269803	ENST00000602364	processed_transcript	KNOWN	None	None	None	None	77171695	77225844	1	None	None
HG1426_PATCH	None	ENSG00000269803	ENST00000600192	transcribed_processed_pseudogene	KNOWN	None	None	None	None	77223507	77223843	1	None	None
HG1426_PATCH	PGAM4	ENSG00000269135	ENST00000598154	protein_coding	KNOWN	None	21731	765	254	77228915	77230592	-1	None	dJ1000K24.1, PGAM3, PGAM-B, PGAM1
HG1426_PATCH	PGK1	ENSG00000269666	ENST00000602072	processed_transcript	KNOWN	None	8896	None	None	77326142	77374798	1	None	None
HG1426_PATCH	PGK1	ENSG00000269666	ENST00000596897	processed_transcript	KNOWN	None	8896	None	None	77326170	77383857	1	None	None
HG1426_PATCH	PGK1	ENSG00000269666	ENST00000597340	protein_coding	KNOWN	None	8896	1254	417	77365128	77390250	1	None	None
HG1426_PATCH	PGK1	ENSG00000269666	ENST00000593375	protein_coding	KNOWN	None	8896	846	281	77365209	77387218	1	None	None
HG1426_PATCH	PGK1	ENSG00000269666	ENST00000593893	protein_coding	KNOWN	None	8896	1170	389	77367316	77387054	1	None	None
HG1426_PATCH	PGK1	ENSG00000269666	ENST00000595536	processed_transcript	KNOWN	None	8896	None	None	77383793	77384292	1	None	None
HG1426_PATCH	PGK1	ENSG00000269666	ENST00000595917	processed_transcript	KNOWN	None	8896	None	None	77385898	77387221	1	None	None
HG1426_PATCH	TAF9B	ENSG00000269257	ENST00000598686	protein_coding	KNOWN	None	17306	756	251	77390702	77400660	-1	TAF9L	TAFII31L, DN-7, DN7, TFIID-31
HG1426_PATCH	TAF9B	ENSG00000269257	ENST00000594158	retained_intron	KNOWN	None	17306	None	None	77392675	77400576	-1	TAF9L	TAFII31L, DN-7, DN7, TFIID-31
HG1426_PATCH	FNDC3CP	ENSG00000269346	ENST00000596324	unitary_pseudogene	KNOWN	None	35452	None	None	77426650	77433376	-1	None	None
HSCHR10_1_CTG2	ARMC4P1	ENSG00000263183	ENST00000575133	processed_transcript	KNOWN	None	44937	None	None	27547691	27577753	1	None	None
HSCHR10_1_CTG2	ARMC4P1	ENSG00000263183	ENST00000575990	transcribed_unprocessed_pseudogene	KNOWN	None	44937	None	None	27551886	27577753	1	None	None
HSCHR10_1_CTG2	None	ENSG00000262241	ENST00000573604	unprocessed_pseudogene	KNOWN	None	None	None	None	27667586	27677481	-1	None	None
HSCHR10_1_CTG2	None	ENSG00000261982	ENST00000572052	lincRNA	KNOWN	None	None	None	None	27679665	27681146	1	None	None
HSCHR10_1_CTG2	FAM210CP	ENSG00000262255	ENST00000572082	processed_pseudogene	KNOWN	None	44938	None	None	27685946	27686519	-1	None	None
HSCHR10_1_CTG2	TRIAP1P1	ENSG00000263055	ENST00000575407	processed_pseudogene	KNOWN	None	31659	None	None	27714367	27714591	-1	C10orf135	bA748L13.4
HSCHR10_1_CTG2	PTCHD3	ENSG00000262672	ENST00000570930	protein_coding	KNOWN	None	24776	2304	767	27734416	27750597	-1	None	FLJ44037, PTR
HSCHR10_1_CTG5	None	ENSG00000262093	ENST00000576555	protein_coding	NOVEL	None	None	693	230	45682910	45693771	-1	None	None
HSCHR15_1_CTG4	RPL41P2	ENSG00000263340	ENST00000575972	processed_pseudogene	KNOWN	None	10357	None	None	28560798	28561102	1	None	None
HSCHR15_1_CTG4	None	ENSG00000262504	ENST00000576997	unprocessed_pseudogene	KNOWN	None	None	None	None	28591635	28591792	1	None	None
HSCHR15_1_CTG4	None	ENSG00000262821	ENST00000575488	unprocessed_pseudogene	KNOWN	None	None	None	None	28802678	28806543	1	None	None
HSCHR15_1_CTG4	None	ENSG00000261957	ENST00000573455	unprocessed_pseudogene	KNOWN	None	None	None	None	28810338	28818145	1	None	None
HSCHR15_1_CTG4	None	ENSG00000261957	ENST00000572190	unprocessed_pseudogene	KNOWN	None	None	None	None	28810404	28818145	1	None	None
HSCHR15_1_CTG4	None	ENSG00000262824	ENST00000571013	unprocessed_pseudogene	KNOWN	None	None	None	None	28821752	28821918	-1	None	None
HSCHR15_1_CTG4	None	ENSG00000262364	ENST00000575577	unprocessed_pseudogene	KNOWN	None	None	None	None	28831785	28836166	-1	None	None
HSCHR16_1_CTG3_1	None	ENSG00000262617	ENST00000576685	protein_coding	NOVEL	None	None	1014	337	55822855	55840290	1	None	None
HSCHR17_1_CTG1	None	ENSG00000262737	ENST00000573074	antisense	KNOWN	None	None	None	None	189016	190077	1	None	None
HSCHR17_1_CTG1	None	ENSG00000262737	ENST00000576753	antisense	KNOWN	None	None	None	None	189141	190077	1	None	None
HSCHR17_1_CTG1	None	ENSG00000263267	ENST00000574589	antisense	KNOWN	None	None	None	None	198829	201112	1	None	None
HSCHR17_1_CTG1	None	ENSG00000263267	ENST00000572372	retained_intron	KNOWN	None	None	None	None	198858	201109	1	None	None
HSCHR17_1_CTG1	None	ENSG00000263267	ENST00000572960	retained_intron	KNOWN	None	None	None	None	199139	199775	1	None	None
HSCHR17_1_CTG1	None	ENSG00000263267	ENST00000574432	antisense	KNOWN	None	None	None	None	199766	201068	1	None	None
HSCHR17_1_CTG1	None	ENSG00000262336	ENST00000577132	antisense	KNOWN	None	None	None	None	220262	225205	1	None	None
HSCHR17_1_CTG1	None	ENSG00000262005	ENST00000575999	antisense	KNOWN	None	None	None	None	222361	224506	1	None	None
HSCHR17_2_CTG4	None	ENSG00000267386	ENST00000592089	lincRNA	KNOWN	None	None	None	None	68308972	68371110	-1	None	None
HSCHR17_3_CTG4	None	ENSG00000265120	ENST00000581443	lincRNA	KNOWN	None	None	None	None	75265441	75266093	-1	None	None
HSCHR17_3_CTG4	None	ENSG00000265120	ENST00000584311	lincRNA	KNOWN	None	None	None	None	75265441	75282030	-1	None	None
HSCHR17_3_CTG4	None	ENSG00000265120	ENST00000581403	lincRNA	KNOWN	None	None	None	None	75281488	75289601	-1	None	None
HSCHR17_3_CTG4	None	ENSG00000263837	ENST00000578154	lincRNA	KNOWN	None	None	None	None	75271884	75272480	-1	None	None
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000593070	protein_coding	PUTATIVE	None	7323	375	124	75288273	75410106	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000574891	protein_coding	KNOWN	None	7323	1761	586	75289114	75508296	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000587371	nonsense_mediated_decay	KNOWN	None	7323	135	44	75289141	75410033	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000588583	protein_coding	KNOWN	None	7323	1704	567	75289155	75506733	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000591138	nonsense_mediated_decay	KNOWN	None	7323	72	23	75294011	75410153	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000576289	protein_coding	PUTATIVE	None	7323	1269	422	75295595	75508300	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000571241	protein_coding	KNOWN	None	7323	1269	422	75295595	75508296	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000587284	processed_transcript	KNOWN	None	7323	None	None	75295653	75409904	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000587968	protein_coding	KNOWN	None	7323	1707	568	75327219	75508300	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000576977	protein_coding	KNOWN	None	7323	1707	568	75327219	75508296	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000589546	nonsense_mediated_decay	KNOWN	None	7323	273	90	75327296	75496465	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000588775	protein_coding	PUTATIVE	None	7323	403	133	75327306	75410407	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000591426	protein_coding	PUTATIVE	None	7323	454	150	75328017	75410119	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000586105	protein_coding	KNOWN	None	7323	1269	422	75330314	75508297	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000588091	processed_transcript	KNOWN	None	7323	None	None	75331410	75410159	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000573468	protein_coding	KNOWN	None	7323	1740	579	75380894	75508298	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000590451	protein_coding	PUTATIVE	None	7323	478	158	75381041	75495241	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000591071	processed_transcript	KNOWN	None	7323	None	None	75381637	75410097	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000592025	processed_transcript	KNOWN	None	7323	None	None	75381881	75410153	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000590844	processed_transcript	PUTATIVE	None	7323	None	None	75383625	75409793	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000574362	protein_coding	KNOWN	None	7323	1269	422	75383787	75508298	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000588045	protein_coding	PUTATIVE	None	7323	456	151	75387827	75410187	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000590338	protein_coding	PUTATIVE	None	7323	105	34	75408262	75410283	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000587141	processed_transcript	KNOWN	None	7323	None	None	75408288	75410093	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000590911	protein_coding	PUTATIVE	None	7323	570	189	75409805	75491832	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000591262	protein_coding	KNOWN	None	7323	1089	362	75412781	75506645	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000587043	protein_coding	PUTATIVE	None	7323	471	156	75427506	75496530	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000585796	protein_coding	PUTATIVE	None	7323	323	106	75434660	75495977	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000587949	protein_coding	NOVEL	None	7323	627	208	75458271	75498563	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000586917	protein_coding	PUTATIVE	None	7323	347	114	75458280	75496001	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000575088	protein_coding	KNOWN	None	7323	1008	335	75458441	75508298	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000587983	protein_coding	PUTATIVE	None	7323	586	194	75458552	75498522	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000590634	processed_transcript	KNOWN	None	7323	None	None	75458948	75504071	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000591339	protein_coding	KNOWN	None	7323	1008	335	75458948	75506728	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000592667	protein_coding	PUTATIVE	None	7323	407	134	75461529	75496466	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000585924	protein_coding	KNOWN	None	7323	1008	335	75461697	75506744	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000590691	protein_coding	PUTATIVE	None	7323	455	150	75461731	75496514	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000585440	protein_coding	PUTATIVE	None	7323	496	164	75461776	75496555	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000591801	protein_coding	PUTATIVE	None	7323	174	57	75461784	75495197	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000587293	protein_coding	PUTATIVE	None	7323	382	126	75464070	75496441	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000590443	protein_coding	PUTATIVE	None	7323	627	208	75474107	75498563	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000574853	protein_coding	KNOWN	None	7323	1425	474	75482947	75508296	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000590572	protein_coding	PUTATIVE	None	7323	314	103	75489614	75495968	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000588313	protein_coding	PUTATIVE	None	7323	433	143	75489617	75496492	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000593252	retained_intron	KNOWN	None	7323	None	None	75496507	75500934	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000586414	retained_intron	KNOWN	None	7323	None	None	75498512	75505318	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR17_3_CTG4	SEPT9	ENSG00000261843	ENST00000586865	retained_intron	KNOWN	None	7323	None	None	75504779	75506528	1	MSF	MSF1, KIAA0991, PNUTL4, AF17q25, SeptD1
HSCHR18_1_CTG1_1	None	ENSG00000267738	ENST00000585353	lincRNA	KNOWN	None	None	None	None	47828560	47839965	1	None	None
HSCHR18_1_CTG1_1	MAPK4	ENSG00000262673	ENST00000576626	protein_coding	KNOWN	None	6878	1764	587	48093680	48265426	1	PRKM4	Erk3-related, Erk4
HSCHR18_1_CTG1_1	MAPK4	ENSG00000262673	ENST00000570405	protein_coding	PUTATIVE	None	6878	1131	376	48093735	48263703	1	PRKM4	Erk3-related, Erk4
HSCHR18_1_CTG1_1	MAPK4	ENSG00000262673	ENST00000587800	protein_coding	NOVEL	None	6878	702	233	48093744	48265426	1	PRKM4	Erk3-related, Erk4
HSCHR18_1_CTG1_1	MAPK4	ENSG00000262673	ENST00000587115	protein_coding	PUTATIVE	None	6878	846	281	48094244	48239741	1	PRKM4	Erk3-related, Erk4
HSCHR18_1_CTG1_1	MAPK4	ENSG00000262673	ENST00000590896	processed_transcript	KNOWN	None	6878	None	None	48163020	48196801	1	PRKM4	Erk3-related, Erk4
HSCHR18_1_CTG1_1	MAPK4	ENSG00000262673	ENST00000591988	processed_transcript	KNOWN	None	6878	None	None	48197901	48203444	1	PRKM4	Erk3-related, Erk4
HSCHR18_1_CTG2_1	None	ENSG00000266424	ENST00000585010	lincRNA	KNOWN	None	None	None	None	76265165	76266410	1	None	None
HSCHR18_2_CTG2	None	ENSG00000265742	ENST00000583563	antisense	KNOWN	None	None	None	None	65243275	65247982	1	None	None
HSCHR18_2_CTG2	None	ENSG00000265742	ENST00000582728	antisense	KNOWN	None	None	None	None	65243275	65250716	1	None	None
HSCHR18_2_CTG2	None	ENSG00000263496	ENST00000581436	lincRNA	KNOWN	None	None	None	None	65253232	65636305	1	None	None
HSCHR19_1_CTG3	None	ENSG00000268899	ENST00000599413	lincRNA	KNOWN	None	None	None	None	20929729	20938056	-1	None	None
HSCHR19_1_CTG3	VN1R79P	ENSG00000268386	ENST00000595719	unprocessed_pseudogene	KNOWN	None	37400	None	None	20941246	20941758	1	None	None
HSCHR19_1_CTG3	None	ENSG00000269111	ENST00000594815	processed_pseudogene	KNOWN	None	None	None	None	20967402	20967958	-1	None	None
HSCHR19_1_CTG3	None	ENSG00000268958	ENST00000602005	lincRNA	KNOWN	None	None	None	None	21161484	21172432	1	None	None
HSCHR19_1_CTG3	None	ENSG00000271285	ENST00000604284	processed_pseudogene	KNOWN	None	None	None	None	21215137	21215263	-1	None	None
HSCHR19_1_CTG3_1	KIAA0355	ENSG00000262924	ENST00000573787	protein_coding	KNOWN	None	29016	3213	1070	34752615	34853664	1	None	None
HSCHR19_1_CTG3_1	KIAA0355	ENSG00000262924	ENST00000591769	protein_coding	PUTATIVE	None	29016	233	76	34752630	34818094	1	None	None
HSCHR19_1_CTG3_1	KIAA0355	ENSG00000262924	ENST00000586603	protein_coding	KNOWN	None	29016	94	30	34752659	34798645	1	None	None
HSCHR19_1_CTG3_1	KIAA0355	ENSG00000262924	ENST00000586712	protein_coding	PUTATIVE	None	29016	94	30	34752675	34850909	1	None	None
HSCHR19_1_CTG3_1	KIAA0355	ENSG00000262924	ENST00000588829	processed_transcript	KNOWN	None	29016	None	None	34763636	34798548	1	None	None
HSCHR19_1_CTG3_1	KIAA0355	ENSG00000262924	ENST00000590458	processed_transcript	KNOWN	None	29016	None	None	34763646	34798162	1	None	None
HSCHR19_1_CTG3_1	KIAA0355	ENSG00000262924	ENST00000591874	retained_intron	KNOWN	None	29016	None	None	34846540	34851266	1	None	None
HSCHR19_1_CTG3_1	None	ENSG00000272165	ENST00000606323	protein_coding	KNOWN	None	None	456	151	34774456	34776522	1	None	None
HSCHR19_3_CTG3	None	ENSG00000269013	ENST00000596609	processed_pseudogene	KNOWN	None	None	None	None	22313127	22313291	1	None	None
HSCHR19_3_CTG3	None	ENSG00000268641	ENST00000595364	processed_pseudogene	KNOWN	None	None	None	None	22323334	22323919	1	None	None
HSCHR19_3_CTG3	VN1R85P	ENSG00000267822	ENST00000594595	unprocessed_pseudogene	KNOWN	None	37405	None	None	22357568	22357993	-1	None	None
HSCHR19_3_CTG3	None	ENSG00000269498	ENST00000601928	processed_pseudogene	KNOWN	None	None	None	None	22385922	22386797	1	None	None
HSCHR19_3_CTG3	None	ENSG00000268571	ENST00000593868	lincRNA	KNOWN	None	None	None	None	22434263	22436356	-1	None	None
HSCHR19_3_CTG3	None	ENSG00000268315	ENST00000595834	lincRNA	KNOWN	None	None	None	None	22450702	22452344	1	None	None
HSCHR19_3_CTG3	ZNF729	ENSG00000262918	ENST00000596562	protein_coding	NOVEL	None	32464	3759	1252	22477417	22508185	1	None	None
HSCHR19_3_CTG3	ZNF729	ENSG00000262918	ENST00000570694	protein_coding	KNOWN	None	32464	3519	1172	22477459	22508158	1	None	None
HSCHR19_3_CTG3	None	ENSG00000271273	ENST00000605432	processed_pseudogene	KNOWN	None	None	None	None	22489986	22490877	-1	None	None
HSCHR1_1_CTG31	None	ENSG00000269823	ENST00000599578	protein_coding	KNOWN	None	None	423	140	153762078	153763786	-1	None	None
HSCHR2_1_CTG1	None	ENSG00000262949	ENST00000575809	lincRNA	KNOWN	None	None	None	None	36587925	36588290	-1	None	None
HSCHR6_1_CTG5	None	ENSG00000262455	ENST00000572207	processed_pseudogene	KNOWN	None	None	None	None	80143789	80144323	-1	None	None
HSCHR9_1_CTG35	None	ENSG00000263299	ENST00000572238	3prime_overlapping_ncrna	KNOWN	None	None	None	None	72051359	72051832	-1	None	None
HSCHR9_1_CTG35	None	ENSG00000261926	ENST00000574482	antisense	KNOWN	None	None	None	None	72095578	72117625	1	None	None
HSCHR5_3_CTG1	None	ENSG00000271165	ENST00000603192	processed_pseudogene	KNOWN	None	None	None	None	29114554	29115847	-1	None	None
HSCHR5_1_CTG1	None	ENSG00000270303	ENST00000603570	processed_pseudogene	KNOWN	None	None	None	None	68645774	68646283	1	None	None
HSCHR12_2_CTG2	None	ENSG00000268763	ENST00000602245	protein_coding	NOVEL	None	None	189	62	11187087	11187275	1	None	None
HSCHR19LRC_COX1_CTG1	VSTM1	ENSG00000272059	ENST00000606721	protein_coding	NOVEL	None	29455	381	126	54544079	54561677	-1	None	UNQ3033
HSCHR19LRC_COX1_CTG1	VSTM1	ENSG00000272059	ENST00000607732	protein_coding	KNOWN	None	29455	711	236	54544079	54567207	-1	None	UNQ3033
HSCHR19LRC_COX1_CTG1	VSTM1	ENSG00000272059	ENST00000606317	nonsense_mediated_decay	KNOWN	None	29455	525	174	54544083	54567207	-1	None	UNQ3033
HSCHR19LRC_COX1_CTG1	VSTM1	ENSG00000272059	ENST00000606077	protein_coding	KNOWN	None	29455	618	205	54544087	54567207	-1	None	UNQ3033
HSCHR19LRC_COX1_CTG1	VSTM1	ENSG00000272059	ENST00000607777	protein_coding	KNOWN	None	29455	447	148	54544204	54567042	-1	None	UNQ3033
HSCHR19LRC_COX1_CTG1	VSTM1	ENSG00000272059	ENST00000606431	protein_coding	KNOWN	None	29455	432	143	54544204	54567042	-1	None	UNQ3033
HSCHR19LRC_COX1_CTG1	TARM1	ENSG00000272194	ENST00000606450	protein_coding	PUTATIVE	None	37250	840	279	54573149	54579813	-1	None	None
HSCHR19LRC_COX1_CTG1	TARM1	ENSG00000272194	ENST00000607015	protein_coding	KNOWN	None	37250	816	271	54573201	54584634	-1	None	None
HSCHR19LRC_COX1_CTG1	OSCAR	ENSG00000272530	ENST00000606172	protein_coding	PUTATIVE	None	29960	816	271	54597933	54604083	-1	None	None
HSCHR19LRC_COX1_CTG1	OSCAR	ENSG00000272530	ENST00000606949	protein_coding	KNOWN	None	29960	804	267	54597935	54604083	-1	None	None
HSCHR19LRC_COX1_CTG1	OSCAR	ENSG00000272530	ENST00000606116	protein_coding	PUTATIVE	None	29960	861	286	54597935	54604106	-1	None	None
HSCHR19LRC_COX1_CTG1	OSCAR	ENSG00000272530	ENST00000606777	protein_coding	KNOWN	None	29960	792	263	54597935	54604129	-1	None	None
HSCHR19LRC_COX1_CTG1	OSCAR	ENSG00000272530	ENST00000607568	protein_coding	KNOWN	None	29960	759	252	54597935	54604148	-1	None	None
HSCHR19LRC_COX1_CTG1	OSCAR	ENSG00000272530	ENST00000607724	protein_coding	NOVEL	None	29960	849	282	54597935	54606000	-1	None	None
HSCHR19LRC_COX1_CTG1	OSCAR	ENSG00000272530	ENST00000607587	protein_coding	PUTATIVE	None	29960	486	161	54599039	54604132	-1	None	None
HSCHR19LRC_COX1_CTG1	NDUFA3	ENSG00000271844	ENST00000606141	nonsense_mediated_decay	KNOWN	None	7686	198	65	54606036	54610268	1	None	B9
HSCHR19LRC_COX1_CTG1	NDUFA3	ENSG00000271844	ENST00000607562	nonsense_mediated_decay	KNOWN	None	7686	255	84	54606129	54612011	1	None	B9
HSCHR19LRC_COX1_CTG1	NDUFA3	ENSG00000271844	ENST00000606565	protein_coding	KNOWN	None	7686	255	84	54606145	54610875	1	None	B9
HSCHR19LRC_COX1_CTG1	NDUFA3	ENSG00000271844	ENST00000606495	protein_coding	PUTATIVE	None	7686	219	72	54606160	54610268	1	None	B9
HSCHR19LRC_COX1_CTG1	NDUFA3	ENSG00000271844	ENST00000606787	protein_coding	PUTATIVE	None	7686	222	73	54606163	54609777	1	None	B9
HSCHR19LRC_COX1_CTG1	NDUFA3	ENSG00000271844	ENST00000606763	nonsense_mediated_decay	KNOWN	None	7686	198	65	54606163	54610268	1	None	B9
HSCHR19LRC_COX1_CTG1	NDUFA3	ENSG00000271844	ENST00000607023	protein_coding	PUTATIVE	None	7686	186	61	54606177	54610272	1	None	B9
HSCHR19LRC_COX1_CTG1	NDUFA3	ENSG00000271844	ENST00000607199	protein_coding	PUTATIVE	None	7686	246	81	54606177	54611840	1	None	B9
HSCHR19LRC_COX1_CTG1	NDUFA3	ENSG00000271844	ENST00000605979	retained_intron	KNOWN	None	7686	None	None	54606185	54610268	1	None	B9
HSCHR19LRC_COX1_CTG1	NDUFA3	ENSG00000271844	ENST00000607708	protein_coding	PUTATIVE	None	7686	126	41	54606193	54610268	1	None	B9
HSCHR19LRC_COX1_CTG1	NDUFA3	ENSG00000271844	ENST00000607369	nonsense_mediated_decay	KNOWN	None	7686	209	68	54606422	54612033	1	None	B9
HSCHR19LRC_COX1_CTG1	NDUFA3	ENSG00000271844	ENST00000606612	protein_coding	PUTATIVE	None	7686	103	33	54609272	54610268	1	None	B9
HSCHR19LRC_COX1_CTG1	NDUFA3	ENSG00000271844	ENST00000607765	processed_transcript	KNOWN	None	7686	None	None	54611854	54612236	1	None	B9
HSCHR19LRC_COX1_CTG1	NDUFA3	ENSG00000271844	ENST00000606156	processed_transcript	KNOWN	None	7686	None	None	54612011	54612564	1	None	B9
HSCHR19LRC_COX1_CTG1	TFPT	ENSG00000272390	ENST00000607699	protein_coding	KNOWN	None	13630	762	253	54610320	54619055	-1	None	FB1, amida, INO80F
HSCHR19LRC_COX1_CTG1	TFPT	ENSG00000272390	ENST00000606309	protein_coding	PUTATIVE	None	13630	735	244	54610327	54618454	-1	None	FB1, amida, INO80F
HSCHR19LRC_COX1_CTG1	TFPT	ENSG00000272390	ENST00000607229	nonsense_mediated_decay	KNOWN	None	13630	318	105	54610327	54618665	-1	None	FB1, amida, INO80F
HSCHR19LRC_COX1_CTG1	TFPT	ENSG00000272390	ENST00000607604	protein_coding	PUTATIVE	None	13630	582	193	54610327	54618668	-1	None	FB1, amida, INO80F
HSCHR19LRC_COX1_CTG1	PRPF31	ENSG00000272415	ENST00000606914	protein_coding	KNOWN	None	15446	1500	499	54618837	54635140	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_COX1_CTG1	PRPF31	ENSG00000272415	ENST00000606218	protein_coding	KNOWN	None	15446	853	283	54619134	54628033	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_COX1_CTG1	PRPF31	ENSG00000272415	ENST00000607403	protein_coding	KNOWN	None	15446	1353	450	54619151	54635140	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_COX1_CTG1	PRPF31	ENSG00000272415	ENST00000606976	protein_coding	KNOWN	None	15446	829	275	54619159	54628009	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_COX1_CTG1	PRPF31	ENSG00000272415	ENST00000606139	protein_coding	KNOWN	None	15446	782	259	54619189	54627962	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_COX1_CTG1	PRPF31	ENSG00000272415	ENST00000606626	protein_coding	NOVEL	None	15446	1482	493	54621651	54635140	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_COX1_CTG1	PRPF31	ENSG00000272415	ENST00000607689	retained_intron	KNOWN	None	15446	None	None	54621786	54622191	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_COX1_CTG1	PRPF31	ENSG00000272415	ENST00000607705	retained_intron	KNOWN	None	15446	None	None	54621789	54635140	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_COX1_CTG1	PRPF31	ENSG00000272415	ENST00000605959	processed_transcript	KNOWN	None	15446	None	None	54621993	54631572	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_COX1_CTG1	None	ENSG00000272270	ENST00000607117	antisense	KNOWN	None	None	None	None	54622891	54628722	-1	None	None
HSCHR19LRC_COX1_CTG1	None	ENSG00000262138	ENST00000576593	protein_coding	KNOWN	None	None	2160	719	54641436	54659444	1	None	None
HSCHR19LRC_COX1_CTG1	LENG1	ENSG00000262174	ENST00000575918	protein_coding	KNOWN	None	15502	795	264	54658898	54663619	-1	None	None
HSCHR19LRC_COX1_CTG1	None	ENSG00000263166	ENST00000576610	protein_coding	KNOWN	None	None	2121	706	54663835	54676909	-1	None	None
HSCHR19LRC_COX1_CTG1	MBOAT7	ENSG00000261917	ENST00000573544	protein_coding	KNOWN	None	15505	1200	399	54677072	54693566	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_COX1_CTG1	MBOAT7	ENSG00000261917	ENST00000575610	nonsense_mediated_decay	KNOWN	None	15505	213	70	54677074	54693127	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_COX1_CTG1	MBOAT7	ENSG00000261917	ENST00000571661	protein_coding	PUTATIVE	None	15505	1200	399	54677074	54693252	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_COX1_CTG1	MBOAT7	ENSG00000261917	ENST00000570701	protein_coding	KNOWN	None	15505	1419	472	54677074	54693499	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_COX1_CTG1	MBOAT7	ENSG00000261917	ENST00000572456	retained_intron	KNOWN	None	15505	None	None	54677078	54684466	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_COX1_CTG1	MBOAT7	ENSG00000261917	ENST00000572289	protein_coding	PUTATIVE	None	15505	372	123	54677733	54691962	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_COX1_CTG1	MBOAT7	ENSG00000261917	ENST00000574555	protein_coding	PUTATIVE	None	15505	1035	344	54682013	54693356	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_COX1_CTG1	MBOAT7	ENSG00000261917	ENST00000571387	protein_coding	PUTATIVE	None	15505	545	180	54683339	54687314	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_COX1_CTG1	MBOAT7	ENSG00000261917	ENST00000571978	protein_coding	PUTATIVE	None	15505	768	255	54684535	54692979	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_COX1_CTG1	MBOAT7	ENSG00000261917	ENST00000576216	protein_coding	KNOWN	None	15505	511	169	54684792	54693028	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_COX1_CTG1	MBOAT7	ENSG00000261917	ENST00000570591	retained_intron	KNOWN	None	15505	None	None	54684800	54692096	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_COX1_CTG1	MBOAT7	ENSG00000261917	ENST00000571238	processed_transcript	KNOWN	None	15505	None	None	54687201	54693233	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_COX1_CTG1	MBOAT7	ENSG00000261917	ENST00000571912	retained_intron	KNOWN	None	15505	None	None	54690636	54693044	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_COX1_CTG1	MBOAT7	ENSG00000261917	ENST00000572617	processed_transcript	KNOWN	None	15505	None	None	54690966	54693253	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_COX1_CTG1	TSEN34	ENSG00000262716	ENST00000570534	protein_coding	KNOWN	None	15506	727	241	54693622	54696039	1	LENG5	SEN34, SEN34L
HSCHR19LRC_COX1_CTG1	TSEN34	ENSG00000262716	ENST00000575266	protein_coding	PUTATIVE	None	15506	754	250	54693952	54696057	1	LENG5	SEN34, SEN34L
HSCHR19LRC_COX1_CTG1	TSEN34	ENSG00000262716	ENST00000571677	protein_coding	KNOWN	None	15506	933	310	54693952	54697349	1	LENG5	SEN34, SEN34L
HSCHR19LRC_COX1_CTG1	TSEN34	ENSG00000262716	ENST00000572168	protein_coding	KNOWN	None	15506	939	312	54693971	54697413	1	LENG5	SEN34, SEN34L
HSCHR19LRC_COX1_CTG1	TSEN34	ENSG00000262716	ENST00000575276	retained_intron	KNOWN	None	15506	None	None	54694027	54697349	1	LENG5	SEN34, SEN34L
HSCHR19LRC_COX1_CTG1	TSEN34	ENSG00000262716	ENST00000575967	protein_coding	KNOWN	None	15506	933	310	54694415	54697349	1	LENG5	SEN34, SEN34L
HSCHR19LRC_COX1_CTG1	TSEN34	ENSG00000262716	ENST00000573700	protein_coding	KNOWN	None	15506	933	310	54694937	54697349	1	LENG5	SEN34, SEN34L
HSCHR19LRC_COX1_CTG1	None	ENSG00000262798	ENST00000574521	antisense	KNOWN	None	None	None	None	54703140	54703657	-1	None	None
HSCHR19LRC_COX1_CTG1	RPS9	ENSG00000263076	ENST00000576887	protein_coding	KNOWN	None	10442	585	194	54704428	54711333	1	None	S9
HSCHR19LRC_COX1_CTG1	RPS9	ENSG00000263076	ENST00000575869	retained_intron	KNOWN	None	10442	None	None	54704495	54710533	1	None	S9
HSCHR19LRC_COX1_CTG1	RPS9	ENSG00000263076	ENST00000574850	nonsense_mediated_decay	KNOWN	None	10442	234	77	54704544	54752625	1	None	S9
HSCHR19LRC_COX1_CTG1	RPS9	ENSG00000263076	ENST00000572117	nonsense_mediated_decay	KNOWN	None	10442	420	139	54704557	54711208	1	None	S9
HSCHR19LRC_COX1_CTG1	RPS9	ENSG00000263076	ENST00000573511	protein_coding	KNOWN	None	10442	585	194	54704558	54711333	1	None	S9
HSCHR19LRC_COX1_CTG1	RPS9	ENSG00000263076	ENST00000570496	protein_coding	NOVEL	None	10442	420	139	54704558	54711333	1	None	S9
HSCHR19LRC_COX1_CTG1	RPS9	ENSG00000263076	ENST00000570789	nonsense_mediated_decay	KNOWN	None	10442	420	139	54704558	54711333	1	None	S9
HSCHR19LRC_COX1_CTG1	RPS9	ENSG00000263076	ENST00000573206	protein_coding	PUTATIVE	None	10442	240	79	54704560	54711333	1	None	S9
HSCHR19LRC_COX1_CTG1	RPS9	ENSG00000263076	ENST00000575931	retained_intron	KNOWN	None	10442	None	None	54704565	54711330	1	None	S9
HSCHR19LRC_COX1_CTG1	RPS9	ENSG00000263076	ENST00000575726	protein_coding	KNOWN	None	10442	585	194	54704819	54711333	1	None	S9
HSCHR19LRC_COX1_CTG1	RPS9	ENSG00000263076	ENST00000572753	retained_intron	KNOWN	None	10442	None	None	54704846	54705694	1	None	S9
HSCHR19LRC_COX1_CTG1	RPS9	ENSG00000263076	ENST00000570639	protein_coding	PUTATIVE	None	10442	471	156	54704846	54711316	1	None	S9
HSCHR19LRC_COX1_CTG1	None	ENSG00000262426	ENST00000573495	unprocessed_pseudogene	KNOWN	None	None	None	None	54712778	54713104	-1	None	None
HSCHR19LRC_COX1_CTG1	LILRB3	ENSG00000262044	ENST00000575959	protein_coding	KNOWN	None	6607	1896	631	54719965	54727193	-1	None	LIR-3, HL9, ILT5, LIR3, CD85a
HSCHR19LRC_COX1_CTG1	LILRB3	ENSG00000262044	ENST00000571923	protein_coding	KNOWN	None	6607	1896	631	54719965	54726774	-1	None	LIR-3, HL9, ILT5, LIR3, CD85a
HSCHR19LRC_COX1_CTG1	LILRB3	ENSG00000262044	ENST00000574585	nonsense_mediated_decay	KNOWN	None	6607	576	191	54720361	54726665	-1	None	LIR-3, HL9, ILT5, LIR3, CD85a
HSCHR19LRC_COX1_CTG1	LILRB3	ENSG00000262044	ENST00000573711	protein_coding	KNOWN	None	6607	1932	643	54720571	54726726	-1	None	LIR-3, HL9, ILT5, LIR3, CD85a
HSCHR19LRC_COX1_CTG1	LILRB3	ENSG00000262044	ENST00000575016	protein_coding	NOVEL	None	6607	1899	632	54720615	54726665	-1	None	LIR-3, HL9, ILT5, LIR3, CD85a
HSCHR19LRC_COX1_CTG1	LILRB3	ENSG00000262044	ENST00000575713	protein_coding	KNOWN	None	6607	1947	648	54720615	54746384	-1	None	LIR-3, HL9, ILT5, LIR3, CD85a
HSCHR19LRC_COX1_CTG1	LILRB3	ENSG00000262044	ENST00000574504	retained_intron	KNOWN	None	6607	None	None	54720783	54721385	-1	None	LIR-3, HL9, ILT5, LIR3, CD85a
HSCHR19LRC_COX1_CTG1	LILRB3	ENSG00000262044	ENST00000572122	processed_transcript	KNOWN	None	6607	None	None	54720807	54724477	-1	None	LIR-3, HL9, ILT5, LIR3, CD85a
HSCHR19LRC_COX1_CTG1	LILRB3	ENSG00000262044	ENST00000576041	retained_intron	KNOWN	None	6607	None	None	54722282	54723042	-1	None	LIR-3, HL9, ILT5, LIR3, CD85a
HSCHR19LRC_COX1_CTG1	LILRB3	ENSG00000262044	ENST00000576729	retained_intron	KNOWN	None	6607	None	None	54725665	54726774	-1	None	LIR-3, HL9, ILT5, LIR3, CD85a
HSCHR19LRC_COX1_CTG1	LILRB3	ENSG00000262044	ENST00000573666	protein_coding	KNOWN	None	6607	475	157	54725698	54726774	-1	None	LIR-3, HL9, ILT5, LIR3, CD85a
HSCHR19LRC_COX1_CTG1	LILRA6	ENSG00000262642	ENST00000576712	protein_coding	KNOWN	None	15495	1896	631	54720555	54746431	-1	LILRB6	ILT8, CD85b
HSCHR19LRC_COX1_CTG1	LILRA6	ENSG00000262642	ENST00000576133	protein_coding	KNOWN	None	15495	1899	632	54720615	54746384	-1	LILRB6	ILT8, CD85b
HSCHR19LRC_COX1_CTG1	LILRA6	ENSG00000262642	ENST00000572093	protein_coding	KNOWN	None	15495	1899	632	54720615	54746384	-1	LILRB6	ILT8, CD85b
HSCHR19LRC_COX1_CTG1	LILRA6	ENSG00000262642	ENST00000571216	protein_coding	KNOWN	None	15495	582	193	54720615	54746384	-1	LILRB6	ILT8, CD85b
HSCHR19LRC_COX1_CTG1	LILRA6	ENSG00000262642	ENST00000576491	nonsense_mediated_decay	KNOWN	None	15495	582	193	54740255	54746399	-1	LILRB6	ILT8, CD85b
HSCHR19LRC_COX1_CTG1	LILRA6	ENSG00000262642	ENST00000576226	protein_coding	NOVEL	None	15495	1446	481	54742209	54746422	-1	LILRB6	ILT8, CD85b
HSCHR19LRC_COX1_CTG1	LILRA6	ENSG00000262642	ENST00000576737	protein_coding	KNOWN	None	15495	1395	464	54742613	54746382	-1	LILRB6	ILT8, CD85b
HSCHR19LRC_COX1_CTG1	LILRA6	ENSG00000262642	ENST00000577149	retained_intron	KNOWN	None	15495	None	None	54744696	54746403	-1	LILRB6	ILT8, CD85b
HSCHR19LRC_COX1_CTG1	None	ENSG00000267888	ENST00000597694	lincRNA	KNOWN	None	None	None	None	54728210	54728568	1	None	None
HSCHR19LRC_COX1_CTG1	None	ENSG00000262646	ENST00000570672	processed_pseudogene	KNOWN	None	None	None	None	54732724	54733901	1	None	None
HSCHR19LRC_COX1_CTG1	None	ENSG00000261979	ENST00000572983	unprocessed_pseudogene	KNOWN	None	None	None	None	54749723	54750944	-1	None	None
HSCHR19LRC_COX1_CTG1	None	ENSG00000262991	ENST00000572771	protein_coding	NOVEL	None	None	1776	591	54754031	54760926	-1	None	None
HSCHR19LRC_COX1_CTG1	None	ENSG00000262991	ENST00000605783	protein_coding	NOVEL	None	None	1866	621	54754524	54760926	-1	None	None
HSCHR19LRC_COX1_CTG1	None	ENSG00000262913	ENST00000571686	processed_pseudogene	KNOWN	None	None	None	None	54771630	54772670	1	None	None
HSCHR19LRC_COX1_CTG1	None	ENSG00000261890	ENST00000570766	processed_pseudogene	KNOWN	None	None	None	None	54771631	54772673	1	None	None
HSCHR19LRC_COX1_CTG1	None	ENSG00000263222	ENST00000571162	protein_coding	NOVEL	None	None	1794	597	54777978	54784712	-1	None	None
HSCHR19LRC_COX1_CTG1	None	ENSG00000263222	ENST00000603601	protein_coding	KNOWN	None	None	1521	506	54778092	54784721	-1	None	None
HSCHR19LRC_COX1_CTG1	None	ENSG00000262941	ENST00000574063	unprocessed_pseudogene	KNOWN	None	None	None	None	54797675	54797992	-1	None	None
HSCHR19LRC_COX1_CTG1	LILRA3	ENSG00000261935	ENST00000576482	protein_coding	NOVEL	None	6604	1128	375	54799626	54803945	-1	None	LIR-4, HM43, ILT6, HM31, LIR4, CD85e
HSCHR19LRC_COX1_CTG1	LILRA3	ENSG00000261935	ENST00000575459	protein_coding	KNOWN	None	6604	1320	439	54799626	54804037	-1	None	LIR-4, HM43, ILT6, HM31, LIR4, CD85e
HSCHR19LRC_COX1_CTG1	LILRA3	ENSG00000261935	ENST00000574138	protein_coding	PUTATIVE	None	6604	1371	456	54799626	54809724	-1	None	LIR-4, HM43, ILT6, HM31, LIR4, CD85e
HSCHR19LRC_COX1_CTG1	None	ENSG00000262192	ENST00000571267	unprocessed_pseudogene	KNOWN	None	None	None	None	54808486	54809195	-1	None	None
HSCHR19LRC_COX1_CTG1	None	ENSG00000263153	ENST00000573575	unprocessed_pseudogene	KNOWN	None	None	None	None	54812075	54816341	-1	None	None
HSCHR19LRC_COX1_CTG1	LILRA5	ENSG00000262800	ENST00000572958	protein_coding	KNOWN	None	16309	900	299	54817385	54823441	-1	LILRB7	ILT11, LIR9, CD85, CD85f
HSCHR19LRC_COX1_CTG1	LILRA5	ENSG00000262800	ENST00000575393	protein_coding	KNOWN	None	16309	864	287	54817569	54823376	-1	LILRB7	ILT11, LIR9, CD85, CD85f
HSCHR19LRC_COX1_CTG1	LILRA5	ENSG00000262800	ENST00000571593	retained_intron	KNOWN	None	16309	None	None	54817776	54821965	-1	LILRB7	ILT11, LIR9, CD85, CD85f
HSCHR19LRC_COX1_CTG1	LILRA5	ENSG00000262800	ENST00000570797	retained_intron	KNOWN	None	16309	None	None	54821467	54823393	-1	LILRB7	ILT11, LIR9, CD85, CD85f
HSCHR19LRC_COX1_CTG1	LILRA5	ENSG00000262800	ENST00000576411	protein_coding	KNOWN	None	16309	762	253	54821467	54823400	-1	LILRB7	ILT11, LIR9, CD85, CD85f
HSCHR19LRC_COX1_CTG1	LILRA5	ENSG00000262800	ENST00000570448	retained_intron	KNOWN	None	16309	None	None	54821585	54823400	-1	LILRB7	ILT11, LIR9, CD85, CD85f
HSCHR19LRC_COX1_CTG1	LILRA5	ENSG00000262800	ENST00000570741	protein_coding	KNOWN	None	16309	798	265	54821585	54823400	-1	LILRB7	ILT11, LIR9, CD85, CD85f
HSCHR19LRC_COX1_CTG1	VN1R104P	ENSG00000262631	ENST00000575545	unprocessed_pseudogene	KNOWN	None	37427	None	None	54830508	54831516	-1	None	None
HSCHR19LRC_COX1_CTG1	TTYH1	ENSG00000263109	ENST00000574216	protein_coding	PUTATIVE	None	13476	471	156	54850624	54857660	1	None	None
HSCHR19LRC_COX1_CTG1	TTYH1	ENSG00000263109	ENST00000571818	protein_coding	NOVEL	None	13476	1356	451	54850836	54872311	1	None	None
HSCHR19LRC_COX1_CTG1	TTYH1	ENSG00000263109	ENST00000575814	protein_coding	KNOWN	None	13476	1353	450	54850855	54872130	1	None	None
HSCHR19LRC_COX1_CTG1	TTYH1	ENSG00000263109	ENST00000570708	protein_coding	NOVEL	None	13476	841	279	54850870	54862133	1	None	None
HSCHR19LRC_COX1_CTG1	TTYH1	ENSG00000263109	ENST00000576642	protein_coding	KNOWN	None	13476	1362	453	54850896	54871569	1	None	None
HSCHR19LRC_COX1_CTG1	TTYH1	ENSG00000263109	ENST00000574677	nonsense_mediated_decay	KNOWN	None	13476	342	113	54850915	54862173	1	None	None
HSCHR19LRC_COX1_CTG1	TTYH1	ENSG00000263109	ENST00000575688	retained_intron	KNOWN	None	13476	None	None	54850917	54872130	1	None	None
HSCHR19LRC_COX1_CTG1	TTYH1	ENSG00000263109	ENST00000575157	protein_coding	KNOWN	None	13476	1383	460	54850931	54872130	1	None	None
HSCHR19LRC_COX1_CTG1	TTYH1	ENSG00000263109	ENST00000572064	processed_transcript	KNOWN	None	13476	None	None	54851245	54857653	1	None	None
HSCHR19LRC_COX1_CTG1	TTYH1	ENSG00000263109	ENST00000576592	processed_transcript	KNOWN	None	13476	None	None	54853667	54854941	1	None	None
HSCHR19LRC_COX1_CTG1	TTYH1	ENSG00000263109	ENST00000572475	processed_transcript	PUTATIVE	None	13476	None	None	54853794	54856748	1	None	None
HSCHR19LRC_COX1_CTG1	TTYH1	ENSG00000263109	ENST00000573729	nonsense_mediated_decay	KNOWN	None	13476	115	37	54854601	54869122	1	None	None
HSCHR19LRC_COX1_CTG1	TTYH1	ENSG00000263109	ENST00000572827	processed_transcript	KNOWN	None	13476	None	None	54856073	54862138	1	None	None
HSCHR19LRC_COX1_CTG1	TTYH1	ENSG00000263109	ENST00000574697	processed_transcript	KNOWN	None	13476	None	None	54856104	54864763	1	None	None
HSCHR19LRC_COX1_CTG1	TTYH1	ENSG00000263109	ENST00000575248	processed_transcript	KNOWN	None	13476	None	None	54861879	54872130	1	None	None
HSCHR19LRC_COX1_CTG1	TTYH1	ENSG00000263109	ENST00000572644	processed_transcript	KNOWN	None	13476	None	None	54866223	54871883	1	None	None
HSCHR19LRC_COX1_CTG1	TTYH1	ENSG00000263109	ENST00000577102	processed_transcript	KNOWN	None	13476	None	None	54870371	54871739	1	None	None
HSCHR19LRC_COX1_CTG1	TTYH1	ENSG00000263109	ENST00000571065	processed_transcript	PUTATIVE	None	13476	None	None	54871416	54872128	1	None	None
HSCHR19LRC_COX1_CTG1	None	ENSG00000262530	ENST00000572496	antisense	KNOWN	None	None	None	None	54866064	54870109	-1	None	None
HSCHR19LRC_COX1_CTG1	None	ENSG00000268398	ENST00000600164	sense_intronic	KNOWN	None	None	None	None	54869594	54870076	1	None	None
HSCHR19LRC_COX1_CTG1	LENG8-AS1	ENSG00000262741	ENST00000570325	antisense	KNOWN	None	40705	None	None	54880210	54884413	-1	None	None
HSCHR19LRC_COX1_CTG1	LENG8-AS1	ENSG00000262741	ENST00000573923	antisense	KNOWN	None	40705	None	None	54880433	54884001	-1	None	None
HSCHR19LRC_COX1_CTG1	LENG8-AS1	ENSG00000262741	ENST00000571042	antisense	KNOWN	None	40705	None	None	54883564	54884444	-1	None	None
HSCHR19LRC_COX1_CTG1	None	ENSG00000263157	ENST00000575293	processed_pseudogene	KNOWN	None	None	None	None	54882228	54882445	1	None	None
HSCHR19LRC_COX1_CTG1	None	ENSG00000263054	ENST00000571608	protein_coding	KNOWN	None	None	2403	800	54884286	54897417	1	None	None
HSCHR19LRC_COX1_CTG1	None	ENSG00000262887	ENST00000571132	protein_coding	NOVEL	None	None	1503	500	54897491	54898993	-1	None	None
HSCHR19LRC_COX1_CTG1	CDC42EP5	ENSG00000263030	ENST00000577111	protein_coding	KNOWN	None	17408	447	148	54900426	54908565	-1	None	CEP5, Borg3
HSCHR19LRC_COX1_CTG1	CDC42EP5	ENSG00000263030	ENST00000572545	processed_transcript	KNOWN	None	17408	None	None	54906918	54908472	-1	None	CEP5, Borg3
HSCHR19LRC_COX1_CTG1	LAIR2	ENSG00000262317	ENST00000574383	protein_coding	PUTATIVE	None	6478	268	88	54932960	54943199	1	None	CD306
HSCHR19LRC_COX1_CTG1	LAIR2	ENSG00000262317	ENST00000573611	protein_coding	KNOWN	None	6478	459	152	54937889	54945775	1	None	CD306
HSCHR19LRC_COX1_CTG1	LAIR2	ENSG00000262317	ENST00000570730	protein_coding	KNOWN	None	6478	408	135	54937999	54945775	1	None	CD306
HSCHR19LRC_COX1_CTG1	None	ENSG00000262460	ENST00000574892	unprocessed_pseudogene	KNOWN	None	None	None	None	54956784	54957092	1	None	None
HSCHR19LRC_COX1_CTG1	None	ENSG00000262582	ENST00000575457	protein_coding	NOVEL	None	None	1176	391	54967787	54978544	1	None	None
HSCHR19LRC_COX1_CTG1	None	ENSG00000262582	ENST00000574587	protein_coding	NOVEL	None	None	912	303	54967787	54979072	1	None	None
HSCHR19LRC_COX1_CTG1	None	ENSG00000262422	ENST00000570660	unprocessed_pseudogene	KNOWN	None	None	None	None	54987051	54987337	1	None	None
HSCHR19LRC_COX1_CTG1	LILRA2	ENSG00000262004	ENST00000572962	processed_transcript	KNOWN	None	6603	None	None	55008197	55010187	1	None	LIR-7, ILT1, CD85h, LIR7
HSCHR19LRC_COX1_CTG1	LILRA2	ENSG00000262004	ENST00000570993	protein_coding	KNOWN	None	6603	982	326	55008305	55011113	1	None	LIR-7, ILT1, CD85h, LIR7
HSCHR19LRC_COX1_CTG1	LILRA2	ENSG00000262004	ENST00000571783	protein_coding	KNOWN	None	6603	1452	483	55008628	55022837	1	None	LIR-7, ILT1, CD85h, LIR7
HSCHR19LRC_COX1_CTG1	LILRA2	ENSG00000262004	ENST00000573976	protein_coding	KNOWN	None	6603	1452	483	55009067	55022835	1	None	LIR-7, ILT1, CD85h, LIR7
HSCHR19LRC_COX1_CTG1	LILRA2	ENSG00000262004	ENST00000570811	protein_coding	KNOWN	None	6603	1401	466	55009069	55022837	1	None	LIR-7, ILT1, CD85h, LIR7
HSCHR19LRC_COX1_CTG1	LILRA2	ENSG00000262004	ENST00000577050	protein_coding	NOVEL	None	6603	1365	454	55009118	55022672	1	None	LIR-7, ILT1, CD85h, LIR7
HSCHR19LRC_COX1_CTG1	LILRA2	ENSG00000262004	ENST00000571754	processed_transcript	KNOWN	None	6603	None	None	55011349	55022824	1	None	LIR-7, ILT1, CD85h, LIR7
HSCHR19LRC_COX1_CTG1	LILRB1	ENSG00000262727	ENST00000574258	protein_coding	KNOWN	None	6605	1953	650	55009156	55072292	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HSCHR19LRC_COX1_CTG1	LILRB1	ENSG00000262727	ENST00000573387	protein_coding	KNOWN	None	6605	1905	634	55009156	55072292	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HSCHR19LRC_COX1_CTG1	LILRB1	ENSG00000262727	ENST00000571765	protein_coding	KNOWN	None	6605	1533	510	55009156	55072292	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HSCHR19LRC_COX1_CTG1	LILRB1	ENSG00000262727	ENST00000573436	protein_coding	KNOWN	None	6605	1953	650	55052431	55072801	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HSCHR19LRC_COX1_CTG1	LILRB1	ENSG00000262727	ENST00000576389	protein_coding	NOVEL	None	6605	1956	651	55065683	55072801	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HSCHR19LRC_COX1_CTG1	LILRB1	ENSG00000262727	ENST00000575929	protein_coding	KNOWN	None	6605	1959	652	55065730	55072801	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HSCHR19LRC_COX1_CTG1	LILRB1	ENSG00000262727	ENST00000575581	protein_coding	KNOWN	None	6605	1953	650	55065730	55072801	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HSCHR19LRC_COX1_CTG1	LILRB1	ENSG00000262727	ENST00000572526	protein_coding	NOVEL	None	6605	1956	651	55065785	55072801	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HSCHR19LRC_COX1_CTG1	LILRB1	ENSG00000262727	ENST00000576744	protein_coding	NOVEL	None	6605	2106	701	55065906	55072463	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HSCHR19LRC_COX1_CTG1	LILRB1	ENSG00000262727	ENST00000572909	protein_coding	NOVEL	None	6605	1905	634	55066347	55072349	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HSCHR19LRC_COX1_CTG1	LILRB1	ENSG00000262727	ENST00000576927	protein_coding	NOVEL	None	6605	1959	652	55066347	55072349	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HSCHR19LRC_COX1_CTG1	LILRB1	ENSG00000262727	ENST00000570900	nonsense_mediated_decay	KNOWN	None	6605	1533	510	55066347	55072349	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HSCHR19LRC_COX1_CTG1	LILRB1	ENSG00000262727	ENST00000571687	processed_transcript	KNOWN	None	6605	None	None	55066535	55067328	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HSCHR19LRC_COX1_CTG1	LILRB1	ENSG00000262727	ENST00000570307	processed_transcript	PUTATIVE	None	6605	None	None	55068399	55069456	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HSCHR19LRC_COX1_CTG1	LILRB1	ENSG00000262727	ENST00000573269	processed_transcript	KNOWN	None	6605	None	None	55068416	55072801	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HSCHR19LRC_COX1_CTG1	LILRB1	ENSG00000262727	ENST00000575805	retained_intron	KNOWN	None	6605	None	None	55069644	55070889	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HSCHR19LRC_COX1_CTG1	LILRB1	ENSG00000262727	ENST00000572286	retained_intron	KNOWN	None	6605	None	None	55070166	55071378	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HSCHR19LRC_COX1_CTG1	None	ENSG00000267994	ENST00000600830	lincRNA	KNOWN	None	None	None	None	55024718	55025564	1	None	None
HSCHR19LRC_COX1_CTG1	LILRA1	ENSG00000262900	ENST00000576446	processed_transcript	KNOWN	None	6602	None	None	55028859	55034997	1	None	LIR-6, CD85i, LIR6
HSCHR19LRC_COX1_CTG1	LILRA1	ENSG00000262900	ENST00000576290	processed_transcript	KNOWN	None	6602	None	None	55028859	55037154	1	None	LIR-6, CD85i, LIR6
HSCHR19LRC_COX1_CTG1	LILRA1	ENSG00000262900	ENST00000573402	protein_coding	KNOWN	None	6602	1470	489	55028925	55036352	1	None	LIR-6, CD85i, LIR6
HSCHR19LRC_COX1_CTG1	LILRA1	ENSG00000262900	ENST00000570750	retained_intron	KNOWN	None	6602	None	None	55028927	55034993	1	None	LIR-6, CD85i, LIR6
HSCHR19LRC_COX1_CTG1	LILRA1	ENSG00000262900	ENST00000575013	protein_coding	NOVEL	None	6602	870	289	55028937	55037367	1	None	LIR-6, CD85i, LIR6
HSCHR19LRC_COX1_CTG1	None	ENSG00000262575	ENST00000577084	unprocessed_pseudogene	KNOWN	None	None	None	None	55043147	55043653	1	None	None
HSCHR19LRC_COX1_CTG1	None	ENSG00000263216	ENST00000576157	protein_coding	PUTATIVE	None	None	201	66	55070995	55074165	-1	None	None
HSCHR19LRC_COX1_CTG1	LILRB4	ENSG00000263108	ENST00000575238	processed_transcript	KNOWN	None	6608	None	None	55079162	55084871	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
HSCHR19LRC_COX1_CTG1	LILRB4	ENSG00000263108	ENST00000570614	protein_coding	KNOWN	None	6608	1347	448	55097405	55105649	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
HSCHR19LRC_COX1_CTG1	LILRB4	ENSG00000263108	ENST00000575297	processed_transcript	KNOWN	None	6608	None	None	55097435	55102989	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
HSCHR19LRC_COX1_CTG1	LILRB4	ENSG00000263108	ENST00000571585	protein_coding	KNOWN	None	6608	1347	448	55097950	55103683	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
HSCHR19LRC_COX1_CTG1	LILRB4	ENSG00000263108	ENST00000577178	protein_coding	NOVEL	None	6608	1344	447	55098273	55103687	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
HSCHR19LRC_COX1_CTG1	LILRB4	ENSG00000263108	ENST00000574279	protein_coding	NOVEL	None	6608	1188	395	55098276	55103687	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
HSCHR19LRC_COX1_CTG1	LILRB4	ENSG00000263108	ENST00000576371	protein_coding	NOVEL	None	6608	1350	449	55098298	55103687	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
HSCHR19LRC_COX1_CTG1	LILRB4	ENSG00000263108	ENST00000574338	protein_coding	PUTATIVE	None	6608	1197	398	55098305	55103083	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
HSCHR19LRC_COX1_CTG1	LILRB4	ENSG00000263108	ENST00000574627	retained_intron	KNOWN	None	6608	None	None	55101088	55102680	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
HSCHR19LRC_COX1_CTG1	LILRB4	ENSG00000263108	ENST00000575530	processed_transcript	KNOWN	None	6608	None	None	55101576	55102328	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
HSCHR19LRC_COX1_CTG1	VN1R105P	ENSG00000262238	ENST00000572423	transcribed_processed_pseudogene	KNOWN	None	37428	None	None	55083215	55084124	1	None	None
HSCHR19LRC_COX1_CTG1	None	ENSG00000262750	ENST00000576755	unprocessed_pseudogene	KNOWN	None	None	None	None	55087357	55087502	1	None	None
HSCHR19LRC_COX1_CTG1	None	ENSG00000262555	ENST00000572097	unprocessed_pseudogene	KNOWN	None	None	None	None	55106521	55107881	1	None	None
HSCHR19LRC_COX1_CTG1	LILRP1	ENSG00000263251	ENST00000574663	unprocessed_pseudogene	KNOWN	None	15496	None	None	55131487	55135787	1	None	ILT9, CD85l, LILRA6P
HSCHR19LRC_COX1_CTG1	None	ENSG00000262830	ENST00000576070	unprocessed_pseudogene	KNOWN	None	None	None	None	55138833	55139116	1	None	None
HSCHR19LRC_COX1_CTG1	None	ENSG00000262548	ENST00000577002	processed_transcript	KNOWN	None	None	None	None	55142797	55148024	1	None	None
HSCHR19LRC_COX1_CTG1	LILRP2	ENSG00000263036	ENST00000572299	unprocessed_pseudogene	KNOWN	None	15497	None	None	55143483	55147803	1	None	ILT10, CD85m
HSCHR19LRC_COX1_CTG1	KIR3DL3	ENSG00000262335	ENST00000574960	protein_coding	KNOWN	None	16312	1233	410	55159054	55171068	1	None	KIRC1, KIR3DL7, KIR44, CD158z
HSCHR19LRC_COX1_CTG1	KIR2DL3	ENSG00000261912	ENST00000571420	protein_coding	KNOWN	None	6331	1026	341	55173047	55187599	1	None	cl-6, nkat2, nkat2a, nkat2b, p58, CD158B2
HSCHR19LRC_COX1_CTG1	KIR2DL3	ENSG00000261912	ENST00000574061	protein_coding	KNOWN	None	6331	1047	348	55173049	55218870	1	None	cl-6, nkat2, nkat2a, nkat2b, p58, CD158B2
HSCHR19LRC_COX1_CTG1	KIR2DP1	ENSG00000263145	ENST00000571502	unprocessed_pseudogene	KNOWN	None	16344	None	None	55189570	55201916	1	None	KIRZ, KIRY, KIR15, KIR2DL6
HSCHR19LRC_COX1_CTG1	KIR2DL1	ENSG00000263208	ENST00000576294	protein_coding	KNOWN	None	6329	1047	348	55204359	55218868	1	None	cl-42, nkat1, 47.11, p58.1, CD158A
HSCHR19LRC_COX1_CTG1	KIR2DL1	ENSG00000263208	ENST00000574169	protein_coding	NOVEL	None	6329	1125	374	55204373	55218411	1	None	cl-42, nkat1, 47.11, p58.1, CD158A
HSCHR19LRC_COX1_CTG1	KIR3DP1	ENSG00000262625	ENST00000573914	transcribed_unprocessed_pseudogene	KNOWN	None	16343	None	None	55220901	55224864	1	None	KIRX, KIR48, KIR2DS6, KIR3DS2P, CD158C
HSCHR19LRC_COX1_CTG1	NCR1	ENSG00000263100	ENST00000571635	protein_coding	KNOWN	None	6731	915	304	55338425	55345358	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_COX1_CTG1	NCR1	ENSG00000263100	ENST00000570317	protein_coding	KNOWN	None	6731	912	303	55338425	55345356	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_COX1_CTG1	NCR1	ENSG00000263100	ENST00000598967	retained_intron	KNOWN	None	6731	None	None	55338430	55339053	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_COX1_CTG1	NCR1	ENSG00000263100	ENST00000593728	retained_intron	KNOWN	None	6731	None	None	55338430	55341623	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_COX1_CTG1	NCR1	ENSG00000263100	ENST00000598228	protein_coding	NOVEL	None	6731	876	291	55338431	55345244	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_COX1_CTG1	NCR1	ENSG00000263100	ENST00000602031	protein_coding	KNOWN	None	6731	912	303	55338438	55348425	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_COX1_CTG1	NCR1	ENSG00000263100	ENST00000576385	protein_coding	KNOWN	None	6731	630	209	55338456	55345258	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_COX1_CTG1	NCR1	ENSG00000263100	ENST00000576881	protein_coding	KNOWN	None	6731	864	287	55338456	55345258	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_COX1_CTG1	NCR1	ENSG00000263100	ENST00000571087	protein_coding	NOVEL	None	6731	594	197	55338463	55345156	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_COX1_CTG1	NLRP7	ENSG00000262736	ENST00000575015	protein_coding	KNOWN	None	22947	3030	1009	55355794	55379790	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_COX1_CTG1	NLRP7	ENSG00000262736	ENST00000576007	protein_coding	KNOWN	None	22947	2943	980	55355794	55379790	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_COX1_CTG1	NLRP7	ENSG00000262736	ENST00000570326	protein_coding	KNOWN	None	22947	3030	1009	55355795	55374035	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_COX1_CTG1	NLRP7	ENSG00000262736	ENST00000592978	protein_coding	KNOWN	None	22947	2943	980	55355800	55374037	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_COX1_CTG1	NLRP7	ENSG00000262736	ENST00000589382	protein_coding	KNOWN	None	22947	3114	1037	55355800	55398528	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_COX1_CTG1	NLRP7	ENSG00000262736	ENST00000577047	protein_coding	KNOWN	None	22947	3198	1065	55355800	55398528	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_COX1_CTG1	NLRP7	ENSG00000262736	ENST00000590502	nonsense_mediated_decay	KNOWN	None	22947	2892	963	55355937	55379782	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_COX1_CTG1	NLRP7	ENSG00000262736	ENST00000589207	protein_coding	KNOWN	None	22947	3114	1037	55355938	55379782	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_COX1_CTG1	NLRP7	ENSG00000262736	ENST00000587035	protein_coding	KNOWN	None	22947	290	95	55373278	55398538	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_COX1_CTG1	NLRP7	ENSG00000262736	ENST00000585727	protein_coding	KNOWN	None	22947	210	69	55373787	55398597	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_COX1_CTG1	NLRP7	ENSG00000262736	ENST00000593192	protein_coding	KNOWN	None	22947	161	52	55373836	55398528	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_COX1_CTG1	None	ENSG00000267186	ENST00000589325	antisense	KNOWN	None	None	None	None	55383919	55384878	1	None	None
HSCHR19LRC_COX1_CTG1	NLRP2	ENSG00000262886	ENST00000587033	protein_coding	KNOWN	None	22948	420	139	55385415	55413924	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_COX1_CTG1	NLRP2	ENSG00000262886	ENST00000591010	protein_coding	KNOWN	None	22948	373	123	55385453	55410084	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_COX1_CTG1	NLRP2	ENSG00000262886	ENST00000572200	protein_coding	KNOWN	None	22948	463	153	55397355	55413967	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_COX1_CTG1	NLRP2	ENSG00000262886	ENST00000571455	protein_coding	KNOWN	None	22948	3189	1062	55397537	55433427	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_COX1_CTG1	NLRP2	ENSG00000262886	ENST00000573639	retained_intron	KNOWN	None	22948	None	None	55397570	55433427	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_COX1_CTG1	NLRP2	ENSG00000262886	ENST00000576228	protein_coding	KNOWN	None	22948	3117	1038	55397614	55433420	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_COX1_CTG1	NLRP2	ENSG00000262886	ENST00000570593	protein_coding	KNOWN	None	22948	3123	1040	55397621	55433423	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_COX1_CTG1	NLRP2	ENSG00000262886	ENST00000577118	nonsense_mediated_decay	KNOWN	None	22948	330	109	55397629	55413931	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_COX1_CTG1	NLRP2	ENSG00000262886	ENST00000574207	protein_coding	KNOWN	None	22948	3189	1062	55398628	55433425	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_COX1_CTG1	NLRP2	ENSG00000262886	ENST00000571222	protein_coding	KNOWN	None	22948	3123	1040	55398628	55433425	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_COX1_CTG1	NLRP2	ENSG00000262886	ENST00000592084	protein_coding	KNOWN	None	22948	406	134	55398659	55414596	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_COX1_CTG1	NLRP2	ENSG00000262886	ENST00000574136	protein_coding	KNOWN	None	22948	3120	1039	55398659	55433363	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_COX1_CTG1	NLRP2	ENSG00000262886	ENST00000576821	protein_coding	KNOWN	None	22948	3117	1038	55398684	55433418	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_COX1_CTG1	NLRP2	ENSG00000262886	ENST00000571435	protein_coding	NOVEL	None	22948	3180	1059	55398691	55433420	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_COX1_CTG1	NLRP2	ENSG00000262886	ENST00000574074	protein_coding	NOVEL	None	22948	495	164	55406279	55414682	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_COX1_CTG1	NLRP2	ENSG00000262886	ENST00000573683	protein_coding	PUTATIVE	None	22948	592	196	55415771	55418686	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_COX1_CTG1	NLRP2	ENSG00000262886	ENST00000574170	nonsense_mediated_decay	KNOWN	None	22948	267	88	55418491	55426725	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_COX1_CTG1	NLRP2	ENSG00000262886	ENST00000573658	nonsense_mediated_decay	KNOWN	None	22948	28	8	55418577	55422491	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_COX1_CTG1	NLRP2	ENSG00000262886	ENST00000590351	processed_transcript	KNOWN	None	22948	None	None	55422911	55423834	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_COX1_CTG1	NLRP2	ENSG00000262886	ENST00000574981	retained_intron	KNOWN	None	22948	None	None	55425503	55433423	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_COX1_CTG1	None	ENSG00000262363	ENST00000572409	processed_pseudogene	KNOWN	None	None	None	None	55406102	55406702	1	None	None
HSCHR19LRC_COX1_CTG1	None	ENSG00000267445	ENST00000587456	antisense	KNOWN	None	None	None	None	55438478	55480371	1	None	None
HSCHR19LRC_COX1_CTG1	None	ENSG00000267445	ENST00000591623	antisense	KNOWN	None	None	None	None	55438490	55475536	1	None	None
HSCHR19LRC_COX1_CTG1	None	ENSG00000267445	ENST00000592548	antisense	KNOWN	None	None	None	None	55459907	55476602	1	None	None
HSCHR19LRC_COX1_CTG1	GP6	ENSG00000262239	ENST00000575496	protein_coding	KNOWN	None	14388	1020	339	55445990	55470549	-1	None	GPVI
HSCHR19LRC_COX1_CTG1	GP6	ENSG00000262239	ENST00000570488	protein_coding	KNOWN	None	14388	1863	620	55445990	55470549	-1	None	GPVI
HSCHR19LRC_COX1_CTG1	GP6	ENSG00000262239	ENST00000571871	protein_coding	KNOWN	None	14388	966	321	55445990	55470549	-1	None	GPVI
HSCHR19LRC_COX1_CTG1	GP6	ENSG00000262239	ENST00000575468	retained_intron	KNOWN	None	14388	None	None	55446811	55451104	-1	None	GPVI
HSCHR19LRC_COX1_CTG1	GP6	ENSG00000262239	ENST00000574687	protein_coding	PUTATIVE	None	14388	352	116	55459890	55465150	-1	None	GPVI
HSCHR19LRC_COX1_CTG1	None	ENSG00000267329	ENST00000589031	processed_transcript	KNOWN	None	None	None	None	55459878	55486213	-1	None	None
HSCHR19LRC_COX1_CTG1	None	ENSG00000267329	ENST00000588389	processed_transcript	KNOWN	None	None	None	None	55474324	55477234	-1	None	None
HSCHR19LRC_COX1_CTG1	RDH13	ENSG00000261975	ENST00000590517	processed_transcript	KNOWN	None	19978	None	None	55471393	55475392	-1	None	SDR7C3
HSCHR19LRC_COX1_CTG1	RDH13	ENSG00000261975	ENST00000587996	processed_transcript	KNOWN	None	19978	None	None	55471396	55474174	-1	None	SDR7C3
HSCHR19LRC_COX1_CTG1	RDH13	ENSG00000261975	ENST00000592635	nonsense_mediated_decay	KNOWN	None	19978	108	35	55471396	55495361	-1	None	SDR7C3
HSCHR19LRC_COX1_CTG1	RDH13	ENSG00000261975	ENST00000576188	protein_coding	KNOWN	None	19978	996	331	55476628	55495461	-1	None	SDR7C3
HSCHR19LRC_COX1_CTG1	RDH13	ENSG00000261975	ENST00000570529	nonsense_mediated_decay	KNOWN	None	19978	663	220	55476628	55496118	-1	None	SDR7C3
HSCHR19LRC_COX1_CTG1	RDH13	ENSG00000261975	ENST00000570715	protein_coding	KNOWN	None	19978	783	260	55476628	55501814	-1	None	SDR7C3
HSCHR19LRC_COX1_CTG1	RDH13	ENSG00000261975	ENST00000588856	nonsense_mediated_decay	KNOWN	None	19978	663	220	55477140	55495371	-1	None	SDR7C3
HSCHR19LRC_COX1_CTG1	RDH13	ENSG00000261975	ENST00000588020	nonsense_mediated_decay	KNOWN	None	19978	108	35	55479698	55495433	-1	None	SDR7C3
HSCHR19LRC_COX1_CTG1	RDH13	ENSG00000261975	ENST00000591593	processed_transcript	KNOWN	None	19978	None	None	55480942	55491459	-1	None	SDR7C3
HSCHR19LRC_COX1_CTG1	RDH13	ENSG00000261975	ENST00000591496	processed_transcript	KNOWN	None	19978	None	None	55483159	55495404	-1	None	SDR7C3
HSCHR19LRC_COX1_CTG1	RDH13	ENSG00000261975	ENST00000590340	protein_coding	KNOWN	None	19978	127	41	55488938	55501814	-1	None	SDR7C3
HSCHR19LRC_COX1_CTG1	RDH13	ENSG00000261975	ENST00000589129	protein_coding	KNOWN	None	19978	88	28	55491538	55501825	-1	None	SDR7C3
HSCHR19LRC_COX1_CTG1	RDH13	ENSG00000261975	ENST00000586419	processed_transcript	KNOWN	None	19978	None	None	55495326	55496653	-1	None	SDR7C3
HSCHR19LRC_COX1_CTG1	RDH13	ENSG00000261975	ENST00000586977	processed_transcript	KNOWN	None	19978	None	None	55495505	55501825	-1	None	SDR7C3
HSCHR19LRC_COX1_CTG1	RDH13	ENSG00000261975	ENST00000587538	processed_transcript	KNOWN	None	19978	None	None	55495556	55501805	-1	None	SDR7C3
HSCHR19LRC_COX1_CTG1	RDH13	ENSG00000261975	ENST00000585378	processed_transcript	KNOWN	None	19978	None	None	55495793	55501808	-1	None	SDR7C3
HSCHR19LRC_COX1_CTG1	RDH13	ENSG00000261975	ENST00000588662	processed_transcript	KNOWN	None	19978	None	None	55496037	55501776	-1	None	SDR7C3
HSCHR19LRC_COX1_CTG1	RDH13	ENSG00000261975	ENST00000592450	processed_transcript	KNOWN	None	19978	None	None	55496186	55501816	-1	None	SDR7C3
HSCHR19LRC_COX1_CTG1	RDH13	ENSG00000261975	ENST00000588854	processed_transcript	KNOWN	None	19978	None	None	55496233	55503576	-1	None	SDR7C3
HSCHR19LRC_COX1_CTG1	RDH13	ENSG00000261975	ENST00000588326	processed_transcript	KNOWN	None	19978	None	None	55496325	55502177	-1	None	SDR7C3
HSCHR19LRC_COX1_CTG1	RDH13	ENSG00000261975	ENST00000588505	processed_transcript	KNOWN	None	19978	None	None	55499480	55501787	-1	None	SDR7C3
HSCHR19LRC_COX1_CTG1	EPS8L1	ENSG00000263295	ENST00000590429	protein_coding	NOVEL	None	21295	1647	548	55504305	55520204	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_COX1_CTG1	EPS8L1	ENSG00000263295	ENST00000587980	processed_transcript	KNOWN	None	21295	None	None	55508138	55516270	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_COX1_CTG1	EPS8L1	ENSG00000263295	ENST00000591557	retained_intron	KNOWN	None	21295	None	None	55508173	55512661	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_COX1_CTG1	EPS8L1	ENSG00000263295	ENST00000572133	protein_coding	KNOWN	None	21295	2172	723	55508186	55520207	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_COX1_CTG1	EPS8L1	ENSG00000263295	ENST00000574843	protein_coding	NOVEL	None	21295	1980	659	55508188	55520133	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_COX1_CTG1	EPS8L1	ENSG00000263295	ENST00000586367	nonsense_mediated_decay	KNOWN	None	21295	1287	428	55508641	55518177	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_COX1_CTG1	EPS8L1	ENSG00000263295	ENST00000585532	retained_intron	KNOWN	None	21295	None	None	55511870	55512468	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_COX1_CTG1	EPS8L1	ENSG00000263295	ENST00000586333	protein_coding	NOVEL	None	21295	1230	409	55512677	55519974	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_COX1_CTG1	EPS8L1	ENSG00000263295	ENST00000572780	protein_coding	KNOWN	None	21295	1791	596	55512677	55520204	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_COX1_CTG1	EPS8L1	ENSG00000263295	ENST00000590395	retained_intron	KNOWN	None	21295	None	None	55512722	55513612	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_COX1_CTG1	EPS8L1	ENSG00000263295	ENST00000591359	retained_intron	KNOWN	None	21295	None	None	55513317	55514159	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_COX1_CTG1	EPS8L1	ENSG00000263295	ENST00000590716	retained_intron	KNOWN	None	21295	None	None	55513977	55515689	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_COX1_CTG1	EPS8L1	ENSG00000263295	ENST00000585546	retained_intron	KNOWN	None	21295	None	None	55513978	55515765	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_COX1_CTG1	EPS8L1	ENSG00000263295	ENST00000592301	retained_intron	KNOWN	None	21295	None	None	55513978	55520207	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_COX1_CTG1	EPS8L1	ENSG00000263295	ENST00000592402	retained_intron	KNOWN	None	21295	None	None	55514223	55520208	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_COX1_CTG1	EPS8L1	ENSG00000263295	ENST00000586008	processed_transcript	KNOWN	None	21295	None	None	55516750	55518720	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_COX1_CTG1	EPS8L1	ENSG00000263295	ENST00000585764	retained_intron	KNOWN	None	21295	None	None	55517980	55518477	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_COX1_CTG1	EPS8L1	ENSG00000263295	ENST00000585586	processed_transcript	KNOWN	None	21295	None	None	55519062	55520205	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_COX1_CTG1	EPS8L1	ENSG00000263295	ENST00000591876	retained_intron	KNOWN	None	21295	None	None	55519354	55520190	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_COX2_CTG1	VSTM1	ENSG00000272011	ENST00000606435	protein_coding	NOVEL	None	29455	381	126	54544079	54561677	-1	None	UNQ3033
HSCHR19LRC_COX2_CTG1	VSTM1	ENSG00000272011	ENST00000607207	protein_coding	KNOWN	None	29455	711	236	54544079	54567207	-1	None	UNQ3033
HSCHR19LRC_COX2_CTG1	VSTM1	ENSG00000272011	ENST00000606360	nonsense_mediated_decay	KNOWN	None	29455	525	174	54544083	54567207	-1	None	UNQ3033
HSCHR19LRC_COX2_CTG1	VSTM1	ENSG00000272011	ENST00000606843	protein_coding	KNOWN	None	29455	618	205	54544087	54567207	-1	None	UNQ3033
HSCHR19LRC_COX2_CTG1	VSTM1	ENSG00000272011	ENST00000606631	protein_coding	KNOWN	None	29455	447	148	54544204	54567042	-1	None	UNQ3033
HSCHR19LRC_COX2_CTG1	VSTM1	ENSG00000272011	ENST00000606506	protein_coding	KNOWN	None	29455	432	143	54544204	54567042	-1	None	UNQ3033
HSCHR19LRC_COX2_CTG1	TARM1	ENSG00000272261	ENST00000606670	protein_coding	PUTATIVE	None	37250	840	279	54573149	54579813	-1	None	None
HSCHR19LRC_COX2_CTG1	TARM1	ENSG00000272261	ENST00000606417	protein_coding	KNOWN	None	37250	816	271	54573201	54584634	-1	None	None
HSCHR19LRC_COX2_CTG1	OSCAR	ENSG00000272408	ENST00000607683	protein_coding	PUTATIVE	None	29960	816	271	54597933	54604083	-1	None	None
HSCHR19LRC_COX2_CTG1	OSCAR	ENSG00000272408	ENST00000607107	protein_coding	KNOWN	None	29960	804	267	54597935	54604083	-1	None	None
HSCHR19LRC_COX2_CTG1	OSCAR	ENSG00000272408	ENST00000607188	protein_coding	PUTATIVE	None	29960	861	286	54597935	54604106	-1	None	None
HSCHR19LRC_COX2_CTG1	OSCAR	ENSG00000272408	ENST00000606086	protein_coding	KNOWN	None	29960	792	263	54597935	54604129	-1	None	None
HSCHR19LRC_COX2_CTG1	OSCAR	ENSG00000272408	ENST00000607509	protein_coding	KNOWN	None	29960	759	252	54597935	54604148	-1	None	None
HSCHR19LRC_COX2_CTG1	OSCAR	ENSG00000272408	ENST00000606236	protein_coding	NOVEL	None	29960	849	282	54597935	54606000	-1	None	None
HSCHR19LRC_COX2_CTG1	OSCAR	ENSG00000272408	ENST00000606052	protein_coding	PUTATIVE	None	29960	486	161	54599039	54604132	-1	None	None
HSCHR19LRC_COX2_CTG1	NDUFA3	ENSG00000271909	ENST00000606005	nonsense_mediated_decay	KNOWN	None	7686	198	65	54606036	54610268	1	None	B9
HSCHR19LRC_COX2_CTG1	NDUFA3	ENSG00000271909	ENST00000606297	nonsense_mediated_decay	KNOWN	None	7686	255	84	54606129	54612011	1	None	B9
HSCHR19LRC_COX2_CTG1	NDUFA3	ENSG00000271909	ENST00000606636	protein_coding	KNOWN	None	7686	255	84	54606145	54610875	1	None	B9
HSCHR19LRC_COX2_CTG1	NDUFA3	ENSG00000271909	ENST00000606701	protein_coding	PUTATIVE	None	7686	219	72	54606160	54610268	1	None	B9
HSCHR19LRC_COX2_CTG1	NDUFA3	ENSG00000271909	ENST00000606733	protein_coding	PUTATIVE	None	7686	222	73	54606163	54609777	1	None	B9
HSCHR19LRC_COX2_CTG1	NDUFA3	ENSG00000271909	ENST00000605988	nonsense_mediated_decay	KNOWN	None	7686	198	65	54606163	54610268	1	None	B9
HSCHR19LRC_COX2_CTG1	NDUFA3	ENSG00000271909	ENST00000607178	protein_coding	PUTATIVE	None	7686	186	61	54606177	54610272	1	None	B9
HSCHR19LRC_COX2_CTG1	NDUFA3	ENSG00000271909	ENST00000607217	protein_coding	PUTATIVE	None	7686	246	81	54606177	54611840	1	None	B9
HSCHR19LRC_COX2_CTG1	NDUFA3	ENSG00000271909	ENST00000607498	retained_intron	KNOWN	None	7686	None	None	54606185	54610268	1	None	B9
HSCHR19LRC_COX2_CTG1	NDUFA3	ENSG00000271909	ENST00000607268	protein_coding	PUTATIVE	None	7686	126	41	54606193	54610268	1	None	B9
HSCHR19LRC_COX2_CTG1	NDUFA3	ENSG00000271909	ENST00000606081	nonsense_mediated_decay	KNOWN	None	7686	209	68	54606422	54612033	1	None	B9
HSCHR19LRC_COX2_CTG1	NDUFA3	ENSG00000271909	ENST00000606850	protein_coding	PUTATIVE	None	7686	103	33	54609272	54610268	1	None	B9
HSCHR19LRC_COX2_CTG1	NDUFA3	ENSG00000271909	ENST00000606552	processed_transcript	KNOWN	None	7686	None	None	54611854	54612236	1	None	B9
HSCHR19LRC_COX2_CTG1	NDUFA3	ENSG00000271909	ENST00000606957	processed_transcript	KNOWN	None	7686	None	None	54612011	54612564	1	None	B9
HSCHR19LRC_COX2_CTG1	TFPT	ENSG00000271785	ENST00000606845	protein_coding	KNOWN	None	13630	762	253	54610320	54619055	-1	None	FB1, amida, INO80F
HSCHR19LRC_COX2_CTG1	TFPT	ENSG00000271785	ENST00000606047	protein_coding	PUTATIVE	None	13630	735	244	54610327	54618454	-1	None	FB1, amida, INO80F
HSCHR19LRC_COX2_CTG1	TFPT	ENSG00000271785	ENST00000607374	nonsense_mediated_decay	KNOWN	None	13630	318	105	54610327	54618665	-1	None	FB1, amida, INO80F
HSCHR19LRC_COX2_CTG1	TFPT	ENSG00000271785	ENST00000607034	protein_coding	PUTATIVE	None	13630	582	193	54610327	54618668	-1	None	FB1, amida, INO80F
HSCHR19LRC_COX2_CTG1	PRPF31	ENSG00000272467	ENST00000607719	protein_coding	KNOWN	None	15446	1500	499	54618837	54635140	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_COX2_CTG1	PRPF31	ENSG00000272467	ENST00000607473	protein_coding	KNOWN	None	15446	853	283	54619134	54628033	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_COX2_CTG1	PRPF31	ENSG00000272467	ENST00000607073	protein_coding	KNOWN	None	15446	1353	450	54619151	54635140	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_COX2_CTG1	PRPF31	ENSG00000272467	ENST00000605943	protein_coding	KNOWN	None	15446	829	275	54619159	54628009	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_COX2_CTG1	PRPF31	ENSG00000272467	ENST00000607279	protein_coding	KNOWN	None	15446	782	259	54619189	54627962	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_COX2_CTG1	PRPF31	ENSG00000272467	ENST00000606168	protein_coding	NOVEL	None	15446	1482	493	54621651	54635140	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_COX2_CTG1	PRPF31	ENSG00000272467	ENST00000607488	retained_intron	KNOWN	None	15446	None	None	54621786	54622191	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_COX2_CTG1	PRPF31	ENSG00000272467	ENST00000606145	retained_intron	KNOWN	None	15446	None	None	54621789	54635140	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_COX2_CTG1	PRPF31	ENSG00000272467	ENST00000607548	processed_transcript	KNOWN	None	15446	None	None	54621993	54631572	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_COX2_CTG1	None	ENSG00000271944	ENST00000606830	antisense	KNOWN	None	None	None	None	54622891	54628722	-1	None	None
HSCHR19LRC_COX2_CTG1	CNOT3	ENSG00000271804	ENST00000606520	protein_coding	KNOWN	None	7879	2262	753	54641444	54659419	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_COX2_CTG1	CNOT3	ENSG00000271804	ENST00000607323	protein_coding	KNOWN	None	7879	1716	571	54641449	54657242	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_COX2_CTG1	CNOT3	ENSG00000271804	ENST00000605994	retained_intron	KNOWN	None	7879	None	None	54641503	54659418	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_COX2_CTG1	CNOT3	ENSG00000271804	ENST00000607281	protein_coding	KNOWN	None	7879	2262	753	54645112	54659418	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_COX2_CTG1	CNOT3	ENSG00000271804	ENST00000606469	protein_coding	NOVEL	None	7879	1125	374	54647466	54652432	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_COX2_CTG1	CNOT3	ENSG00000271804	ENST00000606748	nonsense_mediated_decay	KNOWN	None	7879	319	105	54647473	54659419	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_COX2_CTG1	CNOT3	ENSG00000271804	ENST00000607811	protein_coding	PUTATIVE	None	7879	865	287	54653295	54658192	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_COX2_CTG1	CNOT3	ENSG00000271804	ENST00000605963	processed_transcript	KNOWN	None	7879	None	None	54653465	54657556	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_COX2_CTG1	CNOT3	ENSG00000271804	ENST00000607358	retained_intron	KNOWN	None	7879	None	None	54656740	54659419	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_COX2_CTG1	CNOT3	ENSG00000271804	ENST00000606475	protein_coding	NOVEL	None	7879	267	88	54657461	54659419	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_COX2_CTG1	LENG1	ENSG00000272063	ENST00000606029	protein_coding	KNOWN	None	15502	795	264	54658899	54663620	-1	None	None
HSCHR19LRC_COX2_CTG1	TMC4	ENSG00000271822	ENST00000606948	retained_intron	KNOWN	None	22998	None	None	54663846	54664386	-1	None	None
HSCHR19LRC_COX2_CTG1	TMC4	ENSG00000271822	ENST00000606518	nonsense_mediated_decay	KNOWN	None	22998	168	55	54663846	54664709	-1	None	None
HSCHR19LRC_COX2_CTG1	TMC4	ENSG00000271822	ENST00000607127	retained_intron	KNOWN	None	22998	None	None	54663846	54668450	-1	None	None
HSCHR19LRC_COX2_CTG1	TMC4	ENSG00000271822	ENST00000607432	protein_coding	KNOWN	None	22998	2121	706	54663846	54676865	-1	None	None
HSCHR19LRC_COX2_CTG1	TMC4	ENSG00000271822	ENST00000606737	protein_coding	KNOWN	None	22998	885	294	54663847	54667425	-1	None	None
HSCHR19LRC_COX2_CTG1	TMC4	ENSG00000271822	ENST00000607530	protein_coding	NOVEL	None	22998	2139	712	54663902	54676944	-1	None	None
HSCHR19LRC_COX2_CTG1	TMC4	ENSG00000271822	ENST00000607461	retained_intron	KNOWN	None	22998	None	None	54665074	54667213	-1	None	None
HSCHR19LRC_COX2_CTG1	TMC4	ENSG00000271822	ENST00000607824	retained_intron	KNOWN	None	22998	None	None	54665962	54667000	-1	None	None
HSCHR19LRC_COX2_CTG1	TMC4	ENSG00000271822	ENST00000606867	processed_transcript	KNOWN	None	22998	None	None	54666841	54676854	-1	None	None
HSCHR19LRC_COX2_CTG1	TMC4	ENSG00000271822	ENST00000607182	processed_transcript	KNOWN	None	22998	None	None	54668273	54675718	-1	None	None
HSCHR19LRC_COX2_CTG1	TMC4	ENSG00000271822	ENST00000607380	retained_intron	KNOWN	None	22998	None	None	54668286	54672208	-1	None	None
HSCHR19LRC_COX2_CTG1	TMC4	ENSG00000271822	ENST00000606305	protein_coding	NOVEL	None	22998	527	174	54671897	54676447	-1	None	None
HSCHR19LRC_COX2_CTG1	MBOAT7	ENSG00000271908	ENST00000606836	protein_coding	KNOWN	None	15505	1200	399	54677107	54693733	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_COX2_CTG1	MBOAT7	ENSG00000271908	ENST00000606605	nonsense_mediated_decay	KNOWN	None	15505	213	70	54677109	54693294	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_COX2_CTG1	MBOAT7	ENSG00000271908	ENST00000606335	protein_coding	PUTATIVE	None	15505	1200	399	54677109	54693419	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_COX2_CTG1	MBOAT7	ENSG00000271908	ENST00000607243	protein_coding	KNOWN	None	15505	1419	472	54677109	54693666	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_COX2_CTG1	MBOAT7	ENSG00000271908	ENST00000606215	retained_intron	KNOWN	None	15505	None	None	54677113	54684507	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_COX2_CTG1	MBOAT7	ENSG00000271908	ENST00000606675	protein_coding	PUTATIVE	None	15505	372	123	54677768	54692132	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_COX2_CTG1	MBOAT7	ENSG00000271908	ENST00000606984	protein_coding	PUTATIVE	None	15505	1035	344	54682054	54693523	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_COX2_CTG1	MBOAT7	ENSG00000271908	ENST00000606886	protein_coding	PUTATIVE	None	15505	545	180	54683380	54687517	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_COX2_CTG1	MBOAT7	ENSG00000271908	ENST00000606196	protein_coding	PUTATIVE	None	15505	768	255	54684576	54693146	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_COX2_CTG1	MBOAT7	ENSG00000271908	ENST00000607481	protein_coding	KNOWN	None	15505	511	169	54684833	54693195	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_COX2_CTG1	MBOAT7	ENSG00000271908	ENST00000607512	retained_intron	KNOWN	None	15505	None	None	54684841	54692266	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_COX2_CTG1	MBOAT7	ENSG00000271908	ENST00000606210	processed_transcript	KNOWN	None	15505	None	None	54687404	54693400	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_COX2_CTG1	MBOAT7	ENSG00000271908	ENST00000606946	retained_intron	KNOWN	None	15505	None	None	54690838	54693211	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_COX2_CTG1	MBOAT7	ENSG00000271908	ENST00000606548	processed_transcript	KNOWN	None	15505	None	None	54691168	54693420	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_COX2_CTG1	TSEN34	ENSG00000272090	ENST00000607493	protein_coding	KNOWN	None	15506	727	241	54693789	54696206	1	LENG5	SEN34, SEN34L
HSCHR19LRC_COX2_CTG1	TSEN34	ENSG00000272090	ENST00000607579	protein_coding	PUTATIVE	None	15506	754	250	54694119	54696224	1	LENG5	SEN34, SEN34L
HSCHR19LRC_COX2_CTG1	TSEN34	ENSG00000272090	ENST00000606509	protein_coding	KNOWN	None	15506	933	310	54694119	54697521	1	LENG5	SEN34, SEN34L
HSCHR19LRC_COX2_CTG1	TSEN34	ENSG00000272090	ENST00000606256	protein_coding	KNOWN	None	15506	939	312	54694138	54697585	1	LENG5	SEN34, SEN34L
HSCHR19LRC_COX2_CTG1	TSEN34	ENSG00000272090	ENST00000606694	retained_intron	KNOWN	None	15506	None	None	54694194	54697521	1	LENG5	SEN34, SEN34L
HSCHR19LRC_COX2_CTG1	TSEN34	ENSG00000272090	ENST00000607469	protein_coding	KNOWN	None	15506	933	310	54694582	54697521	1	LENG5	SEN34, SEN34L
HSCHR19LRC_COX2_CTG1	TSEN34	ENSG00000272090	ENST00000607447	protein_coding	KNOWN	None	15506	933	310	54695104	54697521	1	LENG5	SEN34, SEN34L
HSCHR19LRC_COX2_CTG1	None	ENSG00000271775	ENST00000606646	lincRNA	KNOWN	None	None	None	None	54697731	54698394	1	None	None
HSCHR19LRC_COX2_CTG1	None	ENSG00000271872	ENST00000607761	antisense	KNOWN	None	None	None	None	54703321	54703838	-1	None	None
HSCHR19LRC_COX2_CTG1	None	ENSG00000272126	ENST00000606956	protein_coding	NOVEL	None	None	585	194	54704726	54711511	1	None	None
HSCHR19LRC_COX2_CTG1	None	ENSG00000271878	ENST00000606148	unprocessed_pseudogene	KNOWN	None	None	None	None	54712960	54713286	-1	None	None
HSCHR19LRC_COX2_CTG1	None	ENSG00000262266	ENST00000572745	unprocessed_pseudogene	KNOWN	None	None	None	None	54797554	54797871	-1	None	None
HSCHR19LRC_COX2_CTG1	LILRA3	ENSG00000261937	ENST00000574010	protein_coding	NOVEL	None	6604	1128	375	54799506	54803825	-1	None	LIR-4, HM43, ILT6, HM31, LIR4, CD85e
HSCHR19LRC_COX2_CTG1	LILRA3	ENSG00000261937	ENST00000570542	protein_coding	KNOWN	None	6604	1320	439	54799506	54803917	-1	None	LIR-4, HM43, ILT6, HM31, LIR4, CD85e
HSCHR19LRC_COX2_CTG1	LILRA3	ENSG00000261937	ENST00000571761	protein_coding	PUTATIVE	None	6604	1371	456	54799506	54809605	-1	None	LIR-4, HM43, ILT6, HM31, LIR4, CD85e
HSCHR19LRC_COX2_CTG1	None	ENSG00000262100	ENST00000575804	unprocessed_pseudogene	KNOWN	None	None	None	None	54808367	54809076	-1	None	None
HSCHR19LRC_COX2_CTG1	None	ENSG00000263112	ENST00000571283	unprocessed_pseudogene	KNOWN	None	None	None	None	54811988	54816264	-1	None	None
HSCHR19LRC_COX2_CTG1	VN1R104P	ENSG00000262300	ENST00000570824	unprocessed_pseudogene	KNOWN	None	37427	None	None	54830436	54831444	-1	None	None
HSCHR19LRC_COX2_CTG1	None	ENSG00000261988	ENST00000575259	unprocessed_pseudogene	KNOWN	None	None	None	None	54838504	54841666	-1	None	None
HSCHR19LRC_COX2_CTG1	LILRA4	ENSG00000262284	ENST00000576301	protein_coding	KNOWN	None	15503	1500	499	54843416	54849383	-1	None	ILT7, CD85g
HSCHR19LRC_COX2_CTG1	LILRA4	ENSG00000262284	ENST00000601626	non_stop_decay	KNOWN	None	15503	421	139	54847005	54847681	-1	None	ILT7, CD85g
HSCHR19LRC_COX2_CTG1	LILRA4	ENSG00000262284	ENST00000570885	retained_intron	KNOWN	None	15503	None	None	54848445	54849338	-1	None	ILT7, CD85g
HSCHR19LRC_COX2_CTG1	None	ENSG00000269750	ENST00000597437	lincRNA	KNOWN	None	None	None	None	54861674	54863577	-1	None	None
HSCHR19LRC_COX2_CTG1	LAIR1	ENSG00000262936	ENST00000574314	protein_coding	PUTATIVE	None	6477	810	269	54864045	54880850	-1	None	CD305
HSCHR19LRC_COX2_CTG1	LAIR1	ENSG00000262936	ENST00000574147	retained_intron	KNOWN	None	6477	None	None	54864967	54867639	-1	None	CD305
HSCHR19LRC_COX2_CTG1	LAIR1	ENSG00000262936	ENST00000575213	protein_coding	KNOWN	None	6477	813	270	54864967	54875155	-1	None	CD305
HSCHR19LRC_COX2_CTG1	LAIR1	ENSG00000262936	ENST00000573407	protein_coding	KNOWN	None	6477	864	287	54864967	54875247	-1	None	CD305
HSCHR19LRC_COX2_CTG1	LAIR1	ENSG00000262936	ENST00000576124	protein_coding	NOVEL	None	6477	861	286	54864967	54875285	-1	None	CD305
HSCHR19LRC_COX2_CTG1	LAIR1	ENSG00000262936	ENST00000572189	protein_coding	KNOWN	None	6477	843	280	54865066	54880743	-1	None	CD305
HSCHR19LRC_COX2_CTG1	LAIR1	ENSG00000262936	ENST00000576211	retained_intron	KNOWN	None	6477	None	None	54865493	54871483	-1	None	CD305
HSCHR19LRC_COX2_CTG1	LAIR1	ENSG00000262936	ENST00000573632	nonsense_mediated_decay	KNOWN	None	6477	384	127	54865550	54875160	-1	None	CD305
HSCHR19LRC_COX2_CTG1	LAIR1	ENSG00000262936	ENST00000574643	protein_coding	NOVEL	None	6477	810	269	54865559	54875097	-1	None	CD305
HSCHR19LRC_COX2_CTG1	LAIR1	ENSG00000262936	ENST00000570763	retained_intron	KNOWN	None	6477	None	None	54865559	54875097	-1	None	CD305
HSCHR19LRC_COX2_CTG1	LAIR1	ENSG00000262936	ENST00000572197	nonsense_mediated_decay	KNOWN	None	6477	60	19	54865638	54875126	-1	None	CD305
HSCHR19LRC_COX2_CTG1	LAIR1	ENSG00000262936	ENST00000573969	processed_transcript	KNOWN	None	6477	None	None	54866272	54875380	-1	None	CD305
HSCHR19LRC_COX2_CTG1	LAIR1	ENSG00000262936	ENST00000570637	nonsense_mediated_decay	KNOWN	None	6477	462	153	54866529	54875157	-1	None	CD305
HSCHR19LRC_COX2_CTG1	LAIR1	ENSG00000262936	ENST00000571458	retained_intron	KNOWN	None	6477	None	None	54866578	54867921	-1	None	CD305
HSCHR19LRC_COX2_CTG1	LAIR1	ENSG00000262936	ENST00000573546	processed_transcript	KNOWN	None	6477	None	None	54866849	54875389	-1	None	CD305
HSCHR19LRC_COX2_CTG1	LAIR1	ENSG00000262936	ENST00000576298	nonsense_mediated_decay	KNOWN	None	6477	135	44	54866877	54875221	-1	None	CD305
HSCHR19LRC_COX2_CTG1	LAIR1	ENSG00000262936	ENST00000575625	nonsense_mediated_decay	KNOWN	None	6477	135	44	54866900	54875221	-1	None	CD305
HSCHR19LRC_COX2_CTG1	LAIR1	ENSG00000262936	ENST00000574702	protein_coding	PUTATIVE	None	6477	240	79	54868298	54871239	-1	None	CD305
HSCHR19LRC_COX2_CTG1	LAIR1	ENSG00000262936	ENST00000572483	nonsense_mediated_decay	KNOWN	None	6477	60	19	54870985	54875404	-1	None	CD305
HSCHR19LRC_COX2_CTG1	LAIR1	ENSG00000262936	ENST00000571699	processed_transcript	KNOWN	None	6477	None	None	54871090	54875139	-1	None	CD305
HSCHR19LRC_COX2_CTG1	LAIR1	ENSG00000262936	ENST00000572708	nonsense_mediated_decay	KNOWN	None	6477	60	19	54871249	54875221	-1	None	CD305
HSCHR19LRC_COX2_CTG1	LAIR1	ENSG00000262936	ENST00000575062	processed_transcript	PUTATIVE	None	6477	None	None	54871250	54878891	-1	None	CD305
HSCHR19LRC_COX2_CTG1	LAIR1	ENSG00000262936	ENST00000571037	protein_coding	PUTATIVE	None	6477	280	92	54871272	54880783	-1	None	CD305
HSCHR19LRC_COX2_CTG1	LAIR1	ENSG00000262936	ENST00000593669	retained_intron	KNOWN	None	6477	None	None	54878481	54878992	-1	None	CD305
HSCHR19LRC_COX2_CTG1	None	ENSG00000262423	ENST00000574772	processed_pseudogene	KNOWN	None	None	None	None	54889779	54890250	1	None	None
HSCHR19LRC_COX2_CTG1	KIR3DP1	ENSG00000261849	ENST00000572194	transcribed_unprocessed_pseudogene	KNOWN	None	16343	None	None	54933099	54937062	1	None	KIRX, KIR48, KIR2DS6, KIR3DS2P, CD158C
HSCHR19LRC_COX2_CTG1	None	ENSG00000268214	ENST00000575775	protein_coding	KNOWN	None	None	1251	416	54950192	54961268	1	None	None
HSCHR19LRC_COX2_CTG1	KIR2DS5	ENSG00000261870	ENST00000574044	protein_coding	KNOWN	None	6337	1149	382	54991291	55006271	1	None	nkat9, CD158G
HSCHR19LRC_COX2_CTG1	KIR2DS5	ENSG00000261870	ENST00000575450	protein_coding	KNOWN	None	6337	1155	384	54991291	55006271	1	None	nkat9, CD158G
HSCHR19LRC_COX2_CTG1	KIR3DL2	ENSG00000262897	ENST00000576113	protein_coding	KNOWN	None	6339	1368	455	55024581	55041367	1	None	cl-5, nkat4, nkat4a, nkat4b, CD158K
HSCHR19LRC_COX2_CTG1	KIR3DL2	ENSG00000262897	ENST00000573879	protein_coding	NOVEL	None	6339	1317	438	55024614	55041120	1	None	cl-5, nkat4, nkat4a, nkat4b, CD158K
HSCHR19LRC_COX2_CTG1	FCAR	ENSG00000262806	ENST00000572552	protein_coding	KNOWN	None	3608	540	179	55048402	55064005	1	None	CD89
HSCHR19LRC_COX2_CTG1	FCAR	ENSG00000262806	ENST00000577127	protein_coding	KNOWN	None	3608	720	239	55048434	55063182	1	None	CD89
HSCHR19LRC_COX2_CTG1	FCAR	ENSG00000262806	ENST00000570855	nonsense_mediated_decay	KNOWN	None	3608	684	227	55048434	55063182	1	None	CD89
HSCHR19LRC_COX2_CTG1	FCAR	ENSG00000262806	ENST00000576800	processed_transcript	KNOWN	None	3608	None	None	55048434	55063978	1	None	CD89
HSCHR19LRC_COX2_CTG1	FCAR	ENSG00000262806	ENST00000576568	protein_coding	KNOWN	None	3608	864	287	55048434	55064587	1	None	CD89
HSCHR19LRC_COX2_CTG1	FCAR	ENSG00000262806	ENST00000575913	protein_coding	KNOWN	None	3608	798	265	55048439	55064005	1	None	CD89
HSCHR19LRC_COX2_CTG1	FCAR	ENSG00000262806	ENST00000575866	protein_coding	KNOWN	None	3608	576	191	55048439	55064005	1	None	CD89
HSCHR19LRC_COX2_CTG1	FCAR	ENSG00000262806	ENST00000576451	protein_coding	KNOWN	None	3608	537	178	55048444	55063978	1	None	CD89
HSCHR19LRC_COX2_CTG1	FCAR	ENSG00000262806	ENST00000576509	protein_coding	KNOWN	None	3608	828	275	55048444	55063978	1	None	CD89
HSCHR19LRC_COX2_CTG1	FCAR	ENSG00000262806	ENST00000573084	protein_coding	KNOWN	None	3608	630	209	55048444	55063978	1	None	CD89
HSCHR19LRC_COX2_CTG1	FCAR	ENSG00000262806	ENST00000572443	protein_coding	KNOWN	None	3608	762	253	55048444	55063978	1	None	CD89
HSCHR19LRC_COX2_CTG1	FCAR	ENSG00000262806	ENST00000570554	processed_transcript	KNOWN	None	3608	None	None	55048444	55063978	1	None	CD89
HSCHR19LRC_COX2_CTG1	FCAR	ENSG00000262806	ENST00000574302	processed_transcript	KNOWN	None	3608	None	None	55048444	55063978	1	None	CD89
HSCHR19LRC_COX2_CTG1	None	ENSG00000269778	ENST00000594337	lincRNA	KNOWN	None	None	None	None	55064788	55065535	1	None	None
HSCHR19LRC_COX2_CTG1	NCR1	ENSG00000262182	ENST00000573111	protein_coding	KNOWN	None	6731	915	304	55080219	55087149	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_COX2_CTG1	NCR1	ENSG00000262182	ENST00000573696	protein_coding	KNOWN	None	6731	912	303	55080219	55087147	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_COX2_CTG1	NCR1	ENSG00000262182	ENST00000601695	retained_intron	KNOWN	None	6731	None	None	55080224	55080847	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_COX2_CTG1	NCR1	ENSG00000262182	ENST00000595896	retained_intron	KNOWN	None	6731	None	None	55080224	55083415	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_COX2_CTG1	NCR1	ENSG00000262182	ENST00000599884	protein_coding	NOVEL	None	6731	876	291	55080225	55087035	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_COX2_CTG1	NCR1	ENSG00000262182	ENST00000599079	protein_coding	KNOWN	None	6731	912	303	55080232	55090214	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_COX2_CTG1	NCR1	ENSG00000262182	ENST00000572957	protein_coding	KNOWN	None	6731	630	209	55080250	55087049	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_COX2_CTG1	NCR1	ENSG00000262182	ENST00000576597	protein_coding	KNOWN	None	6731	864	287	55080250	55087049	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_COX2_CTG1	NCR1	ENSG00000262182	ENST00000574055	protein_coding	NOVEL	None	6731	594	197	55080257	55086947	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_COX2_CTG1	NLRP7	ENSG00000263026	ENST00000571769	protein_coding	KNOWN	None	22947	3030	1009	55097598	55121593	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_COX2_CTG1	NLRP7	ENSG00000263026	ENST00000576102	protein_coding	KNOWN	None	22947	2943	980	55097598	55121593	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_COX2_CTG1	NLRP7	ENSG00000263026	ENST00000571118	protein_coding	KNOWN	None	22947	3030	1009	55097599	55115838	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_COX2_CTG1	NLRP7	ENSG00000263026	ENST00000586640	protein_coding	KNOWN	None	22947	2943	980	55097604	55115840	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_COX2_CTG1	NLRP7	ENSG00000263026	ENST00000592964	protein_coding	KNOWN	None	22947	3114	1037	55097604	55140331	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_COX2_CTG1	NLRP7	ENSG00000263026	ENST00000571663	protein_coding	KNOWN	None	22947	3198	1065	55097604	55140331	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_COX2_CTG1	NLRP7	ENSG00000263026	ENST00000587409	nonsense_mediated_decay	KNOWN	None	22947	2892	963	55097741	55121585	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_COX2_CTG1	NLRP7	ENSG00000263026	ENST00000588487	protein_coding	KNOWN	None	22947	3114	1037	55097742	55121585	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_COX2_CTG1	NLRP7	ENSG00000263026	ENST00000588530	protein_coding	KNOWN	None	22947	290	95	55115081	55140341	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_COX2_CTG1	NLRP7	ENSG00000263026	ENST00000586809	protein_coding	KNOWN	None	22947	210	69	55115590	55140400	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_COX2_CTG1	NLRP7	ENSG00000263026	ENST00000589635	protein_coding	KNOWN	None	22947	161	52	55115639	55140331	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_COX2_CTG1	None	ENSG00000267516	ENST00000592609	antisense	KNOWN	None	None	None	None	55125722	55126681	1	None	None
HSCHR19LRC_COX2_CTG1	NLRP2	ENSG00000262615	ENST00000590029	protein_coding	KNOWN	None	22948	420	139	55127218	55155727	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_COX2_CTG1	NLRP2	ENSG00000262615	ENST00000585501	protein_coding	KNOWN	None	22948	373	123	55127256	55151887	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_COX2_CTG1	NLRP2	ENSG00000262615	ENST00000574187	protein_coding	KNOWN	None	22948	463	153	55139158	55155770	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_COX2_CTG1	NLRP2	ENSG00000262615	ENST00000571477	protein_coding	KNOWN	None	22948	3189	1062	55139340	55175230	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_COX2_CTG1	NLRP2	ENSG00000262615	ENST00000575795	retained_intron	KNOWN	None	22948	None	None	55139373	55175230	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_COX2_CTG1	NLRP2	ENSG00000262615	ENST00000573475	protein_coding	KNOWN	None	22948	3117	1038	55139417	55175223	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_COX2_CTG1	NLRP2	ENSG00000262615	ENST00000574477	protein_coding	KNOWN	None	22948	3123	1040	55139424	55175226	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_COX2_CTG1	NLRP2	ENSG00000262615	ENST00000575501	nonsense_mediated_decay	KNOWN	None	22948	330	109	55139432	55155734	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_COX2_CTG1	NLRP2	ENSG00000262615	ENST00000572900	protein_coding	KNOWN	None	22948	3189	1062	55140431	55175228	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_COX2_CTG1	NLRP2	ENSG00000262615	ENST00000572578	protein_coding	KNOWN	None	22948	3123	1040	55140431	55175228	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_COX2_CTG1	NLRP2	ENSG00000262615	ENST00000589220	protein_coding	KNOWN	None	22948	406	134	55140462	55156399	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_COX2_CTG1	NLRP2	ENSG00000262615	ENST00000570685	protein_coding	KNOWN	None	22948	3120	1039	55140462	55175166	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_COX2_CTG1	NLRP2	ENSG00000262615	ENST00000575196	protein_coding	KNOWN	None	22948	3117	1038	55140487	55175221	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_COX2_CTG1	NLRP2	ENSG00000262615	ENST00000574837	protein_coding	NOVEL	None	22948	3180	1059	55140494	55175223	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_COX2_CTG1	NLRP2	ENSG00000262615	ENST00000570781	protein_coding	NOVEL	None	22948	495	164	55148082	55156485	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_COX2_CTG1	NLRP2	ENSG00000262615	ENST00000573460	protein_coding	PUTATIVE	None	22948	592	196	55157574	55160489	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_COX2_CTG1	NLRP2	ENSG00000262615	ENST00000577006	nonsense_mediated_decay	KNOWN	None	22948	267	88	55160294	55168528	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_COX2_CTG1	NLRP2	ENSG00000262615	ENST00000571950	nonsense_mediated_decay	KNOWN	None	22948	28	8	55160380	55164294	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_COX2_CTG1	NLRP2	ENSG00000262615	ENST00000585686	processed_transcript	KNOWN	None	22948	None	None	55164714	55165637	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_COX2_CTG1	NLRP2	ENSG00000262615	ENST00000576068	retained_intron	KNOWN	None	22948	None	None	55167306	55175226	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_COX2_CTG1	None	ENSG00000262706	ENST00000574145	processed_pseudogene	KNOWN	None	None	None	None	55147905	55148505	1	None	None
HSCHR19LRC_COX2_CTG1	None	ENSG00000267434	ENST00000592593	antisense	KNOWN	None	None	None	None	55180281	55222174	1	None	None
HSCHR19LRC_COX2_CTG1	None	ENSG00000267434	ENST00000587849	antisense	KNOWN	None	None	None	None	55180293	55217339	1	None	None
HSCHR19LRC_COX2_CTG1	None	ENSG00000267434	ENST00000587034	antisense	KNOWN	None	None	None	None	55201710	55218405	1	None	None
HSCHR19LRC_COX2_CTG1	GP6	ENSG00000262069	ENST00000571499	protein_coding	KNOWN	None	14388	1020	339	55187793	55212352	-1	None	GPVI
HSCHR19LRC_COX2_CTG1	GP6	ENSG00000262069	ENST00000570691	protein_coding	KNOWN	None	14388	1863	620	55187793	55212352	-1	None	GPVI
HSCHR19LRC_COX2_CTG1	GP6	ENSG00000262069	ENST00000573764	protein_coding	KNOWN	None	14388	966	321	55187793	55212352	-1	None	GPVI
HSCHR19LRC_COX2_CTG1	GP6	ENSG00000262069	ENST00000574296	retained_intron	KNOWN	None	14388	None	None	55188614	55192907	-1	None	GPVI
HSCHR19LRC_COX2_CTG1	GP6	ENSG00000262069	ENST00000575607	protein_coding	PUTATIVE	None	14388	352	116	55201693	55206953	-1	None	GPVI
HSCHR19LRC_COX2_CTG1	None	ENSG00000267485	ENST00000585459	processed_transcript	KNOWN	None	None	None	None	55201681	55228016	-1	None	None
HSCHR19LRC_COX2_CTG1	None	ENSG00000267485	ENST00000588509	processed_transcript	KNOWN	None	None	None	None	55216127	55219037	-1	None	None
HSCHR19LRC_COX2_CTG1	RDH13	ENSG00000262982	ENST00000588148	processed_transcript	KNOWN	None	19978	None	None	55213196	55217195	-1	None	SDR7C3
HSCHR19LRC_COX2_CTG1	RDH13	ENSG00000262982	ENST00000586303	processed_transcript	KNOWN	None	19978	None	None	55213199	55215977	-1	None	SDR7C3
HSCHR19LRC_COX2_CTG1	RDH13	ENSG00000262982	ENST00000589483	nonsense_mediated_decay	KNOWN	None	19978	108	35	55213199	55237164	-1	None	SDR7C3
HSCHR19LRC_COX2_CTG1	RDH13	ENSG00000262982	ENST00000573082	protein_coding	KNOWN	None	19978	996	331	55218431	55237264	-1	None	SDR7C3
HSCHR19LRC_COX2_CTG1	RDH13	ENSG00000262982	ENST00000570351	nonsense_mediated_decay	KNOWN	None	19978	663	220	55218431	55237921	-1	None	SDR7C3
HSCHR19LRC_COX2_CTG1	RDH13	ENSG00000262982	ENST00000574452	protein_coding	KNOWN	None	19978	783	260	55218431	55243617	-1	None	SDR7C3
HSCHR19LRC_COX2_CTG1	RDH13	ENSG00000262982	ENST00000588285	nonsense_mediated_decay	KNOWN	None	19978	663	220	55218943	55237174	-1	None	SDR7C3
HSCHR19LRC_COX2_CTG1	RDH13	ENSG00000262982	ENST00000589957	nonsense_mediated_decay	KNOWN	None	19978	108	35	55221501	55237236	-1	None	SDR7C3
HSCHR19LRC_COX2_CTG1	RDH13	ENSG00000262982	ENST00000585640	processed_transcript	KNOWN	None	19978	None	None	55222745	55233262	-1	None	SDR7C3
HSCHR19LRC_COX2_CTG1	RDH13	ENSG00000262982	ENST00000589855	processed_transcript	KNOWN	None	19978	None	None	55224962	55237207	-1	None	SDR7C3
HSCHR19LRC_COX2_CTG1	RDH13	ENSG00000262982	ENST00000592260	protein_coding	KNOWN	None	19978	127	41	55230741	55243617	-1	None	SDR7C3
HSCHR19LRC_COX2_CTG1	RDH13	ENSG00000262982	ENST00000587243	protein_coding	KNOWN	None	19978	88	28	55233341	55243628	-1	None	SDR7C3
HSCHR19LRC_COX2_CTG1	RDH13	ENSG00000262982	ENST00000587224	processed_transcript	KNOWN	None	19978	None	None	55237129	55238456	-1	None	SDR7C3
HSCHR19LRC_COX2_CTG1	RDH13	ENSG00000262982	ENST00000591591	processed_transcript	KNOWN	None	19978	None	None	55237308	55243628	-1	None	SDR7C3
HSCHR19LRC_COX2_CTG1	RDH13	ENSG00000262982	ENST00000592039	processed_transcript	KNOWN	None	19978	None	None	55237359	55243608	-1	None	SDR7C3
HSCHR19LRC_COX2_CTG1	RDH13	ENSG00000262982	ENST00000586038	processed_transcript	KNOWN	None	19978	None	None	55237596	55243611	-1	None	SDR7C3
HSCHR19LRC_COX2_CTG1	RDH13	ENSG00000262982	ENST00000589984	processed_transcript	KNOWN	None	19978	None	None	55237840	55243579	-1	None	SDR7C3
HSCHR19LRC_COX2_CTG1	RDH13	ENSG00000262982	ENST00000593171	processed_transcript	KNOWN	None	19978	None	None	55237989	55243619	-1	None	SDR7C3
HSCHR19LRC_COX2_CTG1	RDH13	ENSG00000262982	ENST00000588903	processed_transcript	KNOWN	None	19978	None	None	55238036	55245379	-1	None	SDR7C3
HSCHR19LRC_COX2_CTG1	RDH13	ENSG00000262982	ENST00000590583	processed_transcript	KNOWN	None	19978	None	None	55238128	55243980	-1	None	SDR7C3
HSCHR19LRC_COX2_CTG1	RDH13	ENSG00000262982	ENST00000585795	processed_transcript	KNOWN	None	19978	None	None	55241283	55243590	-1	None	SDR7C3
HSCHR19LRC_COX2_CTG1	EPS8L1	ENSG00000262092	ENST00000588252	protein_coding	NOVEL	None	21295	1647	548	55246108	55262007	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_COX2_CTG1	EPS8L1	ENSG00000262092	ENST00000587030	processed_transcript	KNOWN	None	21295	None	None	55249941	55258073	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_COX2_CTG1	EPS8L1	ENSG00000262092	ENST00000593206	retained_intron	KNOWN	None	21295	None	None	55249976	55254464	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_COX2_CTG1	EPS8L1	ENSG00000262092	ENST00000570966	protein_coding	KNOWN	None	21295	2172	723	55249989	55262010	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_COX2_CTG1	EPS8L1	ENSG00000262092	ENST00000571582	protein_coding	NOVEL	None	21295	1980	659	55249991	55261936	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_COX2_CTG1	EPS8L1	ENSG00000262092	ENST00000593102	nonsense_mediated_decay	KNOWN	None	21295	1287	428	55250444	55259980	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_COX2_CTG1	EPS8L1	ENSG00000262092	ENST00000586307	retained_intron	KNOWN	None	21295	None	None	55253673	55254271	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_COX2_CTG1	EPS8L1	ENSG00000262092	ENST00000585743	protein_coding	NOVEL	None	21295	1230	409	55254480	55261777	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_COX2_CTG1	EPS8L1	ENSG00000262092	ENST00000573442	protein_coding	KNOWN	None	21295	1791	596	55254480	55262007	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_COX2_CTG1	EPS8L1	ENSG00000262092	ENST00000587794	retained_intron	KNOWN	None	21295	None	None	55254525	55255415	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_COX2_CTG1	EPS8L1	ENSG00000262092	ENST00000592938	retained_intron	KNOWN	None	21295	None	None	55255120	55255962	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_COX2_CTG1	EPS8L1	ENSG00000262092	ENST00000591253	retained_intron	KNOWN	None	21295	None	None	55255780	55257492	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_COX2_CTG1	EPS8L1	ENSG00000262092	ENST00000588510	retained_intron	KNOWN	None	21295	None	None	55255781	55257568	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_COX2_CTG1	EPS8L1	ENSG00000262092	ENST00000587897	retained_intron	KNOWN	None	21295	None	None	55255781	55262010	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_COX2_CTG1	EPS8L1	ENSG00000262092	ENST00000590547	retained_intron	KNOWN	None	21295	None	None	55256026	55262011	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_COX2_CTG1	EPS8L1	ENSG00000262092	ENST00000589043	processed_transcript	KNOWN	None	21295	None	None	55258553	55260523	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_COX2_CTG1	EPS8L1	ENSG00000262092	ENST00000592185	retained_intron	KNOWN	None	21295	None	None	55259783	55260280	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_COX2_CTG1	EPS8L1	ENSG00000262092	ENST00000588243	processed_transcript	KNOWN	None	21295	None	None	55260865	55262008	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_COX2_CTG1	EPS8L1	ENSG00000262092	ENST00000587553	retained_intron	KNOWN	None	21295	None	None	55261157	55261993	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_I_CTG1	VSTM1	ENSG00000271837	ENST00000607345	protein_coding	NOVEL	None	29455	381	126	54544079	54561677	-1	None	UNQ3033
HSCHR19LRC_LRC_I_CTG1	VSTM1	ENSG00000271837	ENST00000606847	protein_coding	KNOWN	None	29455	711	236	54544079	54567207	-1	None	UNQ3033
HSCHR19LRC_LRC_I_CTG1	VSTM1	ENSG00000271837	ENST00000607028	nonsense_mediated_decay	KNOWN	None	29455	525	174	54544083	54567207	-1	None	UNQ3033
HSCHR19LRC_LRC_I_CTG1	VSTM1	ENSG00000271837	ENST00000607637	protein_coding	KNOWN	None	29455	618	205	54544087	54567207	-1	None	UNQ3033
HSCHR19LRC_LRC_I_CTG1	VSTM1	ENSG00000271837	ENST00000606545	protein_coding	KNOWN	None	29455	447	148	54544204	54567042	-1	None	UNQ3033
HSCHR19LRC_LRC_I_CTG1	VSTM1	ENSG00000271837	ENST00000607678	protein_coding	KNOWN	None	29455	432	143	54544204	54567042	-1	None	UNQ3033
HSCHR19LRC_LRC_I_CTG1	TARM1	ENSG00000272454	ENST00000607523	protein_coding	PUTATIVE	None	37250	840	279	54573149	54579813	-1	None	None
HSCHR19LRC_LRC_I_CTG1	TARM1	ENSG00000272454	ENST00000606969	protein_coding	KNOWN	None	37250	816	271	54573201	54584634	-1	None	None
HSCHR19LRC_LRC_I_CTG1	OSCAR	ENSG00000272136	ENST00000606315	protein_coding	PUTATIVE	None	29960	816	271	54597933	54604083	-1	None	None
HSCHR19LRC_LRC_I_CTG1	OSCAR	ENSG00000272136	ENST00000606618	protein_coding	KNOWN	None	29960	804	267	54597935	54604083	-1	None	None
HSCHR19LRC_LRC_I_CTG1	OSCAR	ENSG00000272136	ENST00000606620	protein_coding	PUTATIVE	None	29960	861	286	54597935	54604106	-1	None	None
HSCHR19LRC_LRC_I_CTG1	OSCAR	ENSG00000272136	ENST00000607687	protein_coding	KNOWN	None	29960	792	263	54597935	54604129	-1	None	None
HSCHR19LRC_LRC_I_CTG1	OSCAR	ENSG00000272136	ENST00000606269	protein_coding	KNOWN	None	29960	759	252	54597935	54604148	-1	None	None
HSCHR19LRC_LRC_I_CTG1	OSCAR	ENSG00000272136	ENST00000606132	protein_coding	NOVEL	None	29960	849	282	54597935	54606000	-1	None	None
HSCHR19LRC_LRC_I_CTG1	OSCAR	ENSG00000272136	ENST00000606275	protein_coding	PUTATIVE	None	29960	486	161	54599039	54604132	-1	None	None
HSCHR19LRC_LRC_I_CTG1	NDUFA3	ENSG00000271800	ENST00000607054	nonsense_mediated_decay	KNOWN	None	7686	198	65	54606036	54610268	1	None	B9
HSCHR19LRC_LRC_I_CTG1	NDUFA3	ENSG00000271800	ENST00000606191	nonsense_mediated_decay	KNOWN	None	7686	255	84	54606129	54612011	1	None	B9
HSCHR19LRC_LRC_I_CTG1	NDUFA3	ENSG00000271800	ENST00000607818	protein_coding	KNOWN	None	7686	255	84	54606145	54610875	1	None	B9
HSCHR19LRC_LRC_I_CTG1	NDUFA3	ENSG00000271800	ENST00000606603	protein_coding	PUTATIVE	None	7686	219	72	54606160	54610268	1	None	B9
HSCHR19LRC_LRC_I_CTG1	NDUFA3	ENSG00000271800	ENST00000607475	protein_coding	PUTATIVE	None	7686	222	73	54606163	54609777	1	None	B9
HSCHR19LRC_LRC_I_CTG1	NDUFA3	ENSG00000271800	ENST00000607529	nonsense_mediated_decay	KNOWN	None	7686	198	65	54606163	54610268	1	None	B9
HSCHR19LRC_LRC_I_CTG1	NDUFA3	ENSG00000271800	ENST00000607335	protein_coding	PUTATIVE	None	7686	186	61	54606177	54610272	1	None	B9
HSCHR19LRC_LRC_I_CTG1	NDUFA3	ENSG00000271800	ENST00000607024	protein_coding	PUTATIVE	None	7686	246	81	54606177	54611840	1	None	B9
HSCHR19LRC_LRC_I_CTG1	NDUFA3	ENSG00000271800	ENST00000607029	retained_intron	KNOWN	None	7686	None	None	54606185	54610268	1	None	B9
HSCHR19LRC_LRC_I_CTG1	NDUFA3	ENSG00000271800	ENST00000607262	protein_coding	PUTATIVE	None	7686	126	41	54606193	54610268	1	None	B9
HSCHR19LRC_LRC_I_CTG1	NDUFA3	ENSG00000271800	ENST00000606666	nonsense_mediated_decay	KNOWN	None	7686	209	68	54606422	54612033	1	None	B9
HSCHR19LRC_LRC_I_CTG1	NDUFA3	ENSG00000271800	ENST00000605968	protein_coding	PUTATIVE	None	7686	103	33	54609272	54610268	1	None	B9
HSCHR19LRC_LRC_I_CTG1	NDUFA3	ENSG00000271800	ENST00000606060	processed_transcript	KNOWN	None	7686	None	None	54611854	54612236	1	None	B9
HSCHR19LRC_LRC_I_CTG1	NDUFA3	ENSG00000271800	ENST00000606764	processed_transcript	KNOWN	None	7686	None	None	54612011	54612564	1	None	B9
HSCHR19LRC_LRC_I_CTG1	TFPT	ENSG00000272285	ENST00000606413	protein_coding	KNOWN	None	13630	762	253	54610320	54619055	-1	None	FB1, amida, INO80F
HSCHR19LRC_LRC_I_CTG1	TFPT	ENSG00000272285	ENST00000606467	protein_coding	PUTATIVE	None	13630	735	244	54610327	54618454	-1	None	FB1, amida, INO80F
HSCHR19LRC_LRC_I_CTG1	TFPT	ENSG00000272285	ENST00000607736	nonsense_mediated_decay	KNOWN	None	13630	318	105	54610327	54618665	-1	None	FB1, amida, INO80F
HSCHR19LRC_LRC_I_CTG1	TFPT	ENSG00000272285	ENST00000607657	protein_coding	PUTATIVE	None	13630	582	193	54610327	54618668	-1	None	FB1, amida, INO80F
HSCHR19LRC_LRC_I_CTG1	PRPF31	ENSG00000271953	ENST00000605977	protein_coding	KNOWN	None	15446	1500	499	54618837	54635140	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_LRC_I_CTG1	PRPF31	ENSG00000271953	ENST00000606759	protein_coding	KNOWN	None	15446	853	283	54619134	54628033	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_LRC_I_CTG1	PRPF31	ENSG00000271953	ENST00000606267	protein_coding	KNOWN	None	15446	1353	450	54619151	54635140	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_LRC_I_CTG1	PRPF31	ENSG00000271953	ENST00000606500	protein_coding	KNOWN	None	15446	829	275	54619159	54628009	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_LRC_I_CTG1	PRPF31	ENSG00000271953	ENST00000606786	protein_coding	KNOWN	None	15446	782	259	54619189	54627962	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_LRC_I_CTG1	PRPF31	ENSG00000271953	ENST00000606158	protein_coding	NOVEL	None	15446	1482	493	54621651	54635140	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_LRC_I_CTG1	PRPF31	ENSG00000271953	ENST00000605887	retained_intron	KNOWN	None	15446	None	None	54621786	54622191	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_LRC_I_CTG1	PRPF31	ENSG00000271953	ENST00000605993	retained_intron	KNOWN	None	15446	None	None	54621789	54635140	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_LRC_I_CTG1	PRPF31	ENSG00000271953	ENST00000606177	processed_transcript	KNOWN	None	15446	None	None	54621993	54631572	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_LRC_I_CTG1	None	ENSG00000271827	ENST00000606461	antisense	KNOWN	None	None	None	None	54622891	54628722	-1	None	None
HSCHR19LRC_LRC_I_CTG1	CNOT3	ENSG00000272339	ENST00000607755	protein_coding	KNOWN	None	7879	2262	753	54641444	54659419	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_LRC_I_CTG1	CNOT3	ENSG00000272339	ENST00000607676	protein_coding	KNOWN	None	7879	1716	571	54641449	54657242	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_LRC_I_CTG1	CNOT3	ENSG00000272339	ENST00000606359	retained_intron	KNOWN	None	7879	None	None	54641503	54659418	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_LRC_I_CTG1	CNOT3	ENSG00000272339	ENST00000607319	protein_coding	KNOWN	None	7879	2262	753	54645112	54659418	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_LRC_I_CTG1	CNOT3	ENSG00000272339	ENST00000607079	protein_coding	NOVEL	None	7879	1125	374	54647466	54652432	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_LRC_I_CTG1	CNOT3	ENSG00000272339	ENST00000606306	nonsense_mediated_decay	KNOWN	None	7879	319	105	54647473	54659419	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_LRC_I_CTG1	CNOT3	ENSG00000272339	ENST00000606410	protein_coding	PUTATIVE	None	7879	865	287	54653295	54658192	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_LRC_I_CTG1	CNOT3	ENSG00000272339	ENST00000607174	processed_transcript	KNOWN	None	7879	None	None	54653465	54657556	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_LRC_I_CTG1	CNOT3	ENSG00000272339	ENST00000606084	retained_intron	KNOWN	None	7879	None	None	54656740	54659419	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_LRC_I_CTG1	CNOT3	ENSG00000272339	ENST00000607696	protein_coding	NOVEL	None	7879	267	88	54657461	54659419	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_LRC_I_CTG1	LENG1	ENSG00000272276	ENST00000606088	protein_coding	KNOWN	None	15502	795	264	54658899	54663620	-1	None	None
HSCHR19LRC_LRC_I_CTG1	TMC4	ENSG00000272429	ENST00000606258	retained_intron	KNOWN	None	22998	None	None	54663846	54664386	-1	None	None
HSCHR19LRC_LRC_I_CTG1	TMC4	ENSG00000272429	ENST00000606710	nonsense_mediated_decay	KNOWN	None	22998	168	55	54663846	54664709	-1	None	None
HSCHR19LRC_LRC_I_CTG1	TMC4	ENSG00000272429	ENST00000606536	retained_intron	KNOWN	None	22998	None	None	54663846	54668450	-1	None	None
HSCHR19LRC_LRC_I_CTG1	TMC4	ENSG00000272429	ENST00000607180	protein_coding	KNOWN	None	22998	2121	706	54663846	54676865	-1	None	None
HSCHR19LRC_LRC_I_CTG1	TMC4	ENSG00000272429	ENST00000607289	protein_coding	KNOWN	None	22998	885	294	54663847	54667425	-1	None	None
HSCHR19LRC_LRC_I_CTG1	TMC4	ENSG00000272429	ENST00000607499	protein_coding	NOVEL	None	22998	2139	712	54663902	54676944	-1	None	None
HSCHR19LRC_LRC_I_CTG1	TMC4	ENSG00000272429	ENST00000606637	retained_intron	KNOWN	None	22998	None	None	54665074	54667213	-1	None	None
HSCHR19LRC_LRC_I_CTG1	TMC4	ENSG00000272429	ENST00000607383	retained_intron	KNOWN	None	22998	None	None	54665962	54667000	-1	None	None
HSCHR19LRC_LRC_I_CTG1	TMC4	ENSG00000272429	ENST00000607716	processed_transcript	KNOWN	None	22998	None	None	54666841	54676854	-1	None	None
HSCHR19LRC_LRC_I_CTG1	TMC4	ENSG00000272429	ENST00000605971	processed_transcript	KNOWN	None	22998	None	None	54668273	54675718	-1	None	None
HSCHR19LRC_LRC_I_CTG1	TMC4	ENSG00000272429	ENST00000607404	retained_intron	KNOWN	None	22998	None	None	54668286	54672208	-1	None	None
HSCHR19LRC_LRC_I_CTG1	TMC4	ENSG00000272429	ENST00000606516	protein_coding	NOVEL	None	22998	527	174	54671897	54676447	-1	None	None
HSCHR19LRC_LRC_I_CTG1	MBOAT7	ENSG00000271733	ENST00000606211	protein_coding	KNOWN	None	15505	1200	399	54677107	54693733	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_I_CTG1	MBOAT7	ENSG00000271733	ENST00000606012	nonsense_mediated_decay	KNOWN	None	15505	213	70	54677109	54693294	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_I_CTG1	MBOAT7	ENSG00000271733	ENST00000606746	protein_coding	PUTATIVE	None	15505	1200	399	54677109	54693419	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_I_CTG1	MBOAT7	ENSG00000271733	ENST00000607354	protein_coding	KNOWN	None	15505	1419	472	54677109	54693666	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_I_CTG1	MBOAT7	ENSG00000271733	ENST00000606543	retained_intron	KNOWN	None	15505	None	None	54677113	54684507	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_I_CTG1	MBOAT7	ENSG00000271733	ENST00000607154	protein_coding	PUTATIVE	None	15505	372	123	54677768	54692132	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_I_CTG1	MBOAT7	ENSG00000271733	ENST00000607069	protein_coding	PUTATIVE	None	15505	1035	344	54682054	54693523	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_I_CTG1	MBOAT7	ENSG00000271733	ENST00000606484	protein_coding	PUTATIVE	None	15505	545	180	54683380	54687517	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_I_CTG1	MBOAT7	ENSG00000271733	ENST00000607835	protein_coding	PUTATIVE	None	15505	768	255	54684576	54693146	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_I_CTG1	MBOAT7	ENSG00000271733	ENST00000606204	protein_coding	KNOWN	None	15505	511	169	54684833	54693195	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_I_CTG1	MBOAT7	ENSG00000271733	ENST00000606563	retained_intron	KNOWN	None	15505	None	None	54684841	54692266	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_I_CTG1	MBOAT7	ENSG00000271733	ENST00000606735	processed_transcript	KNOWN	None	15505	None	None	54687404	54693400	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_I_CTG1	MBOAT7	ENSG00000271733	ENST00000607381	retained_intron	KNOWN	None	15505	None	None	54690838	54693211	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_I_CTG1	MBOAT7	ENSG00000271733	ENST00000607142	processed_transcript	KNOWN	None	15505	None	None	54691168	54693420	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_I_CTG1	TSEN34	ENSG00000271836	ENST00000606090	protein_coding	KNOWN	None	15506	727	241	54693789	54696206	1	LENG5	SEN34, SEN34L
HSCHR19LRC_LRC_I_CTG1	TSEN34	ENSG00000271836	ENST00000607377	protein_coding	PUTATIVE	None	15506	754	250	54694119	54696224	1	LENG5	SEN34, SEN34L
HSCHR19LRC_LRC_I_CTG1	TSEN34	ENSG00000271836	ENST00000606792	protein_coding	KNOWN	None	15506	933	310	54694119	54697521	1	LENG5	SEN34, SEN34L
HSCHR19LRC_LRC_I_CTG1	TSEN34	ENSG00000271836	ENST00000606996	protein_coding	KNOWN	None	15506	939	312	54694138	54697585	1	LENG5	SEN34, SEN34L
HSCHR19LRC_LRC_I_CTG1	TSEN34	ENSG00000271836	ENST00000606342	retained_intron	KNOWN	None	15506	None	None	54694194	54697521	1	LENG5	SEN34, SEN34L
HSCHR19LRC_LRC_I_CTG1	TSEN34	ENSG00000271836	ENST00000606144	protein_coding	KNOWN	None	15506	933	310	54694582	54697521	1	LENG5	SEN34, SEN34L
HSCHR19LRC_LRC_I_CTG1	TSEN34	ENSG00000271836	ENST00000607065	protein_coding	KNOWN	None	15506	933	310	54695104	54697521	1	LENG5	SEN34, SEN34L
HSCHR19LRC_LRC_I_CTG1	None	ENSG00000272206	ENST00000607721	lincRNA	KNOWN	None	None	None	None	54697731	54698394	1	None	None
HSCHR19LRC_LRC_I_CTG1	None	ENSG00000272238	ENST00000606779	antisense	KNOWN	None	None	None	None	54703321	54703838	-1	None	None
HSCHR19LRC_LRC_I_CTG1	None	ENSG00000271756	ENST00000606007	protein_coding	NOVEL	None	None	585	194	54704726	54711511	1	None	None
HSCHR19LRC_LRC_I_CTG1	None	ENSG00000272490	ENST00000605905	unprocessed_pseudogene	KNOWN	None	None	None	None	54712960	54713286	-1	None	None
HSCHR19LRC_LRC_I_CTG1	KIR2DS2	ENSG00000263233	ENST00000573129	protein_coding	KNOWN	None	6334	915	304	55250100	55264425	1	None	cl-49, nkat5, 183ActI, CD158J
HSCHR19LRC_LRC_I_CTG1	KIR2DS4	ENSG00000262161	ENST00000574090	polymorphic_pseudogene	KNOWN	None	6336	893	296	55341441	55357334	1	None	cl-39, KKA3, nkat8, CD158i
HSCHR19LRC_LRC_I_CTG1	KIR2DS4	ENSG00000262161	ENST00000571154	polymorphic_pseudogene	KNOWN	None	6336	677	224	55341530	55355983	1	None	cl-39, KKA3, nkat8, CD158i
HSCHR19LRC_LRC_I_CTG1	NCR1	ENSG00000262680	ENST00000575901	protein_coding	KNOWN	None	6731	915	304	55415012	55421945	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_LRC_I_CTG1	NCR1	ENSG00000262680	ENST00000576561	protein_coding	KNOWN	None	6731	912	303	55415012	55421943	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_LRC_I_CTG1	NCR1	ENSG00000262680	ENST00000596693	retained_intron	KNOWN	None	6731	None	None	55415017	55415640	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_LRC_I_CTG1	NCR1	ENSG00000262680	ENST00000597540	retained_intron	KNOWN	None	6731	None	None	55415017	55418210	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_LRC_I_CTG1	NCR1	ENSG00000262680	ENST00000601608	protein_coding	NOVEL	None	6731	876	291	55415018	55421831	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_LRC_I_CTG1	NCR1	ENSG00000262680	ENST00000601558	protein_coding	KNOWN	None	6731	912	303	55415025	55425012	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_LRC_I_CTG1	NCR1	ENSG00000262680	ENST00000573041	protein_coding	KNOWN	None	6731	630	209	55415043	55421845	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_LRC_I_CTG1	NCR1	ENSG00000262680	ENST00000576029	protein_coding	KNOWN	None	6731	864	287	55415043	55421845	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_LRC_I_CTG1	NCR1	ENSG00000262680	ENST00000576786	protein_coding	NOVEL	None	6731	594	197	55415050	55421743	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_LRC_I_CTG1	NLRP7	ENSG00000262690	ENST00000571397	protein_coding	KNOWN	None	22947	3030	1009	55432381	55456377	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_LRC_I_CTG1	NLRP7	ENSG00000262690	ENST00000575386	protein_coding	KNOWN	None	22947	2943	980	55432381	55456377	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_LRC_I_CTG1	NLRP7	ENSG00000262690	ENST00000576081	protein_coding	KNOWN	None	22947	3030	1009	55432382	55450622	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_LRC_I_CTG1	NLRP7	ENSG00000262690	ENST00000586225	protein_coding	KNOWN	None	22947	2943	980	55432387	55450624	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_LRC_I_CTG1	NLRP7	ENSG00000262690	ENST00000593150	protein_coding	KNOWN	None	22947	3114	1037	55432387	55475115	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_LRC_I_CTG1	NLRP7	ENSG00000262690	ENST00000573287	protein_coding	KNOWN	None	22947	3198	1065	55432387	55475115	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_LRC_I_CTG1	NLRP7	ENSG00000262690	ENST00000591980	nonsense_mediated_decay	KNOWN	None	22947	2892	963	55432524	55456369	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_LRC_I_CTG1	NLRP7	ENSG00000262690	ENST00000589909	protein_coding	KNOWN	None	22947	3114	1037	55432525	55456369	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_LRC_I_CTG1	NLRP7	ENSG00000262690	ENST00000587749	protein_coding	KNOWN	None	22947	290	95	55449865	55475125	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_LRC_I_CTG1	NLRP7	ENSG00000262690	ENST00000588818	protein_coding	KNOWN	None	22947	210	69	55450374	55475184	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_LRC_I_CTG1	NLRP7	ENSG00000262690	ENST00000589893	protein_coding	KNOWN	None	22947	161	52	55450423	55475115	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_LRC_I_CTG1	None	ENSG00000267572	ENST00000586381	antisense	KNOWN	None	None	None	None	55460506	55461465	1	None	None
HSCHR19LRC_LRC_I_CTG1	NLRP2	ENSG00000262329	ENST00000585972	protein_coding	KNOWN	None	22948	420	139	55462002	55490511	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_I_CTG1	NLRP2	ENSG00000262329	ENST00000592480	protein_coding	KNOWN	None	22948	373	123	55462040	55486671	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_I_CTG1	NLRP2	ENSG00000262329	ENST00000572056	protein_coding	KNOWN	None	22948	463	153	55473942	55490554	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_I_CTG1	NLRP2	ENSG00000262329	ENST00000576515	protein_coding	KNOWN	None	22948	3189	1062	55474124	55510014	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_I_CTG1	NLRP2	ENSG00000262329	ENST00000576312	retained_intron	KNOWN	None	22948	None	None	55474157	55510014	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_I_CTG1	NLRP2	ENSG00000262329	ENST00000572005	protein_coding	KNOWN	None	22948	3117	1038	55474201	55510007	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_I_CTG1	NLRP2	ENSG00000262329	ENST00000575523	protein_coding	KNOWN	None	22948	3123	1040	55474208	55510010	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_I_CTG1	NLRP2	ENSG00000262329	ENST00000576533	nonsense_mediated_decay	KNOWN	None	22948	330	109	55474216	55490518	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_I_CTG1	NLRP2	ENSG00000262329	ENST00000572889	protein_coding	KNOWN	None	22948	3189	1062	55475215	55510012	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_I_CTG1	NLRP2	ENSG00000262329	ENST00000574414	protein_coding	KNOWN	None	22948	3123	1040	55475215	55510012	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_I_CTG1	NLRP2	ENSG00000262329	ENST00000588948	protein_coding	KNOWN	None	22948	406	134	55475246	55491183	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_I_CTG1	NLRP2	ENSG00000262329	ENST00000575835	protein_coding	KNOWN	None	22948	3120	1039	55475246	55509950	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_I_CTG1	NLRP2	ENSG00000262329	ENST00000574917	protein_coding	KNOWN	None	22948	3117	1038	55475271	55510005	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_I_CTG1	NLRP2	ENSG00000262329	ENST00000574326	protein_coding	NOVEL	None	22948	3180	1059	55475278	55510007	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_I_CTG1	NLRP2	ENSG00000262329	ENST00000573146	protein_coding	NOVEL	None	22948	495	164	55482866	55491269	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_I_CTG1	NLRP2	ENSG00000262329	ENST00000572325	protein_coding	PUTATIVE	None	22948	592	196	55492358	55495273	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_I_CTG1	NLRP2	ENSG00000262329	ENST00000572726	nonsense_mediated_decay	KNOWN	None	22948	267	88	55495078	55503312	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_I_CTG1	NLRP2	ENSG00000262329	ENST00000576111	nonsense_mediated_decay	KNOWN	None	22948	28	8	55495164	55499078	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_I_CTG1	NLRP2	ENSG00000262329	ENST00000587699	processed_transcript	KNOWN	None	22948	None	None	55499498	55500421	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_I_CTG1	NLRP2	ENSG00000262329	ENST00000576481	retained_intron	KNOWN	None	22948	None	None	55502090	55510010	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_I_CTG1	None	ENSG00000262416	ENST00000575807	processed_pseudogene	KNOWN	None	None	None	None	55482689	55483289	1	None	None
HSCHR19LRC_LRC_I_CTG1	None	ENSG00000267622	ENST00000589766	antisense	KNOWN	None	None	None	None	55515065	55556958	1	None	None
HSCHR19LRC_LRC_I_CTG1	None	ENSG00000267622	ENST00000586436	antisense	KNOWN	None	None	None	None	55515077	55552123	1	None	None
HSCHR19LRC_LRC_I_CTG1	None	ENSG00000267622	ENST00000589008	antisense	KNOWN	None	None	None	None	55536494	55553189	1	None	None
HSCHR19LRC_LRC_I_CTG1	GP6	ENSG00000261961	ENST00000572481	protein_coding	KNOWN	None	14388	1020	339	55522577	55547136	-1	None	GPVI
HSCHR19LRC_LRC_I_CTG1	GP6	ENSG00000261961	ENST00000573560	protein_coding	KNOWN	None	14388	1863	620	55522577	55547136	-1	None	GPVI
HSCHR19LRC_LRC_I_CTG1	GP6	ENSG00000261961	ENST00000571588	protein_coding	KNOWN	None	14388	966	321	55522577	55547136	-1	None	GPVI
HSCHR19LRC_LRC_I_CTG1	GP6	ENSG00000261961	ENST00000576026	retained_intron	KNOWN	None	14388	None	None	55523398	55527691	-1	None	GPVI
HSCHR19LRC_LRC_I_CTG1	GP6	ENSG00000261961	ENST00000577014	protein_coding	PUTATIVE	None	14388	352	116	55536477	55541737	-1	None	GPVI
HSCHR19LRC_LRC_I_CTG1	None	ENSG00000267739	ENST00000589692	processed_transcript	KNOWN	None	None	None	None	55536465	55562800	-1	None	None
HSCHR19LRC_LRC_I_CTG1	None	ENSG00000267739	ENST00000589023	processed_transcript	KNOWN	None	None	None	None	55550911	55553821	-1	None	None
HSCHR19LRC_LRC_I_CTG1	RDH13	ENSG00000262348	ENST00000592608	processed_transcript	KNOWN	None	19978	None	None	55547980	55551979	-1	None	SDR7C3
HSCHR19LRC_LRC_I_CTG1	RDH13	ENSG00000262348	ENST00000590939	processed_transcript	KNOWN	None	19978	None	None	55547983	55550761	-1	None	SDR7C3
HSCHR19LRC_LRC_I_CTG1	RDH13	ENSG00000262348	ENST00000592868	nonsense_mediated_decay	KNOWN	None	19978	108	35	55547983	55571948	-1	None	SDR7C3
HSCHR19LRC_LRC_I_CTG1	RDH13	ENSG00000262348	ENST00000571734	protein_coding	KNOWN	None	19978	996	331	55553215	55572048	-1	None	SDR7C3
HSCHR19LRC_LRC_I_CTG1	RDH13	ENSG00000262348	ENST00000571389	nonsense_mediated_decay	KNOWN	None	19978	663	220	55553215	55572705	-1	None	SDR7C3
HSCHR19LRC_LRC_I_CTG1	RDH13	ENSG00000262348	ENST00000573612	protein_coding	KNOWN	None	19978	783	260	55553215	55578401	-1	None	SDR7C3
HSCHR19LRC_LRC_I_CTG1	RDH13	ENSG00000262348	ENST00000587706	nonsense_mediated_decay	KNOWN	None	19978	663	220	55553727	55571958	-1	None	SDR7C3
HSCHR19LRC_LRC_I_CTG1	RDH13	ENSG00000262348	ENST00000592602	nonsense_mediated_decay	KNOWN	None	19978	108	35	55556285	55572020	-1	None	SDR7C3
HSCHR19LRC_LRC_I_CTG1	RDH13	ENSG00000262348	ENST00000588862	processed_transcript	KNOWN	None	19978	None	None	55557529	55568046	-1	None	SDR7C3
HSCHR19LRC_LRC_I_CTG1	RDH13	ENSG00000262348	ENST00000592476	processed_transcript	KNOWN	None	19978	None	None	55559746	55571991	-1	None	SDR7C3
HSCHR19LRC_LRC_I_CTG1	RDH13	ENSG00000262348	ENST00000588391	protein_coding	KNOWN	None	19978	127	41	55565525	55578401	-1	None	SDR7C3
HSCHR19LRC_LRC_I_CTG1	RDH13	ENSG00000262348	ENST00000587053	protein_coding	KNOWN	None	19978	88	28	55568125	55578412	-1	None	SDR7C3
HSCHR19LRC_LRC_I_CTG1	RDH13	ENSG00000262348	ENST00000588914	processed_transcript	KNOWN	None	19978	None	None	55571913	55573240	-1	None	SDR7C3
HSCHR19LRC_LRC_I_CTG1	RDH13	ENSG00000262348	ENST00000587855	processed_transcript	KNOWN	None	19978	None	None	55572092	55578412	-1	None	SDR7C3
HSCHR19LRC_LRC_I_CTG1	RDH13	ENSG00000262348	ENST00000590736	processed_transcript	KNOWN	None	19978	None	None	55572143	55578392	-1	None	SDR7C3
HSCHR19LRC_LRC_I_CTG1	RDH13	ENSG00000262348	ENST00000590879	processed_transcript	KNOWN	None	19978	None	None	55572380	55578395	-1	None	SDR7C3
HSCHR19LRC_LRC_I_CTG1	RDH13	ENSG00000262348	ENST00000585762	processed_transcript	KNOWN	None	19978	None	None	55572624	55578363	-1	None	SDR7C3
HSCHR19LRC_LRC_I_CTG1	RDH13	ENSG00000262348	ENST00000592487	processed_transcript	KNOWN	None	19978	None	None	55572773	55578403	-1	None	SDR7C3
HSCHR19LRC_LRC_I_CTG1	RDH13	ENSG00000262348	ENST00000590820	processed_transcript	KNOWN	None	19978	None	None	55572820	55580163	-1	None	SDR7C3
HSCHR19LRC_LRC_I_CTG1	RDH13	ENSG00000262348	ENST00000593213	processed_transcript	KNOWN	None	19978	None	None	55572912	55578764	-1	None	SDR7C3
HSCHR19LRC_LRC_I_CTG1	RDH13	ENSG00000262348	ENST00000593010	processed_transcript	KNOWN	None	19978	None	None	55576067	55578374	-1	None	SDR7C3
HSCHR19LRC_LRC_I_CTG1	EPS8L1	ENSG00000262287	ENST00000589832	protein_coding	NOVEL	None	21295	1647	548	55580892	55596791	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_I_CTG1	EPS8L1	ENSG00000262287	ENST00000585648	processed_transcript	KNOWN	None	21295	None	None	55584725	55592857	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_I_CTG1	EPS8L1	ENSG00000262287	ENST00000589206	retained_intron	KNOWN	None	21295	None	None	55584760	55589248	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_I_CTG1	EPS8L1	ENSG00000262287	ENST00000576261	protein_coding	KNOWN	None	21295	2172	723	55584773	55596794	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_I_CTG1	EPS8L1	ENSG00000262287	ENST00000575138	protein_coding	NOVEL	None	21295	1980	659	55584775	55596720	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_I_CTG1	EPS8L1	ENSG00000262287	ENST00000587865	nonsense_mediated_decay	KNOWN	None	21295	1287	428	55585228	55594764	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_I_CTG1	EPS8L1	ENSG00000262287	ENST00000585779	retained_intron	KNOWN	None	21295	None	None	55588457	55589055	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_I_CTG1	EPS8L1	ENSG00000262287	ENST00000592799	protein_coding	NOVEL	None	21295	1230	409	55589264	55596561	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_I_CTG1	EPS8L1	ENSG00000262287	ENST00000571474	protein_coding	KNOWN	None	21295	1791	596	55589264	55596791	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_I_CTG1	EPS8L1	ENSG00000262287	ENST00000590073	retained_intron	KNOWN	None	21295	None	None	55589309	55590199	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_I_CTG1	EPS8L1	ENSG00000262287	ENST00000592073	retained_intron	KNOWN	None	21295	None	None	55589904	55590746	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_I_CTG1	EPS8L1	ENSG00000262287	ENST00000587496	retained_intron	KNOWN	None	21295	None	None	55590564	55592276	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_I_CTG1	EPS8L1	ENSG00000262287	ENST00000586665	retained_intron	KNOWN	None	21295	None	None	55590565	55592352	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_I_CTG1	EPS8L1	ENSG00000262287	ENST00000590109	retained_intron	KNOWN	None	21295	None	None	55590565	55596794	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_I_CTG1	EPS8L1	ENSG00000262287	ENST00000590904	retained_intron	KNOWN	None	21295	None	None	55590810	55596795	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_I_CTG1	EPS8L1	ENSG00000262287	ENST00000587164	processed_transcript	KNOWN	None	21295	None	None	55593337	55595307	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_I_CTG1	EPS8L1	ENSG00000262287	ENST00000588080	retained_intron	KNOWN	None	21295	None	None	55594567	55595064	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_I_CTG1	EPS8L1	ENSG00000262287	ENST00000590272	processed_transcript	KNOWN	None	21295	None	None	55595649	55596792	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_I_CTG1	EPS8L1	ENSG00000262287	ENST00000585637	retained_intron	KNOWN	None	21295	None	None	55595941	55596777	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_J_CTG1	VSTM1	ENSG00000271854	ENST00000606408	protein_coding	NOVEL	None	29455	381	126	54544079	54561677	-1	None	UNQ3033
HSCHR19LRC_LRC_J_CTG1	VSTM1	ENSG00000271854	ENST00000607694	protein_coding	KNOWN	None	29455	711	236	54544079	54567207	-1	None	UNQ3033
HSCHR19LRC_LRC_J_CTG1	VSTM1	ENSG00000271854	ENST00000606371	nonsense_mediated_decay	KNOWN	None	29455	525	174	54544083	54567207	-1	None	UNQ3033
HSCHR19LRC_LRC_J_CTG1	VSTM1	ENSG00000271854	ENST00000607053	protein_coding	KNOWN	None	29455	618	205	54544087	54567207	-1	None	UNQ3033
HSCHR19LRC_LRC_J_CTG1	VSTM1	ENSG00000271854	ENST00000605975	protein_coding	KNOWN	None	29455	447	148	54544204	54567042	-1	None	UNQ3033
HSCHR19LRC_LRC_J_CTG1	VSTM1	ENSG00000271854	ENST00000606223	protein_coding	KNOWN	None	29455	432	143	54544204	54567042	-1	None	UNQ3033
HSCHR19LRC_LRC_J_CTG1	TARM1	ENSG00000272280	ENST00000607200	protein_coding	PUTATIVE	None	37250	840	279	54573149	54579813	-1	None	None
HSCHR19LRC_LRC_J_CTG1	TARM1	ENSG00000272280	ENST00000607189	protein_coding	KNOWN	None	37250	816	271	54573201	54584634	-1	None	None
HSCHR19LRC_LRC_J_CTG1	OSCAR	ENSG00000271988	ENST00000607463	protein_coding	PUTATIVE	None	29960	816	271	54597933	54604083	-1	None	None
HSCHR19LRC_LRC_J_CTG1	OSCAR	ENSG00000271988	ENST00000607436	protein_coding	KNOWN	None	29960	804	267	54597935	54604083	-1	None	None
HSCHR19LRC_LRC_J_CTG1	OSCAR	ENSG00000271988	ENST00000607747	protein_coding	PUTATIVE	None	29960	861	286	54597935	54604106	-1	None	None
HSCHR19LRC_LRC_J_CTG1	OSCAR	ENSG00000271988	ENST00000606295	protein_coding	KNOWN	None	29960	792	263	54597935	54604129	-1	None	None
HSCHR19LRC_LRC_J_CTG1	OSCAR	ENSG00000271988	ENST00000605898	protein_coding	KNOWN	None	29960	759	252	54597935	54604148	-1	None	None
HSCHR19LRC_LRC_J_CTG1	OSCAR	ENSG00000271988	ENST00000606700	protein_coding	NOVEL	None	29960	849	282	54597935	54606000	-1	None	None
HSCHR19LRC_LRC_J_CTG1	OSCAR	ENSG00000271988	ENST00000606569	protein_coding	PUTATIVE	None	29960	486	161	54599039	54604132	-1	None	None
HSCHR19LRC_LRC_J_CTG1	NDUFA3	ENSG00000272326	ENST00000606331	nonsense_mediated_decay	KNOWN	None	7686	198	65	54606036	54610268	1	None	B9
HSCHR19LRC_LRC_J_CTG1	NDUFA3	ENSG00000272326	ENST00000605995	nonsense_mediated_decay	KNOWN	None	7686	255	84	54606129	54612011	1	None	B9
HSCHR19LRC_LRC_J_CTG1	NDUFA3	ENSG00000272326	ENST00000607040	protein_coding	KNOWN	None	7686	255	84	54606145	54610875	1	None	B9
HSCHR19LRC_LRC_J_CTG1	NDUFA3	ENSG00000272326	ENST00000607179	protein_coding	PUTATIVE	None	7686	219	72	54606160	54610268	1	None	B9
HSCHR19LRC_LRC_J_CTG1	NDUFA3	ENSG00000272326	ENST00000607356	protein_coding	PUTATIVE	None	7686	222	73	54606163	54609777	1	None	B9
HSCHR19LRC_LRC_J_CTG1	NDUFA3	ENSG00000272326	ENST00000607756	nonsense_mediated_decay	KNOWN	None	7686	198	65	54606163	54610268	1	None	B9
HSCHR19LRC_LRC_J_CTG1	NDUFA3	ENSG00000272326	ENST00000607585	protein_coding	PUTATIVE	None	7686	186	61	54606177	54610272	1	None	B9
HSCHR19LRC_LRC_J_CTG1	NDUFA3	ENSG00000272326	ENST00000606488	protein_coding	PUTATIVE	None	7686	246	81	54606177	54611840	1	None	B9
HSCHR19LRC_LRC_J_CTG1	NDUFA3	ENSG00000272326	ENST00000607196	retained_intron	KNOWN	None	7686	None	None	54606185	54610268	1	None	B9
HSCHR19LRC_LRC_J_CTG1	NDUFA3	ENSG00000272326	ENST00000607763	protein_coding	PUTATIVE	None	7686	126	41	54606193	54610268	1	None	B9
HSCHR19LRC_LRC_J_CTG1	NDUFA3	ENSG00000272326	ENST00000607554	nonsense_mediated_decay	KNOWN	None	7686	209	68	54606422	54612033	1	None	B9
HSCHR19LRC_LRC_J_CTG1	NDUFA3	ENSG00000272326	ENST00000606890	protein_coding	PUTATIVE	None	7686	103	33	54609272	54610268	1	None	B9
HSCHR19LRC_LRC_J_CTG1	NDUFA3	ENSG00000272326	ENST00000606581	processed_transcript	KNOWN	None	7686	None	None	54611854	54612236	1	None	B9
HSCHR19LRC_LRC_J_CTG1	NDUFA3	ENSG00000272326	ENST00000606129	processed_transcript	KNOWN	None	7686	None	None	54612011	54612564	1	None	B9
HSCHR19LRC_LRC_J_CTG1	TFPT	ENSG00000271884	ENST00000606108	protein_coding	KNOWN	None	13630	762	253	54610320	54619055	-1	None	FB1, amida, INO80F
HSCHR19LRC_LRC_J_CTG1	TFPT	ENSG00000271884	ENST00000606228	protein_coding	PUTATIVE	None	13630	735	244	54610327	54618454	-1	None	FB1, amida, INO80F
HSCHR19LRC_LRC_J_CTG1	TFPT	ENSG00000271884	ENST00000607634	nonsense_mediated_decay	KNOWN	None	13630	318	105	54610327	54618665	-1	None	FB1, amida, INO80F
HSCHR19LRC_LRC_J_CTG1	TFPT	ENSG00000271884	ENST00000606863	protein_coding	PUTATIVE	None	13630	582	193	54610327	54618668	-1	None	FB1, amida, INO80F
HSCHR19LRC_LRC_J_CTG1	PRPF31	ENSG00000272200	ENST00000607183	protein_coding	KNOWN	None	15446	1500	499	54618837	54635140	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_LRC_J_CTG1	PRPF31	ENSG00000272200	ENST00000607171	protein_coding	KNOWN	None	15446	853	283	54619134	54628033	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_LRC_J_CTG1	PRPF31	ENSG00000272200	ENST00000606874	protein_coding	KNOWN	None	15446	1353	450	54619151	54635140	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_LRC_J_CTG1	PRPF31	ENSG00000272200	ENST00000606458	protein_coding	KNOWN	None	15446	829	275	54619159	54628009	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_LRC_J_CTG1	PRPF31	ENSG00000272200	ENST00000606085	protein_coding	KNOWN	None	15446	782	259	54619189	54627962	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_LRC_J_CTG1	PRPF31	ENSG00000272200	ENST00000606257	protein_coding	NOVEL	None	15446	1482	493	54621651	54635140	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_LRC_J_CTG1	PRPF31	ENSG00000272200	ENST00000606480	retained_intron	KNOWN	None	15446	None	None	54621786	54622191	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_LRC_J_CTG1	PRPF31	ENSG00000272200	ENST00000607827	retained_intron	KNOWN	None	15446	None	None	54621789	54635140	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_LRC_J_CTG1	PRPF31	ENSG00000272200	ENST00000607151	processed_transcript	KNOWN	None	15446	None	None	54621993	54631572	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_LRC_J_CTG1	None	ENSG00000271823	ENST00000607816	antisense	KNOWN	None	None	None	None	54622891	54628722	-1	None	None
HSCHR19LRC_LRC_J_CTG1	CNOT3	ENSG00000271925	ENST00000607553	protein_coding	KNOWN	None	7879	2262	753	54641444	54659419	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_LRC_J_CTG1	CNOT3	ENSG00000271925	ENST00000607340	protein_coding	KNOWN	None	7879	1716	571	54641449	54657242	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_LRC_J_CTG1	CNOT3	ENSG00000271925	ENST00000606193	retained_intron	KNOWN	None	7879	None	None	54641503	54659418	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_LRC_J_CTG1	CNOT3	ENSG00000271925	ENST00000607722	protein_coding	KNOWN	None	7879	2262	753	54645112	54659418	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_LRC_J_CTG1	CNOT3	ENSG00000271925	ENST00000606122	protein_coding	NOVEL	None	7879	1125	374	54647466	54652432	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_LRC_J_CTG1	CNOT3	ENSG00000271925	ENST00000606634	nonsense_mediated_decay	KNOWN	None	7879	319	105	54647473	54659419	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_LRC_J_CTG1	CNOT3	ENSG00000271925	ENST00000607578	protein_coding	PUTATIVE	None	7879	865	287	54653295	54658192	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_LRC_J_CTG1	CNOT3	ENSG00000271925	ENST00000606912	processed_transcript	KNOWN	None	7879	None	None	54653465	54657556	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_LRC_J_CTG1	CNOT3	ENSG00000271925	ENST00000607186	retained_intron	KNOWN	None	7879	None	None	54656740	54659419	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_LRC_J_CTG1	CNOT3	ENSG00000271925	ENST00000607867	protein_coding	NOVEL	None	7879	267	88	54657461	54659419	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_LRC_J_CTG1	LENG1	ENSG00000272007	ENST00000606392	protein_coding	KNOWN	None	15502	795	264	54658899	54663620	-1	None	None
HSCHR19LRC_LRC_J_CTG1	TMC4	ENSG00000271979	ENST00000607396	retained_intron	KNOWN	None	22998	None	None	54663846	54664386	-1	None	None
HSCHR19LRC_LRC_J_CTG1	TMC4	ENSG00000271979	ENST00000607206	nonsense_mediated_decay	KNOWN	None	22998	168	55	54663846	54664709	-1	None	None
HSCHR19LRC_LRC_J_CTG1	TMC4	ENSG00000271979	ENST00000606680	retained_intron	KNOWN	None	22998	None	None	54663846	54668450	-1	None	None
HSCHR19LRC_LRC_J_CTG1	TMC4	ENSG00000271979	ENST00000607569	protein_coding	KNOWN	None	22998	2121	706	54663846	54676865	-1	None	None
HSCHR19LRC_LRC_J_CTG1	TMC4	ENSG00000271979	ENST00000605940	protein_coding	KNOWN	None	22998	885	294	54663847	54667425	-1	None	None
HSCHR19LRC_LRC_J_CTG1	TMC4	ENSG00000271979	ENST00000606255	protein_coding	NOVEL	None	22998	2139	712	54663902	54676944	-1	None	None
HSCHR19LRC_LRC_J_CTG1	TMC4	ENSG00000271979	ENST00000607734	retained_intron	KNOWN	None	22998	None	None	54665074	54667213	-1	None	None
HSCHR19LRC_LRC_J_CTG1	TMC4	ENSG00000271979	ENST00000606658	retained_intron	KNOWN	None	22998	None	None	54665962	54667000	-1	None	None
HSCHR19LRC_LRC_J_CTG1	TMC4	ENSG00000271979	ENST00000607253	processed_transcript	KNOWN	None	22998	None	None	54666841	54676854	-1	None	None
HSCHR19LRC_LRC_J_CTG1	TMC4	ENSG00000271979	ENST00000607078	processed_transcript	KNOWN	None	22998	None	None	54668273	54675718	-1	None	None
HSCHR19LRC_LRC_J_CTG1	TMC4	ENSG00000271979	ENST00000607741	retained_intron	KNOWN	None	22998	None	None	54668286	54672208	-1	None	None
HSCHR19LRC_LRC_J_CTG1	TMC4	ENSG00000271979	ENST00000606072	protein_coding	NOVEL	None	22998	527	174	54671897	54676447	-1	None	None
HSCHR19LRC_LRC_J_CTG1	MBOAT7	ENSG00000271744	ENST00000607123	protein_coding	KNOWN	None	15505	1200	399	54677107	54693733	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_J_CTG1	MBOAT7	ENSG00000271744	ENST00000607306	nonsense_mediated_decay	KNOWN	None	15505	213	70	54677109	54693294	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_J_CTG1	MBOAT7	ENSG00000271744	ENST00000607767	protein_coding	PUTATIVE	None	15505	1200	399	54677109	54693419	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_J_CTG1	MBOAT7	ENSG00000271744	ENST00000606614	protein_coding	KNOWN	None	15505	1419	472	54677109	54693666	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_J_CTG1	MBOAT7	ENSG00000271744	ENST00000606311	retained_intron	KNOWN	None	15505	None	None	54677113	54684507	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_J_CTG1	MBOAT7	ENSG00000271744	ENST00000606340	protein_coding	PUTATIVE	None	15505	372	123	54677768	54692132	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_J_CTG1	MBOAT7	ENSG00000271744	ENST00000606734	protein_coding	PUTATIVE	None	15505	1035	344	54682054	54693523	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_J_CTG1	MBOAT7	ENSG00000271744	ENST00000606300	protein_coding	PUTATIVE	None	15505	545	180	54683380	54687517	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_J_CTG1	MBOAT7	ENSG00000271744	ENST00000606053	protein_coding	PUTATIVE	None	15505	768	255	54684576	54693146	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_J_CTG1	MBOAT7	ENSG00000271744	ENST00000606009	protein_coding	KNOWN	None	15505	511	169	54684833	54693195	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_J_CTG1	MBOAT7	ENSG00000271744	ENST00000607610	retained_intron	KNOWN	None	15505	None	None	54684841	54692266	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_J_CTG1	MBOAT7	ENSG00000271744	ENST00000606705	processed_transcript	KNOWN	None	15505	None	None	54687404	54693400	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_J_CTG1	MBOAT7	ENSG00000271744	ENST00000607395	retained_intron	KNOWN	None	15505	None	None	54690838	54693211	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_J_CTG1	MBOAT7	ENSG00000271744	ENST00000607118	processed_transcript	KNOWN	None	15505	None	None	54691168	54693420	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_J_CTG1	TSEN34	ENSG00000271838	ENST00000606087	protein_coding	KNOWN	None	15506	727	241	54693789	54696206	1	LENG5	SEN34, SEN34L
HSCHR19LRC_LRC_J_CTG1	TSEN34	ENSG00000271838	ENST00000605906	protein_coding	PUTATIVE	None	15506	754	250	54694119	54696224	1	LENG5	SEN34, SEN34L
HSCHR19LRC_LRC_J_CTG1	TSEN34	ENSG00000271838	ENST00000607582	protein_coding	KNOWN	None	15506	933	310	54694119	54697521	1	LENG5	SEN34, SEN34L
HSCHR19LRC_LRC_J_CTG1	TSEN34	ENSG00000271838	ENST00000606503	protein_coding	KNOWN	None	15506	939	312	54694138	54697585	1	LENG5	SEN34, SEN34L
HSCHR19LRC_LRC_J_CTG1	TSEN34	ENSG00000271838	ENST00000607439	retained_intron	KNOWN	None	15506	None	None	54694194	54697521	1	LENG5	SEN34, SEN34L
HSCHR19LRC_LRC_J_CTG1	TSEN34	ENSG00000271838	ENST00000606368	protein_coding	KNOWN	None	15506	933	310	54694582	54697521	1	LENG5	SEN34, SEN34L
HSCHR19LRC_LRC_J_CTG1	TSEN34	ENSG00000271838	ENST00000606063	protein_coding	KNOWN	None	15506	933	310	54695104	54697521	1	LENG5	SEN34, SEN34L
HSCHR19LRC_LRC_J_CTG1	None	ENSG00000272227	ENST00000606551	lincRNA	KNOWN	None	None	None	None	54697731	54698394	1	None	None
HSCHR19LRC_LRC_J_CTG1	None	ENSG00000271902	ENST00000607489	antisense	KNOWN	None	None	None	None	54703321	54703838	-1	None	None
HSCHR19LRC_LRC_J_CTG1	None	ENSG00000272424	ENST00000606760	protein_coding	NOVEL	None	None	585	194	54704726	54711511	1	None	None
HSCHR19LRC_LRC_J_CTG1	None	ENSG00000272178	ENST00000607101	unprocessed_pseudogene	KNOWN	None	None	None	None	54712960	54713286	-1	None	None
HSCHR19LRC_LRC_J_CTG1	KIR3DL3	ENSG00000262439	ENST00000570434	protein_coding	KNOWN	None	16312	1233	410	55342150	55354167	1	None	KIRC1, KIR3DL7, KIR44, CD158z
HSCHR19LRC_LRC_J_CTG1	NCR1	ENSG00000262923	ENST00000572896	protein_coding	KNOWN	None	6731	915	304	55442549	55449482	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_LRC_J_CTG1	NCR1	ENSG00000262923	ENST00000572535	protein_coding	KNOWN	None	6731	912	303	55442549	55449480	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_LRC_J_CTG1	NCR1	ENSG00000262923	ENST00000599606	retained_intron	KNOWN	None	6731	None	None	55442554	55443177	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_LRC_J_CTG1	NCR1	ENSG00000262923	ENST00000595030	retained_intron	KNOWN	None	6731	None	None	55442554	55445747	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_LRC_J_CTG1	NCR1	ENSG00000262923	ENST00000600115	protein_coding	NOVEL	None	6731	876	291	55442555	55449368	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_LRC_J_CTG1	NCR1	ENSG00000262923	ENST00000595175	protein_coding	KNOWN	None	6731	912	303	55442562	55452549	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_LRC_J_CTG1	NCR1	ENSG00000262923	ENST00000572000	protein_coding	KNOWN	None	6731	630	209	55442580	55449382	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_LRC_J_CTG1	NCR1	ENSG00000262923	ENST00000571110	protein_coding	KNOWN	None	6731	864	287	55442580	55449382	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_LRC_J_CTG1	NCR1	ENSG00000262923	ENST00000571016	protein_coding	NOVEL	None	6731	594	197	55442587	55449280	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_LRC_J_CTG1	NLRP7	ENSG00000263168	ENST00000571114	protein_coding	KNOWN	None	22947	3030	1009	55459918	55483914	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_LRC_J_CTG1	NLRP7	ENSG00000263168	ENST00000570389	protein_coding	KNOWN	None	22947	2943	980	55459918	55483914	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_LRC_J_CTG1	NLRP7	ENSG00000263168	ENST00000575121	protein_coding	KNOWN	None	22947	3030	1009	55459919	55478159	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_LRC_J_CTG1	NLRP7	ENSG00000263168	ENST00000586781	protein_coding	KNOWN	None	22947	2943	980	55459924	55478161	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_LRC_J_CTG1	NLRP7	ENSG00000263168	ENST00000592036	protein_coding	KNOWN	None	22947	3114	1037	55459924	55502652	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_LRC_J_CTG1	NLRP7	ENSG00000263168	ENST00000576376	protein_coding	KNOWN	None	22947	3198	1065	55459924	55502652	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_LRC_J_CTG1	NLRP7	ENSG00000263168	ENST00000586734	nonsense_mediated_decay	KNOWN	None	22947	2892	963	55460061	55483906	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_LRC_J_CTG1	NLRP7	ENSG00000263168	ENST00000587685	protein_coding	KNOWN	None	22947	3114	1037	55460062	55483906	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_LRC_J_CTG1	NLRP7	ENSG00000263168	ENST00000587890	protein_coding	KNOWN	None	22947	290	95	55477402	55502662	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_LRC_J_CTG1	NLRP7	ENSG00000263168	ENST00000585634	protein_coding	KNOWN	None	22947	210	69	55477911	55502721	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_LRC_J_CTG1	NLRP7	ENSG00000263168	ENST00000586167	protein_coding	KNOWN	None	22947	161	52	55477960	55502652	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_LRC_J_CTG1	None	ENSG00000267050	ENST00000592336	antisense	KNOWN	None	None	None	None	55488043	55489002	1	None	None
HSCHR19LRC_LRC_J_CTG1	NLRP2	ENSG00000262175	ENST00000592384	protein_coding	KNOWN	None	22948	420	139	55489539	55518048	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_J_CTG1	NLRP2	ENSG00000262175	ENST00000586739	protein_coding	KNOWN	None	22948	373	123	55489577	55514208	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_J_CTG1	NLRP2	ENSG00000262175	ENST00000575660	protein_coding	KNOWN	None	22948	463	153	55501479	55518091	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_J_CTG1	NLRP2	ENSG00000262175	ENST00000572364	protein_coding	KNOWN	None	22948	3189	1062	55501661	55537551	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_J_CTG1	NLRP2	ENSG00000262175	ENST00000573200	retained_intron	KNOWN	None	22948	None	None	55501694	55537551	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_J_CTG1	NLRP2	ENSG00000262175	ENST00000573958	protein_coding	KNOWN	None	22948	3117	1038	55501738	55537544	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_J_CTG1	NLRP2	ENSG00000262175	ENST00000573210	protein_coding	KNOWN	None	22948	3123	1040	55501745	55537547	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_J_CTG1	NLRP2	ENSG00000262175	ENST00000575060	nonsense_mediated_decay	KNOWN	None	22948	330	109	55501753	55518055	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_J_CTG1	NLRP2	ENSG00000262175	ENST00000577030	protein_coding	KNOWN	None	22948	3189	1062	55502752	55537549	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_J_CTG1	NLRP2	ENSG00000262175	ENST00000576464	protein_coding	KNOWN	None	22948	3123	1040	55502752	55537549	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_J_CTG1	NLRP2	ENSG00000262175	ENST00000585481	protein_coding	KNOWN	None	22948	406	134	55502783	55518720	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_J_CTG1	NLRP2	ENSG00000262175	ENST00000575438	protein_coding	KNOWN	None	22948	3120	1039	55502783	55537487	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_J_CTG1	NLRP2	ENSG00000262175	ENST00000571463	protein_coding	KNOWN	None	22948	3117	1038	55502808	55537542	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_J_CTG1	NLRP2	ENSG00000262175	ENST00000576434	protein_coding	NOVEL	None	22948	3180	1059	55502815	55537544	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_J_CTG1	NLRP2	ENSG00000262175	ENST00000573736	protein_coding	NOVEL	None	22948	495	164	55510403	55518806	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_J_CTG1	NLRP2	ENSG00000262175	ENST00000575921	protein_coding	PUTATIVE	None	22948	592	196	55519895	55522810	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_J_CTG1	NLRP2	ENSG00000262175	ENST00000573409	nonsense_mediated_decay	KNOWN	None	22948	267	88	55522615	55530849	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_J_CTG1	NLRP2	ENSG00000262175	ENST00000571349	nonsense_mediated_decay	KNOWN	None	22948	28	8	55522701	55526615	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_J_CTG1	NLRP2	ENSG00000262175	ENST00000587967	processed_transcript	KNOWN	None	22948	None	None	55527035	55527958	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_J_CTG1	NLRP2	ENSG00000262175	ENST00000570826	retained_intron	KNOWN	None	22948	None	None	55529627	55537547	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_J_CTG1	None	ENSG00000262436	ENST00000572743	processed_pseudogene	KNOWN	None	None	None	None	55510226	55510826	1	None	None
HSCHR19LRC_LRC_J_CTG1	None	ENSG00000267514	ENST00000592715	antisense	KNOWN	None	None	None	None	55542602	55584495	1	None	None
HSCHR19LRC_LRC_J_CTG1	None	ENSG00000267514	ENST00000591930	antisense	KNOWN	None	None	None	None	55542614	55579660	1	None	None
HSCHR19LRC_LRC_J_CTG1	None	ENSG00000267514	ENST00000587234	antisense	KNOWN	None	None	None	None	55564031	55580726	1	None	None
HSCHR19LRC_LRC_J_CTG1	GP6	ENSG00000262867	ENST00000572462	protein_coding	KNOWN	None	14388	1020	339	55550114	55574673	-1	None	GPVI
HSCHR19LRC_LRC_J_CTG1	GP6	ENSG00000262867	ENST00000576196	protein_coding	KNOWN	None	14388	1863	620	55550114	55574673	-1	None	GPVI
HSCHR19LRC_LRC_J_CTG1	GP6	ENSG00000262867	ENST00000575740	protein_coding	KNOWN	None	14388	966	321	55550114	55574673	-1	None	GPVI
HSCHR19LRC_LRC_J_CTG1	GP6	ENSG00000262867	ENST00000570775	retained_intron	KNOWN	None	14388	None	None	55550935	55555228	-1	None	GPVI
HSCHR19LRC_LRC_J_CTG1	GP6	ENSG00000262867	ENST00000575021	protein_coding	PUTATIVE	None	14388	352	116	55564014	55569274	-1	None	GPVI
HSCHR19LRC_LRC_J_CTG1	None	ENSG00000267608	ENST00000587951	processed_transcript	KNOWN	None	None	None	None	55564002	55590337	-1	None	None
HSCHR19LRC_LRC_J_CTG1	None	ENSG00000267608	ENST00000586903	processed_transcript	KNOWN	None	None	None	None	55578448	55581358	-1	None	None
HSCHR19LRC_LRC_J_CTG1	RDH13	ENSG00000262110	ENST00000589806	processed_transcript	KNOWN	None	19978	None	None	55575517	55579516	-1	None	SDR7C3
HSCHR19LRC_LRC_J_CTG1	RDH13	ENSG00000262110	ENST00000586069	processed_transcript	KNOWN	None	19978	None	None	55575520	55578298	-1	None	SDR7C3
HSCHR19LRC_LRC_J_CTG1	RDH13	ENSG00000262110	ENST00000589366	nonsense_mediated_decay	KNOWN	None	19978	108	35	55575520	55599485	-1	None	SDR7C3
HSCHR19LRC_LRC_J_CTG1	RDH13	ENSG00000262110	ENST00000571931	protein_coding	KNOWN	None	19978	996	331	55580752	55599585	-1	None	SDR7C3
HSCHR19LRC_LRC_J_CTG1	RDH13	ENSG00000262110	ENST00000574237	nonsense_mediated_decay	KNOWN	None	19978	663	220	55580752	55600242	-1	None	SDR7C3
HSCHR19LRC_LRC_J_CTG1	RDH13	ENSG00000262110	ENST00000571859	protein_coding	KNOWN	None	19978	783	260	55580752	55605938	-1	None	SDR7C3
HSCHR19LRC_LRC_J_CTG1	RDH13	ENSG00000262110	ENST00000592150	nonsense_mediated_decay	KNOWN	None	19978	663	220	55581264	55599495	-1	None	SDR7C3
HSCHR19LRC_LRC_J_CTG1	RDH13	ENSG00000262110	ENST00000590401	nonsense_mediated_decay	KNOWN	None	19978	108	35	55583822	55599557	-1	None	SDR7C3
HSCHR19LRC_LRC_J_CTG1	RDH13	ENSG00000262110	ENST00000592925	processed_transcript	KNOWN	None	19978	None	None	55585066	55595583	-1	None	SDR7C3
HSCHR19LRC_LRC_J_CTG1	RDH13	ENSG00000262110	ENST00000588152	processed_transcript	KNOWN	None	19978	None	None	55587283	55599528	-1	None	SDR7C3
HSCHR19LRC_LRC_J_CTG1	RDH13	ENSG00000262110	ENST00000592834	protein_coding	KNOWN	None	19978	127	41	55593062	55605938	-1	None	SDR7C3
HSCHR19LRC_LRC_J_CTG1	RDH13	ENSG00000262110	ENST00000587546	protein_coding	KNOWN	None	19978	88	28	55595662	55605949	-1	None	SDR7C3
HSCHR19LRC_LRC_J_CTG1	RDH13	ENSG00000262110	ENST00000588249	processed_transcript	KNOWN	None	19978	None	None	55599450	55600777	-1	None	SDR7C3
HSCHR19LRC_LRC_J_CTG1	RDH13	ENSG00000262110	ENST00000593190	processed_transcript	KNOWN	None	19978	None	None	55599629	55605949	-1	None	SDR7C3
HSCHR19LRC_LRC_J_CTG1	RDH13	ENSG00000262110	ENST00000590145	processed_transcript	KNOWN	None	19978	None	None	55599680	55605929	-1	None	SDR7C3
HSCHR19LRC_LRC_J_CTG1	RDH13	ENSG00000262110	ENST00000590525	processed_transcript	KNOWN	None	19978	None	None	55599917	55605932	-1	None	SDR7C3
HSCHR19LRC_LRC_J_CTG1	RDH13	ENSG00000262110	ENST00000587383	processed_transcript	KNOWN	None	19978	None	None	55600161	55605900	-1	None	SDR7C3
HSCHR19LRC_LRC_J_CTG1	RDH13	ENSG00000262110	ENST00000585617	processed_transcript	KNOWN	None	19978	None	None	55600310	55605940	-1	None	SDR7C3
HSCHR19LRC_LRC_J_CTG1	RDH13	ENSG00000262110	ENST00000585483	processed_transcript	KNOWN	None	19978	None	None	55600357	55607700	-1	None	SDR7C3
HSCHR19LRC_LRC_J_CTG1	RDH13	ENSG00000262110	ENST00000592000	processed_transcript	KNOWN	None	19978	None	None	55600449	55606301	-1	None	SDR7C3
HSCHR19LRC_LRC_J_CTG1	RDH13	ENSG00000262110	ENST00000590543	processed_transcript	KNOWN	None	19978	None	None	55603604	55605911	-1	None	SDR7C3
HSCHR19LRC_LRC_J_CTG1	EPS8L1	ENSG00000262835	ENST00000592856	protein_coding	NOVEL	None	21295	1647	548	55608429	55624328	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_J_CTG1	EPS8L1	ENSG00000262835	ENST00000588473	processed_transcript	KNOWN	None	21295	None	None	55612262	55620394	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_J_CTG1	EPS8L1	ENSG00000262835	ENST00000586254	retained_intron	KNOWN	None	21295	None	None	55612297	55616785	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_J_CTG1	EPS8L1	ENSG00000262835	ENST00000577025	protein_coding	KNOWN	None	21295	2172	723	55612310	55624331	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_J_CTG1	EPS8L1	ENSG00000262835	ENST00000575720	protein_coding	NOVEL	None	21295	1980	659	55612312	55624257	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_J_CTG1	EPS8L1	ENSG00000262835	ENST00000591751	nonsense_mediated_decay	KNOWN	None	21295	1287	428	55612765	55622301	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_J_CTG1	EPS8L1	ENSG00000262835	ENST00000588675	retained_intron	KNOWN	None	21295	None	None	55615994	55616592	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_J_CTG1	EPS8L1	ENSG00000262835	ENST00000590182	protein_coding	NOVEL	None	21295	1230	409	55616801	55624098	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_J_CTG1	EPS8L1	ENSG00000262835	ENST00000576005	protein_coding	KNOWN	None	21295	1791	596	55616801	55624328	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_J_CTG1	EPS8L1	ENSG00000262835	ENST00000588581	retained_intron	KNOWN	None	21295	None	None	55616846	55617736	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_J_CTG1	EPS8L1	ENSG00000262835	ENST00000590453	retained_intron	KNOWN	None	21295	None	None	55617441	55618283	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_J_CTG1	EPS8L1	ENSG00000262835	ENST00000591640	retained_intron	KNOWN	None	21295	None	None	55618101	55619813	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_J_CTG1	EPS8L1	ENSG00000262835	ENST00000592046	retained_intron	KNOWN	None	21295	None	None	55618102	55619889	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_J_CTG1	EPS8L1	ENSG00000262835	ENST00000592736	retained_intron	KNOWN	None	21295	None	None	55618102	55624331	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_J_CTG1	EPS8L1	ENSG00000262835	ENST00000585723	retained_intron	KNOWN	None	21295	None	None	55618347	55624332	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_J_CTG1	EPS8L1	ENSG00000262835	ENST00000587020	processed_transcript	KNOWN	None	21295	None	None	55620874	55622844	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_J_CTG1	EPS8L1	ENSG00000262835	ENST00000588825	retained_intron	KNOWN	None	21295	None	None	55622104	55622601	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_J_CTG1	EPS8L1	ENSG00000262835	ENST00000588309	processed_transcript	KNOWN	None	21295	None	None	55623186	55624329	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_J_CTG1	EPS8L1	ENSG00000262835	ENST00000591672	retained_intron	KNOWN	None	21295	None	None	55623478	55624314	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_S_CTG1	VSTM1	ENSG00000272300	ENST00000606356	protein_coding	NOVEL	None	29455	381	126	54544079	54561677	-1	None	UNQ3033
HSCHR19LRC_LRC_S_CTG1	VSTM1	ENSG00000272300	ENST00000606093	protein_coding	KNOWN	None	29455	711	236	54544079	54567207	-1	None	UNQ3033
HSCHR19LRC_LRC_S_CTG1	VSTM1	ENSG00000272300	ENST00000606811	nonsense_mediated_decay	KNOWN	None	29455	525	174	54544083	54567207	-1	None	UNQ3033
HSCHR19LRC_LRC_S_CTG1	VSTM1	ENSG00000272300	ENST00000607418	protein_coding	KNOWN	None	29455	618	205	54544087	54567207	-1	None	UNQ3033
HSCHR19LRC_LRC_S_CTG1	VSTM1	ENSG00000272300	ENST00000607060	protein_coding	KNOWN	None	29455	447	148	54544204	54567042	-1	None	UNQ3033
HSCHR19LRC_LRC_S_CTG1	VSTM1	ENSG00000272300	ENST00000607274	protein_coding	KNOWN	None	29455	432	143	54544204	54567042	-1	None	UNQ3033
HSCHR19LRC_LRC_S_CTG1	TARM1	ENSG00000271832	ENST00000607770	protein_coding	PUTATIVE	None	37250	840	279	54573149	54579813	-1	None	None
HSCHR19LRC_LRC_S_CTG1	TARM1	ENSG00000271832	ENST00000606859	protein_coding	KNOWN	None	37250	816	271	54573201	54584634	-1	None	None
HSCHR19LRC_LRC_S_CTG1	OSCAR	ENSG00000272399	ENST00000606904	protein_coding	PUTATIVE	None	29960	816	271	54597933	54604083	-1	None	None
HSCHR19LRC_LRC_S_CTG1	OSCAR	ENSG00000272399	ENST00000606703	protein_coding	KNOWN	None	29960	804	267	54597935	54604083	-1	None	None
HSCHR19LRC_LRC_S_CTG1	OSCAR	ENSG00000272399	ENST00000606473	protein_coding	PUTATIVE	None	29960	861	286	54597935	54604106	-1	None	None
HSCHR19LRC_LRC_S_CTG1	OSCAR	ENSG00000272399	ENST00000607460	protein_coding	KNOWN	None	29960	792	263	54597935	54604129	-1	None	None
HSCHR19LRC_LRC_S_CTG1	OSCAR	ENSG00000272399	ENST00000607133	protein_coding	KNOWN	None	29960	759	252	54597935	54604148	-1	None	None
HSCHR19LRC_LRC_S_CTG1	OSCAR	ENSG00000272399	ENST00000607038	protein_coding	NOVEL	None	29960	849	282	54597935	54606000	-1	None	None
HSCHR19LRC_LRC_S_CTG1	OSCAR	ENSG00000272399	ENST00000607247	protein_coding	PUTATIVE	None	29960	486	161	54599039	54604132	-1	None	None
HSCHR19LRC_LRC_S_CTG1	NDUFA3	ENSG00000272534	ENST00000606014	nonsense_mediated_decay	KNOWN	None	7686	198	65	54606036	54610268	1	None	B9
HSCHR19LRC_LRC_S_CTG1	NDUFA3	ENSG00000272534	ENST00000607704	nonsense_mediated_decay	KNOWN	None	7686	255	84	54606129	54612011	1	None	B9
HSCHR19LRC_LRC_S_CTG1	NDUFA3	ENSG00000272534	ENST00000606460	protein_coding	KNOWN	None	7686	255	84	54606145	54610875	1	None	B9
HSCHR19LRC_LRC_S_CTG1	NDUFA3	ENSG00000272534	ENST00000605976	protein_coding	PUTATIVE	None	7686	219	72	54606160	54610268	1	None	B9
HSCHR19LRC_LRC_S_CTG1	NDUFA3	ENSG00000272534	ENST00000607616	protein_coding	PUTATIVE	None	7686	222	73	54606163	54609777	1	None	B9
HSCHR19LRC_LRC_S_CTG1	NDUFA3	ENSG00000272534	ENST00000607228	nonsense_mediated_decay	KNOWN	None	7686	198	65	54606163	54610268	1	None	B9
HSCHR19LRC_LRC_S_CTG1	NDUFA3	ENSG00000272534	ENST00000607108	protein_coding	PUTATIVE	None	7686	186	61	54606177	54610272	1	None	B9
HSCHR19LRC_LRC_S_CTG1	NDUFA3	ENSG00000272534	ENST00000607384	protein_coding	PUTATIVE	None	7686	246	81	54606177	54611840	1	None	B9
HSCHR19LRC_LRC_S_CTG1	NDUFA3	ENSG00000272534	ENST00000607626	retained_intron	KNOWN	None	7686	None	None	54606185	54610268	1	None	B9
HSCHR19LRC_LRC_S_CTG1	NDUFA3	ENSG00000272534	ENST00000607779	protein_coding	PUTATIVE	None	7686	126	41	54606193	54610268	1	None	B9
HSCHR19LRC_LRC_S_CTG1	NDUFA3	ENSG00000272534	ENST00000607162	nonsense_mediated_decay	KNOWN	None	7686	209	68	54606422	54612033	1	None	B9
HSCHR19LRC_LRC_S_CTG1	NDUFA3	ENSG00000272534	ENST00000607776	protein_coding	PUTATIVE	None	7686	103	33	54609272	54610268	1	None	B9
HSCHR19LRC_LRC_S_CTG1	NDUFA3	ENSG00000272534	ENST00000606945	processed_transcript	KNOWN	None	7686	None	None	54611854	54612236	1	None	B9
HSCHR19LRC_LRC_S_CTG1	NDUFA3	ENSG00000272534	ENST00000606232	processed_transcript	KNOWN	None	7686	None	None	54612011	54612564	1	None	B9
HSCHR19LRC_LRC_S_CTG1	TFPT	ENSG00000272496	ENST00000606964	protein_coding	KNOWN	None	13630	762	253	54610320	54619055	-1	None	FB1, amida, INO80F
HSCHR19LRC_LRC_S_CTG1	TFPT	ENSG00000272496	ENST00000607771	protein_coding	PUTATIVE	None	13630	735	244	54610327	54618454	-1	None	FB1, amida, INO80F
HSCHR19LRC_LRC_S_CTG1	TFPT	ENSG00000272496	ENST00000606002	nonsense_mediated_decay	KNOWN	None	13630	318	105	54610327	54618665	-1	None	FB1, amida, INO80F
HSCHR19LRC_LRC_S_CTG1	TFPT	ENSG00000272496	ENST00000606058	protein_coding	PUTATIVE	None	13630	582	193	54610327	54618668	-1	None	FB1, amida, INO80F
HSCHR19LRC_LRC_S_CTG1	PRPF31	ENSG00000272193	ENST00000606176	protein_coding	KNOWN	None	15446	1500	499	54618837	54635140	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_LRC_S_CTG1	PRPF31	ENSG00000272193	ENST00000606549	protein_coding	KNOWN	None	15446	853	283	54619134	54628033	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_LRC_S_CTG1	PRPF31	ENSG00000272193	ENST00000606403	protein_coding	KNOWN	None	15446	1353	450	54619151	54635140	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_LRC_S_CTG1	PRPF31	ENSG00000272193	ENST00000606562	protein_coding	KNOWN	None	15446	829	275	54619159	54628009	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_LRC_S_CTG1	PRPF31	ENSG00000272193	ENST00000607842	protein_coding	KNOWN	None	15446	782	259	54619189	54627962	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_LRC_S_CTG1	PRPF31	ENSG00000272193	ENST00000606092	protein_coding	NOVEL	None	15446	1482	493	54621651	54635140	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_LRC_S_CTG1	PRPF31	ENSG00000272193	ENST00000606442	retained_intron	KNOWN	None	15446	None	None	54621786	54622191	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_LRC_S_CTG1	PRPF31	ENSG00000272193	ENST00000606316	retained_intron	KNOWN	None	15446	None	None	54621789	54635140	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_LRC_S_CTG1	PRPF31	ENSG00000272193	ENST00000607566	processed_transcript	KNOWN	None	15446	None	None	54621993	54631572	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_LRC_S_CTG1	None	ENSG00000272451	ENST00000605904	antisense	KNOWN	None	None	None	None	54622891	54628722	-1	None	None
HSCHR19LRC_LRC_S_CTG1	CNOT3	ENSG00000271773	ENST00000606182	protein_coding	KNOWN	None	7879	2262	753	54641444	54659419	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_LRC_S_CTG1	CNOT3	ENSG00000271773	ENST00000607128	protein_coding	KNOWN	None	7879	1716	571	54641449	54657242	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_LRC_S_CTG1	CNOT3	ENSG00000271773	ENST00000606870	retained_intron	KNOWN	None	7879	None	None	54641503	54659418	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_LRC_S_CTG1	CNOT3	ENSG00000271773	ENST00000607446	protein_coding	KNOWN	None	7879	2262	753	54645112	54659418	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_LRC_S_CTG1	CNOT3	ENSG00000271773	ENST00000606241	protein_coding	NOVEL	None	7879	1125	374	54647466	54652432	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_LRC_S_CTG1	CNOT3	ENSG00000271773	ENST00000605954	nonsense_mediated_decay	KNOWN	None	7879	319	105	54647473	54659419	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_LRC_S_CTG1	CNOT3	ENSG00000271773	ENST00000606357	protein_coding	PUTATIVE	None	7879	865	287	54653295	54658192	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_LRC_S_CTG1	CNOT3	ENSG00000271773	ENST00000607295	processed_transcript	KNOWN	None	7879	None	None	54653465	54657556	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_LRC_S_CTG1	CNOT3	ENSG00000271773	ENST00000607479	retained_intron	KNOWN	None	7879	None	None	54656740	54659419	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_LRC_S_CTG1	CNOT3	ENSG00000271773	ENST00000607646	protein_coding	NOVEL	None	7879	267	88	54657461	54659419	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_LRC_S_CTG1	LENG1	ENSG00000272039	ENST00000606765	protein_coding	KNOWN	None	15502	795	264	54658899	54663620	-1	None	None
HSCHR19LRC_LRC_S_CTG1	TMC4	ENSG00000271935	ENST00000606201	retained_intron	KNOWN	None	22998	None	None	54663846	54664386	-1	None	None
HSCHR19LRC_LRC_S_CTG1	TMC4	ENSG00000271935	ENST00000606891	nonsense_mediated_decay	KNOWN	None	22998	168	55	54663846	54664709	-1	None	None
HSCHR19LRC_LRC_S_CTG1	TMC4	ENSG00000271935	ENST00000607138	retained_intron	KNOWN	None	22998	None	None	54663846	54668450	-1	None	None
HSCHR19LRC_LRC_S_CTG1	TMC4	ENSG00000271935	ENST00000606155	protein_coding	KNOWN	None	22998	2121	706	54663846	54676865	-1	None	None
HSCHR19LRC_LRC_S_CTG1	TMC4	ENSG00000271935	ENST00000607311	protein_coding	KNOWN	None	22998	885	294	54663847	54667425	-1	None	None
HSCHR19LRC_LRC_S_CTG1	TMC4	ENSG00000271935	ENST00000607423	protein_coding	NOVEL	None	22998	2139	712	54663902	54676944	-1	None	None
HSCHR19LRC_LRC_S_CTG1	TMC4	ENSG00000271935	ENST00000606585	retained_intron	KNOWN	None	22998	None	None	54665074	54667213	-1	None	None
HSCHR19LRC_LRC_S_CTG1	TMC4	ENSG00000271935	ENST00000606770	retained_intron	KNOWN	None	22998	None	None	54665962	54667000	-1	None	None
HSCHR19LRC_LRC_S_CTG1	TMC4	ENSG00000271935	ENST00000606419	processed_transcript	KNOWN	None	22998	None	None	54666841	54676854	-1	None	None
HSCHR19LRC_LRC_S_CTG1	TMC4	ENSG00000271935	ENST00000606062	processed_transcript	KNOWN	None	22998	None	None	54668273	54675718	-1	None	None
HSCHR19LRC_LRC_S_CTG1	TMC4	ENSG00000271935	ENST00000605897	retained_intron	KNOWN	None	22998	None	None	54668286	54672208	-1	None	None
HSCHR19LRC_LRC_S_CTG1	TMC4	ENSG00000271935	ENST00000606611	protein_coding	NOVEL	None	22998	527	174	54671897	54676447	-1	None	None
HSCHR19LRC_LRC_S_CTG1	MBOAT7	ENSG00000272513	ENST00000607477	protein_coding	KNOWN	None	15505	1200	399	54677107	54693733	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_S_CTG1	MBOAT7	ENSG00000272513	ENST00000606798	nonsense_mediated_decay	KNOWN	None	15505	213	70	54677109	54693294	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_S_CTG1	MBOAT7	ENSG00000272513	ENST00000607143	protein_coding	PUTATIVE	None	15505	1200	399	54677109	54693419	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_S_CTG1	MBOAT7	ENSG00000272513	ENST00000607209	protein_coding	KNOWN	None	15505	1419	472	54677109	54693666	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_S_CTG1	MBOAT7	ENSG00000272513	ENST00000606953	retained_intron	KNOWN	None	15505	None	None	54677113	54684507	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_S_CTG1	MBOAT7	ENSG00000272513	ENST00000607865	protein_coding	PUTATIVE	None	15505	372	123	54677768	54692132	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_S_CTG1	MBOAT7	ENSG00000272513	ENST00000606678	protein_coding	PUTATIVE	None	15505	1035	344	54682054	54693523	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_S_CTG1	MBOAT7	ENSG00000272513	ENST00000606396	protein_coding	PUTATIVE	None	15505	545	180	54683380	54687517	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_S_CTG1	MBOAT7	ENSG00000272513	ENST00000606440	protein_coding	PUTATIVE	None	15505	768	255	54684576	54693146	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_S_CTG1	MBOAT7	ENSG00000272513	ENST00000606553	protein_coding	KNOWN	None	15505	511	169	54684833	54693195	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_S_CTG1	MBOAT7	ENSG00000272513	ENST00000607617	retained_intron	KNOWN	None	15505	None	None	54684841	54692266	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_S_CTG1	MBOAT7	ENSG00000272513	ENST00000606685	processed_transcript	KNOWN	None	15505	None	None	54687404	54693400	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_S_CTG1	MBOAT7	ENSG00000272513	ENST00000606276	retained_intron	KNOWN	None	15505	None	None	54690838	54693211	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_S_CTG1	MBOAT7	ENSG00000272513	ENST00000606138	processed_transcript	KNOWN	None	15505	None	None	54691168	54693420	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_S_CTG1	TSEN34	ENSG00000271802	ENST00000607472	protein_coding	KNOWN	None	15506	727	241	54693789	54696206	1	LENG5	SEN34, SEN34L
HSCHR19LRC_LRC_S_CTG1	TSEN34	ENSG00000271802	ENST00000606278	protein_coding	PUTATIVE	None	15506	754	250	54694119	54696224	1	LENG5	SEN34, SEN34L
HSCHR19LRC_LRC_S_CTG1	TSEN34	ENSG00000271802	ENST00000607130	protein_coding	KNOWN	None	15506	933	310	54694119	54697521	1	LENG5	SEN34, SEN34L
HSCHR19LRC_LRC_S_CTG1	TSEN34	ENSG00000271802	ENST00000607785	protein_coding	KNOWN	None	15506	939	312	54694138	54697585	1	LENG5	SEN34, SEN34L
HSCHR19LRC_LRC_S_CTG1	TSEN34	ENSG00000271802	ENST00000605956	retained_intron	KNOWN	None	15506	None	None	54694194	54697521	1	LENG5	SEN34, SEN34L
HSCHR19LRC_LRC_S_CTG1	TSEN34	ENSG00000271802	ENST00000607202	protein_coding	KNOWN	None	15506	933	310	54694582	54697521	1	LENG5	SEN34, SEN34L
HSCHR19LRC_LRC_S_CTG1	TSEN34	ENSG00000271802	ENST00000606373	protein_coding	KNOWN	None	15506	933	310	54695104	54697521	1	LENG5	SEN34, SEN34L
HSCHR19LRC_LRC_S_CTG1	None	ENSG00000271960	ENST00000606747	lincRNA	KNOWN	None	None	None	None	54697731	54698394	1	None	None
HSCHR19LRC_LRC_S_CTG1	None	ENSG00000272499	ENST00000605934	antisense	KNOWN	None	None	None	None	54703321	54703838	-1	None	None
HSCHR19LRC_LRC_S_CTG1	None	ENSG00000271864	ENST00000606684	protein_coding	NOVEL	None	None	585	194	54704726	54711511	1	None	None
HSCHR19LRC_LRC_S_CTG1	None	ENSG00000271920	ENST00000606804	unprocessed_pseudogene	KNOWN	None	None	None	None	54712960	54713286	-1	None	None
HSCHR19LRC_LRC_S_CTG1	KIR3DL2	ENSG00000262007	ENST00000576676	protein_coding	KNOWN	None	6339	1368	455	55361247	55378033	1	None	cl-5, nkat4, nkat4a, nkat4b, CD158K
HSCHR19LRC_LRC_S_CTG1	KIR3DL2	ENSG00000262007	ENST00000575378	protein_coding	NOVEL	None	6339	1317	438	55361280	55377786	1	None	cl-5, nkat4, nkat4a, nkat4b, CD158K
HSCHR19LRC_LRC_S_CTG1	NCR1	ENSG00000262661	ENST00000574036	protein_coding	KNOWN	None	6731	915	304	55417098	55424031	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_LRC_S_CTG1	NCR1	ENSG00000262661	ENST00000573217	protein_coding	KNOWN	None	6731	912	303	55417098	55424029	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_LRC_S_CTG1	NCR1	ENSG00000262661	ENST00000599718	retained_intron	KNOWN	None	6731	None	None	55417103	55417726	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_LRC_S_CTG1	NCR1	ENSG00000262661	ENST00000593776	retained_intron	KNOWN	None	6731	None	None	55417103	55420296	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_LRC_S_CTG1	NCR1	ENSG00000262661	ENST00000597178	protein_coding	NOVEL	None	6731	876	291	55417104	55423917	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_LRC_S_CTG1	NCR1	ENSG00000262661	ENST00000593509	protein_coding	KNOWN	None	6731	912	303	55417111	55427098	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_LRC_S_CTG1	NCR1	ENSG00000262661	ENST00000575539	protein_coding	KNOWN	None	6731	630	209	55417129	55423931	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_LRC_S_CTG1	NCR1	ENSG00000262661	ENST00000570787	protein_coding	KNOWN	None	6731	864	287	55417129	55423931	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_LRC_S_CTG1	NCR1	ENSG00000262661	ENST00000571521	protein_coding	NOVEL	None	6731	594	197	55417136	55423829	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_LRC_S_CTG1	NLRP7	ENSG00000262457	ENST00000572166	protein_coding	KNOWN	None	22947	3030	1009	55434467	55458463	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_LRC_S_CTG1	NLRP7	ENSG00000262457	ENST00000576609	protein_coding	KNOWN	None	22947	2943	980	55434467	55458463	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_LRC_S_CTG1	NLRP7	ENSG00000262457	ENST00000572307	protein_coding	KNOWN	None	22947	3030	1009	55434468	55452708	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_LRC_S_CTG1	NLRP7	ENSG00000262457	ENST00000590391	protein_coding	KNOWN	None	22947	2943	980	55434473	55452710	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_LRC_S_CTG1	NLRP7	ENSG00000262457	ENST00000591176	protein_coding	KNOWN	None	22947	3114	1037	55434473	55477201	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_LRC_S_CTG1	NLRP7	ENSG00000262457	ENST00000576140	protein_coding	KNOWN	None	22947	3198	1065	55434473	55477201	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_LRC_S_CTG1	NLRP7	ENSG00000262457	ENST00000591536	nonsense_mediated_decay	KNOWN	None	22947	2892	963	55434610	55458455	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_LRC_S_CTG1	NLRP7	ENSG00000262457	ENST00000586736	protein_coding	KNOWN	None	22947	3114	1037	55434611	55458455	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_LRC_S_CTG1	NLRP7	ENSG00000262457	ENST00000592879	protein_coding	KNOWN	None	22947	290	95	55451951	55477211	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_LRC_S_CTG1	NLRP7	ENSG00000262457	ENST00000589089	protein_coding	KNOWN	None	22947	210	69	55452460	55477270	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_LRC_S_CTG1	NLRP7	ENSG00000262457	ENST00000592866	protein_coding	KNOWN	None	22947	161	52	55452509	55477201	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_LRC_S_CTG1	None	ENSG00000267126	ENST00000587946	antisense	KNOWN	None	None	None	None	55462592	55463551	1	None	None
HSCHR19LRC_LRC_S_CTG1	NLRP2	ENSG00000262811	ENST00000587273	protein_coding	KNOWN	None	22948	420	139	55464088	55492597	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_S_CTG1	NLRP2	ENSG00000262811	ENST00000590768	protein_coding	KNOWN	None	22948	373	123	55464126	55488757	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_S_CTG1	NLRP2	ENSG00000262811	ENST00000570931	protein_coding	KNOWN	None	22948	463	153	55476028	55492640	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_S_CTG1	NLRP2	ENSG00000262811	ENST00000573459	protein_coding	KNOWN	None	22948	3189	1062	55476210	55512100	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_S_CTG1	NLRP2	ENSG00000262811	ENST00000573649	retained_intron	KNOWN	None	22948	None	None	55476243	55512100	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_S_CTG1	NLRP2	ENSG00000262811	ENST00000571225	protein_coding	KNOWN	None	22948	3117	1038	55476287	55512093	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_S_CTG1	NLRP2	ENSG00000262811	ENST00000576968	protein_coding	KNOWN	None	22948	3123	1040	55476294	55512096	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_S_CTG1	NLRP2	ENSG00000262811	ENST00000575757	nonsense_mediated_decay	KNOWN	None	22948	330	109	55476302	55492604	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_S_CTG1	NLRP2	ENSG00000262811	ENST00000576631	protein_coding	KNOWN	None	22948	3189	1062	55477301	55512098	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_S_CTG1	NLRP2	ENSG00000262811	ENST00000576923	protein_coding	KNOWN	None	22948	3123	1040	55477301	55512098	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_S_CTG1	NLRP2	ENSG00000262811	ENST00000589929	protein_coding	KNOWN	None	22948	406	134	55477332	55493269	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_S_CTG1	NLRP2	ENSG00000262811	ENST00000573873	protein_coding	KNOWN	None	22948	3120	1039	55477332	55512036	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_S_CTG1	NLRP2	ENSG00000262811	ENST00000571726	protein_coding	KNOWN	None	22948	3117	1038	55477357	55512091	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_S_CTG1	NLRP2	ENSG00000262811	ENST00000574420	protein_coding	NOVEL	None	22948	3180	1059	55477364	55512093	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_S_CTG1	NLRP2	ENSG00000262811	ENST00000574835	protein_coding	NOVEL	None	22948	495	164	55484952	55493355	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_S_CTG1	NLRP2	ENSG00000262811	ENST00000574077	protein_coding	PUTATIVE	None	22948	592	196	55494444	55497359	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_S_CTG1	NLRP2	ENSG00000262811	ENST00000574144	nonsense_mediated_decay	KNOWN	None	22948	267	88	55497164	55505398	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_S_CTG1	NLRP2	ENSG00000262811	ENST00000572130	nonsense_mediated_decay	KNOWN	None	22948	28	8	55497250	55501164	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_S_CTG1	NLRP2	ENSG00000262811	ENST00000585820	processed_transcript	KNOWN	None	22948	None	None	55501584	55502507	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_S_CTG1	NLRP2	ENSG00000262811	ENST00000574615	retained_intron	KNOWN	None	22948	None	None	55504176	55512096	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_S_CTG1	None	ENSG00000262382	ENST00000574675	processed_pseudogene	KNOWN	None	None	None	None	55484775	55485375	1	None	None
HSCHR19LRC_LRC_S_CTG1	None	ENSG00000267468	ENST00000587917	antisense	KNOWN	None	None	None	None	55517151	55559044	1	None	None
HSCHR19LRC_LRC_S_CTG1	None	ENSG00000267468	ENST00000591766	antisense	KNOWN	None	None	None	None	55517163	55554209	1	None	None
HSCHR19LRC_LRC_S_CTG1	None	ENSG00000267468	ENST00000590568	antisense	KNOWN	None	None	None	None	55538580	55555275	1	None	None
HSCHR19LRC_LRC_S_CTG1	GP6	ENSG00000262131	ENST00000574117	protein_coding	KNOWN	None	14388	1020	339	55524663	55549222	-1	None	GPVI
HSCHR19LRC_LRC_S_CTG1	GP6	ENSG00000262131	ENST00000575642	protein_coding	KNOWN	None	14388	1863	620	55524663	55549222	-1	None	GPVI
HSCHR19LRC_LRC_S_CTG1	GP6	ENSG00000262131	ENST00000572667	protein_coding	KNOWN	None	14388	966	321	55524663	55549222	-1	None	GPVI
HSCHR19LRC_LRC_S_CTG1	GP6	ENSG00000262131	ENST00000575760	retained_intron	KNOWN	None	14388	None	None	55525484	55529777	-1	None	GPVI
HSCHR19LRC_LRC_S_CTG1	GP6	ENSG00000262131	ENST00000571718	protein_coding	PUTATIVE	None	14388	352	116	55538563	55543823	-1	None	GPVI
HSCHR19LRC_LRC_S_CTG1	None	ENSG00000267362	ENST00000588165	processed_transcript	KNOWN	None	None	None	None	55538551	55564886	-1	None	None
HSCHR19LRC_LRC_S_CTG1	None	ENSG00000267362	ENST00000586989	processed_transcript	KNOWN	None	None	None	None	55552997	55555907	-1	None	None
HSCHR19LRC_LRC_S_CTG1	RDH13	ENSG00000262163	ENST00000588310	processed_transcript	KNOWN	None	19978	None	None	55550066	55554065	-1	None	SDR7C3
HSCHR19LRC_LRC_S_CTG1	RDH13	ENSG00000262163	ENST00000592538	processed_transcript	KNOWN	None	19978	None	None	55550069	55552847	-1	None	SDR7C3
HSCHR19LRC_LRC_S_CTG1	RDH13	ENSG00000262163	ENST00000587249	nonsense_mediated_decay	KNOWN	None	19978	108	35	55550069	55574034	-1	None	SDR7C3
HSCHR19LRC_LRC_S_CTG1	RDH13	ENSG00000262163	ENST00000574209	protein_coding	KNOWN	None	19978	996	331	55555301	55574134	-1	None	SDR7C3
HSCHR19LRC_LRC_S_CTG1	RDH13	ENSG00000262163	ENST00000577152	nonsense_mediated_decay	KNOWN	None	19978	663	220	55555301	55574791	-1	None	SDR7C3
HSCHR19LRC_LRC_S_CTG1	RDH13	ENSG00000262163	ENST00000573147	protein_coding	KNOWN	None	19978	783	260	55555301	55580487	-1	None	SDR7C3
HSCHR19LRC_LRC_S_CTG1	RDH13	ENSG00000262163	ENST00000587503	nonsense_mediated_decay	KNOWN	None	19978	663	220	55555813	55574044	-1	None	SDR7C3
HSCHR19LRC_LRC_S_CTG1	RDH13	ENSG00000262163	ENST00000589383	nonsense_mediated_decay	KNOWN	None	19978	108	35	55558371	55574106	-1	None	SDR7C3
HSCHR19LRC_LRC_S_CTG1	RDH13	ENSG00000262163	ENST00000586550	processed_transcript	KNOWN	None	19978	None	None	55559615	55570132	-1	None	SDR7C3
HSCHR19LRC_LRC_S_CTG1	RDH13	ENSG00000262163	ENST00000591261	processed_transcript	KNOWN	None	19978	None	None	55561832	55574077	-1	None	SDR7C3
HSCHR19LRC_LRC_S_CTG1	RDH13	ENSG00000262163	ENST00000585992	protein_coding	KNOWN	None	19978	127	41	55567611	55580487	-1	None	SDR7C3
HSCHR19LRC_LRC_S_CTG1	RDH13	ENSG00000262163	ENST00000592050	protein_coding	KNOWN	None	19978	88	28	55570211	55580498	-1	None	SDR7C3
HSCHR19LRC_LRC_S_CTG1	RDH13	ENSG00000262163	ENST00000590987	processed_transcript	KNOWN	None	19978	None	None	55573999	55575326	-1	None	SDR7C3
HSCHR19LRC_LRC_S_CTG1	RDH13	ENSG00000262163	ENST00000585988	processed_transcript	KNOWN	None	19978	None	None	55574178	55580498	-1	None	SDR7C3
HSCHR19LRC_LRC_S_CTG1	RDH13	ENSG00000262163	ENST00000586371	processed_transcript	KNOWN	None	19978	None	None	55574229	55580478	-1	None	SDR7C3
HSCHR19LRC_LRC_S_CTG1	RDH13	ENSG00000262163	ENST00000590486	processed_transcript	KNOWN	None	19978	None	None	55574466	55580481	-1	None	SDR7C3
HSCHR19LRC_LRC_S_CTG1	RDH13	ENSG00000262163	ENST00000587446	processed_transcript	KNOWN	None	19978	None	None	55574710	55580449	-1	None	SDR7C3
HSCHR19LRC_LRC_S_CTG1	RDH13	ENSG00000262163	ENST00000588639	processed_transcript	KNOWN	None	19978	None	None	55574859	55580489	-1	None	SDR7C3
HSCHR19LRC_LRC_S_CTG1	RDH13	ENSG00000262163	ENST00000589815	processed_transcript	KNOWN	None	19978	None	None	55574906	55582249	-1	None	SDR7C3
HSCHR19LRC_LRC_S_CTG1	RDH13	ENSG00000262163	ENST00000591264	processed_transcript	KNOWN	None	19978	None	None	55574998	55580850	-1	None	SDR7C3
HSCHR19LRC_LRC_S_CTG1	RDH13	ENSG00000262163	ENST00000592163	processed_transcript	KNOWN	None	19978	None	None	55578153	55580460	-1	None	SDR7C3
HSCHR19LRC_LRC_S_CTG1	EPS8L1	ENSG00000262467	ENST00000587643	protein_coding	NOVEL	None	21295	1647	548	55582978	55598877	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_S_CTG1	EPS8L1	ENSG00000262467	ENST00000588593	processed_transcript	KNOWN	None	21295	None	None	55586811	55594943	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_S_CTG1	EPS8L1	ENSG00000262467	ENST00000589324	retained_intron	KNOWN	None	21295	None	None	55586846	55591334	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_S_CTG1	EPS8L1	ENSG00000262467	ENST00000575092	protein_coding	KNOWN	None	21295	2172	723	55586859	55598880	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_S_CTG1	EPS8L1	ENSG00000262467	ENST00000576308	protein_coding	NOVEL	None	21295	1980	659	55586861	55598806	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_S_CTG1	EPS8L1	ENSG00000262467	ENST00000592020	nonsense_mediated_decay	KNOWN	None	21295	1287	428	55587314	55596850	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_S_CTG1	EPS8L1	ENSG00000262467	ENST00000592797	retained_intron	KNOWN	None	21295	None	None	55590543	55591141	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_S_CTG1	EPS8L1	ENSG00000262467	ENST00000585787	protein_coding	NOVEL	None	21295	1230	409	55591350	55598647	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_S_CTG1	EPS8L1	ENSG00000262467	ENST00000573454	protein_coding	KNOWN	None	21295	1791	596	55591350	55598877	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_S_CTG1	EPS8L1	ENSG00000262467	ENST00000587154	retained_intron	KNOWN	None	21295	None	None	55591395	55592285	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_S_CTG1	EPS8L1	ENSG00000262467	ENST00000590710	retained_intron	KNOWN	None	21295	None	None	55591990	55592832	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_S_CTG1	EPS8L1	ENSG00000262467	ENST00000593033	retained_intron	KNOWN	None	21295	None	None	55592650	55594362	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_S_CTG1	EPS8L1	ENSG00000262467	ENST00000592303	retained_intron	KNOWN	None	21295	None	None	55592651	55594438	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_S_CTG1	EPS8L1	ENSG00000262467	ENST00000590405	retained_intron	KNOWN	None	21295	None	None	55592651	55598880	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_S_CTG1	EPS8L1	ENSG00000262467	ENST00000585772	retained_intron	KNOWN	None	21295	None	None	55592896	55598881	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_S_CTG1	EPS8L1	ENSG00000262467	ENST00000588846	processed_transcript	KNOWN	None	21295	None	None	55595423	55597393	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_S_CTG1	EPS8L1	ENSG00000262467	ENST00000586363	retained_intron	KNOWN	None	21295	None	None	55596653	55597150	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_S_CTG1	EPS8L1	ENSG00000262467	ENST00000587931	processed_transcript	KNOWN	None	21295	None	None	55597735	55598878	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_S_CTG1	EPS8L1	ENSG00000262467	ENST00000589423	retained_intron	KNOWN	None	21295	None	None	55598027	55598863	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_T_CTG1	VSTM1	ENSG00000272133	ENST00000607416	protein_coding	NOVEL	None	29455	381	126	54544079	54561677	-1	None	UNQ3033
HSCHR19LRC_LRC_T_CTG1	VSTM1	ENSG00000272133	ENST00000607503	protein_coding	KNOWN	None	29455	711	236	54544079	54567207	-1	None	UNQ3033
HSCHR19LRC_LRC_T_CTG1	VSTM1	ENSG00000272133	ENST00000607712	nonsense_mediated_decay	KNOWN	None	29455	525	174	54544083	54567207	-1	None	UNQ3033
HSCHR19LRC_LRC_T_CTG1	VSTM1	ENSG00000272133	ENST00000607550	protein_coding	KNOWN	None	29455	618	205	54544087	54567207	-1	None	UNQ3033
HSCHR19LRC_LRC_T_CTG1	VSTM1	ENSG00000272133	ENST00000607348	protein_coding	KNOWN	None	29455	447	148	54544204	54567042	-1	None	UNQ3033
HSCHR19LRC_LRC_T_CTG1	VSTM1	ENSG00000272133	ENST00000606755	protein_coding	KNOWN	None	29455	432	143	54544204	54567042	-1	None	UNQ3033
HSCHR19LRC_LRC_T_CTG1	TARM1	ENSG00000271859	ENST00000607859	protein_coding	PUTATIVE	None	37250	840	279	54573149	54579813	-1	None	None
HSCHR19LRC_LRC_T_CTG1	TARM1	ENSG00000271859	ENST00000606535	protein_coding	KNOWN	None	37250	816	271	54573201	54584634	-1	None	None
HSCHR19LRC_LRC_T_CTG1	OSCAR	ENSG00000272199	ENST00000607608	protein_coding	PUTATIVE	None	29960	816	271	54597933	54604083	-1	None	None
HSCHR19LRC_LRC_T_CTG1	OSCAR	ENSG00000272199	ENST00000607290	protein_coding	KNOWN	None	29960	804	267	54597935	54604083	-1	None	None
HSCHR19LRC_LRC_T_CTG1	OSCAR	ENSG00000272199	ENST00000606681	protein_coding	PUTATIVE	None	29960	861	286	54597935	54604106	-1	None	None
HSCHR19LRC_LRC_T_CTG1	OSCAR	ENSG00000272199	ENST00000606021	protein_coding	KNOWN	None	29960	792	263	54597935	54604129	-1	None	None
HSCHR19LRC_LRC_T_CTG1	OSCAR	ENSG00000272199	ENST00000606076	protein_coding	KNOWN	None	29960	759	252	54597935	54604148	-1	None	None
HSCHR19LRC_LRC_T_CTG1	OSCAR	ENSG00000272199	ENST00000607037	protein_coding	NOVEL	None	29960	849	282	54597935	54606000	-1	None	None
HSCHR19LRC_LRC_T_CTG1	OSCAR	ENSG00000272199	ENST00000607806	protein_coding	PUTATIVE	None	29960	486	161	54599039	54604132	-1	None	None
HSCHR19LRC_LRC_T_CTG1	NDUFA3	ENSG00000272471	ENST00000606762	nonsense_mediated_decay	KNOWN	None	7686	198	65	54606036	54610268	1	None	B9
HSCHR19LRC_LRC_T_CTG1	NDUFA3	ENSG00000272471	ENST00000606672	nonsense_mediated_decay	KNOWN	None	7686	255	84	54606129	54612011	1	None	B9
HSCHR19LRC_LRC_T_CTG1	NDUFA3	ENSG00000272471	ENST00000606171	protein_coding	KNOWN	None	7686	255	84	54606145	54610875	1	None	B9
HSCHR19LRC_LRC_T_CTG1	NDUFA3	ENSG00000272471	ENST00000606079	protein_coding	PUTATIVE	None	7686	219	72	54606160	54610268	1	None	B9
HSCHR19LRC_LRC_T_CTG1	NDUFA3	ENSG00000272471	ENST00000606524	protein_coding	PUTATIVE	None	7686	222	73	54606163	54609777	1	None	B9
HSCHR19LRC_LRC_T_CTG1	NDUFA3	ENSG00000272471	ENST00000607834	nonsense_mediated_decay	KNOWN	None	7686	198	65	54606163	54610268	1	None	B9
HSCHR19LRC_LRC_T_CTG1	NDUFA3	ENSG00000272471	ENST00000606926	protein_coding	PUTATIVE	None	7686	186	61	54606177	54610272	1	None	B9
HSCHR19LRC_LRC_T_CTG1	NDUFA3	ENSG00000272471	ENST00000607787	protein_coding	PUTATIVE	None	7686	246	81	54606177	54611840	1	None	B9
HSCHR19LRC_LRC_T_CTG1	NDUFA3	ENSG00000272471	ENST00000607360	retained_intron	KNOWN	None	7686	None	None	54606185	54610268	1	None	B9
HSCHR19LRC_LRC_T_CTG1	NDUFA3	ENSG00000272471	ENST00000607254	protein_coding	PUTATIVE	None	7686	126	41	54606193	54610268	1	None	B9
HSCHR19LRC_LRC_T_CTG1	NDUFA3	ENSG00000272471	ENST00000607198	nonsense_mediated_decay	KNOWN	None	7686	209	68	54606422	54612033	1	None	B9
HSCHR19LRC_LRC_T_CTG1	NDUFA3	ENSG00000272471	ENST00000606220	protein_coding	PUTATIVE	None	7686	103	33	54609272	54610268	1	None	B9
HSCHR19LRC_LRC_T_CTG1	NDUFA3	ENSG00000272471	ENST00000606871	processed_transcript	KNOWN	None	7686	None	None	54611854	54612236	1	None	B9
HSCHR19LRC_LRC_T_CTG1	NDUFA3	ENSG00000272471	ENST00000607177	processed_transcript	KNOWN	None	7686	None	None	54612011	54612564	1	None	B9
HSCHR19LRC_LRC_T_CTG1	TFPT	ENSG00000272376	ENST00000607584	protein_coding	KNOWN	None	13630	762	253	54610320	54619055	-1	None	FB1, amida, INO80F
HSCHR19LRC_LRC_T_CTG1	TFPT	ENSG00000272376	ENST00000607757	protein_coding	PUTATIVE	None	13630	735	244	54610327	54618454	-1	None	FB1, amida, INO80F
HSCHR19LRC_LRC_T_CTG1	TFPT	ENSG00000272376	ENST00000607080	nonsense_mediated_decay	KNOWN	None	13630	318	105	54610327	54618665	-1	None	FB1, amida, INO80F
HSCHR19LRC_LRC_T_CTG1	TFPT	ENSG00000272376	ENST00000606260	protein_coding	PUTATIVE	None	13630	582	193	54610327	54618668	-1	None	FB1, amida, INO80F
HSCHR19LRC_LRC_T_CTG1	PRPF31	ENSG00000271972	ENST00000607638	protein_coding	KNOWN	None	15446	1500	499	54618837	54635140	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_LRC_T_CTG1	PRPF31	ENSG00000271972	ENST00000606579	protein_coding	KNOWN	None	15446	853	283	54619134	54628033	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_LRC_T_CTG1	PRPF31	ENSG00000271972	ENST00000607803	protein_coding	KNOWN	None	15446	1353	450	54619151	54635140	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_LRC_T_CTG1	PRPF31	ENSG00000271972	ENST00000607501	protein_coding	KNOWN	None	15446	829	275	54619159	54628009	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_LRC_T_CTG1	PRPF31	ENSG00000271972	ENST00000606402	protein_coding	KNOWN	None	15446	782	259	54619189	54627962	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_LRC_T_CTG1	PRPF31	ENSG00000271972	ENST00000607606	protein_coding	NOVEL	None	15446	1482	493	54621651	54635140	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_LRC_T_CTG1	PRPF31	ENSG00000271972	ENST00000607238	retained_intron	KNOWN	None	15446	None	None	54621786	54622191	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_LRC_T_CTG1	PRPF31	ENSG00000271972	ENST00000606078	retained_intron	KNOWN	None	15446	None	None	54621789	54635140	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_LRC_T_CTG1	PRPF31	ENSG00000271972	ENST00000606163	processed_transcript	KNOWN	None	15446	None	None	54621993	54631572	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_LRC_T_CTG1	None	ENSG00000272539	ENST00000606928	antisense	KNOWN	None	None	None	None	54622891	54628722	-1	None	None
HSCHR19LRC_LRC_T_CTG1	CNOT3	ENSG00000272466	ENST00000606852	protein_coding	KNOWN	None	7879	2262	753	54641444	54659419	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_LRC_T_CTG1	CNOT3	ENSG00000272466	ENST00000607630	protein_coding	KNOWN	None	7879	1716	571	54641449	54657242	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_LRC_T_CTG1	CNOT3	ENSG00000272466	ENST00000606289	retained_intron	KNOWN	None	7879	None	None	54641503	54659418	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_LRC_T_CTG1	CNOT3	ENSG00000272466	ENST00000606609	protein_coding	KNOWN	None	7879	2262	753	54645112	54659418	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_LRC_T_CTG1	CNOT3	ENSG00000272466	ENST00000607248	protein_coding	NOVEL	None	7879	1125	374	54647466	54652432	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_LRC_T_CTG1	CNOT3	ENSG00000272466	ENST00000606586	nonsense_mediated_decay	KNOWN	None	7879	319	105	54647473	54659419	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_LRC_T_CTG1	CNOT3	ENSG00000272466	ENST00000607366	protein_coding	PUTATIVE	None	7879	865	287	54653295	54658192	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_LRC_T_CTG1	CNOT3	ENSG00000272466	ENST00000606604	processed_transcript	KNOWN	None	7879	None	None	54653465	54657556	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_LRC_T_CTG1	CNOT3	ENSG00000272466	ENST00000605883	retained_intron	KNOWN	None	7879	None	None	54656740	54659419	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_LRC_T_CTG1	CNOT3	ENSG00000272466	ENST00000607305	protein_coding	NOVEL	None	7879	267	88	54657461	54659419	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_LRC_T_CTG1	LENG1	ENSG00000272378	ENST00000607674	protein_coding	KNOWN	None	15502	795	264	54658899	54663620	-1	None	None
HSCHR19LRC_LRC_T_CTG1	TMC4	ENSG00000272229	ENST00000606290	retained_intron	KNOWN	None	22998	None	None	54663846	54664386	-1	None	None
HSCHR19LRC_LRC_T_CTG1	TMC4	ENSG00000272229	ENST00000607466	nonsense_mediated_decay	KNOWN	None	22998	168	55	54663846	54664709	-1	None	None
HSCHR19LRC_LRC_T_CTG1	TMC4	ENSG00000272229	ENST00000606308	retained_intron	KNOWN	None	22998	None	None	54663846	54668450	-1	None	None
HSCHR19LRC_LRC_T_CTG1	TMC4	ENSG00000272229	ENST00000606266	protein_coding	KNOWN	None	22998	2121	706	54663846	54676865	-1	None	None
HSCHR19LRC_LRC_T_CTG1	TMC4	ENSG00000272229	ENST00000607567	protein_coding	KNOWN	None	22998	885	294	54663847	54667425	-1	None	None
HSCHR19LRC_LRC_T_CTG1	TMC4	ENSG00000272229	ENST00000606774	protein_coding	NOVEL	None	22998	2139	712	54663902	54676944	-1	None	None
HSCHR19LRC_LRC_T_CTG1	TMC4	ENSG00000272229	ENST00000607008	retained_intron	KNOWN	None	22998	None	None	54665074	54667213	-1	None	None
HSCHR19LRC_LRC_T_CTG1	TMC4	ENSG00000272229	ENST00000607081	retained_intron	KNOWN	None	22998	None	None	54665962	54667000	-1	None	None
HSCHR19LRC_LRC_T_CTG1	TMC4	ENSG00000272229	ENST00000606035	processed_transcript	KNOWN	None	22998	None	None	54666841	54676854	-1	None	None
HSCHR19LRC_LRC_T_CTG1	TMC4	ENSG00000272229	ENST00000606854	processed_transcript	KNOWN	None	22998	None	None	54668273	54675718	-1	None	None
HSCHR19LRC_LRC_T_CTG1	TMC4	ENSG00000272229	ENST00000606451	retained_intron	KNOWN	None	22998	None	None	54668286	54672208	-1	None	None
HSCHR19LRC_LRC_T_CTG1	TMC4	ENSG00000272229	ENST00000606630	protein_coding	NOVEL	None	22998	527	174	54671897	54676447	-1	None	None
HSCHR19LRC_LRC_T_CTG1	MBOAT7	ENSG00000271791	ENST00000606768	protein_coding	KNOWN	None	15505	1200	399	54677107	54693733	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_T_CTG1	MBOAT7	ENSG00000271791	ENST00000607110	nonsense_mediated_decay	KNOWN	None	15505	213	70	54677109	54693294	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_T_CTG1	MBOAT7	ENSG00000271791	ENST00000606981	protein_coding	PUTATIVE	None	15505	1200	399	54677109	54693419	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_T_CTG1	MBOAT7	ENSG00000271791	ENST00000607667	protein_coding	KNOWN	None	15505	1419	472	54677109	54693666	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_T_CTG1	MBOAT7	ENSG00000271791	ENST00000607557	retained_intron	KNOWN	None	15505	None	None	54677113	54684507	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_T_CTG1	MBOAT7	ENSG00000271791	ENST00000607382	protein_coding	PUTATIVE	None	15505	372	123	54677768	54692132	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_T_CTG1	MBOAT7	ENSG00000271791	ENST00000607717	protein_coding	PUTATIVE	None	15505	1035	344	54682054	54693523	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_T_CTG1	MBOAT7	ENSG00000271791	ENST00000606846	protein_coding	PUTATIVE	None	15505	545	180	54683380	54687517	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_T_CTG1	MBOAT7	ENSG00000271791	ENST00000607304	protein_coding	PUTATIVE	None	15505	768	255	54684576	54693146	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_T_CTG1	MBOAT7	ENSG00000271791	ENST00000607125	protein_coding	KNOWN	None	15505	511	169	54684833	54693195	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_T_CTG1	MBOAT7	ENSG00000271791	ENST00000606023	retained_intron	KNOWN	None	15505	None	None	54684841	54692266	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_T_CTG1	MBOAT7	ENSG00000271791	ENST00000607231	processed_transcript	KNOWN	None	15505	None	None	54687404	54693400	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_T_CTG1	MBOAT7	ENSG00000271791	ENST00000606399	retained_intron	KNOWN	None	15505	None	None	54690838	54693211	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_T_CTG1	MBOAT7	ENSG00000271791	ENST00000606740	processed_transcript	KNOWN	None	15505	None	None	54691168	54693420	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_LRC_T_CTG1	TSEN34	ENSG00000272484	ENST00000606146	protein_coding	KNOWN	None	15506	727	241	54693789	54696206	1	LENG5	SEN34, SEN34L
HSCHR19LRC_LRC_T_CTG1	TSEN34	ENSG00000272484	ENST00000606825	protein_coding	PUTATIVE	None	15506	754	250	54694119	54696224	1	LENG5	SEN34, SEN34L
HSCHR19LRC_LRC_T_CTG1	TSEN34	ENSG00000272484	ENST00000607543	protein_coding	KNOWN	None	15506	933	310	54694119	54697521	1	LENG5	SEN34, SEN34L
HSCHR19LRC_LRC_T_CTG1	TSEN34	ENSG00000272484	ENST00000607191	protein_coding	KNOWN	None	15506	939	312	54694138	54697585	1	LENG5	SEN34, SEN34L
HSCHR19LRC_LRC_T_CTG1	TSEN34	ENSG00000272484	ENST00000607308	retained_intron	KNOWN	None	15506	None	None	54694194	54697521	1	LENG5	SEN34, SEN34L
HSCHR19LRC_LRC_T_CTG1	TSEN34	ENSG00000272484	ENST00000607457	protein_coding	KNOWN	None	15506	933	310	54694582	54697521	1	LENG5	SEN34, SEN34L
HSCHR19LRC_LRC_T_CTG1	TSEN34	ENSG00000272484	ENST00000606695	protein_coding	KNOWN	None	15506	933	310	54695104	54697521	1	LENG5	SEN34, SEN34L
HSCHR19LRC_LRC_T_CTG1	None	ENSG00000272404	ENST00000606264	lincRNA	KNOWN	None	None	None	None	54697731	54698394	1	None	None
HSCHR19LRC_LRC_T_CTG1	None	ENSG00000271896	ENST00000605894	antisense	KNOWN	None	None	None	None	54703321	54703838	-1	None	None
HSCHR19LRC_LRC_T_CTG1	None	ENSG00000272107	ENST00000606669	protein_coding	NOVEL	None	None	585	194	54704726	54711511	1	None	None
HSCHR19LRC_LRC_T_CTG1	None	ENSG00000271777	ENST00000606919	unprocessed_pseudogene	KNOWN	None	None	None	None	54712960	54713286	-1	None	None
HSCHR19LRC_LRC_T_CTG1	KIR3DL3	ENSG00000262289	ENST00000576569	protein_coding	KNOWN	None	16312	1233	410	55236243	55248260	1	None	KIRC1, KIR3DL7, KIR44, CD158z
HSCHR19LRC_LRC_T_CTG1	KIR2DP1	ENSG00000262463	ENST00000571203	unprocessed_pseudogene	KNOWN	None	16344	None	None	55266745	55279093	1	None	KIRZ, KIRY, KIR15, KIR2DL6
HSCHR19LRC_LRC_T_CTG1	KIR3DL2	ENSG00000261930	ENST00000572162	protein_coding	KNOWN	None	6339	1368	455	55297897	55314683	1	None	cl-5, nkat4, nkat4a, nkat4b, CD158K
HSCHR19LRC_LRC_T_CTG1	KIR3DL2	ENSG00000261930	ENST00000576619	protein_coding	NOVEL	None	6339	1317	438	55297930	55314436	1	None	cl-5, nkat4, nkat4a, nkat4b, CD158K
HSCHR19LRC_LRC_T_CTG1	NCR1	ENSG00000262832	ENST00000576128	protein_coding	KNOWN	None	6731	915	304	55353391	55360324	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_LRC_T_CTG1	NCR1	ENSG00000262832	ENST00000574562	protein_coding	KNOWN	None	6731	912	303	55353391	55360322	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_LRC_T_CTG1	NCR1	ENSG00000262832	ENST00000599654	retained_intron	KNOWN	None	6731	None	None	55353396	55354019	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_LRC_T_CTG1	NCR1	ENSG00000262832	ENST00000595040	retained_intron	KNOWN	None	6731	None	None	55353396	55356589	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_LRC_T_CTG1	NCR1	ENSG00000262832	ENST00000596859	protein_coding	NOVEL	None	6731	876	291	55353397	55360210	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_LRC_T_CTG1	NCR1	ENSG00000262832	ENST00000595694	protein_coding	KNOWN	None	6731	912	303	55353404	55363391	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_LRC_T_CTG1	NCR1	ENSG00000262832	ENST00000572024	protein_coding	KNOWN	None	6731	630	209	55353422	55360224	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_LRC_T_CTG1	NCR1	ENSG00000262832	ENST00000573638	protein_coding	KNOWN	None	6731	864	287	55353422	55360224	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_LRC_T_CTG1	NCR1	ENSG00000262832	ENST00000575004	protein_coding	NOVEL	None	6731	594	197	55353429	55360122	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_LRC_T_CTG1	NLRP7	ENSG00000263068	ENST00000576774	protein_coding	KNOWN	None	22947	3030	1009	55370760	55394756	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_LRC_T_CTG1	NLRP7	ENSG00000263068	ENST00000573987	protein_coding	KNOWN	None	22947	2943	980	55370760	55394756	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_LRC_T_CTG1	NLRP7	ENSG00000263068	ENST00000576855	protein_coding	KNOWN	None	22947	3030	1009	55370761	55389001	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_LRC_T_CTG1	NLRP7	ENSG00000263068	ENST00000588588	protein_coding	KNOWN	None	22947	2943	980	55370766	55389003	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_LRC_T_CTG1	NLRP7	ENSG00000263068	ENST00000589500	protein_coding	KNOWN	None	22947	3114	1037	55370766	55413494	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_LRC_T_CTG1	NLRP7	ENSG00000263068	ENST00000571353	protein_coding	KNOWN	None	22947	3198	1065	55370766	55413494	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_LRC_T_CTG1	NLRP7	ENSG00000263068	ENST00000587158	nonsense_mediated_decay	KNOWN	None	22947	2892	963	55370903	55394748	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_LRC_T_CTG1	NLRP7	ENSG00000263068	ENST00000585738	protein_coding	KNOWN	None	22947	3114	1037	55370904	55394748	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_LRC_T_CTG1	NLRP7	ENSG00000263068	ENST00000592708	protein_coding	KNOWN	None	22947	290	95	55388244	55413504	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_LRC_T_CTG1	NLRP7	ENSG00000263068	ENST00000587611	protein_coding	KNOWN	None	22947	210	69	55388753	55413563	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_LRC_T_CTG1	NLRP7	ENSG00000263068	ENST00000593193	protein_coding	KNOWN	None	22947	161	52	55388802	55413494	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_LRC_T_CTG1	None	ENSG00000267351	ENST00000587594	antisense	KNOWN	None	None	None	None	55398885	55399844	1	None	None
HSCHR19LRC_LRC_T_CTG1	NLRP2	ENSG00000262929	ENST00000592620	protein_coding	KNOWN	None	22948	420	139	55400381	55428890	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_T_CTG1	NLRP2	ENSG00000262929	ENST00000592733	protein_coding	KNOWN	None	22948	373	123	55400419	55425050	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_T_CTG1	NLRP2	ENSG00000262929	ENST00000572247	protein_coding	KNOWN	None	22948	463	153	55412321	55428933	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_T_CTG1	NLRP2	ENSG00000262929	ENST00000576647	protein_coding	KNOWN	None	22948	3189	1062	55412503	55448393	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_T_CTG1	NLRP2	ENSG00000262929	ENST00000576386	retained_intron	KNOWN	None	22948	None	None	55412536	55448393	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_T_CTG1	NLRP2	ENSG00000262929	ENST00000571180	protein_coding	KNOWN	None	22948	3117	1038	55412580	55448386	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_T_CTG1	NLRP2	ENSG00000262929	ENST00000575413	protein_coding	KNOWN	None	22948	3123	1040	55412587	55448389	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_T_CTG1	NLRP2	ENSG00000262929	ENST00000571948	nonsense_mediated_decay	KNOWN	None	22948	330	109	55412595	55428897	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_T_CTG1	NLRP2	ENSG00000262929	ENST00000571803	protein_coding	KNOWN	None	22948	3189	1062	55413594	55448391	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_T_CTG1	NLRP2	ENSG00000262929	ENST00000574461	protein_coding	KNOWN	None	22948	3123	1040	55413594	55448391	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_T_CTG1	NLRP2	ENSG00000262929	ENST00000589573	protein_coding	KNOWN	None	22948	406	134	55413625	55429562	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_T_CTG1	NLRP2	ENSG00000262929	ENST00000575232	protein_coding	KNOWN	None	22948	3120	1039	55413625	55448329	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_T_CTG1	NLRP2	ENSG00000262929	ENST00000572533	protein_coding	KNOWN	None	22948	3117	1038	55413650	55448384	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_T_CTG1	NLRP2	ENSG00000262929	ENST00000570968	protein_coding	NOVEL	None	22948	3180	1059	55413657	55448386	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_T_CTG1	NLRP2	ENSG00000262929	ENST00000576577	protein_coding	NOVEL	None	22948	495	164	55421245	55429648	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_T_CTG1	NLRP2	ENSG00000262929	ENST00000573219	protein_coding	PUTATIVE	None	22948	592	196	55430737	55433652	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_T_CTG1	NLRP2	ENSG00000262929	ENST00000574690	nonsense_mediated_decay	KNOWN	None	22948	267	88	55433457	55441691	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_T_CTG1	NLRP2	ENSG00000262929	ENST00000571913	nonsense_mediated_decay	KNOWN	None	22948	28	8	55433543	55437457	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_T_CTG1	NLRP2	ENSG00000262929	ENST00000585566	processed_transcript	KNOWN	None	22948	None	None	55437877	55438800	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_T_CTG1	NLRP2	ENSG00000262929	ENST00000574225	retained_intron	KNOWN	None	22948	None	None	55440469	55448389	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_LRC_T_CTG1	None	ENSG00000262386	ENST00000573831	processed_pseudogene	KNOWN	None	None	None	None	55421068	55421668	1	None	None
HSCHR19LRC_LRC_T_CTG1	None	ENSG00000267367	ENST00000591389	antisense	KNOWN	None	None	None	None	55453444	55495337	1	None	None
HSCHR19LRC_LRC_T_CTG1	None	ENSG00000267367	ENST00000586322	antisense	KNOWN	None	None	None	None	55453456	55490502	1	None	None
HSCHR19LRC_LRC_T_CTG1	None	ENSG00000267367	ENST00000588343	antisense	KNOWN	None	None	None	None	55474873	55491568	1	None	None
HSCHR19LRC_LRC_T_CTG1	GP6	ENSG00000263239	ENST00000572758	protein_coding	KNOWN	None	14388	1020	339	55460956	55485515	-1	None	GPVI
HSCHR19LRC_LRC_T_CTG1	GP6	ENSG00000263239	ENST00000573444	protein_coding	KNOWN	None	14388	1863	620	55460956	55485515	-1	None	GPVI
HSCHR19LRC_LRC_T_CTG1	GP6	ENSG00000263239	ENST00000574603	protein_coding	KNOWN	None	14388	966	321	55460956	55485515	-1	None	GPVI
HSCHR19LRC_LRC_T_CTG1	GP6	ENSG00000263239	ENST00000571032	retained_intron	KNOWN	None	14388	None	None	55461777	55466070	-1	None	GPVI
HSCHR19LRC_LRC_T_CTG1	GP6	ENSG00000263239	ENST00000577116	protein_coding	PUTATIVE	None	14388	352	116	55474856	55480116	-1	None	GPVI
HSCHR19LRC_LRC_T_CTG1	None	ENSG00000267357	ENST00000591465	processed_transcript	KNOWN	None	None	None	None	55474844	55501179	-1	None	None
HSCHR19LRC_LRC_T_CTG1	None	ENSG00000267357	ENST00000586071	processed_transcript	KNOWN	None	None	None	None	55489290	55492200	-1	None	None
HSCHR19LRC_LRC_T_CTG1	RDH13	ENSG00000262207	ENST00000585991	processed_transcript	KNOWN	None	19978	None	None	55486359	55490358	-1	None	SDR7C3
HSCHR19LRC_LRC_T_CTG1	RDH13	ENSG00000262207	ENST00000585529	processed_transcript	KNOWN	None	19978	None	None	55486362	55489140	-1	None	SDR7C3
HSCHR19LRC_LRC_T_CTG1	RDH13	ENSG00000262207	ENST00000588082	nonsense_mediated_decay	KNOWN	None	19978	108	35	55486362	55510327	-1	None	SDR7C3
HSCHR19LRC_LRC_T_CTG1	RDH13	ENSG00000262207	ENST00000574820	protein_coding	KNOWN	None	19978	996	331	55491594	55510427	-1	None	SDR7C3
HSCHR19LRC_LRC_T_CTG1	RDH13	ENSG00000262207	ENST00000576318	nonsense_mediated_decay	KNOWN	None	19978	663	220	55491594	55511084	-1	None	SDR7C3
HSCHR19LRC_LRC_T_CTG1	RDH13	ENSG00000262207	ENST00000575737	protein_coding	KNOWN	None	19978	783	260	55491594	55516780	-1	None	SDR7C3
HSCHR19LRC_LRC_T_CTG1	RDH13	ENSG00000262207	ENST00000587903	nonsense_mediated_decay	KNOWN	None	19978	663	220	55492106	55510337	-1	None	SDR7C3
HSCHR19LRC_LRC_T_CTG1	RDH13	ENSG00000262207	ENST00000590805	nonsense_mediated_decay	KNOWN	None	19978	108	35	55494664	55510399	-1	None	SDR7C3
HSCHR19LRC_LRC_T_CTG1	RDH13	ENSG00000262207	ENST00000587041	processed_transcript	KNOWN	None	19978	None	None	55495908	55506425	-1	None	SDR7C3
HSCHR19LRC_LRC_T_CTG1	RDH13	ENSG00000262207	ENST00000586072	processed_transcript	KNOWN	None	19978	None	None	55498125	55510370	-1	None	SDR7C3
HSCHR19LRC_LRC_T_CTG1	RDH13	ENSG00000262207	ENST00000590951	protein_coding	KNOWN	None	19978	127	41	55503904	55516780	-1	None	SDR7C3
HSCHR19LRC_LRC_T_CTG1	RDH13	ENSG00000262207	ENST00000587674	protein_coding	KNOWN	None	19978	88	28	55506504	55516791	-1	None	SDR7C3
HSCHR19LRC_LRC_T_CTG1	RDH13	ENSG00000262207	ENST00000588407	processed_transcript	KNOWN	None	19978	None	None	55510292	55511619	-1	None	SDR7C3
HSCHR19LRC_LRC_T_CTG1	RDH13	ENSG00000262207	ENST00000592269	processed_transcript	KNOWN	None	19978	None	None	55510471	55516791	-1	None	SDR7C3
HSCHR19LRC_LRC_T_CTG1	RDH13	ENSG00000262207	ENST00000589388	processed_transcript	KNOWN	None	19978	None	None	55510522	55516771	-1	None	SDR7C3
HSCHR19LRC_LRC_T_CTG1	RDH13	ENSG00000262207	ENST00000585502	processed_transcript	KNOWN	None	19978	None	None	55510759	55516774	-1	None	SDR7C3
HSCHR19LRC_LRC_T_CTG1	RDH13	ENSG00000262207	ENST00000590291	processed_transcript	KNOWN	None	19978	None	None	55511003	55516742	-1	None	SDR7C3
HSCHR19LRC_LRC_T_CTG1	RDH13	ENSG00000262207	ENST00000589884	processed_transcript	KNOWN	None	19978	None	None	55511152	55516782	-1	None	SDR7C3
HSCHR19LRC_LRC_T_CTG1	RDH13	ENSG00000262207	ENST00000592637	processed_transcript	KNOWN	None	19978	None	None	55511199	55518542	-1	None	SDR7C3
HSCHR19LRC_LRC_T_CTG1	RDH13	ENSG00000262207	ENST00000587771	processed_transcript	KNOWN	None	19978	None	None	55511291	55517143	-1	None	SDR7C3
HSCHR19LRC_LRC_T_CTG1	RDH13	ENSG00000262207	ENST00000586563	processed_transcript	KNOWN	None	19978	None	None	55514446	55516753	-1	None	SDR7C3
HSCHR19LRC_LRC_T_CTG1	EPS8L1	ENSG00000262225	ENST00000588293	protein_coding	NOVEL	None	21295	1647	548	55519271	55535170	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_T_CTG1	EPS8L1	ENSG00000262225	ENST00000590552	processed_transcript	KNOWN	None	21295	None	None	55523104	55531236	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_T_CTG1	EPS8L1	ENSG00000262225	ENST00000591923	retained_intron	KNOWN	None	21295	None	None	55523139	55527627	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_T_CTG1	EPS8L1	ENSG00000262225	ENST00000574541	protein_coding	KNOWN	None	21295	2172	723	55523152	55535173	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_T_CTG1	EPS8L1	ENSG00000262225	ENST00000575966	protein_coding	NOVEL	None	21295	1980	659	55523154	55535099	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_T_CTG1	EPS8L1	ENSG00000262225	ENST00000587930	nonsense_mediated_decay	KNOWN	None	21295	1287	428	55523607	55533143	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_T_CTG1	EPS8L1	ENSG00000262225	ENST00000590937	retained_intron	KNOWN	None	21295	None	None	55526836	55527434	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_T_CTG1	EPS8L1	ENSG00000262225	ENST00000590809	protein_coding	NOVEL	None	21295	1230	409	55527643	55534940	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_T_CTG1	EPS8L1	ENSG00000262225	ENST00000571441	protein_coding	KNOWN	None	21295	1791	596	55527643	55535170	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_T_CTG1	EPS8L1	ENSG00000262225	ENST00000591693	retained_intron	KNOWN	None	21295	None	None	55527688	55528578	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_T_CTG1	EPS8L1	ENSG00000262225	ENST00000592724	retained_intron	KNOWN	None	21295	None	None	55528283	55529125	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_T_CTG1	EPS8L1	ENSG00000262225	ENST00000593042	retained_intron	KNOWN	None	21295	None	None	55528943	55530655	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_T_CTG1	EPS8L1	ENSG00000262225	ENST00000589268	retained_intron	KNOWN	None	21295	None	None	55528944	55530731	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_T_CTG1	EPS8L1	ENSG00000262225	ENST00000585997	retained_intron	KNOWN	None	21295	None	None	55528944	55535173	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_T_CTG1	EPS8L1	ENSG00000262225	ENST00000588669	retained_intron	KNOWN	None	21295	None	None	55529189	55535174	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_T_CTG1	EPS8L1	ENSG00000262225	ENST00000588519	processed_transcript	KNOWN	None	21295	None	None	55531716	55533686	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_T_CTG1	EPS8L1	ENSG00000262225	ENST00000590763	retained_intron	KNOWN	None	21295	None	None	55532946	55533443	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_T_CTG1	EPS8L1	ENSG00000262225	ENST00000589013	processed_transcript	KNOWN	None	21295	None	None	55534028	55535171	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_LRC_T_CTG1	EPS8L1	ENSG00000262225	ENST00000586964	retained_intron	KNOWN	None	21295	None	None	55534320	55535156	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_PGF1_CTG1	VSTM1	ENSG00000272022	ENST00000607351	protein_coding	NOVEL	None	29455	381	126	54544079	54561677	-1	None	UNQ3033
HSCHR19LRC_PGF1_CTG1	VSTM1	ENSG00000272022	ENST00000607114	protein_coding	KNOWN	None	29455	711	236	54544079	54567207	-1	None	UNQ3033
HSCHR19LRC_PGF1_CTG1	VSTM1	ENSG00000272022	ENST00000606819	nonsense_mediated_decay	KNOWN	None	29455	525	174	54544083	54567207	-1	None	UNQ3033
HSCHR19LRC_PGF1_CTG1	VSTM1	ENSG00000272022	ENST00000607070	protein_coding	KNOWN	None	29455	618	205	54544087	54567207	-1	None	UNQ3033
HSCHR19LRC_PGF1_CTG1	VSTM1	ENSG00000272022	ENST00000607059	protein_coding	KNOWN	None	29455	447	148	54544204	54567042	-1	None	UNQ3033
HSCHR19LRC_PGF1_CTG1	VSTM1	ENSG00000272022	ENST00000607165	protein_coding	KNOWN	None	29455	432	143	54544204	54567042	-1	None	UNQ3033
HSCHR19LRC_PGF1_CTG1	TARM1	ENSG00000272392	ENST00000607507	protein_coding	PUTATIVE	None	37250	840	279	54573149	54579813	-1	None	None
HSCHR19LRC_PGF1_CTG1	TARM1	ENSG00000272392	ENST00000605951	protein_coding	KNOWN	None	37250	816	271	54573201	54584634	-1	None	None
HSCHR19LRC_PGF1_CTG1	OSCAR	ENSG00000271861	ENST00000606806	protein_coding	PUTATIVE	None	29960	816	271	54597933	54604083	-1	None	None
HSCHR19LRC_PGF1_CTG1	OSCAR	ENSG00000271861	ENST00000607642	protein_coding	KNOWN	None	29960	804	267	54597935	54604083	-1	None	None
HSCHR19LRC_PGF1_CTG1	OSCAR	ENSG00000271861	ENST00000607760	protein_coding	PUTATIVE	None	29960	861	286	54597935	54604106	-1	None	None
HSCHR19LRC_PGF1_CTG1	OSCAR	ENSG00000271861	ENST00000607225	protein_coding	KNOWN	None	29960	792	263	54597935	54604129	-1	None	None
HSCHR19LRC_PGF1_CTG1	OSCAR	ENSG00000271861	ENST00000607620	protein_coding	KNOWN	None	29960	759	252	54597935	54604148	-1	None	None
HSCHR19LRC_PGF1_CTG1	OSCAR	ENSG00000271861	ENST00000606650	protein_coding	NOVEL	None	29960	849	282	54597935	54606000	-1	None	None
HSCHR19LRC_PGF1_CTG1	OSCAR	ENSG00000271861	ENST00000606015	protein_coding	PUTATIVE	None	29960	486	161	54599039	54604132	-1	None	None
HSCHR19LRC_PGF1_CTG1	NDUFA3	ENSG00000272409	ENST00000606313	nonsense_mediated_decay	KNOWN	None	7686	198	65	54606036	54610268	1	None	B9
HSCHR19LRC_PGF1_CTG1	NDUFA3	ENSG00000272409	ENST00000606691	nonsense_mediated_decay	KNOWN	None	7686	255	84	54606129	54612011	1	None	B9
HSCHR19LRC_PGF1_CTG1	NDUFA3	ENSG00000272409	ENST00000607435	protein_coding	KNOWN	None	7686	255	84	54606145	54610875	1	None	B9
HSCHR19LRC_PGF1_CTG1	NDUFA3	ENSG00000272409	ENST00000606600	protein_coding	PUTATIVE	None	7686	219	72	54606160	54610268	1	None	B9
HSCHR19LRC_PGF1_CTG1	NDUFA3	ENSG00000272409	ENST00000607184	protein_coding	PUTATIVE	None	7686	222	73	54606163	54609777	1	None	B9
HSCHR19LRC_PGF1_CTG1	NDUFA3	ENSG00000272409	ENST00000606824	nonsense_mediated_decay	KNOWN	None	7686	198	65	54606163	54610268	1	None	B9
HSCHR19LRC_PGF1_CTG1	NDUFA3	ENSG00000272409	ENST00000606591	protein_coding	PUTATIVE	None	7686	186	61	54606177	54610272	1	None	B9
HSCHR19LRC_PGF1_CTG1	NDUFA3	ENSG00000272409	ENST00000607237	protein_coding	PUTATIVE	None	7686	246	81	54606177	54611840	1	None	B9
HSCHR19LRC_PGF1_CTG1	NDUFA3	ENSG00000272409	ENST00000607685	retained_intron	KNOWN	None	7686	None	None	54606185	54610268	1	None	B9
HSCHR19LRC_PGF1_CTG1	NDUFA3	ENSG00000272409	ENST00000605913	protein_coding	PUTATIVE	None	7686	126	41	54606193	54610268	1	None	B9
HSCHR19LRC_PGF1_CTG1	NDUFA3	ENSG00000272409	ENST00000606091	nonsense_mediated_decay	KNOWN	None	7686	209	68	54606422	54612033	1	None	B9
HSCHR19LRC_PGF1_CTG1	NDUFA3	ENSG00000272409	ENST00000607430	protein_coding	PUTATIVE	None	7686	103	33	54609272	54610268	1	None	B9
HSCHR19LRC_PGF1_CTG1	NDUFA3	ENSG00000272409	ENST00000606741	processed_transcript	KNOWN	None	7686	None	None	54611854	54612236	1	None	B9
HSCHR19LRC_PGF1_CTG1	NDUFA3	ENSG00000272409	ENST00000607424	processed_transcript	KNOWN	None	7686	None	None	54612011	54612564	1	None	B9
HSCHR19LRC_PGF1_CTG1	TFPT	ENSG00000272527	ENST00000607035	protein_coding	KNOWN	None	13630	762	253	54610320	54619055	-1	None	FB1, amida, INO80F
HSCHR19LRC_PGF1_CTG1	TFPT	ENSG00000272527	ENST00000607500	protein_coding	PUTATIVE	None	13630	735	244	54610327	54618454	-1	None	FB1, amida, INO80F
HSCHR19LRC_PGF1_CTG1	TFPT	ENSG00000272527	ENST00000607328	nonsense_mediated_decay	KNOWN	None	13630	318	105	54610327	54618665	-1	None	FB1, amida, INO80F
HSCHR19LRC_PGF1_CTG1	TFPT	ENSG00000272527	ENST00000606101	protein_coding	PUTATIVE	None	13630	582	193	54610327	54618668	-1	None	FB1, amida, INO80F
HSCHR19LRC_PGF1_CTG1	PRPF31	ENSG00000272061	ENST00000606493	protein_coding	KNOWN	None	15446	1500	499	54618837	54635140	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_PGF1_CTG1	PRPF31	ENSG00000272061	ENST00000606968	protein_coding	KNOWN	None	15446	853	283	54619134	54628033	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_PGF1_CTG1	PRPF31	ENSG00000272061	ENST00000606027	protein_coding	KNOWN	None	15446	1353	450	54619151	54635140	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_PGF1_CTG1	PRPF31	ENSG00000272061	ENST00000607280	protein_coding	KNOWN	None	15446	829	275	54619159	54628009	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_PGF1_CTG1	PRPF31	ENSG00000272061	ENST00000607492	protein_coding	KNOWN	None	15446	782	259	54619189	54627962	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_PGF1_CTG1	PRPF31	ENSG00000272061	ENST00000606175	protein_coding	NOVEL	None	15446	1482	493	54621651	54635140	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_PGF1_CTG1	PRPF31	ENSG00000272061	ENST00000606263	retained_intron	KNOWN	None	15446	None	None	54621786	54622191	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_PGF1_CTG1	PRPF31	ENSG00000272061	ENST00000606882	retained_intron	KNOWN	None	15446	None	None	54621789	54635140	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_PGF1_CTG1	PRPF31	ENSG00000272061	ENST00000606667	processed_transcript	KNOWN	None	15446	None	None	54621993	54631572	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_PGF1_CTG1	None	ENSG00000272212	ENST00000606303	antisense	KNOWN	None	None	None	None	54622891	54628722	-1	None	None
HSCHR19LRC_PGF1_CTG1	CNOT3	ENSG00000262369	ENST00000572852	protein_coding	KNOWN	None	7879	2262	753	54641444	54659419	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_PGF1_CTG1	CNOT3	ENSG00000262369	ENST00000572589	protein_coding	KNOWN	None	7879	1716	571	54641449	54657242	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_PGF1_CTG1	CNOT3	ENSG00000262369	ENST00000576700	retained_intron	KNOWN	None	7879	None	None	54641503	54659418	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_PGF1_CTG1	CNOT3	ENSG00000262369	ENST00000570333	protein_coding	KNOWN	None	7879	2262	753	54645112	54659418	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_PGF1_CTG1	CNOT3	ENSG00000262369	ENST00000572028	protein_coding	NOVEL	None	7879	1125	374	54647466	54652432	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_PGF1_CTG1	CNOT3	ENSG00000262369	ENST00000576777	nonsense_mediated_decay	KNOWN	None	7879	319	105	54647473	54659419	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_PGF1_CTG1	CNOT3	ENSG00000262369	ENST00000575721	protein_coding	PUTATIVE	None	7879	865	287	54653295	54658192	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_PGF1_CTG1	CNOT3	ENSG00000262369	ENST00000574887	processed_transcript	KNOWN	None	7879	None	None	54653465	54657556	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_PGF1_CTG1	CNOT3	ENSG00000262369	ENST00000576895	retained_intron	KNOWN	None	7879	None	None	54656740	54659419	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_PGF1_CTG1	CNOT3	ENSG00000262369	ENST00000570469	protein_coding	NOVEL	None	7879	267	88	54657461	54659419	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_PGF1_CTG1	LENG1	ENSG00000262168	ENST00000575187	protein_coding	KNOWN	None	15502	795	264	54658899	54663620	-1	None	None
HSCHR19LRC_PGF1_CTG1	None	ENSG00000269159	ENST00000598505	protein_coding	NOVEL	None	None	2121	706	54663836	54676915	-1	None	None
HSCHR19LRC_PGF1_CTG1	MBOAT7	ENSG00000262053	ENST00000575098	protein_coding	KNOWN	None	15505	1200	399	54677078	54693733	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_PGF1_CTG1	MBOAT7	ENSG00000262053	ENST00000573726	nonsense_mediated_decay	KNOWN	None	15505	213	70	54677080	54693294	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_PGF1_CTG1	MBOAT7	ENSG00000262053	ENST00000572677	protein_coding	PUTATIVE	None	15505	1200	399	54677080	54693419	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_PGF1_CTG1	MBOAT7	ENSG00000262053	ENST00000575127	protein_coding	KNOWN	None	15505	1419	472	54677080	54693666	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_PGF1_CTG1	MBOAT7	ENSG00000262053	ENST00000571899	retained_intron	KNOWN	None	15505	None	None	54677084	54684471	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_PGF1_CTG1	MBOAT7	ENSG00000262053	ENST00000572042	protein_coding	PUTATIVE	None	15505	372	123	54677739	54692129	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_PGF1_CTG1	MBOAT7	ENSG00000262053	ENST00000574811	protein_coding	PUTATIVE	None	15505	1035	344	54682018	54693523	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_PGF1_CTG1	MBOAT7	ENSG00000262053	ENST00000577100	protein_coding	PUTATIVE	None	15505	545	180	54683344	54687481	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_PGF1_CTG1	MBOAT7	ENSG00000262053	ENST00000572398	protein_coding	PUTATIVE	None	15505	768	255	54684540	54693146	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_PGF1_CTG1	MBOAT7	ENSG00000262053	ENST00000575044	protein_coding	KNOWN	None	15505	511	169	54684797	54693195	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_PGF1_CTG1	MBOAT7	ENSG00000262053	ENST00000571322	retained_intron	KNOWN	None	15505	None	None	54684805	54692263	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_PGF1_CTG1	MBOAT7	ENSG00000262053	ENST00000575640	processed_transcript	KNOWN	None	15505	None	None	54687368	54693400	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_PGF1_CTG1	MBOAT7	ENSG00000262053	ENST00000572701	retained_intron	KNOWN	None	15505	None	None	54690803	54693211	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_PGF1_CTG1	MBOAT7	ENSG00000262053	ENST00000573179	processed_transcript	KNOWN	None	15505	None	None	54691133	54693420	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_PGF1_CTG1	TSEN34	ENSG00000262868	ENST00000576300	protein_coding	KNOWN	None	15506	727	241	54693789	54696206	1	LENG5	SEN34, SEN34L
HSCHR19LRC_PGF1_CTG1	TSEN34	ENSG00000262868	ENST00000575274	protein_coding	PUTATIVE	None	15506	754	250	54694119	54696224	1	LENG5	SEN34, SEN34L
HSCHR19LRC_PGF1_CTG1	TSEN34	ENSG00000262868	ENST00000573330	protein_coding	KNOWN	None	15506	933	310	54694119	54697516	1	LENG5	SEN34, SEN34L
HSCHR19LRC_PGF1_CTG1	TSEN34	ENSG00000262868	ENST00000576141	protein_coding	KNOWN	None	15506	939	312	54694138	54697580	1	LENG5	SEN34, SEN34L
HSCHR19LRC_PGF1_CTG1	TSEN34	ENSG00000262868	ENST00000573073	retained_intron	KNOWN	None	15506	None	None	54694194	54697516	1	LENG5	SEN34, SEN34L
HSCHR19LRC_PGF1_CTG1	TSEN34	ENSG00000262868	ENST00000572922	protein_coding	KNOWN	None	15506	933	310	54694582	54697516	1	LENG5	SEN34, SEN34L
HSCHR19LRC_PGF1_CTG1	TSEN34	ENSG00000262868	ENST00000574141	protein_coding	KNOWN	None	15506	933	310	54695104	54697516	1	LENG5	SEN34, SEN34L
HSCHR19LRC_PGF1_CTG1	None	ENSG00000263174	ENST00000573973	antisense	KNOWN	None	None	None	None	54703312	54703829	-1	None	None
HSCHR19LRC_PGF1_CTG1	RPS9	ENSG00000263332	ENST00000573353	protein_coding	KNOWN	None	10442	585	194	54704601	54711505	1	None	S9
HSCHR19LRC_PGF1_CTG1	RPS9	ENSG00000263332	ENST00000575315	retained_intron	KNOWN	None	10442	None	None	54704668	54710705	1	None	S9
HSCHR19LRC_PGF1_CTG1	RPS9	ENSG00000263332	ENST00000570424	nonsense_mediated_decay	KNOWN	None	10442	234	77	54704717	54752858	1	None	S9
HSCHR19LRC_PGF1_CTG1	RPS9	ENSG00000263332	ENST00000576296	nonsense_mediated_decay	KNOWN	None	10442	420	139	54704730	54711380	1	None	S9
HSCHR19LRC_PGF1_CTG1	RPS9	ENSG00000263332	ENST00000575746	protein_coding	KNOWN	None	10442	585	194	54704731	54711505	1	None	S9
HSCHR19LRC_PGF1_CTG1	RPS9	ENSG00000263332	ENST00000571930	protein_coding	NOVEL	None	10442	420	139	54704731	54711505	1	None	S9
HSCHR19LRC_PGF1_CTG1	RPS9	ENSG00000263332	ENST00000570464	nonsense_mediated_decay	KNOWN	None	10442	420	139	54704731	54711505	1	None	S9
HSCHR19LRC_PGF1_CTG1	RPS9	ENSG00000263332	ENST00000576075	protein_coding	PUTATIVE	None	10442	240	79	54704733	54711505	1	None	S9
HSCHR19LRC_PGF1_CTG1	RPS9	ENSG00000263332	ENST00000572368	retained_intron	KNOWN	None	10442	None	None	54704738	54711502	1	None	S9
HSCHR19LRC_PGF1_CTG1	RPS9	ENSG00000263332	ENST00000574910	protein_coding	KNOWN	None	10442	585	194	54704992	54711505	1	None	S9
HSCHR19LRC_PGF1_CTG1	RPS9	ENSG00000263332	ENST00000572506	retained_intron	KNOWN	None	10442	None	None	54705019	54705867	1	None	S9
HSCHR19LRC_PGF1_CTG1	RPS9	ENSG00000263332	ENST00000570925	protein_coding	PUTATIVE	None	10442	471	156	54705019	54711488	1	None	S9
HSCHR19LRC_PGF1_CTG1	None	ENSG00000263202	ENST00000574537	unprocessed_pseudogene	KNOWN	None	None	None	None	54712963	54713289	-1	None	None
HSCHR19LRC_PGF1_CTG1	LILRB3	ENSG00000262087	ENST00000575296	protein_coding	KNOWN	None	6607	1896	631	54720151	54727383	-1	None	LIR-3, HL9, ILT5, LIR3, CD85a
HSCHR19LRC_PGF1_CTG1	LILRB3	ENSG00000262087	ENST00000570726	protein_coding	KNOWN	None	6607	1896	631	54720151	54726964	-1	None	LIR-3, HL9, ILT5, LIR3, CD85a
HSCHR19LRC_PGF1_CTG1	LILRB3	ENSG00000262087	ENST00000573252	nonsense_mediated_decay	KNOWN	None	6607	576	191	54720547	54726855	-1	None	LIR-3, HL9, ILT5, LIR3, CD85a
HSCHR19LRC_PGF1_CTG1	LILRB3	ENSG00000262087	ENST00000572971	protein_coding	KNOWN	None	6607	1932	643	54720757	54726916	-1	None	LIR-3, HL9, ILT5, LIR3, CD85a
HSCHR19LRC_PGF1_CTG1	LILRB3	ENSG00000262087	ENST00000575221	protein_coding	NOVEL	None	6607	1899	632	54720801	54726855	-1	None	LIR-3, HL9, ILT5, LIR3, CD85a
HSCHR19LRC_PGF1_CTG1	LILRB3	ENSG00000262087	ENST00000573798	protein_coding	KNOWN	None	6607	1947	648	54720801	54746602	-1	None	LIR-3, HL9, ILT5, LIR3, CD85a
HSCHR19LRC_PGF1_CTG1	LILRB3	ENSG00000262087	ENST00000572095	retained_intron	KNOWN	None	6607	None	None	54720969	54721571	-1	None	LIR-3, HL9, ILT5, LIR3, CD85a
HSCHR19LRC_PGF1_CTG1	LILRB3	ENSG00000262087	ENST00000575620	processed_transcript	KNOWN	None	6607	None	None	54720993	54724665	-1	None	LIR-3, HL9, ILT5, LIR3, CD85a
HSCHR19LRC_PGF1_CTG1	LILRB3	ENSG00000262087	ENST00000575793	retained_intron	KNOWN	None	6607	None	None	54722468	54723228	-1	None	LIR-3, HL9, ILT5, LIR3, CD85a
HSCHR19LRC_PGF1_CTG1	LILRB3	ENSG00000262087	ENST00000572712	retained_intron	KNOWN	None	6607	None	None	54725855	54726964	-1	None	LIR-3, HL9, ILT5, LIR3, CD85a
HSCHR19LRC_PGF1_CTG1	LILRB3	ENSG00000262087	ENST00000570969	protein_coding	KNOWN	None	6607	475	157	54725888	54726964	-1	None	LIR-3, HL9, ILT5, LIR3, CD85a
HSCHR19LRC_PGF1_CTG1	LILRA6	ENSG00000262320	ENST00000571848	protein_coding	KNOWN	None	15495	1896	631	54720741	54746649	-1	LILRB6	ILT8, CD85b
HSCHR19LRC_PGF1_CTG1	LILRA6	ENSG00000262320	ENST00000573458	protein_coding	KNOWN	None	15495	1899	632	54720801	54746602	-1	LILRB6	ILT8, CD85b
HSCHR19LRC_PGF1_CTG1	LILRA6	ENSG00000262320	ENST00000573496	protein_coding	KNOWN	None	15495	1899	632	54720801	54746602	-1	LILRB6	ILT8, CD85b
HSCHR19LRC_PGF1_CTG1	LILRA6	ENSG00000262320	ENST00000576074	protein_coding	KNOWN	None	15495	582	193	54720801	54746602	-1	LILRB6	ILT8, CD85b
HSCHR19LRC_PGF1_CTG1	LILRA6	ENSG00000262320	ENST00000570793	nonsense_mediated_decay	KNOWN	None	15495	582	193	54740468	54746617	-1	LILRB6	ILT8, CD85b
HSCHR19LRC_PGF1_CTG1	LILRA6	ENSG00000262320	ENST00000570657	protein_coding	NOVEL	None	15495	1446	481	54742425	54746640	-1	LILRB6	ILT8, CD85b
HSCHR19LRC_PGF1_CTG1	LILRA6	ENSG00000262320	ENST00000572401	protein_coding	KNOWN	None	15495	1395	464	54742829	54746600	-1	LILRB6	ILT8, CD85b
HSCHR19LRC_PGF1_CTG1	LILRA6	ENSG00000262320	ENST00000570961	retained_intron	KNOWN	None	15495	None	None	54744914	54746621	-1	LILRB6	ILT8, CD85b
HSCHR19LRC_PGF1_CTG1	None	ENSG00000268989	ENST00000601884	lincRNA	KNOWN	None	None	None	None	54728400	54728758	1	None	None
HSCHR19LRC_PGF1_CTG1	None	ENSG00000261950	ENST00000575719	processed_pseudogene	KNOWN	None	None	None	None	54732907	54734088	1	None	None
HSCHR19LRC_PGF1_CTG1	None	ENSG00000263224	ENST00000572114	unprocessed_pseudogene	KNOWN	None	None	None	None	54749956	54751177	-1	None	None
HSCHR19LRC_PGF1_CTG1	None	ENSG00000268037	ENST00000601989	protein_coding	NOVEL	None	None	1776	591	54754264	54761159	-1	None	None
HSCHR19LRC_PGF1_CTG1	None	ENSG00000268037	ENST00000593784	protein_coding	NOVEL	None	None	1932	643	54754264	54761159	-1	None	None
HSCHR19LRC_PGF1_CTG1	None	ENSG00000262849	ENST00000572292	processed_pseudogene	KNOWN	None	None	None	None	54771873	54772913	1	None	None
HSCHR19LRC_PGF1_CTG1	None	ENSG00000262219	ENST00000570849	processed_pseudogene	KNOWN	None	None	None	None	54771874	54772916	1	None	None
HSCHR19LRC_PGF1_CTG1	None	ENSG00000267923	ENST00000607840	protein_coding	KNOWN	None	None	810	269	54787290	54804060	-1	None	None
HSCHR19LRC_PGF1_CTG1	None	ENSG00000267923	ENST00000598638	protein_coding	KNOWN	None	None	864	287	54788062	54798404	-1	None	None
HSCHR19LRC_PGF1_CTG1	None	ENSG00000262105	ENST00000574714	processed_pseudogene	KNOWN	None	None	None	None	54813028	54813499	1	None	None
HSCHR19LRC_PGF1_CTG1	TTYH1	ENSG00000262236	ENST00000572188	protein_coding	PUTATIVE	None	13476	471	156	54848800	54855836	1	None	None
HSCHR19LRC_PGF1_CTG1	TTYH1	ENSG00000262236	ENST00000571437	protein_coding	NOVEL	None	13476	1356	451	54849012	54870475	1	None	None
HSCHR19LRC_PGF1_CTG1	TTYH1	ENSG00000262236	ENST00000571952	protein_coding	KNOWN	None	13476	1353	450	54849031	54870294	1	None	None
HSCHR19LRC_PGF1_CTG1	TTYH1	ENSG00000262236	ENST00000570681	protein_coding	NOVEL	None	13476	841	279	54849046	54860300	1	None	None
HSCHR19LRC_PGF1_CTG1	TTYH1	ENSG00000262236	ENST00000571415	protein_coding	KNOWN	None	13476	1362	453	54849072	54869733	1	None	None
HSCHR19LRC_PGF1_CTG1	TTYH1	ENSG00000262236	ENST00000572920	nonsense_mediated_decay	KNOWN	None	13476	342	113	54849091	54860340	1	None	None
HSCHR19LRC_PGF1_CTG1	TTYH1	ENSG00000262236	ENST00000575797	retained_intron	KNOWN	None	13476	None	None	54849093	54870294	1	None	None
HSCHR19LRC_PGF1_CTG1	TTYH1	ENSG00000262236	ENST00000570537	protein_coding	KNOWN	None	13476	1383	460	54849107	54870294	1	None	None
HSCHR19LRC_PGF1_CTG1	TTYH1	ENSG00000262236	ENST00000574878	processed_transcript	KNOWN	None	13476	None	None	54849421	54855829	1	None	None
HSCHR19LRC_PGF1_CTG1	TTYH1	ENSG00000262236	ENST00000571943	processed_transcript	KNOWN	None	13476	None	None	54851843	54853117	1	None	None
HSCHR19LRC_PGF1_CTG1	TTYH1	ENSG00000262236	ENST00000572425	processed_transcript	PUTATIVE	None	13476	None	None	54851970	54854924	1	None	None
HSCHR19LRC_PGF1_CTG1	TTYH1	ENSG00000262236	ENST00000575324	nonsense_mediated_decay	KNOWN	None	13476	115	37	54852777	54867285	1	None	None
HSCHR19LRC_PGF1_CTG1	TTYH1	ENSG00000262236	ENST00000573988	processed_transcript	KNOWN	None	13476	None	None	54854249	54860305	1	None	None
HSCHR19LRC_PGF1_CTG1	TTYH1	ENSG00000262236	ENST00000576858	processed_transcript	KNOWN	None	13476	None	None	54854280	54862926	1	None	None
HSCHR19LRC_PGF1_CTG1	TTYH1	ENSG00000262236	ENST00000575941	processed_transcript	KNOWN	None	13476	None	None	54860046	54870294	1	None	None
HSCHR19LRC_PGF1_CTG1	TTYH1	ENSG00000262236	ENST00000571837	processed_transcript	KNOWN	None	13476	None	None	54864386	54870047	1	None	None
HSCHR19LRC_PGF1_CTG1	TTYH1	ENSG00000262236	ENST00000574421	processed_transcript	KNOWN	None	13476	None	None	54868535	54869903	1	None	None
HSCHR19LRC_PGF1_CTG1	TTYH1	ENSG00000262236	ENST00000575109	processed_transcript	PUTATIVE	None	13476	None	None	54869580	54870292	1	None	None
HSCHR19LRC_PGF1_CTG1	None	ENSG00000262614	ENST00000572696	antisense	KNOWN	None	None	None	None	54864227	54868273	-1	None	None
HSCHR19LRC_PGF1_CTG1	None	ENSG00000268479	ENST00000594742	sense_intronic	KNOWN	None	None	None	None	54867758	54868240	1	None	None
HSCHR19LRC_PGF1_CTG1	None	ENSG00000268577	ENST00000598414	lincRNA	KNOWN	None	None	None	None	54871587	54871923	-1	None	None
HSCHR19LRC_PGF1_CTG1	None	ENSG00000269768	ENST00000594015	lincRNA	KNOWN	None	None	None	None	54872242	54872757	-1	None	None
HSCHR19LRC_PGF1_CTG1	LENG8-AS1	ENSG00000262451	ENST00000574645	antisense	KNOWN	None	40705	None	None	54878387	54882587	-1	None	None
HSCHR19LRC_PGF1_CTG1	LENG8-AS1	ENSG00000262451	ENST00000570559	antisense	KNOWN	None	40705	None	None	54878610	54882175	-1	None	None
HSCHR19LRC_PGF1_CTG1	LENG8-AS1	ENSG00000262451	ENST00000570882	antisense	KNOWN	None	40705	None	None	54881738	54882618	-1	None	None
HSCHR19LRC_PGF1_CTG1	None	ENSG00000263003	ENST00000573504	processed_pseudogene	KNOWN	None	None	None	None	54880404	54880621	1	None	None
HSCHR19LRC_PGF1_CTG1	LENG8	ENSG00000262602	ENST00000575939	protein_coding	KNOWN	None	15500	2403	800	54882460	54895612	1	None	KIAA1932, MGC40108, pp13842
HSCHR19LRC_PGF1_CTG1	LENG8	ENSG00000262602	ENST00000572464	protein_coding	KNOWN	None	15500	901	299	54882763	54889017	1	None	KIAA1932, MGC40108, pp13842
HSCHR19LRC_PGF1_CTG1	LENG8	ENSG00000262602	ENST00000571883	protein_coding	KNOWN	None	15500	165	54	54882791	54894503	1	None	KIAA1932, MGC40108, pp13842
HSCHR19LRC_PGF1_CTG1	LENG8	ENSG00000262602	ENST00000574400	protein_coding	PUTATIVE	None	15500	2514	837	54882797	54894975	1	None	KIAA1932, MGC40108, pp13842
HSCHR19LRC_PGF1_CTG1	LENG8	ENSG00000262602	ENST00000576067	protein_coding	PUTATIVE	None	15500	225	74	54882801	54886290	1	None	KIAA1932, MGC40108, pp13842
HSCHR19LRC_PGF1_CTG1	LENG8	ENSG00000262602	ENST00000577003	protein_coding	KNOWN	None	15500	275	90	54883185	54886286	1	None	KIAA1932, MGC40108, pp13842
HSCHR19LRC_PGF1_CTG1	LENG8	ENSG00000262602	ENST00000573463	protein_coding	PUTATIVE	None	15500	2625	874	54884862	54895590	1	None	KIAA1932, MGC40108, pp13842
HSCHR19LRC_PGF1_CTG1	LENG8	ENSG00000262602	ENST00000571645	retained_intron	KNOWN	None	15500	None	None	54885564	54887197	1	None	KIAA1932, MGC40108, pp13842
HSCHR19LRC_PGF1_CTG1	LENG8	ENSG00000262602	ENST00000576399	protein_coding	PUTATIVE	None	15500	336	111	54891989	54895287	1	None	KIAA1932, MGC40108, pp13842
HSCHR19LRC_PGF1_CTG1	LENG9	ENSG00000261906	ENST00000575495	protein_coding	KNOWN	None	16306	1506	501	54895376	54897289	-1	None	None
HSCHR19LRC_PGF1_CTG1	CDC42EP5	ENSG00000261931	ENST00000573230	protein_coding	KNOWN	None	17408	447	148	54898605	54906806	-1	None	CEP5, Borg3
HSCHR19LRC_PGF1_CTG1	CDC42EP5	ENSG00000261931	ENST00000570349	processed_transcript	KNOWN	None	17408	None	None	54905122	54906713	-1	None	CEP5, Borg3
HSCHR19LRC_PGF1_CTG1	LAIR2	ENSG00000262216	ENST00000575759	protein_coding	PUTATIVE	None	6478	268	88	54931486	54941711	1	None	CD306
HSCHR19LRC_PGF1_CTG1	LAIR2	ENSG00000262216	ENST00000576253	protein_coding	KNOWN	None	6478	459	152	54936399	54944292	1	None	CD306
HSCHR19LRC_PGF1_CTG1	LAIR2	ENSG00000262216	ENST00000572374	protein_coding	KNOWN	None	6478	408	135	54936509	54944292	1	None	CD306
HSCHR19LRC_PGF1_CTG1	None	ENSG00000263262	ENST00000573140	unprocessed_pseudogene	KNOWN	None	None	None	None	54955335	54955643	1	None	None
HSCHR19LRC_PGF1_CTG1	None	ENSG00000268064	ENST00000594055	protein_coding	NOVEL	None	None	1059	352	54966403	54977336	1	None	None
HSCHR19LRC_PGF1_CTG1	None	ENSG00000262586	ENST00000576525	unprocessed_pseudogene	KNOWN	None	None	None	None	54985567	54985853	1	None	None
HSCHR19LRC_PGF1_CTG1	LILRA2	ENSG00000262754	ENST00000576899	processed_transcript	KNOWN	None	6603	None	None	55006691	55008681	1	None	LIR-7, ILT1, CD85h, LIR7
HSCHR19LRC_PGF1_CTG1	LILRA2	ENSG00000262754	ENST00000576297	protein_coding	KNOWN	None	6603	982	326	55006799	55009607	1	None	LIR-7, ILT1, CD85h, LIR7
HSCHR19LRC_PGF1_CTG1	LILRA2	ENSG00000262754	ENST00000574047	protein_coding	KNOWN	None	6603	1452	483	55007122	55021331	1	None	LIR-7, ILT1, CD85h, LIR7
HSCHR19LRC_PGF1_CTG1	LILRA2	ENSG00000262754	ENST00000575706	protein_coding	KNOWN	None	6603	1452	483	55007561	55021329	1	None	LIR-7, ILT1, CD85h, LIR7
HSCHR19LRC_PGF1_CTG1	LILRA2	ENSG00000262754	ENST00000575950	protein_coding	KNOWN	None	6603	1401	466	55007563	55021331	1	None	LIR-7, ILT1, CD85h, LIR7
HSCHR19LRC_PGF1_CTG1	LILRA2	ENSG00000262754	ENST00000577069	protein_coding	NOVEL	None	6603	1365	454	55007612	55021166	1	None	LIR-7, ILT1, CD85h, LIR7
HSCHR19LRC_PGF1_CTG1	LILRA2	ENSG00000262754	ENST00000576044	processed_transcript	KNOWN	None	6603	None	None	55009843	55021318	1	None	LIR-7, ILT1, CD85h, LIR7
HSCHR19LRC_PGF1_CTG1	LILRB1	ENSG00000262985	ENST00000573974	protein_coding	KNOWN	None	6605	1953	650	55007650	55070784	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HSCHR19LRC_PGF1_CTG1	LILRB1	ENSG00000262985	ENST00000573061	protein_coding	KNOWN	None	6605	1905	634	55007650	55070784	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HSCHR19LRC_PGF1_CTG1	LILRB1	ENSG00000262985	ENST00000575292	protein_coding	KNOWN	None	6605	1533	510	55007650	55070784	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HSCHR19LRC_PGF1_CTG1	LILRB1	ENSG00000262985	ENST00000572646	protein_coding	KNOWN	None	6605	1953	650	55050918	55071293	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HSCHR19LRC_PGF1_CTG1	LILRB1	ENSG00000262985	ENST00000573979	protein_coding	NOVEL	None	6605	1956	651	55064175	55071293	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HSCHR19LRC_PGF1_CTG1	LILRB1	ENSG00000262985	ENST00000572972	protein_coding	KNOWN	None	6605	1959	652	55064222	55071293	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HSCHR19LRC_PGF1_CTG1	LILRB1	ENSG00000262985	ENST00000575328	protein_coding	KNOWN	None	6605	1953	650	55064222	55071293	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HSCHR19LRC_PGF1_CTG1	LILRB1	ENSG00000262985	ENST00000572228	protein_coding	NOVEL	None	6605	1956	651	55064277	55071293	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HSCHR19LRC_PGF1_CTG1	LILRB1	ENSG00000262985	ENST00000573527	protein_coding	NOVEL	None	6605	2106	701	55064398	55070955	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HSCHR19LRC_PGF1_CTG1	LILRB1	ENSG00000262985	ENST00000574358	protein_coding	NOVEL	None	6605	1905	634	55064839	55070841	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HSCHR19LRC_PGF1_CTG1	LILRB1	ENSG00000262985	ENST00000572011	protein_coding	NOVEL	None	6605	1959	652	55064839	55070841	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HSCHR19LRC_PGF1_CTG1	LILRB1	ENSG00000262985	ENST00000575629	nonsense_mediated_decay	KNOWN	None	6605	1533	510	55064839	55070841	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HSCHR19LRC_PGF1_CTG1	LILRB1	ENSG00000262985	ENST00000572804	processed_transcript	KNOWN	None	6605	None	None	55065027	55065820	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HSCHR19LRC_PGF1_CTG1	LILRB1	ENSG00000262985	ENST00000574500	processed_transcript	PUTATIVE	None	6605	None	None	55066891	55067948	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HSCHR19LRC_PGF1_CTG1	LILRB1	ENSG00000262985	ENST00000574660	processed_transcript	KNOWN	None	6605	None	None	55066908	55071293	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HSCHR19LRC_PGF1_CTG1	LILRB1	ENSG00000262985	ENST00000573297	retained_intron	KNOWN	None	6605	None	None	55068136	55069381	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HSCHR19LRC_PGF1_CTG1	LILRB1	ENSG00000262985	ENST00000573952	retained_intron	KNOWN	None	6605	None	None	55068658	55069870	1	None	LIR-1, ILT2, MIR-7, CD85, LIR1, CD85j
HSCHR19LRC_PGF1_CTG1	None	ENSG00000268506	ENST00000594506	lincRNA	KNOWN	None	None	None	None	55023212	55024058	1	None	None
HSCHR19LRC_PGF1_CTG1	LILRA1	ENSG00000262462	ENST00000576621	processed_transcript	KNOWN	None	6602	None	None	55027353	55033491	1	None	LIR-6, CD85i, LIR6
HSCHR19LRC_PGF1_CTG1	LILRA1	ENSG00000262462	ENST00000574712	processed_transcript	KNOWN	None	6602	None	None	55027353	55035648	1	None	LIR-6, CD85i, LIR6
HSCHR19LRC_PGF1_CTG1	LILRA1	ENSG00000262462	ENST00000576139	protein_coding	KNOWN	None	6602	1470	489	55027419	55034846	1	None	LIR-6, CD85i, LIR6
HSCHR19LRC_PGF1_CTG1	LILRA1	ENSG00000262462	ENST00000575055	retained_intron	KNOWN	None	6602	None	None	55027421	55033487	1	None	LIR-6, CD85i, LIR6
HSCHR19LRC_PGF1_CTG1	LILRA1	ENSG00000262462	ENST00000571445	protein_coding	NOVEL	None	6602	870	289	55027431	55035861	1	None	LIR-6, CD85i, LIR6
HSCHR19LRC_PGF1_CTG1	None	ENSG00000263149	ENST00000574189	unprocessed_pseudogene	KNOWN	None	None	None	None	55041643	55042149	1	None	None
HSCHR19LRC_PGF1_CTG1	None	ENSG00000262143	ENST00000572994	protein_coding	PUTATIVE	None	None	201	66	55069487	55072658	-1	None	None
HSCHR19LRC_PGF1_CTG1	LILRB4	ENSG00000263061	ENST00000573707	processed_transcript	KNOWN	None	6608	None	None	55077655	55083366	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
HSCHR19LRC_PGF1_CTG1	LILRB4	ENSG00000263061	ENST00000571535	protein_coding	KNOWN	None	6608	1347	448	55095896	55104128	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
HSCHR19LRC_PGF1_CTG1	LILRB4	ENSG00000263061	ENST00000575788	processed_transcript	KNOWN	None	6608	None	None	55095926	55101468	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
HSCHR19LRC_PGF1_CTG1	LILRB4	ENSG00000263061	ENST00000573775	protein_coding	KNOWN	None	6608	1347	448	55096441	55102162	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
HSCHR19LRC_PGF1_CTG1	LILRB4	ENSG00000263061	ENST00000573271	protein_coding	NOVEL	None	6608	1344	447	55096764	55102166	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
HSCHR19LRC_PGF1_CTG1	LILRB4	ENSG00000263061	ENST00000574609	protein_coding	NOVEL	None	6608	1188	395	55096767	55102166	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
HSCHR19LRC_PGF1_CTG1	LILRB4	ENSG00000263061	ENST00000570601	protein_coding	NOVEL	None	6608	1350	449	55096789	55102166	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
HSCHR19LRC_PGF1_CTG1	LILRB4	ENSG00000263061	ENST00000572897	protein_coding	PUTATIVE	None	6608	1197	398	55096796	55101562	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
HSCHR19LRC_PGF1_CTG1	LILRB4	ENSG00000263061	ENST00000571379	retained_intron	KNOWN	None	6608	None	None	55099567	55101159	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
HSCHR19LRC_PGF1_CTG1	LILRB4	ENSG00000263061	ENST00000576333	processed_transcript	KNOWN	None	6608	None	None	55100055	55100807	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
HSCHR19LRC_PGF1_CTG1	VN1R105P	ENSG00000262220	ENST00000575520	transcribed_processed_pseudogene	KNOWN	None	37428	None	None	55081710	55082619	1	None	None
HSCHR19LRC_PGF1_CTG1	None	ENSG00000263025	ENST00000572775	unprocessed_pseudogene	KNOWN	None	None	None	None	55085852	55085997	1	None	None
HSCHR19LRC_PGF1_CTG1	None	ENSG00000262854	ENST00000573829	unprocessed_pseudogene	KNOWN	None	None	None	None	55105000	55106360	1	None	None
HSCHR19LRC_PGF1_CTG1	LILRP1	ENSG00000263221	ENST00000571683	unprocessed_pseudogene	KNOWN	None	15496	None	None	55130120	55134419	1	None	ILT9, CD85l, LILRA6P
HSCHR19LRC_PGF1_CTG1	None	ENSG00000262437	ENST00000572345	unprocessed_pseudogene	KNOWN	None	None	None	None	55137465	55137748	1	None	None
HSCHR19LRC_PGF1_CTG1	None	ENSG00000263066	ENST00000573118	processed_transcript	KNOWN	None	None	None	None	55141428	55146730	1	None	None
HSCHR19LRC_PGF1_CTG1	LILRP2	ENSG00000262371	ENST00000570800	unprocessed_pseudogene	KNOWN	None	15497	None	None	55142114	55146509	1	None	ILT10, CD85m
HSCHR19LRC_PGF1_CTG1	KIR3DL1	ENSG00000261860	ENST00000576735	protein_coding	KNOWN	None	6338	1368	455	55157745	55300255	1	KIR	cl-2, NKB1, cl-11, nkat3, NKB1B, AMB11, CD158e1/2, CD158e1, CD158e2
HSCHR19LRC_PGF1_CTG1	KIR3DL1	ENSG00000261860	ENST00000572386	protein_coding	KNOWN	None	6338	1335	444	55157751	55264033	1	KIR	cl-2, NKB1, cl-11, nkat3, NKB1B, AMB11, CD158e1/2, CD158e1, CD158e2
HSCHR19LRC_PGF1_CTG1	KIR3DL1	ENSG00000261860	ENST00000576398	protein_coding	KNOWN	None	6338	1284	427	55157754	55264033	1	KIR	cl-2, NKB1, cl-11, nkat3, NKB1B, AMB11, CD158e1/2, CD158e1, CD158e2
HSCHR19LRC_PGF1_CTG1	KIR3DL1	ENSG00000261860	ENST00000575005	protein_coding	KNOWN	None	6338	1335	444	55249721	55264034	1	KIR	cl-2, NKB1, cl-11, nkat3, NKB1B, AMB11, CD158e1/2, CD158e1, CD158e2
HSCHR19LRC_PGF1_CTG1	KIR3DL1	ENSG00000261860	ENST00000575818	protein_coding	NOVEL	None	6338	1284	427	55249740	55264033	1	KIR	cl-2, NKB1, cl-11, nkat3, NKB1B, AMB11, CD158e1/2, CD158e1, CD158e2
HSCHR19LRC_PGF1_CTG1	KIR3DL1	ENSG00000261860	ENST00000573624	protein_coding	NOVEL	None	6338	1050	349	55249743	55264034	1	KIR	cl-2, NKB1, cl-11, nkat3, NKB1B, AMB11, CD158e1/2, CD158e1, CD158e2
HSCHR19LRC_PGF1_CTG1	KIR3DL3	ENSG00000262763	ENST00000573942	protein_coding	KNOWN	None	16312	1233	410	55157760	55169775	1	None	KIRC1, KIR3DL7, KIR44, CD158z
HSCHR19LRC_PGF1_CTG1	None	ENSG00000262638	ENST00000571361	processed_transcript	KNOWN	None	None	None	None	55157777	55231506	1	None	None
HSCHR19LRC_PGF1_CTG1	KIR2DL3	ENSG00000263027	ENST00000576013	protein_coding	KNOWN	None	6331	1026	341	55171751	55186273	1	None	cl-6, nkat2, nkat2a, nkat2b, p58, CD158B2
HSCHR19LRC_PGF1_CTG1	KIR2DL3	ENSG00000263027	ENST00000573758	protein_coding	KNOWN	None	6331	1047	348	55171753	55217545	1	None	cl-6, nkat2, nkat2a, nkat2b, p58, CD158B2
HSCHR19LRC_PGF1_CTG1	KIR2DP1	ENSG00000263260	ENST00000575050	unprocessed_pseudogene	KNOWN	None	16344	None	None	55188244	55200592	1	None	KIRZ, KIRY, KIR15, KIR2DL6
HSCHR19LRC_PGF1_CTG1	KIR2DL1	ENSG00000262556	ENST00000575765	protein_coding	KNOWN	None	6329	1047	348	55203032	55217543	1	None	cl-42, nkat1, 47.11, p58.1, CD158A
HSCHR19LRC_PGF1_CTG1	KIR2DL1	ENSG00000262556	ENST00000571905	protein_coding	NOVEL	None	6329	1125	374	55203046	55217086	1	None	cl-42, nkat1, 47.11, p58.1, CD158A
HSCHR19LRC_PGF1_CTG1	KIR3DP1	ENSG00000264945	ENST00000579792	transcribed_unprocessed_pseudogene	KNOWN	None	16343	None	None	55219576	55223539	1	None	KIRX, KIR48, KIR2DS6, KIR3DS2P, CD158C
HSCHR19LRC_PGF1_CTG1	None	ENSG00000267854	ENST00000597239	protein_coding	KNOWN	None	None	1251	416	55236659	55247769	1	None	None
HSCHR19LRC_PGF1_CTG1	KIR3DL2	ENSG00000263184	ENST00000576605	protein_coding	KNOWN	None	6339	1368	455	55283720	55300469	1	None	cl-5, nkat4, nkat4a, nkat4b, CD158K
HSCHR19LRC_PGF1_CTG1	KIR3DL2	ENSG00000263184	ENST00000574156	protein_coding	NOVEL	None	6339	1317	438	55283753	55300222	1	None	cl-5, nkat4, nkat4a, nkat4b, CD158K
HSCHR19LRC_PGF1_CTG1	FCAR	ENSG00000262827	ENST00000571746	protein_coding	KNOWN	None	3608	540	179	55307510	55323142	1	None	CD89
HSCHR19LRC_PGF1_CTG1	FCAR	ENSG00000262827	ENST00000572089	protein_coding	KNOWN	None	3608	720	239	55307542	55322319	1	None	CD89
HSCHR19LRC_PGF1_CTG1	FCAR	ENSG00000262827	ENST00000574664	nonsense_mediated_decay	KNOWN	None	3608	684	227	55307542	55322319	1	None	CD89
HSCHR19LRC_PGF1_CTG1	FCAR	ENSG00000262827	ENST00000576588	processed_transcript	KNOWN	None	3608	None	None	55307542	55323115	1	None	CD89
HSCHR19LRC_PGF1_CTG1	FCAR	ENSG00000262827	ENST00000576265	protein_coding	KNOWN	None	3608	864	287	55307542	55323724	1	None	CD89
HSCHR19LRC_PGF1_CTG1	FCAR	ENSG00000262827	ENST00000573433	protein_coding	KNOWN	None	3608	798	265	55307547	55323142	1	None	CD89
HSCHR19LRC_PGF1_CTG1	FCAR	ENSG00000262827	ENST00000574058	protein_coding	KNOWN	None	3608	576	191	55307547	55323142	1	None	CD89
HSCHR19LRC_PGF1_CTG1	FCAR	ENSG00000262827	ENST00000574238	protein_coding	KNOWN	None	3608	537	178	55307552	55323115	1	None	CD89
HSCHR19LRC_PGF1_CTG1	FCAR	ENSG00000262827	ENST00000575074	protein_coding	KNOWN	None	3608	828	275	55307552	55323115	1	None	CD89
HSCHR19LRC_PGF1_CTG1	FCAR	ENSG00000262827	ENST00000573273	protein_coding	KNOWN	None	3608	630	209	55307552	55323115	1	None	CD89
HSCHR19LRC_PGF1_CTG1	FCAR	ENSG00000262827	ENST00000574738	protein_coding	KNOWN	None	3608	762	253	55307552	55323115	1	None	CD89
HSCHR19LRC_PGF1_CTG1	FCAR	ENSG00000262827	ENST00000576246	processed_transcript	KNOWN	None	3608	None	None	55307552	55323115	1	None	CD89
HSCHR19LRC_PGF1_CTG1	FCAR	ENSG00000262827	ENST00000572340	processed_transcript	KNOWN	None	3608	None	None	55307552	55323115	1	None	CD89
HSCHR19LRC_PGF1_CTG1	None	ENSG00000267925	ENST00000598964	lincRNA	KNOWN	None	None	None	None	55323925	55324672	1	None	None
HSCHR19LRC_PGF1_CTG1	NCR1	ENSG00000262717	ENST00000571651	protein_coding	KNOWN	None	6731	915	304	55339394	55346310	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_PGF1_CTG1	NCR1	ENSG00000262717	ENST00000572865	protein_coding	KNOWN	None	6731	912	303	55339394	55346308	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_PGF1_CTG1	NCR1	ENSG00000262717	ENST00000596773	retained_intron	KNOWN	None	6731	None	None	55339399	55340022	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_PGF1_CTG1	NCR1	ENSG00000262717	ENST00000595744	retained_intron	KNOWN	None	6731	None	None	55339399	55342592	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_PGF1_CTG1	NCR1	ENSG00000262717	ENST00000596810	protein_coding	NOVEL	None	6731	876	291	55339400	55346196	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_PGF1_CTG1	NCR1	ENSG00000262717	ENST00000594615	protein_coding	KNOWN	None	6731	912	303	55339407	55349377	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_PGF1_CTG1	NCR1	ENSG00000262717	ENST00000574101	protein_coding	KNOWN	None	6731	630	209	55339425	55346210	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_PGF1_CTG1	NCR1	ENSG00000262717	ENST00000573445	protein_coding	KNOWN	None	6731	864	287	55339425	55346210	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_PGF1_CTG1	NCR1	ENSG00000262717	ENST00000571446	protein_coding	NOVEL	None	6731	594	197	55339432	55346108	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_PGF1_CTG1	None	ENSG00000269459	ENST00000594718	protein_coding	NOVEL	None	None	3267	1088	55356752	55397872	-1	None	None
HSCHR19LRC_PGF1_CTG1	None	ENSG00000269459	ENST00000599824	protein_coding	NOVEL	None	None	2943	980	55356752	55397872	-1	None	None
HSCHR19LRC_PGF1_CTG1	None	ENSG00000269459	ENST00000600360	protein_coding	NOVEL	None	None	3198	1065	55356752	55397872	-1	None	None
HSCHR19LRC_PGF1_CTG1	None	ENSG00000266982	ENST00000592742	antisense	KNOWN	None	None	None	None	55384879	55385838	1	None	None
HSCHR19LRC_PGF1_CTG1	None	ENSG00000263173	ENST00000575653	processed_pseudogene	KNOWN	None	None	None	None	55405459	55406059	1	None	None
HSCHR19LRC_PGF1_CTG1	None	ENSG00000267525	ENST00000586161	antisense	KNOWN	None	None	None	None	55437862	55479755	1	None	None
HSCHR19LRC_PGF1_CTG1	None	ENSG00000267525	ENST00000590356	antisense	KNOWN	None	None	None	None	55437874	55474920	1	None	None
HSCHR19LRC_PGF1_CTG1	None	ENSG00000267525	ENST00000592177	antisense	KNOWN	None	None	None	None	55459291	55475986	1	None	None
HSCHR19LRC_PGF1_CTG1	GP6	ENSG00000262797	ENST00000572791	protein_coding	KNOWN	None	14388	1020	339	55445374	55469933	-1	None	GPVI
HSCHR19LRC_PGF1_CTG1	GP6	ENSG00000262797	ENST00000571040	protein_coding	KNOWN	None	14388	1863	620	55445374	55469933	-1	None	GPVI
HSCHR19LRC_PGF1_CTG1	GP6	ENSG00000262797	ENST00000573811	protein_coding	KNOWN	None	14388	966	321	55445374	55469933	-1	None	GPVI
HSCHR19LRC_PGF1_CTG1	GP6	ENSG00000262797	ENST00000572435	retained_intron	KNOWN	None	14388	None	None	55446195	55450488	-1	None	GPVI
HSCHR19LRC_PGF1_CTG1	GP6	ENSG00000262797	ENST00000571344	protein_coding	PUTATIVE	None	14388	352	116	55459274	55464534	-1	None	GPVI
HSCHR19LRC_PGF1_CTG1	None	ENSG00000267540	ENST00000593247	processed_transcript	KNOWN	None	None	None	None	55459262	55485597	-1	None	None
HSCHR19LRC_PGF1_CTG1	None	ENSG00000267540	ENST00000588339	processed_transcript	KNOWN	None	None	None	None	55473708	55476618	-1	None	None
HSCHR19LRC_PGF1_CTG1	RDH13	ENSG00000263258	ENST00000586623	processed_transcript	KNOWN	None	19978	None	None	55470777	55474776	-1	None	SDR7C3
HSCHR19LRC_PGF1_CTG1	RDH13	ENSG00000263258	ENST00000587221	processed_transcript	KNOWN	None	19978	None	None	55470780	55473558	-1	None	SDR7C3
HSCHR19LRC_PGF1_CTG1	RDH13	ENSG00000263258	ENST00000588029	nonsense_mediated_decay	KNOWN	None	19978	108	35	55470780	55494745	-1	None	SDR7C3
HSCHR19LRC_PGF1_CTG1	RDH13	ENSG00000263258	ENST00000573777	protein_coding	KNOWN	None	19978	996	331	55476012	55494845	-1	None	SDR7C3
HSCHR19LRC_PGF1_CTG1	RDH13	ENSG00000263258	ENST00000576611	nonsense_mediated_decay	KNOWN	None	19978	663	220	55476012	55495502	-1	None	SDR7C3
HSCHR19LRC_PGF1_CTG1	RDH13	ENSG00000263258	ENST00000576043	protein_coding	KNOWN	None	19978	783	260	55476012	55501198	-1	None	SDR7C3
HSCHR19LRC_PGF1_CTG1	RDH13	ENSG00000263258	ENST00000590814	nonsense_mediated_decay	KNOWN	None	19978	663	220	55476524	55494755	-1	None	SDR7C3
HSCHR19LRC_PGF1_CTG1	RDH13	ENSG00000263258	ENST00000588747	nonsense_mediated_decay	KNOWN	None	19978	108	35	55479082	55494817	-1	None	SDR7C3
HSCHR19LRC_PGF1_CTG1	RDH13	ENSG00000263258	ENST00000588827	processed_transcript	KNOWN	None	19978	None	None	55480326	55490843	-1	None	SDR7C3
HSCHR19LRC_PGF1_CTG1	RDH13	ENSG00000263258	ENST00000589612	processed_transcript	KNOWN	None	19978	None	None	55482543	55494788	-1	None	SDR7C3
HSCHR19LRC_PGF1_CTG1	RDH13	ENSG00000263258	ENST00000588153	protein_coding	KNOWN	None	19978	127	41	55488322	55501198	-1	None	SDR7C3
HSCHR19LRC_PGF1_CTG1	RDH13	ENSG00000263258	ENST00000592973	protein_coding	KNOWN	None	19978	88	28	55490922	55501209	-1	None	SDR7C3
HSCHR19LRC_PGF1_CTG1	RDH13	ENSG00000263258	ENST00000586455	processed_transcript	KNOWN	None	19978	None	None	55494710	55496037	-1	None	SDR7C3
HSCHR19LRC_PGF1_CTG1	RDH13	ENSG00000263258	ENST00000585777	processed_transcript	KNOWN	None	19978	None	None	55494889	55501209	-1	None	SDR7C3
HSCHR19LRC_PGF1_CTG1	RDH13	ENSG00000263258	ENST00000592233	processed_transcript	KNOWN	None	19978	None	None	55494940	55501189	-1	None	SDR7C3
HSCHR19LRC_PGF1_CTG1	RDH13	ENSG00000263258	ENST00000587523	processed_transcript	KNOWN	None	19978	None	None	55495177	55501192	-1	None	SDR7C3
HSCHR19LRC_PGF1_CTG1	RDH13	ENSG00000263258	ENST00000591905	processed_transcript	KNOWN	None	19978	None	None	55495421	55501160	-1	None	SDR7C3
HSCHR19LRC_PGF1_CTG1	RDH13	ENSG00000263258	ENST00000588624	processed_transcript	KNOWN	None	19978	None	None	55495570	55501200	-1	None	SDR7C3
HSCHR19LRC_PGF1_CTG1	RDH13	ENSG00000263258	ENST00000591044	processed_transcript	KNOWN	None	19978	None	None	55495617	55502960	-1	None	SDR7C3
HSCHR19LRC_PGF1_CTG1	RDH13	ENSG00000263258	ENST00000589756	processed_transcript	KNOWN	None	19978	None	None	55495709	55501561	-1	None	SDR7C3
HSCHR19LRC_PGF1_CTG1	RDH13	ENSG00000263258	ENST00000585555	processed_transcript	KNOWN	None	19978	None	None	55498864	55501171	-1	None	SDR7C3
HSCHR19LRC_PGF1_CTG1	EPS8L1	ENSG00000262878	ENST00000593221	protein_coding	NOVEL	None	21295	1647	548	55503689	55519588	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_PGF1_CTG1	EPS8L1	ENSG00000262878	ENST00000592356	processed_transcript	KNOWN	None	21295	None	None	55507522	55515654	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_PGF1_CTG1	EPS8L1	ENSG00000262878	ENST00000592817	retained_intron	KNOWN	None	21295	None	None	55507557	55512045	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_PGF1_CTG1	EPS8L1	ENSG00000262878	ENST00000574658	protein_coding	KNOWN	None	21295	2172	723	55507570	55519591	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_PGF1_CTG1	EPS8L1	ENSG00000262878	ENST00000575215	protein_coding	NOVEL	None	21295	1980	659	55507572	55519517	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_PGF1_CTG1	EPS8L1	ENSG00000262878	ENST00000590122	nonsense_mediated_decay	KNOWN	None	21295	1287	428	55508025	55517561	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_PGF1_CTG1	EPS8L1	ENSG00000262878	ENST00000590007	retained_intron	KNOWN	None	21295	None	None	55511254	55511852	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_PGF1_CTG1	EPS8L1	ENSG00000262878	ENST00000591670	protein_coding	NOVEL	None	21295	1230	409	55512061	55519358	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_PGF1_CTG1	EPS8L1	ENSG00000262878	ENST00000574553	protein_coding	KNOWN	None	21295	1791	596	55512061	55519588	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_PGF1_CTG1	EPS8L1	ENSG00000262878	ENST00000586326	retained_intron	KNOWN	None	21295	None	None	55512106	55512996	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_PGF1_CTG1	EPS8L1	ENSG00000262878	ENST00000591873	retained_intron	KNOWN	None	21295	None	None	55512701	55513543	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_PGF1_CTG1	EPS8L1	ENSG00000262878	ENST00000588754	retained_intron	KNOWN	None	21295	None	None	55513361	55515073	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_PGF1_CTG1	EPS8L1	ENSG00000262878	ENST00000588035	retained_intron	KNOWN	None	21295	None	None	55513362	55515149	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_PGF1_CTG1	EPS8L1	ENSG00000262878	ENST00000591525	retained_intron	KNOWN	None	21295	None	None	55513362	55519591	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_PGF1_CTG1	EPS8L1	ENSG00000262878	ENST00000585717	retained_intron	KNOWN	None	21295	None	None	55513607	55519592	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_PGF1_CTG1	EPS8L1	ENSG00000262878	ENST00000588175	processed_transcript	KNOWN	None	21295	None	None	55516134	55518104	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_PGF1_CTG1	EPS8L1	ENSG00000262878	ENST00000591186	retained_intron	KNOWN	None	21295	None	None	55517364	55517861	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_PGF1_CTG1	EPS8L1	ENSG00000262878	ENST00000590725	processed_transcript	KNOWN	None	21295	None	None	55518446	55519589	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_PGF1_CTG1	EPS8L1	ENSG00000262878	ENST00000589320	retained_intron	KNOWN	None	21295	None	None	55518738	55519574	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_PGF2_CTG1	VSTM1	ENSG00000272388	ENST00000604251	protein_coding	NOVEL	None	29455	381	126	54544079	54561677	-1	None	UNQ3033
HSCHR19LRC_PGF2_CTG1	VSTM1	ENSG00000272388	ENST00000604425	protein_coding	KNOWN	None	29455	711	236	54544079	54567207	-1	None	UNQ3033
HSCHR19LRC_PGF2_CTG1	VSTM1	ENSG00000272388	ENST00000603783	nonsense_mediated_decay	KNOWN	None	29455	525	174	54544083	54567207	-1	None	UNQ3033
HSCHR19LRC_PGF2_CTG1	VSTM1	ENSG00000272388	ENST00000604379	protein_coding	KNOWN	None	29455	618	205	54544087	54567207	-1	None	UNQ3033
HSCHR19LRC_PGF2_CTG1	VSTM1	ENSG00000272388	ENST00000604470	protein_coding	KNOWN	None	29455	447	148	54544204	54567042	-1	None	UNQ3033
HSCHR19LRC_PGF2_CTG1	VSTM1	ENSG00000272388	ENST00000604635	protein_coding	KNOWN	None	29455	432	143	54544204	54567042	-1	None	UNQ3033
HSCHR19LRC_PGF2_CTG1	TARM1	ENSG00000271957	ENST00000575525	protein_coding	PUTATIVE	None	37250	840	279	54573149	54579813	-1	None	None
HSCHR19LRC_PGF2_CTG1	TARM1	ENSG00000271957	ENST00000574636	protein_coding	KNOWN	None	37250	816	271	54573201	54584634	-1	None	None
HSCHR19LRC_PGF2_CTG1	OSCAR	ENSG00000271865	ENST00000573655	protein_coding	PUTATIVE	None	29960	816	271	54597933	54604083	-1	None	None
HSCHR19LRC_PGF2_CTG1	OSCAR	ENSG00000271865	ENST00000576430	protein_coding	KNOWN	None	29960	804	267	54597935	54604083	-1	None	None
HSCHR19LRC_PGF2_CTG1	OSCAR	ENSG00000271865	ENST00000572943	protein_coding	PUTATIVE	None	29960	861	286	54597935	54604106	-1	None	None
HSCHR19LRC_PGF2_CTG1	OSCAR	ENSG00000271865	ENST00000571840	protein_coding	KNOWN	None	29960	792	263	54597935	54604129	-1	None	None
HSCHR19LRC_PGF2_CTG1	OSCAR	ENSG00000271865	ENST00000570944	protein_coding	KNOWN	None	29960	759	252	54597935	54604148	-1	None	None
HSCHR19LRC_PGF2_CTG1	OSCAR	ENSG00000271865	ENST00000571211	protein_coding	NOVEL	None	29960	849	282	54597935	54606000	-1	None	None
HSCHR19LRC_PGF2_CTG1	OSCAR	ENSG00000271865	ENST00000575597	protein_coding	PUTATIVE	None	29960	486	161	54599039	54604132	-1	None	None
HSCHR19LRC_PGF2_CTG1	NDUFA3	ENSG00000272487	ENST00000570422	nonsense_mediated_decay	KNOWN	None	7686	198	65	54606036	54610268	1	None	B9
HSCHR19LRC_PGF2_CTG1	NDUFA3	ENSG00000272487	ENST00000571050	nonsense_mediated_decay	KNOWN	None	7686	255	84	54606129	54612011	1	None	B9
HSCHR19LRC_PGF2_CTG1	NDUFA3	ENSG00000272487	ENST00000573732	protein_coding	KNOWN	None	7686	255	84	54606145	54610875	1	None	B9
HSCHR19LRC_PGF2_CTG1	NDUFA3	ENSG00000272487	ENST00000571300	protein_coding	PUTATIVE	None	7686	219	72	54606160	54610268	1	None	B9
HSCHR19LRC_PGF2_CTG1	NDUFA3	ENSG00000272487	ENST00000570362	protein_coding	PUTATIVE	None	7686	222	73	54606163	54609777	1	None	B9
HSCHR19LRC_PGF2_CTG1	NDUFA3	ENSG00000272487	ENST00000572532	nonsense_mediated_decay	KNOWN	None	7686	198	65	54606163	54610268	1	None	B9
HSCHR19LRC_PGF2_CTG1	NDUFA3	ENSG00000272487	ENST00000571965	protein_coding	PUTATIVE	None	7686	186	61	54606177	54610272	1	None	B9
HSCHR19LRC_PGF2_CTG1	NDUFA3	ENSG00000272487	ENST00000576698	protein_coding	PUTATIVE	None	7686	246	81	54606177	54611840	1	None	B9
HSCHR19LRC_PGF2_CTG1	NDUFA3	ENSG00000272487	ENST00000572138	retained_intron	KNOWN	None	7686	None	None	54606185	54610268	1	None	B9
HSCHR19LRC_PGF2_CTG1	NDUFA3	ENSG00000272487	ENST00000571701	protein_coding	PUTATIVE	None	7686	126	41	54606193	54610268	1	None	B9
HSCHR19LRC_PGF2_CTG1	NDUFA3	ENSG00000272487	ENST00000576127	nonsense_mediated_decay	KNOWN	None	7686	209	68	54606422	54612033	1	None	B9
HSCHR19LRC_PGF2_CTG1	NDUFA3	ENSG00000272487	ENST00000571179	protein_coding	PUTATIVE	None	7686	103	33	54609272	54610268	1	None	B9
HSCHR19LRC_PGF2_CTG1	NDUFA3	ENSG00000272487	ENST00000575144	processed_transcript	KNOWN	None	7686	None	None	54611854	54612236	1	None	B9
HSCHR19LRC_PGF2_CTG1	NDUFA3	ENSG00000272487	ENST00000575371	processed_transcript	KNOWN	None	7686	None	None	54612011	54612564	1	None	B9
HSCHR19LRC_PGF2_CTG1	TFPT	ENSG00000271990	ENST00000576425	protein_coding	KNOWN	None	13630	762	253	54610320	54619055	-1	None	FB1, amida, INO80F
HSCHR19LRC_PGF2_CTG1	TFPT	ENSG00000271990	ENST00000573733	protein_coding	PUTATIVE	None	13630	735	244	54610327	54618454	-1	None	FB1, amida, INO80F
HSCHR19LRC_PGF2_CTG1	TFPT	ENSG00000271990	ENST00000573181	nonsense_mediated_decay	KNOWN	None	13630	318	105	54610327	54618665	-1	None	FB1, amida, INO80F
HSCHR19LRC_PGF2_CTG1	TFPT	ENSG00000271990	ENST00000570956	protein_coding	PUTATIVE	None	13630	582	193	54610327	54618668	-1	None	FB1, amida, INO80F
HSCHR19LRC_PGF2_CTG1	PRPF31	ENSG00000272481	ENST00000574214	protein_coding	KNOWN	None	15446	1500	499	54618837	54635140	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_PGF2_CTG1	PRPF31	ENSG00000272481	ENST00000576344	protein_coding	KNOWN	None	15446	853	283	54619134	54628033	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_PGF2_CTG1	PRPF31	ENSG00000272481	ENST00000575095	protein_coding	KNOWN	None	15446	1353	450	54619151	54635140	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_PGF2_CTG1	PRPF31	ENSG00000272481	ENST00000575798	protein_coding	KNOWN	None	15446	829	275	54619159	54628009	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_PGF2_CTG1	PRPF31	ENSG00000272481	ENST00000575006	protein_coding	KNOWN	None	15446	782	259	54619189	54627962	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_PGF2_CTG1	PRPF31	ENSG00000272481	ENST00000573799	protein_coding	NOVEL	None	15446	1482	493	54621651	54635140	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_PGF2_CTG1	PRPF31	ENSG00000272481	ENST00000570420	retained_intron	KNOWN	None	15446	None	None	54621786	54622191	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_PGF2_CTG1	PRPF31	ENSG00000272481	ENST00000571385	retained_intron	KNOWN	None	15446	None	None	54621789	54635140	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_PGF2_CTG1	PRPF31	ENSG00000272481	ENST00000572504	processed_transcript	KNOWN	None	15446	None	None	54621993	54631572	1	RP11	NY-BR-99, PRP31, hPrp31, SNRNP61
HSCHR19LRC_PGF2_CTG1	None	ENSG00000271994	ENST00000577049	antisense	KNOWN	None	None	None	None	54622891	54628722	-1	None	None
HSCHR19LRC_PGF2_CTG1	CNOT3	ENSG00000271951	ENST00000575585	protein_coding	KNOWN	None	7879	2262	753	54641444	54659419	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_PGF2_CTG1	CNOT3	ENSG00000271951	ENST00000571119	protein_coding	KNOWN	None	7879	1716	571	54641449	54657242	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_PGF2_CTG1	CNOT3	ENSG00000271951	ENST00000573112	retained_intron	KNOWN	None	7879	None	None	54641503	54659418	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_PGF2_CTG1	CNOT3	ENSG00000271951	ENST00000570970	protein_coding	KNOWN	None	7879	2262	753	54645112	54659418	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_PGF2_CTG1	CNOT3	ENSG00000271951	ENST00000571649	protein_coding	NOVEL	None	7879	1125	374	54647466	54652432	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_PGF2_CTG1	CNOT3	ENSG00000271951	ENST00000573419	nonsense_mediated_decay	KNOWN	None	7879	319	105	54647473	54659419	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_PGF2_CTG1	CNOT3	ENSG00000271951	ENST00000575489	protein_coding	PUTATIVE	None	7879	865	287	54653295	54658192	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_PGF2_CTG1	CNOT3	ENSG00000271951	ENST00000574335	processed_transcript	KNOWN	None	7879	None	None	54653465	54657556	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_PGF2_CTG1	CNOT3	ENSG00000271951	ENST00000576375	retained_intron	KNOWN	None	7879	None	None	54656740	54659419	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_PGF2_CTG1	CNOT3	ENSG00000271951	ENST00000575873	protein_coding	NOVEL	None	7879	267	88	54657461	54659419	1	NOT3	NOT3H, KIAA0691, LENG2
HSCHR19LRC_PGF2_CTG1	LENG1	ENSG00000271879	ENST00000571795	protein_coding	KNOWN	None	15502	795	264	54658899	54663620	-1	None	None
HSCHR19LRC_PGF2_CTG1	TMC4	ENSG00000272041	ENST00000574890	retained_intron	KNOWN	None	22998	None	None	54663846	54664386	-1	None	None
HSCHR19LRC_PGF2_CTG1	TMC4	ENSG00000272041	ENST00000573024	nonsense_mediated_decay	KNOWN	None	22998	168	55	54663846	54664709	-1	None	None
HSCHR19LRC_PGF2_CTG1	TMC4	ENSG00000272041	ENST00000574896	retained_intron	KNOWN	None	22998	None	None	54663846	54668450	-1	None	None
HSCHR19LRC_PGF2_CTG1	TMC4	ENSG00000272041	ENST00000570936	protein_coding	KNOWN	None	22998	2121	706	54663846	54676865	-1	None	None
HSCHR19LRC_PGF2_CTG1	TMC4	ENSG00000272041	ENST00000573249	protein_coding	KNOWN	None	22998	885	294	54663847	54667425	-1	None	None
HSCHR19LRC_PGF2_CTG1	TMC4	ENSG00000272041	ENST00000574359	protein_coding	NOVEL	None	22998	2139	712	54663902	54676944	-1	None	None
HSCHR19LRC_PGF2_CTG1	TMC4	ENSG00000272041	ENST00000576838	retained_intron	KNOWN	None	22998	None	None	54665074	54667213	-1	None	None
HSCHR19LRC_PGF2_CTG1	TMC4	ENSG00000272041	ENST00000573589	retained_intron	KNOWN	None	22998	None	None	54665962	54667000	-1	None	None
HSCHR19LRC_PGF2_CTG1	TMC4	ENSG00000272041	ENST00000570912	processed_transcript	KNOWN	None	22998	None	None	54666841	54676854	-1	None	None
HSCHR19LRC_PGF2_CTG1	TMC4	ENSG00000272041	ENST00000572846	processed_transcript	KNOWN	None	22998	None	None	54668273	54675718	-1	None	None
HSCHR19LRC_PGF2_CTG1	TMC4	ENSG00000272041	ENST00000573413	retained_intron	KNOWN	None	22998	None	None	54668286	54672208	-1	None	None
HSCHR19LRC_PGF2_CTG1	TMC4	ENSG00000272041	ENST00000576374	protein_coding	NOVEL	None	22998	527	174	54671897	54676447	-1	None	None
HSCHR19LRC_PGF2_CTG1	MBOAT7	ENSG00000272118	ENST00000576648	protein_coding	KNOWN	None	15505	1200	399	54677107	54693733	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_PGF2_CTG1	MBOAT7	ENSG00000272118	ENST00000573336	nonsense_mediated_decay	KNOWN	None	15505	213	70	54677109	54693294	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_PGF2_CTG1	MBOAT7	ENSG00000272118	ENST00000572955	protein_coding	PUTATIVE	None	15505	1200	399	54677109	54693419	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_PGF2_CTG1	MBOAT7	ENSG00000272118	ENST00000573438	protein_coding	KNOWN	None	15505	1419	472	54677109	54693666	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_PGF2_CTG1	MBOAT7	ENSG00000272118	ENST00000571919	retained_intron	KNOWN	None	15505	None	None	54677113	54684507	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_PGF2_CTG1	MBOAT7	ENSG00000272118	ENST00000573620	protein_coding	PUTATIVE	None	15505	372	123	54677768	54692132	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_PGF2_CTG1	MBOAT7	ENSG00000272118	ENST00000570433	protein_coding	PUTATIVE	None	15505	1035	344	54682054	54693523	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_PGF2_CTG1	MBOAT7	ENSG00000272118	ENST00000572327	protein_coding	PUTATIVE	None	15505	545	180	54683380	54687517	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_PGF2_CTG1	MBOAT7	ENSG00000272118	ENST00000571893	protein_coding	PUTATIVE	None	15505	768	255	54684576	54693146	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_PGF2_CTG1	MBOAT7	ENSG00000272118	ENST00000571557	protein_coding	KNOWN	None	15505	511	169	54684833	54693195	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_PGF2_CTG1	MBOAT7	ENSG00000272118	ENST00000572091	retained_intron	KNOWN	None	15505	None	None	54684841	54692266	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_PGF2_CTG1	MBOAT7	ENSG00000272118	ENST00000571333	processed_transcript	KNOWN	None	15505	None	None	54687404	54693400	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_PGF2_CTG1	MBOAT7	ENSG00000272118	ENST00000575364	retained_intron	KNOWN	None	15505	None	None	54690838	54693211	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_PGF2_CTG1	MBOAT7	ENSG00000272118	ENST00000573064	processed_transcript	KNOWN	None	15505	None	None	54691168	54693420	-1	LENG4	BB1, hMBOA-7, LPIAT
HSCHR19LRC_PGF2_CTG1	TSEN34	ENSG00000272131	ENST00000576973	protein_coding	KNOWN	None	15506	727	241	54693789	54696206	1	LENG5	SEN34, SEN34L
HSCHR19LRC_PGF2_CTG1	TSEN34	ENSG00000272131	ENST00000570806	protein_coding	PUTATIVE	None	15506	754	250	54694119	54696224	1	LENG5	SEN34, SEN34L
HSCHR19LRC_PGF2_CTG1	TSEN34	ENSG00000272131	ENST00000572746	protein_coding	KNOWN	None	15506	933	310	54694119	54697521	1	LENG5	SEN34, SEN34L
HSCHR19LRC_PGF2_CTG1	TSEN34	ENSG00000272131	ENST00000575340	protein_coding	KNOWN	None	15506	939	312	54694138	54697585	1	LENG5	SEN34, SEN34L
HSCHR19LRC_PGF2_CTG1	TSEN34	ENSG00000272131	ENST00000572492	retained_intron	KNOWN	None	15506	None	None	54694194	54697521	1	LENG5	SEN34, SEN34L
HSCHR19LRC_PGF2_CTG1	TSEN34	ENSG00000272131	ENST00000575240	protein_coding	KNOWN	None	15506	933	310	54694582	54697521	1	LENG5	SEN34, SEN34L
HSCHR19LRC_PGF2_CTG1	TSEN34	ENSG00000272131	ENST00000571364	protein_coding	KNOWN	None	15506	933	310	54695104	54697521	1	LENG5	SEN34, SEN34L
HSCHR19LRC_PGF2_CTG1	None	ENSG00000272315	ENST00000600334	lincRNA	KNOWN	None	None	None	None	54697731	54698394	1	None	None
HSCHR19LRC_PGF2_CTG1	None	ENSG00000271805	ENST00000577091	antisense	KNOWN	None	None	None	None	54703321	54703838	-1	None	None
HSCHR19LRC_PGF2_CTG1	None	ENSG00000271731	ENST00000570816	protein_coding	NOVEL	None	None	585	194	54704726	54711511	1	None	None
HSCHR19LRC_PGF2_CTG1	None	ENSG00000271750	ENST00000575493	unprocessed_pseudogene	KNOWN	None	None	None	None	54712960	54713286	-1	None	None
HSCHR19LRC_PGF2_CTG1	None	ENSG00000262630	ENST00000576704	protein_coding	NOVEL	None	None	1896	631	54720147	54746736	-1	None	None
HSCHR19LRC_PGF2_CTG1	None	ENSG00000262630	ENST00000605489	protein_coding	NOVEL	None	None	1941	646	54720737	54746674	-1	None	None
HSCHR19LRC_PGF2_CTG1	None	ENSG00000262630	ENST00000604151	protein_coding	NOVEL	None	None	1950	649	54720737	54746674	-1	None	None
HSCHR19LRC_PGF2_CTG1	None	ENSG00000262630	ENST00000572377	protein_coding	NOVEL	None	None	1446	481	54742827	54746674	-1	None	None
HSCHR19LRC_PGF2_CTG1	None	ENSG00000262414	ENST00000572625	unprocessed_pseudogene	KNOWN	None	None	None	None	54749978	54751212	-1	None	None
HSCHR19LRC_PGF2_CTG1	LILRB5	ENSG00000263021	ENST00000575516	protein_coding	KNOWN	None	6609	1773	590	54754289	54761190	-1	None	LIR-8, LIR8, CD85c
HSCHR19LRC_PGF2_CTG1	LILRB5	ENSG00000263021	ENST00000571779	protein_coding	KNOWN	None	6609	1869	622	54754295	54761160	-1	None	LIR-8, LIR8, CD85c
HSCHR19LRC_PGF2_CTG1	LILRB5	ENSG00000263021	ENST00000576877	retained_intron	KNOWN	None	6609	None	None	54754315	54761181	-1	None	LIR-8, LIR8, CD85c
HSCHR19LRC_PGF2_CTG1	LILRB5	ENSG00000263021	ENST00000571036	protein_coding	NOVEL	None	6609	1476	491	54754357	54761151	-1	None	LIR-8, LIR8, CD85c
HSCHR19LRC_PGF2_CTG1	LILRB5	ENSG00000263021	ENST00000576654	protein_coding	KNOWN	None	6609	1776	591	54754386	54761153	-1	None	LIR-8, LIR8, CD85c
HSCHR19LRC_PGF2_CTG1	LILRB5	ENSG00000263021	ENST00000573822	retained_intron	KNOWN	None	6609	None	None	54754436	54761134	-1	None	LIR-8, LIR8, CD85c
HSCHR19LRC_PGF2_CTG1	None	ENSG00000262035	ENST00000573970	processed_pseudogene	KNOWN	None	None	None	None	54771884	54772924	1	None	None
HSCHR19LRC_PGF2_CTG1	None	ENSG00000262065	ENST00000572034	processed_pseudogene	KNOWN	None	None	None	None	54771885	54772927	1	None	None
HSCHR19LRC_PGF2_CTG1	None	ENSG00000262297	ENST00000573372	unprocessed_pseudogene	KNOWN	None	None	None	None	54797929	54798246	-1	None	None
HSCHR19LRC_PGF2_CTG1	LILRA3	ENSG00000262383	ENST00000577107	protein_coding	NOVEL	None	6604	1128	375	54799881	54804200	-1	None	LIR-4, HM43, ILT6, HM31, LIR4, CD85e
HSCHR19LRC_PGF2_CTG1	LILRA3	ENSG00000262383	ENST00000575965	protein_coding	KNOWN	None	6604	1320	439	54799881	54804292	-1	None	LIR-4, HM43, ILT6, HM31, LIR4, CD85e
HSCHR19LRC_PGF2_CTG1	LILRA3	ENSG00000262383	ENST00000571164	protein_coding	PUTATIVE	None	6604	1371	456	54799881	54809979	-1	None	LIR-4, HM43, ILT6, HM31, LIR4, CD85e
HSCHR19LRC_PGF2_CTG1	None	ENSG00000262724	ENST00000574171	unprocessed_pseudogene	KNOWN	None	None	None	None	54808741	54809450	-1	None	None
HSCHR19LRC_PGF2_CTG1	None	ENSG00000262715	ENST00000573096	unprocessed_pseudogene	KNOWN	None	None	None	None	54812330	54816445	-1	None	None
HSCHR19LRC_PGF2_CTG1	None	ENSG00000262843	ENST00000571857	protein_coding	NOVEL	None	None	900	299	54817736	54823469	-1	None	None
HSCHR19LRC_PGF2_CTG1	VN1R104P	ENSG00000263180	ENST00000574350	unprocessed_pseudogene	KNOWN	None	37427	None	None	54830590	54831598	-1	None	None
HSCHR19LRC_PGF2_CTG1	None	ENSG00000262178	ENST00000573530	unprocessed_pseudogene	KNOWN	None	None	None	None	54838658	54841820	-1	None	None
HSCHR19LRC_PGF2_CTG1	LILRA4	ENSG00000261929	ENST00000574300	protein_coding	KNOWN	None	15503	1500	499	54843570	54849537	-1	None	ILT7, CD85g
HSCHR19LRC_PGF2_CTG1	LILRA4	ENSG00000261929	ENST00000596913	non_stop_decay	KNOWN	None	15503	421	139	54847159	54847835	-1	None	ILT7, CD85g
HSCHR19LRC_PGF2_CTG1	LILRA4	ENSG00000261929	ENST00000571325	retained_intron	KNOWN	None	15503	None	None	54848599	54849492	-1	None	ILT7, CD85g
HSCHR19LRC_PGF2_CTG1	None	ENSG00000268299	ENST00000598693	lincRNA	KNOWN	None	None	None	None	54862230	54864133	-1	None	None
HSCHR19LRC_PGF2_CTG1	None	ENSG00000263303	ENST00000576928	protein_coding	KNOWN	None	None	864	287	54864474	54875961	-1	None	None
HSCHR19LRC_PGF2_CTG1	LILRB4	ENSG00000262397	ENST00000574262	processed_transcript	KNOWN	None	6608	None	None	54899259	54904970	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
HSCHR19LRC_PGF2_CTG1	LILRB4	ENSG00000262397	ENST00000574682	protein_coding	KNOWN	None	6608	1347	448	54917504	54925749	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
HSCHR19LRC_PGF2_CTG1	LILRB4	ENSG00000262397	ENST00000574936	processed_transcript	KNOWN	None	6608	None	None	54917534	54923089	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
HSCHR19LRC_PGF2_CTG1	LILRB4	ENSG00000262397	ENST00000575859	protein_coding	KNOWN	None	6608	1347	448	54918049	54923783	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
HSCHR19LRC_PGF2_CTG1	LILRB4	ENSG00000262397	ENST00000572674	protein_coding	NOVEL	None	6608	1344	447	54918372	54923787	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
HSCHR19LRC_PGF2_CTG1	LILRB4	ENSG00000262397	ENST00000570613	protein_coding	NOVEL	None	6608	1188	395	54918375	54923787	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
HSCHR19LRC_PGF2_CTG1	LILRB4	ENSG00000262397	ENST00000572616	protein_coding	NOVEL	None	6608	1350	449	54918397	54923787	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
HSCHR19LRC_PGF2_CTG1	LILRB4	ENSG00000262397	ENST00000571414	protein_coding	PUTATIVE	None	6608	1197	398	54918404	54923183	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
HSCHR19LRC_PGF2_CTG1	LILRB4	ENSG00000262397	ENST00000574489	retained_intron	KNOWN	None	6608	None	None	54921188	54922780	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
HSCHR19LRC_PGF2_CTG1	LILRB4	ENSG00000262397	ENST00000575037	processed_transcript	KNOWN	None	6608	None	None	54921676	54922428	1	None	LIR-5, ILT3, HM18, LIR5, CD85k
HSCHR19LRC_PGF2_CTG1	VN1R105P	ENSG00000263092	ENST00000576079	transcribed_processed_pseudogene	KNOWN	None	37428	None	None	54903314	54904223	1	None	None
HSCHR19LRC_PGF2_CTG1	None	ENSG00000262645	ENST00000573742	unprocessed_pseudogene	KNOWN	None	None	None	None	54907456	54907601	1	None	None
HSCHR19LRC_PGF2_CTG1	None	ENSG00000261998	ENST00000571317	unprocessed_pseudogene	KNOWN	None	None	None	None	54926621	54927981	1	None	None
HSCHR19LRC_PGF2_CTG1	LILRP1	ENSG00000262604	ENST00000572306	unprocessed_pseudogene	KNOWN	None	15496	None	None	54951832	54956133	1	None	ILT9, CD85l, LILRA6P
HSCHR19LRC_PGF2_CTG1	None	ENSG00000262390	ENST00000576395	unprocessed_pseudogene	KNOWN	None	None	None	None	54959180	54959463	1	None	None
HSCHR19LRC_PGF2_CTG1	None	ENSG00000262486	ENST00000572797	processed_transcript	KNOWN	None	None	None	None	54963144	54968401	1	None	None
HSCHR19LRC_PGF2_CTG1	LILRP2	ENSG00000262565	ENST00000574221	unprocessed_pseudogene	KNOWN	None	15497	None	None	54963830	54968180	1	None	ILT10, CD85m
HSCHR19LRC_PGF2_CTG1	KIR2DS1	ENSG00000262596	ENST00000573202	protein_coding	KNOWN	None	6333	990	329	54979403	54999667	1	None	EB6ActI, EB6ActII, CD158H
HSCHR19LRC_PGF2_CTG1	KIR2DS1	ENSG00000262596	ENST00000576413	protein_coding	KNOWN	None	6333	915	304	54979403	55007752	1	None	EB6ActI, EB6ActII, CD158H
HSCHR19LRC_PGF2_CTG1	KIR2DS1	ENSG00000262596	ENST00000575687	protein_coding	KNOWN	None	6333	1212	403	54979431	54991449	1	None	EB6ActI, EB6ActII, CD158H
HSCHR19LRC_PGF2_CTG1	KIR2DS1	ENSG00000262596	ENST00000572500	protein_coding	KNOWN	None	6333	666	221	54980685	54991449	1	None	EB6ActI, EB6ActII, CD158H
HSCHR19LRC_PGF2_CTG1	None	ENSG00000263175	ENST00000574808	protein_coding	NOVEL	None	None	1047	348	55009655	55024167	1	None	None
HSCHR19LRC_PGF2_CTG1	None	ENSG00000263175	ENST00000571738	protein_coding	NOVEL	None	None	1221	406	55009655	55024167	1	None	None
HSCHR19LRC_PGF2_CTG1	None	ENSG00000263175	ENST00000572575	protein_coding	NOVEL	None	None	1299	432	55009655	55024167	1	None	None
HSCHR19LRC_PGF2_CTG1	None	ENSG00000262494	ENST00000572474	protein_coding	NOVEL	None	None	996	331	55026196	55031822	1	None	None
HSCHR19LRC_PGF2_CTG1	NCR1	ENSG00000261880	ENST00000576897	protein_coding	KNOWN	None	6731	915	304	55147187	55154120	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_PGF2_CTG1	NCR1	ENSG00000261880	ENST00000576773	protein_coding	KNOWN	None	6731	912	303	55147187	55154118	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_PGF2_CTG1	NCR1	ENSG00000261880	ENST00000595524	retained_intron	KNOWN	None	6731	None	None	55147192	55147815	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_PGF2_CTG1	NCR1	ENSG00000261880	ENST00000594201	retained_intron	KNOWN	None	6731	None	None	55147192	55150385	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_PGF2_CTG1	NCR1	ENSG00000261880	ENST00000596848	protein_coding	NOVEL	None	6731	876	291	55147193	55154006	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_PGF2_CTG1	NCR1	ENSG00000261880	ENST00000596087	protein_coding	KNOWN	None	6731	912	303	55147200	55157187	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_PGF2_CTG1	NCR1	ENSG00000261880	ENST00000573642	protein_coding	KNOWN	None	6731	630	209	55147218	55154020	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_PGF2_CTG1	NCR1	ENSG00000261880	ENST00000575278	protein_coding	KNOWN	None	6731	864	287	55147218	55154020	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_PGF2_CTG1	NCR1	ENSG00000261880	ENST00000572783	protein_coding	NOVEL	None	6731	594	197	55147225	55153918	1	LY94	NK-p46, NKP46, CD335
HSCHR19LRC_PGF2_CTG1	NLRP7	ENSG00000262009	ENST00000576715	protein_coding	KNOWN	None	22947	3030	1009	55164556	55188552	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_PGF2_CTG1	NLRP7	ENSG00000262009	ENST00000575084	protein_coding	KNOWN	None	22947	2943	980	55164556	55188552	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_PGF2_CTG1	NLRP7	ENSG00000262009	ENST00000575631	protein_coding	KNOWN	None	22947	3030	1009	55164557	55182797	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_PGF2_CTG1	NLRP7	ENSG00000262009	ENST00000585875	protein_coding	KNOWN	None	22947	2943	980	55164562	55182799	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_PGF2_CTG1	NLRP7	ENSG00000262009	ENST00000588840	protein_coding	KNOWN	None	22947	3114	1037	55164562	55207290	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_PGF2_CTG1	NLRP7	ENSG00000262009	ENST00000571685	protein_coding	KNOWN	None	22947	3198	1065	55164562	55207290	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_PGF2_CTG1	NLRP7	ENSG00000262009	ENST00000586028	nonsense_mediated_decay	KNOWN	None	22947	2892	963	55164699	55188544	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_PGF2_CTG1	NLRP7	ENSG00000262009	ENST00000590894	protein_coding	KNOWN	None	22947	3114	1037	55164700	55188544	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_PGF2_CTG1	NLRP7	ENSG00000262009	ENST00000591862	protein_coding	KNOWN	None	22947	290	95	55182040	55207300	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_PGF2_CTG1	NLRP7	ENSG00000262009	ENST00000588383	protein_coding	KNOWN	None	22947	210	69	55182549	55207359	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_PGF2_CTG1	NLRP7	ENSG00000262009	ENST00000586236	protein_coding	KNOWN	None	22947	161	52	55182598	55207290	-1	NALP7	PYPAF3, NOD12, PAN7, CLR19.4
HSCHR19LRC_PGF2_CTG1	None	ENSG00000267438	ENST00000585709	antisense	KNOWN	None	None	None	None	55192681	55193640	1	None	None
HSCHR19LRC_PGF2_CTG1	NLRP2	ENSG00000262260	ENST00000587131	protein_coding	KNOWN	None	22948	420	139	55194177	55222686	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_PGF2_CTG1	NLRP2	ENSG00000262260	ENST00000589862	protein_coding	KNOWN	None	22948	373	123	55194215	55218846	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_PGF2_CTG1	NLRP2	ENSG00000262260	ENST00000571850	protein_coding	KNOWN	None	22948	463	153	55206117	55222729	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_PGF2_CTG1	NLRP2	ENSG00000262260	ENST00000574535	protein_coding	KNOWN	None	22948	3189	1062	55206299	55242189	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_PGF2_CTG1	NLRP2	ENSG00000262260	ENST00000573256	retained_intron	KNOWN	None	22948	None	None	55206332	55242189	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_PGF2_CTG1	NLRP2	ENSG00000262260	ENST00000575466	protein_coding	KNOWN	None	22948	3117	1038	55206376	55242182	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_PGF2_CTG1	NLRP2	ENSG00000262260	ENST00000572395	protein_coding	KNOWN	None	22948	3123	1040	55206383	55242185	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_PGF2_CTG1	NLRP2	ENSG00000262260	ENST00000573415	nonsense_mediated_decay	KNOWN	None	22948	330	109	55206391	55222693	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_PGF2_CTG1	NLRP2	ENSG00000262260	ENST00000572489	protein_coding	KNOWN	None	22948	3189	1062	55207390	55242187	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_PGF2_CTG1	NLRP2	ENSG00000262260	ENST00000576909	protein_coding	KNOWN	None	22948	3123	1040	55207390	55242187	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_PGF2_CTG1	NLRP2	ENSG00000262260	ENST00000588536	protein_coding	KNOWN	None	22948	406	134	55207421	55223358	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_PGF2_CTG1	NLRP2	ENSG00000262260	ENST00000574360	protein_coding	KNOWN	None	22948	3120	1039	55207421	55242125	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_PGF2_CTG1	NLRP2	ENSG00000262260	ENST00000576177	protein_coding	KNOWN	None	22948	3117	1038	55207446	55242180	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_PGF2_CTG1	NLRP2	ENSG00000262260	ENST00000572542	protein_coding	NOVEL	None	22948	3180	1059	55207453	55242182	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_PGF2_CTG1	NLRP2	ENSG00000262260	ENST00000571226	protein_coding	NOVEL	None	22948	495	164	55215041	55223444	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_PGF2_CTG1	NLRP2	ENSG00000262260	ENST00000576694	protein_coding	PUTATIVE	None	22948	592	196	55224533	55227448	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_PGF2_CTG1	NLRP2	ENSG00000262260	ENST00000575861	nonsense_mediated_decay	KNOWN	None	22948	267	88	55227253	55235487	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_PGF2_CTG1	NLRP2	ENSG00000262260	ENST00000570384	nonsense_mediated_decay	KNOWN	None	22948	28	8	55227339	55231253	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_PGF2_CTG1	NLRP2	ENSG00000262260	ENST00000592029	processed_transcript	KNOWN	None	22948	None	None	55231673	55232596	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_PGF2_CTG1	NLRP2	ENSG00000262260	ENST00000574301	retained_intron	KNOWN	None	22948	None	None	55234265	55242185	1	NALP2	FLJ20510, PYPAF2, NBS1, PAN1, CLR19.9
HSCHR19LRC_PGF2_CTG1	None	ENSG00000262153	ENST00000570532	processed_pseudogene	KNOWN	None	None	None	None	55214864	55215464	1	None	None
HSCHR19LRC_PGF2_CTG1	None	ENSG00000267700	ENST00000589812	antisense	KNOWN	None	None	None	None	55247240	55289133	1	None	None
HSCHR19LRC_PGF2_CTG1	None	ENSG00000267700	ENST00000587584	antisense	KNOWN	None	None	None	None	55247252	55284298	1	None	None
HSCHR19LRC_PGF2_CTG1	None	ENSG00000267700	ENST00000590737	antisense	KNOWN	None	None	None	None	55268669	55285364	1	None	None
HSCHR19LRC_PGF2_CTG1	GP6	ENSG00000262729	ENST00000571788	protein_coding	KNOWN	None	14388	1020	339	55254752	55279311	-1	None	GPVI
HSCHR19LRC_PGF2_CTG1	GP6	ENSG00000262729	ENST00000573240	protein_coding	KNOWN	None	14388	1863	620	55254752	55279311	-1	None	GPVI
HSCHR19LRC_PGF2_CTG1	GP6	ENSG00000262729	ENST00000571038	protein_coding	KNOWN	None	14388	966	321	55254752	55279311	-1	None	GPVI
HSCHR19LRC_PGF2_CTG1	GP6	ENSG00000262729	ENST00000572146	retained_intron	KNOWN	None	14388	None	None	55255573	55259866	-1	None	GPVI
HSCHR19LRC_PGF2_CTG1	GP6	ENSG00000262729	ENST00000576401	protein_coding	PUTATIVE	None	14388	352	116	55268652	55273912	-1	None	GPVI
HSCHR19LRC_PGF2_CTG1	None	ENSG00000267494	ENST00000591975	processed_transcript	KNOWN	None	None	None	None	55268640	55294975	-1	None	None
HSCHR19LRC_PGF2_CTG1	None	ENSG00000267494	ENST00000585775	processed_transcript	KNOWN	None	None	None	None	55283086	55285996	-1	None	None
HSCHR19LRC_PGF2_CTG1	RDH13	ENSG00000262244	ENST00000592344	processed_transcript	KNOWN	None	19978	None	None	55280155	55284154	-1	None	SDR7C3
HSCHR19LRC_PGF2_CTG1	RDH13	ENSG00000262244	ENST00000589439	processed_transcript	KNOWN	None	19978	None	None	55280158	55282936	-1	None	SDR7C3
HSCHR19LRC_PGF2_CTG1	RDH13	ENSG00000262244	ENST00000590969	nonsense_mediated_decay	KNOWN	None	19978	108	35	55280158	55304123	-1	None	SDR7C3
HSCHR19LRC_PGF2_CTG1	RDH13	ENSG00000262244	ENST00000573119	protein_coding	KNOWN	None	19978	996	331	55285390	55304223	-1	None	SDR7C3
HSCHR19LRC_PGF2_CTG1	RDH13	ENSG00000262244	ENST00000573485	nonsense_mediated_decay	KNOWN	None	19978	663	220	55285390	55304880	-1	None	SDR7C3
HSCHR19LRC_PGF2_CTG1	RDH13	ENSG00000262244	ENST00000574168	protein_coding	KNOWN	None	19978	783	260	55285390	55310576	-1	None	SDR7C3
HSCHR19LRC_PGF2_CTG1	RDH13	ENSG00000262244	ENST00000587185	nonsense_mediated_decay	KNOWN	None	19978	663	220	55285902	55304133	-1	None	SDR7C3
HSCHR19LRC_PGF2_CTG1	RDH13	ENSG00000262244	ENST00000590403	nonsense_mediated_decay	KNOWN	None	19978	108	35	55288460	55304195	-1	None	SDR7C3
HSCHR19LRC_PGF2_CTG1	RDH13	ENSG00000262244	ENST00000592390	processed_transcript	KNOWN	None	19978	None	None	55289704	55300221	-1	None	SDR7C3
HSCHR19LRC_PGF2_CTG1	RDH13	ENSG00000262244	ENST00000593265	processed_transcript	KNOWN	None	19978	None	None	55291921	55304166	-1	None	SDR7C3
HSCHR19LRC_PGF2_CTG1	RDH13	ENSG00000262244	ENST00000589431	protein_coding	KNOWN	None	19978	127	41	55297700	55310576	-1	None	SDR7C3
HSCHR19LRC_PGF2_CTG1	RDH13	ENSG00000262244	ENST00000585490	protein_coding	KNOWN	None	19978	88	28	55300300	55310587	-1	None	SDR7C3
HSCHR19LRC_PGF2_CTG1	RDH13	ENSG00000262244	ENST00000590126	processed_transcript	KNOWN	None	19978	None	None	55304088	55305415	-1	None	SDR7C3
HSCHR19LRC_PGF2_CTG1	RDH13	ENSG00000262244	ENST00000588121	processed_transcript	KNOWN	None	19978	None	None	55304267	55310587	-1	None	SDR7C3
HSCHR19LRC_PGF2_CTG1	RDH13	ENSG00000262244	ENST00000587793	processed_transcript	KNOWN	None	19978	None	None	55304318	55310567	-1	None	SDR7C3
HSCHR19LRC_PGF2_CTG1	RDH13	ENSG00000262244	ENST00000589687	processed_transcript	KNOWN	None	19978	None	None	55304555	55310570	-1	None	SDR7C3
HSCHR19LRC_PGF2_CTG1	RDH13	ENSG00000262244	ENST00000592295	processed_transcript	KNOWN	None	19978	None	None	55304799	55310538	-1	None	SDR7C3
HSCHR19LRC_PGF2_CTG1	RDH13	ENSG00000262244	ENST00000591294	processed_transcript	KNOWN	None	19978	None	None	55304948	55310578	-1	None	SDR7C3
HSCHR19LRC_PGF2_CTG1	RDH13	ENSG00000262244	ENST00000590724	processed_transcript	KNOWN	None	19978	None	None	55304995	55312338	-1	None	SDR7C3
HSCHR19LRC_PGF2_CTG1	RDH13	ENSG00000262244	ENST00000590733	processed_transcript	KNOWN	None	19978	None	None	55305087	55310939	-1	None	SDR7C3
HSCHR19LRC_PGF2_CTG1	RDH13	ENSG00000262244	ENST00000587879	processed_transcript	KNOWN	None	19978	None	None	55308242	55310549	-1	None	SDR7C3
HSCHR19LRC_PGF2_CTG1	EPS8L1	ENSG00000262430	ENST00000591543	protein_coding	NOVEL	None	21295	1647	548	55313067	55328966	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_PGF2_CTG1	EPS8L1	ENSG00000262430	ENST00000588995	processed_transcript	KNOWN	None	21295	None	None	55316900	55325032	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_PGF2_CTG1	EPS8L1	ENSG00000262430	ENST00000590165	retained_intron	KNOWN	None	21295	None	None	55316935	55321423	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_PGF2_CTG1	EPS8L1	ENSG00000262430	ENST00000572335	protein_coding	KNOWN	None	21295	2172	723	55316948	55328969	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_PGF2_CTG1	EPS8L1	ENSG00000262430	ENST00000571375	protein_coding	NOVEL	None	21295	1980	659	55316950	55328895	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_PGF2_CTG1	EPS8L1	ENSG00000262430	ENST00000592475	nonsense_mediated_decay	KNOWN	None	21295	1287	428	55317403	55326939	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_PGF2_CTG1	EPS8L1	ENSG00000262430	ENST00000586971	retained_intron	KNOWN	None	21295	None	None	55320632	55321230	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_PGF2_CTG1	EPS8L1	ENSG00000262430	ENST00000585936	protein_coding	NOVEL	None	21295	1230	409	55321439	55328736	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_PGF2_CTG1	EPS8L1	ENSG00000262430	ENST00000572411	protein_coding	KNOWN	None	21295	1791	596	55321439	55328966	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_PGF2_CTG1	EPS8L1	ENSG00000262430	ENST00000588573	retained_intron	KNOWN	None	21295	None	None	55321484	55322374	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_PGF2_CTG1	EPS8L1	ENSG00000262430	ENST00000591342	retained_intron	KNOWN	None	21295	None	None	55322079	55322921	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_PGF2_CTG1	EPS8L1	ENSG00000262430	ENST00000590876	retained_intron	KNOWN	None	21295	None	None	55322739	55324451	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_PGF2_CTG1	EPS8L1	ENSG00000262430	ENST00000590243	retained_intron	KNOWN	None	21295	None	None	55322740	55324527	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_PGF2_CTG1	EPS8L1	ENSG00000262430	ENST00000589062	retained_intron	KNOWN	None	21295	None	None	55322740	55328969	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_PGF2_CTG1	EPS8L1	ENSG00000262430	ENST00000590590	retained_intron	KNOWN	None	21295	None	None	55322985	55328970	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_PGF2_CTG1	EPS8L1	ENSG00000262430	ENST00000587781	processed_transcript	KNOWN	None	21295	None	None	55325512	55327482	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_PGF2_CTG1	EPS8L1	ENSG00000262430	ENST00000587193	retained_intron	KNOWN	None	21295	None	None	55326742	55327239	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_PGF2_CTG1	EPS8L1	ENSG00000262430	ENST00000588663	processed_transcript	KNOWN	None	21295	None	None	55327824	55328967	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HSCHR19LRC_PGF2_CTG1	EPS8L1	ENSG00000262430	ENST00000589587	retained_intron	KNOWN	None	21295	None	None	55328116	55328952	1	None	FLJ20258, DRC3, MGC23164, MGC4642
HG142_HG150_NOVEL_TEST	None	ENSG00000262373	ENST00000575254	processed_pseudogene	KNOWN	None	None	None	None	55972601	55973101	-1	None	None
HG142_HG150_NOVEL_TEST	OR8J2	ENSG00000263150	ENST00000570683	unprocessed_pseudogene	KNOWN	None	15311	None	None	55978334	55979298	-1	OR8J2P	None
HG142_HG150_NOVEL_TEST	OR5T2	ENSG00000262851	ENST00000573647	protein_coding	KNOWN	None	15296	1080	359	55999490	56000737	-1	None	None
HG142_HG150_NOVEL_TEST	OR5T3	ENSG00000261897	ENST00000575738	protein_coding	KNOWN	None	15297	1023	340	56019676	56020698	1	None	OR5T3Q
HG142_HG150_NOVEL_TEST	OR5T1	ENSG00000262784	ENST00000576733	protein_coding	KNOWN	None	14821	981	326	56043029	56044146	1	OR5T1P	None
HG142_HG150_NOVEL_TEST	OR8H1	ENSG00000262611	ENST00000574192	protein_coding	KNOWN	None	14824	936	311	56057529	56058566	-1	None	None
HG142_HG150_NOVEL_TEST	OR8I1P	ENSG00000262544	ENST00000571331	unprocessed_pseudogene	KNOWN	None	14828	None	None	56064017	56064947	-1	None	None
HG142_HG150_NOVEL_TEST	OR8K3	ENSG00000262755	ENST00000573400	protein_coding	KNOWN	None	15313	939	312	56085783	56086721	1	None	None
HG142_HG150_NOVEL_TEST	FAM8A2P	ENSG00000262162	ENST00000575731	unprocessed_pseudogene	KNOWN	None	16373	None	None	56098823	56099964	-1	None	None
HG142_HG150_NOVEL_TEST	OR8K2P	ENSG00000263209	ENST00000573821	unprocessed_pseudogene	KNOWN	None	14832	None	None	56102618	56103544	1	None	None
HG142_HG150_NOVEL_TEST	OR8K1	ENSG00000263328	ENST00000574800	protein_coding	KNOWN	None	14831	960	319	56113421	56114507	1	None	None
HG142_HG150_NOVEL_TEST	RPL5P29	ENSG00000262285	ENST00000571743	processed_pseudogene	KNOWN	None	36335	None	None	56124804	56125697	1	None	None
HG142_HG150_NOVEL_TEST	OR8J1	ENSG00000262796	ENST00000574644	protein_coding	KNOWN	None	14855	951	316	56127691	56128764	1	None	None
HG142_HG150_NOVEL_TEST	OR8U9	ENSG00000262315	ENST00000570574	protein_coding	KNOWN	None	29166	930	309	56143101	56151635	1	None	None
HG142_HG150_NOVEL_TEST	OR8U9	ENSG00000262315	ENST00000574470	protein_coding	KNOWN	None	29166	936	311	56150706	56152270	1	None	None
HG142_HG150_NOVEL_TEST	OR8L1P	ENSG00000262550	ENST00000570383	unprocessed_pseudogene	KNOWN	None	15316	None	None	56156717	56157671	1	None	None
HG151_NOVEL_TEST	OR9G1	ENSG00000261958	ENST00000573911	protein_coding	KNOWN	None	15319	918	305	56467862	56468779	1	OR9G5	None
HG151_NOVEL_TEST	OR9G9	ENSG00000262191	ENST00000571130	protein_coding	KNOWN	None	31940	918	305	56478942	56479859	1	None	None
HG151_NOVEL_TEST	None	ENSG00000261991	ENST00000570361	processed_pseudogene	KNOWN	None	None	None	None	56514866	56515012	-1	None	None
HG151_NOVEL_TEST	None	ENSG00000262268	ENST00000575343	unprocessed_pseudogene	KNOWN	None	None	None	None	56518729	56519646	1	None	None
HG151_NOVEL_TEST	None	ENSG00000262268	ENST00000572137	pseudogene	KNOWN	None	None	None	None	56518729	56519645	1	None	None
HG151_NOVEL_TEST	OR9G4	ENSG00000262647	ENST00000575017	protein_coding	KNOWN	None	15322	984	327	56521377	56522361	-1	None	None
HG151_NOVEL_TEST	None	ENSG00000262675	ENST00000576598	processed_pseudogene	KNOWN	None	None	None	None	56529573	56530452	-1	None	None
HG151_NOVEL_TEST	OR5G1P	ENSG00000262438	ENST00000576771	processed_pseudogene	KNOWN	None	8344	None	None	56553811	56554756	-1	OR5G2P	OR11-104, OR93
HG151_NOVEL_TEST	OR5G1P	ENSG00000262438	ENST00000572063	processed_pseudogene	KNOWN	None	8344	None	None	56553812	56554621	-1	OR5G2P	OR11-104, OR93
HG151_NOVEL_TEST	None	ENSG00000262939	ENST00000571417	processed_pseudogene	KNOWN	None	None	None	None	56568756	56569515	-1	None	None
HG151_NOVEL_TEST	OR5G5P	ENSG00000262535	ENST00000573060	transcribed_unprocessed_pseudogene	KNOWN	None	15289	None	None	56580406	56581344	-1	None	None
HG151_NOVEL_TEST	OR5G5P	ENSG00000262535	ENST00000575735	processed_transcript	KNOWN	None	15289	None	None	56580626	56598197	-1	None	None
HG151_NOVEL_TEST	OR5G5P	ENSG00000262535	ENST00000572860	processed_transcript	KNOWN	None	15289	None	None	56580634	56598258	-1	None	None
HG151_NOVEL_TEST	OR5G3	ENSG00000263129	ENST00000571556	unprocessed_pseudogene	KNOWN	None	15287	None	None	56598126	56599054	-1	OR5G6P, OR5G3P	None
HG151_NOVEL_TEST	None	ENSG00000263059	ENST00000576189	lincRNA	KNOWN	None	None	None	None	56627028	56655761	1	None	None
HG151_NOVEL_TEST	None	ENSG00000263059	ENST00000572380	lincRNA	KNOWN	None	None	None	None	56627118	56656628	1	None	None
HSCHR19_2_CTG3	None	ENSG00000268200	ENST00000600695	processed_pseudogene	KNOWN	None	None	None	None	21901803	21902472	1	None	None
HSCHR19_2_CTG3	VN1R84P	ENSG00000268374	ENST00000599477	unprocessed_pseudogene	KNOWN	None	37404	None	None	21912082	21912316	-1	None	None
HSCHR19_2_CTG3	None	ENSG00000269132	ENST00000594388	lincRNA	KNOWN	None	None	None	None	21961053	21985912	-1	None	None
HSCHR19_2_CTG3	None	ENSG00000269132	ENST00000594903	lincRNA	KNOWN	None	None	None	None	21981161	21986141	-1	None	None
HSCHR19_2_CTG3	None	ENSG00000268291	ENST00000601331	processed_pseudogene	KNOWN	None	None	None	None	21992761	21993547	1	None	None
HSCHR19_2_CTG3	ZNF43	ENSG00000262928	ENST00000599986	protein_coding	PUTATIVE	None	13109	2412	803	21997231	22044298	-1	ZNF39L1	HTF6, KOX27
HSCHR19_2_CTG3	ZNF43	ENSG00000262928	ENST00000596906	protein_coding	PUTATIVE	None	13109	2412	803	21999562	22044309	-1	ZNF39L1	HTF6, KOX27
HSCHR19_2_CTG3	ZNF43	ENSG00000262928	ENST00000573408	protein_coding	KNOWN	None	13109	2430	809	21999607	22028489	-1	ZNF39L1	HTF6, KOX27
HSCHR19_2_CTG3	ZNF43	ENSG00000262928	ENST00000594923	protein_coding	PUTATIVE	None	13109	2412	803	21999634	22044249	-1	ZNF39L1	HTF6, KOX27
HSCHR19_2_CTG3	ZNF43	ENSG00000262928	ENST00000597167	protein_coding	PUTATIVE	None	13109	363	120	22001760	22028468	-1	ZNF39L1	HTF6, KOX27
HSCHR19_2_CTG3	ZNF43	ENSG00000262928	ENST00000595587	protein_coding	PUTATIVE	None	13109	161	52	22001962	22044406	-1	ZNF39L1	HTF6, KOX27
HSCHR19_2_CTG3	ZNF43	ENSG00000262928	ENST00000595148	protein_coding	PUTATIVE	None	13109	255	84	22004294	22031228	-1	ZNF39L1	HTF6, KOX27
HSCHR19_2_CTG3	ZNF43	ENSG00000262928	ENST00000593937	protein_coding	PUTATIVE	None	13109	181	59	22010199	22032367	-1	ZNF39L1	HTF6, KOX27
HSCHR19_2_CTG3	ZNF43	ENSG00000262928	ENST00000597322	retained_intron	KNOWN	None	13109	None	None	22031878	22033928	-1	ZNF39L1	HTF6, KOX27
HSCHR19_2_CTG3	ZNF43	ENSG00000262928	ENST00000596695	processed_transcript	KNOWN	None	13109	None	None	22035469	22044310	-1	ZNF39L1	HTF6, KOX27
HSCHR19_2_CTG3	ZNF43	ENSG00000262928	ENST00000598109	processed_transcript	KNOWN	None	13109	None	None	22035601	22044311	-1	ZNF39L1	HTF6, KOX27
HSCHR7_1_CTG6	AGK	ENSG00000262327	ENST00000575872	protein_coding	KNOWN	None	21869	1269	422	141250989	141355044	1	MULK	FLJ10842
HSCHR7_1_CTG6	AGK	ENSG00000262327	ENST00000573706	protein_coding	PUTATIVE	None	21869	1185	394	141251195	141352947	1	MULK	FLJ10842
HSCHR7_1_CTG6	AGK	ENSG00000262327	ENST00000576055	processed_transcript	KNOWN	None	21869	None	None	141251210	141299108	1	MULK	FLJ10842
HSCHR7_1_CTG6	AGK	ENSG00000262327	ENST00000586755	protein_coding	KNOWN	None	21869	735	244	141251210	141351375	1	MULK	FLJ10842
HSCHR7_1_CTG6	AGK	ENSG00000262327	ENST00000571343	nonsense_mediated_decay	KNOWN	None	21869	141	46	141251218	141321590	1	MULK	FLJ10842
HSCHR7_1_CTG6	AGK	ENSG00000262327	ENST00000573470	protein_coding	KNOWN	None	21869	198	65	141255253	141293995	1	MULK	FLJ10842
HSCHR7_1_CTG6	AGK	ENSG00000262327	ENST00000573803	nonsense_mediated_decay	KNOWN	None	21869	735	244	141255253	141351375	1	MULK	FLJ10842
HSCHR7_1_CTG6	AGK	ENSG00000262327	ENST00000571472	retained_intron	KNOWN	None	21869	None	None	141255256	141315824	1	MULK	FLJ10842
HSCHR7_1_CTG6	AGK	ENSG00000262327	ENST00000575356	retained_intron	KNOWN	None	21869	None	None	141255266	141297140	1	MULK	FLJ10842
HSCHR7_1_CTG6	AGK	ENSG00000262327	ENST00000572245	processed_transcript	KNOWN	None	21869	None	None	141301021	141316168	1	MULK	FLJ10842
HSCHR7_1_CTG6	AGK	ENSG00000262327	ENST00000575540	retained_intron	KNOWN	None	21869	None	None	141348931	141352865	1	MULK	FLJ10842
HSCHR7_1_CTG6	None	ENSG00000262671	ENST00000570339	processed_transcript	PUTATIVE	None	None	None	None	141352181	141356610	-1	None	None
HSCHR7_1_CTG6	KIAA1147	ENSG00000262599	ENST00000575464	protein_coding	KNOWN	None	29472	1368	455	141356528	141401956	-1	None	LCHN
HSCHR7_1_CTG6	KIAA1147	ENSG00000262599	ENST00000574704	protein_coding	PUTATIVE	None	29472	1056	351	141361730	141401418	-1	None	LCHN
HSCHR7_1_CTG6	None	ENSG00000270042	ENST00000602650	sense_intronic	KNOWN	None	None	None	None	141362722	141363646	-1	None	None
HSCHR7_1_CTG6	WEE2-AS1	ENSG00000261994	ENST00000573259	antisense	KNOWN	None	48669	None	None	141410146	141444038	-1	None	None
HSCHR7_1_CTG6	WEE2-AS1	ENSG00000261994	ENST00000575226	processed_transcript	KNOWN	None	48669	None	None	141410440	141444028	-1	None	None
HSCHR7_1_CTG6	WEE2-AS1	ENSG00000261994	ENST00000572711	processed_transcript	KNOWN	None	48669	None	None	141410440	141444028	-1	None	None
HSCHR7_1_CTG6	WEE2-AS1	ENSG00000261994	ENST00000576410	retained_intron	KNOWN	None	48669	None	None	141410440	141444065	-1	None	None
HSCHR7_1_CTG6	WEE2-AS1	ENSG00000261994	ENST00000577122	processed_transcript	KNOWN	None	48669	None	None	141410440	141444154	-1	None	None
HSCHR7_1_CTG6	WEE2-AS1	ENSG00000261994	ENST00000574846	processed_transcript	KNOWN	None	48669	None	None	141411504	141444060	-1	None	None
HSCHR7_1_CTG6	WEE2-AS1	ENSG00000261994	ENST00000576096	processed_transcript	KNOWN	None	48669	None	None	141411511	141444038	-1	None	None
HSCHR7_1_CTG6	WEE2-AS1	ENSG00000261994	ENST00000576702	processed_transcript	KNOWN	None	48669	None	None	141426603	141443349	-1	None	None
HSCHR7_1_CTG6	WEE2-AS1	ENSG00000261994	ENST00000573457	processed_transcript	KNOWN	None	48669	None	None	141429710	141443583	-1	None	None
HSCHR7_1_CTG6	WEE2-AS1	ENSG00000261994	ENST00000575766	processed_transcript	KNOWN	None	48669	None	None	141433457	141444039	-1	None	None
HSCHR7_1_CTG6	WEE2	ENSG00000263042	ENST00000574659	protein_coding	KNOWN	None	19684	1704	567	141414161	141437079	1	None	FLJ16107
HSCHR7_1_CTG6	WEE2	ENSG00000263042	ENST00000576319	protein_coding	NOVEL	None	19684	610	202	141424970	141433175	1	None	FLJ16107
HSCHR7_1_CTG6	SSBP1	ENSG00000262771	ENST00000570667	protein_coding	KNOWN	None	11317	447	148	141444129	141456269	1	None	SSBP, mtSSB
HSCHR7_1_CTG6	SSBP1	ENSG00000262771	ENST00000571462	retained_intron	KNOWN	None	11317	None	None	141444166	141447498	1	None	SSBP, mtSSB
HSCHR7_1_CTG6	SSBP1	ENSG00000262771	ENST00000571430	protein_coding	KNOWN	None	11317	447	148	141444166	141456162	1	None	SSBP, mtSSB
HSCHR7_1_CTG6	SSBP1	ENSG00000262771	ENST00000575352	retained_intron	KNOWN	None	11317	None	None	141444173	141452334	1	None	SSBP, mtSSB
HSCHR7_1_CTG6	SSBP1	ENSG00000262771	ENST00000574068	processed_transcript	KNOWN	None	11317	None	None	141444199	141456264	1	None	SSBP, mtSSB
HSCHR7_1_CTG6	SSBP1	ENSG00000262771	ENST00000576311	protein_coding	KNOWN	None	11317	407	134	141444204	141456122	1	None	SSBP, mtSSB
HSCHR7_1_CTG6	SSBP1	ENSG00000262771	ENST00000575059	protein_coding	KNOWN	None	11317	447	148	141444208	141493730	1	None	SSBP, mtSSB
HSCHR7_1_CTG6	SSBP1	ENSG00000262771	ENST00000570953	retained_intron	KNOWN	None	11317	None	None	141444209	141446522	1	None	SSBP, mtSSB
HSCHR7_1_CTG6	SSBP1	ENSG00000262771	ENST00000571709	protein_coding	KNOWN	None	11317	364	120	141444209	141451353	1	None	SSBP, mtSSB
HSCHR7_1_CTG6	SSBP1	ENSG00000262771	ENST00000572755	processed_transcript	KNOWN	None	11317	None	None	141444214	141456140	1	None	SSBP, mtSSB
HSCHR7_1_CTG6	SSBP1	ENSG00000262771	ENST00000576520	retained_intron	KNOWN	None	11317	None	None	141444217	141445564	1	None	SSBP, mtSSB
HSCHR7_1_CTG6	SSBP1	ENSG00000262771	ENST00000574199	protein_coding	KNOWN	None	11317	447	148	141444408	141456269	1	None	SSBP, mtSSB
HSCHR7_1_CTG6	SSBP1	ENSG00000262771	ENST00000573322	protein_coding	KNOWN	None	11317	85	27	141444411	141448037	1	None	SSBP, mtSSB
HSCHR7_1_CTG6	SSBP1	ENSG00000262771	ENST00000576834	protein_coding	KNOWN	None	11317	447	148	141444415	141456269	1	None	SSBP, mtSSB
HSCHR3_1_CTG1	TAMM41	ENSG00000264369	ENST00000578465	retained_intron	KNOWN	None	25187	None	None	11831916	11851533	-1	C3orf31	MGC16471, DKFZp434E0519
HSCHR3_1_CTG1	TAMM41	ENSG00000264369	ENST00000577349	protein_coding	NOVEL	None	25187	1014	337	11831916	11888246	-1	C3orf31	MGC16471, DKFZp434E0519
HSCHR3_1_CTG1	TAMM41	ENSG00000264369	ENST00000580427	protein_coding	KNOWN	None	25187	951	316	11831916	11888393	-1	C3orf31	MGC16471, DKFZp434E0519
HSCHR3_1_CTG1	TAMM41	ENSG00000264369	ENST00000584043	nonsense_mediated_decay	KNOWN	None	25187	456	151	11831920	11888355	-1	C3orf31	MGC16471, DKFZp434E0519
HSCHR3_1_CTG1	TAMM41	ENSG00000264369	ENST00000583010	retained_intron	KNOWN	None	25187	None	None	11831922	11853033	-1	C3orf31	MGC16471, DKFZp434E0519
HSCHR3_1_CTG1	TAMM41	ENSG00000264369	ENST00000578551	nonsense_mediated_decay	KNOWN	None	25187	167	54	11832017	11858811	-1	C3orf31	MGC16471, DKFZp434E0519
HSCHR3_1_CTG1	TAMM41	ENSG00000264369	ENST00000579384	protein_coding	PUTATIVE	None	25187	1359	452	11848768	11888253	-1	C3orf31	MGC16471, DKFZp434E0519
HSCHR3_1_CTG1	TAMM41	ENSG00000264369	ENST00000581215	retained_intron	KNOWN	None	25187	None	None	11858562	11871384	-1	C3orf31	MGC16471, DKFZp434E0519
HSCHR3_1_CTG1	TAMM41	ENSG00000264369	ENST00000578448	nonsense_mediated_decay	KNOWN	None	25187	456	151	11871230	11888366	-1	C3orf31	MGC16471, DKFZp434E0519
HSCHR3_1_CTG1	TAMM41	ENSG00000264369	ENST00000583331	nonsense_mediated_decay	KNOWN	None	25187	324	107	11874500	11888359	-1	C3orf31	MGC16471, DKFZp434E0519
HSCHR3_1_CTG1	TAMM41	ENSG00000264369	ENST00000579328	retained_intron	KNOWN	None	25187	None	None	11885013	11888338	-1	C3orf31	MGC16471, DKFZp434E0519
HSCHR3_1_CTG1	RN7SL147P	ENSG00000266381	ENST00000582635	misc_RNA	KNOWN	None	46163	None	None	11996185	11996480	-1	None	None
HSCHR2_2_CTG12	KIF5C	ENSG00000262907	ENST00000576072	protein_coding	KNOWN	None	6325	2874	957	149632819	149889353	1	None	None
HSCHR2_2_CTG12	KIF5C	ENSG00000262907	ENST00000575453	protein_coding	KNOWN	None	6325	2589	862	149791569	149889353	1	None	None
HSCHR2_2_CTG12	KIF5C	ENSG00000262907	ENST00000573697	protein_coding	PUTATIVE	None	6325	228	75	149803809	149824677	1	None	None
HSCHR2_2_CTG12	KIF5C	ENSG00000262907	ENST00000574417	processed_transcript	KNOWN	None	6325	None	None	149804412	149886104	1	None	None
HSCHR2_2_CTG12	KIF5C	ENSG00000262907	ENST00000574197	protein_coding	KNOWN	None	6325	2178	725	149804455	149889353	1	None	None
HSCHR2_2_CTG12	KIF5C	ENSG00000262907	ENST00000571609	retained_intron	KNOWN	None	6325	None	None	149841524	149861430	1	None	None
HSCHR2_2_CTG12	KIF5C	ENSG00000262907	ENST00000574689	retained_intron	KNOWN	None	6325	None	None	149862529	149889353	1	None	None
HSCHR22_1_CTG1	FAM109B	ENSG00000272132	ENST00000607126	protein_coding	KNOWN	None	27161	780	259	42470255	42475445	1	None	DKFZp686J07229
HSCHR22_1_CTG1	FAM109B	ENSG00000272132	ENST00000607276	protein_coding	KNOWN	None	27161	325	107	42470361	42473622	1	None	DKFZp686J07229
HSCHR22_1_CTG1	None	ENSG00000262254	ENST00000571525	protein_coding	KNOWN	None	None	324	107	42475695	42480287	1	None	None
HSCHR22_1_CTG1	NDUFA6	ENSG00000272332	ENST00000607299	protein_coding	NOVEL	None	7690	387	128	42481529	42486783	-1	None	B14, LYRM6, CI-B14, NADHB14
HSCHR22_1_CTG1	NDUFA6	ENSG00000272332	ENST00000605927	protein_coding	KNOWN	None	7690	465	154	42481529	42486959	-1	None	B14, LYRM6, CI-B14, NADHB14
HSCHR22_1_CTG1	NDUFA6	ENSG00000272332	ENST00000606421	protein_coding	NOVEL	None	7690	216	71	42482120	42483339	-1	None	B14, LYRM6, CI-B14, NADHB14
HSCHR22_1_CTG1	None	ENSG00000272116	ENST00000607265	sense_intronic	KNOWN	None	None	None	None	42485634	42486032	-1	None	None
HSCHR22_1_CTG1	OLA1P1	ENSG00000272083	ENST00000606805	processed_pseudogene	KNOWN	None	45274	None	None	42503769	42504957	-1	None	None
HSCHR22_1_CTG1	None	ENSG00000262303	ENST00000571242	sense_intronic	KNOWN	None	None	None	None	42520285	42523779	-1	None	None
HSCHR22_1_CTG1	CYP2D7P1	ENSG00000263181	ENST00000570522	protein_coding	PUTATIVE	None	2624	456	151	42524055	42525776	-1	CYP2D, CYP2D@	CYP2D7
HSCHR22_1_CTG1	CYP2D7P1	ENSG00000263181	ENST00000574062	polymorphic_pseudogene	KNOWN	None	2624	1495	497	42524055	42528401	-1	CYP2D, CYP2D@	CYP2D7
HSCHR22_1_CTG1	CYP2D7P1	ENSG00000263181	ENST00000575319	polymorphic_pseudogene	KNOWN	None	2624	1552	516	42524055	42528427	-1	CYP2D, CYP2D@	CYP2D7
HSCHR22_1_CTG1	CYP2D7P1	ENSG00000263181	ENST00000576465	processed_transcript	PUTATIVE	None	2624	None	None	42526589	42527851	-1	CYP2D, CYP2D@	CYP2D7
HSCHR22_1_CTG1	CYP2D7P1	ENSG00000263181	ENST00000573762	retained_intron	KNOWN	None	2624	None	None	42527136	42528401	-1	CYP2D, CYP2D@	CYP2D7
HSCHR22_1_CTG1	CYP2D8P1	ENSG00000262055	ENST00000573149	unprocessed_pseudogene	KNOWN	None	2628	None	None	42533738	42538854	-1	CYP2DP1, CYP2D8P	None
HSCHR22_1_CTG1	TCF20	ENSG00000262024	ENST00000574943	protein_coding	KNOWN	None	11631	5883	1960	42543863	42599297	-1	None	AR1, SPBP
HSCHR22_1_CTG1	TCF20	ENSG00000262024	ENST00000576946	protein_coding	KNOWN	None	11631	5817	1938	42544906	42599295	-1	None	AR1, SPBP
HSCHR22_1_CTG1	TCF20	ENSG00000262024	ENST00000574269	protein_coding	PUTATIVE	None	11631	753	250	42544948	42594063	-1	None	AR1, SPBP
HSCHR22_1_CTG1	TCF20	ENSG00000262024	ENST00000574164	protein_coding	KNOWN	None	11631	459	152	42598702	42727524	-1	None	AR1, SPBP
HSCHR22_2_CTG1	FAM109B	ENSG00000272307	ENST00000606597	protein_coding	KNOWN	None	27161	780	259	42470255	42475445	1	None	DKFZp686J07229
HSCHR22_2_CTG1	FAM109B	ENSG00000272307	ENST00000605947	protein_coding	KNOWN	None	27161	325	107	42470361	42473622	1	None	DKFZp686J07229
HSCHR22_2_CTG1	SMDT1	ENSG00000271740	ENST00000606997	nonsense_mediated_decay	KNOWN	None	25055	174	57	42475695	42479357	1	C22orf32	dJ186O1.1, DDDD
HSCHR22_2_CTG1	SMDT1	ENSG00000271740	ENST00000607293	protein_coding	KNOWN	None	25055	324	107	42475699	42480288	1	C22orf32	dJ186O1.1, DDDD
HSCHR22_2_CTG1	SMDT1	ENSG00000271740	ENST00000607086	retained_intron	KNOWN	None	25055	None	None	42475704	42478229	1	C22orf32	dJ186O1.1, DDDD
HSCHR22_2_CTG1	SMDT1	ENSG00000271740	ENST00000606595	processed_transcript	KNOWN	None	25055	None	None	42475904	42520087	1	C22orf32	dJ186O1.1, DDDD
HSCHR22_2_CTG1	NDUFA6	ENSG00000272052	ENST00000606167	protein_coding	NOVEL	None	7690	387	128	42481529	42486783	-1	None	B14, LYRM6, CI-B14, NADHB14
HSCHR22_2_CTG1	NDUFA6	ENSG00000272052	ENST00000605916	protein_coding	KNOWN	None	7690	465	154	42481529	42486959	-1	None	B14, LYRM6, CI-B14, NADHB14
HSCHR22_2_CTG1	NDUFA6	ENSG00000272052	ENST00000607132	protein_coding	NOVEL	None	7690	216	71	42482120	42483339	-1	None	B14, LYRM6, CI-B14, NADHB14
HSCHR22_2_CTG1	None	ENSG00000272012	ENST00000606348	sense_intronic	KNOWN	None	None	None	None	42485634	42486032	-1	None	None
HSCHR22_2_CTG1	OLA1P1	ENSG00000271939	ENST00000606598	processed_pseudogene	KNOWN	None	45274	None	None	42503769	42504957	-1	None	None
HSCHR22_2_CTG1	CYP2D6	ENSG00000272532	ENST00000606955	nonsense_mediated_decay	KNOWN	None	2625	543	180	42522485	42525895	-1	CYP2DL1, CYP2D7P2, CYP2D7BP, CYP2D8P2, CYP2D7AP	CPD6, P450-DB1, CYP2D, P450C2D
HSCHR22_2_CTG1	CYP2D6	ENSG00000272532	ENST00000606249	protein_coding	KNOWN	None	2625	1494	497	42522485	42526892	-1	CYP2DL1, CYP2D7P2, CYP2D7BP, CYP2D8P2, CYP2D7AP	CPD6, P450-DB1, CYP2D, P450C2D
HSCHR22_2_CTG1	CYP2D6	ENSG00000272532	ENST00000607853	protein_coding	KNOWN	None	2625	1494	497	42522487	42526867	-1	CYP2DL1, CYP2D7P2, CYP2D7BP, CYP2D8P2, CYP2D7AP	CPD6, P450-DB1, CYP2D, P450C2D
HSCHR22_2_CTG1	CYP2D6	ENSG00000272532	ENST00000607511	retained_intron	KNOWN	None	2625	None	None	42522521	42526799	-1	CYP2DL1, CYP2D7P2, CYP2D7BP, CYP2D8P2, CYP2D7AP	CPD6, P450-DB1, CYP2D, P450C2D
HSCHR22_2_CTG1	CYP2D6	ENSG00000272532	ENST00000606649	protein_coding	KNOWN	None	2625	1341	446	42522542	42526851	-1	CYP2DL1, CYP2D7P2, CYP2D7BP, CYP2D8P2, CYP2D7AP	CPD6, P450-DB1, CYP2D, P450C2D
HSCHR22_2_CTG1	None	ENSG00000272284	ENST00000607192	processed_pseudogene	KNOWN	None	None	None	None	42528532	42528987	1	None	None
HSCHR22_2_CTG1	None	ENSG00000271903	ENST00000606045	sense_intronic	KNOWN	None	None	None	None	42532424	42548066	-1	None	None
HSCHR22_2_CTG1	None	ENSG00000272000	ENST00000607223	protein_coding	KNOWN	None	None	1494	497	42534644	42539024	-1	None	None
LRG_1	COL1A1	LRG_1	LRG_1t1	LRG_gene	KNOWN	None	2197	None	None	5001	22544	1	None	OI4
LRG_10	PPIB	LRG_10	LRG_10t1	LRG_gene	KNOWN	None	9255	None	None	5001	12341	1	None	CYPB, OI9
LRG_100	RASGRP2	LRG_100	LRG_100t1	LRG_gene	KNOWN	None	9879	None	None	5001	23546	1	None	CALDAG-GEFI
LRG_101	RFX5	LRG_101	LRG_101t1	LRG_gene	KNOWN	None	9986	None	None	5001	11654	1	None	None
LRG_102	RFXANK	LRG_102	LRG_102t1	LRG_gene	KNOWN	None	9987	None	None	5001	14671	1	None	BLS, RFX-B, ANKRA1, F14150_1, MGC138628
LRG_103	RFXAP	LRG_103	LRG_103t1	LRG_gene	KNOWN	None	9988	None	None	5001	15402	1	None	None
LRG_105	SERPING1	LRG_105	LRG_105t1	LRG_gene	KNOWN	None	1228	None	None	5001	22300	1	C1NH	C1IN, C1-INH, HAE1, HAE2
LRG_106	SH2D1A	LRG_106	LRG_106t1	LRG_gene	KNOWN	None	10820	None	None	4983	31861	1	IMD5, LYP	XLP, MTCP1, DSHP, XLPD, EBVS, SAP
LRG_107	SLC35C1	LRG_107	LRG_107t1	LRG_gene	KNOWN	None	20197	None	None	6019	13945	1	None	FUCT1, FLJ11320
LRG_108	SMARCAL1	LRG_108	LRG_108t1	LRG_gene	KNOWN	None	11102	None	None	5001	75640	1	None	HHARP, HARP
LRG_109	SP110	LRG_109	LRG_109t1	LRG_gene	KNOWN	None	5401	None	None	5001	56194	1	IFI41, IFI75	None
LRG_110	SPINK5	LRG_110	LRG_110t1	LRG_gene	KNOWN	None	15464	None	None	5001	78391	1	None	VAKTI, LEKTI, LETKI, NETS, NS, FLJ21544, FLJ97536, FLJ97596, FLJ99794, DKFZp686K19184
LRG_111	STAT1	LRG_111	LRG_111t1	LRG_gene	KNOWN	None	11362	None	None	5001	50215	1	None	STAT91, ISGF-3
LRG_113	STX11	LRG_113	LRG_113t1	LRG_gene	KNOWN	None	11429	None	None	5001	46423	1	None	None
LRG_114	TAPBP	LRG_114	LRG_114t1	LRG_gene	KNOWN	None	11566	None	None	4826	19519	1	None	TAPA
LRG_115	TCIRG1	LRG_115	LRG_115t1	LRG_gene	KNOWN	None	11647	None	None	5001	16884	1	None	TIRC7, OC-116, OC116, ATP6N1C, Atp6i, a3, ATP6V0A3
LRG_116	TCN2	LRG_116	LRG_116t1	LRG_gene	KNOWN	None	11653	None	None	5001	24887	1	None	D22S676, D22S750, TC2
LRG_117	TLR3	LRG_117	LRG_117t1	LRG_gene	KNOWN	None	11849	None	None	5001	20944	1	None	CD283
LRG_118	TMC6	LRG_118	LRG_118t1	LRG_gene	KNOWN	None	18021	None	None	5001	24490	1	EVER1	LAK-4P, EVIN1
LRG_119	TMC8	LRG_119	LRG_119t1	LRG_gene	KNOWN	None	20474	None	None	5001	17191	1	EVER2	EVIN2
LRG_12	FKBP10	LRG_12	LRG_12t1	LRG_gene	KNOWN	None	18169	None	None	5001	15508	1	None	hFKBP65, FLJ22041, FKBP6, FLJ20683, FLJ23833
LRG_120	TNFRSF13B	LRG_120	LRG_120t1	LRG_gene	KNOWN	None	18153	None	None	5001	38005	1	None	TACI, CD267
LRG_122	UNC13D	LRG_122	LRG_122t1	LRG_gene	KNOWN	None	23147	None	None	5001	22493	1	None	Munc13-4
LRG_123	UNC93B1	LRG_123	LRG_123t1	LRG_gene	KNOWN	None	13481	None	None	5001	18020	1	None	UNC93
LRG_124	UNG	LRG_124	LRG_124t1	LRG_gene	KNOWN	None	12572	None	None	5001	18384	1	DGU	UDG, UNG1, UNG2, HIGM4
LRG_125	WAS	LRG_125	LRG_125t1	LRG_gene	KNOWN	None	12731	None	None	5001	12633	1	IMD2, THC	WASP
LRG_126	ZAP70	LRG_126	LRG_126t1	LRG_gene	KNOWN	None	12858	None	None	5001	31293	1	SRK	ZAP-70, STD
LRG_127	CD55	LRG_127	LRG_127t1	LRG_gene	KNOWN	None	2665	None	None	5001	44495	1	DAF	CR, TC, CROM
LRG_128	BTK	LRG_128	LRG_128t1	LRG_gene	KNOWN	None	1133	None	None	5001	41778	1	AGMX1, IMD1	ATK, XLA, PSCTK1
LRG_129	CFP	LRG_129	LRG_129t1	LRG_gene	KNOWN	None	8864	None	None	5001	11093	1	PFC	None
LRG_13	CALCA	LRG_13	LRG_13t2	LRG_gene	KNOWN	None	1437	None	None	5001	8786	1	CALC1	None
LRG_13	CALCA	LRG_13	LRG_13t1	LRG_gene	KNOWN	None	1437	None	None	5001	10618	1	CALC1	None
LRG_132	ACTB	LRG_132	LRG_132t1	LRG_gene	KNOWN	None	132	None	None	5001	8454	1	None	None
LRG_133	AK2	LRG_133	LRG_133t1	LRG_gene	KNOWN	None	362	None	None	5001	33907	1	None	None
LRG_134	FAS	LRG_134	LRG_134t1	LRG_gene	KNOWN	None	11920	None	None	5001	30255	1	FAS1, APT1, TNFRSF6	CD95, APO-1
LRG_135	ATM	LRG_135	LRG_135t1	LRG_gene	KNOWN	None	795	None	None	5001	151268	1	ATA, ATDC, ATC, ATD	TEL1, TELO1
LRG_136	CFB	LRG_136	LRG_136t1	LRG_gene	KNOWN	None	1037	None	None	5001	11141	1	BFD, BF	H2-Bf
LRG_137	C4A	LRG_137	LRG_137t1	LRG_gene	KNOWN	None	1323	None	None	5001	25624	1	None	CPAMD2, C4S, CO4, C4, C4A3, C4A2, C4A4, C4A6, C4B, RG
LRG_138	C4B	LRG_138	LRG_138t1	LRG_gene	KNOWN	None	1324	None	None	5002	25625	1	None	CPAMD3, C4F, CO4, C4B1, C4B3, CH
LRG_138	C4B_2	LRG_138	LRG_138t1	LRG_gene	KNOWN	None	42398	None	None	5002	25625	1	None	None
LRG_139	C8A	LRG_139	LRG_139t1	LRG_gene	KNOWN	None	1352	None	None	5001	68452	1	None	None
LRG_140	MS4A1	LRG_140	LRG_140t1	LRG_gene	KNOWN	None	7315	None	None	5001	19944	1	CD20	B1, Bp35, MS4A2
LRG_141	CD40LG	LRG_141	LRG_141t1	LRG_gene	KNOWN	None	11935	None	None	5001	17214	1	HIGM1, IMD3, TNFSF5	CD40L, TRAP, gp39, hCD40L, CD154
LRG_142	CD81	LRG_142	LRG_142t1	LRG_gene	KNOWN	None	1701	None	None	5001	25103	1	TAPA1	TAPA-1, TSPAN28
LRG_144	CSF3R	LRG_144	LRG_144t1	LRG_gene	KNOWN	None	2439	None	None	4595	21866	1	CD114	GCSFR
LRG_145	F12	LRG_145	LRG_145t1	LRG_gene	KNOWN	None	3530	None	None	5001	12439	1	None	None
LRG_146	FPR1	LRG_146	LRG_146t1	LRG_gene	KNOWN	None	3826	None	None	5001	11125	1	None	FPR, FMLP
LRG_147	G6PC	LRG_147	LRG_147t1	LRG_gene	KNOWN	None	4056	None	None	5001	17572	1	G6PT	GSD1a
LRG_148	G6PD	LRG_148	LRG_148t1	LRG_gene	KNOWN	None	4057	None	None	5555	21182	1	None	G6PD1
LRG_149	CFHR1	LRG_149	LRG_149t1	LRG_gene	KNOWN	None	4888	None	None	5001	17459	1	HFL1, CFHL1, CFHR1P, HFL2, CFHL1P	H36-1, FHR1, CFHL, H36-2
LRG_15	UBE3A	LRG_15	LRG_15t1	LRG_gene	KNOWN	None	12496	None	None	38476	106733	1	EPVE6AP, HPVE6A	AS, ANCR, E6-AP, FLJ26981
LRG_150	IL2RG	LRG_150	LRG_150t1	LRG_gene	KNOWN	None	6010	None	None	4923	9150	1	SCIDX1, IMD4, CIDX	CD132
LRG_151	IL10RA	LRG_151	LRG_151t1	LRG_gene	KNOWN	None	5964	None	None	5001	20093	1	IL10R	HIL-10R, CDW210A, CD210a, CD210
LRG_152	IL10RB	LRG_152	LRG_152t1	LRG_gene	KNOWN	None	5965	None	None	5001	35849	1	CRFB4, D21S58, D21S66	CRF2-4, CDW210B, IL-10R2
LRG_154	MBL2	LRG_154	LRG_154t1	LRG_gene	KNOWN	None	6922	None	None	5001	11321	1	MBL	COLEC1
LRG_155	CD46	LRG_155	LRG_155t1	LRG_gene	KNOWN	None	6953	None	None	4982	48460	1	MIC10, MCP	TRA2.10, MGC26544, TLX
LRG_156	MVK	LRG_156	LRG_156t1	LRG_gene	KNOWN	None	7530	None	None	5001	28572	1	None	LRBP, MK
LRG_157	MYD88	LRG_157	LRG_157t1	LRG_gene	KNOWN	None	7562	None	None	5001	9545	1	None	None
LRG_158	NBN	LRG_158	LRG_158t1	LRG_gene	KNOWN	None	7652	None	None	5001	56336	1	NBS, NBS1	ATV, AT-V2, AT-V1
LRG_159	NCF4	LRG_159	LRG_159t1	LRG_gene	KNOWN	None	7662	None	None	5001	22030	1	None	p40phox, SH3PXD4
LRG_16	ADA	LRG_16	LRG_16t1	LRG_gene	KNOWN	None	186	None	None	5001	37214	1	None	None
LRG_160	PIGA	LRG_160	LRG_160t1	LRG_gene	KNOWN	None	8957	None	None	4985	21088	1	None	GPI3
LRG_162	PRKDC	LRG_162	LRG_162t1	LRG_gene	KNOWN	None	9413	None	None	5001	192076	1	HYRC, HYRC1	DNPK1, p350, DNAPK, XRCC7, DNA-PKcs
LRG_164	STIM1	LRG_164	LRG_164t1	LRG_gene	KNOWN	None	11386	None	None	5001	242508	1	None	GOK, D11S4896E
LRG_165	STXBP2	LRG_165	LRG_165t1	LRG_gene	KNOWN	None	11445	None	None	5001	15769	1	None	UNC18B, Hunc18b
LRG_168	THBD	LRG_168	LRG_168t1	LRG_gene	KNOWN	None	11784	None	None	5001	9032	1	None	CD141
LRG_169	APOL1	LRG_169	LRG_169t1	LRG_gene	KNOWN	None	618	None	None	5001	19461	1	APOL	None
LRG_17	AICDA	LRG_17	LRG_17t1	LRG_gene	KNOWN	None	13203	None	None	5001	15681	1	None	HIGM2, CDA2, ARP2, AID
LRG_171	FCN3	LRG_171	LRG_171t1	LRG_gene	KNOWN	None	3625	None	None	5001	10715	1	None	FCNH, HAKA1
LRG_172	PSTPIP1	LRG_172	LRG_172t1	LRG_gene	KNOWN	None	9580	None	None	5001	47207	1	None	PSTPIP, CD2BP1L, CD2BP1, CD2BP1S, H-PIP, PAPAS
LRG_173	TTC37	LRG_173	LRG_173t1	LRG_gene	KNOWN	None	23639	None	None	5001	96111	1	KIAA0372	None
LRG_174	LPIN2	LRG_174	LRG_174t1	LRG_gene	KNOWN	None	14450	None	None	5001	99954	1	None	KIAA0249
LRG_175	CFHR3	LRG_175	LRG_175t1	LRG_gene	KNOWN	None	16980	None	None	5001	24274	1	CFHL3	FHR-3, HLF4, FHR3, DOWN16
LRG_176	CHD7	LRG_176	LRG_176t1	LRG_gene	KNOWN	None	20626	None	None	5001	193127	1	None	KIAA1416, FLJ20357, FLJ20361
LRG_177	NOD2	LRG_177	LRG_177t1	LRG_gene	KNOWN	None	5331	None	None	5001	40938	1	IBD1, CARD15	BLAU, CD, PSORAS1, CLR16.3, NLRC2
LRG_178	CARD9	LRG_178	LRG_178t1	LRG_gene	KNOWN	None	16391	None	None	5001	14726	1	None	None
LRG_179	CLEC7A	LRG_179	LRG_179t1	LRG_gene	KNOWN	None	14558	None	None	5001	18493	1	CLECSF12	dectin-1, hDectin-1
LRG_18	AIRE	LRG_18	LRG_18t1	LRG_gene	KNOWN	None	360	None	None	5001	17340	1	APECED	PGA1, APS1
LRG_180	FERMT3	LRG_180	LRG_180t1	LRG_gene	KNOWN	None	23151	None	None	5001	22212	1	None	URP2, KIND3, MIG2B, MGC10966, MIG-2, UNC112C
LRG_182	G6PC3	LRG_182	LRG_182t1	LRG_gene	KNOWN	None	24861	None	None	5001	10615	1	None	UGRP
LRG_183	SLC46A1	LRG_183	LRG_183t1	LRG_gene	KNOWN	None	30521	None	None	5001	16567	1	None	HCP1, MGC9564, PCFT
LRG_184	TNFRSF13C	LRG_184	LRG_184t1	LRG_gene	KNOWN	None	17755	None	None	5001	6786	1	None	BAFFR, CD268
LRG_187	SLC37A4	LRG_187	LRG_187t1	LRG_gene	KNOWN	None	4061	None	None	5001	11555	1	G6PT1, G6PT2, G6PT3	GSD1b, GSD1c, GSD1d
LRG_188	IL1RN	LRG_188	LRG_188t1	LRG_gene	KNOWN	None	6000	None	None	5001	21124	1	None	IL1RA, ICIL-1RA, IL1F3, IRAP, IL-1RN, MGC10430
LRG_189	ITK	LRG_189	LRG_189t1	LRG_gene	KNOWN	None	6171	None	None	5001	79203	1	None	EMT, PSCTK2, LYK
LRG_190	MEFV	LRG_190	LRG_190t1	LRG_gene	KNOWN	None	6998	None	None	5001	19600	1	MEF	FMF, TRIM20
LRG_193	TNFRSF1A	LRG_193	LRG_193t1	LRG_gene	KNOWN	None	11916	None	None	4979	18339	1	TNFR1	TNF-R, TNFAR, TNFR60, TNF-R-I, CD120a, TNF-R55
LRG_194	TNFRSF11A	LRG_194	LRG_194t1	LRG_gene	KNOWN	None	11908	None	None	5001	65957	1	None	RANK, CD265
LRG_195	CORO1A	LRG_195	LRG_195t1	LRG_gene	KNOWN	None	2252	None	None	5001	10472	1	None	HCORO1, p57, coronin-1
LRG_196	DOCK8	LRG_196	LRG_196t1	LRG_gene	KNOWN	None	19191	None	None	5001	255395	1	None	FLJ00026, FLJ00152, ZIR8, FLJ00346
LRG_197	NLRP3	LRG_197	LRG_197t1	LRG_gene	KNOWN	None	16400	None	None	6877	37936	1	C1orf7, CIAS1	AGTAVPRL, AII, AVP, FCAS, FCU, NALP3, PYPAF1, MWS, CLR1.1
LRG_198	AGRN	LRG_198	LRG_198t1	LRG_gene	KNOWN	None	329	None	None	5001	40990	1	None	AGRIN
LRG_199	DMD	LRG_199	LRG_199t1	LRG_gene	KNOWN	None	2928	None	None	133054	2225382	1	None	BMD, DXS142, DXS164, DXS206, DXS230, DXS239, DXS268, DXS269, DXS270, DXS272
LRG_2	COL1A2	LRG_2	LRG_2t1	LRG_gene	KNOWN	None	2198	None	None	5001	41672	1	OI4	None
LRG_200	MSTN	LRG_200	LRG_200t1	LRG_gene	KNOWN	None	4223	None	None	5001	12030	1	GDF8	None
LRG_201	MYOT	LRG_201	LRG_201t1	LRG_gene	KNOWN	None	12399	None	None	5001	24996	1	TTID, LGMD1A, LGMD1	None
LRG_202	NEB	LRG_202	LRG_202t1	LRG_gene	KNOWN	None	7720	None	None	5001	254149	1	NEM2	NEB177D
LRG_203	SGCA	LRG_203	LRG_203t1	LRG_gene	KNOWN	None	10805	None	None	5001	14928	1	ADL	SCARMD1, LGMD2D, adhalin, DMDA2, A2
LRG_204	SGCB	LRG_204	LRG_204t1	LRG_gene	KNOWN	None	10806	None	None	5001	22625	1	LGMD2E	SGC, A3b
LRG_205	SGCD	LRG_205	LRG_205t1	LRG_gene	KNOWN	None	10807	None	None	461414	902446	1	None	DAGD, LGMD2F, CMD1L
LRG_207	SGCG	LRG_207	LRG_207t1	LRG_gene	KNOWN	None	10809	None	None	5001	149245	1	DMDA1, MAM, LGMD2C	SCARMD2, DAGA4, SCG3, DMDA, TYPE, A4, MGC130048
LRG_208	SGCZ	LRG_208	LRG_208t1	LRG_gene	KNOWN	None	14075	None	None	5001	1153420	1	None	ZSG1
LRG_209	SSPN	LRG_209	LRG_209t2	LRG_gene	KNOWN	None	11322	None	None	78583	117787	1	KRAG	SPN1, SPN2
LRG_209	SSPN	LRG_209	LRG_209t1	LRG_gene	KNOWN	None	11322	None	None	78346	117787	1	KRAG	SPN1, SPN2
LRG_21	BLNK	LRG_21	LRG_21t1	LRG_gene	KNOWN	None	14211	None	None	9994	89872	1	None	SLP65, Ly57, SLP-65, BLNK-s, BASH, bca
LRG_210	TCAP	LRG_210	LRG_210t1	LRG_gene	KNOWN	None	11610	None	None	5001	6209	1	LGMD2G	T-cap, TELE, telethonin, CMD1N
LRG_211	TRIM32	LRG_211	LRG_211t1	LRG_gene	KNOWN	None	16380	None	None	5001	18999	1	LGMD2H	HT2A, TATIP, BBS11
LRG_212	ZMPSTE24	LRG_212	LRG_212t1	LRG_gene	KNOWN	None	12877	None	None	5001	41124	1	None	FACE-1, Ste24p, STE24, HGPS, PRO1
LRG_213	CFL2	LRG_213	LRG_213t1	LRG_gene	KNOWN	None	1875	None	None	5001	9442	1	None	NEM7
LRG_214	NF1	LRG_214	LRG_214t2	LRG_gene	KNOWN	None	7765	None	None	4951	287701	1	None	None
LRG_214	NF1	LRG_214	LRG_214t1	LRG_gene	KNOWN	None	7765	None	None	4951	287701	1	None	None
LRG_215	EPCAM	LRG_215	LRG_215t1	LRG_gene	KNOWN	None	11529	None	None	28986	46866	1	M4S1, MIC18, TACSTD1	Ly74, TROP1, GA733-2, EGP34, EGP40, EGP-2, KSA, CD326, Ep-CAM, HEA125, KS1/4, MK-1, MH99, MOC31, 323/A3, 17-1A, TACST-1, CO-17A, ESA
LRG_216	MLH1	LRG_216	LRG_216t1	LRG_gene	KNOWN	None	7127	None	None	5001	62497	1	COCA2	HNPCC, FCC2, HNPCC2
LRG_217	MLH3	LRG_217	LRG_217t1	LRG_gene	KNOWN	None	7128	None	None	5001	42769	1	None	None
LRG_218	MSH2	LRG_218	LRG_218t1	LRG_gene	KNOWN	None	7325	None	None	4944	85105	1	COCA1	HNPCC, HNPCC1
LRG_219	MSH6	LRG_219	LRG_219t1	LRG_gene	KNOWN	None	7329	None	None	4936	28807	1	GTBP	None
LRG_22	C1QA	LRG_22	LRG_22t1	LRG_gene	KNOWN	None	1241	None	None	5001	8058	1	None	None
LRG_220	MUTYH	LRG_220	LRG_220t1	LRG_gene	KNOWN	None	7527	None	None	5001	16229	1	None	MYH
LRG_221	PMS1	LRG_221	LRG_221t1	LRG_gene	KNOWN	None	9121	None	None	5001	98545	1	PMSL1	None
LRG_226	TBX1	LRG_226	LRG_226t1	LRG_gene	KNOWN	None	11592	None	None	5001	15630	1	None	None
LRG_227	CFHR5	LRG_227	LRG_227t1	LRG_gene	KNOWN	None	24668	None	None	5001	37138	1	CFHL5	FHR5, FHR-5
LRG_228	FADD	LRG_228	LRG_228t1	LRG_gene	KNOWN	None	3573	None	None	5001	9240	1	None	MORT1, GIG3
LRG_229	TRAF3	LRG_229	LRG_229t1	LRG_gene	KNOWN	None	12033	None	None	5001	139022	1	None	CAP-1, CD40bp, CRAF1, LAP1
LRG_23	C1QB	LRG_23	LRG_23t1	LRG_gene	KNOWN	None	1242	None	None	5001	13348	1	None	None
LRG_230	COL4A3	LRG_230	LRG_230t1	LRG_gene	KNOWN	None	2204	None	None	5001	155228	1	None	None
LRG_231	COL4A4	LRG_231	LRG_231t1	LRG_gene	KNOWN	None	2206	None	None	5001	166849	1	None	CA44
LRG_234	ARHGEF10	LRG_234	LRG_234t1	LRG_gene	KNOWN	None	14103	None	None	5001	139659	1	None	KIAA0294, Gef10
LRG_236	CTDP1	LRG_236	LRG_236t1	LRG_gene	KNOWN	None	2498	None	None	5001	79710	1	None	FCP1
LRG_239	EGR2	LRG_239	LRG_239t1	LRG_gene	KNOWN	None	3239	None	None	108535	112904	1	KROX20	None
LRG_24	C1QC	LRG_24	LRG_24t2	LRG_gene	KNOWN	None	1245	None	None	5030	9486	1	C1QG	None
LRG_24	C1QC	LRG_24	LRG_24t1	LRG_gene	KNOWN	None	1245	None	None	5001	9486	1	C1QG	None
LRG_241	FIG4	LRG_241	LRG_241t1	LRG_gene	KNOWN	None	16873	None	None	5001	139211	1	KIAA0274	SAC3, hSac3, dJ249I4.1, ALS11, CMT4J
LRG_242	GAN	LRG_242	LRG_242t1	LRG_gene	KNOWN	None	4137	None	None	5001	70233	1	None	GAN1, KLHL16
LRG_243	GARS	LRG_243	LRG_243t1	LRG_gene	KNOWN	None	4162	None	None	5001	44469	1	CMT2D	GlyRS, DSMAV, SMAD1
LRG_245	GJB1	LRG_245	LRG_245t1	LRG_gene	KNOWN	None	4283	None	None	5001	15004	1	CMTX1, CMTX	CX32
LRG_246	HOXD10	LRG_246	LRG_246t1	LRG_gene	KNOWN	None	5133	None	None	10001	13179	1	HOX4, HOX4D	None
LRG_248	HSPB1	LRG_248	LRG_248t1	LRG_gene	KNOWN	None	5246	None	None	5001	6740	1	None	HSP27, HSP28, Hs.76067, Hsp25
LRG_249	HSPB8	LRG_249	LRG_249t1	LRG_gene	KNOWN	None	30171	None	None	5001	20957	1	None	H11, E2IG1, HSP22, HspB8
LRG_25	C1S	LRG_25	LRG_25t1	LRG_gene	KNOWN	None	1247	None	None	5001	15357	1	None	None
LRG_250	IGHMBP2	LRG_250	LRG_250t1	LRG_gene	KNOWN	None	5542	None	None	5001	41751	1	None	ZFAND7, SMUBP2, CATF1, SMARD1, HCSA, HMN6
LRG_251	IKBKAP	LRG_251	LRG_251t1	LRG_gene	KNOWN	None	5959	None	None	5001	71809	1	DYS	IKAP, TOT1, ELP1, IKI3
LRG_252	KIF1B	LRG_252	LRG_252t1	LRG_gene	KNOWN	None	16636	None	None	5001	175898	1	CMT2A, CMT2	KIAA0591, KLP, HMSNII
LRG_253	LITAF	LRG_253	LRG_253t1	LRG_gene	KNOWN	None	16841	None	None	5001	44229	1	None	PIG7, SIMPLE, FLJ38636, TP53I7
LRG_255	MFN2	LRG_255	LRG_255t1	LRG_gene	KNOWN	None	16877	None	None	5001	38335	1	None	CPRP1, KIAA0214, MARF, CMT2A2
LRG_256	MPZ	LRG_256	LRG_256t1	LRG_gene	KNOWN	None	7225	None	None	5001	10238	1	CMT1, CMT1B	HMSNIB
LRG_257	MTMR2	LRG_257	LRG_257t1	LRG_gene	KNOWN	None	7450	None	None	5001	96328	1	CMT4B	KIAA1073
LRG_258	NDRG1	LRG_258	LRG_258t1	LRG_gene	KNOWN	None	7679	None	None	4952	65085	1	CAP43	DRG1, RTP, TDD5, NDR1
LRG_26	C2	LRG_26	LRG_26t1	LRG_gene	KNOWN	None	1248	None	None	5001	23184	1	None	None
LRG_260	NGF	LRG_260	LRG_260t1	LRG_gene	KNOWN	None	7808	None	None	5001	57321	1	NGFB	None
LRG_261	NTRK1	LRG_261	LRG_261t3	LRG_gene	KNOWN	None	8031	None	None	50130	71101	1	None	TRK, TRKA, MTC
LRG_261	NTRK1	LRG_261	LRG_261t1	LRG_gene	KNOWN	None	8031	None	None	5001	71101	1	None	TRK, TRKA, MTC
LRG_261	NTRK1	LRG_261	LRG_261t2	LRG_gene	KNOWN	None	8031	None	None	50130	71101	1	None	TRK, TRKA, MTC
LRG_262	PLEKHG5	LRG_262	LRG_262t1	LRG_gene	KNOWN	None	29105	None	None	33310	58918	1	None	KIAA0720, Syx, GEF720, Tech
LRG_263	PMP22	LRG_263	LRG_263t1	LRG_gene	KNOWN	None	9118	None	None	5001	40548	1	None	HNPP, GAS-3, Sp110
LRG_264	PRPS1	LRG_264	LRG_264t1	LRG_gene	KNOWN	None	9462	None	None	5001	27603	1	DFN2	CMTX5, DFNX1
LRG_265	PRX	LRG_265	LRG_265t2	LRG_gene	KNOWN	None	13797	None	None	5001	24601	1	None	KIAA1620
LRG_265	PRX	LRG_265	LRG_265t1	LRG_gene	KNOWN	None	13797	None	None	5001	24601	1	None	KIAA1620
LRG_266	RAB7A	LRG_266	LRG_266t1	LRG_gene	KNOWN	None	9788	None	None	5001	93663	1	RAB7	None
LRG_267	SBF2	LRG_267	LRG_267t1	LRG_gene	KNOWN	None	2135	None	None	5001	520541	1	CMT4B2	KIAA1766, MTMR13, DENND7B
LRG_268	SETX	LRG_268	LRG_268t1	LRG_gene	KNOWN	None	445	None	None	5001	98546	1	ALS4, SCAR1	KIAA0625, AOA2
LRG_269	SH3TC2	LRG_269	LRG_269t1	LRG_gene	KNOWN	None	29427	None	None	5001	86025	1	None	KIAA1985, CMT4C
LRG_27	C3	LRG_27	LRG_27t1	LRG_gene	KNOWN	None	1318	None	None	5001	47817	1	None	CPAMD1, ARMD9, C3a, C3b
LRG_271	SOX10	LRG_271	LRG_271t1	LRG_gene	KNOWN	None	11190	None	None	5001	17221	1	None	DOM, WS4, WS2E
LRG_272	SPTLC1	LRG_272	LRG_272t1	LRG_gene	KNOWN	None	11277	None	None	5001	89264	1	HSN1	LCB1, SPTI, HSAN1, hLCB1
LRG_273	YARS	LRG_273	LRG_273t1	LRG_gene	KNOWN	None	12840	None	None	5001	47794	1	None	YTS, YRS, tyrRS
LRG_274	LDLR	LRG_274	LRG_274t1	LRG_gene	KNOWN	None	6547	None	None	4982	49450	1	None	LDLCQ2
LRG_275	PCSK9	LRG_275	LRG_275t1	LRG_gene	KNOWN	None	20001	None	None	4930	30307	1	HCHOLA3	NARC-1, FH3
LRG_276	LDLRAP1	LRG_276	LRG_276t1	LRG_gene	KNOWN	None	18640	None	None	5001	30302	1	None	ARH, ARH2, FHCB1, FHCB2, MGC34705, DKFZp586D0624
LRG_28	C5	LRG_28	LRG_28t1	LRG_gene	KNOWN	None	1331	None	None	5001	102942	1	None	CPAMD4, C5a, C5b
LRG_284	ZNF778	LRG_284	LRG_284t1	LRG_gene	KNOWN	None	26479	None	None	5001	16855	1	None	FLJ31875
LRG_285	FXR2	LRG_285	LRG_285t1	LRG_gene	KNOWN	None	4024	None	None	5001	28668	1	FMR1L2	None
LRG_286	COL7A1	LRG_286	LRG_286t1	LRG_gene	KNOWN	None	2214	None	None	5093	36180	1	EBDCT, EBD1, EBR1	None
LRG_287	KCNQ1	LRG_287	LRG_287t2	LRG_gene	KNOWN	None	6294	None	None	21464	409120	1	LQT, KCNA9	Kv7.1, KCNA8, KVLQT1, JLNS1, LQT1
LRG_287	KCNQ1	LRG_287	LRG_287t1	LRG_gene	KNOWN	None	6294	None	None	5001	409120	1	LQT, KCNA9	Kv7.1, KCNA8, KVLQT1, JLNS1, LQT1
LRG_288	KCNH2	LRG_288	LRG_288t3	LRG_gene	KNOWN	None	6251	None	None	27098	37971	1	LQT2	Kv11.1, HERG, erg1
LRG_288	KCNH2	LRG_288	LRG_288t2	LRG_gene	KNOWN	None	6251	None	None	4613	33518	1	LQT2	Kv11.1, HERG, erg1
LRG_288	KCNH2	LRG_288	LRG_288t1	LRG_gene	KNOWN	None	6251	None	None	4613	37971	1	LQT2	Kv11.1, HERG, erg1
LRG_289	SCN5A	LRG_289	LRG_289t3	LRG_gene	KNOWN	None	10593	None	None	5001	106611	1	CMD1E	Nav1.5, LQT3, HB1, HBBD, PFHB1, IVF, HB2, HH1, SSS1, CDCD2, CMPD2, ICCD
LRG_289	SCN5A	LRG_289	LRG_289t2	LRG_gene	KNOWN	None	10593	None	None	5001	106611	1	CMD1E	Nav1.5, LQT3, HB1, HBBD, PFHB1, IVF, HB2, HH1, SSS1, CDCD2, CMPD2, ICCD
LRG_289	SCN5A	LRG_289	LRG_289t1	LRG_gene	KNOWN	None	10593	None	None	5001	106611	1	CMD1E	Nav1.5, LQT3, HB1, HBBD, PFHB1, IVF, HB2, HH1, SSS1, CDCD2, CMPD2, ICCD
LRG_29	C6	LRG_29	LRG_29t1	LRG_gene	KNOWN	None	1339	None	None	52874	124205	1	None	None
LRG_290	KCNE1	LRG_290	LRG_290t2	LRG_gene	KNOWN	None	6240	None	None	60551	69626	1	None	minK, ISK, JLNS2, LQT5
LRG_290	KCNE1	LRG_290	LRG_290t1	LRG_gene	KNOWN	None	6240	None	None	5001	69626	1	None	minK, ISK, JLNS2, LQT5
LRG_291	KCNE2	LRG_291	LRG_291t1	LRG_gene	KNOWN	None	6242	None	None	5001	12118	1	None	MiRP1, LQT6
LRG_292	BRCA1	LRG_292	LRG_292t1	LRG_gene	KNOWN	None	1100	None	None	92501	173689	1	None	RNF53, BRCC1, PPP1R53
LRG_293	BRCA2	LRG_293	LRG_293t1	LRG_gene	KNOWN	None	1101	None	None	5001	89193	1	FANCD1, FACD, FANCD	FAD, FAD1, BRCC2
LRG_294	IRF8	LRG_294	LRG_294t1	LRG_gene	KNOWN	None	5358	None	None	5001	28439	1	ICSBP1	IRF-8, ICSBP
LRG_296	AXIN2	LRG_296	LRG_296t1	LRG_gene	KNOWN	None	904	None	None	5001	38060	1	None	MGC126582, DKFZp781B0869
LRG_298	BMPR1A	LRG_298	LRG_298t1	LRG_gene	KNOWN	None	1076	None	None	5001	173550	1	ACVRLK3	ALK3, CD292
LRG_3	COL3A1	LRG_3	LRG_3t1	LRG_gene	KNOWN	None	2201	None	None	5001	43374	1	EDS4A	None
LRG_30	C7	LRG_30	LRG_30t1	LRG_gene	KNOWN	None	1346	None	None	5001	78443	1	None	None
LRG_301	CDH1	LRG_301	LRG_301t1	LRG_gene	KNOWN	None	1748	None	None	5001	103250	1	UVO	uvomorulin, CD324
LRG_31	C8B	LRG_31	LRG_31t1	LRG_gene	KNOWN	None	1353	None	None	5001	41806	1	None	None
LRG_311	PTEN	LRG_311	LRG_311t1	LRG_gene	KNOWN	None	9588	None	None	5001	110337	1	BZS, MHAM	MMAC1, TEP1, PTEN1
LRG_317	SDHC	LRG_317	LRG_317t1	LRG_gene	KNOWN	None	10682	None	None	5001	55376	1	PGL3	None
LRG_318	SMAD4	LRG_318	LRG_318t1	LRG_gene	KNOWN	None	6770	None	None	67174	122003	1	MADH4	DPC4
LRG_319	STK11	LRG_319	LRG_319t1	LRG_gene	KNOWN	None	11389	None	None	21393	44029	1	None	PJS, LKB1
LRG_32	C9	LRG_32	LRG_32t1	LRG_gene	KNOWN	None	1358	None	None	5001	85279	1	None	None
LRG_321	TP53	LRG_321	LRG_321t8	LRG_gene	KNOWN	None	11998	None	None	5001	24149	1	None	p53, LFS1
LRG_321	TP53	LRG_321	LRG_321t7	LRG_gene	KNOWN	None	11998	None	None	17058	24149	1	None	p53, LFS1
LRG_321	TP53	LRG_321	LRG_321t6	LRG_gene	KNOWN	None	11998	None	None	17058	24149	1	None	p53, LFS1
LRG_321	TP53	LRG_321	LRG_321t5	LRG_gene	KNOWN	None	11998	None	None	17058	24149	1	None	p53, LFS1
LRG_321	TP53	LRG_321	LRG_321t4	LRG_gene	KNOWN	None	11998	None	None	5001	24149	1	None	p53, LFS1
LRG_321	TP53	LRG_321	LRG_321t3	LRG_gene	KNOWN	None	11998	None	None	5001	24149	1	None	p53, LFS1
LRG_321	TP53	LRG_321	LRG_321t2	LRG_gene	KNOWN	None	11998	None	None	5001	24149	1	None	p53, LFS1
LRG_321	TP53	LRG_321	LRG_321t1	LRG_gene	KNOWN	None	11998	None	None	5001	24149	1	None	p53, LFS1
LRG_325	FLCN	LRG_325	LRG_325t1	LRG_gene	KNOWN	None	27310	None	None	5001	29977	1	None	BHD, MGC17998, MGC23445
LRG_326	ZBTB24	LRG_326	LRG_326t1	LRG_gene	KNOWN	None	21143	None	None	5001	25722	1	ZNF450	KIAA0441, BIF1, PATZ2
LRG_328	KCNJ2	LRG_328	LRG_328t1	LRG_gene	KNOWN	None	6263	None	None	5001	15510	1	None	Kir2.1, IRK1, LQT7
LRG_329	CAV3	LRG_329	LRG_329t1	LRG_gene	KNOWN	None	1529	None	None	4991	17956	1	None	VIP-21, LGMD1C, VIP21, LQT9
LRG_33	CASP10	LRG_33	LRG_33t1	LRG_gene	KNOWN	None	1500	None	None	4767	43529	1	None	MCH4
LRG_330	SCN4B	LRG_330	LRG_330t1	LRG_gene	KNOWN	None	10592	None	None	5001	24539	1	None	LQT10
LRG_331	AKAP9	LRG_331	LRG_331t1	LRG_gene	KNOWN	None	379	None	None	5001	174799	1	None	KIAA0803, AKAP350, AKAP450, CG-NAP, YOTIAO, HYPERION, PRKA9, MU-RMS-40.16A, PPP1R45, LQT11
LRG_332	SNTA1	LRG_332	LRG_332t1	LRG_gene	KNOWN	None	11167	None	None	5001	40936	1	SNT1	TACIP1, LQT12
LRG_333	KCNJ5	LRG_333	LRG_333t1	LRG_gene	KNOWN	None	6266	None	None	5001	31652	1	None	Kir3.4, CIR, KATP1, GIRK4, LQT13
LRG_334	CACNA1C	LRG_334	LRG_334t4	LRG_gene	KNOWN	None	1390	None	None	87465	732164	1	CCHL1A1, CACNL1A1	Cav1.2, CACH2, CACN2, TS, LQT8
LRG_334	CACNA1C	LRG_334	LRG_334t3	LRG_gene	KNOWN	None	1390	None	None	87465	732164	1	CCHL1A1, CACNL1A1	Cav1.2, CACH2, CACN2, TS, LQT8
LRG_334	CACNA1C	LRG_334	LRG_334t2	LRG_gene	KNOWN	None	1390	None	None	87465	732164	1	CCHL1A1, CACNL1A1	Cav1.2, CACH2, CACN2, TS, LQT8
LRG_334	CACNA1C	LRG_334	LRG_334t1	LRG_gene	KNOWN	None	1390	None	None	87465	732164	1	CCHL1A1, CACNL1A1	Cav1.2, CACH2, CACN2, TS, LQT8
LRG_335	ELF4	LRG_335	LRG_335t1	LRG_gene	KNOWN	None	3319	None	None	5214	50794	1	None	MEF, ELFR
LRG_336	CPS1	LRG_336	LRG_336t1	LRG_gene	KNOWN	None	2323	None	None	83915	206423	1	None	None
LRG_337	OPA1	LRG_337	LRG_337t2	LRG_gene	KNOWN	None	8140	None	None	5001	109668	1	None	NTG, KIAA0567, FLJ12460, NPG, MGM1
LRG_337	OPA1	LRG_337	LRG_337t1	LRG_gene	KNOWN	None	8140	None	None	5001	109668	1	None	NTG, KIAA0567, FLJ12460, NPG, MGM1
LRG_34	CASP8	LRG_34	LRG_34t2	LRG_gene	KNOWN	None	1509	None	None	4986	59254	1	None	MCH5, MACH, FLICE, Casp-8
LRG_34	CASP8	LRG_34	LRG_34t1	LRG_gene	KNOWN	None	1509	None	None	4986	59254	1	None	MCH5, MACH, FLICE, Casp-8
LRG_343	TERT	LRG_343	LRG_343t1	LRG_gene	KNOWN	None	11730	None	None	5001	46881	1	None	TRT, TP2, TCS1, hEST2, EST2
LRG_345	NOP10	LRG_345	LRG_345t1	LRG_gene	KNOWN	None	14378	None	None	5001	6446	1	NOLA3	NOP10P, MGC70651
LRG_346	NHP2	LRG_346	LRG_346t1	LRG_gene	KNOWN	None	14377	None	None	5001	9498	1	NOLA2	FLJ20479
LRG_348	CR2	LRG_348	LRG_348t1	LRG_gene	KNOWN	None	2336	None	None	5001	40596	1	None	CD21
LRG_35	CD19	LRG_35	LRG_35t1	LRG_gene	KNOWN	None	1633	None	None	5001	12409	1	None	None
LRG_350	COLEC11	LRG_350	LRG_350t1	LRG_gene	KNOWN	None	17213	None	None	5001	54813	1	None	MGC3279
LRG_352	USB1	LRG_352	LRG_352t1	LRG_gene	KNOWN	None	25792	None	None	5001	25251	1	C16orf57	FLJ13154, HVSL1, Mpn1
LRG_353	MAGT1	LRG_353	LRG_353t1	LRG_gene	KNOWN	None	28880	None	None	5001	74205	1	None	DKFZp564K142, IAP, OST3B, MRX95
LRG_354	ITCH	LRG_354	LRG_354t1	LRG_gene	KNOWN	None	13890	None	None	5001	153136	1	None	AIP4
LRG_356	IL17F	LRG_356	LRG_356t1	LRG_gene	KNOWN	None	16404	None	None	5001	12815	1	None	IL-17F, ML-1, ML1
LRG_357	CD27	LRG_357	LRG_357t1	LRG_gene	KNOWN	None	11922	None	None	5001	11834	1	TNFRSF7	S152, Tp55
LRG_358	TICAM1	LRG_358	LRG_358t1	LRG_gene	KNOWN	None	18348	None	None	5001	20819	1	None	TRIF, TICAM-1, MGC35334, PRVTIRB
LRG_359	AARS	LRG_359	LRG_359t1	LRG_gene	KNOWN	None	20	None	None	5001	42116	1	None	None
LRG_36	CD247	LRG_36	LRG_36t1	LRG_gene	KNOWN	None	1677	None	None	5000	92970	1	CD3Z	CD3H, CD3Q
LRG_361	CCT5	LRG_361	LRG_361t1	LRG_gene	KNOWN	None	1618	None	None	5001	21220	1	None	KIAA0098
LRG_362	DNMT1	LRG_362	LRG_362t1	LRG_gene	KNOWN	None	2976	None	None	41208	102941	1	DNMT	MCMT, CXXC9
LRG_363	FAM134B	LRG_363	LRG_363t1	LRG_gene	KNOWN	None	25964	None	None	4952	148972	1	None	FLJ20152
LRG_364	FBLN5	LRG_364	LRG_364t1	LRG_gene	KNOWN	None	3602	None	None	5001	83292	1	None	EVEC, UP50, DANCE, ARMD3
LRG_365	HK1	LRG_365	LRG_365t1	LRG_gene	KNOWN	None	4922	None	None	5001	136883	1	None	None
LRG_366	KARS	LRG_366	LRG_366t1	LRG_gene	KNOWN	None	6215	None	None	5001	24964	1	DFNB89	KARS2, KARS1
LRG_368	MED25	LRG_368	LRG_368t1	LRG_gene	KNOWN	None	28845	None	None	5001	23702	1	None	ARC92, ACID1, TCBAP0758, DKFZp434K0512
LRG_369	SCN9A	LRG_369	LRG_369t1	LRG_gene	KNOWN	None	10597	None	None	5001	185803	1	None	Nav1.7, PN1, NE-NA, NENA, ETHA
LRG_37	CD3D	LRG_37	LRG_37t1	LRG_gene	KNOWN	None	1673	None	None	5001	8671	1	T3D	None
LRG_371	SPTLC2	LRG_371	LRG_371t1	LRG_gene	KNOWN	None	11278	None	None	5001	115771	1	None	KIAA0526, LCB2, LCB2A, hLCB2a
LRG_372	TRPV4	LRG_372	LRG_372t1	LRG_gene	KNOWN	None	18083	None	None	5001	55321	1	None	OTRPC4, TRP12, VROAC, VRL-2, VR-OAC, CMT2C
LRG_373	LRSAM1	LRG_373	LRG_373t1	LRG_gene	KNOWN	None	25135	None	None	5001	57016	1	None	FLJ31641
LRG_374	WIPF1	LRG_374	LRG_374t1	LRG_gene	KNOWN	None	12736	None	None	5001	128326	1	WASPIP	WIP
LRG_375	WRAP53	LRG_375	LRG_375t1	LRG_gene	KNOWN	None	25522	None	None	7279	22432	1	WDR79	FLJ10385, TCAB1
LRG_376	PLCG2	LRG_376	LRG_376t1	LRG_gene	KNOWN	None	9066	None	None	45198	224198	1	None	None
LRG_377	ABCC9	LRG_377	LRG_377t2	LRG_gene	KNOWN	None	60	None	None	5001	136521	1	None	SUR2, CMD1O
LRG_377	ABCC9	LRG_377	LRG_377t1	LRG_gene	KNOWN	None	60	None	None	5001	144306	1	None	SUR2, CMD1O
LRG_378	TNNC1	LRG_378	LRG_378t1	LRG_gene	KNOWN	None	11943	None	None	5001	7951	1	TNNC	None
LRG_379	ANKRD1	LRG_379	LRG_379t1	LRG_gene	KNOWN	None	15819	None	None	5001	14176	1	None	C-193, ALRP, CARP, CVARP, MCARP
LRG_38	CD3E	LRG_38	LRG_38t1	LRG_gene	KNOWN	None	1674	None	None	5001	16596	1	None	None
LRG_380	DES	LRG_380	LRG_380t1	LRG_gene	KNOWN	None	2770	None	None	5001	13363	1	None	CMD1I, CSM1, CSM2
LRG_382	RBM20	LRG_382	LRG_382t1	LRG_gene	KNOWN	None	27424	None	None	5001	200073	1	None	None
LRG_383	VCL	LRG_383	LRG_383t1	LRG_gene	KNOWN	None	12665	None	None	5001	127047	1	None	None
LRG_384	MYH7	LRG_384	LRG_384t1	LRG_gene	KNOWN	None	7577	None	None	5001	27924	1	CMH1, MPD1	CMD1S
LRG_386	MYBPC3	LRG_386	LRG_386t1	LRG_gene	KNOWN	None	7551	None	None	5001	26297	1	CMH4	MYBP-C, FHC
LRG_388	ACTC1	LRG_388	LRG_388t1	LRG_gene	KNOWN	None	143	None	None	5001	12631	1	ACTC	CMD1R
LRG_389	MYH6	LRG_389	LRG_389t1	LRG_gene	KNOWN	None	7576	None	None	5001	31288	1	None	None
LRG_39	CD3G	LRG_39	LRG_39t1	LRG_gene	KNOWN	None	1675	None	None	5001	14439	1	None	None
LRG_390	PLN	LRG_390	LRG_390t1	LRG_gene	KNOWN	None	9080	None	None	5001	17146	1	PLB	CMD1P
LRG_391	TTN	LRG_391	LRG_391t2	LRG_gene	KNOWN	None	12403	None	None	28380	91398	1	CMD1G	CMPD4, FLJ32040, TMD, CMH9, LGMD2J, MYLK5
LRG_391	TTN	LRG_391	LRG_391t1	LRG_gene	KNOWN	None	12403	None	None	28380	309814	1	CMD1G	CMPD4, FLJ32040, TMD, CMH9, LGMD2J, MYLK5
LRG_392	MYLK2	LRG_392	LRG_392t1	LRG_gene	KNOWN	None	16243	None	None	5001	20323	1	None	skMLCK, KMLC, MLCK2
LRG_393	MYL2	LRG_393	LRG_393t1	LRG_gene	KNOWN	None	7583	None	None	4978	14759	1	None	CMH10
LRG_394	JPH2	LRG_394	LRG_394t1	LRG_gene	KNOWN	None	14202	None	None	5001	80882	1	None	JP-2
LRG_4	CRTAP	LRG_4	LRG_4t1	LRG_gene	KNOWN	None	2379	None	None	5001	38816	1	None	CASP, LEPREL3
LRG_40	CD40	LRG_40	LRG_40t1	LRG_gene	KNOWN	None	11919	None	None	5001	16479	1	TNFRSF5	p50, Bp50
LRG_403	BMP10	LRG_403	LRG_403t1	LRG_gene	KNOWN	None	20869	None	None	5001	11037	1	None	None
LRG_404	CASQ2	LRG_404	LRG_404t1	LRG_gene	KNOWN	None	1513	None	None	5001	73803	1	None	PDIB2
LRG_406	COX15	LRG_406	LRG_406t2	LRG_gene	KNOWN	None	2263	None	None	5001	28919	1	None	None
LRG_406	COX15	LRG_406	LRG_406t1	LRG_gene	KNOWN	None	2263	None	None	5001	28919	1	None	None
LRG_408	CTF1	LRG_408	LRG_408t1	LRG_gene	KNOWN	None	2499	None	None	5001	11954	1	None	CT-1, CT1
LRG_409	LAMA2	LRG_409	LRG_409t1	LRG_gene	KNOWN	None	6482	None	None	5001	638426	1	LAMM	None
LRG_41	CD59	LRG_41	LRG_41t1	LRG_gene	KNOWN	None	1689	None	None	5000	38469	1	MIC11, MIN1, MSK21, MIN2, MIN3	16.3A5, EJ16, EJ30, EL32, G344, p18-20
LRG_410	MYPN	LRG_410	LRG_410t1	LRG_gene	KNOWN	None	23246	None	None	8317	110901	1	None	MYOP
LRG_411	NEBL	LRG_411	LRG_411t2	LRG_gene	KNOWN	None	16932	None	None	281586	399215	1	None	None
LRG_411	NEBL	LRG_411	LRG_411t1	LRG_gene	KNOWN	None	16932	None	None	5001	399215	1	None	None
LRG_413	RAF1	LRG_413	LRG_413t1	LRG_gene	KNOWN	None	9829	None	None	4979	85579	1	None	Raf-1, c-Raf, CRAF
LRG_414	SRI	LRG_414	LRG_414t1	LRG_gene	KNOWN	None	11292	None	None	11910	26877	1	None	None
LRG_415	SYNM	LRG_415	LRG_415t1	LRG_gene	KNOWN	None	24466	None	None	11867	42382	1	DMN	KIAA0353, SYN
LRG_417	TXNRD2	LRG_417	LRG_417t1	LRG_gene	KNOWN	None	18155	None	None	5001	71320	1	None	TR, TRXR2, TR3
LRG_419	GPD1L	LRG_419	LRG_419t1	LRG_gene	KNOWN	None	28956	None	None	5001	67205	1	None	KIAA0089
LRG_42	CD79A	LRG_42	LRG_42t1	LRG_gene	KNOWN	None	1698	None	None	5001	9250	1	IGA	MB-1
LRG_421	SCN3B	LRG_421	LRG_421t1	LRG_gene	KNOWN	None	20665	None	None	5001	30421	1	None	HSA243396
LRG_422	CALR3	LRG_422	LRG_422t1	LRG_gene	KNOWN	None	20407	None	None	137013	154148	1	None	CRT2, FLJ25355, MGC26577, CT93
LRG_424	ADORA3	LRG_424	LRG_424t1	LRG_gene	KNOWN	None	268	None	None	64855	69547	1	None	AD026
LRG_426	MYOM1	LRG_426	LRG_426t1	LRG_gene	KNOWN	None	7613	None	None	5001	158302	1	None	None
LRG_43	CD79B	LRG_43	LRG_43t1	LRG_gene	KNOWN	None	1699	None	None	5001	8607	1	IGB	B29
LRG_437	CACNA2D1	LRG_437	LRG_437t1	LRG_gene	KNOWN	None	1399	None	None	5001	498614	1	CACNL2A, CACNA2, MHS3	None
LRG_439	KCNE3	LRG_439	LRG_439t1	LRG_gene	KNOWN	None	6243	None	None	5001	17715	1	None	MiRP2, HOKPP
LRG_44	CD8A	LRG_44	LRG_44t1	LRG_gene	KNOWN	None	1706	None	None	21683	28792	1	CD8	None
LRG_440	CSRP3	LRG_440	LRG_440t1	LRG_gene	KNOWN	None	2472	None	None	13532	33543	1	None	CLP, MLP, CMD1M
LRG_442	NEXN	LRG_442	LRG_442t1	LRG_gene	KNOWN	None	29557	None	None	5001	60381	1	None	nexilin, NELIN
LRG_444	ILK	LRG_444	LRG_444t1	LRG_gene	KNOWN	None	6040	None	None	5001	12138	1	None	None
LRG_445	KCND3	LRG_445	LRG_445t1	LRG_gene	KNOWN	None	6239	None	None	5001	218324	1	None	Kv4.3, KSHIVB
LRG_446	TCF21	LRG_446	LRG_446t1	LRG_gene	KNOWN	None	11632	None	None	5002	8137	1	None	POD1, bHLHa23
LRG_447	HMGCS2	LRG_447	LRG_447t2	LRG_gene	KNOWN	None	5008	None	None	5001	25937	1	None	None
LRG_447	HMGCS2	LRG_447	LRG_447t1	LRG_gene	KNOWN	None	5008	None	None	5001	25937	1	None	None
LRG_448	ACAD8	LRG_448	LRG_448t1	LRG_gene	KNOWN	None	87	None	None	5001	17316	1	None	None
LRG_45	CEBPE	LRG_45	LRG_45t1	LRG_gene	KNOWN	None	1836	None	None	5001	6960	1	None	CRP1
LRG_450	HSD17B10	LRG_450	LRG_450t2	LRG_gene	KNOWN	None	4800	None	None	5001	8118	1	HADH2, MRXS10	ERAB, MHBD, 17b-HSD10, ABAD, SDR5C1, MRPP2, CAMR
LRG_450	HSD17B10	LRG_450	LRG_450t1	LRG_gene	KNOWN	None	4800	None	None	5001	8118	1	HADH2, MRXS10	ERAB, MHBD, 17b-HSD10, ABAD, SDR5C1, MRPP2, CAMR
LRG_451	ACADSB	LRG_451	LRG_451t1	LRG_gene	KNOWN	None	91	None	None	5001	54378	1	None	SBCAD, ACAD7
LRG_452	FOXD4	LRG_452	LRG_452t1	LRG_gene	KNOWN	None	3805	None	None	5001	7187	1	FKHL9	FREAC5, FOXD4a
LRG_454	FKBP14	LRG_454	LRG_454t1	LRG_gene	KNOWN	None	18625	None	None	5001	21219	1	None	FLJ20731, FKBP22
LRG_455	ROGDI	LRG_455	LRG_455t1	LRG_gene	KNOWN	None	29478	None	None	5001	10989	1	None	FLJ22386
LRG_456	CEBPA	LRG_456	LRG_456t1	LRG_gene	KNOWN	None	1833	None	None	5001	7591	1	CEBP	C/EBP-alpha
LRG_457	FLT3	LRG_457	LRG_457t1	LRG_gene	KNOWN	None	3765	None	None	4977	102295	1	None	STK1, FLK2, CD135
LRG_458	NPM1	LRG_458	LRG_458t1	LRG_gene	KNOWN	None	7910	None	None	5001	28181	1	None	B23, NPM
LRG_46	CFD	LRG_46	LRG_46t1	LRG_gene	KNOWN	None	2771	None	None	5001	8960	1	DF, PFD	ADN
LRG_460	AIP	LRG_460	LRG_460t1	LRG_gene	KNOWN	None	358	None	None	5001	13075	1	None	XAP2, ARA9, FKBP16
LRG_461	ERCC2	LRG_461	LRG_461t1	LRG_gene	KNOWN	None	3434	None	None	5001	24197	1	XPD	MAG, EM9, MGC102762, MGC126218, MGC126219
LRG_463	ERCC4	LRG_463	LRG_463t1	LRG_gene	KNOWN	None	3436	None	None	5001	37192	1	XPF	RAD1, FANCQ
LRG_464	ERCC5	LRG_464	LRG_464t1	LRG_gene	KNOWN	None	3437	None	None	5018	35178	1	ERCM2, XPGC	None
LRG_465	ERCC6	LRG_465	LRG_465t1	LRG_gene	KNOWN	None	3438	None	None	5001	87657	1	CKN2	CSB, RAD26, ARMD5
LRG_466	ERCC8	LRG_466	LRG_466t1	LRG_gene	KNOWN	None	3439	None	None	5001	76247	1	CKN1	CSA
LRG_467	DDB2	LRG_467	LRG_467t1	LRG_gene	KNOWN	None	2718	None	None	5001	29277	1	None	DDBB, UV-DDB2, FLJ34321
LRG_469	GTF2H5	LRG_469	LRG_469t1	LRG_gene	KNOWN	None	21157	None	None	5001	35998	1	C6orf175, TTD	FLJ30544, bA120J8.2, TTD-A, TFB5, TFIIH
LRG_47	CFH	LRG_47	LRG_47t1	LRG_gene	KNOWN	None	4883	None	None	4868	100494	1	HF, HF1, HF2	HUS, FHL1, ARMS1, ARMD4
LRG_470	POLH	LRG_470	LRG_470t1	LRG_gene	KNOWN	None	9181	None	None	5001	49383	1	None	RAD30A, XP-V
LRG_471	XPA	LRG_471	LRG_471t1	LRG_gene	KNOWN	None	12814	None	None	5001	27501	1	None	XPAC, XP1
LRG_472	XPC	LRG_472	LRG_472t1	LRG_gene	KNOWN	None	12816	None	None	5001	38526	1	None	XPCC, RAD4
LRG_473	COL6A3	LRG_473	LRG_473t1	LRG_gene	KNOWN	None	2213	None	None	5001	95196	1	None	None
LRG_474	DDB1	LRG_474	LRG_474t1	LRG_gene	KNOWN	None	2717	None	None	14385	48150	1	None	XPE
LRG_475	COL6A1	LRG_475	LRG_475t1	LRG_gene	KNOWN	None	2211	None	None	5001	28301	1	None	None
LRG_476	COL6A2	LRG_476	LRG_476t1	LRG_gene	KNOWN	None	2212	None	None	5001	39731	1	None	None
LRG_48	CFI	LRG_48	LRG_48t1	LRG_gene	KNOWN	None	5394	None	None	4807	66294	1	IF	FI, C3b-INA, KAF
LRG_482	RUNX1	LRG_482	LRG_482t1	LRG_gene	KNOWN	None	10471	None	None	940414	1201911	1	AML1, CBFA2	PEBP2A2, AMLCR1
LRG_488	ALK	LRG_488	LRG_488t1	LRG_gene	KNOWN	None	427	None	None	5001	733793	1	None	CD246
LRG_49	CIITA	LRG_49	LRG_49t1	LRG_gene	KNOWN	None	7067	None	None	5001	52786	1	MHC2TA	C2TA, NLRA
LRG_490	CDK4	LRG_490	LRG_490t1	LRG_gene	KNOWN	None	1773	None	None	5000	9162	1	None	PSK-J3
LRG_491	CYLD	LRG_491	LRG_491t1	LRG_gene	KNOWN	None	2584	None	None	5001	64886	1	CYLD1	KIAA0849, USPL2
LRG_492	DICER1	LRG_492	LRG_492t1	LRG_gene	KNOWN	None	17098	None	None	5001	76195	1	None	Dicer, KIAA0928, K12H4.8-LIKE, HERNA
LRG_493	EXT1	LRG_493	LRG_493t1	LRG_gene	KNOWN	None	3512	None	None	5001	317457	1	LGCR, LGS	ttv
LRG_495	FANCA	LRG_495	LRG_495t1	LRG_gene	KNOWN	None	3582	None	None	5001	84107	1	FACA, FANCH	FAA, FA-H, FAH
LRG_496	FANCB	LRG_496	LRG_496t1	LRG_gene	KNOWN	None	3583	None	None	5001	34656	1	None	FAB, FLJ34064, FAAP95
LRG_497	FANCC	LRG_497	LRG_497t1	LRG_gene	KNOWN	None	3584	None	None	5001	223656	1	FACC	FAC, FA3
LRG_498	FANCE	LRG_498	LRG_498t1	LRG_gene	KNOWN	None	3586	None	None	5001	19744	1	FACE	FAE
LRG_499	FANCG	LRG_499	LRG_499t1	LRG_gene	KNOWN	None	3588	None	None	5001	11179	1	XRCC9	FAG
LRG_5	LEPRE1	LRG_5	LRG_5t1	LRG_gene	KNOWN	None	19316	None	None	5001	25750	1	None	GROS1, P3H1, LEPRECAN, MGC117314
LRG_5	LEPRE1	LRG_5	LRG_5t2	LRG_gene	KNOWN	None	19316	None	None	5001	25750	1	None	GROS1, P3H1, LEPRECAN, MGC117314
LRG_50	CTSC	LRG_50	LRG_50t1	LRG_gene	KNOWN	None	2528	None	None	5001	49182	1	PLS, PALS	DPP1
LRG_500	FANCI	LRG_500	LRG_500t1	LRG_gene	KNOWN	None	25568	None	None	5001	78169	1	KIAA1794	FLJ10719
LRG_502	FANCM	LRG_502	LRG_502t1	LRG_gene	KNOWN	None	23168	None	None	5001	69958	1	KIAA1596	FAAP250
LRG_503	SLX4	LRG_503	LRG_503t1	LRG_gene	KNOWN	None	23845	None	None	5001	35404	1	BTBD12	KIAA1784, KIAA1987, FANCP
LRG_504	FH	LRG_504	LRG_504t1	LRG_gene	KNOWN	None	3700	None	None	4970	27198	1	None	fumarase
LRG_505	GPC3	LRG_505	LRG_505t1	LRG_gene	KNOWN	None	4451	None	None	4994	454894	1	SDYS	OCI-5, SGBS, SGBS1, SGB, DGSX
LRG_507	CDC73	LRG_507	LRG_507t1	LRG_gene	KNOWN	None	16783	None	None	5001	137858	1	C1orf28, HRPT2	parafibromin
LRG_51	CXCR4	LRG_51	LRG_51t1	LRG_gene	KNOWN	None	2561	None	None	5001	8807	1	None	LESTR, NPY3R, HM89, NPYY3R, D2S201E, fusin, HSY3RR, NPYR, CD184
LRG_510	MPL	LRG_510	LRG_510t1	LRG_gene	KNOWN	None	7217	None	None	5001	21661	1	None	CD110, TPOR
LRG_511	NF2	LRG_511	LRG_511t1	LRG_gene	KNOWN	None	7773	None	None	5001	100045	1	None	merlin
LRG_511	NF2	LRG_511	LRG_511t2	LRG_gene	KNOWN	None	7773	None	None	5001	100045	1	None	merlin
LRG_512	NSD1	LRG_512	LRG_512t1	LRG_gene	KNOWN	None	14234	None	None	5754	172135	1	STO	ARA267, FLJ22263, KMT3B
LRG_513	PHOX2B	LRG_513	LRG_513t1	LRG_gene	KNOWN	None	9143	None	None	5001	9889	1	PMX2B	Phox2b, NBPhox
LRG_517	RB1	LRG_517	LRG_517t1	LRG_gene	KNOWN	None	9884	None	None	5001	183144	1	OSRC	RB
LRG_519	SDHAF2	LRG_519	LRG_519t1	LRG_gene	KNOWN	None	26034	None	None	5001	21643	1	PGL2, C11orf79	FLJ20487, SDH5
LRG_52	CYBA	LRG_52	LRG_52t1	LRG_gene	KNOWN	None	2577	None	None	5001	12761	1	None	p22-PHOX
LRG_520	SMARCB1	LRG_520	LRG_520t1	LRG_gene	KNOWN	None	11103	None	None	5001	52556	1	SNF5L1	BAF47, Ini1, Snr1, hSNFS, Sfh1p, RDT
LRG_521	SUFU	LRG_521	LRG_521t1	LRG_gene	KNOWN	None	16466	None	None	5001	134496	1	None	SUFUH, SUFUXL, PRO1280
LRG_522	HNF1A	LRG_522	LRG_522t1	LRG_gene	KNOWN	None	11621	None	None	5001	28767	1	MODY3, TCF1	HNF1, LFB1
LRG_523	TSHR	LRG_523	LRG_523t1	LRG_gene	KNOWN	None	12373	None	None	5001	195778	1	None	LGR3
LRG_524	WRN	LRG_524	LRG_524t1	LRG_gene	KNOWN	None	12791	None	None	5001	145500	1	None	RECQL2, RECQ3
LRG_526	CEP57	LRG_526	LRG_526t1	LRG_gene	KNOWN	None	30794	None	None	5018	47230	1	None	Translokin, TSP57, KIAA0092
LRG_527	FANCF	LRG_527	LRG_527t1	LRG_gene	KNOWN	None	3587	None	None	5001	8309	1	None	FAF
LRG_53	CYBB	LRG_53	LRG_53t1	LRG_gene	KNOWN	None	2578	None	None	5001	38445	1	CGD	GP91-PHOX, NOX2
LRG_535	STK4	LRG_535	LRG_535t1	LRG_gene	KNOWN	None	11408	None	None	5001	118475	1	None	MST1, KRS2, YSK3
LRG_54	DCLRE1C	LRG_54	LRG_54t1	LRG_gene	KNOWN	None	17642	None	None	5001	52225	1	SCIDA	ARTEMIS, FLJ11360, SNM1C, A-SCID
LRG_55	DKC1	LRG_55	LRG_55t1	LRG_gene	KNOWN	None	2890	None	None	5001	19934	1	DKC	XAP101, dyskerin, NAP57, NOLA4
LRG_56	DNMT3B	LRG_56	LRG_56t1	LRG_gene	KNOWN	None	2979	None	None	5001	51972	1	None	None
LRG_57	ELANE	LRG_57	LRG_57t1	LRG_gene	KNOWN	None	3309	None	None	5001	8956	1	ELA2	NE, HNE, HLE
LRG_58	FASLG	LRG_58	LRG_58t1	LRG_gene	KNOWN	None	11936	None	None	5001	12829	1	APT1LG1, TNFSF6	FasL, CD178
LRG_59	FCGR1A	LRG_59	LRG_59t1	LRG_gene	KNOWN	None	3613	None	None	4963	14787	1	None	CD64, CD64A
LRG_6	ATP1A2	LRG_6	LRG_6t1	LRG_gene	KNOWN	None	800	None	None	5001	32834	1	MHP2	FHM2
LRG_60	FCGR3A	LRG_60	LRG_60t1	LRG_gene	KNOWN	None	3619	None	None	5001	13865	1	FCGR3, FCG3	CD16, CD16a
LRG_61	FOXN1	LRG_61	LRG_61t1	LRG_gene	KNOWN	None	12765	None	None	5001	19217	1	WHN, RONU	FKHL20
LRG_62	FOXP3	LRG_62	LRG_62t1	LRG_gene	KNOWN	None	6106	None	None	5001	19392	1	IPEX	JM2, XPID, AIID, PIDX, DIETER, SCURFIN
LRG_63	GFI1	LRG_63	LRG_63t1	LRG_gene	KNOWN	None	4237	None	None	5001	17116	1	ZNF163	GFI1A, GFI-1
LRG_64	HAX1	LRG_64	LRG_64t1	LRG_gene	KNOWN	None	16915	None	None	5001	8313	1	None	HS1BP1, HCLSBP1
LRG_65	ICOS	LRG_65	LRG_65t1	LRG_gene	KNOWN	None	5351	None	None	4969	29798	1	None	AILIM, CD278
LRG_66	IFNGR1	LRG_66	LRG_66t1	LRG_gene	KNOWN	None	5439	None	None	5001	26947	1	IFNGR	CD119
LRG_69	IGLL1	LRG_69	LRG_69t1	LRG_gene	KNOWN	None	5870	None	None	5001	12184	1	IGLL	IGVPB, IGL5, 14.1, CD179B
LRG_7	CACNA1A	LRG_7	LRG_7t1	LRG_gene	KNOWN	None	1388	None	None	5001	305019	1	CACNL1A4, SCA6, MHP1, MHP	Cav2.1, EA2, APCA, HPCA, FHM
LRG_70	IKBKG	LRG_70	LRG_70t1	LRG_gene	KNOWN	None	5961	None	None	10604	27803	1	IP2, IP1	IKK-gamma, NEMO, Fip3p, FIP-3, FIP3, ZC2HC9
LRG_71	IL12B	LRG_71	LRG_71t1	LRG_gene	KNOWN	None	5970	None	None	5001	20691	1	NKSF2	CLMF, IL-12B, NKSF, CLMF2
LRG_73	IL2RA	LRG_73	LRG_73t1	LRG_gene	KNOWN	None	6008	None	None	4940	56616	1	IL2R	CD25
LRG_74	IL7R	LRG_74	LRG_74t1	LRG_gene	KNOWN	None	6024	None	None	5001	24934	1	None	CD127
LRG_75	IRAK4	LRG_75	LRG_75t1	LRG_gene	KNOWN	None	17967	None	None	5001	35600	1	None	NY-REN-64
LRG_76	ITGB2	LRG_76	LRG_76t1	LRG_gene	KNOWN	None	6155	None	None	12789	47886	1	CD18, MFI7	LFA-1, MAC-1
LRG_77	JAK3	LRG_77	LRG_77t1	LRG_gene	KNOWN	None	6193	None	None	4960	28210	1	None	L-JAK, JAKL, LJAK, JAK3_HUMAN, JAK-3
LRG_79	LIG4	LRG_79	LRG_79t1	LRG_gene	KNOWN	None	6601	None	None	5753	13093	1	None	None
LRG_8	SCN1A	LRG_8	LRG_8t1	LRG_gene	KNOWN	None	10585	None	None	5001	89480	1	SCN1, FEB3	Nav1.1, GEFSP2, HBSCI, NAC1, SMEI
LRG_80	LRRC8A	LRG_80	LRG_80t1	LRG_gene	KNOWN	None	19027	None	None	5001	40928	1	LRRC8	KIAA1437, FLJ10337
LRG_81	LAMTOR2	LRG_81	LRG_81t1	LRG_gene	KNOWN	None	29796	None	None	5001	8785	1	ROBLD3	MAPBPIP, MAPKSP1AP, p14, ENDAP, Ragulator2
LRG_83	MLPH	LRG_83	LRG_83t1	LRG_gene	KNOWN	None	29643	None	None	4949	73032	1	None	l1Rk3, l(1)-3Rk, Slac-2a, ln, exophilin-3
LRG_84	MPO	LRG_84	LRG_84t1	LRG_gene	KNOWN	None	7218	None	None	5001	16080	1	None	None
LRG_85	MRE11A	LRG_85	LRG_85t1	LRG_gene	KNOWN	None	7230	None	None	5001	81575	1	MRE11	ATLD
LRG_86	MYO5A	LRG_86	LRG_86t1	LRG_gene	KNOWN	None	7602	None	None	5001	226768	1	MYH12	MYO5, GS1, MYR12
LRG_88	NCF2	LRG_88	LRG_88t1	LRG_gene	KNOWN	None	7661	None	None	4978	40020	1	None	p67phox, NOXA2
LRG_89	NFKBIA	LRG_89	LRG_89t1	LRG_gene	KNOWN	None	7797	None	None	4985	8229	1	NFKBI	IKBA, MAD-3, IkappaBalpha
LRG_90	NHEJ1	LRG_90	LRG_90t1	LRG_gene	KNOWN	None	25737	None	None	5001	90542	1	None	Cernunnos, XLF, FLJ12610
LRG_91	PNP	LRG_91	LRG_91t1	LRG_gene	KNOWN	None	7892	None	None	4997	13624	1	NP	PUNP
LRG_92	NRAS	LRG_92	LRG_92t1	LRG_gene	KNOWN	None	7989	None	None	5001	17438	1	None	N-ras
LRG_93	ORAI1	LRG_93	LRG_93t1	LRG_gene	KNOWN	None	25896	None	None	4981	20466	1	TMEM142A	FLJ14466, CRACM1
LRG_94	PRF1	LRG_94	LRG_94t1	LRG_gene	KNOWN	None	9360	None	None	5001	10428	1	None	PFP, P1, HPLH2
LRG_96	RAB27A	LRG_96	LRG_96t1	LRG_gene	KNOWN	None	9766	None	None	5001	91210	1	None	RAB27, RAM, GS2, HsT18676
LRG_97	RAC2	LRG_97	LRG_97t1	LRG_gene	KNOWN	None	9802	None	None	5001	23996	1	None	EN-7
LRG_98	RAG1	LRG_98	LRG_98t1	LRG_gene	KNOWN	None	9831	None	None	5001	16750	1	None	RNF74, MGC43321
LRG_99	RAG2	LRG_99	LRG_99t1	LRG_gene	KNOWN	None	9832	None	None	4975	11294	1	None	None
LRG_11	None	LRG_11	LRG_11t1	LRG_gene	NOVEL	None	None	None	None	24359	31740	1	None	None
LRG_11	None	LRG_11	LRG_11t2	LRG_gene	NOVEL	None	None	None	None	5001	31740	1	None	None
LRG_130	None	LRG_130	LRG_130t3	LRG_gene	NOVEL	None	None	None	None	20001	158719	1	None	None
LRG_130	None	LRG_130	LRG_130t2	LRG_gene	NOVEL	None	None	None	None	50339	158719	1	None	None
LRG_130	None	LRG_130	LRG_130t1	LRG_gene	NOVEL	None	None	None	None	50339	158719	1	None	None
LRG_254	None	LRG_254	LRG_254t3	LRG_gene	NOVEL	None	None	None	None	37098	62515	1	None	None
LRG_254	None	LRG_254	LRG_254t2	LRG_gene	NOVEL	None	None	None	None	37098	62515	1	None	None
LRG_254	None	LRG_254	LRG_254t1	LRG_gene	NOVEL	None	None	None	None	37098	60294	1	None	None
LRG_270	None	LRG_270	LRG_270t2	LRG_gene	NOVEL	None	None	None	None	6221	113069	1	None	None
LRG_270	None	LRG_270	LRG_270t1	LRG_gene	NOVEL	None	None	None	None	24245	113069	1	None	None
LRG_283	None	LRG_283	LRG_283t4	LRG_gene	NOVEL	None	None	None	None	110125	210670	1	None	None
LRG_283	None	LRG_283	LRG_283t2	LRG_gene	NOVEL	None	None	None	None	5088	214858	1	None	None
LRG_283	None	LRG_283	LRG_283t3	LRG_gene	NOVEL	None	None	None	None	5088	221929	1	None	None
LRG_283	None	LRG_283	LRG_283t1	LRG_gene	NOVEL	None	None	None	None	5088	219864	1	None	None
LRG_295	None	LRG_295	LRG_295t2	LRG_gene	NOVEL	None	None	None	None	5001	18766	1	None	None
LRG_295	None	LRG_295	LRG_295t1	LRG_gene	NOVEL	None	None	None	None	9658	18766	1	None	None
LRG_327	None	LRG_327	LRG_327t2	LRG_gene	NOVEL	None	None	None	None	5001	570658	1	None	None
LRG_327	None	LRG_327	LRG_327t1	LRG_gene	NOVEL	None	None	None	None	236547	570658	1	None	None
LRG_349	None	LRG_349	LRG_349t3	LRG_gene	NOVEL	None	None	None	None	5001	62941	1	None	None
LRG_349	None	LRG_349	LRG_349t2	LRG_gene	NOVEL	None	None	None	None	5001	80938	1	None	None
LRG_349	None	LRG_349	LRG_349t1	LRG_gene	NOVEL	None	None	None	None	5001	50669	1	None	None
LRG_385	None	LRG_385	LRG_385t2	LRG_gene	NOVEL	None	None	None	None	5001	36490	1	None	None
LRG_385	None	LRG_385	LRG_385t1	LRG_gene	NOVEL	None	None	None	None	5106	72505	1	None	None
LRG_405	None	LRG_405	LRG_405t2	LRG_gene	NOVEL	None	None	None	None	5001	153373	1	None	None
LRG_405	None	LRG_405	LRG_405t1	LRG_gene	NOVEL	None	None	None	None	5434	153373	1	None	None
LRG_433	None	LRG_433	LRG_433t2	LRG_gene	NOVEL	None	None	None	None	5001	151695	1	None	None
LRG_433	None	LRG_433	LRG_433t1	LRG_gene	NOVEL	None	None	None	None	5001	5843	1	None	None
